	1	D;D;D;D	0.76494	0.999;0.998;0.999;0.999	D;D;D;D	0.91635	0.997;0.995;0.998;0.999	D	0.85446	0.1158	10	0.87932	D	0	-19.0221	20.5948	0.99439	0.0:1.0:0.0:0.0	.	521;521;521;521	E7EUA5;F5GWS0;B7ZLX3;Q7Z460	.;.;.;CLAP1_HUMAN	T	521;521;521;521;290;521;289	ENSP00000263710:A521T;ENSP00000389372:A521T;ENSP00000380717:A521T;ENSP00000441625:A521T;ENSP00000441770:A290T;ENSP00000386442:A521T;ENSP00000438620:A289T	ENSP00000263710:A521T	A	-	1	0	CLASP1	121923129	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	7.818000	0.86416	2.873000	0.98535	0.563000	0.77884	GCA		0.493	CLASP1-201	KNOWN	basic	protein_coding	protein_coding		NM_015282		T	122206659	C	T	122206659	3	4	567	1	0	0	0	0	1	0	0	0	3456	797	28	2	3203	2	CLASP1	2	122206659	Missense_Mutation	SNP	C	TCGA-DW-7837-01A-11D-2136-08		122206659	120992714	6	33436										
ZNF385B	151126	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	180309603	180309603	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	agcaggtgaggtaaacttacTgctagaatactcgggctccg	12	9	0	2			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr2:180309603T>A	ENST00000410066.1	-	9	1800	c.1197A>T	c.(1195-1197)gcA>gcT	p.A399A	ZNF385B_ENST00000336917.5_Splice_Site_p.A297A|ZNF385B_ENST00000409692.1_Splice_Site_p.A297A|ZNF385B_ENST00000466398.1_5'UTR|ZNF385B_ENST00000409343.1_Splice_Site_p.A323A	NM_152520.4	NP_689733.3	Q569K4	Z385B_HUMAN	zinc finger protein 385B	399	Interaction with p53/TP53.				intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)	nucleus (GO:0005634)	nucleic acid binding (GO:0003676)|p53 binding (GO:0002039)|zinc ion binding (GO:0008270)			breast(1)|kidney(1)|large_intestine(6)|lung(11)|ovary(1)|skin(4)|upper_aerodigestive_tract(2)	26			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)			GTAAACTTACTGCTAGAATAC	0.502																																					Colon(155;204 2491 32774 51842)											0													199	193	195					2																	180309603		2203	4300	6503	SO:0001630	splice_region_variant	151126			AK057999	CCDS33339.1, CCDS46463.1, CCDS46464.1	2q31.3-q32.1	2012-10-05	2007-12-06	2007-12-06	ENSG00000144331	ENSG00000144331			26332	protein-coding gene	gene with protein product		612344	"zinc finger protein 533"	ZNF533		12477932	Standard	NM_152520		Approved	FLJ25270	uc002unn.4	Q569K4	OTTHUMG00000154559	ENST00000410066.1:c.1197+1A>T	2.37:g.180309603T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q49A04|Q6ZMZ7|Q8IY01|Q8N8H2|Q96DK4	Silent	SNP	ENST00000410066.1	37	CCDS33339.1																																																																																				0.502	ZNF385B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335972.1	NM_152520	Silent	A	180309603	T	A	180309603	5	1	567	1	0	0	0	0	0	0	1	0	17889	1594	55	5	226	5	ZNF385B	2	180309603	Splice_Site	SNP	T	TCGA-DW-7837-01A-11D-2136-08	58102944	180309603	62889770	7	33437										
ALPP	250	hgsc.bcm.edu	37	chr2	233244230	233244230	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	tctctgtccccagacatacaAtgtagacaaacatgtgccag	7	12	1	2	rs1130341		TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr2:233244230A>G	ENST00000392027.2	+	4	586	c.317A>G	c.(316-318)aAt>aGt	p.N106S	AC068134.8_ENST00000439072.1_RNA|AC068134.8_ENST00000441266.1_RNA	NM_001632.3	NP_001623.3	P05187	PPB1_HUMAN	alkaline phosphatase, placental	106					dephosphorylation (GO:0016311)	anchored component of membrane (GO:0031225)|cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	alkaline phosphatase activity (GO:0004035)|magnesium ion binding (GO:0000287)|zinc ion binding (GO:0008270)			NS(1)|biliary_tract(1)|endometrium(1)|kidney(4)|large_intestine(2)|liver(1)|lung(10)|ovary(2)	22		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		CAGACATACAATGTAGACAAA	0.577																																																0								A	SER/ASN	1,4405		0,1,2202	56	51	52		317	-0.4	1	2	dbSNP_86	52	0,8600		0,0,4300	no	missense	ALPP	NM_001632.3	46	0,1,6502	GG,GA,AA		0.0,0.0227,0.0077	benign	106/536	233244230	1,13005	2203	4300	6503	SO:0001583	missense	250			M14169	CCDS2490.1	2q37.1	2010-06-24	2010-06-24		ENSG00000163283	ENSG00000163283	3.1.3.1		439	protein-coding gene	gene with protein product	"Regan isozyme"	171800	"alkaline phosphatase, placental (Regan isozyme)"			3001717, 3461452	Standard	XM_005246439		Approved		uc002vsq.3	P05187	OTTHUMG00000133255	ENST00000392027.2:c.317A>G	2.37:g.233244230A>G	ENSP00000375881:p.Asn106Ser	Somatic		WXS	Illumina HiSeq	Phase_I	P05188|P06861|Q53S78|Q96DB7	Missense_Mutation	SNP	ENST00000392027.2	37	CCDS2490.1	.	.	.	.	.	.	.	.	.	.	.	2.668	-0.278125	0.05679	2.27E-4	0.0	ENSG00000163283	ENST00000392027	D	0.95103	-3.61	2.31	-0.39	0.12450	Alkaline phosphatase-like, alpha/beta/alpha (1);Alkaline-phosphatase-like, core domain (1);	0.295720	0.40818	N	0.001001	D	0.83487	0.5265	N	0.12831	0.26	0.29049	N	0.884612	B	0.30889	0.299	B	0.25405	0.06	T	0.75230	-0.3391	10	0.30854	T	0.27	.	6.227	0.20714	0.7126:0.1707:0.1167:0.0	rs1130341;rs3189051;rs17412756	106	P05187	PPB1_HUMAN	S	106	ENSP00000375881:N106S	ENSP00000375881:N106S	N	+	2	0	ALPP	232952474	0.992000	0.36948	0.984000	0.44739	0.510000	0.34073	0.843000	0.27640	-0.220000	0.09988	-0.817000	0.03123	AAT		0.577	ALPP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257032.3	NM_001632		G	233244230	A	G	233244230	3	3	567	1	0	0	0	0	1	0	0	0	548	101	4	3	331	3	ALPP	2	233244230	Missense_Mutation	SNP	A	TCGA-DW-7837-01A-11D-2136-08	52934627	233244230	9955143	8	33438										
USP40	55230	hgsc.bcm.edu	37	chr2	234450984	234450984	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	cactctggagatctttcagaTtcacatctggtttacttttt	6	9	5	2			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr2:234450984T>G	ENST00000427112.2	-	8	1027	c.992A>C	c.(991-993)aAt>aCt	p.N331T	USP40_ENST00000251722.6_Missense_Mutation_p.N331T|USP40_ENST00000450966.1_Missense_Mutation_p.N343T			Q9NVE5	UBP40_HUMAN	ubiquitin specific peptidase 40	331	USP.				ubiquitin-dependent protein catabolic process (GO:0006511)		cysteine-type peptidase activity (GO:0008234)|ubiquitinyl hydrolase activity (GO:0036459)			breast(1)|endometrium(6)|kidney(5)|large_intestine(5)|lung(10)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	30		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0539)		Epithelial(121;1.71e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000407)|Lung(119;0.00277)|LUSC - Lung squamous cell carcinoma(224;0.00646)		ATCTTTCAGATTCACATCTGG	0.358																																																0													120	108	112					2																	234450984		1837	4089	5926	SO:0001583	missense	55230			AK001647	CCDS46547.1	2q37.1	2005-08-08	2005-08-08		ENSG00000085982	ENSG00000085982		"Ubiquitin-specific peptidases"	20069	protein-coding gene	gene with protein product		610570	"ubiquitin specific protease 40"			12838346	Standard	NM_018218		Approved	FLJ10785	uc010zmr.2	Q9NVE5	OTTHUMG00000153199	ENST00000427112.2:c.992A>C	2.37:g.234450984T>G	ENSP00000387898:p.Asn331Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NX38|Q70EL0	Missense_Mutation	SNP	ENST00000427112.2	37	CCDS46547.1	.	.	.	.	.	.	.	.	.	.	T	7.815	0.716608	0.15306	.	.	ENSG00000085982	ENST00000450966;ENST00000251722;ENST00000427112	T;T;T	0.05025	3.51;3.51;3.51	4.76	3.61	0.41365	.	6.476770	0.00166	N	0.000001	T	0.04227	0.0117	N	0.08118	0	0.21220	N	0.999757	B	0.06786	0.001	B	0.09377	0.004	T	0.38993	-0.9635	10	0.15066	T	0.55	.	6.2681	0.20939	0.0:0.0871:0.16:0.753	.	343	Q9NVE5-3	.	T	343;331;331	ENSP00000415434:N343T;ENSP00000251722:N331T;ENSP00000387898:N331T	ENSP00000251722:N331T	N	-	2	0	USP40	234115723	0.007000	0.16637	0.954000	0.39281	0.861000	0.49209	-0.110000	0.10824	0.920000	0.36970	0.460000	0.39030	AAT		0.358	USP40-017	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000397235.1	XM_114294		G	234450984	T	G	234450984	3	3	567	1	0	0	0	0	1	0	0	0	17084	1493	52	5	2811	5	USP40	2	234450984	Missense_Mutation	SNP	T	TCGA-DW-7837-01A-11D-2136-08	1206754	234450984	8748389	9	33439										
C3orf19	51244	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	14695999	14695999	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	aacaagaaaaacttctaaaaGattctggagtttttggaaaa	7	4	2	2			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr3:14695999G>C	ENST00000383794.3	+	2	182	c.109G>C	c.(109-111)Gat>Cat	p.D37H	CCDC174_ENST00000303688.7_Missense_Mutation_p.D37H	NM_016474.4	NP_057558.3	Q6PII3	CC174_HUMAN	coiled-coil domain containing 174	37						cytoplasm (GO:0005737)|nucleus (GO:0005634)											ACTTCTAAAAGATTCTGGAGT	0.299																																																0													26	26	26					3																	14695999		1779	4049	5828	SO:0001583	missense	51244			AF151046	CCDS2620.2	3p25.1	2012-09-20	2012-09-20	2012-09-20	ENSG00000154781	ENSG00000154781			28033	protein-coding gene	gene with protein product			"chromosome 3 open reading frame 19"	C3orf19		11042152	Standard	NM_016474		Approved	FLJ33839	uc003byw.3	Q6PII3	OTTHUMG00000129837	ENST00000383794.3:c.109G>C	3.37:g.14695999G>C	ENSP00000373304:p.Asp37His	Somatic		WXS	Illumina HiSeq	Phase_I	Q96CS5	Missense_Mutation	SNP	ENST00000383794.3	37	CCDS2620.2	.	.	.	.	.	.	.	.	.	.	G	15.54	2.862642	0.51482	.	.	ENSG00000154781	ENST00000383794;ENST00000303688	T;T	0.46063	0.88;0.89	5.58	4.7	0.59300	.	0.057430	0.64402	D	0.000001	T	0.61048	0.2316	M	0.70275	2.135	0.46981	D	0.999278	D	0.89917	1.0	D	0.71184	0.972	T	0.63005	-0.6733	10	0.59425	D	0.04	-12.7651	12.8107	0.57637	0.08:0.0:0.92:0.0	.	37	Q6PII3	CC019_HUMAN	H	37	ENSP00000373304:D37H;ENSP00000302344:D37H	ENSP00000302344:D37H	D	+	1	0	C3orf19	14671003	1.000000	0.71417	1.000000	0.80357	0.974000	0.67602	6.367000	0.73099	2.620000	0.88729	0.491000	0.48974	GAT		0.299	CCDC174-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252077.2	NM_016474		C	14695999	G	C	14695999	3	2	567	1	0	0	0	0	1	0	0	0	2214	942	33	4	115	4	C3orf19	3	14695999	Missense_Mutation	SNP	G	TCGA-DW-7837-01A-11D-2136-08		14695999	183326431	10	33440										
DPH3	285381	hgsc.bcm.edu;bcgsc.ca	37	chr3	16302327	16302327	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	tgggactgtttctccacacaCaaactgatcctaagacagag	8	11	1	3			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr3:16302327C>G	ENST00000488423.1	-	3	288	c.193G>C	c.(193-195)Gtg>Ctg	p.V65L	DPH3_ENST00000383775.4_Missense_Mutation_p.V40L|DPH3_ENST00000285082.4_5'UTR	NM_206831.2	NP_996662.1	Q96FX2	DPH3_HUMAN	diphthamide biosynthesis 3	65					negative regulation of protein secretion (GO:0050709)|peptidyl-diphthamide biosynthetic process from peptidyl-histidine (GO:0017183)|positive regulation of binding (GO:0051099)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)			large_intestine(2)	2						TCTCCACACACAAACTGATCC	0.388																																																0													98	87	91					3																	16302327		2203	4300	6503	SO:0001583	missense	285381			BC010181	CCDS2629.1, CCDS43058.1	3p25.1	2013-06-19	2013-06-19	2006-10-25	ENSG00000154813	ENSG00000154813			27717	protein-coding gene	gene with protein product	"DPH3A, KTI11 homolog A (S. cerevisiae)"	608959	"zinc finger, CSL-type containing 2", "DPH3 homolog (KTI11, S. cerevisiae)", "DPH3, KTI11 homolog (S. cerevisiae)"	ZCSL2		14527407, 14980502, 15485916, 16648478	Standard	NM_001047434		Approved	DESR1, DELGIP1, MGC20197, KTI11, DELGIP, DPH3A	uc003cau.3	Q96FX2	OTTHUMG00000129866	ENST00000488423.1:c.193G>C	3.37:g.16302327C>G	ENSP00000419599:p.Val65Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000488423.1	37	CCDS2629.1	.	.	.	.	.	.	.	.	.	.	C	10.30	1.311440	0.23821	.	.	ENSG00000154813	ENST00000488423;ENST00000383775	.	.	.	5.73	3.22	0.36961	.	0.175580	0.64402	D	0.000016	T	0.16128	0.0388	.	.	.	0.24129	N	0.995778	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.001	T	0.30563	-0.9974	8	0.07990	T	0.79	-32.8775	7.2848	0.26333	0.0:0.2036:0.0:0.7964	.	40;65	Q96FX2-2;Q96FX2	.;DPH3_HUMAN	L	65;40	.	ENSP00000373285:V40L	V	-	1	0	DPH3	16277331	1.000000	0.71417	0.996000	0.52242	0.992000	0.81027	1.606000	0.36826	0.362000	0.24319	0.491000	0.48974	GTG		0.388	DPH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252108.2	NM_206831		G	16302327	C	G	16302327	3	3	567	1	0	0	0	0	1	0	0	0	4723	478	17	4	59	4	DPH3	3	16302327	Missense_Mutation	SNP	C	TCGA-DW-7837-01A-11D-2136-08	1606328	16302327	181720103	11	33441										
DDX60L	91351	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	169337906	169337906	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	tcgaataatgacaaggaggaGctcccaaaattttgctccaa	8	9	0	1			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr4:169337906G>A	ENST00000511577.1	-	20	2900	c.2653C>T	c.(2653-2655)Ctc>Ttc	p.L885F	DDX60L_ENST00000505890.1_Missense_Mutation_p.L885F|DDX60L_ENST00000260184.7_Missense_Mutation_p.L885F			Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	885	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.						ATP binding (GO:0005524)|helicase activity (GO:0004386)|RNA binding (GO:0003723)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(7)|lung(23)|ovary(2)|prostate(1)|skin(1)|stomach(1)	43		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		ACAAGGAGGAGCTCCCAAAAT	0.343																																																0													107	102	104					4																	169337906		1833	4116	5949	SO:0001583	missense	91351			AK092461	CCDS47161.1	4q32.3	2008-01-08				ENSG00000181381			26429	protein-coding gene	gene with protein product							Standard	XM_005263341		Approved	FLJ31033	uc003irq.4	Q5H9U9		ENST00000511577.1:c.2653C>T	4.37:g.169337906G>A	ENSP00000422423:p.Leu885Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q96ND6	Missense_Mutation	SNP	ENST00000511577.1	37		.	.	.	.	.	.	.	.	.	.	G	15.04	2.714600	0.48622	.	.	ENSG00000181381	ENST00000260184;ENST00000511577;ENST00000505890;ENST00000505863	T;T;T;T	0.74526	-0.85;-0.85;1.2;1.2	3.42	3.42	0.39159	DEAD-like helicase (2);DNA/RNA helicase, DEAD/DEAH box type, N-terminal (1);	0.183055	0.25361	U	0.031226	T	0.69124	0.3076	L	0.49640	1.575	0.25638	N	0.986238	P;P;P	0.45283	0.855;0.769;0.855	B;B;B	0.41510	0.359;0.288;0.359	T	0.66164	-0.5992	10	0.66056	D	0.02	.	13.027	0.58821	0.0:0.0:1.0:0.0	.	885;885;885	E9PAP8;D6R906;Q5H9U9	.;.;DDX6L_HUMAN	F	885;885;885;581	ENSP00000260184:L885F;ENSP00000422423:L885F;ENSP00000422202:L885F;ENSP00000421026:L581F	ENSP00000260184:L885F	L	-	1	0	DDX60L	169574481	1.000000	0.71417	0.896000	0.35187	0.943000	0.58893	5.558000	0.67319	1.619000	0.50296	0.461000	0.40582	CTC		0.343	DDX60L-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000364839.1	NM_001012967		A	169337906	G	A	169337906	3	1	567	1	0	0	0	0	1	0	0	0	4381	971	34	2	2543	2	DDX60L	4	169337906	Missense_Mutation	SNP	G	TCGA-DW-7837-01A-11D-2136-08		169337906	21816370	12	33442										
MAP3K1	4214	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	56177037	56177037	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	agactgttgttggaatttccTgctgaattttatcctcatat	7	7	1	2			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr5:56177037T>A	ENST00000399503.3	+	13	2307	c.2307T>A	c.(2305-2307)ccT>ccA	p.P769P		NM_005921.1	NP_005912.1	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase 1, E3 ubiquitin protein ligase	769					activation of MAPKK activity (GO:0000186)|apoptotic mitochondrial changes (GO:0008637)|cellular response to mechanical stimulus (GO:0071260)|epithelial cell morphogenesis (GO:0003382)|eyelid development in camera-type eye (GO:0061029)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|positive regulation of actin filament polymerization (GO:0030838)|protein phosphorylation (GO:0006468)|regulation of cell migration (GO:0030334)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transforming growth factor beta receptor signaling pathway (GO:0007179)|wound healing (GO:0042060)	cytosol (GO:0005829)	ATP binding (GO:0005524)|JUN kinase kinase activity (GO:0008545)|MAP kinase kinase kinase activity (GO:0004709)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|zinc ion binding (GO:0008270)			NS(1)|breast(19)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(8)|lung(11)|ovary(1)|skin(3)|urinary_tract(1)	57		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		TGGAATTTCCTGCTGAATTTT	0.348																																																0													164	147	152					5																	56177037		1836	4079	5915	SO:0001819	synonymous_variant	4214			U29671, AF042838	CCDS43318.1	5q11.2	2012-02-23	2012-02-23		ENSG00000095015	ENSG00000095015		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6848	protein-coding gene	gene with protein product		600982	"mitogen-activated protein kinase kinase kinase 1"	MEKK1		8597633	Standard	NM_005921		Approved	MEKK, MAPKKK1	uc003jqw.4	Q13233	OTTHUMG00000059486	ENST00000399503.3:c.2307T>A	5.37:g.56177037T>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000399503.3	37	CCDS43318.1																																																																																				0.348	MAP3K1-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000132309.2	XM_042066		A	56177037	T	A	56177037	2	1	567	1	0	0	0	0	0	0	0	1	9250	1567	55	5		5	MAP3K1	5	56177037	Silent	SNP	T	TCGA-DW-7837-01A-11D-2136-08		56177037	124738223	13	33443										
C4A	720	hgsc.bcm.edu	37	chr6	31964785	31964785	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	cagagatggcagaccaggctTcggcctggctcacccgtcag	13	14	2	2	rs201016130	byFrequency	TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr6:31964785T>G	ENST00000428956.2	+	29	3940	c.3856T>G	c.(3856-3858)Tcg>Gcg	p.S1286A	C4A_ENST00000498271.1_Missense_Mutation_p.S1286A|C4A-AS1_ENST00000458633.1_RNA	NM_007293.2	NP_009224.2	P0C0L4	CO4A_HUMAN	complement component 4A (Rodgers blood group)	1286			S -> A (in allotype C4A1, allotype C4A3a, allotype C4A6; dbSNP:rs201016130). {ECO:0000269|PubMed:14574404, ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:1988494, ECO:0000269|PubMed:3696167, ECO:0000269|PubMed:6832377, ECO:0000269|Ref.3}.		complement activation (GO:0006956)|complement activation, classical pathway (GO:0006958)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|positive regulation of apoptotic cell clearance (GO:2000427)|regulation of complement activation (GO:0030449)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	complement component C1q binding (GO:0001849)|endopeptidase inhibitor activity (GO:0004866)									Intravenous Immunoglobulin(DB00028)	AGACCAGGCTTCGGCCTGGCT	0.667													G|||	3450	0.688898	0.7799	0.7075	5008	,	,		3447	0.6964		0.6064	False		,,,				2504	0.6299															0													9	21	18					6																	31964785		314	1148	1462	SO:0001583	missense	720			L26261, M14823, X77491, AY224378	CCDS47404.1, CCDS59005.1	6p21.3	2014-09-17	2006-01-19		ENSG00000244731	ENSG00000244731		"Blood group antigens", "Complement system"	1323	protein-coding gene	gene with protein product		120810	"complement component 4A"				Standard	NM_001252204		Approved	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG		P0C0L4	OTTHUMG00000031186	ENST00000428956.2:c.3856T>G	6.37:g.31964785T>G	ENSP00000396688:p.Ser1286Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8M8|A6NHJ5|A7E2V2|B0QZR6|B0V2C8|B2RUT6|B7ZVZ6|P01028|P78445|Q13160|Q13906|Q14033|Q14835|Q4LE82|Q5JNX2|Q5JQM8|Q6P4R1|Q6U2E5|Q6U2E8|Q6U2F0|Q6U2F3|Q6U2F4|Q6U2F6|Q6U2F8|Q6U2G0|Q96EG2|Q96SA8|Q9NPK5|Q9UIP5	Silent	SNP	ENST00000428956.2	37	CCDS47404.1	.	.	.	.	.	.	.	.	.	.	N	0.023	-1.400582	0.01165	.	.	ENSG00000244731	ENST00000428956;ENST00000498271	T;T	0.28895	1.59;1.59	3.27	3.27	0.37495	Terpenoid cylases/protein prenyltransferase alpha-alpha toroid (1);A-macroglobulin complement component (1);	.	.	.	.	T	0.01287	0.0042	N	0.00084	-2.21	0.26565	P	0.973664	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.46233	-0.9206	8	0.02654	T	1	.	7.9548	0.30035	0.0:0.0:0.7546:0.2454	.	1286;1286	A6H8M8;P0C0L4	.;CO4A_HUMAN	A	1286	ENSP00000396688:S1286A;ENSP00000420212:S1286A	ENSP00000396688:S1286A	S	+	1	0	C4A	32072763	0.956000	0.32656	0.019000	0.16419	0.401000	0.30781	4.385000	0.59613	0.717000	0.32145	-0.486000	0.04755	TCG		0.667	C4A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076364.3	NM_007293		G	31964785	T	G	31964785	3	3	567	1	0	0	0	0	1	0	0	0	2249	1783	62	5	3633	5	C4A	6	31964785	Missense_Mutation	SNP	T	TCGA-DW-7837-01A-11D-2136-08		31964785	139150282	14	33444										
DUS4L	11062	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	107216872	107216872	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	aggctgaagcaacaggagttTcatggattacagtccatgga	12	7	1	1			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr7:107216872T>A	ENST00000265720.3	+	7	903	c.541T>A	c.(541-543)Tca>Aca	p.S181T	DUS4L_ENST00000402620.1_Missense_Mutation_p.S60T	NM_001270419.1|NM_181581.2	NP_001257348.1|NP_853559.1	O95620	DUS4L_HUMAN	dihydrouridine synthase 4-like (S. cerevisiae)	181							flavin adenine dinucleotide binding (GO:0050660)|tRNA dihydrouridine synthase activity (GO:0017150)			breast(1)|endometrium(1)|large_intestine(2)|lung(2)|skin(1)|stomach(1)	8						AACAGGAGTTTCATGGATTAC	0.353																																																0													81	76	78					7																	107216872		2203	4300	6503	SO:0001583	missense	11062			U62767	CCDS5745.1	7q22-q31	2007-12-04			ENSG00000105865	ENSG00000105865			21517	protein-coding gene	gene with protein product	"protein similar to E.coli yhdg and R. capsulatus nifR3"						Standard	NM_181581		Approved	PP35, DUS4	uc031syv.1	O95620	OTTHUMG00000154763	ENST00000265720.3:c.541T>A	7.37:g.107216872T>A	ENSP00000265720:p.Ser181Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DLX0|Q2NKK1	Missense_Mutation	SNP	ENST00000265720.3	37	CCDS5745.1	.	.	.	.	.	.	.	.	.	.	T	8.361	0.833117	0.16820	.	.	ENSG00000105865	ENST00000265720;ENST00000402620	T;T	0.22539	1.95;1.95	6.01	3.59	0.41128	Aldolase-type TIM barrel (1);	0.166724	0.56097	D	0.000035	T	0.18130	0.0435	L	0.48935	1.535	0.51233	D	0.99991	B;B	0.16396	0.017;0.017	B;B	0.25291	0.059;0.059	T	0.05468	-1.0883	10	0.26408	T	0.33	.	8.1312	0.31029	0.1207:0.0651:0.0:0.8142	.	181;181	A4D0R5;O95620	.;DUS4L_HUMAN	T	181;60	ENSP00000265720:S181T;ENSP00000385274:S60T	ENSP00000265720:S181T	S	+	1	0	DUS4L	107004108	1.000000	0.71417	0.680000	0.29994	0.052000	0.14988	5.909000	0.69923	0.489000	0.27749	-0.297000	0.09499	TCA		0.353	DUS4L-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336967.2	NM_181581		A	107216872	T	A	107216872	3	1	567	1	0	0	0	0	1	0	0	0	4810	1783	62	5	559	5	DUS4L	7	107216872	Missense_Mutation	SNP	T	TCGA-DW-7837-01A-11D-2136-08		107216872	51921791	15	33445										
TRIM24	8805	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	138145434	138145434	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	tcggagcgcggcggcgaggcGgcccggctcaacctgttgga	18	13	1	0			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr7:138145434G>A	ENST00000343526.4	+	1	356	c.141G>A	c.(139-141)gcG>gcA	p.A47A	TRIM24_ENST00000415680.2_Silent_p.A47A			O15164	TIF1A_HUMAN	tripartite motif containing 24	47					calcium ion homeostasis (GO:0055074)|cellular response to estrogen stimulus (GO:0071391)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription, DNA-templated (GO:0045893)|protein autophosphorylation (GO:0046777)|protein catabolic process (GO:0030163)|protein ubiquitination (GO:0016567)|regulation of apoptotic process (GO:0042981)|regulation of protein stability (GO:0031647)|regulation of signal transduction by p53 class mediator (GO:1901796)|regulation of vitamin D receptor signaling pathway (GO:0070562)|response to peptide hormone (GO:0043434)|transcription from RNA polymerase II promoter (GO:0006366)	cytosol (GO:0005829)|nuclear euchromatin (GO:0005719)|nucleus (GO:0005634)|perichromatin fibrils (GO:0005726)	chromatin binding (GO:0003682)|estrogen response element binding (GO:0034056)|ligase activity (GO:0016874)|lysine-acetylated histone binding (GO:0070577)|p53 binding (GO:0002039)|protein kinase activity (GO:0004672)|receptor binding (GO:0005102)|sequence-specific DNA binding (GO:0043565)|transcription coactivator activity (GO:0003713)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(5)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(12)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(3)	40						GCGGCGAGGCGGCCCGGCTCA	0.746																																					Pancreas(179;936 2074 16128 47811 50326)|Colon(136;168 1735 9344 12243 52014)											0													5	7	6					7																	138145434		1615	3579	5194	SO:0001819	synonymous_variant	8805			AF009353	CCDS5847.1, CCDS47720.1	7q32-q34	2013-01-28	2011-01-25	2005-06-02	ENSG00000122779	ENSG00000122779		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers", "Zinc fingers, PHD-type"	11812	protein-coding gene	gene with protein product		603406	"transcriptional intermediary factor 1", "tripartite motif-containing 24"	TIF1		9115274, 9191165	Standard	NM_003852		Approved	hTIF1, Tif1a, RNF82, TIF1A	uc003vuc.3	O15164	OTTHUMG00000155820	ENST00000343526.4:c.141G>A	7.37:g.138145434G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D1R7|A4D1R8|O95854	Silent	SNP	ENST00000343526.4	37	CCDS5847.1																																																																																				0.746	TRIM24-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000341814.1	NM_015905		A	138145434	G	A	138145434	2	1	567	1	0	0	0	0	0	0	0	1	16510	1103	39	1		1	TRIM24	7	138145434	Silent	SNP	G	TCGA-DW-7837-01A-11D-2136-08	30928562	138145434	20993229	16	33446										
CLU	1191	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	27457323	27457323	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	gacccgcagatagtactggtCttcgccttgcgtgaggtttg	13	10	1	2			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr8:27457323C>G	ENST00000316403.10	-	7	1543	c.1138G>C	c.(1138-1140)Gac>Cac	p.D380H	CLU_ENST00000560366.1_Missense_Mutation_p.D432H|CLU_ENST00000523500.1_Missense_Mutation_p.D380H|CLU_ENST00000546343.1_Missense_Mutation_p.D391H|CLU_ENST00000405140.3_Missense_Mutation_p.D380H			P10909	CLUS_HUMAN	clusterin	380					blood coagulation (GO:0007596)|cell morphogenesis (GO:0000902)|central nervous system myelin maintenance (GO:0032286)|chaperone-mediated protein complex assembly (GO:0051131)|chaperone-mediated protein folding (GO:0061077)|complement activation (GO:0006956)|complement activation, classical pathway (GO:0006958)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway (GO:0097193)|lipid metabolic process (GO:0006629)|microglial cell activation (GO:0001774)|microglial cell proliferation (GO:0061518)|negative regulation of beta-amyloid formation (GO:1902430)|negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage (GO:1902230)|negative regulation of protein homooligomerization (GO:0032463)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of apoptotic process (GO:0043065)|positive regulation of beta-amyloid formation (GO:1902004)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of neurofibrillary tangle assembly (GO:1902998)|positive regulation of neuron death (GO:1901216)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of nitric oxide biosynthetic process (GO:0045429)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of tau-protein kinase activity (GO:1902949)|positive regulation of tumor necrosis factor production (GO:0032760)|protein import (GO:0017038)|protein stabilization (GO:0050821)|regulation of beta-amyloid clearance (GO:1900221)|regulation of neuron death (GO:1901214)|regulation of neuronal signal transduction (GO:1902847)|release of cytochrome c from mitochondria (GO:0001836)|response to misfolded protein (GO:0051788)|response to virus (GO:0009615)|reverse cholesterol transport (GO:0043691)	apical dendrite (GO:0097440)|blood microparticle (GO:0072562)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|mitochondrion (GO:0005739)|neurofibrillary tangle (GO:0097418)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|platelet alpha granule lumen (GO:0031093)|spherical high-density lipoprotein particle (GO:0034366)	misfolded protein binding (GO:0051787)|ubiquitin protein ligase binding (GO:0031625)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(8)|ovary(2)	21		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|Colorectal(74;0.132)		TAGTACTGGTCTTCGCCTTGC	0.602																																																0													71	57	62					8																	27457323		2203	4300	6503	SO:0001583	missense	1191			M64722	CCDS47832.1	8p21-p12	2012-11-30	2006-02-10		ENSG00000120885	ENSG00000120885			2095	protein-coding gene	gene with protein product	"complement lysis inhibitor", "sulfated glycoprotein 2", "testosterone-repressed prostate message 2", "apolipoprotein J"	185430	"clusterin (complement lysis inhibitor, SP-40,40, sulfated glycoprotein 2, testosterone-repressed prostate message 2, apolipoprotein J)"	CLI, APOJ		1585460	Standard	NR_038335		Approved	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2	uc003xfz.2	P10909	OTTHUMG00000102114	ENST00000316403.10:c.1138G>C	8.37:g.27457323C>G	ENSP00000315130:p.Asp380His	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9Q1|B3KSE6|P11380|P11381|Q2TU75|Q5HYC1|Q7Z5B9	Missense_Mutation	SNP	ENST00000316403.10	37	CCDS47832.1	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	C|C|C	17.93|17.93|17.93	3.509052|3.509052|3.509052	0.64410|0.64410|0.64410	.|.|.	.|.|.	ENSG00000120885|ENSG00000120885|ENSG00000120885	ENST00000316403;ENST00000546343;ENST00000405140;ENST00000523500;ENST00000380446;ENST00000520012|ENST00000521770|ENST00000522098	T;T;T|.|.	0.23754|.|.	1.89;1.89;1.89|.|.	5.62|5.62|5.62	3.57|3.57|3.57	0.40892|0.40892|0.40892	Clusterin, C-terminal (1);|.|.	0.252635|.|.	0.44688|.|.	D|.|.	0.000435|.|.	T|T|T	0.55768|0.55768|0.55768	0.1941|0.1941|0.1941	M|M|M	0.81942|0.81942|0.81942	2.565|2.565|2.565	0.19300|0.19300|0.19300	N|N|N	0.999975|0.999975|0.999975	D;D;D;D|.|.	0.89917|.|.	1.0;1.0;1.0;0.99|.|.	D;D;D;D|.|.	0.91635|.|.	0.995;0.999;0.999;0.912|.|.	T|T|T	0.51988|0.51988|0.51988	-0.8635|-0.8635|-0.8635	10|5|5	0.87932|.|.	D|.|.	0|.|.	-20.387|-20.387|-20.387	5.2925|5.2925|5.2925	0.15735|0.15735|0.15735	0.0:0.6574:0.0:0.3426|0.0:0.6574:0.0:0.3426|0.0:0.6574:0.0:0.3426	.|.|.	245;432;391;380|.|.	E7ETA7;P10909-2;P10909-5;P10909|.|.	.;.;.;CLUS_HUMAN|.|.	H|N|T	432;391;380;380;205;245|70|242	ENSP00000446413:D391H;ENSP00000385419:D380H;ENSP00000429620:D380H|.|.	ENSP00000315130:D432H|.|.	D|K|R	-|-|-	1|3|2	0|2|0	CLU|CLU|CLU	27513240|27513240|27513240	0.048000|0.048000|0.048000	0.20356|0.20356|0.20356	0.005000|0.005000|0.005000	0.12908|0.12908|0.12908	0.275000|0.275000|0.275000	0.26752|0.26752|0.26752	1.118000|1.118000|1.118000	0.31246|0.31246|0.31246	1.363000|1.363000|1.363000	0.46019|0.46019|0.46019	0.655000|0.655000|0.655000	0.94253|0.94253|0.94253	GAC|AAG|AGA		0.602	CLU-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219953.3	NM_001831		G	27457323	C	G	27457323	3	3	567	1	0	0	0	0	1	0	0	0	3570	913	32	4	223	4	CLU	8	27457323	Missense_Mutation	SNP	C	TCGA-DW-7837-01A-11D-2136-08		27457323	118906699	17	33447										
FGFR1	2260	ucsc.edu	37	chr8	38287416	38287416	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	gcgaagctgcagcaggtcacCggggtggaccaggaaggact	17	10	1	0	rs121909640		TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr8:38287416C>T	ENST00000447712.2	-	3	1083	c.142G>A	c.(142-144)Ggt>Agt	p.G48S	FGFR1_ENST00000335922.5_Missense_Mutation_p.G40S|FGFR1_ENST00000397113.2_Missense_Mutation_p.G48S|FGFR1_ENST00000341462.5_Missense_Mutation_p.G48S|FGFR1_ENST00000397103.1_Intron|FGFR1_ENST00000397091.5_Missense_Mutation_p.G48S|FGFR1_ENST00000356207.5_Intron|FGFR1_ENST00000425967.3_Missense_Mutation_p.G81S|FGFR1_ENST00000326324.6_Intron|FGFR1_ENST00000397108.4_Missense_Mutation_p.G48S|FGFR1_ENST00000532791.1_Missense_Mutation_p.G48S	NM_001174063.1|NM_015850.3|NM_023110.2	NP_001167534.1|NP_056934.2|NP_075598.2	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1	48	Ig-like C2-type 1.		G -> S (in HH2; phenotype consistent with normosmic idiopathic hypogonadotropic hypogonadism). {ECO:0000269|PubMed:16882753}.		angiogenesis (GO:0001525)|auditory receptor cell development (GO:0060117)|axon guidance (GO:0007411)|branching involved in salivary gland morphogenesis (GO:0060445)|cell maturation (GO:0048469)|cell migration (GO:0016477)|chondrocyte differentiation (GO:0002062)|chordate embryonic development (GO:0043009)|embryonic limb morphogenesis (GO:0030326)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development (GO:0035607)|in utero embryonic development (GO:0001701)|innate immune response (GO:0045087)|inner ear morphogenesis (GO:0042472)|insulin receptor signaling pathway (GO:0008286)|lung-associated mesenchyme development (GO:0060484)|MAPK cascade (GO:0000165)|mesenchymal cell differentiation (GO:0048762)|midbrain development (GO:0030901)|middle ear morphogenesis (GO:0042474)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron migration (GO:0001764)|neurotrophin TRK receptor signaling pathway (GO:0048011)|organ induction (GO:0001759)|outer ear morphogenesis (GO:0042473)|paraxial mesoderm development (GO:0048339)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cardiac muscle cell proliferation (GO:0060045)|positive regulation of cell cycle (GO:0045787)|positive regulation of cell proliferation (GO:0008284)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of MAPKKK cascade by fibroblast growth factor receptor signaling pathway (GO:0090080)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of neuron projection development (GO:0010976)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of phospholipase activity (GO:0010518)|positive regulation of phospholipase C activity (GO:0010863)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling (GO:0060665)|regulation of cell differentiation (GO:0045595)|regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001239)|regulation of lateral mesodermal cell fate specification (GO:0048378)|sensory perception of sound (GO:0007605)|skeletal system development (GO:0001501)|skeletal system morphogenesis (GO:0048705)|transcription, DNA-templated (GO:0006351)|ureteric bud development (GO:0001657)|ventricular zone neuroblast division (GO:0021847)	cytoplasmic vesicle (GO:0031410)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|fibroblast growth factor binding (GO:0017134)|fibroblast growth factor-activated receptor activity (GO:0005007)|heparin binding (GO:0008201)|identical protein binding (GO:0042802)|protein homodimerization activity (GO:0042803)|protein tyrosine kinase activity (GO:0004713)		FGFR1/ZNF703(2)	breast(2)|central_nervous_system(7)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(8)|lung(18)|ovary(1)|prostate(1)|stomach(2)|urinary_tract(2)	50	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)|Ponatinib(DB08901)|Regorafenib(DB08896)|Sorafenib(DB00398)	AGCAGGTCACCGGGGTGGACC	0.682		1	T	"BCR, FOP, ZNF198, CEP1"	"MPD, NHL"		"Pfeiffer syndrome, Kallman syndrome"																														Melanoma(146;1153 1840 21453 21841 43625)		Dom	yes		8	8p11.2-p11.1	2260	fibroblast growth factor receptor 1	yes	L	0			GRCh37	CM063982	FGFR1	M	rs121909640						26	25	25					8																	38287416		2203	4299	6502	SO:0001583	missense	2260			M34185	CCDS6107.2, CCDS43730.1, CCDS43731.1, CCDS43732.1, CCDS55221.1, CCDS55222.1, CCDS55223.1	8p11.23-p11.22	2014-04-03	2008-08-01		ENSG00000077782	ENSG00000077782	2.7.10.1	"CD molecules", "Immunoglobulin superfamily / I-set domain containing"	3688	protein-coding gene	gene with protein product	"Pfeiffer syndrome"	136350	"fms-related tyrosine kinase 2"	FLT2, KAL2		2162671	Standard	NM_015850		Approved	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331	uc011lbu.2	P11362	OTTHUMG00000147366	ENST00000447712.2:c.142G>A	8.37:g.38287416C>T	ENSP00000400162:p.Gly48Ser	Somatic		WXS	Illumina HiSeq		A8K6T9|A8K8V5|C1KBH8|P17049|Q02063|Q02065|Q14306|Q14307|Q53H63|Q59H40|Q5BJG2|Q8N685|Q9UD50|Q9UDF0|Q9UDF1|Q9UDF2	Missense_Mutation	SNP	ENST00000447712.2	37	CCDS6107.2	.	.	.	.	.	.	.	.	.	.	C	36	5.747835	0.96882	.	.	ENSG00000077782	ENST00000397091;ENST00000425967;ENST00000447712;ENST00000341462;ENST00000310729;ENST00000532791;ENST00000397113;ENST00000335922;ENST00000397108;ENST00000326296;ENST00000525001;ENST00000413133	T;T;T;T;T;T;T;T;T;T	0.81163	-1.46;-1.46;-1.46;-1.46;-1.46;-1.46;-1.46;-1.46;-1.46;-1.46	5.58	5.58	0.84498	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	D	0.92047	0.7480	M	0.90425	3.115	0.80722	A	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.97110	1.0;1.0;1.0;1.0;1.0	D	0.93129	0.6531	9	0.87932	D	0	.	19.6377	0.95744	0.0:1.0:0.0:0.0	.	48;81;48;40;48	P11362-7;P11362-21;P11362;P11362-20;P11362-2	.;.;FGFR1_HUMAN;.;.	S	48;81;48;48;48;48;48;40;48;48;48;48	ENSP00000380280:G48S;ENSP00000393312:G81S;ENSP00000400162:G48S;ENSP00000340636:G48S;ENSP00000432972:G48S;ENSP00000380302:G48S;ENSP00000337247:G40S;ENSP00000380297:G48S;ENSP00000434712:G48S;ENSP00000400708:G48S	ENSP00000311337:G48S	G	-	1	0	FGFR1	38406573	1.000000	0.71417	0.996000	0.52242	0.973000	0.67179	7.487000	0.81328	2.641000	0.89580	0.456000	0.33151	GGT		0.682	FGFR1-203	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding				T	38287416	C	T	38287416	3	4	567	1	0	0	0	0	1	0	0	0	5870	652	23	1	2630	1	FGFR1	8	38287416	Missense_Mutation	SNP	C	TCGA-DW-7837-01A-11D-2136-08	10830093	38287416	108076606	18	33448										
MYST3	7994	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	41791942	41791942	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	ctcctccacctcaggctcctTggtttcggtctcaggactat	8	15	2	0			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr8:41791942T>G	ENST00000396930.3	-	18	4339	c.3796A>C	c.(3796-3798)Aag>Cag	p.K1266Q	KAT6A_ENST00000406337.1_Missense_Mutation_p.K1266Q|KAT6A_ENST00000265713.2_Missense_Mutation_p.K1266Q	NM_001099412.1	NP_001092882.1	Q92794	KAT6A_HUMAN	K(lysine) acetyltransferase 6A	1266					aorta morphogenesis (GO:0035909)|cellular senescence (GO:0090398)|chromatin organization (GO:0006325)|DNA packaging (GO:0006323)|embryonic hemopoiesis (GO:0035162)|face morphogenesis (GO:0060325)|heart morphogenesis (GO:0003007)|histone acetylation (GO:0016573)|histone H3 acetylation (GO:0043966)|myeloid cell differentiation (GO:0030099)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription, DNA-templated (GO:0045892)|nucleosome assembly (GO:0006334)|positive regulation of transcription, DNA-templated (GO:0045893)|protein acetylation (GO:0006473)|somatic stem cell maintenance (GO:0035019)|transcription, DNA-templated (GO:0006351)	Golgi apparatus (GO:0005794)|MOZ/MORF histone acetyltransferase complex (GO:0070776)|nucleoplasm (GO:0005654)|nucleosome (GO:0000786)|nucleus (GO:0005634)|PML body (GO:0016605)	acetyltransferase activity (GO:0016407)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|histone acetyltransferase activity (GO:0004402)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)										tcAGGCTCCTTGGTTTCGGTC	0.582																																																0													70	57	61					8																	41791942		2203	4300	6503	SO:0001583	missense	7994			U47742	CCDS6124.1	8p11	2013-01-28	2011-07-21	2011-07-21	ENSG00000083168	ENSG00000083168		"Chromatin-modifying enzymes / K-acetyltransferases", "Zinc fingers, C2HC-type containing", "Zinc fingers, PHD-type"	13013	protein-coding gene	gene with protein product	"Monocytic leukemia zinc finger protein"	601408	"runt-related transcription factor binding protein 2", "MYST histone acetyltransferase (monocytic leukemia) 3"	ZNF220, RUNXBP2, MYST3		8849440, 8782817	Standard	NM_001099412		Approved	MOZ, ZC2HC6A	uc003xon.4	Q92794	OTTHUMG00000150453	ENST00000396930.3:c.3796A>C	8.37:g.41791942T>G	ENSP00000380136:p.Lys1266Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q76L81	Missense_Mutation	SNP	ENST00000396930.3	37	CCDS6124.1	.	.	.	.	.	.	.	.	.	.	T	5.700	0.313720	0.10789	.	.	ENSG00000083168	ENST00000265713;ENST00000406337;ENST00000396930	T;T;T	0.59772	0.24;0.24;0.24	5.95	5.95	0.96441	.	0.067727	0.64402	D	0.000010	T	0.59582	0.2204	L	0.27053	0.805	0.33409	D	0.578344	D	0.71674	0.998	P	0.59115	0.852	T	0.63382	-0.6650	10	0.18710	T	0.47	-26.6212	16.4159	0.83738	0.0:0.0:0.0:1.0	.	1266	Q92794	KAT6A_HUMAN	Q	1266	ENSP00000265713:K1266Q;ENSP00000385888:K1266Q;ENSP00000380136:K1266Q	ENSP00000265713:K1266Q	K	-	1	0	KAT6A	41911099	0.647000	0.27304	0.108000	0.21378	0.021000	0.10359	1.215000	0.32431	2.279000	0.76181	0.533000	0.62120	AAG		0.582	KAT6A-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318163.1	NM_006766		G	41791942	T	G	41791942	3	3	567	1	0	0	0	0	1	0	0	0	10111	1821	63	5	2222	5	MYST3	8	41791942	Missense_Mutation	SNP	T	TCGA-DW-7837-01A-11D-2136-08	3504526	41791942	104572080	19	33449										
POP1	10940	hgsc.bcm.edu	37	chr8	99140760	99140760	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	gacggttacaggagattgccCagaaagaggtaggagttcca	14	7	0	3			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr8:99140760C>G	ENST00000401707.2	+	4	559	c.478C>G	c.(478-480)Cag>Gag	p.Q160E	POP1_ENST00000349693.3_Missense_Mutation_p.Q160E	NM_001145860.1|NM_001145861.1	NP_001139332.1|NP_001139333.1	Q99575	POP1_HUMAN	processing of precursor 1, ribonuclease P/MRP subunit (S. cerevisiae)	160					RNA phosphodiester bond hydrolysis (GO:0090501)|RNA phosphodiester bond hydrolysis, endonucleolytic (GO:0090502)|tRNA 5'-leader removal (GO:0001682)|tRNA catabolic process (GO:0016078)	extracellular space (GO:0005615)|nucleolar ribonuclease P complex (GO:0005655)|ribonuclease MRP complex (GO:0000172)	poly(A) RNA binding (GO:0044822)|ribonuclease MRP activity (GO:0000171)|ribonuclease P activity (GO:0004526)			autonomic_ganglia(1)|breast(3)|endometrium(4)|large_intestine(9)|lung(15)|ovary(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	36	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			GGAGATTGCCCAGAAAGAGGT	0.413																																																0													68	57	61					8																	99140760		2203	4300	6503	SO:0001583	missense	10940			D31765	CCDS6277.1	8q22.2	2012-05-21			ENSG00000104356	ENSG00000104356			30129	protein-coding gene	gene with protein product	"processing of precursors 1"	602486				10199568, 8918471	Standard	NM_015029		Approved		uc011lgv.2	Q99575	OTTHUMG00000164635	ENST00000401707.2:c.478C>G	8.37:g.99140760C>G	ENSP00000385787:p.Gln160Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5W9|Q15037	Missense_Mutation	SNP	ENST00000401707.2	37	CCDS6277.1	.	.	.	.	.	.	.	.	.	.	C	9.868	1.198081	0.22037	.	.	ENSG00000104356	ENST00000522319;ENST00000401707;ENST00000349693	T;T;T	0.40476	1.03;1.03;1.03	5.95	5.06	0.68205	Ribonuclease P/MRP, subunit POP1 (1);	0.326421	0.32987	N	0.005418	T	0.23926	0.0579	N	0.14661	0.345	0.23519	N	0.997501	B	0.13594	0.008	B	0.23150	0.044	T	0.18178	-1.0345	10	0.05959	T	0.93	-13.3484	12.4936	0.55914	0.3844:0.6156:0.0:0.0	.	160	Q99575	POP1_HUMAN	E	160	ENSP00000428945:Q160E;ENSP00000385787:Q160E;ENSP00000339529:Q160E	ENSP00000339529:Q160E	Q	+	1	0	POP1	99209936	1.000000	0.71417	1.000000	0.80357	0.830000	0.47004	3.261000	0.51530	1.462000	0.47948	0.650000	0.86243	CAG		0.413	POP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379470.1	NM_015029		G	99140760	C	G	99140760	3	3	567	1	0	0	0	0	1	0	0	0	12258	595	21	4	488	4	POP1	8	99140760	Missense_Mutation	SNP	C	TCGA-DW-7837-01A-11D-2136-08	57348818	99140760	47223262	20	33450										
GPT	2875	broad.mit.edu;bcgsc.ca	37	chr8	145730807	145730807	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	ggccgagcttcaccgtgcacTgggccaggcgcgtgaccact	14	15	1	1			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr8:145730807T>C	ENST00000528431.1	+	6	831	c.674T>C	c.(673-675)cTg>cCg	p.L225P	GPT_ENST00000394955.2_Missense_Mutation_p.L225P			P24298	ALAT1_HUMAN	glutamic-pyruvate transaminase (alanine aminotransferase)	225					cellular amino acid biosynthetic process (GO:0008652)|cellular nitrogen compound metabolic process (GO:0034641)|L-alanine catabolic process (GO:0042853)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	L-alanine:2-oxoglutarate aminotransferase activity (GO:0004021)|pyridoxal phosphate binding (GO:0030170)			central_nervous_system(1)|endometrium(1)|lung(2)|ovary(1)	5	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)		L-Alanine(DB00160)|Phenelzine(DB00780)	CACCGTGCACTGGGCCAGGCG	0.711																																																0													26	22	23					8																	145730807		2183	4285	6468	SO:0001583	missense	2875				CCDS6430.1	8q24.3	2013-09-19			ENSG00000167701	ENSG00000167701	2.6.1.2		4552	protein-coding gene	gene with protein product		138200					Standard	NM_005309		Approved	ALT1, GPT1	uc003zdh.4	P24298	OTTHUMG00000165176	ENST00000528431.1:c.674T>C	8.37:g.145730807T>C	ENSP00000433586:p.Leu225Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ18|D3DWM7|P78398|Q93076	Missense_Mutation	SNP	ENST00000528431.1	37	CCDS6430.1	.	.	.	.	.	.	.	.	.	.	T	14.03	2.412967	0.42817	.	.	ENSG00000167701	ENST00000528431;ENST00000394955	D;D	0.94417	-3.42;-3.42	4.75	4.75	0.60458	Aminotransferase, class I/classII (1);Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (1);Pyridoxal phosphate-dependent transferase, major domain (1);	0.252905	0.32819	N	0.005613	D	0.97657	0.9232	M	0.93283	3.4	0.39426	D	0.966998	D;D	0.76494	0.998;0.999	D;D	0.73380	0.979;0.98	D	0.99187	1.0869	10	0.87932	D	0	-16.1077	12.1812	0.54214	0.0:0.0:0.0:1.0	.	225;225	B4DPT5;P24298	.;ALAT1_HUMAN	P	225	ENSP00000433586:L225P;ENSP00000378408:L225P	ENSP00000378408:L225P	L	+	2	0	GPT	145701615	0.950000	0.32346	0.039000	0.18376	0.002000	0.02628	4.295000	0.59049	1.753000	0.51906	0.454000	0.30748	CTG		0.711	GPT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382471.1			C	145730807	T	C	145730807	3	2	567	1	0	0	0	0	1	0	0	0	6744	1580	55	3	692	3	GPT	8	145730807	Missense_Mutation	SNP	T	TCGA-DW-7837-01A-11D-2136-08	46590047	145730807	633215	21	33451										
ABL1	25	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr9	133759489	133759489	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	aacttgttcagcgccttgatCaagaagaagaagaagacagc	10	8	2	6	rs201725154		TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr9:133759489C>A	ENST00000318560.5	+	11	2193	c.1812C>A	c.(1810-1812)atC>atA	p.I604I		NM_005157.4	NP_005148.2	P00519	ABL1_HUMAN	ABL proto-oncogene 1, non-receptor tyrosine kinase	604					actin cytoskeleton organization (GO:0030036)|autophagy (GO:0006914)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cellular protein modification process (GO:0006464)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to dopamine (GO:1903351)|cellular response to oxidative stress (GO:0034599)|DNA damage induced protein phosphorylation (GO:0006975)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|mismatch repair (GO:0006298)|mitochondrial depolarization (GO:0051882)|mitotic nuclear division (GO:0007067)|muscle cell differentiation (GO:0042692)|negative regulation of phospholipase C activity (GO:1900275)|negative regulation of protein serine/threonine kinase activity (GO:0071901)|negative regulation of ubiquitin-protein transferase activity (GO:0051444)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of oxidoreductase activity (GO:0051353)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|regulation of actin cytoskeleton reorganization (GO:2000249)|regulation of autophagy (GO:0010506)|regulation of cell adhesion (GO:0030155)|regulation of cell motility (GO:2000145)|regulation of endocytosis (GO:0030100)|regulation of response to DNA damage stimulus (GO:2001020)|regulation of transcription, DNA-templated (GO:0006355)|response to oxidative stress (GO:0006979)|signal transduction in response to DNA damage (GO:0042770)	actin cytoskeleton (GO:0015629)|cell leading edge (GO:0031252)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	actin monomer binding (GO:0003785)|ATP binding (GO:0005524)|DNA binding (GO:0003677)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|mitogen-activated protein kinase binding (GO:0051019)|nicotinate-nucleotide adenylyltransferase activity (GO:0004515)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|proline-rich region binding (GO:0070064)|protein C-terminus binding (GO:0008022)|protein kinase activity (GO:0004672)|protein tyrosine kinase activity (GO:0004713)|SH3 domain binding (GO:0017124)|syntaxin binding (GO:0019905)			breast(3)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1149)|kidney(3)|large_intestine(7)|lung(15)|ovary(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	1195		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Bosutinib(DB06616)|Dasatinib(DB01254)|Imatinib(DB00619)|Nilotinib(DB04868)|Ponatinib(DB08901)|Regorafenib(DB08896)	GCGCCTTGATCAAGAAGAAGA	0.607			"T, Mis"	"BCR, ETV6, NUP214"	"CML, ALL, T-ALL"																																		Dom	yes		9	9q34.1	25	v-abl Abelson murine leukemia viral oncogene homolog 1		L	0													78	89	85					9																	133759489		2203	4300	6503	SO:0001819	synonymous_variant	25			M14752	CCDS35165.1, CCDS35166.1	9q34.1	2014-09-17	2014-06-26		ENSG00000097007	ENSG00000097007		"SH2 domain containing"	76	protein-coding gene	gene with protein product		189980	"v-abl Abelson murine leukemia viral oncogene homolog 1", "c-abl oncogene 1, receptor tyrosine kinase", "c-abl oncogene 1, non-receptor tyrosine kinase"	ABL		1857987, 12626632	Standard	NM_007313		Approved	JTK7, c-ABL, p150	uc004bzv.3	P00519	OTTHUMG00000020813	ENST00000318560.5:c.1812C>A	9.37:g.133759489C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A3KFJ3|Q13869|Q13870|Q16133|Q17R61|Q45F09	Silent	SNP	ENST00000318560.5	37	CCDS35166.1																																																																																				0.607	ABL1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000054684.1	NM_007313		A	133759489	C	A	133759489	2	1	567	1	0	0	0	0	0	0	0	1	92	816	29	4		4	ABL1	9	133759489	Silent	SNP	C	TCGA-DW-7837-01A-11D-2136-08		133759489	7453942	22	33452										
PRPF18	8559	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	13658431	13658431	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	atcttcagatggccattggaAatgcgccttggcccatcggt	11	11	2	1			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr10:13658431A>G	ENST00000378572.3	+	9	986	c.826A>G	c.(826-828)Aat>Gat	p.N276D		NM_003675.3	NP_003666.1	Q99633	PRP18_HUMAN	pre-mRNA processing factor 18	276					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)|spliceosomal complex (GO:0005681)	potassium channel inhibitor activity (GO:0019870)			central_nervous_system(1)|endometrium(5)|large_intestine(5)|lung(5)|prostate(1)	17						GGCCATTGGAAATGCGCCTTG	0.413																																																0													152	141	145					10																	13658431		2203	4300	6503	SO:0001583	missense	8559			U51990	CCDS7100.1	10p12.33	2013-06-10	2013-06-10		ENSG00000165630	ENSG00000165630			17351	protein-coding gene	gene with protein product		604993	"PRP18 pre-mRNA processing factor 18 homolog (yeast)", "PRP18 pre-mRNA processing factor 18 homolog (S. cerevisiae)"			9000057	Standard	XM_005252634		Approved	hPrp18	uc001imp.3	Q99633	OTTHUMG00000017702	ENST00000378572.3:c.826A>G	10.37:g.13658431A>G	ENSP00000367835:p.Asn276Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T9P9|Q9BUI9	Missense_Mutation	SNP	ENST00000378572.3	37	CCDS7100.1	.	.	.	.	.	.	.	.	.	.	A	27.0	4.790746	0.90367	.	.	ENSG00000165630	ENST00000378572;ENST00000298451	.	.	.	5.3	5.3	0.74995	Prp18 (3);	0.000000	0.85682	D	0.000000	D	0.86356	0.5913	H	0.94886	3.595	0.80722	D	1	D	0.65815	0.995	D	0.75020	0.985	D	0.90319	0.4343	9	0.87932	D	0	-32.2513	15.2507	0.73542	1.0:0.0:0.0:0.0	.	276	Q99633	PRP18_HUMAN	D	276;38	.	ENSP00000298451:N38D	N	+	1	0	PRPF18	13698437	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	9.320000	0.96346	2.006000	0.58801	0.528000	0.53228	AAT		0.413	PRPF18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046879.1			G	13658431	A	G	13658431	3	3	567	1	0	0	0	0	1	0	0	0	12573	14	1	3	860	3	PRPF18	10	13658431	Missense_Mutation	SNP	A	TCGA-DW-7837-01A-11D-2136-08		13658431	121876316	23	33453										
CUBN	8029	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	16957909	16957910	+	Frame_Shift_Ins	INS	-	-	A													0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	ttcaaaagagatggtgagatINSagtgtccagagagcccctgg							TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr10:16957909_16957910insA	ENST00000377833.4	-	46	7185_7186	c.7120_7121insT	c.(7120-7122)tatfs	p.Y2374fs		NM_001081.3	NP_001072.2	O60494	CUBN_HUMAN	cubilin (intrinsic factor-cobalamin receptor)	2374	CUB 17. {ECO:0000255|PROSITE- ProRule:PRU00059}.				cholesterol metabolic process (GO:0008203)|cobalamin metabolic process (GO:0009235)|cobalamin transport (GO:0015889)|lipoprotein metabolic process (GO:0042157)|lipoprotein transport (GO:0042953)|receptor-mediated endocytosis (GO:0006898)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|tissue homeostasis (GO:0001894)|vitamin D metabolic process (GO:0042359)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|coated pit (GO:0005905)|cytosol (GO:0005829)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|extrinsic component of external side of plasma membrane (GO:0031232)|Golgi apparatus (GO:0005794)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|cobalamin binding (GO:0031419)|protein homodimerization activity (GO:0042803)|receptor activity (GO:0004872)|transporter activity (GO:0005215)			breast(8)|central_nervous_system(4)|cervix(1)|endometrium(18)|haematopoietic_and_lymphoid_tissue(3)|kidney(12)|large_intestine(42)|liver(1)|lung(107)|ovary(9)|pancreas(2)|prostate(3)|skin(9)|stomach(3)|upper_aerodigestive_tract(11)|urinary_tract(8)	241					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GATGGTGAGATAGTGTCCAGAG	0.436																																																0																																										SO:0001589	frameshift_variant	8029			AF034611	CCDS7113.1	10p12	2014-09-17			ENSG00000107611	ENSG00000107611			2548	protein-coding gene	gene with protein product		602997		MGA1		9572993, 9478979	Standard	NM_001081		Approved	IFCR, gp280	uc001ioo.3	O60494	OTTHUMG00000017741	ENST00000377833.4:c.7121dupT	10.37:g.16957910_16957910dupA	ENSP00000367064:p.Tyr2374fs	Somatic		WXS	Illumina HiSeq	Phase_I	B0YIZ4|Q5VTA6|Q96RU9	Frame_Shift_Ins	INS	ENST00000377833.4	37	CCDS7113.1																																																																																				0.436	CUBN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047009.1	NM_001081		A	16957910	-	A	16957909	7	5	567	1	0	1	1	0	0	0	0	0	4053	1406	49	0	3838	0	CUBN	10	16957909	Frame_Shift_Ins	INS	-	TCGA-DW-7837-01A-11D-2136-08	3299478	16957909	118576838	24	33454										
PTPRCAP	5790	broad.mit.edu;bcgsc.ca	37	chr11	67203274	67203287	+	Frame_Shift_Del	DEL	GCAAAGGCGTGCAG	GCAAAGGCGTGCAG	-													0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	catcccaggctgcgctgccaGcaaaggcgtgcaggtcactc					rs377555679		TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	GCAAAGGCGTGCAG	GCAAAGGCGTGCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr11:67203274_67203287delGCAAAGGCGTGCAG	ENST00000326294.3	-	2	985_998	c.538_551delCTGCACGCCTTTGC	c.(538-552)ctgcacgcctttgctfs	p.LHAFA180fs	AP003419.16_ENST00000535922.1_RNA|CORO1B_ENST00000539724.1_5'Flank	NM_005608.2	NP_005599.1	Q14761	PTCA_HUMAN	protein tyrosine phosphatase, receptor type, C-associated protein	180					defense response (GO:0006952)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				skin(1)|upper_aerodigestive_tract(1)	2			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			TGCGCTGCCAGCAAAGGCGTGCAGGTCACTCAGC	0.682																																																0																																										SO:0001589	frameshift_variant	5790				CCDS8163.1	11q13.2	2011-06-09			ENSG00000213402	ENSG00000213402			9667	protein-coding gene	gene with protein product		601577					Standard	NM_005608		Approved	LPAP, CD45-AP	uc001oli.1	Q14761	OTTHUMG00000150325	ENST00000326294.3:c.538_551delCTGCACGCCTTTGC	11.37:g.67203274_67203287delGCAAAGGCGTGCAG	ENSP00000325589:p.Leu180fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R512|O00643|Q6I9S6	Frame_Shift_Del	DEL	ENST00000326294.3	37	CCDS8163.1																																																																																				0.682	PTPRCAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317563.1	NM_005608		-	67203287	GCAAAGGCGTGCAG	-	67203274	7	5	567	1	0	1	0	1	0	0	0	0	12811	971	34	0	73	0	PTPRCAP	11	67203274	Frame_Shift_Del	DEL	GCAAAGGCGTGCAG	TCGA-DW-7837-01A-11D-2136-08		67203274	67803242	25	33455										
ARHGEF17	9828	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	73066676	73066676	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	gccaaggaggcgaggcctgcCtttctcaagttcctagaggt	13	11	1	1			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr11:73066676C>G	ENST00000263674.3	+	4	3902	c.3552C>G	c.(3550-3552)gcC>gcG	p.A1184A	AP002761.1_ENST00000582555.1_RNA	NM_014786.3	NP_055601.2	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	1184	DH. {ECO:0000255|PROSITE- ProRule:PRU00062}.				actin cytoskeleton organization (GO:0030036)|apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	guanyl-nucleotide exchange factor activity (GO:0005085)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(15)|ovary(2)|skin(2)	32						CGAGGCCTGCCTTTCTCAAGT	0.557																																																0													92	88	90					11																	73066676		2200	4293	6493	SO:0001819	synonymous_variant	9828			AF378754	CCDS8221.1	11q13.3	2011-11-16			ENSG00000110237	ENSG00000110237		"Rho guanine nucleotide exchange factors"	21726	protein-coding gene	gene with protein product	"Rho-specific guanine-nucleotide exchange factor 164 kDa", "tumor endothelial marker 4"					11559528, 12071859	Standard	NM_014786		Approved	TEM4, KIAA0337, p164-RhoGEF	uc001otu.3	Q96PE2	OTTHUMG00000167971	ENST00000263674.3:c.3552C>G	11.37:g.73066676C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RP20|Q86XU2|Q8N2S0|Q9Y4G3	Silent	SNP	ENST00000263674.3	37	CCDS8221.1																																																																																				0.557	ARHGEF17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397365.1	NM_014786		G	73066676	C	G	73066676	2	3	567	1	0	0	0	0	0	0	0	1	900	668	24	4		4	ARHGEF17	11	73066676	Silent	SNP	C	TCGA-DW-7837-01A-11D-2136-08	5863402	73066676	61939840	26	33456										
HEPHL1	341208	hgsc.bcm.edu	37	chr11	93806328	93806328	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	agaagcccatcttggaattcTtggtacagtaaaaccatccc	7	11	2	1			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr11:93806328T>C	ENST00000315765.9	+	7	1378	c.1370T>C	c.(1369-1371)cTt>cCt	p.L457P		NM_001098672.1	NP_001092142.1	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1	457	Plastocyanin-like 3.				copper ion transport (GO:0006825)|oxidation-reduction process (GO:0055114)	integral component of membrane (GO:0016021)	copper ion binding (GO:0005507)|ferroxidase activity (GO:0004322)			NS(2)|breast(4)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(11)|lung(25)|ovary(3)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(3)	61		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				CTTGGAATTCTTGGTACAGTA	0.413																																																0													73	68	69					11																	93806328		1842	4090	5932	SO:0001583	missense	341208			BX641008	CCDS44710.1	11q21	2008-02-05			ENSG00000181333	ENSG00000181333			30477	protein-coding gene	gene with protein product							Standard	NM_001098672		Approved	DKFZp686F22190	uc001pep.2	Q6MZM0	OTTHUMG00000167751	ENST00000315765.9:c.1370T>C	11.37:g.93806328T>C	ENSP00000313699:p.Leu457Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q3C1W7	Missense_Mutation	SNP	ENST00000315765.9	37	CCDS44710.1	.	.	.	.	.	.	.	.	.	.	T	23.0	4.361954	0.82353	.	.	ENSG00000181333	ENST00000315765	D	0.99232	-5.6	5.62	5.62	0.85841	Cupredoxin (2);Multicopper oxidase, type 3 (1);	0.077703	0.52532	D	0.000065	D	0.98692	0.9561	L	0.28400	0.85	0.80722	D	1	D	0.59357	0.985	P	0.62560	0.904	D	0.99915	1.1222	10	0.62326	D	0.03	.	15.8229	0.78673	0.0:0.0:0.0:1.0	.	457	Q6MZM0	HPHL1_HUMAN	P	457	ENSP00000313699:L457P	ENSP00000313699:L457P	L	+	2	0	HEPHL1	93445976	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.209000	0.77916	2.126000	0.65437	0.528000	0.53228	CTT		0.413	HEPHL1-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396103.2	XM_291947		C	93806328	T	C	93806328	3	2	567	1	0	0	0	0	1	0	0	0	7062	1609	56	3	1396	3	HEPHL1	11	93806328	Missense_Mutation	SNP	T	TCGA-DW-7837-01A-11D-2136-08	20739652	93806328	41200188	27	33457										
AMOTL1	154810	broad.mit.edu;ucsc.edu	37	chr11	94532582	94532582	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	atcctctttgtaacttccacTccccaaacttcctgaggatc	4	15	1	1			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr11:94532582T>G	ENST00000433060.2	+	3	367	c.226T>G	c.(226-228)Tcc>Gcc	p.S76A	AMOTL1_ENST00000317829.8_Missense_Mutation_p.S26A|AMOTL1_ENST00000317837.9_Missense_Mutation_p.S76A	NM_130847.2	NP_570899.1	Q8IY63	AMOL1_HUMAN	angiomotin like 1	76					establishment of cell polarity involved in ameboidal cell migration (GO:0003365)|hippo signaling (GO:0035329)|positive regulation of blood vessel endothelial cell migration (GO:0043536)|Wnt signaling pathway (GO:0016055)	apical plasma membrane (GO:0016324)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|lamellipodium (GO:0030027)|tight junction (GO:0005923)	identical protein binding (GO:0042802)			autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(14)|lung(8)|ovary(1)|pancreas(1)|prostate(1)|urinary_tract(2)	36		Acute lymphoblastic leukemia(157;2.38e-05)|all_hematologic(158;0.00824)				TAACTTCCACTCCCCAAACTT	0.458																																																0													32	29	30					11																	94532582		1874	4112	5986	SO:0001583	missense	154810			AF453742	CCDS44712.1, CCDS73368.1	11q21	2008-07-18				ENSG00000166025			17811	protein-coding gene	gene with protein product	"junction-enriched and associated protein"	614657				11733531	Standard	XM_005273798		Approved	JEAP	uc001pfb.3	Q8IY63		ENST00000433060.2:c.226T>G	11.37:g.94532582T>G	ENSP00000387739:p.Ser76Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q63HK7|Q8NDN0|Q8TEN8|Q8WXD1|Q96CM5	Missense_Mutation	SNP	ENST00000433060.2	37	CCDS44712.1	.	.	.	.	.	.	.	.	.	.	T	4.114	0.019294	0.08006	.	.	ENSG00000166025	ENST00000299004;ENST00000317829;ENST00000542840;ENST00000317837;ENST00000433060	T;T;T;T	0.43688	0.94;0.94;0.94;0.94	4.45	-4.86	0.03132	.	0.943557	0.08802	N	0.891653	T	0.24122	0.0584	L	0.47716	1.5	0.09310	N	0.999996	B;B	0.10296	0.0;0.003	B;B	0.09377	0.0;0.004	T	0.41574	-0.9501	10	0.02654	T	1	0.0906	4.364	0.11216	0.1378:0.5246:0.1397:0.1979	.	26;76	Q8IY63-2;Q8IY63	.;AMOL1_HUMAN	A	105;26;82;76;76	ENSP00000299004:S105A;ENSP00000320968:S26A;ENSP00000323474:S76A;ENSP00000387739:S76A	ENSP00000299004:S105A	S	+	1	0	AMOTL1	94172230	0.899000	0.30636	0.516000	0.27786	0.565000	0.35776	0.442000	0.21628	-1.080000	0.03109	-0.451000	0.05528	TCC		0.458	AMOTL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396474.3	NM_130847		G	94532582	T	G	94532582	3	3	567	1	0	0	0	0	1	0	0	0	583	1551	54	5	236	5	AMOTL1	11	94532582	Missense_Mutation	SNP	T	TCGA-DW-7837-01A-11D-2136-08	726254	94532582	40473934	28	33458										
MCF2L	23263	bcgsc.ca	37	chr13	113728835	113728835	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	aacagcctggcgcatgtggaGcacctgctgagggacctggc	15	12	0	1	rs146333822	byFrequency	TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr13:113728835G>A	ENST00000375608.3	+	11	1222	c.1164G>A	c.(1162-1164)gaG>gaA	p.E388E	MCF2L_ENST00000375604.2_Silent_p.E415E|MCF2L_ENST00000442652.2_Silent_p.E388E|MCF2L_ENST00000375597.4_Silent_p.E356E|MCF2L_ENST00000535094.2_Silent_p.E358E|MCF2L_ENST00000423482.2_Silent_p.E356E|MCF2L_ENST00000375601.3_Silent_p.E362E|MCF2L_ENST00000421756.1_Silent_p.E362E|MCF2L_ENST00000434480.2_Silent_p.E364E|MCF2L_ENST00000397030.1_Silent_p.E391E			O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming sequence-like	388					apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|extracellular space (GO:0005615)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)	1-phosphatidylinositol binding (GO:0005545)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			kidney(1)|large_intestine(5)|ovary(1)|stomach(1)	8	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)				CGCATGTGGAGCACCTGCTGA	0.622																																																0													73	72	73					13																	113728835		2203	4300	6503	SO:0001819	synonymous_variant	23263			AB002360	CCDS9527.2, CCDS45070.1, CCDS9527.3, CCDS45070.2	13q34	2013-01-10			ENSG00000126217	ENSG00000126217		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	14576	protein-coding gene	gene with protein product		609499				9205841	Standard	NM_001112732		Approved	KIAA0362, DBS, OST, ARHGEF14	uc010tjr.2	O15068	OTTHUMG00000017377	ENST00000375608.3:c.1164G>A	13.37:g.113728835G>A		Somatic		WXS	Illumina HiSeq	Phase_1	A2A2X1|A2A2X2|A2A3G6|A2A3G8|B4DHD6|B4DIL6|E9PDN8|Q5JU56|Q5VXT1|Q6ZWD4|Q765G8|Q765G9|Q8N679	Silent	SNP	ENST00000375608.3	37		.	.	.	.	.	.	.	.	.	.	G	1.327	-0.597928	0.03771	.	.	ENSG00000126217	ENST00000397017	.	.	.	4.77	0.243	0.15503	.	.	.	.	.	T	0.50667	0.1629	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.36625	-0.9740	4	.	.	.	.	5.0347	0.14428	0.436:0.1514:0.4126:0.0	.	.	.	.	T	19	.	.	A	+	1	0	MCF2L	112776836	0.997000	0.39634	0.454000	0.27019	0.068000	0.16541	0.371000	0.20450	0.090000	0.17273	-0.136000	0.14681	GCA		0.622	MCF2L-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000045849.4			A	113728835	G	A	113728835	2	1	567	1	0	0	0	0	0	0	0	1	9386	962	34	2		2	MCF2L	13	113728835	Silent	SNP	G	TCGA-DW-7837-01A-11D-2136-08		113728835	1441043	29	33459										
FMN1	342184	hgsc.bcm.edu	37	chr15	33066522	33066522	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	gtcttcatcttagttagtggTcacactggcttccttctgac	8	11	5	1			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr15:33066522T>C	ENST00000559047.1	-	18	4248	c.4249A>G	c.(4249-4251)Acc>Gcc	p.T1417A	FMN1_ENST00000334528.9_Missense_Mutation_p.T1194A|FMN1_ENST00000561249.1_Missense_Mutation_p.T1319A			Q68DA7	FMN1_HUMAN	formin 1	1417					actin nucleation (GO:0045010)	actin filament (GO:0005884)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(3)|lung(14)|ovary(2)|prostate(1)|upper_aerodigestive_tract(3)	29		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)		TAGTTAGTGGTCACACTGGCT	0.408																																																0													136	133	134					15																	33066522		2005	4181	6186	SO:0001583	missense	342184			AH002864	CCDS45209.1, CCDS61581.1, CCDS61582.1	15q13.3	2013-06-13	2005-01-20	2005-01-22	ENSG00000248905	ENSG00000248905			3768	protein-coding gene	gene with protein product	"limb deformity protein"	136535	"formin (limb deformity)"	LD, FMN		1673046	Standard	NM_001277313		Approved	DKFZP686C2281, FLJ45135, MGC125288, MGC125289	uc031qrh.1	Q68DA7	OTTHUMG00000172201	ENST00000559047.1:c.4249A>G	15.37:g.33066522T>C	ENSP00000454047:p.Thr1417Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q3B7I6|Q3ZAR4|Q6ZSY1	Missense_Mutation	SNP	ENST00000559047.1	37		.	.	.	.	.	.	.	.	.	.	T	4.846	0.157183	0.09236	.	.	ENSG00000248905	ENST00000334528	T	0.38401	1.14	5.23	1.7	0.24286	.	0.480250	0.22809	N	0.055376	T	0.14960	0.0361	N	0.08118	0	.	.	.	B	0.25169	0.119	B	0.20184	0.028	T	0.26087	-1.0113	9	0.15499	T	0.54	.	7.2583	0.26189	0.0:0.2672:0.0:0.7328	.	1194	Q68DA7-5	.	A	1194	ENSP00000333950:T1194A	ENSP00000333950:T1194A	T	-	1	0	FMN1	30853814	1.000000	0.71417	0.992000	0.48379	0.412000	0.31113	0.782000	0.26788	0.122000	0.18314	-0.297000	0.09499	ACC		0.408	FMN1-005	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000417414.1	NM_001103184		C	33066522	T	C	33066522	3	2	567	1	0	0	0	0	1	0	0	0	5956	1667	58	3	14	3	FMN1	15	33066522	Missense_Mutation	SNP	T	TCGA-DW-7837-01A-11D-2136-08		33066522	69464870	30	33460										
RAB11A	8766	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	66180113	66180113	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	tgtctccaagcaacaatgtgGttcctattcatgttccacca	6	12	2	0			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr15:66180113G>C	ENST00000261890.2	+	5	714	c.586G>C	c.(586-588)Gtt>Ctt	p.V196L	RAB11A_ENST00000564910.1_Missense_Mutation_p.V126L|RAB11A_ENST00000565075.1_Missense_Mutation_p.V178L|RAB11A_ENST00000569896.1_3'UTR	NM_001206836.1|NM_004663.4	NP_001193765.1|NP_004654.1	P62491	RB11A_HUMAN	RAB11A, member RAS oncogene family	196					cytokinesis (GO:0000910)|establishment of protein localization to membrane (GO:0090150)|exosomal secretion (GO:1990182)|GTP catabolic process (GO:0006184)|melanosome transport (GO:0032402)|multivesicular body assembly (GO:0036258)|neuron projection development (GO:0031175)|plasma membrane to endosome transport (GO:0048227)|positive regulation of axon extension (GO:0045773)|protein localization to plasma membrane (GO:0072659)|protein transport (GO:0015031)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of multivesicular body size (GO:0010796)|regulation of protein transport (GO:0051223)|small GTPase mediated signal transduction (GO:0007264)|transmembrane transport (GO:0055085)|vesicle-mediated transport (GO:0016192)|water transport (GO:0006833)	axon (GO:0030424)|cleavage furrow (GO:0032154)|cytoplasmic vesicle membrane (GO:0030659)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)|multivesicular body (GO:0005771)|perinuclear region of cytoplasm (GO:0048471)|phagocytic vesicle (GO:0045335)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|recycling endosome (GO:0055037)|trans-Golgi network (GO:0005802)|transport vesicle (GO:0030133)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|myosin V binding (GO:0031489)|syntaxin binding (GO:0019905)			kidney(1)|large_intestine(2)|lung(1)|prostate(1)	5						CAACAATGTGGTTCCTATTCA	0.428																																																0													137	123	128					15																	66180113		2201	4299	6500	SO:0001583	missense	8766			X56740	CCDS10212.1, CCDS58373.1	15q22.31	2008-05-14			ENSG00000103769	ENSG00000103769		"RAB, member RAS oncogene"	9760	protein-coding gene	gene with protein product		605570				1704119, 9662449	Standard	NM_004663		Approved	YL8	uc002apk.3	P62491	OTTHUMG00000133162	ENST00000261890.2:c.586G>C	15.37:g.66180113G>C	ENSP00000261890:p.Val196Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4B6|B4DT13|P24410|Q5TZN9|Q9JLX1	Missense_Mutation	SNP	ENST00000261890.2	37	CCDS10212.1	.	.	.	.	.	.	.	.	.	.	G	15.27	2.783421	0.49891	.	.	ENSG00000103769	ENST00000261890	T	0.63744	-0.06	5.45	5.45	0.79879	.	0.056657	0.64402	D	0.000001	T	0.45316	0.1336	N	0.08118	0	0.80722	D	1	B	0.02656	0.0	B	0.04013	0.001	T	0.29397	-1.0013	10	0.29301	T	0.29	.	19.3	0.94140	0.0:0.0:1.0:0.0	.	196	P62491	RB11A_HUMAN	L	196	ENSP00000261890:V196L	ENSP00000261890:V196L	V	+	1	0	RAB11A	63967167	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.869000	0.99810	2.547000	0.85894	0.655000	0.94253	GTT		0.428	RAB11A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256864.1			C	66180113	G	C	66180113	3	2	567	1	0	0	0	0	1	0	0	0	12904	1261	44	4	604	4	RAB11A	15	66180113	Missense_Mutation	SNP	G	TCGA-DW-7837-01A-11D-2136-08	33113591	66180113	36351279	31	33461										
GSPT1	2935	hgsc.bcm.edu	37	chr16	12009529	12009529	+	Intron	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	gctgctgctgccgctgctgcTcccgccgccgccgccgccgc	13	22	0	0			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr16:12009529T>C	ENST00000420576.2	-	1	41				GSPT1_ENST00000434724.2_Missense_Mutation_p.S17G|GSPT1_ENST00000439887.2_Missense_Mutation_p.S17G|AC007216.1_ENST00000583357.1_RNA	NM_001130007.1	NP_001123479.1	P15170	ERF3A_HUMAN	G1 to S phase transition 1						G1/S transition of mitotic cell cycle (GO:0000082)|GTP catabolic process (GO:0006184)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|protein methylation (GO:0006479)|translational termination (GO:0006415)	intracellular (GO:0005622)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|poly(A) RNA binding (GO:0044822)|translation release factor activity (GO:0003747)			breast(1)|central_nervous_system(1)|kidney(4)|lung(4)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	14						ccgctgctgctcccgccgccg	0.766																																																0													1	1	1					16																	12009529		301	1026	1327	SO:0001627	intron_variant	2935			BC008391	CCDS45412.1, CCDS45413.1, CCDS45414.1	16p13.1	2008-08-01							4621	protein-coding gene	gene with protein product		139259				2511002, 17700517	Standard	NM_002094		Approved	GST1, ETF3A, eRF3a	uc002dbt.3	P15170		ENST00000420576.2:c.61+369A>G	16.37:g.12009529T>C		Somatic		WXS	Illumina HiSeq	Phase_I	J3KQG6|Q96GF2	Missense_Mutation	SNP	ENST00000420576.2	37	CCDS45414.1	.	.	.	.	.	.	.	.	.	.	t	9.437	1.087068	0.20390	.	.	ENSG00000103342	ENST00000434724;ENST00000439887	T;T	0.30981	1.51;1.51	1.67	-0.454	0.12197	.	1.131400	0.07067	N	0.834778	T	0.22781	0.0550	.	.	.	0.45962	D	0.998788	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.14309	-1.0477	9	0.59425	D	0.04	-0.002	5.2784	0.15663	0.0:0.6038:0.0:0.3962	.	17;14	E7EQZ3;Q96GF2	.;.	G	17	ENSP00000398131:S17G;ENSP00000408399:S17G	ENSP00000398131:S17G	S	-	1	0	GSPT1	11917030	0.084000	0.21492	0.006000	0.13384	0.324000	0.28378	0.156000	0.16382	0.016000	0.14998	0.166000	0.16787	AGC		0.766	GSPT1-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000421514.1	NM_002094		C	12009529	T	C	12009529	1	2	567	0	1	0	0	0	0	0	0	0	6833	1551	54	3		3	GSPT1	16	12009529	Intron	SNP	T	TCGA-DW-7837-01A-11D-2136-08		12009529	78345224	32	33462										
RSPRY1	89970	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	57265132	57265132	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	atatcaacaatgtgagttcaAttttggagcaaaaccattca	6	7	3	1	rs368309991		TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr16:57265132A>G	ENST00000537866.1	+	13	2303	c.1430A>G	c.(1429-1431)aAt>aGt	p.N477S	RSPRY1_ENST00000394420.4_Missense_Mutation_p.N477S|RSPRY1_ENST00000563073.1_3'UTR			Q96DX4	RSPRY_HUMAN	ring finger and SPRY domain containing 1	477	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.					extracellular region (GO:0005576)	zinc ion binding (GO:0008270)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(6)|lung(10)|ovary(1)|prostate(1)|urinary_tract(3)	27						TGTGAGTTCAATTTTGGAGCA	0.333																																																0								A	SER/ASN	1,4395	2.1+/-5.4	0,1,2197	108	104	105		1430	5.8	1	16		105	0,8600		0,0,4300	no	missense	RSPRY1	NM_133368.1	46	0,1,6497	GG,GA,AA		0.0,0.0227,0.0077	probably-damaging	477/577	57265132	1,12995	2198	4300	6498	SO:0001583	missense	89970			AB075852	CCDS10775.1	16q13	2014-02-12			ENSG00000159579	ENSG00000159579		"RING-type (C3HC4) zinc fingers"	29420	protein-coding gene	gene with protein product						11853319	Standard	NM_133368		Approved	KIAA1972	uc002elb.3	Q96DX4	OTTHUMG00000133462	ENST00000537866.1:c.1430A>G	16.37:g.57265132A>G	ENSP00000443176:p.Asn477Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UX21|Q8ND53	Missense_Mutation	SNP	ENST00000537866.1	37	CCDS10775.1	.	.	.	.	.	.	.	.	.	.	A	27.8	4.863491	0.91511	2.27E-4	0.0	ENSG00000159579	ENST00000394420;ENST00000537866	T;T	0.75704	-0.96;-0.96	5.78	5.78	0.91487	Concanavalin A-like lectin/glucanase (1);SPla/RYanodine receptor subgroup (1);B30.2/SPRY domain (1);SPla/RYanodine receptor SPRY (1);	0.000000	0.85682	D	0.000000	D	0.89777	0.6813	M	0.93197	3.39	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.92360	0.5896	10	0.87932	D	0	.	16.1167	0.81309	1.0:0.0:0.0:0.0	.	477	Q96DX4	RSPRY_HUMAN	S	477	ENSP00000377942:N477S;ENSP00000443176:N477S	ENSP00000377942:N477S	N	+	2	0	RSPRY1	55822633	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.962000	0.93254	2.204000	0.70986	0.528000	0.53228	AAT		0.333	RSPRY1-009	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000432953.1	NM_133368		G	57265132	A	G	57265132	3	3	567	1	0	0	0	0	1	0	0	0	13726	101	4	3	1476	3	RSPRY1	16	57265132	Missense_Mutation	SNP	A	TCGA-DW-7837-01A-11D-2136-08	45255603	57265132	33089621	33	33463										
FAM18B2	201158	ucsc.edu	37	chr17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	tgagcaactcacagagaagaCagacgatgattgcactgact	10	9	1	6			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr17:15457087C>T	ENST00000225576.3	-	3	247	c.152G>A	c.(151-153)tGt>tAt	p.C51Y	TVP23C_ENST00000584811.1_5'UTR|TVP23C_ENST00000518321.1_Missense_Mutation_p.C51Y|TVP23C_ENST00000428082.2_Missense_Mutation_p.C51Y|TVP23C_ENST00000438826.3_Missense_Mutation_p.C51Y|TVP23C_ENST00000519970.1_Intron|TVP23C-CDRT4_ENST00000522212.2_Missense_Mutation_p.C51Y	NM_145301.2	NP_660344.2	Q96ET8	TV23C_HUMAN	trans-golgi network vesicle protein 23 homolog C (S. cerevisiae)	51						integral component of membrane (GO:0016021)											ACAGAGAAGACAGACGATGAT	0.373																																																0													274	265	268					17																	15457087		2203	4300	6503	SO:0001583	missense	201158			BC011952	CCDS11170.1, CCDS45617.1	17p12	2012-11-29	2012-11-29	2012-11-29	ENSG00000175106	ENSG00000175106			30453	protein-coding gene	gene with protein product			"family with sequence similarity 18, member B2"	FAM18B2			Standard	NM_001135036		Approved	MGC8763	uc002goq.2	Q96ET8	OTTHUMG00000171461	ENST00000225576.3:c.152G>A	17.37:g.15457087C>T	ENSP00000225576:p.Cys51Tyr	Somatic		WXS	Illumina HiSeq		Q3LIC7	Missense_Mutation	SNP	ENST00000225576.3	37	CCDS11170.1	.	.	.	.	.	.	.	.	.	.	.	2.368	-0.344949	0.05208	.	.	ENSG00000259024;ENSG00000175106;ENSG00000175106;ENSG00000175106	ENST00000522212;ENST00000225576;ENST00000428082;ENST00000438826	T;T;T;T	0.25749	1.78;1.78;1.78;1.78	4.47	4.47	0.54385	.	0.000000	0.85682	N	0.000000	T	0.02571	0.0078	N	0.00004	-3.335	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.06405	0.0;0.0;0.002	T	0.38457	-0.9660	10	0.02654	T	1	-3.8701	9.492	0.38965	0.0:0.0877:0.0:0.9123	.	51;51;51	Q96ET8-2;Q96ET8-3;Q96ET8	.;.;F18B2_HUMAN	Y	51	ENSP00000429865:C51Y;ENSP00000225576:C51Y;ENSP00000406387:C51Y;ENSP00000413355:C51Y	ENSP00000225576:C51Y	C	-	2	0	RP11-726O12.1;FAM18B2	15397812	1.000000	0.71417	1.000000	0.80357	0.703000	0.40648	6.178000	0.71968	0.670000	0.31165	-0.442000	0.05670	TGT		0.373	TVP23C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000130705.2	NM_145301		T	15457087	C	T	15457087	3	4	567	1	0	0	0	0	1	0	0	0	5524	478	17	2	848	2	FAM18B2	17	15457087	Missense_Mutation	SNP	C	TCGA-DW-7837-01A-11D-2136-08		15457087	65738123	34	33464										
NCOR1	9611	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	15935762	15935762	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	tggagtactgctgagcatccGcatagtcagagggttataag	13	7	1	2			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr17:15935762G>C	ENST00000268712.3	-	46	7428	c.7171C>G	c.(7171-7173)Cgg>Ggg	p.R2391G	NCOR1_ENST00000395857.3_Missense_Mutation_p.R975G|NCOR1_ENST00000395851.1_Missense_Mutation_p.R2288G	NM_006311.3	NP_006302.2	O75376	NCOR1_HUMAN	nuclear receptor corepressor 1	2391	Interaction with C1D. {ECO:0000250}.				CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation (GO:0002361)|cellular lipid metabolic process (GO:0044255)|cholesterol homeostasis (GO:0042632)|chromatin modification (GO:0016568)|circadian regulation of gene expression (GO:0032922)|definitive erythrocyte differentiation (GO:0060318)|gene expression (GO:0010467)|negative regulation of JNK cascade (GO:0046329)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|positive regulation of histone deacetylation (GO:0031065)|regulation of fatty acid transport (GO:2000191)|regulation of glycolytic process by negative regulation of transcription from RNA polymerase II promoter (GO:0072362)|regulation of lipid transport by negative regulation of transcription from RNA polymerase II promoter (GO:0072368)|regulation of multicellular organism growth (GO:0040014)|small molecule metabolic process (GO:0044281)|spindle assembly (GO:0051225)|thalamus development (GO:0021794)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle microtubule (GO:0005876)|transcription factor complex (GO:0005667)|transcriptional repressor complex (GO:0017053)	chromatin binding (GO:0003682)|histone deacetylase binding (GO:0042826)|histone deacetylase regulator activity (GO:0035033)|nuclear hormone receptor binding (GO:0035257)|RNA polymerase II activating transcription factor binding (GO:0001102)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)|transcription regulatory region DNA binding (GO:0044212)	p.R2391W(1)		NS(2)|breast(13)|central_nervous_system(2)|cervix(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(17)|lung(26)|ovary(1)|prostate(7)|skin(2)|upper_aerodigestive_tract(6)|urinary_tract(10)	107				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CTGAGCATCCGCATAGTCAGA	0.468																																																1	Substitution - Missense(1)	prostate(1)											117	106	110					17																	15935762		2203	4300	6503	SO:0001583	missense	9611			AF044209	CCDS11175.1, CCDS54094.1, CCDS54095.1	17p11.2	2014-06-12	2010-06-10		ENSG00000141027	ENSG00000141027			7672	protein-coding gene	gene with protein product	"thyroid hormone- and retinoic acid receptor-associated corepressor 1", "protein phosphatase 1, regulatory subunit 109"	600849	"nuclear receptor co-repressor 1"			7566114, 9724795	Standard	NM_006311		Approved	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216, PPP1R109	uc002gpo.3	O75376	OTTHUMG00000059309	ENST00000268712.3:c.7171C>G	17.37:g.15935762G>C	ENSP00000268712:p.Arg2391Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3DLF8|E9PGV6|Q86YY0|Q9UPV5|Q9UQ18	Missense_Mutation	SNP	ENST00000268712.3	37	CCDS11175.1	.	.	.	.	.	.	.	.	.	.	G	14.64	2.596051	0.46318	.	.	ENSG00000141027	ENST00000268712;ENST00000395851;ENST00000395849;ENST00000395857	T;T;T	0.61040	0.14;0.75;0.25	5.96	3.9	0.45041	.	0.048575	0.85682	D	0.000000	T	0.53367	0.1792	L	0.60455	1.87	0.58432	D	0.999992	B;B;B;B;B	0.29341	0.036;0.013;0.242;0.132;0.06	B;B;B;B;B	0.31614	0.022;0.01;0.133;0.089;0.05	T	0.52990	-0.8501	10	0.56958	D	0.05	-9.7742	10.6076	0.45402	0.0:0.1166:0.4874:0.3961	.	2294;2391;2288;910;404	E7EVK1;O75376;O75376-2;Q86YY1;Q86YY2	.;NCOR1_HUMAN;.;.;.	G	2391;2288;2294;975	ENSP00000268712:R2391G;ENSP00000379192:R2288G;ENSP00000379198:R975G	ENSP00000268712:R2391G	R	-	1	2	NCOR1	15876487	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	3.109000	0.50345	0.780000	0.33566	-0.181000	0.13052	CGG		0.468	NCOR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131751.5	NM_006311		C	15935762	G	C	15935762	3	2	567	1	0	0	0	0	1	0	0	0	10242	1086	38	4	155	4	NCOR1	17	15935762	Missense_Mutation	SNP	G	TCGA-DW-7837-01A-11D-2136-08	478675	15935762	65259448	35	33465										
RND2	8153	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	41180521	41180521	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	cccggtcctctgagcgcagcGtcagggatgtcttccatgtg	13	13	3	1			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr17:41180521G>A	ENST00000587250.2	+	5	615	c.508G>A	c.(508-510)Gtc>Atc	p.V170I	CTD-3199J23.4_ENST00000225973.5_lincRNA|RND2_ENST00000544533.1_Missense_Mutation_p.V171I			P52198	RND2_HUMAN	Rho family GTPase 2	170					GTP catabolic process (GO:0006184)|positive regulation of collateral sprouting (GO:0048672)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	cytoplasmic vesicle (GO:0031410)|early endosome (GO:0005769)|membrane (GO:0016020)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			large_intestine(1)|skin(1)	2		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.156)		TGAGCGCAGCGTCAGGGATGT	0.622																																																0													67	63	65					17																	41180521		2203	4300	6503	SO:0001583	missense	8153			X95456	CCDS11452.1	17q21.31	2012-10-02	2005-01-24	2005-01-24	ENSG00000108830	ENSG00000108830			18315	protein-coding gene	gene with protein product		601555	"ras homolog gene family, member N"	ARHN			Standard	XM_005257706		Approved	Rho7, RhoN	uc002icn.3	P52198	OTTHUMG00000180817	ENST00000587250.2:c.508G>A	17.37:g.41180521G>A	ENSP00000466680:p.Val170Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2D4|O00690|O00734|Q5U0P6|Q99535	Missense_Mutation	SNP	ENST00000587250.2	37	CCDS11452.1	.	.	.	.	.	.	.	.	.	.	G	28.7	4.941209	0.92526	.	.	ENSG00000108830	ENST00000544533;ENST00000225973	T	0.80653	-1.4	5.55	5.55	0.83447	.	0.000000	0.85682	D	0.000000	T	0.81621	0.4861	L	0.36672	1.1	0.80722	D	1	P	0.41643	0.758	P	0.48704	0.587	T	0.82420	-0.0466	10	0.66056	D	0.02	.	19.2909	0.94098	0.0:0.0:1.0:0.0	.	170	P52198	RND2_HUMAN	I	171;170	ENSP00000439328:V171I	ENSP00000225973:V170I	V	+	1	0	RND2	38434047	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.623000	0.98386	2.894000	0.99253	0.655000	0.94253	GTC		0.622	RND2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000453111.2	NM_005440		A	41180521	G	A	41180521	3	1	567	1	0	0	0	0	1	0	0	0	13433	1145	40	1	526	1	RND2	17	41180521	Missense_Mutation	SNP	G	TCGA-DW-7837-01A-11D-2136-08	25244759	41180521	40014689	36	33466										
EVPL	2125	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	74005355	74005355	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	cacctccttgctcaccgtctTggtctccaccttggcccgct	7	19	3	0			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr17:74005355T>G	ENST00000301607.3	-	22	4184	c.3931A>C	c.(3931-3933)Aag>Cag	p.K1311Q	EVPL_ENST00000586740.1_Missense_Mutation_p.K1333Q	NM_001988.2	NP_001979.2	Q92817	EVPL_HUMAN	envoplakin	1311	Central fibrous rod domain.				epidermis development (GO:0008544)|keratinization (GO:0031424)|keratinocyte differentiation (GO:0030216)|peptide cross-linking (GO:0018149)	cell junction (GO:0030054)|cornified envelope (GO:0001533)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	protein binding, bridging (GO:0030674)|structural molecule activity (GO:0005198)			breast(4)|central_nervous_system(4)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(8)|lung(14)|ovary(2)|pancreas(2)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(4)	54						CTCACCGTCTTGGTCTCCACC	0.682																																																0													105	114	111					17																	74005355		2202	4300	6502	SO:0001583	missense	2125			U53786	CCDS11737.1	17q25	2008-07-18				ENSG00000167880			3503	protein-coding gene	gene with protein product		601590				8938451, 10409435	Standard	NM_001988		Approved	EVPK	uc002jqi.2	Q92817		ENST00000301607.3:c.3931A>C	17.37:g.74005355T>G	ENSP00000301607:p.Lys1311Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A0AUV5	Missense_Mutation	SNP	ENST00000301607.3	37	CCDS11737.1	.	.	.	.	.	.	.	.	.	.	T	11.83	1.755797	0.31046	.	.	ENSG00000167880	ENST00000301607	T	0.56611	0.45	5.41	4.32	0.51571	.	0.092795	0.64402	D	0.000001	T	0.53384	0.1793	M	0.75777	2.31	0.37299	D	0.908594	P;B	0.39759	0.687;0.142	B;B	0.37731	0.257;0.048	T	0.63479	-0.6628	10	0.72032	D	0.01	-43.3057	12.5545	0.56246	0.0:0.0:0.1392:0.8608	.	1333;1311	B7ZLH8;Q92817	.;EVPL_HUMAN	Q	1311	ENSP00000301607:K1311Q	ENSP00000301607:K1311Q	K	-	1	0	EVPL	71516950	1.000000	0.71417	1.000000	0.80357	0.581000	0.36288	2.654000	0.46699	0.875000	0.35847	0.459000	0.35465	AAG		0.682	EVPL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449483.1	NM_001988		G	74005355	T	G	74005355	3	3	567	1	0	0	0	0	1	0	0	0	5294	1821	63	5	2174	5	EVPL	17	74005355	Missense_Mutation	SNP	T	TCGA-DW-7837-01A-11D-2136-08	32824834	74005355	7189855	37	33467										
FASN	2194	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	80053200	80053200	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	cgaatgcccgacccacctccGtccacgatggcttcataggt	9	16	1	0	rs568118566		TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr17:80053200G>A	ENST00000306749.2	-	3	494	c.276C>T	c.(274-276)gaC>gaT	p.D92D		NM_004104.4	NP_004095.4	P49327	FAS_HUMAN	fatty acid synthase	92	Beta-ketoacyl synthase. {ECO:0000250}.				acetyl-CoA metabolic process (GO:0006084)|cellular lipid metabolic process (GO:0044255)|cellular response to interleukin-4 (GO:0071353)|energy reserve metabolic process (GO:0006112)|fatty acid biosynthetic process (GO:0006633)|fatty acid metabolic process (GO:0006631)|long-chain fatty-acyl-CoA biosynthetic process (GO:0035338)|osteoblast differentiation (GO:0001649)|pantothenate metabolic process (GO:0015939)|positive regulation of cellular metabolic process (GO:0031325)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|glycogen granule (GO:0042587)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity (GO:0047451)|3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity (GO:0004317)|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity (GO:0004316)|3-oxoacyl-[acyl-carrier-protein] synthase activity (GO:0004315)|[acyl-carrier-protein] S-acetyltransferase activity (GO:0004313)|[acyl-carrier-protein] S-malonyltransferase activity (GO:0004314)|drug binding (GO:0008144)|enoyl-[acyl-carrier-protein] reductase (NADPH, A-specific) activity (GO:0047117)|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity (GO:0004319)|fatty acid synthase activity (GO:0004312)|myristoyl-[acyl-carrier-protein] hydrolase activity (GO:0016295)|NADPH binding (GO:0070402)|oleoyl-[acyl-carrier-protein] hydrolase activity (GO:0004320)|palmitoyl-[acyl-carrier-protein] hydrolase activity (GO:0016296)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			central_nervous_system(3)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(12)|prostate(3)|skin(2)|urinary_tract(1)	34	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)	ACCCACCTCCGTCCACGATGG	0.597													G|||	1	0.000199681	0.0	0.0	5008	,	,		15101	0.0		0.0	False		,,,				2504	0.001				Colon(59;314 1043 11189 28578 32273)											0													73	60	64					17																	80053200		2202	4300	6502	SO:0001819	synonymous_variant	2194			U26644	CCDS11801.1	17q25	2012-01-31			ENSG00000169710	ENSG00000169710	2.3.1.85	"Short chain dehydrogenase/reductase superfamily / Atypical members"	3594	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 27X, member 1"	600212				7835891, 7567999, 19027726	Standard	NM_004104		Approved	FAS, SDR27X1	uc002kdu.3	P49327		ENST00000306749.2:c.276C>T	17.37:g.80053200G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q13479|Q16702|Q4LE83|Q6P4U5|Q6SS02|Q969R1|Q96C68|Q96IT0	Silent	SNP	ENST00000306749.2	37	CCDS11801.1																																																																																				0.597	FASN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000442369.1	NM_004104		A	80053200	G	A	80053200	2	1	567	1	0	0	0	0	0	0	0	1	5690	1136	40	1		1	FASN	17	80053200	Silent	SNP	G	TCGA-DW-7837-01A-11D-2136-08	6047845	80053200	1142010	38	33468										
ZNF536	9745	broad.mit.edu	37	chr19	31039693	31039693	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	taagatggccctgctgccctCgttacaatcaaacaaagacc	7	13	1	2	rs375517415		TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr19:31039693C>T	ENST00000355537.3	+	4	3314	c.3167C>T	c.(3166-3168)tCg>tTg	p.S1056L		NM_014717.1	NP_055532.1	O15090	ZN536_HUMAN	zinc finger protein 536	1056					negative regulation of neuron differentiation (GO:0045665)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|retinoic acid-responsive element binding (GO:0044323)			NS(3)|breast(6)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(22)|lung(119)|ovary(7)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(3)	182	Esophageal squamous(110;0.0834)					CTGCTGCCCTCGTTACAATCA	0.532																																																0													71	68	69					19																	31039693		2203	4300	6503	SO:0001583	missense	9745				CCDS32984.1	19q13.11	2013-01-08				ENSG00000198597		"Zinc fingers, C2H2-type"	29025	protein-coding gene	gene with protein product						9205841	Standard	XM_005259445		Approved	KIAA0390	uc002nsu.1	O15090		ENST00000355537.3:c.3167C>T	19.37:g.31039693C>T	ENSP00000347730:p.Ser1056Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU18	Missense_Mutation	SNP	ENST00000355537.3	37	CCDS32984.1	.	.	.	.	.	.	.	.	.	.	C	9.152	1.016612	0.19355	.	.	ENSG00000198597	ENST00000355537	T	0.09073	3.02	5.74	5.74	0.90152	.	0.568976	0.17248	N	0.181300	T	0.08044	0.0201	L	0.27053	0.805	0.26134	N	0.980378	B;B	0.32781	0.384;0.384	B;B	0.16289	0.015;0.015	T	0.21621	-1.0240	10	0.72032	D	0.01	-2.9081	19.9212	0.97085	0.0:1.0:0.0:0.0	.	1056;1056	A7E228;O15090	.;ZN536_HUMAN	L	1056	ENSP00000347730:S1056L	ENSP00000347730:S1056L	S	+	2	0	ZNF536	35731533	0.982000	0.34865	0.026000	0.17262	0.021000	0.10359	5.246000	0.65411	2.697000	0.92050	0.655000	0.94253	TCG		0.532	ZNF536-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459667.2	NM_014717		T	31039693	C	T	31039693	3	4	567	1	0	0	0	0	1	0	0	0	17986	893	31	1	3177	1	ZNF536	19	31039693	Missense_Mutation	SNP	C	TCGA-DW-7837-01A-11D-2136-08		31039693	28089290	39	33469										
MEGF8	1954	ucsc.edu;bcgsc.ca	37	chr19	42861619	42861619	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	ttactgcccgccgaggcctgTctctgctcctggtgggcggt	14	14	1	0			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr19:42861619T>C	ENST00000251268.6	+	28	4894	c.4894T>C	c.(4894-4896)Tct>Cct	p.S1632P	MEGF8_ENST00000334370.4_Missense_Mutation_p.S1565P	NM_001271938.1	NP_001258867.1	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	1632					BMP signaling pathway (GO:0030509)|cell migration involved in gastrulation (GO:0042074)|craniofacial suture morphogenesis (GO:0097094)|determination of digestive tract left/right asymmetry (GO:0071907)|determination of heart left/right asymmetry (GO:0061371)|embryonic heart tube left/right pattern formation (GO:0060971)|embryonic heart tube morphogenesis (GO:0003143)|embryonic limb morphogenesis (GO:0030326)|embryonic skeletal system morphogenesis (GO:0048704)|epiboly involved in gastrulation with mouth forming second (GO:0055113)|fasciculation of sensory neuron axon (GO:0097155)|left/right pattern formation (GO:0060972)|limb morphogenesis (GO:0035108)|positive regulation of axon extension involved in axon guidance (GO:0048842)|regulation of gene expression (GO:0010468)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|receptor activity (GO:0004872)			breast(2)|cervix(1)|endometrium(11)|kidney(2)|large_intestine(9)|lung(20)|ovary(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	50		Prostate(69;0.00682)				CCGAGGCCTGTCTCTGCTCCT	0.657																																																0													62	63	63					19																	42861619		2203	4300	6503	SO:0001583	missense	1954			AB011541	CCDS12604.2, CCDS62693.1	19q13.2	2011-11-24	2006-03-31	2006-03-31	ENSG00000105429	ENSG00000105429			3233	protein-coding gene	gene with protein product	"HBV pre s2 binding protein 1"	604267	"EGF-like-domain, multiple 4", "chromosome 19 open reading frame 49"	EGFL4, C19orf49		9693030	Standard	NM_001410		Approved	SBP1, FLJ22365	uc002otm.5	Q7Z7M0	OTTHUMG00000150342	ENST00000251268.6:c.4894T>C	19.37:g.42861619T>C	ENSP00000251268:p.Ser1632Pro	Somatic		WXS	Illumina HiSeq		A8KAY0|O75097	Missense_Mutation	SNP	ENST00000251268.6	37		.	.	.	.	.	.	.	.	.	.	T	21.7	4.190737	0.78789	.	.	ENSG00000105429	ENST00000334370;ENST00000251268	T;T	0.23147	1.93;1.92	5.21	4.19	0.49359	Galactose oxidase/kelch, beta-propeller (1);Kelch-type beta propeller (1);	0.157535	0.41938	D	0.000790	T	0.47284	0.1437	M	0.73962	2.25	0.80722	D	1	D;D	0.89917	1.0;0.992	D;D	0.85130	0.997;0.981	T	0.35400	-0.9790	10	0.31617	T	0.26	-13.4688	10.5824	0.45263	0.1446:0.0:0.0:0.8554	.	1632;1565	Q7Z7M0;Q7Z7M0-2	MEGF8_HUMAN;.	P	1565;1632	ENSP00000334219:S1565P;ENSP00000251268:S1632P	ENSP00000251268:S1632P	S	+	1	0	MEGF8	47553459	1.000000	0.71417	0.995000	0.50966	0.850000	0.48378	5.666000	0.68059	0.814000	0.34374	0.460000	0.39030	TCT		0.657	MEGF8-002	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000463854.1	NM_001410		C	42861619	T	C	42861619	3	2	567	1	0	0	0	0	1	0	0	0	9470	1667	58	3	4799	3	MEGF8	19	42861619	Missense_Mutation	SNP	T	TCGA-DW-7837-01A-11D-2136-08	11821926	42861619	16267364	40	33470										
NLRP5	126206	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	56539072	56539072	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	gacgtggtgggggagagcgtCgcccccttcaaccaaacgct	14	13	1	1			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr19:56539072C>T	ENST00000390649.3	+	7	1473	c.1473C>T	c.(1471-1473)gtC>gtT	p.V491V		NM_153447.4	NP_703148.4	P59047	NALP5_HUMAN	NLR family, pyrin domain containing 5	491	NACHT. {ECO:0000255|PROSITE- ProRule:PRU00136}.				cellular protein complex assembly (GO:0043623)|cellular protein localization (GO:0034613)|embryo implantation (GO:0007566)|fertilization (GO:0009566)|in utero embryonic development (GO:0001701)|neuron death (GO:0070997)|organ morphogenesis (GO:0009887)|regulation of protein stability (GO:0031647)|regulation of RNA stability (GO:0043487)	apical cortex (GO:0045179)|cytosol (GO:0005829)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|protein complex (GO:0043234)	ATP binding (GO:0005524)			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|ovary(5)|skin(2)|stomach(4)|upper_aerodigestive_tract(2)	25		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		GGGAGAGCGTCGCCCCCTTCA	0.632																																																0													31	34	33					19																	56539072		2140	4237	6377	SO:0001819	synonymous_variant	126206			AY154460	CCDS12938.1	19q13.43	2008-10-30	2006-12-08	2006-12-08	ENSG00000171487	ENSG00000171487		"Nucleotide-binding domain and leucine rich repeat containing"	21269	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 5"	609658	"NACHT, leucine rich repeat and PYD containing 5"	NALP5		12563287, 11925379	Standard	NM_153447		Approved	PYPAF8, MATER, PAN11, CLR19.8	uc002qmj.3	P59047	OTTHUMG00000149887	ENST00000390649.3:c.1473C>T	19.37:g.56539072C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MTY4|Q86W29	Silent	SNP	ENST00000390649.3	37	CCDS12938.1																																																																																				0.632	NLRP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313735.1	NM_153447		T	56539072	C	T	56539072	2	4	567	1	0	0	0	0	0	0	0	1	10487	871	31	1		1	NLRP5	19	56539072	Silent	SNP	C	TCGA-DW-7837-01A-11D-2136-08	13677453	56539072	2589911	41	33471										
TRPC4AP	26133	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	33591257	33591257	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	gtccttgtgcaggtagtgctGctgccagaagcgcagcaggt	15	10	0	1			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr20:33591257G>T	ENST00000252015.2	-	18	2301	c.2212C>A	c.(2212-2214)Cag>Aag	p.Q738K	TRPC4AP_ENST00000432634.2_Missense_Mutation_p.Q699K|TRPC4AP_ENST00000451813.2_Missense_Mutation_p.Q730K|TRPC4AP_ENST00000539834.1_Missense_Mutation_p.Q340K			Q8TEL6	TP4AP_HUMAN	transient receptor potential cation channel, subfamily C, member 4 associated protein	738					calcium ion transmembrane transport (GO:0070588)|ion transmembrane transport (GO:0034220)|protein ubiquitination (GO:0016567)|transmembrane transport (GO:0055085)|ubiquitin-dependent protein catabolic process (GO:0006511)	Cul4A-RING E3 ubiquitin ligase complex (GO:0031464)|plasma membrane (GO:0005886)	phosphatase binding (GO:0019902)			breast(3)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(13)|skin(1)|stomach(1)|urinary_tract(1)	32			BRCA - Breast invasive adenocarcinoma(18;0.00936)			AGGTAGTGCTGCTGCCAGAAG	0.632																																																0													59	59	59					20																	33591257		2203	4300	6503	SO:0001583	missense	26133			AF055022	CCDS13246.1, CCDS46591.1	20q11.23	2014-06-13	2003-10-06	2003-10-08	ENSG00000100991	ENSG00000100991			16181	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 158"	608430	"chromosome 20 open reading frame 188"	C20orf188			Standard	NM_015638		Approved	DKFZP727M231, DKFZp586C1223, dJ756N5.2, TRRP4AP, PPP1R158	uc002xbk.3	Q8TEL6	OTTHUMG00000032319	ENST00000252015.2:c.2212C>A	20.37:g.33591257G>T	ENSP00000252015:p.Gln738Lys	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5Q0|E1P5Q1|Q96H82|Q9BVB8|Q9H429|Q9UFS6	Missense_Mutation	SNP	ENST00000252015.2	37	CCDS13246.1	.	.	.	.	.	.	.	.	.	.	G	6.251	0.414503	0.11870	.	.	ENSG00000100991	ENST00000252015;ENST00000451813;ENST00000539834;ENST00000432634;ENST00000541994	.	.	.	4.65	4.65	0.58169	.	0.189321	0.48767	D	0.000179	T	0.51517	0.1679	L	0.36672	1.1	0.50632	D	0.999882	B;B;B	0.20164	0.042;0.042;0.042	B;B;B	0.16289	0.015;0.015;0.015	T	0.47586	-0.9106	9	0.12766	T	0.61	.	17.7234	0.88358	0.0:0.0:1.0:0.0	.	699;730;738	B4E0Q1;E1P5Q0;Q8TEL6	.;.;TP4AP_HUMAN	K	738;730;340;699;723	.	ENSP00000252015:Q738K	Q	-	1	0	TRPC4AP	33054918	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.652000	0.83633	2.398000	0.81561	0.462000	0.41574	CAG		0.632	TRPC4AP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078832.2	NM_015638		T	33591257	G	T	33591257	3	4	567	1	0	0	0	0	1	0	0	0	16593	1328	46	4	189	4	TRPC4AP	20	33591257	Missense_Mutation	SNP	G	TCGA-DW-7837-01A-11D-2136-08		33591257	29434263	42	33472										
KCNQ2	3785	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	62078166	62078166	+	Silent	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	gtggaaaacacagacagcacGaggcaggagaaaaccaggag	14	8	0	2			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr20:62078166G>C	ENST00000359125.2	-	2	495	c.321C>G	c.(319-321)ctC>ctG	p.L107L	KCNQ2_ENST00000360480.3_Silent_p.L107L|KCNQ2_ENST00000354587.3_Silent_p.L107L|KCNQ2_ENST00000344425.5_Silent_p.L107L|KCNQ2_ENST00000344462.4_Silent_p.L107L|KCNQ2_ENST00000357249.2_Silent_p.L107L|RP11-358D14.2_ENST00000436263.1_RNA|KCNQ2_ENST00000359689.1_Silent_p.L107L|KCNQ2_ENST00000370224.1_Silent_p.L107L	NM_172107.2	NP_742105.1	O43526	KCNQ2_HUMAN	potassium voltage-gated channel, KQT-like subfamily, member 2	107					axon guidance (GO:0007411)|nervous system development (GO:0007399)|potassium ion transport (GO:0006813)|synaptic transmission (GO:0007268)|transmission of nerve impulse (GO:0019226)	axon initial segment (GO:0043194)|node of Ranvier (GO:0033268)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	ankyrin binding (GO:0030506)|delayed rectifier potassium channel activity (GO:0005251)|potassium channel activity (GO:0005267)|voltage-gated potassium channel activity (GO:0005249)			biliary_tract(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(4)|liver(1)|lung(30)|ovary(2)|prostate(4)|skin(3)|upper_aerodigestive_tract(1)	65	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)|Diclofenac(DB00586)|Ezogabine(DB04953)|Meclofenamic acid(DB00939)	CAGACAGCACGAGGCAGGAGA	0.632																																																0													85	80	82					20																	62078166		2203	4300	6503	SO:0001819	synonymous_variant	3785			AF033348	CCDS13518.1, CCDS13519.1, CCDS13520.1, CCDS13521.1, CCDS46629.1	20q13.33	2012-07-05			ENSG00000075043	ENSG00000075043		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6296	protein-coding gene	gene with protein product		602235		EBN, EBN1		9425895, 16382104	Standard	NM_172107		Approved	Kv7.2, ENB1, BFNC, KCNA11, HNSPC	uc002yex.3	O43526	OTTHUMG00000033049	ENST00000359125.2:c.321C>G	20.37:g.62078166G>C		Somatic		WXS	Illumina HiSeq	Phase_I	O43796|O75580|O95845|Q4VXP4|Q4VXR6|Q5VYT8|Q96J59|Q99454	Silent	SNP	ENST00000359125.2	37	CCDS13520.1																																																																																				0.632	KCNQ2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000080353.1	NM_172109		C	62078166	G	C	62078166	2	2	567	1	0	0	0	0	0	0	0	1	8090	1045	37	4		4	KCNQ2	20	62078166	Silent	SNP	G	TCGA-DW-7837-01A-11D-2136-08	28486909	62078166	947354	43	33473										
RFPL2	10739	ucsc.edu	37	chr22	32598347	32598347	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	tccttatcaccatcatgtctGcaaagtcccagtggccacac	6	15	3	0			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chr22:32598347G>A	ENST00000400237.1	-	2	1027	c.92C>T	c.(91-93)gCa>gTa	p.A31V	RFPL2_ENST00000400236.3_5'UTR|RFPL2_ENST00000248983.4_5'UTR|RP1-90G24.10_ENST00000434942.1_RNA			O75678	RFPL2_HUMAN	ret finger protein-like 2	31							zinc ion binding (GO:0008270)			endometrium(2)|kidney(4)|large_intestine(3)|lung(9)|ovary(1)|skin(2)	21						catcatgtctgcaaagtccca	0.517																																																0													91	82	85					22																	32598347		1568	3581	5149	SO:0001583	missense	10739			AJ010231	CCDS43009.1, CCDS46694.1, CCDS43009.2	22q12.3	2008-06-12				ENSG00000128253		"RING-type (C3HC4) zinc fingers"	9979	protein-coding gene	gene with protein product		605969				10508838	Standard	NM_001098527		Approved	RNF79	uc003amg.3	O75678		ENST00000400237.1:c.92C>T	22.37:g.32598347G>A	ENSP00000383096:p.Ala31Val	Somatic		WXS	Illumina HiSeq			Missense_Mutation	SNP	ENST00000400237.1	37	CCDS43009.2	.	.	.	.	.	.	.	.	.	.	G	10.44	1.351246	0.24512	.	.	ENSG00000128253	ENST00000400237	T	0.57107	0.42	.	.	.	.	.	.	.	.	T	0.33673	0.0871	N	0.08118	0	0.23936	N	0.996413	P	0.43392	0.805	P	0.45506	0.483	T	0.21177	-1.0253	7	0.87932	D	0	.	.	.	.	.	31	O75678	RFPL2_HUMAN	V	31	ENSP00000383096:A31V	ENSP00000383096:A31V	A	-	2	0	RFPL2	30928347	0.008000	0.16893	0.333000	0.25482	0.334000	0.28698	-0.112000	0.10791	0.088000	0.17205	0.089000	0.15464	GCA		0.517	RFPL2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000075262.2	NM_006605		A	32598347	G	A	32598347	3	1	567	1	0	0	0	0	1	0	0	0	13267	1319	46	2	1142	2	RFPL2	22	32598347	Missense_Mutation	SNP	G	TCGA-DW-7837-01A-11D-2136-08		32598347	18706219	44	33474										
RPS6KA3	6197	hgsc.bcm.edu	37	chrX	20195138	20195138	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0666666666666667	3	1	1.03225806451613	1.80645161290323	0.555831265508685	1	1	0	tctgtttgcaggatttcgctTgaaaagcattcgtaaaagac	9	7	1	2			TCGA-DW-7837-01A-11D-2136-08	TCGA-DW-7837-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ec9b4fb0-c3b1-4a2b-a3e7-393b27f961da	5a082628-cf8e-4550-812a-28faf2a1735e	g.chrX:20195138T>C	ENST00000379565.3	-	11	1117	c.910A>G	c.(910-912)Aag>Gag	p.K304E	RPS6KA3_ENST00000544447.1_Missense_Mutation_p.K276E|RPS6KA3_ENST00000379548.4_Missense_Mutation_p.K275E|RPS6KA3_ENST00000540702.1_Missense_Mutation_p.K276E	NM_004586.2	NP_004577.1	P51812	KS6A3_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide 3	304	Protein kinase 1. {ECO:0000255|PROSITE- ProRule:PRU00159}.				axon guidance (GO:0007411)|cell cycle (GO:0007049)|central nervous system development (GO:0007417)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of cell differentiation (GO:0045597)|positive regulation of cell growth (GO:0030307)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of DNA-templated transcription in response to stress (GO:0043620)|regulation of translation in response to stress (GO:0043555)|response to lipopolysaccharide (GO:0032496)|signal transduction (GO:0007165)|skeletal system development (GO:0001501)|stress-activated MAPK cascade (GO:0051403)|synaptic transmission (GO:0007268)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|cysteine-type endopeptidase inhibitor activity involved in apoptotic process (GO:0043027)|magnesium ion binding (GO:0000287)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			breast(4)|central_nervous_system(4)|endometrium(3)|kidney(2)|large_intestine(5)|liver(14)|lung(7)|ovary(1)|stomach(1)	41					Acetylsalicylic acid(DB00945)	GGATTTCGCTTGAAAAGCATT	0.318																																																0													60	62	61					X																	20195138		2203	4300	6503	SO:0001583	missense	6197			U08316	CCDS14197.1	Xp22.2-p22.1	2013-06-03	2002-08-29		ENSG00000177189	ENSG00000177189			10432	protein-coding gene	gene with protein product		300075	"ribosomal protein S6 kinase, 90kD, polypeptide 3", "mental retardation, X-linked 19", "Coffin-Lowry syndrome"	MRX19, CLS		8141249, 11896450, 16879200	Standard	XM_005274573		Approved	RSK, RSK2, HU-3	uc004czu.3	P51812	OTTHUMG00000021231	ENST00000379565.3:c.910A>G	X.37:g.20195138T>C	ENSP00000368884:p.Lys304Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9V4|Q4VAP3|Q59H26|Q5JPK8|Q7Z3Z7	Missense_Mutation	SNP	ENST00000379565.3	37	CCDS14197.1	.	.	.	.	.	.	.	.	.	.	T	16.85	3.237629	0.58886	.	.	ENSG00000177189	ENST00000379565;ENST00000544447;ENST00000379548;ENST00000540702	T;T;T;T	0.52754	0.65;0.65;0.65;0.65	5.64	5.64	0.86602	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.39091	0.1065	N	0.01817	-0.705	0.80722	D	1	B;B;P;B	0.52842	0.17;0.165;0.956;0.198	B;B;P;B	0.59546	0.134;0.034;0.859;0.084	T	0.55418	-0.8144	10	0.37606	T	0.19	.	14.8754	0.70491	0.0:0.0:0.0:1.0	.	276;275;276;304	B4DG22;F5GYC4;B7ZB17;P51812	.;.;.;KS6A3_HUMAN	E	304;276;275;276	ENSP00000368884:K304E;ENSP00000440220:K276E;ENSP00000368865:K275E;ENSP00000444837:K276E	ENSP00000368865:K275E	K	-	1	0	RPS6KA3	20105059	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	6.215000	0.72206	1.894000	0.54839	0.417000	0.27973	AAG		0.318	RPS6KA3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000056011.3	NM_004586		C	20195138	T	C	20195138	3	2	567	1	0	0	0	0	1	0	0	0	13665	1821	63	3	1360	3	RPS6KA3	23	20195138	Missense_Mutation	SNP	T	TCGA-DW-7837-01A-11D-2136-08		20195138	135075422	45	33475										
PEX14	5195	hgsc.bcm.edu	37	chr1	10535061	10535061	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ggcagagcagccgagccaggTaaggggagtgggactgcccc	18	11	0	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr1:10535061T>C	ENST00000356607.4	+	1	116		c.e1+2		DFFA_ENST00000377038.3_5'Flank|PEX14_ENST00000538836.1_Splice_Site|DFFA_ENST00000377036.2_5'Flank	NM_004565.2	NP_004556.1	O75381	PEX14_HUMAN	peroxisomal biogenesis factor 14						microtubule anchoring (GO:0034453)|negative regulation of protein binding (GO:0032091)|negative regulation of protein homotetramerization (GO:1901094)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription, DNA-templated (GO:0045892)|peroxisome organization (GO:0007031)|peroxisome transport along microtubule (GO:0036250)|protein complex assembly (GO:0006461)|protein homooligomerization (GO:0051260)|protein import into peroxisome matrix (GO:0016558)|protein import into peroxisome matrix, substrate release (GO:0044721)|protein import into peroxisome matrix, translocation (GO:0016561)	integral component of membrane (GO:0016021)|intracellular (GO:0005622)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)|protein complex (GO:0043234)	beta-tubulin binding (GO:0048487)|microtubule binding (GO:0008017)|protein N-terminus binding (GO:0047485)|receptor binding (GO:0005102)|transcription corepressor activity (GO:0003714)			breast(3)|endometrium(1)|large_intestine(3)|lung(5)|prostate(1)	13	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)		CCGAGCCAGGTAAGGGGAGTG	0.692																																																0													18	20	19					1																	10535061		2193	4296	6489	SO:0001630	splice_region_variant	5195			AF045186	CCDS30582.1	1p36.22	2008-05-14			ENSG00000142655	ENSG00000142655			8856	protein-coding gene	gene with protein product		601791				9653144	Standard	NM_004565		Approved		uc001arn.3	O75381	OTTHUMG00000001908	ENST00000356607.4:c.36+2T>C	1.37:g.10535061T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R7N1|B3KML6|B7Z1N2|Q8WX51	Splice_Site	SNP	ENST00000356607.4	37	CCDS30582.1	.	.	.	.	.	.	.	.	.	.	T	22.4	4.285608	0.80803	.	.	ENSG00000142655	ENST00000356607	.	.	.	4.85	4.85	0.62838	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.4758	0.67546	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	PEX14	10457648	1.000000	0.71417	0.991000	0.47740	0.989000	0.77384	4.621000	0.61233	1.821000	0.53095	0.533000	0.62120	.		0.692	PEX14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005414.1		Intron	C	10535061	T	C	10535061	5	2	568	1	0	0	0	0	0	0	1	0	11749	1652	57	3	40	3	PEX14	1	10535061	Splice_Site	SNP	T	TCGA-DW-7838-01A-11D-2136-08		10535061	238715560	1	33476										
TRIM63	84676	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	26386776	26386776	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ccttggtcactcgacgggaaTcctccagctgagtgatgatg	12	11	1	3			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr1:26386776T>A	ENST00000374272.3	-	4	716	c.578A>T	c.(577-579)gAt>gTt	p.D193V	TRIM63_ENST00000483052.1_5'Flank	NM_032588.3	NP_115977.2	Q969Q1	TRI63_HUMAN	tripartite motif containing 63, E3 ubiquitin protein ligase	193	Interaction with TTN.				cellular response to dexamethasone stimulus (GO:0071549)|muscle contraction (GO:0006936)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|regulation of gene expression (GO:0010468)|response to electrical stimulus involved in regulation of muscle adaptation (GO:0014878)|response to interleukin-1 (GO:0070555)|signal transduction (GO:0007165)|skeletal muscle atrophy (GO:0014732)	contractile fiber (GO:0043292)|cytoplasm (GO:0005737)|microtubule (GO:0005874)|nucleus (GO:0005634)	ligase activity (GO:0016874)|signal transducer activity (GO:0004871)|titin binding (GO:0031432)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			kidney(1)|large_intestine(1)|ovary(1)|skin(1)|stomach(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;0.000154)|all_lung(284;0.00021)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0133)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;9.15e-26)|Colorectal(126;3.16e-08)|COAD - Colon adenocarcinoma(152;1.72e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000767)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		TCGACGGGAATCCTCCAGCTG	0.572																																																0													122	113	116					1																	26386776		2203	4300	6503	SO:0001583	missense	84676			AF353673	CCDS273.1	1p34-p33	2014-09-17	2012-02-23	2004-11-17	ENSG00000158022	ENSG00000158022		"RING-type (C3HC4) zinc fingers", "Tripartite motif containing / Tripartite motif containing"	16007	protein-coding gene	gene with protein product	"muscle-specific RING finger protein 1", "iris ring finger protein", "striated muscle RING zinc finger protein"	606131	"ring finger protein 28", "tripartite motif-containing 63", "tripartite motif containing 63"	RNF28		11243782, 11283016	Standard	NM_032588		Approved	MURF-1, IRF, SMRZ	uc001bli.2	Q969Q1	OTTHUMG00000007510	ENST00000374272.3:c.578A>T	1.37:g.26386776T>A	ENSP00000363390:p.Asp193Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DN95|Q5T2I1|Q96BD3|Q96KD9|Q9BYV4	Missense_Mutation	SNP	ENST00000374272.3	37	CCDS273.1	.	.	.	.	.	.	.	.	.	.	T	18.01	3.528379	0.64860	.	.	ENSG00000158022	ENST00000374272	T	0.39787	1.06	5.21	5.21	0.72293	.	0.086183	0.85682	D	0.000000	T	0.50222	0.1603	M	0.68593	2.085	0.80722	D	1	B	0.32893	0.389	B	0.40741	0.339	T	0.55792	-0.8085	10	0.87932	D	0	.	15.0417	0.71796	0.0:0.0:0.0:1.0	.	193	Q969Q1	TRI63_HUMAN	V	193	ENSP00000363390:D193V	ENSP00000363390:D193V	D	-	2	0	TRIM63	26259363	1.000000	0.71417	1.000000	0.80357	0.774000	0.43823	5.828000	0.69307	2.081000	0.62600	0.379000	0.24179	GAT		0.572	TRIM63-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019750.1	NM_032588		A	26386776	T	A	26386776	3	1	568	1	0	0	0	0	1	0	0	0	16550	1435	50	5	507	5	TRIM63	1	26386776	Missense_Mutation	SNP	T	TCGA-DW-7838-01A-11D-2136-08	15851715	26386776	222863845	2	33477										
SERINC2	347735	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	31897695	31897695	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tctgcgtgagcagcagccggGacccccgggctgccatccag	14	16	1	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr1:31897695G>A	ENST00000373709.3	+	3	517	c.367G>A	c.(367-369)Gac>Aac	p.D123N	SERINC2_ENST00000536384.1_Missense_Mutation_p.D127N|SERINC2_ENST00000536859.1_Missense_Mutation_p.D127N|SERINC2_ENST00000373710.1_Missense_Mutation_p.D132N|SERINC2_ENST00000491976.1_3'UTR	NM_178865.4	NP_849196.2	Q96SA4	SERC2_HUMAN	serine incorporator 2	123					phosphatidylserine metabolic process (GO:0006658)|positive regulation of transferase activity (GO:0051347)|sphingolipid metabolic process (GO:0006665)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	L-serine transmembrane transporter activity (GO:0015194)			cervix(1)|endometrium(2)|large_intestine(1)|lung(4)|ovary(1)|prostate(1)|skin(2)	12		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0629)|Breast(348;0.0707)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0541)|READ - Rectum adenocarcinoma(331;0.151)		CAGCAGCCGGGACCCCCGGGC	0.652																																																0																																										SO:0001583	missense	347735			AY094595	CCDS30662.1, CCDS55583.1, CCDS55584.1, CCDS55585.1	1p35.1	2008-02-05	2005-11-01	2005-11-01	ENSG00000168528	ENSG00000168528			23231	protein-coding gene	gene with protein product		614549	"tumor differentially expressed 2-like"	TDE2L		12949800	Standard	NM_178865		Approved	FKSG84, PRO0899, TDE2	uc010ogh.2	Q96SA4	OTTHUMG00000003796	ENST00000373709.3:c.367G>A	1.37:g.31897695G>A	ENSP00000362813:p.Asp123Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVB4|B4DJK5|B7Z567|B7ZAP2|E7EUZ9|Q86Y23	Missense_Mutation	SNP	ENST00000373709.3	37	CCDS30662.1	.	.	.	.	.	.	.	.	.	.	G	35	5.477629	0.96291	.	.	ENSG00000168528	ENST00000373710;ENST00000536859;ENST00000373709;ENST00000536384	T;T;T;T	0.15256	2.44;2.44;2.44;2.44	4.24	4.24	0.50183	.	0.000000	0.85682	D	0.000000	T	0.40040	0.1101	L	0.61036	1.89	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.87578	0.998;0.998;0.998;0.997	T	0.35895	-0.9770	10	0.87932	D	0	-47.5929	16.3974	0.83613	0.0:0.0:1.0:0.0	.	127;132;127;123	B4DJK5;E7EUZ9;B7Z567;Q96SA4	.;.;.;SERC2_HUMAN	N	132;127;123;127	ENSP00000362814:D132N;ENSP00000444307:D127N;ENSP00000362813:D123N;ENSP00000439048:D127N	ENSP00000362813:D123N	D	+	1	0	SERINC2	31670282	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	9.582000	0.98214	2.204000	0.70986	0.609000	0.83330	GAC		0.652	SERINC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000010680.1	NM_018565		A	31897695	G	A	31897695	3	1	568	1	0	0	0	0	1	0	0	0	14093	1174	41	2	377	2	SERINC2	1	31897695	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	5510919	31897695	217352926	3	33478										
KIF2C	11004	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	45206651	45206651	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ctgtgtttcagtggaatgggCagaaggaggtgccacaaagg	16	6	1	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr1:45206651C>A	ENST00000372224.4	+	2	250	c.137C>A	c.(136-138)gCa>gAa	p.A46E	KIF2C_ENST00000493027.1_3'UTR|KIF2C_ENST00000372218.4_Missense_Mutation_p.A46E	NM_006845.3	NP_006836.2	Q99661	KIF2C_HUMAN	kinesin family member 2C	46	Globular. {ECO:0000255}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|blood coagulation (GO:0007596)|cell proliferation (GO:0008283)|chromosome segregation (GO:0007059)|establishment or maintenance of microtubule cytoskeleton polarity (GO:0030951)|metabolic process (GO:0008152)|microtubule depolymerization (GO:0007019)|microtubule-based movement (GO:0007018)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|regulation of chromosome segregation (GO:0051983)	chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|kinesin complex (GO:0005871)|kinetochore (GO:0000776)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|microtubule plus-end (GO:0035371)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|centromeric DNA binding (GO:0019237)|microtubule motor activity (GO:0003777)|microtubule plus-end binding (GO:0051010)			breast(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(16)|ovary(1)|skin(1)|urinary_tract(1)	34	Acute lymphoblastic leukemia(166;0.155)					GTGGAATGGGCAGAAGGAGGT	0.413																																																0													106	102	103					1																	45206651		2203	4300	6503	SO:0001583	missense	11004			U63743	CCDS512.1, CCDS72774.1	1p34.1	2014-01-21	2003-01-13	2003-01-17	ENSG00000142945	ENSG00000142945		"Kinesins"	6393	protein-coding gene	gene with protein product		604538	"kinesin-like 6 (mitotic centromere-associated kinesin)"	KNSL6		9434124	Standard	NM_006845		Approved	MCAK, CT139	uc001cmg.4	Q99661	OTTHUMG00000008416	ENST00000372224.4:c.137C>A	1.37:g.45206651C>A	ENSP00000361298:p.Ala46Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B3ITR9|Q5JR88|Q6ICU1|Q96C18|Q96HB8|Q9BWV8	Missense_Mutation	SNP	ENST00000372224.4	37	CCDS512.1	.	.	.	.	.	.	.	.	.	.	c	15.02	2.708022	0.48412	.	.	ENSG00000142945	ENST00000452259;ENST00000372224;ENST00000372218;ENST00000455186	T;T;T;T	0.74947	1.14;-0.89;-0.72;0.9	5.95	0.825	0.18824	.	1.230180	0.05208	N	0.506277	T	0.64864	0.2637	L	0.43152	1.355	0.80722	D	1	B;B	0.06786	0.001;0.001	B;B	0.17098	0.017;0.017	T	0.55554	-0.8123	10	0.52906	T	0.07	.	2.3087	0.04181	0.1215:0.4871:0.1181:0.2733	.	46;46	B7Z6Q6;Q99661	.;KIF2C_HUMAN	E	46;46;46;37	ENSP00000410346:A46E;ENSP00000361298:A46E;ENSP00000361292:A46E;ENSP00000395050:A37E	ENSP00000361292:A46E	A	+	2	0	KIF2C	44979238	0.981000	0.34729	0.990000	0.47175	0.995000	0.86356	-0.030000	0.12308	-0.083000	0.12618	0.655000	0.94253	GCA		0.413	KIF2C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023180.1	NM_006845		A	45206651	C	A	45206651	3	1	568	1	0	0	0	0	1	0	0	0	8306	710	25	4	143	4	KIF2C	1	45206651	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	13308956	45206651	204043970	4	33479										
WDR47	22911	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	109554105	109554105	+	Frame_Shift_Del	DEL	T	T	-													0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ataaacgattgttactagccTtaaaaccagcttcacttagc							TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr1:109554105delT	ENST00000369962.3	-	5	785	c.563delA	c.(562-564)aagfs	p.K188fs	WDR47_ENST00000369965.4_Frame_Shift_Del_p.K188fs|WDR47_ENST00000361054.3_Frame_Shift_Del_p.K160fs|WDR47_ENST00000400794.3_Frame_Shift_Del_p.K195fs|WDR47_ENST00000357672.3_Frame_Shift_Del_p.K160fs			O94967	WDR47_HUMAN	WD repeat domain 47	188					multicellular organismal development (GO:0007275)	cytoplasm (GO:0005737)|microtubule (GO:0005874)				breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(7)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	20		all_lung(203;0.00519)|all_epithelial(167;0.00611)|Lung NSC(277;0.00822)		Colorectal(144;0.0165)|Lung(183;0.0484)|COAD - Colon adenocarcinoma(174;0.128)|Epithelial(280;0.168)|all cancers(265;0.201)|LUSC - Lung squamous cell carcinoma(189;0.244)		GTTACTAGCCTTAAAACCAGC	0.413																																																0													206	212	210					1																	109554105		2203	4296	6499	SO:0001589	frameshift_variant	22911			AB020700	CCDS30787.1, CCDS44186.1, CCDS44187.1	1p13.3	2013-01-09			ENSG00000085433	ENSG00000085433		"WD repeat domain containing"	29141	protein-coding gene	gene with protein product		615734				10048485	Standard	NM_014969		Approved	KIAA0893	uc001dwl.3	O94967	OTTHUMG00000011734	ENST00000369962.3:c.563delA	1.37:g.109554105delT	ENSP00000358979:p.Lys188fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8MX09|Q5TYV7|Q5TYV8|Q5TYV9|Q8IXT7|Q8IYU9	Frame_Shift_Del	DEL	ENST00000369962.3	37	CCDS44187.1																																																																																				0.413	WDR47-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000032414.2	NM_014969		-	109554105	T	-	109554105	7	5	568	1	0	1	0	1	0	0	0	0	17312	1609	56	0	2243	0	WDR47	1	109554105	Frame_Shift_Del	DEL	T	TCGA-DW-7838-01A-11D-2136-08	64347454	109554105	139696516	5	33480										
ST7L	54879	bcgsc.ca	37	chr1	113119657	113119657	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ctctatgaattgcttccacgGcattaatttctgctgtgctt	7	10	2	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr1:113119657G>A	ENST00000358039.4	-	11	1500	c.1196C>T	c.(1195-1197)gCc>gTc	p.A399V	ST7L_ENST00000369666.1_Missense_Mutation_p.A382V|ST7L_ENST00000490067.1_Missense_Mutation_p.A382V|ST7L_ENST00000538187.1_Missense_Mutation_p.A343V|ST7L_ENST00000360743.4_Missense_Mutation_p.A399V|ST7L_ENST00000463235.1_5'UTR|ST7L_ENST00000369668.2_Missense_Mutation_p.A399V|ST7L_ENST00000544629.1_Missense_Mutation_p.A334V|ST7L_ENST00000369669.1_Missense_Mutation_p.A216V|ST7L_ENST00000543570.1_Missense_Mutation_p.A382V|ST7L_ENST00000343210.7_Missense_Mutation_p.A399V	NM_017744.4|NM_138727.3	NP_060214.2|NP_620055.1	Q8TDW4	ST7L_HUMAN	suppression of tumorigenicity 7 like	399					negative regulation of cell growth (GO:0030308)	integral component of membrane (GO:0016021)				endometrium(1)|kidney(4)|large_intestine(3)|lung(1)|prostate(2)|stomach(1)|urinary_tract(3)	15	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGCTTCCACGGCATTAATTTC	0.308																																																0													51	55	53					1																	113119657		2199	4296	6495	SO:0001583	missense	54879			AB081317	CCDS848.1, CCDS849.1, CCDS850.1, CCDS852.1	1p13.1	2008-06-06			ENSG00000007341	ENSG00000007341			18441	protein-coding gene	gene with protein product						12012006	Standard	NM_138729		Approved	FLJ20284, STLR, ST7R, FAM4B	uc001ecd.3	Q8TDW4	OTTHUMG00000011753	ENST00000358039.4:c.1196C>T	1.37:g.113119657G>A	ENSP00000350734:p.Ala399Val	Somatic		WXS	Illumina HiSeq	Phase_1	A8K4S7|Q49AH6|Q5TEI4|Q5U5K6|Q6N067|Q7Z2Z0|Q7Z3C2|Q8N7P8|Q8TDW1|Q8TDW2|Q8TDW3|Q9NXF3	Missense_Mutation	SNP	ENST00000358039.4	37	CCDS848.1	.	.	.	.	.	.	.	.	.	.	G	35	5.546942	0.96488	.	.	ENSG00000007341	ENST00000358039;ENST00000360743;ENST00000544629;ENST00000369669;ENST00000490067;ENST00000369668;ENST00000343210;ENST00000369666;ENST00000538187;ENST00000543570;ENST00000369665	T;T;T;T;T;T;T;T;T;T	0.59083	1.69;0.29;1.69;1.69;0.29;0.29;0.29;0.29;0.29;1.69	5.51	5.51	0.81932	Tetratricopeptide-like helical (1);	0.000000	0.85682	D	0.000000	T	0.75649	0.3878	M	0.83603	2.65	0.80722	D	1	D;D;D;D;P;P;D;D;D	0.89917	1.0;0.999;1.0;1.0;0.939;0.939;0.969;0.985;0.975	D;D;D;D;P;P;P;P;D	0.87578	0.997;0.998;0.998;0.994;0.779;0.779;0.868;0.868;0.919	T	0.78288	-0.2262	10	0.62326	D	0.03	-9.1746	19.0163	0.92896	0.0:0.0:1.0:0.0	.	382;343;334;334;399;382;382;399;399	B7Z8V6;B7Z7D4;B7Z3J2;F5H2P3;Q8TDW4-5;Q8TDW4-6;Q8TDW4-3;Q8TDW4-2;Q8TDW4	.;.;.;.;.;.;.;.;ST7L_HUMAN	V	399;399;334;216;382;399;399;382;343;382;277	ENSP00000350734:A399V;ENSP00000353972:A399V;ENSP00000445499:A334V;ENSP00000358683:A216V;ENSP00000417140:A382V;ENSP00000358682:A399V;ENSP00000345312:A399V;ENSP00000358680:A382V;ENSP00000444021:A343V;ENSP00000444088:A382V	ENSP00000345312:A399V	A	-	2	0	ST7L	112921180	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	9.415000	0.97375	2.582000	0.87167	0.467000	0.42956	GCC		0.308	ST7L-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000032504.3			A	113119657	G	A	113119657	3	1	568	1	0	0	0	0	1	0	0	0	15242	1203	42	2	590	2	ST7L	1	113119657	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	3565552	113119657	136130964	6	33481										
ANKRD35	148741	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	145561665	145561665	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	actaccaatggggcacagacCtttggccctgatcatgctga	10	12	1	3			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr1:145561665C>T	ENST00000355594.4	+	10	1440	c.1353C>T	c.(1351-1353)acC>acT	p.T451T		NM_144698.3	NP_653299.4	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	451										NS(1)|biliary_tract(1)|central_nervous_system(1)|endometrium(7)|kidney(2)|large_intestine(9)|lung(16)|ovary(4)|prostate(3)|skin(2)|urinary_tract(1)	47	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GGGCACAGACCTTTGGCCCTG	0.587																																					Melanoma(9;127 754 22988 51047)											0													59	67	64					1																	145561665		2203	4300	6503	SO:0001819	synonymous_variant	148741			AK091120	CCDS72867.1, CCDS72868.1	1q21.1	2013-01-10			ENSG00000198483	ENSG00000198483		"Ankyrin repeat domain containing"	26323	protein-coding gene	gene with protein product							Standard	NM_144698		Approved	FLJ25124	uc001eob.1	Q8N283	OTTHUMG00000013743	ENST00000355594.4:c.1353C>T	1.37:g.145561665C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NEU0|B4DL62|Q3MJ10|Q96LS3	Silent	SNP	ENST00000355594.4	37	CCDS919.1																																																																																				0.587	ANKRD35-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000038515.1	NM_144698		T	145561665	C	T	145561665	2	4	568	1	0	0	0	0	0	0	0	1	664	668	24	2		2	ANKRD35	1	145561665	Silent	SNP	C	TCGA-DW-7838-01A-11D-2136-08	32442008	145561665	103688956	7	33482										
HRNR	388697	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	152191362	152191362	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tcggccactgctggaagaccGaccggagccagacccatgtc	12	15	0	2	rs573793519		TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr1:152191362G>A	ENST00000368801.2	-	3	2818	c.2743C>T	c.(2743-2745)Cgg>Tgg	p.R915W	FLG-AS1_ENST00000420707.1_RNA|FLG-AS1_ENST00000593011.1_RNA	NM_001009931.1	NP_001009931.1	Q86YZ3	HORN_HUMAN	hornerin	915					establishment of skin barrier (GO:0061436)|hematopoietic progenitor cell differentiation (GO:0002244)|keratinization (GO:0031424)	cornified envelope (GO:0001533)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)			autonomic_ganglia(1)|breast(6)|central_nervous_system(2)|cervix(2)|endometrium(22)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(19)|liver(1)|lung(84)|ovary(5)|prostate(6)|skin(12)|stomach(9)|upper_aerodigestive_tract(5)|urinary_tract(6)	192	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGGAAGACCGACCGGAGCCA	0.627																																																0													136	149	144					1																	152191362		2203	4300	6503	SO:0001583	missense	388697			AB104446	CCDS30859.1	1q21.3	2013-01-10			ENSG00000197915	ENSG00000197915		"EF-hand domain containing"	20846	protein-coding gene	gene with protein product	"filaggrin family member 3"						Standard	NM_001009931		Approved	S100a18, S100A16, FLG3	uc001ezt.2	Q86YZ3	OTTHUMG00000012243	ENST00000368801.2:c.2743C>T	1.37:g.152191362G>A	ENSP00000357791:p.Arg915Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5DT20|Q5U1F4	Missense_Mutation	SNP	ENST00000368801.2	37	CCDS30859.1	.	.	.	.	.	.	.	.	.	.	G	8.431	0.848661	0.17034	.	.	ENSG00000197915	ENST00000368801	T	0.01933	4.55	3.6	2.67	0.31697	.	.	.	.	.	T	0.00695	0.0023	N	0.22421	0.69	0.09310	N	1	B	0.20780	0.048	B	0.10450	0.005	T	0.47636	-0.9102	9	0.48119	T	0.1	.	8.8921	0.35441	0.1155:0.0:0.8845:0.0	.	915	Q86YZ3	HORN_HUMAN	W	915	ENSP00000357791:R915W	ENSP00000357791:R915W	R	-	1	2	HRNR	150457986	0.000000	0.05858	0.001000	0.08648	0.009000	0.06853	-0.046000	0.11983	0.860000	0.35481	0.498000	0.49722	CGG		0.627	HRNR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034016.1	XM_373868		A	152191362	G	A	152191362	3	1	568	1	0	0	0	0	1	0	0	0	7366	1057	37	1	5813	1	HRNR	1	152191362	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	6629697	152191362	97059259	8	33483										
FLAD1	80308	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	154961016	154961016	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gggtgctggaggggatgaagGgactattccaaaacccagct	15	8	0	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr1:154961016G>A	ENST00000292180.3	+	2	1130	c.808G>A	c.(808-810)Gga>Aga	p.G270R	FLAD1_ENST00000368431.3_Missense_Mutation_p.G171R|FLAD1_ENST00000295530.2_Missense_Mutation_p.G3R|FLAD1_ENST00000368433.1_Missense_Mutation_p.G270R|FLAD1_ENST00000315144.10_Missense_Mutation_p.G173R|FLAD1_ENST00000405236.2_Missense_Mutation_p.G171R|FLAD1_ENST00000368428.1_5'Flank|FLAD1_ENST00000368432.1_Missense_Mutation_p.G173R	NM_025207.4	NP_079483.3	Q8NFF5	FAD1_HUMAN	flavin adenine dinucleotide synthetase 1	270					FAD biosynthetic process (GO:0006747)|Mo-molybdopterin cofactor biosynthetic process (GO:0006777)|riboflavin metabolic process (GO:0006771)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|FMN adenylyltransferase activity (GO:0003919)			endometrium(3)|kidney(4)|large_intestine(2)|lung(7)|ovary(3)|skin(3)	22	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)			GGGGATGAAGGGACTATTCCA	0.572																																																0													43	41	42					1																	154961016		2203	4300	6503	SO:0001583	missense	80308				CCDS1078.1, CCDS1079.1, CCDS53371.1, CCDS53372.1	1q22	2013-03-05	2013-03-05		ENSG00000160688	ENSG00000160688	2.7.7.2		24671	protein-coding gene	gene with protein product		610595	"Fad1, flavin adenine dinucleotide synthetase, homolog (yeast)", "FAD1 flavin adenine dinucleotide synthetase homolog (S. cerevisiae)", "flavin adenine dinucleotide synthetase"				Standard	NM_001184891		Approved	PP591, FAD1	uc001fgf.2	Q8NFF5	OTTHUMG00000037416	ENST00000292180.3:c.808G>A	1.37:g.154961016G>A	ENSP00000292180:p.Gly270Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N5J1|Q8N686|Q8WU93|Q8WUJ4|Q96CR8|Q99764|Q9HBN6	Missense_Mutation	SNP	ENST00000292180.3	37	CCDS1078.1	.	.	.	.	.	.	.	.	.	.	G	10.59	1.391696	0.25118	.	.	ENSG00000160688	ENST00000368433;ENST00000315144;ENST00000368432;ENST00000368431;ENST00000292180;ENST00000405236;ENST00000295530	.	.	.	5.51	1.43	0.22495	Molybdopterin binding (2);	0.470755	0.24384	N	0.038987	T	0.05777	0.0151	N	0.25890	0.77	0.09310	N	1	P;B;P	0.45474	0.859;0.05;0.491	B;B;B	0.37304	0.246;0.124;0.076	T	0.32188	-0.9916	9	0.21014	T	0.42	-1.0E-4	6.7182	0.23314	0.2278:0.3684:0.4038:0.0	.	3;270;171	Q5T191;Q8NFF5;Q8NFF5-4	.;FAD1_HUMAN;.	R	270;173;173;171;270;171;3	.	ENSP00000292180:G270R	G	+	1	0	FLAD1	153227640	0.089000	0.21612	0.069000	0.20011	0.879000	0.50718	1.889000	0.39718	0.419000	0.25927	0.561000	0.74099	GGA		0.572	FLAD1-001	NOVEL	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000091089.1	NM_025207		A	154961016	G	A	154961016	3	1	568	1	0	0	0	0	1	0	0	0	5927	1233	43	2	889	2	FLAD1	1	154961016	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	2769654	154961016	94289605	9	33484										
OBSCN	84033	hgsc.bcm.edu	37	chr1	228522554	228522554	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tgccgccccgaatgctggagAggttcacccccaagaaagtg	12	13	1	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr1:228522554A>G	ENST00000422127.1	+	61	16170	c.16126A>G	c.(16126-16128)Agg>Ggg	p.R5376G	OBSCN_ENST00000366707.4_Missense_Mutation_p.R3010G|OBSCN_ENST00000284548.11_Missense_Mutation_p.R5376G|OBSCN_ENST00000570156.2_Missense_Mutation_p.R6333G|OBSCN_ENST00000366709.4_Missense_Mutation_p.R2495G	NM_001098623.2	NP_001092093.2	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF	5376	Ig-like 51.				apoptotic signaling pathway (GO:0097190)|multicellular organismal development (GO:0007275)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|protein localization to M-band (GO:0036309)|regulation of small GTPase mediated signal transduction (GO:0051056)|sarcomere organization (GO:0045214)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|M band (GO:0031430)|myofibril (GO:0030016)|Z disc (GO:0030018)	ankyrin binding (GO:0030506)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			NS(2)|breast(7)|central_nervous_system(5)|cervix(2)|endometrium(30)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(37)|lung(89)|ovary(8)|pancreas(3)|prostate(13)|skin(6)|stomach(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	223		Prostate(94;0.0405)				AATGCTGGAGAGGTTCACCCC	0.612																																																0													31	37	35					1																	228522554		2041	4158	6199	SO:0001583	missense	84033			AJ002535	CCDS1570.2, CCDS58065.1, CCDS59204.1	1q42	2014-09-17			ENSG00000154358	ENSG00000154358		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	15719	protein-coding gene	gene with protein product		608616				11448995, 11814696	Standard	NM_001098623		Approved	KIAA1556, UNC89, KIAA1639, ARHGEF30	uc001hsq.2	Q5VST9	OTTHUMG00000039772	ENST00000422127.1:c.16126A>G	1.37:g.228522554A>G	ENSP00000409493:p.Arg5376Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q2A664|Q5T7G8|Q5T7G9|Q5VSU2|Q86YC7|Q8NHN0|Q8NHN1|Q8NHN2|Q8NHN3|Q8NHN4|Q8NHN5|Q8NHN6|Q8NHN7|Q8NHN8|Q8NHN9|Q96AA2|Q9HCD3|Q9HCL6	Missense_Mutation	SNP	ENST00000422127.1	37	CCDS58065.1	.	.	.	.	.	.	.	.	.	.	a	33	5.261450	0.95368	.	.	ENSG00000154358	ENST00000284548;ENST00000422127;ENST00000366707;ENST00000366709	T;T;T;T	0.67345	-0.26;-0.26;-0.26;-0.26	5.87	4.72	0.59763	Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.381287	0.28327	N	0.015748	T	0.71829	0.3386	L	0.47190	1.495	0.33354	D	0.57147	D;D	0.60575	0.988;0.985	P;P	0.58266	0.836;0.747	T	0.78081	-0.2343	10	0.39692	T	0.17	.	13.1041	0.59237	0.866:0.134:0.0:0.0	.	5376;5376	Q5VST9;Q5VST9-3	OBSCN_HUMAN;.	G	5376;5376;3010;2495	ENSP00000284548:R5376G;ENSP00000409493:R5376G;ENSP00000355668:R3010G;ENSP00000355670:R2495G	ENSP00000284548:R5376G	R	+	1	2	OBSCN	226589177	1.000000	0.71417	0.899000	0.35326	0.980000	0.70556	5.690000	0.68241	1.016000	0.39470	0.478000	0.44815	AGG		0.612	OBSCN-204	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_052843		G	228522554	A	G	228522554	3	3	568	1	0	0	0	0	1	0	0	0	10819	295	11	3	16364	3	OBSCN	1	228522554	Missense_Mutation	SNP	A	TCGA-DW-7838-01A-11D-2136-08	73561538	228522554	20728067	10	33485										
C1orf124	83932	hgsc.bcm.edu	37	chr1	231474336	231474336	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gccgtcgaggtgaagtggagCgtgcgaatgaccctgtgagt	17	8	0	3			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr1:231474336C>T	ENST00000295050.7	+	1	543	c.207C>T	c.(205-207)agC>agT	p.S69S	SPRTN_ENST00000391858.4_Silent_p.S69S|EXOC8_ENST00000360394.2_5'Flank|SPRTN_ENST00000008440.9_Silent_p.S69S|EXOC8_ENST00000366645.1_5'Flank	NM_001010984.2|NM_032018.5	NP_001010984.1|NP_114407.3	Q9H040	SPRTN_HUMAN	SprT-like N-terminal domain	69	SprT-like.				cellular response to DNA damage stimulus (GO:0006974)|positive regulation of protein ubiquitination (GO:0031398)|response to UV (GO:0009411)|translesion synthesis (GO:0019985)	chromosome (GO:0005694)|nuclear speck (GO:0016607)|nucleus (GO:0005634)	DNA binding (GO:0003677)|K63-linked polyubiquitin binding (GO:0070530)|metal ion binding (GO:0046872)|ubiquitin binding (GO:0043130)										TGAAGTGGAGCGTGCGAATGA	0.602																																																0													85	92	90					1																	231474336		2203	4300	6503	SO:0001819	synonymous_variant	83932			AL512744	CCDS1594.1, CCDS31054.1, CCDS58066.1	1q42.12-q43	2013-01-30	2012-06-18	2012-06-18	ENSG00000010072	ENSG00000010072			25356	protein-coding gene	gene with protein product	"SprT-like domain at the N terminus", "DNA damage-targeting VCP (p97) adaptor"		"chromosome 1 open reading frame 124"	C1orf124		22681887	Standard	NM_032018		Approved	DKFZP547N043, Spartan, DVC1	uc001hur.4	Q9H040	OTTHUMG00000038022	ENST00000295050.7:c.207C>T	1.37:g.231474336C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B1AKT0|B5MEF7|Q5TE78|Q6UWW6|Q96BC5|Q96KA0	Silent	SNP	ENST00000295050.7	37	CCDS1594.1																																																																																				0.602	SPRTN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092858.1	NM_032018		T	231474336	C	T	231474336	2	4	568	1	0	0	0	0	0	0	0	1	1994	767	27	1		1	C1orf124	1	231474336	Silent	SNP	C	TCGA-DW-7838-01A-11D-2136-08	2951782	231474336	17776285	11	33486										
ADCY3	109	bcgsc.ca	37	chr2	25141697	25141697	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ctccggcacgaaagtcagccGcatgaagcgaggcaggcaca	13	13	1	1	rs368104984		TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr2:25141697G>A	ENST00000260600.5	-	1	1011	c.160C>T	c.(160-162)Cgg>Tgg	p.R54W		NM_004036.3	NP_004027.2	O60266	ADCY3_HUMAN	adenylate cyclase 3	54					activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|neurotrophin TRK receptor signaling pathway (GO:0048011)|sensory perception of smell (GO:0007608)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cilium (GO:0005929)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	adenylate cyclase activity (GO:0004016)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)			NS(1)|breast(5)|endometrium(7)|kidney(1)|large_intestine(7)|lung(14)|ovary(3)|prostate(4)|skin(2)	44	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					AAAGTCAGCCGCATGAAGCGA	0.642																																																0													43	48	46					2																	25141697		2203	4300	6503	SO:0001583	missense	109			AF033861	CCDS1715.1	2p23.3	2013-02-04			ENSG00000138031	ENSG00000138031	4.6.1.1	"Adenylate cyclases"	234	protein-coding gene	gene with protein product		600291				9920776	Standard	NM_004036		Approved	AC3	uc002rfs.4	O60266	OTTHUMG00000094765	ENST00000260600.5:c.160C>T	2.37:g.25141697G>A	ENSP00000260600:p.Arg54Trp	Somatic		WXS	Illumina HiSeq	Phase_1	B3KT86|Q53T54|Q9UDB1	Missense_Mutation	SNP	ENST00000260600.5	37	CCDS1715.1	.	.	.	.	.	.	.	.	.	.	G	21.7	4.186456	0.78789	.	.	ENSG00000138031	ENST00000260600;ENST00000415879;ENST00000435135;ENST00000438445	T;T;T	0.81330	-1.48;-1.11;0.58	4.27	3.39	0.38822	.	0.131649	0.52532	D	0.000068	D	0.85570	0.5727	L	0.54323	1.7	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.68483	0.941;0.958	D	0.86290	0.1673	10	0.87932	D	0	.	12.2745	0.54726	0.0:0.0:0.8291:0.1709	.	54;54	B7ZLX9;O60266	.;ADCY3_HUMAN	W	54;29;54;54	ENSP00000260600:R54W;ENSP00000389799:R54W;ENSP00000406153:R54W	ENSP00000260600:R54W	R	-	1	2	ADCY3	24995201	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	3.317000	0.51968	0.996000	0.38943	0.563000	0.77884	CGG		0.642	ADCY3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000211574.2			A	25141697	G	A	25141697	3	1	568	1	0	0	0	0	1	0	0	0	295	1086	38	1	3358	1	ADCY3	2	25141697	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08		25141697	218057676	12	33487										
LOXL3	84695	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	74761483	74761483	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tcgagacagaaactagctttGtggccctcagccaccttggt	10	12	1	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr2:74761483G>A	ENST00000264094.3	-	11	1970	c.1899C>T	c.(1897-1899)caC>caT	p.H633H	LOXL3_ENST00000409249.1_Intron|LOXL3_ENST00000409549.1_Silent_p.H577H|LOXL3_ENST00000393937.2_Silent_p.H488H|LOXL3_ENST00000409986.1_Silent_p.H488H	NM_032603.2	NP_115992.1	P58215	LOXL3_HUMAN	lysyl oxidase-like 3	633	Lysyl-oxidase like.				epithelial to mesenchymal transition (GO:0001837)|negative regulation of transcription, DNA-templated (GO:0045892)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|membrane (GO:0016020)|nucleus (GO:0005634)	copper ion binding (GO:0005507)|protein-lysine 6-oxidase activity (GO:0004720)|scavenger receptor activity (GO:0005044)			endometrium(7)|kidney(2)|large_intestine(9)|lung(9)|ovary(1)|prostate(1)|urinary_tract(1)	30						AACTAGCTTTGTGGCCCTCAG	0.502																																																0													190	183	185					2																	74761483		2203	4300	6503	SO:0001819	synonymous_variant	84695			AF282619	CCDS1953.1, CCDS74527.1	2p13	2008-05-23			ENSG00000115318	ENSG00000115318			13869	protein-coding gene	gene with protein product		607163				11386757	Standard	NM_032603		Approved		uc002smp.1	P58215	OTTHUMG00000129953	ENST00000264094.3:c.1899C>T	2.37:g.74761483G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D6W5J1|Q2EHP2|Q6IPL7|Q96RS1	Silent	SNP	ENST00000264094.3	37	CCDS1953.1																																																																																				0.502	LOXL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252215.1	NM_032603		A	74761483	G	A	74761483	2	1	568	1	0	0	0	0	0	0	0	1	8908	1368	48	2		2	LOXL3	2	74761483	Silent	SNP	G	TCGA-DW-7838-01A-11D-2136-08	49619786	74761483	168437890	13	33488										
POLR1A	25885	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	86279952	86279952	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gcacttacccaaggtgaagcCtctgtagagctgcaggtagg	13	10	1	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr2:86279952C>T	ENST00000263857.6	-	16	2758	c.2380G>A	c.(2380-2382)Ggc>Agc	p.G794S	POLR1A_ENST00000483538.1_5'Flank|POLR1A_ENST00000409681.1_Missense_Mutation_p.G794S			O95602	RPA1_HUMAN	polymerase (RNA) I polypeptide A, 194kDa	794					gene expression (GO:0010467)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription from RNA polymerase I promoter (GO:0006360)|transcription initiation from RNA polymerase I promoter (GO:0006361)	cytoplasm (GO:0005737)|DNA-directed RNA polymerase I complex (GO:0005736)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)|zinc ion binding (GO:0008270)			NS(1)|breast(4)|cervix(2)|endometrium(8)|kidney(3)|large_intestine(12)|liver(1)|lung(20)|ovary(3)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(5)	63						AAGGTGAAGCCTCTGTAGAGC	0.652																																																0													31	35	34					2																	86279952		1926	4147	6073	SO:0001583	missense	25885			AK025568	CCDS42706.1	2p11.2	2013-01-21			ENSG00000068654	ENSG00000068654		"RNA polymerase subunits"	17264	protein-coding gene	gene with protein product						9236775	Standard	NM_015425		Approved	DKFZP586M0122, FLJ21915, RPO1-4, RPA1	uc002sqs.3	O95602	OTTHUMG00000153165	ENST00000263857.6:c.2380G>A	2.37:g.86279952C>T	ENSP00000263857:p.Gly794Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7T0|D6W5M0|Q0VG05|Q9UEH0|Q9UFT9	Missense_Mutation	SNP	ENST00000263857.6	37	CCDS42706.1	.	.	.	.	.	.	.	.	.	.	C	25.8	4.675456	0.88445	.	.	ENSG00000068654	ENST00000263857;ENST00000409681	T;T	0.78481	-1.18;-1.18	4.79	4.79	0.61399	RNA polymerase Rpb1, domain 3 (1);	0.000000	0.85682	D	0.000000	D	0.90834	0.7121	M	0.92268	3.29	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.92973	0.6399	10	0.72032	D	0.01	-20.0332	17.6405	0.88135	0.0:1.0:0.0:0.0	.	794	O95602	RPA1_HUMAN	S	794	ENSP00000263857:G794S;ENSP00000386300:G794S	ENSP00000263857:G794S	G	-	1	0	POLR1A	86133463	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	5.614000	0.67695	2.496000	0.84212	0.655000	0.94253	GGC		0.652	POLR1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329830.2	NM_015425		T	86279952	C	T	86279952	3	4	568	1	0	0	0	0	1	0	0	0	12216	681	24	2	2858	2	POLR1A	2	86279952	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	11518469	86279952	156919421	14	33489										
TUBA3D	113457	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	132236969	132236969	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gcagccaataattacgccagGggccattacaccatcggcaa	9	13	0	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr2:132236969G>A	ENST00000321253.6	+	3	422	c.315G>A	c.(313-315)agG>agA	p.R105R	TUBA3D_ENST00000409047.2_3'UTR	NM_080386.3	NP_525125.2	Q13748	TBA3C_HUMAN	tubulin, alpha 3d	105					'de novo' posttranslational protein folding (GO:0051084)|cellular protein metabolic process (GO:0044267)|microtubule-based process (GO:0007017)|protein folding (GO:0006457)|protein polymerization (GO:0051258)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)			breast(2)|endometrium(1)|kidney(1)|large_intestine(3)|lung(18)|prostate(2)|skin(2)|upper_aerodigestive_tract(3)	32				BRCA - Breast invasive adenocarcinoma(221;0.13)		ATTACGCCAGGGGCCATTACA	0.527																																					Ovarian(137;2059 2432 35543 39401)											0													209	172	184					2																	132236969		2203	4300	6503	SO:0001819	synonymous_variant	113457			K03460	CCDS33290.1	2q21.1	2007-03-16			ENSG00000075886	ENSG00000075886		"Tubulins"	24071	protein-coding gene	gene with protein product	"alpha-tubulin isotype H2-alpha"					3785200	Standard	NM_080386		Approved	H2-ALPHA	uc002tsu.4	Q13748	OTTHUMG00000153600	ENST00000321253.6:c.315G>A	2.37:g.132236969G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NJQ0|Q5W099|Q6PEY3|Q96F18	Silent	SNP	ENST00000321253.6	37	CCDS33290.1																																																																																				0.527	TUBA3D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331800.2	NM_080386		A	132236969	G	A	132236969	2	1	568	1	0	0	0	0	0	0	0	1	16759	1223	43	2		2	TUBA3D	2	132236969	Silent	SNP	G	TCGA-DW-7838-01A-11D-2136-08	45957017	132236969	110962404	15	33490										
FIGN	55137	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	164466515	164466515	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	acagtgtccagttgcatcagAaattcggttctcatccgact	8	11	2	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr2:164466515A>T	ENST00000333129.3	-	3	2141	c.1827T>A	c.(1825-1827)ttT>ttA	p.F609L	FIGN_ENST00000409634.1_Intron|FIGN_ENST00000482917.1_5'Flank	NM_018086.2	NP_060556.2	Q5HY92	FIGN_HUMAN	fidgetin	609					mitotic nuclear division (GO:0007067)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|nuclear matrix (GO:0016363)	ATP binding (GO:0005524)			breast(2)|endometrium(3)|kidney(2)|large_intestine(13)|lung(23)|ovary(1)|prostate(2)|skin(1)	47						GTTGCATCAGAAATTCGGTTC	0.458																																																0													105	99	101					2																	164466515		1948	4151	6099	SO:0001583	missense	55137			AK001267	CCDS2221.2	2q24	2010-04-21			ENSG00000182263	ENSG00000182263		"ATPases / AAA-type"	13285	protein-coding gene	gene with protein product		605295				11017077	Standard	XM_005246661		Approved		uc002uck.1	Q5HY92	OTTHUMG00000074059	ENST00000333129.3:c.1827T>A	2.37:g.164466515A>T	ENSP00000333836:p.Phe609Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWM0|Q9H6M5|Q9NVZ9	Missense_Mutation	SNP	ENST00000333129.3	37	CCDS2221.2	.	.	.	.	.	.	.	.	.	.	A	12.72	2.023844	0.35701	.	.	ENSG00000182263	ENST00000333129	D	0.86865	-2.18	5.47	2.81	0.32909	ATPase, AAA-type, core (1);ATPase, AAA+ type, core (1);	0.055714	0.64402	D	0.000001	T	0.74504	0.3725	N	0.00771	-1.2	0.58432	D	0.999996	B	0.32324	0.364	P	0.51999	0.687	T	0.66767	-0.5840	10	0.21014	T	0.42	-19.2916	5.9791	0.19397	0.6913:0.0:0.3087:0.0	.	609	Q5HY92	FIGN_HUMAN	L	609	ENSP00000333836:F609L	ENSP00000333836:F609L	F	-	3	2	FIGN	164174761	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	1.691000	0.37721	1.009000	0.39289	0.383000	0.25322	TTT		0.458	FIGN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157220.2	NM_018086		T	164466515	A	T	164466515	3	4	568	1	0	0	0	0	1	0	0	0	5898	243	9	5	456	5	FIGN	2	164466515	Missense_Mutation	SNP	A	TCGA-DW-7838-01A-11D-2136-08	32229546	164466515	78732858	16	33491										
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	179650403	179650403	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tgaaacagtaaagtgagggcTagctgtgcgggggcgtttat	16	5	0	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr2:179650403T>A	ENST00000591111.1	-	15	2661	c.2437A>T	c.(2437-2439)Agc>Tgc	p.S813C	TTN_ENST00000359218.5_Missense_Mutation_p.S767C|TTN_ENST00000460472.2_Missense_Mutation_p.S767C|TTN_ENST00000360870.5_Missense_Mutation_p.S813C|TTN_ENST00000589042.1_Missense_Mutation_p.S813C|TTN_ENST00000342992.6_Missense_Mutation_p.S813C|TTN_ENST00000342175.6_Missense_Mutation_p.S767C			Q8WZ42	TITIN_HUMAN	titin	33644					adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAGTGAGGGCTAGCTGTGCGG	0.373																																																0													172	167	169					2																	179650403		2203	4300	6503	SO:0001583	missense	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.2437A>T	2.37:g.179650403T>A	ENSP00000465570:p.Ser813Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	T	12.88	2.071468	0.36566	.	.	ENSG00000155657	ENST00000342992;ENST00000460472;ENST00000342175;ENST00000359218;ENST00000356127;ENST00000360870	T;T;T;T;T	0.67523	-0.27;-0.03;-0.03;-0.04;0.15	5.51	5.51	0.81932	Ribonuclease H-like (1);	.	.	.	.	T	0.70159	0.3192	L	0.27053	0.805	0.24564	N	0.993953	D;D;D;D;D	0.89917	0.993;0.993;0.993;0.993;1.0	P;P;P;P;D	0.69479	0.628;0.628;0.628;0.628;0.964	T	0.62699	-0.6799	9	0.87932	D	0	.	10.3027	0.43661	0.0:0.0737:0.0:0.9263	.	767;767;767;813;813	D3DPF9;E7EQE6;E7ET18;Q8WZ42;Q8WZ42-6	.;.;.;TITIN_HUMAN;.	C	813;767;767;767;767;813	ENSP00000343764:S813C;ENSP00000434586:S767C;ENSP00000340554:S767C;ENSP00000352154:S767C;ENSP00000354117:S813C	ENSP00000340554:S767C	S	-	1	0	TTN	179358648	1.000000	0.71417	0.998000	0.56505	0.978000	0.69477	2.566000	0.45948	2.210000	0.71456	0.533000	0.62120	AGC		0.373	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		A	179650403	T	A	179650403	3	1	568	1	0	0	0	0	1	0	0	0	16747	1522	53	5	108943	5	TTN	2	179650403	Missense_Mutation	SNP	T	TCGA-DW-7838-01A-11D-2136-08	15183888	179650403	63548970	17	33492										
COL6A3	1293	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	238303376	238303376	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tattgagcggttcacttgctAtttcttttaacgctccttca	6	10	3	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr2:238303376A>G	ENST00000295550.4	-	3	1015	c.563T>C	c.(562-564)aTa>aCa	p.I188T	COL6A3_ENST00000472056.1_Intron|COL6A3_ENST00000353578.4_Intron|COL6A3_ENST00000347401.3_Missense_Mutation_p.I188T|COL6A3_ENST00000392004.3_Intron|COL6A3_ENST00000409809.1_Intron|COL6A3_ENST00000346358.4_Missense_Mutation_p.I188T|COL6A3_ENST00000392003.2_Intron	NM_004369.3	NP_004360.2	P12111	CO6A3_HUMAN	collagen, type VI, alpha 3	188	Nonhelical region.|VWFA 1. {ECO:0000255|PROSITE- ProRule:PRU00219}.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|muscle organ development (GO:0007517)|response to glucose (GO:0009749)	collagen type VI trimer (GO:0005589)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)|sarcolemma (GO:0042383)|vesicle (GO:0031982)	serine-type endopeptidase inhibitor activity (GO:0004867)			breast(6)|central_nervous_system(7)|cervix(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(13)|large_intestine(64)|lung(62)|ovary(14)|pancreas(2)|prostate(11)|skin(14)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(4)	217		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)		TTCACTTGCTATTTCTTTTAA	0.433																																																0													127	124	125					2																	238303376		2203	4300	6503	SO:0001583	missense	1293			X52022	CCDS33409.1, CCDS33410.1, CCDS33411.1, CCDS33412.1, CCDS33410.2, CCDS33411.2, CCDS54439.1	2q37	2014-09-17			ENSG00000163359	ENSG00000163359		"Collagens"	2213	protein-coding gene	gene with protein product		120250				1339440, 11992252	Standard	NM_004369		Approved		uc002vwl.2	P12111	OTTHUMG00000150020	ENST00000295550.4:c.563T>C	2.37:g.238303376A>G	ENSP00000295550:p.Ile188Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8MT30|B4E3U5|B7ZMJ7|E9PFQ6|E9PGQ9|Q16501|Q53QF4|Q53QF6	Missense_Mutation	SNP	ENST00000295550.4	37	CCDS33412.1	.	.	.	.	.	.	.	.	.	.	A	6.536	0.467096	0.12402	.	.	ENSG00000163359	ENST00000295550;ENST00000347401;ENST00000346358;ENST00000433762	D;D;D;D	0.84146	-1.81;-1.81;-1.81;-1.81	4.9	3.72	0.42706	von Willebrand factor, type A (3);	0.267710	0.25584	U	0.029678	D	0.88437	0.6436	H	0.94886	3.595	0.47778	D	0.999513	B;B	0.19445	0.009;0.036	B;B	0.20767	0.021;0.031	D	0.85506	0.1194	10	0.62326	D	0.03	.	10.6923	0.45877	0.9233:0.0:0.0766:0.0	.	188;188	E9PCV6;P12111	.;CO6A3_HUMAN	T	188	ENSP00000295550:I188T;ENSP00000315609:I188T;ENSP00000295546:I188T;ENSP00000389539:I188T	ENSP00000295550:I188T	I	-	2	0	COL6A3	237968115	1.000000	0.71417	0.997000	0.53966	0.219000	0.24729	6.121000	0.71602	0.699000	0.31761	0.374000	0.22700	ATA		0.433	COL6A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000315790.2	NM_004369		G	238303376	A	G	238303376	3	3	568	1	0	0	0	0	1	0	0	0	3703	449	16	3	9185	3	COL6A3	2	238303376	Missense_Mutation	SNP	A	TCGA-DW-7838-01A-11D-2136-08	58652973	238303376	4895997	18	33493										
RNPEPL1	57140	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	241516157	241516157	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gcactcttcctggaccggctCctggatgggtccccgctgcc	12	17	1	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr2:241516157C>T	ENST00000270357.4	+	9	1616	c.1023C>T	c.(1021-1023)ctC>ctT	p.L341L	RNPEPL1_ENST00000464550.1_3'UTR	NM_018226.4	NP_060696.4	Q9HAU8	RNPL1_HUMAN	arginyl aminopeptidase (aminopeptidase B)-like 1	341					leukotriene biosynthetic process (GO:0019370)		aminopeptidase activity (GO:0004177)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			central_nervous_system(2)|endometrium(3)|kidney(2)|large_intestine(1)|lung(3)|prostate(1)|skin(1)	13		all_epithelial(40;1.13e-11)|Breast(86;0.000169)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.204)|Melanoma(123;0.238)		Epithelial(32;3.05e-31)|all cancers(36;8.2e-29)|OV - Ovarian serous cystadenocarcinoma(60;8.55e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.12e-06)|Lung(119;0.00168)|Colorectal(34;0.005)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.0322)		TGGACCGGCTCCTGGATGGGT	0.687																																																0													29	33	32					2																	241516157		2196	4289	6485	SO:0001819	synonymous_variant	57140					2q37.3	2012-03-06			ENSG00000142327	ENSG00000142327			10079	protein-coding gene	gene with protein product		605287				19508204	Standard	NM_018226		Approved		uc002vzi.4	Q9HAU8	OTTHUMG00000133357	ENST00000270357.4:c.1023C>T	2.37:g.241516157C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5XKC3|Q6NX56|Q96AC9|Q9H033|Q9NVD0	Silent	SNP	ENST00000270357.4	37																																																																																					0.687	RNPEPL1-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000257190.4	NM_018226		T	241516157	C	T	241516157	2	4	568	1	0	0	0	0	0	0	0	1	13523	842	30	2		2	RNPEPL1	2	241516157	Silent	SNP	C	TCGA-DW-7838-01A-11D-2136-08	3212781	241516157	1683216	19	33494										
SCAP	22937	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	47456625	47456625	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ctgagggcagtgtgggtctcCaaggagaagaaatcaaggga	16	6	2	3			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr3:47456625C>T	ENST00000265565.5	-	19	3514	c.3102G>A	c.(3100-3102)ttG>ttA	p.L1034L	SCAP_ENST00000441517.2_Silent_p.L778L|SCAP_ENST00000545718.1_Silent_p.L641L	NM_012235.2	NP_036367.2	Q12770	SCAP_HUMAN	SREBF chaperone	1034	Interaction with SREBF2. {ECO:0000250}.				aging (GO:0007568)|cholesterol metabolic process (GO:0008203)|negative regulation of cholesterol biosynthetic process (GO:0045541)|positive regulation of low-density lipoprotein particle receptor biosynthetic process (GO:0045716)|regulation of fatty acid biosynthetic process (GO:0042304)|response to hypoxia (GO:0001666)|response to insulin (GO:0032868)|small molecule metabolic process (GO:0044281)|SREBP signaling pathway (GO:0032933)	cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|protein complex (GO:0043234)	unfolded protein binding (GO:0051082)			endometrium(4)|kidney(1)|large_intestine(4)|liver(1)|lung(11)|ovary(1)|skin(2)|upper_aerodigestive_tract(2)	26				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		TGTGGGTCTCCAAGGAGAAGA	0.632																																					Pancreas(149;978 1908 29304 37806 46700)											0													51	53	52					3																	47456625		2202	4299	6501	SO:0001819	synonymous_variant	22937			BC020987	CCDS2755.2	3p21.31	2013-01-10			ENSG00000114650	ENSG00000114650		"WD repeat domain containing"	30634	protein-coding gene	gene with protein product	"SREBP cleavage activating protein"	601510				8898195, 8724849, 10570913	Standard	XM_005264967		Approved	KIAA0199	uc003crh.1	Q12770	OTTHUMG00000125539	ENST00000265565.5:c.3102G>A	3.37:g.47456625C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N2E0|Q8WUA1	Silent	SNP	ENST00000265565.5	37	CCDS2755.2																																																																																				0.632	SCAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000246872.2	NM_012235		T	47456625	C	T	47456625	2	4	568	1	0	0	0	0	0	0	0	1	13890	593	21	2		2	SCAP	3	47456625	Silent	SNP	C	TCGA-DW-7838-01A-11D-2136-08		47456625	150565805	20	33495										
C3orf18	51161	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	50602964	50602964	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gcatggtacccacgccggccGtgccaccagctgcatcaggg	13	16	1	0	rs559763162		TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr3:50602964G>A	ENST00000357203.3	-	3	706	c.167C>T	c.(166-168)aCg>aTg	p.T56M	C3orf18_ENST00000449241.1_Missense_Mutation_p.T56M|C3orf18_ENST00000426034.1_Missense_Mutation_p.T56M|C3orf18_ENST00000441239.1_Missense_Mutation_p.T56M|C3orf18_ENST00000486175.1_Intron	NM_016210.4	NP_057294.2	Q9UK00	CC018_HUMAN	chromosome 3 open reading frame 18	56						integral component of membrane (GO:0016021)				lung(1)|pancreas(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.0175)|Kidney(197;0.0207)		CACGCCGGCCGTGCCACCAGC	0.607																																																0													88	76	80					3																	50602964		2202	4300	6502	SO:0001583	missense	51161			AF188706	CCDS2829.1, CCDS54589.1	3p21.3	2006-01-11			ENSG00000088543	ENSG00000088543			24837	protein-coding gene	gene with protein product						12477932	Standard	NM_016210		Approved	G20	uc010hlp.3	Q9UK00	OTTHUMG00000156854	ENST00000357203.3:c.167C>T	3.37:g.50602964G>A	ENSP00000349732:p.Thr56Met	Somatic		WXS	Illumina HiSeq	Phase_I	C9JNP0	Missense_Mutation	SNP	ENST00000357203.3	37	CCDS2829.1	.	.	.	.	.	.	.	.	.	.	G	10.95	1.495028	0.26774	.	.	ENSG00000088543	ENST00000426034;ENST00000357203;ENST00000449241;ENST00000441239	T;T;T;T	0.42513	2.52;2.52;2.52;0.97	5.24	3.36	0.38483	.	0.821587	0.11279	N	0.580514	T	0.24851	0.0603	N	0.19112	0.55	0.21105	N	0.999781	P;P	0.52577	0.89;0.954	B;B	0.37780	0.258;0.251	T	0.05920	-1.0856	10	0.52906	T	0.07	-12.7022	7.5988	0.28065	0.0:0.3237:0.5385:0.1378	.	56;56	C9JNP0;Q9UK00	.;CC018_HUMAN	M	56	ENSP00000387606:T56M;ENSP00000349732:T56M;ENSP00000404913:T56M;ENSP00000414124:T56M	ENSP00000349732:T56M	T	-	2	0	C3orf18	50577968	0.019000	0.18553	0.001000	0.08648	0.388000	0.30384	2.265000	0.43311	1.193000	0.43086	0.462000	0.41574	ACG		0.607	C3orf18-014	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346260.2	NM_016210		A	50602964	G	A	50602964	3	1	568	1	0	0	0	0	1	0	0	0	2213	1145	40	1	337	1	C3orf18	3	50602964	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	3146339	50602964	147419466	21	33496										
BBX	56987	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	107491690	107491690	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	aaggaattgagaaattttgaGgcattgcaaatagatgacat	10	3	0	4			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr3:107491690G>C	ENST00000325805.8	+	11	1409	c.1122G>C	c.(1120-1122)gaG>gaC	p.E374D	BBX_ENST00000415149.2_Missense_Mutation_p.E374D|BBX_ENST00000406780.1_Missense_Mutation_p.E374D|BBX_ENST00000416476.2_Intron|BBX_ENST00000402543.1_Missense_Mutation_p.E374D			Q8WY36	BBX_HUMAN	bobby sox homolog (Drosophila)	374					bone development (GO:0060348)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(5)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(8)|lung(18)|ovary(4)|pancreas(1)|skin(2)	49			OV - Ovarian serous cystadenocarcinoma(3;0.112)			GAAATTTTGAGGCATTGCAAA	0.323																																																0													58	68	64					3																	107491690		2203	4298	6501	SO:0001583	missense	56987			AF168718	CCDS2950.1, CCDS46881.1, CCDS63712.1	3q13.1	2008-07-18			ENSG00000114439	ENSG00000114439			14422	protein-coding gene	gene with protein product	"x 001 protein"					11680820	Standard	NM_001142568		Approved	MDS001, HSPC339, HBP2	uc010hpr.4	Q8WY36	OTTHUMG00000150360	ENST00000325805.8:c.1122G>C	3.37:g.107491690G>C	ENSP00000319974:p.Glu374Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRM7|Q2TAJ1|Q7L3J8|Q7LBY8|Q8NDB0|Q8WY35|Q9H0J6	Missense_Mutation	SNP	ENST00000325805.8	37	CCDS46881.1	.	.	.	.	.	.	.	.	.	.	G	4.952	0.176823	0.09443	.	.	ENSG00000114439	ENST00000415149;ENST00000325767;ENST00000402543;ENST00000325805;ENST00000402163;ENST00000406780	D;D;D;D;D	0.98747	-4.6;-4.6;-4.61;-5.11;-4.6	6.16	-0.709	0.11237	.	0.342008	0.33253	N	0.005119	D	0.94486	0.8225	N	0.24115	0.695	0.28521	N	0.91307	B;B;B	0.18461	0.012;0.028;0.009	B;B;B	0.14023	0.004;0.01;0.009	D	0.88666	0.3192	10	0.45353	T	0.12	-10.7263	7.4111	0.27017	0.5975:0.0:0.282:0.1205	.	374;374;374	C9JA69;Q8WY36;Q8WY36-2	.;BBX_HUMAN;.	D	374;225;374;374;374;374	ENSP00000408358:E374D;ENSP00000385317:E374D;ENSP00000319974:E374D;ENSP00000385518:E374D;ENSP00000385530:E374D	ENSP00000319742:E225D	E	+	3	2	BBX	108974380	0.991000	0.36638	0.873000	0.34254	0.130000	0.20726	0.223000	0.17719	-0.449000	0.07117	-1.871000	0.00553	GAG		0.323	BBX-007	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000317820.1	NM_020235		C	107491690	G	C	107491690	3	2	568	1	0	0	0	0	1	0	0	0	1343	991	35	4	1152	4	BBX	3	107491690	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	56888726	107491690	90530740	22	33497										
ADCY5	111	broad.mit.edu	37	chr3	123166392	123166392	+	Frame_Shift_Del	DEL	A	A	-													0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tgtagatggtgtagatgaagAacacggtccaccagatgccc							TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr3:123166392delA	ENST00000462833.1	-	1	2213	c.1001delT	c.(1000-1002)ttcfs	p.F335fs		NM_183357.2	NP_899200.1	O95622	ADCY5_HUMAN	adenylate cyclase 5	335					activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenosine receptor signaling pathway (GO:0001973)|adenylate cyclase-activating dopamine receptor signaling pathway (GO:0007191)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting dopamine receptor signaling pathway (GO:0007195)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|locomotory behavior (GO:0007626)|neuromuscular process controlling balance (GO:0050885)|neurotrophin TRK receptor signaling pathway (GO:0048011)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|primary cilium (GO:0072372)	adenylate cyclase activity (GO:0004016)|adenylate cyclase binding (GO:0008179)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein heterodimerization activity (GO:0046982)			breast(2)|endometrium(4)|kidney(3)|large_intestine(12)|lung(22)|ovary(5)|prostate(2)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(2)	60				GBM - Glioblastoma multiforme(114;0.0342)		GTAGATGAAGAACACGGTCCA	0.692																																																0													31	31	31					3																	123166392		2202	4297	6499	SO:0001589	frameshift_variant	111			U65473	CCDS3022.1, CCDS56274.1	3q21.1	2013-02-04			ENSG00000173175	ENSG00000173175	4.6.1.1	"Adenylate cyclases"	236	protein-coding gene	gene with protein product		600293				10481931	Standard	NM_183357		Approved	AC5	uc003egh.2	O95622	OTTHUMG00000159517	ENST00000462833.1:c.1001delT	3.37:g.123166392delA	ENSP00000419361:p.Phe335fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8A6|Q7RTV7|Q8NFM3	Frame_Shift_Del	DEL	ENST00000462833.1	37	CCDS3022.1																																																																																				0.692	ADCY5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355889.4	XM_171048		-	123166392	A	-	123166392	7	5	568	1	0	1	0	1	0	0	0	0	297	246	9	0	2868	0	ADCY5	3	123166392	Frame_Shift_Del	DEL	A	TCGA-DW-7838-01A-11D-2136-08	15674702	123166392	74856038	23	33498										
EHHADH	1962	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	184922367	184922367	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	aacagctcctcctccttcttGatgcccacttcatagggata	6	14	2	1	rs149294851		TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr3:184922367G>A	ENST00000231887.3	-	6	822	c.747C>T	c.(745-747)atC>atT	p.I249I	EHHADH_ENST00000456310.1_Silent_p.I153I	NM_001166415.1|NM_001966.3	NP_001159887.1|NP_001957.2	Q08426	ECHP_HUMAN	enoyl-CoA, hydratase/3-hydroxyacyl CoA dehydrogenase	249	Enoyl-CoA hydratase / isomerase.				fatty acid beta-oxidation (GO:0006635)|internal protein amino acid acetylation (GO:0006475)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|peroxisome (GO:0005777)	3-hydroxyacyl-CoA dehydrogenase activity (GO:0003857)|coenzyme binding (GO:0050662)|dodecenoyl-CoA delta-isomerase activity (GO:0004165)|enoyl-CoA hydratase activity (GO:0004300)|enzyme binding (GO:0019899)|receptor binding (GO:0005102)			breast(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(9)|ovary(3)|prostate(2)|skin(3)	24	all_cancers(143;4.04e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.98e-32)|OV - Ovarian serous cystadenocarcinoma(80;5.55e-21)			CCTCCTTCTTGATGCCCACTT	0.517																																																0													131	128	129					3																	184922367		2203	4300	6503	SO:0001819	synonymous_variant	1962			L07077	CCDS33901.1, CCDS54694.1	3q26.3-q28	2012-07-13	2010-04-30		ENSG00000113790	ENSG00000113790	4.2.1.17, 1.1.1.35, 5.3.3.8		3247	protein-coding gene	gene with protein product		607037	"enoyl-Coenzyme A, hydratase/3-hydroxyacyl Coenzyme A dehydrogenase"	ECHD		8188243	Standard	NM_001966		Approved		uc003fpf.3	Q08426	OTTHUMG00000156698	ENST00000231887.3:c.747C>T	3.37:g.184922367G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6Y3|B4DWG3|D3DNU0|Q58EZ5	Silent	SNP	ENST00000231887.3	37	CCDS33901.1																																																																																				0.517	EHHADH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345326.1			A	184922367	G	A	184922367	2	1	568	1	0	0	0	0	0	0	0	1	4984	1280	45	2		2	EHHADH	3	184922367	Silent	SNP	G	TCGA-DW-7838-01A-11D-2136-08	61755975	184922367	13100063	24	33499										
MFSD10	10227	hgsc.bcm.edu	37	chr4	2934901	2934901	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	cccagtgagtggcgcacacaGaaactgcaggacagagaatg	13	10	0	3			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr4:2934901G>C	ENST00000329687.4	-	3	838	c.304C>G	c.(304-306)Ctg>Gtg	p.L102V	NOP14-AS1_ENST00000505731.1_RNA|MFSD10_ENST00000514800.1_Missense_Mutation_p.L102V|NOP14-AS1_ENST00000515194.1_RNA|NOP14-AS1_ENST00000507999.1_RNA|MFSD10_ENST00000508221.1_Missense_Mutation_p.L102V|NOP14-AS1_ENST00000512712.2_RNA|MFSD10_ENST00000507555.1_Missense_Mutation_p.L102V|MFSD10_ENST00000355443.4_Missense_Mutation_p.L102V	NM_001120.4	NP_001111.3	Q14728	MFS10_HUMAN	major facilitator superfamily domain containing 10	102					apoptotic process (GO:0006915)|tetracycline transport (GO:0015904)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of membrane (GO:0016021)	tetracycline transporter activity (GO:0008493)			breast(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(2)|skin(1)	7				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		GGCGCACACAGAAACTGCAGG	0.617																																																0													53	53	53					4																	2934901		2202	4299	6501	SO:0001583	missense	10227			L11669	CCDS3365.1	4p16.3	2008-03-03			ENSG00000109736	ENSG00000109736			16894	protein-coding gene	gene with protein product	"tetracycline transporter like protein"	610977				8353488, 17362938	Standard	NM_001120		Approved	TETRAN, IT10C3	uc003gfz.3	Q14728	OTTHUMG00000122081	ENST00000329687.4:c.304C>G	4.37:g.2934901G>C	ENSP00000332646:p.Leu102Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q07706	Missense_Mutation	SNP	ENST00000329687.4	37	CCDS3365.1	.	.	.	.	.	.	.	.	.	.	G	5.826	0.336718	0.11013	.	.	ENSG00000109736	ENST00000514800;ENST00000355443;ENST00000329687;ENST00000508221;ENST00000507555	T;T;T;T;T	0.57107	0.42;0.42;0.42;0.42;0.42	4.19	-0.214	0.13161	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.370891	0.28062	N	0.016760	T	0.33585	0.0868	L	0.45422	1.42	0.20307	N	0.999916	B;B;B;B	0.23735	0.012;0.022;0.09;0.007	B;B;B;B	0.29267	0.042;0.078;0.1;0.032	T	0.09796	-1.0658	10	0.14656	T	0.56	-10.5579	0.8156	0.01102	0.2667:0.3381:0.2238:0.1713	.	102;102;102;102	D6RIZ4;D6RE79;D6RA47;Q14728	.;.;.;MFS10_HUMAN	V	102	ENSP00000426907:L102V;ENSP00000347619:L102V;ENSP00000332646:L102V;ENSP00000425757:L102V;ENSP00000423402:L102V	ENSP00000332646:L102V	L	-	1	2	MFSD10	2904699	0.985000	0.35326	0.153000	0.22517	0.211000	0.24417	0.178000	0.16820	0.045000	0.15804	0.561000	0.74099	CTG		0.617	MFSD10-010	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358072.2	NM_001120		C	2934901	G	C	2934901	3	2	568	1	0	0	0	0	1	0	0	0	9535	933	33	4	1103	4	MFSD10	4	2934901	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08		2934901	188219375	25	33500										
JAKMIP1	152789	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	6066676	6066676	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gtgttgtaggatgtttcggaCaacgtttctgagtccacaga	12	7	1	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr4:6066676C>T	ENST00000282924.5	-	9	1847	c.1362G>A	c.(1360-1362)ttG>ttA	p.L454L	JAKMIP1_ENST00000410077.2_Silent_p.L289L|JAKMIP1_ENST00000457227.2_5'UTR|JAKMIP1_ENST00000409831.1_Silent_p.L454L|JAKMIP1_ENST00000409021.3_Silent_p.L454L|JAKMIP1_ENST00000409371.3_Silent_p.L269L	NM_144720.3	NP_653321.1	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein 1	454	Mediates interaction with TYK2 and GABBR1.				cognition (GO:0050890)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|extrinsic component of membrane (GO:0019898)|microtubule (GO:0005874)|ribonucleoprotein complex (GO:0030529)	GABA receptor binding (GO:0050811)|RNA binding (GO:0003723)			NS(2)|endometrium(1)|kidney(2)|large_intestine(10)|lung(13)|ovary(2)|pancreas(2)|prostate(1)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	42						ATGTTTCGGACAACGTTTCTG	0.488																																																0													192	163	173					4																	6066676		2203	4300	6503	SO:0001819	synonymous_variant	152789			AK056126	CCDS3385.1, CCDS47005.1	4p16.1	2013-10-11	2009-08-13		ENSG00000152969	ENSG00000152969			26460	protein-coding gene	gene with protein product		611195				18941173	Standard	NM_144720		Approved	MARLIN1, JAMIP1, Gababrbp, FLJ31564	uc010idb.1	Q96N16	OTTHUMG00000125491	ENST00000282924.5:c.1362G>A	4.37:g.6066676C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6H2J2|A6H2J3|A6H2J4|A6H2J5|A8MTK6|B4DHZ8|B8ZZR7|D3DVT0|Q86Y69|Q8N7G3	Silent	SNP	ENST00000282924.5	37	CCDS3385.1																																																																																				0.488	JAKMIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000246816.2	NM_144720		T	6066676	C	T	6066676	2	4	568	1	0	0	0	0	0	0	0	1	7947	477	17	2		2	JAKMIP1	4	6066676	Silent	SNP	C	TCGA-DW-7838-01A-11D-2136-08	3131775	6066676	185087600	26	33501										
BOD1L	259282	broad.mit.edu;bcgsc.ca	37	chr4	13601157	13601157	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tcttctcttctgcatttatgAggtgtaaagtgctctctttc	7	9	4	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr4:13601157A>G	ENST00000040738.5	-	10	7502	c.7367T>C	c.(7366-7368)cTc>cCc	p.L2456P		NM_148894.2	NP_683692.2	Q8NFC6	BD1L1_HUMAN	biorientation of chromosomes in cell division 1-like 1	2456						nucleus (GO:0005634)	DNA binding (GO:0003677)										TGCATTTATGAGGTGTAAAGT	0.468											OREG0016115	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													164	147	153					4																	13601157		2203	4300	6503	SO:0001583	missense	259282			AF528529	CCDS3411.2	4p16.1	2012-04-10	2012-04-10	2012-04-10	ENSG00000038219	ENSG00000038219			31792	protein-coding gene	gene with protein product			"family with sequence similarity 44, member A", "biorientation of chromosomes in cell division 1-like"	FAM44A, BOD1L			Standard	XM_005248150		Approved	FLJ33215, KIAA1327	uc003gmz.1	Q8NFC6	OTTHUMG00000090659	ENST00000040738.5:c.7367T>C	4.37:g.13601157A>G	ENSP00000040738:p.Leu2456Pro	Somatic	688	WXS	Illumina HiSeq	Phase_I	Q6P0M8|Q96AL1|Q9H6G0|Q9NTD6|Q9P2L9	Missense_Mutation	SNP	ENST00000040738.5	37	CCDS3411.2	.	.	.	.	.	.	.	.	.	.	A	13.05	2.120234	0.37436	.	.	ENSG00000038219	ENST00000040738	T	0.09350	2.99	4.17	-0.642	0.11486	.	0.433636	0.16546	N	0.209707	T	0.06781	0.0173	L	0.27053	0.805	0.09310	N	1	B	0.12630	0.006	B	0.08055	0.003	T	0.30937	-0.9961	10	0.40728	T	0.16	.	8.0002	0.30293	0.597:0.0:0.403:0.0	.	2456	Q8NFC6	BOD1L_HUMAN	P	2456	ENSP00000040738:L2456P	ENSP00000040738:L2456P	L	-	2	0	BOD1L	13210255	0.000000	0.05858	0.003000	0.11579	0.018000	0.09664	0.222000	0.17699	-0.013000	0.14199	0.454000	0.30748	CTC		0.468	BOD1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207321.1	NM_148894		G	13601157	A	G	13601157	3	3	568	1	0	0	0	0	1	0	0	0	1483	304	11	3	1856	3	BOD1L	4	13601157	Missense_Mutation	SNP	A	TCGA-DW-7838-01A-11D-2136-08	7534481	13601157	177553119	27	33502										
RELL1	768211	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	37650975	37650975	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	agcctttcttcttaagcaggTggcaaatgaggacgccaaag	11	9	2	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr4:37650975T>A	ENST00000454158.2	-	2	324	c.236A>T	c.(235-237)cAc>cTc	p.H79L	RELL1_ENST00000314117.4_Missense_Mutation_p.H79L	NM_001085400.1	NP_001078869.1	Q8IUW5	RELL1_HUMAN	RELT-like 1	79						cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|microtubule cytoskeleton (GO:0015630)|plasma membrane (GO:0005886)				endometrium(1)|large_intestine(3)|lung(1)|skin(1)	6						CTTAAGCAGGTGGCAAATGAG	0.443																																																0													174	179	178					4																	37650975		1930	4130	6060	SO:0001583	missense	768211			AK025431	CCDS43221.1	4p14	2011-10-11				ENSG00000181826			27379	protein-coding gene	gene with protein product		611212				16389068	Standard	NM_001085399		Approved		uc003gsz.2	Q8IUW5		ENST00000454158.2:c.236A>T	4.37:g.37650975T>A	ENSP00000398778:p.His79Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NBK1	Missense_Mutation	SNP	ENST00000454158.2	37	CCDS43221.1	.	.	.	.	.	.	.	.	.	.	T	26.9	4.783032	0.90282	.	.	ENSG00000181826	ENST00000314117;ENST00000454158;ENST00000512114	T;T;T	0.38560	1.19;1.19;1.13	5.5	5.5	0.81552	.	0.000000	0.85682	D	0.000000	T	0.64349	0.2590	M	0.71581	2.175	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	T	0.68390	-0.5421	10	0.87932	D	0	-7.8098	15.2746	0.73732	0.0:0.0:0.0:1.0	.	79	Q8IUW5	RELL1_HUMAN	L	79;79;100	ENSP00000313385:H79L;ENSP00000398778:H79L;ENSP00000424031:H100L	ENSP00000313385:H79L	H	-	2	0	RELL1	37327370	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	6.515000	0.73751	2.084000	0.62774	0.533000	0.62120	CAC		0.443	RELL1-002	KNOWN	alternative_3_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360485.1	NM_001085400		A	37650975	T	A	37650975	3	1	568	1	0	0	0	0	1	0	0	0	13231	1696	59	5	599	5	RELL1	4	37650975	Missense_Mutation	SNP	T	TCGA-DW-7838-01A-11D-2136-08	24049818	37650975	153503301	28	33503										
DMP1	1758	broad.mit.edu	37	chr4	88583660	88583660	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tgaaatcaaaagaatctggaGaaaacagtgagcaagcaaac	9	6	2	4			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr4:88583660G>A	ENST00000339673.6	+	6	829	c.730G>A	c.(730-732)Gaa>Aaa	p.E244K	RP11-742B18.1_ENST00000506480.1_RNA|DMP1_ENST00000282479.7_Missense_Mutation_p.E228K|RP11-742B18.1_ENST00000506814.1_RNA|RP11-742B18.1_ENST00000507894.1_RNA	NM_004407.3	NP_004398.1	Q13316	DMP1_HUMAN	dentin matrix acidic phosphoprotein 1	244					biomineral tissue development (GO:0031214)|extracellular matrix organization (GO:0030198)|ossification (GO:0001503)|positive regulation of cell-substrate adhesion (GO:0010811)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|intracellular membrane-bounded organelle (GO:0043231)|nucleolus (GO:0005730)|nucleus (GO:0005634)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|extracellular matrix binding (GO:0050840)|integrin binding (GO:0005178)			breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(14)|ovary(1)|pancreas(3)|prostate(1)|skin(1)|stomach(1)	32		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.227)		OV - Ovarian serous cystadenocarcinoma(123;0.000516)		AGAATCTGGAGAAAACAGTGA	0.468																																																0													51	49	50					4																	88583660		2203	4300	6503	SO:0001583	missense	1758			U34037	CCDS3623.1, CCDS43249.1	4q21	2008-08-29	2008-08-29		ENSG00000152592	ENSG00000152592			2932	protein-coding gene	gene with protein product		600980	"dentin matrix acidic phosphoprotein"			8586437, 9177774	Standard	NM_001079911		Approved		uc003hqv.3	Q13316	OTTHUMG00000130598	ENST00000339673.6:c.730G>A	4.37:g.88583660G>A	ENSP00000340935:p.Glu244Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A1L4L3|O43265	Missense_Mutation	SNP	ENST00000339673.6	37	CCDS3623.1	.	.	.	.	.	.	.	.	.	.	G	7.750	0.703146	0.15172	.	.	ENSG00000152592	ENST00000339673;ENST00000282479	T;T	0.43688	0.94;0.94	4.89	3.09	0.35607	.	1.553400	0.03623	N	0.236681	T	0.45538	0.1347	L	0.34521	1.04	0.09310	N	1	P;P	0.38167	0.567;0.621	P;P	0.48873	0.458;0.593	T	0.39440	-0.9614	10	0.27082	T	0.32	-2.3267	8.1076	0.30896	0.0847:0.2894:0.6259:0.0	.	228;244	Q13316-2;Q13316	.;DMP1_HUMAN	K	244;228	ENSP00000340935:E244K;ENSP00000282479:E228K	ENSP00000282479:E228K	E	+	1	0	DMP1	88802684	0.000000	0.05858	0.001000	0.08648	0.001000	0.01503	0.456000	0.21859	1.072000	0.40860	0.650000	0.86243	GAA		0.468	DMP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253047.1			A	88583660	G	A	88583660	3	1	568	1	0	0	0	0	1	0	0	0	4585	943	33	2	748	2	DMP1	4	88583660	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	50932685	88583660	102570616	29	33504										
CENPE	1062	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	104070327	104070327	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ggtggtctctctctgtttcaAatgacttctgtaattccttt	7	9	4	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr4:104070327A>T	ENST00000265148.3	-	27	3724	c.3635T>A	c.(3634-3636)tTt>tAt	p.F1212Y	CENPE_ENST00000380026.3_Missense_Mutation_p.F1187Y	NM_001813.2	NP_001804.2	Q02224	CENPE_HUMAN	centromere protein E, 312kDa	1212					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|blood coagulation (GO:0007596)|kinetochore assembly (GO:0051382)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|mitotic cell cycle (GO:0000278)|mitotic chromosome movement towards spindle pole (GO:0007079)|mitotic metaphase plate congression (GO:0007080)|multicellular organismal development (GO:0007275)|positive regulation of protein kinase activity (GO:0045860)|regulation of mitotic metaphase/anaphase transition (GO:0030071)	chromosome (GO:0005694)|chromosome, centromeric region (GO:0000775)|condensed chromosome outer kinetochore (GO:0000940)|condensed chromosome, centromeric region (GO:0000779)|condensed nuclear chromosome kinetochore (GO:0000778)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinesin complex (GO:0005871)|kinetochore (GO:0000776)|membrane (GO:0016020)|microtubule (GO:0005874)|microtubule cytoskeleton (GO:0015630)|midbody (GO:0030496)|mitotic spindle midzone (GO:1990023)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|kinetochore binding (GO:0043515)|microtubule motor activity (GO:0003777)			NS(3)|breast(6)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(20)|lung(34)|ovary(5)|pancreas(1)|prostate(2)|skin(3)|stomach(5)|urinary_tract(3)	101				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		CTCTGTTTCAAATGACTTCTG	0.323																																																0													82	88	86					4																	104070327		2203	4298	6501	SO:0001583	missense	1062			Z15005	CCDS34042.1, CCDS68768.1	4q24-q25	2013-11-05	2002-08-29			ENSG00000138778		"Kinesins", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	1856	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 61"	117143	"centromere protein E (312kD)"			7851898	Standard	NM_001286734		Approved	KIF10, PPP1R61	uc003hxb.1	Q02224		ENST00000265148.3:c.3635T>A	4.37:g.104070327A>T	ENSP00000265148:p.Phe1212Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKY9|A8K2U7|Q4LE75	Missense_Mutation	SNP	ENST00000265148.3	37	CCDS34042.1	.	.	.	.	.	.	.	.	.	.	A	14.70	2.613801	0.46631	.	.	ENSG00000138778	ENST00000265148;ENST00000394771;ENST00000380026	T;T	0.72167	-0.63;-0.63	4.01	2.82	0.32997	.	.	.	.	.	T	0.68247	0.2980	L	0.60455	1.87	0.26955	N	0.965944	P;P	0.50528	0.886;0.936	P;B	0.46825	0.528;0.322	T	0.58053	-0.7704	9	0.41790	T	0.15	.	7.9506	0.30012	0.9036:0.0:0.0964:0.0	.	1187;1212	Q02224-3;Q02224	.;CENPE_HUMAN	Y	1212;1212;1187	ENSP00000265148:F1212Y;ENSP00000369365:F1187Y	ENSP00000265148:F1212Y	F	-	2	0	CENPE	104289776	0.093000	0.21703	0.999000	0.59377	0.848000	0.48234	2.181000	0.42547	0.699000	0.31761	0.533000	0.62120	TTT		0.323	CENPE-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding				T	104070327	A	T	104070327	3	4	568	1	0	0	0	0	1	0	0	0	3232	14	1	5	4562	5	CENPE	4	104070327	Missense_Mutation	SNP	A	TCGA-DW-7838-01A-11D-2136-08	15486667	104070327	87083949	30	33505										
GPR98	84059	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	89953910	89953915	+	In_Frame_Del	DEL	AAATCA	AAATCA	-													0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tcagacagggagaaactaacAaatcattcattatttctgca							TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	AAATCA	AAATCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr5:89953910_89953915delAAATCA	ENST00000405460.2	+	21	4663_4668	c.4567_4572delAAATCA	c.(4567-4572)aaatcadel	p.KS1523del		NM_032119.3	NP_115495.3	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98	1523	Calx-beta 10. {ECO:0000305|PubMed:11606593}.				detection of mechanical stimulus involved in sensory perception of sound (GO:0050910)|G-protein coupled receptor signaling pathway (GO:0007186)|inner ear receptor stereocilium organization (GO:0060122)|maintenance of organ identity (GO:0048496)|nervous system development (GO:0007399)|neurological system process (GO:0050877)|neuropeptide signaling pathway (GO:0007218)|photoreceptor cell maintenance (GO:0045494)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|single organismal cell-cell adhesion (GO:0016337)|visual perception (GO:0007601)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|stereocilia ankle link complex (GO:0002142)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(4)|breast(7)|central_nervous_system(6)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(3)|kidney(18)|large_intestine(46)|liver(2)|lung(80)|ovary(12)|pancreas(5)|prostate(1)|skin(50)|stomach(7)|upper_aerodigestive_tract(8)|urinary_tract(6)	269		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)		AGAAACTAACAAATCATTCATTATTT	0.374																																																0																																										SO:0001651	inframe_deletion	84059			AB014586	CCDS47246.1	5q13	2014-08-08	2006-05-26	2006-05-26	ENSG00000164199	ENSG00000164199		"-", "GPCR / Class B : Orphans"	17416	protein-coding gene	gene with protein product		602851	"monogenic, audiogenic seizure susceptibility 1 homolog (mouse)"	USH2C, MASS1		10976914, 14740321	Standard	NM_032119		Approved	DKFZp761P0710, KIAA0686, FEB4, VLGR1b	uc003kju.3	Q8WXG9	OTTHUMG00000162668	ENST00000405460.2:c.4567_4572delAAATCA	5.37:g.89953910_89953915delAAATCA	ENSP00000384582:p.Lys1523_Ser1524del	Somatic		WXS	Illumina HiSeq	Phase_I	O75171|Q8TF58|Q9H0X5|Q9UL61	In_Frame_Del	DEL	ENST00000405460.2	37	CCDS47246.1																																																																																				0.374	GPR98-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369993.2	NM_032119		-	89953915	AAATCA	-	89953910	7	5	568	1	0	1	0	1	0	0	0	0	6728	131	5	0	4649	0	GPR98	5	89953910	In_Frame_Del	DEL	AAATCA	TCGA-DW-7838-01A-11D-2136-08		89953910	90961350	31	33506										
C5orf36	285600	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	93856481	93856481	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	agaggaattatcttcaacagAatgaagagacgtcctagaga	10	6	2	5			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr5:93856481A>C	ENST00000329378.7	-	5	691	c.442T>G	c.(442-444)Tct>Gct	p.S148A	KIAA0825_ENST00000513200.3_Missense_Mutation_p.S148A|KIAA0825_ENST00000312498.7_Missense_Mutation_p.S148A|KIAA0825_ENST00000427991.2_Missense_Mutation_p.S148A	NM_173665.2	NP_775936.1	Q8IV33	K0825_HUMAN	KIAA0825	148										breast(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(1)|pancreas(1)|prostate(1)|skin(1)	13						TCTTCAACAGAATGAAGAGAC	0.418																																																0													68	68	68					5																	93856481		2203	4299	6502	SO:0001583	missense	285600			BX648338	CCDS4070.1	5q15	2011-02-23	2011-02-23	2011-02-23	ENSG00000185261	ENSG00000185261			28532	protein-coding gene	gene with protein product			"chromosome 5 open reading frame 36"	C5orf36		12477932	Standard	NM_173665		Approved	DKFZp686F0372, MGC34713	uc011cuk.2	Q8IV33	OTTHUMG00000131331	ENST00000329378.7:c.442T>G	5.37:g.93856481A>C	ENSP00000331385:p.Ser148Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O94914|Q6ZNN2	Missense_Mutation	SNP	ENST00000329378.7	37	CCDS4070.1	.	.	.	.	.	.	.	.	.	.	A	0.007	-1.938185	0.00484	.	.	ENSG00000185261	ENST00000513200;ENST00000427991;ENST00000312498;ENST00000329378	T;T;T;T	0.38077	1.18;1.18;1.16;1.18	5.27	4.16	0.48862	.	1.670800	0.02660	N	0.107410	T	0.19644	0.0472	N	0.11560	0.145	0.21445	N	0.999683	B;B	0.11235	0.001;0.004	B;B	0.08055	0.002;0.003	T	0.37197	-0.9716	10	0.05436	T	0.98	.	6.5441	0.22397	0.4544:0.4284:0.0:0.1172	.	148;148	Q8IV33;Q8IV33-2	K0825_HUMAN;.	A	148	ENSP00000424618:S148A;ENSP00000400288:S148A;ENSP00000312205:S148A;ENSP00000331385:S148A	ENSP00000312205:S148A	S	-	1	0	KIAA0825	93882237	1.000000	0.71417	0.939000	0.37840	0.025000	0.11179	2.208000	0.42797	1.984000	0.57885	0.477000	0.44152	TCT		0.418	KIAA0825-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371180.2	NM_173665		C	93856481	A	C	93856481	3	2	568	1	0	0	0	0	1	0	0	0	2297	246	9	5	3458	5	C5orf36	5	93856481	Missense_Mutation	SNP	A	TCGA-DW-7838-01A-11D-2136-08	3902571	93856481	87058779	32	33507										
HSD17B4	3295	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	118824931	118824931	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	agtatgtggcacctcttgtcCtttggctttgtcacgagagt	11	9	2	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr5:118824931C>T	ENST00000256216.6	+	9	800	c.667C>T	c.(667-669)Ctt>Ttt	p.L223F	HSD17B4_ENST00000513628.1_Missense_Mutation_p.L86F|HSD17B4_ENST00000504811.1_Missense_Mutation_p.L248F|HSD17B4_ENST00000510025.1_Missense_Mutation_p.L199F|HSD17B4_ENST00000509514.1_5'UTR|HSD17B4_ENST00000414835.2_Missense_Mutation_p.L83F|HSD17B4_ENST00000515320.1_Missense_Mutation_p.L205F	NM_000414.3	NP_000405.1	P51659	DHB4_HUMAN	hydroxysteroid (17-beta) dehydrogenase 4	223	(3R)-hydroxyacyl-CoA dehydrogenase.				alpha-linolenic acid metabolic process (GO:0036109)|androgen metabolic process (GO:0008209)|bile acid biosynthetic process (GO:0006699)|bile acid metabolic process (GO:0008206)|cellular lipid metabolic process (GO:0044255)|estrogen metabolic process (GO:0008210)|fatty acid beta-oxidation (GO:0006635)|fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)|medium-chain fatty-acyl-CoA metabolic process (GO:0036112)|metabolic process (GO:0008152)|osteoblast differentiation (GO:0001649)|oxidation-reduction process (GO:0055114)|Sertoli cell development (GO:0060009)|small molecule metabolic process (GO:0044281)|unsaturated fatty acid metabolic process (GO:0033559)|very long-chain fatty acid metabolic process (GO:0000038)|very long-chain fatty-acyl-CoA metabolic process (GO:0036111)	intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|mitochondrion (GO:0005739)|peroxisomal matrix (GO:0005782)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	17-beta-hydroxysteroid dehydrogenase (NAD+) activity (GO:0044594)|3-hydroxyacyl-CoA dehydrogenase activity (GO:0003857)|3alpha,7alpha,12alpha-trihydroxy-5beta-cholest-24-enoyl-CoA hydratase activity (GO:0033989)|isomerase activity (GO:0016853)|long-chain-enoyl-CoA hydratase activity (GO:0016508)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)			breast(2)|cervix(2)|endometrium(3)|kidney(1)|large_intestine(3)|lung(8)|ovary(1)|pancreas(1)|prostate(2)|urinary_tract(2)	25		all_cancers(142;0.0206)|Prostate(80;0.0322)		OV - Ovarian serous cystadenocarcinoma(64;0.000247)|Epithelial(69;0.000849)|all cancers(49;0.0122)		ACCTCTTGTCCTTTGGCTTTG	0.378																																					Colon(35;490 801 34689 41394 43344)											0													221	214	217					5																	118824931		2202	4300	6502	SO:0001583	missense	3295				CCDS4126.1, CCDS56378.1, CCDS56379.1	5q2	2011-09-20			ENSG00000133835	ENSG00000133835	4.2.1.107, 1.1.1.35	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 3"	5213	protein-coding gene	gene with protein product	"17beta-estradiol dehydrogenase type IV", "peroxisomal multifunctional protein 2", "17-beta-HSD IV", "17-beta-hydroxysteroid dehydrogenase 4", "D-bifunctional protein, peroxisomal", "D-3-hydroxyacyl-CoA dehydratase", "3-alpha,7-alpha,12-alpha-trihydroxy-5-beta-cholest-24-enoyl-CoA hydratase", "beta-keto-reductase", "beta-hydroxyacyl dehydrogenase", "short chain dehydrogenase/reductase family 8C, member 1"	601860				8938456, 19027726	Standard	NM_000414		Approved	MFE-2, DBP, SDR8C1	uc003ksj.3	P51659	OTTHUMG00000128899	ENST00000256216.6:c.667C>T	5.37:g.118824931C>T	ENSP00000256216:p.Leu223Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B4DNV1|B4DVS5|E9PB82|F5HE57	Missense_Mutation	SNP	ENST00000256216.6	37	CCDS4126.1	.	.	.	.	.	.	.	.	.	.	C	17.85	3.490542	0.64074	.	.	ENSG00000133835	ENST00000256216;ENST00000515320;ENST00000510025;ENST00000504811;ENST00000414835;ENST00000513628	D;D;D;D;D;D	0.90955	-2.76;-2.76;-2.76;-2.76;-2.76;-2.76	5.97	5.97	0.96955	NAD(P)-binding domain (1);	0.000000	0.85682	D	0.000000	D	0.95262	0.8463	M	0.87381	2.88	0.80722	D	1	D;P;P;P	0.71674	0.998;0.891;0.746;0.891	D;B;B;B	0.71414	0.973;0.266;0.266;0.194	D	0.94345	0.7574	10	0.39692	T	0.17	-19.2226	13.265	0.60128	0.0:0.9271:0.0:0.0729	.	248;205;199;223	F5HE57;E9PB82;E7EWE5;P51659	.;.;.;DHB4_HUMAN	F	223;205;199;248;83;86	ENSP00000256216:L223F;ENSP00000424613:L205F;ENSP00000424940:L199F;ENSP00000420914:L248F;ENSP00000411960:L83F;ENSP00000425993:L86F	ENSP00000256216:L223F	L	+	1	0	HSD17B4	118852830	0.999000	0.42202	1.000000	0.80357	0.393000	0.30537	3.986000	0.56937	2.834000	0.97654	0.650000	0.86243	CTT		0.378	HSD17B4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250863.3	NM_000414		T	118824931	C	T	118824931	3	4	568	1	0	0	0	0	1	0	0	0	7393	681	24	2	701	2	HSD17B4	5	118824931	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	24968450	118824931	62090329	33	33508										
ZNF608	57507	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	123980011	123980011	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ggtcgtacatctgtgggtaaGgataagcatgcaagtactgt	13	6	1	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr5:123980011G>A	ENST00000306315.5	-	5	4484	c.4049C>T	c.(4048-4050)cCt>cTt	p.P1350L	ZNF608_ENST00000504926.1_Missense_Mutation_p.P923L|ZNF608_ENST00000513985.1_5'UTR	NM_020747.2	NP_065798.2	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	1350							metal ion binding (GO:0046872)			breast(4)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(8)|lung(12)|ovary(3)|skin(6)|urinary_tract(1)	46		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)		CTGTGGGTAAGGATAAGCATG	0.502																																																0													216	161	179					5																	123980011		2203	4300	6503	SO:0001583	missense	57507			AB033107	CCDS34219.1	5q23.2	2008-05-02			ENSG00000168916	ENSG00000168916		"Zinc fingers, C2H2-type"	29238	protein-coding gene	gene with protein product						10574462, 10508479	Standard	NM_020747		Approved	KIAA1281, DKFZp434M098, NY-REN-36	uc003ktq.1	Q9ULD9	OTTHUMG00000162999	ENST00000306315.5:c.4049C>T	5.37:g.123980011G>A	ENSP00000307746:p.Pro1350Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2W9|Q3SYM6|Q68D12|Q8IY05|Q9Y5A1	Missense_Mutation	SNP	ENST00000306315.5	37	CCDS34219.1	.	.	.	.	.	.	.	.	.	.	G	26.1	4.704307	0.88924	.	.	ENSG00000168916	ENST00000504926;ENST00000306315	T;T	0.50813	0.78;0.73	5.55	5.55	0.83447	.	0.063529	0.64402	D	0.000002	T	0.68961	0.3058	M	0.65498	2.005	0.80722	D	1	D	0.76494	0.999	D	0.74023	0.982	T	0.70439	-0.4871	10	0.87932	D	0	-13.536	19.8645	0.96799	0.0:0.0:1.0:0.0	.	1350	Q9ULD9	ZN608_HUMAN	L	923;1350	ENSP00000427657:P923L;ENSP00000307746:P1350L	ENSP00000307746:P1350L	P	-	2	0	ZNF608	124007910	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	7.896000	0.87350	2.766000	0.95052	0.643000	0.83706	CCT		0.502	ZNF608-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371300.1	XM_114432		A	123980011	G	A	123980011	3	1	568	1	0	0	0	0	1	0	0	0	18046	1000	35	2	509	2	ZNF608	5	123980011	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	5155080	123980011	56935249	34	33509										
GPR116	221395	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	46867766	46867766	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ccaagcaagagtttacatacCggctcgtttttgcctcagtg	9	11	1	1	rs145334563	byFrequency	TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr6:46867766C>A	ENST00000283296.7	-	3	445	c.157G>T	c.(157-159)Gtt>Ttt	p.V53F	GPR116_ENST00000362015.4_Splice_Site_p.V53F|GPR116_ENST00000456426.2_Splice_Site_p.V53F|GPR116_ENST00000265417.7_Splice_Site_p.V53F	NM_001098518.1	NP_001091988.1	Q8IZF2	GP116_HUMAN	G protein-coupled receptor 116	53					energy reserve metabolic process (GO:0006112)|fat cell differentiation (GO:0045444)|G-protein coupled receptor signaling pathway (GO:0007186)|glucose homeostasis (GO:0042593)|neuropeptide signaling pathway (GO:0007218)|regulation of lipid metabolic process (GO:0019216)|surfactant homeostasis (GO:0043129)	cell surface (GO:0009986)|cytoplasmic vesicle (GO:0031410)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			breast(2)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(14)|lung(21)|ovary(1)|pancreas(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	59			Lung(136;0.192)			GTTTACATACCGGCTCGTTTT	0.383																																					NSCLC(59;410 1274 8751 36715 50546)											0													109	98	102					6																	46867766		2203	4300	6503	SO:0001630	splice_region_variant	221395			AB018301	CCDS4919.1	6p12.3	2014-08-08			ENSG00000069122	ENSG00000069122		"-", "GPCR / Class B : Orphans", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	19030	protein-coding gene	gene with protein product						12435584	Standard	NM_001098518		Approved	DKFZp564O1923, KIAA0758	uc003oyo.3	Q8IZF2	OTTHUMG00000014793	ENST00000283296.7:c.157+1G>T	6.37:g.46867766C>A		Somatic		WXS	Illumina HiSeq	Phase_I	O94858|Q5TF06|Q6RGN2|Q86SP0|Q9Y3Z2	Missense_Mutation	SNP	ENST00000283296.7	37	CCDS4919.1	.	.	.	.	.	.	.	.	.	.	C	14.20	2.464871	0.43839	.	.	ENSG00000069122	ENST00000452370;ENST00000283296;ENST00000362015;ENST00000456426;ENST00000265417	T;T;T;T	0.29655	1.62;2.0;1.56;1.62	4.96	4.96	0.65561	.	0.286307	0.24695	N	0.036356	T	0.36082	0.0954	M	0.64997	1.995	0.80722	D	1	P;P;P	0.52842	0.956;0.911;0.956	P;P;P	0.56474	0.632;0.799;0.632	T	0.05468	-1.0883	9	.	.	.	-3.8272	14.057	0.64776	0.0:1.0:0.0:0.0	.	53;53;53	A8K0D8;Q8IZF2-3;Q8IZF2	.;.;GP116_HUMAN	F	53	ENSP00000283296:V53F;ENSP00000354563:V53F;ENSP00000412866:V53F;ENSP00000265417:V53F	.	V	-	1	0	GPR116	46975725	0.983000	0.35010	0.886000	0.34754	0.036000	0.12997	3.364000	0.52328	2.479000	0.83701	0.462000	0.41574	GTT		0.383	GPR116-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040806.2	NM_015234	Missense_Mutation	A	46867766	C	A	46867766	5	1	568	1	0	0	0	0	0	0	1	0	6640	666	23	4	3959	4	GPR116	6	46867766	Splice_Site	SNP	C	TCGA-DW-7838-01A-11D-2136-08		46867766	124247301	35	33510										
COL9A1	1297	hgsc.bcm.edu;bcgsc.ca	37	chr6	70944522	70944522	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ggccctggacaccaggcaggCcggtggcaccctgttctccc	13	17	1	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr6:70944522C>A	ENST00000357250.6	-	34	2392	c.2234G>T	c.(2233-2235)gGc>gTc	p.G745V	COL9A1_ENST00000320755.7_Missense_Mutation_p.G502V|COL9A1_ENST00000489611.1_5'UTR|COL9A1_ENST00000370499.4_Missense_Mutation_p.G502V|RP1-149L1.1_ENST00000522264.1_RNA	NM_001851.4	NP_001842.3	P20849	CO9A1_HUMAN	collagen, type IX, alpha 1	745	Collagen-like 8.|Triple-helical region (COL2).				axon guidance (GO:0007411)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|growth plate cartilage development (GO:0003417)|organ morphogenesis (GO:0009887)|tissue homeostasis (GO:0001894)	collagen type IX trimer (GO:0005594)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	extracellular matrix structural constituent conferring tensile strength (GO:0030020)|metal ion binding (GO:0046872)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(10)|lung(44)|ovary(5)|prostate(2)|skin(6)|stomach(1)|upper_aerodigestive_tract(4)	80						ACCAGGCAGGCCGGTGGCACC	0.647																																																0													36	38	37					6																	70944522		2203	4300	6503	SO:0001583	missense	1297				CCDS4971.1, CCDS47447.1	6q13	2013-05-07			ENSG00000112280	ENSG00000112280		"Proteoglycans / Extracellular Matrix : Collagen proteoglycans", "Collagens"	2217	protein-coding gene	gene with protein product		120210				1429648	Standard	NM_001851		Approved		uc003pfg.4	P20849	OTTHUMG00000014988	ENST00000357250.6:c.2234G>T	6.37:g.70944522C>A	ENSP00000349790:p.Gly745Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q13699|Q13700|Q5TF52|Q6P467|Q96BM8|Q99225|Q9H151|Q9H152|Q9Y6P2|Q9Y6P3	Missense_Mutation	SNP	ENST00000357250.6	37	CCDS4971.1	.	.	.	.	.	.	.	.	.	.	C	19.89	3.911377	0.72983	.	.	ENSG00000112280	ENST00000357250;ENST00000320755;ENST00000370499	D;D;D	0.99637	-6.29;-6.29;-6.29	5.74	5.74	0.90152	.	0.149132	0.64402	D	0.000011	D	0.99846	0.9929	H	0.97758	4.07	0.80722	D	1	D;D;P	0.76494	0.999;0.996;0.918	D;D;P	0.75484	0.986;0.941;0.806	D	0.96911	0.9667	10	0.87932	D	0	.	19.9077	0.97014	0.0:1.0:0.0:0.0	.	745;502;294	P20849;P20849-2;B3KWS8	CO9A1_HUMAN;.;.	V	745;502;502	ENSP00000349790:G745V;ENSP00000315252:G502V;ENSP00000359530:G502V	ENSP00000315252:G502V	G	-	2	0	COL9A1	71001243	1.000000	0.71417	0.988000	0.46212	0.907000	0.53573	7.556000	0.82233	2.714000	0.92807	0.585000	0.79938	GGC		0.647	COL9A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041131.2			A	70944522	C	A	70944522	3	1	568	1	0	0	0	0	1	0	0	0	3709	739	26	4	551	4	COL9A1	6	70944522	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	24076756	70944522	100170545	36	33511										
RFX6	222546	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	117249981	117249981	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ggctcggatcaatggtgaatCagcacgtttctgtcatcagc	11	10	5	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr6:117249981C>A	ENST00000332958.2	+	18	2474	c.2458C>A	c.(2458-2460)Cag>Aag	p.Q820K		NM_173560.3	NP_775831.2	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	820					endocrine pancreas development (GO:0031018)|glucose homeostasis (GO:0042593)|pancreatic A cell differentiation (GO:0003310)|pancreatic D cell differentiation (GO:0003311)|pancreatic epsilon cell differentiation (GO:0090104)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of insulin secretion (GO:0050796)|transcription, DNA-templated (GO:0006351)|type B pancreatic cell differentiation (GO:0003309)	nucleus (GO:0005634)	transcription regulatory region DNA binding (GO:0044212)			cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(29)|ovary(1)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	59						AATGGTGAATCAGCACGTTTC	0.433																																																0													160	141	148					6																	117249981		2203	4300	6503	SO:0001583	missense	222546			BC039248	CCDS5113.1	6q22.31	2008-08-04	2008-08-04	2008-08-04	ENSG00000185002	ENSG00000185002			21478	protein-coding gene	gene with protein product		612659	"regulatory factor X domain containing 1"	RFXDC1			Standard	NM_173560		Approved	MGC33442, dJ955L16.1	uc003pxm.3	Q8HWS3	OTTHUMG00000015449	ENST00000332958.2:c.2458C>A	6.37:g.117249981C>A	ENSP00000332208:p.Gln820Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6B3	Missense_Mutation	SNP	ENST00000332958.2	37	CCDS5113.1	.	.	.	.	.	.	.	.	.	.	C	26.6	4.756755	0.89843	.	.	ENSG00000185002	ENST00000332958	T	0.57752	0.38	5.63	5.63	0.86233	.	0.000000	0.85682	D	0.000000	T	0.51312	0.1667	L	0.34521	1.04	0.80722	D	1	D	0.65815	0.995	P	0.55260	0.772	T	0.54200	-0.8329	10	0.72032	D	0.01	-16.3509	20.0442	0.97604	0.0:1.0:0.0:0.0	.	820	Q8HWS3	RFX6_HUMAN	K	820	ENSP00000332208:Q820K	ENSP00000332208:Q820K	Q	+	1	0	RFX6	117356674	1.000000	0.71417	0.999000	0.59377	0.763000	0.43281	7.398000	0.79919	2.814000	0.96858	0.655000	0.94253	CAG		0.433	RFX6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041970.2	NM_173560		A	117249981	C	A	117249981	3	1	568	1	0	0	0	0	1	0	0	0	13280	827	29	4	2528	4	RFX6	6	117249981	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	46305459	117249981	53865086	37	33512										
HEBP2	23593	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	138727187	138727187	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tttagtgagtctaccattacCatttccctgtatattccctc	4	12	1	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr6:138727187C>A	ENST00000607197.1	+	3	595	c.318C>A	c.(316-318)acC>acA	p.T106T	HEBP2_ENST00000448741.1_Intron|HEBP2_ENST00000367697.3_Intron	NM_014320.2	NP_055135.1	Q9Y5Z4	HEBP2_HUMAN	heme binding protein 2	106					negative regulation of mitochondrial membrane potential (GO:0010917)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of necrotic cell death (GO:0010940)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)				endometrium(1)|large_intestine(1)|lung(3)	5	Breast(32;0.0933)			GBM - Glioblastoma multiforme(68;0.000732)|OV - Ovarian serous cystadenocarcinoma(155;0.00171)		CTACCATTACCATTTCCCTGT	0.423																																																0													169	158	162					6																	138727187		2203	4300	6503	SO:0001819	synonymous_variant	23593			AF117616	CCDS5191.1	6q24	2008-08-29	2002-09-23	2002-09-27	ENSG00000051620	ENSG00000051620			15716	protein-coding gene	gene with protein product		605825	"chromosome 6 open reading frame 34"	C6orf34		10640688, 17098234	Standard	NM_014320		Approved	SOUL	uc003qhw.1	Q9Y5Z4	OTTHUMG00000015671	ENST00000607197.1:c.318C>A	6.37:g.138727187C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q96P57	Silent	SNP	ENST00000607197.1	37	CCDS5191.1																																																																																				0.423	HEBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042426.2			A	138727187	C	A	138727187	2	1	568	1	0	0	0	0	0	0	0	1	7044	581	21	4		4	HEBP2	6	138727187	Silent	SNP	C	TCGA-DW-7838-01A-11D-2136-08	21477206	138727187	32387880	38	33513										
PMS2	5395	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	6035170	6035170	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	aaaaattttaaatacctttgCtgggtcacaaggccgccggt	9	9	1	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr7:6035170C>T	ENST00000265849.7	-	8	1003	c.898G>A	c.(898-900)Gca>Aca	p.A300T	PMS2_ENST00000406569.3_Missense_Mutation_p.A300T|PMS2_ENST00000469652.1_Intron|PMS2_ENST00000382321.4_Intron|PMS2_ENST00000441476.2_Missense_Mutation_p.A194T	NM_000535.5	NP_000526	P54278	PMS2_HUMAN	PMS2 postmeiotic segregation increased 2 (S. cerevisiae)	300					ATP catabolic process (GO:0006200)|mismatch repair (GO:0006298)|response to drug (GO:0042493)|somatic hypermutation of immunoglobulin genes (GO:0016446)|somatic recombination of immunoglobulin gene segments (GO:0016447)	cytoplasm (GO:0005737)|microtubule cytoskeleton (GO:0015630)|MutLalpha complex (GO:0032389)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|DNA binding (GO:0003677)|endonuclease activity (GO:0004519)|single base insertion or deletion binding (GO:0032138)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(6)|kidney(2)|large_intestine(11)|lung(13)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	46		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;4.39e-15)		AATACCTTTGCTGGGTCACAA	0.383			"Mis, N, F"			"colorectal, endometrial, ovarian, medulloblastoma, glioma"		Direct reversal of damage;Mismatch excision repair (MMR)	Turcot syndrome;Lynch syndrome;Constitutional Mismatch Repair Deficiency Syndrome																													yes	Rec		"Hereditary non-polyposis colorectal cancer, Turcot syndrome"	7	7p22	5395	PMS2 postmeiotic segregation increased 2 (S. cerevisiae)		E	0													89	84	86					7																	6035170		2203	4300	6503	SO:0001583	missense	5395	Familial Cancer Database	Brain tumor-colorectal polyp(osis) syndrome;Hereditary Non-Polyposis Colorectal Cancer, HNPCC, Lynch syndromes 1 and 2 (= Cancer Family Syndrome), Hereditary Mismatch Repair Deficiency syndrome, HMRDS;Mismatch Repair Cancer syndrome, MMRCS, Childhood Cancer Syndrome, CCS, Biallelic Mismatch Repair Gene Mutations Associated Early Onset Cancer, Lynch syndrome type III		CCDS5343.1	7p22.1	2014-09-17	2001-11-28		ENSG00000122512	ENSG00000122512			9122	protein-coding gene	gene with protein product		600259	"postmeiotic segregation increased (S. cerevisiae) 2"	PMSL2		8072530	Standard	NM_000535		Approved	H_DJ0042M02.9, HNPCC4	uc003spl.3	P54278	OTTHUMG00000023135	ENST00000265849.7:c.898G>A	7.37:g.6035170C>T	ENSP00000265849:p.Ala300Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R610|Q52LH6|Q5FBW9|Q5FBX1|Q5FBX2|Q75MR2	Missense_Mutation	SNP	ENST00000265849.7	37	CCDS5343.1	.	.	.	.	.	.	.	.	.	.	c	15.72	2.917497	0.52546	.	.	ENSG00000122512	ENST00000265849;ENST00000382322;ENST00000441476;ENST00000406569	D;D;D	0.83992	-1.79;-1.79;-1.79	5.85	4.96	0.65561	Ribosomal protein S5 domain 2-type fold (1);DNA mismatch repair protein, N-terminal (1);Ribosomal protein S5 domain 2-type fold, subgroup (1);DNA mismatch repair protein, C-terminal (1);	0.410133	0.26345	N	0.024920	T	0.73969	0.3655	L	0.49350	1.555	0.42490	D	0.992891	B;B;B	0.34241	0.012;0.068;0.444	B;B;B	0.27262	0.007;0.013;0.078	T	0.69367	-0.5164	10	0.14656	T	0.56	-8.6094	10.6468	0.45626	0.1337:0.7984:0.0:0.0678	.	300;300;194	P54278-3;P54278;C9J167	.;PMS2_HUMAN;.	T	300;253;194;300	ENSP00000265849:A300T;ENSP00000392843:A194T;ENSP00000384308:A300T	ENSP00000265849:A300T	A	-	1	0	PMS2	6001696	0.544000	0.26441	1.000000	0.80357	0.989000	0.77384	0.265000	0.18515	1.469000	0.48083	0.650000	0.86243	GCA		0.383	PMS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207353.3	NM_000535		T	6035170	C	T	6035170	3	4	568	1	0	0	0	0	1	0	0	0	12150	797	28	2	1722	2	PMS2	7	6035170	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08		6035170	153103493	39	33514										
POU6F2	11281	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	39446255	39446255	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gctgcagcagccatgagctcCatagcaagctcacaggcctt	10	14	1	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr7:39446255C>T	ENST00000403058.1	+	7	1096	c.942C>T	c.(940-942)tcC>tcT	p.S314S	POU6F2_ENST00000559001.1_Intron|POU6F2_ENST00000518318.2_Silent_p.S314S|POU6F2-AS1_ENST00000433519.1_RNA	NM_001166018.1|NM_007252.3	NP_001159490.1|NP_009183.3	P78424	PO6F2_HUMAN	POU class 6 homeobox 2	314	Gln-rich.				central nervous system development (GO:0007417)|ganglion mother cell fate determination (GO:0007402)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)|visual perception (GO:0007601)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(3)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(16)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	42						CCATGAGCTCCATAGCAAGCT	0.532																																																0													57	57	57					7																	39446255		2203	4300	6503	SO:0001819	synonymous_variant	11281			U91934	CCDS34620.2, CCDS55103.1	7p14.1	2011-06-20	2007-07-13		ENSG00000106536	ENSG00000106536		"Homeoboxes / POU class"	21694	protein-coding gene	gene with protein product	"Retina-derived POU-domain factor-1"	609062	"POU domain, class 6, transcription factor 2"			8601806	Standard	NM_007252		Approved	RPF-1	uc003thb.2	P78424	OTTHUMG00000150803	ENST00000403058.1:c.942C>T	7.37:g.39446255C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4D1W2|C4AMB9|P78425|Q75ME8|Q86UM6|Q9UDS7	Silent	SNP	ENST00000403058.1	37	CCDS34620.2																																																																																				0.532	POU6F2-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000320146.3	NM_007252		T	39446255	C	T	39446255	2	4	568	1	0	0	0	0	0	0	0	1	12292	581	21	2		2	POU6F2	7	39446255	Silent	SNP	C	TCGA-DW-7838-01A-11D-2136-08	33411085	39446255	119692408	40	33515										
ZMIZ2	83637	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	44805818	44805818	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tccttcccacccaccacgccCagcaccccaacccttgctga	4	23	0	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr7:44805818C>G	ENST00000309315.4	+	17	2421	c.2298C>G	c.(2296-2298)ccC>ccG	p.P766P	ZMIZ2_ENST00000463931.1_3'UTR|ZMIZ2_ENST00000441627.1_Silent_p.P766P|ZMIZ2_ENST00000413916.1_Silent_p.P708P|ZMIZ2_ENST00000433667.1_Silent_p.P734P|ZMIZ2_ENST00000265346.7_Silent_p.P740P	NM_031449.3	NP_113637.3	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2	766	Pro-rich.				positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	mitochondrion (GO:0005739)|nuclear replication fork (GO:0043596)|nucleus (GO:0005634)	ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|zinc ion binding (GO:0008270)			breast(3)|endometrium(2)|kidney(3)|large_intestine(6)|lung(10)|ovary(6)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	35						CCACCACGCCCAGCACCCCAA	0.632																																					NSCLC(20;604 852 1948 16908 50522)											0													58	66	64					7																	44805818		1960	4127	6087	SO:0001819	synonymous_variant	83637			AK090415	CCDS43576.1, CCDS43577.1, CCDS75591.1	7p13	2009-11-06			ENSG00000122515	ENSG00000122515		"Zinc fingers, MIZ-type"	22229	protein-coding gene	gene with protein product		611196					Standard	XM_005249866		Approved	KIAA1886, hZIMP7, ZIMP7, DKFZp761I2123, NET27	uc003tlr.3	Q8NF64	OTTHUMG00000155817	ENST00000309315.4:c.2298C>G	7.37:g.44805818C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A4D2K7|D3DVL1|O94790|Q0VGB4|Q659A8|Q6JKL5|Q8WTX8|Q96Q01|Q9BQH7	Silent	SNP	ENST00000309315.4	37	CCDS43576.1																																																																																				0.632	ZMIZ2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341790.1	NM_031449		G	44805818	C	G	44805818	2	3	568	1	0	0	0	0	0	0	0	1	17709	581	21	4		4	ZMIZ2	7	44805818	Silent	SNP	C	TCGA-DW-7838-01A-11D-2136-08	5359563	44805818	114332845	41	33516										
DMTF1	9988	hgsc.bcm.edu;broad.mit.edu	37	chr7	86808890	86808890	+	Frame_Shift_Del	DEL	C	C	-													0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ataaaagatgctacagaaatCatctttgagatgtcaaaaga							TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr7:86808890delC	ENST00000394703.5	+	10	1112	c.549delC	c.(547-549)atcfs	p.I184fs	DMTF1_ENST00000331242.7_Frame_Shift_Del_p.I184fs|DMTF1_ENST00000411766.2_Frame_Shift_Del_p.I143fs|DMTF1_ENST00000413276.2_Frame_Shift_Del_p.I184fs|DMTF1_ENST00000432937.2_Frame_Shift_Del_p.I96fs|DMTF1_ENST00000394702.3_Frame_Shift_Del_p.I184fs|DMTF1_ENST00000414194.2_5'UTR	NM_021145.3	NP_066968.3	Q9Y222	DMTF1_HUMAN	cyclin D binding myb-like transcription factor 1	184	Interaction with CCND1, CCND2 and CCND3. {ECO:0000250}.|Interaction with CCND2. {ECO:0000250}.|Required for DNA-binding. {ECO:0000250}.				cell cycle (GO:0007049)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(4)|ovary(1)	16	Esophageal squamous(14;0.0058)					CTACAGAAATCATCTTTGAGA	0.363																																																0													63	58	60					7																	86808890		2203	4300	6503	SO:0001589	frameshift_variant	9988			AF084530	CCDS5601.1, CCDS47633.1	7q21	2014-06-25			ENSG00000135164	ENSG00000135164			14603	protein-coding gene	gene with protein product	"cyclin D-binding Myb-like protein"	608491				10095122, 24958102	Standard	NR_024549		Approved	DMP1, DMTF, hDMP1, MRUL	uc003uih.3	Q9Y222	OTTHUMG00000154135	ENST00000394703.5:c.549delC	7.37:g.86808890delC	ENSP00000378193:p.Ile184fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBE1|B4DJS5|Q05C48|Q59G79|Q6IS13|Q969T2|Q9H2Z2|Q9H2Z3	Frame_Shift_Del	DEL	ENST00000394703.5	37	CCDS5601.1																																																																																				0.363	DMTF1-002	KNOWN	alternative_5_UTR|non_canonical_TEC|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000334025.5	NM_021145		-	86808890	C	-	86808890	7	5	568	1	0	1	0	1	0	0	0	0	4594	816	29	0	571	0	DMTF1	7	86808890	Frame_Shift_Del	DEL	C	TCGA-DW-7838-01A-11D-2136-08	42003072	86808890	72329773	42	33517										
ABCB4	5244	hgsc.bcm.edu;bcgsc.ca	37	chr7	87051487	87051487	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tcccagaaataagaaaatcaAagagaatatgttgcacttct	6	7	2	3			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr7:87051487A>G	ENST00000265723.4	-	18	2377	c.2266T>C	c.(2266-2268)Ttg>Ctg	p.L756L	ABCB4_ENST00000545634.1_Silent_p.L756L|ABCB4_ENST00000453593.1_Silent_p.L756L|ABCB4_ENST00000359206.3_Silent_p.L756L|ABCB4_ENST00000358400.3_Silent_p.L756L	NM_000443.3|NM_018849.2	NP_000434.1|NP_061337.1	P21439	MDR3_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP), member 4	756	ABC transmembrane type-1 2. {ECO:0000255|PROSITE-ProRule:PRU00441}.				cellular lipid metabolic process (GO:0044255)|lipid metabolic process (GO:0006629)|response to drug (GO:0042493)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|transport (GO:0006810)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|intercellular canaliculus (GO:0046581)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|xenobiotic-transporting ATPase activity (GO:0008559)			breast(5)|endometrium(7)|kidney(2)|large_intestine(15)|lung(32)|ovary(4)|pancreas(2)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	77	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				Colchicine(DB01394)|Etravirine(DB06414)|Silodosin(DB06207)	AAGAAAATCAAAGAGAATATG	0.338																																																0													56	56	56					7																	87051487		2203	4300	6503	SO:0001819	synonymous_variant	5244			M23234	CCDS5605.1, CCDS5606.1, CCDS5607.1	7q21	2012-03-14			ENSG00000005471	ENSG00000005471		"ATP binding cassette transporters / subfamily B"	45	protein-coding gene	gene with protein product		171060		PGY3, MDR3		2892668, 11313316	Standard	NM_018850		Approved	MDR2, PFIC-3, GBD1	uc003uiv.1	P21439	OTTHUMG00000023396	ENST00000265723.4:c.2266T>C	7.37:g.87051487A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0A2V7|A4D1D3|A4D1D4|A4D1D5|D6W5P3|D6W5P4|Q14813	Silent	SNP	ENST00000265723.4	37	CCDS5606.1																																																																																				0.338	ABCB4-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000336083.1	NM_000443		G	87051487	A	G	87051487	2	3	568	1	0	0	0	0	0	0	0	1	43	11	1	3		3	ABCB4	7	87051487	Silent	SNP	A	TCGA-DW-7838-01A-11D-2136-08	242597	87051487	72087176	43	33518										
CYP3A43	64816	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	99454477	99454477	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	atcgagtagatttctttcaaCagatgatcgactcccagaat	7	9	2	4			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr7:99454477C>A	ENST00000354829.2	+	9	923	c.820C>A	c.(820-822)Cag>Aag	p.Q274K	CYP3A43_ENST00000222382.5_Missense_Mutation_p.Q274K|CYP3A43_ENST00000342499.4_Missense_Mutation_p.Q134K|CYP3A43_ENST00000477658.1_3'UTR|CYP3A43_ENST00000415413.1_Missense_Mutation_p.Q63K|CYP3A43_ENST00000312017.5_Missense_Mutation_p.Q274K|CYP3A43_ENST00000444905.1_Missense_Mutation_p.Q21K|CYP3A43_ENST00000417625.1_Missense_Mutation_p.Q164K	NM_022820.3|NM_057095.1	NP_073731.1|NP_476436.1	Q9HB55	CP343_HUMAN	cytochrome P450, family 3, subfamily A, polypeptide 43	274			Missing (in allele CYP3A43*2).		small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)	aromatase activity (GO:0070330)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(9)|ovary(1)|prostate(1)|skin(1)	19	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)				Dexamethasone(DB01234)|Dolutegravir(DB08930)|Ethosuximide(DB00593)|Oxazepam(DB00842)|Phenelzine(DB00780)|Praziquantel(DB01058)|Rifampicin(DB01045)|Rifapentine(DB01201)|Testosterone(DB00624)|Troleandomycin(DB01361)|Zalcitabine(DB00943)	TTTCTTTCAACAGATGATCGA	0.438																																																0													92	99	97					7																	99454477		2203	4300	6503	SO:0001583	missense	64816			AF319634	CCDS5675.1, CCDS5676.1, CCDS5677.1, CCDS64723.1	7q21.1	2007-12-14	2003-01-14		ENSG00000021461	ENSG00000021461		"Cytochrome P450s"	17450	protein-coding gene	gene with protein product		606534	"cytochrome P450, subfamily IIIA, polypeptide 43"			11160876, 11266076	Standard	NM_022820		Approved		uc003ury.1	Q9HB55	OTTHUMG00000156498	ENST00000354829.2:c.820C>A	7.37:g.99454477C>A	ENSP00000346887:p.Gln274Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q495Y1|Q75MK2|Q75MK3|Q9HB52|Q9HB53|Q9HB54|Q9HB57	Missense_Mutation	SNP	ENST00000354829.2	37	CCDS5676.1	.	.	.	.	.	.	.	.	.	.	C	11.75	1.731904	0.30684	.	.	ENSG00000021461	ENST00000354829;ENST00000417625;ENST00000342499;ENST00000444905;ENST00000415413;ENST00000312017;ENST00000222382	T;T;T;T;T;T;T	0.67698	-0.28;-0.28;-0.28;-0.28;-0.23;-0.28;-0.28	2.26	0.94	0.19513	.	0.176318	0.37623	U	0.002017	T	0.55625	0.1932	L	0.37697	1.125	0.20873	N	0.999837	B;P;B;B;B	0.39094	0.048;0.659;0.023;0.029;0.012	B;P;B;B;B	0.44732	0.067;0.459;0.006;0.011;0.011	T	0.50742	-0.8792	10	0.87932	D	0	.	4.1559	0.10260	0.0:0.6974:0.0:0.3026	.	164;134;274;274;274	Q495Y1;F8W6L8;Q9HB55-3;Q75MK2;Q9HB55	.;.;.;.;CP343_HUMAN	K	274;164;134;21;63;274;274	ENSP00000346887:Q274K;ENSP00000416581:Q164K;ENSP00000345351:Q134K;ENSP00000405557:Q21K;ENSP00000401521:Q63K;ENSP00000312110:Q274K;ENSP00000222382:Q274K	ENSP00000222382:Q274K	Q	+	1	0	CYP3A43	99292413	0.985000	0.35326	0.730000	0.30809	0.247000	0.25773	0.188000	0.17018	0.257000	0.21650	0.195000	0.17529	CAG		0.438	CYP3A43-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000344379.1			A	99454477	C	A	99454477	3	1	568	1	0	0	0	0	1	0	0	0	4181	479	17	4	854	4	CYP3A43	7	99454477	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	12402990	99454477	59684186	44	33519										
ZAN	7455	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	100361742	100361742	+	RNA	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gctgcagcacctgctgtgcaCacacatgtccaccatgacca	8	16	0	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr7:100361742C>T	ENST00000348028.3	+	0	4355				ZAN_ENST00000443370.1_RNA|ZAN_ENST00000546213.1_RNA|ZAN_ENST00000449052.1_RNA|ZAN_ENST00000421100.1_RNA|ZAN_ENST00000538115.1_RNA|ZAN_ENST00000542585.1_RNA|ZAN_ENST00000546292.1_RNA|ZAN_ENST00000349350.6_RNA|ZAN_ENST00000427578.1_RNA			Q9Y493	ZAN_HUMAN	zonadhesin (gene/pseudogene)						binding of sperm to zona pellucida (GO:0007339)|single organismal cell-cell adhesion (GO:0016337)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(2)|breast(3)|central_nervous_system(3)|endometrium(21)|kidney(6)|large_intestine(18)|lung(60)|ovary(4)|pancreas(3)|prostate(5)|skin(8)|stomach(3)|upper_aerodigestive_tract(3)	139	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CTGCTGTGCACACACATGTCC	0.607																																																0													39	39	39					7																	100361742		2160	4267	6427			7455			U83191		7q22.1	2013-10-10	2013-10-10		ENSG00000146839	ENSG00000146839			12857	protein-coding gene	gene with protein product		602372	"zonadhesin"			9799793, 17033959	Standard	NM_003386		Approved		uc003uwk.3	Q9Y493	OTTHUMG00000157037		7.37:g.100361742C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0FKC8|D6W5W4|O00218|Q96L85|Q96L86|Q96L87|Q96L88|Q96L89|Q96L90|Q9BXN9|Q9BZ83|Q9BZ84|Q9BZ85|Q9BZ86|Q9BZ87|Q9BZ88	Missense_Mutation	SNP	ENST00000348028.3	37		.	.	.	.	.	.	.	.	.	.	C	6.803	0.517130	0.13005	.	.	ENSG00000146839	ENST00000546292;ENST00000538115;ENST00000542585	T;T;T	0.77098	-1.07;-1.07;-1.07	4.01	-0.285	0.12866	Uncharacterised domain, cysteine-rich (2);	2.329540	0.02057	N	0.050511	T	0.76104	0.3941	M	0.78049	2.395	0.27427	N	0.954134	B;B	0.13145	0.005;0.007	B;B	0.13407	0.005;0.009	T	0.54057	-0.8350	10	0.54805	T	0.06	.	2.8794	0.05642	0.1982:0.4601:0.0:0.3417	.	1397;1397	F5H0T8;Q9Y493	.;ZAN_HUMAN	I	1397	ENSP00000445943:T1397I;ENSP00000445091:T1397I;ENSP00000444427:T1397I	ENSP00000423579:T1397I	T	+	2	0	ZAN	100199678	0.000000	0.05858	0.007000	0.13788	0.070000	0.16714	0.105000	0.15333	0.097000	0.17492	0.561000	0.74099	ACA		0.607	ZAN-006	KNOWN	basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000347214.1	NM_003386		T	100361742	C	T	100361742	1	4	568	0	1	0	0	0	0	0	0	0	17525	478	17	2		2	ZAN	7	100361742	RNA	SNP	C	TCGA-DW-7838-01A-11D-2136-08	907265	100361742	58776921	45	33520										
CPA4	51200	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	129962495	129962495	+	Silent	SNP	T	T	C													0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ctgaagaccatcatggagcaTgtgcgggacaacctctacta							TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr7:129962495T>C	ENST00000222482.4	+	11	1273	c.1245T>C	c.(1243-1245)caT>caC	p.H415H	CPA4_ENST00000493259.1_Silent_p.H311H|CPA4_ENST00000445470.2_Silent_p.H382H	NM_016352.3	NP_057436.2	Q9UI42	CBPA4_HUMAN	carboxypeptidase A4	415					histone acetylation (GO:0016573)	extracellular region (GO:0005576)	metallocarboxypeptidase activity (GO:0004181)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	21	Melanoma(18;0.0435)					TCATGGAGCATGTGCGGGACA	0.537																																																0													198	161	173					7																	129962495		2203	4300	6503	SO:0001819	synonymous_variant	51200			AF095719	CCDS5818.1, CCDS55163.1	7q32	2008-07-18			ENSG00000128510	ENSG00000128510			15740	protein-coding gene	gene with protein product	"carboxypeptidase A3"	607635				10383164, 10860668	Standard	NM_016352		Approved	CPA3	uc003vpr.3	Q9UI42	OTTHUMG00000157825	ENST00000222482.4:c.1245T>C	7.37:g.129962495T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z576|Q86UY9	Silent	SNP	ENST00000222482.4	37	CCDS5818.1																																																																																				0.537	CPA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349725.1	NM_016352		C	129962495	T	C	129962495	2	2	568	1	0	0	0	0	0	0	0	1	3794	1461	51	3		3	CPA4	7	129962495	Silent	SNP	T	TCGA-DW-7838-01A-11D-2136-08	29600753	129962495	29176168	46	33521	256	2								
CPA4	51200	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	129962499	129962499	+	Missense_Mutation	SNP	C	C	T													0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	agaccatcatggagcatgtgCgggacaacctctactaggcg							TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr7:129962499C>T	ENST00000222482.4	+	11	1277	c.1249C>T	c.(1249-1251)Cgg>Tgg	p.R417W	CPA4_ENST00000493259.1_Missense_Mutation_p.R313W|CPA4_ENST00000445470.2_Missense_Mutation_p.R384W	NM_016352.3	NP_057436.2	Q9UI42	CBPA4_HUMAN	carboxypeptidase A4	417					histone acetylation (GO:0016573)	extracellular region (GO:0005576)	metallocarboxypeptidase activity (GO:0004181)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	21	Melanoma(18;0.0435)					GGAGCATGTGCGGGACAACCT	0.542																																																0													193	157	169					7																	129962499		2203	4300	6503	SO:0001583	missense	51200			AF095719	CCDS5818.1, CCDS55163.1	7q32	2008-07-18			ENSG00000128510	ENSG00000128510			15740	protein-coding gene	gene with protein product	"carboxypeptidase A3"	607635				10383164, 10860668	Standard	NM_016352		Approved	CPA3	uc003vpr.3	Q9UI42	OTTHUMG00000157825	ENST00000222482.4:c.1249C>T	7.37:g.129962499C>T	ENSP00000222482:p.Arg417Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z576|Q86UY9	Missense_Mutation	SNP	ENST00000222482.4	37	CCDS5818.1	.	.	.	.	.	.	.	.	.	.	C	13.60	2.286285	0.40494	.	.	ENSG00000128510	ENST00000445470;ENST00000222482;ENST00000538687;ENST00000493259	T;T;T	0.03468	3.92;3.92;3.92	5.75	2.87	0.33458	.	0.218110	0.40908	D	0.000989	T	0.13970	0.0338	M	0.79475	2.455	0.09310	N	1	D;D	0.89917	0.999;1.0	P;D	0.65443	0.827;0.935	T	0.01956	-1.1240	10	0.56958	D	0.05	.	9.1872	0.37178	0.2596:0.6719:0.0:0.0685	.	384;417	B7Z576;Q9UI42	.;CBPA4_HUMAN	W	384;417;222;313	ENSP00000412947:R384W;ENSP00000222482:R417W;ENSP00000419660:R313W	ENSP00000222482:R417W	R	+	1	2	CPA4	129749735	0.000000	0.05858	0.981000	0.43875	0.111000	0.19643	0.043000	0.13971	0.763000	0.33175	0.563000	0.77884	CGG		0.542	CPA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349725.1	NM_016352		T	129962499	C	T	129962499	3	4	568	1	0	0	0	0	1	0	0	0	3794	759	27	1	1291	1	CPA4	7	129962499	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	4	129962499	29176164	47	33522	256	2								
AKR1B15	441282	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	134260620	134260620	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gagaaactgatccagtactgCcactccaagggcatcaccgt	9	13	1	2	rs267601304		TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr7:134260620C>T	ENST00000457545.2	+	8	944	c.684C>T	c.(682-684)tgC>tgT	p.C228C	AKR1B15_ENST00000423958.1_Silent_p.C200C	NM_001080538.2	NP_001074007.2	C9JRZ8	AK1BF_HUMAN	aldo-keto reductase family 1, member B15	228							oxidoreductase activity (GO:0016491)			endometrium(1)|kidney(3)|large_intestine(2)|lung(10)|ovary(1)|urinary_tract(1)	18						TCCAGTACTGCCACTCCAAGG	0.532																																																0													111	88	96					7																	134260620		2203	4300	6503	SO:0001819	synonymous_variant	441282				CCDS47715.1, CCDS47715.2	7q33	2009-09-09			ENSG00000227471	ENSG00000227471		"Aldo-keto reductases"	37281	protein-coding gene	gene with protein product							Standard	NM_001080538		Approved		uc011kpr.2	C9JRZ8	OTTHUMG00000155376	ENST00000457545.2:c.684C>T	7.37:g.134260620C>T		Somatic		WXS	Illumina HiSeq	Phase_I	C9J3V2	Silent	SNP	ENST00000457545.2	37	CCDS47715.2																																																																																				0.532	AKR1B15-001	PUTATIVE	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000339726.2			T	134260620	C	T	134260620	2	4	568	1	0	0	0	0	0	0	0	1	468	747	26	2		2	AKR1B15	7	134260620	Silent	SNP	C	TCGA-DW-7838-01A-11D-2136-08	4298121	134260620	24878043	48	33523										
SVOPL	136306	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	138281232	138281232	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	cgcatacaacacagacagatGagaagagacacagggccccc	10	13	0	4			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr7:138281232G>A	ENST00000419765.3	-	14	1430	c.1397C>T	c.(1396-1398)tCa>tTa	p.S466L	SVOPL_ENST00000463557.1_5'UTR|SVOPL_ENST00000421622.1_Missense_Mutation_p.S346L|SVOPL_ENST00000436657.1_Missense_Mutation_p.S314L|SVOPL_ENST00000288513.5_Missense_Mutation_p.S314L	NM_001139456.1	NP_001132928.1	Q8N434	SVOPL_HUMAN	SVOP-like	466						integral component of membrane (GO:0016021)	transmembrane transporter activity (GO:0022857)			NS(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(4)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)	19						ACAGACAGATGAGAAGAGACA	0.463																																																0													117	111	113					7																	138281232		2203	4300	6503	SO:0001583	missense	136306			BC036796	CCDS5848.1, CCDS47721.1	7q34	2011-07-12	2007-04-04		ENSG00000157703	ENSG00000157703			27034	protein-coding gene	gene with protein product		611700	"SV2 related protein homolog (rat)-like"				Standard	NM_001139456		Approved	MGC46715	uc011kqh.2	Q8N434	OTTHUMG00000155870	ENST00000419765.3:c.1397C>T	7.37:g.138281232G>A	ENSP00000405482:p.Ser466Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000419765.3	37	CCDS47721.1	.	.	.	.	.	.	.	.	.	.	G	12.07	1.826903	0.32329	.	.	ENSG00000157703	ENST00000288513;ENST00000421622;ENST00000436657;ENST00000419765	T;T;T;T	0.58210	0.35;0.35;0.35;0.35	5.48	5.48	0.80851	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.260251	0.37483	N	0.002067	T	0.40145	0.1105	N	0.22421	0.69	0.35878	D	0.828749	B;B	0.33171	0.012;0.4	B;B	0.28011	0.055;0.085	T	0.51317	-0.8721	10	0.45353	T	0.12	-3.3112	17.1313	0.86727	0.0:0.0:1.0:0.0	.	466;314	Q8N434;Q8N434-2	SVOPL_HUMAN;.	L	314;346;314;466	ENSP00000288513:S314L;ENSP00000412830:S346L;ENSP00000417018:S314L;ENSP00000405482:S466L	ENSP00000288513:S314L	S	-	2	0	SVOPL	137931772	1.000000	0.71417	0.821000	0.32701	0.024000	0.10985	5.924000	0.70054	2.563000	0.86464	0.655000	0.94253	TCA		0.463	SVOPL-005	NOVEL	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342092.4	NM_174959		A	138281232	G	A	138281232	3	1	568	1	0	0	0	0	1	0	0	0	15436	1294	45	2	89	2	SVOPL	7	138281232	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	4020612	138281232	20857431	49	33524										
ZNF777	27153	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	149152518	149152518	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gcctcatggcctgggcctccAgcttcctctccactgcttgg	10	17	2	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr7:149152518A>T	ENST00000247930.4	-	2	919	c.596T>A	c.(595-597)cTg>cAg	p.L199Q		NM_015694.2	NP_056509.2	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	199					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			large_intestine(5)|lung(17)|ovary(1)|skin(2)|urinary_tract(1)	26	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			CTGGGCCTCCAGCTTCCTCTC	0.597																																																0													67	76	73					7																	149152518		2188	4291	6479	SO:0001583	missense	27153			AB033111	CCDS43675.1	7q36.1	2013-01-08			ENSG00000196453	ENSG00000196453		"Zinc fingers, C2H2-type", "-"	22213	protein-coding gene	gene with protein product							Standard	NM_015694		Approved	KIAA1285	uc003wfv.3	Q9ULD5	OTTHUMG00000158967	ENST00000247930.4:c.596T>A	7.37:g.149152518A>T	ENSP00000247930:p.Leu199Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N2R2|Q8N659	Missense_Mutation	SNP	ENST00000247930.4	37	CCDS43675.1	.	.	.	.	.	.	.	.	.	.	A	19.31	3.802961	0.70682	.	.	ENSG00000196453	ENST00000247930	T	0.06294	3.32	4.93	4.93	0.64822	.	0.234968	0.21936	N	0.066956	T	0.06554	0.0168	N	0.08118	0	0.33892	D	0.637431	D	0.54207	0.965	P	0.51355	0.667	T	0.32322	-0.9911	10	0.72032	D	0.01	-14.7997	11.0022	0.47614	1.0:0.0:0.0:0.0	.	199	Q9ULD5-2	.	Q	199	ENSP00000247930:L199Q	ENSP00000247930:L199Q	L	-	2	0	ZNF777	148783451	1.000000	0.71417	1.000000	0.80357	0.957000	0.61999	5.489000	0.66875	1.856000	0.53863	0.533000	0.62120	CTG		0.597	ZNF777-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352708.1	NM_015694		T	149152518	A	T	149152518	3	4	568	1	0	0	0	0	1	0	0	0	18162	188	7	5	1919	5	ZNF777	7	149152518	Missense_Mutation	SNP	A	TCGA-DW-7838-01A-11D-2136-08	10871286	149152518	9986145	50	33525										
VIPR2	7434	broad.mit.edu;bcgsc.ca	37	chr7	158902583	158902587	+	Frame_Shift_Del	DEL	GTGAT	GTGAT	-													0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	cattggcaggccgccagcacGtgatgttgtcccagacgcca							TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	GTGAT	GTGAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr7:158902583_158902587delGTGAT	ENST00000262178.2	-	3	360_364	c.175_179delATCAC	c.(175-180)atcacgfs	p.IT59fs	VIPR2_ENST00000402066.1_Frame_Shift_Del_p.IT200fs	NM_003382.4	NP_003373.2	P41587	VIPR2_HUMAN	vasoactive intestinal peptide receptor 2	59					activation of adenylate cyclase activity (GO:0007190)|cell-cell signaling (GO:0007267)|negative regulation of smooth muscle cell proliferation (GO:0048662)|signal transduction (GO:0007165)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|vasoactive intestinal polypeptide receptor activity (GO:0004999)			central_nervous_system(1)|kidney(1)|large_intestine(4)|lung(12)|ovary(1)|pancreas(1)|skin(1)|stomach(1)	22	Ovarian(565;0.152)	all_cancers(7;1.13e-11)|all_epithelial(9;0.000545)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00231)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)|STAD - Stomach adenocarcinoma(7;0.18)		CCGCCAGCACGTGATGTTGTCCCAG	0.527																																					Pancreas(154;1876 1931 2329 17914 20079)											0																																										SO:0001589	frameshift_variant	7434			CA449700, X95097	CCDS5950.1	7q36.3	2012-08-10			ENSG00000106018	ENSG00000106018		"GPCR / Class B : VIP and PACAP (ADCYAP1) receptors"	12695	protein-coding gene	gene with protein product	"VIP and PACAP receptor 2"	601970				7811244	Standard	NM_003382		Approved	VPAC2, VPAC2R	uc003woh.3	P41587	OTTHUMG00000151446	ENST00000262178.2:c.175_179delATCAC	7.37:g.158902583_158902587delGTGAT	ENSP00000262178:p.Ile59fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q13053|Q15870|Q53Y09|Q6ZN22|Q9UCW0	Frame_Shift_Del	DEL	ENST00000262178.2	37	CCDS5950.1																																																																																				0.527	VIPR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322675.1	NM_003382		-	158902587	GTGAT	-	158902583	7	5	568	1	0	1	0	1	0	0	0	0	17182	1145	40	0	1181	0	VIPR2	7	158902583	Frame_Shift_Del	DEL	GTGAT	TCGA-DW-7838-01A-11D-2136-08	9750065	158902583	236080	51	33526										
USP17L2	377630	hgsc.bcm.edu	37	chr8	11996075	11996075	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ctactcagaggaagcttcttCctgggagcaagctgtcttgc	11	11	3	1	rs267601745		TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr8:11996075C>G	ENST00000333796.3	-	1	511	c.195G>C	c.(193-195)agG>agC	p.R65S	FAM66D_ENST00000434078.2_RNA	NM_001256869.1|NM_001256871.1|NM_001256872.1|NM_001256873.1|NM_001256874.1|NM_201402.2	NP_001243798.1|NP_001243800.1|NP_001243801.1|NP_001243802.1|NP_001243803.1|NP_958804.2	Q6R6M4	U17L2_HUMAN	ubiquitin specific peptidase 17-like family member 2	65					apoptotic process (GO:0006915)|CAAX-box protein processing (GO:0071586)|cell cycle checkpoint (GO:0000075)|mitotic cell cycle checkpoint (GO:0007093)|negative regulation of histone deacetylation (GO:0031064)|negative regulation of protein processing (GO:0010955)|negative regulation of protein targeting to membrane (GO:0090315)|negative regulation of Ras GTPase activity (GO:0034261)|positive regulation of MDA-5 signaling pathway (GO:1900245)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of RIG-I signaling pathway (GO:1900246)|protein deubiquitination (GO:0016579)|protein K48-linked deubiquitination (GO:0071108)|protein K63-linked deubiquitination (GO:0070536)|regulation of apoptotic process (GO:0042981)|regulation of cell migration (GO:0030334)|regulation of cell proliferation (GO:0042127)|regulation of defense response to virus by host (GO:0050691)|regulation of ruffle assembly (GO:1900027)|ubiquitin-dependent protein catabolic process (GO:0006511)	endoplasmic reticulum membrane (GO:0005789)|nucleus (GO:0005634)	ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			central_nervous_system(1)|kidney(1)|large_intestine(11)|liver(1)|lung(8)|ovary(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	29						GAAGCTTCTTCCTGGGAGCAA	0.572																																																0													43	58	53					8																	11996075		1248	2766	4014	SO:0001583	missense	377630			BC156290	CCDS43713.1	8p23.1	2012-10-09	2012-10-09		ENSG00000223443	ENSG00000223443			34434	protein-coding gene	gene with protein product	"deubiquitinating enzyme 3"	610186	"ubiquitin specific peptidase 17-like 2"				Standard	NM_201402		Approved	DUB3	uc003wvc.1	Q6R6M4	OTTHUMG00000165295	ENST00000333796.3:c.195G>C	8.37:g.11996075C>G	ENSP00000333329:p.Arg65Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000333796.3	37	CCDS43713.1	.	.	.	.	.	.	.	.	.	.	c	1.018	-0.685613	0.03328	.	.	ENSG00000223443	ENST00000333796	T	0.11821	2.74	0.36	0.36	0.16097	.	3.094940	0.01992	U	0.045606	T	0.06462	0.0166	N	0.08118	0	0.26403	N	0.976385	B	0.06786	0.001	B	0.06405	0.002	T	0.30238	-0.9985	10	0.02654	T	1	.	6.6522	0.22969	0.0:0.9999:0.0:1.0E-4	.	65	Q6R6M4	U17L2_HUMAN	S	65	ENSP00000333329:R65S	ENSP00000333329:R65S	R	-	3	2	USP17L2	12033484	0.005000	0.15991	0.016000	0.15963	0.015000	0.08874	-0.190000	0.09615	0.469000	0.27268	0.472000	0.43445	AGG		0.572	USP17L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383303.2	NM_201402		G	11996075	C	G	11996075	3	3	568	1	0	0	0	0	1	0	0	0	17060	854	30	4	1401	4	USP17L2	8	11996075	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08		11996075	134367947	52	33527										
TSNARE1	203062	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	143381927	143381927	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gtccgggagcagcgcctgctCctggccctgccacatgttgt	13	15	0	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr8:143381927C>G	ENST00000307180.3	-	10	1327	c.1210G>C	c.(1210-1212)Gag>Cag	p.E404Q	TSNARE1_ENST00000518928.1_5'UTR|TSNARE1_ENST00000524325.1_Missense_Mutation_p.E403Q|TSNARE1_ENST00000519651.1_Missense_Mutation_p.E185Q|TSNARE1_ENST00000520166.1_Missense_Mutation_p.E404Q	NM_145003.3	NP_659440.2	Q96NA8	TSNA1_HUMAN	t-SNARE domain containing 1	404					intracellular protein transport (GO:0006886)|synaptic vesicle exocytosis (GO:0016079)	integral component of membrane (GO:0016021)|SNARE complex (GO:0031201)	SNAP receptor activity (GO:0005484)|SNARE binding (GO:0000149)			breast(1)|endometrium(3)|kidney(4)|large_intestine(1)|lung(6)|ovary(2)|stomach(2)|urinary_tract(1)	20	all_cancers(97;7.39e-11)|all_epithelial(106;8.98e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000332)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					AGCGCCTGCTCCTGGCCCTGC	0.617																																																0													73	66	69					8																	143381927		2203	4300	6503	SO:0001583	missense	203062					8q24.3	2005-08-18							26437	protein-coding gene	gene with protein product						14702039	Standard	XM_005250828		Approved	FLJ31164	uc003ywk.3	Q96NA8		ENST00000307180.3:c.1210G>C	8.37:g.143381927C>G	ENSP00000303437:p.Glu404Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLB0|Q14D03	Missense_Mutation	SNP	ENST00000307180.3	37	CCDS6384.1	.	.	.	.	.	.	.	.	.	.	C	7.933	0.741084	0.15642	.	.	ENSG00000171045	ENST00000524325;ENST00000307180;ENST00000520166;ENST00000519651	T;T;T;T	0.20463	2.07;2.07;2.07;2.07	4.76	3.89	0.44902	t-SNARE (1);	0.233173	0.21158	U	0.079203	T	0.16214	0.0390	L	0.37630	1.12	0.23254	N	0.998034	P;B;P;P	0.47409	0.895;0.421;0.895;0.895	B;B;B;B	0.41299	0.353;0.058;0.353;0.353	T	0.08351	-1.0726	10	0.27082	T	0.32	-20.6332	10.2182	0.43182	0.0:0.9055:0.0:0.0945	.	403;185;404;405	B7ZLB0;E5RHT3;Q96NA8;A0AVG3	.;.;TSNA1_HUMAN;.	Q	403;404;404;185	ENSP00000428763:E403Q;ENSP00000303437:E404Q;ENSP00000427770:E404Q;ENSP00000429679:E185Q	ENSP00000303437:E404Q	E	-	1	0	TSNARE1	143379834	0.970000	0.33590	0.175000	0.22980	0.206000	0.24218	1.184000	0.32053	1.001000	0.39076	-0.137000	0.14449	GAG		0.617	TSNARE1-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_145003		G	143381927	C	G	143381927	3	3	568	1	0	0	0	0	1	0	0	0	16642	864	30	4	347	4	TSNARE1	8	143381927	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	131385852	143381927	2982095	53	33528										
TSTD2	158427	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	100368460	100368460	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gaagtttctgcaatcaagaaGgatagtatcactttgttctt	8	6	4	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr9:100368460G>T	ENST00000341170.4	-	7	1301	c.919C>A	c.(919-921)Ctt>Att	p.L307I	TSTD2_ENST00000354801.2_Missense_Mutation_p.L47I	NM_139246.4	NP_640339.4	Q5T7W7	TSTD2_HUMAN	thiosulfate sulfurtransferase (rhodanese)-like domain containing 2	307	Rhodanese. {ECO:0000255|PROSITE- ProRule:PRU00173}.							p.L307I(1)		large_intestine(3)|lung(6)|ovary(2)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	15						CAATCAAGAAGGATAGTATCA	0.353																																																1	Substitution - Missense(1)	ovary(1)											117	116	117					9																	100368460		2203	4300	6503	SO:0001583	missense	158427			AF258575	CCDS6727.2	9q22.33	2013-09-20	2009-08-12	2009-08-12	ENSG00000136925	ENSG00000136925			30087	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 97"	C9orf97		12477932	Standard	NM_139246		Approved	PP4189	uc004axn.3	Q5T7W7	OTTHUMG00000020328	ENST00000341170.4:c.919C>A	9.37:g.100368460G>T	ENSP00000342499:p.Leu307Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMJ4|A8K584|Q6ZQZ6|Q8IYM3|Q8WY73|Q96ML6|Q96MU1	Missense_Mutation	SNP	ENST00000341170.4	37	CCDS6727.2	.	.	.	.	.	.	.	.	.	.	G	14.49	2.552202	0.45487	.	.	ENSG00000136925	ENST00000375172;ENST00000341170;ENST00000375165;ENST00000354801	T;T;T	0.27104	1.69;1.69;1.69	5.18	3.31	0.37934	Rhodanese-like (5);	0.066943	0.64402	N	0.000014	T	0.17916	0.0430	L	0.41492	1.28	0.32895	D	0.512421	B;B	0.33477	0.013;0.413	B;B	0.35607	0.032;0.206	T	0.14172	-1.0482	10	0.20046	T	0.44	-5.0176	5.6795	0.17767	0.1448:0.0:0.666:0.1892	.	81;307	B3KVC7;Q5T7W7	.;TSTD2_HUMAN	I	81;307;47;47	ENSP00000342499:L307I;ENSP00000364308:L47I;ENSP00000346856:L47I	ENSP00000342499:L307I	L	-	1	0	TSTD2	99408281	1.000000	0.71417	0.996000	0.52242	0.996000	0.88848	1.989000	0.40707	1.490000	0.48466	0.655000	0.94253	CTT		0.353	TSTD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053325.4	NM_139246		T	100368460	G	T	100368460	3	4	568	1	0	0	0	0	1	0	0	0	16687	1000	35	4	647	4	TSTD2	9	100368460	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08		100368460	40844971	54	33529										
FKBP15	23307	hgsc.bcm.edu	37	chr9	115973833	115973833	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	aattcatttccatggccagcAgctgcctgatccagtccaaa	7	13	1	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr9:115973833A>G	ENST00000238256.3	-	2	210	c.93T>C	c.(91-93)gcT>gcC	p.A31A		NM_015258.1	NP_056073.1	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa	31					endocytosis (GO:0006897)|negative regulation of phosphatase activity (GO:0010923)|protein folding (GO:0006457)	actin filament (GO:0005884)|axon (GO:0030424)|endosome (GO:0005768)|growth cone (GO:0030426)|membrane (GO:0016020)				breast(1)|central_nervous_system(1)|endometrium(4)|kidney(4)|large_intestine(3)|lung(9)|ovary(3)|urinary_tract(1)	26						CATGGCCAGCAGCTGCCTGAT	0.423																																																0													80	77	78					9																	115973833		1885	4142	6027	SO:0001819	synonymous_variant	23307			AB014574	CCDS48007.1	9q33.1	2014-05-09	2006-10-31	2006-10-31	ENSG00000119321	ENSG00000119321		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	23397	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 76", "WASP and FKBP-like protein"		"KIAA0674"	KIAA0674		16756961, 20376207	Standard	NM_015258		Approved	PPP1R76, FKBP133, WAFL	uc004bgs.2	Q5T1M5	OTTHUMG00000020518	ENST00000238256.3:c.93T>C	9.37:g.115973833A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q05DK8|Q5T1M2|Q6DD85|Q9Y4D0	Silent	SNP	ENST00000238256.3	37	CCDS48007.1																																																																																				0.423	FKBP15-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_015258		G	115973833	A	G	115973833	2	3	568	1	0	0	0	0	0	0	0	1	5912	175	7	3		3	FKBP15	9	115973833	Silent	SNP	A	TCGA-DW-7838-01A-11D-2136-08	15605373	115973833	25239598	55	33530										
SLC31A1	1317	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	116018468	116018469	+	Frame_Shift_Ins	INS	-	-	C													0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ggggatgagctatatggactINSccaacagtaccatgcaacct							TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr9:116018468_116018469insC	ENST00000374212.4	+	2	192_193	c.40_41insC	c.(40-42)tccfs	p.S14fs	SLC31A1_ENST00000374210.6_Frame_Shift_Ins_p.S14fs|CDC26_ENST00000490408.1_Intron	NM_001859.3	NP_001850.1	O15431	COPT1_HUMAN	solute carrier family 31 (copper transporter), member 1	14					cellular copper ion homeostasis (GO:0006878)|copper ion import (GO:0015677)|copper ion transport (GO:0006825)|transmembrane transport (GO:0055085)	integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|plasma membrane (GO:0005886)|recycling endosome (GO:0055037)	copper ion transmembrane transporter activity (GO:0005375)|copper uptake transmembrane transporter activity (GO:0015088)			breast(1)|kidney(1)|large_intestine(1)|lung(2)|prostate(1)|skin(1)	7					Bortezomib(DB00188)|Carboplatin(DB00958)|Cisplatin(DB00515)|Oxaliplatin(DB00526)	CTATATGGACTCCAACAGTACC	0.436																																					Ovarian(135;1049 1799 4519 17564 28677)											0																																										SO:0001589	frameshift_variant	1317			U83460	CCDS6789.1	9q32	2013-07-17	2013-07-17		ENSG00000136868	ENSG00000136868		"Solute carriers"	11016	protein-coding gene	gene with protein product	copper transport 1 homolog (S. cerevisiae)	603085		COPT1		9207117	Standard	NM_001859		Approved	hCTR1, CTR1	uc004bgu.3	O15431	OTTHUMG00000020519	ENST00000374212.4:c.42dupC	9.37:g.116018470_116018470dupC	ENSP00000363329:p.Ser14fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8Z6|Q53GR5|Q5T1M4	Frame_Shift_Ins	INS	ENST00000374212.4	37	CCDS6789.1																																																																																				0.436	SLC31A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053715.1	NM_001859		C	116018469	-	C	116018468	7	5	568	1	0	1	1	0	0	0	0	0	14576	1551	54	0	42	0	SLC31A1	9	116018468	Frame_Shift_Ins	INS	-	TCGA-DW-7838-01A-11D-2136-08	44635	116018468	25194963	56	33531										
OR1N2	138882	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	125316283	125316283	+	Frame_Shift_Del	DEL	C	C	-													0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ttatgggtgtgtatttacttCctccatcaacttactctaca							TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr9:125316283delC	ENST00000373688.2	+	1	893	c.835delC	c.(835-837)cctfs	p.P280fs		NM_001004457.1	NP_001004457.1	Q8NGR9	OR1N2_HUMAN	olfactory receptor, family 1, subfamily N, member 2	280						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(2)|large_intestine(6)|lung(10)|ovary(2)|skin(3)|stomach(3)	26						GTATTTACTTCCTCCATCAAC	0.463																																																0													196	199	198					9																	125316283		2203	4300	6503	SO:0001589	frameshift_variant	138882				CCDS35123.1	9q33.2	2013-09-20			ENSG00000171501	ENSG00000171501		"GPCR / Class A : Olfactory receptors"	15111	protein-coding gene	gene with protein product							Standard	NM_001004457		Approved		uc011lyx.2	Q8NGR9	OTTHUMG00000020607	ENST00000373688.2:c.835delC	9.37:g.125316283delC	ENSP00000362792:p.Pro280fs	Somatic		WXS	Illumina HiSeq	Phase_I	A3KFM2|B2RNY4|Q6IF17|Q96RA3	Frame_Shift_Del	DEL	ENST00000373688.2	37	CCDS35123.1																																																																																				0.463	OR1N2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053937.2			-	125316283	C	-	125316283	7	5	568	1	0	1	0	1	0	0	0	0	10977	855	30	0	837	0	OR1N2	9	125316283	Frame_Shift_Del	DEL	C	TCGA-DW-7838-01A-11D-2136-08	9297815	125316283	15897148	57	33532										
HSPA5	3309	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr9	128001454	128001454	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	cgctggtcaaagtcttctccAcccagatgagtatctccatt	7	13	4	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr9:128001454A>G	ENST00000324460.6	-	5	965	c.762T>C	c.(760-762)ggT>ggC	p.G254G	RP11-65N13.8_ENST00000468244.1_RNA	NM_005347.4	NP_005338.1	P11021	GRP78_HUMAN	heat shock 70kDa protein 5 (glucose-regulated protein, 78kDa)	254					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|ATP catabolic process (GO:0006200)|blood coagulation (GO:0007596)|cellular protein metabolic process (GO:0044267)|cellular response to antibiotic (GO:0071236)|cellular response to glucose starvation (GO:0042149)|cellular response to interleukin-4 (GO:0071353)|cerebellar Purkinje cell layer development (GO:0021680)|cerebellum structural organization (GO:0021589)|endoplasmic reticulum unfolded protein response (GO:0030968)|ER overload response (GO:0006983)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|maintenance of protein localization in endoplasmic reticulum (GO:0035437)|negative regulation of apoptotic process (GO:0043066)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of cell migration (GO:0030335)|positive regulation of protein ubiquitination (GO:0031398)|regulation of protein folding in endoplasmic reticulum (GO:0060904)|substantia nigra development (GO:0021762)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum chaperone complex (GO:0034663)|endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum membrane (GO:0005789)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of endoplasmic reticulum membrane (GO:0030176)|membrane (GO:0016020)|midbody (GO:0030496)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|calcium ion binding (GO:0005509)|chaperone binding (GO:0051087)|enzyme binding (GO:0019899)|glycoprotein binding (GO:0001948)|misfolded protein binding (GO:0051787)|protein domain specific binding (GO:0019904)|ribosome binding (GO:0043022)|ubiquitin protein ligase binding (GO:0031625)|unfolded protein binding (GO:0051082)			breast(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(9)|ovary(4)|prostate(2)|skin(1)	23					Acetylsalicylic acid(DB00945)|Antihemophilic Factor(DB00025)	AGTCTTCTCCACCCAGATGAG	0.468										Prostate(1;0.17)																																						0													58	57	57					9																	128001454		2203	4300	6503	SO:0001819	synonymous_variant	3309				CCDS6863.1	9q33.3	2011-09-02	2002-08-29		ENSG00000044574	ENSG00000044574		"Heat shock proteins / HSP70"	5238	protein-coding gene	gene with protein product		138120	"heat shock 70kD protein 5 (glucose-regulated protein, 78kD)"	GRP78			Standard	NM_005347		Approved	BiP	uc004bpn.3	P11021	OTTHUMG00000020672	ENST00000324460.6:c.762T>C	9.37:g.128001454A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0QZ61|Q2EF78|Q9NPF1|Q9UK02	Silent	SNP	ENST00000324460.6	37	CCDS6863.1																																																																																				0.468	HSPA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054062.1			G	128001454	A	G	128001454	2	3	568	1	0	0	0	0	0	0	0	1	7421	146	6	3		3	HSPA5	9	128001454	Silent	SNP	A	TCGA-DW-7838-01A-11D-2136-08	2685171	128001454	13211977	58	33533										
GARNL3	84253	hgsc.bcm.edu	37	chr9	130149608	130149608	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	atttccttcttccctgggggAaggtgaagtccaagttttac	10	9	1	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr9:130149608A>G	ENST00000373387.4	+	25	2877	c.2525A>G	c.(2524-2526)gAa>gGa	p.E842G	GARNL3_ENST00000314904.5_Intron|GARNL3_ENST00000496711.1_3'UTR|GARNL3_ENST00000435213.2_Missense_Mutation_p.E820G	NM_032293.4	NP_115669.3	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	842					regulation of small GTPase mediated signal transduction (GO:0051056)		GTPase activator activity (GO:0005096)|small GTPase regulator activity (GO:0005083)			NS(1)|central_nervous_system(1)|endometrium(6)|large_intestine(5)|lung(24)|ovary(1)|skin(1)|urinary_tract(2)	41						TCCCTGGGGGAAGGTGAAGTC	0.438																																																0													42	44	44					9																	130149608		2203	4300	6503	SO:0001583	missense	84253			BC034983	CCDS6869.2, CCDS69663.1	9q34.13	2009-09-14	2004-08-09		ENSG00000136895	ENSG00000136895			25425	protein-coding gene	gene with protein product			"GTPase activating RANGAP domain-like 3"			11230166	Standard	NM_032293		Approved	DKFZp761J1523, bA356B19.1	uc011mae.2	Q5VVW2	OTTHUMG00000020700	ENST00000373387.4:c.2525A>G	9.37:g.130149608A>G	ENSP00000362485:p.Glu842Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DEP7|B7Z3Q6|Q8IYU1|Q8N951|Q8ND89|Q9BQH6	Missense_Mutation	SNP	ENST00000373387.4	37	CCDS6869.2	.	.	.	.	.	.	.	.	.	.	A	18.50	3.636537	0.67130	.	.	ENSG00000136895	ENST00000435213;ENST00000373387	D;D	0.88277	-2.36;-2.36	5.66	5.66	0.87406	.	0.097775	0.64402	D	0.000001	T	0.82245	0.4995	L	0.32530	0.975	0.80722	D	1	B;P	0.37781	0.421;0.608	B;B	0.32980	0.081;0.156	T	0.81134	-0.1071	9	.	.	.	.	14.7222	0.69314	1.0:0.0:0.0:0.0	.	842;820	Q5VVW2;B7Z3Q6	GARL3_HUMAN;.	G	820;842	ENSP00000396205:E820G;ENSP00000362485:E842G	.	E	+	2	0	GARNL3	129189429	1.000000	0.71417	1.000000	0.80357	0.951000	0.60555	8.066000	0.89486	2.140000	0.66376	0.533000	0.62120	GAA		0.438	GARNL3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054151.3	NM_032293		G	130149608	A	G	130149608	3	3	568	1	0	0	0	0	1	0	0	0	6248	246	9	3	2623	3	GARNL3	9	130149608	Missense_Mutation	SNP	A	TCGA-DW-7838-01A-11D-2136-08	2148154	130149608	11063823	59	33534										
PKN3	29941	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	131476565	131476565	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tgctgcccccctgcagctccCcgagcacaatcagcccccct	7	22	1	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr9:131476565C>A	ENST00000291906.4	+	11	1795	c.1402C>A	c.(1402-1404)Ccg>Acg	p.P468T		NM_013355.3	NP_037487.2	Q6P5Z2	PKN3_HUMAN	protein kinase N3	468	Pro-rich.				epithelial cell migration (GO:0010631)|protein phosphorylation (GO:0006468)|signal transduction (GO:0007165)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein kinase C activity (GO:0004697)			breast(2)|endometrium(1)|kidney(3)|large_intestine(4)|lung(9)|pancreas(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)	24						CTGCAGCTCCCCGAGCACAAT	0.647																																																0													62	70	67					9																	131476565		2203	4300	6503	SO:0001583	missense	29941			AB019692	CCDS6908.1	9q34.13	2008-02-05			ENSG00000160447	ENSG00000160447			17999	protein-coding gene	gene with protein product		610714				10441506	Standard	NM_013355		Approved	PKNbeta	uc004bvw.3	Q6P5Z2	OTTHUMG00000020757	ENST00000291906.4:c.1402C>A	9.37:g.131476565C>A	ENSP00000291906:p.Pro468Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UM03	Missense_Mutation	SNP	ENST00000291906.4	37	CCDS6908.1	.	.	.	.	.	.	.	.	.	.	C	6.729	0.503216	0.12822	.	.	ENSG00000160447	ENST00000291906	T	0.27256	1.68	5.3	4.36	0.52297	.	.	.	.	.	T	0.22742	0.0549	L	0.51422	1.61	0.26351	N	0.977203	P	0.42827	0.791	B	0.40901	0.343	T	0.05616	-1.0874	9	0.09590	T	0.72	.	11.1984	0.48726	0.3181:0.6818:0.0:0.0	.	468	Q6P5Z2	PKN3_HUMAN	T	468	ENSP00000291906:P468T	ENSP00000291906:P468T	P	+	1	0	PKN3	130516386	0.031000	0.19500	0.911000	0.35937	0.516000	0.34256	1.330000	0.33781	2.478000	0.83669	0.563000	0.77884	CCG		0.647	PKN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054487.1	NM_013355		A	131476565	C	A	131476565	3	1	568	1	0	0	0	0	1	0	0	0	11988	623	22	4	1444	4	PKN3	9	131476565	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	1326957	131476565	9736866	60	33535										
ZER1	10444	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	131512978	131512978	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	cacactctgctctgagcggtActcggaatttgttaggtaga	11	9	2	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr9:131512978A>G	ENST00000291900.2	-	8	1682	c.1276T>C	c.(1276-1278)Tac>Cac	p.Y426H	ZER1_ENST00000494461.1_5'Flank|snoU13_ENST00000459043.1_RNA	NM_006336.2	NP_006327.2	Q7Z7L7	ZER1_HUMAN	zyg-11 related, cell cycle regulator	426					protein ubiquitination (GO:0016567)|regulation of ubiquitin-protein transferase activity (GO:0051438)	Cul2-RING ubiquitin ligase complex (GO:0031462)	ubiquitin-protein transferase activity (GO:0004842)			endometrium(1)|kidney(2)|large_intestine(5)|lung(4)|ovary(1)|prostate(1)|urinary_tract(1)	15						TCTGAGCGGTACTCGGAATTT	0.562																																																0													102	89	94					9																	131512978		2203	4300	6503	SO:0001583	missense	10444			X99802	CCDS6910.1	9q33.3	2013-01-17	2012-12-10	2007-01-04	ENSG00000160445	ENSG00000160445		"ZYG11 cell cycle regulator family"	30960	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 60", "zyg-11 homolog B (C. elegans)-like", "zer-1 homolog (C. elegans)"	C9orf60, ZYG11BL		11719588	Standard	NM_006336		Approved	ZYG, Hzyg	uc004bwa.2	Q7Z7L7	OTTHUMG00000020759	ENST00000291900.2:c.1276T>C	9.37:g.131512978A>G	ENSP00000291900:p.Tyr426His	Somatic		WXS	Illumina HiSeq	Phase_I	O00156|Q5T272|Q5T273	Missense_Mutation	SNP	ENST00000291900.2	37	CCDS6910.1	.	.	.	.	.	.	.	.	.	.	A	12.92	2.082101	0.36758	.	.	ENSG00000160445	ENST00000291900	T	0.06218	3.33	4.35	4.35	0.52113	Armadillo-like helical (1);Armadillo-type fold (1);	0.146987	0.47455	D	0.000229	T	0.07234	0.0183	L	0.44542	1.39	0.58432	D	0.999999	B	0.26258	0.145	B	0.31191	0.125	T	0.29181	-1.0020	10	0.15499	T	0.54	-31.0091	12.8828	0.58026	1.0:0.0:0.0:0.0	.	426	Q7Z7L7	ZER1_HUMAN	H	426	ENSP00000291900:Y426H	ENSP00000291900:Y426H	Y	-	1	0	ZER1	130552799	1.000000	0.71417	1.000000	0.80357	0.583000	0.36354	8.478000	0.90428	1.832000	0.53329	0.383000	0.25322	TAC		0.562	ZER1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054491.1	NM_006336		G	131512978	A	G	131512978	3	3	568	1	0	0	0	0	1	0	0	0	17637	391	14	3	1060	3	ZER1	9	131512978	Missense_Mutation	SNP	A	TCGA-DW-7838-01A-11D-2136-08	36413	131512978	9700453	61	33536										
AKR1C3	8644	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	5139633	5139633	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ttaacctctgcagctttggtCcacttttcatcgaccagagt	7	12	2	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr10:5139633C>G	ENST00000380554.3	+	3	912	c.260C>G	c.(259-261)tCc>tGc	p.S87C	AKR1C3_ENST00000605149.1_Missense_Mutation_p.S64C|AKR1C3_ENST00000470862.2_3'UTR|AKR1C3_ENST00000439082.2_5'UTR	NM_001253908.1|NM_003739.5	NP_001240837.1|NP_003730.4	P42330	AK1C3_HUMAN	aldo-keto reductase family 1, member C3	87					arachidonic acid metabolic process (GO:0019369)|cellular response to cadmium ion (GO:0071276)|cellular response to calcium ion (GO:0071277)|cellular response to corticosteroid stimulus (GO:0071384)|cellular response to jasmonic acid stimulus (GO:0071395)|cellular response to prostaglandin stimulus (GO:0071379)|cellular response to reactive oxygen species (GO:0034614)|cellular response to starvation (GO:0009267)|cyclooxygenase pathway (GO:0019371)|daunorubicin metabolic process (GO:0044597)|doxorubicin metabolic process (GO:0044598)|farnesol catabolic process (GO:0016488)|G-protein coupled receptor signaling pathway (GO:0007186)|keratinocyte differentiation (GO:0030216)|male gonad development (GO:0008584)|multicellular organismal macromolecule metabolic process (GO:0044259)|negative regulation of retinoic acid biosynthetic process (GO:1900053)|oxidation-reduction process (GO:0055114)|phototransduction, visible light (GO:0007603)|positive regulation of cell death (GO:0010942)|positive regulation of cell proliferation (GO:0008284)|positive regulation of endothelial cell apoptotic process (GO:2000353)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|progesterone metabolic process (GO:0042448)|prostaglandin metabolic process (GO:0006693)|protein import into nucleus, translocation (GO:0000060)|regulation of retinoic acid receptor signaling pathway (GO:0048385)|regulation of testosterone biosynthetic process (GO:2000224)|renal absorption (GO:0070293)|response to nutrient (GO:0007584)|response to prostaglandin (GO:0034694)|retinal metabolic process (GO:0042574)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|testosterone biosynthetic process (GO:0061370)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|nucleus (GO:0005634)	15-hydroxyprostaglandin-D dehydrogenase (NADP+) activity (GO:0047020)|alditol:NADP+ 1-oxidoreductase activity (GO:0004032)|aldo-keto reductase (NADP) activity (GO:0004033)|androsterone dehydrogenase activity (GO:0047023)|delta4-3-oxosteroid 5beta-reductase activity (GO:0047787)|dihydrotestosterone 17-beta-dehydrogenase activity (GO:0035410)|geranylgeranyl reductase activity (GO:0045550)|indanol dehydrogenase activity (GO:0047718)|ketoreductase activity (GO:0045703)|ketosteroid monooxygenase activity (GO:0047086)|oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor (GO:0016655)|phenanthrene 9,10-monooxygenase activity (GO:0018636)|prostaglandin D2 11-ketoreductase activity (GO:0036131)|prostaglandin F receptor activity (GO:0004958)|prostaglandin-F synthase activity (GO:0047017)|retinal dehydrogenase activity (GO:0001758)|retinol dehydrogenase activity (GO:0004745)|testosterone 17-beta-dehydrogenase (NADP+) activity (GO:0047045)|testosterone dehydrogenase (NAD+) activity (GO:0047035)|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity (GO:0047115)			breast(2)|central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(6)|skin(1)	14					Bimatoprost(DB00905)|Doxorubicin(DB00997)	CAGCTTTGGTCCACTTTTCAT	0.393																																																0													134	128	130					10																	5139633		2203	4300	6503	SO:0001583	missense	8644			L43839	CCDS7063.1, CCDS73062.1	10p15-p14	2012-12-04	2012-12-04		ENSG00000196139	ENSG00000196139	1.1.1.213, 1.1.1.188	"Aldo-keto reductases"	386	protein-coding gene	gene with protein product	"dihydrodiol dehydrogenase X", "prostaglandin F synthase", "3-alpha hydroxysteroid dehydrogenase, type II"	603966	"hydroxysteroid (17-beta) dehydrogenase 5", "aldo-keto reductase family 1, member C3 (3-alpha hydroxysteroid dehydrogenase, type II)"	HSD17B5		7650035, 9792917	Standard	NM_003739		Approved	KIAA0119, DDX, HAKRB, PGFS	uc021pml.1	P42330	OTTHUMG00000017585	ENST00000380554.3:c.260C>G	10.37:g.5139633C>G	ENSP00000369927:p.Ser87Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2V0|B4DL37|Q5T2L1|Q96DJ1|Q96KI8|Q99530|Q9UCX1|Q9UII3|Q9UKL9	Missense_Mutation	SNP	ENST00000380554.3	37	CCDS7063.1	.	.	.	.	.	.	.	.	.	.	C	0.010	-1.788233	0.00628	.	.	ENSG00000196139	ENST00000380554	T	0.26373	1.74	1.93	-3.27	0.05048	NADP-dependent oxidoreductase domain (3);	1.227770	0.05968	N	0.641929	T	0.11153	0.0272	N	0.11651	0.15	0.58432	D	0.999999	B;B	0.15473	0.011;0.013	B;B	0.23852	0.049;0.048	T	0.47045	-0.9147	10	0.05833	T	0.94	.	7.0923	0.25291	0.0:0.392:0.4898:0.1181	.	87;87	B4DKT3;P42330	.;AK1C3_HUMAN	C	87	ENSP00000369927:S87C	ENSP00000369927:S87C	S	+	2	0	AKR1C3	5129633	0.000000	0.05858	0.013000	0.15412	0.934000	0.57294	-1.103000	0.03329	-0.933000	0.03737	-0.458000	0.05436	TCC		0.393	AKR1C3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046533.2	NM_003739		G	5139633	C	G	5139633	3	3	568	1	0	0	0	0	1	0	0	0	471	855	30	4	270	4	AKR1C3	10	5139633	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08		5139633	130395114	62	33537										
IL15RA	3601	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	6008174	6008174	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	cttgttcaacacgcactccgTcaggctggacgtgccggctt	11	14	2	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr10:6008174T>C	ENST00000379977.3	-	2	314	c.217A>G	c.(217-219)Acg>Gcg	p.T73A	IL15RA_ENST00000397255.3_Missense_Mutation_p.T73A|IL15RA_ENST00000379971.1_Intron|IL15RA_ENST00000397250.2_Intron|IL15RA_ENST00000525219.2_Missense_Mutation_p.T37A|IL15RA_ENST00000397248.2_Missense_Mutation_p.T37A|IL15RA_ENST00000528354.1_Missense_Mutation_p.T73A|IL15RA_ENST00000397251.3_Intron|IL15RA_ENST00000530685.1_Missense_Mutation_p.T73A|IL15RA_ENST00000534292.1_5'UTR			Q13261	I15RA_HUMAN	interleukin 15 receptor, alpha	73	Sushi. {ECO:0000255|PROSITE- ProRule:PRU00302}.				cell proliferation (GO:0008283)|cytokine-mediated signaling pathway (GO:0019221)|JAK-STAT cascade (GO:0007259)|negative regulation of neuron projection development (GO:0010977)|positive regulation of natural killer cell differentiation (GO:0032825)|response to nutrient levels (GO:0031667)|signal transduction (GO:0007165)	cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	cytokine receptor activity (GO:0004896)|signal transducer activity (GO:0004871)			cervix(1)|large_intestine(1)|lung(2)|upper_aerodigestive_tract(1)	5						ACGCACTCCGTCAGGCTGGAC	0.557																																																0													91	78	82					10																	6008174		2203	4300	6503	SO:0001583	missense	3601			U31628	CCDS7074.1, CCDS7075.1, CCDS7075.2, CCDS58069.1, CCDS73065.1	10p15.1	2012-02-27			ENSG00000134470	ENSG00000134470		"Interleukins and interleukin receptors", "CD molecules"	5978	protein-coding gene	gene with protein product		601070				8530383	Standard	NM_002189		Approved	CD215, IL-15RA	uc021pmo.1	Q13261	OTTHUMG00000017612	ENST00000379977.3:c.217A>G	10.37:g.6008174T>C	ENSP00000369312:p.Thr73Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2C2|Q3B769|Q5JVA1|Q5JVA2|Q5JVA4|Q6B0J2|Q7LDR4|Q7Z609	Missense_Mutation	SNP	ENST00000379977.3	37	CCDS7074.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	15.76|15.76	2.927337|2.927337	0.52759|0.52759	.|.	.|.	ENSG00000134470|ENSG00000134470	ENST00000397246;ENST00000379977;ENST00000397248;ENST00000319465;ENST00000528354;ENST00000530685;ENST00000397255;ENST00000429135;ENST00000453922|ENST00000532039	T;T;T;T;T;T;T;T|.	0.29397|.	1.92;1.57;1.57;1.92;1.92;1.57;1.92;1.57|.	4.8|4.8	4.8|4.8	0.61643|0.61643	Complement control module (2);Sushi/SCR/CCP (2);|.	0.149436|.	0.43747|.	D|.	0.000539|.	T|.	0.47414|.	0.1444|.	L|L	0.57536|0.57536	1.79|1.79	0.24971|0.24971	N|N	0.991666|0.991666	D;D|.	0.64830|.	0.994;0.994|.	P;P|.	0.61328|.	0.887;0.887|.	T|.	0.38714|.	-0.9648|.	10|.	0.51188|.	T|.	0.08|.	-16.2672|-16.2672	10.7393|10.7393	0.46143|0.46143	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	73;73|.	Q13261-3;Q13261|.	.;I15RA_HUMAN|.	A|W	37;73;37;37;73;73;73;73;37|43	ENSP00000380420:T37A;ENSP00000369312:T73A;ENSP00000380421:T37A;ENSP00000435454:T73A;ENSP00000435995:T73A;ENSP00000380426:T73A;ENSP00000395113:T73A;ENSP00000405107:T37A|.	ENSP00000322245:T37A|.	T|X	-|-	1|3	0|0	IL15RA|IL15RA	6048180|6048180	0.998000|0.998000	0.40836|0.40836	0.968000|0.968000	0.41197|0.41197	0.304000|0.304000	0.27724|0.27724	3.427000|3.427000	0.52785|0.52785	1.783000|1.783000	0.52377|0.52377	0.379000|0.379000	0.24179|0.24179	ACG|TGA		0.557	IL15RA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046615.2	NM_172200, NM_002189		C	6008174	T	C	6008174	3	2	568	1	0	0	0	0	1	0	0	0	7639	1667	58	3	610	3	IL15RA	10	6008174	Missense_Mutation	SNP	T	TCGA-DW-7838-01A-11D-2136-08	868541	6008174	129526573	63	33538										
BMS1	9790	ucsc.edu	37	chr10	43315737	43315737	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gaagccagagttcagtatgaGggttttcgacctgggatgta	14	6	1	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr10:43315737G>T	ENST00000374518.5	+	16	2697	c.2634G>T	c.(2632-2634)gaG>gaT	p.E878D		NM_014753.3	NP_055568.3	Q14692	BMS1_HUMAN	BMS1 ribosome biogenesis factor	878					ribosome assembly (GO:0042255)	nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(15)|lung(23)|ovary(2)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	62						TTCAGTATGAGGGTTTTCGAC	0.433																																																0													120	118	118					10																	43315737		2203	4300	6503	SO:0001583	missense	9790			BC043345	CCDS7199.1	10q11.21	2013-05-01	2013-05-01	2007-03-20	ENSG00000165733	ENSG00000165733			23505	protein-coding gene	gene with protein product		611448	"BMS1-like, ribosome assembly protein (yeast)", "BMS1 homolog, ribosome assembly protein (yeast)"	BMS1L		11779832	Standard	NM_014753		Approved	KIAA0187	uc001jaj.3	Q14692	OTTHUMG00000018020	ENST00000374518.5:c.2634G>T	10.37:g.43315737G>T	ENSP00000363642:p.Glu878Asp	Somatic		WXS	Illumina HiSeq		Q5QPT5|Q86XJ9	Missense_Mutation	SNP	ENST00000374518.5	37	CCDS7199.1	.	.	.	.	.	.	.	.	.	.	G	21.2	4.115516	0.77323	.	.	ENSG00000165733	ENST00000374518	T	0.17854	2.25	5.05	-4.55	0.03441	Ribosome biogenesis protein BMS1/TSR1, C-terminal (1);	0.000000	0.85682	D	0.000000	T	0.38506	0.1043	M	0.92122	3.275	0.47778	D	0.999516	D	0.53462	0.96	P	0.58077	0.832	T	0.53995	-0.8359	10	0.39692	T	0.17	.	13.1374	0.59417	0.6341:0.0:0.3659:0.0	.	878	Q14692	BMS1_HUMAN	D	878	ENSP00000363642:E878D	ENSP00000363642:E878D	E	+	3	2	BMS1	42635743	0.998000	0.40836	0.969000	0.41365	0.964000	0.63967	0.474000	0.22148	-0.725000	0.04901	-0.396000	0.06452	GAG		0.433	BMS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047690.2	NM_014753		T	43315737	G	T	43315737	3	4	568	1	0	0	0	0	1	0	0	0	1472	991	35	4	2692	4	BMS1	10	43315737	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	37307563	43315737	92219010	64	33539										
TYSND1	219743	hgsc.bcm.edu	37	chr10	71906010	71906010	+	Silent	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ggtgggccgggctcgaggctCgcgcactggggcgtgcacag	20	12	0	0	rs11549688	byFrequency	TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr10:71906010C>G	ENST00000287078.6	-	1	332	c.333G>C	c.(331-333)gcG>gcC	p.A111A	TYSND1_ENST00000494143.1_5'Flank|TYSND1_ENST00000335494.5_Silent_p.A111A	NM_173555.2	NP_775826.2	Q2T9J0	TYSD1_HUMAN	trypsin domain containing 1	111		Cleavage. {ECO:0000250}.			protein homooligomerization (GO:0051260)|protein processing (GO:0016485)|proteolysis (GO:0006508)|regulation of fatty acid beta-oxidation (GO:0031998)	membrane (GO:0016020)|peroxisome (GO:0005777)	identical protein binding (GO:0042802)|protease binding (GO:0002020)|serine-type endopeptidase activity (GO:0004252)			endometrium(2)|large_intestine(2)|liver(1)|lung(3)|prostate(1)	9						GCTCGAGGCTCGCGCACTGGG	0.791													C|||	169	0.033746	0.0265	0.0072	5008	,	,		9519	0.0526		0.0368	False		,,,				2504	0.0399															0								C	,	40,2142		0,40,1051	1	2	2		333,333	-5.2	0	10	dbSNP_120	2	121,4671		0,121,2275	no	coding-synonymous,coding-synonymous	TYSND1	NM_001040273.1,NM_173555.2	,	0,161,3326	GG,GC,CC		2.525,1.8332,2.3086	,	111/399,111/567	71906010	161,6813	1091	2396	3487	SO:0001819	synonymous_variant	219743			BC016840	CCDS31213.1, CCDS31214.1	10q22.1	2009-11-06		2006-09-21	ENSG00000156521	ENSG00000156521			28531	protein-coding gene	gene with protein product		611017				17255948	Standard	NM_173555		Approved	MGC34695, NET41	uc001jqr.4	Q2T9J0	OTTHUMG00000018397	ENST00000287078.6:c.333G>C	10.37:g.71906010C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SQT4|Q5SQU1|Q8N6H2|Q96AR5	Silent	SNP	ENST00000287078.6	37	CCDS31213.1																																																																																				0.791	TYSND1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048483.1	NM_173555		G	71906010	C	G	71906010	2	3	568	1	0	0	0	0	0	0	0	1	16829	871	31	4		4	TYSND1	10	71906010	Silent	SNP	C	TCGA-DW-7838-01A-11D-2136-08	28590273	71906010	63628737	65	33540										
VDAC2	7417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr10	76980587	76980587	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ctttgattttgctggacctgCaatccatggttcagctgtct	9	10	2	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr10:76980587C>T	ENST00000332211.6	+	7	656	c.443C>T	c.(442-444)gCa>gTa	p.A148V	VDAC2_ENST00000313132.4_Missense_Mutation_p.A163V|VDAC2_ENST00000535553.1_Missense_Mutation_p.A109V|VDAC2_ENST00000472137.1_3'UTR|VDAC2_ENST00000543351.1_Missense_Mutation_p.A148V	NM_003375.3	NP_003366.2	P45880	VDAC2_HUMAN	voltage-dependent anion channel 2	148					anion transport (GO:0006820)|negative regulation of intrinsic apoptotic signaling pathway (GO:2001243)|negative regulation of protein polymerization (GO:0032272)	extracellular vesicular exosome (GO:0070062)|mitochondrial inner membrane (GO:0005743)|mitochondrial nucleoid (GO:0042645)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|pore complex (GO:0046930)	nucleotide binding (GO:0000166)|porin activity (GO:0015288)|voltage-gated anion channel activity (GO:0008308)			breast(1)|cervix(1)|endometrium(1)|kidney(1)|lung(1)|ovary(1)|pancreas(2)|prostate(1)|urinary_tract(1)	10	all_cancers(46;0.0642)|all_epithelial(25;0.00604)|Prostate(51;0.0112)|Ovarian(15;0.183)				Dihydroxyaluminium(DB01375)	GCTGGACCTGCAATCCATGGT	0.418																																																0													97	95	95					10																	76980587		2203	4297	6500	SO:0001583	missense	7417			BC000165	CCDS7348.1, CCDS53544.1	10q22	2011-11-15			ENSG00000165637	ENSG00000165637		"Voltage-dependent anion channels"	12672	protein-coding gene	gene with protein product		193245				7517385, 10049775	Standard	NM_003375		Approved		uc021ptp.1	P45880	OTTHUMG00000018517	ENST00000332211.6:c.443C>T	10.37:g.76980587C>T	ENSP00000361686:p.Ala148Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VWK1|Q5VWK3|Q6IB40|Q7L3J5|Q9BWK8|Q9Y5I6	Missense_Mutation	SNP	ENST00000332211.6	37	CCDS7348.1	.	.	.	.	.	.	.	.	.	.	C	14.32	2.501060	0.44455	.	.	ENSG00000165637	ENST00000298468;ENST00000543351;ENST00000344036;ENST00000332211;ENST00000535553;ENST00000313132;ENST00000447677	T;T;T;T;T;T;T	0.40756	1.02;1.02;1.02;1.02;1.02;1.02;1.02	5.48	5.48	0.80851	.	0.050056	0.85682	D	0.000000	T	0.26304	0.0642	N	0.05441	-0.05	0.58432	D	0.999999	B;B;B	0.21520	0.025;0.036;0.057	B;B;B	0.22880	0.019;0.036;0.042	T	0.10474	-1.0628	10	0.12766	T	0.61	.	19.3533	0.94401	0.0:1.0:0.0:0.0	.	109;163;148	B4DKM5;P45880-1;P45880	.;.;VDAC2_HUMAN	V	148;148;148;148;109;163;148	ENSP00000298468:A148V;ENSP00000443092:A148V;ENSP00000344876:A148V;ENSP00000361686:A148V;ENSP00000445901:A109V;ENSP00000361635:A163V;ENSP00000401492:A148V	ENSP00000298468:A148V	A	+	2	0	VDAC2	76650593	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.013000	0.70776	2.588000	0.87417	0.563000	0.77884	GCA		0.418	VDAC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048792.1	NM_003375		T	76980587	C	T	76980587	3	4	568	1	0	0	0	0	1	0	0	0	17159	710	25	2	545	2	VDAC2	10	76980587	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	5074577	76980587	58554160	66	33541										
MMRN2	79812	broad.mit.edu;bcgsc.ca	37	chr10	88705024	88705026	+	Splice_Site	DEL	ATC	ATC	-													0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ggctcagggattgccatggaAtctgcagaagaaagcattag							TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	ATC	ATC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr10:88705024_88705026delATC	ENST00000372027.5	-	4	722_723	c.401_402delGAT	c.(400-402)gga>g	p.G134del	MMRN2_ENST00000488950.1_5'Flank	NM_024756.2	NP_079032.2	Q9H8L6	MMRN2_HUMAN	multimerin 2	134					angiogenesis (GO:0001525)|negative regulation of cell migration involved in sprouting angiogenesis (GO:0090051)|negative regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030948)	basement membrane (GO:0005604)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)				breast(1)|kidney(1)|large_intestine(6)|lung(7)|prostate(2)|skin(1)|stomach(1)	19						TTGCCATGGAATCTGCAGAAGAA	0.571																																																0																																										SO:0001630	splice_region_variant	79812			AK023527	CCDS7379.1	10q23.31	2004-03-10	2004-03-02	2004-03-02	ENSG00000173269	ENSG00000173269		"EMI domain containing"	19888	protein-coding gene	gene with protein product		608925	"elastin microfibril interfacer 3"	EMILIN3		11559704	Standard	NM_024756		Approved	EndoGlyx-1, FLJ13465	uc001kea.3	Q9H8L6	OTTHUMG00000018663	ENST00000372027.5:c.401-1GAT>-	10.37:g.88705024_88705026delATC		Somatic		WXS	Illumina HiSeq	Phase_I	Q504V7|Q6P2N2	Frame_Shift_Del	DEL	ENST00000372027.5	37	CCDS7379.1																																																																																				0.571	MMRN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049179.2	NM_024756	In_Frame_Del	-	88705026	ATC	-	88705024	8	5	568	1	0	1	0	1	0	0	1	0	9678	115	4	0	2463	0	MMRN2	10	88705024	Splice_Site	DEL	ATC	TCGA-DW-7838-01A-11D-2136-08	11724437	88705024	46829723	67	33542										
BTAF1	9044	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	93773747	93773747	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ttgcaggatcttccacctaaAattattcaagactattattg	5	8	2	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr10:93773747A>T	ENST00000265990.6	+	32	4853	c.4545A>T	c.(4543-4545)aaA>aaT	p.K1515N	BTAF1_ENST00000544642.1_Missense_Mutation_p.K343N	NM_003972.2	NP_003963.1	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription factor-associated, 170kDa	1515					negative regulation of chromatin binding (GO:0035562)|negative regulation of transcription, DNA-templated (GO:0045892)	nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(17)|lung(17)|ovary(1)|prostate(1)|skin(2)|urinary_tract(6)	59		Colorectal(252;0.0846)				TTCCACCTAAAATTATTCAAG	0.368																																																0													134	144	140					10																	93773747		2203	4300	6503	SO:0001583	missense	9044			AJ001017	CCDS7419.1	10q22-q23	2013-05-01	2013-05-01		ENSG00000095564	ENSG00000095564			17307	protein-coding gene	gene with protein product	"Mot1 homolog (S. cerevisiae)"	605191	"BTAF1 RNA polymerase II, B-TFIID transcription factor-associated, 170 kD (Mot1 homolog, S. cerevisiae)"			9342322, 9488487	Standard	NM_003972		Approved	TAFII170, TAF172, MOT1, TAF-172, TAF(II)170	uc001khr.3	O14981	OTTHUMG00000018752	ENST00000265990.6:c.4545A>T	10.37:g.93773747A>T	ENSP00000265990:p.Lys1515Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B4E0W6|O43578	Missense_Mutation	SNP	ENST00000265990.6	37	CCDS7419.1	.	.	.	.	.	.	.	.	.	.	A	22.5	4.299734	0.81136	.	.	ENSG00000095564	ENST00000265990;ENST00000544642;ENST00000538688	D;D	0.94723	-3.5;-3.5	5.8	5.8	0.92144	SNF2-related (1);	0.050554	0.85682	D	0.000000	D	0.98726	0.9572	H	0.99719	4.725	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.99525	1.0959	10	0.87932	D	0	-21.227	16.2031	0.82102	1.0:0.0:0.0:0.0	.	1515	O14981	BTAF1_HUMAN	N	1515;343;365	ENSP00000265990:K1515N;ENSP00000439924:K343N	ENSP00000265990:K1515N	K	+	3	2	BTAF1	93763727	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	5.660000	0.68018	2.231000	0.72958	0.524000	0.50904	AAA		0.368	BTAF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049380.4	NM_003972		T	93773747	A	T	93773747	3	4	568	1	0	0	0	0	1	0	0	0	1538	11	1	5	4671	5	BTAF1	10	93773747	Missense_Mutation	SNP	A	TCGA-DW-7838-01A-11D-2136-08	5068723	93773747	41761000	68	33543										
MMS19	64210	broad.mit.edu	37	chr10	99222420	99222420	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tcctccaatagtacttttctCagaactgagggctccttctc	6	13	2	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr10:99222420C>T	ENST00000438925.2	-	20	2267	c.1932G>A	c.(1930-1932)ctG>ctA	p.L644L	MMS19_ENST00000370782.2_Silent_p.L644L|MMS19_ENST00000327277.7_Silent_p.L280L|MMS19_ENST00000327238.10_Silent_p.L546L|MMS19_ENST00000355839.6_Silent_p.L601L	NM_022362.4	NP_071757.4	Q96T76	MMS19_HUMAN	MMS19 nucleotide excision repair homolog (S. cerevisiae)	644					cellular response to DNA damage stimulus (GO:0006974)|chromosome segregation (GO:0007059)|DNA metabolic process (GO:0006259)|DNA repair (GO:0006281)|iron-sulfur cluster assembly (GO:0016226)|nucleotide-excision repair (GO:0006289)|phosphorelay signal transduction system (GO:0000160)|positive regulation of transcription, DNA-templated (GO:0045893)|response to hormone (GO:0009725)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	CIA complex (GO:0097361)|cytoplasm (GO:0005737)|holo TFIIH complex (GO:0005675)|membrane (GO:0016020)|MMXD complex (GO:0071817)|nucleus (GO:0005634)|spindle (GO:0005819)	estrogen receptor binding (GO:0030331)|protein binding, bridging (GO:0030674)|receptor signaling complex scaffold activity (GO:0030159)|transcription coactivator activity (GO:0003713)			endometrium(1)|kidney(2)|large_intestine(5)|lung(6)|prostate(1)|stomach(1)	16		Colorectal(252;0.0846)		Epithelial(162;3.33e-10)|all cancers(201;2.74e-08)		GTACTTTTCTCAGAACTGAGG	0.468								Direct reversal of damage																																								0													165	135	145					10																	99222420		2203	4300	6503	SO:0001819	synonymous_variant	64210			AF007151	CCDS7464.1, CCDS73177.1	10q24-q25	2007-08-15	2007-08-15	2007-08-15	ENSG00000155229	ENSG00000155229			13824	protein-coding gene	gene with protein product	"MET18 homolog (S. cerevisiae)"	614777		MMS19L		11071939	Standard	NM_022362		Approved	MET18, hMMS19	uc001kns.4	Q96T76	OTTHUMG00000018857	ENST00000438925.2:c.1932G>A	10.37:g.99222420C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0QZ75|B3KPE5|B4DQX2|B4E2I3|D3DR55|F8W9Y2|Q17RZ8|Q5T455|Q66K82|Q7L4W8|Q969Z1|Q96DF1|Q96MR1|Q96RK5|Q96SK1|Q9BUE2|Q9BYS9	Silent	SNP	ENST00000438925.2	37	CCDS7464.1																																																																																				0.468	MMS19-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049706.2			T	99222420	C	T	99222420	2	4	568	1	0	0	0	0	0	0	0	1	9679	813	29	2		2	MMS19	10	99222420	Silent	SNP	C	TCGA-DW-7838-01A-11D-2136-08	5448673	99222420	36312327	69	33544										
PSD	5662	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	104176443	104176443	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gactcaagccccctggagcaGgtagcccattcagtggcctc	11	15	2	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr10:104176443G>C	ENST00000020673.5	-	2	879	c.353C>G	c.(352-354)cCt>cGt	p.P118R	PSD_ENST00000406432.1_Missense_Mutation_p.P118R|PSD_ENST00000492902.2_5'Flank	NM_001270966.1|NM_002779.4	NP_001257895.1|NP_002770.3	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	118	Pro-rich.				neuron differentiation (GO:0030182)|positive regulation of GTPase activity (GO:0043547)|regulation of ARF protein signal transduction (GO:0032012)|signal transduction (GO:0007165)	cell junction (GO:0030054)|cell projection (GO:0042995)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|phospholipid binding (GO:0005543)|signal transducer activity (GO:0004871)			breast(4)|endometrium(2)|large_intestine(5)|liver(1)|lung(14)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	34				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		CCCTGGAGCAGGTAGCCCATT	0.657																																																0													29	33	32					10																	104176443		2203	4296	6499	SO:0001583	missense	5662			X99688	CCDS31272.1, CCDS73187.1	10q24	2013-01-10	2004-04-28		ENSG00000059915	ENSG00000059915		"Pleckstrin homology (PH) domain containing"	9507	protein-coding gene	gene with protein product		602327	"pleckstrin and Sec7 domain protein"			9417912	Standard	NM_002779		Approved	KIAA2011, TYL, PSD1	uc009xxd.2	A5PKW4	OTTHUMG00000018954	ENST00000020673.5:c.353C>G	10.37:g.104176443G>C	ENSP00000020673:p.Pro118Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B1AKX7|D3DR87|Q15673|Q8IVG0	Missense_Mutation	SNP	ENST00000020673.5	37	CCDS31272.1	.	.	.	.	.	.	.	.	.	.	G	18.29	3.592108	0.66219	.	.	ENSG00000059915	ENST00000020673;ENST00000406432	T;T	0.28666	1.6;1.6	4.36	4.36	0.52297	.	0.109296	0.37483	N	0.002079	T	0.30665	0.0772	N	0.08118	0	0.35207	D	0.774816	D	0.62365	0.991	P	0.58013	0.831	T	0.51068	-0.8752	10	0.66056	D	0.02	.	15.5617	0.76253	0.0:0.0:1.0:0.0	.	118	A5PKW4	PSD1_HUMAN	R	118	ENSP00000020673:P118R;ENSP00000384830:P118R	ENSP00000020673:P118R	P	-	2	0	PSD	104166433	1.000000	0.71417	1.000000	0.80357	0.942000	0.58702	2.473000	0.45145	2.375000	0.81037	0.561000	0.74099	CCT		0.657	PSD-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050041.2			C	104176443	G	C	104176443	3	2	568	1	0	0	0	0	1	0	0	0	12656	1000	35	4	2785	4	PSD	10	104176443	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	4954023	104176443	31358304	70	33545										
BRSK2	9024	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	1459605	1459605	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	taaagctgcacgacgtttatGaaaacaaaaaatatttgtag	7	5	0	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr11:1459605G>A	ENST00000528841.1	+	3	640	c.256G>A	c.(256-258)Gaa>Aaa	p.E86K	BRSK2_ENST00000526678.1_Missense_Mutation_p.E86K|BRSK2_ENST00000382179.1_Missense_Mutation_p.E132K|BRSK2_ENST00000308219.9_Missense_Mutation_p.E86K|BRSK2_ENST00000528710.1_Missense_Mutation_p.E26K|BRSK2_ENST00000308230.5_Missense_Mutation_p.E86K|BRSK2_ENST00000531197.1_Missense_Mutation_p.E86K			Q8IWQ3	BRSK2_HUMAN	BR serine/threonine kinase 2	86	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				actin cytoskeleton reorganization (GO:0031532)|axonogenesis (GO:0007409)|establishment of cell polarity (GO:0030010)|exocytosis (GO:0006887)|G2/M transition of mitotic cell cycle (GO:0000086)|intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress (GO:0070059)|mitotic nuclear division (GO:0007067)|neuron differentiation (GO:0030182)|peptidyl-serine phosphorylation (GO:0018105)|protein phosphorylation (GO:0006468)|regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0061178)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|protein serine/threonine kinase activity (GO:0004674)|tau-protein kinase activity (GO:0050321)			endometrium(4)|large_intestine(1)|lung(5)	10		all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00144)|Lung(200;0.0713)|LUSC - Lung squamous cell carcinoma(625;0.0842)		CGACGTTTATGAAAACAAAAA	0.567																																																0													94	104	101					11																	1459605		2156	4273	6429	SO:0001583	missense	9024			AF020089	CCDS41590.1, CCDS58106.1, CCDS58107.1, CCDS58108.1, CCDS60696.1	11p15.5	2008-02-05	2003-09-11	2005-01-27	ENSG00000174672	ENSG00000174672			11405	protein-coding gene	gene with protein product	"serine/threonine kinase 29"	609236	"chromsosome 11 open reading frame 7"	C11orf7, STK29		9852686, 9929968	Standard	NM_001256629		Approved	PEN11B	uc001ltm.4	Q8IWQ3	OTTHUMG00000167089	ENST00000528841.1:c.256G>A	11.37:g.1459605G>A	ENSP00000432000:p.Glu86Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVE9|E9PLM7|O60843|O95099|Q5J5B4|Q6ZMQ4|Q8TB60	Missense_Mutation	SNP	ENST00000528841.1	37	CCDS58107.1	.	.	.	.	.	.	.	.	.	.	G	26.7	4.766637	0.90020	.	.	ENSG00000174672	ENST00000308219;ENST00000531197;ENST00000308230;ENST00000528841;ENST00000526678;ENST00000528596;ENST00000524702;ENST00000528710;ENST00000382179	T;T;T;T;T;T;T;T;T	0.66460	-0.21;-0.21;-0.21;-0.21;-0.21;-0.21;-0.21;-0.21;-0.21	2.57	2.57	0.30868	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.063288	0.64402	U	0.000008	T	0.78457	0.4286	M	0.71581	2.175	0.80722	D	1	P;D;B;D;D	0.71674	0.64;0.998;0.411;0.966;0.958	P;D;B;D;P	0.78314	0.602;0.991;0.354;0.923;0.875	T	0.81289	-0.1000	10	0.87932	D	0	.	12.2615	0.54652	0.0:0.0:1.0:0.0	.	86;132;86;86;86	Q8IWQ3-4;Q8IWQ3-5;Q8IWQ3-3;Q8IWQ3;Q8IWQ3-2	.;.;.;BRSK2_HUMAN;.	K	86;86;86;86;86;26;26;26;132	ENSP00000310697:E86K;ENSP00000431152:E86K;ENSP00000310805:E86K;ENSP00000432000:E86K;ENSP00000433370:E86K;ENSP00000434075:E26K;ENSP00000432672:E26K;ENSP00000433235:E26K;ENSP00000371614:E132K	ENSP00000310697:E86K	E	+	1	0	BRSK2	1416181	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	6.575000	0.74018	1.455000	0.47813	0.313000	0.20887	GAA		0.567	BRSK2-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000393033.1	NM_003957		A	1459605	G	A	1459605	3	1	568	1	0	0	0	0	1	0	0	0	1526	1291	45	2	266	2	BRSK2	11	1459605	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08		1459605	133546911	71	33546										
FBXO3	26273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	33770334	33770334	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gttccataccaactactccaGgtccttgaacttcttccacg	5	15	1	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr11:33770334G>T	ENST00000265651.3	-	9	1055	c.1037C>A	c.(1036-1038)cCt>cAt	p.P346H	FBXO3_ENST00000530401.1_Missense_Mutation_p.P341H|FBXO3_ENST00000534136.1_Missense_Mutation_p.P346H|FBXO3_ENST00000531080.1_Missense_Mutation_p.P33H|FBXO3_ENST00000526785.1_Missense_Mutation_p.P233H|FBXO3_ENST00000532057.1_Missense_Mutation_p.P33H|FBXO3_ENST00000448981.2_Missense_Mutation_p.P346H	NM_012175.3	NP_036307.2	Q9UK99	FBX3_HUMAN	F-box protein 3	346	ApaG. {ECO:0000255|PROSITE- ProRule:PRU00412}.				proteolysis (GO:0006508)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ubiquitin-protein transferase activity (GO:0004842)			NS(1)|breast(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(2)|pancreas(1)|stomach(1)	13		Lung NSC(402;0.0804)		BRCA - Breast invasive adenocarcinoma(625;0.00315)|Lung(977;0.00488)|LUSC - Lung squamous cell carcinoma(625;0.008)		AACTACTCCAGGTCCTTGAAC	0.368																																																0													103	102	102					11																	33770334		2202	4298	6500	SO:0001583	missense	26273			AK001943	CCDS7887.1, CCDS44566.1	11p13	2006-07-07	2004-06-15		ENSG00000110429	ENSG00000110429		"F-boxes /  "other""	13582	protein-coding gene	gene with protein product		609089	"F-box only protein 3"			10531037	Standard	NM_033406		Approved	FBX3, FBA	uc001muz.3	Q9UK99	OTTHUMG00000166244	ENST00000265651.3:c.1037C>A	11.37:g.33770334G>T	ENSP00000265651:p.Pro346His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KY16|D3DR05|Q86X90|Q9H0V2|Q9NUX2	Missense_Mutation	SNP	ENST00000265651.3	37	CCDS7887.1	.	.	.	.	.	.	.	.	.	.	G	26.8	4.768020	0.90020	.	.	ENSG00000110429	ENST00000526785;ENST00000265651;ENST00000530401;ENST00000531080;ENST00000532057;ENST00000534136;ENST00000448981	T;T;T;T;T	0.47869	0.84;0.83;0.86;0.86;0.87	5.61	5.61	0.85477	ApaG domain (4);	0.000000	0.85682	D	0.000000	T	0.70859	0.3272	M	0.77486	2.375	0.80722	D	1	P;P;D	0.89917	0.936;0.936;1.0	P;P;D	0.77004	0.64;0.64;0.989	T	0.69636	-0.5092	10	0.41790	T	0.15	-16.4467	19.6304	0.95699	0.0:0.0:1.0:0.0	.	341;346;346	Q9UK99-3;Q9UK99-2;Q9UK99	.;.;FBX3_HUMAN	H	233;346;341;33;33;346;346	ENSP00000435680:P233H;ENSP00000265651:P346H;ENSP00000433781:P341H;ENSP00000431745:P346H;ENSP00000408836:P346H	ENSP00000265651:P346H	P	-	2	0	FBXO3	33726910	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.230000	0.95299	2.663000	0.90544	0.491000	0.48974	CCT		0.368	FBXO3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388665.1	NM_012175		T	33770334	G	T	33770334	3	4	568	1	0	0	0	0	1	0	0	0	5746	1000	35	4	399	4	FBXO3	11	33770334	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	32310729	33770334	101236182	72	33547										
ACY3	91703	hgsc.bcm.edu;broad.mit.edu	37	chr11	67412339	67412339	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tcaaaggcaggaaaggccgtAcctgtgtgggaggctgggtg	18	7	1	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr11:67412339A>G	ENST00000255082.3	-	7	806	c.636T>C	c.(634-636)ggT>ggC	p.G212G	ACY3_ENST00000529256.1_Splice_Site_p.G91G	NM_080658.1	NP_542389.1	Q96HD9	ACY3_HUMAN	aspartoacylase (aminocyclase) 3	212	Shielding domain. {ECO:0000250}.				viral process (GO:0016032)	apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	aminoacylase activity (GO:0004046)|hydrolase activity, acting on ester bonds (GO:0016788)|metal ion binding (GO:0046872)			endometrium(1)|lung(5)|prostate(2)	8					L-Aspartic Acid(DB00128)	GAAAGGCCGTACCTGTGTGGG	0.657																																					GBM(56;346 1011 27014 29495 46841)											0													54	41	45					11																	67412339		2199	4289	6488	SO:0001630	splice_region_variant	91703			BC008689	CCDS8175.1	11q13.2	2014-08-08			ENSG00000132744	ENSG00000132744			24104	protein-coding gene	gene with protein product		614413				14656720	Standard	NM_080658		Approved	HCBP1, MGC9740, ACY-3	uc001omq.3	Q96HD9	OTTHUMG00000167283	ENST00000255082.3:c.635-1T>C	11.37:g.67412339A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000255082.3	37	CCDS8175.1																																																																																				0.657	ACY3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394002.1	NM_080658	Silent	G	67412339	A	G	67412339	5	3	568	1	0	0	0	0	0	0	1	0	227	405	14	3	331	3	ACY3	11	67412339	Splice_Site	SNP	A	TCGA-DW-7838-01A-11D-2136-08	33642005	67412339	67594177	73	33548										
USP5	8078	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	6968684	6968684	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gaatgccccgacggaccctaCccaggatttcagcacccagg	10	16	1	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr12:6968684C>T	ENST00000229268.8	+	9	1161	c.1109C>T	c.(1108-1110)aCc>aTc	p.T370I	USP5_ENST00000389231.5_Missense_Mutation_p.T370I	NM_001098536.1	NP_001092006.1	P45974	UBP5_HUMAN	ubiquitin specific peptidase 5 (isopeptidase T)	370	USP.				positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|protein K48-linked deubiquitination (GO:0071108)|ubiquitin-dependent protein catabolic process (GO:0006511)	lysosome (GO:0005764)	cysteine-type endopeptidase activity (GO:0004197)|omega peptidase activity (GO:0008242)|ubiquitin thiolesterase activity (GO:0004221)|zinc ion binding (GO:0008270)			breast(6)|endometrium(4)|kidney(2)|large_intestine(6)|lung(14)|skin(2)|urinary_tract(2)	36						ACGGACCCTACCCAGGATTTC	0.562																																																0													91	83	86					12																	6968684		2203	4300	6503	SO:0001583	missense	8078			U35116	CCDS31733.1, CCDS41743.1	12p13	2007-03-02	2005-08-08		ENSG00000111667	ENSG00000111667		"Ubiquitin-specific peptidases"	12628	protein-coding gene	gene with protein product		601447	"ubiquitin specific protease 5 (isopeptidase T)"			12838346, 8723724	Standard	NM_003481		Approved	IsoT	uc001qri.4	P45974	OTTHUMG00000169233	ENST00000229268.8:c.1109C>T	12.37:g.6968684C>T	ENSP00000229268:p.Thr370Ile	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUS7|D3DUS8|Q96J22	Missense_Mutation	SNP	ENST00000229268.8	37	CCDS41743.1	.	.	.	.	.	.	.	.	.	.	C	31	5.072808	0.93950	.	.	ENSG00000111667	ENST00000229268;ENST00000389231	T;T	0.29655	1.56;1.56	5.38	5.38	0.77491	Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2 (2);	0.046637	0.85682	D	0.000000	T	0.56232	0.1971	M	0.74546	2.27	0.80722	D	1	D;P	0.57899	0.981;0.534	D;P	0.66497	0.944;0.454	T	0.51560	-0.8690	10	0.39692	T	0.17	-8.4151	19.3333	0.94303	0.0:1.0:0.0:0.0	.	370;370	P45974;P45974-2	UBP5_HUMAN;.	I	370	ENSP00000229268:T370I;ENSP00000373883:T370I	ENSP00000229268:T370I	T	+	2	0	USP5	6838945	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	7.609000	0.82925	2.793000	0.96121	0.655000	0.94253	ACC		0.562	USP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402982.1			T	6968684	C	T	6968684	3	4	568	1	0	0	0	0	1	0	0	0	17093	507	18	2	1143	2	USP5	12	6968684	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08		6968684	126883211	74	33549										
ATF7IP	55729	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	14613823	14613823	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	aacaacgttccttctgtgccCagtcctagtattcaaaggaa	7	11	2	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr12:14613823C>T	ENST00000540793.1	+	8	2708	c.2553C>T	c.(2551-2553)ccC>ccT	p.P851P	ATF7IP_ENST00000261168.4_Silent_p.P851P|ATF7IP_ENST00000543189.1_Silent_p.P850P|ATF7IP_ENST00000536444.1_Silent_p.P850P|ATF7IP_ENST00000541654.1_3'UTR|ATF7IP_ENST00000544627.1_Silent_p.P859P			Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting protein	851					DNA methylation (GO:0006306)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of RNA polymerase II transcriptional preinitiation complex assembly (GO:0045898)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	nucleus (GO:0005634)				cervix(1)|endometrium(7)|kidney(5)|large_intestine(10)|liver(2)|lung(22)|ovary(1)|prostate(4)|skin(1)|urinary_tract(1)	54						CTTCTGTGCCCAGTCCTAGTA	0.488																																																0													173	147	156					12																	14613823		2203	4300	6503	SO:0001819	synonymous_variant	55729			AJ242978	CCDS8663.1, CCDS66326.1, CCDS66327.1, CCDS73449.1	12p13.1	2005-11-18				ENSG00000171681			20092	protein-coding gene	gene with protein product		613644				10976766, 10777215	Standard	XM_005253424		Approved	FLJ10688, p621	uc001rbw.3	Q6VMQ6		ENST00000540793.1:c.2553C>T	12.37:g.14613823C>T		Somatic		WXS	Illumina HiSeq	Phase_I	F5GX74|G3V1U0|Q4G0T9|Q6P3T3|Q86XW5|Q9NVJ9|Q9NWC2|Q9Y4X8	Silent	SNP	ENST00000540793.1	37	CCDS8663.1																																																																																				0.488	ATF7IP-024	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000401400.1	NM_018179		T	14613823	C	T	14613823	2	4	568	1	0	0	0	0	0	0	0	1	1087	581	21	2		2	ATF7IP	12	14613823	Silent	SNP	C	TCGA-DW-7838-01A-11D-2136-08	7645139	14613823	119238072	75	33550										
EIF4B	1975	hgsc.bcm.edu;broad.mit.edu	37	chr12	53431279	53431279	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	actctccaacttctaaacctCccaaacctgatcagccccta	2	18	3	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr12:53431279C>T	ENST00000262056.9	+	11	1719	c.1393C>T	c.(1393-1395)Ccc>Tcc	p.P465S	RP11-983P16.4_ENST00000546566.1_RNA|EIF4B_ENST00000420463.3_Missense_Mutation_p.P470S|RP11-983P16.4_ENST00000550601.1_RNA|EIF4B_ENST00000416762.3_Missense_Mutation_p.P426S|RP11-983P16.4_ENST00000552905.1_RNA	NM_001417.4	NP_001408.2	P23588	IF4B_HUMAN	eukaryotic translation initiation factor 4B	465					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|insulin receptor signaling pathway (GO:0008286)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|regulation of translational initiation (GO:0006446)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)	cytosol (GO:0005829)|eukaryotic translation initiation factor 4F complex (GO:0016281)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|translation initiation factor activity (GO:0003743)			breast(4)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(10)|stomach(1)|upper_aerodigestive_tract(1)	22						TTCTAAACCTCCCAAACCTGA	0.493																																																0													20	20	20					12																	53431279		1805	4043	5848	SO:0001583	missense	1975			X55733	CCDS41788.1, CCDS73474.1	12q13.13	2013-02-12			ENSG00000063046	ENSG00000063046		"RNA binding motif (RRM) containing"	3285	protein-coding gene	gene with protein product		603928					Standard	XM_005268709		Approved		uc001sbh.4	P23588	OTTHUMG00000169570	ENST00000262056.9:c.1393C>T	12.37:g.53431279C>T	ENSP00000262056:p.Pro465Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0E3|Q53HQ2|Q6GPH5|Q6IB46|Q8WYK5	Missense_Mutation	SNP	ENST00000262056.9	37	CCDS41788.1	.	.	.	.	.	.	.	.	.	.	C	15.52	2.856483	0.51376	.	.	ENSG00000063046	ENST00000262056;ENST00000420463;ENST00000430205;ENST00000416762	T;T;T	0.36878	1.23;1.23;1.23	5.2	5.2	0.72013	.	0.418940	0.24195	N	0.040661	T	0.36771	0.0979	L	0.57536	1.79	0.54753	D	0.999988	P;P;B;P	0.47106	0.89;0.473;0.002;0.825	B;B;B;B	0.42062	0.374;0.091;0.008;0.207	T	0.10405	-1.0631	10	0.15952	T	0.53	.	17.0418	0.86491	0.0:1.0:0.0:0.0	.	426;470;441;465	B4DS13;E7EX17;E7EPC9;P23588	.;.;.;IF4B_HUMAN	S	465;470;441;426	ENSP00000262056:P465S;ENSP00000388806:P470S;ENSP00000412530:P426S	ENSP00000262056:P465S	P	+	1	0	EIF4B	51717546	1.000000	0.71417	1.000000	0.80357	0.962000	0.63368	1.816000	0.38992	2.810000	0.96702	0.585000	0.79938	CCC		0.493	EIF4B-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000404852.2	NM_001417		T	53431279	C	T	53431279	3	4	568	1	0	0	0	0	1	0	0	0	5029	855	30	2	1435	2	EIF4B	12	53431279	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	38817456	53431279	80420616	76	33551										
IRS2	8660	hgsc.bcm.edu	37	chr13	110435756	110435756	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tcaccgcccggccgcgctggCccaagaagccctccgggcgg	14	19	1	1	rs201499247	byFrequency	TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr13:110435756C>G	ENST00000375856.3	-	1	3159	c.2645G>C	c.(2644-2646)gGc>gCc	p.G882A		NM_003749.2	NP_003740.2	Q9Y4H2	IRS2_HUMAN	insulin receptor substrate 2	882			G -> A. {ECO:0000269|Ref.5}.		brain development (GO:0007420)|cell proliferation (GO:0008283)|cellular response to glucose stimulus (GO:0071333)|cellular response to insulin stimulus (GO:0032869)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|glucose metabolic process (GO:0006006)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|lipid homeostasis (GO:0055088)|mammary gland development (GO:0030879)|negative regulation of B cell apoptotic process (GO:0002903)|negative regulation of kinase activity (GO:0033673)|negative regulation of plasma membrane long-chain fatty acid transport (GO:0010748)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of fatty acid beta-oxidation (GO:0032000)|positive regulation of glucose import (GO:0046326)|positive regulation of glucose metabolic process (GO:0010907)|positive regulation of glycogen biosynthetic process (GO:0045725)|positive regulation of insulin secretion (GO:0032024)|positive regulation of mesenchymal cell proliferation (GO:0002053)|regulation of lipid metabolic process (GO:0019216)|response to glucose (GO:0009749)|signal transduction (GO:0007165)	cytosol (GO:0005829)|plasma membrane (GO:0005886)	signal transducer activity (GO:0004871)			kidney(2)|large_intestine(2)|lung(8)|ovary(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)	19	all_cancers(4;7.57e-15)|all_epithelial(4;5.91e-09)|all_lung(23;7.64e-07)|Lung NSC(43;0.000183)|Colorectal(4;0.00159)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0155)	Breast(118;0.159)	all cancers(43;0.00815)|BRCA - Breast invasive adenocarcinoma(86;0.11)|Epithelial(84;0.127)|GBM - Glioblastoma multiforme(44;0.147)			GCCGCGCTGGCCCAAGAAGCC	0.766													.|||	10	0.00199681	0.0	0.0043	5008	,	,		7396	0.0		0.007	False		,,,				2504	0.0				Melanoma(100;613 2409 40847)											0								C	ALA/GLY	1,3269		0,1,1634	2	3	2		2645	-5.4	0	13		2	7,6747		0,7,3370	no	missense	IRS2	NM_003749.2	60	0,8,5004	GG,GC,CC		0.1036,0.0306,0.0798	benign	882/1339	110435756	8,10016	1635	3377	5012	SO:0001583	missense	8660			AB000732	CCDS9510.1	13q34	2013-01-10			ENSG00000185950	ENSG00000185950		"Pleckstrin homology (PH) domain containing"	6126	protein-coding gene	gene with protein product		600797				9312143	Standard	NM_003749		Approved		uc001vqv.3	Q9Y4H2	OTTHUMG00000017338	ENST00000375856.3:c.2645G>C	13.37:g.110435756C>G	ENSP00000365016:p.Gly882Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q96RR2|Q9BZG0|Q9Y6I5	Missense_Mutation	SNP	ENST00000375856.3	37	CCDS9510.1	.	.	.	.	.	.	.	.	.	.	C	0.069	-1.206226	0.01568	3.06E-4	0.001036	ENSG00000185950	ENST00000375856	T	0.42513	0.97	4.36	-5.38	0.02673	.	1.016690	0.07871	U	0.967985	T	0.18002	0.0432	N	0.16478	0.41	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.30031	-0.9992	10	0.08837	T	0.75	-1.9461	4.3158	0.10993	0.1295:0.4165:0.3472:0.1068	.	882	Q9Y4H2	IRS2_HUMAN	A	882	ENSP00000365016:G882A	ENSP00000365016:G882A	G	-	2	0	IRS2	109233757	0.005000	0.15991	0.014000	0.15608	0.112000	0.19704	0.077000	0.14738	-0.678000	0.05224	0.561000	0.74099	GGC		0.766	IRS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045755.1	NM_003749		G	110435756	C	G	110435756	3	3	568	1	0	0	0	0	1	0	0	0	7848	739	26	4	1379	4	IRS2	13	110435756	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08		110435756	4734122	77	33552										
CGRRF1	10668	ucsc.edu	37	chr14	55005042	55005042	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tgtgcaggcagtttgttcagGaatcttttgcactttgcagt	11	7	2	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr14:55005042G>C	ENST00000216420.7	+	6	1072	c.940G>C	c.(940-942)Gaa>Caa	p.E314Q		NM_006568.2	NP_006559.1	Q99675	CGRF1_HUMAN	cell growth regulator with ring finger domain 1	314					cell cycle arrest (GO:0007050)|negative regulation of cell proliferation (GO:0008285)|response to stress (GO:0006950)	intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	zinc ion binding (GO:0008270)			endometrium(3)|kidney(2)|lung(5)|ovary(2)|stomach(1)	13						GTTTGTTCAGGAATCTTTTGC	0.423																																																0													97	89	92					14																	55005042		2203	4300	6503	SO:0001583	missense	10668			BC015063	CCDS9719.1	14q22.2	2013-09-20			ENSG00000100532	ENSG00000100532		"RING-type (C3HC4) zinc fingers"	15528	protein-coding gene	gene with protein product		606138				8968090	Standard	NM_006568		Approved	CGR19, RNF197	uc001xay.3	Q99675	OTTHUMG00000140308	ENST00000216420.7:c.940G>C	14.37:g.55005042G>C	ENSP00000216420:p.Glu314Gln	Somatic		WXS	Illumina HiSeq		Q96BX2	Missense_Mutation	SNP	ENST00000216420.7	37	CCDS9719.1	.	.	.	.	.	.	.	.	.	.	G	19.56	3.850667	0.71719	.	.	ENSG00000100532	ENST00000216420	T	0.67523	-0.27	5.23	3.42	0.39159	Zinc finger, RING/FYVE/PHD-type (1);	0.046947	0.85682	D	0.000000	T	0.60064	0.2240	N	0.25094	0.71	0.43088	D	0.994752	D	0.54601	0.967	P	0.52159	0.691	T	0.57329	-0.7830	10	0.33141	T	0.24	-14.1511	11.656	0.51318	0.143:0.0:0.857:0.0	.	314	Q99675	CGRF1_HUMAN	Q	314	ENSP00000216420:E314Q	ENSP00000216420:E314Q	E	+	1	0	CGRRF1	54074792	1.000000	0.71417	1.000000	0.80357	0.955000	0.61496	7.236000	0.78154	0.794000	0.33899	0.462000	0.41574	GAA		0.423	CGRRF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276905.2	NM_006568		C	55005042	G	C	55005042	3	2	568	1	0	0	0	0	1	0	0	0	3308	1175	41	4	962	4	CGRRF1	14	55005042	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08		55005042	52344498	78	33553										
GPR135	64582	hgsc.bcm.edu	37	chr14	59931931	59931931	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tcgctggtgggcggggcggcTgcggctcctccatggggccc	19	14	0	0	rs1752428	byFrequency	TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr14:59931931T>G	ENST00000395116.1	-	1	129	c.14A>C	c.(13-15)cAg>cCg	p.Q5P		NM_022571.5	NP_072093.2	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	5			Q -> P (in dbSNP:rs1752428).			integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			breast(1)|endometrium(1)|large_intestine(1)|liver(1)|lung(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	13				OV - Ovarian serous cystadenocarcinoma(108;0.134)		GCGGGGCGGCTGCGGCTCCTC	0.781													G|||	2695	0.538139	0.8767	0.5821	5008	,	,		8009	0.2063		0.4722	False		,,,				2504	0.4591															0													1	1	1					14																	59931931		555	1498	2053	SO:0001583	missense	64582			AY288418	CCDS9738.1	14q23.1	2012-08-21			ENSG00000181619	ENSG00000181619		"GPCR / Class A : Orphans"	19991	protein-coding gene	gene with protein product		607970				14623098	Standard	NM_022571		Approved	HUMNPIIY20, PAFR	uc010apj.3	Q8IZ08	OTTHUMG00000140325	ENST00000395116.1:c.14A>C	14.37:g.59931931T>G	ENSP00000378548:p.Gln5Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z604|Q86SM3|Q8NH39	Missense_Mutation	SNP	ENST00000395116.1	37	CCDS9738.1	1023	0.4684065934065934	376	0.7642276422764228	199	0.5497237569060773	107	0.18706293706293706	341	0.449868073878628	G	12.20	1.867217	0.32977	.	.	ENSG00000181619	ENST00000395116	T	0.62941	-0.01	3.25	3.25	0.37280	.	.	.	.	.	T	0.00012	0.0000	N	0.03608	-0.345	0.09310	P	0.9999999999999688	B	0.02656	0.0	B	0.01281	0.0	T	0.36311	-0.9753	8	0.35671	T	0.21	-4.9918	9.4599	0.38778	0.0:0.0:0.7862:0.2138	rs1752428;rs3742644	5	Q8IZ08	GP135_HUMAN	P	5	ENSP00000378548:Q5P	ENSP00000378548:Q5P	Q	-	2	0	GPR135	59001684	0.007000	0.16637	0.970000	0.41538	0.076000	0.17211	-0.908000	0.04063	0.581000	0.29539	-0.677000	0.03784	CAG		0.781	GPR135-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276941.1	NM_022571		G	59931931	T	G	59931931	3	3	568	1	0	0	0	0	1	0	0	0	6651	1580	55	5	1474	5	GPR135	14	59931931	Missense_Mutation	SNP	T	TCGA-DW-7838-01A-11D-2136-08	4926889	59931931	47417609	79	33554										
SYNE2	23224	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	64633998	64633998	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tcacctgatattgaacatttGaatgaagtgagcctcaagct	8	8	2	5			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr14:64633998G>A	ENST00000344113.4	+	91	16865	c.16653G>A	c.(16651-16653)ttG>ttA	p.L5551L	SYNE2_ENST00000357395.3_Silent_p.L1936L|SYNE2_ENST00000394768.2_Silent_p.L1936L|SYNE2_ENST00000554584.1_Silent_p.L5426L|SYNE2_ENST00000555002.1_Silent_p.L2185L|SYNE2_ENST00000358025.3_Silent_p.L5551L|ESR2_ENST00000542956.1_Intron	NM_015180.4	NP_055995.4	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	5551					centrosome localization (GO:0051642)|cytoskeletal anchoring at nuclear membrane (GO:0090286)|establishment or maintenance of cell polarity (GO:0007163)|fibroblast migration (GO:0010761)|nuclear envelope organization (GO:0006998)|nuclear migration (GO:0007097)|nuclear migration along microfilament (GO:0031022)|positive regulation of cell migration (GO:0030335)|protein localization to nucleus (GO:0034504)	aggresome (GO:0016235)|cytoplasm (GO:0005737)|filopodium membrane (GO:0031527)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|intermediate filament cytoskeleton (GO:0045111)|lamellipodium membrane (GO:0031258)|mitochondrion (GO:0005739)|nuclear envelope (GO:0005635)|nuclear lumen (GO:0031981)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|sarcoplasmic reticulum (GO:0016529)|SUN-KASH complex (GO:0034993)|Z disc (GO:0030018)	actin binding (GO:0003779)			NS(5)|breast(17)|central_nervous_system(3)|cervix(8)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(21)|large_intestine(34)|lung(75)|ovary(10)|pancreas(2)|prostate(8)|skin(8)|stomach(1)|upper_aerodigestive_tract(9)|urinary_tract(4)	224				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TTGAACATTTGAATGAAGTGA	0.438																																																0													65	61	63					14																	64633998		2203	4300	6503	SO:0001819	synonymous_variant	23224			AB023228	CCDS9761.2, CCDS41963.1, CCDS45124.1, CCDS45125.1	14q22.1-q22.3	2014-09-17			ENSG00000054654	ENSG00000054654			17084	protein-coding gene	gene with protein product	"nuclear envelope spectrin repeat-2", "nucleus and actin connecting element"	608442				10231032, 10878022	Standard	NM_182910		Approved	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2	uc001xgl.3	Q8WXH0	OTTHUMG00000140349	ENST00000344113.4:c.16653G>A	14.37:g.64633998G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q540G1|Q8N1S3|Q8NF49|Q8TER7|Q8WWW3|Q8WWW4|Q8WWW5|Q8WXH1|Q9NU50|Q9UFQ4|Q9Y2L4|Q9Y4R1	Silent	SNP	ENST00000344113.4	37	CCDS41963.1																																																																																				0.438	SYNE2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276994.2	NM_182914		A	64633998	G	A	64633998	2	1	568	1	0	0	0	0	0	0	0	1	15458	1281	45	2		2	SYNE2	14	64633998	Silent	SNP	G	TCGA-DW-7838-01A-11D-2136-08	4702067	64633998	42715542	80	33555										
TRIP11	9321	ucsc.edu;bcgsc.ca	37	chr14	92480875	92480875	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	agaacttgaatagttttttgCatctcatagattttagagag	8	4	1	4			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr14:92480875C>T	ENST00000267622.4	-	7	1243	c.870G>A	c.(868-870)atG>atA	p.M290I		NM_004239.3	NP_004230.2	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	290					protein targeting to Golgi (GO:0000042)|regulation of RNA biosynthetic process (GO:2001141)|transcription from RNA polymerase II promoter (GO:0006366)|ventricular septum development (GO:0003281)	acrosomal membrane (GO:0002080)|cis-Golgi network (GO:0005801)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)			breast(3)|central_nervous_system(2)|endometrium(1)|kidney(8)|large_intestine(12)|lung(17)|ovary(7)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	58				COAD - Colon adenocarcinoma(157;0.223)		TAGTTTTTTGCATCTCATAGA	0.284			T	PDGFRB	AML																																Ovarian(84;609 1888 9852 42686)		Dom	yes		14	14q31-q32	9321	thyroid hormone receptor interactor 11		L	0													26	27	27					14																	92480875		2148	4260	6408	SO:0001583	missense	9321			L40380	CCDS9899.1	14q31-q32	2008-05-02				ENSG00000100815			12305	protein-coding gene	gene with protein product		604505				7776974, 9373237	Standard	NM_004239		Approved	CEV14, Trip230, GMAP-210	uc001xzy.3	Q15643		ENST00000267622.4:c.870G>A	14.37:g.92480875C>T	ENSP00000267622:p.Met290Ile	Somatic		WXS	Illumina HiSeq		B2RUT2|O14689|O15154|O95949	Missense_Mutation	SNP	ENST00000267622.4	37	CCDS9899.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	11.38|11.38	1.621245|1.621245	0.28889|0.28889	.|.	.|.	ENSG00000100815|ENSG00000100815	ENST00000554357|ENST00000267622;ENST00000542257	.|T	.|0.60424	.|0.19	5.1|5.1	2.23|2.23	0.28157|0.28157	.|.	.|0.530450	.|0.21569	.|N	.|0.072438	T|T	0.45175|0.45175	0.1329|0.1329	L|L	0.35723|0.35723	1.085|1.085	0.25334|0.25334	N|N	0.989007|0.989007	.|B;B	.|0.06786	.|0.001;0.001	.|B;B	.|0.11329	.|0.002;0.006	T|T	0.38067|0.38067	-0.9678|-0.9678	5|10	.|0.41790	.|T	.|0.15	.|.	10.777|10.777	0.46356|0.46356	0.0:0.783:0.0:0.217|0.0:0.783:0.0:0.217	.|.	.|55;290	.|F5H1Z0;Q15643	.|.;TRIPB_HUMAN	T|I	35|290;55	.|ENSP00000267622:M290I	.|ENSP00000267622:M290I	A|M	-|-	1|3	0|0	TRIP11|TRIP11	91550628|91550628	0.998000|0.998000	0.40836|0.40836	0.526000|0.526000	0.27913|0.27913	0.849000|0.849000	0.48306|0.48306	1.269000|1.269000	0.33074|0.33074	0.651000|0.651000	0.30788|0.30788	0.555000|0.555000	0.69702|0.69702	GCA|ATG		0.284	TRIP11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411823.1			T	92480875	C	T	92480875	3	4	568	1	0	0	0	0	1	0	0	0	16567	710	25	2	5129	2	TRIP11	14	92480875	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	27846877	92480875	14868665	81	33556										
CLMN	79789	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	95670344	95670344	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ctttgccactcttgggctccCttcaaagcaaagggacaggt	10	12	2	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr14:95670344C>T	ENST00000298912.4	-	9	1455	c.1342G>A	c.(1342-1344)Ggg>Agg	p.G448R		NM_024734.3	NP_079010.2	Q96JQ2	CLMN_HUMAN	calmin (calponin-like, transmembrane)	448					negative regulation of cell proliferation (GO:0008285)|neuron projection development (GO:0031175)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)				central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(10)|lung(17)|prostate(3)|skin(3)	44				Epithelial(152;0.193)		CTTGGGCTCCCTTCAAAGCAA	0.483																																																0													87	82	84					14																	95670344		2203	4300	6503	SO:0001583	missense	79789			AB033014	CCDS9933.1	14q32.13	2012-10-02			ENSG00000165959	ENSG00000165959			19972	protein-coding gene	gene with protein product		611121				11386753	Standard	NM_024734		Approved	FLJ12383, KIAA1188, KIAA0500	uc001yef.2	Q96JQ2	OTTHUMG00000171629	ENST00000298912.4:c.1342G>A	14.37:g.95670344C>T	ENSP00000298912:p.Gly448Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAR7|Q9H713|Q9HA23|Q9HA57|Q9UFP4|Q9ULN2	Missense_Mutation	SNP	ENST00000298912.4	37	CCDS9933.1	.	.	.	.	.	.	.	.	.	.	C	11.56	1.673672	0.29693	.	.	ENSG00000165959	ENST00000298912	D	0.94537	-3.45	5.63	3.66	0.41972	.	0.000000	0.38837	N	0.001556	D	0.90896	0.7139	M	0.66939	2.045	0.18873	N	0.999986	P	0.37122	0.583	B	0.32342	0.144	D	0.86083	0.1545	10	0.87932	D	0	.	5.9466	0.19221	0.3449:0.5687:0.0:0.0864	.	448	Q96JQ2	CLMN_HUMAN	R	448	ENSP00000298912:G448R	ENSP00000298912:G448R	G	-	1	0	CLMN	94740097	0.137000	0.22531	0.209000	0.23619	0.021000	0.10359	0.357000	0.20199	1.337000	0.45525	0.655000	0.94253	GGG		0.483	CLMN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414518.2			T	95670344	C	T	95670344	3	4	568	1	0	0	0	0	1	0	0	0	3544	681	24	2	1686	2	CLMN	14	95670344	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	3189469	95670344	11679196	82	33557										
SPTBN5	51332	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	42149779	42149779	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gcacaacctcacctcacaggCcttctggagcttggccacct	8	17	3	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr15:42149779C>G	ENST00000320955.6	-	50	8583	c.8356G>C	c.(8356-8358)Gcc>Ccc	p.A2786P		NM_016642.2	NP_057726.4	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	2786					actin cytoskeleton organization (GO:0030036)|actin filament capping (GO:0051693)|axon guidance (GO:0007411)|Golgi organization (GO:0007030)|lysosomal transport (GO:0007041)|protein homooligomerization (GO:0051260)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|photoreceptor connecting cilium (GO:0032391)|photoreceptor disc membrane (GO:0097381)|spectrin (GO:0008091)	actin binding (GO:0003779)|dynactin binding (GO:0034452)|dynein intermediate chain binding (GO:0045505)|kinesin binding (GO:0019894)|myosin tail binding (GO:0032029)|protein self-association (GO:0043621)|spectrin binding (GO:0030507)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(6)|lung(18)|ovary(5)|prostate(8)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	62		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		ACCTCACAGGCCTTCTGGAGC	0.652																																																0													28	34	32					15																	42149779		2004	4170	6174	SO:0001583	missense	51332			AF233523	CCDS61599.1	15q21	2010-08-17			ENSG00000137877	ENSG00000137877			15680	protein-coding gene	gene with protein product	"beta V spectrin"	605916				10764729	Standard	NM_016642		Approved	HUSPECV, BSPECV, HUBSPECV	uc001zos.4	Q9NRC6		ENST00000320955.6:c.8356G>C	15.37:g.42149779C>G	ENSP00000317790:p.Ala2786Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000320955.6	37		.	.	.	.	.	.	.	.	.	.	.	15.93	2.979532	0.53827	.	.	ENSG00000137877	ENST00000320955	T	0.39787	1.06	4.2	3.28	0.37604	.	0.000000	0.56097	D	0.000023	T	0.62720	0.2451	M	0.78049	2.395	0.19300	N	0.99998	D	0.89917	1.0	D	0.77004	0.989	T	0.56463	-0.7975	10	0.72032	D	0.01	.	12.048	0.53491	0.0:0.916:0.0:0.084	.	2786	Q9NRC6	SPTN5_HUMAN	P	2786	ENSP00000317790:A2786P	ENSP00000317790:A2786P	A	-	1	0	SPTBN5	39937071	0.983000	0.35010	0.020000	0.16555	0.009000	0.06853	2.620000	0.46410	0.977000	0.38444	0.467000	0.42956	GCC		0.652	SPTBN5-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000420237.1	NM_016642		G	42149779	C	G	42149779	3	3	568	1	0	0	0	0	1	0	0	0	15134	739	26	4	2744	4	SPTBN5	15	42149779	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08		42149779	60381613	83	33558										
SPG11	80208	hgsc.bcm.edu	37	chr15	44861660	44861660	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tatgcagcaaatcaaatatgTatgtcatctcgttgtacctt	6	8	3	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr15:44861660T>C	ENST00000261866.7	-	35	6537	c.6521A>G	c.(6520-6522)tAc>tGc	p.Y2174C	SPG11_ENST00000427534.2_Missense_Mutation_p.Y2174C|SPG11_ENST00000535302.2_Missense_Mutation_p.Y2061C	NM_025137.3	NP_079413.3	Q96JI7	SPTCS_HUMAN	spastic paraplegia 11 (autosomal recessive)	2174					cell death (GO:0008219)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)				autonomic_ganglia(1)|breast(5)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(4)|large_intestine(16)|lung(24)|ovary(5)|prostate(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	72		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)		ATCAAATATGTATGTCATCTC	0.478																																																0													112	92	99					15																	44861660		2197	4298	6495	SO:0001583	missense	80208				CCDS10112.1, CCDS53939.1	15q13-q15	2007-11-13			ENSG00000104133	ENSG00000104133			11226	protein-coding gene	gene with protein product	"spatacsin"	610844	"KIAA1840"	KIAA1840		10408536, 17322883	Standard	NM_001160227		Approved	FLJ21439	uc001ztx.3	Q96JI7	OTTHUMG00000131199	ENST00000261866.7:c.6521A>G	15.37:g.44861660T>C	ENSP00000261866:p.Tyr2174Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAX9|B9EK60|F5H3N6|Q4VC11|Q58G86|Q69YG6|Q6NW01|Q8N270|Q8TBU9|Q9H734	Missense_Mutation	SNP	ENST00000261866.7	37	CCDS10112.1	.	.	.	.	.	.	.	.	.	.	T	21.2	4.109125	0.77096	.	.	ENSG00000104133	ENST00000261866;ENST00000535302;ENST00000427534	D;T;D	0.85013	-1.91;-1.44;-1.93	6.07	6.07	0.98685	.	0.115539	0.64402	D	0.000010	D	0.91945	0.7449	M	0.76002	2.32	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.91635	0.997;0.999;0.997;0.997	D	0.92596	0.6087	10	0.72032	D	0.01	.	15.1999	0.73126	0.0:0.0:0.0:1.0	.	2174;2061;2174;2174	C4B7M2;F5H3N6;C4B7M4;Q96JI7	.;.;.;SPTCS_HUMAN	C	2174;2061;2174	ENSP00000261866:Y2174C;ENSP00000445278:Y2061C;ENSP00000396110:Y2174C	ENSP00000261866:Y2174C	Y	-	2	0	SPG11	42648952	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.589000	0.82641	2.326000	0.78906	0.533000	0.62120	TAC		0.478	SPG11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000253927.1			C	44861660	T	C	44861660	3	2	568	1	0	0	0	0	1	0	0	0	15053	1638	57	3	834	3	SPG11	15	44861660	Missense_Mutation	SNP	T	TCGA-DW-7838-01A-11D-2136-08	2711881	44861660	57669732	84	33559										
ZNF598	90850	hgsc.bcm.edu	37	chr16	2059674	2059674	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	acagcacgcagctcccgcctTcccgctcaggagctgccgcc	10	20	1	0	rs71384660		TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr16:2059674T>C	ENST00000431526.1	-	2	88	c.74A>G	c.(73-75)gAa>gGa	p.E25G	ZNF598_ENST00000562103.1_5'UTR|ZNF598_ENST00000563630.1_5'UTR	NM_178167.2	NP_835461.2	Q86UK7	ZN598_HUMAN	zinc finger protein 598	25							poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|lung(7)|skin(1)|urinary_tract(1)	16						GCTCCCGCCTTCCCGCTCAGG	0.766													C|||	5008	1.0	1.0	1.0	5008	,	,		5162	1.0		1.0	False		,,,				2504	1.0															0													1	2	2					16																	2059674		1089	2314	3403	SO:0001583	missense	90850			BC029270		16p13.3	2008-05-02				ENSG00000167962		"Zinc fingers, C2H2-type"	28079	protein-coding gene	gene with protein product							Standard	NM_178167		Approved	FLJ00086	uc002cof.2	Q86UK7		ENST00000431526.1:c.74A>G	16.37:g.2059674T>C	ENSP00000411409:p.Glu25Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IW49|Q8N3D9|Q96FG3|Q9H7J3	Missense_Mutation	SNP	ENST00000431526.1	37		2168	0.9926739926739927	487	0.9898373983739838	361	0.9972375690607734	568	0.993006993006993	752	0.9920844327176781	N	1.560	-0.537056	0.04082	.	.	ENSG00000167962	ENST00000431526	T	0.77098	-1.07	3.3	3.3	0.37823	.	0.415485	0.23105	N	0.051871	T	0.00012	0.0000	.	.	.	0.48696	P	3.1000000000003247E-4	.	.	.	.	.	.	T	0.34650	-0.9820	6	0.22706	T	0.39	-7.8624	8.393	0.32540	0.0:0.8796:0.0:0.1204	.	.	.	.	G	25	ENSP00000411409:E25G	ENSP00000411409:E25G	E	-	2	0	ZNF598	1999675	1.000000	0.71417	1.000000	0.80357	0.107000	0.19398	0.911000	0.28584	0.691000	0.31592	-0.642000	0.03964	GAA		0.766	ZNF598-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_178167		C	2059674	T	C	2059674	3	2	568	1	0	0	0	0	1	0	0	0	18040	1770	62	3	2689	3	ZNF598	16	2059674	Missense_Mutation	SNP	T	TCGA-DW-7838-01A-11D-2136-08		2059674	88295079	85	33560										
C16orf92	146378	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	30035201	30035219	+	Splice_Site	DEL	ACTCAGGTATGAACCAGCT	ACTCAGGTATGAACCAGCT	-													0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gaaacccatcgtgttcattaActcaggtatgaaccagcttg							TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	ACTCAGGTATGAACCAGCT	ACTCAGGTATGAACCAGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr16:30035201_30035219delACTCAGGTATGAACCAGCT	ENST00000300575.2	+	2	305_310	c.284_289delACTCAGGTATGAACCAGCT	c.(283-291)aactcaggt>agt	p.NSG95fs	DOC2A_ENST00000567824.1_5'Flank	NM_001109659.1|NM_001109660.1	NP_001103129.1|NP_001103130.1	Q96LL3	CP092_HUMAN	chromosome 16 open reading frame 92	95						integral component of membrane (GO:0016021)				breast(3)|lung(3)	6						GTGTTCATTAACTCAGGTATGAACCAGCTTGAGAAGGGA	0.543																																																0																																										SO:0001630	splice_region_variant	146378			AK058133	CCDS42146.1	16p11.2	2012-05-30			ENSG00000167194	ENSG00000167194			26346	protein-coding gene	gene with protein product							Standard	NM_001109659		Approved	FLJ25404	uc002dvs.2	Q96LL3	OTTHUMG00000177107	ENST00000300575.2:c.289+1ACTCAGGTATGAACCAGCT>-	16.37:g.30035201_30035219delACTCAGGTATGAACCAGCT		Somatic		WXS	Illumina HiSeq	Phase_I	Q494R8	In_Frame_Del	DEL	ENST00000300575.2	37	CCDS42146.1																																																																																				0.543	C16orf92-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000435351.1	NM_001109659	Frame_Shift_Del	-	30035219	ACTCAGGTATGAACCAGCT	-	30035201	8	5	568	1	0	1	0	1	0	0	1	0	1847	43	2	0	304	0	C16orf92	16	30035201	Splice_Site	DEL	ACTCAGGTATGAACCAGCT	TCGA-DW-7838-01A-11D-2136-08	27975527	30035201	60319552	86	33561										
SALL1	6299	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	51172851	51172851	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ttactgtcctgaggagaaacAtgcacgaagccgttgacctc	10	11	0	3			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr16:51172851A>G	ENST00000251020.4	-	2	3315	c.3282T>C	c.(3280-3282)caT>caC	p.H1094H	SALL1_ENST00000566102.1_Intron|SALL1_ENST00000440970.1_Silent_p.H997H|SALL1_ENST00000541611.1_Intron	NM_002968.2	NP_002959.2	Q9NSC2	SALL1_HUMAN	spalt-like transcription factor 1	1094					adrenal gland development (GO:0030325)|branching involved in ureteric bud morphogenesis (GO:0001658)|embryonic digestive tract development (GO:0048566)|embryonic digit morphogenesis (GO:0042733)|forelimb morphogenesis (GO:0035136)|gonad development (GO:0008406)|heart development (GO:0007507)|hindlimb morphogenesis (GO:0035137)|histone deacetylation (GO:0016575)|inductive cell-cell signaling (GO:0031129)|kidney development (GO:0001822)|kidney epithelium development (GO:0072073)|limb development (GO:0060173)|mesenchymal to epithelial transition involved in metanephros morphogenesis (GO:0003337)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neural tube closure (GO:0001843)|olfactory bulb interneuron differentiation (GO:0021889)|olfactory bulb mitral cell layer development (GO:0061034)|olfactory nerve development (GO:0021553)|outer ear morphogenesis (GO:0042473)|pituitary gland development (GO:0021983)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of Wnt signaling pathway (GO:0030177)|regulation of neural precursor cell proliferation (GO:2000177)|transcription, DNA-templated (GO:0006351)|ureteric bud development (GO:0001657)|ureteric bud invasion (GO:0072092)|ventricular septum development (GO:0003281)	chromocenter (GO:0010369)|cytoplasm (GO:0005737)|heterochromatin (GO:0000792)|nucleus (GO:0005634)|NuRD complex (GO:0016581)	beta-catenin binding (GO:0008013)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(4)|breast(2)|central_nervous_system(2)|endometrium(3)|kidney(5)|large_intestine(25)|lung(61)|ovary(3)|prostate(6)|skin(12)|upper_aerodigestive_tract(3)	126		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			GAGGAGAAACATGCACGAAGC	0.572																																					GBM(103;1352 1446 1855 4775 8890)											0													116	104	108					16																	51172851		2198	4300	6498	SO:0001819	synonymous_variant	6299			X98833	CCDS10747.1, CCDS45483.1	16q12.1	2014-09-17	2013-10-17		ENSG00000103449	ENSG00000103449		"Zinc fingers, C2H2-type"	10524	protein-coding gene	gene with protein product		602218	"sal (Drosophila)-like 1", "sal-like 1 (Drosophila)"	TBS		9425907	Standard	NM_002968		Approved	Hsal1, ZNF794	uc021tie.1	Q9NSC2	OTTHUMG00000133176	ENST00000251020.4:c.3282T>C	16.37:g.51172851A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q99881|Q9NSC3|Q9P1R0	Silent	SNP	ENST00000251020.4	37	CCDS10747.1																																																																																				0.572	SALL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256883.2	NM_002968		G	51172851	A	G	51172851	2	3	568	1	0	0	0	0	0	0	0	1	13823	214	8	3		3	SALL1	16	51172851	Silent	SNP	A	TCGA-DW-7838-01A-11D-2136-08	21137650	51172851	39181902	87	33562										
SLC38A7	55238	hgsc.bcm.edu;broad.mit.edu	37	chr16	58713827	58713827	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gctgctgggaagttgagtaaCcctgcacccaggcacgcgtt	13	12	0	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr16:58713827C>T	ENST00000570101.1	-	2	1087	c.204G>A	c.(202-204)ggG>ggA	p.G68G	SLC38A7_ENST00000566953.1_Intron|SLC38A7_ENST00000219320.4_Silent_p.G68G|SLC38A7_ENST00000564391.1_Silent_p.G68G|SLC38A7_ENST00000564100.1_Silent_p.G68G|SLC38A7_ENST00000564010.1_Intron			Q9NVC3	S38A7_HUMAN	solute carrier family 38, member 7	68					sodium ion transport (GO:0006814)	axon (GO:0030424)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)	L-alanine transmembrane transporter activity (GO:0015180)|L-amino acid transmembrane transporter activity (GO:0015179)|L-asparagine transmembrane transporter activity (GO:0015182)|L-aspartate transmembrane transporter activity (GO:0015183)|L-glutamate transmembrane transporter activity (GO:0005313)|L-glutamine transmembrane transporter activity (GO:0015186)|L-histidine transmembrane transporter activity (GO:0005290)|L-leucine transmembrane transporter activity (GO:0015190)|L-methionine transmembrane transporter activity (GO:0015191)|L-serine transmembrane transporter activity (GO:0015194)			endometrium(1)|large_intestine(2)|lung(6)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	13						AGTTGAGTAACCCTGCACCCA	0.632																																																0													50	46	48					16																	58713827		2198	4300	6498	SO:0001819	synonymous_variant	55238			BC001961	CCDS10800.1	16q21	2013-05-22			ENSG00000103042	ENSG00000103042		"Solute carriers"	25582	protein-coding gene	gene with protein product		614236					Standard	XM_006721229		Approved	FLJ10815	uc002eod.1	Q9NVC3	OTTHUMG00000133491	ENST00000570101.1:c.204G>A	16.37:g.58713827C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q53GJ9|Q9H9I5	Silent	SNP	ENST00000570101.1	37	CCDS10800.1																																																																																				0.632	SLC38A7-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000422206.2	NM_018231		T	58713827	C	T	58713827	2	4	568	1	0	0	0	0	0	0	0	1	14622	494	18	2		2	SLC38A7	16	58713827	Silent	SNP	C	TCGA-DW-7838-01A-11D-2136-08	7540976	58713827	31640926	88	33563										
FAM65A	79567	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	67577079	67577079	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ggaggaggcactgggggcccTaatggctgccctggatgact	17	10	0	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr16:67577079T>A	ENST00000379312.3	+	13	2523	c.2402T>A	c.(2401-2403)cTa>cAa	p.L801Q	FAM65A_ENST00000422602.2_Missense_Mutation_p.L817Q|FAM65A_ENST00000540839.3_Missense_Mutation_p.L817Q|CTD-2012K14.3_ENST00000563083.1_RNA|CTD-2012K14.4_ENST00000564717.1_RNA|FAM65A_ENST00000042381.4_Missense_Mutation_p.L797Q|FAM65A_ENST00000428437.2_Missense_Mutation_p.L811Q	NM_001193522.1|NM_024519.3	NP_001180451.1|NP_078795.2	Q6ZS17	FA65A_HUMAN	family with sequence similarity 65, member A	801						cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)				central_nervous_system(2)|endometrium(3)|kidney(2)|large_intestine(12)|lung(12)|ovary(2)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	39		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		CTGGGGGCCCTAATGGCTGCC	0.642																																																0													17	16	17					16																	67577079		2198	4298	6496	SO:0001583	missense	79567			AK127792	CCDS10840.1, CCDS54026.1, CCDS54027.1, CCDS54028.1	16q22.1	2008-02-05			ENSG00000039523	ENSG00000039523			25836	protein-coding gene	gene with protein product						11572484	Standard	NM_001193522		Approved	FLJ13725	uc010vjp.2	Q6ZS17	OTTHUMG00000137536	ENST00000379312.3:c.2402T>A	16.37:g.67577079T>A	ENSP00000368614:p.Leu801Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DEQ9|B4DIM2|E9PBS3|Q4G0A4|Q7Z5R7|Q8NDA4|Q96J39|Q96PV8|Q9H8D9	Missense_Mutation	SNP	ENST00000379312.3	37	CCDS54028.1	.	.	.	.	.	.	.	.	.	.	T	22.1	4.237952	0.79800	.	.	ENSG00000039523	ENST00000379312;ENST00000042381;ENST00000422602;ENST00000540839	T;T;T	0.49432	0.78;0.78;0.78	5.52	5.52	0.82312	.	0.070064	0.56097	D	0.000022	T	0.67258	0.2874	M	0.72894	2.215	0.09310	N	0.999991	D;D;D;D	0.76494	0.999;0.999;0.999;0.999	D;D;D;D	0.68765	0.96;0.96;0.96;0.96	T	0.63664	-0.6586	10	0.87932	D	0	-9.5432	15.6534	0.77115	0.0:0.0:0.0:1.0	.	811;817;801;817	B4DIM2;E9PBS3;Q6ZS17;B4DEQ9	.;.;FA65A_HUMAN;.	Q	801;797;817;811	ENSP00000368614:L801Q;ENSP00000042381:L797Q;ENSP00000400099:L817Q	ENSP00000042381:L797Q	L	+	2	0	FAM65A	66134580	0.901000	0.30685	0.994000	0.49952	0.920000	0.55202	4.728000	0.62000	2.120000	0.65058	0.454000	0.30748	CTA		0.642	FAM65A-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000268866.3	NM_024519		A	67577079	T	A	67577079	3	1	568	1	0	0	0	0	1	0	0	0	5606	1522	53	5	2436	5	FAM65A	16	67577079	Missense_Mutation	SNP	T	TCGA-DW-7838-01A-11D-2136-08	8863252	67577079	22777674	89	33564										
ZZEF1	23140	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	3919676	3919676	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	cctcacttgcacctccattcCtggctcctccatgaactggc	6	18	1	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr17:3919676C>A	ENST00000381638.2	-	49	8210	c.8086G>T	c.(8086-8088)Gga>Tga	p.G2696*		NM_015113.3	NP_055928.3	O43149	ZZEF1_HUMAN	zinc finger, ZZ-type with EF-hand domain 1	2696							calcium ion binding (GO:0005509)|zinc ion binding (GO:0008270)			central_nervous_system(1)|cervix(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(17)|lung(19)|ovary(3)|pancreas(1)|prostate(3)|skin(8)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(3)	84						ACCTCCATTCCTGGCTCCTCC	0.597																																																0													154	114	127					17																	3919676		2203	4300	6503	SO:0001587	stop_gained	23140			BC035319	CCDS11043.1	17p13.3	2013-01-10	2004-11-03		ENSG00000074755	ENSG00000074755		"Zinc fingers, ZZ-type", "EF-hand domain containing"	29027	protein-coding gene	gene with protein product			"zinc finger, ZZ-type with EF hand domain 1"			9455477	Standard	XM_005256560		Approved	KIAA0399, ZZZ4, FLJ10821	uc002fxe.3	O43149	OTTHUMG00000090741	ENST00000381638.2:c.8086G>T	17.37:g.3919676C>A	ENSP00000371051:p.Gly2696*	Somatic		WXS	Illumina HiSeq	Phase_I	A7MBM5|Q6NXG0|Q6ZRA1|Q6ZSF4|Q9NVB9	Nonsense_Mutation	SNP	ENST00000381638.2	37	CCDS11043.1	.	.	.	.	.	.	.	.	.	.	C	50	17.192008	0.99881	.	.	ENSG00000074755	ENST00000381638	.	.	.	5.79	5.79	0.91817	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.62326	D	0.03	-14.3127	20.0271	0.97525	0.0:1.0:0.0:0.0	.	.	.	.	X	2696	.	ENSP00000371051:G2696X	G	-	1	0	ZZEF1	3866425	1.000000	0.71417	0.961000	0.40146	0.948000	0.59901	7.487000	0.81328	2.744000	0.94065	0.650000	0.86243	GGA		0.597	ZZEF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207480.1	NM_015113		A	3919676	C	A	3919676	4	1	568	1	0	0	0	0	0	1	0	0	18267	690	24	4	827	4	ZZEF1	17	3919676	Nonsense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08		3919676	77275534	90	33565										
ZFP3	124961	hgsc.bcm.edu	37	chr17	4995909	4995909	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ccctatgtatgtaaggaatgTgggaaggccttcagggggaa	15	6	1	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr17:4995909T>C	ENST00000318833.3	+	2	1446	c.1110T>C	c.(1108-1110)tgT>tgC	p.C370C		NM_153018.2	NP_694563.1	Q96NJ6	ZFP3_HUMAN	ZFP3 zinc finger protein	370					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(1)|endometrium(2)|kidney(1)|large_intestine(11)|lung(3)|prostate(1)	20						GTAAGGAATGTGGGAAGGCCT	0.413																																																0													46	48	48					17																	4995909		2203	4300	6503	SO:0001819	synonymous_variant	124961			BX647638	CCDS11067.1	17p13.2	2013-01-08	2012-11-27		ENSG00000180787	ENSG00000180787		"Zinc fingers, C2H2-type"	12861	protein-coding gene	gene with protein product		194480	"zinc finger protein homologous to Zfp-3 in mouse", "zinc finger protein 3 homolog (mouse)"				Standard	NM_153018		Approved	FLJ30726, ZNF752	uc002gaq.3	Q96NJ6		ENST00000318833.3:c.1110T>C	17.37:g.4995909T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A5PLL4	Silent	SNP	ENST00000318833.3	37	CCDS11067.1																																																																																				0.413	ZFP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438979.1	NM_153018		C	4995909	T	C	4995909	2	2	568	1	0	0	0	0	0	0	0	1	17655	1702	59	3		3	ZFP3	17	4995909	Silent	SNP	T	TCGA-DW-7838-01A-11D-2136-08	1076233	4995909	76199301	91	33566										
SOX15	6665	hgsc.bcm.edu	37	chr17	7492829	7492829	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	agcggagctccacaccatgaAcgcgttcatcggccgcttca	10	15	2	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr17:7492829A>G	ENST00000250055.2	-	1	659	c.166T>C	c.(166-168)Ttc>Ctc	p.F56L	SOX15_ENST00000570788.1_Missense_Mutation_p.F56L|SOX15_ENST00000538513.2_Missense_Mutation_p.F56L|MPDU1_ENST00000423172.2_Intron|FXR2_ENST00000573057.1_5'Flank	NM_006942.1	NP_008873.1	O60248	SOX15_HUMAN	SRY (sex determining region Y)-box 15	56					cell differentiation (GO:0030154)|chromatin organization (GO:0006325)|male gonad development (GO:0008584)|myoblast development (GO:0048627)|negative regulation of striated muscle tissue development (GO:0045843)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of G0 to G1 transition (GO:0070318)|positive regulation of myoblast proliferation (GO:2000288)|positive regulation of satellite cell activation involved in skeletal muscle regeneration (GO:0014718)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|skeletal muscle tissue regeneration (GO:0043403)	cytoplasm (GO:0005737)|nuclear transcription factor complex (GO:0044798)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|prostate(1)	2						CACACCATGAACGCGTTCATC	0.687											OREG0024139	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													24	26	25					17																	7492829		2203	4300	6503	SO:0001583	missense	6665			AJ006222	CCDS32549.1	17p13.1	2014-08-12	2002-07-22	2002-07-26	ENSG00000129194	ENSG00000129194		"SRY (sex determining region Y)-boxes"	11196	protein-coding gene	gene with protein product		601297	"SRY (sex determining region Y)-box 20"	SOX20		8978787, 9730625	Standard	NM_006942		Approved	SOX27, SOX26	uc002ghz.1	O60248	OTTHUMG00000178146	ENST00000250055.2:c.166T>C	17.37:g.7492829A>G	ENSP00000355354:p.Phe56Leu	Somatic	642	WXS	Illumina HiSeq	Phase_I	B4DWU7|D3DTQ0|P35717|Q9Y6W7	Missense_Mutation	SNP	ENST00000250055.2	37	CCDS32549.1	.	.	.	.	.	.	.	.	.	.	A	37	6.038607	0.97226	.	.	ENSG00000129194	ENST00000250055;ENST00000538513	D;D	0.99239	-5.61;-5.61	5.38	5.38	0.77491	High mobility group, superfamily (1);High mobility group, HMG1/HMG2 (4);	0.000000	0.56097	D	0.000029	D	0.99606	0.9857	H	0.96777	3.88	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.97827	1.0260	10	0.87932	D	0	.	13.4332	0.61068	1.0:0.0:0.0:0.0	.	56	O60248	SOX15_HUMAN	L	56	ENSP00000355354:F56L;ENSP00000439311:F56L	ENSP00000355354:F56L	F	-	1	0	SOX15	7433553	1.000000	0.71417	0.999000	0.59377	0.995000	0.86356	9.139000	0.94554	2.276000	0.75962	0.454000	0.30748	TTC		0.687	SOX15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440757.1	NM_006942		G	7492829	A	G	7492829	3	3	568	1	0	0	0	0	1	0	0	0	14959	43	2	3	543	3	SOX15	17	7492829	Missense_Mutation	SNP	A	TCGA-DW-7838-01A-11D-2136-08	2496920	7492829	73702381	92	33567										
WIPF2	147179	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	38420795	38420800	+	In_Frame_Del	DEL	CCAAGG	CCAAGG	-													0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ccagttctcgagctgctgccCcaaggcctccagtatctgcc							TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	CCAAGG	CCAAGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr17:38420795_38420800delCCAAGG	ENST00000323571.4	+	5	607_612	c.367_372delCCAAGG	c.(367-372)ccaaggdel	p.PR123del	WIPF2_ENST00000536600.1_Intron|WIPF2_ENST00000583130.1_In_Frame_Del_p.PR123del|WIPF2_ENST00000494757.1_3'UTR|WIPF2_ENST00000394103.3_Intron|WIPF2_ENST00000585043.1_In_Frame_Del_p.PR123del	NM_133264.4	NP_573571.1	Q8TF74	WIPF2_HUMAN	WAS/WASL interacting protein family, member 2	123					Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)		p.R124G(1)		NS(1)|breast(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(6)|ovary(1)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(5)	30						AGCTGCTGCCCCAAGGCCTCCAGTAT	0.573										HNSCC(43;0.11)																																						1	Substitution - Missense(1)	kidney(1)																																								SO:0001651	inframe_deletion	147179			BC025965	CCDS11364.1	17q21.2	2006-10-12			ENSG00000171475	ENSG00000171475			30923	protein-coding gene	gene with protein product		609692				12213210, 11829459	Standard	XM_005257083		Approved	WICH, WIRE	uc002hug.1	Q8TF74	OTTHUMG00000133331	ENST00000323571.4:c.367_372delCCAAGG	17.37:g.38420795_38420800delCCAAGG	ENSP00000320924:p.Pro123_Arg124del	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0L3|Q658J8|Q71RE1|Q8TE44	In_Frame_Del	DEL	ENST00000323571.4	37	CCDS11364.1																																																																																				0.573	WIPF2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257157.2	NM_133264		-	38420800	CCAAGG	-	38420795	7	5	568	1	0	1	0	1	0	0	0	0	17380	623	22	0	381	0	WIPF2	17	38420795	In_Frame_Del	DEL	CCAAGG	TCGA-DW-7838-01A-11D-2136-08	30927966	38420795	42774415	93	33568			1	62		2	2	12	N	CCAAGG_A	4.370524e-05
WIPF2	147179	hgsc.bcm.edu;bcgsc.ca	37	chr17	38420806	38420806	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gctgctgccccaaggcctccAgtatctgccgccagcgggcg	13	17	1	0	rs139121244		TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr17:38420806A>G	ENST00000323571.4	+	5	618	c.378A>G	c.(376-378)ccA>ccG	p.P126P	WIPF2_ENST00000536600.1_Intron|WIPF2_ENST00000583130.1_Silent_p.P126P|WIPF2_ENST00000494757.1_3'UTR|WIPF2_ENST00000394103.3_Intron|WIPF2_ENST00000585043.1_Silent_p.P126P	NM_133264.4	NP_573571.1	Q8TF74	WIPF2_HUMAN	WAS/WASL interacting protein family, member 2	126					Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)				NS(1)|breast(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(6)|ovary(1)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(5)	30						CAAGGCCTCCAGTATCTGCCG	0.582										HNSCC(43;0.11)																																						0										1,4405	2.1+/-5.4	0,1,2202	60	69	66		378	-5.5	0.3	17	dbSNP_134	66	0,8600		0,0,4300	no	coding-synonymous	WIPF2	NM_133264.4		0,1,6502	GG,GA,AA		0.0,0.0227,0.0077		126/441	38420806	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	147179			BC025965	CCDS11364.1	17q21.2	2006-10-12			ENSG00000171475	ENSG00000171475			30923	protein-coding gene	gene with protein product		609692				12213210, 11829459	Standard	XM_005257083		Approved	WICH, WIRE	uc002hug.1	Q8TF74	OTTHUMG00000133331	ENST00000323571.4:c.378A>G	17.37:g.38420806A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0L3|Q658J8|Q71RE1|Q8TE44	Silent	SNP	ENST00000323571.4	37	CCDS11364.1																																																																																				0.582	WIPF2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257157.2	NM_133264		G	38420806	A	G	38420806	2	3	568	1	0	0	0	0	0	0	0	1	17380	175	7	3		3	WIPF2	17	38420806	Silent	SNP	A	TCGA-DW-7838-01A-11D-2136-08	11	38420806	42774404	94	33569			1	62		2	2	12	N	CCAAGG_A	4.370524e-05
KRT37	8688	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	39577782	39577782	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	aatgaggctctgcatctgggCcagctctgtgccgtagcggt	14	11	3	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr17:39577782C>G	ENST00000225550.3	-	6	1077	c.1078G>C	c.(1078-1080)Gcc>Ccc	p.A360P	AC003958.2_ENST00000432258.1_RNA	NM_003770.4	NP_003761.3	O76014	KRT37_HUMAN	keratin 37	360	Coil 2.|Rod.					extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)	structural molecule activity (GO:0005198)			NS(1)|breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(9)|lung(6)|skin(3)	25		Breast(137;0.000496)				TGCATCTGGGCCAGCTCTGTG	0.567																																																0													66	63	64					17																	39577782		2203	4300	6503	SO:0001583	missense	8688			Y16793	CCDS32653.1	17q21.2	2013-06-20	2006-07-17	2006-07-17	ENSG00000108417	ENSG00000108417		"-", "Intermediate filaments type I, keratins (acidic)"	6455	protein-coding gene	gene with protein product		604541	"keratin, hair, acidic, 7"	KRTHA7		9756910, 16831889	Standard	NM_003770		Approved		uc002hwp.1	O76014	OTTHUMG00000133606	ENST00000225550.3:c.1078G>C	17.37:g.39577782C>G	ENSP00000225550:p.Ala360Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000225550.3	37	CCDS32653.1	.	.	.	.	.	.	.	.	.	.	C	16.14	3.037494	0.54896	.	.	ENSG00000108417	ENST00000225550	T	0.14640	2.49	5.44	2.17	0.27698	Filament (1);	0.000000	0.49305	D	0.000155	T	0.32763	0.0840	H	0.96861	3.895	0.28206	N	0.92715	B	0.34349	0.45	B	0.37239	0.244	T	0.42582	-0.9443	10	0.66056	D	0.02	.	13.3764	0.60741	0.5453:0.4547:0.0:0.0	.	360	O76014	KRT37_HUMAN	P	360	ENSP00000225550:A360P	ENSP00000225550:A360P	A	-	1	0	KRT37	36831308	0.000000	0.05858	1.000000	0.80357	0.990000	0.78478	-0.196000	0.09532	0.197000	0.20387	0.655000	0.94253	GCC		0.567	KRT37-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257714.2	NM_003770		G	39577782	C	G	39577782	3	3	568	1	0	0	0	0	1	0	0	0	8481	739	26	4	279	4	KRT37	17	39577782	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	1156976	39577782	41617428	95	33570										
SCRN2	90507	broad.mit.edu	37	chr17	45916884	45916884	+	Frame_Shift_Del	DEL	A	A	-													0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	cagtgcggtcagccagcaggAaggtgctatggtaggagaat							TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr17:45916884delA	ENST00000290216.9	-	4	607	c.482delT	c.(481-483)ttcfs	p.F161fs	SCRN2_ENST00000407215.3_Frame_Shift_Del_p.F161fs|SCRN2_ENST00000584123.1_Frame_Shift_Del_p.F169fs	NM_001145023.1|NM_138355.3	NP_001138495.1|NP_612364.2	Q96FV2	SCRN2_HUMAN	secernin 2	161						extracellular vesicular exosome (GO:0070062)	dipeptidase activity (GO:0016805)			cervix(1)|kidney(2)|large_intestine(2)|lung(7)|ovary(1)|skin(1)	14						AGCCAGCAGGAAGGTGCTATG	0.617																																																0													106	99	102					17																	45916884		2203	4300	6503	SO:0001589	frameshift_variant	90507			BC002980	CCDS11519.1, CCDS45723.1	17q21	2008-02-05							30381	protein-coding gene	gene with protein product		614966				12221138	Standard	NM_001145023		Approved		uc002imd.3	Q96FV2		ENST00000290216.9:c.482delT	17.37:g.45916884delA	ENSP00000290216:p.Phe161fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3N1|B7Z8S7|E9PBV5|Q96AC3|Q9BU04	Frame_Shift_Del	DEL	ENST00000290216.9	37	CCDS11519.1																																																																																				0.617	SCRN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441383.1	NM_138355		-	45916884	A	-	45916884	7	5	568	1	0	1	0	1	0	0	0	0	13952	246	9	0	833	0	SCRN2	17	45916884	Frame_Shift_Del	DEL	A	TCGA-DW-7838-01A-11D-2136-08	6339102	45916884	35278326	96	33571										
MED13	9969	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	60023946	60023946	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	agccaggagagtgcattgtaCtgttccaaaacaaacctgaa	9	9	0	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr17:60023946C>G	ENST00000397786.2	-	30	6484	c.6408G>C	c.(6406-6408)caG>caC	p.Q2136H		NM_005121.2	NP_005112.2	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	2136					androgen receptor signaling pathway (GO:0030521)|gene expression (GO:0010467)|intracellular steroid hormone receptor signaling pathway (GO:0030518)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription initiation from RNA polymerase II promoter (GO:0006367)	mediator complex (GO:0016592)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|receptor activity (GO:0004872)|RNA polymerase II transcription cofactor activity (GO:0001104)|thyroid hormone receptor binding (GO:0046966)|transcription coactivator activity (GO:0003713)|transcription cofactor activity (GO:0003712)|vitamin D receptor binding (GO:0042809)			breast(4)|central_nervous_system(1)|endometrium(10)|kidney(24)|large_intestine(15)|liver(1)|lung(20)|ovary(1)|prostate(3)|skin(2)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	88						GTGCATTGTACTGTTCCAAAA	0.378																																																0													79	74	76					17																	60023946		1866	4104	5970	SO:0001583	missense	9969			AB011165	CCDS42366.1	17q22-q23	2007-07-30	2007-07-30	2007-07-30		ENSG00000108510			22474	protein-coding gene	gene with protein product		603808	"thyroid hormone receptor associated protein 1"	THRAP1		1019863	Standard	NM_005121		Approved	KIAA0593, TRAP240	uc002izo.3	Q9UHV7		ENST00000397786.2:c.6408G>C	17.37:g.60023946C>G	ENSP00000380888:p.Gln2136His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RU05|O60334	Missense_Mutation	SNP	ENST00000397786.2	37	CCDS42366.1	.	.	.	.	.	.	.	.	.	.	C	14.58	2.576706	0.45902	.	.	ENSG00000108510	ENST00000397786;ENST00000262436	D	0.83837	-1.77	4.99	4.99	0.66335	.	0.000000	0.85682	D	0.000000	D	0.90748	0.7096	M	0.75447	2.3	0.80722	D	1	D	0.67145	0.996	D	0.81914	0.995	D	0.90884	0.4756	10	0.48119	T	0.1	-4.4995	18.2754	0.90081	0.0:1.0:0.0:0.0	.	2136	Q9UHV7	MED13_HUMAN	H	2136;2135	ENSP00000380888:Q2136H	ENSP00000262436:Q2135H	Q	-	3	2	MED13	57378728	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.403000	0.79983	2.315000	0.78130	0.591000	0.81541	CAG		0.378	MED13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445461.1	NM_005121		G	60023946	C	G	60023946	3	3	568	1	0	0	0	0	1	0	0	0	9437	564	20	4	120	4	MED13	17	60023946	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	14107062	60023946	21171264	97	33572										
RNF157	114804	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	74163165	74163165	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tgacacactcctcgcttgtaCtgcacagtctccgactggag	9	14	1	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr17:74163165C>A	ENST00000269391.6	-	5	618	c.486G>T	c.(484-486)caG>caT	p.Q162H	RNF157_ENST00000319945.6_Missense_Mutation_p.Q162H	NM_052916.2	NP_443148.1	Q96PX1	RN157_HUMAN	ring finger protein 157	162							zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|cervix(1)|large_intestine(3)|lung(12)|ovary(2)|prostate(1)|skin(1)|stomach(2)|urinary_tract(1)	25			LUSC - Lung squamous cell carcinoma(166;0.187)			CTCGCTTGTACTGCACAGTCT	0.567																																					GBM(186;507 2120 27388 27773 52994)											0													127	114	118					17																	74163165		2203	4300	6503	SO:0001583	missense	114804			AK091467	CCDS32740.1	17q25.3	2004-02-27			ENSG00000141576	ENSG00000141576		"RING-type (C3HC4) zinc fingers"	29402	protein-coding gene	gene with protein product						11572484	Standard	NM_052916		Approved	KIAA1917	uc002jqz.3	Q96PX1	OTTHUMG00000132627	ENST00000269391.6:c.486G>T	17.37:g.74163165C>A	ENSP00000269391:p.Gln162His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NB72|Q96N56	Missense_Mutation	SNP	ENST00000269391.6	37	CCDS32740.1	.	.	.	.	.	.	.	.	.	.	C	4.577	0.107271	0.08780	.	.	ENSG00000141576	ENST00000269391;ENST00000319945;ENST00000301610	T;T	0.27890	1.64;1.64	5.43	2.38	0.29361	.	0.131468	0.64402	N	0.000001	T	0.05593	0.0147	N	0.00152	-1.975	0.80722	D	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.40757	-0.9546	10	0.02654	T	1	-4.6639	10.0104	0.41984	0.0971:0.1243:0.7785:0.0	.	162;162	Q96PX1-2;Q96PX1	.;RN157_HUMAN	H	162;162;124	ENSP00000269391:Q162H;ENSP00000321837:Q162H	ENSP00000269391:Q162H	Q	-	3	2	RNF157	71674760	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	0.577000	0.23758	0.271000	0.22005	-0.128000	0.14901	CAG		0.567	RNF157-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255874.2	XM_290732		A	74163165	C	A	74163165	3	1	568	1	0	0	0	0	1	0	0	0	13467	564	20	4	1613	4	RNF157	17	74163165	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08	14139219	74163165	7032045	98	33573										
BIRC5	332	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	76212806	76212806	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ctgtcaagaagcagtttgaaGaattaacccttggtgaattt	9	6	1	4			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr17:76212806G>A	ENST00000350051.3	+	3	402	c.283G>A	c.(283-285)Gaa>Aaa	p.E95K	BIRC5_ENST00000301633.4_Missense_Mutation_p.E118K|BIRC5_ENST00000374948.2_Intron|AC087645.1_ENST00000600484.1_Missense_Mutation_p.S264F|BIRC5_ENST00000589892.1_3'UTR|BIRC5_ENST00000592734.1_Intron	NM_001168.2	NP_001159.2	O15392	BIRC5_HUMAN	baculoviral IAP repeat containing 5	95					apoptotic process (GO:0006915)|cell division (GO:0051301)|chromosome segregation (GO:0007059)|cytokinesis (GO:0000910)|establishment of chromosome localization (GO:0051303)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)|positive regulation of exit from mitosis (GO:0031536)|positive regulation of mitotic cell cycle (GO:0045931)|protein complex localization (GO:0031503)|protein phosphorylation (GO:0006468)|spindle checkpoint (GO:0031577)|transcription, DNA-templated (GO:0006351)	centriole (GO:0005814)|chromosome passenger complex (GO:0032133)|chromosome, centromeric region (GO:0000775)|condensed chromosome kinetochore (GO:0000777)|cytoplasm (GO:0005737)|cytoplasmic microtubule (GO:0005881)|cytosol (GO:0005829)|interphase microtubule organizing center (GO:0031021)|microtubule (GO:0005874)|midbody (GO:0030496)|nuclear chromosome (GO:0000228)|nucleus (GO:0005634)|spindle microtubule (GO:0005876)	chaperone binding (GO:0051087)|cobalt ion binding (GO:0050897)|cofactor binding (GO:0048037)|cysteine-type endopeptidase inhibitor activity (GO:0004869)|cysteine-type endopeptidase inhibitor activity involved in apoptotic process (GO:0043027)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|microtubule binding (GO:0008017)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|Ran GTPase binding (GO:0008536)|tubulin binding (GO:0015631)|zinc ion binding (GO:0008270)			kidney(1)|urinary_tract(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|OV - Ovarian serous cystadenocarcinoma(97;0.153)			GCAGTTTGAAGAATTAACCCT	0.398																																																0													72	79	77					17																	76212806		2203	4300	6503	SO:0001583	missense	332			U75285	CCDS11755.1, CCDS32751.1, CCDS32752.1	17q25.3	2013-01-17	2011-01-25		ENSG00000089685	ENSG00000089685		"Baculoviral IAP repeat containing"	593	protein-coding gene	gene with protein product	"survivin variant 3 alpha"	603352	"apoptosis inhibitor 4", "baculoviral IAP repeat-containing 5"	API4		8106347, 7947793	Standard	XR_243654		Approved	EPR-1, survivin	uc002jvf.3	O15392		ENST00000350051.3:c.283G>A	17.37:g.76212806G>A	ENSP00000324180:p.Glu95Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A2SUH6|B2R4R1|Q2I3N8|Q4VGX0|Q53F61|Q5MGC6|Q6FHL2|Q75SP2|Q9P2W8	Missense_Mutation	SNP	ENST00000350051.3	37	CCDS11755.1	.	.	.	.	.	.	.	.	.	.	G	23.8	4.456362	0.84317	.	.	ENSG00000089685	ENST00000301633;ENST00000350051;ENST00000432014	T;T	0.03920	3.76;3.76	5.62	5.62	0.85841	Baculoviral inhibition of apoptosis protein repeat (1);	0.384181	0.30762	N	0.008935	T	0.07728	0.0194	L	0.59436	1.845	0.80722	D	1	B;B;B;P	0.50617	0.18;0.118;0.415;0.937	B;B;B;B	0.39590	0.053;0.036;0.202;0.304	T	0.18335	-1.0340	10	0.40728	T	0.16	-19.2617	17.1223	0.86705	0.0:0.0:1.0:0.0	.	95;95;118;95	O15392-4;O15392;O15392-2;A3E0Z5	.;BIRC5_HUMAN;.;.	K	118;95;118	ENSP00000301633:E118K;ENSP00000324180:E95K	ENSP00000301633:E118K	E	+	1	0	BIRC5	73724401	1.000000	0.71417	0.995000	0.50966	0.987000	0.75469	4.796000	0.62496	2.648000	0.89879	0.462000	0.41574	GAA		0.398	BIRC5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437231.2	NM_001168		A	76212806	G	A	76212806	3	1	568	1	0	0	0	0	1	0	0	0	1437	943	33	2	366	2	BIRC5	17	76212806	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	2049641	76212806	4982404	99	33574										
APCDD1	147495	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	10471914	10471914	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tttgccatgcatgaacttcaGctcatccgggtggagaagca	11	10	2	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr18:10471914G>A	ENST00000355285.5	+	3	984	c.630G>A	c.(628-630)caG>caA	p.Q210Q	APCDD1_ENST00000578882.1_Intron	NM_153000.4	NP_694545.1			adenomatosis polyposis coli down-regulated 1											NS(1)|breast(1)|endometrium(3)|large_intestine(5)|lung(7)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	22				READ - Rectum adenocarcinoma(15;0.08)		ATGAACTTCAGCTCATCCGGG	0.582																																																0													145	132	136					18																	10471914		2203	4300	6503	SO:0001819	synonymous_variant	147495			AB056722	CCDS11849.1	18p11.21	2006-07-07			ENSG00000154856	ENSG00000154856			15718	protein-coding gene	gene with protein product		607479				12384519	Standard	NM_153000		Approved	B7323	uc002kom.4	Q8J025	OTTHUMG00000131635	ENST00000355285.5:c.630G>A	18.37:g.10471914G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000355285.5	37	CCDS11849.1																																																																																				0.582	APCDD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254529.2	NM_153000		A	10471914	G	A	10471914	2	1	568	1	0	0	0	0	0	0	0	1	765	962	34	2		2	APCDD1	18	10471914	Silent	SNP	G	TCGA-DW-7838-01A-11D-2136-08		10471914	67605334	100	33575										
CEP192	55125	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	13071144	13071144	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tgtcacctggaccttgcttaGatattccatcgattttgtcc	7	11	1	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr18:13071144G>T	ENST00000325971.8	+	26	5086	c.3493G>T	c.(3493-3495)Gat>Tat	p.D1165Y	CEP192_ENST00000506447.1_Missense_Mutation_p.D1761Y|CEP192_ENST00000430049.2_Missense_Mutation_p.D1286Y			Q8TEP8	CE192_HUMAN	centrosomal protein 192kDa	1165					centrosome duplication (GO:0051298)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|negative regulation of phosphatase activity (GO:0010923)|spindle assembly (GO:0051225)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)	phosphatase binding (GO:0019902)			NS(1)|breast(4)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(12)|lung(36)|ovary(4)|pancreas(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	71						ACCTTGCTTAGATATTCCATC	0.423																																																0													110	110	110					18																	13071144		2203	4300	6503	SO:0001583	missense	55125			AK074074	CCDS32792.1, CCDS32792.2	18p11.21	2014-02-20				ENSG00000101639		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	25515	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 62"					11230166, 14654843	Standard	NM_032142		Approved	KIAA1569, FLJ10352, PPP1R62	uc010xac.2	Q8TEP8		ENST00000325971.8:c.3493G>T	18.37:g.13071144G>T	ENSP00000317156:p.Asp1165Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A0A060A9S4|E9PF99|Q8WYT8|Q9H0F4|Q9NW27	Missense_Mutation	SNP	ENST00000325971.8	37		.	.	.	.	.	.	.	.	.	.	G	17.34	3.365339	0.61513	.	.	ENSG00000101639	ENST00000506447;ENST00000325971;ENST00000399863;ENST00000430049	T;T;T	0.47869	0.83;0.83;0.83	5.35	3.54	0.40534	.	0.121003	0.53938	D	0.000055	T	0.64875	0.2638	M	0.73962	2.25	0.58432	D	0.999998	B;D;B	0.89917	0.368;1.0;0.328	B;D;B	0.79108	0.091;0.992;0.104	T	0.67692	-0.5605	10	0.87932	D	0	-11.9129	9.8383	0.40982	0.0725:0.0:0.7869:0.1406	.	1286;1761;363	C9JT09;E9PF99;Q9HCK3	.;.;.	Y	1761;1165;1165;1286	ENSP00000427550:D1761Y;ENSP00000317156:D1165Y;ENSP00000389190:D1286Y	ENSP00000317156:D1165Y	D	+	1	0	CEP192	13061144	1.000000	0.71417	0.650000	0.29550	0.606000	0.37113	3.512000	0.53407	1.230000	0.43646	0.650000	0.86243	GAT		0.423	CEP192-201	KNOWN	basic	protein_coding	protein_coding		NM_032142		T	13071144	G	T	13071144	3	4	568	1	0	0	0	0	1	0	0	0	3253	942	33	4	5387	4	CEP192	18	13071144	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	2599230	13071144	65006104	101	33576										
ZNF519	162655	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	14105675	14105675	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ttacatttgtaaggtttctcTccagtatgaattttctgatg	7	6	2	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr18:14105675T>C	ENST00000590202.1	-	3	1016	c.864A>G	c.(862-864)ggA>ggG	p.G288G	RP11-411B10.3_ENST00000592926.1_RNA|ZNF519_ENST00000589498.1_Intron|ZNF519_ENST00000589203.1_Intron	NM_145287.3	NP_660330.2	Q8TB69	ZN519_HUMAN	zinc finger protein 519	288					negative regulation of transcription during meiosis (GO:0051038)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|endometrium(1)|kidney(1)|large_intestine(4)|lung(9)|urinary_tract(1)	18						AAGGTTTCTCTCCAGTATGAA	0.363																																																0													49	53	52					18																	14105675		2203	4299	6502	SO:0001819	synonymous_variant	162655			BC024227	CCDS32797.1	18p11.21	2014-06-18			ENSG00000175322	ENSG00000175322		"Zinc fingers, C2H2-type", "-"	30574	protein-coding gene	gene with protein product	"similar to Zinc finger protein 85 (Zinc finger protein HPF4) (HTF1)"					12477932	Standard	NM_145287		Approved	HsT2362, FLJ36809	uc002kst.2	Q8TB69	OTTHUMG00000182055	ENST00000590202.1:c.864A>G	18.37:g.14105675T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000590202.1	37	CCDS32797.1																																																																																				0.363	ZNF519-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459037.1	NM_145287		C	14105675	T	C	14105675	2	2	568	1	0	0	0	0	0	0	0	1	17976	1538	54	3		3	ZNF519	18	14105675	Silent	SNP	T	TCGA-DW-7838-01A-11D-2136-08	1034531	14105675	63971573	102	33577										
LAMA3	3909	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	21451430	21451430	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gccagcagccgtgccccagtGtctagggaggagctgatgac	15	12	1	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr18:21451430G>T	ENST00000313654.9	+	38	5044	c.4803G>T	c.(4801-4803)gtG>gtT	p.V1601V	LAMA3_ENST00000587184.1_5'Flank|LAMA3_ENST00000399516.3_Silent_p.V1601V|LAMA3_ENST00000269217.6_5'Flank	NM_198129.1	NP_937762.1	Q16787	LAMA3_HUMAN	laminin, alpha 3	1601	Laminin IV type A. {ECO:0000255|PROSITE- ProRule:PRU00458}.				cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|endodermal cell differentiation (GO:0035987)|epidermis development (GO:0008544)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of embryonic development (GO:0045995)	basement membrane (GO:0005604)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)|laminin-5 complex (GO:0005610)	structural molecule activity (GO:0005198)			NS(2)|breast(4)|central_nervous_system(3)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(24)|lung(54)|ovary(8)|prostate(6)|skin(7)|urinary_tract(4)	128	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)					GTGCCCCAGTGTCTAGGGAGG	0.552																																																0													66	69	68					18																	21451430		2040	4193	6233	SO:0001819	synonymous_variant	3909			L34155	CCDS11880.1, CCDS42419.1, CCDS45838.1, CCDS59307.1	18q11.2	2013-03-01	2002-08-29		ENSG00000053747	ENSG00000053747		"Laminins"	6483	protein-coding gene	gene with protein product		600805	"laminin, alpha 3 (nicein (150kD), kalinin (165kD), BM600 (150kD), epilegrin)"	LAMNA		8077230	Standard	NM_000227		Approved	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin	uc002kuq.3	Q16787	OTTHUMG00000131874	ENST00000313654.9:c.4803G>T	18.37:g.21451430G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ33|Q13679|Q13680|Q6VU67|Q6VU68|Q6VU69|Q76E14|Q96TG0	Silent	SNP	ENST00000313654.9	37	CCDS42419.1																																																																																				0.552	LAMA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254824.3	NM_000227, NM_198129		T	21451430	G	T	21451430	2	4	568	1	0	0	0	0	0	0	0	1	8614	1364	48	4		4	LAMA3	18	21451430	Silent	SNP	G	TCGA-DW-7838-01A-11D-2136-08	7345755	21451430	56625818	103	33578										
ZNF521	25925	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	22805629	22805629	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ttgcaagatgtgcacctataGactttcttttcgttactgtg	8	8	1	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr18:22805629G>C	ENST00000361524.3	-	4	2401	c.2253C>G	c.(2251-2253)gtC>gtG	p.V751V	ZNF521_ENST00000538137.2_Silent_p.V751V|ZNF521_ENST00000584787.1_Silent_p.V531V|ZNF521_ENST00000579111.1_5'Flank	NM_015461.2	NP_056276.1	Q96K83	ZN521_HUMAN	zinc finger protein 521	751					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|protein domain specific binding (GO:0019904)			NS(1)|breast(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(21)|lung(97)|ovary(5)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	149	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					TGCACCTATAGACTTTCTTTT	0.468			T	PAX5	ALL																																		Dom	yes		18	18q11.2	25925	zinc finger protein 521		L	0													75	71	72					18																	22805629		2203	4300	6503	SO:0001819	synonymous_variant	25925			AK027354	CCDS32806.1	18q11.2	2013-01-08				ENSG00000198795		"Zinc fingers, C2H2-type"	24605	protein-coding gene	gene with protein product	"early hematopoietic zinc finger"	610974				11984006, 14630787	Standard	NM_015461		Approved	EHZF, Evi3	uc002kvk.2	Q96K83		ENST00000361524.3:c.2253C>G	18.37:g.22805629G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A3QVP7|B0YJB7|Q8IXI0|Q8TES6|Q9C065|Q9HAL5|Q9UFK4	Silent	SNP	ENST00000361524.3	37	CCDS32806.1																																																																																				0.468	ZNF521-001	KNOWN	overlapping_uORF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000446781.2	NM_015461		C	22805629	G	C	22805629	2	2	568	1	0	0	0	0	0	0	0	1	17977	929	33	4		4	ZNF521	18	22805629	Silent	SNP	G	TCGA-DW-7838-01A-11D-2136-08	1354199	22805629	55271619	104	33579										
KIAA1328	57536	broad.mit.edu	37	chr18	34802114	34802114	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	cagtcctctaaaatcaacccGgaagaagatggggatgcaca	10	10	2	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr18:34802114G>C	ENST00000280020.5	+	10	1680	c.1658G>C	c.(1657-1659)cGg>cCg	p.R553P	KIAA1328_ENST00000591619.1_Missense_Mutation_p.R549P|KIAA1328_ENST00000543923.1_Intron|KIAA1328_ENST00000586135.1_3'UTR	NM_020776.1	NP_065827.1	Q86T90	K1328_HUMAN	KIAA1328	553										central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(5)|skin(2)|upper_aerodigestive_tract(1)	14				COAD - Colon adenocarcinoma(74;0.195)		AAATCAACCCGGAAGAAGATG	0.463																																																0													32	30	31					18																	34802114		1845	4092	5937	SO:0001583	missense	57536			AB037749	CCDS45855.1	18q12.2	2011-12-12			ENSG00000150477	ENSG00000150477			29248	protein-coding gene	gene with protein product						10718198	Standard	XM_005258317		Approved		uc002kzz.3	Q86T90		ENST00000280020.5:c.1658G>C	18.37:g.34802114G>C	ENSP00000280020:p.Arg553Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q05DL0|Q49AG6|Q9P2L8	Missense_Mutation	SNP	ENST00000280020.5	37	CCDS45855.1	.	.	.	.	.	.	.	.	.	.	G	5.413	0.261419	0.10239	.	.	ENSG00000150477	ENST00000280020;ENST00000383055	T	0.46819	0.86	5.93	5.93	0.95920	.	0.517672	0.19767	N	0.106536	T	0.38427	0.1040	N	0.08118	0	0.46954	D	0.999262	P;D	0.58268	0.721;0.982	P;P	0.51999	0.567;0.687	T	0.20505	-1.0273	10	0.34782	T	0.22	.	12.7607	0.57363	0.077:0.0:0.923:0.0	.	553;553	A8K8C3;Q86T90	.;K1328_HUMAN	P	553	ENSP00000280020:R553P	ENSP00000280020:R553P	R	+	2	0	KIAA1328	33056112	0.994000	0.37717	0.943000	0.38184	0.043000	0.13939	3.760000	0.55235	2.814000	0.96858	0.591000	0.81541	CGG		0.463	KIAA1328-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440455.1	NM_020776		C	34802114	G	C	34802114	3	2	568	1	0	0	0	0	1	0	0	0	8232	1116	39	4	1696	4	KIAA1328	18	34802114	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	11996485	34802114	43275134	105	33580										
ZNF430	80264	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	21240780	21240780	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ctttcaaccagtcctcaaacCttattgaacaaagtaattca	3	11	3	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr19:21240780C>G	ENST00000261560.5	+	5	1847	c.1666C>G	c.(1666-1668)Ctt>Gtt	p.L556V	AC012627.1_ENST00000578233.1_RNA	NM_001172671.1|NM_025189.3	NP_001166142.1|NP_079465.3	Q9H8G1	ZN430_HUMAN	zinc finger protein 430	556					regulation of transcription, DNA-templated (GO:0006355)|substantia nigra development (GO:0021762)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(8)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	23						GTCCTCAAACCTTATTGAACA	0.383																																																0													36	41	40					19																	21240780		2182	4285	6467	SO:0001583	missense	80264			AK023721	CCDS32978.1	19p12	2013-01-08				ENSG00000118620		"Zinc fingers, C2H2-type", "-"	20808	protein-coding gene	gene with protein product							Standard	NM_025189		Approved	FLJ13659	uc002npj.3	Q9H8G1		ENST00000261560.5:c.1666C>G	19.37:g.21240780C>G	ENSP00000261560:p.Leu556Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q86V70	Missense_Mutation	SNP	ENST00000261560.5	37	CCDS32978.1	.	.	.	.	.	.	.	.	.	.	.	7.976	0.750166	0.15778	.	.	ENSG00000118620	ENST00000261560	T	0.68331	-0.32	1.01	1.01	0.19927	Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.81341	0.4802	M	0.88105	2.93	0.09310	N	1	D;P	0.57571	0.98;0.457	D;B	0.68353	0.957;0.329	T	0.68685	-0.5343	9	0.87932	D	0	.	8.8921	0.35441	0.0:1.0:0.0:0.0	.	555;556	Q2NKJ9;Q9H8G1	.;ZN430_HUMAN	V	556	ENSP00000261560:L556V	ENSP00000261560:L556V	L	+	1	0	ZNF430	21032620	0.000000	0.05858	0.014000	0.15608	0.014000	0.08584	-0.502000	0.06390	0.453000	0.26858	0.456000	0.33151	CTT		0.383	ZNF430-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463539.1	NM_025189		G	21240780	C	G	21240780	3	3	568	1	0	0	0	0	1	0	0	0	17916	681	24	4	1684	4	ZNF430	19	21240780	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08		21240780	37888203	106	33581										
DPY19L3	147991	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	32930113	32930113	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	agcagcaattacatatttccTgagaccaaacttacagcctc	5	12	0	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr19:32930113T>G	ENST00000342179.5	+	7	907	c.692T>G	c.(691-693)cTg>cGg	p.L231R	DPY19L3_ENST00000392250.2_Missense_Mutation_p.L231R|DPY19L3_ENST00000586987.1_Missense_Mutation_p.L231R	NM_207325.2	NP_997208.2	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3 (C. elegans)	231						integral component of membrane (GO:0016021)	transferase activity, transferring glycosyl groups (GO:0016757)			breast(1)|endometrium(1)|kidney(3)|large_intestine(5)|lung(17)|ovary(4)|pancreas(1)	32	Esophageal squamous(110;0.162)					ACATATTTCCTGAGACCAAAC	0.363																																																0													133	131	132					19																	32930113		2203	4300	6503	SO:0001583	missense	147991				CCDS12422.1	19q13.11	2008-02-05				ENSG00000178904			27120	protein-coding gene	gene with protein product		613894					Standard	NM_207325		Approved		uc002ntg.3	Q6ZPD9		ENST00000342179.5:c.692T>G	19.37:g.32930113T>G	ENSP00000344937:p.Leu231Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DC7|Q6ZTB7|Q6ZTS2	Missense_Mutation	SNP	ENST00000342179.5	37	CCDS12422.1	.	.	.	.	.	.	.	.	.	.	T	22.8	4.333525	0.81801	.	.	ENSG00000178904	ENST00000392250;ENST00000319326;ENST00000342179	T;T	0.65549	-0.16;-0.16	5.66	5.66	0.87406	.	0.075638	0.53938	D	0.000041	T	0.81331	0.4800	M	0.84683	2.71	0.53005	D	0.99996	D	0.76494	0.999	D	0.76575	0.988	D	0.84659	0.0705	10	0.87932	D	0	-8.1242	15.8965	0.79338	0.0:0.0:0.0:1.0	.	231	Q6ZPD9	D19L3_HUMAN	R	231	ENSP00000376081:L231R;ENSP00000344937:L231R	ENSP00000315672:L231R	L	+	2	0	DPY19L3	37621953	1.000000	0.71417	1.000000	0.80357	0.964000	0.63967	7.816000	0.86201	2.163000	0.67991	0.460000	0.39030	CTG		0.363	DPY19L3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450311.1	NM_207325		G	32930113	T	G	32930113	3	3	568	1	0	0	0	0	1	0	0	0	4744	1580	55	5	714	5	DPY19L3	19	32930113	Missense_Mutation	SNP	T	TCGA-DW-7838-01A-11D-2136-08	11689333	32930113	26198870	107	33582										
SERTAD1	29950	hgsc.bcm.edu;ucsc.edu	37	chr19	40928862	40928862	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	cttgcccggcccatcctcagGgcctggtttgaggccctcag	12	16	2	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr19:40928862G>A	ENST00000357949.4	-	2	750	c.592C>T	c.(592-594)Cct>Tct	p.P198S		NM_013376.3	NP_037508.2	Q9UHV2	SRTD1_HUMAN	SERTA domain containing 1	198					positive regulation of cell proliferation (GO:0008284)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|transcription, DNA-templated (GO:0006351)					endometrium(2)|lung(1)|prostate(1)|skin(1)	5			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CCATCCTCAGGGCCTGGTTTG	0.582																																																0													25	22	23					19																	40928862		2203	4300	6503	SO:0001583	missense	29950			AF117959	CCDS12557.1	19q13.1-q13.2	2008-02-05				ENSG00000197019			17932	protein-coding gene	gene with protein product	"CDK4-binding protein p34SEI", "transcriptional regulator interacting with the PHD-bromodomain 1"					6434876, 10580009	Standard	NM_013376		Approved	SEI1, TRIP-Br1	uc002ont.4	Q9UHV2		ENST00000357949.4:c.592C>T	19.37:g.40928862G>A	ENSP00000350633:p.Pro198Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BUE7	Missense_Mutation	SNP	ENST00000357949.4	37	CCDS12557.1	.	.	.	.	.	.	.	.	.	.	G	4.055	0.007937	0.07866	.	.	ENSG00000197019	ENST00000357949	T	0.45668	0.89	5.3	1.48	0.22813	.	0.429768	0.23577	N	0.046681	T	0.16471	0.0396	N	0.11064	0.09	0.09310	N	0.99999	B	0.10296	0.003	B	0.06405	0.002	T	0.29941	-0.9995	10	0.02654	T	1	6.2956	6.6333	0.22869	0.2439:0.1426:0.6135:0.0	.	198	Q9UHV2	SRTD1_HUMAN	S	198	ENSP00000350633:P198S	ENSP00000350633:P198S	P	-	1	0	SERTAD1	45620702	0.995000	0.38212	0.483000	0.27378	0.010000	0.07245	2.607000	0.46300	0.623000	0.30267	-0.314000	0.08810	CCT		0.582	SERTAD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462571.1	NM_013376		A	40928862	G	A	40928862	3	1	568	1	0	0	0	0	1	0	0	0	14133	1232	43	2	122	2	SERTAD1	19	40928862	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	7998749	40928862	18200121	108	33583										
CD177	57126	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	43858482	43858482	+	RNA	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ctacaccttcgtgtgccgccAggaggacttctgcaacaacc	9	15	1	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr19:43858482A>G	ENST00000607517.1	+	0	373				CD177_ENST00000378012.2_RNA|CD177_ENST00000378009.4_RNA			Q8N6Q3	CD177_HUMAN	CD177 molecule						blood coagulation (GO:0007596)|leukocyte migration (GO:0050900)	anchored component of membrane (GO:0031225)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)				central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(2)	5		Prostate(69;0.00682)				GTGTGCCGCCAGGAGGACTTC	0.682																																																0													63	70	68					19																	43858482		1963	4126	6089			57126			AF146747	CCDS62700.1	19q13.31	2013-10-02	2006-03-28		ENSG00000204936	ENSG00000204936		"CD molecules"	30072	protein-coding gene	gene with protein product	"polycythemia rubra vera 1"	162860	"CD177 antigen"			10753836, 5552408	Standard	NM_020406		Approved	PRV1, HNA2A, NB1	uc002owi.3	Q8N6Q3	OTTHUMG00000185320		19.37:g.43858482A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q711Q2|Q8NCV9|Q96QH1|Q9HDA5	Missense_Mutation	SNP	ENST00000607517.1	37		.	.	.	.	.	.	.	.	.	.	a	1.488	-0.555479	0.03967	.	.	ENSG00000204936	ENST00000378009;ENST00000378012;ENST00000457794	T;T;T	0.14022	3.11;2.54;2.54	3.05	0.928	0.19443	.	.	.	.	.	T	0.07324	0.0185	N	0.22421	0.69	0.09310	N	1	B	0.28636	0.218	B	0.24006	0.05	T	0.36311	-0.9753	9	0.32370	T	0.25	.	3.442	0.07466	0.6353:0.2352:0.1295:0.0	.	106	Q8N6Q3	CD177_HUMAN	R	106	ENSP00000367248:Q106R;ENSP00000367251:Q106R;ENSP00000388794:Q106R	ENSP00000367248:Q106R	Q	+	2	0	CD177	48550322	0.000000	0.05858	0.001000	0.08648	0.003000	0.03518	0.400000	0.20932	0.123000	0.18342	-0.256000	0.11100	CAG		0.682	CD177-001	KNOWN	basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000470162.1	NM_020406		G	43858482	A	G	43858482	1	3	568	0	1	0	0	0	0	0	0	0	2973	188	7	3		3	CD177	19	43858482	RNA	SNP	A	TCGA-DW-7838-01A-11D-2136-08	2929620	43858482	15270501	109	33584										
ZNF227	7770	broad.mit.edu;bcgsc.ca	37	chr19	44739499	44739499	+	Frame_Shift_Del	DEL	T	T	-													0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gtcatgaatctggtgattgcTtcaataagagctcttttcat							TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr19:44739499delT	ENST00000313040.7	+	6	1121	c.916delT	c.(916-918)ttcfs	p.F306fs	ZNF227_ENST00000391961.2_Frame_Shift_Del_p.F255fs|ZNF227_ENST00000589005.1_Frame_Shift_Del_p.F255fs	NM_182490.1	NP_872296.1	Q86WZ6	ZN227_HUMAN	zinc finger protein 227	306					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|kidney(3)|large_intestine(4)|lung(12)|ovary(2)|stomach(1)|urinary_tract(1)	24		Prostate(69;0.0435)				TGGTGATTGCTTCAATAAGAG	0.418																																																0													58	58	58					19																	44739499		2203	4300	6503	SO:0001589	frameshift_variant	7770			AK092253	CCDS12636.1, CCDS74388.1	19q13.32	2013-01-08						"Zinc fingers, C2H2-type", "-"	13020	protein-coding gene	gene with protein product							Standard	XM_005259232		Approved		uc002oyu.3	Q86WZ6		ENST00000313040.7:c.916delT	19.37:g.44739499delT	ENSP00000321049:p.Phe306fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRU7|B7Z5P9	Frame_Shift_Del	DEL	ENST00000313040.7	37	CCDS12636.1																																																																																				0.418	ZNF227-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460720.1	NM_182490		-	44739499	T	-	44739499	7	5	568	1	0	1	0	1	0	0	0	0	17793	1609	56	0	930	0	ZNF227	19	44739499	Frame_Shift_Del	DEL	T	TCGA-DW-7838-01A-11D-2136-08	881017	44739499	14389484	110	33585										
FUT2	2524	hgsc.bcm.edu;broad.mit.edu	37	chr19	49206557	49206557	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	aatcaccctgccggtgctgcAcagcgccacggccagcagga	12	16	1	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr19:49206557A>C	ENST00000425340.2	+	2	461	c.344A>C	c.(343-345)cAc>cCc	p.H115P	FUT2_ENST00000391876.4_Missense_Mutation_p.H115P	NM_000511.5|NM_001097638.2	NP_000502.4|NP_001091107.1	Q10981	FUT2_HUMAN	fucosyltransferase 2 (secretor status included)	115					carbohydrate metabolic process (GO:0005975)|fucosylation (GO:0036065)|L-fucose catabolic process (GO:0042355)|protein glycosylation (GO:0006486)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	fucosyltransferase activity (GO:0008417)|galactoside 2-alpha-L-fucosyltransferase activity (GO:0008107)			breast(1)|central_nervous_system(2)|endometrium(1)|large_intestine(1)|lung(2)	7		all_lung(116;4.89e-06)|all_epithelial(76;7.04e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.00011)|all cancers(93;0.000238)|GBM - Glioblastoma multiforme(486;0.0164)|Epithelial(262;0.017)		CCGGTGCTGCACAGCGCCACG	0.652																																																0													24	25	25					19																	49206557		2202	4293	6495	SO:0001583	missense	2524				CCDS33069.1	19q13.33	2014-07-19			ENSG00000176920	ENSG00000176920		"Fucosyltransferases"	4013	protein-coding gene	gene with protein product	"alpha (1,2) fucosyltransferase", "galactoside 2-alpha-L-fucosyltransferase 2", "GDP-L-fucose:beta-D-galactoside 2-alpha-L-fucosyltransferase 2", "alpha(1,2)FT2", "secretor factor", "secretor blood group alpha-2-fucosyltransferase"	182100		SE		1763885	Standard	NM_000511		Approved	sej, Se2, SEC2	uc010emc.3	Q10981	OTTHUMG00000164427	ENST00000425340.2:c.344A>C	19.37:g.49206557A>C	ENSP00000387498:p.His115Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAG5|Q14338|Q5D0G2	Missense_Mutation	SNP	ENST00000425340.2	37	CCDS33069.1	.	.	.	.	.	.	.	.	.	.	A	7.979	0.750695	0.15778	.	.	ENSG00000176920	ENST00000522966;ENST00000425340;ENST00000391876	D;D;D	0.96522	-4.04;-4.04;-4.04	4.77	-2.42	0.06542	.	.	.	.	.	D	0.96346	0.8808	M	0.74881	2.28	0.09310	N	1	D	0.63046	0.992	P	0.61800	0.894	D	0.90292	0.4323	9	0.26408	T	0.33	.	6.7207	0.23328	0.3886:0.4411:0.1703:0.0	.	115	Q10981	FUT2_HUMAN	P	115	ENSP00000430227:H115P;ENSP00000387498:H115P;ENSP00000375748:H115P	ENSP00000375748:H115P	H	+	2	0	FUT2	53898369	0.000000	0.05858	0.004000	0.12327	0.053000	0.15095	-0.018000	0.12568	-0.254000	0.09500	-0.504000	0.04507	CAC		0.652	FUT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378731.2	NM_000511		C	49206557	A	C	49206557	3	2	568	1	0	0	0	0	1	0	0	0	6111	159	6	5	346	5	FUT2	19	49206557	Missense_Mutation	SNP	A	TCGA-DW-7838-01A-11D-2136-08	4467058	49206557	9922426	111	33586										
ZNF473	25888	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	50550199	50550199	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gcccatctcaaccagcacctGagagttcacacccaggagac	8	16	2	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr19:50550199G>T	ENST00000595661.1	+	6	2994	c.2499G>T	c.(2497-2499)ctG>ctT	p.L833L	CTD-2126E3.3_ENST00000599410.1_RNA|ZNF473_ENST00000601364.1_Intron|ZNF473_ENST00000445728.3_Silent_p.L821L|ZNF473_ENST00000391821.2_Silent_p.L833L|ZNF473_ENST00000270617.3_Silent_p.L833L|CTD-2126E3.3_ENST00000599914.1_RNA			Q8WTR7	ZN473_HUMAN	zinc finger protein 473	833					gene expression (GO:0010467)|histone mRNA 3'-end processing (GO:0006398)|histone mRNA metabolic process (GO:0008334)|mRNA 3'-end processing (GO:0031124)|regulation of transcription, DNA-templated (GO:0006355)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	Cajal body (GO:0015030)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(9)|liver(2)|lung(12)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	37		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		ACCAGCACCTGAGAGTTCACA	0.517											OREG0025632	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													68	71	70					19																	50550199		2203	4300	6503	SO:0001819	synonymous_variant	25888			AB032967	CCDS33077.1	19q13.33	2013-01-08						"Zinc fingers, C2H2-type", "-"	23239	protein-coding gene	gene with protein product						11782445	Standard	NM_015428		Approved	KIAA1141, DKFZP434N043, HZFP100	uc002prn.3	Q8WTR7		ENST00000595661.1:c.2499G>T	19.37:g.50550199G>T		Somatic	970	WXS	Illumina HiSeq	Phase_I	A8K8T7|Q9ULS9|Q9Y4Q7	Silent	SNP	ENST00000595661.1	37	CCDS33077.1																																																																																				0.517	ZNF473-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464833.1	XM_046390		T	50550199	G	T	50550199	2	4	568	1	0	0	0	0	0	0	0	1	17943	1277	45	4		4	ZNF473	19	50550199	Silent	SNP	G	TCGA-DW-7838-01A-11D-2136-08	1343642	50550199	8578784	112	33587										
SIGLEC12	89858	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	52004707	52004707	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tctgtgggtccccaaggaggTggaatcggtcccgagtctcc	14	12	2	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr19:52004707T>A	ENST00000291707.3	-	1	336	c.281A>T	c.(280-282)cAc>cTc	p.H94L	SIGLEC12_ENST00000598614.1_5'Flank	NM_053003.2	NP_443729.1	Q96PQ1	SIG12_HUMAN	sialic acid binding Ig-like lectin 12 (gene/pseudogene)	94	Ig-like V-type 1.				cell adhesion (GO:0007155)	integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)			NS(2)|biliary_tract(1)|breast(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(8)|liver(1)|lung(23)|ovary(4)|prostate(2)|skin(8)|stomach(3)|upper_aerodigestive_tract(2)	61		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		CCCAAGGAGGTGGAATCGGTC	0.552																																																0													164	144	151					19																	52004707		2203	4300	6503	SO:0001583	missense	89858			AF282256	CCDS12833.1, CCDS59416.1	19q13.41	2013-01-29	2011-06-29	2004-10-20	ENSG00000254521	ENSG00000254521		"Sialic acid binding Ig-like lectins", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	15482	protein-coding gene	gene with protein product		606094	"SIGLEC-like 1", "sialic acid binding Ig-like lectin 12"	SIGLECL1		11409877, 11328818, 21555517	Standard	NM_053003		Approved	SLG, S2V, Siglec-XII, Siglec-12, Siglec-L1	uc002pwx.1	Q96PQ1	OTTHUMG00000165524	ENST00000291707.3:c.281A>T	19.37:g.52004707T>A	ENSP00000291707:p.His94Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYH7	Missense_Mutation	SNP	ENST00000291707.3	37	CCDS12833.1	.	.	.	.	.	.	.	.	.	.	.	5.108	0.205613	0.09704	.	.	ENSG00000254521	ENST00000291707	T	0.65178	-0.14	2.42	-1.97	0.07503	Immunoglobulin subtype (1);Immunoglobulin V-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.48714	0.1515	L	0.54323	1.7	0.09310	N	1	B	0.23540	0.087	B	0.17098	0.017	T	0.39272	-0.9622	9	0.56958	D	0.05	.	2.2193	0.03968	0.4626:0.1603:0.0:0.3772	.	94	Q96PQ1	SIG12_HUMAN	L	94	ENSP00000291707:H94L	ENSP00000291707:H94L	H	-	2	0	SIGLEC12	56696519	0.000000	0.05858	0.002000	0.10522	0.333000	0.28666	-1.760000	0.01806	-1.003000	0.03425	0.325000	0.21440	CAC		0.552	SIGLEC12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384641.2	NM_053003		A	52004707	T	A	52004707	3	1	568	1	0	0	0	0	1	0	0	0	14321	1696	59	5	1611	5	SIGLEC12	19	52004707	Missense_Mutation	SNP	T	TCGA-DW-7838-01A-11D-2136-08	1454508	52004707	7124276	113	33588										
ZNF28	7576	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	53303801	53303801	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gtaaggcttctctccagtgtGaattatactatgttttgcca	8	8	1	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr19:53303801G>C	ENST00000457749.2	-	4	1416	c.1297C>G	c.(1297-1299)Cac>Gac	p.H433D	ZNF28_ENST00000414252.2_Missense_Mutation_p.H380D|ZNF28_ENST00000438150.2_Missense_Mutation_p.H380D|ZNF28_ENST00000360272.4_Missense_Mutation_p.H380D	NM_006969.3	NP_008900.3	P17035	ZNF28_HUMAN	zinc finger protein 28	433					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.H380Y(2)|p.H433Y(1)		breast(2)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(11)|liver(1)|lung(10)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	34				GBM - Glioblastoma multiforme(134;0.0386)|Lung(386;0.145)		TCTCCAGTGTGAATTATACTA	0.373																																																3	Substitution - Missense(3)	breast(3)											113	120	118					19																	53303801		2203	4300	6503	SO:0001583	missense	7576			X52355	CCDS33093.1, CCDS33093.2	19q13.41	2013-01-08	2006-05-10		ENSG00000198538	ENSG00000198538		"Zinc fingers, C2H2-type", "-"	13073	protein-coding gene	gene with protein product			"zinc finger protein 28 (KOX 24)"				Standard	NR_036599		Approved	KOX24, DKFZp781D0275	uc002qad.3	P17035	OTTHUMG00000154564	ENST00000457749.2:c.1297C>G	19.37:g.53303801G>C	ENSP00000397693:p.His433Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAK9|B4E3G0|B9EIK7|Q5H9V1|Q5HYM9|Q6ZML9|Q6ZN56	Missense_Mutation	SNP	ENST00000457749.2	37	CCDS33093.2	.	.	.	.	.	.	.	.	.	.	-	14.52	2.559448	0.45590	.	.	ENSG00000198538	ENST00000438150;ENST00000457749;ENST00000360272;ENST00000414252;ENST00000391783	T;T;T;T;T	0.67698	-0.28;-0.28;-0.28;-0.28;-0.28	1.74	0.624	0.17659	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	D	0.84433	0.5471	H	0.96460	3.825	0.27520	N	0.951416	D	0.63880	0.993	D	0.79784	0.993	T	0.73257	-0.4040	9	0.87932	D	0	.	6.9561	0.24572	0.1616:0.0:0.8384:0.0	.	433	P17035	ZNF28_HUMAN	D	380;433;380;380;380	ENSP00000412143:H380D;ENSP00000397693:H433D;ENSP00000353410:H380D;ENSP00000444965:H380D;ENSP00000375661:H380D	ENSP00000353410:H380D	H	-	1	0	ZNF28	57995613	1.000000	0.71417	0.003000	0.11579	0.128000	0.20619	4.471000	0.60182	0.072000	0.16694	0.186000	0.17326	CAC		0.373	ZNF28-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336038.2	NM_006969		C	53303801	G	C	53303801	3	2	568	1	0	0	0	0	1	0	0	0	17825	1290	45	4	863	4	ZNF28	19	53303801	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	1299094	53303801	5825182	114	33589										
ZNF761	388561	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	53958007	53958007	+	RNA	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	atacatgaaagtcatcacaaTggagatttttgctaccagga	8	7	2	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr19:53958007T>G	ENST00000454407.1	+	0	699							Q86XN6	ZN761_HUMAN	zinc finger protein 761						regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|kidney(2)|large_intestine(5)|lung(13)|ovary(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	30				GBM - Glioblastoma multiforme(134;0.00786)		GTCATCACAATGGAGATTTTT	0.398																																																0													89	86	87					19																	53958007		2203	4300	6503			388561			AB107355		19q13.42	2007-10-05	2006-08-11	2006-08-11	ENSG00000160336	ENSG00000160336		"Zinc fingers, C2H2-type"	23179	protein-coding gene	gene with protein product							Standard	NM_001008401		Approved	KIAA2033, FLJ16231, FLJ35333	uc010eqp.3	Q86XN6	OTTHUMG00000156999		19.37:g.53958007T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZNB9	Missense_Mutation	SNP	ENST00000454407.1	37																																																																																					0.398	ZNF761-203	KNOWN	basic	processed_transcript	processed_transcript		NM_001008401		G	53958007	T	G	53958007	1	3	568	0	1	0	0	0	0	0	0	0	18148	1461	51	5		5	ZNF761	19	53958007	RNA	SNP	T	TCGA-DW-7838-01A-11D-2136-08	654206	53958007	5170976	115	33590										
FCAR	2204	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	55401195	55401196	+	Missense_Mutation	DNP	TG	TG	GT													0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	acagatgtgtcagccaggatTgacctttgcacgaacaccaa							TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr19:55401195_55401196TG>GT	ENST00000355524.3	+	5	840_841	c.830_831TG>GT	c.(829-831)tTG>tGT	p.L277C	FCAR_ENST00000391725.3_Missense_Mutation_p.L255C|FCAR_ENST00000353758.4_Missense_Mutation_p.L168C|FCAR_ENST00000391726.3_Missense_Mutation_p.L169C|FCAR_ENST00000391724.3_Missense_Mutation_p.L243C|FCAR_ENST00000359272.4_Missense_Mutation_p.L265C|FCAR_ENST00000482092.2_3'UTR|CTB-61M7.2_ENST00000594721.1_lincRNA|FCAR_ENST00000391723.3_3'UTR|FCAR_ENST00000345937.4_Missense_Mutation_p.L181C	NM_002000.2	NP_001991.1	P24071	FCAR_HUMAN	Fc fragment of IgA, receptor for	277					immune response (GO:0006955)	extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)				breast(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(14)|ovary(1)|skin(2)	24				GBM - Glioblastoma multiforme(193;0.0443)		CAGCCAGGATTGACCTTTGCAC	0.525																																																0																																										SO:0001583	missense	2204			X54150	CCDS12907.1, CCDS12908.1, CCDS12909.1, CCDS12910.1, CCDS42622.1, CCDS42623.1, CCDS42624.1, CCDS42625.1, CCDS46180.1	19q13.42	2013-01-29			ENSG00000186431	ENSG00000186431		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	3608	protein-coding gene	gene with protein product		147045				1577457	Standard	NM_133269		Approved	CD89	uc002qhr.1	P24071	OTTHUMG00000065936	Exception_encountered	19.37:g.55401195_55401196delinsGT	ENSP00000347714:p.Leu277Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q13603|Q13604|Q15727|Q15728|Q1AJL7|Q1AJL8|Q1AJL9|Q53X38|Q53X39|Q92587|Q92588|Q92590|Q92592|Q92593|Q9UEK0	Missense_Mutation	DNP	ENST00000355524.3	37	CCDS12907.1																																																																																				0.525	FCAR-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000141243.1	NM_002000		GT	55401196	TG	GT	55401195	3	3	568	1	0	0	0	0	1	0	0	0	5780	1821	63	5	919	5	FCAR	19	55401195	Missense_Mutation	DNP	TG	TCGA-DW-7838-01A-11D-2136-08	1443188	55401195	3727788	116	33591										
WFDC12	128488	broad.mit.edu;bcgsc.ca	37	chr20	43752864	43752864	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ggggaggatcggacttgaagCagcgtacgttgtcagctggg	18	7	1	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr20:43752864C>T	ENST00000372785.3	-	2	139	c.122G>A	c.(121-123)tGc>tAc	p.C41Y		NM_080869.1	NP_543145.1	Q8WWY7	WFD12_HUMAN	WAP four-disulfide core domain 12	41	WAP. {ECO:0000255|PROSITE- ProRule:PRU00722}.				defense response to bacterium (GO:0042742)|negative regulation of endopeptidase activity (GO:0010951)	extracellular region (GO:0005576)	serine-type endopeptidase inhibitor activity (GO:0004867)			endometrium(1)|large_intestine(2)|lung(2)|skin(1)	6		Myeloproliferative disorder(115;0.0122)				GGACTTGAAGCAGCGTACGTT	0.547																																																0													119	96	104					20																	43752864		2203	4300	6503	SO:0001583	missense	128488			Z93016	CCDS13343.1	20q13.12	2013-01-21	2003-02-21	2003-02-21	ENSG00000168703	ENSG00000168703		"WAP four-disulfide core domain containing"	16115	protein-coding gene	gene with protein product		609872	"chromosome 20 open reading frame 122"	C20orf122		11779191, 12206714	Standard	NM_080869		Approved	dJ211D12.4, WAP2	uc002xnf.1	Q8WWY7	OTTHUMG00000046412	ENST00000372785.3:c.122G>A	20.37:g.43752864C>T	ENSP00000361871:p.Cys41Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5H980|Q9BR31	Missense_Mutation	SNP	ENST00000372785.3	37	CCDS13343.1	.	.	.	.	.	.	.	.	.	.	C	12.86	2.065496	0.36470	.	.	ENSG00000168703	ENST00000372785	T	0.80214	-1.35	3.46	2.48	0.30137	Whey acidic protein, 4-disulphide core (5);	.	.	.	.	D	0.92335	0.7568	H	0.98111	4.15	0.09310	N	1	D	0.89917	1.0	D	0.74674	0.984	T	0.83064	-0.0146	9	0.87932	D	0	-3.5146	8.5723	0.33576	0.0:0.7615:0.2385:0.0	.	41	Q8WWY7	WFD12_HUMAN	Y	41	ENSP00000361871:C41Y	ENSP00000361871:C41Y	C	-	2	0	WFDC12	43186278	0.197000	0.23362	0.003000	0.11579	0.043000	0.13939	0.984000	0.29565	0.405000	0.25532	0.557000	0.71058	TGC		0.547	WFDC12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000107194.1			T	43752864	C	T	43752864	3	4	568	1	0	0	0	0	1	0	0	0	17362	710	25	2	221	2	WFDC12	20	43752864	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08		43752864	19272656	117	33592										
LAMA5	3911	hgsc.bcm.edu	37	chr20	60887506	60887506	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	gcctgtcgtgttcagccgctTgaggtccacatacttgccca	10	14	1	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr20:60887506T>G	ENST00000252999.3	-	68	9376	c.9310A>C	c.(9310-9312)Aag>Cag	p.K3104Q		NM_005560.3	NP_005551.3	O15230	LAMA5_HUMAN	laminin, alpha 5	3104	Laminin G-like 2. {ECO:0000255|PROSITE- ProRule:PRU00122}.				angiogenesis (GO:0001525)|branching involved in salivary gland morphogenesis (GO:0060445)|branching involved in ureteric bud morphogenesis (GO:0001658)|cell differentiation (GO:0030154)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|cell recognition (GO:0008037)|cilium assembly (GO:0042384)|cytoskeleton organization (GO:0007010)|embryo development (GO:0009790)|endothelial cell differentiation (GO:0045446)|establishment of protein localization to plasma membrane (GO:0090002)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|focal adhesion assembly (GO:0048041)|hair follicle development (GO:0001942)|integrin-mediated signaling pathway (GO:0007229)|lung development (GO:0030324)|morphogenesis of a polarized epithelium (GO:0001738)|morphogenesis of embryonic epithelium (GO:0016331)|muscle organ development (GO:0007517)|neural crest cell migration (GO:0001755)|odontogenesis of dentin-containing tooth (GO:0042475)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of cell proliferation (GO:0042127)|regulation of embryonic development (GO:0045995)|substrate adhesion-dependent cell spreading (GO:0034446)	basal lamina (GO:0005605)|basement membrane (GO:0005604)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)|laminin-10 complex (GO:0043259)|laminin-11 complex (GO:0043260)|laminin-5 complex (GO:0005610)|nucleus (GO:0005634)	integrin binding (GO:0005178)|structural molecule activity (GO:0005198)			breast(2)|central_nervous_system(3)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|lung(40)|ovary(1)|pancreas(1)|prostate(3)|skin(6)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	81	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			TTCAGCCGCTTGAGGTCCACA	0.682																																																0													43	39	40					20																	60887506		2190	4296	6486	SO:0001583	missense	3911			AF443072	CCDS33502.1	20q13.2-q13.3	2013-03-01			ENSG00000130702	ENSG00000130702		"Laminins"	6485	protein-coding gene	gene with protein product		601033				9271224	Standard	NM_005560		Approved		uc002ycq.3	O15230	OTTHUMG00000032908	ENST00000252999.3:c.9310A>C	20.37:g.60887506T>G	ENSP00000252999:p.Lys3104Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TDF8|Q8WZA7|Q9H1P1	Missense_Mutation	SNP	ENST00000252999.3	37	CCDS33502.1	.	.	.	.	.	.	.	.	.	.	t	22.3	4.275756	0.80580	.	.	ENSG00000130702	ENST00000252999	T	0.41400	1.0	4.26	4.26	0.50523	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (1);	0.052784	0.64402	D	0.000001	T	0.53318	0.1789	M	0.64997	1.995	0.80722	D	1	D	0.69078	0.997	P	0.58520	0.84	T	0.50346	-0.8839	10	0.23891	T	0.37	.	13.1986	0.59754	0.0:0.0:0.0:1.0	.	3104	O15230	LAMA5_HUMAN	Q	3104	ENSP00000252999:K3104Q	ENSP00000252999:K3104Q	K	-	1	0	LAMA5	60320901	0.989000	0.36119	0.997000	0.53966	0.953000	0.61014	1.425000	0.34859	1.794000	0.52575	0.454000	0.30748	AAG		0.682	LAMA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080014.2	NM_005560		G	60887506	T	G	60887506	3	3	568	1	0	0	0	0	1	0	0	0	8616	1821	63	5	1829	5	LAMA5	20	60887506	Missense_Mutation	SNP	T	TCGA-DW-7838-01A-11D-2136-08	17134642	60887506	2138014	118	33593										
SLC2A4RG	56731	hgsc.bcm.edu;broad.mit.edu	37	chr20	62374341	62374341	+	Nonstop_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	cctgccagcggttcctggacTaagtccggctcgttcaagaa	11	13	1	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chr20:62374341T>C	ENST00000266077.2	+	8	1214	c.1162T>C	c.(1162-1164)Taa>Caa	p.*388Q	SLC2A4RG_ENST00000493772.1_3'UTR|RP4-583P15.10_ENST00000433905.2_RNA|RP4-583P15.10_ENST00000447343.2_RNA	NM_020062.3	NP_064446.2	Q9NR83	S2A4R_HUMAN	SLC2A4 regulator	0					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|kidney(1)|lung(2)|prostate(2)|skin(1)	7	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					GTTCCTGGACTAAGTCCGGCT	0.652																																																0													25	34	31					20																	62374341		2200	4300	6500	SO:0001578	stop_lost	56731			AF249267	CCDS13537.1	20q13.33	2010-03-11			ENSG00000125520	ENSG00000125520			15930	protein-coding gene	gene with protein product	"GLUT4 enhancer factor", "Huntington's disease gene regulatory region-binding protein 1"	609493				10825161	Standard	NM_020062		Approved	GEF, HDBP1, Si-1-2, Si-1-2-19	uc002ygq.3	Q9NR83	OTTHUMG00000032997	ENST00000266077.2:c.1162T>C	20.37:g.62374341T>C	ENSP00000266077:p.*388Glnext*69	Somatic		WXS	Illumina HiSeq	Phase_I	Q2PHL5|Q6F6I6|Q6F6I7|Q6GTK5|Q8TAH5|Q8WVW7|Q96QD3|Q9BV85	Missense_Mutation	SNP	ENST00000266077.2	37	CCDS13537.1	.	.	.	.	.	.	.	.	.	.	T	13.44	2.238393	0.39598	.	.	ENSG00000125520	ENST00000266077	.	.	.	4.17	4.17	0.49024	.	.	.	.	.	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	12.0424	0.53460	0.0:0.0:0.0:1.0	.	.	.	.	Q	388	.	.	X	+	1	0	SLC2A4RG	61844785	1.000000	0.71417	1.000000	0.80357	0.515000	0.34225	4.553000	0.60753	1.525000	0.49052	0.260000	0.18958	TAA		0.652	SLC2A4RG-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080202.1	NM_020062		C	62374341	T	C	62374341	4	2	568	1	0	0	0	0	0	0	0	0	14560	1535	53	3	1192	3	SLC2A4RG	20	62374341	Nonstop_Mutation	SNP	T	TCGA-DW-7838-01A-11D-2136-08	1486835	62374341	651179	119	33594										
POLA1	5422	hgsc.bcm.edu	37	chrX	24906193	24906193	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tccccttcaattctcccgaaCtgggcctctttgcccagcct	6	18	3	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chrX:24906193C>G	ENST00000379059.3	+	35	4115	c.4100C>G	c.(4099-4101)aCt>aGt	p.T1367S	POLA1_ENST00000379068.3_Missense_Mutation_p.T1373S	NM_016937.3	NP_058633.2	P09884	DPOLA_HUMAN	polymerase (DNA directed), alpha 1, catalytic subunit	1367	DNA-binding region. {ECO:0000255}.				cell proliferation (GO:0008283)|DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA replication, synthesis of RNA primer (GO:0006269)|DNA strand elongation involved in DNA replication (GO:0006271)|double-strand break repair via nonhomologous end joining (GO:0006303)|G1/S transition of mitotic cell cycle (GO:0000082)|lagging strand elongation (GO:0006273)|leading strand elongation (GO:0006272)|mitotic cell cycle (GO:0000278)|nucleic acid phosphodiester bond hydrolysis (GO:0090305)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)|telomere maintenance (GO:0000723)|telomere maintenance via recombination (GO:0000722)|telomere maintenance via semi-conservative replication (GO:0032201)|translesion synthesis (GO:0019985)|viral process (GO:0016032)	alpha DNA polymerase:primase complex (GO:0005658)|cytoplasm (GO:0005737)|nuclear envelope (GO:0005635)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	3'-5' exonuclease activity (GO:0008408)|4 iron, 4 sulfur cluster binding (GO:0051539)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|DNA-directed DNA polymerase activity (GO:0003887)|metal ion binding (GO:0046872)|nucleoside binding (GO:0001882)|nucleotide binding (GO:0000166)|protein kinase binding (GO:0019901)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|ovary(2)|skin(2)	11					Cladribine(DB00242)|Clofarabine(DB00631)|Fludarabine(DB01073)|Nelarabine(DB01280)	TTCTCCCGAACTGGGCCTCTT	0.493																																																0													130	102	112					X																	24906193		2203	4300	6503	SO:0001583	missense	5422				CCDS14214.1	Xp22.1-p21.3	2014-01-30	2008-08-07	2006-09-26	ENSG00000101868	ENSG00000101868	2.7.7.7	"DNA polymerases"	9173	protein-coding gene	gene with protein product		312040	"polymerase (DNA directed), alpha", "polymerase (DNA directed), alpha 1", "N syndrome (mental retardation, malformations, chromosome breakage)"	POLA, NSX		1689958	Standard	NM_016937		Approved	p180	uc004dbl.3	P09884	OTTHUMG00000021277	ENST00000379059.3:c.4100C>G	X.37:g.24906193C>G	ENSP00000368349:p.Thr1367Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q86UQ7	Missense_Mutation	SNP	ENST00000379059.3	37	CCDS14214.1	.	.	.	.	.	.	.	.	.	.	C	3.682	-0.065364	0.07273	.	.	ENSG00000101868	ENST00000379068;ENST00000379059	T;T	0.16597	2.33;2.33	5.58	0.599	0.17519	Zinc finger, DNA-directed DNA polymerase, family B, alpha (1);	0.491223	0.22316	N	0.061661	T	0.04679	0.0127	N	0.02539	-0.55	0.09310	N	1	B	0.02656	0.0	B	0.06405	0.002	T	0.41928	-0.9481	10	0.09338	T	0.73	-4.7704	5.5775	0.17231	0.4882:0.1503:0.3615:0.0	.	1367	P09884	DPOLA_HUMAN	S	1373;1367	ENSP00000368358:T1373S;ENSP00000368349:T1367S	ENSP00000368349:T1367S	T	+	2	0	POLA1	24816114	0.966000	0.33281	0.851000	0.33527	0.481000	0.33189	1.521000	0.35910	-0.000000	0.14550	-1.090000	0.02178	ACT		0.493	POLA1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000056111.1	NM_016937		G	24906193	C	G	24906193	3	3	568	1	0	0	0	0	1	0	0	0	12194	565	20	4	4238	4	POLA1	23	24906193	Missense_Mutation	SNP	C	TCGA-DW-7838-01A-11D-2136-08		24906193	130364367	120	33595										
DDX3X	1654	hgsc.bcm.edu	37	chrX	41200810	41200810	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	tatagcagttttggatctcgTagtgattcaagagggaagtc	12	5	2	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chrX:41200810T>C	ENST00000399959.2	+	4	1080	c.225T>C	c.(223-225)cgT>cgC	p.R75R	DDX3X_ENST00000457138.2_Silent_p.R59R|DDX3X_ENST00000441189.2_Silent_p.R75R|DDX3X_ENST00000478993.1_3'UTR|DDX3X_ENST00000542215.1_Silent_p.R119R	NM_001193416.1|NM_001193417.1|NM_001356.3	NP_001180345.1|NP_001180346.1|NP_001347.3	O00571	DDX3X_HUMAN	DEAD (Asp-Glu-Ala-Asp) box helicase 3, X-linked	75	Interaction with EIF4E.|Required for TBK1 and IKBKE-dependent IFN-beta activation.				ATP catabolic process (GO:0006200)|cellular response to arsenic-containing substance (GO:0071243)|cellular response to osmotic stress (GO:0071470)|chromosome segregation (GO:0007059)|DNA duplex unwinding (GO:0032508)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|intrinsic apoptotic signaling pathway (GO:0097193)|mature ribosome assembly (GO:0042256)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of intrinsic apoptotic signaling pathway (GO:2001243)|negative regulation of protein complex assembly (GO:0031333)|negative regulation of translation (GO:0017148)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cell growth (GO:0030307)|positive regulation of chemokine (C-C motif) ligand 5 production (GO:0071651)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of G1/S transition of mitotic cell cycle (GO:1900087)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of translation (GO:0045727)|positive regulation of translational initiation (GO:0045948)|response to virus (GO:0009615)|RNA secondary structure unwinding (GO:0010501)|stress granule assembly (GO:0034063)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytoplasmic stress granule (GO:0010494)|extracellular vesicular exosome (GO:0070062)|mitochondrial outer membrane (GO:0005741)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|ATP-dependent RNA helicase activity (GO:0004004)|ATPase activity (GO:0016887)|DNA binding (GO:0003677)|eukaryotic initiation factor 4E binding (GO:0008190)|mRNA 5'-UTR binding (GO:0048027)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)|ribosomal small subunit binding (GO:0043024)|RNA binding (GO:0003723)|RNA stem-loop binding (GO:0035613)|transcription factor binding (GO:0008134)|translation initiation factor binding (GO:0031369)			NS(3)|breast(8)|central_nervous_system(36)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(3)|lung(7)|ovary(2)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(4)|urinary_tract(1)	84						TTGGATCTCGTAGTGATTCAA	0.383										HNSCC(61;0.18)																																						0													130	127	128					X																	41200810		2169	4284	6453	SO:0001819	synonymous_variant	1654			U50553	CCDS43931.1, CCDS55404.1	Xp11.3-p11.23	2013-07-16	2013-07-16	2003-06-20	ENSG00000215301	ENSG00000215301		"DEAD-boxes"	2745	protein-coding gene	gene with protein product		300160	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3", "DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, X-linked"	DDX3		9381176, 9730595	Standard	NM_001193416		Approved	DBX, HLP2, DDX14	uc004dfe.3	O00571	OTTHUMG00000021369	ENST00000399959.2:c.225T>C	X.37:g.41200810T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K538|B4E3E8|O15536	Silent	SNP	ENST00000399959.2	37	CCDS43931.1																																																																																				0.383	DDX3X-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056253.1	NM_024005		C	41200810	T	C	41200810	2	2	568	1	0	0	0	0	0	0	0	1	4360	1625	57	3		3	DDX3X	23	41200810	Silent	SNP	T	TCGA-DW-7838-01A-11D-2136-08	16294617	41200810	114069750	121	33596										
ZXDB	158586	hgsc.bcm.edu;broad.mit.edu	37	chrX	57619097	57619097	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ccgctcctgcccagcagcccGggtgtctgatcgccccgcaa	11	19	1	1			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chrX:57619097G>A	ENST00000374888.1	+	1	829	c.616G>A	c.(616-618)Ggg>Agg	p.G206R		NM_007157.3	NP_009088.1	P98169	ZXDB_HUMAN	zinc finger, X-linked, duplicated B	206					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)	p.G206R(2)		NS(1)|central_nervous_system(2)|endometrium(5)|kidney(1)|large_intestine(1)|lung(7)|ovary(2)|prostate(2)|skin(6)	27						CCAGCAGCCCGGGTGTCTGAT	0.711																																																2	Substitution - Missense(2)	lung(1)|prostate(1)											12	14	13					X																	57619097		2186	4257	6443	SO:0001583	missense	158586			L14788	CCDS35313.1	Xp11.1	2013-01-08			ENSG00000198455	ENSG00000198455		"Zinc fingers, C2H2-type"	13199	protein-coding gene	gene with protein product		300236				8268913	Standard	NM_007157		Approved	ZNF905	uc004dvd.3	P98169	OTTHUMG00000021685	ENST00000374888.1:c.616G>A	X.37:g.57619097G>A	ENSP00000364023:p.Gly206Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K151|Q9UBB3	Missense_Mutation	SNP	ENST00000374888.1	37	CCDS35313.1	.	.	.	.	.	.	.	.	.	.	.	0	-2.654782	0.00108	.	.	ENSG00000198455	ENST00000374888	T	0.11063	2.81	2.65	1.78	0.24846	.	0.160870	0.29602	N	0.011697	T	0.04452	0.0122	N	0.12182	0.205	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.41787	-0.9489	10	0.15952	T	0.53	.	4.3042	0.10938	0.3435:0.0:0.6565:0.0	.	206	P98169	ZXDB_HUMAN	R	206	ENSP00000364023:G206R	ENSP00000364023:G206R	G	+	1	0	ZXDB	57635822	0.000000	0.05858	0.002000	0.10522	0.045000	0.14185	-0.287000	0.08388	0.520000	0.28426	0.556000	0.70494	GGG		0.711	ZXDB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056922.1	NM_007157		A	57619097	G	A	57619097	3	1	568	1	0	0	0	0	1	0	0	0	18263	1116	39	1	618	1	ZXDB	23	57619097	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	16418287	57619097	97651463	122	33597										
KIF4A	24137	broad.mit.edu	37	chrX	69595071	69595071	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	taggttgagtgagcgccgccGcaaacgtctccaggagctgg	15	11	1	2			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chrX:69595071G>A	ENST00000374403.3	+	17	1878	c.1796G>A	c.(1795-1797)cGc>cAc	p.R599H	KIF4A_ENST00000374388.3_Missense_Mutation_p.R599H	NM_012310.4	NP_036442.3	O95239	KIF4A_HUMAN	kinesin family member 4A	599					anterograde axon cargo transport (GO:0008089)|antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|organelle organization (GO:0006996)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinesin complex (GO:0005871)|membrane (GO:0016020)|midbody (GO:0030496)|nucleus (GO:0005634)|spindle microtubule (GO:0005876)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|DNA binding (GO:0003677)|microtubule motor activity (GO:0003777)|plus-end-directed microtubule motor activity (GO:0008574)			breast(6)|endometrium(9)|kidney(3)|large_intestine(8)|lung(15)|ovary(4)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	51						GAGCGCCGCCGCAAACGTCTC	0.468																																																0													67	58	61					X																	69595071		2203	4300	6503	SO:0001583	missense	24137			AF179308	CCDS14401.1	Xq13.1	2008-08-11			ENSG00000090889	ENSG00000090889		"Kinesins"	13339	protein-coding gene	gene with protein product	"chromokinesin"	300521				10773663	Standard	NM_012310		Approved	KIF4-G1, KIF4, HSA271784, FLJ12530, FLJ12655, FLJ14204, FLJ20631	uc004dyg.3	O95239	OTTHUMG00000021775	ENST00000374403.3:c.1796G>A	X.37:g.69595071G>A	ENSP00000363524:p.Arg599His	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7V5|D3DVU4|Q86TN3|Q86XX7|Q9NNY6|Q9NY24|Q9UMW3	Missense_Mutation	SNP	ENST00000374403.3	37	CCDS14401.1	.	.	.	.	.	.	.	.	.	.	G	18.87	3.716466	0.68844	.	.	ENSG00000090889	ENST00000374388;ENST00000374403	T;T	0.70869	2.3;-0.52	5.53	5.53	0.82687	.	0.000000	0.56097	D	0.000035	T	0.76292	0.3967	M	0.83483	2.645	0.80722	D	1	B;B	0.28713	0.143;0.22	B;B	0.33254	0.038;0.16	T	0.76394	-0.2975	10	0.52906	T	0.07	.	17.3242	0.87243	0.0:0.0:1.0:0.0	.	599;599	O95239;O95239-2	KIF4A_HUMAN;.	H	599	ENSP00000363509:R599H;ENSP00000363524:R599H	ENSP00000363509:R599H	R	+	2	0	KIF4A	69511796	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	8.912000	0.92726	2.562000	0.86427	0.600000	0.82982	CGC		0.468	KIF4A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057068.1	NM_012310		A	69595071	G	A	69595071	3	1	568	1	0	0	0	0	1	0	0	0	8310	1087	38	1	1858	1	KIF4A	23	69595071	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	11975974	69595071	85675489	123	33598										
PAK3	5063	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	110366494	110366494	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.38398597311514	1.33785310734463	1.40474576271186	0.226194642616772	1	0	ttcgctctatcttcccaggaGgaggggataaaagtaaagta	11	7	2	0			TCGA-DW-7838-01A-11D-2136-08	TCGA-DW-7838-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c7897a3f-6f47-41e8-b9b6-29bceb9d3c54	a0033479-cc47-403c-a95a-2fca2634ddbf	g.chrX:110366494G>A	ENST00000372010.1	+	5	605	c.163G>A	c.(163-165)Gga>Aga	p.G55R	PAK3_ENST00000518291.1_Missense_Mutation_p.G55R|PAK3_ENST00000519681.1_Missense_Mutation_p.G55R|PAK3_ENST00000417227.1_Missense_Mutation_p.G55R|PAK3_ENST00000446737.1_Missense_Mutation_p.G55R|PAK3_ENST00000425146.1_Missense_Mutation_p.G55R|PAK3_ENST00000372007.5_Missense_Mutation_p.G55R|PAK3_ENST00000360648.4_Missense_Mutation_p.G55R|PAK3_ENST00000262836.4_Missense_Mutation_p.G55R			O75914	PAK3_HUMAN	p21 protein (Cdc42/Rac)-activated kinase 3	55					activation of MAPK activity (GO:0000187)|axonogenesis (GO:0007409)|dendrite development (GO:0016358)|dendritic spine morphogenesis (GO:0060997)|MAPK cascade (GO:0000165)|regulation of actin filament polymerization (GO:0030833)|synapse organization (GO:0050808)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|MAP kinase kinase activity (GO:0004708)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(7)|lung(15)|ovary(3)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(4)	41						CTTCCCAGGAGGAGGGGATAA	0.448										TSP Lung(19;0.15)																																						0													70	69	70					X																	110366494		2203	4300	6503	SO:0001583	missense	5063			AF068864	CCDS14554.1, CCDS48151.1, CCDS48152.1, CCDS48153.1	Xq22.3	2008-06-17	2008-06-17		ENSG00000077264	ENSG00000077264			8592	protein-coding gene	gene with protein product		300142	"mental retardation, X-linked 47", "p21 (CDKN1A)-activated kinase 3"	MRX30, MRX47		8826460, 9731525	Standard	NM_002578		Approved	hPAK3, bPAK	uc010npv.1	O75914	OTTHUMG00000022202	ENST00000372010.1:c.163G>A	X.37:g.110366494G>A	ENSP00000361080:p.Gly55Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K389|B1GX77|B1GX78|B1GX79|Q5JWX1|Q5JWX2|Q7Z2D6|Q7Z2E4|Q7Z3Z8|Q8WWK5|Q8WX23|Q9P0J8	Missense_Mutation	SNP	ENST00000372010.1	37	CCDS48153.1	.	.	.	.	.	.	.	.	.	.	G	16.93	3.257186	0.59321	.	.	ENSG00000077264	ENST00000446737;ENST00000425146;ENST00000372010;ENST00000519681;ENST00000372007;ENST00000518291;ENST00000429193;ENST00000360648;ENST00000417227;ENST00000262836	T;T;T;T;T;T;T;T;T	0.71461	-0.55;-0.55;-0.57;-0.56;-0.55;-0.54;-0.54;-0.56;-0.57	5.39	5.39	0.77823	.	0.000000	0.85682	D	0.000000	T	0.68284	0.2984	L	0.29908	0.895	0.80722	D	1	P;P;B;B	0.43607	0.801;0.812;0.399;0.037	P;P;B;B	0.48454	0.578;0.578;0.194;0.049	T	0.64322	-0.6435	10	0.22706	T	0.39	.	18.4314	0.90627	0.0:0.0:1.0:0.0	.	55;55;55;55	O75914-4;O75914-3;O75914;O75914-2	.;.;PAK3_HUMAN;.	R	55	ENSP00000410853:G55R;ENSP00000401982:G55R;ENSP00000361080:G55R;ENSP00000429113:G55R;ENSP00000361077:G55R;ENSP00000428921:G55R;ENSP00000353864:G55R;ENSP00000389172:G55R;ENSP00000262836:G55R	ENSP00000262836:G55R	G	+	1	0	PAK3	110253150	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.143000	0.94623	2.380000	0.81148	0.600000	0.82982	GGA		0.448	PAK3-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000057918.1	NM_002578		A	110366494	G	A	110366494	3	1	568	1	0	0	0	0	1	0	0	0	11409	1001	35	2	165	2	PAK3	23	110366494	Missense_Mutation	SNP	G	TCGA-DW-7838-01A-11D-2136-08	40771423	110366494	44904066	124	33599										
COL11A1	1301	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	103400626	103400626	+	Frame_Shift_Del	DEL	G	G	-													0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	gaatactcacagcaattccaGgggcaccaactggtccttga							TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr1:103400626delG	ENST00000370096.3	-	45	3794	c.3482delC	c.(3481-3483)cctfs	p.P1161fs	COL11A1_ENST00000353414.4_Frame_Shift_Del_p.P1122fs|COL11A1_ENST00000512756.1_Frame_Shift_Del_p.P1045fs|COL11A1_ENST00000358392.2_Frame_Shift_Del_p.P1173fs	NM_001854.3	NP_001845.3	P12107	COBA1_HUMAN	collagen, type XI, alpha 1	1161	Triple-helical region.				cartilage condensation (GO:0001502)|chondrocyte development (GO:0002063)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|detection of mechanical stimulus involved in sensory perception of sound (GO:0050910)|embryonic skeletal system morphogenesis (GO:0048704)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|inner ear morphogenesis (GO:0042472)|proteoglycan metabolic process (GO:0006029)|sensory perception of sound (GO:0007605)|tendon development (GO:0035989)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)|visual perception (GO:0007601)	collagen type XI trimer (GO:0005592)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	extracellular matrix binding (GO:0050840)|extracellular matrix structural constituent (GO:0005201)|metal ion binding (GO:0046872)|protein binding, bridging (GO:0030674)			NS(3)|biliary_tract(1)|breast(5)|central_nervous_system(2)|cervix(1)|endometrium(17)|kidney(8)|large_intestine(28)|lung(157)|ovary(6)|pancreas(2)|prostate(6)|skin(9)|stomach(1)|upper_aerodigestive_tract(11)|urinary_tract(1)	258		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)		AGCAATTCCAGGGGCACCAAC	0.448																																																0													37	39	38					1																	103400626		2203	4300	6503	SO:0001589	frameshift_variant	1301			J04177	CCDS778.1, CCDS780.1, CCDS780.2, CCDS53348.1	1p21	2013-01-16			ENSG00000060718	ENSG00000060718		"Collagens"	2186	protein-coding gene	gene with protein product	"collagen XI, alpha-1 polypeptide"	120280		COLL6		3182841	Standard	NM_080630		Approved	STL2, CO11A1	uc001dul.3	P12107	OTTHUMG00000010872	ENST00000370096.3:c.3482delC	1.37:g.103400626delG	ENSP00000359114:p.Pro1161fs	Somatic		WXS	Illumina HiSeq	Phase_I	B1ASK7|D3DT73|E9PCU0|Q14034|Q149N0|Q9UIT4|Q9UIT5|Q9UIT6	Frame_Shift_Del	DEL	ENST00000370096.3	37	CCDS778.1																																																																																				0.448	COL11A1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000029997.1	NM_080630		-	103400626	G	-	103400626	7	5	569	1	0	1	0	1	0	0	0	0	3669	1000	35	0	2030	0	COL11A1	1	103400626	Frame_Shift_Del	DEL	G	TCGA-DW-7839-01A-11D-2136-08		103400626	145849995	1	33600										
CR1L	1379	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	207818592	207818592	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	gccgctcatggcgcctcccgTccgtctcgagcgtccctttc	10	19	2	0			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr1:207818592T>G	ENST00000508064.2	+	1	74	c.14T>G	c.(13-15)gTc>gGc	p.V5G		NM_175710.1	NP_783641.1	Q2VPA4	CR1L_HUMAN	complement component (3b/4b) receptor 1-like	5						cytoplasm (GO:0005737)|extracellular region (GO:0005576)|membrane (GO:0016020)|receptor complex (GO:0043235)				endometrium(1)|kidney(1)|large_intestine(2)|lung(15)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	22						GCGCCTCCCGTCCGTCTCGAG	0.657																																																0													62	68	66					1																	207818592		2203	4300	6503	SO:0001583	missense	1379			AY114160	CCDS44310.1	1q32.1	2008-02-05			ENSG00000197721	ENSG00000197721		"Complement system"	2335	protein-coding gene	gene with protein product		605886				2295627	Standard	NM_175710		Approved		uc001hga.4	Q2VPA4	OTTHUMG00000036354	ENST00000508064.2:c.14T>G	1.37:g.207818592T>G	ENSP00000421736:p.Val5Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q32MC9|Q8NEU7	Missense_Mutation	SNP	ENST00000508064.2	37	CCDS44310.1	.	.	.	.	.	.	.	.	.	.	T	10.27	1.304420	0.23736	.	.	ENSG00000197721	ENST00000444269;ENST00000508064	T	0.32023	1.47	2.95	-5.9	0.02275	.	.	.	.	.	T	0.04952	0.0133	N	0.00436	-1.5	0.09310	N	1	P	0.41475	0.751	B	0.36989	0.238	T	0.23404	-1.0189	9	0.16420	T	0.52	.	0.9185	0.01310	0.2027:0.1365:0.2268:0.434	.	5	Q2VPA4	CR1L_HUMAN	G	5	ENSP00000421736:V5G	ENSP00000437875:V5G	V	+	2	0	CR1L	205885215	0.000000	0.05858	0.000000	0.03702	0.008000	0.06430	-2.381000	0.01065	-1.286000	0.02384	-1.304000	0.01323	GTC		0.657	CR1L-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390247.1	XM_114735		G	207818592	T	G	207818592	3	3	569	1	0	0	0	0	1	0	0	0	3843	1667	58	5	16	5	CR1L	1	207818592	Missense_Mutation	SNP	T	TCGA-DW-7839-01A-11D-2136-08	104417966	207818592	41432029	2	33601										
ATF3	467	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	212791490	212791490	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	tagcccctgaagaagatgaaAggaaaaagaggcgacgagaa	13	6	0	6			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr1:212791490A>G	ENST00000341491.4	+	3	527	c.262A>G	c.(262-264)Agg>Ggg	p.R88G	ATF3_ENST00000336937.4_Missense_Mutation_p.R59G|ATF3_ENST00000366985.1_Missense_Mutation_p.R31G|ATF3_ENST00000366987.2_Missense_Mutation_p.R88G|RN7SL512P_ENST00000578962.1_RNA|ATF3_ENST00000492118.1_Intron|ATF3_ENST00000366983.1_Missense_Mutation_p.R88G	NM_001040619.2|NM_001206488.2|NM_001674.3	NP_001035709.1|NP_001193417.2|NP_001665.1	P18847	ATF3_HUMAN	activating transcription factor 3	88	Basic motif. {ECO:0000255|PROSITE- ProRule:PRU00978}.|bZIP. {ECO:0000255|PROSITE- ProRule:PRU00978}.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|gluconeogenesis (GO:0006094)|positive regulation of cell proliferation (GO:0008284)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|skeletal muscle cell differentiation (GO:0035914)	nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	identical protein binding (GO:0042802)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(2)	6				OV - Ovarian serous cystadenocarcinoma(81;0.00628)|all cancers(67;0.0097)|GBM - Glioblastoma multiforme(131;0.0388)|Epithelial(68;0.0933)	Pseudoephedrine(DB00852)	AGAAGATGAAAGGAAAAAGAG	0.438																																																0													119	119	119					1																	212791490		2203	4300	6503	SO:0001583	missense	467			L19871	CCDS1506.1, CCDS41464.1, CCDS55688.1, CCDS58059.1	1q32.3	2013-01-10			ENSG00000162772	ENSG00000162772		"basic leucine zipper proteins"	785	protein-coding gene	gene with protein product		603148				7515060	Standard	NM_001674		Approved		uc021pit.1	P18847	OTTHUMG00000036747	ENST00000341491.4:c.262A>G	1.37:g.212791490A>G	ENSP00000344352:p.Arg88Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VTZ2|Q6ICQ9|Q7Z566|Q8WYM6	Missense_Mutation	SNP	ENST00000341491.4	37	CCDS1506.1	.	.	.	.	.	.	.	.	.	.	A	17.72	3.459129	0.63401	.	.	ENSG00000162772	ENST00000366981;ENST00000366987;ENST00000341491;ENST00000366985;ENST00000366983;ENST00000336937	T;T;T;T;T;T	0.64260	0.47;0.47;0.47;0.47;-0.09;-0.09	5.51	4.37	0.52481	Basic-leucine zipper (bZIP) transcription factor (2);bZIP transcription factor, bZIP-1 (1);	0.083039	0.85682	D	0.000000	T	0.78394	0.4276	.	.	.	0.58432	D	0.999996	D;D;D	0.89917	0.999;1.0;0.999	D;D;D	0.87578	0.998;0.998;0.995	T	0.80289	-0.1445	9	0.87932	D	0	-15.5255	11.4427	0.50107	0.7123:0.2877:0.0:0.0	.	88;88;88	Q7Z567;Q8WYM6;P18847	.;.;ATF3_HUMAN	G	88;88;88;31;88;59	ENSP00000355948:R88G;ENSP00000355954:R88G;ENSP00000344352:R88G;ENSP00000355952:R31G;ENSP00000355950:R88G;ENSP00000336908:R59G	ENSP00000336908:R59G	R	+	1	2	ATF3	210858113	1.000000	0.71417	1.000000	0.80357	0.902000	0.53008	1.306000	0.33505	1.002000	0.39104	-0.435000	0.05868	AGG		0.438	ATF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089296.1	NM_001674		G	212791490	A	G	212791490	3	3	569	1	0	0	0	0	1	0	0	0	1081	63	3	3	268	3	ATF3	1	212791490	Missense_Mutation	SNP	A	TCGA-DW-7839-01A-11D-2136-08	4972898	212791490	36459131	3	33602										
C1orf35	79169	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	228290925	228290925	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	gcctccacgactggagccgaAcatggcgccgggaaggcagt	15	13	0	0			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr1:228290925A>C	ENST00000272139.4	-	1	238	c.4T>G	c.(4-6)Ttc>Gtc	p.F2V	C1orf35_ENST00000472617.1_5'UTR	NM_024319.2	NP_077295.1	Q9BU76	MMTA2_HUMAN	chromosome 1 open reading frame 35	2							poly(A) RNA binding (GO:0044822)			large_intestine(1)|lung(1)|skin(1)	3		Prostate(94;0.0488)				CTGGAGCCGAACATGGCGCCG	0.682																																																0													30	31	31					1																	228290925		2201	4299	6500	SO:0001583	missense	79169			AY137773	CCDS1566.1	1q42.13	2012-06-25			ENSG00000143793	ENSG00000143793			19032	protein-coding gene	gene with protein product	"multiple myeloma tumor-associated protein 2"					12545221	Standard	NM_024319		Approved	MGC4174, MMTAG2	uc001hrx.3	Q9BU76	OTTHUMG00000037793	ENST00000272139.4:c.4T>G	1.37:g.228290925A>C	ENSP00000272139:p.Phe2Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P5Y0|Q6ZTZ6|Q6ZWA6|Q8IZH3	Missense_Mutation	SNP	ENST00000272139.4	37	CCDS1566.1	.	.	.	.	.	.	.	.	.	.	A	17.93	3.510193	0.64522	.	.	ENSG00000143793	ENST00000272139	.	.	.	3.88	2.74	0.32292	.	0.000000	0.85682	D	0.000000	T	0.61009	0.2313	M	0.62723	1.935	0.53005	D	0.999965	D	0.58268	0.982	P	0.52554	0.702	T	0.61207	-0.7109	9	0.66056	D	0.02	-15.7163	8.1877	0.31348	0.8997:0.0:0.1003:0.0	.	2	Q9BU76	MMTA2_HUMAN	V	2	.	ENSP00000272139:F2V	F	-	1	0	C1orf35	226357548	1.000000	0.71417	0.996000	0.52242	0.219000	0.24729	6.640000	0.74319	0.548000	0.28955	0.254000	0.18369	TTC		0.682	C1orf35-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092245.1	NM_024319		C	228290925	A	C	228290925	3	2	569	1	0	0	0	0	1	0	0	0	2040	43	2	5	819	5	C1orf35	1	228290925	Missense_Mutation	SNP	A	TCGA-DW-7839-01A-11D-2136-08	15499435	228290925	20959696	4	33603										
ALMS1	7840	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	73827935	73827935	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	tcttggtcagaagaaaaacgTgaagagaaaatgctctttac	9	6	3	4			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr2:73827935T>C	ENST00000264448.6	+	18	11907	c.11796T>C	c.(11794-11796)cgT>cgC	p.R3932R	ALMS1_ENST00000409009.1_Silent_p.R3890R	NM_015120.4	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3932					endosomal transport (GO:0016197)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|regulation of stress fiber assembly (GO:0051492)	centrosome (GO:0005813)|cilium (GO:0005929)|cytoplasm (GO:0005737)|cytosol (GO:0005829)				breast(4)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(31)|lung(68)|ovary(4)|pancreas(4)|prostate(3)|skin(8)|upper_aerodigestive_tract(1)|urinary_tract(2)	147						AAGAAAAACGTGAAGAGAAAA	0.408																																																0													91	92	91					2																	73827935		2203	4300	6503	SO:0001819	synonymous_variant	7840			AB002326	CCDS42697.1	2p13.1	2014-09-17			ENSG00000116127	ENSG00000116127			428	protein-coding gene	gene with protein product		606844				9063741	Standard	NM_015120		Approved	KIAA0328	uc002sje.1	Q8TCU4	OTTHUMG00000152812	ENST00000264448.6:c.11796T>C	2.37:g.73827935T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q53S05|Q580Q8|Q86VP9|Q9Y4G4	Silent	SNP	ENST00000264448.6	37	CCDS42697.1																																																																																				0.408	ALMS1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000327776.1	NM_015120		C	73827935	T	C	73827935	2	2	569	1	0	0	0	0	0	0	0	1	535	1683	59	3		3	ALMS1	2	73827935	Silent	SNP	T	TCGA-DW-7839-01A-11D-2136-08		73827935	169371438	5	33604										
SPAG16	79582	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	214161997	214161997	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	gtgatctagataccagatgaCaattttagcatcccagaagg	9	8	1	5			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr2:214161997C>G	ENST00000331683.5	+	3	290	c.195C>G	c.(193-195)gaC>gaG	p.D65E	SPAG16_ENST00000432529.2_Missense_Mutation_p.D65E|SPAG16_ENST00000414961.2_3'UTR|SPAG16_ENST00000413312.1_Missense_Mutation_p.D34E|SPAG16_ENST00000374309.3_Missense_Mutation_p.T11R|SPAG16_ENST00000272898.7_Missense_Mutation_p.D65E|SPAG16_ENST00000447990.1_Missense_Mutation_p.D65E	NM_024532.4	NP_078808.3	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16	65					cilium assembly (GO:0042384)|spermatogenesis (GO:0007283)	axoneme (GO:0005930)|microtubule cytoskeleton (GO:0015630)|motile cilium (GO:0031514)|nucleus (GO:0005634)				endometrium(4)|kidney(1)|large_intestine(15)|lung(27)|ovary(1)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	56		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)		TACCAGATGACAATTTTAGCA	0.358																																																0													79	82	81					2																	214161997		2203	4300	6503	SO:0001583	missense	79582			AF310672	CCDS2396.1, CCDS46508.1	2q34	2013-05-21			ENSG00000144451	ENSG00000144451		"WD repeat domain containing"	23225	protein-coding gene	gene with protein product		612173				12391165, 11867345	Standard	NM_024532		Approved	PF20, FLJ22724, DKFZp666P1710, WDR29	uc002veq.4	Q8N0X2	OTTHUMG00000133015	ENST00000331683.5:c.195C>G	2.37:g.214161997C>G	ENSP00000332592:p.Asp65Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q498B7|Q658W1|Q68DB3|Q6I9Z6|Q8N9C7|Q9H601	Missense_Mutation	SNP	ENST00000331683.5	37	CCDS2396.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	12.42|12.42	1.932017|1.932017	0.34096|0.34096	.|.	.|.	ENSG00000144451|ENSG00000144451	ENST00000331683;ENST00000432529;ENST00000413312;ENST00000272898;ENST00000447990|ENST00000374309	T|T	0.57752|0.58210	0.38|0.35	5.7|5.7	1.2|1.2	0.21068|0.21068	.|.	0.071260|.	0.51477|.	D|.	0.000088|.	T|T	0.40322|0.40322	0.1112|0.1112	L|L	0.41632|0.41632	1.29|1.29	0.23309|0.23309	N|N	0.997933|0.997933	P;P;B;P;B|B;B	0.43287|0.12013	0.75;0.802;0.036;0.734;0.06|0.001;0.005	B;B;B;B;B|B;B	0.43478|0.17433	0.168;0.137;0.014;0.421;0.082|0.002;0.018	T|T	0.37709|0.37709	-0.9694|-0.9694	10|9	0.52906|0.87932	T|D	0.07|0	.|.	5.0287|5.0287	0.14398|0.14398	0.0:0.4882:0.1541:0.3577|0.0:0.4882:0.1541:0.3577	.|.	34;5;65;65;65|11;2	Q8N0X2-3;Q4G1A2;Q8N0X2;E7EWV3;Q8N0X2-4|B4DYB5;Q8N0X2-2	.;.;SPG16_HUMAN;.;.|.;.	E|R	65;65;34;65;65|11	ENSP00000332592:D65E|ENSP00000363428:T11R	ENSP00000272898:D65E|ENSP00000363428:T11R	D|T	+|+	3|2	2|0	SPAG16|SPAG16	213870242|213870242	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.625000|0.625000	0.37756|0.37756	0.625000|0.625000	0.24477|0.24477	0.022000|0.022000	0.15160|0.15160	-1.151000|-1.151000	0.01829|0.01829	GAC|ACA		0.358	SPAG16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256601.2	NM_024532		G	214161997	C	G	214161997	3	3	569	1	0	0	0	0	1	0	0	0	14991	477	17	4	205	4	SPAG16	2	214161997	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08	140334062	214161997	29037376	6	33605										
PDZRN3	23024	hgsc.bcm.edu	37	chr3	73673578	73673578	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	cccactggccgcgcgtcgcaGgcgtcgcgcatgtgcgcctc	14	18	0	0	rs6763344	byFrequency	TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr3:73673578G>C	ENST00000263666.4	-	1	513	c.399C>G	c.(397-399)gcC>gcG	p.A133A	PDZRN3_ENST00000308537.4_Silent_p.A133A|PDZRN3-AS1_ENST00000478988.1_RNA|PDZRN3-AS1_ENST00000608304.1_RNA|PDZRN3-AS1_ENST00000608743.1_RNA	NM_015009.1	NP_055824.1	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	133					neuromuscular junction development (GO:0007528)|protein ubiquitination (GO:0016567)	neuromuscular junction (GO:0031594)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(13)|lung(31)|ovary(4)|pancreas(2)|prostate(2)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	69		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		GCGCGTCGCAGGCGTCGCGCA	0.776													C|||	4619	0.922324	0.9781	0.8977	5008	,	,		6325	0.9385		0.8757	False		,,,				2504	0.8957															0													1	1	1					3																	73673578		356	609	965	SO:0001819	synonymous_variant	23024			AB029018	CCDS33789.1	3p14.1	2013-01-09	2008-08-14		ENSG00000121440	ENSG00000121440		"RING-type (C3HC4) zinc fingers"	17704	protein-coding gene	gene with protein product	"likely ortholog of mouse semaF cytoplasmic domain associated protein 3"	609729				10470851	Standard	XM_005264718		Approved	KIAA1095, SEMACAP3, LNX3	uc003dpl.1	Q9UPQ7	OTTHUMG00000158865	ENST00000263666.4:c.399C>G	3.37:g.73673578G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A7MCZ6|Q8N2N7|Q96CC2|Q9NSQ2	Silent	SNP	ENST00000263666.4	37	CCDS33789.1																																																																																				0.776	PDZRN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352460.1	XM_041363		C	73673578	G	C	73673578	2	2	569	1	0	0	0	0	0	0	0	1	11716	987	35	4		4	PDZRN3	3	73673578	Silent	SNP	G	TCGA-DW-7839-01A-11D-2136-08		73673578	124348852	7	33606										
XRN1	54464	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	142141567	142141567	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	aatcatctattatcctttcaAtatcatatttaaatgtgatc	2	7	4	1			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr3:142141567A>T	ENST00000264951.4	-	8	941	c.824T>A	c.(823-825)aTt>aAt	p.I275N	XRN1_ENST00000392981.2_Missense_Mutation_p.I275N|RNU1-100P_ENST00000365255.1_RNA|XRN1_ENST00000544157.1_Missense_Mutation_p.I65N|XRN1_ENST00000463916.1_Missense_Mutation_p.I275N	NM_019001.3	NP_061874.3	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1	275					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay (GO:0043928)|gene expression (GO:0010467)|histone mRNA catabolic process (GO:0071044)|mRNA metabolic process (GO:0016071)|nuclear mRNA surveillance (GO:0071028)|nuclear-transcribed mRNA catabolic process (GO:0000956)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|RNA metabolic process (GO:0016070)|rRNA catabolic process (GO:0016075)	cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|membrane (GO:0016020)	5'-3' exonuclease activity (GO:0008409)|DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(3)|endometrium(6)|kidney(12)|large_intestine(11)|liver(1)|lung(17)|ovary(3)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	61						TATCCTTTCAATATCATATTT	0.323																																																0													70	77	75					3																	142141567		2202	4299	6501	SO:0001583	missense	54464			AY137776	CCDS3123.1, CCDS63801.1, CCDS75028.1	3q23	2008-02-05			ENSG00000114127	ENSG00000114127			30654	protein-coding gene	gene with protein product		607994				12515382	Standard	XM_005247544		Approved	SEP1	uc003eus.3	Q8IZH2	OTTHUMG00000159251	ENST00000264951.4:c.824T>A	3.37:g.142141567A>T	ENSP00000264951:p.Ile275Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0S3|Q68D88|Q6AI24|Q6MZS8|Q86WS7|Q8N8U4|Q9UF39	Missense_Mutation	SNP	ENST00000264951.4	37	CCDS3123.1	.	.	.	.	.	.	.	.	.	.	A	23.9	4.466391	0.84425	.	.	ENSG00000114127	ENST00000264951;ENST00000392981;ENST00000463916;ENST00000544157;ENST00000477237	T;T	0.34472	1.36;1.36	5.69	5.69	0.88448	.	0.163395	0.56097	D	0.000029	T	0.60301	0.2258	M	0.77103	2.36	0.54753	D	0.999985	D;P;D;D;P	0.56968	0.978;0.879;0.963;0.96;0.932	D;P;P;P;P	0.65323	0.934;0.754;0.615;0.782;0.492	T	0.63033	-0.6727	10	0.51188	T	0.08	-19.9739	15.9662	0.79974	1.0:0.0:0.0:0.0	.	65;275;136;275;275	B4E2K3;Q8IZH2-3;B3KW17;Q8IZH2-2;Q8IZH2	.;.;.;.;XRN1_HUMAN	N	275;275;275;65;136	ENSP00000264951:I275N;ENSP00000376707:I275N	ENSP00000264951:I275N	I	-	2	0	XRN1	143624257	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	8.930000	0.92872	2.171000	0.68590	0.528000	0.53228	ATT		0.323	XRN1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000354087.2	NM_019001		T	142141567	A	T	142141567	3	4	569	1	0	0	0	0	1	0	0	0	17471	101	4	5	4436	5	XRN1	3	142141567	Missense_Mutation	SNP	A	TCGA-DW-7839-01A-11D-2136-08	68467989	142141567	55880863	8	33607										
ATP11B	23200	bcgsc.ca	37	chr3	182597406	182597429	+	In_Frame_Del	DEL	GCTGTCGTATGGCTCCACTGCAGA	GCTGTCGTATGGCTCCACTGCAGA	-													0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	aaattgttcagctgtattatGctgtcgtatggctccactgc							TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	GCTGTCGTATGGCTCCACTGCAGA	GCTGTCGTATGGCTCCACTGCAGA	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr3:182597406_182597429delGCTGTCGTATGGCTCCACTGCAGA	ENST00000323116.5	+	20	2635_2658	c.2375_2398delGCTGTCGTATGGCTCCACTGCAGA	c.(2374-2400)tgctgtcgtatggctccactgcagaaa>taa	p.792_800CCRMAPLQK>*		NM_014616.2	NP_055431.1	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	792					aminophospholipid transport (GO:0015917)|ion transmembrane transport (GO:0034220)|ion transport (GO:0006811)|phospholipid translocation (GO:0045332)|transmembrane transport (GO:0055085)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nuclear inner membrane (GO:0005637)|plasma membrane (GO:0005886)|recycling endosome (GO:0055037)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|ion transmembrane transporter activity (GO:0015075)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)	p.P797L(1)|p.P797R(1)|p.Q799H(1)		breast(3)|cervix(2)|endometrium(2)|kidney(4)|large_intestine(6)|liver(2)|lung(14)|ovary(2)|pancreas(2)|prostate(1)|skin(2)|urinary_tract(1)	41	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			GCTGTATTATGCTGTCGTATGGCTCCACTGCAGAAAGCAAAAGT	0.366																																																3	Substitution - Missense(3)	lung(1)|breast(1)|skin(1)																																								SO:0001651	inframe_deletion	23200			AF156548	CCDS33896.1	3q27	2010-04-20	2007-09-19		ENSG00000058063	ENSG00000058063		"ATPases / P-type"	13553	protein-coding gene	gene with protein product		605869	"ATPase, Class VI, type 11B"			10231032, 11015572	Standard	NM_014616		Approved	ATPIF, ATPIR, KIAA0956	uc003flb.3	Q9Y2G3	OTTHUMG00000158295	ENST00000323116.5:c.2375_2398delGCTGTCGTATGGCTCCACTGCAGA	3.37:g.182597406_182597429delGCTGTCGTATGGCTCCACTGCAGA	ENSP00000321195:p.Cys792_Lys800delins*	Somatic		WXS	Illumina HiSeq	Phase_1	Q96FN1|Q9UKK7	In_Frame_Del	DEL	ENST00000323116.5	37	CCDS33896.1																																																																																				0.366	ATP11B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350598.1	NM_014616		-	182597429	GCTGTCGTATGGCTCCACTGCAGA	-	182597406	7	5	569	1	0	1	0	1	0	0	0	0	1120	1319	46	0	2453	0	ATP11B	3	182597406	In_Frame_Del	DEL	GCTGTCGTATGGCTCCACTGCAGA	TCGA-DW-7839-01A-11D-2136-08	40455839	182597406	15425024	9	33608										
SLBP	7884	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	1701385	1701385	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	taggacactttcatctgtctCaaagtcagccggcacagtag	9	11	4	0			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr4:1701385C>G	ENST00000489418.1	-	5	751	c.385G>C	c.(385-387)Gag>Cag	p.E129Q	SLBP_ENST00000429429.2_Missense_Mutation_p.E90Q|SLBP_ENST00000488267.1_Missense_Mutation_p.E94Q|SLBP_ENST00000318386.4_Missense_Mutation_p.E136Q	NM_006527.2	NP_006518.1	Q14493	SLBP_HUMAN	stem-loop binding protein	129	RNA-binding.				gene expression (GO:0010467)|histone mRNA 3'-end processing (GO:0006398)|histone mRNA metabolic process (GO:0008334)|mRNA 3'-end processing (GO:0031124)|mRNA export from nucleus (GO:0006406)|mRNA transport (GO:0051028)|nuclear cell cycle DNA replication (GO:0033260)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|histone pre-mRNA 3'end processing complex (GO:0071204)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	histone pre-mRNA DCP binding (GO:0071208)|histone pre-mRNA stem-loop binding (GO:0071207)|mRNA binding (GO:0003729)|poly(A) RNA binding (GO:0044822)			endometrium(1)|large_intestine(2)|lung(2)	5		Breast(71;0.212)|all_epithelial(65;0.241)	OV - Ovarian serous cystadenocarcinoma(23;0.0055)			TCATCTGTCTCAAAGTCAGCC	0.398																																																0													126	117	120					4																	1701385		2203	4300	6503	SO:0001583	missense	7884			Z71188	CCDS3350.1	4p16.3	2008-02-11	2008-02-11		ENSG00000163950	ENSG00000163950			10904	protein-coding gene	gene with protein product	"histone binding protein"	602422	"stem-loop (histone) binding protein"			9049306, 1338771	Standard	NM_006527		Approved	HBP	uc003gdi.1	Q14493	OTTHUMG00000089349	ENST00000489418.1:c.385G>C	4.37:g.1701385C>G	ENSP00000417686:p.Glu129Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRJ5	Missense_Mutation	SNP	ENST00000489418.1	37	CCDS3350.1	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	C|C|C	29.7|29.7|29.7	5.030846|5.030846|5.030846	0.93575|0.93575|0.93575	.|.|.	.|.|.	ENSG00000163950|ENSG00000163950|ENSG00000163950	ENST00000429429;ENST00000489418;ENST00000460392;ENST00000318386;ENST00000488267|ENST00000483348|ENST00000480936	.|.|.	.|.|.	.|.|.	5.08|5.08|5.08	5.08|5.08|5.08	0.68730|0.68730|0.68730	.|.|.	0.103824|.|.	0.64402|.|.	D|.|.	0.000005|.|.	D|D|.	0.84781|0.84781|.	0.5548|0.5548|.	M|M|M	0.89534|0.89534|0.89534	3.04|3.04|3.04	0.80722|0.80722|0.80722	D|D|D	1|1|1	D;P;D;D;D|.|.	0.89917|.|.	1.0;0.915;0.985;0.985;0.985|.|.	D;P;P;P;P|.|.	0.91635|.|.	0.999;0.653;0.804;0.804;0.804|.|.	D|D|.	0.87783|0.87783|.	0.2613|0.2613|.	9|5|.	0.72032|.|.	D|.|.	0.01|.|.	-9.2509|-9.2509|-9.2509	18.53|18.53|18.53	0.90987|0.90987|0.90987	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.|.	94;136;90;109;129|.|.	E7EUV9;F8W8D3;B3KRJ5;C9IY53;Q14493|.|.	.;.;.;.;SLBP_HUMAN|.|.	Q|F|S	90;129;109;136;94|83|136	.|.|.	ENSP00000316490:E136Q|.|.	E|L|X	-|-|-	1|3|2	0|2|2	SLBP|SLBP|SLBP	1671183|1671183|1671183	1.000000|1.000000|1.000000	0.71417|0.71417|0.71417	0.949000|0.949000|0.949000	0.38748|0.38748|0.38748	0.969000|0.969000|0.969000	0.65631|0.65631|0.65631	7.142000|7.142000|7.142000	0.77339|0.77339|0.77339	2.382000|2.382000|2.382000	0.81193|0.81193|0.81193	0.644000|0.644000|0.644000	0.83932|0.83932|0.83932	GAG|TTG|TGA		0.398	SLBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000203176.1	NM_006527		G	1701385	C	G	1701385	3	3	569	1	0	0	0	0	1	0	0	0	14385	835	29	4	443	4	SLBP	4	1701385	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08		1701385	189452891	10	33609										
BOD1L	259282	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	13604361	13604361	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	caatcacgcccgttaacttaCttccaagaggcatgattacc	6	13	1	2			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr4:13604361C>T	ENST00000040738.5	-	10	4298	c.4163G>A	c.(4162-4164)aGt>aAt	p.S1388N		NM_148894.2	NP_683692.2	Q8NFC6	BD1L1_HUMAN	biorientation of chromosomes in cell division 1-like 1	1388						nucleus (GO:0005634)	DNA binding (GO:0003677)										CGTTAACTTACTTCCAAGAGG	0.418																																																0													139	134	135					4																	13604361		2203	4300	6503	SO:0001583	missense	259282			AF528529	CCDS3411.2	4p16.1	2012-04-10	2012-04-10	2012-04-10	ENSG00000038219	ENSG00000038219			31792	protein-coding gene	gene with protein product			"family with sequence similarity 44, member A", "biorientation of chromosomes in cell division 1-like"	FAM44A, BOD1L			Standard	XM_005248150		Approved	FLJ33215, KIAA1327	uc003gmz.1	Q8NFC6	OTTHUMG00000090659	ENST00000040738.5:c.4163G>A	4.37:g.13604361C>T	ENSP00000040738:p.Ser1388Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P0M8|Q96AL1|Q9H6G0|Q9NTD6|Q9P2L9	Missense_Mutation	SNP	ENST00000040738.5	37	CCDS3411.2	.	.	.	.	.	.	.	.	.	.	C	8.574	0.880637	0.17467	.	.	ENSG00000038219	ENST00000040738	T	0.06768	3.26	5.02	0.266	0.15617	.	0.228445	0.31577	N	0.007419	T	0.04952	0.0133	N	0.24115	0.695	0.09310	N	1	B	0.14438	0.01	B	0.10450	0.005	T	0.34775	-0.9815	10	0.38643	T	0.18	0.0109	6.4855	0.22087	0.0:0.5089:0.1283:0.3629	.	1388	Q8NFC6	BOD1L_HUMAN	N	1388	ENSP00000040738:S1388N	ENSP00000040738:S1388N	S	-	2	0	BOD1L	13213459	0.008000	0.16893	0.000000	0.03702	0.002000	0.02628	0.472000	0.22116	0.111000	0.17947	-0.136000	0.14681	AGT		0.418	BOD1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207321.1	NM_148894		T	13604361	C	T	13604361	3	4	569	1	0	0	0	0	1	0	0	0	1483	565	20	2	5060	2	BOD1L	4	13604361	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08	11902976	13604361	177549915	11	33610										
GRIA1	2890	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	153078528	153078528	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	gcggcagagattgccaagcaCgtgggctactcctaccgtct	12	13	1	1			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr5:153078528C>G	ENST00000285900.5	+	10	1690	c.1347C>G	c.(1345-1347)caC>caG	p.H449Q	GRIA1_ENST00000518142.1_Missense_Mutation_p.H369Q|GRIA1_ENST00000521843.2_Missense_Mutation_p.H380Q|GRIA1_ENST00000518783.1_Missense_Mutation_p.H459Q|GRIA1_ENST00000448073.4_Missense_Mutation_p.H459Q|GRIA1_ENST00000340592.5_Missense_Mutation_p.H449Q	NM_000827.3|NM_001258019.1	NP_000818.2|NP_001244948.1	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1	449					ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|long-term memory (GO:0007616)|receptor internalization (GO:0031623)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex (GO:0032281)|axonal spine (GO:0044308)|cell junction (GO:0030054)|cell surface (GO:0009986)|dendrite (GO:0030425)|dendrite membrane (GO:0032590)|dendritic spine (GO:0043197)|endocytic vesicle membrane (GO:0030666)|endoplasmic reticulum (GO:0005783)|neuron spine (GO:0044309)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)|synaptic vesicle (GO:0008021)	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:0004971)|extracellular-glutamate-gated ion channel activity (GO:0005234)|glutamate receptor activity (GO:0008066)|PDZ domain binding (GO:0030165)			NS(1)|breast(4)|endometrium(7)|kidney(3)|large_intestine(24)|liver(2)|lung(23)|ovary(4)|pancreas(1)|prostate(5)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	81		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Perampanel(DB08883)|Sevoflurane(DB01236)	TTGCCAAGCACGTGGGCTACT	0.537																																																0													110	98	102					5																	153078528		2203	4300	6503	SO:0001583	missense	2890				CCDS4322.1, CCDS47318.1, CCDS58986.1, CCDS58987.1, CCDS58988.1, CCDS58989.1	5q33	2012-08-29			ENSG00000155511	ENSG00000155511		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4571	protein-coding gene	gene with protein product		138248		GLUR1		1652753, 1319477	Standard	NM_000827		Approved	GluA1, GLURA	uc011dcy.2	P42261	OTTHUMG00000130148	ENST00000285900.5:c.1347C>G	5.37:g.153078528C>G	ENSP00000285900:p.His449Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2S0|B7Z2W8|B7Z3F6|B7Z9G9|D3DQI4|E7ESV8|Q2NKM6	Missense_Mutation	SNP	ENST00000285900.5	37	CCDS4322.1	.	.	.	.	.	.	.	.	.	.	C	15.85	2.955998	0.53293	.	.	ENSG00000155511	ENST00000285900;ENST00000544403;ENST00000518142;ENST00000537037;ENST00000340592;ENST00000521843;ENST00000544794;ENST00000518783;ENST00000448073	T;T;T;T;T;T;T	0.37584	1.8;1.8;1.19;1.8;1.8;1.8;1.19	5.44	-4.24	0.03777	Glutamate receptor, L-glutamate/glycine-binding (2);Ionotropic glutamate receptor (1);	0.000000	0.85682	D	0.000000	T	0.44891	0.1315	L	0.55103	1.725	0.58432	D	0.999994	D;D;B;D;D;D	0.56521	0.976;0.976;0.012;0.976;0.971;0.962	P;P;B;P;P;P	0.59761	0.82;0.863;0.018;0.82;0.726;0.849	T	0.44997	-0.9291	10	0.44086	T	0.13	.	15.008	0.71527	0.0:0.6256:0.0:0.3744	.	459;459;369;459;449;449	E7ESV8;B7Z9G9;B7Z3F6;B7Z2W8;P42261-2;P42261	.;.;.;.;.;GRIA1_HUMAN	Q	449;449;369;403;449;380;380;459;459	ENSP00000285900:H449Q;ENSP00000427920:H369Q;ENSP00000339343:H449Q;ENSP00000427864:H380Q;ENSP00000442108:H380Q;ENSP00000428994:H459Q;ENSP00000415569:H459Q	ENSP00000285900:H449Q	H	+	3	2	GRIA1	153058721	0.000000	0.05858	0.981000	0.43875	0.975000	0.68041	-1.954000	0.01525	-0.842000	0.04195	-0.794000	0.03295	CAC		0.537	GRIA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252456.3			G	153078528	C	G	153078528	3	3	569	1	0	0	0	0	1	0	0	0	6774	535	19	4	1385	4	GRIA1	5	153078528	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08		153078528	27836732	12	33611										
PTK7	5754	hgsc.bcm.edu;bcgsc.ca	37	chr6	43044271	43044271	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	gccagaccccgccggttgccTctgctcagcgtcctgctgct	11	18	2	1			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr6:43044271T>G	ENST00000230419.4	+	1	266	c.45T>G	c.(43-45)ccT>ccG	p.P15P	PTK7_ENST00000352931.2_Silent_p.P15P|PTK7_ENST00000345201.2_Silent_p.P15P|PTK7_ENST00000481273.1_5'Flank|PTK7_ENST00000471863.1_Silent_p.P15P|RP11-387M24.5_ENST00000606123.1_RNA|PTK7_ENST00000349241.2_Silent_p.P15P|PTK7_ENST00000476760.1_Silent_p.P15P	NM_002821.4	NP_002812.2	Q13308	PTK7_HUMAN	protein tyrosine kinase 7	15					actin cytoskeleton reorganization (GO:0031532)|axis elongation (GO:0003401)|canonical Wnt signaling pathway (GO:0060070)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|cellular response to retinoic acid (GO:0071300)|cochlea morphogenesis (GO:0090103)|convergent extension (GO:0060026)|establishment of epithelial cell apical/basal polarity (GO:0045198)|establishment of planar polarity (GO:0001736)|lung-associated mesenchyme development (GO:0060484)|neural tube closure (GO:0001843)|peptidyl-tyrosine phosphorylation (GO:0018108)|planar cell polarity pathway involved in neural tube closure (GO:0090179)|positive regulation of neuron projection development (GO:0010976)|signal transduction (GO:0007165)|wound healing (GO:0042060)	cell-cell junction (GO:0005911)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)	ATP binding (GO:0005524)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(12)|lung(12)|ovary(2)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	46			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00784)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			GCCGGTTGCCTCTGCTCAGCG	0.716																																																0													7	10	9					6																	43044271		2101	4167	6268	SO:0001819	synonymous_variant	5754			AF447176	CCDS4884.1, CCDS4885.1, CCDS4886.1, CCDS4887.1, CCDS59021.1	6p21.1-p12.2	2013-02-18	2013-02-18		ENSG00000112655	ENSG00000112655	2.7.10.1	"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9618	protein-coding gene	gene with protein product		601890	"PTK7 protein tyrosine kinase 7"			7478540	Standard	NM_002821		Approved	CCK4	uc011dve.2	Q13308	OTTHUMG00000014721	ENST00000230419.4:c.45T>G	6.37:g.43044271T>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K974|B7Z477|E9PFZ5|Q13417|Q5T650|Q6IQ54|Q8NFA5|Q8NFA6|Q8NFA7|Q8NFA8	Silent	SNP	ENST00000230419.4	37	CCDS4884.1																																																																																				0.716	PTK7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040580.2			G	43044271	T	G	43044271	2	3	569	1	0	0	0	0	0	0	0	1	12776	1538	54	5		5	PTK7	6	43044271	Silent	SNP	T	TCGA-DW-7839-01A-11D-2136-08		43044271	128070796	13	33612										
SP8	221833	hgsc.bcm.edu	37	chr7	20824953	20824953	+	Silent	SNP	G	G	C													0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	gcggaggagccgccgccgccGcccccgccgccgccgccgct							TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr7:20824953G>C	ENST00000361443.4	-	3	666	c.429C>G	c.(427-429)ggC>ggG	p.G143G	SP8_ENST00000418710.2_Silent_p.G161G	NM_198956.2	NP_945194.1	Q8IXZ3	SP8_HUMAN	Sp8 transcription factor	143					dorsal/ventral pattern formation (GO:0009953)|embryonic limb morphogenesis (GO:0030326)|proximal/distal pattern formation (GO:0009954)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|large_intestine(2)|lung(1)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	8						cgccgccgccgcccccgccgc	0.736																																																0													2	2	2					7																	20824953		584	1454	2038	SO:0001819	synonymous_variant	221833				CCDS5372.1, CCDS43555.1	7p21.2	2013-01-08			ENSG00000164651	ENSG00000164651		"Specificity protein transcription factors", "Zinc fingers, C2H2-type"	19196	protein-coding gene	gene with protein product		608306					Standard	NM_182700		Approved		uc003suz.3	Q8IXZ3	OTTHUMG00000094788	ENST00000361443.4:c.429C>G	7.37:g.20824953G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z615|Q7Z616|Q96MJ1	Silent	SNP	ENST00000361443.4	37	CCDS5372.1																																																																																				0.736	SP8-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000326904.2			C	20824953	G	C	20824953	2	2	569	1	0	0	0	0	0	0	0	1	14983	1074	38	4		4	SP8	7	20824953	Silent	SNP	G	TCGA-DW-7839-01A-11D-2136-08		20824953	138313710	14	33613	257	2								
SP8	221833	hgsc.bcm.edu	37	chr7	20824956	20824956	+	Silent	SNP	C	C	G													0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	gaggagccgccgccgccgccCccgccgccgccgccgctgcc					rs201180283		TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr7:20824956C>G	ENST00000361443.4	-	3	663	c.426G>C	c.(424-426)ggG>ggC	p.G142G	SP8_ENST00000418710.2_Silent_p.G160G	NM_198956.2	NP_945194.1	Q8IXZ3	SP8_HUMAN	Sp8 transcription factor	142					dorsal/ventral pattern formation (GO:0009953)|embryonic limb morphogenesis (GO:0030326)|proximal/distal pattern formation (GO:0009954)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|large_intestine(2)|lung(1)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	8						cgccgccgcccccgccgccgc	0.741																																																0													2	2	2					7																	20824956		542	1367	1909	SO:0001819	synonymous_variant	221833				CCDS5372.1, CCDS43555.1	7p21.2	2013-01-08			ENSG00000164651	ENSG00000164651		"Specificity protein transcription factors", "Zinc fingers, C2H2-type"	19196	protein-coding gene	gene with protein product		608306					Standard	NM_182700		Approved		uc003suz.3	Q8IXZ3	OTTHUMG00000094788	ENST00000361443.4:c.426G>C	7.37:g.20824956C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z615|Q7Z616|Q96MJ1	Silent	SNP	ENST00000361443.4	37	CCDS5372.1																																																																																				0.741	SP8-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000326904.2			G	20824956	C	G	20824956	2	3	569	1	0	0	0	0	0	0	0	1	14983	610	22	4		4	SP8	7	20824956	Silent	SNP	C	TCGA-DW-7839-01A-11D-2136-08	3	20824956	138313707	15	33614	257	2								
HNRNPA2B1	3181	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	26235509	26235509	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	attatagccatccccaaatcCacgtccactgccatatccat	3	16	0	0			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr7:26235509C>T	ENST00000354667.4	-	8	883	c.715G>A	c.(715-717)Gga>Aga	p.G239R	HNRNPA2B1_ENST00000356674.7_Missense_Mutation_p.G227R	NM_031243.2	NP_112533.1	P22626	ROA2_HUMAN	heterogeneous nuclear ribonucleoprotein A2/B1	239	Gly-rich.				gene expression (GO:0010467)|mRNA processing (GO:0006397)|mRNA splicing, via spliceosome (GO:0000398)|negative regulation of mRNA splicing, via spliceosome (GO:0048025)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|RNA splicing (GO:0008380)|RNA transport (GO:0050658)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)|spliceosomal complex (GO:0005681)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|pre-mRNA intronic binding (GO:0097157)|RNA binding (GO:0003723)|single-stranded telomeric DNA binding (GO:0043047)		HNRNPA2B1/ETV1(8)	breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(12)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	22						TCCCCAAATCCACGTCCACTG	0.378			T	ETV1	prostate																																		Dom	yes		7	7p15	3181	heterogeneous nuclear ribonucleoprotein A2/B1		E	0													110	94	100					7																	26235509		2203	4300	6503	SO:0001583	missense	3181			D28877	CCDS5397.1, CCDS43557.1	7p15	2013-02-12		2007-08-16	ENSG00000122566	ENSG00000122566		"RNA binding motif (RRM) containing"	5033	protein-coding gene	gene with protein product		600124		HNRPA2B1		8029005	Standard	NM_002137		Approved		uc003sxr.4	P22626	OTTHUMG00000023471	ENST00000354667.4:c.715G>A	7.37:g.26235509C>T	ENSP00000346694:p.Gly239Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K064|P22627|Q9UC98|Q9UDJ2	Missense_Mutation	SNP	ENST00000354667.4	37	CCDS43557.1	.	.	.	.	.	.	.	.	.	.	C	17.40	3.379588	0.61845	.	.	ENSG00000122566	ENST00000354667;ENST00000356674	D;D	0.86627	-2.15;-2.15	5.92	5.92	0.95590	.	0.000000	0.64402	D	0.000002	D	0.89015	0.6595	M	0.65677	2.01	0.40149	D	0.976921	D;D	0.56968	0.978;0.963	P;B	0.48524	0.58;0.376	D	0.86218	0.1629	10	0.20046	T	0.44	.	20.327	0.98704	0.0:1.0:0.0:0.0	.	227;239	P22626-2;P22626	.;ROA2_HUMAN	R	239;227	ENSP00000346694:G239R;ENSP00000349101:G227R	ENSP00000346694:G239R	G	-	1	0	HNRNPA2B1	26202034	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	4.505000	0.60421	2.794000	0.96219	0.650000	0.86243	GGA		0.378	HNRNPA2B1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000214109.1	NM_002137		T	26235509	C	T	26235509	3	4	569	1	0	0	0	0	1	0	0	0	7266	603	21	2	362	2	HNRNPA2B1	7	26235509	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08	5410553	26235509	132903154	16	33615										
SAMD9	54809	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	92734994	92734994	+	Frame_Shift_Del	DEL	T	T	-													0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	ttatcttctatgagctcaacTtttagtgacttagaaccttt							TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr7:92734994delT	ENST00000379958.2	-	3	686	c.417delA	c.(415-417)aaafs	p.K139fs		NM_001193307.1|NM_017654.3	NP_001180236.1|NP_060124.2	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	139						cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)				NS(1)|breast(4)|central_nervous_system(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(20)|lung(32)|ovary(4)|prostate(1)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(2)	88	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			TGAGCTCAACTTTTAGTGACT	0.358																																																0													124	134	130					7																	92734994		2203	4300	6503	SO:0001589	frameshift_variant	54809			AB095925	CCDS34680.1	7q21.2	2013-01-10	2004-07-15	2004-07-16	ENSG00000205413	ENSG00000205413		"Sterile alpha motif (SAM) domain containing"	1348	protein-coding gene	gene with protein product		610456	"chromosome 7 open reading frame 5"	C7orf5			Standard	NM_017654		Approved	KIAA2004, FLJ20073	uc003umg.3	Q5K651	OTTHUMG00000155809	ENST00000379958.2:c.417delA	7.37:g.92734994delT	ENSP00000369292:p.Lys139fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU68|Q5K649|Q6P080|Q75N21|Q8IVG6|Q9NXS8	Frame_Shift_Del	DEL	ENST00000379958.2	37	CCDS34680.1																																																																																				0.358	SAMD9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341761.1	NM_017654		-	92734994	T	-	92734994	7	5	569	1	0	1	0	1	0	0	0	0	13839	1606	56	0	4356	0	SAMD9	7	92734994	Frame_Shift_Del	DEL	T	TCGA-DW-7839-01A-11D-2136-08	66499485	92734994	66403669	17	33616										
MGAM	8972	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	141731533	141731533	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	accaatcccaactgtgctgtTtggtggacaaaggaatttga	10	8	0	1			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr7:141731533T>G	ENST00000549489.2	+	13	1619	c.1524T>G	c.(1522-1524)gtT>gtG	p.V508V	MGAM_ENST00000475668.2_Silent_p.V508V	NM_004668.2	NP_004659.2	O43451	MGA_HUMAN	maltase-glucoamylase (alpha-glucosidase)	508	Maltase.				carbohydrate metabolic process (GO:0005975)|polysaccharide digestion (GO:0044245)|small molecule metabolic process (GO:0044281)|starch catabolic process (GO:0005983)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	alpha-1,4-glucosidase activity (GO:0004558)|amylase activity (GO:0016160)|carbohydrate binding (GO:0030246)|catalytic activity (GO:0003824)|glucan 1,4-alpha-glucosidase activity (GO:0004339)|maltose alpha-glucosidase activity (GO:0032450)			cervix(1)|endometrium(1)|large_intestine(4)|lung(3)|ovary(2)|skin(2)	13	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	ACTGTGCTGTTTGGTGGACAA	0.363																																																0													169	157	161					7																	141731533		1835	4091	5926	SO:0001819	synonymous_variant	8972			AF016833	CCDS47727.1	7q34	2012-10-03			ENSG00000257335	ENSG00000257335			7043	protein-coding gene	gene with protein product		154360				9446624	Standard	NM_004668		Approved	MGA	uc003vwy.3	O43451	OTTHUMG00000158395	ENST00000549489.2:c.1524T>G	7.37:g.141731533T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAX6|Q75ME7|Q86UM5	Silent	SNP	ENST00000549489.2	37	CCDS47727.1																																																																																				0.363	MGAM-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000351244.3			G	141731533	T	G	141731533	2	3	569	1	0	0	0	0	0	0	0	1	9548	1828	64	5		5	MGAM	7	141731533	Silent	SNP	T	TCGA-DW-7839-01A-11D-2136-08	48996539	141731533	17407130	18	33617										
TAS2R41	259287	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	143175477	143175477	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	ttctgggaacatgacctacaAgtggaatacaaggatagaaa	10	6	1	2			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr7:143175477A>T	ENST00000408916.1	+	1	512	c.512A>T	c.(511-513)aAg>aTg	p.K171M	EPHA1-AS1_ENST00000429289.1_RNA	NM_176883.2	NP_795364.2	P59536	T2R41_HUMAN	taste receptor, type 2, member 41	171					sensory perception of taste (GO:0050909)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			endometrium(2)|large_intestine(2)|lung(10)|pancreas(1)|prostate(2)|skin(1)	18	Melanoma(164;0.15)					ATGACCTACAAGTGGAATACA	0.358																																																0													65	63	63					7																	143175477		1827	4093	5920	SO:0001583	missense	259287			AF494232	CCDS43663.1	7q34	2012-08-22			ENSG00000221855	ENSG00000221855		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	18883	protein-coding gene	gene with protein product		613965				12379855	Standard	NM_176883		Approved	T2R59	uc003wdc.1	P59536	OTTHUMG00000155892	ENST00000408916.1:c.512A>T	7.37:g.143175477A>T	ENSP00000386201:p.Lys171Met	Somatic		WXS	Illumina HiSeq	Phase_I	P59550|Q495I2|Q50KJ5|Q50KJ6|Q50KJ7|Q645W7	Missense_Mutation	SNP	ENST00000408916.1	37	CCDS43663.1	.	.	.	.	.	.	.	.	.	.	A	2.606	-0.291927	0.05568	.	.	ENSG00000221855	ENST00000408916	T	0.00824	5.65	5.79	3.37	0.38596	.	2.257240	0.02520	U	0.092493	T	0.01454	0.0047	L	0.49571	1.57	0.09310	N	1	B	0.32573	0.376	B	0.26202	0.067	T	0.48115	-0.9063	10	0.41790	T	0.15	.	6.5138	0.22236	0.6261:0.2953:0.0786:0.0	.	171	P59536	T2R41_HUMAN	M	171	ENSP00000386201:K171M	ENSP00000386201:K171M	K	+	2	0	TAS2R41	142885599	0.000000	0.05858	0.119000	0.21687	0.009000	0.06853	0.535000	0.23114	1.000000	0.39049	0.533000	0.62120	AAG		0.358	TAS2R41-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342149.1			T	143175477	A	T	143175477	3	4	569	1	0	0	0	0	1	0	0	0	15591	72	3	5	514	5	TAS2R41	7	143175477	Missense_Mutation	SNP	A	TCGA-DW-7839-01A-11D-2136-08	1443944	143175477	15963186	19	33618										
LRRC14	9684	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	145746824	145746825	+	Frame_Shift_Del	DEL	AT	AT	-													0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	atgtgctctggaccacggacAtctacgggcgactggctgcg					rs571447719		TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr8:145746824_145746825delAT	ENST00000292524.1	+	4	1590_1591	c.1444_1445delAT	c.(1444-1446)atcfs	p.I482fs	LRRC14_ENST00000529022.1_Frame_Shift_Del_p.I482fs	NM_001272036.1|NM_014665.2	NP_001258965.1|NP_055480.1	Q15048	LRC14_HUMAN	leucine rich repeat containing 14	482										endometrium(1)|lung(3)|prostate(1)	5	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			GACCACGGACATCTACGGGCGA	0.589																																																0																																										SO:0001589	frameshift_variant	9684			BC011377	CCDS6432.1	8q24.3	2012-08-20			ENSG00000160959	ENSG00000160959			20419	protein-coding gene	gene with protein product						7584026	Standard	NM_001272036		Approved	KIAA0014, LRRC14A	uc003zdk.3	Q15048	OTTHUMG00000165179	ENST00000292524.1:c.1444_1445delAT	8.37:g.145746824_145746825delAT	ENSP00000292524:p.Ile482fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0A8|D3DWM8	Frame_Shift_Del	DEL	ENST00000292524.1	37	CCDS6432.1																																																																																				0.589	LRRC14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382494.1	NM_014665		-	145746825	AT	-	145746824	7	5	569	1	0	1	0	1	0	0	0	0	8975	217	8	0	1454	0	LRRC14	8	145746824	Frame_Shift_Del	DEL	AT	TCGA-DW-7839-01A-11D-2136-08		145746824	617198	20	33619										
DENND4C	55667	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	19316719	19316719	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	cagcttgagatggaaattcaAgaggcatttttgcgctttat	10	6	1	2			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr9:19316719A>T	ENST00000380432.2	+	8	1014	c.981A>T	c.(979-981)caA>caT	p.Q327H	DENND4C_ENST00000602925.1_Missense_Mutation_p.Q563H|DENND4C_ENST00000434457.2_Missense_Mutation_p.Q563H			Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	327	dDENN. {ECO:0000255|PROSITE- ProRule:PRU00306}.				cellular response to insulin stimulus (GO:0032869)|positive regulation of Rab GTPase activity (GO:0032851)|protein localization to plasma membrane (GO:0072659)|protein transport (GO:0015031)	cytosol (GO:0005829)|insulin-responsive compartment (GO:0032593)|plasma membrane (GO:0005886)|retromer complex (GO:0030904)	Rab guanyl-nucleotide exchange factor activity (GO:0017112)			breast(1)|endometrium(8)|kidney(1)|large_intestine(7)|liver(2)|lung(13)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	40						TGGAAATTCAAGAGGCATTTT	0.403																																																0													121	135	130					9																	19316719		2203	4300	6503	SO:0001583	missense	55667			AK000693	CCDS6491.2, CCDS6491.3	9p22.1	2012-10-03	2006-01-27	2006-01-27	ENSG00000137145	ENSG00000137145		"DENN/MADD domain containing"	26079	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 55B", "chromosome 9 open reading frame 55"	C9orf55B, C9orf55		12906859	Standard	NM_017925		Approved	FLJ20686, bA513M16.3	uc031tcw.1	Q5VZ89	OTTHUMG00000019627	ENST00000380432.2:c.981A>T	9.37:g.19316719A>T	ENSP00000369797:p.Gln327His	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3R1|A2A3R2|A2A3R3|A2A3R9|Q6AI48|Q6ZUB3|Q8NCY7|Q9H6N4|Q9NUT1|Q9NWA5|Q9NWT3	Missense_Mutation	SNP	ENST00000380432.2	37		.	.	.	.	.	.	.	.	.	.	A	16.63	3.176330	0.57692	.	.	ENSG00000137145	ENST00000380437	.	.	.	4.98	-1.92	0.07618	dDENN (3);	0.051808	0.85682	D	0.000000	T	0.75547	0.3864	M	0.79805	2.47	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.75616	-0.3256	9	0.87932	D	0	-12.7766	11.8182	0.52224	0.5022:0.0:0.4978:0.0	.	327	Q5VZ89	DEN4C_HUMAN	H	327	.	ENSP00000369802:Q327H	Q	+	3	2	DENND4C	19306719	0.437000	0.25593	0.989000	0.46669	0.789000	0.44602	-0.194000	0.09559	-0.503000	0.06586	-0.561000	0.04177	CAA		0.403	DENND4C-201	KNOWN	basic	protein_coding	protein_coding		NM_017925		T	19316719	A	T	19316719	3	4	569	1	0	0	0	0	1	0	0	0	4437	69	3	5	1011	5	DENND4C	9	19316719	Missense_Mutation	SNP	A	TCGA-DW-7839-01A-11D-2136-08		19316719	121896712	21	33620										
DENND1A	57706	hgsc.bcm.edu;bcgsc.ca	37	chr9	126214605	126214605	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	tgctttggtctttacagtatTcagaattgctccacttcctt	6	10	2	1			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr9:126214605T>C	ENST00000373624.2	-	17	1450	c.1249A>G	c.(1249-1251)Aat>Gat	p.N417D	DENND1A_ENST00000394219.3_Missense_Mutation_p.N385D|DENND1A_ENST00000373618.1_Missense_Mutation_p.N385D|DENND1A_ENST00000373620.3_Missense_Mutation_p.N417D|DENND1A_ENST00000473039.1_5'UTR|DENND1A_ENST00000394215.2_Missense_Mutation_p.N387D|DENND1A_ENST00000542603.1_Missense_Mutation_p.N159D	NM_020946.1	NP_065997.1	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A	417					endocytosis (GO:0006897)|positive regulation of Rab GTPase activity (GO:0032851)|protein transport (GO:0015031)|regulation of Rab protein signal transduction (GO:0032483)|synaptic vesicle endocytosis (GO:0048488)	cell junction (GO:0030054)|clathrin-coated vesicle (GO:0030136)|clathrin-coated vesicle membrane (GO:0030665)|dendrite (GO:0030425)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|synapse (GO:0045202)	Rab guanyl-nucleotide exchange factor activity (GO:0017112)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(12)|liver(2)|lung(18)|ovary(2)|prostate(1)|skin(1)|stomach(1)	43						TTTACAGTATTCAGAATTGCT	0.413																																																0													173	152	159					9																	126214605		2203	4300	6503	SO:0001583	missense	57706			AB046828	CCDS35133.1, CCDS35134.1	9q34.11	2012-10-03	2005-08-17	2005-08-17	ENSG00000119522	ENSG00000119522		"DENN/MADD domain containing"	29324	protein-coding gene	gene with protein product		613633	"KIAA1608"	KIAA1608		10997877	Standard	XM_005252109		Approved	FLJ21129, FAM31A	uc004bnz.1	Q8TEH3	OTTHUMG00000020643	ENST00000373624.2:c.1249A>G	9.37:g.126214605T>C	ENSP00000362727:p.Asn417Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8MZA3|B1AM80|B7Z3C8|B7Z669|D3PFD3|Q05C88|Q5VWF0|Q6PJZ5|Q8IVD6|Q9H796	Missense_Mutation	SNP	ENST00000373624.2	37	CCDS35133.1	.	.	.	.	.	.	.	.	.	.	T	23.1	4.369121	0.82463	.	.	ENSG00000119522	ENST00000373624;ENST00000542603;ENST00000394219;ENST00000373620;ENST00000394215;ENST00000373618	T;T;T;T;T;T	0.25085	3.28;1.82;3.18;3.32;3.17;3.19	5.47	5.47	0.80525	.	0.093202	0.64402	D	0.000001	T	0.54775	0.1879	M	0.83012	2.62	0.54753	D	0.99998	D;D;D;D;D;D;D	0.76494	0.975;0.975;0.984;0.999;0.984;0.958;0.996	P;P;P;D;P;P;P	0.77557	0.883;0.883;0.84;0.99;0.879;0.767;0.877	T	0.60722	-0.7207	10	0.59425	D	0.04	-17.7065	15.5608	0.76244	0.0:0.0:0.0:1.0	.	385;375;385;387;417;417;237	Q8TEH3-6;Q8TEH3-7;Q8TEH3-4;Q8TEH3-5;Q8TEH3-2;Q8TEH3;Q9HCG4	.;.;.;.;.;DEN1A_HUMAN;.	D	417;159;385;417;387;385	ENSP00000362727:N417D;ENSP00000437457:N159D;ENSP00000377766:N385D;ENSP00000362722:N417D;ENSP00000377763:N387D;ENSP00000362720:N385D	ENSP00000362720:N385D	N	-	1	0	DENND1A	125254426	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	5.570000	0.67398	2.076000	0.62316	0.459000	0.35465	AAT		0.413	DENND1A-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000053997.1	NM_024820		C	126214605	T	C	126214605	3	2	569	1	0	0	0	0	1	0	0	0	4428	1783	62	3	1911	3	DENND1A	9	126214605	Missense_Mutation	SNP	T	TCGA-DW-7839-01A-11D-2136-08	106897886	126214605	14998826	22	33621										
CUBN	8029	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	16943441	16943441	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	gatcactccactgtcacctaTctgtattccgccacaatctg	5	15	4	0			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr10:16943441T>C	ENST00000377833.4	-	52	8145	c.8080A>G	c.(8080-8082)Ata>Gta	p.I2694V		NM_001081.3	NP_001072.2	O60494	CUBN_HUMAN	cubilin (intrinsic factor-cobalamin receptor)	2694	CUB 20. {ECO:0000255|PROSITE- ProRule:PRU00059}.				cholesterol metabolic process (GO:0008203)|cobalamin metabolic process (GO:0009235)|cobalamin transport (GO:0015889)|lipoprotein metabolic process (GO:0042157)|lipoprotein transport (GO:0042953)|receptor-mediated endocytosis (GO:0006898)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|tissue homeostasis (GO:0001894)|vitamin D metabolic process (GO:0042359)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|coated pit (GO:0005905)|cytosol (GO:0005829)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|extrinsic component of external side of plasma membrane (GO:0031232)|Golgi apparatus (GO:0005794)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|cobalamin binding (GO:0031419)|protein homodimerization activity (GO:0042803)|receptor activity (GO:0004872)|transporter activity (GO:0005215)			breast(8)|central_nervous_system(4)|cervix(1)|endometrium(18)|haematopoietic_and_lymphoid_tissue(3)|kidney(12)|large_intestine(42)|liver(1)|lung(107)|ovary(9)|pancreas(2)|prostate(3)|skin(9)|stomach(3)|upper_aerodigestive_tract(11)|urinary_tract(8)	241					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CTGTCACCTATCTGTATTCCG	0.443																																																0													130	105	114					10																	16943441		2203	4300	6503	SO:0001583	missense	8029			AF034611	CCDS7113.1	10p12	2014-09-17			ENSG00000107611	ENSG00000107611			2548	protein-coding gene	gene with protein product		602997		MGA1		9572993, 9478979	Standard	NM_001081		Approved	IFCR, gp280	uc001ioo.3	O60494	OTTHUMG00000017741	ENST00000377833.4:c.8080A>G	10.37:g.16943441T>C	ENSP00000367064:p.Ile2694Val	Somatic		WXS	Illumina HiSeq	Phase_I	B0YIZ4|Q5VTA6|Q96RU9	Missense_Mutation	SNP	ENST00000377833.4	37	CCDS7113.1	.	.	.	.	.	.	.	.	.	.	T	6.883	0.532398	0.13127	.	.	ENSG00000107611	ENST00000377833	T	0.17528	2.27	5.63	0.664	0.17890	CUB (5);	0.936616	0.08810	N	0.890473	T	0.08313	0.0207	N	0.17594	0.5	0.32205	N	0.577314	B	0.18310	0.027	B	0.21708	0.036	T	0.42085	-0.9472	10	0.22109	T	0.4	.	0.1187	0.00063	0.2416:0.2042:0.2266:0.3276	.	2694	O60494	CUBN_HUMAN	V	2694	ENSP00000367064:I2694V	ENSP00000367064:I2694V	I	-	1	0	CUBN	16983447	0.835000	0.29415	0.056000	0.19401	0.756000	0.42949	1.368000	0.34216	-0.064000	0.13043	0.477000	0.44152	ATA		0.443	CUBN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047009.1	NM_001081		C	16943441	T	C	16943441	3	2	569	1	0	0	0	0	1	0	0	0	4053	1435	50	3	2855	3	CUBN	10	16943441	Missense_Mutation	SNP	T	TCGA-DW-7839-01A-11D-2136-08		16943441	118591306	23	33622										
NRG3	10718	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	83635770	83635770	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	ccaggcaatgccctcctggcCtactgcggcatacgctacct	9	17	0	0			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr10:83635770C>A	ENST00000404547.1	+	1	674	c.674C>A	c.(673-675)cCt>cAt	p.P225H	NRG3_ENST00000372142.2_5'Flank|NRG3_ENST00000556918.1_5'Flank|NRG3_ENST00000372141.2_Missense_Mutation_p.P225H|NRG3_ENST00000404576.2_5'Flank			P56975	NRG3_HUMAN	neuregulin 3	225	Ser/Thr-rich.				activation of transmembrane receptor protein tyrosine kinase activity (GO:0007171)|intracellular signal transduction (GO:0035556)|mammary placode formation (GO:0060596)|pattern specification process (GO:0007389)|regulation of cell growth (GO:0001558)	extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)	growth factor activity (GO:0008083)|receptor tyrosine kinase binding (GO:0030971)|transmembrane receptor protein tyrosine kinase activator activity (GO:0030297)			breast(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(41)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	69				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		CCCTCCTGGCCTACTGCGGCA	0.617																																																0													101	80	87					10																	83635770		2203	4300	6503	SO:0001583	missense	10718			AK098823	CCDS31233.1, CCDS53547.1	10q22-q23	2003-09-09			ENSG00000185737	ENSG00000185737			7999	protein-coding gene	gene with protein product		605533				9275162	Standard	NM_001010848		Approved		uc001kco.2	P56975	OTTHUMG00000018626	ENST00000404547.1:c.674C>A	10.37:g.83635770C>A	ENSP00000384796:p.Pro225His	Somatic		WXS	Illumina HiSeq	Phase_I	A4D7U1|Q0PEH2|Q5VYH3	Missense_Mutation	SNP	ENST00000404547.1	37	CCDS31233.1	.	.	.	.	.	.	.	.	.	.	C	16.99	3.273875	0.59649	.	.	ENSG00000185737	ENST00000372141;ENST00000404547;ENST00000537287	T;T	0.33438	1.41;1.43	3.89	3.89	0.44902	.	0.000000	0.45361	D	0.000364	T	0.44074	0.1276	L	0.40543	1.245	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.66847	0.947;0.947	T	0.44050	-0.9353	10	0.87932	D	0	-21.024	13.7841	0.63099	0.0:1.0:0.0:0.0	.	225;225	B9EGV5;P56975-4	.;.	H	225	ENSP00000361214:P225H;ENSP00000384796:P225H	ENSP00000361214:P225H	P	+	2	0	NRG3	83625750	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	5.474000	0.66781	2.186000	0.69663	0.549000	0.68633	CCT		0.617	NRG3-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000412262.1	XM_166086		A	83635770	C	A	83635770	3	1	569	1	0	0	0	0	1	0	0	0	10656	681	24	4	676	4	NRG3	10	83635770	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08	66692329	83635770	51898977	24	33623										
LIPJ	142910	bcgsc.ca	37	chr10	90362367	90362367	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	gtatttttcacacaacccagCaggaacatctgttcaaaata	5	10	3	0			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr10:90362367C>A	ENST00000371939.3	+	9	1072	c.758C>A	c.(757-759)gCa>gAa	p.A253E		NM_001010939.2	NP_001010939.2	Q5W064	LIPJ_HUMAN	lipase, family member J	253					lipid catabolic process (GO:0016042)		hydrolase activity, acting on ester bonds (GO:0016788)			large_intestine(4)|lung(4)|ovary(1)	9		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)		CACAACCCAGCAGGAACATCT	0.323																																																0													119	111	114					10																	90362367		2203	4300	6503	SO:0001583	missense	142910			BC031219	CCDS31240.1	10q23.31	2008-02-04	2008-02-04	2007-02-27	ENSG00000204022	ENSG00000204022			21773	protein-coding gene	gene with protein product		613921	"lipase-like, ab-hydrolase domain containing 1", "lipase, family member J"	LIPL1			Standard	NM_001010939		Approved	bA425M17.2	uc001kff.3	Q5W064	OTTHUMG00000018691	ENST00000371939.3:c.758C>A	10.37:g.90362367C>A	ENSP00000361007:p.Ala253Glu	Somatic		WXS	Illumina HiSeq	Phase_1	A8MT98|Q0P671	Missense_Mutation	SNP	ENST00000371939.3	37	CCDS31240.1	.	.	.	.	.	.	.	.	.	.	C	16.16	3.045055	0.55110	.	.	ENSG00000204022	ENST00000371939;ENST00000531458	T;T	0.72167	0.04;-0.63	3.94	1.93	0.25924	Alpha/beta hydrolase fold-1 (1);	0.382752	0.18848	N	0.129499	D	0.84142	0.5407	M	0.91920	3.255	0.35171	D	0.77155	D	0.67145	0.996	D	0.74674	0.984	D	0.85936	0.1455	10	0.87932	D	0	-21.7415	7.6994	0.28613	0.1867:0.6328:0.1805:0.0	.	253	Q5W064	LIPJ_HUMAN	E	253;68	ENSP00000361007:A253E;ENSP00000434211:A68E	ENSP00000361007:A253E	A	+	2	0	LIPJ	90352347	0.996000	0.38824	1.000000	0.80357	0.919000	0.55068	3.523000	0.53488	0.379000	0.24794	-0.310000	0.09108	GCA		0.323	LIPJ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049248.2	XM_084377		A	90362367	C	A	90362367	3	1	569	1	0	0	0	0	1	0	0	0	8833	710	25	4	784	4	LIPJ	10	90362367	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08	6726597	90362367	45172380	25	33624										
EPS8L2	64787	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	723296	723296	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	ccagaagcacagccccacttCagagcccacccccccggggg	10	20	1	2	rs142895363		TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr11:723296C>A	ENST00000533256.1	+	16	1772	c.1397C>A	c.(1396-1398)tCa>tAa	p.S466*	EPS8L2_ENST00000530636.1_Nonsense_Mutation_p.S466*|EPS8L2_ENST00000318562.8_Nonsense_Mutation_p.S466*|AP006621.9_ENST00000527021.2_RNA|EPS8L2_ENST00000526198.1_Nonsense_Mutation_p.S482*			Q9H6S3	ES8L2_HUMAN	EPS8-like 2	466					positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of ruffle assembly (GO:1900029)|regulation of Rho protein signal transduction (GO:0035023)|Rho protein signal transduction (GO:0007266)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|ruffle membrane (GO:0032587)|vesicle (GO:0031982)	actin binding (GO:0003779)			NS(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(2)|pancreas(1)|prostate(2)|soft_tissue(1)|urinary_tract(1)	13		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;4.37e-27)|Epithelial(43;2.81e-26)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-20)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGCCCCACTTCAGAGCCCACC	0.602											OREG0020659	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													85	84	85					11																	723296		2203	4300	6503	SO:0001587	stop_gained	64787			AF318331	CCDS31328.1	11p15.5	2008-02-05				ENSG00000177106			21296	protein-coding gene	gene with protein product		614988				12620401	Standard	NM_022772		Approved	FLJ21935, FLJ22171, MGC3088	uc001lqt.3	Q9H6S3		ENST00000533256.1:c.1397C>A	11.37:g.723296C>A	ENSP00000435585:p.Ser466*	Somatic	590	WXS	Illumina HiSeq	Phase_I	B3KSX1|B7ZKL3|Q53GM8|Q8WYW7|Q96K06|Q9H6K9	Nonsense_Mutation	SNP	ENST00000533256.1	37	CCDS31328.1	.	.	.	.	.	.	.	.	.	.	c	34	5.392509	0.96009	.	.	ENSG00000177106	ENST00000318562;ENST00000533256;ENST00000530636;ENST00000526198	.	.	.	2.79	1.87	0.25490	.	3.938280	0.01227	U	0.008254	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	2.7601	7.8157	0.29258	0.0:0.868:0.0:0.132	.	.	.	.	X	466;466;466;482	.	ENSP00000320828:S466X	S	+	2	0	EPS8L2	713296	0.002000	0.14202	0.005000	0.12908	0.020000	0.10135	0.499000	0.22546	0.538000	0.28769	-0.642000	0.03964	TCA		0.602	EPS8L2-003	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382344.1	NM_022772		A	723296	C	A	723296	4	1	569	1	0	0	0	0	0	1	0	0	5198	838	29	4	1451	4	EPS8L2	11	723296	Nonsense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08		723296	134283220	26	33625										
SCUBE2	57758	hgsc.bcm.edu	37	chr11	9113002	9113002	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	cggcccccgccagcagcagcAgtggcggcagcagcagcagc	15	17	0	0	rs60494098	byFrequency	TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr11:9113002A>G	ENST00000309263.3	-	1	146	c.74T>C	c.(73-75)cTg>cCg	p.L25P	MIR5691_ENST00000579525.1_RNA|SCUBE2_ENST00000450649.2_Missense_Mutation_p.L25P|SCUBE2_ENST00000520467.1_Missense_Mutation_p.L25P|SCUBE2_ENST00000534295.1_Intron|SCUBE2_ENST00000457346.2_Missense_Mutation_p.L25P			Q9NQ36	SCUB2_HUMAN	signal peptide, CUB domain, EGF-like 2	25						extracellular region (GO:0005576)	calcium ion binding (GO:0005509)			breast(1)|endometrium(5)|kidney(3)|large_intestine(15)|liver(1)|lung(10)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	42				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		cagcagcagcagtggcggcag	0.786													G|||	1639	0.327276	0.2595	0.4035	5008	,	,		5931	0.4534		0.159	False		,,,				2504	0.408															0													1	1	1					11																	9113002		368	855	1223	SO:0001583	missense	57758			AK131552	CCDS7797.1, CCDS7797.2, CCDS53599.1	11p15.4	2014-09-04			ENSG00000175356	ENSG00000175356			30425	protein-coding gene	gene with protein product		611747				12270931, 11528127	Standard	NM_020974		Approved	Cegf1, Cegb1, FLJ16792	uc001mhi.2	Q9NQ36	OTTHUMG00000163880	ENST00000309263.3:c.74T>C	11.37:g.9113002A>G	ENSP00000310658:p.Leu25Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKQ8|Q6ZWI1	Missense_Mutation	SNP	ENST00000309263.3	37		658	0.30128205128205127	118	0.23983739837398374	134	0.3701657458563536	267	0.46678321678321677	139	0.18337730870712401	G	9.091	1.001643	0.19121	.	.	ENSG00000175356	ENST00000457346;ENST00000309263;ENST00000450649;ENST00000520467	T;T;D;T	0.84516	-1.28;-1.38;-1.86;-1.45	2.52	-4.38	0.03622	.	.	.	.	.	T	0.00012	0.0000	N	0.03608	-0.345	0.37371	P	0.08837099999999998	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.21381	-1.0247	8	0.32370	T	0.25	.	3.6865	0.08329	0.4265:0.0:0.3373:0.2362	rs60494098	25;25;25	Q9NQ36-3;Q9NQ36-2;Q9NQ36	.;.;SCUB2_HUMAN	P	25	ENSP00000390481:L25P;ENSP00000310658:L25P;ENSP00000415187:L25P;ENSP00000429969:L25P	ENSP00000310658:L25P	L	-	2	0	SCUBE2	9069578	0.005000	0.15991	0.054000	0.19295	0.010000	0.07245	0.347000	0.20014	-1.087000	0.03081	-0.665000	0.03846	CTG		0.786	SCUBE2-005	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000385812.2	NM_020974		G	9113002	A	G	9113002	3	3	569	1	0	0	0	0	1	0	0	0	13958	188	7	3	3104	3	SCUBE2	11	9113002	Missense_Mutation	SNP	A	TCGA-DW-7839-01A-11D-2136-08	8389706	9113002	125893514	27	33626										
SPRYD5	84767	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	55658774	55658774	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	tttcacatctggcaaatattAttgggaggttcatatggggg	12	5	3	0			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr11:55658774A>G	ENST00000449290.2	+	7	1117	c.1025A>G	c.(1024-1026)tAt>tGt	p.Y342C	TRIM51_ENST00000244891.3_Missense_Mutation_p.Y199C	NM_032681.3	NP_116070.2	Q9BSJ1	TRI51_HUMAN	tripartite motif-containing 51	342	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.					intracellular (GO:0005622)	zinc ion binding (GO:0008270)										GGCAAATATTATTGGGAGGTT	0.423																																																0													82	88	86					11																	55658774		2101	4042	6143	SO:0001583	missense	84767			BC005014		11p11	2013-01-09	2012-05-18	2012-05-18	ENSG00000124900	ENSG00000124900		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	19023	protein-coding gene	gene with protein product			"SPRY domain containing 5"	SPRYD5			Standard	NM_032681		Approved	TRIM51A	uc010rip.2	Q9BSJ1	OTTHUMG00000156437	ENST00000449290.2:c.1025A>G	11.37:g.55658774A>G	ENSP00000395086:p.Tyr342Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMG2	Missense_Mutation	SNP	ENST00000449290.2	37		.	.	.	.	.	.	.	.	.	.	.	14.48	2.548928	0.45383	.	.	ENSG00000124900	ENST00000449290;ENST00000244891	T;T	0.74947	-0.89;-0.89	1.36	1.36	0.22044	Concanavalin A-like lectin/glucanase (1);Butyrophylin-like (1);B30.2/SPRY domain (1);SPla/RYanodine receptor SPRY (1);	.	.	.	.	D	0.85561	0.5725	M	0.89715	3.055	0.27185	N	0.960562	D	0.89917	1.0	D	0.97110	1.0	T	0.73235	-0.4047	9	0.87932	D	0	.	5.1325	0.14917	1.0:0.0:0.0:0.0	.	342	Q9BSJ1	SPRY5_HUMAN	C	342;199	ENSP00000395086:Y342C;ENSP00000244891:Y199C	ENSP00000244891:Y199C	Y	+	2	0	SPRYD5	55415350	1.000000	0.71417	0.075000	0.20258	0.398000	0.30690	3.446000	0.52928	0.540000	0.28808	0.136000	0.15936	TAT		0.423	TRIM51-004	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000391522.1	NM_032681		G	55658774	A	G	55658774	3	3	569	1	0	0	0	0	1	0	0	0	15123	449	16	3	1047	3	SPRYD5	11	55658774	Missense_Mutation	SNP	A	TCGA-DW-7839-01A-11D-2136-08	46545772	55658774	79347742	28	33627										
B3GNT1	11041	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	66114291	66114291	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	tggttgctctgatccagcatTtcccgcaggcctctccacag	9	15	2	1			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr11:66114291T>A	ENST00000311181.4	-	1	872	c.726A>T	c.(724-726)gaA>gaT	p.E242D	BRMS1_ENST00000425825.2_5'Flank|BRMS1_ENST00000359957.3_5'Flank|RP11-867G23.8_ENST00000531602.1_5'Flank	NM_006876.2	NP_006867.1	O43505	B3GN1_HUMAN	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 1	242					axon guidance (GO:0007411)|carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate metabolic process (GO:0042339)|poly-N-acetyllactosamine biosynthetic process (GO:0030311)|protein glycosylation (GO:0006486)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)	N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase activity (GO:0008532)			breast(2)|kidney(1)|large_intestine(2)|lung(6)|urinary_tract(1)	12						GATCCAGCATTTCCCGCAGGC	0.612																																																0													75	79	78					11																	66114291		2200	4295	6495	SO:0001583	missense	11041			AF029893	CCDS8136.1	11q13.2	2014-07-08	2006-04-12	2006-04-12	ENSG00000174684	ENSG00000174684	2.4.1.149	"Beta 3-glycosyltransferases"	15685	protein-coding gene	gene with protein product	"N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase"	605517	"UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 6"	B3GNT6		9405606	Standard	NM_006876		Approved	iGNT, iGAT, iGnT, BETA3GNTI, B3GN-T1	uc001ohr.3	O43505	OTTHUMG00000167082	ENST00000311181.4:c.726A>T	11.37:g.66114291T>A	ENSP00000309096:p.Glu242Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q4TTN0	Missense_Mutation	SNP	ENST00000311181.4	37	CCDS8136.1	.	.	.	.	.	.	.	.	.	.	T	10.34	1.322423	0.23994	.	.	ENSG00000174684	ENST00000311181;ENST00000538757	T	0.22539	1.95	5.29	0.868	0.19090	.	0.396932	0.27876	N	0.017483	T	0.08044	0.0201	N	0.10837	0.055	0.28440	N	0.916866	B	0.13145	0.007	B	0.15052	0.012	T	0.31420	-0.9944	10	0.15066	T	0.55	-16.142	4.6684	0.12676	0.0:0.3853:0.1676:0.4471	.	242	O43505	B3GN1_HUMAN	D	242;13	ENSP00000309096:E242D	ENSP00000309096:E242D	E	-	3	2	B3GNT1	65870867	0.994000	0.37717	1.000000	0.80357	0.997000	0.91878	0.024000	0.13555	0.256000	0.21614	0.379000	0.24179	GAA		0.612	B3GNT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392959.1	NM_006876		A	66114291	T	A	66114291	3	1	569	1	0	0	0	0	1	0	0	0	1256	1838	64	5	529	5	B3GNT1	11	66114291	Missense_Mutation	SNP	T	TCGA-DW-7839-01A-11D-2136-08	10455517	66114291	68892225	29	33628										
PICALM	8301	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr11	85722090	85722090	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	tacctctgcaactttgaggaActctgagattcttgtcatcc	7	11	4	2			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr11:85722090A>G	ENST00000393346.3	-	7	896	c.748T>C	c.(748-750)Ttc>Ctc	p.F250L	PICALM_ENST00000526033.1_Missense_Mutation_p.F250L|PICALM_ENST00000356360.5_Missense_Mutation_p.F250L|PICALM_ENST00000532317.1_Missense_Mutation_p.F250L|PICALM_ENST00000528398.1_Missense_Mutation_p.F199L			Q13492	PICAL_HUMAN	phosphatidylinositol binding clathrin assembly protein	250	Interaction with FAM64A.				axonogenesis (GO:0007409)|cargo loading into vesicle (GO:0035459)|cell proliferation (GO:0008283)|clathrin coat assembly (GO:0048268)|clathrin-mediated endocytosis (GO:0072583)|dendrite morphogenesis (GO:0048813)|endosomal transport (GO:0016197)|hemopoiesis (GO:0030097)|iron ion homeostasis (GO:0055072)|iron ion import into cell (GO:0097459)|negative regulation of gene expression (GO:0010629)|negative regulation of metalloendopeptidase activity involved in amyloid precursor protein catabolic process (GO:1902963)|negative regulation of receptor-mediated endocytosis (GO:0048261)|positive regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process (GO:1902961)|positive regulation of beta-amyloid formation (GO:1902004)|positive regulation of neuron death (GO:1901216)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|receptor internalization (GO:0031623)|receptor-mediated endocytosis (GO:0006898)|regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process (GO:1902959)|regulation of endocytosis (GO:0030100)|regulation of protein localization (GO:0032880)|synaptic vesicle maturation (GO:0016188)|vesicle-mediated transport (GO:0016192)	clathrin coat (GO:0030118)|coated pit (GO:0005905)|cytoplasmic vesicle (GO:0031410)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|neurofibrillary tangle (GO:0097418)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|postsynaptic membrane (GO:0045211)|presynaptic membrane (GO:0042734)|vesicle (GO:0031982)	1-phosphatidylinositol binding (GO:0005545)|clathrin adaptor activity (GO:0035615)|clathrin binding (GO:0030276)|clathrin heavy chain binding (GO:0032050)			endometrium(1)|kidney(2)|large_intestine(2)|liver(1)|lung(10)|ovary(1)|skin(1)|urinary_tract(1)	19		Acute lymphoblastic leukemia(157;7.42e-07)|all_hematologic(158;0.00092)				ACTTTGAGGAACTCTGAGATT	0.343			T	"MLLT10, MLL"	"TALL, AML, "																																		Dom	yes		11	11q14	8301	phosphatidylinositol binding clathrin assembly protein (CALM)		L	0													128	112	118					11																	85722090		2202	4298	6500	SO:0001583	missense	8301			BC048259	CCDS8272.1, CCDS31653.1, CCDS55783.1, CCDS55784.1	11q14	2008-02-01			ENSG00000073921	ENSG00000073921			15514	protein-coding gene	gene with protein product		603025				8643484	Standard	NM_001206947		Approved	CALM, CLTH	uc001pbm.3	Q13492	OTTHUMG00000166981	ENST00000393346.3:c.748T>C	11.37:g.85722090A>G	ENSP00000377015:p.Phe250Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTM3|E9PN05|F8VPG7|O60700|Q4LE54|Q6GMQ6|Q86XZ9	Missense_Mutation	SNP	ENST00000393346.3	37	CCDS8272.1	.	.	.	.	.	.	.	.	.	.	A	34	5.324333	0.95708	.	.	ENSG00000073921	ENST00000532317;ENST00000526033;ENST00000447890;ENST00000393346;ENST00000528398;ENST00000356360	T;T;T;T;T	0.53857	0.6;0.6;0.6;0.6;0.6	5.48	5.48	0.80851	ANTH (1);Clathrin adaptor, phosphoinositide-binding, GAT-like (1);	0.000000	0.85682	D	0.000000	T	0.76248	0.3961	M	0.87617	2.895	0.80722	D	1	D;D;D;D	0.89917	0.999;1.0;0.991;1.0	D;D;D;D	0.97110	0.994;1.0;0.981;1.0	T	0.80236	-0.1466	9	.	.	.	-19.6257	15.8605	0.79017	1.0:0.0:0.0:0.0	.	199;250;250;250	E9PN05;F8VPG7;Q13492;Q13492-3	.;.;PICAL_HUMAN;.	L	250;250;250;250;199;250	ENSP00000436958:F250L;ENSP00000433846:F250L;ENSP00000377015:F250L;ENSP00000434884:F199L;ENSP00000348718:F250L	.	F	-	1	0	PICALM	85399738	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	9.339000	0.96797	2.197000	0.70478	0.533000	0.62120	TTC		0.343	PICALM-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392224.1	NM_007166		G	85722090	A	G	85722090	3	3	569	1	0	0	0	0	1	0	0	0	11887	43	2	3	1294	3	PICALM	11	85722090	Missense_Mutation	SNP	A	TCGA-DW-7839-01A-11D-2136-08	19607799	85722090	49284426	30	33629										
FAT3	120114	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	92590392	92590392	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	tgtcacaggaggactgtgtcCggggtccaacgatccttgtg	14	10	1	0	rs368909373		TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr11:92590392C>T	ENST00000298047.6	+	19	11395	c.11378C>T	c.(11377-11379)cCg>cTg	p.P3793L	FAT3_ENST00000409404.2_Missense_Mutation_p.P3793L|FAT3_ENST00000525166.1_Missense_Mutation_p.P3643L|FAT3_ENST00000533797.1_Missense_Mutation_p.P128L			Q8TDW7	FAT3_HUMAN	FAT atypical cadherin 3	3793					homophilic cell adhesion (GO:0007156)|multicellular organismal development (GO:0007275)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|endometrium(10)|kidney(4)|large_intestine(11)|liver(2)|lung(37)|ovary(5)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(5)	85		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GGACTGTGTCCGGGGTCCAAC	0.527										TCGA Ovarian(4;0.039)																																						0								C	LEU/PRO	2,4000		0,2,1999	103	106	105		11378	5.9	0.9	11		105	0,8334		0,0,4167	no	missense	FAT3	NM_001008781.2	98	0,2,6166	TT,TC,CC		0.0,0.05,0.0162	benign	3793/4558	92590392	2,12334	2001	4167	6168	SO:0001583	missense	120114			AB076400		11q14.3	2013-05-31	2013-05-31		ENSG00000165323	ENSG00000165323		"Cadherins / Cadherin-related"	23112	protein-coding gene	gene with protein product	"cadherin-related family member 10"	612483	"FAT tumor suppressor homolog 3 (Drosophila)"			11811999	Standard	NM_001008781		Approved	KIAA1989, CDHF15, CDHR10	uc001pdj.4	Q8TDW7	OTTHUMG00000154468	ENST00000298047.6:c.11378C>T	11.37:g.92590392C>T	ENSP00000298047:p.Pro3793Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDB0|Q96AU6	Missense_Mutation	SNP	ENST00000298047.6	37		.	.	.	.	.	.	.	.	.	.	C	20.7	4.040675	0.75732	5.0E-4	0.0	ENSG00000165323	ENST00000298047;ENST00000409404;ENST00000525166;ENST00000533797	T;T;T;T	0.32023	1.47;1.47;1.47;1.47	5.95	5.95	0.96441	.	.	.	.	.	T	0.34832	0.0911	L	0.53249	1.67	0.80722	D	1	D;B	0.59357	0.985;0.399	B;B	0.41271	0.352;0.04	T	0.13045	-1.0524	9	0.51188	T	0.08	.	20.3932	0.98965	0.0:1.0:0.0:0.0	.	3793;3793	Q8TDW7-3;Q8TDW7	.;FAT3_HUMAN	L	3793;3793;3643;128	ENSP00000298047:P3793L;ENSP00000387040:P3793L;ENSP00000432586:P3643L;ENSP00000436399:P128L	ENSP00000298047:P3793L	P	+	2	0	FAT3	92230040	0.995000	0.38212	0.922000	0.36590	0.908000	0.53690	6.655000	0.74392	2.824000	0.97209	0.655000	0.94253	CCG		0.527	FAT3-201	KNOWN	basic	protein_coding	protein_coding		NM_001008781		T	92590392	C	T	92590392	3	4	569	1	0	0	0	0	1	0	0	0	5698	652	23	1	11452	1	FAT3	11	92590392	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08	6868302	92590392	42416124	31	33630										
PPFIBP1	8496	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	27787953	27787953	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	tggaagacctgcgtggattgTtagagatgatggaaacagat	14	4	0	4			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr12:27787953T>C	ENST00000318304.8	+	4	458	c.175T>C	c.(175-177)Tta>Cta	p.L59L	PPFIBP1_ENST00000535047.1_Silent_p.L59L|PPFIBP1_ENST00000228425.6_Silent_p.L59L|PPFIBP1_ENST00000542629.1_Silent_p.L59L|PPFIBP1_ENST00000537927.1_Intron|PPFIBP1_ENST00000545334.1_Silent_p.L59L	NM_001198916.1|NM_177444.2	NP_001185845.1|NP_803193	Q86W92	LIPB1_HUMAN	PTPRF interacting protein, binding protein 1 (liprin beta 1)	59					cell adhesion (GO:0007155)|cell-matrix adhesion (GO:0007160)|signal transduction (GO:0007165)	focal adhesion (GO:0005925)|plasma membrane (GO:0005886)|presynaptic active zone (GO:0048786)			PPFIBP1/ALK(3)	central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(6)|lung(13)|prostate(2)|skin(1)	32	Lung SC(9;0.0873)					GCGTGGATTGTTAGAGATGAT	0.458																																																0													108	110	110					12																	27787953		2203	4300	6503	SO:0001819	synonymous_variant	8496			AF034802	CCDS8713.1, CCDS55812.1, CCDS55813.1, CCDS55814.1	12p12.1	2013-01-10						"Sterile alpha motif (SAM) domain containing"	9249	protein-coding gene	gene with protein product		603141				9624153, 11836260	Standard	NM_003622		Approved	L2, hSGT2, hSgt2p, SGT2	uc001ric.2	Q86W92		ENST00000318304.8:c.175T>C	12.37:g.27787953T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O75336|Q86X70|Q9NY03|Q9ULJ0	Silent	SNP	ENST00000318304.8	37	CCDS55812.1																																																																																				0.458	PPFIBP1-007	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000402877.1	NM_003622		C	27787953	T	C	27787953	2	2	569	1	0	0	0	0	0	0	0	1	12320	1722	60	3		3	PPFIBP1	12	27787953	Silent	SNP	T	TCGA-DW-7839-01A-11D-2136-08		27787953	106063942	32	33631										
ARF3	377	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	49333834	49333834	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	tcgaatcttgtcctggccacCcacatcccacactgtaaagc	6	16	1	0			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr12:49333834C>G	ENST00000256682.4	-	3	539	c.205G>C	c.(205-207)Ggt>Cgt	p.G69R	ARF3_ENST00000541967.1_5'Flank|ARF3_ENST00000541959.1_Missense_Mutation_p.G69R|ARF3_ENST00000447318.2_Intron|AC073610.5_ENST00000537495.1_5'Flank|RP11-302B13.5_ENST00000398092.4_Missense_Mutation_p.G69R	NM_001659.2	NP_001650.1	P61204	ARF3_HUMAN	ADP-ribosylation factor 3	69					GTP catabolic process (GO:0006184)|phosphatidylinositol biosynthetic process (GO:0006661)|phospholipid metabolic process (GO:0006644)|protein transport (GO:0015031)|small GTPase mediated signal transduction (GO:0007264)|small molecule metabolic process (GO:0044281)|vesicle-mediated transport (GO:0016192)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			endometrium(1)|lung(2)|skin(1)	4						TCCTGGCCACCCACATCCCAC	0.502																																					Pancreas(189;1862 2134 4419 30933 49364)											0													198	158	171					12																	49333834		2203	4300	6503	SO:0001583	missense	377			M74491	CCDS8774.1	12q13.12	2013-01-22			ENSG00000134287	ENSG00000134287		"ADP-ribosylation factors"	654	protein-coding gene	gene with protein product	"small GTP binding protein"	103190				8661066	Standard	NM_001659		Approved		uc001rsr.2	P61204	OTTHUMG00000168080	ENST00000256682.4:c.205G>C	12.37:g.49333834C>G	ENSP00000256682:p.Gly69Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6G8|B7ZB63|P16587	Missense_Mutation	SNP	ENST00000256682.4	37	CCDS8774.1	.	.	.	.	.	.	.	.	.	.	C	16.88	3.243385	0.58995	.	.	ENSG00000134287	ENST00000398092;ENST00000256682;ENST00000541959;ENST00000541236	D;D;D;D	0.84223	-1.82;-1.82;-1.82;-1.82	4.72	3.82	0.43975	Small GTP-binding protein domain (1);	0.000000	0.85682	D	0.000000	D	0.96030	0.8707	H	0.99887	4.895	0.80722	D	1	D	0.67145	0.996	D	0.70716	0.97	D	0.97028	0.9748	10	0.87932	D	0	.	13.5059	0.61483	0.1577:0.8423:0.0:0.0	.	69	P61204	ARF3_HUMAN	R	69	ENSP00000438507:G69R;ENSP00000256682:G69R;ENSP00000438510:G69R;ENSP00000438063:G69R	ENSP00000256682:G69R	G	-	1	0	ARF3	47620101	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.814000	0.86154	1.096000	0.41439	0.462000	0.41574	GGT		0.502	ARF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258242.2	NM_001659		G	49333834	C	G	49333834	3	3	569	1	0	0	0	0	1	0	0	0	845	623	22	4	352	4	ARF3	12	49333834	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08	21545881	49333834	84518061	33	33632										
MBD6	114785	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	57920964	57920964	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	cctcatagctttaaattctgCgctgctggctgccaccctgg	9	14	2	0			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr12:57920964C>T	ENST00000355673.3	+	7	2392	c.2036C>T	c.(2035-2037)gCg>gTg	p.A679V	MBD6_ENST00000431731.2_Missense_Mutation_p.A679V	NM_052897.3	NP_443129.3	Q96DN6	MBD6_HUMAN	methyl-CpG binding domain protein 6	679	Pro-rich.					chromocenter (GO:0010369)|nucleus (GO:0005634)	chromatin binding (GO:0003682)			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(8)|lung(8)|ovary(1)|urinary_tract(1)	31						TTAAATTCTGCGCTGCTGGCT	0.597																																																0													11	12	12					12																	57920964		2195	4290	6485	SO:0001583	missense	114785			AB067474	CCDS8944.1	12q13.2	2008-02-05				ENSG00000166987			20445	protein-coding gene	gene with protein product						12529184	Standard	NM_052897		Approved	KIAA1887	uc001soj.1	Q96DN6		ENST00000355673.3:c.2036C>T	12.37:g.57920964C>T	ENSP00000347896:p.Ala679Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3M0|Q8NA81|Q96Q00	Missense_Mutation	SNP	ENST00000355673.3	37	CCDS8944.1	.	.	.	.	.	.	.	.	.	.	C	15.12	2.737980	0.49045	.	.	ENSG00000166987	ENST00000355673;ENST00000431731;ENST00000300263	.	.	.	5.2	4.32	0.51571	.	0.738053	0.11966	N	0.512271	T	0.26011	0.0634	N	0.08118	0	0.41634	D	0.989031	P;P	0.45428	0.858;0.675	B;B	0.32928	0.109;0.155	T	0.14643	-1.0465	9	0.66056	D	0.02	-3.2719	12.8722	0.57970	0.0:0.9201:0.0:0.0799	.	679;679	Q6P0P0;Q96DN6	.;MBD6_HUMAN	V	679;679;143	.	ENSP00000300263:A143V	A	+	2	0	MBD6	56207231	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.754000	0.47532	1.350000	0.45770	0.561000	0.74099	GCG		0.597	MBD6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407250.1			T	57920964	C	T	57920964	3	4	569	1	0	0	0	0	1	0	0	0	9355	768	27	1	2054	1	MBD6	12	57920964	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08	8587130	57920964	75930931	34	33633										
HCFC2	29915	bcgsc.ca	37	chr12	104473281	104473281	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	gctctggtgttgtgggttggAgcattccagtgactaaaggg	16	6	1	1			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr12:104473281A>G	ENST00000229330.4	+	4	636	c.532A>G	c.(532-534)Agc>Ggc	p.S178G		NM_013320.2	NP_037452.1	Q9Y5Z7	HCFC2_HUMAN	host cell factor C2	178					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	transcription coactivator activity (GO:0003713)			breast(3)|central_nervous_system(1)|endometrium(4)|large_intestine(6)|lung(14)|ovary(3)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	35						TGTGGGTTGGAGCATTCCAGT	0.348																																					Esophageal Squamous(184;1814 2036 4771 6974 15702)											0													103	109	107					12																	104473281		2203	4300	6503	SO:0001583	missense	29915			AF117210	CCDS9097.1	12q23.3	2011-03-30			ENSG00000111727	ENSG00000111727			24972	protein-coding gene	gene with protein product		607926				10196288	Standard	NM_013320		Approved	HCF-2	uc001tkj.4	Q9Y5Z7	OTTHUMG00000170175	ENST00000229330.4:c.532A>G	12.37:g.104473281A>G	ENSP00000229330:p.Ser178Gly	Somatic		WXS	Illumina HiSeq	Phase_1	B2R8Q5|C0H5X3	Missense_Mutation	SNP	ENST00000229330.4	37	CCDS9097.1	.	.	.	.	.	.	.	.	.	.	A	12.91	2.078672	0.36662	.	.	ENSG00000111727	ENST00000229330	T	0.75260	-0.92	5.93	5.93	0.95920	Kelch-type beta propeller (1);	0.195982	0.64402	D	0.000006	T	0.71779	0.3380	L	0.58583	1.82	0.42169	D	0.991631	B	0.27229	0.172	B	0.22386	0.039	T	0.69800	-0.5047	10	0.46703	T	0.11	-7.4295	16.3756	0.83387	1.0:0.0:0.0:0.0	.	178	Q9Y5Z7	HCFC2_HUMAN	G	178	ENSP00000229330:S178G	ENSP00000229330:S178G	S	+	1	0	HCFC2	102997411	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	3.494000	0.53273	2.270000	0.75569	0.460000	0.39030	AGC		0.348	HCFC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407780.1	NM_013320		G	104473281	A	G	104473281	3	3	569	1	0	0	0	0	1	0	0	0	7000	304	11	3	546	3	HCFC2	12	104473281	Missense_Mutation	SNP	A	TCGA-DW-7839-01A-11D-2136-08	46552317	104473281	29378614	35	33634										
BTBD11	121551	bcgsc.ca	37	chr12	108011117	108011117	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	tttgctgttggagcgtggtgCcgatcccctgataggaacca	13	10	0	1			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr12:108011117C>T	ENST00000280758.5	+	9	2663	c.2135C>T	c.(2134-2136)gCc>gTc	p.A712V	BTBD11_ENST00000420571.2_Intron|BTBD11_ENST00000357167.4_Missense_Mutation_p.A249V|RP11-128P10.1_ENST00000548473.1_RNA|BTBD11_ENST00000490090.2_Missense_Mutation_p.A712V	NM_001018072.1	NP_001018082.1	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11	712						integral component of membrane (GO:0016021)				NS(1)|breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(13)|lung(18)|ovary(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	53						GAGCGTGGTGCCGATCCCCTG	0.483																																																0													113	121	118					12																	108011117		2203	4300	6503	SO:0001583	missense	121551			AK091276	CCDS31893.1, CCDS41827.1	12q24.11	2013-10-02			ENSG00000151136	ENSG00000151136		"BTB/POZ domain containing", "Ankyrin repeat domain containing"	23844	protein-coding gene	gene with protein product							Standard	XM_005268645		Approved	FLJ33957, ABTB2B	uc001tmk.1	A6QL63	OTTHUMG00000150413	ENST00000280758.5:c.2135C>T	12.37:g.108011117C>T	ENSP00000280758:p.Ala712Val	Somatic		WXS	Illumina HiSeq	Phase_1	A4FU41|B3KXG3|C9J019|C9JK80|E9PHS4|Q3ZTQ4|Q52M89|Q6ZV99|Q8N245	Missense_Mutation	SNP	ENST00000280758.5	37	CCDS31893.1	.	.	.	.	.	.	.	.	.	.	C	26.9	4.784837	0.90282	.	.	ENSG00000151136	ENST00000280758;ENST00000490090;ENST00000357167	T;T;T	0.70399	-0.48;-0.48;-0.48	5.49	5.49	0.81192	Ankyrin repeat-containing domain (4);	0.047856	0.85682	D	0.000000	T	0.81346	0.4803	L	0.58302	1.8	0.80722	D	1	P;D;D	0.89917	0.84;0.969;1.0	P;P;D	0.79108	0.634;0.843;0.992	T	0.82800	-0.0278	10	0.87932	D	0	.	14.9248	0.70868	0.0:0.8572:0.1427:0.0	.	249;712;712	E9PHS4;A6QL63;A6QL63-3	.;BTBDB_HUMAN;.	V	712;712;249	ENSP00000280758:A712V;ENSP00000447319:A712V;ENSP00000349690:A249V	ENSP00000280758:A712V	A	+	2	0	BTBD11	106535247	1.000000	0.71417	0.997000	0.53966	0.998000	0.95712	6.005000	0.70716	2.572000	0.86782	0.655000	0.94253	GCC		0.483	BTBD11-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318003.1	NM_152322		T	108011117	C	T	108011117	3	4	569	1	0	0	0	0	1	0	0	0	1541	739	26	2	2274	2	BTBD11	12	108011117	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08	3537836	108011117	25840778	36	33635										
MED13L	23389	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	116429670	116429670	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	ctcctgccccactattgctgGctggggcagcgctgttcaac	11	15	1	0			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr12:116429670G>C	ENST00000281928.3	-	17	3295	c.3089C>G	c.(3088-3090)gCc>gGc	p.A1030G		NM_015335.4	NP_056150.1	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	1030						mediator complex (GO:0016592)	RNA polymerase II transcription cofactor activity (GO:0001104)			NS(2)|breast(1)|endometrium(9)|kidney(3)|large_intestine(18)|lung(34)|ovary(4)|prostate(4)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	85	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		ACTATTGCTGGCTGGGGCAGC	0.572																																																0													63	55	58					12																	116429670		2203	4300	6503	SO:0001583	missense	23389			AB028948	CCDS9177.1	12q24.22	2010-07-29	2007-07-30	2007-07-30	ENSG00000123066	ENSG00000123066			22962	protein-coding gene	gene with protein product		608771	"thyroid hormone receptor associated protein 2"	THRAP2			Standard	NM_015335		Approved	KIAA1025, TRAP240L	uc001tvw.3	Q71F56	OTTHUMG00000169404	ENST00000281928.3:c.3089C>G	12.37:g.116429670G>C	ENSP00000281928:p.Ala1030Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A1L469|Q68DN4|Q9H8C0|Q9NSY9|Q9UFD8|Q9UPX5	Missense_Mutation	SNP	ENST00000281928.3	37	CCDS9177.1	.	.	.	.	.	.	.	.	.	.	G	14.60	2.582626	0.46006	.	.	ENSG00000123066	ENST00000281928	T	0.75260	-0.92	5.55	5.55	0.83447	.	0.000000	0.85682	D	0.000000	T	0.75019	0.3793	L	0.36672	1.1	0.49915	D	0.999835	D	0.58268	0.982	P	0.49999	0.628	T	0.75639	-0.3248	10	0.51188	T	0.08	.	19.6873	0.95984	0.0:0.0:1.0:0.0	.	1030	Q71F56	MD13L_HUMAN	G	1030	ENSP00000281928:A1030G	ENSP00000281928:A1030G	A	-	2	0	MED13L	114914053	1.000000	0.71417	1.000000	0.80357	0.954000	0.61252	5.549000	0.67261	2.890000	0.99128	0.585000	0.79938	GCC		0.572	MED13L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403879.3			C	116429670	G	C	116429670	3	2	569	1	0	0	0	0	1	0	0	0	9438	1203	42	4	3603	4	MED13L	12	116429670	Missense_Mutation	SNP	G	TCGA-DW-7839-01A-11D-2136-08	8418553	116429670	17422225	37	33636										
ZMYM2	7750	hgsc.bcm.edu	37	chr13	20601376	20601376	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	ttgccatttttgtaagcgaaActctttacctcaataccaag	5	10	2	0			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr13:20601376A>G	ENST00000382874.2	+	10	1959	c.1769A>G	c.(1768-1770)aAc>aGc	p.N590S	ZMYM2_ENST00000382883.3_Missense_Mutation_p.N72S|ZMYM2_ENST00000382871.2_Missense_Mutation_p.N590S|ZMYM2_ENST00000382869.3_Missense_Mutation_p.N590S	NM_001190964.1	NP_001177893.1	Q9UBW7	ZMYM2_HUMAN	zinc finger, MYM-type 2	590					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytosol (GO:0005829)|PML body (GO:0016605)	ubiquitin conjugating enzyme binding (GO:0031624)|zinc ion binding (GO:0008270)			large_intestine(3)|lung(3)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	10		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		TGTAAGCGAAACTCTTTACCT	0.318																																																0													83	76	78					13																	20601376		1823	4068	5891	SO:0001583	missense	7750			AF012126	CCDS45016.1	13q11-q12	2013-01-08	2006-07-13	2006-07-13	ENSG00000121741	ENSG00000121741		"Zinc fingers, MYM type"	12989	protein-coding gene	gene with protein product		602221	"zinc finger protein 198"	ZNF198		9499416, 9425908	Standard	XM_005266517		Approved	RAMP, FIM, MYM	uc001ums.3	Q9UBW7	OTTHUMG00000016507	ENST00000382874.2:c.1769A>G	13.37:g.20601376A>G	ENSP00000372327:p.Asn590Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDG0|A6NI02|O43212|O43434|O60898|Q5W0Q4|Q5W0T3|Q63HP0|Q8NE39|Q9H0V5|Q9H538|Q9UEU2	Missense_Mutation	SNP	ENST00000382874.2	37	CCDS45016.1	.	.	.	.	.	.	.	.	.	.	A	10.89	1.478970	0.26511	.	.	ENSG00000121741	ENST00000382869;ENST00000456228;ENST00000382874;ENST00000382871;ENST00000382883	T;T;T;T	0.42513	2.31;2.31;2.31;0.97	5.35	5.35	0.76521	TRASH (1);Zinc finger, MYM-type (1);	0.000000	0.85682	D	0.000000	T	0.30510	0.0767	N	0.15975	0.35	0.51482	D	0.999924	P	0.45827	0.867	P	0.50314	0.637	T	0.17776	-1.0358	10	0.02654	T	1	0.0	11.1375	0.48383	0.8619:0.0:0.0:0.1381	.	590	Q9UBW7	ZMYM2_HUMAN	S	590;590;590;590;72	ENSP00000372322:N590S;ENSP00000372327:N590S;ENSP00000372324:N590S;ENSP00000372336:N72S	ENSP00000372322:N590S	N	+	2	0	ZMYM2	19499376	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	4.552000	0.60747	2.015000	0.59207	0.477000	0.44152	AAC		0.318	ZMYM2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044051.2	NM_003453		G	20601376	A	G	20601376	3	3	569	1	0	0	0	0	1	0	0	0	17712	43	2	3	1795	3	ZMYM2	13	20601376	Missense_Mutation	SNP	A	TCGA-DW-7839-01A-11D-2136-08		20601376	94568502	38	33637										
STARD13	90627	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	33700266	33700266	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	ctcagtgcttgctgaatactTtgaggcaggggctgtcccgt	13	10	1	2	rs143789881		TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr13:33700266T>G	ENST00000336934.5	-	7	2150	c.2034A>C	c.(2032-2034)caA>caC	p.Q678H	STARD13_ENST00000255486.4_Missense_Mutation_p.Q670H|STARD13_ENST00000399365.3_Missense_Mutation_p.Q560H	NM_001243476.1|NM_178006.3	NP_001230405.1|NP_821074.1	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain containing 13	678	Rho-GAP. {ECO:0000255|PROSITE- ProRule:PRU00172}.				regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|lipid particle (GO:0005811)|membrane (GO:0016020)|mitochondrion (GO:0005739)	GTPase activator activity (GO:0005096)|lipid binding (GO:0008289)			breast(2)|endometrium(2)|kidney(3)|large_intestine(6)|lung(18)|ovary(2)|pancreas(1)|prostate(1)|skin(3)|soft_tissue(1)|upper_aerodigestive_tract(1)	40	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		GCTGAATACTTTGAGGCAGGG	0.542																																																0													174	146	156					13																	33700266		2203	4300	6503	SO:0001583	missense	90627			AL049801	CCDS9348.1, CCDS9349.1, CCDS9350.1	13q13.1	2013-08-13	2007-08-16		ENSG00000133121	ENSG00000133121		"Rho GTPase activating proteins", "StAR-related lipid transfer (START) domain containing"	19164	protein-coding gene	gene with protein product		609866	"START domain containing 13", "long intergenic non-protein coding RNA 464"	LINC00464		8812419	Standard	NM_178006		Approved	GT650, DLC2, ARHGAP37	uc001uuw.3	Q9Y3M8	OTTHUMG00000016708	ENST00000336934.5:c.2034A>C	13.37:g.33700266T>G	ENSP00000338785:p.Gln678His	Somatic		WXS	Illumina HiSeq	Phase_I	A2A309|A2A310|Q5HYH1|Q5TAE3|Q6UN61|Q86TP6|Q86WQ3|Q86XT1	Missense_Mutation	SNP	ENST00000336934.5	37	CCDS9348.1	.	.	.	.	.	.	.	.	.	.	T	13.98	2.399557	0.42512	.	.	ENSG00000133121	ENST00000399365;ENST00000255486;ENST00000336934;ENST00000399364	T;T;T	0.18502	2.21;2.21;2.21	6.17	2.43	0.29744	Rho GTPase-activating protein domain (4);Rho GTPase activation protein (1);	0.120228	0.64402	D	0.000011	T	0.25827	0.0629	L	0.51914	1.62	0.80722	D	1	D;B;B	0.53745	0.962;0.048;0.129	P;B;B	0.58928	0.848;0.193;0.084	T	0.00970	-1.1496	10	0.40728	T	0.16	.	7.0057	0.24836	0.112:0.6413:0.0:0.2467	.	643;678;670	Q9Y3M8-4;Q9Y3M8;Q9Y3M8-2	.;STA13_HUMAN;.	H	560;670;678;670	ENSP00000382300:Q560H;ENSP00000255486:Q670H;ENSP00000338785:Q678H	ENSP00000255486:Q670H	Q	-	3	2	STARD13	32598266	0.993000	0.37304	0.981000	0.43875	0.797000	0.45037	0.424000	0.21330	0.174000	0.19809	-1.082000	0.02213	CAA		0.542	STARD13-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276118.2	NM_001243466		G	33700266	T	G	33700266	3	3	569	1	0	0	0	0	1	0	0	0	15268	1838	64	5	1339	5	STARD13	13	33700266	Missense_Mutation	SNP	T	TCGA-DW-7839-01A-11D-2136-08	13098890	33700266	81469612	39	33638										
SLC38A6	145389	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	61449295	61449295	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	ttaatttgatgaatgccatcAtgggaagtggcatccttggc	11	7	1	2			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr14:61449295A>C	ENST00000267488.4	+	2	291	c.175A>C	c.(175-177)Atg>Ctg	p.M59L	SLC38A6_ENST00000554304.1_3'UTR|SLC38A6_ENST00000354886.2_Missense_Mutation_p.M59L|TRMT5_ENST00000261249.6_5'Flank|SLC38A6_ENST00000456840.2_Missense_Mutation_p.M36L|RP11-193F5.1_ENST00000553946.1_RNA	NM_153811.2	NP_722518.2	Q8IZM9	S38A6_HUMAN	solute carrier family 38, member 6	59					amino acid transport (GO:0006865)|sodium ion transport (GO:0006814)	integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|liver(2)|lung(5)|ovary(1)|skin(3)|stomach(1)|urinary_tract(1)	21				OV - Ovarian serous cystadenocarcinoma(108;0.0981)		GAATGCCATCATGGGAAGTGG	0.368																																																0													209	187	195					14																	61449295		2203	4300	6503	SO:0001583	missense	145389			AF070578	CCDS9751.1, CCDS53900.1	14q23.1	2013-05-22			ENSG00000139974	ENSG00000139974		"Solute carriers"	19863	protein-coding gene	gene with protein product							Standard	NM_153811		Approved	NAT-1	uc001xfh.2	Q8IZM9	OTTHUMG00000140335	ENST00000267488.4:c.175A>C	14.37:g.61449295A>C	ENSP00000267488:p.Met59Leu	Somatic		WXS	Illumina HiSeq	Phase_I	C9JWA6|Q86SY5	Missense_Mutation	SNP	ENST00000267488.4	37	CCDS9751.1	.	.	.	.	.	.	.	.	.	.	A	18.58	3.655540	0.67586	.	.	ENSG00000139974	ENST00000354886;ENST00000267488;ENST00000451406;ENST00000456840;ENST00000526105	T;T;T;T;T	0.02121	4.44;4.44;4.44;4.44;4.44	5.63	5.63	0.86233	.	0.149549	0.85682	D	0.000000	T	0.02929	0.0087	L	0.35542	1.07	0.54753	D	0.999988	B;B;B	0.14012	0.009;0.004;0.006	B;B;B	0.15052	0.005;0.01;0.012	T	0.55398	-0.8147	10	0.35671	T	0.21	.	16.1307	0.81436	1.0:0.0:0.0:0.0	.	36;59;59	E7ETF2;Q8IZM9-2;Q8IZM9	.;.;S38A6_HUMAN	L	59;59;54;36;5	ENSP00000346959:M59L;ENSP00000267488:M59L;ENSP00000395851:M54L;ENSP00000413863:M36L;ENSP00000451244:M5L	ENSP00000267488:M59L	M	+	1	0	SLC38A6	60519048	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.794000	0.75135	2.263000	0.75096	0.533000	0.62120	ATG		0.368	SLC38A6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276957.1			C	61449295	A	C	61449295	3	2	569	1	0	0	0	0	1	0	0	0	14621	217	8	5	181	5	SLC38A6	14	61449295	Missense_Mutation	SNP	A	TCGA-DW-7839-01A-11D-2136-08		61449295	45900245	40	33639										
TJP1	7082	bcgsc.ca	37	chr15	30033565	30033565	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	catcttcatgagttgaattaGgtaggacaccatcagatgga	10	7	3	3	rs569819076		TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr15:30033565G>A	ENST00000346128.6	-	10	1700	c.1226C>T	c.(1225-1227)cCt>cTt	p.P409L	TJP1_ENST00000545208.2_Missense_Mutation_p.P409L|TJP1_ENST00000356107.6_Missense_Mutation_p.P409L|TJP1_ENST00000400011.2_Missense_Mutation_p.P413L	NM_003257.3|NM_175610.2	NP_003248.3|NP_783297.2	Q07157	ZO1_HUMAN	tight junction protein 1	409				QPDVDLPVSPSDGVLPNSTHEDGI -> NQMWIYLSVHLMV SYLIQLMKMGF (in Ref. 1; AAA02891). {ECO:0000305}.	apoptotic process (GO:0006915)|blastocyst formation (GO:0001825)|cell-cell junction assembly (GO:0007043)|cell-cell signaling involved in cell-cell junction organization (GO:1901350)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular response to glucose stimulus (GO:0071333)|hippo signaling (GO:0035329)|membrane organization (GO:0061024)|negative regulation of vascular permeability (GO:0043116)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to lipopolysaccharide (GO:0032496)|response to magnetism (GO:0071000)|sensory perception of sound (GO:0007605)	apical junction complex (GO:0043296)|apical part of cell (GO:0045177)|apical plasma membrane (GO:0016324)|apicolateral plasma membrane (GO:0016327)|basolateral plasma membrane (GO:0016323)|cell junction (GO:0030054)|cell-cell adherens junction (GO:0005913)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|gap junction (GO:0005921)|intercalated disc (GO:0014704)|intercellular canaliculus (GO:0046581)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|tight junction (GO:0005923)				breast(4)|central_nervous_system(2)|endometrium(8)|kidney(3)|large_intestine(12)|liver(1)|lung(29)|ovary(4)|pancreas(1)|prostate(3)|urinary_tract(1)	68		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)		AGTTGAATTAGGTAGGACACC	0.343													G|||	1	0.000199681	0.0	0.0	5008	,	,		16296	0.0		0.0	False		,,,				2504	0.001				Melanoma(77;681 1843 6309 6570)											0													68	68	68					15																	30033565		1827	4084	5911	SO:0001583	missense	7082				CCDS42007.1, CCDS45199.1, CCDS73702.1	15q13	2012-07-12	2012-07-12		ENSG00000104067	ENSG00000104067			11827	protein-coding gene	gene with protein product	"zona occludens 1", "tight junction protein ZO-1"	601009				8825647	Standard	XM_005254616		Approved	ZO-1, MGC133289, DKFZp686M05161	uc001zcr.3	Q07157	OTTHUMG00000137397	ENST00000346128.6:c.1226C>T	15.37:g.30033565G>A	ENSP00000281537:p.Pro409Leu	Somatic		WXS	Illumina HiSeq	Phase_1	B4E3K1|Q2NKP3|Q4ZGJ6	Missense_Mutation	SNP	ENST00000346128.6	37	CCDS42007.1	.	.	.	.	.	.	.	.	.	.	G	16.60	3.167877	0.57476	.	.	ENSG00000104067	ENST00000346128;ENST00000400011;ENST00000545208;ENST00000400007;ENST00000356107	T;T;T;T	0.08008	3.15;3.32;3.25;3.14	5.54	5.54	0.83059	PDZ/DHR/GLGF (1);	1.110610	0.06608	N	0.755084	T	0.25568	0.0622	L	0.59436	1.845	0.80722	D	1	B;B;P;D	0.58620	0.033;0.057;0.947;0.983	B;B;P;P	0.54544	0.058;0.07;0.735;0.755	T	0.03025	-1.1081	9	.	.	.	.	19.4859	0.95028	0.0:0.0:1.0:0.0	.	402;409;409;413	A9CQZ8;Q07157-2;Q07157;G5E9E7	.;.;ZO1_HUMAN;.	L	409;413;409;409;409	ENSP00000281537:P409L;ENSP00000382890:P413L;ENSP00000441202:P409L;ENSP00000348416:P409L	.	P	-	2	0	TJP1	27820857	1.000000	0.71417	0.129000	0.21949	0.290000	0.27261	9.864000	0.99589	2.608000	0.88229	0.555000	0.69702	CCT		0.343	TJP1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000268237.3	NM_003257		A	30033565	G	A	30033565	3	1	569	1	0	0	0	0	1	0	0	0	15941	1000	35	2	4096	2	TJP1	15	30033565	Missense_Mutation	SNP	G	TCGA-DW-7839-01A-11D-2136-08		30033565	72497827	41	33640										
HOMER2	9455	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr15	83518619	83518620	+	Frame_Shift_Ins	INS	-	-	T													0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	tctgtctttaaggaacgcacINStttgtcttccaggttttgat							TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr15:83518619_83518620insT	ENST00000304231.8	-	9	1104_1105	c.912_913insA	c.(910-915)aaagtgfs	p.V305fs	HOMER2_ENST00000426485.1_Frame_Shift_Ins_p.V250fs|HOMER2_ENST00000399166.2_Frame_Shift_Ins_p.V239fs|HOMER2_ENST00000450735.2_Frame_Shift_Ins_p.V294fs	NM_199330.2	NP_955362.1	Q9NSB8	HOME2_HUMAN	homer homolog 2 (Drosophila)	305					behavioral response to cocaine (GO:0048148)|calcium-mediated signaling using intracellular calcium source (GO:0035584)|chemical homeostasis within a tissue (GO:0048875)|G-protein coupled glutamate receptor signaling pathway (GO:0007216)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)	apical part of cell (GO:0045177)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|neuronal cell body (GO:0043025)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)				cervix(1)|endometrium(2)|lung(6)	9						AAGGAACGCACTTTGTCTTCCA	0.505											OREG0023389	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0																																										SO:0001589	frameshift_variant	9455			AF093264	CCDS45334.1, CCDS45336.1	15q24.3	2008-02-05				ENSG00000103942			17513	protein-coding gene	gene with protein product		604799				9808459, 9808458	Standard	NM_199330		Approved	CPD, Cupidin, Vesl-2, HOMER-2B, HOMER-2, HOMER-2A	uc002bjg.3	Q9NSB8		ENST00000304231.8:c.913dupA	15.37:g.83518622_83518622dupT	ENSP00000305632:p.Val305fs	Somatic	1222	WXS	Illumina HiSeq	Phase_I	O95269|O95349|Q9NSB6|Q9NSB7|Q9UNT7	Frame_Shift_Ins	INS	ENST00000304231.8	37	CCDS45334.1																																																																																				0.505	HOMER2-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000418689.1			T	83518620	-	T	83518619	7	5	569	1	0	1	1	0	0	0	0	0	7286	565	20	0	155	0	HOMER2	15	83518619	Frame_Shift_Ins	INS	-	TCGA-DW-7839-01A-11D-2136-08	53485054	83518619	19012773	42	33641										
TNRC6A	27327	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	24802526	24802526	+	Frame_Shift_Del	DEL	G	G	-													0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	ggtggtctgtttctgccagtGataactggggagaaacttca							TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr16:24802526delG	ENST00000395799.3	+	6	2692	c.2563delG	c.(2563-2565)gatfs	p.D855fs	TNRC6A_ENST00000315183.7_Frame_Shift_Del_p.D855fs	NM_014494.2	NP_055309.2	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	855	Interaction with argonaute family proteins.|Sufficient for interaction with AGO1 and AGO4.				cellular response to starvation (GO:0009267)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|innate immune response (GO:0045087)|negative regulation of translation involved in gene silencing by miRNA (GO:0035278)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch signaling pathway (GO:0007219)|phosphatidylinositol-mediated signaling (GO:0048015)	cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|micro-ribonucleoprotein complex (GO:0035068)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|cervix(1)|endometrium(13)|kidney(5)|large_intestine(13)|liver(1)|lung(20)|ovary(3)|skin(2)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	64				GBM - Glioblastoma multiforme(48;0.0394)		TTCTGCCAGTGATAACTGGGG	0.478																																																0													80	79	79					16																	24802526		2197	4300	6497	SO:0001589	frameshift_variant	27327			U80739	CCDS10624.2	16p11.2	2009-09-22	2004-12-17	2004-12-17	ENSG00000090905	ENSG00000090905		"Trinucleotide (CAG) repeat containing"	11969	protein-coding gene	gene with protein product		610739	"trinucleotide repeat containing 6"	TNRC6		9225980	Standard	NM_014494		Approved	CAGH26, KIAA1460, GW182	uc002dmm.3	Q8NDV7	OTTHUMG00000096999	ENST00000395799.3:c.2563delG	16.37:g.24802526delG	ENSP00000379144:p.Asp855fs	Somatic		WXS	Illumina HiSeq	Phase_I	C9JAR8|O15408|Q658L5|Q6NVB5|Q8NEZ0|Q8TBT8|Q8TCR0|Q9NV59|Q9P268	Frame_Shift_Del	DEL	ENST00000395799.3	37	CCDS10624.2																																																																																				0.478	TNRC6A-001	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000214081.1	NM_020847		-	24802526	G	-	24802526	7	5	569	1	0	1	0	1	0	0	0	0	16352	1290	45	0	2585	0	TNRC6A	16	24802526	Frame_Shift_Del	DEL	G	TCGA-DW-7839-01A-11D-2136-08		24802526	65552227	43	33642										
WWP2	11060	bcgsc.ca	37	chr16	69971116	69971116	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	ggccccgctggagtggctgcGctactttgacgagaaagagc	15	11	0	3			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr16:69971116G>A	ENST00000359154.2	+	20	2314	c.2213G>A	c.(2212-2214)cGc>cAc	p.R738H	WWP2_ENST00000448661.1_Missense_Mutation_p.R738H|WWP2_ENST00000356003.2_Missense_Mutation_p.R738H|WWP2_ENST00000544162.1_3'UTR|WWP2_ENST00000542271.1_Missense_Mutation_p.R622H|WWP2_ENST00000568684.1_Missense_Mutation_p.R299H	NM_001270454.1|NM_007014.4	NP_001257383.1|NP_008945.2	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase 2	738	HECT. {ECO:0000255|PROSITE- ProRule:PRU00104}.				cellular protein modification process (GO:0006464)|negative regulation of gene expression (GO:0010629)|negative regulation of protein transport (GO:0051224)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transporter activity (GO:0032410)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein autoubiquitination (GO:0051865)|protein K63-linked ubiquitination (GO:0070534)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|regulation of ion transmembrane transport (GO:0034765)|regulation of membrane potential (GO:0042391)|regulation of potassium ion transmembrane transporter activity (GO:1901016)|viral entry into host cell (GO:0046718)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)|ubiquitin ligase complex (GO:0000151)	ligase activity (GO:0016874)|RNA polymerase II transcription factor binding (GO:0001085)|transcription factor binding (GO:0008134)|ubiquitin-protein transferase activity (GO:0004842)			breast(4)|endometrium(2)|kidney(2)|large_intestine(11)|lung(13)|ovary(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	42						GAGTGGCTGCGCTACTTTGAC	0.607																																																0													67	64	65					16																	69971116		2198	4300	6498	SO:0001583	missense	11060			BC013645	CCDS10885.1, CCDS58475.1, CCDS58476.1, CCDS58477.1	16q22.1	2008-02-05			ENSG00000198373	ENSG00000198373			16804	protein-coding gene	gene with protein product		602308				9169421, 12167593	Standard	NM_007014		Approved	AIP2	uc002exv.2	O00308	OTTHUMG00000137573	ENST00000359154.2:c.2213G>A	16.37:g.69971116G>A	ENSP00000352069:p.Arg738His	Somatic		WXS	Illumina HiSeq	Phase_1	A6NEP1|B2R706|B4DTL5|F5H213|H3BRF3|I3RSG8|Q6ZTQ5|Q96CZ2|Q9BWN6	Missense_Mutation	SNP	ENST00000359154.2	37	CCDS10885.1	.	.	.	.	.	.	.	.	.	.	G	25.8	4.679133	0.88542	.	.	ENSG00000198373	ENST00000359154;ENST00000545099;ENST00000448661;ENST00000356003;ENST00000544162;ENST00000542271	T;T;T;T	0.59224	0.28;0.28;0.28;0.28	5.21	4.26	0.50523	HECT (4);	0.000000	0.85682	D	0.000000	T	0.38799	0.1054	N	0.17723	0.515	0.80722	D	1	P	0.41131	0.739	B	0.34779	0.189	T	0.20140	-1.0284	9	.	.	.	.	13.815	0.63285	0.0739:0.0:0.9261:0.0	.	738	O00308	WWP2_HUMAN	H	738;299;738;738;625;622	ENSP00000352069:R738H;ENSP00000396871:R738H;ENSP00000348283:R738H;ENSP00000445616:R622H	.	R	+	2	0	WWP2	68528617	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	4.770000	0.62309	1.312000	0.45043	0.655000	0.94253	CGC		0.607	WWP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268954.1	NM_007014		A	69971116	G	A	69971116	3	1	569	1	0	0	0	0	1	0	0	0	17428	1087	38	1	2291	1	WWP2	16	69971116	Missense_Mutation	SNP	G	TCGA-DW-7839-01A-11D-2136-08	45168590	69971116	20383637	44	33643										
ADAD2	161931	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	84228944	84228944	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	cgtgaaggagatctacaagcTggtggctctgggcaccggca	15	10	2	2			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr16:84228944T>A	ENST00000315906.5	+	5	828	c.776T>A	c.(775-777)cTg>cAg	p.L259Q	RP11-486L19.2_ENST00000565643.1_RNA|RP11-486L19.2_ENST00000569834.1_RNA|RP11-486L19.2_ENST00000561900.1_RNA|RP11-486L19.2_ENST00000536986.1_RNA|ADAD2_ENST00000268624.3_Missense_Mutation_p.L341Q	NM_001145400.1	NP_001138872.1	Q8NCV1	ADAD2_HUMAN	adenosine deaminase domain containing 2	259					RNA processing (GO:0006396)		adenosine deaminase activity (GO:0004000)|RNA binding (GO:0003723)			NS(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(3)|ovary(1)|prostate(2)|skin(1)	13						ATCTACAAGCTGGTGGCTCTG	0.677																																																0													13	15	15					16																	84228944		2167	4266	6433	SO:0001583	missense	161931			AF447586	CCDS10944.1, CCDS45536.1	16q24.1	2007-05-31			ENSG00000140955	ENSG00000140955			30714	protein-coding gene	gene with protein product							Standard	NM_139174		Approved	TENRL, FLJ00337	uc002fhr.2	Q8NCV1	OTTHUMG00000137637	ENST00000315906.5:c.776T>A	16.37:g.84228944T>A	ENSP00000325153:p.Leu259Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCL6|Q8NA94	Missense_Mutation	SNP	ENST00000315906.5	37	CCDS45536.1	.	.	.	.	.	.	.	.	.	.	T	15.79	2.937894	0.52972	.	.	ENSG00000140955	ENST00000315906;ENST00000268624	T;T	0.19938	2.11;2.12	5.22	5.22	0.72569	.	0.300709	0.27618	N	0.018561	T	0.39462	0.1079	L	0.49126	1.545	0.38021	D	0.934833	D;D	0.89917	1.0;1.0	D;D	0.85130	0.995;0.997	T	0.40059	-0.9583	10	0.87932	D	0	-12.5673	11.7794	0.52003	0.0:0.0:0.0:1.0	.	259;341	Q8NCV1;Q8NCV1-2	ADAD2_HUMAN;.	Q	259;341	ENSP00000325153:L259Q;ENSP00000268624:L341Q	ENSP00000268624:L341Q	L	+	2	0	ADAD2	82786445	1.000000	0.71417	0.881000	0.34555	0.081000	0.17604	5.029000	0.64121	2.088000	0.63022	0.528000	0.53228	CTG		0.677	ADAD2-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000433385.1	NM_139174		A	84228944	T	A	84228944	3	1	569	1	0	0	0	0	1	0	0	0	232	1580	55	5	1044	5	ADAD2	16	84228944	Missense_Mutation	SNP	T	TCGA-DW-7839-01A-11D-2136-08	14257828	84228944	6125809	45	33644										
FAM18B2	201158	ucsc.edu	37	chr17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	tgagcaactcacagagaagaCagacgatgattgcactgact	10	9	1	6			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr17:15457087C>T	ENST00000225576.3	-	3	247	c.152G>A	c.(151-153)tGt>tAt	p.C51Y	TVP23C_ENST00000428082.2_Missense_Mutation_p.C51Y|TVP23C-CDRT4_ENST00000522212.2_Missense_Mutation_p.C51Y|TVP23C_ENST00000438826.3_Missense_Mutation_p.C51Y|TVP23C_ENST00000518321.1_Missense_Mutation_p.C51Y|TVP23C_ENST00000584811.1_5'UTR|TVP23C_ENST00000519970.1_Intron	NM_145301.2	NP_660344.2	Q96ET8	TV23C_HUMAN	trans-golgi network vesicle protein 23 homolog C (S. cerevisiae)	51						integral component of membrane (GO:0016021)											ACAGAGAAGACAGACGATGAT	0.373																																																0													274	265	268					17																	15457087		2203	4300	6503	SO:0001583	missense	201158			BC011952	CCDS11170.1, CCDS45617.1	17p12	2012-11-29	2012-11-29	2012-11-29	ENSG00000175106	ENSG00000175106			30453	protein-coding gene	gene with protein product			"family with sequence similarity 18, member B2"	FAM18B2			Standard	NM_001135036		Approved	MGC8763	uc002goq.2	Q96ET8	OTTHUMG00000171461	ENST00000225576.3:c.152G>A	17.37:g.15457087C>T	ENSP00000225576:p.Cys51Tyr	Somatic		WXS	Illumina HiSeq		Q3LIC7	Missense_Mutation	SNP	ENST00000225576.3	37	CCDS11170.1	.	.	.	.	.	.	.	.	.	.	.	2.368	-0.344949	0.05208	.	.	ENSG00000259024;ENSG00000175106;ENSG00000175106;ENSG00000175106	ENST00000522212;ENST00000225576;ENST00000428082;ENST00000438826	T;T;T;T	0.25749	1.78;1.78;1.78;1.78	4.47	4.47	0.54385	.	0.000000	0.85682	N	0.000000	T	0.02571	0.0078	N	0.00004	-3.335	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.06405	0.0;0.0;0.002	T	0.38457	-0.9660	10	0.02654	T	1	-3.8701	9.492	0.38965	0.0:0.0877:0.0:0.9123	.	51;51;51	Q96ET8-2;Q96ET8-3;Q96ET8	.;.;F18B2_HUMAN	Y	51	ENSP00000429865:C51Y;ENSP00000225576:C51Y;ENSP00000406387:C51Y;ENSP00000413355:C51Y	ENSP00000225576:C51Y	C	-	2	0	RP11-726O12.1;FAM18B2	15397812	1.000000	0.71417	1.000000	0.80357	0.703000	0.40648	6.178000	0.71968	0.670000	0.31165	-0.442000	0.05670	TGT		0.373	TVP23C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000130705.2	NM_145301		T	15457087	C	T	15457087	3	4	569	1	0	0	0	0	1	0	0	0	5524	478	17	2	848	2	FAM18B2	17	15457087	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08		15457087	65738123	46	33645										
SREBF1	6720	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	17721579	17721579	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	aaagccaggactcactgcttTtgtggacagcagtgcgcaga	12	10	1	1			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr17:17721579T>C	ENST00000261646.5	-	6	1362	c.1178A>G	c.(1177-1179)aAa>aGa	p.K393R	SREBF1_ENST00000355815.4_Missense_Mutation_p.K423R|SREBF1_ENST00000583732.1_5'Flank|SREBF1_ENST00000435530.2_Missense_Mutation_p.K393R|SREBF1_ENST00000338854.5_Missense_Mutation_p.K393R|SREBF1_ENST00000395757.1_Missense_Mutation_p.K139R	NM_004176.4	NP_004167.3	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription factor 1	393	Interaction with LMNA. {ECO:0000250}.|Leucine-zipper.				aging (GO:0007568)|cellular lipid metabolic process (GO:0044255)|cellular response to fatty acid (GO:0071398)|cellular response to starvation (GO:0009267)|cholesterol metabolic process (GO:0008203)|circadian rhythm (GO:0007623)|insulin receptor signaling pathway (GO:0008286)|lipid biosynthetic process (GO:0008610)|lipid metabolic process (GO:0006629)|lung development (GO:0030324)|negative regulation of insulin secretion (GO:0046676)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of cholesterol biosynthetic process (GO:0045542)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of triglyceride biosynthetic process (GO:0010867)|regulation of fatty acid metabolic process (GO:0019217)|regulation of heart rate by chemical signal (GO:0003062)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to cAMP (GO:0051591)|response to drug (GO:0042493)|response to food (GO:0032094)|response to glucagon (GO:0033762)|response to glucose (GO:0009749)|response to progesterone (GO:0032570)|response to retinoic acid (GO:0032526)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|nuclear envelope (GO:0005635)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|protein complex (GO:0043234)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|sterol response element binding (GO:0032810)			cervix(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(5)|skin(1)|urinary_tract(1)	14						CTCACTGCTTTTGTGGACAGC	0.567																																																0													126	105	112					17																	17721579		2203	4300	6503	SO:0001583	missense	6720			BC057388	CCDS11189.1, CCDS32583.1	17p11.2	2013-05-21			ENSG00000072310	ENSG00000072310		"Basic helix-loop-helix proteins"	11289	protein-coding gene	gene with protein product		184756				8402897, 7759101	Standard	NM_001005291		Approved	SREBP1, bHLHd1, SREBP-1c	uc002grt.2	P36956	OTTHUMG00000059313	ENST00000261646.5:c.1178A>G	17.37:g.17721579T>C	ENSP00000261646:p.Lys393Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B0I4X3|B0I4X4|D3DXC4|Q16062|Q59F52|Q6P4R7|Q6PFW7|Q6PJ36|Q8TAK9	Missense_Mutation	SNP	ENST00000261646.5	37	CCDS11189.1	.	.	.	.	.	.	.	.	.	.	T	23.9	4.472206	0.84533	.	.	ENSG00000072310	ENST00000338854;ENST00000355815;ENST00000261646;ENST00000395757;ENST00000418712;ENST00000423161;ENST00000435530	T;T;T;T;T	0.80738	0.37;0.4;0.4;0.88;-1.41	5.13	2.6	0.31112	Helix-loop-helix DNA-binding (2);	0.049203	0.85682	N	0.000000	D	0.83496	0.5267	L	0.50333	1.59	0.58432	D	0.999998	D;B;D;D	0.89917	0.998;0.402;1.0;1.0	D;B;D;D	0.91635	0.993;0.235;0.997;0.999	T	0.79674	-0.1705	10	0.51188	T	0.08	-4.0837	6.0908	0.19993	0.0:0.1068:0.1545:0.7388	.	393;369;393;423	B0I4X3;B0I4X4;P36956;P36956-4	.;.;SRBP1_HUMAN;.	R	393;423;393;139;230;319;393	ENSP00000345822:K393R;ENSP00000348069:K423R;ENSP00000261646:K393R;ENSP00000379106:K139R;ENSP00000413389:K393R	ENSP00000261646:K393R	K	-	2	0	SREBF1	17662304	0.997000	0.39634	0.970000	0.41538	0.899000	0.52679	2.228000	0.42981	0.187000	0.20147	0.459000	0.35465	AAA		0.567	SREBF1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131771.1	NM_004176		C	17721579	T	C	17721579	3	2	569	1	0	0	0	0	1	0	0	0	15153	1841	64	3	2321	3	SREBF1	17	17721579	Missense_Mutation	SNP	T	TCGA-DW-7839-01A-11D-2136-08	2264492	17721579	63473631	47	33646										
ERBB2	2064	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	37880219	37880220	+	Missense_Mutation	DNP	TT	TT	CC													0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	ttccagtggccatcaaagtgTtgagggaaaacacatccccc					rs121913470|rs121913469		TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr17:37880219_37880220TT>CC	ENST00000269571.5	+	19	2422_2423	c.2263_2264TT>CC	c.(2263-2265)TTg>CCg	p.L755P	ERBB2_ENST00000584450.1_Missense_Mutation_p.L755P|ERBB2_ENST00000406381.2_Missense_Mutation_p.L725P|ERBB2_ENST00000541774.1_Missense_Mutation_p.L740P|ERBB2_ENST00000540147.1_Missense_Mutation_p.L725P|MIR4728_ENST00000580969.1_RNA|ERBB2_ENST00000584601.1_Missense_Mutation_p.L725P|ERBB2_ENST00000445658.2_Missense_Mutation_p.L479P			P04626	ERBB2_HUMAN	v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2	755	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.		L -> P (in a lung adenocarcinoma sample; somatic mutation). {ECO:0000269|PubMed:15457249}.		axon guidance (GO:0007411)|cell proliferation (GO:0008283)|cell surface receptor signaling pathway (GO:0007166)|enzyme linked receptor protein signaling pathway (GO:0007167)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|motor neuron axon guidance (GO:0008045)|myelination (GO:0042552)|negative regulation of immature T cell proliferation in thymus (GO:0033088)|neuromuscular junction development (GO:0007528)|neurotrophin TRK receptor signaling pathway (GO:0048011)|oligodendrocyte differentiation (GO:0048709)|peptidyl-tyrosine phosphorylation (GO:0018108)|peripheral nervous system development (GO:0007422)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell adhesion (GO:0045785)|positive regulation of cell growth (GO:0030307)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of transcription from RNA polymerase I promoter (GO:0045943)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|positive regulation of translation (GO:0045727)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of angiogenesis (GO:0045765)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of microtubule-based process (GO:0032886)|signal transduction (GO:0007165)|signal transduction by phosphorylation (GO:0023014)|transcription, DNA-templated (GO:0006351)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|wound healing (GO:0042060)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|endosome membrane (GO:0010008)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|ErbB-3 class receptor binding (GO:0043125)|identical protein binding (GO:0042802)|protein C-terminus binding (GO:0008022)|protein dimerization activity (GO:0046983)|protein heterodimerization activity (GO:0046982)|protein phosphatase binding (GO:0019903)|protein tyrosine kinase activity (GO:0004713)|receptor signaling protein tyrosine kinase activity (GO:0004716)|RNA polymerase I core binding (GO:0001042)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)|transmembrane signaling receptor activity (GO:0004888)	p.L755S(10)|p.L755P(2)|p.L755_S760>A(1)		NS(1)|breast(16)|central_nervous_system(17)|endometrium(6)|haematopoietic_and_lymphoid_tissue(8)|kidney(4)|large_intestine(16)|liver(3)|lung(125)|ovary(18)|pancreas(1)|prostate(4)|skin(1)|stomach(14)|upper_aerodigestive_tract(9)|urinary_tract(4)	247	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	ado-trastuzumab emtansine(DB05773)|Afatinib(DB08916)|Lapatinib(DB01259)|Pertuzumab(DB06366)|Trastuzumab(DB00072)	CATCAAAGTGTTGAGGGAAAAC	0.53	L755S(LN229_CENTRAL_NERVOUS_SYSTEM)	1	"A, Mis, O"		"breast, ovarian, other tumour types, NSCLC, gastric"					TCGA GBM(5;<1E-08)																													Dom	yes		17	17q21.1	2064	"v-erb-b2 erythroblastic leukemia viral oncogene homolog 2, neuro/glioblastoma derived oncogene homolog (avian)"		E	13	Substitution - Missense(12)|Complex - insertion inframe(1)	breast(7)|lung(3)|stomach(2)|large_intestine(1)																																								SO:0001583	missense	2064			X03363	CCDS32642.1, CCDS45667.1, CCDS74052.1	17q11.2-q12	2014-09-17	2013-07-09			ENSG00000141736		"CD molecules"	3430	protein-coding gene	gene with protein product	"neuro/glioblastoma derived oncogene homolog"	164870	"v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"	NGL			Standard	XM_005257140		Approved	NEU, HER-2, CD340, HER2	uc002hso.3	P04626		Exception_encountered	17.37:g.37880219_37880220delinsCC	ENSP00000269571:p.Leu755Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RZG3|B4DHN3|Q14256|Q6LDV1|Q9UMK4|X5D2V5	Missense_Mutation	DNP	ENST00000269571.5	37	CCDS32642.1																																																																																				0.53	ERBB2-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445621.2			CC	37880220	TT	CC	37880219	3	2	569	1	0	0	0	0	1	0	0	0	5208	1722	60	3	2337	3	ERBB2	17	37880219	Missense_Mutation	DNP	TT	TCGA-DW-7839-01A-11D-2136-08	20158640	37880219	43314991	48	33647										
CYP2A6	1548	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	41352945	41352945	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	tgtttcatcaccgaagagaaCatctcatagagctggggttg	11	8	3	2			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr19:41352945C>T	ENST00000301141.5	-	5	686	c.666G>A	c.(664-666)atG>atA	p.M222I	CTC-490E21.12_ENST00000601627.1_Intron	NM_000762.5	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A, polypeptide 6	222					coumarin catabolic process (GO:0046226)|coumarin metabolic process (GO:0009804)|drug metabolic process (GO:0017144)|exogenous drug catabolic process (GO:0042738)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|xenobiotic metabolic process (GO:0006805)	cytoplasmic microtubule (GO:0005881)|endoplasmic reticulum membrane (GO:0005789)	coumarin 7-hydroxylase activity (GO:0008389)|enzyme binding (GO:0019899)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen (GO:0016712)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(7)|lung(9)|ovary(3)|prostate(5)|skin(2)|upper_aerodigestive_tract(2)	37			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Acetaminophen(DB00316)|Amiodarone(DB01118)|Amlodipine(DB00381)|Amobarbital(DB01351)|Amphetamine(DB00182)|Antipyrine(DB01435)|Arformoterol(DB01274)|Azelastine(DB00972)|Azithromycin(DB00207)|Buprenorphine(DB00921)|Bupropion(DB01156)|Chlorzoxazone(DB00356)|Cinnarizine(DB00568)|Cisapride(DB00604)|Clofibrate(DB00636)|Clomifene(DB00882)|Clotrimazole(DB00257)|Clozapine(DB00363)|Cyclophosphamide(DB00531)|Dapagliflozin(DB06292)|Desipramine(DB01151)|Dexamethasone(DB01234)|Dexfenfluramine(DB01191)|Diethylstilbestrol(DB00255)|Dronabinol(DB00470)|Eletriptan(DB00216)|Ezogabine(DB04953)|Flunarizine(DB04841)|Flunitrazepam(DB01544)|Fluorouracil(DB00544)|Flurazepam(DB00690)|Fomepizole(DB01213)|Formoterol(DB00983)|Halothane(DB01159)|Ifosfamide(DB01181)|Isoniazid(DB00951)|Ketoconazole(DB01026)|Letrozole(DB01006)|Lidocaine(DB00281)|Lorcaserin(DB04871)|Memantine(DB01043)|Menadione(DB00170)|Methimazole(DB00763)|Methoxsalen(DB00553)|Methoxyflurane(DB01028)|Metyrapone(DB01011)|Miconazole(DB01110)|Montelukast(DB00471)|Nevirapine(DB00238)|Nicotine(DB00184)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Norfloxacin(DB01059)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Pilocarpine(DB01085)|Prednisolone(DB00860)|Progesterone(DB00396)|Propofol(DB00818)|Rifampicin(DB01045)|Rosiglitazone(DB00412)|Selegiline(DB01037)|Sevoflurane(DB01236)|Sulfaphenazole(DB06729)|Tamoxifen(DB00675)|Tranylcypromine(DB00752)|Tretinoin(DB00755)|Troleandomycin(DB01361)|Valproic Acid(DB00313)|Zidovudine(DB00495)	CCGAAGAGAACATCTCATAGA	0.537																																																0													48	40	43					19																	41352945		2203	4297	6500	SO:0001583	missense	1548			AF182275	CCDS12568.1	19q13.2	2013-11-11	2003-01-14		ENSG00000255974	ENSG00000255974		"Cytochrome P450s"	2610	protein-coding gene	gene with protein product		122720	"cytochrome P450, subfamily IIA (phenobarbital-inducible), polypeptide 6"	CYP2A3		7668294, 2748347	Standard	NM_000762		Approved	CPA6, CYP2A	uc002opl.4	P11509	OTTHUMG00000182713	ENST00000301141.5:c.666G>A	19.37:g.41352945C>T	ENSP00000301141:p.Met222Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A7YAE5|B2R7F6|P00190|P10890|Q16803|Q4VAT9|Q4VAU0|Q4VAU1|Q9H1Z7|Q9UCU0|Q9UK48	Missense_Mutation	SNP	ENST00000301141.5	37	CCDS12568.1	.	.	.	.	.	.	.	.	.	.	-	5.838	0.338918	0.11069	.	.	ENSG00000255974	ENST00000301141	T	0.01240	5.12	2.37	1.3	0.21679	.	0.182151	0.48767	D	0.000168	T	0.00998	0.0033	N	0.16233	0.39	0.25269	N	0.989535	B;B	0.25206	0.099;0.12	B;B	0.34346	0.18;0.18	T	0.48692	-0.9013	10	0.09338	T	0.73	.	4.7113	0.12873	0.0:0.5458:0.0:0.4542	.	222;222	Q13120;P11509	.;CP2A6_HUMAN	I	222	ENSP00000301141:M222I	ENSP00000301141:M222I	M	-	3	0	CYP2A6	46044785	0.020000	0.18652	0.953000	0.39169	0.845000	0.48019	-0.094000	0.11094	0.334000	0.23590	0.386000	0.25728	ATG		0.537	CYP2A6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463259.1	NM_000762		T	41352945	C	T	41352945	3	4	569	1	0	0	0	0	1	0	0	0	4164	478	17	2	838	2	CYP2A6	19	41352945	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08		41352945	17776038	49	33648										
CYP2A7	1549	hgsc.bcm.edu;broad.mit.edu	37	chr19	41384830	41384830	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	tgtttcatcaccgaagagaaCatctcatagagctggggttg	11	8	3	2			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr19:41384830C>T	ENST00000301146.4	-	5	1207	c.666G>A	c.(664-666)atG>atA	p.M222I	CTC-490E21.12_ENST00000601627.1_Intron|CYP2A7_ENST00000291764.3_Missense_Mutation_p.M171I	NM_000764.2	NP_000755.2	P20853	CP2A7_HUMAN	cytochrome P450, family 2, subfamily A, polypeptide 7	222						endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)	aromatase activity (GO:0070330)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|oxygen binding (GO:0019825)			endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(6)|lung(7)|ovary(4)|pancreas(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	27			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			CCGAAGAGAACATCTCATAGA	0.532																																																0													36	33	34					19																	41384830		2203	4296	6499	SO:0001583	missense	1549			NM_000764	CCDS12569.1, CCDS42570.1	19q13.2	2013-07-25	2003-01-14		ENSG00000198077	ENSG00000198077		"Cytochrome P450s"	2611	protein-coding gene	gene with protein product		608054	"cytochrome P450, subfamily IIA (phenobarbital-inducible), polypeptide 7"			7668294, 15128046	Standard	NM_030589		Approved	CYP2A	uc002opm.3	P20853	OTTHUMG00000182715	ENST00000301146.4:c.666G>A	19.37:g.41384830C>T	ENSP00000301146:p.Met222Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q13121	Missense_Mutation	SNP	ENST00000301146.4	37	CCDS12569.1	.	.	.	.	.	.	.	.	.	.	C	8.228	0.803977	0.16467	.	.	ENSG00000198077	ENST00000301146;ENST00000291764	T;T	0.66815	5.12;-0.23	2.18	1.08	0.20341	.	0.182151	0.48767	D	0.000168	T	0.43366	0.1244	N	0.12569	0.235	0.23876	N	0.996596	B;B;B	0.25206	0.099;0.058;0.12	B;B;B	0.38562	0.276;0.169;0.276	T	0.34179	-0.9839	10	0.08837	T	0.75	.	2.9623	0.05896	0.0:0.4535:0.2402:0.3063	.	222;171;222	B7ZKR0;F8W816;P20853	.;.;CP2A7_HUMAN	I	222;171	ENSP00000301146:M222I;ENSP00000291764:M171I	ENSP00000291764:M171I	M	-	3	0	CYP2A7	46076670	0.490000	0.26012	0.683000	0.30040	0.473000	0.32948	0.500000	0.22562	0.240000	0.21263	0.184000	0.17185	ATG		0.532	CYP2A7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463269.2	NM_030589		T	41384830	C	T	41384830	3	4	569	1	0	0	0	0	1	0	0	0	4165	478	17	2	838	2	CYP2A7	19	41384830	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08	31885	41384830	17744153	50	33649										
DMPK	1760	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	46281110	46281110	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	ggacaggtagtctggggtgcCcacagccaccagcgaccgca	14	14	1	0			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr19:46281110C>T	ENST00000291270.4	-	7	822	c.697G>A	c.(697-699)Ggc>Agc	p.G233S	DMPK_ENST00000595361.1_5'Flank|DMPK_ENST00000447742.2_Missense_Mutation_p.G233S|DMPK_ENST00000343373.4_Missense_Mutation_p.G243S|DMPK_ENST00000458663.2_Missense_Mutation_p.G233S|DMPK_ENST00000600757.1_Missense_Mutation_p.G243S|DMPK_ENST00000354227.5_Missense_Mutation_p.G233S	NM_004409.3	NP_004400.4	Q09013	DMPK_HUMAN	dystrophia myotonica-protein kinase	233	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cellular calcium ion homeostasis (GO:0006874)|muscle cell apoptotic process (GO:0010657)|nuclear envelope organization (GO:0006998)|protein phosphorylation (GO:0006468)|regulation of catalytic activity (GO:0050790)|regulation of excitatory postsynaptic membrane potential involved in skeletal muscle contraction (GO:0014853)|regulation of heart contraction (GO:0008016)|regulation of myotube differentiation (GO:0010830)|regulation of skeletal muscle contraction by calcium ion signaling (GO:0014722)|regulation of sodium ion transport (GO:0002028)|regulation of synapse structural plasticity (GO:0051823)	cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|integral component of mitochondrial outer membrane (GO:0031307)|nuclear membrane (GO:0031965)|plasma membrane (GO:0005886)|sarcoplasmic reticulum membrane (GO:0033017)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|myosin phosphatase regulator activity (GO:0017020)|protein serine/threonine kinase activity (GO:0004674)			endometrium(5)|kidney(1)|large_intestine(1)|lung(6)|stomach(1)|urinary_tract(2)	16		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00616)|GBM - Glioblastoma multiforme(486;0.0825)|Epithelial(262;0.24)		TCTGGGGTGCCCACAGCCACC	0.692																																					Esophageal Squamous(35;307 869 9153 24033 28903)											0													34	38	37					19																	46281110		2200	4292	6492	SO:0001583	missense	1760			L19268	CCDS12674.1, CCDS46117.1, CCDS46118.1, CCDS46119.1, CCDS74400.1	19q13.3	2014-02-05					2.7.11.1		2933	protein-coding gene	gene with protein product	"dystrophia myotonica 1", "DM protein kinase", "myotonin protein kinase A", "myotonic dystrophy associated protein kinase", "thymopoietin homolog"	605377	"dystrophia myotonica 1 (includes dystrophia myotonia protein kinase)"	DM1, DM		1546325, 1546326	Standard	NM_001288765		Approved	DMK, DM1PK, MDPK, MT-PK	uc002pdf.1	Q09013		ENST00000291270.4:c.697G>A	19.37:g.46281110C>T	ENSP00000291270:p.Gly233Ser	Somatic		WXS	Illumina HiSeq	Phase_I	E5KR08|Q16205|Q6P5Z6	Missense_Mutation	SNP	ENST00000291270.4	37	CCDS12674.1	.	.	.	.	.	.	.	.	.	.	c	35	5.523740	0.96431	.	.	ENSG00000104936	ENST00000458663;ENST00000342805;ENST00000291270;ENST00000447742;ENST00000377750;ENST00000343373;ENST00000348168;ENST00000354227	T;T;T;T;T	0.58210	0.35;0.35;0.35;0.35;0.35	4.77	4.77	0.60923	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.43747	D	0.000533	T	0.80929	0.4718	H	0.95982	3.75	0.80722	D	1	D;D;D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D;D;D	0.97110	1.0;0.999;0.999;1.0;1.0;1.0;1.0;1.0	D	0.87078	0.2164	10	0.87932	D	0	.	15.3285	0.74186	0.0:1.0:0.0:0.0	.	233;233;259;233;233;233;280;243	Q09013-12;Q09013-16;G5E982;E5KR07;E5KR05;Q09013;Q59FU6;E5KR08	.;.;.;.;.;DMPK_HUMAN;.;.	S	233;259;233;233;233;243;243;233	ENSP00000401753:G233S;ENSP00000291270:G233S;ENSP00000413417:G233S;ENSP00000345997:G243S;ENSP00000346168:G233S	ENSP00000291270:G233S	G	-	1	0	DMPK	50972950	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	7.606000	0.82863	2.455000	0.83008	0.655000	0.94253	GGC		0.692	DMPK-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000460572.1	NM_004409		T	46281110	C	T	46281110	3	4	569	1	0	0	0	0	1	0	0	0	4586	623	22	2	1235	2	DMPK	19	46281110	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08	4896280	46281110	12847873	51	33650										
NLRP2	55655	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	55494859	55494859	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	ttgtaagggtggacattcaaCggtgacagacctgcaggagc	14	8	1	2			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr19:55494859C>T	ENST00000543010.1	+	6	1936	c.1793C>T	c.(1792-1794)aCg>aTg	p.T598M	NLRP2_ENST00000391721.4_Missense_Mutation_p.T574M|NLRP2_ENST00000263437.6_Missense_Mutation_p.T595M|NLRP2_ENST00000448584.2_Missense_Mutation_p.T598M|NLRP2_ENST00000427260.2_Missense_Mutation_p.T575M|NLRP2_ENST00000538819.1_Missense_Mutation_p.T574M|NLRP2_ENST00000339757.7_Missense_Mutation_p.T576M|NLRP2_ENST00000537859.1_Missense_Mutation_p.T576M	NM_001174081.1	NP_001167552.1	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	598					positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of interleukin-1 beta secretion (GO:0050718)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|Pyrin domain binding (GO:0032090)			large_intestine(4)|liver(1)|ovary(1)|skin(2)|upper_aerodigestive_tract(3)	11			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		GGACATTCAACGGTGACAGAC	0.537																																																0													107	92	97					19																	55494859		2203	4300	6503	SO:0001583	missense	55655			AK000517	CCDS12913.1, CCDS54318.1, CCDS54319.1	19q13.42	2008-02-05	2006-12-08	2006-12-08	ENSG00000022556	ENSG00000022556		"Nucleotide-binding domain and leucine rich repeat containing"	22948	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 2"	609364	"NACHT, leucine rich repeat and PYD containing 2"	NALP2		12563287, 11270363	Standard	NM_001174081		Approved	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9	uc021vbq.1	Q9NX02	OTTHUMG00000167763	ENST00000543010.1:c.1793C>T	19.37:g.55494859C>T	ENSP00000445135:p.Thr598Met	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZL7|I3L0G4|Q53FL5|Q59G09|Q8IXT0|Q9BVN5|Q9H6G6|Q9HAV9|Q9NWK3	Missense_Mutation	SNP	ENST00000543010.1	37	CCDS12913.1	.	.	.	.	.	.	.	.	.	.	C	12.81	2.048824	0.36181	.	.	ENSG00000022556	ENST00000543010;ENST00000391721;ENST00000339757;ENST00000448584;ENST00000537859;ENST00000427260;ENST00000538819;ENST00000263437	T;T;T;T;T;T;T;T	0.74842	-0.87;-0.78;-0.8;-0.87;-0.8;-0.88;-0.78;-0.87	1.94	-0.27	0.12926	.	.	.	.	.	T	0.72095	0.3418	L	0.40543	1.245	0.09310	N	1	D;D;D;D;D	0.63880	0.993;0.993;0.988;0.993;0.988	P;P;P;P;P	0.58391	0.749;0.838;0.693;0.838;0.693	T	0.59894	-0.7368	9	0.48119	T	0.1	.	4.2569	0.10721	0.0:0.6265:0.0:0.3735	.	575;576;595;574;598	B4DZL7;Q9NX02-2;A8K9G6;Q9NX02-4;Q9NX02	.;.;.;.;NALP2_HUMAN	M	598;574;576;598;576;575;574;595	ENSP00000445135:T598M;ENSP00000375601:T574M;ENSP00000344074:T576M;ENSP00000409370:T598M;ENSP00000440601:T576M;ENSP00000402474:T575M;ENSP00000441133:T574M;ENSP00000263437:T595M	ENSP00000263437:T595M	T	+	2	0	NLRP2	60186671	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.276000	0.08514	-0.000000	0.14550	0.561000	0.74099	ACG		0.537	NLRP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000396152.1	NM_017852		T	55494859	C	T	55494859	3	4	569	1	0	0	0	0	1	0	0	0	10484	536	19	1	1811	1	NLRP2	19	55494859	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08	9213749	55494859	3634124	52	33651										
SNX5	27131	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	17933351	17933351	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	ttcttaaacacagcgagataCtcactgaaaagagatgtgca	8	8	2	3			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr20:17933351C>G	ENST00000377768.3	-	6	705	c.393G>C	c.(391-393)gaG>gaC	p.E131D	SNX5_ENST00000377759.4_Missense_Mutation_p.E131D|SNX5_ENST00000483485.1_5'UTR	NM_152227.1	NP_689413.1	Q9Y5X3	SNX5_HUMAN	sorting nexin 5	131	PX. {ECO:0000255|PROSITE- ProRule:PRU00147}.				intracellular protein transport (GO:0006886)|pinocytosis (GO:0006907)	cytoplasmic vesicle (GO:0031410)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)|extrinsic component of endosome membrane (GO:0031313)|macropinocytic cup (GO:0070685)	phosphatidylinositol binding (GO:0035091)			endometrium(1)|kidney(1)|large_intestine(3)|lung(5)|prostate(1)	11						CAGCGAGATACTCACTGAAAA	0.453																																																0													53	47	49					20																	17933351		2203	4300	6503	SO:0001583	missense	27131			AF121855	CCDS13130.1	20p11	2008-05-22			ENSG00000089006	ENSG00000089006		"Sorting nexins"	14969	protein-coding gene	gene with protein product		605937				10600472, 17148574	Standard	NM_152227		Approved		uc002wqc.3	Q9Y5X3	OTTHUMG00000031953	ENST00000377768.3:c.393G>C	20.37:g.17933351C>G	ENSP00000366998:p.Glu131Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKN3|D3DW26|Q52LC4|Q7KZN0|Q9BWP0	Missense_Mutation	SNP	ENST00000377768.3	37	CCDS13130.1	.	.	.	.	.	.	.	.	.	.	C	15.20	2.763778	0.49574	.	.	ENSG00000089006	ENST00000377768;ENST00000377759;ENST00000431277;ENST00000419004	T;T;T;T	0.39997	1.05;1.05;1.05;1.05	5.66	-7.72	0.01250	Phox homologous domain (5);	0.000000	0.85682	D	0.000000	T	0.43656	0.1257	M	0.68593	2.085	0.52099	D	0.999949	B;P	0.44006	0.435;0.824	B;P	0.48141	0.366;0.568	T	0.60311	-0.7288	10	0.38643	T	0.18	.	16.5172	0.84304	0.0:0.2582:0.0:0.7418	.	152;131	B7Z476;Q9Y5X3	.;SNX5_HUMAN	D	131;131;94;96	ENSP00000366998:E131D;ENSP00000366988:E131D;ENSP00000404448:E94D;ENSP00000406731:E96D	ENSP00000366988:E131D	E	-	3	2	SNX5	17881351	0.985000	0.35326	0.546000	0.28166	0.781000	0.44180	0.195000	0.17155	-1.620000	0.01564	-1.124000	0.02001	GAG		0.453	SNX5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078137.4			G	17933351	C	G	17933351	3	3	569	1	0	0	0	0	1	0	0	0	14918	564	20	4	857	4	SNX5	20	17933351	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08		17933351	45092169	53	33652										
WFDC10A	140832	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	44258534	44258534	+	Frame_Shift_Del	DEL	A	A	-													0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	gaggataccgtgacaagaagAggatgcagagtaggtgatgg							TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chr20:44258534delA	ENST00000372643.3	+	1	370	c.82delA	c.(82-84)aggfs	p.R28fs	WFDC9_ENST00000326000.1_Intron	NM_080753.2	NP_542791.1	Q9H1F0	WF10A_HUMAN	WAP four-disulfide core domain 10A	28						extracellular region (GO:0005576)	serine-type endopeptidase inhibitor activity (GO:0004867)			large_intestine(2)	2		Myeloproliferative disorder(115;0.0122)				TGACAAGAAGAGGATGCAGAG	0.577											OREG0025983	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													165	130	142					20																	44258534		2203	4300	6503	SO:0001589	frameshift_variant	140832			AL031671	CCDS13363.1	20q13.11	2013-01-21	2003-02-21	2003-02-21	ENSG00000180305	ENSG00000180305		"WAP four-disulfide core domain containing"	16139	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 146"	C20orf146		12206714	Standard	NM_080753		Approved	dJ688G8.3, WAP10	uc002xoz.3	Q9H1F0	OTTHUMG00000046331	ENST00000372643.3:c.82delA	20.37:g.44258534delA	ENSP00000361726:p.Arg28fs	Somatic	922	WXS	Illumina HiSeq	Phase_I	A2RRE9|Q5TGZ7	Frame_Shift_Del	DEL	ENST00000372643.3	37	CCDS13363.1																																																																																				0.577	WFDC10A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000106944.2			-	44258534	A	-	44258534	7	5	569	1	0	1	0	1	0	0	0	0	17359	295	11	0	84	0	WFDC10A	20	44258534	Frame_Shift_Del	DEL	A	TCGA-DW-7839-01A-11D-2136-08	26325183	44258534	18766986	54	33653										
NUDT10	170685	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	51075840	51075840	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	gaagtgcaaacccaaccagaCacggacctacgaccccgagg	10	15	0	1			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chrX:51075840C>T	ENST00000376006.3	+	2	243	c.23C>T	c.(22-24)aCa>aTa	p.T8I	NUDT10_ENST00000356450.2_Missense_Mutation_p.T8I	NM_153183.2	NP_694853.1	Q9BW91	NUDT9_HUMAN	nudix (nucleoside diphosphate linked moiety X)-type motif 10	0					ADP catabolic process (GO:0046032)|IDP catabolic process (GO:0046709)|nucleobase-containing small molecule catabolic process (GO:0034656)|nucleobase-containing small molecule metabolic process (GO:0055086)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|mitochondrial matrix (GO:0005759)	adenosine-diphosphatase activity (GO:0043262)|ADP-ribose diphosphatase activity (GO:0047631)|ADP-sugar diphosphatase activity (GO:0019144)			cervix(1)|endometrium(8)|kidney(1)|large_intestine(1)|lung(1)|prostate(3)|upper_aerodigestive_tract(1)	16	Ovarian(276;0.236)					CCCAACCAGACACGGACCTAC	0.677																																					NSCLC(90;1817 2035 37909 38249)											0													48	36	40					X																	51075840		2203	4300	6503	SO:0001583	missense	170685			AF469196	CCDS35278.1	Xp11.22-p11.1	2014-05-20			ENSG00000122824	ENSG00000122824		"Nudix motif containing"	17621	protein-coding gene	gene with protein product		300527				12105228	Standard	NM_153183		Approved	DIPP3a, hDIPP3alpha	uc004dph.3	Q8NFP7	OTTHUMG00000021530	ENST00000376006.3:c.23C>T	X.37:g.51075840C>T	ENSP00000365174:p.Thr8Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NBN1|Q8NCB9|Q8NG25	Missense_Mutation	SNP	ENST00000376006.3	37	CCDS35278.1	.	.	.	.	.	.	.	.	.	.	C	14.72	2.619529	0.46736	.	.	ENSG00000122824	ENST00000376006;ENST00000356450	T;T	0.41758	0.99;0.99	2.61	2.61	0.31194	NUDIX hydrolase domain-like (1);	0.000000	0.85682	D	0.000000	T	0.31263	0.0791	L	0.40543	1.245	0.38831	D	0.955848	B	0.06786	0.001	B	0.08055	0.003	T	0.39440	-0.9614	9	0.33141	T	0.24	-26.7854	10.5501	0.45083	0.0:1.0:0.0:0.0	.	8	Q8NFP7	NUD10_HUMAN	I	8	ENSP00000365174:T8I;ENSP00000348831:T8I	ENSP00000348831:T8I	T	+	2	0	NUDT10	51092580	1.000000	0.71417	1.000000	0.80357	0.813000	0.45954	4.938000	0.63519	1.602000	0.50124	0.429000	0.28392	ACA		0.677	NUDT10-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056578.1	NM_153183		T	51075840	C	T	51075840	3	4	569	1	0	0	0	0	1	0	0	0	10733	478	17	2	25	2	NUDT10	23	51075840	Missense_Mutation	SNP	C	TCGA-DW-7839-01A-11D-2136-08		51075840	104194720	55	33654										
NUDT11	55190	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	51239274	51239274	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	cctcggggtcgtaggtccgcGtctggttgggtttgcacttc	15	11	1	0			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chrX:51239274G>A	ENST00000375992.3	-	1	174	c.23C>T	c.(22-24)aCg>aTg	p.T8M		NM_018159.3	NP_060629.2	Q96G61	NUD11_HUMAN	nudix (nucleoside diphosphate linked moiety X)-type motif 11	8					inositol phosphate metabolic process (GO:0043647)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|intracellular (GO:0005622)	diphosphoinositol-polyphosphate diphosphatase activity (GO:0008486)|inositol diphosphate tetrakisphosphate diphosphatase activity (GO:0052840)|inositol-1,5-bisdiphosphate-2,3,4,6-tetrakisphosphate 1-diphosphatase activity (GO:0052846)|inositol-1,5-bisdiphosphate-2,3,4,6-tetrakisphosphate 5-diphosphatase activity (GO:0052847)|inositol-1-diphosphate-2,3,4,5,6-pentakisphosphate diphosphatase activity (GO:0052843)|inositol-3,5-bisdiphosphate-2,3,4,6-tetrakisphosphate 5-diphosphatase activity (GO:0052848)|inositol-3-diphosphate-1,2,4,5,6-pentakisphosphate diphosphatase activity (GO:0052844)|inositol-5-diphosphate-1,2,3,4,6-pentakisphosphate diphosphatase activity (GO:0052845)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(2)|prostate(1)|upper_aerodigestive_tract(2)	9	Ovarian(276;0.236)					GTAGGTCCGCGTCTGGTTGGG	0.682										HNSCC(48;0.14)																											GBM(38;198 791 1498 11752 13599)											0													20	17	18					X																	51239274		2199	4298	6497	SO:0001583	missense	55190			AK001490	CCDS43952.1	Xp11.22-p11.1	2014-05-20			ENSG00000196368	ENSG00000196368		"Nudix motif containing"	18011	protein-coding gene	gene with protein product						12105228	Standard	NM_018159		Approved	DIPP3b, FLJ10628, hDIPP3beta	uc010njt.3	Q96G61	OTTHUMG00000021531	ENST00000375992.3:c.23C>T	X.37:g.51239274G>A	ENSP00000365160:p.Thr8Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NVN0	Missense_Mutation	SNP	ENST00000375992.3	37	CCDS43952.1	.	.	.	.	.	.	.	.	.	.	G	16.48	3.134884	0.56828	.	.	ENSG00000196368	ENST00000375992	T	0.40756	1.02	3.0	2.01	0.26516	NUDIX hydrolase domain-like (1);	0.000000	0.85682	D	0.000000	T	0.36635	0.0974	M	0.70275	2.135	0.36766	D	0.883520	P	0.43750	0.816	B	0.37692	0.256	T	0.55270	-0.8167	9	0.48119	T	0.1	-26.7854	8.2508	0.31717	0.0:0.0:0.7647:0.2353	.	8	Q96G61	NUD11_HUMAN	M	8	ENSP00000365160:T8M	ENSP00000365160:T8M	T	-	2	0	NUDT11	51256014	1.000000	0.71417	1.000000	0.80357	0.966000	0.64601	8.357000	0.90088	1.514000	0.48869	0.544000	0.68410	ACG		0.682	NUDT11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056579.1			A	51239274	G	A	51239274	3	1	569	1	0	0	0	0	1	0	0	0	10734	1145	40	1	479	1	NUDT11	23	51239274	Missense_Mutation	SNP	G	TCGA-DW-7839-01A-11D-2136-08	163434	51239274	104031286	56	33655										
RGAG4	340526	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	71351213	71351213	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0178571428571429	1	1	0.362692445399212	1.08807733619764	0	1	1	0	ctccgcaaggacgggcactaTgggtactggccagcggatgt	15	11	0	0			TCGA-DW-7839-01A-11D-2136-08	TCGA-DW-7839-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d305b7d5-cbb1-41bf-8b2b-1cc2ba653c20	59a27c03-2a9d-4978-81e0-94d09e0e5d43	g.chrX:71351213T>C	ENST00000545866.1	-	1	545	c.178A>G	c.(178-180)Ata>Gta	p.I60V	NHSL2_ENST00000535692.1_5'Flank|NHSL2_ENST00000373677.1_5'Flank|NHSL2_ENST00000540800.1_Intron|RGAG4_ENST00000609883.1_Missense_Mutation_p.I60V|NHSL2_ENST00000510661.1_5'Flank	NM_001024455.3	NP_001019626.1	Q5HYW3	RGAG4_HUMAN	retrotransposon gag domain containing 4	60										cervix(2)|endometrium(2)|kidney(3)|large_intestine(5)|lung(8)|ovary(3)|skin(1)	24	Renal(35;0.156)					ACGGGCACTATGGGTACTGGC	0.617													T|||	3	0.000794702	0.0	0.0043	3775	,	,		8298	0.0		0.0	False		,,,				2504	0.0															0													49	52	52					X																	71351213		1948	4125	6073	SO:0001583	missense	340526			AB082532	CCDS55446.1	Xq13.1	2008-02-05			ENSG00000242732	ENSG00000242732			29430	protein-coding gene	gene with protein product						12056414, 15716091, 16093683	Standard	NM_001024455		Approved	KIAA2001, Mar5, Mart5	uc004eaj.2	Q5HYW3	OTTHUMG00000021808	ENST00000545866.1:c.178A>G	X.37:g.71351213T>C	ENSP00000441366:p.Ile60Val	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2W7|Q8NCM4|Q9NPX1	Missense_Mutation	SNP	ENST00000545866.1	37	CCDS55446.1	.	.	.	.	.	.	.	.	.	.	T	0.155	-1.087731	0.01873	.	.	ENSG00000242732	ENST00000545866;ENST00000479991	T;T	0.12774	2.65;2.65	3.58	-1.73	0.08081	.	.	.	.	.	T	0.05181	0.0138	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.43130	-0.9410	8	.	.	.	.	4.2089	0.10502	0.2097:0.5432:0.0:0.2471	.	60	Q5HYW3	RGAG4_HUMAN	V	60	ENSP00000441366:I60V;ENSP00000418667:I60V	.	I	-	1	0	RGAG4	71267938	0.096000	0.21769	0.004000	0.12327	0.666000	0.39218	-0.475000	0.06599	-0.475000	0.06852	-0.438000	0.05819	ATA		0.617	RGAG4-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057171.1	NM_001024455		C	71351213	T	C	71351213	3	2	569	1	0	0	0	0	1	0	0	0	13288	1464	51	3	1535	3	RGAG4	23	71351213	Missense_Mutation	SNP	T	TCGA-DW-7839-01A-11D-2136-08	20111939	71351213	83919347	57	33656										
KIAA1751	85452	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	1887063	1887063	+	IGR	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ctcccctgggcccctcagccCcctggaatgctgccctgagg	11	19	1	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr1:1887063C>T								TMEM52 (36351 upstream) : C1orf222 (32499 downstream)																							CCCCTCAGCCCCCTGGAATGC	0.597																																																0													61	67	65					1																	1887063		1913	4097	6010	SO:0001628	intergenic_variant	85452																															1.37:g.1887063C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP		37		.	.	.	.	.	.	.	.	.	.	C	11.65	1.701128	0.30142	.	.	ENSG00000142609	ENST00000270720	.	.	.	1.45	-0.582	0.11709	.	0.105878	0.36665	N	0.002476	T	0.14657	0.0354	N	0.08118	0	0.09310	N	1	B	0.19817	0.039	B	0.11329	0.006	T	0.11494	-1.0585	9	0.87932	D	0	.	3.7893	0.08713	0.0:0.5066:0.0:0.4934	.	748	Q9C0B2	K1751_HUMAN	E	748	.	ENSP00000270720:G748E	G	-	2	0	C1orf222	1876923	0.000000	0.05858	0.001000	0.08648	0.193000	0.23685	0.050000	0.14120	-0.199000	0.10317	0.462000	0.41574	GGG	0	0.597									T	1887063	C	T	1887063	1	4	570	0	1	0	0	0	0	0	0	0	8263	623	22	2		2	KIAA1751	1	1887063	IGR	SNP	C	TCGA-DW-7840-01A-11D-2136-08		1887063	247363558	1	33657										
CAMTA1	23261	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	7721912	7721912	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gcggacccacaactgcctctGcaccggcagcctgggtgagc	13	16	1	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr1:7721912G>C	ENST00000303635.7	+	8	998	c.791G>C	c.(790-792)tGc>tCc	p.C264S	CAMTA1_ENST00000439411.2_Missense_Mutation_p.C264S	NM_015215.2	NP_056030.1	Q9Y6Y1	CMTA1_HUMAN	calmodulin binding transcription activator 1	264					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(5)|central_nervous_system(4)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(11)|lung(29)|ovary(5)|pancreas(2)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(3)	85	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)		AACTGCCTCTGCACCGGCAGC	0.687			T	WWTR1	epitheliod hemangioendothelioma																																		Dom	yes		1	1p36.31-p36.23	611501	calmodulin binding transcription activator 1		M	0													26	25	26					1																	7721912		2199	4298	6497	SO:0001583	missense	23261			AB020640	CCDS30576.1, CCDS55574.1, CCDS55575.1	1p36.31-p36.23	2008-07-18			ENSG00000171735	ENSG00000171735			18806	protein-coding gene	gene with protein product		611501				11925432	Standard	NM_001195563		Approved	KIAA0833	uc001aoi.3	Q9Y6Y1	OTTHUMG00000001212	ENST00000303635.7:c.791G>C	1.37:g.7721912G>C	ENSP00000306522:p.Cys264Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A7MBM4|G3V3Z7|Q5VUE1|Q6V701|Q8WYI3|Q96S92	Missense_Mutation	SNP	ENST00000303635.7	37	CCDS30576.1	.	.	.	.	.	.	.	.	.	.	g	18.00	3.526318	0.64860	.	.	ENSG00000171735	ENST00000303635;ENST00000439411	T;T	0.52526	0.66;0.66	4.77	4.77	0.60923	.	0.000000	0.85682	D	0.000000	T	0.42539	0.1207	L	0.58101	1.795	0.80722	D	1	B	0.32573	0.376	B	0.27380	0.079	T	0.38112	-0.9676	10	0.10902	T	0.67	-19.7455	18.2029	0.89844	0.0:0.0:1.0:0.0	.	264	Q9Y6Y1	CMTA1_HUMAN	S	264	ENSP00000306522:C264S;ENSP00000402561:C264S	ENSP00000306522:C264S	C	+	2	0	CAMTA1	7644499	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.654000	0.98509	2.382000	0.81193	0.543000	0.68304	TGC		0.687	CAMTA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000003588.3	NM_015215		C	7721912	G	C	7721912	3	2	570	1	0	0	0	0	1	0	0	0	2615	1319	46	4	821	4	CAMTA1	1	7721912	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08	5834849	7721912	241528709	2	33658										
RERE	473	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	8424145	8424145	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	actccgccgtgtcctcatgcTatgcttcccactgagcccat	7	17	1	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr1:8424145T>A	ENST00000337907.3	-	16	2345	c.1711A>T	c.(1711-1713)Agc>Tgc	p.S571C	RERE_ENST00000377464.1_Missense_Mutation_p.S303C|RERE_ENST00000476556.1_Missense_Mutation_p.S17C|RERE_ENST00000400907.2_Intron|RERE_ENST00000460659.1_5'Flank|RERE_ENST00000400908.2_Missense_Mutation_p.S571C	NM_012102.3	NP_036234.3	Q9P2R6	RERE_HUMAN	arginine-glutamic acid dipeptide (RE) repeats	571					chromatin remodeling (GO:0006338)|multicellular organismal development (GO:0007275)|NLS-bearing protein import into nucleus (GO:0006607)|transcription, DNA-templated (GO:0006351)	histone deacetylase complex (GO:0000118)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|poly-glutamine tract binding (GO:0008267)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			central_nervous_system(1)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(5)|liver(1)|lung(16)|ovary(3)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	49	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)		GTCCTCATGCTATGCTTCCCA	0.602																																																0													76	65	69					1																	8424145		2203	4300	6503	SO:0001583	missense	473			AF016005	CCDS95.1, CCDS41243.1	1p36.23	2013-01-25			ENSG00000142599	ENSG00000142599		"GATA zinc finger domain containing"	9965	protein-coding gene	gene with protein product		605226		ATN1L		10814707, 10729226	Standard	NM_012102		Approved	KIAA0458, ARP, ARG, DNB1	uc001apf.3	Q9P2R6	OTTHUMG00000001765	ENST00000337907.3:c.1711A>T	1.37:g.8424145T>A	ENSP00000338629:p.Ser571Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O43393|O75046|O75359|Q5VXL9|Q6P6B9|Q9Y2W4	Missense_Mutation	SNP	ENST00000337907.3	37	CCDS95.1	.	.	.	.	.	.	.	.	.	.	T	21.7	4.182080	0.78677	.	.	ENSG00000142599	ENST00000337907;ENST00000377464;ENST00000476556;ENST00000400908	T;T;T	0.06768	3.26;3.26;3.26	5.17	5.17	0.71159	.	.	.	.	.	T	0.26122	0.0637	M	0.63428	1.95	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.87578	0.998;0.995	T	0.00498	-1.1704	9	0.59425	D	0.04	-23.1488	14.3401	0.66619	0.0:0.0:0.0:1.0	.	303;571	B1AKN3;Q9P2R6	.;RERE_HUMAN	C	571;303;17;571	ENSP00000338629:S571C;ENSP00000366684:S303C;ENSP00000383700:S571C	ENSP00000338629:S571C	S	-	1	0	RERE	8346732	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.520000	0.81821	2.171000	0.68590	0.459000	0.35465	AGC		0.602	RERE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004916.1			A	8424145	T	A	8424145	3	1	570	1	0	0	0	0	1	0	0	0	13244	1522	53	5	3025	5	RERE	1	8424145	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	702233	8424145	240826476	3	33659										
ECE1	1889	hgsc.bcm.edu	37	chr1	21546592	21546592	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tcggtgatgaggccttcgtgGgagctctcaggtgtgcggac	17	9	1	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr1:21546592G>C	ENST00000374893.6	-	19	2243	c.2169C>G	c.(2167-2169)tcC>tcG	p.S723S	ECE1_ENST00000264205.6_Silent_p.S720S|ECE1_ENST00000415912.2_Silent_p.S707S|ECE1_ENST00000357071.4_Silent_p.S711S|ECE1_ENST00000436918.2_Silent_p.S691S	NM_001397.2	NP_001388.1	P42892	ECE1_HUMAN	endothelin converting enzyme 1	723					bradykinin catabolic process (GO:0010815)|calcitonin catabolic process (GO:0010816)|ear development (GO:0043583)|embryonic digit morphogenesis (GO:0042733)|endothelin maturation (GO:0034959)|heart development (GO:0007507)|hormone catabolic process (GO:0042447)|peptide hormone processing (GO:0016486)|pharyngeal system development (GO:0060037)|positive regulation of receptor recycling (GO:0001921)|protein processing (GO:0016485)|regulation of systemic arterial blood pressure by endothelin (GO:0003100)|regulation of vasoconstriction (GO:0019229)|substance P catabolic process (GO:0010814)	early endosome (GO:0005769)|endosome (GO:0005768)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|intrinsic component of endosome membrane (GO:0031302)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|vesicle (GO:0031982)|Weibel-Palade body (GO:0033093)	endopeptidase activity (GO:0004175)|metal ion binding (GO:0046872)|metalloendopeptidase activity (GO:0004222)|peptide hormone binding (GO:0017046)|protein homodimerization activity (GO:0042803)			endometrium(5)|kidney(1)|large_intestine(7)|lung(8)|ovary(2)|prostate(1)|skin(1)	25		Lung NSC(340;1.14e-05)|all_lung(284;1.23e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00147)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0183)|OV - Ovarian serous cystadenocarcinoma(117;4.83e-27)|COAD - Colon adenocarcinoma(152;1.36e-06)|GBM - Glioblastoma multiforme(114;1.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000162)|STAD - Stomach adenocarcinoma(196;0.00326)|KIRC - Kidney renal clear cell carcinoma(1967;0.00755)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.206)		GGCCTTCGTGGGAGCTCTCAG	0.637																																																0													68	58	62					1																	21546592		2203	4300	6503	SO:0001819	synonymous_variant	1889			D49471	CCDS215.1, CCDS44081.1, CCDS44082.1, CCDS44083.1	1p36.1	2008-02-05			ENSG00000117298	ENSG00000117298			3146	protein-coding gene	gene with protein product		600423		ECE		7805846, 7864876, 17592116	Standard	NM_001397		Approved		uc001bei.2	P42892	OTTHUMG00000002625	ENST00000374893.6:c.2169C>G	1.37:g.21546592G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K3P1|B4E291|Q14217|Q17RN5|Q2Z2K8|Q58GE7|Q5THM5|Q5THM7|Q5THM8|Q9UJQ6|Q9UPF4|Q9UPM4|Q9Y501	Silent	SNP	ENST00000374893.6	37	CCDS215.1																																																																																				0.637	ECE1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000007470.2	NM_001397		C	21546592	G	C	21546592	2	2	570	1	0	0	0	0	0	0	0	1	4891	1219	43	4		4	ECE1	1	21546592	Silent	SNP	G	TCGA-DW-7840-01A-11D-2136-08	13122447	21546592	227704029	4	33660										
HMGCL	3155	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	24147039	24147039	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tctcggggaccaacttccacAattttcacccgctttggtaa	7	13	2	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr1:24147039A>C	ENST00000374490.3	-	2	148	c.105T>G	c.(103-105)atT>atG	p.I35M	HMGCL_ENST00000374483.4_Missense_Mutation_p.I10M|HMGCL_ENST00000436439.2_Missense_Mutation_p.I35M|HMGCL_ENST00000509389.1_5'UTR	NM_000191.2	NP_000182.2	P35914	HMGCL_HUMAN	3-hydroxymethyl-3-methylglutaryl-CoA lyase	35					acyl-CoA metabolic process (GO:0006637)|cellular ketone body metabolic process (GO:0046950)|cellular lipid metabolic process (GO:0044255)|ketone body biosynthetic process (GO:0046951)|leucine catabolic process (GO:0006552)|liver development (GO:0001889)|mitochondrion organization (GO:0007005)|protein tetramerization (GO:0051262)|response to fatty acid (GO:0070542)|response to nutrient (GO:0007584)|response to starvation (GO:0042594)|small molecule metabolic process (GO:0044281)	mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|peroxisome (GO:0005777)	carboxylic acid binding (GO:0031406)|fatty-acyl-CoA binding (GO:0000062)|hydroxymethylglutaryl-CoA lyase activity (GO:0004419)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)			central_nervous_system(1)|endometrium(2)|large_intestine(2)|lung(3)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	12		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;0.0044)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;2.38e-24)|Colorectal(126;5.58e-08)|COAD - Colon adenocarcinoma(152;3.12e-06)|GBM - Glioblastoma multiforme(114;4.9e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000982)|KIRC - Kidney renal clear cell carcinoma(1967;0.0034)|STAD - Stomach adenocarcinoma(196;0.0128)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0856)|LUSC - Lung squamous cell carcinoma(448;0.188)		CAACTTCCACAATTTTCACCC	0.403																																																0													159	141	147					1																	24147039		2203	4300	6503	SO:0001583	missense	3155			BC010570	CCDS243.1, CCDS53279.1	1p36.1-p35	2010-04-30	2010-04-30		ENSG00000117305	ENSG00000117305	4.1.3.4		5005	protein-coding gene	gene with protein product	"hydroxymethylglutaricaciduria"	613898	"3-hydroxymethyl-3-methylglutaryl-Coenzyme A lyase"			8102917, 8978493	Standard	NM_001166059		Approved	HL	uc001bib.3	P35914	OTTHUMG00000002963	ENST00000374490.3:c.105T>G	1.37:g.24147039A>C	ENSP00000363614:p.Ile35Met	Somatic		WXS	Illumina HiSeq	Phase_I	B4DUP4|B7UCC6|D3Y5K7|Q6IBC0|Q96FP8	Missense_Mutation	SNP	ENST00000374490.3	37	CCDS243.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	14.82|14.82	2.650811|2.650811	0.47362|0.47362	.|.	.|.	ENSG00000117305|ENSG00000117305	ENST00000374490;ENST00000436439;ENST00000374483;ENST00000543166|ENST00000235958	D;D;D|.	0.98862|.	-5.19;-5.1;-5.19|.	5.27|5.27	0.302|0.302	0.15786|0.15786	Aldolase-type TIM barrel (1);Pyruvate carboxyltransferase (1);|.	0.147080|.	0.64402|.	D|.	0.000011|.	T|T	0.30448|0.30448	0.0765|0.0765	N|N	0.08118|0.08118	0|0	0.41038|0.41038	D|D	0.985205|0.985205	P;B;B;B|.	0.37141|.	0.584;0.08;0.08;0.08|.	B;B;B;B|.	0.40741|.	0.338;0.339;0.232;0.339|.	T|T	0.04440|0.04440	-1.0951|-1.0951	10|5	0.66056|.	D|.	0.02|.	-0.2207|-0.2207	8.6087|8.6087	0.33789|0.33789	0.566:0.0:0.434:0.0|0.566:0.0:0.434:0.0	.|.	35;35;10;35|.	B4DUP4;Q6IBC0;B1AK13;P35914|.	.;.;.;HMGCL_HUMAN|.	M|W	35;35;10;10|31	ENSP00000363614:I35M;ENSP00000389281:I35M;ENSP00000363607:I10M|.	ENSP00000363607:I10M|.	I|L	-|-	3|2	3|0	HMGCL|HMGCL	24019626|24019626	0.519000|0.519000	0.26242|0.26242	1.000000|1.000000	0.80357|0.80357	0.931000|0.931000	0.56810|0.56810	-0.299000|-0.299000	0.08254|0.08254	0.132000|0.132000	0.18615|0.18615	-0.385000|-0.385000	0.06624|0.06624	ATT|TTG		0.403	HMGCL-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008253.2	NM_000191		C	24147039	A	C	24147039	3	2	570	1	0	0	0	0	1	0	0	0	7236	126	5	5	904	5	HMGCL	1	24147039	Missense_Mutation	SNP	A	TCGA-DW-7840-01A-11D-2136-08	2600447	24147039	225103582	5	33661										
C1orf63	57035	bcgsc.ca	37	chr1	25573160	25573160	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gtagtatctcctggtgaaccCgtagcgcctctctcggtaac	10	13	2	1	rs201238140		TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr1:25573160C>A	ENST00000243189.7	-	2	571	c.295G>T	c.(295-297)Ggg>Tgg	p.G99W	C1orf63_ENST00000417642.2_Missense_Mutation_p.G92W|C1orf63_ENST00000431849.2_Missense_Mutation_p.G99W|RP3-465N24.6_ENST00000607698.1_lincRNA	NM_020317.3	NP_064713.3	Q9BUV0	RSRP1_HUMAN		99	Arg/Ser-rich.									breast(1)|large_intestine(1)|lung(4)|pancreas(1)	7		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)		CTGGTGAACCCGTAGCGCCTC	0.672																																																0													39	36	37					1																	25573160		2203	4300	6503	SO:0001583	missense	57035																														ENST00000243189.7:c.295G>T	1.37:g.25573160C>A	ENSP00000243189:p.Gly99Trp	Somatic		WXS	Illumina HiSeq	Phase_1	A8K917|Q49AA4|Q5TH71|Q9GZP6	Missense_Mutation	SNP	ENST00000243189.7	37	CCDS260.1	.	.	.	.	.	.	.	.	.	.	C	14.57	2.575558	0.45902	.	.	ENSG00000117616	ENST00000243189;ENST00000417642;ENST00000431849	T;T;T	0.45276	1.5;1.5;0.9	3.91	2.99	0.34606	.	1.048650	0.07579	N	0.919965	T	0.48429	0.1499	L	0.36672	1.1	0.09310	N	1	D	0.67145	0.996	D	0.63381	0.914	T	0.31447	-0.9943	10	0.66056	D	0.02	-2.3987	4.1231	0.10114	0.0:0.5882:0.1964:0.2154	.	99	Q9BUV0	CA063_HUMAN	W	99;92;99	ENSP00000243189:G99W;ENSP00000411631:G92W;ENSP00000391510:G99W	ENSP00000243189:G99W	G	-	1	0	C1orf63	25445747	0.000000	0.05858	0.004000	0.12327	0.058000	0.15608	-0.259000	0.08721	0.985000	0.38656	0.561000	0.74099	GGG		0.672	C1orf63-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000101966.2			A	25573160	C	A	25573160	3	1	570	1	0	0	0	0	1	0	0	0	2055	652	23	4	593	4	C1orf63	1	25573160	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	1426121	25573160	223677461	6	33662										
PHACTR4	65979	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	28785697	28785697	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ggaagagcaagttctcaggcTttggcaagatcttcaagccc	11	10	3	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr1:28785697T>C	ENST00000373839.3	+	3	379	c.118T>C	c.(118-120)Ttt>Ctt	p.F40L	PHACTR4_ENST00000493669.1_3'UTR|PHACTR4_ENST00000373836.3_Missense_Mutation_p.F50L	NM_001048183.1	NP_001041648.1	Q8IZ21	PHAR4_HUMAN	phosphatase and actin regulator 4	40					actin cytoskeleton organization (GO:0030036)|closure of optic fissure (GO:0061386)|enteric nervous system development (GO:0048484)|negative regulation of integrin-mediated signaling pathway (GO:2001045)|neural crest cell migration (GO:0001755)|neural tube closure (GO:0001843)|positive regulation of catalytic activity (GO:0043085)|regulation of cell cycle (GO:0051726)|Rho protein signal transduction (GO:0007266)	cytoplasm (GO:0005737)|lamellipodium (GO:0030027)	actin binding (GO:0003779)|protein phosphatase 1 binding (GO:0008157)|protein phosphatase type 1 activator activity (GO:0071862)			NS(1)|biliary_tract(1)|breast(1)|endometrium(4)|kidney(4)|large_intestine(6)|lung(10)|ovary(3)|skin(1)|urinary_tract(1)	32		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;7.01e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)		OV - Ovarian serous cystadenocarcinoma(117;1.35e-21)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0144)|READ - Rectum adenocarcinoma(331;0.0649)		GTTCTCAGGCTTTGGCAAGAT	0.448																																																0													87	84	85					1																	28785697		1904	4119	6023	SO:0001583	missense	65979			AF130081	CCDS41293.1, CCDS41294.1	1p35.2	2014-06-13			ENSG00000204138	ENSG00000204138		"Phosphatase and actin regulators"	25793	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 124"	608726				11483580, 15107502	Standard	NM_023923		Approved	FLJ13171, PPP1R124	uc001bpy.3	Q8IZ21	OTTHUMG00000003541	ENST00000373839.3:c.118T>C	1.37:g.28785697T>C	ENSP00000362945:p.Phe40Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A2APK6|B9ZVW0|D3DPM3|Q68DD4|Q6NUN6|Q8N384|Q9H395|Q9H6X0|Q9H8W6	Missense_Mutation	SNP	ENST00000373839.3	37	CCDS41293.1	.	.	.	.	.	.	.	.	.	.	T	15.01	2.706660	0.48412	.	.	ENSG00000204138	ENST00000373839;ENST00000373836;ENST00000373838	T;T	0.12465	2.68;2.69	5.28	5.28	0.74379	.	0.185233	0.48767	N	0.000178	T	0.06234	0.0161	N	0.04132	-0.27	0.36529	D	0.870593	B;B;B	0.14012	0.005;0.003;0.009	B;B;B	0.16722	0.009;0.004;0.016	T	0.13469	-1.0508	10	0.02654	T	1	-1.0711	14.6855	0.69047	0.0:0.0:0.0:1.0	.	50;40;24	Q8IZ21-2;Q8IZ21;Q8IZ21-3	.;PHAR4_HUMAN;.	L	40;50;39	ENSP00000362945:F40L;ENSP00000362942:F50L	ENSP00000362942:F50L	F	+	1	0	PHACTR4	28658284	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.667000	0.37471	2.128000	0.65567	0.528000	0.53228	TTT		0.448	PHACTR4-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000009868.4	NM_023923		C	28785697	T	C	28785697	3	2	570	1	0	0	0	0	1	0	0	0	11819	1609	56	3	174	3	PHACTR4	1	28785697	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	3212537	28785697	220464924	7	33663										
PUM1	9698	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	31406096	31406096	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ggggccacagatgggccctaAgtcaacaccgttcttcatgt	11	12	3	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr1:31406096A>T	ENST00000257075.5	-	22	3616	c.3523T>A	c.(3523-3525)Tta>Ata	p.L1175I	PUM1_ENST00000440538.2_Missense_Mutation_p.L1151I|PUM1_ENST00000373741.4_Missense_Mutation_p.L1213I|PUM1_ENST00000424085.2_Missense_Mutation_p.L933I|SNORD103A_ENST00000363284.1_RNA|PUM1_ENST00000373742.2_Missense_Mutation_p.L1116I|PUM1_ENST00000426105.2_Missense_Mutation_p.L1177I|PUM1_ENST00000373747.3_Missense_Mutation_p.L1178I|PUM1_ENST00000423018.2_Missense_Mutation_p.L1033I	NM_014676.2	NP_055491.1	Q14671	PUM1_HUMAN	pumilio RNA-binding family member 1	1175					membrane organization (GO:0061024)|post-Golgi vesicle-mediated transport (GO:0006892)|regulation of translation (GO:0006417)	cytosol (GO:0005829)	poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(2)|endometrium(8)|kidney(4)|large_intestine(8)|lung(17)|ovary(2)|pancreas(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	48		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)		ATGGGCCCTAAGTCAACACCG	0.552																																																0													187	165	173					1																	31406096		2203	4300	6503	SO:0001583	missense	9698			AF315592	CCDS338.1, CCDS44099.1	1p35.2	2013-09-02	2013-09-02		ENSG00000134644	ENSG00000134644			14957	protein-coding gene	gene with protein product		607204	"pumilio (Drosophila) homolog 1", "pumilio homolog 1 (Drosophila)"				Standard	NM_001020658		Approved	PUMH1, KIAA0099	uc001bsh.1	Q14671	OTTHUMG00000003795	ENST00000257075.5:c.3523T>A	1.37:g.31406096A>T	ENSP00000257075:p.Leu1175Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6W4|B4DG92|D3DPN3|E9PCJ0|Q53HH5|Q5VXY7|Q9HAN1	Missense_Mutation	SNP	ENST00000257075.5	37	CCDS338.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	17.95|17.95	3.512828|3.512828	0.64522|0.64522	.|.	.|.	ENSG00000134644|ENSG00000134644	ENST00000525843;ENST00000498419|ENST00000424085;ENST00000257075;ENST00000373747;ENST00000373749;ENST00000426105;ENST00000440538;ENST00000373741;ENST00000423018;ENST00000373742	.|T;T;T;T;T;T;T;T	.|0.20332	.|2.14;2.08;2.34;2.34;2.42;2.33;2.44;2.1	4.96|4.96	4.96|4.96	0.65561|0.65561	.|.	0.000000|0.000000	0.64402|0.64402	D|D	0.000002|0.000002	T|T	0.34658|0.34658	0.0905|0.0905	L|L	0.56396|0.56396	1.775|1.775	0.80722|0.80722	D|D	1|1	.|D;B;B;B;B;P;B;D	.|0.67145	.|0.991;0.125;0.259;0.33;0.374;0.58;0.374;0.996	.|D;B;B;B;B;B;B;D	.|0.65773	.|0.938;0.076;0.076;0.159;0.168;0.183;0.168;0.913	T|T	0.14172|0.14172	-1.0482|-1.0482	6|10	.|0.51188	.|T	.|0.08	-3.3845|-3.3845	5.2679|5.2679	0.15609|0.15609	0.7814:0.0:0.2186:0.0|0.7814:0.0:0.2186:0.0	.|.	.|1116;1033;1213;1151;1175;1177;1178;1177	.|B4DG92;E7EWT3;Q5T1Z8;Q14671-2;Q14671;E9PCJ0;Q5T1Z4;Q53HH5	.|.;.;.;.;PUM1_HUMAN;.;.;.	H|I	1113;888|933;1175;1178;915;1177;1151;1213;1033;1116	.|ENSP00000400141:L933I;ENSP00000257075:L1175I;ENSP00000362852:L1178I;ENSP00000391723:L1177I;ENSP00000401777:L1151I;ENSP00000362846:L1213I;ENSP00000399440:L1033I;ENSP00000362847:L1116I	.|ENSP00000257075:L1175I	L|L	-|-	2|1	0|2	PUM1|PUM1	31178683|31178683	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.996000|0.996000	0.88848|0.88848	1.430000|1.430000	0.34914|0.34914	2.095000|2.095000	0.63458|0.63458	0.454000|0.454000	0.30748|0.30748	CTT|TTA		0.552	PUM1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000010671.1			T	31406096	A	T	31406096	3	4	570	1	0	0	0	0	1	0	0	0	12838	69	3	5	41	5	PUM1	1	31406096	Missense_Mutation	SNP	A	TCGA-DW-7840-01A-11D-2136-08	2620399	31406096	217844525	8	33664										
INADL	10207	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	62582269	62582269	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cgcagacctggatgggagatTgattcagggagatcagatct	14	7	3	5			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr1:62582269T>C	ENST00000371158.2	+	36	4835	c.4721T>C	c.(4720-4722)tTg>tCg	p.L1574S	INADL_ENST00000543708.1_Missense_Mutation_p.L388S	NM_176877.2	NP_795352	Q8NI35	INADL_HUMAN	InaD-like (Drosophila)	1574	PDZ 9. {ECO:0000255|PROSITE- ProRule:PRU00143}.				cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|intracellular signal transduction (GO:0035556)|tight junction assembly (GO:0070830)	apical part of cell (GO:0045177)|extracellular vesicular exosome (GO:0070062)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|tight junction (GO:0005923)				breast(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(8)|liver(1)|lung(51)|ovary(3)|pancreas(1)|prostate(7)|skin(5)|stomach(1)|upper_aerodigestive_tract(3)	103						GATGGGAGATTGATTCAGGGA	0.493																																																0													75	78	77					1																	62582269		1945	4135	6080	SO:0001583	missense	10207			AB044807	CCDS617.2	1p31	2008-02-05			ENSG00000132849	ENSG00000132849			28881	protein-coding gene	gene with protein product		603199				9280290, 11374908	Standard	NM_176877		Approved	Cipp, PATJ	uc001dab.3	Q8NI35	OTTHUMG00000008560	ENST00000371158.2:c.4721T>C	1.37:g.62582269T>C	ENSP00000360200:p.Leu1574Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O15249|O43742|O60833|Q5VUA5|Q5VUA6|Q5VUA7|Q5VUA8|Q5VUA9|Q5VUB0|Q8WU78|Q9H3N9	Missense_Mutation	SNP	ENST00000371158.2	37	CCDS617.2	.	.	.	.	.	.	.	.	.	.	T	25.3	4.623798	0.87460	.	.	ENSG00000132849	ENST00000371158;ENST00000543708	T;T	0.50548	0.74;0.74	5.56	5.56	0.83823	PDZ/DHR/GLGF (4);	0.000000	0.52532	D	0.000075	T	0.81197	0.4772	H	0.98314	4.2	0.80722	D	1	D;D;D	0.89917	1.0;0.972;1.0	D;P;D	0.91635	0.998;0.88;0.999	D	0.88783	0.3272	10	0.87932	D	0	.	15.7125	0.77641	0.0:0.0:0.0:1.0	.	388;1033;1574	B4DE90;Q8NI35-5;Q8NI35	.;.;INADL_HUMAN	S	1574;388	ENSP00000360200:L1574S;ENSP00000445790:L388S	ENSP00000360200:L1574S	L	+	2	0	INADL	62354857	1.000000	0.71417	0.992000	0.48379	0.915000	0.54546	8.008000	0.88588	2.108000	0.64289	0.533000	0.62120	TTG		0.493	INADL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023639.2	NM_170605		C	62582269	T	C	62582269	3	2	570	1	0	0	0	0	1	0	0	0	7738	1821	63	3	4859	3	INADL	1	62582269	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	31176173	62582269	186668352	9	33665										
FNBP1L	54874	broad.mit.edu	37	chr1	93996339	93996339	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	agcagttgaatctgcgtacgCatatggccgatgaaaataaa	10	7	1	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr1:93996339C>T	ENST00000271234.7	+	7	689	c.538C>T	c.(538-540)Cat>Tat	p.H180Y	FNBP1L_ENST00000604705.1_Missense_Mutation_p.H180Y|FNBP1L_ENST00000370253.2_Missense_Mutation_p.H180Y|FNBP1L_ENST00000260506.8_Missense_Mutation_p.H180Y|FNBP1L_ENST00000370256.4_Missense_Mutation_p.H180Y	NM_001164473.2	NP_001157945.1	Q5T0N5	FBP1L_HUMAN	formin binding protein 1-like	180	F-BAR domain. {ECO:0000250}.				autophagy (GO:0006914)|clathrin-mediated endocytosis (GO:0072583)|membrane budding (GO:0006900)|membrane invagination (GO:0010324)|membrane tubulation (GO:0097320)|positive regulation of filopodium assembly (GO:0051491)|vesicle organization (GO:0016050)|vesicle transport along actin filament (GO:0030050)	cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	lipid binding (GO:0008289)			breast(2)|kidney(2)|large_intestine(4)|lung(2)|urinary_tract(1)	11		all_lung(203;0.00206)|Lung NSC(277;0.00902)|Melanoma(281;0.155)		all cancers(265;0.00666)|GBM - Glioblastoma multiforme(16;0.0378)|Epithelial(280;0.111)		TCTGCGTACGCATATGGCCGA	0.318																																																0													38	37	38					1																	93996339		1829	4087	5916	SO:0001583	missense	54874				CCDS53343.1, CCDS53344.1, CCDS60192.1	1p22.1	2008-02-05	2004-11-16	2004-11-17	ENSG00000137942	ENSG00000137942			20851	protein-coding gene	gene with protein product		608848	"chromosome 1 open reading frame 39"	C1orf39		14654988	Standard	NM_017737		Approved	TOCA1, FLJ20275	uc010otk.2	Q5T0N5	OTTHUMG00000010863	ENST00000271234.7:c.538C>T	1.37:g.93996339C>T	ENSP00000271234:p.His180Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	J3QSS4|Q5T0N6|Q6B097|Q6P653|Q6R4Q4|Q9NXG1	Missense_Mutation	SNP	ENST00000271234.7	37	CCDS53343.1	.	.	.	.	.	.	.	.	.	.	C	20.9	4.065606	0.76187	.	.	ENSG00000137942	ENST00000370256;ENST00000271234;ENST00000260506;ENST00000370253;ENST00000424449	T;T;T;T	0.17854	2.25;2.25;2.25;2.25	5.37	5.37	0.77165	.	0.000000	0.85682	D	0.000000	T	0.32466	0.0830	M	0.62723	1.935	0.80722	D	1	D;D	0.69078	0.997;0.985	D;P	0.74348	0.983;0.714	T	0.01951	-1.1241	10	0.48119	T	0.1	-39.0929	19.0931	0.93235	0.0:1.0:0.0:0.0	.	180;180	Q5T0N5-4;Q5T0N5-3	.;.	Y	180;180;180;180;47	ENSP00000359278:H180Y;ENSP00000271234:H180Y;ENSP00000260506:H180Y;ENSP00000359275:H180Y	ENSP00000260506:H180Y	H	+	1	0	FNBP1L	93768927	1.000000	0.71417	0.973000	0.42090	0.528000	0.34623	7.487000	0.81328	2.527000	0.85204	0.655000	0.94253	CAT		0.318	FNBP1L-202	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding		NM_017737		T	93996339	C	T	93996339	3	4	570	1	0	0	0	0	1	0	0	0	5973	710	25	2	564	2	FNBP1L	1	93996339	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	31414070	93996339	155254282	10	33666										
RBM15	64783	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	110883658	110883658	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tctgcagcctctgcccttgaCtcattatgagctggtgacag	10	12	3	3			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr1:110883658C>G	ENST00000369784.3	+	1	2531	c.1631C>G	c.(1630-1632)aCt>aGt	p.T544S	RP5-1074L1.1_ENST00000449169.1_RNA|RBM15_ENST00000487146.2_Missense_Mutation_p.T544S|RBM15_ENST00000602849.1_Missense_Mutation_p.T544S	NM_022768.4	NP_073605.4	Q96T37	RBM15_HUMAN	RNA binding motif protein 15	544					negative regulation of myeloid cell differentiation (GO:0045638)|patterning of blood vessels (GO:0001569)|placenta blood vessel development (GO:0060674)|positive regulation of transcription of Notch receptor target (GO:0007221)|spleen development (GO:0048536)|ventricular septum morphogenesis (GO:0060412)|viral process (GO:0016032)	membrane (GO:0016020)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			ovary(3)	3		all_cancers(81;2.89e-06)|all_epithelial(167;2.96e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Breast(1374;0.0634)		BRCA - Breast invasive adenocarcinoma(282;0.000224)|Epithelial(280;0.000476)|Kidney(133;0.000539)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|all cancers(265;0.00144)|Lung(183;0.0238)|Colorectal(144;0.103)|LUSC - Lung squamous cell carcinoma(189;0.135)		CTGCCCTTGACTCATTATGAG	0.547			T	MKL1	acute megakaryocytic leukemia																																		Dom	yes		1	1p13	64783	RNA binding motif protein 15		L	0													74	71	72					1																	110883658		2203	4300	6503	SO:0001583	missense	64783			AF368063	CCDS822.1, CCDS59198.1	1p13	2013-02-12			ENSG00000162775	ENSG00000162775		"RNA binding motif (RRM) containing"	14959	protein-coding gene	gene with protein product	"one twenty-two"	606077				11431691, 11344311	Standard	NM_001201545		Approved	OTT, OTT1	uc001dzl.1	Q96T37	OTTHUMG00000011284	ENST00000369784.3:c.1631C>G	1.37:g.110883658C>G	ENSP00000358799:p.Thr544Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A1A693|Q3ZB86|Q4V760|Q5D058|Q5T613|Q86VW9|Q96PE4|Q96SC5|Q96SC6|Q96SC9|Q96SD0|Q96T38|Q9BRA5|Q9H6R8|Q9H9Y0	Missense_Mutation	SNP	ENST00000369784.3	37	CCDS822.1	.	.	.	.	.	.	.	.	.	.	C	6.069	0.381059	0.11466	.	.	ENSG00000162775	ENST00000369784	T	0.15952	2.38	4.44	4.44	0.53790	.	0.000000	0.44688	D	0.000431	T	0.03915	0.0110	N	0.22421	0.69	0.27060	N	0.963566	B;B	0.24426	0.103;0.063	B;B	0.22386	0.039;0.017	T	0.31251	-0.9950	10	0.10636	T	0.68	-8.2962	13.8608	0.63559	0.0:0.8463:0.1537:0.0	.	544;544	Q96T37-3;Q96T37	.;RBM15_HUMAN	S	544	ENSP00000358799:T544S	ENSP00000358799:T544S	T	+	2	0	RBM15	110685181	0.985000	0.35326	1.000000	0.80357	0.993000	0.82548	2.270000	0.43355	2.306000	0.77630	0.655000	0.94253	ACT		0.547	RBM15-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000031114.2	NM_022768		G	110883658	C	G	110883658	3	3	570	1	0	0	0	0	1	0	0	0	13129	565	20	4	1633	4	RBM15	1	110883658	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	16887319	110883658	138366963	11	33667										
ADCY10	55811	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	167870956	167870956	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cctgggtctcaaacaatccaTggatctccaggctacattta	7	12	2	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr1:167870956T>A	ENST00000367851.4	-	5	564	c.380A>T	c.(379-381)cAt>cTt	p.H127L	ADCY10_ENST00000545172.1_Intron|ADCY10_ENST00000367848.1_Missense_Mutation_p.H35L	NM_018417.4	NP_060887.2	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10 (soluble)	127	Guanylate cyclase 1. {ECO:0000255|PROSITE-ProRule:PRU00099}.				cAMP biosynthetic process (GO:0006171)|intracellular signal transduction (GO:0035556)|positive regulation of apoptotic process (GO:0043065)|spermatogenesis (GO:0007283)	apical part of cell (GO:0045177)|axon (GO:0030424)|basal part of cell (GO:0045178)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|dendrite (GO:0030425)|growth cone (GO:0030426)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	adenylate cyclase activity (GO:0004016)|ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)			autonomic_ganglia(1)|breast(1)|central_nervous_system(3)|cervix(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(11)|lung(26)|ovary(2)|prostate(4)|skin(6)|stomach(1)|urinary_tract(1)	63						AAACAATCCATGGATCTCCAG	0.478																																																0													170	167	168					1																	167870956		2203	4300	6503	SO:0001583	missense	55811			AF271058	CCDS1265.1, CCDS53426.1, CCDS72977.1	1q24	2013-02-04			ENSG00000143199	ENSG00000143199	4.6.1.1	"Adenylate cyclases"	21285	protein-coding gene	gene with protein product	"soluble adenylyl cyclase", "Hypercalciuria, absorptive, 2"	605205					Standard	XM_006711449		Approved	SAC, Sacy, SACI, HCA2, RP1-313L4.2	uc001ger.3	Q96PN6	OTTHUMG00000034573	ENST00000367851.4:c.380A>T	1.37:g.167870956T>A	ENSP00000356825:p.His127Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZF0|F5GWS5|O95558|Q5R329|Q5R330|Q8WXV4|Q9NNX0	Missense_Mutation	SNP	ENST00000367851.4	37	CCDS1265.1	.	.	.	.	.	.	.	.	.	.	T	19.61	3.859754	0.71834	.	.	ENSG00000143199	ENST00000367851;ENST00000367848	T;T	0.78003	-1.14;1.49	5.76	5.76	0.90799	Adenylyl cyclase class-3/4/guanylyl cyclase (5);	0.177315	0.39985	N	0.001214	T	0.67468	0.2896	L	0.27053	0.805	0.35716	D	0.816771	D;D	0.61697	0.988;0.99	P;P	0.62491	0.844;0.903	T	0.66666	-0.5866	9	0.11794	T	0.64	-17.7472	12.4728	0.55797	0.0:0.0:0.0:1.0	.	35;127	Q96PN6-2;Q96PN6	.;ADCYA_HUMAN	L	127;35	ENSP00000356825:H127L;ENSP00000356822:H35L	ENSP00000356822:H35L	H	-	2	0	ADCY10	166137580	1.000000	0.71417	0.922000	0.36590	0.701000	0.40568	4.710000	0.61873	2.193000	0.70182	0.450000	0.29827	CAT		0.478	ADCY10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083663.1	NM_018417		A	167870956	T	A	167870956	3	1	570	1	0	0	0	0	1	0	0	0	293	1464	51	5	4568	5	ADCY10	1	167870956	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	56987298	167870956	81379665	12	33668										
IKBKE	9641	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	206651658	206651658	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gtcccaggcagtcctgcaccAcatctatatccatgcccaca	6	17	1	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr1:206651658A>G	ENST00000367120.3	+	9	1341	c.968A>G	c.(967-969)cAc>cGc	p.H323R	IKBKE_ENST00000537984.1_Missense_Mutation_p.H238R	NM_001193322.1|NM_014002.3	NP_001180251.1|NP_054721.1	Q14164	IKKE_HUMAN	inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase epsilon	323					immune response (GO:0006955)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of type I interferon production (GO:0032480)|NIK/NF-kappaB signaling (GO:0038061)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|protein phosphorylation (GO:0006468)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor signaling pathway (GO:0002224)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome membrane (GO:0010008)|nucleus (GO:0005634)|PML body (GO:0016605)	ATP binding (GO:0005524)|IkappaB kinase activity (GO:0008384)|NF-kappaB-inducing kinase activity (GO:0004704)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(6)|lung(13)|ovary(3)|skin(2)	32	Breast(84;0.137)					GTCCTGCACCACATCTATATC	0.572																																																0													201	170	181					1																	206651658		2203	4300	6503	SO:0001583	missense	9641			AB016590	CCDS30996.1, CCDS53464.1, CCDS73019.1	1q31	2014-05-06			ENSG00000143466				14552	protein-coding gene	gene with protein product		605048				10421793, 10882136	Standard	NM_001193321		Approved	IKKE, IKK-i, KIAA0151	uc001hdz.2	Q14164	OTTHUMG00000184613	ENST00000367120.3:c.968A>G	1.37:g.206651658A>G	ENSP00000356087:p.His323Arg	Somatic		WXS	Illumina HiSeq	Phase_I	D3DT78|Q3B754|Q3KR43|Q5JTS6	Missense_Mutation	SNP	ENST00000367120.3	37	CCDS30996.1	.	.	.	.	.	.	.	.	.	.	a	6.092	0.385235	0.11524	.	.	ENSG00000143466	ENST00000367120;ENST00000537984	T;T	0.62105	0.05;0.2	5.31	2.99	0.34606	.	0.288882	0.40818	N	0.001016	T	0.39226	0.1070	N	0.17474	0.49	0.23351	N	0.997852	B;B	0.06786	0.001;0.0	B;B	0.06405	0.001;0.002	T	0.18871	-1.0323	10	0.11182	T	0.66	-5.285	8.6511	0.34035	0.7589:0.0:0.2411:0.0	.	238;323	Q3B754;Q14164	.;IKKE_HUMAN	R	323;238	ENSP00000356087:H323R;ENSP00000444529:H238R	ENSP00000356087:H323R	H	+	2	0	IKBKE	204718281	0.715000	0.27946	0.538000	0.28064	0.720000	0.41350	1.322000	0.33689	0.345000	0.23873	0.454000	0.30748	CAC		0.572	IKBKE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088484.1			G	206651658	A	G	206651658	3	3	570	1	0	0	0	0	1	0	0	0	7619	159	6	3	994	3	IKBKE	1	206651658	Missense_Mutation	SNP	A	TCGA-DW-7840-01A-11D-2136-08	38780702	206651658	42598963	13	33669										
SYT14	255928	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	210267875	210267875	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	acaggtcatgaaatagaaagTtttcataataaaggatatga	8	3	2	3			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr1:210267875T>C	ENST00000472886.1	+	5	665	c.651T>C	c.(649-651)agT>agC	p.S217S	SYT14_ENST00000422431.1_Silent_p.S262S|SYT14_ENST00000367015.1_Silent_p.S179S|SYT14_ENST00000367019.1_Silent_p.S217S|SYT14_ENST00000399639.2_Silent_p.S217S|SYT14_ENST00000537238.1_Silent_p.S179S|SYT14_ENST00000534859.1_Silent_p.S217S|SYT14_ENST00000271745.7_3'UTR			Q8NB59	SYT14_HUMAN	synaptotagmin XIV	217					cell death (GO:0008219)	integral component of membrane (GO:0016021)	phospholipid binding (GO:0005543)			endometrium(4)|large_intestine(11)|lung(17)|ovary(1)|prostate(1)|skin(3)	37				OV - Ovarian serous cystadenocarcinoma(81;0.085)		AAATAGAAAGTTTTCATAATA	0.393																																																0													82	81	81					1																	210267875		2203	4300	6503	SO:0001819	synonymous_variant	255928			AK091517	CCDS31014.1, CCDS53470.1, CCDS58058.1	1q32.2	2013-01-21			ENSG00000143469	ENSG00000143469		"Synaptotagmins"	23143	protein-coding gene	gene with protein product		610949					Standard	NM_001256006		Approved	sytXIV, FLJ34198	uc001hhs.5	Q8NB59	OTTHUMG00000036652	ENST00000472886.1:c.651T>C	1.37:g.210267875T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B1AJU0|B1AJU1|F5H426|Q5THX7|Q707N3|Q707N4|Q707N5|Q707N6|Q707N7	Silent	SNP	ENST00000472886.1	37	CCDS31014.1																																																																																				0.393	SYT14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089124.1	NM_153262		C	210267875	T	C	210267875	2	2	570	1	0	0	0	0	0	0	0	1	15482	1722	60	3		3	SYT14	1	210267875	Silent	SNP	T	TCGA-DW-7840-01A-11D-2136-08	3616217	210267875	38982746	14	33670										
EPRS	2058	hgsc.bcm.edu	37	chr1	220180553	220180553	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	aaagttcttacttgtgtattTttgtaatgttgaggttgccc	9	5	1	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr1:220180553T>G	ENST00000366923.3	-	14	2002	c.1733A>C	c.(1732-1734)aAa>aCa	p.K578T		NM_004446.2	NP_004437.2	P07814	SYEP_HUMAN	glutamyl-prolyl-tRNA synthetase	578	Glutamate--tRNA ligase.				cellular response to interferon-gamma (GO:0071346)|gene expression (GO:0010467)|glutamyl-tRNA aminoacylation (GO:0006424)|negative regulation of translation (GO:0017148)|prolyl-tRNA aminoacylation (GO:0006433)|protein complex assembly (GO:0006461)|tRNA aminoacylation for protein translation (GO:0006418)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|GAIT complex (GO:0097452)|membrane (GO:0016020)|ribonucleoprotein complex (GO:0030529)	ATP binding (GO:0005524)|glutamate-tRNA ligase activity (GO:0004818)|proline-tRNA ligase activity (GO:0004827)|RNA stem-loop binding (GO:0035613)			breast(2)|endometrium(11)|kidney(2)|large_intestine(13)|lung(24)|ovary(1)|prostate(3)|skin(2)|stomach(2)|urinary_tract(3)	63				GBM - Glioblastoma multiforme(131;0.0735)	L-Proline(DB00172)	CTTGTGTATTTTTGTAATGTT	0.318																																																0													54	54	54					1																	220180553		2203	4300	6503	SO:0001583	missense	2058			X54326	CCDS31027.1	1q41	2011-07-01			ENSG00000136628	ENSG00000136628	6.1.1.15, 6.1.1.17	"Aminoacyl tRNA synthetases / Class I", "Aminoacyl tRNA synthetases / Class II"	3418	protein-coding gene	gene with protein product	"glutamate tRNA ligase", "proline tRNA ligase"	138295		QPRS, QARS		1988429	Standard	NM_004446		Approved	EARS, PARS, GLUPRORS	uc001hly.1	P07814	OTTHUMG00000037433	ENST00000366923.3:c.1733A>C	1.37:g.220180553T>G	ENSP00000355890:p.Lys578Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVA9|B9EGH3|Q05BP6|Q05DF8|Q5DSM1|Q5H9S5|Q6PD57|Q86X73	Missense_Mutation	SNP	ENST00000366923.3	37	CCDS31027.1	.	.	.	.	.	.	.	.	.	.	T	16.93	3.258740	0.59321	.	.	ENSG00000136628	ENST00000366923;ENST00000536921;ENST00000435048	T	0.08370	3.1	5.81	3.5	0.40072	Ribosomal protein L25/Gln-tRNA synthetase, anti-codon-binding domain (1);Ribosomal protein L25/Gln-tRNA synthetase, beta-barrel domain (1);Glutamyl/glutaminyl-tRNA synthetase, class Ib, anti-codon binding domain (1);	0.089451	0.85682	D	0.000000	T	0.18383	0.0441	M	0.81239	2.535	0.80722	D	1	P;B;P	0.38223	0.623;0.006;0.587	B;B;P	0.45577	0.401;0.183;0.486	T	0.00449	-1.1732	10	0.62326	D	0.03	-14.9339	10.2231	0.43209	0.0:0.1342:0.0:0.8658	.	602;585;578	E7EMN0;Q3KQZ8;P07814	.;.;SYEP_HUMAN	T	578;585;602	ENSP00000355890:K578T	ENSP00000355890:K578T	K	-	2	0	EPRS	218247176	1.000000	0.71417	0.996000	0.52242	0.991000	0.79684	3.386000	0.52492	0.477000	0.27464	0.473000	0.43528	AAA		0.318	EPRS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091133.2	NM_004446		G	220180553	T	G	220180553	3	3	570	1	0	0	0	0	1	0	0	0	5193	1841	64	5	2881	5	EPRS	1	220180553	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	9912678	220180553	29070068	15	33671										
SLC30A6	55676	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	32422810	32422810	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ttccgggacttagcagtatcTtccttccccgaatgaatcca	7	13	1	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr2:32422810T>A	ENST00000282587.5	+	10	617	c.580T>A	c.(580-582)Ttc>Atc	p.F194I	SLC30A6_ENST00000538303.1_Missense_Mutation_p.F165I|SLC30A6_ENST00000357055.3_5'UTR|SLC30A6_ENST00000406369.1_Missense_Mutation_p.F120I|SLC30A6_ENST00000435660.1_Missense_Mutation_p.F194I|SLC30A6_ENST00000379343.2_Missense_Mutation_p.F234I	NM_017964.3	NP_060434.2	Q6NXT4	ZNT6_HUMAN	solute carrier family 30 (zinc transporter), member 6	194					cellular protein metabolic process (GO:0044267)|Golgi to endosome transport (GO:0006895)|transmembrane transport (GO:0055085)	Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)	zinc ion transmembrane transporter activity (GO:0005385)			endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(4)|lung(5)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	19	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TAGCAGTATCTTCCTTCCCCG	0.348																																																0													195	185	188					2																	32422810		2203	4300	6503	SO:0001583	missense	55676			AK055663	CCDS1780.1, CCDS54341.1, CCDS54342.1, CCDS54343.1	2p22.3	2013-05-22			ENSG00000152683	ENSG00000152683		"Solute carriers"	19305	protein-coding gene	gene with protein product		611148					Standard	NM_017964		Approved	FLJ31101, ZNT6	uc002rof.2	Q6NXT4	OTTHUMG00000128456	ENST00000282587.5:c.580T>A	2.37:g.32422810T>A	ENSP00000282587:p.Phe194Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A5YM45|B7Z901|Q8N5C9|Q96NC3	Missense_Mutation	SNP	ENST00000282587.5	37	CCDS1780.1	.	.	.	.	.	.	.	.	.	.	T	21.1	4.093791	0.76870	.	.	ENSG00000152683	ENST00000379343;ENST00000440718;ENST00000282587;ENST00000435660;ENST00000538303;ENST00000406369	T;T;T;T;T;T	0.62105	0.07;0.05;0.07;0.07;0.07;0.07	6.07	6.07	0.98685	.	0.101567	0.64402	D	0.000002	T	0.57051	0.2027	L	0.34521	1.04	0.80722	D	1	B;B;B;B	0.34399	0.367;0.452;0.202;0.31	B;B;B;B	0.40702	0.338;0.164;0.205;0.113	T	0.53457	-0.8436	10	0.23302	T	0.38	-14.6144	15.6102	0.76710	0.0:0.0:0.0:1.0	.	165;194;234;194	B7Z901;Q6NXT4-3;Q6NXT4-2;Q6NXT4	.;.;.;ZNT6_HUMAN	I	234;165;194;194;165;120	ENSP00000368648:F234I;ENSP00000393946:F165I;ENSP00000282587:F194I;ENSP00000399005:F194I;ENSP00000440678:F165I;ENSP00000384041:F120I	ENSP00000282587:F194I	F	+	1	0	SLC30A6	32276314	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.462000	0.66707	2.330000	0.79161	0.528000	0.53228	TTC		0.348	SLC30A6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250254.2			A	32422810	T	A	32422810	3	1	570	1	0	0	0	0	1	0	0	0	14572	1609	56	5	618	5	SLC30A6	2	32422810	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08		32422810	210776563	16	33672										
MTIF2	4528	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	55470636	55470636	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ttgttcttttctttctaaaaAccgtagaattgatctcttct	4	8	5	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr2:55470636A>G	ENST00000263629.4	-	12	1795	c.1480T>C	c.(1480-1482)Ttt>Ctt	p.F494L	MTIF2_ENST00000394600.3_Missense_Mutation_p.F494L|MTIF2_ENST00000403721.1_Missense_Mutation_p.F494L	NM_002453.2	NP_002444.2	P46199	IF2M_HUMAN	mitochondrial translational initiation factor 2	494					formation of translation initiation complex (GO:0001732)|regulation of translational initiation (GO:0006446)|ribosome disassembly (GO:0032790)	mitochondrion (GO:0005739)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|poly(A) RNA binding (GO:0044822)|ribosomal small subunit binding (GO:0043024)|translation factor activity, nucleic acid binding (GO:0008135)|translation initiation factor activity (GO:0003743)			breast(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(5)|ovary(1)|prostate(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)	24						CTTTCTAAAAACCGTAGAATT	0.338																																																0													146	146	146					2																	55470636		2203	4300	6503	SO:0001583	missense	4528			L34600	CCDS1853.1	2p16.1	2008-02-05			ENSG00000085760	ENSG00000085760			7441	protein-coding gene	gene with protein product		603766				9925935, 7829522	Standard	XM_005264335		Approved	IF-2mt	uc002ryo.3	P46199	OTTHUMG00000129338	ENST00000263629.4:c.1480T>C	2.37:g.55470636A>G	ENSP00000263629:p.Phe494Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D6W5D0	Missense_Mutation	SNP	ENST00000263629.4	37	CCDS1853.1	.	.	.	.	.	.	.	.	.	.	A	11.25	1.584682	0.28268	.	.	ENSG00000085760	ENST00000403721;ENST00000263629;ENST00000394600;ENST00000418823	T;T;T;T	0.56275	0.47;0.47;0.47;1.05	5.6	5.6	0.85130	Translation initiation factor IF- 2, domain 3 (1);	0.270733	0.37577	N	0.002040	T	0.41766	0.1173	L	0.38175	1.15	0.42010	D	0.990935	B	0.02656	0.0	B	0.01281	0.0	T	0.33394	-0.9870	10	0.09084	T	0.74	-2.2567	15.7861	0.78304	1.0:0.0:0.0:0.0	.	494	P46199	IF2M_HUMAN	L	494;494;494;172	ENSP00000384481:F494L;ENSP00000263629:F494L;ENSP00000378099:F494L;ENSP00000403492:F172L	ENSP00000263629:F494L	F	-	1	0	MTIF2	55324140	1.000000	0.71417	0.207000	0.23584	0.007000	0.05969	6.152000	0.71812	2.136000	0.66102	0.533000	0.62120	TTT		0.338	MTIF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251486.4	NM_002453		G	55470636	A	G	55470636	3	3	570	1	0	0	0	0	1	0	0	0	9941	43	2	3	723	3	MTIF2	2	55470636	Missense_Mutation	SNP	A	TCGA-DW-7840-01A-11D-2136-08	23047826	55470636	187728737	17	33673										
USP34	9736	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	61493234	61493234	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cttgaagaatgtgatttgcaCtttggctgttgtcggtcctt	11	7	0	3			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr2:61493234C>T	ENST00000398571.2	-	42	5578	c.5502G>A	c.(5500-5502)aaG>aaA	p.K1834K		NM_014709.3	NP_055524.3	Q70CQ2	UBP34_HUMAN	ubiquitin specific peptidase 34	1834					positive regulation of canonical Wnt signaling pathway (GO:0090263)|protein deubiquitination (GO:0016579)|protein K48-linked deubiquitination (GO:0071108)|ubiquitin-dependent protein catabolic process (GO:0006511)|Wnt signaling pathway (GO:0016055)		cysteine-type endopeptidase activity (GO:0004197)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			autonomic_ganglia(1)|breast(14)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(24)|lung(52)|ovary(8)|prostate(10)|skin(6)|urinary_tract(2)	138			Epithelial(17;0.229)			GTGATTTGCACTTTGGCTGTT	0.408																																																0													123	111	115					2																	61493234		1848	4096	5944	SO:0001819	synonymous_variant	9736			AB011142	CCDS42686.1	2p16.1-p15	2005-08-08	2005-08-08		ENSG00000115464	ENSG00000115464		"Ubiquitin-specific peptidases"	20066	protein-coding gene	gene with protein product		615295	"ubiquitin specific protease 34"			12838346	Standard	NM_014709		Approved	KIAA0570, KIAA0729	uc002sbe.3	Q70CQ2	OTTHUMG00000152265	ENST00000398571.2:c.5502G>A	2.37:g.61493234C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MWD0|B3KWU9|O60316|O94834|Q3B777|Q6P6C9|Q7L8P6|Q8N3T9|Q8TBW2|Q9UGA1	Silent	SNP	ENST00000398571.2	37	CCDS42686.1																																																																																				0.408	USP34-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000325650.4			T	61493234	C	T	61493234	2	4	570	1	0	0	0	0	0	0	0	1	17077	564	20	2		2	USP34	2	61493234	Silent	SNP	C	TCGA-DW-7840-01A-11D-2136-08	6022598	61493234	181706139	18	33674										
IL1F5	26525	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	113820191	113820191	+	Frame_Shift_Del	DEL	G	G	-													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cagcctgtcagactcacccaGcttcccgagaatggtggctg							TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr2:113820191delG	ENST00000393200.2	+	5	566	c.405delG	c.(403-405)cagfs	p.Q135fs	IL36RN_ENST00000346807.3_Frame_Shift_Del_p.Q135fs	NM_012275.2	NP_036407.1	Q9UBH0	I36RA_HUMAN	interleukin 36 receptor antagonist	135					antifungal humoral response (GO:0019732)|negative regulation of cytokine-mediated signaling pathway (GO:0001960)|negative regulation of interferon-gamma secretion (GO:1902714)|negative regulation of interleukin-17 production (GO:0032700)|negative regulation of interleukin-6 production (GO:0032715)	extracellular space (GO:0005615)	interleukin-1 receptor antagonist activity (GO:0005152)			large_intestine(3)|lung(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	11						GACTCACCCAGCTTCCCGAGA	0.632																																																0													50	48	49					2																	113820191		2203	4300	6503	SO:0001589	frameshift_variant	26525			AF201830	CCDS2111.1	2q14	2014-09-17	2011-06-06	2011-06-06	ENSG00000136695	ENSG00000136695		"Interleukins and interleukin receptors"	15561	protein-coding gene	gene with protein product	"family of interleukin 1-delta", "interleukin-1 receptor antagonist homolog 1", "interleukin-1 HY1", "IL-1 related protein 3"	605507	"interleukin 1 family, member 5 (delta)"	IL1F5		10625660, 10512743, 11574262	Standard	NM_012275		Approved	FIL1, FIL1(DELTA), FIL1D, IL1HY1, IL1RP3, IL1L1, IL-1F5, IL36RA, MGC29840	uc002tit.3	Q9UBH0	OTTHUMG00000131337	ENST00000393200.2:c.405delG	2.37:g.113820191delG	ENSP00000376896:p.Gln135fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2I4|Q56AT9|Q7RTZ6	Frame_Shift_Del	DEL	ENST00000393200.2	37	CCDS2111.1																																																																																				0.632	IL36RN-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000330729.1	NM_173170		-	113820191	G	-	113820191	7	5	570	1	0	1	0	1	0	0	0	0	7660	962	34	0	419	0	IL1F5	2	113820191	Frame_Shift_Del	DEL	G	TCGA-DW-7840-01A-11D-2136-08	52326957	113820191	129379182	19	33675										
RAB3GAP1	22930	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	135891507	135891507	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tttgtgtctctgtatgatcaAtttttaccatggagggttga	10	5	2	2	rs578182809		TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr2:135891507A>G	ENST00000264158.8	+	15	1446	c.1403A>G	c.(1402-1404)aAt>aGt	p.N468S	SNORA40_ENST00000385573.1_RNA|ZRANB3_ENST00000412849.1_5'Flank|RAB3GAP1_ENST00000539493.1_Missense_Mutation_p.N424S|RAB3GAP1_ENST00000487003.1_3'UTR|RAB3GAP1_ENST00000442034.1_Missense_Mutation_p.N468S	NM_012233.2	NP_036365.1	Q15042	RB3GP_HUMAN	RAB3 GTPase activating protein subunit 1 (catalytic)	468					brain development (GO:0007420)|camera-type eye development (GO:0043010)|establishment of protein localization to endoplasmic reticulum membrane (GO:0097051)|face morphogenesis (GO:0060325)|hypothalamus development (GO:0021854)|lipid particle organization (GO:0034389)|positive regulation of endoplasmic reticulum tubular network organization (GO:1903373)|positive regulation of GTP catabolic process (GO:0033126)|positive regulation of Rab GTPase activity (GO:0032851)|regulation of calcium ion-dependent exocytosis of neurotransmitter (GO:1903233)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of GTPase activity (GO:0043087)|regulation of short-term neuronal synaptic plasticity (GO:0048172)	cytoplasm (GO:0005737)|endoplasmic reticulum tubular network (GO:0071782)|extracellular vesicular exosome (GO:0070062)|protein complex (GO:0043234)	Rab GTPase activator activity (GO:0005097)|Rab GTPase binding (GO:0017137)			breast(1)|central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(5)|liver(1)|lung(10)|ovary(1)|prostate(1)|skin(3)|urinary_tract(1)	32				BRCA - Breast invasive adenocarcinoma(221;0.117)		TGTATGATCAATTTTTACCAT	0.383													A|||	1	0.000199681	0.0008	0.0	5008	,	,		16221	0.0		0.0	False		,,,				2504	0.0															0													134	133	133					2																	135891507		2203	4300	6503	SO:0001583	missense	22930			D31886	CCDS33294.1, CCDS54402.1	2q21.3	2013-07-09			ENSG00000115839	ENSG00000115839			17063	protein-coding gene	gene with protein product		602536				9030515, 15696165	Standard	NM_012233		Approved	RAB3GAP, KIAA0066, RAB3GAP130, WARBM1	uc010fnf.3	Q15042	OTTHUMG00000154889	ENST00000264158.8:c.1403A>G	2.37:g.135891507A>G	ENSP00000264158:p.Asn468Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8Z3|C9J837|Q659F5|Q8TBB4	Missense_Mutation	SNP	ENST00000264158.8	37	CCDS33294.1	.	.	.	.	.	.	.	.	.	.	A	23.5	4.421038	0.83559	.	.	ENSG00000115839	ENST00000264158;ENST00000539493;ENST00000442034	T;T;T	0.48522	0.81;0.81;0.81	4.95	4.95	0.65309	.	0.043485	0.85682	D	0.000000	T	0.58337	0.2115	L	0.50333	1.59	0.58432	D	0.999995	D;D	0.76494	0.999;0.999	D;P	0.63283	0.913;0.883	T	0.53570	-0.8420	10	0.22109	T	0.4	-20.1443	14.9142	0.70781	1.0:0.0:0.0:0.0	.	468;468	C9J837;Q15042	.;RB3GP_HUMAN	S	468;424;468	ENSP00000264158:N468S;ENSP00000444306:N424S;ENSP00000411418:N468S	ENSP00000264158:N468S	N	+	2	0	RAB3GAP1	135607977	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.127000	0.94417	1.992000	0.58205	0.482000	0.46254	AAT		0.383	RAB3GAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337514.2	NM_012233		G	135891507	A	G	135891507	3	3	570	1	0	0	0	0	1	0	0	0	12948	101	4	3	1461	3	RAB3GAP1	2	135891507	Missense_Mutation	SNP	A	TCGA-DW-7840-01A-11D-2136-08	22071316	135891507	107307866	20	33676										
TNS1	7145	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	218713668	218713668	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gagtcgctgctcacagaaagCgtgtgttccacgtggttggg	15	9	1	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr2:218713668C>G	ENST00000171887.4	-	17	1649	c.1197G>C	c.(1195-1197)acG>acC	p.T399T	TNS1_ENST00000419504.1_Silent_p.T399T|TNS1_ENST00000480665.1_5'UTR|TNS1_ENST00000430930.1_Silent_p.T399T	NM_022648.4	NP_072174.3	Q9HBL0	TENS1_HUMAN	tensin 1	399					cell-substrate junction assembly (GO:0007044)|fibroblast migration (GO:0010761)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|focal adhesion (GO:0005925)	poly(A) RNA binding (GO:0044822)			breast(2)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(23)|liver(1)|lung(24)|ovary(3)|pancreas(1)|prostate(3)|skin(5)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	79		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		TCACAGAAAGCGTGTGTTCCA	0.612																																																0													143	137	139					2																	218713668		2203	4300	6503	SO:0001819	synonymous_variant	7145			AB209238	CCDS2407.1	2q35-q36	2014-06-13	2005-05-13	2005-05-13	ENSG00000079308	ENSG00000079308		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs", "SH2 domain containing"	11973	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 155"	600076	"tensin", "matrix-remodelling associated 6"	TNS, MXRA6			Standard	NM_022648		Approved	DKFZp586K0617, PPP1R155	uc002vgt.2	Q9HBL0	OTTHUMG00000133056	ENST00000171887.4:c.1197G>C	2.37:g.218713668C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZG71|Q6IPI5	Silent	SNP	ENST00000171887.4	37	CCDS2407.1																																																																																				0.612	TNS1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256672.2	NM_022648		G	218713668	C	G	218713668	2	3	570	1	0	0	0	0	0	0	0	1	16355	755	27	4		4	TNS1	2	218713668	Silent	SNP	C	TCGA-DW-7840-01A-11D-2136-08	82822161	218713668	24485705	21	33677										
C3orf22	152065	ucsc.edu;bcgsc.ca	37	chr3	126268739	126268739	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ggcccctggacagccctgccGccttgctggtctgggggcag	16	15	1	0	rs373190783		TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr3:126268739G>A	ENST00000318225.2	-	4	776	c.398C>T	c.(397-399)gCg>gTg	p.A133V		NM_152533.1	NP_689746.1	Q8N5N4	CC022_HUMAN	chromosome 3 open reading frame 22	133										large_intestine(1)|lung(3)|ovary(2)|prostate(1)	7				GBM - Glioblastoma multiforme(114;0.147)		CAGCCCTGCCGCCTTGCTGGT	0.627																																																0								G	VAL/ALA	0,4406		0,0,2203	55	53	54		398	-0.5	0	3		54	1,8599	1.2+/-3.3	0,1,4299	no	missense	C3orf22	NM_152533.1	64	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	possibly-damaging	133/142	126268739	1,13005	2203	4300	6503	SO:0001583	missense	152065				CCDS3040.1	3q21.3	2011-09-30			ENSG00000180697	ENSG00000180697			28534	protein-coding gene	gene with protein product						12477932	Standard	NM_152533		Approved	MGC34728	uc003ejb.3	Q8N5N4	OTTHUMG00000162731	ENST00000318225.2:c.398C>T	3.37:g.126268739G>A	ENSP00000316644:p.Ala133Val	Somatic		WXS	Illumina HiSeq		B3KUS9	Missense_Mutation	SNP	ENST00000318225.2	37	CCDS3040.1	.	.	.	.	.	.	.	.	.	.	G	13.41	2.228530	0.39399	0.0	1.16E-4	ENSG00000180697	ENST00000318225	.	.	.	1.92	-0.536	0.11876	.	.	.	.	.	T	0.09818	0.0241	N	0.19112	0.55	0.09310	N	1	P	0.41188	0.741	B	0.25405	0.06	T	0.22730	-1.0208	8	0.02654	T	1	6.4871	4.5161	0.11935	0.4702:0.0:0.5298:0.0	.	133	Q8N5N4	CC022_HUMAN	V	133	.	ENSP00000316644:A133V	A	-	2	0	C3orf22	127751429	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.292000	0.08332	-0.154000	0.11118	0.313000	0.20887	GCG		0.627	C3orf22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370231.2	NM_152533		A	126268739	G	A	126268739	3	1	570	1	0	0	0	0	1	0	0	0	2217	1087	38	1	31	1	C3orf22	3	126268739	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08		126268739	71753691	22	33678										
ABTB1	80325	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	127396051	127396051	+	Silent	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tgtgtgaaggtgctgaccatCgagcccccacctgcagaccc	11	15	0	3	rs368024563		TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr3:127396051C>A	ENST00000232744.8	+	8	770	c.684C>A	c.(682-684)atC>atA	p.I228I	ABTB1_ENST00000393363.3_Silent_p.I86I|ABTB1_ENST00000453791.2_Silent_p.I86I|ABTB1_ENST00000468137.1_Silent_p.I86I					ankyrin repeat and BTB (POZ) domain containing 1											central_nervous_system(1)|endometrium(1)|large_intestine(2)|lung(4)|ovary(1)|prostate(1)	10						TGCTGACCATCGAGCCCCCAC	0.682																																																0													36	32	33					3																	127396051		2201	4297	6498	SO:0001819	synonymous_variant	80325			AB053324	CCDS3045.1, CCDS46901.1	3q21	2013-01-10			ENSG00000114626	ENSG00000114626		"BTB/POZ domain containing", "Ankyrin repeat domain containing"	18275	protein-coding gene	gene with protein product		608308				10891360, 11494141	Standard	NM_172027		Approved	BPOZ, EF1ABP, Btb3, BTBD21	uc003ejt.3	Q969K4	OTTHUMG00000159636	ENST00000232744.8:c.684C>A	3.37:g.127396051C>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000232744.8	37	CCDS3045.1																																																																																				0.682	ABTB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356595.1	NM_172027		A	127396051	C	A	127396051	2	1	570	1	0	0	0	0	0	0	0	1	102	874	31	4		4	ABTB1	3	127396051	Silent	SNP	C	TCGA-DW-7840-01A-11D-2136-08	1127312	127396051	70626379	23	33679										
LSG1	55341	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	194379786	194379786	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tggcccaggcactccgctgcTcagcagtcagcaagtctgcc	11	16	3	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr3:194379786T>G	ENST00000265245.5	-	7	973	c.659A>C	c.(658-660)gAg>gCg	p.E220A		NM_018385.2	NP_060855.2	Q9H089	LSG1_HUMAN	large 60S subunit nuclear export GTPase 1	220	CP-type G. {ECO:0000255|PROSITE- ProRule:PRU01058}.				GTP catabolic process (GO:0006184)|nuclear export (GO:0051168)|protein transport (GO:0015031)|ribosome biogenesis (GO:0042254)	Cajal body (GO:0015030)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			breast(2)|endometrium(3)|large_intestine(2)|lung(9)	16	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;7.55e-06)		ACTCCGCTGCTCAGCAGTCAG	0.458																																																0													160	168	165					3																	194379786		2203	4300	6503	SO:0001583	missense	55341				CCDS33922.1	3q29	2013-08-21	2013-08-21		ENSG00000041802	ENSG00000041802			25652	protein-coding gene	gene with protein product		610780	"large subunit GTPase 1 homolog (S. cerevisiae)"			11230166	Standard	NM_018385		Approved	FLJ11301	uc003fui.3	Q9H089	OTTHUMG00000156021	ENST00000265245.5:c.659A>C	3.37:g.194379786T>G	ENSP00000265245:p.Glu220Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A0JLT4|A0PJK3|A6NI18|Q7L9H8|Q9NUK8	Missense_Mutation	SNP	ENST00000265245.5	37	CCDS33922.1	.	.	.	.	.	.	.	.	.	.	T	18.27	3.586546	0.66105	.	.	ENSG00000041802	ENST00000265245	D	0.91631	-2.88	6.17	2.65	0.31530	.	0.224693	0.45867	D	0.000326	D	0.88028	0.6327	L	0.35288	1.05	0.58432	D	0.999998	P	0.41498	0.752	P	0.46208	0.507	D	0.83890	0.0284	10	0.26408	T	0.33	.	9.937	0.41556	0.0:0.1846:0.0:0.8154	.	220	Q9H089	LSG1_HUMAN	A	220	ENSP00000265245:E220A	ENSP00000265245:E220A	E	-	2	0	LSG1	195861075	1.000000	0.71417	0.999000	0.59377	0.913000	0.54294	3.985000	0.56930	1.160000	0.42584	0.533000	0.62120	GAG		0.458	LSG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342740.1	NM_018385		G	194379786	T	G	194379786	3	3	570	1	0	0	0	0	1	0	0	0	9056	1551	54	5	1349	5	LSG1	3	194379786	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	66983735	194379786	3642644	24	33680										
TFRC	7037	hgsc.bcm.edu;bcgsc.ca	37	chr3	195782165	195782166	+	Missense_Mutation	DNP	TC	TC	AG													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tggtacccaaataaggataaTctgtgtcctgcaagacaacg							TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr3:195782165_195782166TC>AG	ENST00000360110.4	-	17	1853_1854	c.1684_1685GA>CT	c.(1684-1686)GAt>CTt	p.D562L	TFRC_ENST00000465288.1_5'Flank|TFRC_ENST00000392396.3_Missense_Mutation_p.D562L|TFRC_ENST00000420415.1_Missense_Mutation_p.D481L|TFRC_ENST00000540528.1_3'UTR|TFRC_ENST00000535031.1_Missense_Mutation_p.D280L	NM_001128148.1	NP_001121620.1	P02786	TFR1_HUMAN	transferrin receptor	562					cellular iron ion homeostasis (GO:0006879)|iron ion import (GO:0097286)|osteoclast differentiation (GO:0030316)|positive regulation of bone resorption (GO:0045780)|transferrin transport (GO:0033572)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	blood microparticle (GO:0072562)|cell surface (GO:0009986)|coated pit (GO:0005905)|cytoplasmic membrane-bounded vesicle (GO:0016023)|endosome (GO:0005768)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|recycling endosome (GO:0055037)|vesicle (GO:0031982)	double-stranded RNA binding (GO:0003725)|identical protein binding (GO:0042802)|poly(A) RNA binding (GO:0044822)|transferrin receptor activity (GO:0004998)			NS(1)|breast(2)|endometrium(1)|kidney(3)|large_intestine(4)|lung(10)|ovary(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	27	all_cancers(143;1.94e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.36e-24)|all cancers(36;3.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.17e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00233)	Gallium nitrate(DB05260)	ATAAGGATAATCTGTGTCCTGC	0.5			T	BCL6	NHL																																		Dom	yes		3	3q29	7037	"transferrin receptor (p90, CD71)"		L	0																																										SO:0001583	missense	7037			X01060	CCDS3312.1	3q29	2013-09-19	2013-09-19		ENSG00000072274	ENSG00000072274		"CD molecules"	11763	protein-coding gene	gene with protein product		190010	"transferrin receptor (p90, CD71)"				Standard	NM_003234		Approved	CD71, TFR1, p90	uc003fwa.4	P02786	OTTHUMG00000155714	ENST00000360110.4:c.1684_1685delinsAG	3.37:g.195782165_195782166delinsAG	ENSP00000353224:p.Asp562Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DXB0|Q1HE24|Q59G55|Q9UCN0|Q9UCU5|Q9UDF9|Q9UK21	Missense_Mutation	DNP	ENST00000360110.4	37	CCDS3312.1																																																																																				0.5	TFRC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341346.1			AG	195782166	TC	AG	195782165	3	1	570	1	0	0	0	0	1	0	0	0	15824	1435	50	5	609	5	TFRC	3	195782165	Missense_Mutation	DNP	TC	TCGA-DW-7840-01A-11D-2136-08	1402379	195782165	2240265	25	33681										
CEP135	9662	hgsc.bcm.edu;bcgsc.ca	37	chr4	56874494	56874494	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	atttttgtaatttctataggAaaaagctgttgctcaaatga	7	4	2	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr4:56874494A>G	ENST00000257287.4	+	18	2406	c.2282A>G	c.(2281-2283)gAa>gGa	p.E761G		NM_025009.4	NP_079285.2	Q66GS9	CP135_HUMAN	centrosomal protein 135kDa	761					centriole replication (GO:0007099)|centriole-centriole cohesion (GO:0010457)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)	centriole (GO:0005814)|centrosome (GO:0005813)|cytosol (GO:0005829)	protein C-terminus binding (GO:0008022)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(9)|lung(26)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	50	Glioma(25;0.08)|all_neural(26;0.101)					TTTCTATAGGAAAAAGCTGTT	0.289																																																0													60	64	63					4																	56874494		2201	4299	6500	SO:0001630	splice_region_variant	9662			AB014535	CCDS33986.1	4q12	2014-02-20	2005-12-02	2005-12-02	ENSG00000174799	ENSG00000174799			29086	protein-coding gene	gene with protein product		611423	"KIAA0635", "centrosomal protein 4"	KIAA0635, CEP4		9734811, 14654843	Standard	NM_025009		Approved	FLJ13621	uc003hbi.4	Q66GS9	OTTHUMG00000160748	ENST00000257287.4:c.2281-1A>G	4.37:g.56874494A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RMY0|O75130|Q58F25|Q9H8H7	Missense_Mutation	SNP	ENST00000257287.4	37	CCDS33986.1	.	.	.	.	.	.	.	.	.	.	A	14.20	2.463771	0.43736	.	.	ENSG00000174799	ENST00000257287	T	0.35048	1.33	5.48	5.48	0.80851	.	0.043970	0.85682	D	0.000000	T	0.50137	0.1598	M	0.78049	2.395	0.54753	D	0.999988	D	0.56287	0.975	P	0.51385	0.668	T	0.55341	-0.8156	10	0.54805	T	0.06	.	12.2418	0.54546	1.0:0.0:0.0:0.0	.	761	Q66GS9	CP135_HUMAN	G	761	ENSP00000257287:E761G	ENSP00000257287:E761G	E	+	2	0	CEP135	56569251	1.000000	0.71417	1.000000	0.80357	0.043000	0.13939	5.412000	0.66392	2.182000	0.69389	0.528000	0.53228	GAA		0.289	CEP135-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362092.2	NM_025009	Missense_Mutation	G	56874494	A	G	56874494	5	3	570	1	0	0	0	0	0	0	1	0	3249	260	9	3	2348	3	CEP135	4	56874494	Splice_Site	SNP	A	TCGA-DW-7840-01A-11D-2136-08		56874494	134279782	26	33682										
RCHY1	25898	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	76415883	76415883	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cctggtcatatctaaagcagAgtgcatacataatggacatc	8	9	2	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr4:76415883A>C	ENST00000324439.5	-	8	963	c.565T>G	c.(565-567)Tct>Gct	p.S189A	RCHY1_ENST00000451788.1_Missense_Mutation_p.L188R|RCHY1_ENST00000514021.1_5'Flank|RCHY1_ENST00000512706.1_Missense_Mutation_p.S167A|RCHY1_ENST00000513257.1_Missense_Mutation_p.S180A|RCHY1_ENST00000380840.2_Missense_Mutation_p.S149A	NM_001278536.1|NM_001278538.1|NM_001278539.1	NP_001265465.1|NP_001265467.1|NP_001265468.1	Q96PM5	ZN363_HUMAN	ring finger and CHY zinc finger domain containing 1, E3 ubiquitin protein ligase	189					positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein ubiquitination (GO:0031398)|protein autoubiquitination (GO:0051865)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|ubiquitin ligase complex (GO:0000151)	ligase activity (GO:0016874)|p53 binding (GO:0002039)|protein homodimerization activity (GO:0042803)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			large_intestine(2)|pancreas(1)	3			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			TCTAAAGCAGAGTGCATACAT	0.373																																																0													133	113	120					4																	76415883		2203	4300	6503	SO:0001583	missense	25898			AF255666	CCDS3567.1, CCDS34012.1, CCDS63990.1, CCDS63991.1, CCDS63992.1	4q21.1-q21.3	2014-02-17	2012-02-23	2004-03-30	ENSG00000163743	ENSG00000163743		"RING-type (C3HC4) zinc fingers"	17479	protein-coding gene	gene with protein product	"androgen-receptor N-terminal-interacting protein", "p53-induced protein with a RING-H2 domain", "zinc finger, CHY-type"	607680	"zinc finger protein 363", "ring finger and CHY zinc finger domain containing 1"	ZNF363		12654245	Standard	NM_015436		Approved	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2, ZCHY	uc003hik.3	Q96PM5	OTTHUMG00000130105	ENST00000324439.5:c.565T>G	4.37:g.76415883A>C	ENSP00000321239:p.Ser189Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRG3|C7E541|C7E542|C7E543|D3YRV2|E7EMC8|E7ETW5|J3KPI0|Q2KN33|Q59GN7|Q86X26|Q96PR5	Missense_Mutation	SNP	ENST00000324439.5	37	CCDS3567.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	14.67|14.67	2.604259|2.604259	0.46423|0.46423	.|.	.|.	ENSG00000163743|ENSG00000163743	ENST00000451788|ENST00000324439;ENST00000380840;ENST00000512706;ENST00000513257;ENST00000507014	.|T;T;T	.|0.35048	.|1.38;1.33;1.38	5.87|5.87	5.87|5.87	0.94306|0.94306	.|Zinc finger, RING/FYVE/PHD-type (1);	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.60235|0.60235	0.2253|0.2253	.|.	.|.	.|.	0.32406|0.32406	N|N	0.551239|0.551239	.|D;D;D;D	.|0.89917	.|0.996;0.997;0.996;1.0	.|D;D;D;D	.|0.79108	.|0.987;0.992;0.987;0.987	T|T	0.71721|0.71721	-0.4507|-0.4507	5|9	0.22706|0.66056	T|D	0.39|0.02	-9.2258|-9.2258	14.2238|14.2238	0.65845|0.65845	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	.|140;167;180;189	.|E7EMC8;E7ETW5;Q96PM5-2;Q96PM5	.|.;.;.;ZN363_HUMAN	R|A	188|189;149;167;180;140	.|ENSP00000321239:S189A;ENSP00000370220:S149A;ENSP00000423976:S167A	ENSP00000401041:L188R|ENSP00000321239:S189A	L|S	-|-	2|1	0|0	RCHY1|RCHY1	76634907|76634907	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.962000|0.962000	0.63368|0.63368	7.352000|7.352000	0.79404|0.79404	2.239000|2.239000	0.73571|0.73571	0.528000|0.528000	0.53228|0.53228	CTC|TCT		0.373	RCHY1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252411.2	NM_015436		C	76415883	A	C	76415883	3	2	570	1	0	0	0	0	1	0	0	0	13190	304	11	5	228	5	RCHY1	4	76415883	Missense_Mutation	SNP	A	TCGA-DW-7840-01A-11D-2136-08	19541389	76415883	114738393	27	33683										
BMP2K	55589	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	79786783	79786783	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ccaaaggccaactctgctacTactgccactcccagtgtgct	7	16	1	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr4:79786783T>C	ENST00000335016.5	+	10	1306	c.1140T>C	c.(1138-1140)acT>acC	p.T380T	BMP2K_ENST00000502871.1_Silent_p.T380T	NM_198892.1	NP_942595.1	Q9NSY1	BMP2K_HUMAN	BMP2 inducible kinase	380					regulation of bone mineralization (GO:0030500)	nucleus (GO:0005634)	ATP binding (GO:0005524)|phosphatase regulator activity (GO:0019208)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(1)|endometrium(4)|large_intestine(2)|lung(3)|prostate(1)|urinary_tract(1)	13						ACTCTGCTACTACTGCCACTC	0.418																																																0													122	110	114					4																	79786783		2203	4300	6503	SO:0001819	synonymous_variant	55589			AB015331	CCDS34019.1, CCDS47083.1	4q21.21	2008-05-15			ENSG00000138756	ENSG00000138756			18041	protein-coding gene	gene with protein product							Standard	NM_017593		Approved	DKFZp434K0614, BIKe	uc003hlk.3	Q9NSY1	OTTHUMG00000160900	ENST00000335016.5:c.1140T>C	4.37:g.79786783T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O94791|Q4W5H2|Q8IYF2|Q8N2G7|Q8NHG9|Q9NTG8	Silent	SNP	ENST00000335016.5	37	CCDS47083.1	.	.	.	.	.	.	.	.	.	.	T	7.526	0.657778	0.14645	.	.	ENSG00000138756	ENST00000502613	.	.	.	5.26	-0.259	0.12971	.	.	.	.	.	T	0.56156	0.1966	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.50800	-0.8785	4	.	.	.	-3.7779	9.9454	0.41604	0.0:0.4316:0.0:0.5684	.	.	.	.	H	73	.	.	Y	+	1	0	BMP2K	80005807	0.986000	0.35501	0.891000	0.34965	0.665000	0.39181	0.684000	0.25364	0.047000	0.15862	-0.290000	0.09829	TAC		0.418	BMP2K-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_017593		C	79786783	T	C	79786783	2	2	570	1	0	0	0	0	0	0	0	1	1460	1509	53	3		3	BMP2K	4	79786783	Silent	SNP	T	TCGA-DW-7840-01A-11D-2136-08	3370900	79786783	111367493	28	33684										
DSPP	1834	hgsc.bcm.edu	37	chr4	88535323	88535324	+	In_Frame_Ins	INS	-	-	GGCAGTGACTCAAAAGGAGCAGAA													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	aatcaaaagataatggcaatINSggcagtgactcaaaaggagc							TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr4:88535323_88535324insGGCAGTGACTCAAAAGGAGCAGAA	ENST00000282478.7	+	4	1542_1543	c.1509_1510insGGCAGTGACTCAAAAGGAGCAGAA	c.(1510-1512)ggc>GGCAGTGACTCAAAAGGAGCAGAAggc	p.504_504G>GSDSKGAEG	RP11-742B18.1_ENST00000506480.1_RNA|DSPP_ENST00000399271.1_In_Frame_Ins_p.504_504G>GSDSKGAEG			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	504	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		ATAATGGCAATGGCAGTGACTC	0.381																																																0																																										SO:0001652	inframe_insertion	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.1510_1533dupGGCAGTGACTCAAAAGGAGCAGAA	4.37:g.88535323_88535324insGGCAGTGACTCAAAAGGAGCAGAA	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	In_Frame_Ins	INS	ENST00000282478.7	37	CCDS43248.1																																																																																				0.381	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		GGCAGTGACTCAAAAGGAGCAGAA	88535324	-	GGCAGTGACTCAAAAGGAGCAGAA	88535323	7	5	570	1	0	1	1	0	0	0	0	0	4784	1461	51	0	1523	0	DSPP	4	88535323	In_Frame_Ins	INS	-	TCGA-DW-7840-01A-11D-2136-08	8748540	88535323	102618953	29	33685										
CENPE	1062	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	104081805	104081805	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tttcctcagcctttctacttCagaaggtaaagatttcaatt	5	9	4	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr4:104081805C>T	ENST00000265148.3	-	21	2352	c.2263G>A	c.(2263-2265)Gaa>Aaa	p.E755K	CENPE_ENST00000380026.3_Missense_Mutation_p.E730K	NM_001813.2	NP_001804.2	Q02224	CENPE_HUMAN	centromere protein E, 312kDa	755					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|blood coagulation (GO:0007596)|kinetochore assembly (GO:0051382)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|mitotic cell cycle (GO:0000278)|mitotic chromosome movement towards spindle pole (GO:0007079)|mitotic metaphase plate congression (GO:0007080)|multicellular organismal development (GO:0007275)|positive regulation of protein kinase activity (GO:0045860)|regulation of mitotic metaphase/anaphase transition (GO:0030071)	chromosome (GO:0005694)|chromosome, centromeric region (GO:0000775)|condensed chromosome outer kinetochore (GO:0000940)|condensed chromosome, centromeric region (GO:0000779)|condensed nuclear chromosome kinetochore (GO:0000778)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinesin complex (GO:0005871)|kinetochore (GO:0000776)|membrane (GO:0016020)|microtubule (GO:0005874)|microtubule cytoskeleton (GO:0015630)|midbody (GO:0030496)|mitotic spindle midzone (GO:1990023)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|kinetochore binding (GO:0043515)|microtubule motor activity (GO:0003777)			NS(3)|breast(6)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(20)|lung(34)|ovary(5)|pancreas(1)|prostate(2)|skin(3)|stomach(5)|urinary_tract(3)	101				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		CTTTCTACTTCAGAAGGTAAA	0.318																																																0													65	69	67					4																	104081805		2201	4291	6492	SO:0001583	missense	1062			Z15005	CCDS34042.1, CCDS68768.1	4q24-q25	2013-11-05	2002-08-29			ENSG00000138778		"Kinesins", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	1856	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 61"	117143	"centromere protein E (312kD)"			7851898	Standard	NM_001286734		Approved	KIF10, PPP1R61	uc003hxb.1	Q02224		ENST00000265148.3:c.2263G>A	4.37:g.104081805C>T	ENSP00000265148:p.Glu755Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKY9|A8K2U7|Q4LE75	Missense_Mutation	SNP	ENST00000265148.3	37	CCDS34042.1	.	.	.	.	.	.	.	.	.	.	C	15.20	2.761920	0.49468	.	.	ENSG00000138778	ENST00000265148;ENST00000394771;ENST00000380026;ENST00000503705	T;T;T	0.71817	3.8;-0.6;3.8	4.58	4.58	0.56647	.	.	.	.	.	T	0.77631	0.4159	L	0.54323	1.7	0.51767	D	0.999931	D;D	0.76494	0.974;0.999	P;D	0.65987	0.726;0.94	T	0.78155	-0.2314	9	0.54805	T	0.06	.	10.406	0.44256	0.0:0.8981:0.0:0.1019	.	730;755	Q02224-3;Q02224	.;CENPE_HUMAN	K	755;755;730;755	ENSP00000265148:E755K;ENSP00000369365:E730K;ENSP00000423981:E755K	ENSP00000265148:E755K	E	-	1	0	CENPE	104301254	0.998000	0.40836	0.762000	0.31397	0.169000	0.22640	2.456000	0.44997	2.254000	0.74563	0.650000	0.86243	GAA		0.318	CENPE-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding				T	104081805	C	T	104081805	3	4	570	1	0	0	0	0	1	0	0	0	3232	835	29	2	5958	2	CENPE	4	104081805	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	15546482	104081805	87072471	30	33686										
LRBA	987	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	151821345	151821345	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	accaatgaattccgtggacaGataagtatagagcatcagtt	9	7	1	3			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr4:151821345G>T	ENST00000357115.3	-	14	2023	c.1780C>A	c.(1780-1782)Ctg>Atg	p.L594M	LRBA_ENST00000510413.1_Missense_Mutation_p.L594M|LRBA_ENST00000507224.1_Missense_Mutation_p.L594M|LRBA_ENST00000535741.1_Missense_Mutation_p.L594M	NM_006726.4	NP_006717.2	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and anchor containing	594						cytoplasmic membrane-bounded vesicle (GO:0016023)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|lysosome (GO:0005764)|membrane (GO:0016020)|plasma membrane (GO:0005886)				breast(6)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(20)|lung(32)|ovary(4)|prostate(6)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	91	all_hematologic(180;0.151)					TCCGTGGACAGATAAGTATAG	0.413																																																0													108	100	103					4																	151821345		2203	4300	6503	SO:0001583	missense	987			AF216648	CCDS3773.1, CCDS58928.1	4q13	2013-01-10		2001-10-05	ENSG00000198589	ENSG00000198589		"WD repeat domain containing"	1742	protein-coding gene	gene with protein product		606453		CDC4L		1505956, 11254716	Standard	NM_006726		Approved	BGL, LAB300, LBA	uc010ipj.3	P50851	OTTHUMG00000161443	ENST00000357115.3:c.1780C>A	4.37:g.151821345G>T	ENSP00000349629:p.Leu594Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5J4|Q4W5L6|Q8NFQ0|Q9H2U3|Q9H2U4	Missense_Mutation	SNP	ENST00000357115.3	37	CCDS3773.1	.	.	.	.	.	.	.	.	.	.	G	16.92	3.255995	0.59321	.	.	ENSG00000198589	ENST00000535741;ENST00000510413;ENST00000357115;ENST00000507224	T;T;T;T	0.23754	1.89;1.89;1.89;1.89	5.59	2.91	0.33838	Armadillo-type fold (1);	0.000000	0.52532	D	0.000071	T	0.22589	0.0545	L	0.58669	1.825	0.44380	D	0.997282	P;P;P	0.46277	0.802;0.776;0.875	B;B;B	0.40825	0.122;0.282;0.341	T	0.02352	-1.1172	10	0.54805	T	0.06	.	5.799	0.18403	0.3233:0.0:0.5523:0.1244	.	594;594;594	E9PEM5;P50851;P50851-2	.;LRBA_HUMAN;.	M	594	ENSP00000446299:L594M;ENSP00000421552:L594M;ENSP00000349629:L594M;ENSP00000422180:L594M	ENSP00000349629:L594M	L	-	1	2	LRBA	152040795	1.000000	0.71417	0.984000	0.44739	0.998000	0.95712	1.337000	0.33862	0.714000	0.32081	0.655000	0.94253	CTG		0.413	LRBA-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000364939.1			T	151821345	G	T	151821345	3	4	570	1	0	0	0	0	1	0	0	0	8938	933	33	4	6991	4	LRBA	4	151821345	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08	47739540	151821345	39332931	31	33687										
WWC2	80014	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	184182067	184182067	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gctttttgtctttcagcctcTctgccagcaccctgtccatg	7	15	3	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr4:184182067T>A	ENST00000403733.3	+	11	1490	c.1291T>A	c.(1291-1293)Tct>Act	p.S431T	WWC2_ENST00000513834.1_Missense_Mutation_p.S431T|WWC2_ENST00000504005.1_Missense_Mutation_p.S113T|WWC2_ENST00000378925.3_Missense_Mutation_p.S333T|WWC2_ENST00000448232.2_Missense_Mutation_p.S431T	NM_024949.5	NP_079225.5	Q6AWC2	WWC2_HUMAN	WW and C2 domain containing 2	431	Ser-rich.				negative regulation of hippo signaling (GO:0035331)|negative regulation of organ growth (GO:0046621)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)	cytosol (GO:0005829)	kinase binding (GO:0019900)|protein complex scaffold (GO:0032947)			NS(1)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(15)|ovary(2)|prostate(1)|stomach(1)|urinary_tract(3)	32		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)		TTTCAGCCTCTCTGCCAGCAC	0.507																																																0													29	29	29					4																	184182067		2203	4300	6503	SO:0001583	missense	80014			BC017957	CCDS34109.2	4q35.1	2010-08-05	2006-11-09		ENSG00000151718	ENSG00000151718		"WW, C2 and coiled-coil domain containing"	24148	protein-coding gene	gene with protein product			"WW, C2 and coiled-coil domain containing 2"			12477932	Standard	NM_024949		Approved	BOMB, FLJ22029	uc010irx.3	Q6AWC2	OTTHUMG00000150685	ENST00000403733.3:c.1291T>A	4.37:g.184182067T>A	ENSP00000384222:p.Ser431Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q32Q84|Q69YQ1|Q6AWB8|Q6ZSY9|Q6ZU09|Q7Z620|Q8TEB8|Q9H6P0	Missense_Mutation	SNP	ENST00000403733.3	37	CCDS34109.2	.	.	.	.	.	.	.	.	.	.	T	24.6	4.551586	0.86127	.	.	ENSG00000151718	ENST00000403733;ENST00000378925;ENST00000513834;ENST00000448232;ENST00000504005	T;T;T;T;T	0.45276	0.9;0.9;0.9;0.9;0.9	4.86	4.86	0.63082	.	0.000000	0.64402	D	0.000002	T	0.65207	0.2669	M	0.80183	2.485	0.58432	D	0.999996	D	0.69078	0.997	D	0.75020	0.985	T	0.68864	-0.5296	10	0.49607	T	0.09	-16.2476	14.628	0.68635	0.0:0.0:0.0:1.0	.	431	Q6AWC2	WWC2_HUMAN	T	431;333;431;431;113	ENSP00000384222:S431T;ENSP00000368205:S333T;ENSP00000425054:S431T;ENSP00000398577:S431T;ENSP00000427569:S113T	ENSP00000368205:S333T	S	+	1	0	WWC2	184419061	1.000000	0.71417	0.993000	0.49108	0.935000	0.57460	7.833000	0.86765	2.046000	0.60703	0.528000	0.53228	TCT		0.507	WWC2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319608.1	NM_024949		A	184182067	T	A	184182067	3	1	570	1	0	0	0	0	1	0	0	0	17424	1551	54	5	1333	5	WWC2	4	184182067	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	32360722	184182067	6972209	32	33688										
KIAA0947	23379	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	5461992	5461992	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	acaatcctgtagaattcaagAccactgcatcggtgttgcct	8	11	1	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr5:5461992A>T	ENST00000296564.7	+	13	2767	c.2545A>T	c.(2545-2547)Acc>Tcc	p.T849S		NM_015325.2	NP_056140.1	Q9Y2F5	ICE1_HUMAN		849					positive regulation of intracellular protein transport (GO:0090316)|positive regulation of protein complex assembly (GO:0031334)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|snRNA transcription from RNA polymerase II promoter (GO:0042795)|snRNA transcription from RNA polymerase III promoter (GO:0042796)	Cajal body (GO:0015030)|histone locus body (GO:0035363)|transcription elongation factor complex (GO:0008023)|transcriptionally active chromatin (GO:0035327)	protein homodimerization activity (GO:0042803)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(5)|lung(14)|ovary(1)|prostate(4)|upper_aerodigestive_tract(1)	35						AGAATTCAAGACCACTGCATC	0.413																																																0													92	87	89					5																	5461992		1888	4110	5998	SO:0001583	missense	23379																														ENST00000296564.7:c.2545A>T	5.37:g.5461992A>T	ENSP00000296564:p.Thr849Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DE1|Q6ZT40|Q7L587|Q7Z3A9|Q9NTH9	Missense_Mutation	SNP	ENST00000296564.7	37	CCDS47187.1	.	.	.	.	.	.	.	.	.	.	a	5.614	0.297970	0.10622	.	.	ENSG00000164151	ENST00000296564	T	0.09445	2.98	4.94	0.61	0.17580	.	0.400941	0.21055	N	0.080924	T	0.04407	0.0121	N	0.08118	0	0.09310	N	1	B	0.20780	0.048	B	0.14023	0.01	T	0.43750	-0.9372	10	0.20046	T	0.44	-7.0261	7.5819	0.27970	0.1086:0.5191:0.3723:0.0	.	849	Q9Y2F5	K0947_HUMAN	S	849	ENSP00000296564:T849S	ENSP00000296564:T849S	T	+	1	0	KIAA0947	5514992	0.000000	0.05858	0.000000	0.03702	0.233000	0.25261	0.042000	0.13949	-0.216000	0.10048	0.378000	0.23410	ACC		0.413	KIAA0947-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365575.1			T	5461992	A	T	5461992	3	4	570	1	0	0	0	0	1	0	0	0	8209	275	10	5	2595	5	KIAA0947	5	5461992	Missense_Mutation	SNP	A	TCGA-DW-7840-01A-11D-2136-08		5461992	175453268	33	33689										
ITGA1	3672	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	52211309	52211309	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cacagcgtattccatcaggtGgggatggtaagacactgaaa	12	8	1	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr5:52211309G>T	ENST00000282588.6	+	15	2331	c.1873G>T	c.(1873-1875)Ggg>Tgg	p.G625W		NM_181501.1	NP_852478.1	P56199	ITA1_HUMAN	integrin, alpha 1	625					activation of MAPK activity (GO:0000187)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell-matrix adhesion (GO:0007160)|cellular extravasation (GO:0045123)|extracellular matrix organization (GO:0030198)|integrin-mediated signaling pathway (GO:0007229)|muscle contraction (GO:0006936)|negative regulation of cell proliferation (GO:0008285)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|neutrophil chemotaxis (GO:0030593)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of phosphoprotein phosphatase activity (GO:0032516)|vasodilation (GO:0042311)	acrosomal vesicle (GO:0001669)|basal part of cell (GO:0045178)|cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integrin alpha1-beta1 complex (GO:0034665)|integrin complex (GO:0008305)|membrane (GO:0016020)|membrane raft (GO:0045121)|neuron projection (GO:0043005)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)	collagen binding (GO:0005518)|collagen binding involved in cell-matrix adhesion (GO:0098639)|metal ion binding (GO:0046872)|protein phosphatase binding (GO:0019903)			NS(1)|breast(3)|central_nervous_system(4)|endometrium(3)|kidney(4)|large_intestine(6)|liver(2)|lung(19)|ovary(2)|skin(2)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	51		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				TCCATCAGGTGGGGATGGTAA	0.388																																																0													146	147	147					5																	52211309		2203	4300	6503	SO:0001583	missense	3672			X68742	CCDS3955.1	5q11.1	2010-03-23			ENSG00000213949	ENSG00000213949		"CD molecules", "Integrins"	6134	protein-coding gene	gene with protein product		192968				8428973, 11937138	Standard	NM_181501		Approved	VLA1, CD49a	uc003jou.3	P56199	OTTHUMG00000131163	ENST00000282588.6:c.1873G>T	5.37:g.52211309G>T	ENSP00000282588:p.Gly625Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNU0	Missense_Mutation	SNP	ENST00000282588.6	37	CCDS3955.1	.	.	.	.	.	.	.	.	.	.	G	25.8	4.672050	0.88348	.	.	ENSG00000213949	ENST00000282588	T	0.56103	0.48	5.53	5.53	0.82687	.	0.053424	0.85682	D	0.000000	T	0.69557	0.3124	L	0.56769	1.78	0.80722	D	1	D	0.71674	0.998	D	0.68192	0.956	T	0.65693	-0.6106	10	0.38643	T	0.18	.	19.8228	0.96604	0.0:0.0:1.0:0.0	.	625	P56199	ITA1_HUMAN	W	625	ENSP00000282588:G625W	ENSP00000282588:G625W	G	+	1	0	ITGA1	52247066	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	9.066000	0.93949	2.759000	0.94783	0.650000	0.86243	GGG		0.388	ITGA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253855.3	NM_181501		T	52211309	G	T	52211309	3	4	570	1	0	0	0	0	1	0	0	0	7879	1348	47	4	1931	4	ITGA1	5	52211309	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08	46749317	52211309	128703951	34	33690										
LHFPL2	10184	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	77784725	77784725	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	attgtctcttccaaactaaaGgaggcagatcagatttttcc	7	9	2	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr5:77784725G>A	ENST00000515007.2	-	3	992	c.682C>T	c.(682-684)Ctt>Ttt	p.L228F	LHFPL2_ENST00000380345.2_Missense_Mutation_p.L228F			Q6ZUX7	LHPL2_HUMAN	lipoma HMGIC fusion partner-like 2	228						integral component of membrane (GO:0016021)				endometrium(1)|large_intestine(3)|lung(1)|upper_aerodigestive_tract(1)	6		all_lung(232;0.000409)|Lung NSC(167;0.00108)|Ovarian(174;0.0107)|Prostate(461;0.218)		OV - Ovarian serous cystadenocarcinoma(54;6.48e-46)|Epithelial(54;8.43e-42)|all cancers(79;1.42e-36)		CCAAACTAAAGGAGGCAGATC	0.408																																																0													128	127	127					5																	77784725		2203	4300	6503	SO:0001583	missense	10184			D86961	CCDS4042.1	5q13	2008-02-05			ENSG00000145685	ENSG00000145685			6588	protein-coding gene	gene with protein product		609718				10329012	Standard	NM_005779		Approved	KIAA0206	uc003kfo.3	Q6ZUX7	OTTHUMG00000107579	ENST00000515007.2:c.682C>T	5.37:g.77784725G>A	ENSP00000425906:p.Leu228Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMQ6|Q7Z5P0|Q92605	Missense_Mutation	SNP	ENST00000515007.2	37	CCDS4042.1	.	.	.	.	.	.	.	.	.	.	G	29.7	5.026712	0.93518	.	.	ENSG00000145685	ENST00000380345;ENST00000515007	T;T	0.78924	-1.22;-1.22	5.94	5.94	0.96194	.	0.055945	0.64402	D	0.000001	D	0.84115	0.5401	M	0.72118	2.19	0.80722	D	1	P	0.50272	0.933	P	0.51193	0.662	D	0.85187	0.1007	10	0.72032	D	0.01	.	19.3618	0.94442	0.0:0.0:1.0:0.0	.	228	Q6ZUX7	LHPL2_HUMAN	F	228	ENSP00000369702:L228F;ENSP00000425906:L228F	ENSP00000369702:L228F	L	-	1	0	LHFPL2	77820481	1.000000	0.71417	1.000000	0.80357	0.928000	0.56348	9.476000	0.97823	2.820000	0.97059	0.650000	0.86243	CTT		0.408	LHFPL2-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369098.2	NM_005779		A	77784725	G	A	77784725	3	1	570	1	0	0	0	0	1	0	0	0	8772	1000	35	2	8	2	LHFPL2	5	77784725	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08	25573416	77784725	103130535	35	33691										
SLCO6A1	133482	hgsc.bcm.edu;broad.mit.edu	37	chr5	101735268	101735268	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tatatacataccgcgtcatgGccaagacgattggtacacca	8	11	1	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr5:101735268G>A	ENST00000506729.1	-	10	1976	c.1805C>T	c.(1804-1806)gCc>gTc	p.A602V	SLCO6A1_ENST00000379810.1_Missense_Mutation_p.A349V|SLCO6A1_ENST00000389019.3_Missense_Mutation_p.A540V|SLCO6A1_ENST00000513675.1_Missense_Mutation_p.A349V|SLCO6A1_ENST00000379807.3_Missense_Mutation_p.A602V			Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family, member 6A1	602						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(17)|lung(22)|ovary(3)|prostate(4)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	60		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)		CCGCGTCATGGCCAAGACGAT	0.284																																																0													66	63	64					5																	101735268		2203	4300	6503	SO:0001583	missense	133482			AF505657	CCDS34206.1, CCDS75282.1	5q21.2	2013-05-22			ENSG00000205359	ENSG00000205359		"Solute carriers"	23613	protein-coding gene	gene with protein product	"cancer/testis antigen 48"	613365					Standard	XM_005271874		Approved	OATP6A1, OATPY, MGC26949, CT48	uc003knp.3	Q86UG4	OTTHUMG00000162759	ENST00000506729.1:c.1805C>T	5.37:g.101735268G>A	ENSP00000421339:p.Ala602Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHC1|Q6ZMY5|Q86UV2|Q8IYU5	Missense_Mutation	SNP	ENST00000506729.1	37	CCDS34206.1	.	.	.	.	.	.	.	.	.	.	G	10.67	1.414291	0.25465	.	.	ENSG00000205359	ENST00000506729;ENST00000379807;ENST00000389019;ENST00000513675;ENST00000379810	T;T;T;T;T	0.34275	1.37;1.37;1.37;1.37;1.37	5.42	0.231	0.15377	Major facilitator superfamily domain, general substrate transporter (1);	1.303550	0.05317	N	0.525853	T	0.30135	0.0755	L	0.43152	1.355	0.09310	N	1	B;B;B	0.30361	0.135;0.277;0.1	B;B;B	0.39935	0.054;0.314;0.083	T	0.24548	-1.0157	10	0.02654	T	1	.	4.3381	0.11095	0.4699:0.195:0.3351:0.0	.	540;349;602	Q86UG4-2;C9J020;Q86UG4	.;.;SO6A1_HUMAN	V	602;602;540;349;349	ENSP00000421339:A602V;ENSP00000369135:A602V;ENSP00000373671:A540V;ENSP00000421990:A349V;ENSP00000369138:A349V	ENSP00000369135:A602V	A	-	2	0	SLCO6A1	101763167	0.013000	0.17824	0.000000	0.03702	0.000000	0.00434	-0.072000	0.11486	-0.156000	0.11079	-0.150000	0.13652	GCC		0.284	SLCO6A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370335.1	NM_173488		A	101735268	G	A	101735268	3	1	570	1	0	0	0	0	1	0	0	0	14745	1203	42	2	370	2	SLCO6A1	5	101735268	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08	23950543	101735268	79179992	36	33692										
PCDHB14	56122	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	140605207	140605207	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tcggtgctcctgttcgtggcGgtgcggctgtgcaggaggag	19	9	0	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr5:140605207G>C	ENST00000239449.4	+	1	2130	c.2130G>C	c.(2128-2130)gcG>gcC	p.A710A	PCDHB14_ENST00000515856.2_Silent_p.A557A	NM_018934.2	NP_061757.1	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14	710					calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(21)|ovary(2)|prostate(3)|skin(6)|urinary_tract(1)	49			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGTTCGTGGCGGTGCGGCTGT	0.701																																					Ovarian(141;50 1831 27899 33809 37648)											0													68	84	79					5																	140605207		2184	4245	6429	SO:0001819	synonymous_variant	56122			AF152493	CCDS4256.1	5q31	2010-01-26			ENSG00000120327	ENSG00000120327		"Cadherins / Protocadherins : Clustered"	8685	other	protocadherin		606340				10380929	Standard	NM_018934		Approved	PCDH-BETA14	uc003ljb.3	Q9Y5E9	OTTHUMG00000129619	ENST00000239449.4:c.2130G>C	5.37:g.140605207G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DPE2|Q4FZA4|Q4KN11	Silent	SNP	ENST00000239449.4	37	CCDS4256.1																																																																																				0.701	PCDHB14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251814.2	NM_018934		C	140605207	G	C	140605207	2	2	570	1	0	0	0	0	0	0	0	1	11546	1103	39	4		4	PCDHB14	5	140605207	Silent	SNP	G	TCGA-DW-7840-01A-11D-2136-08	38869939	140605207	40310053	37	33693										
SOX30	11063	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	157078648	157078648	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tcgaggccccactgactgatCcaggctgggccccagcttct	11	16	1	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr5:157078648C>T	ENST00000265007.6	-	1	780	c.439G>A	c.(439-441)Gat>Aat	p.D147N	SOX30_ENST00000519442.1_Intron|SOX30_ENST00000311371.5_Missense_Mutation_p.D147N	NM_178424.1	NP_848511.1	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30	147					regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|response to corticosteroid (GO:0031960)|spermatogenesis (GO:0007283)|transcription from RNA polymerase II promoter (GO:0006366)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(9)|ovary(1)|pancreas(1)|prostate(1)|urinary_tract(1)	23	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)			ACTGACTGATCCAGGCTGGGC	0.687																																					Esophageal Squamous(31;525 799 19355 21125 41744)											0													13	15	14					5																	157078648		2180	4260	6440	SO:0001583	missense	11063			AB022083	CCDS4339.1, CCDS4340.1	5q33	2010-10-21			ENSG00000039600	ENSG00000039600		"SRY (sex determining region Y)-boxes"	30635	protein-coding gene	gene with protein product		606698				15019997, 11678506	Standard	NM_178424		Approved		uc003lxb.1	O94993	OTTHUMG00000130247	ENST00000265007.6:c.439G>A	5.37:g.157078648C>T	ENSP00000265007:p.Asp147Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O94995|Q8IYX6	Missense_Mutation	SNP	ENST00000265007.6	37	CCDS4339.1	.	.	.	.	.	.	.	.	.	.	C	8.733	0.917147	0.17982	.	.	ENSG00000039600	ENST00000311371;ENST00000265007	D;D	0.98221	-4.8;-4.41	4.62	4.62	0.57501	.	0.851364	0.09951	N	0.734643	D	0.94503	0.8230	N	0.24115	0.695	0.20196	N	0.999926	B;B	0.29037	0.231;0.039	B;B	0.27715	0.082;0.017	D	0.88993	0.3416	10	0.27785	T	0.31	.	7.1995	0.25873	0.0:0.6448:0.2614:0.0938	.	147;147	O94993-2;O94993	.;SOX30_HUMAN	N	147	ENSP00000309343:D147N;ENSP00000265007:D147N	ENSP00000265007:D147N	D	-	1	0	SOX30	157011226	0.125000	0.22332	0.395000	0.26283	0.028000	0.11728	3.076000	0.50081	2.098000	0.63641	0.305000	0.20034	GAT		0.687	SOX30-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252571.2	NM_007017		T	157078648	C	T	157078648	3	4	570	1	0	0	0	0	1	0	0	0	14965	855	30	2	1842	2	SOX30	5	157078648	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	16473441	157078648	23836612	38	33694										
NKX2-5	1482	hgsc.bcm.edu	37	chr5	172659920	172659920	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cgggcaggcggcggcggcggCgggggcagccccaccagctc	20	16	0	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr5:172659920C>G	ENST00000329198.4	-	2	900	c.627G>C	c.(625-627)ccG>ccC	p.P209P	NKX2-5_ENST00000424406.2_3'UTR|NKX2-5_ENST00000521848.1_3'UTR	NM_001166175.1|NM_001166176.1|NM_004387.3	NP_001159647.1|NP_001159648.1|NP_004378.1	P52952	NKX25_HUMAN	NK2 homeobox 5	209	Ala/Pro-rich.				adult heart development (GO:0007512)|apoptotic process involved in heart morphogenesis (GO:0003278)|atrial cardiac muscle cell development (GO:0055014)|atrial septum morphogenesis (GO:0060413)|atrioventricular node cell development (GO:0060928)|atrioventricular node cell fate commitment (GO:0060929)|BMP signaling pathway (GO:0030509)|bundle of His development (GO:0003166)|canonical Wnt signaling pathway (GO:0060070)|cardiac conduction system development (GO:0003161)|cardiac muscle cell differentiation (GO:0055007)|cardiac muscle cell proliferation (GO:0060038)|cardiac muscle contraction (GO:0060048)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac ventricle formation (GO:0003211)|cell differentiation (GO:0030154)|embryonic heart tube development (GO:0035050)|embryonic heart tube left/right pattern formation (GO:0060971)|heart looping (GO:0001947)|heart morphogenesis (GO:0003007)|heart trabecula formation (GO:0060347)|hemopoiesis (GO:0030097)|negative regulation of apoptotic process (GO:0043066)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cardiac muscle cell apoptotic process (GO:0010667)|negative regulation of myotube differentiation (GO:0010832)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|outflow tract septum morphogenesis (GO:0003148)|pharyngeal system development (GO:0060037)|positive regulation of cardioblast differentiation (GO:0051891)|positive regulation of cell proliferation (GO:0008284)|positive regulation of heart contraction (GO:0045823)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of sodium ion transport (GO:0010765)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription initiation from RNA polymerase II promoter (GO:0060261)|positive regulation of transcription via serum response element binding (GO:0010735)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of voltage-gated calcium channel activity (GO:1901387)|proepicardium development (GO:0003342)|pulmonary myocardium development (GO:0003350)|Purkinje myocyte differentiation (GO:0003168)|regulation of cardiac muscle cell proliferation (GO:0060043)|regulation of cardiac muscle contraction (GO:0055117)|right ventricular cardiac muscle tissue morphogenesis (GO:0003221)|sarcomere organization (GO:0045214)|septum secundum development (GO:0003285)|spleen development (GO:0048536)|thyroid gland development (GO:0030878)|vasculogenesis (GO:0001570)|ventricular cardiac muscle cell development (GO:0055015)|ventricular cardiac myofibril assembly (GO:0055005)|ventricular septum morphogenesis (GO:0060412)|ventricular trabecula myocardium morphogenesis (GO:0003222)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|protein heterodimerization activity (GO:0046982)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II transcription cofactor activity (GO:0001104)|RNA polymerase II transcription factor binding transcription factor activity involved in positive regulation of transcription (GO:0001190)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|serum response element binding (GO:0010736)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|central_nervous_system(1)|large_intestine(2)|lung(7)|prostate(1)	12	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			gcggcggcggcgggggcAGCC	0.701																																					Esophageal Squamous(72;810 1219 2387 13420 44943)											0													5	6	6					5																	172659920		1935	3790	5725	SO:0001819	synonymous_variant	1482			AB021133	CCDS4387.1, CCDS54949.1, CCDS54950.1	5q34	2014-09-17	2011-06-01	2002-10-04	ENSG00000183072	ENSG00000183072		"Homeoboxes / ANTP class : NKL subclass"	2488	protein-coding gene	gene with protein product	"tinman paralog (Drosophila)"	600584	"cardiac-specific homeo box", "NK2 transcription factor related, locus 5 (Drosophila)"	CSX, NKX2E		7665173, 8900537	Standard	NM_004387		Approved	CSX1, NKX2.5, NKX4-1	uc003mcm.2	P52952	OTTHUMG00000130522	ENST00000329198.4:c.627G>C	5.37:g.172659920C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K3K0|B4DNB6|E9PBU6	Silent	SNP	ENST00000329198.4	37	CCDS4387.1																																																																																				0.701	NKX2-5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252942.2			G	172659920	C	G	172659920	2	3	570	1	0	0	0	0	0	0	0	1	10460	755	27	4		4	NKX2-5	5	172659920	Silent	SNP	C	TCGA-DW-7840-01A-11D-2136-08	15581272	172659920	8255340	39	33695										
C6orf105	84830	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	11723657	11723657	+	Frame_Shift_Del	DEL	C	C	-													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gtagctgagagagaagaaagCtgctagacccaagaggctga							TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr6:11723657delC	ENST00000414691.3	-	5	993	c.583delG	c.(583-585)gctfs	p.A195fs	ADTRP_ENST00000379413.2_Frame_Shift_Del_p.A195fs|ADTRP_ENST00000514824.1_5'UTR|ADTRP_ENST00000229583.5_Frame_Shift_Del_p.A213fs	NM_032744.3	NP_116133.1	Q96IZ2	ADTRP_HUMAN	androgen-dependent TFPI-regulating protein	195						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)											GAGAAGAAAGCTGCTAGACCC	0.483																																																0													209	208	209					6																	11723657		2203	4300	6503	SO:0001589	frameshift_variant	84830			AJ420520	CCDS4521.1, CCDS47374.1	6p24.1	2012-01-30	2012-01-27	2012-01-27	ENSG00000111863	ENSG00000111863			21214	protein-coding gene	gene with protein product	"androgen-induced 1-like"	614348	"chromosome 6 open reading frame 105"	C6orf105		21868574	Standard	NM_032744		Approved	dJ413H6.1, AIG1L	uc011dip.2	Q96IZ2	OTTHUMG00000014260	ENST00000414691.3:c.583delG	6.37:g.11723657delC	ENSP00000404416:p.Ala195fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7T9|B4DV39|Q5THW1	Frame_Shift_Del	DEL	ENST00000414691.3	37	CCDS4521.1																																																																																				0.483	ADTRP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039864.3	NM_032744		-	11723657	C	-	11723657	7	5	570	1	0	1	0	1	0	0	0	0	2320	797	28	0	117	0	C6orf105	6	11723657	Frame_Shift_Del	DEL	C	TCGA-DW-7840-01A-11D-2136-08		11723657	159391410	40	33696										
NOTCH4	4855	hgsc.bcm.edu	37	chr6	32191691	32191691	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	agcagcagcagcagcagcagTgaagggggctgcattccaca	14	11	0	1	rs372487717		TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr6:32191691T>C	ENST00000375023.3	-	1	153	c.15A>G	c.(13-15)tcA>tcG	p.S5S		NM_004557.3	NP_004548.3	Q99466	NOTC4_HUMAN	notch 4	5					cell differentiation (GO:0030154)|cell fate determination (GO:0001709)|embryo development (GO:0009790)|endothelial cell morphogenesis (GO:0001886)|gene expression (GO:0010467)|hemopoiesis (GO:0030097)|mammary gland development (GO:0030879)|morphogenesis of a branching structure (GO:0001763)|negative regulation of cell differentiation (GO:0045596)|negative regulation of endothelial cell differentiation (GO:0045602)|Notch receptor processing (GO:0007220)|Notch signaling pathway (GO:0007219)|patterning of blood vessels (GO:0001569)|positive regulation of transcription of Notch receptor target (GO:0007221)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cell surface (GO:0009986)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of plasma membrane (GO:0005887)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|protein heterodimerization activity (GO:0046982)|receptor activity (GO:0004872)			NS(1)|autonomic_ganglia(1)|breast(4)|central_nervous_system(4)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(47)|ovary(5)|prostate(4)|skin(10)|upper_aerodigestive_tract(1)|urinary_tract(1)	100						gcagcagcagTGAAGGGGGCT	0.642																																																0													53	39	44					6																	32191691		1511	2708	4219	SO:0001819	synonymous_variant	4855				CCDS34420.1	6p21.3	2013-01-10	2010-06-24		ENSG00000204301	ENSG00000204301		"Ankyrin repeat domain containing"	7884	protein-coding gene	gene with protein product		164951	"Notch (Drosophila) homolog 4", "Notch homolog 4 (Drosophila)"	INT3		7835890	Standard	NM_004557		Approved		uc003obb.3	Q99466	OTTHUMG00000031044	ENST00000375023.3:c.15A>G	6.37:g.32191691T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B0V183|B0V1X5|O00306|Q5SSY7|Q99458|Q99940|Q9H3S8|Q9UII9|Q9UIJ0	Silent	SNP	ENST00000375023.3	37	CCDS34420.1																																																																																				0.642	NOTCH4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076045.2			C	32191691	T	C	32191691	2	2	570	1	0	0	0	0	0	0	0	1	10558	1683	59	3		3	NOTCH4	6	32191691	Silent	SNP	T	TCGA-DW-7840-01A-11D-2136-08	20468034	32191691	138923376	41	33697										
BRD2	6046	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	32945538	32945538	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ttgtgcctctttgtaggatgTatttgagttccgttatgcca	10	7	1	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr6:32945538T>C	ENST00000374825.4	+	9	3035	c.1334T>C	c.(1333-1335)gTa>gCa	p.V445A	BRD2_ENST00000395289.2_Missense_Mutation_p.V445A|BRD2_ENST00000443797.2_Missense_Mutation_p.V325A|BRD2_ENST00000395287.1_Missense_Mutation_p.V445A|BRD2_ENST00000374831.4_Missense_Mutation_p.V445A|BRD2_ENST00000449085.2_Missense_Mutation_p.V398A	NM_005104.3	NP_005095.1	P25440	BRD2_HUMAN	bromodomain containing 2	445					chromatin modification (GO:0016568)|nucleosome assembly (GO:0006334)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|lysine-acetylated histone binding (GO:0070577)			central_nervous_system(3)|stomach(2)	5						TTGTAGGATGTATTTGAGTTC	0.463																																																0													118	132	127					6																	32945538		1509	2709	4218	SO:0001583	missense	6046			X96670	CCDS4762.1, CCDS56420.1, CCDS56421.1	6p21.3	2010-12-23	2002-01-14		ENSG00000204256	ENSG00000204256			1103	protein-coding gene	gene with protein product		601540	"bromodomain-containing 2"			1352711, 8781126	Standard	NM_005104		Approved	KIAA9001, RING3, D6S113E, NAT, FSRG1	uc021ywf.1	P25440	OTTHUMG00000031241	ENST00000374825.4:c.1334T>C	6.37:g.32945538T>C	ENSP00000363958:p.Val445Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A2AAU0|B0S7P0|B1AZT1|O00699|O00700|Q15310|Q5STC9|Q63HQ9|Q658Y7|Q6P3U2|Q969U4	Missense_Mutation	SNP	ENST00000374825.4	37	CCDS4762.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	22.5|22.5	4.302909|4.302909	0.81136|0.81136	.|.	.|.	ENSG00000204256|ENSG00000204256	ENST00000374825;ENST00000374831;ENST00000395289;ENST00000443797;ENST00000395287;ENST00000449085|ENST00000449025	T;T;T;T;T;T|.	0.19250|.	2.16;2.16;2.16;2.16;2.16;2.16|.	5.63|5.63	5.63|5.63	0.86233|0.86233	Bromodomain (3);|.	0.000000|.	0.45606|.	D|.	0.000350|.	T|T	0.76814|0.76814	0.4040|0.4040	M|M	0.89785|0.89785	3.06|3.06	0.80722|0.80722	D|D	1|1	D;D|.	0.76494|.	0.999;0.997|.	D;D|.	0.70716|.	0.97;0.97|.	T|T	0.81758|0.81758	-0.0786|-0.0786	10|5	0.87932|.	D|.	0|.	-14.8434|-14.8434	13.8401|13.8401	0.63432|0.63432	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	445;445|.	A2AAU0;P25440|.	.;BRD2_HUMAN|.	A|H	445;445;445;325;445;398|451	ENSP00000363958:V445A;ENSP00000363964:V445A;ENSP00000378704:V445A;ENSP00000413495:V325A;ENSP00000378702:V445A;ENSP00000409145:V398A|.	ENSP00000363958:V445A|.	V|Y	+|+	2|1	0|0	BRD2|BRD2	33053516|33053516	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.982000|0.982000	0.71751|0.71751	7.753000|7.753000	0.85153|0.85153	2.363000|2.363000	0.80096|0.80096	0.523000|0.523000	0.50628|0.50628	GTA|TAT		0.463	BRD2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000076503.2			C	32945538	T	C	32945538	3	2	570	1	0	0	0	0	1	0	0	0	1504	1638	57	3	1364	3	BRD2	6	32945538	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	753847	32945538	138169529	42	33698										
SLC22A7	10864	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	43267444	43267444	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	catctgcagcctccgtcagcTatgtaatgtttgccatcacc	7	14	3	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr6:43267444T>C	ENST00000372585.5	+	4	678	c.583T>C	c.(583-585)Tat>Cat	p.Y195H	SLC22A7_ENST00000487175.1_3'UTR|SLC22A7_ENST00000372574.3_Missense_Mutation_p.Y193H|SLC22A7_ENST00000372589.3_Missense_Mutation_p.Y193H	NM_153320.2	NP_696961.2	Q9Y694	S22A7_HUMAN	solute carrier family 22 (organic anion transporter), member 7	195					organic anion transport (GO:0015711)|response to stilbenoid (GO:0035634)|transmembrane transport (GO:0055085)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	sodium-independent organic anion transmembrane transporter activity (GO:0015347)			NS(2)|endometrium(1)|kidney(1)|large_intestine(8)|lung(10)|prostate(1)|skin(3)	26			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00998)|OV - Ovarian serous cystadenocarcinoma(102;0.0305)		Acetylsalicylic acid(DB00945)|Allopurinol(DB00437)|Aminohippurate(DB00345)|Bumetanide(DB00887)|Cefalotin(DB00456)|Cefamandole(DB01326)|Cefoperazone(DB01329)|Cefotaxime(DB00493)|Cimetidine(DB00501)|Clarithromycin(DB01211)|Dinoprost Tromethamine(DB01160)|Dinoprostone(DB00917)|Docetaxel(DB01248)|Enalapril(DB00584)|Erythromycin(DB00199)|Fluorouracil(DB00544)|Ganciclovir(DB01004)|Glyburide(DB01016)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Methotrexate(DB00563)|Minocycline(DB01017)|Oxtriphylline(DB01303)|Oxytetracycline(DB00595)|Pravastatin(DB00175)|Probenecid(DB01032)|Rifampicin(DB01045)|Salicylic acid(DB00936)|Testosterone(DB00624)|Tetracycline(DB00759)|Theophylline(DB00277)|Valproic Acid(DB00313)|Zalcitabine(DB00943)|Zidovudine(DB00495)	CTCCGTCAGCTATGTAATGTT	0.602																																																0													91	89	89					6																	43267444		2203	4300	6503	SO:0001583	missense	10864			AF097518	CCDS4892.1, CCDS4893.2	6p21.1	2013-05-22			ENSG00000137204	ENSG00000137204		"Solute carriers"	10971	protein-coding gene	gene with protein product		604995				9650585, 10773670	Standard	XM_006714970		Approved	NLT, OAT2	uc003out.3	Q9Y694	OTTHUMG00000014726	ENST00000372585.5:c.583T>C	6.37:g.43267444T>C	ENSP00000361666:p.Tyr195His	Somatic		WXS	Illumina HiSeq	Phase_I	B2CZX6|Q5T046|Q5T048|Q5T050|Q9H2W5	Missense_Mutation	SNP	ENST00000372585.5	37	CCDS4893.2	.	.	.	.	.	.	.	.	.	.	T	26.8	4.776980	0.90195	.	.	ENSG00000137204	ENST00000451757;ENST00000449231;ENST00000372589;ENST00000372585;ENST00000372574	T;T;T;T;T	0.58210	0.35;0.35;0.35;0.35;0.35	5.56	5.56	0.83823	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.068530	0.64402	D	0.000011	T	0.73273	0.3566	M	0.92077	3.27	0.45295	D	0.998297	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.80764	0.994;0.99;0.986	T	0.80795	-0.1223	10	0.72032	D	0.01	.	13.2267	0.59919	0.0:0.0:0.0:1.0	.	195;193;193	Q9Y694;Q9Y694-2;Q9Y694-3	S22A7_HUMAN;.;.	H	64;254;193;195;193	ENSP00000416052:Y64H;ENSP00000411818:Y254H;ENSP00000361670:Y193H;ENSP00000361666:Y195H;ENSP00000361655:Y193H	ENSP00000361655:Y193H	Y	+	1	0	SLC22A7	43375422	1.000000	0.71417	0.993000	0.49108	0.986000	0.74619	4.783000	0.62403	2.109000	0.64355	0.379000	0.24179	TAT		0.602	SLC22A7-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000040588.1			C	43267444	T	C	43267444	3	2	570	1	0	0	0	0	1	0	0	0	14472	1522	53	3	593	3	SLC22A7	6	43267444	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	10321906	43267444	127847623	43	33699										
EPHA7	2045	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	93969151	93969151	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tggacagctctatttgggtcCtcataggtttcagggtcaat	11	8	4	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr6:93969151C>A	ENST00000369303.4	-	10	2029	c.1845G>T	c.(1843-1845)gaG>gaT	p.E615D		NM_004440.3	NP_004431.1	Q15375	EPHA7_HUMAN	EPH receptor A7	615					brain development (GO:0007420)|branching morphogenesis of a nerve (GO:0048755)|ephrin receptor signaling pathway (GO:0048013)|negative chemotaxis (GO:0050919)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphorylation (GO:0016310)|positive regulation of neuron apoptotic process (GO:0043525)|regulation of cell-cell adhesion (GO:0022407)|regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043281)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of peptidyl-tyrosine phosphorylation (GO:0050730)|regulation of protein autophosphorylation (GO:0031952)|retinal ganglion cell axon guidance (GO:0031290)	dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|neuromuscular junction (GO:0031594)|neuronal cell body (GO:0043025)|postsynaptic membrane (GO:0045211)	ATP binding (GO:0005524)|axon guidance receptor activity (GO:0008046)|chemorepellent activity (GO:0045499)|GPI-linked ephrin receptor activity (GO:0005004)|protein tyrosine kinase activity (GO:0004713)			NS(1)|breast(1)|central_nervous_system(7)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(16)|lung(43)|ovary(8)|pancreas(1)|prostate(1)|skin(8)|stomach(1)|upper_aerodigestive_tract(13)|urinary_tract(1)	112		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)		TATTTGGGTCCTCATAGGTTT	0.428																																																0													221	199	206					6																	93969151		2203	4300	6503	SO:0001583	missense	2045			L36642	CCDS5031.1, CCDS75494.1	6q16.3	2013-02-11	2004-10-28		ENSG00000135333	ENSG00000135333		"EPH receptors", "Sterile alpha motif (SAM) domain containing", "Fibronectin type III domain containing"	3390	protein-coding gene	gene with protein product		602190	"EphA7"			9267020	Standard	NM_004440		Approved	Hek11	uc003poe.3	Q15375	OTTHUMG00000015228	ENST00000369303.4:c.1845G>T	6.37:g.93969151C>A	ENSP00000358309:p.Glu615Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A0AUX7|B2R8W1|B7ZLJ9|B7ZLK0|Q59G40|Q5VTU0|Q8N368|Q9H124	Missense_Mutation	SNP	ENST00000369303.4	37	CCDS5031.1	.	.	.	.	.	.	.	.	.	.	C	11.38	1.622257	0.28889	.	.	ENSG00000135333	ENST00000369303	T	0.22336	1.96	5.9	5.9	0.94986	Protein kinase-like domain (1);	0.000000	0.85682	D	0.000000	T	0.37320	0.0999	M	0.91972	3.26	0.80722	D	1	B;B;B	0.33755	0.424;0.002;0.001	P;B;B	0.46419	0.516;0.002;0.001	T	0.26538	-1.0100	10	0.59425	D	0.04	.	14.4356	0.67279	0.0:0.93:0.0:0.07	.	611;610;615	Q15375-4;Q15375-2;Q15375	.;.;EPHA7_HUMAN	D	615	ENSP00000358309:E615D	ENSP00000358309:E615D	E	-	3	2	EPHA7	94025872	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.753000	0.38359	2.786000	0.95864	0.563000	0.77884	GAG		0.428	EPHA7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041545.1			A	93969151	C	A	93969151	3	1	570	1	0	0	0	0	1	0	0	0	5174	680	24	4	1183	4	EPHA7	6	93969151	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	50701707	93969151	77145916	44	33700										
AIM1	202	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	106967843	106967843	+	Frame_Shift_Del	DEL	T	T	-													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cctgtgtctcgtcagaacaaTgagaaaatgccacttttaga					rs551716379		TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr6:106967843delT	ENST00000369066.3	+	2	2023	c.1536delT	c.(1534-1536)aatfs	p.N512fs		NM_001624.2	NP_001615	Q9UMX9	S45A2_HUMAN	absent in melanoma 1	0					developmental pigmentation (GO:0048066)|melanin biosynthetic process (GO:0042438)|response to stimulus (GO:0050896)|visual perception (GO:0007601)	integral component of membrane (GO:0016021)				breast(8)|central_nervous_system(1)|cervix(2)|endometrium(6)|kidney(7)|large_intestine(13)|lung(20)|ovary(5)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	69	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		GTCAGAACAATGAGAAAATGC	0.453																																																0													82	90	87					6																	106967843		2203	4300	6503	SO:0001589	frameshift_variant	202			U83115	CCDS34506.1	6q21	2014-01-29			ENSG00000112297	ENSG00000112297			356	protein-coding gene	gene with protein product	"suppression of tumorigenicity 4", "beta-gamma crystallin domain containing 1"	601797	"suppression of tumorigenicity 4 (malignant melanoma)"	ST4		1680551, 12693952	Standard	NM_001624		Approved	CRYBG1	uc003prh.3	Q9Y4K1	OTTHUMG00000015302	ENST00000369066.3:c.1536delT	6.37:g.106967843delT	ENSP00000358062:p.Asn512fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P2P0|Q9BTM3	Frame_Shift_Del	DEL	ENST00000369066.3	37	CCDS34506.1																																																																																				0.453	AIM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041669.1			-	106967843	T	-	106967843	7	5	570	1	0	1	0	1	0	0	0	0	430	1461	51	0	1542	0	AIM1	6	106967843	Frame_Shift_Del	DEL	T	TCGA-DW-7840-01A-11D-2136-08	12998692	106967843	64147224	45	33701										
SOBP	55084	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	107827597	107827597	+	Frame_Shift_Del	DEL	T	T	-													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	agtgtgcccattattgtaccTttaattccaccacctttcat							TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr6:107827597delT	ENST00000317357.5	+	3	1046	c.387delT	c.(385-387)cctfs	p.P129fs		NM_018013.3	NP_060483.3			sine oculis binding protein homolog (Drosophila)											endometrium(1)|kidney(2)|large_intestine(4)|lung(15)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)	26		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)		TTATTGTACCTTTAATTCCAC	0.423																																																0													204	194	197					6																	107827597		1912	4142	6054	SO:0001589	frameshift_variant	55084			AK001021	CCDS43488.1	6q21	2007-03-15			ENSG00000112320	ENSG00000112320			29256	protein-coding gene	gene with protein product		613667					Standard	NM_018013		Approved	FLJ10159	uc003prx.3	A7XYQ1	OTTHUMG00000015312	ENST00000317357.5:c.387delT	6.37:g.107827597delT	ENSP00000318900:p.Pro129fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000317357.5	37	CCDS43488.1																																																																																				0.423	SOBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041693.2	NM_018013		-	107827597	T	-	107827597	7	5	570	1	0	1	0	1	0	0	0	0	14925	1596	56	0	397	0	SOBP	6	107827597	Frame_Shift_Del	DEL	T	TCGA-DW-7840-01A-11D-2136-08	859754	107827597	63287470	46	33702										
OSTM1	28962	hgsc.bcm.edu	37	chr6	108395713	108395713	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cctccagcaactgctgctccGacaggaggtcgtggaagacc	12	14	0	1	rs201176284	byFrequency	TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr6:108395713G>C	ENST00000193322.3	-	1	228	c.143C>G	c.(142-144)tCg>tGg	p.S48W		NM_014028.3	NP_054747.2	Q86WC4	OSTM1_HUMAN	osteopetrosis associated transmembrane protein 1	48					ion transmembrane transport (GO:0034220)|osteoclast differentiation (GO:0030316)|transmembrane transport (GO:0055085)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal membrane (GO:0005765)|nucleus (GO:0005634)				central_nervous_system(2)|endometrium(1)|lung(2)|ovary(1)|upper_aerodigestive_tract(2)	8		all_cancers(87;3.82e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000195)|Colorectal(196;0.0293)|all_lung(197;0.0938)		BRCA - Breast invasive adenocarcinoma(108;0.0131)|Epithelial(106;0.0438)|OV - Ovarian serous cystadenocarcinoma(136;0.0571)|all cancers(137;0.0581)		CTGCTGCTCCGACAGGAGGTC	0.711													G|||	5	0.000998403	0.0038	0.0	5008	,	,		12709	0.0		0.0	False		,,,				2504	0.0				Melanoma(162;1427 1909 3096 17430 21396)											0								G	TRP/SER	12,4304		0,12,2146	7	7	7		143	4.1	1	6		7	0,8426		0,0,4213	yes	missense	OSTM1	NM_014028.3	177	0,12,6359	CC,CG,GG		0.0,0.278,0.0942	probably-damaging	48/335	108395713	12,12730	2158	4213	6371	SO:0001583	missense	28962			AF533891	CCDS5062.1	6q21	2014-06-17			ENSG00000081087	ENSG00000081087			21652	protein-coding gene	gene with protein product	"CLCN7 accessory beta subunit"	607649				12627228, 21527911	Standard	NM_014028		Approved	HSPC019, GL	uc003psd.3	Q86WC4	OTTHUMG00000015317	ENST00000193322.3:c.143C>G	6.37:g.108395713G>C	ENSP00000193322:p.Ser48Trp	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5E3|Q5R391|Q6PCA7|Q7RTW6|Q8NC29|Q8TC82|Q9Y2S9	Missense_Mutation	SNP	ENST00000193322.3	37	CCDS5062.1	.	.	.	.	.	.	.	.	.	.	G	19.44	3.828523	0.71258	0.00278	0.0	ENSG00000081087	ENST00000193322	T	0.55234	0.53	4.96	4.08	0.47627	.	0.095194	0.43110	D	0.000605	T	0.37865	0.1019	M	0.70595	2.14	0.44627	D	0.9976	B	0.16166	0.016	B	0.14023	0.01	T	0.48281	-0.9049	10	0.87932	D	0	-17.7201	12.5335	0.56128	0.0:0.1806:0.8194:0.0	.	48	Q86WC4	OSTM1_HUMAN	W	48	ENSP00000193322:S48W	ENSP00000193322:S48W	S	-	2	0	OSTM1	108502406	1.000000	0.71417	1.000000	0.80357	0.824000	0.46624	5.376000	0.66178	1.199000	0.43173	0.655000	0.94253	TCG		0.711	OSTM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041709.3	NM_014028		C	108395713	G	C	108395713	3	2	570	1	0	0	0	0	1	0	0	0	11305	1059	37	4	885	4	OSTM1	6	108395713	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08	568116	108395713	62719354	47	33703										
MAP3K4	4216	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	161470014	161470014	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	acttttgctaaagcttacctCagtctcaaagaaaaaagaca	5	9	2	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr6:161470014C>A	ENST00000392142.4	+	3	858	c.710C>A	c.(709-711)tCa>tAa	p.S237*	MAP3K4_ENST00000348824.7_Nonsense_Mutation_p.S237*|MAP3K4_ENST00000366920.2_Nonsense_Mutation_p.S237*|MAP3K4_ENST00000366919.2_Nonsense_Mutation_p.S237*	NM_005922.2	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	237					activation of MAPKK activity (GO:0000186)|chorionic trophoblast cell differentiation (GO:0060718)|intracellular signal transduction (GO:0035556)|male germ-line sex determination (GO:0019100)|MAPK cascade (GO:0000165)|placenta development (GO:0001890)|positive regulation of JUN kinase activity (GO:0043507)|positive regulation of p38MAPK cascade (GO:1900745)|regulation of gene expression (GO:0010468)|response to UV-C (GO:0010225)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|MAP kinase kinase kinase activity (GO:0004709)|metal ion binding (GO:0046872)	p.S237L(2)		breast(6)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(20)|lung(28)|ovary(3)|skin(2)|stomach(1)	77		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)		AAGCTTACCTCAGTCTCAAAG	0.433																																																2	Substitution - Missense(2)	cervix(2)											41	41	41					6																	161470014		2203	4300	6503	SO:0001587	stop_gained	4216			AF002715	CCDS34565.1, CCDS34566.1, CCDS75544.1	6q26	2012-10-02			ENSG00000085511	ENSG00000085511		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6856	protein-coding gene	gene with protein product		602425		MEKK4		9305639	Standard	XM_005266988		Approved	MTK1, MAPKKK4, KIAA0213	uc003qtn.3	Q9Y6R4	OTTHUMG00000015968	ENST00000392142.4:c.710C>A	6.37:g.161470014C>A	ENSP00000375986:p.Ser237*	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8W0|B7ZLD3|B9EG75|Q5VTT8|Q5VTT9|Q92612|Q9H408	Nonsense_Mutation	SNP	ENST00000392142.4	37	CCDS34565.1	.	.	.	.	.	.	.	.	.	.	C	38	6.894608	0.97916	.	.	ENSG00000085511	ENST00000366919;ENST00000392142;ENST00000540111;ENST00000366920;ENST00000348824	.	.	.	6.14	6.14	0.99180	.	0.000000	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-19.6238	20.819	0.99723	0.0:1.0:0.0:0.0	.	.	.	.	X	237	.	ENSP00000297332:S237X	S	+	2	0	MAP3K4	161390004	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	7.454000	0.80714	2.927000	0.99377	0.637000	0.83480	TCA		0.433	MAP3K4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042988.3			A	161470014	C	A	161470014	4	1	570	1	0	0	0	0	0	1	0	0	9259	838	29	4	720	4	MAP3K4	6	161470014	Nonsense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	53074301	161470014	9645053	48	33704										
HEATR2	54919	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	803456	803456	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cctccaggcacaggagacgaTggactcactggccatggtgg	14	12	1	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr7:803456T>G	ENST00000297440.6	+	8	1648	c.1628T>G	c.(1627-1629)aTg>aGg	p.M543R	HEATR2_ENST00000313147.5_Missense_Mutation_p.M543R	NM_017802.3	NP_060272.3	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	543						cytoplasm (GO:0005737)				breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(3)|ovary(2)|prostate(4)|skin(1)	22		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		CAGGAGACGATGGACTCACTG	0.607																																																0													132	110	117					7																	803456		2202	4300	6502	SO:0001583	missense	54919			AL832914, AK000404, NM_017802, AK056233	CCDS34580.1	7p22.3	2014-05-06	2006-05-19		ENSG00000164818	ENSG00000164818			26013	protein-coding gene	gene with protein product		614864				23040496	Standard	NM_017802		Approved	FLJ20397, FLJ31671, FLJ39381, FLJ25564, CILD18	uc010krz.1	Q86Y56	OTTHUMG00000151416	ENST00000297440.6:c.1628T>G	7.37:g.803456T>G	ENSP00000297440:p.Met543Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q69YL1|Q96FI9|Q9NX75	Missense_Mutation	SNP	ENST00000297440.6	37	CCDS34580.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	14.28|14.28	2.488084|2.488084	0.44249|0.44249	.|.	.|.	ENSG00000164818|ENSG00000164818	ENST00000440747|ENST00000297440;ENST00000313147;ENST00000537862	.|T;T	.|0.67523	.|-0.27;-0.27	5.03|5.03	5.03|5.03	0.67393|0.67393	.|Armadillo-like helical (1);Armadillo-type fold (1);	.|0.303789	.|0.36893	.|N	.|0.002346	T|T	0.70055|0.70055	0.3180|0.3180	M|M	0.68317|0.68317	2.08|2.08	0.09310|0.09310	N|N	0.999993|0.999993	.|P;P	.|0.45715	.|0.788;0.865	.|B;P	.|0.45610	.|0.272;0.487	T|T	0.68070|0.68070	-0.5506|-0.5506	5|10	.|0.72032	.|D	.|0.01	-30.0578|-30.0578	15.0356|15.0356	0.71744|0.71744	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	.|543;289	.|Q86Y56;F5H8D4	.|HEAT2_HUMAN;.	E|R	344|543;543;289	.|ENSP00000297440:M543R;ENSP00000321451:M543R	.|ENSP00000297440:M543R	D|M	+|+	3|2	2|0	HEATR2|HEATR2	769982|769982	0.998000|0.998000	0.40836|0.40836	0.021000|0.021000	0.16686|0.16686	0.005000|0.005000	0.04900|0.04900	2.733000|2.733000	0.47360|0.47360	2.008000|2.008000	0.58898|0.58898	0.459000|0.459000	0.35465|0.35465	GAT|ATG		0.607	HEATR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322542.1	NM_017802		G	803456	T	G	803456	3	3	570	1	0	0	0	0	1	0	0	0	7035	1464	51	5	1658	5	HEATR2	7	803456	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08		803456	158335207	49	33705										
TMEM184A	202915	hgsc.bcm.edu	37	chr7	1589783	1589783	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ttacagaagcgcaggaacccGatggagtaggtcatgccccg	13	11	1	1	rs139449337	byFrequency	TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr7:1589783G>A	ENST00000297477.5	-	5	844	c.528C>T	c.(526-528)atC>atT	p.I176I		NM_001097620.1	NP_001091089.1	Q6ZMB5	T184A_HUMAN	transmembrane protein 184A	176					germ-line sex determination (GO:0018992)|regulation of protein localization (GO:0032880)|regulation of secretion (GO:0051046)	early endosome membrane (GO:0031901)|integral component of membrane (GO:0016021)		p.I176I(1)		endometrium(1)|large_intestine(1)|lung(6)|upper_aerodigestive_tract(3)|urinary_tract(1)	12		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;5.88e-15)		GCAGGAACCCGATGGAGTAGG	0.721													g|||	14	0.00279553	0.0098	0.0014	5008	,	,		12338	0.0		0.0	False		,,,				2504	0.0															1	Substitution - coding silent(1)	lung(1)								34,4162		0,34,2064	12	15	14		528	-4.1	0.1	7	dbSNP_134	14	2,8474		0,2,4236	no	coding-synonymous	TMEM184A	NM_001097620.1		0,36,6300	AA,AG,GG		0.0236,0.8103,0.2841		176/414	1589783	36,12636	2098	4238	6336	SO:0001819	synonymous_variant	202915				CCDS43537.1	7p22.3	2008-05-02			ENSG00000164855	ENSG00000164855			28797	protein-coding gene	gene with protein product						12477932	Standard	NM_001097620		Approved	MGC9712	uc003skv.4	Q6ZMB5	OTTHUMG00000119025	ENST00000297477.5:c.528C>T	7.37:g.1589783G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TBQ6	Silent	SNP	ENST00000297477.5	37	CCDS43537.1																																																																																				0.721	TMEM184A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239229.4	NM_152689		A	1589783	G	A	1589783	2	1	570	1	0	0	0	0	0	0	0	1	16116	1048	37	1		1	TMEM184A	7	1589783	Silent	SNP	G	TCGA-DW-7840-01A-11D-2136-08	786327	1589783	157548880	50	33706										
PKD1L1	168507	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	47870900	47870900	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tgcagagctccaccaaggctGaagggcccttgaccactggg	13	13	0	3			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr7:47870900G>C	ENST00000289672.2	-	42	6438	c.6388C>G	c.(6388-6390)Cag>Gag	p.Q2130E		NM_138295.3	NP_612152.1	Q8TDX9	PK1L1_HUMAN	polycystic kidney disease 1 like 1	2130					detection of mechanical stimulus (GO:0050982)|detection of nodal flow (GO:0003127)|left/right axis specification (GO:0070986)|single organismal cell-cell adhesion (GO:0016337)	calcium channel complex (GO:0034704)|cilium (GO:0005929)|membrane (GO:0016020)|nonmotile primary cilium (GO:0031513)|plasma membrane (GO:0005886)	calcium channel activity (GO:0005262)		BBS9/PKD1L1(2)	NS(1)|breast(9)|central_nervous_system(1)|cervix(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(27)|lung(44)|ovary(12)|prostate(5)|skin(8)|stomach(4)|upper_aerodigestive_tract(5)	142						CACCAAGGCTGAAGGGCCCTT	0.562																																																0													93	83	86					7																	47870900		2203	4300	6503	SO:0001583	missense	168507			AB061683	CCDS34633.1	7p12.3	2008-07-18			ENSG00000158683	ENSG00000158683			18053	protein-coding gene	gene with protein product	"polycystin-1L1"	609721				11863367	Standard	NM_138295		Approved	PRO19563	uc003tny.2	Q8TDX9	OTTHUMG00000155649	ENST00000289672.2:c.6388C>G	7.37:g.47870900G>C	ENSP00000289672:p.Gln2130Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UWK1	Missense_Mutation	SNP	ENST00000289672.2	37	CCDS34633.1	.	.	.	.	.	.	.	.	.	.	G	8.099	0.776205	0.16051	.	.	ENSG00000158683	ENST00000289672	T	0.18960	2.18	5.1	2.25	0.28309	.	1.969070	0.02438	N	0.084314	T	0.13157	0.0319	N	0.22421	0.69	0.09310	N	1	B	0.13145	0.007	B	0.14578	0.011	T	0.23655	-1.0182	10	0.06625	T	0.88	1.9044	4.372	0.11253	0.1915:0.0:0.629:0.1795	.	2130	Q8TDX9	PK1L1_HUMAN	E	2130	ENSP00000289672:Q2130E	ENSP00000289672:Q2130E	Q	-	1	0	PKD1L1	47837425	0.000000	0.05858	0.000000	0.03702	0.011000	0.07611	0.141000	0.16076	0.166000	0.19597	0.563000	0.77884	CAG		0.562	PKD1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340974.1	NM_138295		C	47870900	G	C	47870900	3	2	570	1	0	0	0	0	1	0	0	0	11971	1299	45	4	2225	4	PKD1L1	7	47870900	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08	46281117	47870900	111267763	51	33707										
COL1A2	1278	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	94057039	94057039	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ctacagggctgaccagcctcGctcagcaccttctctcagac	8	17	3	2	rs145541630		TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr7:94057039G>T	ENST00000297268.6	+	49	3839	c.3368G>T	c.(3367-3369)cGc>cTc	p.R1123L		NM_000089.3	NP_000080.2	P08123	CO1A2_HUMAN	collagen, type I, alpha 2	1123				Missing (in Ref. 17; CAA23761). {ECO:0000305}.	blood coagulation (GO:0007596)|blood vessel development (GO:0001568)|cellular response to amino acid stimulus (GO:0071230)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|leukocyte migration (GO:0050900)|odontogenesis (GO:0042476)|platelet activation (GO:0030168)|protein heterotrimerization (GO:0070208)|regulation of blood pressure (GO:0008217)|Rho protein signal transduction (GO:0007266)|skeletal system development (GO:0001501)|skin morphogenesis (GO:0043589)|transforming growth factor beta receptor signaling pathway (GO:0007179)	collagen type I trimer (GO:0005584)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	extracellular matrix structural constituent (GO:0005201)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|platelet-derived growth factor binding (GO:0048407)|protein binding, bridging (GO:0030674)		COL1A2/PLAG1(3)	NS(2)|breast(2)|central_nervous_system(4)|cervix(1)|endometrium(6)|kidney(8)|large_intestine(21)|lung(51)|ovary(2)|prostate(1)|skin(7)|stomach(1)|upper_aerodigestive_tract(8)|urinary_tract(1)	115	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	GACCAGCCTCGCTCAGCACCT	0.547										HNSCC(75;0.22)																																						0													98	97	98					7																	94057039		2203	4300	6503	SO:0001583	missense	1278			Z74616	CCDS34682.1	7q21.3	2014-09-17	2002-02-13		ENSG00000164692	ENSG00000164692		"Collagens"	2198	protein-coding gene	gene with protein product	"alpha 2(I)-collagen", "alpha-2 collagen type I", "type I procollagen", "collagen I, alpha-2 polypeptide", "collagen of skin, tendon and bone, alpha-2 chain"	120160	"osteogenesis imperfecta type IV"	OI4		3857213, 2897363	Standard	NM_000089		Approved		uc003ung.1	P08123	OTTHUMG00000148675	ENST00000297268.6:c.3368G>T	7.37:g.94057039G>T	ENSP00000297268:p.Arg1123Leu	Somatic		WXS	Illumina HiSeq	Phase_I	P02464|Q13897|Q13997|Q13998|Q14038|Q14057|Q15177|Q15947|Q16480|Q16511|Q7Z5S6|Q9UEB6|Q9UEF9|Q9UM83|Q9UMI1|Q9UML5|Q9UMM6|Q9UPH0	Missense_Mutation	SNP	ENST00000297268.6	37	CCDS34682.1	.	.	.	.	.	.	.	.	.	.	G	17.49	3.401592	0.62288	.	.	ENSG00000164692	ENST00000297268;ENST00000545487	D	0.89552	-2.53	5.71	5.71	0.89125	.	0.000000	0.56097	D	0.000040	D	0.88757	0.6523	N	0.14661	0.345	0.34308	D	0.68511	D	0.60160	0.987	D	0.67725	0.953	D	0.90766	0.4668	10	0.41790	T	0.15	.	15.7376	0.77859	0.0:0.0:1.0:0.0	.	1123	P08123	CO1A2_HUMAN	L	1123;1124	ENSP00000297268:R1123L	ENSP00000297268:R1123L	R	+	2	0	COL1A2	93894975	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	4.489000	0.60309	2.873000	0.98535	0.561000	0.74099	CGC		0.547	COL1A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000309045.2	NM_000089		T	94057039	G	T	94057039	3	4	570	1	0	0	0	0	1	0	0	0	3680	1087	38	4	3562	4	COL1A2	7	94057039	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08	46186139	94057039	65081624	52	33708										
SRRT	51593	broad.mit.edu;bcgsc.ca	37	chr7	100485469	100485473	+	Frame_Shift_Del	DEL	GCCCC	GCCCC	-													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	caagccagcccagccacctgGccccgcccagagtaagatac					rs568329863		TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	GCCCC	GCCCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr7:100485469_100485473delGCCCC	ENST00000347433.4	+	17	2473_2477	c.2315_2319delGCCCC	c.(2314-2319)ggccccfs	p.GP772fs	SRRT_ENST00000388793.4_Frame_Shift_Del_p.GP771fs|SRRT_ENST00000432932.1_Frame_Shift_Del_p.GP771fs|SRRT_ENST00000457580.2_Frame_Shift_Del_p.GP772fs			Q9BXP5	SRRT_HUMAN	serrate, RNA effector molecule	772	Pro-rich.				cell proliferation (GO:0008283)|neuronal stem cell maintenance (GO:0097150)|primary miRNA processing (GO:0031053)|regulation of transcription, DNA-templated (GO:0006355)|response to arsenic-containing substance (GO:0046685)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(5)|ovary(3)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	40						CAGCCACCTGGCCCCGCCCAGAGTA	0.512																																																0																																										SO:0001589	frameshift_variant	51593				CCDS34709.1, CCDS47665.1, CCDS47666.1, CCDS47667.1	7q21	2014-04-14	2014-04-14		ENSG00000087087	ENSG00000087087			24101	protein-coding gene	gene with protein product	"arsenite resistance protein"	614469	"serrate RNA effector molecule homolog (Arabidopsis)"			11239002, 11230166	Standard	NM_015908		Approved	Asr2, serrate, ARS2	uc003uwy.2	Q9BXP5	OTTHUMG00000157031	ENST00000347433.4:c.2315_2319delGCCCC	7.37:g.100485469_100485473delGCCCC	ENSP00000314491:p.Gly772fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2E5|A4D2E6|A6NK22|B4DJL4|B4DZA6|O95808|Q32MI4|Q6NT74|Q8TDQ5|Q9BWP6|Q9BXP4|Q9Y4S4	Frame_Shift_Del	DEL	ENST00000347433.4	37	CCDS34709.1																																																																																				0.512	SRRT-004	NOVEL	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000347168.1	NM_015908		-	100485473	GCCCC	-	100485469	7	5	570	1	0	1	0	1	0	0	0	0	15184	1203	42	0	2377	0	SRRT	7	100485469	Frame_Shift_Del	DEL	GCCCC	TCGA-DW-7840-01A-11D-2136-08	6428430	100485469	58653194	53	33709										
DOCK4	9732	hgsc.bcm.edu;broad.mit.edu	37	chr7	111629106	111629106	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gccgggcagtaatgtggcgcTtcacgtccttcatccggtcg	13	13	2	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr7:111629106T>C	ENST00000437633.1	-	6	684	c.428A>G	c.(427-429)aAg>aGg	p.K143R	DOCK4_ENST00000428084.1_Missense_Mutation_p.K143R|DOCK4_ENST00000476846.1_5'UTR	NM_014705.3	NP_055520.3	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	143					cell chemotaxis (GO:0060326)|positive regulation of Rac GTPase activity (GO:0032855)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)|stereocilium (GO:0032420)|stereocilium bundle (GO:0032421)	guanyl-nucleotide exchange factor activity (GO:0005085)|PDZ domain binding (GO:0030165)|Rac GTPase activator activity (GO:0030675)|Rac GTPase binding (GO:0048365)|receptor tyrosine kinase binding (GO:0030971)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(13)|lung(31)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(4)	72		Acute lymphoblastic leukemia(1;0.0441)				AATGTGGCGCTTCACGTCCTT	0.572																																																0													66	68	67					7																	111629106		2077	4198	6275	SO:0001583	missense	9732				CCDS47688.1	7q31.1	2007-08-07			ENSG00000128512	ENSG00000128512			19192	protein-coding gene	gene with protein product		607679				12432077, 12628187	Standard	XM_006716188		Approved	FLJ34238, KIAA0716	uc003vfx.3	Q8N1I0	OTTHUMG00000155077	ENST00000437633.1:c.428A>G	7.37:g.111629106T>C	ENSP00000404179:p.Lys143Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O14584|O94824|Q8NB45	Missense_Mutation	SNP	ENST00000437633.1	37	CCDS47688.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	33|33	5.207833|5.207833	0.95033|0.95033	.|.	.|.	ENSG00000128512|ENSG00000128512	ENST00000352877;ENST00000428084;ENST00000437633;ENST00000342288;ENST00000544250|ENST00000445943	T;T|.	0.03358|.	3.96;3.97|.	5.76|5.76	5.76|5.76	0.90799|0.90799	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.73753|0.73753	0.3627|0.3627	M|M	0.71581|0.71581	2.175|2.175	0.80722|0.80722	D|D	1|1	D;D;D;D|.	0.76494|.	0.987;0.997;0.997;0.999|.	P;D;D;D|.	0.70935|.	0.834;0.952;0.952;0.971|.	T|T	0.73783|0.73783	-0.3874|-0.3874	10|5	0.72032|.	D|.	0.01|.	.|.	15.2728|15.2728	0.73717|0.73717	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	143;143;143;143|.	A4D0S8;Q149N6;Q149N5;Q8N1I0|.	.;.;.;DOCK4_HUMAN|.	R|G	131;143;143;131;142|131	ENSP00000410746:K143R;ENSP00000404179:K143R|.	ENSP00000345432:K131R|.	K|S	-|-	2|1	0|0	DOCK4|DOCK4	111416342|111416342	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.988000|0.988000	0.76386|0.76386	7.988000|7.988000	0.88194|0.88194	2.186000|2.186000	0.69663|0.69663	0.533000|0.533000	0.62120|0.62120	AAG|AGC		0.572	DOCK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338369.4	NM_014705		C	111629106	T	C	111629106	3	2	570	1	0	0	0	0	1	0	0	0	4691	1609	56	3	5660	3	DOCK4	7	111629106	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	11143637	111629106	47509557	54	33710										
GPR37	2861	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	124404923	124404923	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ctctcccccagacaagtttcGtttctggacgcaggggcgac	11	14	2	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr7:124404923G>C	ENST00000303921.2	-	1	758	c.108C>G	c.(106-108)aaC>aaG	p.N36K		NM_005302.3	NP_005293.1	O15354	GPR37_HUMAN	G protein-coupled receptor 37 (endothelin receptor type B-like)	36					dopamine biosynthetic process (GO:0042416)|G-protein coupled receptor signaling pathway (GO:0007186)|locomotion involved in locomotory behavior (GO:0031987)|positive regulation of dopamine metabolic process (GO:0045964)	endoplasmic reticulum (GO:0005783)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|ubiquitin ligase complex (GO:0000151)	G-protein coupled receptor activity (GO:0004930)|heat shock protein binding (GO:0031072)|Hsp70 protein binding (GO:0030544)|ubiquitin protein ligase binding (GO:0031625)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(5)|large_intestine(8)|lung(11)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	36						GACAAGTTTCGTTTCTGGACG	0.652																																																0													23	24	24					7																	124404923		2203	4300	6503	SO:0001583	missense	2861				CCDS5792.1	7q31	2012-08-21			ENSG00000170775	ENSG00000170775		"GPCR / Class A : Orphans"	4494	protein-coding gene	gene with protein product		602583				9339362	Standard	NM_005302		Approved	EDNRBL, hET(B)R-LP, PAELR	uc003vli.4	O15354	OTTHUMG00000157197	ENST00000303921.2:c.108C>G	7.37:g.124404923G>C	ENSP00000306449:p.Asn36Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A4D0Y6|O00348|O14768|Q8TD39	Missense_Mutation	SNP	ENST00000303921.2	37	CCDS5792.1	.	.	.	.	.	.	.	.	.	.	G	6.209	0.406650	0.11754	.	.	ENSG00000170775	ENST00000303921	T	0.08896	3.04	5.31	-0.565	0.11771	.	0.220305	0.48286	N	0.000186	T	0.04861	0.0131	L	0.27053	0.805	0.09310	N	0.999998	B	0.09022	0.002	B	0.06405	0.002	T	0.30001	-0.9993	10	0.49607	T	0.09	-16.1704	4.5608	0.12160	0.2984:0.3038:0.3978:0.0	.	36	O15354	GPR37_HUMAN	K	36	ENSP00000306449:N36K	ENSP00000306449:N36K	N	-	3	2	GPR37	124192159	0.000000	0.05858	0.005000	0.12908	0.024000	0.10985	0.501000	0.22578	-0.292000	0.08999	0.655000	0.94253	AAC		0.652	GPR37-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347873.1	NM_005302		C	124404923	G	C	124404923	3	2	570	1	0	0	0	0	1	0	0	0	6698	1136	40	4	1741	4	GPR37	7	124404923	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08	12775817	124404923	34733740	55	33711										
MLL3	58508	hgsc.bcm.edu;bcgsc.ca	37	chr7	151962168	151962168	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	caggacattgccaacctgcaCgttttaatggagtaaccgct	9	11	0	0	rs138908625	byFrequency	TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr7:151962168C>G	ENST00000262189.6	-	8	1357	c.1139G>C	c.(1138-1140)cGt>cCt	p.R380P	KMT2C_ENST00000355193.2_Missense_Mutation_p.R380P	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	380					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)	p.R380L(4)									CCAACCTGCACGTTTTAATGG	0.443																																																4	Substitution - Missense(4)	skin(4)											410	369	383					7																	151962168		2203	4300	6503	SO:0001583	missense	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.1139G>C	7.37:g.151962168C>G	ENSP00000262189:p.Arg380Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Missense_Mutation	SNP	ENST00000262189.6	37	CCDS5931.1	.	.	.	.	.	.	.	.	.	.	C	13.77	2.337586	0.41398	.	.	ENSG00000055609	ENST00000262189;ENST00000355193	D;D	0.98849	-5.18;-5.18	4.65	4.65	0.58169	Zinc finger, PHD-finger (1);Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, RING-type (2);Zinc finger, PHD-type (1);Protein kinase C-like, phorbol ester/diacylglycerol binding (1);Zinc finger, FYVE/PHD-type (1);	0.000000	0.38548	U	0.001645	D	0.98701	0.9564	L	0.52759	1.655	0.80722	D	1	D	0.76494	0.999	D	0.81914	0.995	D	0.99905	1.1175	10	0.66056	D	0.02	.	17.9157	0.88950	0.0:1.0:0.0:0.0	.	380	Q8NEZ4	MLL3_HUMAN	P	380	ENSP00000262189:R380P;ENSP00000347325:R380P	ENSP00000262189:R380P	R	-	2	0	MLL3	151593101	1.000000	0.71417	1.000000	0.80357	0.560000	0.35617	6.039000	0.70972	2.271000	0.75665	0.557000	0.71058	CGT		0.443	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			G	151962168	C	G	151962168	3	3	570	1	0	0	0	0	1	0	0	0	9629	536	19	4	13804	4	MLL3	7	151962168	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	27557245	151962168	7176495	56	33712										
PRSS3	5646	bcgsc.ca	37	chr9	33796657	33796657	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ccagttgctgtcccctttgaCgatgatgacaagattgttgg	11	9	0	4			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr9:33796657C>T	ENST00000361005.5	+	2	228	c.228C>T	c.(226-228)gaC>gaT	p.D76D	PRSS3_ENST00000342836.4_Silent_p.D33D|RP11-133O22.6_ENST00000454429.2_RNA|PRSS3_ENST00000429677.3_Silent_p.D12D|PRSS3_ENST00000379405.3_Silent_p.D19D	NM_007343.3	NP_031369	P35030	TRY3_HUMAN	protease, serine, 3	76					cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|endothelial cell migration (GO:0043542)|innate immune response (GO:0045087)|proteolysis (GO:0006508)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)|zymogen activation (GO:0031638)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			large_intestine(3)|lung(4)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	13			LUSC - Lung squamous cell carcinoma(29;0.0176)			TCCCCTTTGACGATGATGACA	0.547																																																0													192	180	184					9																	33796657		2203	4300	6503	SO:0001819	synonymous_variant	5646				CCDS6545.1, CCDS47958.1, CCDS56570.1, CCDS56571.1	9p13	2010-05-07	2008-03-11		ENSG00000010438	ENSG00000010438	3.4.21.4	"Serine peptidases / Serine peptidases"	9486	protein-coding gene	gene with protein product	"mesotrypsin"	613578	"protease, serine, 4 (trypsin 4, brain)", "protease, serine, 3 (mesotrypsin)"	PRSS4		2326201, 8294000	Standard	NM_002771		Approved	TRY3, TRY4	uc003ztj.4	P35030	OTTHUMG00000019798	ENST00000361005.5:c.228C>T	9.37:g.33796657C>T		Somatic		WXS	Illumina HiSeq	Phase_1	A8CED1|A8CED3|A9Z1Y4|E7ES07|F8W7P3|P15951|Q15665|Q5VXV0|Q6ISJ4|Q9UQV3	Silent	SNP	ENST00000361005.5	37	CCDS47958.1																																																																																				0.547	PRSS3-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000052121.1	NM_002771		T	33796657	C	T	33796657	2	4	570	1	0	0	0	0	0	0	0	1	12632	535	19	1		1	PRSS3	9	33796657	Silent	SNP	C	TCGA-DW-7840-01A-11D-2136-08		33796657	107416774	57	33713										
UCK1	83549	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	134404931	134404931	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	accgttttgccctccacgatGttcttcagagtcctgtgcat	8	13	2	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr9:134404931G>A	ENST00000372215.4	-	3	402	c.309C>T	c.(307-309)aaC>aaT	p.N103N	UCK1_ENST00000459858.1_5'UTR|UCK1_ENST00000372211.3_Silent_p.N108N|UCK1_ENST00000372210.3_Silent_p.N94N|UCK1_ENST00000372208.3_Silent_p.N103N	NM_001261450.1|NM_001261451.1|NM_031432.2	NP_001248379.1|NP_001248380.1|NP_113620.1	Q9HA47	UCK1_HUMAN	uridine-cytidine kinase 1	103					CTP salvage (GO:0044211)|nucleobase-containing small molecule metabolic process (GO:0055086)|pyrimidine nucleobase metabolic process (GO:0006206)|pyrimidine nucleoside salvage (GO:0043097)|small molecule metabolic process (GO:0044281)|UMP salvage (GO:0044206)	cytosol (GO:0005829)	ATP binding (GO:0005524)|nucleoside kinase activity (GO:0019206)|uridine kinase activity (GO:0004849)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|skin(1)|upper_aerodigestive_tract(1)	6				OV - Ovarian serous cystadenocarcinoma(145;2.34e-05)|Epithelial(140;0.000219)		CCTCCACGATGTTCTTCAGAG	0.547																																					Melanoma(42;523 1129 28385 43975 48113)											0													278	229	246					9																	134404931		2203	4300	6503	SO:0001819	synonymous_variant	83549			AF237290	CCDS6944.1, CCDS48046.1, CCDS59151.1, CCDS59152.1	9q34.1	2008-02-05			ENSG00000130717	ENSG00000130717	2.7.1.48		14859	protein-coding gene	gene with protein product		609328				11306702	Standard	NM_031432		Approved	URK1, FLJ12255	uc031tfj.1	Q9HA47	OTTHUMG00000020823	ENST00000372215.4:c.309C>T	9.37:g.134404931G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JT09|Q5JT10|Q5JT12|Q5JT13|Q6IA74|Q96BJ0	Silent	SNP	ENST00000372215.4	37	CCDS6944.1																																																																																				0.547	UCK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054726.1	NM_031432		A	134404931	G	A	134404931	2	1	570	1	0	0	0	0	0	0	0	1	16935	1368	48	2		2	UCK1	9	134404931	Silent	SNP	G	TCGA-DW-7840-01A-11D-2136-08	100608274	134404931	6808500	58	33714										
SETX	23064	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	135156906	135156906	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gatctcctactaggatgagcTtattgcagcgatggatgagt	12	7	1	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr9:135156906T>C	ENST00000224140.5	-	20	6784	c.6602A>G	c.(6601-6603)aAg>aGg	p.K2201R	SETX_ENST00000393220.1_Missense_Mutation_p.K2201R|SETX_ENST00000372169.2_Missense_Mutation_p.K2201R	NM_015046.5	NP_055861.3	Q7Z333	SETX_HUMAN	senataxin	2201					cell death (GO:0008219)|circadian rhythm (GO:0007623)|DNA duplex unwinding (GO:0032508)|double-strand break repair (GO:0006302)|RNA processing (GO:0006396)|termination of RNA polymerase II transcription (GO:0006369)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)			breast(7)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(25)|liver(1)|lung(36)|ovary(2)|prostate(2)|skin(1)|stomach(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	97		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		TAGGATGAGCTTATTGCAGCG	0.418																																																0													127	117	121					9																	135156906		2203	4300	6503	SO:0001583	missense	23064			AB014525	CCDS6947.1	9q34	2014-09-17	2005-11-29	2005-11-29	ENSG00000107290	ENSG00000107290			445	protein-coding gene	gene with protein product		608465	"amyotrophic lateral sclerosis 4", "spinocerebellar ataxia, recessive, non-Friedreich type 1"	ALS4, SCAR1		9497266, 11022012	Standard	NM_015046		Approved	KIAA0625, AOA2	uc004cbk.3	Q7Z333	OTTHUMG00000020834	ENST00000224140.5:c.6602A>G	9.37:g.135156906T>C	ENSP00000224140:p.Lys2201Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A2A396|B2RPB2|B5ME16|C9JQ10|O75120|Q3KQX4|Q5JUJ1|Q68DW5|Q6AZD7|Q7Z3J6|Q8WX33|Q9H9D1|Q9NVP9	Missense_Mutation	SNP	ENST00000224140.5	37	CCDS6947.1	.	.	.	.	.	.	.	.	.	.	T	16.95	3.263460	0.59431	.	.	ENSG00000107290	ENST00000224140;ENST00000436441;ENST00000372169;ENST00000393220	D;D;D;D	0.82081	-1.57;-1.57;-1.57;-1.57	5.56	5.56	0.83823	.	0.148494	0.47455	D	0.000240	D	0.85141	0.5629	N	0.25825	0.765	0.37682	D	0.923524	B;D;D	0.69078	0.123;0.99;0.997	B;D;D	0.77557	0.42;0.956;0.99	D	0.86395	0.1738	10	0.36615	T	0.2	.	14.907	0.70727	0.0:0.0:0.0:1.0	.	2201;2201;2201	Q7Z333-3;Q7Z333;Q7Z333-4	.;SETX_HUMAN;.	R	2201;443;2201;2201	ENSP00000224140:K2201R;ENSP00000409143:K443R;ENSP00000361242:K2201R;ENSP00000376913:K2201R	ENSP00000224140:K2201R	K	-	2	0	SETX	134146727	1.000000	0.71417	1.000000	0.80357	0.457000	0.32468	3.550000	0.53691	2.123000	0.65237	0.528000	0.53228	AAG		0.418	SETX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054774.3	NM_015046		C	135156906	T	C	135156906	3	2	570	1	0	0	0	0	1	0	0	0	14154	1609	56	3	1459	3	SETX	9	135156906	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	751975	135156906	6056525	59	33715										
TSC1	7248	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	135781374	135781374	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gtgtaaaggctcagggttcaCgctggcgccctgagaactgg	15	10	2	1	rs377279170		TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr9:135781374C>T	ENST00000298552.3	-	15	1812	c.1591G>A	c.(1591-1593)Gtg>Atg	p.V531M	TSC1_ENST00000545250.1_Missense_Mutation_p.V480M|TSC1_ENST00000440111.2_Missense_Mutation_p.V531M	NM_000368.4|NM_001162426.1|NM_001162427.1	NP_000359.1|NP_001155898.1|NP_001155899.1	Q92574	TSC1_HUMAN	tuberous sclerosis 1	531					activation of Rho GTPase activity (GO:0032862)|cardiac muscle cell differentiation (GO:0055007)|cell cycle arrest (GO:0007050)|cell projection organization (GO:0030030)|cell-matrix adhesion (GO:0007160)|cerebral cortex development (GO:0021987)|hippocampus development (GO:0021766)|insulin receptor signaling pathway (GO:0008286)|kidney development (GO:0001822)|myelination (GO:0042552)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of TOR signaling (GO:0032007)|negative regulation of translation (GO:0017148)|neural tube closure (GO:0001843)|positive regulation of focal adhesion assembly (GO:0051894)|potassium ion transport (GO:0006813)|protein heterooligomerization (GO:0051291)|protein stabilization (GO:0050821)|regulation of cell cycle (GO:0051726)|regulation of cell-matrix adhesion (GO:0001952)|regulation of phosphoprotein phosphatase activity (GO:0043666)|regulation of protein kinase activity (GO:0045859)|regulation of stress fiber assembly (GO:0051492)|regulation of translation (GO:0006417)|response to insulin (GO:0032868)|rRNA export from nucleus (GO:0006407)|synapse organization (GO:0050808)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|growth cone (GO:0030426)|intracellular membrane-bounded organelle (GO:0043231)|lamellipodium (GO:0030027)|membrane (GO:0016020)|protein complex (GO:0043234)|TSC1-TSC2 complex (GO:0033596)	chaperone binding (GO:0051087)|GTPase regulator activity (GO:0030695)|protein N-terminus binding (GO:0047485)	p.?(1)		NS(1)|bone(1)|breast(3)|central_nervous_system(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(9)|lung(20)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(4)	65				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		TCAGGGTTCACGCTGGCGCCC	0.587			"D, Mis, N, F, S"			"hamartoma, renal cell"			Tuberous Sclerosis																													yes	Rec		Tuberous sclerosis 1	9	9q34	7248	tuberous sclerosis 1 gene		"E, O"	1	Unknown(1)	bone(1)						C	MET/VAL,MET/VAL,MET/VAL	0,4406		0,0,2203	70	69	69		1591,1588,1438	1	0	9		69	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,missense	TSC1	NM_000368.4,NM_001162426.1,NM_001162427.1	21,21,21	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign,benign,benign	531/1165,530/1164,480/1114	135781374	1,13005	2203	4300	6503	SO:0001583	missense	7248	Familial Cancer Database	TS, Tuberous Sclerosis Complex, TSC, Bourneville-Pringle disease	AF013168	CCDS6956.1, CCDS55350.1	9q34	2014-09-17			ENSG00000165699	ENSG00000165699			12362	protein-coding gene	gene with protein product		605284		TSC		9242607, 10806479	Standard	NM_000368		Approved	KIAA0243, LAM, hamartin	uc004cca.2	Q92574	OTTHUMG00000020844	ENST00000298552.3:c.1591G>A	9.37:g.135781374C>T	ENSP00000298552:p.Val531Met	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z897|Q5VVN5	Missense_Mutation	SNP	ENST00000298552.3	37	CCDS6956.1	.	.	.	.	.	.	.	.	.	.	C	5.777	0.327722	0.10956	0.0	1.16E-4	ENSG00000165699	ENST00000298552;ENST00000440111;ENST00000545250	D;D;T	0.82167	-1.58;-1.58;-1.39	6.05	0.967	0.19674	.	0.902905	0.09848	N	0.748020	T	0.67135	0.2861	N	0.22421	0.69	0.09310	N	1	B;B	0.23937	0.045;0.094	B;B	0.20767	0.022;0.031	T	0.52555	-0.8560	10	0.33141	T	0.24	-7.0E-4	2.3538	0.04291	0.1018:0.4483:0.1801:0.2698	.	480;531	B7Z897;Q92574	.;TSC1_HUMAN	M	531;531;480	ENSP00000298552:V531M;ENSP00000394524:V531M;ENSP00000444017:V480M	ENSP00000298552:V531M	V	-	1	0	TSC1	134771195	0.000000	0.05858	0.001000	0.08648	0.266000	0.26442	0.364000	0.20325	0.137000	0.18759	-0.897000	0.02905	GTG		0.587	TSC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054799.1			T	135781374	C	T	135781374	3	4	570	1	0	0	0	0	1	0	0	0	16617	536	19	1	1939	1	TSC1	9	135781374	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	624468	135781374	5432057	60	33716										
SUV39H2	79723	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	14939337	14939338	+	Missense_Mutation	DNP	AC	AC	TT													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	aaattaaaatcccacctggtActcccatctatgaatgcaac							TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr10:14939337_14939338AC>TT	ENST00000354919.6	+	3	670_671	c.670_671AC>TT	c.(670-672)ACt>TTt	p.T224F	SUV39H2_ENST00000313519.5_Missense_Mutation_p.T164F|SUV39H2_ENST00000378325.3_Intron	NM_001193424.1	NP_001180353.1	Q9H5I1	SUV92_HUMAN	suppressor of variegation 3-9 homolog 2 (Drosophila)	224	Pre-SET. {ECO:0000255|PROSITE- ProRule:PRU00157}.				cell differentiation (GO:0030154)|chromatin assembly or disassembly (GO:0006333)|chromatin remodeling (GO:0006338)|histone H3-K9 dimethylation (GO:0036123)|histone H3-K9 trimethylation (GO:0036124)|male meiosis (GO:0007140)|negative regulation of circadian rhythm (GO:0042754)|negative regulation of transcription, DNA-templated (GO:0045892)|rhythmic process (GO:0048511)|transcription, DNA-templated (GO:0006351)	chromatin (GO:0000785)|chromosome, centromeric region (GO:0000775)|nuclear heterochromatin (GO:0005720)	chromatin binding (GO:0003682)|histone methyltransferase activity (H3-K9 specific) (GO:0046974)|transcription regulatory region sequence-specific DNA binding (GO:0000976)|zinc ion binding (GO:0008270)			breast(2)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(3)|lung(6)|ovary(1)	19						CCCACCTGGTACTCCCATCTAT	0.396																																																0																																										SO:0001583	missense	79723			AK027067	CCDS7104.1, CCDS53493.1, CCDS53494.1	10p13	2011-07-01			ENSG00000152455	ENSG00000152455		"Chromatin-modifying enzymes / K-methyltransferases"	17287	protein-coding gene	gene with protein product		606503				11094092	Standard	NM_001193424		Approved	FLJ23414, KMT1B	uc021png.1	Q9H5I1	OTTHUMG00000017718	Exception_encountered	10.37:g.14939337_14939338delinsTT	ENSP00000346997:p.Thr224Phe	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRT4|Q5JSS4|Q5JSS5|Q6I9Y3|Q8ND06	Missense_Mutation	DNP	ENST00000354919.6	37	CCDS53494.1																																																																																				0.396	SUV39H2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046947.2	NM_024670		TT	14939338	AC	TT	14939337	3	4	570	1	0	0	0	0	1	0	0	0	15425	391	14	5	492	5	SUV39H2	10	14939337	Missense_Mutation	DNP	AC	TCGA-DW-7840-01A-11D-2136-08		14939337	120595410	61	33717										
KIAA1217	56243	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	24835172	24835172	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	aagggcaccaggaccatccaTactcccagcctcaccagcta	7	17	1	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr10:24835172T>C	ENST00000376454.3	+	21	5781	c.5751T>C	c.(5749-5751)caT>caC	p.H1917H	KIAA1217_ENST00000396445.1_3'UTR|KIAA1217_ENST00000376451.2_3'UTR|KIAA1217_ENST00000376452.3_Silent_p.H1348H|KIAA1217_ENST00000376462.1_Silent_p.H1238H|KIAA1217_ENST00000458595.1_Silent_p.H1323H	NM_019590.3	NP_062536.2	Q5T5P2	SKT_HUMAN	KIAA1217	1917					embryonic skeletal system development (GO:0048706)	cytoplasm (GO:0005737)				breast(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(19)|lung(19)|ovary(5)|prostate(3)|skin(3)|urinary_tract(1)	70						GGACCATCCATACTCCCAGCC	0.532																																																0													76	70	72					10																	24835172		2203	4300	6503	SO:0001819	synonymous_variant	56243			BX640796	CCDS31165.1, CCDS41496.1, CCDS60501.1, CCDS60502.1, CCDS60504.1, CCDS60505.1	10p12.31	2009-09-16			ENSG00000120549	ENSG00000120549			25428	protein-coding gene	gene with protein product	"sickle tail"					10574462	Standard	XM_005252500		Approved	DKFZP761L0424, SKT	uc001iru.4	Q5T5P2	OTTHUMG00000017824	ENST00000376454.3:c.5751T>C	10.37:g.24835172T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A5LHW9|A6NLF3|A6PVQ5|A6PVQ6|A6PVQ7|B9EGK4|Q4KMG4|Q5T5P3|Q5T7H3|Q6MZZ6|Q6ZUI4|Q8WV45|Q9NSR2|Q9ULK3	Silent	SNP	ENST00000376454.3	37	CCDS31165.1																																																																																				0.532	KIAA1217-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000047223.2	NM_019590		C	24835172	T	C	24835172	2	2	570	1	0	0	0	0	0	0	0	1	8223	1403	49	3		3	KIAA1217	10	24835172	Silent	SNP	T	TCGA-DW-7840-01A-11D-2136-08	9895835	24835172	110699575	62	33718										
ARMC4	55130	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	28270470	28270470	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	aggtttttataaattgaaccTtttctctcataattaacgtc	4	7	2	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr10:28270470T>C	ENST00000305242.5	-	7	953	c.861A>G	c.(859-861)aaA>aaG	p.K287K	ARMC4_ENST00000537576.1_5'UTR|ARMC4_ENST00000545014.1_5'UTR|ARMC4_ENST00000239715.3_Silent_p.K144K|ARMC4_ENST00000480504.1_5'UTR	NM_018076.2	NP_060546.2	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	287					cell projection organization (GO:0030030)|cilium movement (GO:0003341)|left/right axis specification (GO:0070986)|outer dynein arm assembly (GO:0036158)|ventricular system development (GO:0021591)	axoneme (GO:0005930)|ciliary base (GO:0097546)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)				NS(2)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(7)|kidney(6)|large_intestine(17)|liver(1)|lung(17)|ovary(5)|prostate(3)|skin(8)|stomach(2)|urinary_tract(3)	75						AAATTGAACCTTTTCTCTCAT	0.294																																																0													99	104	102					10																	28270470		2202	4296	6498	SO:0001819	synonymous_variant	55130			AL136859	CCDS7157.1	10p12.1-p11.23	2014-02-03			ENSG00000169126	ENSG00000169126		"Armadillo repeat containing"	25583	protein-coding gene	gene with protein product		615408				11230166	Standard	XM_005252485		Approved	FLJ10817, FLJ10376, DKFZP434P1735, CILD23	uc001itz.3	Q5T2S8	OTTHUMG00000017867	ENST00000305242.5:c.861A>G	10.37:g.28270470T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K906|B7Z7I1|Q9H0C0	Silent	SNP	ENST00000305242.5	37	CCDS7157.1																																																																																				0.294	ARMC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047339.1	NM_018076		C	28270470	T	C	28270470	2	2	570	1	0	0	0	0	0	0	0	1	953	1606	56	3		3	ARMC4	10	28270470	Silent	SNP	T	TCGA-DW-7840-01A-11D-2136-08	3435298	28270470	107264277	63	33719										
CUL2	8453	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	35324145	35324145	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gctcgaaggccctcatcatgGatgtggttttgcagctcctg	12	11	2	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr10:35324145G>T	ENST00000374748.1	-	11	1270	c.957C>A	c.(955-957)atC>atA	p.I319I	CUL2_ENST00000602371.1_Silent_p.I262I|CUL2_ENST00000374751.3_Silent_p.I319I|CUL2_ENST00000537177.1_Silent_p.I338I|CUL2_ENST00000374746.1_Silent_p.I319I|CUL2_ENST00000374749.3_Silent_p.I319I|CUL2_ENST00000374742.1_Silent_p.I319I			Q13617	CUL2_HUMAN	cullin 2	319					cell cycle arrest (GO:0007050)|cellular response to hypoxia (GO:0071456)|G1/S transition of mitotic cell cycle (GO:0000082)|intrinsic apoptotic signaling pathway (GO:0097193)|negative regulation of cell proliferation (GO:0008285)|protein ubiquitination (GO:0016567)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|ubiquitin-dependent protein catabolic process (GO:0006511)|viral process (GO:0016032)	Cul2-RING ubiquitin ligase complex (GO:0031462)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|VCB complex (GO:0030891)	ubiquitin protein ligase binding (GO:0031625)			breast(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(11)|ovary(3)|prostate(2)|skin(1)|urinary_tract(2)	31						CCTCATCATGGATGTGGTTTT	0.473																																																0													155	126	136					10																	35324145		2203	4300	6503	SO:0001819	synonymous_variant	8453			U83410	CCDS7179.1, CCDS73086.1	10p11.2	2011-05-24			ENSG00000108094	ENSG00000108094			2552	protein-coding gene	gene with protein product		603135				8681378	Standard	NM_003591		Approved		uc021ppa.1	Q13617	OTTHUMG00000017950	ENST00000374748.1:c.957C>A	10.37:g.35324145G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KT95|B7Z6K8|D3DRY6|G3V1S2|O00200|Q5T2B6|Q9UNF9	Silent	SNP	ENST00000374748.1	37	CCDS7179.1																																																																																				0.473	CUL2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047538.1	NM_003591		T	35324145	G	T	35324145	2	4	570	1	0	0	0	0	0	0	0	1	4057	1164	41	4		4	CUL2	10	35324145	Silent	SNP	G	TCGA-DW-7840-01A-11D-2136-08	7053675	35324145	100210602	64	33720										
ALOX5	240	hgsc.bcm.edu;broad.mit.edu	37	chr10	45869784	45869784	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cagtggttcgccggcactgaCgactacatctacctcagcct	9	15	2	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr10:45869784C>A	ENST00000374391.2	+	1	110	c.57C>A	c.(55-57)gaC>gaA	p.D19E	ALOX5_ENST00000542434.1_Missense_Mutation_p.D19E	NM_000698.3|NM_001256153.1	NP_000689.1|NP_001243082.1	P09917	LOX5_HUMAN	arachidonate 5-lipoxygenase	19	PLAT. {ECO:0000255|PROSITE- ProRule:PRU00152}.				arachidonic acid metabolic process (GO:0019369)|leukotriene biosynthetic process (GO:0019370)|leukotriene metabolic process (GO:0006691)|leukotriene production involved in inflammatory response (GO:0002540)|lipoxin metabolic process (GO:2001300)|lipoxygenase pathway (GO:0019372)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular space (GO:0005615)|nuclear envelope (GO:0005635)|nuclear envelope lumen (GO:0005641)|nuclear matrix (GO:0016363)|nuclear membrane (GO:0031965)	arachidonate 5-lipoxygenase activity (GO:0004051)|iron ion binding (GO:0005506)			breast(1)|cervix(2)|endometrium(3)|kidney(1)|large_intestine(6)|lung(14)|ovary(2)|pancreas(2)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	37		Lung SC(717;0.0257)			Aminosalicylic Acid(DB00233)|Balsalazide(DB01014)|Diclofenac(DB00586)|Diethylcarbamazine(DB00711)|Masoprocol(DB00179)|Meclofenamic acid(DB00939)|Mesalazine(DB00244)|Minocycline(DB01017)|Montelukast(DB00471)|Sulfasalazine(DB00795)|Vitamin E(DB00163)|Zileuton(DB00744)	CCGGCACTGACGACTACATCT	0.701																																																0													28	19	22					10																	45869784		2161	4260	6421	SO:0001583	missense	240			J03571	CCDS7212.1, CCDS58078.1	10q11.2	2008-03-18			ENSG00000012779	ENSG00000012779	1.13.11.34	"Arachidonate lipoxygenases"	435	protein-coding gene	gene with protein product		152390				2565035	Standard	NM_001256153		Approved	5-LOX	uc001jce.4	P09917	OTTHUMG00000018081	ENST00000374391.2:c.57C>A	10.37:g.45869784C>A	ENSP00000363512:p.Asp19Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLS0|E5FPY5|E5FPY7|E5FPY8|Q5JQ14	Missense_Mutation	SNP	ENST00000374391.2	37	CCDS7212.1	.	.	.	.	.	.	.	.	.	.	c	13.35	2.210677	0.39102	.	.	ENSG00000012779	ENST00000542434;ENST00000374391	T;T	0.66280	-0.2;-0.2	4.82	1.81	0.25067	Lipoxygenase, LH2 (4);Lipase/lipooxygenase, PLAT/LH2 (1);	0.051214	0.85682	D	0.000000	T	0.75042	0.3796	M	0.88310	2.945	0.49798	D	0.999823	D;D;D	0.76494	0.998;0.999;0.985	P;D;P	0.69142	0.757;0.962;0.554	T	0.70651	-0.4813	10	0.30854	T	0.27	-37.9305	4.7968	0.13276	0.0:0.5691:0.1591:0.2717	.	19;19;19	B7ZLS0;E5FPY8;P09917	.;.;LOX5_HUMAN	E	19	ENSP00000437634:D19E;ENSP00000363512:D19E	ENSP00000363512:D19E	D	+	3	2	ALOX5	45189790	1.000000	0.71417	1.000000	0.80357	0.016000	0.09150	1.011000	0.29911	0.420000	0.25954	-0.533000	0.04299	GAC		0.701	ALOX5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047780.1			A	45869784	C	A	45869784	3	1	570	1	0	0	0	0	1	0	0	0	540	535	19	4	59	4	ALOX5	10	45869784	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	10545639	45869784	89664963	65	33721										
GRID1	2894	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	87407050	87407050	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gttcagcaaacgtgctgtccTgctccagggggttggtgccc	14	12	1	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr10:87407050T>C	ENST00000327946.7	-	13	2187	c.2102A>G	c.(2101-2103)cAg>cGg	p.Q701R	GRID1_ENST00000536331.1_Missense_Mutation_p.Q272R|RN7SKP238_ENST00000516483.1_RNA|RP11-93H12.4_ENST00000474115.2_RNA	NM_017551.2	NP_060021.1	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	701					ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|social behavior (GO:0035176)|synaptic transmission, glutamatergic (GO:0035249)	cell junction (GO:0030054)|dendrite (GO:0030425)|extracellular vesicular exosome (GO:0070062)|ionotropic glutamate receptor complex (GO:0008328)|postsynaptic membrane (GO:0045211)	extracellular-glutamate-gated ion channel activity (GO:0005234)|ionotropic glutamate receptor activity (GO:0004970)			NS(1)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(24)|lung(46)|ovary(5)|prostate(4)|skin(5)|stomach(4)|upper_aerodigestive_tract(5)	106						CGTGCTGTCCTGCTCCAGGGG	0.552										Multiple Myeloma(13;0.14)																																						0													271	252	259					10																	87407050		2203	4300	6503	SO:0001583	missense	2894			AB033046	CCDS31236.1	10q22	2012-08-29			ENSG00000182771	ENSG00000182771		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4575	protein-coding gene	gene with protein product		610659					Standard	NM_017551		Approved	GluD1, KIAA1220	uc001kdl.1	Q9ULK0	OTTHUMG00000018650	ENST00000327946.7:c.2102A>G	10.37:g.87407050T>C	ENSP00000330148:p.Gln701Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXD5|B7Z7L0|Q8IXT3	Missense_Mutation	SNP	ENST00000327946.7	37	CCDS31236.1	.	.	.	.	.	.	.	.	.	.	T	13.52	2.261225	0.39995	.	.	ENSG00000182771	ENST00000327946;ENST00000536331	T;T	0.27402	1.67;1.67	5.7	5.7	0.88788	Extracellular solute-binding protein, family 3 (1);Ionotropic glutamate receptor (2);	0.000000	0.85682	D	0.000000	T	0.35248	0.0925	N	0.11106	0.095	0.80722	D	1	D	0.59357	0.985	D	0.74023	0.982	T	0.28650	-1.0037	10	0.26408	T	0.33	.	15.1462	0.72653	0.0:0.0:0.0:1.0	.	701	Q9ULK0	GRID1_HUMAN	R	701;272	ENSP00000330148:Q701R;ENSP00000444455:Q272R	ENSP00000330148:Q701R	Q	-	2	0	GRID1	87397030	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.698000	0.84413	2.175000	0.68902	0.528000	0.53228	CAG		0.552	GRID1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049148.3	XM_043613		C	87407050	T	C	87407050	3	2	570	1	0	0	0	0	1	0	0	0	6778	1580	55	3	943	3	GRID1	10	87407050	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	41537266	87407050	48127697	66	33722										
NRAP	4892	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	115411657	115411657	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gcgttcatcatgccctctctTatactccacctgatgagaag	7	13	3	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr10:115411657T>C	ENST00000359988.3	-	7	824	c.580A>G	c.(580-582)Aag>Gag	p.K194E	NRAP_ENST00000369360.3_Missense_Mutation_p.K194E|NRAP_ENST00000369358.4_Missense_Mutation_p.K194E|NRAP_ENST00000360478.3_Missense_Mutation_p.K194E	NM_001261463.1|NM_198060.3	NP_001248392.1|NP_932326.2			nebulin-related anchoring protein											autonomic_ganglia(1)|breast(2)|central_nervous_system(4)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(18)|lung(39)|ovary(6)|prostate(3)|skin(1)|stomach(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	95		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		TGCCCTCTCTTATACTCCACC	0.547																																																0													108	88	94					10																	115411657		2203	4300	6503	SO:0001583	missense	4892				CCDS7578.1, CCDS7579.1, CCDS73199.1	10q24-q26	2008-08-01			ENSG00000197893	ENSG00000197893			7988	protein-coding gene	gene with protein product		602873				12789664, 10320340	Standard	NM_006175		Approved		uc001lal.4	Q86VF7	OTTHUMG00000019072	ENST00000359988.3:c.580A>G	10.37:g.115411657T>C	ENSP00000353078:p.Lys194Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000359988.3	37	CCDS7579.1	.	.	.	.	.	.	.	.	.	.	T	18.89	3.719870	0.68844	.	.	ENSG00000197893	ENST00000369358;ENST00000369360;ENST00000359988;ENST00000360478	T;T;T;T	0.69040	-0.37;-0.37;-0.37;-0.37	6.03	6.03	0.97812	.	0.044427	0.85682	D	0.000000	D	0.82393	0.5027	M	0.87827	2.91	0.43988	D	0.996689	D;D;D	0.59357	0.985;0.982;0.985	P;P;D	0.64506	0.868;0.879;0.926	D	0.85146	0.0983	10	0.66056	D	0.02	.	12.952	0.58407	0.0:0.0:0.0:1.0	.	194;194;194	A0AVL2;Q86VF7-4;Q86VF7	.;.;NRAP_HUMAN	E	194	ENSP00000358365:K194E;ENSP00000358367:K194E;ENSP00000353078:K194E;ENSP00000353666:K194E	ENSP00000353078:K194E	K	-	1	0	NRAP	115401647	1.000000	0.71417	1.000000	0.80357	0.214000	0.24535	6.117000	0.71577	2.313000	0.78055	0.454000	0.30748	AAG		0.547	NRAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050425.2	NM_006175		C	115411657	T	C	115411657	3	2	570	1	0	0	0	0	1	0	0	0	10645	1763	61	3	4756	3	NRAP	10	115411657	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	28004607	115411657	20123090	67	33723										
DMBT1	1755	bcgsc.ca	37	chr10	124351971	124351971	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gtcggccccaggaaatgcccGgtttggccagggctcaggac	15	13	1	0	rs199833346		TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr10:124351971G>A	ENST00000338354.3	+	20	2466	c.2360G>A	c.(2359-2361)cGg>cAg	p.R787Q	DMBT1_ENST00000368909.3_Missense_Mutation_p.R787Q|DMBT1_ENST00000359586.6_Intron|DMBT1_ENST00000368956.2_Intron|DMBT1_ENST00000344338.3_Missense_Mutation_p.R777Q|DMBT1_ENST00000368955.3_Missense_Mutation_p.R777Q|DMBT1_ENST00000330163.4_Intron			Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1	787	SRCR 6. {ECO:0000255|PROSITE- ProRule:PRU00196}.				defense response to virus (GO:0051607)|epithelial cell differentiation (GO:0030855)|induction of bacterial agglutination (GO:0043152)|innate immune response (GO:0045087)|inner cell mass cell proliferation (GO:0001833)|pattern recognition receptor signaling pathway (GO:0002221)|positive regulation of epithelial cell differentiation (GO:0030858)|protein transport (GO:0015031)|receptor-mediated endocytosis (GO:0006898)|viral process (GO:0016032)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|phagocytic vesicle membrane (GO:0030670)|proteinaceous extracellular matrix (GO:0005578)|zymogen granule membrane (GO:0042589)	calcium-dependent protein binding (GO:0048306)|scavenger receptor activity (GO:0005044)|signaling pattern recognition receptor activity (GO:0008329)|zymogen binding (GO:0035375)			breast(2)|central_nervous_system(7)|cervix(3)|endometrium(8)|kidney(1)|large_intestine(1)|lung(46)|prostate(1)|urinary_tract(3)	72		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				GGAAATGCCCGGTTTGGCCAG	0.622													G|||	1	0.000199681	0.0	0.0	5008	,	,		17838	0.0		0.001	False		,,,				2504	0.0				Ovarian(182;93 2026 18125 22222 38972)											0								G	,GLN/ARG,GLN/ARG	0,3976		0,0,1988	175	138	150		,2360,2330	-3.3	0	10		150	2,8224		0,2,4111	no	intron,missense,missense	DMBT1	NM_004406.2,NM_007329.2,NM_017579.2	,43,43	0,2,6099	AA,AG,GG		0.0243,0.0,0.0164	,probably-damaging,probably-damaging	,787/2414,777/2404	124351971	2,12200	1988	4113	6101	SO:0001583	missense	1755				CCDS44490.1, CCDS44491.1, CCDS44492.1	10q25.3-q26.1	2008-08-01			ENSG00000187908	ENSG00000187908			2926	protein-coding gene	gene with protein product		601969				9288095, 17548659	Standard	NM_004406		Approved	GP340, muclin	uc001lgk.1	Q9UGM3	OTTHUMG00000019185	ENST00000338354.3:c.2360G>A	10.37:g.124351971G>A	ENSP00000342210:p.Arg787Gln	Somatic		WXS	Illumina HiSeq	Phase_1	A6NDG4|A6NDJ5|A8E4R5|B1ARE7|B1ARE8|B1ARE9|B1ARF0|B7Z8Y2|F8WEF7|Q59EX0|Q5JR26|Q6MZN4|Q96DU4|Q9UGM2|Q9UJ57|Q9UKJ4|Q9Y211|Q9Y4V9	Missense_Mutation	SNP	ENST00000338354.3	37		1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	G	5.842	0.339525	0.11069	0.0	2.43E-4	ENSG00000187908	ENST00000338354;ENST00000368915;ENST00000341278;ENST00000368953;ENST00000339871;ENST00000368942;ENST00000344338;ENST00000368909;ENST00000368955	T;T;T;T	0.44482	0.92;0.92;0.92;0.92	3.86	-3.27	0.05048	Speract/scavenger receptor (2);Speract/scavenger receptor-related (2);	.	.	.	.	T	0.16557	0.0398	N	0.12502	0.225	0.09310	N	1	P;B;B;B	0.37276	0.589;0.04;0.04;0.049	B;B;B;B	0.25987	0.065;0.006;0.006;0.01	T	0.14448	-1.0472	9	0.27082	T	0.32	.	6.8244	0.23874	0.6813:0.0:0.1778:0.1409	.	548;787;777;787	Q9UGM3-4;Q9UGM3-6;Q9UGM3-3;Q9UGM3	.;.;.;DMBT1_HUMAN	Q	787;787;787;787;787;787;777;787;777	ENSP00000342210:R787Q;ENSP00000343175:R777Q;ENSP00000357905:R787Q;ENSP00000357951:R777Q	ENSP00000342210:R787Q	R	+	2	0	DMBT1	124341961	0.000000	0.05858	0.000000	0.03702	0.078000	0.17371	-0.763000	0.04740	-0.732000	0.04856	-0.259000	0.10710	CGG		0.622	DMBT1-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000050792.2	NM_004406		A	124351971	G	A	124351971	3	1	570	1	0	0	0	0	1	0	0	0	4579	1116	39	1	2438	1	DMBT1	10	124351971	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08	8940314	124351971	11182776	68	33724										
IFITM1	8519	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	315058	315058	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cctgttactggtattcggctCtgtgacagtctaccatatta	8	10	2	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr11:315058C>G	ENST00000408968.3	+	2	641	c.323C>G	c.(322-324)tCt>tGt	p.S108C	IFITM1_ENST00000328221.5_Missense_Mutation_p.S108C|IFITM1_ENST00000528780.1_Missense_Mutation_p.S108C	NM_003641.3	NP_003632	P13164	IFM1_HUMAN	interferon induced transmembrane protein 1	108	Interaction with CAV1.				cell surface receptor signaling pathway (GO:0007166)|cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|intracellular signal transduction (GO:0035556)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of viral entry into host cell (GO:0046597)|negative regulation of viral genome replication (GO:0045071)|ossification (GO:0001503)|positive regulation of osteoblast differentiation (GO:0045669)|regulation of immune response (GO:0050776)|response to interferon-alpha (GO:0035455)|response to interferon-beta (GO:0035456)|response to interferon-gamma (GO:0034341)|response to virus (GO:0009615)|type I interferon signaling pathway (GO:0060337)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	receptor signaling protein activity (GO:0005057)			large_intestine(1)|lung(3)	4		all_cancers(49;2e-09)|all_epithelial(84;3.36e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;8.85e-28)|Epithelial(43;5.52e-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)		GTATTCGGCTCTGTGACAGTC	0.507																																																0													129	129	129					11																	315058		1942	4128	6070	SO:0001583	missense	8519			J04164	CCDS41584.1	11p15.5	2012-03-15	2012-03-13		ENSG00000185885	ENSG00000185885		"CD molecules"	5412	protein-coding gene	gene with protein product	"interferon-induced transmembrane protein 1"	604456	"interferon induced transmembrane protein 1 (9-27)"	IFI17		7559564	Standard	NM_003641		Approved	9-27, CD225	uc001loy.4	P13164		ENST00000408968.3:c.323C>G	11.37:g.315058C>G	ENSP00000386187:p.Ser108Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q15322|Q53XZ0	Missense_Mutation	SNP	ENST00000408968.3	37	CCDS41584.1	.	.	.	.	.	.	.	.	.	.	C	13.15	2.150346	0.37923	.	.	ENSG00000185885	ENST00000528780;ENST00000328221;ENST00000408968	T;T;T	0.80304	-1.36;-1.36;-1.36	3.73	-0.746	0.11095	.	.	.	.	.	T	0.61578	0.2358	N	0.24115	0.695	0.09310	N	1	B	0.14012	0.009	B	0.15870	0.014	T	0.45571	-0.9252	9	0.38643	T	0.18	.	0.8934	0.01259	0.1942:0.4108:0.1719:0.2231	.	108	P13164	IFM1_HUMAN	C	108	ENSP00000437057:S108C;ENSP00000330825:S108C;ENSP00000386187:S108C	ENSP00000330825:S108C	S	+	2	0	IFITM1	305058	0.000000	0.05858	0.000000	0.03702	0.023000	0.10783	-1.419000	0.02460	-0.422000	0.07405	0.313000	0.20887	TCT		0.507	IFITM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383595.1	NM_003641		G	315058	C	G	315058	3	3	570	1	0	0	0	0	1	0	0	0	7533	913	32	4	329	4	IFITM1	11	315058	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08		315058	134691458	69	33725										
SIGIRR	59307	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	407548	407548	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gcagtcgctgtaggagacgtAggcgtcgtagagcttcccgt	15	10	0	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr11:407548A>G	ENST00000431843.2	-	6	808	c.502T>C	c.(502-504)Tac>Cac	p.Y168H	SIGIRR_ENST00000397632.3_Missense_Mutation_p.Y168H|SIGIRR_ENST00000332725.3_Missense_Mutation_p.Y168H|SIGIRR_ENST00000531205.1_Missense_Mutation_p.Y168H|SIGIRR_ENST00000529486.1_5'UTR|SIGIRR_ENST00000382520.2_Missense_Mutation_p.Y168H	NM_001135054.1	NP_001128526.1	Q6IA17	SIGIR_HUMAN	single immunoglobulin and toll-interleukin 1 receptor (TIR) domain	168	TIR. {ECO:0000255|PROSITE- ProRule:PRU00204}.				acute-phase response (GO:0006953)|negative regulation of chemokine biosynthetic process (GO:0045079)|negative regulation of cytokine-mediated signaling pathway (GO:0001960)|negative regulation of lipopolysaccharide-mediated signaling pathway (GO:0031665)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)|membrane (GO:0016020)				cervix(2)|endometrium(1)|liver(1)|lung(5)|prostate(2)|skin(1)|urinary_tract(1)	13		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TAGGAGACGTAGGCGTCGTAG	0.647																																																0													26	27	27					11																	407548		2189	4291	6480	SO:0001583	missense	59307				CCDS31325.1	11p15.5	2013-01-11	2005-10-10					"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	30575	protein-coding gene	gene with protein product	"single immunoglobulin domain IL1R1 related"	605478				10346978	Standard	NM_021805		Approved	TIR8	uc001lpe.1	Q6IA17		ENST00000431843.2:c.502T>C	11.37:g.407548A>G	ENSP00000403104:p.Tyr168His	Somatic		WXS	Illumina HiSeq	Phase_I	Q3KQY2|Q6UXI3|Q9H733	Missense_Mutation	SNP	ENST00000431843.2	37	CCDS31325.1	.	.	.	.	.	.	.	.	.	.	a	17.94	3.510696	0.64522	.	.	ENSG00000185187	ENST00000431843;ENST00000397632;ENST00000332725;ENST00000531205;ENST00000382520;ENST00000528209	T;T;T;T;T;T	0.12147	2.71;2.71;2.71;2.71;2.71;2.71	2.75	2.75	0.32379	Toll/interleukin-1 receptor homology (TIR) domain (3);	0.240626	0.36303	N	0.002663	T	0.36082	0.0954	M	0.83118	2.625	0.58432	D	0.999999	D;D	0.76494	0.999;0.987	D;D	0.72625	0.978;0.944	T	0.30001	-0.9993	10	0.87932	D	0	.	10.2759	0.43510	1.0:0.0:0.0:0.0	.	168;168	C9JFX4;Q6IA17	.;SIGIR_HUMAN	H	168;168;168;168;168;64	ENSP00000403104:Y168H;ENSP00000380756:Y168H;ENSP00000333656:Y168H;ENSP00000433022:Y168H;ENSP00000371960:Y168H;ENSP00000435135:Y64H	ENSP00000333656:Y168H	Y	-	1	0	SIGIRR	397548	1.000000	0.71417	1.000000	0.80357	0.238000	0.25445	4.453000	0.60061	1.525000	0.49052	0.240000	0.17902	TAC		0.647	SIGIRR-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383884.3	NM_021805		G	407548	A	G	407548	3	3	570	1	0	0	0	0	1	0	0	0	14317	420	15	3	750	3	SIGIRR	11	407548	Missense_Mutation	SNP	A	TCGA-DW-7840-01A-11D-2136-08	92490	407548	134598968	70	33726										
TRIM3	10612	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	6479061	6479061	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tggccgtctcacaggcctcaCagtaaaactccatcgtctgc	8	15	3	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr11:6479061C>T	ENST00000525074.1	-	4	774	c.380G>A	c.(379-381)tGt>tAt	p.C127Y	TRIM3_ENST00000529058.1_5'Flank|TRIM3_ENST00000345851.3_Missense_Mutation_p.C127Y|TRIM3_ENST00000536344.1_Missense_Mutation_p.C8Y|TRIM3_ENST00000537602.1_Missense_Mutation_p.C127Y|TRIM3_ENST00000359518.3_Missense_Mutation_p.C127Y	NM_001248006.1	NP_001234935.1	O75382	TRIM3_HUMAN	tripartite motif containing 3	127					nervous system development (GO:0007399)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|endosome (GO:0005768)	protein C-terminus binding (GO:0008022)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(8)|ovary(1)|prostate(2)|skin(3)	27		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)		ACAGGCCTCACAGTAAAACTC	0.612																																					Melanoma(6;5 510 1540 25169 29084)											0													90	80	84					11																	6479061		2201	4296	6497	SO:0001583	missense	10612			AF045239	CCDS7764.1, CCDS58115.1	11p15.5	2013-01-09	2011-01-25	2001-11-23	ENSG00000110171	ENSG00000110171		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	10064	protein-coding gene	gene with protein product	"ring finger protein 22", "brain expressed ring finger", "tripartite motif protein TRIM3"	605493	"tripartite motif-containing 3"	RNF22		10391919	Standard	NM_006458		Approved	HAC1, BERP, RNF97	uc009yfd.3	O75382	OTTHUMG00000133405	ENST00000525074.1:c.380G>A	11.37:g.6479061C>T	ENSP00000433102:p.Cys127Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z5E6|F5H2Q8|Q4V9L4|Q9C038|Q9C039	Missense_Mutation	SNP	ENST00000525074.1	37	CCDS7764.1	.	.	.	.	.	.	.	.	.	.	C	17.28	3.349821	0.61183	.	.	ENSG00000110171	ENST00000530899;ENST00000525074;ENST00000545029;ENST00000345851;ENST00000336043;ENST00000537602;ENST00000359518;ENST00000536344;ENST00000528227	D;D;D;D;D;D	0.99080	-5.4;-5.4;-5.4;-5.4;-5.4;-5.4	5.06	4.15	0.48705	Zinc finger, B-box (3);	0.000000	0.85682	D	0.000000	D	0.99489	0.9818	H	0.97131	3.945	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.98378	1.0557	10	0.87932	D	0	-8.0526	12.1727	0.54167	0.0:0.9156:0.0:0.0844	.	8;8;127	F5H2Q8;D3DQT4;O75382	.;.;TRIM3_HUMAN	Y	127;127;127;127;127;127;127;8;127	ENSP00000433102:C127Y;ENSP00000340797:C127Y;ENSP00000441091:C127Y;ENSP00000352508:C127Y;ENSP00000445460:C8Y;ENSP00000433070:C127Y	ENSP00000337094:C127Y	C	-	2	0	TRIM3	6435637	1.000000	0.71417	1.000000	0.80357	0.934000	0.57294	7.440000	0.80464	1.129000	0.42072	0.462000	0.41574	TGT		0.612	TRIM3-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384224.2	NM_006458		T	6479061	C	T	6479061	3	4	570	1	0	0	0	0	1	0	0	0	16516	478	17	2	1890	2	TRIM3	11	6479061	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	6071513	6479061	128527455	71	33727										
ALKBH3	221120	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	43905565	43905565	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gctcctgagccacgagtgatTgagtaagtaatttgctgtct	11	8	1	3			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr11:43905565T>C	ENST00000302708.4	+	4	627	c.216T>C	c.(214-216)atT>atC	p.I72I	ALKBH3_ENST00000532410.1_3'UTR|ALKBH3_ENST00000378840.4_Silent_p.I72I	NM_139178.3	NP_631917.1	Q96Q83	ALKB3_HUMAN	alkB, alkylation repair homolog 3 (E. coli)	72					cell proliferation (GO:0008283)|DNA dealkylation involved in DNA repair (GO:0006307)|DNA repair (GO:0006281)|oxidative single-stranded DNA demethylation (GO:0035552)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)	DNA-N1-methyladenine dioxygenase activity (GO:0043734)|ferrous iron binding (GO:0008198)|L-ascorbic acid binding (GO:0031418)			endometrium(2)|kidney(1)|lung(4)|prostate(1)	8					Vitamin C(DB00126)	CACGAGTGATTGAGTAAGTAA	0.433								Direct reversal of damage																																								0													256	225	236					11																	43905565		2203	4300	6503	SO:0001819	synonymous_variant	221120			AB042029	CCDS7906.1	11p11.2	2013-10-11			ENSG00000166199	ENSG00000166199		"Alkylation repair homologs"	30141	protein-coding gene	gene with protein product		610603				22055184	Standard	NM_139178		Approved	DEPC-1	uc001mxs.2	Q96Q83	OTTHUMG00000166417	ENST00000302708.4:c.216T>C	11.37:g.43905565T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NDJ1|Q3SYI0|Q6NX57|Q96BU8	Silent	SNP	ENST00000302708.4	37	CCDS7906.1																																																																																				0.433	ALKBH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389693.1	NM_139178		C	43905565	T	C	43905565	2	2	570	1	0	0	0	0	0	0	0	1	528	1800	63	3		3	ALKBH3	11	43905565	Silent	SNP	T	TCGA-DW-7840-01A-11D-2136-08	37426504	43905565	91100951	72	33728										
RCE1	9986	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	66613413	66613413	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tgcgcggccttggagcacccAcagaggcggcccctgctggc	15	16	0	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr11:66613413A>C	ENST00000309657.3	+	8	881	c.837A>C	c.(835-837)ccA>ccC	p.P279P	PC_ENST00000528224.1_5'Flank|RCE1_ENST00000525356.1_Silent_p.P156P|RCE1_ENST00000524506.1_Silent_p.P258P	NM_001032279.1|NM_005133.2	NP_001027450.1|NP_005124.1	Q9Y256	FACE2_HUMAN	Ras converting CAAX endopeptidase 1	279					CAAX-box protein processing (GO:0071586)|proteolysis (GO:0006508)	endoplasmic reticulum membrane (GO:0005789)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	cysteine-type endopeptidase activity (GO:0004197)|metalloendopeptidase activity (GO:0004222)			breast(2)|kidney(1)|large_intestine(2)|lung(2)|ovary(1)|prostate(1)|skin(1)	10						TGGAGCACCCACAGAGGCGGC	0.622																																																0													96	93	94					11																	66613413		2200	4295	6495	SO:0001819	synonymous_variant	9986			AF121951	CCDS8151.1	11q13	2013-10-18	2013-10-18	2001-06-29	ENSG00000173653	ENSG00000173653			13721	protein-coding gene	gene with protein product	"farnesylated protein-converting enzyme 2", "prenyl protein-specific endoprotease 2", "RCE1 homolog, prenyl protein protease", "CAAX prenyl protease 2"	605385	"RCE1 (S. Cerevisiae) homolog, prenyl protein protease", "RCE1 homolog, prenyl protein peptidase (S. cerevisiae)", "RCE1 homolog, prenyl protein protease (S. cerevisiae)"	RCE1A, RCE1B		10085068, 10373325	Standard	NM_005133		Approved	hRCE1, FACE-2, FACE2	uc001ojk.1	Q9Y256	OTTHUMG00000167098	ENST00000309657.3:c.837A>C	11.37:g.66613413A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q52LZ9	Silent	SNP	ENST00000309657.3	37	CCDS8151.1																																																																																				0.622	RCE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393105.1	NM_005133		C	66613413	A	C	66613413	2	2	570	1	0	0	0	0	0	0	0	1	13189	146	6	5		5	RCE1	11	66613413	Silent	SNP	A	TCGA-DW-7840-01A-11D-2136-08	22707848	66613413	68393103	73	33729			1	63		4	4	12476	N	A_-	1.908483e-05
PC	5091	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	66617140	66617141	+	Frame_Shift_Ins	INS	-	-	G													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gcgagtattcaggctatccaINSgggggccaaaggtggcagtg							TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr11:66617140_66617141insG	ENST00000393958.2	-	20	3181_3182	c.3088_3089insC	c.(3088-3090)ctgfs	p.L1030fs	PC_ENST00000393955.2_Frame_Shift_Ins_p.L1030fs|PC_ENST00000528224.1_5'UTR|PC_ENST00000393960.1_Frame_Shift_Ins_p.L1030fs|PC_ENST00000529047.1_Frame_Shift_Ins_p.L150fs	NM_000920.3	NP_000911.2	P11498	PYC_HUMAN	pyruvate carboxylase	1030					biotin metabolic process (GO:0006768)|carbohydrate metabolic process (GO:0005975)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|lipid metabolic process (GO:0006629)|oxaloacetate metabolic process (GO:0006107)|pyruvate metabolic process (GO:0006090)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|biotin binding (GO:0009374)|biotin carboxylase activity (GO:0004075)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)|pyruvate carboxylase activity (GO:0004736)			cervix(1)|endometrium(3)|kidney(3)|large_intestine(9)|lung(12)|ovary(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	32		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	CAGGCTATCCAGGGGGCCAAAG	0.604																																																0																																										SO:0001589	frameshift_variant	5091			U04641	CCDS8152.1	11q13.4-q13.5	2012-07-11			ENSG00000173599	ENSG00000173599	6.4.1.1		8636	protein-coding gene	gene with protein product		608786				6548474	Standard	NM_022172		Approved	PCB	uc001ojn.1	P11498	OTTHUMG00000167099	ENST00000393958.2:c.3089dupC	11.37:g.66617145_66617145dupG	ENSP00000377530:p.Leu1030fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DN00|Q16705	Frame_Shift_Ins	INS	ENST00000393958.2	37	CCDS8152.1																																																																																				0.604	PC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393115.1	NM_001040716		G	66617141	-	G	66617140	7	5	570	1	0	1	1	0	0	0	0	0	11504	188	7	0	459	0	PC	11	66617140	Frame_Shift_Ins	INS	-	TCGA-DW-7840-01A-11D-2136-08	3727	66617140	68389376	74	33730			1	63		4	4	12476	N	A_-	1.908483e-05
PC	5091	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	66620716	66620716	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gtctcgggccagaccgaggtAgtgcaacagcttttgggccc	14	12	1	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr11:66620716A>T	ENST00000393958.2	-	12	1600	c.1507T>A	c.(1507-1509)Tac>Aac	p.Y503N	PC_ENST00000393955.2_Missense_Mutation_p.Y503N|PC_ENST00000393960.1_Missense_Mutation_p.Y503N|PC_ENST00000529047.1_5'Flank	NM_000920.3	NP_000911.2	P11498	PYC_HUMAN	pyruvate carboxylase	503					biotin metabolic process (GO:0006768)|carbohydrate metabolic process (GO:0005975)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|lipid metabolic process (GO:0006629)|oxaloacetate metabolic process (GO:0006107)|pyruvate metabolic process (GO:0006090)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|biotin binding (GO:0009374)|biotin carboxylase activity (GO:0004075)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)|pyruvate carboxylase activity (GO:0004736)			cervix(1)|endometrium(3)|kidney(3)|large_intestine(9)|lung(12)|ovary(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	32		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	AGACCGAGGTAGTGCAACAGC	0.622																																																0													122	92	102					11																	66620716		2200	4295	6495	SO:0001583	missense	5091			U04641	CCDS8152.1	11q13.4-q13.5	2012-07-11			ENSG00000173599	ENSG00000173599	6.4.1.1		8636	protein-coding gene	gene with protein product		608786				6548474	Standard	NM_022172		Approved	PCB	uc001ojn.1	P11498	OTTHUMG00000167099	ENST00000393958.2:c.1507T>A	11.37:g.66620716A>T	ENSP00000377530:p.Tyr503Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B4DN00|Q16705	Missense_Mutation	SNP	ENST00000393958.2	37	CCDS8152.1	.	.	.	.	.	.	.	.	.	.	A	17.36	3.370348	0.61624	.	.	ENSG00000173599	ENST00000393955;ENST00000393958;ENST00000393960	D;D;D	0.96745	-4.11;-4.11;-4.11	4.15	4.15	0.48705	.	0.000000	0.85682	D	0.000000	D	0.98435	0.9479	H	0.95780	3.72	0.80722	D	1	D	0.76494	0.999	D	0.72982	0.979	D	0.98985	1.0806	10	0.87932	D	0	-24.4033	11.2003	0.48736	1.0:0.0:0.0:0.0	.	503	P11498	PYC_HUMAN	N	503	ENSP00000377527:Y503N;ENSP00000377530:Y503N;ENSP00000377532:Y503N	ENSP00000377527:Y503N	Y	-	1	0	PC	66377292	1.000000	0.71417	1.000000	0.80357	0.264000	0.26372	8.288000	0.89921	1.744000	0.51775	0.379000	0.24179	TAC		0.622	PC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393115.1	NM_001040716		T	66620716	A	T	66620716	3	4	570	1	0	0	0	0	1	0	0	0	11504	420	15	5	2073	5	PC	11	66620716	Missense_Mutation	SNP	A	TCGA-DW-7840-01A-11D-2136-08	3576	66620716	68385800	75	33731			1	63		4	4	12476	N	A_-	1.908483e-05
LRFN4	78999	broad.mit.edu	37	chr11	66625888	66625889	+	Frame_Shift_Ins	INS	-	-	C													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tgatgcagaggcctctcccgINScccccctggtgctgagcttt							TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr11:66625888_66625889insC	ENST00000309602.4	+	1	916_917	c.673_674insC	c.(673-675)gccfs	p.A225fs	PC_ENST00000393955.2_Intron|LRFN4_ENST00000393952.3_Frame_Shift_Ins_p.A225fs|PC_ENST00000393960.1_Intron|PC_ENST00000393958.2_Intron	NM_024036.4	NP_076941.2	Q6PJG9	LRFN4_HUMAN	leucine rich repeat and fibronectin type III domain containing 4	225						integral component of membrane (GO:0016021)				breast(1)|lung(1)|prostate(1)	3						GGCCTCTCCCGCCCCCCTGGTG	0.698																																																0																																										SO:0001589	frameshift_variant	78999			BC007718	CCDS8153.1	11q13.1	2013-02-11				ENSG00000173621		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	28456	protein-coding gene	gene with protein product	"fibronectin type III, immunoglobulin and leucine rich repeat domains 6"	612810				16495444, 16828986	Standard	NM_024036		Approved	MGC3103, SALM3., FIGLER6	uc001ojr.3	Q6PJG9		ENST00000309602.4:c.679dupC	11.37:g.66625894_66625894dupC	ENSP00000312535:p.Ala225fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VBZ3|Q59GV4|Q8N644|Q9BWJ0	Frame_Shift_Ins	INS	ENST00000309602.4	37	CCDS8153.1																																																																																				0.698	LRFN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393127.1	NM_024036		C	66625889	-	C	66625888	7	5	570	1	0	1	1	0	0	0	0	0	8947	1087	38	0	675	0	LRFN4	11	66625888	Frame_Shift_Ins	INS	-	TCGA-DW-7840-01A-11D-2136-08	5172	66625888	68380628	76	33732			1	63		4	4	12476	N	A_-	1.908483e-05
UVRAG	7405	hgsc.bcm.edu	37	chr11	75526481	75526481	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ctccgcgtcggtcgggggccCcgtcccccagccacccccgg	13	22	0	0	rs386755092|rs7118567	byFrequency	TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr11:75526481C>A	ENST00000356136.3	+	1	270	c.29C>A	c.(28-30)cCc>cAc	p.P10H	RP11-535A19.2_ENST00000533945.1_RNA|RP11-535A19.2_ENST00000531263.1_RNA|RP11-535A19.2_ENST00000527219.1_RNA|RP11-535A19.2_ENST00000533590.1_RNA|RP11-535A19.2_ENST00000529719.1_RNA	NM_003369.3	NP_003360.2	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	10			P -> H (in dbSNP:rs7118567).		DNA repair (GO:0006281)|positive regulation of autophagy (GO:0010508)|SNARE complex assembly (GO:0035493)|viral entry into host cell (GO:0046718)	cytoplasm (GO:0005737)|early endosome (GO:0005769)|late endosome (GO:0005770)|lysosome (GO:0005764)|phagocytic vesicle (GO:0045335)|protein complex (GO:0043234)				central_nervous_system(1)|cervix(3)|endometrium(3)|kidney(1)|large_intestine(2)|lung(15)|skin(5)|urinary_tract(2)	32						GTCGGGGGCCCCGTCCCCCAG	0.776													A|||	971	0.19389	0.3389	0.1153	5008	,	,		9602	0.2401		0.0815	False		,,,				2504	0.1217															0													1	1	1					11																	75526481		706	1693	2399	SO:0001583	missense	7405			X99050, AB012958	CCDS8241.1	11q13	2012-11-15	2012-11-15		ENSG00000198382	ENSG00000198382			12640	protein-coding gene	gene with protein product	"beclin 1 binding protein"	602493	"UV radiation resistance associated gene"			9169138, 16799551, 18843052	Standard	NM_003369		Approved	VPS38	uc001oxc.3	Q9P2Y5	OTTHUMG00000165319	ENST00000356136.3:c.29C>A	11.37:g.75526481C>A	ENSP00000348455:p.Pro10His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KTC1|O00392	Missense_Mutation	SNP	ENST00000356136.3	37	CCDS8241.1	377	0.17261904761904762	147	0.29878048780487804	48	0.13259668508287292	116	0.20279720279720279	66	0.0870712401055409	A	10.69	1.420343	0.25552	.	.	ENSG00000198382	ENST00000356136	T	0.54479	0.57	5.01	2.06	0.26882	C2 calcium/lipid-binding domain, CaLB (1);	0.244913	0.34853	N	0.003637	T	0.00012	0.0000	N	0.14661	0.345	0.09310	P	0.99999999749761	B	0.32693	0.38	B	0.31547	0.132	T	0.29150	-1.0021	9	0.72032	D	0.01	-1.9932	7.7013	0.28625	0.2862:0.6307:0.0:0.0831	rs7118567	10	Q9P2Y5	UVRAG_HUMAN	H	10	ENSP00000348455:P10H	ENSP00000348455:P10H	P	+	2	0	UVRAG	75204129	0.480000	0.25933	0.967000	0.41034	0.005000	0.04900	0.039000	0.13884	0.382000	0.24878	-3.014000	0.00075	CCC		0.776	UVRAG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383430.1	NM_003369		A	75526481	C	A	75526481	3	1	570	1	0	0	0	0	1	0	0	0	17120	623	22	4	31	4	UVRAG	11	75526481	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	8900593	75526481	59480035	77	33733										
PHLDB1	23187	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	118513026	118513026	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	agcagtggtaccaggagctgAtggccgggctggggactggc	19	9	0	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr11:118513026A>T	ENST00000361417.2	+	14	3202	c.2791A>T	c.(2791-2793)Atg>Ttg	p.M931L	PHLDB1_ENST00000524713.1_Missense_Mutation_p.M74L|PHLDB1_ENST00000534672.1_Intron|PHLDB1_ENST00000356063.5_Intron|PHLDB1_ENST00000527898.1_Intron	NM_015157.3	NP_055972.1	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B, member 1	931										breast(3)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(10)|liver(3)|lung(14)|ovary(2)|pancreas(1)|prostate(3)|skin(1)	46	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		CCAGGAGCTGATGGCCGGGCT	0.642																																																0													76	79	78					11																	118513026		2200	4295	6495	SO:0001583	missense	23187				CCDS8401.1, CCDS44750.1	11q23.3	2013-01-10			ENSG00000019144	ENSG00000019144		"Pleckstrin homology (PH) domain containing"	23697	protein-coding gene	gene with protein product		612834				14532993	Standard	NM_015157		Approved	FLJ00141, LL5a, KIAA0638	uc001pts.3	Q86UU1	OTTHUMG00000166341	ENST00000361417.2:c.2791A>T	11.37:g.118513026A>T	ENSP00000354498:p.Met931Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ63|B0YJ64|O75133|Q4KMF8|Q8TEQ2	Missense_Mutation	SNP	ENST00000361417.2	37	CCDS8401.1	.	.	.	.	.	.	.	.	.	.	A	15.56	2.870388	0.51588	.	.	ENSG00000019144	ENST00000361417;ENST00000361465;ENST00000358191;ENST00000524713	T;T	0.50813	1.52;0.73	5.14	5.14	0.70334	.	0.543120	0.21674	N	0.070828	T	0.34832	0.0911	L	0.40543	1.245	0.26911	N	0.966889	B;B;B	0.24576	0.106;0.039;0.01	B;B;B	0.25614	0.062;0.019;0.011	T	0.27706	-1.0066	10	0.02654	T	1	-9.3743	12.3456	0.55119	1.0:0.0:0.0:0.0	.	69;74;931	B7Z2B9;B4DK17;Q86UU1	.;.;PHLB1_HUMAN	L	931;690;295;74	ENSP00000354498:M931L;ENSP00000434905:M74L	ENSP00000350921:M295L	M	+	1	0	PHLDB1	118018236	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	3.723000	0.54955	1.925000	0.55765	0.379000	0.24179	ATG		0.642	PHLDB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389279.1	NM_015157		T	118513026	A	T	118513026	3	4	570	1	0	0	0	0	1	0	0	0	11858	333	12	5	2837	5	PHLDB1	11	118513026	Missense_Mutation	SNP	A	TCGA-DW-7840-01A-11D-2136-08	42986545	118513026	16493490	78	33734										
LRP6	4040	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	12334248	12334248	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gatgtagccttccacaggatCgtaatctatggcaatggcat	10	9	1	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr12:12334248C>T	ENST00000261349.4	-	6	1178	c.1102G>A	c.(1102-1104)Gat>Aat	p.D368N	LRP6_ENST00000543091.1_Missense_Mutation_p.D368N	NM_002336.2	NP_002327.2	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein 6	368	Beta-propeller 2.				anterior/posterior pattern specification (GO:0009952)|axis elongation involved in somitogenesis (GO:0090245)|bone morphogenesis (GO:0060349)|bone remodeling (GO:0046849)|branching involved in mammary gland duct morphogenesis (GO:0060444)|canonical Wnt signaling pathway (GO:0060070)|canonical Wnt signaling pathway involved in cardiac neural crest cell differentiation involved in heart development (GO:0061310)|canonical Wnt signaling pathway involved in neural crest cell differentiation (GO:0044335)|canonical Wnt signaling pathway involved in positive regulation of cardiac outflow tract cell proliferation (GO:0061324)|canonical Wnt signaling pathway involved in regulation of cell proliferation (GO:0044340)|cell migration involved in gastrulation (GO:0042074)|cellular response to cholesterol (GO:0071397)|cerebellum morphogenesis (GO:0021587)|cerebral cortex cell migration (GO:0021795)|cerebral cortex development (GO:0021987)|convergent extension (GO:0060026)|dopaminergic neuron differentiation (GO:0071542)|embryonic camera-type eye morphogenesis (GO:0048596)|embryonic digit morphogenesis (GO:0042733)|embryonic forelimb morphogenesis (GO:0035115)|embryonic hindlimb morphogenesis (GO:0035116)|embryonic limb morphogenesis (GO:0030326)|embryonic pattern specification (GO:0009880)|embryonic retina morphogenesis in camera-type eye (GO:0060059)|external genitalia morphogenesis (GO:0035261)|face morphogenesis (GO:0060325)|forebrain radial glial cell differentiation (GO:0021861)|formation of radial glial scaffolds (GO:0021943)|gastrulation with mouth forming second (GO:0001702)|heart looping (GO:0001947)|mammary placode formation (GO:0060596)|midbrain development (GO:0030901)|midbrain-hindbrain boundary development (GO:0030917)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of planar cell polarity pathway involved in cardiac muscle tissue morphogenesis (GO:2000151)|negative regulation of planar cell polarity pathway involved in cardiac right atrium morphogenesis (GO:2000162)|negative regulation of planar cell polarity pathway involved in neural tube closure (GO:2000168)|negative regulation of planar cell polarity pathway involved in outflow tract morphogenesis (GO:2000164)|negative regulation of planar cell polarity pathway involved in pericardium morphogenesis (GO:2000166)|negative regulation of planar cell polarity pathway involved in ventricular septum morphogenesis (GO:2000149)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of protein serine/threonine kinase activity (GO:0071901)|negative regulation of smooth muscle cell apoptotic process (GO:0034392)|neural crest cell differentiation (GO:0014033)|neural crest formation (GO:0014029)|neural tube closure (GO:0001843)|odontogenesis of dentin-containing tooth (GO:0042475)|palate development (GO:0060021)|pericardium morphogenesis (GO:0003344)|positive regulation of apoptotic process (GO:0043065)|positive regulation of bone resorption (GO:0045780)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cell cycle (GO:0045787)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of ossification (GO:0045778)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of Wnt signaling pathway involved in dorsal/ventral axis specification (GO:2000055)|post-anal tail morphogenesis (GO:0036342)|primitive streak formation (GO:0090009)|receptor-mediated endocytosis of low-density lipoprotein particle involved in cholesterol transport (GO:0090118)|regulation of cell development (GO:0060284)|regulation of fat cell differentiation (GO:0045598)|regulation of ossification (GO:0030278)|response to folic acid (GO:0051593)|response to peptide hormone (GO:0043434)|single organismal cell-cell adhesion (GO:0016337)|synaptic transmission (GO:0007268)|thalamus development (GO:0021794)|toxin transport (GO:1901998)|trachea cartilage morphogenesis (GO:0060535)|Wnt signaling pathway (GO:0016055)|Wnt signaling pathway involved in dorsal/ventral axis specification (GO:0044332)|Wnt signaling pathway involved in forebrain neuroblast division (GO:0021874)|Wnt signaling pathway involved in somitogenesis (GO:0090244)	cell surface (GO:0009986)|cytoplasmic vesicle (GO:0031410)|early endosome (GO:0005769)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|synapse (GO:0045202)	apolipoprotein binding (GO:0034185)|coreceptor activity involved in Wnt signaling pathway (GO:0071936)|frizzled binding (GO:0005109)|identical protein binding (GO:0042802)|kinase inhibitor activity (GO:0019210)|low-density lipoprotein receptor activity (GO:0005041)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)|toxin transporter activity (GO:0019534)|Wnt-activated receptor activity (GO:0042813)|Wnt-protein binding (GO:0017147)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(19)|lung(28)|ovary(3)|prostate(2)|skin(7)|upper_aerodigestive_tract(5)|urinary_tract(1)	85		Prostate(47;0.0865)				TCCACAGGATCGTAATCTATG	0.453																																																0													199	170	180					12																	12334248		2203	4300	6503	SO:0001583	missense	4040			AF074264	CCDS8647.1	12p13.2	2013-05-29			ENSG00000070018	ENSG00000070018		"Low density lipoprotein receptors"	6698	protein-coding gene	gene with protein product		603507				9704021	Standard	NM_002336		Approved	ADCAD2	uc001rah.4	O75581	OTTHUMG00000168540	ENST00000261349.4:c.1102G>A	12.37:g.12334248C>T	ENSP00000261349:p.Asp368Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RZ2	Missense_Mutation	SNP	ENST00000261349.4	37	CCDS8647.1	.	.	.	.	.	.	.	.	.	.	C	27.6	4.848081	0.91277	.	.	ENSG00000070018	ENST00000261349;ENST00000543091	D;D	0.92545	-3.06;-3.06	5.82	5.82	0.92795	Six-bladed beta-propeller, TolB-like (1);	0.000000	0.64402	D	0.000006	D	0.96396	0.8824	M	0.89534	3.04	0.80722	D	1	D;D	0.67145	0.994;0.996	P;P	0.57960	0.79;0.83	D	0.96559	0.9414	10	0.72032	D	0.01	.	20.0991	0.97865	0.0:1.0:0.0:0.0	.	368;368	F5H7J9;O75581	.;LRP6_HUMAN	N	368	ENSP00000261349:D368N;ENSP00000442472:D368N	ENSP00000261349:D368N	D	-	1	0	LRP6	12225515	1.000000	0.71417	0.999000	0.59377	0.942000	0.58702	5.999000	0.70665	2.752000	0.94435	0.655000	0.94253	GAT		0.453	LRP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400137.1			T	12334248	C	T	12334248	3	4	570	1	0	0	0	0	1	0	0	0	8969	884	31	1	3811	1	LRP6	12	12334248	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08		12334248	121517647	79	33735										
PPFIA2	8499	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr12	81671123	81671123	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ttcatgttggcttgcttcccGtcttctttctagttcttttc	6	11	5	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr12:81671123G>A	ENST00000549396.1	-	28	3443	c.3283C>T	c.(3283-3285)Cgg>Tgg	p.R1095W	PPFIA2_ENST00000541570.2_Missense_Mutation_p.R631W|PPFIA2_ENST00000333447.7_Missense_Mutation_p.R1083W|PPFIA2_ENST00000545296.2_Intron|PPFIA2_ENST00000550584.2_Missense_Mutation_p.R1095W|PPFIA2_ENST00000549325.1_Missense_Mutation_p.R1080W|PPFIA2_ENST00000443686.3_Missense_Mutation_p.R990W|PPFIA2_ENST00000552948.1_Missense_Mutation_p.R1074W|PPFIA2_ENST00000407050.4_Missense_Mutation_p.R994W|RP11-121G22.3_ENST00000549161.1_lincRNA|PPFIA2_ENST00000541017.1_Missense_Mutation_p.R281W|PPFIA2_ENST00000548586.1_Missense_Mutation_p.R1089W|PPFIA2_ENST00000550359.2_Missense_Mutation_p.R942W	NM_001220476.1|NM_001282536.1|NM_003625.3	NP_001207405.1|NP_001269465.1|NP_003616.2	O75334	LIPA2_HUMAN	protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 2	1095					cell-matrix adhesion (GO:0007160)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|presynaptic active zone (GO:0048786)				NS(1)|autonomic_ganglia(1)|central_nervous_system(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(15)|lung(37)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(5)	85						CTTGCTTCCCGTCTTCTTTCT	0.274																																																0													130	117	121					12																	81671123		1797	4055	5852	SO:0001583	missense	8499			AF034799	CCDS55850.1, CCDS55851.1, CCDS55852.1, CCDS55853.1, CCDS55854.1, CCDS55855.1, CCDS55856.1, CCDS55857.1, CCDS59236.1, CCDS73503.1	12q21.31	2013-01-10						"Sterile alpha motif (SAM) domain containing"	9246	protein-coding gene	gene with protein product	"Liprin-alpha2"	603143				9624153	Standard	NM_003625		Approved		uc031qis.1	O75334		ENST00000549396.1:c.3283C>T	12.37:g.81671123G>A	ENSP00000450337:p.Arg1095Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVT5|B3KXA0|B7Z2A6|B7Z3U9|B7Z663|B7ZKZ5|E7ERB8|E7ETG6|F8VP68|Q2M3G8	Missense_Mutation	SNP	ENST00000549396.1	37	CCDS55857.1	.	.	.	.	.	.	.	.	.	.	G	18.73	3.686642	0.68157	.	.	ENSG00000139220	ENST00000549396;ENST00000549325;ENST00000541570;ENST00000541017;ENST00000407050;ENST00000541501;ENST00000333447;ENST00000548586;ENST00000443686;ENST00000552948	T;T;T;T;T;T;T;T;T	0.38240	1.92;1.93;1.55;1.15;1.5;1.92;1.92;1.6;1.85	5.71	3.83	0.44106	Sterile alpha motif/pointed domain (1);	0.131846	0.49916	D	0.000132	T	0.69178	0.3082	H	0.94847	3.59	0.58432	D	0.999996	D	0.89917	1.0	D	0.83275	0.996	T	0.77705	-0.2488	10	0.87932	D	0	-12.2793	13.6442	0.62270	0.0:0.0:0.4348:0.5652	.	1095	O75334	LIPA2_HUMAN	W	1095;1080;631;281;994;1106;1083;1089;990;1074	ENSP00000450337:R1095W;ENSP00000450298:R1080W;ENSP00000438337:R631W;ENSP00000445532:R281W;ENSP00000385093:R994W;ENSP00000327416:R1083W;ENSP00000449338:R1089W;ENSP00000388373:R990W;ENSP00000447868:R1074W	ENSP00000327416:R1083W	R	-	1	2	PPFIA2	80195254	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	3.119000	0.50422	0.721000	0.32231	-0.181000	0.13052	CGG		0.274	PPFIA2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000408030.1			A	81671123	G	A	81671123	3	1	570	1	0	0	0	0	1	0	0	0	12317	1144	40	1	510	1	PPFIA2	12	81671123	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08	69336875	81671123	52180772	80	33736										
RASSF9	9182	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	86199543	86199543	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ccctttcggagcctctccacTtctctatgatgcagtaatca	6	14	3	1	rs367564230		TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr12:86199543T>C	ENST00000361228.3	-	2	613	c.245A>G	c.(244-246)aAg>aGg	p.K82R		NM_005447.3	NP_005438.2	O75901	RASF9_HUMAN	Ras association (RalGDS/AF-6) domain family (N-terminal) member 9	82	Ras-associating. {ECO:0000255|PROSITE- ProRule:PRU00166}.				endosomal transport (GO:0016197)|protein targeting (GO:0006605)|signal transduction (GO:0007165)	cytosol (GO:0005829)|endosome (GO:0005768)|trans-Golgi network transport vesicle membrane (GO:0012510)	transporter activity (GO:0005215)			endometrium(2)|kidney(2)|large_intestine(3)|liver(1)|lung(11)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	22						GCCTCTCCACTTCTCTATGAT	0.473																																																0													95	95	95					12																	86199543		1885	4121	6006	SO:0001583	missense	9182				CCDS44950.1	12q21.31	2008-02-22	2008-02-22	2008-02-22		ENSG00000198774			15739	protein-coding gene	gene with protein product		610383	"peptidylglycine alpha-amidating monooxygenase COOH-terminal interactor"	PAMCI		9837933, 18272789	Standard	NM_005447		Approved	P-CIP1	uc001taf.1	O75901	OTTHUMG00000169831	ENST00000361228.3:c.245A>G	12.37:g.86199543T>C	ENSP00000354884:p.Lys82Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B3KMQ4|Q8N5U8	Missense_Mutation	SNP	ENST00000361228.3	37	CCDS44950.1	.	.	.	.	.	.	.	.	.	.	T	16.30	3.084459	0.55861	.	.	ENSG00000198774	ENST00000361228	T	0.46451	0.87	4.82	4.82	0.62117	Ras-association (2);	0.139782	0.47852	D	0.000216	T	0.30479	0.0766	L	0.33485	1.01	0.37061	D	0.898052	P	0.46784	0.884	B	0.39152	0.292	T	0.22487	-1.0215	10	0.16420	T	0.52	-5.5864	14.68	0.69009	0.0:0.0:0.0:1.0	.	82	O75901	RASF9_HUMAN	R	82	ENSP00000354884:K82R	ENSP00000354884:K82R	K	-	2	0	RASSF9	84723674	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	1.997000	0.40786	1.941000	0.56285	0.421000	0.28195	AAG		0.473	RASSF9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406109.1			C	86199543	T	C	86199543	3	2	570	1	0	0	0	0	1	0	0	0	13106	1609	56	3	1066	3	RASSF9	12	86199543	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	4528420	86199543	47652352	81	33737										
ANKS1B	56899	hgsc.bcm.edu	37	chr12	100048989	100048989	+	Splice_Site	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ttgattgtagatgaggttctCtgaaattaaatttatatcat	7	3	2	4			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr12:100048989C>G	ENST00000547776.2	-	9	1128		c.e9-1		ANKS1B_ENST00000547010.1_Splice_Site|ANKS1B_ENST00000329257.7_Splice_Site	NM_152788.4	NP_690001.3	Q7Z6G8	ANS1B_HUMAN	ankyrin repeat and sterile alpha motif domain containing 1B							cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|postsynaptic membrane (GO:0045211)	ephrin receptor binding (GO:0046875)			NS(1)|breast(1)|cervix(1)|endometrium(4)|kidney(6)|large_intestine(15)|lung(38)|pancreas(1)|prostate(2)|skin(1)	70		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)		ATGAGGTTCTCTGAAATTAAA	0.323																																																0													68	61	63					12																	100048989		1821	4073	5894	SO:0001630	splice_region_variant	56899			AF145204	CCDS55864.1, CCDS55865.1, CCDS55866.1, CCDS55867.1, CCDS55868.1, CCDS55869.1, CCDS55870.1, CCDS55871.1, CCDS55872.1	12q23.1	2013-01-10						"Sterile alpha motif (SAM) domain containing", "Ankyrin repeat domain containing"	24600	protein-coding gene	gene with protein product		607815				10490826, 12415113	Standard	NM_020140		Approved	EB-1, AIDA-1, cajalin-2, ANKS2	uc001tge.2	Q7Z6G8		ENST00000547776.2:c.1129-1G>C	12.37:g.100048989C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A5PKY5|A7E259|A8K153|A8MSN4|B4DFP6|B4DH98|F8VPM3|F8VZR9|F8WC27|Q5XLJ0|Q6IVB5|Q6NUS4|Q7Z6G6|Q7Z6G7|Q8TAP3|Q9NRX7|Q9Y5K9	Splice_Site	SNP	ENST00000547776.2	37	CCDS55872.1	.	.	.	.	.	.	.	.	.	.	C	19.31	3.802946	0.70682	.	.	ENSG00000185046	ENST00000547776;ENST00000329257;ENST00000549866	.	.	.	5.56	5.56	0.83823	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.4502	0.83977	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	ANKS1B	98573120	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	4.743000	0.62110	2.616000	0.88540	0.650000	0.86243	.		0.323	ANKS1B-003	KNOWN	basic|appris_candidate_longest|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000408421.3	NM_020140	Intron	G	100048989	C	G	100048989	5	3	570	1	0	0	0	0	0	0	1	0	689	927	32	4	2978	4	ANKS1B	12	100048989	Splice_Site	SNP	C	TCGA-DW-7840-01A-11D-2136-08	13849446	100048989	33802906	82	33738										
TDG	6996	hgsc.bcm.edu	37	chr12	104378526	104378526	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tataaaatgttgtgattctaGctctgctatgttatgccatc	7	7	2	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr12:104378526G>T	ENST00000392872.3	+	8	1026		c.e8-1		TDG_ENST00000542036.1_Splice_Site|TDG_ENST00000544861.1_Splice_Site|TDG_ENST00000266775.9_Splice_Site|AC078819.1_ENST00000401157.1_RNA	NM_003211.4	NP_003202.3	Q13569	TDG_HUMAN	thymine-DNA glycosylase						base-excision repair (GO:0006284)|base-excision repair, AP site formation (GO:0006285)|chromatin modification (GO:0016568)|depyrimidination (GO:0045008)|DNA demethylation (GO:0080111)|DNA repair (GO:0006281)|embryo development (GO:0009790)|mismatch repair (GO:0006298)|negative regulation of chromatin binding (GO:0035562)|negative regulation of protein binding (GO:0032091)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of gene expression, epigenetic (GO:0040029)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|PML body (GO:0016605)	damaged DNA binding (GO:0003684)|DNA N-glycosylase activity (GO:0019104)|double-stranded DNA binding (GO:0003690)|mismatched DNA binding (GO:0030983)|protein homodimerization activity (GO:0042803)|pyrimidine-specific mismatch base pair DNA N-glycosylase activity (GO:0008263)|RNA polymerase II transcription cofactor activity (GO:0001104)|structure-specific DNA binding (GO:0043566)			large_intestine(2)|lung(14)|ovary(4)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)	24				BRCA - Breast invasive adenocarcinoma(302;0.00114)		TGTGATTCTAGCTCTGCTATG	0.323								Base excision repair (BER), DNA glycosylases																																								0													45	42	43					12																	104378526		2203	4300	6503	SO:0001630	splice_region_variant	6996			U51166	CCDS9095.1	12q24.1	2014-05-14			ENSG00000139372	ENSG00000139372	3.2.2.29		11700	protein-coding gene	gene with protein product	"G/T mismatch-specific thymine DNA glycosylase"	601423				8662714, 9299239	Standard	NM_003211		Approved		uc001tkg.3	Q13569	OTTHUMG00000168418	ENST00000392872.3:c.793-1G>T	12.37:g.104378526G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUZ6|Q8IZM3	Splice_Site	SNP	ENST00000392872.3	37	CCDS9095.1	.	.	.	.	.	.	.	.	.	.	G	21.1	4.099218	0.76983	.	.	ENSG00000139372	ENST00000392872;ENST00000266775;ENST00000544861;ENST00000542036	.	.	.	5.99	5.99	0.97316	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	20.4777	0.99188	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	TDG	102902656	1.000000	0.71417	1.000000	0.80357	0.785000	0.44390	9.869000	0.99810	2.840000	0.97914	0.655000	0.94253	.		0.323	TDG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399673.2		Intron	T	104378526	G	T	104378526	5	4	570	1	0	0	0	0	0	0	1	0	15737	985	34	4	822	4	TDG	12	104378526	Splice_Site	SNP	G	TCGA-DW-7840-01A-11D-2136-08	4329537	104378526	29473369	83	33739										
ATP2A2	488	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	110765478	110765478	+	Frame_Shift_Del	DEL	C	C	-													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	aggagagaacaccccttcagCaaaaactagatgaatttggg							TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr12:110765478delC	ENST00000539276.2	+	8	860	c.751delC	c.(751-753)caafs	p.Q251fs	ATP2A2_ENST00000395494.2_Frame_Shift_Del_p.Q224fs|ATP2A2_ENST00000308664.6_Frame_Shift_Del_p.Q251fs			P16615	AT2A2_HUMAN	ATPase, Ca++ transporting, cardiac muscle, slow twitch 2	251					blood coagulation (GO:0007596)|calcium ion transmembrane transport (GO:0070588)|cell adhesion (GO:0007155)|cellular calcium ion homeostasis (GO:0006874)|epidermis development (GO:0008544)|ER-nucleus signaling pathway (GO:0006984)|ion transmembrane transport (GO:0034220)|negative regulation of heart contraction (GO:0045822)|positive regulation of heart rate (GO:0010460)|regulation of cardiac muscle cell membrane potential (GO:0086036)|regulation of the force of heart contraction (GO:0002026)|relaxation of cardiac muscle (GO:0055119)|sarcoplasmic reticulum calcium ion transport (GO:0070296)|transmembrane transport (GO:0055085)|transport (GO:0006810)	endoplasmic reticulum membrane (GO:0005789)|integral component of plasma membrane (GO:0005887)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|platelet dense tubular network membrane (GO:0031095)|sarcoplasmic reticulum (GO:0016529)|sarcoplasmic reticulum membrane (GO:0033017)	ATP binding (GO:0005524)|calcium-transporting ATPase activity (GO:0005388)|calcium-transporting ATPase activity involved in regulation of cardiac muscle cell membrane potential (GO:0086039)|enzyme binding (GO:0019899)|metal ion binding (GO:0046872)|protein C-terminus binding (GO:0008022)|S100 protein binding (GO:0044548)			NS(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(10)|ovary(3)|pancreas(1)|prostate(2)|skin(4)|urinary_tract(1)	38						ACCCCTTCAGCAAAAACTAGA	0.453																																																0													166	166	166					12																	110765478		2203	4300	6503	SO:0001589	frameshift_variant	488				CCDS9143.1, CCDS9144.1	12q24.11	2012-10-22			ENSG00000174437	ENSG00000174437	3.6.3.8	"ATPases / P-type"	812	protein-coding gene	gene with protein product	"sarcoplasmic/endoplasmic reticulum calcium ATPase 2", "calcium pump 2"	108740		ATP2B, DAR		10080178	Standard	NM_170665		Approved	SERCA2	uc001tqk.4	P16615	OTTHUMG00000169327	ENST00000539276.2:c.751delC	12.37:g.110765478delC	ENSP00000440045:p.Gln251fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDN7|B4DF05|P16614|Q86VJ2	Frame_Shift_Del	DEL	ENST00000539276.2	37	CCDS9144.1																																																																																				0.453	ATP2A2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000403539.1	NM_001681		-	110765478	C	-	110765478	7	5	570	1	0	1	0	1	0	0	0	0	1137	711	25	0	781	0	ATP2A2	12	110765478	Frame_Shift_Del	DEL	C	TCGA-DW-7840-01A-11D-2136-08	6386952	110765478	23086417	84	33740										
NCOR2	9612	hgsc.bcm.edu	37	chr12	124829474	124829474	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gagccagtggtggacgcgccGgtgtcgtacttgagcggggt	19	9	0	1	rs61241227	byFrequency	TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr12:124829474G>A	ENST00000405201.1	-	32	4383	c.4383C>T	c.(4381-4383)acC>acT	p.T1461T	NCOR2_ENST00000397355.1_Silent_p.T1452T|NCOR2_ENST00000404621.1_Silent_p.T1451T|NCOR2_ENST00000429285.2_Silent_p.T1451T|NCOR2_ENST00000356219.3_Silent_p.T1468T|NCOR2_ENST00000404121.2_Silent_p.T1022T			Q9Y618	NCOR2_HUMAN	nuclear receptor corepressor 2	1469					cellular lipid metabolic process (GO:0044255)|gene expression (GO:0010467)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|regulation of cellular ketone metabolic process by negative regulation of transcription from RNA polymerase II promoter (GO:0072365)|small molecule metabolic process (GO:0044281)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	membrane (GO:0016020)|nuclear body (GO:0016604)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|histone deacetylase binding (GO:0042826)|Notch binding (GO:0005112)|protein N-terminus binding (GO:0047485)|transcription corepressor activity (GO:0003714)			breast(5)|central_nervous_system(2)|endometrium(7)|kidney(5)|large_intestine(7)|lung(28)|ovary(3)|pancreas(1)|prostate(3)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	69	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		TGGACGCGCCGGTGTCGTACT	0.667													G|||	16	0.00319489	0.0121	0.0	5008	,	,		15692	0.0		0.0	False		,,,				2504	0.0															0								G	,,	43,4243		0,43,2100	50	61	57		4353,4353,4383	-4.7	0	12	dbSNP_129	57	2,8472		0,2,4235	no	coding-synonymous,coding-synonymous,coding-synonymous	NCOR2	NM_001077261.3,NM_001206654.1,NM_006312.5	,,	0,45,6335	AA,AG,GG		0.0236,1.0033,0.3527	,,	1451/2459,1451/2505,1461/2515	124829474	45,12715	2143	4237	6380	SO:0001819	synonymous_variant	9612			U37146	CCDS41857.1, CCDS41858.1, CCDS41857.2, CCDS41858.2, CCDS55892.1	12q24	2010-06-10	2010-06-10		ENSG00000196498	ENSG00000196498			7673	protein-coding gene	gene with protein product		600848	"nuclear receptor co-repressor 2"			7566127, 8813722	Standard	NM_001077261		Approved	SMRT, SMRTE, TRAC-1, CTG26, TNRC14	uc010tbb.2	Q9Y618	OTTHUMG00000150455	ENST00000405201.1:c.4383C>T	12.37:g.124829474G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O00613|O15416|O15421|Q13354|Q56D06|Q59GM0|Q9Y5U0	Silent	SNP	ENST00000405201.1	37	CCDS41858.2																																																																																				0.667	NCOR2-005	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318173.2	NM_006312		A	124829474	G	A	124829474	2	1	570	1	0	0	0	0	0	0	0	1	10243	1103	39	1		1	NCOR2	12	124829474	Silent	SNP	G	TCGA-DW-7840-01A-11D-2136-08	14063996	124829474	9022421	85	33741										
SCARB1	949	hgsc.bcm.edu	37	chr12	125348148	125348148	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ctccctcacccaccttaaggAcctgctgcttgatgagcgac	8	16	1	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr12:125348148A>G	ENST00000415380.2	-	1	244	c.119T>C	c.(118-120)gTc>gCc	p.V40A	SCARB1_ENST00000546215.1_Missense_Mutation_p.V40A|SCARB1_ENST00000376788.1_Missense_Mutation_p.V40A|SCARB1_ENST00000339570.5_Missense_Mutation_p.V40A|SCARB1_ENST00000535005.1_Intron|SCARB1_ENST00000261693.6_Missense_Mutation_p.V40A			Q8WTV0	SCRB1_HUMAN	scavenger receptor class B, member 1	40					adhesion of symbiont to host (GO:0044406)|androgen biosynthetic process (GO:0006702)|blood vessel endothelial cell migration (GO:0043534)|cell adhesion (GO:0007155)|cholesterol catabolic process (GO:0006707)|cholesterol efflux (GO:0033344)|cholesterol homeostasis (GO:0042632)|cholesterol import (GO:0070508)|detection of lipopolysaccharide (GO:0032497)|endothelial cell proliferation (GO:0001935)|high-density lipoprotein particle clearance (GO:0034384)|high-density lipoprotein particle remodeling (GO:0034375)|lipopolysaccharide transport (GO:0015920)|lipopolysaccharide-mediated signaling pathway (GO:0031663)|lipoprotein metabolic process (GO:0042157)|low-density lipoprotein particle clearance (GO:0034383)|phospholipid transport (GO:0015914)|positive regulation of cholesterol storage (GO:0010886)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of nitric-oxide synthase activity (GO:0051000)|positive regulation of triglyceride biosynthetic process (GO:0010867)|receptor-mediated endocytosis (GO:0006898)|recognition of apoptotic cell (GO:0043654)|regulation of phagocytosis (GO:0050764)|regulation of phosphatidylcholine catabolic process (GO:0010899)|reverse cholesterol transport (GO:0043691)|small molecule metabolic process (GO:0044281)|triglyceride homeostasis (GO:0070328)|viral process (GO:0016032)|wound healing (GO:0042060)	caveola (GO:0005901)|cell surface (GO:0009986)|endocytic vesicle membrane (GO:0030666)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|microvillus membrane (GO:0031528)|plasma membrane (GO:0005886)	1-phosphatidylinositol binding (GO:0005545)|apolipoprotein A-I binding (GO:0034186)|apolipoprotein binding (GO:0034185)|high-density lipoprotein particle binding (GO:0008035)|high-density lipoprotein particle receptor activity (GO:0070506)|lipopolysaccharide binding (GO:0001530)|lipopolysaccharide receptor activity (GO:0001875)|low-density lipoprotein particle binding (GO:0030169)|phosphatidylserine binding (GO:0001786)|transporter activity (GO:0005215)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(7)|prostate(1)	17	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)	CACCTTAAGGACCTGCTGCTT	0.731																																																0													25	22	23					12																	125348148		2201	4300	6501	SO:0001583	missense	949			Z22555	CCDS9259.1, CCDS45008.1	12q24.32	2008-08-05	2002-09-06	2002-09-06	ENSG00000073060	ENSG00000073060			1664	protein-coding gene	gene with protein product		601040	"CD36 antigen (collagen type I receptor, thrombospondin receptor)-like 1"	CD36L1		7689561	Standard	NM_001082959		Approved	SRB1, CLA-1, CLA1, SR-BI	uc001ugm.4	Q8WTV0	OTTHUMG00000168544	ENST00000415380.2:c.119T>C	12.37:g.125348148A>G	ENSP00000414979:p.Val40Ala	Somatic		WXS	Illumina HiSeq	Phase_I	F8W8N0|Q14016|Q52LZ5|Q6KFX4	Missense_Mutation	SNP	ENST00000415380.2	37		.	.	.	.	.	.	.	.	.	.	A	18.80	3.701743	0.68501	.	.	ENSG00000073060	ENST00000339570;ENST00000415380;ENST00000261693;ENST00000376788;ENST00000546215;ENST00000545493	T;T;T;T;T;T	0.74106	-0.81;-0.81;-0.81;-0.39;-0.81;-0.81	3.48	3.48	0.39840	.	0.070854	0.56097	U	0.000034	T	0.81432	0.4821	M	0.76002	2.32	0.80722	D	1	P;D;D;P;D	0.58268	0.951;0.982;0.982;0.775;0.977	P;P;P;B;P	0.60236	0.755;0.871;0.871;0.425;0.725	T	0.82744	-0.0306	10	0.87932	D	0	-21.358	8.9206	0.35610	1.0:0.0:0.0:0.0	.	40;40;40;40;40	B7ZKQ9;B4E3I1;Q8WTV0;F8W8N0;Q8WTV0-2	.;.;SCRB1_HUMAN;.;.	A	40	ENSP00000343795:V40A;ENSP00000414979:V40A;ENSP00000261693:V40A;ENSP00000365984:V40A;ENSP00000442862:V40A;ENSP00000443454:V40A	ENSP00000261693:V40A	V	-	2	0	SCARB1	123914101	1.000000	0.71417	1.000000	0.80357	0.285000	0.27093	4.239000	0.58694	1.528000	0.49103	0.358000	0.22013	GTC		0.731	SCARB1-006	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000400165.1	NM_005505		G	125348148	A	G	125348148	3	3	570	1	0	0	0	0	1	0	0	0	13894	275	10	3	1582	3	SCARB1	12	125348148	Missense_Mutation	SNP	A	TCGA-DW-7840-01A-11D-2136-08	518674	125348148	8503747	86	33742										
POLE	5426	hgsc.bcm.edu	37	chr12	133235892	133235892	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	agccctcacctctccgtgacAggggagccctcgggcttgcg	13	16	2	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr12:133235892A>G	ENST00000320574.5	-	26	3307	c.3264T>C	c.(3262-3264)ccT>ccC	p.P1088P	POLE_ENST00000535270.1_Silent_p.P1061P	NM_006231.2	NP_006222.2	Q07864	DPOE1_HUMAN	polymerase (DNA directed), epsilon, catalytic subunit	1088					base-excision repair, gap-filling (GO:0006287)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA synthesis involved in DNA repair (GO:0000731)|G1/S transition of mitotic cell cycle (GO:0000082)|in utero embryonic development (GO:0001701)|mitotic cell cycle (GO:0000278)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair, DNA gap filling (GO:0006297)|telomere maintenance (GO:0000723)|telomere maintenance via recombination (GO:0000722)|telomere maintenance via semi-conservative replication (GO:0032201)|transcription-coupled nucleotide-excision repair (GO:0006283)	cytoplasm (GO:0005737)|epsilon DNA polymerase complex (GO:0008622)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	4 iron, 4 sulfur cluster binding (GO:0051539)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|DNA-directed DNA polymerase activity (GO:0003887)|nucleotide binding (GO:0000166)|zinc ion binding (GO:0008270)			NS(2)|autonomic_ganglia(1)|breast(5)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(16)|lung(41)|ovary(3)|pancreas(2)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	89	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)	Cladribine(DB00242)	TCTCCGTGACAGGGGAGCCCT	0.657								DNA polymerases (catalytic subunits)																																								0													40	38	39					12																	133235892		2203	4300	6503	SO:0001819	synonymous_variant	5426				CCDS9278.1	12q24.3	2014-09-17	2012-05-18		ENSG00000177084	ENSG00000177084		"DNA polymerases"	9177	protein-coding gene	gene with protein product	"DNA polymerase epsilon catalytic subunit A"	174762	"polymerase (DNA directed), epsilon"			8020968	Standard	NM_006231		Approved	POLE1	uc001uks.1	Q07864	OTTHUMG00000168045	ENST00000320574.5:c.3264T>C	12.37:g.133235892A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q13533|Q86VH9	Silent	SNP	ENST00000320574.5	37	CCDS9278.1																																																																																				0.657	POLE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397689.2	NM_006231		G	133235892	A	G	133235892	2	3	570	1	0	0	0	0	0	0	0	1	12203	175	7	3		3	POLE	12	133235892	Silent	SNP	A	TCGA-DW-7840-01A-11D-2136-08	7887744	133235892	616003	87	33743										
TECPR2	9895	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	102906785	102906786	+	Missense_Mutation	DNP	GG	GG	TT													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ttccataggagcccttctctGgaagattgaacagaaatcta							TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr14:102906785_102906786GG>TT	ENST00000359520.7	+	11	2817_2818	c.2591_2592GG>TT	c.(2590-2592)tGG>tTT	p.W864F	TECPR2_ENST00000558678.1_Missense_Mutation_p.W864F	NM_014844.3	NP_055659.2	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	864					autophagy (GO:0006914)|cell death (GO:0008219)					breast(1)|central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(7)|lung(21)|ovary(2)|prostate(3)|skin(4)|stomach(1)|urinary_tract(1)	50						GCCCTTCTCTGGAAGATTGAAC	0.446																																																0																																										SO:0001583	missense	9895			AB019441	CCDS32162.1, CCDS58337.1	14q32.33	2009-02-27	2009-02-27	2009-02-27		ENSG00000196663			19957	protein-coding gene	gene with protein product		615000	"KIAA0329"	KIAA0329		9205841	Standard	NM_014844		Approved		uc001ylw.2	O15040		Exception_encountered	14.37:g.102906785_102906786delinsTT	ENSP00000352510:p.Trp864Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKY3|A6NFY9|A7E2X3|H0YMM9|Q9UEG6	Missense_Mutation	DNP	ENST00000359520.7	37	CCDS32162.1																																																																																				0.446	TECPR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415056.2	NM_014844		TT	102906786	GG	TT	102906785	3	4	570	1	0	0	0	0	1	0	0	0	15756	1357	47	4	2629	4	TECPR2	14	102906785	Missense_Mutation	DNP	GG	TCGA-DW-7840-01A-11D-2136-08		102906785	4442755	88	33744										
C15orf2	23742	hgsc.bcm.edu	37	chr15	24921074	24921074	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cgccggcccctgccagggccAgggcgtggcgcccccgctcc	15	21	0	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr15:24921074A>G	ENST00000329468.2	+	1	534	c.60A>G	c.(58-60)ccA>ccG	p.P20P		NM_018958.2	NP_061831.2	Q9NZP6	NPAP1_HUMAN	nuclear pore associated protein 1	20					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)											TGCCAGGGCCAGGGCGTGGCG	0.682																																																0													6	8	7					15																	24921074		1783	3773	5556	SO:0001819	synonymous_variant	23742			AF179681	CCDS10015.1	15q11-q13	2012-07-19	2012-06-14	2012-06-14	ENSG00000185823	ENSG00000185823			1190	protein-coding gene	gene with protein product		610922	"chromosome 15 open reading frame 2"	C15orf2		10783265, 22694955	Standard	NM_018958		Approved		uc001ywo.3	Q9NZP6	OTTHUMG00000129179	ENST00000329468.2:c.60A>G	15.37:g.24921074A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000329468.2	37	CCDS10015.1																																																																																				0.682	NPAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251253.1	NM_018958		G	24921074	A	G	24921074	2	3	570	1	0	0	0	0	0	0	0	1	1786	175	7	3		3	C15orf2	15	24921074	Silent	SNP	A	TCGA-DW-7840-01A-11D-2136-08		24921074	77610318	89	33745										
TRPM1	4308	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	31362391	31362391	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tgggtgttgcacttggcagaGgggggatatgctggttggtg	20	4	0	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr15:31362391G>T	ENST00000256552.6	-	4	269	c.122C>A	c.(121-123)cCt>cAt	p.P41H	TRPM1_ENST00000397795.2_Missense_Mutation_p.P19H|TRPM1_ENST00000542188.1_Missense_Mutation_p.P58H|TRPM1_ENST00000559179.1_Missense_Mutation_p.P19H	NM_001252024.1	NP_001238953.1			transient receptor potential cation channel, subfamily M, member 1											NS(2)|breast(3)|central_nervous_system(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(15)|lung(48)|ovary(2)|pancreas(1)|prostate(3)|skin(2)|soft_tissue(1)|upper_aerodigestive_tract(3)	99		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		ACTTGGCAGAGGGGGGATATG	0.507																																																0													243	229	234					15																	31362391		1976	4162	6138	SO:0001583	missense	4308			AF071787	CCDS10024.2, CCDS58345.1, CCDS58346.1, CCDS58347.1	15q13.3	2014-01-28		2002-01-18	ENSG00000134160	ENSG00000134160		"Voltage-gated ion channels / Transient receptor potential cation channels"	7146	protein-coding gene	gene with protein product		603576	"melastatin 1"	MLSN1		9806836, 9537257, 16382100	Standard	NM_001252020		Approved	LTRPC1, CSNB1C	uc021sia.1	Q7Z4N2	OTTHUMG00000129267	ENST00000256552.6:c.122C>A	15.37:g.31362391G>T	ENSP00000256552:p.Pro41His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000256552.6	37	CCDS58346.1	.	.	.	.	.	.	.	.	.	.	G	10.39	1.336399	0.24253	.	.	ENSG00000134160	ENST00000397795;ENST00000542188;ENST00000256552;ENST00000397793	T;T;T	0.55760	0.5;0.5;0.5	6.03	5.12	0.69794	.	0.408600	0.22654	U	0.057296	T	0.60340	0.2261	L	0.36672	1.1	0.33691	D	0.613333	D;D	0.71674	0.998;0.983	D;P	0.73708	0.981;0.827	T	0.71192	-0.4665	10	0.72032	D	0.01	-15.4292	9.4507	0.38725	0.2106:0.0:0.7894:0.0	.	19;19	Q6PE48;Q7Z4N2	.;TRPM1_HUMAN	H	19;58;41;19	ENSP00000380897:P19H;ENSP00000437849:P58H;ENSP00000256552:P41H	ENSP00000256552:P41H	P	-	2	0	TRPM1	29149683	1.000000	0.71417	0.918000	0.36340	0.307000	0.27823	3.722000	0.54948	1.541000	0.49316	0.655000	0.94253	CCT		0.507	TRPM1-004	PUTATIVE	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000417166.2	NM_002420		T	31362391	G	T	31362391	3	4	570	1	0	0	0	0	1	0	0	0	16597	1000	35	4	4855	4	TRPM1	15	31362391	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08	6441317	31362391	71169001	90	33746										
SLC12A1	6557	hgsc.bcm.edu	37	chr15	48584051	48584051	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gtgacatcaacattaggccaAacaaagagaggtatgaaata	9	6	1	3			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr15:48584051A>G	ENST00000558405.1	+	23	2964	c.2950A>G	c.(2950-2952)Aac>Gac	p.N984D	SLC12A1_ENST00000396577.3_Missense_Mutation_p.N984D|SLC12A1_ENST00000380993.3_Missense_Mutation_p.N984D			Q13621	S12A1_HUMAN	solute carrier family 12 (sodium/potassium/chloride transporter), member 1	984					cell death (GO:0008219)|chemical homeostasis (GO:0048878)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|excretion (GO:0007588)|ion transmembrane transport (GO:0034220)|ion transport (GO:0006811)|kidney development (GO:0001822)|potassium ion transport (GO:0006813)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)|transport (GO:0006810)	apical plasma membrane (GO:0016324)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	sodium:potassium:chloride symporter activity (GO:0008511)			NS(2)|breast(3)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(14)|lung(30)|ovary(1)|prostate(2)|skin(1)	59		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Potassium Chloride(DB00761)|Quinethazone(DB01325)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	CATTAGGCCAAACAAAGAGAG	0.323																																																0													51	50	50					15																	48584051		2195	4290	6485	SO:0001583	missense	6557				CCDS10129.2, CCDS53940.1	15q15-q21	2013-07-18	2013-07-18		ENSG00000074803	ENSG00000074803		"Solute carriers"	10910	protein-coding gene	gene with protein product		600839				8640224	Standard	NM_000338		Approved	NKCC2	uc010bem.3	Q13621	OTTHUMG00000131495	ENST00000558405.1:c.2950A>G	15.37:g.48584051A>G	ENSP00000453409:p.Asn984Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8JYA2|E9PDW4	Missense_Mutation	SNP	ENST00000558405.1	37	CCDS10129.2	.	.	.	.	.	.	.	.	.	.	A	13.79	2.341269	0.41498	.	.	ENSG00000074803	ENST00000380993;ENST00000396577	D;D	0.84516	-1.86;-1.86	5.44	5.44	0.79542	.	0.202548	0.51477	D	0.000096	T	0.76428	0.3986	L	0.27053	0.805	0.29554	N	0.851145	B;B	0.28820	0.224;0.147	B;B	0.24701	0.055;0.045	T	0.68981	-0.5266	10	0.23891	T	0.37	.	15.1563	0.72746	1.0:0.0:0.0:0.0	.	984;984	E9PDW4;Q13621	.;S12A1_HUMAN	D	984	ENSP00000370381:N984D;ENSP00000379822:N984D	ENSP00000370381:N984D	N	+	1	0	SLC12A1	46371343	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	5.657000	0.67996	2.057000	0.61298	0.533000	0.62120	AAC		0.323	SLC12A1-006	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000417131.1			G	48584051	A	G	48584051	3	3	570	1	0	0	0	0	1	0	0	0	14395	14	1	3	3140	3	SLC12A1	15	48584051	Missense_Mutation	SNP	A	TCGA-DW-7840-01A-11D-2136-08	17221660	48584051	53947341	91	33747										
ANKDD1A	348094	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	65223120	65223120	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cctggaggagcagaatgcggTgagtcaccgcctggggatgg	18	9	1	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr15:65223120T>G	ENST00000380230.3	+	7	698		c.e7+2		ANKDD1A_ENST00000395720.1_Splice_Site|ANKDD1A_ENST00000357698.3_Splice_Site|ANKDD1A_ENST00000491145.1_Splice_Site|ANKDD1A_ENST00000496660.1_Splice_Site|ANKDD1A_ENST00000319580.8_Splice_Site|ANKDD1A_ENST00000395723.1_Splice_Site	NM_182703.3	NP_874362.3	Q495B1	AKD1A_HUMAN	ankyrin repeat and death domain containing 1A						signal transduction (GO:0007165)					NS(1)|endometrium(1)|large_intestine(10)|liver(2)|lung(4)|ovary(1)|prostate(2)	21						CAGAATGCGGTGAGTCACCGC	0.607																																																0													68	54	59					15																	65223120		2202	4299	6501	SO:0001630	splice_region_variant	348094				CCDS10197.2	15q22.31	2013-01-10	2006-02-16		ENSG00000166839	ENSG00000166839		"Ankyrin repeat domain containing"	28002	protein-coding gene	gene with protein product						12477932	Standard	NM_182703		Approved	FLJ25870	uc002aoa.3	Q495B1	OTTHUMG00000133051	ENST00000380230.3:c.669+2T>G	15.37:g.65223120T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q495B2|Q495B3|Q8N7A0|Q8NBS5	Splice_Site	SNP	ENST00000380230.3	37	CCDS10197.2	.	.	.	.	.	.	.	.	.	.	T	17.32	3.360134	0.61403	.	.	ENSG00000166839	ENST00000380230;ENST00000357698;ENST00000395720;ENST00000319597;ENST00000496660;ENST00000483400;ENST00000395723	.	.	.	4.01	4.01	0.46588	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	9.27	0.37666	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	ANKDD1A	63010173	1.000000	0.71417	0.940000	0.37924	0.376000	0.30014	5.235000	0.65348	1.699000	0.51192	0.459000	0.35465	.		0.607	ANKDD1A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256705.2	NM_182703	Intron	G	65223120	T	G	65223120	5	3	570	1	0	0	0	0	0	0	1	0	624	1710	59	5	697	5	ANKDD1A	15	65223120	Splice_Site	SNP	T	TCGA-DW-7840-01A-11D-2136-08	16639069	65223120	37308272	92	33748										
IGDCC4	57722	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr15	65684505	65684505	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ctcatactgcttcactttctTcttgagccggacaggcccca	7	15	4	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr15:65684505T>A	ENST00000352385.2	-	11	2298	c.2089A>T	c.(2089-2091)Aag>Tag	p.K697*		NM_020962.1	NP_066013.1	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member 4	697	Fibronectin type-III 3. {ECO:0000255|PROSITE-ProRule:PRU00316}.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(1)|central_nervous_system(1)|endometrium(1)|large_intestine(7)|lung(24)|ovary(1)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)	44						TTCACTTTCTTCTTGAGCCGG	0.632																																																0													32	39	37					15																	65684505		2184	4286	6470	SO:0001587	stop_gained	57722				CCDS10206.1	15q22.31	2013-02-11			ENSG00000103742	ENSG00000103742		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	13770	protein-coding gene	gene with protein product	"likely ortholog of mouse neighbor of Punc E11"						Standard	NM_020962		Approved	NOPE, LOC57722	uc002aou.1	Q8TDY8	OTTHUMG00000133136	ENST00000352385.2:c.2089A>T	15.37:g.65684505T>A	ENSP00000319623:p.Lys697*	Somatic		WXS	Illumina HiSeq	Phase_I	Q9HCE4	Nonsense_Mutation	SNP	ENST00000352385.2	37	CCDS10206.1	.	.	.	.	.	.	.	.	.	.	T	41	8.769097	0.98948	.	.	ENSG00000103742	ENST00000352385;ENST00000356152	.	.	.	5.49	4.38	0.52667	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.15066	T	0.55	-23.8407	10.907	0.47086	0.0:0.0731:0.0:0.9269	.	.	.	.	X	697;426	.	ENSP00000319623:K697X	K	-	1	0	IGDCC4	63471558	1.000000	0.71417	1.000000	0.80357	0.672000	0.39443	5.434000	0.66526	0.947000	0.37659	0.533000	0.62120	AAG		0.632	IGDCC4-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000256825.2	NM_020962		A	65684505	T	A	65684505	4	1	570	1	0	0	0	0	0	1	0	0	7576	1792	62	5	1703	5	IGDCC4	15	65684505	Nonsense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	461385	65684505	36846887	93	33749										
MAP2K5	5607	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	67985904	67985904	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ttggaacaaatgcttatatgGcggtaagtaaacttatgcaa	9	5	0	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr15:67985904G>T	ENST00000178640.5	+	15	1597	c.970G>T	c.(970-972)Gcg>Tcg	p.A324S	MAP2K5_ENST00000340972.4_Missense_Mutation_p.A134S|MAP2K5_ENST00000395476.2_Missense_Mutation_p.A324S|MAP2K5_ENST00000354498.5_Missense_Mutation_p.A288S	NM_145160.2	NP_660143.1	Q13163	MP2K5_HUMAN	mitogen-activated protein kinase kinase 5	324	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of MAPK activity (GO:0000187)|cellular response to growth factor stimulus (GO:0071363)|cellular response to laminar fluid shear stress (GO:0071499)|ERK5 cascade (GO:0070375)|heart development (GO:0007507)|negative regulation of cell migration involved in sprouting angiogenesis (GO:0090051)|negative regulation of chemokine (C-X-C motif) ligand 2 production (GO:2000342)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of heterotypic cell-cell adhesion (GO:0034115)|negative regulation of interleukin-8 biosynthetic process (GO:0045415)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of response to cytokine stimulus (GO:0060761)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of cell growth (GO:0030307)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of protein metabolic process (GO:0051247)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|signal transduction (GO:0007165)	cytosol (GO:0005829)|nucleus (GO:0005634)|spindle (GO:0005819)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|protein tyrosine kinase activity (GO:0004713)			breast(2)|endometrium(2)|kidney(1)|large_intestine(3)|lung(7)|skin(1)	16						TGCTTATATGGCGGTAAGTAA	0.303																																																0													132	126	128					15																	67985904		2200	4297	6497	SO:0001583	missense	5607			U25265	CCDS10224.1, CCDS42051.1, CCDS55970.1	15q22.31	2011-06-09			ENSG00000137764	ENSG00000137764		"Mitogen-activated protein kinase cascade / Kinase kinases"	6845	protein-coding gene	gene with protein product		602520		PRKMK5		7759517	Standard	NM_002757		Approved	MEK5, MAPKK5, HsT17454	uc002aqu.3	Q13163	OTTHUMG00000133264	ENST00000178640.5:c.970G>T	15.37:g.67985904G>T	ENSP00000178640:p.Ala324Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DE43|Q92961|Q92962	Missense_Mutation	SNP	ENST00000178640.5	37	CCDS10224.1	.	.	.	.	.	.	.	.	.	.	G	13.00	2.107121	0.37145	.	.	ENSG00000137764	ENST00000541298;ENST00000395476;ENST00000178640;ENST00000354498;ENST00000340972	T;T;T;T	0.19394	2.15;2.15;2.15;2.15	5.58	5.58	0.84498	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.36358	0.0964	L	0.31752	0.955	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.998;0.998	T	0.02728	-1.1118	10	0.28530	T	0.3	-16.1519	19.5552	0.95342	0.0:0.0:1.0:0.0	.	134;324;324	A6NK28;Q13163-2;Q13163	.;.;MP2K5_HUMAN	S	324;324;324;288;134	ENSP00000378859:A324S;ENSP00000178640:A324S;ENSP00000346493:A288S;ENSP00000342101:A134S	ENSP00000178640:A324S	A	+	1	0	MAP2K5	65772958	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.968000	0.93407	2.630000	0.89119	0.585000	0.79938	GCG		0.303	MAP2K5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257041.1	NM_145162		T	67985904	G	T	67985904	3	4	570	1	0	0	0	0	1	0	0	0	9247	1203	42	4	1028	4	MAP2K5	15	67985904	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08	2301399	67985904	34545488	94	33750										
ACSBG1	23205	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	78485857	78485857	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cttccccaaaccttcaggatCttttccagctgcttctgcgt	6	15	3	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr15:78485857C>G	ENST00000258873.4	-	5	859	c.654G>C	c.(652-654)aaG>aaC	p.K218N	ACSBG1_ENST00000558828.1_5'Flank|ACSBG1_ENST00000541759.1_Intron|ACSBG1_ENST00000560817.1_Intron	NM_001199377.1|NM_015162.4	NP_001186306.1|NP_055977.3	Q96GR2	ACBG1_HUMAN	acyl-CoA synthetase bubblegum family member 1	218					long-chain fatty acid metabolic process (GO:0001676)|myelination (GO:0042552)|ovarian follicle atresia (GO:0001552)|response to glucocorticoid (GO:0051384)|very long-chain fatty acid metabolic process (GO:0000038)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)	ATP binding (GO:0005524)|long-chain fatty acid-CoA ligase activity (GO:0004467)|very long-chain fatty acid-CoA ligase activity (GO:0031957)			endometrium(2)|kidney(2)|large_intestine(11)|liver(1)|lung(15)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)	37						CCTTCAGGATCTTTTCCAGCT	0.577																																																0													114	111	112					15																	78485857		2196	4293	6489	SO:0001583	missense	23205			AB014531	CCDS10298.1	15q23-q24	2006-02-09			ENSG00000103740	ENSG00000103740		"Acyl-CoA synthetase family"	29567	protein-coding gene	gene with protein product	"bubblegum", "very long-chain acyl-CoA synthetase", "lipidosin"	614362				9734811, 10954726	Standard	NM_015162		Approved	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG	uc002bdh.3	Q96GR2	OTTHUMG00000143734	ENST00000258873.4:c.654G>C	15.37:g.78485857C>G	ENSP00000258873:p.Lys218Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2RB61|O75126|Q76N27|Q9HC26	Missense_Mutation	SNP	ENST00000258873.4	37	CCDS10298.1	.	.	.	.	.	.	.	.	.	.	C	17.52	3.409343	0.62399	.	.	ENSG00000103740	ENST00000258873	T	0.44482	0.92	4.49	3.56	0.40772	AMP-dependent synthetase/ligase (1);	0.062950	0.64402	D	0.000012	T	0.66025	0.2748	M	0.89840	3.065	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.80764	0.994;0.984	T	0.68104	-0.5497	10	0.66056	D	0.02	-37.6924	7.8278	0.29326	0.0:0.8072:0.0:0.1928	.	214;218	B7Z2Y6;Q96GR2	.;ACBG1_HUMAN	N	218	ENSP00000258873:K218N	ENSP00000258873:K218N	K	-	3	2	ACSBG1	76272912	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	1.007000	0.29860	0.871000	0.35750	0.655000	0.94253	AAG		0.577	ACSBG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000289802.2	NM_015162		G	78485857	C	G	78485857	3	3	570	1	0	0	0	0	1	0	0	0	173	912	32	4	1560	4	ACSBG1	15	78485857	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	10499953	78485857	24045535	95	33751										
RASGRF1	5923	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr15	79254568	79254568	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	caaaagattggtccagtaaaTattgcgttacctgagaaaag	9	6	0	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr15:79254568T>C	ENST00000419573.3	-	28	4014	c.3740A>G	c.(3739-3741)tAt>tGt	p.Y1247C	RASGRF1_ENST00000558480.2_Missense_Mutation_p.Y1231C|RASGRF1_ENST00000394745.3_Missense_Mutation_p.Y463C	NM_002891.4	NP_002882.3	Q13972	RGRF1_HUMAN	Ras protein-specific guanine nucleotide-releasing factor 1	1247	Ras-GEF. {ECO:0000255|PROSITE- ProRule:PRU00168}.				activation of Rac GTPase activity (GO:0032863)|cell proliferation (GO:0008283)|long-term memory (GO:0007616)|neuron projection development (GO:0031175)|positive regulation of Ras GTPase activity (GO:0032320)|positive regulation of Ras protein signal transduction (GO:0046579)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)|regulation of neuronal synaptic plasticity (GO:0048168)|regulation of Rac protein signal transduction (GO:0035020)|regulation of Ras protein signal transduction (GO:0046578)|regulation of synaptic plasticity (GO:0048167)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)|synaptic transmission (GO:0007268)	cytosol (GO:0005829)|growth cone (GO:0030426)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)	guanyl-nucleotide exchange factor activity (GO:0005085)|Ras guanyl-nucleotide exchange factor activity (GO:0005088)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(2)|central_nervous_system(2)|endometrium(7)|kidney(4)|large_intestine(18)|lung(23)|ovary(2)|prostate(6)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	71						GTCCAGTAAATATTGCGTTAC	0.468																																																0													58	56	56					15																	79254568		2196	4290	6486	SO:0001583	missense	5923			M91815	CCDS10309.1, CCDS42065.1, CCDS45320.1	15q24	2013-01-10			ENSG00000058335	ENSG00000058335		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	9875	protein-coding gene	gene with protein product		606600		GRF1		7684828, 1379731	Standard	NM_153815		Approved	CDC25L, CDC25, GRF55, H-GRF55, GNRP, PP13187	uc002beq.3	Q13972	OTTHUMG00000144172	ENST00000419573.3:c.3740A>G	15.37:g.79254568T>C	ENSP00000405963:p.Tyr1247Cys	Somatic		WXS	Illumina HiSeq	Phase_I	F8VPA5|H0YKF2|J3KQP9|Q16027	Missense_Mutation	SNP	ENST00000419573.3	37	CCDS10309.1	.	.	.	.	.	.	.	.	.	.	T	16.60	3.169141	0.57584	.	.	ENSG00000058335	ENST00000419573;ENST00000394741;ENST00000394745	T;T	0.34472	1.36;1.36	3.96	3.96	0.45880	Guanine-nucleotide dissociation stimulator CDC25 (3);Ras guanine nucleotide exchange factor, domain (1);	0.000000	0.64402	D	0.000003	T	0.56381	0.1981	M	0.78801	2.425	0.80722	D	1	D;D	0.76494	0.998;0.999	P;D	0.68483	0.867;0.958	T	0.60826	-0.7186	10	0.87932	D	0	.	9.5252	0.39160	0.0:0.0:0.0:1.0	.	1249;1231	Q13972;F8VPA5	RGRF1_HUMAN;.	C	1247;1231;463	ENSP00000405963:Y1247C;ENSP00000378228:Y463C	ENSP00000378224:Y1231C	Y	-	2	0	RASGRF1	77041623	1.000000	0.71417	0.170000	0.22879	0.948000	0.59901	6.883000	0.75595	1.545000	0.49373	0.402000	0.26972	TAT		0.468	RASGRF1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000291371.3	NM_002891		C	79254568	T	C	79254568	3	2	570	1	0	0	0	0	1	0	0	0	13085	1406	49	3	85	3	RASGRF1	15	79254568	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	768711	79254568	23276824	96	33752										
PKD1	5310	broad.mit.edu	37	chr16	2142548	2142548	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ctggactggttcccgtggacGtagggcagcagcacgtgggc	17	11	0	0	rs555704322		TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr16:2142548G>A	ENST00000262304.4	-	39	11410	c.11202C>T	c.(11200-11202)taC>taT	p.Y3734Y	RP11-304L19.3_ENST00000565937.1_RNA|RP11-304L19.1_ENST00000570072.1_RNA|PKD1_ENST00000423118.1_Silent_p.Y3733Y|MIR1225_ENST00000408729.1_RNA	NM_001009944.2	NP_001009944	P98161	PKD1_HUMAN	polycystic kidney disease 1 (autosomal dominant)	3734					anatomical structure morphogenesis (GO:0009653)|branching morphogenesis of an epithelial tube (GO:0048754)|calcium ion transmembrane transport (GO:0070588)|calcium-independent cell-matrix adhesion (GO:0007161)|cartilage condensation (GO:0001502)|cartilage development (GO:0051216)|cation transmembrane transport (GO:0098655)|cell cycle arrest (GO:0007050)|cell-matrix adhesion (GO:0007160)|cytoplasmic sequestering of transcription factor (GO:0042994)|detection of mechanical stimulus (GO:0050982)|digestive tract development (GO:0048565)|embryonic placenta development (GO:0001892)|genitalia development (GO:0048806)|heart development (GO:0007507)|homophilic cell adhesion (GO:0007156)|in utero embryonic development (GO:0001701)|JAK-STAT cascade (GO:0007259)|kidney development (GO:0001822)|liver development (GO:0001889)|lung epithelium development (GO:0060428)|mesonephric duct development (GO:0072177)|mesonephric tubule development (GO:0072164)|metanephric ascending thin limb development (GO:0072218)|metanephric collecting duct development (GO:0072205)|metanephric distal tubule morphogenesis (GO:0072287)|metanephric proximal tubule development (GO:0072237)|neural tube development (GO:0021915)|neuropeptide signaling pathway (GO:0007218)|nitrogen compound metabolic process (GO:0006807)|peptidyl-serine phosphorylation (GO:0018105)|placenta blood vessel development (GO:0060674)|positive regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031659)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of protein binding (GO:0032092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein export from nucleus (GO:0006611)|regulation of mitotic spindle organization (GO:0060236)|regulation of proteasomal protein catabolic process (GO:0061136)|response to fluid shear stress (GO:0034405)|skin development (GO:0043588)|spinal cord development (GO:0021510)	basolateral plasma membrane (GO:0016323)|cilium (GO:0005929)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|lateral plasma membrane (GO:0016328)|motile primary cilium (GO:0031512)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|polycystin complex (GO:0002133)	calcium channel activity (GO:0005262)|carbohydrate binding (GO:0030246)|cation channel activity (GO:0005261)|ion channel binding (GO:0044325)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(7)|kidney(6)|lung(34)|prostate(4)|skin(10)|upper_aerodigestive_tract(3)|urinary_tract(3)	72						TCCCGTGGACGTAGGGCAGCA	0.672													g|||	1	0.000199681	0.0	0.0	5008	,	,		16033	0.001		0.0	False		,,,				2504	0.0															0													35	37	36					16																	2142548		2195	4296	6491	SO:0001819	synonymous_variant	5310			L33243	CCDS32369.1, CCDS45385.1	16p13.3	2014-01-28			ENSG00000008710	ENSG00000008710		"Voltage-gated ion channels / Transient receptor potential cation channels"	9008	protein-coding gene	gene with protein product	"polycystin 1", "transient receptor potential cation channel, subfamily P, member 1"	601313					Standard	NM_001009944		Approved	PBP, Pc-1, TRPP1	uc002cos.1	P98161	OTTHUMG00000155795	ENST00000262304.4:c.11202C>T	16.37:g.2142548G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q15140|Q15141	Silent	SNP	ENST00000262304.4	37	CCDS32369.1																																																																																				0.672	PKD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000341688.1			A	2142548	G	A	2142548	2	1	570	1	0	0	0	0	0	0	0	1	11970	1140	40	1		1	PKD1	16	2142548	Silent	SNP	G	TCGA-DW-7840-01A-11D-2136-08		2142548	88212205	97	33753										
SENP3	26168	broad.mit.edu	37	chr17	7470323	7470323	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tgaaaaggtggaccaaaaacGtgagttttgaattcacatcc	9	7	1	3			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr17:7470323G>A	ENST00000429205.2	+	8	1390		c.e8+1		SENP3_ENST00000321337.7_Splice_Site|SENP3-EIF4A1_ENST00000579777.1_RNA|SENP3_ENST00000578868.1_Splice_Site			Q9H4L4	SENP3_HUMAN	SUMO1/sentrin/SMT3 specific peptidase 3							cytoplasm (GO:0005737)|MLL1 complex (GO:0071339)|nucleolus (GO:0005730)	cysteine-type peptidase activity (GO:0008234)			central_nervous_system(1)|ovary(1)	2		Prostate(122;0.157)				GACCAAAAACGTGAGTTTTGA	0.408																																																0													194	207	203					17																	7470323		1015	2129	3144	SO:0001630	splice_region_variant	26168			AK000923	CCDS73958.1	17p13	2012-05-02	2005-08-17			ENSG00000161956			17862	protein-coding gene	gene with protein product		612844	"SUMO1/sentrin/SMT3 specific protease 3"			10806345, 11230166	Standard	NM_015670		Approved	DKFZP586K0919, SSP3, DKFZp762A152, SMT3IP1, Ulp1	uc002ghm.3	Q9H4L4		ENST00000429205.2:c.1341+1G>A	17.37:g.7470323G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q66K15|Q86VS7|Q96PS4|Q9Y3W9	Splice_Site	SNP	ENST00000429205.2	37		.	.	.	.	.	.	.	.	.	.	G	20.3	3.967950	0.74131	.	.	ENSG00000161956	ENST00000321337;ENST00000429205	.	.	.	5.15	5.15	0.70609	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.4768	0.84134	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	SENP3	7411047	1.000000	0.71417	1.000000	0.80357	0.946000	0.59487	7.891000	0.87319	2.550000	0.86006	0.514000	0.50259	.		0.408	SENP3-202	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_015670	Intron	A	7470323	G	A	7470323	5	1	570	1	0	0	0	0	0	0	1	0	14061	1159	40	1	1365	1	SENP3	17	7470323	Splice_Site	SNP	G	TCGA-DW-7840-01A-11D-2136-08		7470323	73724887	98	33754										
MYH8	4626	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	10312636	10312636	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gtggaaaagagactggctagAgtcttcattgcagacttctg	12	7	3	3			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr17:10312636A>T	ENST00000403437.2	-	16	1951	c.1857T>A	c.(1855-1857)acT>acA	p.T619T	RP11-799N11.1_ENST00000581304.1_RNA|CTC-297N7.11_ENST00000587182.2_RNA|RP11-799N11.1_ENST00000399342.2_RNA	NM_002472.2	NP_002463.2	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle, perinatal	619	Myosin motor.				ATP catabolic process (GO:0006200)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|skeletal muscle contraction (GO:0003009)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|muscle myosin complex (GO:0005859)|myosin filament (GO:0032982)|sarcomere (GO:0030017)	actin filament binding (GO:0051015)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microfilament motor activity (GO:0000146)|myosin light chain binding (GO:0032027)|structural constituent of muscle (GO:0008307)			NS(3)|breast(8)|central_nervous_system(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(23)|lung(61)|ovary(3)|prostate(3)|skin(10)|upper_aerodigestive_tract(2)|urinary_tract(2)	134						GACTGGCTAGAGTCTTCATTG	0.423									Trismus-Pseudocamptodactyly Syndrome with Cardiac Myxoma and Freckling																																							0													67	69	68					17																	10312636		2203	4300	6503	SO:0001819	synonymous_variant	4626	Familial Cancer Database	Carney Complex Variant		CCDS11153.1	17p13.1	2013-09-19	2006-09-29		ENSG00000133020	ENSG00000133020		"Myosins / Myosin superfamily : Class II"	7578	protein-coding gene	gene with protein product		160741	"myosin, heavy polypeptide 8, skeletal muscle, perinatal"			2373371	Standard	NM_002472		Approved	MyHC-peri, MyHC-pn	uc002gmm.2	P13535	OTTHUMG00000130361	ENST00000403437.2:c.1857T>A	17.37:g.10312636A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14910	Silent	SNP	ENST00000403437.2	37	CCDS11153.1																																																																																				0.423	MYH8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252724.2	NM_002472		T	10312636	A	T	10312636	2	4	570	1	0	0	0	0	0	0	0	1	10048	291	11	5		5	MYH8	17	10312636	Silent	SNP	A	TCGA-DW-7840-01A-11D-2136-08	2842313	10312636	70882574	99	33755										
AATK	9625	hgsc.bcm.edu	37	chr17	79096272	79096272	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ctcagcgtggccgggaaggcCtccgcgccgcggcccgcctc	15	19	1	0	rs371390882	byFrequency	TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr17:79096272C>A	ENST00000326724.4	-	11	1488	c.1464G>T	c.(1462-1464)gaG>gaT	p.E488D	AATK_ENST00000572339.1_5'Flank|MIR657_ENST00000385003.1_RNA|AATK_ENST00000417379.1_Missense_Mutation_p.E385D	NM_001080395.2	NP_001073864.2	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	488					brain development (GO:0007420)|negative regulation of axon extension (GO:0030517)|neuron apoptotic process (GO:0051402)|peptidyl-tyrosine autophosphorylation (GO:0038083)|Rab protein signal transduction (GO:0032482)	axonal growth cone (GO:0044295)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)|recycling endosome (GO:0055037)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)|protein tyrosine kinase activity (GO:0004713)			endometrium(2)|kidney(2)|lung(8)|ovary(3)|prostate(1)|stomach(4)|upper_aerodigestive_tract(1)	21	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			CCGGGAAGGCCTCCGCGCCGC	0.746													C|||	13	0.00259585	0.0098	0.0	5008	,	,		6046	0.0		0.0	False		,,,				2504	0.0															0								C	ASP/GLU,ASP/GLU	17,2637		0,17,1310	2	3	3		1464,1155	-0.8	0	17		3	0,5580		0,0,2790	no	missense,missense	AATK	NM_001080395.2,NM_004920.2	45,45	0,17,4100	AA,AC,CC		0.0,0.6405,0.2065	probably-damaging,probably-damaging	488/1375,385/1272	79096272	17,8217	1327	2790	4117	SO:0001583	missense	9625			AB014541	CCDS45807.1, CCDS58607.1	17q25.3	2014-06-12			ENSG00000181409	ENSG00000181409			21	protein-coding gene	gene with protein product	"lemur tyrosine kinase 1", "protein phosphatase 1, regulatory subunit 77"	605276				9734811, 10083745	Standard	NM_001080395		Approved	AATYK, KIAA0641, LMTK1, LMR1, AATYK1, PPP1R77	uc010dia.3	Q6ZMQ8	OTTHUMG00000132717	ENST00000326724.4:c.1464G>T	17.37:g.79096272C>A	ENSP00000324196:p.Glu488Asp	Somatic		WXS	Illumina HiSeq	Phase_I	O75136|Q6ZN31|Q86X28	Missense_Mutation	SNP	ENST00000326724.4	37	CCDS45807.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	8.968|8.968	0.972137|0.972137	0.18736|0.18736	0.006405|0.006405	0.0|0.0	ENSG00000181409|ENSG00000181409	ENST00000326724|ENST00000417379	T|.	0.78595|.	-1.19|.	3.88|3.88	-0.75|-0.75	0.11080|0.11080	.|.	0.224693|.	0.37669|.	N|.	0.001994|.	T|T	0.24967|0.24967	0.0606|0.0606	L|L	0.43923|0.43923	1.385|1.385	0.09310|0.09310	N|N	1|1	P|.	0.36144|.	0.539|.	B|.	0.33254|.	0.16|.	T|T	0.26018|0.26018	-1.0115|-1.0115	10|5	0.62326|.	D|.	0.03|.	.|.	3.6985|3.6985	0.08374|0.08374	0.2648:0.3981:0.2583:0.0788|0.2648:0.3981:0.2583:0.0788	.|.	488|.	Q6ZMQ8|.	LMTK1_HUMAN|.	D|M	488|441	ENSP00000324196:E488D|.	ENSP00000324196:E488D|.	E|R	-|-	3|2	2|0	AATK|AATK	76710867|76710867	0.305000|0.305000	0.24481|0.24481	0.018000|0.018000	0.16275|0.16275	0.125000|0.125000	0.20455|0.20455	0.342000|0.342000	0.19926|0.19926	-0.284000|-0.284000	0.09102|0.09102	-0.304000|-0.304000	0.09214|0.09214	GAG|AGG		0.746	AATK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256055.1	NM_004920		A	79096272	C	A	79096272	3	1	570	1	0	0	0	0	1	0	0	0	26	680	24	4	2676	4	AATK	17	79096272	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	68783636	79096272	2098938	100	33756										
C19orf21	126353	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	758211	758211	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gaaggtgaaccgcatcccacCtgatgcctaccagccgtacc	9	16	0	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr19:758211C>A	ENST00000215582.6	+	2	1368	c.1265C>A	c.(1264-1266)cCt>cAt	p.P422H		NM_173481.2	NP_775752.1	Q8IVT2	MISP_HUMAN	mitotic spindle positioning	422					mitotic nuclear division (GO:0007067)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)											CGCATCCCACCTGATGCCTAC	0.652																																																0													25	20	22					19																	758211		2201	4298	6499	SO:0001583	missense	126353			BC052236	CCDS12042.1	19p13.3	2014-06-25	2013-05-03	2013-05-03	ENSG00000099812	ENSG00000099812			27000	protein-coding gene	gene with protein product	"mitotic interactor and substrate of Plk1"	615289	"chromosome 19 open reading frame 21"	C19orf21		23574715, 23509069, 24475924	Standard	NM_173481		Approved	DKFZp686H18209, Caprice		Q8IVT2	OTTHUMG00000181786	ENST00000215582.6:c.1265C>A	19.37:g.758211C>A	ENSP00000215582:p.Pro422His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000215582.6	37	CCDS12042.1	.	.	.	.	.	.	.	.	.	.	C	15.39	2.819234	0.50633	.	.	ENSG00000099812	ENST00000215582	T	0.35421	1.31	4.11	-1.68	0.08212	.	2.124670	0.02785	N	0.121388	T	0.47173	0.1431	L	0.54323	1.7	0.09310	N	1	D	0.69078	0.997	P	0.57548	0.823	T	0.41875	-0.9484	10	0.59425	D	0.04	-0.009	5.8678	0.18786	0.0:0.4423:0.1475:0.4102	.	422	Q8IVT2	CS021_HUMAN	H	422	ENSP00000215582:P422H	ENSP00000215582:P422H	P	+	2	0	C19orf21	709211	0.000000	0.05858	0.001000	0.08648	0.398000	0.30690	-0.883000	0.04170	-0.165000	0.10908	0.491000	0.48974	CCT		0.652	MISP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457600.2	NM_173481		A	758211	C	A	758211	3	1	570	1	0	0	0	0	1	0	0	0	1915	681	24	4	1267	4	C19orf21	19	758211	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08		758211	58370772	101	33757										
TUBB4	10382	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	6501326	6501326	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	aagttgtccggccgaaagatCtgaccgaaggggccagaacg	14	10	1	3			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr19:6501326C>A	ENST00000264071.2	-	3	620	c.249G>T	c.(247-249)caG>caT	p.Q83H	TUBB4A_ENST00000601152.1_Missense_Mutation_p.R58I|TUBB4A_ENST00000598006.1_Missense_Mutation_p.R69I|TUBB4A_ENST00000596926.1_Missense_Mutation_p.Q83H|TUBB4A_ENST00000540257.1_Missense_Mutation_p.Q83H			P04350	TBB4A_HUMAN	tubulin, beta 4A class IVa	83					'de novo' posttranslational protein folding (GO:0051084)|cellular protein metabolic process (GO:0044267)|G2/M transition of mitotic cell cycle (GO:0000086)|microtubule-based process (GO:0007017)|mitotic cell cycle (GO:0000278)|protein folding (GO:0006457)|protein polymerization (GO:0051258)	cilium (GO:0005929)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|internode region of axon (GO:0033269)|microtubule (GO:0005874)|myelin sheath (GO:0043209)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)										GCCGAAAGATCTGACCGAAGG	0.577																																																0													49	44	46					19																	6501326		2203	4300	6503	SO:0001583	missense	10382			AK075307	CCDS12168.1	19p13.3	2014-02-05	2011-10-11	2011-10-10	ENSG00000104833	ENSG00000104833		"Tubulins"	20774	protein-coding gene	gene with protein product	"class IVa beta-tubulin"	602662	"tubulin, beta 4", "tubulin, beta 4 class IVa", "dystonia 4, torsion (autosomal dominant)"	TUBB4, DYT4		6865944, 6462917, 23595291	Standard	NM_001289123		Approved	beta-5	uc002mfg.1	P04350		ENST00000264071.2:c.249G>T	19.37:g.6501326C>A	ENSP00000264071:p.Gln83His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQP4|Q969E5	Missense_Mutation	SNP	ENST00000264071.2	37	CCDS12168.1	.	.	.	.	.	.	.	.	.	.	C	5.184	0.219490	0.09863	.	.	ENSG00000104833	ENST00000264071;ENST00000540257;ENST00000412858	T;T	0.70164	-0.46;-0.46	3.83	1.13	0.20643	.	0.000000	0.64402	D	0.000003	T	0.65491	0.2696	M	0.82923	2.615	0.40614	D	0.981708	B	0.10296	0.003	B	0.08055	0.003	T	0.67039	-0.5771	10	0.87932	D	0	.	9.7907	0.40704	0.0:0.7717:0.0:0.2283	.	83	P04350	TBB4A_HUMAN	H	83	ENSP00000264071:Q83H;ENSP00000443590:Q83H	ENSP00000264071:Q83H	Q	-	3	2	TUBB4	6452326	1.000000	0.71417	1.000000	0.80357	0.432000	0.31715	2.026000	0.41069	0.592000	0.29728	0.313000	0.20887	CAG		0.577	TUBB4A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457841.1	NM_006087		A	6501326	C	A	6501326	3	1	570	1	0	0	0	0	1	0	0	0	16770	912	32	4	1093	4	TUBB4	19	6501326	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	5743115	6501326	52627657	102	33758										
ZNF557	79230	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	7083599	7083599	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gagaaatcctatgagtgcagTgattgtggaaaatcctttaa	10	5	0	3			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr19:7083599T>C	ENST00000439035.2	+	8	1356	c.1116T>C	c.(1114-1116)agT>agC	p.S372S	ZNF557_ENST00000414706.1_Silent_p.S379S|ZNF557_ENST00000252840.6_Silent_p.S379S			Q8N988	ZN557_HUMAN	zinc finger protein 557	372					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(6)|large_intestine(1)|lung(5)|ovary(1)|pancreas(1)|skin(1)|stomach(1)|urinary_tract(1)	17				Lung(535;0.179)		ATGAGTGCAGTGATTGTGGAA	0.368																																																0													64	68	67					19																	7083599		2125	4254	6379	SO:0001819	synonymous_variant	79230			AK095524	CCDS42485.1, CCDS45945.1	19p13.2	2013-09-20			ENSG00000130544	ENSG00000130544		"Zinc fingers, C2H2-type", "-"	28632	protein-coding gene	gene with protein product						12477932	Standard	NM_024341		Approved	MGC4054	uc002mgc.3	Q8N988	OTTHUMG00000181977	ENST00000439035.2:c.1116T>C	19.37:g.7083599T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6PEJ3|Q9BTZ1	Silent	SNP	ENST00000439035.2	37	CCDS45945.1																																																																																				0.368	ZNF557-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000458502.1	NM_024341		C	7083599	T	C	7083599	2	2	570	1	0	0	0	0	0	0	0	1	18000	1693	59	3		3	ZNF557	19	7083599	Silent	SNP	T	TCGA-DW-7840-01A-11D-2136-08	582273	7083599	52045384	103	33759										
SMARCA4	6597	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	11135092	11135092	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	caagggcgtgctgctgactgAtggctccgagaaggacaaga	15	9	0	4			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr19:11135092A>G	ENST00000429416.3	+	22	3340	c.3059A>G	c.(3058-3060)gAt>gGt	p.D1020G	SMARCA4_ENST00000444061.3_Missense_Mutation_p.D1020G|SMARCA4_ENST00000589677.1_Missense_Mutation_p.D1020G|SMARCA4_ENST00000358026.2_Missense_Mutation_p.D1020G|SMARCA4_ENST00000344626.4_Missense_Mutation_p.D1020G|SMARCA4_ENST00000541122.2_Missense_Mutation_p.D1020G|SMARCA4_ENST00000413806.3_Missense_Mutation_p.D1020G|SMARCA4_ENST00000590574.1_Missense_Mutation_p.D1020G|SMARCA4_ENST00000450717.3_Missense_Mutation_p.D1020G	NM_001128844.1	NP_001122316.1	P51532	SMCA4_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4	1020					aortic smooth muscle cell differentiation (GO:0035887)|ATP catabolic process (GO:0006200)|ATP-dependent chromatin remodeling (GO:0043044)|blastocyst growth (GO:0001832)|blastocyst hatching (GO:0001835)|cell morphogenesis (GO:0000902)|chromatin remodeling (GO:0006338)|definitive erythrocyte differentiation (GO:0060318)|DNA methylation on cytosine within a CG sequence (GO:0010424)|embryonic hindlimb morphogenesis (GO:0035116)|embryonic organ morphogenesis (GO:0048562)|epidermis morphogenesis (GO:0048730)|extracellular matrix organization (GO:0030198)|forebrain development (GO:0030900)|glial cell fate determination (GO:0007403)|heart trabecula formation (GO:0060347)|hindbrain development (GO:0030902)|histone H3 acetylation (GO:0043966)|keratinocyte differentiation (GO:0030216)|lens fiber cell development (GO:0070307)|liver development (GO:0001889)|methylation-dependent chromatin silencing (GO:0006346)|negative regulation of androgen receptor signaling pathway (GO:0060766)|negative regulation of cell growth (GO:0030308)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription from RNA polymerase II promoter during mitosis (GO:0007070)|negative regulation of transcription, DNA-templated (GO:0045892)|neural retina development (GO:0003407)|nucleosome disassembly (GO:0006337)|positive regulation by host of viral transcription (GO:0043923)|positive regulation of DNA binding (GO:0043388)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|stem cell maintenance (GO:0019827)|vasculogenesis (GO:0001570)	extracellular space (GO:0005615)|heterochromatin (GO:0000792)|membrane (GO:0016020)|nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nuclear euchromatin (GO:0005719)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perichromatin fibrils (GO:0005726)|protein complex (GO:0043234)|SWI/SNF complex (GO:0016514)	androgen receptor binding (GO:0050681)|ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA-dependent ATPase activity (GO:0008094)|helicase activity (GO:0004386)|lysine-acetylated histone binding (GO:0070577)|p53 binding (GO:0002039)|protein N-terminus binding (GO:0047485)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription coactivator activity (GO:0001105)|Tat protein binding (GO:0030957)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)	p.?(1)		adrenal_gland(1)|autonomic_ganglia(1)|breast(6)|central_nervous_system(23)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(16)|liver(4)|lung(60)|ovary(10)|pancreas(7)|prostate(3)|skin(8)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	163		all_lung(6;0.0512)|Lung NSC(9;0.0568)				CTGCTGACTGATGGCTCCGAG	0.632			"F, N, Mis"		NSCLC																																		Rec	yes		19	19p13.2	6597	"SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4"		E	1	Unknown(1)	lung(1)											73	58	63					19																	11135092		2203	4300	6503	SO:0001583	missense	6597			D26156	CCDS12253.1, CCDS45972.1, CCDS45973.1, CCDS54217.1, CCDS54218.1	19p13.3	2014-09-17	2006-11-09		ENSG00000127616	ENSG00000127616			11100	protein-coding gene	gene with protein product	"SNF2-like 4", "global transcription activator homologous sequence", "sucrose nonfermenting-like 4", "mitotic growth and transcription activator", "BRM/SWI2-related gene 1", "homeotic gene regulator", "nuclear protein GRB1", "brahma protein-like 1", "ATP-dependent helicase SMARCA4"	603254		SNF2L4		8208605	Standard	NM_003072		Approved	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786	uc010dxo.3	P51532	OTTHUMG00000169272	ENST00000429416.3:c.3059A>G	19.37:g.11135092A>G	ENSP00000395654:p.Asp1020Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B1A8Z4|B1A8Z5|B1A8Z6|B1A8Z7|E9PBR8|O95052|Q9HBD3	Missense_Mutation	SNP	ENST00000429416.3	37	CCDS12253.1	.	.	.	.	.	.	.	.	.	.	A	16.59	3.166378	0.57476	.	.	ENSG00000127616	ENST00000429416;ENST00000358026;ENST00000421844;ENST00000344626;ENST00000541122;ENST00000444061;ENST00000450717;ENST00000413806	T;T;T;T;T;T;T	0.81247	-1.47;-1.47;-1.47;-1.47;-1.47;-1.47;-1.47	4.76	4.76	0.60689	SNF2-related (1);	0.000000	0.85682	D	0.000000	T	0.82130	0.4970	L	0.37897	1.145	0.58432	D	0.999994	D;B;P;B;D;B;P;P	0.56287	0.975;0.418;0.78;0.002;0.975;0.0;0.78;0.78	P;B;B;B;P;B;P;P	0.57720	0.826;0.304;0.377;0.007;0.826;0.014;0.531;0.531	D	0.84375	0.0546	10	0.87932	D	0	-36.5944	13.3812	0.60768	1.0:0.0:0.0:0.0	.	1020;1020;1020;1020;1020;240;1020;1020	B1A8Z6;B1A8Z4;B1A8Z7;Q9HBD4;B1A8Z5;B4E0F1;A7E2E1;P51532	.;.;.;.;.;.;.;SMCA4_HUMAN	G	1020;1020;1084;1020;1020;1020;1020;1020	ENSP00000395654:D1020G;ENSP00000350720:D1020G;ENSP00000343896:D1020G;ENSP00000445036:D1020G;ENSP00000392837:D1020G;ENSP00000397783:D1020G;ENSP00000414727:D1020G	ENSP00000343896:D1020G	D	+	2	0	SMARCA4	10996092	1.000000	0.71417	0.922000	0.36590	0.498000	0.33706	8.908000	0.92640	1.997000	0.58415	0.533000	0.62120	GAT		0.632	SMARCA4-007	KNOWN	alternative_5_UTR|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000452638.2	NM_003072		G	11135092	A	G	11135092	3	3	570	1	0	0	0	0	1	0	0	0	14783	333	12	3	3137	3	SMARCA4	19	11135092	Missense_Mutation	SNP	A	TCGA-DW-7840-01A-11D-2136-08	4051493	11135092	47993891	104	33760										
ZNF443	10224	hgsc.bcm.edu;broad.mit.edu	37	chr19	12541116	12541116	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ggaactgagagaagcaaatgCtttcccacattccttacatt	7	10	0	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr19:12541116C>T	ENST00000301547.5	-	4	2067	c.1870G>A	c.(1870-1872)Gca>Aca	p.A624T	CTD-3105H18.16_ENST00000595562.1_Intron	NM_005815.4	NP_005806	Q9Y2A4	ZN443_HUMAN	zinc finger protein 443	624					apoptotic process (GO:0006915)|regulation of transcription, DNA-templated (GO:0006355)|response to stress (GO:0006950)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(3)|endometrium(1)|kidney(1)|large_intestine(11)|lung(10)|pancreas(1)|prostate(1)	28						GAAGCAAATGCTTTCCCACAT	0.408																																																0													62	68	66					19																	12541116		2200	4292	6492	SO:0001583	missense	10224			AB011414	CCDS32918.1	19p13.13	2013-01-08			ENSG00000180855	ENSG00000180855		"Zinc fingers, C2H2-type", "-"	20878	protein-coding gene	gene with protein product		606697				9731181	Standard	NM_005815		Approved	ZK1	uc002mtu.3	Q9Y2A4	OTTHUMG00000156404	ENST00000301547.5:c.1870G>A	19.37:g.12541116C>T	ENSP00000301547:p.Ala624Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000301547.5	37	CCDS32918.1	.	.	.	.	.	.	.	.	.	.	C	10.87	1.473549	0.26423	.	.	ENSG00000180855	ENST00000301547;ENST00000411622	T	0.13778	2.56	1.36	-0.965	0.10323	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.09686	0.0238	L	0.28504	0.86	0.09310	N	1	B	0.30664	0.289	B	0.37888	0.26	T	0.39231	-0.9624	9	0.38643	T	0.18	.	1.9484	0.03361	0.2638:0.3516:0.0:0.3846	.	624	Q9Y2A4	ZN443_HUMAN	T	624;596	ENSP00000301547:A624T	ENSP00000301547:A624T	A	-	1	0	ZNF443	12402116	0.000000	0.05858	0.001000	0.08648	0.586000	0.36452	-1.775000	0.01783	-0.214000	0.10078	0.454000	0.30748	GCA		0.408	ZNF443-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344084.1	NM_005815		T	12541116	C	T	12541116	3	4	570	1	0	0	0	0	1	0	0	0	17928	797	28	2	149	2	ZNF443	19	12541116	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	1406024	12541116	46587867	105	33761										
NOSIP	51070	hgsc.bcm.edu	37	chr19	50060443	50060443	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gaagccccgcacatggtcctGcgaggccgcccgctgaagct	13	16	0	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr19:50060443G>C	ENST00000596358.1	-	5	380	c.322C>G	c.(322-324)Cag>Gag	p.Q108E	NOSIP_ENST00000391853.3_Missense_Mutation_p.Q108E|NOSIP_ENST00000339093.3_Missense_Mutation_p.Q108E	NM_001270960.1	NP_001257889.1	Q9Y314	NOSIP_HUMAN	nitric oxide synthase interacting protein	108					negative regulation of catalytic activity (GO:0043086)|negative regulation of nitric-oxide synthase activity (GO:0051001)|nitric oxide metabolic process (GO:0046209)|regulation of nitric-oxide synthase activity (GO:0050999)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi membrane (GO:0000139)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			cervix(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(1)|ovary(1)|skin(2)|urinary_tract(1)	11		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00321)|GBM - Glioblastoma multiforme(134;0.0133)		ACATGGTCCTGCGAGGCCGCC	0.682																																																0													24	25	25					19																	50060443		2203	4300	6503	SO:0001583	missense	51070			AF132959	CCDS12772.1	19q13.3	2008-02-05				ENSG00000142546			17946	protein-coding gene	gene with protein product						11149895, 10810093	Standard	NM_015953		Approved	CGI-25	uc002pol.4	Q9Y314		ENST00000596358.1:c.322C>G	19.37:g.50060443G>C	ENSP00000470034:p.Gln108Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q96FD2	Missense_Mutation	SNP	ENST00000596358.1	37	CCDS12772.1	.	.	.	.	.	.	.	.	.	.	G	3.928	-0.016700	0.07681	.	.	ENSG00000142546	ENST00000339093;ENST00000391853	T;T	0.75938	-0.98;-0.98	5.15	2.91	0.33838	.	0.386687	0.27214	N	0.020382	T	0.47192	0.1432	N	0.11673	0.155	0.32994	D	0.525399	B	0.09022	0.002	B	0.08055	0.003	T	0.47262	-0.9131	10	0.02654	T	1	-32.2216	7.9334	0.29916	0.0:0.158:0.5163:0.3258	.	108	Q9Y314	NOSIP_HUMAN	E	108	ENSP00000343497:Q108E;ENSP00000375726:Q108E	ENSP00000343497:Q108E	Q	-	1	0	NOSIP	54752255	0.887000	0.30362	0.516000	0.27786	0.517000	0.34286	1.364000	0.34171	0.501000	0.28013	0.462000	0.41574	CAG		0.682	NOSIP-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000465423.1			C	50060443	G	C	50060443	3	2	570	1	0	0	0	0	1	0	0	0	10552	1328	46	4	603	4	NOSIP	19	50060443	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08	37519327	50060443	9068540	106	33762										
ZSCAN5A	79149	bcgsc.ca	37	chr19	56733626	56733626	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	caacgcaggcagaaggtgtgTcagcatccacattttccaca	9	12	1	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr19:56733626T>C	ENST00000587340.1	-	7	1504	c.809A>G	c.(808-810)gAc>gGc	p.D270G	ZSCAN5A_ENST00000254165.3_Missense_Mutation_p.D153G|ZSCAN5A_ENST00000592355.1_Missense_Mutation_p.D269G|ZSCAN5A_ENST00000587492.1_Missense_Mutation_p.D124G|ZSCAN5A_ENST00000391713.1_Missense_Mutation_p.D270G			Q9BUG6	ZSA5A_HUMAN	zinc finger and SCAN domain containing 5A	270					regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)			autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(5)|liver(1)|lung(12)|ovary(1)|skin(6)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	37						AGAAGGTGTGTCAGCATCCAC	0.512																																																0													98	99	98					19																	56733626		2203	4300	6503	SO:0001583	missense	79149			AK098700	CCDS12941.1	19q13.43	2013-01-08	2008-06-10	2008-06-10	ENSG00000131848	ENSG00000131848		"-", "Zinc fingers, C2H2-type"	23710	protein-coding gene	gene with protein product			"zinc finger protein 495", "zinc finger and SCAN domain containing 5"	ZNF495, ZSCAN5			Standard	NM_024303		Approved	MGC4161	uc002qmq.3	Q9BUG6		ENST00000587340.1:c.809A>G	19.37:g.56733626T>C	ENSP00000467631:p.Asp270Gly	Somatic		WXS	Illumina HiSeq	Phase_1	B4DX98|Q49A73|Q53F04|Q8N7B3	Missense_Mutation	SNP	ENST00000587340.1	37	CCDS12941.1	.	.	.	.	.	.	.	.	.	.	T	11.93	1.784761	0.31593	.	.	ENSG00000131848	ENST00000391713;ENST00000254165	T;T	0.06768	3.28;3.26	1.94	-2.12	0.07165	.	.	.	.	.	T	0.20495	0.0493	M	0.78916	2.43	0.09310	N	1	D;D	0.89917	1.0;0.997	D;D	0.83275	0.996;0.989	T	0.09885	-1.0654	9	0.40728	T	0.16	.	2.5813	0.04819	0.4024:0.1449:0.0:0.4527	.	153;270	B4DX98;Q9BUG6	.;ZSA5A_HUMAN	G	270;153	ENSP00000375593:D270G;ENSP00000254165:D153G	ENSP00000254165:D153G	D	-	2	0	ZSCAN5A	61425438	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.127000	0.10547	-0.687000	0.05162	-0.496000	0.04628	GAC		0.512	ZSCAN5A-004	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000458110.1	NM_024303		C	56733626	T	C	56733626	3	2	570	1	0	0	0	0	1	0	0	0	18250	1667	58	3	685	3	ZSCAN5A	19	56733626	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	6673183	56733626	2395357	107	33763										
ZNF814	730051	broad.mit.edu	37	chr19	58386399	58386399	+	Frame_Shift_Del	DEL	T	T	-													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tcccccaggcctcacacctgTgcagtttctgcttgtgatgt							TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr19:58386399delT	ENST00000435989.2	-	3	593	c.359delA	c.(358-360)cacfs	p.H120fs	ZNF814_ENST00000596604.1_Intron|ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000595295.1_Intron|ZNF814_ENST00000597832.1_Intron|ZNF814_ENST00000597342.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	120					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						CTCACACCTGTGCAGTTTCTG	0.502																																																0													18	14	15					19																	58386399		692	1568	2260	SO:0001589	frameshift_variant	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.359delA	19.37:g.58386399delT	ENSP00000410545:p.His120fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF35	Frame_Shift_Del	DEL	ENST00000435989.2	37	CCDS46212.1																																																																																				0.502	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		-	58386399	T	-	58386399	7	5	570	1	0	1	0	1	0	0	0	0	18188	1696	59	0	2212	0	ZNF814	19	58386399	Frame_Shift_Del	DEL	T	TCGA-DW-7840-01A-11D-2136-08	1652773	58386399	742584	108	33764										
DNMT3B	1789	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	31374365	31374365	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	agaggcacaggccttccccaCgttccacccgaggccggcag	12	17	0	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr20:31374365C>G	ENST00000328111.2	+	5	685	c.364C>G	c.(364-366)Cgt>Ggt	p.R122G	DNMT3B_ENST00000353855.2_Missense_Mutation_p.R122G|DNMT3B_ENST00000456297.2_Intron|DNMT3B_ENST00000348286.2_Missense_Mutation_p.R122G|DNMT3B_ENST00000201963.3_Missense_Mutation_p.R134G|DNMT3B_ENST00000375623.4_Intron|DNMT3B_ENST00000344505.4_Missense_Mutation_p.R122G|DNMT3B_ENST00000443239.3_Intron	NM_006892.3	NP_008823.1	Q9UBC3	DNM3B_HUMAN	DNA (cytosine-5-)-methyltransferase 3 beta	122	Interaction with DNMT1 and DNMT3A.				C-5 methylation of cytosine (GO:0090116)|cellular response to amino acid stimulus (GO:0071230)|DNA methylation (GO:0006306)|DNA methylation involved in embryo development (GO:0043045)|DNA methylation on cytosine within a CG sequence (GO:0010424)|methylation-dependent chromatin silencing (GO:0006346)|negative regulation of histone H3-K9 methylation (GO:0051573)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of gene expression (GO:0010628)|positive regulation of histone H3-K4 methylation (GO:0051571)|positive regulation of neuron differentiation (GO:0045666)|protein complex localization (GO:0031503)|regulation of gene expression by genetic imprinting (GO:0006349)|response to drug (GO:0042493)|response to ionizing radiation (GO:0010212)|S-adenosylhomocysteine metabolic process (GO:0046498)|S-adenosylmethioninamine metabolic process (GO:0046499)	chromosome, centromeric region (GO:0000775)|cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nuclear heterochromatin (GO:0005720)|nucleus (GO:0005634)	DNA (cytosine-5-)-methyltransferase activity (GO:0003886)|DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates (GO:0051718)|DNA-methyltransferase activity (GO:0009008)|metal ion binding (GO:0046872)|transcription corepressor activity (GO:0003714)|unmethylated CpG binding (GO:0045322)	p.R134C(1)|p.R122C(1)		endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(16)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	39						GCCTTCCCCACGTTCCACCCG	0.632																																																2	Substitution - Missense(2)	lung(2)											68	66	66					20																	31374365		2203	4300	6503	SO:0001583	missense	1789				CCDS13204.1, CCDS13205.1, CCDS13206.1, CCDS13207.1, CCDS56183.1, CCDS56184.1	20q11.2	2014-09-17			ENSG00000088305	ENSG00000088305			2979	protein-coding gene	gene with protein product		602900				9662389, 10433969	Standard	NM_006892		Approved		uc002wyc.3	Q9UBC3	OTTHUMG00000032226	ENST00000328111.2:c.364C>G	20.37:g.31374365C>G	ENSP00000328547:p.Arg122Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2E2|B4DSM8|B4DSU1|E1P5M6|E1P5M7|E7EN63|E9PBF2|Q9UBD4|Q9UJQ5|Q9UKA6|Q9UNE5|Q9Y5R9|Q9Y5S0	Missense_Mutation	SNP	ENST00000328111.2	37	CCDS13205.1	.	.	.	.	.	.	.	.	.	.	C	10.84	1.465264	0.26335	.	.	ENSG00000088305	ENST00000328111;ENST00000537219;ENST00000353855;ENST00000348286;ENST00000344505;ENST00000201963	D;D;D;D;D	0.98400	-4.67;-4.89;-4.82;-4.77;-4.91	4.84	3.86	0.44501	.	0.246993	0.38326	N	0.001738	D	0.97219	0.9091	L	0.27053	0.805	0.23070	N	0.998346	D;P;P;P	0.71674	0.998;0.811;0.804;0.752	D;B;B;B	0.80764	0.994;0.309;0.28;0.191	D	0.92382	0.5914	10	0.26408	T	0.33	-6.5354	9.8664	0.41145	0.2125:0.7875:0.0:0.0	.	134;122;122;122	Q9UBC3-6;Q9UBC3-3;Q9UBC3-2;Q9UBC3	.;.;.;DNM3B_HUMAN	G	122;208;122;122;122;134	ENSP00000328547:R122G;ENSP00000313397:R122G;ENSP00000337764:R122G;ENSP00000345105:R122G;ENSP00000201963:R134G	ENSP00000201963:R134G	R	+	1	0	DNMT3B	30838026	0.456000	0.25744	0.018000	0.16275	0.031000	0.12232	1.919000	0.40015	1.211000	0.43351	0.561000	0.74099	CGT		0.632	DNMT3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078643.2	NM_006892		G	31374365	C	G	31374365	3	3	570	1	0	0	0	0	1	0	0	0	4679	536	19	4	418	4	DNMT3B	20	31374365	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08		31374365	31651155	109	33765										
MMP24	10893	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr20	33851627	33851627	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	cctggtggctgtgcatgagcTgggccacgcgctgggactgg	18	11	0	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr20:33851627T>C	ENST00000246186.6	+	5	936	c.851T>C	c.(850-852)cTg>cCg	p.L284P	MMP24-AS1_ENST00000438751.1_RNA|EDEM2_ENST00000540582.1_Intron|MMP24-AS1_ENST00000454184.1_RNA|MMP24-AS1_ENST00000456350.1_RNA|MMP24-AS1_ENST00000433764.1_RNA|MMP24-AS1_ENST00000566203.2_RNA|MMP24-AS1_ENST00000453892.1_RNA	NM_006690.3	NP_006681.1	Q9Y5R2	MMP24_HUMAN	matrix metallopeptidase 24 (membrane-inserted)	284					cell-cell adhesion (GO:0098609)|cell-cell adhesion mediated by cadherin (GO:0044331)|detection of temperature stimulus involved in sensory perception of pain (GO:0050965)|glial cell differentiation (GO:0010001)|neuronal stem cell maintenance (GO:0097150)|positive regulation of catalytic activity (GO:0043085)|proteolysis (GO:0006508)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|proteinaceous extracellular matrix (GO:0005578)|trans-Golgi network membrane (GO:0032588)	calcium ion binding (GO:0005509)|enzyme activator activity (GO:0008047)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			NS(1)|endometrium(3)|large_intestine(1)|lung(2)|prostate(2)|skin(5)	14			BRCA - Breast invasive adenocarcinoma(18;0.00252)		Marimastat(DB00786)	GTGCATGAGCTGGGCCACGCG	0.622																																																0													24	24	24					20																	33851627		2203	4300	6503	SO:0001583	missense	10893			AF131284	CCDS46593.1	20q11.2	2008-07-16	2005-08-08		ENSG00000125966	ENSG00000125966			7172	protein-coding gene	gene with protein product	"membrane-type 5 matrix metalloproteinase"	604871	"matrix metalloproteinase 24 (membrane-inserted)"			10363975	Standard	NM_006690		Approved	MT5-MMP	uc002xbu.2	Q9Y5R2	OTTHUMG00000032330	ENST00000246186.6:c.851T>C	20.37:g.33851627T>C	ENSP00000246186:p.Leu284Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBG8|Q9H440	Missense_Mutation	SNP	ENST00000246186.6	37	CCDS46593.1	.	.	.	.	.	.	.	.	.	.	T	24.6	4.546808	0.86022	.	.	ENSG00000125966	ENST00000246186;ENST00000540655	T	0.35605	1.3	5.05	5.05	0.67936	Peptidase M10, metallopeptidase (1);Peptidase, metallopeptidase (1);Metallopeptidase, catalytic domain (1);	0.000000	0.64402	D	0.000004	T	0.72145	0.3424	H	0.96916	3.905	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.82337	-0.0507	10	0.87932	D	0	.	14.1037	0.65075	0.0:0.0:0.0:1.0	.	284	Q9Y5R2	MMP24_HUMAN	P	284;232	ENSP00000246186:L284P	ENSP00000246186:L284P	L	+	2	0	MMP24	33315043	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.819000	0.86621	2.105000	0.64084	0.533000	0.62120	CTG		0.622	MMP24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078851.4	NM_006690		C	33851627	T	C	33851627	3	2	570	1	0	0	0	0	1	0	0	0	9668	1580	55	3	619	3	MMP24	20	33851627	Missense_Mutation	SNP	T	TCGA-DW-7840-01A-11D-2136-08	2477262	33851627	29173893	110	33766										
SGK2	10110	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	42203603	42203603	+	Frame_Shift_Del	DEL	T	T	-													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	atgatcgagcagtggactggTggtgcttgggggcagtcctc							TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr20:42203603delT	ENST00000341458.4	+	9	1051	c.832delT	c.(832-834)tggfs	p.W278fs	SGK2_ENST00000373092.3_Frame_Shift_Del_p.W218fs|SGK2_ENST00000426287.1_Frame_Shift_Del_p.W244fs|SGK2_ENST00000423407.3_Frame_Shift_Del_p.W218fs|SGK2_ENST00000373100.1_Frame_Shift_Del_p.W218fs|SGK2_ENST00000373077.1_Frame_Shift_Del_p.W217fs	NM_016276.3	NP_057360.2	Q9HBY8	SGK2_HUMAN	serum/glucocorticoid regulated kinase 2	278	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				intracellular signal transduction (GO:0035556)|ion transmembrane transport (GO:0034220)|positive regulation of transporter activity (GO:0032411)|protein phosphorylation (GO:0006468)|regulation of cell growth (GO:0001558)|regulation of cell proliferation (GO:0042127)|response to oxidative stress (GO:0006979)|transmembrane transport (GO:0055085)	cytosol (GO:0005829)|nucleus (GO:0005634)	ATP binding (GO:0005524)|potassium channel regulator activity (GO:0015459)|protein serine/threonine kinase activity (GO:0004674)|sodium channel regulator activity (GO:0017080)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(11)|pancreas(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	27		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			AGTGGACTGGTGGTGCTTGGG	0.512																																																0													114	103	107					20																	42203603		2203	4300	6503	SO:0001589	frameshift_variant	10110			AF169034	CCDS13320.1, CCDS13321.1	20q13.2	2008-07-04			ENSG00000101049	ENSG00000101049			13900	protein-coding gene	gene with protein product		607589				10548550	Standard	NM_016276		Approved		uc002xkv.3	Q9HBY8	OTTHUMG00000033054	ENST00000341458.4:c.832delT	20.37:g.42203603delT	ENSP00000340608:p.Trp278fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q52PK5|Q5H8Y6|Q5H8Z1|Q5TZR3|Q9UKG6	Frame_Shift_Del	DEL	ENST00000341458.4	37	CCDS13320.1																																																																																				0.512	SGK2-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000080383.1			-	42203603	T	-	42203603	7	5	570	1	0	1	0	1	0	0	0	0	14222	1696	59	0	866	0	SGK2	20	42203603	Frame_Shift_Del	DEL	T	TCGA-DW-7840-01A-11D-2136-08	8351976	42203603	20821917	111	33767										
KRTAP10-12	386685	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	46117131	46117131	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tccaccatgtccgtctgctcCagcgacctgagctatggcag	10	15	1	1	rs554572469|rs372249758	byFrequency	TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr21:46117131C>T	ENST00000400365.3	+	1	45	c.15C>T	c.(13-15)tcC>tcT	p.S5S	TSPEAR_ENST00000323084.4_Intron	NM_198699.1	NP_941972.1	P60413	KR10C_HUMAN	keratin associated protein 10-12	5						keratin filament (GO:0045095)				large_intestine(1)|lung(8)	9						CCGTCTGCTCCAGCGACCTGA	0.632																																																0								C	,	0,4330		0,0,2165	83	95	91		,15	2.2	1	21		91	1,8545		0,1,4272	no	intron,coding-synonymous	TSPEAR,KRTAP10-12	NM_144991.2,NM_198699.1	,	0,1,6437	TT,TC,CC		0.0117,0.0,0.0078	,	,5/246	46117131	1,12875	2165	4273	6438	SO:0001819	synonymous_variant	386685			AB076364	CCDS42967.1	21q22.3	2006-03-13	2004-07-12	2004-07-14	ENSG00000189169	ENSG00000189169		"Keratin associated proteins"	20533	protein-coding gene	gene with protein product			"keratin associated protein 18-12"	KRTAP18-12			Standard	NM_198699		Approved	KRTAP18.12, KAP10.12	uc002zfw.1	P60413	OTTHUMG00000057629	ENST00000400365.3:c.15C>T	21.37:g.46117131C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RPA3	Silent	SNP	ENST00000400365.3	37	CCDS42967.1																																																																																				0.632	KRTAP10-12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128032.1	NM_198699		T	46117131	C	T	46117131	2	4	570	1	0	0	0	0	0	0	0	1	8515	581	21	2		2	KRTAP10-12	21	46117131	Silent	SNP	C	TCGA-DW-7840-01A-11D-2136-08		46117131	2012764	112	33768										
C21orf58	54058	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	47731374	47731374	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	aatatggaacacttaccttcCttaatacttcctgaccgttg	5	11	0	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr21:47731374C>A	ENST00000291691.7	-	6	1853	c.717G>T	c.(715-717)aaG>aaT	p.K239N	C21orf58_ENST00000472607.1_5'UTR|C21orf58_ENST00000397680.1_Missense_Mutation_p.K133N|C21orf58_ENST00000397683.1_Missense_Mutation_p.K133N|C21orf58_ENST00000397682.3_Missense_Mutation_p.K133N|C21orf58_ENST00000397679.1_Missense_Mutation_p.K133N	NM_058180.3	NP_478060.2	P58505	CU058_HUMAN	chromosome 21 open reading frame 58	239										breast(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|lung(1)|pancreas(1)	9	Breast(49;0.112)			Colorectal(79;0.239)		ACTTACCTTCCTTAATACTTC	0.488																																																0													109	90	97					21																	47731374		2202	4299	6501	SO:0001583	missense	54058				CCDS13735.1, CCDS68229.1	21q22.3	2008-07-07			ENSG00000160298	ENSG00000160298			1300	protein-coding gene	gene with protein product							Standard	XM_005261149		Approved		uc002zjf.3	P58505	OTTHUMG00000090634	ENST00000291691.7:c.717G>T	21.37:g.47731374C>A	ENSP00000291691:p.Lys239Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPI1	Missense_Mutation	SNP	ENST00000291691.7	37	CCDS13735.1	.	.	.	.	.	.	.	.	.	.	C	14.90	2.674609	0.47781	.	.	ENSG00000160298	ENST00000397683;ENST00000417060;ENST00000397682;ENST00000291691;ENST00000397679;ENST00000397680	T;T;T;T;T;T	0.68903	0.21;-0.34;0.21;-0.36;0.21;0.21	5.46	1.62	0.23740	.	0.148272	0.42548	D	0.000695	T	0.69806	0.3152	L	0.39898	1.24	0.80722	D	1	D;D;D	0.76494	0.999;0.999;0.999	D;D;D	0.79784	0.993;0.993;0.985	T	0.68911	-0.5284	10	0.87932	D	0	-21.1468	7.2122	0.25939	0.0:0.6518:0.0:0.3482	.	239;133;239	P58505;Q8N7N9;P58505-2	CU058_HUMAN;.;.	N	133;201;133;239;133;133	ENSP00000380799:K133N;ENSP00000402356:K201N;ENSP00000380798:K133N;ENSP00000291691:K239N;ENSP00000380796:K133N;ENSP00000380797:K133N	ENSP00000291691:K239N	K	-	3	2	C21orf58	46555802	0.998000	0.40836	1.000000	0.80357	0.392000	0.30506	0.249000	0.18216	0.711000	0.32018	-0.199000	0.12753	AAG		0.488	C21orf58-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207283.1	NM_058180		A	47731374	C	A	47731374	3	1	570	1	0	0	0	0	1	0	0	0	2131	680	24	4	263	4	C21orf58	21	47731374	Missense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	1614243	47731374	398521	113	33769										
ZNRF3	84133	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	29445939	29445939	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tccaccttccgcagctccctCagcagcgactatgacccctt	6	19	1	1			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr22:29445939C>G	ENST00000544604.2	+	8	1945	c.1770C>G	c.(1768-1770)ctC>ctG	p.L590L	ZNRF3_ENST00000406323.3_Silent_p.L490L|ZNRF3_ENST00000402174.1_Silent_p.L490L|ZNRF3_ENST00000332811.4_Silent_p.L490L	NM_001206998.1	NP_001193927.1	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	590					canonical Wnt signaling pathway (GO:0060070)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of non-canonical Wnt signaling pathway (GO:2000051)|protein ubiquitination (GO:0016567)|stem cell proliferation (GO:0072089)|ubiquitin-dependent protein catabolic process (GO:0006511)|Wnt receptor catabolic process (GO:0038018)|Wnt signaling pathway, planar cell polarity pathway (GO:0060071)	integral component of plasma membrane (GO:0005887)	frizzled binding (GO:0005109)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|liver(4)|lung(9)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	28						GCAGCTCCCTCAGCAGCGACT	0.672																																																0													54	62	59					22																	29445939		2076	4222	6298	SO:0001819	synonymous_variant	84133			AB051436	CCDS42999.1, CCDS56225.1	22q12.1	2013-01-09			ENSG00000183579	ENSG00000183579		"RING-type (C3HC4) zinc fingers"	18126	protein-coding gene	gene with protein product		612062				10574461	Standard	NM_032173		Approved	KIAA1133, BK747E2.3, FLJ22057, RNF203	uc003aeg.3	Q9ULT6	OTTHUMG00000151009	ENST00000544604.2:c.1770C>G	22.37:g.29445939C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KU18|Q6ICH1|Q6NTF8|Q8WU18	Silent	SNP	ENST00000544604.2	37	CCDS56225.1																																																																																				0.672	ZNRF3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000320943.2	XM_290972		G	29445939	C	G	29445939	2	3	570	1	0	0	0	0	0	0	0	1	18225	813	29	4		4	ZNRF3	22	29445939	Silent	SNP	C	TCGA-DW-7840-01A-11D-2136-08		29445939	21858627	114	33770										
RFPL3	10738	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	32754385	32754386	+	Frame_Shift_Del	DEL	GC	GC	-													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	atcaaggaactggagcccaaGctgaagaagattctacagat					rs9621427	byFrequency	TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr22:32754385_32754386delGC	ENST00000249007.4	+	1	532_533	c.327_328delGC	c.(325-330)aagctgfs	p.KL109fs	RFPL3_ENST00000397468.1_Frame_Shift_Del_p.KL80fs|RFPL3_ENST00000382088.3_Frame_Shift_Del_p.KL80fs|RFPL3S_ENST00000461833.1_5'Flank	NM_001098535.1	NP_001092005.1	O75679	RFPL3_HUMAN	ret finger protein-like 3	109	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.						zinc ion binding (GO:0008270)			cervix(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(5)|ovary(1)|skin(2)|stomach(1)	15						TGGAGCCCAAGCTGAAGAAGAT	0.5																																																0																																										SO:0001589	frameshift_variant	10738			AJ010232	CCDS13904.1, CCDS43011.1	22q12	2006-04-25			ENSG00000128276	ENSG00000128276			9980	protein-coding gene	gene with protein product		605970				10508838	Standard	NM_006604		Approved		uc010gwn.3	O75679	OTTHUMG00000030290	ENST00000249007.4:c.327_328delGC	22.37:g.32754385_32754386delGC	ENSP00000249007:p.Lys109fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2A279|Q6IC03|Q6IC04|Q6NSX3|Q8N5R4	Frame_Shift_Del	DEL	ENST00000249007.4	37	CCDS43011.1																																																																																				0.5	RFPL3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000075172.3	NM_006604		-	32754386	GC	-	32754385	7	5	570	1	0	1	0	1	0	0	0	0	13268	962	34	0	329	0	RFPL3	22	32754385	Frame_Shift_Del	DEL	GC	TCGA-DW-7840-01A-11D-2136-08	3308446	32754385	18550181	115	33771										
EP300	2033	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	41574164	41574176	+	Frame_Shift_Del	DEL	CACAGCAGCAACT	CACAGCAGCAACT	-													0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tggcctgccccagcagcaacCacagcagcaactccagccac							TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	CACAGCAGCAACT	CACAGCAGCAACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chr22:41574164_41574176delCACAGCAGCAACT	ENST00000263253.7	+	31	7668_7680	c.6449_6461delCACAGCAGCAACT	c.(6448-6462)ccacagcagcaactcfs	p.PQQQL2150fs	RP1-85F18.6_ENST00000415054.1_RNA|RP1-85F18.5_ENST00000420537.1_RNA	NM_001429.3	NP_001420.2	Q09472	EP300_HUMAN	E1A binding protein p300	2150	Interaction with HTLV-1 Tax.|Interaction with NCOA2.				apoptotic process (GO:0006915)|cellular response to hypoxia (GO:0071456)|chromatin organization (GO:0006325)|circadian rhythm (GO:0007623)|G2/M transition of mitotic cell cycle (GO:0000086)|heart development (GO:0007507)|histone H2B acetylation (GO:0043969)|histone H4 acetylation (GO:0043967)|innate immune response (GO:0045087)|internal peptidyl-lysine acetylation (GO:0018393)|internal protein amino acid acetylation (GO:0006475)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|lung development (GO:0030324)|mitotic cell cycle (GO:0000278)|N-terminal peptidyl-lysine acetylation (GO:0018076)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nervous system development (GO:0007399)|Notch signaling pathway (GO:0007219)|organ morphogenesis (GO:0009887)|positive regulation by host of viral transcription (GO:0043923)|positive regulation of protein binding (GO:0032092)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of type I interferon production (GO:0032481)|regulation of androgen receptor signaling pathway (GO:0060765)|regulation of cell cycle (GO:0051726)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of transcription, DNA-templated (GO:0006355)|regulation of tubulin deacetylation (GO:0090043)|response to estrogen (GO:0043627)|response to hypoxia (GO:0001666)|skeletal muscle tissue development (GO:0007519)|somitogenesis (GO:0001756)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	cytoplasm (GO:0005737)|histone acetyltransferase complex (GO:0000123)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	acetyltransferase activity (GO:0016407)|activating transcription factor binding (GO:0033613)|androgen receptor binding (GO:0050681)|beta-catenin binding (GO:0008013)|chromatin binding (GO:0003682)|chromatin DNA binding (GO:0031490)|core promoter binding (GO:0001047)|DNA binding (GO:0003677)|histone acetyltransferase activity (GO:0004402)|lysine N-acetyltransferase activity, acting on acetyl phosphate as donor (GO:0004468)|nuclear hormone receptor binding (GO:0035257)|pre-mRNA intronic binding (GO:0097157)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|transferase activity, transferring acyl groups (GO:0016746)|zinc ion binding (GO:0008270)			NS(2)|breast(11)|central_nervous_system(7)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(31)|kidney(5)|large_intestine(31)|liver(2)|lung(33)|ovary(2)|pancreas(4)|prostate(1)|skin(6)|stomach(1)|upper_aerodigestive_tract(8)|urinary_tract(16)	171						CAGCAGCAACCACAGCAGCAACTCCAGCCACCC	0.582			"T,  N, F, Mis, O"	"MLL, RUNXBP2"	"colorectal, breast, pancreatic, AML, ALL, DLBCL"				Rubinstein-Taybi syndrome																														Rec	yes		22	22q13	2033	300 kd E1A-Binding protein gene		"L, E"	0																																										SO:0001589	frameshift_variant	2033	Familial Cancer Database	Broad Thumb-Hallux syndrome	U01877	CCDS14010.1	22q13.2	2011-07-01			ENSG00000100393	ENSG00000100393		"Chromatin-modifying enzymes / K-acetyltransferases"	3373	protein-coding gene	gene with protein product	"histone acetyltransferase p300"	602700				7523245	Standard	NM_001429		Approved	p300, KAT3B	uc003azl.4	Q09472	OTTHUMG00000150937	ENST00000263253.7:c.6449_6461delCACAGCAGCAACT	22.37:g.41574164_41574176delCACAGCAGCAACT	ENSP00000263253:p.Pro2150fs	Somatic		WXS	Illumina HiSeq	Phase_I	B1AKC2	Frame_Shift_Del	DEL	ENST00000263253.7	37	CCDS14010.1																																																																																				0.582	EP300-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320600.1	NM_001429		-	41574176	CACAGCAGCAACT	-	41574164	7	5	570	1	0	1	0	1	0	0	0	0	5150	594	21	0	6571	0	EP300	22	41574164	Frame_Shift_Del	DEL	CACAGCAGCAACT	TCGA-DW-7840-01A-11D-2136-08	8819779	41574164	9730402	116	33772										
TXLNG	55787	hgsc.bcm.edu	37	chrX	16804661	16804661	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ggaagaggcggcggcgccgaAgaggcgactgaggccggacg	21	10	0	3			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chrX:16804661A>G	ENST00000380122.5	+	1	112	c.51A>G	c.(49-51)gaA>gaG	p.E17E	TXLNG_ENST00000398155.4_Silent_p.E17E	NM_018360.2	NP_060830.2	Q9NUQ3	TXLNG_HUMAN	taxilin gamma	17					cell cycle (GO:0007049)|regulation of bone mineralization (GO:0030500)|regulation of cell cycle (GO:0051726)|regulation of cell cycle process (GO:0010564)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytosol (GO:0005829)|nuclear membrane (GO:0031965)	protein heterodimerization activity (GO:0046982)			breast(2)|large_intestine(5)|lung(6)|prostate(1)|skin(1)	15						GCGGCGCCGAAGAGGCGACTG	0.706													A|||	23	0.00609272	0.0166	0.0014	3775	,	,		6753	0.0		0.0	False		,,,				2504	0.0															0													3	4	4					X																	16804661		1550	2886	4436	SO:0001819	synonymous_variant	55787			AK002071	CCDS14178.1, CCDS55373.1	Xp22.2	2014-05-07	2010-04-20	2010-04-20	ENSG00000086712	ENSG00000086712			18578	protein-coding gene	gene with protein product	"lipopolysaccharide specific response-5 protein", "factor inhibiting activating transcription factor 4 (ATF4)-mediated transcription"	300677	"chromosome X open reading frame 15"	CXorf15		15911876, 15184072, 16831913	Standard	NM_018360		Approved	FLJ11209, LSR5, FIAT, MGC126621, MGC126625, TXLNGX	uc004cxq.2	Q9NUQ3	OTTHUMG00000021196	ENST00000380122.5:c.51A>G	X.37:g.16804661A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q2KQ75|Q5JNZ7|Q9P0X1	Silent	SNP	ENST00000380122.5	37	CCDS14178.1																																																																																				0.706	TXLNG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055912.1	NM_018360		G	16804661	A	G	16804661	2	3	570	1	0	0	0	0	0	0	0	1	16801	69	3	3		3	TXLNG	23	16804661	Silent	SNP	A	TCGA-DW-7840-01A-11D-2136-08		16804661	138465899	117	33773										
SH3KBP1	30011	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	19626146	19626146	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	ttcagctctccttcccaccaGcctacgtcgatgcagtccta	6	17	2	0			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chrX:19626146G>T	ENST00000397821.3	-	9	1205	c.915C>A	c.(913-915)ggC>ggA	p.G305G	SH3KBP1_ENST00000477102.1_5'UTR|SH3KBP1_ENST00000379698.4_Silent_p.G268G|SH3KBP1_ENST00000541422.1_Silent_p.G44G|SH3KBP1_ENST00000379716.1_Silent_p.G67G|SH3KBP1_ENST00000379697.3_Silent_p.G349G	NM_031892.2	NP_114098.1	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1	305	SH3 3. {ECO:0000255|PROSITE- ProRule:PRU00192}.				apoptotic process (GO:0006915)|cell migration (GO:0016477)|cell-cell signaling (GO:0007267)|cytoskeleton organization (GO:0007010)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|regulation of cell shape (GO:0008360)	cell-cell junction (GO:0005911)|cytoplasmic vesicle (GO:0031410)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)|synapse (GO:0045202)				breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(8)|lung(8)|skin(4)	29						CTTCCCACCAGCCTACGTCGA	0.537																																																0													82	64	70					X																	19626146		2203	4300	6503	SO:0001819	synonymous_variant	30011			AF230904	CCDS14193.1, CCDS35213.1, CCDS55383.1	Xp22.1-p21.3	2008-02-05			ENSG00000147010	ENSG00000147010			13867	protein-coding gene	gene with protein product		300374				8889549, 7566098	Standard	NM_031892		Approved	CIN85	uc004czm.3	Q96B97	OTTHUMG00000021227	ENST00000397821.3:c.915C>A	X.37:g.19626146G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z1D5|Q5JPT4|Q5JPT5|Q8IWX6|Q8IX98|Q96RN4|Q9NYR0	Silent	SNP	ENST00000397821.3	37	CCDS14193.1																																																																																				0.537	SH3KBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055992.1	NM_031892		T	19626146	G	T	19626146	2	4	570	1	0	0	0	0	0	0	0	1	14268	958	34	4		4	SH3KBP1	23	19626146	Silent	SNP	G	TCGA-DW-7840-01A-11D-2136-08	2821485	19626146	135644414	118	33774										
MAGEB4	4115	broad.mit.edu	37	chrX	30261230	30261230	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	agagttgcagccaggcgtggCactacagccatgactagtgc	13	11	0	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chrX:30261230C>A	ENST00000378982.2	+	1	1174	c.978C>A	c.(976-978)ggC>ggA	p.G326G	MAGEB1_ENST00000378981.3_5'Flank|MAGEB1_ENST00000397550.1_5'Flank	NM_002367.3	NP_002358.1	O15481	MAGB4_HUMAN	melanoma antigen family B, 4	326										breast(2)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(12)|ovary(1)|skin(2)|upper_aerodigestive_tract(2)	27						CCAGGCGTGGCACTACAGCCA	0.512																																																0													50	43	46					X																	30261230		2202	4300	6502	SO:0001819	synonymous_variant	4115				CCDS14221.1	Xp21.3	2009-03-17			ENSG00000120289	ENSG00000120289			6811	protein-coding gene	gene with protein product	"melanoma-associated antigen B4", "cancer/testis antigen family 3, member 6"	300153				9441743	Standard	NM_002367		Approved	MGC33144, CT3.6	uc004dcb.3	O15481	OTTHUMG00000021321	ENST00000378982.2:c.978C>A	X.37:g.30261230C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9G0|Q6FHH4|Q8IZ00	Silent	SNP	ENST00000378982.2	37	CCDS14221.1																																																																																				0.512	MAGEB4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056159.1	NM_002367		A	30261230	C	A	30261230	2	1	570	1	0	0	0	0	0	0	0	1	9185	697	25	4		4	MAGEB4	23	30261230	Silent	SNP	C	TCGA-DW-7840-01A-11D-2136-08	10635084	30261230	125009330	119	33775										
KDM5C	8242	bcgsc.ca	37	chrX	53239616	53239616	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	tggcacaccatgggacatgaGggtgttgggattcatgaggg	17	6	1	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chrX:53239616G>T	ENST00000375401.3	-	12	2258	c.1726C>A	c.(1726-1728)Ctc>Atc	p.L576I	KDM5C_ENST00000375383.3_Missense_Mutation_p.L535I|KDM5C_ENST00000452825.3_Missense_Mutation_p.L509I|KDM5C_ENST00000375379.3_Missense_Mutation_p.L576I|KDM5C_ENST00000465402.1_5'UTR|KDM5C_ENST00000404049.3_Missense_Mutation_p.L575I|KDM5C-IT1_ENST00000412242.1_RNA	NM_001282622.1|NM_004187.3	NP_001269551.1|NP_004178.2	P41229	KDM5C_HUMAN	lysine (K)-specific demethylase 5C	576	JmjC. {ECO:0000255|PROSITE- ProRule:PRU00538}.				histone H3-K4 demethylation (GO:0034720)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone demethylase activity (H3-K4 specific) (GO:0032453)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(4)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(30)|large_intestine(9)|lung(17)|oesophagus(1)|ovary(6)|prostate(1)|salivary_gland(1)|skin(1)|upper_aerodigestive_tract(2)	82						TGGGACATGAGGGTGTTGGGA	0.512			"N, F, S"		clear cell renal carcinoma																																		Rec	yes		X	Xp11.22-p11.21	8242	lysine (K)-specific demethylase 5C (JARID1C)		E	0													181	152	162					X																	53239616		2203	4300	6503	SO:0001583	missense	8242			Z29650	CCDS14351.1, CCDS55417.1, CCDS65269.1	Xp11.22-p11.21	2014-01-31	2009-04-06	2009-04-06	ENSG00000126012	ENSG00000126012		"Chromatin-modifying enzymes / K-demethylases", "Zinc fingers, PHD-type"	11114	protein-coding gene	gene with protein product		314690	"Jumonji, AT rich interactive domain 1C (RBP2-like)", "Smcy homolog, X-linked (mouse)", "jumonji, AT rich interactive domain 1C", "mental retardation, X-linked 13"	SMCX, JARID1C, MRX13		7951230, 8162017, 19826449	Standard	NM_004187		Approved	DXS1272E, XE169	uc004drz.3	P41229	OTTHUMG00000021606	ENST00000375401.3:c.1726C>A	X.37:g.53239616G>T	ENSP00000364550:p.Leu576Ile	Somatic		WXS	Illumina HiSeq	Phase_1	B0QZ44|B4E3I2|F5H3T1|Q5JUX3|Q5JUX4|Q5JUX5|Q7Z5S5	Missense_Mutation	SNP	ENST00000375401.3	37	CCDS14351.1	.	.	.	.	.	.	.	.	.	.	G	23.5	4.420223	0.83559	.	.	ENSG00000126012	ENST00000452825;ENST00000375401;ENST00000404049;ENST00000375379;ENST00000375383	T;T;T;T;T	0.79554	-1.28;-1.28;-1.28;-1.28;-1.28	5.62	5.62	0.85841	Transcription factor jumonji/aspartyl beta-hydroxylase (2);Transcription factor jumonji (1);	0.000000	0.85682	D	0.000000	D	0.90779	0.7105	M	0.86740	2.835	0.58432	D	0.999999	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.81914	0.991;0.995;0.995	D	0.92296	0.5845	10	0.87932	D	0	-13.9148	15.8643	0.79052	0.0:0.0:1.0:0.0	.	509;575;576	F5H3T1;B0QZ44;P41229	.;.;KDM5C_HUMAN	I	509;576;575;576;535	ENSP00000445176:L509I;ENSP00000364550:L576I;ENSP00000385394:L575I;ENSP00000364528:L576I;ENSP00000364532:L535I	ENSP00000364528:L576I	L	-	1	0	KDM5C	53256341	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	5.792000	0.69052	2.344000	0.79699	0.600000	0.82982	CTC		0.512	KDM5C-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000056737.2	NM_004187		T	53239616	G	T	53239616	3	4	570	1	0	0	0	0	1	0	0	0	8142	1000	35	4	3114	4	KDM5C	23	53239616	Missense_Mutation	SNP	G	TCGA-DW-7840-01A-11D-2136-08	22978386	53239616	102030944	120	33776										
PCDH11X	27328	ucsc.edu;bcgsc.ca	37	chrX	91456392	91456392	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	agccaatgaaggaggttgtgCgatcttgcacccccatgaaa	11	10	1	2			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chrX:91456392C>T	ENST00000373094.1	+	3	3897	c.3052C>T	c.(3052-3054)Cga>Tga	p.R1018*	PCDH11X_ENST00000361655.2_Nonsense_Mutation_p.R1018*|PCDH11X_ENST00000406881.1_Nonsense_Mutation_p.R1018*|PCDH11X_ENST00000298274.8_Intron|PCDH11X_ENST00000373088.1_Intron|PCDH11X_ENST00000373097.1_Nonsense_Mutation_p.R1018*|PCDH11X_ENST00000504220.2_Nonsense_Mutation_p.R1018*	NM_032968.3	NP_116750.1	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked	1018			R -> Q (in dbSNP:rs4252205).		homophilic cell adhesion (GO:0007156)|negative regulation of phosphatase activity (GO:0010923)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)	p.R1018*(2)		NS(1)|autonomic_ganglia(1)|biliary_tract(1)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(30)|liver(4)|lung(92)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	159						GGAGGTTGTGCGATCTTGCAC	0.398																																					NSCLC(38;925 1092 2571 38200 45895)											2	Substitution - Nonsense(2)	large_intestine(2)											84	74	77					X																	91456392		2203	4300	6503	SO:0001587	stop_gained	27328			AB026187	CCDS14461.1, CCDS14462.1, CCDS55458.1, CCDS55459.1, CCDS55460.1, CCDS55461.1	Xq21.3	2014-06-13	2002-05-22	2002-05-24	ENSG00000102290	ENSG00000102290		"Cadherins / Protocadherins : Non-clustered"	8656	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 119"	300246	"protocadherin 11"	PCDH11		10644456	Standard	NM_001168360		Approved	PCDH-X, PCDHX, PPP1R119	uc004efm.2	Q9BZA7	OTTHUMG00000021965	ENST00000373094.1:c.3052C>T	X.37:g.91456392C>T	ENSP00000362186:p.Arg1018*	Somatic		WXS	Illumina HiSeq		A6NIQ4|Q2TJH0|Q2TJH1|Q2TJH3|Q5JVZ0|Q70LR8|Q70LS7|Q70LS8|Q70LS9|Q70LT7|Q70LT8|Q70LT9|Q70LU0|Q70LU1|Q96RV4|Q96RW0|Q9BZA6|Q9H4E0|Q9P2M0|Q9P2X5	Nonsense_Mutation	SNP	ENST00000373094.1	37	CCDS14461.1	.	.	.	.	.	.	.	.	.	.	c	22.2	4.264023	0.80358	.	.	ENSG00000102290	ENST00000373094;ENST00000373097;ENST00000504220;ENST00000361655;ENST00000406881;ENST00000356934	.	.	.	4.18	-6.23	0.02052	.	0.372941	0.19414	U	0.114870	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	9.9714	0.41757	0.7199:0.1664:0.1137:0.0	.	.	.	.	X	1018	.	ENSP00000349408:R1018X	R	+	1	2	PCDH11X	91343048	0.000000	0.05858	0.001000	0.08648	0.005000	0.04900	-0.837000	0.04377	-0.980000	0.03524	-0.341000	0.08007	CGA		0.398	PCDH11X-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000057436.1	NM_032969		T	91456392	C	T	91456392	4	4	570	1	0	0	0	0	0	1	0	0	11515	760	27	1	3144	1	PCDH11X	23	91456392	Nonsense_Mutation	SNP	C	TCGA-DW-7840-01A-11D-2136-08	38216776	91456392	63814168	121	33777										
DCAF12L1	139170	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	125685498	125685498	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0491803278688525	6	1	1.31895108796727	2.61042402826855	0.379698040475426	0.131221719457014	1	0	gggagccctgaccggtgcccAcagtgatgatgtggcggtag	17	10	0	3			TCGA-DW-7840-01A-11D-2136-08	TCGA-DW-7840-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9967ba89-7c82-4192-b2fa-ff7dfd8e1d38	0f3c3813-e814-4e7f-9a99-c3c2abc1d0bd	g.chrX:125685498A>C	ENST00000371126.1	-	1	1336	c.1094T>G	c.(1093-1095)gTg>gGg	p.V365G		NM_178470.4	NP_848565.2	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	365										breast(1)|central_nervous_system(3)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(6)|lung(39)|ovary(2)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	68						ACCGGTGCCCACAGTGATGAT	0.632																																																0													35	38	37					X																	125685498		2203	4299	6502	SO:0001583	missense	139170			BC035674	CCDS14610.1	Xq25	2013-01-09	2009-07-17	2009-07-17	ENSG00000198889	ENSG00000198889		"WD repeat domain containing"	29395	protein-coding gene	gene with protein product			"WD repeat domain 40B"	WDR40B		12477932	Standard	NM_178470		Approved	KIAA1892L	uc004eul.3	Q5VU92	OTTHUMG00000022353	ENST00000371126.1:c.1094T>G	X.37:g.125685498A>C	ENSP00000360167:p.Val365Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYK3	Missense_Mutation	SNP	ENST00000371126.1	37	CCDS14610.1	.	.	.	.	.	.	.	.	.	.	A	14.03	2.414963	0.42817	.	.	ENSG00000198889	ENST00000371126	T	0.66099	-0.19	3.64	3.64	0.41730	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);	0.343553	0.17248	N	0.181261	T	0.65491	0.2696	M	0.73962	2.25	0.58432	D	0.999996	D	0.54397	0.966	P	0.47299	0.543	T	0.70691	-0.4802	10	0.87932	D	0	.	9.8475	0.41037	1.0:0.0:0.0:0.0	.	365	Q5VU92	DC121_HUMAN	G	365	ENSP00000360167:V365G	ENSP00000360167:V365G	V	-	2	0	DCAF12L1	125513179	1.000000	0.71417	0.124000	0.21820	0.171000	0.22731	5.855000	0.69510	1.683000	0.51011	0.350000	0.21858	GTG		0.632	DCAF12L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058186.1	NM_178470		C	125685498	A	C	125685498	3	2	570	1	0	0	0	0	1	0	0	0	4266	159	6	5	301	5	DCAF12L1	23	125685498	Missense_Mutation	SNP	A	TCGA-DW-7840-01A-11D-2136-08	34229106	125685498	29585062	122	33778										
ERRFI1	54206	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	8075357	8075374	+	Splice_Site	DEL	AGAATACATACCAAGTGG	AGAATACATACCAAGTGG	-													0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	cttactgtgatcagattttcAgaatacataccaagtggtat					rs147802351	byFrequency	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	AGAATACATACCAAGTGG	AGAATACATACCAAGTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr1:8075357_8075374delAGAATACATACCAAGTGG	ENST00000377482.5	-	3	419_426	c.196_203delCCACTTGGTATGTATTCT	c.(196-204)ccacttggt>t	p.PLG66del	ERRFI1_ENST00000467067.1_In_Frame_Del_p.PLGMYS66del|ERRFI1_ENST00000474874.1_Intron|ERRFI1_ENST00000469499.1_Intron	NM_018948.3	NP_061821.1	Q9UJM3	ERRFI_HUMAN	ERBB receptor feedback inhibitor 1	66					lung alveolus development (GO:0048286)|lung epithelium development (GO:0060428)|lung vasculature development (GO:0060426)|negative regulation of epidermal growth factor-activated receptor activity (GO:0007175)|negative regulation of protein autophosphorylation (GO:0031953)|positive regulation of Rho GTPase activity (GO:0032321)|regulation of keratinocyte differentiation (GO:0045616)|response to stress (GO:0006950)|skin morphogenesis (GO:0043589)	cytoplasm (GO:0005737)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)|nucleus (GO:0005634)	protein kinase binding (GO:0019901)|Rho GTPase activator activity (GO:0005100)			breast(1)|endometrium(2)|large_intestine(3)|liver(3)|lung(3)|ovary(1)|prostate(1)|skin(2)	16	Ovarian(185;0.06)|all_lung(157;0.151)	all_epithelial(116;1.76e-16)|all_lung(118;3.66e-05)|Lung NSC(185;0.000163)|Renal(390;0.000469)|Colorectal(325;0.0033)|Breast(348;0.0044)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.33e-70)|GBM - Glioblastoma multiforme(8;8.05e-37)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;6.9e-06)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.000985)|READ - Rectum adenocarcinoma(331;0.0642)		TCAGATTTTCAGAATACATACCAAGTGGTATTAGGCGC	0.404																																																0																																										SO:0001630	splice_region_variant	54206			BC025337	CCDS94.1	1p36.23	2008-02-05			ENSG00000116285	ENSG00000116285			18185	protein-coding gene	gene with protein product		608069				10749885, 2780291, 12226756, 11003669	Standard	NM_018948		Approved	MIG-6, GENE-33, RALT	uc001aoz.3	Q9UJM3	OTTHUMG00000001221	ENST00000377482.5:c.202+1CCACTTGGTATGTATTCT>-	1.37:g.8075357_8075374delAGAATACATACCAAGTGG		Somatic		WXS	Illumina HiSeq	Phase_I	B2RDX9|Q9NTG9|Q9UD05	Frame_Shift_Del	DEL	ENST00000377482.5	37	CCDS94.1																																																																																				0.404	ERRFI1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000003617.1	NM_018948	In_Frame_Del	-	8075374	AGAATACATACCAAGTGG	-	8075357	8	5	571	1	0	1	0	1	0	0	1	0	5246	203	7	0		0	ERRFI1	1	8075357	Splice_Site	DEL	AGAATACATACCAAGTGG	TCGA-DW-7841-01A-11D-2136-08		8075357	241175264	1	33779										
FBXO2	26232	hgsc.bcm.edu	37	chr1	11710791	11710791	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	tccaggtacgcggcggcggcCgccgcctcctcctcctgctg	13	19	0	0	rs61749273		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr1:11710791C>G	ENST00000354287.4	-	2	464	c.123G>C	c.(121-123)gcG>gcC	p.A41A	FBXO2_ENST00000475961.1_5'Flank	NM_012168.5	NP_036300.2	Q9UK22	FBX2_HUMAN	F-box protein 2	41					cellular protein modification process (GO:0006464)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|glycoprotein catabolic process (GO:0006516)|negative regulation of cell proliferation (GO:0008285)|protein ubiquitination (GO:0016567)|proteolysis (GO:0006508)|regulation of protein ubiquitination (GO:0031396)|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146)	cytosol (GO:0005829)|dendritic spine (GO:0043197)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|SCF ubiquitin ligase complex (GO:0019005)	beta-amyloid binding (GO:0001540)|carbohydrate binding (GO:0030246)|ubiquitin-protein transferase activity (GO:0004842)			kidney(1)|large_intestine(1)|lung(4)	6	Ovarian(185;0.249)	Lung NSC(185;9.37e-06)|all_lung(284;1.39e-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)|BRCA - Breast invasive adenocarcinoma(304;1.88e-06)|Colorectal(212;4.88e-06)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|Lung(427;0.0146)|LUSC - Lung squamous cell carcinoma(448;0.0228)|READ - Rectum adenocarcinoma(331;0.0649)		CGGCGGCGGccgccgcctcct	0.756																																																0													2	2	2					1																	11710791		1408	2892	4300	SO:0001819	synonymous_variant	26232			AF174594	CCDS130.1	1p36.21	2010-04-21	2004-06-15		ENSG00000116661	ENSG00000116661		"F-boxes /  "other""	13581	protein-coding gene	gene with protein product		607112	"F-box only protein 2", "organ of Corti protein 1"	OCP1		10531035, 10531037	Standard	NM_012168		Approved	FBX2, Nfb42, Fbs1, Fbg1	uc001asj.3	Q9UK22	OTTHUMG00000002072	ENST00000354287.4:c.123G>C	1.37:g.11710791C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R7K7|Q5TGY0|Q6FGJ7|Q8TB29|Q9UKC6	Silent	SNP	ENST00000354287.4	37	CCDS130.1																																																																																				0.756	FBXO2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005764.1	NM_012168		G	11710791	C	G	11710791	2	3	571	1	0	0	0	0	0	0	0	1	5739	639	23	4		4	FBXO2	1	11710791	Silent	SNP	C	TCGA-DW-7841-01A-11D-2136-08	3635434	11710791	237539830	2	33780										
SYDE2	84144	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	85648788	85648788	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	tttatctggcaatgaccaatTaattgaactgccttttttca	5	8	2	2			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr1:85648788T>C	ENST00000341460.5	-	3	1586	c.1537A>G	c.(1537-1539)Aat>Gat	p.N513D		NM_032184.1	NP_115560.1	Q5VT97	SYDE2_HUMAN	synapse defective 1, Rho GTPase, homolog 2 (C. elegans)	513					activation of Rho GTPase activity (GO:0032862)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	Rho GTPase activator activity (GO:0005100)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(8)|ovary(1)	20				all cancers(265;0.0126)|Epithelial(280;0.0336)		AATGACCAATTAATTGAACTG	0.383																																																0													118	120	119					1																	85648788		1831	4083	5914	SO:0001583	missense	84144			AL834286	CCDS44169.1	1p22.3	2008-02-05		2005-08-09	ENSG00000097096	ENSG00000097096			25841	protein-coding gene	gene with protein product							Standard	NM_032184		Approved	FLJ13815	uc009wcm.3	Q5VT97	OTTHUMG00000009956	ENST00000341460.5:c.1537A>G	1.37:g.85648788T>C	ENSP00000340594:p.Asn513Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VT96|Q8NDB8|Q9H8A6	Missense_Mutation	SNP	ENST00000341460.5	37	CCDS44169.1	.	.	.	.	.	.	.	.	.	.	T	16.85	3.237512	0.58886	.	.	ENSG00000097096	ENST00000341460	T	0.09073	3.02	5.41	3.06	0.35304	.	0.205916	0.48767	D	0.000174	T	0.04770	0.0129	M	0.68952	2.095	0.28339	N	0.921432	D;P	0.52996	0.957;0.787	B;B	0.44278	0.445;0.295	T	0.20207	-1.0282	10	0.56958	D	0.05	.	8.1975	0.31405	0.0:0.0701:0.1349:0.795	.	513;513	Q5VT97;Q5VT97-2	SYDE2_HUMAN;.	D	513	ENSP00000340594:N513D	ENSP00000340594:N513D	N	-	1	0	SYDE2	85421376	1.000000	0.71417	0.992000	0.48379	0.998000	0.95712	3.969000	0.56816	0.359000	0.24239	0.528000	0.53228	AAT		0.383	SYDE2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000127989.2			C	85648788	T	C	85648788	3	2	571	1	0	0	0	0	1	0	0	0	15448	1754	61	3	2067	3	SYDE2	1	85648788	Missense_Mutation	SNP	T	TCGA-DW-7841-01A-11D-2136-08	73937997	85648788	163601833	3	33781										
LAMB3	3914	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	209800244	209800244	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	tggccacgtctccataggtcCggtctggacactggcggatg	14	12	2	0	rs144249951		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr1:209800244C>T	ENST00000356082.4	-	13	1699	c.1565G>A	c.(1564-1566)cGg>cAg	p.R522Q	LAMB3_ENST00000391911.1_Missense_Mutation_p.R522Q|LAMB3_ENST00000367030.3_Missense_Mutation_p.R522Q	NM_000228.2	NP_000219.2	Q13751	LAMB3_HUMAN	laminin, beta 3	522	Laminin EGF-like 5. {ECO:0000255|PROSITE- ProRule:PRU00460}.				brown fat cell differentiation (GO:0050873)|cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|endodermal cell differentiation (GO:0035987)|epidermis development (GO:0008544)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)	extracellular region (GO:0005576)|laminin-5 complex (GO:0005610)	structural molecule activity (GO:0005198)			NS(1)|breast(3)|central_nervous_system(2)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(11)|lung(13)|ovary(1)|prostate(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	45				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		TCCATAGGTCCGGTCTGGACA	0.672													C|||	1	0.000199681	0.0	0.0	5008	,	,		20065	0.0		0.001	False		,,,				2504	0.0															0								C	GLN/ARG,GLN/ARG,GLN/ARG	0,4406		0,0,2203	54	45	48		1565,1565,1565	-0.5	0.1	1	dbSNP_134	48	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,missense	LAMB3	NM_000228.2,NM_001017402.1,NM_001127641.1	43,43,43	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign,benign,benign	522/1173,522/1173,522/1173	209800244	1,13005	2203	4300	6503	SO:0001583	missense	3914			D37766	CCDS1487.1	1q32	2013-03-01	2002-08-29		ENSG00000196878	ENSG00000196878		"Laminins"	6490	protein-coding gene	gene with protein product		150310	"laminin, beta 3 (nicein (125kD), kalinin (140kD), BM600 (125kD))"	LAMNB1		8088808, 7774918	Standard	NM_001127641		Approved	nicein-125kDa, kalinin-140kDa, BM600-125kDa	uc001hhh.3	Q13751	OTTHUMG00000036360	ENST00000356082.4:c.1565G>A	1.37:g.209800244C>T	ENSP00000348384:p.Arg522Gln	Somatic		WXS	Illumina HiSeq	Phase_I	D3DT88|O14947|Q14733|Q9UJK4|Q9UJL1	Missense_Mutation	SNP	ENST00000356082.4	37	CCDS1487.1	.	.	.	.	.	.	.	.	.	.	C	10.87	1.471943	0.26423	0.0	1.16E-4	ENSG00000196878	ENST00000391911;ENST00000356082;ENST00000367030	T;T;T	0.61158	0.13;0.13;0.13	5.7	-0.461	0.12172	EGF-like, laminin (3);	0.489478	0.22676	N	0.057015	T	0.41305	0.1153	L	0.35854	1.095	0.09310	N	1	B	0.28082	0.2	B	0.27076	0.076	T	0.24548	-1.0157	10	0.21540	T	0.41	.	10.3743	0.44073	0.0:0.6147:0.0:0.3853	.	522	Q13751	LAMB3_HUMAN	Q	522	ENSP00000375778:R522Q;ENSP00000348384:R522Q;ENSP00000355997:R522Q	ENSP00000348384:R522Q	R	-	2	0	LAMB3	207866867	0.000000	0.05858	0.055000	0.19348	0.114000	0.19823	0.138000	0.16016	-0.213000	0.10094	0.650000	0.86243	CGG		0.672	LAMB3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088525.2	NM_000228		T	209800244	C	T	209800244	3	4	571	1	0	0	0	0	1	0	0	0	8619	652	23	1	1997	1	LAMB3	1	209800244	Missense_Mutation	SNP	C	TCGA-DW-7841-01A-11D-2136-08	124151456	209800244	39450377	4	33782										
FBXO28	23219	hgsc.bcm.edu;broad.mit.edu	37	chr1	224302059	224302059	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gtagccatcgagaacatcctCagctttatgtcctacgacga	8	12	1	1			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr1:224302059C>G	ENST00000366862.5	+	1	271	c.228C>G	c.(226-228)ctC>ctG	p.L76L	FBXO28_ENST00000424254.2_Silent_p.L76L	NM_015176.3	NP_055991.1	Q9NVF7	FBX28_HUMAN	F-box protein 28	76	F-box. {ECO:0000255|PROSITE- ProRule:PRU00080}.									endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(3)|ovary(2)|skin(1)	10	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.0363)		AGAACATCCTCAGCTTTATGT	0.647																																																0													30	31	31					1																	224302059		2202	4298	6500	SO:0001819	synonymous_variant	23219			AK001628	CCDS1539.1, CCDS44320.1	1q42.12	2011-08-12			ENSG00000143756	ENSG00000143756		"F-boxes /  "other""	29046	protein-coding gene	gene with protein product	"centromere protein 30"	609100				9455484	Standard	NM_015176		Approved	FLJ10766, KIAA0483, Fbx28, CENP-30	uc001hoh.3	Q9NVF7	OTTHUMG00000037495	ENST00000366862.5:c.228C>G	1.37:g.224302059C>G		Somatic		WXS	Illumina HiSeq	Phase_I	E9PEM8|O75070	Silent	SNP	ENST00000366862.5	37	CCDS1539.1																																																																																				0.647	FBXO28-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091283.2	NM_015176		G	224302059	C	G	224302059	2	3	571	1	0	0	0	0	0	0	0	1	5745	813	29	4		4	FBXO28	1	224302059	Silent	SNP	C	TCGA-DW-7841-01A-11D-2136-08	14501815	224302059	24948562	5	33783										
LRPPRC	10128	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	44207047	44207047	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	tcaggcaagagagaaccacaActacgtagtagaagcaaggc	11	9	1	3			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr2:44207047A>G	ENST00000260665.7	-	3	444	c.387T>C	c.(385-387)agT>agC	p.S129S	LRPPRC_ENST00000409659.1_Silent_p.S129S|LRPPRC_ENST00000409946.1_Silent_p.S129S	NM_133259.3	NP_573566.2	P42704	LPPRC_HUMAN	leucine-rich pentatricopeptide repeat containing	129					mitochondrion transport along microtubule (GO:0047497)|mRNA transport (GO:0051028)|negative regulation of mitochondrial RNA catabolic process (GO:0000961)|regulation of mitochondrial translation (GO:0070129)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	condensed nuclear chromosome (GO:0000794)|cytoskeleton (GO:0005856)|membrane (GO:0016020)|microtubule (GO:0005874)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|ribonucleoprotein complex (GO:0030529)	beta-tubulin binding (GO:0048487)|microtubule binding (GO:0008017)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|single-stranded DNA binding (GO:0003697)			breast(3)|endometrium(3)|kidney(5)|large_intestine(9)|lung(15)|ovary(2)|prostate(2)|skin(2)	41		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				GAGAACCACAACTACGTAGTA	0.368																																																0													86	79	82					2																	44207047		2203	4300	6503	SO:0001819	synonymous_variant	10128			M92439	CCDS33189.1	2p21	2012-02-24	2012-02-24		ENSG00000138095	ENSG00000138095			15714	protein-coding gene	gene with protein product		607544	"Leigh syndrome, French-Canadian type (cytochrome oxidase deficiency)"	LSFC		8012652, 8619474, 22045337	Standard	NM_133259		Approved	GP130, LRP130	uc002rtr.2	P42704	OTTHUMG00000152782	ENST00000260665.7:c.387T>C	2.37:g.44207047A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJE3|A8K1V1|Q53PC0|Q53QN7|Q6ZUD8|Q7Z7A6|Q96D84	Silent	SNP	ENST00000260665.7	37	CCDS33189.1																																																																																				0.368	LRPPRC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327823.1	NM_133259		G	44207047	A	G	44207047	2	3	571	1	0	0	0	0	0	0	0	1	8972	40	2	3		3	LRPPRC	2	44207047	Silent	SNP	A	TCGA-DW-7841-01A-11D-2136-08		44207047	198992326	6	33784										
ACVR2A	92	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	148684830	148684834	+	Frame_Shift_Del	DEL	AATCT	AATCT	-													0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	tgttgactttcctcccaaagAatctagtctatgatggttgc							TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	AATCT	AATCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr2:148684830_148684834delAATCT	ENST00000241416.7	+	11	2165_2169	c.1529_1533delAATCT	c.(1528-1533)gaatctfs	p.ES510fs	ACVR2A_ENST00000495775.1_3'UTR|ACVR2A_ENST00000535787.1_Frame_Shift_Del_p.ES402fs|ACVR2A_ENST00000404590.1_Frame_Shift_Del_p.ES510fs	NM_001278579.1|NM_001278580.1|NM_001616.3	NP_001265508.1|NP_001265509.1|NP_001607.1	P27037	AVR2A_HUMAN	activin A receptor, type IIA	510					activin receptor signaling pathway (GO:0032924)|anterior/posterior pattern specification (GO:0009952)|BMP signaling pathway (GO:0030509)|cellular response to BMP stimulus (GO:0071773)|determination of left/right symmetry (GO:0007368)|embryonic skeletal system development (GO:0048706)|gastrulation with mouth forming second (GO:0001702)|mesoderm development (GO:0007498)|penile erection (GO:0043084)|positive regulation of activin receptor signaling pathway (GO:0032927)|positive regulation of bone mineralization (GO:0030501)|positive regulation of erythrocyte differentiation (GO:0045648)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of pathway-restricted SMAD protein phosphorylation (GO:0010862)|positive regulation of protein phosphorylation (GO:0001934)|regulation of BMP signaling pathway (GO:0030510)|regulation of nitric-oxide synthase activity (GO:0050999)|Sertoli cell proliferation (GO:0060011)|sperm ejaculation (GO:0042713)|spermatogenesis (GO:0007283)|transmembrane receptor protein serine/threonine kinase signaling pathway (GO:0007178)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|inhibin-betaglycan-ActRII complex (GO:0034673)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|coreceptor activity (GO:0015026)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|receptor signaling protein serine/threonine kinase activity (GO:0004702)|transforming growth factor beta-activated receptor activity (GO:0005024)|transmembrane receptor protein serine/threonine kinase activity (GO:0004675)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(5)|large_intestine(14)|liver(1)|lung(7)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|stomach(8)	45				BRCA - Breast invasive adenocarcinoma(221;0.0969)		CCTCCCAAAGAATCTAGTCTATGAT	0.395																																																0																																										SO:0001589	frameshift_variant	92				CCDS33301.1, CCDS63030.1	2q22.2-q23.3	2008-02-05	2005-05-10	2005-05-10	ENSG00000121989	ENSG00000121989			173	protein-coding gene	gene with protein product		102581	"activin A receptor, type II"	ACVR2		1314589, 10702675	Standard	NM_001278579		Approved	ACTRII	uc002twh.3	P27037	OTTHUMG00000150603	ENST00000241416.7:c.1529_1533delAATCT	2.37:g.148684830_148684834delAATCT	ENSP00000241416:p.Glu510fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAB8|B4DWQ2|D3DP85|Q53TH4|Q6NWV2|Q92474	Frame_Shift_Del	DEL	ENST00000241416.7	37	CCDS33301.1																																																																																				0.395	ACVR2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319051.1	NM_001616		-	148684834	AATCT	-	148684830	7	5	571	1	0	1	0	1	0	0	0	0	223	246	9	0	1571	0	ACVR2A	2	148684830	Frame_Shift_Del	DEL	AATCT	TCGA-DW-7841-01A-11D-2136-08	104477783	148684830	94514543	7	33785										
SCN7A	6332	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	167284362	167284362	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	taaaccaattgttctctacaAtcttgcagcaggttttcctg	6	10	2	0			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr2:167284362A>T	ENST00000409855.1	-	17	2915	c.2789T>A	c.(2788-2790)aTt>aAt	p.I930N		NM_002976.3	NP_002967.2	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha subunit	930					membrane depolarization during action potential (GO:0086010)|muscle contraction (GO:0006936)|neuronal action potential (GO:0019228)|sodium ion homeostasis (GO:0055078)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	glial cell projection (GO:0097386)|plasma membrane (GO:0005886)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(1)|lung(30)|prostate(4)|soft_tissue(1)|urinary_tract(1)	44					Valproic Acid(DB00313)	GTTCTCTACAATCTTGCAGCA	0.458																																																0													134	128	130					2																	167284362		1885	4118	6003	SO:0001583	missense	6332			M91556	CCDS46442.1	2q21-q23	2012-03-05	2012-02-28	2002-06-14	ENSG00000136546	ENSG00000136546		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10594	protein-coding gene	gene with protein product		182392	"sodium channel, voltage-gated, type VI, alpha", "sodium channel, voltage-gated, type VII, alpha"	SCN6A		10198179	Standard	NM_002976		Approved	Nav2.1, Nav2.2, NaG	uc002udu.2	Q01118	OTTHUMG00000154078	ENST00000409855.1:c.2789T>A	2.37:g.167284362A>T	ENSP00000386796:p.Ile930Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000409855.1	37	CCDS46442.1	.	.	.	.	.	.	.	.	.	.	A	22.1	4.242192	0.79912	.	.	ENSG00000136546	ENST00000409855;ENST00000259060	D	0.89617	-2.54	5.02	5.02	0.67125	Sodium ion transport-associated (1);	0.000000	0.64402	D	0.000008	D	0.94932	0.8361	M	0.89904	3.07	0.52501	D	0.99995	D	0.76494	0.999	D	0.72338	0.977	D	0.95644	0.8701	10	0.87932	D	0	.	12.9965	0.58650	1.0:0.0:0.0:0.0	.	930	Q01118	SCN7A_HUMAN	N	930	ENSP00000386796:I930N	ENSP00000259060:I930N	I	-	2	0	SCN7A	166992608	1.000000	0.71417	0.999000	0.59377	0.861000	0.49209	7.324000	0.79115	2.228000	0.72767	0.482000	0.46254	ATT		0.458	SCN7A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333745.1			T	167284362	A	T	167284362	3	4	571	1	0	0	0	0	1	0	0	0	13936	101	4	5	2295	5	SCN7A	2	167284362	Missense_Mutation	SNP	A	TCGA-DW-7841-01A-11D-2136-08	18599532	167284362	75915011	8	33786										
SHISA5	51246	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	48510782	48510782	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gccagggtctcgtggtaggcCggtgggcccatgggctgggc	20	11	1	0			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr3:48510782C>T	ENST00000296444.2	-	5	957	c.621G>A	c.(619-621)ccG>ccA	p.P207P	SHISA5_ENST00000442747.1_Silent_p.P176P|SHISA5_ENST00000444115.1_Silent_p.P176P|SHISA5_ENST00000426002.1_Silent_p.P104P|SHISA5_ENST00000443308.2_Silent_p.P200P|SHISA5_ENST00000465449.1_5'UTR	NM_001272065.1|NM_016479.3	NP_001258994.1|NP_057563.3	Q8N114	SHSA5_HUMAN	shisa family member 5	207	Pro-rich.				intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|nuclear envelope (GO:0005635)	signal transducer activity (GO:0004871)|WW domain binding (GO:0050699)			large_intestine(1)|lung(1)	2						CGTGGTAGGCCGGTGGGCCCA	0.657																																																0													97	95	96					3																	48510782		2203	4300	6503	SO:0001819	synonymous_variant	51246			AF520698	CCDS2770.1, CCDS63621.1, CCDS63622.1, CCDS63623.1	3p21.31	2013-07-31	2013-07-31		ENSG00000164054	ENSG00000164054		"Shisa homologs"	30376	protein-coding gene	gene with protein product		607290	"shisa homolog 5 (Xenopus laevis)"			11042152, 12135983	Standard	NM_016479		Approved	SCOTIN, hShisa5	uc011bbk.1	Q8N114	OTTHUMG00000133529	ENST00000296444.2:c.621G>A	3.37:g.48510782C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KW99|F8W9N8|Q69YY9|Q7Z433|Q8NHL9|Q96MW8|Q9BV58	Silent	SNP	ENST00000296444.2	37	CCDS2770.1	.	.	.	.	.	.	.	.	.	.	C	3.542	-0.093509	0.07053	.	.	ENSG00000164054	ENST00000536074	.	.	.	5.05	-10.1	0.00402	.	.	.	.	.	T	0.47563	0.1452	.	.	.	0.42593	D	0.993257	.	.	.	.	.	.	T	0.60895	-0.7172	5	0.87932	D	0	-31.2522	1.378	0.02225	0.2716:0.1192:0.152:0.4572	.	.	.	.	Q	28	.	ENSP00000445956:R28Q	R	-	2	0	SHISA5	48485786	0.000000	0.05858	0.031000	0.17742	0.469000	0.32828	-4.182000	0.00278	-2.526000	0.00494	-0.251000	0.11542	CGG		0.657	SHISA5-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000257504.3	NM_016479		T	48510782	C	T	48510782	2	4	571	1	0	0	0	0	0	0	0	1	14296	639	23	1		1	SHISA5	3	48510782	Silent	SNP	C	TCGA-DW-7841-01A-11D-2136-08		48510782	149511648	9	33787										
SLC35A5	55032	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	112282282	112282290	+	In_Frame_Del	DEL	TATGCTCCT	TATGCTCCT	-													0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gtgctgtagtcatcctgtaaTatgctccttgtcaacaatgt					rs201886373|rs377335674|rs369182750		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	TATGCTCCT	TATGCTCCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr3:112282282_112282290delTATGCTCCT	ENST00000492406.1	+	2	315_323	c.32_40delTATGCTCCT	c.(31-42)atatgctccttg>atg	p.11_14ICSL>M	ATG3_ENST00000402314.2_5'Flank|ATG3_ENST00000283290.5_5'Flank|ATG3_ENST00000495756.1_5'Flank	NM_017945.2	NP_060415.1	Q9BS91	S35A5_HUMAN	solute carrier family 35, member A5	11					nucleotide-sugar transport (GO:0015780)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	nucleotide-sugar transmembrane transporter activity (GO:0005338)|sugar:proton symporter activity (GO:0005351)			endometrium(1)|kidney(1)|large_intestine(1)|liver(2)|lung(4)|ovary(1)|skin(1)	11						CATCCTGTAATATGCTCCTTGTCAACAAT	0.378																																																0																																										SO:0001651	inframe_deletion	55032			AK000737	CCDS2967.1	3q13.13	2013-05-22			ENSG00000138459	ENSG00000138459		"Solute carriers"	20792	protein-coding gene	gene with protein product							Standard	NM_017945		Approved	FLJ20730	uc003dze.4	Q9BS91	OTTHUMG00000159263	ENST00000492406.1:c.32_40delTATGCTCCT	3.37:g.112282282_112282290delTATGCTCCT	ENSP00000417654:p.Ile11_Leu14delinsMet	Somatic		WXS	Illumina HiSeq	Phase_I	D3DN66|Q69YY6|Q6ZMD6|Q9NWM9	In_Frame_Del	DEL	ENST00000492406.1	37	CCDS2967.1																																																																																				0.378	SLC35A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354184.1	NM_017945		-	112282290	TATGCTCCT	-	112282282	7	5	571	1	0	1	0	1	0	0	0	0	14587	1406	49	0	34	0	SLC35A5	3	112282282	In_Frame_Del	DEL	TATGCTCCT	TCGA-DW-7841-01A-11D-2136-08	63771500	112282282	85740148	10	33788										
KPNA4	3840	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	160249310	160249310	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	ttccagattttattaagtcaTcaattggtggatttcgatca	7	6	3	1			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr3:160249310T>C	ENST00000334256.4	-	6	628	c.323A>G	c.(322-324)gAt>gGt	p.D108G		NM_002268.4	NP_002259.1	O00629	IMA3_HUMAN	karyopherin alpha 4 (importin alpha 3)	108					cytokine-mediated signaling pathway (GO:0019221)|NLS-bearing protein import into nucleus (GO:0006607)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)	protein transporter activity (GO:0008565)			breast(2)|endometrium(2)|kidney(2)|large_intestine(4)|lung(10)|prostate(2)	22			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)			TATTAAGTCATCAATTGGTGG	0.269																																																0													86	97	93					3																	160249310		2203	4293	6496	SO:0001583	missense	3840			AB002533	CCDS3191.1	3q25.33	2013-02-14			ENSG00000186432	ENSG00000186432		"Importins", "Armadillo repeat containing"	6397	protein-coding gene	gene with protein product		602970				9168958, 9395085	Standard	NM_002268		Approved	QIP1, SRP3, IPOA3, MGC12217, MGC26703	uc003fdn.3	O00629	OTTHUMG00000159033	ENST00000334256.4:c.323A>G	3.37:g.160249310T>C	ENSP00000334373:p.Asp108Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4S6|D3DNM2|O00190	Missense_Mutation	SNP	ENST00000334256.4	37	CCDS3191.1	.	.	.	.	.	.	.	.	.	.	T	26.8	4.773313	0.90108	.	.	ENSG00000186432	ENST00000334256	T	0.32272	1.46	5.44	5.44	0.79542	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.65688	0.2715	M	0.93328	3.405	0.80722	D	1	D	0.67145	0.996	D	0.72075	0.976	T	0.75769	-0.3201	10	0.72032	D	0.01	.	15.6624	0.77197	0.0:0.0:0.0:1.0	.	108	O00629	IMA4_HUMAN	G	108	ENSP00000334373:D108G	ENSP00000334373:D108G	D	-	2	0	KPNA4	161732004	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.797000	0.85911	2.284000	0.76573	0.528000	0.53228	GAT		0.269	KPNA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352960.1	NM_002268		C	160249310	T	C	160249310	3	2	571	1	0	0	0	0	1	0	0	0	8439	1435	50	3	1290	3	KPNA4	3	160249310	Missense_Mutation	SNP	T	TCGA-DW-7841-01A-11D-2136-08	47967028	160249310	37773120	11	33789										
SLC30A9	10463	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	42037333	42037333	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	tattaagagaatacagagatTtcttgggaaataccaaggta	9	4	1	2			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr4:42037333T>G	ENST00000264451.7	+	7	832	c.652T>G	c.(652-654)Ttc>Gtc	p.F218V		NM_006345.3	NP_006336.3	Q6PML9	ZNT9_HUMAN	solute carrier family 30 (zinc transporter), member 9	218					nucleotide-excision repair (GO:0006289)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)|zinc ion transport (GO:0006829)	cytoskeleton (GO:0005856)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	cation transmembrane transporter activity (GO:0008324)|chromatin binding (GO:0003682)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.F218V(1)		central_nervous_system(2)|endometrium(4)|kidney(2)|large_intestine(8)|lung(6)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	25						ATACAGAGATTTCTTGGGAAA	0.299																																																1	Substitution - Missense(1)	kidney(1)											56	62	60					4																	42037333		2200	4282	6482	SO:0001583	missense	10463			AF006621	CCDS3465.1	4p13	2013-05-22	2003-09-09	2003-09-10	ENSG00000014824	ENSG00000014824		"Solute carriers"	1329	protein-coding gene	gene with protein product	"GRIP1-dependent nuclear receptor coactivator"	604604	"chromosome 4 open reading frame 1"	C4orf1		10409434, 11906820	Standard	NM_006345		Approved	HUEL, ZNT9, GAC63	uc003gwl.3	Q6PML9	OTTHUMG00000099387	ENST00000264451.7:c.652T>G	4.37:g.42037333T>G	ENSP00000264451:p.Phe218Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5B6|Q7Z5I7|Q8TBB2|Q9Y6R2	Missense_Mutation	SNP	ENST00000264451.7	37	CCDS3465.1	.	.	.	.	.	.	.	.	.	.	T	9.461	1.093124	0.20471	.	.	ENSG00000014824	ENST00000264451;ENST00000536881	T	0.54866	0.55	4.48	4.48	0.54585	.	0.000000	0.85682	D	0.000000	T	0.37732	0.1014	L	0.34521	1.04	0.58432	D	0.999996	P	0.43352	0.804	B	0.38842	0.283	T	0.13872	-1.0493	10	0.16420	T	0.52	-12.6044	11.5359	0.50636	0.0:0.0:0.0:1.0	.	218	Q6PML9	ZNT9_HUMAN	V	218;46	ENSP00000264451:F218V	ENSP00000264451:F218V	F	+	1	0	SLC30A9	41732090	1.000000	0.71417	0.997000	0.53966	0.962000	0.63368	4.876000	0.63079	2.003000	0.58678	0.397000	0.26171	TTC		0.299	SLC30A9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216842.3			G	42037333	T	G	42037333	3	3	571	1	0	0	0	0	1	0	0	0	14575	1841	64	5	678	5	SLC30A9	4	42037333	Missense_Mutation	SNP	T	TCGA-DW-7841-01A-11D-2136-08		42037333	149116943	12	33790										
PRDM9	56979	hgsc.bcm.edu	37	chr5	23526915	23526915	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	cctcctcattcaccagaggaTacacacaggggagaagccct	9	14	2	2	rs199686868		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr5:23526915T>C	ENST00000296682.3	+	11	1900	c.1718T>C	c.(1717-1719)aTa>aCa	p.I573T		NM_020227.2	NP_064612.2	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	573					meiotic gene conversion (GO:0006311)|positive regulation of meiosis I (GO:0060903)|positive regulation of reciprocal meiotic recombination (GO:0010845)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)	histone methyltransferase activity (H3-K4 specific) (GO:0042800)|metal ion binding (GO:0046872)|recombination hotspot binding (GO:0010844)|sequence-specific DNA binding (GO:0043565)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(15)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(27)|lung(87)|ovary(6)|pancreas(2)|prostate(4)|skin(10)|upper_aerodigestive_tract(11)	172						CACCAGAGGATACACACAGGG	0.567										HNSCC(3;0.000094)																																						0													73	81	78					5																	23526915		2190	4296	6486	SO:0001583	missense	56979			AF275816	CCDS43307.1	5p14.2	2014-06-03			ENSG00000164256	ENSG00000164256		"-", "Zinc fingers, C2H2-type"	13994	protein-coding gene	gene with protein product	"PR-domain containing protein 9"	609760	"minisatellite binding protein 3, 115kDa", "minisatellite binding protein 3 (115kD)"	MSBP3		10668202, 2062643, 24634223	Standard	NM_020227		Approved	PFM6, ZNF899	uc003jgo.3	Q9NQV7	OTTHUMG00000161918	ENST00000296682.3:c.1718T>C	5.37:g.23526915T>C	ENSP00000296682:p.Ile573Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DX22|Q27Q50	Missense_Mutation	SNP	ENST00000296682.3	37	CCDS43307.1	.	.	.	.	.	.	.	.	.	.	C	0.007	-2.000672	0.00431	.	.	ENSG00000164256	ENST00000296682	T	0.04015	3.73	2.31	1.41	0.22369	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.249761	0.20968	N	0.082442	T	0.02119	0.0066	N	0.12422	0.21	0.18873	N	0.999989	B	0.02656	0.0	B	0.06405	0.002	T	0.48043	-0.9069	10	0.06891	T	0.86	-2.9928	5.0646	0.14576	0.0:0.5362:0.0:0.4638	.	573	Q9NQV7	PRDM9_HUMAN	T	573	ENSP00000296682:I573T	ENSP00000296682:I573T	I	+	2	0	PRDM9	23562672	0.000000	0.05858	0.999000	0.59377	0.648000	0.38561	-0.775000	0.04679	0.078000	0.16900	-0.511000	0.04467	ATA		0.567	PRDM9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366375.1	NM_020227		C	23526915	T	C	23526915	3	2	571	1	0	0	0	0	1	0	0	0	12473	1406	49	3	1756	3	PRDM9	5	23526915	Missense_Mutation	SNP	T	TCGA-DW-7841-01A-11D-2136-08		23526915	157388345	13	33791										
ZCCHC9	84240	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	80600585	80600585	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	actgatgaaattatgaccagGtgggcccgagttagtaccac	11	9	0	3			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr5:80600585G>A	ENST00000254037.2	+	1	3164	c.9G>A	c.(7-9)agG>agA	p.R3R	ZCCHC9_ENST00000438268.2_Silent_p.R3R|ZCCHC9_ENST00000380199.5_Silent_p.R3R|ZCCHC9_ENST00000506458.1_Intron|ZCCHC9_ENST00000407610.3_Silent_p.R3R			Q8N567	ZCHC9_HUMAN	zinc finger, CCHC domain containing 9	3					negative regulation of phosphatase activity (GO:0010923)		poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			breast(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(3)|ovary(1)	13		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;8.18e-45)|Epithelial(54;2.72e-39)|all cancers(79;7.33e-34)		TTATGACCAGGTGGGCCCGAG	0.423																																																0													81	76	77					5																	80600585		2203	4300	6503	SO:0001819	synonymous_variant	84240			BC014841	CCDS4054.1	5q14.1	2013-01-09			ENSG00000131732	ENSG00000131732		"Zinc fingers, CCHC domain containing", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	25424	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 41"					12477932	Standard	NM_032280		Approved	DKFZp761J139, PPP1R41	uc003khi.3	Q8N567	OTTHUMG00000119014	ENST00000254037.2:c.9G>A	5.37:g.80600585G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RAE7|Q9H027	Silent	SNP	ENST00000254037.2	37	CCDS4054.1																																																																																				0.423	ZCCHC9-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239213.1	NM_032280		A	80600585	G	A	80600585	2	1	571	1	0	0	0	0	0	0	0	1	17607	1252	44	2		2	ZCCHC9	5	80600585	Silent	SNP	G	TCGA-DW-7841-01A-11D-2136-08	57073670	80600585	100314675	14	33792										
PCDHGA6	56109	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	140753888	140753888	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	agcttttctctctgaatccgCgaaacggcagcttggtcacc	9	13	3	1			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr5:140753888C>T	ENST00000517434.1	+	1	238	c.238C>T	c.(238-240)Cga>Tga	p.R80*	PCDHGA2_ENST00000394576.2_Intron|PCDHGA4_ENST00000571252.1_Intron|PCDHGA5_ENST00000518069.1_Intron|PCDHGA1_ENST00000517417.1_Intron|PCDHGA3_ENST00000253812.6_Intron|PCDHGB3_ENST00000576222.1_Intron|PCDHGB1_ENST00000523390.1_Intron|PCDHGB2_ENST00000522605.1_Intron	NM_018919.2|NM_032086.1	NP_061742.1|NP_114475.1	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6	80	Cadherin 1. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(1)|large_intestine(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTGAATCCGCGAAACGGCAG	0.577																																																0													51	58	55					5																	140753888		2200	4300	6500	SO:0001587	stop_gained	56109			AF152513	CCDS54926.1, CCDS75335.1	5q31	2010-01-26				ENSG00000253731		"Cadherins / Protocadherins : Clustered"	8704	other	protocadherin		606293				10380929	Standard	NM_018919		Approved	PCDH-GAMMA-A6		Q9Y5G7		ENST00000517434.1:c.238C>T	5.37:g.140753888C>T	ENSP00000429601:p.Arg80*	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8K7|B2RN55|Q9Y5D1	Nonsense_Mutation	SNP	ENST00000517434.1	37	CCDS54926.1	.	.	.	.	.	.	.	.	.	.	.	12.46	1.943892	0.34283	.	.	ENSG00000253731	ENST00000517434	.	.	.	5.09	-0.279	0.12890	.	0.000000	0.29253	U	0.012681	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	1.6064	0.02684	0.3336:0.2219:0.2969:0.1477	.	.	.	.	X	80	.	ENSP00000429601:R80X	R	+	1	2	PCDHGA6	140734072	0.000000	0.05858	0.001000	0.08648	0.189000	0.23516	-0.696000	0.05104	0.091000	0.17302	0.650000	0.86243	CGA		0.577	PCDHGA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374743.1	NM_018919		T	140753888	C	T	140753888	4	4	571	1	0	0	0	0	0	1	0	0	11565	760	27	1	240	1	PCDHGA6	5	140753888	Nonsense_Mutation	SNP	C	TCGA-DW-7841-01A-11D-2136-08	60153303	140753888	40161372	15	33793										
PWWP2A	114825	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	159520919	159520919	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	aagctcagctcgggatgcggGacaggagaagggtcatcggg	18	8	2	1			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr5:159520919G>A	ENST00000307063.7	-	2	772	c.738C>T	c.(736-738)gtC>gtT	p.V246V	PWWP2A_ENST00000456329.3_Silent_p.V246V|PWWP2A_ENST00000523662.1_Silent_p.V246V	NM_001130864.1	NP_001124336.1	Q96N64	PWP2A_HUMAN	PWWP domain containing 2A	246	Pro-rich.									kidney(1)|large_intestine(1)|lung(2)|upper_aerodigestive_tract(1)	5	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)			CGGGATGCGGGACAGGAGAAG	0.512																																																0													115	114	114					5																	159520919		1983	4144	6127	SO:0001819	synonymous_variant	114825				CCDS47331.1, CCDS47332.1, CCDS58990.1	5q33.3	2011-03-23			ENSG00000170234	ENSG00000170234			29406	protein-coding gene	gene with protein product							Standard	NM_052927		Approved	KIAA1935	uc011ded.2	Q96N64	OTTHUMG00000163546	ENST00000307063.7:c.738C>T	5.37:g.159520919G>A		Somatic		WXS	Illumina HiSeq	Phase_I	G5EA07|Q2HJJ2|Q8IYR3|Q96PV3	Silent	SNP	ENST00000307063.7	37	CCDS47332.1																																																																																				0.512	PWWP2A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374092.1			A	159520919	G	A	159520919	2	1	571	1	0	0	0	0	0	0	0	1	12858	1161	41	2		2	PWWP2A	5	159520919	Silent	SNP	G	TCGA-DW-7841-01A-11D-2136-08	18767031	159520919	21394341	16	33794										
RPL10A	4736	broad.mit.edu	37	chr6	35436591	35436591	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	cgcagcagcaaagtctctcgCgacaccctgtacgaggcggt	12	14	1	0			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr6:35436591C>T	ENST00000322203.6	+	2	48	c.21C>T	c.(19-21)cgC>cgT	p.R7R	RPL10A_ENST00000467020.1_3'UTR	NM_007104.4	NP_009035.3	P62906	RL10A_HUMAN	ribosomal protein L10a	7					anatomical structure morphogenesis (GO:0009653)|cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|structural constituent of ribosome (GO:0003735)			breast(1)|large_intestine(2)|ovary(1)	4						AAGTCTCTCGCGACACCCTGT	0.697																																																0													11	12	12					6																	35436591		2197	4293	6490	SO:0001819	synonymous_variant	4736			U12404	CCDS4806.1	6p21.31	2011-04-06			ENSG00000198755	ENSG00000198755		"L ribosomal proteins"	10299	protein-coding gene	gene with protein product		615660		NEDD6		7609734, 9647638	Standard	NM_007104		Approved	Csa-19, L10A	uc003okp.1	P62906	OTTHUMG00000014566	ENST00000322203.6:c.21C>T	6.37:g.35436591C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R801|P52859|P53025|Q5TZT6|Q8J013	Silent	SNP	ENST00000322203.6	37	CCDS4806.1																																																																																				0.697	RPL10A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040283.1	NM_007104		T	35436591	C	T	35436591	2	4	571	1	0	0	0	0	0	0	0	1	13568	755	27	1		1	RPL10A	6	35436591	Silent	SNP	C	TCGA-DW-7841-01A-11D-2136-08		35436591	135678476	17	33795										
TNFAIP3	7128	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	138200108	138200108	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gcaacttcacgccagccacgCcccagaccacacaaggcact	7	19	1	1			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr6:138200108C>T	ENST00000237289.4	+	7	1592	c.1526C>T	c.(1525-1527)gCc>gTc	p.A509V		NM_001270507.1|NM_001270508.1|NM_006290.3	NP_001257436.1|NP_001257437.1|NP_006281.1	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	509	Interaction with TNIP1. {ECO:0000250}.				apoptotic process (GO:0006915)|B-1 B cell homeostasis (GO:0001922)|cellular response to hydrogen peroxide (GO:0070301)|cellular response to lipopolysaccharide (GO:0071222)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|negative regulation of B cell activation (GO:0050869)|negative regulation of bone resorption (GO:0045779)|negative regulation of CD40 signaling pathway (GO:2000349)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of inflammatory response (GO:0050728)|negative regulation of innate immune response (GO:0045824)|negative regulation of interleukin-2 production (GO:0032703)|negative regulation of interleukin-6 production (GO:0032715)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of osteoclast proliferation (GO:0090291)|negative regulation of protein ubiquitination (GO:0031397)|negative regulation of smooth muscle cell proliferation (GO:0048662)|negative regulation of toll-like receptor 2 signaling pathway (GO:0034136)|negative regulation of toll-like receptor 3 signaling pathway (GO:0034140)|negative regulation of toll-like receptor 4 signaling pathway (GO:0034144)|negative regulation of tumor necrosis factor production (GO:0032720)|negative regulation of type I interferon production (GO:0032480)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of protein catabolic process (GO:0045732)|protein deubiquitination (GO:0016579)|protein K11-linked deubiquitination (GO:0035871)|protein K48-linked deubiquitination (GO:0071108)|protein K48-linked ubiquitination (GO:0070936)|protein K63-linked deubiquitination (GO:0070536)|protein oligomerization (GO:0051259)|regulation of defense response to virus by host (GO:0050691)|regulation of germinal center formation (GO:0002634)|regulation of vascular wound healing (GO:0061043)|response to molecule of bacterial origin (GO:0002237)|tolerance induction to lipopolysaccharide (GO:0072573)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|lysosome (GO:0005764)|nucleus (GO:0005634)	DNA binding (GO:0003677)|ligase activity (GO:0016874)|protease binding (GO:0002020)|protein self-association (GO:0043621)|ubiquitin binding (GO:0043130)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-protein transferase activity (GO:0004842)|ubiquitin-specific protease activity (GO:0004843)|zinc ion binding (GO:0008270)	p.0?(25)|p.A506fs*21(1)		breast(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(196)|kidney(1)|large_intestine(4)|lung(13)|ovary(4)|prostate(2)|stomach(1)|upper_aerodigestive_tract(1)	225	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		GCCAGCCACGCCCCAGACCAC	0.562			"D, N, F"		"marginal zone B-cell lymphomas, Hodgkin's lymphoma, primary mediastinal B cell lymphoma"																																GBM(130;153 1739 22295 28918 47987)		Rec	yes		6	6q23	7128	"tumor necrosis factor, alpha-induced protein 3"		L	26	Whole gene deletion(25)|Deletion - Frameshift(1)	haematopoietic_and_lymphoid_tissue(26)											53	57	56					6																	138200108		2203	4300	6503	SO:0001583	missense	7128			M59465	CCDS5187.1	6q23-q25	2013-01-21			ENSG00000118503	ENSG00000118503		"OTU domain containing"	11896	protein-coding gene	gene with protein product		191163				2118515	Standard	NM_006290		Approved	A20, OTUD7C	uc031spw.1	P21580	OTTHUMG00000015664	ENST00000237289.4:c.1526C>T	6.37:g.138200108C>T	ENSP00000237289:p.Ala509Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R767|E1P588|Q2HIX9|Q5VXQ7|Q9NSR6	Missense_Mutation	SNP	ENST00000237289.4	37	CCDS5187.1	.	.	.	.	.	.	.	.	.	.	C	8.783	0.928799	0.18131	.	.	ENSG00000118503	ENST00000237289;ENST00000535574;ENST00000544646	T	0.23950	1.88	5.88	0.17	0.15021	.	2.360930	0.01293	N	0.010090	T	0.06005	0.0156	L	0.29908	0.895	0.09310	N	1	B	0.20671	0.047	B	0.19148	0.024	T	0.21690	-1.0238	10	0.31617	T	0.26	-3.2172	3.4733	0.07575	0.336:0.2854:0.3007:0.078	.	509	P21580	TNAP3_HUMAN	V	509	ENSP00000237289:A509V	ENSP00000237289:A509V	A	+	2	0	TNFAIP3	138241801	0.000000	0.05858	0.001000	0.08648	0.055000	0.15305	0.071000	0.14594	0.072000	0.16694	0.655000	0.94253	GCC		0.562	TNFAIP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042414.1			T	138200108	C	T	138200108	3	4	571	1	0	0	0	0	1	0	0	0	16286	739	26	2	1548	2	TNFAIP3	6	138200108	Missense_Mutation	SNP	C	TCGA-DW-7841-01A-11D-2136-08	102763517	138200108	32914959	18	33796										
CBX3	11335	hgsc.bcm.edu	37	chr7	26251700	26251700	+	Splice_Site	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	atttttctttttcttaaaacAggaaagattcagatgaggca	7	5	3	3			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr7:26251700A>T	ENST00000337620.4	+	6	853		c.e6-1		CBX3_ENST00000409747.1_Splice_Site|CBX3_ENST00000396386.2_Splice_Site	NM_007276.4	NP_009207.2	Q13185	CBX3_HUMAN	chromobox homolog 3						chromatin remodeling (GO:0006338)|negative regulation of transcription, DNA-templated (GO:0045892)|rhythmic process (GO:0048511)|transcription, DNA-templated (GO:0006351)	chromatin (GO:0000785)|condensed chromosome, centromeric region (GO:0000779)|nuclear envelope (GO:0005635)|nuclear euchromatin (GO:0005719)|nuclear heterochromatin (GO:0005720)|nuclear inner membrane (GO:0005637)|nuclear pericentric heterochromatin (GO:0031618)|nucleus (GO:0005634)|spindle (GO:0005819)	enzyme binding (GO:0019899)|histone methyltransferase binding (GO:1990226)|identical protein binding (GO:0042802)|protein domain specific binding (GO:0019904)			endometrium(4)|large_intestine(2)|lung(2)|ovary(1)	9						TTCTTAAAACAGGAAAGATTC	0.358																																																0													49	50	50					7																	26251700		2203	4300	6503	SO:0001630	splice_region_variant	11335			U26312	CCDS5398.1	7p15.2	2010-07-06	2010-06-24		ENSG00000122565	ENSG00000122565			1553	protein-coding gene	gene with protein product	"HP1 gamma homolog (Drosophila)"	604477	"chromobox homolog 3 (Drosophila HP1 gamma)"			8663349	Standard	NM_016587		Approved	HP1Hs-gamma	uc003sxu.3	Q13185	OTTHUMG00000022911	ENST00000337620.4:c.426-1A>T	7.37:g.26251700A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q96CD7|Q99409|Q9BVS3|Q9P0Z6	Splice_Site	SNP	ENST00000337620.4	37	CCDS5398.1	.	.	.	.	.	.	.	.	.	.	A	17.47	3.397838	0.62177	.	.	ENSG00000122565	ENST00000337620;ENST00000396386	.	.	.	5.54	5.54	0.83059	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.9596	0.79918	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	CBX3	26218225	1.000000	0.71417	0.985000	0.45067	0.622000	0.37654	9.240000	0.95396	2.231000	0.72958	0.533000	0.62120	.		0.358	CBX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214117.1	NM_007276	Intron	T	26251700	A	T	26251700	5	4	571	1	0	0	0	0	0	0	1	0	2721	202	7	5	442	5	CBX3	7	26251700	Splice_Site	SNP	A	TCGA-DW-7841-01A-11D-2136-08		26251700	132886963	19	33797										
ADAM9	8754	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	38880710	38880711	+	Frame_Shift_Ins	INS	-	-	GG													0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	atattcgaattgtgctagttINSggactggagatttggaccaa							TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr8:38880710_38880711insGG	ENST00000487273.2	+	9	858_859	c.780_781insGG	c.(781-783)ggafs	p.G261fs		NM_003816.2	NP_003807.1	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9	261	Peptidase M12B. {ECO:0000255|PROSITE- ProRule:PRU00276}.				activation of MAPKK activity (GO:0000186)|cell adhesion (GO:0007155)|cell adhesion mediated by integrin (GO:0033627)|cell-cell adhesion mediated by integrin (GO:0033631)|cell-matrix adhesion (GO:0007160)|cellular response to lipopolysaccharide (GO:0071222)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|integrin-mediated signaling pathway (GO:0007229)|keratinocyte differentiation (GO:0030216)|membrane protein ectodomain proteolysis (GO:0006509)|monocyte activation (GO:0042117)|PMA-inducible membrane protein ectodomain proteolysis (GO:0051088)|positive regulation of cell adhesion mediated by integrin (GO:0033630)|positive regulation of keratinocyte migration (GO:0051549)|positive regulation of macrophage fusion (GO:0034241)|positive regulation of membrane protein ectodomain proteolysis (GO:0051044)|positive regulation of protein secretion (GO:0050714)|response to calcium ion (GO:0051592)|response to glucocorticoid (GO:0051384)|response to hydrogen peroxide (GO:0042542)|response to laminar fluid shear stress (GO:0034616)|response to manganese ion (GO:0010042)|response to tumor necrosis factor (GO:0034612)|transforming growth factor beta receptor signaling pathway (GO:0007179)	basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|intrinsic component of external side of plasma membrane (GO:0031233)	collagen binding (GO:0005518)|integrin binding (GO:0005178)|laminin binding (GO:0043236)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|protein kinase C binding (GO:0005080)|SH3 domain binding (GO:0017124)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(5)|lung(14)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	31		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			TTGTGCTAGTTGGACTGGAGAT	0.376																																																0																																										SO:0001589	frameshift_variant	8754			U41766	CCDS6112.1	8p11.23	2011-03-18	2010-06-24		ENSG00000168615	ENSG00000168615		"ADAM metallopeptidase domain containing"	216	protein-coding gene	gene with protein product	"meltrin gamma"	602713	"a disintegrin and metalloproteinase domain 9 (meltrin gamma)", "cone rod dystrophy 9"	CORD9		8647900, 11581183, 19409519	Standard	NR_027638		Approved	MDC9, KIAA0021, MCMP, Mltng	uc003xmr.3	Q13443	OTTHUMG00000159783	ENST00000487273.2:c.781_782dupGG	8.37:g.38880711_38880712dupGG	ENSP00000419446:p.Gly261fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLN7|Q10718|Q8NFM6	Frame_Shift_Ins	INS	ENST00000487273.2	37	CCDS6112.1																																																																																				0.376	ADAM9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357291.2			GG	38880711	-	GG	38880710	7	5	571	1	0	1	1	0	0	0	0	0	253	1799	63	0	814	0	ADAM9	8	38880710	Frame_Shift_Ins	INS	-	TCGA-DW-7841-01A-11D-2136-08		38880710	107483312	20	33798										
FAM91A1	157769	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	124787418	124787418	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	aagaaagatgaacgcagataCtatgaggaactgctaaagta	10	5	0	5			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr8:124787418C>A	ENST00000334705.7	+	3	435	c.189C>A	c.(187-189)taC>taA	p.Y63*	FAM91A1_ENST00000521166.1_Nonsense_Mutation_p.Y63*	NM_144963.2	NP_659400	Q658Y4	F91A1_HUMAN	family with sequence similarity 91, member A1	63										breast(4)|central_nervous_system(3)|endometrium(6)|kidney(2)|large_intestine(3)|lung(6)|ovary(1)|pancreas(1)|prostate(1)|skin(1)	28	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)			AACGCAGATACTATGAGGAAC	0.363																																																0													91	80	84					8																	124787418		1882	4109	5991	SO:0001587	stop_gained	157769			AK074370	CCDS6346.2	8q24.13	2005-10-04			ENSG00000176853	ENSG00000176853			26306	protein-coding gene	gene with protein product						12477932	Standard	XM_005250806		Approved	FLJ23790	uc003yqv.3	Q658Y4	OTTHUMG00000133021	ENST00000334705.7:c.189C>A	8.37:g.124787418C>A	ENSP00000335082:p.Tyr63*	Somatic		WXS	Illumina HiSeq	Phase_I	B6YY23|Q658T5|Q8TE89	Nonsense_Mutation	SNP	ENST00000334705.7	37	CCDS6346.2	.	.	.	.	.	.	.	.	.	.	C	28.1	4.892276	0.91889	.	.	ENSG00000176853	ENST00000521166;ENST00000334705;ENST00000395537	.	.	.	5.33	3.52	0.40303	.	0.000000	0.64402	U	0.000001	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	10.0665	0.42306	0.0:0.7624:0.0:0.2376	.	.	.	.	X	63	.	ENSP00000335082:Y63X	Y	+	3	2	FAM91A1	124856599	1.000000	0.71417	1.000000	0.80357	0.897000	0.52465	1.080000	0.30779	0.619000	0.30197	0.655000	0.94253	TAC		0.363	FAM91A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256607.1	NM_144963		A	124787418	C	A	124787418	4	1	571	1	0	0	0	0	0	1	0	0	5658	576	20	4	199	4	FAM91A1	8	124787418	Nonsense_Mutation	SNP	C	TCGA-DW-7841-01A-11D-2136-08	85906708	124787418	21576604	21	33799										
SUSD1	64420	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	114820886	114820886	+	Frame_Shift_Del	DEL	C	C	-													0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	catcagcatcagaggcgttgCtaaagaaggaggaagcgcct							TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr9:114820886delC	ENST00000374270.3	-	14	2103	c.1931delG	c.(1930-1932)agcfs	p.S644fs	SUSD1_ENST00000374264.2_Frame_Shift_Del_p.S644fs|SUSD1_ENST00000374263.3_Frame_Shift_Del_p.S644fs	NM_022486.3	NP_071931.2	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1	644						integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)		SUSD1/ROD1(2)	central_nervous_system(1)|endometrium(4)|large_intestine(8)|lung(11)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	28						AGAGGCGTTGCTAAAGAAGGA	0.473																																																0													114	111	112					9																	114820886		2203	4300	6503	SO:0001589	frameshift_variant	64420			AL137432	CCDS6783.1, CCDS65105.1, CCDS65106.1	9q31.3-q33.1	2008-02-05			ENSG00000106868	ENSG00000106868			25413	protein-coding gene	gene with protein product						12975309	Standard	NM_022486		Approved	DKFZP761E1824	uc004bfu.3	Q6UWL2	OTTHUMG00000020499	ENST00000374270.3:c.1931delG	9.37:g.114820886delC	ENSP00000363388:p.Ser644fs	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4C5|A8KA03|Q5T8V6|Q5T8V7|Q6P9G7|Q8WU83|Q96DM9|Q9H6V2|Q9NTA7	Frame_Shift_Del	DEL	ENST00000374270.3	37	CCDS6783.1																																																																																				0.473	SUSD1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053668.3	NM_022486		-	114820886	C	-	114820886	7	5	571	1	0	1	0	1	0	0	0	0	15419	797	28	0	328	0	SUSD1	9	114820886	Frame_Shift_Del	DEL	C	TCGA-DW-7841-01A-11D-2136-08		114820886	26392545	22	33800	258	3								
SUSD1	64420	hgsc.bcm.edu;bcgsc.ca	37	chr9	114820888	114820888	+	Missense_Mutation	SNP	A	A	T													0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	tcagcatcagaggcgttgctAaagaaggaggaagcgccttc							TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr9:114820888A>T	ENST00000374270.3	-	14	2101	c.1929T>A	c.(1927-1929)ttT>ttA	p.F643L	SUSD1_ENST00000374264.2_Missense_Mutation_p.F643L|SUSD1_ENST00000374263.3_Missense_Mutation_p.F643L	NM_022486.3	NP_071931.2	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1	643						integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)		SUSD1/ROD1(2)	central_nervous_system(1)|endometrium(4)|large_intestine(8)|lung(11)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	28						AGGCGTTGCTAAAGAAGGAGG	0.478																																																0													113	110	111					9																	114820888		2203	4300	6503	SO:0001583	missense	64420			AL137432	CCDS6783.1, CCDS65105.1, CCDS65106.1	9q31.3-q33.1	2008-02-05			ENSG00000106868	ENSG00000106868			25413	protein-coding gene	gene with protein product						12975309	Standard	NM_022486		Approved	DKFZP761E1824	uc004bfu.3	Q6UWL2	OTTHUMG00000020499	ENST00000374270.3:c.1929T>A	9.37:g.114820888A>T	ENSP00000363388:p.Phe643Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4C5|A8KA03|Q5T8V6|Q5T8V7|Q6P9G7|Q8WU83|Q96DM9|Q9H6V2|Q9NTA7	Missense_Mutation	SNP	ENST00000374270.3	37	CCDS6783.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	17.65|17.65	3.441634|3.441634	0.63067|0.63067	.|.	.|.	ENSG00000106868|ENSG00000106868	ENST00000374270;ENST00000374263;ENST00000374264|ENST00000355396	T;T;T|.	0.51817|.	0.69;0.69;0.69|.	5.44|5.44	1.84|1.84	0.25277|0.25277	.|.	0.000000|.	0.49305|.	D|.	0.000147|.	T|.	0.55369|.	0.1916|.	M|M	0.64630|0.64630	1.985|1.985	0.31889|0.31889	N|N	0.617461|0.617461	D;D;D|.	0.71674|.	0.998;0.998;0.997|.	D;D;D|.	0.80764|.	0.987;0.994;0.985|.	T|.	0.58918|.	-0.7551|.	10|.	0.62326|.	D|.	0.03|.	-9.2496|-9.2496	9.0743|9.0743	0.36511|0.36511	0.7896:0.0:0.2104:0.0|0.7896:0.0:0.2104:0.0	.|.	643;643;643|.	F8WAQ1;Q6UWL2-2;Q6UWL2|.	.;.;SUSD1_HUMAN|.	L|K	643|627	ENSP00000363388:F643L;ENSP00000363381:F643L;ENSP00000363382:F643L|.	ENSP00000363381:F643L|.	F|X	-|-	3|1	2|0	SUSD1|SUSD1	113860709|113860709	1.000000|1.000000	0.71417|0.71417	0.911000|0.911000	0.35937|0.35937	0.551000|0.551000	0.35334|0.35334	1.139000|1.139000	0.31504|0.31504	0.066000|0.066000	0.16515|0.16515	-0.411000|-0.411000	0.06167|0.06167	TTT|TAG		0.478	SUSD1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053668.3	NM_022486		T	114820888	A	T	114820888	3	4	571	1	0	0	0	0	1	0	0	0	15419	359	13	5	330	5	SUSD1	9	114820888	Missense_Mutation	SNP	A	TCGA-DW-7841-01A-11D-2136-08	2	114820888	26392543	23	33801	258	3								
SUSD1	64420	hgsc.bcm.edu	37	chr9	114820890	114820890	+	Frame_Shift_Del	DEL	A	A	-													0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	agcatcagaggcgttgctaaAgaaggaggaagcgccttcag							TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr9:114820890delA	ENST00000374270.3	-	14	2099	c.1927delT	c.(1927-1929)tttfs	p.F643fs	SUSD1_ENST00000374264.2_Frame_Shift_Del_p.F643fs|SUSD1_ENST00000374263.3_Frame_Shift_Del_p.F643fs	NM_022486.3	NP_071931.2	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1	643						integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)		SUSD1/ROD1(2)	central_nervous_system(1)|endometrium(4)|large_intestine(8)|lung(11)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	28						GCGTTGCTAAAGAAGGAGGAA	0.478																																																0													113	110	111					9																	114820890		2203	4300	6503	SO:0001589	frameshift_variant	64420			AL137432	CCDS6783.1, CCDS65105.1, CCDS65106.1	9q31.3-q33.1	2008-02-05			ENSG00000106868	ENSG00000106868			25413	protein-coding gene	gene with protein product						12975309	Standard	NM_022486		Approved	DKFZP761E1824	uc004bfu.3	Q6UWL2	OTTHUMG00000020499	ENST00000374270.3:c.1927delT	9.37:g.114820890delA	ENSP00000363388:p.Phe643fs	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4C5|A8KA03|Q5T8V6|Q5T8V7|Q6P9G7|Q8WU83|Q96DM9|Q9H6V2|Q9NTA7	Frame_Shift_Del	DEL	ENST00000374270.3	37	CCDS6783.1																																																																																				0.478	SUSD1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053668.3	NM_022486		-	114820890	A	-	114820890	7	5	571	1	0	1	0	1	0	0	0	0	15419	72	3	0	332	0	SUSD1	9	114820890	Frame_Shift_Del	DEL	A	TCGA-DW-7841-01A-11D-2136-08	2	114820890	26392541	24	33802	258	3								
BSPRY	54836	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	116132384	116132384	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	cggggcccctcttcccagtcTttgctgtggccgatcagacc	11	16	3	1			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr9:116132384T>A	ENST00000374183.4	+	6	1210	c.1171T>A	c.(1171-1173)Ttt>Att	p.F391I	BSPRY_ENST00000462085.1_3'UTR	NM_017688.2	NP_060158.2	Q5W0U4	BSPRY_HUMAN	B-box and SPRY domain containing	391	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.				calcium ion transport (GO:0006816)	cell leading edge (GO:0031252)|membrane (GO:0016020)|perinuclear region of cytoplasm (GO:0048471)	zinc ion binding (GO:0008270)			breast(1)|endometrium(1)|kidney(1)|lung(4)|urinary_tract(1)	8						CTTCCCAGTCTTTGCTGTGGC	0.597																																																0													50	55	53					9																	116132384		1936	4110	6046	SO:0001583	missense	54836			AJ276691	CCDS43868.1	9q33.1	2008-02-05			ENSG00000119411	ENSG00000119411			18232	protein-coding gene	gene with protein product						10978534, 11099500	Standard	NM_017688		Approved	FLJ20150	uc004bhg.4	Q5W0U4	OTTHUMG00000021006	ENST00000374183.4:c.1171T>A	9.37:g.116132384T>A	ENSP00000363298:p.Phe391Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B3KS19|Q96DJ2|Q9H4E4|Q9NXN0	Missense_Mutation	SNP	ENST00000374183.4	37	CCDS43868.1	.	.	.	.	.	.	.	.	.	.	T	28.7	4.943124	0.92526	.	.	ENSG00000119411	ENST00000374183	T	0.33216	1.42	5.69	5.69	0.88448	Concanavalin A-like lectin/glucanase (1);Butyrophylin-like (1);B30.2/SPRY domain (1);SPla/RYanodine receptor SPRY (1);	0.094068	0.85682	D	0.000000	T	0.62768	0.2455	M	0.90309	3.105	0.54753	D	0.999988	D	0.76494	0.999	D	0.74674	0.984	T	0.70766	-0.4783	10	0.62326	D	0.03	-8.7766	15.1216	0.72447	0.0:0.0:0.0:1.0	.	391	Q5W0U4	BSPRY_HUMAN	I	391	ENSP00000363298:F391I	ENSP00000363298:F391I	F	+	1	0	BSPRY	115172205	1.000000	0.71417	1.000000	0.80357	0.939000	0.58152	5.686000	0.68211	2.171000	0.68590	0.459000	0.35465	TTT		0.597	BSPRY-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055399.1	NM_017688		A	116132384	T	A	116132384	3	1	571	1	0	0	0	0	1	0	0	0	1534	1609	56	5	1193	5	BSPRY	9	116132384	Missense_Mutation	SNP	T	TCGA-DW-7841-01A-11D-2136-08	1311494	116132384	25081047	25	33803										
DFNB31	25861	hgsc.bcm.edu	37	chr9	117170277	117170277	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gccctggacagcctcgccagTttcctccaggtccagagtgt	11	15	0	1			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr9:117170277T>C	ENST00000362057.3	-	8	1816	c.1648A>G	c.(1648-1650)Act>Gct	p.T550A	DFNB31_ENST00000265134.6_Missense_Mutation_p.T167A|DFNB31_ENST00000374059.3_Missense_Mutation_p.T199A	NM_001173425.1|NM_015404.3	NP_001166896.1|NP_056219	Q9P202	WHRN_HUMAN	deafness, autosomal recessive 31	550					inner ear receptor stereocilium organization (GO:0060122)|retina homeostasis (GO:0001895)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)	actin filament (GO:0005884)|cilium (GO:0005929)|cytoplasm (GO:0005737)|stereocilia ankle link complex (GO:0002142)|stereocilium (GO:0032420)				central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(9)|liver(1)|lung(14)|ovary(5)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	38						GCCTCGCCAGTTTCCTCCAGG	0.537																																																0													89	75	80					9																	117170277		2203	4300	6503	SO:0001583	missense	25861			AK056190	CCDS6806.1, CCDS43870.1	9q32	2013-06-19			ENSG00000095397	ENSG00000095397			16361	protein-coding gene	gene with protein product	"whirlin"	607928				12833159, 17171570	Standard	NM_015404		Approved	CIP98, WHRN, USH2D, PDZD7B	uc004biz.4	Q9P202	OTTHUMG00000020539	ENST00000362057.3:c.1648A>G	9.37:g.117170277T>C	ENSP00000354623:p.Thr550Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKU1|A5PKZ9|Q5TAU9|Q5TAV0|Q5TAV1|Q5TAV2|Q96MZ9|Q9H9F4|Q9UFZ3	Missense_Mutation	SNP	ENST00000362057.3	37	CCDS6806.1	.	.	.	.	.	.	.	.	.	.	T	9.254	1.041483	0.19669	.	.	ENSG00000095397	ENST00000265134;ENST00000374059;ENST00000362057	T;T;T	0.07908	4.04;4.01;3.15	5.53	5.53	0.82687	.	0.379172	0.27227	N	0.020331	T	0.09468	0.0233	M	0.62723	1.935	0.25402	N	0.988439	B;B;B	0.23058	0.003;0.002;0.079	B;B;B	0.22386	0.007;0.007;0.039	T	0.24512	-1.0158	10	0.24483	T	0.36	-12.0315	6.7837	0.23662	0.0:0.1301:0.0:0.8699	.	550;550;199	B9EGE6;Q9P202;Q9P202-4	.;WHRN_HUMAN;.	A	167;199;550	ENSP00000265134:T167A;ENSP00000363172:T199A;ENSP00000354623:T550A	ENSP00000265134:T167A	T	-	1	0	DFNB31	116210098	0.157000	0.22836	0.041000	0.18516	0.209000	0.24338	2.043000	0.41231	2.099000	0.63709	0.460000	0.39030	ACT		0.537	DFNB31-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053776.2	NM_015404		C	117170277	T	C	117170277	3	2	571	1	0	0	0	0	1	0	0	0	4457	1725	60	3	1095	3	DFNB31	9	117170277	Missense_Mutation	SNP	T	TCGA-DW-7841-01A-11D-2136-08	1037893	117170277	24043154	26	33804										
RPL7A	6130	ucsc.edu	37	chr9	136216909	136216909	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	ccacctgtccttcgagcaggTgagtaggccccaccttaggg	12	14	0	1			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr9:136216909T>A	ENST00000323345.6	+	4	445		c.e4+2		SURF1_ENST00000495952.1_5'Flank|MED22_ENST00000343730.5_5'Flank|RPL7A_ENST00000463740.1_Splice_Site|RPL7A_ENST00000315731.4_Splice_Site|SNORD36C_ENST00000516733.1_RNA|MED22_ENST00000476080.1_5'Flank|MED22_ENST00000371999.1_5'Flank|SNORD36A_ENST00000362874.1_RNA|SNORD24_ENST00000383884.1_RNA|MED22_ENST00000344469.5_5'Flank|MED22_ENST00000491289.1_5'Flank|SNORD36B_ENST00000363961.1_RNA|MED22_ENST00000471524.1_5'Flank	NM_000972.2	NP_000963.1	P62424	RL7A_HUMAN	ribosomal protein L7a						cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|ribosome biogenesis (GO:0042254)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)|polysomal ribosome (GO:0042788)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|structural constituent of ribosome (GO:0003735)			cervix(1)|endometrium(1)|kidney(1)|lung(3)|upper_aerodigestive_tract(1)	7				OV - Ovarian serous cystadenocarcinoma(145;4.93e-07)|Epithelial(140;4.09e-06)|all cancers(34;3.78e-05)		TTCGAGCAGGTGAGTAGGCCC	0.532																																																0													56	60	59					9																	136216909		2203	4300	6503	SO:0001630	splice_region_variant	6130			BC005128	CCDS6965.1	9q34	2011-04-06			ENSG00000148303	ENSG00000148303		"L ribosomal proteins"	10364	protein-coding gene	gene with protein product	"surfeit 3", "PLA-X polypeptide", "surfeit locus protein 3", "60S ribosomal protein L7a", ";", "thyroid hormone receptor uncoupling protein"	185640				2403926, 2966065	Standard	NM_000972		Approved	SURF3, TRUP, L7A	uc004cde.1	P62424	OTTHUMG00000020864	ENST00000323345.6:c.415+2T>A	9.37:g.136216909T>A		Somatic		WXS	Illumina HiSeq		P11518|Q5T8U4	Splice_Site	SNP	ENST00000323345.6	37	CCDS6965.1	.	.	.	.	.	.	.	.	.	.	T	18.21	3.574485	0.65878	.	.	ENSG00000148303	ENST00000323345;ENST00000426651;ENST00000315731	.	.	.	5.1	5.1	0.69264	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.0455	0.64702	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	RPL7A	135206730	1.000000	0.71417	0.983000	0.44433	0.667000	0.39255	7.104000	0.77024	1.911000	0.55334	0.482000	0.46254	.		0.532	RPL7A-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054869.1	NM_000972	Intron	A	136216909	T	A	136216909	5	1	571	1	0	0	0	0	0	0	1	0	13613	1710	59	5	431	5	RPL7A	9	136216909	Splice_Site	SNP	T	TCGA-DW-7841-01A-11D-2136-08	19046632	136216909	4996522	27	33805										
C9orf172	389813	broad.mit.edu	37	chr9	139739071	139739071	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	cggccatggagaccctgccgGagccaccgccgccggagtcc	14	18	0	1	rs375666127	byFrequency	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr9:139739071G>C	ENST00000436881.1	+	1	205	c.205G>C	c.(205-207)Gag>Cag	p.E69Q		NM_001080482.2	NP_001073951.2	C9J069	CI172_HUMAN	chromosome 9 open reading frame 172	69	Pro-rich.									endometrium(2)|large_intestine(1)|lung(6)	9						GACCCTGCCGGAGCCACCGCC	0.781																																																0													3	3	3					9																	139739071		1641	3660	5301	SO:0001583	missense	389813				CCDS48059.1	9q34.3	2012-04-03			ENSG00000232434	ENSG00000232434			37284	protein-coding gene	gene with protein product							Standard	NM_001080482		Approved		uc011meh.2	C9J069		ENST00000436881.1:c.205G>C	9.37:g.139739071G>C	ENSP00000412388:p.Glu69Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000436881.1	37	CCDS48059.1	.	.	.	.	.	.	.	.	.	.	.	3.908	-0.020622	0.07634	.	.	ENSG00000232434	ENST00000436881	.	.	.	3.45	2.52	0.30459	.	.	.	.	.	T	0.21718	0.0523	N	0.14661	0.345	0.18873	N	0.999982	B	0.30281	0.275	B	0.35688	0.208	T	0.29212	-1.0019	8	0.19590	T	0.45	.	7.5628	0.27862	0.0:0.1825:0.6295:0.188	.	69	C9J069	CI172_HUMAN	Q	69	.	ENSP00000412388:E69Q	E	+	1	0	C9orf172	138858892	0.069000	0.21087	0.114000	0.21550	0.093000	0.18481	2.111000	0.41883	0.718000	0.32166	-0.521000	0.04368	GAG		0.781	C9orf172-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001080482		C	139739071	G	C	139739071	3	2	571	1	0	0	0	0	1	0	0	0	2473	1175	41	4	207	4	C9orf172	9	139739071	Missense_Mutation	SNP	G	TCGA-DW-7841-01A-11D-2136-08	3522162	139739071	1474360	28	33806										
COL17A1	1308	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	105793785	105793785	+	Frame_Shift_Del	DEL	G	G	-													0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gctcccaatagtccgccattGccagcatacatgccgccttc							TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr10:105793785delG	ENST00000353479.5	-	52	4364	c.4074delC	c.(4072-4074)ggcfs	p.G1358fs	COL17A1_ENST00000369733.3_Frame_Shift_Del_p.G1276fs	NM_000494.3	NP_000485.3	Q9UMD9	COHA1_HUMAN	collagen, type XVII, alpha 1	1358	Triple-helical region.				cell junction assembly (GO:0034329)|cell-matrix adhesion (GO:0007160)|collagen catabolic process (GO:0030574)|epidermis development (GO:0008544)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)	basement membrane (GO:0005604)|cell-cell junction (GO:0005911)|collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|hemidesmosome (GO:0030056)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)				NS(1)|breast(2)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(9)|liver(1)|lung(22)|ovary(5)|pancreas(1)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)	62		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		GTCCGCCATTGCCAGCATACA	0.572																																																0													98	95	96					10																	105793785		2203	4300	6503	SO:0001589	frameshift_variant	1308			M91669	CCDS7554.1	10q24.3	2013-01-16			ENSG00000065618	ENSG00000065618		"Collagens"	2194	protein-coding gene	gene with protein product		113811		BPAG2		7916703	Standard	NM_000494		Approved	BP180	uc001kxr.3	Q9UMD9	OTTHUMG00000018998	ENST00000353479.5:c.4074delC	10.37:g.105793785delG	ENSP00000340937:p.Gly1358fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q02802|Q5JV36|Q99018|Q9NQK9|Q9UC14	Frame_Shift_Del	DEL	ENST00000353479.5	37	CCDS7554.1																																																																																				0.572	COL17A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050181.1	NM_130778, NM_000494		-	105793785	G	-	105793785	7	5	571	1	0	1	0	1	0	0	0	0	3676	1306	46	0	439	0	COL17A1	10	105793785	Frame_Shift_Del	DEL	G	TCGA-DW-7841-01A-11D-2136-08		105793785	29740962	29	33807										
SBF2	81846	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	10011061	10011061	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	tacatttttgaatagttgctCagcaagttccctgacatgct	7	9	1	2			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr11:10011061C>T	ENST00000256190.8	-	13	1515	c.1378G>A	c.(1378-1380)Gag>Aag	p.E460K		NM_030962.3	NP_112224.1	Q86WG5	MTMRD_HUMAN	SET binding factor 2	460					cell death (GO:0008219)|myelination (GO:0042552)|positive regulation of Rab GTPase activity (GO:0032851)|protein tetramerization (GO:0051262)	membrane (GO:0016020)|vacuolar membrane (GO:0005774)	phosphatase activity (GO:0016791)|phosphatase regulator activity (GO:0019208)|phosphatidylinositol binding (GO:0035091)|Rab guanyl-nucleotide exchange factor activity (GO:0017112)			breast(4)|endometrium(8)|kidney(2)|large_intestine(8)|lung(16)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	48				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		AATAGTTGCTCAGCAAGTTCC	0.303																																																0													99	101	100					11																	10011061		2200	4292	6492	SO:0001583	missense	81846			AB051553	CCDS31427.1	11p15.3	2014-09-17	2004-11-12	2004-11-12	ENSG00000133812	ENSG00000133812		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins", "DENN/MADD domain containing", "Pleckstrin homology (PH) domain containing"	2135	protein-coding gene	gene with protein product	"myotubularin related 13"	607697	"Charcot-Marie-Tooth neuropathy 4B2 (autosomal recessive, with myelin outfolding)", "DENN/MADD domain containing 7B"	CMT4B2		10644431	Standard	NM_030962		Approved	KIAA1766, MTMR13, DENND7B	uc001mib.2	Q86WG5	OTTHUMG00000165890	ENST00000256190.8:c.1378G>A	11.37:g.10011061C>T	ENSP00000256190:p.Glu460Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MJF0|Q68DQ3|Q6P459|Q6PJD1|Q7Z325|Q7Z621|Q86VE2|Q96FE2|Q9C097	Missense_Mutation	SNP	ENST00000256190.8	37	CCDS31427.1	.	.	.	.	.	.	.	.	.	.	C	24.1	4.489124	0.84962	.	.	ENSG00000133812	ENST00000256190	D	0.85629	-2.01	6.04	6.04	0.98038	.	0.230274	0.43416	D	0.000562	D	0.90539	0.7035	L	0.48986	1.54	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.86724	0.1944	10	0.25106	T	0.35	.	20.5948	0.99439	0.0:1.0:0.0:0.0	.	460	Q86WG5	MTMRD_HUMAN	K	460	ENSP00000256190:E460K	ENSP00000256190:E460K	E	-	1	0	SBF2	9967637	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	5.324000	0.65863	2.873000	0.98535	0.563000	0.77884	GAG		0.303	SBF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386911.2	NM_030962		T	10011061	C	T	10011061	3	4	571	1	0	0	0	0	1	0	0	0	13872	835	29	2	4283	2	SBF2	11	10011061	Missense_Mutation	SNP	C	TCGA-DW-7841-01A-11D-2136-08		10011061	124995455	30	33808										
SLCO2B1	11309	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	74880776	74880776	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	ggctgggcagcctcatgctgCgcctttatgtggacattaac	12	11	1	0			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr11:74880776C>A	ENST00000289575.5	+	6	1143	c.748C>A	c.(748-750)Cgc>Agc	p.R250S	SLCO2B1_ENST00000454962.2_Intron|SLCO2B1_ENST00000525650.1_Missense_Mutation_p.R106S|SLCO2B1_ENST00000531756.1_Intron|SLCO2B1_ENST00000532236.1_Missense_Mutation_p.R134S|SLCO2B1_ENST00000428359.2_Missense_Mutation_p.R228S|SLCO2B1_ENST00000341411.4_Intron|SLCO2B1_ENST00000526660.1_Intron	NM_007256.4	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family, member 2B1	250					liver development (GO:0001889)|sodium-independent icosanoid transport (GO:0071718)|sodium-independent organic anion transport (GO:0043252)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bile acid transmembrane transporter activity (GO:0015125)|organic anion transmembrane transporter activity (GO:0008514)|sodium-independent organic anion transmembrane transporter activity (GO:0015347)	p.R250C(1)		breast(2)|endometrium(1)|large_intestine(7)|lung(20)|ovary(3)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	39					Acetic acid(DB03166)|Alprostadil(DB00770)|Atorvastatin(DB01076)|Benzylpenicillin(DB01053)|Conjugated Estrogens(DB00286)|Digoxin(DB00390)|Dinoprostone(DB00917)|Ergoloid mesylate(DB01049)|Estradiol(DB00783)|Estrone(DB00655)|Fexofenadine(DB00950)|Fluvastatin(DB01095)|Glyburide(DB01016)|Ibuprofen(DB01050)|Iloprost(DB01088)|Latanoprost(DB00654)|Montelukast(DB00471)|Niacin(DB00627)|Pitavastatin(DB08860)|Pravastatin(DB00175)|Rifampicin(DB01045)|Rosuvastatin(DB01098)|Salicylic acid(DB00936)|Tolbutamide(DB01124)	CCTCATGCTGCGCCTTTATGT	0.542																																																1	Substitution - Missense(1)	large_intestine(1)											128	120	123					11																	74880776		2200	4293	6493	SO:0001583	missense	11309			AB026256	CCDS8235.1, CCDS44683.1, CCDS53679.1	11q13	2013-05-22	2003-11-25	2003-11-26				"Solute carriers"	10962	protein-coding gene	gene with protein product		604988	"solute carrier family 21 (organic anion transporter), member 9"	SLC21A9			Standard	NM_007256		Approved	OATP-B, OATP2B1	uc001owb.3	O94956		ENST00000289575.5:c.748C>A	11.37:g.74880776C>A	ENSP00000289575:p.Arg250Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2G9|B4DGA9|B4DTB0|E7ERN5|E9PPU8|Q9H2Z0|Q9UFU1	Missense_Mutation	SNP	ENST00000289575.5	37	CCDS8235.1	.	.	.	.	.	.	.	.	.	.	C	16.04	3.010553	0.54361	.	.	ENSG00000137491	ENST00000289575;ENST00000532236;ENST00000525650;ENST00000428359;ENST00000526839	T;T;T;T;T	0.42131	0.98;0.98;0.98;0.98;0.98	4.83	2.77	0.32553	Major facilitator superfamily domain, general substrate transporter (1);	0.060626	0.64402	N	0.000004	T	0.41558	0.1164	L	0.39566	1.225	0.80722	D	1	P;P	0.49358	0.812;0.923	B;P	0.51170	0.425;0.661	T	0.15838	-1.0423	10	0.29301	T	0.29	.	11.6849	0.51481	0.326:0.674:0.0:0.0	.	106;250	E9PPU8;O94956	.;SO2B1_HUMAN	S	250;134;106;228;126	ENSP00000289575:R250S;ENSP00000434112:R134S;ENSP00000436324:R106S;ENSP00000388912:R228S;ENSP00000434742:R126S	ENSP00000289575:R250S	R	+	1	0	SLCO2B1	74558424	0.932000	0.31603	0.996000	0.52242	0.937000	0.57800	1.528000	0.35985	1.218000	0.43458	0.650000	0.86243	CGC		0.542	SLCO2B1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000383933.1	NM_007256		A	74880776	C	A	74880776	3	1	571	1	0	0	0	0	1	0	0	0	14740	768	27	4	770	4	SLCO2B1	11	74880776	Missense_Mutation	SNP	C	TCGA-DW-7841-01A-11D-2136-08	64869715	74880776	60125740	31	33809										
BAZ2A	11176	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	57005874	57005874	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	ctagggagactgctggggagGttgttggcgagactgctggt	19	6	0	2			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr12:57005874G>A	ENST00000551812.1	-	6	1491	c.1298C>T	c.(1297-1299)aCc>aTc	p.T433I	BAZ2A_ENST00000179765.5_Missense_Mutation_p.T401I|BAZ2A_ENST00000549884.1_Missense_Mutation_p.T431I|BAZ2A_ENST00000379441.3_Missense_Mutation_p.T403I	NM_013449.3	NP_038477.2	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	433					chromatin remodeling (GO:0006338)|chromatin silencing at rDNA (GO:0000183)|DNA methylation (GO:0006306)|heterochromatin assembly involved in chromatin silencing (GO:0070869)|histone deacetylation (GO:0016575)|histone H3-K9 methylation (GO:0051567)|histone H4 deacetylation (GO:0070933)|histone H4-K20 methylation (GO:0034770)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	chromatin silencing complex (GO:0005677)|nucleolus (GO:0005730)|rDNA heterochromatin (GO:0033553)	DNA binding (GO:0003677)|ligand-dependent nuclear receptor binding (GO:0016922)|lysine-acetylated histone binding (GO:0070577)|RNA binding (GO:0003723)|zinc ion binding (GO:0008270)			breast(1)|cervix(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(15)|urinary_tract(1)	31						TGCTGGGGAGGTTGTTGGCGA	0.542																																																0													101	115	110					12																	57005874		2101	4218	6319	SO:0001583	missense	11176			AB032254	CCDS44924.1, CCDS73483.1	12q13.3	2013-01-28				ENSG00000076108		"Zinc fingers, PHD-type"	962	protein-coding gene	gene with protein product	"TTF-I interacting peptide 5"	605682				10662543, 11532953	Standard	XM_005268596		Approved	KIAA0314, TIP5, WALp3	uc001slq.1	Q9UIF9	OTTHUMG00000170332	ENST00000551812.1:c.1298C>T	12.37:g.57005874G>A	ENSP00000446880:p.Thr433Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B3KN66|O00536|O15030|Q68DI8|Q96H26	Missense_Mutation	SNP	ENST00000551812.1	37	CCDS44924.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	6.854|6.854	0.526813|0.526813	0.13066|0.13066	.|.	.|.	ENSG00000076108|ENSG00000076108	ENST00000551996|ENST00000379441;ENST00000179765;ENST00000551812;ENST00000549884	.|T;T;T;T	.|0.58210	.|0.35;0.35;0.35;0.35	5.45|5.45	-0.694|-0.694	0.11294|0.11294	.|.	.|1.012260	.|0.07909	.|N	.|0.973899	T|T	0.29355|0.29355	0.0731|0.0731	N|N	0.08118|0.08118	0|0	0.09310|0.09310	N|N	0.999997|0.999997	.|B;B	.|0.02656	.|0.0;0.0	.|B;B	.|0.01281	.|0.0;0.0	T|T	0.23048|0.23048	-1.0199|-1.0199	5|10	.|0.72032	.|D	.|0.01	.|.	5.0786|5.0786	0.14644|0.14644	0.2123:0.0:0.5335:0.2543|0.2123:0.0:0.5335:0.2543	.|.	.|431;433	.|F8VU39;Q9UIF9	.|.;BAZ2A_HUMAN	S|I	81|403;401;433;431	.|ENSP00000368754:T403I;ENSP00000179765:T401I;ENSP00000446880:T433I;ENSP00000447941:T431I	.|ENSP00000179765:T401I	P|T	-|-	1|2	0|0	BAZ2A|BAZ2A	55292141|55292141	0.835000|0.835000	0.29415|0.29415	0.009000|0.009000	0.14445|0.14445	0.194000|0.194000	0.23727|0.23727	0.260000|0.260000	0.18424|0.18424	-0.209000|-0.209000	0.10156|0.10156	-0.182000|-0.182000	0.12963|0.12963	CCT|ACC		0.542	BAZ2A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000408561.1	NM_013449		A	57005874	G	A	57005874	3	1	571	1	0	0	0	0	1	0	0	0	1331	1261	44	2	4515	2	BAZ2A	12	57005874	Missense_Mutation	SNP	G	TCGA-DW-7841-01A-11D-2136-08		57005874	76846021	32	33810										
ASCL1	429	hgsc.bcm.edu	37	chr12	103352211	103352211	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	cagcagcagcagcagcaggcGccgcagctgagaccggcggc	16	15	0	1	rs376318467	byFrequency	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr12:103352211G>C	ENST00000266744.3	+	1	748	c.189G>C	c.(187-189)gcG>gcC	p.A63A		NM_004316.3	NP_004307.2	P50553	ASCL1_HUMAN	achaete-scute family bHLH transcription factor 1	63					adrenal chromaffin cell differentiation (GO:0061104)|carotid body glomus cell differentiation (GO:0061103)|cell maturation (GO:0048469)|cellular response to magnetism (GO:0071259)|central nervous system neuron development (GO:0021954)|cerebral cortex development (GO:0021987)|cerebral cortex GABAergic interneuron differentiation (GO:0021892)|commitment of neuronal cell to specific neuron type in forebrain (GO:0021902)|lung epithelial cell differentiation (GO:0060487)|lung neuroendocrine cell differentiation (GO:0061100)|musculoskeletal movement, spinal reflex action (GO:0050883)|negative regulation of apoptotic process (GO:0043066)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of transcription, DNA-templated (GO:0045892)|neuroblast fate determination (GO:0007400)|neuroblast proliferation (GO:0007405)|neurogenesis (GO:0022008)|neuron fate specification (GO:0048665)|neuron migration (GO:0001764)|noradrenergic neuron development (GO:0003358)|noradrenergic neuron fate commitment (GO:0003359)|Notch signaling pathway (GO:0007219)|olfactory pit development (GO:0060166)|oligodendrocyte development (GO:0014003)|positive regulation of cell cycle (GO:0045787)|positive regulation of neural precursor cell proliferation (GO:2000179)|positive regulation of neurogenesis (GO:0050769)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of Notch signaling pathway (GO:0045747)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of epithelial cell differentiation (GO:0030856)|regulation of gene expression (GO:0010468)|regulation of mitotic cell cycle (GO:0007346)|regulation of timing of subpallium neuron differentiation (GO:0060165)|response to epidermal growth factor (GO:0070849)|response to folic acid (GO:0051593)|response to lithium ion (GO:0010226)|response to retinoic acid (GO:0032526)|spinal cord association neuron differentiation (GO:0021527)|spinal cord oligodendrocyte cell fate specification (GO:0021530)|stomach neuroendocrine cell differentiation (GO:0061102)|subpallium neuron fate commitment (GO:0060163)|sympathetic ganglion development (GO:0061549)|sympathetic nervous system development (GO:0048485)|transcription, DNA-templated (GO:0006351)|ventral spinal cord interneuron fate commitment (GO:0060579)|vestibular nucleus development (GO:0021750)	neuronal cell body (GO:0043025)|nucleus (GO:0005634)	bHLH transcription factor binding (GO:0043425)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|double-stranded DNA binding (GO:0003690)|E-box binding (GO:0070888)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding transcription factor activity (GO:0000989)			NS(3)|large_intestine(1)|lung(1)	5						agcagcagGCGCCGCAGCTGA	0.721													g|||	62	0.0123802	0.0446	0.0043	5008	,	,		10181	0.0		0.0	False		,,,				2504	0.0															0										59,2685		1,57,1314	3	3	3		189	3.6	1	12		3	2,5798		0,2,2898	no	coding-synonymous	ASCL1	NM_004316.3		1,59,4212	CC,CG,GG		0.0345,2.1501,0.714		63/237	103352211	61,8483	1372	2900	4272	SO:0001819	synonymous_variant	429			L08424	CCDS31886.1	12q22-q23	2013-10-17	2013-10-17			ENSG00000139352		"Basic helix-loop-helix proteins"	738	protein-coding gene	gene with protein product		100790	"achaete-scute complex (Drosophila) homolog-like 1", "achaete-scute complex-like 1 (Drosophila)", "achaete-scute complex homolog 1 (Drosophila)"			8390674	Standard	NM_004316		Approved	ASH1, HASH1, bHLHa46	uc001tjr.4	P50553		ENST00000266744.3:c.189G>C	12.37:g.103352211G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K3C4|Q9BQ30	Silent	SNP	ENST00000266744.3	37	CCDS31886.1																																																																																				0.721	ASCL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406707.1			C	103352211	G	C	103352211	2	2	571	1	0	0	0	0	0	0	0	1	1034	1074	38	4		4	ASCL1	12	103352211	Silent	SNP	G	TCGA-DW-7841-01A-11D-2136-08	46346337	103352211	30499684	33	33811										
KBTBD7	84078	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	41767953	41767953	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	tccagctgtagcatgtcggaGgccgcgtacaggcgctgcac	14	13	0	0			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr13:41767953G>A	ENST00000379483.3	-	1	749	c.441C>T	c.(439-441)gcC>gcT	p.A147A		NM_032138.4	NP_115514.2	Q8WVZ9	KBTB7_HUMAN	kelch repeat and BTB (POZ) domain containing 7	147										central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(4)|liver(1)|lung(8)|ovary(4)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	24		Lung NSC(96;0.000105)|Breast(139;0.00715)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.21e-09)|Epithelial(112;6.99e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000196)|GBM - Glioblastoma multiforme(144;0.000857)|BRCA - Breast invasive adenocarcinoma(63;0.0669)		GCATGTCGGAGGCCGCGTACA	0.587																																																0													109	91	97					13																	41767953		2203	4300	6503	SO:0001819	synonymous_variant	84078			AL136782	CCDS9377.1	13q13.3	2013-01-08			ENSG00000120696	ENSG00000120696		"BTB/POZ domain containing"	25266	protein-coding gene	gene with protein product						11230166	Standard	NM_032138		Approved	DKFZP434E2318	uc001uxw.1	Q8WVZ9	OTTHUMG00000016789	ENST00000379483.3:c.441C>T	13.37:g.41767953G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B5TZ86|Q5T6Y7|Q8NB99|Q9H0I6	Silent	SNP	ENST00000379483.3	37	CCDS9377.1																																																																																				0.587	KBTBD7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044660.1	NM_032138		A	41767953	G	A	41767953	2	1	571	1	0	0	0	0	0	0	0	1	8005	987	35	2		2	KBTBD7	13	41767953	Silent	SNP	G	TCGA-DW-7841-01A-11D-2136-08		41767953	73401925	34	33812										
PCDH8	5100	broad.mit.edu	37	chr13	53421017	53421018	+	Frame_Shift_Ins	INS	-	-	AT													0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	tcccggtcgcgggcggccacINScgtggccaggtaggcgcctg							TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr13:53421017_53421018insAT	ENST00000377942.3	-	1	1757_1758	c.1554_1555insAT	c.(1552-1557)acggtgfs	p.V519fs	PCDH8_ENST00000338862.4_Frame_Shift_Ins_p.V519fs	NM_002590.3	NP_002581.2	O95206	PCDH8_HUMAN	protocadherin 8	519	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell-cell signaling (GO:0007267)|homophilic cell adhesion (GO:0007156)|morphogenesis of embryonic epithelium (GO:0016331)|somitogenesis (GO:0001756)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|cell projection (GO:0042995)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	calcium ion binding (GO:0005509)			breast(1)|central_nervous_system(2)|endometrium(2)|large_intestine(5)|lung(23)|ovary(1)|skin(1)|urinary_tract(1)	36		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		CGGGCGGCCACCGTGGCCAGGT	0.723																																					GBM(36;25 841 9273 49207)											0																																										SO:0001589	frameshift_variant	5100			AF061573	CCDS9438.1, CCDS9439.1	13q21.1	2010-02-22			ENSG00000136099	ENSG00000136099		"Cadherins / Protocadherins : Non-clustered"	8660	protein-coding gene	gene with protein product		603580				9787079, 9315676	Standard	NM_002590		Approved	PAPC, ARCADLIN	uc001vhi.3	O95206	OTTHUMG00000016979	ENST00000377942.3:c.1554_1555insAT	13.37:g.53421017_53421018insAT	ENSP00000367177:p.Val519fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DMV7|Q5TAN1|Q5TAN2|Q8IYE9|Q96SF1	Frame_Shift_Ins	INS	ENST00000377942.3	37	CCDS9438.1																																																																																				0.723	PCDH8-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000045108.2	NM_002590		AT	53421018	-	AT	53421017	7	5	571	1	0	1	1	0	0	0	0	0	11524	507	18	0	1669	0	PCDH8	13	53421017	Frame_Shift_Ins	INS	-	TCGA-DW-7841-01A-11D-2136-08	11653064	53421017	61748861	35	33813										
TDRD3	81550	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	61103190	61103190	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	agccagcaggacctgtcacaGctgtaccctgtgatgataaa	10	11	1	2			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr13:61103190G>A	ENST00000196169.3	+	11	2340	c.1552G>A	c.(1552-1554)Gct>Act	p.A518T	TDRD3_ENST00000377894.2_Missense_Mutation_p.A518T|TDRD3_ENST00000377881.2_Missense_Mutation_p.A518T|TDRD3_ENST00000535286.1_Missense_Mutation_p.A611T	NM_001146071.1|NM_030794.2	NP_001139543.1|NP_110421.1	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3	518					chromatin modification (GO:0016568)|regulation of RNA biosynthetic process (GO:2001141)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|methylated histone binding (GO:0035064)|poly(A) RNA binding (GO:0044822)|transcription coactivator activity (GO:0003713)			breast(1)|endometrium(3)|kidney(2)|large_intestine(10)|liver(1)|lung(16)|skin(2)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	40		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		ACCTGTCACAGCTGTACCCTG	0.398																																					Colon(36;164 906 35820 50723)											0													54	54	54					13																	61103190		2203	4300	6503	SO:0001583	missense	81550			AK023578	CCDS9441.1, CCDS53872.1	13q14.3	2013-01-23			ENSG00000083544	ENSG00000083544		"Tudor domain containing"	20612	protein-coding gene	gene with protein product		614392					Standard	NM_030794		Approved	FLJ21007	uc010aeg.3	Q9H7E2	OTTHUMG00000017007	ENST00000196169.3:c.1552G>A	13.37:g.61103190G>A	ENSP00000196169:p.Ala518Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2MWP9|Q53XA6|Q6P992	Missense_Mutation	SNP	ENST00000196169.3	37	CCDS9441.1	.	.	.	.	.	.	.	.	.	.	G	0.227	-1.023813	0.02061	.	.	ENSG00000083544	ENST00000196169;ENST00000377881;ENST00000377894;ENST00000535286	D;D;D;D	0.93763	-3.28;-3.28;-3.28;-3.26	5.84	-1.01	0.10169	.	0.741305	0.14224	N	0.333183	D	0.85974	0.5822	L	0.47716	1.5	0.09310	N	1	B;B;B	0.06786	0.001;0.0;0.0	B;B;B	0.06405	0.002;0.002;0.001	T	0.68911	-0.5284	10	0.12103	T	0.63	-1.2106	3.7879	0.08707	0.4174:0.0981:0.3852:0.0994	.	611;517;518	Q9H7E2-3;Q9H7E2-2;Q9H7E2	.;.;TDRD3_HUMAN	T	518;518;518;611	ENSP00000196169:A518T;ENSP00000367113:A518T;ENSP00000367126:A518T;ENSP00000440190:A611T	ENSP00000196169:A518T	A	+	1	0	TDRD3	60001191	0.000000	0.05858	0.000000	0.03702	0.389000	0.30415	0.087000	0.14958	-0.343000	0.08351	-0.813000	0.03139	GCT		0.398	TDRD3-201	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000045175.2	NM_030794		A	61103190	G	A	61103190	3	1	571	1	0	0	0	0	1	0	0	0	15744	971	34	2	1873	2	TDRD3	13	61103190	Missense_Mutation	SNP	G	TCGA-DW-7841-01A-11D-2136-08	7682173	61103190	54066688	36	33814										
SLC7A8	23428	hgsc.bcm.edu	37	chr14	23597353	23597353	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gctctgaccacaggctgaagAccagcaggaaggcccagaac	12	13	1	4			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr14:23597353A>G	ENST00000316902.7	-	10	2041	c.1316T>C	c.(1315-1317)gTc>gCc	p.V439A	SLC7A8_ENST00000453702.1_Missense_Mutation_p.V236A|SLC7A8_ENST00000422941.2_Missense_Mutation_p.V215A|SLC7A8_ENST00000469263.1_Intron|SLC7A8_ENST00000529705.2_Missense_Mutation_p.V334A	NM_012244.3	NP_036376.2	Q9UHI5	LAT2_HUMAN	solute carrier family 7 (amino acid transporter light chain, L system), member 8	439					amino acid transport (GO:0006865)|blood coagulation (GO:0007596)|cellular amino acid metabolic process (GO:0006520)|ion transport (GO:0006811)|leukocyte migration (GO:0050900)|metal ion homeostasis (GO:0055065)|neutral amino acid transport (GO:0015804)|organic cation transport (GO:0015695)|response to toxic substance (GO:0009636)|toxin transport (GO:1901998)|transmembrane transport (GO:0055085)|transport (GO:0006810)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	amino acid transmembrane transporter activity (GO:0015171)|L-amino acid transmembrane transporter activity (GO:0015179)|neutral amino acid transmembrane transporter activity (GO:0015175)|organic cation transmembrane transporter activity (GO:0015101)|peptide antigen binding (GO:0042605)|toxin transporter activity (GO:0019534)			autonomic_ganglia(1)|endometrium(6)|kidney(4)|large_intestine(6)|lung(5)|ovary(1)|skin(1)	24	all_cancers(95;4.6e-05)			GBM - Glioblastoma multiforme(265;0.00809)	L-Alanine(DB00160)|L-DOPA(DB01235)|L-Glutamine(DB00130)|L-Phenylalanine(DB00120)	CAGGCTGAAGACCAGCAGGAA	0.562																																																0													153	129	137					14																	23597353		2203	4300	6503	SO:0001583	missense	23428			Y18483	CCDS9590.1, CCDS41924.1, CCDS58304.1, CCDS58305.1	14q11.2	2013-05-22	2011-07-12		ENSG00000092068	ENSG00000092068		"Solute carriers"	11066	protein-coding gene	gene with protein product		604235				10080183, 10391915	Standard	NM_001267036		Approved	LPI-PC1, LAT2	uc001wiz.4	Q9UHI5	OTTHUMG00000028720	ENST00000316902.7:c.1316T>C	14.37:g.23597353A>G	ENSP00000320378:p.Val439Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8Q4|B4DKT4|B4DTV6|D3DS46|F2Z2J4|Q86U05|Q9UKQ6|Q9UKQ7|Q9UKQ8|Q9Y445	Missense_Mutation	SNP	ENST00000316902.7	37	CCDS9590.1	.	.	.	.	.	.	.	.	.	.	A	14.75	2.628933	0.46944	.	.	ENSG00000092068	ENST00000316902;ENST00000453702;ENST00000529705;ENST00000422941;ENST00000206514	D;D;D;D	0.90620	-2.7;-2.7;-2.7;-2.7	5.53	5.53	0.82687	Amino acid permease domain (1);	0.329841	0.34460	N	0.003958	D	0.84529	0.5492	N	0.25380	0.74	0.37260	D	0.906967	B;B;B	0.20368	0.044;0.02;0.001	B;B;B	0.25614	0.062;0.034;0.013	T	0.81466	-0.0920	10	0.16896	T	0.51	.	14.6571	0.68841	1.0:0.0:0.0:0.0	.	334;215;439	B4DKT4;B4DTV6;Q9UHI5	.;.;LAT2_HUMAN	A	439;236;334;215;236	ENSP00000320378:V439A;ENSP00000391577:V236A;ENSP00000434345:V334A;ENSP00000416398:V215A	ENSP00000206514:V236A	V	-	2	0	SLC7A8	22667193	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.214000	0.77958	2.109000	0.64355	0.459000	0.35465	GTC		0.562	SLC7A8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071718.3			G	23597353	A	G	23597353	3	3	571	1	0	0	0	0	1	0	0	0	14717	275	10	3	299	3	SLC7A8	14	23597353	Missense_Mutation	SNP	A	TCGA-DW-7841-01A-11D-2136-08		23597353	83752187	37	33815										
FANCM	57697	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	45650876	45650876	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	aagttgattctccacttcatGctgtcaaaaagcgcagattt	7	9	3	2			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr14:45650876G>A	ENST00000267430.5	+	16	4439	c.4354G>A	c.(4354-4356)Gct>Act	p.A1452T	FANCM_ENST00000555013.1_3'UTR|FANCM_ENST00000542564.2_Missense_Mutation_p.A1426T	NM_020937.2	NP_065988.1	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	1452					DNA repair (GO:0006281)|replication fork processing (GO:0031297)|resolution of meiotic recombination intermediates (GO:0000712)	FANCM-MHF complex (GO:0071821)|Fanconi anaemia nuclear complex (GO:0043240)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|nuclease activity (GO:0004518)			breast(4)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(18)|liver(2)|lung(31)|ovary(4)|prostate(2)|skin(1)|upper_aerodigestive_tract(6)|urinary_tract(1)	85						TCCACTTCATGCTGTCAAAAA	0.318								Involved in tolerance or repair of DNA crosslinks	Fanconi Anemia																																							0													59	60	60					14																	45650876		2203	4296	6499	SO:0001583	missense	57697	Familial Cancer Database	Pancytopenia Dysmelia, FA (several complementation groups)	AK001672	CCDS32070.1	14q21.3	2014-09-17	2005-09-01	2005-09-01		ENSG00000187790		"Fanconi anemia, complementation groups"	23168	protein-coding gene	gene with protein product		609644	"KIAA1596"	KIAA1596		10997877, 16116422	Standard	NM_020937		Approved	FAAP250	uc001wwd.4	Q8IYD8		ENST00000267430.5:c.4354G>A	14.37:g.45650876G>A	ENSP00000267430:p.Ala1452Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTQ9|Q3YFH9|Q8N9X6|Q9HCH6	Missense_Mutation	SNP	ENST00000267430.5	37	CCDS32070.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	19.81|19.81	3.897408|3.897408	0.72639|0.72639	.|.	.|.	ENSG00000187790|ENSG00000187790	ENST00000267430;ENST00000542564;ENST00000556250|ENST00000554809	T;T;T|.	0.20069|.	2.7;2.7;2.1|.	5.25|5.25	4.36|4.36	0.52297|0.52297	.|.	0.807093|.	0.11373|.	N|.	0.570657|.	T|T	0.39600|0.39600	0.1084|0.1084	L|L	0.43152|0.43152	1.355|1.355	0.29859|0.29859	N|N	0.827775|0.827775	D;P|.	0.65815|.	0.995;0.953|.	P;P|.	0.53760|.	0.734;0.631|.	T|T	0.35051|0.35051	-0.9804|-0.9804	10|5	0.14656|.	T|.	0.56|.	.|.	8.1721|8.1721	0.31260|0.31260	0.1826:0.0:0.8174:0.0|0.1826:0.0:0.8174:0.0	.|.	1426;1452|.	B2RTQ9;Q8IYD8|.	.;FANCM_HUMAN|.	T|Y	1452;1426;968|384	ENSP00000267430:A1452T;ENSP00000442493:A1426T;ENSP00000452033:A968T|.	ENSP00000267430:A1452T|.	A|C	+|+	1|2	0|0	FANCM|FANCM	44720626|44720626	0.997000|0.997000	0.39634|0.39634	0.995000|0.995000	0.50966|0.50966	0.985000|0.985000	0.73830|0.73830	3.470000|3.470000	0.53100|0.53100	1.348000|1.348000	0.45733|0.45733	0.467000|0.467000	0.42956|0.42956	GCT|TGC		0.318	FANCM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410474.1	XM_048128		A	45650876	G	A	45650876	3	1	571	1	0	0	0	0	1	0	0	0	5678	1319	46	2	4416	2	FANCM	14	45650876	Missense_Mutation	SNP	G	TCGA-DW-7841-01A-11D-2136-08	22053523	45650876	61698664	38	33816										
TBPL2	387332	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	55890942	55890942	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gtggttttaccattctataaAtaagaccaggaaacagttca	7	7	2	1			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr14:55890942A>C	ENST00000247219.5	-	6	1056	c.986T>G	c.(985-987)aTt>aGt	p.I329S		NM_199047.2	NP_950248.1			TATA box binding protein like 2											endometrium(2)|kidney(1)|large_intestine(1)|lung(4)	8						CATTCTATAAATAAGACCAGG	0.348																																																0													110	102	105					14																	55890942		2203	4298	6501	SO:0001583	missense	387332			AY457923	CCDS9724.1	14q22.2	2004-06-03			ENSG00000182521	ENSG00000182521			19841	protein-coding gene	gene with protein product		608964				14634207	Standard	NM_199047		Approved	TRF3, TBP2	uc001xby.3	Q6SJ96	OTTHUMG00000140313	ENST00000247219.5:c.986T>G	14.37:g.55890942A>C	ENSP00000247219:p.Ile329Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000247219.5	37	CCDS9724.1	.	.	.	.	.	.	.	.	.	.	A	23.8	4.464312	0.84425	.	.	ENSG00000182521	ENST00000247219	T	0.57273	0.41	5.41	5.41	0.78517	Transcription factor TFIID, C-terminal/DNA glycosylase, N-terminal (1);Beta2-adaptin/TATA-box binding, C-terminal (1);	0.054773	0.64402	D	0.000001	T	0.75889	0.3911	M	0.93939	3.475	0.80722	D	1	D	0.63880	0.993	P	0.57776	0.827	T	0.83328	-0.0014	10	0.87932	D	0	-12.6468	14.6315	0.68660	1.0:0.0:0.0:0.0	.	329	Q6SJ96	TBPL2_HUMAN	S	329	ENSP00000247219:I329S	ENSP00000247219:I329S	I	-	2	0	TBPL2	54960695	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	9.138000	0.94501	2.050000	0.60909	0.528000	0.53228	ATT		0.348	TBPL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276916.1	NM_199047		C	55890942	A	C	55890942	3	2	571	1	0	0	0	0	1	0	0	0	15658	101	4	5	149	5	TBPL2	14	55890942	Missense_Mutation	SNP	A	TCGA-DW-7841-01A-11D-2136-08	10240066	55890942	51458598	39	33817										
GPR135	64582	hgsc.bcm.edu	37	chr14	59931931	59931931	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	tcgctggtgggcggggcggcTgcggctcctccatggggccc	19	14	0	0	rs1752428	byFrequency	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr14:59931931T>G	ENST00000395116.1	-	1	129	c.14A>C	c.(13-15)cAg>cCg	p.Q5P		NM_022571.5	NP_072093.2	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	5			Q -> P (in dbSNP:rs1752428).			integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			breast(1)|endometrium(1)|large_intestine(1)|liver(1)|lung(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	13				OV - Ovarian serous cystadenocarcinoma(108;0.134)		GCGGGGCGGCTGCGGCTCCTC	0.781													G|||	2695	0.538139	0.8767	0.5821	5008	,	,		8009	0.2063		0.4722	False		,,,				2504	0.4591															0													1	1	1					14																	59931931		555	1498	2053	SO:0001583	missense	64582			AY288418	CCDS9738.1	14q23.1	2012-08-21			ENSG00000181619	ENSG00000181619		"GPCR / Class A : Orphans"	19991	protein-coding gene	gene with protein product		607970				14623098	Standard	NM_022571		Approved	HUMNPIIY20, PAFR	uc010apj.3	Q8IZ08	OTTHUMG00000140325	ENST00000395116.1:c.14A>C	14.37:g.59931931T>G	ENSP00000378548:p.Gln5Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z604|Q86SM3|Q8NH39	Missense_Mutation	SNP	ENST00000395116.1	37	CCDS9738.1	1023	0.4684065934065934	376	0.7642276422764228	199	0.5497237569060773	107	0.18706293706293706	341	0.449868073878628	G	12.20	1.867217	0.32977	.	.	ENSG00000181619	ENST00000395116	T	0.62941	-0.01	3.25	3.25	0.37280	.	.	.	.	.	T	0.00012	0.0000	N	0.03608	-0.345	0.09310	P	0.9999999999999688	B	0.02656	0.0	B	0.01281	0.0	T	0.36311	-0.9753	8	0.35671	T	0.21	-4.9918	9.4599	0.38778	0.0:0.0:0.7862:0.2138	rs1752428;rs3742644	5	Q8IZ08	GP135_HUMAN	P	5	ENSP00000378548:Q5P	ENSP00000378548:Q5P	Q	-	2	0	GPR135	59001684	0.007000	0.16637	0.970000	0.41538	0.076000	0.17211	-0.908000	0.04063	0.581000	0.29539	-0.677000	0.03784	CAG		0.781	GPR135-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276941.1	NM_022571		G	59931931	T	G	59931931	3	3	571	1	0	0	0	0	1	0	0	0	6651	1580	55	5	1474	5	GPR135	14	59931931	Missense_Mutation	SNP	T	TCGA-DW-7841-01A-11D-2136-08	4040989	59931931	47417609	40	33818										
KCNH5	27133	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	63447722	63447722	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	acctctccaccgggccccacGaaagtcgtgtgaaaatttaa	8	13	1	1	rs376391048		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr14:63447722G>T	ENST00000322893.7	-	6	1078	c.810C>A	c.(808-810)ttC>ttA	p.F270L	KCNH5_ENST00000420622.2_Missense_Mutation_p.F270L|KCNH5_ENST00000394964.2_Missense_Mutation_p.F212L|KCNH5_ENST00000394968.1_Missense_Mutation_p.F212L	NM_139318.3	NP_647479.2	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H (eag-related), member 5	270					potassium ion transmembrane transport (GO:0071805)|regulation of G2/M transition of mitotic cell cycle (GO:0010389)|regulation of membrane potential (GO:0042391)|synaptic transmission (GO:0007268)	cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|plasma membrane (GO:0005886)	phosphorelay sensor kinase activity (GO:0000155)|voltage-gated potassium channel activity (GO:0005249)			NS(1)|biliary_tract(1)|breast(3)|central_nervous_system(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(22)|lung(33)|ovary(5)|prostate(2)|skin(17)|upper_aerodigestive_tract(4)|urinary_tract(2)	99				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		CGGGCCCCACGAAAGTCGTGT	0.433																																																0													61	63	62					14																	63447722		2203	4300	6503	SO:0001583	missense	27133			U69185	CCDS9756.1, CCDS45122.1	14q23.1	2012-07-05			ENSG00000140015	ENSG00000140015		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6254	protein-coding gene	gene with protein product		605716				9738473, 16382104	Standard	NM_139318		Approved	Kv10.2, H-EAG2, eag2	uc001xfx.3	Q8NCM2	OTTHUMG00000029041	ENST00000322893.7:c.810C>A	14.37:g.63447722G>T	ENSP00000321427:p.Phe270Leu	Somatic		WXS	Illumina HiSeq	Phase_I	C9JP98	Missense_Mutation	SNP	ENST00000322893.7	37	CCDS9756.1	.	.	.	.	.	.	.	.	.	.	G	17.91	3.505267	0.64410	.	.	ENSG00000140015	ENST00000322893;ENST00000420622;ENST00000394968;ENST00000394964	D;D;D;D	0.95171	-3.63;-3.63;-3.63;-3.63	5.54	1.95	0.26073	Ion transport (1);	0.000000	0.85682	D	0.000000	D	0.95401	0.8507	M	0.64404	1.975	0.80722	D	1	P;P;D;D	0.61080	0.893;0.899;0.963;0.989	P;P;P;D	0.66084	0.602;0.603;0.603;0.941	D	0.93621	0.6948	10	0.87932	D	0	.	8.8508	0.35199	0.7805:0.0:0.2195:0.0	.	212;212;270;270	Q86XI1;Q8NCM2-3;Q8NCM2-2;Q8NCM2	.;.;.;KCNH5_HUMAN	L	270;270;212;212	ENSP00000321427:F270L;ENSP00000395439:F270L;ENSP00000378419:F212L;ENSP00000378415:F212L	ENSP00000321427:F270L	F	-	3	2	KCNH5	62517475	1.000000	0.71417	1.000000	0.80357	0.811000	0.45836	1.301000	0.33447	0.086000	0.17137	-0.482000	0.04802	TTC		0.433	KCNH5-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411747.1	NM_139318		T	63447722	G	T	63447722	3	4	571	1	0	0	0	0	1	0	0	0	8042	1049	37	4	2214	4	KCNH5	14	63447722	Missense_Mutation	SNP	G	TCGA-DW-7841-01A-11D-2136-08	3515791	63447722	43901818	41	33819										
RYR3	6263	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr15	33603296	33603296	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	cgagatccagtttctgaggaCtgtgagtctccgcggcgggg	16	10	2	3			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr15:33603296C>T	ENST00000389232.4	+	1	120	c.50C>T	c.(49-51)aCt>aTt	p.T17I	RP11-489D6.2_ENST00000561458.1_RNA|RP11-489D6.2_ENST00000559457.1_RNA|RYR3_ENST00000415757.3_Splice_Site_p.T17I	NM_001036.3	NP_001027.3	Q15413	RYR3_HUMAN	ryanodine receptor 3	17					calcium ion transmembrane transport (GO:0070588)|calcium ion transport (GO:0006816)|cellular response to ATP (GO:0071318)|cellular response to caffeine (GO:0071313)|cellular response to calcium ion (GO:0071277)|cellular response to magnesium ion (GO:0071286)|ion transmembrane transport (GO:0034220)|negative regulation of cytosolic calcium ion concentration (GO:0051481)|protein homotetramerization (GO:0051289)|striated muscle contraction (GO:0006941)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|junctional membrane complex (GO:0030314)|perinuclear region of cytoplasm (GO:0048471)|sarcoplasmic reticulum membrane (GO:0033017)	calcium ion binding (GO:0005509)|calcium-induced calcium release activity (GO:0048763)|calcium-release channel activity (GO:0015278)|ryanodine-sensitive calcium-release channel activity (GO:0005219)			NS(3)|breast(9)|central_nervous_system(8)|cervix(2)|endometrium(29)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(55)|lung(148)|ovary(7)|pancreas(1)|prostate(13)|skin(4)|stomach(1)|upper_aerodigestive_tract(8)|urinary_tract(3)	311		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)		TTTCTGAGGACTGTGAGTCTC	0.756																																																0													25	32	30					15																	33603296		1919	4113	6032	SO:0001630	splice_region_variant	6263				CCDS45210.1, CCDS58351.1	15q14-q15	2013-01-10				ENSG00000198838		"Ion channels / Ryanodine receptors", "EF-hand domain containing"	10485	protein-coding gene	gene with protein product		180903				8276408	Standard	NM_001036		Approved		uc001zhi.3	Q15413		ENST00000389232.4:c.51+1C>T	15.37:g.33603296C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O15175|Q15412	Missense_Mutation	SNP	ENST00000389232.4	37	CCDS45210.1	.	.	.	.	.	.	.	.	.	.	C	16.27	3.077125	0.55753	.	.	ENSG00000198838	ENST00000389232;ENST00000415757	D;D	0.98090	-4.71;-4.71	4.63	3.7	0.42460	Inositol 1,4,5-trisphosphate/ryanodine receptor (1);	1.170300	0.06443	U	0.726384	D	0.96987	0.9016	L	0.49126	1.545	0.38096	D	0.937129	B;B	0.29253	0.144;0.239	B;B	0.38264	0.126;0.269	D	0.90850	0.4730	10	0.54805	T	0.06	.	12.9534	0.58413	0.1639:0.8361:0.0:0.0	.	17;17	Q15413-2;Q15413	.;RYR3_HUMAN	I	17	ENSP00000373884:T17I;ENSP00000399610:T17I	ENSP00000373884:T17I	T	+	2	0	RYR3	31390588	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	5.045000	0.64220	1.130000	0.42092	0.462000	0.41574	ACT		0.756	RYR3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000417514.1		Missense_Mutation	T	33603296	C	T	33603296	5	4	571	1	0	0	0	0	0	0	1	0	13783	579	20	2	52	2	RYR3	15	33603296	Splice_Site	SNP	C	TCGA-DW-7841-01A-11D-2136-08		33603296	68928096	42	33820										
ADPGK	83440	hgsc.bcm.edu	37	chr15	73045222	73045222	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	ttcagcccaagggaagtcacCgcgggaaagacctgctaaca	11	12	2	1			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr15:73045222C>A	ENST00000311669.8	-	7	1044	c.951G>T	c.(949-951)gcG>gcT	p.A317A	ADPGK_ENST00000567733.1_5'Flank|ADPGK_ENST00000456471.2_Silent_p.A43A	NM_031284.4	NP_112574.3	Q9BRR6	ADPGK_HUMAN	ADP-dependent glucokinase	318	ADPK. {ECO:0000255|PROSITE- ProRule:PRU00584}.				glycolytic process (GO:0006096)	extracellular region (GO:0005576)|membrane (GO:0016020)	ADP-specific glucokinase activity (GO:0043843)|metal ion binding (GO:0046872)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|lung(2)|skin(1)	7						GGGAAGTCACCGCGGGAAAGA	0.478																																																0													36	36	36					15																	73045222		1925	4115	6040	SO:0001819	synonymous_variant	83440			AL136873	CCDS42057.1	15q24.1	2012-07-02			ENSG00000159322	ENSG00000159322			25250	protein-coding gene	gene with protein product		611861				11230166	Standard	NM_031284		Approved	DKFZp434B195, ADP-GK	uc002avf.4	Q9BRR6	OTTHUMG00000172777	ENST00000311669.8:c.951G>T	15.37:g.73045222C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q49AU7|Q8NBI1|Q8WZ90|Q96NF8|Q9H0A7	Silent	SNP	ENST00000311669.8	37	CCDS42057.1																																																																																				0.478	ADPGK-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000420434.1	NM_031284		A	73045222	C	A	73045222	2	1	571	1	0	0	0	0	0	0	0	1	330	639	23	4		4	ADPGK	15	73045222	Silent	SNP	C	TCGA-DW-7841-01A-11D-2136-08	39441926	73045222	29486170	43	33821										
CSPG4	1464	hgsc.bcm.edu	37	chr15	75982391	75982391	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	ctctggtgtcaggcccaggcGgtgttcctggaggtgacgag	17	10	2	1	rs200187536		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr15:75982391G>A	ENST00000308508.5	-	3	1107	c.1015C>T	c.(1015-1017)Cgc>Tgc	p.R339C		NM_001897.4	NP_001888.2	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4	339	Globular or compact configuration stabilized by disulfide bonds.|Laminin G-like 2. {ECO:0000255|PROSITE- ProRule:PRU00122}.|Neurite growth inhibition. {ECO:0000250}.				activation of MAPK activity (GO:0000187)|angiogenesis (GO:0001525)|carbohydrate metabolic process (GO:0005975)|cell proliferation (GO:0008283)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|glial cell migration (GO:0008347)|glycosaminoglycan metabolic process (GO:0030203)|intracellular signal transduction (GO:0035556)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|small molecule metabolic process (GO:0044281)|tissue remodeling (GO:0048771)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cell projection (GO:0042995)|cell surface (GO:0009986)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi lumen (GO:0005796)|integral component of plasma membrane (GO:0005887)|lysosomal lumen (GO:0043202)	protein kinase binding (GO:0019901)|signal transducer activity (GO:0004871)			breast(1)|cervix(2)|endometrium(5)|kidney(5)|large_intestine(3)|liver(2)|lung(18)|ovary(2)|pancreas(2)|prostate(4)|skin(4)	48						AGGCCCAGGCGGTGTTCCTGG	0.642																																																0													17	15	16					15																	75982391		2192	4283	6475	SO:0001583	missense	1464			X96753, AY359468	CCDS10284.1	15q24.2	2010-04-19	2007-02-16		ENSG00000173546	ENSG00000173546		"Proteoglycans / Cell surface : Other"	2466	protein-coding gene	gene with protein product	"melanoma-associated chondroitin sulfate proteoglycan"	601172	"chondroitin sulfate proteoglycan 4 (melanoma-associated)"			8790396, 16407841	Standard	NM_001897		Approved	MCSPG, MEL-CSPG, MSK16, NG2, MCSP, HMW-MAA	uc002baw.3	Q6UVK1	OTTHUMG00000142836	ENST00000308508.5:c.1015C>T	15.37:g.75982391G>A	ENSP00000312506:p.Arg339Cys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DW77|Q92675	Missense_Mutation	SNP	ENST00000308508.5	37	CCDS10284.1	.	.	.	.	.	.	.	.	.	.	.	15.76	2.927450	0.52759	.	.	ENSG00000173546	ENST00000308508	T	0.19938	2.11	5.26	4.26	0.50523	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (2);Laminin G, subdomain 2 (1);	0.181054	0.36815	N	0.002398	T	0.34803	0.0910	L	0.40543	1.245	0.43593	D	0.995946	D	0.89917	1.0	D	0.65987	0.94	T	0.02553	-1.1142	10	0.37606	T	0.19	.	15.6861	0.77411	0.0:0.0:0.8538:0.1462	.	339	Q6UVK1	CSPG4_HUMAN	C	339	ENSP00000312506:R339C	ENSP00000312506:R339C	R	-	1	0	CSPG4	73769446	0.996000	0.38824	1.000000	0.80357	0.667000	0.39255	2.026000	0.41069	2.463000	0.83235	0.555000	0.69702	CGC		0.642	CSPG4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286472.1	NM_001897		A	75982391	G	A	75982391	3	1	571	1	0	0	0	0	1	0	0	0	3962	1116	39	1	5985	1	CSPG4	15	75982391	Missense_Mutation	SNP	G	TCGA-DW-7841-01A-11D-2136-08	2937169	75982391	26549001	44	33822										
WDR90	197335	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	716291	716291	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	cctgcacagggacaaccttcCgtgtgctgagtgaccaccag	11	14	0	2	rs143767432	byFrequency	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr16:716291C>A	ENST00000293879.4	+	37	4681	c.4681C>A	c.(4681-4683)Cgt>Agt	p.R1561S	WDR90_ENST00000547543.1_3'UTR|WDR90_ENST00000315764.4_Missense_Mutation_p.R160S|WDR90_ENST00000547944.1_Missense_Mutation_p.R160S|WDR90_ENST00000549091.1_Missense_Mutation_p.R1563S|RHOT2_ENST00000315082.4_5'Flank			Q96KV7	WDR90_HUMAN	WD repeat domain 90	1561										endometrium(4)|kidney(3)|large_intestine(2)|lung(22)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	37		Hepatocellular(780;0.0218)				GACAACCTTCCGTGTGCTGAG	0.627																																																0													46	55	52					16																	716291		2025	4175	6200	SO:0001583	missense	197335			AB067511	CCDS42092.1	16p13.3	2013-01-09			ENSG00000161996	ENSG00000161996		"WD repeat domain containing"	26960	protein-coding gene	gene with protein product			"chromosome 16 open reading frame 17", "chromosome 16 open reading frame 15", "chromosome 16 open reading frame 16", "chromosome 16 open reading frame 19", "chromosome 16 open reading frame 18"	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18		11572484, 11157797	Standard	XM_005255160		Approved	FLJ36483, KIAA1924	uc002cii.1	Q96KV7	OTTHUMG00000048040	ENST00000293879.4:c.4681C>A	16.37:g.716291C>A	ENSP00000293879:p.Arg1561Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VA87|Q0VA88|Q6P048|Q6ZMS1|Q6ZTH1|Q8N202|Q8N221|Q8NBB8|Q96PW4|Q96S18	Missense_Mutation	SNP	ENST00000293879.4	37	CCDS42092.1	.	.	.	.	.	.	.	.	.	.	C	18.03	3.532400	0.64972	.	.	ENSG00000161996	ENST00000549091;ENST00000293879;ENST00000547944;ENST00000315764	T;T;T;T	0.66099	3.39;1.54;-0.19;1.59	3.96	3.0	0.34707	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.649291	0.16302	N	0.220408	T	0.74898	0.3777	M	0.84433	2.695	0.49051	D	0.999749	D;D;D;D	0.89917	0.999;1.0;0.98;0.998	D;D;P;P	0.71184	0.972;0.968;0.671;0.892	T	0.73981	-0.3811	10	0.08837	T	0.75	.	9.2755	0.37696	0.0:0.8986:0.0:0.1014	.	160;160;160;1561	Q96KV7-10;Q96KV7-7;G3V201;Q96KV7	.;.;.;WDR90_HUMAN	S	1563;1561;160;160	ENSP00000448122:R1563S;ENSP00000293879:R1561S;ENSP00000449576:R160S;ENSP00000322808:R160S	ENSP00000293879:R1561S	R	+	1	0	WDR90	656292	0.083000	0.21467	0.303000	0.25071	0.729000	0.41735	1.907000	0.39897	0.877000	0.35895	0.561000	0.74099	CGT		0.627	WDR90-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000404335.1	NM_145294		A	716291	C	A	716291	3	1	571	1	0	0	0	0	1	0	0	0	17349	652	23	4	4827	4	WDR90	16	716291	Missense_Mutation	SNP	C	TCGA-DW-7841-01A-11D-2136-08		716291	89638462	45	33823										
TMC5	79838	hgsc.bcm.edu	37	chr16	19498618	19498618	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	tttcccatccttcaccggggTcttgtgcaccctggccatca	8	16	3	0			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr16:19498618T>C	ENST00000396229.2	+	17	3292	c.2543T>C	c.(2542-2544)gTc>gCc	p.V848A	TMC5_ENST00000542583.2_Missense_Mutation_p.V848A|TMC5_ENST00000219821.5_Missense_Mutation_p.V602A|TMC5_ENST00000561503.1_Missense_Mutation_p.V489A|TMC5_ENST00000564959.1_Missense_Mutation_p.V531A|TMC5_ENST00000381414.4_Missense_Mutation_p.V848A|TMC5_ENST00000541464.1_Missense_Mutation_p.V796A|CTA-363E6.6_ENST00000561762.1_RNA	NM_001105248.1	NP_001098718.1	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5	848					ion transport (GO:0006811)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(3)|liver(2)|lung(12)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	31						TTCACCGGGGTCTTGTGCACC	0.522																																																0													67	58	61					16																	19498618		2197	4300	6497	SO:0001583	missense	79838			AY263164	CCDS10577.1, CCDS42126.1, CCDS45431.1	16p13.11	2008-02-05			ENSG00000103534	ENSG00000103534			22999	protein-coding gene	gene with protein product						12812529, 12906855	Standard	NM_024780		Approved	FLJ13593	uc010var.2	Q6UXY8	OTTHUMG00000131458	ENST00000396229.2:c.2543T>C	16.37:g.19498618T>C	ENSP00000379531:p.Val848Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DK8|Q8IY20|Q8NHV6|Q9H8I7	Missense_Mutation	SNP	ENST00000396229.2	37	CCDS45431.1	.	.	.	.	.	.	.	.	.	.	T	16.51	3.144011	0.57044	.	.	ENSG00000103534	ENST00000541464;ENST00000381414;ENST00000396229;ENST00000542583;ENST00000219821;ENST00000440743	T;T;T;T;T	0.67523	-0.11;-0.09;-0.13;-0.13;-0.27	5.72	3.48	0.39840	.	0.235749	0.43110	N	0.000604	T	0.43010	0.1228	N	0.13299	0.325	0.37439	D	0.914337	B;B;B;B;B;B	0.26120	0.142;0.001;0.025;0.014;0.019;0.018	B;B;B;B;B;B	0.24006	0.05;0.003;0.05;0.022;0.022;0.034	T	0.28073	-1.0055	10	0.08837	T	0.75	-19.7366	9.3727	0.38264	0.0:0.148:0.0:0.852	.	796;531;602;602;848;848	F5GYU8;E7EU57;Q6UXY8-3;B3KUQ8;Q6UXY8;Q6UXY8-2	.;.;.;.;TMC5_HUMAN;.	A	796;848;848;848;602;531	ENSP00000441227:V796A;ENSP00000370822:V848A;ENSP00000379531:V848A;ENSP00000446274:V848A;ENSP00000219821:V602A	ENSP00000219821:V602A	V	+	2	0	TMC5	19406119	1.000000	0.71417	0.948000	0.38648	0.985000	0.73830	3.080000	0.50112	0.443000	0.26582	0.533000	0.62120	GTC		0.522	TMC5-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000435888.1	NM_024780		C	19498618	T	C	19498618	3	2	571	1	0	0	0	0	1	0	0	0	16000	1667	58	3	2915	3	TMC5	16	19498618	Missense_Mutation	SNP	T	TCGA-DW-7841-01A-11D-2136-08	18782327	19498618	70856135	46	33824										
GTF3C1	2975	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	27519910	27519910	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	ggcacagcattcttgcttctAgttttcccacattcatagcc	6	13	3	0			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr16:27519910A>G	ENST00000356183.4	-	8	1208	c.1193T>C	c.(1192-1194)cTa>cCa	p.L398P	GTF3C1_ENST00000561623.1_Missense_Mutation_p.L398P	NM_001520.3	NP_001511.2	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide 1, alpha 220kDa	398					5S class rRNA transcription from RNA polymerase III type 1 promoter (GO:0042791)|gene expression (GO:0010467)|rRNA transcription (GO:0009303)|transcription from RNA polymerase III promoter (GO:0006383)|transcription, DNA-templated (GO:0006351)|tRNA transcription (GO:0009304)|tRNA transcription from RNA polymerase III promoter (GO:0042797)	membrane (GO:0016020)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)|transcription factor TFIIIC complex (GO:0000127)	DNA binding (GO:0003677)			breast(2)|central_nervous_system(4)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(14)|liver(3)|lung(28)|ovary(2)|pancreas(1)|prostate(2)|skin(5)|upper_aerodigestive_tract(2)	80						TCTTGCTTCTAGTTTTCCCAC	0.468																																																0													195	159	171					16																	27519910		2197	4300	6497	SO:0001583	missense	2975			U06485	CCDS32414.1, CCDS66988.1	16p12	2010-03-23	2002-08-29			ENSG00000077235		"General transcription factors"	4664	protein-coding gene	gene with protein product		603246	"general transcription factor IIIC, polypeptide 1 (alpha subunit, 220kD )"			8164661, 8127861	Standard	NM_001520		Approved	TFIIIC220	uc002dov.2	Q12789		ENST00000356183.4:c.1193T>C	16.37:g.27519910A>G	ENSP00000348510:p.Leu398Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP21|Q12838|Q6DKN9|Q9Y4W9	Missense_Mutation	SNP	ENST00000356183.4	37	CCDS32414.1	.	.	.	.	.	.	.	.	.	.	A	22.9	4.353988	0.82243	.	.	ENSG00000077235	ENST00000356183;ENST00000388971	T	0.32272	1.46	5.41	5.41	0.78517	.	0.000000	0.64402	D	0.000002	T	0.45597	0.1350	L	0.32530	0.975	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.45190	-0.9278	10	0.72032	D	0.01	-4.7197	15.1534	0.72720	1.0:0.0:0.0:0.0	.	398;398	Q12789;Q12789-3	TF3C1_HUMAN;.	P	398;396	ENSP00000348510:L398P	ENSP00000348510:L398P	L	-	2	0	GTF3C1	27427411	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	8.677000	0.91203	2.054000	0.61138	0.528000	0.53228	CTA		0.468	GTF3C1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000433856.1	NM_001520		G	27519910	A	G	27519910	3	3	571	1	0	0	0	0	1	0	0	0	6879	420	15	3	5256	3	GTF3C1	16	27519910	Missense_Mutation	SNP	A	TCGA-DW-7841-01A-11D-2136-08	8021292	27519910	62834843	47	33825										
PELP1	27043	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	4575082	4575082	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	ttgtcactcccatcctcagtCtcctcttccaacagggttgg	7	15	4	0			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:4575082C>T	ENST00000574876.1	-	16	3221	c.3204G>A	c.(3202-3204)gaG>gaA	p.E1068E	PELP1_ENST00000269230.7_Silent_p.E978E|PELP1_ENST00000301396.4_Silent_p.E1212E|PELP1_ENST00000572293.1_Silent_p.E1118E|PELP1_ENST00000436683.2_Silent_p.E844E			Q8IZL8	PELP1_HUMAN	proline, glutamate and leucine rich protein 1	1068	Glu-rich.|Pro-rich.				cellular response to estrogen stimulus (GO:0071391)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|membrane (GO:0016020)|MLL1 complex (GO:0071339)|nucleolus (GO:0005730)|nucleus (GO:0005634)|transcriptionally active chromatin (GO:0035327)	chromatin binding (GO:0003682)|poly(A) RNA binding (GO:0044822)|transcription factor binding (GO:0008134)			breast(2)|central_nervous_system(2)|endometrium(2)|large_intestine(2)|lung(3)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	15						CATCCTCAGTCTCCTCTTCCA	0.602																																																0													27	28	27					17																	4575082		1913	4111	6024	SO:0001819	synonymous_variant	27043				CCDS58503.1, CCDS58503.2, CCDS62038.1	17p13.2	2012-05-02	2008-02-21			ENSG00000141456			30134	protein-coding gene	gene with protein product		609455	"proline, glutamic acid and leucine rich protein 1"			11481323, 12682072	Standard	NM_014389		Approved	MNAR	uc002fyi.4	Q8IZL8		ENST00000574876.1:c.3204G>A	17.37:g.4575082C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O15450|Q5EGN3|Q6NTE6|Q96FT1|Q9BU60	Silent	SNP	ENST00000574876.1	37	CCDS58503.1																																																																																				0.602	PELP1-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000439140.2	NM_014389		T	4575082	C	T	4575082	2	4	571	1	0	0	0	0	0	0	0	1	11732	912	32	2		2	PELP1	17	4575082	Silent	SNP	C	TCGA-DW-7841-01A-11D-2136-08		4575082	76620128	48	33826										
SOX15	6665	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	7492754	7492754	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	ccactgcgcgcccaggcgctTggagatctcggagttgtgca	14	13	1	1			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:7492754T>C	ENST00000250055.2	-	1	734	c.241A>G	c.(241-243)Aag>Gag	p.K81E	MPDU1_ENST00000423172.2_Intron|SOX15_ENST00000570788.1_Missense_Mutation_p.K81E|FXR2_ENST00000573057.1_5'Flank|SOX15_ENST00000538513.2_Missense_Mutation_p.K81E	NM_006942.1	NP_008873.1	O60248	SOX15_HUMAN	SRY (sex determining region Y)-box 15	81					cell differentiation (GO:0030154)|chromatin organization (GO:0006325)|male gonad development (GO:0008584)|myoblast development (GO:0048627)|negative regulation of striated muscle tissue development (GO:0045843)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of G0 to G1 transition (GO:0070318)|positive regulation of myoblast proliferation (GO:2000288)|positive regulation of satellite cell activation involved in skeletal muscle regeneration (GO:0014718)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|skeletal muscle tissue regeneration (GO:0043403)	cytoplasm (GO:0005737)|nuclear transcription factor complex (GO:0044798)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|prostate(1)	2						CCCAGGCGCTTGGAGATCTCG	0.667											OREG0024139	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													31	34	33					17																	7492754		2203	4300	6503	SO:0001583	missense	6665			AJ006222	CCDS32549.1	17p13.1	2014-08-12	2002-07-22	2002-07-26	ENSG00000129194	ENSG00000129194		"SRY (sex determining region Y)-boxes"	11196	protein-coding gene	gene with protein product		601297	"SRY (sex determining region Y)-box 20"	SOX20		8978787, 9730625	Standard	NM_006942		Approved	SOX27, SOX26	uc002ghz.1	O60248	OTTHUMG00000178146	ENST00000250055.2:c.241A>G	17.37:g.7492754T>C	ENSP00000355354:p.Lys81Glu	Somatic	642	WXS	Illumina HiSeq	Phase_I	B4DWU7|D3DTQ0|P35717|Q9Y6W7	Missense_Mutation	SNP	ENST00000250055.2	37	CCDS32549.1	.	.	.	.	.	.	.	.	.	.	T	35	5.577422	0.96565	.	.	ENSG00000129194	ENST00000250055;ENST00000538513	D;D	0.98717	-5.09;-5.09	5.38	5.38	0.77491	High mobility group, superfamily (1);High mobility group, HMG1/HMG2 (4);	0.111127	0.41097	D	0.000944	D	0.99414	0.9793	H	0.96633	3.855	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.98487	1.0608	10	0.87932	D	0	.	13.4332	0.61068	0.0:0.0:0.0:1.0	.	81	O60248	SOX15_HUMAN	E	81	ENSP00000355354:K81E;ENSP00000439311:K81E	ENSP00000355354:K81E	K	-	1	0	SOX15	7433478	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	6.098000	0.71458	2.276000	0.75962	0.454000	0.30748	AAG		0.667	SOX15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440757.1	NM_006942		C	7492754	T	C	7492754	3	2	571	1	0	0	0	0	1	0	0	0	14959	1821	63	3	468	3	SOX15	17	7492754	Missense_Mutation	SNP	T	TCGA-DW-7841-01A-11D-2136-08	2917672	7492754	73702456	49	33827										
TMEM88	92162	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	7758402	7758402	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	ccaggcgggccatggcggatGtccccggggcacagcgagcg	18	14	0	0			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:7758402G>T	ENST00000301599.6	+	1	20	c.10G>T	c.(10-12)Gtc>Ttc	p.V4F	CYB5D1_ENST00000571846.1_5'Flank|CYB5D1_ENST00000332439.4_5'Flank|LSMD1_ENST00000570555.1_5'Flank|CYB5D1_ENST00000570446.1_5'Flank|TMEM88_ENST00000574668.1_Missense_Mutation_p.V4F	NM_203411.1	NP_981956.1	Q6PEY1	TMM88_HUMAN	transmembrane protein 88	4					multicellular organismal development (GO:0007275)|Wnt signaling pathway (GO:0016055)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				lung(1)	1		all_cancers(10;0.00528)|Prostate(122;0.202)				CATGGCGGATGTCCCCGGGGC	0.697																																																0													26	29	28					17																	7758402		2200	4296	6496	SO:0001583	missense	92162			BC057812	CCDS11121.1	17p13.1	2005-12-13				ENSG00000167874			32371	protein-coding gene	gene with protein product							Standard	NM_203411		Approved	MGC71744, FLJ20025	uc002giy.3	Q6PEY1		ENST00000301599.6:c.10G>T	17.37:g.7758402G>T	ENSP00000301599:p.Val4Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000301599.6	37	CCDS11121.1	.	.	.	.	.	.	.	.	.	.	G	12.03	1.814355	0.32053	.	.	ENSG00000167874	ENST00000301599	T	0.49720	0.77	5.8	2.79	0.32731	.	0.447252	0.22406	N	0.060477	T	0.31702	0.0805	N	0.22421	0.69	0.09310	N	0.999998	B	0.18968	0.032	B	0.16289	0.015	T	0.26292	-1.0107	10	0.87932	D	0	-2.4095	8.5767	0.33603	0.2397:0.0:0.7603:0.0	.	4	Q6PEY1	TMM88_HUMAN	F	4	ENSP00000301599:V4F	ENSP00000301599:V4F	V	+	1	0	TMEM88	7699127	0.031000	0.19500	0.984000	0.44739	0.916000	0.54674	1.620000	0.36976	0.388000	0.25054	0.561000	0.74099	GTC		0.697	TMEM88-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440252.1	NM_203411		T	7758402	G	T	7758402	3	4	571	1	0	0	0	0	1	0	0	0	16224	1377	48	4	12	4	TMEM88	17	7758402	Missense_Mutation	SNP	G	TCGA-DW-7841-01A-11D-2136-08	265648	7758402	73436808	50	33828										
TLCD1	116238	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	27052951	27052951	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gcccagatccccgacacaatGgagtgagcgaaggagacgag	14	11	0	3			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:27052951G>T	ENST00000292090.3	-	1	275	c.165C>A	c.(163-165)tcC>tcA	p.S55S	SNORD42A_ENST00000459584.1_RNA|NEK8_ENST00000268766.6_5'Flank|AC010761.14_ENST00000587898.1_RNA|SNORD4B_ENST00000459083.1_RNA|TLCD1_ENST00000394933.3_Intron	NM_138463.3	NP_612472.1	Q96CP7	TLCD1_HUMAN	TLC domain containing 1	55	TLC. {ECO:0000255|PROSITE- ProRule:PRU00205}.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(2)|endometrium(1)|kidney(2)|lung(2)	7	Lung NSC(42;0.00431)					CCGACACAATGGAGTGAGCGA	0.682																																																0													25	24	24					17																	27052951		2203	4300	6503	SO:0001819	synonymous_variant	116238			BC014072	CCDS11242.1, CCDS54102.1	17q11.2	2007-03-23			ENSG00000160606	ENSG00000160606			25177	protein-coding gene	gene with protein product						12151215	Standard	NM_138463		Approved		uc002hco.3	Q96CP7	OTTHUMG00000132683	ENST00000292090.3:c.165C>A	17.37:g.27052951G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MYP9	Silent	SNP	ENST00000292090.3	37	CCDS11242.1																																																																																				0.682	TLCD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255973.1	NM_138463		T	27052951	G	T	27052951	2	4	571	1	0	0	0	0	0	0	0	1	15949	1335	47	4		4	TLCD1	17	27052951	Silent	SNP	G	TCGA-DW-7841-01A-11D-2136-08	19294549	27052951	54142259	51	33829										
PIPOX	51268	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	27380072	27380083	+	In_Frame_Del	DEL	GGTTGCCCAGGG	GGTTGCCCAGGG	-													0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gcaacgtttcccaaatattcGgttgcccaggggagaagtgg					rs148024165	byFrequency	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	GGTTGCCCAGGG	GGTTGCCCAGGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:27380072_27380083delGGTTGCCCAGGG	ENST00000323372.4	+	3	724_735	c.398_409delGGTTGCCCAGGG	c.(397-411)cggttgcccagggga>cga	p.LPRG134del	PIPOX_ENST00000583215.1_3'UTR	NM_016518.2	NP_057602.2	Q9P0Z9	SOX_HUMAN	pipecolic acid oxidase	134					L-lysine catabolic process to acetyl-CoA via L-pipecolate (GO:0033514)|oxidation-reduction process (GO:0055114)|tetrahydrofolate metabolic process (GO:0046653)	peroxisome (GO:0005777)	L-pipecolate oxidase activity (GO:0050031)|receptor binding (GO:0005102)|sarcosine oxidase activity (GO:0008115)			endometrium(2)|large_intestine(4)|lung(1)|prostate(1)|skin(1)|urinary_tract(1)	10	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)	CCAAATATTCGGTTGCCCAGGGGAGAAGTGGG	0.495																																																0																																										SO:0001651	inframe_deletion	51268			AF134593	CCDS11248.1	17p13.2	2008-07-18			ENSG00000179761	ENSG00000179761			17804	protein-coding gene	gene with protein product	"L-pipecolic acid oxidase"					10772957, 10642506	Standard	NM_016518		Approved	LPIPOX	uc002hdr.1	Q9P0Z9	OTTHUMG00000132679	ENST00000323372.4:c.398_409delGGTTGCCCAGGG	17.37:g.27380072_27380083delGGTTGCCCAGGG	ENSP00000317721:p.Leu134_Gly137del	Somatic		WXS	Illumina HiSeq	Phase_I	B3KNH0|Q96H28|Q9C070	In_Frame_Del	DEL	ENST00000323372.4	37	CCDS11248.1																																																																																				0.495	PIPOX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255954.1	NM_016518		-	27380083	GGTTGCCCAGGG	-	27380072	7	5	571	1	0	1	0	1	0	0	0	0	11950	1116	39	0	408	0	PIPOX	17	27380072	In_Frame_Del	DEL	GGTTGCCCAGGG	TCGA-DW-7841-01A-11D-2136-08	327121	27380072	53815138	52	33830										
DDX52	11056	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	36003445	36003445	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	ggcgaaagagatcgtggacgTccatctttacccagaaagcg	12	10	1	2			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:36003445T>C	ENST00000349699.2	-	1	48	c.5A>G	c.(4-6)gAc>gGc	p.D2G	DDX52_ENST00000394367.3_5'UTR|RP11-697E22.2_ENST00000586950.1_RNA|RP11-697E22.2_ENST00000586163.1_RNA	NM_007010.3	NP_008941.2	Q9Y2R4	DDX52_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 52	2						membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|poly(A) RNA binding (GO:0044822)			biliary_tract(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(3)|lung(5)|ovary(1)|skin(3)	17		Breast(25;0.00637)|Ovarian(249;0.15)				ATCGTGGACGTCCATCTTTAC	0.622																																																0													43	43	43					17																	36003445		2203	4300	6503	SO:0001583	missense	11056			AF077033	CCDS11323.1	17q21.1	2014-05-06			ENSG00000141141	ENSG00000278053		"DEAD-boxes"	20038	protein-coding gene	gene with protein product		612500				11124703	Standard	XM_006721650		Approved	ROK1	uc002hoi.2	Q9Y2R4	OTTHUMG00000188475	ENST00000349699.2:c.5A>G	17.37:g.36003445T>C	ENSP00000268854:p.Asp2Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q86YG1|Q8N213|Q9NVE0|Q9Y482	Missense_Mutation	SNP	ENST00000349699.2	37	CCDS11323.1	.	.	.	.	.	.	.	.	.	.	T	27.6	4.847823	0.91277	.	.	ENSG00000141141	ENST00000349699	T	0.18960	2.18	5.26	5.26	0.73747	.	37.662000	0.00397	N	0.000053	T	0.40196	0.1107	L	0.54323	1.7	0.80722	D	1	D	0.61697	0.99	P	0.54140	0.743	T	0.03545	-1.1026	10	0.87932	D	0	.	11.4972	0.50415	0.0:0.0:0.0:1.0	.	2	Q9Y2R4	DDX52_HUMAN	G	2	ENSP00000268854:D2G	ENSP00000268854:D2G	D	-	2	0	DDX52	33077558	0.996000	0.38824	0.931000	0.37212	0.923000	0.55619	3.812000	0.55628	2.218000	0.71995	0.533000	0.62120	GAC		0.622	DDX52-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256795.1	NM_152300		C	36003445	T	C	36003445	3	2	571	1	0	0	0	0	1	0	0	0	4372	1667	58	3	1854	3	DDX52	17	36003445	Missense_Mutation	SNP	T	TCGA-DW-7841-01A-11D-2136-08	8623373	36003445	45191765	53	33831										
KRT27	342574	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	38933310	38933310	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	ggtggatttctcttccacagTgtgaactctggatgagagaa	12	7	2	3			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:38933310T>C	ENST00000301656.3	-	8	1361	c.1321A>G	c.(1321-1323)Act>Gct	p.T441A	KRT27_ENST00000540723.1_5'UTR	NM_181537.3	NP_853515.2			keratin 27											NS(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(6)|ovary(1)|prostate(3)|skin(1)|stomach(1)	21		Breast(137;0.000812)				TCTTCCACAGTGTGAACTCTG	0.413																																																0													118	121	120					17																	38933310		2203	4300	6503	SO:0001583	missense	342574			AJ564206	CCDS11375.1	17q21.2	2013-01-16	2006-07-17	2006-07-17	ENSG00000171446	ENSG00000171446		"-", "Intermediate filaments type I, keratins (acidic)"	30841	protein-coding gene	gene with protein product			"keratin 25C"	KRT25C		16831889	Standard	NM_181537		Approved		uc002hvg.3	Q7Z3Y8	OTTHUMG00000133371	ENST00000301656.3:c.1321A>G	17.37:g.38933310T>C	ENSP00000301656:p.Thr441Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000301656.3	37	CCDS11375.1	.	.	.	.	.	.	.	.	.	.	T	12.82	2.053696	0.36277	.	.	ENSG00000171446	ENST00000301656	D	0.82081	-1.57	5.66	1.64	0.23874	.	0.290739	0.30260	N	0.010040	T	0.63534	0.2519	N	0.19112	0.55	0.19945	N	0.999941	B	0.02656	0.0	B	0.01281	0.0	T	0.47849	-0.9085	10	0.36615	T	0.2	.	0.5754	0.00702	0.2019:0.1756:0.1465:0.4761	.	441	Q7Z3Y8	K1C27_HUMAN	A	441	ENSP00000301656:T441A	ENSP00000301656:T441A	T	-	1	0	KRT27	36186836	0.000000	0.05858	0.645000	0.29479	0.941000	0.58515	-0.027000	0.12371	0.471000	0.27319	0.528000	0.53228	ACT		0.413	KRT27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257216.1	NM_181537		C	38933310	T	C	38933310	3	2	571	1	0	0	0	0	1	0	0	0	8471	1696	59	3	62	3	KRT27	17	38933310	Missense_Mutation	SNP	T	TCGA-DW-7841-01A-11D-2136-08	2929865	38933310	42261900	54	33832										
FOXJ1	2302	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	74134123	74134123	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	ggggtcaatgcgccagaagcCccccttgcctggttcgtcct	12	15	1	1			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:74134123C>A	ENST00000322957.6	-	3	931	c.577G>T	c.(577-579)Ggc>Tgc	p.G193C	RNF157-AS1_ENST00000590137.1_RNA|RNF157-AS1_ENST00000585542.1_RNA	NM_001454.3	NP_001445.2	Q92949	FOXJ1_HUMAN	forkhead box J1	193					actin cytoskeleton organization (GO:0030036)|activation of Rho GTPase activity (GO:0032862)|brain development (GO:0007420)|central tolerance induction (GO:0002508)|cilium assembly (GO:0042384)|epithelium development (GO:0060429)|establishment of apical/basal cell polarity (GO:0035089)|glomerular parietal epithelial cell development (GO:0072016)|humoral immune response (GO:0006959)|left/right pattern formation (GO:0060972)|leukocyte migration (GO:0050900)|lung epithelium development (GO:0060428)|metanephric part of ureteric bud development (GO:0035502)|negative regulation of B cell activation (GO:0050869)|negative regulation of germinal center formation (GO:0002635)|negative regulation of humoral immune response mediated by circulating immunoglobulin (GO:0002924)|negative regulation of interleukin-6 biosynthetic process (GO:0045409)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of T cell differentiation in thymus (GO:0033085)|negative regulation of T cell proliferation (GO:0042130)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|pattern specification process (GO:0007389)|positive regulation of central B cell tolerance induction (GO:0002897)|positive regulation of lung ciliated cell differentiation (GO:1901248)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region sequence-specific DNA binding (GO:0000976)			large_intestine(1)|liver(1)|pancreas(1)|skin(1)	4			LUSC - Lung squamous cell carcinoma(166;0.187)			CGCCAGAAGCCCCCCTTGCCT	0.607																																																0													39	43	41					17																	74134123		2203	4300	6503	SO:0001583	missense	2302			X99349	CCDS32739.1	17q25.1	2008-05-14				ENSG00000129654		"Forkhead boxes"	3816	protein-coding gene	gene with protein product		602291		FKHL13		9073514, 16518568	Standard	NM_001454		Approved	HFH-4, HFH4	uc002jqx.3	Q92949		ENST00000322957.6:c.577G>T	17.37:g.74134123C>A	ENSP00000323880:p.Gly193Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O00630	Missense_Mutation	SNP	ENST00000322957.6	37	CCDS32739.1	.	.	.	.	.	.	.	.	.	.	C	20.4	3.986309	0.74589	.	.	ENSG00000129654	ENST00000322957	D	0.95482	-3.72	4.68	4.68	0.58851	Winged helix-turn-helix transcription repressor DNA-binding (1);Transcription factor, fork head (3);	0.000000	0.85682	D	0.000000	D	0.96580	0.8884	L	0.42581	1.335	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.97558	1.0096	10	0.87932	D	0	.	17.5787	0.87958	0.0:1.0:0.0:0.0	.	193	Q92949	FOXJ1_HUMAN	C	193	ENSP00000323880:G193C	ENSP00000323880:G193C	G	-	1	0	FOXJ1	71645718	1.000000	0.71417	0.999000	0.59377	0.602000	0.36980	5.893000	0.69798	2.153000	0.67306	0.561000	0.74099	GGC		0.607	FOXJ1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449856.1	NM_001454		A	74134123	C	A	74134123	3	1	571	1	0	0	0	0	1	0	0	0	6018	623	22	4	692	4	FOXJ1	17	74134123	Missense_Mutation	SNP	C	TCGA-DW-7841-01A-11D-2136-08	35200813	74134123	7061087	55	33833										
C17orf70	80233	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	79514289	79514299	+	Frame_Shift_Del	DEL	TGAGACTGTAG	TGAGACTGTAG	-													0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	ggccccgcccaccacctcccTgagactgtagaacagcgtgc							TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	TGAGACTGTAG	TGAGACTGTAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr17:79514289_79514299delTGAGACTGTAG	ENST00000327787.8	-	5	1855_1865	c.1809_1819delCTACAGTCTCA	c.(1807-1821)ttctacagtctcaggfs	p.FYSLR603fs	C17orf70_ENST00000537152.1_Frame_Shift_Del_p.FYSLR452fs|C17orf70_ENST00000425898.2_Frame_Shift_Del_p.FYSLR252fs			Q0VG06	FP100_HUMAN	chromosome 17 open reading frame 70	603					DNA repair (GO:0006281)	cytoplasm (GO:0005737)|Fanconi anaemia nuclear complex (GO:0043240)|intermediate filament cytoskeleton (GO:0045111)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|central_nervous_system(1)|endometrium(1)|lung(11)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	19	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			ACCACCTCCCTGAGACTGTAGAACAGCGTGC	0.682																																																0																																										SO:0001589	frameshift_variant	80233			BC008883	CCDS32765.1, CCDS32765.2	17q25.3	2012-05-30			ENSG00000185504	ENSG00000185504			26171	protein-coding gene	gene with protein product	"Fanconi anemia-associated protein, 100kDa"	611301				17396147	Standard	NM_025161		Approved	FLJ22175, FAAP100	uc002kaq.3	Q0VG06	OTTHUMG00000167764	ENST00000327787.8:c.1809_1819delCTACAGTCTCA	17.37:g.79514289_79514299delTGAGACTGTAG	ENSP00000333283:p.Phe603fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNM1|Q8N3F7|Q9BV13|Q9H6K7|Q9H7E8	Frame_Shift_Del	DEL	ENST00000327787.8	37	CCDS32765.2																																																																																				0.682	C17orf70-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396170.1	NM_025161		-	79514299	TGAGACTGTAG	-	79514289	7	5	571	1	0	1	0	1	0	0	0	0	1879	1579	55	0	846	0	C17orf70	17	79514289	Frame_Shift_Del	DEL	TGAGACTGTAG	TCGA-DW-7841-01A-11D-2136-08	5380166	79514289	1680921	56	33834										
ARID3A	1820	hgsc.bcm.edu	37	chr19	971936	971936	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	tctgctcccaacaaaggaggCggcggcggcggcggcagcag	17	13	1	0	rs138086881	byFrequency	TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr19:971936C>G	ENST00000263620.3	+	9	1980	c.1653C>G	c.(1651-1653)ggC>ggG	p.G551G		NM_005224.2	NP_005215.1	Q99856	ARI3A_HUMAN	AT rich interactive domain 3A (BRIGHT-like)	551	Gly-rich.|Important for cytoplasmic localization. {ECO:0000250}.					cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|membrane raft (GO:0045121)|nucleolus (GO:0005730)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(2)|ovary(1)	10		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACAAAGGAggcggcggcggcg	0.657																																					Pancreas(29;54 1022 32760 50921)											0													25	33	30					19																	971936		2196	4289	6485	SO:0001819	synonymous_variant	1820			U88047	CCDS12050.1	19p13.3	2013-02-07	2006-11-08	2004-01-30		ENSG00000116017		"-"	3031	protein-coding gene	gene with protein product		603265	"dead ringer-like 1 (Drosophila)", "AT rich interactive domain 3A (BRIGHT- like)"	DRIL1		9722953	Standard	NM_005224		Approved	BRIGHT	uc002lql.3	Q99856		ENST00000263620.3:c.1653C>G	19.37:g.971936C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5I858|Q6P9C6|Q8IZA7|Q8N4Z3	Silent	SNP	ENST00000263620.3	37	CCDS12050.1																																																																																				0.657	ARID3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458219.1	NM_005224		G	971936	C	G	971936	2	3	571	1	0	0	0	0	0	0	0	1	916	755	27	4		4	ARID3A	19	971936	Silent	SNP	C	TCGA-DW-7841-01A-11D-2136-08		971936	58157047	57	33835										
HNRNPM	4670	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	8551158	8551158	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	tggccatgggtggcggtggcGgtgccagctttgaccgtgcc	18	11	0	1	rs199749036		TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr19:8551158G>A	ENST00000325495.4	+	14	1887	c.1846G>A	c.(1846-1848)Ggt>Agt	p.G616S	HNRNPM_ENST00000348943.3_Missense_Mutation_p.G577S	NM_005968.4	NP_005959.2	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	616	Poly-Gly.				alternative mRNA splicing, via spliceosome (GO:0000380)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|extracellular matrix (GO:0031012)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|paraspeckles (GO:0042382)|spliceosomal complex (GO:0005681)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein domain specific binding (GO:0019904)|RNA binding (GO:0003723)			endometrium(5)|kidney(2)|large_intestine(7)|lung(10)|ovary(1)	25						TGGCGGTGGCGGTGCCAGCTT	0.682													G|||	1	0.000199681	0.0	0.0	5008	,	,		16026	0.001		0.0	False		,,,				2504	0.0															0													33	37	36					19																	8551158		2202	4300	6502	SO:0001583	missense	4670			L03532	CCDS12203.1, CCDS12204.1	19p13.2	2013-06-12		2008-04-18	ENSG00000099783	ENSG00000099783		"RNA binding motif (RRM) containing"	5046	protein-coding gene	gene with protein product	"CEA receptor"	160994		NAGR1, HNRPM		8441656, 7558047	Standard	NM_005968		Approved	HTGR1, HNRNPM4, HNRPM4, CEAR	uc010dwe.3	P52272	OTTHUMG00000182383	ENST00000325495.4:c.1846G>A	19.37:g.8551158G>A	ENSP00000325376:p.Gly616Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q15584|Q8WZ44|Q96H56|Q9BWL9|Q9Y492	Missense_Mutation	SNP	ENST00000325495.4	37	CCDS12203.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	G	13.91	2.379400	0.42207	.	.	ENSG00000099783	ENST00000325495;ENST00000348943;ENST00000544159;ENST00000539473	T;T	0.18960	2.18;2.52	4.52	2.41	0.29592	.	0.100454	0.64402	N	0.000002	T	0.35856	0.0946	M	0.62723	1.935	0.52501	D	0.999953	P;P;D;P	0.89917	0.907;0.906;1.0;0.774	B;B;D;B	0.69479	0.205;0.126;0.964;0.074	T	0.05801	-1.0863	10	0.51188	T	0.08	.	6.939	0.24483	0.2022:0.0:0.7978:0.0	.	456;616;577;501	Q7KYM9;P52272;P52272-2;Q59ES8	.;HNRPM_HUMAN;.;.	S	616;577;501;173	ENSP00000325376:G616S;ENSP00000325732:G577S	ENSP00000325376:G616S	G	+	1	0	HNRNPM	8457158	1.000000	0.71417	0.953000	0.39169	1.000000	0.99986	4.448000	0.60027	0.839000	0.34971	0.655000	0.94253	GGT		0.682	HNRNPM-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000460894.1			A	8551158	G	A	8551158	3	1	571	1	0	0	0	0	1	0	0	0	7278	1116	39	1	1900	1	HNRNPM	19	8551158	Missense_Mutation	SNP	G	TCGA-DW-7841-01A-11D-2136-08	7579222	8551158	50577825	58	33836										
ZNF497	162968	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	58867603	58867603	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gccgcaagcgtagggcctctCgcccgtgtgcgtgcgccggt	16	15	1	0			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr19:58867603C>A	ENST00000311044.3	-	3	1587	c.1399G>T	c.(1399-1401)Gag>Tag	p.E467*	A1BG-AS1_ENST00000593960.1_RNA|A1BG-AS1_ENST00000594950.1_RNA|CTD-2619J13.9_ENST00000599952.1_RNA|A1BG-AS1_ENST00000600379.1_RNA|A1BG-AS1_ENST00000599728.1_RNA|ZNF497_ENST00000425453.3_Nonsense_Mutation_p.E467*|A1BG-AS1_ENST00000593374.1_RNA|A1BG-AS1_ENST00000600686.1_RNA|CTD-2619J13.8_ENST00000599109.1_RNA|A1BG_ENST00000263100.3_5'Flank|A1BG-AS1_ENST00000595302.1_RNA	NM_198458.2	NP_940860.2	Q6ZNH5	ZN497_HUMAN	zinc finger protein 497	467					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(2)|lung(3)|skin(2)	7		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0278)		TAGGGCCTCTCGCCCGTGTGC	0.692																																																0													15	17	16					19																	58867603		2194	4293	6487	SO:0001587	stop_gained	162968			AK126727	CCDS12977.1	19q13.43	2013-01-08			ENSG00000174586	ENSG00000174586		"Zinc fingers, C2H2-type"	23714	protein-coding gene	gene with protein product							Standard	NM_198458		Approved	FLJ44773	uc002qsi.2	Q6ZNH5		ENST00000311044.3:c.1399G>T	19.37:g.58867603C>A	ENSP00000311183:p.Glu467*	Somatic		WXS	Illumina HiSeq	Phase_I	Q05AG8|Q0VF48|Q6ZTD2|Q9UIA8	Nonsense_Mutation	SNP	ENST00000311044.3	37	CCDS12977.1	.	.	.	.	.	.	.	.	.	.	C	22.2	4.257589	0.80246	.	.	ENSG00000174586	ENST00000311044;ENST00000425453	.	.	.	1.24	0.059	0.14330	.	.	.	.	.	.	.	.	.	.	.	0.53005	D	0.999969	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	.	8.3137	0.32086	0.0:0.7513:0.2487:0.0	.	.	.	.	X	467	.	ENSP00000311183:E467X	E	-	1	0	ZNF497	63559415	0.568000	0.26635	0.001000	0.08648	0.280000	0.26924	2.887000	0.48586	0.066000	0.16515	0.195000	0.17529	GAG		0.692	ZNF497-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466942.2	NM_198458		A	58867603	C	A	58867603	4	1	571	1	0	0	0	0	0	1	0	0	17958	893	31	4	101	4	ZNF497	19	58867603	Nonsense_Mutation	SNP	C	TCGA-DW-7841-01A-11D-2136-08	50316445	58867603	261380	59	33837										
CTCFL	140690	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	56090837	56090837	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gcatagctgcactggcaacaCtgaaaggggcgctccccagt	12	13	0	1			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr20:56090837C>G	ENST00000608263.1	-	5	1774	c.1113G>C	c.(1111-1113)caG>caC	p.Q371H	CTCFL_ENST00000539382.1_Missense_Mutation_p.Q166H|CTCFL_ENST00000609232.1_Missense_Mutation_p.Q371H|CTCFL_ENST00000422869.2_Missense_Mutation_p.Q371H|CTCFL_ENST00000433949.3_Missense_Mutation_p.Q166H|CTCFL_ENST00000423479.3_Missense_Mutation_p.Q371H|CTCFL_ENST00000371196.2_Missense_Mutation_p.Q371H|CTCFL_ENST00000432255.2_Intron|CTCFL_ENST00000502686.2_Missense_Mutation_p.Q109H|CTCFL_ENST00000429804.3_Missense_Mutation_p.Q371H|CTCFL_ENST00000608440.1_Missense_Mutation_p.Q371H|CTCFL_ENST00000608425.1_Missense_Mutation_p.Q371H|CTCFL_ENST00000608903.1_Missense_Mutation_p.Q109H|CTCFL_ENST00000608858.1_5'UTR|CTCFL_ENST00000243914.3_Missense_Mutation_p.Q371H	NM_001269041.1	NP_001255970.1	Q8NI51	CTCFL_HUMAN	CCCTC-binding factor (zinc finger protein)-like	371					cell cycle (GO:0007049)|DNA methylation involved in gamete generation (GO:0043046)|histone methylation (GO:0016571)|positive regulation of gene expression (GO:0010628)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of gene expression by genetic imprinting (GO:0006349)|regulation of histone H3-K4 methylation (GO:0051569)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone binding (GO:0042393)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding (GO:0043565)|transcription regulatory region DNA binding (GO:0044212)			NS(1)|breast(1)|cervix(2)|endometrium(6)|kidney(4)|large_intestine(9)|lung(28)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	58	Lung NSC(12;0.00132)|all_lung(29;0.00433)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;3.95e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.09e-07)			ACTGGCAACACTGAAAGGGGC	0.473																																																0													173	164	167					20																	56090837		2203	4300	6503	SO:0001583	missense	140690				CCDS13459.1, CCDS58776.1, CCDS58777.1, CCDS58778.1, CCDS58779.1, CCDS58780.1, CCDS58781.1, CCDS58782.1, CCDS68161.1, CCDS68162.1, CCDS68163.1, CCDS68164.1	20q13.31	2013-01-08			ENSG00000124092	ENSG00000124092		"Zinc fingers, C2H2-type"	16234	protein-coding gene	gene with protein product	"cancer/testis antigen 27"	607022					Standard	NM_001269040		Approved	dJ579F20.2, BORIS, CT27	uc010giw.1	Q8NI51	OTTHUMG00000032829	ENST00000608263.1:c.1113G>C	20.37:g.56090837C>G	ENSP00000476783:p.Gln371His	Somatic		WXS	Illumina HiSeq	Phase_I	A0S6W1|A1L4C6|A6XGL8|A6XGM2|A6XGM3|A6XGM8|A6XGN0|A6XGN1|A6XGN2|A6XGN3|A6XGN4|E7EQ27|E7EUE3|E9PBA9|Q5JUG4|Q9BZ30|Q9NQJ3	Missense_Mutation	SNP	ENST00000608263.1	37	CCDS13459.1	.	.	.	.	.	.	.	.	.	.	C	12.79	2.042881	0.36085	.	.	ENSG00000124092	ENST00000423479;ENST00000243914;ENST00000371196;ENST00000429804;ENST00000433949;ENST00000502686;ENST00000422109;ENST00000426658;ENST00000539382;ENST00000422869	T;T;T;T;T;T;T;T;T;T	0.19394	2.15;2.15;2.15;2.15;2.15;2.15;2.15;2.15;2.15;2.15	5.24	3.07	0.35406	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.342601	0.21292	N	0.076960	T	0.15869	0.0382	L	0.37466	1.105	0.39176	D	0.962686	B;B;B;B;B	0.25390	0.025;0.077;0.03;0.077;0.125	B;B;B;B;B	0.28011	0.05;0.045;0.082;0.045;0.085	T	0.09271	-1.0682	10	0.72032	D	0.01	-35.7918	5.7172	0.17966	0.0:0.5692:0.2418:0.1889	.	371;371;371;371;371	A6XGM9;A6XGM2;E7EUE3;A6XGL8;Q8NI51	.;.;.;.;CTCFL_HUMAN	H	371;371;371;371;371;109;371;371;166;371	ENSP00000415579:Q371H;ENSP00000243914:Q371H;ENSP00000360239:Q371H;ENSP00000415329:Q371H;ENSP00000392034:Q371H;ENSP00000437999:Q109H;ENSP00000413713:Q371H;ENSP00000403369:Q371H;ENSP00000439998:Q166H;ENSP00000399061:Q371H	ENSP00000243914:Q371H	Q	-	3	2	CTCFL	55524243	1.000000	0.71417	0.998000	0.56505	0.813000	0.45954	1.660000	0.37397	1.327000	0.45338	0.650000	0.86243	CAG		0.473	CTCFL-019	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000472040.1	NM_080618		G	56090837	C	G	56090837	3	3	571	1	0	0	0	0	1	0	0	0	4003	564	20	4	902	4	CTCFL	20	56090837	Missense_Mutation	SNP	C	TCGA-DW-7841-01A-11D-2136-08		56090837	6934683	60	33838										
PDE9A	5152	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr21	44185564	44185565	+	Frame_Shift_Ins	INS	-	-	G													0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gattctttcaaagagaaaatINSggagaattttgactacagca							TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr21:44185564_44185565insG	ENST00000291539.6	+	15	1376_1377	c.1316_1317insG	c.(1315-1320)atggagfs	p.E440fs	PDE9A_ENST00000470987.1_3'UTR|PDE9A_ENST00000398234.3_Frame_Shift_Ins_p.E339fs|PDE9A_ENST00000398225.3_Frame_Shift_Ins_p.E399fs|PDE9A_ENST00000398227.3_Frame_Shift_Ins_p.E280fs|PDE9A_ENST00000539837.1_Frame_Shift_Ins_p.E312fs|PDE9A_ENST00000328862.6_Frame_Shift_Ins_p.E414fs|PDE9A_ENST00000349112.3_Frame_Shift_Ins_p.E312fs|PDE9A_ENST00000398224.3_Frame_Shift_Ins_p.E313fs|PDE9A_ENST00000335440.6_Frame_Shift_Ins_p.E338fs|PDE9A_ENST00000398236.3_Frame_Shift_Ins_p.E354fs|PDE9A_ENST00000335512.4_Frame_Shift_Ins_p.E380fs|PDE9A_ENST00000398232.3_Frame_Shift_Ins_p.E373fs|PDE9A_ENST00000380328.2_Frame_Shift_Ins_p.E387fs|PDE9A_ENST00000398229.3_Frame_Shift_Ins_p.E306fs	NM_002606.2	NP_002597.1	O76083	PDE9A_HUMAN	phosphodiesterase 9A	440	Catalytic. {ECO:0000250}.				blood coagulation (GO:0007596)|cGMP-mediated signaling (GO:0019934)|metabolic process (GO:0008152)|signal transduction (GO:0007165)	cell projection (GO:0042995)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)	3',5'-cyclic-GMP phosphodiesterase activity (GO:0047555)|3',5'-cyclic-nucleotide phosphodiesterase activity (GO:0004114)|metal ion binding (GO:0046872)			breast(1)|endometrium(4)|large_intestine(6)|lung(8)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	27					Caffeine(DB00201)	AAAGAGAAAATGGAGAATTTTG	0.48																																																0																																										SO:0001589	frameshift_variant	5152			AF048837	CCDS13690.1, CCDS33567.1, CCDS33568.1, CCDS33569.1, CCDS33570.1, CCDS33571.1, CCDS42941.1, CCDS42942.1, CCDS42943.1, CCDS42944.1, CCDS42945.1, CCDS42946.1, CCDS42947.1	21q22.3	2005-11-29			ENSG00000160191	ENSG00000160191	3.1.4.17	"Phosphodiesterases"	8795	protein-coding gene	gene with protein product		602973				9624146	Standard	NM_001001584		Approved		uc002zbm.3	O76083	OTTHUMG00000086825	ENST00000291539.6:c.1318dupG	21.37:g.44185566_44185566dupG	ENSP00000291539:p.Glu440fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBI5|B4DFI5|D3DSJ8|D3DSJ9|O75490|O75491|O95225|Q53Y40|Q5QD39|Q86SF7|Q86SI6|Q86SJ3|Q86WN3|Q86WN4|Q86WN5|Q86WN6|Q86WN7|Q86WN8|Q86WN9|Q86WP0	Frame_Shift_Ins	INS	ENST00000291539.6	37	CCDS13690.1																																																																																				0.48	PDE9A-016	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000195466.1			G	44185565	-	G	44185564	7	5	571	1	0	1	1	0	0	0	0	0	11662	1464	51	0	1454	0	PDE9A	21	44185564	Frame_Shift_Ins	INS	-	TCGA-DW-7841-01A-11D-2136-08		44185564	3944331	61	33839										
MICAL3	57553	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	18293564	18293564	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	cttggcattcagttcctcctCcgtgtaggttcttggctgga	11	11	2	0			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr22:18293564C>T	ENST00000441493.2	-	28	5813	c.5461G>A	c.(5461-5463)Gag>Aag	p.E1821K	MICAL3_ENST00000580469.1_5'UTR|XXbac-B461K10.4_ENST00000476405.1_RNA	NM_015241.2	NP_056056.2	Q7RTP6	MICA3_HUMAN	microtubule associated monooxygenase, calponin and LIM domain containing 3	1821					actin filament depolymerization (GO:0030042)|cytoskeleton organization (GO:0007010)|exocytosis (GO:0006887)|oxidation-reduction process (GO:0055114)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)	actin binding (GO:0003779)|FAD binding (GO:0071949)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen (GO:0016709)|zinc ion binding (GO:0008270)			large_intestine(1)|lung(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	4		all_epithelial(15;0.198)		Lung(27;0.0427)		AGTTCCTCCTCCGTGTAGGTT	0.602																																																0													78	81	80					22																	18293564		2181	4279	6460	SO:0001583	missense	57553			AB037785	CCDS46659.1, CCDS46660.1, CCDS46661.1	22q11.21	2013-03-26	2013-03-26		ENSG00000243156	ENSG00000243156			24694	protein-coding gene	gene with protein product		608882				12110185	Standard	NM_015241		Approved	KIAA0819	uc002zng.4	Q7RTP6	OTTHUMG00000150067	ENST00000441493.2:c.5461G>A	22.37:g.18293564C>T	ENSP00000416015:p.Glu1821Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RXJ5|E9PEF0|O94909|Q5U4P4|Q6ICK4|Q96DF2|Q9P2I3	Missense_Mutation	SNP	ENST00000441493.2	37	CCDS46659.1	.	.	.	.	.	.	.	.	.	.	C	17.11	3.305044	0.60305	.	.	ENSG00000093100	ENST00000441493	T	0.65178	-0.14	4.81	4.81	0.61882	.	0.182495	0.46442	D	0.000288	T	0.66519	0.2797	L	0.34521	1.04	0.80722	D	1	D	0.67145	0.996	P	0.60415	0.874	T	0.62407	-0.6861	10	0.21540	T	0.41	.	17.8904	0.88870	0.0:1.0:0.0:0.0	.	1821	Q7RTP6	MICA3_HUMAN	K	1821	ENSP00000416015:E1821K	ENSP00000416015:E1821K	E	-	1	0	XXbac-B461K10.4	16673564	1.000000	0.71417	0.999000	0.59377	0.988000	0.76386	7.818000	0.86416	2.215000	0.71742	0.462000	0.41574	GAG		0.602	MICAL3-010	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447351.1			T	18293564	C	T	18293564	3	4	571	1	0	0	0	0	1	0	0	0	9578	864	30	2	567	2	MICAL3	22	18293564	Missense_Mutation	SNP	C	TCGA-DW-7841-01A-11D-2136-08		18293564	33011002	62	33840										
AP1B1	162	hgsc.bcm.edu	37	chr22	29738275	29738275	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gggaggttggggcacccaccTgagtggccaaactgaggacc	16	11	0	2			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr22:29738275T>C	ENST00000405198.1	-	11	1566	c.1535A>G	c.(1534-1536)cAg>cGg	p.Q512R	AP1B1_ENST00000432560.2_Splice_Site_p.Q512R|AP1B1_ENST00000356015.2_Splice_Site_p.Q512R|AP1B1_ENST00000317368.7_Splice_Site_p.Q512R|AP1B1_ENST00000472057.1_5'Flank|AP1B1_ENST00000415447.1_Splice_Site_p.Q512R|AP1B1_ENST00000402502.1_Splice_Site_p.Q512R|AP1B1_ENST00000357586.2_Splice_Site_p.Q512R			Q10567	AP1B1_HUMAN	adaptor-related protein complex 1, beta 1 subunit	512					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|intracellular protein transport (GO:0006886)|membrane organization (GO:0061024)|post-Golgi vesicle-mediated transport (GO:0006892)|regulation of defense response to virus by virus (GO:0050690)|viral process (GO:0016032)	clathrin adaptor complex (GO:0030131)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|Golgi membrane (GO:0000139)|lysosomal membrane (GO:0005765)|trans-Golgi network membrane (GO:0032588)	protein kinase binding (GO:0019901)|protein transporter activity (GO:0008565)|transporter activity (GO:0005215)			endometrium(3)|large_intestine(4)|lung(8)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	22						GGCACCCACCTGAGTGGCCAA	0.587																																																0													55	49	51					22																	29738275		2203	4300	6503	SO:0001630	splice_region_variant	162			L13939	CCDS13855.1, CCDS13856.1, CCDS13856.2, CCDS54515.1	22q12.2	2010-06-18			ENSG00000100280	ENSG00000100280			554	protein-coding gene	gene with protein product		600157		ADTB1, CLAPB2		7987321, 8812422	Standard	NM_145730		Approved	BAM22, AP105A	uc003afj.3	Q10567	OTTHUMG00000151109	ENST00000405198.1:c.1536+1A>G	22.37:g.29738275T>C		Somatic		WXS	Illumina HiSeq	Phase_I	C9JRD1|F8WDL0|P78436|Q20WL3|Q86X54	Missense_Mutation	SNP	ENST00000405198.1	37	CCDS13855.1	.	.	.	.	.	.	.	.	.	.	T	15.83	2.949549	0.53186	.	.	ENSG00000100280	ENST00000357586;ENST00000356015;ENST00000432560;ENST00000405198;ENST00000317368;ENST00000402502;ENST00000415447;ENST00000421126	T;T;T;T;T;T;T;T	0.12984	2.63;2.63;2.63;2.63;2.63;2.63;2.63;2.63	5.64	5.64	0.86602	Clathrin/coatomer adaptor, adaptin-like, N-terminal (1);Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.30135	0.0755	L	0.55990	1.75	0.80722	D	1	P;B;B;P;P	0.47302	0.486;0.037;0.033;0.893;0.638	P;B;B;P;B	0.58331	0.837;0.145;0.035;0.801;0.387	T	0.00653	-1.1625	10	0.54805	T	0.06	-21.1529	15.5235	0.75885	0.0:0.0:0.0:1.0	.	65;512;512;512;512	B4DS79;F8WDL0;Q10567-2;Q10567;Q10567-3	.;.;.;AP1B1_HUMAN;.	R	512	ENSP00000350199:Q512R;ENSP00000348297:Q512R;ENSP00000400065:Q512R;ENSP00000384194:Q512R;ENSP00000319361:Q512R;ENSP00000386071:Q512R;ENSP00000387612:Q512R;ENSP00000400022:Q512R	ENSP00000319361:Q512R	Q	-	2	0	AP1B1	28068275	1.000000	0.71417	0.999000	0.59377	0.363000	0.29612	7.961000	0.87903	2.145000	0.66743	0.460000	0.39030	CAG		0.587	AP1B1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000321374.1	NM_001127	Missense_Mutation	C	29738275	T	C	29738275	5	2	571	1	0	0	0	0	0	0	1	0	731	1594	55	3	1362	3	AP1B1	22	29738275	Splice_Site	SNP	T	TCGA-DW-7841-01A-11D-2136-08	11444711	29738275	21566291	63	33841										
SEC14L2	23541	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	30805476	30805477	+	Splice_Site	INS	-	-	T													0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	cgtctttttgttgttaaaggINStaagttgggaatttcttgtg							TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr22:30805476_30805477insT	ENST00000312932.9	+	7	840		c.e7+1		SEC14L2_ENST00000402592.3_Splice_Site|SEC14L2_ENST00000405717.3_Splice_Site|RP4-539M6.19_ENST00000439838.1_Splice_Site|SEC14L2_ENST00000403484.1_Splice_Site	NM_012429.3	NP_036561.1	O76054	S14L2_HUMAN	SEC14-like 2 (S. cerevisiae)						positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cholesterol biosynthetic process (GO:0045540)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	phospholipid binding (GO:0005543)|transporter activity (GO:0005215)|vitamin E binding (GO:0008431)			haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(5)|skin(1)|urinary_tract(1)	10					Vitamin E(DB00163)	GTTGTTAAAGGTAAGTTGGGAA	0.436																																																0																																										SO:0001630	splice_region_variant	23541			AL096881	CCDS13876.1, CCDS46685.1, CCDS56228.1	22q12.2	2010-08-19	2001-11-28		ENSG00000100003	ENSG00000100003			10699	protein-coding gene	gene with protein product	"supernatant protein factor"	607558	"SEC14 (S. cerevisiae)-like 2"	C22orf6		10591208	Standard	NM_033382		Approved	TAP, SPF, KIAA1186, KIAA1658	uc003ahr.3	O76054	OTTHUMG00000151024	ENST00000312932.9:c.580+1->T	22.37:g.30805477_30805477dupT		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8Q1|F5H3U4|Q53EQ2|Q6PD61|Q9ULN4	Splice_Site	INS	ENST00000312932.9	37	CCDS13876.1																																																																																				0.436	SEC14L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321018.4	NM_012429	Intron	T	30805477	-	T	30805476	8	5	571	1	0	1	1	0	0	0	1	0	13995	1275	44	0	607	0	SEC14L2	22	30805476	Splice_Site	INS	-	TCGA-DW-7841-01A-11D-2136-08	1067201	30805476	20499090	64	33842										
MEI1	150365	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	42154472	42154472	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gatcgccagtacatggagggAgctgctcgccagagacagta	14	10	0	1			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr22:42154472A>C	ENST00000401548.3	+	18	2095	c.2055A>C	c.(2053-2055)ggA>ggC	p.G685G	MEI1_ENST00000540880.1_Silent_p.G3G|MEI1_ENST00000540833.1_Silent_p.G425G|MEI1_ENST00000400107.1_Silent_p.G53G|MEI1_ENST00000300398.4_5'UTR	NM_152513.3	NP_689726.3			meiosis inhibitor 1											breast(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(7)|lung(10)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	30						ACATGGAGGGAGCTGCTCGCC	0.582																																																0													56	58	57					22																	42154472		2038	4190	6228	SO:0001819	synonymous_variant	150365			AK092934	CCDS46718.1	22q13.2	2013-10-11			ENSG00000167077	ENSG00000167077			28613	protein-coding gene	gene with protein product	"spermatogenesis associated 38"	608797				16683055	Standard	XM_006724154		Approved	MGC40042, SPATA38	uc003baz.1	Q5TIA1	OTTHUMG00000030083	ENST00000401548.3:c.2055A>C	22.37:g.42154472A>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000401548.3	37	CCDS46718.1																																																																																				0.582	MEI1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000074937.3	NM_152513		C	42154472	A	C	42154472	2	2	571	1	0	0	0	0	0	0	0	1	9472	291	11	5		5	MEI1	22	42154472	Silent	SNP	A	TCGA-DW-7841-01A-11D-2136-08	11348996	42154472	9150094	65	33843										
POLDIP3	84271	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	43010826	43010826	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	gtcctttcgccgccgccccgCgcttcctgatgagttcgtcc	10	18	0	2			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr22:43010826C>T	ENST00000252115.5	-	1	142	c.38G>A	c.(37-39)cGc>cAc	p.R13H	RNU12_ENST00000362512.1_lincRNA|POLDIP3_ENST00000348657.2_Missense_Mutation_p.R13H|POLDIP3_ENST00000339677.6_Missense_Mutation_p.R13H	NM_032311.3	NP_115687.2	Q9BY77	PDIP3_HUMAN	polymerase (DNA-directed), delta interacting protein 3	13					poly(A)+ mRNA export from nucleus (GO:0016973)|positive regulation of translation (GO:0045727)	cytoplasm (GO:0005737)|nuclear speck (GO:0016607)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			biliary_tract(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(3)|upper_aerodigestive_tract(1)	16						CGCCGCCCCGCGCTTCCTGAT	0.667																																					Ovarian(52;967 1128 5875 19997 42537)											0													45	50	48					22																	43010826		2203	4300	6503	SO:0001583	missense	84271				CCDS14038.1, CCDS14039.1, CCDS74873.1	22q13.31	2013-02-12			ENSG00000100227	ENSG00000100227		"RNA binding motif (RRM) containing"	23782	protein-coding gene	gene with protein product		611520				12522211	Standard	NM_032311		Approved	PDIP46, KIAA1649	uc003bcu.3	Q9BY77	OTTHUMG00000150887	ENST00000252115.5:c.38G>A	22.37:g.43010826C>T	ENSP00000252115:p.Arg13His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6F8|A8K6V9|Q009A7|Q5H972|Q6PGN6|Q7Z6Z0|Q9NSP5|Q9NSP6	Missense_Mutation	SNP	ENST00000252115.5	37	CCDS14038.1	.	.	.	.	.	.	.	.	.	.	C	34	5.316914	0.95682	.	.	ENSG00000100227	ENST00000348657;ENST00000252115;ENST00000415122;ENST00000339677;ENST00000452567	.	.	.	4.4	4.4	0.53042	.	0.000000	0.85682	D	0.000000	T	0.76506	0.3997	L	0.59436	1.845	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.87578	0.974;0.998;0.992;0.965	T	0.79654	-0.1713	9	0.87932	D	0	-17.6392	17.5459	0.87861	0.0:1.0:0.0:0.0	.	13;13;13;13	B4E0L0;Q6R954;Q9BY77-2;Q9BY77	.;.;.;PDIP3_HUMAN	H	13	.	ENSP00000252115:R13H	R	-	2	0	POLDIP3	41340770	1.000000	0.71417	1.000000	0.80357	0.958000	0.62258	5.800000	0.69108	2.439000	0.82584	0.557000	0.71058	CGC		0.667	POLDIP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320433.1	NM_032311		T	43010826	C	T	43010826	3	4	571	1	0	0	0	0	1	0	0	0	12202	768	27	1	1263	1	POLDIP3	22	43010826	Missense_Mutation	SNP	C	TCGA-DW-7841-01A-11D-2136-08	856354	43010826	8293740	66	33844										
MCAT	27349	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	43533107	43533107	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0461538461538462	3	1	1.12147058823529	1.55759803921569	0.98374613003096	1	1	0	ctcttggtgtcctgaaatcaCcctgcaatctggaaagaggt	10	10	3	2			TCGA-DW-7841-01A-11D-2136-08	TCGA-DW-7841-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aa4db950-5986-4268-9554-23eeace63f53	77e5cfbb-e4ce-45f5-98d2-46ee8a5598ea	g.chr22:43533107C>T	ENST00000290429.6	-	3	754	c.709G>A	c.(709-711)Gtg>Atg	p.V237M	MCAT_ENST00000327555.5_Intron	NM_173467.4	NP_775738.3	Q8IVS2	FABD_HUMAN	malonyl CoA:ACP acyltransferase (mitochondrial)	237					fatty acid biosynthetic process (GO:0006633)|metabolic process (GO:0008152)	mitochondrion (GO:0005739)	[acyl-carrier-protein] S-malonyltransferase activity (GO:0004314)|poly(A) RNA binding (GO:0044822)|transferase activity (GO:0016740)			breast(1)|endometrium(3)|large_intestine(2)|lung(3)|ovary(1)|urinary_tract(1)	11		Ovarian(80;0.0694)				CCTGAAATCACCCTGCAATCT	0.532											OREG0026613	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													194	185	188					22																	43533107		2203	4300	6503	SO:0001583	missense	27349			AL359401	CCDS14045.1, CCDS33660.1	22q13.2	2010-04-27			ENSG00000100294	ENSG00000100294	2.3.1.39		29622	protein-coding gene	gene with protein product		614479				12882974	Standard	NM_173467		Approved	MT, MCT, fabD, FASN2C, NET62	uc003bdl.1	Q8IVS2	OTTHUMG00000150704	ENST00000290429.6:c.709G>A	22.37:g.43533107C>T	ENSP00000290429:p.Val237Met	Somatic	917	WXS	Illumina HiSeq	Phase_I	B0QY72|O95510|O95511	Missense_Mutation	SNP	ENST00000290429.6	37	CCDS33660.1	.	.	.	.	.	.	.	.	.	.	C	25.7	4.667793	0.88348	.	.	ENSG00000100294	ENST00000290429	T	0.52295	0.67	5.13	5.13	0.70059	Acyl transferase/acyl hydrolase/lysophospholipase (1);Malonyl-CoA ACP transacylase, ACP-binding (1);Acyl transferase (1);	0.000000	0.85682	D	0.000000	T	0.80859	0.4704	H	0.97365	3.99	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.88241	0.2910	10	0.87932	D	0	-25.5062	18.5829	0.91178	0.0:1.0:0.0:0.0	.	237	Q8IVS2	FABD_HUMAN	M	237	ENSP00000290429:V237M	ENSP00000290429:V237M	V	-	1	0	MCAT	41863051	1.000000	0.71417	1.000000	0.80357	0.973000	0.67179	7.277000	0.78572	2.387000	0.81309	0.591000	0.81541	GTG		0.532	MCAT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319677.2	NM_173467		T	43533107	C	T	43533107	3	4	571	1	0	0	0	0	1	0	0	0	9379	507	18	2	471	2	MCAT	22	43533107	Missense_Mutation	SNP	C	TCGA-DW-7841-01A-11D-2136-08	522281	43533107	7771459	67	33845										
KIAA1522	57648	ucsc.edu;bcgsc.ca	37	chr1	33236309	33236309	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	gacccactccctccatcagcGgggcttagcagtgcctgatg	11	15	1	1	rs370409288		TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr1:33236309G>A	ENST00000373480.1	+	6	1455	c.1352G>A	c.(1351-1353)cGg>cAg	p.R451Q	KIAA1522_ENST00000401073.2_Missense_Mutation_p.R510Q|KIAA1522_ENST00000294521.3_Intron|KIAA1522_ENST00000373481.3_Missense_Mutation_p.R462Q	NM_001198972.1	NP_001185901.1	Q9P206	K1522_HUMAN	KIAA1522	451	Pro-rich.									breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(2)|lung(5)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	24		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				CTCCATCAGCGGGGCTTAGCA	0.657													G|||	1	0.000199681	0.0	0.0	5008	,	,		15500	0.001		0.0	False		,,,				2504	0.0															0								G	GLN/ARG,GLN/ARG,	0,4066		0,0,2033	16	19	18		1352,1529,	3.6	1	1		18	1,8363		0,1,4181	no	missense,missense,intron	KIAA1522	NM_001198972.1,NM_020888.2,NM_001198973.1	43,43,	0,1,6214	AA,AG,GG		0.012,0.0,0.0080	possibly-damaging,possibly-damaging,	451/1036,510/1095,	33236309	1,12429	2033	4182	6215	SO:0001583	missense	57648			AL713671	CCDS41298.1, CCDS55588.1, CCDS55589.1	1p35.1	2009-02-18			ENSG00000162522	ENSG00000162522			29301	protein-coding gene	gene with protein product						10819331	Standard	NM_020888		Approved		uc001bvu.1	Q9P206	OTTHUMG00000008088	ENST00000373480.1:c.1352G>A	1.37:g.33236309G>A	ENSP00000362579:p.Arg451Gln	Somatic		WXS	Illumina HiSeq		B4DQU8|B5MDY0|C9JH84|Q8TCQ0	Missense_Mutation	SNP	ENST00000373480.1	37	CCDS55588.1	.	.	.	.	.	.	.	.	.	.	G	13.66	2.302446	0.40694	0.0	1.2E-4	ENSG00000162522	ENST00000401073;ENST00000373481;ENST00000373480	T;T;T	0.12879	2.64;2.65;2.66	4.55	3.56	0.40772	.	0.231822	0.29529	N	0.011887	T	0.07324	0.0185	L	0.41236	1.265	0.25554	N	0.987056	P;P;P	0.37997	0.614;0.614;0.614	B;B;B	0.26770	0.073;0.073;0.073	T	0.24190	-1.0167	10	0.33141	T	0.24	-12.1615	2.7924	0.05392	0.2252:0.0:0.5308:0.244	.	462;451;510	Q9P206-3;Q9P206;Q9P206-2	.;K1522_HUMAN;.	Q	510;462;451	ENSP00000383851:R510Q;ENSP00000362580:R462Q;ENSP00000362579:R451Q	ENSP00000362579:R451Q	R	+	2	0	KIAA1522	33008896	0.998000	0.40836	1.000000	0.80357	0.923000	0.55619	1.042000	0.30303	2.225000	0.72522	0.462000	0.41574	CGG		0.657	KIAA1522-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000022130.1			A	33236309	G	A	33236309	3	1	572	1	0	0	0	0	1	0	0	0	8245	1116	39	1	1551	1	KIAA1522	1	33236309	Missense_Mutation	SNP	G	TCGA-DW-7842-01A-11D-2136-08		33236309	216014312	1	33846										
FOXE3	2301	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	47882415	47882415	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	gggcaacccgggcaagggcaActactggacgctggaccccg	15	14	0	0			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr1:47882415A>C	ENST00000335071.2	+	1	672	c.428A>C	c.(427-429)aAc>aCc	p.N143T		NM_012186.2	NP_036318.1	Q13461	FOXE3_HUMAN	forkhead box E3	143					camera-type eye development (GO:0043010)|cell development (GO:0048468)|positive regulation of epithelial cell proliferation (GO:0050679)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)|transcription factor complex (GO:0005667)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			lung(3)|prostate(1)|upper_aerodigestive_tract(1)	5				READ - Rectum adenocarcinoma(2;0.0908)		GGCAAGGGCAACTACTGGACG	0.687																																																0													41	43	43					1																	47882415		2203	4299	6502	SO:0001583	missense	2301			AF275722	CCDS550.1	1p32	2008-02-05			ENSG00000186790	ENSG00000186790		"Forkhead boxes"	3808	protein-coding gene	gene with protein product		601094		FKHL12		8825632	Standard	NM_012186		Approved	FREAC8	uc001crk.3	Q13461	OTTHUMG00000007954	ENST00000335071.2:c.428A>C	1.37:g.47882415A>C	ENSP00000334472:p.Asn143Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SVY9|Q9NQV9	Missense_Mutation	SNP	ENST00000335071.2	37	CCDS550.1	.	.	.	.	.	.	.	.	.	.	a	20.1	3.934136	0.73442	.	.	ENSG00000186790	ENST00000335071	D	0.95518	-3.73	3.45	3.45	0.39498	Winged helix-turn-helix transcription repressor DNA-binding (1);Transcription factor, fork head (3);	0.000000	0.41097	U	0.000952	D	0.97467	0.9171	M	0.87328	2.875	0.54753	D	0.999982	D	0.71674	0.998	D	0.70487	0.969	D	0.97641	1.0148	10	0.62326	D	0.03	.	12.082	0.53675	1.0:0.0:0.0:0.0	.	143	Q13461	FOXE3_HUMAN	T	143	ENSP00000334472:N143T	ENSP00000334472:N143T	N	+	2	0	FOXE3	47655002	1.000000	0.71417	1.000000	0.80357	0.824000	0.46624	3.748000	0.55142	1.427000	0.47276	0.373000	0.22412	AAC		0.687	FOXE3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000021836.1	NM_012186		C	47882415	A	C	47882415	3	2	572	1	0	0	0	0	1	0	0	0	6011	43	2	5	430	5	FOXE3	1	47882415	Missense_Mutation	SNP	A	TCGA-DW-7842-01A-11D-2136-08	14646106	47882415	201368206	2	33847										
BCAR3	8412	hgsc.bcm.edu	37	chr1	94054978	94054978	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	gcacaaggttttcagacaccTttgggacaaaaaggtgagtg	12	7	1	2			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr1:94054978T>C	ENST00000370244.1	-	7	775		c.e7-2		RP5-1033H22.2_ENST00000417401.1_RNA|RP5-1033H22.2_ENST00000431770.1_RNA|RP5-1033H22.2_ENST00000427243.1_RNA|BCAR3_ENST00000370247.3_Splice_Site|BCAR3_ENST00000370243.1_Splice_Site|BCAR3_ENST00000260502.6_Splice_Site	NM_001261408.1	NP_001248337.1	O75815	BCAR3_HUMAN	breast cancer anti-estrogen resistance 3						lens morphogenesis in camera-type eye (GO:0002089)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|response to drug (GO:0042493)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)		guanyl-nucleotide exchange factor activity (GO:0005085)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(3)|lung(11)|ovary(1)|prostate(1)|skin(1)	25		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)		TTCAGACACCTTTGGGACAAA	0.483																																																0													41	41	41					1																	94054978		2203	4300	6503	SO:0001630	splice_region_variant	8412			U92715	CCDS745.1, CCDS58010.1	1p22.1	2013-02-14			ENSG00000137936	ENSG00000137936		"SH2 domain containing"	973	protein-coding gene	gene with protein product		604704				9582273	Standard	NM_001261408		Approved	NSP2, SH2D3B	uc001dpz.4	O75815	OTTHUMG00000010301	ENST00000370244.1:c.487-2A>G	1.37:g.94054978T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DT43|Q5TEW3|Q6UW40|Q9BR50	Splice_Site	SNP	ENST00000370244.1	37	CCDS745.1	.	.	.	.	.	.	.	.	.	.	T	10.82	1.458136	0.26161	.	.	ENSG00000137936	ENST00000370247;ENST00000260502;ENST00000370244;ENST00000370243	.	.	.	5.1	5.1	0.69264	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.7375	0.62827	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	BCAR3	93827566	1.000000	0.71417	0.996000	0.52242	0.119000	0.20118	7.280000	0.78610	2.052000	0.61016	0.533000	0.62120	.		0.483	BCAR3-003	NOVEL	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000028420.1		Intron	C	94054978	T	C	94054978	5	2	572	1	0	0	0	0	0	0	1	0	1349	1623	56	3	2024	3	BCAR3	1	94054978	Splice_Site	SNP	T	TCGA-DW-7842-01A-11D-2136-08	46172563	94054978	155195643	3	33848										
SYPL2	284612	ucsc.edu	37	chr1	110022091	110022091	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	tggacagggccagggccaggAccaggaccaggaccaggacc	16	13	0	0	rs201865079	byFrequency	TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr1:110022091A>G	ENST00000369872.3	+	6	956	c.740A>G	c.(739-741)gAc>gGc	p.D247G	SYPL2_ENST00000401021.3_Missense_Mutation_p.D183G	NM_001040709.1	NP_001035799.1	Q5VXT5	SYPL2_HUMAN	synaptophysin-like 2	247					cellular calcium ion homeostasis (GO:0006874)|substantia nigra development (GO:0021762)	integral component of synaptic vesicle membrane (GO:0030285)	transporter activity (GO:0005215)			breast(1)|kidney(1)|large_intestine(4)|lung(7)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	16		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)		cagggccaggaccaggaccag	0.602													A|||	11	0.00219649	0.0	0.0014	5008	,	,		16187	0.0		0.0	False		,,,				2504	0.0102															0								A	GLY/ASP	3,4047		0,3,2022	77	90	86		740	0.7	0.8	1		86	49,8357		0,49,4154	yes	missense	SYPL2	NM_001040709.1	94	0,52,6176	GG,GA,AA		0.5829,0.0741,0.4175	benign	247/273	110022091	52,12404	2025	4203	6228	SO:0001583	missense	284612			AK131459	CCDS41365.1	1p13.3	2008-02-05			ENSG00000143028	ENSG00000143028			27638	protein-coding gene	gene with protein product	"mitsugumin-29"					12975309	Standard	NM_001040709		Approved	Mg29	uc001dxp.3	Q5VXT5	OTTHUMG00000010969	ENST00000369872.3:c.740A>G	1.37:g.110022091A>G	ENSP00000358888:p.Asp247Gly	Somatic		WXS	Illumina HiSeq		A8K0E8|A8KAL7|I0IT67|Q6ZMX1	Missense_Mutation	SNP	ENST00000369872.3	37	CCDS41365.1	14	0.00641025641025641	0	0.0	4	0.011049723756906077	0	0.0	10	0.013192612137203167	A	6.239	0.412302	0.11812	7.41E-4	0.005829	ENSG00000143028	ENST00000401021;ENST00000369872	T	0.30714	1.52	0.736	0.736	0.18307	.	1.039220	0.07570	N	0.918460	T	0.06371	0.0164	N	0.08118	0	0.22552	N	0.998991	P;P	0.43392	0.805;0.805	P;P	0.47134	0.539;0.539	T	0.14811	-1.0459	10	0.17832	T	0.49	.	3.6722	0.08279	1.0:0.0:0.0:0.0	.	183;247	B4DYR7;Q5VXT5	.;SYPL2_HUMAN	G	183;247	ENSP00000358888:D247G	ENSP00000358888:D247G	D	+	2	0	SYPL2	109823614	0.999000	0.42202	0.830000	0.32933	0.496000	0.33645	0.643000	0.24750	0.115000	0.18071	0.113000	0.15668	GAC		0.602	SYPL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030191.1	NM_001006603		G	110022091	A	G	110022091	3	3	572	1	0	0	0	0	1	0	0	0	15475	275	10	3	762	3	SYPL2	1	110022091	Missense_Mutation	SNP	A	TCGA-DW-7842-01A-11D-2136-08	15967113	110022091	139228530	4	33849										
PEA15	8682	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	160181403	160181403	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	cttgaagatctagaacagctCaagtcggcctgcaaggaaga	11	9	2	4			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr1:160181403C>A	ENST00000360472.4	+	2	257	c.69C>A	c.(67-69)ctC>ctA	p.L23L	PEA15_ENST00000368077.1_Silent_p.L23L|RP11-536C5.7_ENST00000418602.1_RNA|PEA15_ENST00000368076.1_Silent_p.L44L|PEA15_ENST00000488858.1_3'UTR	NM_003768.3	NP_003759.1	Q15121	PEA15_HUMAN	phosphoprotein enriched in astrocytes 15	23	DED. {ECO:0000255|PROSITE- ProRule:PRU00065}.				apoptotic process (GO:0006915)|carbohydrate transport (GO:0008643)|DNA damage checkpoint (GO:0000077)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|negative regulation of glucose import (GO:0046325)|positive regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902043)|response to morphine (GO:0043278)|transport (GO:0006810)	cytoplasm (GO:0005737)|microtubule associated complex (GO:0005875)				large_intestine(1)|lung(4)	5	all_cancers(52;3.11e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TAGAACAGCTCAAGTCGGCCT	0.542																																																0													135	112	120					1																	160181403		2203	4300	6503	SO:0001819	synonymous_variant	8682			Y13736	CCDS1199.1, CCDS72954.1	1q21.1	2008-07-18			ENSG00000162734	ENSG00000162734			8822	protein-coding gene	gene with protein product	"Phosphoprotein enriched in astrocytes, 15kD", "homolog of mouse MAT-1 oncogene"	603434				9205133	Standard	XM_005245564		Approved	HMAT1, MAT1, PED, PEA-15, MAT1H, HUMMAT1H	uc001fvk.3	Q15121	OTTHUMG00000031605	ENST00000360472.4:c.69C>A	1.37:g.160181403C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B1AKZ3|O00511	Silent	SNP	ENST00000360472.4	37	CCDS1199.1																																																																																				0.542	PEA15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077407.1	NM_003768		A	160181403	C	A	160181403	2	1	572	1	0	0	0	0	0	0	0	1	11718	813	29	4		4	PEA15	1	160181403	Silent	SNP	C	TCGA-DW-7842-01A-11D-2136-08	50159312	160181403	89069218	5	33850										
DENND1B	163486	hgsc.bcm.edu	37	chr1	197684159	197684159	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	taaaaaattatgtggtaccaAcctggtctccaaagtcctct	6	10	2	0			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr1:197684159A>G	ENST00000367396.3	-	3	296		c.e3+1		DENND1B_ENST00000235453.4_Splice_Site|DENND1B_ENST00000400967.2_Splice_Site	NM_144977.4	NP_659414.2	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B						positive regulation of Rab GTPase activity (GO:0032851)|protein transport (GO:0015031)	cytoplasmic vesicle (GO:0031410)	Rab guanyl-nucleotide exchange factor activity (GO:0017112)			NS(2)|breast(2)|kidney(2)|large_intestine(3)|lung(12)|upper_aerodigestive_tract(1)	22						tGTGGTACCAACCTGGTCTCC	0.328																																																0													56	54	55					1																	197684159		1808	4072	5880	SO:0001630	splice_region_variant	163486			BC016588	CCDS41452.2, CCDS72996.1, CCDS72997.1	1q31.3	2012-10-03	2005-08-17	2005-08-17	ENSG00000213047	ENSG00000213047		"DENN/MADD domain containing"	28404	protein-coding gene	gene with protein product		613292	"family with sequence similarity 31, member B", "chromosome 1 open reading frame 218"	FAM31B, C1orf218		12477932	Standard	NM_144977		Approved	MGC27044, FLJ20054	uc021pgu.1	Q6P3S1	OTTHUMG00000035653	ENST00000367396.3:c.126+1T>C	1.37:g.197684159A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B5MD89|D3PFD5|Q5T3B8|Q5T3B9|Q5T3C1|Q5TAI8|Q6B0I8|Q8NDT1|Q8TBE6|Q9H774|Q9NXU2	Splice_Site	SNP	ENST00000367396.3	37	CCDS41452.2	.	.	.	.	.	.	.	.	.	.	A	19.22	3.785719	0.70337	.	.	ENSG00000213047	ENST00000542760;ENST00000450419;ENST00000235453;ENST00000367396;ENST00000400967	.	.	.	5.43	5.43	0.79202	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.3422	0.66636	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	DENND1B	195950782	1.000000	0.71417	0.999000	0.59377	0.838000	0.47535	7.530000	0.81962	2.185000	0.69588	0.455000	0.32223	.		0.328	DENND1B-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086539.1	NM_144977	Intron	G	197684159	A	G	197684159	5	3	572	1	0	0	0	0	0	0	1	0	4429	57	2	3	2324	3	DENND1B	1	197684159	Splice_Site	SNP	A	TCGA-DW-7842-01A-11D-2136-08	37502756	197684159	51566462	6	33851										
APOB	338	bcgsc.ca	37	chr2	21232458	21232458	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	ctggtggtaatcaaatgactTtaatttctttatcaacatgt	6	6	3	1			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr2:21232458T>G	ENST00000233242.1	-	26	7409	c.7282A>C	c.(7282-7284)Aag>Cag	p.K2428Q		NM_000384.2	NP_000375	P04114	APOB_HUMAN	apolipoprotein B	2428					artery morphogenesis (GO:0048844)|blood coagulation (GO:0007596)|cellular response to prostaglandin stimulus (GO:0071379)|cellular response to tumor necrosis factor (GO:0071356)|cholesterol efflux (GO:0033344)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|cholesterol transport (GO:0030301)|fertilization (GO:0009566)|in utero embryonic development (GO:0001701)|leukocyte migration (GO:0050900)|lipoprotein biosynthetic process (GO:0042158)|lipoprotein catabolic process (GO:0042159)|lipoprotein metabolic process (GO:0042157)|lipoprotein transport (GO:0042953)|low-density lipoprotein particle clearance (GO:0034383)|low-density lipoprotein particle remodeling (GO:0034374)|nervous system development (GO:0007399)|phototransduction, visible light (GO:0007603)|positive regulation of cholesterol storage (GO:0010886)|positive regulation of lipid storage (GO:0010884)|positive regulation of macrophage derived foam cell differentiation (GO:0010744)|post-embryonic development (GO:0009791)|receptor-mediated endocytosis (GO:0006898)|regulation of cholesterol biosynthetic process (GO:0045540)|response to carbohydrate (GO:0009743)|response to lipopolysaccharide (GO:0032496)|response to selenium ion (GO:0010269)|response to virus (GO:0009615)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)|sperm motility (GO:0030317)|spermatogenesis (GO:0007283)|triglyceride catabolic process (GO:0019433)|triglyceride mobilization (GO:0006642)|very-low-density lipoprotein particle assembly (GO:0034379)	actin cytoskeleton (GO:0015629)|chylomicron (GO:0042627)|chylomicron remnant (GO:0034360)|clathrin-coated endocytic vesicle membrane (GO:0030669)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|early endosome (GO:0005769)|endocytic vesicle lumen (GO:0071682)|endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum membrane (GO:0005789)|endosome lumen (GO:0031904)|endosome membrane (GO:0010008)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|intermediate-density lipoprotein particle (GO:0034363)|intracellular membrane-bounded organelle (GO:0043231)|low-density lipoprotein particle (GO:0034362)|mature chylomicron (GO:0034359)|plasma membrane (GO:0005886)|very-low-density lipoprotein particle (GO:0034361)	cholesterol transporter activity (GO:0017127)|heparin binding (GO:0008201)|lipase binding (GO:0035473)|low-density lipoprotein particle receptor binding (GO:0050750)|phospholipid binding (GO:0005543)			NS(5)|autonomic_ganglia(1)|breast(6)|central_nervous_system(4)|cervix(3)|endometrium(19)|kidney(10)|large_intestine(63)|liver(5)|lung(125)|ovary(16)|pancreas(1)|prostate(5)|skin(31)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(6)	305	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCAAATGACTTTAATTTCTTT	0.338																																																0													76	74	75					2																	21232458		2203	4300	6503	SO:0001583	missense	338			M14162	CCDS1703.1	2p24-p23	2013-05-29	2013-05-29		ENSG00000084674	ENSG00000084674		"Apolipoproteins"	603	protein-coding gene	gene with protein product		107730	"apolipoprotein B (including Ag(x) antigen)"				Standard	NM_000384		Approved		uc002red.3	P04114	OTTHUMG00000090785	ENST00000233242.1:c.7282A>C	2.37:g.21232458T>G	ENSP00000233242:p.Lys2428Gln	Somatic		WXS	Illumina HiSeq	Phase_1	O00502|P78479|P78480|P78481|Q13779|Q13785|Q13786|Q13787|Q13788|Q4ZG63|Q53QC8|Q7Z600|Q9UMN0	Missense_Mutation	SNP	ENST00000233242.1	37	CCDS1703.1	.	.	.	.	.	.	.	.	.	.	T	11.80	1.746669	0.30955	.	.	ENSG00000084674	ENST00000233242;ENST00000535079	T	0.00976	5.48	5.49	1.64	0.23874	.	0.368885	0.23635	N	0.046088	T	0.01061	0.0035	L	0.43152	1.355	0.09310	N	0.999995	B	0.17038	0.02	B	0.13407	0.009	T	0.44590	-0.9318	10	0.44086	T	0.13	.	8.4238	0.32716	0.0:0.0716:0.2644:0.664	.	2428	P04114	APOB_HUMAN	Q	2428	ENSP00000233242:K2428Q	ENSP00000233242:K2428Q	K	-	1	0	APOB	21085963	0.794000	0.28838	0.972000	0.41901	0.981000	0.71138	2.774000	0.47694	0.870000	0.35726	0.459000	0.35465	AAG		0.338	APOB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207571.1			G	21232458	T	G	21232458	3	3	572	1	0	0	0	0	1	0	0	0	785	1850	64	5	6425	5	APOB	2	21232458	Missense_Mutation	SNP	T	TCGA-DW-7842-01A-11D-2136-08		21232458	221966915	7	33852										
PROM2	150696	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	95941238	95941238	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	aggccctactgaatgagctgGcctccgtgaaggtgaatgag	14	9	0	5			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr2:95941238G>A	ENST00000317620.9	+	2	407	c.274G>A	c.(274-276)Gcc>Acc	p.A92T	PROM2_ENST00000542147.1_Missense_Mutation_p.A92T|PROM2_ENST00000403131.2_Missense_Mutation_p.A92T|PROM2_ENST00000317668.4_Missense_Mutation_p.A92T|PROM2_ENST00000463580.1_3'UTR	NM_001165978.1	NP_001159450.1	Q8N271	PROM2_HUMAN	prominin 2	92					negative regulation of caveolin-mediated endocytosis (GO:2001287)|negative regulation of pinocytosis (GO:0048550)|positive regulation of cell projection organization (GO:0031346)|positive regulation of protein phosphorylation (GO:0001934)|regulation of Cdc42 GTPase activity (GO:0043088)	cell projection (GO:0042995)|cell surface (GO:0009986)|cilium (GO:0005929)|cytoplasmic vesicle (GO:0031410)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|microspike (GO:0044393)|microvillus (GO:0005902)|prominosome (GO:0071914)	cholesterol binding (GO:0015485)			breast(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(8)|lung(12)|ovary(3)|prostate(1)|skin(1)|urinary_tract(1)	32						GAATGAGCTGGCCTCCGTGAA	0.602																																																0													99	87	91					2																	95941238		2203	4300	6503	SO:0001583	missense	150696			AF245303	CCDS2012.1	2q11.1	2008-02-05			ENSG00000155066	ENSG00000155066			20685	protein-coding gene	gene with protein product						12514187	Standard	NM_001165978		Approved		uc002sui.3	Q8N271	OTTHUMG00000130393	ENST00000317620.9:c.274G>A	2.37:g.95941238G>A	ENSP00000318270:p.Ala92Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2V1|Q2HIX6|Q8NB84|Q8TAE2	Missense_Mutation	SNP	ENST00000317620.9	37	CCDS2012.1	.	.	.	.	.	.	.	.	.	.	G	13.29	2.194115	0.38707	.	.	ENSG00000155066	ENST00000403131;ENST00000317668;ENST00000317620;ENST00000542147	T;T;T;T	0.42900	0.96;0.96;0.96;0.96	4.57	-4.2	0.03823	.	1.178410	0.06360	N	0.711489	T	0.34077	0.0885	L	0.44542	1.39	0.09310	N	1	P	0.43578	0.811	B	0.40602	0.334	T	0.37079	-0.9721	10	0.14252	T	0.57	-1.8729	15.0393	0.71777	0.0:0.0:0.1886:0.8114	.	92	Q8N271	PROM2_HUMAN	T	92	ENSP00000385716:A92T;ENSP00000318520:A92T;ENSP00000318270:A92T;ENSP00000442542:A92T	ENSP00000318270:A92T	A	+	1	0	PROM2	95304965	0.000000	0.05858	0.001000	0.08648	0.580000	0.36256	-2.235000	0.01202	-0.468000	0.06922	0.462000	0.41574	GCC		0.602	PROM2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252771.1	NM_144707		A	95941238	G	A	95941238	3	1	572	1	0	0	0	0	1	0	0	0	12566	1203	42	2	280	2	PROM2	2	95941238	Missense_Mutation	SNP	G	TCGA-DW-7842-01A-11D-2136-08	74708780	95941238	147258135	8	33853										
ATG16L1	55054	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	234173559	234173559	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	attgcagaatgtttgcagacTatctctgacctggagacgga	11	8	1	4			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr2:234173559T>C	ENST00000392017.4	+	5	668	c.411T>C	c.(409-411)acT>acC	p.T137T	ATG16L1_ENST00000347464.5_Intron|ATG16L1_ENST00000392018.1_Silent_p.T137T|ATG16L1_ENST00000392020.4_Silent_p.T137T|ATG16L1_ENST00000373525.5_Intron	NM_001190266.1|NM_001190267.1|NM_030803.6	NP_001177195.1|NP_001177196.1|NP_110430.5	Q676U5	A16L1_HUMAN	autophagy related 16-like 1 (S. cerevisiae)	137					autophagic vacuole assembly (GO:0000045)|negative stranded viral RNA replication (GO:0039689)|protein homooligomerization (GO:0051260)|protein transport (GO:0015031)	autophagic vacuole (GO:0005776)|autophagic vacuole membrane (GO:0000421)|axoneme (GO:0005930)	identical protein binding (GO:0042802)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(5)|lung(7)|prostate(3)|skin(1)	25		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0539)		Epithelial(121;1.53e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000379)|LUSC - Lung squamous cell carcinoma(224;0.00619)|Lung(119;0.00732)|GBM - Glioblastoma multiforme(43;0.11)		GTTTGCAGACTATCTCTGACC	0.527																																																0													109	97	101					2																	234173559		2203	4300	6503	SO:0001819	synonymous_variant	55054			AK000897	CCDS2502.2, CCDS2503.2, CCDS54438.1	2q37.1	2014-02-12	2012-06-06	2005-09-13	ENSG00000085978	ENSG00000085978		"WD repeat domain containing"	21498	protein-coding gene	gene with protein product		610767	"APG16 autophagy 16-like (S. cerevisiae)", "ATG16 autophagy related 16-like (S. cerevisiae)", "ATG16 autophagy related 16-like 1 (S. cerevisiae)"	APG16L, ATG16L			Standard	NM_017974		Approved	WDR30, FLJ10035, ATG16A	uc002vty.3	Q676U5	OTTHUMG00000133619	ENST00000392017.4:c.411T>C	2.37:g.234173559T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A3EXK9|A3EXL0|B6ZDH0|Q6IPN1|Q6UXW4|Q6ZVZ5|Q8NCY2|Q96JV5|Q9H619	Silent	SNP	ENST00000392017.4	37	CCDS2503.2																																																																																				0.527	ATG16L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257069.2	NM_017974		C	234173559	T	C	234173559	2	2	572	1	0	0	0	0	0	0	0	1	1091	1509	53	3		3	ATG16L1	2	234173559	Silent	SNP	T	TCGA-DW-7842-01A-11D-2136-08	138232321	234173559	9025814	9	33854										
SCRN1	9805	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr7	29994945	29994945	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	ttatcattatggcataggtcCttggaacttggtcgattgaa	10	6	1	1	rs75604334	byFrequency	TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr7:29994945C>T	ENST00000426154.1	-	3	367	c.191G>A	c.(190-192)aGg>aAg	p.R64K	SCRN1_ENST00000494620.1_5'UTR|SCRN1_ENST00000409497.1_Missense_Mutation_p.R64K|SCRN1_ENST00000409570.1_Missense_Mutation_p.R64K|SCRN1_ENST00000416113.2_5'Flank|SCRN1_ENST00000425819.2_5'UTR|SCRN1_ENST00000434476.2_Missense_Mutation_p.R84K|SCRN1_ENST00000242059.5_Missense_Mutation_p.R64K	NM_001145513.1	NP_001138985.1	Q12765	SCRN1_HUMAN	secernin 1	64					exocytosis (GO:0006887)	cytoplasm (GO:0005737)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)	dipeptidase activity (GO:0016805)			breast(2)|endometrium(3)|kidney(1)|large_intestine(1)|lung(12)|ovary(2)|prostate(2)|skin(2)	25						GGCATAGGTCCTTGGAACTTG	0.488																																																0													109	105	107					7																	29994945		2203	4300	6503	SO:0001583	missense	9805			D83777	CCDS5422.1, CCDS47567.1, CCDS47568.1	7p14.3-p14.1	2006-09-06			ENSG00000136193	ENSG00000136193			22192	protein-coding gene	gene with protein product		614965				12221138	Standard	NM_014766		Approved	KIAA0193	uc011kaa.2	Q12765	OTTHUMG00000097093	ENST00000426154.1:c.191G>A	7.37:g.29994945C>T	ENSP00000409068:p.Arg64Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0E9|B4DHM0|B4DIP5|C9JPG0|Q25QX7|Q8IWD1	Missense_Mutation	SNP	ENST00000426154.1	37	CCDS5422.1	.	.	.	.	.	.	.	.	.	.	C	5.644	0.303441	0.10678	.	.	ENSG00000136193	ENST00000242059;ENST00000426154;ENST00000409497;ENST00000434476;ENST00000421434;ENST00000438497;ENST00000409570	T;T;T;T;T;T;T	0.28666	3.37;3.37;3.37;3.35;2.36;1.63;1.6	5.7	3.89	0.44902	.	0.133460	0.52532	N	0.000069	T	0.14184	0.0343	N	0.11789	0.175	0.80722	D	1	B;B	0.02656	0.0;0.0	B;B	0.09377	0.004;0.002	T	0.09487	-1.0672	9	.	.	.	-20.2169	6.2825	0.21015	0.0:0.6834:0.0:0.3166	.	84;64	C9JPG0;Q12765	.;SCRN1_HUMAN	K	64;64;64;84;64;64;64	ENSP00000242059:R64K;ENSP00000409068:R64K;ENSP00000386872:R64K;ENSP00000388942:R84K;ENSP00000413184:R64K;ENSP00000406289:R64K;ENSP00000387052:R64K	.	R	-	2	0	SCRN1	29961470	1.000000	0.71417	0.996000	0.52242	0.879000	0.50718	1.824000	0.39072	1.426000	0.47256	0.557000	0.71058	AGG		0.488	SCRN1-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214231.2	NM_014766		T	29994945	C	T	29994945	3	4	572	1	0	0	0	0	1	0	0	0	13951	681	24	2	1077	2	SCRN1	7	29994945	Missense_Mutation	SNP	C	TCGA-DW-7842-01A-11D-2136-08		29994945	129143718	10	33855										
DOCK4	9732	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	111368503	111368503	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	tagcgggacggggcgccgcaGagtccgctcgtagacgctgt	17	12	0	2			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr7:111368503G>C	ENST00000437633.1	-	52	5984	c.5728C>G	c.(5728-5730)Ctg>Gtg	p.L1910V	DOCK4_ENST00000428084.1_Missense_Mutation_p.L1919V|DOCK4_ENST00000494651.2_Missense_Mutation_p.L793V	NM_014705.3	NP_055520.3	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1910	Pro-rich.				cell chemotaxis (GO:0060326)|positive regulation of Rac GTPase activity (GO:0032855)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)|stereocilium (GO:0032420)|stereocilium bundle (GO:0032421)	guanyl-nucleotide exchange factor activity (GO:0005085)|PDZ domain binding (GO:0030165)|Rac GTPase activator activity (GO:0030675)|Rac GTPase binding (GO:0048365)|receptor tyrosine kinase binding (GO:0030971)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(13)|lung(31)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(4)	72		Acute lymphoblastic leukemia(1;0.0441)				GGGCGCCGCAGAGTCCGCTCG	0.726																																																0													22	29	27					7																	111368503		2060	4183	6243	SO:0001583	missense	9732				CCDS47688.1	7q31.1	2007-08-07			ENSG00000128512	ENSG00000128512			19192	protein-coding gene	gene with protein product		607679				12432077, 12628187	Standard	XM_006716188		Approved	FLJ34238, KIAA0716	uc003vfx.3	Q8N1I0	OTTHUMG00000155077	ENST00000437633.1:c.5728C>G	7.37:g.111368503G>C	ENSP00000404179:p.Leu1910Val	Somatic		WXS	Illumina HiSeq	Phase_I	O14584|O94824|Q8NB45	Missense_Mutation	SNP	ENST00000437633.1	37	CCDS47688.1	.	.	.	.	.	.	.	.	.	.	G	12.75	2.033027	0.35893	.	.	ENSG00000128512	ENST00000352877;ENST00000428084;ENST00000494651;ENST00000437633;ENST00000342288	T;T;T	0.32023	1.47;1.47;1.47	5.59	3.43	0.39272	.	0.139401	0.49305	N	0.000144	T	0.15392	0.0371	N	0.19112	0.55	0.29489	N	0.855803	B;B;B;B;B;P	0.39181	0.0;0.045;0.046;0.001;0.036;0.663	B;B;B;B;B;B	0.33196	0.002;0.045;0.019;0.002;0.009;0.159	T	0.07635	-1.0762	10	0.34782	T	0.22	.	7.1126	0.25399	0.1735:0.1686:0.6579:0.0	.	779;793;1955;1910;1881;223	B7Z2K9;F5GXW1;Q149N5;Q8N1I0;Q8N1I0-2;Q8N1I0-4	.;.;.;DOCK4_HUMAN;.;.	V	1898;1919;793;1910;1869	ENSP00000410746:L1919V;ENSP00000440944:L793V;ENSP00000404179:L1910V	ENSP00000345432:L1869V	L	-	1	2	DOCK4	111155739	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	1.165000	0.31822	1.340000	0.45581	0.655000	0.94253	CTG		0.726	DOCK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338369.4	NM_014705		C	111368503	G	C	111368503	3	2	572	1	0	0	0	0	1	0	0	0	4691	933	33	4	176	4	DOCK4	7	111368503	Missense_Mutation	SNP	G	TCGA-DW-7842-01A-11D-2136-08	81373558	111368503	47770160	11	33856										
GALNT11	63917	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	151805279	151805279	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	ctacagctcgtcccctgtcgTccgcggagggttcaactggg	13	14	1	0			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr7:151805279T>C	ENST00000434507.1	+	8	1306	c.869T>C	c.(868-870)gTc>gCc	p.V290A	GALNT11_ENST00000452146.2_Missense_Mutation_p.V209A|GALNT11_ENST00000430044.2_Missense_Mutation_p.V290A|GALNT11_ENST00000422997.2_3'UTR|GALNT11_ENST00000320311.2_Missense_Mutation_p.V290A			Q8NCW6	GLT11_HUMAN	polypeptide N-acetylgalactosaminyltransferase 11	290					cellular protein metabolic process (GO:0044267)|cilium morphogenesis (GO:0060271)|determination of left/right symmetry (GO:0007368)|Notch receptor processing (GO:0007220)|Notch signaling involved in heart development (GO:0061314)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein O-linked glycosylation via threonine (GO:0018243)|regulation of Notch signaling pathway (GO:0008593)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|Notch binding (GO:0005112)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(5)|lung(7)|prostate(5)|skin(2)	27	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.214)	OV - Ovarian serous cystadenocarcinoma(82;0.00168)	UCEC - Uterine corpus endometrioid carcinoma (81;0.177)|BRCA - Breast invasive adenocarcinoma(188;0.0932)		TCCCCTGTCGTCCGCGGAGGG	0.602																																																0													70	69	69					7																	151805279		2203	4300	6503	SO:0001583	missense	63917			AC006017	CCDS5930.1	7q36.1	2014-05-09	2014-05-09		ENSG00000178234	ENSG00000178234	2.4.1.41	"Glycosyltransferase family 2 domain containing"	19875	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 11"	615130	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 11 (GalNAc-T11)"			11925450	Standard	NM_022087		Approved	GalNAc-T11	uc010lqg.1	Q8NCW6	OTTHUMG00000157251	ENST00000434507.1:c.869T>C	7.37:g.151805279T>C	ENSP00000416787:p.Val290Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWF4|Q6PCD1|Q9H6C2|Q9H6Z5|Q9UDR8	Missense_Mutation	SNP	ENST00000434507.1	37	CCDS5930.1	.	.	.	.	.	.	.	.	.	.	T	26.0	4.690916	0.88735	.	.	ENSG00000178234	ENST00000430044;ENST00000452146;ENST00000443352;ENST00000434507;ENST00000320311	T;T;T;T	0.59083	0.29;0.29;0.29;0.29	5.28	5.28	0.74379	.	0.000000	0.85682	D	0.000000	T	0.59432	0.2193	N	0.13235	0.315	0.80722	D	1	D;D;D	0.89917	0.988;1.0;0.998	D;D;D	0.91635	0.934;0.999;0.971	T	0.58301	-0.7660	10	0.22109	T	0.4	.	15.2076	0.73192	0.0:0.0:0.0:1.0	.	209;290;290	B7Z5G5;B3KWF4;Q8NCW6	.;.;GLT11_HUMAN	A	290;209;290;290;290	ENSP00000395122:V290A;ENSP00000393399:V209A;ENSP00000416787:V290A;ENSP00000315835:V290A	ENSP00000315835:V290A	V	+	2	0	GALNT11	151436212	1.000000	0.71417	0.696000	0.30242	0.671000	0.39405	6.290000	0.72712	1.980000	0.57719	0.528000	0.53228	GTC		0.602	GALNT11-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348184.1	NM_022087		C	151805279	T	C	151805279	3	2	572	1	0	0	0	0	1	0	0	0	6216	1667	58	3	887	3	GALNT11	7	151805279	Missense_Mutation	SNP	T	TCGA-DW-7842-01A-11D-2136-08	40436776	151805279	7333384	12	33857										
MYOM2	9172	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	2063780	2063780	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	aattaaatgtgacaaagctaCtggcattattgagatggtga	10	4	0	3			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr8:2063780C>T	ENST00000262113.4	+	26	3350	c.3209C>T	c.(3208-3210)aCt>aTt	p.T1070I	MYOM2_ENST00000523438.1_Missense_Mutation_p.T495I	NM_003970.2	NP_003961.2	P54296	MYOM2_HUMAN	myomesin 2	1070					muscle contraction (GO:0006936)	M band (GO:0031430)|mitochondrion (GO:0005739)|myosin filament (GO:0032982)	structural constituent of muscle (GO:0008307)			autonomic_ganglia(2)|breast(4)|central_nervous_system(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(11)|kidney(2)|large_intestine(17)|lung(39)|ovary(5)|prostate(1)|skin(10)|upper_aerodigestive_tract(3)	104		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)		GACAAAGCTACTGGCATTATT	0.383																																																0													180	173	175					8																	2063780		2203	4300	6503	SO:0001583	missense	9172				CCDS5957.1	8p23.3	2014-06-06	2012-10-17		ENSG00000036448	ENSG00000036448		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	7614	protein-coding gene	gene with protein product		603509	"myomesin (M-protein) 2 (165kD)", "myomesin (M-protein) 2, 165kDa"				Standard	XM_006716237		Approved		uc003wpx.4	P54296	OTTHUMG00000129175	ENST00000262113.4:c.3209C>T	8.37:g.2063780C>T	ENSP00000262113:p.Thr1070Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z3Y2	Missense_Mutation	SNP	ENST00000262113.4	37	CCDS5957.1	.	.	.	.	.	.	.	.	.	.	C	13.00	2.106096	0.37145	.	.	ENSG00000036448	ENST00000262113;ENST00000523438	T;T	0.43688	0.94;0.94	5.32	5.32	0.75619	.	0.155634	0.56097	D	0.000032	T	0.50292	0.1607	M	0.72118	2.19	0.09310	N	1	P	0.43542	0.81	P	0.47118	0.538	T	0.53627	-0.8412	10	0.72032	D	0.01	.	11.9689	0.53051	0.1347:0.7352:0.13:0.0	.	1070	P54296	MYOM2_HUMAN	I	1070;495	ENSP00000262113:T1070I;ENSP00000428396:T495I	ENSP00000262113:T1070I	T	+	2	0	MYOM2	2051187	0.950000	0.32346	0.017000	0.16124	0.264000	0.26372	3.170000	0.50816	2.495000	0.84180	0.655000	0.94253	ACT		0.383	MYOM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251249.1	NM_003970		T	2063780	C	T	2063780	3	4	572	1	0	0	0	0	1	0	0	0	10099	565	20	2	3307	2	MYOM2	8	2063780	Missense_Mutation	SNP	C	TCGA-DW-7842-01A-11D-2136-08		2063780	144300242	13	33858										
OPLAH	26873	hgsc.bcm.edu	37	chr8	145110805	145110805	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	gcagatgtcccctgtcttggTcacctctgcctggcaacctg	10	15	3	1			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr8:145110805T>C	ENST00000426825.1	-	16	2215	c.2134A>G	c.(2134-2136)Acc>Gcc	p.T712A	OPLAH_ENST00000534424.1_5'UTR	NM_017570.3	NP_060040.1	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	712					glutathione biosynthetic process (GO:0006750)|glutathione derivative biosynthetic process (GO:1901687)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)	5-oxoprolinase (ATP-hydrolyzing) activity (GO:0017168)|ATP binding (GO:0005524)			breast(1)|central_nervous_system(1)|endometrium(1)|lung(13)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	20	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-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;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCTGTCTTGGTCACCTCTGCC	0.652																																																0													36	37	37					8																	145110805		2033	4178	6211	SO:0001583	missense	26873			AF024672, AB122018	CCDS75802.1	8q24.3	2010-11-23			ENSG00000178814	ENSG00000178814	3.5.2.9		8149	protein-coding gene	gene with protein product		614243				14993790	Standard	NM_017570		Approved	OPLA, 5-Opase	uc003zar.3	O14841		ENST00000426825.1:c.2134A>G	8.37:g.145110805T>C	ENSP00000475943:p.Thr712Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKY8|Q75W65|Q9Y4Q0	Missense_Mutation	SNP	ENST00000426825.1	37		.	.	.	.	.	.	.	.	.	.	T	10.89	1.477922	0.26511	.	.	ENSG00000178814	ENST00000426825	.	.	.	5.54	5.54	0.83059	.	0.144870	0.64402	D	0.000009	T	0.54191	0.1843	.	.	.	0.44547	D	0.997501	B	0.23806	0.091	B	0.33254	0.16	T	0.62789	-0.6780	7	0.45353	T	0.12	.	13.6163	0.62110	0.0:0.0:0.0:1.0	.	712	O14841	OPLA_HUMAN	A	712	.	ENSP00000412071:T712A	T	-	1	0	OPLAH	145182793	1.000000	0.71417	0.860000	0.33809	0.281000	0.26958	5.722000	0.68485	2.108000	0.64289	0.533000	0.62120	ACC		0.652	OPLAH-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_017570		C	145110805	T	C	145110805	3	2	572	1	0	0	0	0	1	0	0	0	10883	1667	58	3	1782	3	OPLAH	8	145110805	Missense_Mutation	SNP	T	TCGA-DW-7842-01A-11D-2136-08	143047025	145110805	1253217	14	33859										
KIAA1529	100499483	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	100117239	100117239	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	tctgtggaccttattttcatAgagaaaatccagcggttgct	9	8	2	1			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr9:100117239A>G	ENST00000357054.1	+	35	4193	c.3258A>G	c.(3256-3258)atA>atG	p.I1086M	CCDC180_ENST00000529487.1_Missense_Mutation_p.I1115M|RP11-23J9.4_ENST00000534123.1_RNA|CCDC180_ENST00000375202.2_Missense_Mutation_p.I1115M|CCDC180_ENST00000395220.1_3'UTR			Q9P1Z9	CC180_HUMAN	coiled-coil domain containing 180	1086						extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)											TTATTTTCATAGAGAAAATCC	0.418																																																0													74	75	75					9																	100117239		2203	4300	6503	SO:0001583	missense	0			AK123391	CCDS35077.1, CCDS35077.2	9q22.33	2013-03-08	2013-03-08	2013-03-08		ENSG00000197816			29303	protein-coding gene	gene with protein product	"Behcet's Disease Associated Gene 1"		"KIAA1529", "chromosome 9 open reading frame 174"	KIAA1529, C9orf174		10819331	Standard	NM_020893		Approved	DKFZp434I2420, BDAG1	uc004axg.2	Q9P1Z9	OTTHUMG00000167001	ENST00000357054.1:c.3258A>G	9.37:g.100117239A>G	ENSP00000349562:p.Ile1086Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q2KHR6|Q5VV25|Q68DP5|Q69YV9|Q6AHY0	Missense_Mutation	SNP	ENST00000357054.1	37		.	.	.	.	.	.	.	.	.	.	A	14.21	2.467293	0.43839	.	.	ENSG00000197816	ENST00000357054;ENST00000375202;ENST00000529487	T;T;T	0.10099	3.17;2.91;2.91	5.16	-0.113	0.13568	.	0.642133	0.16850	N	0.196982	T	0.04952	0.0133	N	0.16478	0.41	0.80722	D	1	B;P	0.37370	0.083;0.592	B;B	0.35240	0.044;0.198	T	0.49707	-0.8911	10	0.27785	T	0.31	-2.8056	4.2902	0.10874	0.6091:0.0:0.2494:0.1415	.	1254;1086	B7ZMG3;Q9P1Z9	.;CI174_HUMAN	M	1086;1115;1115	ENSP00000349562:I1086M;ENSP00000364348:I1115M;ENSP00000434727:I1115M	ENSP00000349562:I1086M	I	+	3	3	C9orf174	99157060	0.990000	0.36364	0.986000	0.45419	0.999000	0.98932	0.166000	0.16583	0.022000	0.15160	0.533000	0.62120	ATA		0.418	CCDC180-201	KNOWN	basic	protein_coding	protein_coding		NM_020893		G	100117239	A	G	100117239	3	3	572	1	0	0	0	0	1	0	0	0	8247	410	15	3	3352	3	KIAA1529	9	100117239	Missense_Mutation	SNP	A	TCGA-DW-7842-01A-11D-2136-08		100117239	41096192	15	33860										
DNAJC25-GNG10	2790	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	114429094	114429094	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	gttgctgtccctttgtttcaGgtctctcaggcagctgcaga	11	11	3	1			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr9:114429094G>A	ENST00000374293.4	+	2	381		c.e2-1		DNAJC25_ENST00000556107.1_Splice_Site|DNAJC25-GNG10_ENST00000374294.3_Splice_Site	NM_001017998.3|NM_001198664.1	NP_001017998.1|NP_001185593.1	P50151	GBG10_HUMAN	guanine nucleotide binding protein (G protein), gamma 10						cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|G-protein coupled receptor signaling pathway (GO:0007186)|GTP catabolic process (GO:0006184)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)	extracellular vesicular exosome (GO:0070062)|heterotrimeric G-protein complex (GO:0005834)|plasma membrane (GO:0005886)	GTPase activity (GO:0003924)|signal transducer activity (GO:0004871)			kidney(1)	1						CTTTGTTTCAGGTCTCTCAGG	0.522																																																0													80	67	71					9																	114429094		2203	4300	6503	SO:0001630	splice_region_variant	552891				CCDS35107.1	9q31.3	2010-08-17			ENSG00000242616	ENSG00000242616			4402	protein-coding gene	gene with protein product		604389				7665596	Standard	NM_001017998		Approved			P50151	OTTHUMG00000157193	ENST00000374293.4:c.82-1G>A	9.37:g.114429094G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q3B7K2|Q4VC27	Splice_Site	SNP	ENST00000374293.4	37	CCDS35107.1	.	.	.	.	.	.	.	.	.	.	G	24.0	4.486423	0.84854	.	.	ENSG00000059769;ENSG00000244115;ENSG00000242616	ENST00000556107;ENST00000374294;ENST00000374293	.	.	.	5.41	5.41	0.78517	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	19.1488	0.93479	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	DNAJC25-GNG10;GNG10;DNAJC25	113468915	1.000000	0.71417	0.997000	0.53966	0.892000	0.51952	9.460000	0.97641	2.688000	0.91661	0.655000	0.94253	.		0.522	GNG10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053644.2		Intron	A	114429094	G	A	114429094	5	1	572	1	0	0	0	0	0	0	1	0	4646	1014	35	2	342	2	DNAJC25-GNG10	9	114429094	Splice_Site	SNP	G	TCGA-DW-7842-01A-11D-2136-08	14311855	114429094	26784337	16	33861										
ZER1	10444	hgsc.bcm.edu	37	chr9	131513498	131513498	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	tctcaggccggtgctccgtgTaggcctcgatggcattcagc	13	13	2	0			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr9:131513498T>C	ENST00000291900.2	-	7	1494	c.1088A>G	c.(1087-1089)tAc>tGc	p.Y363C	snoU13_ENST00000459043.1_RNA|ZER1_ENST00000494461.1_5'Flank	NM_006336.2	NP_006327.2	Q7Z7L7	ZER1_HUMAN	zyg-11 related, cell cycle regulator	363					protein ubiquitination (GO:0016567)|regulation of ubiquitin-protein transferase activity (GO:0051438)	Cul2-RING ubiquitin ligase complex (GO:0031462)	ubiquitin-protein transferase activity (GO:0004842)			endometrium(1)|kidney(2)|large_intestine(5)|lung(4)|ovary(1)|prostate(1)|urinary_tract(1)	15						GTGCTCCGTGTAGGCCTCGAT	0.602																																																0													93	76	82					9																	131513498		2203	4300	6503	SO:0001583	missense	10444			X99802	CCDS6910.1	9q33.3	2013-01-17	2012-12-10	2007-01-04	ENSG00000160445	ENSG00000160445		"ZYG11 cell cycle regulator family"	30960	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 60", "zyg-11 homolog B (C. elegans)-like", "zer-1 homolog (C. elegans)"	C9orf60, ZYG11BL		11719588	Standard	NM_006336		Approved	ZYG, Hzyg	uc004bwa.2	Q7Z7L7	OTTHUMG00000020759	ENST00000291900.2:c.1088A>G	9.37:g.131513498T>C	ENSP00000291900:p.Tyr363Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O00156|Q5T272|Q5T273	Missense_Mutation	SNP	ENST00000291900.2	37	CCDS6910.1	.	.	.	.	.	.	.	.	.	.	T	19.22	3.785754	0.70337	.	.	ENSG00000160445	ENST00000291900	T	0.07688	3.17	5.24	5.24	0.73138	Armadillo-type fold (1);	0.060055	0.64402	D	0.000002	T	0.22781	0.0550	L	0.51914	1.62	0.80722	D	1	D	0.76494	0.999	D	0.77557	0.99	T	0.00425	-1.1747	10	0.44086	T	0.13	-35.0868	14.3759	0.66874	0.0:0.0:0.0:1.0	.	363	Q7Z7L7	ZER1_HUMAN	C	363	ENSP00000291900:Y363C	ENSP00000291900:Y363C	Y	-	2	0	ZER1	130553319	1.000000	0.71417	1.000000	0.80357	0.799000	0.45148	7.499000	0.81566	2.011000	0.59026	0.254000	0.18369	TAC		0.602	ZER1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054491.1	NM_006336		C	131513498	T	C	131513498	3	2	572	1	0	0	0	0	1	0	0	0	17637	1638	57	3	1252	3	ZER1	9	131513498	Missense_Mutation	SNP	T	TCGA-DW-7842-01A-11D-2136-08	17084404	131513498	9699933	17	33862										
VIM	7431	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	17276732	17276732	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	tgccaaccggaacaatgacgCcctgcgccaggcaaagcagg	12	14	0	1			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr10:17276732C>G	ENST00000224237.5	+	5	1068	c.923C>G	c.(922-924)gCc>gGc	p.A308G	RP11-124N14.3_ENST00000456355.1_RNA|VIM_ENST00000544301.1_Missense_Mutation_p.A308G			P08670	VIME_HUMAN	vimentin	308	Coil 2.|Rod.				apoptotic process (GO:0006915)|astrocyte development (GO:0014002)|Bergmann glial cell differentiation (GO:0060020)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular component movement (GO:0006928)|intermediate filament organization (GO:0045109)|lens fiber cell development (GO:0070307)|muscle filament sliding (GO:0030049)|negative regulation of neuron projection development (GO:0010977)|positive regulation of gene expression (GO:0010628)|viral process (GO:0016032)	cell leading edge (GO:0031252)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|intermediate filament (GO:0005882)|intermediate filament cytoskeleton (GO:0045111)|neuron projection (GO:0043005)|peroxisome (GO:0005777)|plasma membrane (GO:0005886)	double-stranded RNA binding (GO:0003725)|glycoprotein binding (GO:0001948)|identical protein binding (GO:0042802)|protein C-terminus binding (GO:0008022)|scaffold protein binding (GO:0097110)|structural constituent of cytoskeleton (GO:0005200)|structural constituent of eye lens (GO:0005212)			NS(1)|autonomic_ganglia(1)|breast(1)|endometrium(3)|kidney(1)|large_intestine(4)|liver(2)|lung(18)|ovary(2)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	38						AACAATGACGCCCTGCGCCAG	0.512																																																0													94	89	91					10																	17276732		2203	4300	6503	SO:0001583	missense	7431			M14144	CCDS7120.1	10p13	2013-01-16			ENSG00000026025	ENSG00000026025		"Intermediate filaments type III"	12692	protein-coding gene	gene with protein product		193060					Standard	NM_003380		Approved		uc001iou.2	P08670	OTTHUMG00000017744	ENST00000224237.5:c.923C>G	10.37:g.17276732C>G	ENSP00000224237:p.Ala308Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJC2|D3DRU4|Q15867|Q15868|Q15869|Q548L2|Q6LER9|Q8N850|Q96ML2|Q9NTM3	Missense_Mutation	SNP	ENST00000224237.5	37	CCDS7120.1	.	.	.	.	.	.	.	.	.	.	C	25.3	4.627666	0.87560	.	.	ENSG00000026025	ENST00000544301;ENST00000224237;ENST00000545533;ENST00000421459	D;D;D	0.89681	-2.55;-2.55;-2.55	6.05	6.05	0.98169	Filament (1);	0.000000	0.46442	D	0.000298	D	0.95439	0.8519	M	0.91090	3.175	0.80722	D	1	D;D;D;D	0.69078	0.989;0.985;0.995;0.997	P;P;D;D	0.69479	0.897;0.902;0.941;0.964	D	0.92981	0.6406	10	0.18710	T	0.47	.	20.6031	0.99464	0.0:1.0:0.0:0.0	.	295;295;308;308	F5H288;B3KRK8;B0YJC4;P08670	.;.;.;VIME_HUMAN	G	308;308;295;134	ENSP00000446007:A308G;ENSP00000224237:A308G;ENSP00000391842:A134G	ENSP00000224237:A308G	A	+	2	0	VIM	17316738	1.000000	0.71417	1.000000	0.80357	0.369000	0.29798	7.811000	0.86092	2.881000	0.98747	0.637000	0.83480	GCC		0.512	VIM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047015.1	NM_003380		G	17276732	C	G	17276732	3	3	572	1	0	0	0	0	1	0	0	0	17178	739	26	4	941	4	VIM	10	17276732	Missense_Mutation	SNP	C	TCGA-DW-7842-01A-11D-2136-08		17276732	118258015	18	33863										
ARHGAP21	57584	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	24885703	24885704	+	Frame_Shift_Ins	INS	-	-	G													0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	tggtgggcagtcatctagtcINSggacgccgaaagttcctgta							TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr10:24885703_24885704insG	ENST00000396432.2	-	17	3928_3929	c.3442_3443insC	c.(3442-3444)cgafs	p.R1148fs	ARHGAP21_ENST00000320481.6_Frame_Shift_Ins_p.R935fs|ARHGAP21_ENST00000493154.1_5'Flank	NM_020824.3	NP_065875.3	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	1147	Rho-GAP. {ECO:0000255|PROSITE- ProRule:PRU00172}.				establishment of Golgi localization (GO:0051683)|Golgi organization (GO:0007030)|maintenance of Golgi location (GO:0051684)|organelle transport along microtubule (GO:0072384)|signal transduction (GO:0007165)	cell junction (GO:0030054)|cytoplasmic vesicle (GO:0031410)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	GTPase activator activity (GO:0005096)			NS(1)|breast(4)|central_nervous_system(1)|cervix(1)|endometrium(11)|kidney(4)|large_intestine(17)|lung(21)|ovary(7)|pancreas(1)|prostate(5)|skin(2)|stomach(2)|urinary_tract(1)	78						GTCATCTAGTCGGACGCCGAAA	0.455																																																0																																										SO:0001589	frameshift_variant	57584			AF480466	CCDS7144.2	10p12.31	2013-01-10			ENSG00000107863	ENSG00000107863		"Rho GTPase activating proteins", "Pleckstrin homology (PH) domain containing"	23725	protein-coding gene	gene with protein product		609870				12056806	Standard	NM_020824		Approved	KIAA1424, ARHGAP10	uc001isb.2	Q5T5U3	OTTHUMG00000017825	ENST00000396432.2:c.3443dupC	10.37:g.24885705_24885705dupG	ENSP00000379709:p.Arg1148fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VF98|Q7Z3P7|Q8N3A2|Q8NI19|Q8TBV5|Q9P2C3	Frame_Shift_Ins	INS	ENST00000396432.2	37	CCDS7144.2																																																																																				0.455	ARHGAP21-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047229.4	NM_020824		G	24885704	-	G	24885703	7	5	572	1	0	1	1	0	0	0	0	0	871	884	31	0	2473	0	ARHGAP21	10	24885703	Frame_Shift_Ins	INS	-	TCGA-DW-7842-01A-11D-2136-08	7608971	24885703	110649044	19	33864										
C11orf49	79096	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	47074069	47074069	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	gaactgtgggcaaaaatggcGgtaagtcttcccaaattctt	10	8	2	0			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr11:47074069G>T	ENST00000278460.7	+	3	339	c.280G>T	c.(280-282)Gat>Tat	p.D94Y	C11orf49_ENST00000378618.2_Splice_Site_p.D94Y|C11orf49_ENST00000543718.1_Intron|C11orf49_ENST00000395460.2_Splice_Site_p.D94Y|C11orf49_ENST00000527268.1_3'UTR|C11orf49_ENST00000536126.1_5'UTR|C11orf49_ENST00000378615.3_Splice_Site_p.D94Y	NM_001003677.1|NM_024113.3	NP_001003677.1|NP_077018.1	Q9H6J7	CK049_HUMAN	chromosome 11 open reading frame 49	94						nucleus (GO:0005634)				central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(5)|skin(1)	11						CAAAAATGGCGGTAAGTCTTC	0.463																																																0													101	102	102					11																	47074069		2201	4299	6500	SO:0001630	splice_region_variant	79096			AL136575	CCDS7925.1, CCDS31479.1, CCDS31480.1, CCDS41641.1	11p11.2	2006-02-02			ENSG00000149179	ENSG00000149179			28720	protein-coding gene	gene with protein product							Standard	NM_001003677		Approved	FLJ22210, MGC4707	uc001ndr.4	Q9H6J7	OTTHUMG00000166725	ENST00000278460.7:c.280+1G>T	11.37:g.47074069G>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DQQ8|E9PAX7|Q7L077|Q96CS8|Q9BQH4|Q9BUW5	Missense_Mutation	SNP	ENST00000278460.7	37	CCDS7925.1	.	.	.	.	.	.	.	.	.	.	G	28.0	4.879678	0.91740	.	.	ENSG00000149179	ENST00000278460;ENST00000378618;ENST00000395460;ENST00000378615;ENST00000526827	T;T;T;T;T	0.23552	1.9;1.9;1.9;1.9;1.9	6.03	6.03	0.97812	.	0.097269	0.64402	D	0.000002	T	0.55289	0.1911	M	0.74881	2.28	0.80722	D	1	D;D;D	0.89917	1.0;0.999;0.999	D;D;D	0.79784	0.993;0.977;0.977	T	0.54351	-0.8307	10	0.87932	D	0	-17.2898	20.5568	0.99304	0.0:0.0:1.0:0.0	.	94;94;94	E9PAX7;Q9H6J7-2;Q9H6J7	.;.;CK049_HUMAN	Y	94;94;94;94;20	ENSP00000278460:D94Y;ENSP00000367881:D94Y;ENSP00000378844:D94Y;ENSP00000367878:D94Y;ENSP00000433707:D20Y	ENSP00000278460:D94Y	D	+	1	0	C11orf49	47030645	1.000000	0.71417	0.986000	0.45419	0.971000	0.66376	8.948000	0.93006	2.861000	0.98227	0.655000	0.94253	GAT		0.463	C11orf49-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000391218.1	NM_024113	Missense_Mutation	T	47074069	G	T	47074069	5	4	572	1	0	0	0	0	0	0	1	0	1647	1130	39	4	290	4	C11orf49	11	47074069	Splice_Site	SNP	G	TCGA-DW-7842-01A-11D-2136-08		47074069	87932447	20	33865										
ANKRD13D	338692	hgsc.bcm.edu;bcgsc.ca	37	chr11	67059495	67059495	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	ggtgatggaagtggaccatgAccggcaggtggtgcatgtgg	19	6	0	2			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr11:67059495A>G	ENST00000447274.2	+	6	1489	c.314A>G	c.(313-315)gAc>gGc	p.D105G	ANKRD13D_ENST00000511455.2_Missense_Mutation_p.D192G|ANKRD13D_ENST00000514166.1_Missense_Mutation_p.D105G|ANKRD13D_ENST00000308440.6_Missense_Mutation_p.D105G			Q6ZTN6	AN13D_HUMAN	ankyrin repeat domain 13 family, member D	105						endosome (GO:0005768)|plasma membrane (GO:0005886)				endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(3)|ovary(1)	9			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			GTGGACCATGACCGGCAGGTG	0.672																																																0													36	38	37					11																	67059495		2200	4294	6494	SO:0001583	missense	338692			AK027313	CCDS31616.1, CCDS31616.2	11q13.2	2013-01-11		2005-08-09	ENSG00000172932	ENSG00000172932		"Ankyrin repeat domain containing"	27880	protein-coding gene	gene with protein product		615126					Standard	NM_207354		Approved		uc001okd.2	Q6ZTN6	OTTHUMG00000162929	ENST00000447274.2:c.314A>G	11.37:g.67059495A>G	ENSP00000402616:p.Asp105Gly	Somatic		WXS	Illumina HiSeq	Phase_I	D6RCN6|Q0VAK0|Q0VGC3|Q6ZVD0|Q86SU1	Missense_Mutation	SNP	ENST00000447274.2	37		.	.	.	.	.	.	.	.	.	.	A	24.6	4.554741	0.86231	.	.	ENSG00000172932	ENST00000447274;ENST00000511455;ENST00000308440;ENST00000514166	T;T;T;T	0.46451	0.87;0.87;0.87;0.87	3.9	3.9	0.45041	.	0.074445	0.52532	D	0.000070	T	0.63462	0.2513	M	0.80183	2.485	0.58432	D	0.999999	D;P	0.89917	1.0;0.624	D;P	0.75484	0.986;0.525	T	0.66736	-0.5848	10	0.48119	T	0.1	-35.5096	12.1809	0.54211	1.0:0.0:0.0:0.0	.	192;105	Q6ZTN6-3;Q6ZTN6	.;AN13D_HUMAN	G	105;192;105;105	ENSP00000402616:D105G;ENSP00000427130:D192G;ENSP00000310874:D105G;ENSP00000444404:D105G	ENSP00000310874:D105G	D	+	2	0	ANKRD13D	66816071	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	8.912000	0.92726	1.785000	0.52413	0.459000	0.35465	GAC		0.672	ANKRD13D-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000371067.2	NM_207354		G	67059495	A	G	67059495	3	3	572	1	0	0	0	0	1	0	0	0	644	275	10	3	597	3	ANKRD13D	11	67059495	Missense_Mutation	SNP	A	TCGA-DW-7842-01A-11D-2136-08	19985426	67059495	67947021	21	33866										
ARHGEF17	9828	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	73020470	73020470	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	agggcccgccgcagctgcctGgagcccagagtccggcctac	14	17	0	1			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr11:73020470G>A	ENST00000263674.3	+	1	1137	c.787G>A	c.(787-789)Gga>Aga	p.G263R	RP11-800A3.7_ENST00000546324.1_RNA	NM_014786.3	NP_055601.2	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	263					actin cytoskeleton organization (GO:0030036)|apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	guanyl-nucleotide exchange factor activity (GO:0005085)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(15)|ovary(2)|skin(2)	32						GCAGCTGCCTGGAGCCCAGAG	0.721																																																0													10	14	13					11																	73020470		2079	4096	6175	SO:0001583	missense	9828			AF378754	CCDS8221.1	11q13.3	2011-11-16			ENSG00000110237	ENSG00000110237		"Rho guanine nucleotide exchange factors"	21726	protein-coding gene	gene with protein product	"Rho-specific guanine-nucleotide exchange factor 164 kDa", "tumor endothelial marker 4"					11559528, 12071859	Standard	NM_014786		Approved	TEM4, KIAA0337, p164-RhoGEF	uc001otu.3	Q96PE2	OTTHUMG00000167971	ENST00000263674.3:c.787G>A	11.37:g.73020470G>A	ENSP00000263674:p.Gly263Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP20|Q86XU2|Q8N2S0|Q9Y4G3	Missense_Mutation	SNP	ENST00000263674.3	37	CCDS8221.1	.	.	.	.	.	.	.	.	.	.	G	11.49	1.654144	0.29425	.	.	ENSG00000110237	ENST00000263674	T	0.64260	-0.09	4.85	0.091	0.14466	.	0.445825	0.16707	N	0.202865	T	0.43656	0.1257	N	0.24115	0.695	0.09310	N	1	B	0.02656	0.0	B	0.06405	0.002	T	0.39251	-0.9623	10	0.87932	D	0	-19.5376	8.2312	0.31599	0.1586:0.385:0.4564:0.0	.	263	Q96PE2	ARHGH_HUMAN	R	263	ENSP00000263674:G263R	ENSP00000263674:G263R	G	+	1	0	ARHGEF17	72698118	0.001000	0.12720	0.001000	0.08648	0.237000	0.25408	0.062000	0.14389	0.096000	0.17463	-0.502000	0.04539	GGA		0.721	ARHGEF17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397365.1	NM_014786		A	73020470	G	A	73020470	3	1	572	1	0	0	0	0	1	0	0	0	900	1349	47	2	789	2	ARHGEF17	11	73020470	Missense_Mutation	SNP	G	TCGA-DW-7842-01A-11D-2136-08	5960975	73020470	61986046	22	33867										
MYO7A	4647	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	76890090	76890090	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	gcgccactactgctgtttcaGgtctaactttctgaagctga	9	11	3	2	rs397516295		TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr11:76890090G>T	ENST00000409709.3	+	20	2554		c.e20-1		MYO7A_ENST00000409893.1_Splice_Site|MYO7A_ENST00000409619.2_Splice_Site|MYO7A_ENST00000458637.2_Splice_Site	NM_000260.3	NP_000251.3	Q13402	MYO7A_HUMAN	myosin VIIA						actin filament-based movement (GO:0030048)|auditory receptor cell stereocilium organization (GO:0060088)|equilibrioception (GO:0050957)|eye photoreceptor cell development (GO:0042462)|intracellular protein transport (GO:0006886)|lysosome organization (GO:0007040)|metabolic process (GO:0008152)|phagolysosome assembly (GO:0001845)|pigment granule transport (GO:0051904)|post-embryonic organ morphogenesis (GO:0048563)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|lysosomal membrane (GO:0005765)|melanosome (GO:0042470)|myosin VII complex (GO:0031477)|photoreceptor connecting cilium (GO:0032391)|photoreceptor inner segment (GO:0001917)|photoreceptor outer segment (GO:0001750)|stereocilium (GO:0032420)|synapse (GO:0045202)	actin filament binding (GO:0051015)|actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|calmodulin binding (GO:0005516)|microfilament motor activity (GO:0000146)|spectrin binding (GO:0030507)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(10)|lung(32)|ovary(4)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	64						TGCTGTTTCAGGTCTAACTTT	0.587																																																0			GRCh37	CS064428	MYO7A	S							34	38	37					11																	76890090		2134	4237	6371	SO:0001630	splice_region_variant	4647			U39226	CCDS53683.1, CCDS53684.1, CCDS53685.1	11q13.5	2013-01-08	2005-09-12		ENSG00000137474	ENSG00000137474		"A-kinase anchor proteins", "Myosins / Myosin superfamily : Class VII"	7606	protein-coding gene	gene with protein product		276903	"myosin VIIA (Usher syndrome 1B (autosomal recessive, severe))"	USH1B, DFNB2, DFNA11		8884266	Standard	NM_000260		Approved	NSRD2	uc001oyb.2	Q13402	OTTHUMG00000152822	ENST00000409709.3:c.2283-1G>T	11.37:g.76890090G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B9A011|F8VUN5|P78427|Q13321|Q14785|Q92821|Q92822	Splice_Site	SNP	ENST00000409709.3	37	CCDS53683.1	.	.	.	.	.	.	.	.	.	.	G	11.20	1.569249	0.28003	.	.	ENSG00000137474	ENST00000409709;ENST00000409893;ENST00000458637;ENST00000409619;ENST00000358342;ENST00000343356;ENST00000341717;ENST00000343419	.	.	.	4.24	4.24	0.50183	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.5355	0.84372	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	MYO7A	76567738	1.000000	0.71417	0.998000	0.56505	0.147000	0.21601	7.778000	0.85637	2.319000	0.78375	0.289000	0.19496	.		0.587	MYO7A-001	KNOWN	non_canonical_conserved|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000328133.1	NM_000260	Intron	T	76890090	G	T	76890090	5	4	572	1	0	0	0	0	0	0	1	0	10089	1014	35	4	2356	4	MYO7A	11	76890090	Splice_Site	SNP	G	TCGA-DW-7842-01A-11D-2136-08	3869620	76890090	58116426	23	33868										
MED17	9440	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	93542943	93542943	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	aggttatgggctggcaagtaCtgagcttcagtaatcatgtg	13	6	2	1			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr11:93542943C>A	ENST00000251871.3	+	11	1932	c.1645C>A	c.(1645-1647)Ctg>Atg	p.L549M	MED17_ENST00000533367.1_3'UTR	NM_004268.4	NP_004259.3	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	549					androgen receptor signaling pathway (GO:0030521)|gene expression (GO:0010467)|intracellular steroid hormone receptor signaling pathway (GO:0030518)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|stem cell maintenance (GO:0019827)|transcription initiation from RNA polymerase II promoter (GO:0006367)	mediator complex (GO:0016592)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|receptor activity (GO:0004872)|RNA polymerase II transcription cofactor activity (GO:0001104)|thyroid hormone receptor binding (GO:0046966)|transcription coactivator activity (GO:0003713)|transcription cofactor activity (GO:0003712)|vitamin D receptor binding (GO:0042809)			large_intestine(2)|lung(11)|ovary(1)	14		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CTGGCAAGTACTGAGCTTCAG	0.493																																																0													233	193	206					11																	93542943		2201	4298	6499	SO:0001583	missense	9440			AF104254	CCDS8295.1	11q21	2007-07-30	2007-07-30	2007-07-30	ENSG00000042429	ENSG00000042429			2375	protein-coding gene	gene with protein product		603810	"cofactor required for Sp1 transcriptional activation, subunit 6 (77kD)", "cofactor required for Sp1 transcriptional activation, subunit 6, 77kDa"	CRSP6		9989412, 10198638	Standard	NM_004268		Approved	CRSP77, TRAP80, DRIP80	uc001pem.4	Q9NVC6	OTTHUMG00000167497	ENST00000251871.3:c.1645C>A	11.37:g.93542943C>A	ENSP00000251871:p.Leu549Met	Somatic		WXS	Illumina HiSeq	Phase_I	B3KN07|Q9HA81|Q9UNP7|Q9Y2W0|Q9Y660	Missense_Mutation	SNP	ENST00000251871.3	37	CCDS8295.1	.	.	.	.	.	.	.	.	.	.	C	31	5.067027	0.93898	.	.	ENSG00000042429	ENST00000251871;ENST00000427225	T	0.64991	-0.13	5.65	5.65	0.86999	.	0.063209	0.64402	D	0.000003	T	0.79040	0.4379	M	0.66939	2.045	0.80722	D	1	D	0.89917	1.0	D	0.73380	0.98	T	0.79424	-0.1809	10	0.72032	D	0.01	-15.3186	20.0822	0.97779	0.0:1.0:0.0:0.0	.	549	Q9NVC6	MED17_HUMAN	M	549;519	ENSP00000251871:L549M	ENSP00000251871:L549M	L	+	1	2	MED17	93182591	1.000000	0.71417	0.719000	0.30619	0.979000	0.70002	4.846000	0.62860	2.826000	0.97356	0.563000	0.77884	CTG		0.493	MED17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394800.2	NM_004268		A	93542943	C	A	93542943	3	1	572	1	0	0	0	0	1	0	0	0	9442	564	20	4	1687	4	MED17	11	93542943	Missense_Mutation	SNP	C	TCGA-DW-7842-01A-11D-2136-08	16652853	93542943	41463573	24	33869										
VPS26B	112936	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	134115448	134115448	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	tccctgggtgaggtgcggacCcccagccagctgtctgacaa	13	14	1	2			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr11:134115448C>T	ENST00000281187.5	+	6	1453	c.975C>T	c.(973-975)acC>acT	p.T325T	VPS26B_ENST00000525095.2_Silent_p.T325T	NM_052875.3	NP_443107.1	Q4G0F5	VP26B_HUMAN	vacuolar protein sorting 26 homolog B (S. pombe)	325					protein transport (GO:0015031)	cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)				breast(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(7)	14	all_hematologic(175;0.127)	all_cancers(12;1.1e-21)|all_epithelial(12;3.77e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;2.43e-10)|all cancers(11;2.94e-09)|BRCA - Breast invasive adenocarcinoma(10;9.57e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00164)|Lung(977;0.216)		AGGTGCGGACCCCCAGCCAGC	0.652																																					Colon(171;1263 1952 15904 45703 47982)											0													44	37	39					11																	134115448		2201	4297	6498	SO:0001819	synonymous_variant	112936				CCDS8495.1	11q25	2008-02-05	2007-01-12		ENSG00000151502	ENSG00000151502			28119	protein-coding gene	gene with protein product		610027	"vacuolar protein sorting 26 homolog B (yeast)"			16190980	Standard	NM_052875		Approved	MGC10485, Pep8b	uc001qhe.3	Q4G0F5	OTTHUMG00000167175	ENST00000281187.5:c.975C>T	11.37:g.134115448C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q96A55	Silent	SNP	ENST00000281187.5	37	CCDS8495.1																																																																																				0.652	VPS26B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393591.1	NM_052875		T	134115448	C	T	134115448	2	4	572	1	0	0	0	0	0	0	0	1	17210	610	22	2		2	VPS26B	11	134115448	Silent	SNP	C	TCGA-DW-7842-01A-11D-2136-08	40572505	134115448	891068	25	33870										
RPAP3	79657	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	48080648	48080648	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	tatccctcgagtatagcattCaattgctctttcatatttcc	4	11	3	0			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr12:48080648C>T	ENST00000005386.3	-	9	1022	c.907G>A	c.(907-909)Gaa>Aaa	p.E303K	RPAP3_ENST00000380650.4_Missense_Mutation_p.E303K|RPAP3_ENST00000432584.3_Missense_Mutation_p.E144K	NM_024604.2	NP_078880.2	Q9H6T3	RPAP3_HUMAN	RNA polymerase II associated protein 3	303										endometrium(2)|large_intestine(4)|liver(1)|lung(6)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	16	Lung SC(27;0.192)					GTATAGCATTCAATTGCTCTT	0.353																																																0													154	140	145					12																	48080648		2203	4300	6503	SO:0001583	missense	79657			AK025561	CCDS8753.1, CCDS53782.1, CCDS53783.1	12q13.11	2013-01-10				ENSG00000005175		"Tetratricopeptide (TTC) repeat domain containing"	26151	protein-coding gene	gene with protein product		611477				17643375	Standard	NM_024604		Approved	FLJ21908, spag	uc001rpr.3	Q9H6T3	OTTHUMG00000169668	ENST00000005386.3:c.907G>A	12.37:g.48080648C>T	ENSP00000005386:p.Glu303Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRW9|Q6PHR5	Missense_Mutation	SNP	ENST00000005386.3	37	CCDS8753.1	.	.	.	.	.	.	.	.	.	.	C	29.3	4.998449	0.93227	.	.	ENSG00000005175	ENST00000005386;ENST00000432584;ENST00000380650	T;T;T	0.61274	0.12;0.12;0.12	4.71	4.71	0.59529	Tetratricopeptide-like helical (1);Tetratricopeptide repeat-containing (1);	0.254766	0.44688	D	0.000421	T	0.60663	0.2286	L	0.35341	1.055	0.58432	D	0.999998	D;D	0.61697	0.99;0.98	P;P	0.60173	0.794;0.87	T	0.52320	-0.8591	10	0.10636	T	0.68	.	17.52	0.87784	0.0:1.0:0.0:0.0	.	303;303	Q9H6T3-2;Q9H6T3	.;RPAP3_HUMAN	K	303;144;303	ENSP00000005386:E303K;ENSP00000401823:E144K;ENSP00000370024:E303K	ENSP00000005386:E303K	E	-	1	0	RPAP3	46366915	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.309000	0.78937	2.554000	0.86153	0.555000	0.69702	GAA		0.353	RPAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405340.1	NM_024604		T	48080648	C	T	48080648	3	4	572	1	0	0	0	0	1	0	0	0	13556	835	29	2	1126	2	RPAP3	12	48080648	Missense_Mutation	SNP	C	TCGA-DW-7842-01A-11D-2136-08		48080648	85771247	26	33871										
PTGDR	5729	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	52734893	52734894	+	Missense_Mutation	DNP	CT	CT	AG													0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	tctttgggctctcctcgacaCtgcaactcctggccatggca							TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr14:52734893_52734894CT>AG	ENST00000306051.2	+	1	463_464	c.361_362CT>AG	c.(361-363)CTg>AGg	p.L121R	PTGDR_ENST00000553372.1_Missense_Mutation_p.L121R	NM_000953.2	NP_000944.1	Q13258	PD2R_HUMAN	prostaglandin D2 receptor (DP)	121					adenosine metabolic process (GO:0046085)|cellular response to prostaglandin D stimulus (GO:0071799)|G-protein coupled receptor signaling pathway (GO:0007186)|inflammatory response (GO:0006954)|male sex determination (GO:0030238)|sleep (GO:0030431)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	prostaglandin D receptor activity (GO:0004956)|prostaglandin J receptor activity (GO:0001785)			breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(1)|lung(15)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	26	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	CTCCTCGACACTGCAACTCCTG	0.629																																																0																																										SO:0001583	missense	5729			U31332	CCDS9707.1, CCDS61454.1	14q22.1	2012-08-08			ENSG00000168229	ENSG00000168229		"GPCR / Class A : Prostanoid receptors"	9591	protein-coding gene	gene with protein product		604687				7642548	Standard	NM_000953		Approved	DP, DP1, PTGDR1	uc001wzq.3	Q13258	OTTHUMG00000140299	Exception_encountered	14.37:g.52734893_52734894delinsAG	ENSP00000303424:p.Leu121Arg	Somatic		WXS	Illumina HiSeq	Phase_I	G3V5L3|Q13250|Q13251|Q1ZZ52	Missense_Mutation	DNP	ENST00000306051.2	37	CCDS9707.1																																																																																				0.629	PTGDR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276889.1	NM_000953		AG	52734894	CT	AG	52734893	3	1	572	1	0	0	0	0	1	0	0	0	12751	564	20	4	363	4	PTGDR	14	52734893	Missense_Mutation	DNP	CT	TCGA-DW-7842-01A-11D-2136-08		52734893	54614647	27	33872										
PLA2G4F	255189	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	42442584	42442584	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	gccttacctcccccagggccAcagaacactgttcctcctgg	8	18	0	1			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr15:42442584A>G	ENST00000382396.4	-	9	958	c.872T>C	c.(871-873)gTg>gCg	p.V291A	PLA2G4F_ENST00000397272.3_Missense_Mutation_p.V291A			Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	291					arachidonic acid secretion (GO:0050482)|cellular response to antibiotic (GO:0071236)|cellular response to organic cyclic compound (GO:0071407)|glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylcholine acyl-chain remodeling (GO:0036151)|phosphatidylethanolamine acyl-chain remodeling (GO:0036152)|phosphatidylglycerol acyl-chain remodeling (GO:0036148)|phosphatidylinositol acyl-chain remodeling (GO:0036149)|phosphatidylserine acyl-chain remodeling (GO:0036150)|phospholipid catabolic process (GO:0009395)|phospholipid metabolic process (GO:0006644)|prostaglandin biosynthetic process (GO:0001516)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|lysosome (GO:0005764)|ruffle membrane (GO:0032587)|vesicle (GO:0031982)	calcium-dependent phospholipase A2 activity (GO:0047498)|lysophospholipase activity (GO:0004622)|metal ion binding (GO:0046872)			breast(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(3)|liver(1)|lung(12)|ovary(4)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	32		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)		CCCCAGGGCCACAGAACACTG	0.652																																																0													22	23	22					15																	42442584		2203	4299	6502	SO:0001583	missense	255189				CCDS32204.1	15q15.1	2008-09-19				ENSG00000168907	3.1.1.4		27396	protein-coding gene	gene with protein product						14702039, 15866882	Standard	NM_213600		Approved	PLA2G4F/Z	uc001zoz.3	Q68DD2		ENST00000382396.4:c.872T>C	15.37:g.42442584A>G	ENSP00000371833:p.Val291Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZMC8	Missense_Mutation	SNP	ENST00000382396.4	37	CCDS32204.1	.	.	.	.	.	.	.	.	.	.	A	11.42	1.632244	0.29068	.	.	ENSG00000168907	ENST00000290497;ENST00000397272;ENST00000382396;ENST00000357924;ENST00000443825	T;T	0.01560	4.77;4.82	4.88	4.88	0.63580	Lysophospholipase, catalytic domain (1);	0.320592	0.21644	N	0.071298	T	0.02848	0.0085	M	0.64404	1.975	0.31744	N	0.635362	P;P	0.46395	0.877;0.877	B;B	0.38106	0.265;0.197	T	0.12142	-1.0559	10	0.72032	D	0.01	-9.9511	11.1909	0.48685	1.0:0.0:0.0:0.0	.	78;291	A2RRC4;Q68DD2	.;PA24F_HUMAN	A	287;291;291;291;291	ENSP00000380442:V291A;ENSP00000371833:V291A	ENSP00000290497:V287A	V	-	2	0	PLA2G4F	40229876	0.055000	0.20627	0.840000	0.33206	0.044000	0.14063	4.335000	0.59298	1.982000	0.57802	0.533000	0.62120	GTG		0.652	PLA2G4F-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000420463.1	NM_213600		G	42442584	A	G	42442584	3	3	572	1	0	0	0	0	1	0	0	0	12013	159	6	3	1725	3	PLA2G4F	15	42442584	Missense_Mutation	SNP	A	TCGA-DW-7842-01A-11D-2136-08		42442584	60088808	28	33873										
C15orf42	90381	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr15	90129030	90129030	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	tatgatcctcactgtgtgccGcaccaaggaggctgaatttc	10	11	1	2			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr15:90129030G>A	ENST00000268138.7	+	4	1373	c.1268G>A	c.(1267-1269)cGc>cAc	p.R423H	RP11-429B14.1_ENST00000559041.1_RNA|TICRR_ENST00000560985.1_Missense_Mutation_p.R422H			Q7Z2Z1	TICRR_HUMAN	TOPBP1-interacting checkpoint and replication regulator	423					cell cycle checkpoint (GO:0000075)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|formation of translation preinitiation complex (GO:0001731)|mitotic DNA replication checkpoint (GO:0033314)|regulation of DNA-dependent DNA replication initiation (GO:0030174)|response to ionizing radiation (GO:0010212)	nucleus (GO:0005634)	chromatin binding (GO:0003682)										ACTGTGTGCCGCACCAAGGAG	0.542																																																0													86	88	87					15																	90129030		1978	4151	6129	SO:0001583	missense	90381			AK123612	CCDS10352.2	15q26.1	2012-07-11	2012-07-11	2012-07-11	ENSG00000140534	ENSG00000140534			28704	protein-coding gene	gene with protein product	"TOPBP1-interacting replication-stimulating protein", "SLD3 homolog (S. cerevisiae)"	613298	"chromosome 15 open reading frame 42"	C15orf42		20116089, 20080954	Standard	NM_152259		Approved	MGC45866, FLJ41618, Treslin, SLD3	uc002boe.3	Q7Z2Z1	OTTHUMG00000149648	ENST00000268138.7:c.1268G>A	15.37:g.90129030G>A	ENSP00000268138:p.Arg423His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE07|B3KVV9|D3IUT4|Q8N4X8|Q8NCH6|Q9BU55	Missense_Mutation	SNP	ENST00000268138.7	37	CCDS10352.2	.	.	.	.	.	.	.	.	.	.	g	3.132	-0.178303	0.06380	.	.	ENSG00000140534	ENST00000268138	T	0.13901	2.55	5.24	-2.38	0.06622	.	0.846013	0.11198	N	0.589141	T	0.08447	0.0210	L	0.27053	0.805	0.09310	N	1	B	0.14438	0.01	B	0.08055	0.003	T	0.28964	-1.0027	10	0.46703	T	0.11	0.7395	7.3452	0.26660	0.4494:0.1087:0.4419:0.0	.	423	Q7Z2Z1	TICRR_HUMAN	H	423	ENSP00000268138:R423H	ENSP00000268138:R423H	R	+	2	0	C15orf42	87930034	0.000000	0.05858	0.005000	0.12908	0.010000	0.07245	-0.060000	0.11712	-0.695000	0.05105	-0.150000	0.13652	CGC		0.542	TICRR-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000312856.1	NM_152259		A	90129030	G	A	90129030	3	1	572	1	0	0	0	0	1	0	0	0	1798	1087	38	1	1282	1	C15orf42	15	90129030	Missense_Mutation	SNP	G	TCGA-DW-7842-01A-11D-2136-08	47686446	90129030	12402362	29	33874										
PKD1	5310	ucsc.edu	37	chr16	2168072	2168072	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	acctcggcggagccgtctccGaagtcccagcgtgtggcagt	14	14	1	0	rs554071267		TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr16:2168072G>A	ENST00000262304.4	-	5	1129	c.921C>T	c.(919-921)ttC>ttT	p.F307F	PKD1_ENST00000423118.1_Silent_p.F307F|RP11-304L19.2_ENST00000562027.1_RNA	NM_001009944.2	NP_001009944	P98161	PKD1_HUMAN	polycystic kidney disease 1 (autosomal dominant)	307	PKD 1. {ECO:0000255|PROSITE- ProRule:PRU00151}.				anatomical structure morphogenesis (GO:0009653)|branching morphogenesis of an epithelial tube (GO:0048754)|calcium ion transmembrane transport (GO:0070588)|calcium-independent cell-matrix adhesion (GO:0007161)|cartilage condensation (GO:0001502)|cartilage development (GO:0051216)|cation transmembrane transport (GO:0098655)|cell cycle arrest (GO:0007050)|cell-matrix adhesion (GO:0007160)|cytoplasmic sequestering of transcription factor (GO:0042994)|detection of mechanical stimulus (GO:0050982)|digestive tract development (GO:0048565)|embryonic placenta development (GO:0001892)|genitalia development (GO:0048806)|heart development (GO:0007507)|homophilic cell adhesion (GO:0007156)|in utero embryonic development (GO:0001701)|JAK-STAT cascade (GO:0007259)|kidney development (GO:0001822)|liver development (GO:0001889)|lung epithelium development (GO:0060428)|mesonephric duct development (GO:0072177)|mesonephric tubule development (GO:0072164)|metanephric ascending thin limb development (GO:0072218)|metanephric collecting duct development (GO:0072205)|metanephric distal tubule morphogenesis (GO:0072287)|metanephric proximal tubule development (GO:0072237)|neural tube development (GO:0021915)|neuropeptide signaling pathway (GO:0007218)|nitrogen compound metabolic process (GO:0006807)|peptidyl-serine phosphorylation (GO:0018105)|placenta blood vessel development (GO:0060674)|positive regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031659)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of protein binding (GO:0032092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein export from nucleus (GO:0006611)|regulation of mitotic spindle organization (GO:0060236)|regulation of proteasomal protein catabolic process (GO:0061136)|response to fluid shear stress (GO:0034405)|skin development (GO:0043588)|spinal cord development (GO:0021510)	basolateral plasma membrane (GO:0016323)|cilium (GO:0005929)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|lateral plasma membrane (GO:0016328)|motile primary cilium (GO:0031512)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|polycystin complex (GO:0002133)	calcium channel activity (GO:0005262)|carbohydrate binding (GO:0030246)|cation channel activity (GO:0005261)|ion channel binding (GO:0044325)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(7)|kidney(6)|lung(34)|prostate(4)|skin(10)|upper_aerodigestive_tract(3)|urinary_tract(3)	72						AGCCGTCTCCGAAGTCCCAGC	0.716													g|||	1	0.000199681	0.0	0.0	5008	,	,		14557	0.0		0.0	False		,,,				2504	0.001															0													5	7	7					16																	2168072		2005	4072	6077	SO:0001819	synonymous_variant	5310			L33243	CCDS32369.1, CCDS45385.1	16p13.3	2014-01-28			ENSG00000008710	ENSG00000008710		"Voltage-gated ion channels / Transient receptor potential cation channels"	9008	protein-coding gene	gene with protein product	"polycystin 1", "transient receptor potential cation channel, subfamily P, member 1"	601313					Standard	NM_001009944		Approved	PBP, Pc-1, TRPP1	uc002cos.1	P98161	OTTHUMG00000155795	ENST00000262304.4:c.921C>T	16.37:g.2168072G>A		Somatic		WXS	Illumina HiSeq		Q15140|Q15141	Silent	SNP	ENST00000262304.4	37	CCDS32369.1																																																																																				0.716	PKD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000341688.1			A	2168072	G	A	2168072	2	1	572	1	0	0	0	0	0	0	0	1	11970	1049	37	1		1	PKD1	16	2168072	Silent	SNP	G	TCGA-DW-7842-01A-11D-2136-08		2168072	88186681	30	33875										
KPNB1	3837	broad.mit.edu	37	chr17	45727756	45727756	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	actttcctccccctagatcgGctggagctggaagcggcgca	12	14	0	1			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr17:45727756G>A	ENST00000290158.4	+	2	452	c.45G>A	c.(43-45)cgG>cgA	p.R15R	RP11-580I16.2_ENST00000582389.1_RNA|KPNB1_ENST00000540627.1_5'Flank|RP11-580I16.2_ENST00000584391.1_RNA|KPNB1_ENST00000577918.1_3'UTR|KPNB1_ENST00000535458.2_Intron|RP11-580I16.2_ENST00000580045.1_RNA	NM_001276453.1|NM_002265.4	NP_001263382.1|NP_002256.2	Q14974	IMB1_HUMAN	karyopherin (importin) beta 1	15					apoptotic DNA fragmentation (GO:0006309)|apoptotic process (GO:0006915)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cytokine-mediated signaling pathway (GO:0019221)|intracellular transport of virus (GO:0075733)|NLS-bearing protein import into nucleus (GO:0006607)|protein import into nucleus (GO:0006606)|protein import into nucleus, translocation (GO:0000060)|ribosomal protein import into nucleus (GO:0006610)|small molecule metabolic process (GO:0044281)|viral life cycle (GO:0019058)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum tubular network (GO:0071782)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nuclear pore (GO:0005643)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	enzyme binding (GO:0019899)|nuclear localization sequence binding (GO:0008139)|poly(A) RNA binding (GO:0044822)|protein domain specific binding (GO:0019904)|protein transporter activity (GO:0008565)|zinc ion binding (GO:0008270)			breast(1)|ovary(1)|pancreas(1)|skin(1)	4						CCCTAGATCGGCTGGAGCTGG	0.716																																																0													16	18	17					17																	45727756		2203	4299	6502	SO:0001819	synonymous_variant	3837			L39793	CCDS11513.1, CCDS62228.1	17q21.32	2013-02-14			ENSG00000108424	ENSG00000108424		"Importins", "Armadillo repeat containing"	6400	protein-coding gene	gene with protein product	"importin 1"	602738				7615630, 7627554	Standard	NM_002265		Approved	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1	uc002ilt.2	Q14974	OTTHUMG00000036957	ENST00000290158.4:c.45G>A	17.37:g.45727756G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZAV6|D3DTT3|Q14637|Q53XN2|Q96J27	Silent	SNP	ENST00000290158.4	37	CCDS11513.1																																																																																				0.716	KPNB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089755.2	NM_002265		A	45727756	G	A	45727756	2	1	572	1	0	0	0	0	0	0	0	1	8442	1190	42	2		2	KPNB1	17	45727756	Silent	SNP	G	TCGA-DW-7842-01A-11D-2136-08		45727756	35467454	31	33876										
APCDD1	147495	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	10487950	10487950	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	tggaagcagcctgtatggccGggcccctgggaggcacacct	15	13	0	0	rs112875590		TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr18:10487950G>A	ENST00000355285.5	+	5	1814	c.1460G>A	c.(1459-1461)cGg>cAg	p.R487Q		NM_153000.4	NP_694545.1			adenomatosis polyposis coli down-regulated 1											NS(1)|breast(1)|endometrium(3)|large_intestine(5)|lung(7)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	22				READ - Rectum adenocarcinoma(15;0.08)		CTGTATGGCCGGGCCCCTGGG	0.592													G|||	1	0.000199681	0.0	0.0014	5008	,	,		15602	0.0		0.0	False		,,,				2504	0.0															0								G	GLN/ARG	3,4399	6.2+/-15.9	0,3,2198	50	57	55		1460	0.4	0	18	dbSNP_132	55	0,8600		0,0,4300	yes	missense	APCDD1	NM_153000.4	43	0,3,6498	AA,AG,GG		0.0,0.0682,0.0231	benign	487/515	10487950	3,12999	2201	4300	6501	SO:0001583	missense	147495			AB056722	CCDS11849.1	18p11.21	2006-07-07			ENSG00000154856	ENSG00000154856			15718	protein-coding gene	gene with protein product		607479				12384519	Standard	NM_153000		Approved	B7323	uc002kom.4	Q8J025	OTTHUMG00000131635	ENST00000355285.5:c.1460G>A	18.37:g.10487950G>A	ENSP00000347433:p.Arg487Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000355285.5	37	CCDS11849.1	1	4.578754578754579E-4	0	0.0	1	0.0027624309392265192	0	0.0	0	0.0	G	11.83	1.755053	0.31046	6.82E-4	0.0	ENSG00000154856	ENST00000355285;ENST00000423585	T	0.36699	1.24	5.32	0.44	0.16572	.	1.125910	0.06382	N	0.715392	T	0.30823	0.0777	L	0.50333	1.59	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.26815	-1.0092	10	0.37606	T	0.19	-4.4675	5.3468	0.16014	0.2761:0.2485:0.4753:0.0	.	487	Q8J025	APCD1_HUMAN	Q	487;538	ENSP00000347433:R487Q	ENSP00000347433:R487Q	R	+	2	0	APCDD1	10477950	0.001000	0.12720	0.003000	0.11579	0.069000	0.16628	0.165000	0.16564	-0.217000	0.10033	0.563000	0.77884	CGG		0.592	APCDD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254529.2	NM_153000		A	10487950	G	A	10487950	3	1	572	1	0	0	0	0	1	0	0	0	765	1116	39	1	1478	1	APCDD1	18	10487950	Missense_Mutation	SNP	G	TCGA-DW-7842-01A-11D-2136-08		10487950	67589298	32	33877										
DSG4	147409	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	28980927	28980927	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	attttctagagaatttgataAgaagtcaaaatatattatca	5	3	3	3			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr18:28980927A>T	ENST00000308128.4	+	10	1496	c.1361A>T	c.(1360-1362)aAg>aTg	p.K454M	DSG4_ENST00000359747.4_Missense_Mutation_p.K454M|RP11-534N16.1_ENST00000581452.1_RNA|RP11-534N16.1_ENST00000581856.1_RNA|RP11-534N16.1_ENST00000578477.1_RNA	NM_177986.3	NP_817123.1	Q86SJ6	DSG4_HUMAN	desmoglein 4	454	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				anagen (GO:0042640)|BMP signaling pathway (GO:0030509)|homophilic cell adhesion (GO:0007156)|keratinocyte differentiation (GO:0030216)|single organismal cell-cell adhesion (GO:0016337)	desmosome (GO:0030057)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(1)|central_nervous_system(6)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(11)|liver(2)|lung(35)|ovary(4)|skin(1)|stomach(1)|urinary_tract(1)	70			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			GAATTTGATAAGAAGTCAAAA	0.289																																																0													43	48	47					18																	28980927		2199	4283	6482	SO:0001583	missense	147409			AY177664, AY168788	CCDS11897.1, CCDS45845.1	18q12.1	2010-01-26			ENSG00000175065	ENSG00000175065		"Cadherins / Major cadherins"	21307	protein-coding gene	gene with protein product		607892				12648213	Standard	NM_001134453		Approved	CDHF13, LAH	uc002kwq.2	Q86SJ6	OTTHUMG00000131979	ENST00000308128.4:c.1361A>T	18.37:g.28980927A>T	ENSP00000311859:p.Lys454Met	Somatic		WXS	Illumina HiSeq	Phase_I	A2RUI1|Q6Y9L9|Q8IXV4	Missense_Mutation	SNP	ENST00000308128.4	37	CCDS11897.1	.	.	.	.	.	.	.	.	.	.	A	11.68	1.710083	0.30322	.	.	ENSG00000175065	ENST00000308128;ENST00000359747	T;T	0.52754	0.65;0.65	5.24	-7.62	0.01294	Cadherin (4);Cadherin-like (1);	1.092760	0.07279	N	0.870439	T	0.14657	0.0354	N	0.01188	-0.97	0.21740	N	0.999565	B;B	0.18013	0.025;0.003	B;B	0.19666	0.025;0.026	T	0.23226	-1.0194	10	0.62326	D	0.03	.	2.8038	0.05422	0.1395:0.4432:0.1978:0.2195	.	454;454	Q86SJ6-2;Q86SJ6	.;DSG4_HUMAN	M	454	ENSP00000311859:K454M;ENSP00000352785:K454M	ENSP00000311859:K454M	K	+	2	0	DSG4	27234925	0.528000	0.26314	0.657000	0.29651	0.818000	0.46254	0.238000	0.18004	-1.023000	0.03342	-2.955000	0.00083	AAG		0.289	DSG4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254941.1	NM_177986		T	28980927	A	T	28980927	3	4	572	1	0	0	0	0	1	0	0	0	4781	72	3	5	1399	5	DSG4	18	28980927	Missense_Mutation	SNP	A	TCGA-DW-7842-01A-11D-2136-08	18492977	28980927	49096321	33	33878										
WDR18	57418	hgsc.bcm.edu;broad.mit.edu	37	chr19	992048	992048	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	gctgccccacttcaacaagcAcctgctgggcgccgagcacg	11	17	1	0			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr19:992048A>G	ENST00000251289.5	+	8	1048	c.1025A>G	c.(1024-1026)cAc>cGc	p.H342R	WDR18_ENST00000587001.2_Missense_Mutation_p.H342R	NM_024100.3	NP_077005.2	Q9BV38	WDR18_HUMAN	WD repeat domain 18	342					multicellular organismal development (GO:0007275)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				endometrium(1)|kidney(2)|lung(2)|skin(2)	7		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TTCAACAAGCACCTGCTGGGC	0.716																																																0													9	10	9					19																	992048		2129	4155	6284	SO:0001583	missense	57418				CCDS12051.1	19p13.3	2013-01-09				ENSG00000065268		"WD repeat domain containing"	17956	protein-coding gene	gene with protein product	"Involved in Processing ITS2 3 homolog (S. cerevisiae)"					22190735	Standard	NM_024100		Approved	Ipi3	uc002lqm.1	Q9BV38		ENST00000251289.5:c.1025A>G	19.37:g.992048A>G	ENSP00000251289:p.His342Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O60390|Q9BWR2	Missense_Mutation	SNP	ENST00000251289.5	37	CCDS12051.1	.	.	.	.	.	.	.	.	.	.	A	11.62	1.692269	0.30052	.	.	ENSG00000065268	ENST00000251289	T	0.69435	-0.4	4.28	4.28	0.50868	.	0.056115	0.64402	D	0.000001	T	0.60843	0.2300	M	0.63843	1.955	0.44798	D	0.997803	P	0.50272	0.933	B	0.44108	0.441	T	0.62020	-0.6942	10	0.06757	T	0.87	.	12.3826	0.55315	1.0:0.0:0.0:0.0	.	342	Q9BV38	WDR18_HUMAN	R	342	ENSP00000251289:H342R	ENSP00000251289:H342R	H	+	2	0	WDR18	943048	1.000000	0.71417	1.000000	0.80357	0.541000	0.35023	5.202000	0.65169	1.806000	0.52798	0.402000	0.26972	CAC		0.716	WDR18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458225.2			G	992048	A	G	992048	3	3	572	1	0	0	0	0	1	0	0	0	17290	159	6	3	1055	3	WDR18	19	992048	Missense_Mutation	SNP	A	TCGA-DW-7842-01A-11D-2136-08		992048	58136935	34	33879										
NDUFA11	126328	ucsc.edu	37	chr19	5897010	5897010	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	taggcagcggcggtcaggccTgcgagacagaggagggaggc	20	9	1	2			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr19:5897010T>A	ENST00000308961.4	-	2	145		c.e2-2		AC104532.3_ENST00000589277.1_RNA|NDUFA11_ENST00000592634.1_Splice_Site|NDUFA11_ENST00000418389.2_Splice_Site|AC024592.12_ENST00000586349.1_Splice_Site|FUT5_ENST00000252675.5_Splice_Site|AC104532.3_ENST00000590441.1_RNA	NM_175614.4	NP_783313.1	Q86Y39	NDUAB_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 11, 14.7kDa						cellular metabolic process (GO:0044237)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain complex I (GO:0005747)|mitochondrion (GO:0005739)				central_nervous_system(1)|lung(1)	2						CGGTCAGGCCTGCGAGACAGA	0.612																																																0													118	102	108					19																	5897010		2203	4300	6503	SO:0001630	splice_region_variant	126328			AJ539081	CCDS12155.1, CCDS54203.1	19p13.3	2011-07-04				ENSG00000174886		"Mitochondrial respiratory chain complex / Complex I"	20371	protein-coding gene	gene with protein product	"complex I B14.7 subunit"	612638				12381726	Standard	NM_001193375		Approved	B14.7	uc002mdp.2	Q86Y39		ENST00000308961.4:c.98-2A>T	19.37:g.5897010T>A		Somatic		WXS	Illumina HiSeq		C9JT23|Q6ZS66	Splice_Site	SNP	ENST00000308961.4	37	CCDS12155.1	.	.	.	.	.	.	.	.	.	.	T	14.72	2.620763	0.46736	.	.	ENSG00000174886	ENST00000418389;ENST00000308961	.	.	.	3.96	3.96	0.45880	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	9.5079	0.39058	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	NDUFA11	5848010	0.976000	0.34144	0.906000	0.35671	0.227000	0.25037	2.368000	0.44222	1.583000	0.49898	0.334000	0.21626	.		0.612	NDUFA11-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452218.1	NM_175614	Intron	A	5897010	T	A	5897010	5	1	572	1	0	0	0	0	0	0	1	0	10268	1594	55	5	341	5	NDUFA11	19	5897010	Splice_Site	SNP	T	TCGA-DW-7842-01A-11D-2136-08	4904962	5897010	53231973	35	33880										
TSHZ3	57616	hgsc.bcm.edu	37	chr19	31770237	31770237	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	ccacagctgctgctgctgctActgctgctgctgctgctgcc	11	16	0	0			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr19:31770237A>G	ENST00000240587.4	-	2	789	c.462T>C	c.(460-462)agT>agC	p.S154S		NM_020856.2	NP_065907.2	Q63HK5	TSH3_HUMAN	teashirt zinc finger homeobox 3	154	Ser-rich.				in utero embryonic development (GO:0001701)|kidney morphogenesis (GO:0060993)|kidney smooth muscle cell differentiation (GO:0072195)|lung development (GO:0030324)|metanephros development (GO:0001656)|musculoskeletal movement (GO:0050881)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of smooth muscle cell differentiation (GO:0051152)|regulation of respiratory gaseous exchange by neurological system process (GO:0002087)|sensory perception of touch (GO:0050975)|transcription, DNA-templated (GO:0006351)|ureter smooth muscle cell differentiation (GO:0072193)|ureteric bud development (GO:0001657)|ureteric peristalsis (GO:0072105)	growth cone (GO:0030426)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(4)|endometrium(15)|kidney(9)|large_intestine(20)|lung(60)|ovary(4)|pancreas(2)|prostate(4)|skin(5)	123	Esophageal squamous(110;0.226)					tgctgctgctactgctgctgc	0.607																																																0													39	44	42					19																	31770237		2184	4294	6478	SO:0001819	synonymous_variant	57616			AL136805	CCDS12421.2	19q13.11	2013-11-20	2007-07-16	2006-03-14	ENSG00000121297	ENSG00000121297		"Teashirt zinc fingers", "Homeoboxes / ZF class", "Zinc fingers, C2H2-type"	30700	protein-coding gene	gene with protein product	"teashirt 3"	614119	"zinc finger protein 537", "teashirt family zinc finger 3"	ZNF537			Standard	NM_020856		Approved	KIAA1474, TSH3	uc002nsy.4	Q63HK5	OTTHUMG00000150184	ENST00000240587.4:c.462T>C	19.37:g.31770237A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H0G6|Q9P254	Silent	SNP	ENST00000240587.4	37	CCDS12421.2																																																																																				0.607	TSHZ3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316743.2	NM_020856		G	31770237	A	G	31770237	2	3	572	1	0	0	0	0	0	0	0	1	16637	388	14	3		3	TSHZ3	19	31770237	Silent	SNP	A	TCGA-DW-7842-01A-11D-2136-08	25873227	31770237	27358746	36	33881										
AKT2	208	hgsc.bcm.edu	37	chr19	40743950	40743950	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	aatctctgcaccataaaaccGggcccgctcctctgtgaaga	8	14	2	2			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr19:40743950G>A	ENST00000392038.2	-	9	1055	c.757C>T	c.(757-759)Cgg>Tgg	p.R253W	AKT2_ENST00000579047.1_Missense_Mutation_p.R191W|AKT2_ENST00000424901.1_Missense_Mutation_p.R253W|AKT2_ENST00000311278.6_Missense_Mutation_p.R253W	NM_001243027.1|NM_001243028.1|NM_001626.4	NP_001229956.1|NP_001229957.1|NP_001617.1	P31751	AKT2_HUMAN	v-akt murine thymoma viral oncogene homolog 2	253	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of Ral GTPase activity (GO:0032859)|apoptotic process (GO:0006915)|carbohydrate transport (GO:0008643)|cellular protein modification process (GO:0006464)|cellular response to insulin stimulus (GO:0032869)|fat cell differentiation (GO:0045444)|glucose metabolic process (GO:0006006)|glycogen biosynthetic process (GO:0005978)|insulin receptor signaling pathway (GO:0008286)|intracellular protein transmembrane transport (GO:0065002)|mammary gland epithelial cell differentiation (GO:0060644)|membrane organization (GO:0061024)|negative regulation of plasma membrane long-chain fatty acid transport (GO:0010748)|peripheral nervous system myelin maintenance (GO:0032287)|positive regulation of cell motility (GO:2000147)|positive regulation of fatty acid beta-oxidation (GO:0032000)|positive regulation of glucose import (GO:0046326)|positive regulation of glucose import in response to insulin stimulus (GO:2001275)|positive regulation of glucose metabolic process (GO:0010907)|positive regulation of glycogen biosynthetic process (GO:0045725)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of vesicle fusion (GO:0031340)|protein localization to plasma membrane (GO:0072659)|regulation of cell cycle arrest (GO:0071156)|regulation of cell migration (GO:0030334)|regulation of translation (GO:0006417)|signal transduction (GO:0007165)	cell cortex (GO:0005938)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)	ATP binding (GO:0005524)|kinase activity (GO:0016301)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|cervix(1)|kidney(3)|large_intestine(9)|lung(10)|prostate(2)|skin(1)	27			Lung(22;0.000499)			CCATAAAACCGGGCCCGCTCC	0.622			A		"ovarian, pancreatic "																																		Dom	yes		19	19q13.1-q13.2	208	v-akt murine thymoma viral oncogene homolog 2		E	0													105	80	88					19																	40743950		2203	4300	6503	SO:0001583	missense	208			M77198	CCDS12552.1	19q13.1-q13.2	2013-01-10			ENSG00000105221	ENSG00000105221	2.7.11.1	"Pleckstrin homology (PH) domain containing"	392	protein-coding gene	gene with protein product		164731				1409633	Standard	NM_001626		Approved		uc002onf.3	P31751	OTTHUMG00000137375	ENST00000392038.2:c.757C>T	19.37:g.40743950G>A	ENSP00000375892:p.Arg253Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBD8|Q05BV0|Q0VAN0|Q0VAN1|Q68GC0	Missense_Mutation	SNP	ENST00000392038.2	37	CCDS12552.1	.	.	.	.	.	.	.	.	.	.	G	27.3	4.818854	0.90873	.	.	ENSG00000105221	ENST00000392038;ENST00000391844;ENST00000424901;ENST00000311278;ENST00000391845	T;T;T	0.27104	1.69;1.69;1.69	4.7	3.66	0.41972	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.51075	0.1653	M	0.80847	2.515	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.998;0.997;0.999	T	0.57596	-0.7784	10	0.87932	D	0	.	12.1535	0.54064	0.0852:0.0:0.9148:0.0	.	191;253;253	B4DG79;Q0VAN0;P31751	.;.;AKT2_HUMAN	W	253;154;253;253;73	ENSP00000375892:R253W;ENSP00000399532:R253W;ENSP00000309428:R253W	ENSP00000309428:R253W	R	-	1	2	AKT2	45435790	1.000000	0.71417	0.925000	0.36789	0.991000	0.79684	7.677000	0.84024	1.342000	0.45619	0.655000	0.94253	CGG		0.622	AKT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268029.1	NM_001626		A	40743950	G	A	40743950	3	1	572	1	0	0	0	0	1	0	0	0	480	1115	39	1	712	1	AKT2	19	40743950	Missense_Mutation	SNP	G	TCGA-DW-7842-01A-11D-2136-08	8973713	40743950	18385033	37	33882										
PVRL2	5819	broad.mit.edu	37	chr19	45349842	45349844	+	In_Frame_Del	DEL	GCT	GCT	-													0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	ccgacgccgctgctgtggccGctgctgctgctgctgctcct							TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	GCT	GCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr19:45349842_45349844delGCT	ENST00000252483.5	+	1	60_62	c.60_62delGCT	c.(58-63)ccgctg>ccg	p.L27del	PVRL2_ENST00000252485.4_In_Frame_Del_p.L27del	NM_001042724.1	NP_001036189.1	Q92692	PVRL2_HUMAN	poliovirus receptor-related 2 (herpesvirus entry mediator B)	27					acrosome assembly (GO:0001675)|adherens junction organization (GO:0034332)|adhesion of symbiont to host (GO:0044406)|cell junction assembly (GO:0034329)|cell part morphogenesis (GO:0032990)|cell-cell junction organization (GO:0045216)|cilium organization (GO:0044782)|coreceptor-mediated virion attachment to host cell (GO:0046814)|cytoskeleton organization (GO:0007010)|establishment of mitochondrion localization (GO:0051654)|fertilization (GO:0009566)|fusion of virus membrane with host plasma membrane (GO:0019064)|homophilic cell adhesion (GO:0007156)|positive regulation of immunoglobulin mediated immune response (GO:0002891)|positive regulation of mast cell activation (GO:0033005)|positive regulation of natural killer cell mediated cytotoxicity (GO:0045954)|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target (GO:0002860)|regulation of immune response (GO:0050776)|signal transduction (GO:0007165)|sperm mitochondrion organization (GO:0030382)|spermatid development (GO:0007286)|spermatid nucleus differentiation (GO:0007289)|susceptibility to natural killer cell mediated cytotoxicity (GO:0042271)|susceptibility to T cell mediated cytotoxicity (GO:0060370)	cell surface (GO:0009986)|cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|zonula adherens (GO:0005915)	cell adhesion molecule binding (GO:0050839)|coreceptor activity (GO:0015026)|identical protein binding (GO:0042802)|protein homodimerization activity (GO:0042803)|virus receptor activity (GO:0001618)			breast(1)|endometrium(1)|large_intestine(6)|lung(5)	13	Lung NSC(12;0.00195)|all_lung(12;0.00522)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0143)		tgctgtggccgctgctgctgctg	0.759																																																0									,	17,1559		4,9,775					,	-4.8	0			1	20,3132		3,14,1559	no	coding,coding	PVRL2	NM_002856.2,NM_001042724.1	,	7,23,2334	A1A1,A1R,RR		0.6345,1.0787,0.7826	,	,		37,4691				SO:0001651	inframe_deletion	5819			X80038	CCDS12645.1, CCDS42576.1	19q13.32	2013-01-29			ENSG00000130202	ENSG00000130202		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9707	protein-coding gene	gene with protein product		600798		HVEB		7622062, 10196354	Standard	NM_001042724		Approved	PVRR2, PRR2, CD112	uc002ozw.1	Q92692	OTTHUMG00000180839	ENST00000252483.5:c.60_62delGCT	19.37:g.45349851_45349853delGCT	ENSP00000252483:p.Leu27del	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5L5|O75455|Q6IBI6|Q96J29	In_Frame_Del	DEL	ENST00000252483.5	37	CCDS42576.1																																																																																				0.759	PVRL2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000453231.1	NM_002856		-	45349844	GCT	-	45349842	7	5	572	1	0	1	0	1	0	0	0	0	12853	1074	38	0	62	0	PVRL2	19	45349842	In_Frame_Del	DEL	GCT	TCGA-DW-7842-01A-11D-2136-08	4605892	45349842	13779141	38	33883										
KLK7	5650	hgsc.bcm.edu	37	chr19	51485616	51485616	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	agtttccaaggctaaggataGcagtaagatctgcaggggca	13	7	1	1	rs372381913		TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr19:51485616G>C	ENST00000391807.1	-	2	141	c.40C>G	c.(40-42)Cta>Gta	p.L14V	KLK7_ENST00000595638.1_5'UTR|CTB-147C22.9_ENST00000594512.1_RNA|KLK7_ENST00000336317.4_5'UTR|KLK7_ENST00000595820.1_Missense_Mutation_p.L14V|KLK7_ENST00000597707.1_Intron	NM_139277.2	NP_644806.1	P49862	KLK7_HUMAN	kallikrein-related peptidase 7	14					epidermis development (GO:0008544)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	epidermal lamellar body (GO:0097209)|extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			NS(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(11)|ovary(2)	19		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00382)|GBM - Glioblastoma multiforme(134;0.00895)		GCTAAGGATAGCAGTAAGATC	0.607																																																0													62	47	52					19																	51485616		2203	4298	6501	SO:0001583	missense	5650			L33404	CCDS12812.1, CCDS59414.1	19q13.33	2011-09-07	2006-10-27			ENSG00000169035		"Kallikreins", "Serine peptidases / Serine peptidases"	6368	protein-coding gene	gene with protein product		604438	"kallikrein 7 (chymotryptic, stratum corneum)"	PRSS6		8034709, 16800724, 16800723	Standard	NM_005046		Approved	SCCE	uc021uyj.1	P49862		ENST00000391807.1:c.40C>G	19.37:g.51485616G>C	ENSP00000375683:p.Leu14Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0U5|Q8N5N9|Q8NFV7	Missense_Mutation	SNP	ENST00000391807.1	37	CCDS12812.1	.	.	.	.	.	.	.	.	.	.	g	6.488	0.458260	0.12342	.	.	ENSG00000169035	ENST00000304045;ENST00000391807	D	0.92965	-3.14	2.77	1.72	0.24424	.	.	.	.	.	D	0.89880	0.6843	N	0.20483	0.58	0.21933	N	0.999467	D	0.63880	0.993	D	0.73708	0.981	T	0.79741	-0.1676	9	0.22109	T	0.4	.	5.6632	0.17680	0.1529:0.0:0.8471:0.0	.	14	P49862	KLK7_HUMAN	V	14	ENSP00000375683:L14V	ENSP00000304791:L14V	L	-	1	2	KLK7	56177428	0.779000	0.28652	0.175000	0.22980	0.024000	0.10985	1.316000	0.33620	0.749000	0.32854	0.645000	0.84053	CTA		0.607	KLK7-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464344.1	NM_005046		C	51485616	G	C	51485616	3	2	572	1	0	0	0	0	1	0	0	0	8416	962	34	4	741	4	KLK7	19	51485616	Missense_Mutation	SNP	G	TCGA-DW-7842-01A-11D-2136-08	6135774	51485616	7643367	39	33884										
NLRP5	126206	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	56511120	56511120	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	tgcaggaggacttgaacttgGagctgctgctctgctctcag	13	10	2	1			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr19:56511120G>A	ENST00000390649.3	+	1	29	c.29G>A	c.(28-30)gGa>gAa	p.G10E		NM_153447.4	NP_703148.4	P59047	NALP5_HUMAN	NLR family, pyrin domain containing 5	10					cellular protein complex assembly (GO:0043623)|cellular protein localization (GO:0034613)|embryo implantation (GO:0007566)|fertilization (GO:0009566)|in utero embryonic development (GO:0001701)|neuron death (GO:0070997)|organ morphogenesis (GO:0009887)|regulation of protein stability (GO:0031647)|regulation of RNA stability (GO:0043487)	apical cortex (GO:0045179)|cytosol (GO:0005829)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|protein complex (GO:0043234)	ATP binding (GO:0005524)			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|ovary(5)|skin(2)|stomach(4)|upper_aerodigestive_tract(2)	25		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		cttgaacttggagctgcTGCT	0.517																																																0													208	212	210					19																	56511120		2101	4218	6319	SO:0001583	missense	126206			AY154460	CCDS12938.1	19q13.43	2008-10-30	2006-12-08	2006-12-08	ENSG00000171487	ENSG00000171487		"Nucleotide-binding domain and leucine rich repeat containing"	21269	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 5"	609658	"NACHT, leucine rich repeat and PYD containing 5"	NALP5		12563287, 11925379	Standard	NM_153447		Approved	PYPAF8, MATER, PAN11, CLR19.8	uc002qmj.3	P59047	OTTHUMG00000149887	ENST00000390649.3:c.29G>A	19.37:g.56511120G>A	ENSP00000375063:p.Gly10Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8MTY4|Q86W29	Missense_Mutation	SNP	ENST00000390649.3	37	CCDS12938.1	.	.	.	.	.	.	.	.	.	.	G	7.564	0.665223	0.14710	.	.	ENSG00000171487	ENST00000390649	T	0.74106	-0.81	0.492	0.492	0.16872	.	.	.	.	.	T	0.68860	0.3047	N	0.08118	0	0.09310	N	1	D	0.76494	0.999	D	0.71184	0.972	T	0.59215	-0.7496	8	0.87932	D	0	.	.	.	.	.	10	P59047	NALP5_HUMAN	E	10	ENSP00000375063:G10E	ENSP00000375063:G10E	G	+	2	0	NLRP5	61202932	0.005000	0.15991	0.037000	0.18230	0.032000	0.12392	-0.354000	0.07681	0.528000	0.28580	0.298000	0.19748	GGA		0.517	NLRP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313735.1	NM_153447		A	56511120	G	A	56511120	3	1	572	1	0	0	0	0	1	0	0	0	10487	1174	41	2	31	2	NLRP5	19	56511120	Missense_Mutation	SNP	G	TCGA-DW-7842-01A-11D-2136-08	5025504	56511120	2617863	40	33885										
C20orf12	55184	hgsc.bcm.edu	37	chr20	18435935	18435935	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	attttcaacattgtcttcagGagagactatatttggtggtt	9	5	3	1			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr20:18435935G>C	ENST00000358866.6	-	3	356	c.334C>G	c.(334-336)Cct>Gct	p.P112A	DZANK1_ENST00000357236.4_5'UTR|DZANK1_ENST00000329494.5_Missense_Mutation_p.P112A|DZANK1_ENST00000487128.1_5'Flank|DZANK1_ENST00000262547.5_Missense_Mutation_p.P112A			Q9NVP4	DZAN1_HUMAN	double zinc ribbon and ankyrin repeat domains 1	112							zinc ion binding (GO:0008270)			NS(1)|cervix(1)|endometrium(2)|large_intestine(5)|lung(10)	19						TTGTCTTCAGGAGAGACTATA	0.353																																																0													118	107	110					20																	18435935		1877	4108	5985	SO:0001583	missense	55184			AK001462	CCDS46582.1	20p11.23	2013-01-11	2011-10-03	2011-10-03	ENSG00000089091	ENSG00000089091		"Ankyrin repeat domain containing"	15858	protein-coding gene	gene with protein product	"ankyrin repeat domain 64"		"chromosome 20 open reading frame 12"	C20orf84, C20orf12			Standard	NM_001099407		Approved	FLJ10600, dJ568F9.2, FLJ30892, bA189K21.8, ANKRD64	uc002wqq.4	Q9NVP4	OTTHUMG00000031968	ENST00000358866.6:c.334C>G	20.37:g.18435935G>C	ENSP00000351734:p.Pro112Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLZ4|Q4F7X1|Q5QPD9|Q5QPE0|Q68DN8|Q6ZMX9|Q96NF0|Q9H1E0|Q9H442	Missense_Mutation	SNP	ENST00000358866.6	37	CCDS46582.1	.	.	.	.	.	.	.	.	.	.	G	0.005	-2.212554	0.00289	.	.	ENSG00000089091	ENST00000262547;ENST00000329494	T;T	0.62498	0.02;0.71	5.82	2.33	0.28932	.	0.424852	0.22007	U	0.065935	T	0.37265	0.0997	N	0.14661	0.345	0.09310	N	0.999996	B;B	0.15473	0.013;0.013	B;B	0.13407	0.009;0.009	T	0.14811	-1.0459	10	0.22109	T	0.4	-0.7175	4.7495	0.13054	0.7013:0.0:0.1593:0.1394	.	112;112	B7Z631;Q9NVP4	.;DZAN1_HUMAN	A	112	ENSP00000262547:P112A;ENSP00000328866:P112A	ENSP00000262547:P112A	P	-	1	0	C20orf12	18383935	0.321000	0.24625	0.014000	0.15608	0.019000	0.09904	0.431000	0.21444	0.127000	0.18452	-1.284000	0.01376	CCT		0.353	DZANK1-011	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000471926.1	NM_001099407		C	18435935	G	C	18435935	3	2	572	1	0	0	0	0	1	0	0	0	2087	1174	41	4	1996	4	C20orf12	20	18435935	Missense_Mutation	SNP	G	TCGA-DW-7842-01A-11D-2136-08		18435935	44589585	41	33886										
SLC19A1	6573	hgsc.bcm.edu	37	chr21	46935688	46935688	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	atctgcagcctcagggcctgAggcttgggcggagcacagag	16	11	2	2			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chr21:46935688A>G	ENST00000311124.4	-	6	1812	c.1660T>C	c.(1660-1662)Tca>Cca	p.S554P	SLC19A1_ENST00000380010.4_Intron|SLC19A1_ENST00000485649.2_Missense_Mutation_p.S514P|SLC19A1_ENST00000468508.1_5'Flank|SLC19A1_ENST00000567670.1_Intron	NM_194255.2	NP_919231.1	P41440	S19A1_HUMAN	solute carrier family 19 (folate transporter), member 1	554					folic acid metabolic process (GO:0046655)|folic acid transport (GO:0015884)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	folic acid binding (GO:0005542)|folic acid transporter activity (GO:0008517)|methotrexate transporter activity (GO:0015350)			endometrium(4)|kidney(1)|large_intestine(1)|lung(1)|prostate(1)|skin(1)|urinary_tract(1)	10				Colorectal(79;0.0569)|READ - Rectum adenocarcinoma(84;0.172)	Methotrexate(DB00563)|Pralatrexate(DB06813)	TCAGGGCCTGAGGCTTGGGCG	0.637																																																0													44	44	44					21																	46935688		2203	4300	6503	SO:0001583	missense	6573			U15939	CCDS13725.1, CCDS56217.1, CCDS56218.1	21q22.3	2013-05-22			ENSG00000173638	ENSG00000173638		"Solute carriers"	10937	protein-coding gene	gene with protein product		600424				9570943	Standard	NM_194255		Approved	FOLT	uc002zhl.2	P41440	OTTHUMG00000090397	ENST00000311124.4:c.1660T>C	21.37:g.46935688A>G	ENSP00000308895:p.Ser554Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7U8|B7Z8C3|E9PFY4|O00553|O60227|Q13026|Q9BTX8	Missense_Mutation	SNP	ENST00000311124.4	37	CCDS13725.1	.	.	.	.	.	.	.	.	.	.	A	14.08	2.430071	0.43122	.	.	ENSG00000173638	ENST00000311124;ENST00000485649	D;D	0.84944	-1.91;-1.92	2.86	-2.08	0.07254	.	.	.	.	.	T	0.64713	0.2623	N	0.19112	0.55	0.09310	N	1	P;P	0.42078	0.77;0.77	B;B	0.32090	0.14;0.14	T	0.59700	-0.7405	9	0.87932	D	0	.	0.6492	0.00823	0.4614:0.2055:0.1326:0.2004	.	514;554	B7Z8C3;P41440	.;S19A1_HUMAN	P	554;514	ENSP00000308895:S554P;ENSP00000441772:S514P	ENSP00000308895:S554P	S	-	1	0	SLC19A1	45760116	0.002000	0.14202	0.000000	0.03702	0.004000	0.04260	-0.670000	0.05256	-0.524000	0.06400	-0.456000	0.05471	TCA		0.637	SLC19A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206796.1			G	46935688	A	G	46935688	3	3	572	1	0	0	0	0	1	0	0	0	14441	304	11	3	119	3	SLC19A1	21	46935688	Missense_Mutation	SNP	A	TCGA-DW-7842-01A-11D-2136-08		46935688	1194207	42	33887										
CXorf59	286464	hgsc.bcm.edu	37	chrX	36156552	36156552	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	tgattattgtaaatactcttTatgaaattgactttgacgtg	7	4	1	4			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chrX:36156552T>C	ENST00000313548.4	+	10	1417	c.1231T>C	c.(1231-1233)Tat>Cat	p.Y411H		NM_173695.2	NP_775966.1	Q8N9S7	CHDC2_HUMAN	calponin homology domain containing 2	411	CH.					integral component of membrane (GO:0016021)											AAATACTCTTTATGAAATTGA	0.289																																																0													76	71	72					X																	36156552		2201	4293	6494	SO:0001583	missense	286464			AK093920	CCDS14238.1	Xp21.1	2014-08-07	2012-11-28	2012-11-28	ENSG00000176034	ENSG00000176034			26708	protein-coding gene	gene with protein product			"chromosome X open reading frame 59"	CXorf59			Standard	NM_173695		Approved	FLJ36601, RP13-11B7.1	uc004ddk.1	Q8N9S7	OTTHUMG00000021351	ENST00000313548.4:c.1231T>C	X.37:g.36156552T>C	ENSP00000324767:p.Tyr411His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000313548.4	37	CCDS14238.1	.	.	.	.	.	.	.	.	.	.	T	0.009	-1.826393	0.00589	.	.	ENSG00000176034	ENST00000378660;ENST00000313548	.	.	.	5.16	1.19	0.21007	Calponin homology domain (1);	1.689990	0.03708	N	0.249711	T	0.10252	0.0251	N	0.00707	-1.245	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.21655	-1.0239	9	0.19147	T	0.46	-5.0E-4	6.2666	0.20930	0.1325:0.6632:0.0:0.2043	.	411	Q8N9S7	CX059_HUMAN	H	411	.	ENSP00000324767:Y411H	Y	+	1	0	CXorf59	36066473	0.004000	0.15560	0.000000	0.03702	0.002000	0.02628	0.719000	0.25881	-0.165000	0.10908	-1.043000	0.02367	TAT		0.289	CHDC2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_173695		C	36156552	T	C	36156552	3	2	572	1	0	0	0	0	1	0	0	0	4117	1754	61	3	1265	3	CXorf59	23	36156552	Missense_Mutation	SNP	T	TCGA-DW-7842-01A-11D-2136-08		36156552	119114008	43	33888										
ZBTB33	10009	broad.mit.edu	37	chrX	119387346	119387346	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	2	1	0.861071597913703	2.04504504504505	0.545345345345345	1	1	0	tgaactccttgaatgagcaaCgtggccatggactcttctgt	10	10	2	3			TCGA-DW-7842-01A-11D-2136-08	TCGA-DW-7842-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fe91ee01-61e4-4310-b1e9-387033d215a6	bbdb56a6-a63a-419c-91dc-54bd9502aa64	g.chrX:119387346C>T	ENST00000326624.2	+	2	304	c.76C>T	c.(76-78)Cgt>Tgt	p.R26C	ZBTB33_ENST00000557385.1_Missense_Mutation_p.R26C	NM_006777.3	NP_006768.1	Q86T24	KAISO_HUMAN	zinc finger and BTB domain containing 33	26	Interaction with NCOR1.|Self-association. {ECO:0000250}.				intracellular signal transduction (GO:0035556)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|methyl-CpG binding (GO:0008327)|sequence-specific DNA binding (GO:0043565)			breast(2)|central_nervous_system(2)|endometrium(6)|large_intestine(6)|lung(5)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	26						GAATGAGCAACGTGGCCATGG	0.448																																																0													161	153	156					X																	119387346		2203	4300	6503	SO:0001583	missense	10009			BC042753	CCDS14596.1	Xq23	2013-01-09			ENSG00000177485	ENSG00000177485		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	16682	protein-coding gene	gene with protein product		300329					Standard	NM_001184742		Approved	ZNF-kaiso, kaiso, WUGSC:H_DJ525N14.1, KAISO, ZNF348	uc004esn.1	Q86T24	OTTHUMG00000171159	ENST00000326624.2:c.76C>T	X.37:g.119387346C>T	ENSP00000314153:p.Arg26Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5U6|O00319|Q7Z361|Q8IVP6|Q8N3P0	Missense_Mutation	SNP	ENST00000326624.2	37	CCDS14596.1	.	.	.	.	.	.	.	.	.	.	C	16.68	3.190149	0.58017	.	.	ENSG00000177485;ENSG00000177485;ENSG00000258974	ENST00000326624;ENST00000540105;ENST00000557385	T;T	0.26067	1.76;1.76	5.96	5.96	0.96718	BTB/POZ (1);BTB/POZ fold (2);	0.000000	0.85682	D	0.000000	T	0.64011	0.2560	M	0.93808	3.46	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.73805	-0.3867	10	0.87932	D	0	-10.6374	18.2055	0.89853	0.0:1.0:0.0:0.0	.	26	Q86T24	KAISO_HUMAN	C	26	ENSP00000314153:R26C;ENSP00000450969:R26C	ENSP00000314153:R26C	R	+	1	0	ZBTB33;AC002086.1	119271374	1.000000	0.71417	0.999000	0.59377	0.992000	0.81027	4.500000	0.60387	2.523000	0.85059	0.594000	0.82650	CGT		0.448	ZBTB33-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058085.2	NM_006777		T	119387346	C	T	119387346	3	4	572	1	0	0	0	0	1	0	0	0	17548	536	19	1	78	1	ZBTB33	23	119387346	Missense_Mutation	SNP	C	TCGA-DW-7842-01A-11D-2136-08	83230794	119387346	35883214	44	33889										
KIAA2013	90231	hgsc.bcm.edu	37	chr1	11986231	11986231	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	gaggccaagcaggcagaggaGgcggcgggcccagctgctcg	19	12	0	1	rs552116013	byFrequency	TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr1:11986231G>A	ENST00000376572.3	-	1	249	c.64C>T	c.(64-66)Ctc>Ttc	p.L22F	KIAA2013_ENST00000376576.3_Missense_Mutation_p.L22F	NM_138346.2	NP_612355.1	Q8IYS2	K2013_HUMAN	KIAA2013	22						integral component of membrane (GO:0016021)|membrane (GO:0016020)				endometrium(1)|lung(3)|ovary(1)|prostate(1)|skin(1)	7	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00149)|all_lung(284;0.00189)|Breast(348;0.00586)|Colorectal(325;0.0062)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0556)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.88e-06)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AGGCAGAGGAGGCGGCGGGCC	0.771													G|||	26	0.00519169	0.0166	0.0043	5008	,	,		4617	0.0		0.001	False		,,,				2504	0.0															0													1	1	1					1																	11986231		852	2025	2877	SO:0001583	missense	90231			AB095933	CCDS141.1	1p36.22	2011-02-09			ENSG00000116685	ENSG00000116685			28513	protein-coding gene	gene with protein product						12477932	Standard	NM_138346		Approved	MGC33867, RP5-1077B9.1	uc001atk.3	Q8IYS2	OTTHUMG00000002391	ENST00000376572.3:c.64C>T	1.37:g.11986231G>A	ENSP00000365756:p.Leu22Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JXC1|Q8IVF8|Q8NDI7|Q9BSY1	Missense_Mutation	SNP	ENST00000376572.3	37	CCDS141.1	.	.	.	.	.	.	.	.	.	.	G	18.76	3.691701	0.68271	.	.	ENSG00000116685	ENST00000376572;ENST00000376576	.	.	.	2.55	1.47	0.22746	.	0.221922	0.29040	U	0.013323	T	0.31638	0.0803	N	0.14661	0.345	0.29766	N	0.835158	D;P	0.61080	0.989;0.954	P;P	0.59487	0.858;0.812	T	0.08659	-1.0711	9	0.46703	T	0.11	-19.9466	7.5843	0.27982	0.0:0.4455:0.5544:0.0	.	22;22	Q8IYS2-2;Q8IYS2	.;K2013_HUMAN	F	22	.	ENSP00000365756:L22F	L	-	1	0	KIAA2013	11908818	0.998000	0.40836	0.999000	0.59377	0.991000	0.79684	0.719000	0.25881	1.409000	0.46915	0.563000	0.77884	CTC		0.771	KIAA2013-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006858.1	NM_138346		A	11986231	G	A	11986231	3	1	573	1	0	0	0	0	1	0	0	0	8274	1000	35	2	1852	2	KIAA2013	1	11986231	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10		11986231	237264390	1	33890										
UBXN11	91544	hgsc.bcm.edu	37	chr1	26608848	26608853	+	In_Frame_Del	DEL	CTGGGG	CTGGGG	-													0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	ggccgggaccgggaccgggaCtggggccgggaccgggaccg					rs61775089|rs199707978		TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	CTGGGG	CTGGGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr1:26608848_26608853delCTGGGG	ENST00000374222.1	-	16	1964_1969	c.1500_1505delCCCCAG	c.(1498-1506)ggccccagt>ggt	p.PS501del	UBXN11_ENST00000374217.2_In_Frame_Del_p.PS468del|UBXN11_ENST00000314675.7_In_Frame_Del_p.PS381del|UBXN11_ENST00000374221.3_In_Frame_Del_p.PS501del|UBXN11_ENST00000374223.1_In_Frame_Del_p.PS258del|UBXN11_ENST00000357089.4_In_Frame_Del_p.PS468del			Q5T124	UBX11_HUMAN	UBX domain protein 11	501	3 X 8 AA tandem repeats of P-G-P-G-P-G-P- S.|Pro-rich.		Missing.|P -> S (in dbSNP:rs17838088).			cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)		p.G490_P515delGPGPSPGPGPGPSPGPGPGPSPCPGP(1)		endometrium(3)|kidney(2)|large_intestine(4)|lung(6)|ovary(2)|prostate(3)|upper_aerodigestive_tract(3)	23						gggaccgggactggggccgggaccgg	0.728																																																1	Deletion - In frame(1)	ovary(1)																																								SO:0001651	inframe_deletion	91544			AF521017	CCDS41286.1, CCDS41287.1, CCDS41288.1	1p36.11	2008-07-25	2008-07-25	2008-07-25	ENSG00000158062	ENSG00000158062		"UBX domain containing"	30600	protein-coding gene	gene with protein product	"socius"	609151	"UBX domain containing 5"	UBXD5		11940653	Standard	NM_183008		Approved	SOC, SOCI	uc001blw.3	Q5T124	OTTHUMG00000003382	ENST00000374222.1:c.1500_1505delCCCCAG	1.37:g.26608848_26608853delCTGGGG	ENSP00000363339:p.Pro501_Ser502del	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPK6|Q5T117|Q5T120|Q5T125|Q5T126|Q5T129|Q5T131|Q5T133|Q63HM6|Q71RB3|Q8IY27|Q8N1L6|Q8N9M4|Q8NA18|Q8NFE3|Q8NFE4|Q8NFE6	In_Frame_Del	DEL	ENST00000374222.1	37	CCDS41288.1																																																																																				0.728	UBXN11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000009500.1	NM_145345		-	26608853	CTGGGG	-	26608848	7	5	573	1	0	1	0	1	0	0	0	0	16925	565	20	0	61	0	UBXN11	1	26608848	In_Frame_Del	DEL	CTGGGG	TCGA-DW-7963-01B-11D-A28G-10	14622617	26608848	222641773	2	33891			1	64		3	2	18	N	CTGGGG_C_A	3.130125e-05
UBXN11	91544	hgsc.bcm.edu	37	chr1	26608861	26608861	+	Missense_Mutation	SNP	C	C	T													0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	accgggactggggccgggacCgggaccgggactggggccgg					rs200313935		TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr1:26608861C>T	ENST00000374222.1	-	16	1956	c.1492G>A	c.(1492-1494)Ggt>Agt	p.G498S	UBXN11_ENST00000374217.2_Missense_Mutation_p.G465S|UBXN11_ENST00000314675.7_Missense_Mutation_p.G378S|UBXN11_ENST00000374221.3_Missense_Mutation_p.G498S|UBXN11_ENST00000374223.1_Missense_Mutation_p.G255S|UBXN11_ENST00000357089.4_Missense_Mutation_p.G465S			Q5T124	UBX11_HUMAN	UBX domain protein 11	498	3 X 8 AA tandem repeats of P-G-P-G-P-G-P- S.|Pro-rich.		Missing.			cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)		p.G490_P515delGPGPSPGPGPGPSPGPGPGPSPCPGP(1)		endometrium(3)|kidney(2)|large_intestine(4)|lung(6)|ovary(2)|prostate(3)|upper_aerodigestive_tract(3)	23						gggccgggaccgggaccggga	0.726																																																1	Deletion - In frame(1)	ovary(1)											23	26	25					1																	26608861		1731	3974	5705	SO:0001583	missense	91544			AF521017	CCDS41286.1, CCDS41287.1, CCDS41288.1	1p36.11	2008-07-25	2008-07-25	2008-07-25	ENSG00000158062	ENSG00000158062		"UBX domain containing"	30600	protein-coding gene	gene with protein product	"socius"	609151	"UBX domain containing 5"	UBXD5		11940653	Standard	NM_183008		Approved	SOC, SOCI	uc001blw.3	Q5T124	OTTHUMG00000003382	ENST00000374222.1:c.1492G>A	1.37:g.26608861C>T	ENSP00000363339:p.Gly498Ser	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPK6|Q5T117|Q5T120|Q5T125|Q5T126|Q5T129|Q5T131|Q5T133|Q63HM6|Q71RB3|Q8IY27|Q8N1L6|Q8N9M4|Q8NA18|Q8NFE3|Q8NFE4|Q8NFE6	Missense_Mutation	SNP	ENST00000374222.1	37	CCDS41288.1	26	0.011904761904761904	24	0.04878048780487805	2	0.0055248618784530384	0	0.0	0	0.0	C	10.29	1.310153	0.23821	.	.	ENSG00000158062	ENST00000314675;ENST00000374223;ENST00000357089;ENST00000374221;ENST00000374222;ENST00000374217	T;T;T;T;T;T	0.17370	2.28;2.29;2.59;2.56;2.56;2.59	.	.	.	.	.	.	.	.	T	0.01061	0.0035	N	0.08118	0	0.20074	N	0.999939	D;D;D;D	0.65815	0.995;0.995;0.995;0.991	B;B;B;B	0.40901	0.343;0.343;0.343;0.185	T	0.29274	-1.0017	8	0.56958	D	0.05	.	5.9752	0.19375	0.0:1.0:0.0:0.0	.	465;460;378;498	Q5T124-2;Q5T124-4;Q5T124-3;Q5T124	.;.;.;UBX11_HUMAN	S	378;255;465;498;498;465	ENSP00000324721:G378S;ENSP00000363340:G255S;ENSP00000349601:G465S;ENSP00000363338:G498S;ENSP00000363339:G498S;ENSP00000363334:G465S	ENSP00000324721:G378S	G	-	1	0	UBXN11	26481448	0.000000	0.05858	0.143000	0.22291	0.150000	0.21749	-1.043000	0.03535	-0.000000	0.14550	0.000000	0.15137	GGT		0.726	UBXN11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000009500.1	NM_145345		T	26608861	C	T	26608861	3	4	573	1	0	0	0	0	1	0	0	0	16925	652	23	1	74	1	UBXN11	1	26608861	Missense_Mutation	SNP	C	TCGA-DW-7963-01B-11D-A28G-10	13	26608861	222641760	3	33892	259	2	1	64		3	2	18	N	CTGGGG_C_A	3.130125e-05
UBXN11	91544	hgsc.bcm.edu	37	chr1	26608865	26608865	+	Silent	SNP	A	A	G													0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	ggactggggccgggaccgggAccgggactggggccgggacc							TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr1:26608865A>G	ENST00000374222.1	-	16	1952	c.1488T>C	c.(1486-1488)ggT>ggC	p.G496G	UBXN11_ENST00000374217.2_Silent_p.G463G|UBXN11_ENST00000314675.7_Silent_p.G376G|UBXN11_ENST00000374221.3_Silent_p.G496G|UBXN11_ENST00000374223.1_Silent_p.G253G|UBXN11_ENST00000357089.4_Silent_p.G463G			Q5T124	UBX11_HUMAN	UBX domain protein 11	496	3 X 8 AA tandem repeats of P-G-P-G-P-G-P- S.|Pro-rich.		Missing.			cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)		p.G490_P515delGPGPSPGPGPGPSPGPGPGPSPCPGP(1)		endometrium(3)|kidney(2)|large_intestine(4)|lung(6)|ovary(2)|prostate(3)|upper_aerodigestive_tract(3)	23						cgggaccgggaccgggactgg	0.721																																																1	Deletion - In frame(1)	ovary(1)											25	29	28					1																	26608865		1768	4016	5784	SO:0001819	synonymous_variant	91544			AF521017	CCDS41286.1, CCDS41287.1, CCDS41288.1	1p36.11	2008-07-25	2008-07-25	2008-07-25	ENSG00000158062	ENSG00000158062		"UBX domain containing"	30600	protein-coding gene	gene with protein product	"socius"	609151	"UBX domain containing 5"	UBXD5		11940653	Standard	NM_183008		Approved	SOC, SOCI	uc001blw.3	Q5T124	OTTHUMG00000003382	ENST00000374222.1:c.1488T>C	1.37:g.26608865A>G		Somatic		WXS	Illumina HiSeq	Phase_I	D3DPK6|Q5T117|Q5T120|Q5T125|Q5T126|Q5T129|Q5T131|Q5T133|Q63HM6|Q71RB3|Q8IY27|Q8N1L6|Q8N9M4|Q8NA18|Q8NFE3|Q8NFE4|Q8NFE6	Silent	SNP	ENST00000374222.1	37	CCDS41288.1																																																																																				0.721	UBXN11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000009500.1	NM_145345		G	26608865	A	G	26608865	2	3	573	1	0	0	0	0	0	0	0	1	16925	262	10	3		3	UBXN11	1	26608865	Silent	SNP	A	TCGA-DW-7963-01B-11D-A28G-10	4	26608865	222641756	4	33893	259	2	1	64		3	2	18	N	CTGGGG_C_A	3.130125e-05
LAPTM5	7805	broad.mit.edu	37	chr1	31208088	31208088	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	cttgatcaatctgtagcaccGccacacgcacttgaacatgt	7	13	2	2			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr1:31208088G>A	ENST00000294507.3	-	7	705	c.631C>T	c.(631-633)Cgg>Tgg	p.R211W		NM_006762.2	NP_006753.1	Q13571	LAPM5_HUMAN	lysosomal protein transmembrane 5	211					transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)				large_intestine(2)|lung(7)|skin(1)	10		Colorectal(325;0.0199)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0966)|Medulloblastoma(700;0.151)|Ovarian(437;0.192)		STAD - Stomach adenocarcinoma(196;0.0196)|READ - Rectum adenocarcinoma(331;0.0649)		CTGTAGCACCGCCACACGCAC	0.557																																																0													253	221	232					1																	31208088		2203	4300	6503	SO:0001583	missense	7805			U51240	CCDS337.1	1p34	2009-07-20	2009-07-20		ENSG00000162511	ENSG00000162511			29612	protein-coding gene	gene with protein product		601476	"lysosomal multispanning membrane protein 5"			8661146, 12527926	Standard	NM_006762		Approved		uc001bsc.2	Q13571	OTTHUMG00000003707	ENST00000294507.3:c.631C>T	1.37:g.31208088G>A	ENSP00000294507:p.Arg211Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q13240|Q14698|Q3KP54	Missense_Mutation	SNP	ENST00000294507.3	37	CCDS337.1	.	.	.	.	.	.	.	.	.	.	G	17.35	3.368200	0.61513	.	.	ENSG00000162511	ENST00000294507;ENST00000424259	T	0.47528	0.84	5.81	0.658	0.17855	.	0.132879	0.51477	D	0.000082	T	0.62429	0.2427	M	0.67953	2.075	0.28772	N	0.900296	D	0.89917	1.0	D	0.68192	0.956	T	0.62506	-0.6840	10	0.72032	D	0.01	-10.4451	13.2343	0.59961	0.0:0.0:0.5902:0.4098	.	211	Q13571	LAPM5_HUMAN	W	211	ENSP00000294507:R211W	ENSP00000294507:R211W	R	-	1	2	LAPTM5	30980675	0.992000	0.36948	0.993000	0.49108	0.621000	0.37620	0.431000	0.21444	-0.131000	0.11578	-0.262000	0.10625	CGG		0.557	LAPTM5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000010463.1	NM_006762		A	31208088	G	A	31208088	3	1	573	1	0	0	0	0	1	0	0	0	8633	1086	38	1	165	1	LAPTM5	1	31208088	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10	4599223	31208088	218042533	5	33894										
ECHDC2	55268	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	53362195	53362195	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	gaaggttaaaatgggggtcaTttgccaacaaatttgggagt	13	4	1	0			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr1:53362195T>C	ENST00000371522.4	-	10	969	c.876A>G	c.(874-876)aaA>aaG	p.K292K	ECHDC2_ENST00000536120.1_Silent_p.K246K|ECHDC2_ENST00000358358.5_Silent_p.K261K	NM_001198961.1	NP_001185890.1	Q86YB7	ECHD2_HUMAN	enoyl CoA hydratase domain containing 2	292					fatty acid metabolic process (GO:0006631)	mitochondrion (GO:0005739)	lyase activity (GO:0016829)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(3)|prostate(1)|urinary_tract(1)	12						ATGGGGGTCATTTGCCAACAA	0.488																																																0													71	73	72					1																	53362195		2203	4300	6503	SO:0001819	synonymous_variant	55268			AF258590	CCDS571.1, CCDS55600.1, CCDS72794.1	1p32.3	2010-04-30	2010-04-30		ENSG00000121310	ENSG00000121310			23408	protein-coding gene	gene with protein product			"enoyl Coenzyme A hydratase domain containing 2"				Standard	NM_018281		Approved	FLJ10948	uc001cup.4	Q86YB7	OTTHUMG00000008927	ENST00000371522.4:c.876A>G	1.37:g.53362195T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DQ36|Q9NV38	Silent	SNP	ENST00000371522.4	37	CCDS55600.1																																																																																				0.488	ECHDC2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000024712.3	NM_018281		C	53362195	T	C	53362195	2	2	573	1	0	0	0	0	0	0	0	1	4896	1490	52	3		3	ECHDC2	1	53362195	Silent	SNP	T	TCGA-DW-7963-01B-11D-A28G-10	22154107	53362195	195888426	6	33895										
RNF2	6045	broad.mit.edu	37	chr1	185060812	185060812	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	atgttgaagaacaccatgacTacaaaggagtgtttacatcg	9	7	0	3			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr1:185060812T>C	ENST00000367510.3	+	3	477	c.189T>C	c.(187-189)acT>acC	p.T63T	RNF2_ENST00000367509.4_Silent_p.T63T	NM_007212.3	NP_009143.1	Q99496	RING2_HUMAN	ring finger protein 2	63	Interaction with HIP2.				anterior/posterior axis specification (GO:0009948)|gastrulation with mouth forming second (GO:0001702)|histone H2A monoubiquitination (GO:0035518)|histone H2A-K119 monoubiquitination (GO:0036353)|mitotic cell cycle (GO:0000278)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription, DNA-templated (GO:0006351)	euchromatin (GO:0000791)|MLL1 complex (GO:0071339)|nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PcG protein complex (GO:0031519)|PRC1 complex (GO:0035102)|sex chromatin (GO:0001739)|ubiquitin ligase complex (GO:0000151)	chromatin binding (GO:0003682)|ligase activity (GO:0016874)|RING-like zinc finger domain binding (GO:0071535)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(3)|endometrium(2)|large_intestine(4)|lung(3)|skin(2)	14		Breast(1374;0.000496)		Colorectal(1306;6.9e-08)|KIRC - Kidney renal clear cell carcinoma(1967;8.12e-06)		ACACCATGACTACAAAGGAGT	0.383																																																0													203	182	189					1																	185060812		2203	4300	6503	SO:0001819	synonymous_variant	6045			BC012583, Y10571	CCDS1365.1	1q25.3	2013-01-09			ENSG00000121481	ENSG00000121481		"RING-type (C3HC4) zinc fingers"	10061	protein-coding gene	gene with protein product		608985				11513855	Standard	XM_005245413		Approved	BAP-1, BAP1, DING, HIPI3, RING1B, RING2	uc001grc.1	Q99496	OTTHUMG00000035391	ENST00000367510.3:c.189T>C	1.37:g.185060812T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBS7|B3KRH1|Q5TEN1|Q5TEN2	Silent	SNP	ENST00000367510.3	37	CCDS1365.1																																																																																				0.383	RNF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085793.1	NM_007212		C	185060812	T	C	185060812	2	2	573	1	0	0	0	0	0	0	0	1	13485	1509	53	3		3	RNF2	1	185060812	Silent	SNP	T	TCGA-DW-7963-01B-11D-A28G-10	131698617	185060812	64189809	7	33896										
USH2A	7399	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	216262462	216262462	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	tgccatgatcattagttgtaGttacttccactggtgacccc	8	11	1	2			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr1:216262462G>T	ENST00000307340.3	-	23	5164	c.4778C>A	c.(4777-4779)aCt>aAt	p.T1593N	RP11-22M7.2_ENST00000430890.1_RNA|RP11-22M7.2_ENST00000442606.1_RNA|RP11-22M7.2_ENST00000446411.1_RNA|USH2A_ENST00000366943.2_Missense_Mutation_p.T1593N|RP11-22M7.2_ENST00000445619.1_RNA	NM_206933.2	NP_996816	O75445	USH2A_HUMAN	Usher syndrome 2A (autosomal recessive, mild)	1593	Laminin G-like 1. {ECO:0000255|PROSITE- ProRule:PRU00122}.				hair cell differentiation (GO:0035315)|inner ear receptor cell differentiation (GO:0060113)|maintenance of organ identity (GO:0048496)|photoreceptor cell maintenance (GO:0045494)|response to stimulus (GO:0050896)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	apical plasma membrane (GO:0016324)|basement membrane (GO:0005604)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|stereocilia ankle link complex (GO:0002142)|stereocilium bundle (GO:0032421)|stereocilium membrane (GO:0060171)	collagen binding (GO:0005518)|myosin binding (GO:0017022)			NS(7)|breast(20)|central_nervous_system(3)|cervix(2)|endometrium(32)|haematopoietic_and_lymphoid_tissue(4)|kidney(13)|large_intestine(71)|liver(2)|lung(282)|ovary(25)|pancreas(2)|prostate(12)|skin(22)|stomach(7)|upper_aerodigestive_tract(20)|urinary_tract(3)	527				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ATTAGTTGTAGTTACTTCCAC	0.333										HNSCC(13;0.011)																																						0													184	168	173					1																	216262462		2203	4300	6503	SO:0001583	missense	7399			AF055580	CCDS1516.1, CCDS31025.1	1q41	2013-02-11			ENSG00000042781	ENSG00000042781		"Fibronectin type III domain containing"	12601	protein-coding gene	gene with protein product	"usherin"	608400		USH2		9624053, 10729113	Standard	NM_007123		Approved	RP39	uc001hku.1	O75445	OTTHUMG00000037079	ENST00000307340.3:c.4778C>A	1.37:g.216262462G>T	ENSP00000305941:p.Thr1593Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VVM9|Q6S362|Q9NS27	Missense_Mutation	SNP	ENST00000307340.3	37	CCDS31025.1	.	.	.	.	.	.	.	.	.	.	G	17.23	3.336688	0.60963	.	.	ENSG00000042781	ENST00000307340;ENST00000366943	T;T	0.80304	-1.36;-1.36	5.8	4.88	0.63580	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Fibronectin, type III (1);Laminin G domain (2);Laminin G, subdomain 2 (1);	0.000000	0.45361	D	0.000370	D	0.87006	0.6070	M	0.73962	2.25	0.38859	D	0.95643	D	0.61080	0.989	P	0.58780	0.845	D	0.87966	0.2733	10	0.41790	T	0.15	.	15.1749	0.72903	0.0:0.2669:0.7331:0.0	.	1593	O75445	USH2A_HUMAN	N	1593	ENSP00000305941:T1593N;ENSP00000355910:T1593N	ENSP00000305941:T1593N	T	-	2	0	USH2A	214329085	1.000000	0.71417	0.699000	0.30290	0.787000	0.44495	5.826000	0.69293	1.417000	0.47077	0.655000	0.94253	ACT		0.333	USH2A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128138.1	NM_007123		T	216262462	G	T	216262462	3	4	573	1	0	0	0	0	1	0	0	0	17048	1029	36	4	11030	4	USH2A	1	216262462	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10	31201650	216262462	32988159	8	33897										
OBSCN	84033	broad.mit.edu	37	chr1	228444409	228444410	+	Frame_Shift_Ins	INS	-	-	G													0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	agggaggtgcaggcccaggcINSgggggccagcaccacactca							TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr1:228444409_228444410insG	ENST00000422127.1	+	15	4411_4412	c.4367_4368insG	c.(4366-4371)gcggggfs	p.AG1456fs	OBSCN_ENST00000570156.2_Frame_Shift_Ins_p.AG1548fs|OBSCN_ENST00000366707.4_5'UTR|OBSCN_ENST00000366709.4_5'UTR|OBSCN_ENST00000284548.11_Frame_Shift_Ins_p.AG1456fs|OBSCN_ENST00000359599.6_Frame_Shift_Ins_p.AG20fs	NM_001098623.2	NP_001092093.2	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF	1456	Ig-like 15.				apoptotic signaling pathway (GO:0097190)|multicellular organismal development (GO:0007275)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|protein localization to M-band (GO:0036309)|regulation of small GTPase mediated signal transduction (GO:0051056)|sarcomere organization (GO:0045214)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|M band (GO:0031430)|myofibril (GO:0030016)|Z disc (GO:0030018)	ankyrin binding (GO:0030506)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			NS(2)|breast(7)|central_nervous_system(5)|cervix(2)|endometrium(30)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(37)|lung(89)|ovary(8)|pancreas(3)|prostate(13)|skin(6)|stomach(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	223		Prostate(94;0.0405)				CAGGCCCAGGCGGGGGCCAGCA	0.619																																																0																																										SO:0001589	frameshift_variant	84033			AJ002535	CCDS1570.2, CCDS58065.1, CCDS59204.1	1q42	2014-09-17			ENSG00000154358	ENSG00000154358		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	15719	protein-coding gene	gene with protein product		608616				11448995, 11814696	Standard	NM_001098623		Approved	KIAA1556, UNC89, KIAA1639, ARHGEF30	uc001hsq.2	Q5VST9	OTTHUMG00000039772	ENST00000422127.1:c.4372dupG	1.37:g.228444414_228444414dupG	ENSP00000409493:p.Ala1456fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q2A664|Q5T7G8|Q5T7G9|Q5VSU2|Q86YC7|Q8NHN0|Q8NHN1|Q8NHN2|Q8NHN3|Q8NHN4|Q8NHN5|Q8NHN6|Q8NHN7|Q8NHN8|Q8NHN9|Q96AA2|Q9HCD3|Q9HCL6	Frame_Shift_Ins	INS	ENST00000422127.1	37	CCDS58065.1																																																																																				0.619	OBSCN-204	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_052843		G	228444410	-	G	228444409	7	5	573	1	0	1	1	0	0	0	0	0	10819	768	27	0	4421	0	OBSCN	1	228444409	Frame_Shift_Ins	INS	-	TCGA-DW-7963-01B-11D-A28G-10	12181947	228444409	20806212	9	33898										
RYR2	6262	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	237730023	237730023	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	gagtcgtcctggttgtcaacCggatcaggagcttggctcag	14	10	3	0			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr1:237730023C>G	ENST00000366574.2	+	28	3688	c.3371C>G	c.(3370-3372)cCg>cGg	p.P1124R	RYR2_ENST00000360064.6_Missense_Mutation_p.P1122R|RYR2_ENST00000542537.1_Missense_Mutation_p.P1108R	NM_001035.2	NP_001026.2	Q92736	RYR2_HUMAN	ryanodine receptor 2 (cardiac)	1124	4 X approximate repeats.|B30.2/SPRY 2. {ECO:0000255|PROSITE- ProRule:PRU00548}.				BMP signaling pathway (GO:0030509)|calcium ion transport (GO:0006816)|calcium ion transport into cytosol (GO:0060402)|calcium-mediated signaling (GO:0019722)|calcium-mediated signaling using intracellular calcium source (GO:0035584)|canonical Wnt signaling pathway (GO:0060070)|cardiac muscle contraction (GO:0060048)|cardiac muscle hypertrophy (GO:0003300)|cell communication by electrical coupling involved in cardiac conduction (GO:0086064)|cellular calcium ion homeostasis (GO:0006874)|cellular response to caffeine (GO:0071313)|cellular response to epinephrine stimulus (GO:0071872)|cytosolic calcium ion homeostasis (GO:0051480)|detection of calcium ion (GO:0005513)|embryonic heart tube morphogenesis (GO:0003143)|establishment of protein localization to endoplasmic reticulum (GO:0072599)|ion transmembrane transport (GO:0034220)|left ventricular cardiac muscle tissue morphogenesis (GO:0003220)|positive regulation of calcium-transporting ATPase activity (GO:1901896)|positive regulation of heart rate (GO:0010460)|positive regulation of ryanodine-sensitive calcium-release channel activity by adrenergic receptor signaling pathway involved in positive regulation of cardiac muscle contraction (GO:0086094)|positive regulation of sequestering of calcium ion (GO:0051284)|Purkinje myocyte to ventricular cardiac muscle cell signaling (GO:0086029)|regulation of cardiac muscle contraction (GO:0055117)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of heart rate (GO:0002027)|release of sequestered calcium ion into cytosol (GO:0051209)|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0014808)|response to caffeine (GO:0031000)|response to hypoxia (GO:0001666)|response to redox state (GO:0051775)|sarcoplasmic reticulum calcium ion transport (GO:0070296)|transmembrane transport (GO:0055085)|type B pancreatic cell apoptotic process (GO:0097050)|ventricular cardiac muscle cell action potential (GO:0086005)	calcium channel complex (GO:0034704)|extracellular vesicular exosome (GO:0070062)|junctional sarcoplasmic reticulum membrane (GO:0014701)|membrane (GO:0016020)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|sarcoplasmic reticulum (GO:0016529)|sarcoplasmic reticulum membrane (GO:0033017)|smooth endoplasmic reticulum (GO:0005790)|Z disc (GO:0030018)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)|calcium-induced calcium release activity (GO:0048763)|calcium-release channel activity (GO:0015278)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|intracellular ligand-gated calcium channel activity (GO:0005218)|ion channel binding (GO:0044325)|protein kinase A catalytic subunit binding (GO:0034236)|protein kinase A regulatory subunit binding (GO:0034237)|ryanodine-sensitive calcium-release channel activity (GO:0005219)|suramin binding (GO:0043924)			NS(4)|breast(8)|central_nervous_system(11)|cervix(2)|endometrium(39)|haematopoietic_and_lymphoid_tissue(5)|kidney(17)|large_intestine(83)|liver(4)|lung(353)|ovary(18)|pancreas(5)|prostate(12)|skin(8)|stomach(1)|upper_aerodigestive_tract(12)|urinary_tract(4)	586	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)			GGTTGTCAACCGGATCAGGAG	0.532																																																0													218	216	217					1																	237730023		2066	4209	6275	SO:0001583	missense	6262			X91869	CCDS55691.1	1q43	2014-09-17			ENSG00000198626	ENSG00000198626		"Ion channels / Ryanodine receptors", "EF-hand domain containing"	10484	protein-coding gene	gene with protein product		180902	"arrhythmogenic right ventricular dysplasia 2"	ARVD2		2380170, 8406504, 11159936	Standard	NM_001035		Approved	ARVC2, VTSIP	uc001hyl.1	Q92736	OTTHUMG00000039543	ENST00000366574.2:c.3371C>G	1.37:g.237730023C>G	ENSP00000355533:p.Pro1124Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q15411|Q546N8|Q5T3P2	Missense_Mutation	SNP	ENST00000366574.2	37	CCDS55691.1	.	.	.	.	.	.	.	.	.	.	C	20.3	3.966699	0.74131	.	.	ENSG00000198626	ENST00000366574;ENST00000360064;ENST00000542537	T;T;T	0.55588	0.51;0.51;0.51	5.29	5.29	0.74685	Concanavalin A-like lectin/glucanase (1);SPla/RYanodine receptor subgroup (1);B30.2/SPRY domain (1);SPla/RYanodine receptor SPRY (1);	0.000000	0.64402	D	0.000008	T	0.72558	0.3475	M	0.72894	2.215	0.80722	D	1	D	0.71674	0.998	D	0.69824	0.966	T	0.75814	-0.3185	10	0.87932	D	0	.	18.9442	0.92615	0.0:1.0:0.0:0.0	.	1124	Q92736	RYR2_HUMAN	R	1124;1122;1108	ENSP00000355533:P1124R;ENSP00000353174:P1122R;ENSP00000443798:P1108R	ENSP00000353174:P1122R	P	+	2	0	RYR2	235796646	1.000000	0.71417	0.114000	0.21550	0.563000	0.35712	7.814000	0.86154	2.465000	0.83290	0.655000	0.94253	CCG		0.532	RYR2-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000095402.2	NM_001035		G	237730023	C	G	237730023	3	3	573	1	0	0	0	0	1	0	0	0	13782	652	23	4	3481	4	RYR2	1	237730023	Missense_Mutation	SNP	C	TCGA-DW-7963-01B-11D-A28G-10	9285614	237730023	11520598	10	33899										
OXER1	165140	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	42990999	42990999	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	agggccaaactgttccccacCaggcccaggacaaactccag	9	16	0	0			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr2:42990999C>A	ENST00000378661.2	-	1	402	c.321G>T	c.(319-321)ctG>ctT	p.L107L		NM_148962.4	NP_683765.1	Q8TDS5	OXER1_HUMAN	oxoeicosanoid (OXE) receptor 1	107					G-protein coupled receptor signaling pathway (GO:0007186)|regulation of cAMP biosynthetic process (GO:0030817)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	5(S)-hydroxyperoxy-6E,8Z,11Z,14Z-icosatetraenoic acid binding (GO:0050648)|5-hydroxy-6E,8Z,11Z,14Z-icosatetraenoic acid binding (GO:0050647)|5-oxo-6E,8Z,11Z,14Z-icosatetraenoic acid binding (GO:0050646)|G-protein coupled receptor activity (GO:0004930)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(2)|prostate(1)	10						TGTTCCCCACCAGGCCCAGGA	0.647																																																0													43	47	45					2																	42990999		2203	4300	6503	SO:0001819	synonymous_variant	165140			AB083055	CCDS1810.1	2p22.1	2012-08-10			ENSG00000162881	ENSG00000162881		"GPCR / Class A : Leukotriene receptors"	24884	protein-coding gene	gene with protein product	"5-oxo-ETE acid G-protein-coupled receptor 1"					12065583, 15001665	Standard	NM_148962		Approved	GPCR, TG1019, GPR170	uc002rss.3	Q8TDS5	OTTHUMG00000128643	ENST00000378661.2:c.321G>T	2.37:g.42990999C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q86WP7|Q8NGW4	Silent	SNP	ENST00000378661.2	37	CCDS1810.1																																																																																				0.647	OXER1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250514.1	NM_148962		A	42990999	C	A	42990999	2	1	573	1	0	0	0	0	0	0	0	1	11338	581	21	4		4	OXER1	2	42990999	Silent	SNP	C	TCGA-DW-7963-01B-11D-A28G-10		42990999	200208374	11	33900										
OSBPL11	114885	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	125298795	125298795	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	gtgatattacagctcctgcaAgctgcaaagttcctctaggt	9	10	1	1			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr3:125298795A>T	ENST00000296220.5	-	3	612	c.323T>A	c.(322-324)cTt>cAt	p.L108H		NM_022776.4	NP_073613.2	Q9BXB4	OSB11_HUMAN	oxysterol binding protein-like 11	108	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				fat cell differentiation (GO:0045444)|lipid transport (GO:0006869)|positive regulation of sequestering of triglyceride (GO:0010890)	endosome (GO:0005768)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	lipid binding (GO:0008289)			NS(1)|breast(1)|cervix(1)|kidney(2)|large_intestine(8)|lung(9)|ovary(3)|prostate(1)|skin(1)	27						AGCTCCTGCAAGCTGCAAAGT	0.403																																																0													118	121	120					3																	125298795		2203	4300	6503	SO:0001583	missense	114885			AF392454	CCDS3033.1	3q21	2013-01-10			ENSG00000144909	ENSG00000144909		"Oxysterol binding proteins", "Pleckstrin homology (PH) domain containing"	16397	protein-coding gene	gene with protein product		606739					Standard	NM_022776		Approved	ORP-11, ORP11, FLJ13012, FLJ13164	uc003eic.3	Q9BXB4	OTTHUMG00000159571	ENST00000296220.5:c.323T>A	3.37:g.125298795A>T	ENSP00000296220:p.Leu108His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9I7	Missense_Mutation	SNP	ENST00000296220.5	37	CCDS3033.1	.	.	.	.	.	.	.	.	.	.	A	25.0	4.595561	0.86953	.	.	ENSG00000144909	ENST00000296220	D	0.84223	-1.82	5.07	5.07	0.68467	Pleckstrin homology-type (1);Pleckstrin homology domain (3);	0.071226	0.56097	D	0.000021	D	0.94739	0.8302	H	0.96301	3.8	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.96314	0.9231	10	0.87932	D	0	0.5235	14.9917	0.71393	1.0:0.0:0.0:0.0	.	108	Q9BXB4	OSB11_HUMAN	H	108	ENSP00000296220:L108H	ENSP00000296220:L108H	L	-	2	0	OSBPL11	126781485	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.073000	0.93992	2.124000	0.65301	0.533000	0.62120	CTT		0.403	OSBPL11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356295.1	NM_022776		T	125298795	A	T	125298795	3	4	573	1	0	0	0	0	1	0	0	0	11283	72	3	5	1964	5	OSBPL11	3	125298795	Missense_Mutation	SNP	A	TCGA-DW-7963-01B-11D-A28G-10		125298795	72723635	12	33901										
NPHP3	27031	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	132418235	132418235	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	gtttctacattcacagaaacAattactcttacattcactgg	4	10	4	1			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr3:132418235A>T	ENST00000337331.5	-	13	2033	c.1947T>A	c.(1945-1947)atT>atA	p.I649I	NPHP3_ENST00000326682.8_Silent_p.I649I	NM_153240.4	NP_694972.3	Q7Z494	NPHP3_HUMAN	nephronophthisis 3 (adolescent)	649					atrial septum development (GO:0003283)|cilium morphogenesis (GO:0060271)|convergent extension involved in gastrulation (GO:0060027)|determination of intestine left/right asymmetry (GO:0071908)|determination of left/right symmetry (GO:0007368)|determination of liver left/right asymmetry (GO:0071910)|determination of pancreatic left/right asymmetry (GO:0035469)|determination of stomach left/right asymmetry (GO:0071909)|epithelial cilium movement involved in determination of left/right asymmetry (GO:0060287)|establishment or maintenance of cell polarity (GO:0007163)|extracellular matrix organization (GO:0030198)|heart looping (GO:0001947)|kidney development (GO:0001822)|kidney morphogenesis (GO:0060993)|lipid metabolic process (GO:0006629)|lung development (GO:0030324)|maintenance of organ identity (GO:0048496)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|photoreceptor cell maintenance (GO:0045494)|regulation of cAMP metabolic process (GO:0030814)|regulation of planar cell polarity pathway involved in neural tube closure (GO:2000167)|regulation of Wnt signaling pathway, planar cell polarity pathway (GO:2000095)|ureter development (GO:0072189)|Wnt signaling pathway (GO:0016055)	cilium (GO:0005929)|primary cilium (GO:0072372)				NS(1)|cervix(1)|endometrium(5)|kidney(4)|large_intestine(5)|lung(15)|ovary(2)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	42						TCACAGAAACAATTACTCTTA	0.328																																																0													122	107	112					3																	132418235		2203	4300	6503	SO:0001819	synonymous_variant	27031			AB056657	CCDS3078.1	3q22	2014-07-18			ENSG00000113971	ENSG00000113971		"Tetratricopeptide (TTC) repeat domain containing"	7907	protein-coding gene	gene with protein product	"nephrocystin-3", "Meckel syndrome, type 7", "cilia and flagella associated protein 31"	608002				12872122, 15381417	Standard	NM_153240		Approved	NPH3, KIAA2000, FLJ30691, FLJ36696, MKS7, SLSN3, CFAP31	uc003epe.2	Q7Z494	OTTHUMG00000159713	ENST00000337331.5:c.1947T>A	3.37:g.132418235A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JPE3|Q5JPE6|Q68D99|Q6NVH3|Q7Z492|Q7Z493|Q8N9R2|Q8NCM5|Q96N70|Q96NK2	Silent	SNP	ENST00000337331.5	37	CCDS3078.1																																																																																				0.328	NPHP3-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357020.2	NM_153240		T	132418235	A	T	132418235	2	4	573	1	0	0	0	0	0	0	0	1	10587	126	5	5		5	NPHP3	3	132418235	Silent	SNP	A	TCGA-DW-7963-01B-11D-A28G-10	7119440	132418235	65604195	13	33902										
SDHA	6389	hgsc.bcm.edu	37	chr5	218487	218487	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	agacatgtcgggggtccgggGcctgtcgcggctgctgagcg	19	11	0	2	rs187964306	byFrequency	TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr5:218487G>A	ENST00000264932.6	+	1	132	c.17G>A	c.(16-18)gGc>gAc	p.G6D	CTD-2083E4.4_ENST00000565521.1_RNA|SDHA_ENST00000510361.1_Missense_Mutation_p.G6D|CCDC127_ENST00000296824.3_5'Flank|SDHA_ENST00000504309.1_Missense_Mutation_p.G6D	NM_004168.2	NP_004159.2	P31040	SDHA_HUMAN	succinate dehydrogenase complex, subunit A, flavoprotein (Fp)	6					cellular metabolic process (GO:0044237)|nervous system development (GO:0007399)|oxidation-reduction process (GO:0055114)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)|succinate metabolic process (GO:0006105)|tricarboxylic acid cycle (GO:0006099)	mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain complex II (GO:0005749)|mitochondrion (GO:0005739)	flavin adenine dinucleotide binding (GO:0050660)|succinate dehydrogenase (ubiquinone) activity (GO:0008177)			NS(1)|breast(1)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(6)|liver(2)|lung(16)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	40			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	GGGGTCCGGGGCCTGTCGCGG	0.781									Familial Paragangliomas				G|||	20	0.00399361	0.0151	0.0	5008	,	,		8006	0.0		0.0	False		,,,				2504	0.0															0								G	ASP/GLY	55,3035		0,55,1490	5	7	6		17	-1.9	0	5		6	0,7136		0,0,3568	no	missense	SDHA	NM_004168.2	94	0,55,5058	AA,AG,GG		0.0,1.7799,0.5378	possibly-damaging	6/665	218487	55,10171	1545	3568	5113	SO:0001583	missense	6389	Familial Cancer Database	Hereditary Glomus Tumors, Familial Paragangliomas, Hereditary Paragangliomas, type 1-3: PGL1, PGL2, PGL3, incl. Familial Carotid Body Paraganglioma and Sensorineural Hearing Loss	BC001380	CCDS3853.1	5p15	2014-09-17			ENSG00000073578	ENSG00000073578		"Mitochondrial respiratory chain complex / Complex II"	10680	protein-coding gene	gene with protein product		600857		SDH2		7798181	Standard	XM_005248329		Approved	FP, SDHF	uc003jao.4	P31040	OTTHUMG00000090275	ENST00000264932.6:c.17G>A	5.37:g.218487G>A	ENSP00000264932:p.Gly6Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5J6|B4DJ60|E9PBJ5|Q16395|Q59GW8|Q8IW48|Q9UMY5	Missense_Mutation	SNP	ENST00000264932.6	37	CCDS3853.1	9	0.004120879120879121	8	0.016260162601626018	1	0.0027624309392265192	0	0.0	0	0.0	G	5.417	0.262064	0.10239	0.017799	0.0	ENSG00000073578	ENST00000264932;ENST00000327872;ENST00000504309;ENST00000510361	T;T;T	0.71698	-0.59;0.26;-0.59	3.66	-1.91	0.07641	.	0.522646	0.15819	U	0.243080	T	0.25005	0.0607	N	0.08118	0	0.09310	N	1	B;B;B;B;B	0.19583	0.004;0.037;0.004;0.004;0.004	B;B;B;B;B	0.20955	0.004;0.032;0.004;0.004;0.019	T	0.12477	-1.0546	10	0.21540	T	0.41	.	4.3656	0.11223	0.0:0.2691:0.2152:0.5156	.	6;6;6;6;12	E9PBJ5;B4DYN5;D6RFM5;P31040;Q59GW8	.;.;.;DHSA_HUMAN;.	D	6	ENSP00000264932:G6D;ENSP00000426514:G6D;ENSP00000427703:G6D	ENSP00000264932:G6D	G	+	2	0	SDHA	271487	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.926000	0.03988	-0.485000	0.06754	0.471000	0.43371	GGC		0.781	SDHA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206599.1	NM_004168		A	218487	G	A	218487	3	1	573	1	0	0	0	0	1	0	0	0	13976	1203	42	2	19	2	SDHA	5	218487	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10		218487	180696773	14	33903										
NSUN2	54888	hgsc.bcm.edu	37	chr5	6633071	6633071	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	ctgctgttgctggagccgccGaccccgcgaccgccgcccca	12	20	0	0	rs181415619	byFrequency	TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr5:6633071G>A	ENST00000264670.6	-	1	333	c.22C>T	c.(22-24)Cgg>Tgg	p.R8W	NSUN2_ENST00000539938.1_5'UTR|SRD5A1_ENST00000537411.1_5'Flank|NSUN2_ENST00000506139.1_Missense_Mutation_p.R8W|SRD5A1_ENST00000538824.1_5'Flank|SRD5A1_ENST00000274192.5_5'Flank	NM_017755.5	NP_060225.4	Q08J23	NSUN2_HUMAN	NOP2/Sun RNA methyltransferase family, member 2	8					mitotic nuclear division (GO:0007067)|tRNA methylation (GO:0030488)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|tRNA (cytosine-5-)-methyltransferase activity (GO:0016428)|tRNA binding (GO:0000049)			breast(1)|endometrium(6)|kidney(2)|large_intestine(5)|lung(23)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	41						TGGAGCCGCCGACCCCGCGAC	0.756													G|||	125	0.0249601	0.0893	0.0101	5008	,	,		10402	0.0		0.0	False		,,,				2504	0.0															0								G	TRP/ARG,TRP/ARG	120,1992		0,120,936	1	2	2		22,22	2.6	0.9	5		2	3,4631		0,3,2314	no	missense,missense	NSUN2	NM_001193455.1,NM_017755.5	101,101	0,123,3250	AA,AG,GG		0.0647,5.6818,1.8233	probably-damaging,probably-damaging	8/733,8/768	6633071	123,6623	1056	2317	3373	SO:0001583	missense	54888			AK000310	CCDS3869.1, CCDS54832.1	5p15.32	2014-01-31	2012-06-12		ENSG00000037474	ENSG00000037474		"NOP2/Sun domain containing"	25994	protein-coding gene	gene with protein product	"tRNA methyltransferase 4 homolog (S. cerevisiae)", "Myc-induced SUN-domain-containing protein"	610916	"NOL1/NOP2/Sun domain family, member 2", "NOP2/Sun domain family, member 2", "mental retardation, non-syndromic, autosomal recessive, 5"	MRT5		17071714, 22541559	Standard	NM_017755		Approved	FLJ20303, TRM4, Misu	uc003jdu.3	Q08J23	OTTHUMG00000090455	ENST00000264670.6:c.22C>T	5.37:g.6633071G>A	ENSP00000264670:p.Arg8Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K529|B2RNR4|B3KP09|B4DQW2|G3V1R4|Q9BVN4|Q9H858|Q9NXD9	Missense_Mutation	SNP	ENST00000264670.6	37	CCDS3869.1	57	0.0260989010989011	45	0.09146341463414634	2	0.0055248618784530384	0	0.0	10	0.013192612137203167	G	17.62	3.434487	0.62955	0.056818	6.47E-4	ENSG00000037474	ENST00000264670;ENST00000506139	T;T	0.38722	1.12;1.12	4.5	2.59	0.31030	.	0.397846	0.23951	N	0.042944	T	0.03477	0.0100	L	0.51422	1.61	0.09310	P	0.99999999735625	D;D	0.89917	1.0;1.0	D;D	0.75020	0.985;0.985	T	0.42085	-0.9472	9	0.72032	D	0.01	-12.5115	9.6603	0.39952	0.0:0.0:0.6264:0.3736	.	8;8	B4DQW2;Q08J23	.;NSUN2_HUMAN	W	8	ENSP00000264670:R8W;ENSP00000420957:R8W	ENSP00000264670:R8W	R	-	1	2	NSUN2	6686071	0.066000	0.20996	0.881000	0.34555	0.921000	0.55340	0.367000	0.20382	0.860000	0.35481	0.557000	0.71058	CGG		0.756	NSUN2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000206902.1	NM_017755		A	6633071	G	A	6633071	3	1	573	1	0	0	0	0	1	0	0	0	10685	1057	37	1	2357	1	NSUN2	5	6633071	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10	6414584	6633071	174282189	15	33904										
ISL1	3670	broad.mit.edu	37	chr5	50687165	50687165	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	ccagtccagagagacacgacGgtggcttacaggctaaccca	11	13	0	2	rs371918442		TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr5:50687165G>T	ENST00000230658.7	+	5	1408	c.823G>T	c.(823-825)Ggt>Tgt	p.G275C	ISL1_ENST00000505475.2_3'UTR|ISL1_ENST00000511384.1_Intron	NM_002202.2	NP_002193.2	P61371	ISL1_HUMAN	ISL LIM homeobox 1	275	Gln-rich.|LIM-binding domain (LID). {ECO:0000250}.				atrial septum morphogenesis (GO:0060413)|axon regeneration (GO:0031103)|cardiac cell fate determination (GO:0060913)|cardiac muscle cell myoblast differentiation (GO:0060379)|cardiac right ventricle morphogenesis (GO:0003215)|cellular response to glucocorticoid stimulus (GO:0071385)|endocardial cushion morphogenesis (GO:0003203)|innervation (GO:0060384)|mesenchymal cell differentiation (GO:0048762)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of inflammatory response (GO:0050728)|negative regulation of intracellular estrogen receptor signaling pathway (GO:0033147)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of protein homodimerization activity (GO:0090074)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neural crest cell migration (GO:0001755)|neuron fate specification (GO:0048665)|outflow tract morphogenesis (GO:0003151)|outflow tract septum morphogenesis (GO:0003148)|pancreas development (GO:0031016)|peripheral nervous system neuron axonogenesis (GO:0048936)|pharyngeal system development (GO:0060037)|pituitary gland development (GO:0021983)|positive regulation of angiogenesis (GO:0045766)|positive regulation of cell proliferation (GO:0008284)|positive regulation of DNA binding (GO:0043388)|positive regulation of granulocyte colony-stimulating factor production (GO:0071657)|positive regulation of granulocyte macrophage colony-stimulating factor production (GO:0032725)|positive regulation of insulin secretion (GO:0032024)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interleukin-1 alpha production (GO:0032730)|positive regulation of interleukin-1 beta production (GO:0032731)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of macrophage colony-stimulating factor production (GO:1901258)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor production (GO:0032760)|positive regulation of tyrosine phosphorylation of Stat3 protein (GO:0042517)|positive regulation vascular endothelial growth factor production (GO:0010575)|regulation of secondary heart field cardioblast proliferation (GO:0003266)|retinal ganglion cell axon guidance (GO:0031290)|secondary heart field specification (GO:0003139)|sensory system development (GO:0048880)|spinal cord motor neuron cell fate specification (GO:0021520)|spinal cord motor neuron differentiation (GO:0021522)|trigeminal nerve development (GO:0021559)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)|visceral motor neuron differentiation (GO:0021524)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	bHLH transcription factor binding (GO:0043425)|chromatin binding (GO:0003682)|enhancer sequence-specific DNA binding (GO:0001158)|estrogen receptor binding (GO:0030331)|ligand-dependent nuclear receptor binding (GO:0016922)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II transcription coactivator activity (GO:0001105)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(1)|kidney(3)|large_intestine(11)|lung(9)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	31		Lung NSC(810;0.000845)|Breast(144;0.0411)				GAGACACGACGGTGGCTTACA	0.517																																																0													62	65	64					5																	50687165		1934	4139	6073	SO:0001583	missense	3670			BC031213	CCDS43314.1	5q11.2	2012-03-09	2007-07-13		ENSG00000016082	ENSG00000016082		"Homeoboxes / LIM class"	6132	protein-coding gene	gene with protein product		600366	"ISL1 transcription factor, LIM/homeodomain, (islet-1)"			7912209	Standard	NM_002202		Approved	Isl-1, ISLET1	uc003jor.3	P61371	OTTHUMG00000162281	ENST00000230658.7:c.823G>T	5.37:g.50687165G>T	ENSP00000230658:p.Gly275Cys	Somatic		WXS	Illumina HiSeq	Phase_I	P20663|P47894	Missense_Mutation	SNP	ENST00000230658.7	37	CCDS43314.1	.	.	.	.	.	.	.	.	.	.	G	25.5	4.647492	0.87958	.	.	ENSG00000016082	ENST00000230658	D	0.85484	-1.99	5.93	5.93	0.95920	.	0.053759	0.85682	D	0.000000	D	0.88840	0.6546	L	0.38175	1.15	0.80722	D	1	D	0.71674	0.998	P	0.62184	0.899	D	0.88870	0.3332	10	0.62326	D	0.03	.	20.3311	0.98718	0.0:0.0:1.0:0.0	.	275	P61371	ISL1_HUMAN	C	275	ENSP00000230658:G275C	ENSP00000230658:G275C	G	+	1	0	ISL1	50722922	1.000000	0.71417	0.996000	0.52242	0.998000	0.95712	6.671000	0.74472	2.797000	0.96272	0.655000	0.94253	GGT		0.517	ISL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368413.3	NM_002202		T	50687165	G	T	50687165	3	4	573	1	0	0	0	0	1	0	0	0	7863	1116	39	4	841	4	ISL1	5	50687165	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10	44054094	50687165	130228095	16	33905										
F12	2161	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	176833055	176833058	+	Frame_Shift_Del	DEL	AGTG	AGTG	-													0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	tggcagggctccccggtgacAgtgagaactgcagggacaac					rs149368999	byFrequency	TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	AGTG	AGTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr5:176833055_176833058delAGTG	ENST00000253496.3	-	3	168_171	c.120_123delCACT	c.(118-123)ctcactfs	p.LT40fs	F12_ENST00000514943.1_5'Flank	NM_000505.3	NP_000496.2	P00748	FA12_HUMAN	coagulation factor XII (Hageman factor)	40					blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|Factor XII activation (GO:0002542)|fibrinolysis (GO:0042730)|innate immune response (GO:0045087)|plasma kallikrein-kinin cascade (GO:0002353)|positive regulation of blood coagulation (GO:0030194)|positive regulation of fibrinolysis (GO:0051919)|positive regulation of plasminogen activation (GO:0010756)|protein autoprocessing (GO:0016540)|protein processing (GO:0016485)|response to misfolded protein (GO:0051788)|zymogen activation (GO:0031638)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	misfolded protein binding (GO:0051787)|serine-type aminopeptidase activity (GO:0070009)|serine-type endopeptidase activity (GO:0004252)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(5)|skin(1)|urinary_tract(1)	12	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)		Ethanolamine Oleate(DB06689)	CCCCGGTGACAGTGAGAACTGCAG	0.588									Hereditary Angioedema																																							0																																										SO:0001589	frameshift_variant	2161	Familial Cancer Database	HAE, type I-III, Hereditary Angioneurotic Edema, HANE,	M31315	CCDS34302.1	5q35.3	2014-09-17			ENSG00000131187	ENSG00000131187	3.4.21.38		3530	protein-coding gene	gene with protein product		610619					Standard	NM_000505		Approved		uc003mgo.4	P00748	OTTHUMG00000163403	ENST00000253496.3:c.120_123delCACT	5.37:g.176833055_176833058delAGTG	ENSP00000253496:p.Leu40fs	Somatic		WXS	Illumina HiSeq	Phase_I	P78339	Frame_Shift_Del	DEL	ENST00000253496.3	37	CCDS34302.1																																																																																				0.588	F12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373217.1			-	176833058	AGTG	-	176833055	7	5	573	1	0	1	0	1	0	0	0	0	5341	175	7	0	1772	0	F12	5	176833055	Frame_Shift_Del	DEL	AGTG	TCGA-DW-7963-01B-11D-A28G-10	126145890	176833055	4082205	17	33906										
PRDM13	59336	hgsc.bcm.edu	37	chr6	100061624	100061625	+	In_Frame_Ins	INS	-	-	CCG													0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	agtgcctgctcgctggggacINSccgccgccgccgccgccgcc					rs370363311|rs577768379|rs112674667	byFrequency	TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr6:100061624_100061625insCCG	ENST00000369215.4	+	4	1418_1419	c.1113_1114insCCG	c.(1114-1116)ccg>CCGccg	p.372_372P>PP		NM_021620.3	NP_067633.2	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	372	Poly-Pro.				negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neurogenesis (GO:0022008)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)|methyltransferase activity (GO:0008168)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|lung(9)|prostate(1)	17		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		TCGCTGGGGACccgccgccgcc	0.757														1281	0.255791	0.3979	0.2017	5008	,	,		7609	0.1062		0.2734	False		,,,				2504	0.2382															0																																										SO:0001652	inframe_insertion	59336			AY004253	CCDS43487.1	6q16.2	2012-03-28			ENSG00000112238	ENSG00000112238			13998	protein-coding gene	gene with protein product							Standard	NM_021620		Approved		uc003pqg.1	Q9H4Q3	OTTHUMG00000015269	ENST00000369215.4:c.1129_1131dupCCG	6.37:g.100061631_100061633dupCCG	ENSP00000358217:p.Pro378dup	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TGC1|Q5TGC2	In_Frame_Ins	INS	ENST00000369215.4	37	CCDS43487.1																																																																																				0.757	PRDM13-002	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041619.2			CCG	100061625	-	CCG	100061624	7	5	573	1	0	1	1	0	0	0	0	0	12464	506	18	0	1127	0	PRDM13	6	100061624	In_Frame_Ins	INS	-	TCGA-DW-7963-01B-11D-A28G-10		100061624	71053443	18	33907										
REV3L	5980	ucsc.edu;bcgsc.ca	37	chr6	111701285	111701285	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	aatctgtggttcattttcttCatcatcactattttgtggat	6	7	6	0			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr6:111701285C>A	ENST00000358835.3	-	12	1808	c.1354G>T	c.(1354-1356)Gaa>Taa	p.E452*	REV3L_ENST00000368802.3_Nonsense_Mutation_p.E452*|REV3L_ENST00000435970.1_Nonsense_Mutation_p.E374*|REV3L_ENST00000368805.1_Nonsense_Mutation_p.E452*			O60673	DPOLZ_HUMAN	REV3-like, polymerase (DNA directed), zeta, catalytic subunit	452					DNA-dependent DNA replication (GO:0006261)|translesion synthesis (GO:0019985)	chromosome (GO:0005694)|nucleus (GO:0005634)|zeta DNA polymerase complex (GO:0016035)	4 iron, 4 sulfur cluster binding (GO:0051539)|DNA binding (GO:0003677)|DNA-directed DNA polymerase activity (GO:0003887)|metal ion binding (GO:0046872)|nucleotide binding (GO:0000166)			NS(2)|breast(1)|endometrium(6)|kidney(7)|large_intestine(30)|lung(25)|ovary(3)|prostate(5)|skin(8)|upper_aerodigestive_tract(1)	88		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TCATTTTCTTCATCATCACTA	0.398								DNA polymerases (catalytic subunits)																																								0													279	252	261					6																	111701285		2203	4300	6503	SO:0001587	stop_gained	5980			AF058701	CCDS5091.2, CCDS69177.1	6q22	2012-05-18	2012-05-18		ENSG00000009413	ENSG00000009413		"DNA polymerases"	9968	protein-coding gene	gene with protein product	"polymerase, DNA, zeta"	602776	"REV3 (yeast homolog)-like, catalytic subunit of DNA polymerase zeta", "REV3-like, catalytic subunit of DNA polymerase zeta (yeast)"			9618506, 9925914	Standard	NM_001286431		Approved	POLZ, REV3	uc003puy.4	O60673	OTTHUMG00000016318	ENST00000358835.3:c.1354G>T	6.37:g.111701285C>A	ENSP00000351697:p.Glu452*	Somatic		WXS	Illumina HiSeq		O43214|Q5TC33	Nonsense_Mutation	SNP	ENST00000358835.3	37	CCDS5091.2	.	.	.	.	.	.	.	.	.	.	C	46	12.327003	0.99657	.	.	ENSG00000009413	ENST00000368802;ENST00000368805;ENST00000358835;ENST00000435970	.	.	.	5.71	5.71	0.89125	.	0.058399	0.64402	D	0.000002	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.41790	T	0.15	-8.3219	19.8632	0.96793	0.0:1.0:0.0:0.0	.	.	.	.	X	452;452;452;374	.	ENSP00000351697:E452X	E	-	1	0	REV3L	111807978	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.350000	0.79385	2.699000	0.92147	0.655000	0.94253	GAA		0.398	REV3L-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043695.1	NM_002912		A	111701285	C	A	111701285	4	1	573	1	0	0	0	0	0	1	0	0	13253	835	29	4	8126	4	REV3L	6	111701285	Nonsense_Mutation	SNP	C	TCGA-DW-7963-01B-11D-A28G-10	11639661	111701285	59413782	19	33908										
SLC22A3	6581	hgsc.bcm.edu	37	chr6	160769796	160769796	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	agctgcgcggacccactcgcCgccttccccaaccgctcggc	10	21	0	0			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr6:160769796C>T	ENST00000275300.2	+	1	497	c.345C>T	c.(343-345)gcC>gcT	p.A115A	SLC22A3_ENST00000392145.1_Silent_p.A115A	NM_021977.3	NP_068812.1	O75751	S22A3_HUMAN	solute carrier family 22 (organic cation transporter), member 3	115					dopamine transport (GO:0015872)|drug transmembrane transport (GO:0006855)|histamine uptake (GO:0051615)|organic cation transport (GO:0015695)|quaternary ammonium group transport (GO:0015697)|regulation of appetite (GO:0032098)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	dopamine transmembrane transporter activity (GO:0005329)|organic cation transmembrane transporter activity (GO:0015101)|quaternary ammonium group transmembrane transporter activity (GO:0015651)|toxin transporter activity (GO:0019534)			NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(4)|lung(5)|ovary(1)|prostate(2)|skin(4)|upper_aerodigestive_tract(1)	27		Breast(66;0.00028)|Ovarian(120;0.0308)|Prostate(117;0.218)		OV - Ovarian serous cystadenocarcinoma(65;9.47e-17)|BRCA - Breast invasive adenocarcinoma(81;9.75e-06)	Adefovir Dipivoxil(DB00718)|Amphetamine(DB00182)|Choline(DB00122)|Cimetidine(DB00501)|Clonidine(DB00575)|Colchicine(DB01394)|Desipramine(DB01151)|Dopamine(DB00988)|Estradiol(DB00783)|Guanidine(DB00536)|Histamine Phosphate(DB00667)|Imipramine(DB00458)|Irinotecan(DB00762)|Lamivudine(DB00709)|Melphalan(DB01042)|Metformin(DB00331)|Methamphetamine(DB01577)|Nicotine(DB00184)|Norepinephrine(DB00368)|Oxaliplatin(DB00526)|Phenoxybenzamine(DB00925)|Prazosin(DB00457)|Procainamide(DB01035)|Progesterone(DB00396)|Testosterone(DB00624)|Vincristine(DB00541)	ACCCACTCGCCGCCTTCCCCA	0.756																																																0													3	3	3					6																	160769796		1659	3388	5047	SO:0001819	synonymous_variant	6581			AF078749	CCDS5277.1	6q25.3	2013-07-18	2013-07-18		ENSG00000146477	ENSG00000146477		"Solute carriers"	10967	protein-coding gene	gene with protein product		604842	"solute carrier family 22 (extraneuronal monoamine transporter), member 3"			9632645, 9933568	Standard	NM_021977		Approved	OCT3, EMT	uc003qti.4	O75751	OTTHUMG00000015953	ENST00000275300.2:c.345C>T	6.37:g.160769796C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SYN6|Q9UP02	Silent	SNP	ENST00000275300.2	37	CCDS5277.1																																																																																				0.756	SLC22A3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000042953.1	NM_021977		T	160769796	C	T	160769796	2	4	573	1	0	0	0	0	0	0	0	1	14468	639	23	1		1	SLC22A3	6	160769796	Silent	SNP	C	TCGA-DW-7963-01B-11D-A28G-10	49068511	160769796	10345271	20	33909										
TBP	6908	hgsc.bcm.edu	37	chr6	170871004	170871004	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	gagcaacaaaggcagcagcaGcaacaacaacagcagcagca	10	12	0	0			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr6:170871004G>A	ENST00000392092.2	+	3	459	c.180G>A	c.(178-180)caG>caA	p.Q60Q	TBP_ENST00000540980.1_Silent_p.Q40Q|TBP_ENST00000230354.6_Silent_p.Q60Q	NM_003194.4	NP_003185.1	P20226	TBP_HUMAN	TATA box binding protein	60	Poly-Gln.				cell death (GO:0008219)|gene expression (GO:0010467)|positive regulation of transcription, DNA-templated (GO:0045893)|spermatogenesis (GO:0007283)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase I promoter (GO:0006360)|transcription from RNA polymerase II promoter (GO:0006366)|transcription from RNA polymerase III promoter (GO:0006383)|transcription initiation from RNA polymerase I promoter (GO:0006361)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	cytoplasm (GO:0005737)|female pronucleus (GO:0001939)|male pronucleus (GO:0001940)|nuclear euchromatin (GO:0005719)|nucleoplasm (GO:0005654)|transcription factor TFIIA complex (GO:0005672)|transcription factor TFIID complex (GO:0005669)	repressing transcription factor binding (GO:0070491)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(2)|lung(9)|ovary(1)|prostate(4)|urinary_tract(1)	26		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;1.07e-22)|BRCA - Breast invasive adenocarcinoma(81;5.01e-06)|GBM - Glioblastoma multiforme(31;0.00591)		Ggcagcagcagcaacaacaac	0.542																																																0													43	45	44					6																	170871004		2203	4300	6503	SO:0001819	synonymous_variant	6908			M55654	CCDS5315.1, CCDS55077.1	6q27	2014-04-02			ENSG00000112592	ENSG00000112592		"General transcription factors"	11588	protein-coding gene	gene with protein product		600075		GTF2D1, SCA17		2194289, 11448935	Standard	NM_003194		Approved	TFIID	uc003qxu.3	P20226	OTTHUMG00000016084	ENST00000392092.2:c.180G>A	6.37:g.170871004G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4E3B3|F5H869|Q16845|Q6IBM6|Q9UC02	Silent	SNP	ENST00000392092.2	37	CCDS5315.1																																																																																				0.542	TBP-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000043271.2	NM_003194		A	170871004	G	A	170871004	2	1	573	1	0	0	0	0	0	0	0	1	15656	962	34	2		2	TBP	6	170871004	Silent	SNP	G	TCGA-DW-7963-01B-11D-A28G-10	10101208	170871004	244063	21	33910										
TAF6	6878	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	99707631	99707631	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	atgttgctcagcacagggccGtccagcacactgcggatccg	12	14	1	0	rs148894017		TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr7:99707631G>A	ENST00000344095.4	-	12	1749	c.1224C>T	c.(1222-1224)gaC>gaT	p.D408D	TAF6_ENST00000452041.1_Silent_p.D408D|AP4M1_ENST00000421755.1_Intron|TAF6_ENST00000437822.2_Silent_p.D445D|TAF6_ENST00000472509.1_Silent_p.D465D|TAF6_ENST00000453269.2_Silent_p.D408D|TAF6_ENST00000418432.2_Silent_p.D332D	NM_005641.3	NP_005632.1	P49848	TAF6_HUMAN	TAF6 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 80kDa	408					DNA-templated transcription, initiation (GO:0006352)|gene expression (GO:0010467)|negative regulation of cell cycle (GO:0045786)|negative regulation of cell proliferation (GO:0008285)|regulation of sequence-specific DNA binding transcription factor activity (GO:0051090)|regulation of transcription, DNA-templated (GO:0006355)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	cytoplasm (GO:0005737)|MLL1 complex (GO:0071339)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor TFIID complex (GO:0005669)|transcription factor TFTC complex (GO:0033276)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|liver(1)|lung(7)|ovary(2)|pancreas(1)|prostate(1)|urinary_tract(2)	26	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GCACAGGGCCGTCCAGCACAC	0.587																																																0								G	,,	0,4406		0,0,2203	110	97	101		1335,1224,1224	-6.5	0.9	7	dbSNP_134	101	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous,coding-synonymous,coding-synonymous	TAF6	NM_001190415.1,NM_005641.3,NM_139315.2	,,	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	,,	445/715,408/678,408/678	99707631	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	6878				CCDS5686.1, CCDS55135.1	7q	2010-02-26	2002-08-29	2001-12-07	ENSG00000106290	ENSG00000106290			11540	protein-coding gene	gene with protein product	"TAF6 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 80 kD", "transcription initiation factor TFIID 70 kD subunit"	602955	"TATA box binding protein (TBP)-associated factor, RNA polymerase II, E, 70/85kD"	TAF2E		826207	Standard	NM_139315		Approved	TAFII70, TAFII80, MGC:8964, TAFII85	uc011kji.2	P49848	OTTHUMG00000154771	ENST00000344095.4:c.1224C>T	7.37:g.99707631G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D2B2|A4D2B3|B4DT11|D6W5U2|Q6AI29	Silent	SNP	ENST00000344095.4	37	CCDS5686.1																																																																																				0.587	TAF6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337024.2	NM_005641		A	99707631	G	A	99707631	2	1	573	1	0	0	0	0	0	0	0	1	15542	1136	40	1		1	TAF6	7	99707631	Silent	SNP	G	TCGA-DW-7963-01B-11D-A28G-10		99707631	59431032	22	33911										
SSPO	23145	hgsc.bcm.edu	37	chr7	149487608	149487608	+	RNA	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	cgagggccccgacgcctgcgTtgaggctcccgcgcccccgg	15	19	0	1	rs1635798	byFrequency	TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr7:149487608T>G	ENST00000378016.2	+	0	4921							A2VEC9	SSPO_HUMAN	SCO-spondin						cell adhesion (GO:0007155)	extracellular space (GO:0005615)	peptidase inhibitor activity (GO:0030414)					Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GACGCCTGCGTTGAGGCTCCC	0.776													G|||	1320	0.263578	0.6959	0.1095	5008	,	,		8211	0.1171		0.0885	False		,,,				2504	0.1196															0													1	1	1					7																	149487608		434	1167	1601			23145			AK093431		7q36.1	2013-08-07	2013-08-06		ENSG00000197558	ENSG00000197558			21998	protein-coding gene	gene with protein product	"subcommissural organ spondin", "SCO protein, thrombospondin domain containing"		"SCO-spondin homolog (Bos taurus)"			8743952, 11008217	Standard	NM_198455		Approved	SCO-spondin, KIAA0543, FLJ36112	uc010lpk.3	A2VEC9	OTTHUMG00000157884		7.37:g.149487608T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q76B61	Splice_Site	SNP	ENST00000378016.2	37																																																																																					0.776	SSPO-202	KNOWN	basic	processed_transcript	processed_transcript				G	149487608	T	G	149487608	1	3	573	0	1	0	0	0	0	0	0	0	15201	1739	60	5		5	SSPO	7	149487608	RNA	SNP	T	TCGA-DW-7963-01B-11D-A28G-10	49779977	149487608	9651055	23	33912										
GIMAP8	155038	broad.mit.edu	37	chr7	150174500	150174500	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	tcactgaagaggacaaaacaGctgtggcgaaactggaggcc	13	9	1	2			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr7:150174500G>T	ENST00000307271.3	+	5	2204	c.1630G>T	c.(1630-1632)Gct>Tct	p.A544S		NM_175571.2	NP_783161.1	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	544	AIG1-type G 3.					cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	GTP binding (GO:0005525)			breast(3)|central_nervous_system(3)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(11)|lung(26)|ovary(2)|skin(7)|stomach(1)|urinary_tract(1)	62			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		GGACAAAACAGCTGTGGCGAA	0.502																																																0													80	77	78					7																	150174500		2203	4300	6503	SO:0001583	missense	155038			AL834361	CCDS34777.1	7q36.1	2014-04-04			ENSG00000171115	ENSG00000171115		"GTPases, IMAP"	21792	protein-coding gene	gene with protein product	"immune-associated nucleotide-binding protein 9"					15474311	Standard	XM_005249951		Approved	DKFZp667I133, hIAN6, IAN9	uc003whj.3	Q8ND71	OTTHUMG00000158327	ENST00000307271.3:c.1630G>T	7.37:g.150174500G>T	ENSP00000305107:p.Ala544Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000307271.3	37	CCDS34777.1	.	.	.	.	.	.	.	.	.	.	G	14.77	2.633250	0.47049	.	.	ENSG00000171115	ENST00000307271	T	0.34859	1.34	4.44	1.39	0.22231	AIG1 (1);	3.096750	0.01386	N	0.013095	T	0.33673	0.0871	L	0.41236	1.265	0.09310	N	1	P	0.35793	0.521	B	0.38378	0.272	T	0.23833	-1.0177	10	0.45353	T	0.12	.	5.6382	0.17548	0.3651:0.0:0.6349:0.0	.	544	Q8ND71	GIMA8_HUMAN	S	544	ENSP00000305107:A544S	ENSP00000305107:A544S	A	+	1	0	GIMAP8	149805433	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	0.442000	0.21628	0.518000	0.28383	-0.150000	0.13652	GCT		0.502	GIMAP8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350701.1	NM_175571		T	150174500	G	T	150174500	3	4	573	1	0	0	0	0	1	0	0	0	6392	971	34	4	1644	4	GIMAP8	7	150174500	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10	686892	150174500	8964163	24	33913										
HR	55806	hgsc.bcm.edu	37	chr8	21974513	21974513	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	atccaggtagcagctgcctgGggcgccaggctccagggcgc	16	14	0	0	rs143782421	byFrequency	TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr8:21974513G>C	ENST00000381418.4	-	17	4733	c.3253C>G	c.(3253-3255)Cca>Gca	p.P1085A	HR_ENST00000312841.8_Intron	NM_005144.4	NP_005135.2	O43593	HAIR_HUMAN	hair growth associated	1085	JmjC. {ECO:0000255|PROSITE- ProRule:PRU00538}.				negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nuclear body (GO:0016604)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|oxidoreductase activity (GO:0016491)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(12)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)	27		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		CAGCTGCCTGGGGCGCCAGGC	0.716													G|||	40	0.00798722	0.028	0.0043	5008	,	,		13773	0.0		0.0	False		,,,				2504	0.0															0								G	ALA/PRO,	28,3236		0,28,1604	2	3	3		3253,	4.4	0	8	dbSNP_134	3	0,6902		0,0,3451	no	missense,intron	HR	NM_005144.4,NM_018411.4	27,	0,28,5055	CC,CG,GG		0.0,0.8578,0.2754	probably-damaging,	1085/1190,	21974513	28,10138	1632	3451	5083	SO:0001583	missense	55806			AF039196	CCDS6022.1, CCDS6023.1	8p12	2012-12-07	2012-12-07		ENSG00000168453	ENSG00000168453			5172	protein-coding gene	gene with protein product		602302	"hairless (mouse) homolog", "hairless homolog (mouse)"	ALUNC		10051399, 9463324	Standard	NM_018411		Approved	AU	uc003xas.3	O43593	OTTHUMG00000097089	ENST00000381418.4:c.3253C>G	8.37:g.21974513G>C	ENSP00000370826:p.Pro1085Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GS30|Q96H33|Q9NPE1	Missense_Mutation	SNP	ENST00000381418.4	37	CCDS6022.1	13	0.005952380952380952	12	0.024390243902439025	1	0.0027624309392265192	0	0.0	0	0.0	G	16.79	3.221593	0.58560	0.008578	0.0	ENSG00000168453	ENST00000381418	T	0.70282	-0.47	5.32	4.44	0.53790	Transcription factor jumonji/aspartyl beta-hydroxylase (2);Transcription factor jumonji (1);	0.123995	0.37715	N	0.001968	T	0.49167	0.1541	L	0.36672	1.1	0.33054	D	0.533176	P	0.43750	0.816	P	0.46362	0.514	T	0.70890	-0.4749	10	0.59425	D	0.04	-10.3405	9.9179	0.41446	0.0936:0.0:0.9064:0.0	.	1085	O43593	HAIR_HUMAN	A	1085	ENSP00000370826:P1085A	ENSP00000370826:P1085A	P	-	1	0	HR	22030458	0.909000	0.30893	0.029000	0.17559	0.847000	0.48162	3.053000	0.49901	1.367000	0.46095	0.655000	0.94253	CCA		0.716	HR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214213.1			C	21974513	G	C	21974513	3	2	573	1	0	0	0	0	1	0	0	0	7354	1232	43	4	328	4	HR	8	21974513	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10		21974513	124389509	25	33914			2	65		2	2	38	N	G_C	6.8125e-05
HR	55806	hgsc.bcm.edu	37	chr8	21974550	21974550	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	gcgcctgccccggccgggcaCacctcaaagaagagaagggg	15	14	1	2	rs146855847	byFrequency	TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr8:21974550C>T	ENST00000381418.4	-	17	4696	c.3216G>A	c.(3214-3216)gtG>gtA	p.V1072V	HR_ENST00000312841.8_Intron	NM_005144.4	NP_005135.2	O43593	HAIR_HUMAN	hair growth associated	1072	JmjC. {ECO:0000255|PROSITE- ProRule:PRU00538}.				negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nuclear body (GO:0016604)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|oxidoreductase activity (GO:0016491)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(12)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)	27		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		CGGCCGGGCACACCTCAAAGA	0.687													C|||	40	0.00798722	0.028	0.0043	5008	,	,		14630	0.0		0.0	False		,,,				2504	0.0															0								C	,	44,3144		0,44,1550	3	3	3		3216,	3.5	1	8	dbSNP_134	3	1,6735		0,1,3367	no	coding-synonymous,intron	HR	NM_005144.4,NM_018411.4	,	0,45,4917	TT,TC,CC		0.0148,1.3802,0.4534	,	1072/1190,	21974550	45,9879	1594	3368	4962	SO:0001819	synonymous_variant	55806			AF039196	CCDS6022.1, CCDS6023.1	8p12	2012-12-07	2012-12-07		ENSG00000168453	ENSG00000168453			5172	protein-coding gene	gene with protein product		602302	"hairless (mouse) homolog", "hairless homolog (mouse)"	ALUNC		10051399, 9463324	Standard	NM_018411		Approved	AU	uc003xas.3	O43593	OTTHUMG00000097089	ENST00000381418.4:c.3216G>A	8.37:g.21974550C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6GS30|Q96H33|Q9NPE1	Silent	SNP	ENST00000381418.4	37	CCDS6022.1																																																																																				0.687	HR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214213.1			T	21974550	C	T	21974550	2	4	573	1	0	0	0	0	0	0	0	1	7354	465	17	2		2	HR	8	21974550	Silent	SNP	C	TCGA-DW-7963-01B-11D-A28G-10	37	21974550	124389472	26	33915			2	65		2	2	38	N	G_C	6.8125e-05
STMN4	81551	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	27099960	27099960	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	aggggatcggccaggaagcaGgagcagaacaaggacaccag	16	9	0	1			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr8:27099960G>A	ENST00000265770.7	-	3	199	c.63C>T	c.(61-63)tcC>tcT	p.S21S	STMN4_ENST00000519997.1_Silent_p.S12S|STMN4_ENST00000350889.4_Silent_p.S21S|STMN4_ENST00000523048.1_Silent_p.S21S|STMN4_ENST00000519614.1_Silent_p.S21S|STMN4_ENST00000522908.1_Silent_p.S21S			Q9H169	STMN4_HUMAN	stathmin-like 4	21					regulation of microtubule polymerization or depolymerization (GO:0031110)	cell projection (GO:0042995)|Golgi apparatus (GO:0005794)				endometrium(1)|kidney(1)|large_intestine(3)|lung(4)|ovary(1)|pancreas(1)	11		Ovarian(32;0.00167)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0214)|Epithelial(17;9.82e-10)|Colorectal(74;0.142)	Lomustine(DB01206)	CCAGGAAGCAGGAGCAGAACA	0.577																																																0													104	97	100					8																	27099960		2203	4300	6503	SO:0001819	synonymous_variant	81551				CCDS6055.1, CCDS64851.1, CCDS64852.1, CCDS64854.1	8p21.2	2006-12-09			ENSG00000015592	ENSG00000015592			16078	protein-coding gene	gene with protein product						11230166	Standard	NM_001283054		Approved	RB3	uc003xfj.3	Q9H169	OTTHUMG00000099461	ENST00000265770.7:c.63C>T	8.37:g.27099960G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2Z7|B7Z4I9|D3DSS8|D3DSS9|G5EA16|Q2TAB9	Silent	SNP	ENST00000265770.7	37																																																																																					0.577	STMN4-006	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000375941.1	NM_030795		A	27099960	G	A	27099960	2	1	573	1	0	0	0	0	0	0	0	1	15323	987	35	2		2	STMN4	8	27099960	Silent	SNP	G	TCGA-DW-7963-01B-11D-A28G-10	5125410	27099960	119264062	27	33916										
C9orf156	51531	broad.mit.edu	37	chr9	100672508	100672508	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	atgggccaatttgttcttctGccacgctggaactctgatca	9	11	4	1			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr9:100672508G>T	ENST00000375119.3	-	4	876	c.800C>A	c.(799-801)gCa>gAa	p.A267E	C9orf156_ENST00000478126.1_5'UTR	NM_016481.3	NP_057565.3	Q9BU70	NAP1_HUMAN	chromosome 9 open reading frame 156	267					viral process (GO:0016032)		hydrolase activity (GO:0016787)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(3)|prostate(1)|skin(1)	13		Acute lymphoblastic leukemia(62;0.158)				TTGTTCTTCTGCCACGCTGGA	0.468																																																0													168	163	165					9																	100672508		2203	4300	6503	SO:0001583	missense	51531			AK023069	CCDS6730.1	9q31.1	2011-03-02			ENSG00000136932	ENSG00000136932			30967	protein-coding gene	gene with protein product	"Nef (lentivirus myristoylated factor) associated protein 1"						Standard	NM_016481		Approved	HSPC219, NAP1	uc004axv.1	Q9BU70	OTTHUMG00000021007	ENST00000375119.3:c.800C>A	9.37:g.100672508G>T	ENSP00000364260:p.Ala267Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T113|Q86SK0|Q9NXJ7|Q9P0Q7	Missense_Mutation	SNP	ENST00000375119.3	37	CCDS6730.1	.	.	.	.	.	.	.	.	.	.	G	2.642	-0.283955	0.05642	.	.	ENSG00000136932	ENST00000375119;ENST00000375118;ENST00000325350	T;T	0.32272	1.88;1.46	5.03	3.07	0.35406	Uncharacterised domain UPF0066, YaeB-like domain (1);	1.008340	0.07952	N	0.981024	T	0.28466	0.0704	L	0.29908	0.895	0.09310	N	1	B;D;P	0.53462	0.082;0.96;0.483	B;P;B	0.47891	0.069;0.56;0.058	T	0.13282	-1.0515	10	0.48119	T	0.1	-1.4593	6.9791	0.24694	0.0908:0.0:0.6546:0.2546	.	164;121;267	Q6Y2L2;Q5T114;Q9BU70	.;.;NAP1_HUMAN	E	267;121;164	ENSP00000364260:A267E;ENSP00000364259:A121E	ENSP00000324426:A164E	A	-	2	0	C9orf156	99712329	0.000000	0.05858	0.002000	0.10522	0.009000	0.06853	0.188000	0.17018	1.253000	0.44018	0.563000	0.77884	GCA		0.468	C9orf156-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055401.1	NM_016481		T	100672508	G	T	100672508	3	4	573	1	0	0	0	0	1	0	0	0	2467	1319	46	4	533	4	C9orf156	9	100672508	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10		100672508	40540923	28	33917										
AKNA	80709	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	117143567	117143567	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	gccgccgctgggggcccttcCccaggccaggctcagcccag	14	19	1	0			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr9:117143567C>A	ENST00000307564.4	-	2	208	c.47G>T	c.(46-48)gGg>gTg	p.G16V	AKNA_ENST00000374088.3_Missense_Mutation_p.G16V|AKNA_ENST00000312033.3_Missense_Mutation_p.G16V	NM_030767.4	NP_110394.3	Q7Z591	AKNA_HUMAN	AT-hook transcription factor	16					positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	membrane (GO:0016020)|nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			breast(3)|central_nervous_system(4)|cervix(1)|endometrium(2)|kidney(4)|large_intestine(7)|liver(2)|lung(22)|ovary(4)|stomach(2)	51						GGGGCCCTTCCCCAGGCCAGG	0.622																																																0													35	28	31					9																	117143567		2201	4299	6500	SO:0001583	missense	80709			AK024431	CCDS6805.1	9q32	2008-02-05			ENSG00000106948	ENSG00000106948			24108	protein-coding gene	gene with protein product		605729				11268217, 11853319	Standard	NM_030767		Approved	KIAA1968	uc004bis.3	Q7Z591	OTTHUMG00000020538	ENST00000307564.4:c.47G>T	9.37:g.117143567C>A	ENSP00000303769:p.Gly16Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q05BK5|Q5T535|Q5T536|Q5T537|Q64FX6|Q64FX7|Q64FX8|Q64FY2|Q6ZMK0|Q6ZNL2|Q6ZTX0|Q8TET1|Q8TF33|Q96RR9|Q9H7P7	Missense_Mutation	SNP	ENST00000307564.4	37	CCDS6805.1	.	.	.	.	.	.	.	.	.	.	C	13.20	2.167000	0.38217	.	.	ENSG00000106948	ENST00000307564;ENST00000374088;ENST00000312033;ENST00000394574	T;T;T	0.58940	1.58;1.58;0.3	3.83	3.83	0.44106	.	0.000000	0.43919	D	0.000520	T	0.64023	0.2561	L	0.32530	0.975	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.66614	-0.5879	10	0.87932	D	0	-30.4003	11.5452	0.50690	0.0:1.0:0.0:0.0	.	16;16	Q7Z591-6;Q7Z591	.;AKNA_HUMAN	V	16	ENSP00000303769:G16V;ENSP00000363201:G16V;ENSP00000309222:G16V	ENSP00000303769:G16V	G	-	2	0	AKNA	116183388	0.873000	0.30073	0.977000	0.42913	0.053000	0.15095	1.457000	0.35212	2.460000	0.83146	0.561000	0.74099	GGG		0.622	AKNA-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053767.2	NM_030767		A	117143567	C	A	117143567	3	1	573	1	0	0	0	0	1	0	0	0	463	623	22	4	4356	4	AKNA	9	117143567	Missense_Mutation	SNP	C	TCGA-DW-7963-01B-11D-A28G-10	16471059	117143567	24069864	29	33918										
GAD2	2572	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	26506915	26506915	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	caactacgcgtttctccatgCaacaggtaaagactcagcgg	9	12	2	1			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr10:26506915C>T	ENST00000376261.3	+	3	784	c.281C>T	c.(280-282)gCa>gTa	p.A94V	GAD2_ENST00000376248.1_5'Flank|GAD2_ENST00000259271.3_Missense_Mutation_p.A94V	NM_001134366.1	NP_001127838.1	Q05329	DCE2_HUMAN	glutamate decarboxylase 2 (pancreatic islets and brain, 65kDa)	94					glutamate decarboxylation to succinate (GO:0006540)|neurotransmitter biosynthetic process (GO:0042136)|neurotransmitter secretion (GO:0007269)|response to drug (GO:0042493)|synaptic transmission (GO:0007268)	anchored component of membrane (GO:0031225)|axon (GO:0030424)|cell junction (GO:0030054)|clathrin-sculpted gamma-aminobutyric acid transport vesicle membrane (GO:0061202)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|synaptic vesicle membrane (GO:0030672)	glutamate binding (GO:0016595)|glutamate decarboxylase activity (GO:0004351)|pyridoxal phosphate binding (GO:0030170)			central_nervous_system(1)|endometrium(2)|large_intestine(8)|lung(26)|ovary(1)|pancreas(1)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	48						TTTCTCCATGCAACAGGTAAA	0.721																																																0													27	36	33					10																	26506915		2200	4295	6495	SO:0001583	missense	2572			AJ251501	CCDS7149.1	10p13-p11.2	2003-11-11	2002-08-29		ENSG00000136750	ENSG00000136750	4.1.1.15		4093	protein-coding gene	gene with protein product		138275	"glutamate decarboxylase 2 (pancreatic islets and brain, 65kD)"			2039509	Standard	NM_000818		Approved	GAD65	uc001isp.2	Q05329	OTTHUMG00000017836	ENST00000376261.3:c.281C>T	10.37:g.26506915C>T	ENSP00000365437:p.Ala94Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UD87	Missense_Mutation	SNP	ENST00000376261.3	37	CCDS7149.1	.	.	.	.	.	.	.	.	.	.	C	15.99	2.996975	0.54147	.	.	ENSG00000136750	ENST00000376261;ENST00000259271;ENST00000428517	T;T;T	0.59638	0.25;0.25;0.25	5.84	4.88	0.63580	.	0.414814	0.27068	N	0.021100	T	0.51398	0.1672	L	0.54323	1.7	0.80722	D	1	P;B	0.39480	0.675;0.048	B;B	0.32864	0.154;0.016	T	0.59289	-0.7482	10	0.56958	D	0.05	-3.897	16.0867	0.81060	0.0:0.866:0.134:0.0	.	94;94	Q4G154;Q05329	.;DCE2_HUMAN	V	94	ENSP00000365437:A94V;ENSP00000259271:A94V;ENSP00000390434:A94V	ENSP00000259271:A94V	A	+	2	0	GAD2	26546921	1.000000	0.71417	1.000000	0.80357	0.014000	0.08584	4.858000	0.62947	2.768000	0.95171	0.561000	0.74099	GCA		0.721	GAD2-001	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047255.1	NM_000818		T	26506915	C	T	26506915	3	4	573	1	0	0	0	0	1	0	0	0	6187	710	25	2	291	2	GAD2	10	26506915	Missense_Mutation	SNP	C	TCGA-DW-7963-01B-11D-A28G-10		26506915	109027832	30	33919										
KIF5B	3799	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	32326205	32326205	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	ttcactaccagctaaatcaaCcagataaagttttccactca	3	12	3	1			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr10:32326205C>A	ENST00000302418.4	-	8	1145	c.688G>T	c.(688-690)Gtt>Ttt	p.V230F		NM_004521.2	NP_004512.1	P33176	KINH_HUMAN	kinesin family member 5B	230	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|cellular protein metabolic process (GO:0044267)|cytoplasm organization (GO:0007028)|cytoskeleton-dependent intracellular transport (GO:0030705)|microtubule-based movement (GO:0007018)|plus-end-directed vesicle transport along microtubule (GO:0072383)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of potassium ion transport (GO:0043268)|regulation of membrane potential (GO:0042391)|stress granule disassembly (GO:0035617)|vesicle transport along microtubule (GO:0047496)	ciliary rootlet (GO:0035253)|cytoplasm (GO:0005737)|endocytic vesicle (GO:0030139)|kinesin complex (GO:0005871)|membrane (GO:0016020)|microtubule (GO:0005874)|microtubule organizing center (GO:0005815)|neuron projection (GO:0043005)|perinuclear region of cytoplasm (GO:0048471)|vesicle (GO:0031982)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule binding (GO:0008017)|microtubule motor activity (GO:0003777)|plus-end-directed microtubule motor activity (GO:0008574)		KIF5B/ALK(8)|KIF5B/RET(79)	NS(2)|breast(1)|endometrium(5)|kidney(2)|large_intestine(12)|lung(11)|ovary(1)|prostate(1)	35		Prostate(175;0.0137)				GCTAAATCAACCAGATAAAGT	0.338			T	"RET, ALK"	NSCLC																																		Dom	yes		10	10p11.22	3799	kinesin family member 5B		E	0													127	110	116					10																	32326205		2202	4298	6500	SO:0001583	missense	3799			X65873	CCDS7171.1	10p11.22	2007-02-13			ENSG00000170759	ENSG00000170759		"Kinesins"	6324	protein-coding gene	gene with protein product		602809		KNS1		1607388	Standard	NM_004521		Approved	KNS	uc001iwe.4	P33176	OTTHUMG00000017913	ENST00000302418.4:c.688G>T	10.37:g.32326205C>A	ENSP00000307078:p.Val230Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVB2|Q5VZ85	Missense_Mutation	SNP	ENST00000302418.4	37	CCDS7171.1	.	.	.	.	.	.	.	.	.	.	C	28.1	4.891963	0.91889	.	.	ENSG00000170759	ENST00000302418	D	0.83335	-1.71	5.0	5.0	0.66597	Kinesin, motor domain (5);Kinesin, motor region, conserved site (1);	0.062994	0.64402	D	0.000007	D	0.95404	0.8508	H	0.99299	4.505	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.97679	1.0171	10	0.87932	D	0	.	18.6607	0.91471	0.0:1.0:0.0:0.0	.	230	P33176	KINH_HUMAN	F	230	ENSP00000307078:V230F	ENSP00000307078:V230F	V	-	1	0	KIF5B	32366211	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.811000	0.86092	2.449000	0.82847	0.557000	0.71058	GTT		0.338	KIF5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047467.1	NM_004521		A	32326205	C	A	32326205	3	1	573	1	0	0	0	0	1	0	0	0	8313	507	18	4	2275	4	KIF5B	10	32326205	Missense_Mutation	SNP	C	TCGA-DW-7963-01B-11D-A28G-10	5819290	32326205	103208542	31	33920										
MUC2	4583	bcgsc.ca	37	chr11	1093061	1093061	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	acccactggcacacagacccCaaccccaacagccatcacca	4	21	1	1	rs111210454		TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr11:1093061C>T	ENST00000441003.2	+	30	4907	c.4880C>T	c.(4879-4881)cCa>cTa	p.P1627L	MUC2_ENST00000359061.5_Missense_Mutation_p.P1594L|MUC2_ENST00000361558.6_Intron|MUC2_ENST00000333592.6_5'Flank	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	acacagaccccaaccccaaca	0.632																																																0													128	165	153					11																	1093061		1874	3606	5480	SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4880C>T	11.37:g.1093061C>T	ENSP00000415183:p.Pro1627Leu	Somatic		WXS	Illumina HiSeq	Phase_1	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	C	6.096	0.386050	0.11524	.	.	ENSG00000198788	ENST00000441003;ENST00000359061	T;T	0.13657	2.57;2.97	1.61	1.61	0.23674	.	13.230700	0.00633	U	0.000492	T	0.09774	0.0240	.	.	.	0.09310	N	1	B	0.17465	0.022	B	0.08055	0.003	T	0.22906	-1.0203	9	0.27785	T	0.31	.	6.7045	0.23242	0.0:1.0:0.0:0.0	.	1627	E7EUV1	.	L	1627;1594	ENSP00000415183:P1627L;ENSP00000351956:P1594L	ENSP00000351956:P1594L	P	+	2	0	MUC2	1083061	0.000000	0.05858	0.009000	0.14445	0.048000	0.14542	0.279000	0.18771	0.910000	0.36722	0.121000	0.15741	CCA		0.632	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		T	1093061	C	T	1093061	3	4	573	1	0	0	0	0	1	0	0	0	9982	594	21	2	4998	2	MUC2	11	1093061	Missense_Mutation	SNP	C	TCGA-DW-7963-01B-11D-A28G-10		1093061	133913455	32	33921										
MUC2	4583	broad.mit.edu	37	chr11	1093204	1093204	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	ccggcacacagtccccaaccCcaacagccatcaccaccacc	4	23	1	0	rs56299570		TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr11:1093204C>A	ENST00000441003.2	+	30	5050	c.5023C>A	c.(5023-5025)Cca>Aca	p.P1675T	MUC2_ENST00000359061.5_Missense_Mutation_p.P1642T|MUC2_ENST00000361558.6_Intron|MUC2_ENST00000333592.6_5'Flank	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)		p.P1675T(1)|p.P1642T(1)		NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	gtccccaaccccaacagccat	0.627																																																2	Substitution - Missense(2)	kidney(2)																																								SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.5023C>A	11.37:g.1093204C>A	ENSP00000415183:p.Pro1675Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	C	0.954	-0.705464	0.03255	.	.	ENSG00000198788	ENST00000441003;ENST00000359061	T;T	0.09073	3.02;3.53	1.75	-3.49	0.04724	.	0.575351	0.10542	U	0.662513	T	0.04092	0.0114	.	.	.	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.45381	-0.9265	9	0.16896	T	0.51	.	6.9769	0.24681	0.6778:0.3222:0.0:0.0	rs56299570	1675	E7EUV1	.	T	1675;1642	ENSP00000415183:P1675T;ENSP00000351956:P1642T	ENSP00000351956:P1642T	P	+	1	0	MUC2	1083204	0.000000	0.05858	0.000000	0.03702	0.004000	0.04260	-3.268000	0.00533	-1.450000	0.01936	0.184000	0.17185	CCA		0.627	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		A	1093204	C	A	1093204	3	1	573	1	0	0	0	0	1	0	0	0	9982	623	22	4	5141	4	MUC2	11	1093204	Missense_Mutation	SNP	C	TCGA-DW-7963-01B-11D-A28G-10	143	1093204	133913312	33	33922										
MUC5B	727897	hgsc.bcm.edu	37	chr11	1253980	1253980	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	caagggcgtacagctcagcgActggagggacggcgtctgca	16	11	2	0	rs202127660		TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr11:1253980A>G	ENST00000529681.1	+	17	2103	c.2045A>G	c.(2044-2046)gAc>gGc	p.D682G	MUC5B_ENST00000447027.1_Missense_Mutation_p.D685G	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	682					cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		CAGCTCAGCGACTGGAGGGAC	0.682																																																0													21	24	23					11																	1253980		2116	4228	6344	SO:0001583	missense	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.2045A>G	11.37:g.1253980A>G	ENSP00000436812:p.Asp682Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Missense_Mutation	SNP	ENST00000529681.1	37	CCDS44515.2	.	.	.	.	.	.	.	.	.	.	A	7.541	0.660740	0.14645	.	.	ENSG00000117983	ENST00000529681;ENST00000447027;ENST00000349637;ENST00000406844	T;T	0.76060	-0.99;-0.99	4.6	2.72	0.32119	Uncharacterised domain, cysteine-rich (2);	.	.	.	.	T	0.50103	0.1596	N	0.02960	-0.455	0.24874	N	0.992269	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.45920	-0.9228	9	0.87932	D	0	.	8.6635	0.34108	0.2416:0.0:0.7584:0.0	.	682;1341;685	Q9HC84;A7Y9J9;E9PBJ0	MUC5B_HUMAN;.;.	G	682;685;683;718	ENSP00000436812:D682G;ENSP00000415793:D685G	ENSP00000343037:D683G	D	+	2	0	MUC5B	1210556	0.999000	0.42202	0.632000	0.29296	0.070000	0.16714	2.607000	0.46300	0.373000	0.24621	-1.983000	0.00453	GAC		0.682	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		G	1253980	A	G	1253980	3	3	573	1	0	0	0	0	1	0	0	0	9986	275	10	3	2120	3	MUC5B	11	1253980	Missense_Mutation	SNP	A	TCGA-DW-7963-01B-11D-A28G-10	160776	1253980	133752536	34	33923										
STIM1	6786	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	4104179	4104179	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	cgtggcccacagctcttcccTggatgatgtagatcataaaa	9	11	2	2			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr11:4104179T>G	ENST00000300737.4	+	9	1774	c.1205T>G	c.(1204-1206)cTg>cGg	p.L402R	STIM1_ENST00000533977.1_Missense_Mutation_p.L229R|STIM1_ENST00000527651.1_Missense_Mutation_p.L402R	NM_003156.3	NP_003147.2	Q13586	STIM1_HUMAN	stromal interaction molecule 1	402	SOAR/CAD.				activation of store-operated calcium channel activity (GO:0032237)|blood coagulation (GO:0007596)|detection of calcium ion (GO:0005513)|regulation of calcium ion transport (GO:0051924)|regulation of store-operated calcium entry (GO:2001256)|store-operated calcium entry (GO:0002115)	cortical endoplasmic reticulum (GO:0032541)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|growth cone (GO:0030426)|integral component of endoplasmic reticulum membrane (GO:0030176)|integral component of plasma membrane (GO:0005887)|microtubule (GO:0005874)	calcium channel regulator activity (GO:0005246)|calcium ion binding (GO:0005509)|identical protein binding (GO:0042802)|microtubule plus-end binding (GO:0051010)|store-operated calcium channel activity (GO:0015279)			haematopoietic_and_lymphoid_tissue(1)|large_intestine(6)|liver(1)|lung(14)|pancreas(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	30		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)		AGCTCTTCCCTGGATGATGTA	0.448																																																0													104	93	97					11																	4104179		2201	4298	6499	SO:0001583	missense	6786			BC021300, U52426	CCDS7749.1, CCDS60706.1, CCDS73247.1	11p15.5	2014-09-17			ENSG00000167323	ENSG00000167323		"Sterile alpha motif (SAM) domain containing"	11386	protein-coding gene	gene with protein product		605921				8921403, 11463338, 11983428	Standard	NM_003156		Approved	GOK, D11S4896E	uc021qco.1	Q13586	OTTHUMG00000133360	ENST00000300737.4:c.1205T>G	11.37:g.4104179T>G	ENSP00000300737:p.Leu402Arg	Somatic		WXS	Illumina HiSeq	Phase_I	E9PQJ4|Q8N382	Missense_Mutation	SNP	ENST00000300737.4	37	CCDS7749.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	19.99|19.99	3.928765|3.928765	0.73327|0.73327	.|.	.|.	ENSG00000167323|ENSG00000167323	ENST00000300737;ENST00000527651;ENST00000533977|ENST00000526596	T;T;T|.	0.81330|.	-0.52;-1.48;-0.51|.	5.31|5.31	5.31|5.31	0.75309|0.75309	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.73009|0.73009	0.3532|0.3532	M|M	0.72118|0.72118	2.19|2.19	0.80722|0.80722	D|D	1|1	D;D|.	0.89917|.	0.999;1.0|.	D;D|.	0.69307|.	0.946;0.963|.	T|T	0.73528|0.73528	-0.3954|-0.3954	10|5	0.87932|.	D|.	0|.	-15.7324|-15.7324	14.4442|14.4442	0.67338|0.67338	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	402;402|.	E9PQJ4;Q13586|.	.;STIM1_HUMAN|.	R|G	402;402;229|133	ENSP00000300737:L402R;ENSP00000436208:L402R;ENSP00000434767:L229R|.	ENSP00000300737:L402R|.	L|W	+|+	2|1	0|0	STIM1|STIM1	4060755|4060755	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.986000|0.986000	0.74619|0.74619	7.687000|7.687000	0.84139|0.84139	2.007000|2.007000	0.58848|0.58848	0.374000|0.374000	0.22700|0.22700	CTG|TGG		0.448	STIM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257196.1	NM_003156		G	4104179	T	G	4104179	3	3	573	1	0	0	0	0	1	0	0	0	15295	1580	55	5	1239	5	STIM1	11	4104179	Missense_Mutation	SNP	T	TCGA-DW-7963-01B-11D-A28G-10	2850199	4104179	130902337	35	33924										
GPR44	11251	hgsc.bcm.edu	37	chr11	60620166	60620167	+	In_Frame_Ins	INS	-	-	GCG													0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	gagcgggcggtggaggaggtINSgcggcggcggcggctgcttc					rs55642873	byFrequency	TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr11:60620166_60620167insGCG	ENST00000332539.4	-	2	1140_1141	c.1029_1030insCGC	c.(1027-1032)cgcacc>cgcCGCacc	p.343_344insR	RP11-804A23.4_ENST00000538705.1_RNA	NM_004778.2	NP_004769.2	Q9Y5Y4	PD2R2_HUMAN	prostaglandin D2 receptor 2	343					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|calcium-mediated signaling (GO:0019722)|chemotaxis (GO:0006935)|G-protein coupled receptor signaling pathway (GO:0007186)|immune response (GO:0006955)|positive regulation of G-protein coupled receptor protein signaling pathway (GO:0045745)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|prostaglandin D receptor activity (GO:0004956)|prostaglandin F receptor activity (GO:0004958)|prostaglandin J receptor activity (GO:0001785)									Indomethacin(DB00328)|Sulindac(DB00605)	GTGGAGGAGGTGCGGCGGCGGC	0.748														93	0.0185703	0.0514	0.0086	5008	,	,		8844	0.0		0.0119	False		,,,				2504	0.0072															0																																										SO:0001652	inframe_insertion	11251			AF118265	CCDS7994.1	11q12-q13.3	2012-08-08	2011-11-11	2011-11-11		ENSG00000183134		"CD molecules", "GPCR / Class A : Prostanoid receptors"	4502	protein-coding gene	gene with protein product	"chemoattractant receptor homologous molecule expressed on T helper type 2 cells"	604837	"G protein-coupled receptor 44"	GPR44		10036181	Standard	NM_004778		Approved	CRTH2, CD294, DP2	uc001nqc.2	Q9Y5Y4		ENST00000332539.4:c.1027_1029dupCGC	11.37:g.60620173_60620175dupGCG	ENSP00000332812:p.Arg343_Arg343dup	Somatic		WXS	Illumina HiSeq	Phase_I	O94765|Q4QRI6	In_Frame_Ins	INS	ENST00000332539.4	37	CCDS7994.1																																																																																				0.748	PTGDR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396328.1	NM_004778		GCG	60620167	-	GCG	60620166	7	5	573	1	0	1	1	0	0	0	0	0	6702	1696	59	0	161	0	GPR44	11	60620166	In_Frame_Ins	INS	-	TCGA-DW-7963-01B-11D-A28G-10	56515987	60620166	74386350	36	33925										
PRPH	5630	hgsc.bcm.edu	37	chr12	49689404	49689404	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	gccaggagccggcgcgcgccGaccagctgtgccagcaggag	17	15	0	0	rs58599399	byFrequency	TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr12:49689404G>T	ENST00000257860.4	+	1	1920	c.421G>T	c.(421-423)Gac>Tac	p.D141Y	RP11-161H23.9_ENST00000553259.1_RNA	NM_006262.3	NP_006253.2	P23942	PRPH2_HUMAN	peripherin	0					cell adhesion (GO:0007155)|retina development in camera-type eye (GO:0060041)|visual perception (GO:0007601)	integral component of membrane (GO:0016021)				kidney(1)|large_intestine(2)|lung(8)|skin(1)	12						GGCGCGCGCCGACCAGCTGTG	0.716													G|||	12	0.00239617	0.0	0.0029	5008	,	,		14065	0.0		0.0099	False		,,,				2504	0.0															0			GRCh37	CM044928	PRPH	M	rs58599399	G	TYR/ASP	2,3866		0,2,1932	3	4	3	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	421	4.7	1	12	dbSNP_129	3	42,7412		0,42,3685	yes	missense	PRPH	NM_006262.3	160	0,44,5617	TT,TG,GG		0.5635,0.0517,0.3886	possibly-damaging	141/471	49689404	44,11278	1934	3727	5661	SO:0001583	missense	5630				CCDS8783.1	12q12-q13	2013-01-16						"Intermediate filaments type III"	9461	protein-coding gene	gene with protein product		170710		NEF4		1378416	Standard	XM_005269025		Approved	PRPH1	uc001rtu.3	P41219		ENST00000257860.4:c.421G>T	12.37:g.49689404G>T	ENSP00000257860:p.Asp141Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TFH5|Q6DK65	Missense_Mutation	SNP	ENST00000257860.4	37	CCDS8783.1	3	0.0013736263736263737	0	0.0	0	0.0	0	0.0	3	0.00395778364116095	G	21.9	4.223071	0.79464	5.17E-4	0.005635	ENSG00000135406	ENST00000257860	D	0.88509	-2.39	4.68	4.68	0.58851	Filament (1);	0.000000	0.42053	D	0.000774	D	0.83344	0.5234	N	0.20881	0.62	0.41388	D	0.987592	P	0.43392	0.805	P	0.54210	0.745	D	0.85943	0.1459	10	0.66056	D	0.02	.	10.2156	0.43166	0.0:0.0:0.802:0.198	rs58599399	141	P41219	PERI_HUMAN	Y	141	ENSP00000257860:D141Y	ENSP00000257860:D141Y	D	+	1	0	PRPH	47975671	1.000000	0.71417	1.000000	0.80357	0.606000	0.37113	7.738000	0.84966	2.443000	0.82685	0.462000	0.41574	GAC		0.716	PRPH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393381.1	NM_006262		T	49689404	G	T	49689404	3	4	573	1	0	0	0	0	1	0	0	0	12586	1058	37	4	423	4	PRPH	12	49689404	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10		49689404	84162491	37	33926										
GNS	2799	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	65152878	65152878	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	gagttaccatgccgccgagcActtcgtcctggtcgtccgtg	12	14	0	0			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr12:65152878A>T	ENST00000258145.3	-	1	349	c.179T>A	c.(178-180)gTg>gAg	p.V60E	RP11-629N8.3_ENST00000434563.3_RNA|GNS_ENST00000543646.1_Missense_Mutation_p.V60E|GNS_ENST00000542058.1_Missense_Mutation_p.V60E|snoU13_ENST00000458789.1_RNA	NM_002076.3	NP_002067.1	P15586	GNS_HUMAN	glucosamine (N-acetyl)-6-sulfatase	60					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate catabolic process (GO:0042340)|keratan sulfate metabolic process (GO:0042339)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)	metal ion binding (GO:0046872)|N-acetylglucosamine-6-sulfatase activity (GO:0008449)|sulfuric ester hydrolase activity (GO:0008484)			central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(5)|liver(1)|lung(4)	15	Lung NSC(1;7.25e-14)|all_lung(1;1.25e-12)		LUAD - Lung adenocarcinoma(6;0.115)	GBM - Glioblastoma multiforme(28;0.0435)		GCCGCCGAGCACTTCGTCCTG	0.652																																																0													32	32	32					12																	65152878		2195	4284	6479	SO:0001583	missense	2799				CCDS8970.1	12q14	2010-05-04	2008-08-01		ENSG00000135677	ENSG00000135677	3.1.6.14		4422	protein-coding gene	gene with protein product	"Sanfilippo disease IIID", "N-acetylglucosamine-6-sulfatase"	607664					Standard	NM_002076		Approved		uc001ssg.4	P15586	OTTHUMG00000168819	ENST00000258145.3:c.179T>A	12.37:g.65152878A>T	ENSP00000258145:p.Val60Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYH8|Q53F05	Missense_Mutation	SNP	ENST00000258145.3	37	CCDS8970.1	.	.	.	.	.	.	.	.	.	.	A	5.620	0.299140	0.10622	.	.	ENSG00000135677	ENST00000258145;ENST00000543646;ENST00000542058	D;D;D	0.98419	-4.92;-3.89;-3.89	4.48	3.3	0.37823	Alkaline phosphatase-like, alpha/beta/alpha (1);Sulfatase (1);Alkaline-phosphatase-like, core domain (1);	0.545721	0.18931	N	0.127212	D	0.92773	0.7702	N	0.10945	0.07	0.28091	N	0.931782	B;B;B	0.09022	0.001;0.002;0.0	B;B;B	0.14023	0.01;0.004;0.002	D	0.85646	0.1279	9	.	.	.	-13.4349	8.0519	0.30583	0.8117:0.0:0.0:0.1883	.	60;60;60	B4DYH8;F6S8M0;P15586	.;.;GNS_HUMAN	E	60	ENSP00000258145:V60E;ENSP00000438497:V60E;ENSP00000444819:V60E	.	V	-	2	0	GNS	63439145	0.993000	0.37304	1.000000	0.80357	0.933000	0.57130	0.814000	0.27239	0.823000	0.34589	0.397000	0.26171	GTG		0.652	GNS-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000401195.2			T	65152878	A	T	65152878	3	4	573	1	0	0	0	0	1	0	0	0	6557	159	6	5	1535	5	GNS	12	65152878	Missense_Mutation	SNP	A	TCGA-DW-7963-01B-11D-A28G-10	15463474	65152878	68699017	38	33927										
TMTC2	160335	broad.mit.edu	37	chr12	83251082	83251082	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	tggcttgatgtttgcttctcAccccattcacacggaggcag	10	12	2	1			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr12:83251082A>C	ENST00000321196.3	+	2	1084	c.377A>C	c.(376-378)cAc>cCc	p.H126P	TMTC2_ENST00000548305.1_Missense_Mutation_p.H126P|TMTC2_ENST00000549919.1_Missense_Mutation_p.H120P	NM_152588.1	NP_689801.1	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat containing 2	126					calcium ion homeostasis (GO:0055074)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)				breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(4)|kidney(6)|large_intestine(7)|lung(13)|ovary(2)|skin(1)|urinary_tract(1)	39						TTTGCTTCTCACCCCATTCAC	0.522																																																0													124	111	116					12																	83251082		2203	4300	6503	SO:0001583	missense	160335			AK074634	CCDS9025.1	12q21.31	2014-06-09			ENSG00000179104	ENSG00000179104		"Tetratricopeptide (TTC) repeat domain containing"	25440	protein-coding gene	gene with protein product		615856				24764305	Standard	NM_152588		Approved	DKFZp762A217	uc001szt.3	Q8N394	OTTHUMG00000169736	ENST00000321196.3:c.377A>C	12.37:g.83251082A>C	ENSP00000322300:p.His126Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCU7|Q8N2K8	Missense_Mutation	SNP	ENST00000321196.3	37	CCDS9025.1	.	.	.	.	.	.	.	.	.	.	A	18.60	3.658613	0.67586	.	.	ENSG00000179104	ENST00000321196;ENST00000548305;ENST00000549919	T;T;T	0.78246	-0.79;-1.16;-1.06	5.6	5.6	0.85130	.	0.000000	0.85682	D	0.000000	D	0.91945	0.7449	H	0.96662	3.86	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.999	D	0.94358	0.7585	10	0.87932	D	0	-21.9399	14.6569	0.68838	1.0:0.0:0.0:0.0	.	126;126	Q8N394;F8VSH2	TMTC2_HUMAN;.	P	126;126;120	ENSP00000322300:H126P;ENSP00000448292:H126P;ENSP00000447609:H120P	ENSP00000322300:H126P	H	+	2	0	TMTC2	81775213	1.000000	0.71417	0.957000	0.39632	0.649000	0.38597	8.904000	0.92590	2.251000	0.74343	0.528000	0.53228	CAC		0.522	TMTC2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405663.1	NM_152588		C	83251082	A	C	83251082	3	2	573	1	0	0	0	0	1	0	0	0	16273	159	6	5	383	5	TMTC2	12	83251082	Missense_Mutation	SNP	A	TCGA-DW-7963-01B-11D-A28G-10	18098204	83251082	50600813	39	33928										
CEP290	80184	broad.mit.edu;bcgsc.ca	37	chr12	88471486	88471486	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	aaaattacctgtaatccactGgttagtcttttaatttgcct	5	8	1	0			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr12:88471486G>T	ENST00000552810.1	-	40	5917	c.5574C>A	c.(5572-5574)acC>acA	p.T1858T	CEP290_ENST00000547691.2_Silent_p.T918T|CEP290_ENST00000309041.7_Silent_p.T1860T|CEP290_ENST00000397838.3_Silent_p.T918T	NM_025114.3	NP_079390.3	O15078	CE290_HUMAN	centrosomal protein 290kDa	1858					cilium assembly (GO:0042384)|cilium morphogenesis (GO:0060271)|establishment or maintenance of cell polarity (GO:0007163)|eye photoreceptor cell development (GO:0042462)|G2/M transition of mitotic cell cycle (GO:0000086)|hindbrain development (GO:0030902)|mitotic cell cycle (GO:0000278)|otic vesicle formation (GO:0030916)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of transcription, DNA-templated (GO:0045893)|pronephros development (GO:0048793)|protein transport (GO:0015031)|regulation of cAMP metabolic process (GO:0030814)|regulation of establishment of protein localization (GO:0070201)|retina development in camera-type eye (GO:0060041)	centriolar satellite (GO:0034451)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)|photoreceptor connecting cilium (GO:0032391)|protein complex (GO:0043234)|TCTN-B9D complex (GO:0036038)				breast(4)|central_nervous_system(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(20)|liver(1)|lung(18)|ovary(5)|pancreas(1)|prostate(2)|stomach(1)|upper_aerodigestive_tract(1)	73						GTAATCCACTGGTTAGTCTTT	0.269																																																0													51	50	51					12																	88471486		1799	4036	5835	SO:0001819	synonymous_variant	80184			AB002371	CCDS55858.1	12q21.33	2014-09-17				ENSG00000198707			29021	protein-coding gene	gene with protein product	"Joubert syndrome 5", "nephrocystin-6", "cancer/testis antigen 87", "POC3 centriolar protein homolog (Chlamydomonas)", "Meckel syndrome, type 4"	610142				15474516, 16682973, 16632484	Standard	NM_025114		Approved	KIAA0373, FLJ13615, 3H11Ag, rd16, NPHP6, JBTS5, SLSN6, LCA10, MKS4, BBS14, CT87, POC3	uc001tar.3	O15078		ENST00000552810.1:c.5574C>A	12.37:g.88471486G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q1PSK5|Q66GS8|Q9H2G6|Q9H6Q7|Q9H8I0	Silent	SNP	ENST00000552810.1	37	CCDS55858.1																																																																																				0.269	CEP290-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000406344.1	NM_025114		T	88471486	G	T	88471486	2	4	573	1	0	0	0	0	0	0	0	1	3255	1335	47	4		4	CEP290	12	88471486	Silent	SNP	G	TCGA-DW-7963-01B-11D-A28G-10	5220404	88471486	45380409	40	33929										
RXFP2	122042	bcgsc.ca	37	chr13	32352703	32352703	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	aagcagatgtgtgcccaaatGcctcaactcaactgggtgtg	11	10	2	1			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr13:32352703G>T	ENST00000298386.2	+	9	839	c.768G>T	c.(766-768)atG>atT	p.M256I	RXFP2_ENST00000380314.1_Missense_Mutation_p.M256I	NM_130806.3	NP_570718.1	Q8WXD0	RXFP2_HUMAN	relaxin/insulin-like family peptide receptor 2	256					adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|male gonad development (GO:0008584)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|oocyte maturation (GO:0001556)|positive regulation of cAMP biosynthetic process (GO:0030819)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	peptide hormone binding (GO:0017046)|protein-hormone receptor activity (GO:0016500)			cervix(1)|endometrium(2)|large_intestine(15)|lung(13)|prostate(1)|stomach(1)	33		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)		GTGCCCAAATGCCTCAACTCA	0.328																																																0													128	136	133					13																	32352703		2203	4298	6501	SO:0001583	missense	122042			AF403384	CCDS9342.1, CCDS53862.1	13q12.3	2012-08-08	2006-05-09	2006-05-09	ENSG00000133105	ENSG00000133105		"GPCR / Class A : Relaxin family peptide receptors"	17318	protein-coding gene	gene with protein product		606655	"leucine-rich repeat-containing G protein-coupled receptor 8"	LGR8		12217959, 12970298, 15956688, 16507880	Standard	NM_130806		Approved	GREAT, GPR106, INSL3R, RXFPR2	uc001utt.3	Q8WXD0	OTTHUMG00000016690	ENST00000298386.2:c.768G>T	13.37:g.32352703G>T	ENSP00000298386:p.Met256Ile	Somatic		WXS	Illumina HiSeq	Phase_1	B1ALE9|Q3KU23	Missense_Mutation	SNP	ENST00000298386.2	37	CCDS9342.1	.	.	.	.	.	.	.	.	.	.	G	14.51	2.556594	0.45487	.	.	ENSG00000133105	ENST00000380314;ENST00000298386	T;T	0.04502	4.29;3.61	5.49	5.49	0.81192	.	0.079417	0.85682	D	0.000000	T	0.07279	0.0184	L	0.53780	1.695	0.47698	D	0.999496	B;B	0.29590	0.25;0.25	B;B	0.29942	0.109;0.109	T	0.30851	-0.9964	10	0.27082	T	0.32	.	14.881	0.70534	0.0:0.0:1.0:0.0	.	256;256	Q3KU23;Q8WXD0	.;RXFP2_HUMAN	I	256	ENSP00000369670:M256I;ENSP00000298386:M256I	ENSP00000298386:M256I	M	+	3	0	RXFP2	31250703	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.963000	0.63694	2.578000	0.87016	0.655000	0.94253	ATG		0.328	RXFP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000044399.1	NM_130806		T	32352703	G	T	32352703	3	4	573	1	0	0	0	0	1	0	0	0	13773	1319	46	4	802	4	RXFP2	13	32352703	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10		32352703	82817175	41	33930										
ZIC5	85416	hgsc.bcm.edu	37	chr13	100623585	100623585	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	gcggcggctgccggagcctcCgggtgtgccgggaacgcctg	19	14	0	0	rs370840169	byFrequency	TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr13:100623585C>T	ENST00000267294.4	-	1	578	c.345G>A	c.(343-345)ccG>ccA	p.P115P		NM_033132.3	NP_149123.2	Q96T25	ZIC5_HUMAN	Zic family member 5	115	Pro-rich.				cell differentiation (GO:0030154)|forebrain development (GO:0030900)|neural tube closure (GO:0001843)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(3)|kidney(1)|lung(2)|prostate(1)|skin(2)	9	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CCGGAGCCTCCGGGTGTGCCG	0.781													c|||	6	0.00119808	0.0045	0.0	5008	,	,		6715	0.0		0.0	False		,,,				2504	0.0															0										21,3461		0,21,1720	3	3	3		345	0	0.2	13		3	0,6836		0,0,3418	no	coding-synonymous	ZIC5	NM_033132.3		0,21,5138	TT,TC,CC		0.0,0.6031,0.2035		115/664	100623585	21,10297	1741	3418	5159	SO:0001819	synonymous_variant	85416			AF378304	CCDS9494.2	13q32.2	2013-01-08	2011-05-19		ENSG00000139800	ENSG00000139800		"Zinc fingers, C2H2-type"	20322	protein-coding gene	gene with protein product			"Zic family member 5 (odd-paired homolog, Drosophila)"				Standard	NM_033132		Approved		uc001vom.1	Q96T25	OTTHUMG00000017280	ENST00000267294.4:c.345G>A	13.37:g.100623585C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VYB0	Silent	SNP	ENST00000267294.4	37	CCDS9494.2																																																																																				0.781	ZIC5-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000045623.3	NM_033132		T	100623585	C	T	100623585	2	4	573	1	0	0	0	0	0	0	0	1	17694	639	23	1		1	ZIC5	13	100623585	Silent	SNP	C	TCGA-DW-7963-01B-11D-A28G-10	68270882	100623585	14546293	42	33931										
HECTD1	25831	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	31576342	31576342	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	caagaaaattccaaggaaatGaaacagtttcgtgatccttt	7	7	0	3			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr14:31576342G>A	ENST00000399332.1	-	38	7224	c.6736C>T	c.(6736-6738)Cat>Tat	p.H2246Y	HECTD1_ENST00000553700.1_Missense_Mutation_p.H2246Y	NM_015382.2	NP_056197.2	Q9ULT8	HECD1_HUMAN	HECT domain containing E3 ubiquitin protein ligase 1	2246	HECT. {ECO:0000255|PROSITE- ProRule:PRU00104}.				neural tube closure (GO:0001843)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ligase activity (GO:0016874)|metal ion binding (GO:0046872)|ubiquitin-protein transferase activity (GO:0004842)			breast(10)|endometrium(7)|kidney(5)|large_intestine(12)|lung(23)|ovary(4)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	70	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)		CCAAGGAAATGAAACAGTTTC	0.383																																																0													113	108	110					14																	31576342		1901	4112	6013	SO:0001583	missense	25831			AB032957	CCDS41939.1	14q12	2013-01-10	2012-02-23		ENSG00000092148	ENSG00000092148		"Ankyrin repeat domain containing"	20157	protein-coding gene	gene with protein product			"HECT domain containing 1"			10574461	Standard	XM_005267502		Approved	KIAA1131	uc001wrc.1	Q9ULT8	OTTHUMG00000170670	ENST00000399332.1:c.6736C>T	14.37:g.31576342G>A	ENSP00000382269:p.His2246Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DS86|Q6P445|Q86VJ1|Q96F34|Q9UFZ7	Missense_Mutation	SNP	ENST00000399332.1	37	CCDS41939.1	.	.	.	.	.	.	.	.	.	.	G	3.742	-0.053467	0.07362	.	.	ENSG00000092148	ENST00000553700;ENST00000261312;ENST00000399332	T;T	0.56941	0.43;0.43	6.06	6.06	0.98353	HECT (4);	0.256570	0.26903	U	0.021909	T	0.31949	0.0813	N	0.11201	0.11	0.46298	D	0.99897	P	0.35208	0.49	B	0.32762	0.152	T	0.28138	-1.0053	10	0.02654	T	1	-11.499	18.8088	0.92050	0.0:0.0:1.0:0.0	.	2246	Q9ULT8	HECD1_HUMAN	Y	2246;2248;2246	ENSP00000450697:H2246Y;ENSP00000382269:H2246Y	ENSP00000261312:H2248Y	H	-	1	0	HECTD1	30646093	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	6.391000	0.73208	2.871000	0.98454	0.655000	0.94253	CAT		0.383	HECTD1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409942.1			A	31576342	G	A	31576342	3	1	573	1	0	0	0	0	1	0	0	0	7046	1290	45	2	1120	2	HECTD1	14	31576342	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10		31576342	75773198	43	33932										
KIF7	374654	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	90174782	90174782	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	gtcgatctccaggcgctgctTgagcagcgagtccttctcct	11	14	2	1			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr15:90174782T>G	ENST00000394412.3	-	15	3131	c.3055A>C	c.(3055-3057)Aag>Cag	p.K1019Q	KIF7_ENST00000558928.1_5'Flank	NM_198525.2	NP_940927.2	Q2M1P5	KIF7_HUMAN	kinesin family member 7	1019					ATP catabolic process (GO:0006200)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|negative regulation of smoothened signaling pathway (GO:0045879)|positive regulation of smoothened signaling pathway (GO:0045880)|smoothened signaling pathway (GO:0007224)|ventricular system development (GO:0021591)	cilium (GO:0005929)|kinesin complex (GO:0005871)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			central_nervous_system(2)|cervix(1)|endometrium(2)|large_intestine(5)|lung(11)|ovary(2)|stomach(1)|urinary_tract(1)	25	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			AGGCGCTGCTTGAGCAGCGAG	0.677																																																0													29	27	27					15																	90174782		2199	4292	6491	SO:0001583	missense	374654			AY358384	CCDS32325.2	15q26.1	2011-06-02			ENSG00000166813	ENSG00000166813		"Kinesins"	30497	protein-coding gene	gene with protein product		611254				11416179, 15547730	Standard	NM_198525		Approved	JBTS12	uc002bof.2	Q2M1P5	OTTHUMG00000157177	ENST00000394412.3:c.3055A>C	15.37:g.90174782T>G	ENSP00000377934:p.Lys1019Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q3SXY0|Q6UXE9|Q8IW72	Missense_Mutation	SNP	ENST00000394412.3	37	CCDS32325.2	.	.	.	.	.	.	.	.	.	.	T	28.0	4.877591	0.91664	.	.	ENSG00000166813	ENST00000394412	T	0.48836	0.8	4.84	4.84	0.62591	.	0.000000	0.85682	D	0.000000	T	0.66577	0.2803	M	0.70275	2.135	0.54753	D	0.999983	D;D	0.89917	1.0;0.999	D;D	0.87578	0.998;0.994	T	0.67321	-0.5700	10	0.40728	T	0.16	.	14.4086	0.67101	0.0:0.0:0.0:1.0	.	505;1019	B7ZKY4;Q2M1P5	.;KIF7_HUMAN	Q	1019	ENSP00000377934:K1019Q	ENSP00000377934:K1019Q	K	-	1	0	KIF7	87975786	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	7.570000	0.82390	1.802000	0.52723	0.379000	0.24179	AAG		0.677	KIF7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347782.1	NM_198525		G	90174782	T	G	90174782	3	3	573	1	0	0	0	0	1	0	0	0	8316	1821	63	5	996	5	KIF7	15	90174782	Missense_Mutation	SNP	T	TCGA-DW-7963-01B-11D-A28G-10		90174782	12356610	44	33933										
FAM100A	124402	broad.mit.edu	37	chr16	4659850	4659850	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	tgggggaagtgtggcgggggTgacgtggctgtcgcggccat	22	7	0	1			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr16:4659850T>G	ENST00000283474.7	-	3	446	c.318A>C	c.(316-318)tcA>tcC	p.S106S	UBALD1_ENST00000587649.1_3'UTR|UBALD1_ENST00000591897.1_Silent_p.S46S|UBALD1_ENST00000590965.1_3'UTR|UBALD1_ENST00000590891.1_Silent_p.S141S|UBALD1_ENST00000587615.1_Silent_p.S81S|UBALD1_ENST00000591401.1_Silent_p.S85S	NM_145253.2	NP_660296.1	Q8TB05	UBAD1_HUMAN	UBA-like domain containing 1	106																	GTGGCGGGGGTGACGTGGCTG	0.716																																																0													6	7	7					16																	4659850		2008	3990	5998	SO:0001819	synonymous_variant	124402			BC025327	CCDS10518.1	16p13.3	2012-11-30	2012-11-30	2012-11-30	ENSG00000153443	ENSG00000153443			29576	protein-coding gene	gene with protein product			"family with sequence similarity 100, member A"	FAM100A			Standard	NM_145253		Approved		uc002cwx.2	Q8TB05	OTTHUMG00000129472	ENST00000283474.7:c.318A>C	16.37:g.4659850T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q71MF6	Silent	SNP	ENST00000283474.7	37	CCDS10518.1																																																																																				0.716	UBALD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251635.2	NM_145253		G	4659850	T	G	4659850	2	3	573	1	0	0	0	0	0	0	0	1	5382	1683	59	5		5	FAM100A	16	4659850	Silent	SNP	T	TCGA-DW-7963-01B-11D-A28G-10		4659850	85694903	45	33934										
USP31	57478	hgsc.bcm.edu	37	chr16	23160421	23160422	+	In_Frame_Ins	INS	-	-	GAGGAGGGC													0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	agctgcccaccgagcgtgcaINSgaggagggcgaggagggcga					rs555380492	byFrequency	TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr16:23160421_23160422insGAGGAGGGC	ENST00000219689.7	-	1	169_170	c.170_171insGCCCTCCTC	c.(169-171)tct>tcGCCCTCCTCt	p.57_57S>SPSS		NM_020718.3	NP_065769.3	Q86UV5	UBP48_HUMAN	ubiquitin specific peptidase 31	0					ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	ubiquitin-specific protease activity (GO:0004843)			breast(4)|central_nervous_system(2)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(13)|lung(17)|ovary(4)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|urinary_tract(2)	57				GBM - Glioblastoma multiforme(48;0.0187)		CCGAGCGTGCAGAGGAGGGCGA	0.762														35	0.00698882	0.025	0.0014	5008	,	,		3570	0.001		0.0	False		,,,				2504	0.0															0																																										SO:0001652	inframe_insertion	57478			AB033029	CCDS10607.1	16p12.3	2008-02-05	2005-08-08		ENSG00000103404	ENSG00000103404		"Ubiquitin-specific peptidases"	20060	protein-coding gene	gene with protein product			"ubiquitin specific protease 31"			12838346	Standard	NM_020718		Approved	KIAA1203	uc002dll.3	Q70CQ4	OTTHUMG00000094793	ENST00000219689.7:c.162_170dupGCCCTCCTC	16.37:g.23160422_23160430dupGAGGAGGGC	ENSP00000219689:p.ProSerSer57dup	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKS7|Q2M3I4|Q5SZI4|Q5T3T5|Q6NX53|Q8N3F6|Q96F64|Q96IQ3|Q9H5N3|Q9H5T7|Q9NUJ6|Q9NXR0	In_Frame_Ins	INS	ENST00000219689.7	37	CCDS10607.1																																																																																				0.762	USP31-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000211607.1	NM_020718		GAGGAGGGC	23160422	-	GAGGAGGGC	23160421	7	5	573	1	0	1	1	0	0	0	0	0	17074	175	7	0	3951	0	USP31	16	23160421	In_Frame_Ins	INS	-	TCGA-DW-7963-01B-11D-A28G-10	18500571	23160421	67194332	46	33935										
TRIM72	260434	hgsc.bcm.edu	37	chr16	31226442	31226442	+	IGR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	tgccgccgaggcccacgcacGcctcaaggtgcgggatccgc	14	17	1	0			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr16:31226442G>A	ENST00000302964.3	-	0	813				TRIM72_ENST00000322122.3_Missense_Mutation_p.R128H|PYDC1_ENST00000568383.1_5'Flank	NM_152901.2	NP_690865.1	Q8WXC3	PYDC1_HUMAN	PYD (pyrin domain) containing 1						innate immune response (GO:0045087)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of protein kinase activity (GO:0006469)|positive regulation of interleukin-1 beta secretion (GO:0050718)|tumor necrosis factor-mediated signaling pathway (GO:0033209)	cytosol (GO:0005829)|IkappaB kinase complex (GO:0008385)|nucleus (GO:0005634)				endometrium(1)|kidney(1)|large_intestine(2)|lung(1)	5						GCCCACGCACGCCTCAAGGTG	0.687																																																0													9	9	9					16																	31226442		1778	3412	5190	SO:0001628	intergenic_variant	493829				CCDS10710.1	16p11.2	2008-02-05	2005-12-02		ENSG00000169900	ENSG00000169900			30261	protein-coding gene	gene with protein product		615700	"pyrin domain containing 1"			11786556, 16905547	Standard	NM_152901		Approved	ASC2, POP1	uc002ebo.3	Q8WXC3	OTTHUMG00000132407		16.37:g.31226442G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R8L4|Q8NFP8	Missense_Mutation	SNP	ENST00000302964.3	37	CCDS10710.1	.	.	.	.	.	.	.	.	.	.	G	19.37	3.815564	0.70912	.	.	ENSG00000177238	ENST00000322122	T	0.57436	0.4	4.93	4.93	0.64822	.	0.080103	0.48767	D	0.000171	T	0.62441	0.2428	L	0.58101	1.795	0.34316	D	0.686018	D	0.89917	1.0	D	0.67725	0.953	T	0.65340	-0.6192	10	0.16420	T	0.52	.	10.896	0.47023	0.0887:0.0:0.9113:0.0	.	128	Q6ZMU5	TRI72_HUMAN	H	128	ENSP00000312675:R128H	ENSP00000312675:R128H	R	+	2	0	TRIM72	31133943	0.998000	0.40836	0.997000	0.53966	0.042000	0.13812	3.403000	0.52615	2.454000	0.82982	0.655000	0.94253	CGC		0.687	PYDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255543.2	NM_152901		A	31226442	G	A	31226442	1	1	573	0	1	0	0	0	0	0	0	0	16557	1087	38	1		1	TRIM72	16	31226442	IGR	SNP	G	TCGA-DW-7963-01B-11D-A28G-10	8066021	31226442	59128311	47	33936										
ZDHHC7	55625	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	85010785	85010785	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	agaagaccctcaaggcacagGaagatcaacaggattacagt	10	9	2	3			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr16:85010785G>A	ENST00000313732.4	-	7	1018	c.666C>T	c.(664-666)ttC>ttT	p.F222F	ZDHHC7_ENST00000569488.1_5'UTR|ZDHHC7_ENST00000564466.1_Silent_p.F259F	NM_017740.2	NP_060210.2	Q9NXF8	ZDHC7_HUMAN	zinc finger, DHHC-type containing 7	222					peptidyl-L-cysteine S-palmitoylation (GO:0018230)|protein palmitoylation (GO:0018345)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	palmitoyltransferase activity (GO:0016409)|protein-cysteine S-palmitoyltransferase activity (GO:0019706)|zinc ion binding (GO:0008270)			large_intestine(6)|lung(4)	10						CAAGGCACAGGAAGATCAACA	0.463																																																0													155	139	144					16																	85010785		2199	4300	6499	SO:0001819	synonymous_variant	55625			AK000286	CCDS10950.1, CCDS45538.1	16q23.1	2010-02-09			ENSG00000153786	ENSG00000153786		"Zinc fingers, DHHC-type"	18459	protein-coding gene	gene with protein product	"Sertoli cell gene with zinc finger domain-&#946;"	614604					Standard	NM_017740		Approved	FLJ10792, ZNF370, FLJ20279, SERZ-B, SERZ1	uc002fiq.2	Q9NXF8	OTTHUMG00000137645	ENST00000313732.4:c.666C>T	16.37:g.85010785G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DUM1|Q8WV42|Q9NVD8	Silent	SNP	ENST00000313732.4	37	CCDS10950.1																																																																																				0.463	ZDHHC7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269087.1	NM_017740		A	85010785	G	A	85010785	2	1	573	1	0	0	0	0	0	0	0	1	17632	1165	41	2		2	ZDHHC7	16	85010785	Silent	SNP	G	TCGA-DW-7963-01B-11D-A28G-10	53784343	85010785	5343968	48	33937										
FSCN2	25794	hgsc.bcm.edu	37	chr17	79504052	79504052	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	ctgcgcggcggcgcctcgggCctgctgcgggccgatgccga	18	16	0	0	rs398123553	byFrequency	TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr17:79504052C>A	ENST00000417245.2	+	5	1561	c.1425C>A	c.(1423-1425)ggC>ggA	p.G475G	FSCN2_ENST00000334850.7_Silent_p.G499G	NM_001077182.2|NM_012418.3	NP_001070650.1|NP_036550.1	O14926	FSCN2_HUMAN	fascin actin-bundling protein 2, retinal	475					actin cytoskeleton organization (GO:0030036)|actin filament bundle assembly (GO:0051017)|anatomical structure morphogenesis (GO:0009653)|eye photoreceptor cell development (GO:0042462)|visual perception (GO:0007601)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|stereocilium (GO:0032420)	actin binding (GO:0003779)|actin filament binding (GO:0051015)			endometrium(1)|lung(1)|prostate(1)|urinary_tract(1)	4	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			GCGCCTCGGGCCTGCTGCGGG	0.726													C|||	26	0.00519169	0.0189	0.0014	5008	,	,		8785	0.0		0.0	False		,,,				2504	0.0															0													2	2	2					17																	79504052		1250	2873	4123	SO:0001819	synonymous_variant	25794			AF030165	CCDS45810.1, CCDS45811.1	17q25	2014-02-03	2014-02-03		ENSG00000186765	ENSG00000186765		"Fascins"	3960	protein-coding gene	gene with protein product		607643	"fascin (Strongylocentrotus purpuratus) homolog 2 (actin-bundling protein, retinal)", "fascin homolog 2, actin-bundling protein, retinal (Strongylocentrotus purpuratus)"			10234509	Standard	NM_012418		Approved	RP30, RFSN	uc010wuo.2	O14926	OTTHUMG00000167477	ENST00000417245.2:c.1425C>A	17.37:g.79504052C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0AVC4|A8MRA6	Silent	SNP	ENST00000417245.2	37	CCDS45811.1																																																																																				0.726	FSCN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394746.1	NM_012418		A	79504052	C	A	79504052	2	1	573	1	0	0	0	0	0	0	0	1	6075	726	26	4		4	FSCN2	17	79504052	Silent	SNP	C	TCGA-DW-7963-01B-11D-A28G-10		79504052	1691158	49	33938										
ZNF567	163081	broad.mit.edu	37	chr19	37210687	37210687	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	attgaagtcacacctcattcGtcatcagagaactcacacgg	7	12	5	2	rs562512567		TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr19:37210687G>A	ENST00000536254.2	+	6	1283	c.1061G>A	c.(1060-1062)cGt>cAt	p.R354H	ZNF850_ENST00000589390.1_Intron|ZNF567_ENST00000588311.1_Missense_Mutation_p.R323H|ZNF567_ENST00000360729.4_Missense_Mutation_p.R323H|ZNF567_ENST00000585696.1_Missense_Mutation_p.R323H|ZNF567_ENST00000392163.2_Missense_Mutation_p.R323H			Q8N184	ZN567_HUMAN	zinc finger protein 567	354					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(6)|lung(8)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	24	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			CACCTCATTCGTCATCAGAGA	0.458																																																0													75	68	71					19																	37210687		2203	4300	6503	SO:0001583	missense	163081			AK093034	CCDS12495.1, CCDS74349.1	19q13.12	2013-10-08				ENSG00000189042		"Zinc fingers, C2H2-type", "-"	28696	protein-coding gene	gene with protein product						12477932	Standard	XM_006723064		Approved	MGC45586	uc002oep.4	Q8N184		ENST00000536254.2:c.1061G>A	19.37:g.37210687G>A	ENSP00000441838:p.Arg354His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KX49|Q6N044	Missense_Mutation	SNP	ENST00000536254.2	37		.	.	.	.	.	.	.	.	.	.	G	14.55	2.568648	0.45798	.	.	ENSG00000189042	ENST00000536254;ENST00000360729;ENST00000423498;ENST00000392163	T;T;T	0.07567	3.18;3.18;3.18	4.53	3.48	0.39840	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.190951	0.26654	N	0.023191	T	0.24890	0.0604	M	0.70842	2.15	0.80722	D	1	D;D	0.89917	1.0;0.998	D;D	0.73380	0.97;0.98	T	0.00998	-1.1486	10	0.45353	T	0.12	.	12.1099	0.53834	0.0:0.0:0.8276:0.1724	.	354;323	Q8N184;F8WEL6	ZN567_HUMAN;.	H	354;323;353;323	ENSP00000441838:R354H;ENSP00000353957:R323H;ENSP00000376003:R323H	ENSP00000353957:R323H	R	+	2	0	ZNF567	41902527	0.000000	0.05858	0.994000	0.49952	0.912000	0.54170	-0.782000	0.04643	1.231000	0.43661	0.462000	0.41574	CGT		0.458	ZNF567-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000453549.1	NM_152603		A	37210687	G	A	37210687	3	1	573	1	0	0	0	0	1	0	0	0	18010	1145	40	1	978	1	ZNF567	19	37210687	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10		37210687	21918296	50	33939										
DNMT3B	1789	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	31389169	31389169	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	gatgaccggccgttcttctgGatgtttgagaatgttgtagc	13	7	2	2			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr20:31389169G>C	ENST00000328111.2	+	19	2403	c.2082G>C	c.(2080-2082)tgG>tgC	p.W694C	DNMT3B_ENST00000456297.2_Missense_Mutation_p.W598C|DNMT3B_ENST00000443239.3_Missense_Mutation_p.W632C|DNMT3B_ENST00000344505.4_Missense_Mutation_p.W674C|DNMT3B_ENST00000353855.2_Missense_Mutation_p.W674C|DNMT3B_ENST00000348286.2_Missense_Mutation_p.W674C|DNMT3B_ENST00000201963.3_Missense_Mutation_p.W686C	NM_006892.3	NP_008823.1	Q9UBC3	DNM3B_HUMAN	DNA (cytosine-5-)-methyltransferase 3 beta	694	SAM-dependent MTase C5-type. {ECO:0000255|PROSITE-ProRule:PRU01016}.				C-5 methylation of cytosine (GO:0090116)|cellular response to amino acid stimulus (GO:0071230)|DNA methylation (GO:0006306)|DNA methylation involved in embryo development (GO:0043045)|DNA methylation on cytosine within a CG sequence (GO:0010424)|methylation-dependent chromatin silencing (GO:0006346)|negative regulation of histone H3-K9 methylation (GO:0051573)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of gene expression (GO:0010628)|positive regulation of histone H3-K4 methylation (GO:0051571)|positive regulation of neuron differentiation (GO:0045666)|protein complex localization (GO:0031503)|regulation of gene expression by genetic imprinting (GO:0006349)|response to drug (GO:0042493)|response to ionizing radiation (GO:0010212)|S-adenosylhomocysteine metabolic process (GO:0046498)|S-adenosylmethioninamine metabolic process (GO:0046499)	chromosome, centromeric region (GO:0000775)|cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nuclear heterochromatin (GO:0005720)|nucleus (GO:0005634)	DNA (cytosine-5-)-methyltransferase activity (GO:0003886)|DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates (GO:0051718)|DNA-methyltransferase activity (GO:0009008)|metal ion binding (GO:0046872)|transcription corepressor activity (GO:0003714)|unmethylated CpG binding (GO:0045322)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(16)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	39						CGTTCTTCTGGATGTTTGAGA	0.532																																																0													105	95	98					20																	31389169		2203	4300	6503	SO:0001583	missense	1789				CCDS13204.1, CCDS13205.1, CCDS13206.1, CCDS13207.1, CCDS56183.1, CCDS56184.1	20q11.2	2014-09-17			ENSG00000088305	ENSG00000088305			2979	protein-coding gene	gene with protein product		602900				9662389, 10433969	Standard	NM_006892		Approved		uc002wyc.3	Q9UBC3	OTTHUMG00000032226	ENST00000328111.2:c.2082G>C	20.37:g.31389169G>C	ENSP00000328547:p.Trp694Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2E2|B4DSM8|B4DSU1|E1P5M6|E1P5M7|E7EN63|E9PBF2|Q9UBD4|Q9UJQ5|Q9UKA6|Q9UNE5|Q9Y5R9|Q9Y5S0	Missense_Mutation	SNP	ENST00000328111.2	37	CCDS13205.1	.	.	.	.	.	.	.	.	.	.	G	27.9	4.875757	0.91664	.	.	ENSG00000088305	ENST00000328111;ENST00000353855;ENST00000348286;ENST00000443239;ENST00000456297;ENST00000344505;ENST00000201963	D;D;D;D;D;D;D	0.84070	-1.8;-1.8;-1.8;-1.8;-1.8;-1.8;-1.8	5.75	5.75	0.90469	.	0.000000	0.85682	D	0.000000	D	0.91858	0.7423	M	0.80508	2.5	0.80722	D	1	D;D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D;D	0.91635	0.992;0.998;0.999;0.999;0.987;0.999;0.999	D	0.92078	0.5670	10	0.87932	D	0	-23.2234	19.2924	0.94105	0.0:0.0:1.0:0.0	.	598;632;393;686;674;674;694	E9PBF2;E7EN63;B3KM53;Q9UBC3-6;Q9UBC3-3;Q9UBC3-2;Q9UBC3	.;.;.;.;.;.;DNM3B_HUMAN	C	694;674;674;632;598;674;686	ENSP00000328547:W694C;ENSP00000313397:W674C;ENSP00000337764:W674C;ENSP00000403169:W632C;ENSP00000412305:W598C;ENSP00000345105:W674C;ENSP00000201963:W686C	ENSP00000201963:W686C	W	+	3	0	DNMT3B	30852830	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.835000	0.99442	2.878000	0.98634	0.650000	0.86243	TGG		0.532	DNMT3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078643.2	NM_006892		C	31389169	G	C	31389169	3	2	573	1	0	0	0	0	1	0	0	0	4679	1183	41	4	2192	4	DNMT3B	20	31389169	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10		31389169	31636351	51	33940										
L3MBTL	26013	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	42162966	42162966	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	tcaatatgaagctggaggctGtggaccgcaggaacccagcc	13	11	1	1			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr20:42162966G>A	ENST00000427442.2	+	15	1735	c.1576G>A	c.(1576-1578)Gtg>Atg	p.V526M	L3MBTL1_ENST00000373134.1_Missense_Mutation_p.V458M|L3MBTL1_ENST00000444063.1_Missense_Mutation_p.V458M|L3MBTL1_ENST00000373135.3_Missense_Mutation_p.V458M|L3MBTL1_ENST00000418998.1_Missense_Mutation_p.V526M			Q9Y468	LMBL1_HUMAN	l(3)mbt-like 1 (Drosophila)	458					chromatin modification (GO:0016568)|hemopoiesis (GO:0030097)|negative regulation of transcription, DNA-templated (GO:0045892)|regulation of cell cycle (GO:0051726)|regulation of megakaryocyte differentiation (GO:0045652)|regulation of mitosis (GO:0007088)|transcription, DNA-templated (GO:0006351)	chromatin (GO:0000785)|condensed chromosome (GO:0000793)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|histone binding (GO:0042393)|identical protein binding (GO:0042802)|methylated histone binding (GO:0035064)|nucleosomal histone binding (GO:0031493)|nucleosome binding (GO:0031491)|SAM domain binding (GO:0032093)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			breast(1)|large_intestine(3)|ovary(1)|skin(2)	7						GCTGGAGGCTGTGGACCGCAG	0.632																																																0													45	47	46					20																	42162966		2203	4300	6503	SO:0001583	missense	26013			U89358	CCDS13319.1, CCDS46602.1, CCDS46602.2	20q13.12	2013-01-10	2010-09-03	2010-09-03	ENSG00000185513	ENSG00000185513		"Zinc fingers, C2HC-type containing", "Sterile alpha motif (SAM) domain containing"	15905	protein-coding gene	gene with protein product	"lethal (3) malignant brain tumor l(3)"	608802	"l(3)mbt (Drosophila)-like", "l(3)mbt-like (Drosophila)"	L3MBTL		10445843, 17540172	Standard	NM_032107		Approved	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681	uc010zwh.2	Q9Y468	OTTHUMG00000032503	ENST00000427442.2:c.1576G>A	20.37:g.42162966G>A	ENSP00000402107:p.Val526Met	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRC9|E1P5W7|Q5H8Y8|Q5H8Y9|Q8IUV7|Q9H1E6|Q9H1G5|Q9UG06|Q9UJB9|Q9Y4C9	Missense_Mutation	SNP	ENST00000427442.2	37	CCDS46602.2	.	.	.	.	.	.	.	.	.	.	G	31	5.080728	0.94050	.	.	ENSG00000185513	ENST00000427442;ENST00000418998;ENST00000373135;ENST00000444063;ENST00000373134;ENST00000422861;ENST00000373133	T;T;T;T;T;T	0.37584	1.19;1.19;1.19;1.19;1.19;1.19	5.39	5.39	0.77823	.	0.115236	0.64402	D	0.000019	T	0.69324	0.3098	M	0.91459	3.21	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	0.997;0.997;1.0;0.996	T	0.76170	-0.3057	10	0.87932	D	0	.	18.0965	0.89492	0.0:0.0:1.0:0.0	.	526;110;458;458	Q9Y468-5;Q9Y468-3;Q9Y468-2;Q9Y468-1	.;.;.;.	M	526;526;458;458;458;244;110	ENSP00000402107:V526M;ENSP00000398516:V526M;ENSP00000362227:V458M;ENSP00000403316:V458M;ENSP00000362226:V458M;ENSP00000410139:V244M	ENSP00000362225:V110M	V	+	1	0	L3MBTL1	41596380	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.598000	0.98277	2.804000	0.96469	0.655000	0.94253	GTG		0.632	L3MBTL1-007	KNOWN	upstream_ATG|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079300.3	NM_032107		A	42162966	G	A	42162966	3	1	573	1	0	0	0	0	1	0	0	0	8598	1377	48	2	1418	2	L3MBTL	20	42162966	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10	10773797	42162966	20862554	52	33941										
SLC13A3	64849	broad.mit.edu	37	chr20	45194975	45194975	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	cagcacagccagggcgggggGcacattctccagggggtgca	17	12	1	0			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr20:45194975G>A	ENST00000279027.4	-	11	1405	c.1387C>T	c.(1387-1389)Ccc>Tcc	p.P463S	SLC13A3_ENST00000396360.1_Missense_Mutation_p.P381S|SLC13A3_ENST00000435032.1_Missense_Mutation_p.P48S|SLC13A3_ENST00000290317.5_Missense_Mutation_p.P416S|SLC13A3_ENST00000413164.2_Missense_Mutation_p.P413S|SLC13A3_ENST00000495082.1_Missense_Mutation_p.P416S|SLC13A3_ENST00000472148.1_Missense_Mutation_p.P381S	NM_001193342.1|NM_022829.5	NP_001180271.1|NP_073740.2	Q8WWT9	S13A3_HUMAN	solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 3	463					transmembrane transport (GO:0055085)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	high-affinity sodium:dicarboxylate symporter activity (GO:0015362)			breast(2)|endometrium(2)|kidney(2)|large_intestine(9)|lung(12)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	31		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)	AGGGCGGGGGGCACATTCTCC	0.607																																																0													95	98	97					20																	45194975		2203	4300	6503	SO:0001583	missense	64849			AF154121	CCDS13400.1, CCDS42886.1, CCDS54469.1, CCDS54470.1	20q13.12	2013-05-22			ENSG00000158296	ENSG00000158296		"Solute carriers"	14430	protein-coding gene	gene with protein product		606411				10794676, 10992006	Standard	NM_001011554		Approved	NADC3, SDCT2	uc002xsf.2	Q8WWT9	OTTHUMG00000033042	ENST00000279027.4:c.1387C>T	20.37:g.45194975G>A	ENSP00000279027:p.Pro463Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DIR8|E1P5U4|F6WI18|Q5JYC9|Q5JYD0|Q5JYD1|Q5TCQ2|Q8IVB1|Q8N8K4|Q96MM5|Q9BR25|Q9H1G1|Q9H3W4|Q9NQN5|Q9NS04	Missense_Mutation	SNP	ENST00000279027.4	37	CCDS13400.1	.	.	.	.	.	.	.	.	.	.	G	13.06	2.125209	0.37533	.	.	ENSG00000158296	ENST00000290317;ENST00000396360;ENST00000435032;ENST00000279027;ENST00000472148;ENST00000413164;ENST00000495082	T;T;T;T;T;T;T	0.03441	3.93;3.93;3.93;3.93;3.93;3.93;3.93	5.25	3.3	0.37823	.	0.169329	0.53938	N	0.000051	T	0.06462	0.0166	L	0.48260	1.515	0.80722	D	1	P;P;P;B;B;P	0.40476	0.581;0.718;0.622;0.28;0.327;0.471	P;P;P;B;B;B	0.46585	0.521;0.451;0.465;0.253;0.37;0.3	T	0.25152	-1.0140	10	0.62326	D	0.03	-17.9448	8.7132	0.34395	0.2304:0.0:0.7696:0.0	.	413;48;381;416;365;463	B4DIR8;B4E181;Q8WWT9-3;F6WI18;B4DF27;Q8WWT9	.;.;.;.;.;S13A3_HUMAN	S	416;381;48;463;381;413;416	ENSP00000290317:P416S;ENSP00000379648:P381S;ENSP00000403394:P48S;ENSP00000279027:P463S;ENSP00000420177:P381S;ENSP00000415852:P413S;ENSP00000419621:P416S	ENSP00000279027:P463S	P	-	1	0	SLC13A3	44628382	1.000000	0.71417	0.307000	0.25127	0.310000	0.27922	4.143000	0.58051	0.601000	0.29879	0.561000	0.74099	CCC		0.607	SLC13A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080329.2			A	45194975	G	A	45194975	3	1	573	1	0	0	0	0	1	0	0	0	14406	1203	42	2	433	2	SLC13A3	20	45194975	Missense_Mutation	SNP	G	TCGA-DW-7963-01B-11D-A28G-10	3032009	45194975	17830545	53	33942										
PREX1	57580	broad.mit.edu	37	chr20	47258948	47258948	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	tggggcaaaggtcctacctgGttaaagaggtgctccaggca	14	9	0	1			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr20:47258948G>A	ENST00000371941.3	-	28	3703	c.3681C>T	c.(3679-3681)aaC>aaT	p.N1227N	PREX1_ENST00000396220.1_Silent_p.N1227N|PREX1_ENST00000496915.1_5'UTR	NM_020820.3	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	1227					actin filament polymerization (GO:0030041)|G-protein coupled receptor signaling pathway (GO:0007186)|intracellular signal transduction (GO:0035556)|neutrophil activation (GO:0042119)|neutrophil chemotaxis (GO:0030593)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|regulation of actin filament polymerization (GO:0030833)|regulation of dendrite development (GO:0050773)|superoxide metabolic process (GO:0006801)|T cell differentiation (GO:0030217)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendritic shaft (GO:0043198)|growth cone (GO:0030426)|intracellular membrane-bounded organelle (GO:0043231)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	enzyme binding (GO:0019899)|phospholipid binding (GO:0005543)|Rho GTPase activator activity (GO:0005100)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(3)|central_nervous_system(1)|endometrium(4)|kidney(6)|large_intestine(27)|lung(53)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|stomach(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	110			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GTCCTACCTGGTTAAAGAGGT	0.607																																																0													67	65	66					20																	47258948		2203	4300	6503	SO:0001819	synonymous_variant	57580			AB037836	CCDS13410.1	20q13.13	2013-01-10	2008-09-15		ENSG00000124126	ENSG00000124126		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	32594	protein-coding gene	gene with protein product		606905				11955434, 15545267, 16301320	Standard	NM_020820		Approved	KIAA1415, P-REX1	uc002xtw.1	Q8TCU6	OTTHUMG00000032685	ENST00000371941.3:c.3681C>T	20.37:g.47258948G>A		Somatic		WXS	Illumina HiSeq	Phase_I	E1P5X9|Q5JS95|Q5JS96|Q69YL2|Q7Z2L9|Q9BQH0|Q9BX55|Q9H4Q6|Q9P2D2|Q9UGQ4	Silent	SNP	ENST00000371941.3	37	CCDS13410.1																																																																																				0.607	PREX1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079623.1	NM_020820		A	47258948	G	A	47258948	2	1	573	1	0	0	0	0	0	0	0	1	12486	1252	44	2		2	PREX1	20	47258948	Silent	SNP	G	TCGA-DW-7963-01B-11D-A28G-10	2063973	47258948	15766572	54	33943										
FAM65C	140876	broad.mit.edu	37	chr20	49208955	49208955	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	cctgcacaccctcggagtgcCgtccagctggagcagcgccc	12	18	0	0	rs77093450	byFrequency	TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr20:49208955C>G	ENST00000327979.2	-	19	2902	c.2491G>C	c.(2491-2493)Ggc>Cgc	p.G831R	FAM65C_ENST00000462842.1_5'Flank|FAM65C_ENST00000535356.1_Missense_Mutation_p.G835R|FAM65C_ENST00000045083.2_Missense_Mutation_p.G831R			Q96MK2	FA65C_HUMAN	family with sequence similarity 65, member C	831										endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|liver(1)|lung(12)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	29						CTCGGAGTGCCGTCCAGCTGG	0.672																																																0													32	36	34					20																	49208955		1970	4144	6114	SO:0001583	missense	140876			AL133230	CCDS13431.2	20q13.13	2011-11-24	2008-06-13	2008-06-13	ENSG00000042062	ENSG00000042062			16168	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 175", "chromosome 20 open reading frame 176"	C20orf175, C20orf176			Standard	XM_005260294		Approved	dJ530I15.2, dJ530I15.3	uc002xvm.3	Q96MK2	OTTHUMG00000032724	ENST00000327979.2:c.2491G>C	20.37:g.49208955C>G	ENSP00000332663:p.Gly831Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5QPB6|Q9NQQ2	Missense_Mutation	SNP	ENST00000327979.2	37	CCDS13431.2	.	.	.	.	.	.	.	.	.	.	C	20.2	3.948982	0.73787	.	.	ENSG00000042062	ENST00000327979;ENST00000045083;ENST00000535356	T;T;T	0.77750	-1.12;-1.12;-1.12	4.81	4.81	0.61882	.	0.941590	0.08689	U	0.908334	D	0.83631	0.5296	L	0.54323	1.7	0.38977	D	0.958862	P;D	0.60575	0.767;0.988	P;P	0.54460	0.457;0.753	T	0.80120	-0.1515	10	0.39692	T	0.17	-29.6403	17.893	0.88878	0.0:1.0:0.0:0.0	.	835;831	F5H0X2;Q96MK2	.;FA65C_HUMAN	R	831;831;835	ENSP00000332663:G831R;ENSP00000045083:G831R;ENSP00000439802:G835R	ENSP00000045083:G831R	G	-	1	0	FAM65C	48642362	0.928000	0.31464	0.978000	0.43139	0.640000	0.38277	3.910000	0.56371	2.216000	0.71823	0.462000	0.41574	GGC		0.672	FAM65C-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257962.1			G	49208955	C	G	49208955	3	3	573	1	0	0	0	0	1	0	0	0	5608	652	23	4	365	4	FAM65C	20	49208955	Missense_Mutation	SNP	C	TCGA-DW-7963-01B-11D-A28G-10	1950007	49208955	13816565	55	33944										
DOPEY2	9980	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	37642372	37642372	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	cggctcttccttggagcaaaCcagctggctaagcagaaacc	10	13	1	1			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr21:37642372C>T	ENST00000399151.3	+	27	5634	c.5549C>T	c.(5548-5550)aCc>aTc	p.T1850I		NM_005128.2	NP_005119.2	Q9Y3R5	DOP2_HUMAN	dopey family member 2	1850					cognition (GO:0050890)|endoplasmic reticulum organization (GO:0007029)|Golgi to endosome transport (GO:0006895)|multicellular organismal development (GO:0007275)|protein transport (GO:0015031)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)				autonomic_ganglia(1)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(5)|kidney(5)|large_intestine(6)|lung(25)|ovary(2)|prostate(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	58						TTGGAGCAAACCAGCTGGCTA	0.493																																																0													104	109	108					21																	37642372		2203	4300	6503	SO:0001583	missense	9980			AJ237839	CCDS13643.1	21q22.2	2013-03-05	2006-02-02	2006-02-02	ENSG00000142197	ENSG00000142197			1291	protein-coding gene	gene with protein product		604803	"chromosome 21 open reading frame 5"	C21orf5		16301316, 16303751, 10931277	Standard	NM_005128		Approved	KIAA0933	uc002yvg.3	Q9Y3R5	OTTHUMG00000086619	ENST00000399151.3:c.5549C>T	21.37:g.37642372C>T	ENSP00000382104:p.Thr1850Ile	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSG5|Q6PJQ7|Q9UEZ3	Missense_Mutation	SNP	ENST00000399151.3	37	CCDS13643.1	.	.	.	.	.	.	.	.	.	.	C	23.5	4.422737	0.83559	.	.	ENSG00000142197	ENST00000399151	T	0.14516	2.5	5.47	4.59	0.56863	.	0.049713	0.85682	N	0.000000	T	0.41119	0.1145	M	0.85542	2.76	0.58432	D	0.999999	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.41998	-0.9477	10	0.51188	T	0.08	-3.5123	13.7957	0.63168	0.0:0.9267:0.0:0.0733	.	1850;1850	Q9Y3R5-2;Q9Y3R5	.;DOP2_HUMAN	I	1850	ENSP00000382104:T1850I	ENSP00000382104:T1850I	T	+	2	0	DOPEY2	36564242	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.300000	0.78841	1.311000	0.45024	0.650000	0.86243	ACC		0.493	DOPEY2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000194636.1	NM_005128		T	37642372	C	T	37642372	3	4	573	1	0	0	0	0	1	0	0	0	4710	507	18	2	5651	2	DOPEY2	21	37642372	Missense_Mutation	SNP	C	TCGA-DW-7963-01B-11D-A28G-10		37642372	10487523	56	33945										
KCNJ4	3761	broad.mit.edu	37	chr22	38822920	38822920	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	atgcccgcctcctccttggaAcccgcctccaggcccaggcc	9	21	0	0			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr22:38822920A>C	ENST00000303592.3	-	2	1476	c.1218T>G	c.(1216-1218)ggT>ggG	p.G406G	RP3-434P1.6_ENST00000433230.1_RNA	NM_004981.1|NM_152868.2	NP_004972.1|NP_690607.1	P48050	KCNJ4_HUMAN	potassium inwardly-rectifying channel, subfamily J, member 4	406					potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|synaptic transmission (GO:0007268)	basolateral plasma membrane (GO:0016323)|cell junction (GO:0030054)|cytoplasmic vesicle (GO:0031410)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|voltage-gated potassium channel complex (GO:0008076)	inward rectifier potassium channel activity (GO:0005242)|PDZ domain binding (GO:0030165)			endometrium(7)|kidney(1)|large_intestine(2)|lung(8)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	23	Melanoma(58;0.0286)					CCTCCTTGGAACCCGCCTCCA	0.672																																																0													45	55	52					22																	38822920		2200	4299	6499	SO:0001819	synonymous_variant	3761			U07364	CCDS13971.1	22q13.1	2011-07-05			ENSG00000168135	ENSG00000168135		"Potassium channels", "Voltage-gated ion channels / Potassium channels, Inwardly rectifying"	6265	protein-coding gene	gene with protein product		600504				8016146, 16382105	Standard	NM_152868		Approved	Kir2.3, HIR, HRK1, hIRK2, IRK3	uc003avs.1	P48050	OTTHUMG00000151131	ENST00000303592.3:c.1218T>G	22.37:g.38822920A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q14D44	Silent	SNP	ENST00000303592.3	37	CCDS13971.1																																																																																				0.672	KCNJ4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321447.1	NM_004981		C	38822920	A	C	38822920	2	2	573	1	0	0	0	0	0	0	0	1	8060	30	2	5		5	KCNJ4	22	38822920	Silent	SNP	A	TCGA-DW-7963-01B-11D-A28G-10		38822920	12481646	57	33946										
ZBED4	9889	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	50279802	50279802	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0175438596491228	1	1	0.466153846153846	0	0.554945054945055	1	1	0	cgtgcagtgcttcagccataCggtgaacctgatcgtcagcg	12	12	2	2			TCGA-DW-7963-01B-11D-A28G-10	TCGA-DW-7963-10C-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	15b3020f-71db-4d0e-8f6a-edf5552e3064	a522a63d-1b4f-46ea-bcfc-5dbbc855a5bb	g.chr22:50279802C>T	ENST00000216268.5	+	2	2969	c.2492C>T	c.(2491-2493)aCg>aTg	p.T831M		NM_014838.2	NP_055653.2	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	831						cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|endometrium(3)|kidney(2)|large_intestine(11)|lung(20)|ovary(2)|skin(3)|upper_aerodigestive_tract(1)	44		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)		TTCAGCCATACGGTGAACCTG	0.642																																																0													35	35	35					22																	50279802		2202	4300	6502	SO:0001583	missense	9889			AB014537	CCDS33677.1	22q13.33	2013-05-03			ENSG00000100426	ENSG00000100426		"Zinc fingers, BED-type"	20721	protein-coding gene	gene with protein product		612552				23533661	Standard	NM_014838		Approved	KIAA0637	uc003bix.2	O75132	OTTHUMG00000150291	ENST00000216268.5:c.2492C>T	22.37:g.50279802C>T	ENSP00000216268:p.Thr831Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2RZH1|Q1ECU0|Q9UGG8	Missense_Mutation	SNP	ENST00000216268.5	37	CCDS33677.1	.	.	.	.	.	.	.	.	.	.	C	14.16	2.451158	0.43531	.	.	ENSG00000100426	ENST00000216268	T	0.23348	1.91	5.57	3.46	0.39613	Ribonuclease H-like (1);	0.113857	0.64402	N	0.000019	T	0.47911	0.1471	M	0.77820	2.39	0.49483	D	0.999791	D	0.89917	1.0	D	0.71656	0.974	T	0.44757	-0.9307	10	0.54805	T	0.06	-22.2447	10.3753	0.44079	0.1354:0.7951:0.0:0.0695	.	831	O75132	ZBED4_HUMAN	M	831	ENSP00000216268:T831M	ENSP00000216268:T831M	T	+	2	0	ZBED4	48665806	0.999000	0.42202	0.659000	0.29680	0.301000	0.27625	4.300000	0.59079	0.688000	0.31529	0.655000	0.94253	ACG		0.642	ZBED4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317408.2	NM_014838		T	50279802	C	T	50279802	3	4	573	1	0	0	0	0	1	0	0	0	17532	536	19	1	2494	1	ZBED4	22	50279802	Missense_Mutation	SNP	C	TCGA-DW-7963-01B-11D-A28G-10	11456882	50279802	1024764	58	33947										
ZCCHC17	51538	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	31836979	31836979	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	ggcaaggcacacatcaaaagAcagcaaggcagcaaagaaga	11	9	1	3	rs111803813		TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr1:31836979A>C	ENST00000373714.1	+	8	926	c.665A>C	c.(664-666)gAc>gCc	p.D222A	ZCCHC17_ENST00000422613.2_Missense_Mutation_p.D224A|FABP3_ENST00000497275.1_5'Flank|ZCCHC17_ENST00000344147.5_Missense_Mutation_p.D222A|ZCCHC17_ENST00000546109.1_Missense_Mutation_p.D214A	NM_001282568.1|NM_001282570.1	NP_001269497.1|NP_001269499.1	Q9NP64	NO40_HUMAN	zinc finger, CCHC domain containing 17	222	Lys-rich.					cytosolic large ribosomal subunit (GO:0022625)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			breast(1)|kidney(1)|large_intestine(2)|ovary(1)|skin(1)	6		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)|all_neural(195;0.146)|Medulloblastoma(700;0.151)|Breast(348;0.222)		STAD - Stomach adenocarcinoma(196;0.0215)|READ - Rectum adenocarcinoma(331;0.168)		ACATCAAAAGACAGCAAGGCA	0.433																																																0													82	86	85					1																	31836979		2203	4300	6503	SO:0001583	missense	51538			AF151085	CCDS341.1, CCDS60061.1, CCDS72741.1, CCDS72742.1, CCDS72743.1, CCDS72744.1	1p35.2	2008-05-02			ENSG00000121766	ENSG00000121766		"Zinc fingers, CCHC domain containing"	30246	protein-coding gene	gene with protein product						12202495, 12893261	Standard	NM_001282572		Approved	PS1D, HSPC251, pNO40	uc001bsp.1	Q9NP64	OTTHUMG00000003791	ENST00000373714.1:c.665A>C	1.37:g.31836979A>C	ENSP00000362819:p.Asp222Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4DY38|D3DPN4|Q6PKH4|Q9NYG4|Q9P0M8	Missense_Mutation	SNP	ENST00000373714.1	37	CCDS341.1	.	.	.	.	.	.	.	.	.	.	A	16.09	3.025038	0.54683	.	.	ENSG00000121766	ENST00000344147;ENST00000373714;ENST00000546109;ENST00000422613	.	.	.	5.08	5.08	0.68730	.	0.376195	0.32055	N	0.006643	T	0.41488	0.1161	N	0.19112	0.55	0.25685	N	0.98575	D;B;B	0.69078	0.997;0.023;0.008	D;B;B	0.75484	0.986;0.007;0.001	T	0.23904	-1.0175	9	0.66056	D	0.02	.	9.0275	0.36239	0.814:0.186:0.0:0.0	.	224;214;222	E7EPF0;B4DY38;Q9NP64	.;.;NO40_HUMAN	A	222;222;214;224	.	ENSP00000343557:D222A	D	+	2	0	ZCCHC17	31609566	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	2.513000	0.45494	2.135000	0.66039	0.528000	0.53228	GAC		0.433	ZCCHC17-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000010665.1	NM_016505		C	31836979	A	C	31836979	3	2	574	1	0	0	0	0	1	0	0	0	17597	275	10	5	691	5	ZCCHC17	1	31836979	Missense_Mutation	SNP	A	TCGA-DZ-6131-01A-11D-1961-08		31836979	217413642	1	33948										
ADAM30	11085	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	120436921	120436921	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	aaattgacgagggaatcgccCctctgagcagtcctggaggc	13	11	1	2			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr1:120436921C>T	ENST00000369400.1	-	1	2197	c.2039G>A	c.(2038-2040)gGg>gAg	p.G680E		NM_021794.3	NP_068566.2	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30	680					binding of sperm to zona pellucida (GO:0007339)|multicellular organism reproduction (GO:0032504)|single fertilization (GO:0007338)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(1)|autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(11)|lung(16)|ovary(2)|skin(2)	38	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)		GGGAATCGCCCCTCTGAGCAG	0.473																																																0													65	64	64					1																	120436921		2203	4300	6503	SO:0001583	missense	11085			AF171932	CCDS907.1	1p12	2012-05-16	2005-08-18		ENSG00000134249	ENSG00000134249		"ADAM metallopeptidase domain containing"	208	protein-coding gene	gene with protein product		604779	"a disintegrin and metalloproteinase domain 30"				Standard	NM_021794		Approved	svph4	uc001eij.3	Q9UKF2	OTTHUMG00000012176	ENST00000369400.1:c.2039G>A	1.37:g.120436921C>T	ENSP00000358407:p.Gly680Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8W8|Q5T3X6|Q9UKF1	Missense_Mutation	SNP	ENST00000369400.1	37	CCDS907.1	.	.	.	.	.	.	.	.	.	.	C	0.006	-2.021307	0.00414	.	.	ENSG00000134249	ENST00000369400;ENST00000543066	T	0.01126	5.3	5.05	-10.1	0.00402	.	3.564080	0.01402	N	0.013659	T	0.00109	0.0003	N	0.05031	-0.125	0.09310	N	1	B	0.13145	0.007	B	0.13407	0.009	T	0.47394	-0.9121	10	0.02654	T	1	.	1.9545	0.03373	0.4755:0.1902:0.2118:0.1224	.	680	Q9UKF2	ADA30_HUMAN	E	680	ENSP00000358407:G680E	ENSP00000358407:G680E	G	-	2	0	ADAM30	120238444	.	.	0.000000	0.03702	0.002000	0.02628	.	.	-4.800000	0.00031	-1.047000	0.02352	GGG		0.473	ADAM30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033678.1	NM_021794		T	120436921	C	T	120436921	3	4	574	1	0	0	0	0	1	0	0	0	248	623	22	2	337	2	ADAM30	1	120436921	Missense_Mutation	SNP	C	TCGA-DZ-6131-01A-11D-1961-08	88599942	120436921	128813700	2	33949										
AIM2	9447	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	159033450	159033450	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	aggtcaaataatatgtttttCttcttttctgttacctataa	4	6	4	0			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr1:159033450C>G	ENST00000368130.4	-	5	1119	c.831G>C	c.(829-831)aaG>aaC	p.K277N	AIM2_ENST00000411768.1_5'Flank	NM_004833.1	NP_004824.1	O14862	AIM2_HUMAN	absent in melanoma 2	277	HIN-200. {ECO:0000255|PROSITE- ProRule:PRU00106}.				activation of innate immune response (GO:0002218)|apoptotic process (GO:0006915)|cellular response to drug (GO:0035690)|cellular response to interferon-beta (GO:0035458)|immune response (GO:0006955)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|interleukin-1 beta secretion (GO:0050702)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|positive regulation of cysteine-type endopeptidase activity (GO:2001056)|positive regulation of defense response to virus by host (GO:0002230)|positive regulation of interleukin-1 beta production (GO:0032731)|positive regulation of interleukin-1 beta secretion (GO:0050718)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of protein oligomerization (GO:0032461)|pyroptosis (GO:0070269)|tumor necrosis factor-mediated signaling pathway (GO:0033209)	AIM2 inflammasome complex (GO:0097169)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	double-stranded DNA binding (GO:0003690)|identical protein binding (GO:0042802)			breast(1)|large_intestine(1)|lung(7)|ovary(2)|pancreas(2)|prostate(2)|skin(1)	16	all_hematologic(112;0.0429)					ATATGTTTTTCTTCTTTTCTG	0.398																																																0													117	121	120					1																	159033450		2203	4300	6503	SO:0001583	missense	9447			AF024714	CCDS1181.1	1q22	2008-07-18			ENSG00000163568	ENSG00000163568			357	protein-coding gene	gene with protein product		604578				9242382	Standard	NM_004833		Approved	PYHIN4	uc001ftj.1	O14862	OTTHUMG00000037183	ENST00000368130.4:c.831G>C	1.37:g.159033450C>G	ENSP00000357112:p.Lys277Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7M7|Q5T3V9|Q96FG9	Missense_Mutation	SNP	ENST00000368130.4	37	CCDS1181.1	.	.	.	.	.	.	.	.	.	.	C	2.160	-0.392489	0.04899	.	.	ENSG00000163568	ENST00000368130;ENST00000368129	T;T	0.14266	2.52;2.52	3.92	-4.82	0.03171	HIN-200/IF120x (2);Nucleic acid-binding, OB-fold (1);	1.433050	0.05063	N	0.480252	T	0.01558	0.0050	N	0.17723	0.515	0.09310	N	1	B	0.21606	0.058	B	0.19391	0.025	T	0.42816	-0.9429	10	0.14252	T	0.57	-0.6466	1.0125	0.01500	0.1428:0.2093:0.2823:0.3657	.	277	O14862	AIM2_HUMAN	N	277;140	ENSP00000357112:K277N;ENSP00000357111:K140N	ENSP00000357111:K140N	K	-	3	2	AIM2	157300074	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.991000	0.03728	-0.739000	0.04809	-1.099000	0.02127	AAG		0.398	AIM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090341.1	NM_004833		G	159033450	C	G	159033450	3	3	574	1	0	0	0	0	1	0	0	0	432	912	32	4	208	4	AIM2	1	159033450	Missense_Mutation	SNP	C	TCGA-DZ-6131-01A-11D-1961-08	38596529	159033450	90217171	3	33950										
GLUL	2752	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	182356292	182356292	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	gccttcgattgtacttgaaaActtcacataacaccagcttg	6	11	1	1			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr1:182356292A>T	ENST00000331872.6	-	3	842	c.302T>A	c.(301-303)gTt>gAt	p.V101D	GLUL_ENST00000417584.2_Missense_Mutation_p.V101D|GLUL_ENST00000339526.4_Missense_Mutation_p.V101D|GLUL_ENST00000491322.1_5'UTR|GLUL_ENST00000311223.5_Missense_Mutation_p.V101D	NM_001033044.2	NP_001028216.1	P15104	GLNA_HUMAN	glutamate-ammonia ligase	101					cell proliferation (GO:0008283)|cellular amino acid biosynthetic process (GO:0008652)|cellular nitrogen compound metabolic process (GO:0034641)|cellular response to starvation (GO:0009267)|glutamate catabolic process (GO:0006538)|glutamine biosynthetic process (GO:0006542)|neurotransmitter uptake (GO:0001504)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of insulin secretion (GO:0032024)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|protein homooligomerization (GO:0051260)|response to glucose (GO:0009749)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)	axon terminus (GO:0043679)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|glial cell projection (GO:0097386)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|perikaryon (GO:0043204)|protein complex (GO:0043234)|rough endoplasmic reticulum (GO:0005791)	ATP binding (GO:0005524)|glutamate binding (GO:0016595)|glutamate decarboxylase activity (GO:0004351)|glutamate-ammonia ligase activity (GO:0004356)|identical protein binding (GO:0042802)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)			endometrium(2)|large_intestine(5)|lung(8)|upper_aerodigestive_tract(1)	16					Ceftriaxone(DB01212)|Diazoxide(DB01119)|L-Glutamine(DB00130)|L-Methionine(DB00134)|Pegvisomant(DB00082)	GTACTTGAAAACTTCACATAA	0.493																																																0													112	101	105					1																	182356292		2203	4300	6503	SO:0001583	missense	2752			AL161952	CCDS1344.1	1q31	2010-05-04	2010-05-04		ENSG00000135821	ENSG00000135821	6.3.1.2		4341	protein-coding gene	gene with protein product	"glutamine synthetase"	138290	"glutamate-ammonia ligase (glutamine synthase)"	GLNS		1681907, 2888076	Standard	NM_002065		Approved		uc001gpa.2	P15104	OTTHUMG00000037407	ENST00000331872.6:c.302T>A	1.37:g.182356292A>T	ENSP00000356537:p.Val101Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q499Y9|Q5T9Z1|Q7Z3W4|Q8IZ17	Missense_Mutation	SNP	ENST00000331872.6	37	CCDS1344.1	.	.	.	.	.	.	.	.	.	.	A	26.1	4.704904	0.88924	.	.	ENSG00000135821	ENST00000331872;ENST00000311223;ENST00000417584;ENST00000339526;ENST00000435013	T;T;T;T	0.57107	0.42;0.42;0.42;0.42	4.79	4.79	0.61399	Glutamine synthetase, beta-Grasp (3);	0.057690	0.64402	D	0.000002	T	0.78534	0.4298	M	0.93678	3.445	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.84301	0.0505	10	0.72032	D	0.01	-23.933	13.4137	0.60956	1.0:0.0:0.0:0.0	.	101	P15104	GLNA_HUMAN	D	101	ENSP00000356537:V101D;ENSP00000307900:V101D;ENSP00000398320:V101D;ENSP00000344958:V101D	ENSP00000307900:V101D	V	-	2	0	GLUL	180622915	1.000000	0.71417	0.998000	0.56505	0.884000	0.51177	8.881000	0.92415	1.897000	0.54924	0.533000	0.62120	GTT		0.493	GLUL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091043.1	NM_002065		T	182356292	A	T	182356292	3	4	574	1	0	0	0	0	1	0	0	0	6485	43	2	5	839	5	GLUL	1	182356292	Missense_Mutation	SNP	A	TCGA-DZ-6131-01A-11D-1961-08	23322842	182356292	66894329	4	33951										
MTIF2	4528	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	55473595	55473595	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	gccaaagccatcagattatcGccctttaacaataacaaacg	5	12	1	1	rs540448511		TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr2:55473595G>A	ENST00000263629.4	-	10	1299	c.984C>T	c.(982-984)ggC>ggT	p.G328G	MTIF2_ENST00000394600.3_Silent_p.G328G|MTIF2_ENST00000403721.1_Silent_p.G328G	NM_002453.2	NP_002444.2	P46199	IF2M_HUMAN	mitochondrial translational initiation factor 2	328	tr-type G.				formation of translation initiation complex (GO:0001732)|regulation of translational initiation (GO:0006446)|ribosome disassembly (GO:0032790)	mitochondrion (GO:0005739)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|poly(A) RNA binding (GO:0044822)|ribosomal small subunit binding (GO:0043024)|translation factor activity, nucleic acid binding (GO:0008135)|translation initiation factor activity (GO:0003743)			breast(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(5)|ovary(1)|prostate(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)	24						TCAGATTATCGCCCTTTAACA	0.353																																																0													113	101	105					2																	55473595		2203	4300	6503	SO:0001819	synonymous_variant	4528			L34600	CCDS1853.1	2p16.1	2008-02-05			ENSG00000085760	ENSG00000085760			7441	protein-coding gene	gene with protein product		603766				9925935, 7829522	Standard	XM_005264335		Approved	IF-2mt	uc002ryo.3	P46199	OTTHUMG00000129338	ENST00000263629.4:c.984C>T	2.37:g.55473595G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D6W5D0	Silent	SNP	ENST00000263629.4	37	CCDS1853.1																																																																																				0.353	MTIF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251486.4	NM_002453		A	55473595	G	A	55473595	2	1	574	1	0	0	0	0	0	0	0	1	9941	1074	38	1		1	MTIF2	2	55473595	Silent	SNP	G	TCGA-DZ-6131-01A-11D-1961-08		55473595	187725778	5	33952										
ZDBF2	57683	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	207171574	207171574	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	gatgctgaaggaaaagaacgGcacattgacctggaagatga	13	6	0	5			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr2:207171574G>A	ENST00000374423.3	+	5	2708	c.2322G>A	c.(2320-2322)cgG>cgA	p.R774R		NM_020923.1	NP_065974.1	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	774							nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)			endometrium(4)|kidney(5)|large_intestine(28)|lung(50)|ovary(4)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	95						GAAAAGAACGGCACATTGACC	0.428																																																0													174	175	175					2																	207171574		1927	4125	6052	SO:0001819	synonymous_variant	57683			AB046791	CCDS46501.1, CCDS74637.1	2q33.3	2013-01-10			ENSG00000204186	ENSG00000204186		"Zinc fingers, DBF-type"	29313	protein-coding gene	gene with protein product						10997877	Standard	XM_005246711		Approved	FLJ45338, KIAA1571	uc002vbp.2	Q9HCK1	OTTHUMG00000154648	ENST00000374423.3:c.2322G>A	2.37:g.207171574G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZNP7|Q6ZSN8	Silent	SNP	ENST00000374423.3	37	CCDS46501.1																																																																																				0.428	ZDBF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336458.1	NM_020923		A	207171574	G	A	207171574	2	1	574	1	0	0	0	0	0	0	0	1	17611	1190	42	2		2	ZDBF2	2	207171574	Silent	SNP	G	TCGA-DZ-6131-01A-11D-1961-08	151697979	207171574	36027799	6	33953										
ABCA12	26154	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	215865517	215865517	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	agtttgcaattcaatgattgCtctttcaatactatcctgta	5	8	3	1			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr2:215865517C>G	ENST00000272895.7	-	22	3310	c.3091G>C	c.(3091-3093)Gca>Cca	p.A1031P	ABCA12_ENST00000389661.4_Missense_Mutation_p.A713P	NM_173076.2	NP_775099.2	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 12	1031					cellular homeostasis (GO:0019725)|ceramide transport (GO:0035627)|establishment of skin barrier (GO:0061436)|keratinization (GO:0031424)|lipid homeostasis (GO:0055088)|lipid transport (GO:0006869)|lung alveolus development (GO:0048286)|phospholipid efflux (GO:0033700)|positive regulation of cholesterol efflux (GO:0010875)|positive regulation of protein localization to cell surface (GO:2000010)|protein localization to plasma membrane (GO:0072659)|regulated secretory pathway (GO:0045055)|secretion by cell (GO:0032940)|surfactant homeostasis (GO:0043129)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|epidermal lamellar body (GO:0097209)|integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|plasma membrane (GO:0005886)	apolipoprotein A-I receptor binding (GO:0034191)|ATP binding (GO:0005524)|lipid transporter activity (GO:0005319)|lipid-transporting ATPase activity (GO:0034040)|receptor binding (GO:0005102)			NS(3)|breast(5)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(45)|lung(44)|ovary(8)|pancreas(2)|prostate(4)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	139		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)		TCAATGATTGCTCTTTCAATA	0.428																																					Ovarian(66;664 1488 5121 34295)											0													125	131	129					2																	215865517		2203	4300	6503	SO:0001583	missense	26154			AF418105	CCDS33372.1, CCDS33373.1	2q34	2012-03-14			ENSG00000144452	ENSG00000144452		"ATP binding cassette transporters / subfamily A"	14637	protein-coding gene	gene with protein product		607800	"ichthyosis congenita II, lamellar ichthyosis B"	ICR2B		11435397, 12915478, 8845852, 10094194	Standard	NM_015657		Approved	DKFZP434G232, LI2	uc002vew.3	Q86UK0	OTTHUMG00000154801	ENST00000272895.7:c.3091G>C	2.37:g.215865517C>G	ENSP00000272895:p.Ala1031Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q53QE2|Q53S55|Q8IZW6|Q96JT3|Q9Y4M5	Missense_Mutation	SNP	ENST00000272895.7	37	CCDS33372.1	.	.	.	.	.	.	.	.	.	.	C	27.8	4.864070	0.91511	.	.	ENSG00000144452	ENST00000272895;ENST00000389661	D;D	0.88046	-2.33;-2.33	5.73	5.73	0.89815	.	0.000000	0.64402	D	0.000001	D	0.94896	0.8350	M	0.88906	2.99	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.95165	0.8285	10	0.87932	D	0	.	19.9082	0.97015	0.0:1.0:0.0:0.0	.	1031;713	Q86UK0;Q86UK0-2	ABCAC_HUMAN;.	P	1031;713	ENSP00000272895:A1031P;ENSP00000374312:A713P	ENSP00000272895:A1031P	A	-	1	0	ABCA12	215573762	1.000000	0.71417	0.999000	0.59377	0.990000	0.78478	7.594000	0.82698	2.705000	0.92388	0.555000	0.69702	GCA		0.428	ABCA12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337111.1	NM_173076		G	215865517	C	G	215865517	3	3	574	1	0	0	0	0	1	0	0	0	30	797	28	4	4824	4	ABCA12	2	215865517	Missense_Mutation	SNP	C	TCGA-DZ-6131-01A-11D-1961-08	8693943	215865517	27333856	7	33954										
NGLY1	55768	ucsc.edu	37	chr3	25770623	25770623	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	tggttttatgcattaagttaCcatgtgccagtctgtttcaa	8	7	2	0			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr3:25770623C>T	ENST00000280700.5	-	10	1772		c.e10+1		NGLY1_ENST00000417874.2_Splice_Site|NGLY1_ENST00000396649.3_Splice_Site|NGLY1_ENST00000422724.2_Splice_Site|NGLY1_ENST00000467224.1_Splice_Site|NGLY1_ENST00000428257.1_Splice_Site	NM_018297.3	NP_060767.2	Q96IV0	NGLY1_HUMAN	N-glycanase 1						glycoprotein catabolic process (GO:0006516)	cytoplasm (GO:0005737)	metal ion binding (GO:0046872)|peptide-N4-(N-acetyl-beta-glucosaminyl)asparagine amidase activity (GO:0000224)			breast(1)|endometrium(1)|kidney(2)|large_intestine(4)|lung(7)|prostate(2)|skin(1)	18						CATTAAGTTACCATGTGCCAG	0.308																																																0													110	102	105					3																	25770623		2202	4299	6501	SO:0001630	splice_region_variant	55768			AF250924	CCDS33719.1, CCDS46777.1, CCDS46778.1, CCDS46779.1	3p23	2006-08-30			ENSG00000151092	ENSG00000151092			17646	protein-coding gene	gene with protein product		610661					Standard	NM_018297		Approved	FLJ11005, PNG1	uc003cdl.3	Q96IV0	OTTHUMG00000155600	ENST00000280700.5:c.1611+1G>A	3.37:g.25770623C>T		Somatic		WXS	Illumina HiSeq		B4DJE9|Q59FB1|Q6PJD8|Q9BVR8|Q9NR70	Splice_Site	SNP	ENST00000280700.5	37	CCDS33719.1	.	.	.	.	.	.	.	.	.	.	C	23.9	4.469638	0.84533	.	.	ENSG00000151092	ENST00000428257;ENST00000280700;ENST00000396649;ENST00000308710;ENST00000417874	.	.	.	5.82	5.82	0.92795	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	20.1006	0.97874	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	NGLY1	25745627	1.000000	0.71417	1.000000	0.80357	0.934000	0.57294	7.172000	0.77604	2.757000	0.94681	0.561000	0.74099	.		0.308	NGLY1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340832.2		Intron	T	25770623	C	T	25770623	5	4	574	1	0	0	0	0	0	0	1	0	10405	521	18	2	364	2	NGLY1	3	25770623	Splice_Site	SNP	C	TCGA-DZ-6131-01A-11D-1961-08		25770623	172251807	8	33955										
TRIM71	131405	ucsc.edu	37	chr3	32932841	32932841	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	aattctgagggcaagatcctGgtctcagacacgaggaacca	11	10	2	3	rs200564131	byFrequency	TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr3:32932841G>A	ENST00000383763.5	+	4	2208	c.2145G>A	c.(2143-2145)ctG>ctA	p.L715L		NM_001039111.1	NP_001034200.1	Q2Q1W2	LIN41_HUMAN	tripartite motif containing 71, E3 ubiquitin protein ligase	715					fibroblast growth factor receptor signaling pathway (GO:0008543)|G1/S transition of mitotic cell cycle (GO:0000082)|miRNA metabolic process (GO:0010586)|negative regulation of translation involved in gene silencing by miRNA (GO:0035278)|neural tube closure (GO:0001843)|neural tube development (GO:0021915)|positive regulation of gene silencing by miRNA (GO:2000637)|protein autoubiquitination (GO:0051865)|regulation of gene silencing by miRNA (GO:0060964)|regulation of neural precursor cell proliferation (GO:2000177)|stem cell proliferation (GO:0072089)	cytoplasmic mRNA processing body (GO:0000932)	ligase activity (GO:0016874)|miRNA binding (GO:0035198)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(3)|endometrium(3)|kidney(1)|large_intestine(4)|lung(7)|ovary(3)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	24						GCAAGATCCTGGTCTCAGACA	0.532													G|||	14	0.00279553	0.0	0.0043	5008	,	,		18823	0.0		0.0	False		,,,				2504	0.0112															0								G		0,4078		0,0,2039	44	50	48		2145	-2	1	3		48	13,8363		0,13,4175	no	coding-synonymous	TRIM71	NM_001039111.1		0,13,6214	AA,AG,GG		0.1552,0.0,0.1044		715/869	32932841	13,12441	2039	4188	6227	SO:0001819	synonymous_variant	131405				CCDS43060.1	3p22.3	2014-02-17	2012-02-29		ENSG00000206557	ENSG00000206557		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	32669	protein-coding gene	gene with protein product			"tripartite motif-containing 71", "tripartite motif containing 71"				Standard	NM_001039111		Approved	LIN41, LIN-41	uc003cff.3	Q2Q1W2	OTTHUMG00000155778	ENST00000383763.5:c.2145G>A	3.37:g.32932841G>A		Somatic		WXS	Illumina HiSeq			Silent	SNP	ENST00000383763.5	37	CCDS43060.1																																																																																				0.532	TRIM71-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341565.3	NM_001039111		A	32932841	G	A	32932841	2	1	574	1	0	0	0	0	0	0	0	1	16556	1335	47	2		2	TRIM71	3	32932841	Silent	SNP	G	TCGA-DZ-6131-01A-11D-1961-08	7162218	32932841	165089589	9	33956										
HTT	3064	hgsc.bcm.edu	37	chr4	3076696	3076696	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	ccgccgccgccgccgccgccTcctcagcttcctcagccgcc	9	25	2	0			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr4:3076696T>G	ENST00000355072.5	+	1	289	c.144T>G	c.(142-144)ccT>ccG	p.P48P	HTT-AS_ENST00000503893.1_RNA	NM_002111.6	NP_002102	P42858	HD_HUMAN	huntingtin	48	Poly-Pro.				anterior/posterior pattern specification (GO:0009952)|axon cargo transport (GO:0008088)|cell aging (GO:0007569)|citrulline metabolic process (GO:0000052)|determination of adult lifespan (GO:0008340)|dopamine receptor signaling pathway (GO:0007212)|endoplasmic reticulum organization (GO:0007029)|endosomal transport (GO:0016197)|ER to Golgi vesicle-mediated transport (GO:0006888)|establishment of mitotic spindle orientation (GO:0000132)|Golgi organization (GO:0007030)|grooming behavior (GO:0007625)|hormone metabolic process (GO:0042445)|insulin secretion (GO:0030073)|iron ion homeostasis (GO:0055072)|L-glutamate import (GO:0051938)|lactate biosynthetic process from pyruvate (GO:0019244)|locomotory behavior (GO:0007626)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of neuron apoptotic process (GO:0043524)|neural plate formation (GO:0021990)|neuron apoptotic process (GO:0051402)|neuron development (GO:0048666)|olfactory lobe development (GO:0021988)|organ development (GO:0048513)|paraxial mesoderm formation (GO:0048341)|positive regulation of inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0031587)|protein import into nucleus (GO:0006606)|quinolinate biosynthetic process (GO:0019805)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane potential (GO:0051881)|regulation of protein phosphatase type 2A activity (GO:0034047)|regulation of synaptic plasticity (GO:0048167)|response to calcium ion (GO:0051592)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)|social behavior (GO:0035176)|spermatogenesis (GO:0007283)|striatum development (GO:0021756)|urea cycle (GO:0000050)|vesicle transport along microtubule (GO:0047496)|visual learning (GO:0008542)	autophagic vacuole (GO:0005776)|axon (GO:0030424)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|inclusion body (GO:0016234)|late endosome (GO:0005770)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|protein complex (GO:0043234)	beta-tubulin binding (GO:0048487)|diazepam binding (GO:0050809)|dynactin binding (GO:0034452)|dynein intermediate chain binding (GO:0045505)|identical protein binding (GO:0042802)|ion channel binding (GO:0044325)|p53 binding (GO:0002039)|transcription factor binding (GO:0008134)			breast(1)|cervix(2)|endometrium(14)|kidney(5)|large_intestine(23)|lung(28)|ovary(4)|prostate(2)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	87		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		cgccgccgcctcctcagcttc	0.771																																																0																																										SO:0001819	synonymous_variant	3064			L12392	CCDS43206.1	4p16.3	2014-09-17	2007-12-04	2007-12-04	ENSG00000197386	ENSG00000197386		"Endogenous ligands"	4851	protein-coding gene	gene with protein product		613004	"huntingtin (Huntington disease)"	HD		8458085	Standard	NM_002111		Approved	IT15	uc021xkv.1	P42858	OTTHUMG00000159916	ENST00000355072.5:c.144T>G	4.37:g.3076696T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UQB7	Silent	SNP	ENST00000355072.5	37	CCDS43206.1																																																																																				0.771	HTT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358234.2	NM_002111		G	3076696	T	G	3076696	2	3	574	1	0	0	0	0	0	0	0	1	7464	1538	54	5		5	HTT	4	3076696	Silent	SNP	T	TCGA-DZ-6131-01A-11D-1961-08		3076696	188077580	10	33957										
PTPN13	5783	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	87691259	87691259	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	tcatggtacccccaggaagtCatatctgctctcaggggaac	10	12	4	0			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr4:87691259C>T	ENST00000411767.2	+	30	4773	c.4710C>T	c.(4708-4710)gtC>gtT	p.V1570V	PTPN13_ENST00000316707.6_Silent_p.V1379V|PTPN13_ENST00000436978.1_Silent_p.V1575V|PTPN13_ENST00000511467.1_Silent_p.V1575V|PTPN13_ENST00000427191.2_Silent_p.V1551V			Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type 13 (APO-1/CD95 (Fas)-associated phosphatase)	1570	PDZ 3. {ECO:0000255|PROSITE- ProRule:PRU00143}.				peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)	cell body (GO:0044297)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|lamellipodium (GO:0030027)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	protein tyrosine phosphatase activity (GO:0004725)			NS(4)|breast(3)|central_nervous_system(1)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(12)|large_intestine(23)|lung(24)|ovary(4)|prostate(3)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(2)	93		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		CCCAGGAAGTCATATCTGCTC	0.443																																																0													71	70	70					4																	87691259		1883	4110	5993	SO:0001819	synonymous_variant	5783				CCDS47093.1, CCDS47094.1, CCDS47095.1, CCDS47096.1	4q21.3	2011-06-09			ENSG00000163629	ENSG00000163629		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Non-receptor"	9646	protein-coding gene	gene with protein product		600267				8287977	Standard	NM_006264		Approved	PTP1E, PTP-BAS, PTPL1, PTP-BL	uc003hpy.3	Q12923	OTTHUMG00000160968	ENST00000411767.2:c.4710C>T	4.37:g.87691259C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RTR0|Q15159|Q15263|Q15264|Q15265|Q15674|Q16826|Q8IWH7|Q9NYN9|Q9UDA8	Silent	SNP	ENST00000411767.2	37	CCDS47094.1																																																																																				0.443	PTPN13-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000363191.1			T	87691259	C	T	87691259	2	4	574	1	0	0	0	0	0	0	0	1	12793	813	29	2		2	PTPN13	4	87691259	Silent	SNP	C	TCGA-DZ-6131-01A-11D-1961-08	84614563	87691259	103463017	11	33958										
DAPP1	27071	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	100787246	100787246	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	caaagaccggagtagaagctGatgagtggatcaagatatta	12	5	1	5			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr4:100787246G>C	ENST00000512369.1	+	8	810	c.742G>C	c.(742-744)Gat>Cat	p.D248H	DAPP1_ENST00000296414.7_Missense_Mutation_p.D248H	NM_014395.2	NP_055210.2	Q9UN19	DAPP1_HUMAN	dual adaptor of phosphotyrosine and 3-phosphoinositides	248	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				protein dephosphorylation (GO:0006470)|signal transduction (GO:0007165)	cytosol (GO:0005829)|plasma membrane (GO:0005886)	phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)|phospholipid binding (GO:0005543)			endometrium(1)|kidney(1)|lung(4)	6				OV - Ovarian serous cystadenocarcinoma(123;7.04e-09)		AGTAGAAGCTGATGAGTGGAT	0.343																																																0													91	83	86					4																	100787246		1863	4100	5963	SO:0001583	missense	27071			AF186022	CCDS47112.1	4q25-q27	2013-02-14			ENSG00000070190	ENSG00000070190		"Pleckstrin homology (PH) domain containing", "SH2 domain containing"	16500	protein-coding gene	gene with protein product		605768				10432293	Standard	NM_014395		Approved	BAM32	uc003hvf.4	Q9UN19	OTTHUMG00000160974	ENST00000512369.1:c.742G>C	4.37:g.100787246G>C	ENSP00000423602:p.Asp248His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TCK5|Q9UHF2	Missense_Mutation	SNP	ENST00000512369.1	37	CCDS47112.1	.	.	.	.	.	.	.	.	.	.	G	26.8	4.773356	0.90108	.	.	ENSG00000070190	ENST00000296414;ENST00000512369	T;T	0.75589	-0.95;-0.95	6.07	6.07	0.98685	Pleckstrin homology-type (1);Pleckstrin homology domain (3);	0.000000	0.85682	D	0.000000	D	0.83362	0.5238	L	0.55834	1.745	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.68943	0.956;0.961	T	0.79329	-0.1848	10	0.31617	T	0.26	-8.6315	19.4308	0.94765	0.0:0.0:1.0:0.0	.	248;248	Q9UN19-2;Q9UN19	.;DAPP1_HUMAN	H	248	ENSP00000296414:D248H;ENSP00000423602:D248H	ENSP00000296414:D248H	D	+	1	0	DAPP1	101006269	1.000000	0.71417	0.996000	0.52242	0.998000	0.95712	8.197000	0.89727	2.885000	0.99019	0.655000	0.94253	GAT		0.343	DAPP1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000363215.1			C	100787246	G	C	100787246	3	2	574	1	0	0	0	0	1	0	0	0	4241	1290	45	4	772	4	DAPP1	4	100787246	Missense_Mutation	SNP	G	TCGA-DZ-6131-01A-11D-1961-08	13095987	100787246	90367030	12	33959										
LRBA	987	hgsc.bcm.edu	37	chr4	151231474	151231474	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	gatgacaaagcactgggaatGcacttgaatactttggtcta	10	7	1	2			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr4:151231474G>C	ENST00000357115.3	-	53	8032	c.7789C>G	c.(7789-7791)Cat>Gat	p.H2597D	LRBA_ENST00000535741.1_Missense_Mutation_p.H2586D|LRBA_ENST00000510413.1_Missense_Mutation_p.H2586D|LRBA_ENST00000503716.1_5'UTR	NM_006726.4	NP_006717.2	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and anchor containing	2597						cytoplasmic membrane-bounded vesicle (GO:0016023)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|lysosome (GO:0005764)|membrane (GO:0016020)|plasma membrane (GO:0005886)				breast(6)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(20)|lung(32)|ovary(4)|prostate(6)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	91	all_hematologic(180;0.151)					CACTGGGAATGCACTTGAATA	0.408																																																0													118	114	115					4																	151231474		2203	4300	6503	SO:0001583	missense	987			AF216648	CCDS3773.1, CCDS58928.1	4q13	2013-01-10		2001-10-05	ENSG00000198589	ENSG00000198589		"WD repeat domain containing"	1742	protein-coding gene	gene with protein product		606453		CDC4L		1505956, 11254716	Standard	NM_006726		Approved	BGL, LAB300, LBA	uc010ipj.3	P50851	OTTHUMG00000161443	ENST00000357115.3:c.7789C>G	4.37:g.151231474G>C	ENSP00000349629:p.His2597Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5J4|Q4W5L6|Q8NFQ0|Q9H2U3|Q9H2U4	Missense_Mutation	SNP	ENST00000357115.3	37	CCDS3773.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	14.74|14.74	2.624395|2.624395	0.46840|0.46840	.|.	.|.	ENSG00000198589|ENSG00000198589	ENST00000509835|ENST00000535741;ENST00000510413;ENST00000357115	.|T;T;T	.|0.70986	.|-0.53;-0.53;-0.53	4.88|4.88	4.88|4.88	0.63580|0.63580	.|WD40 repeat-like-containing domain (1);	.|0.402141	.|0.27581	.|N	.|0.018725	T|T	0.60637|0.60637	0.2284|0.2284	N|N	0.22421|0.22421	0.69|0.69	0.49915|0.49915	D|D	0.999837|0.999837	.|P;B;B;B	.|0.43231	.|0.801;0.321;0.007;0.061	.|B;B;B;B	.|0.40782	.|0.34;0.138;0.003;0.028	T|T	0.61917|0.61917	-0.6964|-0.6964	5|10	.|0.33141	.|T	.|0.24	.|.	18.4099|18.4099	0.90548|0.90548	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|2597;2586;2586;492	.|P50851;F5H1X8;P50851-2;Q68D03	.|LRBA_HUMAN;.;.;.	W|D	1238|2586;2586;2597	.|ENSP00000446299:H2586D;ENSP00000421552:H2586D;ENSP00000349629:H2597D	.|ENSP00000349629:H2597D	C|H	-|-	3|1	2|0	LRBA|LRBA	151450924|151450924	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.996000|0.996000	0.88848|0.88848	6.078000|6.078000	0.71282|0.71282	2.411000|2.411000	0.81874|0.81874	0.563000|0.563000	0.77884|0.77884	TGC|CAT		0.408	LRBA-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000364939.1			C	151231474	G	C	151231474	3	2	574	1	0	0	0	0	1	0	0	0	8938	1319	46	4	826	4	LRBA	4	151231474	Missense_Mutation	SNP	G	TCGA-DZ-6131-01A-11D-1961-08	50444228	151231474	39922802	13	33960										
GALNT7	51809	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	174225146	174225146	+	Splice_Site	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	caacgtgtttttccttcataGatatggcagtgtggtggcaa	11	7	1	1			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr4:174225146G>A	ENST00000265000.4	+	8	1349		c.e8-1			NM_017423.2	NP_059119.2	Q86SF2	GALT7_HUMAN	polypeptide N-acetylgalactosaminyltransferase 7						carbohydrate metabolic process (GO:0005975)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein O-linked glycosylation (GO:0006493)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			central_nervous_system(1)|kidney(3)|large_intestine(5)|liver(1)|lung(9)	19		Prostate(90;0.0132)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_hematologic(60;0.107)|all_neural(102;0.122)		all cancers(43;1.87e-18)|Epithelial(43;3.44e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-09)|STAD - Stomach adenocarcinoma(60;0.0019)|GBM - Glioblastoma multiforme(59;0.0119)|LUSC - Lung squamous cell carcinoma(193;0.0199)		TTCCTTCATAGATATGGCAGT	0.343																																																0													137	126	130					4																	174225146		2203	4300	6503	SO:0001630	splice_region_variant	51809			AJ002744	CCDS3815.1	4q31.1	2014-03-13	2014-03-13		ENSG00000109586	ENSG00000109586		"Glycosyltransferase family 2 domain containing"	4129	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 7"	605005	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 7 (GalNAc-T7)"			10544240	Standard	NM_017423		Approved	GALNAC-T7	uc003isz.4	Q86SF2	OTTHUMG00000160817	ENST00000265000.4:c.1267-1G>A	4.37:g.174225146G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KQU3|Q7Z5W7|Q9UJ28	Splice_Site	SNP	ENST00000265000.4	37	CCDS3815.1	.	.	.	.	.	.	.	.	.	.	G	17.14	3.313963	0.60414	.	.	ENSG00000109586	ENST00000265000;ENST00000505308;ENST00000458613	.	.	.	5.75	5.75	0.90469	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	19.9439	0.97175	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	GALNT7	174461721	1.000000	0.71417	0.997000	0.53966	0.593000	0.36681	9.476000	0.97823	2.706000	0.92434	0.561000	0.74099	.		0.343	GALNT7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362456.2	NM_017423	Intron	A	174225146	G	A	174225146	5	1	574	1	0	0	0	0	0	0	1	0	6225	956	33	2	1296	2	GALNT7	4	174225146	Splice_Site	SNP	G	TCGA-DZ-6131-01A-11D-1961-08	22993672	174225146	16929130	14	33961										
ARSK	153642	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	94922371	94922371	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	actgcactggaagatttacaAaaaaagaaattaagaatatt	6	4	0	3	rs201849642		TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr5:94922371A>G	ENST00000380009.4	+	5	1010	c.805A>G	c.(805-807)Aaa>Gaa	p.K269E		NM_198150.2	NP_937793.1	Q6UWY0	ARSK_HUMAN	arylsulfatase family, member K	269					cellular protein metabolic process (GO:0044267)|glycosphingolipid metabolic process (GO:0006687)|post-translational protein modification (GO:0043687)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	arylsulfatase activity (GO:0004065)|metal ion binding (GO:0046872)			endometrium(2)|kidney(1)|large_intestine(3)|lung(8)|pancreas(1)|skin(1)	16		all_cancers(142;3.38e-06)|all_epithelial(76;6.57e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.00473)		all cancers(79;6.5e-16)		AAGATTTACAAAAAAAGAAAT	0.338																																																0													61	65	64					5																	94922371		2201	4297	6498	SO:0001583	missense	153642				CCDS4073.1	5q15	2013-02-14	2006-03-07		ENSG00000164291	ENSG00000164291		"Arylsulfatase family"	25239	protein-coding gene	gene with protein product		610011	"arylsulfatase K"			12975309, 16174644	Standard	NM_198150		Approved	DKFZp313G1735, TSULF	uc003kld.3	Q6UWY0	OTTHUMG00000121166	ENST00000380009.4:c.805A>G	5.37:g.94922371A>G	ENSP00000369346:p.Lys269Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A2BDE3|B4E1I4|Q3ZCW3|Q8N3Q8	Missense_Mutation	SNP	ENST00000380009.4	37	CCDS4073.1	.	.	.	.	.	.	.	.	.	.	A	3.355	-0.131627	0.06753	.	.	ENSG00000164291	ENST00000380009	D	0.99891	-7.56	5.93	-1.94	0.07571	Alkaline phosphatase-like, alpha/beta/alpha (1);Sulfatase (1);Alkaline-phosphatase-like, core domain (1);	0.568944	0.20517	N	0.090774	D	0.97851	0.9294	N	0.03016	-0.435	0.30818	N	0.738095	B	0.06786	0.001	B	0.06405	0.002	D	0.99988	1.3720	10	0.02654	T	1	-0.6336	8.1825	0.31319	0.5545:0.1084:0.3371:0.0	.	269	Q6UWY0	ARSK_HUMAN	E	269	ENSP00000369346:K269E	ENSP00000369346:K269E	K	+	1	0	ARSK	94948127	0.982000	0.34865	0.741000	0.31004	0.871000	0.50021	0.596000	0.24044	-0.248000	0.09583	-0.132000	0.14878	AAA		0.338	ARSK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241652.2	NM_198150		G	94922371	A	G	94922371	3	3	574	1	0	0	0	0	1	0	0	0	996	15	1	3	823	3	ARSK	5	94922371	Missense_Mutation	SNP	A	TCGA-DZ-6131-01A-11D-1961-08		94922371	85992889	15	33962										
C1QTNF2	114898	broad.mit.edu;bcgsc.ca	37	chr5	159781881	159781881	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	ggccctggggctcctgggggGccgggtgggccctgggggcc	23	13	0	0			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr5:159781881G>A	ENST00000393975.3	-	2	276	c.273C>T	c.(271-273)ggC>ggT	p.G91G		NM_031908.4	NP_114114.2	Q9BXJ5	C1QT2_HUMAN	C1q and tumor necrosis factor related protein 2	46	Collagen-like.				activation of MAPK activity (GO:0000187)|positive regulation of fatty acid oxidation (GO:0046321)|positive regulation of glucose import (GO:0046326)|positive regulation of glycogen biosynthetic process (GO:0045725)|protein heterotrimerization (GO:0070208)|protein homooligomerization (GO:0051260)	collagen trimer (GO:0005581)|extracellular space (GO:0005615)				breast(2)|endometrium(2)|large_intestine(1)|lung(4)|prostate(1)|skin(3)	13	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)			CTCCTGGGGGGCCGGGTGGGC	0.682																																																0													11	13	12					5																	159781881		2195	4292	6487	SO:0001819	synonymous_variant	114898			AF329836	CCDS4351.2	5q33.3	2008-05-15			ENSG00000145861	ENSG00000145861			14325	protein-coding gene	gene with protein product							Standard	XM_005265815		Approved	CTRP2	uc003lyd.3	Q9BXJ5	OTTHUMG00000130323	ENST00000393975.3:c.273C>T	5.37:g.159781881G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000393975.3	37	CCDS4351.2																																																																																				0.682	C1QTNF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252672.2			A	159781881	G	A	159781881	2	1	574	1	0	0	0	0	0	0	0	1	1965	1190	42	2		2	C1QTNF2	5	159781881	Silent	SNP	G	TCGA-DZ-6131-01A-11D-1961-08	64859510	159781881	21133379	16	33963										
DNAH11	8701	ucsc.edu	37	chr7	21856097	21856097	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	ttttaaaggtttccattccaCtaaccgaaggcctggacttg	8	10	0	0			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr7:21856097C>A	ENST00000409508.3	+	64	10376	c.10345C>A	c.(10345-10347)Cta>Ata	p.L3449I	DNAH11_ENST00000328843.6_Missense_Mutation_p.L3456I	NM_001277115.1	NP_001264044.1	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3456					microtubule-based movement (GO:0007018)	cilium (GO:0005929)|cytoplasm (GO:0005737)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(1)|autonomic_ganglia(1)|breast(13)|central_nervous_system(3)|cervix(4)|endometrium(18)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(50)|lung(101)|ovary(10)|pancreas(4)|prostate(7)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	230						TTCCATTCCACTAACCGAAGG	0.433									Kartagener syndrome																																							0													66	59	61					7																	21856097		1939	4139	6078	SO:0001583	missense	8701	Familial Cancer Database	Ciliary Dyskinesia, Primary (CILD1 - CILD13), Immotile Cilia Syndrome	U83569	CCDS64602.1	7p21	2008-07-18	2006-09-04					"Axonemal dyneins"	2942	protein-coding gene	gene with protein product	"dynein, ciliary, heavy chain 11", "dynein, heavy chain beta-like"	603339	"dynein, axonemal, heavy polypeptide 11"			9256245	Standard	NM_001277115		Approved	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL	uc031swp.1	Q96DT5		ENST00000409508.3:c.10345C>A	7.37:g.21856097C>A	ENSP00000475939:p.Leu3449Ile	Somatic		WXS	Illumina HiSeq		Q9UJ82	Missense_Mutation	SNP	ENST00000409508.3	37		.	.	.	.	.	.	.	.	.	.	c	0.004	-2.378914	0.00205	.	.	ENSG00000105877	ENST00000328843	T	0.22743	1.94	5.82	2.24	0.28232	.	0.222391	0.51477	N	0.000081	T	0.07098	0.0180	.	.	.	0.20873	N	0.999838	B	0.06786	0.001	B	0.09377	0.004	T	0.41484	-0.9506	9	0.02654	T	1	.	6.6285	0.22843	0.6613:0.1306:0.2081:0.0	.	3456	Q96DT5	DYH11_HUMAN	I	3456	ENSP00000330671:L3456I	ENSP00000330671:L3456I	L	+	1	2	DNAH11	21822622	0.078000	0.21339	0.358000	0.25811	0.085000	0.17905	0.612000	0.24283	0.153000	0.19213	-1.494000	0.00967	CTA		0.433	DNAH11-001	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000326582.6	NM_003777		A	21856097	C	A	21856097	3	1	574	1	0	0	0	0	1	0	0	0	4601	564	20	4	10621	4	DNAH11	7	21856097	Missense_Mutation	SNP	C	TCGA-DZ-6131-01A-11D-1961-08		21856097	137282566	17	33964										
DOCK4	9732	broad.mit.edu;bcgsc.ca	37	chr7	111368620	111368620	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	cggcaggggggccgactgttCattcacctgattttcaaagc	12	11	3	1			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr7:111368620C>T	ENST00000437633.1	-	52	5867	c.5611G>A	c.(5611-5613)Gaa>Aaa	p.E1871K	DOCK4_ENST00000494651.2_Missense_Mutation_p.E754K|DOCK4_ENST00000428084.1_Missense_Mutation_p.E1880K	NM_014705.3	NP_055520.3	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1871					cell chemotaxis (GO:0060326)|positive regulation of Rac GTPase activity (GO:0032855)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)|stereocilium (GO:0032420)|stereocilium bundle (GO:0032421)	guanyl-nucleotide exchange factor activity (GO:0005085)|PDZ domain binding (GO:0030165)|Rac GTPase activator activity (GO:0030675)|Rac GTPase binding (GO:0048365)|receptor tyrosine kinase binding (GO:0030971)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(13)|lung(31)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(4)	72		Acute lymphoblastic leukemia(1;0.0441)				GCCGACTGTTCATTCACCTGA	0.632																																																0													45	52	49					7																	111368620		2078	4208	6286	SO:0001583	missense	9732				CCDS47688.1	7q31.1	2007-08-07			ENSG00000128512	ENSG00000128512			19192	protein-coding gene	gene with protein product		607679				12432077, 12628187	Standard	XM_006716188		Approved	FLJ34238, KIAA0716	uc003vfx.3	Q8N1I0	OTTHUMG00000155077	ENST00000437633.1:c.5611G>A	7.37:g.111368620C>T	ENSP00000404179:p.Glu1871Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O14584|O94824|Q8NB45	Missense_Mutation	SNP	ENST00000437633.1	37	CCDS47688.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	17.39|17.39	3.377179|3.377179	0.61735|0.61735	.|.	.|.	ENSG00000128512|ENSG00000128512	ENST00000352877;ENST00000428084;ENST00000494651;ENST00000437633;ENST00000342288|ENST00000423057;ENST00000445943	T;T;T|.	0.36520|.	1.25;1.25;1.25|.	5.59|5.59	5.59|5.59	0.84812|0.84812	.|.	0.164526|.	0.53938|.	D|.	0.000047|.	T|T	0.69602|0.69602	0.3129|0.3129	L|L	0.46157|0.46157	1.445|1.445	0.53688|0.53688	D|D	0.999979|0.999979	B;B;B;B;B;P|.	0.35272|.	0.034;0.136;0.039;0.319;0.135;0.493|.	B;B;B;B;B;B|.	0.27380|.	0.016;0.033;0.018;0.034;0.037;0.079|.	T|T	0.64757|0.64757	-0.6332|-0.6332	10|5	0.27785|.	T|.	0.31|.	.|.	19.5919|19.5919	0.95518|0.95518	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	740;754;1916;1871;1842;184|.	B7Z2K9;F5GXW1;Q149N5;Q8N1I0;Q8N1I0-2;Q8N1I0-4|.	.;.;.;DOCK4_HUMAN;.;.|.	K|I	1859;1880;754;1871;1830|1293;1903	ENSP00000410746:E1880K;ENSP00000440944:E754K;ENSP00000404179:E1871K|.	ENSP00000345432:E1830K|.	E|M	-|-	1|3	0|0	DOCK4|DOCK4	111155856|111155856	1.000000|1.000000	0.71417|0.71417	0.077000|0.077000	0.20336|0.20336	0.479000|0.479000	0.33129|0.33129	6.966000|6.966000	0.76073|0.76073	2.640000|2.640000	0.89533|0.89533	0.655000|0.655000	0.94253|0.94253	GAA|ATG		0.632	DOCK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338369.4	NM_014705		T	111368620	C	T	111368620	3	4	574	1	0	0	0	0	1	0	0	0	4691	835	29	2	293	2	DOCK4	7	111368620	Missense_Mutation	SNP	C	TCGA-DZ-6131-01A-11D-1961-08	89512523	111368620	47770043	18	33965										
TEX15	56154	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	30694449	30694449	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	ttagaagcaggtatttgagaTtgaaaatacccattcactgg	9	6	1	3			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr8:30694449T>C	ENST00000256246.2	-	3	8276	c.8202A>G	c.(8200-8202)caA>caG	p.Q2734Q		NM_031271.3	NP_112561.2	Q9BXT5	TEX15_HUMAN	testis expressed 15	2734					fertilization (GO:0009566)|homeostasis of number of cells within a tissue (GO:0048873)|male genitalia development (GO:0030539)|male meiosis (GO:0007140)|protein localization to chromosome (GO:0034502)|regulation of double-strand break repair via homologous recombination (GO:0010569)|regulation of protein localization (GO:0032880)|spermatogenesis (GO:0007283)|synaptonemal complex assembly (GO:0007130)					NS(2)|breast(3)|cervix(5)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(38)|lung(56)|ovary(5)|pancreas(1)|prostate(2)|skin(7)|upper_aerodigestive_tract(5)|urinary_tract(1)	138				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		GTATTTGAGATTGAAAATACC	0.408																																																0													97	100	99					8																	30694449		2203	4300	6503	SO:0001819	synonymous_variant	56154			AF285605	CCDS6080.1	8p22	2009-03-25	2007-03-13			ENSG00000133863			11738	protein-coding gene	gene with protein product	"cancer/testis antigen 42"	605795	"testis expressed sequence 15"			11279525	Standard	NM_031271		Approved	CT42	uc003xil.3	Q9BXT5		ENST00000256246.2:c.8202A>G	8.37:g.30694449T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000256246.2	37	CCDS6080.1																																																																																				0.408	TEX15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376193.1			C	30694449	T	C	30694449	2	2	574	1	0	0	0	0	0	0	0	1	15791	1490	52	3		3	TEX15	8	30694449	Silent	SNP	T	TCGA-DZ-6131-01A-11D-1961-08		30694449	115669573	19	33966										
ZFAT	57623	broad.mit.edu	37	chr8	135524765	135524765	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	ggagcgcggccaccgctgccTgtgtcccttgaacgtcttct	12	15	2	1			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr8:135524765T>C	ENST00000377838.3	-	14	3488	c.3314A>G	c.(3313-3315)cAg>cGg	p.Q1105R	ZFAT_ENST00000520727.1_Missense_Mutation_p.Q1093R|ZFAT_ENST00000429442.2_Missense_Mutation_p.Q1093R|ZFAT_ENST00000520356.1_Intron|ZFAT_ENST00000520214.1_Missense_Mutation_p.Q1093R|ZFAT_ENST00000523399.1_Missense_Mutation_p.Q1043R|ZFAT_ENST00000517307.1_5'Flank	NM_001174157.1|NM_020863.3	NP_001167628.1|NP_065914.2	Q9P243	ZFAT_HUMAN	zinc finger and AT hook domain containing	1105					hematopoietic progenitor cell differentiation (GO:0002244)|spongiotrophoblast layer development (GO:0060712)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(10)|kidney(9)|large_intestine(8)|lung(16)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	54	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)			CACCGCTGCCTGTGTCCCTTG	0.532																																																0													164	175	171					8																	135524765		2020	4178	6198	SO:0001583	missense	57623			BC025423	CCDS43768.1, CCDS47924.1, CCDS43768.2, CCDS55275.1, CCDS55276.1	8q24.23	2008-06-05	2008-01-25	2008-01-25	ENSG00000066827	ENSG00000066827		"Zinc fingers, C2H2-type"	19899	protein-coding gene	gene with protein product		610931	"zinc finger protein 406"	ZNF406, ZFAT1		10819331, 18329245	Standard	NM_020863		Approved	KIAA1485	uc003yup.3	Q9P243	OTTHUMG00000164321	ENST00000377838.3:c.3314A>G	8.37:g.135524765T>C	ENSP00000367069:p.Gln1105Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZL15|E9PER3|Q3MIM5|Q6PJ01|Q75PJ6|Q75PJ7|Q75PJ9|Q86X64	Missense_Mutation	SNP	ENST00000377838.3	37	CCDS47924.1	.	.	.	.	.	.	.	.	.	.	T	13.97	2.397232	0.42512	.	.	ENSG00000066827	ENST00000520727;ENST00000429442;ENST00000377838;ENST00000520214;ENST00000318135;ENST00000523399	T;T;T;T;T	0.10382	2.93;2.88;2.93;2.93;2.95	4.8	4.8	0.61643	.	0.058678	0.64402	D	0.000002	T	0.09730	0.0239	N	0.24115	0.695	0.34214	D	0.674611	P;P;P	0.49090	0.919;0.842;0.842	B;B;B	0.42692	0.395;0.321;0.236	T	0.14980	-1.0453	10	0.62326	D	0.03	-31.9885	13.9728	0.64252	0.0:0.0:0.0:1.0	.	224;1043;1105	B7Z741;E9PER3;Q9P243	.;.;ZFAT_HUMAN	R	1093;1093;1105;1093;992;1043	ENSP00000427831:Q1093R;ENSP00000394501:Q1093R;ENSP00000367069:Q1105R;ENSP00000428483:Q1093R;ENSP00000429091:Q1043R	ENSP00000326997:Q992R	Q	-	2	0	ZFAT	135593947	1.000000	0.71417	0.997000	0.53966	0.181000	0.23173	5.978000	0.70501	2.140000	0.66376	0.460000	0.39030	CAG		0.532	ZFAT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378272.1	NM_001029939		C	135524765	T	C	135524765	3	2	574	1	0	0	0	0	1	0	0	0	17644	1580	55	3	429	3	ZFAT	8	135524765	Missense_Mutation	SNP	T	TCGA-DZ-6131-01A-11D-1961-08	104830316	135524765	10839257	20	33967										
C9orf84	158401	hgsc.bcm.edu;broad.mit.edu	37	chr9	114454268	114454270	+	In_Frame_Del	DEL	CTC	CTC	-													0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	aaccttttgcttcatgtgttCtccttttctgagaatttata							TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr9:114454268_114454270delCTC	ENST00000318737.4	-	25	3923_3925	c.3795_3797delGAG	c.(3793-3798)aggaga>aga	p.1265_1266RR>R	C9orf84_ENST00000394777.4_In_Frame_Del_p.1191_1192RR>R|C9orf84_ENST00000374287.3_In_Frame_Del_p.1265_1266RR>R|C9orf84_ENST00000394779.3_In_Frame_Del_p.1226_1227RR>R	NM_173521.3	NP_775792.3	Q5VXU9	CI084_HUMAN	chromosome 9 open reading frame 84	1265										breast(1)|cervix(1)|endometrium(3)|kidney(7)|large_intestine(10)|liver(1)|lung(7)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	35						TTCATGTGTTCTCCTTTTCTGAG	0.369																																																0																																										SO:0001651	inframe_deletion	158401			AL833535	CCDS6781.3, CCDS43863.1	9q32	2012-03-16			ENSG00000165181	ENSG00000165181			26535	protein-coding gene	gene with protein product							Standard	XM_005251738		Approved	FLJ32779	uc004bfr.3	Q5VXU9	OTTHUMG00000020495	ENST00000318737.4:c.3795_3797delGAG	9.37:g.114454268_114454270delCTC	ENSP00000322108:p.Arg1266del	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2V3|Q2M1H8|Q96M73	In_Frame_Del	DEL	ENST00000318737.4	37	CCDS6781.3																																																																																				0.369	C9orf84-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000053656.2	NM_173521		-	114454270	CTC	-	114454268	7	5	574	1	0	1	0	1	0	0	0	0	2502	913	32	0	545	0	C9orf84	9	114454268	In_Frame_Del	DEL	CTC	TCGA-DZ-6131-01A-11D-1961-08		114454268	26759163	21	33968										
WDR37	22884	bcgsc.ca	37	chr10	1170912	1170915	+	Frame_Shift_Del	DEL	TGTT	TGTT	-													0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	tgacaaccgacaagtgagacTgtttgatatgtcaggagtgc							TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	TGTT	TGTT	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr10:1170912_1170915delTGTT	ENST00000358220.1	+	13	1445_1448	c.1301_1304delTGTT	c.(1300-1305)ctgtttfs	p.LF434fs	WDR37_ENST00000482165.1_3'UTR|WDR37_ENST00000263150.4_Frame_Shift_Del_p.LF434fs			Q9Y2I8	WDR37_HUMAN	WD repeat domain 37	434										breast(2)|endometrium(2)|kidney(1)|lung(9)|prostate(2)|skin(1)	17		all_epithelial(10;0.0449)|Colorectal(49;0.142)		Epithelial(11;0.134)		CAAGTGAGACTGTTTGATATGTCA	0.539																																																0																																										SO:0001589	frameshift_variant	22884			AB023199	CCDS7057.1	10p15.3	2013-01-09			ENSG00000047056	ENSG00000047056		"WD repeat domain containing"	31406	protein-coding gene	gene with protein product						10231032, 11230166	Standard	NM_014023		Approved	KIAA0982	uc001igf.1	Q9Y2I8	OTTHUMG00000017540	ENST00000358220.1:c.1301_1304delTGTT	10.37:g.1170912_1170915delTGTT	ENSP00000350954:p.Leu434fs	Somatic		WXS	Illumina HiSeq	Phase_1	A8K976|D3DRQ7|Q5SW03|Q8WVG2|Q9NTJ6	Frame_Shift_Del	DEL	ENST00000358220.1	37	CCDS7057.1																																																																																				0.539	WDR37-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046418.1	NM_014023		-	1170915	TGTT	-	1170912	7	5	574	1	0	1	0	1	0	0	0	0	17303	1580	55	0	1347	0	WDR37	10	1170912	Frame_Shift_Del	DEL	TGTT	TCGA-DZ-6131-01A-11D-1961-08		1170912	134363835	22	33969										
MUC2	4583	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	1099777	1099777	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	ttcctaggctgtgtgggaccTgacaatgtgcccagagaggt	14	9	0	2			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr11:1099777T>C	ENST00000441003.2	+	40	7401	c.7374T>C	c.(7372-7374)ccT>ccC	p.P2458P		NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	4820					cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	GTGTGGGACCTGACAATGTGC	0.572																																																0													140	152	148					11																	1099777		2080	4206	6286	SO:0001819	synonymous_variant	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.7374T>C	11.37:g.1099777T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Silent	SNP	ENST00000441003.2	37																																																																																					0.572	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		C	1099777	T	C	1099777	2	2	574	1	0	0	0	0	0	0	0	1	9982	1567	55	3		3	MUC2	11	1099777	Silent	SNP	T	TCGA-DZ-6131-01A-11D-1961-08		1099777	133906739	23	33970										
A2ML1	144568	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	9000291	9000291	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	gacagagagctgagcaaccgCtctgtgagtaactgtctgct	12	10	2	3			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr12:9000291C>T	ENST00000299698.7	+	15	2010	c.1830C>T	c.(1828-1830)cgC>cgT	p.R610R	A2ML1_ENST00000539547.1_Silent_p.R119R|A2ML1_ENST00000540049.1_3'UTR	NM_001282424.1|NM_144670.4	NP_001269353.1|NP_653271			alpha-2-macroglobulin-like 1											NS(2)|breast(5)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(18)|liver(2)|lung(36)|ovary(2)|skin(4)|stomach(1)|urinary_tract(1)	80						TGAGCAACCGCTCTGTGAGTA	0.557																																																0													78	77	78					12																	9000291		1955	4145	6100	SO:0001819	synonymous_variant	144568			AK057908	CCDS8596.2, CCDS73439.1	12p13	2010-12-14	2005-09-01	2005-09-01	ENSG00000166535	ENSG00000166535			23336	protein-coding gene	gene with protein product		610627	"C3 and PZP-like, alpha-2-macroglobulin domain containing 9"	CPAMD9		16298998	Standard	NM_144670		Approved	FLJ25179	uc001quz.5	A8K2U0	OTTHUMG00000128499	ENST00000299698.7:c.1830C>T	12.37:g.9000291C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000299698.7	37	CCDS8596.2																																																																																				0.557	A2ML1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250304.3	NM_144670		T	9000291	C	T	9000291	2	4	574	1	0	0	0	0	0	0	0	1	5	784	28	2		2	A2ML1	12	9000291	Silent	SNP	C	TCGA-DZ-6131-01A-11D-1961-08		9000291	124851604	24	33971										
TMEM5	10329	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	64174892	64174892	+	Nonsense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	taaaactagccttcaaatatTagataaatccacgaaaggaa	5	7	1	1			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr12:64174892T>G	ENST00000261234.6	+	2	421	c.263T>G	c.(262-264)tTa>tGa	p.L88*	TMEM5_ENST00000537373.1_5'UTR|RP11-415I12.3_ENST00000509615.2_RNA|TMEM5_ENST00000537982.1_3'UTR	NM_014254.1	NP_055069.1	Q9Y2B1	TMEM5_HUMAN	transmembrane protein 5	88						integral component of plasma membrane (GO:0005887)				breast(1)|large_intestine(3)|liver(2)|lung(7)|prostate(1)|skin(1)	15		Myeloproliferative disorder(1001;0.0255)	BRCA - Breast invasive adenocarcinoma(9;0.0985)	GBM - Glioblastoma multiforme(28;9e-08)|BRCA - Breast invasive adenocarcinoma(357;0.000175)		CTTCAAATATTAGATAAATCC	0.363																																																0													82	89	86					12																	64174892		2203	4300	6503	SO:0001587	stop_gained	10329			AB015633	CCDS8966.1, CCDS61179.1	12q14.1	2013-05-07			ENSG00000118600	ENSG00000118600			13530	protein-coding gene	gene with protein product		605862				10072769, 23217329	Standard	NM_014254		Approved	HP10481	uc001srq.2	Q9Y2B1	OTTHUMG00000168730	ENST00000261234.6:c.263T>G	12.37:g.64174892T>G	ENSP00000261234:p.Leu88*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K017|Q6PKD6	Nonsense_Mutation	SNP	ENST00000261234.6	37	CCDS8966.1	.	.	.	.	.	.	.	.	.	.	T	20.8	4.051948	0.75960	.	.	ENSG00000118600	ENST00000261234	.	.	.	4.34	4.34	0.51931	.	0.447903	0.20965	N	0.082490	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-1.428	10.4561	0.44550	0.0:0.0:0.0:1.0	.	.	.	.	X	88	.	.	L	+	2	0	TMEM5	62461159	0.996000	0.38824	0.945000	0.38365	0.457000	0.32468	4.615000	0.61190	1.897000	0.54924	0.402000	0.26972	TTA		0.363	TMEM5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400821.1	NM_014254		G	64174892	T	G	64174892	4	3	574	1	0	0	0	0	0	1	0	0	16186	1764	61	5	269	5	TMEM5	12	64174892	Nonsense_Mutation	SNP	T	TCGA-DZ-6131-01A-11D-1961-08	55174601	64174892	69677003	25	33972										
PPP1R12A	4659	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	80203769	80203769	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	ctcttcttctttgggagaaaTttttgtagctgtggttggaa	11	5	3	1			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr12:80203769T>G	ENST00000450142.2	-	10	1527	c.1261A>C	c.(1261-1263)Att>Ctt	p.I421L	PPP1R12A_ENST00000437004.2_Missense_Mutation_p.I421L|PPP1R12A_ENST00000550107.1_Missense_Mutation_p.I421L|PPP1R12A_ENST00000546369.1_Missense_Mutation_p.I334L|PPP1R12A_ENST00000261207.5_Missense_Mutation_p.I421L	NM_002480.2	NP_002471.1	O14974	MYPT1_HUMAN	protein phosphatase 1, regulatory subunit 12A	421					centrosome organization (GO:0051297)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of catalytic activity (GO:0043086)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein dephosphorylation (GO:0006470)|regulation of cell adhesion (GO:0030155)|regulation of myosin-light-chain-phosphatase activity (GO:0035507)|regulation of nucleocytoplasmic transport (GO:0046822)|signal transduction (GO:0007165)	actin cytoskeleton (GO:0015629)|centrosome (GO:0005813)|contractile fiber (GO:0043292)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|kinetochore (GO:0000776)|nucleoplasm (GO:0005654)|PTW/PP1 phosphatase complex (GO:0072357)	14-3-3 protein binding (GO:0071889)|enzyme inhibitor activity (GO:0004857)|phosphatase regulator activity (GO:0019208)|protein kinase binding (GO:0019901)|signal transducer activity (GO:0004871)			breast(5)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(7)|liver(1)|lung(4)|ovary(2)|skin(1)	29						TTGGGAGAAATTTTTGTAGCT	0.363																																																0													86	76	79					12																	80203769		1802	4069	5871	SO:0001583	missense	4659			D87930	CCDS44947.1, CCDS44948.1, CCDS58259.1, CCDS58260.1	12q15-q21	2013-01-18	2011-10-04	2001-08-10	ENSG00000058272	ENSG00000058272		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits", "Ankyrin repeat domain containing"	7618	protein-coding gene	gene with protein product	"myosin phosphatase-targeting subunit 1", "myosin binding subunit"	602021	"protein phosphatase 1, regulatory (inhibitor) subunit 12A"	MYPT1		9286714	Standard	NM_002480		Approved	MBS, M130	uc001syz.3	O14974	OTTHUMG00000170100	ENST00000450142.2:c.1261A>C	12.37:g.80203769T>G	ENSP00000389168:p.Ile421Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ09|F8VWB4|Q2NKL4|Q569H0|Q86WU3|Q8NFR6|Q9BYH0	Missense_Mutation	SNP	ENST00000450142.2	37	CCDS44947.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	2.128|2.128	-0.399892|-0.399892	0.04865|0.04865	.|.	.|.	ENSG00000058272|ENSG00000058272	ENST00000261207;ENST00000546189;ENST00000360825;ENST00000341878;ENST00000312727;ENST00000450142;ENST00000437004;ENST00000546369;ENST00000550107;ENST00000547330;ENST00000547131|ENST00000553081	T;T;T;T;T;T;T|T	0.39997|0.34667	1.43;1.43;1.45;1.49;1.44;1.44;1.05|1.35	5.86|5.86	0.0418|0.0418	0.14214|0.14214	.|.	0.725412|.	0.14249|.	N|.	0.331574|.	T|T	0.18045|0.18045	0.0433|0.0433	N|N	0.03608|0.03608	-0.345|-0.345	0.26994|0.26994	N|N	0.965072|0.965072	B;B;B;B|.	0.24823|.	0.112;0.002;0.0;0.0|.	B;B;B;B|.	0.20384|.	0.029;0.001;0.0;0.0|.	T|T	0.26224|0.26224	-1.0109|-1.0109	10|7	0.08381|0.54805	T|T	0.77|0.06	.|.	9.6186|9.6186	0.39708|0.39708	0.0:0.558:0.0:0.442|0.0:0.558:0.0:0.442	.|.	421;421;421;421|.	F8W8Q6;O14974-2;O14974-3;O14974|.	.;.;.;MYPT1_HUMAN|.	L|N	421;421;421;421;421;421;421;334;421;421;116|24	ENSP00000261207:I421L;ENSP00000389168:I421L;ENSP00000416769:I421L;ENSP00000449514:I334L;ENSP00000446855:I421L;ENSP00000446816:I421L;ENSP00000450061:I116L|ENSP00000447144:K24N	ENSP00000261207:I421L|ENSP00000447144:K24N	I|K	-|-	1|3	0|2	PPP1R12A|PPP1R12A	78727900|78727900	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.852000|0.852000	0.48524|0.48524	0.848000|0.848000	0.27710|0.27710	0.016000|0.016000	0.14998|0.14998	0.467000|0.467000	0.42956|0.42956	ATT|AAA		0.363	PPP1R12A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407254.2	NM_002480		G	80203769	T	G	80203769	3	3	574	1	0	0	0	0	1	0	0	0	12364	1493	52	5	1895	5	PPP1R12A	12	80203769	Missense_Mutation	SNP	T	TCGA-DZ-6131-01A-11D-1961-08	16028877	80203769	53648126	26	33973										
P2RX7	5027	hgsc.bcm.edu	37	chr12	121622232	121622232	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	ggcgactcctagatccagggAtagccccgtctggtgccagt	13	13	1	1			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr12:121622232A>G	ENST00000546057.1	+	13	1558	c.1415A>G	c.(1414-1416)gAt>gGt	p.D472G	P2RX7_ENST00000328963.5_Missense_Mutation_p.D302G|P2RX7_ENST00000443520.3_3'UTR|P2RX7_ENST00000535250.1_Missense_Mutation_p.D382G|P2RX7_ENST00000541446.1_Missense_Mutation_p.D183G	NM_002562.5	NP_002553	Q99572	P2RX7_HUMAN	purinergic receptor P2X, ligand-gated ion channel, 7	472					apoptotic signaling pathway (GO:0097190)|bleb assembly (GO:0032060)|cation transmembrane transport (GO:0098655)|cation transport (GO:0006812)|cell surface receptor signaling pathway (GO:0007166)|innate immune response (GO:0045087)|membrane depolarization (GO:0051899)|negative regulation of bone resorption (GO:0045779)|negative regulation of MAPK cascade (GO:0043409)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|pore complex assembly (GO:0046931)|positive regulation of bone mineralization (GO:0030501)|positive regulation of calcium ion transport into cytosol (GO:0010524)|positive regulation of cytolysis (GO:0045919)|positive regulation of cytoskeleton organization (GO:0051495)|positive regulation of interleukin-1 beta secretion (GO:0050718)|purinergic nucleotide receptor signaling pathway (GO:0035590)|regulation of killing of cells of other organism (GO:0051709)|regulation of sodium ion transport (GO:0002028)|response to ATP (GO:0033198)|sensory perception of pain (GO:0019233)	bleb (GO:0032059)|cytoplasm (GO:0005737)|integral component of nuclear inner membrane (GO:0005639)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|extracellular ATP-gated cation channel activity (GO:0004931)|lipopolysaccharide binding (GO:0001530)|protein homodimerization activity (GO:0042803)|purinergic nucleotide receptor activity (GO:0001614)|receptor binding (GO:0005102)			NS(1)|breast(1)|endometrium(1)|large_intestine(5)|lung(9)|skin(1)|stomach(1)	19	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					AGATCCAGGGATAGCCCCGTC	0.617																																																0													67	63	64					12																	121622232		2203	4300	6503	SO:0001583	missense	5027			Y09561	CCDS9213.1	12q24	2012-01-17			ENSG00000089041	ENSG00000089041		"Purinergic receptors", "Ligand-gated ion channels / Purinergic receptors, ionotropic"	8537	protein-coding gene	gene with protein product		602566				9038151, 9826911	Standard	NM_002562		Approved	P2X7, MGC20089	uc001tzm.3	Q99572	OTTHUMG00000169153	ENST00000546057.1:c.1415A>G	12.37:g.121622232A>G	ENSP00000442349:p.Asp472Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2Z0|E7EMK6|F5H6P2|F5H7E8|F8W951|O14991|Q4VKH8|Q4VKH9|Q4VKI0|Q4VKI1|Q4VKI2|Q4VKI3|Q4VKI4|Q7Z771|Q96EV7	Missense_Mutation	SNP	ENST00000546057.1	37	CCDS9213.1	.	.	.	.	.	.	.	.	.	.	A	15.06	2.721694	0.48728	.	.	ENSG00000089041	ENST00000546057;ENST00000328963;ENST00000535250;ENST00000541446	T;T;T;T	0.05081	4.39;4.01;4.18;3.5	5.21	-0.0551	0.13811	.	1.055260	0.07477	N	0.903142	T	0.06188	0.0160	L	0.44542	1.39	0.09310	N	1	B;B;B;B	0.06786	0.001;0.001;0.001;0.0	B;B;B;B	0.08055	0.003;0.002;0.003;0.002	T	0.41980	-0.9478	10	0.38643	T	0.18	.	5.215	0.15338	0.6048:0.1445:0.2507:0.0	.	302;183;382;472	F8W951;F5H6P2;F5H7E8;Q99572	.;.;.;P2RX7_HUMAN	G	472;302;382;183	ENSP00000442349:D472G;ENSP00000330696:D302G;ENSP00000442572:D382G;ENSP00000437471:D183G	ENSP00000330696:D302G	D	+	2	0	P2RX7	120106615	0.000000	0.05858	0.091000	0.20842	0.830000	0.47004	-0.143000	0.10296	0.321000	0.23259	0.482000	0.46254	GAT		0.617	P2RX7-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402532.1	NM_002562		G	121622232	A	G	121622232	3	3	574	1	0	0	0	0	1	0	0	0	11352	333	12	3	1465	3	P2RX7	12	121622232	Missense_Mutation	SNP	A	TCGA-DZ-6131-01A-11D-1961-08	41418463	121622232	12229663	27	33974										
PCDH8	5100	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr13	53422307	53422307	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	cagccgctcgcggtccaggcCggcgtccccgacggtcagct	14	18	1	0	rs570624635	byFrequency	TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr13:53422307C>T	ENST00000377942.3	-	1	468	c.265G>A	c.(265-267)Ggc>Agc	p.G89S	PCDH8_ENST00000338862.4_Missense_Mutation_p.G89S	NM_002590.3	NP_002581.2	O95206	PCDH8_HUMAN	protocadherin 8	89	Cadherin 1. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell-cell signaling (GO:0007267)|homophilic cell adhesion (GO:0007156)|morphogenesis of embryonic epithelium (GO:0016331)|somitogenesis (GO:0001756)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|cell projection (GO:0042995)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	calcium ion binding (GO:0005509)			breast(1)|central_nervous_system(2)|endometrium(2)|large_intestine(5)|lung(23)|ovary(1)|skin(1)|urinary_tract(1)	36		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		CGGTCCAGGCCGGCGTCCCCG	0.657																																					GBM(36;25 841 9273 49207)											0													35	38	37					13																	53422307		2201	4296	6497	SO:0001583	missense	5100			AF061573	CCDS9438.1, CCDS9439.1	13q21.1	2010-02-22			ENSG00000136099	ENSG00000136099		"Cadherins / Protocadherins : Non-clustered"	8660	protein-coding gene	gene with protein product		603580				9787079, 9315676	Standard	NM_002590		Approved	PAPC, ARCADLIN	uc001vhi.3	O95206	OTTHUMG00000016979	ENST00000377942.3:c.265G>A	13.37:g.53422307C>T	ENSP00000367177:p.Gly89Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DMV7|Q5TAN1|Q5TAN2|Q8IYE9|Q96SF1	Missense_Mutation	SNP	ENST00000377942.3	37	CCDS9438.1	.	.	.	.	.	.	.	.	.	.	C	18.92	3.724665	0.68959	.	.	ENSG00000136099	ENST00000377942;ENST00000338862;ENST00000418407;ENST00000448969	T;T	0.26373	1.74;1.74	4.99	4.99	0.66335	Cadherin, N-terminal (1);Cadherin (3);Cadherin-like (1);	0.000000	0.41605	D	0.000846	T	0.33702	0.0872	N	0.20530	0.585	0.32118	N	0.588379	D;D	0.89917	1.0;1.0	D;D	0.97110	0.997;1.0	T	0.28650	-1.0037	10	0.32370	T	0.25	.	13.1397	0.59428	0.0:0.84:0.1599:0.0	.	89;89	O95206-2;O95206	.;PCDH8_HUMAN	S	89	ENSP00000367177:G89S;ENSP00000341350:G89S	ENSP00000341350:G89S	G	-	1	0	PCDH8	52320308	0.981000	0.34729	0.997000	0.53966	0.948000	0.59901	2.542000	0.45744	2.337000	0.79520	0.561000	0.74099	GGC		0.657	PCDH8-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000045108.2	NM_002590		T	53422307	C	T	53422307	3	4	574	1	0	0	0	0	1	0	0	0	11524	652	23	1	2959	1	PCDH8	13	53422307	Missense_Mutation	SNP	C	TCGA-DZ-6131-01A-11D-1961-08		53422307	61747571	28	33975										
CCDC88C	440193	hgsc.bcm.edu	37	chr14	91776235	91776235	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	ctgtcgtcctcctgcaacagCagctccctgttgaggccgac	10	16	0	1			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr14:91776235C>G	ENST00000389857.6	-	16	2918	c.2832G>C	c.(2830-2832)ctG>ctC	p.L944L		NM_001080414.3	NP_001073883.2	Q9P219	DAPLE_HUMAN	coiled-coil domain containing 88C	944					protein destabilization (GO:0031648)|protein homooligomerization (GO:0051260)|regulation of protein phosphorylation (GO:0001932)|Wnt signaling pathway (GO:0016055)		PDZ domain binding (GO:0030165)|protein self-association (GO:0043621)			central_nervous_system(3)|endometrium(2)|kidney(3)|large_intestine(2)|lung(6)|ovary(6)|pancreas(1)|urinary_tract(1)	24		all_cancers(154;0.0468)				CCTGCAACAGCAGCTCCCTGT	0.612																																																0													49	56	53					14																	91776235		2098	4211	6309	SO:0001819	synonymous_variant	440193				CCDS45151.1	14q32.12	2014-07-30	2007-05-31	2007-05-31		ENSG00000015133			19967	protein-coding gene	gene with protein product	"Dvl-associating protein with a high frequency of leucine residues", "spinocerebellar ataxia 40"	611204	"KIAA1509"	KIAA1509		17185515, 25062847	Standard	NM_001080414		Approved	DAPLE, HkRP2, SCA40	uc010aty.3	Q9P219		ENST00000389857.6:c.2832G>C	14.37:g.91776235C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q69YK1|Q7L1M2|Q86SX7|Q8IYG8	Silent	SNP	ENST00000389857.6	37	CCDS45151.1																																																																																				0.612	CCDC88C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411650.1	XM_029353		G	91776235	C	G	91776235	2	3	574	1	0	0	0	0	0	0	0	1	2867	697	25	4		4	CCDC88C	14	91776235	Silent	SNP	C	TCGA-DZ-6131-01A-11D-1961-08		91776235	15573305	29	33976										
MAGEL2	54551	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	23890238	23890238	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	tgcttcttcttccgggtggcCttgccggagcggcgtggcgg	17	12	2	0			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr15:23890238C>G	ENST00000532292.1	-	1	937	c.843G>C	c.(841-843)aaG>aaC	p.K281N		NM_019066.4	NP_061939.3	Q9UJ55	MAGL2_HUMAN	MAGE-like 2	164					Arp2/3 complex-mediated actin nucleation (GO:0034314)|protein K63-linked ubiquitination (GO:0070534)|retrograde transport, endosome to Golgi (GO:0042147)	endosome (GO:0005768)	ubiquitin-protein transferase activity (GO:0004842)			breast(1)|endometrium(1)|large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)	7		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)		TCCGGGTGGCCTTGCCGGAGC	0.637																																																0													42	49	47					15																	23890238		2189	4294	6483	SO:0001583	missense	54551			AJ243531	CCDS73700.1	15q11-q12	2008-07-18				ENSG00000254585			6814	protein-coding gene	gene with protein product		605283		NDNL1		10556298	Standard	NM_019066		Approved	nM15	uc001ywj.4	Q9UJ55		ENST00000532292.1:c.843G>C	15.37:g.23890238C>G	ENSP00000433433:p.Lys281Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000532292.1	37		.	.	.	.	.	.	.	.	.	.	C	15.19	2.758766	0.49468	.	.	ENSG00000254585	ENST00000532292	.	.	.	4.22	0.668	0.17912	.	.	.	.	.	T	0.23688	0.0573	N	0.24115	0.695	0.24891	N	0.99217	.	.	.	.	.	.	T	0.26916	-1.0089	5	.	.	.	.	7.2244	0.26007	0.0:0.461:0.0:0.539	.	.	.	.	T	313	.	.	R	-	2	0	MAGEL2	21441331	0.347000	0.24853	0.771000	0.31576	0.872000	0.50106	-0.733000	0.04898	0.092000	0.17331	-0.302000	0.09304	AGG		0.637	MAGEL2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000395182.2	NM_019066		G	23890238	C	G	23890238	3	3	574	1	0	0	0	0	1	0	0	0	9196	680	24	4	1101	4	MAGEL2	15	23890238	Missense_Mutation	SNP	C	TCGA-DZ-6131-01A-11D-1961-08		23890238	78641154	30	33977										
MGRN1	23295	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	4700468	4700468	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	catggatctgaacttcctggGcagccgcccggtccaggtgg	14	13	1	1			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr16:4700468G>T	ENST00000399577.5	+	2	284	c.191G>T	c.(190-192)gGc>gTc	p.G64V	MGRN1_ENST00000262370.7_Missense_Mutation_p.G64V|MGRN1_ENST00000588994.1_Missense_Mutation_p.G64V|MGRN1_ENST00000415496.1_Missense_Mutation_p.G64V|MGRN1_ENST00000586183.1_Missense_Mutation_p.G64V	NM_001142290.2	NP_001135762.1	O60291	MGRN1_HUMAN	mahogunin ring finger 1, E3 ubiquitin protein ligase	64					endosome to lysosome transport (GO:0008333)|negative regulation of cAMP-mediated signaling (GO:0043951)|negative regulation of G-protein coupled receptor protein signaling pathway (GO:0045744)|protein monoubiquitination (GO:0006513)|protein polyubiquitination (GO:0000209)	cytoplasm (GO:0005737)|early endosome (GO:0005769)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			endometrium(3)|kidney(1)|large_intestine(2)|lung(4)|ovary(3)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	18						AACTTCCTGGGCAGCCGCCCG	0.597																																																0													76	81	80					16																	4700468		1892	4125	6017	SO:0001583	missense	23295			AB011116	CCDS42115.1, CCDS45401.1, CCDS45402.1, CCDS45401.2, CCDS59256.1	16p13	2012-02-23	2012-02-23					"RING-type (C3HC4) zinc fingers"	20254	protein-coding gene	gene with protein product		607559	"mahogunin, ring finger 1"			9628581	Standard	NM_015246		Approved	KIAA0544, RNF156	uc002cxa.3	O60291		ENST00000399577.5:c.191G>T	16.37:g.4700468G>T	ENSP00000382487:p.Gly64Val	Somatic		WXS	Illumina HiSeq	Phase_I	A4URL3|A4URL4|Q86W76	Missense_Mutation	SNP	ENST00000399577.5	37	CCDS45402.1	.	.	.	.	.	.	.	.	.	.	G	24.3	4.518548	0.85495	.	.	ENSG00000102858	ENST00000262370;ENST00000399577;ENST00000415496;ENST00000536343	T;T;T;T	0.32023	1.47;1.47;1.47;1.47	5.4	5.4	0.78164	.	0.099811	0.64402	D	0.000001	T	0.62183	0.2407	M	0.86864	2.845	0.80722	D	1	D;D;D;D;D;D	0.89917	1.0;1.0;0.999;1.0;1.0;1.0	D;D;D;D;D;D	0.97110	1.0;0.998;0.979;0.996;0.991;1.0	T	0.68907	-0.5285	10	0.87932	D	0	-46.144	16.6736	0.85273	0.0:0.0:1.0:0.0	.	64;64;64;64;64;64	O60291-4;O60291-3;B4DR12;E9PB19;O60291-2;O60291	.;.;.;.;.;MGRN1_HUMAN	V	64	ENSP00000262370:G64V;ENSP00000382487:G64V;ENSP00000393311:G64V;ENSP00000443810:G64V	ENSP00000262370:G64V	G	+	2	0	MGRN1	4640469	1.000000	0.71417	1.000000	0.80357	0.765000	0.43378	9.785000	0.99042	2.537000	0.85549	0.561000	0.74099	GGC		0.597	MGRN1-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000432060.2			T	4700468	G	T	4700468	3	4	574	1	0	0	0	0	1	0	0	0	9566	1203	42	4	197	4	MGRN1	16	4700468	Missense_Mutation	SNP	G	TCGA-DZ-6131-01A-11D-1961-08		4700468	85654285	31	33978										
CMTM1	113540	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	66612903	66612903	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	cgccccgcagaggcccgcctGaagccagcccggcgccctag	13	20	0	2			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr16:66612903G>A	ENST00000457188.2	+	4	630	c.509G>A	c.(508-510)tGa>tAa	p.*170*	CMTM1_ENST00000332695.7_Silent_p.*123*|CMTM1_ENST00000529506.1_Silent_p.*71*|CMTM1_ENST00000528324.1_3'UTR|CMTM2_ENST00000379486.2_5'Flank|CMTM1_ENST00000328020.6_3'UTR|CMTM1_ENST00000531885.1_3'UTR|CMTM1_ENST00000336328.6_Silent_p.*117*|CMTM2_ENST00000268595.2_5'Flank|CMTM1_ENST00000533953.1_Silent_p.*239*|CMTM1_ENST00000533666.1_3'UTR|CKLF-CMTM1_ENST00000527729.1_Silent_p.*116*|RP11-403P17.2_ENST00000568430.1_RNA|CMTM1_ENST00000379500.2_Silent_p.*287*	NM_181269.2	NP_851786.1	Q8IZ96	CKLF1_HUMAN	CKLF-like MARVEL transmembrane domain containing 1	0					chemotaxis (GO:0006935)	extracellular space (GO:0005615)|integral component of membrane (GO:0016021)				breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(2)	7		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0702)|Epithelial(162;0.222)		AGGCCCGCCTGAAGCCAGCCC	0.627																																																0													34	41	38					16																	66612903		2201	4299	6500	SO:0001819	synonymous_variant	113540			AF278577	CCDS10810.1, CCDS10811.1, CCDS10812.2, CCDS45503.1, CCDS45504.1, CCDS54019.1, CCDS54020.1, CCDS54021.1	16q22.1	2009-10-06	2005-11-08	2005-11-08	ENSG00000089505	ENSG00000089505			19172	protein-coding gene	gene with protein product		607884	"chemokine-like factor super family 1", "chemokine-like factor superfamily 1"	CKLFSF1		12782130	Standard	NM_181268		Approved	CKLFH1a, CKLFH	uc002epr.4	Q8IZ96	OTTHUMG00000137502	ENST00000457188.2:c.509G>A	16.37:g.66612903G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2PPY5|Q6PEV5|Q8IU76|Q8IU83|Q8IU86|Q8IU93|Q8IZ87|Q8IZ88|Q8IZ89|Q8IZ90|Q8IZ91|Q8IZ92|Q8IZ93|Q8IZ94|Q8IZ95|Q96JC2|Q96JC3	Silent	SNP	ENST00000457188.2	37	CCDS45503.1																																																																																				0.627	CMTM1-015	NOVEL	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000390261.2	NM_052999		A	66612903	G	A	66612903	2	1	574	1	0	0	0	0	0	0	0	1	3584	1285	45	2		2	CMTM1	16	66612903	Silent	SNP	G	TCGA-DZ-6131-01A-11D-1961-08	61912435	66612903	23741850	32	33979										
FAM18B2	201158	ucsc.edu	37	chr17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	tgagcaactcacagagaagaCagacgatgattgcactgact	10	9	1	6			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr17:15457087C>T	ENST00000225576.3	-	3	247	c.152G>A	c.(151-153)tGt>tAt	p.C51Y	TVP23C_ENST00000428082.2_Missense_Mutation_p.C51Y|TVP23C-CDRT4_ENST00000522212.2_Missense_Mutation_p.C51Y|TVP23C_ENST00000438826.3_Missense_Mutation_p.C51Y|TVP23C_ENST00000518321.1_Missense_Mutation_p.C51Y|TVP23C_ENST00000584811.1_5'UTR|TVP23C_ENST00000519970.1_Intron	NM_145301.2	NP_660344.2	Q96ET8	TV23C_HUMAN	trans-golgi network vesicle protein 23 homolog C (S. cerevisiae)	51						integral component of membrane (GO:0016021)											ACAGAGAAGACAGACGATGAT	0.373																																																0													274	265	268					17																	15457087		2203	4300	6503	SO:0001583	missense	201158			BC011952	CCDS11170.1, CCDS45617.1	17p12	2012-11-29	2012-11-29	2012-11-29	ENSG00000175106	ENSG00000175106			30453	protein-coding gene	gene with protein product			"family with sequence similarity 18, member B2"	FAM18B2			Standard	NM_001135036		Approved	MGC8763	uc002goq.2	Q96ET8	OTTHUMG00000171461	ENST00000225576.3:c.152G>A	17.37:g.15457087C>T	ENSP00000225576:p.Cys51Tyr	Somatic		WXS	Illumina HiSeq		Q3LIC7	Missense_Mutation	SNP	ENST00000225576.3	37	CCDS11170.1	.	.	.	.	.	.	.	.	.	.	.	2.368	-0.344949	0.05208	.	.	ENSG00000259024;ENSG00000175106;ENSG00000175106;ENSG00000175106	ENST00000522212;ENST00000225576;ENST00000428082;ENST00000438826	T;T;T;T	0.25749	1.78;1.78;1.78;1.78	4.47	4.47	0.54385	.	0.000000	0.85682	N	0.000000	T	0.02571	0.0078	N	0.00004	-3.335	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.06405	0.0;0.0;0.002	T	0.38457	-0.9660	10	0.02654	T	1	-3.8701	9.492	0.38965	0.0:0.0877:0.0:0.9123	.	51;51;51	Q96ET8-2;Q96ET8-3;Q96ET8	.;.;F18B2_HUMAN	Y	51	ENSP00000429865:C51Y;ENSP00000225576:C51Y;ENSP00000406387:C51Y;ENSP00000413355:C51Y	ENSP00000225576:C51Y	C	-	2	0	RP11-726O12.1;FAM18B2	15397812	1.000000	0.71417	1.000000	0.80357	0.703000	0.40648	6.178000	0.71968	0.670000	0.31165	-0.442000	0.05670	TGT		0.373	TVP23C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000130705.2	NM_145301		T	15457087	C	T	15457087	3	4	574	1	0	0	0	0	1	0	0	0	5524	478	17	2	848	2	FAM18B2	17	15457087	Missense_Mutation	SNP	C	TCGA-DZ-6131-01A-11D-1961-08		15457087	65738123	33	33980										
TTLL6	284076	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	46862380	46862380	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	caacttcgagctgctgagatTgatattcctcagatcgggta	10	9	1	3			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr17:46862380T>G	ENST00000393382.3	-	13	2086	c.1945A>C	c.(1945-1947)Aat>Cat	p.N649H	TTLL6_ENST00000433608.2_Missense_Mutation_p.N342H	NM_001130918.1	NP_001124390.1			tubulin tyrosine ligase-like family, member 6											endometrium(1)|large_intestine(5)|lung(9)|prostate(1)|skin(2)	18						CTGCTGAGATTGATATTCCTC	0.547																																																0													143	142	142					17																	46862380		2203	4300	6503	SO:0001583	missense	284076			AK093127	CCDS11537.2, CCDS45724.1	17q21.32	2013-02-14			ENSG00000170703	ENSG00000170703		"Tubulin tyrosine ligase-like family"	26664	protein-coding gene	gene with protein product		610849				15890843	Standard	NM_173623		Approved	FLJ35808	uc021tzm.1	Q8N841	OTTHUMG00000156978	ENST00000393382.3:c.1945A>C	17.37:g.46862380T>G	ENSP00000377043:p.Asn649His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000393382.3	37	CCDS45724.1	.	.	.	.	.	.	.	.	.	.	T	7.206	0.594532	0.13875	.	.	ENSG00000170703	ENST00000440941;ENST00000305326;ENST00000433608;ENST00000393382	.	.	.	4.39	0.921	0.19403	.	7739.210000	0.00166	N	0.000000	T	0.40473	0.1118	L	0.29908	0.895	0.09310	N	1	B;B;D	0.54964	0.0;0.006;0.969	B;B;P	0.54100	0.001;0.001;0.742	T	0.19712	-1.0297	9	0.51188	T	0.08	.	6.212	0.20633	0.0:0.3168:0.0:0.6832	.	601;402;342	Q8N841;D3DTW0;G5E937	TTLL6_HUMAN;.;.	H	649;342;327;601	.	ENSP00000302547:N342H	N	-	1	0	TTLL6	44217379	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.518000	0.06267	0.029000	0.15352	0.379000	0.24179	AAT		0.547	TTLL6-003	KNOWN	downstream_ATG|non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346939.3	NM_173623		G	46862380	T	G	46862380	3	3	574	1	0	0	0	0	1	0	0	0	16743	1812	63	5	742	5	TTLL6	17	46862380	Missense_Mutation	SNP	T	TCGA-DZ-6131-01A-11D-1961-08	31405293	46862380	34332830	34	33981										
EPX	8288	broad.mit.edu;bcgsc.ca	37	chr17	56274480	56274480	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	tctcgctgcggctccgcaacCggaccaactacctggggctg	12	16	1	0	rs143329228	byFrequency	TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr17:56274480C>T	ENST00000225371.5	+	7	1092	c.982C>T	c.(982-984)Cgg>Tgg	p.R328W		NM_000502.4	NP_000493.1	P11678	PERE_HUMAN	eosinophil peroxidase	328					defense response to nematode (GO:0002215)|eosinophil migration (GO:0072677)|hydrogen peroxide catabolic process (GO:0042744)|negative regulation of interleukin-10 production (GO:0032693)|negative regulation of interleukin-5 production (GO:0032714)|positive regulation of interleukin-4 production (GO:0032753)	extracellular vesicular exosome (GO:0070062)	heme binding (GO:0020037)|metal ion binding (GO:0046872)|peroxidase activity (GO:0004601)			breast(2)|endometrium(9)|kidney(1)|large_intestine(9)|liver(2)|lung(20)|ovary(2)|prostate(2)|upper_aerodigestive_tract(1)	48					Melatonin(DB01065)	GCTCCGCAACCGGACCAACTA	0.617													C|||	13	0.00259585	0.0	0.0	5008	,	,		18343	0.0099		0.0	False		,,,				2504	0.0031															0								C	TRP/ARG	1,4405	2.1+/-5.4	0,1,2202	119	113	115		982	-3.8	0	17	dbSNP_134	115	0,8600		0,0,4300	no	missense	EPX	NM_000502.4	101	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	benign	328/716	56274480	1,13005	2203	4300	6503	SO:0001583	missense	8288			M26515	CCDS11602.1	17q23.1	2006-09-25				ENSG00000121053	1.11.1.7		3423	protein-coding gene	gene with protein product		131399				2550461, 2541222	Standard	NM_000502		Approved	EPO, EPP, EPX-PEN	uc002ivq.3	P11678		ENST00000225371.5:c.982C>T	17.37:g.56274480C>T	ENSP00000225371:p.Arg328Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q4TVP3	Missense_Mutation	SNP	ENST00000225371.5	37	CCDS11602.1	.	.	.	.	.	.	.	.	.	.	C	3.883	-0.025552	0.07589	2.27E-4	0.0	ENSG00000121053	ENST00000225371	T	0.73152	-0.72	4.86	-3.76	0.04359	.	1.473130	0.03548	N	0.225033	T	0.51787	0.1695	N	0.05031	-0.125	0.09310	N	0.999991	B	0.13594	0.008	B	0.09377	0.004	T	0.37526	-0.9702	10	0.27082	T	0.32	-2.6526	16.444	0.83910	0.7426:0.2574:0.0:0.0	.	328	P11678	PERE_HUMAN	W	328	ENSP00000225371:R328W	ENSP00000225371:R328W	R	+	1	2	EPX	53629479	0.000000	0.05858	0.002000	0.10522	0.039000	0.13416	-0.004000	0.12878	-0.381000	0.07882	-0.475000	0.04921	CGG		0.617	EPX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443367.1	NM_000502		T	56274480	C	T	56274480	3	4	574	1	0	0	0	0	1	0	0	0	5202	643	23	1	1008	1	EPX	17	56274480	Missense_Mutation	SNP	C	TCGA-DZ-6131-01A-11D-1961-08	9412100	56274480	24920730	35	33982										
C17orf62	79415	ucsc.edu	37	chr17	80405455	80405455	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	gtggggcggggggtgctttaCctccgctgtagtaggcagca	18	9	0	0			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr17:80405455C>T	ENST00000437807.2	-	4	445		c.e4+1		C17orf62_ENST00000577732.1_Splice_Site|C17orf62_ENST00000342572.8_Intron|C17orf62_ENST00000583359.1_Splice_Site|C17orf62_ENST00000585064.1_Splice_Site|C17orf62_ENST00000336995.7_Splice_Site|C17orf62_ENST00000578919.1_Splice_Site|C17orf62_ENST00000583617.1_Splice_Site|C17orf62_ENST00000585080.1_Splice_Site|C17orf62_ENST00000306645.5_Splice_Site|C17orf62_ENST00000434650.2_Intron|C17orf62_ENST00000577436.1_Intron|C17orf62_ENST00000578913.1_Splice_Site	NM_001193653.1|NM_001193657.1	NP_001180582.1|NP_001180586.1	Q9BQA9	CQ062_HUMAN	chromosome 17 open reading frame 62							integral component of membrane (GO:0016021)				breast(2)|large_intestine(2)|skin(2)|urinary_tract(2)	8	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			GGGTGCTTTACCTCCGCTGTA	0.547																																																0													20	18	19					17																	80405455		2199	4291	6490	SO:0001630	splice_region_variant	79415			AK074950	CCDS32776.1, CCDS45817.1	17q25.3	2014-06-09			ENSG00000178927	ENSG00000178927			28672	protein-coding gene	gene with protein product							Standard	NM_001100407		Approved	MGC4368, FLJ90469	uc021ufr.1	Q9BQA9		ENST00000437807.2:c.127+1G>A	17.37:g.80405455C>T		Somatic		WXS	Illumina HiSeq		E1B6X3|Q96NR1	Splice_Site	SNP	ENST00000437807.2	37	CCDS32776.1	.	.	.	.	.	.	.	.	.	.	C	17.84	3.487722	0.64074	.	.	ENSG00000178927	ENST00000437807;ENST00000306645	.	.	.	4.61	4.61	0.57282	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.0014	0.80294	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	C17orf62	77998744	1.000000	0.71417	0.996000	0.52242	0.860000	0.49131	6.284000	0.72652	2.113000	0.64589	0.561000	0.74099	.		0.547	C17orf62-006	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443260.1	NM_001033046	Intron	T	80405455	C	T	80405455	5	4	574	1	0	0	0	0	0	0	1	0	1872	521	18	2	455	2	C17orf62	17	80405455	Splice_Site	SNP	C	TCGA-DZ-6131-01A-11D-1961-08	24130975	80405455	789755	36	33983										
SIRPG	55423	ucsc.edu	37	chr20	1629910	1629910	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	gattgtagattaattcccggCctggtccaactcctctgaac	8	12	1	2			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr20:1629910C>G	ENST00000303415.3	-	2	282	c.218G>C	c.(217-219)gGc>gCc	p.G73A	RP11-77C3.3_ENST00000456177.1_RNA|SIRPG_ENST00000344103.4_Missense_Mutation_p.G73A|SIRPG_ENST00000216927.4_Missense_Mutation_p.G73A|SIRPG_ENST00000381580.1_Missense_Mutation_p.G40A|SIRPG_ENST00000381583.2_Missense_Mutation_p.G73A	NM_018556.3	NP_061026.2	Q9P1W8	SIRPG_HUMAN	signal-regulatory protein gamma	73	Ig-like V-type.				blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell-cell signaling (GO:0007267)|intracellular signal transduction (GO:0035556)|leukocyte migration (GO:0050900)|negative regulation of cell proliferation (GO:0008285)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cell-cell adhesion (GO:0022409)|positive regulation of T cell activation (GO:0050870)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)				breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(14)|ovary(1)|prostate(2)|stomach(1)	27						TAATTCCCGGCCTGGTCCAAC	0.517																																																0													171	156	161					20																	1629910		2203	4300	6503	SO:0001583	missense	55423			AB042624	CCDS13020.2, CCDS13021.2, CCDS33434.1	20p13	2013-01-11	2006-02-03	2006-02-03	ENSG00000089012	ENSG00000089012		"Signal-regulatory proteins", "CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C1-set domain containing"	15757	protein-coding gene	gene with protein product		605466	"signal-regulatory protein beta 2"	SIRPB2		11185750, 16339511	Standard	XM_005260749		Approved	bA77C3.1, SIRP-B2, SIRPgamma, CD172g	uc002wfm.1	Q9P1W8	OTTHUMG00000031680	ENST00000303415.3:c.218G>C	20.37:g.1629910C>G	ENSP00000305529:p.Gly73Ala	Somatic		WXS	Illumina HiSeq		B1AKP6|Q5D051|Q5JV25|Q5MKL4|Q8WWA5|Q9NQK8	Missense_Mutation	SNP	ENST00000303415.3	37	CCDS13020.2	.	.	.	.	.	.	.	.	.	.	.	4.988	0.183566	0.09495	.	.	ENSG00000089012	ENST00000381580;ENST00000344103;ENST00000303415;ENST00000381583;ENST00000216927	T;T;T;T;T	0.66995	-0.24;-0.24;-0.24;-0.24;-0.24	1.93	-3.09	0.05331	Immunoglobulin subtype (1);Immunoglobulin V-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	1.255760	0.05163	N	0.498210	T	0.56949	0.2020	L	0.56280	1.765	0.09310	N	1	B;B;B	0.14438	0.01;0.004;0.003	B;B;B	0.10450	0.005;0.001;0.003	T	0.32824	-0.9892	10	0.26408	T	0.33	.	6.3533	0.21387	0.0:0.3641:0.0:0.6359	.	73;73;73	Q9P1W8-3;Q9P1W8-4;Q9P1W8	.;.;SIRPG_HUMAN	A	40;73;73;73;73	ENSP00000370992:G40A;ENSP00000342759:G73A;ENSP00000305529:G73A;ENSP00000370995:G73A;ENSP00000216927:G73A	ENSP00000216927:G73A	G	-	2	0	SIRPG	1577910	0.000000	0.05858	0.000000	0.03702	0.011000	0.07611	-0.760000	0.04756	-0.812000	0.04363	0.195000	0.17529	GGC		0.517	SIRPG-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077566.2	NM_018556		G	1629910	C	G	1629910	3	3	574	1	0	0	0	0	1	0	0	0	14349	739	26	4	961	4	SIRPG	20	1629910	Missense_Mutation	SNP	C	TCGA-DZ-6131-01A-11D-1961-08		1629910	61395610	37	33984										
COL20A1	57642	hgsc.bcm.edu	37	chr20	61944243	61944243	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	cccgtctggcgtgcttgtctAccagatcacgtggacgcccc	11	16	3	1	rs143321165	byFrequency	TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr20:61944243A>G	ENST00000358894.6	+	16	2133	c.2033A>G	c.(2032-2034)tAc>tGc	p.Y678C	COL20A1_ENST00000422202.1_Missense_Mutation_p.Y685C|COL20A1_ENST00000326996.6_Missense_Mutation_p.Y678C|COL20A1_ENST00000435874.1_Missense_Mutation_p.Y685C	NM_020882.2	NP_065933.2	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	678	Fibronectin type-III 5. {ECO:0000255|PROSITE-ProRule:PRU00316}.				extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)				NS(3)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(21)|ovary(1)|prostate(3)|urinary_tract(2)	36	all_cancers(38;1.39e-10)					GTGCTTGTCTACCAGATCACG	0.677													A|||	26	0.00519169	0.0015	0.0187	5008	,	,		15792	0.0		0.0089	False		,,,				2504	0.002															0								A	CYS/TYR	2,3854		0,2,1926	19	27	24		2033	4.2	0.5	20	dbSNP_134	24	40,8128		0,40,4044	yes	missense	COL20A1	NM_020882.2	194	0,42,5970	GG,GA,AA		0.4897,0.0519,0.3493	probably-damaging	678/1285	61944243	42,11982	1928	4084	6012	SO:0001583	missense	57642			BC043183	CCDS46628.1	20q13.33	2014-02-12			ENSG00000101203	ENSG00000101203		"Collagens", "Fibronectin type III domain containing"	14670	protein-coding gene	gene with protein product						10819331	Standard	NM_020882		Approved	KIAA1510	uc011aau.2	Q9P218	OTTHUMG00000032964	ENST00000358894.6:c.2033A>G	20.37:g.61944243A>G	ENSP00000351767:p.Tyr678Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VXQ4|Q6PI59|Q8WUT2|Q96CY9|Q9BQU6|Q9BQU7	Missense_Mutation	SNP	ENST00000358894.6	37	CCDS46628.1	13	0.005952380952380952	0	0.0	9	0.024861878453038673	0	0.0	4	0.005277044854881266	A	13.73	2.322939	0.41096	5.19E-4	0.004897	ENSG00000101203	ENST00000358894;ENST00000326996;ENST00000435874;ENST00000422202	T;T;T;T	0.78481	-1.18;-1.18;-1.18;-1.18	4.25	4.25	0.50352	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.234827	0.36932	N	0.002333	T	0.79799	0.4508	M	0.84948	2.725	0.36447	D	0.865874	D;D	0.89917	1.0;1.0	D;D	0.87578	0.996;0.998	D	0.87437	0.2392	10	0.87932	D	0	.	9.82	0.40876	1.0:0.0:0.0:0.0	.	685;678	Q9P218-2;Q9P218	.;COKA1_HUMAN	C	678;678;685;685	ENSP00000351767:Y678C;ENSP00000323077:Y678C;ENSP00000408690:Y685C;ENSP00000414753:Y685C	ENSP00000323077:Y678C	Y	+	2	0	COL20A1	61414688	0.342000	0.24809	0.510000	0.27712	0.059000	0.15707	3.141000	0.50593	1.583000	0.49898	0.254000	0.18369	TAC		0.677	COL20A1-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000144595.2	NM_020882		G	61944243	A	G	61944243	3	3	574	1	0	0	0	0	1	0	0	0	3681	391	14	3	2091	3	COL20A1	20	61944243	Missense_Mutation	SNP	A	TCGA-DZ-6131-01A-11D-1961-08	60314333	61944243	1081277	38	33985										
GART	2618	broad.mit.edu	37	chr21	34877874	34877874	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	taatttttgcttaccattccActtttggacaaaggggccag	8	9	0	0			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr21:34877874A>C	ENST00000381831.3	-	20	2982	c.2719T>G	c.(2719-2721)Tgg>Ggg	p.W907G	GART_ENST00000381815.4_Missense_Mutation_p.W907G|GART_ENST00000381839.3_Missense_Mutation_p.W907G|GART_ENST00000543717.1_Missense_Mutation_p.W459G	NM_001136005.1	NP_001129477.1	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazole synthetase	907	GART.				'de novo' IMP biosynthetic process (GO:0006189)|brainstem development (GO:0003360)|cerebellum development (GO:0021549)|cerebral cortex development (GO:0021987)|glycine metabolic process (GO:0006544)|nucleobase-containing small molecule metabolic process (GO:0055086)|purine nucleobase biosynthetic process (GO:0009113)|purine nucleobase metabolic process (GO:0006144)|purine ribonucleoside monophosphate biosynthetic process (GO:0009168)|response to inorganic substance (GO:0010035)|response to organic substance (GO:0010033)|small molecule metabolic process (GO:0044281)|tetrahydrofolate biosynthetic process (GO:0046654)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|methyltransferase activity (GO:0008168)|phosphoribosylamine-glycine ligase activity (GO:0004637)|phosphoribosylformylglycinamidine cyclo-ligase activity (GO:0004641)|phosphoribosylglycinamide formyltransferase activity (GO:0004644)			NS(2)|breast(1)|endometrium(3)|large_intestine(3)|lung(13)|ovary(3)|prostate(5)|urinary_tract(1)	31					Pemetrexed(DB00642)	TTACCATTCCACTTTTGGACA	0.398																																																0													81	78	79					21																	34877874		2203	4300	6503	SO:0001583	missense	2618			M32082	CCDS13627.1, CCDS13628.1	21q22.11	2012-10-02			ENSG00000159131	ENSG00000159131	2.1.2.2, 6.3.3.1, 6.3.4.13		4163	protein-coding gene	gene with protein product		138440		PRGS, PGFT		2050105	Standard	NM_001136005		Approved		uc002yrx.3	P22102	OTTHUMG00000065628	ENST00000381831.3:c.2719T>G	21.37:g.34877874A>C	ENSP00000371253:p.Trp907Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K945|A8KA32|D3DSF3|D3DSF4|O14659|Q52M77	Missense_Mutation	SNP	ENST00000381831.3	37	CCDS13627.1	.	.	.	.	.	.	.	.	.	.	A	17.51	3.406578	0.62399	.	.	ENSG00000159131	ENST00000414353;ENST00000381815;ENST00000381831;ENST00000381839;ENST00000543717	T;T;T;T	0.76578	-1.03;-1.03;-1.03;-1.03	5.59	5.59	0.84812	Formyl transferase, N-terminal (3);	0.121520	0.64402	D	0.000012	D	0.91640	0.7358	H	0.95645	3.7	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.94012	0.7285	10	0.87932	D	0	-2.7596	16.1134	0.81278	1.0:0.0:0.0:0.0	.	907	P22102	PUR2_HUMAN	G	171;907;907;907;459	ENSP00000371236:W907G;ENSP00000371253:W907G;ENSP00000371261:W907G;ENSP00000443579:W459G	ENSP00000371236:W907G	W	-	1	0	GART	33799744	1.000000	0.71417	0.999000	0.59377	0.448000	0.32197	8.515000	0.90548	2.266000	0.75297	0.456000	0.33151	TGG		0.398	GART-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140626.3	NM_000819		C	34877874	A	C	34877874	3	2	574	1	0	0	0	0	1	0	0	0	6250	159	6	5	325	5	GART	21	34877874	Missense_Mutation	SNP	A	TCGA-DZ-6131-01A-11D-1961-08		34877874	13252021	39	33986										
ZNF295	49854	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	43413770	43413770	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	caaacaatgacacttctcttTtgagaactgttttcatcatc	4	10	3	2			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr21:43413770T>C	ENST00000310826.5	-	3	618	c.435A>G	c.(433-435)caA>caG	p.Q145Q	ZBTB21_ENST00000398505.3_Silent_p.Q145Q|ZBTB21_ENST00000465968.1_Intron|ZBTB21_ENST00000398511.3_Silent_p.Q145Q|ZBTB21_ENST00000398499.1_Silent_p.Q145Q	NM_001098402.1	NP_001091872.1	Q9ULJ3	ZBT21_HUMAN	zinc finger and BTB domain containing 21	145					negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|methyl-CpG binding (GO:0008327)										CACTTCTCTTTTGAGAACTGT	0.403																																																0													98	88	91					21																	43413770		2203	4300	6503	SO:0001819	synonymous_variant	49854			AB033053	CCDS13678.1, CCDS42934.1	21q22.3	2013-01-09	2013-01-09	2013-01-09	ENSG00000173276	ENSG00000173276		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	13083	protein-coding gene	gene with protein product			"zinc finger protein 295"	ZNF295			Standard	NM_020727		Approved	KIAA1227	uc002yzy.4	Q9ULJ3	OTTHUMG00000086789	ENST00000310826.5:c.435A>G	21.37:g.43413770T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5R2W1|Q5R2W2|Q6P4R0	Silent	SNP	ENST00000310826.5	37	CCDS13678.1																																																																																				0.403	ZBTB21-005	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195308.1	NM_020727		C	43413770	T	C	43413770	2	2	574	1	0	0	0	0	0	0	0	1	17839	1838	64	3		3	ZNF295	21	43413770	Silent	SNP	T	TCGA-DZ-6131-01A-11D-1961-08	8535896	43413770	4716125	40	33987										
KRTAP10-10	353333	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	46057373	46057373	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	tccatctgctccagcgcctgCactgactcttggcgggtagt	11	14	2	1			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chr21:46057373C>T	ENST00000380095.1	+	1	101	c.39C>T	c.(37-39)tgC>tgT	p.C13C	TSPEAR_ENST00000323084.4_Intron	NM_181688.1	NP_859016.1	P60014	KR10A_HUMAN	keratin associated protein 10-10	13						keratin filament (GO:0045095)		p.C13C(1)		NS(1)|endometrium(2)|kidney(1)|lung(6)|prostate(1)|skin(2)	13						CCAGCGCCTGCACTGACTCTT	0.652																																																1	Substitution - coding silent(1)	endometrium(1)											104	109	108					21																	46057373		2203	4300	6503	SO:0001819	synonymous_variant	353333			AJ566387	CCDS33585.1	21q22.3	2006-03-13			ENSG00000221859	ENSG00000221859		"Keratin associated proteins"	22972	protein-coding gene	gene with protein product							Standard	NM_181688		Approved	KAP10.10, KAP18.10, KRTAP18-10	uc002zfq.3	P60014	OTTHUMG00000057631	ENST00000380095.1:c.39C>T	21.37:g.46057373C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000380095.1	37	CCDS33585.1																																																																																				0.652	KRTAP10-10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128034.1	NM_181688		T	46057373	C	T	46057373	2	4	574	1	0	0	0	0	0	0	0	1	8513	718	25	2		2	KRTAP10-10	21	46057373	Silent	SNP	C	TCGA-DZ-6131-01A-11D-1961-08	2643603	46057373	2072522	41	33988										
FAM47B	170062	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	34961454	34961454	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	ttgggctcgttgtgaggcccGggagaagacaaccgaggtac	16	9	0	3			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chrX:34961454G>A	ENST00000329357.5	+	1	542	c.506G>A	c.(505-507)cGg>cAg	p.R169Q		NM_152631.2	NP_689844.2	Q8NA70	FA47B_HUMAN	family with sequence similarity 47, member B	169										breast(3)|central_nervous_system(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(13)|lung(28)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)	71						TGTGAGGCCCGGGAGAAGACA	0.592																																																0													36	35	35					X																	34961454		2202	4300	6502	SO:0001583	missense	170062			BC035026	CCDS14236.1	Xp21.1	2004-08-09			ENSG00000189132	ENSG00000189132			26659	protein-coding gene	gene with protein product						14702039	Standard	NM_152631		Approved	FLJ35782	uc004ddi.2	Q8NA70	OTTHUMG00000021345	ENST00000329357.5:c.506G>A	X.37:g.34961454G>A	ENSP00000328307:p.Arg169Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JQN5|Q6PIG3	Missense_Mutation	SNP	ENST00000329357.5	37	CCDS14236.1	.	.	.	.	.	.	.	.	.	.	G	1.355	-0.590410	0.03799	.	.	ENSG00000189132	ENST00000329357	T	0.14266	2.52	0.843	-0.104	0.13605	.	.	.	.	.	T	0.04952	0.0133	N	0.05259	-0.085	0.09310	N	1	B	0.19073	0.033	B	0.08055	0.003	T	0.45175	-0.9279	8	0.13108	T	0.6	.	.	.	.	.	169	Q8NA70	FA47B_HUMAN	Q	169	ENSP00000328307:R169Q	ENSP00000328307:R169Q	R	+	2	0	FAM47B	34871375	0.070000	0.21116	0.001000	0.08648	0.009000	0.06853	-2.406000	0.01044	-0.099000	0.12263	-0.780000	0.03373	CGG		0.592	FAM47B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056211.1	NM_152631		A	34961454	G	A	34961454	3	1	574	1	0	0	0	0	1	0	0	0	5577	1116	39	1	508	1	FAM47B	23	34961454	Missense_Mutation	SNP	G	TCGA-DZ-6131-01A-11D-1961-08		34961454	120309106	42	33989										
IQSEC2	23096	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	53268433	53268433	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.13953488372093	6	1	1.762	1.83541666666667	1.72745098039216	0.567099567099567	1	0	gggggaaagactgacggaaaCtgtacgtcaccaagatcttc	12	9	2	3			TCGA-DZ-6131-01A-11D-1961-08	TCGA-DZ-6131-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	29368ff9-9921-468b-89e7-f004ec2ddb39	3e6c0c90-5ee6-4ec6-ba68-59aae72c362c	g.chrX:53268433C>G	ENST00000375368.5	-	10	3229	c.3029G>C	c.(3028-3030)aGt>aCt	p.S1010T	IQSEC2_ENST00000375365.2_Missense_Mutation_p.S815T|IQSEC2_ENST00000396435.3_Missense_Mutation_p.S1020T			Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2	1010	PH.				actin cytoskeleton organization (GO:0030036)|positive regulation of GTPase activity (GO:0043547)|regulation of ARF protein signal transduction (GO:0032012)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(4)|lung(10)|ovary(4)|skin(1)	29						CTGACGGAAACTGTACGTCAC	0.502											OREG0019800	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													114	103	107					X																	53268433		2203	4300	6503	SO:0001583	missense	23096			AB011094	CCDS35298.1, CCDS48130.1	Xp11.23	2014-01-31			ENSG00000124313	ENSG00000124313			29059	protein-coding gene	gene with protein product		300522	"mental retardation, X-linked 1 (non-dysmorphic)"	MRX1		9628581, 20473311	Standard	NM_001243197		Approved	KIAA0522	uc004dsd.3	Q5JU85	OTTHUMG00000021608	ENST00000375368.5:c.3029G>C	X.37:g.53268433C>G	ENSP00000364517:p.Ser1010Thr	Somatic	991	WXS	Illumina HiSeq	Phase_I	B3KT97|C7SDG1|O60275|Q5JUX1	Missense_Mutation	SNP	ENST00000375368.5	37		.	.	.	.	.	.	.	.	.	.	C	14.06	2.422471	0.43020	.	.	ENSG00000124313	ENST00000396435;ENST00000375368;ENST00000375365	T;T;T	0.54071	0.59;0.59;0.59	5.61	5.61	0.85477	.	.	.	.	.	T	0.52240	0.1722	N	0.19112	0.55	0.80722	D	1	B;P	0.39903	0.039;0.694	B;P	0.56434	0.105;0.798	T	0.40001	-0.9586	9	0.02654	T	1	.	17.3443	0.87306	0.0:1.0:0.0:0.0	.	1020;815	Q5JU85-2;Q5JU85-3	.;.	T	1020;1010;815	ENSP00000379712:S1020T;ENSP00000364517:S1010T;ENSP00000364514:S815T	ENSP00000364514:S815T	S	-	2	0	IQSEC2	53285158	0.998000	0.40836	1.000000	0.80357	0.962000	0.63368	2.668000	0.46816	2.363000	0.80096	0.511000	0.50034	AGT		0.502	IQSEC2-201	KNOWN	basic	protein_coding	protein_coding		XM_291345		G	53268433	C	G	53268433	3	3	574	1	0	0	0	0	1	0	0	0	7825	565	20	4	1427	4	IQSEC2	23	53268433	Missense_Mutation	SNP	C	TCGA-DZ-6131-01A-11D-1961-08	18306979	53268433	102002127	43	33990										
SKI	6497	hgsc.bcm.edu	37	chr1	2160390	2160390	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gggcgcggccgcggtgccggCgccggtgcccgcagccaccg	19	18	0	0	rs28384811	byFrequency	TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:2160390C>G	ENST00000378536.4	+	1	257	c.185C>G	c.(184-186)gCg>gGg	p.A62G		NM_003036.3	NP_003027.1	P12755	SKI_HUMAN	SKI proto-oncogene	62					anterior/posterior axis specification (GO:0009948)|BMP signaling pathway (GO:0030509)|bone morphogenesis (GO:0060349)|camera-type eye development (GO:0043010)|camera-type eye morphogenesis (GO:0048593)|cell motility (GO:0048870)|cell proliferation (GO:0008283)|embryonic limb morphogenesis (GO:0030326)|face morphogenesis (GO:0060325)|gene expression (GO:0010467)|lens morphogenesis in camera-type eye (GO:0002089)|myelination in peripheral nervous system (GO:0022011)|myotube differentiation (GO:0014902)|negative regulation of activin receptor signaling pathway (GO:0032926)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of cell proliferation (GO:0008285)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of Schwann cell proliferation (GO:0010626)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neural tube closure (GO:0001843)|nose morphogenesis (GO:0043585)|olfactory bulb development (GO:0021772)|palate development (GO:0060021)|positive regulation of DNA binding (GO:0043388)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of Wnt signaling pathway (GO:0030177)|protein homotrimerization (GO:0070207)|regulation of apoptotic process (GO:0042981)|retina development in camera-type eye (GO:0060041)|skeletal muscle fiber development (GO:0048741)|SMAD protein signal transduction (GO:0060395)|somatic stem cell maintenance (GO:0035019)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|transcription factor complex (GO:0005667)|transcriptional repressor complex (GO:0017053)	chromatin binding (GO:0003682)|histone deacetylase inhibitor activity (GO:0046811)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)|repressing transcription factor binding (GO:0070491)|SMAD binding (GO:0046332)|transcription corepressor activity (GO:0003714)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)			central_nervous_system(1)|kidney(2)|lung(5)|prostate(1)|stomach(1)	10	all_cancers(77;0.000139)|all_epithelial(69;4.45e-05)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)			Epithelial(90;2.14e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.72e-29)|GBM - Glioblastoma multiforme(42;2.45e-08)|Colorectal(212;5.33e-05)|COAD - Colon adenocarcinoma(227;0.000228)|Kidney(185;0.00268)|BRCA - Breast invasive adenocarcinoma(365;0.00471)|STAD - Stomach adenocarcinoma(132;0.0147)|KIRC - Kidney renal clear cell carcinoma(229;0.0385)|Lung(427;0.207)		gcggtgccggcgccggTGCCC	0.776													C|||	229	0.0457268	0.0234	0.0576	5008	,	,		4535	0.0079		0.0706	False		,,,				2504	0.0808				Ovarian(177;144 1678 13697 20086 27838 40755)											0													1	1	1					1																	2160390		788	1840	2628	SO:0001583	missense	6497			X15218	CCDS39.1	1p36.33	2014-06-25	2014-06-25		ENSG00000157933	ENSG00000157933		"SKI transcriptional corepressors"	10896	protein-coding gene	gene with protein product		164780	"v-ski avian sarcoma viral oncogene homolog"			2762147	Standard	NM_003036		Approved		uc001aja.4	P12755	OTTHUMG00000001407	ENST00000378536.4:c.185C>G	1.37:g.2160390C>G	ENSP00000367797:p.Ala62Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SYT7	Missense_Mutation	SNP	ENST00000378536.4	37	CCDS39.1	102	0.046703296703296704	20	0.04065040650406504	28	0.07734806629834254	3	0.005244755244755245	51	0.06728232189973615	C	9.688	1.151208	0.21371	.	.	ENSG00000157933	ENST00000378536	D	0.95821	-3.82	2.3	2.3	0.28687	.	.	.	.	.	T	0.47857	0.1468	N	0.08118	0	0.45733	P	0.001363000000000003	D	0.57899	0.981	P	0.58520	0.84	T	0.76271	-0.3020	8	0.20519	T	0.43	-11.9718	7.7374	0.28823	0.0:1.0:0.0:0.0	rs28384811	62	P12755	SKI_HUMAN	G	62	ENSP00000367797:A62G	ENSP00000367797:A62G	A	+	2	0	SKI	2150250	0.994000	0.37717	0.998000	0.56505	0.971000	0.66376	0.878000	0.28126	1.104000	0.41587	0.185000	0.17295	GCG		0.776	SKI-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004070.1	NM_003036		G	2160390	C	G	2160390	3	3	575	1	0	0	0	0	1	0	0	0	14370	768	27	4	187	4	SKI	1	2160390	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08		2160390	247090231	1	33991										
SLC2A5	6518	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	9097752	9097752	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ctggttgatctctatgaacgTcttggccttggtctccggga	12	10	3	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:9097752T>C	ENST00000377424.4	-	12	1578	c.1399A>G	c.(1399-1401)Acg>Gcg	p.T467A	SLC2A5_ENST00000535586.1_Missense_Mutation_p.T352A|SLC2A5_ENST00000536305.1_Missense_Mutation_p.T408A	NM_003039.2	NP_003030.1	P22732	GTR5_HUMAN	solute carrier family 2 (facilitated glucose/fructose transporter), member 5	467					carbohydrate metabolic process (GO:0005975)|cellular response to fructose stimulus (GO:0071332)|fructose transport (GO:0015755)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	fructose transmembrane transporter activity (GO:0005353)|glucose transmembrane transporter activity (GO:0005355)			endometrium(6)|kidney(15)|large_intestine(6)|lung(4)|ovary(1)|pancreas(2)|prostate(1)|urinary_tract(1)	36	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.78e-07)|COAD - Colon adenocarcinoma(227;8.83e-05)|Kidney(185;0.000286)|KIRC - Kidney renal clear cell carcinoma(229;0.00103)|STAD - Stomach adenocarcinoma(132;0.0019)|BRCA - Breast invasive adenocarcinoma(304;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		TCTATGAACGTCTTGGCCTTG	0.512																																																0													127	131	130					1																	9097752		2203	4300	6503	SO:0001583	missense	6518			BC001820	CCDS99.1, CCDS44054.1	1p36.2	2013-05-22			ENSG00000142583	ENSG00000142583		"Solute carriers"	11010	protein-coding gene	gene with protein product		138230		GLUT5		9691177	Standard	NM_003039		Approved		uc001apo.3	P22732	OTTHUMG00000001771	ENST00000377424.4:c.1399A>G	1.37:g.9097752T>C	ENSP00000366641:p.Thr467Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q14770|Q5T977|Q8IVB3	Missense_Mutation	SNP	ENST00000377424.4	37	CCDS99.1	.	.	.	.	.	.	.	.	.	.	T	18.61	3.661340	0.67700	.	.	ENSG00000142583	ENST00000377424;ENST00000456780;ENST00000536305;ENST00000535586	T;T;T	0.76448	-1.02;-1.02;-1.02	5.53	5.53	0.82687	Major facilitator superfamily domain, general substrate transporter (1);	0.047424	0.85682	D	0.000000	D	0.89842	0.6832	M	0.93197	3.39	0.53005	D	0.999969	D;D;D	0.61080	0.971;0.971;0.989	P;P;D	0.64042	0.872;0.872;0.921	D	0.92195	0.5763	10	0.87932	D	0	.	13.3288	0.60475	0.0:0.0:0.0:1.0	.	423;408;467	B4DG19;B4DU31;P22732	.;.;GTR5_HUMAN	A	467;450;408;352	ENSP00000366641:T467A;ENSP00000440688:T408A;ENSP00000442744:T352A	ENSP00000366641:T467A	T	-	1	0	SLC2A5	9020339	1.000000	0.71417	0.853000	0.33588	0.611000	0.37282	3.992000	0.56980	2.220000	0.72140	0.533000	0.62120	ACG		0.512	SLC2A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004932.1	NM_003039		C	9097752	T	C	9097752	3	2	575	1	0	0	0	0	1	0	0	0	14561	1667	58	3	110	3	SLC2A5	1	9097752	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	6937362	9097752	240152869	2	33992										
ALPL	249	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	21902288	21902288	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aggccctgcatgaggcggtgGagatggaccgggccatcggg	19	10	0	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:21902288G>A	ENST00000374840.3	+	10	1310	c.1060G>A	c.(1060-1062)Gag>Aag	p.E354K	ALPL_ENST00000425315.2_Missense_Mutation_p.E354K|ALPL_ENST00000539907.1_Missense_Mutation_p.E277K|ALPL_ENST00000540617.1_Missense_Mutation_p.E299K|ALPL_ENST00000374830.1_5'UTR|ALPL_ENST00000374832.1_Missense_Mutation_p.E354K|ALPL_ENST00000374829.1_5'UTR	NM_000478.4	NP_000469.3	P05186	PPBT_HUMAN	alkaline phosphatase, liver/bone/kidney	354			E -> D (in HOPS).		cellular response to organic cyclic compound (GO:0071407)|cementum mineralization (GO:0071529)|developmental process involved in reproduction (GO:0003006)|endochondral ossification (GO:0001958)|osteoblast differentiation (GO:0001649)|response to antibiotic (GO:0046677)|response to glucocorticoid (GO:0051384)|response to lipopolysaccharide (GO:0032496)|response to vitamin D (GO:0033280)|skeletal system development (GO:0001501)	anchored component of membrane (GO:0031225)|extracellular matrix (GO:0031012)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	alkaline phosphatase activity (GO:0004035)|metal ion binding (GO:0046872)|pyrophosphatase activity (GO:0016462)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(1)|lung(11)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	26		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)|Fospropofol(DB06716)	TGAGGCGGTGGAGATGGACCG	0.612																																																0													142	136	138					1																	21902288		2203	4300	6503	SO:0001583	missense	249			BC021289	CCDS217.1, CCDS53274.1, CCDS53275.1	1p36.12	2008-02-05			ENSG00000162551	ENSG00000162551	3.1.3.1		438	protein-coding gene	gene with protein product		171760		HOPS		3532105, 3446011	Standard	NM_001127501		Approved	TNSALP	uc001bet.3	P05186	OTTHUMG00000002949	ENST00000374840.3:c.1060G>A	1.37:g.21902288G>A	ENSP00000363973:p.Glu354Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4E7|B2RMP8|B7Z387|B7Z4Y6|O75090|Q2TAI7|Q59EJ7|Q5BKZ5|Q5VTG5|Q6NZI8|Q8WU32|Q9UBK0	Missense_Mutation	SNP	ENST00000374840.3	37	CCDS217.1	.	.	.	.	.	.	.	.	.	.	G	13.89	2.371272	0.42003	.	.	ENSG00000162551	ENST00000539907;ENST00000540617;ENST00000374840;ENST00000374832;ENST00000425315	D;D;D;D;D	0.96716	-4.1;-4.1;-4.1;-4.1;-4.1	4.91	3.99	0.46301	Alkaline phosphatase-like, alpha/beta/alpha (1);Alkaline-phosphatase-like, core domain (1);	0.056236	0.64402	D	0.000001	D	0.96796	0.8954	M	0.83852	2.665	0.51233	D	0.999917	B;P	0.52692	0.407;0.955	P;P	0.54544	0.507;0.755	D	0.95649	0.8705	10	0.52906	T	0.07	-8.6255	7.1413	0.25558	0.0934:0.1721:0.7345:0.0	.	277;354	B7Z387;P05186	.;PPBT_HUMAN	K	277;299;354;354;354	ENSP00000437674:E277K;ENSP00000442672:E299K;ENSP00000363973:E354K;ENSP00000363965:E354K;ENSP00000394765:E354K	ENSP00000363965:E354K	E	+	1	0	ALPL	21774875	1.000000	0.71417	0.892000	0.35008	0.007000	0.05969	5.646000	0.67916	1.071000	0.40834	-0.291000	0.09656	GAG		0.612	ALPL-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000008202.1	NM_000478		A	21902288	G	A	21902288	3	1	575	1	0	0	0	0	1	0	0	0	547	1175	41	2	1094	2	ALPL	1	21902288	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	12804536	21902288	227348333	3	33993										
WASF2	10163	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	27739179	27739179	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	cttgcatccacgttttcaacAcagccaatgctgccattctg	6	14	2	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:27739179A>G	ENST00000430629.2	-	7	926	c.711T>C	c.(709-711)tgT>tgC	p.C237C	WASF2_ENST00000536657.1_Silent_p.C237C	NM_001201404.1|NM_006990.3	NP_001188333.1|NP_008921.1	Q9Y6W5	WASF2_HUMAN	WAS protein family, member 2	237					actin cytoskeleton organization (GO:0030036)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|negative regulation of stress fiber assembly (GO:0051497)|positive regulation of lamellipodium assembly (GO:0010592)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|lamellipodium (GO:0030027)|SCAR complex (GO:0031209)	actin binding (GO:0003779)|protein complex binding (GO:0032403)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(2)|ovary(1)|prostate(1)|skin(3)|urinary_tract(1)	18		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0446)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.7e-08)|COAD - Colon adenocarcinoma(152;2e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00139)|KIRC - Kidney renal clear cell carcinoma(1967;0.00204)|STAD - Stomach adenocarcinoma(196;0.00325)|READ - Rectum adenocarcinoma(331;0.0481)		CGTTTTCAACACAGCCAATGC	0.488																																																0													153	137	142					1																	27739179		2203	4300	6503	SO:0001819	synonymous_variant	10163			AB026542	CCDS304.1, CCDS55582.1	1p36.11	2011-05-10			ENSG00000158195	ENSG00000158195			12733	protein-coding gene	gene with protein product		605875				10381382	Standard	NM_006990		Approved	WAVE2, SCAR2	uc001bof.2	Q9Y6W5	OTTHUMG00000003393	ENST00000430629.2:c.711T>C	1.37:g.27739179A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DZN0|O60794|Q9UDY7	Silent	SNP	ENST00000430629.2	37	CCDS304.1																																																																																				0.488	WASF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000009516.1	NM_006990		G	27739179	A	G	27739179	2	3	575	1	0	0	0	0	0	0	0	1	17265	157	6	3		3	WASF2	1	27739179	Silent	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	5836891	27739179	221511442	4	33994										
MACF1	23499	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	39888512	39888512	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gataccgaggagctcatagcCaatcagaaacctccatctgc	8	13	3	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:39888512C>T	ENST00000372915.3	+	59	16191	c.16104C>T	c.(16102-16104)gcC>gcT	p.A5368A	MACF1_ENST00000567887.1_Silent_p.A5400A|MACF1_ENST00000289893.4_Silent_p.A3803A|MACF1_ENST00000564288.1_Silent_p.A5363A|MACF1_ENST00000539005.1_Silent_p.A3280A|MACF1_ENST00000317713.7_Silent_p.A3301A|MACF1_ENST00000545844.1_Silent_p.A3301A|MACF1_ENST00000361689.2_Silent_p.A3301A			Q9UPN3	MACF1_HUMAN	microtubule-actin crosslinking factor 1	5368					ATP catabolic process (GO:0006200)|cell cycle arrest (GO:0007050)|Golgi to plasma membrane protein transport (GO:0043001)|positive regulation of Wnt signaling pathway (GO:0030177)|regulation of epithelial cell migration (GO:0010632)|regulation of focal adhesion assembly (GO:0051893)|regulation of microtubule-based process (GO:0032886)|Wnt signaling pathway (GO:0016055)|wound healing (GO:0042060)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|ATPase activity (GO:0016887)|calcium ion binding (GO:0005509)|poly(A) RNA binding (GO:0044822)			breast(11)|central_nervous_system(5)|endometrium(18)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(36)|lung(78)|ovary(12)|prostate(2)|skin(9)|stomach(2)|upper_aerodigestive_tract(8)|urinary_tract(10)	203	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)			AGCTCATAGCCAATCAGAAAC	0.468																																																0													100	95	97					1																	39888512		2203	4300	6503	SO:0001819	synonymous_variant	23499			AB007934	CCDS435.1	1p32-p31	2013-01-10			ENSG00000127603	ENSG00000127603		"EF-hand domain containing"	13664	protein-coding gene	gene with protein product	"actin cross-linking factor", "620 kDa actin binding protein", "macrophin 1", "trabeculin-alpha", "actin cross-linking family protein 7"	608271				7635207, 10529403	Standard	NM_012090		Approved	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776	uc031pmc.1	Q9UPN3	OTTHUMG00000007754	ENST00000372915.3:c.16104C>T	1.37:g.39888512C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B1ALC5|E9PJT0|O75053|Q5VW20|Q8WXY1|Q8WXY2|Q96PK2|Q9H540|Q9UKP0|Q9ULG9	Silent	SNP	ENST00000372915.3	37		.	.	.	.	.	.	.	.	.	.	C	9.928	1.213943	0.22289	.	.	ENSG00000127603	ENST00000372925	.	.	.	5.96	5.03	0.67393	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	9.8185	0.40867	0.1407:0.7902:0.0:0.0691	.	.	.	.	X	2414	.	.	Q	+	1	0	MACF1	39661099	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.321000	0.51999	1.481000	0.48307	0.650000	0.86243	CAA		0.468	MACF1-028	NOVEL	not_organism_supported|basic|appris_candidate|exp_conf	protein_coding	protein_coding	OTTHUMT00000392096.1	NM_033044		T	39888512	C	T	39888512	2	4	575	1	0	0	0	0	0	0	0	1	9151	581	21	2		2	MACF1	1	39888512	Silent	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	12149333	39888512	209362109	5	33995										
TESK2	10420	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	45813333	45813333	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	caggtgccatccagaatgggGaacccaccacggccagcttc	11	15	0	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:45813333G>A	ENST00000372086.3	-	7	1056	c.656C>T	c.(655-657)tCc>tTc	p.S219F	TESK2_ENST00000486676.1_5'UTR|TESK2_ENST00000372084.1_Missense_Mutation_p.S219F|TESK2_ENST00000538496.1_Missense_Mutation_p.S136F|TESK2_ENST00000341771.6_Missense_Mutation_p.S219F	NM_007170.2	NP_009101.2	Q96S53	TESK2_HUMAN	testis-specific kinase 2	219	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				actin cytoskeleton organization (GO:0030036)|focal adhesion assembly (GO:0048041)|protein phosphorylation (GO:0006468)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|protein tyrosine kinase activity (GO:0004713)			breast(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|liver(1)|lung(9)|ovary(2)|pancreas(2)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	32	Acute lymphoblastic leukemia(166;0.155)					CCAGAATGGGGAACCCACCAC	0.473																																																0													112	113	113					1																	45813333		1904	4153	6057	SO:0001583	missense	10420			AJ132545	CCDS41323.1	1p32	2010-04-27			ENSG00000070759	ENSG00000070759	2.7.12.1		11732	protein-coding gene	gene with protein product		604746				10512679	Standard	NM_007170		Approved		uc001cns.1	Q96S53	OTTHUMG00000007680	ENST00000372086.3:c.656C>T	1.37:g.45813333G>A	ENSP00000361158:p.Ser219Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T422|Q5T423|Q8N520|Q9Y3Q6	Missense_Mutation	SNP	ENST00000372086.3	37	CCDS41323.1	.	.	.	.	.	.	.	.	.	.	G	27.9	4.874832	0.91664	.	.	ENSG00000070759	ENST00000372084;ENST00000372086;ENST00000372083;ENST00000341771;ENST00000538496	T;T;T;T	0.69926	-0.44;-0.12;-0.44;-0.12	5.98	5.98	0.97165	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.104533	0.43110	N	0.000604	D	0.84933	0.5582	M	0.87900	2.915	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	D	0.86499	0.1802	10	0.87932	D	0	-17.2903	18.6171	0.91306	0.0:0.0:1.0:0.0	.	219;219	Q96S53-3;Q96S53	.;TESK2_HUMAN	F	219;219;203;219;136	ENSP00000361156:S219F;ENSP00000361158:S219F;ENSP00000343940:S219F;ENSP00000441746:S136F	ENSP00000343940:S219F	S	-	2	0	TESK2	45585920	1.000000	0.71417	1.000000	0.80357	0.718000	0.41266	7.907000	0.87430	2.843000	0.97960	0.585000	0.79938	TCC		0.473	TESK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000020523.1	NM_007170		A	45813333	G	A	45813333	3	1	575	1	0	0	0	0	1	0	0	0	15780	1174	41	2	1079	2	TESK2	1	45813333	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	5924821	45813333	203437288	6	33996										
TMEM69	51249	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	46159260	46159260	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tcctatctttcttgggtgggAtcagatggggttttgctcta	12	7	4	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:46159260A>G	ENST00000372025.4	+	3	1584	c.427A>G	c.(427-429)Atc>Gtc	p.I143V	RP11-767N6.7_ENST00000430643.1_RNA|TMEM69_ENST00000496366.1_3'UTR	NM_016486.3	NP_057570.2	Q5SWH9	TMM69_HUMAN	transmembrane protein 69	143						integral component of membrane (GO:0016021)				kidney(3)|lung(4)|ovary(1)	8	Acute lymphoblastic leukemia(166;0.155)					CTTGGGTGGGATCAGATGGGG	0.438																																																0													89	87	88					1																	46159260		1859	4090	5949	SO:0001583	missense	51249			BC040289, BC013608	CCDS41325.1	1p34.1	2008-02-05	2005-08-17	2005-08-17	ENSG00000159596	ENSG00000159596			28035	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 154"	C1orf154			Standard	NM_016486		Approved	FLJ21029	uc001cor.1	Q5SWH9	OTTHUMG00000040993	ENST00000372025.4:c.427A>G	1.37:g.46159260A>G	ENSP00000361095:p.Ile143Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q3SWW5|Q7Z2G0|Q9P0P9	Missense_Mutation	SNP	ENST00000372025.4	37	CCDS41325.1	.	.	.	.	.	.	.	.	.	.	A	4.400	0.073919	0.08485	.	.	ENSG00000159596	ENST00000372025	.	.	.	5.83	-1.16	0.09678	.	0.588234	0.19061	N	0.123779	T	0.23330	0.0564	N	0.20357	0.565	0.19575	N	0.999966	B	0.10296	0.003	B	0.10450	0.005	T	0.25745	-1.0123	9	0.11794	T	0.64	-0.7606	12.6228	0.56614	0.7619:0.0:0.2381:0.0	.	143	Q5SWH9	TMM69_HUMAN	V	143	.	ENSP00000361095:I143V	I	+	1	0	TMEM69	45931847	0.218000	0.23608	0.138000	0.22173	0.907000	0.53573	0.632000	0.24583	-0.248000	0.09583	-0.415000	0.06103	ATC		0.438	TMEM69-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098390.1	NM_016486		G	46159260	A	G	46159260	3	3	575	1	0	0	0	0	1	0	0	0	16210	333	12	3	433	3	TMEM69	1	46159260	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	345927	46159260	203091361	7	33997										
ZFYVE9	9372	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	52704507	52704507	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	agacacaccagcagcaaattAtctatctaatggttgtgatt	7	8	2	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:52704507A>G	ENST00000371591.1	+	3	1549	c.1418A>G	c.(1417-1419)tAt>tGt	p.Y473C	ZFYVE9_ENST00000287727.3_Missense_Mutation_p.Y473C|ZFYVE9_ENST00000357206.2_Missense_Mutation_p.Y473C	NM_004799.2|NM_007324.2	NP_004790.2|NP_015563.2	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9	473					endocytosis (GO:0006897)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|proteolysis (GO:0006508)|SMAD protein complex assembly (GO:0007183)|SMAD protein import into nucleus (GO:0007184)|transforming growth factor beta receptor signaling pathway (GO:0007179)	early endosome (GO:0005769)|early endosome membrane (GO:0031901)	1-phosphatidylinositol binding (GO:0005545)|metal ion binding (GO:0046872)|serine-type peptidase activity (GO:0008236)			breast(1)|central_nervous_system(4)|endometrium(3)|kidney(1)|large_intestine(12)|lung(17)|ovary(2)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(6)	53						GCAGCAAATTATCTATCTAAT	0.378																																																0													95	101	99					1																	52704507		2203	4299	6502	SO:0001583	missense	9372			AF104304	CCDS563.1, CCDS564.1	1p32.3	2014-06-13	2004-05-21	2004-05-26	ENSG00000157077	ENSG00000157077		"Zinc fingers, FYVE domain containing"	6775	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 173"	603755	"MAD, mothers against decapentaplegic homolog (Drosophila) interacting protein, receptor activation anchor"	MADHIP		9865696	Standard	NM_007324		Approved	SMADIP, SARA, PPP1R173	uc001cto.4	O95405	OTTHUMG00000008061	ENST00000371591.1:c.1418A>G	1.37:g.52704507A>G	ENSP00000360647:p.Tyr473Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T0F6|Q5T0F7|Q9UNE1|Q9Y5R7	Missense_Mutation	SNP	ENST00000371591.1	37	CCDS563.1	.	.	.	.	.	.	.	.	.	.	A	7.890	0.732073	0.15507	.	.	ENSG00000157077	ENST00000357206;ENST00000361625;ENST00000287727;ENST00000371591	T;T;T;T	0.51574	1.19;0.7;1.19;1.19	5.69	4.78	0.61160	.	0.445610	0.20824	N	0.085019	T	0.25005	0.0607	N	0.08118	0	0.20764	N	0.99985	B;B;B	0.33512	0.415;0.01;0.0	B;B;B	0.33392	0.163;0.002;0.0	T	0.09662	-1.0664	10	0.38643	T	0.18	.	6.1713	0.20418	0.1413:0.6538:0.1348:0.0701	.	473;473;473	O95405-2;O95405;O95405-3	.;ZFYV9_HUMAN;.	C	473	ENSP00000349737:Y473C;ENSP00000355358:Y473C;ENSP00000287727:Y473C;ENSP00000360647:Y473C	ENSP00000287727:Y473C	Y	+	2	0	ZFYVE9	52477095	1.000000	0.71417	0.843000	0.33291	0.920000	0.55202	1.818000	0.39012	1.420000	0.47138	-0.132000	0.14878	TAT		0.378	ZFYVE9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000022083.1	NM_007324		G	52704507	A	G	52704507	3	3	575	1	0	0	0	0	1	0	0	0	17683	449	16	3	1424	3	ZFYVE9	1	52704507	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	6545247	52704507	196546114	8	33998										
ZYG11B	79699	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	53262039	53262039	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	atgcaaaggatggcagttgcTatcatttctatcctggctgc	10	9	2	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:53262039T>C	ENST00000294353.6	+	7	1555	c.1410T>C	c.(1408-1410)gcT>gcC	p.A470A	ZYG11B_ENST00000545132.1_Silent_p.A470A|ZYG11B_ENST00000443756.2_Silent_p.A470A	NM_024646.2	NP_078922.1	Q9C0D3	ZY11B_HUMAN	zyg-11 family member B, cell cycle regulator	470										breast(1)|endometrium(1)|kidney(6)|large_intestine(5)|lung(10)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	30						TGGCAGTTGCTATCATTTCTA	0.433																																																0													82	76	78					1																	53262039		2203	4300	6503	SO:0001819	synonymous_variant	79699			AB051517	CCDS30717.1	1p32.3	2013-01-17	2012-12-10	2005-07-11	ENSG00000162378	ENSG00000162378		"ZYG11 cell cycle regulator family"	25820	protein-coding gene	gene with protein product			"zyg-11 homolog (C. elegans)", "zyg-11 homolog B (C. elegans)"	ZYG11		11214970	Standard	NM_024646		Approved	FLJ13456	uc001cuj.3	Q9C0D3	OTTHUMG00000008938	ENST00000294353.6:c.1410T>C	1.37:g.53262039T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N2X3|Q9H8L8	Silent	SNP	ENST00000294353.6	37	CCDS30717.1																																																																																				0.433	ZYG11B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000024749.1	NM_024646		C	53262039	T	C	53262039	2	2	575	1	0	0	0	0	0	0	0	1	18265	1509	53	3		3	ZYG11B	1	53262039	Silent	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	557532	53262039	195988582	9	33999										
ODF2L	57489	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	86851227	86851227	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	taccaactccgcttccttaaGtgttgcttccaattcagtct	5	13	2	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:86851227G>A	ENST00000359242.3	-	3	441	c.160C>T	c.(160-162)Ctt>Ttt	p.L54F	ODF2L_ENST00000370566.3_Missense_Mutation_p.L54F|ODF2L_ENST00000394731.1_Intron|ODF2L_ENST00000317336.7_Missense_Mutation_p.L54F|ODF2L_ENST00000294678.2_Missense_Mutation_p.L54F|ODF2L_ENST00000370567.1_Missense_Mutation_p.L54F	NM_001007022.2	NP_001007023.2	Q9ULJ1	ODF2L_HUMAN	outer dense fiber of sperm tails 2-like	54						centrosome (GO:0005813)				endometrium(2)|kidney(2)|large_intestine(10)|lung(6)|ovary(1)|pancreas(1)|skin(1)|stomach(1)	24				all cancers(265;0.0313)|Epithelial(280;0.0611)		GCTTCCTTAAGTGTTGCTTCC	0.323																																																0													87	84	85					1																	86851227		2203	4298	6501	SO:0001583	missense	57489				CCDS30763.1, CCDS41354.1, CCDS30763.2, CCDS41354.2, CCDS53339.1	1p22.3	2008-02-05			ENSG00000122417	ENSG00000122417			29225	protein-coding gene	gene with protein product						10574462	Standard	NM_020729		Approved	KIAA1229	uc001dll.2	Q9ULJ1	OTTHUMG00000010080	ENST00000359242.3:c.160C>T	1.37:g.86851227G>A	ENSP00000359600:p.Leu54Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A8MU56|B4E037|Q05C40|Q5BJG5|Q5TBX3|Q5TBX4|Q86X31	Missense_Mutation	SNP	ENST00000359242.3	37	CCDS41354.2	.	.	.	.	.	.	.	.	.	.	G	11.71	1.718586	0.30503	.	.	ENSG00000122417	ENST00000441121;ENST00000370566;ENST00000359242;ENST00000317336;ENST00000370567;ENST00000294678;ENST00000465959	T;T;T;T;T	0.39056	1.1;1.1;1.15;1.15;1.12	5.4	0.554	0.17241	.	0.523188	0.20488	N	0.091342	T	0.06280	0.0162	N	0.04768	-0.165	0.44417	D	0.997339	B;B;B;B;B	0.24043	0.001;0.027;0.008;0.011;0.096	B;B;B;B;B	0.21360	0.004;0.013;0.012;0.009;0.034	T	0.15752	-1.0426	10	0.38643	T	0.18	0.4325	1.1465	0.01776	0.2214:0.1715:0.4328:0.1743	.	54;54;54;54;54	B4E037;Q9ULJ1-2;Q9ULJ1-4;Q9ULJ1-3;Q9ULJ1	.;.;.;.;ODF2L_HUMAN	F	54	ENSP00000359597:L54F;ENSP00000359600:L54F;ENSP00000320165:L54F;ENSP00000359598:L54F;ENSP00000294678:L54F	ENSP00000294678:L54F	L	-	1	0	ODF2L	86623815	0.325000	0.24660	0.872000	0.34217	0.966000	0.64601	0.460000	0.21924	0.196000	0.20367	0.650000	0.86243	CTT		0.323	ODF2L-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000027873.2			A	86851227	G	A	86851227	3	1	575	1	0	0	0	0	1	0	0	0	10835	1029	36	2	1990	2	ODF2L	1	86851227	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	33589188	86851227	162399394	10	34000										
ABCA4	24	broad.mit.edu	37	chr1	94522330	94522330	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ggcagtggagaaagccaacaAgaacaggaagaggatgaatg	15	5	0	4			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:94522330A>G	ENST00000370225.3	-	15	2295	c.2209T>C	c.(2209-2211)Ttg>Ctg	p.L737L	ABCA4_ENST00000535735.1_Intron	NM_000350.2	NP_000341.2	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 4	737					phospholipid transfer to membrane (GO:0006649)|photoreceptor cell maintenance (GO:0045494)|phototransduction, visible light (GO:0007603)|retinoid metabolic process (GO:0001523)|transmembrane transport (GO:0055085)|transport (GO:0006810)|visual perception (GO:0007601)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|photoreceptor disc membrane (GO:0097381)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|phospholipid-translocating ATPase activity (GO:0004012)|transporter activity (GO:0005215)			NS(2)|breast(6)|central_nervous_system(5)|endometrium(9)|haematopoietic_and_lymphoid_tissue(5)|kidney(10)|large_intestine(25)|lung(57)|ovary(4)|pancreas(1)|prostate(4)|skin(10)|stomach(4)|upper_aerodigestive_tract(3)|urinary_tract(2)	147		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		AAAGCCAACAAGAACAGGAAG	0.522																																																0													107	96	100					1																	94522330		2203	4300	6503	SO:0001819	synonymous_variant	24			U88667	CCDS747.1	1p22	2013-01-23			ENSG00000198691	ENSG00000198691		"ATP binding cassette transporters / subfamily A"	34	protein-coding gene	gene with protein product	"Stargardt disease"	601691	"ATP-binding cassette transporter, retinal-specific"	STGD1, ABCR, RP19, STGD		9490294	Standard	NM_000350		Approved	FFM, ARMD2, CORD3	uc001dqh.3	P78363	OTTHUMG00000010622	ENST00000370225.3:c.2209T>C	1.37:g.94522330A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O15112|O60438|O60915|Q0QD48|Q4LE31	Silent	SNP	ENST00000370225.3	37	CCDS747.1																																																																																				0.522	ABCA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029320.1	NM_000350		G	94522330	A	G	94522330	2	3	575	1	0	0	0	0	0	0	0	1	34	69	3	3		3	ABCA4	1	94522330	Silent	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	7671103	94522330	154728291	11	34001										
ARHGAP29	9411	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	94639942	94639942	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tcattgtagtcttggcagttAggctgttttgttcatactgt	10	6	3	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:94639942A>G	ENST00000260526.6	-	23	3451	c.3269T>C	c.(3268-3270)cTa>cCa	p.L1090P	ARHGAP29_ENST00000482481.1_5'Flank	NM_004815.3	NP_004806.3	Q52LW3	RHG29_HUMAN	Rho GTPase activating protein 29	1090					positive regulation of Rho GTPase activity (GO:0032321)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	metal ion binding (GO:0046872)|PDZ domain binding (GO:0030165)|Rho GTPase activator activity (GO:0005100)			NS(1)|breast(5)|endometrium(6)|kidney(2)|large_intestine(9)|lung(19)|ovary(1)|skin(8)|upper_aerodigestive_tract(1)|urinary_tract(2)	54		all_lung(203;0.000732)|Lung NSC(277;0.00328)		all cancers(265;0.0187)|Epithelial(280;0.159)		CTTGGCAGTTAGGCTGTTTTG	0.418																																																0													228	214	218					1																	94639942		2203	4300	6503	SO:0001583	missense	9411				CCDS748.1	1p22.1	2011-06-29			ENSG00000137962	ENSG00000137962		"Rho GTPase activating proteins"	30207	protein-coding gene	gene with protein product		610496				9305890	Standard	NM_004815		Approved	PARG1	uc001dqj.4	Q52LW3	OTTHUMG00000010643	ENST00000260526.6:c.3269T>C	1.37:g.94639942A>G	ENSP00000260526:p.Leu1090Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O15463|Q59H86|Q5VYZ0|Q6NVX2|Q8TBI6	Missense_Mutation	SNP	ENST00000260526.6	37	CCDS748.1	.	.	.	.	.	.	.	.	.	.	A	14.86	2.660169	0.47572	.	.	ENSG00000137962	ENST00000260526	T	0.24723	1.84	5.73	-1.98	0.07480	.	1.632400	0.04169	N	0.324470	T	0.04497	0.0123	L	0.29908	0.895	0.09310	N	1	P	0.50710	0.938	B	0.33799	0.17	T	0.21827	-1.0234	10	0.48119	T	0.1	3.2259	2.7638	0.05314	0.5497:0.1174:0.2307:0.1023	.	1090	Q52LW3	RHG29_HUMAN	P	1090	ENSP00000260526:L1090P	ENSP00000260526:L1090P	L	-	2	0	ARHGAP29	94412530	0.041000	0.20044	0.000000	0.03702	0.391000	0.30476	0.816000	0.27267	-0.171000	0.10797	0.482000	0.46254	CTA		0.418	ARHGAP29-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029376.2	NM_004815		G	94639942	A	G	94639942	3	3	575	1	0	0	0	0	1	0	0	0	878	420	15	3	520	3	ARHGAP29	1	94639942	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	117612	94639942	154610679	12	34002										
GSTM1	2944	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	110233169	110233169	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ccttcccaaatctgaaggacTtcatctcccgctttgaggtg	8	13	3	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:110233169T>G	ENST00000309851.5	+	7	604	c.550T>G	c.(550-552)Ttc>Gtc	p.F184V	GSTM1_ENST00000369823.2_Missense_Mutation_p.F203V|GSTM2_ENST00000369831.2_Intron|GSTM1_ENST00000490021.2_Intron|GSTM2_ENST00000460717.3_Intron|GSTM1_ENST00000369819.2_Intron|GSTM1_ENST00000483399.2_Intron|GSTM1_ENST00000349334.3_Intron|AC000032.2_ENST00000562538.1_RNA	NM_000561.3	NP_000552.2	P09488	GSTM1_HUMAN	glutathione S-transferase mu 1	184	GST C-terminal.				cellular detoxification of nitrogen compound (GO:0070458)|glutathione derivative biosynthetic process (GO:1901687)|glutathione metabolic process (GO:0006749)|nitrobenzene metabolic process (GO:0018916)|small molecule metabolic process (GO:0044281)|xenobiotic catabolic process (GO:0042178)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|cytosol (GO:0005829)	enzyme binding (GO:0019899)|glutathione binding (GO:0043295)|glutathione transferase activity (GO:0004364)|protein homodimerization activity (GO:0042803)			endometrium(1)|lung(1)|ovary(1)	3		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		all cancers(265;0.0122)|Colorectal(144;0.0129)|Epithelial(280;0.0146)|Lung(183;0.0422)|COAD - Colon adenocarcinoma(174;0.047)|LUSC - Lung squamous cell carcinoma(189;0.227)	Azathioprine(DB00993)|Busulfan(DB01008)|Carboplatin(DB00958)|Cisplatin(DB00515)|Glutathione(DB00143)|Oxaliplatin(DB00526)	TCTGAAGGACTTCATCTCCCG	0.488									Naso-/Oropharyngeal/Laryngeal Cancer, Familial Clustering of;Melanoma, Familial Clustering of;ACTH-independent macronodular adrenal hyperplasia																																							0													209	116	148					1																	110233169		2158	4209	6367	SO:0001583	missense	2944	Familial Cancer Database	incl.: Familial Head and Neck Cancer; ;AIMAH, Cushing disease, Adrenal, Familial	BC036805	CCDS809.1, CCDS810.1	1p13.3	2012-06-21	2008-11-26		ENSG00000134184	ENSG00000134184	2.5.1.18	"Glutathione S-transferases / Soluble"	4632	protein-coding gene	gene with protein product		138350	"glutathione S-transferase M1"	GST1			Standard	NM_000561		Approved	MU, H-B	uc001dyk.3	P09488	OTTHUMG00000011635	ENST00000309851.5:c.550T>G	1.37:g.110233169T>G	ENSP00000311469:p.Phe184Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5GHG0|Q6FH88|Q8TC98|Q9UC96	Missense_Mutation	SNP	ENST00000309851.5	37	CCDS809.1	.	.	.	.	.	.	.	.	.	.	T	12.77	2.037761	0.35989	.	.	ENSG00000134184	ENST00000369823;ENST00000309851	T;T	0.02345	4.33;4.33	3.53	3.53	0.40419	Glutathione S-transferase, C-terminal-like (2);Glutathione S-transferase/chloride channel, C-terminal (1);Glutathione S-transferase, C-terminal (1);	0.149445	0.43416	U	0.000564	T	0.14056	0.0340	H	0.96269	3.795	0.80722	D	1	D	0.71674	0.998	D	0.87578	0.998	T	0.01810	-1.1269	10	0.87932	D	0	.	9.98	0.41809	0.0:0.0:0.0:1.0	.	184	P09488	GSTM1_HUMAN	V	203;184	ENSP00000358838:F203V;ENSP00000311469:F184V	ENSP00000311469:F184V	F	+	1	0	GSTM1	110034692	1.000000	0.71417	0.979000	0.43373	0.246000	0.25737	3.033000	0.49743	1.594000	0.50039	0.459000	0.35465	TTC		0.488	GSTM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032151.2	NM_000561		G	110233169	T	G	110233169	3	3	575	1	0	0	0	0	1	0	0	0	6844	1609	56	5	576	5	GSTM1	1	110233169	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	15593227	110233169	139017452	13	34003										
INSRR	3645	ucsc.edu	37	chr1	156821562	156821562	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tctttagggcacagcccctcGcacttgtggcagaatatgct	10	12	1	1	rs531765692		TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:156821562G>A	ENST00000368195.3	-	4	1356	c.960C>T	c.(958-960)tgC>tgT	p.C320C	NTRK1_ENST00000392302.2_Intron	NM_014215.2	NP_055030.1	P14616	INSRR_HUMAN	insulin receptor-related receptor	320					actin cytoskeleton reorganization (GO:0031532)|cellular response to alkaline pH (GO:0071469)|male sex determination (GO:0030238)|peptidyl-tyrosine phosphorylation (GO:0018108)|protein autophosphorylation (GO:0046777)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(13)|ovary(7)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)	42	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					ACAGCCCCTCGCACTTGTGGC	0.612																																																0													91	74	80					1																	156821562		2203	4300	6503	SO:0001819	synonymous_variant	3645			J05046	CCDS1160.1	1q21-q23	2013-02-11			ENSG00000027644	ENSG00000027644		"Fibronectin type III domain containing"	6093	protein-coding gene	gene with protein product		147671				2768234, 2249481	Standard	NM_014215		Approved	IRR	uc010pht.2	P14616	OTTHUMG00000041291	ENST00000368195.3:c.960C>T	1.37:g.156821562G>A		Somatic		WXS	Illumina HiSeq		O60724|Q5VZS3	Silent	SNP	ENST00000368195.3	37	CCDS1160.1																																																																																				0.612	INSRR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098929.1	NM_014215		A	156821562	G	A	156821562	2	1	575	1	0	0	0	0	0	0	0	1	7781	1079	38	1		1	INSRR	1	156821562	Silent	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	46588393	156821562	92429059	14	34004										
ATP1A2	477	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	160105252	160105252	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tgtggccgtgacgggtgacgGggtgaacgactcccctgcat	16	11	0	3			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:160105252G>A	ENST00000361216.3	+	16	2233	c.2144G>A	c.(2143-2145)gGg>gAg	p.G715E	ATP1A2_ENST00000392233.3_Missense_Mutation_p.G715E	NM_000702.3	NP_000693.1	P50993	AT1A2_HUMAN	ATPase, Na+/K+ transporting, alpha 2 polypeptide	715			G -> R (in FHM2; de novo mutation in a sporadic case). {ECO:0000269|PubMed:21352219}.		adult locomotory behavior (GO:0008344)|ATP biosynthetic process (GO:0006754)|ATP hydrolysis coupled proton transport (GO:0015991)|cardiac muscle contraction (GO:0060048)|cell communication by electrical coupling involved in cardiac conduction (GO:0086064)|cellular potassium ion homeostasis (GO:0030007)|cellular response to mechanical stimulus (GO:0071260)|cellular response to steroid hormone stimulus (GO:0071383)|cellular sodium ion homeostasis (GO:0006883)|ion transmembrane transport (GO:0034220)|locomotion (GO:0040011)|membrane depolarization during cardiac muscle cell action potential (GO:0086012)|negative regulation of cytosolic calcium ion concentration (GO:0051481)|negative regulation of heart contraction (GO:0045822)|negative regulation of striated muscle contraction (GO:0045988)|neurotransmitter uptake (GO:0001504)|potassium ion import (GO:0010107)|potassium ion transport (GO:0006813)|regulation of blood pressure (GO:0008217)|regulation of cardiac muscle cell contraction (GO:0086004)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of respiratory gaseous exchange by neurological system process (GO:0002087)|regulation of smooth muscle contraction (GO:0006940)|regulation of striated muscle contraction (GO:0006942)|regulation of the force of heart contraction (GO:0002026)|regulation of vasoconstriction (GO:0019229)|relaxation of cardiac muscle (GO:0055119)|response to nicotine (GO:0035094)|sodium ion export from cell (GO:0036376)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)|visual learning (GO:0008542)	caveola (GO:0005901)|cytoplasm (GO:0005737)|dendritic spine (GO:0043197)|endosome (GO:0005768)|plasma membrane (GO:0005886)|sodium:potassium-exchanging ATPase complex (GO:0005890)|synapse (GO:0045202)|T-tubule (GO:0030315)|vesicle (GO:0031982)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|metal ion binding (GO:0046872)|sodium:potassium-exchanging ATPase activity (GO:0005391)|steroid hormone binding (GO:1990239)			NS(1)|autonomic_ganglia(1)|breast(4)|central_nervous_system(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(13)|lung(30)|ovary(2)|skin(3)|upper_aerodigestive_tract(1)	69	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)			ACGGGTGACGGGGTGAACGAC	0.602																																																0													170	123	139					1																	160105252		2203	4300	6503	SO:0001583	missense	477			AB018321	CCDS1196.1	1q23.2	2014-09-17	2010-04-20		ENSG00000018625	ENSG00000018625	3.6.3.9	"ATPases / P-type"	800	protein-coding gene	gene with protein product	"sodium/potassium-transporting ATPase subunit alpha-2", "sodium pump subunit alpha-2", "sodium-potassium ATPase catalytic subunit alpha-2"	182340	"migraine, hemiplegic 2", "ATPase, Na+/K+ transporting, alpha 2 (+) polypeptide"	MHP2		9403481	Standard	NM_000702		Approved	FHM2	uc001fvc.3	P50993	OTTHUMG00000024080	ENST00000361216.3:c.2144G>A	1.37:g.160105252G>A	ENSP00000354490:p.Gly715Glu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVE4|Q07059|Q5JW74|Q86UZ5|Q9UQ25	Missense_Mutation	SNP	ENST00000361216.3	37	CCDS1196.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	25.5|25.5	4.642964|4.642964	0.87859|0.87859	.|.	.|.	ENSG00000018625|ENSG00000018625	ENST00000361216;ENST00000392233;ENST00000435866|ENST00000447527	D;D|D	0.99483|0.99499	-5.99;-5.99|-6.02	4.31|4.31	4.31|4.31	0.51392|0.51392	Haloacid dehalogenase-like hydrolase (1);HAD-like domain (1);ATPase, P-type,  transmembrane domain (1);|.	0.000000|0.000000	0.85682|0.85682	D|D	0.000000|0.000000	D|D	0.99806|0.99806	0.9916|0.9916	H|H	0.99182|0.99182	4.46|4.46	0.80722|0.80722	D|D	1|1	D;D|.	0.89917|.	1.0;1.0|.	D;D|.	0.97110|.	1.0;1.0|.	D|D	0.96615|0.96615	0.9455|0.9455	10|8	0.87932|0.87932	D|D	0|0	.|.	16.0832|16.0832	0.81020|0.81020	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	615;715|.	F5GXJ7;P50993|.	.;AT1A2_HUMAN|.	E|R	715;715;418|426	ENSP00000354490:G715E;ENSP00000376066:G715E|ENSP00000411705:G426R	ENSP00000354490:G715E|ENSP00000411705:G426R	G|G	+|+	2|1	0|0	ATP1A2|ATP1A2	158371876|158371876	1.000000|1.000000	0.71417|0.71417	0.897000|0.897000	0.35233|0.35233	0.889000|0.889000	0.51656|0.51656	9.593000|9.593000	0.98250|0.98250	2.383000|2.383000	0.81215|0.81215	0.561000|0.561000	0.74099|0.74099	GGG|GGG		0.602	ATP1A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060642.2	NM_000702		A	160105252	G	A	160105252	3	1	575	1	0	0	0	0	1	0	0	0	1129	1232	43	2	2206	2	ATP1A2	1	160105252	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	3283690	160105252	89145369	15	34005										
USP21	27005	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	161134645	161134645	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	atctgaatcgattttctgccTcccgaggctccatcaaaaaa	6	12	3	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:161134645T>A	ENST00000289865.8	+	11	1626	c.1405T>A	c.(1405-1407)Tcc>Acc	p.S469T	PPOX_ENST00000432542.2_5'Flank|PPOX_ENST00000352210.5_5'Flank|PPOX_ENST00000535223.1_5'Flank|PPOX_ENST00000544598.1_5'Flank|PPOX_ENST00000367999.4_5'Flank|USP21_ENST00000368002.3_Missense_Mutation_p.S469T|USP21_ENST00000493054.1_3'UTR|USP21_ENST00000368001.1_Missense_Mutation_p.S469T	NM_012475.4	NP_036607.3	Q9UK80	UBP21_HUMAN	ubiquitin specific peptidase 21	469	USP.				histone deubiquitination (GO:0016578)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	cysteine-type peptidase activity (GO:0008234)|metal ion binding (GO:0046872)|NEDD8-specific protease activity (GO:0019784)|transcription coactivator activity (GO:0003713)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			breast(1)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(10)|ovary(3)|prostate(3)	29	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			ATTTTCTGCCTCCCGAGGCTC	0.527																																																0													73	74	74					1																	161134645		2203	4300	6503	SO:0001583	missense	27005			AF177758	CCDS30920.1	1q22	2008-04-11	2005-08-08		ENSG00000143258	ENSG00000143258		"Ubiquitin-specific peptidases"	12620	protein-coding gene	gene with protein product		604729	"ubiquitin specific protease 21"	USP23		12838346, 10799498	Standard	XM_006711273		Approved	USP16	uc010pkd.2	Q9UK80	OTTHUMG00000033154	ENST00000289865.8:c.1405T>A	1.37:g.161134645T>A	ENSP00000289865:p.Ser469Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q59H60|Q5BKT5|Q5VTW9|Q5VTX0|Q9BTV1|Q9HBS2|Q9NYN4	Missense_Mutation	SNP	ENST00000289865.8	37	CCDS30920.1	.	.	.	.	.	.	.	.	.	.	T	7.634	0.679545	0.14907	.	.	ENSG00000143258	ENST00000368002;ENST00000289865;ENST00000368001	T;T;T	0.31769	1.48;1.48;1.48	5.23	5.23	0.72850	Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2 (2);	0.060634	0.64402	D	0.000002	T	0.07728	0.0194	N	0.17345	0.48	0.40024	D	0.975449	B	0.13594	0.008	B	0.14023	0.01	T	0.16424	-1.0403	10	0.23891	T	0.37	.	8.278	0.31883	0.2751:0.0:0.0:0.7249	.	469	Q9UK80	UBP21_HUMAN	T	469	ENSP00000356981:S469T;ENSP00000289865:S469T;ENSP00000356980:S469T	ENSP00000289865:S469T	S	+	1	0	USP21	159401269	0.032000	0.19561	1.000000	0.80357	0.985000	0.73830	1.537000	0.36083	2.197000	0.70478	0.454000	0.30748	TCC		0.527	USP21-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080801.1			A	161134645	T	A	161134645	3	1	575	1	0	0	0	0	1	0	0	0	17065	1551	54	5	1443	5	USP21	1	161134645	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	1029393	161134645	88115976	16	34006										
NME7	29922	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	169102046	169102046	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	attatccaagatcttgaagaAgtattgaacctgaaacggag	9	6	1	5			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:169102046A>G	ENST00000367811.3	-	12	1364	c.1108T>C	c.(1108-1110)Ttc>Ctc	p.F370L	NME7_ENST00000472647.1_Missense_Mutation_p.F334L	NM_013330.3	NP_037462.1	Q9Y5B8	NDK7_HUMAN	NME/NM23 family member 7	370					brain development (GO:0007420)|ciliary receptor clustering involved in smoothened signaling pathway (GO:0060830)|CTP biosynthetic process (GO:0006241)|determination of left/right symmetry (GO:0007368)|epithelial cilium movement (GO:0003351)|GTP biosynthetic process (GO:0006183)|intraciliary transport (GO:0042073)|left/right pattern formation (GO:0060972)|UTP biosynthetic process (GO:0006228)	centrosome (GO:0005813)|ciliary basal body (GO:0036064)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|nucleoside diphosphate kinase activity (GO:0004550)			central_nervous_system(1)|kidney(1)|large_intestine(5)|lung(8)|skin(1)	16	all_hematologic(923;0.208)					ATCTTGAAGAAGTATTGAACC	0.388																																																0													122	110	114					1																	169102046		2203	4300	6503	SO:0001583	missense	29922			AF153191	CCDS1277.1, CCDS44274.1	1q24.2	2014-07-31	2012-05-18		ENSG00000143156	ENSG00000143156			20461	protein-coding gene	gene with protein product	"cilia and flagella associated protein 67"	613465	"non-metastatic cells 7, protein expressed in (nucleoside-diphosphate kinase)"			19852809	Standard	NM_197972		Approved	FLJ37194, NM23-H7, CFAP67	uc001gfu.3	Q9Y5B8	OTTHUMG00000034586	ENST00000367811.3:c.1108T>C	1.37:g.169102046A>G	ENSP00000356785:p.Phe370Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3T6|A8MY09|B3KSW9|Q5TGZ4	Missense_Mutation	SNP	ENST00000367811.3	37	CCDS1277.1	.	.	.	.	.	.	.	.	.	.	A	15.81	2.943147	0.53079	.	.	ENSG00000143156	ENST00000472647;ENST00000367811	T;T	0.55234	0.53;0.53	6.17	6.17	0.99709	.	0.557913	0.21023	N	0.081462	T	0.50837	0.1639	M	0.84683	2.71	0.45995	D	0.998806	B	0.20988	0.05	B	0.31686	0.134	T	0.54132	-0.8339	9	0.34782	T	0.22	-13.3948	16.8222	0.85835	1.0:0.0:0.0:0.0	.	370	Q9Y5B8	NDK7_HUMAN	L	334;370	ENSP00000433341:F334L;ENSP00000356785:F370L	ENSP00000356785:F370L	F	-	1	0	NME7	167368670	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	8.416000	0.90244	2.371000	0.80710	0.533000	0.62120	TTC		0.388	NME7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083688.1	NM_013330		G	169102046	A	G	169102046	3	3	575	1	0	0	0	0	1	0	0	0	10503	72	3	3	26	3	NME7	1	169102046	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	7967401	169102046	80148575	17	34007										
PPFIA4	8497	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	203036824	203036824	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gggggctgtgtgcctgcagaAccagtcttcagtatggcatc	14	10	2	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:203036824A>G	ENST00000447715.2	+	31	3427	c.2986A>G	c.(2986-2988)Acc>Gcc	p.T996A	PPFIA4_ENST00000272198.6_Splice_Site_p.T512A|PPFIA4_ENST00000599966.1_Splice_Site_p.T503A|PPFIA4_ENST00000295706.4_Splice_Site_p.T503A|PPFIA4_ENST00000367240.2_Splice_Site_p.T997A|PPFIA4_ENST00000414050.2_Splice_Site_p.T725A			O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 4	996	SAM 2. {ECO:0000255|PROSITE- ProRule:PRU00184}.				cell-matrix adhesion (GO:0007160)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|intracellular (GO:0005622)|presynaptic active zone (GO:0048786)				NS(1)|autonomic_ganglia(1)|breast(3)|endometrium(6)|kidney(2)|large_intestine(8)|lung(20)|ovary(4)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	50						TGCCTGCAGAACCAGTCTTCA	0.552																																																0													78	84	82					1																	203036824		2156	4266	6422	SO:0001630	splice_region_variant	8497			AF034801	CCDS44296.1	1q32.1	2013-01-10			ENSG00000143847	ENSG00000143847		"Sterile alpha motif (SAM) domain containing"	9248	protein-coding gene	gene with protein product	"Liprin-alpha4"	603145				9624153	Standard	XM_005245553		Approved		uc009xaj.3	O75335	OTTHUMG00000042123	ENST00000447715.2:c.2985-1A>G	1.37:g.203036824A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A2RUJ5|B1APN8|B1N949|B7ZM43|O94971	Missense_Mutation	SNP	ENST00000447715.2	37		.	.	.	.	.	.	.	.	.	.	A	10.88	1.474689	0.26511	.	.	ENSG00000143847	ENST00000367240;ENST00000447715;ENST00000295706;ENST00000414050;ENST00000272198	T;T;T;T;T	0.47869	0.83;0.83;0.83;0.83;0.83	3.89	2.72	0.32119	Sterile alpha motif domain (2);Sterile alpha motif/pointed domain (2);Sterile alpha motif, type 1 (1);	0.349867	0.20011	U	0.101127	T	0.27933	0.0688	N	0.11892	0.195	0.80722	D	1	B;B;B;B;B	0.02656	0.0;0.0;0.0;0.0;0.0	B;B;B;B;B	0.04013	0.0;0.001;0.0;0.0;0.001	T	0.04930	-1.0917	10	0.44086	T	0.13	-16.0337	9.5608	0.39369	0.9138:0.0:0.0862:0.0	.	725;996;198;503;512	B4DIS5;B1N949;B3KN22;O75335-2;O75335	.;.;.;.;LIPA4_HUMAN	A	997;996;503;725;512	ENSP00000356209:T997A;ENSP00000402576:T996A;ENSP00000295706:T503A;ENSP00000400379:T725A;ENSP00000272198:T512A	ENSP00000272198:T512A	T	+	1	0	PPFIA4	201303447	0.971000	0.33674	1.000000	0.80357	0.968000	0.65278	2.234000	0.43035	0.618000	0.30179	0.397000	0.26171	ACC		0.552	PPFIA4-005	NOVEL	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000462949.1	NM_015053	Missense_Mutation	G	203036824	A	G	203036824	5	3	575	1	0	0	0	0	0	0	1	0	12319	57	2	3	1584	3	PPFIA4	1	203036824	Splice_Site	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	33934778	203036824	46213797	18	34008										
PIGR	5284	ucsc.edu	37	chr1	207106513	207106513	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aggctgacatcgcgggacccTgcagcagggaagagtgggcc	17	11	0	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr1:207106513T>C	ENST00000356495.4	-	7	1889		c.e7-2		PIGR_ENST00000487208.1_5'Flank	NM_002644.3	NP_002635.2	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor						detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc receptor signaling pathway (GO:0038093)|immunoglobulin transcytosis in epithelial cells mediated by polymeric immunoglobulin receptor (GO:0002415)|receptor clustering (GO:0043113)|retina homeostasis (GO:0001895)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	polymeric immunoglobulin receptor activity (GO:0001792)			central_nervous_system(2)|endometrium(5)|kidney(3)|large_intestine(7)|lung(15)|ovary(1)|pancreas(1)|prostate(1)|skin(4)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	45						CGCGGGACCCTGCAGCAGGGA	0.537																																																0													42	44	43					1																	207106513		2203	4300	6503	SO:0001630	splice_region_variant	5284				CCDS1474.1	1q31-q41	2013-01-11			ENSG00000162896	ENSG00000162896		"Immunoglobulin superfamily / V-set domain containing"	8968	protein-coding gene	gene with protein product		173880					Standard	NM_002644		Approved		uc001hez.3	P01833	OTTHUMG00000036581	ENST00000356495.4:c.1706-2A>G	1.37:g.207106513T>C		Somatic		WXS	Illumina HiSeq		Q68D81|Q8IZY7	Splice_Site	SNP	ENST00000356495.4	37	CCDS1474.1	.	.	.	.	.	.	.	.	.	.	T	11.33	1.605504	0.28623	.	.	ENSG00000162896	ENST00000356495	.	.	.	4.11	4.11	0.48088	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	9.8393	0.40989	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	PIGR	205173136	0.714000	0.27936	0.033000	0.17914	0.057000	0.15508	1.743000	0.38258	2.096000	0.63516	0.454000	0.30748	.		0.537	PIGR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088975.1	NM_002644	Intron	C	207106513	T	C	207106513	5	2	575	1	0	0	0	0	0	0	1	0	11904	1594	55	3	610	3	PIGR	1	207106513	Splice_Site	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	4069689	207106513	42144108	19	34009										
ANAPC1	64682	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	112608404	112608404	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ggctttggagtactaacgccAtctagtggagtactgggccg	14	9	1	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr2:112608404A>G	ENST00000341068.3	-	14	2371	c.1599T>C	c.(1597-1599)gaT>gaC	p.D533D		NM_022662.3	NP_073153.1	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	533					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K11-linked ubiquitination (GO:0070979)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	anaphase-promoting complex (GO:0005680)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)				NS(1)|breast(1)|central_nervous_system(1)|cervix(2)|endometrium(6)|kidney(4)|large_intestine(7)|lung(16)|pancreas(1)|prostate(3)|skin(5)|stomach(1)|urinary_tract(1)	49						TACTAACGCCATCTAGTGGAG	0.433																																																0													99	96	97					2																	112608404		2203	4300	6503	SO:0001819	synonymous_variant	64682			AJ278357	CCDS2093.1	2q12.1	2011-06-15			ENSG00000153107	ENSG00000153107		"Anaphase promoting complex subunits"	19988	protein-coding gene	gene with protein product		608473				11179667	Standard	NM_022662		Approved	MCPR, TSG24, APC1	uc002ssh.3	Q9H1A4	OTTHUMG00000131277	ENST00000341068.3:c.1599T>C	2.37:g.112608404A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3H8|Q9BSE6|Q9H8D0	Silent	SNP	ENST00000341068.3	37	CCDS2093.1	.	.	.	.	.	.	.	.	.	.	A	0.541	-0.853802	0.02630	.	.	ENSG00000153107	ENST00000427997	.	.	.	4.57	0.462	0.16695	.	.	.	.	.	T	0.50633	0.1627	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.33085	-0.9882	4	.	.	.	-11.202	5.0048	0.14282	0.5191:0.0:0.3355:0.1455	.	.	.	.	R	68	.	.	W	-	1	0	ANAPC1	112324875	0.014000	0.17966	0.005000	0.12908	0.123000	0.20343	-0.736000	0.04882	-0.234000	0.09782	-1.528000	0.00924	TGG		0.433	ANAPC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254045.2	NM_022662		G	112608404	A	G	112608404	2	3	575	1	0	0	0	0	0	0	0	1	598	214	8	3		3	ANAPC1	2	112608404	Silent	SNP	A	TCGA-DZ-6132-01A-11D-1961-08		112608404	130590969	20	34010										
LRP1B	53353	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	141762906	141762906	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aacttgaaaagaacttacatGtgcaagttgtcccattttca	6	8	1	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr2:141762906G>T	ENST00000389484.3	-	15	3472	c.2501C>A	c.(2500-2502)aCa>aAa	p.T834K		NM_018557.2	NP_061027.2	Q9NZR2	LRP1B_HUMAN	low density lipoprotein receptor-related protein 1B	834	EGF-like 4. {ECO:0000255|PROSITE- ProRule:PRU00076}.				protein transport (GO:0015031)|receptor-mediated endocytosis (GO:0006898)	integral component of membrane (GO:0016021)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)|low-density lipoprotein receptor activity (GO:0005041)			NS(5)|autonomic_ganglia(1)|biliary_tract(1)|breast(3)|central_nervous_system(7)|endometrium(25)|haematopoietic_and_lymphoid_tissue(10)|kidney(27)|large_intestine(98)|liver(4)|lung(337)|ovary(15)|pancreas(6)|prostate(11)|skin(30)|stomach(2)|upper_aerodigestive_tract(19)|urinary_tract(5)	606		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)		GAACTTACATGTGCAAGTTGT	0.413										TSP Lung(27;0.18)																											Colon(99;50 2074 2507 20106)											0													63	61	62					2																	141762906		2203	4299	6502	SO:0001583	missense	53353			AF176832	CCDS2182.1	2q21.2	2013-05-29	2010-01-26		ENSG00000168702	ENSG00000168702		"Low density lipoprotein receptors"	6693	protein-coding gene	gene with protein product	"LRP-deleted in tumors"	608766				10766186	Standard	NM_018557		Approved	LRP-DIT, LRPDIT	uc002tvj.1	Q9NZR2	OTTHUMG00000131799	ENST00000389484.3:c.2501C>A	2.37:g.141762906G>T	ENSP00000374135:p.Thr834Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WY29|Q8WY30|Q8WY31	Missense_Mutation	SNP	ENST00000389484.3	37	CCDS2182.1	.	.	.	.	.	.	.	.	.	.	G	4.180	0.032042	0.08101	.	.	ENSG00000168702	ENST00000389484;ENST00000544579	T	0.29397	1.57	5.79	0.917	0.19380	.	0.435292	0.23614	U	0.046306	T	0.12902	0.0313	N	0.11341	0.13	0.27373	N	0.955635	B	0.02656	0.0	B	0.04013	0.001	T	0.33420	-0.9869	10	0.06099	T	0.92	.	11.3061	0.49336	0.5028:0.0:0.4972:0.0	.	834	Q9NZR2	LRP1B_HUMAN	K	834;772	ENSP00000374135:T834K	ENSP00000374135:T834K	T	-	2	0	LRP1B	141479376	0.992000	0.36948	0.985000	0.45067	0.853000	0.48598	0.917000	0.28665	0.100000	0.17581	-0.140000	0.14226	ACA		0.413	LRP1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254736.2	NM_018557		T	141762906	G	T	141762906	3	4	575	1	0	0	0	0	1	0	0	0	8962	1377	48	4	11606	4	LRP1B	2	141762906	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	29154502	141762906	101436467	21	34011										
FAP	2191	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	163074641	163074641	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	agagagcatattttgtagcaAgcatttcctctgaaaaataa	7	6	1	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr2:163074641A>T	ENST00000188790.4	-	9	824	c.617T>A	c.(616-618)cTt>cAt	p.L206H	FAP_ENST00000443424.1_Missense_Mutation_p.L181H	NM_004460.2	NP_004451.2			fibroblast activation protein, alpha											NS(2)|breast(1)|central_nervous_system(2)|endometrium(5)|kidney(1)|large_intestine(5)|lung(34)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(4)	63						TTTTGTAGCAAGCATTTCCTC	0.294																																																0													75	77	76					2																	163074641		2203	4299	6502	SO:0001583	missense	2191			U09278	CCDS33311.1	2q23	2008-02-05			ENSG00000078098	ENSG00000078098			3590	protein-coding gene	gene with protein product	"seprase"	600403				9247085, 14707457	Standard	NM_004460		Approved	DPPIV	uc002ucd.3	Q12884	OTTHUMG00000153890	ENST00000188790.4:c.617T>A	2.37:g.163074641A>T	ENSP00000188790:p.Leu206His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000188790.4	37	CCDS33311.1	.	.	.	.	.	.	.	.	.	.	A	21.8	4.208352	0.79240	.	.	ENSG00000078098	ENST00000188790;ENST00000443424	T;T	0.44881	0.91;0.91	5.74	5.74	0.90152	Peptidase S9B, dipeptidylpeptidase IV N-terminal (1);	0.059030	0.64402	D	0.000001	T	0.67353	0.2884	M	0.82323	2.585	0.52501	D	0.999954	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.79108	0.992;0.979;0.986	T	0.72301	-0.4334	10	0.72032	D	0.01	-15.9727	14.9132	0.70773	1.0:0.0:0.0:0.0	.	181;206;206	B4DLR2;B2RD89;Q12884	.;.;SEPR_HUMAN	H	206;181	ENSP00000188790:L206H;ENSP00000411391:L181H	ENSP00000188790:L206H	L	-	2	0	FAP	162782887	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	8.571000	0.90752	2.317000	0.78254	0.460000	0.39030	CTT		0.294	FAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000332852.2			T	163074641	A	T	163074641	3	4	575	1	0	0	0	0	1	0	0	0	5680	72	3	5	1737	5	FAP	2	163074641	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	21311735	163074641	80124732	22	34012										
TNS1	7145	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	218678433	218678433	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ttattctgctgcatgatggtTggaggtggcgaagacacctt	13	7	1	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr2:218678433T>A	ENST00000171887.4	-	26	4976	c.4524A>T	c.(4522-4524)ccA>ccT	p.P1508P	TNS1_ENST00000419504.1_Silent_p.P1495P|TNS1_ENST00000430930.1_Silent_p.P1487P	NM_022648.4	NP_072174.3	Q9HBL0	TENS1_HUMAN	tensin 1	1508	SH2. {ECO:0000255|PROSITE- ProRule:PRU00191}.				cell-substrate junction assembly (GO:0007044)|fibroblast migration (GO:0010761)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|focal adhesion (GO:0005925)	poly(A) RNA binding (GO:0044822)			breast(2)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(23)|liver(1)|lung(24)|ovary(3)|pancreas(1)|prostate(3)|skin(5)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	79		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GCATGATGGTTGGAGGTGGCG	0.582																																																0													135	133	134					2																	218678433		2203	4300	6503	SO:0001819	synonymous_variant	7145			AB209238	CCDS2407.1	2q35-q36	2014-06-13	2005-05-13	2005-05-13	ENSG00000079308	ENSG00000079308		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs", "SH2 domain containing"	11973	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 155"	600076	"tensin", "matrix-remodelling associated 6"	TNS, MXRA6			Standard	NM_022648		Approved	DKFZp586K0617, PPP1R155	uc002vgt.2	Q9HBL0	OTTHUMG00000133056	ENST00000171887.4:c.4524A>T	2.37:g.218678433T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZG71|Q6IPI5	Silent	SNP	ENST00000171887.4	37	CCDS2407.1																																																																																				0.582	TNS1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256672.2	NM_022648		A	218678433	T	A	218678433	2	1	575	1	0	0	0	0	0	0	0	1	16355	1799	63	5		5	TNS1	2	218678433	Silent	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	55603792	218678433	24520940	23	34013										
FAM134A	79137	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	220047044	220047044	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	cgagacagtgagtggtggccTcactgctctgcccggcaccc	13	15	2	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr2:220047044T>C	ENST00000430297.2	+	9	1461	c.1325T>C	c.(1324-1326)cTc>cCc	p.L442P		NM_024293.4	NP_077269.3	Q8NC44	F134A_HUMAN	family with sequence similarity 134, member A	442						integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(9)|ovary(1)|prostate(2)	19		Renal(207;0.0915)		Epithelial(149;8.92e-07)|all cancers(144;0.000151)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGTGGTGGCCTCACTGCTCTG	0.622																																																0													99	104	102					2																	220047044		2203	4300	6503	SO:0001583	missense	79137			AK074983	CCDS2434.1	2q36.1	2008-02-05	2007-05-01	2007-05-01	ENSG00000144567	ENSG00000144567			28450	protein-coding gene	gene with protein product			"chromosome 2 open reading frame 17"	C2orf17			Standard	NM_024293		Approved	MGC3035	uc002vjw.4	Q8NC44	OTTHUMG00000154577	ENST00000430297.2:c.1325T>C	2.37:g.220047044T>C	ENSP00000395249:p.Leu442Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P1P5|Q9H0K7	Missense_Mutation	SNP	ENST00000430297.2	37	CCDS2434.1	.	.	.	.	.	.	.	.	.	.	T	8.099	0.776228	0.16051	.	.	ENSG00000144567	ENST00000430297	T	0.36520	1.25	5.26	4.06	0.47325	.	0.184716	0.38058	N	0.001826	T	0.30978	0.0782	L	0.57536	1.79	0.58432	D	0.999997	B	0.11235	0.004	B	0.06405	0.002	T	0.08617	-1.0713	9	.	.	.	-2.2718	7.7924	0.29127	0.0:0.1733:0.0:0.8267	.	442	Q8NC44	F134A_HUMAN	P	442	ENSP00000395249:L442P	.	L	+	2	0	FAM134A	219755288	1.000000	0.71417	0.720000	0.30636	0.138000	0.21146	4.189000	0.58358	0.960000	0.38005	0.533000	0.62120	CTC		0.622	FAM134A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336147.2	NM_024293		C	220047044	T	C	220047044	3	2	575	1	0	0	0	0	1	0	0	0	5449	1551	54	3	1359	3	FAM134A	2	220047044	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	1368611	220047044	23152329	24	34014										
GMPPA	29926	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	220370077	220370077	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gtatctggagtcagatcaagTccgcagggtatggaaggctg	15	7	3	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr2:220370077T>C	ENST00000358215.3	+	8	1117	c.748T>C	c.(748-750)Tcc>Ccc	p.S250P	GMPPA_ENST00000341142.3_Missense_Mutation_p.S250P|GMPPA_ENST00000313597.5_Missense_Mutation_p.S250P|AC053503.11_ENST00000429882.1_RNA|GMPPA_ENST00000373908.1_Missense_Mutation_p.S250P|GMPPA_ENST00000373917.3_Missense_Mutation_p.S250P	NM_205847.2	NP_995319.1	Q96IJ6	GMPPA_HUMAN	GDP-mannose pyrophosphorylase A	250					cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|GDP-mannose biosynthetic process (GO:0009298)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	nucleotidyltransferase activity (GO:0016779)			breast(2)|central_nervous_system(1)|endometrium(2)|large_intestine(7)|lung(6)|prostate(1)|skin(1)	20		Renal(207;0.0183)		Epithelial(149;3.82e-10)|all cancers(144;6.25e-08)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00807)|READ - Rectum adenocarcinoma(5;0.148)		TCAGATCAAGTCCGCAGGGTA	0.607																																																0													64	65	65					2																	220370077		2203	4300	6503	SO:0001583	missense	29926			AF135422	CCDS2441.1	2q36.1	2008-02-05			ENSG00000144591	ENSG00000144591			22923	protein-coding gene	gene with protein product		615495					Standard	NM_205847		Approved		uc002vlr.3	Q96IJ6	OTTHUMG00000058922	ENST00000358215.3:c.748T>C	2.37:g.220370077T>C	ENSP00000350949:p.Ser250Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJ74|A8K3Q6|B3KMT4|Q53GI0|Q9NWC3|Q9Y5P5	Missense_Mutation	SNP	ENST00000358215.3	37	CCDS2441.1	.	.	.	.	.	.	.	.	.	.	t	25.4	4.632235	0.87660	.	.	ENSG00000144591	ENST00000313597;ENST00000373917;ENST00000358215;ENST00000373908;ENST00000435316;ENST00000341142	D;D;D;D;T;D	0.94650	-3.48;-3.48;-3.48;-3.48;1.84;-3.48	4.9	4.9	0.64082	.	0.271361	0.37530	N	0.002048	D	0.96592	0.8888	M	0.73962	2.25	0.80722	D	1	D;D	0.71674	0.998;0.97	D;P	0.66847	0.947;0.737	D	0.96980	0.9714	10	0.66056	D	0.02	-23.7265	14.211	0.65764	0.0:0.0:0.0:1.0	.	250;250	Q96IJ6-2;Q96IJ6	.;GMPPA_HUMAN	P	250;250;250;250;215;250	ENSP00000315925:S250P;ENSP00000363027:S250P;ENSP00000350949:S250P;ENSP00000363016:S250P;ENSP00000411060:S215P;ENSP00000340760:S250P	ENSP00000315925:S250P	S	+	1	0	GMPPA	220078321	1.000000	0.71417	1.000000	0.80357	0.828000	0.46876	7.745000	0.85046	1.828000	0.53243	0.529000	0.55759	TCC		0.607	GMPPA-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130230.1	NM_013335		C	220370077	T	C	220370077	3	2	575	1	0	0	0	0	1	0	0	0	6501	1667	58	3	774	3	GMPPA	2	220370077	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	323033	220370077	22829296	25	34015										
CAMK1	8536	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	9801228	9801228	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ctcactcaccgactggtggaTattcttatctagagctgtat	8	10	4	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr3:9801228T>C	ENST00000256460.3	-	10	1033	c.856A>G	c.(856-858)Atc>Gtc	p.I286V	OGG1_ENST00000449570.2_Intron|OGG1_ENST00000383826.5_Intron|OGG1_ENST00000302008.8_Intron|OGG1_ENST00000349503.5_Intron|OGG1_ENST00000302036.7_Intron	NM_003656.4	NP_003647.1	Q14012	KCC1A_HUMAN	calcium/calmodulin-dependent protein kinase I	286	Autoinhibitory domain.				cell cycle (GO:0007049)|nucleocytoplasmic transport (GO:0006913)|positive regulation of dendritic spine development (GO:0060999)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of neuron projection development (GO:0010976)|positive regulation of protein export from nucleus (GO:0046827)|positive regulation of protein serine/threonine kinase activity (GO:0071902)|positive regulation of synapse structural plasticity (GO:0051835)|protein phosphorylation (GO:0006468)|regulation of muscle cell differentiation (GO:0051147)|regulation of protein binding (GO:0043393)|regulation of protein localization (GO:0032880)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|calmodulin-dependent protein kinase activity (GO:0004683)			endometrium(1)|large_intestine(3)|lung(6)|ovary(1)|skin(1)	12	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.0475)		GACTGGTGGATATTCTTATCT	0.537																																																0													179	171	174					3																	9801228		2203	4300	6503	SO:0001583	missense	8536			L41816	CCDS2582.1	3p25.3	2004-02-27			ENSG00000134072	ENSG00000134072			1459	protein-coding gene	gene with protein product		604998				7641687	Standard	NM_003656		Approved	CaMKI	uc003bst.3	Q14012	OTTHUMG00000128419	ENST00000256460.3:c.856A>G	3.37:g.9801228T>C	ENSP00000256460:p.Ile286Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q3KPF6	Missense_Mutation	SNP	ENST00000256460.3	37	CCDS2582.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	23.4|23.4	4.415377|4.415377	0.83449|0.83449	.|.	.|.	ENSG00000134072|ENSG00000134072	ENST00000256460|ENST00000421120	T|.	0.39056|.	1.1|.	5.95|5.95	5.95|5.95	0.96441|0.96441	Protein kinase-like domain (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.80407|0.80407	0.4617|0.4617	M|M	0.87038|0.87038	2.855|2.855	0.80722|0.80722	D|D	1|1	P;P|.	0.48162|.	0.906;0.906|.	P;P|.	0.45099|.	0.469;0.469|.	T|T	0.83025|0.83025	-0.0165|-0.0165	10|5	0.59425|.	D|.	0.04|.	-11.1309|-11.1309	16.0971|16.0971	0.81132|0.81132	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	286;286|.	Q14012;B0YIY3|.	KCC1A_HUMAN;.|.	V|C	286|132	ENSP00000256460:I286V|.	ENSP00000256460:I286V|.	I|Y	-|-	1|2	0|0	CAMK1|CAMK1	9776228|9776228	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.994000|0.994000	0.84299|0.84299	7.589000|7.589000	0.82641|0.82641	2.279000|2.279000	0.76181|0.76181	0.533000|0.533000	0.62120|0.62120	ATC|TAT		0.537	CAMK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250206.1	NM_003656		C	9801228	T	C	9801228	3	2	575	1	0	0	0	0	1	0	0	0	2598	1406	49	3	268	3	CAMK1	3	9801228	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08		9801228	188221202	26	34016										
GPD1L	23171	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	32169609	32169609	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aattggtaataatgtcaagaAacttcagaaatttgcctcca	6	7	2	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr3:32169609A>C	ENST00000282541.5	+	2	290	c.89A>C	c.(88-90)aAa>aCa	p.K30T		NM_015141.3	NP_055956.1	Q8N335	GPD1L_HUMAN	glycerol-3-phosphate dehydrogenase 1-like	30					carbohydrate metabolic process (GO:0005975)|cellular lipid metabolic process (GO:0044255)|glycerol-3-phosphate catabolic process (GO:0046168)|glycerophospholipid biosynthetic process (GO:0046474)|NAD metabolic process (GO:0019674)|NADH metabolic process (GO:0006734)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|negative regulation of protein kinase C signaling (GO:0090038)|phosphatidic acid biosynthetic process (GO:0006654)|phospholipid metabolic process (GO:0006644)|positive regulation of protein localization to cell surface (GO:2000010)|positive regulation of sodium ion transport (GO:0010765)|regulation of heart rate (GO:0002027)|regulation of sodium ion transmembrane transporter activity (GO:2000649)|regulation of ventricular cardiac muscle cell membrane depolarization (GO:0060373)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)|ventricular cardiac muscle cell action potential (GO:0086005)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|glycerol-3-phosphate dehydrogenase complex (GO:0009331)|plasma membrane (GO:0005886)	glycerol-3-phosphate dehydrogenase [NAD+] activity (GO:0004367)|ion channel binding (GO:0044325)|NAD binding (GO:0051287)|sodium channel regulator activity (GO:0017080)			large_intestine(4)|lung(7)|ovary(1)	12						AATGTCAAGAAACTTCAGAAA	0.368																																																0													59	59	59					3																	32169609		2203	4300	6503	SO:0001583	missense	23171			D42047	CCDS33729.1	3p22.3	2014-09-17			ENSG00000152642	ENSG00000152642			28956	protein-coding gene	gene with protein product		611778				7788527	Standard	NM_015141		Approved	KIAA0089	uc003cew.3	Q8N335	OTTHUMG00000155846	ENST00000282541.5:c.89A>C	3.37:g.32169609A>C	ENSP00000282541:p.Lys30Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9U3|Q14702|Q9BRM5	Missense_Mutation	SNP	ENST00000282541.5	37	CCDS33729.1	.	.	.	.	.	.	.	.	.	.	A	12.00	1.807729	0.31961	.	.	ENSG00000152642	ENST00000282541;ENST00000425459	T;T	0.58652	0.32;1.2	4.8	3.62	0.41486	Glycerol-3-phosphate dehydrogenase, NAD-dependent, N-terminal (1);NAD(P)-binding domain (1);	0.435694	0.28257	N	0.016007	T	0.52917	0.1764	M	0.70595	2.14	0.29089	N	0.882201	B	0.06786	0.001	B	0.20184	0.028	T	0.52697	-0.8541	10	0.46703	T	0.11	-9.553	6.5277	0.22310	0.6226:0.3005:0.0769:0.0	.	30	Q8N335	GPD1L_HUMAN	T	30	ENSP00000282541:K30T;ENSP00000408770:K30T	ENSP00000282541:K30T	K	+	2	0	GPD1L	32144613	0.036000	0.19791	0.834000	0.33040	0.984000	0.73092	2.830000	0.48136	0.938000	0.37419	0.459000	0.35465	AAA		0.368	GPD1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341975.2	NM_015141		C	32169609	A	C	32169609	3	2	575	1	0	0	0	0	1	0	0	0	6612	14	1	5	95	5	GPD1L	3	32169609	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	22368381	32169609	165852821	27	34017										
PLCD1	5333	broad.mit.edu;bcgsc.ca	37	chr3	38051199	38051201	+	In_Frame_Del	DEL	TCG	TCG	-													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	catcctccatctcagcagccTcgtcttcgtctgacaccaca					rs375010877		TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	TCG	TCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr3:38051199_38051201delTCG	ENST00000334661.4	-	9	1611_1613	c.1389_1391delCGA	c.(1387-1392)gacgag>gag	p.D463del	PLCD1_ENST00000479619.1_5'Flank|PLCD1_ENST00000463876.1_In_Frame_Del_p.D484del	NM_006225.3	NP_006216.2	P51178	PLCD1_HUMAN	phospholipase C, delta 1	463					angiogenesis (GO:0001525)|inositol phosphate metabolic process (GO:0043647)|intracellular signal transduction (GO:0035556)|labyrinthine layer blood vessel development (GO:0060716)|lipid catabolic process (GO:0016042)|phospholipid metabolic process (GO:0006644)|regulation of cell proliferation (GO:0042127)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|GTPase activating protein binding (GO:0032794)|phosphatidic acid binding (GO:0070300)|phosphatidylinositol phosphate binding (GO:1901981)|phosphatidylinositol phospholipase C activity (GO:0004435)|phosphatidylserine binding (GO:0001786)|signal transducer activity (GO:0004871)	p.D484D(1)|p.D463D(1)		breast(1)|central_nervous_system(2)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(6)|lung(6)|prostate(1)|skin(1)	24				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		CTCAGCAGCCTCGTCTTCGTCTG	0.65																																																2	Substitution - coding silent(2)	endometrium(2)																																								SO:0001651	inframe_deletion	5333				CCDS2671.1, CCDS46793.1	3p22-p21.3	2013-01-10			ENSG00000187091	ENSG00000187091	3.1.4.11	"EF-hand domain containing"	9060	protein-coding gene	gene with protein product		602142				9345909	Standard	NM_001130964		Approved		uc003chm.3	P51178	OTTHUMG00000130813	ENST00000334661.4:c.1389_1391delCGA	3.37:g.38051199_38051201delTCG	ENSP00000335600:p.Asp463del	Somatic		WXS	Illumina HiSeq	Phase_I	B3KR14|Q86VN8	In_Frame_Del	DEL	ENST00000334661.4	37	CCDS2671.1																																																																																				0.65	PLCD1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000253359.2			-	38051201	TCG	-	38051199	7	5	575	1	0	1	0	1	0	0	0	0	12038	1551	54	0	907	0	PLCD1	3	38051199	In_Frame_Del	DEL	TCG	TCGA-DZ-6132-01A-11D-1961-08	5881590	38051199	159971231	28	34018										
RPL24	6152	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	101401697	101401698	+	Frame_Shift_Ins	INS	-	-	A													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tcagcaagagatgcaccagtINSaatggccctctggaatttga							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr3:101401697_101401698insA	ENST00000394077.3	-	4	351_352	c.246_247insT	c.(244-249)attactfs	p.T83fs	RPL24_ENST00000495401.1_Frame_Shift_Ins_p.T83fs|RPL24_ENST00000469605.1_Frame_Shift_Ins_p.T83fs	NM_000986.3	NP_000977.1	P83731	RL24_HUMAN	ribosomal protein L24	83					cellular protein metabolic process (GO:0044267)|exit from mitosis (GO:0010458)|gene expression (GO:0010467)|mitotic cell cycle checkpoint (GO:0007093)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|optic nerve development (GO:0021554)|retina development in camera-type eye (GO:0060041)|retinal ganglion cell axon guidance (GO:0031290)|ribosomal large subunit assembly (GO:0000027)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|structural constituent of ribosome (GO:0003735)			large_intestine(1)|lung(2)|urinary_tract(1)	4						GATGCACCAGTAATGGCCCTCT	0.436																																																0																																										SO:0001589	frameshift_variant	6152			AB007177	CCDS33809.1	3q12	2011-04-06			ENSG00000114391	ENSG00000114391		"L ribosomal proteins"	10325	protein-coding gene	gene with protein product		604180				9582194	Standard	NM_000986		Approved	L24	uc003dvh.1	P83731	OTTHUMG00000159146	ENST00000394077.3:c.247dupT	3.37:g.101401699_101401699dupA	ENSP00000377640:p.Thr83fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4Y3|P38663|Q6IBS3	Frame_Shift_Ins	INS	ENST00000394077.3	37	CCDS33809.1																																																																																				0.436	RPL24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353487.1	NM_000986		A	101401698	-	A	101401697	7	5	575	1	0	1	1	0	0	0	0	0	13585	1638	57	0	238	0	RPL24	3	101401697	Frame_Shift_Ins	INS	-	TCGA-DZ-6132-01A-11D-1961-08	63350498	101401697	96620733	29	34019										
FAM55C	91775	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	101540473	101540473	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gtctcacttcagcaccttccCtttggaagtgtacatccggc	8	14	2	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr3:101540473C>G	ENST00000491511.2	+	8	2311	c.1355C>G	c.(1354-1356)cCt>cGt	p.P452R	NXPE3_ENST00000477909.1_Missense_Mutation_p.P452R|RP11-49I4.3_ENST00000490324.2_RNA|NXPE3_ENST00000422132.1_Missense_Mutation_p.P452R|NXPE3_ENST00000273347.5_Missense_Mutation_p.P452R	NM_001134456.1	NP_001127928.1	Q969Y0	NXPE3_HUMAN	neurexophilin and PC-esterase domain family, member 3	452						extracellular region (GO:0005576)											AGCACCTTCCCTTTGGAAGTG	0.552																																																0													113	99	104					3																	101540473		2203	4300	6503	SO:0001583	missense	91775			AK054664	CCDS2945.1	3q12.3	2012-06-14	2012-06-11	2012-06-11	ENSG00000144815	ENSG00000144815			28238	protein-coding gene	gene with protein product			"family with sequence similarity 55, member C"	FAM55C		12975309	Standard	NM_001134456		Approved	MGC15606	uc003dvn.3	Q969Y0	OTTHUMG00000159179	ENST00000491511.2:c.1355C>G	3.37:g.101540473C>G	ENSP00000417485:p.Pro452Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0X4|D3DN53|Q7Z2S8	Missense_Mutation	SNP	ENST00000491511.2	37	CCDS2945.1	.	.	.	.	.	.	.	.	.	.	C	31	5.070163	0.93950	.	.	ENSG00000144815	ENST00000273347;ENST00000491511;ENST00000477909;ENST00000422132	T;T;T;T	0.27557	1.66;1.66;1.66;1.66	6.03	6.03	0.97812	.	0.044822	0.85682	D	0.000000	T	0.67325	0.2881	M	0.91717	3.235	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.73017	-0.4115	10	0.87932	D	0	-17.0676	20.5568	0.99304	0.0:1.0:0.0:0.0	.	452	Q969Y0	FA55C_HUMAN	R	452	ENSP00000273347:P452R;ENSP00000417485:P452R;ENSP00000418369:P452R;ENSP00000396421:P452R	ENSP00000273347:P452R	P	+	2	0	FAM55C	103023163	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.747000	0.85070	2.861000	0.98227	0.655000	0.94253	CCT		0.552	NXPE3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353711.2	NM_145037		G	101540473	C	G	101540473	3	3	575	1	0	0	0	0	1	0	0	0	5593	681	24	4	1373	4	FAM55C	3	101540473	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	138776	101540473	96481957	30	34020										
MYH15	22989	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	108107907	108107918	+	In_Frame_Del	DEL	TTCCAGTTCACG	TTCCAGTTCACG	-													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	atttcaccctccagttcaccTtccagttcacgaacctgcaa					rs143417195	byFrequency	TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	TTCCAGTTCACG	TTCCAGTTCACG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr3:108107907_108107918delTTCCAGTTCACG	ENST00000273353.3	-	39	5550_5561	c.5494_5505delCGTGAACTGGAA	c.(5494-5505)cgtgaactggaadel	p.RELE1832del		NM_014981.1	NP_055796.1	Q9Y2K3	MYH15_HUMAN	myosin, heavy chain 15	1832						cytoplasm (GO:0005737)|myosin filament (GO:0032982)	ATP binding (GO:0005524)|motor activity (GO:0003774)	p.R1832S(1)		NS(1)|breast(3)|central_nervous_system(2)|cervix(4)|endometrium(10)|kidney(4)|large_intestine(14)|lung(47)|ovary(5)|pancreas(2)|prostate(6)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	105						CCAGTTCACCTTCCAGTTCACGAACCTGCAAC	0.524																																																1	Substitution - Missense(1)	lung(1)																																								SO:0001651	inframe_deletion	22989			AB023217	CCDS43127.1	3q13	2011-09-27	2006-09-29		ENSG00000144821	ENSG00000144821		"Myosins / Myosin superfamily : Class II"	31073	protein-coding gene	gene with protein product		609929	"myosin, heavy polypeptide 15"			15014174, 15042088	Standard	NM_014981		Approved	KIAA1000	uc003dxa.1	Q9Y2K3	OTTHUMG00000159226	ENST00000273353.3:c.5494_5505delCGTGAACTGGAA	3.37:g.108107907_108107918delTTCCAGTTCACG	ENSP00000273353:p.Arg1832_Glu1835del	Somatic		WXS	Illumina HiSeq	Phase_I		In_Frame_Del	DEL	ENST00000273353.3	37	CCDS43127.1																																																																																				0.524	MYH15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353935.1	XM_036988		-	108107918	TTCCAGTTCACG	-	108107907	7	5	575	1	0	1	0	1	0	0	0	0	10041	1606	56	0	351	0	MYH15	3	108107907	In_Frame_Del	DEL	TTCCAGTTCACG	TCGA-DZ-6132-01A-11D-1961-08	6567434	108107907	89914523	31	34021										
POLQ	10721	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	121260288	121260288	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	caaaacccgcttcaaaataaGtaattctgccacaagagtct	5	11	3	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr3:121260288G>A	ENST00000264233.5	-	3	510	c.382C>T	c.(382-384)Ctt>Ttt	p.L128F		NM_199420.3	NP_955452.3	O75417	DPOLQ_HUMAN	polymerase (DNA directed), theta	128	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				ATP catabolic process (GO:0006200)|DNA repair (GO:0006281)	nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|damaged DNA binding (GO:0003684)|DNA-directed DNA polymerase activity (GO:0003887)|single-stranded DNA-dependent ATPase activity (GO:0043142)			NS(2)|breast(7)|central_nervous_system(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(16)|lung(55)|ovary(5)|prostate(3)|skin(4)|stomach(2)|upper_aerodigestive_tract(4)|urinary_tract(2)	120				GBM - Glioblastoma multiforme(114;0.0915)		TTCAAAATAAGTAATTCTGCC	0.348								DNA polymerases (catalytic subunits)																													Pancreas(152;907 1925 26081 31236 36904)											0													145	164	157					3																	121260288		2203	4300	6503	SO:0001583	missense	10721			AF052573	CCDS33833.1	3q13.3	2012-05-18			ENSG00000051341	ENSG00000051341	2.7.7.7	"DNA polymerases"	9186	protein-coding gene	gene with protein product		604419				10395804	Standard	NM_199420		Approved	POLH	uc003eee.4	O75417	OTTHUMG00000159396	ENST00000264233.5:c.382C>T	3.37:g.121260288G>A	ENSP00000264233:p.Leu128Phe	Somatic		WXS	Illumina HiSeq	Phase_I	O95160|Q6VMB5	Missense_Mutation	SNP	ENST00000264233.5	37	CCDS33833.1	.	.	.	.	.	.	.	.	.	.	G	24.8	4.569858	0.86542	.	.	ENSG00000051341	ENST00000264233;ENST00000393672	T	0.60672	0.17	5.74	5.74	0.90152	DEAD-like helicase (2);DNA/RNA helicase, DEAD/DEAH box type, N-terminal (1);	0.275715	0.37261	N	0.002169	T	0.79787	0.4506	M	0.83603	2.65	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.81741	-0.0794	10	0.87932	D	0	.	19.9346	0.97133	0.0:0.0:1.0:0.0	.	128	O75417	DPOLQ_HUMAN	F	128;263	ENSP00000264233:L128F	ENSP00000264233:L128F	L	-	1	0	POLQ	122742978	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	3.652000	0.54439	2.712000	0.92718	0.563000	0.77884	CTT		0.348	POLQ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355097.1	NM_199420		A	121260288	G	A	121260288	3	1	575	1	0	0	0	0	1	0	0	0	12215	1029	36	2	7502	2	POLQ	3	121260288	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	13152381	121260288	76762142	32	34022										
SEC22A	26984	broad.mit.edu	37	chr3	122978380	122978380	+	Frame_Shift_Del	DEL	G	G	-													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tgcttttgcagagtgatggtGatgattttaattacatcatt							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr3:122978380delG	ENST00000309934.4	+	5	1563	c.667delG	c.(667-669)gatfs	p.D224fs	SEC22A_ENST00000481965.2_Frame_Shift_Del_p.V64fs|SEC22A_ENST00000492595.1_Frame_Shift_Del_p.D224fs	NM_012430.4	NP_036562.2	Q96IW7	SC22A_HUMAN	SEC22 vesicle trafficking protein homolog A (S. cerevisiae)	224					ER to Golgi vesicle-mediated transport (GO:0006888)|protein transport (GO:0015031)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	transporter activity (GO:0005215)			NS(1)|kidney(1)|large_intestine(2)|lung(5)|ovary(1)	10				GBM - Glioblastoma multiforme(114;0.0548)		GAGTGATGGTGATGATTTTAA	0.343																																																0													102	98	99					3																	122978380		2203	4298	6501	SO:0001589	frameshift_variant	26984			AF100749	CCDS3021.1	3q21.1	2006-04-25	2006-04-25	2006-04-25	ENSG00000121542	ENSG00000121542			20260	protein-coding gene	gene with protein product		612442	"SEC22 vesicle trafficking protein-like 2 (S. cerevisiae)"	SEC22L2		9094723, 9501016	Standard	NM_012430		Approved		uc003ege.3	Q96IW7	OTTHUMG00000159495	ENST00000309934.4:c.667delG	3.37:g.122978380delG	ENSP00000310521:p.Asp224fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE26|Q9Y682	Frame_Shift_Del	DEL	ENST00000309934.4	37	CCDS3021.1																																																																																				0.343	SEC22A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355770.2	NM_012430		-	122978380	G	-	122978380	7	5	575	1	0	1	0	1	0	0	0	0	14001	1290	45	0	685	0	SEC22A	3	122978380	Frame_Shift_Del	DEL	G	TCGA-DZ-6132-01A-11D-1961-08	1718092	122978380	75044050	33	34023										
DNAJC13	23317	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	132207161	132207161	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gctactgctgacctttgaccCtatccttgttgagaaggttg	10	10	0	3			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr3:132207161C>A	ENST00000260818.6	+	30	3535	c.3287C>A	c.(3286-3288)cCt>cAt	p.P1096H		NM_015268.3	NP_056083.3	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1096					osteoblast differentiation (GO:0001649)	extracellular vesicular exosome (GO:0070062)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)				breast(4)|endometrium(2)|kidney(2)|large_intestine(5)|lung(15)|ovary(1)|pancreas(2)|prostate(2)|urinary_tract(1)	34						ACCTTTGACCCTATCCTTGTT	0.348																																																0													89	82	84					3																	132207161		2203	4300	6503	SO:0001583	missense	23317			AB014578	CCDS33857.1	3q22.1	2011-09-02			ENSG00000138246	ENSG00000138246		"Heat shock proteins / DNAJ (HSP40)"	30343	protein-coding gene	gene with protein product		614334				12438707	Standard	NM_015268		Approved	RME8, KIAA0678	uc003eor.3	O75165	OTTHUMG00000159674	ENST00000260818.6:c.3287C>A	3.37:g.132207161C>A	ENSP00000260818:p.Pro1096His	Somatic		WXS	Illumina HiSeq	Phase_I	Q3L0T1|Q6PI82|Q6UJ77|Q6ZSW1|Q6ZUT5|Q86XG3|Q96DC1|Q9BWK9	Missense_Mutation	SNP	ENST00000260818.6	37	CCDS33857.1	.	.	.	.	.	.	.	.	.	.	C	28.3	4.910247	0.92107	.	.	ENSG00000138246	ENST00000260818	T	0.53206	0.63	5.75	5.75	0.90469	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.76528	0.4000	M	0.89715	3.055	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	T	0.80723	-0.1255	10	0.87932	D	0	.	19.9542	0.97213	0.0:1.0:0.0:0.0	.	1096	O75165	DJC13_HUMAN	H	1096	ENSP00000260818:P1096H	ENSP00000260818:P1096H	P	+	2	0	DNAJC13	133689851	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.435000	0.80391	2.728000	0.93425	0.650000	0.86243	CCT		0.348	DNAJC13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356807.2	NM_015268		A	132207161	C	A	132207161	3	1	575	1	0	0	0	0	1	0	0	0	4634	681	24	4	3401	4	DNAJC13	3	132207161	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	9228781	132207161	65815269	34	34024										
ATR	545	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	142284995	142284995	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ctttggcctcatggcttccaCtcacatttacaaacataagt	5	12	2	0	rs200407265		TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr3:142284995C>T	ENST00000350721.4	-	3	381	c.260G>A	c.(259-261)aGt>aAt	p.S87N	ATR_ENST00000383101.3_Missense_Mutation_p.S87N	NM_001184.3	NP_001175.2	Q13535	ATR_HUMAN	ATR serine/threonine kinase	87					cell cycle (GO:0007049)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to gamma radiation (GO:0071480)|cellular response to UV (GO:0034644)|DNA damage checkpoint (GO:0000077)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|multicellular organismal development (GO:0007275)|negative regulation of DNA replication (GO:0008156)|peptidyl-serine phosphorylation (GO:0018105)|positive regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043517)|protein autophosphorylation (GO:0046777)|regulation of protein binding (GO:0043393)|replicative senescence (GO:0090399)|response to drug (GO:0042493)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)|PML body (GO:0016605)|XY body (GO:0001741)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|MutLalpha complex binding (GO:0032405)|MutSalpha complex binding (GO:0032407)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(10)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(20)|liver(2)|lung(45)|ovary(3)|skin(10)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(4)	122						ATGGCTTCCACTCACATTTAC	0.413								Other conserved DNA damage response genes																																								0													107	101	103					3																	142284995		2203	4300	6503	SO:0001583	missense	545			U76308	CCDS3124.1	3q23	2014-06-17	2014-06-17		ENSG00000175054	ENSG00000175054			882	protein-coding gene	gene with protein product	"MEC1, mitosis entry checkpoint 1, homolog (S. cerevisiae)"	601215	"ataxia telangiectasia and Rad3 related"			8978690, 8610130	Standard	NM_001184		Approved	FRP1, SCKL, SCKL1, MEC1	uc003eux.4	Q13535	OTTHUMG00000159234	ENST00000350721.4:c.260G>A	3.37:g.142284995C>T	ENSP00000343741:p.Ser87Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q59HB2|Q7KYL3|Q93051|Q9BXK4	Missense_Mutation	SNP	ENST00000350721.4	37	CCDS3124.1	.	.	.	.	.	.	.	.	.	.	C	2.407	-0.336336	0.05278	.	.	ENSG00000175054	ENST00000350721;ENST00000383101	T;T	0.30448	1.53;1.53	5.53	0.0727	0.14388	.	1.113090	0.06757	N	0.781079	T	0.07548	0.0190	N	0.00926	-1.1	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.36553	-0.9743	10	0.02654	T	1	-9.1875	2.5644	0.04779	0.1129:0.2236:0.1159:0.5476	.	87	Q13535	ATR_HUMAN	N	87	ENSP00000343741:S87N;ENSP00000372581:S87N	ENSP00000343741:S87N	S	-	2	0	ATR	143767685	0.931000	0.31567	1.000000	0.80357	0.976000	0.68499	0.080000	0.14802	0.369000	0.24510	-0.414000	0.06135	AGT		0.413	ATR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353995.2	NM_001184		T	142284995	C	T	142284995	3	4	575	1	0	0	0	0	1	0	0	0	1204	565	20	2	7854	2	ATR	3	142284995	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	10077834	142284995	55737435	35	34025										
SLC7A14	57709	broad.mit.edu;bcgsc.ca	37	chr3	170201153	170201154	+	Frame_Shift_Ins	INS	-	-	A													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aaatgaccctcggcatcgggINSaagagggaccccagcaagct							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr3:170201153_170201154insA	ENST00000231706.5	-	6	1379_1380	c.1064_1065insT	c.(1063-1065)ttcfs	p.F355fs	CLDN11_ENST00000486975.1_Intron|CLDN11_ENST00000451576.1_Intron	NM_020949.2	NP_066000.2	Q8TBB6	S7A14_HUMAN	solute carrier family 7, member 14	355					negative regulation of phosphatase activity (GO:0010923)	integral component of membrane (GO:0016021)|lysosome (GO:0005764)	amino acid transmembrane transporter activity (GO:0015171)			central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(9)|liver(1)|lung(23)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(4)	53	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			TCGGCATCGGGAAGAGGGACCC	0.54											OREG0015917	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0																																										SO:0001589	frameshift_variant	57709			BC022968	CCDS33892.1	3q26.2	2014-06-13	2013-07-19		ENSG00000013293	ENSG00000013293		"Solute carriers"	29326	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 142"	615720					Standard	NM_020949		Approved	KIAA1613, PPP1R142	uc003fgz.2	Q8TBB6	OTTHUMG00000158941	ENST00000231706.5:c.1065dupT	3.37:g.170201155_170201155dupA	ENSP00000231706:p.Phe355fs	Somatic	1883	WXS	Illumina HiSeq	Phase_I	B3KV33|Q9HCF9	Frame_Shift_Ins	INS	ENST00000231706.5	37	CCDS33892.1																																																																																				0.54	SLC7A14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352598.2	NM_020949		A	170201154	-	A	170201153	7	5	575	1	0	1	1	0	0	0	0	0	14709	1165	41	0	1262	0	SLC7A14	3	170201153	Frame_Shift_Ins	INS	-	TCGA-DZ-6132-01A-11D-1961-08	27916158	170201153	27821277	36	34026										
WDR1	9948	ucsc.edu	37	chr4	10090323	10090323	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ggctgtggcaaatctgttccCatcaggagagaatcgcacac	11	11	2	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr4:10090323C>A	ENST00000499869.2	-	6	794	c.601G>T	c.(601-603)Ggg>Tgg	p.G201W	WDR1_ENST00000382451.2_Missense_Mutation_p.G61W|WDR1_ENST00000502702.1_Missense_Mutation_p.G61W|WDR1_ENST00000382452.2_Missense_Mutation_p.G201W|WDR1_ENST00000515743.1_5'UTR			O75083	WDR1_HUMAN	WD repeat domain 1	201					blood coagulation (GO:0007596)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|sensory perception of sound (GO:0007605)	cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)				endometrium(3)|lung(5)|ovary(2)|pancreas(1)|urinary_tract(1)	12				STAD - Stomach adenocarcinoma(129;0.000703)|Colorectal(103;0.0057)|LUSC - Lung squamous cell carcinoma(721;0.0232)		AATCTGTTCCCATCAGGAGAG	0.562																																																0													41	45	44					4																	10090323		2016	4178	6194	SO:0001583	missense	9948			AF020260	CCDS54739.1, CCDS54740.1	4p16.1	2013-01-09			ENSG00000071127	ENSG00000071127		"WD repeat domain containing"	12754	protein-coding gene	gene with protein product		604734				10036186	Standard	NM_017491		Approved		uc021xlv.1	O75083	OTTHUMG00000160253	ENST00000499869.2:c.601G>T	4.37:g.10090323C>A	ENSP00000427687:p.Gly201Trp	Somatic		WXS	Illumina HiSeq		A8K6E9|A8MPU4|O75313|Q8N6E5|Q9UG05|Q9UG78|Q9UQE0	Missense_Mutation	SNP	ENST00000499869.2	37	CCDS54740.1	.	.	.	.	.	.	.	.	.	.	C	25.1	4.600557	0.87055	.	.	ENSG00000071127	ENST00000499869;ENST00000382452;ENST00000382451;ENST00000443592;ENST00000502702;ENST00000439733;ENST00000508079	T;T;T;T;T	0.63913	1.05;1.05;0.33;0.33;-0.07	5.44	5.44	0.79542	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.000000	0.85682	D	0.000000	D	0.87505	0.6194	H	0.98199	4.17	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;0.999;0.999	D	0.92074	0.5667	10	0.87932	D	0	-27.7323	18.2591	0.90028	0.0:1.0:0.0:0.0	.	36;61;201	B4DY05;O75083-3;O75083	.;.;WDR1_HUMAN	W	201;201;61;60;61;36;205	ENSP00000427687:G201W;ENSP00000371890:G201W;ENSP00000371889:G61W;ENSP00000426725:G61W;ENSP00000425481:G205W	ENSP00000371889:G61W	G	-	1	0	WDR1	9699421	1.000000	0.71417	0.964000	0.40570	0.717000	0.41224	7.186000	0.77722	2.554000	0.86153	0.467000	0.42956	GGG		0.562	WDR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359877.1			A	10090323	C	A	10090323	3	1	575	1	0	0	0	0	1	0	0	0	17284	594	21	4	1259	4	WDR1	4	10090323	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08		10090323	181063953	37	34027										
BOD1L	259282	broad.mit.edu	37	chr4	13603393	13603393	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	cattctcatcatatttccctGggagccatccacctcttcac	4	16	4	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr4:13603393G>T	ENST00000040738.5	-	10	5266	c.5131C>A	c.(5131-5133)Cag>Aag	p.Q1711K		NM_148894.2	NP_683692.2	Q8NFC6	BD1L1_HUMAN	biorientation of chromosomes in cell division 1-like 1	1711						nucleus (GO:0005634)	DNA binding (GO:0003677)	p.Q1711K(1)									ATATTTCCCTGGGAGCCATCC	0.428																																																1	Substitution - Missense(1)	lung(1)											172	177	175					4																	13603393		2203	4300	6503	SO:0001583	missense	259282			AF528529	CCDS3411.2	4p16.1	2012-04-10	2012-04-10	2012-04-10	ENSG00000038219	ENSG00000038219			31792	protein-coding gene	gene with protein product			"family with sequence similarity 44, member A", "biorientation of chromosomes in cell division 1-like"	FAM44A, BOD1L			Standard	XM_005248150		Approved	FLJ33215, KIAA1327	uc003gmz.1	Q8NFC6	OTTHUMG00000090659	ENST00000040738.5:c.5131C>A	4.37:g.13603393G>T	ENSP00000040738:p.Gln1711Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P0M8|Q96AL1|Q9H6G0|Q9NTD6|Q9P2L9	Missense_Mutation	SNP	ENST00000040738.5	37	CCDS3411.2	.	.	.	.	.	.	.	.	.	.	G	11.11	1.541422	0.27563	.	.	ENSG00000038219	ENST00000040738	T	0.09073	3.02	4.59	4.59	0.56863	.	0.124466	0.36555	N	0.002526	T	0.07728	0.0194	L	0.34521	1.04	0.09310	N	1	B	0.19583	0.037	B	0.19391	0.025	T	0.21861	-1.0233	10	0.36615	T	0.2	-3.04	12.0992	0.53774	0.0:0.0:0.8166:0.1834	.	1711	Q8NFC6	BOD1L_HUMAN	K	1711	ENSP00000040738:Q1711K	ENSP00000040738:Q1711K	Q	-	1	0	BOD1L	13212491	1.000000	0.71417	0.144000	0.22314	0.658000	0.38924	4.107000	0.57811	2.247000	0.74100	0.555000	0.69702	CAG		0.428	BOD1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207321.1	NM_148894		T	13603393	G	T	13603393	3	4	575	1	0	0	0	0	1	0	0	0	1483	1357	47	4	4092	4	BOD1L	4	13603393	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	3513070	13603393	177550883	38	34028										
N4BP2	55728	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	40122682	40122682	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tacttttaccaatagtgcacCaactgtttctggagtagtag	8	8	1	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr4:40122682C>G	ENST00000261435.6	+	9	3367	c.2951C>G	c.(2950-2952)cCa>cGa	p.P984R		NM_018177.4	NP_060647.2	Q86UW6	N4BP2_HUMAN	NEDD4 binding protein 2	984					nucleic acid phosphodiester bond hydrolysis (GO:0090305)|phosphorylation (GO:0016310)	cytosol (GO:0005829)	ATP binding (GO:0005524)|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity (GO:0046404)|endonuclease activity (GO:0004519)			breast(4)|endometrium(3)|kidney(12)|large_intestine(7)|liver(2)|lung(22)|ovary(1)|pancreas(1)|prostate(2)|skin(5)|upper_aerodigestive_tract(1)	60						AATAGTGCACCAACTGTTTCT	0.443																																																0													84	80	82					4																	40122682		2203	4300	6503	SO:0001583	missense	55728			AB037834	CCDS3457.1	4p14	2008-01-18			ENSG00000078177	ENSG00000078177			29851	protein-coding gene	gene with protein product	"BCL-3 binding protein"					10718198, 11717310	Standard	NM_018177		Approved	B3BP	uc003guy.4	Q86UW6	OTTHUMG00000128599	ENST00000261435.6:c.2951C>G	4.37:g.40122682C>G	ENSP00000261435:p.Pro984Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVR3|Q9NVK2|Q9P2D4	Missense_Mutation	SNP	ENST00000261435.6	37	CCDS3457.1	.	.	.	.	.	.	.	.	.	.	C	3.483	-0.105433	0.06967	.	.	ENSG00000078177	ENST00000261435;ENST00000381804	T	0.21543	2.0	5.1	4.25	0.50352	.	0.600314	0.17354	N	0.177287	T	0.22898	0.0553	L	0.54323	1.7	0.09310	N	1	D;P	0.53151	0.958;0.93	P;B	0.45506	0.483;0.289	T	0.11421	-1.0588	10	0.48119	T	0.1	0.0045	8.0754	0.30714	0.0:0.8201:0.0:0.1799	.	984;984	Q86UW6-2;Q86UW6	.;N4BP2_HUMAN	R	984;904	ENSP00000261435:P984R	ENSP00000261435:P984R	P	+	2	0	N4BP2	39799077	0.020000	0.18652	0.005000	0.12908	0.002000	0.02628	2.644000	0.46613	1.513000	0.48852	0.655000	0.94253	CCA		0.443	N4BP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250458.2	NM_018177		G	40122682	C	G	40122682	3	3	575	1	0	0	0	0	1	0	0	0	10117	594	21	4	2977	4	N4BP2	4	40122682	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	26519289	40122682	151031594	39	34029										
SCD5	79966	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	83557889	83557889	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	agaatagaggccaagaagtaGgaattccacagactctctcc	9	10	1	4			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr4:83557889G>C	ENST00000319540.4	-	4	976	c.657C>G	c.(655-657)tcC>tcG	p.S219S		NM_001037582.2	NP_001032671.2	Q86SK9	SCD5_HUMAN	stearoyl-CoA desaturase 5	219					fatty acid biosynthetic process (GO:0006633)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	iron ion binding (GO:0005506)|stearoyl-CoA 9-desaturase activity (GO:0004768)			endometrium(1)|kidney(2)|large_intestine(3)|lung(6)|ovary(1)	13		Colorectal(4;0.0323)|Hepatocellular(203;0.115)				CCAAGAAGTAGGAATTCCACA	0.537																																																0													108	95	100					4																	83557889		2203	4300	6503	SO:0001819	synonymous_variant	79966			AF389338	CCDS3595.1, CCDS34024.1	4q21.3	2013-01-25	2005-06-09	2005-06-09	ENSG00000145284	ENSG00000145284		"Fatty acid desaturases"	21088	protein-coding gene	gene with protein product		608370	"stearoyl-CoA desaturase 4"	SCD4		12477932	Standard	NM_024906		Approved	ACOD4, FLJ21032, FADS4, HSCD5	uc003hna.2	Q86SK9	OTTHUMG00000130293	ENST00000319540.4:c.657C>G	4.37:g.83557889G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RPG0|Q4W5Q5|Q8NDS0|Q9H7D1	Silent	SNP	ENST00000319540.4	37	CCDS34024.1																																																																																				0.537	SCD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252635.1	NM_024906		C	83557889	G	C	83557889	2	2	575	1	0	0	0	0	0	0	0	1	13900	987	35	4		4	SCD5	4	83557889	Silent	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	43435207	83557889	107596387	40	34030										
DMP1	1758	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	88584223	88584223	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gagaacagctccagccaggaGggcctccagtctcacagcag	12	14	1	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr4:88584223G>A	ENST00000339673.6	+	6	1392	c.1293G>A	c.(1291-1293)gaG>gaA	p.E431E	RP11-742B18.1_ENST00000506480.1_RNA|RP11-742B18.1_ENST00000507894.1_RNA|RP11-742B18.1_ENST00000506814.1_RNA|DMP1_ENST00000282479.7_Silent_p.E415E	NM_004407.3	NP_004398.1	Q13316	DMP1_HUMAN	dentin matrix acidic phosphoprotein 1	431					biomineral tissue development (GO:0031214)|extracellular matrix organization (GO:0030198)|ossification (GO:0001503)|positive regulation of cell-substrate adhesion (GO:0010811)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|intracellular membrane-bounded organelle (GO:0043231)|nucleolus (GO:0005730)|nucleus (GO:0005634)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|extracellular matrix binding (GO:0050840)|integrin binding (GO:0005178)			breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(14)|ovary(1)|pancreas(3)|prostate(1)|skin(1)|stomach(1)	32		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.227)		OV - Ovarian serous cystadenocarcinoma(123;0.000516)		CCAGCCAGGAGGGCCTCCAGT	0.552																																																0													54	55	55					4																	88584223		2203	4300	6503	SO:0001819	synonymous_variant	1758			U34037	CCDS3623.1, CCDS43249.1	4q21	2008-08-29	2008-08-29		ENSG00000152592	ENSG00000152592			2932	protein-coding gene	gene with protein product		600980	"dentin matrix acidic phosphoprotein"			8586437, 9177774	Standard	NM_001079911		Approved		uc003hqv.3	Q13316	OTTHUMG00000130598	ENST00000339673.6:c.1293G>A	4.37:g.88584223G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A1L4L3|O43265	Silent	SNP	ENST00000339673.6	37	CCDS3623.1																																																																																				0.552	DMP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253047.1			A	88584223	G	A	88584223	2	1	575	1	0	0	0	0	0	0	0	1	4585	991	35	2		2	DMP1	4	88584223	Silent	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	5026334	88584223	102570053	41	34031										
ABCG2	9429	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	89034494	89034494	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ggattacccagcaagtttttGaatgaacgcttggaaaccca	9	9	0	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr4:89034494G>C	ENST00000237612.3	-	9	1700	c.1155C>G	c.(1153-1155)ttC>ttG	p.F385L	ABCG2_ENST00000515655.1_Missense_Mutation_p.F385L	NM_004827.2	NP_004818.2	Q9UNQ0	ABCG2_HUMAN	ATP-binding cassette, sub-family G (WHITE), member 2 (Junior blood group)	385					cellular iron ion homeostasis (GO:0006879)|drug export (GO:0046618)|drug transmembrane transport (GO:0006855)|embryonic process involved in female pregnancy (GO:0060136)|heme transport (GO:0015886)|response to drug (GO:0042493)|response to folic acid (GO:0051593)|response to glucocorticoid (GO:0051384)|response to iron ion (GO:0010039)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|transport (GO:0006810)|urate metabolic process (GO:0046415)	apical plasma membrane (GO:0016324)|integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|heme transporter activity (GO:0015232)|protein homodimerization activity (GO:0042803)|transporter activity (GO:0005215)|xenobiotic-transporting ATPase activity (GO:0008559)			breast(5)|central_nervous_system(2)|endometrium(4)|kidney(2)|large_intestine(13)|lung(10)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	42		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;7.02e-05)	Afatinib(DB08916)|Apixaban(DB06605)|Buprenorphine(DB00921)|Cabazitaxel(DB06772)|Carboplatin(DB00958)|Cisplatin(DB00515)|Cladribine(DB00242)|Clofarabine(DB00631)|Conjugated Estrogens(DB00286)|Cyclosporine(DB00091)|Dabrafenib(DB08912)|Dactinomycin(DB00970)|Dasatinib(DB01254)|Daunorubicin(DB00694)|Dexamethasone(DB01234)|Diethylstilbestrol(DB00255)|Docetaxel(DB01248)|Doxorubicin(DB00997)|Dronabinol(DB00470)|Erlotinib(DB00530)|Estradiol(DB00783)|Estrone(DB00655)|Etoposide(DB00773)|Ezetimibe(DB00973)|Fluorouracil(DB00544)|Folic Acid(DB00158)|Gefitinib(DB00317)|Glyburide(DB01016)|Hesperetin(DB01094)|Hydrocortisone(DB00741)|Imatinib(DB00619)|Irinotecan(DB00762)|Ivermectin(DB00602)|Lamivudine(DB00709)|Lansoprazole(DB00448)|Leflunomide(DB01097)|Methotrexate(DB00563)|Mitoxantrone(DB01204)|Mycophenolate mofetil(DB00688)|Nelfinavir(DB00220)|Nilotinib(DB04868)|Nitrofurantoin(DB00698)|Novobiocin(DB01051)|Omeprazole(DB00338)|Oxaliplatin(DB00526)|Paclitaxel(DB01229)|Pantoprazole(DB00213)|Pazopanib(DB06589)|Pitavastatin(DB08860)|Ponatinib(DB08901)|Pravastatin(DB00175)|Prazosin(DB00457)|Rabeprazole(DB01129)|Regorafenib(DB08896)|Rilpivirine(DB08864)|Riluzole(DB00740)|Ritonavir(DB00503)|Rosuvastatin(DB01098)|Saquinavir(DB01232)|Sorafenib(DB00398)|Sulfasalazine(DB00795)|Sumatriptan(DB00669)|Sunitinib(DB01268)|Tamoxifen(DB00675)|Telmisartan(DB00966)|Teniposide(DB00444)|Teriflunomide(DB08880)|Testosterone(DB00624)|Topotecan(DB01030)|Vandetanib(DB05294)|Vemurafenib(DB08881)|Venlafaxine(DB00285)|Verapamil(DB00661)|Vincristine(DB00541)|Vismodegib(DB08828)|Zafirlukast(DB00549)|Zidovudine(DB00495)	GCAAGTTTTTGAATGAACGCT	0.448																																																0													128	129	128					4																	89034494		2203	4300	6503	SO:0001583	missense	9429			AF103796	CCDS3628.1, CCDS58910.1	4q22.1	2014-08-27	2014-08-27		ENSG00000118777	ENSG00000118777		"CD molecules", "ATP binding cassette transporters / subfamily G"	74	protein-coding gene	gene with protein product		603756	"ATP-binding cassette, sub-family G (WHITE), member 2"			8894702, 9861027	Standard	NM_001257386		Approved	EST157481, MXR, BCRP, ABCP, CD338	uc003hrg.3	Q9UNQ0	OTTHUMG00000130601	ENST00000237612.3:c.1155C>G	4.37:g.89034494G>C	ENSP00000237612:p.Phe385Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A0A1W3|A8K1T5|O95374|Q4W5I3|Q53ZQ1|Q569L4|Q5YLG4|Q86V64|Q8IX16|Q96LD6|Q96TA8|Q9BY73|Q9NUS0	Missense_Mutation	SNP	ENST00000237612.3	37	CCDS3628.1	.	.	.	.	.	.	.	.	.	.	G	12.16	1.854425	0.32791	.	.	ENSG00000118777	ENST00000515655;ENST00000237612	T;T	0.71817	-0.6;-0.6	5.67	3.91	0.45181	ABC-2 type transporter (1);	0.044132	0.85682	D	0.000000	T	0.63604	0.2525	L	0.47716	1.5	0.41151	D	0.986026	B;B;B	0.24721	0.02;0.11;0.055	B;B;B	0.34873	0.03;0.191;0.05	T	0.59177	-0.7503	10	0.31617	T	0.26	-34.9217	7.6017	0.28079	0.3144:0.0:0.6856:0.0	.	385;385;385	Q9UNQ0-2;Q9UNQ0;Q4W5I3	.;ABCG2_HUMAN;.	L	385	ENSP00000426917:F385L;ENSP00000237612:F385L	ENSP00000237612:F385L	F	-	3	2	ABCG2	89253518	0.998000	0.40836	1.000000	0.80357	0.730000	0.41778	0.469000	0.22067	1.361000	0.45981	0.557000	0.71058	TTC		0.448	ABCG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253051.1	NM_004827		C	89034494	G	C	89034494	3	2	575	1	0	0	0	0	1	0	0	0	69	1281	45	4	844	4	ABCG2	4	89034494	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	450271	89034494	102119782	42	34032										
ANK2	287	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	114195785	114195785	+	Frame_Shift_Del	DEL	G	G	-													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tcctattggaagcaggagcaGcccactccttagctaccaag							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr4:114195785delG	ENST00000357077.4	+	15	1716	c.1663delG	c.(1663-1665)gccfs	p.A555fs	ANK2_ENST00000264366.6_Frame_Shift_Del_p.A555fs|ANK2_ENST00000394537.3_Frame_Shift_Del_p.A555fs|ANK2_ENST00000506722.1_Frame_Shift_Del_p.A534fs	NM_001148.4	NP_001139.3	Q01484	ANK2_HUMAN	ankyrin 2, neuronal	555					atrial cardiac muscle cell action potential (GO:0086014)|atrial cardiac muscle cell to AV node cell communication (GO:0086066)|atrial septum development (GO:0003283)|axon guidance (GO:0007411)|cardiac muscle contraction (GO:0060048)|cellular calcium ion homeostasis (GO:0006874)|cellular protein localization (GO:0034613)|membrane depolarization during SA node cell action potential (GO:0086046)|paranodal junction assembly (GO:0030913)|positive regulation of calcium ion transmembrane transporter activity (GO:1901021)|positive regulation of calcium ion transport (GO:0051928)|positive regulation of cation channel activity (GO:2001259)|positive regulation of gene expression (GO:0010628)|positive regulation of potassium ion transmembrane transporter activity (GO:1901018)|positive regulation of potassium ion transport (GO:0043268)|protein localization to cell surface (GO:0034394)|protein localization to endoplasmic reticulum (GO:0070972)|protein localization to M-band (GO:0036309)|protein localization to organelle (GO:0033365)|protein localization to plasma membrane (GO:0072659)|protein localization to T-tubule (GO:0036371)|protein stabilization (GO:0050821)|protein targeting to plasma membrane (GO:0072661)|regulation of calcium ion transmembrane transporter activity (GO:1901019)|regulation of calcium ion transport (GO:0051924)|regulation of cardiac muscle cell contraction (GO:0086004)|regulation of cardiac muscle cell membrane potential (GO:0086036)|regulation of cardiac muscle contraction (GO:0055117)|regulation of cardiac muscle contraction by calcium ion signaling (GO:0010882)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of heart rate (GO:0002027)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of protein stability (GO:0031647)|regulation of release of sequestered calcium ion into cytosol (GO:0051279)|regulation of ventricular cardiac muscle cell membrane repolarization (GO:0060307)|response to methylmercury (GO:0051597)|SA node cell action potential (GO:0086015)|SA node cell to atrial cardiac muscle cell communication (GO:0086070)|sarcoplasmic reticulum calcium ion transport (GO:0070296)|T-tubule organization (GO:0033292)|ventricular cardiac muscle cell action potential (GO:0086005)	A band (GO:0031672)|basolateral plasma membrane (GO:0016323)|costamere (GO:0043034)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|integral component of plasma membrane (GO:0005887)|intercalated disc (GO:0014704)|intracellular (GO:0005622)|M band (GO:0031430)|membrane raft (GO:0045121)|neuron projection (GO:0043005)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)	ATPase binding (GO:0051117)|enzyme binding (GO:0019899)|ion channel binding (GO:0044325)|potassium channel regulator activity (GO:0015459)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|biliary_tract(1)|breast(9)|central_nervous_system(10)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(54)|liver(2)|lung(112)|ovary(8)|pancreas(1)|prostate(7)|skin(11)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(10)	248		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		AGCAGGAGCAGCCCACTCCTT	0.517																																																0													80	78	79					4																	114195785		2203	4300	6503	SO:0001589	frameshift_variant	287			M37123	CCDS3702.1, CCDS43261.1, CCDS54796.1	4q25-q26	2014-09-17	2003-03-12		ENSG00000145362	ENSG00000145362		"Ankyrin repeat domain containing"	493	protein-coding gene	gene with protein product		106410	"long (electrocardiographic) QT syndrome 4"	LQT4		7485162, 12571597	Standard	NM_001148		Approved		uc003ibe.4	Q01484	OTTHUMG00000132912	ENST00000357077.4:c.1663delG	4.37:g.114195785delG	ENSP00000349588:p.Ala555fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q01485|Q08AC7|Q08AC8|Q7Z3L5	Frame_Shift_Del	DEL	ENST00000357077.4	37	CCDS3702.1																																																																																				0.517	ANK2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256422.2	NM_001148		-	114195785	G	-	114195785	7	5	575	1	0	1	0	1	0	0	0	0	621	971	34	0	1746	0	ANK2	4	114195785	Frame_Shift_Del	DEL	G	TCGA-DZ-6132-01A-11D-1961-08	25161291	114195785	76958491	43	34033										
KIAA0922	23240	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	154557454	154557454	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ttcctcatttatacttcagcCctacctcacaagcacccgaa	3	16	3	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr4:154557454C>T	ENST00000409663.3	+	35	4608	c.4556C>T	c.(4555-4557)cCc>cTc	p.P1519L	KIAA0922_ENST00000409959.3_Splice_Site_p.P1520L|KIAA0922_ENST00000440693.1_Splice_Site_p.P1436L	NM_015196.3	NP_056011.3	A2VDJ0	T131L_HUMAN	KIAA0922	1519						integral component of membrane (GO:0016021)				breast(2)|cervix(1)|endometrium(7)|kidney(4)|large_intestine(16)|lung(20)|ovary(1)|prostate(4)|skin(3)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	63	all_hematologic(180;0.093)	Renal(120;0.118)				ATACTTCAGCCCTACCTCACA	0.413																																																0													76	85	82					4																	154557454		2203	4300	6503	SO:0001630	splice_region_variant	23240			AK096538	CCDS3783.2, CCDS47148.1	4q31.3	2008-02-05			ENSG00000121210	ENSG00000121210			29146	protein-coding gene	gene with protein product						10231032, 11230166	Standard	NM_015196		Approved	DKFZp586H1322, TMEM131L	uc010ipp.3	A2VDJ0	OTTHUMG00000153244	ENST00000409663.3:c.4555-1C>T	4.37:g.154557454C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KRV3|Q7LGA7|Q86Y92|Q8WU56|Q9H065|Q9Y2D7	Missense_Mutation	SNP	ENST00000409663.3	37	CCDS3783.2	.	.	.	.	.	.	.	.	.	.	C	22.5	4.298160	0.81025	.	.	ENSG00000121210	ENST00000409663;ENST00000440693;ENST00000409959;ENST00000240487	T;T;T;T	0.31510	1.76;1.49;1.75;1.51	5.93	5.07	0.68467	.	0.056199	0.64402	D	0.000001	T	0.50034	0.1592	L	0.52573	1.65	0.80722	D	1	D;D;D	0.71674	0.998;0.997;0.995	D;D;P	0.68621	0.959;0.934;0.86	T	0.53129	-0.8482	10	0.87932	D	0	-12.4672	16.3753	0.83383	0.133:0.867:0.0:0.0	.	1436;1520;1519	A2VDJ0-3;A2VDJ0-5;A2VDJ0	.;.;T131L_HUMAN	L	1519;1436;1520;1297	ENSP00000386574:P1519L;ENSP00000409663:P1436L;ENSP00000386787:P1520L;ENSP00000240487:P1297L	ENSP00000240487:P1297L	P	+	2	0	KIAA0922	154776904	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	7.205000	0.77881	1.466000	0.48025	0.655000	0.94253	CCC		0.413	KIAA0922-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000330370.1	NM_015196	Missense_Mutation	T	154557454	C	T	154557454	5	4	575	1	0	0	0	0	0	0	1	0	8208	637	22	2	4697	2	KIAA0922	4	154557454	Splice_Site	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	40361669	154557454	36596822	44	34034										
FNIP2	57600	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	159756556	159756556	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tttcttgttcctttatcttaGcacacagcacaccagttgat	5	11	2	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr4:159756556G>A	ENST00000264433.6	+	7	730		c.e7-1		FNIP2_ENST00000379346.3_Splice_Site	NM_020840.1	NP_065891.1	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2						intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|protein phosphorylation (GO:0006468)|regulation of protein phosphorylation (GO:0001932)	cytoplasm (GO:0005737)|microtubule organizing center (GO:0005815)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(3)|prostate(1)	9	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		CTTTATCTTAGCACACAGCAC	0.383																																																0													258	258	258					4																	159756556		1966	4155	6121	SO:0001630	splice_region_variant	57600			AB040883	CCDS47155.1	4q32.1	2012-10-31			ENSG00000052795	ENSG00000052795			29280	protein-coding gene	gene with protein product	"O6-methylguanine-induced apoptosis 1"	612768				18403135	Standard	NM_020840		Approved	KIAA1450, FNIPL, MAPO1	uc003iqe.4	Q9P278	OTTHUMG00000161983	ENST00000264433.6:c.656-1G>A	4.37:g.159756556G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q05DC3|Q96I31|Q9H994	Splice_Site	SNP	ENST00000264433.6	37	CCDS47155.1	.	.	.	.	.	.	.	.	.	.	G	22.0	4.225241	0.79576	.	.	ENSG00000052795	ENST00000264433;ENST00000512986;ENST00000379346;ENST00000504715	.	.	.	5.91	5.91	0.95273	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	20.2857	0.98533	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	FNIP2	159976006	1.000000	0.71417	0.995000	0.50966	0.794000	0.44872	9.224000	0.95209	2.803000	0.96430	0.650000	0.86243	.		0.383	FNIP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366602.1	NM_020840	Intron	A	159756556	G	A	159756556	5	1	575	1	0	0	0	0	0	0	1	0	5983	985	34	2	681	2	FNIP2	4	159756556	Splice_Site	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	5199102	159756556	31397720	45	34035										
LIFR	3977	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	38489203	38489203	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	attctaaaaccctcatcttaGatgtgtctctttctcctttt	3	11	5	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr5:38489203G>A	ENST00000263409.4	-	16	2474	c.2312C>T	c.(2311-2313)tCt>tTt	p.S771F	LIFR_ENST00000503088.1_5'Flank|LIFR_ENST00000453190.2_Missense_Mutation_p.S771F	NM_002310.5	NP_002301.1	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor alpha	771	Fibronectin type-III 6. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell surface receptor signaling pathway (GO:0007166)|ciliary neurotrophic factor-mediated signaling pathway (GO:0070120)|cytokine-mediated signaling pathway (GO:0019221)|leukemia inhibitory factor signaling pathway (GO:0048861)|oncostatin-M-mediated signaling pathway (GO:0038165)|positive regulation of cell proliferation (GO:0008284)|response to cytokine (GO:0034097)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	ciliary neurotrophic factor receptor binding (GO:0005127)|growth factor binding (GO:0019838)|leukemia inhibitory factor receptor activity (GO:0004923)			NS(2)|breast(4)|endometrium(6)|kidney(2)|large_intestine(30)|liver(2)|lung(21)|ovary(3)|skin(5)|stomach(1)|urinary_tract(2)	78	all_lung(31;0.00021)					CCTCATCTTAGATGTGTCTCT	0.343			T	PLAG1	salivary adenoma																																Melanoma(13;4 730 6426 9861 34751)		Dom	yes		5	5p13-p12	3977	leukemia inhibitory factor receptor		E	0													80	84	83					5																	38489203		2203	4300	6503	SO:0001583	missense	3977			X61615	CCDS3927.1	5p13-p12	2013-02-11	2006-05-17		ENSG00000113594	ENSG00000113594		"CD molecules", "Fibronectin type III domain containing"	6597	protein-coding gene	gene with protein product		151443	"leukemia inhibitory factor receptor"			1915266	Standard	NM_001127671		Approved	CD118	uc003jli.2	P42702	OTTHUMG00000131138	ENST00000263409.4:c.2312C>T	5.37:g.38489203G>A	ENSP00000263409:p.Ser771Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q6LCD9	Missense_Mutation	SNP	ENST00000263409.4	37	CCDS3927.1	.	.	.	.	.	.	.	.	.	.	G	12.77	2.037720	0.35989	.	.	ENSG00000113594	ENST00000263409;ENST00000453190	T;T	0.53423	0.62;0.62	5.78	4.92	0.64577	Fibronectin, type III (3);Immunoglobulin-like fold (1);	0.715180	0.14869	N	0.293661	T	0.46367	0.1389	M	0.76838	2.35	0.09310	N	1	B	0.11235	0.004	B	0.08055	0.003	T	0.46624	-0.9178	10	0.09084	T	0.74	-6.9518	11.4001	0.49864	0.1549:0.0:0.8451:0.0	.	771	P42702	LIFR_HUMAN	F	771	ENSP00000263409:S771F;ENSP00000398368:S771F	ENSP00000263409:S771F	S	-	2	0	LIFR	38524960	0.985000	0.35326	0.823000	0.32752	0.952000	0.60782	2.593000	0.46180	1.456000	0.47831	0.650000	0.86243	TCT		0.343	LIFR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253823.1	NM_002310		A	38489203	G	A	38489203	3	1	575	1	0	0	0	0	1	0	0	0	8787	942	33	2	1001	2	LIFR	5	38489203	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08		38489203	142426057	46	34036										
BDP1	55814	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	70837317	70837317	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tcctcatgttcattcaaaggAtaaaagccatattccttcta	4	10	4	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr5:70837317A>T	ENST00000358731.4	+	29	6322	c.6059A>T	c.(6058-6060)gAt>gTt	p.D2020V	BDP1_ENST00000380675.2_Missense_Mutation_p.D156V	NM_018429.2	NP_060899.2	A6H8Y1	BDP1_HUMAN	B double prime 1, subunit of RNA polymerase III transcription initiation factor IIIB	2020					gene expression (GO:0010467)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase III promoter (GO:0006383)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			NS(2)|breast(3)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(13)|lung(34)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	72		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		CATTCAAAGGATAAAAGCCAT	0.303																																																0													112	103	106					5																	70837317		1822	4082	5904	SO:0001583	missense	55814			AF298151	CCDS43328.1	5q12-q13	2008-02-05	2001-11-29	2001-11-30	ENSG00000145734	ENSG00000145734			13652	protein-coding gene	gene with protein product		607012	"TATA box binding protein (TBP)-associated factor, RNA polymerase III, GTF3B subunit 1"	TFNR, TAF3B1		11214970, 11040218	Standard	NM_018429		Approved	TFIIIB150, TFC5, TFIIIB90, KIAA1689, HSA238520, KIAA1241	uc003kbp.1	A6H8Y1	OTTHUMG00000162506	ENST00000358731.4:c.6059A>T	5.37:g.70837317A>T	ENSP00000351575:p.Asp2020Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DS6|Q68DY5|Q6MZL9|Q6PIM7|Q86W98|Q96LR8|Q9C0H4|Q9H197|Q9H1A1|Q9HAW1|Q9HAW2|Q9HCY0|Q9ULH9	Missense_Mutation	SNP	ENST00000358731.4	37	CCDS43328.1	.	.	.	.	.	.	.	.	.	.	A	14.87	2.664806	0.47572	.	.	ENSG00000145734	ENST00000358731;ENST00000451951;ENST00000380675;ENST00000545546	T;T	0.18960	2.18;2.18	5.3	1.47	0.22746	.	0.842883	0.10728	N	0.640927	T	0.38585	0.1046	M	0.62723	1.935	0.18873	N	0.999982	D;D	0.71674	0.964;0.998	P;D	0.69142	0.7;0.962	T	0.12889	-1.0530	10	0.87932	D	0	.	7.508	0.27555	0.7287:0.0:0.2713:0.0	.	2020;2020	A6H8Y1;A6H8Y1-2	BDP1_HUMAN;.	V	2020;1568;156;156	ENSP00000351575:D2020V;ENSP00000370050:D156V	ENSP00000351575:D2020V	D	+	2	0	BDP1	70873073	0.736000	0.28164	0.333000	0.25482	0.856000	0.48823	2.703000	0.47110	0.394000	0.25230	0.377000	0.23210	GAT		0.303	BDP1-016	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000374681.2	NM_018429		T	70837317	A	T	70837317	3	4	575	1	0	0	0	0	1	0	0	0	1395	333	12	5	6173	5	BDP1	5	70837317	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	32348114	70837317	110077943	47	34037										
PCDHB6	56130	ucsc.edu	37	chr5	140531445	140531445	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gggcgccacagaccgcggctCcccggcgttgagcagcgagg	17	15	0	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr5:140531445C>T	ENST00000231136.1	+	1	1607	c.1607C>T	c.(1606-1608)tCc>tTc	p.S536F	PCDHB6_ENST00000543635.1_Missense_Mutation_p.S400F	NM_018939.2	NP_061762.1	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6	536	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			cervix(1)|endometrium(14)|kidney(6)|large_intestine(16)|liver(1)|lung(33)|ovary(1)|pancreas(2)|prostate(1)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	84			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GACCGCGGCTCCCCGGCGTTG	0.672																																																0													54	61	59					5																	140531445		2203	4300	6503	SO:0001583	missense	56130			AF152499	CCDS4248.1	5q31	2010-01-26			ENSG00000113211	ENSG00000113211		"Cadherins / Protocadherins : Clustered"	8691	other	protocadherin		606332				10380929	Standard	NM_018939		Approved	PCDH-BETA6	uc003lir.3	Q9Y5E3	OTTHUMG00000129623	ENST00000231136.1:c.1607C>T	5.37:g.140531445C>T	ENSP00000231136:p.Ser536Phe	Somatic		WXS	Illumina HiSeq		B2R8R9	Missense_Mutation	SNP	ENST00000231136.1	37	CCDS4248.1	.	.	.	.	.	.	.	.	.	.	C	10.69	1.419887	0.25552	.	.	ENSG00000113211	ENST00000543635;ENST00000231136;ENST00000542861	T;T	0.01838	4.61;4.61	4.07	3.18	0.36537	Cadherin (4);Cadherin-like (1);	.	.	.	.	T	0.04679	0.0127	L	0.59912	1.85	0.09310	N	1	B	0.30664	0.289	B	0.40477	0.33	T	0.25641	-1.0126	9	0.59425	D	0.04	.	7.5727	0.27918	0.1652:0.7455:0.0:0.0893	.	536	Q9Y5E3	PCDB6_HUMAN	F	400;536;321	ENSP00000438466:S400F;ENSP00000231136:S536F	ENSP00000231136:S536F	S	+	2	0	PCDHB6	140511629	0.000000	0.05858	0.082000	0.20525	0.800000	0.45204	0.373000	0.20484	1.986000	0.57962	0.556000	0.70494	TCC		0.672	PCDHB6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251818.2	NM_018939		T	140531445	C	T	140531445	3	4	575	1	0	0	0	0	1	0	0	0	11553	855	30	2	1609	2	PCDHB6	5	140531445	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	69694128	140531445	40383815	48	34038										
PCDHGC4	56098	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	140864817	140864817	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	cctcttttaccacctgggttAcgtttgtgggcagatccgct	10	12	1	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr5:140864817A>G	ENST00000306593.1	+	1	77	c.77A>G	c.(76-78)tAc>tGc	p.Y26C	PCDHGA12_ENST00000252085.3_Intron|PCDHGB3_ENST00000576222.1_Intron|PCDHGB2_ENST00000522605.1_Intron|PCDHGA8_ENST00000398604.2_Intron|PCDHGA7_ENST00000518325.1_Intron|PCDHGA2_ENST00000394576.2_Intron|PCDHGB1_ENST00000523390.1_Intron|PCDHGA11_ENST00000518882.1_Intron|PCDHGC3_ENST00000308177.3_Intron|PCDHGA11_ENST00000398587.2_Intron|PCDHGA3_ENST00000253812.6_Intron|PCDHGB7_ENST00000398594.2_Intron|PCDHGA10_ENST00000398610.2_Intron|PCDHGA1_ENST00000517417.1_Intron|PCDHGA4_ENST00000571252.1_Intron|PCDHGB6_ENST00000520790.1_Intron|PCDHGA5_ENST00000518069.1_Intron|PCDHGA6_ENST00000517434.1_Intron|PCDHGB4_ENST00000519479.1_Intron|PCDHGA9_ENST00000573521.1_Intron	NM_018928.2|NM_032406.1	NP_061751.1|NP_115782.1	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4	26					homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(13)|lung(13)|ovary(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	42			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACCTGGGTTACGTTTGTGGG	0.542																																																0													61	64	63					5																	140864817		2203	4300	6503	SO:0001583	missense	56098			AF152525	CCDS4262.1, CCDS75349.1	5q31	2010-01-26			ENSG00000242419	ENSG00000242419		"Cadherins / Protocadherins : Clustered"	8717	other	protocadherin		606305				10380929	Standard	NM_018928		Approved	PCDH-GAMMA-C4		Q9Y5F7	OTTHUMG00000129625	ENST00000306593.1:c.77A>G	5.37:g.140864817A>G	ENSP00000306918:p.Tyr26Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q495T2|Q9Y5C3	Missense_Mutation	SNP	ENST00000306593.1	37	CCDS4262.1	.	.	.	.	.	.	.	.	.	.	A	8.646	0.897050	0.17686	.	.	ENSG00000242419	ENST00000306593	T	0.46819	0.86	4.81	4.81	0.61882	.	.	.	.	.	T	0.26557	0.0649	N	0.08118	0	0.09310	N	1	B;B	0.16396	0.017;0.001	B;B	0.16722	0.016;0.004	T	0.07888	-1.0749	9	0.38643	T	0.18	.	6.6967	0.23203	0.6868:0.231:0.0822:0.0	.	26;26	Q9Y5F7-2;Q9Y5F7	.;PCDGL_HUMAN	C	26	ENSP00000306918:Y26C	ENSP00000306918:Y26C	Y	+	2	0	PCDHGC4	140845001	0.831000	0.29352	0.975000	0.42487	0.979000	0.70002	2.204000	0.42761	2.012000	0.59069	0.459000	0.35465	TAC		0.542	PCDHGC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251820.1	NM_018928		G	140864817	A	G	140864817	3	3	575	1	0	0	0	0	1	0	0	0	11577	391	14	3	79	3	PCDHGC4	5	140864817	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	333372	140864817	40050443	49	34039										
SYNPO	11346	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	150027927	150027927	+	Frame_Shift_Del	DEL	A	A	-													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gtaccactggtggtttatctAaaggagaatgcagcactgct							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr5:150027927delA	ENST00000394243.1	+	3	1196	c.822delA	c.(820-822)ctafs	p.L274fs	SYNPO_ENST00000522122.1_Frame_Shift_Del_p.L274fs|SYNPO_ENST00000518872.1_Intron|SYNPO_ENST00000519664.1_Frame_Shift_Del_p.L30fs|SYNPO_ENST00000307662.4_Frame_Shift_Del_p.L30fs	NM_001166208.1	NP_001159680.1	Q8N3V7	SYNPO_HUMAN	synaptopodin	274					positive regulation of actin filament bundle assembly (GO:0032233)|regulation of stress fiber assembly (GO:0051492)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|dendritic spine (GO:0043197)|postsynaptic membrane (GO:0045211)|stress fiber (GO:0001725)|tight junction (GO:0005923)	actin binding (GO:0003779)			NS(1)|cervix(1)|endometrium(3)|large_intestine(6)|lung(4)|prostate(1)|urinary_tract(2)	18		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGGTTTATCTAAAGGAGAATG	0.602																																																0													82	91	88					5																	150027927		2203	4300	6503	SO:0001589	frameshift_variant	11346			AF499137	CCDS4308.1, CCDS54937.1, CCDS54938.1	5q33.1	2008-02-05			ENSG00000171992	ENSG00000171992			30672	protein-coding gene	gene with protein product		608155				9314539, 10470851	Standard	NM_007286		Approved	KIAA1029	uc003lsn.3	Q8N3V7	OTTHUMG00000130078	ENST00000394243.1:c.822delA	5.37:g.150027927delA	ENSP00000377789:p.Leu274fs	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKZ8|D3DQG8|O15271|Q9UPX1	Frame_Shift_Del	DEL	ENST00000394243.1	37	CCDS54937.1																																																																																				0.602	SYNPO-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000252371.1	NM_007286		-	150027927	A	-	150027927	7	5	575	1	0	1	0	1	0	0	0	0	15468	349	13	0	828	0	SYNPO	5	150027927	Frame_Shift_Del	DEL	A	TCGA-DZ-6132-01A-11D-1961-08	9163110	150027927	30887333	50	34040										
OR2J3	442186	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	29079815	29079815	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	taggaaacctgttcatcatcAtcctgtcatacctggactcc	6	13	4	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr6:29079815A>G	ENST00000377169.1	+	1	148	c.148A>G	c.(148-150)Atc>Gtc	p.I50V		NM_001005216.2	NP_001005216.2	O76001	OR2J3_HUMAN	olfactory receptor, family 2, subfamily J, member 3	50						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(2)|large_intestine(5)|lung(13)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	24						GTTCATCATCATCCTGTCATA	0.423																																																0													291	305	300					6																	29079815		1349	2628	3977	SO:0001583	missense	442186				CCDS43433.1	6p22.2-p21.31	2012-08-09			ENSG00000204701	ENSG00000204701		"GPCR / Class A : Olfactory receptors"	8261	protein-coding gene	gene with protein product		615016					Standard	NM_001005216		Approved	OR6-6	uc011dll.2	O76001	OTTHUMG00000031092	ENST00000377169.1:c.148A>G	6.37:g.29079815A>G	ENSP00000366374:p.Ile50Val	Somatic		WXS	Illumina HiSeq	Phase_I	B0UY52|B9EH11|Q5SUJ7|Q6IF25|Q96R15|Q9GZK5|Q9GZL4|Q9GZL5	Missense_Mutation	SNP	ENST00000377169.1	37	CCDS43433.1	.	.	.	.	.	.	.	.	.	.	A	2.071	-0.413113	0.04799	.	.	ENSG00000204701	ENST00000377169	T	0.03889	3.77	2.78	1.58	0.23477	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.00784	0.0026	N	0.05414	-0.055	0.09310	N	1	B	0.02656	0.0	B	0.06405	0.002	T	0.48080	-0.9066	9	0.48119	T	0.1	.	4.2981	0.10911	0.682:0.2023:0.1157:0.0	.	50	O76001	OR2J3_HUMAN	V	50	ENSP00000366374:I50V	ENSP00000366374:I50V	I	+	1	0	OR2J3	29187794	0.000000	0.05858	0.992000	0.48379	0.314000	0.28054	-0.814000	0.04486	0.295000	0.22570	0.358000	0.22013	ATC		0.423	OR2J3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076132.2			G	29079815	A	G	29079815	3	3	575	1	0	0	0	0	1	0	0	0	11011	217	8	3	150	3	OR2J3	6	29079815	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08		29079815	142035252	51	34041										
ZBTB22	9278	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	33284668	33284668	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gcaggggaagtgctgccccaCtgggagacagaggagatggc	18	9	0	3			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr6:33284668C>T	ENST00000431845.2	-	2	177	c.26G>A	c.(25-27)aGt>aAt	p.S9N	TAPBP_ENST00000489157.1_5'Flank|DAXX_ENST00000477162.1_5'Flank|ZBTB22_ENST00000418724.1_Missense_Mutation_p.S9N|TAPBP_ENST00000475304.1_5'Flank|TAPBP_ENST00000426633.2_5'Flank|TAPBP_ENST00000434618.2_5'Flank|TAPBP_ENST00000456592.2_5'Flank	NM_005453.4	NP_005444.4	O15209	ZBT22_HUMAN	zinc finger and BTB domain containing 22	9					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(1)|lung(9)|ovary(2)|prostate(1)|urinary_tract(3)	21						TGCTGCCCCACTGGGAGACAG	0.657																																																0													18	22	21					6																	33284668		2202	4295	6497	SO:0001583	missense	9278			Z97183	CCDS4775.1	6p21.3	2013-01-09	2006-04-12	2006-04-12	ENSG00000236104	ENSG00000236104		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	13085	protein-coding gene	gene with protein product		611439	"zinc finger protein 297"	ZNF297			Standard	NM_005453		Approved	BING1, ZNF297A, fruitless, fru, ZBTB22A	uc010juu.3	O15209	OTTHUMG00000031110	ENST00000431845.2:c.26G>A	6.37:g.33284668C>T	ENSP00000407545:p.Ser9Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B0V007|Q5HYV4|Q5STL0|Q5STR7|Q8WV82	Missense_Mutation	SNP	ENST00000431845.2	37	CCDS4775.1	.	.	.	.	.	.	.	.	.	.	C	12.63	1.996665	0.35226	.	.	ENSG00000236104	ENST00000418724;ENST00000431845;ENST00000441117	T;T;T	0.64803	3.38;3.38;-0.12	4.68	2.67	0.31697	.	.	.	.	.	T	0.17831	0.0428	N	0.08118	0	0.26387	N	0.976649	B	0.16166	0.016	B	0.14578	0.011	T	0.11567	-1.0582	9	0.38643	T	0.18	.	4.8891	0.13717	0.0:0.6566:0.2229:0.1205	.	9	O15209	ZBT22_HUMAN	N	9	ENSP00000404403:S9N;ENSP00000407545:S9N;ENSP00000413172:S9N	ENSP00000404403:S9N	S	-	2	0	ZBTB22	33392646	0.013000	0.17824	1.000000	0.80357	0.995000	0.86356	1.367000	0.34204	1.172000	0.42781	0.638000	0.83543	AGT		0.657	ZBTB22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076183.2			T	33284668	C	T	33284668	3	4	575	1	0	0	0	0	1	0	0	0	17542	565	20	2	1882	2	ZBTB22	6	33284668	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	4204853	33284668	137830399	52	34042										
UBR2	23304	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	42559909	42559909	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	agactgtgcagttgatccaaCttgtgttttgtgcatggagt	12	6	0	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr6:42559909C>G	ENST00000372899.1	+	3	617	c.359C>G	c.(358-360)aCt>aGt	p.T120S	UBR2_ENST00000372903.2_Missense_Mutation_p.T120S|UBR2_ENST00000372901.1_Missense_Mutation_p.T120S	NM_015255.2	NP_056070.1	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin 2	120					cellular response to leucine (GO:0071233)|chromatin silencing (GO:0006342)|histone H2A ubiquitination (GO:0033522)|male meiosis I (GO:0007141)|negative regulation of TOR signaling (GO:0032007)|spermatogenesis (GO:0007283)|ubiquitin-dependent protein catabolic process (GO:0006511)	chromatin (GO:0000785)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ubiquitin ligase complex (GO:0000151)	leucine binding (GO:0070728)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(10)|kidney(7)|large_intestine(14)|lung(22)|ovary(3)|pancreas(1)|skin(5)	64	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)			GTTGATCCAACTTGTGTTTTG	0.323																																																0													112	101	105					6																	42559909		2203	4300	6503	SO:0001583	missense	23304			BC024217	CCDS4870.1, CCDS55001.1	6p21.1	2008-06-23	2005-01-10	2005-01-12	ENSG00000024048	ENSG00000024048		"Ubiquitin protein ligase E3 component n-recognins"	21289	protein-coding gene	gene with protein product		609134	"chromosome 6 open reading frame 133"	C6orf133			Standard	NM_015255		Approved	bA49A4.1, dJ392M17.3, KIAA0349	uc011dur.2	Q8IWV8	OTTHUMG00000014703	ENST00000372899.1:c.359C>G	6.37:g.42559909C>G	ENSP00000361990:p.Thr120Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O15057|Q4VXK2|Q5TFH6|Q6P2I2|Q6ZUD0	Missense_Mutation	SNP	ENST00000372899.1	37	CCDS4870.1	.	.	.	.	.	.	.	.	.	.	C	26.4	4.730359	0.89390	.	.	ENSG00000024048	ENST00000372903;ENST00000372899;ENST00000372901	D;D;D	0.82255	-1.59;-1.59;-1.59	5.24	5.24	0.73138	Zinc finger, N-recognin, metazoa (1);Zinc finger, N-recognin (2);	0.000000	0.85682	D	0.000000	D	0.88887	0.6559	M	0.73319	2.225	0.80722	D	1	D;D	0.76494	0.999;0.992	D;P	0.81914	0.995;0.894	D	0.87768	0.2603	10	0.41790	T	0.15	-11.9828	18.4238	0.90602	0.0:1.0:0.0:0.0	.	120;120	Q8IWV8;Q8IWV8-2	UBR2_HUMAN;.	S	120	ENSP00000361994:T120S;ENSP00000361990:T120S;ENSP00000361992:T120S	ENSP00000361990:T120S	T	+	2	0	UBR2	42667887	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.756000	0.74919	2.459000	0.83118	0.655000	0.94253	ACT		0.323	UBR2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040558.2	NM_015255		G	42559909	C	G	42559909	3	3	575	1	0	0	0	0	1	0	0	0	16914	565	20	4	369	4	UBR2	6	42559909	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	9275241	42559909	128555158	53	34043										
SLC35B2	347734	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	44222677	44222677	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aactgcccaatggtgtaaaaGatgaagagctggccacatgc	11	9	0	3			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr6:44222677G>C	ENST00000393812.3	-	4	1208	c.1065C>G	c.(1063-1065)atC>atG	p.I355M	SLC35B2_ENST00000495706.1_5'UTR|MIR4647_ENST00000583964.1_RNA|SLC35B2_ENST00000538577.1_Missense_Mutation_p.I262M|SLC35B2_ENST00000393810.1_3'UTR|SLC35B2_ENST00000537814.1_Missense_Mutation_p.I222M	NM_178148.2	NP_835361.1	Q8TB61	S35B2_HUMAN	solute carrier family 35 (adenosine 3'-phospho 5'-phosphosulfate transporter), member B2	355					3'-phospho-5'-adenylyl sulfate transmembrane transport (GO:1902559)|3'-phosphoadenosine 5'-phosphosulfate biosynthetic process (GO:0050428)|3'-phosphoadenosine 5'-phosphosulfate metabolic process (GO:0050427)|3'-phosphoadenosine 5'-phosphosulfate transport (GO:0046963)|carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|xenobiotic metabolic process (GO:0006805)	Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	3'-phosphoadenosine 5'-phosphosulfate transmembrane transporter activity (GO:0046964)|signal transducer activity (GO:0004871)			breast(1)|central_nervous_system(2)|kidney(3)|large_intestine(2)|lung(4)|ovary(2)|urinary_tract(1)	15	all_cancers(18;2e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TGGTGTAAAAGATGAAGAGCT	0.577																																																0													59	52	54					6																	44222677		2203	4300	6503	SO:0001583	missense	347734			AK075456	CCDS34462.1, CCDS69127.1, CCDS75462.1, CCDS75463.1	6p12.1-p11.21	2013-07-17	2013-07-17		ENSG00000157593	ENSG00000157593		"Solute carriers"	16872	protein-coding gene	gene with protein product		610788	"solute carrier family 35, member B2"				Standard	NM_001286517		Approved	UGTrel4	uc003oxd.3	Q8TB61	OTTHUMG00000014760	ENST00000393812.3:c.1065C>G	6.37:g.44222677G>C	ENSP00000377401:p.Ile355Met	Somatic		WXS	Illumina HiSeq	Phase_I	B4DDU9|F5H7Y9|Q2VY06|Q53GA3|Q5T9W1|Q5T9W2|Q7Z2G3|Q8NBK6|Q96AR6	Missense_Mutation	SNP	ENST00000393812.3	37	CCDS34462.1	.	.	.	.	.	.	.	.	.	.	g	16.92	3.256373	0.59321	.	.	ENSG00000157593	ENST00000393812;ENST00000537814;ENST00000538577;ENST00000341553	T;T;T	0.40476	1.03;1.03;1.03	5.0	2.85	0.33270	.	0.000000	0.85682	D	0.000000	T	0.67031	0.2850	H	0.96460	3.825	0.58432	D	0.999999	D;D	0.89917	1.0;1.0	D;D	0.87578	0.996;0.998	T	0.77838	-0.2439	10	0.87932	D	0	-30.6983	12.2066	0.54355	0.1659:0.0:0.8341:0.0	.	262;355	F5H7Y9;Q8TB61	.;S35B2_HUMAN	M	355;222;262;315	ENSP00000377401:I355M;ENSP00000440340:I222M;ENSP00000443845:I262M	ENSP00000342455:I315M	I	-	3	3	SLC35B2	44330655	1.000000	0.71417	1.000000	0.80357	0.927000	0.56198	2.845000	0.48254	1.121000	0.41925	0.540000	0.68198	ATC		0.577	SLC35B2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040724.2			C	44222677	G	C	44222677	3	2	575	1	0	0	0	0	1	0	0	0	14589	932	33	4	237	4	SLC35B2	6	44222677	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	1662768	44222677	126892390	54	34044										
UBE2CBP	90025	ucsc.edu;bcgsc.ca	37	chr6	83728805	83728805	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gggaattttttgatatatttGgaatttctcaaagattcaat	7	3	2	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr6:83728805G>T	ENST00000369747.3	-	8	1019	c.897C>A	c.(895-897)tcC>tcA	p.S299S		NM_198920.1	NP_944602.1	Q7Z6J8	UBE3D_HUMAN	ubiquitin protein ligase E3D	299					protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)	ligase activity (GO:0016874)										TGATATATTTGGAATTTCTCA	0.373																																																0													64	68	67					6																	83728805		2203	4300	6503	SO:0001819	synonymous_variant	90025			AL137544	CCDS34491.1	6q15	2012-02-24	2012-02-24	2012-02-24	ENSG00000118420	ENSG00000118420			21381	protein-coding gene	gene with protein product	"UBCH10 binding protein with a hect-like domain"	612495	"chromosome 6 open reading frame 157", "ubiquitin-conjugating enzyme E2C binding protein"	C6orf157, UBE2CBP		15749827	Standard	NM_198920		Approved	DKFZp434A1520, H10BH, YJR141W	uc003pjp.2	Q7Z6J8	OTTHUMG00000015108	ENST00000369747.3:c.897C>A	6.37:g.83728805G>T		Somatic		WXS	Illumina HiSeq		B4DP63|Q5T4W2|Q6IPR4|Q75UG0|Q9NT42	Silent	SNP	ENST00000369747.3	37	CCDS34491.1																																																																																				0.373	UBE3D-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041347.7	NM_198920		T	83728805	G	T	83728805	2	4	575	1	0	0	0	0	0	0	0	1	16859	1335	47	4		4	UBE2CBP	6	83728805	Silent	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	39506128	83728805	87386262	55	34045										
TTYH3	80727	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	2691878	2691878	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	cgccaaccccttccagcaggTgagagcctgggaggccggga	15	14	0	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr7:2691878T>C	ENST00000258796.7	+	8	1132		c.e8+2		TTYH3_ENST00000403167.1_Splice_Site|TTYH3_ENST00000407643.1_Splice_Site	NM_025250.2	NP_079526.1	Q9C0H2	TTYH3_HUMAN	tweety family member 3						chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	chloride channel complex (GO:0034707)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	chloride channel activity (GO:0005254)|intracellular calcium activated chloride channel activity (GO:0005229)			kidney(1)|large_intestine(3)|lung(9)|prostate(2)|upper_aerodigestive_tract(2)	17		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;2.04e-14)		TTCCAGCAGGTGAGAGCCTGG	0.657																																																0													32	28	29					7																	2691878		2203	4300	6503	SO:0001630	splice_region_variant	80727				CCDS34588.1	7p22	2013-09-02	2013-09-02		ENSG00000136295	ENSG00000136295			22222	protein-coding gene	gene with protein product		608919	"tweety homolog 3 (Drosophila)"				Standard	NM_025250		Approved	KIAA1691	uc003smp.3	Q9C0H2	OTTHUMG00000152050	ENST00000258796.7:c.927+2T>C	7.37:g.2691878T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A4D201|B7WP98|Q6L749|Q6ZVG3|Q8TEG6	Splice_Site	SNP	ENST00000258796.7	37	CCDS34588.1	.	.	.	.	.	.	.	.	.	.	T	10.79	1.450033	0.26074	.	.	ENSG00000136295	ENST00000258796;ENST00000407643;ENST00000403167	.	.	.	4.1	4.1	0.47936	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.4007	0.60881	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	TTYH3	2658404	1.000000	0.71417	1.000000	0.80357	0.800000	0.45204	7.226000	0.78060	1.635000	0.50512	0.455000	0.32223	.		0.657	TTYH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000325082.2	XM_166523	Intron	C	2691878	T	C	2691878	5	2	575	1	0	0	0	0	0	0	1	0	16753	1710	59	3	959	3	TTYH3	7	2691878	Splice_Site	SNP	T	TCGA-DZ-6132-01A-11D-1961-08		2691878	156446785	56	34046										
GPNMB	10457	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	23313792	23313792	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gccgtgttcttcccgggaaaCcaggaaaaggatccgctact	11	12	1	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr7:23313792C>G	ENST00000381990.2	+	11	1829	c.1668C>G	c.(1666-1668)aaC>aaG	p.N556K	GPNMB_ENST00000478451.1_3'UTR|GPNMB_ENST00000258733.4_Missense_Mutation_p.N544K|GPNMB_ENST00000453162.2_Missense_Mutation_p.N498K|GPNMB_ENST00000539136.1_Missense_Mutation_p.N445K	NM_001005340.1|NM_002510.2	NP_001005340.1|NP_002501.1	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb	556					bone mineralization (GO:0030282)|cell adhesion (GO:0007155)|negative regulation of cell proliferation (GO:0008285)|osteoblast differentiation (GO:0001649)	cytoplasmic membrane-bounded vesicle (GO:0016023)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)	heparin binding (GO:0008201)			breast(5)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(7)|liver(2)|lung(17)|ovary(3)|stomach(2)	41			GBM - Glioblastoma multiforme(13;0.154)			TCCCGGGAAACCAGGAAAAGG	0.428																																																0													86	89	88					7																	23313792		2203	4300	6503	SO:0001583	missense	10457			X76534	CCDS5380.1, CCDS34610.1	7p	2008-07-18			ENSG00000136235	ENSG00000136235			4462	protein-coding gene	gene with protein product	"transmembrane glycoprotein", "glycoprotein NMB", "glycoprotein nmb-like protein", "osteoactivin"	604368				7814155	Standard	NM_002510		Approved	NMB, HGFIN	uc003swc.3	Q14956	OTTHUMG00000022811	ENST00000381990.2:c.1668C>G	7.37:g.23313792C>G	ENSP00000371420:p.Asn556Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A4D155|Q6UVX1|Q8N1A1	Missense_Mutation	SNP	ENST00000381990.2	37	CCDS34610.1	.	.	.	.	.	.	.	.	.	.	C	15.79	2.936771	0.52972	.	.	ENSG00000136235	ENST00000258733;ENST00000435486;ENST00000381990;ENST00000425903;ENST00000539136;ENST00000453162	T;T;T;T	0.14640	2.49;2.5;2.49;2.51	5.93	5.93	0.95920	.	0.509964	0.20778	N	0.085853	T	0.15132	0.0365	L	0.53249	1.67	0.42155	D	0.991579	P;B;P;P	0.41848	0.617;0.001;0.544;0.763	B;B;B;B	0.33960	0.173;0.004;0.122;0.173	T	0.10359	-1.0633	10	0.19147	T	0.46	-3.5709	19.9388	0.97151	0.0:1.0:0.0:0.0	.	445;498;556;544	F6SKP1;F5GY20;Q14956;Q14956-2	.;.;GPNMB_HUMAN;.	K	544;591;556;439;445;498	ENSP00000258733:N544K;ENSP00000371420:N556K;ENSP00000445266:N445K;ENSP00000405586:N498K	ENSP00000258733:N544K	N	+	3	2	GPNMB	23280317	0.716000	0.27956	0.982000	0.44146	0.521000	0.34408	2.571000	0.45990	2.815000	0.96918	0.561000	0.74099	AAC		0.428	GPNMB-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000327152.1	NM_001005340		G	23313792	C	G	23313792	3	3	575	1	0	0	0	0	1	0	0	0	6627	506	18	4	1710	4	GPNMB	7	23313792	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	20621914	23313792	135824871	57	34047										
TPST1	8460	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	65705725	65705725	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gagaggaaaccagggtcattCcccgaatcctggccctgaag	12	12	1	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr7:65705725C>A	ENST00000304842.5	+	2	738	c.313C>A	c.(313-315)Ccc>Acc	p.P105T	TPST1_ENST00000480281.1_Intron	NM_003596.3	NP_003587.1	O60507	TPST1_HUMAN	tyrosylprotein sulfotransferase 1	105					inflammatory response (GO:0006954)|peptidyl-tyrosine sulfation (GO:0006478)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	protein-tyrosine sulfotransferase activity (GO:0008476)			NS(1)|biliary_tract(1)|breast(1)|kidney(3)|lung(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	11						CAGGGTCATTCCCCGAATCCT	0.527																																																0													96	93	94					7																	65705725		2203	4300	6503	SO:0001583	missense	8460			AF038009	CCDS5533.1	7q11.21	2012-12-13			ENSG00000169902	ENSG00000169902	2.8.2.20	"Sulfotransferases, membrane-bound"	12020	protein-coding gene	gene with protein product	"transport and golgi organization 13 homolog A (Drosophila)"	603125				9501187	Standard	NM_003596		Approved	TANGO13A	uc003tuw.3	O60507	OTTHUMG00000023871	ENST00000304842.5:c.313C>A	7.37:g.65705725C>A	ENSP00000302413:p.Pro105Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2M0|Q6FGM7	Missense_Mutation	SNP	ENST00000304842.5	37	CCDS5533.1	.	.	.	.	.	.	.	.	.	.	C	24.8	4.574392	0.86542	.	.	ENSG00000169902	ENST00000304842;ENST00000544114;ENST00000451388	T;T	0.41065	1.01;1.01	5.78	5.78	0.91487	Sulfotransferase domain (1);	0.000000	0.85682	D	0.000000	T	0.72334	0.3447	M	0.89658	3.05	0.80722	D	1	D;D	0.89917	0.998;1.0	D;D	0.80764	0.986;0.994	T	0.76498	-0.2937	10	0.56958	D	0.05	-14.1045	19.0054	0.92848	0.0:1.0:0.0:0.0	.	105;105	F5H7U7;O60507	.;TPST1_HUMAN	T	105	ENSP00000302413:P105T;ENSP00000391338:P105T	ENSP00000302413:P105T	P	+	1	0	TPST1	65343160	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.950000	0.75977	2.723000	0.93209	0.585000	0.79938	CCC		0.527	TPST1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251705.2	NM_003596		A	65705725	C	A	65705725	3	1	575	1	0	0	0	0	1	0	0	0	16439	855	30	4	315	4	TPST1	7	65705725	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	42391933	65705725	93432938	58	34048										
ELN	2006	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	73474279	73474279	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tcctggtgtcggtgtggctcCtggagttggcttggctcctg	16	10	0	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr7:73474279C>T	ENST00000252034.7	+	23	1877	c.1478C>T	c.(1477-1479)cCt>cTt	p.P493L	ELN_ENST00000445912.1_Missense_Mutation_p.P493L|ELN_ENST00000458204.1_Missense_Mutation_p.P483L|ELN_ENST00000357036.5_Missense_Mutation_p.P498L|ELN_ENST00000380553.4_Missense_Mutation_p.P357L|ELN_ENST00000380576.5_Missense_Mutation_p.P474L|ELN_ENST00000380584.4_Missense_Mutation_p.P460L|ELN_ENST00000380575.4_Missense_Mutation_p.P464L|ELN_ENST00000380562.4_Missense_Mutation_p.P499L|ELN_ENST00000429192.1_Missense_Mutation_p.P479L|CTB-51J22.1_ENST00000435932.1_RNA|ELN_ENST00000320399.6_Missense_Mutation_p.P493L|ELN_ENST00000414324.1_Missense_Mutation_p.P469L|ELN_ENST00000320492.7_Missense_Mutation_p.P412L|ELN_ENST00000358929.4_Missense_Mutation_p.P528L	NM_000501.2|NM_001278915.1	NP_000492.2|NP_001265844.1	P15502	ELN_HUMAN	elastin	0	Ala-rich.				blood circulation (GO:0008015)|blood vessel remodeling (GO:0001974)|cell proliferation (GO:0008283)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|organ morphogenesis (GO:0009887)|regulation of actin filament polymerization (GO:0030833)|respiratory gaseous exchange (GO:0007585)|skeletal muscle tissue development (GO:0007519)|stress fiber assembly (GO:0043149)	elastic fiber (GO:0071953)|extracellular region (GO:0005576)|mitochondrion (GO:0005739)|proteinaceous extracellular matrix (GO:0005578)	extracellular matrix binding (GO:0050840)|extracellular matrix constituent conferring elasticity (GO:0030023)|extracellular matrix structural constituent (GO:0005201)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(10)|ovary(4)|pancreas(2)|prostate(1)|skin(2)|stomach(1)	32		Lung NSC(55;0.159)				GGTGTGGCTCCTGGAGTTGGC	0.612			T	PAX5	B-ALL		"Supravalvular Aortic Stenosis, Cutis laxa , Williams-Beuren Syndrome"																																Dom	yes		7	7q11.23	2006	elastin	yes	L	0													205	192	196					7																	73474279		2203	4300	6503	SO:0001583	missense	2006				CCDS5562.2, CCDS43598.1, CCDS43599.1, CCDS47611.1, CCDS47612.1, CCDS64673.1, CCDS64674.1, CCDS64675.1, CCDS64676.1, CCDS64677.1, CCDS64678.1, CCDS75616.1, CCDS75617.1	7q11.1-q21.1	2008-08-01	2008-08-01		ENSG00000049540	ENSG00000049540			3327	protein-coding gene	gene with protein product	"tropoelastin", "supravalvular aortic stenosis", "Williams-Beuren syndrome"	130160				8096434	Standard	NM_001278939		Approved	WBS, WS, SVAS	uc003tzn.3	P15502	OTTHUMG00000150229	ENST00000252034.7:c.1478C>T	7.37:g.73474279C>T	ENSP00000252034:p.Pro493Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KTS6|O15336|O15337|Q14233|Q14234|Q14235|Q14238|Q6P0L4|Q6ZWJ6|Q75MU5|Q7Z316|Q7Z3F5|Q9UMF5	Missense_Mutation	SNP	ENST00000252034.7	37	CCDS5562.2	.	.	.	.	.	.	.	.	.	.	C	14.98	2.695839	0.48202	.	.	ENSG00000049540	ENST00000445912;ENST00000252034;ENST00000358929;ENST00000320492;ENST00000414324;ENST00000380562;ENST00000380575;ENST00000380584;ENST00000458204;ENST00000357036;ENST00000429192;ENST00000380553;ENST00000380576;ENST00000320399	T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.44482	1.42;1.35;1.26;1.39;0.95;1.27;0.92;1.18;1.41;1.4;0.95;1.07;1.0;1.38	2.86	2.86	0.33363	.	.	.	.	.	T	0.41119	0.1145	.	.	.	0.80722	D	1	P;P;P;P;P;P;P;P;P;P;P;P;P	0.51351	0.573;0.573;0.573;0.573;0.573;0.573;0.573;0.573;0.573;0.944;0.573;0.573;0.573	B;B;B;B;B;B;B;B;B;P;B;B;B	0.44811	0.199;0.199;0.199;0.199;0.199;0.199;0.199;0.199;0.199;0.461;0.199;0.199;0.199	T	0.47302	-0.9128	8	0.62326	D	0.03	.	11.5518	0.50725	0.0:1.0:0.0:0.0	.	493;412;469;483;499;464;479;498;474;357;404;460;493	E7ENM0;G5E950;G3V0G6;E7EN65;P15502-1;P15502-7;P15502-12;P15502-5;P15502-13;P15502-11;B3KRT8;P15502-8;P15502-2	.;.;.;.;.;.;.;.;.;.;.;.;.	L	493;493;528;412;469;499;464;460;483;498;479;357;474;493	ENSP00000389857:P493L;ENSP00000252034:P493L;ENSP00000351807:P528L;ENSP00000315607:P412L;ENSP00000392575:P469L;ENSP00000369936:P499L;ENSP00000369949:P464L;ENSP00000369958:P460L;ENSP00000403162:P483L;ENSP00000349540:P498L;ENSP00000391129:P479L;ENSP00000369926:P357L;ENSP00000369950:P474L;ENSP00000313565:P493L	ENSP00000252034:P493L	P	+	2	0	ELN	73112215	0.159000	0.22864	0.014000	0.15608	0.005000	0.04900	3.649000	0.54417	1.625000	0.50366	0.555000	0.69702	CCT		0.612	ELN-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000316913.1	NM_000501		T	73474279	C	T	73474279	3	4	575	1	0	0	0	0	1	0	0	0	5073	681	24	2	1583	2	ELN	7	73474279	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	7768554	73474279	85664384	59	34049										
MCM7	4176	ucsc.edu;bcgsc.ca	37	chr7	99690937	99690937	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	agctgtctgccccttgtctcCtagaagagagtcctttgaca	9	12	2	3			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr7:99690937C>A	ENST00000303887.5	-	14	2581	c.1936G>T	c.(1936-1938)Gga>Tga	p.G646*	MIR93_ENST00000385024.1_RNA|MCM7_ENST00000343023.6_Intron|MCM7_ENST00000354230.3_Nonsense_Mutation_p.G470*|MIR106B_ENST00000385301.1_RNA|MIR25_ENST00000384816.1_RNA	NM_005916.3	NP_005907.3	P33993	MCM7_HUMAN	minichromosome maintenance complex component 7	646	Interaction with ATRIP.				cell proliferation (GO:0008283)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to epidermal growth factor stimulus (GO:0071364)|DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA strand elongation involved in DNA replication (GO:0006271)|DNA unwinding involved in DNA replication (GO:0006268)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|regulation of phosphorylation (GO:0042325)|response to drug (GO:0042493)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|MCM complex (GO:0042555)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA helicase activity (GO:0003678)|single-stranded DNA binding (GO:0003697)			endometrium(1)|kidney(5)|large_intestine(5)|lung(4)|ovary(1)|stomach(1)	17	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CCCTTGTCTCCTAGAAGAGAG	0.483																																																0																																										SO:0001587	stop_gained	4176				CCDS5683.1, CCDS5684.1	7q21.3-q22.1	2014-06-12	2007-04-04		ENSG00000166508	ENSG00000166508			6950	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 104"	600592	"minichromosome maintenance deficient (S. cerevisiae) 7", "MCM7 minichromosome maintenance deficient 7 (S. cerevisiae)"	MCM2		7842741	Standard	NM_005916		Approved	CDC47, PPP1R104	uc003usw.1	P33993	OTTHUMG00000154671	ENST00000303887.5:c.1936G>T	7.37:g.99690937C>A	ENSP00000307288:p.Gly646*	Somatic		WXS	Illumina HiSeq		A4D2A1|A4D2A2|E9PGN9|Q15076|Q96D34|Q96GL1	Nonsense_Mutation	SNP	ENST00000303887.5	37	CCDS5683.1	.	.	.	.	.	.	.	.	.	.	C	42	9.787820	0.99264	.	.	ENSG00000166508	ENST00000303887;ENST00000542483;ENST00000362082;ENST00000354230	.	.	.	5.35	2.48	0.30137	.	0.126219	0.53938	D	0.000052	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.15066	T	0.55	-26.219	6.5489	0.22423	0.1452:0.6947:0.0:0.1601	.	.	.	.	X	646;583;539;470	.	ENSP00000307288:G646X	G	-	1	0	MCM7	99528873	0.912000	0.30974	0.205000	0.23548	0.402000	0.30811	2.813000	0.48002	0.842000	0.35045	-0.229000	0.12294	GGA		0.483	MCM7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336534.3			A	99690937	C	A	99690937	4	1	575	1	0	0	0	0	0	1	0	0	9399	690	24	4	231	4	MCM7	7	99690937	Nonsense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	26216658	99690937	59447726	60	34050										
TRIM56	81844	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	100732355	100732355	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ggcgcagggccctgagcctcTcccaggccagccacgcggtg	15	17	1	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr7:100732355T>C	ENST00000306085.6	+	3	2059	c.1762T>C	c.(1762-1764)Tcc>Ccc	p.S588P		NM_030961.1	NP_112223.1	Q9BRZ2	TRI56_HUMAN	tripartite motif containing 56	588					defense response to virus (GO:0051607)|innate immune response (GO:0045087)|interferon-beta production (GO:0032608)|negative regulation of viral entry into host cell (GO:0046597)|negative regulation of viral release from host cell (GO:1902187)|positive regulation of type I interferon production (GO:0032481)|protein K63-linked ubiquitination (GO:0070534)|regulation of type I interferon production (GO:0032479)|response to type I interferon (GO:0034340)	cytoplasm (GO:0005737)|cytosol (GO:0005829)	ligase activity (GO:0016874)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|cervix(1)|kidney(1)|large_intestine(4)|lung(7)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	18	Lung NSC(181;0.136)|all_lung(186;0.182)					CCTGAGCCTCTCCCAGGCCAG	0.697																																					Ovarian(89;1092 1379 22756 38989 39611)											0													44	51	48					7																	100732355		2048	4159	6207	SO:0001583	missense	81844			BK000511	CCDS43625.1	7q11.2	2013-01-09	2011-01-25		ENSG00000169871	ENSG00000169871		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	19028	protein-coding gene	gene with protein product			"tripartite motif-containing 56"				Standard	NM_030961		Approved	RNF109	uc003uxq.3	Q9BRZ2	OTTHUMG00000157032	ENST00000306085.6:c.1762T>C	7.37:g.100732355T>C	ENSP00000305161:p.Ser588Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PJS5|Q86VT6|Q8N2H8|Q8NAC0|Q9H031	Missense_Mutation	SNP	ENST00000306085.6	37	CCDS43625.1	.	.	.	.	.	.	.	.	.	.	T	7.472	0.646792	0.14516	.	.	ENSG00000169871	ENST00000306085	T	0.27557	1.66	3.87	-0.121	0.13535	Six-bladed beta-propeller, TolB-like (1);	.	.	.	.	T	0.14485	0.0350	N	0.14661	0.345	0.09310	N	1	B	0.26975	0.165	B	0.20384	0.029	T	0.19582	-1.0301	9	0.45353	T	0.12	.	4.0445	0.09766	0.2464:0.0:0.3462:0.4074	.	588	Q9BRZ2	TRI56_HUMAN	P	588	ENSP00000305161:S588P	ENSP00000305161:S588P	S	+	1	0	TRIM56	100519075	0.037000	0.19845	0.007000	0.13788	0.735000	0.41995	0.307000	0.19296	-0.011000	0.14247	0.477000	0.44152	TCC		0.697	TRIM56-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347185.1	NM_030961		C	100732355	T	C	100732355	3	2	575	1	0	0	0	0	1	0	0	0	16542	1551	54	3	1764	3	TRIM56	7	100732355	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	1041418	100732355	58406308	61	34051										
DLD	1738	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	107542828	107542828	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	atgcttgaatgttggttgtaTtccttctaaggtgagcatgt	11	5	1	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr7:107542828T>C	ENST00000205402.5	+	4	538	c.257T>C	c.(256-258)aTt>aCt	p.I86T	DLD_ENST00000437604.2_Missense_Mutation_p.I86T|DLD_ENST00000494441.1_3'UTR|DLD_ENST00000537148.1_Intron|DLD_ENST00000440410.1_Intron	NM_000108.3	NP_000099.2	P09622	DLDH_HUMAN	dihydrolipoamide dehydrogenase	86					branched-chain amino acid catabolic process (GO:0009083)|cell redox homeostasis (GO:0045454)|cellular metabolic process (GO:0044237)|cellular nitrogen compound metabolic process (GO:0034641)|gastrulation (GO:0007369)|lysine catabolic process (GO:0006554)|mitochondrial electron transport, NADH to ubiquinone (GO:0006120)|proteolysis (GO:0006508)|pyruvate metabolic process (GO:0006090)|regulation of acetyl-CoA biosynthetic process from pyruvate (GO:0010510)|regulation of membrane potential (GO:0042391)|small molecule metabolic process (GO:0044281)|sperm capacitation (GO:0048240)|tricarboxylic acid cycle (GO:0006099)	acrosomal matrix (GO:0043159)|cilium (GO:0005929)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	dihydrolipoyl dehydrogenase activity (GO:0004148)|flavin adenine dinucleotide binding (GO:0050660)			NS(1)|breast(1)|central_nervous_system(1)|kidney(5)|large_intestine(1)|lung(10)|prostate(1)	20					Flavin adenine dinucleotide(DB03147)	GTTGGTTGTATTCCTTCTAAG	0.368																																																0													295	259	271					7																	107542828		2203	4300	6503	SO:0001583	missense	1738			AB209703	CCDS5749.1	7q31-q32	2006-05-22	2006-05-22		ENSG00000091140	ENSG00000091140	1.8.1.4		2898	protein-coding gene	gene with protein product	"E3 component of pyruvate dehydrogenase complex, 2-oxo-glutarate complex, branched chain keto acid dehydrogenase complex"	238331	"dihydrolipoamide dehydrogenase (E3 component of pyruvate dehydrogenase complex, 2-oxo-glutarate complex, branched chain keto acid dehydrogenase complex)"	LAD, GCSL			Standard	NM_000108		Approved	DLDH	uc003vet.3	P09622	OTTHUMG00000154813	ENST00000205402.5:c.257T>C	7.37:g.107542828T>C	ENSP00000205402:p.Ile86Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5X0|B4DHG0|B4DT69|Q14131|Q14167|Q59EV8|Q8WTS4	Missense_Mutation	SNP	ENST00000205402.5	37	CCDS5749.1	.	.	.	.	.	.	.	.	.	.	T	23.6	4.430417	0.83776	.	.	ENSG00000091140	ENST00000205402;ENST00000417551;ENST00000437604;ENST00000539590	T;T;T	0.56103	0.48;0.48;0.48	6.17	6.17	0.99709	Pyridine nucleotide-disulphide oxidoreductase, FAD/NAD(P)-binding domain (1);	0.000000	0.85682	D	0.000000	D	0.82365	0.5021	H	0.96691	3.865	0.80722	D	1	P;D	0.54397	0.945;0.966	D;D	0.83275	0.955;0.996	D	0.87980	0.2742	10	0.87932	D	0	-11.8281	16.0034	0.80327	0.0:0.0:0.0:1.0	.	86;86	B4DT69;P09622	.;DLDH_HUMAN	T	86;86;86;36	ENSP00000205402:I86T;ENSP00000390667:I86T;ENSP00000387542:I86T	ENSP00000205402:I86T	I	+	2	0	DLD	107330064	1.000000	0.71417	1.000000	0.80357	0.962000	0.63368	6.900000	0.75687	2.371000	0.80710	0.533000	0.62120	ATT		0.368	DLD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337194.3	NM_000108		C	107542828	T	C	107542828	3	2	575	1	0	0	0	0	1	0	0	0	4553	1493	52	3	271	3	DLD	7	107542828	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	6810473	107542828	51595835	62	34052										
MET	4233	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	116417457	116417457	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gcacagggcattttggttgtGtatatcatgggactttgttg	13	5	1	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr7:116417457G>A	ENST00000318493.6	+	16	3515	c.3328G>A	c.(3328-3330)Gta>Ata	p.V1110I	MET_ENST00000397752.3_Missense_Mutation_p.V1092I|MET_ENST00000539704.1_5'UTR			Q9NWH9	SLTM_HUMAN	MET proto-oncogene, receptor tyrosine kinase	0					apoptotic process (GO:0006915)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(10)|breast(4)|central_nervous_system(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|kidney(25)|large_intestine(8)|liver(3)|lung(70)|ovary(10)|pleura(2)|prostate(4)|skin(5)|stomach(6)|testis(1)|thyroid(4)|upper_aerodigestive_tract(64)|urinary_tract(3)	233	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			TTTTGGTTGTGTATATCATGG	0.338			Mis		"papillary renal, head-neck squamous cell "	papillary renal			Hereditary Papillary Renal Carcinoma (type 1)																														Dom	yes	Familial Papillary Renal Cancer	7	7q31	4233	met proto-oncogene (hepatocyte growth factor receptor)		E	0			GRCh37	CM990852	MET	M							191	176	180					7																	116417457		1827	4084	5911	SO:0001583	missense	4233	Familial Cancer Database	HPRC, Hereditary Papillary Renal Cell Cancer	M35073	CCDS43636.1, CCDS47689.1	7q31	2014-09-17	2014-06-26		ENSG00000105976	ENSG00000105976	2.7.10.1		7029	protein-coding gene	gene with protein product	"hepatocyte growth factor receptor"	164860	"met proto-oncogene"			1846706, 1611909	Standard	NM_001127500		Approved	HGFR, RCCP2	uc010lkh.3	P08581	OTTHUMG00000023299	ENST00000318493.6:c.3328G>A	7.37:g.116417457G>A	ENSP00000317272:p.Val1110Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5V8|B2RTX3|Q2VPK7|Q52MB3|Q658J7|Q6ZNF2|Q86TK6|Q9H7C3|Q9H8U9	Missense_Mutation	SNP	ENST00000318493.6	37	CCDS47689.1	.	.	.	.	.	.	.	.	.	.	G	27.5	4.834124	0.91036	.	.	ENSG00000105976	ENST00000397752;ENST00000318493	T;T	0.64991	-0.13;-0.13	5.16	5.16	0.70880	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.81178	0.4768	M	0.80422	2.495	0.80722	D	1	D;D	0.76494	0.999;0.99	D;D	0.85130	0.997;0.99	D	0.83726	0.0195	10	0.87932	D	0	.	19.0107	0.92871	0.0:0.0:1.0:0.0	.	1110;1092	P08581-2;P08581	.;MET_HUMAN	I	1092;1110	ENSP00000380860:V1092I;ENSP00000317272:V1110I	ENSP00000317272:V1110I	V	+	1	0	MET	116204693	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	9.813000	0.99286	2.560000	0.86352	0.563000	0.77884	GTA		0.338	MET-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059620.3			A	116417457	G	A	116417457	3	1	575	1	0	0	0	0	1	0	0	0	9492	1377	48	2	3386	2	MET	7	116417457	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	8874629	116417457	42721206	63	34053										
DLGAP2	9228	broad.mit.edu	37	chr8	1497740	1497740	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gcgcagctcctggtctacgcTgacggtcagccaggccaagg	14	14	2	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr8:1497740T>A	ENST00000421627.2	+	2	1015	c.881T>A	c.(880-882)cTg>cAg	p.L294Q		NM_004745.3	NP_004736.2	Q9P1A6	DLGP2_HUMAN	discs, large (Drosophila) homolog-associated protein 2	373					neuron-neuron synaptic transmission (GO:0007270)	cell junction (GO:0030054)|neurofilament (GO:0005883)|postsynaptic membrane (GO:0045211)				breast(1)|endometrium(6)|lung(31)|prostate(3)	41		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)		TGGTCTACGCTGACGGTCAGC	0.652																																																0													16	18	17					8																	1497740		2174	4272	6446	SO:0001583	missense	9228			AB000275	CCDS47760.1, CCDS75689.1	8p23	2007-12-06	2001-11-28		ENSG00000198010	ENSG00000198010			2906	protein-coding gene	gene with protein product		605438	"discs, large (Drosophila) homolog-associated protein 2"			9286858, 10854099	Standard	NM_004745		Approved	DAP-2	uc003wpl.4	Q9P1A6	OTTHUMG00000163599	ENST00000421627.2:c.881T>A	8.37:g.1497740T>A	ENSP00000400258:p.Leu294Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A1QCF8|A1QCF9|A5D8Y2|O14488|O14664|Q9P1A7	Missense_Mutation	SNP	ENST00000421627.2	37	CCDS47760.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	23.4|23.4	4.417592|4.417592	0.83449|0.83449	.|.	.|.	ENSG00000198010|ENSG00000198010	ENST00000356067;ENST00000421627|ENST00000520901	T|.	0.37235|.	1.21|.	5.3|5.3	5.3|5.3	0.74995|0.74995	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|.	0.80481|.	0.4631|.	M|M	0.88704|0.88704	2.975|2.975	0.49915|0.49915	D|D	0.999833|0.999833	D;D|.	0.89917|.	1.0;1.0|.	D;D|.	0.97110|.	1.0;0.991|.	D|.	0.84080|.	0.0384|.	10|.	0.87932|.	D|.	0|.	-13.9858|-13.9858	15.2356|15.2356	0.73427|0.73427	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	373;373|.	Q9P1A6-2;Q9P1A6|.	.;DLGP2_HUMAN|.	Q|R	339;294|311	ENSP00000400258:L294Q|.	ENSP00000348366:L339Q|.	L|X	+|+	2|1	0|0	DLGAP2|DLGAP2	1485147|1485147	1.000000|1.000000	0.71417|0.71417	0.959000|0.959000	0.39883|0.39883	0.823000|0.823000	0.46562|0.46562	7.257000|7.257000	0.78362|0.78362	1.992000|1.992000	0.58205|0.58205	0.533000|0.533000	0.62120|0.62120	CTG|TGA		0.652	DLGAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374478.1	NM_004745		A	1497740	T	A	1497740	3	1	575	1	0	0	0	0	1	0	0	0	4562	1580	55	5	883	5	DLGAP2	8	1497740	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08		1497740	144866282	64	34054										
MCPH1	79648	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	6302563	6302563	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	cagctgccatcaagccctgcTcagttgagctgcagaagtct	10	13	3	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr8:6302563T>C	ENST00000344683.5	+	8	1396	c.1320T>C	c.(1318-1320)gcT>gcC	p.A440A	MCPH1_ENST00000522905.1_Silent_p.A392A|MCPH1_ENST00000519480.1_Silent_p.A440A	NM_024596.3	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin 1	440					cerebral cortex development (GO:0021987)|mitotic cell cycle (GO:0000278)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleoplasm (GO:0005654)	identical protein binding (GO:0042802)		AGPAT5/MCPH1(2)	central_nervous_system(1)|large_intestine(4)|skin(1)	6		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		CAAGCCCTGCTCAGTTGAGCT	0.403																																					Colon(95;1448 1467 8277 34473 35819)											0													90	88	89					8																	6302563		1903	4122	6025	SO:0001819	synonymous_variant	79648			AK022909	CCDS43689.1, CCDS55190.1, CCDS55191.1	8p23.1	2012-11-26	2007-11-26		ENSG00000147316	ENSG00000147316			6954	protein-coding gene	gene with protein product	"BRCT-repeat inhibitor of TERT expression 1"	607117	"microcephaly, primary autosomal recessive 1"			9683597, 17925396	Standard	NM_024596		Approved	FLJ12847, BRIT1	uc003wqi.3	Q8NEM0	OTTHUMG00000163618	ENST00000344683.5:c.1320T>C	8.37:g.6302563T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DWW2|E9PGU5|E9PH63|Q66GU1|Q9H9C7	Silent	SNP	ENST00000344683.5	37	CCDS43689.1																																																																																				0.403	MCPH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374532.2	NM_024596		C	6302563	T	C	6302563	2	2	575	1	0	0	0	0	0	0	0	1	9405	1538	54	3		3	MCPH1	8	6302563	Silent	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	4804823	6302563	140061459	65	34055										
TM2D2	83877	ucsc.edu	37	chr8	38853742	38853742	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ggtagcttacaggtaagagcAgaggatgaccggagagtggg	18	5	0	4			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr8:38853742A>T	ENST00000456397.2	-	1	310	c.217T>A	c.(217-219)Tgc>Agc	p.C73S	TM2D2_ENST00000522434.1_Intron|TM2D2_ENST00000456845.2_Intron|TM2D2_ENST00000397070.2_5'UTR|ADAM9_ENST00000481513.1_5'Flank|ADAM9_ENST00000466936.1_5'Flank|ADAM9_ENST00000487273.2_5'Flank|TM2D2_ENST00000412303.1_Intron	NM_078473.2	NP_510882.1	Q9BX73	TM2D2_HUMAN	TM2 domain containing 2	73						integral component of membrane (GO:0016021)				breast(1)|endometrium(1)|large_intestine(2)|lung(2)	6		all_lung(54;0.00338)|Lung NSC(58;0.0133)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			AGGTAAGAGCAGAGGATGACC	0.657																																																0													29	32	31					8																	38853742		2203	4300	6503	SO:0001583	missense	83877			AF353991	CCDS6111.1, CCDS43733.1	8p11.23	2005-08-09				ENSG00000169490			24127	protein-coding gene	gene with protein product		610081				11278849	Standard	XM_005273657		Approved	BLP1	uc003xmk.3	Q9BX73		ENST00000456397.2:c.217T>A	8.37:g.38853742A>T	ENSP00000416050:p.Cys73Ser	Somatic		WXS	Illumina HiSeq		B2RBK4|D3DSX8|Q8N0X9	Missense_Mutation	SNP	ENST00000456397.2	37	CCDS6111.1	.	.	.	.	.	.	.	.	.	.	A	29.7	5.029304	0.93518	.	.	ENSG00000169490	ENST00000456397	T	0.39787	1.06	5.78	5.78	0.91487	.	0.000000	0.85682	D	0.000000	T	0.66237	0.2769	M	0.77406	2.37	0.80722	D	1	D	0.71674	0.998	D	0.76071	0.987	T	0.70680	-0.4805	10	0.87932	D	0	-19.8572	15.7636	0.78106	1.0:0.0:0.0:0.0	.	73	Q9BX73	TM2D2_HUMAN	S	73	ENSP00000416050:C73S	ENSP00000416050:C73S	C	-	1	0	TM2D2	38972899	1.000000	0.71417	0.979000	0.43373	0.721000	0.41392	7.461000	0.80834	2.210000	0.71456	0.533000	0.62120	TGC		0.657	TM2D2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377280.1	NM_031940		T	38853742	A	T	38853742	3	4	575	1	0	0	0	0	1	0	0	0	15976	188	7	5	541	5	TM2D2	8	38853742	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	32551179	38853742	107510280	66	34056										
HGSNAT	138050	hgsc.bcm.edu;broad.mit.edu	37	chr8	43002092	43002092	+	Splice_Site	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ttttcctaatttctaccagaCttagacaaaaaaagacatgc	4	9	1	3			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr8:43002092C>G	ENST00000458501.2	+	2	204	c.204C>G	c.(202-204)gaC>gaG	p.D68E	HGSNAT_ENST00000379644.4_Splice_Site_p.D40E			Q68CP4	HGNAT_HUMAN	heparan-alpha-glucosaminide N-acetyltransferase	68					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|lysosomal transport (GO:0007041)|protein oligomerization (GO:0051259)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)	heparan-alpha-glucosaminide N-acetyltransferase activity (GO:0015019)|transferase activity, transferring acyl groups (GO:0016746)			cervix(1)|endometrium(2)|large_intestine(4)|lung(6)	13	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)			TTCTACCAGACTTAGACAAAA	0.388																																																0													79	71	73					8																	43002092		1832	4081	5913	SO:0001630	splice_region_variant	138050				CCDS47852.1	8p11.1	2011-11-16	2006-09-05	2006-08-16	ENSG00000165102	ENSG00000165102	2.3.1.78		26527	protein-coding gene	gene with protein product		610453	"transmembrane protein 76"	TMEM76		17033958, 16960811	Standard	NM_152419		Approved	FLJ32731, HGNAT	uc003xpx.4	Q68CP4	OTTHUMG00000164102	ENST00000458501.2:c.203-1C>G	8.37:g.43002092C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4E2V0	Missense_Mutation	SNP	ENST00000458501.2	37		.	.	.	.	.	.	.	.	.	.	C	13.07	2.126375	0.37533	.	.	ENSG00000165102	ENST00000458501;ENST00000332689;ENST00000379644	D;D	0.92495	-3.05;-3.05	5.42	-5.43	0.02632	.	0.299191	0.23658	N	0.045843	D	0.84229	0.5426	L	0.48642	1.525	0.18873	N	0.999986	B	0.33694	0.421	B	0.22386	0.039	T	0.70472	-0.4862	10	0.39692	T	0.17	.	13.0426	0.58908	0.0:0.1384:0.0:0.8616	.	68	Q68CP4	HGNAT_HUMAN	E	68;40;40	ENSP00000389524:D68E;ENSP00000368965:D40E	ENSP00000327833:D40E	D	+	3	2	HGSNAT	43121249	0.309000	0.24518	0.090000	0.20809	0.088000	0.18126	-1.048000	0.03517	-1.182000	0.02727	-0.390000	0.06520	GAC		0.388	HGSNAT-202	KNOWN	basic	protein_coding	protein_coding		XM_372038	Missense_Mutation	G	43002092	C	G	43002092	5	3	575	1	0	0	0	0	0	0	1	0	7095	579	20	4	126	4	HGSNAT	8	43002092	Splice_Site	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	4148350	43002092	103361930	67	34057										
COL14A1	7373	broad.mit.edu	37	chr8	121170484	121170484	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	cttcttgtgactccaacttcAggtaaaaacaattgactttg	6	9	2	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr8:121170484A>G	ENST00000297848.3	+	3	474	c.204A>G	c.(202-204)tcA>tcG	p.S68S	COL14A1_ENST00000309791.4_Splice_Site_p.S68S|COL14A1_ENST00000247781.3_Splice_Site_p.S68S|COL14A1_ENST00000537875.1_Splice_Site_p.S68S|COL14A1_ENST00000432943.2_3'UTR	NM_021110.1	NP_066933.1			collagen, type XIV, alpha 1											NS(1)|autonomic_ganglia(1)|breast(11)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(9)|large_intestine(31)|lung(42)|ovary(5)|pancreas(1)|prostate(1)|skin(8)|stomach(2)|upper_aerodigestive_tract(2)	119	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)			CTCCAACTTCAGGTAAAAACA	0.353																																																0													59	60	59					8																	121170484		2203	4300	6503	SO:0001630	splice_region_variant	7373				CCDS34938.1	8q23	2013-02-11	2008-02-04		ENSG00000187955	ENSG00000187955		"Collagens", "Fibronectin type III domain containing"	2191	protein-coding gene	gene with protein product		120324	"undulin"	UND		1716629, 9427527	Standard	NM_021110		Approved		uc003yox.4	Q05707	OTTHUMG00000149877	ENST00000297848.3:c.205+1A>G	8.37:g.121170484A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000297848.3	37	CCDS34938.1																																																																																				0.353	COL14A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313657.2	NM_021110	Silent	G	121170484	A	G	121170484	5	3	575	1	0	0	0	0	0	0	1	0	3673	202	7	3	210	3	COL14A1	8	121170484	Splice_Site	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	78168392	121170484	25193538	68	34058										
ADCY8	114	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	131921969	131921969	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	cttacccagggattcctccaGattcgagtttgtttgcaata	8	10	0	1	rs368729916		TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr8:131921969G>C	ENST00000286355.5	-	6	3717	c.1625C>G	c.(1624-1626)tCt>tGt	p.S542C	ADCY8_ENST00000377928.3_Missense_Mutation_p.S542C	NM_001115.2	NP_001106.1	P40145	ADCY8_HUMAN	adenylate cyclase 8 (brain)	542					activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|learning or memory (GO:0007611)|long-term memory (GO:0007616)|neurotrophin TRK receptor signaling pathway (GO:0048011)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	adenylate cyclase activity (GO:0004016)|ATP binding (GO:0005524)|calcium- and calmodulin-responsive adenylate cyclase activity (GO:0008294)|metal ion binding (GO:0046872)			NS(1)|breast(4)|central_nervous_system(2)|cervix(1)|endometrium(10)|kidney(5)|large_intestine(21)|lung(67)|pancreas(1)|prostate(3)|skin(12)|upper_aerodigestive_tract(5)|urinary_tract(2)	134	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GATTCCTCCAGATTCGAGTTT	0.463										HNSCC(32;0.087)																																						0								G	CYS/SER	1,4405	2.1+/-5.4	0,1,2202	242	216	225		1625	5.9	1	8		225	0,8600		0,0,4300	no	missense	ADCY8	NM_001115.2	112	0,1,6502	CC,CG,GG		0.0,0.0227,0.0077	probably-damaging	542/1252	131921969	1,13005	2203	4300	6503	SO:0001583	missense	114			Z35309	CCDS6363.1	8q24	2013-02-04			ENSG00000155897	ENSG00000155897	4.6.1.1	"Adenylate cyclases"	239	protein-coding gene	gene with protein product		103070		ADCY3		8076676	Standard	NM_001115		Approved	HBAC1, AC8	uc003ytd.4	P40145	OTTHUMG00000164756	ENST00000286355.5:c.1625C>G	8.37:g.131921969G>C	ENSP00000286355:p.Ser542Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000286355.5	37	CCDS6363.1	.	.	.	.	.	.	.	.	.	.	G	31	5.072076	0.93950	2.27E-4	0.0	ENSG00000155897	ENST00000286355;ENST00000377928;ENST00000522949	D;D;D	0.87029	-2.2;-2.2;-2.2	5.93	5.93	0.95920	Adenylyl cyclase class-3/4/guanylyl cyclase (4);	0.052374	0.85682	D	0.000000	D	0.96423	0.8833	H	0.98276	4.19	0.49483	D	0.999792	D;D	0.69078	0.995;0.997	D;D	0.68353	0.957;0.953	D	0.97510	1.0066	10	0.87932	D	0	.	19.3421	0.94347	0.0:0.0:1.0:0.0	.	542;542	E7EVL1;P40145	.;ADCY8_HUMAN	C	542;542;157	ENSP00000286355:S542C;ENSP00000367161:S542C;ENSP00000428010:S157C	ENSP00000286355:S542C	S	-	2	0	ADCY8	131991151	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.869000	0.99810	2.826000	0.97356	0.655000	0.94253	TCT		0.463	ADCY8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380080.1			C	131921969	G	C	131921969	3	2	575	1	0	0	0	0	1	0	0	0	300	942	33	4	2182	4	ADCY8	8	131921969	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	10751485	131921969	14442053	69	34059										
NAPRT1	1936	broad.mit.edu	37	chr8	144659504	144659504	+	IGR	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	cctgagcccgcctcaggcccAtctctagcagccgcttctct	8	19	3	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr8:144659504A>G	ENST00000529272.1	-	0	1311				NAPRT1_ENST00000460623.1_5'Flank|RP11-661A12.7_ENST00000529247.1_RNA|NAPRT1_ENST00000449291.2_Missense_Mutation_p.M168T|NAPRT1_ENST00000426292.3_Missense_Mutation_p.M168T|RP11-661A12.9_ENST00000531730.1_RNA|NAPRT1_ENST00000276844.7_Missense_Mutation_p.M168T|NAPRT1_ENST00000435154.3_Missense_Mutation_p.M168T			P29692	EF1D_HUMAN	eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein)						cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)|translation (GO:0006412)|translational elongation (GO:0006414)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|eukaryotic translation elongation factor 1 complex (GO:0005853)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)|signal transducer activity (GO:0004871)|translation elongation factor activity (GO:0003746)|translation factor activity, nucleic acid binding (GO:0008135)			breast(2)|cervix(1)|endometrium(1)|kidney(4)|lung(2)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	14	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)			CCTCAGGCCCATCTCTAGCAG	0.697																																																0													9	11	11					8																	144659504		2175	4277	6452	SO:0001628	intergenic_variant	93100			AK024550	CCDS6404.1, CCDS6405.1, CCDS47930.1, CCDS56559.1	8q24	2011-09-15			ENSG00000104529	ENSG00000104529			3211	protein-coding gene	gene with protein product		130592				8334168	Standard	NM_001960		Approved	EF-1D, FLJ20897	uc003yyt.3	P29692	OTTHUMG00000165191		8.37:g.144659504A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DDU4|D3DWK3|E9PBQ9|Q4VBZ6|Q969J1|Q96I38	Missense_Mutation	SNP	ENST00000529272.1	37	CCDS6405.1	.	.	.	.	.	.	.	.	.	.	A	18.50	3.637134	0.67130	.	.	ENSG00000147813	ENST00000435154;ENST00000449291;ENST00000340490;ENST00000426292;ENST00000276844	T;T;T;T;T	0.46451	0.89;0.89;0.87;0.9;0.88	4.84	4.84	0.62591	Quinolinate phosphoribosyl transferase, C-terminal (1);	0.225191	0.51477	D	0.000096	T	0.49525	0.1562	M	0.83603	2.65	0.44976	D	0.997993	B;P;B;P	0.35944	0.351;0.529;0.435;0.491	B;B;B;B	0.37015	0.239;0.236;0.154;0.239	T	0.59311	-0.7478	10	0.87932	D	0	-9.6205	13.7315	0.62789	1.0:0.0:0.0:0.0	.	168;168;168;168	C9J8U2;G5E977;Q6XQN6-3;Q6XQN6	.;.;.;PNCB_HUMAN	T	168	ENSP00000405670:M168T;ENSP00000401508:M168T;ENSP00000341136:M168T;ENSP00000390949:M168T;ENSP00000276844:M168T	ENSP00000276844:M168T	M	-	2	0	NAPRT1	144730647	1.000000	0.71417	0.991000	0.47740	0.942000	0.58702	5.649000	0.67936	2.022000	0.59522	0.533000	0.62120	ATG		0.697	EEF1D-006	NOVEL	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000382592.2	NM_032378		G	144659504	A	G	144659504	1	3	575	0	1	0	0	0	0	0	0	0	10172	217	8	3		3	NAPRT1	8	144659504	IGR	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	12737535	144659504	1704518	70	34060										
DENND4C	55667	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	19369966	19369966	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tactttcacagcaaatgaagCcaggcatgaaaagacaaagg	9	8	1	3			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr9:19369966C>T	ENST00000380432.2	+	26	4834	c.4801C>T	c.(4801-4803)Cca>Tca	p.P1601S	RP11-513M16.7_ENST00000609609.1_RNA|DENND4C_ENST00000434457.2_Missense_Mutation_p.P1886S|DENND4C_ENST00000602925.1_Missense_Mutation_p.P1837S			Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	1601					cellular response to insulin stimulus (GO:0032869)|positive regulation of Rab GTPase activity (GO:0032851)|protein localization to plasma membrane (GO:0072659)|protein transport (GO:0015031)	cytosol (GO:0005829)|insulin-responsive compartment (GO:0032593)|plasma membrane (GO:0005886)|retromer complex (GO:0030904)	Rab guanyl-nucleotide exchange factor activity (GO:0017112)			breast(1)|endometrium(8)|kidney(1)|large_intestine(7)|liver(2)|lung(13)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	40						GCAAATGAAGCCAGGCATGAA	0.338																																																0													86	79	81					9																	19369966		2203	4300	6503	SO:0001583	missense	55667			AK000693	CCDS6491.2, CCDS6491.3	9p22.1	2012-10-03	2006-01-27	2006-01-27	ENSG00000137145	ENSG00000137145		"DENN/MADD domain containing"	26079	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 55B", "chromosome 9 open reading frame 55"	C9orf55B, C9orf55		12906859	Standard	NM_017925		Approved	FLJ20686, bA513M16.3	uc031tcw.1	Q5VZ89	OTTHUMG00000019627	ENST00000380432.2:c.4801C>T	9.37:g.19369966C>T	ENSP00000369797:p.Pro1601Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3R1|A2A3R2|A2A3R3|A2A3R9|Q6AI48|Q6ZUB3|Q8NCY7|Q9H6N4|Q9NUT1|Q9NWA5|Q9NWT3	Missense_Mutation	SNP	ENST00000380432.2	37		.	.	.	.	.	.	.	.	.	.	C	13.01	2.108364	0.37242	.	.	ENSG00000137145	ENST00000380437;ENST00000307015;ENST00000453857;ENST00000540671;ENST00000380432;ENST00000380427;ENST00000361024	T;T	0.24908	1.83;1.83	5.07	3.23	0.37069	.	0.284189	0.32430	N	0.006116	T	0.25717	0.0626	L	0.52905	1.665	0.37625	D	0.921457	B;B;B	0.27853	0.009;0.191;0.0	B;B;B	0.34452	0.008;0.183;0.001	T	0.10019	-1.0648	9	.	.	.	-0.5743	10.1821	0.42975	0.0:0.7786:0.1463:0.0752	.	931;783;1601	B7Z660;Q5VZ89-3;Q5VZ89	.;.;DEN4C_HUMAN	S	1601;1074;783;931;1074;783;598	ENSP00000305795:P1074S;ENSP00000443804:P931S	.	P	+	1	0	DENND4C	19359966	1.000000	0.71417	0.836000	0.33094	0.707000	0.40811	2.238000	0.43070	0.735000	0.32537	0.650000	0.86243	CCA		0.338	DENND4C-201	KNOWN	basic	protein_coding	protein_coding		NM_017925		T	19369966	C	T	19369966	3	4	575	1	0	0	0	0	1	0	0	0	4437	739	26	2	4903	2	DENND4C	9	19369966	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08		19369966	121843465	71	34061										
TEK	7010	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	27197591	27197591	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	atctcactgcttggacccttAgtgacagtaagtaattcatg	8	9	2	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr9:27197591A>G	ENST00000380036.4	+	12	2345	c.1903A>G	c.(1903-1905)Agt>Ggt	p.S635G	RNA5SP280_ENST00000411230.1_RNA|TEK_ENST00000406359.4_Missense_Mutation_p.S592G|TEK_ENST00000519097.1_Missense_Mutation_p.S488G	NM_000459.3	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial	635	Fibronectin type-III 2. {ECO:0000255|PROSITE-ProRule:PRU00316}.				angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|cell-cell signaling (GO:0007267)|cell-matrix adhesion (GO:0007160)|definitive hemopoiesis (GO:0060216)|endochondral ossification (GO:0001958)|endothelial cell proliferation (GO:0001935)|glomerulus vasculature development (GO:0072012)|heart development (GO:0007507)|heart trabecula formation (GO:0060347)|intracellular signal transduction (GO:0035556)|leukocyte migration (GO:0050900)|negative regulation of angiogenesis (GO:0016525)|negative regulation of apoptotic process (GO:0043066)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of inflammatory response (GO:0050728)|organ regeneration (GO:0031100)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of actin cytoskeleton reorganization (GO:2000251)|positive regulation of angiogenesis (GO:0045766)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of focal adhesion assembly (GO:0051894)|positive regulation of intracellular signal transduction (GO:1902533)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of protein phosphorylation (GO:0001934)|protein autophosphorylation (GO:0046777)|protein oligomerization (GO:0051259)|regulation of endothelial cell apoptotic process (GO:2000351)|regulation of establishment or maintenance of cell polarity (GO:0032878)|regulation of vascular permeability (GO:0043114)|response to cAMP (GO:0051591)|response to estrogen (GO:0043627)|response to hypoxia (GO:0001666)|response to peptide hormone (GO:0043434)|signal transduction (GO:0007165)|single organismal cell-cell adhesion (GO:0016337)|sprouting angiogenesis (GO:0002040)|substrate adhesion-dependent cell spreading (GO:0034446)|Tie signaling pathway (GO:0048014)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	apical plasma membrane (GO:0016324)|basal plasma membrane (GO:0009925)|basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|membrane raft (GO:0045121)|microvillus (GO:0005902)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein tyrosine kinase activity (GO:0004713)|receptor activity (GO:0004872)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			breast(3)|central_nervous_system(3)|kidney(1)|lung(2)|ovary(3)|skin(3)	15		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)	Ponatinib(DB08901)|Regorafenib(DB08896)|Vandetanib(DB05294)	TTGGACCCTTAGTGACAGTAA	0.493																																																0													39	40	40					9																	27197591		2203	4300	6503	SO:0001583	missense	7010			L06139	CCDS6519.1, CCDS75825.1	9p21	2013-02-11	2008-07-31		ENSG00000120156	ENSG00000120156		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	11724	protein-coding gene	gene with protein product		600221	"venous malformations, multiple cutaneous and mucosal"	VMCM		1312667, 7833915	Standard	XM_005251561		Approved	TIE2, TIE-2, VMCM1, CD202b	uc003zqi.4	Q02763	OTTHUMG00000019712	ENST00000380036.4:c.1903A>G	9.37:g.27197591A>G	ENSP00000369375:p.Ser635Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6W0|B4DH20|B4DHD3|D3DRK5|E7EWI2|Q5TCU2|Q8IV34	Missense_Mutation	SNP	ENST00000380036.4	37	CCDS6519.1	.	.	.	.	.	.	.	.	.	.	A	9.271	1.045584	0.19748	.	.	ENSG00000120156	ENST00000519097;ENST00000380036;ENST00000406359;ENST00000519080	T;T;T;T	0.53206	0.63;0.63;0.63;0.63	5.54	5.54	0.83059	Fibronectin, type III (1);	0.000000	0.64402	D	0.000010	T	0.62816	0.2459	L	0.56769	1.78	0.51233	D	0.999913	B;P;D;B	0.63880	0.281;0.462;0.993;0.361	B;B;D;B	0.68192	0.056;0.141;0.956;0.081	T	0.58457	-0.7633	10	0.23302	T	0.38	.	15.6853	0.77405	1.0:0.0:0.0:0.0	.	488;668;592;635	E7EWI2;Q59HG2;B4DHD3;Q02763	.;.;.;TIE2_HUMAN	G	488;635;592;445	ENSP00000430686:S488G;ENSP00000369375:S635G;ENSP00000383977:S592G;ENSP00000428337:S445G	ENSP00000369375:S635G	S	+	1	0	TEK	27187591	0.999000	0.42202	0.744000	0.31058	0.104000	0.19210	4.662000	0.61525	2.117000	0.64856	0.533000	0.62120	AGT		0.493	TEK-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051965.3			G	27197591	A	G	27197591	3	3	575	1	0	0	0	0	1	0	0	0	15763	420	15	3	1949	3	TEK	9	27197591	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	7827625	27197591	114015840	72	34062										
ZCCHC6	79670	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	88943326	88943326	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tgtgtcccctgcagcactgtCagtatgttcccagatcacaa	8	13	2	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr9:88943326C>G	ENST00000375963.3	-	11	1709	c.1537G>C	c.(1537-1539)Gac>Cac	p.D513H	ZCCHC6_ENST00000277141.6_5'UTR|ZCCHC6_ENST00000375961.2_Missense_Mutation_p.D513H|ZCCHC6_ENST00000375960.2_Missense_Mutation_p.D390H	NM_001185059.1|NM_024617.3	NP_001171988.1|NP_078893.2	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	513					RNA 3'-end processing (GO:0031123)		poly(A) RNA binding (GO:0044822)|RNA uridylyltransferase activity (GO:0050265)|zinc ion binding (GO:0008270)			breast(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(10)|liver(1)|lung(14)|ovary(2)|prostate(1)|skin(2)|urinary_tract(1)	46						GCAGCACTGTCAGTATGTTCC	0.408																																																0													246	214	225					9																	88943326		2203	4300	6503	SO:0001583	missense	79670			AL832026	CCDS35057.1, CCDS55323.1	9q21	2014-03-05			ENSG00000083223	ENSG00000083223		"Zinc fingers, CCHC domain containing"	25817	protein-coding gene	gene with protein product	"TUTase7"					11214970	Standard	NM_001185059		Approved	KIAA1711, FLJ13409, PAPD6, TUT7	uc004aoq.3	Q5VYS8	OTTHUMG00000020137	ENST00000375963.3:c.1537G>C	9.37:g.88943326C>G	ENSP00000365130:p.Asp513His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5H9T0|Q5VYS5|Q5VYS7|Q658Z9|Q659A2|Q6MZJ3|Q8N5F0|Q96N57|Q96NE8|Q9C0F2|Q9H8M6	Missense_Mutation	SNP	ENST00000375963.3	37	CCDS35057.1	.	.	.	.	.	.	.	.	.	.	C	14.86	2.662242	0.47572	.	.	ENSG00000083223	ENST00000375960;ENST00000375961;ENST00000375963	T;T;T	0.46819	0.86;1.06;1.06	4.35	4.35	0.52113	.	0.478121	0.23602	N	0.046437	T	0.55162	0.1903	L	0.36672	1.1	0.19945	N	0.999947	D;D	0.69078	0.997;0.991	P;P	0.61132	0.884;0.769	T	0.49551	-0.8928	10	0.66056	D	0.02	-18.5595	15.1952	0.73081	0.0:1.0:0.0:0.0	.	390;513	Q5VYS8-4;Q5VYS8	.;TUT7_HUMAN	H	390;513;513	ENSP00000365127:D390H;ENSP00000365128:D513H;ENSP00000365130:D513H	ENSP00000365127:D390H	D	-	1	0	ZCCHC6	88133146	0.448000	0.25681	0.092000	0.20876	0.015000	0.08874	1.298000	0.33412	2.699000	0.92147	0.462000	0.41574	GAC		0.408	ZCCHC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052918.1	NM_024617		G	88943326	C	G	88943326	3	3	575	1	0	0	0	0	1	0	0	0	17604	826	29	4	3018	4	ZCCHC6	9	88943326	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	61745735	88943326	52270105	73	34063										
ZFP37	7539	broad.mit.edu;bcgsc.ca	37	chr9	115806495	115806495	+	Frame_Shift_Del	DEL	G	G	-													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gactgcaacttccctgaggaGtttgttttgagatttctgga							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr9:115806495delG	ENST00000374227.3	-	4	430	c.403delC	c.(403-405)ctcfs	p.L136fs	ZFP37_ENST00000553380.1_Frame_Shift_Del_p.L151fs|ZFP37_ENST00000555206.1_Frame_Shift_Del_p.L137fs	NM_001282515.1|NM_001282518.1	NP_001269444.1|NP_001269447.1	Q9Y6Q3	ZFP37_HUMAN	ZFP37 zinc finger protein	136					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(6)|lung(14)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	38						TCCCTGAGGAGTTTGTTTTGA	0.353																																																0													85	91	89					9																	115806495		2171	4194	6365	SO:0001589	frameshift_variant	7539			AF022158	CCDS6787.1, CCDS65109.1, CCDS65110.1	9q32	2013-01-08	2012-11-27		ENSG00000136866	ENSG00000136866		"Zinc fingers, C2H2-type", "-"	12863	protein-coding gene	gene with protein product		602951	"zinc finger protein homologous to Zfp37 in mouse", "zinc finger protein 37 homolog (mouse)"				Standard	NM_001282515		Approved	ZNF906	uc004bgm.1	Q9Y6Q3	OTTHUMG00000021019	ENST00000374227.3:c.403delC	9.37:g.115806495delG	ENSP00000363344:p.Leu136fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVJ9|B4DVX4|G3V3L7|Q5T7Q4	Frame_Shift_Del	DEL	ENST00000374227.3	37	CCDS6787.1																																																																																				0.353	ZFP37-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000055439.1	NM_003408		-	115806495	G	-	115806495	7	5	575	1	0	1	0	1	0	0	0	0	17660	1029	36	0	1493	0	ZFP37	9	115806495	Frame_Shift_Del	DEL	G	TCGA-DZ-6132-01A-11D-1961-08	26863169	115806495	25406936	74	34064										
OR1N1	138883	bcgsc.ca	37	chr9	125288660	125288670	+	Frame_Shift_Del	DEL	GACTGAAGAGC	GACTGAAGAGC	-													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	agaggaaacaatactcctgtGactgaagagcctctttaggg					rs202175357		TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	GACTGAAGAGC	GACTGAAGAGC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr9:125288660_125288670delGACTGAAGAGC	ENST00000304880.2	-	1	902_912	c.903_913delGCTCTTCAGTC	c.(901-915)aggctcttcagtcacfs	p.LFSH302fs		NM_012363.1	NP_036495.1	Q8NGS0	OR1N1_HUMAN	olfactory receptor, family 1, subfamily N, member 1	302						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(2)|central_nervous_system(1)|large_intestine(2)|lung(6)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	15						ATACTCCTGTGACTGAAGAGCCTCTTTAGGG	0.46																																																0																																										SO:0001589	frameshift_variant	138883			U86216	CCDS6844.1	9q34.11	2012-08-09			ENSG00000171505	ENSG00000171505		"GPCR / Class A : Olfactory receptors"	8221	protein-coding gene	gene with protein product				OR1N3		9500546	Standard	NM_012363		Approved	OR1-26	uc004bmn.1	Q8NGS0	OTTHUMG00000020608	ENST00000304880.2:c.903_913delGCTCTTCAGTC	9.37:g.125288660_125288670delGACTGAAGAGC	ENSP00000306974:p.Leu302fs	Somatic		WXS	Illumina HiSeq	Phase_1	A3KFM1|O43870|Q6IF16|Q96R93	Frame_Shift_Del	DEL	ENST00000304880.2	37	CCDS6844.1																																																																																				0.46	OR1N1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053938.1			-	125288670	GACTGAAGAGC	-	125288660	7	5	575	1	0	1	0	1	0	0	0	0	10976	1290	45	0	26	0	OR1N1	9	125288660	Frame_Shift_Del	DEL	GACTGAAGAGC	TCGA-DZ-6132-01A-11D-1961-08	9482165	125288660	15924771	75	34065										
CRAT	1384	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	131864688	131864688	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gggccacccacctggtagttGtgtaccacggtgatgtgcgt	14	11	0	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr9:131864688G>T	ENST00000318080.2	-	5	915	c.621C>A	c.(619-621)caC>caA	p.H207Q	RP11-247A12.1_ENST00000434250.1_RNA|CRAT_ENST00000464290.1_5'UTR	NM_000755.3|NM_001257363.1	NP_000746|NP_001244292.1	P43155	CACP_HUMAN	carnitine O-acetyltransferase	207					carnitine metabolic process, CoA-linked (GO:0019254)|cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)|small molecule metabolic process (GO:0044281)|transport (GO:0006810)	endoplasmic reticulum (GO:0005783)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)|peroxisomal matrix (GO:0005782)|peroxisome (GO:0005777)	carnitine O-acetyltransferase activity (GO:0004092)|receptor binding (GO:0005102)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(4)|skin(1)|urinary_tract(2)	13				UCEC - Uterine corpus endometrioid carcinoma (4;0.0178)	L-Carnitine(DB00583)	CCTGGTAGTTGTGTACCACGG	0.642																																																0													147	128	135					9																	131864688		2203	4300	6503	SO:0001583	missense	1384			X78706	CCDS6919.1	9q34.1	2010-04-27	2010-04-27		ENSG00000095321	ENSG00000095321	2.3.1.7		2342	protein-coding gene	gene with protein product		600184	"carnitine acetyltransferase"			7829107	Standard	NM_000755		Approved	CAT1	uc004bxh.3	P43155	OTTHUMG00000147343	ENST00000318080.2:c.621C>A	9.37:g.131864688G>T	ENSP00000315013:p.His207Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T952|Q9BW16	Missense_Mutation	SNP	ENST00000318080.2	37	CCDS6919.1	.	.	.	.	.	.	.	.	.	.	G	21.9	4.223146	0.79464	.	.	ENSG00000095321	ENST00000351352;ENST00000318080	D	0.89343	-2.5	5.37	4.23	0.50019	.	0.000000	0.85682	D	0.000000	D	0.92528	0.7627	M	0.76170	2.325	0.80722	D	1	D	0.62365	0.991	D	0.68039	0.955	D	0.90458	0.4444	10	0.31617	T	0.26	-47.0361	10.6033	0.45379	0.12:0.0:0.88:0.0	.	207	P43155	CACP_HUMAN	Q	207	ENSP00000315013:H207Q	ENSP00000315013:H207Q	H	-	3	2	CRAT	130904509	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	4.076000	0.57591	0.913000	0.36797	0.561000	0.74099	CAC		0.642	CRAT-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253700.1			T	131864688	G	T	131864688	3	4	575	1	0	0	0	0	1	0	0	0	3849	1368	48	4	1299	4	CRAT	9	131864688	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	6576028	131864688	9348743	76	34066										
ARHGAP21	57584	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	24908604	24908604	+	Frame_Shift_Del	DEL	T	T	-													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gtctggcgtccagatggaggTttttcccttaggatgacagc							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr10:24908604delT	ENST00000396432.2	-	9	2706	c.2220delA	c.(2218-2220)aaafs	p.K740fs	ARHGAP21_ENST00000320481.6_Frame_Shift_Del_p.K527fs	NM_020824.3	NP_065875.3	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	739					establishment of Golgi localization (GO:0051683)|Golgi organization (GO:0007030)|maintenance of Golgi location (GO:0051684)|organelle transport along microtubule (GO:0072384)|signal transduction (GO:0007165)	cell junction (GO:0030054)|cytoplasmic vesicle (GO:0031410)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	GTPase activator activity (GO:0005096)			NS(1)|breast(4)|central_nervous_system(1)|cervix(1)|endometrium(11)|kidney(4)|large_intestine(17)|lung(21)|ovary(7)|pancreas(1)|prostate(5)|skin(2)|stomach(2)|urinary_tract(1)	78						CAGATGGAGGTTTTTCCCTTA	0.453																																																0													102	96	98					10																	24908604		2203	4300	6503	SO:0001589	frameshift_variant	57584			AF480466	CCDS7144.2	10p12.31	2013-01-10			ENSG00000107863	ENSG00000107863		"Rho GTPase activating proteins", "Pleckstrin homology (PH) domain containing"	23725	protein-coding gene	gene with protein product		609870				12056806	Standard	NM_020824		Approved	KIAA1424, ARHGAP10	uc001isb.2	Q5T5U3	OTTHUMG00000017825	ENST00000396432.2:c.2220delA	10.37:g.24908604delT	ENSP00000379709:p.Lys740fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VF98|Q7Z3P7|Q8N3A2|Q8NI19|Q8TBV5|Q9P2C3	Frame_Shift_Del	DEL	ENST00000396432.2	37	CCDS7144.2																																																																																				0.453	ARHGAP21-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047229.4	NM_020824		-	24908604	T	-	24908604	7	5	575	1	0	1	0	1	0	0	0	0	871	1722	60	0	3728	0	ARHGAP21	10	24908604	Frame_Shift_Del	DEL	T	TCGA-DZ-6132-01A-11D-1961-08		24908604	110626143	77	34067										
STOX1	219736	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	70645179	70645179	+	Frame_Shift_Del	DEL	T	T	-													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ccttggattcctcaagaatcTttgatggtaaagccaaagag							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr10:70645179delT	ENST00000298596.6	+	3	1710	c.1627delT	c.(1627-1629)tttfs	p.F543fs	STOX1_ENST00000399162.2_Intron|STOX1_ENST00000421961.2_Frame_Shift_Del_p.F433fs|STOX1_ENST00000399165.4_Intron|STOX1_ENST00000399169.4_Frame_Shift_Del_p.F543fs	NM_152709.4	NP_689922.3	Q6ZVD7	STOX1_HUMAN	storkhead box 1	543						cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(5)|endometrium(2)|kidney(2)|large_intestine(5)|liver(2)|lung(8)|prostate(1)|skin(3)	28						CTCAAGAATCTTTGATGGTAA	0.418																																																0													66	60	62					10																	70645179		1853	4096	5949	SO:0001589	frameshift_variant	219736			AK057891	CCDS41535.1, CCDS44416.1, CCDS44417.1	10q22.1	2005-11-29	2005-04-04	2005-04-04	ENSG00000165730	ENSG00000165730			23508	protein-coding gene	gene with protein product		609397	"chromosome 10 open reading frame 24"	C10orf24			Standard	NM_152709		Approved	FLJ25162	uc001joq.3	Q6ZVD7	OTTHUMG00000018367	ENST00000298596.6:c.1627delT	10.37:g.70645179delT	ENSP00000298596:p.Phe543fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3Q9|A5D6Y7|B0QZA4|B0QZA5|B0QZA6|Q4F8Q6|Q5I946|Q5I947|Q5I948|Q5VX38|Q5VX39|Q6ZRY3|Q96LR3|Q96LS0	Frame_Shift_Del	DEL	ENST00000298596.6	37	CCDS41535.1																																																																																				0.418	STOX1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276849.3	NM_152709		-	70645179	T	-	70645179	7	5	575	1	0	1	0	1	0	0	0	0	15331	1609	56	0	1637	0	STOX1	10	70645179	Frame_Shift_Del	DEL	T	TCGA-DZ-6132-01A-11D-1961-08	45736575	70645179	64889568	78	34068										
LRIT1	26103	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	85997318	85997318	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ccacagctgctccaggcggcCcaggggcctgaaggcctcgc	14	17	0	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr10:85997318C>T	ENST00000372105.3	-	2	268	c.247G>A	c.(247-249)Ggc>Agc	p.G83S		NM_015613.2	NP_056428.1	Q9P2V4	LRIT1_HUMAN	leucine-rich repeat, immunoglobulin-like and transmembrane domains 1	83						integral component of endoplasmic reticulum membrane (GO:0030176)				breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(13)|skin(1)	23						TCCAGGCGGCCCAGGGGCCTG	0.726																																																0													16	20	18					10																	85997318		2140	4199	6339	SO:0001583	missense	26103			AB031547	CCDS7373.1	10q23	2013-02-11	2007-06-19	2007-06-19	ENSG00000148602	ENSG00000148602		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	23404	protein-coding gene	gene with protein product	"fibronectin type III, immunoglobulin and leucine rich repeat domains 9"		"leucine rich repeat containing 21"	LRRC21		10777785	Standard	NM_015613		Approved	PAL, DKFZP434K091, FIGLER9	uc001kcz.1	Q9P2V4	OTTHUMG00000018632	ENST00000372105.3:c.247G>A	10.37:g.85997318C>T	ENSP00000361177:p.Gly83Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q0QD41|Q9Y4N7	Missense_Mutation	SNP	ENST00000372105.3	37	CCDS7373.1	.	.	.	.	.	.	.	.	.	.	C	9.281	1.048267	0.19827	.	.	ENSG00000148602	ENST00000372105	T	0.47869	0.83	5.42	-0.434	0.12283	.	1.087950	0.06798	N	0.788142	T	0.20659	0.0497	N	0.05554	-0.025	0.23685	N	0.997112	B	0.06786	0.001	B	0.06405	0.002	T	0.21415	-1.0246	10	0.08837	T	0.75	.	2.4799	0.04585	0.145:0.2466:0.4241:0.1842	.	83	Q9P2V4	LRIT1_HUMAN	S	83	ENSP00000361177:G83S	ENSP00000361177:G83S	G	-	1	0	LRIT1	85987298	0.002000	0.14202	0.742000	0.31022	0.964000	0.63967	-0.057000	0.11768	0.247000	0.21414	-0.126000	0.14955	GGC		0.726	LRIT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049109.1	NM_015613		T	85997318	C	T	85997318	3	4	575	1	0	0	0	0	1	0	0	0	8954	623	22	2	1636	2	LRIT1	10	85997318	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	15352139	85997318	49537429	79	34069										
ZNF143	7702	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	9519250	9519250	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ttaaaaagtcacgtcagaacTcatacaggagaaaagccata	7	8	3	2	rs373920789		TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr11:9519250T>G	ENST00000396602.2	+	10	989	c.870T>G	c.(868-870)acT>acG	p.T290T	ZNF143_ENST00000299606.2_Silent_p.T262T|ZNF143_ENST00000396597.3_Silent_p.T259T|ZNF143_ENST00000396604.1_Silent_p.T289T|ZNF143_ENST00000530463.1_Silent_p.T289T	NM_001282656.1|NM_001282657.1|NM_003442.5	NP_001269585.1|NP_001269586.1|NP_003433.3	P52747	ZN143_HUMAN	zinc finger protein 143	290					gene expression (GO:0010467)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription from RNA polymerase III promoter (GO:0006359)|transcription from RNA polymerase II promoter (GO:0006366)|transcription from RNA polymerase III promoter (GO:0006383)	nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|large_intestine(5)|lung(4)|skin(2)|upper_aerodigestive_tract(1)	13				all cancers(16;4.12e-09)|Epithelial(150;2.29e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0212)		ACGTCAGAACTCATACAGGAG	0.328																																																0								T		3,4399	6.2+/-15.9	0,3,2198	65	66	66		870	2.7	1	11		66	0,8588		0,0,4294	no	coding-synonymous	ZNF143	NM_003442.5		0,3,6492	GG,GT,TT		0.0,0.0682,0.0231		290/639	9519250	3,12987	2201	4294	6495	SO:0001819	synonymous_variant	7702			U09850	CCDS7799.2, CCDS60720.1, CCDS60721.1	11p15.4	2013-01-08	2006-06-13		ENSG00000166478	ENSG00000166478		"Zinc fingers, C2H2-type"	12928	protein-coding gene	gene with protein product		603433	"zinc finger protein 143 (clone pHZ-1)"				Standard	NM_003442		Approved	SBF, pHZ-1, STAF	uc001mhr.3	P52747	OTTHUMG00000149922	ENST00000396602.2:c.870T>G	11.37:g.9519250T>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K518|B4DLY5|E7ER34|O75559|Q8WUK9	Silent	SNP	ENST00000396602.2	37	CCDS7799.2																																																																																				0.328	ZNF143-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000313921.2	NM_003442		G	9519250	T	G	9519250	2	3	575	1	0	0	0	0	0	0	0	1	17744	1538	54	5		5	ZNF143	11	9519250	Silent	SNP	T	TCGA-DZ-6132-01A-11D-1961-08		9519250	125487266	80	34070										
RAPSN	5913	ucsc.edu;bcgsc.ca	37	chr11	47469615	47469615	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gtgaaactcgcacagcttctCgttgctgcgtgccaggttca	11	12	2	1	rs200550567		TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr11:47469615C>A	ENST00000298854.2	-	2	493	c.280G>T	c.(280-282)Gag>Tag	p.E94*	RAPSN_ENST00000529341.1_Nonsense_Mutation_p.E94*|RAPSN_ENST00000524487.1_Nonsense_Mutation_p.E94*|RAPSN_ENST00000352508.3_Nonsense_Mutation_p.E94*	NM_005055.4	NP_005046.2	Q13702	RAPSN_HUMAN	receptor-associated protein of the synapse	94					positive regulation of neuron apoptotic process (GO:0043525)|synaptic transmission (GO:0007268)|synaptic transmission, cholinergic (GO:0007271)	cell junction (GO:0030054)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|neuromuscular junction (GO:0031594)|postsynaptic membrane (GO:0045211)	acetylcholine receptor binding (GO:0033130)|zinc ion binding (GO:0008270)			endometrium(1)|large_intestine(3)|lung(6)|ovary(2)	12						CACAGCTTCTCGTTGCTGCGT	0.622																																																0													96	74	82					11																	47469615		2201	4298	6499	SO:0001587	stop_gained	5913				CCDS7936.1, CCDS7937.1	11p11.2	2009-04-28	2007-02-23		ENSG00000165917	ENSG00000165917		"RING-type (C3HC4) zinc fingers"	9863	protein-coding gene	gene with protein product	"rapsyn"	601592	"receptor-associated protein of the synapse, 43kD"			8812503	Standard	NM_005055		Approved	RNF205, CMS1D, CMS1E	uc001nfi.2	Q13702	OTTHUMG00000166891	ENST00000298854.2:c.280G>T	11.37:g.47469615C>A	ENSP00000298854:p.Glu94*	Somatic		WXS	Illumina HiSeq		Q8TDF3|Q9BTD9	Nonsense_Mutation	SNP	ENST00000298854.2	37	CCDS7936.1	.	.	.	.	.	.	.	.	.	.	C	38	6.680264	0.97755	.	.	ENSG00000165917	ENST00000298854;ENST00000352508;ENST00000524487;ENST00000529341	.	.	.	5.14	5.14	0.70334	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.08599	T	0.76	-42.0177	18.9738	0.92725	0.0:1.0:0.0:0.0	.	.	.	.	X	94	.	ENSP00000298854:E94X	E	-	1	0	RAPSN	47426191	1.000000	0.71417	0.999000	0.59377	0.990000	0.78478	7.302000	0.78861	2.565000	0.86533	0.557000	0.71058	GAG		0.622	RAPSN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391726.1			A	47469615	C	A	47469615	4	1	575	1	0	0	0	0	0	1	0	0	13064	893	31	4	986	4	RAPSN	11	47469615	Nonsense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	37950365	47469615	87536901	81	34071										
GIF	2694	hgsc.bcm.edu;bcgsc.ca	37	chr11	59610049	59610049	+	Missense_Mutation	SNP	G	G	C													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tagaaggctgatgcttcagcGttggggcctccgaaggggat							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr11:59610049G>C	ENST00000257248.2	-	4	425	c.378C>G	c.(376-378)aaC>aaG	p.N126K	GIF_ENST00000541311.1_Missense_Mutation_p.N101K	NM_005142.2	NP_005133.2	P27352	IF_HUMAN	gastric intrinsic factor (vitamin B synthesis)	126					cobalamin metabolic process (GO:0009235)|cobalamin transport (GO:0015889)|cobalt ion transport (GO:0006824)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	apical plasma membrane (GO:0016324)|endosome (GO:0005768)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|lysosomal lumen (GO:0043202)|microvillus (GO:0005902)	cobalamin binding (GO:0031419)			large_intestine(4)|liver(1)|lung(6)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	17					Cyanocobalamin(DB00115)	ATGCTTCAGCGTTGGGGCCTC	0.522																																					NSCLC(53;1139 1245 16872 38474 42853)											0													68	61	63					11																	59610049		2201	4295	6496	SO:0001583	missense	2694			X76562	CCDS7977.1	11q12.1	2013-09-20			ENSG00000134812	ENSG00000134812			4268	protein-coding gene	gene with protein product		609342				2071148	Standard	NM_005142		Approved	TCN3, IF, IFMH, INF	uc001noi.3	P27352	OTTHUMG00000167399	ENST00000257248.2:c.378C>G	11.37:g.59610049G>C	ENSP00000257248:p.Asn126Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAN8|B4DVZ1	Missense_Mutation	SNP	ENST00000257248.2	37	CCDS7977.1	.	.	.	.	.	.	.	.	.	.	G	10.68	1.417564	0.25552	.	.	ENSG00000134812	ENST00000257248;ENST00000541311	T;T	0.35973	1.28;1.28	5.63	-11.3	0.00108	.	1.313500	0.04767	N	0.427342	T	0.21590	0.0520	L	0.29908	0.895	0.09310	N	1	B	0.06786	0.001	B	0.06405	0.002	T	0.22208	-1.0223	10	0.48119	T	0.1	1.5143	8.9085	0.35539	0.1072:0.0807:0.5605:0.2515	.	126	P27352	IF_HUMAN	K	126;101	ENSP00000257248:N126K;ENSP00000440427:N101K	ENSP00000257248:N126K	N	-	3	2	GIF	59366625	0.000000	0.05858	0.000000	0.03702	0.027000	0.11550	-3.689000	0.00392	-2.813000	0.00347	-2.048000	0.00412	AAC		0.522	GIF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394497.1	NM_005142		C	59610049	G	C	59610049	3	2	575	1	0	0	0	0	1	0	0	0	6383	1136	40	4	899	4	GIF	11	59610049	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	12140434	59610049	75396467	82	34072	260	2								
GIF	2694	broad.mit.edu;bcgsc.ca	37	chr11	59610051	59610052	+	Frame_Shift_Ins	INS	-	-	G													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aaggctgatgcttcagcgttINSggggcctccgaaggggatag							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr11:59610051_59610052insG	ENST00000257248.2	-	4	422_423	c.375_376insC	c.(373-378)cccaacfs	p.N126fs	GIF_ENST00000541311.1_Frame_Shift_Ins_p.N101fs	NM_005142.2	NP_005133.2	P27352	IF_HUMAN	gastric intrinsic factor (vitamin B synthesis)	126					cobalamin metabolic process (GO:0009235)|cobalamin transport (GO:0015889)|cobalt ion transport (GO:0006824)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	apical plasma membrane (GO:0016324)|endosome (GO:0005768)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|lysosomal lumen (GO:0043202)|microvillus (GO:0005902)	cobalamin binding (GO:0031419)			large_intestine(4)|liver(1)|lung(6)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	17					Cyanocobalamin(DB00115)	GCTTCAGCGTTGGGGCCTCCGA	0.525																																					NSCLC(53;1139 1245 16872 38474 42853)											0																																										SO:0001589	frameshift_variant	2694			X76562	CCDS7977.1	11q12.1	2013-09-20			ENSG00000134812	ENSG00000134812			4268	protein-coding gene	gene with protein product		609342				2071148	Standard	NM_005142		Approved	TCN3, IF, IFMH, INF	uc001noi.3	P27352	OTTHUMG00000167399	ENST00000257248.2:c.376dupC	11.37:g.59610055_59610055dupG	ENSP00000257248:p.Asn126fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAN8|B4DVZ1	Frame_Shift_Ins	INS	ENST00000257248.2	37	CCDS7977.1																																																																																				0.525	GIF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394497.1	NM_005142		G	59610052	-	G	59610051	7	5	575	1	0	1	1	0	0	0	0	0	6383	1812	63	0	901	0	GIF	11	59610051	Frame_Shift_Ins	INS	-	TCGA-DZ-6132-01A-11D-1961-08	2	59610051	75396465	83	34073	260	2								
FADS1	3992	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	61578255	61578255	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gatcttccccaaggcaaagaAgaagggatgcatgttgatgt	12	7	1	3			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr11:61578255A>C	ENST00000350997.7	-	5	1115	c.883T>G	c.(883-885)Ttc>Gtc	p.F295V	FADS1_ENST00000542506.1_Missense_Mutation_p.F154V|FADS1_ENST00000433932.1_Missense_Mutation_p.F154V|FADS2_ENST00000574708.1_Intron	NM_013402.4	NP_037534.3	O60427	FADS1_HUMAN	fatty acid desaturase 1	238					alpha-linolenic acid metabolic process (GO:0036109)|cell-cell signaling (GO:0007267)|cellular lipid metabolic process (GO:0044255)|cellular response to starvation (GO:0009267)|icosanoid biosynthetic process (GO:0046456)|linoleic acid metabolic process (GO:0043651)|phospholipid biosynthetic process (GO:0008654)|regulation of cell differentiation (GO:0045595)|regulation of transcription, DNA-templated (GO:0006355)|small molecule metabolic process (GO:0044281)|unsaturated fatty acid biosynthetic process (GO:0006636)|unsaturated fatty acid metabolic process (GO:0033559)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|mitochondrion (GO:0005739)	C-5 sterol desaturase activity (GO:0000248)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|oxidoreductase activity (GO:0016491)			central_nervous_system(1)|endometrium(1)|lung(1)|urinary_tract(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	AAGGCAAAGAAGAAGGGATGC	0.567																																																0													137	150	145					11																	61578255		2112	4243	6355	SO:0001583	missense	3992				CCDS8011.2	11q12-q13.1	2013-01-25			ENSG00000149485	ENSG00000149485	1.14.19.3	"Fatty acid desaturases"	3574	protein-coding gene	gene with protein product	"delta-5 desaturase"	606148		LLCDL1			Standard	NM_013402		Approved	D5D, FADSD5, TU12, FADS6	uc010rlm.2	O60427	OTTHUMG00000157155	ENST00000350997.7:c.883T>G	11.37:g.61578255A>C	ENSP00000322229:p.Phe295Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0I7|B2RAI0|Q53GM5|Q8N3A6|Q8NCC7|Q8NCG0|Q96I39|Q96SV3|Q96T10|Q9NRP8|Q9NYX1	Missense_Mutation	SNP	ENST00000350997.7	37	CCDS8011.2	.	.	.	.	.	.	.	.	.	.	A	10.51	1.369315	0.24771	.	.	ENSG00000149485	ENST00000543488;ENST00000350997;ENST00000412725;ENST00000433932;ENST00000542506;ENST00000539999;ENST00000540767;ENST00000545245	T;T;T;T;T;T	0.69306	-0.39;-0.39;-0.39;-0.39;-0.39;-0.39	5.06	2.75	0.32379	Fatty acid desaturase, type 1 (1);	0.000000	0.50627	U	0.000109	T	0.35248	0.0925	N	0.02973	-0.45	0.42328	D	0.992286	B	0.27192	0.171	B	0.27500	0.08	T	0.06770	-1.0808	10	0.25106	T	0.35	-29.7375	4.9109	0.13821	0.7052:0.0:0.1563:0.1385	.	238	O60427	FADS1_HUMAN	V	171;295;154;154;154;24;154;154	ENSP00000322229:F295V;ENSP00000405087:F154V;ENSP00000441403:F154V;ENSP00000443587:F24V;ENSP00000441871:F154V;ENSP00000442170:F154V	ENSP00000322229:F295V	F	-	1	0	FADS1	61334831	0.998000	0.40836	1.000000	0.80357	0.986000	0.74619	3.525000	0.53502	0.893000	0.36288	-0.250000	0.11733	TTC		0.567	FADS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347648.2	NM_013402		C	61578255	A	C	61578255	3	2	575	1	0	0	0	0	1	0	0	0	5369	72	3	5	654	5	FADS1	11	61578255	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	1968204	61578255	73428261	84	34074										
SIDT2	51092	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	117052793	117052793	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	caggactggggagcagttcaGcttcaataccacagcagcac	11	12	2	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr11:117052793G>A	ENST00000324225.4	+	4	1019	c.488G>A	c.(487-489)aGc>aAc	p.S163N	SIDT2_ENST00000530948.1_Intron|SIDT2_ENST00000431081.2_Missense_Mutation_p.S163N	NM_001040455.1	NP_001035545.1	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2	163					cell morphogenesis (GO:0000902)|dsRNA transport (GO:0033227)|glucose homeostasis (GO:0042593)|regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0061178)|response to glucose (GO:0009749)|type B pancreatic cell development (GO:0003323)|type B pancreatic cell proliferation (GO:0044342)	integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)	RNA transmembrane transporter activity (GO:0051033)			NS(1)|breast(2)|endometrium(4)|kidney(1)|large_intestine(9)|lung(11)|ovary(1)|prostate(4)|skin(1)|upper_aerodigestive_tract(2)	36	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		GAGCAGTTCAGCTTCAATACC	0.602																																																0													43	45	44					11																	117052793		2201	4296	6497	SO:0001583	missense	51092			AF151799	CCDS31682.1	11q23.3	2008-02-05			ENSG00000149577	ENSG00000149577			24272	protein-coding gene	gene with protein product						10810093, 12975309	Standard	NM_001040455		Approved	CGI-40	uc001pqh.1	Q8NBJ9	OTTHUMG00000167065	ENST00000324225.4:c.488G>A	11.37:g.117052793G>A	ENSP00000314023:p.Ser163Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NBY7|Q9Y357	Missense_Mutation	SNP	ENST00000324225.4	37	CCDS31682.1	.	.	.	.	.	.	.	.	.	.	G	9.954	1.220862	0.22457	.	.	ENSG00000149577	ENST00000324225;ENST00000278951;ENST00000431081;ENST00000524842;ENST00000531353	T;T;T	0.16743	2.32;2.32;2.33	5.14	4.21	0.49690	.	0.142496	0.64402	D	0.000009	T	0.09468	0.0233	N	0.17082	0.46	0.35238	D	0.77751	B;B;B;B	0.06786	0.0;0.0;0.001;0.0	B;B;B;B	0.06405	0.001;0.001;0.002;0.001	T	0.12656	-1.0539	10	0.02654	T	1	-29.1739	13.9161	0.63899	0.0:0.2987:0.7013:0.0	.	163;163;163;163	Q8NBJ9-2;F5H8L4;Q8NBJ9;C9JBG5	.;.;SIDT2_HUMAN;.	N	163;163;163;13;62	ENSP00000314023:S163N;ENSP00000278951:S163N;ENSP00000399635:S163N	ENSP00000278951:S163N	S	+	2	0	SIDT2	116558003	1.000000	0.71417	1.000000	0.80357	0.937000	0.57800	4.319000	0.59197	1.358000	0.45922	0.561000	0.74099	AGC		0.602	SIDT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392836.1	NM_015996		A	117052793	G	A	117052793	3	1	575	1	0	0	0	0	1	0	0	0	14316	971	34	2	502	2	SIDT2	11	117052793	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	55474538	117052793	17953723	85	34075										
ARHGEF12	23365	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	120302543	120302543	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	taacagtcagtgaggcagaaAcagatcctggagatgtactg	12	7	1	4			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr11:120302543A>T	ENST00000397843.2	+	11	1013	c.847A>T	c.(847-849)Aca>Tca	p.T283S	ARHGEF12_ENST00000532993.1_Missense_Mutation_p.T180S|ARHGEF12_ENST00000356641.3_Missense_Mutation_p.T264S	NM_015313.2	NP_056128.1	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	283					apoptotic signaling pathway (GO:0097190)|axon guidance (GO:0007411)|G-protein coupled receptor signaling pathway (GO:0007186)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|termination of G-protein coupled receptor signaling pathway (GO:0038032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	G-protein coupled receptor binding (GO:0001664)|GTPase activator activity (GO:0005096)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(1)|breast(5)|endometrium(6)|kidney(5)|large_intestine(13)|lung(23)|ovary(4)|pancreas(1)|prostate(1)|skin(2)	61		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)		TGAGGCAGAAACAGATCCTGG	0.473			T	MLL	AML																																		Dom	yes		11	11q23.3	23365	RHO guanine nucleotide exchange factor (GEF) 12 (LARG)		L	0													118	116	117					11																	120302543		1938	4128	6066	SO:0001583	missense	23365			AF180681	CCDS41727.1, CCDS55794.1	11q23.3	2011-11-16			ENSG00000196914	ENSG00000196914		"Rho guanine nucleotide exchange factors"	14193	protein-coding gene	gene with protein product		604763				10681437, 9205841	Standard	NM_001198665		Approved	KIAA0382, LARG	uc001pxl.2	Q9NZN5	OTTHUMG00000166143	ENST00000397843.2:c.847A>T	11.37:g.120302543A>T	ENSP00000380942:p.Thr283Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O15086|Q6P526	Missense_Mutation	SNP	ENST00000397843.2	37	CCDS41727.1	.	.	.	.	.	.	.	.	.	.	A	12.74	2.029964	0.35797	.	.	ENSG00000196914	ENST00000397843;ENST00000356641;ENST00000532993	T;T;T	0.63913	0.03;-0.07;0.03	5.54	0.332	0.15938	.	1.053350	0.07512	N	0.908973	T	0.49457	0.1558	L	0.36672	1.1	0.20926	N	0.999825	B;B;B	0.06786	0.0;0.001;0.001	B;B;B	0.08055	0.001;0.003;0.001	T	0.31081	-0.9956	10	0.19147	T	0.46	0.5688	9.8555	0.41084	0.3444:0.0:0.6556:0.0	.	180;264;283	B4DGW2;Q9NZN5-2;Q9NZN5	.;.;ARHGC_HUMAN	S	283;264;180	ENSP00000380942:T283S;ENSP00000349056:T264S;ENSP00000432984:T180S	ENSP00000349056:T264S	T	+	1	0	ARHGEF12	119807753	0.955000	0.32602	0.204000	0.23530	0.953000	0.61014	0.177000	0.16801	0.083000	0.17047	-0.462000	0.05337	ACA		0.473	ARHGEF12-001	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388052.1	NM_015313		T	120302543	A	T	120302543	3	4	575	1	0	0	0	0	1	0	0	0	897	43	2	5	889	5	ARHGEF12	11	120302543	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	3249750	120302543	14703973	86	34076										
FKBP4	2288	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	2910312	2910312	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ctggacagcaacaacgagaaGggcctcttccgccggggaga	14	12	1	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr12:2910312G>T	ENST00000001008.4	+	9	1249	c.1062G>T	c.(1060-1062)aaG>aaT	p.K354N	RP4-816N1.7_ENST00000547042.1_RNA|RP4-816N1.6_ENST00000547834.1_RNA	NM_002014.3	NP_002005.1	Q02790	FKBP4_HUMAN	FK506 binding protein 4, 59kDa	354	Interaction with tubulin. {ECO:0000250}.				androgen receptor signaling pathway (GO:0030521)|chaperone-mediated protein folding (GO:0061077)|copper ion transport (GO:0006825)|embryo implantation (GO:0007566)|male sex differentiation (GO:0046661)|negative regulation of microtubule polymerization (GO:0031115)|negative regulation of microtubule polymerization or depolymerization (GO:0031111)|negative regulation of neuron projection development (GO:0010977)|prostate gland development (GO:0030850)|protein complex localization (GO:0031503)|protein folding (GO:0006457)|protein peptidyl-prolyl isomerization (GO:0000413)|steroid hormone receptor complex assembly (GO:0006463)	axonal growth cone (GO:0044295)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|mitochondrion (GO:0005739)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	ATP binding (GO:0005524)|FK506 binding (GO:0005528)|GTP binding (GO:0005525)|heat shock protein binding (GO:0031072)|peptidyl-prolyl cis-trans isomerase activity (GO:0003755)|poly(A) RNA binding (GO:0044822)|protein binding, bridging (GO:0030674)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(2)|large_intestine(2)|lung(3)|prostate(2)|skin(1)	14			OV - Ovarian serous cystadenocarcinoma(31;0.00105)			ACAACGAGAAGGGCCTCTTCC	0.562																																																0													63	67	65					12																	2910312		2203	4300	6503	SO:0001583	missense	2288			M88279	CCDS8512.1	12p13.33	2013-01-10	2002-08-29		ENSG00000004478	ENSG00000004478		"Tetratricopeptide (TTC) repeat domain containing"	3720	protein-coding gene	gene with protein product		600611	"FK506-binding protein 4 (59kD)"			1279700	Standard	NM_002014		Approved	FKBP59, FKBP52	uc001qkz.3	Q02790	OTTHUMG00000090429	ENST00000001008.4:c.1062G>T	12.37:g.2910312G>T	ENSP00000001008:p.Lys354Asn	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUQ1|Q9UCP1|Q9UCV7	Missense_Mutation	SNP	ENST00000001008.4	37	CCDS8512.1	.	.	.	.	.	.	.	.	.	.	G	14.15	2.450364	0.43531	.	.	ENSG00000004478	ENST00000001008	T	0.76709	-1.04	5.57	-2.51	0.06365	Tetratricopeptide-like helical (1);Tetratricopeptide repeat-containing (1);	0.000000	0.85682	D	0.000000	D	0.88366	0.6417	M	0.93106	3.38	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.88372	0.2995	10	0.87932	D	0	-31.4957	12.5158	0.56032	0.5845:0.0:0.4155:0.0	.	354	Q02790	FKBP4_HUMAN	N	354	ENSP00000001008:K354N	ENSP00000001008:K354N	K	+	3	2	FKBP4	2780573	1.000000	0.71417	0.977000	0.42913	0.029000	0.11900	0.864000	0.27926	-0.395000	0.07715	0.561000	0.74099	AAG		0.562	FKBP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206861.1			T	2910312	G	T	2910312	3	4	575	1	0	0	0	0	1	0	0	0	5917	991	35	4	1096	4	FKBP4	12	2910312	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08		2910312	130941583	87	34077										
STYK1	55359	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	10780290	10780290	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	atatacttgtttttctgtgaGatcatagagaagaccatcca	7	7	2	3			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr12:10780290G>C	ENST00000075503.3	-	7	1187	c.667C>G	c.(667-669)Ctc>Gtc	p.L223V		NM_018423.2	NP_060893.2	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	223	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)			breast(1)|central_nervous_system(3)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|liver(1)|lung(8)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)	26						TTTTCTGTGAGATCATAGAGA	0.398										HNSCC(73;0.22)																																						0													209	145	167					12																	10780290		2203	4300	6503	SO:0001583	missense	55359			AF251059	CCDS8629.1	12p13.2	2005-01-21							18889	protein-coding gene	gene with protein product		611433				12841579	Standard	NM_018423		Approved	SuRTK106, DKFZp761P1010, NOK	uc001qys.2	Q6J9G0		ENST00000075503.3:c.667C>G	12.37:g.10780290G>C	ENSP00000075503:p.Leu223Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9T2|Q52LR3|Q9BXY2|Q9NSH1	Missense_Mutation	SNP	ENST00000075503.3	37	CCDS8629.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	13.34|13.34	2.207320|2.207320	0.39003|0.39003	.|.	.|.	ENSG00000060140|ENSG00000060140	ENST00000542924|ENST00000075503	.|T	.|0.74106	.|-0.81	5.11|5.11	3.25|3.25	0.37280|0.37280	.|Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	.|0.092391	.|0.47093	.|D	.|0.000250	T|T	0.73305|0.73305	0.3570|0.3570	L|L	0.56340|0.56340	1.77|1.77	0.40939|0.40939	D|D	0.984457|0.984457	.|B	.|0.22080	.|0.064	.|B	.|0.35727	.|0.209	T|T	0.72640|0.72640	-0.4232|-0.4232	5|10	.|0.87932	.|D	.|0	-6.5489|-6.5489	12.1571|12.1571	0.54083|0.54083	0.0:0.0:0.6901:0.3098|0.0:0.0:0.6901:0.3098	.|.	.|223	.|Q6J9G0	.|STYK1_HUMAN	M|V	66|223	.|ENSP00000075503:L223V	.|ENSP00000075503:L223V	I|L	-|-	3|1	3|0	STYK1|STYK1	10671557|10671557	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.995000|0.995000	0.86356|0.86356	2.014000|2.014000	0.40951|0.40951	0.706000|0.706000	0.31912|0.31912	-0.181000|-0.181000	0.13052|0.13052	ATC|CTC		0.398	STYK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399622.1	NM_018423		C	10780290	G	C	10780290	3	2	575	1	0	0	0	0	1	0	0	0	15371	942	33	4	621	4	STYK1	12	10780290	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	7869978	10780290	123071605	88	34078										
BCL2L14	79370	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	12232370	12232370	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gagcacccctgctctcttctCaccaaagctgctgagaacaa	7	15	2	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr12:12232370C>T	ENST00000308721.5	+	2	337	c.131C>T	c.(130-132)tCa>tTa	p.S44L	BCL2L14_ENST00000589718.1_Missense_Mutation_p.S44L|BCL2L14_ENST00000266434.4_Missense_Mutation_p.S44L|BCL2L14_ENST00000396367.1_Missense_Mutation_p.S44L|BCL2L14_ENST00000396369.1_Missense_Mutation_p.S44L|BCL2L14_ENST00000586576.1_Missense_Mutation_p.S77L	NM_138723.1	NP_620049.1	Q9BZR8	B2L14_HUMAN	BCL2-like 14 (apoptosis facilitator)	44					apoptotic process (GO:0006915)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|regulation of apoptotic process (GO:0042981)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intracellular organelle (GO:0043229)|membrane (GO:0016020)	protein kinase binding (GO:0019901)			large_intestine(1)|lung(2)|skin(3)	6		Prostate(47;0.0872)		BRCA - Breast invasive adenocarcinoma(232;0.154)		GCTCTCTTCTCACCAAAGCTG	0.478																																																0													76	72	73					12																	12232370		2203	4300	6503	SO:0001583	missense	79370			AF281254	CCDS8645.1, CCDS8646.1	12p13-p12	2014-03-07			ENSG00000121380	ENSG00000121380			16657	protein-coding gene	gene with protein product		606126				11054413	Standard	NM_030766		Approved	BCLG, BCL-G	uc001rac.3	Q9BZR8	OTTHUMG00000159528	ENST00000308721.5:c.131C>T	12.37:g.12232370C>T	ENSP00000309132:p.Ser44Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAD0|Q96QR5|Q9BZR7	Missense_Mutation	SNP	ENST00000308721.5	37	CCDS8645.1	.	.	.	.	.	.	.	.	.	.	C	19.87	3.907145	0.72868	.	.	ENSG00000121380	ENST00000464885;ENST00000461264;ENST00000308721;ENST00000266434;ENST00000396369;ENST00000396367	.	.	.	4.11	4.11	0.48088	.	0.287741	0.28317	N	0.015794	T	0.69958	0.3169	M	0.73962	2.25	0.30374	N	0.782577	D;D	0.89917	0.999;1.0	D;D	0.85130	0.982;0.997	T	0.69731	-0.5066	9	0.87932	D	0	-5.2904	12.1533	0.54062	0.0:1.0:0.0:0.0	.	44;44	Q9BZR8-2;Q9BZR8	.;B2L14_HUMAN	L	44;47;44;44;44;44	.	ENSP00000266434:S44L	S	+	2	0	BCL2L14	12123637	0.920000	0.31207	0.739000	0.30968	0.062000	0.15995	2.922000	0.48860	2.590000	0.87494	0.563000	0.77884	TCA		0.478	BCL2L14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355994.3	NM_030766		T	12232370	C	T	12232370	3	4	575	1	0	0	0	0	1	0	0	0	1372	838	29	2	133	2	BCL2L14	12	12232370	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	1452080	12232370	121619525	89	34079										
PLEKHA5	54477	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	19506893	19506893	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	atcttcgacaatagcttcctAtgtaaccttgaggaaaacta	6	9	1	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr12:19506893A>G	ENST00000299275.6	+	20	2603	c.2597A>G	c.(2596-2598)tAt>tGt	p.Y866C	PLEKHA5_ENST00000359180.3_Missense_Mutation_p.Y810C|PLEKHA5_ENST00000355397.3_Missense_Mutation_p.Y924C|PLEKHA5_ENST00000539256.1_Missense_Mutation_p.Y624C|PLEKHA5_ENST00000424268.1_Missense_Mutation_p.Y855C|PLEKHA5_ENST00000538714.1_Missense_Mutation_p.Y924C|PLEKHA5_ENST00000317589.4_Missense_Mutation_p.Y929C|PLEKHA5_ENST00000543806.1_Missense_Mutation_p.Y848C|PLEKHA5_ENST00000429027.2_Missense_Mutation_p.Y1032C	NM_019012.5	NP_061885.2	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A member 5	866					reproductive system development (GO:0061458)	cytosol (GO:0005829)|membrane (GO:0016020)	1-phosphatidylinositol binding (GO:0005545)|phosphatidylinositol-3,5-bisphosphate binding (GO:0080025)|phosphatidylinositol-3-phosphate binding (GO:0032266)|phosphatidylinositol-4-phosphate binding (GO:0070273)|phosphatidylinositol-5-phosphate binding (GO:0010314)			autonomic_ganglia(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(6)|lung(14)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	35	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					ATAGCTTCCTATGTAACCTTG	0.368																																					Pancreas(196;329 2193 11246 14234 19524)											0													125	119	121					12																	19506893		2203	4300	6503	SO:0001583	missense	54477			AF302150	CCDS8682.1, CCDS44840.1, CCDS44840.2, CCDS55809.1, CCDS58213.1, CCDS58214.1	12p12	2013-01-10			ENSG00000052126	ENSG00000052126		"Pleckstrin homology (PH) domain containing"	30036	protein-coding gene	gene with protein product		607770				11214970, 11001876	Standard	NM_001143821		Approved	PEPP2, KIAA1686, FLJ10667	uc031qgo.1	Q9HAU0	OTTHUMG00000167921	ENST00000299275.6:c.2597A>G	12.37:g.19506893A>G	ENSP00000299275:p.Tyr866Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A0JP03|B4DGS1|E9PHQ3|F5H0I0|Q6NSF8|Q86ST7|Q8N3K6|Q96DY9|Q9BVR4|Q9C0H7|Q9H924|Q9NVK8	Missense_Mutation	SNP	ENST00000299275.6	37	CCDS8682.1	.	.	.	.	.	.	.	.	.	.	A	19.53	3.845797	0.71603	.	.	ENSG00000052126	ENST00000317589;ENST00000355397;ENST00000359180;ENST00000542828;ENST00000429027;ENST00000299275;ENST00000539256;ENST00000538714;ENST00000424268;ENST00000543806;ENST00000536974;ENST00000538972	T;T;T;T;T;T;T;T;T;T;T	0.31247	2.93;2.93;1.5;2.93;2.93;2.93;2.93;2.93;2.93;2.93;1.5	5.04	5.04	0.67666	.	0.000000	0.85682	D	0.000000	T	0.57227	0.2039	M	0.80746	2.51	0.50813	D	0.999898	D;D;D;D;D;D;D;D	0.89917	0.999;1.0;1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D;D;D	0.91635	0.992;0.998;0.996;0.997;0.999;0.994;0.959;0.982	T	0.60105	-0.7328	10	0.41790	T	0.15	-12.8632	14.8567	0.70344	1.0:0.0:0.0:0.0	.	929;848;855;1027;810;1032;866;924	Q9HAU0-4;F5H0I0;E7EME8;B4DHK5;Q9HAU0-5;E9PHQ3;Q9HAU0;Q9HAU0-2	.;.;.;.;.;.;PKHA5_HUMAN;.	C	929;924;810;1028;1032;866;624;924;855;848;821;147	ENSP00000325155:Y929C;ENSP00000347560:Y924C;ENSP00000352104:Y810C;ENSP00000404296:Y1032C;ENSP00000299275:Y866C;ENSP00000440611:Y624C;ENSP00000439673:Y924C;ENSP00000400411:Y855C;ENSP00000439837:Y848C;ENSP00000440371:Y821C;ENSP00000443553:Y147C	ENSP00000299275:Y866C	Y	+	2	0	PLEKHA5	19398160	1.000000	0.71417	0.690000	0.30148	0.968000	0.65278	6.016000	0.70798	1.890000	0.54733	0.372000	0.22366	TAT		0.368	PLEKHA5-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000397013.1	NM_019012		G	19506893	A	G	19506893	3	3	575	1	0	0	0	0	1	0	0	0	12066	449	16	3	2993	3	PLEKHA5	12	19506893	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	7274523	19506893	114345002	90	34080										
SLC38A4	55089	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	47178364	47178364	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aatggaaacaaaagctccaaTttttcccggccatccaaatg	6	11	0	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr12:47178364T>A	ENST00000447411.1	-	6	660	c.454A>T	c.(454-456)Att>Ttt	p.I152F	SLC38A4_ENST00000266579.4_Missense_Mutation_p.I152F	NM_001143824.1	NP_001137296.1	Q969I6	S38A4_HUMAN	solute carrier family 38, member 4	152					amino acid transport (GO:0006865)|ion transport (GO:0006811)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	amino acid transmembrane transporter activity (GO:0015171)|symporter activity (GO:0015293)			NS(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(6)|ovary(3)|skin(1)	21	Lung SC(27;0.192)|Renal(347;0.236)					AAAGCTCCAATTTTTCCCGGC	0.333																																																0													109	107	107					12																	47178364		2203	4300	6503	SO:0001583	missense	55089			AF193836	CCDS8750.1	12q13	2013-05-22				ENSG00000139209		"Solute carriers"	14679	protein-coding gene	gene with protein product		608065				11414754	Standard	NM_018018		Approved	PAAT, NAT3, ATA3	uc001rpj.2	Q969I6		ENST00000447411.1:c.454A>T	12.37:g.47178364T>A	ENSP00000389843:p.Ile152Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A8K553	Missense_Mutation	SNP	ENST00000447411.1	37	CCDS8750.1	.	.	.	.	.	.	.	.	.	.	T	13.45	2.242201	0.39598	.	.	ENSG00000139209	ENST00000395426;ENST00000447411;ENST00000266579;ENST00000547477;ENST00000546940	T;T;T;T	0.02421	4.3;4.3;4.3;4.3	6.07	4.9	0.64082	.	0.311957	0.37906	N	0.001896	T	0.03053	0.0090	L	0.33624	1.015	0.50813	D	0.999895	B	0.09022	0.002	B	0.15870	0.014	T	0.50898	-0.8773	10	0.27785	T	0.31	-8.8755	11.1795	0.48620	0.2577:0.0:0.0:0.7423	.	152	Q969I6	S38A4_HUMAN	F	152	ENSP00000389843:I152F;ENSP00000266579:I152F;ENSP00000450071:I152F;ENSP00000448543:I152F	ENSP00000266579:I152F	I	-	1	0	SLC38A4	45464631	1.000000	0.71417	0.996000	0.52242	0.736000	0.42039	3.555000	0.53727	1.067000	0.40740	0.533000	0.62120	ATT		0.333	SLC38A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404574.1			A	47178364	T	A	47178364	3	1	575	1	0	0	0	0	1	0	0	0	14619	1493	52	5	1233	5	SLC38A4	12	47178364	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	27671471	47178364	86673531	91	34081										
EIF4B	1975	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	53416313	53416313	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ttttggccgtgatagaaatcGggattctgacaaaacagata	10	6	1	4			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr12:53416313G>C	ENST00000262056.9	+	6	895	c.569G>C	c.(568-570)cGg>cCg	p.R190P	EIF4B_ENST00000416762.3_Missense_Mutation_p.R151P|RP11-983P16.4_ENST00000552905.1_RNA|EIF4B_ENST00000420463.3_Missense_Mutation_p.R190P	NM_001417.4	NP_001408.2	P23588	IF4B_HUMAN	eukaryotic translation initiation factor 4B	190	Arg-rich.|Asp-rich.				cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|insulin receptor signaling pathway (GO:0008286)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|regulation of translational initiation (GO:0006446)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)	cytosol (GO:0005829)|eukaryotic translation initiation factor 4F complex (GO:0016281)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|translation initiation factor activity (GO:0003743)			breast(4)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(10)|stomach(1)|upper_aerodigestive_tract(1)	22						GATAGAAATCGGGATTCTGAC	0.418																																																0													133	112	119					12																	53416313		1863	4102	5965	SO:0001583	missense	1975			X55733	CCDS41788.1, CCDS73474.1	12q13.13	2013-02-12			ENSG00000063046	ENSG00000063046		"RNA binding motif (RRM) containing"	3285	protein-coding gene	gene with protein product		603928					Standard	XM_005268709		Approved		uc001sbh.4	P23588	OTTHUMG00000169570	ENST00000262056.9:c.569G>C	12.37:g.53416313G>C	ENSP00000262056:p.Arg190Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0E3|Q53HQ2|Q6GPH5|Q6IB46|Q8WYK5	Missense_Mutation	SNP	ENST00000262056.9	37	CCDS41788.1	.	.	.	.	.	.	.	.	.	.	G	16.44	3.124924	0.56613	.	.	ENSG00000063046	ENST00000262056;ENST00000551002;ENST00000420463;ENST00000430205;ENST00000416762;ENST00000552490	T;D;D;D;D	0.94232	0.54;-3.36;-3.36;-3.38;-3.36	3.59	2.7	0.31948	.	0.065726	0.53938	D	0.000044	D	0.87993	0.6318	L	0.27053	0.805	0.58432	D	0.999999	B;B;B	0.33807	0.426;0.301;0.301	B;B;B	0.36504	0.226;0.113;0.113	D	0.86321	0.1692	10	0.56958	D	0.05	.	10.7402	0.46149	0.0982:0.0:0.9018:0.0	.	151;190;190	B4DS13;E7EX17;P23588	.;.;IF4B_HUMAN	P	190;144;190;190;151;190	ENSP00000262056:R190P;ENSP00000447192:R144P;ENSP00000388806:R190P;ENSP00000412530:R151P;ENSP00000450324:R190P	ENSP00000262056:R190P	R	+	2	0	EIF4B	51702580	1.000000	0.71417	0.979000	0.43373	0.935000	0.57460	6.380000	0.73158	1.077000	0.40990	0.650000	0.86243	CGG		0.418	EIF4B-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000404852.2	NM_001417		C	53416313	G	C	53416313	3	2	575	1	0	0	0	0	1	0	0	0	5029	1116	39	4	591	4	EIF4B	12	53416313	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	6237949	53416313	80435582	92	34082										
RAB5B	5869	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	56385887	56385887	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ctttttatctctagctaagaAgttgccaaagagtgaacccc	7	10	1	3			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr12:56385887A>T	ENST00000360299.5	+	6	760	c.539A>T	c.(538-540)aAg>aTg	p.K180M	RAB5B_ENST00000553116.1_Missense_Mutation_p.K180M|RAB5B_ENST00000448789.2_Missense_Mutation_p.K139M	NM_002868.3	NP_002859.1	P61020	RAB5B_HUMAN	RAB5B, member RAS oncogene family	180					antigen processing and presentation (GO:0019882)|endosome organization (GO:0007032)|GTP catabolic process (GO:0006184)|plasma membrane to endosome transport (GO:0048227)|protein transport (GO:0015031)|regulation of endocytosis (GO:0030100)|small GTPase mediated signal transduction (GO:0007264)	endocytic vesicle (GO:0030139)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|membrane (GO:0016020)|plasma membrane (GO:0005886)	GDP binding (GO:0019003)|GTP binding (GO:0005525)|GTP-dependent protein binding (GO:0030742)|GTPase activity (GO:0003924)			endometrium(1)|large_intestine(1)|liver(2)|lung(4)|upper_aerodigestive_tract(1)	9			UCEC - Uterine corpus endometrioid carcinoma (6;0.0471)|OV - Ovarian serous cystadenocarcinoma(18;0.235)			CTAGCTAAGAAGTTGCCAAAG	0.507																																																0													59	60	60					12																	56385887		2203	4300	6503	SO:0001583	missense	5869				CCDS8900.1, CCDS58244.1	12q13	2008-07-30						"RAB, member RAS oncogene"	9784	protein-coding gene	gene with protein product		179514				1541686, 10403367	Standard	NM_001252037		Approved		uc001siw.3	P61020		ENST00000360299.5:c.539A>T	12.37:g.56385887A>T	ENSP00000353444:p.Lys180Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K982|B4DKD7|P35239|P35277|Q6PIK9|Q86TH0|Q8IXL2	Missense_Mutation	SNP	ENST00000360299.5	37	CCDS8900.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	16.65|16.65	3.183016|3.183016	0.57800|0.57800	.|.	.|.	ENSG00000111540|ENSG00000111540	ENST00000549218|ENST00000553116;ENST00000360299;ENST00000448789	.|T;T;T	.|0.80033	.|-1.17;-1.17;-1.33	4.97|4.97	4.97|4.97	0.65823|0.65823	.|.	.|0.080850	.|0.49916	.|D	.|0.000138	D|D	0.84710|0.84710	0.5532|0.5532	L|L	0.54863|0.54863	1.705|1.705	0.58432|0.58432	D|D	0.999999|0.999999	.|D;P;P	.|0.53619	.|0.961;0.55;0.911	.|P;P;P	.|0.57548	.|0.823;0.575;0.69	D|D	0.86486|0.86486	0.1794|0.1794	5|10	.|0.87932	.|D	.|0	-7.6032|-7.6032	14.1258|14.1258	0.65219|0.65219	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	.|139;180;180	.|B4DKD7;Q6FI54;P61020	.|.;.;RAB5B_HUMAN	D|M	99|180;180;139	.|ENSP00000450168:K180M;ENSP00000353444:K180M;ENSP00000391319:K139M	.|ENSP00000353444:K180M	E|K	+|+	3|2	2|0	RAB5B|RAB5B	54672154|54672154	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	5.605000|5.605000	0.67634|0.67634	2.236000|2.236000	0.73375|0.73375	0.529000|0.529000	0.55759|0.55759	GAA|AAG		0.507	RAB5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405396.1			T	56385887	A	T	56385887	3	4	575	1	0	0	0	0	1	0	0	0	12962	72	3	5	557	5	RAB5B	12	56385887	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	2969574	56385887	77466008	93	34083										
GRIP1	23426	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	66765625	66765625	+	Frame_Shift_Del	DEL	A	A	-													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gcgagctgctgcgctcctggAagctggcctgtcgccccagc							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr12:66765625delA	ENST00000398016.3	-	22	2773	c.2705delT	c.(2704-2706)ttcfs	p.F902fs	GRIP1_ENST00000359742.4_Frame_Shift_Del_p.F954fs|GRIP1_ENST00000286445.7_Frame_Shift_Del_p.F939fs	NM_021150.3	NP_066973.2	Q96DT0	LEG12_HUMAN	glutamate receptor interacting protein 1	0					intrinsic apoptotic signaling pathway (GO:0097193)	nucleus (GO:0005634)	lactose binding (GO:0030395)			NS(3)|breast(2)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(10)|lung(19)|ovary(2)|prostate(2)|skin(1)	50			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		GCGCTCCTGGAAGCTGGCCTG	0.552																																																0													86	94	91					12																	66765625		2074	4214	6288	SO:0001589	frameshift_variant	23426			AJ133439	CCDS41807.1	12q13.13	2008-05-02			ENSG00000155974	ENSG00000155974			18708	protein-coding gene	gene with protein product		604597				10197531	Standard	NM_021150		Approved		uc001stk.3	Q9Y3R0	OTTHUMG00000169019	ENST00000398016.3:c.2705delT	12.37:g.66765625delA	ENSP00000381098:p.Phe902fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9N2|G5E970|Q96DS9|Q96PR9|Q9H258|Q9H259|Q9NZ02	Frame_Shift_Del	DEL	ENST00000398016.3	37	CCDS41807.1																																																																																				0.552	GRIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401975.2			-	66765625	A	-	66765625	7	5	575	1	0	1	0	1	0	0	0	0	6794	246	9	0	537	0	GRIP1	12	66765625	Frame_Shift_Del	DEL	A	TCGA-DZ-6132-01A-11D-1961-08	10379738	66765625	67086270	94	34084										
FGD6	55785	broad.mit.edu	37	chr12	95603626	95603626	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	acagattccttttgcatttgAggggcagaaactcccaggtt	10	9	0	3			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr12:95603626A>G	ENST00000343958.4	-	2	1657	c.1434T>C	c.(1432-1434)ccT>ccC	p.P478P	FGD6_ENST00000546711.1_Silent_p.P478P|FGD6_ENST00000549499.1_Silent_p.P478P|FGD6_ENST00000550368.1_5'Flank	NM_018351.3	NP_060821.3	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	478					actin cytoskeleton organization (GO:0030036)|cytoskeleton organization (GO:0007010)|filopodium assembly (GO:0046847)|positive regulation of GTPase activity (GO:0043547)|regulation of Cdc42 GTPase activity (GO:0043088)|regulation of cell shape (GO:0008360)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|lamellipodium (GO:0030027)|ruffle (GO:0001726)	guanyl-nucleotide exchange factor activity (GO:0005085)|metal ion binding (GO:0046872)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|small GTPase binding (GO:0031267)			breast(3)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(14)|liver(1)|lung(12)|ovary(3)|prostate(3)|skin(6)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	56						TTTGCATTTGAGGGGCAGAAA	0.393																																																0													64	68	66					12																	95603626		2203	4300	6503	SO:0001819	synonymous_variant	55785			AB037783	CCDS31878.1	12q23.1	2013-01-10				ENSG00000180263		"Zinc fingers, FYVE domain containing", "Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	21740	protein-coding gene	gene with protein product		613520					Standard	NM_018351		Approved	ZFYVE24, FLJ11183	uc001tdp.4	Q6ZV73	OTTHUMG00000170133	ENST00000343958.4:c.1434T>C	12.37:g.95603626A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZR53|Q7Z2Z7|Q96D44|Q9NUR8|Q9P2I5	Silent	SNP	ENST00000343958.4	37	CCDS31878.1																																																																																				0.393	FGD6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407600.1	NM_018351		G	95603626	A	G	95603626	2	3	575	1	0	0	0	0	0	0	0	1	5844	291	11	3		3	FGD6	12	95603626	Silent	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	28838001	95603626	38248269	95	34085										
CCDC38	120935	hgsc.bcm.edu;broad.mit.edu	37	chr12	96273432	96273432	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aatgacttacgttttatcctGtataactttttctcttttgt	4	7	1	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr12:96273432G>A	ENST00000344280.3	-	12	1689	c.1132C>T	c.(1132-1134)Cag>Tag	p.Q378*	SNRPF_ENST00000553192.1_Intron|SNRPF_ENST00000552085.1_Intron	NM_182496.2	NP_872302.2	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	378										breast(1)|endometrium(2)|large_intestine(3)|lung(9)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	18						GTTTTATCCTGTATAACTTTT	0.368																																																0													156	150	152					12																	96273432		2203	4300	6503	SO:0001587	stop_gained	120935			AK097408	CCDS9056.1	12q23.1	2005-11-02				ENSG00000165972			26843	protein-coding gene	gene with protein product							Standard	NM_182496		Approved	FLJ40089	uc001tek.2	Q502W7	OTTHUMG00000170352	ENST00000344280.3:c.1132C>T	12.37:g.96273432G>A	ENSP00000345470:p.Gln378*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N835	Nonsense_Mutation	SNP	ENST00000344280.3	37	CCDS9056.1	.	.	.	.	.	.	.	.	.	.	G	28.1	4.889426	0.91889	.	.	ENSG00000165972	ENST00000344280	.	.	.	5.99	2.85	0.33270	.	0.690505	0.14783	N	0.298696	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.11485	T	0.65	-11.1569	11.1809	0.48627	0.0:0.1217:0.6268:0.2514	.	.	.	.	X	378	.	ENSP00000345470:Q378X	Q	-	1	0	CCDC38	94797563	1.000000	0.71417	1.000000	0.80357	0.958000	0.62258	1.645000	0.37238	1.549000	0.49425	-0.330000	0.08379	CAG		0.368	CCDC38-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408634.1	NM_182496		A	96273432	G	A	96273432	4	1	575	1	0	0	0	0	0	1	0	0	2812	1386	48	2	579	2	CCDC38	12	96273432	Nonsense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	669806	96273432	37578463	96	34086										
TRPC4	7223	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	38237841	38237841	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tgggatgccacatgtcccatGattctcgtggattaagggca	12	9	1	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr13:38237841G>T	ENST00000379705.3	-	6	2257	c.1400C>A	c.(1399-1401)tCa>tAa	p.S467*	TRPC4_ENST00000494529.1_5'UTR|TRPC4_ENST00000379679.1_Nonsense_Mutation_p.S294*|TRPC4_ENST00000379673.2_Nonsense_Mutation_p.S467*|TRPC4_ENST00000355779.2_Nonsense_Mutation_p.S467*|TRPC4_ENST00000379681.3_Nonsense_Mutation_p.S467*|TRPC4_ENST00000358477.2_Nonsense_Mutation_p.S467*|TRPC4_ENST00000426868.2_Intron|TRPC4_ENST00000447043.1_Nonsense_Mutation_p.S467*|TRPC4_ENST00000338947.5_Nonsense_Mutation_p.S294*			Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel, subfamily C, member 4	467					axon guidance (GO:0007411)|calcium ion import (GO:0070509)|calcium ion transmembrane transport (GO:0070588)|calcium ion transport (GO:0006816)|gamma-aminobutyric acid secretion (GO:0014051)|ion transmembrane transport (GO:0034220)|oligodendrocyte differentiation (GO:0048709)|transmembrane transport (GO:0055085)	basolateral plasma membrane (GO:0016323)|calcium channel complex (GO:0034704)|caveola (GO:0005901)|cell surface (GO:0009986)|cortical cytoskeleton (GO:0030863)|plasma membrane (GO:0005886)	beta-catenin binding (GO:0008013)|cadherin binding (GO:0045296)|inositol 1,4,5 trisphosphate binding (GO:0070679)|store-operated calcium channel activity (GO:0015279)	p.S467L(2)		NS(2)|breast(4)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(26)|lung(30)|ovary(4)|prostate(1)|skin(4)|urinary_tract(2)	83				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)		CATGTCCCATGATTCTCGTGG	0.423																																																2	Substitution - Missense(2)	lung(2)											43	43	43					13																	38237841		2203	4300	6503	SO:0001587	stop_gained	7223			U40983	CCDS9365.1, CCDS45035.1, CCDS45036.1, CCDS45038.1, CCDS45039.1	13q13.3	2013-01-10			ENSG00000133107	ENSG00000133107		"Voltage-gated ion channels / Transient receptor potential cation channels", "Ankyrin repeat domain containing"	12336	protein-coding gene	gene with protein product		603651				8646775, 16382100	Standard	NM_016179		Approved	HTRP4, TRP4	uc010abx.3	Q9UBN4	OTTHUMG00000016752	ENST00000379705.3:c.1400C>A	13.37:g.38237841G>T	ENSP00000369027:p.Ser467*	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALE0|B1ALE1|B1ALE2|Q15721|Q3SWS6|Q96P03|Q96P04|Q96P05|Q9UIB0|Q9UIB1|Q9UIB2	Nonsense_Mutation	SNP	ENST00000379705.3	37	CCDS9365.1	.	.	.	.	.	.	.	.	.	.	G	37	6.446819	0.97572	.	.	ENSG00000133107	ENST00000379705;ENST00000379681;ENST00000338947;ENST00000379679;ENST00000355779;ENST00000358477;ENST00000379673;ENST00000447043	.	.	.	5.45	4.55	0.56014	.	0.671651	0.16287	N	0.221062	.	.	.	.	.	.	0.19300	N	0.99997	.	.	.	.	.	.	.	.	.	.	0.13108	T	0.6	-11.8501	8.9999	0.36074	0.0:0.2072:0.6524:0.1405	.	.	.	.	X	467;467;294;294;467;467;467;467	.	ENSP00000342580:S294X	S	-	2	0	TRPC4	37135841	0.000000	0.05858	0.954000	0.39281	0.956000	0.61745	0.946000	0.29069	2.706000	0.92434	0.655000	0.94253	TCA		0.423	TRPC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044574.2	NM_003306		T	38237841	G	T	38237841	4	4	575	1	0	0	0	0	0	1	0	0	16592	1294	45	4	1572	4	TRPC4	13	38237841	Nonsense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08		38237841	76932037	97	34087										
RCBTB1	55213	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr13	50115836	50115836	+	Frame_Shift_Del	DEL	C	C	-													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	agcatcttctggcggcaggtCgactgtgtctgtgtagaggt							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr13:50115836delC	ENST00000378302.2	-	11	1560	c.1300delG	c.(1300-1302)gacfs	p.D434fs	RCBTB1_ENST00000258646.3_Frame_Shift_Del_p.D434fs|RCBTB1_ENST00000471984.1_5'Flank	NM_018191.3	NP_060661.3	Q8NDN9	RCBT1_HUMAN	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 1	434	BTB 1. {ECO:0000255|PROSITE- ProRule:PRU00037}.				cell cycle (GO:0007049)|chromatin modification (GO:0016568)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				endometrium(1)|kidney(1)|large_intestine(3)|lung(7)|ovary(2)|prostate(1)|urinary_tract(1)	16		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;4.7e-09)		GGCGGCAGGTCGACTGTGTCT	0.458																																																0													156	116	130					13																	50115836		2203	4300	6503	SO:0001589	frameshift_variant	55213			AF334406	CCDS9418.1	13q14	2013-01-08			ENSG00000136144	ENSG00000136144		"BTB/POZ domain containing"	18243	protein-coding gene	gene with protein product		607867				11306461	Standard	XM_005266441		Approved	FLJ10716, CLLD7, CLLL7	uc001vde.1	Q8NDN9	OTTHUMG00000016915	ENST00000378302.2:c.1300delG	13.37:g.50115836delC	ENSP00000367552:p.Asp434fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IY29|Q969U9	Frame_Shift_Del	DEL	ENST00000378302.2	37	CCDS9418.1																																																																																				0.458	RCBTB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044912.2	NM_018191		-	50115836	C	-	50115836	7	5	575	1	0	1	0	1	0	0	0	0	13184	884	31	0	307	0	RCBTB1	13	50115836	Frame_Shift_Del	DEL	C	TCGA-DZ-6132-01A-11D-1961-08	11877995	50115836	65054042	98	34088	261	2								
RCBTB1	55213	bcgsc.ca	37	chr13	50115837	50115837	+	Silent	SNP	G	G	A													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gcatcttctggcggcaggtcGactgtgtctgtgtagaggta							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr13:50115837G>A	ENST00000378302.2	-	11	1559	c.1299C>T	c.(1297-1299)gtC>gtT	p.V433V	RCBTB1_ENST00000258646.3_Silent_p.V433V|RCBTB1_ENST00000471984.1_5'Flank	NM_018191.3	NP_060661.3	Q8NDN9	RCBT1_HUMAN	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 1	433	BTB 1. {ECO:0000255|PROSITE- ProRule:PRU00037}.				cell cycle (GO:0007049)|chromatin modification (GO:0016568)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				endometrium(1)|kidney(1)|large_intestine(3)|lung(7)|ovary(2)|prostate(1)|urinary_tract(1)	16		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;4.7e-09)		GCGGCAGGTCGACTGTGTCTG	0.458																																																0													156	117	130					13																	50115837		2203	4300	6503	SO:0001819	synonymous_variant	55213			AF334406	CCDS9418.1	13q14	2013-01-08			ENSG00000136144	ENSG00000136144		"BTB/POZ domain containing"	18243	protein-coding gene	gene with protein product		607867				11306461	Standard	XM_005266441		Approved	FLJ10716, CLLD7, CLLL7	uc001vde.1	Q8NDN9	OTTHUMG00000016915	ENST00000378302.2:c.1299C>T	13.37:g.50115837G>A		Somatic		WXS	Illumina HiSeq	Phase_1	Q8IY29|Q969U9	Silent	SNP	ENST00000378302.2	37	CCDS9418.1																																																																																				0.458	RCBTB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044912.2	NM_018191		A	50115837	G	A	50115837	2	1	575	1	0	0	0	0	0	0	0	1	13184	1045	37	1		1	RCBTB1	13	50115837	Silent	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	1	50115837	65054041	99	34089	261	2								
GPR180	160897	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	95271585	95271585	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aattacattcatttctccagGtaactcaaaaccactaaaac	2	11	3	0	rs138676753		TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr13:95271585G>A	ENST00000376958.4	+	4	711		c.e4+1			NM_180989.5	NP_851320.1	Q86V85	GP180_HUMAN	G protein-coupled receptor 180						G-protein coupled receptor signaling pathway (GO:0007186)|response to pheromone (GO:0019236)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				breast(1)|kidney(1)|large_intestine(3)|lung(4)|urinary_tract(1)	10	all_neural(89;0.0684)|Medulloblastoma(90;0.163)					ATTTCTCCAGGTAACTCAAAA	0.338																																																0													125	122	123					13																	95271585		2203	4300	6503	SO:0001630	splice_region_variant	160897			AF339823	CCDS9472.1	13q32.1	2006-04-05			ENSG00000152749	ENSG00000152749			28899	protein-coding gene	gene with protein product	"intimal thickness related receptor"	607787				12538434	Standard	NM_180989		Approved	ITR	uc001vly.3	Q86V85	OTTHUMG00000017207	ENST00000376958.4:c.686+1G>A	13.37:g.95271585G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1D5	Splice_Site	SNP	ENST00000376958.4	37	CCDS9472.1	.	.	.	.	.	.	.	.	.	.	G	24.8	4.575779	0.86645	.	.	ENSG00000152749	ENST00000376958	.	.	.	5.81	5.81	0.92471	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	20.0784	0.97758	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	GPR180	94069586	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.048000	0.93830	2.736000	0.93811	0.655000	0.94253	.		0.338	GPR180-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045465.3	NM_180989	Intron	A	95271585	G	A	95271585	5	1	575	1	0	0	0	0	0	0	1	0	6683	1275	44	2	701	2	GPR180	13	95271585	Splice_Site	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	45155748	95271585	19898293	100	34090										
BIVM	54841	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	103492131	103492131	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	agtgctagtttccatcaggaCtcggcatggaaaaagatgtc	11	8	1	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr13:103492131C>G	ENST00000257336.1	+	11	2107	c.1428C>G	c.(1426-1428)gaC>gaG	p.D476E	BIVM-ERCC5_ENST00000602836.1_Missense_Mutation_p.L448V|BIVM_ENST00000419638.1_3'UTR|BIVM_ENST00000448849.2_Missense_Mutation_p.D254E	NM_017693.3	NP_060163.2	Q86UB2	BIVM_HUMAN	basic, immunoglobulin-like variable motif containing	476						cytoplasm (GO:0005737)|extracellular space (GO:0005615)|nucleus (GO:0005634)				endometrium(3)|kidney(2)|large_intestine(7)|lung(10)|skin(2)|urinary_tract(1)	25	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					TCCATCAGGACTCGGCATGGA	0.468																																																0													154	144	147					13																	103492131		2203	4300	6503	SO:0001583	missense	0			AF411385	CCDS9505.1, CCDS53879.1	13q33.1	2008-05-14			ENSG00000134897	ENSG00000134897			16034	protein-coding gene	gene with protein product						12036287	Standard	NM_017693		Approved	FLJ20159		Q86UB2	OTTHUMG00000017309	ENST00000257336.1:c.1428C>G	13.37:g.103492131C>G	ENSP00000257336:p.Asp476Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M1J2|Q9NXM4	Missense_Mutation	SNP	ENST00000257336.1	37	CCDS9505.1	.	.	.	.	.	.	.	.	.	.	C	0.020	-1.437445	0.01098	.	.	ENSG00000134897;ENSG00000134897;ENSG00000134899	ENST00000257336;ENST00000448849;ENST00000418659	.	.	.	5.4	-0.762	0.11034	.	0.188352	0.45606	D	0.000360	T	0.03651	0.0104	N	0.00347	-1.61	0.19300	N	0.999976	B;B;B	0.21606	0.0;0.058;0.005	B;B;B	0.17098	0.001;0.017;0.004	T	0.35624	-0.9781	9	0.02654	T	1	-13.3799	2.8027	0.05419	0.0935:0.3232:0.301:0.2823	.	254;447;476	Q86UB2-2;Q59FZ7;Q86UB2	.;.;BIVM_HUMAN	E	476;254;447	.	ENSP00000257336:D476E	D	+	3	2	ERCC5;BIVM	102290132	0.097000	0.21791	0.768000	0.31515	0.791000	0.44710	-0.250000	0.08830	-0.183000	0.10585	-1.255000	0.01485	GAC		0.468	BIVM-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045704.2			G	103492131	C	G	103492131	3	3	575	1	0	0	0	0	1	0	0	0	1441	564	20	4	1483	4	BIVM	13	103492131	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	8220546	103492131	11677747	101	34091										
KTN1	3895	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	56079010	56079010	+	Silent	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ccgactctgagagtgtacctCgagactttaaattatcagat	8	9	2	3			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr14:56079010C>A	ENST00000395314.3	+	2	312	c.244C>A	c.(244-246)Cga>Aga	p.R82R	KTN1_ENST00000438792.2_Silent_p.R82R|KTN1_ENST00000395309.3_Silent_p.R82R|KTN1_ENST00000395308.1_Silent_p.R82R|KTN1_ENST00000413890.2_Silent_p.R82R|KTN1_ENST00000416613.1_Silent_p.R82R|KTN1_ENST00000395311.1_Silent_p.R82R	NM_001079521.1	NP_001072989.1	Q86UP2	KTN1_HUMAN	kinectin 1 (kinesin receptor)	82					microtubule-based movement (GO:0007018)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)			breast(4)|central_nervous_system(1)|large_intestine(8)|lung(1)|ovary(3)|skin(1)|upper_aerodigestive_tract(1)	19						GAGTGTACCTCGAGACTTTAA	0.363			T	RET	papillary thryoid																																		Dom	yes		14	14q22.1	3895	kinectin 1 (kinesin receptor)		E	0													74	78	77					14																	56079010		2203	4300	6503	SO:0001819	synonymous_variant	3895				CCDS41957.1, CCDS41958.1, CCDS41959.1	14q22.1	2008-05-02			ENSG00000126777	ENSG00000126777			6467	protein-coding gene	gene with protein product		600381				9605849	Standard	NM_001079521		Approved	KIAA0004, CG1	uc001xcc.3	Q86UP2	OTTHUMG00000140312	ENST00000395314.3:c.244C>A	14.37:g.56079010C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ88|Q13999|Q14707|Q15387|Q17RZ5|Q5GGW3|Q86W57	Silent	SNP	ENST00000395314.3	37	CCDS41957.1																																																																																				0.363	KTN1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000276912.2			A	56079010	C	A	56079010	2	1	575	1	0	0	0	0	0	0	0	1	8592	876	31	4		4	KTN1	14	56079010	Silent	SNP	C	TCGA-DZ-6132-01A-11D-1961-08		56079010	51270530	102	34092										
ANPEP	290	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	90349567	90349567	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tcagcgtcacccggtaggaaTcgggtttcagcgtgttgggg	16	9	3	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr15:90349567T>C	ENST00000300060.6	-	2	561	c.248A>G	c.(247-249)gAt>gGt	p.D83G		NM_001150.2	NP_001141.2	P15144	AMPN_HUMAN	alanyl (membrane) aminopeptidase	83	Metalloprotease.				angiogenesis (GO:0001525)|angiotensin maturation (GO:0002003)|cell differentiation (GO:0030154)|cellular protein metabolic process (GO:0044267)|viral process (GO:0016032)	endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|external side of plasma membrane (GO:0009897)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)	aminopeptidase activity (GO:0004177)|metallopeptidase activity (GO:0008237)|receptor activity (GO:0004872)|virus receptor activity (GO:0001618)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(10)|liver(1)|lung(20)|ovary(3)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(3)	57	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)|Icatibant(DB06196)	CCGGTAGGAATCGGGTTTCAG	0.617																																					NSCLC(30;827 977 2459 19669 26125)											0													126	102	110					15																	90349567		2200	4299	6499	SO:0001583	missense	290			M22324	CCDS10356.1	15q25-q26	2008-07-31	2008-07-31		ENSG00000166825	ENSG00000166825	3.4.11.2	"CD molecules"	500	protein-coding gene	gene with protein product	"aminopeptidase N", "aminopeptidase M", "microsomal aminopeptidase"	151530		CD13, PEPN		2428842, 1977688	Standard	NM_001150		Approved	LAP1, gp150, p150	uc002bop.4	P15144	OTTHUMG00000149814	ENST00000300060.6:c.248A>G	15.37:g.90349567T>C	ENSP00000300060:p.Asp83Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q16728|Q6GT90|Q8IUK3|Q8IVH3|Q9UCE0	Missense_Mutation	SNP	ENST00000300060.6	37	CCDS10356.1	.	.	.	.	.	.	.	.	.	.	T	6.216	0.408075	0.11754	.	.	ENSG00000166825	ENST00000300060	T	0.02631	4.22	4.74	0.264	0.15607	Peptidase M1, membrane alanine aminopeptidase, N-terminal (1);	2.111890	0.01982	N	0.044922	T	0.06096	0.0158	M	0.73962	2.25	0.09310	N	1	B	0.26672	0.156	B	0.33121	0.158	T	0.46359	-0.9197	10	0.23891	T	0.37	.	4.6468	0.12575	0.3933:0.0958:0.0:0.5109	.	83	P15144	AMPN_HUMAN	G	83	ENSP00000300060:D83G	ENSP00000300060:D83G	D	-	2	0	ANPEP	88150571	0.000000	0.05858	0.011000	0.14972	0.152000	0.21847	0.560000	0.23500	0.163000	0.19507	0.383000	0.25322	GAT		0.617	ANPEP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313425.1			C	90349567	T	C	90349567	3	2	575	1	0	0	0	0	1	0	0	0	710	1435	50	3	2735	3	ANPEP	15	90349567	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08		90349567	12181825	103	34093										
SV2B	9899	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	91769497	91769497	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	agtcgcagaaccaaggaatgGatgactacaagtatcaggac	11	8	1	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr15:91769497G>C	ENST00000394232.1	+	2	474	c.4G>C	c.(4-6)Gat>Cat	p.D2H	SV2B_ENST00000330276.4_Missense_Mutation_p.D2H|SV2B_ENST00000545111.2_Intron|SV2B_ENST00000557291.1_Intron	NM_014848.4	NP_055663.1	Q7L1I2	SV2B_HUMAN	synaptic vesicle glycoprotein 2B	2					neurotransmitter transport (GO:0006836)	cell junction (GO:0030054)|integral component of membrane (GO:0016021)|synaptic vesicle (GO:0008021)	transmembrane transporter activity (GO:0022857)			NS(1)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(10)|lung(17)|ovary(4)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	42	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)			CCAAGGAATGGATGACTACAA	0.478																																																0													72	58	63					15																	91769497		2198	4298	6496	SO:0001583	missense	9899			AB018278	CCDS10370.1, CCDS53972.1	15q26.1	2005-01-10			ENSG00000185518	ENSG00000185518			16874	protein-coding gene	gene with protein product		185861				9872452, 7681585	Standard	NM_014848		Approved	KIAA0735, HsT19680	uc002bqv.3	Q7L1I2	OTTHUMG00000149833	ENST00000394232.1:c.4G>C	15.37:g.91769497G>C	ENSP00000377779:p.Asp2His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DH30|C6G489|O94840|Q6IAR8	Missense_Mutation	SNP	ENST00000394232.1	37	CCDS10370.1	.	.	.	.	.	.	.	.	.	.	G	17.76	3.469419	0.63625	.	.	ENSG00000185518	ENST00000394232;ENST00000330276	T;T	0.64803	-0.12;-0.12	5.71	4.79	0.61399	.	0.237482	0.42821	D	0.000651	T	0.65249	0.2673	M	0.68317	2.08	0.48830	D	0.999714	P	0.37015	0.578	B	0.41988	0.372	T	0.69007	-0.5259	10	0.72032	D	0.01	-15.0004	13.3113	0.60382	0.077:0.0:0.923:0.0	.	2	Q7L1I2	SV2B_HUMAN	H	2	ENSP00000377779:D2H;ENSP00000332818:D2H	ENSP00000332818:D2H	D	+	1	0	SV2B	89570501	1.000000	0.71417	0.999000	0.59377	0.874000	0.50279	7.523000	0.81856	1.411000	0.46957	0.563000	0.77884	GAT		0.478	SV2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313494.3	NM_014848		C	91769497	G	C	91769497	3	2	575	1	0	0	0	0	1	0	0	0	15430	1174	41	4	6	4	SV2B	15	91769497	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	1419930	91769497	10761895	104	34094										
LMF1	64788	hgsc.bcm.edu	37	chr16	1004476	1004476	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	cccagtccgagaagagccagCaagtccaggttggagttcat	12	11	1	2	rs115313199	byFrequency	TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr16:1004476C>G	ENST00000262301.11	-	2	402	c.384G>C	c.(382-384)ttG>ttC	p.L128F	LMF1_ENST00000568897.1_5'UTR|LMF1_ENST00000399843.2_Missense_Mutation_p.L128F|LMF1_ENST00000539379.1_Missense_Mutation_p.L121F|LMF1_ENST00000543238.1_Intron	NM_022773.2	NP_073610.2	Q96S06	LMF1_HUMAN	lipase maturation factor 1	128					chylomicron remnant clearance (GO:0034382)|ER to Golgi vesicle-mediated transport (GO:0006888)|positive regulation of lipoprotein lipase activity (GO:0051006)|protein glycosylation in Golgi (GO:0033578)|protein maturation (GO:0051604)|protein secretion (GO:0009306)|regulation of cholesterol metabolic process (GO:0090181)|regulation of triglyceride metabolic process (GO:0090207)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(7)|ovary(1)|prostate(1)|stomach(2)|urinary_tract(1)	18		Hepatocellular(780;0.00308)				GAAGAGCCAGCAAGTCCAGGT	0.572													C|||	17	0.00339457	0.0129	0.0	5008	,	,		20549	0.0		0.0	False		,,,				2504	0.0															0								C	PHE/LEU	39,4147		0,39,2054	53	56	55		384	-6.8	0	16	dbSNP_132	55	0,8430		0,0,4215	yes	missense	LMF1	NM_022773.2	22	0,39,6269	GG,GC,CC		0.0,0.9317,0.3091	benign	128/568	1004476	39,12577	2093	4215	6308	SO:0001583	missense	64788			AK022743	CCDS45373.1	16p13.3	2008-02-05	2007-11-29	2007-11-29	ENSG00000103227	ENSG00000103227			14154	protein-coding gene	gene with protein product		611761	"chromosome 16 open reading frame 26", "transmembrane protein 112"	C16orf26, TMEM112		11157797, 17994020	Standard	NM_022773		Approved	FLJ12681, JFP11, FLJ22302, TMEM112A	uc021tae.1	Q96S06	OTTHUMG00000047848	ENST00000262301.11:c.384G>C	16.37:g.1004476C>G	ENSP00000262301:p.Leu128Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q68CJ3|Q96FJ4|Q9H6G4|Q9H9K7	Missense_Mutation	SNP	ENST00000262301.11	37	CCDS45373.1	8	0.003663003663003663	8	0.016260162601626018	0	0.0	0	0.0	0	0.0	C	0.528	-0.859205	0.02610	0.009317	0.0	ENSG00000103227	ENST00000262301;ENST00000399843;ENST00000539151;ENST00000539379	T;T;T	0.51817	2.3;2.29;0.69	5.56	-6.78	0.01721	.	1.259970	0.05289	N	0.520773	T	0.14098	0.0341	L	0.43701	1.375	0.09310	N	1	P	0.36392	0.551	B	0.30179	0.112	T	0.16188	-1.0411	10	0.10111	T	0.7	-23.3338	4.3889	0.11330	0.1188:0.3332:0.3649:0.183	.	128	Q96S06	LMF1_HUMAN	F	128;128;128;121	ENSP00000262301:L128F;ENSP00000382737:L128F;ENSP00000446322:L121F	ENSP00000262301:L128F	L	-	3	2	LMF1	944477	0.031000	0.19500	0.000000	0.03702	0.001000	0.01503	0.367000	0.20382	-0.830000	0.04262	-0.165000	0.13383	TTG		0.572	LMF1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000109071.3	NM_022773		G	1004476	C	G	1004476	3	3	575	1	0	0	0	0	1	0	0	0	8852	709	25	4	1359	4	LMF1	16	1004476	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08		1004476	89350277	105	34095										
RBBP6	5930	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	24582943	24582943	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aaataaaccaagggaagagaGagatttgcctaaaaaaggaa	10	4	0	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr16:24582943G>C	ENST00000319715.4	+	18	4988	c.4556G>C	c.(4555-4557)aGa>aCa	p.R1519T	RBBP6_ENST00000381039.3_Missense_Mutation_p.R679T|RBBP6_ENST00000348022.2_Missense_Mutation_p.R1485T	NM_006910.4	NP_008841.2	Q7Z6E9	RBBP6_HUMAN	retinoblastoma binding protein 6	1519	Interaction with p53. {ECO:0000250}.				embryonic organ development (GO:0048568)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|somite development (GO:0061053)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)	ligase activity (GO:0016874)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(10)|lung(17)|ovary(4)|pancreas(1)|prostate(2)|urinary_tract(1)	46				GBM - Glioblastoma multiforme(48;0.0518)		AGGGAAGAGAGAGATTTGCCT	0.358																																																0													40	39	39					16																	24582943		2197	4298	6495	SO:0001583	missense	5930				CCDS10621.1, CCDS10622.1, CCDS45444.1	16p12.2	2008-08-04	2001-11-28		ENSG00000122257	ENSG00000122257			9889	protein-coding gene	gene with protein product	"proliferation potential-related protein"	600938	"retinoblastoma-binding protein 6"			8595913, 16396680	Standard	NM_006910		Approved	P2P-R, PACT, SNAMA	uc002dmh.3	Q7Z6E9	OTTHUMG00000096991	ENST00000319715.4:c.4556G>C	16.37:g.24582943G>C	ENSP00000317872:p.Arg1519Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q147T5|Q15290|Q6DKH4|Q6P4C2|Q6YNC9|Q7Z6E8|Q8N0V2|Q96PH3|Q9H3I8|Q9H5M5|Q9NPX4	Missense_Mutation	SNP	ENST00000319715.4	37	CCDS10621.1	.	.	.	.	.	.	.	.	.	.	G	15.34	2.805084	0.50315	.	.	ENSG00000122257	ENST00000381039;ENST00000319715;ENST00000348022	T;T;T	0.19105	2.17;2.4;2.41	6.03	1.9	0.25705	.	0.190657	0.41396	D	0.000897	T	0.12475	0.0303	L	0.27053	0.805	0.27887	N	0.939455	P;B;B	0.39480	0.675;0.241;0.155	B;B;B	0.35550	0.205;0.148;0.071	T	0.12502	-1.0545	10	0.30078	T	0.28	-17.338	10.6299	0.45530	0.2533:0.0:0.7467:0.0	.	679;1485;1519	Q7Z6E9-4;Q7Z6E9-2;Q7Z6E9	.;.;RBBP6_HUMAN	T	679;1519;1485	ENSP00000370427:R679T;ENSP00000317872:R1519T;ENSP00000316291:R1485T	ENSP00000317872:R1519T	R	+	2	0	RBBP6	24490444	1.000000	0.71417	0.999000	0.59377	0.990000	0.78478	3.017000	0.49615	0.428000	0.26173	0.557000	0.71058	AGA		0.358	RBBP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214067.2	NM_006910		C	24582943	G	C	24582943	3	2	575	1	0	0	0	0	1	0	0	0	13116	942	33	4	4680	4	RBBP6	16	24582943	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	23578467	24582943	65771810	106	34096										
RPGRIP1L	23322	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	53691402	53691402	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ttttgtgttgcataattagcAtgtttcttgtcttttccagc	7	7	2	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr16:53691402A>G	ENST00000379925.3	-	13	1594	c.1544T>C	c.(1543-1545)aTg>aCg	p.M515T	RPGRIP1L_ENST00000564374.1_Missense_Mutation_p.M515T|RPGRIP1L_ENST00000563746.1_Missense_Mutation_p.M515T|RPGRIP1L_ENST00000262135.4_Missense_Mutation_p.M515T	NM_015272.2	NP_056087.2	Q68CZ1	FTM_HUMAN	RPGRIP1-like	515					camera-type eye development (GO:0043010)|cerebellum development (GO:0021549)|cilium assembly (GO:0042384)|corpus callosum development (GO:0022038)|determination of left/right symmetry (GO:0007368)|embryonic forelimb morphogenesis (GO:0035115)|embryonic hindlimb morphogenesis (GO:0035116)|establishment or maintenance of cell polarity (GO:0007163)|head development (GO:0060322)|in utero embryonic development (GO:0001701)|kidney development (GO:0001822)|lateral ventricle development (GO:0021670)|liver development (GO:0001889)|negative regulation of G-protein coupled receptor protein signaling pathway (GO:0045744)|neural tube patterning (GO:0021532)|nose development (GO:0043584)|olfactory bulb development (GO:0021772)|pericardium development (GO:0060039)|regulation of smoothened signaling pathway (GO:0008589)	axoneme (GO:0005930)|cell-cell junction (GO:0005911)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cilium (GO:0005929)|cytoplasm (GO:0005737)|tight junction (GO:0005923)	thromboxane A2 receptor binding (GO:0031870)			endometrium(6)|kidney(3)|large_intestine(9)|lung(19)|ovary(2)|prostate(2)|skin(1)|stomach(2)|urinary_tract(2)	46		all_cancers(37;0.0973)				CATAATTAGCATGTTTCTTGT	0.313																																																0													88	81	83					16																	53691402		2196	4300	6496	SO:0001583	missense	23322				CCDS32447.1, CCDS45486.1	16q12.2	2014-09-17				ENSG00000103494			29168	protein-coding gene	gene with protein product	"fantom homolog", "Meckel syndrome, type 5", "protein phosphatase 1, regulatory subunit 134"	610937				10231032	Standard	NM_015272		Approved	KIAA1005, CORS3, JBTS7, MKS5, NPHP8, FTM, PPP1R134	uc002ehp.3	Q68CZ1		ENST00000379925.3:c.1544T>C	16.37:g.53691402A>G	ENSP00000369257:p.Met515Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJ88|Q9Y2K8	Missense_Mutation	SNP	ENST00000379925.3	37	CCDS32447.1	.	.	.	.	.	.	.	.	.	.	A	21.4	4.138906	0.77775	.	.	ENSG00000103494	ENST00000379925;ENST00000262135	T;D	0.81579	-0.02;-1.51	6.04	6.04	0.98038	.	0.099515	0.64402	D	0.000001	D	0.87834	0.6277	M	0.72118	2.19	0.80722	D	1	D;D;D;D	0.76494	0.972;0.972;0.972;0.999	P;P;P;D	0.68765	0.632;0.706;0.706;0.96	D	0.86184	0.1608	10	0.30078	T	0.28	-18.3503	14.8183	0.70052	1.0:0.0:0.0:0.0	.	515;515;515;515	B4E3M8;B7ZKJ9;Q68CZ1;Q68CZ1-2	.;.;FTM_HUMAN;.	T	515	ENSP00000369257:M515T;ENSP00000262135:M515T	ENSP00000262135:M515T	M	-	2	0	RPGRIP1L	52248903	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	8.353000	0.90077	2.317000	0.78254	0.460000	0.39030	ATG		0.313	RPGRIP1L-009	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000422187.1	NM_015272		G	53691402	A	G	53691402	3	3	575	1	0	0	0	0	1	0	0	0	13563	217	8	3	2463	3	RPGRIP1L	16	53691402	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	29108459	53691402	36663351	107	34097										
ADAP2	55803	hgsc.bcm.edu;broad.mit.edu	37	chr17	29261211	29261211	+	Frame_Shift_Del	DEL	G	G	-													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ttgctgcttaaggtaaccgaGaaggattcctgtggaagcga							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr17:29261211delG	ENST00000330889.3	+	5	741	c.406delG	c.(406-408)gaafs	p.E136fs	ADAP2_ENST00000580525.1_Frame_Shift_Del_p.E142fs	NM_018404.2	NP_060874.1	Q9NPF8	ADAP2_HUMAN	ArfGAP with dual PH domains 2	136	PH 1. {ECO:0000255|PROSITE- ProRule:PRU00145}.				heart development (GO:0007507)|regulation of ARF GTPase activity (GO:0032312)	cytoplasm (GO:0005737)|mitochondrial envelope (GO:0005740)|plasma membrane (GO:0005886)	ARF GTPase activator activity (GO:0008060)|inositol 1,3,4,5 tetrakisphosphate binding (GO:0043533)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|protein binding, bridging (GO:0030674)|zinc ion binding (GO:0008270)	p.?(1)		breast(1)|endometrium(1)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)|skin(1)	13						AGGTAACCGAGAAGGATTCCT	0.478																																																1	Unknown(1)	central_nervous_system(1)											96	80	85					17																	29261211		2203	4300	6503	SO:0001589	frameshift_variant	55803			AJ238994	CCDS11261.1	17q11.2	2013-01-10	2008-09-22	2008-09-22	ENSG00000184060	ENSG00000184060		"ADP-ribosylation factor GTPase activating proteins", "Pleckstrin homology (PH) domain containing"	16487	protein-coding gene	gene with protein product		608635	"centaurin, alpha 2"	CENTA2			Standard	XM_005258008		Approved		uc002hfx.3	Q9NPF8	OTTHUMG00000132868	ENST00000330889.3:c.406delG	17.37:g.29261211delG	ENSP00000329468:p.Glu136fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N4Q6|Q96SD5	Frame_Shift_Del	DEL	ENST00000330889.3	37	CCDS11261.1																																																																																				0.478	ADAP2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000256346.1	NM_018404		-	29261211	G	-	29261211	7	5	575	1	0	1	0	1	0	0	0	0	280	943	33	0	424	0	ADAP2	17	29261211	Frame_Shift_Del	DEL	G	TCGA-DZ-6132-01A-11D-1961-08		29261211	51933999	108	34098										
AP2B1	163	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	33966737	33966737	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	attgacaatgcagatgagttActagaaagcttcctggaggg	12	6	0	4			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr17:33966737A>C	ENST00000262325.7	+	11	1948	c.1395A>C	c.(1393-1395)ttA>ttC	p.L465F	AP2B1_ENST00000545922.2_3'UTR|AP2B1_ENST00000589344.1_Missense_Mutation_p.L465F|AP2B1_ENST00000592545.1_Missense_Mutation_p.L427F|AP2B1_ENST00000538556.1_Missense_Mutation_p.L408F|AP2B1_ENST00000537622.2_Missense_Mutation_p.L465F|AP2B1_ENST00000312678.8_Missense_Mutation_p.L465F	NM_001282.2	NP_001273.1	P63010	AP2B1_HUMAN	adaptor-related protein complex 2, beta 1 subunit	465					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|axon guidance (GO:0007411)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|intracellular protein transport (GO:0006886)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of defense response to virus by virus (GO:0050690)|synaptic transmission (GO:0007268)|viral process (GO:0016032)	clathrin adaptor complex (GO:0030131)|clathrin-coated endocytic vesicle membrane (GO:0030669)|coated pit (GO:0005905)|cytosol (GO:0005829)|endocytic vesicle membrane (GO:0030666)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|plasma membrane (GO:0005886)	clathrin binding (GO:0030276)|protein transporter activity (GO:0008565)			NS(1)|breast(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(6)|ovary(3)|pancreas(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	28		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		CAGATGAGTTACTAGAAAGCT	0.433																																																0													113	110	111					17																	33966737		2203	4300	6503	SO:0001583	missense	163			M34175	CCDS32621.1, CCDS32622.1	17q11.2-q12	2010-06-18			ENSG00000006125	ENSG00000006125			563	protein-coding gene	gene with protein product		601025		ADTB2, CLAPB1		8262066, 8595912	Standard	XM_005257937		Approved		uc002hjq.3	P63010		ENST00000262325.7:c.1395A>C	17.37:g.33966737A>C	ENSP00000262325:p.Leu465Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJP3|P21851|Q7Z451|Q96J19	Missense_Mutation	SNP	ENST00000262325.7	37	CCDS32622.1	.	.	.	.	.	.	.	.	.	.	A	20.0	3.930330	0.73327	.	.	ENSG00000006125	ENST00000262325;ENST00000312678;ENST00000538556;ENST00000537622;ENST00000545922	T;T;T;T	0.29397	1.57;1.57;1.57;1.57	5.46	1.82	0.25136	Clathrin/coatomer adaptor, adaptin-like, N-terminal (1);Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.47060	0.1425	M	0.81942	2.565	0.80722	D	1	D;P;P;P	0.89917	1.0;0.576;0.905;0.613	D;P;B;B	0.81914	0.995;0.457;0.397;0.153	T	0.45687	-0.9244	10	0.51188	T	0.08	-0.0246	1.588	0.02648	0.5463:0.168:0.1231:0.1627	.	202;427;465;465	F5GYG9;B4DWG4;P63010;P63010-2	.;.;AP2B1_HUMAN;.	F	465;465;408;465;202	ENSP00000262325:L465F;ENSP00000314414:L465F;ENSP00000440563:L408F;ENSP00000437413:L465F	ENSP00000262325:L465F	L	+	3	2	AP2B1	30990850	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.991000	0.40727	0.954000	0.37851	0.533000	0.62120	TTA		0.433	AP2B1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000448969.1			C	33966737	A	C	33966737	3	2	575	1	0	0	0	0	1	0	0	0	741	388	14	5	1433	5	AP2B1	17	33966737	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	4705526	33966737	47228473	109	34099										
CBX1	10951	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	46152378	46152378	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gccgactcaccatttcatcaGgaacatgagctctccactgg	8	14	4	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr17:46152378G>A	ENST00000393408.3	-	4	883	c.403C>T	c.(403-405)Ctg>Ttg	p.L135L	CBX1_ENST00000225603.4_Silent_p.L135L|CBX1_ENST00000495350.1_Silent_p.L135L	NM_006807.4	NP_006798.1	P83916	CBX1_HUMAN	chromobox homolog 1	135	Chromo 2; shadow subtype. {ECO:0000255|PROSITE-ProRule:PRU00053}.				negative regulation of transcription, DNA-templated (GO:0045892)	chromatin (GO:0000785)|chromocenter (GO:0010369)|chromosome, centromeric region (GO:0000775)|female pronucleus (GO:0001939)|male pronucleus (GO:0001940)|nuclear heterochromatin (GO:0005720)|nucleoplasm (GO:0005654)|pericentric heterochromatin (GO:0005721)|spindle (GO:0005819)	chromatin binding (GO:0003682)|enzyme binding (GO:0019899)|histone methyltransferase binding (GO:1990226)			breast(1)|central_nervous_system(1)|kidney(1)|prostate(1)	4						CATTTCATCAGGAACATGAGC	0.483																																					NSCLC(136;694 2497 38792 39034)											0													137	138	138					17																	46152378		2203	4300	6503	SO:0001819	synonymous_variant	10951			U35451	CCDS11525.1	17q21.32	2010-07-06	2010-06-24		ENSG00000108468	ENSG00000108468			1551	protein-coding gene	gene with protein product	"HP1 beta homolog (Drosophila )"	604511	"chromobox homolog 1 (Drosophila HP1 beta)"			9169582	Standard	NM_001127228		Approved	HP1Hs-beta, M31, MOD1, CBX, HP1-BETA	uc002ind.4	P83916	OTTHUMG00000150417	ENST00000393408.3:c.403C>T	17.37:g.46152378G>A		Somatic		WXS	Illumina HiSeq	Phase_I	P23197	Silent	SNP	ENST00000393408.3	37	CCDS11525.1																																																																																				0.483	CBX1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318016.1	NM_006807		A	46152378	G	A	46152378	2	1	575	1	0	0	0	0	0	0	0	1	2719	991	35	2		2	CBX1	17	46152378	Silent	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	12185641	46152378	35042832	110	34100										
MTMR4	9110	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	56572475	56572475	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aaaggggagtccatcatcatCcaaatacagaggaggcactg	11	9	2	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr17:56572475C>T	ENST00000323456.5	-	16	3152	c.3028G>A	c.(3028-3030)Gat>Aat	p.D1010N	MTMR4_ENST00000579925.1_Missense_Mutation_p.D953N	NM_004687.4	NP_004678.3	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	1010					negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phospholipid metabolic process (GO:0006644)|protein dephosphorylation (GO:0006470)|response to denervation involved in regulation of muscle adaptation (GO:0014894)|small molecule metabolic process (GO:0044281)|transforming growth factor beta receptor signaling pathway (GO:0007179)	cytosol (GO:0005829)|early endosome membrane (GO:0031901)|extracellular space (GO:0005615)	metal ion binding (GO:0046872)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)			breast(10)|endometrium(2)|kidney(2)|large_intestine(5)|lung(12)|skin(5)	36	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CCATCATCATCCAAATACAGA	0.512																																																0													204	179	187					17																	56572475		2203	4300	6503	SO:0001583	missense	9110			AB014547	CCDS11608.1	17q22-q23	2011-06-09				ENSG00000108389		"Zinc fingers, FYVE domain containing", "Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	7452	protein-coding gene	gene with protein product		603559				9736772	Standard	NM_004687		Approved	KIAA0647, ZFYVE11	uc002iwj.2	Q9NYA4		ENST00000323456.5:c.3028G>A	17.37:g.56572475C>T	ENSP00000325285:p.Asp1010Asn	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTZ6|Q8IV27|Q9Y4D5	Missense_Mutation	SNP	ENST00000323456.5	37	CCDS11608.1	.	.	.	.	.	.	.	.	.	.	C	25.9	4.689025	0.88735	.	.	ENSG00000108389	ENST00000323456	D	0.96885	-4.16	5.58	5.58	0.84498	.	0.000000	0.85682	D	0.000000	D	0.97626	0.9222	L	0.58101	1.795	0.48452	D	0.999659	D	0.89917	1.0	D	0.85130	0.997	D	0.98181	1.0457	10	0.66056	D	0.02	.	18.5538	0.91075	0.0:1.0:0.0:0.0	.	1010	Q9NYA4	MTMR4_HUMAN	N	1010	ENSP00000325285:D1010N	ENSP00000325285:D1010N	D	-	1	0	MTMR4	53927474	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	7.104000	0.77024	2.627000	0.88993	0.555000	0.69702	GAT		0.512	MTMR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444721.1	NM_004687		T	56572475	C	T	56572475	3	4	575	1	0	0	0	0	1	0	0	0	9953	855	30	2	575	2	MTMR4	17	56572475	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	10420097	56572475	24622735	111	34101										
CLTC	1213	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	57771125	57771125	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gctgacagcaggacccagtgTtgccgtccctccccaggcac	11	17	0	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr17:57771125T>C	ENST00000269122.3	+	32	5214	c.4940T>C	c.(4939-4941)gTt>gCt	p.V1647A	CLTC_ENST00000579456.1_Missense_Mutation_p.V584A	NM_004859.3	NP_004850.1	Q00610	CLH1_HUMAN	clathrin, heavy chain (Hc)	1647	Heavy chain arm.|Proximal segment.|Trimerization. {ECO:0000250}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|intracellular protein transport (GO:0006886)|membrane organization (GO:0061024)|mitotic nuclear division (GO:0007067)|negative regulation of hyaluronan biosynthetic process (GO:1900126)|negative regulation of protein localization to plasma membrane (GO:1903077)|osteoblast differentiation (GO:0001649)|post-Golgi vesicle-mediated transport (GO:0006892)|receptor internalization (GO:0031623)|receptor-mediated endocytosis (GO:0006898)|transferrin transport (GO:0033572)	clathrin coat (GO:0030118)|clathrin coat of coated pit (GO:0030132)|clathrin coat of trans-Golgi network vesicle (GO:0030130)|clathrin complex (GO:0071439)|clathrin-coated endocytic vesicle membrane (GO:0030669)|clathrin-coated vesicle (GO:0030136)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|spindle (GO:0005819)|trans-Golgi network membrane (GO:0032588)|vesicle (GO:0031982)	clathrin light chain binding (GO:0032051)|double-stranded RNA binding (GO:0003725)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)|structural molecule activity (GO:0005198)		CLTC/ALK(44)|CLTC/TFE3(2)	breast(2)|large_intestine(6)|ovary(1)	9	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					GGACCCAGTGTTGCCGTCCCT	0.557			T	"ALK, TFE3"	"ALCL, renal "																																		Dom	yes		17	17q11-qter	1213	"clathrin, heavy polypeptide (Hc)"		L	0													144	116	125					17																	57771125		2203	4300	6503	SO:0001583	missense	1213			X55878	CCDS32696.1, CCDS74115.1	17q23.1	2013-09-19	2006-09-29		ENSG00000141367	ENSG00000141367			2092	protein-coding gene	gene with protein product		118955	"clathrin, heavy polypeptide (Hc)", "clathrin, heavy chain", "clathrin, heavy polypeptide-like 2"	CLTCL2		1765375, 7584026	Standard	NM_004859		Approved	Hc	uc002ixq.1	Q00610	OTTHUMG00000134279	ENST00000269122.3:c.4940T>C	17.37:g.57771125T>C	ENSP00000269122:p.Val1647Ala	Somatic		WXS	Illumina HiSeq	Phase_I	D3DU00|Q6N0A0|Q86TF2	Missense_Mutation	SNP	ENST00000269122.3	37	CCDS32696.1	.	.	.	.	.	.	.	.	.	.	T	12.39	1.923961	0.34002	.	.	ENSG00000141367	ENST00000269122	T	0.10668	2.85	6.08	6.08	0.98989	.	0.052581	0.85682	D	0.000000	T	0.07728	0.0194	N	0.14661	0.345	0.80722	D	1	B	0.13145	0.007	B	0.12156	0.007	T	0.36212	-0.9757	10	0.14252	T	0.57	.	16.6438	0.85155	0.0:0.0:0.0:1.0	.	1647	Q00610	CLH1_HUMAN	A	1647	ENSP00000269122:V1647A	ENSP00000269122:V1647A	V	+	2	0	CLTC	55125907	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.162000	0.71874	2.333000	0.79357	0.533000	0.62120	GTT		0.557	CLTC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258859.1	NM_004859		C	57771125	T	C	57771125	3	2	575	1	0	0	0	0	1	0	0	0	3568	1725	60	3	5066	3	CLTC	17	57771125	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	1198650	57771125	23424085	112	34102										
INTS2	57508	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	59945081	59945082	+	In_Frame_Ins	INS	-	-	GAA													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tggtttctcctttatttgttINSgaagacctacaacataaggg							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr17:59945081_59945082insGAA	ENST00000444766.3	-	25	3526_3527	c.3451_3452insTTC	c.(3451-3453)caa>cTTCaa	p.1150_1151insL	INTS2_ENST00000251334.6_In_Frame_Ins_p.1142_1143insL	NM_020748.2	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2	1150					snRNA processing (GO:0016180)	integral component of membrane (GO:0016021)|integrator complex (GO:0032039)|intracellular (GO:0005622)|membrane (GO:0016020)				NS(1)|breast(2)|cervix(2)|endometrium(3)|kidney(2)|large_intestine(6)|lung(15)|ovary(1)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	38						CTTTATTTGTTGAAGACCTACA	0.351																																																0																																										SO:0001652	inframe_insertion	57508			AB033113	CCDS45750.1	17q23.2	2006-04-26	2006-03-15	2006-03-15		ENSG00000108506			29241	protein-coding gene	gene with protein product		611346	"KIAA1287"	KIAA1287		16239144	Standard	NR_026641		Approved	INT2	uc002izn.3	Q9H0H0		ENST00000444766.3:c.3449_3451dupTTC	17.37:g.59945082_59945084dupGAA	ENSP00000414237:p.Leu1150_Leu1150dup	Somatic		WXS	Illumina HiSeq	Phase_I	Q9ULD3	In_Frame_Ins	INS	ENST00000444766.3	37	CCDS45750.1																																																																																				0.351	INTS2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000445368.1	NM_020748		GAA	59945082	-	GAA	59945081	7	5	575	1	0	1	1	0	0	0	0	0	7785	1812	63	0	166	0	INTS2	17	59945081	In_Frame_Ins	INS	-	TCGA-DZ-6132-01A-11D-1961-08	2173956	59945081	21250129	113	34103										
ACE	1636	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	61570904	61570904	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	agacttacctgtggccttgaGggagggtgccaaccccggct	14	12	0	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr17:61570904G>T	ENST00000290866.4	+	20	3044	c.3020G>T	c.(3019-3021)aGg>aTg	p.R1007M	ACE_ENST00000490216.2_Missense_Mutation_p.R433M|ACE_ENST00000577647.1_Missense_Mutation_p.R433M|ACE_ENST00000428043.1_Missense_Mutation_p.R1007M|ACE_ENST00000290863.6_Missense_Mutation_p.R433M|ACE_ENST00000421982.2_Missense_Mutation_p.R253M|ACE_ENST00000413513.3_Missense_Mutation_p.R433M	NM_000789.3	NP_000780.1	P12821	ACE_HUMAN	angiotensin I converting enzyme	1007	Peptidase M2 2.				angiotensin catabolic process in blood (GO:0002005)|angiotensin maturation (GO:0002003)|arachidonic acid secretion (GO:0050482)|blood vessel remodeling (GO:0001974)|cellular protein metabolic process (GO:0044267)|hematopoietic stem cell differentiation (GO:0060218)|hormone catabolic process (GO:0042447)|kidney development (GO:0001822)|mononuclear cell proliferation (GO:0032943)|peptide catabolic process (GO:0043171)|regulation of blood pressure (GO:0008217)|regulation of renal output by angiotensin (GO:0002019)|regulation of smooth muscle cell migration (GO:0014910)|regulation of systemic arterial blood pressure by renin-angiotensin (GO:0003081)|regulation of vasoconstriction (GO:0019229)|regulation of vasodilation (GO:0042312)	endosome (GO:0005768)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	actin binding (GO:0003779)|bradykinin receptor binding (GO:0031711)|carboxypeptidase activity (GO:0004180)|chloride ion binding (GO:0031404)|drug binding (GO:0008144)|endopeptidase activity (GO:0004175)|metallopeptidase activity (GO:0008237)|peptidyl-dipeptidase activity (GO:0008241)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(2)|endometrium(5)|kidney(3)|large_intestine(3)|lung(22)|ovary(6)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	51					Benazepril(DB00542)|Candoxatril(DB00616)|Captopril(DB01197)|Cilazapril(DB01340)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	GTGGCCTTGAGGGAGGGTGCC	0.582																																																0													80	74	76					17																	61570904		2203	4300	6503	SO:0001583	missense	1636			J04144	CCDS11637.1, CCDS45755.1, CCDS54155.1	17q23.3	2013-06-12	2013-06-12		ENSG00000159640	ENSG00000159640	3.4.15.1	"CD molecules"	2707	protein-coding gene	gene with protein product	"peptidyl-dipeptidase A"	106180	"angiotensin I converting enzyme (peptidyl-dipeptidase A) 1"	DCP1		2554286, 10319862	Standard	NM_001178057		Approved	ACE1, CD143	uc002jau.2	P12821	OTTHUMG00000154927	ENST00000290866.4:c.3020G>T	17.37:g.61570904G>T	ENSP00000290866:p.Arg1007Met	Somatic		WXS	Illumina HiSeq	Phase_I	B0LPF0|B4DXI3|E7EU16|P22966|Q53YX9|Q59GY8|Q7M4L4	Missense_Mutation	SNP	ENST00000290866.4	37	CCDS11637.1	.	.	.	.	.	.	.	.	.	.	G	14.72	2.618950	0.46736	.	.	ENSG00000159640	ENST00000290866;ENST00000428043;ENST00000290863;ENST00000413513;ENST00000421982	T;T;T;T;T	0.49139	0.79;0.79;0.79;0.79;0.79	4.91	4.91	0.64330	.	0.000000	0.85682	D	0.000000	T	0.80628	0.4659	H	0.97340	3.985	0.80722	D	1	D;D;D;D	0.89917	1.0;0.996;0.999;1.0	D;D;D;D	0.97110	0.992;0.976;0.986;1.0	D	0.88380	0.3001	10	0.87932	D	0	-34.8796	18.0898	0.89471	0.0:0.0:1.0:0.0	.	253;433;433;1007	F6X3S4;B4DXI3;P12821-3;P12821	.;.;.;ACE_HUMAN	M	1007;1007;433;433;253	ENSP00000290866:R1007M;ENSP00000397593:R1007M;ENSP00000290863:R433M;ENSP00000392247:R433M;ENSP00000387760:R253M	ENSP00000290863:R433M	R	+	2	0	ACE	58924636	1.000000	0.71417	0.966000	0.40874	0.792000	0.44763	7.975000	0.88055	2.262000	0.75019	0.561000	0.74099	AGG		0.582	ACE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337675.2			T	61570904	G	T	61570904	3	4	575	1	0	0	0	0	1	0	0	0	136	1000	35	4	3301	4	ACE	17	61570904	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	1625823	61570904	19624306	114	34104										
TMC8	147138	broad.mit.edu;bcgsc.ca	37	chr17	76133812	76133812	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ccccagtgctgggagaactcCgtgggggaggagctgtacaa	16	10	0	1	rs375990572		TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr17:76133812C>T	ENST00000318430.5	+	11	1640	c.1266C>T	c.(1264-1266)tcC>tcT	p.S422S	TMC8_ENST00000589691.1_Silent_p.S199S	NM_152468.4	NP_689681.2	Q8IU68	TMC8_HUMAN	transmembrane channel-like 8	422					ion transport (GO:0006811)|negative regulation of protein binding (GO:0032091)|negative regulation of protein oligomerization (GO:0032460)|regulation of cell growth (GO:0001558)|regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902041)|zinc ion homeostasis (GO:0055069)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nuclear membrane (GO:0031965)	receptor binding (GO:0005102)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	12			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)|OV - Ovarian serous cystadenocarcinoma(97;0.192)			GGGAGAACTCCGTGGGGGAGG	0.642																																																0								C		2,4404	4.2+/-10.8	0,2,2201	114	100	104		1266	-8.6	0.9	17		104	0,8600		0,0,4300	no	coding-synonymous	TMC8	NM_152468.4		0,2,6501	TT,TC,CC		0.0,0.0454,0.0154		422/727	76133812	2,13004	2203	4300	6503	SO:0001819	synonymous_variant	147138			AY057380	CCDS32749.1	17q25.3	2014-09-17	2005-11-10	2005-11-10	ENSG00000167895	ENSG00000167895			20474	protein-coding gene	gene with protein product		605829	"epidermodysplasia verruciformis 2"	EVER2		12426567	Standard	NM_152468		Approved	EVIN2	uc002jup.2	Q8IU68		ENST00000318430.5:c.1266C>T	17.37:g.76133812C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2YDC0|Q8IWU7|Q8N358|Q8NF04	Silent	SNP	ENST00000318430.5	37	CCDS32749.1																																																																																				0.642	TMC8-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000436900.3			T	76133812	C	T	76133812	2	4	575	1	0	0	0	0	0	0	0	1	16003	639	23	1		1	TMC8	17	76133812	Silent	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	14562908	76133812	5061398	115	34105										
BAIAP2	10458	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	79082274	79082274	+	Splice_Site	DEL	G	G	-													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tgtttctgcctctgcccccaGggcctggatgactatggagc							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr17:79082274delG	ENST00000321300.6	+	13	1593		c.e13-1		BAIAP2_ENST00000321280.7_Splice_Site|BAIAP2_ENST00000435091.3_Splice_Site|BAIAP2_ENST00000416299.2_Splice_Site|BAIAP2_ENST00000392411.3_Splice_Site|BAIAP2_ENST00000575245.1_Splice_Site|BAIAP2_ENST00000428708.2_Splice_Site|BAIAP2_ENST00000575712.1_Splice_Site	NM_001144888.1|NM_017451.2	NP_001138360.1|NP_059345.1	Q9UQB8	BAIP2_HUMAN	BAI1-associated protein 2						actin crosslink formation (GO:0051764)|actin filament bundle assembly (GO:0051017)|axonogenesis (GO:0007409)|dendrite development (GO:0016358)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|filopodium assembly (GO:0046847)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of cell shape (GO:0008360)|regulation of synaptic plasticity (GO:0048167)|response to bacterium (GO:0009617)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)	cytoskeletal adaptor activity (GO:0008093)|identical protein binding (GO:0042802)|proline-rich region binding (GO:0070064)|protein C-terminus binding (GO:0008022)			breast(1)|central_nervous_system(2)|endometrium(3)|kidney(2)|large_intestine(3)|lung(6)|skin(1)	18	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			TCTGCCCCCAGGGCCTGGATG	0.637																																																0													72	70	71					17																	79082274		2203	4300	6503	SO:0001630	splice_region_variant	10458			AB015019	CCDS11775.1, CCDS11776.1, CCDS11777.1, CCDS45806.1	17q25.3	2014-09-11			ENSG00000175866				947	protein-coding gene	gene with protein product		605475				10343108	Standard	NM_017451		Approved	BAP2	uc002jzg.2	Q9UQB8	OTTHUMG00000177698	ENST00000321300.6:c.1501-1G>-	17.37:g.79082274delG		Somatic		WXS	Illumina HiSeq	Phase_I	O43858|Q53HB1|Q86WC1|Q8N5C0|Q96CR7|Q9UBR3|Q9UQ43	Splice_Site	DEL	ENST00000321300.6	37	CCDS11775.1																																																																																				0.637	BAIAP2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000438553.1		Intron	-	79082274	G	-	79082274	8	5	575	1	0	1	0	1	0	0	1	0	1301	1014	35	0	1550	0	BAIAP2	17	79082274	Splice_Site	DEL	G	TCGA-DZ-6132-01A-11D-1961-08	2948462	79082274	2112936	116	34106										
DYM	54808	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	46956680	46956680	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ctgattccagaacgggtcatTctcagagatagattccgtgc	10	10	2	4			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr18:46956680T>G	ENST00000269445.6	-	2	542	c.85A>C	c.(85-87)Aat>Cat	p.N29H	DYM_ENST00000442713.2_Missense_Mutation_p.N29H|DYM_ENST00000584977.1_5'UTR|RP11-110H1.9_ENST00000583579.1_RNA	NM_017653.3	NP_060123.3	Q7RTS9	DYM_HUMAN	dymeclin	29					bone development (GO:0060348)|Golgi organization (GO:0007030)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)	enzyme binding (GO:0019899)			NS(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(6)|skin(1)|upper_aerodigestive_tract(1)	18						AACGGGTCATTCTCAGAGATA	0.423																																																0													147	146	146					18																	46956680		2203	4300	6503	SO:0001583	missense	54808			AK000078	CCDS11937.1	18q21.1	2008-03-12			ENSG00000141627	ENSG00000141627			21317	protein-coding gene	gene with protein product		607461					Standard	NM_017653		Approved	FLJ20071, DMC, SMC	uc002ldi.1	Q7RTS9	OTTHUMG00000132659	ENST00000269445.6:c.85A>C	18.37:g.46956680T>G	ENSP00000269445:p.Asn29His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5I8|B2RCF9|B4DKI7|Q3ZTS8|Q6P2P5|Q8N2M0|Q9BVE9|Q9NPU7	Missense_Mutation	SNP	ENST00000269445.6	37	CCDS11937.1	.	.	.	.	.	.	.	.	.	.	T	14.56	2.571437	0.45798	.	.	ENSG00000141627	ENST00000442713;ENST00000269445	D;D	0.82893	-1.66;-1.66	5.87	5.87	0.94306	.	0.000000	0.85682	D	0.000000	D	0.90841	0.7123	M	0.78801	2.425	0.80722	D	1	D;D	0.76494	0.997;0.999	D;D	0.78314	0.991;0.983	D	0.91823	0.5469	10	0.87932	D	0	-23.1803	15.1469	0.72662	0.0:0.0:0.0:1.0	.	29;29	Q7RTS9-2;Q7RTS9	.;DYM_HUMAN	H	29	ENSP00000395942:N29H;ENSP00000269445:N29H	ENSP00000269445:N29H	N	-	1	0	DYM	45210678	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.007000	0.76335	2.371000	0.80710	0.533000	0.62120	AAT		0.423	DYM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255912.3	NM_017653		G	46956680	T	G	46956680	3	3	575	1	0	0	0	0	1	0	0	0	4842	1783	62	5	1988	5	DYM	18	46956680	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08		46956680	31120568	117	34107										
SERPINB2	5055	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	61562567	61562567	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	cagagaactttaccagctgtGggttcatgcagcagatccag	11	10	1	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr18:61562567G>T	ENST00000299502.4	+	3	318	c.238G>T	c.(238-240)Ggg>Tgg	p.G80W	SERPINB2_ENST00000457692.1_Missense_Mutation_p.G80W|SERPINB2_ENST00000482254.1_3'UTR	NM_002575.2	NP_002566.1	P05120	PAI2_HUMAN	serpin peptidase inhibitor, clade B (ovalbumin), member 2	80					blood coagulation (GO:0007596)|fibrinolysis (GO:0042730)|negative regulation of apoptotic process (GO:0043066)|negative regulation of endopeptidase activity (GO:0010951)|regulation of proteolysis (GO:0030162)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|plasma membrane (GO:0005886)	serine-type endopeptidase inhibitor activity (GO:0004867)	p.G80W(1)		NS(1)|central_nervous_system(2)|endometrium(4)|large_intestine(7)|liver(1)|lung(12)|prostate(2)|skin(2)|stomach(1)	32		Esophageal squamous(42;0.131)			Tenecteplase(DB00031)|Urokinase(DB00013)	TACCAGCTGTGGGTTCATGCA	0.428																																																1	Substitution - Missense(1)	lung(1)											182	179	180					18																	61562567		2203	4300	6503	SO:0001583	missense	5055			Y00630	CCDS11989.1	18q21.3	2014-02-18	2005-08-18		ENSG00000197632	ENSG00000197632		"Serine (or cysteine) peptidase inhibitors"	8584	protein-coding gene	gene with protein product		173390	"serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 2"	PLANH2, PAI2		24172014	Standard	NM_002575		Approved	HsT1201	uc002ljo.3	P05120	OTTHUMG00000060592	ENST00000299502.4:c.238G>T	18.37:g.61562567G>T	ENSP00000299502:p.Gly80Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q96E96	Missense_Mutation	SNP	ENST00000299502.4	37	CCDS11989.1	.	.	.	.	.	.	.	.	.	.	G	11.67	1.706601	0.30232	.	.	ENSG00000197632	ENST00000404622;ENST00000299502;ENST00000457692;ENST00000413956;ENST00000443281	D;D;D;D;T	0.84370	-1.69;-1.84;-1.84;-1.66;-1.22	5.93	3.15	0.36227	Serpin domain (3);	423.867000	0.00589	U	0.000342	D	0.82889	0.5135	N	0.22421	0.69	0.09310	N	0.999995	P	0.48407	0.91	P	0.49887	0.625	T	0.68830	-0.5305	10	0.66056	D	0.02	.	6.0059	0.19547	0.1669:0.1564:0.6767:0.0	.	80	P05120	PAI2_HUMAN	W	80	ENSP00000385397:G80W;ENSP00000299502:G80W;ENSP00000401645:G80W;ENSP00000402386:G80W;ENSP00000397096:G80W	ENSP00000299502:G80W	G	+	1	0	SERPINB2	59713547	0.006000	0.16342	0.053000	0.19242	0.146000	0.21551	-0.154000	0.10130	0.391000	0.25143	0.655000	0.94253	GGG		0.428	SERPINB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000134009.1	NM_002575		T	61562567	G	T	61562567	3	4	575	1	0	0	0	0	1	0	0	0	14114	1348	47	4	244	4	SERPINB2	18	61562567	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	14605887	61562567	16514681	118	34108										
SOCS6	9306	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr18	67992496	67992496	+	Frame_Shift_Del	DEL	A	A	-													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tgaagagctcggcttctcatAatggagacctgcatcttcac							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr18:67992496delA	ENST00000397942.3	+	2	908	c.592delA	c.(592-594)aatfs	p.N198fs	SOCS6_ENST00000582322.1_Frame_Shift_Del_p.N198fs	NM_004232.3	NP_004223.2	O14544	SOCS6_HUMAN	suppressor of cytokine signaling 6	198					defense response (GO:0006952)|JAK-STAT cascade (GO:0007259)|negative regulation of signal transduction (GO:0009968)|negative regulation of T cell activation (GO:0050868)|proteasomal protein catabolic process (GO:0010498)|protein ubiquitination (GO:0016567)|regulation of growth (GO:0040008)	cytoplasm (GO:0005737)|immunological synapse (GO:0001772)				NS(1)|breast(2)|endometrium(1)|kidney(2)|large_intestine(4)|lung(9)|ovary(1)|prostate(2)	22		Esophageal squamous(42;0.129)|Colorectal(73;0.152)				GGCTTCTCATAATGGAGACCT	0.512																																					Melanoma(84;1024 1361 24382 36583 42651)											0													108	94	99					18																	67992496		2203	4300	6503	SO:0001589	frameshift_variant	9306			AB006968	CCDS11998.1	18q22	2013-02-14	2004-02-25	2004-02-27	ENSG00000170677	ENSG00000170677		"Suppressors of cytokine signaling", "SH2 domain containing"	16833	protein-coding gene	gene with protein product		605118	"suppressor of cytokine signaling 4"	SOCS4		9344848, 11042152	Standard	NM_004232		Approved	CIS4, SSI4, HSPC060, STATI4, STAI4, Cish4	uc002lkr.1	O14544	OTTHUMG00000132816	ENST00000397942.3:c.592delA	18.37:g.67992496delA	ENSP00000381034:p.Asn198fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WUM3	Frame_Shift_Del	DEL	ENST00000397942.3	37	CCDS11998.1																																																																																				0.512	SOCS6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256270.2			-	67992496	A	-	67992496	7	5	575	1	0	1	0	1	0	0	0	0	14931	362	13	0	594	0	SOCS6	18	67992496	Frame_Shift_Del	DEL	A	TCGA-DZ-6132-01A-11D-1961-08	6429929	67992496	10084752	119	34109										
HNRNPM	4670	ucsc.edu	37	chr19	8527467	8527467	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	cgctgaaggaaagtcaagggTaagtgtctgagagaatttct	13	5	3	3			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:8527467T>G	ENST00000325495.4	+	3	377		c.e3+2		HNRNPM_ENST00000348943.3_Splice_Site	NM_005968.4	NP_005959.2	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M						alternative mRNA splicing, via spliceosome (GO:0000380)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|extracellular matrix (GO:0031012)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|paraspeckles (GO:0042382)|spliceosomal complex (GO:0005681)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein domain specific binding (GO:0019904)|RNA binding (GO:0003723)			endometrium(5)|kidney(2)|large_intestine(7)|lung(10)|ovary(1)	25						AAGTCAAGGGTAAGTGTCTGA	0.428																																																0													241	220	227					19																	8527467		2203	4300	6503	SO:0001630	splice_region_variant	4670			L03532	CCDS12203.1, CCDS12204.1	19p13.2	2013-06-12		2008-04-18	ENSG00000099783	ENSG00000099783		"RNA binding motif (RRM) containing"	5046	protein-coding gene	gene with protein product	"CEA receptor"	160994		NAGR1, HNRPM		8441656, 7558047	Standard	NM_005968		Approved	HTGR1, HNRNPM4, HNRPM4, CEAR	uc010dwe.3	P52272	OTTHUMG00000182383	ENST00000325495.4:c.336+2T>G	19.37:g.8527467T>G		Somatic		WXS	Illumina HiSeq		Q15584|Q8WZ44|Q96H56|Q9BWL9|Q9Y492	Splice_Site	SNP	ENST00000325495.4	37	CCDS12203.1	.	.	.	.	.	.	.	.	.	.	T	18.24	3.580056	0.65992	.	.	ENSG00000099783	ENST00000325495;ENST00000348943	.	.	.	5.82	5.82	0.92795	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.0018	0.71479	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	HNRNPM	8433467	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.698000	0.84413	2.225000	0.72522	0.459000	0.35465	.		0.428	HNRNPM-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000460894.1		Intron	G	8527467	T	G	8527467	5	3	575	1	0	0	0	0	0	0	1	0	7278	1652	57	5	348	5	HNRNPM	19	8527467	Splice_Site	SNP	T	TCGA-DZ-6132-01A-11D-1961-08		8527467	50601516	120	34110										
ZNF699	374879	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	9406673	9406673	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tcatactgtatctttccagtGtgatctctcacatgtgctct	6	11	5	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:9406673G>C	ENST00000591998.1	-	6	1635	c.1407C>G	c.(1405-1407)caC>caG	p.H469Q	ZNF699_ENST00000308650.3_Missense_Mutation_p.H469Q|CTC-325H20.4_ENST00000591336.1_RNA			Q32M78	ZN699_HUMAN	zinc finger protein 699	469					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(7)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	24						TCTTTCCAGTGTGATCTCTCA	0.458																																																0													60	64	63					19																	9406673		2200	4296	6496	SO:0001583	missense	374879			BC109268	CCDS42495.1	19p13.2	2013-01-08				ENSG00000196110		"Zinc fingers, C2H2-type", "-"	24750	protein-coding gene	gene with protein product	hangover homolog (Drosophila)	609571				16940975	Standard	NM_198535		Approved	FLJ38144, hang	uc002mlc.1	Q32M78		ENST00000591998.1:c.1407C>G	19.37:g.9406673G>C	ENSP00000467723:p.His469Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N9A1	Missense_Mutation	SNP	ENST00000591998.1	37	CCDS42495.1	.	.	.	.	.	.	.	.	.	.	g	13.65	2.301105	0.40694	.	.	ENSG00000196110	ENST00000308650	T	0.66995	-0.24	3.28	-0.0525	0.13822	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.39407	N	0.001377	T	0.80008	0.4545	M	0.90425	3.115	0.24473	N	0.994389	D	0.71674	0.998	D	0.75484	0.986	T	0.68796	-0.5314	10	0.87932	D	0	.	5.9659	0.19325	0.4949:0.0:0.5051:0.0	.	469	Q32M78	ZN699_HUMAN	Q	469	ENSP00000311596:H469Q	ENSP00000311596:H469Q	H	-	3	2	ZNF699	9267673	0.909000	0.30893	0.019000	0.16419	0.771000	0.43674	0.275000	0.18698	0.085000	0.17107	0.550000	0.68814	CAC		0.458	ZNF699-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449010.1	NM_198535		C	9406673	G	C	9406673	3	2	575	1	0	0	0	0	1	0	0	0	18113	1368	48	4	525	4	ZNF699	19	9406673	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	879206	9406673	49722310	121	34111										
ICAM5	7087	ucsc.edu	37	chr19	10402464	10402464	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	tgtttgaaaacagctcggccCccagagagctccgaaccttc	9	14	0	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:10402464C>A	ENST00000221980.4	+	3	715	c.652C>A	c.(652-654)Ccc>Acc	p.P218T	CTD-2369P2.8_ENST00000589379.1_RNA	NM_003259.3	NP_003250.3	Q9UMF0	ICAM5_HUMAN	intercellular adhesion molecule 5, telencephalin	218	Ig-like C2-type 2.				phagocytosis (GO:0006909)|single organismal cell-cell adhesion (GO:0016337)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)				breast(3)|endometrium(2)|kidney(1)|large_intestine(4)|lung(8)|prostate(2)|upper_aerodigestive_tract(1)	21			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			CAGCTCGGCCCCCAGAGAGCT	0.602																																																0													19	24	22					19																	10402464		2096	4145	6241	SO:0001583	missense	7087			U72671	CCDS12233.1	19p13.2	2013-01-14				ENSG00000105376		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5348	protein-coding gene	gene with protein product	"telencephalin"	601852		TLCN		8995416, 9828136	Standard	NM_003259		Approved	TLN	uc002mnu.4	Q9UMF0		ENST00000221980.4:c.652C>A	19.37:g.10402464C>A	ENSP00000221980:p.Pro218Thr	Somatic		WXS	Illumina HiSeq		Q9Y6F3	Missense_Mutation	SNP	ENST00000221980.4	37	CCDS12233.1	.	.	.	.	.	.	.	.	.	.	c	14.53	2.561648	0.45590	.	.	ENSG00000105376	ENST00000221980	T	0.07908	3.15	5.29	3.17	0.36434	Intercellular adhesion molecule (1);Immunoglobulin-like fold (1);	0.068731	0.56097	D	0.000021	T	0.09423	0.0232	M	0.72479	2.2	0.34597	D	0.716099	B	0.10296	0.003	B	0.17098	0.017	T	0.10753	-1.0616	10	0.13853	T	0.58	-12.7672	7.3688	0.26790	0.0:0.8052:0.0:0.1948	.	218	Q9UMF0	ICAM5_HUMAN	T	218	ENSP00000221980:P218T	ENSP00000221980:P218T	P	+	1	0	ICAM5	10263464	0.005000	0.15991	1.000000	0.80357	0.996000	0.88848	0.423000	0.21313	1.252000	0.44001	0.466000	0.42574	CCC		0.602	ICAM5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451217.1	NM_003259		A	10402464	C	A	10402464	3	1	575	1	0	0	0	0	1	0	0	0	7490	623	22	4	662	4	ICAM5	19	10402464	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	995791	10402464	48726519	122	34112										
PIK3R2	5296	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	18274091	18274091	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aggaccagattgtcaaggagGacagcgtggaggcagtgggc	18	7	1	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:18274091G>A	ENST00000593731.1	+	11	1869	c.1309G>A	c.(1309-1311)Gac>Aac	p.D437N	PIK3R2_ENST00000222254.8_Missense_Mutation_p.D437N			O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2 (beta)	437					blood coagulation (GO:0007596)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|leukocyte migration (GO:0050900)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-3-phosphate biosynthetic process (GO:0036092)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|small molecule metabolic process (GO:0044281)|T cell receptor signaling pathway (GO:0050852)	cytosol (GO:0005829)|phosphatidylinositol 3-kinase complex (GO:0005942)	phosphatidylinositol 3-kinase regulator activity (GO:0035014)|receptor tyrosine kinase binding (GO:0030971)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(12)|ovary(3)|pancreas(1)|stomach(1)	24					Isoprenaline(DB01064)	TGTCAAGGAGGACAGCGTGGA	0.577																																																0													125	107	113					19																	18274091		2203	4300	6503	SO:0001583	missense	5296				CCDS12371.1	19p13.11	2013-03-28	2008-02-04		ENSG00000105647	ENSG00000105647		"SH2 domain containing"	8980	protein-coding gene	gene with protein product		603157				1314371	Standard	NM_005027		Approved	P85B, p85	uc002nia.2	O00459	OTTHUMG00000183383	ENST00000593731.1:c.1309G>A	19.37:g.18274091G>A	ENSP00000471914:p.Asp437Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q5EAT5|Q9UPH9	Missense_Mutation	SNP	ENST00000593731.1	37	CCDS12371.1	.	.	.	.	.	.	.	.	.	.	G	15.05	2.719551	0.48728	.	.	ENSG00000105647	ENST00000222254	T	0.47869	0.83	4.08	4.08	0.47627	.	0.102115	0.64402	D	0.000002	T	0.40171	0.1106	L	0.43152	1.355	0.42153	D	0.991565	B	0.19583	0.037	B	0.15052	0.012	T	0.38950	-0.9637	10	0.52906	T	0.07	-47.255	12.9549	0.58421	0.0:0.0:0.8377:0.1623	.	437	O00459	P85B_HUMAN	N	437	ENSP00000222254:D437N	ENSP00000222254:D437N	D	+	1	0	PIK3R2	18135091	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	5.262000	0.65501	2.216000	0.71823	0.561000	0.74099	GAC		0.577	PIK3R2-001	KNOWN	basic|appris_principal|readthrough_transcript|CCDS	nonsense_mediated_decay	protein_coding	OTTHUMT00000466386.2	NM_005027		A	18274091	G	A	18274091	3	1	575	1	0	0	0	0	1	0	0	0	11926	1174	41	2	1347	2	PIK3R2	19	18274091	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	7871627	18274091	40854892	123	34113										
ZNF85	7639	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	21132080	21132080	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aacataagaaaattcatactGgagagaaaccctacaaatgt	6	7	1	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:21132080G>A	ENST00000328178.8	+	4	873	c.760G>A	c.(760-762)Gga>Aga	p.G254R	ZNF85_ENST00000345030.6_Missense_Mutation_p.G221R|ZNF85_ENST00000601023.1_Missense_Mutation_p.G195R	NM_001256173.1|NM_003429.4	NP_001243102.1|NP_003420.2	Q03923	ZNF85_HUMAN	zinc finger protein 85	254					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			breast(1)|central_nervous_system(1)|large_intestine(5)|lung(10)|ovary(1)|prostate(2)	20						AATTCATACTGGAGAGAAACC	0.353																																																0													26	29	28					19																	21132080		2163	4272	6435	SO:0001583	missense	7639			U35376	CCDS32977.1, CCDS58657.1	19p12	2013-01-08	2006-05-12			ENSG00000105750		"Zinc fingers, C2H2-type", "-"	13160	protein-coding gene	gene with protein product		603899	"zinc finger protein 85 (HPF4, HTF1)"			2505992	Standard	NM_003429		Approved	HPF4, HTF1	uc031rjx.1	Q03923		ENST00000328178.8:c.760G>A	19.37:g.21132080G>A	ENSP00000329793:p.Gly254Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B9ZVP4|Q6NVI0	Missense_Mutation	SNP	ENST00000328178.8	37	CCDS32977.1	.	.	.	.	.	.	.	.	.	.	.	11.63	1.695005	0.30052	.	.	ENSG00000105750	ENST00000328178;ENST00000345030;ENST00000421385	T;T	0.01629	4.72;4.72	1.35	1.35	0.21983	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.05135	0.0137	L	0.41632	1.29	0.80722	D	1	P;D;D	0.89917	0.523;1.0;0.993	B;D;D	0.97110	0.134;1.0;0.953	T	0.47560	-0.9108	9	0.54805	T	0.06	.	9.5712	0.39429	0.0:0.0:1.0:0.0	.	221;195;254	Q03923-2;Q49A12;Q03923	.;.;ZNF85_HUMAN	R	254;221;129	ENSP00000329793:G254R;ENSP00000342340:G221R	ENSP00000329793:G254R	G	+	1	0	ZNF85	20923920	0.998000	0.40836	0.108000	0.21378	0.096000	0.18686	2.982000	0.49337	0.681000	0.31386	0.462000	0.41574	GGA		0.353	ZNF85-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463430.1	NM_003429		A	21132080	G	A	21132080	3	1	575	1	0	0	0	0	1	0	0	0	18205	1349	47	2	774	2	ZNF85	19	21132080	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	2857989	21132080	37996903	124	34114										
ZNF85	7639	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	21132138	21132138	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ttttaaccgattctcaactcTtactacccataagataattc	2	11	2	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:21132138T>C	ENST00000328178.8	+	4	931	c.818T>C	c.(817-819)cTt>cCt	p.L273P	ZNF85_ENST00000345030.6_Missense_Mutation_p.L240P|ZNF85_ENST00000601023.1_Missense_Mutation_p.L214P	NM_001256173.1|NM_003429.4	NP_001243102.1|NP_003420.2	Q03923	ZNF85_HUMAN	zinc finger protein 85	273					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			breast(1)|central_nervous_system(1)|large_intestine(5)|lung(10)|ovary(1)|prostate(2)	20						TTCTCAACTCTTACTACCCAT	0.348																																																0													26	29	28					19																	21132138		2193	4286	6479	SO:0001583	missense	7639			U35376	CCDS32977.1, CCDS58657.1	19p12	2013-01-08	2006-05-12			ENSG00000105750		"Zinc fingers, C2H2-type", "-"	13160	protein-coding gene	gene with protein product		603899	"zinc finger protein 85 (HPF4, HTF1)"			2505992	Standard	NM_003429		Approved	HPF4, HTF1	uc031rjx.1	Q03923		ENST00000328178.8:c.818T>C	19.37:g.21132138T>C	ENSP00000329793:p.Leu273Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B9ZVP4|Q6NVI0	Missense_Mutation	SNP	ENST00000328178.8	37	CCDS32977.1	.	.	.	.	.	.	.	.	.	.	.	11.50	1.657272	0.29425	.	.	ENSG00000105750	ENST00000328178;ENST00000345030;ENST00000421385	T;T	0.53857	0.6;0.6	1.35	1.35	0.21983	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.76263	0.3963	H	0.94620	3.56	0.25920	N	0.983126	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	T	0.63350	-0.6657	9	0.87932	D	0	.	7.5498	0.27790	0.0:0.0:0.0:1.0	.	240;214;273	Q03923-2;Q49A12;Q03923	.;.;ZNF85_HUMAN	P	273;240;148	ENSP00000329793:L273P;ENSP00000342340:L240P	ENSP00000329793:L273P	L	+	2	0	ZNF85	20923978	0.117000	0.22190	0.004000	0.12327	0.013000	0.08279	2.803000	0.47924	0.569000	0.29329	0.379000	0.24179	CTT		0.348	ZNF85-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463430.1	NM_003429		C	21132138	T	C	21132138	3	2	575	1	0	0	0	0	1	0	0	0	18205	1609	56	3	832	3	ZNF85	19	21132138	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	58	21132138	37996845	125	34115										
LGI4	163175	broad.mit.edu;ucsc.edu	37	chr19	35617765	35617765	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gagggggctcaccgggcagcTcttcctcgggccggaagcgc	17	14	2	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:35617765T>A	ENST00000310123.3	-	7	1304	c.785A>T	c.(784-786)gAg>gTg	p.E262V	LGI4_ENST00000493050.1_5'UTR|LGI4_ENST00000392225.3_Missense_Mutation_p.E262V	NM_139284.2	NP_644813.1	Q8N135	LGI4_HUMAN	leucine-rich repeat LGI family, member 4	262					adult locomotory behavior (GO:0008344)|glial cell proliferation (GO:0014009)|myelination in peripheral nervous system (GO:0022011)|neuron maturation (GO:0042551)	extracellular space (GO:0005615)				endometrium(1)|large_intestine(1)|lung(4)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	10	all_lung(56;7.56e-09)|Lung NSC(56;1.1e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.54e-20)|OV - Ovarian serous cystadenocarcinoma(14;1.33e-18)|all cancers(14;4.27e-17)|LUSC - Lung squamous cell carcinoma(66;0.0849)			ACCGGGCAGCTCTTCCTCGGG	0.687																																																0													19	23	22					19																	35617765		2202	4298	6500	SO:0001583	missense	163175			AJ487519	CCDS12444.1	19q13.13	2008-07-03			ENSG00000153902	ENSG00000153902			18712	protein-coding gene	gene with protein product		608303				12023020	Standard	NM_139284		Approved		uc002nxx.2	Q8N135	OTTHUMG00000044558	ENST00000310123.3:c.785A>T	19.37:g.35617765T>A	ENSP00000312273:p.Glu262Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN53|B9EGS7|Q5M8T1	Missense_Mutation	SNP	ENST00000310123.3	37	CCDS12444.1	.	.	.	.	.	.	.	.	.	.	T	18.47	3.631916	0.67015	.	.	ENSG00000153902	ENST00000310123;ENST00000392225;ENST00000437421	T;T	0.64803	-0.12;-0.03	4.1	4.1	0.47936	.	0.551988	0.17037	N	0.189479	T	0.64811	0.2632	L	0.40543	1.245	0.80722	D	1	D;D	0.65815	0.995;0.995	P;P	0.57911	0.829;0.795	T	0.60944	-0.7162	10	0.33141	T	0.24	.	11.0719	0.48008	0.0:0.0:0.0:1.0	.	173;262	Q658V8;Q8N135	.;LGI4_HUMAN	V	262	ENSP00000312273:E262V;ENSP00000376059:E262V	ENSP00000312273:E262V	E	-	2	0	LGI4	40309605	0.998000	0.40836	0.993000	0.49108	0.583000	0.36354	2.147000	0.42226	1.709000	0.51313	0.260000	0.18958	GAG		0.687	LGI4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000103963.1			A	35617765	T	A	35617765	3	1	575	1	0	0	0	0	1	0	0	0	8761	1551	54	5	840	5	LGI4	19	35617765	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	14485627	35617765	23511218	126	34116										
SUPT5H	6829	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	39964723	39964723	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ccctcgtccccacaggtcaaCccacaatacaacccgcagac	5	20	1	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:39964723C>A	ENST00000599117.1	+	27	2980	c.2613C>A	c.(2611-2613)aaC>aaA	p.N871K	SUPT5H_ENST00000402194.2_Missense_Mutation_p.N867K|SUPT5H_ENST00000598725.1_Missense_Mutation_p.N871K|SUPT5H_ENST00000359191.6_Missense_Mutation_p.N867K|SUPT5H_ENST00000432763.2_Missense_Mutation_p.N871K			O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog (S. cerevisiae)	871	10 X 8 AA approximate tandem repeats of P-[TS]-P-S-P-[QA]-[SG]-Y, motif CTR2.|Pro-rich.				7-methylguanosine mRNA capping (GO:0006370)|cell cycle (GO:0007049)|chromatin remodeling (GO:0006338)|DNA-templated transcription, elongation (GO:0006354)|gene expression (GO:0010467)|negative regulation of DNA-templated transcription, elongation (GO:0032785)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of DNA-templated transcription, elongation (GO:0032786)|positive regulation of macroautophagy (GO:0016239)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of viral transcription (GO:0050434)|response to organic substance (GO:0010033)|single stranded viral RNA replication via double stranded DNA intermediate (GO:0039692)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|viral process (GO:0016032)	DSIF complex (GO:0032044)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|enzyme binding (GO:0019899)|poly(A) RNA binding (GO:0044822)|protein heterodimerization activity (GO:0046982)			breast(2)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(13)|lung(12)|ovary(3)|pancreas(1)|prostate(5)|skin(1)|upper_aerodigestive_tract(1)	51	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			CACAGGTCAACCCACAATACA	0.647											OREG0025462	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													84	89	87					19																	39964723		2203	4300	6503	SO:0001583	missense	6829			U56402	CCDS12536.1, CCDS46072.1	19q13	2008-07-22	2001-11-28			ENSG00000196235			11469	protein-coding gene	gene with protein product		602102	"suppressor of Ty (S.cerevisiae) 5 homolog"			8975720	Standard	NM_003169		Approved	SPT5H, SPT5, FLJ34157	uc002olp.4	O00267		ENST00000599117.1:c.2613C>A	19.37:g.39964723C>A	ENSP00000470252:p.Asn871Lys	Somatic	889	WXS	Illumina HiSeq	Phase_I	O43279|Q59G52|Q99639	Missense_Mutation	SNP	ENST00000599117.1	37	CCDS12536.1	.	.	.	.	.	.	.	.	.	.	C	15.70	2.910409	0.52439	.	.	ENSG00000196235	ENST00000432763;ENST00000402194;ENST00000378524;ENST00000359191	.	.	.	5.36	3.19	0.36642	.	0.043680	0.85682	D	0.000000	T	0.51652	0.1687	L	0.53249	1.67	0.58432	D	0.999995	B;B;B	0.34200	0.367;0.387;0.441	B;B;B	0.37550	0.253;0.131;0.206	T	0.48736	-0.9009	8	.	.	.	-34.0435	10.5839	0.45271	0.0:0.8333:0.0:0.1667	.	663;867;871	B4DJK4;O00267-2;O00267	.;.;SPT5H_HUMAN	K	871;867;849;871	.	.	N	+	3	2	SUPT5H	44656563	1.000000	0.71417	1.000000	0.80357	0.877000	0.50540	2.352000	0.44080	1.235000	0.43724	0.462000	0.41574	AAC		0.647	SUPT5H-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000464918.1	NM_003169		A	39964723	C	A	39964723	3	1	575	1	0	0	0	0	1	0	0	0	15411	506	18	4	2711	4	SUPT5H	19	39964723	Missense_Mutation	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	4346958	39964723	19164260	127	34117										
LGALS13	29124	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	40095901	40095901	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ccgtttccgagtgcactttgGcaatcatgtggtcatgaaca	10	10	2	1	rs138148689		TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:40095901G>T	ENST00000221797.4	+	3	221	c.176G>T	c.(175-177)gGc>gTc	p.G59V		NM_013268.2	NP_037400.1	Q9UHV8	PP13_HUMAN	lectin, galactoside-binding, soluble, 13	59	Galectin. {ECO:0000255|PROSITE- ProRule:PRU00639}.				apoptotic process (GO:0006915)|phospholipid metabolic process (GO:0006644)		carbohydrate binding (GO:0030246)|lysophospholipase activity (GO:0004622)			lung(5)|ovary(1)|urinary_tract(1)	7	all_cancers(60;1.77e-05)|all_lung(34;5.38e-08)|Lung NSC(34;6.37e-08)|Ovarian(47;0.116)		Epithelial(26;3.28e-26)|OV - Ovarian serous cystadenocarcinoma(5;7.31e-25)|all cancers(26;1.15e-23)|LUSC - Lung squamous cell carcinoma(53;0.00281)			GTGCACTTTGGCAATCATGTG	0.498																																																0								G	VAL/GLY	0,4406		0,0,2203	251	185	207		176	0.7	0	19	dbSNP_134	207	2,8598		0,2,4298	yes	missense	LGALS13	NM_013268.2	109	0,2,6501	TT,TG,GG		0.0233,0.0,0.0154	probably-damaging	59/140	40095901	2,13004	2203	4300	6503	SO:0001583	missense	29124			AF117383	CCDS33024.1	19q13.2	2014-03-19	2008-07-25		ENSG00000105198	ENSG00000105198		"Lectins, galactoside-binding"	15449	protein-coding gene	gene with protein product	"galectin 13"	608717				6856484, 10527825	Standard	NM_013268		Approved	PP13, PLAC8	uc002omb.3	Q9UHV8	OTTHUMG00000183073	ENST00000221797.4:c.176G>T	19.37:g.40095901G>T	ENSP00000221797:p.Gly59Val	Somatic		WXS	Illumina HiSeq	Phase_I	C5HZ15	Missense_Mutation	SNP	ENST00000221797.4	37	CCDS33024.1	.	.	.	.	.	.	.	.	.	.	.	10.64	1.407134	0.25378	0.0	2.33E-4	ENSG00000105198	ENST00000221797	T	0.19532	2.14	0.744	0.744	0.18353	Concanavalin A-like lectin/glucanase (1);Galectin, carbohydrate recognition domain (4);Concanavalin A-like lectin/glucanase, subgroup (1);	.	.	.	.	T	0.51092	0.1654	M	0.92077	3.27	0.19300	N	0.999973	D	0.89917	1.0	D	0.87578	0.998	T	0.31364	-0.9946	8	0.87932	D	0	.	.	.	.	.	59	Q9UHV8	PP13_HUMAN	V	59	ENSP00000221797:G59V	ENSP00000221797:G59V	G	+	2	0	LGALS13	44787741	0.562000	0.26586	0.027000	0.17364	0.039000	0.13416	1.393000	0.34497	0.658000	0.30925	0.305000	0.20034	GGC		0.498	LGALS13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464968.1	NM_013268		T	40095901	G	T	40095901	3	4	575	1	0	0	0	0	1	0	0	0	8747	1203	42	4	186	4	LGALS13	19	40095901	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	131178	40095901	19033082	128	34118										
LIPE	3991	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	42907053	42907053	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gctgacagcgacatctcgggGgtgtccgacgacgtctcgga	15	12	2	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:42907053G>A	ENST00000244289.4	-	9	2949	c.2673C>T	c.(2671-2673)acC>acT	p.T891T	LIPE-AS1_ENST00000597203.1_RNA|LIPE-AS1_ENST00000594624.2_RNA|LIPE-AS1_ENST00000593491.2_RNA|LIPE-AS1_ENST00000599276.1_RNA	NM_005357.2	NP_005348.2	Q05469	LIPS_HUMAN	lipase, hormone-sensitive	891					cholesterol metabolic process (GO:0008203)|diacylglycerol catabolic process (GO:0046340)|lipid catabolic process (GO:0016042)|long-chain fatty acid catabolic process (GO:0042758)|protein phosphorylation (GO:0006468)|small molecule metabolic process (GO:0044281)|triglyceride catabolic process (GO:0019433)	cytosol (GO:0005829)|lipid particle (GO:0005811)|plasma membrane (GO:0005886)	hormone-sensitive lipase activity (GO:0033878)|triglyceride lipase activity (GO:0004806)			breast(2)|endometrium(4)|kidney(7)|large_intestine(6)|lung(8)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	32		Prostate(69;0.00682)				ACATCTCGGGGGTGTCCGACG	0.612																																																0													92	73	79					19																	42907053		2203	4300	6503	SO:0001819	synonymous_variant	3991			L11706	CCDS12607.1	19q13.1-q13.2	2014-03-14			ENSG00000079435	ENSG00000079435	3.1.1.3		6621	protein-coding gene	gene with protein product		151750				8506334	Standard	NM_005357		Approved	HSL	uc002otr.3	Q05469	OTTHUMG00000182814	ENST00000244289.4:c.2673C>T	19.37:g.42907053G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q3LRT2|Q6NSL7	Silent	SNP	ENST00000244289.4	37	CCDS12607.1																																																																																				0.612	LIPE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463861.1	NM_005357		A	42907053	G	A	42907053	2	1	575	1	0	0	0	0	0	0	0	1	8828	1219	43	2		2	LIPE	19	42907053	Silent	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	2811152	42907053	16221930	129	34119										
ZNF223	7766	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	44570872	44570872	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gagatatgtagtgtgagcttCcgtcttaggtcaagtcttaa	11	6	3	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:44570872C>T	ENST00000434772.3	+	5	1146	c.891C>T	c.(889-891)ttC>ttT	p.F297F	ZNF223_ENST00000591793.1_Silent_p.F407F	NM_013361.4	NP_037493.3	Q9UK11	ZN223_HUMAN	zinc finger protein 223	297					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(3)|kidney(3)|large_intestine(3)|lung(6)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	18		Prostate(69;0.0352)				GTGTGAGCTTCCGTCTTAGGT	0.448																																																0													131	126	128					19																	44570872		2203	4300	6503	SO:0001819	synonymous_variant	7766			AF187989	CCDS12635.1	19q13.2	2013-01-08				ENSG00000178386		"Zinc fingers, C2H2-type", "-"	13016	protein-coding gene	gene with protein product							Standard	XM_006723365		Approved		uc002oyf.1	Q9UK11		ENST00000434772.3:c.891C>T	19.37:g.44570872C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q15736|Q8TBJ3|Q9HCA9	Silent	SNP	ENST00000434772.3	37	CCDS12635.1																																																																																				0.448	ZNF223-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460469.2			T	44570872	C	T	44570872	2	4	575	1	0	0	0	0	0	0	0	1	17789	854	30	2		2	ZNF223	19	44570872	Silent	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	1663819	44570872	14558111	130	34120										
PIH1D1	55011	broad.mit.edu	37	chr19	49950353	49950353	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aggttcaggtgaggcttttcAggcctgaggaggaacaaggt	16	6	2	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:49950353A>G	ENST00000262265.5	-	7	850	c.615T>C	c.(613-615)ccT>ccC	p.P205P	PIH1D1_ENST00000602226.1_5'Flank|PIH1D1_ENST00000596049.1_Silent_p.P205P	NM_017916.2	NP_060386.1	Q9NWS0	PIHD1_HUMAN	PIH1 domain containing 1	205					box C/D snoRNP assembly (GO:0000492)|epithelial cell differentiation (GO:0030855)	pre-snoRNP complex (GO:0070761)				NS(1)|breast(1)|kidney(1)|large_intestine(2)|lung(5)|urinary_tract(1)	11		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;0.00152)|GBM - Glioblastoma multiforme(486;0.0244)		GAGGCTTTTCAGGCCTGAGGA	0.607																																																0													84	86	85					19																	49950353		2203	4300	6503	SO:0001819	synonymous_variant	55011			AK000650	CCDS12765.1	19q13.33	2012-07-18	2007-01-31	2007-01-31	ENSG00000104872	ENSG00000104872			26075	protein-coding gene	gene with protein product		611480		NOP17		12477932	Standard	NM_017916		Approved	FLJ20643	uc002pns.2	Q9NWS0		ENST00000262265.5:c.615T>C	19.37:g.49950353A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DGN7|B4E2X7|Q9BVL0	Silent	SNP	ENST00000262265.5	37	CCDS12765.1																																																																																				0.607	PIH1D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465389.2	NM_017916		G	49950353	A	G	49950353	2	3	575	1	0	0	0	0	0	0	0	1	11913	175	7	3		3	PIH1D1	19	49950353	Silent	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	5379481	49950353	9178630	131	34121										
FCGRT	2217	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	50017313	50017313	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ggaaaaccaggtgtcctggtAttgggagaaagagaccacag	14	7	0	2			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:50017313A>G	ENST00000221466.5	+	3	734	c.248A>G	c.(247-249)tAt>tGt	p.Y83C	FCGRT_ENST00000599988.1_Intron|FCGRT_ENST00000426395.3_Missense_Mutation_p.Y83C|FCGRT_ENST00000594823.1_3'UTR|FCGRT_ENST00000596975.1_Missense_Mutation_p.Y83C	NM_001136019.2	NP_001129491.1	P55899	FCGRN_HUMAN	Fc fragment of IgG, receptor, transporter, alpha	83	Alpha-1.				antigen processing and presentation (GO:0019882)|IgG immunoglobulin transcytosis in epithelial cells mediated by FcRn immunoglobulin receptor (GO:0002416)|immune response (GO:0006955)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	IgG binding (GO:0019864)			endometrium(3)|kidney(2)|lung(1)|ovary(1)|prostate(1)|skin(1)	9		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00291)|GBM - Glioblastoma multiforme(134;0.0156)		GTGTCCTGGTATTGGGAGAAA	0.582																																																0													41	47	45					19																	50017313		2203	4300	6503	SO:0001583	missense	2217			U12255	CCDS12770.1	19q13.3	2013-01-11				ENSG00000104870		"Immunoglobulin superfamily / C1-set domain containing"	3621	protein-coding gene	gene with protein product		601437				7964511, 8646894	Standard	NM_001136019		Approved	FCRN, alpha-chain	uc002pog.2	P55899		ENST00000221466.5:c.248A>G	19.37:g.50017313A>G	ENSP00000221466:p.Tyr83Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5HYM5|Q9HBV7|Q9NZ19	Missense_Mutation	SNP	ENST00000221466.5	37	CCDS12770.1	.	.	.	.	.	.	.	.	.	.	A	16.54	3.150611	0.57151	.	.	ENSG00000104870	ENST00000221466;ENST00000426395;ENST00000415900;ENST00000452439	T;T	0.01185	5.21;5.21	4.83	2.61	0.31194	MHC class I, alpha chain, alpha1/alpha2 (1);MHC classes I/II-like antigen recognition protein (1);MHC class I-like antigen recognition (1);	0.374848	0.19651	N	0.109214	T	0.07369	0.0186	M	0.93197	3.39	0.41878	D	0.990305	D	0.89917	1.0	D	0.83275	0.996	T	0.00662	-1.1621	10	0.87932	D	0	.	3.4456	0.07480	0.6789:0.0:0.1082:0.2129	.	83	P55899	FCGRN_HUMAN	C	83	ENSP00000221466:Y83C;ENSP00000410798:Y83C	ENSP00000221466:Y83C	Y	+	2	0	FCGRT	54709125	0.976000	0.34144	0.999000	0.59377	0.876000	0.50452	2.603000	0.46266	0.868000	0.35678	0.459000	0.35465	TAT		0.582	FCGRT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465267.1			G	50017313	A	G	50017313	3	3	575	1	0	0	0	0	1	0	0	0	5793	449	16	3	254	3	FCGRT	19	50017313	Missense_Mutation	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	66960	50017313	9111670	132	34122										
ZNF473	25888	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	50549983	50549983	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gaaaagccttatgtttgtcaGgaatgcgggaaagccttcac	11	8	2	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:50549983G>C	ENST00000595661.1	+	6	2778	c.2283G>C	c.(2281-2283)caG>caC	p.Q761H	CTD-2126E3.3_ENST00000599410.1_RNA|ZNF473_ENST00000391821.2_Missense_Mutation_p.Q761H|ZNF473_ENST00000270617.3_Missense_Mutation_p.Q761H|CTD-2126E3.3_ENST00000599914.1_RNA|ZNF473_ENST00000601364.1_Intron|ZNF473_ENST00000445728.3_Missense_Mutation_p.Q749H			Q8WTR7	ZN473_HUMAN	zinc finger protein 473	761					gene expression (GO:0010467)|histone mRNA 3'-end processing (GO:0006398)|histone mRNA metabolic process (GO:0008334)|mRNA 3'-end processing (GO:0031124)|regulation of transcription, DNA-templated (GO:0006355)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	Cajal body (GO:0015030)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(9)|liver(2)|lung(12)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	37		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		ATGTTTGTCAGGAATGCGGGA	0.522											OREG0025632	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													80	80	80					19																	50549983		2203	4300	6503	SO:0001583	missense	25888			AB032967	CCDS33077.1	19q13.33	2013-01-08						"Zinc fingers, C2H2-type", "-"	23239	protein-coding gene	gene with protein product						11782445	Standard	NM_015428		Approved	KIAA1141, DKFZP434N043, HZFP100	uc002prn.3	Q8WTR7		ENST00000595661.1:c.2283G>C	19.37:g.50549983G>C	ENSP00000472808:p.Gln761His	Somatic	970	WXS	Illumina HiSeq	Phase_I	A8K8T7|Q9ULS9|Q9Y4Q7	Missense_Mutation	SNP	ENST00000595661.1	37	CCDS33077.1	.	.	.	.	.	.	.	.	.	.	G	13.47	2.247320	0.39697	.	.	ENSG00000142528	ENST00000270617;ENST00000391821;ENST00000445728	T;T;T	0.07800	3.16;3.16;3.16	3.84	1.72	0.24424	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.611213	0.13601	N	0.375867	T	0.07007	0.0178	N	0.02916	-0.46	0.25928	N	0.983026	D	0.61080	0.989	P	0.60173	0.87	T	0.30446	-0.9978	10	0.44086	T	0.13	-0.3948	5.7557	0.18172	0.3335:0.0:0.6665:0.0	.	761	Q8WTR7	ZN473_HUMAN	H	761;761;749	ENSP00000270617:Q761H;ENSP00000375697:Q761H;ENSP00000388961:Q749H	ENSP00000270617:Q761H	Q	+	3	2	ZNF473	55241795	0.000000	0.05858	0.978000	0.43139	0.764000	0.43329	-1.663000	0.01968	0.603000	0.29913	0.650000	0.86243	CAG		0.522	ZNF473-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464833.1	XM_046390		C	50549983	G	C	50549983	3	2	575	1	0	0	0	0	1	0	0	0	17943	991	35	4	2297	4	ZNF473	19	50549983	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	532670	50549983	8579000	133	34123										
TTYH1	57348	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	54937848	54937848	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gccctaccctctcccctcccAggtggctggcctacgtcctc	8	21	1	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:54937848A>G	ENST00000376530.3	+	5	741		c.e5-1		TTYH1_ENST00000391739.3_Splice_Site|TTYH1_ENST00000489425.1_Splice_Site|TTYH1_ENST00000376531.3_Splice_Site|TTYH1_ENST00000301194.4_Splice_Site	NM_001201461.1|NM_020659.3	NP_001188390.1|NP_065710.1	Q9H313	TTYH1_HUMAN	tweety family member 1						cell-substrate adhesion (GO:0031589)|chloride transport (GO:0006821)|filopodium assembly (GO:0046847)|ion transmembrane transport (GO:0034220)|iron ion transmembrane transport (GO:0034755)|iron ion transport (GO:0006826)|mitotic nuclear division (GO:0007067)|regulation of anion transport (GO:0044070)|single organismal cell-cell adhesion (GO:0016337)|transmembrane transport (GO:0055085)	chloride channel complex (GO:0034707)|filopodium membrane (GO:0031527)|filopodium tip (GO:0032433)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|smooth endoplasmic reticulum membrane (GO:0030868)	calcium ion binding (GO:0005509)|iron ion transmembrane transporter activity (GO:0005381)|volume-sensitive chloride channel activity (GO:0072320)	p.?(1)		endometrium(1)|kidney(1)|large_intestine(5)|lung(6)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	17	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0767)		CTCCCCTCCCAGGTGGCTGGC	0.652																																																1	Unknown(1)	upper_aerodigestive_tract(1)											96	79	85					19																	54937848		2203	4300	6503	SO:0001630	splice_region_variant	57348			AF177909	CCDS12893.1, CCDS33106.1, CCDS56102.1	19q13.4	2013-09-02	2013-09-02		ENSG00000167614	ENSG00000167614			13476	protein-coding gene	gene with protein product		605784	"tweety (Drosophila) homolog 1", "tweety homolog 1 (Drosophila)"			10950931	Standard	NM_020659		Approved		uc002qfr.3	Q9H313	OTTHUMG00000065544	ENST00000376530.3:c.639-1A>G	19.37:g.54937848A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0VJY3|B0VJY4|B0VJY5|B2VAL9|Q5U682|Q68A17|Q6L750|Q6ZTE5|Q8WUU2	Splice_Site	SNP	ENST00000376530.3	37	CCDS12893.1	.	.	.	.	.	.	.	.	.	.	A	17.80	3.478123	0.63849	.	.	ENSG00000167614	ENST00000301194;ENST00000376530;ENST00000445095;ENST00000391739;ENST00000376531	.	.	.	4.58	4.58	0.56647	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	12.2014	0.54328	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	TTYH1	59629660	1.000000	0.71417	1.000000	0.80357	0.933000	0.57130	4.433000	0.59929	1.836000	0.53414	0.459000	0.35465	.		0.652	TTYH1-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000140498.1		Intron	G	54937848	A	G	54937848	5	3	575	1	0	0	0	0	0	0	1	0	16751	202	7	3	655	3	TTYH1	19	54937848	Splice_Site	SNP	A	TCGA-DZ-6132-01A-11D-1961-08	4387865	54937848	4191135	134	34124										
KIR2DL4	3811	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	55324637	55324637	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	agtggccatcatcctctttaCcatccttcccttctttctcc	3	17	4	0			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr19:55324637C>T	ENST00000538269.1	+	2	61				KIR2DL4_ENST00000345540.5_Intron|KIR2DL4_ENST00000359085.4_Missense_Mutation_p.T255I|KIR2DL4_ENST00000463062.1_3'UTR|KIR2DL4_ENST00000357494.4_Intron|KIR2DL4_ENST00000396293.1_Intron|KIR2DL4_ENST00000346587.4_Intron|KIR3DL1_ENST00000541392.1_Intron|KIR3DL1_ENST00000402254.2_Intron|KIR2DL4_ENST00000396284.2_Missense_Mutation_p.T253I			P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three domains, long cytoplasmic tail, 1						immune response (GO:0006955)|regulation of immune response (GO:0050776)|signal transduction (GO:0007165)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	HLA-B specific inhibitory MHC class I receptor activity (GO:0030109)			breast(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	11				GBM - Glioblastoma multiforme(193;0.0192)		ATCCTCTTTACCATCCTTCCC	0.502																																																0													120	185	164					19																	55324637		2009	4160	6169	SO:0001627	intron_variant	3805			L41269	CCDS42621.1	19q13.4	2014-05-22			ENSG00000167633	ENSG00000167633		"Killer cell immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6338	protein-coding gene	gene with protein product		604946		KIR		7716543, 7749980	Standard	NM_013289		Approved	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158E1, CD158e2		P43629	OTTHUMG00000065933	ENST00000538269.1:c.35-4352C>T	19.37:g.55324637C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O43473|Q14946|Q16541	Missense_Mutation	SNP	ENST00000538269.1	37		.	.	.	.	.	.	.	.	.	.	c	0	-2.781565	0.00079	.	.	ENSG00000189013	ENST00000396284;ENST00000359085;ENST00000396289	T;T;T	0.00454	7.39;7.32;7.4	0.569	-1.14	0.09741	.	6.239890	0.01410	N	0.013962	T	0.00271	0.0008	N	0.25060	0.705	0.09310	N	1	B;B;B	0.16802	0.019;0.0;0.001	B;B;B	0.23852	0.049;0.002;0.016	T	0.46596	-0.9180	9	0.28530	T	0.3	.	.	.	.	.	255;253;238	Q99706;E7EST5;Q99706-2	KI2L4_HUMAN;.;.	I	253;255;253	ENSP00000379580:T253I;ENSP00000351988:T255I;ENSP00000379584:T253I	ENSP00000351988:T255I	T	+	2	0	KIR2DL4	60016449	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-2.795000	0.00764	-1.106000	0.03008	-1.140000	0.01884	ACC		0.502	KIR3DL1-202	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_013289		T	55324637	C	T	55324637	1	4	575	0	1	0	0	0	0	0	0	0	8325	507	18	2		2	KIR2DL4	19	55324637	Intron	SNP	C	TCGA-DZ-6132-01A-11D-1961-08	386789	55324637	3804346	135	34125										
STAU1	6780	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	47741019	47741019	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aacagctatggcggcattttTctttgaaatcttcttgcttt	7	8	3	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr20:47741019T>A	ENST00000371856.2	-	7	1125	c.715A>T	c.(715-717)Aaa>Taa	p.K239*	STAU1_ENST00000371802.1_Nonsense_Mutation_p.K164*|STAU1_ENST00000371792.1_Nonsense_Mutation_p.K158*|STAU1_ENST00000371828.3_Nonsense_Mutation_p.K164*|STAU1_ENST00000347458.5_Nonsense_Mutation_p.K158*|STAU1_ENST00000360426.4_Nonsense_Mutation_p.K158*|STAU1_ENST00000340954.7_Nonsense_Mutation_p.K158*	NM_017453.2	NP_059347.2	O95793	STAU1_HUMAN	staufen double-stranded RNA binding protein 1	239	DRBM 2. {ECO:0000255|PROSITE- ProRule:PRU00266}.				intracellular mRNA localization (GO:0008298)	cell body (GO:0044297)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytoplasmic stress granule (GO:0010494)|dendrite (GO:0030425)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|microtubule associated complex (GO:0005875)|neuronal cell body (GO:0043025)|rough endoplasmic reticulum (GO:0005791)	double-stranded RNA binding (GO:0003725)|poly(A) RNA binding (GO:0044822)			breast(3)|endometrium(2)|kidney(2)|large_intestine(2)|liver(1)|lung(6)|ovary(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	23			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)			GCGGCATTTTTCTTTGAAATC	0.483																																																0													150	167	161					20																	47741019		2203	4300	6503	SO:0001587	stop_gained	6780				CCDS13414.1, CCDS13415.1, CCDS33481.1	20q13.1	2014-06-13	2013-06-05	2005-11-04	ENSG00000124214	ENSG00000124214			11370	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 150"	601716	"staufen (Drosophila, RNA-binding protein)", "staufen, RNA binding protein (Drosophila)", "staufen, RNA binding protein, homolog 1 (Drosophila)"	STAU		8884277, 15680326	Standard	XM_005260524		Approved	PPP1R150	uc002xud.3	O95793	OTTHUMG00000032691	ENST00000371856.2:c.715A>T	20.37:g.47741019T>A	ENSP00000360922:p.Lys239*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9Z4|E1P5Y1|E1P608|Q5JW29|Q6GTM4|Q9H5B4|Q9H5B5|Q9Y3Q2	Nonsense_Mutation	SNP	ENST00000371856.2	37	CCDS13414.1	.	.	.	.	.	.	.	.	.	.	T	39	7.406203	0.98265	.	.	ENSG00000124214	ENST00000371828;ENST00000340954;ENST00000371856;ENST00000360426;ENST00000347458;ENST00000371805;ENST00000371802;ENST00000371792;ENST00000437404	.	.	.	5.33	5.33	0.75918	.	0.087311	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-18.3231	15.3236	0.74141	0.0:0.0:0.0:1.0	.	.	.	.	X	164;158;239;158;158;158;164;158;164	.	ENSP00000345425:K158X	K	-	1	0	STAU1	47174426	1.000000	0.71417	1.000000	0.80357	0.887000	0.51463	8.036000	0.88901	2.017000	0.59298	0.528000	0.53228	AAA		0.483	STAU1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079633.1	NM_017453		A	47741019	T	A	47741019	4	1	575	1	0	0	0	0	0	1	0	0	15284	1792	62	5	1050	5	STAU1	20	47741019	Nonsense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08		47741019	15284501	136	34126										
DSCAM	1826	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	41496201	41496202	+	Missense_Mutation	DNP	AA	AA	TG													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gagggggaagccaggacacaAagaccatggaggctgaggcc							TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr21:41496201_41496202AA>TG	ENST00000400454.1	-	20	4093_4094	c.3616_3617TT>CA	c.(3616-3618)TTt>CAt	p.F1206H		NM_001271534.1|NM_001389.3	NP_001258463.1|NP_001380.2	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule	1206	Fibronectin type-III 4. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell adhesion (GO:0007155)|dendrite morphogenesis (GO:0048813)|dendrite self-avoidance (GO:0070593)|locomotory behavior (GO:0007626)|negative regulation of cell adhesion (GO:0007162)|nervous system development (GO:0007399)|positive regulation of axon extension involved in axon guidance (GO:0048842)|positive regulation of phosphorylation (GO:0042327)|post-embryonic retina morphogenesis in camera-type eye (GO:0060060)	axon (GO:0030424)|extracellular region (GO:0005576)|growth cone (GO:0030426)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)				NS(2)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(22)|haematopoietic_and_lymphoid_tissue(4)|kidney(6)|large_intestine(22)|lung(47)|ovary(7)|pancreas(2)|prostate(3)|skin(14)|upper_aerodigestive_tract(6)|urinary_tract(4)	142		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CCAGGACACAAAGACCATGGAG	0.564																																					Melanoma(134;970 1778 1785 21664 32388)											0																																										SO:0001583	missense	1826			AF023449	CCDS42929.1	21q22.2-q22.3	2013-02-11			ENSG00000171587	ENSG00000171587		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	3039	protein-coding gene	gene with protein product		602523				9426258	Standard	NM_001271534		Approved	CHD2-42, CHD2-52	uc002yyq.1	O60469	OTTHUMG00000086732	ENST00000400454.1:c.3616_3617delinsTG	21.37:g.41496201_41496202delinsTG	ENSP00000383303:p.Phe1206His	Somatic		WXS	Illumina HiSeq	Phase_I	O60468	Missense_Mutation	DNP	ENST00000400454.1	37	CCDS42929.1																																																																																				0.564	DSCAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195029.1	NM_001389		TG	41496202	AA	TG	41496201	3	4	575	1	0	0	0	0	1	0	0	0	4770	14	1	5	2477	5	DSCAM	21	41496201	Missense_Mutation	DNP	AA	TCGA-DZ-6132-01A-11D-1961-08		41496201	6633694	137	34127										
BCR	613	broad.mit.edu;bcgsc.ca	37	chr22	23523615	23523616	+	Frame_Shift_Ins	INS	-	-	A													0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gcgtggcggcgctcaggtccINSaacttcgagcggatccgcaa					rs369883604		TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr22:23523615_23523616insA	ENST00000305877.8	+	1	1219_1220	c.468_469insA	c.(469-471)aacfs	p.N157fs	BCR_ENST00000359540.3_Frame_Shift_Ins_p.N157fs|BCR_ENST00000398512.5_Frame_Shift_Ins_p.N157fs	NM_004327.3	NP_004318.3	P11274	BCR_HUMAN	breakpoint cluster region	157	Kinase.				actin cytoskeleton organization (GO:0030036)|brain development (GO:0007420)|inner ear morphogenesis (GO:0042472)|negative regulation of cell migration (GO:0030336)|negative regulation of inflammatory response (GO:0050728)|negative regulation of neutrophil degranulation (GO:0043314)|neuromuscular process controlling balance (GO:0050885)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of phagocytosis (GO:0050766)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of cell cycle (GO:0051726)|regulation of small GTPase mediated signal transduction (GO:0051056)|response to lipopolysaccharide (GO:0032496)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	ATP binding (GO:0005524)|GTPase activator activity (GO:0005096)|kinase activity (GO:0016301)|protein serine/threonine kinase activity (GO:0004674)|protein tyrosine kinase activity (GO:0004713)|Rac GTPase activator activity (GO:0030675)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)		BCR/JAK2(6)	central_nervous_system(3)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(9)|ovary(1)|prostate(1)|skin(4)|stomach(1)|urinary_tract(1)	35					Bosutinib(DB06616)|Ponatinib(DB08901)	CGCTCAGGTCCAACTTCGAGCG	0.738			T	"ABL1,  FGFR1, JAK2 "	"CML, ALL, AML"																																		Dom	yes		22	22q11.21	613	breakpoint cluster region		L	0																																										SO:0001589	frameshift_variant	613				CCDS13806.1, CCDS13807.1	22q11	2013-01-10			ENSG00000186716	ENSG00000186716		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	1014	protein-coding gene	gene with protein product		151410		D22S11, BCR1		1657398, 18070886	Standard	NM_004327		Approved	D22S662, CML, PHL, ALL	uc002zww.3	P11274	OTTHUMG00000150655	ENST00000305877.8:c.470dupA	22.37:g.23523617_23523617dupA	ENSP00000303507:p.Asn157fs	Somatic		WXS	Illumina HiSeq	Phase_I	P78501|Q12842|Q4LE80|Q6NZI3	Frame_Shift_Ins	INS	ENST00000305877.8	37	CCDS13806.1																																																																																				0.738	BCR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075819.1	NM_004327		A	23523616	-	A	23523615	7	5	575	1	0	1	1	0	0	0	0	0	1388	581	21	0	470	0	BCR	22	23523615	Frame_Shift_Ins	INS	-	TCGA-DZ-6132-01A-11D-1961-08		23523615	27780951	138	34128										
C22orf32	91689	ucsc.edu	37	chr22	42475836	42475836	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	ggtccggggctctccggagcGggcctagcttgaggaaagat	17	10	1	2	rs369810620		TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chr22:42475836G>A	ENST00000331479.3	+	1	138	c.64G>A	c.(64-66)Ggg>Agg	p.G22R		NM_033318.4	NP_201575.3	Q9H4I9	EMRE_HUMAN	single-pass membrane protein with aspartate-rich tail 1	22					calcium ion transmembrane import into mitochondrion (GO:0036444)|mitochondrial calcium ion homeostasis (GO:0051560)|mitochondrial calcium ion transport (GO:0006851)	integral component of mitochondrial inner membrane (GO:0031305)|uniplex complex (GO:1990246)											TCTCCGGAGCGGGCCTAGCTT	0.706																																																0								G	ARG/GLY	1,4405	2.1+/-5.4	0,1,2202	44	47	46		64	0.4	0	22		46	0,8600		0,0,4300	no	missense	C22orf32	NM_033318.4	125	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	possibly-damaging	22/108	42475836	1,13005	2203	4300	6503	SO:0001583	missense	0			BC024237	CCDS14031.1	22q13.2	2013-03-08	2013-03-08	2013-03-08	ENSG00000183172	ENSG00000183172			25055	protein-coding gene	gene with protein product		615588	"chromosome 22 open reading frame 32"	C22orf32		12477932	Standard	NM_033318		Approved	dJ186O1.1, DDDD	uc003bca.3	Q9H4I9	OTTHUMG00000151286	ENST00000331479.3:c.64G>A	22.37:g.42475836G>A	ENSP00000327467:p.Gly22Arg	Somatic		WXS	Illumina HiSeq		B2R5D1|Q8TAB9	Missense_Mutation	SNP	ENST00000331479.3	37	CCDS14031.1	.	.	.	.	.	.	.	.	.	.	G	15.68	2.904611	0.52333	2.27E-4	0.0	ENSG00000183172	ENST00000331479	T	0.53423	0.62	6.17	0.409	0.16382	.	0.716188	0.14806	N	0.297349	T	0.35770	0.0943	M	0.64997	1.995	0.09310	N	1	B	0.16802	0.019	B	0.09377	0.004	T	0.24012	-1.0172	10	0.26408	T	0.33	-0.8714	2.2371	0.04011	0.146:0.132:0.4489:0.273	.	22	Q9H4I9	CV032_HUMAN	R	22	ENSP00000327467:G22R	ENSP00000327467:G22R	G	+	1	0	C22orf32	40805782	0.032000	0.19561	0.001000	0.08648	0.049000	0.14656	1.145000	0.31577	-0.039000	0.13602	0.655000	0.94253	GGG		0.706	SMDT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322086.1	NM_033318		A	42475836	G	A	42475836	3	1	575	1	0	0	0	0	1	0	0	0	2146	1116	39	1	66	1	C22orf32	22	42475836	Missense_Mutation	SNP	G	TCGA-DZ-6132-01A-11D-1961-08	18952221	42475836	8828730	139	34129										
HDHD1A	8226	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	7023838	7023838	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	gtatttcttgtcatagcgatTacatatttcttgaaacacca	5	8	3	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chrX:7023838T>G	ENST00000381077.5	-	2	179	c.103A>C	c.(103-105)Aat>Cat	p.N35H	HDHD1_ENST00000424830.2_Missense_Mutation_p.N58H|HDHD1_ENST00000540122.1_Missense_Mutation_p.N35H|HDHD1_ENST00000412827.2_Missense_Mutation_p.N35H|HDHD1_ENST00000498474.2_5'UTR	NM_001178136.1|NM_012080.4	NP_001171607.1|NP_036212.3	Q08623	HDHD1_HUMAN	haloacid dehalogenase-like hydrolase domain containing 1	35					nucleotide metabolic process (GO:0009117)	extracellular vesicular exosome (GO:0070062)	metal ion binding (GO:0046872)|phosphatase activity (GO:0016791)			breast(2)|large_intestine(1)|lung(3)	6						TCATAGCGATTACATATTTCT	0.393																																																0													55	46	49					X																	7023838		1847	4082	5929	SO:0001583	missense	8226			M86934	CCDS48075.1, CCDS48076.1, CCDS55366.1, CCDS55367.1	Xp22.32	2010-07-21	2010-07-21	2010-07-21	ENSG00000130021	ENSG00000130021			16818	protein-coding gene	gene with protein product		306480	"family with sequence similarity 16, member A, X-linked", "haloacid dehalogenase-like hydrolase domain containing 1A"	FAM16AX, HDHD1A		1734713, 1284467	Standard	NM_012080		Approved	DXF68S1E, GS1	uc011mhm.1	Q08623	OTTHUMG00000021101	ENST00000381077.5:c.103A>C	X.37:g.7023838T>G	ENSP00000370467:p.Asn35His	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7X6|B4DV93|B7Z6Q3|E9PAV8|F5GWZ2|Q53F84|Q96EB8	Missense_Mutation	SNP	ENST00000381077.5	37	CCDS48075.1	.	.	.	.	.	.	.	.	.	.	c	7.623	0.677318	0.14841	.	.	ENSG00000130021	ENST00000381077;ENST00000544385;ENST00000412827;ENST00000424830;ENST00000540122;ENST00000486446	T;T;T;T;T	0.30714	3.42;1.52;3.42;3.42;3.42	4.01	4.01	0.46588	Haloacid dehalogenase-like hydrolase (1);HAD-like domain (1);	0.660693	0.15594	N	0.254263	T	0.23766	0.0575	N	0.21282	0.65	0.09310	N	1	D;B;P;B;B	0.53745	0.962;0.346;0.711;0.045;0.136	B;B;P;B;B	0.46419	0.4;0.382;0.516;0.057;0.201	T	0.05500	-1.0881	10	0.45353	T	0.12	-18.7046	7.1959	0.25853	0.0:0.7837:0.0:0.2163	.	35;35;58;35;35	Q08623-3;Q08623-2;E9PAV8;E7EVH9;Q08623	.;.;.;.;HDHD1_HUMAN	H	35;51;35;58;35;35	ENSP00000370467:N35H;ENSP00000406260:N35H;ENSP00000396452:N58H;ENSP00000441208:N35H;ENSP00000430995:N35H	ENSP00000370467:N35H	N	-	1	0	HDHD1	7033838	0.177000	0.23109	0.002000	0.10522	0.370000	0.29829	0.823000	0.27366	0.559000	0.29153	-0.177000	0.13119	AAT		0.393	HDHD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055683.2	NM_012080		G	7023838	T	G	7023838	3	3	575	1	0	0	0	0	1	0	0	0	7029	1754	61	5	716	5	HDHD1A	23	7023838	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08		7023838	148246722	140	34130										
GPRASP1	9737	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	101910063	101910063	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0575539568345324	8	1	1.0768044077135	2.12527185732927	0.434195325690927	0.153434800493624	1	0	aggaagccctcattgggaccTggttctgggctacagacgag	14	10	2	1			TCGA-DZ-6132-01A-11D-1961-08	TCGA-DZ-6132-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	be6d6e8a-236f-4a34-a19c-c7d6290d97f0	499ed479-d046-4343-9bd4-14b7201bdc55	g.chrX:101910063T>A	ENST00000361600.5	+	5	2023	c.1222T>A	c.(1222-1224)Tgg>Agg	p.W408R	GPRASP1_ENST00000415986.1_Missense_Mutation_p.W408R|RP4-769N13.7_ENST00000602441.1_RNA|GPRASP1_ENST00000444152.1_Missense_Mutation_p.W408R|GPRASP1_ENST00000537097.1_Missense_Mutation_p.W408R	NM_014710.4	NP_055525.3	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting protein 1	408					endosome to lysosome transport (GO:0008333)|G-protein coupled receptor catabolic process (GO:1990172)	cytoplasm (GO:0005737)				NS(1)|breast(3)|cervix(1)|endometrium(7)|kidney(2)|large_intestine(10)|lung(29)|ovary(2)|prostate(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	60						CATTGGGACCTGGTTCTGGGC	0.562																																																0													58	61	60					X																	101910063		2203	4300	6503	SO:0001583	missense	9737			AB007903	CCDS35352.1	Xq22.1	2014-03-21			ENSG00000198932	ENSG00000198932		"Armadillo repeat containing"	24834	protein-coding gene	gene with protein product		300417				9455477, 15086532, 16221301	Standard	NM_014710		Approved	GASP, GASP1	uc010nod.3	Q5JY77	OTTHUMG00000022061	ENST00000361600.5:c.1222T>A	X.37:g.101910063T>A	ENSP00000355146:p.Trp408Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O43168|Q96LA1	Missense_Mutation	SNP	ENST00000361600.5	37	CCDS35352.1	.	.	.	.	.	.	.	.	.	.	T	13.98	2.398444	0.42512	.	.	ENSG00000198932	ENST00000415986;ENST00000444152;ENST00000361600;ENST00000537097	T;T;T;T	0.34667	1.35;1.35;1.35;1.35	2.32	2.32	0.28847	.	.	.	.	.	T	0.50786	0.1636	M	0.71036	2.16	0.25851	N	0.983946	D	0.64830	0.994	D	0.79784	0.993	T	0.40961	-0.9535	9	0.12430	T	0.62	-2.7103	7.7932	0.29133	0.0:0.0:0.0:1.0	.	408	Q5JY77	GASP1_HUMAN	R	408	ENSP00000393691:W408R;ENSP00000409420:W408R;ENSP00000355146:W408R;ENSP00000445683:W408R	ENSP00000355146:W408R	W	+	1	0	GPRASP1	101796719	0.613000	0.27009	0.876000	0.34364	0.595000	0.36748	0.390000	0.20768	1.168000	0.42723	0.372000	0.22366	TGG		0.562	GPRASP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057634.2	NM_014710		A	101910063	T	A	101910063	3	1	575	1	0	0	0	0	1	0	0	0	6729	1580	55	5	1224	5	GPRASP1	23	101910063	Missense_Mutation	SNP	T	TCGA-DZ-6132-01A-11D-1961-08	94886225	101910063	53360497	141	34131										
TAS1R3	83756	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	1269265	1269265	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	caggcggccgagatcttcgtGgagtcagaactgcctctgag	14	11	3	3			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr1:1269265G>A	ENST00000339381.5	+	6	2012	c.1980G>A	c.(1978-1980)gtG>gtA	p.V660V		NM_152228.1	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3	660					detection of chemical stimulus involved in sensory perception of sweet taste (GO:0001582)|G-protein coupled receptor signaling pathway (GO:0007186)|sensory perception of sweet taste (GO:0050916)|sensory perception of umami taste (GO:0050917)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	protein heterodimerization activity (GO:0046982)|taste receptor activity (GO:0008527)			kidney(2)|lung(8)|upper_aerodigestive_tract(1)|urinary_tract(1)	12	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;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.88e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.146)		AGATCTTCGTGGAGTCAGAAC	0.697																																																0													27	30	29					1																	1269265		2198	4296	6494	SO:0001819	synonymous_variant	83756			AC026283	CCDS30556.1	1p36	2012-08-22			ENSG00000169962	ENSG00000169962		"Taste receptors / Type 1", "GPCR / Unclassified : Taste receptors"	15661	protein-coding gene	gene with protein product		605865				11319557	Standard	XM_006710939		Approved	T1R3	uc010nyk.2	Q7RTX0	OTTHUMG00000003071	ENST00000339381.5:c.1980G>A	1.37:g.1269265G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TA49|Q8NGW9	Silent	SNP	ENST00000339381.5	37	CCDS30556.1																																																																																				0.697	TAS1R3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008493.1			A	1269265	G	A	1269265	2	1	576	1	0	0	0	0	0	0	0	1	15576	1335	47	2		2	TAS1R3	1	1269265	Silent	SNP	G	TCGA-DZ-6133-01A-11D-1961-08		1269265	247981356	1	34132										
UBR4	23352	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	19448476	19448477	+	Frame_Shift_Ins	INS	-	-	A													0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ttgatggttcgctgggcggcINSaatctctgcacaggctttca							TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr1:19448476_19448477insA	ENST00000375254.3	-	67	9873_9874	c.9846_9847insT	c.(9844-9849)attgccfs	p.A3283fs	UBR4_ENST00000375217.2_Frame_Shift_Ins_p.A3276fs|UBR4_ENST00000375226.2_Frame_Shift_Ins_p.A3259fs|UBR4_ENST00000375267.2_Frame_Shift_Ins_p.A3283fs	NM_020765.2	NP_065816.2	Q5T4S7	UBR4_HUMAN	ubiquitin protein ligase E3 component n-recognin 4	3283					protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|viral process (GO:0016032)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(7)|central_nervous_system(1)|cervix(2)|endometrium(23)|kidney(25)|large_intestine(25)|liver(2)|lung(47)|ovary(10)|pancreas(2)|prostate(7)|skin(5)|stomach(5)|upper_aerodigestive_tract(4)|urinary_tract(6)	171		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CGCTGGGCGGCAATCTCTGCAC	0.485																																																0																																										SO:0001589	frameshift_variant	23352			AF348492	CCDS189.1	1p36.13	2008-06-23	2007-06-19	2007-06-19	ENSG00000127481	ENSG00000127481		"Ubiquitin protein ligase E3 component n-recognins"	30313	protein-coding gene	gene with protein product		609890	"zinc finger, UBR1 type 1"	ZUBR1		14702039, 10718198, 16055722	Standard	XM_005245802		Approved	KIAA1307, KIAA0462, RBAF600	uc001bbi.3	Q5T4S7	OTTHUMG00000002498	ENST00000375254.3:c.9847dupT	1.37:g.19448478_19448478dupA	ENSP00000364403:p.Ala3283fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8MPT2|A8MQ33|A8MQB1|O60646|O75050|Q4QRK5|Q5T4S8|Q5T4S9|Q5TBN8|Q5TBP2|Q6DKH8|Q6P4A4|Q7L8P7|Q8IXJ4|Q8TDN5|Q8WV67|Q9HA46|Q9P2N9|Q9UG82	Frame_Shift_Ins	INS	ENST00000375254.3	37	CCDS189.1																																																																																				0.485	UBR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000007085.1	NM_020765		A	19448477	-	A	19448476	7	5	576	1	0	1	1	0	0	0	0	0	16916	710	25	0	5864	0	UBR4	1	19448476	Frame_Shift_Ins	INS	-	TCGA-DZ-6133-01A-11D-1961-08	18179211	19448476	229802145	2	34133										
EPHA8	2046	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	22902942	22902942	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ctactacctggagtcggaccGcgacctgggggccagcacac	13	15	0	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr1:22902942G>A	ENST00000166244.3	+	3	464	c.392G>A	c.(391-393)cGc>cAc	p.R131H	EPHA8_ENST00000538803.1_Missense_Mutation_p.R131H|EPHA8_ENST00000374644.4_Missense_Mutation_p.R131H	NM_020526.3	NP_065387.1	P29322	EPHA8_HUMAN	EPH receptor A8	131	Eph LBD. {ECO:0000255|PROSITE- ProRule:PRU00883}.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|ephrin receptor signaling pathway (GO:0048013)|neuron projection development (GO:0031175)|neuron remodeling (GO:0016322)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|protein autophosphorylation (GO:0046777)|regulation of cell adhesion (GO:0030155)|regulation of cell adhesion mediated by integrin (GO:0033628)|substrate-dependent cell migration (GO:0006929)	endosome (GO:0005768)|integral component of plasma membrane (GO:0005887)|neuron projection (GO:0043005)	ATP binding (GO:0005524)|GPI-linked ephrin receptor activity (GO:0005004)			breast(3)|central_nervous_system(5)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|kidney(9)|large_intestine(6)|lung(22)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	61		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)		GAGTCGGACCGCGACCTGGGG	0.587																																																0													66	61	63					1																	22902942		2203	4300	6503	SO:0001583	missense	2046			BC038796	CCDS225.1, CCDS30626.1	1p36.12	2013-02-11	2004-10-28		ENSG00000070886	ENSG00000070886	2.7.10.1	"EPH receptors", "Sterile alpha motif (SAM) domain containing", "Fibronectin type III domain containing"	3391	protein-coding gene	gene with protein product		176945	"EphA8"	EEK		1648701	Standard	NM_001006943		Approved	Hek3	uc001bfx.1	P29322	OTTHUMG00000002892	ENST00000166244.3:c.392G>A	1.37:g.22902942G>A	ENSP00000166244:p.Arg131His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IN80|Q8IUX6|Q9NUA9|Q9P269	Missense_Mutation	SNP	ENST00000166244.3	37	CCDS225.1	.	.	.	.	.	.	.	.	.	.	G	13.75	2.331358	0.41297	.	.	ENSG00000070886	ENST00000166244;ENST00000374644;ENST00000538803	T;T;T	0.03580	3.88;3.88;3.88	4.29	4.29	0.51040	Ephrin receptor, ligand binding (2);Galactose-binding domain-like (1);	0.000000	0.64402	D	0.000001	T	0.07052	0.0179	N	0.24115	0.695	0.48341	D	0.999635	D;D	0.89917	1.0;0.999	D;D	0.91635	0.999;0.966	T	0.52830	-0.8523	10	0.15952	T	0.53	.	9.2953	0.37811	0.1004:0.0:0.8996:0.0	.	131;131	P29322;P29322-2	EPHA8_HUMAN;.	H	131	ENSP00000166244:R131H;ENSP00000363775:R131H;ENSP00000440274:R131H	ENSP00000166244:R131H	R	+	2	0	EPHA8	22775529	0.994000	0.37717	0.994000	0.49952	0.981000	0.71138	2.605000	0.46283	2.212000	0.71576	0.442000	0.29010	CGC		0.587	EPHA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008085.1	NM_020526		A	22902942	G	A	22902942	3	1	576	1	0	0	0	0	1	0	0	0	5175	1087	38	1	402	1	EPHA8	1	22902942	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	3454466	22902942	226347679	3	34134										
KDM4A	9682	broad.mit.edu	37	chr1	44169937	44169937	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tgcgcttcaatgagattttcAcagagaaagaggttaagcaa	10	6	2	3			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr1:44169937A>G	ENST00000372396.3	+	22	3225	c.3091A>G	c.(3091-3093)Aca>Gca	p.T1031A	KDM4A-AS1_ENST00000453015.1_RNA|KDM4A-AS1_ENST00000418149.1_RNA|KDM4A-AS1_ENST00000434346.1_RNA|KDM4A-AS1_ENST00000439057.1_RNA|KDM4A-AS1_ENST00000398804.3_RNA	NM_014663.2	NP_055478.2	O75164	KDM4A_HUMAN	lysine (K)-specific demethylase 4A	1031					cardiac muscle hypertrophy in response to stress (GO:0014898)|histone demethylation (GO:0016577)|histone H3-K36 demethylation (GO:0070544)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	histone demethylase activity (H3-K36 specific) (GO:0051864)|methylated histone binding (GO:0035064)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)			breast(2)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(6)|lung(13)|prostate(1)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(1)	37						TGAGATTTTCACAGAGAAAGA	0.438																																																0													135	142	139					1																	44169937		2203	4300	6503	SO:0001583	missense	9682			AB014577	CCDS491.1	1p34.1	2013-01-23	2009-04-06	2009-04-06	ENSG00000066135	ENSG00000066135		"Chromatin-modifying enzymes / K-demethylases", "Tudor domain containing"	22978	protein-coding gene	gene with protein product	"jumonji C domain-containing histone demethylase 3A", "tudor domain containing 14A"	609764	"jumonji domain containing 2", "jumonji domain containing 2A"	JMJD2, JMJD2A		9734811, 15138608	Standard	XM_005271354		Approved	KIAA0677, JHDM3A, TDRD14A	uc001cjx.3	O75164	OTTHUMG00000007560	ENST00000372396.3:c.3091A>G	1.37:g.44169937A>G	ENSP00000361473:p.Thr1031Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VVB1	Missense_Mutation	SNP	ENST00000372396.3	37	CCDS491.1	.	.	.	.	.	.	.	.	.	.	A	9.454	1.091429	0.20471	.	.	ENSG00000066135	ENST00000372396	T	0.70749	-0.51	5.86	5.86	0.93980	.	0.200756	0.53938	D	0.000060	T	0.56232	0.1971	L	0.29908	0.895	0.35890	D	0.82957	B	0.09022	0.002	B	0.08055	0.003	T	0.58482	-0.7629	10	0.18710	T	0.47	-14.4805	10.8641	0.46844	0.9212:0.0:0.0788:0.0	.	1031	O75164	KDM4A_HUMAN	A	1031	ENSP00000361473:T1031A	ENSP00000361473:T1031A	T	+	1	0	KDM4A	43942524	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	3.878000	0.56130	2.232000	0.73038	0.533000	0.62120	ACA		0.438	KDM4A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019960.1	NM_014663		G	44169937	A	G	44169937	3	3	576	1	0	0	0	0	1	0	0	0	8135	159	6	3	3173	3	KDM4A	1	44169937	Missense_Mutation	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	21266995	44169937	205080684	4	34135										
SLC6A9	6536	broad.mit.edu	37	chr1	44467233	44467233	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ttggccatgaagccgaggatGgagaagatgacgaagccagc	15	8	0	4			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr1:44467233G>C	ENST00000360584.2	-	9	1439	c.1248C>G	c.(1246-1248)tcC>tcG	p.S416S	SLC6A9_ENST00000475075.2_Silent_p.S232S|SLC6A9_ENST00000357730.2_Silent_p.S362S|SLC6A9_ENST00000537678.1_Silent_p.S278S|SLC6A9_ENST00000372310.3_Silent_p.S343S|SLC6A9_ENST00000372306.3_Silent_p.S343S|SLC6A9_ENST00000372307.3_Silent_p.S278S	NM_201649.3	NP_964012.2	P48067	SC6A9_HUMAN	solute carrier family 6 (neurotransmitter transporter, glycine), member 9	416					transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	glycine:sodium symporter activity (GO:0015375)|neurotransmitter:sodium symporter activity (GO:0005328)			endometrium(3)|large_intestine(8)|lung(7)|ovary(1)|skin(1)|urinary_tract(2)	22	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)	AGCCGAGGATGGAGAAGATGA	0.597																																																0													169	160	163					1																	44467233		2203	4300	6503	SO:0001819	synonymous_variant	6536			S70609	CCDS30695.1, CCDS41316.1, CCDS41317.1	1p33	2013-05-22			ENSG00000196517	ENSG00000196517		"Solute carriers"	11056	protein-coding gene	gene with protein product		601019				8183239, 7587377	Standard	NM_006934		Approved	GLYT1	uc001cll.4	P48067	OTTHUMG00000008294	ENST00000360584.2:c.1248C>G	1.37:g.44467233G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NDH1|A6NII2|A6NNZ8|Q5TAB8|Q5TAB9|Q5TAC0	Silent	SNP	ENST00000360584.2	37	CCDS41317.1																																																																																				0.597	SLC6A9-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000022825.2	NM_201649		C	44467233	G	C	44467233	2	2	576	1	0	0	0	0	0	0	0	1	14704	1335	47	4		4	SLC6A9	1	44467233	Silent	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	297296	44467233	204783388	5	34136										
FGGY	55277	broad.mit.edu	37	chr1	59812021	59812021	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tgtcctccagtacgtcggggGggtgatgtctgtggaaatgc	16	8	1	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr1:59812021G>C	ENST00000303721.7	+	4	590	c.416G>C	c.(415-417)gGg>gCg	p.G139A	FGGY_ENST00000474476.1_3'UTR|FGGY_ENST00000371218.4_Missense_Mutation_p.G139A|FGGY_ENST00000371212.1_Intron	NM_018291.3	NP_060761.3	Q96C11	FGGY_HUMAN	FGGY carbohydrate kinase domain containing	139					carbohydrate metabolic process (GO:0005975)|cell death (GO:0008219)|neuron cellular homeostasis (GO:0070050)		kinase activity (GO:0016301)|phosphotransferase activity, alcohol group as acceptor (GO:0016773)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(13)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	22	all_cancers(7;7.36e-05)					TACGTCGGGGGGGTGATGTCT	0.502																																																0													138	106	116					1																	59812021		2203	4300	6503	SO:0001583	missense	55277				CCDS611.2, CCDS44155.1, CCDS58003.1, CCDS60155.1	1p32.1	2008-10-23			ENSG00000172456	ENSG00000172456			25610	protein-coding gene	gene with protein product		611370				17671248	Standard	NM_018291		Approved	FLJ10986	uc009wac.3	Q96C11	OTTHUMG00000008424	ENST00000303721.7:c.416G>C	1.37:g.59812021G>C	ENSP00000305922:p.Gly139Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B1AK92|B1AK93|B1AK94|B2RDR8|D3DQ56|Q9HA63|Q9NV20	Missense_Mutation	SNP	ENST00000303721.7	37	CCDS611.2	.	.	.	.	.	.	.	.	.	.	G	17.72	3.458181	0.63401	.	.	ENSG00000172456	ENST00000413489;ENST00000371218;ENST00000303721	T;T;T	0.58797	0.31;0.31;0.31	5.49	5.49	0.81192	Carbohydrate kinase, FGGY, N-terminal (1);	0.000000	0.85682	D	0.000000	D	0.83519	0.5272	H	0.94658	3.565	0.80722	D	1	D;D;D	0.89917	1.0;0.993;0.997	D;D;D	0.97110	1.0;0.932;0.986	D	0.87429	0.2387	9	.	.	.	-16.3207	19.1799	0.93619	0.0:0.0:1.0:0.0	.	139;139;139	Q96C11-3;F2Z2V1;Q96C11	.;.;FGGY_HUMAN	A	139	ENSP00000406607:G139A;ENSP00000360262:G139A;ENSP00000305922:G139A	.	G	+	2	0	FGGY	59584609	1.000000	0.71417	0.591000	0.28745	0.122000	0.20287	8.580000	0.90784	2.857000	0.98124	0.650000	0.86243	GGG		0.502	FGGY-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023210.2	NM_001113411		C	59812021	G	C	59812021	3	2	576	1	0	0	0	0	1	0	0	0	5878	1232	43	4	426	4	FGGY	1	59812021	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	15344788	59812021	189438600	6	34137										
VANGL1	81839	ucsc.edu	37	chr1	116226588	116226588	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ccagtaacaatgccactggcCagtcccgggccatgattgct	10	14	0	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr1:116226588C>T	ENST00000355485.2	+	6	1241	c.970C>T	c.(970-972)Cag>Tag	p.Q324*	VANGL1_ENST00000369509.1_Nonsense_Mutation_p.Q324*|VANGL1_ENST00000310260.3_Nonsense_Mutation_p.Q324*|VANGL1_ENST00000369510.4_Nonsense_Mutation_p.Q322*|VANGL1_ENST00000474344.1_3'UTR	NM_001172411.1|NM_138959.2	NP_001165882.1|NP_620409.1	Q8TAA9	VANG1_HUMAN	VANGL planar cell polarity protein 1	324					multicellular organismal development (GO:0007275)	integral component of membrane (GO:0016021)|lateral plasma membrane (GO:0016328)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(2)|liver(2)|lung(13)|urinary_tract(1)	27	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)		TGCCACTGGCCAGTCCCGGGC	0.522																																																0													59	60	60					1																	116226588		2203	4300	6503	SO:0001587	stop_gained	81839			AB075805	CCDS883.1, CCDS53350.1	1p13.1	2013-03-05	2013-03-05		ENSG00000173218	ENSG00000173218			15512	protein-coding gene	gene with protein product		610132	"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"			11956595, 12011995	Standard	NM_001172411		Approved	STB2	uc001efv.1	Q8TAA9	OTTHUMG00000011971	ENST00000355485.2:c.970C>T	1.37:g.116226588C>T	ENSP00000347672:p.Gln324*	Somatic		WXS	Illumina HiSeq		Q5T1D3|Q5T1D4|Q86WG8|Q8N559	Nonsense_Mutation	SNP	ENST00000355485.2	37	CCDS883.1	.	.	.	.	.	.	.	.	.	.	C	38	6.881575	0.97908	.	.	ENSG00000173218	ENST00000355485;ENST00000369510;ENST00000310260;ENST00000369509	.	.	.	4.76	4.76	0.60689	.	0.122019	0.64402	D	0.000018	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.49607	T	0.09	-2.7749	17.9983	0.89191	0.0:1.0:0.0:0.0	.	.	.	.	X	324;322;324;324	.	ENSP00000310800:Q324X	Q	+	1	0	VANGL1	116028111	1.000000	0.71417	0.998000	0.56505	0.839000	0.47603	7.313000	0.78978	2.474000	0.83562	0.551000	0.68910	CAG		0.522	VANGL1-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000033096.1			T	116226588	C	T	116226588	4	4	576	1	0	0	0	0	0	1	0	0	17131	595	21	2	988	2	VANGL1	1	116226588	Nonsense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	56414567	116226588	133024033	7	34138										
PSMB4	5692	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	151372078	151372078	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	actaagatggaagcgtttttGgggtcgcggtccggactttg	15	7	0	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr1:151372078G>A	ENST00000290541.6	+	1	69	c.15G>A	c.(13-15)ttG>ttA	p.L5L		NM_002796.2	NP_002787.2	P28070	PSB4_HUMAN	proteasome (prosome, macropain) subunit, beta type, 4	5					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|cellular nitrogen compound metabolic process (GO:0034641)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|negative regulation of apoptotic process (GO:0043066)|negative regulation of inflammatory response to antigenic stimulus (GO:0002862)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|viral process (GO:0016032)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|proteasome complex (GO:0000502)|proteasome core complex (GO:0005839)	lipopolysaccharide binding (GO:0001530)|threonine-type endopeptidase activity (GO:0004298)			endometrium(1)|lung(9)|ovary(2)|prostate(1)|skin(1)	14	Lung SC(34;0.00471)|Ovarian(49;0.00871)|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)			AAGCGTTTTTGGGGTCGCGGT	0.542																																																0													56	61	59					1																	151372078		2202	4297	6499	SO:0001819	synonymous_variant	5692			D26600	CCDS996.1	1q21	2008-02-05			ENSG00000159377	ENSG00000159377		"Proteasome (prosome, macropain) subunits"	9541	protein-coding gene	gene with protein product		602177				7918633	Standard	NM_002796		Approved	HN3, PROS26	uc001eyc.1	P28070	OTTHUMG00000012494	ENST00000290541.6:c.15G>A	1.37:g.151372078G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9L3|P31148|Q5SZS5|Q6IBI4|Q969L6	Silent	SNP	ENST00000290541.6	37	CCDS996.1																																																																																				0.542	PSMB4-001	KNOWN	mRNA_start_NF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034885.1	NM_002796		A	151372078	G	A	151372078	2	1	576	1	0	0	0	0	0	0	0	1	12689	1339	47	2		2	PSMB4	1	151372078	Silent	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	35145490	151372078	97878543	8	34139										
C1orf66	51093	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	156705540	156705540	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tgtgcagcgggggctacagcGagtggggctagatccccagc	17	11	0	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr1:156705540G>A	ENST00000368216.4	+	7	1775	c.1145G>A	c.(1144-1146)cGa>cAa	p.R382Q	MRPL24_ENST00000478899.1_5'Flank|RRNAD1_ENST00000368218.4_Silent_p.A220A|RRNAD1_ENST00000476229.1_Silent_p.A97A	NM_015997.3	NP_057081.3	Q96FB5	RRNAD_HUMAN	ribosomal RNA adenine dimethylase domain containing 1	382						integral component of membrane (GO:0016021)	rRNA (adenine-N6,N6-)-dimethyltransferase activity (GO:0000179)			NS(1)|breast(1)|kidney(1)|large_intestine(3)|lung(3)	9						GGGCTACAGCGAGTGGGGCTA	0.547																																																0													78	71	74					1																	156705540		2203	4300	6503	SO:0001583	missense	51093			BC011382	CCDS1154.1, CCDS44246.1	1q23.1	2011-01-28	2011-01-28	2011-01-28	ENSG00000143303	ENSG00000143303			24273	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 66"	C1orf66		10810093, 310876	Standard	NM_015997		Approved	CGI-41	uc001fpu.3	Q96FB5	OTTHUMG00000041302	ENST00000368216.4:c.1145G>A	1.37:g.156705540G>A	ENSP00000357199:p.Arg382Gln	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVC7|Q4VX71|Q5SZ03|Q9Y358	Missense_Mutation	SNP	ENST00000368216.4	37	CCDS1154.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	15.21|15.21	2.764513|2.764513	0.49574|0.49574	.|.	.|.	ENSG00000143303|ENSG00000143303	ENST00000522237|ENST00000368216	.|T	.|0.47177	.|0.85	4.93|4.93	4.93|4.93	0.64822|0.64822	.|.	.|0.069785	.|0.64402	.|D	.|0.000017	T|T	0.51381|0.51381	0.1671|0.1671	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|D	.|0.69078	.|0.997	.|P	.|0.56865	.|0.808	T|T	0.55366|0.55366	-0.8152|-0.8152	4|9	.|0.59425	.|D	.|0.04	-14.6586|-14.6586	12.7396|12.7396	0.57243|0.57243	0.0:0.0:0.8351:0.1649|0.0:0.0:0.8351:0.1649	.|.	.|382	.|Q96FB5	.|RRNAD_HUMAN	K|Q	122|382	.|ENSP00000357199:R382Q	.|ENSP00000357199:R382Q	E|R	+|+	1|2	0|0	RRNAD1|RRNAD1	154972164|154972164	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.925000|0.925000	0.55904|0.55904	5.776000|5.776000	0.68924|0.68924	2.555000|2.555000	0.86185|0.86185	0.655000|0.655000	0.94253|0.94253	GAG|CGA		0.547	RRNAD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098973.1	NM_015997		A	156705540	G	A	156705540	3	1	576	1	0	0	0	0	1	0	0	0	2058	1058	37	1	1171	1	C1orf66	1	156705540	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	5333462	156705540	92545081	9	34140										
INSRR	3645	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	156823725	156823725	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tgcagcagtccccagtcaatGgtggagaggtggcagagctc	15	10	1	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr1:156823725G>A	ENST00000368195.3	-	2	852	c.456C>T	c.(454-456)acC>acT	p.T152T	NTRK1_ENST00000392302.2_Intron	NM_014215.2	NP_055030.1	P14616	INSRR_HUMAN	insulin receptor-related receptor	152					actin cytoskeleton reorganization (GO:0031532)|cellular response to alkaline pH (GO:0071469)|male sex determination (GO:0030238)|peptidyl-tyrosine phosphorylation (GO:0018108)|protein autophosphorylation (GO:0046777)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(13)|ovary(7)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)	42	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CCCAGTCAATGGTGGAGAGGT	0.642																																																0													62	55	57					1																	156823725		2203	4300	6503	SO:0001819	synonymous_variant	3645			J05046	CCDS1160.1	1q21-q23	2013-02-11			ENSG00000027644	ENSG00000027644		"Fibronectin type III domain containing"	6093	protein-coding gene	gene with protein product		147671				2768234, 2249481	Standard	NM_014215		Approved	IRR	uc010pht.2	P14616	OTTHUMG00000041291	ENST00000368195.3:c.456C>T	1.37:g.156823725G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60724|Q5VZS3	Silent	SNP	ENST00000368195.3	37	CCDS1160.1																																																																																				0.642	INSRR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098929.1	NM_014215		A	156823725	G	A	156823725	2	1	576	1	0	0	0	0	0	0	0	1	7781	1335	47	2		2	INSRR	1	156823725	Silent	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	118185	156823725	92426896	10	34141										
PLEKHA6	22874	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	204226699	204226699	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gctagaggcggcatccagctCatcataatagactggctgcc	11	12	2	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr1:204226699C>T	ENST00000272203.3	-	9	1622	c.1306G>A	c.(1306-1308)Gag>Aag	p.E436K	PLEKHA6_ENST00000414478.1_Missense_Mutation_p.E456K	NM_014935.4	NP_055750.2	Q9Y2H5	PKHA6_HUMAN	pleckstrin homology domain containing, family A member 6	436										breast(2)|endometrium(6)|kidney(1)|large_intestine(9)|lung(21)|ovary(3)|pancreas(1)|prostate(3)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	53	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			GCATCCAGCTCATCATAATAG	0.687																																																0													13	15	14					1																	204226699		2193	4292	6485	SO:0001583	missense	22874			AB023186	CCDS1444.1	1q32	2013-01-10			ENSG00000143850	ENSG00000143850		"Pleckstrin homology (PH) domain containing"	17053	protein-coding gene	gene with protein product		607771				11001876	Standard	NM_014935		Approved	PEPP3, KIAA0969	uc001hau.4	Q9Y2H5	OTTHUMG00000036057	ENST00000272203.3:c.1306G>A	1.37:g.204226699C>T	ENSP00000272203:p.Glu436Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A7MD51|Q5VTI6	Missense_Mutation	SNP	ENST00000272203.3	37	CCDS1444.1	.	.	.	.	.	.	.	.	.	.	C	21.4	4.142058	0.77775	.	.	ENSG00000143850	ENST00000272203;ENST00000414478	T;T	0.10288	2.89;3.35	5.67	5.67	0.87782	.	0.095403	0.45606	D	0.000345	T	0.29850	0.0746	L	0.54323	1.7	0.80722	D	1	D;D	0.71674	0.998;0.982	D;D	0.76071	0.987;0.952	T	0.00156	-1.1978	10	0.27785	T	0.31	-32.9148	19.7263	0.96165	0.0:1.0:0.0:0.0	.	456;436	Q5VTI5;Q9Y2H5	.;PKHA6_HUMAN	K	436;456	ENSP00000272203:E436K;ENSP00000402046:E456K	ENSP00000272203:E436K	E	-	1	0	PLEKHA6	202493322	0.998000	0.40836	0.987000	0.45799	0.762000	0.43233	3.804000	0.55568	2.837000	0.97791	0.655000	0.94253	GAG		0.687	PLEKHA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087889.3	NM_014935		T	204226699	C	T	204226699	3	4	576	1	0	0	0	0	1	0	0	0	12067	835	29	2	1896	2	PLEKHA6	1	204226699	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	47402974	204226699	45023922	11	34142										
KCNH1	3756	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	211192165	211192165	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gtggtggtggaatctgatcaGcaaaaccaatcttccctgga	11	9	3	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr1:211192165G>A	ENST00000271751.4	-	6	1019	c.992C>T	c.(991-993)gCt>gTt	p.A331V	KCNH1_ENST00000367007.4_Intron			O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H (eag-related), member 1	331					myoblast fusion (GO:0007520)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|regulation of membrane potential (GO:0042391)|synaptic transmission (GO:0007268)	nucleus (GO:0005634)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|phosphorelay sensor kinase activity (GO:0000155)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(13)|lung(35)|ovary(4)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	68				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		AATCTGATCAGCAAAACCAAT	0.448																																																0													184	165	171					1																	211192165		2203	4300	6503	SO:0001583	missense	3756			AJ001366	CCDS1496.1, CCDS31015.1	1q32.2	2012-07-05			ENSG00000143473	ENSG00000143473		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6250	protein-coding gene	gene with protein product		603305				9738473, 16382104	Standard	NM_172362		Approved	Kv10.1, eag, h-eag, eag1	uc001hib.2	O95259	OTTHUMG00000036309	ENST00000271751.4:c.992C>T	1.37:g.211192165G>A	ENSP00000271751:p.Ala331Val	Somatic		WXS	Illumina HiSeq	Phase_I	B1AQ26|O76035|Q14CL3	Missense_Mutation	SNP	ENST00000271751.4	37	CCDS1496.1	.	.	.	.	.	.	.	.	.	.	g	9.957	1.221740	0.22457	.	.	ENSG00000143473	ENST00000271751	D	0.98835	-5.17	4.23	4.23	0.50019	Ion transport (1);	0.648179	0.14275	N	0.329938	D	0.93367	0.7885	N	0.03115	-0.41	0.80722	D	1	B	0.11235	0.004	B	0.14578	0.011	D	0.89761	0.3947	10	0.29301	T	0.29	.	8.1471	0.31119	0.1091:0.0:0.8908:0.0	.	331	O95259	KCNH1_HUMAN	V	331	ENSP00000271751:A331V	ENSP00000271751:A331V	A	-	2	0	KCNH1	209258788	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	1.765000	0.38481	2.349000	0.79799	0.558000	0.71614	GCT		0.448	KCNH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088332.1	NM_002238		A	211192165	G	A	211192165	3	1	576	1	0	0	0	0	1	0	0	0	8038	971	34	2	2001	2	KCNH1	1	211192165	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	6965466	211192165	38058456	12	34143										
SPATA17	128153	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	217975148	217975148	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	atggtcctatttcttacaaaGaacaattccgaagtgaaaat	6	7	1	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr1:217975148G>T	ENST00000366933.4	+	9	1016	c.961G>T	c.(961-963)Gaa>Taa	p.E321*	SPATA17_ENST00000471021.1_3'UTR	NM_138796.2	NP_620151.1	Q96L03	SPT17_HUMAN	spermatogenesis associated 17	321						cytoplasm (GO:0005737)		p.E321Q(1)		endometrium(1)|kidney(1)|large_intestine(9)|lung(6)|pancreas(2)|prostate(1)|urinary_tract(1)	21				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		TTCTTACAAAGAACAATTCCG	0.294																																																1	Substitution - Missense(1)	urinary_tract(1)											50	51	51					1																	217975148		2200	4289	6489	SO:0001587	stop_gained	128153			AK098591	CCDS1519.1	1q41	2008-02-05			ENSG00000162814	ENSG00000162814			25184	protein-coding gene	gene with protein product	"IQ motif containing H"	611032				16395525	Standard	NM_138796		Approved	IQCH	uc001hlh.1	Q96L03	OTTHUMG00000037875	ENST00000366933.4:c.961G>T	1.37:g.217975148G>T	ENSP00000355900:p.Glu321*	Somatic		WXS	Illumina HiSeq	Phase_I	A5D6N2	Nonsense_Mutation	SNP	ENST00000366933.4	37	CCDS1519.1	.	.	.	.	.	.	.	.	.	.	G	14.64	2.596073	0.46318	.	.	ENSG00000162814	ENST00000366933	.	.	.	4.9	-9.8	0.00490	.	0.673920	0.13287	N	0.399280	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	5.0379	3.3861	0.07272	0.4661:0.3189:0.0955:0.1195	.	.	.	.	X	321	.	ENSP00000355900:E321X	E	+	1	0	SPATA17	216041771	0.011000	0.17503	0.000000	0.03702	0.106000	0.19336	0.664000	0.25068	-2.528000	0.00493	-0.253000	0.11424	GAA		0.294	SPATA17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092433.2	NM_138796		T	217975148	G	T	217975148	4	4	576	1	0	0	0	0	0	1	0	0	15014	943	33	4	995	4	SPATA17	1	217975148	Nonsense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	6782983	217975148	31275473	13	34144										
OBSCN	84033	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	228494234	228494234	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gccgggagccacggcttcagGgctgcaccgcggagctggtg	18	13	1	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr1:228494234G>A	ENST00000422127.1	+	44	11865	c.11821G>A	c.(11821-11823)Ggc>Agc	p.G3941S	OBSCN_ENST00000284548.11_Missense_Mutation_p.G3941S|OBSCN_ENST00000366707.4_Missense_Mutation_p.G1575S|OBSCN_ENST00000570156.2_Missense_Mutation_p.G4898S|OBSCN_ENST00000366709.4_Missense_Mutation_p.G1060S	NM_001098623.2	NP_001092093.2	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF	3941	Ig-like 40.				apoptotic signaling pathway (GO:0097190)|multicellular organismal development (GO:0007275)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|protein localization to M-band (GO:0036309)|regulation of small GTPase mediated signal transduction (GO:0051056)|sarcomere organization (GO:0045214)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|M band (GO:0031430)|myofibril (GO:0030016)|Z disc (GO:0030018)	ankyrin binding (GO:0030506)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			NS(2)|breast(7)|central_nervous_system(5)|cervix(2)|endometrium(30)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(37)|lung(89)|ovary(8)|pancreas(3)|prostate(13)|skin(6)|stomach(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	223		Prostate(94;0.0405)				ACGGCTTCAGGGCTGCACCGC	0.632																																																0													31	35	34					1																	228494234		1988	4166	6154	SO:0001583	missense	84033			AJ002535	CCDS1570.2, CCDS58065.1, CCDS59204.1	1q42	2014-09-17			ENSG00000154358	ENSG00000154358		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	15719	protein-coding gene	gene with protein product		608616				11448995, 11814696	Standard	NM_001098623		Approved	KIAA1556, UNC89, KIAA1639, ARHGEF30	uc001hsq.2	Q5VST9	OTTHUMG00000039772	ENST00000422127.1:c.11821G>A	1.37:g.228494234G>A	ENSP00000409493:p.Gly3941Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q2A664|Q5T7G8|Q5T7G9|Q5VSU2|Q86YC7|Q8NHN0|Q8NHN1|Q8NHN2|Q8NHN3|Q8NHN4|Q8NHN5|Q8NHN6|Q8NHN7|Q8NHN8|Q8NHN9|Q96AA2|Q9HCD3|Q9HCL6	Missense_Mutation	SNP	ENST00000422127.1	37	CCDS58065.1	.	.	.	.	.	.	.	.	.	.	G	18.45	3.626354	0.66901	.	.	ENSG00000154358	ENST00000284548;ENST00000422127;ENST00000366707;ENST00000366709	T;T;T;T	0.67698	-0.28;-0.28;-0.28;-0.28	5.28	5.28	0.74379	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.071555	0.53938	D	0.000043	D	0.85452	0.5700	M	0.89968	3.075	0.32886	D	0.511166	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.992	D	0.89300	0.3625	10	0.48119	T	0.1	.	18.9154	0.92503	0.0:0.0:1.0:0.0	.	3941;3941	Q5VST9;Q5VST9-3	OBSCN_HUMAN;.	S	3941;3941;1575;1060	ENSP00000284548:G3941S;ENSP00000409493:G3941S;ENSP00000355668:G1575S;ENSP00000355670:G1060S	ENSP00000284548:G3941S	G	+	1	0	OBSCN	226560857	1.000000	0.71417	0.595000	0.28798	0.119000	0.20118	7.341000	0.79300	2.488000	0.83962	0.462000	0.41574	GGC		0.632	OBSCN-204	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_052843		A	228494234	G	A	228494234	3	1	576	1	0	0	0	0	1	0	0	0	10819	1232	43	2	11991	2	OBSCN	1	228494234	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	10519086	228494234	20756387	14	34145										
OR2L8	391190	hgsc.bcm.edu	37	chr1	248112762	248112763	+	Frame_Shift_Del	DEL	TG	TG	-													0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gagggcacagtgtttttgagTgccaccatctttctcgtgtt					rs34851853|rs4925790|rs4925789	byFrequency	TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr1:248112762_248112763delTG	ENST00000357191.3	+	1	603_604	c.603_604delTG	c.(601-606)agtgccfs	p.A202fs	OR2L13_ENST00000366478.2_Intron	NM_001001963.1	NP_001001963.1	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L, member 8 (gene/pseudogene)	202			A -> T (in dbSNP:rs4925790).			integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(1)|kidney(3)|large_intestine(3)|lung(30)|ovary(1)|prostate(1)|skin(3)	42	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)			TGTTTTTGAGTGCCACCATCTT	0.49																																																0																																										SO:0001589	frameshift_variant	391190			BK004459	CCDS31101.1	1q44	2013-10-10	2013-10-10		ENSG00000196936	ENSG00000196936		"GPCR / Class A : Olfactory receptors"	15014	protein-coding gene	gene with protein product			"olfactory receptor, family 2, subfamily L, member 8"				Standard	NM_001001963		Approved		uc001idt.1	Q8NGY9	OTTHUMG00000040196	ENST00000357191.3:c.603_604delTG	1.37:g.248112762_248112763delTG	ENSP00000349719:p.Ala202fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF03	Frame_Shift_Del	DEL	ENST00000357191.3	37	CCDS31101.1																																																																																				0.49	OR2L8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096853.2			-	248112763	TG	-	248112762	7	5	576	1	0	1	0	1	0	0	0	0	11016	1693	59	0	605	0	OR2L8	1	248112762	Frame_Shift_Del	DEL	TG	TCGA-DZ-6133-01A-11D-1961-08	19618528	248112762	1137859	15	34146										
PAPOLG	64895	broad.mit.edu	37	chr2	61009021	61009021	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tctgcttctaatttcacaggTaaatccatcagataggtatc	6	9	4	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr2:61009021T>C	ENST00000238714.3	+	11	1157	c.908T>C	c.(907-909)gTa>gCa	p.V303A	PAPOLG_ENST00000483370.1_3'UTR	NM_022894.3	NP_075045.2	Q9BWT3	PAPOG_HUMAN	poly(A) polymerase gamma	303					mRNA polyadenylation (GO:0006378)|RNA polyadenylation (GO:0043631)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|polynucleotide adenylyltransferase activity (GO:0004652)|RNA binding (GO:0003723)			breast(2)|central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(6)|liver(1)|lung(11)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	35	all_hematologic(2;0.0797)		LUSC - Lung squamous cell carcinoma(5;1.19e-07)|Lung(5;2.86e-06)|Epithelial(17;0.0768)			ATTTCACAGGTAAATCCATCA	0.358																																					GBM(183;1497 2932 21839 46797)											0													155	147	150					2																	61009021		2203	4300	6503	SO:0001630	splice_region_variant	64895			AC012498	CCDS1863.1	2p16.1	2008-02-08			ENSG00000115421	ENSG00000115421	2.7.7.19		14982	protein-coding gene	gene with protein product							Standard	NM_022894		Approved	FLJ12972	uc002sai.3	Q9BWT3	OTTHUMG00000129419	ENST00000238714.3:c.907-1T>C	2.37:g.61009021T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBH4|Q59G05|Q969N1|Q9H8L2|Q9HAD0	Missense_Mutation	SNP	ENST00000238714.3	37	CCDS1863.1	.	.	.	.	.	.	.	.	.	.	T	17.04	3.287040	0.59867	.	.	ENSG00000115421	ENST00000238714	.	.	.	6.07	6.07	0.98685	Poly(A) polymerase, central domain (1);	0.000000	0.85682	D	0.000000	T	0.78266	0.4256	M	0.73430	2.235	0.80722	D	1	P	0.42203	0.773	P	0.58928	0.848	T	0.79364	-0.1834	9	0.66056	D	0.02	-17.6449	16.3021	0.82825	0.0:0.0:0.0:1.0	.	303	Q9BWT3	PAPOG_HUMAN	A	303	.	ENSP00000238714:V303A	V	+	2	0	PAPOLG	60862525	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.781000	0.85668	2.326000	0.78906	0.533000	0.62120	GTA		0.358	PAPOLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251577.3	NM_022894	Missense_Mutation	C	61009021	T	C	61009021	5	2	576	1	0	0	0	0	0	0	1	0	11438	1652	57	3	950	3	PAPOLG	2	61009021	Splice_Site	SNP	T	TCGA-DZ-6133-01A-11D-1961-08		61009021	182190352	16	34147										
TGFA	7039	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	70742029	70742029	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tgttctccaaggcctggcacGcagccaacacaatacctgtt	8	14	1	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr2:70742029G>A	ENST00000295400.6	-	2	303	c.56C>T	c.(55-57)gCg>gTg	p.A19V	TGFA_ENST00000418333.2_Missense_Mutation_p.A19V|TGFA_ENST00000450929.1_Missense_Mutation_p.A25V|TGFA_ENST00000445399.1_Missense_Mutation_p.A19V|TGFA_ENST00000460808.1_5'UTR|TGFA_ENST00000444975.1_Missense_Mutation_p.A25V	NM_001099691.2|NM_003236.3	NP_001093161.1|NP_003227.1	P01135	TGFA_HUMAN	transforming growth factor, alpha	19					activation of MAPK activity (GO:0000187)|angiogenesis (GO:0001525)|cell proliferation (GO:0008283)|epidermal growth factor receptor signaling pathway (GO:0007173)|mammary gland alveolus development (GO:0060749)|MAPK cascade (GO:0000165)|negative regulation of apoptotic process (GO:0043066)|positive regulation of cell division (GO:0051781)|positive regulation of epidermal growth factor-activated receptor activity (GO:0045741)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of mitosis (GO:0045840)|response to drug (GO:0042493)|wound healing (GO:0042060)	basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|cytoplasmic vesicle (GO:0031410)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	epidermal growth factor receptor binding (GO:0005154)|growth factor activity (GO:0008083)|MAP kinase kinase activity (GO:0004708)	p.A19V(1)		haematopoietic_and_lymphoid_tissue(1)|lung(2)|prostate(1)	4						GGCCTGGCACGCAGCCAACAC	0.597																																																1	Substitution - Missense(1)	lung(1)											74	65	68					2																	70742029		2203	4300	6503	SO:0001583	missense	7039				CCDS1905.1, CCDS46316.1	2p13	2012-10-02			ENSG00000163235	ENSG00000163235			11765	protein-coding gene	gene with protein product		190170				3459638, 10552925	Standard	NM_003236		Approved		uc002sgs.4	P01135	OTTHUMG00000129669	ENST00000295400.6:c.56C>T	2.37:g.70742029G>A	ENSP00000295400:p.Ala19Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K286|Q15577|Q53SK7|Q9BS56|Q9UEI3|Q9UKM1|Q9UKM2|Q9UKM3	Missense_Mutation	SNP	ENST00000295400.6	37	CCDS1905.1	.	.	.	.	.	.	.	.	.	.	G	5.866	0.344039	0.11126	.	.	ENSG00000163235	ENST00000295400;ENST00000445399;ENST00000418333;ENST00000450929;ENST00000444975;ENST00000394241	T;T;T;T;T;T	0.17213	2.55;2.31;2.31;2.3;2.29;2.3	5.14	2.6	0.31112	.	0.377651	0.24940	N	0.034385	T	0.07098	0.0180	N	0.08118	0	0.24501	N	0.994259	B;B;B;B;B;B;B	0.02656	0.0;0.0;0.0;0.0;0.0;0.0;0.0	B;B;B;B;B;B;B	0.01281	0.0;0.0;0.0;0.0;0.0;0.0;0.0	T	0.36553	-0.9743	10	0.20519	T	0.43	.	6.2326	0.20744	0.7672:0.0:0.2328:0.0	.	25;25;19;19;19;19;19	E7EPT6;F8VNR3;P01135-5;Q9UKM3;P01135-3;P01135-2;P01135	.;.;.;.;.;.;TGFA_HUMAN	V	19;19;19;25;25;19	ENSP00000295400:A19V;ENSP00000387493:A19V;ENSP00000404099:A19V;ENSP00000414127:A25V;ENSP00000404131:A25V;ENSP00000377787:A19V	ENSP00000295400:A19V	A	-	2	0	TGFA	70595537	1.000000	0.71417	0.917000	0.36280	0.231000	0.25187	2.007000	0.40883	0.435000	0.26365	-0.345000	0.07892	GCG		0.597	TGFA-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000251870.2			A	70742029	G	A	70742029	3	1	576	1	0	0	0	0	1	0	0	0	15827	1087	38	1	446	1	TGFA	2	70742029	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	9733008	70742029	172457344	17	34148										
DCTN1	1639	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	74597431	74597431	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tttccatgagcttctggagcTtcacatgctcctgcttctct	7	13	3	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr2:74597431T>A	ENST00000361874.3	-	12	1486	c.1169A>T	c.(1168-1170)aAg>aTg	p.K390M	DCTN1_ENST00000409567.3_Missense_Mutation_p.K370M|DCTN1_ENST00000407639.2_Missense_Mutation_p.K256M|DCTN1_ENST00000495643.1_5'Flank|DCTN1_ENST00000394003.3_Missense_Mutation_p.K383M|DCTN1_ENST00000409868.1_Missense_Mutation_p.K373M|DCTN1_ENST00000409240.1_Missense_Mutation_p.K353M|DCTN1_ENST00000409438.1_Missense_Mutation_p.K256M	NM_004082.4	NP_004073.2	Q14203	DCTN1_HUMAN	dynactin 1	390					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cell death (GO:0008219)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|G2/M transition of mitotic cell cycle (GO:0000086)|melanosome transport (GO:0032402)|microtubule-based transport (GO:0010970)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|nervous system development (GO:0007399)	cell leading edge (GO:0031252)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dynactin complex (GO:0005869)|dynein complex (GO:0030286)|kinetochore (GO:0000776)|membrane (GO:0016020)|microtubule (GO:0005874)|spindle pole (GO:0000922)	motor activity (GO:0003774)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(20)|ovary(4)|prostate(1)|skin(3)	45						CTTCTGGAGCTTCACATGCTC	0.547																																																0													67	62	64					2																	74597431		2203	4300	6503	SO:0001583	missense	1639				CCDS1939.1, CCDS46341.1, CCDS46342.1, CCDS54368.1, CCDS54369.1	2p13	2014-09-17	2010-06-24		ENSG00000204843	ENSG00000204843			2711	protein-coding gene	gene with protein product	"p150 glued homolog (Drosophila)"	601143	"dynactin 1 (p150, Glued (Drosophila) homolog)"			1828535	Standard	NM_001190836		Approved		uc002skx.3	Q14203	OTTHUMG00000129963	ENST00000361874.3:c.1169A>T	2.37:g.74597431T>A	ENSP00000354791:p.Lys390Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8MY36|B4DM45|E9PFS5|E9PGE1|G5E9H4|O95296|Q6IQ37|Q9BRM9|Q9UIU1|Q9UIU2	Missense_Mutation	SNP	ENST00000361874.3	37	CCDS1939.1	.	.	.	.	.	.	.	.	.	.	T	22.0	4.229932	0.79688	.	.	ENSG00000204843	ENST00000361874;ENST00000394003;ENST00000393999;ENST00000407639;ENST00000409438;ENST00000409240;ENST00000409868;ENST00000409567	T;T;T;T;T;T;T	0.76709	-1.04;-1.04;-1.04;-1.04;-1.04;-0.99;-1.04	4.86	4.86	0.63082	.	0.000000	0.45606	D	0.000354	D	0.88738	0.6518	M	0.86953	2.85	0.80722	D	1	D;D;D;D;D;D	0.76494	0.997;0.994;0.999;0.997;0.994;0.997	D;D;D;D;D;D	0.77557	0.922;0.946;0.99;0.94;0.973;0.975	D	0.90590	0.4536	10	0.72032	D	0.01	-14.2356	13.5624	0.61797	0.0:0.0:0.0:1.0	.	370;353;390;383;256;256	E9PGE1;E9PFS5;Q14203;A8MY36;Q14203-2;G5E9H4	.;.;DCTN1_HUMAN;.;.;.	M	390;383;373;256;256;353;373;370	ENSP00000354791:K390M;ENSP00000377571:K383M;ENSP00000384844:K256M;ENSP00000387270:K256M;ENSP00000386406:K353M;ENSP00000387327:K373M;ENSP00000386843:K370M	ENSP00000354791:K390M	K	-	2	0	DCTN1	74450939	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.845000	0.86875	2.029000	0.59856	0.528000	0.53228	AAG		0.547	DCTN1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252227.3	NM_004082		A	74597431	T	A	74597431	3	1	576	1	0	0	0	0	1	0	0	0	4308	1609	56	5	2751	5	DCTN1	2	74597431	Missense_Mutation	SNP	T	TCGA-DZ-6133-01A-11D-1961-08	3855402	74597431	168601942	18	34149										
MAP4K4	9448	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	102493544	102493544	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gggaaggtctatcctcttatCaaccgaagacgatttcaaca	8	10	4	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr2:102493544C>A	ENST00000347699.4	+	24	2886	c.2886C>A	c.(2884-2886)atC>atA	p.I962I	MAP4K4_ENST00000302217.5_Silent_p.I765I|MAP4K4_ENST00000324219.4_Silent_p.I1043I|MAP4K4_ENST00000350198.4_Silent_p.I881I|MAP4K4_ENST00000425019.1_Silent_p.I995I|MAP4K4_ENST00000413150.2_Silent_p.I877I|MAP4K4_ENST00000350878.4_Silent_p.I1002I|MAP4K4_ENST00000456652.1_Silent_p.I761I	NM_001242559.1|NM_145687.3	NP_001229488.1|NP_663720.1	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase kinase 4	962	CNH. {ECO:0000255|PROSITE- ProRule:PRU00795}.|Mediates interaction with RAP2A.				intracellular signal transduction (GO:0035556)|protein phosphorylation (GO:0006468)|regulation of JNK cascade (GO:0046328)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)|small GTPase regulator activity (GO:0005083)			breast(1)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(8)|lung(15)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	41						ATCCTCTTATCAACCGAAGAC	0.453																																																0													180	175	177					2																	102493544		2019	4184	6203	SO:0001819	synonymous_variant	9448			AF096300	CCDS56130.1, CCDS74546.1	2q11.2-q12	2011-06-09			ENSG00000071054	ENSG00000071054		"Mitogen-activated protein kinase cascade / Kinase kinase kinase kinases"	6866	protein-coding gene	gene with protein product	"HPK/GCK-like kinase", "hepatocyte progenitor kinase-like/germinal center kinase-like kinase"	604666				9890973, 9734811, 9135144	Standard	NM_004834		Approved	HGK, NIK, FLH21957	uc002tbf.3	O95819	OTTHUMG00000155394	ENST00000347699.4:c.2886C>A	2.37:g.102493544C>A		Somatic		WXS	Illumina HiSeq	Phase_I	O75172|Q9NST7	Silent	SNP	ENST00000347699.4	37	CCDS56130.1	.	.	.	.	.	.	.	.	.	.	C	9.992	1.230967	0.22542	.	.	ENSG00000071054	ENST00000421882	.	.	.	5.48	5.48	0.80851	.	.	.	.	.	T	0.60314	0.2259	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.57974	-0.7718	4	.	.	.	.	8.8578	0.35238	0.15:0.7754:0.0:0.0745	.	.	.	.	K	779	.	.	Q	+	1	0	MAP4K4	101859976	0.991000	0.36638	1.000000	0.80357	0.976000	0.68499	0.386000	0.20702	2.717000	0.92951	0.655000	0.94253	CAA		0.453	MAP4K4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000339839.1	NM_004834		A	102493544	C	A	102493544	2	1	576	1	0	0	0	0	0	0	0	1	9269	816	29	4		4	MAP4K4	2	102493544	Silent	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	27896113	102493544	140705829	19	34150										
UPP2	151531	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	158971732	158971732	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	atctgtgctgggacagacagAtactgtatgtacaaaaccgg	11	8	1	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr2:158971732A>G	ENST00000005756.4	+	3	494	c.300A>G	c.(298-300)agA>agG	p.R100R	UPP2_ENST00000605860.1_Silent_p.R157R|UPP2_ENST00000409859.4_Silent_p.R157R|UPP2_ENST00000460456.1_Intron	NM_173355.3	NP_775491.1	O95045	UPP2_HUMAN	uridine phosphorylase 2	100					nucleobase-containing small molecule metabolic process (GO:0055086)|nucleoside metabolic process (GO:0009116)|nucleotide catabolic process (GO:0009166)|pyrimidine nucleobase metabolic process (GO:0006206)|pyrimidine nucleoside catabolic process (GO:0046135)|pyrimidine nucleoside salvage (GO:0043097)|small molecule metabolic process (GO:0044281)|UMP salvage (GO:0044206)|uridine metabolic process (GO:0046108)	cytosol (GO:0005829)|type III intermediate filament (GO:0045098)	uridine phosphorylase activity (GO:0004850)			breast(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(11)|ovary(1)|prostate(2)|skin(1)|urinary_tract(1)	31					Fluorouracil(DB00544)	GGACAGACAGATACTGTATGT	0.458																																																0													105	104	104					2																	158971732		2203	4300	6503	SO:0001819	synonymous_variant	151531			AY225131	CCDS2207.1, CCDS46435.1	2q24.2	2008-02-05			ENSG00000007001	ENSG00000007001			23061	protein-coding gene	gene with protein product						12849978	Standard	NM_173355		Approved	UPASE2, UP2, UDRPASE2	uc002tzo.3	O95045	OTTHUMG00000131969	ENST00000005756.4:c.300A>G	2.37:g.158971732A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KV87	Silent	SNP	ENST00000005756.4	37	CCDS2207.1																																																																																				0.458	UPP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254929.2	NM_173355		G	158971732	A	G	158971732	2	3	576	1	0	0	0	0	0	0	0	1	17025	330	12	3		3	UPP2	2	158971732	Silent	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	56478188	158971732	84227641	20	34151										
TTN	7273	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	179468605	179468605	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	aaacggaagcatacttacatAtgggatctcctgcaacctct	7	11	2	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr2:179468605A>G	ENST00000591111.1	-	232	50110	c.49886T>C	c.(49885-49887)aTa>aCa	p.I16629T	TTN-AS1_ENST00000592750.1_RNA|TTN_ENST00000342175.6_Missense_Mutation_p.I9397T|TTN_ENST00000342992.6_Missense_Mutation_p.I15702T|TTN-AS1_ENST00000592630.1_RNA|TTN_ENST00000359218.5_Missense_Mutation_p.I9330T|TTN_ENST00000460472.2_Missense_Mutation_p.I9205T|TTN-AS1_ENST00000419746.1_RNA|TTN-AS1_ENST00000589907.1_RNA|TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000589487.1_RNA|TTN-AS1_ENST00000586452.1_RNA|TTN-AS1_ENST00000589234.1_RNA|TTN-AS1_ENST00000590807.1_RNA|TTN-AS1_ENST00000456053.1_RNA|TTN-AS1_ENST00000589830.1_RNA|TTN_ENST00000589042.1_Missense_Mutation_p.I18270T			Q8WZ42	TITIN_HUMAN	titin	16629			I -> M. {ECO:0000269|PubMed:17344846}.		adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATACTTACATATGGGATCTCC	0.398																																																0													65	62	63					2																	179468605		1886	4096	5982	SO:0001583	missense	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.49886T>C	2.37:g.179468605A>G	ENSP00000465570:p.Ile16629Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	A	10.22	1.289353	0.23478	.	.	ENSG00000155657	ENST00000342992;ENST00000460472;ENST00000342175;ENST00000359218;ENST00000356127	T;T;T;T	0.42131	0.98;0.98;0.98;0.98	6.06	4.85	0.62838	Peptidase C2, calpain, large subunit, domain III (1);Ribonuclease H-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.36276	0.0961	L	0.52759	1.655	0.33898	D	0.638219	B;B;B;B	0.32245	0.361;0.361;0.361;0.361	B;B;B;B	0.24155	0.051;0.051;0.051;0.051	T	0.55490	-0.8133	9	0.87932	D	0	.	12.2928	0.54827	0.8732:0.0:0.0:0.1268	.	9205;9330;9397;16629	D3DPF9;E7EQE6;E7ET18;Q8WZ42	.;.;.;TITIN_HUMAN	T	15702;9205;9397;9330;9205	ENSP00000343764:I15702T;ENSP00000434586:I9205T;ENSP00000340554:I9397T;ENSP00000352154:I9330T	ENSP00000340554:I9397T	I	-	2	0	TTN	179176850	1.000000	0.71417	0.999000	0.59377	0.935000	0.57460	1.934000	0.40163	2.323000	0.78572	0.528000	0.53228	ATA		0.398	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		G	179468605	A	G	179468605	3	3	576	1	0	0	0	0	1	0	0	0	16747	449	16	3	53208	3	TTN	2	179468605	Missense_Mutation	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	20496873	179468605	63730768	21	34152										
RPL37A	6168	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	217364692	217364692	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	accaagatgaagagacgagcTgtggggatctggcactgtgg	16	7	1	3			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr2:217364692T>A	ENST00000491306.1	+	3	839	c.153T>A	c.(151-153)gcT>gcA	p.A51A	AC098820.3_ENST00000438978.1_RNA|RPL37A_ENST00000441179.2_Silent_p.A27A|RPL37A_ENST00000598925.1_Silent_p.A27A|AC098820.3_ENST00000453157.1_RNA|RPL37A_ENST00000446558.1_Silent_p.A51A|RPL37A_ENST00000456586.1_Silent_p.A27A|RPL37A_ENST00000600880.1_Silent_p.A51A|RPL37A_ENST00000427280.2_Silent_p.A27A	NM_000998.4	NP_000989.1	P61513	RL37A_HUMAN	ribosomal protein L37a	51					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|structural constituent of ribosome (GO:0003735)			NS(1)|ovary(1)	2		Renal(323;0.0458)		Epithelial(149;3.51e-06)|all cancers(144;0.000249)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGAGACGAGCTGTGGGGATCT	0.443																																																0													129	125	126					2																	217364692		2203	4300	6503	SO:0001819	synonymous_variant	6168				CCDS2404.1	2q35	2011-04-06			ENSG00000197756	ENSG00000197756		"L ribosomal proteins"	10348	protein-coding gene	gene with protein product		613314				1437567	Standard	NM_000998		Approved	L37A	uc002vgf.3	P61513	OTTHUMG00000133052	ENST00000491306.1:c.153T>A	2.37:g.217364692T>A		Somatic		WXS	Illumina HiSeq	Phase_I	P12751|Q6FGF5	Silent	SNP	ENST00000491306.1	37	CCDS2404.1																																																																																				0.443	RPL37A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256665.2	NM_000998		A	217364692	T	A	217364692	2	1	576	1	0	0	0	0	0	0	0	1	13603	1567	55	5		5	RPL37A	2	217364692	Silent	SNP	T	TCGA-DZ-6133-01A-11D-1961-08	37896087	217364692	25834681	22	34153										
SP110	3431	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	231077477	231077477	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gatgggatctgtttctcaccTgaagtgcttcttccttcctg	9	11	3	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr2:231077477T>G	ENST00000358662.4	-	4	660	c.582A>C	c.(580-582)tcA>tcC	p.S194S	SP110_ENST00000258382.5_Splice_Site_p.S194S|SP110_ENST00000392048.3_Splice_Site_p.S194S|SP110_ENST00000486146.2_5'UTR|SP110_ENST00000338556.3_5'UTR|SP110_ENST00000540870.1_Splice_Site_p.S200S|SP110_ENST00000258381.6_Splice_Site_p.S194S	NM_004509.3	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein	194					regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)|signal transducer activity (GO:0004871)|zinc ion binding (GO:0008270)			breast(4)|endometrium(3)|large_intestine(5)|lung(8)|ovary(2)|prostate(1)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	29		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		GTTTCTCACCTGAAGTGCTTC	0.532																																																0													222	217	219					2																	231077477		2203	4300	6503	SO:0001630	splice_region_variant	3431			L22343	CCDS2474.1, CCDS2475.1, CCDS2476.1, CCDS54435.1	2q37.1	2014-09-17	2001-12-19	2001-12-20	ENSG00000135899	ENSG00000135899			5401	protein-coding gene	gene with protein product		604457	"interferon-induced protein 41, 30kD"	IFI41, IFI75		7693701, 10388521	Standard	NM_080424		Approved		uc002vqg.3	Q9HB58	OTTHUMG00000133204	ENST00000358662.4:c.583+1A>C	2.37:g.231077477T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DVI4|F5H1M1|Q14976|Q14977|Q53TG2|Q8WUZ6|Q9HCT8	Silent	SNP	ENST00000358662.4	37	CCDS2474.1																																																																																				0.532	SP110-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000332414.1	NM_080424	Silent	G	231077477	T	G	231077477	5	3	576	1	0	0	0	0	0	0	1	0	14974	1594	55	5	1687	5	SP110	2	231077477	Splice_Site	SNP	T	TCGA-DZ-6133-01A-11D-1961-08	13712785	231077477	12121896	23	34154										
NBEAL2	23218	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	47049869	47049869	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ctggacctattttccacctgGcattggggtccgaaggccag	12	12	0	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr3:47049869G>A	ENST00000450053.3	+	51	7995	c.7816G>A	c.(7816-7818)Gca>Aca	p.A2606T	NBEAL2_ENST00000383740.2_Missense_Mutation_p.A855T|NBEAL2_ENST00000292309.5_Missense_Mutation_p.A2422T	NM_015175.2	NP_055990.1	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	2606					blood coagulation (GO:0007596)|megakaryocyte development (GO:0035855)|platelet alpha granule organization (GO:0070889)|platelet formation (GO:0030220)	endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)				NS(1)|breast(1)|central_nervous_system(3)|cervix(2)|endometrium(8)|kidney(5)|large_intestine(9)|lung(9)|ovary(4)|pancreas(1)|prostate(3)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	51		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)		TTTCCACCTGGCATTGGGGTC	0.597																																																0													49	48	48					3																	47049869		2037	4171	6208	SO:0001583	missense	23218			AB011112	CCDS46817.1	3p21.31	2014-09-17			ENSG00000160796	ENSG00000160796		"WD repeat domain containing"	31928	protein-coding gene	gene with protein product		614169					Standard	NM_015175		Approved	KIAA0540	uc003cqp.3	Q6ZNJ1	OTTHUMG00000156497	ENST00000450053.3:c.7816G>A	3.37:g.47049869G>A	ENSP00000415034:p.Ala2606Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O60288|Q6P994|Q6UX91|Q8NAC9	Missense_Mutation	SNP	ENST00000450053.3	37	CCDS46817.1	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	G|G|G	16.62|16.62|16.62	3.173416|3.173416|3.173416	0.57584|0.57584|0.57584	.|.|.	.|.|.	ENSG00000160796|ENSG00000160796|ENSG00000160796	ENST00000292309;ENST00000383740;ENST00000450053;ENST00000445550|ENST00000443829|ENST00000416683	T;T;T|.|.	0.20069|.|.	2.1;2.1;2.1|.|.	5.15|5.15|5.15	5.15|5.15|5.15	0.70609|0.70609|0.70609	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);|.|.	0.716976|.|.	0.13800|.|.	N|.|.	0.361890|.|.	T|T|.	0.71558|0.71558|.	0.3354|0.3354|.	M|M|M	0.61703|0.61703|0.61703	1.905|1.905|1.905	0.38807|0.38807|0.38807	D|D|D	0.955327|0.955327|0.955327	B;B|.|.	0.26845|.|.	0.161;0.007|.|.	B;B|.|.	0.23852|.|.	0.049;0.01|.|.	T|T|.	0.71686|0.71686|.	-0.4518|-0.4518|.	10|5|.	0.33141|.|.	T|.|.	0.24|.|.	.|.|.	16.1634|16.1634|16.1634	0.81734|0.81734|0.81734	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.|.	2422;2606|.|.	Q6ZNJ1-2;Q6ZNJ1|.|.	.;NBEL2_HUMAN|.|.	T|D|X	2422;855;2606;549|944|1893	ENSP00000292309:A2422T;ENSP00000373246:A855T;ENSP00000415034:A2606T|.|.	ENSP00000292309:A2422T|.|.	A|G|W	+|+|+	1|2|3	0|0|0	NBEAL2|NBEAL2|NBEAL2	47024873|47024873|47024873	1.000000|1.000000|1.000000	0.71417|0.71417|0.71417	0.988000|0.988000|0.988000	0.46212|0.46212|0.46212	0.695000|0.695000|0.695000	0.40330|0.40330|0.40330	4.551000|4.551000|4.551000	0.60740|0.60740|0.60740	2.669000|2.669000|2.669000	0.90835|0.90835|0.90835	0.561000|0.561000|0.561000	0.74099|0.74099|0.74099	GCA|GGC|TGG		0.597	NBEAL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344363.3	XM_291064		A	47049869	G	A	47049869	3	1	576	1	0	0	0	0	1	0	0	0	10196	1203	42	2	8018	2	NBEAL2	3	47049869	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08		47049869	150972561	24	34155										
NICN1	84276	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	49463424	49463424	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gatattctagccatgtcacaCagcatctgacacacacacac	5	14	3	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr3:49463424C>G	ENST00000273598.3	-	3	401	c.315G>C	c.(313-315)ctG>ctC	p.L105L	NICN1_ENST00000422593.1_5'UTR|NICN1_ENST00000436744.2_Intron|NICN1-AS1_ENST00000424915.1_RNA	NM_032316.3	NP_115692.1	Q9BSH3	NICN1_HUMAN	nicolin 1	105						microtubule (GO:0005874)|nucleus (GO:0005634)				kidney(1)|large_intestine(3)|lung(1)	5				BRCA - Breast invasive adenocarcinoma(193;4.52e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CCATGTCACACAGCATCTGAC	0.567																																																0													87	65	72					3																	49463424		2203	4300	6503	SO:0001819	synonymous_variant	84276			AJ299740	CCDS2798.1	3p21.31	2008-07-18			ENSG00000145029	ENSG00000145029			18317	protein-coding gene	gene with protein product		611516				12392556	Standard	NM_032316		Approved	MGC12936	uc003cwz.1	Q9BSH3	OTTHUMG00000156848	ENST00000273598.3:c.315G>C	3.37:g.49463424C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IZQ2	Silent	SNP	ENST00000273598.3	37	CCDS2798.1																																																																																				0.567	NICN1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346224.3	NM_032316		G	49463424	C	G	49463424	2	3	576	1	0	0	0	0	0	0	0	1	10420	465	17	4		4	NICN1	3	49463424	Silent	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	2413555	49463424	148559006	25	34156										
SFMBT1	51460	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	52988412	52988412	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	agcttaattctacctcttccAtaccagagccggcatctaga	6	13	3	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr3:52988412A>G	ENST00000394752.3	-	3	426	c.44T>C	c.(43-45)aTg>aCg	p.M15T	SFMBT1_ENST00000470575.1_5'UTR|SFMBT1_ENST00000296295.6_Missense_Mutation_p.M15T|SFMBT1_ENST00000394750.1_Missense_Mutation_p.M15T|SFMBT1_ENST00000358080.2_Missense_Mutation_p.M15T	NM_016329.3	NP_057413.2	Q9UHJ3	SMBT1_HUMAN	Scm-like with four mbt domains 1	15					cell differentiation (GO:0030154)|chromatin modification (GO:0016568)|negative regulation of muscle organ development (GO:0048635)|negative regulation of transcription, DNA-templated (GO:0045892)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	histone binding (GO:0042393)|transcription corepressor activity (GO:0003714)			breast(2)|endometrium(3)|kidney(3)|large_intestine(8)|lung(4)|ovary(1)|pancreas(1)|prostate(1)|skin(1)	24				BRCA - Breast invasive adenocarcinoma(193;9.91e-05)|Kidney(197;0.000644)|KIRC - Kidney renal clear cell carcinoma(197;0.000792)|OV - Ovarian serous cystadenocarcinoma(275;0.113)		TACCTCTTCCATACCAGAGCC	0.333																																																0													111	116	114					3																	52988412		2203	4300	6503	SO:0001583	missense	51460			AF168132	CCDS2867.1	3p21.31	2013-01-10			ENSG00000163935	ENSG00000163935		"Sterile alpha motif (SAM) domain containing"	20255	protein-coding gene	gene with protein product		607319				10661410	Standard	NM_016329		Approved	RU1, DKFZp434L243, SFMBT	uc003dgh.3	Q9UHJ3	OTTHUMG00000159052	ENST00000394752.3:c.44T>C	3.37:g.52988412A>G	ENSP00000378235:p.Met15Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q402F7|Q96C73|Q9Y4Q9	Missense_Mutation	SNP	ENST00000394752.3	37	CCDS2867.1	.	.	.	.	.	.	.	.	.	.	A	11.09	1.536575	0.27475	.	.	ENSG00000163935	ENST00000394752;ENST00000358080;ENST00000296295;ENST00000394750;ENST00000482396;ENST00000483069;ENST00000497586	T;T;T;T;T;T	0.40756	2.62;2.62;2.62;2.62;2.03;1.02	5.7	5.7	0.88788	.	0.544403	0.20072	N	0.099858	T	0.31827	0.0809	N	0.24115	0.695	0.28463	N	0.915804	B	0.02656	0.0	B	0.17722	0.019	T	0.13335	-1.0513	10	0.24483	T	0.36	.	15.6127	0.76740	1.0:0.0:0.0:0.0	.	15	Q9UHJ3	SMBT1_HUMAN	T	15	ENSP00000378235:M15T;ENSP00000350789:M15T;ENSP00000296295:M15T;ENSP00000378233:M15T;ENSP00000418860:M15T;ENSP00000418950:M15T	ENSP00000296295:M15T	M	-	2	0	SFMBT1	52963452	1.000000	0.71417	0.990000	0.47175	0.489000	0.33432	5.542000	0.67218	2.164000	0.68074	0.477000	0.44152	ATG		0.333	SFMBT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353040.3	NM_016329		G	52988412	A	G	52988412	3	3	576	1	0	0	0	0	1	0	0	0	14170	217	8	3	2632	3	SFMBT1	3	52988412	Missense_Mutation	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	3524988	52988412	145034018	26	34157										
LRIG1	26018	broad.mit.edu	37	chr3	66460690	66460690	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tctaccaggctgttgtactcCaggtgcctgcaatgacagcc	10	13	1	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr3:66460690C>A	ENST00000273261.3	-	7	1322	c.798G>T	c.(796-798)ctG>ctT	p.L266L	LRIG1_ENST00000383703.3_Silent_p.L266L	NM_015541.2	NP_056356.2	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like domains 1	266					innervation (GO:0060384)|otolith morphogenesis (GO:0032474)|sensory perception of sound (GO:0007605)	integral component of membrane (GO:0016021)				NS(2)|breast(2)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(7)|lung(12)|ovary(3)|prostate(1)|skin(4)|stomach(4)|urinary_tract(1)	42		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		TGTTGTACTCCAGGTGCCTGC	0.567																																																0													146	136	139					3																	66460690		2203	4300	6503	SO:0001819	synonymous_variant	26018			AB050468	CCDS33783.1	3p14	2013-01-14			ENSG00000144749	ENSG00000144749		"Immunoglobulin superfamily / I-set domain containing"	17360	protein-coding gene	gene with protein product	"ortholog of mouse integral membrane glycoprotein LIG-1", "leucine-rich repeat protein LRIG1"	608868				11414704, 12234026	Standard	NM_015541		Approved	LIG-1, DKFZP586O1624, LIG1	uc003dmx.3	Q96JA1	OTTHUMG00000158727	ENST00000273261.3:c.798G>T	3.37:g.66460690C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IQ51|Q96CF9|Q9BYB8|Q9UFI4	Silent	SNP	ENST00000273261.3	37	CCDS33783.1																																																																																				0.567	LRIG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351930.1	NM_015541		A	66460690	C	A	66460690	2	1	576	1	0	0	0	0	0	0	0	1	8951	581	21	4		4	LRIG1	3	66460690	Silent	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	13472278	66460690	131561740	27	34158										
ZBTB11	27107	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	101390027	101390027	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	cagctcctttctcaataaaaAgatctcgaaaatactcgcta	4	11	2	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr3:101390027A>G	ENST00000312938.4	-	3	1305	c.725T>C	c.(724-726)cTt>cCt	p.L242P	ZBTB11_ENST00000461821.1_3'UTR	NM_014415.3	NP_055230.2	O95625	ZBT11_HUMAN	zinc finger and BTB domain containing 11	242	BTB. {ECO:0000255|PROSITE- ProRule:PRU00037}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(6)|kidney(2)|large_intestine(7)|lung(14)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	37						CTCAATAAAAAGATCTCGAAA	0.363																																																0													73	73	73					3																	101390027		2203	4300	6503	SO:0001583	missense	27107			U69274	CCDS2943.1	3q12.3	2013-01-09			ENSG00000066422	ENSG00000066422		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	16740	protein-coding gene	gene with protein product							Standard	NM_014415		Approved	ZNF-U69274, ZNF913	uc003dve.4	O95625	OTTHUMG00000159133	ENST00000312938.4:c.725T>C	3.37:g.101390027A>G	ENSP00000326200:p.Leu242Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKP9	Missense_Mutation	SNP	ENST00000312938.4	37	CCDS2943.1	.	.	.	.	.	.	.	.	.	.	A	24.1	4.495399	0.85069	.	.	ENSG00000066422	ENST00000312938	T	0.73681	-0.77	5.48	5.48	0.80851	BTB/POZ-like (2);BTB/POZ (1);BTB/POZ fold (2);	0.000000	0.85682	D	0.000000	D	0.88948	0.6576	M	0.91872	3.25	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.91470	0.5196	10	0.87932	D	0	-12.2938	15.5729	0.76354	1.0:0.0:0.0:0.0	.	242	O95625	ZBT11_HUMAN	P	242	ENSP00000326200:L242P	ENSP00000326200:L242P	L	-	2	0	ZBTB11	102872717	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.962000	0.93254	2.092000	0.63282	0.533000	0.62120	CTT		0.363	ZBTB11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353441.2	NM_014415		G	101390027	A	G	101390027	3	3	576	1	0	0	0	0	1	0	0	0	17536	72	3	3	2472	3	ZBTB11	3	101390027	Missense_Mutation	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	34929337	101390027	96632403	28	34159										
SLCO2A1	6578	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	133692538	133692538	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	aaggtgtactggtagggctcGgagaggaagtgtgggagggt	21	3	0	1	rs150677069		TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr3:133692538G>C	ENST00000310926.4	-	3	639	c.366C>G	c.(364-366)tcC>tcG	p.S122S	SLCO2A1_ENST00000493729.1_Silent_p.S122S|SLCO2A1_ENST00000478651.1_5'UTR	NM_005630.2	NP_005621.2	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family, member 2A1	122					lipid transport (GO:0006869)|sodium-independent organic anion transport (GO:0043252)|transmembrane transport (GO:0055085)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	lipid transporter activity (GO:0005319)|prostaglandin transmembrane transporter activity (GO:0015132)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(3)|large_intestine(5)|lung(10)|ovary(1)|prostate(2)|skin(2)|stomach(2)	30					Alprostadil(DB00770)|Dinoprost Tromethamine(DB01160)|Dinoprostone(DB00917)|Furosemide(DB00695)|Iloprost(DB01088)|Phenobarbital(DB01174)|Pyruvic acid(DB00119)	GGTAGGGCTCGGAGAGGAAGT	0.582																																																0													87	73	78					3																	133692538		2203	4300	6503	SO:0001819	synonymous_variant	6578				CCDS3084.1	3q21	2013-05-22	2003-11-25	2003-11-26	ENSG00000174640	ENSG00000174640		"Solute carriers"	10955	protein-coding gene	gene with protein product		601460	"solute carrier family 21 (prostaglandin transporter), member 2", "matrin F/G 1"	SLC21A2, MATR1		8787677, 9618293	Standard	NM_005630		Approved	PGT, OATP2A1	uc003eqa.4	Q92959	OTTHUMG00000159745	ENST00000310926.4:c.366C>G	3.37:g.133692538G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q86V98|Q8IUN2	Silent	SNP	ENST00000310926.4	37	CCDS3084.1																																																																																				0.582	SLCO2A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357131.1	NM_005630		C	133692538	G	C	133692538	2	2	576	1	0	0	0	0	0	0	0	1	14739	1103	39	4		4	SLCO2A1	3	133692538	Silent	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	32302511	133692538	64329892	29	34160										
ATP13A3	79572	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	194146121	194146121	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ttccttttgaaaaggcaattGccactatgaggtactgaaaa	8	7	0	3			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr3:194146121G>A	ENST00000439040.1	-	30	4054	c.3263C>T	c.(3262-3264)gCa>gTa	p.A1088V	ATP13A3_ENST00000256031.4_Missense_Mutation_p.A1088V			Q9H7F0	AT133_HUMAN	ATPase type 13A3	1088						integral component of membrane (GO:0016021)|membrane (GO:0016020)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|metal ion binding (GO:0046872)			NS(2)|endometrium(3)|kidney(3)|large_intestine(2)|lung(10)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	24	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)		AAAGGCAATTGCCACTATGAG	0.353																																																0													97	90	93					3																	194146121		1821	4076	5897	SO:0001583	missense	79572			AJ306929	CCDS43187.1	3q29	2010-04-20			ENSG00000133657	ENSG00000133657		"ATPases / P-type"	24113	protein-coding gene	gene with protein product	"ATPase family homolog up regulated in senescence cells"	610232				11867234	Standard	NM_024524		Approved	AFURS1	uc003fty.4	Q9H7F0	OTTHUMG00000156034	ENST00000439040.1:c.3263C>T	3.37:g.194146121G>A	ENSP00000416508:p.Ala1088Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC11|Q96KS1	Missense_Mutation	SNP	ENST00000439040.1	37	CCDS43187.1	.	.	.	.	.	.	.	.	.	.	G	33	5.207024	0.95033	.	.	ENSG00000133657	ENST00000439040;ENST00000256031	T;T	0.74947	-0.89;-0.89	5.53	5.53	0.82687	.	0.000000	0.85682	D	0.000000	D	0.87204	0.6119	M	0.82630	2.6	0.80722	D	1	D	0.65815	0.995	D	0.66847	0.947	D	0.87360	0.2343	10	0.49607	T	0.09	-22.6896	19.4395	0.94813	0.0:0.0:1.0:0.0	.	1088	Q9H7F0	AT133_HUMAN	V	1088	ENSP00000416508:A1088V;ENSP00000256031:A1088V	ENSP00000256031:A1088V	A	-	2	0	ATP13A3	195627410	1.000000	0.71417	0.989000	0.46669	0.980000	0.70556	9.476000	0.97823	2.591000	0.87537	0.591000	0.81541	GCA		0.353	ATP13A3-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342799.2	NM_024524		A	194146121	G	A	194146121	3	1	576	1	0	0	0	0	1	0	0	0	1125	1319	46	2	433	2	ATP13A3	3	194146121	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	60453583	194146121	3876309	30	34161										
ZBTB49	166793	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	4322599	4322599	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	cagagctcagactctttctcCcaagacacgtctgtgacgct	8	14	4	4			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr4:4322599C>A	ENST00000337872.4	+	8	1975	c.1854C>A	c.(1852-1854)tcC>tcA	p.S618S	ZBTB49_ENST00000538529.1_Silent_p.S101S|ZBTB49_ENST00000355834.3_Silent_p.S496S|RP11-265O12.1_ENST00000509015.1_lincRNA	NM_145291.3	NP_660334.3	Q6ZSB9	ZBT49_HUMAN	zinc finger and BTB domain containing 49	618					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|endometrium(3)|kidney(3)|large_intestine(5)|lung(9)|ovary(1)|prostate(1)|skin(2)|stomach(1)|urinary_tract(1)	28						ACTCTTTCTCCCAAGACACGT	0.547																																																0													54	51	52					4																	4322599		2203	4300	6503	SO:0001819	synonymous_variant	166793			AK095878	CCDS3375.1	4p16.2	2013-01-08	2010-01-26	2010-01-26	ENSG00000168826	ENSG00000168826		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	19883	protein-coding gene	gene with protein product			"zinc finger protein 509"	ZNF509		12477932	Standard	NM_145291		Approved	FLJ38559	uc003ghu.3	Q6ZSB9	OTTHUMG00000090325	ENST00000337872.4:c.1854C>A	4.37:g.4322599C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q59FJ4|Q5EBN0|Q8TB80	Silent	SNP	ENST00000337872.4	37	CCDS3375.1																																																																																				0.547	ZBTB49-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206688.3	NM_145291		A	4322599	C	A	4322599	2	1	576	1	0	0	0	0	0	0	0	1	17562	610	22	4		4	ZBTB49	4	4322599	Silent	SNP	C	TCGA-DZ-6133-01A-11D-1961-08		4322599	186831677	31	34162										
CCKAR	886	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	26483517	26483517	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ggttcctgagaggcggcgctCtgcggaggcggtgtcgtagg	20	9	1	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr4:26483517C>T	ENST00000295589.3	-	5	1224	c.1030G>A	c.(1030-1032)Gag>Aag	p.E344K		NM_000730.2	NP_000721.1	P32238	CCKAR_HUMAN	cholecystokinin A receptor	344					axonogenesis (GO:0007409)|cholecystokinin signaling pathway (GO:0038188)|digestion (GO:0007586)|feeding behavior (GO:0007631)|forebrain development (GO:0030900)|neuron migration (GO:0001764)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|response to nutrient (GO:0007584)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cholecystokinin receptor activity (GO:0004951)			NS(2)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(4)|liver(1)|lung(14)|pancreas(1)|skin(1)	29		Breast(46;0.0503)			Ceruletide(DB00403)	AGGCGGCGCTCTGCGGAGGCG	0.592																																																0													103	95	98					4																	26483517		2203	4300	6503	SO:0001583	missense	886			L19315	CCDS3438.1	4p15.2	2013-09-20			ENSG00000163394	ENSG00000163394		"GPCR / Class A : Cholecystokinin receptors"	1570	protein-coding gene	gene with protein product		118444					Standard	NM_000730		Approved		uc003gse.1	P32238	OTTHUMG00000128567	ENST00000295589.3:c.1030G>A	4.37:g.26483517C>T	ENSP00000295589:p.Glu344Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9Z5	Missense_Mutation	SNP	ENST00000295589.3	37	CCDS3438.1	.	.	.	.	.	.	.	.	.	.	C	6.038	0.375400	0.11409	.	.	ENSG00000163394	ENST00000295589	T	0.72051	-0.62	5.29	3.53	0.40419	GPCR, rhodopsin-like superfamily (1);	0.163417	0.52532	D	0.000076	T	0.49029	0.1533	N	0.11698	0.16	0.28765	N	0.900671	B	0.14012	0.009	B	0.17098	0.017	T	0.37731	-0.9693	10	0.23302	T	0.38	.	9.6172	0.39698	0.0:0.6564:0.2699:0.0737	.	344	P32238	CCKAR_HUMAN	K	344	ENSP00000295589:E344K	ENSP00000295589:E344K	E	-	1	0	CCKAR	26092615	0.886000	0.30341	0.983000	0.44433	0.058000	0.15608	1.765000	0.38481	1.205000	0.43262	0.563000	0.77884	GAG		0.592	CCKAR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250418.2			T	26483517	C	T	26483517	3	4	576	1	0	0	0	0	1	0	0	0	2882	922	32	2	260	2	CCKAR	4	26483517	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	22160918	26483517	164670759	32	34163										
ANXA3	306	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	79516549	79516549	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gtttagggcagaagagatgaAagtctgaaagtggatgagca	15	3	1	5			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr4:79516549A>G	ENST00000264908.6	+	8	877	c.498A>G	c.(496-498)gaA>gaG	p.E166E	ANXA3_ENST00000512884.1_Silent_p.E127E|ANXA3_ENST00000503570.2_Silent_p.E127E	NM_005139.2	NP_005130.1	P12429	ANXA3_HUMAN	annexin A3	166					defense response to bacterium (GO:0042742)|neutrophil degranulation (GO:0043312)|phagocytosis (GO:0006909)|positive regulation of angiogenesis (GO:0045766)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)|specific granule (GO:0042581)	calcium ion binding (GO:0005509)|calcium-dependent phospholipid binding (GO:0005544)|calcium-dependent protein binding (GO:0048306)|phospholipase A2 inhibitor activity (GO:0019834)			NS(1)|breast(1)|kidney(1)|large_intestine(1)|lung(7)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	15						GAAGAGATGAAAGTCTGAAAG	0.443																																					GBM(2;126 157 27790 28920 42492)											0													184	186	186					4																	79516549		2203	4300	6503	SO:0001819	synonymous_variant	306			M63310	CCDS3584.1	4q21.21	2009-07-10			ENSG00000138772	ENSG00000138772	3.1.4.43	"Annexins"	541	protein-coding gene	gene with protein product		106490		ANX3		1830024	Standard	XM_005262973		Approved		uc003hld.3	P12429	OTTHUMG00000130198	ENST00000264908.6:c.498A>G	4.37:g.79516549A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9W6|Q6LET2	Silent	SNP	ENST00000264908.6	37	CCDS3584.1																																																																																				0.443	ANXA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252516.3	NM_005139		G	79516549	A	G	79516549	2	3	576	1	0	0	0	0	0	0	0	1	719	11	1	3		3	ANXA3	4	79516549	Silent	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	53033032	79516549	111637727	33	34164										
PLRG1	5356	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	155470082	155470082	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gtgtgtacagaatgtttctgTacctcctaaaaaaaaagaat	7	6	1	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr4:155470082T>C	ENST00000499023.2	-	2	141	c.15A>G	c.(13-15)gtA>gtG	p.V5V	PLRG1_ENST00000302078.5_Silent_p.V5V|PLRG1_ENST00000393905.2_Silent_p.V5V	NM_001201564.1|NM_002669.3	NP_001188493.1|NP_002660.1	O43660	PLRG1_HUMAN	pleiotropic regulator 1	5					mRNA splicing, via spliceosome (GO:0000398)|positive regulation of G1/S transition of mitotic cell cycle (GO:1900087)|protein localization to nucleus (GO:0034504)|regulation of RNA biosynthetic process (GO:2001141)|signal transduction (GO:0007165)	catalytic step 2 spliceosome (GO:0071013)|nucleus (GO:0005634)	signal transducer activity (GO:0004871)|transcription corepressor activity (GO:0003714)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(11)|skin(1)|urinary_tract(1)	22	all_hematologic(180;0.215)	Renal(120;0.0854)				AATGTTTCTGTACCTCCTAAA	0.353																																																0													76	71	73					4																	155470082		2203	4300	6503	SO:0001819	synonymous_variant	5356			AF044333	CCDS34083.1, CCDS56341.1	4q31.2-q32.1	2013-01-10	2011-05-19		ENSG00000171566	ENSG00000171566		"WD repeat domain containing"	9089	protein-coding gene	gene with protein product	"transport and golgi organization 4 homolog (Drosophila)"	605961	"pleiotropic regulator 1 (PRL1, Arabidopsis homolog)", "pleiotropic regulator 1 (PRL1 homolog, Arabidopsis)"				Standard	NM_002669		Approved	PRL1, Prp46, PRPF46, Cwc1, TANGO4	uc003iny.3	O43660	OTTHUMG00000161411	ENST00000499023.2:c.15A>G	4.37:g.155470082T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KMK4|Q3KQY5|Q8WUD8	Silent	SNP	ENST00000499023.2	37	CCDS34083.1																																																																																				0.353	PLRG1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000364824.1	NM_002669		C	155470082	T	C	155470082	2	2	576	1	0	0	0	0	0	0	0	1	12113	1625	57	3		3	PLRG1	4	155470082	Silent	SNP	T	TCGA-DZ-6133-01A-11D-1961-08	75953533	155470082	35684194	34	34165										
SLC6A18	348932	broad.mit.edu	37	chr5	1225707	1225707	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ctgggtttgccgtgggactgGggaacatttggcggttccca	16	9	0	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr5:1225707G>C	ENST00000324642.3	+	1	238	c.115G>C	c.(115-117)Ggg>Cgg	p.G39R	SLC6A18_ENST00000296821.4_Missense_Mutation_p.G39R	NM_182632.2	NP_872438.2	Q96N87	S6A18_HUMAN	solute carrier family 6 (neutral amino acid transporter), member 18	39					amino acid transmembrane transport (GO:0003333)|amino acid transport (GO:0006865)|ion transport (GO:0006811)|transmembrane transport (GO:0055085)	brush border membrane (GO:0031526)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	neurotransmitter:sodium symporter activity (GO:0005328)			endometrium(1)|kidney(2)|large_intestine(3)|lung(16)|ovary(1)|prostate(1)|skin(5)|stomach(4)|upper_aerodigestive_tract(1)	34	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)			CGTGGGACTGGGGAACATTTG	0.642																																																0													115	103	107					5																	1225707		2203	4300	6503	SO:0001583	missense	348932			AK055798	CCDS3860.1	5p15	2013-07-19	2013-07-19		ENSG00000164363	ENSG00000164363		"Solute carriers"	26441	protein-coding gene	gene with protein product		610300	"solute carrier family 6 (neurotransmitter transporter), member 18", "solute carrier family 6, member 18"			19478081	Standard	NM_182632		Approved	FLJ31236, Xtrp2	uc003jby.2	Q96N87	OTTHUMG00000090356	ENST00000324642.3:c.115G>C	5.37:g.1225707G>C	ENSP00000323549:p.Gly39Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000324642.3	37	CCDS3860.1	.	.	.	.	.	.	.	.	.	.	G	17.35	3.367247	0.61513	.	.	ENSG00000164363	ENST00000324642;ENST00000296821	D;D	0.82433	-1.61;-1.61	4.12	4.12	0.48240	.	0.000000	0.64402	D	0.000001	D	0.93452	0.7911	H	0.94734	3.575	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.95588	0.8652	10	0.87932	D	0	.	16.7383	0.85453	0.0:0.0:1.0:0.0	.	39	Q96N87	S6A18_HUMAN	R	39	ENSP00000323549:G39R;ENSP00000296821:G39R	ENSP00000296821:G39R	G	+	1	0	SLC6A18	1278707	1.000000	0.71417	1.000000	0.80357	0.162000	0.22319	9.544000	0.98092	2.008000	0.58898	0.313000	0.20887	GGG		0.642	SLC6A18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206728.3	NM_182632		C	1225707	G	C	1225707	3	2	576	1	0	0	0	0	1	0	0	0	14694	1232	43	4	117	4	SLC6A18	5	1225707	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08		1225707	179689553	35	34166										
TMEM167A	153339	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	82357708	82357708	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	acacttaccaattctggcacActtccaaaatatacccaaca	2	14	1	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr5:82357708A>G	ENST00000502346.1	-	3	308	c.136T>C	c.(136-138)Tgt>Cgt	p.C46R	TMEM167A_ENST00000511450.1_5'UTR|SCARNA18_ENST00000459004.1_RNA	NM_174909.4	NP_777569.1	Q8TBQ9	KISHA_HUMAN	transmembrane protein 167A	46						Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)				large_intestine(1)|lung(1)	2						ATTCTGGCACACTTCCAAAAT	0.313																																																0													58	57	58					5																	82357708		2203	4299	6502	SO:0001583	missense	153339			BC107575, AK055070	CCDS34198.1	5q14.2	2008-06-06	2008-06-06	2008-06-06	ENSG00000174695	ENSG00000174695			28330	protein-coding gene	gene with protein product			"transmembrane protein 167"	TMEM167		1316117	Standard	NM_174909		Approved	FLJ30508, MGC23909	uc003khx.4	Q8TBQ9	OTTHUMG00000162570	ENST00000502346.1:c.136T>C	5.37:g.82357708A>G	ENSP00000424707:p.Cys46Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q0P692	Missense_Mutation	SNP	ENST00000502346.1	37	CCDS34198.1	.	.	.	.	.	.	.	.	.	.	A	14.30	2.492910	0.44352	.	.	ENSG00000174695	ENST00000502346	.	.	.	6.06	6.06	0.98353	.	0.094778	0.64402	D	0.000001	T	0.52451	0.1735	.	.	.	0.80722	D	1	B	0.02656	0.0	B	0.04013	0.001	T	0.44997	-0.9291	8	0.25106	T	0.35	.	16.2741	0.82634	1.0:0.0:0.0:0.0	.	46	Q8TBQ9	KISHA_HUMAN	R	46	.	ENSP00000424707:C46R	C	-	1	0	TMEM167A	82393464	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	7.722000	0.84778	2.322000	0.78497	0.528000	0.53228	TGT		0.313	TMEM167A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369631.2	NM_174909		G	82357708	A	G	82357708	3	3	576	1	0	0	0	0	1	0	0	0	16093	159	6	3	90	3	TMEM167A	5	82357708	Missense_Mutation	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	81132001	82357708	98557552	36	34167										
PCSK1	5122	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	95728748	95728748	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ccaccagagcttgaagcagcCggtcgtctctgtgcttgtaa	11	12	1	2	rs140941383		TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr5:95728748C>T	ENST00000311106.3	-	14	2456	c.2219G>A	c.(2218-2220)cGg>cAg	p.R740Q	PCSK1_ENST00000508626.1_Missense_Mutation_p.R693Q|CTD-2337A12.1_ENST00000502645.2_RNA|PCSK1_ENST00000513085.1_5'UTR	NM_000439.4|NM_001177876.1	NP_000430.3|NP_001171347.1	P29120	NEC1_HUMAN	proprotein convertase subtilisin/kexin type 1	740					cell-cell signaling (GO:0007267)|cellular protein metabolic process (GO:0044267)|metabolic process (GO:0008152)|peptide biosynthetic process (GO:0043043)|peptide hormone processing (GO:0016486)|proteolysis (GO:0006508)|regulation of insulin secretion (GO:0050796)	extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|secretory granule lumen (GO:0034774)	serine-type endopeptidase activity (GO:0004252)			NS(1)|endometrium(3)|kidney(3)|large_intestine(5)|lung(14)|ovary(2)|prostate(3)|skin(3)|urinary_tract(2)	36		all_cancers(142;2.67e-06)|all_epithelial(76;6.92e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0112)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;3.44e-16)	"""Insulin(DB00071)|Insulin Regular(DB00030)"	TTGAAGCAGCCGGTCGTCTCT	0.398																																																0								C	GLN/ARG,GLN/ARG,GLN/ARG	0,4406		0,0,2203	163	170	168		2219,2078,1289	5.1	1	5	dbSNP_134	168	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,missense	PCSK1	NM_000439.4,NM_001177875.1,NM_001177876.1	43,43,43	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	possibly-damaging,possibly-damaging,possibly-damaging	740/754,693/707,430/444	95728748	1,13005	2203	4300	6503	SO:0001583	missense	5122				CCDS4081.1, CCDS54881.1	5q15-q21	2008-07-18			ENSG00000175426	ENSG00000175426			8743	protein-coding gene	gene with protein product	"prohormone convertase 3", "prohormone convertase 1", "neuroendocrine convertase 1", "proprotein convertase 1"	162150		NEC1		1765368	Standard	NM_000439		Approved	PC1, PC3, SPC3	uc003kls.2	P29120	OTTHUMG00000122089	ENST00000311106.3:c.2219G>A	5.37:g.95728748C>T	ENSP00000308024:p.Arg740Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8T7|E9PHA1|P78478|Q92532	Missense_Mutation	SNP	ENST00000311106.3	37	CCDS4081.1	.	.	.	.	.	.	.	.	.	.	C	34	5.313465	0.95655	0.0	1.16E-4	ENSG00000175426	ENST00000311106;ENST00000508626	T;T	0.71341	-0.41;-0.56	6.03	5.11	0.69529	Prohormone convertase enzyme (1);	0.058685	0.64402	D	0.000001	T	0.74222	0.3688	L	0.34521	1.04	0.49130	D	0.999758	D;D	0.71674	0.997;0.998	P;P	0.59825	0.864;0.834	T	0.76364	-0.2986	10	0.72032	D	0.01	-22.6652	15.7754	0.78209	0.1369:0.8631:0.0:0.0	.	693;740	E9PHA1;P29120	.;NEC1_HUMAN	Q	740;693	ENSP00000308024:R740Q;ENSP00000421600:R693Q	ENSP00000308024:R740Q	R	-	2	0	PCSK1	95754504	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.354000	0.59417	2.861000	0.98227	0.655000	0.94253	CGG		0.398	PCSK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000242851.1	NM_000439		T	95728748	C	T	95728748	3	4	576	1	0	0	0	0	1	0	0	0	11607	652	23	1	46	1	PCSK1	5	95728748	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	13371040	95728748	85186512	37	34168										
CHD1	1105	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	98236974	98236974	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	aactgcttttctctctctctTcttcagattctgaatctgaa	4	11	7	3	rs370850474		TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr5:98236974T>C	ENST00000284049.3	-	5	652	c.503A>G	c.(502-504)gAa>gGa	p.E168G		NM_001270.2	NP_001261.2	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	168					chromatin modification (GO:0016568)|DNA duplex unwinding (GO:0032508)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA binding (GO:0003677)|methylated histone binding (GO:0035064)			NS(1)|breast(4)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(12)|ovary(2)|pancreas(1)|prostate(7)|skin(3)|urinary_tract(2)	49		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	CTCTCTCTCTTCTTCAGATTC	0.358																																																0								T	GLY/GLU	0,4406		0,0,2203	137	133	134		503	5.6	1	5		134	4,8596	3.7+/-12.6	0,4,4296	no	missense	CHD1	NM_001270.2	98	0,4,6499	CC,CT,TT		0.0465,0.0,0.0308	benign	168/1711	98236974	4,13002	2203	4300	6503	SO:0001583	missense	1105			AF006513	CCDS34204.1	5q15-q21	2008-07-18			ENSG00000153922	ENSG00000153922			1915	protein-coding gene	gene with protein product		602118				8460153, 9326634	Standard	XM_005271866		Approved		uc003knf.3	O14646	OTTHUMG00000162744	ENST00000284049.3:c.503A>G	5.37:g.98236974T>C	ENSP00000284049:p.Glu168Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RZ3	Missense_Mutation	SNP	ENST00000284049.3	37	CCDS34204.1	.	.	.	.	.	.	.	.	.	.	T	13.94	2.388330	0.42308	0.0	4.65E-4	ENSG00000153922	ENST00000284049;ENST00000540681	D	0.90385	-2.66	5.62	5.62	0.85841	.	0.000000	0.34507	U	0.003918	D	0.82986	0.5156	N	0.14661	0.345	0.51012	D	0.999905	B	0.16603	0.018	B	0.16722	0.016	T	0.78352	-0.2237	10	0.34782	T	0.22	.	14.6925	0.69096	0.0:0.0:0.0:1.0	.	168	O14646	CHD1_HUMAN	G	168	ENSP00000284049:E168G	ENSP00000284049:E168G	E	-	2	0	CHD1	98264874	1.000000	0.71417	1.000000	0.80357	0.960000	0.62799	2.936000	0.48971	2.254000	0.74563	0.528000	0.53228	GAA		0.358	CHD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370295.1	NM_001270		C	98236974	T	C	98236974	3	2	576	1	0	0	0	0	1	0	0	0	3325	1783	62	3	4753	3	CHD1	5	98236974	Missense_Mutation	SNP	T	TCGA-DZ-6133-01A-11D-1961-08	2508226	98236974	82678286	38	34169										
SLC25A46	91137	hgsc.bcm.edu	37	chr5	110075085	110075085	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ccagtggcggcggcggcagtGtgcaggggcagagcagtggt	21	9	0	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr5:110075085G>C	ENST00000355943.3	+	1	391	c.265G>C	c.(265-267)Gtg>Ctg	p.V89L	SLC25A46_ENST00000513807.1_Intron|SLC25A46_ENST00000509442.2_Intron|SLC25A46_ENST00000447245.2_Missense_Mutation_p.V89L|SLC25A46_ENST00000504098.1_5'Flank	NM_138773.1	NP_620128.1	Q96AG3	S2546_HUMAN	solute carrier family 25, member 46	89					transport (GO:0006810)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)				breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(4)|skin(1)	10		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)		CGGCGGCAGTGTGCAGGGGCA	0.701																																																0													8	10	9					5																	110075085		2151	4219	6370	SO:0001583	missense	91137			BC017169	CCDS4100.1	5q22.1	2013-05-22			ENSG00000164209	ENSG00000164209		"Solute carriers"	25198	protein-coding gene	gene with protein product		610826				1651562, 1651563, 16949250	Standard	NM_138773		Approved		uc003koz.3	Q96AG3	OTTHUMG00000128794	ENST00000355943.3:c.265G>C	5.37:g.110075085G>C	ENSP00000348211:p.Val89Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2F2|B3KRE6|B4DTA3|D3DSZ6|D6R9W7|Q04197	Missense_Mutation	SNP	ENST00000355943.3	37	CCDS4100.1	.	.	.	.	.	.	.	.	.	.	G	12.49	1.953454	0.34471	.	.	ENSG00000164209	ENST00000355943;ENST00000447245	D;D	0.82711	-1.64;-1.64	4.89	1.97	0.26223	.	1.857370	0.02892	N	0.134256	T	0.66577	0.2803	N	0.08118	0	0.21416	N	0.999695	B	0.06786	0.001	B	0.04013	0.001	T	0.54193	-0.8330	10	0.15952	T	0.53	4.363	5.3308	0.15932	0.0812:0.147:0.6292:0.1426	.	89	Q96AG3	S2546_HUMAN	L	89	ENSP00000348211:V89L;ENSP00000399717:V89L	ENSP00000348211:V89L	V	+	1	0	SLC25A46	110102984	0.890000	0.30428	0.002000	0.10522	0.597000	0.36814	3.981000	0.56902	0.199000	0.20427	0.655000	0.94253	GTG		0.701	SLC25A46-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250721.5	NM_138773		C	110075085	G	C	110075085	3	2	576	1	0	0	0	0	1	0	0	0	14524	1377	48	4	267	4	SLC25A46	5	110075085	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	11838111	110075085	70840175	39	34170										
KIF20A	10112	ucsc.edu	37	chr5	137519414	137519415	+	Missense_Mutation	DNP	GG	GG	TT													0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tcaggatcctacaccttcagGgggaaggagatatagtcccc							TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr5:137519414_137519415GG>TT	ENST00000394894.3	+	10	1403_1404	c.1177_1178GG>TT	c.(1177-1179)GGg>TTg	p.G393L	KIF20A_ENST00000508792.1_Missense_Mutation_p.G375L	NM_005733.2	NP_005724.1	O95235	KI20A_HUMAN	kinesin family member 20A	393	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				ATP catabolic process (GO:0006200)|cytokinesis (GO:0000910)|metabolic process (GO:0008152)|microtubule bundle formation (GO:0001578)|microtubule-based movement (GO:0007018)|mitotic cell cycle (GO:0000278)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	Golgi apparatus (GO:0005794)|kinesin complex (GO:0005871)|microtubule (GO:0005874)|nucleoplasm (GO:0005654)|spindle (GO:0005819)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)|protein kinase binding (GO:0019901)|transporter activity (GO:0005215)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(3)|liver(2)|lung(9)|prostate(2)|upper_aerodigestive_tract(1)	27			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			ACACCTTCAGGGGGAAGGAGAT	0.426																																																0																																										SO:0001583	missense	10112			AF070672	CCDS4199.1	5q31	2008-02-05	2003-01-13	2003-01-17	ENSG00000112984	ENSG00000112984		"Kinesins"	9787	protein-coding gene	gene with protein product		605664	"RAB6 interacting, kinesin-like (rabkinesin6)"	RAB6KIFL		11416179, 10806357	Standard	NM_005733		Approved		uc003lcj.3	O95235	OTTHUMG00000129195	Exception_encountered	5.37:g.137519414_137519415delinsTT	ENSP00000378356:p.Gly393Leu	Somatic		WXS	Illumina HiSeq		B4DL79|D3DQB6	Missense_Mutation	DNP	ENST00000394894.3	37	CCDS4199.1																																																																																				0.426	KIF20A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251272.1	NM_005733		TT	137519415	GG	TT	137519414	3	4	576	1	0	0	0	0	1	0	0	0	8293	1232	43	4	1211	4	KIF20A	5	137519414	Missense_Mutation	DNP	GG	TCGA-DZ-6133-01A-11D-1961-08	27444329	137519414	43395846	40	34171										
HDAC3	8841	ucsc.edu	37	chr5	141007714	141007714	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	cacgtgggttggtagaagtcCactacctggttgataaccgg	13	9	0	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr5:141007714C>A	ENST00000305264.3	-	9	811	c.732G>T	c.(730-732)gtG>gtT	p.V244V	HDAC3_ENST00000469207.1_5'Flank|AC008781.7_ENST00000422040.2_RNA	NM_003883.3	NP_003874.2	O15379	HDAC3_HUMAN	histone deacetylase 3	244	Histone deacetylase.				cellular lipid metabolic process (GO:0044255)|chromatin modification (GO:0016568)|circadian regulation of gene expression (GO:0032922)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell cycle (GO:0045786)|negative regulation of JNK cascade (GO:0046329)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch signaling pathway (GO:0007219)|protein deacetylation (GO:0006476)|regulation of mitotic cell cycle (GO:0007346)|regulation of multicellular organism growth (GO:0040014)|small molecule metabolic process (GO:0044281)|spindle assembly (GO:0051225)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|histone deacetylase complex (GO:0000118)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle microtubule (GO:0005876)|transcriptional repressor complex (GO:0017053)	chromatin binding (GO:0003682)|chromatin DNA binding (GO:0031490)|cyclin binding (GO:0030332)|enzyme binding (GO:0019899)|histone deacetylase activity (GO:0004407)|histone deacetylase binding (GO:0042826)|NAD-dependent histone deacetylase activity (H3-K14 specific) (GO:0032041)|NAD-dependent histone deacetylase activity (H3-K18 specific) (GO:0097372)|NAD-dependent histone deacetylase activity (H3-K9 specific) (GO:0046969)|NAD-dependent histone deacetylase activity (H4-K16 specific) (GO:0046970)|protein deacetylase activity (GO:0033558)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)			endometrium(1)|large_intestine(2)|lung(3)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	13			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Vorinostat(DB02546)	GGTAGAAGTCCACTACCTGGT	0.557																																																0													94	79	84					5																	141007714		2203	4300	6503	SO:0001819	synonymous_variant	8841			AF059650	CCDS4264.1	5q31.1-q31.2	2008-07-18			ENSG00000171720	ENSG00000171720	3.5.1.98		4854	protein-coding gene	gene with protein product		605166				9501169, 9464271	Standard	NM_003883		Approved	RPD3, HD3, RPD3-2	uc003llf.2	O15379	OTTHUMG00000129629	ENST00000305264.3:c.732G>T	5.37:g.141007714C>A		Somatic		WXS	Illumina HiSeq		D3DQE1|O43268|Q9UEI5|Q9UEV0	Silent	SNP	ENST00000305264.3	37	CCDS4264.1																																																																																				0.557	HDAC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251824.2	NM_003883		A	141007714	C	A	141007714	2	1	576	1	0	0	0	0	0	0	0	1	7015	581	21	4		4	HDAC3	5	141007714	Silent	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	3488300	141007714	39907546	41	34172										
GTF2H4	2968	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	30877829	30877829	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	cgccagaacctccgcattgcCcttctgggtgggtatgtcac	11	14	2	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr6:30877829C>T	ENST00000259895.4	+	4	586	c.363C>T	c.(361-363)gcC>gcT	p.A121A	GTF2H4_ENST00000376316.2_Silent_p.A121A|RN7SL175P_ENST00000580375.1_RNA|GTF2H4_ENST00000539324.1_Silent_p.A65A	NM_001517.4	NP_001508.1	Q92759	TF2H4_HUMAN	general transcription factor IIH, polypeptide 4, 52kDa	121					7-methylguanosine mRNA capping (GO:0006370)|ATP catabolic process (GO:0006200)|DNA repair (GO:0006281)|gene expression (GO:0010467)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair, DNA damage removal (GO:0000718)|positive regulation of viral transcription (GO:0050434)|protein phosphorylation (GO:0006468)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase I promoter (GO:0006360)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase I promoter (GO:0006361)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription-coupled nucleotide-excision repair (GO:0006283)|viral process (GO:0016032)	core TFIIH complex (GO:0000439)|holo TFIIH complex (GO:0005675)|nucleoplasm (GO:0005654)	ATP-dependent DNA helicase activity (GO:0004003)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(3)|lung(3)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	11						TCCGCATTGCCCTTCTGGGTG	0.582								Nucleotide excision repair (NER)																																								0													114	130	124					6																	30877829		1510	2708	4218	SO:0001819	synonymous_variant	2968			Y07595	CCDS34386.1	6p21.3	2012-11-05	2002-08-29		ENSG00000213780	ENSG00000213780		"General transcription factors", "General transcription factor IIH complex subunits"	4658	protein-coding gene	gene with protein product		601760	"general transcription factor IIH, polypeptide 4 (52kD subunit)"			9118947	Standard	NM_001517		Approved	TFB2, TFIIH, P52	uc003nsa.1	Q92759	OTTHUMG00000031043	ENST00000259895.4:c.363C>T	6.37:g.30877829C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DTJ5|Q76KU4	Silent	SNP	ENST00000259895.4	37	CCDS34386.1																																																																																				0.582	GTF2H4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076044.3	NM_001517		T	30877829	C	T	30877829	2	4	576	1	0	0	0	0	0	0	0	1	6872	610	22	2		2	GTF2H4	6	30877829	Silent	SNP	C	TCGA-DZ-6133-01A-11D-1961-08		30877829	140237238	42	34173										
VARS2	57176	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	30883015	30883015	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gaaacccggtgaaaagaaagGtaagtagaataagtaagaag	12	3	0	4			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr6:30883015G>A	ENST00000321897.5	+	2	915		c.e2+1		VARS2_ENST00000542001.1_Splice_Site|VARS2_ENST00000416670.2_Splice_Site|VARS2_ENST00000541562.1_Splice_Site			Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial						gene expression (GO:0010467)|tRNA aminoacylation for protein translation (GO:0006418)|valyl-tRNA aminoacylation (GO:0006438)	mitochondrion (GO:0005739)	aminoacyl-tRNA editing activity (GO:0002161)|ATP binding (GO:0005524)|valine-tRNA ligase activity (GO:0004832)			central_nervous_system(2)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(9)|lung(15)|ovary(3)|prostate(3)|skin(4)|urinary_tract(1)	46						GAAAAGAAAGGTAAGTAGAAT	0.453																																																0													85	88	87					6																	30883015		2203	4300	6503	SO:0001630	splice_region_variant	57176			AB067472	CCDS34387.1, CCDS54980.1	6p21.33	2012-10-26	2012-10-26	2007-02-23	ENSG00000137411	ENSG00000137411	6.1.1.9	"Aminoacyl tRNA synthetases / Class I"	21642	protein-coding gene	gene with protein product	"valine tRNA ligase 2, mitochondrial"	612802	"valyl-tRNA synthetase 2-like", "valyl-tRNA synthetase like", "valyl-tRNA synthetase 2, mitochondrial (putative)"	VARS2L, VARSL		1898367, 11572484, 18400783	Standard	NM_001167734		Approved	DKFZP434L1435, KIAA1885, G7a	uc011dmz.2	Q5ST30	OTTHUMG00000031263	ENST00000321897.5:c.283+1G>A	6.37:g.30883015G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2ABL7|B4DET4|B4E3P5|F5GXJ0|F5H323|Q2M2A0|Q59FI1|Q5SQ96|Q5SS98|Q6DKJ5|Q6ZV24|Q96GN2|Q96H77|Q96Q02|Q9H6R2|Q9UFH7	Splice_Site	SNP	ENST00000321897.5	37	CCDS34387.1	.	.	.	.	.	.	.	.	.	.	G	17.76	3.467888	0.63625	.	.	ENSG00000137411	ENST00000321897;ENST00000416670;ENST00000428017;ENST00000413959;ENST00000541562;ENST00000421263	.	.	.	3.98	3.98	0.46160	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	11.759	0.51892	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	VARS2	30990994	1.000000	0.71417	1.000000	0.80357	0.773000	0.43773	6.795000	0.75140	2.200000	0.70718	0.557000	0.71058	.		0.453	VARS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076566.2	NM_020442	Intron	A	30883015	G	A	30883015	5	1	576	1	0	0	0	0	0	0	1	0	17136	1275	44	2	384	2	VARS2	6	30883015	Splice_Site	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	5186	30883015	140232052	43	34174										
VARS	7407	ucsc.edu	37	chr6	31745374	31745374	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tgaagctgggtggtggatcaCagcatcttctggaatagggc	15	7	3	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr6:31745374C>T	ENST00000375663.3	-	30	4232	c.3792G>A	c.(3790-3792)ctG>ctA	p.L1264L	VWA7_ENST00000467576.1_5'Flank|VWA7_ENST00000375686.3_5'Flank|Y_RNA_ENST00000364685.1_RNA|VARS_ENST00000482996.1_5'Flank|VWA7_ENST00000375688.4_5'Flank|VWA7_ENST00000447450.1_5'Flank	NM_006295.2	NP_006286.1	P26640	SYVC_HUMAN	valyl-tRNA synthetase	1264					gene expression (GO:0010467)|tRNA aminoacylation for protein translation (GO:0006418)|valyl-tRNA aminoacylation (GO:0006438)	cytosol (GO:0005829)|mitochondrion (GO:0005739)	aminoacyl-tRNA editing activity (GO:0002161)|ATP binding (GO:0005524)|valine-tRNA ligase activity (GO:0004832)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(18)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	30					L-Valine(DB00161)	TGGTGGATCACAGCATCTTCT	0.567																																																0													142	110	121					6																	31745374		2203	4300	6503	SO:0001819	synonymous_variant	7407			BC012808	CCDS34412.1	6p21.3	2011-07-01		2005-07-05	ENSG00000204394	ENSG00000204394	6.1.1.9	"Aminoacyl tRNA synthetases / Class I"	12651	protein-coding gene	gene with protein product	"valine tRNA ligase 1, cytoplasmic"	192150	"valyl-tRNA synthetase 2"	VARS2		15779907	Standard	XM_005249362		Approved		uc003nxe.3	P26640	OTTHUMG00000031286	ENST00000375663.3:c.3792G>A	6.37:g.31745374C>T		Somatic		WXS	Illumina HiSeq		B0V1N1|B4DZ61|Q5JQ90|Q96E77|Q9UQM2	Silent	SNP	ENST00000375663.3	37	CCDS34412.1																																																																																				0.567	VARS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076619.2	NM_006295		T	31745374	C	T	31745374	2	4	576	1	0	0	0	0	0	0	0	1	17135	465	17	2		2	VARS	6	31745374	Silent	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	862359	31745374	139369693	44	34175										
HLA-DQA2	3118	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	32714066	32714066	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ctcacagagactttggtctgCgccctggggttgtctgtggg	15	10	3	1	rs572758897		TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr6:32714066C>T	ENST00000374940.3	+	4	765	c.663C>T	c.(661-663)tgC>tgT	p.C221C		NM_020056.4	NP_064440.1	P01906	DQA2_HUMAN	major histocompatibility complex, class II, DQ alpha 2	221					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|immune response (GO:0006955)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|endosome (GO:0005768)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)	MHC class II receptor activity (GO:0032395)			endometrium(2)|large_intestine(3)|lung(7)|skin(1)	13					"""Insulin(DB00071)"	CTTTGGTCTGCGCCCTGGGGT	0.552													.|||	1	0.000199681	0.0	0.0	5008	,	,		21667	0.0		0.0	False		,,,				2504	0.001															0													163	160	161					6																	32714066		1511	2709	4220	SO:0001819	synonymous_variant	3118				CCDS4753.1	6p21.3	2013-01-11			ENSG00000237541	ENSG00000237541		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4943	protein-coding gene	gene with protein product		613503		HLA-DXA			Standard	NM_020056		Approved		uc003obx.3	P01906	OTTHUMG00000031108	ENST00000374940.3:c.663C>T	6.37:g.32714066C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2BF37|B0V0E7|O19789|Q5SQ94|Q5SR04	Silent	SNP	ENST00000374940.3	37	CCDS4753.1																																																																																				0.552	HLA-DQA2-001	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076179.2	NM_020056		T	32714066	C	T	32714066	2	4	576	1	0	0	0	0	0	0	0	1	7212	776	27	1		1	HLA-DQA2	6	32714066	Silent	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	968692	32714066	138401001	45	34176										
SCUBE3	222663	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	35199528	35199528	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	acgagtgtgccgagggcaacGgcggctgtcagcagagctgt	17	10	1	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr6:35199528G>T	ENST00000274938.7	+	4	361	c.361G>T	c.(361-363)Ggc>Tgc	p.G121C	SCUBE3_ENST00000394681.1_Missense_Mutation_p.G121C	NM_152753.2	NP_689966.2			signal peptide, CUB domain, EGF-like 3											breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(12)|lung(11)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	37						CGAGGGCAACGGCGGCTGTCA	0.582																																																0													87	69	75					6																	35199528		2203	4300	6503	SO:0001583	missense	222663			AF452494.1	CCDS4800.1	6p21.3	2008-02-05	2004-05-19	2004-05-21		ENSG00000146197			13655	protein-coding gene	gene with protein product		614708	"CUB domain and EGF-like repeat containing 3"	CEGF3		12270931	Standard	NM_152753		Approved	FLJ34743	uc003okf.1	Q8IX30		ENST00000274938.7:c.361G>T	6.37:g.35199528G>T	ENSP00000274938:p.Gly121Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000274938.7	37	CCDS4800.1	.	.	.	.	.	.	.	.	.	.	G	24.3	4.514824	0.85389	.	.	ENSG00000146197	ENST00000394681;ENST00000274938	D;D	0.98437	-4.93;-4.93	4.37	4.37	0.52481	EGF-like calcium-binding, conserved site (1);EGF-like calcium-binding (1);Epidermal growth factor-like, type 3 (1);	0.000000	0.85682	D	0.000000	D	0.98798	0.9595	M	0.79011	2.435	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.999	D	0.99853	1.1074	10	0.87932	D	0	.	17.4734	0.87653	0.0:0.0:1.0:0.0	.	121;121	Q8IX30-2;Q8IX30	.;SCUB3_HUMAN	C	121	ENSP00000378174:G121C;ENSP00000274938:G121C	ENSP00000274938:G121C	G	+	1	0	SCUBE3	35307506	1.000000	0.71417	0.161000	0.22692	0.928000	0.56348	9.601000	0.98297	2.432000	0.82394	0.655000	0.94253	GGC		0.582	SCUBE3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040275.1	NM_152753		T	35199528	G	T	35199528	3	4	576	1	0	0	0	0	1	0	0	0	13959	1116	39	4	375	4	SCUBE3	6	35199528	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	2485462	35199528	135915539	46	34177										
CDC5L	988	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	44390515	44390515	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tcccgaggatggaatggcagActatagtgatccctcttacg	11	10	1	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr6:44390515A>T	ENST00000371477.3	+	10	1672	c.1373A>T	c.(1372-1374)gAc>gTc	p.D458V		NM_001253.3	NP_001244.1	Q99459	CDC5L_HUMAN	cell division cycle 5-like	458	Interaction with PPP1R8.				cell cycle (GO:0007049)|mRNA splicing, via spliceosome (GO:0000398)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nuclear speck (GO:0016607)|nucleolus (GO:0005730)|nucleus (GO:0005634)|Prp19 complex (GO:0000974)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)|WD40-repeat domain binding (GO:0071987)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(3)|lung(14)|ovary(1)|skin(4)	29	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			GGAATGGCAGACTATAGTGAT	0.383																																																0													134	135	135					6																	44390515		2203	4300	6503	SO:0001583	missense	988			D85423	CCDS4912.1	6p21.1	2013-01-17	2013-01-17		ENSG00000096401	ENSG00000096401			1743	protein-coding gene	gene with protein product		602868	"CDC5 (cell division cycle 5, S. pombe, homolog)-like", "CDC5 cell division cycle 5-like (S. pombe)"			9598309, 9038199	Standard	NM_001253		Approved	PCDC5RP, hCDC5, CEF1, CDC5	uc003oxl.3	Q99459	OTTHUMG00000014767	ENST00000371477.3:c.1373A>T	6.37:g.44390515A>T	ENSP00000360532:p.Asp458Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q76N46|Q99974	Missense_Mutation	SNP	ENST00000371477.3	37	CCDS4912.1	.	.	.	.	.	.	.	.	.	.	A	13.78	2.340499	0.41498	.	.	ENSG00000096401	ENST00000371477	T	0.36157	1.27	5.85	4.67	0.58626	.	0.102528	0.64402	D	0.000004	T	0.09642	0.0237	N	0.12182	0.205	0.80722	D	1	B	0.32573	0.376	B	0.30029	0.11	T	0.10917	-1.0609	10	0.24483	T	0.36	-19.9685	12.1682	0.54141	0.9321:0.0:0.0679:0.0	.	458	Q99459	CDC5L_HUMAN	V	458	ENSP00000360532:D458V	ENSP00000360532:D458V	D	+	2	0	CDC5L	44498493	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	4.966000	0.63715	2.234000	0.73211	0.460000	0.39030	GAC		0.383	CDC5L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040743.1			T	44390515	A	T	44390515	3	4	576	1	0	0	0	0	1	0	0	0	3084	275	10	5	1411	5	CDC5L	6	44390515	Missense_Mutation	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	9190987	44390515	126724552	47	34178										
RCAN2	10231	hgsc.bcm.edu	37	chr6	46216582	46216582	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	acgtctgaaactcttaaataGctggaacgtcacacagtcat	7	10	4	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr6:46216582G>C	ENST00000330430.6	-	2	327	c.139C>G	c.(139-141)Cta>Gta	p.L47V	RCAN2_ENST00000371374.1_Missense_Mutation_p.L93V|RCAN2_ENST00000306764.7_Missense_Mutation_p.L93V|RCAN2_ENST00000405162.1_Missense_Mutation_p.L93V	NM_005822.3	NP_005813.2	Q14206	RCAN2_HUMAN	regulator of calcineurin 2	47					calcineurin-NFAT signaling cascade (GO:0033173)|locomotion involved in locomotory behavior (GO:0031987)|response to oxidative stress (GO:0006979)|short-term memory (GO:0007614)		nucleotide binding (GO:0000166)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	8						CTCTTAAATAGCTGGAACGTC	0.418																																																0													116	102	106					6																	46216582		1849	4110	5959	SO:0001583	missense	10231			D83407	CCDS43469.1, CCDS59023.1	6p12.3	2008-10-31	2007-06-26	2007-06-26	ENSG00000172348	ENSG00000172348			3041	protein-coding gene	gene with protein product		604876	"Down syndrome critical region gene 1-like 1"	DSCR1L1		8662924	Standard	NM_001251973		Approved	ZAKI-4	uc003oyc.2	Q14206	OTTHUMG00000014782	ENST00000330430.6:c.139C>G	6.37:g.46216582G>C	ENSP00000329454:p.Leu47Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6ND07|B3KR46|Q5VWF7|Q5VWF8|Q8N116	Missense_Mutation	SNP	ENST00000330430.6	37	CCDS43469.1	.	.	.	.	.	.	.	.	.	.	G	16.74	3.207295	0.58343	.	.	ENSG00000172348	ENST00000330430;ENST00000371374;ENST00000306764;ENST00000405162	.	.	.	6.03	6.03	0.97812	Nucleotide-binding, alpha-beta plait (1);	0.085482	0.49916	D	0.000134	T	0.54334	0.1852	L	0.52364	1.645	0.47511	D	0.999447	P;P	0.50819	0.746;0.939	B;P	0.47626	0.384;0.552	T	0.59053	-0.7526	9	0.87932	D	0	-0.7537	19.545	0.95291	0.0:0.0:1.0:0.0	.	93;47	Q14206-2;Q14206	.;RCAN2_HUMAN	V	47;93;93;93	.	ENSP00000305223:L93V	L	-	1	2	RCAN2	46324541	1.000000	0.71417	0.994000	0.49952	0.997000	0.91878	1.764000	0.38471	2.861000	0.98227	0.655000	0.94253	CTA		0.418	RCAN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040782.1			C	46216582	G	C	46216582	3	2	576	1	0	0	0	0	1	0	0	0	13182	962	34	4	466	4	RCAN2	6	46216582	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	1826067	46216582	124898485	48	34179										
PLEKHG1	57480	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	151151821	151151821	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	catgatcagcgtgcttcgagCgggtggagctctcagaaaca	13	10	2	2	rs138970683		TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr6:151151821C>T	ENST00000358517.2	+	15	1785	c.1574C>T	c.(1573-1575)gCg>gTg	p.A525V	PLEKHG1_ENST00000367328.1_Missense_Mutation_p.A525V			Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G (with RhoGef domain) member 1	525							Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(3)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(10)|lung(19)|ovary(5)|prostate(4)|stomach(1)|urinary_tract(3)	53			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		GTGCTTCGAGCGGGTGGAGCT	0.547													C|||	1	0.000199681	0.0	0.0	5008	,	,		19977	0.0		0.001	False		,,,				2504	0.0															0								C	VAL/ALA	0,4406		0,0,2203	92	83	86		1574	3.6	0	6	dbSNP_134	86	1,8599	1.2+/-3.3	0,1,4299	no	missense	PLEKHG1	NM_001029884.1	64	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign	525/1386	151151821	1,13005	2203	4300	6503	SO:0001583	missense	57480			AB033035	CCDS34552.1	6q25.1	2013-01-11			ENSG00000120278	ENSG00000120278		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	20884	protein-coding gene	gene with protein product						10574462	Standard	XM_005267064		Approved	KIAA1209, ARHGEF41	uc003qny.1	Q9ULL1	OTTHUMG00000015824	ENST00000358517.2:c.1574C>T	6.37:g.151151821C>T	ENSP00000351318:p.Ala525Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T1F2	Missense_Mutation	SNP	ENST00000358517.2	37	CCDS34552.1	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	C	7.688	0.690379	0.15039	0.0	1.16E-4	ENSG00000120278	ENST00000367328;ENST00000535018;ENST00000358517	T;T	0.59502	0.26;0.26	5.4	3.57	0.40892	.	0.325353	0.36665	N	0.002464	T	0.17152	0.0412	N	0.22421	0.69	0.09310	N	1	P;P;P	0.41188	0.542;0.741;0.741	B;B;B	0.23275	0.045;0.044;0.044	T	0.03077	-1.1075	10	0.66056	D	0.02	.	10.0015	0.41931	0.0721:0.274:0.6539:0.0	.	332;525;525	Q5EBL9;Q5JYA6;Q9ULL1	.;.;PKHG1_HUMAN	V	525	ENSP00000356297:A525V;ENSP00000351318:A525V	ENSP00000351318:A525V	A	+	2	0	PLEKHG1	151193514	1.000000	0.71417	0.010000	0.14722	0.002000	0.02628	4.677000	0.61634	0.616000	0.30141	-0.321000	0.08615	GCG		0.547	PLEKHG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042691.1			T	151151821	C	T	151151821	3	4	576	1	0	0	0	0	1	0	0	0	12075	768	27	1	1628	1	PLEKHG1	6	151151821	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	104935239	151151821	19963246	49	34180										
SYNE1	23345	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	152671451	152671451	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	catggtctttgactttcgccTccagactgaagacatgctcc	8	13	1	4			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr6:152671451T>C	ENST00000367255.5	-	72	12354	c.11753A>G	c.(11752-11754)gAg>gGg	p.E3918G	SYNE1_ENST00000423061.1_Intron|SYNE1_ENST00000265368.4_Missense_Mutation_p.E3918G|SYNE1_ENST00000341594.5_Missense_Mutation_p.E3842G|SYNE1_ENST00000448038.1_Intron	NM_182961.3	NP_892006.3	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3918					cell death (GO:0008219)|cytoskeletal anchoring at nuclear membrane (GO:0090286)|establishment of nucleus localization (GO:0040023)|Golgi organization (GO:0007030)|muscle cell differentiation (GO:0042692)|nuclear matrix anchoring at nuclear membrane (GO:0090292)|nucleus organization (GO:0006997)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|postsynaptic membrane (GO:0045211)|sarcomere (GO:0030017)|SUN-KASH complex (GO:0034993)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|lamin binding (GO:0005521)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)			NS(3)|biliary_tract(1)|breast(17)|central_nervous_system(21)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(4)|kidney(16)|large_intestine(138)|liver(1)|lung(190)|ovary(11)|pancreas(5)|prostate(12)|skin(20)|stomach(3)|upper_aerodigestive_tract(33)|urinary_tract(19)	524		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GACTTTCGCCTCCAGACTGAA	0.473										HNSCC(10;0.0054)																																						0													102	93	96					6																	152671451		2203	4300	6503	SO:0001583	missense	23345			AB018339	CCDS5235.1, CCDS5236.1, CCDS5236.2	6q24.2-q25.3	2014-09-17			ENSG00000131018	ENSG00000131018			17089	protein-coding gene	gene with protein product	"myocyte nuclear envelope protein 1", "nuclear envelope spectrin repeat-1"	608441	"chromosome 6 open reading frame 98"	C6orf98		9872452, 10878022	Standard	NM_182961		Approved	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1	uc003qou.4	Q8NF91	OTTHUMG00000015841	ENST00000367255.5:c.11753A>G	6.37:g.152671451T>C	ENSP00000356224:p.Glu3918Gly	Somatic		WXS	Illumina HiSeq	Phase_I	E7EQI5|O94890|Q5JV19|Q5JV22|Q8N9P7|Q8TCP1|Q8WWW6|Q8WWW7|Q8WXF6|Q96N17|Q9C0A7|Q9H525|Q9H526|Q9NS36|Q9NU50|Q9UJ06|Q9UJ07|Q9ULF8	Missense_Mutation	SNP	ENST00000367255.5	37	CCDS5236.2	.	.	.	.	.	.	.	.	.	.	T	14.89	2.671137	0.47781	.	.	ENSG00000131018	ENST00000367255;ENST00000265368;ENST00000341594	T;T;T	0.41400	1.0;1.0;1.0	5.93	5.93	0.95920	.	0.000000	0.64402	D	0.000009	T	0.51041	0.1651	L	0.55481	1.735	0.80722	D	1	D;D;D	0.63046	0.992;0.992;0.992	D;D;D	0.64687	0.928;0.928;0.928	T	0.54879	-0.8227	10	0.72032	D	0.01	.	16.3943	0.83563	0.0:0.0:0.0:1.0	.	3918;3918;3918	B7ZBC3;Q8NF91;E7EQI5	.;SYNE1_HUMAN;.	G	3918;3918;3842	ENSP00000356224:E3918G;ENSP00000265368:E3918G;ENSP00000341887:E3842G	ENSP00000265368:E3918G	E	-	2	0	SYNE1	152713144	0.857000	0.29778	0.800000	0.32199	0.939000	0.58152	2.153000	0.42282	2.281000	0.76405	0.533000	0.62120	GAG		0.473	SYNE1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000334755.2	NM_182961		C	152671451	T	C	152671451	3	2	576	1	0	0	0	0	1	0	0	0	15457	1551	54	3	15013	3	SYNE1	6	152671451	Missense_Mutation	SNP	T	TCGA-DZ-6133-01A-11D-1961-08	1519630	152671451	18443616	50	34181										
ARID1B	57492	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	157527600	157527600	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gacgccgctgcagacccaaaGgagaagcccaagcaagccag	12	14	0	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr6:157527600G>A	ENST00000350026.5	+	19	5287	c.5286G>A	c.(5284-5286)aaG>aaA	p.K1762K	ARID1B_ENST00000346085.5_Silent_p.K1775K|ARID1B_ENST00000275248.4_Silent_p.K1757K|ARID1B_ENST00000367148.1_Silent_p.K1815K	NM_017519.2	NP_059989.2	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1762					chromatin-mediated maintenance of transcription (GO:0048096)|nervous system development (GO:0007399)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|SWI/SNF complex (GO:0016514)	DNA binding (GO:0003677)|transcription coactivator activity (GO:0003713)			NS(2)|breast(5)|central_nervous_system(4)|endometrium(12)|kidney(4)|large_intestine(11)|lung(30)|ovary(3)|pancreas(1)|prostate(4)|skin(2)|urinary_tract(3)	81		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		CAGACCCAAAGGAGAAGCCCA	0.517																																																0													60	61	61					6																	157527600		2203	4296	6499	SO:0001819	synonymous_variant	57492			AF521671	CCDS5251.1, CCDS5251.2, CCDS55072.1	6q25.3	2014-09-17			ENSG00000049618	ENSG00000049618		"-"	18040	protein-coding gene	gene with protein product		614556					Standard	NM_017519		Approved	KIAA1235, ELD/OSA1, p250R, BAF250b, DAN15, 6A3-5	uc003qqo.3	Q8NFD5	OTTHUMG00000015890	ENST00000350026.5:c.5286G>A	6.37:g.157527600G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JRD1|Q5VYC4|Q8IZY8|Q8TEV0|Q8TF02|Q99491|Q9ULI5	Silent	SNP	ENST00000350026.5	37	CCDS5251.2																																																																																				0.517	ARID1B-009	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000372723.1	NM_020732		A	157527600	G	A	157527600	2	1	576	1	0	0	0	0	0	0	0	1	914	991	35	2		2	ARID1B	6	157527600	Silent	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	4856149	157527600	13587467	51	34182										
IGF2R	3482	ucsc.edu	37	chr6	160483635	160483636	+	Missense_Mutation	DNP	CG	CG	AA													0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	agaactgtggaagcctgtccCgttgtcagagtggaaggtag					rs375087362|rs368061810		TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	CG	CG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr6:160483635_160483636CG>AA	ENST00000356956.1	+	26	3802_3803	c.3654_3655CG>AA	c.(3652-3657)ccCGtt>ccAAtt	p.V1219I		NM_000876.2	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor	1219					insulin-like growth factor receptor signaling pathway (GO:0048009)|liver development (GO:0001889)|organ regeneration (GO:0031100)|positive regulation of apoptotic process (GO:0043065)|post-embryonic development (GO:0009791)|receptor-mediated endocytosis (GO:0006898)|response to retinoic acid (GO:0032526)|signal transduction (GO:0007165)|spermatogenesis (GO:0007283)	cell surface (GO:0009986)|clathrin coat (GO:0030118)|endocytic vesicle (GO:0030139)|endosome (GO:0005768)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|lysosome (GO:0005764)|membrane (GO:0016020)|nuclear envelope lumen (GO:0005641)|perinuclear region of cytoplasm (GO:0048471)|trans-Golgi network transport vesicle (GO:0030140)	G-protein coupled receptor activity (GO:0004930)|glycoprotein binding (GO:0001948)|identical protein binding (GO:0042802)|insulin-like growth factor-activated receptor activity (GO:0005010)|mannose binding (GO:0005537)|phosphoprotein binding (GO:0051219)|receptor activity (GO:0004872)|retinoic acid binding (GO:0001972)|transporter activity (GO:0005215)	p.P1218P(1)		breast(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(27)|lung(31)|ovary(3)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	95		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)	Mecasermin(DB01277)	AAGCCTGTCCCGTTGTCAGAGT	0.46																																																1	Substitution - coding silent(1)	urinary_tract(1)																																								SO:0001583	missense	3482			J03528	CCDS5273.1	6q25.3	2014-09-16			ENSG00000197081	ENSG00000197081		"CD molecules"	5467	protein-coding gene	gene with protein product	"cation-independent mannose-6 phosphate receptor"	147280					Standard	NM_000876		Approved	CD222, MPRI, MPR1, CIMPR, M6P-R	uc003qta.3	P11717	OTTHUMG00000015945	Exception_encountered	6.37:g.160483635_160483636delinsAA	ENSP00000349437:p.Val1219Ile	Somatic		WXS	Illumina HiSeq		Q7Z7G9|Q96PT5	Missense_Mutation	DNP	ENST00000356956.1	37	CCDS5273.1																																																																																				0.46	IGF2R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042931.1	NM_000876		AA	160483636	CG	AA	160483635	3	1	576	1	0	0	0	0	1	0	0	0	7583	639	23	4	3756	4	IGF2R	6	160483635	Missense_Mutation	DNP	CG	TCGA-DZ-6133-01A-11D-1961-08	2956035	160483635	10631432	52	34183										
CDK13	8621	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	40117701	40117701	+	Frame_Shift_Del	DEL	T	T	-													0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	agaagcaatatcgtcgaaagTtaagagaagaatttgttttg							TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr7:40117701delT	ENST00000181839.4	+	10	3483	c.2878delT	c.(2878-2880)ttafs	p.L960fs	CDK13_ENST00000340829.5_Frame_Shift_Del_p.L960fs	NM_003718.4|NM_031267.3	NP_003709.3|NP_112557.2	Q14004	CDK13_HUMAN	cyclin-dependent kinase 13	960	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				alternative mRNA splicing, via spliceosome (GO:0000380)|hemopoiesis (GO:0030097)|multicellular organismal development (GO:0007275)|phosphorylation of RNA polymerase II C-terminal domain (GO:0070816)|positive regulation of cell proliferation (GO:0008284)|regulation of mitosis (GO:0007088)|viral process (GO:0016032)	cyclin K-CDK13 complex (GO:0002945)|extracellular space (GO:0005615)|nuclear cyclin-dependent protein kinase holoenzyme complex (GO:0019908)|nuclear speck (GO:0016607)	ATP binding (GO:0005524)|cyclin binding (GO:0030332)|cyclin-dependent protein serine/threonine kinase activity (GO:0004693)|poly(A) RNA binding (GO:0044822)|protein kinase activity (GO:0004672)|RNA polymerase II carboxy-terminal domain kinase activity (GO:0008353)			cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(19)|ovary(1)|pancreas(2)|prostate(2)|skin(5)|stomach(2)|urinary_tract(1)	49						TCGTCGAAAGTTAAGAGAAGA	0.348																																																0													152	143	146					7																	40117701		2203	4300	6503	SO:0001589	frameshift_variant	8621			M80629	CCDS5461.1, CCDS5462.1	7p14.1	2011-11-08	2009-12-16	2009-12-16	ENSG00000065883	ENSG00000065883		"Cyclin-dependent kinases"	1733	protein-coding gene	gene with protein product	"cholinesterase-related cell division controller"	603309	"cell division cycle 2-like 5 (cholinesterase-related cell division controller)"	CDC2L5		1731328, 19884882	Standard	NM_003718		Approved	CHED, CDC2L, KIAA1791	uc003thh.4	Q14004	OTTHUMG00000023726	ENST00000181839.4:c.2878delT	7.37:g.40117701delT	ENSP00000181839:p.Leu960fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q53G78|Q6DKQ9|Q75MH4|Q75MH5|Q96JN4|Q9H4A0|Q9H4A1|Q9UDR4	Nonsense_Mutation	DEL	ENST00000181839.4	37	CCDS5461.1																																																																																				0.348	CDK13-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000250726.2	NM_003718		-	40117701	T	-	40117701	7	5	576	1	0	1	0	1	0	0	0	0	3131	1722	60	0	2916	0	CDK13	7	40117701	Frame_Shift_Del	DEL	T	TCGA-DZ-6133-01A-11D-1961-08		40117701	119020962	53	34184										
ERV3	2086	bcgsc.ca	37	chr7	64452749	64452749	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	cgctgactcgtgcccctagcGgtgcttttaaacctgttgtc	10	13	0	1	rs367626165		TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr7:64452749G>T	ENST00000394323.2	-	2	1156	c.656C>A	c.(655-657)cCg>cAg	p.P219Q	ZNF117_ENST00000282869.6_5'Flank	NM_001007253.3	NP_001007254.2	Q14264	ENR1_HUMAN	endogenous retrovirus group 3, member 1	219						extracellular vesicular exosome (GO:0070062)|viral envelope (GO:0019031)		p.P219Q(1)		breast(1)|cervix(1)|endometrium(3)|large_intestine(3)|lung(8)	16						tgcccctagcggtgcttttaa	0.443																																																1	Substitution - Missense(1)	lung(1)											153	155	154					7																	64452749		2023	4218	6241	SO:0001583	missense	2086			AK295189	CCDS47595.1	7p12-q11	2014-05-02	2011-05-05	2011-05-05	ENSG00000213462	ENSG00000213462			3454	other	endogenous retrovirus		131170	"endogenous retroviral sequence 3 (includes zinc finger protein H-plk/HPF9)", "endogenous retroviral sequence 3"	ERV3		2115127, 6495650, 21542922	Standard	NM_001007253		Approved	H-PLK, HERV-R, ERV-R, envR	uc011kdr.2	Q14264	OTTHUMG00000165023	ENST00000394323.2:c.656C>A	7.37:g.64452749G>T	ENSP00000391594:p.Pro219Gln	Somatic		WXS	Illumina HiSeq	Phase_1		Missense_Mutation	SNP	ENST00000394323.2	37	CCDS47595.1	.	.	.	.	.	.	.	.	.	.	.	5.118	0.207418	0.09704	.	.	ENSG00000213462	ENST00000394323	T	0.12147	2.71	0.109	0.109	0.14578	.	.	.	.	.	T	0.06188	0.0160	N	0.08118	0	0.09310	N	1	B	0.16396	0.017	B	0.04013	0.001	T	0.35822	-0.9773	8	0.45353	T	0.12	.	.	.	.	.	219	Q14264	ENR1_HUMAN	Q	219	ENSP00000391594:P219Q	ENSP00000391594:P219Q	P	-	2	0	ERV3-1	64090184	0.467000	0.25831	0.270000	0.24601	0.274000	0.26718	0.230000	0.17852	0.181000	0.19994	0.184000	0.17185	CCG		0.443	ERV3-1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381468.1	NM_001007253		T	64452749	G	T	64452749	3	4	576	1	0	0	0	0	1	0	0	0	5247	1116	39	4	1162	4	ERV3	7	64452749	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	24335048	64452749	94685914	54	34185										
TMEM120A	5447	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	75617587	75617587	+	IGR	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	caccgggagccgttgttgatGaggatgctctcccggatggt	15	10	1	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr7:75617587G>T	ENST00000461988.1	+	0	2522				TMEM120A_ENST00000338761.4_RNA|TMEM120A_ENST00000493111.2_RNA	NM_000941.2	NP_000932.3	P16435	NCPR_HUMAN	P450 (cytochrome) oxidoreductase						carnitine metabolic process (GO:0009437)|cellular organofluorine metabolic process (GO:0090346)|cellular response to follicle-stimulating hormone stimulus (GO:0071372)|cellular response to peptide hormone stimulus (GO:0071375)|demethylation (GO:0070988)|fatty acid oxidation (GO:0019395)|flavonoid metabolic process (GO:0009812)|internal peptidyl-lysine acetylation (GO:0018393)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of lipase activity (GO:0060192)|nitrate catabolic process (GO:0043602)|nitric oxide catabolic process (GO:0046210)|oxidation-reduction process (GO:0055114)|positive regulation of cholesterol biosynthetic process (GO:0045542)|positive regulation of chondrocyte differentiation (GO:0032332)|positive regulation of monooxygenase activity (GO:0032770)|positive regulation of smoothened signaling pathway (GO:0045880)|positive regulation of steroid hormone biosynthetic process (GO:0090031)|regulation of growth plate cartilage chondrocyte proliferation (GO:0003420)|response to drug (GO:0042493)|response to nutrient (GO:0007584)	endoplasmic reticulum (GO:0005783)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|mitochondrion (GO:0005739)	cytochrome-b5 reductase activity, acting on NAD(P)H (GO:0004128)|electron carrier activity (GO:0009055)|flavin adenine dinucleotide binding (GO:0050660)|FMN binding (GO:0010181)|hydrolase activity (GO:0016787)|iron ion binding (GO:0005506)|iron-cytochrome-c reductase activity (GO:0047726)|NADP binding (GO:0050661)|NADPH-hemoprotein reductase activity (GO:0003958)|nitric oxide dioxygenase activity (GO:0008941)			central_nervous_system(1)|endometrium(2)|kidney(2)|lung(3)|ovary(1)	9					Benzphetamine(DB00865)|Daunorubicin(DB00694)|Doxorubicin(DB00997)|Ethylmorphine(DB01466)|Flavin adenine dinucleotide(DB03147)|Lipoic Acid(DB00166)|Mitomycin(DB00305)|Nilutamide(DB00665)|Nitrofurantoin(DB00698)	CGTTGTTGATGAGGATGCTCT	0.657																																																0													49	52	51					7																	75617587		1983	4150	6133	SO:0001628	intergenic_variant	83862			AF258341	CCDS5579.1	7q11.2	2006-12-05			ENSG00000127948	ENSG00000127948			9208	protein-coding gene	gene with protein product		124015				2516426	Standard	NM_000941		Approved	CYPOR, FLJ26468	uc003udy.3	P16435	OTTHUMG00000130413		7.37:g.75617587G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q16455|Q197M5|Q8N181|Q9H3M8|Q9UDT3	Silent	SNP	ENST00000461988.1	37	CCDS5579.1																																																																																				0.657	POR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252796.7	NM_000941		T	75617587	G	T	75617587	1	4	576	0	1	0	0	0	0	0	0	0	16045	1277	45	4		4	TMEM120A	7	75617587	IGR	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	11164838	75617587	83521076	55	34186										
ZAN	7455	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	100349824	100349824	+	RNA	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	cacggaaaaacccaccatctCcatggaagagactatcatct	6	13	3	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr7:100349824C>A	ENST00000348028.3	+	0	2261				ZAN_ENST00000349350.6_RNA|ZAN_ENST00000443370.1_RNA|ZAN_ENST00000427578.1_RNA|ZAN_ENST00000546213.1_RNA|ZAN_ENST00000421100.1_RNA|ZAN_ENST00000449052.1_RNA|ZAN_ENST00000546292.1_RNA|ZAN_ENST00000538115.1_RNA|ZAN_ENST00000542585.1_RNA			Q9Y493	ZAN_HUMAN	zonadhesin (gene/pseudogene)						binding of sperm to zona pellucida (GO:0007339)|single organismal cell-cell adhesion (GO:0016337)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(2)|breast(3)|central_nervous_system(3)|endometrium(21)|kidney(6)|large_intestine(18)|lung(60)|ovary(4)|pancreas(3)|prostate(5)|skin(8)|stomach(3)|upper_aerodigestive_tract(3)	139	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CCCACCATCTCCATGGAAGAG	0.512																																																0													190	208	202					7																	100349824		1861	4094	5955			7455			U83191		7q22.1	2013-10-10	2013-10-10		ENSG00000146839	ENSG00000146839			12857	protein-coding gene	gene with protein product		602372	"zonadhesin"			9799793, 17033959	Standard	NM_003386		Approved		uc003uwk.3	Q9Y493	OTTHUMG00000157037		7.37:g.100349824C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0FKC8|D6W5W4|O00218|Q96L85|Q96L86|Q96L87|Q96L88|Q96L89|Q96L90|Q9BXN9|Q9BZ83|Q9BZ84|Q9BZ85|Q9BZ86|Q9BZ87|Q9BZ88	Missense_Mutation	SNP	ENST00000348028.3	37		.	.	.	.	.	.	.	.	.	.	c	9.555	1.116910	0.20795	.	.	ENSG00000146839	ENST00000546292;ENST00000538115;ENST00000542585	T;T;T	0.63744	-0.06;-0.06;-0.06	3.59	1.69	0.24217	.	.	.	.	.	T	0.37625	0.1010	N	0.08118	0	0.18873	N	0.999981	P;B	0.35628	0.513;0.379	B;B	0.33890	0.172;0.083	T	0.21965	-1.0230	9	0.59425	D	0.04	.	6.1291	0.20195	0.1862:0.7055:0.0:0.1082	.	699;699	F5H0T8;Q9Y493	.;ZAN_HUMAN	Y	699	ENSP00000445943:S699Y;ENSP00000445091:S699Y;ENSP00000444427:S699Y	ENSP00000423579:S699Y	S	+	2	0	ZAN	100187760	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.482000	0.06544	0.265000	0.21872	-0.516000	0.04426	TCC		0.512	ZAN-006	KNOWN	basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000347214.1	NM_003386		A	100349824	C	A	100349824	1	1	576	0	1	0	0	0	0	0	0	0	17525	855	30	4		4	ZAN	7	100349824	RNA	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	24732237	100349824	58788839	56	34187										
EPHB6	2051	broad.mit.edu	37	chr7	142566068	142566068	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ggccatccgagaacttgcccGggaagtcgatcctgcttata	11	12	0	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr7:142566068G>C	ENST00000392957.2	+	14	2775	c.1988G>C	c.(1987-1989)cGg>cCg	p.R663P	EPHB6_ENST00000442129.1_Missense_Mutation_p.R663P|EPHB6_ENST00000411471.2_Missense_Mutation_p.R386P	NM_004445.3	NP_004436.3	O15197	EPHB6_HUMAN	EPH receptor B6	663						extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)	ATP binding (GO:0005524)|ephrin receptor activity (GO:0005003)|receptor activity (GO:0004872)	p.R648L(1)		NS(1)|breast(1)|central_nervous_system(4)|cervix(1)|endometrium(5)|kidney(4)|large_intestine(9)|lung(46)|ovary(2)|pancreas(2)|prostate(1)|skin(9)|stomach(1)|upper_aerodigestive_tract(1)	87	Melanoma(164;0.059)					GAACTTGCCCGGGAAGTCGAT	0.577																																																1	Substitution - Missense(1)	lung(1)											103	97	99					7																	142566068		2203	4300	6503	SO:0001583	missense	2051			D83492	CCDS5873.2, CCDS75672.1	7q33-q35	2013-02-11	2004-10-28		ENSG00000106123	ENSG00000106123		"EPH receptors", "Sterile alpha motif (SAM) domain containing", "Fibronectin type III domain containing"	3396	protein-coding gene	gene with protein product		602757	"EphB6"				Standard	XM_006715881		Approved	HEP	uc011kst.2	O15197	OTTHUMG00000155707	ENST00000392957.2:c.1988G>C	7.37:g.142566068G>C	ENSP00000376684:p.Arg663Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2I7|A8CDT5|D3DXD3|Q2TB23|Q2TB24	Missense_Mutation	SNP	ENST00000392957.2	37	CCDS5873.2	.	.	.	.	.	.	.	.	.	.	G	14.31	2.496909	0.44352	.	.	ENSG00000106123	ENST00000392957;ENST00000442129;ENST00000411471	T;T;T	0.14640	2.49;2.49;2.49	4.21	4.21	0.49690	Protein kinase-like domain (1);	0.000000	0.39020	N	0.001483	T	0.12347	0.0300	L	0.52206	1.635	0.53005	D	0.999968	B;B	0.21071	0.051;0.032	B;B	0.16722	0.012;0.016	T	0.08411	-1.0723	10	0.87932	D	0	.	5.7674	0.18233	0.2173:0.0:0.7827:0.0	.	663;386	O15197;O15197-2	EPHB6_HUMAN;.	P	663;663;386	ENSP00000376684:R663P;ENSP00000410789:R663P;ENSP00000409061:R386P	ENSP00000376684:R663P	R	+	2	0	EPHB6	142276190	1.000000	0.71417	1.000000	0.80357	0.907000	0.53573	6.245000	0.72398	2.204000	0.70986	0.561000	0.74099	CGG		0.577	EPHB6-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341329.1			C	142566068	G	C	142566068	3	2	576	1	0	0	0	0	1	0	0	0	5180	1116	39	4	2026	4	EPHB6	7	142566068	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	42216244	142566068	16572595	57	34188										
ANGPT2	285	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	6360731	6360731	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tatttgtgttctgcctctgtGgatagtacattccgttcaag	9	8	3	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr8:6360731G>T	ENST00000325203.5	-	9	1856	c.1382C>A	c.(1381-1383)cCa>cAa	p.P461Q	ANGPT2_ENST00000415216.1_Missense_Mutation_p.P460Q|ANGPT2_ENST00000338312.6_Missense_Mutation_p.P409Q|MCPH1_ENST00000344683.5_Intron			O15123	ANGP2_HUMAN	angiopoietin 2	461	Fibrinogen C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00739}.				angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|cellular response to growth factor stimulus (GO:0071363)|germ cell development (GO:0007281)|glomerulus vasculature development (GO:0072012)|leukocyte migration (GO:0050900)|maternal process involved in female pregnancy (GO:0060135)|negative regulation of angiogenesis (GO:0016525)|negative regulation of blood vessel endothelial cell migration (GO:0043537)|negative regulation of cell-substrate adhesion (GO:0010812)|negative regulation of positive chemotaxis (GO:0050928)|organ regeneration (GO:0031100)|positive regulation of angiogenesis (GO:0045766)|response to activity (GO:0014823)|response to glucose (GO:0009749)|response to hypoxia (GO:0001666)|response to mechanical stimulus (GO:0009612)|response to organic cyclic compound (GO:0014070)|response to radiation (GO:0009314)|signal transduction (GO:0007165)|Tie signaling pathway (GO:0048014)	cell projection (GO:0042995)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|receptor binding (GO:0005102)|receptor tyrosine kinase binding (GO:0030971)			breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(6)|skin(1)|upper_aerodigestive_tract(1)	17		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)		CTGCCTCTGTGGATAGTACAT	0.463																																																0													235	190	205					8																	6360731		2203	4300	6503	SO:0001583	missense	285			AF004327	CCDS5958.1, CCDS47761.1	8p23	2013-02-06			ENSG00000091879	ENSG00000091879		"Fibrinogen C domain containing"	485	protein-coding gene	gene with protein product		601922				9545648	Standard	NM_001147		Approved	Ang2	uc003wqj.4	O15123	OTTHUMG00000090365	ENST00000325203.5:c.1382C>A	8.37:g.6360731G>T	ENSP00000314897:p.Pro461Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV38|A8K205|B7ZLM7|Q9NRR7|Q9P2Y7	Missense_Mutation	SNP	ENST00000325203.5	37	CCDS5958.1	.	.	.	.	.	.	.	.	.	.	G	14.06	2.422644	0.43020	.	.	ENSG00000091879	ENST00000325203;ENST00000415216;ENST00000338312	T;T;T	0.75050	-0.9;-0.9;-0.9	6.17	6.17	0.99709	Fibrinogen, alpha/beta/gamma chain, C-terminal globular (4);Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 2 (1);	0.112483	0.64402	D	0.000006	T	0.57621	0.2066	N	0.10685	0.025	0.42845	D	0.994062	B;B;B	0.27229	0.069;0.069;0.172	B;B;B	0.25506	0.015;0.015;0.061	T	0.54761	-0.8245	10	0.22109	T	0.4	.	18.3732	0.90420	0.0:0.0:1.0:0.0	.	409;460;461	O15123-2;O15123-3;O15123	.;.;ANGP2_HUMAN	Q	461;460;409	ENSP00000314897:P461Q;ENSP00000400782:P460Q;ENSP00000343517:P409Q	ENSP00000314897:P461Q	P	-	2	0	ANGPT2	6348139	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	4.047000	0.57383	2.941000	0.99782	0.655000	0.94253	CCA		0.463	ANGPT2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000206737.1	NM_001147		T	6360731	G	T	6360731	3	4	576	1	0	0	0	0	1	0	0	0	611	1348	47	4	112	4	ANGPT2	8	6360731	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08		6360731	140003291	58	34189										
BIN3	55909	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	22488017	22488017	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	cagggccgtcaccatgttcaGaaggtcctggtcttgctcac	11	13	4	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr8:22488017G>A	ENST00000276416.6	-	5	303	c.235C>T	c.(235-237)Ctg>Ttg	p.L79L	BIN3_ENST00000519513.1_Silent_p.L25L|BIN3_ENST00000520292.1_Silent_p.L79L|BIN3_ENST00000399977.4_Silent_p.L31L|BIN3_ENST00000519335.1_5'UTR	NM_018688.4	NP_061158.1	Q9NQY0	BIN3_HUMAN	bridging integrator 3	79	BAR. {ECO:0000255|PROSITE- ProRule:PRU00361}.				actin filament organization (GO:0007015)|barrier septum assembly (GO:0000917)|cytokinesis (GO:0000910)|myoblast migration involved in skeletal muscle regeneration (GO:0014839)|protein localization (GO:0008104)|regulation of lamellipodium assembly (GO:0010591)|skeletal muscle fiber development (GO:0048741)|unidimensional cell growth (GO:0009826)	actin filament (GO:0005884)|cytoplasm (GO:0005737)	cytoskeletal adaptor activity (GO:0008093)			kidney(1)|large_intestine(1)|lung(4)|ovary(1)|prostate(1)|urinary_tract(1)	9		Prostate(55;0.0424)|Breast(100;0.102)|all_epithelial(46;0.143)		BRCA - Breast invasive adenocarcinoma(99;0.00664)|Colorectal(74;0.0189)|COAD - Colon adenocarcinoma(73;0.0727)		ACCATGTTCAGAAGGTCCTGG	0.532																																																0													176	176	176					8																	22488017		2001	4169	6170	SO:0001819	synonymous_variant	55909				CCDS47825.1	8p21.2	2008-07-04			ENSG00000147439	ENSG00000147439			1054	protein-coding gene	gene with protein product		606396				16524918	Standard	NM_018688		Approved		uc003xcl.3	Q9NQY0	OTTHUMG00000163844	ENST00000276416.6:c.235C>T	8.37:g.22488017G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BVG2|Q9NVY9	Silent	SNP	ENST00000276416.6	37	CCDS47825.1																																																																																				0.532	BIN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375895.1			A	22488017	G	A	22488017	2	1	576	1	0	0	0	0	0	0	0	1	1434	933	33	2		2	BIN3	8	22488017	Silent	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	16127286	22488017	123876005	59	34190										
FABP12	646486	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	82441686	82441686	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gcctcacctttgttttgtggCcacctggcgtgatttcctca	9	13	2	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr8:82441686C>T	ENST00000360464.4	-	2	295	c.233G>A	c.(232-234)gGc>gAc	p.G78D	RP11-257P3.3_ENST00000518637.1_RNA|RP11-257P3.3_ENST00000523380.1_RNA	NM_001105281.1	NP_001098751.1	A6NFH5	FBP12_HUMAN	fatty acid binding protein 12	78							lipid binding (GO:0008289)|transporter activity (GO:0005215)			large_intestine(1)|lung(3)	4						TGTTTTGTGGCCACCTGGCGT	0.388																																																0													160	154	156					8																	82441686		1870	4108	5978	SO:0001583	missense	646486				CCDS47882.1	8q21.13	2013-03-01			ENSG00000197416	ENSG00000197416		"Fatty acid binding protein family"	34524	protein-coding gene	gene with protein product						18786628	Standard	NM_001105281		Approved		uc011lfp.2	A6NFH5	OTTHUMG00000164679	ENST00000360464.4:c.233G>A	8.37:g.82441686C>T	ENSP00000353650:p.Gly78Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B7SUN0	Missense_Mutation	SNP	ENST00000360464.4	37	CCDS47882.1	.	.	.	.	.	.	.	.	.	.	C	1.026	-0.683340	0.03353	.	.	ENSG00000197416	ENST00000360464	T	0.51071	0.72	4.84	0.778	0.18543	Calycin-like (1);Cytosolic fatty-acid binding (1);Lipocalin/cytosolic fatty-acid binding protein domain (1);Calycin (1);	0.259107	0.39407	N	0.001371	T	0.31295	0.0792	N	0.16233	0.39	0.35132	D	0.768077	B	0.27823	0.19	B	0.42851	0.4	T	0.35226	-0.9797	10	0.02654	T	1	.	7.4582	0.27278	0.0:0.4913:0.0:0.5087	.	78	A6NFH5	FBP12_HUMAN	D	78	ENSP00000353650:G78D	ENSP00000353650:G78D	G	-	2	0	FABP12	82604241	0.916000	0.31088	0.038000	0.18304	0.032000	0.12392	1.342000	0.33919	0.261000	0.21753	-0.136000	0.14681	GGC		0.388	FABP12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379720.1	NM_001105281		T	82441686	C	T	82441686	3	4	576	1	0	0	0	0	1	0	0	0	5360	739	26	2	199	2	FABP12	8	82441686	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	59953669	82441686	63922336	60	34191										
RIPK2	8767	broad.mit.edu	37	chr8	90798839	90798839	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	aggaatcatgtggatcctctCagctccatgaaaatagtggt	10	8	2	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr8:90798839C>G	ENST00000220751.4	+	9	1362	c.1048C>G	c.(1048-1050)Cag>Gag	p.Q350E	RIPK2_ENST00000540020.1_Missense_Mutation_p.Q213E	NM_003821.5	NP_003812.1	O43353	RIPK2_HUMAN	receptor-interacting serine-threonine kinase 2	350					activation of MAPK activity (GO:0000187)|adaptive immune response (GO:0002250)|apoptotic process (GO:0006915)|cellular response to lipoteichoic acid (GO:0071223)|cellular response to muramyl dipeptide (GO:0071225)|cellular response to peptidoglycan (GO:0071224)|defense response to Gram-positive bacterium (GO:0050830)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|JNK cascade (GO:0007254)|lipopolysaccharide-mediated signaling pathway (GO:0031663)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic process (GO:0043066)|neurotrophin TRK receptor signaling pathway (GO:0048011)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing 1 signaling pathway (GO:0070427)|nucleotide-binding oligomerization domain containing 2 signaling pathway (GO:0070431)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of alpha-beta T cell proliferation (GO:0046641)|positive regulation of apoptotic process (GO:0043065)|positive regulation of chemokine production (GO:0032722)|positive regulation of cytokine-mediated signaling pathway (GO:0001961)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of immature T cell proliferation (GO:0033091)|positive regulation of interferon-alpha production (GO:0032727)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of interleukin-2 production (GO:0032743)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of JNK cascade (GO:0046330)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of T-helper 1 cell differentiation (GO:0045627)|positive regulation of T-helper 1 type immune response (GO:0002827)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor production (GO:0032760)|response to exogenous dsRNA (GO:0043330)|response to interleukin-1 (GO:0070555)|response to interleukin-12 (GO:0070671)|response to interleukin-18 (GO:0070673)|signal transduction (GO:0007165)|stress-activated MAPK cascade (GO:0051403)|T cell proliferation (GO:0042098)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|protein complex (GO:0043234)|vesicle (GO:0031982)	ATP binding (GO:0005524)|CARD domain binding (GO:0050700)|LIM domain binding (GO:0030274)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein homodimerization activity (GO:0042803)|protein serine/threonine kinase activity (GO:0004674)|signal transducer activity (GO:0004871)			kidney(1)|large_intestine(3)|lung(2)|ovary(2)|prostate(2)	10			BRCA - Breast invasive adenocarcinoma(11;0.0474)			TGGATCCTCTCAGCTCCATGA	0.323																																																0													102	105	104					8																	90798839		2203	4300	6503	SO:0001583	missense	8767			AC004003	CCDS6247.1	8q21	2008-05-02			ENSG00000104312	ENSG00000104312			10020	protein-coding gene	gene with protein product		603455				9575181, 9705938	Standard	XM_005251092		Approved	RICK, RIP2, CARDIAK, CARD3	uc003yee.3	O43353	OTTHUMG00000163809	ENST00000220751.4:c.1048C>G	8.37:g.90798839C>G	ENSP00000220751:p.Gln350Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z748|Q6UWF0	Missense_Mutation	SNP	ENST00000220751.4	37	CCDS6247.1	.	.	.	.	.	.	.	.	.	.	C	2.500	-0.315423	0.05422	.	.	ENSG00000104312	ENST00000220751;ENST00000540020	T;T	0.80480	-1.16;-1.38	5.51	3.64	0.41730	.	0.485483	0.14945	N	0.289268	T	0.61800	0.2376	N	0.19112	0.55	0.21020	N	0.999801	B	0.18166	0.026	B	0.15870	0.014	T	0.44937	-0.9295	10	0.02654	T	1	-1.3973	8.7026	0.34334	0.172:0.6623:0.1656:0.0	.	350	O43353	RIPK2_HUMAN	E	350;213	ENSP00000220751:Q350E;ENSP00000441623:Q213E	ENSP00000220751:Q350E	Q	+	1	0	RIPK2	90867980	0.808000	0.29022	0.817000	0.32601	0.824000	0.46624	1.183000	0.32041	0.815000	0.34398	0.557000	0.71058	CAG		0.323	RIPK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375686.1			G	90798839	C	G	90798839	3	3	576	1	0	0	0	0	1	0	0	0	13394	827	29	4	1082	4	RIPK2	8	90798839	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	8357153	90798839	55565183	61	34192										
RHPN1	114822	broad.mit.edu	37	chr8	144462787	144462787	+	Frame_Shift_Del	DEL	G	G	-													0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	cacctgaagcgtgccatcctGgggcaggaggaggcgctgcg							TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr8:144462787delG	ENST00000289013.6	+	11	1346	c.1245delG	c.(1243-1245)ctgfs	p.L415fs		NM_052924.2	NP_443156.2	Q8TCX5	RHPN1_HUMAN	rhophilin, Rho GTPase binding protein 1	440	BRO1. {ECO:0000255|PROSITE- ProRule:PRU00526}.				signal transduction (GO:0007165)		small GTPase regulator activity (GO:0005083)			endometrium(1)|large_intestine(1)|lung(7)	9	all_cancers(97;7.39e-11)|all_epithelial(106;5.44e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.156)			GTGCCATCCTGGGGCAGGAGG	0.697																																																0													11	14	13					8																	144462787		2086	4173	6259	SO:0001589	frameshift_variant	114822			AB067516	CCDS47927.1	8q24.3	2003-02-06			ENSG00000158106	ENSG00000158106			19973	protein-coding gene	gene with protein product		601031				11572484	Standard	NM_052924		Approved	KIAA1929, RHPN, ODF5	uc003yyb.3	Q8TCX5	OTTHUMG00000165006	ENST00000289013.6:c.1245delG	8.37:g.144462787delG	ENSP00000289013:p.Leu415fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TAV1|Q96PV9	Frame_Shift_Del	DEL	ENST00000289013.6	37	CCDS47927.1																																																																																				0.697	RHPN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381417.1			-	144462787	G	-	144462787	7	5	576	1	0	1	0	1	0	0	0	0	13363	1335	47	0	1287	0	RHPN1	8	144462787	Frame_Shift_Del	DEL	G	TCGA-DZ-6133-01A-11D-1961-08	53663948	144462787	1901235	62	34193										
PTPRD	5789	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	8471073	8471073	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ttcttcaaaggcacaattatTatgtagtaacctctgcacaa	5	9	3	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr9:8471073T>C	ENST00000381196.4	-	28	3969	c.3426A>G	c.(3424-3426)atA>atG	p.I1142M	PTPRD_ENST00000397617.3_Missense_Mutation_p.I721M|PTPRD_ENST00000540109.1_Missense_Mutation_p.I1142M|PTPRD_ENST00000397606.3_Missense_Mutation_p.I721M|PTPRD_ENST00000356435.5_Missense_Mutation_p.I1142M|PTPRD_ENST00000397611.3_Missense_Mutation_p.I728M|PTPRD_ENST00000537002.1_Missense_Mutation_p.I728M|PTPRD_ENST00000360074.4_Missense_Mutation_p.I1129M|PTPRD_ENST00000358503.5_Missense_Mutation_p.I1120M|PTPRD_ENST00000355233.5_Missense_Mutation_p.I731M|PTPRD_ENST00000486161.1_Missense_Mutation_p.I731M	NM_002839.3	NP_002830.1	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1142					heterophilic cell-cell adhesion (GO:0007157)|neuron differentiation (GO:0030182)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphate-containing compound metabolic process (GO:0006796)|positive regulation of dendrite morphogenesis (GO:0050775)|presynaptic membrane assembly (GO:0097105)|protein dephosphorylation (GO:0006470)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	cell adhesion molecule binding (GO:0050839)|receptor binding (GO:0005102)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(1)|breast(7)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(22)|liver(1)|lung(83)|ovary(4)|pancreas(1)|prostate(7)|skin(19)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	168		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)		GCACAATTATTATGTAGTAAC	0.393										TSP Lung(15;0.13)																																						0													115	113	114					9																	8471073		2203	4300	6503	SO:0001583	missense	5789			X54133	CCDS6472.1, CCDS43786.1, CCDS6472.2, CCDS55288.1, CCDS55289.1, CCDS55290.1, CCDS75813.1	9p24.1-p23	2013-02-11			ENSG00000153707	ENSG00000153707		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	9668	protein-coding gene	gene with protein product		601598				7896816, 8355697	Standard	NM_002839		Approved	PTPD, HPTP	uc003zkk.3	P23468	OTTHUMG00000021005	ENST00000381196.4:c.3426A>G	9.37:g.8471073T>C	ENSP00000370593:p.Ile1142Met	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALA0|F5GWT7|Q3KPJ0|Q3KPJ1|Q3KPJ2	Missense_Mutation	SNP	ENST00000381196.4	37	CCDS43786.1	.	.	.	.	.	.	.	.	.	.	T	18.88	3.717523	0.68844	.	.	ENSG00000153707	ENST00000381196;ENST00000356435;ENST00000360074;ENST00000358503;ENST00000355233;ENST00000397617;ENST00000397611;ENST00000537002;ENST00000346816;ENST00000540109;ENST00000486161;ENST00000397606	T;T;T;T;T;T;T;T;T;T;T	0.60672	0.17;0.17;0.17;0.17;0.17;0.17;0.17;0.17;0.17;0.17;0.17	5.72	4.56	0.56223	.	0.093861	0.64402	D	0.000001	T	0.70919	0.3279	M	0.69358	2.11	0.48762	D	0.999701	P;P;B;P;D;D;B;P;B	0.59357	0.835;0.868;0.435;0.855;0.985;0.973;0.035;0.736;0.097	P;P;B;B;D;P;B;B;B	0.77557	0.707;0.501;0.221;0.359;0.99;0.807;0.026;0.372;0.016	T	0.69924	-0.5013	9	.	.	.	.	9.7155	0.40272	0.286:0.0:0.0:0.714	.	721;726;731;731;728;728;1129;1142;1142	Q3KPJ2;Q3KPI9;Q3KPJ0;Q3KPJ1;F5GWT7;F5GWY7;G3XAE2;Q2HXI4;P23468	.;.;.;.;.;.;.;.;PTPRD_HUMAN	M	1142;1142;1129;1120;731;721;728;728;613;1142;731;721	ENSP00000370593:I1142M;ENSP00000348812:I1142M;ENSP00000353187:I1129M;ENSP00000351293:I1120M;ENSP00000347373:I731M;ENSP00000380741:I721M;ENSP00000380735:I728M;ENSP00000440515:I728M;ENSP00000438164:I1142M;ENSP00000417093:I731M;ENSP00000380731:I721M	.	I	-	3	3	PTPRD	8461073	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.376000	0.44292	0.960000	0.38005	0.533000	0.62120	ATA		0.393	PTPRD-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055395.3			C	8471073	T	C	8471073	3	2	576	1	0	0	0	0	1	0	0	0	12812	1744	61	3	2441	3	PTPRD	9	8471073	Missense_Mutation	SNP	T	TCGA-DZ-6133-01A-11D-1961-08		8471073	132742358	63	34194										
TOPORS	10210	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	32541815	32541815	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tggtaattacaactggggaaCgtgaagcattatctccatgg	11	7	1	1	rs371709773		TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr9:32541815C>G	ENST00000360538.2	-	3	2824	c.2708G>C	c.(2707-2709)cGt>cCt	p.R903P	TOPORS_ENST00000379858.1_Missense_Mutation_p.R838P	NM_005802.4	NP_005793.2	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich, E3 ubiquitin protein ligase	903	Interaction with UBE2I.				cellular response to DNA damage stimulus (GO:0006974)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|maintenance of protein location in nucleus (GO:0051457)|negative regulation of apoptotic process (GO:0043066)|photoreceptor cell outer segment organization (GO:0035845)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of ubiquitin-protein transferase activity (GO:0051443)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein K48-linked ubiquitination (GO:0070936)|protein localization to nucleus (GO:0034504)|protein monoubiquitination (GO:0006513)|protein sumoylation (GO:0016925)|regulation of cell proliferation (GO:0042127)|retina layer formation (GO:0010842)|retinal cone cell development (GO:0046549)|retinal rod cell development (GO:0046548)|transcription, DNA-templated (GO:0006351)|ubiquitin-dependent protein catabolic process (GO:0006511)	centriole (GO:0005814)|ciliary basal body (GO:0036064)|gamma-tubulin complex (GO:0000930)|midbody (GO:0030496)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|photoreceptor connecting cilium (GO:0032391)|PML body (GO:0016605)|spindle pole (GO:0000922)|ubiquitin ligase complex (GO:0000151)	antigen binding (GO:0003823)|DNA binding (GO:0003677)|DNA topoisomerase binding (GO:0044547)|SUMO ligase activity (GO:0019789)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			large_intestine(6)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)	12			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		AACTGGGGAACGTGAAGCATT	0.368																																																0													195	186	189					9																	32541815		2203	4300	6503	SO:0001583	missense	10210			AF098300	CCDS6527.1, CCDS56566.1	9p21	2013-01-09	2010-09-17		ENSG00000197579	ENSG00000197579		"RING-type (C3HC4) zinc fingers"	21653	protein-coding gene	gene with protein product		609507	"retinitis pigmentosa 31 (autosomal dominant)", "topoisomerase I binding, arginine/serine-rich"	RP31		10352183, 12083797, 17924349	Standard	NM_005802		Approved	TP53BPL, LUN	uc003zrb.3	Q9NS56	OTTHUMG00000019743	ENST00000360538.2:c.2708G>C	9.37:g.32541815C>G	ENSP00000353735:p.Arg903Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O43273|Q6P987|Q9NS55|Q9UNR9	Missense_Mutation	SNP	ENST00000360538.2	37	CCDS6527.1	.	.	.	.	.	.	.	.	.	.	C	10.82	1.457297	0.26161	.	.	ENSG00000197579	ENST00000360538;ENST00000379858	T;T	0.15017	2.46;2.47	5.81	0.86	0.19042	.	0.565792	0.16222	N	0.224014	T	0.07999	0.0200	N	0.14661	0.345	0.18873	N	0.999987	B	0.31730	0.337	B	0.26614	0.071	T	0.24621	-1.0155	10	0.52906	T	0.07	-1.0409	5.7492	0.18138	0.0:0.4435:0.1994:0.3571	.	903	Q9NS56	TOPRS_HUMAN	P	903;838	ENSP00000353735:R903P;ENSP00000369187:R838P	ENSP00000353735:R903P	R	-	2	0	TOPORS	32531815	0.000000	0.05858	0.985000	0.45067	0.702000	0.40608	-0.615000	0.05597	0.113000	0.18004	-0.133000	0.14855	CGT		0.368	TOPORS-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000052007.1	NM_005802		G	32541815	C	G	32541815	3	3	576	1	0	0	0	0	1	0	0	0	16382	536	19	4	433	4	TOPORS	9	32541815	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	24070742	32541815	108671616	64	34195										
VCP	7415	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	35061057	35061057	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	agagagttcatgacctcggcAtcaatggtctcatcctctag	9	11	4	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr9:35061057A>G	ENST00000358901.6	-	11	2209	c.1314T>C	c.(1312-1314)gaT>gaC	p.D438D		NM_007126.3	NP_009057.1	P55072	TERA_HUMAN	valosin containing protein	438					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|aggresome assembly (GO:0070842)|cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|endoplasmic reticulum unfolded protein response (GO:0030968)|ER to Golgi vesicle-mediated transport (GO:0006888)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|establishment of protein localization (GO:0045184)|positive regulation of Lys63-specific deubiquitinase activity (GO:1903007)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of protein complex assembly (GO:0031334)|positive regulation of protein K63-linked deubiquitination (GO:1903006)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein homooligomerization (GO:0051260)|protein N-linked glycosylation via asparagine (GO:0018279)|protein ubiquitination (GO:0016567)|regulation of apoptotic process (GO:0042981)|retrograde protein transport, ER to cytosol (GO:0030970)|translesion synthesis (GO:0019985)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|Hrd1p ubiquitin ligase complex (GO:0000836)|intracellular membrane-bounded organelle (GO:0043231)|lipid particle (GO:0005811)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|proteasome complex (GO:0000502)|site of double-strand break (GO:0035861)	ADP binding (GO:0043531)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|deubiquitinase activator activity (GO:0035800)|lipid binding (GO:0008289)|poly(A) RNA binding (GO:0044822)|polyubiquitin binding (GO:0031593)|protein domain specific binding (GO:0019904)|protein phosphatase binding (GO:0019903)|ubiquitin-specific protease binding (GO:1990381)			breast(3)|endometrium(2)|kidney(1)|large_intestine(4)|lung(10)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)	24			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			TGACCTCGGCATCAATGGTCT	0.537																																																0													229	212	218					9																	35061057		2203	4300	6503	SO:0001819	synonymous_variant	7415			AC004472	CCDS6573.1	9p13.3	2014-09-17	2011-01-25		ENSG00000165280	ENSG00000165280		"ATPases / AAA-type"	12666	protein-coding gene	gene with protein product		601023	"valosin-containing protein"			8595912, 7553851	Standard	NM_007126		Approved	IBMPFD, p97	uc003zvy.2	P55072	OTTHUMG00000019855	ENST00000358901.6:c.1314T>C	9.37:g.35061057A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R5T8|Q0V924|Q2TAI5|Q969G7|Q9UCD5	Silent	SNP	ENST00000358901.6	37	CCDS6573.1																																																																																				0.537	VCP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052290.1	NM_007126		G	35061057	A	G	35061057	2	3	576	1	0	0	0	0	0	0	0	1	17152	214	8	3		3	VCP	9	35061057	Silent	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	2519242	35061057	106152374	65	34196										
TMEM2	23670	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	74313090	74313090	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	taactgtggccatgcctgtgGcttttggctttgagatacaa	11	8	0	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr9:74313090G>T	ENST00000377044.4	-	20	3947	c.3408C>A	c.(3406-3408)agC>agA	p.S1136R	TMEM2_ENST00000377066.5_Missense_Mutation_p.S1073R|TMEM2_ENST00000396272.3_Missense_Mutation_p.S129R	NM_001135820.1|NM_013390.2	NP_001129292.1|NP_037522.1	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2	1136					multicellular organismal development (GO:0007275)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(15)|liver(1)|lung(19)|ovary(2)|prostate(5)|skin(1)|stomach(1)|urinary_tract(2)	56		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)		CATGCCTGTGGCTTTTGGCTT	0.413																																																0													155	125	135					9																	74313090		2203	4300	6503	SO:0001583	missense	23670				CCDS6638.1, CCDS47979.1	9q21.13	2011-07-19			ENSG00000135048	ENSG00000135048			11869	protein-coding gene	gene with protein product		605835					Standard	NM_013390		Approved		uc011lsa.1	Q9UHN6	OTTHUMG00000020000	ENST00000377044.4:c.3408C>A	9.37:g.74313090G>T	ENSP00000366243:p.Ser1136Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8W9|B2RTQ6|Q5T838|Q5T839|Q5T840|Q5T841|Q8NBP6|Q9P2D5	Missense_Mutation	SNP	ENST00000377044.4	37	CCDS6638.1	.	.	.	.	.	.	.	.	.	.	G	13.04	2.118919	0.37436	.	.	ENSG00000135048	ENST00000377044;ENST00000377066;ENST00000396272	T;T;T	0.42900	0.96;0.96;0.96	5.8	3.79	0.43588	.	0.343603	0.37053	N	0.002263	T	0.24160	0.0585	N	0.14661	0.345	0.27366	N	0.95581	B;B	0.12630	0.004;0.006	B;B	0.16722	0.007;0.016	T	0.17077	-1.0381	10	0.16420	T	0.52	.	10.9787	0.47482	0.2588:0.0:0.7412:0.0	.	1136;1073	Q9UHN6;Q9UHN6-2	TMEM2_HUMAN;.	R	1136;1073;129	ENSP00000366243:S1136R;ENSP00000366266:S1073R;ENSP00000379569:S129R	ENSP00000366243:S1136R	S	-	3	2	TMEM2	73502910	1.000000	0.71417	0.999000	0.59377	0.990000	0.78478	0.723000	0.25939	0.658000	0.30925	0.563000	0.77884	AGC		0.413	TMEM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052618.2	NM_013390		T	74313090	G	T	74313090	3	4	576	1	0	0	0	0	1	0	0	0	16133	1194	42	4	763	4	TMEM2	9	74313090	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	39252033	74313090	66900341	66	34197										
FLJ46321	389763	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	84609482	84609482	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gtggtttaataaacccagcaTatcatatgaagaacaagaaa	7	6	1	3			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr9:84609482T>C	ENST00000344803.2	+	4	4144	c.4097T>C	c.(4096-4098)aTa>aCa	p.I1366T		NM_001001670.2	NP_001001670.1	Q6ZQQ2	S31D1_HUMAN	SPATA31 subfamily D, member 1	1366					cell differentiation (GO:0030154)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)											AAACCCAGCATATCATATGAA	0.433																																																0													28	25	26					9																	84609482		1844	4078	5922	SO:0001583	missense	389763				CCDS47986.1	9q21.32	2012-10-12	2012-10-12	2012-10-12	ENSG00000214929	ENSG00000214929			37283	protein-coding gene	gene with protein product			"family with sequence similarity 75, member D1"	FAM75D1			Standard	NM_001001670		Approved	FLJ46321	uc004amn.3	Q6ZQQ2	OTTHUMG00000169122	ENST00000344803.2:c.4097T>C	9.37:g.84609482T>C	ENSP00000341988:p.Ile1366Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000344803.2	37	CCDS47986.1	.	.	.	.	.	.	.	.	.	.	T	1.389	-0.581436	0.03854	.	.	ENSG00000214929	ENST00000344803	T	0.04706	3.57	3.23	-6.46	0.01908	.	.	.	.	.	T	0.01765	0.0056	N	0.12182	0.205	0.09310	N	1	B	0.20988	0.05	B	0.17722	0.019	T	0.45145	-0.9281	9	0.09084	T	0.74	5.4727	0.8658	0.01203	0.3696:0.2351:0.248:0.1473	.	1366	Q6ZQQ2	F75D1_HUMAN	T	1366	ENSP00000341988:I1366T	ENSP00000341988:I1366T	I	+	2	0	FAM75D1	83799302	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-1.596000	0.02091	-2.589000	0.00457	-0.313000	0.08912	ATA		0.433	SPATA31D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402325.1	NM_001001670		C	84609482	T	C	84609482	3	2	576	1	0	0	0	0	1	0	0	0	5939	1406	49	3	4111	3	FLJ46321	9	84609482	Missense_Mutation	SNP	T	TCGA-DZ-6133-01A-11D-1961-08	10296392	84609482	56603949	67	34198										
PAPPA	5069	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	118949550	118949550	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tttctccttgaagacagaccGagcccggcaagtgaccacca	9	14	1	4			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr9:118949550G>T	ENST00000328252.3	+	2	902	c.533G>T	c.(532-534)cGa>cTa	p.R178L	PAPPA_ENST00000534838.1_5'Flank	NM_002581.3	NP_002572.2	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A, pappalysin 1	178					cell differentiation (GO:0030154)|cellular protein metabolic process (GO:0044267)|female pregnancy (GO:0007565)|response to follicle-stimulating hormone (GO:0032354)|response to glucocorticoid (GO:0051384)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|membrane (GO:0016020)	endopeptidase activity (GO:0004175)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(1)|breast(4)|endometrium(9)|kidney(2)|large_intestine(23)|lung(33)|ovary(4)|pancreas(2)|prostate(5)|skin(7)|stomach(1)|upper_aerodigestive_tract(6)|urinary_tract(1)	98						AAGACAGACCGAGCCCGGCAA	0.532																																																0													84	79	81					9																	118949550		2203	4300	6503	SO:0001583	missense	5069				CCDS6813.1	9q33.1	2014-03-05			ENSG00000182752	ENSG00000182752			8602	protein-coding gene	gene with protein product	"insulin-like growth factor-dependent IGF binding protein-4 protease", "aspecific BCL2 ARE-binding protein 2", "differentially placenta 1 expressed protein"	176385				7679961	Standard	NM_002581		Approved	PAPP-A, PAPPA1, IGFBP-4ase, PAPA, ASBABP2, DIPLA1	uc004bjn.3	Q13219	OTTHUMG00000021045	ENST00000328252.3:c.533G>T	9.37:g.118949550G>T	ENSP00000330658:p.Arg178Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B1AMF9|Q08371|Q68G52|Q9UDK7	Missense_Mutation	SNP	ENST00000328252.3	37	CCDS6813.1	.	.	.	.	.	.	.	.	.	.	G	28.8	4.948966	0.92660	.	.	ENSG00000182752	ENST00000328252	T	0.73681	-0.77	6.07	6.07	0.98685	Concanavalin A-like lectin/glucanase (1);LamG-like jellyroll fold (1);Concanavalin A-like lectin/glucanase, subgroup (1);	0.000000	0.85682	D	0.000000	D	0.88709	0.6510	M	0.84433	2.695	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.88974	0.3403	10	0.87932	D	0	-25.065	20.6439	0.99570	0.0:0.0:1.0:0.0	.	178	Q13219	PAPP1_HUMAN	L	178	ENSP00000330658:R178L	ENSP00000330658:R178L	R	+	2	0	PAPPA	117989371	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	9.827000	0.99397	2.884000	0.98904	0.655000	0.94253	CGA		0.532	PAPPA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055546.1	NM_002581		T	118949550	G	T	118949550	3	4	576	1	0	0	0	0	1	0	0	0	11439	1058	37	4	539	4	PAPPA	9	118949550	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	34340068	118949550	22263881	68	34199										
ADAMTS14	140766	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	72503320	72503320	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	acagacgcccagaagtgtgaGctgatctgccagtcggcgga	14	11	1	4			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr10:72503320G>T	ENST00000373207.1	+	13	1941	c.1941G>T	c.(1939-1941)gaG>gaT	p.E647D	ADAMTS14_ENST00000373208.1_Missense_Mutation_p.E650D	NM_080722.3	NP_542453.2	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 14	647	Cys-rich.				collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular matrix organization (GO:0030198)	extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			NS(1)|autonomic_ganglia(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(11)|lung(15)|ovary(7)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	50						AGAAGTGTGAGCTGATCTGCC	0.597																																																0													81	70	74					10																	72503320		2203	4300	6503	SO:0001583	missense	140766			AF358666	CCDS7306.1, CCDS7307.1	10q21	2008-08-01	2005-08-19		ENSG00000138316	ENSG00000138316		"ADAM metallopeptidases with thrombospondin type 1 motif"	14899	protein-coding gene	gene with protein product		607506	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 14"			11779638	Standard	NM_139155		Approved		uc001jrg.3	Q8WXS8	OTTHUMG00000018414	ENST00000373207.1:c.1941G>T	10.37:g.72503320G>T	ENSP00000362303:p.Glu647Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T4G0|Q5T4G1|Q8TE55|Q8TEY8	Missense_Mutation	SNP	ENST00000373207.1	37	CCDS7306.1	.	.	.	.	.	.	.	.	.	.	G	17.16	3.318605	0.60524	.	.	ENSG00000138316	ENST00000373208;ENST00000373207	T;T	0.69685	-0.42;-0.42	5.2	3.31	0.37934	.	0.000000	0.85682	D	0.000000	T	0.65481	0.2695	L	0.52905	1.665	0.35321	D	0.784791	P;P;P	0.51449	0.936;0.885;0.945	P;P;P	0.49752	0.511;0.621;0.546	T	0.72478	-0.4281	10	0.39692	T	0.17	.	9.2922	0.37793	0.2257:0.0:0.7743:0.0	.	580;647;650	Q8WXS8-2;Q8WXS8;Q5T4G1	.;ATS14_HUMAN;.	D	650;647	ENSP00000362304:E650D;ENSP00000362303:E647D	ENSP00000362303:E647D	E	+	3	2	ADAMTS14	72173326	1.000000	0.71417	1.000000	0.80357	0.957000	0.61999	3.838000	0.55828	1.421000	0.47157	0.655000	0.94253	GAG		0.597	ADAMTS14-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000048522.1	NM_080722		T	72503320	G	T	72503320	3	4	576	1	0	0	0	0	1	0	0	0	259	962	34	4	2000	4	ADAMTS14	10	72503320	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08		72503320	63031427	69	34200										
CPEB3	22849	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	93812079	93812079	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gctcgcccagcagtattcacAgtaatactgcagacaggtga	10	11	1	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr10:93812079A>G	ENST00000265997.4	-	10	2159	c.1987T>C	c.(1987-1989)Tgt>Cgt	p.C663R	CPEB3_ENST00000412050.4_Missense_Mutation_p.C649R	NM_014912.4	NP_055727.3	Q8NE35	CPEB3_HUMAN	cytoplasmic polyadenylation element binding protein 3	663					3'-UTR-mediated mRNA destabilization (GO:0061158)|cellular response to amino acid stimulus (GO:0071230)|long-term memory (GO:0007616)|negative regulation of cytoplasmic translational elongation (GO:1900248)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of translation (GO:0017148)|positive regulation of dendritic spine development (GO:0060999)|positive regulation of mRNA polyadenylation (GO:1900365)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|positive regulation of translation (GO:0045727)|regulation of dendritic spine development (GO:0060998)|regulation of synaptic plasticity (GO:0048167)|translation (GO:0006412)	apical dendrite (GO:0097440)|CCR4-NOT complex (GO:0030014)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|neuron projection (GO:0043005)|nucleus (GO:0005634)|synapse (GO:0045202)	mRNA 3'-UTR AU-rich region binding (GO:0035925)|mRNA 3'-UTR binding (GO:0003730)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|RNA stem-loop binding (GO:0035613)|translation factor activity, nucleic acid binding (GO:0008135)|translation repressor activity, nucleic acid binding (GO:0000900)			breast(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(5)|lung(5)|skin(2)|upper_aerodigestive_tract(2)	18		Colorectal(252;0.0869)				CAGTATTCACAGTAATACTGC	0.592																																																0													101	86	91					10																	93812079		2203	4300	6503	SO:0001583	missense	22849			AB023157	CCDS31246.1, CCDS53553.1	10q23.33	2013-02-12			ENSG00000107864	ENSG00000107864		"RNA binding motif (RRM) containing"	21746	protein-coding gene	gene with protein product		610606				10231032, 12672660	Standard	NM_014912		Approved	KIAA0940	uc001khw.2	Q8NE35	OTTHUMG00000018756	ENST00000265997.4:c.1987T>C	10.37:g.93812079A>G	ENSP00000265997:p.Cys663Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T389|Q9NQJ7|Q9Y2E9	Missense_Mutation	SNP	ENST00000265997.4	37	CCDS31246.1	.	.	.	.	.	.	.	.	.	.	A	16.70	3.195744	0.58126	.	.	ENSG00000107864	ENST00000394210;ENST00000412050;ENST00000265997	T;T	0.25414	1.8;1.8	5.5	5.5	0.81552	.	0.000000	0.85682	D	0.000000	T	0.58424	0.2121	M	0.89214	3.015	0.80722	D	1	D;D;D	0.89917	1.0;0.995;0.997	D;D;D	0.91635	0.999;0.986;0.994	T	0.67469	-0.5663	10	0.87932	D	0	-10.7449	15.5925	0.76543	1.0:0.0:0.0:0.0	.	663;649;649	Q8NE35;Q5QP71;Q8NE35-2	CPEB3_HUMAN;.;.	R	649;649;663	ENSP00000398310:C649R;ENSP00000265997:C663R	ENSP00000265997:C663R	C	-	1	0	CPEB3	93802059	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	9.339000	0.96797	2.094000	0.63399	0.482000	0.46254	TGT		0.592	CPEB3-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049387.2	NM_014912		G	93812079	A	G	93812079	3	3	576	1	0	0	0	0	1	0	0	0	3804	188	7	3	113	3	CPEB3	10	93812079	Missense_Mutation	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	21308759	93812079	41722668	70	34201										
RRP12	23223	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	99120314	99120314	+	Frame_Shift_Del	DEL	G	G	-													0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	aagcctcaccttggtactgaGggggtatctccagctcctcc							TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr10:99120314delG	ENST00000370992.4	-	31	3740	c.3629delC	c.(3628-3630)cctfs	p.P1210fs	RRP12_ENST00000536831.1_Frame_Shift_Del_p.P928fs|RRP12_ENST00000414986.1_Frame_Shift_Del_p.P1149fs|RRP12_ENST00000479481.1_5'UTR|RRP12_ENST00000315563.6_Frame_Shift_Del_p.P1110fs	NM_015179.3	NP_055994.2	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog (S. cerevisiae)	1210						integral component of membrane (GO:0016021)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)			NS(1)|breast(2)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(5)|large_intestine(2)|lung(13)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	37		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		TTGGTACTGAGGGGGTATCTC	0.557																																																0													170	143	152					10																	99120314		2203	4300	6503	SO:0001589	frameshift_variant	23223				CCDS7457.1, CCDS44467.1, CCDS60605.1	10q24.2	2006-11-06	2006-11-06	2006-11-06	ENSG00000052749	ENSG00000052749			29100	protein-coding gene	gene with protein product			"KIAA0690"	KIAA0690		9734811	Standard	NM_015179		Approved		uc001knf.3	Q5JTH9	OTTHUMG00000018855	ENST00000370992.4:c.3629delC	10.37:g.99120314delG	ENSP00000360031:p.Pro1210fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DK00|E9PCK7|Q5JTH8|Q69YK4|Q96E87|Q9BUH3|Q9Y4C7	Frame_Shift_Del	DEL	ENST00000370992.4	37	CCDS7457.1																																																																																				0.557	RRP12-007	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049699.4	NM_015179		-	99120314	G	-	99120314	7	5	576	1	0	1	0	1	0	0	0	0	13699	1000	35	0	280	0	RRP12	10	99120314	Frame_Shift_Del	DEL	G	TCGA-DZ-6133-01A-11D-1961-08	5308235	99120314	36414433	71	34202										
KNDC1	85442	broad.mit.edu	37	chr10	135012252	135012252	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	agcagccccagagcctcttgGggcgtcagtgcagcgtgact	14	13	2	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr10:135012252G>C	ENST00000304613.3	+	14	2261	c.2240G>C	c.(2239-2241)gGg>gCg	p.G747A	KNDC1_ENST00000368572.2_Missense_Mutation_p.G747A|KNDC1_ENST00000368571.2_Missense_Mutation_p.G682A			Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND) containing 1	747	Pro-rich.				cerebellar granule cell differentiation (GO:0021707)|positive regulation of protein phosphorylation (GO:0001934)|regulation of dendrite morphogenesis (GO:0048814)|small GTPase mediated signal transduction (GO:0007264)	dendrite (GO:0030425)|guanyl-nucleotide exchange factor complex (GO:0032045)|neuronal cell body (GO:0043025)	protein serine/threonine kinase activity (GO:0004674)|Ras guanyl-nucleotide exchange factor activity (GO:0005088)			NS(4)|breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(27)|ovary(1)|prostate(5)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	60		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)		GAGCCTCTTGGGGCGTCAGTG	0.726																																																0													6	9	8					10																	135012252		2105	4171	6276	SO:0001583	missense	85442			AK074179	CCDS7674.1	10q26.3	2004-09-14	2004-04-07		ENSG00000171798	ENSG00000171798			29374	protein-coding gene	gene with protein product			"RasGEF domain family, member 2"	RASGEF2, C10orf23		11214970	Standard	NM_152643		Approved	KIAA1768, bB439H18.3, FLJ25027	uc001llz.1	Q76NI1	OTTHUMG00000019303	ENST00000304613.3:c.2240G>C	10.37:g.135012252G>C	ENSP00000304437:p.Gly747Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B0QZC5|Q5T233|Q6ZNH8|Q8TEE5|Q96LV7|Q9C095	Missense_Mutation	SNP	ENST00000304613.3	37	CCDS7674.1	.	.	.	.	.	.	.	.	.	.	G	8.015	0.758350	0.15846	.	.	ENSG00000171798	ENST00000304613;ENST00000368572;ENST00000368571	T;T;T	0.18174	2.75;2.75;2.23	3.6	0.496	0.16896	.	2.237860	0.02114	U	0.055037	T	0.15305	0.0369	L	0.46157	1.445	0.09310	N	1	P;B;B	0.41450	0.75;0.206;0.131	B;B;B	0.39562	0.303;0.086;0.026	T	0.18209	-1.0344	10	0.15952	T	0.53	-0.5875	4.1268	0.10131	0.2365:0.1947:0.5687:0.0	.	747;682;747	Q76NI1-4;Q76NI1-2;Q76NI1	.;.;VKIND_HUMAN	A	747;747;682	ENSP00000304437:G747A;ENSP00000357561:G747A;ENSP00000357560:G682A	ENSP00000304437:G747A	G	+	2	0	KNDC1	134862242	0.002000	0.14202	0.000000	0.03702	0.016000	0.09150	0.679000	0.25291	-0.015000	0.14150	0.306000	0.20318	GGG		0.726	KNDC1-006	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000277044.3	NM_152643		C	135012252	G	C	135012252	3	2	576	1	0	0	0	0	1	0	0	0	8433	1232	43	4	2294	4	KNDC1	10	135012252	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	35891938	135012252	522495	72	34203										
SMPD1	6609	hgsc.bcm.edu	37	chr11	6411953	6411953	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ggtgctggcgctggcgctggCgctggcgctggcgctggctc	20	13	0	0	rs550067660|rs200577287	byFrequency	TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr11:6411953C>G	ENST00000342245.4	+	1	293	c.125C>G	c.(124-126)gCg>gGg	p.A42G	SMPD1_ENST00000356761.2_Missense_Mutation_p.A42G|SMPD1_ENST00000527275.1_Missense_Mutation_p.A42G|SMPD1_ENST00000299397.3_Missense_Mutation_p.A42G|SMPD1_ENST00000533196.1_3'UTR	NM_000543.4|NM_001007593.2	NP_000534.3|NP_001007594.2	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid lysosomal	42					cell death (GO:0008219)|ceramide biosynthetic process (GO:0046513)|glycosphingolipid metabolic process (GO:0006687)|negative regulation of MAP kinase activity (GO:0043407)|nervous system development (GO:0007399)|positive regulation of apoptotic process (GO:0043065)|positive regulation of protein dephosphorylation (GO:0035307)|response to cocaine (GO:0042220)|response to drug (GO:0042493)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)|sphingomyelin catabolic process (GO:0006685)|sphingomyelin metabolic process (GO:0006684)|termination of signal transduction (GO:0023021)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|lamellar body (GO:0042599)|lysosomal lumen (GO:0043202)	hydrolase activity, acting on glycosyl bonds (GO:0016798)|sphingomyelin phosphodiesterase activity (GO:0004767)			breast(1)|central_nervous_system(2)|kidney(1)|large_intestine(8)|lung(5)|ovary(1)|pancreas(1)|prostate(1)|urinary_tract(3)	23		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Amlodipine(DB00381)|Chlorpromazine(DB00477)|Desipramine(DB01151)	ctggcgctggcgctggcgctg	0.701																																																0													15	20	18					11																	6411953		2196	4291	6487	SO:0001583	missense	6609			AB209775	CCDS31409.1, CCDS44531.1, CCDS31409.2	11p15.4-p15.1	2010-04-28	2008-02-04		ENSG00000166311	ENSG00000166311	3.1.4.12		11120	protein-coding gene	gene with protein product	"acid sphingomyelinase"	607608				1711683	Standard	NM_000543		Approved	ASM	uc001mcw.3	P17405	OTTHUMG00000165453	ENST00000342245.4:c.125C>G	11.37:g.6411953C>G	ENSP00000340409:p.Ala42Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8M3|E9PKS3|P17406|Q13811|Q16837|Q16841	Missense_Mutation	SNP	ENST00000342245.4	37	CCDS44531.1	.	.	.	.	.	.	.	.	.	.	c	5.495	0.276322	0.10403	.	.	ENSG00000166311	ENST00000299397;ENST00000356761;ENST00000342245;ENST00000527275	T;T;T;T	0.10668	2.85;2.85;2.86;2.86	4.83	1.04	0.20106	.	.	.	.	.	T	0.04452	0.0122	N	0.08118	0	0.09310	N	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.46721	-0.9171	9	0.11182	T	0.66	-29.9727	6.4547	0.21924	0.0:0.6933:0.1662:0.1405	.	42;42;40	E9PKS3;G3XAB5;P17405	.;.;ASM_HUMAN	G	42	ENSP00000299397:A42G;ENSP00000349203:A42G;ENSP00000340409:A42G;ENSP00000435350:A42G	ENSP00000299397:A42G	A	+	2	0	SMPD1	6368529	0.017000	0.18338	0.014000	0.15608	0.042000	0.13812	-0.478000	0.06575	0.322000	0.23283	0.563000	0.77884	GCG		0.701	SMPD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000384205.1	NM_000543		G	6411953	C	G	6411953	3	3	576	1	0	0	0	0	1	0	0	0	14817	768	27	4	127	4	SMPD1	11	6411953	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08		6411953	128594563	73	34204										
HARBI1	283254	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	46637368	46637368	+	Silent	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	acccccatcacccctggcatCcctgccaacccatagaattc	4	20	1	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr11:46637368C>A	ENST00000326737.3	-	2	667	c.420G>T	c.(418-420)ggG>ggT	p.G140G	ATG13_ENST00000312040.4_5'Flank|ATG13_ENST00000451945.1_5'Flank|ATG13_ENST00000529655.1_5'Flank|ATG13_ENST00000530500.1_5'Flank|ATG13_ENST00000359513.4_5'Flank|ATG13_ENST00000526508.1_5'Flank|ATG13_ENST00000434074.1_5'Flank|ATG13_ENST00000524625.1_5'Flank|ATG13_ENST00000528494.1_5'Flank	NM_173811.3	NP_776172.1	Q96MB7	HARB1_HUMAN	harbinger transposase derived 1	140						centrosome (GO:0005813)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|nuclease activity (GO:0004518)			large_intestine(1)|prostate(1)|upper_aerodigestive_tract(1)	3						CCCCTGGCATCCCTGCCAACC	0.512																																																0													201	196	198					11																	46637368		2201	4299	6500	SO:0001819	synonymous_variant	283254			AK057237	CCDS7920.1	11p11.2	2008-07-10	2008-07-01	2008-07-01	ENSG00000180423	ENSG00000180423			26522	protein-coding gene	gene with protein product		615086	"chromosome 11 open reading frame 77"	C11orf77		15169610, 18339812	Standard	NM_173811		Approved	FLJ32675	uc001ncy.3	Q96MB7	OTTHUMG00000166537	ENST00000326737.3:c.420G>T	11.37:g.46637368C>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DQP9	Silent	SNP	ENST00000326737.3	37	CCDS7920.1																																																																																				0.512	HARBI1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390291.1	NM_173811		A	46637368	C	A	46637368	2	1	576	1	0	0	0	0	0	0	0	1	6965	842	30	4		4	HARBI1	11	46637368	Silent	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	40225415	46637368	88369148	74	34205										
SAPS3	55291	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	68377390	68377390	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	agtgaggaagggaaactgtcTacctctcaagatgctgcttg	12	8	2	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr11:68377390T>A	ENST00000393800.2	+	23	2723	c.2469T>A	c.(2467-2469)tcT>tcA	p.S823S	PPP6R3_ENST00000265637.4_Silent_p.S777S|PPP6R3_ENST00000265636.5_Silent_p.S743S|PPP6R3_ENST00000393799.2_Silent_p.S829S|PPP6R3_ENST00000524845.1_Silent_p.S794S|PPP6R3_ENST00000393801.3_Silent_p.S829S|PPP6R3_ENST00000529710.1_Silent_p.S743S|PPP6R3_ENST00000527403.2_Silent_p.S788S|PPP6R3_ENST00000534534.1_Silent_p.S591S|PPP6R3_ENST00000524904.1_Silent_p.S817S	NM_001164161.1|NM_001164162.1|NM_001164163.1	NP_001157633.1|NP_001157634.1|NP_001157635.1	Q5H9R7	PP6R3_HUMAN	protein phosphatase 6, regulatory subunit 3	823					regulation of phosphoprotein phosphatase activity (GO:0043666)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	protein phosphatase binding (GO:0019903)			breast(2)|endometrium(6)|kidney(3)|large_intestine(10)|liver(2)|lung(9)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	37						GGAAACTGTCTACCTCTCAAG	0.577																																																0													174	149	157					11																	68377390		2200	4294	6494	SO:0001819	synonymous_variant	55291			AF264779	CCDS8182.1, CCDS53671.1, CCDS53672.1, CCDS53673.1, CCDS53674.1, CCDS53675.1	11q13	2012-04-17	2010-06-28	2010-06-28	ENSG00000110075	ENSG00000110075		"Serine/threonine phosphatases / Protein phosphatase 6, regulatory subunits"	1173	protein-coding gene	gene with protein product	"sporulation-induced transcript 4-associated protein"	610879	"chromosome 11 open reading frame 23", "SAPS domain family, member 3"	C11orf23, SAPS3		11401438, 16769727	Standard	NM_018312		Approved	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712	uc001onv.3	Q5H9R7		ENST00000393800.2:c.2469T>A	11.37:g.68377390T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q3B7I1|Q3I4Y0|Q3KR35|Q68CR3|Q7L4R8|Q8N3B2|Q96MB2|Q9H2K5|Q9H2K6|Q9HCL4|Q9NUY3	Silent	SNP	ENST00000393800.2	37	CCDS53672.1																																																																																				0.577	PPP6R3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395275.1	NM_018312		A	68377390	T	A	68377390	2	1	576	1	0	0	0	0	0	0	0	1	13851	1509	53	5		5	SAPS3	11	68377390	Silent	SNP	T	TCGA-DZ-6133-01A-11D-1961-08	21740022	68377390	66629126	75	34206										
MMP3	4314	ucsc.edu;bcgsc.ca	37	chr11	102713447	102713447	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	cacttcgggatgccaggaaaGgttctgaagtgaccaacatc	11	10	1	2	rs41380244	byFrequency	TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr11:102713447G>T	ENST00000299855.5	-	2	562	c.306C>A	c.(304-306)acC>acA	p.T102T		NM_002422.3	NP_002413.1	P08254	MMP3_HUMAN	matrix metallopeptidase 3 (stromelysin 1, progelatinase)	102					cellular response to amino acid stimulus (GO:0071230)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|negative regulation of hydrogen peroxide metabolic process (GO:0010727)|positive regulation of oxidative stress-induced cell death (GO:1903209)|proteolysis (GO:0006508)|regulation of cell migration (GO:0030334)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|endopeptidase activity (GO:0004175)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(3)|large_intestine(3)|liver(1)|lung(7)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	22		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.0142)	Marimastat(DB00786)	TGCCAGGAAAGGTTCTGAAGT	0.478																																																0													72	66	68					11																	102713447		2203	4299	6502	SO:0001819	synonymous_variant	4314			X05232	CCDS8323.1	11q22.3	2012-10-02	2005-08-08		ENSG00000149968	ENSG00000149968	3.4.24.17		7173	protein-coding gene	gene with protein product		185250	"matrix metalloproteinase 3 (stromelysin 1, progelatinase)"	STMY1, STMY			Standard	NM_002422		Approved		uc001phj.1	P08254	OTTHUMG00000048254	ENST00000299855.5:c.306C>A	11.37:g.102713447G>T		Somatic		WXS	Illumina HiSeq		B2R8B8|Q3B7S0|Q6GRF8	Silent	SNP	ENST00000299855.5	37	CCDS8323.1																																																																																				0.478	MMP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109758.2	NM_002422		T	102713447	G	T	102713447	2	4	576	1	0	0	0	0	0	0	0	1	9673	987	35	4		4	MMP3	11	102713447	Silent	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	34336057	102713447	32293069	76	34207										
ANKK1	255239	hgsc.bcm.edu;broad.mit.edu	37	chr11	113270078	113270078	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	cccaggaacgtgaagggtggAcccctcttcacctggctgca	12	14	2	1	rs370088482		TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr11:113270078A>G	ENST00000303941.3	+	8	1481	c.1387A>G	c.(1387-1389)Acc>Gcc	p.T463A		NM_178510.1	NP_848605.1	Q8NFD2	ANKK1_HUMAN	ankyrin repeat and kinase domain containing 1	463							ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(3)|liver(2)|lung(14)|ovary(1)|stomach(1)	29		all_cancers(61;1.53e-11)|all_epithelial(67;3e-06)|Melanoma(852;4.04e-05)|all_hematologic(158;0.000315)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0461)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Prostate(24;0.194)		BRCA - Breast invasive adenocarcinoma(274;4.82e-06)|Epithelial(105;5.41e-05)|all cancers(92;0.000442)|OV - Ovarian serous cystadenocarcinoma(223;0.238)		TGAAGGGTGGACCCCTCTTCA	0.622																																																0													18	22	21					11																	113270078		2092	4222	6314	SO:0001583	missense	255239			AJ541797	CCDS44734.1	11q23.2	2013-01-10			ENSG00000170209	ENSG00000170209		"Ankyrin repeat domain containing"	21027	protein-coding gene	gene with protein product		608774				15146457	Standard	NM_178510		Approved	X-kinase	uc001pny.3	Q8NFD2	OTTHUMG00000167715	ENST00000303941.3:c.1387A>G	11.37:g.113270078A>G	ENSP00000306678:p.Thr463Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000303941.3	37	CCDS44734.1	.	.	.	.	.	.	.	.	.	.	A	12.33	1.906789	0.33628	.	.	ENSG00000170209	ENST00000303941	T	0.74737	-0.87	4.83	1.03	0.20045	Ankyrin repeat-containing domain (4);	0.096889	0.43579	D	0.000551	D	0.84419	0.5468	M	0.90252	3.1	0.39435	D	0.967155	D	0.76494	0.999	D	0.74348	0.983	T	0.81106	-0.1083	10	0.62326	D	0.03	-34.3557	4.9666	0.14094	0.637:0.0:0.079:0.284	.	463	Q8NFD2	ANKK1_HUMAN	A	463	ENSP00000306678:T463A	ENSP00000306678:T463A	T	+	1	0	ANKK1	112775288	1.000000	0.71417	0.917000	0.36280	0.059000	0.15707	2.408000	0.44574	0.005000	0.14708	0.455000	0.32223	ACC		0.622	ANKK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395830.1	NM_178510		G	113270078	A	G	113270078	3	3	576	1	0	0	0	0	1	0	0	0	631	275	10	3	1417	3	ANKK1	11	113270078	Missense_Mutation	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	10556631	113270078	21736438	77	34208										
PEX5	5830	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr12	7343122	7343122	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	agccccggcctctgaggcagTgagtgttcttgaggtggaaa	15	9	2	3			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr12:7343122T>C	ENST00000455147.2	+	3	727		c.e3+2		RP11-273B20.3_ENST00000545794.1_RNA|PEX5_ENST00000412720.2_Splice_Site|PEX5_ENST00000545220.1_Intron|PEX5_ENST00000434354.2_Missense_Mutation_p.V50A|PEX5_ENST00000420616.2_Splice_Site|PEX5_ENST00000266563.5_Splice_Site|RP11-273B20.3_ENST00000543061.1_RNA|PEX5_ENST00000266564.3_Splice_Site	NM_001131026.1	NP_001124498.1	P50542	PEX5_HUMAN	peroxisomal biogenesis factor 5						cell development (GO:0048468)|cerebral cortex cell migration (GO:0021795)|cerebral cortex neuron differentiation (GO:0021895)|endoplasmic reticulum organization (GO:0007029)|fatty acid beta-oxidation (GO:0006635)|mitochondrial membrane organization (GO:0007006)|negative regulation of protein homotetramerization (GO:1901094)|neuromuscular process (GO:0050905)|neuron migration (GO:0001764)|positive regulation of multicellular organism growth (GO:0040018)|protein import into peroxisome matrix (GO:0016558)|protein import into peroxisome matrix, docking (GO:0016560)|protein import into peroxisome matrix, translocation (GO:0016561)|protein import into peroxisome membrane (GO:0045046)|protein targeting to peroxisome (GO:0006625)|protein tetramerization (GO:0051262)|very long-chain fatty acid metabolic process (GO:0000038)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|intracellular (GO:0005622)|membrane (GO:0016020)|mitochondrion (GO:0005739)|peroxisomal matrix (GO:0005782)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)|protein complex (GO:0043234)	enzyme binding (GO:0019899)|peroxisome matrix targeting signal-1 binding (GO:0005052)|peroxisome targeting sequence binding (GO:0000268)|protein C-terminus binding (GO:0008022)|protein N-terminus binding (GO:0047485)|small GTPase binding (GO:0031267)			breast(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(8)|ovary(1)|prostate(1)|skin(1)	21						TCTGAGGCAGTGAGTGTTCTT	0.632																																																0													24	27	26					12																	7343122		2200	4294	6494	SO:0001630	splice_region_variant	5830			U19721	CCDS8576.1, CCDS44822.1, CCDS44823.1, CCDS44824.1, CCDS73433.1	12p	2013-01-10	2004-03-17	2004-03-19		ENSG00000139197		"Tetratricopeptide (TTC) repeat domain containing"	9719	protein-coding gene	gene with protein product		600414	"peroxisome receptor 1"	PXR1			Standard	NM_000319		Approved	PTS1R	uc010sgc.2	P50542		ENST00000455147.2:c.147+2T>C	12.37:g.7343122T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K891|B4DZ45|B7ZAD5|D3DUT8|Q15115|Q15266|Q96FN7	Missense_Mutation	SNP	ENST00000455147.2	37	CCDS44823.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	17.99|17.99	3.522704|3.522704	0.64747|0.64747	.|.	.|.	ENSG00000139197|ENSG00000139197	ENST00000542539;ENST00000455147;ENST00000540398;ENST00000266563;ENST00000544456;ENST00000545574;ENST00000420616;ENST00000412720;ENST00000536841;ENST00000537873;ENST00000266564|ENST00000434354;ENST00000396637	.|D;D	.|0.88046	.|-2.33;-2.09	3.59|3.59	3.59|3.59	0.41128|0.41128	.|.	.|.	.|.	.|.	.|.	.|D	.|0.90950	.|0.7155	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|P	.|0.43392	.|0.805	.|P	.|0.59424	.|0.857	.|D	.|0.89996	.|0.4111	.|7	.|.	.|.	.|.	.|.	10.9229|10.9229	0.47176|0.47176	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	.|50	.|B4DZ45	.|.	.|A	-1|50	.|ENSP00000407401:V50A;ENSP00000379877:V50A	.|.	.|V	+|+	.|2	.|0	PEX5|PEX5	7234389|7234389	1.000000|1.000000	0.71417|0.71417	0.983000|0.983000	0.44433|0.44433	0.526000|0.526000	0.34562|0.34562	2.840000|2.840000	0.48215|0.48215	1.654000|1.654000	0.50703|0.50703	0.342000|0.342000	0.21767|0.21767	.|GTG		0.632	PEX5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398611.1	NM_000319	Intron	C	7343122	T	C	7343122	5	2	576	1	0	0	0	0	0	0	1	0	11755	1710	59	3	151	3	PEX5	12	7343122	Splice_Site	SNP	T	TCGA-DZ-6133-01A-11D-1961-08		7343122	126508773	78	34209										
GSG1	83445	broad.mit.edu;bcgsc.ca	37	chr12	13243503	13243503	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gaagctccggaaggagaaccGgtcatccccagtctcccagt	11	14	2	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr12:13243503G>A	ENST00000432710.2	-	2	430	c.298C>T	c.(298-300)Cgg>Tgg	p.R100W	GSG1_ENST00000537302.1_Missense_Mutation_p.R87W|GSG1_ENST00000351606.6_Missense_Mutation_p.R100W|GSG1_ENST00000396310.2_Missense_Mutation_p.R84W|GSG1_ENST00000337630.6_Missense_Mutation_p.R87W|GSG1_ENST00000457134.2_Missense_Mutation_p.R87W|GSG1_ENST00000324458.8_Missense_Mutation_p.R100W|GSG1_ENST00000396302.3_Missense_Mutation_p.R87W	NM_001206842.1	NP_001193771.1	Q2KHT4	GSG1_HUMAN	germ cell associated 1	87						endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)				endometrium(1)|large_intestine(3)|lung(4)|skin(1)|urinary_tract(1)	10		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.15)		AAGGAGAACCGGTCATCCCCA	0.542																																																0													108	98	101					12																	13243503		2203	4300	6503	SO:0001583	missense	83445			BC001796	CCDS8659.2, CCDS44835.1, CCDS44836.1, CCDS55806.1, CCDS55807.1, CCDS55808.1	12p13.31	2007-12-03			ENSG00000111305	ENSG00000111305			19716	protein-coding gene	gene with protein product							Standard	NM_031289		Approved	MGC3146	uc001rbn.3	Q2KHT4	OTTHUMG00000150148	ENST00000432710.2:c.298C>T	12.37:g.13243503G>A	ENSP00000405032:p.Arg100Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N4M3|Q8NBR4|Q8NBS0|Q8NBT1|Q96LP9|Q96SI6|Q9BUY4	Missense_Mutation	SNP	ENST00000432710.2	37	CCDS55808.1	.	.	.	.	.	.	.	.	.	.	G	18.80	3.700492	0.68501	.	.	ENSG00000111305	ENST00000337630;ENST00000324458;ENST00000396310;ENST00000396302;ENST00000457134;ENST00000432710;ENST00000537302;ENST00000351606;ENST00000405543;ENST00000545401;ENST00000542415;ENST00000545699	T;T;T;T;T;T;T;T;T;T;T	0.38401	1.14;1.14;1.14;1.14;1.14;1.14;1.14;1.14;1.14;1.14;1.14	5.55	4.66	0.58398	.	0.000000	0.85682	D	0.000000	T	0.59985	0.2234	M	0.83603	2.65	0.39184	D	0.96283	D;D;D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D;D;D	0.97110	0.999;1.0;1.0;1.0;0.999;1.0;1.0;1.0	T	0.66524	-0.5902	10	0.87932	D	0	.	9.1927	0.37209	0.0731:0.0:0.7819:0.145	.	100;100;100;87;87;87;87;87	Q2KHT4-7;Q2KHT4-6;G3XAB9;Q2KHT4;Q2KHT4-5;Q2KHT4-2;F1T0A0;F1T0A1	.;.;.;GSG1_HUMAN;.;.;.;.	W	87;100;84;87;87;100;87;100;84;100;100;87	ENSP00000336816:R87W;ENSP00000320838:R100W;ENSP00000379604:R84W;ENSP00000379596:R87W;ENSP00000398384:R87W;ENSP00000405032:R100W;ENSP00000441718:R87W;ENSP00000336857:R100W;ENSP00000445884:R100W;ENSP00000439676:R100W;ENSP00000440684:R87W	ENSP00000320838:R100W	R	-	1	2	GSG1	13134770	1.000000	0.71417	0.995000	0.50966	0.895000	0.52256	2.105000	0.41825	1.342000	0.45619	0.561000	0.74099	CGG		0.542	GSG1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316546.1	NM_031289		A	13243503	G	A	13243503	3	1	576	1	0	0	0	0	1	0	0	0	6827	1115	39	1	938	1	GSG1	12	13243503	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	5900381	13243503	120608392	79	34210										
IPO8	10526	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	30790088	30790088	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tgcaattccaaaaggatactCagtcctattatacacatctt	4	10	2	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr12:30790088C>G	ENST00000256079.4	-	22	2861	c.2523G>C	c.(2521-2523)ctG>ctC	p.L841L	IPO8_ENST00000544829.1_Silent_p.L636L	NM_006390.3	NP_006381.2	O15397	IPO8_HUMAN	importin 8	841					intracellular protein transport (GO:0006886)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	Ran GTPase binding (GO:0008536)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(16)|liver(1)|lung(22)|prostate(2)|skin(2)|urinary_tract(2)	52	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)					AAAGGATACTCAGTCCTATTA	0.393																																																0													133	120	124					12																	30790088		2203	4300	6503	SO:0001819	synonymous_variant	10526			U77494	CCDS8719.1, CCDS53773.1	12p11.21	2011-05-23	2003-03-11	2003-03-14	ENSG00000133704	ENSG00000133704		"Importins"	9853	protein-coding gene	gene with protein product		605600	"RAN binding protein 8"	RANBP8		9214382	Standard	NM_006390		Approved	IMP8	uc001rjd.3	O15397	OTTHUMG00000169172	ENST00000256079.4:c.2523G>C	12.37:g.30790088C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7M3	Silent	SNP	ENST00000256079.4	37	CCDS8719.1																																																																																				0.393	IPO8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402700.2	NM_006390		G	30790088	C	G	30790088	2	3	576	1	0	0	0	0	0	0	0	1	7805	813	29	4		4	IPO8	12	30790088	Silent	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	17546585	30790088	103061807	80	34211										
FAM60A	58516	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	31435663	31435663	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	cagtcaccactcctgagtggAgatgggcagaggctctggcc	14	12	2	3			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr12:31435663A>C	ENST00000337682.4	-	6	1017	c.649T>G	c.(649-651)Tcc>Gcc	p.S217A	FAM60A_ENST00000539409.1_Missense_Mutation_p.S69A|FAM60A_ENST00000542983.1_Missense_Mutation_p.S69A|FAM60A_ENST00000454658.2_Missense_Mutation_p.S217A|FAM60A_ENST00000395766.1_Missense_Mutation_p.S69A	NM_001135812.1	NP_001129284.1	Q9NP50	FA60A_HUMAN	family with sequence similarity 60, member A	217					negative regulation of cell migration (GO:0030336)	Sin3 complex (GO:0016580)				large_intestine(1)|lung(2)	3	all_cancers(9;5.22e-13)|all_epithelial(9;4e-13)|all_lung(12;1.2e-11)|Lung NSC(12;2.17e-09)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0207)|Lung SC(12;0.0592)|Esophageal squamous(101;0.162)					TCCTGAGTGGAGATGGGCAGA	0.453																																																0													38	40	39					12																	31435663		2203	4297	6500	SO:0001583	missense	58516			AF212220	CCDS8723.1	12p11.21	2012-11-30	2005-04-07	2005-04-07	ENSG00000139146	ENSG00000139146			30702	protein-coding gene	gene with protein product		615027	"chromosome 12 open reading frame 14"	C12orf14		11042152, 22984288, 22865885	Standard	NM_021238		Approved	TERA	uc001rke.3	Q9NP50	OTTHUMG00000168586	ENST00000337682.4:c.649T>G	12.37:g.31435663A>C	ENSP00000337477:p.Ser217Ala	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUV8|Q9BSZ8	Missense_Mutation	SNP	ENST00000337682.4	37	CCDS8723.1	.	.	.	.	.	.	.	.	.	.	A	10.12	1.262656	0.23051	.	.	ENSG00000139146	ENST00000539409;ENST00000337682;ENST00000454658;ENST00000398170;ENST00000395766;ENST00000542983	T;T	0.41758	0.99;0.99	4.26	0.167	0.15006	.	0.592620	0.16969	N	0.192195	T	0.17704	0.0425	N	0.08118	0	0.29822	N	0.830762	B;B	0.02656	0.0;0.0	B;B	0.04013	0.0;0.001	T	0.18272	-1.0342	10	0.20519	T	0.43	-15.4818	5.7799	0.18299	0.5453:0.3628:0.0919:0.0	.	217;258	Q9NP50;B7Z287	FA60A_HUMAN;.	A	69;217;217;258;69;69	ENSP00000337477:S217A;ENSP00000393279:S217A	ENSP00000337477:S217A	S	-	1	0	FAM60A	31326930	1.000000	0.71417	0.998000	0.56505	0.998000	0.95712	0.828000	0.27435	0.078000	0.16900	0.482000	0.46254	TCC		0.453	FAM60A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400347.1	NM_021238		C	31435663	A	C	31435663	3	2	576	1	0	0	0	0	1	0	0	0	5602	304	11	5	20	5	FAM60A	12	31435663	Missense_Mutation	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	645575	31435663	102416232	81	34212										
FMNL3	91010	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	50041978	50041978	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	cctgcaccccgtgcttgcctCagccgtcttggcgtcccgct	10	19	2	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr12:50041978C>T	ENST00000293590.5	-	22	2907	c.2674G>A	c.(2674-2676)Gag>Aag	p.E892K	FMNL3_ENST00000335154.5_Missense_Mutation_p.E892K|FMNL3_ENST00000550488.1_Missense_Mutation_p.E892K|FMNL3_ENST00000352151.5_Missense_Mutation_p.E841K			Q8IVF7	FMNL3_HUMAN	formin-like 3	892	FH2. {ECO:0000255|PROSITE- ProRule:PRU00774}.				actin cytoskeleton organization (GO:0030036)|cell migration (GO:0016477)|cytoskeleton organization (GO:0007010)|regulation of cell shape (GO:0008360)	cytoplasm (GO:0005737)	GTPase activating protein binding (GO:0032794)			breast(4)|endometrium(7)|kidney(2)|large_intestine(6)|lung(11)|ovary(2)|pancreas(2)|prostate(2)|skin(2)|stomach(1)	39						GTGCTTGCCTCAGCCGTCTTG	0.552																																																0													80	83	82					12																	50041978		2073	4196	6269	SO:0001583	missense	91010			AK128195	CCDS41780.1, CCDS44874.1	12q13.12	2006-04-10							23698	protein-coding gene	gene with protein product						12684686	Standard	NM_198900		Approved	DKFZp762B245, MGC45819, WBP3	uc001ruv.1	Q8IVF7	OTTHUMG00000169651	ENST00000293590.5:c.2674G>A	12.37:g.50041978C>T	ENSP00000293590:p.Glu892Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B0JZA7|Q6ZRJ1	Missense_Mutation	SNP	ENST00000293590.5	37		.	.	.	.	.	.	.	.	.	.	C	20.4	3.989748	0.74589	.	.	ENSG00000161791	ENST00000335154;ENST00000550488;ENST00000352151;ENST00000293590	T;T;T;T	0.17213	2.39;2.29;2.39;2.39	4.78	3.86	0.44501	Actin-binding FH2/DRF autoregulatory (1);Actin-binding FH2 (3);	0.000000	0.85682	D	0.000000	T	0.09905	0.0243	N	0.11364	0.135	0.53005	D	0.999965	B;B;B	0.26445	0.094;0.143;0.149	B;B;B	0.30943	0.122;0.081;0.099	T	0.15206	-1.0445	10	0.12103	T	0.63	.	14.1676	0.65488	0.0:0.8485:0.1515:0.0	.	841;892;892	Q8IVF7-2;Q8IVF7-3;Q8IVF7	.;.;FMNL3_HUMAN	K	892;892;841;892	ENSP00000335655:E892K;ENSP00000447479:E892K;ENSP00000344311:E841K;ENSP00000293590:E892K	ENSP00000293590:E892K	E	-	1	0	FMNL3	48328245	0.637000	0.27216	0.843000	0.33291	0.197000	0.23852	1.072000	0.30678	1.330000	0.45394	0.650000	0.86243	GAG		0.552	FMNL3-201	KNOWN	basic	protein_coding	protein_coding		NM_175736		T	50041978	C	T	50041978	3	4	576	1	0	0	0	0	1	0	0	0	5960	835	29	2	429	2	FMNL3	12	50041978	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	18606315	50041978	83809917	82	34213										
SCN8A	6334	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	52145329	52145329	+	Frame_Shift_Del	DEL	C	C	-													0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ctgtttatggcaatggagcaCcatcctatgacaccacaatt							TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr12:52145329delC	ENST00000354534.6	+	14	2500	c.2322delC	c.(2320-2322)cacfs	p.H775fs	SCN8A_ENST00000545061.1_Frame_Shift_Del_p.H775fs|SCN8A_ENST00000550891.1_Frame_Shift_Del_p.H775fs	NM_001177984.2|NM_014191.3	NP_001171455.1|NP_055006.1	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha subunit	775					adult walking behavior (GO:0007628)|axon guidance (GO:0007411)|membrane depolarization during action potential (GO:0086010)|muscle organ development (GO:0007517)|myelination (GO:0042552)|nervous system development (GO:0007399)|neuromuscular process (GO:0050905)|neuronal action potential (GO:0019228)|peripheral nervous system development (GO:0007422)|response to toxic substance (GO:0009636)|sensory perception of sound (GO:0007605)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	axon initial segment (GO:0043194)|cytoplasmic vesicle (GO:0031410)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|node of Ranvier (GO:0033268)|plasma membrane (GO:0005886)|voltage-gated sodium channel complex (GO:0001518)|Z disc (GO:0030018)	ATP binding (GO:0005524)|voltage-gated sodium channel activity (GO:0005248)			breast(2)|central_nervous_system(1)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(19)|ovary(8)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	55				BRCA - Breast invasive adenocarcinoma(357;0.181)	Valproic Acid(DB00313)	CAATGGAGCACCATCCTATGA	0.418																																																0													147	140	142					12																	52145329		2052	4218	6270	SO:0001589	frameshift_variant	6334			AB027567	CCDS44891.1, CCDS53794.1	12q13.1	2012-02-26	2007-01-23			ENSG00000196876		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10596	protein-coding gene	gene with protein product		600702	"sodium channel, voltage gated, type VIII, alpha polypeptide"	MED		7670495, 9828131, 16382098	Standard	NM_014191		Approved	Nav1.6, NaCh6, PN4, CerIII	uc001ryw.4	Q9UQD0		ENST00000354534.6:c.2322delC	12.37:g.52145329delC	ENSP00000346534:p.His775fs	Somatic		WXS	Illumina HiSeq	Phase_I	B9VWG8|O95788|Q9NYX2|Q9UPB2	Frame_Shift_Del	DEL	ENST00000354534.6	37	CCDS44891.1																																																																																				0.418	SCN8A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404372.3	NM_014191		-	52145329	C	-	52145329	7	5	576	1	0	1	0	1	0	0	0	0	13937	506	18	0	2372	0	SCN8A	12	52145329	Frame_Shift_Del	DEL	C	TCGA-DZ-6133-01A-11D-1961-08	2103351	52145329	81706566	83	34214										
KRT83	3889	broad.mit.edu;ucsc.edu	37	chr12	52708468	52708468	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	acaggtggtgttcagctggcCacagggcttgcacaaaccag	13	11	1	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr12:52708468C>T	ENST00000293670.3	-	9	1491	c.1429G>A	c.(1429-1431)Ggc>Agc	p.G477S	AC121757.1_ENST00000594763.1_5'Flank	NM_002282.3	NP_002273.3	P78385	KRT83_HUMAN	keratin 83	477	Tail.				aging (GO:0007568)|epidermis development (GO:0008544)|hair cycle (GO:0042633)	extracellular space (GO:0005615)|keratin filament (GO:0045095)	structural molecule activity (GO:0005198)			NS(1)|central_nervous_system(1)|endometrium(4)|large_intestine(4)|lung(9)|prostate(1)|skin(4)|stomach(7)|upper_aerodigestive_tract(1)	32	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		TTCAGCTGGCCACAGGGCTTG	0.667																																					GBM(41;747 834 12702 24089 39393)|Esophageal Squamous(97;805 1414 12559 28198 31861)											0													27	22	24					12																	52708468		2199	4296	6495	SO:0001583	missense	3889			X99141	CCDS8823.1	12q13.13	2013-06-20	2006-07-17	2006-07-17	ENSG00000170523	ENSG00000170523		"-", "Intermediate filaments type II, keratins (basic)"	6460	protein-coding gene	gene with protein product	"hard keratin type II"	602765	"keratin, hair, basic, 3"	KRTHB3		9084137, 16831889	Standard	NM_002282		Approved	Hb-3	uc001saf.2	P78385	OTTHUMG00000169632	ENST00000293670.3:c.1429G>A	12.37:g.52708468C>T	ENSP00000293670:p.Gly477Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4S9|B2RC21|Q6NT21|Q9NSB3	Missense_Mutation	SNP	ENST00000293670.3	37	CCDS8823.1	.	.	.	.	.	.	.	.	.	.	C	11.39	1.623230	0.28889	.	.	ENSG00000170523	ENST00000293670	D	0.86497	-2.13	2.96	2.02	0.26589	.	0.231155	0.21686	U	0.070656	T	0.75975	0.3923	N	0.22421	0.69	0.27127	N	0.96199	B	0.10296	0.003	B	0.10450	0.005	T	0.64550	-0.6381	10	0.45353	T	0.12	.	7.2268	0.26020	0.2659:0.7341:0.0:0.0	.	477	P78385	KRT83_HUMAN	S	477	ENSP00000293670:G477S	ENSP00000293670:G477S	G	-	1	0	KRT83	50994735	0.328000	0.24687	0.973000	0.42090	0.064000	0.16182	-0.181000	0.09740	0.319000	0.23209	0.313000	0.20887	GGC		0.667	KRT83-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405182.1	NM_002282		T	52708468	C	T	52708468	3	4	576	1	0	0	0	0	1	0	0	0	8504	594	21	2	56	2	KRT83	12	52708468	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	563139	52708468	81143427	84	34215										
TMPO	7112	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	98941479	98941479	+	Frame_Shift_Del	DEL	A	A	-													0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	cttggcagatgtcaagtcagAaaagacaaaaaagggacgct							TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr12:98941479delA	ENST00000556029.1	+	9	1564	c.1208delA	c.(1207-1209)gaafs	p.E403fs	TMPO_ENST00000393053.2_Frame_Shift_Del_p.E294fs|TMPO_ENST00000548223.1_3'UTR|TMPO_ENST00000343315.5_Frame_Shift_Del_p.E363fs	NM_001032283.2	NP_001027454.1	P42167	LAP2B_HUMAN	thymopoietin	403	Nucleoplasmic. {ECO:0000255}.					cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)	DNA binding (GO:0003677)|lamin binding (GO:0005521)			breast(2)|endometrium(1)|large_intestine(4)|lung(5)|ovary(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	16						GTCAAGTCAGAAAAGACAAAA	0.408																																																0													107	107	107					12																	98941479		2203	4300	6503	SO:0001589	frameshift_variant	7112				CCDS9064.1, CCDS31879.1, CCDS31880.1	12q22	2014-09-17			ENSG00000120802	ENSG00000120802			11875	protein-coding gene	gene with protein product	"LEM domain containing 4"	188380				7517549	Standard	NM_003276		Approved	TP, LAP2, LEMD4	uc001tfh.2	P42166	OTTHUMG00000170210	ENST00000556029.1:c.1208delA	12.37:g.98941479delA	ENSP00000450627:p.Glu403fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2T926|Q14861	Frame_Shift_Del	DEL	ENST00000556029.1	37	CCDS31879.1																																																																																				0.408	TMPO-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407973.2	NM_003276		-	98941479	A	-	98941479	7	5	576	1	0	1	0	1	0	0	0	0	16249	246	9	0	2766	0	TMPO	12	98941479	Frame_Shift_Del	DEL	A	TCGA-DZ-6133-01A-11D-1961-08	46233011	98941479	34910416	85	34216										
HSP90B1	7184	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	104336447	104336447	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ccactcgaatcgaacacgtcTtgctaaacttcttaggttcc	6	13	2	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr12:104336447T>C	ENST00000299767.5	+	12	1699	c.1517T>C	c.(1516-1518)cTt>cCt	p.L506P		NM_003299.2	NP_003290.1	P14625	ENPL_HUMAN	heat shock protein 90kDa beta (Grp94), member 1	506					actin rod assembly (GO:0031247)|activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|cellular response to ATP (GO:0071318)|endoplasmic reticulum unfolded protein response (GO:0030968)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|innate immune response (GO:0045087)|negative regulation of apoptotic process (GO:0043066)|protein folding (GO:0006457)|protein transport (GO:0015031)|regulation of phosphoprotein phosphatase activity (GO:0043666)|response to hypoxia (GO:0001666)|sequestering of calcium ion (GO:0051208)|toll-like receptor signaling pathway (GO:0002224)	cytosol (GO:0005829)|endocytic vesicle lumen (GO:0071682)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum membrane (GO:0005789)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|midbody (GO:0030496)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|low-density lipoprotein particle receptor binding (GO:0050750)|protein phosphatase binding (GO:0019903)|RNA binding (GO:0003723)|virion binding (GO:0046790)			central_nervous_system(1)|kidney(5)|large_intestine(7)|lung(8)|ovary(2)|prostate(1)|skin(1)|urinary_tract(4)	29					Rifabutin(DB00615)	CGAACACGTCTTGCTAAACTT	0.373																																																0													116	113	114					12																	104336447		2203	4300	6503	SO:0001583	missense	7184			AY040226	CCDS9094.1	12q24.2-q24.3	2011-09-02	2006-02-24	2006-02-24		ENSG00000166598		"Heat shock proteins / HSPC"	12028	protein-coding gene	gene with protein product		191175	"tumor rejection antigen (gp96) 1"	TRA1		16269234	Standard	NM_003299		Approved	GP96, GRP94	uc001tkb.2	P14625	OTTHUMG00000170118	ENST00000299767.5:c.1517T>C	12.37:g.104336447T>C	ENSP00000299767:p.Leu506Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q96A97	Missense_Mutation	SNP	ENST00000299767.5	37	CCDS9094.1	.	.	.	.	.	.	.	.	.	.	T	26.0	4.696033	0.88830	.	.	ENSG00000166598	ENST00000299767;ENST00000421266	T	0.18016	2.24	6.16	6.16	0.99307	Ribosomal protein S5 domain 2-type fold (1);	0.000000	0.85682	D	0.000000	T	0.62514	0.2434	H	0.98701	4.305	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.79080	-0.1950	10	0.87932	D	0	.	16.8061	0.85666	0.0:0.0:0.0:1.0	.	506	P14625	ENPL_HUMAN	P	506;256	ENSP00000299767:L506P	ENSP00000299767:L506P	L	+	2	0	HSP90B1	102860577	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.040000	0.89188	2.367000	0.80283	0.528000	0.53228	CTT		0.373	HSP90B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407349.1	NM_003299		C	104336447	T	C	104336447	3	2	576	1	0	0	0	0	1	0	0	0	7410	1609	56	3	1563	3	HSP90B1	12	104336447	Missense_Mutation	SNP	T	TCGA-DZ-6133-01A-11D-1961-08	5394968	104336447	29515448	86	34217										
MYO1H	283446	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	109834250	109834250	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	aactaaataaccatttcatcCtcatttctggagagagtggg	8	8	3	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr12:109834250C>T	ENST00000431443.2	+	3	304	c.304C>T	c.(304-306)Ctc>Ttc	p.L102F	MYO1H_ENST00000310903.5_Missense_Mutation_p.L102F	NM_001101421.3	NP_001094891.3	Q8N1T3	MYO1H_HUMAN	myosin IH	102	Myosin motor.					myosin complex (GO:0016459)	ATP binding (GO:0005524)|motor activity (GO:0003774)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(9)|lung(17)|prostate(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	47						CCATTTCATCCTCATTTCTGG	0.458																																																0													68	68	68					12																	109834250		1957	4152	6109	SO:0001583	missense	283446				CCDS53826.1	12q24.11	2011-09-27			ENSG00000174527	ENSG00000174527		"Myosins / Myosin superfamily : Class I"	13879	protein-coding gene	gene with protein product		614636					Standard	NM_001101421		Approved	FLJ37587	uc010sxn.1	Q8N1T3	OTTHUMG00000169252	ENST00000431443.2:c.304C>T	12.37:g.109834250C>T	ENSP00000444076:p.Leu102Phe	Somatic		WXS	Illumina HiSeq	Phase_I	F5H3C6	Missense_Mutation	SNP	ENST00000431443.2	37		.	.	.	.	.	.	.	.	.	.	C	23.2	4.392377	0.83011	.	.	ENSG00000174527	ENST00000310903;ENST00000431443	D;D	0.89875	-2.58;-2.58	4.8	4.8	0.61643	.	.	.	.	.	D	0.96914	0.8992	H	0.98370	4.215	0.46981	D	0.999273	D	0.89917	1.0	D	0.91635	0.999	D	0.98431	1.0582	9	0.87932	D	0	.	17.7816	0.88526	0.0:1.0:0.0:0.0	.	102	F5H3C6	.	F	102	ENSP00000439182:L102F;ENSP00000444076:L102F	ENSP00000439182:L102F	L	+	1	0	MYO1H	108318633	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	3.258000	0.51507	2.615000	0.88500	0.644000	0.83932	CTC		0.458	MYO1H-201	KNOWN	basic	protein_coding	protein_coding		NM_173597		T	109834250	C	T	109834250	3	4	576	1	0	0	0	0	1	0	0	0	10082	681	24	2	314	2	MYO1H	12	109834250	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	5497803	109834250	24017645	87	34218										
SRRM4	84530	broad.mit.edu;bcgsc.ca	37	chr12	119568567	119568567	+	Frame_Shift_Del	DEL	C	C	-													0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	aagaccctctgcaaggacagCcctgaggcccagtccagtcg							TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr12:119568567delC	ENST00000267260.4	+	8	1087	c.699delC	c.(697-699)agcfs	p.S233fs	SRRM4_ENST00000537597.1_3'UTR	NM_194286.3	NP_919262.2	A7MD48	SRRM4_HUMAN	serine/arginine repetitive matrix 4	233	Ser-rich.				cell differentiation (GO:0030154)|mRNA processing (GO:0006397)|nervous system development (GO:0007399)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|regulation of RNA splicing (GO:0043484)|RNA splicing (GO:0008380)|sensory perception of sound (GO:0007605)	nucleus (GO:0005634)	mRNA binding (GO:0003729)			breast(2)|central_nervous_system(2)|endometrium(5)|kidney(1)|large_intestine(2)|lung(8)|ovary(3)|upper_aerodigestive_tract(1)	24						GCAAGGACAGCCCTGAGGCCC	0.657																																																0													25	30	29					12																	119568567		1929	4127	6056	SO:0001589	frameshift_variant	84530			AB058756	CCDS44994.1	12q24.23	2009-09-22	2009-09-21	2009-09-21	ENSG00000139767	ENSG00000139767			29389	protein-coding gene	gene with protein product	"neural-specific SR-related protein of 100 kDa"	613103	"KIAA1853"	KIAA1853		19737518	Standard	NM_194286		Approved	nSR100	uc001txa.2	A7MD48	OTTHUMG00000168928	ENST00000267260.4:c.699delC	12.37:g.119568567delC	ENSP00000267260:p.Ser233fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5P6|B2RZH7|Q7Z5F0|Q96JH4	Frame_Shift_Del	DEL	ENST00000267260.4	37	CCDS44994.1																																																																																				0.657	SRRM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401640.2	NM_194286		-	119568567	C	-	119568567	7	5	576	1	0	1	0	1	0	0	0	0	15183	738	26	0	729	0	SRRM4	12	119568567	Frame_Shift_Del	DEL	C	TCGA-DZ-6133-01A-11D-1961-08	9734317	119568567	14283328	88	34219										
NCOR2	9612	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	124848291	124848291	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	agtggcttctggggtgaggcAttggcccgggggtcgccagt	19	9	1	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr12:124848291A>G	ENST00000405201.1	-	21	2862	c.2862T>C	c.(2860-2862)aaT>aaC	p.N954N	NCOR2_ENST00000404621.1_Silent_p.N936N|NCOR2_ENST00000397355.1_Silent_p.N937N|NCOR2_ENST00000429285.2_Silent_p.N936N|NCOR2_ENST00000356219.3_Silent_p.N954N|NCOR2_ENST00000404121.2_Silent_p.N507N			Q9Y618	NCOR2_HUMAN	nuclear receptor corepressor 2	954					cellular lipid metabolic process (GO:0044255)|gene expression (GO:0010467)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|regulation of cellular ketone metabolic process by negative regulation of transcription from RNA polymerase II promoter (GO:0072365)|small molecule metabolic process (GO:0044281)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	membrane (GO:0016020)|nuclear body (GO:0016604)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|histone deacetylase binding (GO:0042826)|Notch binding (GO:0005112)|protein N-terminus binding (GO:0047485)|transcription corepressor activity (GO:0003714)			breast(5)|central_nervous_system(2)|endometrium(7)|kidney(5)|large_intestine(7)|lung(28)|ovary(3)|pancreas(1)|prostate(3)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	69	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GGGGTGAGGCATTGGCCCGGG	0.697																																																0													39	56	51					12																	124848291		2023	4151	6174	SO:0001819	synonymous_variant	9612			U37146	CCDS41857.1, CCDS41858.1, CCDS41857.2, CCDS41858.2, CCDS55892.1	12q24	2010-06-10	2010-06-10		ENSG00000196498	ENSG00000196498			7673	protein-coding gene	gene with protein product		600848	"nuclear receptor co-repressor 2"			7566127, 8813722	Standard	NM_001077261		Approved	SMRT, SMRTE, TRAC-1, CTG26, TNRC14	uc010tbb.2	Q9Y618	OTTHUMG00000150455	ENST00000405201.1:c.2862T>C	12.37:g.124848291A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O00613|O15416|O15421|Q13354|Q56D06|Q59GM0|Q9Y5U0	Silent	SNP	ENST00000405201.1	37	CCDS41858.2																																																																																				0.697	NCOR2-005	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318173.2	NM_006312		G	124848291	A	G	124848291	2	3	576	1	0	0	0	0	0	0	0	1	10243	214	8	3		3	NCOR2	12	124848291	Silent	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	5279724	124848291	9003604	89	34220										
EP400	57634	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	132522561	132522562	+	Missense_Mutation	DNP	GC	GC	AT													0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	atgctggcttcccggtcaaaGctgaggagtttgtggtgctt							TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr12:132522561_132522562GC>AT	ENST00000333577.4	+	33	6344_6345	c.6235_6236GC>AT	c.(6235-6237)GCt>ATt	p.A2079I	EP400_ENST00000332482.4_Missense_Mutation_p.A2006I|EP400_ENST00000389562.2_Missense_Mutation_p.A2042I|EP400_ENST00000330386.6_Missense_Mutation_p.A1962I|EP400_ENST00000389561.2_Missense_Mutation_p.A2043I			Q96L91	EP400_HUMAN	E1A binding protein p400	2079					chromatin organization (GO:0006325)|histone H2A acetylation (GO:0043968)|histone H4 acetylation (GO:0043967)	NuA4 histone acetyltransferase complex (GO:0035267)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|Swr1 complex (GO:0000812)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|helicase activity (GO:0004386)			NS(1)|breast(6)|central_nervous_system(10)|cervix(1)|endometrium(21)|kidney(13)|large_intestine(25)|lung(56)|ovary(5)|prostate(8)|skin(6)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(3)	161	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)		CCCGGTCAAAGCTGAGGAGTTT	0.465																																																0																																										SO:0001583	missense	57634			U80743	CCDS31929.1, CCDS31929.2	12q24.33	2008-02-01	2002-02-05	2002-02-08		ENSG00000183495			11958	protein-coding gene	gene with protein product		606265	"trinucleotide repeat containing 12"	TNRC12		9225980, 11509179	Standard	NM_015409		Approved	CAGH32, KIAA1498, P400, KIAA1818, DKFZP434I225	uc001ujn.3	Q96L91		Exception_encountered	12.37:g.132522561_132522562delinsAT	ENSP00000333602:p.Ala2079Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O15411|Q6P2F5|Q8N8Q7|Q8NE05|Q96JK7|Q9P230	Missense_Mutation	DNP	ENST00000333577.4	37																																																																																					0.465	EP400-203	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_015409		AT	132522562	GC	AT	132522561	3	1	576	1	0	0	0	0	1	0	0	0	5151	971	34	2	6246	2	EP400	12	132522561	Missense_Mutation	DNP	GC	TCGA-DZ-6133-01A-11D-1961-08	7674270	132522561	1329334	90	34221										
KBTBD6	89890	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	41704906	41704906	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	attcatacacagtcacccggTtctttttccactgtggggtg	9	11	3	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr13:41704906T>C	ENST00000379485.1	-	1	1976	c.1742A>G	c.(1741-1743)aAc>aGc	p.N581S	KBTBD6_ENST00000499385.2_Missense_Mutation_p.N515S	NM_152903.4	NP_690867.3	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain containing 6	581										NS(1)|breast(1)|endometrium(8)|kidney(4)|large_intestine(9)|lung(9)|ovary(1)|prostate(2)|skin(4)|urinary_tract(4)	43		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		AGTCACCCGGTTCTTTTTCCA	0.408																																																0													179	179	179					13																	41704906		2203	4300	6503	SO:0001583	missense	89890			AK056633	CCDS9376.1	13q13.3	2013-01-08			ENSG00000165572	ENSG00000165572		"BTB/POZ domain containing"	25340	protein-coding gene	gene with protein product						12477932	Standard	NM_152903		Approved	DKFZp547E1912	uc001uxu.1	Q86V97	OTTHUMG00000016786	ENST00000379485.1:c.1742A>G	13.37:g.41704906T>C	ENSP00000368799:p.Asn581Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6Y8|Q8N8L0|Q8NDM5|Q96MP6	Missense_Mutation	SNP	ENST00000379485.1	37	CCDS9376.1	.	.	.	.	.	.	.	.	.	.	t	14.19	2.460466	0.43736	.	.	ENSG00000165572	ENST00000379485;ENST00000499385	T;T	0.66995	-0.24;-0.24	3.8	2.62	0.31277	Kelch-type beta propeller (1);	0.000000	0.85682	D	0.000000	T	0.67804	0.2932	L	0.32530	0.975	0.31105	N	0.710602	D;D	0.89917	1.0;1.0	D;D	0.85130	0.997;0.994	T	0.65092	-0.6252	10	0.36615	T	0.2	.	6.7322	0.23388	0.0:0.1222:0.0:0.8778	.	515;581	F5GZN7;Q86V97	.;KBTB6_HUMAN	S	581;515	ENSP00000368799:N581S;ENSP00000444326:N515S	ENSP00000368799:N581S	N	-	2	0	KBTBD6	40602906	1.000000	0.71417	0.500000	0.27589	0.968000	0.65278	3.578000	0.53892	0.649000	0.30751	0.379000	0.24179	AAC		0.408	KBTBD6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044657.1	NM_152903		C	41704906	T	C	41704906	3	2	576	1	0	0	0	0	1	0	0	0	8004	1725	60	3	286	3	KBTBD6	13	41704906	Missense_Mutation	SNP	T	TCGA-DZ-6133-01A-11D-1961-08		41704906	73464972	91	34222										
NALCN	259232	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	101944368	101944368	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gtggctgttgaggtagtgctGcttctcgatccccacatttg	12	10	1	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr13:101944368G>T	ENST00000251127.6	-	9	1101	c.1020C>A	c.(1018-1020)agC>agA	p.S340R	NALCN_ENST00000470333.1_5'UTR|NALCN_ENST00000376196.3_Missense_Mutation_p.S340R	NM_052867.2	NP_443099.1	Q8IZF0	NALCN_HUMAN	sodium leak channel, non-selective	340					calcium ion import (GO:0070509)|calcium ion transmembrane transport (GO:0070588)|cell death (GO:0008219)|ion transmembrane transport (GO:0034220)|membrane depolarization during action potential (GO:0086010)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	sodium channel activity (GO:0005272)|voltage-gated calcium channel activity (GO:0005245)			NS(1)|autonomic_ganglia(2)|breast(6)|central_nervous_system(2)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(3)|kidney(10)|large_intestine(33)|liver(2)|lung(81)|ovary(8)|pancreas(3)|prostate(5)|skin(6)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	177	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGGTAGTGCTGCTTCTCGATC	0.438																																																0													317	247	271					13																	101944368		2203	4300	6503	SO:0001583	missense	259232			AY141972	CCDS9498.1	13q32.3	2012-02-21	2007-04-26	2007-04-26	ENSG00000102452	ENSG00000102452		"Ion channels / Sodium leak channels, non-selective"	19082	protein-coding gene	gene with protein product		611549	"voltage gated channel like 1"	VGCNL1		17448995	Standard	XM_006719943		Approved	bA430M15.1, CanIon	uc001vox.1	Q8IZF0	OTTHUMG00000017295	ENST00000251127.6:c.1020C>A	13.37:g.101944368G>T	ENSP00000251127:p.Ser340Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P2S6|Q6ZMI7|Q8IZZ1|Q8TAH1	Missense_Mutation	SNP	ENST00000251127.6	37	CCDS9498.1	.	.	.	.	.	.	.	.	.	.	G	12.43	1.936423	0.34189	.	.	ENSG00000102452	ENST00000251127;ENST00000376196	D;D	0.98362	-4.55;-4.89	6.16	4.42	0.53409	.	0.000000	0.85682	D	0.000000	D	0.92808	0.7713	N	0.08118	0	0.80722	D	1	B;B;B	0.22851	0.008;0.076;0.008	B;B;B	0.15870	0.006;0.014;0.006	D	0.89936	0.4069	10	0.23891	T	0.37	.	10.2255	0.43222	0.2563:0.0:0.7437:0.0	.	340;340;340	F2Z323;B3KSZ6;Q8IZF0	.;.;NALCN_HUMAN	R	340	ENSP00000251127:S340R;ENSP00000365367:S340R	ENSP00000251127:S340R	S	-	3	2	NALCN	100742369	1.000000	0.71417	1.000000	0.80357	0.916000	0.54674	3.963000	0.56773	1.616000	0.50265	0.650000	0.86243	AGC		0.438	NALCN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045663.2	NM_052867		T	101944368	G	T	101944368	3	4	576	1	0	0	0	0	1	0	0	0	10155	1310	46	4	4340	4	NALCN	13	101944368	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	60239462	101944368	13225510	92	34223										
SIPA1L1	26037	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	72055716	72055716	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	atccttggtctctggacctcTgtctcattcagccagtttta	7	12	4	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr14:72055716T>C	ENST00000555818.1	+	2	1475	c.1127T>C	c.(1126-1128)cTg>cCg	p.L376P	SIPA1L1_ENST00000381232.3_Missense_Mutation_p.L376P|SIPA1L1_ENST00000358550.2_Missense_Mutation_p.L376P	NM_001284247.1|NM_015556.1	NP_001271176.1|NP_056371.1	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like 1	376					actin cytoskeleton reorganization (GO:0031532)|activation of Rap GTPase activity (GO:0032861)|ephrin receptor signaling pathway (GO:0048013)|regulation of axonogenesis (GO:0050770)|regulation of dendritic spine morphogenesis (GO:0061001)|regulation of Rap GTPase activity (GO:0032317)|regulation of synaptic plasticity (GO:0048167)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|dendritic spine (GO:0043197)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)	GTPase activator activity (GO:0005096)			NS(1)|breast(4)|central_nervous_system(1)|cervix(1)|endometrium(11)|kidney(1)|large_intestine(22)|liver(2)|lung(25)|ovary(3)|prostate(3)|skin(3)|stomach(1)	78				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		TCTGGACCTCTGTCTCATTCA	0.498																																																0													59	61	60					14																	72055716		2203	4300	6503	SO:0001583	missense	26037			AB007900	CCDS9807.1, CCDS61490.1, CCDS61491.1	14q24.1	2003-12-11				ENSG00000197555			20284	protein-coding gene	gene with protein product						9858596	Standard	XM_005267514		Approved	KIAA0440, E6TP1	uc001xmr.1	O43166		ENST00000555818.1:c.1127T>C	14.37:g.72055716T>C	ENSP00000450832:p.Leu376Pro	Somatic		WXS	Illumina HiSeq	Phase_I	J3KP19|O95321|Q9UDU4|Q9UNU4	Missense_Mutation	SNP	ENST00000555818.1	37	CCDS9807.1	.	.	.	.	.	.	.	.	.	.	T	7.254	0.603889	0.14002	.	.	ENSG00000197555	ENST00000381232;ENST00000555818;ENST00000358550	T;T;T	0.78003	-1.14;-1.13;-1.14	6.07	4.94	0.65067	.	0.129948	0.56097	D	0.000037	T	0.55033	0.1895	N	0.03608	-0.345	0.80722	D	1	B;B;B	0.06786	0.001;0.001;0.001	B;B;B	0.08055	0.001;0.003;0.001	T	0.53287	-0.8460	10	0.30078	T	0.28	-17.1009	11.6847	0.51479	0.0:0.0683:0.0:0.9317	.	376;376;376	A6H8W6;O43166-2;O43166	.;.;SI1L1_HUMAN	P	376	ENSP00000370630:L376P;ENSP00000450832:L376P;ENSP00000351352:L376P	ENSP00000351352:L376P	L	+	2	0	SIPA1L1	71125469	1.000000	0.71417	0.996000	0.52242	0.343000	0.28985	4.668000	0.61568	2.326000	0.78906	0.533000	0.62120	CTG		0.498	SIPA1L1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000412806.1	NM_015556		C	72055716	T	C	72055716	3	2	576	1	0	0	0	0	1	0	0	0	14342	1580	55	3	1129	3	SIPA1L1	14	72055716	Missense_Mutation	SNP	T	TCGA-DZ-6133-01A-11D-1961-08		72055716	35293824	93	34224			1	66		2	2	19	T		7.26795e-05
SIPA1L1	26037	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	72055734	72055734	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tctgtctcattcagccagttTtagctccccaatgggcagca	8	13	3	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr14:72055734T>A	ENST00000555818.1	+	2	1493	c.1145T>A	c.(1144-1146)tTt>tAt	p.F382Y	SIPA1L1_ENST00000381232.3_Missense_Mutation_p.F382Y|SIPA1L1_ENST00000358550.2_Missense_Mutation_p.F382Y	NM_001284247.1|NM_015556.1	NP_001271176.1|NP_056371.1	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like 1	382					actin cytoskeleton reorganization (GO:0031532)|activation of Rap GTPase activity (GO:0032861)|ephrin receptor signaling pathway (GO:0048013)|regulation of axonogenesis (GO:0050770)|regulation of dendritic spine morphogenesis (GO:0061001)|regulation of Rap GTPase activity (GO:0032317)|regulation of synaptic plasticity (GO:0048167)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|dendritic spine (GO:0043197)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)	GTPase activator activity (GO:0005096)			NS(1)|breast(4)|central_nervous_system(1)|cervix(1)|endometrium(11)|kidney(1)|large_intestine(22)|liver(2)|lung(25)|ovary(3)|prostate(3)|skin(3)|stomach(1)	78				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		TCAGCCAGTTTTAGCTCCCCA	0.507																																																0													58	60	60					14																	72055734		2203	4300	6503	SO:0001583	missense	26037			AB007900	CCDS9807.1, CCDS61490.1, CCDS61491.1	14q24.1	2003-12-11				ENSG00000197555			20284	protein-coding gene	gene with protein product						9858596	Standard	XM_005267514		Approved	KIAA0440, E6TP1	uc001xmr.1	O43166		ENST00000555818.1:c.1145T>A	14.37:g.72055734T>A	ENSP00000450832:p.Phe382Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	J3KP19|O95321|Q9UDU4|Q9UNU4	Missense_Mutation	SNP	ENST00000555818.1	37	CCDS9807.1	.	.	.	.	.	.	.	.	.	.	T	2.443	-0.328205	0.05314	.	.	ENSG00000197555	ENST00000381232;ENST00000555818;ENST00000358550	T;T;T	0.76578	-1.03;-1.03;-1.03	6.07	6.07	0.98685	.	0.045544	0.85682	D	0.000000	T	0.62380	0.2423	N	0.13043	0.29	0.80722	D	1	P;B;B	0.51537	0.946;0.082;0.023	B;B;B	0.43386	0.418;0.091;0.016	T	0.65578	-0.6134	10	0.02654	T	1	-24.1026	16.6407	0.85098	0.0:0.0:0.0:1.0	.	382;382;382	A6H8W6;O43166-2;O43166	.;.;SI1L1_HUMAN	Y	382	ENSP00000370630:F382Y;ENSP00000450832:F382Y;ENSP00000351352:F382Y	ENSP00000351352:F382Y	F	+	2	0	SIPA1L1	71125487	1.000000	0.71417	0.791000	0.31998	0.902000	0.53008	3.502000	0.53332	2.326000	0.78906	0.533000	0.62120	TTT		0.507	SIPA1L1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000412806.1	NM_015556		A	72055734	T	A	72055734	3	1	576	1	0	0	0	0	1	0	0	0	14342	1841	64	5	1147	5	SIPA1L1	14	72055734	Missense_Mutation	SNP	T	TCGA-DZ-6133-01A-11D-1961-08	18	72055734	35293806	94	34225			1	66		2	2	19	T		7.26795e-05
THBS1	7057	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	39885267	39885267	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tgtgccagacatcgatgacaTctgtcctgagaatgttgaca	10	9	1	4			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr15:39885267T>C	ENST00000260356.5	+	18	2999	c.2834T>C	c.(2833-2835)aTc>aCc	p.I945T	CTD-2033D15.1_ENST00000560769.1_RNA	NM_003246.2	NP_003237.2	P07996	TSP1_HUMAN	thrombospondin 1	945					activation of MAPK activity (GO:0000187)|behavioral response to pain (GO:0048266)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cell migration (GO:0016477)|cellular response to growth factor stimulus (GO:0071363)|cellular response to heat (GO:0034605)|cellular response to tumor necrosis factor (GO:0071356)|chronic inflammatory response (GO:0002544)|endocardial cushion development (GO:0003197)|engulfment of apoptotic cell (GO:0043652)|extracellular matrix organization (GO:0030198)|growth plate cartilage development (GO:0003417)|immune response (GO:0006955)|negative regulation of angiogenesis (GO:0016525)|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II (GO:0002581)|negative regulation of apoptotic process (GO:0043066)|negative regulation of blood vessel endothelial cell migration (GO:0043537)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of cGMP-mediated signaling (GO:0010754)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of dendritic cell antigen processing and presentation (GO:0002605)|negative regulation of endothelial cell migration (GO:0010596)|negative regulation of endothelial cell proliferation (GO:0001937)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of fibrinolysis (GO:0051918)|negative regulation of fibroblast growth factor receptor signaling pathway (GO:0040037)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of interleukin-12 production (GO:0032695)|negative regulation of nitric oxide mediated signal transduction (GO:0010751)|negative regulation of plasma membrane long-chain fatty acid transport (GO:0010748)|negative regulation of plasminogen activation (GO:0010757)|outflow tract morphogenesis (GO:0003151)|peptide cross-linking (GO:0018149)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of angiogenesis (GO:0045766)|positive regulation of blood coagulation (GO:0030194)|positive regulation of blood vessel endothelial cell migration (GO:0043536)|positive regulation of cell migration (GO:0030335)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of chemotaxis (GO:0050921)|positive regulation of endothelial cell apoptotic process (GO:2000353)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902043)|positive regulation of fibroblast migration (GO:0010763)|positive regulation of macrophage activation (GO:0043032)|positive regulation of macrophage chemotaxis (GO:0010759)|positive regulation of phosphorylation (GO:0042327)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|positive regulation of transforming growth factor beta1 production (GO:0032914)|positive regulation of translation (GO:0045727)|positive regulation of tumor necrosis factor biosynthetic process (GO:0042535)|response to calcium ion (GO:0051592)|response to drug (GO:0042493)|response to endoplasmic reticulum stress (GO:0034976)|response to glucose (GO:0009749)|response to hypoxia (GO:0001666)|response to magnesium ion (GO:0032026)|response to mechanical stimulus (GO:0009612)|response to progesterone (GO:0032570)|response to testosterone (GO:0033574)|response to unfolded protein (GO:0006986)|sprouting angiogenesis (GO:0002040)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|external side of plasma membrane (GO:0009897)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|fibrinogen complex (GO:0005577)|platelet alpha granule (GO:0031091)|platelet alpha granule lumen (GO:0031093)|sarcoplasmic reticulum (GO:0016529)|secretory granule (GO:0030141)	calcium ion binding (GO:0005509)|collagen V binding (GO:0070052)|fibrinogen binding (GO:0070051)|fibroblast growth factor binding (GO:0017134)|fibronectin binding (GO:0001968)|glycoprotein binding (GO:0001948)|heparin binding (GO:0008201)|identical protein binding (GO:0042802)|integrin binding (GO:0005178)|laminin binding (GO:0043236)|low-density lipoprotein particle binding (GO:0030169)|phosphatidylserine binding (GO:0001786)|proteoglycan binding (GO:0043394)|transforming growth factor beta binding (GO:0050431)			breast(1)|central_nervous_system(3)|endometrium(8)|kidney(5)|large_intestine(15)|lung(9)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	53		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)		ATCGATGACATCTGTCCTGAG	0.478																																																0													78	68	71					15																	39885267		2200	4297	6497	SO:0001583	missense	7057				CCDS32194.1	15q15	2009-04-08			ENSG00000137801	ENSG00000137801			11785	protein-coding gene	gene with protein product	"thrombospondin-1p180"	188060				2341158, 2335352	Standard	NM_003246		Approved	TSP1, THBS, TSP, THBS-1, TSP-1	uc001zkh.3	P07996	OTTHUMG00000133665	ENST00000260356.5:c.2834T>C	15.37:g.39885267T>C	ENSP00000260356:p.Ile945Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6H4|B4E3J7|B9EGH6|Q15667|Q59E99	Missense_Mutation	SNP	ENST00000260356.5	37	CCDS32194.1	.	.	.	.	.	.	.	.	.	.	T	19.57	3.852666	0.71719	.	.	ENSG00000137801	ENST00000260356	D	0.98164	-4.76	5.68	5.68	0.88126	.	0.000000	0.36778	N	0.002417	D	0.94598	0.8259	N	0.04880	-0.145	0.49798	D	0.999827	P;P	0.47762	0.725;0.9	B;B	0.43990	0.438;0.387	D	0.95190	0.8307	10	0.39692	T	0.17	-26.1702	15.8963	0.79336	0.0:0.0:0.0:1.0	.	860;945	B4E3J7;P07996	.;TSP1_HUMAN	T	945	ENSP00000260356:I945T	ENSP00000260356:I945T	I	+	2	0	THBS1	37672559	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	8.036000	0.88901	2.153000	0.67306	0.533000	0.62120	ATC		0.478	THBS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257831.2	NM_003246		C	39885267	T	C	39885267	3	2	576	1	0	0	0	0	1	0	0	0	15865	1435	50	3	2900	3	THBS1	15	39885267	Missense_Mutation	SNP	T	TCGA-DZ-6133-01A-11D-1961-08		39885267	62646125	95	34226										
EPB42	2038	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	43508525	43508525	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gaaatgcacggactggagcgCggaagtacaggatgatggtg	17	6	0	1	rs202154600		TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr15:43508525C>T	ENST00000441366.2	-	2	362	c.137G>A	c.(136-138)cGc>cAc	p.R46H	EPB42_ENST00000300215.3_Missense_Mutation_p.R76H|EPB42_ENST00000540029.1_Missense_Mutation_p.R46H	NM_000119.2|NM_001114134.1	NP_000110.2|NP_001107606.1	P16452	EPB42_HUMAN	erythrocyte membrane protein band 4.2	46					cell morphogenesis (GO:0000902)|erythrocyte maturation (GO:0043249)|hemoglobin metabolic process (GO:0020027)|iron ion homeostasis (GO:0055072)|peptide cross-linking (GO:0018149)|regulation of cell shape (GO:0008360)|spleen development (GO:0048536)	cortical cytoskeleton (GO:0030863)|cytoskeleton (GO:0005856)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|protein-glutamine gamma-glutamyltransferase activity (GO:0003810)|structural constituent of cytoskeleton (GO:0005200)			endometrium(3)|large_intestine(6)|lung(6)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	20		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.7e-07)		GACTGGAGCGCGGAAGTACAG	0.597																																																0								C	HIS/ARG,HIS/ARG	0,4406		0,0,2203	102	90	94		227,137	-5	0	15		94	1,8597	1.2+/-3.3	0,1,4298	no	missense,missense	EPB42	NM_000119.2,NM_001114134.1	29,29	0,1,6501	TT,TC,CC		0.0116,0.0,0.0077	benign,benign	76/722,46/692	43508525	1,13003	2203	4299	6502	SO:0001583	missense	2038			M60298	CCDS10093.1, CCDS45249.1	15q15-q21	2013-05-02			ENSG00000166947	ENSG00000166947		"Transglutaminases"	3381	protein-coding gene	gene with protein product	"Erythrocyte surface protein band 4.2"	177070				1284644	Standard	NM_000119		Approved	PA, MGC116735, MGC116737	uc001zrb.4	P16452	OTTHUMG00000130701	ENST00000441366.2:c.137G>A	15.37:g.43508525C>T	ENSP00000396616:p.Arg46His	Somatic		WXS	Illumina HiSeq	Phase_I	Q4KKX0|Q4VB97	Missense_Mutation	SNP	ENST00000441366.2	37	CCDS45249.1	.	.	.	.	.	.	.	.	.	.	C	11.20	1.569261	0.28003	0.0	1.16E-4	ENSG00000166947	ENST00000300215;ENST00000540029;ENST00000441366;ENST00000397027	D;D;D	0.84873	-1.91;-1.91;-1.91	5.02	-5.0	0.03001	Immunoglobulin E-set (1);Transglutaminase, N-terminal (1);Immunoglobulin-like fold (1);	1.112950	0.06532	N	0.741688	T	0.73860	0.3641	N	0.13235	0.315	0.09310	N	1	P;B;B	0.35774	0.519;0.009;0.003	B;B;B	0.40940	0.344;0.002;0.002	T	0.66040	-0.6022	10	0.46703	T	0.11	-0.001	8.754	0.34635	0.0:0.2841:0.1106:0.6053	.	46;76;46	F5H563;P16452-2;P16452	.;.;EPB42_HUMAN	H	76;46;46;46	ENSP00000300215:R76H;ENSP00000444699:R46H;ENSP00000396616:R46H	ENSP00000300215:R76H	R	-	2	0	EPB42	41295817	0.000000	0.05858	0.000000	0.03702	0.082000	0.17680	-0.989000	0.03736	-0.915000	0.03823	-0.140000	0.14226	CGC		0.597	EPB42-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000432219.1	NM_000119		T	43508525	C	T	43508525	3	4	576	1	0	0	0	0	1	0	0	0	5160	768	27	1	1986	1	EPB42	15	43508525	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	3623258	43508525	59022867	96	34227										
TLN2	83660	ucsc.edu	37	chr15	63047869	63047869	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	aggaagtcgccaacagcactGccaacctggtgaagaccatc	10	13	0	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr15:63047869G>A	ENST00000561311.1	+	36	4845	c.4615G>A	c.(4615-4617)Gcc>Acc	p.A1539T	TLN2_ENST00000306829.6_Missense_Mutation_p.A1539T|TLN2_ENST00000472902.1_5'Flank			Q9Y4G6	TLN2_HUMAN	talin 2	1539					cell adhesion (GO:0007155)|cell-cell junction assembly (GO:0007043)|cytoskeletal anchoring at plasma membrane (GO:0007016)	actin cytoskeleton (GO:0015629)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|fascia adherens (GO:0005916)|focal adhesion (GO:0005925)|plasma membrane (GO:0005886)|ruffle (GO:0001726)|synapse (GO:0045202)	actin binding (GO:0003779)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			NS(3)|breast(6)|central_nervous_system(3)|endometrium(8)|kidney(8)|large_intestine(20)|lung(34)|ovary(6)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(5)	99						CAACAGCACTGCCAACCTGGT	0.557																																																0													99	80	86					15																	63047869		2203	4300	6503	SO:0001583	missense	83660			AB002318	CCDS32261.1	15q15-q21	2008-07-03			ENSG00000171914	ENSG00000171914			15447	protein-coding gene	gene with protein product		607349				9205841, 11527381	Standard	NM_015059		Approved	KIAA0320, ILWEQ	uc002alb.4	Q9Y4G6	OTTHUMG00000133679	ENST00000561311.1:c.4615G>A	15.37:g.63047869G>A	ENSP00000453508:p.Ala1539Thr	Somatic		WXS	Illumina HiSeq		A6NLB8	Missense_Mutation	SNP	ENST00000561311.1	37	CCDS32261.1	.	.	.	.	.	.	.	.	.	.	G	37	6.228070	0.97394	.	.	ENSG00000171914	ENST00000306829	T	0.32023	1.47	6.1	6.1	0.99115	.	0.000000	0.85682	D	0.000000	T	0.58177	0.2104	M	0.75447	2.3	0.80722	D	1	D	0.76494	0.999	D	0.79784	0.993	T	0.46162	-0.9211	10	0.29301	T	0.29	-19.2713	20.7146	0.99709	0.0:0.0:1.0:0.0	.	1539	Q9Y4G6	TLN2_HUMAN	T	1539	ENSP00000303476:A1539T	ENSP00000303476:A1539T	A	+	1	0	TLN2	60835161	1.000000	0.71417	0.979000	0.43373	0.989000	0.77384	9.646000	0.98474	2.902000	0.99343	0.650000	0.86243	GCC		0.557	TLN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257878.2			A	63047869	G	A	63047869	3	1	576	1	0	0	0	0	1	0	0	0	15960	1319	46	2	4749	2	TLN2	15	63047869	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	19539344	63047869	39483523	97	34228										
HMG20A	10363	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	77756662	77756662	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	atttgtggaggatctctctcAaggtcagttgcttcagagtg	12	7	4	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr15:77756662A>G	ENST00000381714.3	+	4	598	c.170A>G	c.(169-171)cAa>cGa	p.Q57R	HMG20A_ENST00000336216.4_Missense_Mutation_p.Q57R	NM_018200.2	NP_060670.1	Q9NP66	HM20A_HUMAN	high mobility group 20A	57					chromatin modification (GO:0016568)|chromatin organization (GO:0006325)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(4)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	18						GATCTCTCTCAAGGTCAGTTG	0.448																																																0													130	110	117					15																	77756662		2196	4294	6490	SO:0001583	missense	10363			AF146222	CCDS10295.1	15q24	2011-07-01	2011-04-05		ENSG00000140382	ENSG00000140382		"High mobility group / Non-canonical"	5001	protein-coding gene	gene with protein product	"HMG box domain containing 1"	605534	"high-mobility group 20A"			10773667	Standard	NM_018200		Approved	HMGX1, FLJ10739, HMGXB1	uc002bcr.3	Q9NP66	OTTHUMG00000143729	ENST00000381714.3:c.170A>G	15.37:g.77756662A>G	ENSP00000371133:p.Gln57Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHY3|D3DW78|Q53G31|Q9NSF6	Missense_Mutation	SNP	ENST00000381714.3	37	CCDS10295.1	.	.	.	.	.	.	.	.	.	.	A	16.35	3.099511	0.56183	.	.	ENSG00000140382	ENST00000336216;ENST00000381714	T;T	0.69926	-0.44;-0.44	5.71	4.59	0.56863	.	0.387563	0.28431	N	0.015378	T	0.67211	0.2869	L	0.27053	0.805	0.36537	D	0.871089	P;B	0.39094	0.659;0.003	P;B	0.55391	0.775;0.007	T	0.72184	-0.4367	10	0.52906	T	0.07	-14.0293	9.4942	0.38978	0.9188:0.0:0.0812:0.0	.	57;57	Q9NP66;Q9NP66-2	HM20A_HUMAN;.	R	57	ENSP00000336856:Q57R;ENSP00000371133:Q57R	ENSP00000336856:Q57R	Q	+	2	0	HMG20A	75543717	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	3.285000	0.51716	0.993000	0.38866	0.533000	0.62120	CAA		0.448	HMG20A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419512.2	NM_018200		G	77756662	A	G	77756662	3	3	576	1	0	0	0	0	1	0	0	0	7228	130	5	3	176	3	HMG20A	15	77756662	Missense_Mutation	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	14708793	77756662	24774730	98	34229										
TSC2	7249	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	2130345	2130345	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	atgtgcccctgctgacccagGgctgggcggagatcctggtc	15	13	0	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr16:2130345G>A	ENST00000219476.3	+	30	4207	c.3577G>A	c.(3577-3579)Ggc>Agc	p.G1193S	TSC2_ENST00000401874.2_Missense_Mutation_p.G1149S|TSC2_ENST00000439673.2_Missense_Mutation_p.G1113S|TSC2_ENST00000568454.1_Missense_Mutation_p.G1160S|TSC2_ENST00000350773.4_Missense_Mutation_p.G1193S|TSC2_ENST00000382538.6_Missense_Mutation_p.G1101S|TSC2_ENST00000353929.4_Missense_Mutation_p.G1150S	NM_000548.3	NP_000539.2	P49815	TSC2_HUMAN	tuberous sclerosis 2	1193					acute-phase response (GO:0006953)|cell cycle arrest (GO:0007050)|cell projection organization (GO:0030030)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|insulin-like growth factor receptor signaling pathway (GO:0048009)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of TOR signaling (GO:0032007)|negative regulation of Wnt signaling pathway (GO:0030178)|neural tube closure (GO:0001843)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol-mediated signaling (GO:0048015)|positive chemotaxis (GO:0050918)|positive regulation of Ras GTPase activity (GO:0032320)|protein heterooligomerization (GO:0051291)|protein homooligomerization (GO:0051260)|protein import into nucleus (GO:0006606)|protein kinase B signaling (GO:0043491)|protein localization (GO:0008104)|regulation of cell cycle (GO:0051726)|regulation of endocytosis (GO:0030100)|regulation of insulin receptor signaling pathway (GO:0046626)|response to hypoxia (GO:0001666)|vesicle-mediated transport (GO:0016192)	caveola (GO:0005901)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|Golgi apparatus (GO:0005794)|growth cone (GO:0030426)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|TSC1-TSC2 complex (GO:0033596)	GTPase activator activity (GO:0005096)|phosphatase binding (GO:0019902)|protein homodimerization activity (GO:0042803)			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(4)|cervix(2)|endometrium(8)|kidney(2)|large_intestine(3)|lung(19)|ovary(2)|pancreas(1)|prostate(2)|skin(7)|soft_tissue(1)	56		Hepatocellular(780;0.0202)				GCTGACCCAGGGCTGGGCGGA	0.662			"D, Mis, N, F, S"			"hamartoma, renal cell"			Tuberous Sclerosis																													yes	Rec		Tuberous sclerosis 2	16	16p13.3	7249	tuberous sclerosis 2 gene		"E, O"	0													41	46	45					16																	2130345		2198	4296	6494	SO:0001583	missense	7249	Familial Cancer Database	TS, Tuberous Sclerosis Complex, TSC, Bourneville-Pringle disease	AB014460	CCDS10458.1, CCDS45384.1, CCDS58408.1	16p13.3	2014-09-17			ENSG00000103197	ENSG00000103197			12363	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 160"	191092		TSC4		1303246, 7558029	Standard	NM_001077183		Approved	tuberin, LAM, PPP1R160	uc002con.3	P49815	OTTHUMG00000128745	ENST00000219476.3:c.3577G>A	16.37:g.2130345G>A	ENSP00000219476:p.Gly1193Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2E2|B4DIL8|B4DIQ7|B4DRN2|B7Z2B8|C9J378|O75275|Q4LE71|Q8TAZ1	Missense_Mutation	SNP	ENST00000219476.3	37	CCDS10458.1	.	.	.	.	.	.	.	.	.	.	G	34	5.377719	0.95945	.	.	ENSG00000103197	ENST00000219476;ENST00000401874;ENST00000353929;ENST00000439673;ENST00000382538;ENST00000350773	D;D;D;D;D	0.94046	-3.28;-3.29;-3.34;-3.34;-3.24	4.74	4.74	0.60224	.	0.000000	0.85682	D	0.000000	D	0.96005	0.8699	M	0.66939	2.045	0.80722	D	1	D;D;D;D;D;D	0.89917	1.0;0.997;0.968;1.0;1.0;1.0	D;D;D;D;D;D	0.97110	0.999;0.99;0.91;1.0;0.999;0.994	D	0.95223	0.8335	10	0.34782	T	0.22	-36.9837	17.7425	0.88411	0.0:0.0:1.0:0.0	.	1101;1113;1193;1149;1149;1193	B4DIL8;P49815-6;P49815-4;P49815-3;P49815-5;P49815	.;.;.;.;.;TSC2_HUMAN	S	1193;1150;1150;1113;1101;1193	ENSP00000219476:G1193S;ENSP00000248099:G1150S;ENSP00000399232:G1113S;ENSP00000371978:G1101S;ENSP00000344383:G1193S	ENSP00000219476:G1193S	G	+	1	0	TSC2	2070346	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	8.929000	0.92859	2.196000	0.70406	0.561000	0.74099	GGC		0.662	TSC2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000250657.2	NM_000548		A	2130345	G	A	2130345	3	1	576	1	0	0	0	0	1	0	0	0	16618	1232	43	2	3691	2	TSC2	16	2130345	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08		2130345	88224408	99	34230										
NLRC3	197358	ucsc.edu	37	chr16	3613310	3613310	+	RNA	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ggagctcagccacctgggtcCggtaggcctggtgctcgcct	15	14	1	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr16:3613310C>T	ENST00000301749.7	-	0	2033				NLRC3_ENST00000448023.2_RNA|NLRC3_ENST00000419350.2_RNA|NLRC3_ENST00000359128.5_RNA|NLRC3_ENST00000603507.1_RNA|NLRC3_ENST00000324659.8_RNA	NM_178844.2	NP_849172.2	Q7RTR2	NLRC3_HUMAN	NLR family, CARD domain containing 3						I-kappaB kinase/NF-kappaB signaling (GO:0007249)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|regulation of protein ubiquitination (GO:0031396)|response to lipopolysaccharide (GO:0032496)|T cell activation (GO:0042110)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)			breast(1)|central_nervous_system(2)|endometrium(1)|kidney(3)|large_intestine(1)|liver(1)|lung(16)|ovary(2)|pancreas(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	34						CACCTGGGTCCGGTAGGCCTG	0.677																																																0													8	10	10					16																	3613310		2069	4167	6236			197358			BK001112	CCDS73817.1	16p13.3	2014-03-25			ENSG00000167984	ENSG00000167984		"Nucleotide-binding domain and leucine rich repeat containing"	29889	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and CARD domain containing 3", "NOD-like receptor C3"	615648				15705585, 12766759	Standard	NM_178844		Approved	CLR16.2, FLJ00348, NOD3	uc010btn.3	Q7RTR2	OTTHUMG00000177561		16.37:g.3613310C>T		Somatic		WXS	Illumina HiSeq		Q5EY36|Q8NF48|Q8NI01|Q8NI02|Q8TEL3	Missense_Mutation	SNP	ENST00000301749.7	37		.	.	.	.	.	.	.	.	.	.	C	12.31	1.900126	0.33535	.	.	ENSG00000167984	ENST00000419350;ENST00000301749;ENST00000359128;ENST00000448023;ENST00000324659	D;D;D;D	0.83755	-1.76;-1.76;-1.76;-1.76	5.2	2.21	0.28008	.	0.271357	0.35096	N	0.003452	T	0.67571	0.2907	.	.	.	0.20074	N	0.999931	B	0.28584	0.216	B	0.16722	0.016	T	0.51671	-0.8676	9	0.23891	T	0.37	.	8.8536	0.35214	0.0:0.763:0.0:0.237	.	590	C9JLH9	.	Q	543;543;543;590;525	ENSP00000301749:R543Q;ENSP00000352039:R543Q;ENSP00000414415:R590Q;ENSP00000323897:R525Q	ENSP00000301749:R543Q	R	-	2	0	NLRC3	3553311	0.997000	0.39634	0.404000	0.26397	0.633000	0.38033	3.553000	0.53713	0.220000	0.20860	0.655000	0.94253	CGG		0.677	NLRC3-201	KNOWN	basic|appris_principal	protein_coding	polymorphic_pseudogene		NM_178844		T	3613310	C	T	3613310	1	4	576	0	1	0	0	0	0	0	0	0	10475	652	23	1		1	NLRC3	16	3613310	RNA	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	1482965	3613310	86741443	100	34231										
LOC81691	81691	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	20851091	20851091	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ctacaggttcttgagcaggcCagagtggaaatccccctgtt	11	11	1	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr16:20851091C>T	ENST00000261377.6	+	14	1607	c.1398C>T	c.(1396-1398)gcC>gcT	p.A466A	ERI2_ENST00000564349.1_Intron|AC004381.6_ENST00000348433.6_Silent_p.A466A|AC004381.6_ENST00000564274.1_Silent_p.A466A	NM_001199053.1|NM_030941.2	NP_001185982.1|NP_112203.2																					TTGAGCAGGCCAGAGTGGAAA	0.448																																																0													288	274	279					16																	20851091		2201	4300	6501	SO:0001819	synonymous_variant	0																														ENST00000261377.6:c.1398C>T	16.37:g.20851091C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000261377.6	37	CCDS10591.1																																																																																				0.448	AC004381.6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254418.2			T	20851091	C	T	20851091	2	4	576	1	0	0	0	0	0	0	0	1	8897	581	21	2		2	LOC81691	16	20851091	Silent	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	17237781	20851091	69503662	101	34232										
DULLARD	23399	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	7149598	7149598	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tgtaatatctcctcttaagaAtgcttctgctattgtccagt	6	9	3	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr17:7149598A>G	ENST00000573600.1	-	6	873	c.452T>C	c.(451-453)aTt>aCt	p.I151T	CTDNEP1_ENST00000318988.6_Missense_Mutation_p.I151T|CTDNEP1_ENST00000572043.1_Missense_Mutation_p.I18T|CTDNEP1_ENST00000574322.1_Missense_Mutation_p.I151T|CTD-2545G14.7_ENST00000570760.2_5'Flank			O95476	CNEP1_HUMAN	CTD nuclear envelope phosphatase 1	151	FCP1 homology. {ECO:0000255|PROSITE- ProRule:PRU00336}.				gamete generation (GO:0007276)|mesoderm development (GO:0007498)|nuclear envelope organization (GO:0006998)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of triglyceride biosynthetic process (GO:0010867)|protein dephosphorylation (GO:0006470)|protein localization to nucleus (GO:0034504)	cytoplasm (GO:0005737)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|Nem1-Spo7 phosphatase complex (GO:0071595)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)	protein serine/threonine phosphatase activity (GO:0004722)			central_nervous_system(9)|kidney(1)|large_intestine(2)|lung(1)|skin(1)|upper_aerodigestive_tract(1)	15						CCTCTTAAGAATGCTTCTGCT	0.498																																																0													117	108	111					17																	7149598		2203	4300	6503	SO:0001583	missense	23399			AJ011916	CCDS11093.1	17p13	2012-11-27	2010-10-27	2010-10-27	ENSG00000175826	ENSG00000175826		"Serine/threonine phosphatases / CTD aspartate-based phosphatases"	19085	protein-coding gene	gene with protein product	"C-terminal domain nuclear envelope phosphatase 1"	610684	"dullard homolog (Xenopus laevis)"	DULLARD		12083771, 17141153	Standard	NM_015343		Approved	HSA011916, NET56	uc002gfd.2	O95476	OTTHUMG00000102180	ENST00000573600.1:c.452T>C	17.37:g.7149598A>G	ENSP00000461749:p.Ile151Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTN7|Q96GQ9	Missense_Mutation	SNP	ENST00000573600.1	37	CCDS11093.1	.	.	.	.	.	.	.	.	.	.	A	14.87	2.663502	0.47572	.	.	ENSG00000175826	ENST00000318988	T	0.17691	2.26	4.92	4.92	0.64577	NLI interacting factor (3);Dullard phosphatase domain, eukaryotic (1);HAD-like domain (2);	0.057069	0.64402	D	0.000001	T	0.27900	0.0687	M	0.78223	2.4	0.58432	D	0.999998	B	0.21309	0.054	B	0.34038	0.174	T	0.09079	-1.0691	10	0.59425	D	0.04	-8.3255	12.5573	0.56261	1.0:0.0:0.0:0.0	.	151	O95476	CNEP1_HUMAN	T	151	ENSP00000321732:I151T	ENSP00000321732:I151T	I	-	2	0	CTDNEP1	7090322	1.000000	0.71417	1.000000	0.80357	0.959000	0.62525	7.729000	0.84864	2.062000	0.61559	0.482000	0.46254	ATT		0.498	CTDNEP1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440215.1	NM_015343		G	7149598	A	G	7149598	3	3	576	1	0	0	0	0	1	0	0	0	4801	101	4	3	298	3	DULLARD	17	7149598	Missense_Mutation	SNP	A	TCGA-DZ-6133-01A-11D-1961-08		7149598	74045612	102	34233										
FAM18B2	201158	ucsc.edu	37	chr17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tgagcaactcacagagaagaCagacgatgattgcactgact	10	9	1	6			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr17:15457087C>T	ENST00000225576.3	-	3	247	c.152G>A	c.(151-153)tGt>tAt	p.C51Y	TVP23C_ENST00000518321.1_Missense_Mutation_p.C51Y|TVP23C_ENST00000584811.1_5'UTR|TVP23C_ENST00000519970.1_Intron|TVP23C_ENST00000438826.3_Missense_Mutation_p.C51Y|TVP23C_ENST00000428082.2_Missense_Mutation_p.C51Y|TVP23C-CDRT4_ENST00000522212.2_Missense_Mutation_p.C51Y	NM_145301.2	NP_660344.2	Q96ET8	TV23C_HUMAN	trans-golgi network vesicle protein 23 homolog C (S. cerevisiae)	51						integral component of membrane (GO:0016021)											ACAGAGAAGACAGACGATGAT	0.373																																																0													274	265	268					17																	15457087		2203	4300	6503	SO:0001583	missense	201158			BC011952	CCDS11170.1, CCDS45617.1	17p12	2012-11-29	2012-11-29	2012-11-29	ENSG00000175106	ENSG00000175106			30453	protein-coding gene	gene with protein product			"family with sequence similarity 18, member B2"	FAM18B2			Standard	NM_001135036		Approved	MGC8763	uc002goq.2	Q96ET8	OTTHUMG00000171461	ENST00000225576.3:c.152G>A	17.37:g.15457087C>T	ENSP00000225576:p.Cys51Tyr	Somatic		WXS	Illumina HiSeq		Q3LIC7	Missense_Mutation	SNP	ENST00000225576.3	37	CCDS11170.1	.	.	.	.	.	.	.	.	.	.	.	2.368	-0.344949	0.05208	.	.	ENSG00000259024;ENSG00000175106;ENSG00000175106;ENSG00000175106	ENST00000522212;ENST00000225576;ENST00000428082;ENST00000438826	T;T;T;T	0.25749	1.78;1.78;1.78;1.78	4.47	4.47	0.54385	.	0.000000	0.85682	N	0.000000	T	0.02571	0.0078	N	0.00004	-3.335	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.06405	0.0;0.0;0.002	T	0.38457	-0.9660	10	0.02654	T	1	-3.8701	9.492	0.38965	0.0:0.0877:0.0:0.9123	.	51;51;51	Q96ET8-2;Q96ET8-3;Q96ET8	.;.;F18B2_HUMAN	Y	51	ENSP00000429865:C51Y;ENSP00000225576:C51Y;ENSP00000406387:C51Y;ENSP00000413355:C51Y	ENSP00000225576:C51Y	C	-	2	0	RP11-726O12.1;FAM18B2	15397812	1.000000	0.71417	1.000000	0.80357	0.703000	0.40648	6.178000	0.71968	0.670000	0.31165	-0.442000	0.05670	TGT		0.373	TVP23C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000130705.2	NM_145301		T	15457087	C	T	15457087	3	4	576	1	0	0	0	0	1	0	0	0	5524	478	17	2	848	2	FAM18B2	17	15457087	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	8307489	15457087	65738123	103	34234										
NCOR1	9611	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	16089949	16089949	+	Nonsense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gctgttgctgcaaaagctgtGatgcctgactcacttcaaga	10	10	2	3			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr17:16089949G>C	ENST00000268712.3	-	3	418	c.161C>G	c.(160-162)tCa>tGa	p.S54*	NCOR1_ENST00000395848.1_Intron|NCOR1_ENST00000395851.1_Nonsense_Mutation_p.S54*	NM_006311.3	NP_006302.2	O75376	NCOR1_HUMAN	nuclear receptor corepressor 1	54	Interaction with ZBTB33 and HEXIM1.				CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation (GO:0002361)|cellular lipid metabolic process (GO:0044255)|cholesterol homeostasis (GO:0042632)|chromatin modification (GO:0016568)|circadian regulation of gene expression (GO:0032922)|definitive erythrocyte differentiation (GO:0060318)|gene expression (GO:0010467)|negative regulation of JNK cascade (GO:0046329)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|positive regulation of histone deacetylation (GO:0031065)|regulation of fatty acid transport (GO:2000191)|regulation of glycolytic process by negative regulation of transcription from RNA polymerase II promoter (GO:0072362)|regulation of lipid transport by negative regulation of transcription from RNA polymerase II promoter (GO:0072368)|regulation of multicellular organism growth (GO:0040014)|small molecule metabolic process (GO:0044281)|spindle assembly (GO:0051225)|thalamus development (GO:0021794)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle microtubule (GO:0005876)|transcription factor complex (GO:0005667)|transcriptional repressor complex (GO:0017053)	chromatin binding (GO:0003682)|histone deacetylase binding (GO:0042826)|histone deacetylase regulator activity (GO:0035033)|nuclear hormone receptor binding (GO:0035257)|RNA polymerase II activating transcription factor binding (GO:0001102)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)|transcription regulatory region DNA binding (GO:0044212)			NS(2)|breast(13)|central_nervous_system(2)|cervix(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(17)|lung(26)|ovary(1)|prostate(7)|skin(2)|upper_aerodigestive_tract(6)|urinary_tract(10)	107				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CAAAAGCTGTGATGCCTGACT	0.403																																																0													91	81	84					17																	16089949		2203	4300	6503	SO:0001587	stop_gained	9611			AF044209	CCDS11175.1, CCDS54094.1, CCDS54095.1	17p11.2	2014-06-12	2010-06-10		ENSG00000141027	ENSG00000141027			7672	protein-coding gene	gene with protein product	"thyroid hormone- and retinoic acid receptor-associated corepressor 1", "protein phosphatase 1, regulatory subunit 109"	600849	"nuclear receptor co-repressor 1"			7566114, 9724795	Standard	NM_006311		Approved	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216, PPP1R109	uc002gpo.3	O75376	OTTHUMG00000059309	ENST00000268712.3:c.161C>G	17.37:g.16089949G>C	ENSP00000268712:p.Ser54*	Somatic		WXS	Illumina HiSeq	Phase_I	B3DLF8|E9PGV6|Q86YY0|Q9UPV5|Q9UQ18	Nonsense_Mutation	SNP	ENST00000268712.3	37	CCDS11175.1	.	.	.	.	.	.	.	.	.	.	G	38	6.755855	0.97813	.	.	ENSG00000141027	ENST00000268712;ENST00000395851;ENST00000458113;ENST00000411510;ENST00000436828;ENST00000430577	.	.	.	5.78	5.78	0.91487	.	0.177313	0.39407	N	0.001372	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.62326	D	0.03	-9.9916	19.0021	0.92838	0.0:0.0:1.0:0.0	.	.	.	.	X	54	.	ENSP00000268712:S54X	S	-	2	0	NCOR1	16030674	1.000000	0.71417	0.991000	0.47740	0.976000	0.68499	6.537000	0.73847	2.724000	0.93272	0.563000	0.77884	TCA		0.403	NCOR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131751.5	NM_006311		C	16089949	G	C	16089949	4	2	576	1	0	0	0	0	0	1	0	0	10242	1294	45	4	7337	4	NCOR1	17	16089949	Nonsense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	632862	16089949	65105261	104	34235										
SRCIN1	80725	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	36708962	36708962	+	Splice_Site	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tcgcaggccccagacccaccCttgagctctgtcagcgtctc	9	18	3	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr17:36708962C>G	ENST00000264659.7	-	12	2555	c.2331G>C	c.(2329-2331)aaG>aaC	p.K777N	SRCIN1_ENST00000578925.1_Splice_Site_p.K811N|SRCIN1_ENST00000398579.4_5'UTR	NM_025248.2	NP_079524.2	Q9C0H9	SRCN1_HUMAN	SRC kinase signaling inhibitor 1	649					exocytosis (GO:0006887)|negative regulation of protein tyrosine kinase activity (GO:0061099)|positive regulation of protein tyrosine kinase activity (GO:0061098)|regulation of cell migration (GO:0030334)|regulation of dendritic spine morphogenesis (GO:0061001)|substrate adhesion-dependent cell spreading (GO:0034446)	actin cytoskeleton (GO:0015629)|axon (GO:0030424)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)|synapse (GO:0045202)	protein kinase binding (GO:0019901)			endometrium(2)|kidney(1)|large_intestine(6)|lung(9)|prostate(1)	19						CAGACCCACCCTTGAGCTCTG	0.632																																																0													54	63	60					17																	36708962		2142	4265	6407	SO:0001630	splice_region_variant	80725				CCDS45660.1	17q12	2009-12-14			ENSG00000017373	ENSG00000277363			29506	protein-coding gene	gene with protein product	"p130Cas-associated protein", "SNAP-25-interacting protein"	610786				11214970	Standard	NM_025248		Approved	SNIP, p140Cap, KIAA1684	uc002hqd.3	Q9C0H9		ENST00000264659.7:c.2332+1G>C	17.37:g.36708962C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q75T46|Q8N4W8	Missense_Mutation	SNP	ENST00000264659.7	37	CCDS45660.1	.	.	.	.	.	.	.	.	.	.	C	18.16	3.563310	0.65538	.	.	ENSG00000017373	ENST00000264659;ENST00000542707;ENST00000398579	T	0.54071	0.59	4.73	3.75	0.43078	.	0.000000	0.85682	D	0.000000	T	0.67107	0.2858	M	0.75085	2.285	0.58432	D	0.999998	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.91635	0.998;0.999;0.999;0.999	T	0.68047	-0.5512	10	0.62326	D	0.03	-8.7012	6.4948	0.22136	0.0:0.7228:0.0:0.2772	.	83;649;649;777	Q9C0H9-4;Q9C0H9-2;Q9C0H9;Q9C0H9-5	.;.;SRCN1_HUMAN;.	N	777;558;631	ENSP00000264659:K777N	ENSP00000264659:K777N	K	-	3	2	SRCIN1	33962488	0.960000	0.32886	1.000000	0.80357	0.960000	0.62799	0.115000	0.15540	1.341000	0.45600	0.555000	0.69702	AAG		0.632	SRCIN1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000441878.4	NM_025248	Missense_Mutation	G	36708962	C	G	36708962	5	3	576	1	0	0	0	0	0	0	1	0	15148	695	24	4	1252	4	SRCIN1	17	36708962	Splice_Site	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	20619013	36708962	44486248	105	34236										
CASC3	22794	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	38319005	38319005	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gggcgtcagcgaaagctatgGaaggatgagggtcgctggga	19	6	1	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr17:38319005G>A	ENST00000264645.7	+	6	862	c.636G>A	c.(634-636)tgG>tgA	p.W212*		NM_007359.4	NP_031385.2	O15234	CASC3_HUMAN	cancer susceptibility candidate 3	212	Necessary for RNA-binding, interaction with MAGOH and localization in nucleus speckles.|Sufficient to form the EJC.				gene expression (GO:0010467)|intracellular mRNA localization (GO:0008298)|mRNA metabolic process (GO:0016071)|mRNA processing (GO:0006397)|mRNA transport (GO:0051028)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|regulation of translation (GO:0006417)|response to stress (GO:0006950)|RNA metabolic process (GO:0016070)|RNA splicing (GO:0008380)	cytosol (GO:0005829)|exon-exon junction complex (GO:0035145)|ribonucleoprotein complex (GO:0030529)	enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|poly(A) RNA binding (GO:0044822)|ubiquitin protein ligase binding (GO:0031625)			endometrium(4)|kidney(2)|large_intestine(3)|lung(4)|ovary(1)|urinary_tract(2)	16						GAAAGCTATGGAAGGATGAGG	0.493																																																0													72	66	68					17																	38319005		2203	4300	6503	SO:0001587	stop_gained	22794			X80199	CCDS11362.1	17q21.1	2012-09-20			ENSG00000108349	ENSG00000108349			17040	protein-coding gene	gene with protein product		606504				7490069, 18332872	Standard	NM_007359		Approved	MLN51, BTZ	uc002hue.3	O15234	OTTHUMG00000133323	ENST00000264645.7:c.636G>A	17.37:g.38319005G>A	ENSP00000264645:p.Trp212*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8R0	Nonsense_Mutation	SNP	ENST00000264645.7	37	CCDS11362.1	.	.	.	.	.	.	.	.	.	.	G	23.2	4.388249	0.82902	.	.	ENSG00000108349	ENST00000264645;ENST00000418132;ENST00000394114	.	.	.	4.63	4.63	0.57726	.	0.114993	0.64402	D	0.000005	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-9.2823	17.6407	0.88135	0.0:0.0:1.0:0.0	.	.	.	.	X	212	.	ENSP00000264645:W212X	W	+	3	0	CASC3	35572531	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	9.390000	0.97246	2.565000	0.86533	0.561000	0.74099	TGG		0.493	CASC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257127.3	NM_007359		A	38319005	G	A	38319005	4	1	576	1	0	0	0	0	0	1	0	0	2663	1183	41	2	658	2	CASC3	17	38319005	Nonsense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	1610043	38319005	42876205	106	34237										
MPO	4353	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	56348163	56348163	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gcagatgatccggggcaatgAgatctgggccagggcctgtc	16	10	1	3			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr17:56348163A>T	ENST00000225275.3	-	12	2268	c.2092T>A	c.(2092-2094)Tca>Aca	p.S698T	MPO_ENST00000340482.3_Missense_Mutation_p.S730T	NM_000250.1	NP_000241.1	P05164	PERM_HUMAN	myeloperoxidase	698					aging (GO:0007568)|defense response (GO:0006952)|defense response to fungus (GO:0050832)|hydrogen peroxide catabolic process (GO:0042744)|hypochlorous acid biosynthetic process (GO:0002149)|low-density lipoprotein particle remodeling (GO:0034374)|negative regulation of apoptotic process (GO:0043066)|negative regulation of growth of symbiont in host (GO:0044130)|oxidation-reduction process (GO:0055114)|removal of superoxide radicals (GO:0019430)|respiratory burst involved in defense response (GO:0002679)|response to food (GO:0032094)|response to lipopolysaccharide (GO:0032496)|response to mechanical stimulus (GO:0009612)|response to oxidative stress (GO:0006979)|response to yeast (GO:0001878)	azurophil granule (GO:0042582)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|lysosome (GO:0005764)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|secretory granule (GO:0030141)	chromatin binding (GO:0003682)|heme binding (GO:0020037)|heparin binding (GO:0008201)|metal ion binding (GO:0046872)|peroxidase activity (GO:0004601)			breast(4)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(8)|liver(1)|lung(13)|ovary(2)|pancreas(1)|skin(4)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(4)	46					Aminosalicylic Acid(DB00233)|Bivalirudin(DB00006)|Calcipotriol(DB02300)|Carboplatin(DB00958)|Cefaclor(DB00833)|Cefdinir(DB00535)|Cisplatin(DB00515)|Cysteamine(DB00847)|Dapsone(DB00250)|Enoxaparin(DB01225)|Human Serum Albumin(DB00062)|L-Carnitine(DB00583)|Melatonin(DB01065)|Mesalazine(DB00244)|Nabumetone(DB00461)|Octreotide(DB00104)|Oxaliplatin(DB00526)|Propylthiouracil(DB00550)|Ticlopidine(DB00208)|Tolmetin(DB00500)	CGGGGCAATGAGATCTGGGCC	0.547																																																0													233	180	198					17																	56348163		2203	4300	6503	SO:0001583	missense	4353				CCDS11604.1	17q21.3-q23	2014-09-17				ENSG00000005381	1.11.1.7		7218	protein-coding gene	gene with protein product		606989					Standard	NM_000250		Approved		uc002ivu.1	P05164		ENST00000225275.3:c.2092T>A	17.37:g.56348163A>T	ENSP00000225275:p.Ser698Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A1L4B8|Q14862|Q4PJH5|Q9UCL7	Missense_Mutation	SNP	ENST00000225275.3	37	CCDS11604.1	.	.	.	.	.	.	.	.	.	.	A	15.91	2.973327	0.53614	.	.	ENSG00000005381	ENST00000340482;ENST00000225275	T;T	0.68624	-0.34;-0.34	5.76	3.3	0.37823	.	0.161988	0.56097	N	0.000025	T	0.56601	0.1996	L	0.33792	1.035	0.80722	D	1	B	0.19817	0.039	B	0.29524	0.103	T	0.55237	-0.8172	10	0.51188	T	0.08	-34.2797	11.513	0.50504	0.7489:0.0:0.0:0.2511	.	698	P05164	PERM_HUMAN	T	730;698	ENSP00000344419:S730T;ENSP00000225275:S698T	ENSP00000225275:S698T	S	-	1	0	MPO	53703162	1.000000	0.71417	1.000000	0.80357	0.894000	0.52154	2.270000	0.43355	0.973000	0.38340	0.533000	0.62120	TCA		0.547	MPO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443971.1			T	56348163	A	T	56348163	3	4	576	1	0	0	0	0	1	0	0	0	9739	304	11	5	149	5	MPO	17	56348163	Missense_Mutation	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	18029158	56348163	24847047	107	34238										
INTS2	57508	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	59981846	59981846	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	aagtgtagaaaaggccagtaGcatacaaaaggaaagtgaaa	11	4	0	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr17:59981846G>T	ENST00000444766.3	-	9	1381	c.1306C>A	c.(1306-1308)Cta>Ata	p.L436I	INTS2_ENST00000251334.6_Missense_Mutation_p.L428I	NM_020748.2	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2	436					snRNA processing (GO:0016180)	integral component of membrane (GO:0016021)|integrator complex (GO:0032039)|intracellular (GO:0005622)|membrane (GO:0016020)				NS(1)|breast(2)|cervix(2)|endometrium(3)|kidney(2)|large_intestine(6)|lung(15)|ovary(1)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	38						AAGGCCAGTAGCATACAAAAG	0.403																																																0													74	75	75					17																	59981846		1918	4106	6024	SO:0001583	missense	57508			AB033113	CCDS45750.1	17q23.2	2006-04-26	2006-03-15	2006-03-15		ENSG00000108506			29241	protein-coding gene	gene with protein product		611346	"KIAA1287"	KIAA1287		16239144	Standard	NR_026641		Approved	INT2	uc002izn.3	Q9H0H0		ENST00000444766.3:c.1306C>A	17.37:g.59981846G>T	ENSP00000414237:p.Leu436Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q9ULD3	Missense_Mutation	SNP	ENST00000444766.3	37	CCDS45750.1	.	.	.	.	.	.	.	.	.	.	G	20.1	3.932135	0.73442	.	.	ENSG00000108506	ENST00000444766;ENST00000251334	T	0.57436	0.4	5.33	4.36	0.52297	.	0.000000	0.85682	D	0.000000	T	0.66396	0.2785	L	0.55213	1.73	0.58432	D	0.999999	D	0.67145	0.996	D	0.80764	0.994	T	0.65721	-0.6099	9	.	.	.	-7.6987	14.0683	0.64844	0.0728:0.0:0.9272:0.0	.	436	Q9H0H0	INT2_HUMAN	I	436;435	ENSP00000414237:L436I	.	L	-	1	2	INTS2	57336628	1.000000	0.71417	0.987000	0.45799	0.970000	0.65996	5.045000	0.64220	1.252000	0.44001	0.467000	0.42956	CTA		0.403	INTS2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000445368.1	NM_020748		T	59981846	G	T	59981846	3	4	576	1	0	0	0	0	1	0	0	0	7785	962	34	4	2376	4	INTS2	17	59981846	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	3633683	59981846	21213364	108	34239										
PALM	5064	ucsc.edu;bcgsc.ca	37	chr19	731193	731193	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	cccagtccgggccccagcccCgagtccagccaaggaggagc	13	18	0	0	rs568795902		TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr19:731193C>G	ENST00000338448.5	+	5	414	c.368C>G	c.(367-369)cCg>cGg	p.P123R	PALM_ENST00000264560.7_Missense_Mutation_p.P123R|PALM_ENST00000593172.1_3'UTR	NM_002579.2	NP_002570.2	O75781	PALM_HUMAN	paralemmin	123					cellular component movement (GO:0006928)|cellular response to electrical stimulus (GO:0071257)|cytoskeleton organization (GO:0007010)|negative regulation of adenylate cyclase activity (GO:0007194)|negative regulation of dopamine receptor signaling pathway (GO:0060160)|positive regulation of dendritic spine development (GO:0060999)|positive regulation of filopodium assembly (GO:0051491)|protein targeting to plasma membrane (GO:0072661)|regulation of cell shape (GO:0008360)|synapse maturation (GO:0060074)	apicolateral plasma membrane (GO:0016327)|axon (GO:0030424)|basolateral plasma membrane (GO:0016323)|cytoplasmic membrane-bounded vesicle (GO:0016023)|dendrite membrane (GO:0032590)|dendritic spine membrane (GO:0032591)|filopodium membrane (GO:0031527)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				endometrium(2)|large_intestine(1)|lung(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	11		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)|Lung(535;0.201)		GCCCCAGCCCCGAGTCCAGCC	0.662																																																0													28	26	27					19																	731193		2190	4298	6488	SO:0001583	missense	5064			Y16270	CCDS32857.1, CCDS32858.1	19p13.3	2008-07-17				ENSG00000099864			8594	protein-coding gene	gene with protein product		608134				9615234, 9813098	Standard	XM_005259565		Approved	KIAA0270	uc002lpm.1	O75781		ENST00000338448.5:c.368C>G	19.37:g.731193C>G	ENSP00000341911:p.Pro123Arg	Somatic		WXS	Illumina HiSeq		O43359|O95673|Q92559|Q9UPJ4|Q9UQS2|Q9UQS3	Missense_Mutation	SNP	ENST00000338448.5	37	CCDS32857.1	.	.	.	.	.	.	.	.	.	.	C	5.686	0.311082	0.10789	.	.	ENSG00000099864	ENST00000338448;ENST00000264560	T;T	0.30448	2.01;1.53	3.69	1.44	0.22558	.	0.868385	0.09712	U	0.765632	T	0.37892	0.1020	L	0.56769	1.78	0.09310	N	1	P;B;P	0.44946	0.782;0.451;0.846	P;B;P	0.49561	0.53;0.242;0.615	T	0.23048	-1.0199	10	0.66056	D	0.02	-1.9056	7.2275	0.26024	0.0:0.7786:0.0:0.2214	.	123;123;123	B7Z649;O75781-2;O75781	.;.;PALM_HUMAN	R	123	ENSP00000341911:P123R;ENSP00000264560:P123R	ENSP00000264560:P123R	P	+	2	0	PALM	682193	0.000000	0.05858	0.001000	0.08648	0.060000	0.15804	-0.318000	0.08050	0.064000	0.16427	0.511000	0.50034	CCG		0.662	PALM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457592.1	NM_002579		G	731193	C	G	731193	3	3	576	1	0	0	0	0	1	0	0	0	11415	652	23	4	386	4	PALM	19	731193	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08		731193	58397790	109	34240										
PIP5K1C	23396	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	3648675	3648675	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gtgcagcagcagccgctcccCgcggccgttcacagcgggga	15	16	1	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr19:3648675C>T	ENST00000335312.3	-	9	1247	c.1159G>A	c.(1159-1161)Ggg>Agg	p.G387R	PIP5K1C_ENST00000587482.1_5'Flank|PIP5K1C_ENST00000589578.1_Missense_Mutation_p.G387R|PIP5K1C_ENST00000539785.1_Missense_Mutation_p.G387R|PIP5K1C_ENST00000537021.1_Missense_Mutation_p.G387R	NM_001195733.1|NM_012398.2	NP_001182662.1|NP_036530.1	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type I, gamma	387	PIPK. {ECO:0000255|PROSITE- ProRule:PRU00781}.				actin cytoskeleton organization (GO:0030036)|adherens junction assembly (GO:0034333)|axon guidance (GO:0007411)|clathrin-mediated endocytosis (GO:0072583)|cytoskeletal anchoring at plasma membrane (GO:0007016)|neutrophil chemotaxis (GO:0030593)|phagocytosis (GO:0006909)|phosphatidylinositol biosynthetic process (GO:0006661)|phospholipid metabolic process (GO:0006644)|platelet aggregation (GO:0070527)|single organismal cell-cell adhesion (GO:0016337)|small molecule metabolic process (GO:0044281)|synaptic vesicle endocytosis (GO:0048488)|synaptic vesicle exocytosis (GO:0016079)	cytosol (GO:0005829)|focal adhesion (GO:0005925)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|uropod (GO:0001931)	1-phosphatidylinositol-4-phosphate 5-kinase activity (GO:0016308)|ATP binding (GO:0005524)			large_intestine(3)|ovary(1)|skin(3)|stomach(2)	9		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.95e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0026)|STAD - Stomach adenocarcinoma(1328;0.183)		AGCCGCTCCCCGCGGCCGTTC	0.692																																					Esophageal Squamous(135;99 1744 12852 27186 39851)											0													34	36	35					19																	3648675		2199	4291	6490	SO:0001583	missense	23396			AB011161	CCDS32872.1, CCDS56074.1, CCDS74257.1	19p13.3	2012-10-02			ENSG00000186111	ENSG00000186111			8996	protein-coding gene	gene with protein product		606102				9535851	Standard	NM_001195733		Approved	PIP5Kgamma, KIAA0589, LCCS3	uc002lyj.2	O60331	OTTHUMG00000180870	ENST00000335312.3:c.1159G>A	19.37:g.3648675C>T	ENSP00000335333:p.Gly387Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z9E7|C6GIJ7|C6GIJ8|Q7LE07	Missense_Mutation	SNP	ENST00000335312.3	37	CCDS32872.1	.	.	.	.	.	.	.	.	.	.	C	18.95	3.731850	0.69189	.	.	ENSG00000186111	ENST00000335312;ENST00000539785;ENST00000537021	T;T;T	0.30714	1.52;1.52;1.52	4.04	4.04	0.47022	Phosphatidylinositol-4-phosphate 5-kinase, core (2);Phosphatidylinositol-4-phosphate 5-kinase, core, subgroup (1);	0.000000	0.85682	D	0.000000	T	0.56558	0.1993	M	0.85859	2.78	0.80722	D	1	D;D	0.76494	0.994;0.999	P;P	0.62491	0.674;0.903	T	0.67245	-0.5719	10	0.87932	D	0	-31.0387	15.1514	0.72703	0.0:1.0:0.0:0.0	.	387;387	O60331-3;O60331	.;PI51C_HUMAN	R	387	ENSP00000335333:G387R;ENSP00000445992:G387R;ENSP00000444779:G387R	ENSP00000335333:G387R	G	-	1	0	PIP5K1C	3599675	1.000000	0.71417	0.918000	0.36340	0.204000	0.24138	7.735000	0.84939	1.795000	0.52594	0.297000	0.19635	GGG		0.692	PIP5K1C-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000453432.2	NM_012398		T	3648675	C	T	3648675	3	4	576	1	0	0	0	0	1	0	0	0	11948	652	23	1	887	1	PIP5K1C	19	3648675	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	2917482	3648675	55480308	110	34241										
APBA3	9546	bcgsc.ca	37	chr19	3760228	3760228	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ccaagtccatggctggaggcCccgaaggggatcgggaaatt	15	10	0	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr19:3760228C>T	ENST00000316757.3	-	2	235	c.35G>A	c.(34-36)gGg>gAg	p.G12E	MRPL54_ENST00000330133.4_5'Flank	NM_004886.3	NP_004877.1	O96018	APBA3_HUMAN	amyloid beta (A4) precursor protein-binding, family A, member 3	12					in utero embryonic development (GO:0001701)|negative regulation of catalytic activity (GO:0043086)|protein transport (GO:0015031)|regulation of gene expression (GO:0010468)|synaptic transmission (GO:0007268)	perinuclear region of cytoplasm (GO:0048471)	beta-amyloid binding (GO:0001540)|enzyme binding (GO:0019899)|enzyme inhibitor activity (GO:0004857)			endometrium(1)|large_intestine(1)|skin(1)	3		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00467)|STAD - Stomach adenocarcinoma(1328;0.18)		GGCTGGAGGCCCCGAAGGGGA	0.622																																																0													20	24	23					19																	3760228		2178	4268	6446	SO:0001583	missense	9546			AB021638	CCDS12110.1	19p13.3	2008-07-18	2008-07-18			ENSG00000011132			580	protein-coding gene	gene with protein product	"X11-like 2"	604262				10049767	Standard	NM_004886		Approved	X11L2, mint3	uc002lyp.1	O96018		ENST00000316757.3:c.35G>A	19.37:g.3760228C>T	ENSP00000315136:p.Gly12Glu	Somatic		WXS	Illumina HiSeq	Phase_1	O60483|Q9UPZ2	Missense_Mutation	SNP	ENST00000316757.3	37	CCDS12110.1	.	.	.	.	.	.	.	.	.	.	C	7.609	0.674440	0.14841	.	.	ENSG00000011132	ENST00000316757	T	0.47528	0.84	4.73	1.04	0.20106	.	0.940149	0.08769	N	0.896650	T	0.29491	0.0735	L	0.27053	0.805	0.09310	N	1	B	0.06786	0.001	B	0.06405	0.002	T	0.21930	-1.0231	10	0.28530	T	0.3	.	3.0292	0.06101	0.0:0.4692:0.2333:0.2976	.	12	O96018	APBA3_HUMAN	E	12	ENSP00000315136:G12E	ENSP00000315136:G12E	G	-	2	0	APBA3	3711228	0.000000	0.05858	0.071000	0.20095	0.047000	0.14425	-0.370000	0.07523	0.414000	0.25790	0.561000	0.74099	GGG		0.622	APBA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453634.2			T	3760228	C	T	3760228	3	4	576	1	0	0	0	0	1	0	0	0	758	623	22	2	1732	2	APBA3	19	3760228	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	111553	3760228	55368755	111	34242										
PSMD8	5714	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	38874011	38874011	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	ggtcatcgagtatgcccggcAgctggagatgatcgtctgag	15	9	2	3			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr19:38874011A>G	ENST00000215071.4	+	7	1100	c.1034A>G	c.(1033-1035)cAg>cGg	p.Q345R	GGN_ENST00000591809.1_5'Flank|PSMD8_ENST00000602911.1_Missense_Mutation_p.Q282R|AC005789.9_ENST00000585411.1_RNA	NM_002812.4	NP_002803.2	P48556	PSMD8_HUMAN	proteasome (prosome, macropain) 26S subunit, non-ATPase, 8	345					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|cellular nitrogen compound metabolic process (GO:0034641)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|negative regulation of apoptotic process (GO:0043066)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|viral process (GO:0016032)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|proteasome accessory complex (GO:0022624)|proteasome complex (GO:0000502)|proteasome regulatory particle (GO:0005838)				central_nervous_system(2)|endometrium(1)|large_intestine(2)|lung(1)	6	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TATGCCCGGCAGCTGGAGATG	0.557																																																0													49	41	43					19																	38874011		2203	4300	6503	SO:0001583	missense	5714			D38047	CCDS12515.2	19q13.2	2009-05-07			ENSG00000099341	ENSG00000099341		"Proteasome (prosome, macropain) subunits"	9566	protein-coding gene	gene with protein product						7621825	Standard	NM_002812		Approved	S14, Nin1p, p31, HIP6, HYPF, Rpn12	uc002oii.4	P48556	OTTHUMG00000150691	ENST00000215071.4:c.1034A>G	19.37:g.38874011A>G	ENSP00000215071:p.Gln345Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DX18|Q6P1L7	Missense_Mutation	SNP	ENST00000215071.4	37	CCDS12515.2	.	.	.	.	.	.	.	.	.	.	A	23.8	4.459422	0.84317	.	.	ENSG00000099341	ENST00000215071	.	.	.	4.27	4.27	0.50696	.	0.000000	0.85682	D	0.000000	T	0.48660	0.1512	L	0.47190	1.495	0.80722	D	1	D	0.54207	0.965	P	0.45071	0.468	T	0.54234	-0.8324	9	0.62326	D	0.03	-19.6009	11.6721	0.51408	1.0:0.0:0.0:0.0	.	345	P48556	PSMD8_HUMAN	R	345	.	ENSP00000215071:Q345R	Q	+	2	0	PSMD8	43565851	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.193000	0.89719	1.919000	0.55581	0.448000	0.29417	CAG		0.557	PSMD8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319627.1	NM_002812		G	38874011	A	G	38874011	3	3	576	1	0	0	0	0	1	0	0	0	12714	188	7	3	1060	3	PSMD8	19	38874011	Missense_Mutation	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	35113783	38874011	20254972	112	34243										
ZNF180	7733	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	44981073	44981073	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	acggtttctctccagtgtgaGttctttgatgtgcaacaagc	10	9	2	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr19:44981073G>C	ENST00000221327.4	-	5	1906	c.1625C>G	c.(1624-1626)aCt>aGt	p.T542S	ZNF180_ENST00000391956.4_Missense_Mutation_p.T517S|ZNF180_ENST00000592529.1_Missense_Mutation_p.T515S|ZNF180_ENST00000585514.1_5'Flank|AC069278.4_ENST00000591684.1_lincRNA	NM_013256.3	NP_037388.2	Q9UJW8	ZN180_HUMAN	zinc finger protein 180	542					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(1)|endometrium(3)|kidney(5)|large_intestine(14)|lung(6)|ovary(2)|urinary_tract(1)	33		Prostate(69;0.0435)				TCCAGTGTGAGTTCTTTGATG	0.423																																					Esophageal Squamous(180;1353 2003 32862 46574 49854)											0													77	77	77					19																	44981073		2203	4300	6503	SO:0001583	missense	7733			AF192913	CCDS12639.1, CCDS62707.1, CCDS62708.1	19q13.2	2013-01-08	2006-08-22			ENSG00000167384		"Zinc fingers, C2H2-type", "-"	12970	protein-coding gene	gene with protein product		606740	"zinc finger protein 180 (HHZ168)"				Standard	NM_001288762		Approved	HHZ168	uc002ozf.4	Q9UJW8		ENST00000221327.4:c.1625C>G	19.37:g.44981073G>C	ENSP00000221327:p.Thr542Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCN6|B3KV56|K7EQX9|Q58F03|Q9P1U2	Missense_Mutation	SNP	ENST00000221327.4	37	CCDS12639.1	.	.	.	.	.	.	.	.	.	.	G	15.35	2.808114	0.50421	.	.	ENSG00000167384	ENST00000221327;ENST00000391956	T;T	0.00662	5.93;5.93	5.23	2.85	0.33270	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.43416	D	0.000561	T	0.01029	0.0034	L	0.38692	1.165	0.80722	D	1	P;P;P	0.45428	0.828;0.858;0.858	B;P;P	0.47981	0.335;0.563;0.563	T	0.68884	-0.5291	10	0.62326	D	0.03	-11.2816	5.453	0.16574	0.1458:0.0:0.6595:0.1947	.	517;541;542	G5E9B8;Q58F03;Q9UJW8	.;.;ZN180_HUMAN	S	542;517	ENSP00000221327:T542S;ENSP00000375818:T517S	ENSP00000221327:T542S	T	-	2	0	ZNF180	49672913	0.000000	0.05858	1.000000	0.80357	0.982000	0.71751	0.203000	0.17315	2.437000	0.82529	0.467000	0.42956	ACT		0.423	ZNF180-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000451601.1	NM_013256		C	44981073	G	C	44981073	3	2	576	1	0	0	0	0	1	0	0	0	17760	1029	36	4	457	4	ZNF180	19	44981073	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	6107062	44981073	14147910	113	34244										
RSPH6A	81492	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	46317979	46317979	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tcagagaactggtctgtctgGtagaggttgaactggcccaa	13	8	3	3			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr19:46317979G>A	ENST00000221538.3	-	1	598	c.456C>T	c.(454-456)taC>taT	p.Y152Y	RSPH6A_ENST00000597055.1_Silent_p.Y152Y|SYMPK_ENST00000598155.1_5'Flank	NM_030785.3	NP_110412.1	Q9H0K4	RSH6A_HUMAN	radial spoke head 6 homolog A (Chlamydomonas)	152						intracellular (GO:0005622)				central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(6)|liver(1)|lung(14)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	32						GGTCTGTCTGGTAGAGGTTGA	0.602																																																0													52	55	54					19																	46317979		2203	4300	6503	SO:0001819	synonymous_variant	81492			AL136761	CCDS12675.1	19q13.3	2010-02-17	2009-11-18	2009-11-18	ENSG00000104941	ENSG00000104941			14241	protein-coding gene	gene with protein product		607548	"radial spokehead-like 1"	RSHL1		11237735	Standard	NM_030785		Approved	RSP4, RSP6, RSPH4B	uc002pdm.3	Q9H0K4		ENST00000221538.3:c.456C>T	19.37:g.46317979G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q53FE2|Q6PEZ9	Silent	SNP	ENST00000221538.3	37	CCDS12675.1																																																																																				0.602	RSPH6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000461657.1			A	46317979	G	A	46317979	2	1	576	1	0	0	0	0	0	0	0	1	13720	1256	44	2		2	RSPH6A	19	46317979	Silent	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	1336906	46317979	12811004	114	34245										
LILRA3	11026	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	54803120	54803120	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	acctgcgacttgggctcacgGggcccacggagaagatggcc	15	13	1	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr19:54803120G>T	ENST00000251390.3	-	4	648	c.557C>A	c.(556-558)cCc>cAc	p.P186H	LILRA3_ENST00000391745.1_Missense_Mutation_p.P203H|LILRA3_ENST00000391744.3_Intron	NM_006865.3	NP_006856.3	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor, subfamily A (without TM domain), member 3	186	Ig-like C2-type 2.				defense response (GO:0006952)|immune system process (GO:0002376)|signal transduction (GO:0007165)	extracellular region (GO:0005576)|plasma membrane (GO:0005886)	antigen binding (GO:0003823)|receptor activity (GO:0004872)			NS(3)|breast(1)|kidney(1)|large_intestine(3)|lung(12)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	28	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TGGGCTCACGGGGCCCACGGA	0.587																																																0													134	113	120					19																	54803120		2195	4162	6357	SO:0001583	missense	11026			U91926		19q13.4	2013-01-11						"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6604	protein-coding gene	gene with protein product		604818				9278324, 9548455	Standard	XM_006710242		Approved	LIR-4, HM43, ILT6, HM31, LIR4, CD85e		Q8N6C8		ENST00000251390.3:c.557C>A	19.37:g.54803120G>T	ENSP00000251390:p.Pro186His	Somatic		WXS	Illumina HiSeq	Phase_I	J3KPM2|O15469|O15470|O75016|Q8N151|Q8N154|Q8NHJ1|Q8NHJ2|Q8NHJ3|Q8NHJ4	Missense_Mutation	SNP	ENST00000251390.3	37	CCDS12887.1	.	.	.	.	.	.	.	.	.	.	G	12.24	1.877305	0.33162	.	.	ENSG00000170866	ENST00000251390;ENST00000391745	T;T	0.03124	4.04;4.04	2.21	1.09	0.20402	Immunoglobulin-like fold (1);	0.593476	0.14797	N	0.297850	T	0.16214	0.0390	M	0.87269	2.87	0.09310	N	1	D	0.89917	1.0	D	0.85130	0.997	T	0.03534	-1.1027	10	0.87932	D	0	.	5.2465	0.15500	0.1757:0.0:0.8243:0.0	.	186	Q8N6C8	LIRA3_HUMAN	H	186;203	ENSP00000251390:P186H;ENSP00000375625:P203H	ENSP00000251390:P186H	P	-	2	0	LILRA3	59494932	0.002000	0.14202	0.008000	0.14137	0.032000	0.12392	0.663000	0.25053	0.493000	0.27837	0.586000	0.80456	CCC		0.587	LILRA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140236.1			T	54803120	G	T	54803120	3	4	576	1	0	0	0	0	1	0	0	0	8793	1232	43	4	778	4	LILRA3	19	54803120	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	8485141	54803120	4325863	115	34246										
LENG8	114823	broad.mit.edu;bcgsc.ca	37	chr19	54963430	54963444	+	Splice_Site	DEL	GTGGCCAGTGCACAG	GTGGCCAGTGCACAG	-													0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	agtccagcagcaatgggcctGtggccagtgcacaggtgaga							TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	GTGGCCAGTGCACAG	GTGGCCAGTGCACAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr19:54963430_54963444delGTGGCCAGTGCACAG	ENST00000326764.5	+	3	678_692	c.199_213delGTGGCCAGTGCACAG	c.(199-213)gtggccagtgcacagdel	p.VASAQ67del	LENG8_ENST00000376514.2_Intron	NM_052925.2	NP_443157.1	Q96PV6	LENG8_HUMAN	leukocyte receptor cluster (LRC) member 8	0										breast(1)|central_nervous_system(3)|endometrium(3)|kidney(1)|large_intestine(6)|lung(9)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	30	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		CAATGGGCCTGTGGCCAGTGCACAGGTGAGAAGGC	0.642																																																0																																										SO:0001630	splice_region_variant	114823			AF211975	CCDS12894.1	19q13.4	2008-02-05			ENSG00000167615	ENSG00000167615			15500	protein-coding gene	gene with protein product						10941842	Standard	XM_005278248		Approved	KIAA1932, MGC40108, pp13842	uc002qfw.2	Q96PV6	OTTHUMG00000065548	ENST00000326764.5:c.213+1GTGGCCAGTGCACAG>-	19.37:g.54963430_54963444delGTGGCCAGTGCACAG		Somatic		WXS	Illumina HiSeq	Phase_I	B0VJY9|Q8IZ27|Q8NCX6	In_Frame_Del	DEL	ENST00000326764.5	37	CCDS12894.1																																																																																				0.642	LENG8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140523.2	NM_052925	In_Frame_Del	-	54963444	GTGGCCAGTGCACAG	-	54963430	8	5	576	1	0	1	0	1	0	0	1	0	8731	1377	48	0	205	0	LENG8	19	54963430	Splice_Site	DEL	GTGGCCAGTGCACAG	TCGA-DZ-6133-01A-11D-1961-08	160310	54963430	4165553	116	34247										
SAPS1	22870	ucsc.edu	37	chr19	55752390	55752390	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	caagctcagcatggtgctcaCgcatccctctacttgggcat	9	14	3	0			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr19:55752390C>G	ENST00000412770.2	-	10	1785	c.1219G>C	c.(1219-1221)Gtg>Ctg	p.V407L	PPP6R1_ENST00000587283.1_Missense_Mutation_p.V407L	NM_014931.3	NP_055746.3	Q9UPN7	PP6R1_HUMAN	protein phosphatase 6, regulatory subunit 1	407					regulation of phosphoprotein phosphatase activity (GO:0043666)	cytoplasm (GO:0005737)	protein phosphatase binding (GO:0019903)			breast(1)	1						ATGGTGCTCACGCATCCCTCT	0.567																																																0													53	57	55					19																	55752390		2067	4220	6287	SO:0001583	missense	22870			AB029038	CCDS46186.1	19q13.42	2012-04-17	2010-06-28	2010-06-28	ENSG00000105063	ENSG00000105063		"Serine/threonine phosphatases / Protein phosphatase 6, regulatory subunits"	29195	protein-coding gene	gene with protein product		610875	"KIAA1115", "SAPS domain family, member 1"	KIAA1115, SAPS1		16769727	Standard	NM_014931		Approved	SAP190	uc002qjw.4	Q9UPN7		ENST00000412770.2:c.1219G>C	19.37:g.55752390C>G	ENSP00000414202:p.Val407Leu	Somatic		WXS	Illumina HiSeq		Q2M2H3|Q504V2|Q6NVJ6|Q9BU97	Missense_Mutation	SNP	ENST00000412770.2	37	CCDS46186.1	.	.	.	.	.	.	.	.	.	.	C	9.148	1.015480	0.19355	.	.	ENSG00000105063	ENST00000412770	T	0.55588	0.51	4.98	1.46	0.22682	.	0.132441	0.33753	N	0.004597	T	0.41190	0.1148	L	0.59436	1.845	0.24137	N	0.995745	B	0.06786	0.001	B	0.14578	0.011	T	0.21348	-1.0248	10	0.30854	T	0.27	-24.2599	4.5722	0.12216	0.0:0.4726:0.2548:0.2726	.	407	Q9UPN7	PP6R1_HUMAN	L	407	ENSP00000414202:V407L	ENSP00000414202:V407L	V	-	1	0	PPP6R1	60444202	0.003000	0.15002	0.812000	0.32479	0.168000	0.22595	0.237000	0.17985	0.631000	0.30412	0.462000	0.41574	GTG		0.567	PPP6R1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452663.1	NM_014931		G	55752390	C	G	55752390	3	3	576	1	0	0	0	0	1	0	0	0	13849	536	19	4	1486	4	SAPS1	19	55752390	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08	788960	55752390	3376593	117	34248										
ZNF324B	388569	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	58966903	58966903	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	cgcctgagcggcagaagccaTgtgcacaggaggtccctggg	16	12	0	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr19:58966903T>A	ENST00000336614.4	+	4	699	c.592T>A	c.(592-594)Tgt>Agt	p.C198S	ZNF324B_ENST00000545523.1_Missense_Mutation_p.C198S|ZNF324B_ENST00000391696.1_Missense_Mutation_p.C188S	NM_207395.2	NP_997278.2	Q6AW86	Z324B_HUMAN	zinc finger protein 324B	198					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(7)|ovary(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	20		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0164)|Lung(386;0.179)		GCAGAAGCCATGTGCACAGGA	0.672																																																0													36	40	39					19																	58966903		2203	4300	6503	SO:0001583	missense	388569			AK127750	CCDS33138.1	19q13.43	2013-01-08				ENSG00000249471		"Zinc fingers, C2H2-type", "-"	33107	protein-coding gene	gene with protein product							Standard	NM_207395		Approved	FLJ45850	uc002qsv.1	Q6AW86		ENST00000336614.4:c.592T>A	19.37:g.58966903T>A	ENSP00000337473:p.Cys198Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTZ6|Q6ZMX8|Q6ZS42	Missense_Mutation	SNP	ENST00000336614.4	37	CCDS33138.1	.	.	.	.	.	.	.	.	.	.	T	11.83	1.756192	0.31137	.	.	ENSG00000249471	ENST00000336614;ENST00000545523;ENST00000391696	T;T;T	0.06294	3.49;3.49;3.32	2.7	-1.7	0.08159	.	3.208830	0.01016	N	0.003905	T	0.05364	0.0142	L	0.27053	0.805	0.09310	N	1	B;B	0.23185	0.081;0.003	B;B	0.16289	0.015;0.002	T	0.39078	-0.9631	10	0.62326	D	0.03	.	4.2594	0.10733	0.0:0.2411:0.2439:0.5151	.	198;188	Q6AW86;C9JTQ8	Z324B_HUMAN;.	S	198;198;188	ENSP00000337473:C198S;ENSP00000438930:C198S;ENSP00000375578:C188S	ENSP00000337473:C198S	C	+	1	0	ZNF324B	63658715	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-1.422000	0.02453	-0.415000	0.07484	0.402000	0.26972	TGT		0.672	ZNF324B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467038.1	NM_207395		A	58966903	T	A	58966903	3	1	576	1	0	0	0	0	1	0	0	0	17857	1464	51	5	602	5	ZNF324B	19	58966903	Missense_Mutation	SNP	T	TCGA-DZ-6133-01A-11D-1961-08	3214513	58966903	162080	118	34249										
MMP24	10893	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	33851638	33851638	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tgcatgagctgggccacgcgCtgggactggagcactccagc	15	13	0	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr20:33851638C>A	ENST00000246186.6	+	5	947	c.862C>A	c.(862-864)Ctg>Atg	p.L288M	EDEM2_ENST00000540582.1_Intron|MMP24-AS1_ENST00000454184.1_RNA|MMP24-AS1_ENST00000456350.1_RNA|MMP24-AS1_ENST00000566203.2_RNA|MMP24-AS1_ENST00000438751.1_RNA|MMP24-AS1_ENST00000453892.1_RNA|MMP24-AS1_ENST00000433764.1_RNA	NM_006690.3	NP_006681.1	Q9Y5R2	MMP24_HUMAN	matrix metallopeptidase 24 (membrane-inserted)	288					cell-cell adhesion (GO:0098609)|cell-cell adhesion mediated by cadherin (GO:0044331)|detection of temperature stimulus involved in sensory perception of pain (GO:0050965)|glial cell differentiation (GO:0010001)|neuronal stem cell maintenance (GO:0097150)|positive regulation of catalytic activity (GO:0043085)|proteolysis (GO:0006508)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|proteinaceous extracellular matrix (GO:0005578)|trans-Golgi network membrane (GO:0032588)	calcium ion binding (GO:0005509)|enzyme activator activity (GO:0008047)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			NS(1)|endometrium(3)|large_intestine(1)|lung(2)|prostate(2)|skin(5)	14			BRCA - Breast invasive adenocarcinoma(18;0.00252)		Marimastat(DB00786)	GGGCCACGCGCTGGGACTGGA	0.627																																																0													27	28	27					20																	33851638		2203	4300	6503	SO:0001583	missense	10893			AF131284	CCDS46593.1	20q11.2	2008-07-16	2005-08-08		ENSG00000125966	ENSG00000125966			7172	protein-coding gene	gene with protein product	"membrane-type 5 matrix metalloproteinase"	604871	"matrix metalloproteinase 24 (membrane-inserted)"			10363975	Standard	NM_006690		Approved	MT5-MMP	uc002xbu.2	Q9Y5R2	OTTHUMG00000032330	ENST00000246186.6:c.862C>A	20.37:g.33851638C>A	ENSP00000246186:p.Leu288Met	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBG8|Q9H440	Missense_Mutation	SNP	ENST00000246186.6	37	CCDS46593.1	.	.	.	.	.	.	.	.	.	.	C	18.25	3.583351	0.65992	.	.	ENSG00000125966	ENST00000246186;ENST00000540655	T	0.55588	0.51	5.05	4.03	0.46877	Peptidase M10, metallopeptidase (1);Peptidase, metallopeptidase (1);Metallopeptidase, catalytic domain (1);	0.000000	0.64402	D	0.000003	T	0.79305	0.4423	H	0.97365	3.99	0.51482	D	0.999929	D	0.76494	0.999	D	0.76071	0.987	D	0.83575	0.0114	10	0.87932	D	0	.	9.0992	0.36658	0.0:0.8266:0.0:0.1734	.	288	Q9Y5R2	MMP24_HUMAN	M	288;236	ENSP00000246186:L288M	ENSP00000246186:L288M	L	+	1	2	MMP24	33315054	0.934000	0.31675	0.984000	0.44739	0.932000	0.56968	1.902000	0.39848	2.606000	0.88127	0.655000	0.94253	CTG		0.627	MMP24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078851.4	NM_006690		A	33851638	C	A	33851638	3	1	576	1	0	0	0	0	1	0	0	0	9668	796	28	4	630	4	MMP24	20	33851638	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08		33851638	29173882	119	34250										
EPB41L1	2036	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	34800245	34800245	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gtctggccattagaaagaagAttgagccggaggccgtactg	14	8	1	4			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr20:34800245A>G	ENST00000338074.2	+	16	2292	c.2131A>G	c.(2131-2133)Att>Gtt	p.I711V	EPB41L1_ENST00000202028.5_Missense_Mutation_p.I637V|EPB41L1_ENST00000373946.3_Missense_Mutation_p.I531V|EPB41L1_ENST00000373950.2_Missense_Mutation_p.I602V|EPB41L1_ENST00000373941.1_Missense_Mutation_p.I711V|EPB41L1_ENST00000479336.1_3'UTR|EPB41L1_ENST00000441639.1_Missense_Mutation_p.I637V	NM_001258329.1|NM_012156.2	NP_001245258.1|NP_036288.2	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	711					cortical actin cytoskeleton organization (GO:0030866)|synaptic transmission (GO:0007268)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extrinsic component of membrane (GO:0019898)|plasma membrane (GO:0005886)	structural molecule activity (GO:0005198)			breast(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(10)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	37	Breast(12;0.0239)					TAGAAAGAAGATTGAGCCGGA	0.493																																																0													88	79	82					20																	34800245		2203	4300	6503	SO:0001583	missense	2036			AB002336	CCDS13271.1, CCDS13272.1, CCDS58771.1	20q11.2-q12	2003-03-17			ENSG00000088367	ENSG00000088367			3378	protein-coding gene	gene with protein product		602879				9570967, 9828140	Standard	NM_012156		Approved	KIAA0338	uc002xfb.3	Q9H4G0	OTTHUMG00000032378	ENST00000338074.2:c.2131A>G	20.37:g.34800245A>G	ENSP00000337168:p.Ile711Val	Somatic		WXS	Illumina HiSeq	Phase_I	O15046|Q4VXM6|Q4VXM7|Q4VXM8|Q4VXN4|Q6ZT61|Q8IUU7|Q96CV5|Q96L65	Missense_Mutation	SNP	ENST00000338074.2	37	CCDS13271.1	.	.	.	.	.	.	.	.	.	.	A	16.18	3.050564	0.55218	.	.	ENSG00000088367	ENST00000202028;ENST00000373950;ENST00000397315;ENST00000373951;ENST00000441639;ENST00000373946;ENST00000338074;ENST00000373941;ENST00000454226	D;D;D;D;D;D	0.83755	-1.76;-1.59;-1.76;-1.66;-1.66;-1.62	5.78	4.61	0.57282	.	.	.	.	.	T	0.71099	0.3300	N	0.24115	0.695	0.23391	N	0.997771	B;B;B;B;B;B	0.22983	0.078;0.01;0.047;0.004;0.007;0.0	B;B;B;B;B;B	0.21917	0.018;0.004;0.037;0.004;0.002;0.001	T	0.56786	-0.7921	9	0.24483	T	0.36	.	9.5214	0.39138	0.8228:0.1772:0.0:0.0	.	711;711;531;602;602;637	B7Z653;Q9H4G0;Q9H4G0-4;Q9H4G0-3;B3KUB6;Q9H4G0-2	.;E41L1_HUMAN;.;.;.;.	V	637;602;711;602;637;531;711;711;72	ENSP00000202028:I637V;ENSP00000363061:I602V;ENSP00000399214:I637V;ENSP00000363057:I531V;ENSP00000337168:I711V;ENSP00000363052:I711V	ENSP00000202028:I637V	I	+	1	0	EPB41L1	34263659	1.000000	0.71417	0.999000	0.59377	0.998000	0.95712	1.624000	0.37018	2.333000	0.79357	0.533000	0.62120	ATT		0.493	EPB41L1-008	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000078978.3	NM_012156		G	34800245	A	G	34800245	3	3	576	1	0	0	0	0	1	0	0	0	5154	333	12	3	2189	3	EPB41L1	20	34800245	Missense_Mutation	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	948607	34800245	28225275	120	34251										
NPEPL1	79716	hgsc.bcm.edu;broad.mit.edu	37	chr20	57276200	57276200	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tctatgacactggaggcctcAgcatcaaagggaaggtgagg	14	8	3	2			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr20:57276200A>G	ENST00000356091.6	+	6	1096	c.808A>G	c.(808-810)Agc>Ggc	p.S270G	NPEPL1_ENST00000525817.1_Missense_Mutation_p.S222G|STX16-NPEPL1_ENST00000530122.1_3'UTR|NPEPL1_ENST00000525967.1_Missense_Mutation_p.S242G	NM_024663.3	NP_078939.3	Q8NDH3	PEPL1_HUMAN	aminopeptidase-like 1	270						cytoplasm (GO:0005737)|nucleus (GO:0005634)	aminopeptidase activity (GO:0004177)|manganese ion binding (GO:0030145)|metalloexopeptidase activity (GO:0008235)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(7)|prostate(1)	14	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;2.88e-09)|Colorectal(105;0.109)			TGGAGGCCTCAGCATCAAAGG	0.687																																																0													24	24	24					20																	57276200		2040	4191	6231	SO:0001583	missense	79716			AK021645	CCDS46621.1, CCDS56200.1, CCDS56201.1	20q13.32	2008-07-02			ENSG00000215440	ENSG00000215440			16244	protein-coding gene	gene with protein product						14702039	Standard	NM_001204872		Approved	FLJ11583, bA261P9.2	uc010zzs.1	Q8NDH3	OTTHUMG00000033060	ENST00000356091.6:c.808A>G	20.37:g.57276200A>G	ENSP00000348395:p.Ser270Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGZ0|B4DMW7|B7ZBN0|E9PN47|G5EA34|Q53G37|Q5W083|Q8TF28|Q8WUI2|Q9H1T6|Q9HAI5	Missense_Mutation	SNP	ENST00000356091.6	37	CCDS46621.1	.	.	.	.	.	.	.	.	.	.	A	22.1	4.241327	0.79912	.	.	ENSG00000215440	ENST00000525967;ENST00000525817;ENST00000356091	T;T;T	0.52295	0.67;0.67;0.67	5.01	5.01	0.66863	Peptidase M17, leucyl aminopeptidase, C-terminal (1);	0.000000	0.85682	D	0.000000	T	0.78413	0.4279	H	0.97265	3.97	0.58432	D	0.999999	D;D;D;D	0.76494	0.986;0.982;0.999;0.992	D;D;D;D	0.77557	0.951;0.918;0.99;0.966	D	0.85396	0.1128	10	0.72032	D	0.01	-41.2309	12.4648	0.55751	1.0:0.0:0.0:0.0	.	270;222;242;270	Q8NDH3;G5EA34;E9PN47;Q8NDH3-3	PEPL1_HUMAN;.;.;.	G	242;222;270	ENSP00000434810:S242G;ENSP00000437112:S222G;ENSP00000348395:S270G	ENSP00000348395:S270G	S	+	1	0	NPEPL1	56709607	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	8.869000	0.92326	1.875000	0.54330	0.477000	0.44152	AGC		0.687	NPEPL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080402.6	NM_024663		G	57276200	A	G	57276200	3	3	576	1	0	0	0	0	1	0	0	0	10581	188	7	3	676	3	NPEPL1	20	57276200	Missense_Mutation	SNP	A	TCGA-DZ-6133-01A-11D-1961-08	22475955	57276200	5749320	121	34252										
SETD4	54093	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	37410517	37410517	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tgggctatgtccaaacttgtCttctcattcgtatctgaaat	7	9	3	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr21:37410517C>G	ENST00000399215.1	-	9	2491	c.1119G>C	c.(1117-1119)aaG>aaC	p.K373N	AP000688.1_ENST00000600312.1_Intron|SETD4_ENST00000332131.4_Missense_Mutation_p.K373N|SETD4_ENST00000481477.1_5'UTR|SETD4_ENST00000399212.1_Missense_Mutation_p.K349N			Q9NVD3	SETD4_HUMAN	SET domain containing 4	373				EILVKYLPSTDKQMDKKISILKDHGYIENLTFGWDGPSWRL LTALKLLCLEAEKFTCWKKVLLGEVISDTNEKTSLDIAQKI CYYFIEETNAVLQKVSHMKDEKEALINQLTLVESLWTEELK ILRASAETLHSLQTAFT -> GWNQLCS (in Ref. 5; AAH02898). {ECO:0000305}.			methyltransferase activity (GO:0008168)			autonomic_ganglia(1)|kidney(2)|large_intestine(4)|lung(6)|ovary(1)|prostate(1)	15						CCAAACTTGTCTTCTCATTCG	0.353																																																0													179	173	175					21																	37410517		2202	4300	6502	SO:0001583	missense	54093			AK001660	CCDS13640.1, CCDS42923.1, CCDS74791.1, CCDS74792.1	21q22.13	2006-02-15	2006-02-15	2006-02-15	ENSG00000185917	ENSG00000185917			1258	protein-coding gene	gene with protein product			"chromosome 21 open reading frame 27", "chromosome 21 open reading frame 18"	C21orf27, C21orf18			Standard	XM_005261000		Approved		uc021wiy.1	Q9NVD3	OTTHUMG00000086483	ENST00000399215.1:c.1119G>C	21.37:g.37410517C>G	ENSP00000382163:p.Lys373Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B4DT14|D3DSG2|D3DSG4|Q8NE19|Q9BU46	Missense_Mutation	SNP	ENST00000399215.1	37	CCDS13640.1	.	.	.	.	.	.	.	.	.	.	C	17.01	3.278952	0.59758	.	.	ENSG00000185917	ENST00000399215;ENST00000399212;ENST00000332131	T;T;T	0.18174	2.23;2.23;2.23	5.79	3.99	0.46301	Rubisco LS methyltransferase, substrate-binding domain (1);	0.633406	0.17880	N	0.158893	T	0.19046	0.0457	L	0.57536	1.79	0.80722	D	1	P;P	0.39920	0.646;0.695	B;B	0.40134	0.214;0.32	T	0.02307	-1.1179	10	0.18276	T	0.48	-14.3562	12.2959	0.54847	0.0:0.8635:0.0:0.1365	.	349;373	Q9NVD3-3;Q9NVD3	.;SETD4_HUMAN	N	373;349;373	ENSP00000382163:K373N;ENSP00000382161:K349N;ENSP00000329189:K373N	ENSP00000329189:K373N	K	-	3	2	SETD4	36332387	0.996000	0.38824	0.885000	0.34714	0.989000	0.77384	2.608000	0.46308	0.799000	0.34018	0.561000	0.74099	AAG		0.353	SETD4-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000194456.1	NM_017438		G	37410517	C	G	37410517	3	3	576	1	0	0	0	0	1	0	0	0	14146	912	32	4	211	4	SETD4	21	37410517	Missense_Mutation	SNP	C	TCGA-DZ-6133-01A-11D-1961-08		37410517	10719378	122	34253										
CERK	64781	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	47108141	47108141	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tatatccgcttgccttgtccTtttcctccaaacgggttgat	7	12	0	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chr22:47108141T>G	ENST00000216264.8	-	4	541	c.429A>C	c.(427-429)aaA>aaC	p.K143N	CERK_ENST00000541677.1_5'UTR	NM_022766.5	NP_073603.2	Q8TCT0	CERK1_HUMAN	ceramide kinase	143	DAGKc. {ECO:0000255|PROSITE- ProRule:PRU00783}.				ceramide metabolic process (GO:0006672)|glycosphingolipid metabolic process (GO:0006687)|lipid phosphorylation (GO:0046834)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ceramide kinase activity (GO:0001729)|diacylglycerol kinase activity (GO:0004143)|magnesium ion binding (GO:0000287)|NAD+ kinase activity (GO:0003951)			cervix(1)|endometrium(1)|large_intestine(2)|lung(11)|ovary(1)|prostate(2)|skin(2)	20		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TGCCTTGTCCTTTTCCTCCAA	0.388																																																0													241	179	200					22																	47108141		2203	4300	6503	SO:0001583	missense	64781			AB079066	CCDS14077.1	22q13.31	2008-06-10			ENSG00000100422	ENSG00000100422			19256	protein-coding gene	gene with protein product		610307				11956206, 11258795	Standard	NM_022766		Approved	hCERK, FLJ23239, dA59H18.3, DKFZp434E0211, FLJ21430, KIAA1646, LK4, dA59H18.2	uc003bia.3	Q8TCT0	OTTHUMG00000150395	ENST00000216264.8:c.429A>C	22.37:g.47108141T>G	ENSP00000216264:p.Lys143Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A0JNT4|A8K611|Q6NX59|Q9BYB3|Q9UGE5	Missense_Mutation	SNP	ENST00000216264.8	37	CCDS14077.1	.	.	.	.	.	.	.	.	.	.	T	14.94	2.686429	0.47991	.	.	ENSG00000100422	ENST00000216264	T	0.15487	2.42	5.2	-1.83	0.07833	Diacylglycerol kinase, catalytic domain (3);	0.109682	0.64402	D	0.000007	T	0.43366	0.1244	M	0.89785	3.06	0.80722	D	1	D	0.76494	0.999	D	0.77557	0.99	T	0.49409	-0.8943	10	0.72032	D	0.01	-14.0309	12.0935	0.53742	0.0:0.6281:0.0:0.3719	.	143	Q8TCT0	CERK1_HUMAN	N	143	ENSP00000216264:K143N	ENSP00000216264:K143N	K	-	3	2	CERK	45486805	0.957000	0.32711	0.303000	0.25071	0.328000	0.28507	1.095000	0.30964	-0.493000	0.06678	0.460000	0.39030	AAA		0.388	CERK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317924.2	NM_022766		G	47108141	T	G	47108141	3	3	576	1	0	0	0	0	1	0	0	0	3269	1606	56	5	1224	5	CERK	22	47108141	Missense_Mutation	SNP	T	TCGA-DZ-6133-01A-11D-1961-08		47108141	4196425	123	34254										
BMP15	9210	broad.mit.edu	37	chrX	50654047	50654047	+	Frame_Shift_Del	DEL	C	C	-													0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	gggcaccctagagagaaccgCaccattggggccaccatggt							TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chrX:50654047delC	ENST00000252677.3	+	1	264	c.264delC	c.(262-264)cgcfs	p.R88fs		NM_005448.2	NP_005439.2	O95972	BMP15_HUMAN	bone morphogenetic protein 15	88					female gamete generation (GO:0007292)|granulosa cell development (GO:0060016)|ovarian follicle development (GO:0001541)|positive regulation of transcription, DNA-templated (GO:0045893)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)				NS(1)|breast(2)|endometrium(4)|kidney(1)|large_intestine(5)|lung(10)|ovary(2)|skin(1)	26	Ovarian(276;0.236)					GAGAGAACCGCACCATTGGGG	0.592																																																0													23	14	17					X																	50654047		2199	4292	6491	SO:0001589	frameshift_variant	9210			AF082349	CCDS14334.1	Xp11.2	2013-02-06			ENSG00000130385	ENSG00000130385		"Bone morphogenetic proteins"	1068	protein-coding gene	gene with protein product		300247				9849956	Standard	NM_005448		Approved	GDF9B	uc011mnw.2	O95972	OTTHUMG00000021525	ENST00000252677.3:c.264delC	X.37:g.50654047delC	ENSP00000252677:p.Arg88fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RM6|Q5JST1|Q9UMS1	Frame_Shift_Del	DEL	ENST00000252677.3	37	CCDS14334.1																																																																																				0.592	BMP15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056572.1	NM_005448		-	50654047	C	-	50654047	7	5	576	1	0	1	0	1	0	0	0	0	1458	697	25	0	266	0	BMP15	23	50654047	Frame_Shift_Del	DEL	C	TCGA-DZ-6133-01A-11D-1961-08		50654047	104616513	124	34255										
FAM123B	139285	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	63411696	63411696	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.064	8	1	1.00982398690135	1.48816166490725	0.764191125222644	1	1	0	tcggggtagacaatccctgcGgacaagccccagggcctcac	12	15	1	1			TCGA-DZ-6133-01A-11D-1961-08	TCGA-DZ-6133-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dac1245d-4f00-4d28-bbc0-cdaf6beba2d0	e6107469-78da-4831-a87a-9fc0dbccbd8e	g.chrX:63411696G>A	ENST00000330258.3	-	2	1743	c.1471C>T	c.(1471-1473)Cgc>Tgc	p.R491C	AMER1_ENST00000403336.1_Missense_Mutation_p.R491C|AMER1_ENST00000374869.3_Missense_Mutation_p.R491C	NM_152424.3	NP_689637.3	Q5JTC6	AMER1_HUMAN	APC membrane recruitment protein 1	491					adipose tissue development (GO:0060612)|bone development (GO:0060348)|mesenchymal cell differentiation involved in kidney development (GO:0072161)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|regulation of canonical Wnt signaling pathway (GO:0060828)|Wnt signaling pathway (GO:0016055)	cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	beta-catenin binding (GO:0008013)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)	p.0?(67)									CAATCCCTGCGGACAAGCCCC	0.522																																																67	Whole gene deletion(67)	kidney(65)|ovary(1)|large_intestine(1)											61	50	54					X																	63411696		2203	4300	6503	SO:0001583	missense	139285			AK097146	CCDS14377.2	Xq11.1	2012-12-03	2012-12-03	2012-12-03	ENSG00000184675	ENSG00000184675		"-"	26837	protein-coding gene	gene with protein product	"Wilms Tumor on the X", "adenomatous polyposis coli membrane recruitment 1"	300647	"family with sequence similarity 123B"	FAM123B		21304492, 21498506, 20843316	Standard	NM_152424		Approved	RP11-403E24.2, FLJ39827, WTX	uc004dvo.3	Q5JTC6	OTTHUMG00000021703	ENST00000330258.3:c.1471C>T	X.37:g.63411696G>A	ENSP00000329117:p.Arg491Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A2IB86|Q8N885	Missense_Mutation	SNP	ENST00000330258.3	37	CCDS14377.2	.	.	.	.	.	.	.	.	.	.	G	7.831	0.719945	0.15372	.	.	ENSG00000184675	ENST00000374869;ENST00000330258;ENST00000403336	T;T;T	0.19532	2.14;2.14;2.14	5.21	3.3	0.37823	.	1.072280	0.07227	N	0.861857	T	0.17704	0.0425	N	0.24115	0.695	0.09310	N	1	P	0.45531	0.86	B	0.40329	0.326	T	0.25984	-1.0116	10	0.72032	D	0.01	0.0109	11.6933	0.51529	0.0:0.0:0.6193:0.3806	.	491	Q5JTC6	F123B_HUMAN	C	491	ENSP00000364003:R491C;ENSP00000329117:R491C;ENSP00000384722:R491C	ENSP00000329117:R491C	R	-	1	0	FAM123B	63328421	0.008000	0.16893	0.004000	0.12327	0.604000	0.37047	1.430000	0.34914	1.289000	0.44618	0.600000	0.82982	CGC		0.522	AMER1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316584.1	NM_152424		A	63411696	G	A	63411696	3	1	576	1	0	0	0	0	1	0	0	0	5427	1116	39	1	1940	1	FAM123B	23	63411696	Missense_Mutation	SNP	G	TCGA-DZ-6133-01A-11D-1961-08	12757649	63411696	91858864	125	34256										
SKI	6497	hgsc.bcm.edu	37	chr1	2160390	2160390	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	gggcgcggccgcggtgccggCgccggtgcccgcagccaccg	19	18	0	0	rs28384811	byFrequency	TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr1:2160390C>G	ENST00000378536.4	+	1	257	c.185C>G	c.(184-186)gCg>gGg	p.A62G		NM_003036.3	NP_003027.1	P12755	SKI_HUMAN	SKI proto-oncogene	62					anterior/posterior axis specification (GO:0009948)|BMP signaling pathway (GO:0030509)|bone morphogenesis (GO:0060349)|camera-type eye development (GO:0043010)|camera-type eye morphogenesis (GO:0048593)|cell motility (GO:0048870)|cell proliferation (GO:0008283)|embryonic limb morphogenesis (GO:0030326)|face morphogenesis (GO:0060325)|gene expression (GO:0010467)|lens morphogenesis in camera-type eye (GO:0002089)|myelination in peripheral nervous system (GO:0022011)|myotube differentiation (GO:0014902)|negative regulation of activin receptor signaling pathway (GO:0032926)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of cell proliferation (GO:0008285)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of Schwann cell proliferation (GO:0010626)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neural tube closure (GO:0001843)|nose morphogenesis (GO:0043585)|olfactory bulb development (GO:0021772)|palate development (GO:0060021)|positive regulation of DNA binding (GO:0043388)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of Wnt signaling pathway (GO:0030177)|protein homotrimerization (GO:0070207)|regulation of apoptotic process (GO:0042981)|retina development in camera-type eye (GO:0060041)|skeletal muscle fiber development (GO:0048741)|SMAD protein signal transduction (GO:0060395)|somatic stem cell maintenance (GO:0035019)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|transcription factor complex (GO:0005667)|transcriptional repressor complex (GO:0017053)	chromatin binding (GO:0003682)|histone deacetylase inhibitor activity (GO:0046811)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)|repressing transcription factor binding (GO:0070491)|SMAD binding (GO:0046332)|transcription corepressor activity (GO:0003714)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)			central_nervous_system(1)|kidney(2)|lung(5)|prostate(1)|stomach(1)	10	all_cancers(77;0.000139)|all_epithelial(69;4.45e-05)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)			Epithelial(90;2.14e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.72e-29)|GBM - Glioblastoma multiforme(42;2.45e-08)|Colorectal(212;5.33e-05)|COAD - Colon adenocarcinoma(227;0.000228)|Kidney(185;0.00268)|BRCA - Breast invasive adenocarcinoma(365;0.00471)|STAD - Stomach adenocarcinoma(132;0.0147)|KIRC - Kidney renal clear cell carcinoma(229;0.0385)|Lung(427;0.207)		gcggtgccggcgccggTGCCC	0.776													C|||	229	0.0457268	0.0234	0.0576	5008	,	,		4535	0.0079		0.0706	False		,,,				2504	0.0808				Ovarian(177;144 1678 13697 20086 27838 40755)											0													1	1	1					1																	2160390		788	1840	2628	SO:0001583	missense	6497			X15218	CCDS39.1	1p36.33	2014-06-25	2014-06-25		ENSG00000157933	ENSG00000157933		"SKI transcriptional corepressors"	10896	protein-coding gene	gene with protein product		164780	"v-ski avian sarcoma viral oncogene homolog"			2762147	Standard	NM_003036		Approved		uc001aja.4	P12755	OTTHUMG00000001407	ENST00000378536.4:c.185C>G	1.37:g.2160390C>G	ENSP00000367797:p.Ala62Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SYT7	Missense_Mutation	SNP	ENST00000378536.4	37	CCDS39.1	102	0.046703296703296704	20	0.04065040650406504	28	0.07734806629834254	3	0.005244755244755245	51	0.06728232189973615	C	9.688	1.151208	0.21371	.	.	ENSG00000157933	ENST00000378536	D	0.95821	-3.82	2.3	2.3	0.28687	.	.	.	.	.	T	0.47857	0.1468	N	0.08118	0	0.45733	P	0.001363000000000003	D	0.57899	0.981	P	0.58520	0.84	T	0.76271	-0.3020	8	0.20519	T	0.43	-11.9718	7.7374	0.28823	0.0:1.0:0.0:0.0	rs28384811	62	P12755	SKI_HUMAN	G	62	ENSP00000367797:A62G	ENSP00000367797:A62G	A	+	2	0	SKI	2150250	0.994000	0.37717	0.998000	0.56505	0.971000	0.66376	0.878000	0.28126	1.104000	0.41587	0.185000	0.17295	GCG		0.776	SKI-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004070.1	NM_003036		G	2160390	C	G	2160390	3	3	577	1	0	0	0	0	1	0	0	0	14370	768	27	4	187	4	SKI	1	2160390	Missense_Mutation	SNP	C	TCGA-DZ-6134-01A-11D-1961-08		2160390	247090231	1	34257										
CLSTN1	22883	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	9795602	9795602	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ttcaggtacgagatgtgctgCatggccttatccaattcccc	9	12	1	1	rs190578331	byFrequency	TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr1:9795602C>T	ENST00000377298.4	-	13	2598	c.1806G>A	c.(1804-1806)atG>atA	p.M602I	CLSTN1_ENST00000477264.1_5'Flank|CLSTN1_ENST00000377288.3_Missense_Mutation_p.M583I|CLSTN1_ENST00000361311.4_Missense_Mutation_p.M592I	NM_001009566.1	NP_001009566.1	O94985	CSTN1_HUMAN	calsyntenin 1	602					cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)	cell junction (GO:0030054)|cell projection (GO:0042995)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|postsynaptic membrane (GO:0045211)	beta-amyloid binding (GO:0001540)|calcium ion binding (GO:0005509)|kinesin binding (GO:0019894)|X11-like protein binding (GO:0042988)			breast(1)|endometrium(5)|kidney(2)|large_intestine(7)|liver(1)|lung(9)|prostate(5)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	36	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)		AGATGTGCTGCATGGCCTTAT	0.527													C|||	2	0.000399361	0.0	0.0	5008	,	,		17391	0.002		0.0	False		,,,				2504	0.0															0													169	159	163					1																	9795602		2203	4300	6503	SO:0001583	missense	22883			AB020718	CCDS105.1, CCDS30580.1	1p36.22	2011-07-01			ENSG00000171603	ENSG00000171603		"Cadherins / Cadherin-related"	17447	protein-coding gene	gene with protein product	"cadherin-related family member 12"	611321				10048485	Standard	XM_005263432		Approved	CSTN1, KIAA0911, CDHR12	uc001aqh.3	O94985	OTTHUMG00000001451	ENST00000377298.4:c.1806G>A	1.37:g.9795602C>T	ENSP00000366513:p.Met602Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K183|Q5SR52|Q5UE58|Q71MN0|Q8N4K9	Missense_Mutation	SNP	ENST00000377298.4	37	CCDS30580.1	2	9.157509157509158E-4	0	0.0	0	0.0	2	0.0034965034965034965	0	0.0	C	12.87	2.066247	0.36470	.	.	ENSG00000171603	ENST00000377298;ENST00000361311;ENST00000435891;ENST00000377288;ENST00000539822	T;T;T;T	0.27890	1.64;1.64;1.64;1.64	5.91	5.0	0.66597	.	0.155624	0.64402	N	0.000001	T	0.30603	0.0770	L	0.56396	1.775	0.80722	D	1	B;B;B	0.32188	0.245;0.359;0.245	B;B;B	0.26202	0.03;0.067;0.03	T	0.06110	-1.0845	10	0.40728	T	0.16	-19.7085	15.1111	0.72359	0.0:0.9325:0.0:0.0675	.	583;592;602	B4E3Q1;O94985-2;O94985	.;.;CSTN1_HUMAN	I	602;592;403;583;583	ENSP00000366513:M602I;ENSP00000354997:M592I;ENSP00000401934:M403I;ENSP00000366502:M583I	ENSP00000354997:M592I	M	-	3	0	CLSTN1	9718189	1.000000	0.71417	1.000000	0.80357	0.089000	0.18198	4.824000	0.62701	1.505000	0.48720	-0.140000	0.14226	ATG		0.527	CLSTN1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000004239.1			T	9795602	C	T	9795602	3	4	577	1	0	0	0	0	1	0	0	0	3563	710	25	2	1167	2	CLSTN1	1	9795602	Missense_Mutation	SNP	C	TCGA-DZ-6134-01A-11D-1961-08	7635212	9795602	239455019	2	34258										
SRRM1	10250	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	24993373	24993373	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ggtctccttctcccgcccctCctcctcgacggcgcaggact	9	20	2	0			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr1:24993373C>T	ENST00000323848.9	+	13	2011	c.1696C>T	c.(1696-1698)Cct>Tct	p.P566S	SRRM1_ENST00000374389.4_Missense_Mutation_p.P575S|SRRM1_ENST00000479034.1_3'UTR|SRRM1_ENST00000447431.2_Missense_Mutation_p.P578S|snoU13_ENST00000459464.1_RNA|SRRM1_ENST00000537199.1_3'UTR	NM_005839.3	NP_005830.2	Q8IYB3	SRRM1_HUMAN	serine/arginine repetitive matrix 1	566	Arg-rich.|Necessary for speckles and matrix localization.|Pro-rich.|Ser-rich.				gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA export from nucleus (GO:0006406)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	catalytic step 2 spliceosome (GO:0071013)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(12)|lung(9)|ovary(2)|prostate(1)|urinary_tract(2)	36		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)		TCCCGCCCCTCCTCCTCGACG	0.537																																					Ovarian(68;897 1494 3282 17478)											0													53	45	48					1																	24993373		2203	4300	6503	SO:0001583	missense	10250			AF048977	CCDS255.1	1p36	2010-04-22			ENSG00000133226	ENSG00000133226			16638	protein-coding gene	gene with protein product	"Ser/Arg-related nuclear matrix protein", "plenty of prolines 101-like"	605975				9531537	Standard	NM_005839		Approved	SRM160, POP101, MGC39488	uc001bjm.3	Q8IYB3	OTTHUMG00000003320	ENST00000323848.9:c.1696C>T	1.37:g.24993373C>T	ENSP00000326261:p.Pro566Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O60585|Q5VVN4	Missense_Mutation	SNP	ENST00000323848.9	37	CCDS255.1	.	.	.	.	.	.	.	.	.	.	C	15.03	2.712855	0.48517	.	.	ENSG00000133226	ENST00000323848;ENST00000447431;ENST00000374389	T;T;T	0.55760	0.5;0.7;0.83	5.66	5.66	0.87406	.	0.000000	0.64402	D	0.000007	T	0.63920	0.2552	L	0.40543	1.245	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.83275	0.996;0.992	T	0.54275	-0.8318	10	0.11794	T	0.64	-3.0627	19.3453	0.94361	0.0:1.0:0.0:0.0	.	578;566	E9PCT1;Q8IYB3	.;SRRM1_HUMAN	S	566;578;575	ENSP00000326261:P566S;ENSP00000391430:P578S;ENSP00000363510:P575S	ENSP00000326261:P566S	P	+	1	0	SRRM1	24865960	1.000000	0.71417	1.000000	0.80357	0.911000	0.54048	3.310000	0.51911	2.654000	0.90174	0.650000	0.86243	CCT		0.537	SRRM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000009292.2	NM_005839		T	24993373	C	T	24993373	3	4	577	1	0	0	0	0	1	0	0	0	15180	855	30	2	1746	2	SRRM1	1	24993373	Missense_Mutation	SNP	C	TCGA-DZ-6134-01A-11D-1961-08	15197771	24993373	224257248	3	34259										
BSDC1	55108	broad.mit.edu	37	chr1	32842099	32842099	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	aggatgcctctagcagctttTgggacaggtccttgggtagc	14	9	1	0			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr1:32842099T>G	ENST00000455895.2	-	9	953	c.920A>C	c.(919-921)cAa>cCa	p.Q307P	BSDC1_ENST00000446293.2_Missense_Mutation_p.Q324P|BSDC1_ENST00000463967.1_5'Flank|BSDC1_ENST00000419121.2_Missense_Mutation_p.Q251P|BSDC1_ENST00000341071.7_Missense_Mutation_p.Q324P|BSDC1_ENST00000413080.1_Missense_Mutation_p.Q246P|BSDC1_ENST00000449308.1_Missense_Mutation_p.Q307P|BSDC1_ENST00000526031.1_Missense_Mutation_p.Q212P	NM_001143888.1|NM_018045.6	NP_001137360.1|NP_060515.3	Q9NW68	BSDC1_HUMAN	BSD domain containing 1	307										breast(1)|central_nervous_system(2)|kidney(1)|lung(6)|ovary(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	17		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				TAGCAGCTTTTGGGACAGGTC	0.597																																																0													106	98	100					1																	32842099		2203	4300	6503	SO:0001583	missense	55108			BX641056	CCDS363.2, CCDS44101.1, CCDS44102.1, CCDS44103.1, CCDS72752.1	1p35.1	2008-02-05			ENSG00000160058	ENSG00000160058			25501	protein-coding gene	gene with protein product						12477932	Standard	XM_005270985		Approved	FLJ10276, RP4-811H24.7	uc010ohg.2	Q9NW68	OTTHUMG00000007588	ENST00000455895.2:c.920A>C	1.37:g.32842099T>G	ENSP00000412173:p.Gln307Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DMS7|B4DTI7|B4DTP7|B4E2X8|Q49AT8|Q68DY6|Q6IAA3|Q6MZK1|Q6UXS1|Q9HAL9	Missense_Mutation	SNP	ENST00000455895.2	37	CCDS363.2	.	.	.	.	.	.	.	.	.	.	T	13.73	2.325416	0.41197	.	.	ENSG00000160058	ENST00000455895;ENST00000413080;ENST00000341071;ENST00000526031;ENST00000419121;ENST00000446293;ENST00000449308	T;T;T;T;T;T;T	0.49720	0.77;0.77;0.77;0.77;0.77;0.77;0.77	4.87	3.76	0.43208	.	0.225151	0.46442	D	0.000283	T	0.36386	0.0965	L	0.43152	1.355	0.44447	D	0.997376	B;B;B;B;B	0.13594	0.008;0.002;0.002;0.002;0.002	B;B;B;B;B	0.16289	0.015;0.009;0.009;0.002;0.004	T	0.15752	-1.0426	10	0.24483	T	0.36	-9.315	9.7393	0.40409	0.0:0.0834:0.0:0.9166	.	212;251;324;324;307	Q9NW68-9;Q9NW68-8;Q9NW68-7;Q9NW68-3;Q9NW68	.;.;.;.;BSDC1_HUMAN	P	307;246;324;212;251;324;307	ENSP00000412173:Q307P;ENSP00000409114:Q246P;ENSP00000344816:Q324P;ENSP00000432382:Q212P;ENSP00000405752:Q251P;ENSP00000397759:Q324P;ENSP00000391762:Q307P	ENSP00000344816:Q324P	Q	-	2	0	BSDC1	32614686	0.999000	0.42202	0.997000	0.53966	0.967000	0.64934	3.056000	0.49923	2.131000	0.65755	0.379000	0.24179	CAA		0.597	BSDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000020056.3	NM_018045		G	32842099	T	G	32842099	3	3	577	1	0	0	0	0	1	0	0	0	1530	1812	63	5	384	5	BSDC1	1	32842099	Missense_Mutation	SNP	T	TCGA-DZ-6134-01A-11D-1961-08	7848726	32842099	216408522	4	34260										
POGZ	23126	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	151378756	151378756	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ctgcgggtgagtgggggttgGtggtggggttgcagttgagg	24	3	0	2			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr1:151378756G>A	ENST00000271715.2	-	19	3069	c.2755C>T	c.(2755-2757)Cca>Tca	p.P919S	POGZ_ENST00000531094.1_Missense_Mutation_p.P857S|POGZ_ENST00000392723.1_Missense_Mutation_p.P866S|POGZ_ENST00000368863.2_Missense_Mutation_p.P824S|POGZ_ENST00000409503.1_Missense_Mutation_p.P910S|POGZ_ENST00000361398.3_Missense_Mutation_p.P866S|POGZ_ENST00000491586.1_Missense_Mutation_p.P875S|POGZ_ENST00000540984.1_Missense_Mutation_p.P281S	NM_001194937.1|NM_015100.3	NP_001181866.1|NP_055915.2	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	919	Pro-rich.				kinetochore assembly (GO:0051382)|mitotic sister chromatid cohesion (GO:0007064)	cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(1)|endometrium(10)|kidney(3)|large_intestine(10)|liver(2)|lung(11)|ovary(3)|prostate(2)|skin(3)|urinary_tract(1)	47	Lung SC(34;0.00471)|Ovarian(49;0.00672)|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)			GTGGGGGTTGGTGGTGGGGTT	0.592																																																0													73	73	73					1																	151378756		2203	4300	6503	SO:0001583	missense	23126			AB007930	CCDS997.1, CCDS998.1, CCDS44222.1, CCDS44222.2, CCDS53365.1, CCDS53366.1	1q21.1	2013-07-22			ENSG00000143442	ENSG00000143442			18801	protein-coding gene	gene with protein product	"zinc finger protein 280E", "putative protein product of Nbla00003"	614787				10976766	Standard	NM_015100		Approved	KIAA0461, ZNF635m, ZNF280E	uc001eyd.2	Q7Z3K3	OTTHUMG00000012499	ENST00000271715.2:c.2755C>T	1.37:g.151378756G>A	ENSP00000271715:p.Pro919Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTP8|B4DYL9|B7ZBY5|E9PM80|O75049|Q3LIC4|Q5SZS1|Q5SZS2|Q5SZS3|Q5SZS4|Q8TDZ7|Q9Y4X7	Missense_Mutation	SNP	ENST00000271715.2	37	CCDS997.1	.	.	.	.	.	.	.	.	.	.	G	11.49	1.653454	0.29425	.	.	ENSG00000143442	ENST00000392723;ENST00000271715;ENST00000361398;ENST00000368863;ENST00000409503;ENST00000531094;ENST00000540984;ENST00000491586	T;T;T;T;T;T;T;T	0.23552	5.88;5.91;5.88;5.84;5.89;5.88;1.9;5.37	5.87	3.95	0.45737	.	0.748779	0.12616	N	0.453449	T	0.04861	0.0131	N	0.08118	0	0.09310	N	1	B;B;B;B;B;B	0.02656	0.0;0.0;0.0;0.0;0.0;0.0	B;B;B;B;B;B	0.04013	0.0;0.0;0.0;0.0;0.001;0.0	T	0.34527	-0.9825	10	0.45353	T	0.12	-1.4299	8.593	0.33699	0.0805:0.2988:0.6207:0.0	.	857;910;824;875;866;919	E9PM80;B7ZBY5;Q7Z3K3-5;Q7Z3K3-3;Q7Z3K3-2;Q7Z3K3	.;.;.;.;.;POGZ_HUMAN	S	866;919;866;824;910;857;281;875	ENSP00000376484:P866S;ENSP00000271715:P919S;ENSP00000354467:P866S;ENSP00000357856:P824S;ENSP00000386836:P910S;ENSP00000431259:P857S;ENSP00000443547:P281S;ENSP00000418408:P875S	ENSP00000271715:P919S	P	-	1	0	POGZ	149645380	0.165000	0.22948	0.788000	0.31933	0.966000	0.64601	0.747000	0.26290	1.446000	0.47643	0.655000	0.94253	CCA		0.592	POGZ-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000034915.2	NM_207171		A	151378756	G	A	151378756	3	1	577	1	0	0	0	0	1	0	0	0	12193	1261	44	2	1481	2	POGZ	1	151378756	Missense_Mutation	SNP	G	TCGA-DZ-6134-01A-11D-1961-08	118536657	151378756	97871865	5	34261										
BTG2	7832	broad.mit.edu	37	chr1	203276560	203276560	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	aactacgtgatggcagtctcCagctaggcccttccgccccc	9	17	1	1	rs377245155		TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr1:203276560C>T	ENST00000290551.4	+	2	542	c.471C>T	c.(469-471)tcC>tcT	p.S157S	RP11-134P9.1_ENST00000457348.1_lincRNA	NM_006763.2	NP_006754.1	P78543	BTG2_HUMAN	BTG family, member 2	157					anterior/posterior pattern specification (GO:0009952)|associative learning (GO:0008306)|cellular response to DNA damage stimulus (GO:0006974)|central nervous system neuron development (GO:0021954)|dentate gyrus development (GO:0021542)|DNA repair (GO:0006281)|negative regulation of cell proliferation (GO:0008285)|negative regulation of neural precursor cell proliferation (GO:2000178)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of translation (GO:0017148)|neuron projection development (GO:0031175)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|protein methylation (GO:0006479)|response to electrical stimulus (GO:0051602)|response to mechanical stimulus (GO:0009612)|response to organic cyclic compound (GO:0014070)|response to peptide hormone (GO:0043434)|skeletal muscle cell differentiation (GO:0035914)	extracellular vesicular exosome (GO:0070062)	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(1)|lung(2)|ovary(1)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(75;0.203)			TGGCAGTCTCCAGCTAGGCCC	0.632																																																0								C		0,4392		0,0,2196	24	25	25		471	4.8	1	1		25	1,8565		0,1,4282	no	coding-synonymous	BTG2	NM_006763.2		0,1,6478	TT,TC,CC		0.0117,0.0,0.0077		157/159	203276560	1,12957	2196	4283	6479	SO:0001819	synonymous_variant	7832				CCDS1437.1	1q32	2008-07-18			ENSG00000159388	ENSG00000159388			1131	protein-coding gene	gene with protein product	"B-cell translocation gene 2", "pheochromacytoma cell-3", "NGF-inducible anti-proliferative protein PC3", "nerve growth factor-inducible anti-proliferative"	601597				8944033	Standard	NM_006763		Approved	PC3, TIS21, MGC126063, MGC126064	uc001gzq.3	P78543	OTTHUMG00000035834	ENST00000290551.4:c.471C>T	1.37:g.203276560C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0A024R986|Q3KR25|Q5VUT0	Silent	SNP	ENST00000290551.4	37	CCDS1437.1																																																																																				0.632	BTG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087168.1	NM_006763		T	203276560	C	T	203276560	2	4	577	1	0	0	0	0	0	0	0	1	1556	581	21	2		2	BTG2	1	203276560	Silent	SNP	C	TCGA-DZ-6134-01A-11D-1961-08	51897804	203276560	45974061	6	34262										
MOSC1	64757	broad.mit.edu	37	chr1	220964857	220964857	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	tggcttgtgatcaaccaggaGggaaacatggttactgctcg	13	8	1	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr1:220964857G>A	ENST00000366910.5	+	2	486	c.300G>A	c.(298-300)gaG>gaA	p.E100E		NM_022746.3	NP_073583.3	Q5VT66	MARC1_HUMAN	mitochondrial amidoxime reducing component 1	100					detoxification of nitrogen compound (GO:0051410)|nitrate metabolic process (GO:0042126)|oxidation-reduction process (GO:0055114)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)	molybdenum ion binding (GO:0030151)|molybdopterin cofactor binding (GO:0043546)|nitrate reductase activity (GO:0008940)|pyridoxal phosphate binding (GO:0030170)										TCAACCAGGAGGGAAACATGG	0.522																																																0													104	87	93					1																	220964857		2203	4300	6503	SO:0001819	synonymous_variant	64757			AK026043	CCDS1526.1	1q41	2011-11-02	2011-11-02	2011-11-02	ENSG00000186205	ENSG00000186205			26189	protein-coding gene	gene with protein product		614126	"MOCO sulphurase C-terminal domain containing 1"	MOSC1		11886751	Standard	NM_022746		Approved	FLJ22390	uc001hms.3	Q5VT66	OTTHUMG00000037353	ENST00000366910.5:c.300G>A	1.37:g.220964857G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K447|B2D078|Q5VVS9|Q5VVT0|Q5VVT1|Q8N9P5|Q96FN8|Q9H6C7	Silent	SNP	ENST00000366910.5	37	CCDS1526.1	.	.	.	.	.	.	.	.	.	.	G	8.167	0.790793	0.16258	.	.	ENSG00000186205	ENST00000407981	.	.	.	5.07	-5.6	0.02497	.	.	.	.	.	T	0.34745	0.0908	.	.	.	0.46416	D	0.999037	.	.	.	.	.	.	T	0.44298	-0.9337	4	.	.	.	-18.3348	0.5286	0.00624	0.2115:0.2571:0.2398:0.2915	.	.	.	.	R	9	.	.	G	+	1	0	MOSC1	219031480	0.003000	0.15002	0.021000	0.16686	0.909000	0.53808	-1.803000	0.01740	-0.429000	0.07329	0.650000	0.86243	GGG		0.522	MARC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090904.1	NM_022746		A	220964857	G	A	220964857	2	1	577	1	0	0	0	0	0	0	0	1	9720	991	35	2		2	MOSC1	1	220964857	Silent	SNP	G	TCGA-DZ-6134-01A-11D-1961-08	17688297	220964857	28285764	7	34263										
ACTA1	58	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	229568083	229568083	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	gtagtcggtgagatcgcggcCcgccaggtccaggcgcatga	16	12	0	2			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr1:229568083C>T	ENST00000366684.3	-	4	652	c.550G>A	c.(550-552)Ggc>Agc	p.G184S	ACTA1_ENST00000366683.2_Intron	NM_001100.3	NP_001091.1	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	184			G -> D (in NEM3; mild). {ECO:0000269|PubMed:10508519, ECO:0000269|PubMed:15236405}.		cell growth (GO:0016049)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|response to extracellular stimulus (GO:0009991)|response to lithium ion (GO:0010226)|response to mechanical stimulus (GO:0009612)|response to steroid hormone (GO:0048545)|skeletal muscle fiber adaptation (GO:0043503)|skeletal muscle fiber development (GO:0048741)|skeletal muscle thin filament assembly (GO:0030240)	actin cytoskeleton (GO:0015629)|actin filament (GO:0005884)|blood microparticle (GO:0072562)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|sarcomere (GO:0030017)|stress fiber (GO:0001725)|striated muscle thin filament (GO:0005865)	ADP binding (GO:0043531)|ATP binding (GO:0005524)|myosin binding (GO:0017022)|structural constituent of cytoskeleton (GO:0005200)			endometrium(4)|large_intestine(4)|lung(18)|prostate(1)|urinary_tract(1)	28	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)				AGATCGCGGCCCGCCAGGTCC	0.677																																																0													38	37	38					1																	229568083		2203	4299	6502	SO:0001583	missense	58			J00068	CCDS1578.1	1q42.13	2014-09-17			ENSG00000143632	ENSG00000143632			129	protein-coding gene	gene with protein product	"nemaline myopathy type 3"	102610		ACTA		10072583, 6865942	Standard	NM_001100		Approved	NEM3	uc001htm.3	P68133	OTTHUMG00000038006	ENST00000366684.3:c.550G>A	1.37:g.229568083C>T	ENSP00000355645:p.Gly184Ser	Somatic		WXS	Illumina HiSeq	Phase_I	P02568|P99020|Q5T8M9	Missense_Mutation	SNP	ENST00000366684.3	37	CCDS1578.1	.	.	.	.	.	.	.	.	.	.	C	17.48	3.399571	0.62177	.	.	ENSG00000143632	ENST00000366684;ENST00000366682	D	0.99586	-6.23	4.58	3.67	0.42095	.	0.000000	0.85682	D	0.000000	D	0.99825	0.9922	H	0.99609	4.655	0.80722	D	1	D	0.76494	0.999	D	0.91635	0.999	D	0.96775	0.9571	10	0.87932	D	0	.	12.6981	0.57016	0.0:0.9198:0.0:0.0802	.	184	P68133	ACTS_HUMAN	S	184;149	ENSP00000355645:G184S	ENSP00000355643:G149S	G	-	1	0	ACTA1	227634706	1.000000	0.71417	0.846000	0.33378	0.920000	0.55202	7.545000	0.82128	1.143000	0.42306	0.650000	0.86243	GGC		0.677	ACTA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092781.1	NM_001100		T	229568083	C	T	229568083	3	4	577	1	0	0	0	0	1	0	0	0	191	623	22	2	599	2	ACTA1	1	229568083	Missense_Mutation	SNP	C	TCGA-DZ-6134-01A-11D-1961-08	8603226	229568083	19682538	8	34264										
PDIA6	10130	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	10927529	10927529	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ccaatccccaacgcggtctcAagttcagactgggctccagc	9	16	2	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr2:10927529A>T	ENST00000272227.3	-	11	1182	c.1035T>A	c.(1033-1035)ctT>ctA	p.L345L	PDIA6_ENST00000381611.4_Silent_p.L350L|PDIA6_ENST00000404824.2_Silent_p.L393L|PDIA6_ENST00000540494.1_Silent_p.L342L|PDIA6_ENST00000404371.2_Silent_p.L397L	NM_001282707.1|NM_005742.2	NP_001269636.1|NP_005733.1	Q15084	PDIA6_HUMAN	protein disulfide isomerase family A, member 6	345					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|apoptotic cell clearance (GO:0043277)|cell redox homeostasis (GO:0045454)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|protein folding (GO:0006457)|response to endoplasmic reticulum stress (GO:0034976)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	protein disulfide isomerase activity (GO:0003756)			central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(2)|lung(8)|prostate(2)	18	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.149)|OV - Ovarian serous cystadenocarcinoma(76;0.15)		ACGCGGTCTCAAGTTCAGACT	0.488																																					GBM(73;509 1219 34219 41343 41551)											0													81	83	82					2																	10927529		2203	4300	6503	SO:0001819	synonymous_variant	10130			BC001312	CCDS1675.1, CCDS62852.1, CCDS62853.1, CCDS62854.1, CCDS62855.1	2p25.1	2009-11-20	2005-06-29	2005-03-03	ENSG00000143870	ENSG00000143870	5.3.4.1	"Protein disulfide isomerases"	30168	protein-coding gene	gene with protein product	"protein disulfide isomerase-related protein"	611099	"thioredoxin domain containing 7 (protein disulfide isomerase)", "protein disulfide isomerase-associated 6"	TXNDC7		7590364, 12204115	Standard	XM_005246145		Approved	P5, ERp5	uc002rau.3	Q15084	OTTHUMG00000090479	ENST00000272227.3:c.1035T>A	2.37:g.10927529A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KY95|B5MCQ5|B7Z254|B7Z4M8|F8WA83|Q53RC7|Q6ZSH5|Q99778	Silent	SNP	ENST00000272227.3	37	CCDS1675.1																																																																																				0.488	PDIA6-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000206933.1	NM_005742		T	10927529	A	T	10927529	2	4	577	1	0	0	0	0	0	0	0	1	11679	117	5	5		5	PDIA6	2	10927529	Silent	SNP	A	TCGA-DZ-6134-01A-11D-1961-08		10927529	232271844	9	34265										
STAT1	6772	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	191859893	191859893	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	tttctgttccaattcctccaActttttaagctgctgccgaa	5	12	1	0			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr2:191859893A>T	ENST00000361099.3	-	10	1225	c.838T>A	c.(838-840)Ttg>Atg	p.L280M	STAT1_ENST00000392322.3_Missense_Mutation_p.L280M|STAT1_ENST00000540176.1_3'UTR|STAT1_ENST00000409465.1_Missense_Mutation_p.L280M|STAT1_ENST00000392323.2_Missense_Mutation_p.L282M	NM_007315.3	NP_009330.1	P42224	STAT1_HUMAN	signal transducer and activator of transcription 1, 91kDa	280					apoptotic process (GO:0006915)|blood circulation (GO:0008015)|cellular response to insulin stimulus (GO:0032869)|cellular response to interferon-beta (GO:0035458)|cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|interferon-gamma-mediated signaling pathway (GO:0060333)|JAK-STAT cascade (GO:0007259)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|lipopolysaccharide-mediated signaling pathway (GO:0031663)|metanephric mesenchymal cell differentiation (GO:0072162)|metanephric mesenchymal cell proliferation involved in metanephros development (GO:0072136)|negative regulation of angiogenesis (GO:0016525)|negative regulation of endothelial cell proliferation (GO:0001937)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of macrophage fusion (GO:0034240)|negative regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis (GO:0003340)|negative regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072308)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of smooth muscle cell proliferation (GO:0048661)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of apoptotic process (GO:0042981)|regulation of interferon-gamma-mediated signaling pathway (GO:0060334)|regulation of type I interferon-mediated signaling pathway (GO:0060338)|renal tubule development (GO:0061326)|response to cAMP (GO:0051591)|response to cytokine (GO:0034097)|response to drug (GO:0042493)|response to exogenous dsRNA (GO:0043330)|response to hydrogen peroxide (GO:0042542)|response to mechanical stimulus (GO:0009612)|response to nutrient (GO:0007584)|response to peptide hormone (GO:0043434)|transcription from RNA polymerase II promoter (GO:0006366)|tumor necrosis factor-mediated signaling pathway (GO:0033209)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|nuclear chromatin (GO:0000790)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|double-stranded DNA binding (GO:0003690)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|protein homodimerization activity (GO:0042803)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity (GO:0000983)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)|tumor necrosis factor receptor binding (GO:0005164)			autonomic_ganglia(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(5)|kidney(2)|large_intestine(6)|lung(13)|ovary(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	39			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)			AATTCCTCCAACTTTTTAAGC	0.448																																																0													158	136	143					2																	191859893		2203	4300	6503	SO:0001583	missense	6772				CCDS2309.1, CCDS42793.1	2q32.2-q32.3	2014-09-17	2002-08-29		ENSG00000115415	ENSG00000115415		"SH2 domain containing"	11362	protein-coding gene	gene with protein product	"transcription factor ISGF-3 components p91/p84"	600555	"signal transducer and activator of transcription 1, 91kD"			7885841	Standard	NM_139266		Approved	STAT91, ISGF-3	uc002usj.2	P42224	OTTHUMG00000132699	ENST00000361099.3:c.838T>A	2.37:g.191859893A>T	ENSP00000354394:p.Leu280Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K989|B2RCA0|D2KFR8|D3DPI7|Q53S88|Q53XW4|Q68D00|Q9UDL5	Missense_Mutation	SNP	ENST00000361099.3	37	CCDS2309.1	.	.	.	.	.	.	.	.	.	.	A	17.74	3.464088	0.63513	.	.	ENSG00000115415	ENST00000361099;ENST00000409465;ENST00000392322;ENST00000392323	T;T;T;T	0.66280	-0.2;-0.2;-0.2;-0.2	5.66	3.89	0.44902	STAT transcription factor, all-alpha (2);STAT transcription factor, coiled coil (1);	0.000000	0.85682	D	0.000000	T	0.79246	0.4413	M	0.86651	2.83	0.80722	D	1	D;D	0.76494	0.998;0.999	D;D	0.79108	0.98;0.992	T	0.80185	-0.1487	10	0.72032	D	0.01	-20.1979	9.7711	0.40589	0.21:0.0:0.79:0.0	.	280;280	P42224-2;P42224	.;STAT1_HUMAN	M	280;280;280;282	ENSP00000354394:L280M;ENSP00000386244:L280M;ENSP00000376136:L280M;ENSP00000376137:L282M	ENSP00000354394:L280M	L	-	1	2	STAT1	191568138	1.000000	0.71417	1.000000	0.80357	0.682000	0.39822	5.579000	0.67457	0.757000	0.33036	-1.059000	0.02297	TTG		0.448	STAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255997.3	NM_007315		T	191859893	A	T	191859893	3	4	577	1	0	0	0	0	1	0	0	0	15276	40	2	5	1482	5	STAT1	2	191859893	Missense_Mutation	SNP	A	TCGA-DZ-6134-01A-11D-1961-08	180932364	191859893	51339480	10	34266										
WNT10A	80326	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	219754883	219754883	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	actggatgcactgcagcgtgGtaagggcctgagccatgggg	17	9	0	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr2:219754883G>A	ENST00000258411.3	+	3	1187	c.554G>A	c.(553-555)gGt>gAt	p.G185D		NM_025216.2	NP_079492.2	Q9GZT5	WN10A_HUMAN	wingless-type MMTV integration site family, member 10A	185					cell fate commitment (GO:0045165)|cellular response to transforming growth factor beta stimulus (GO:0071560)|epidermis morphogenesis (GO:0048730)|hair follicle development (GO:0001942)|hair follicle morphogenesis (GO:0031069)|neural crest cell differentiation (GO:0014033)|neuron differentiation (GO:0030182)|odontogenesis (GO:0042476)|positive regulation of gene expression (GO:0010628)|regulation of odontogenesis of dentin-containing tooth (GO:0042487)|sebaceous gland development (GO:0048733)|skin development (GO:0043588)|tongue development (GO:0043586)|Wnt signaling pathway (GO:0016055)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)	frizzled binding (GO:0005109)			breast(1)|cervix(1)|endometrium(2)|lung(6)|skin(2)	12		Renal(207;0.0474)		Epithelial(149;4.26e-07)|all cancers(144;8.8e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTGCAGCGTGGTAAGGGCCTG	0.672																																																0													48	43	45					2																	219754883		2203	4300	6503	SO:0001583	missense	80326			AB059569	CCDS2426.1	2q35	2008-05-23			ENSG00000135925	ENSG00000135925		"Wingless-type MMTV integration sites"	13829	protein-coding gene	gene with protein product		606268				11350055, 17847007	Standard	NM_025216		Approved		uc002vjd.1	Q9GZT5	OTTHUMG00000133085	ENST00000258411.3:c.554G>A	2.37:g.219754883G>A	ENSP00000258411:p.Gly185Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q53S44|Q96TA7|Q9H7S8	Missense_Mutation	SNP	ENST00000258411.3	37	CCDS2426.1	.	.	.	.	.	.	.	.	.	.	G	26.7	4.760111	0.89932	.	.	ENSG00000135925	ENST00000258411	T	0.75821	-0.97	4.46	4.46	0.54185	.	0.408178	0.26328	N	0.025007	D	0.84165	0.5412	M	0.71581	2.175	0.80722	D	1	D	0.63880	0.993	D	0.64144	0.922	D	0.86269	0.1660	10	0.72032	D	0.01	.	16.6424	0.85129	0.0:0.0:1.0:0.0	.	185	Q9GZT5	WN10A_HUMAN	D	185	ENSP00000258411:G185D	ENSP00000258411:G185D	G	+	2	0	WNT10A	219463127	1.000000	0.71417	0.795000	0.32087	0.929000	0.56500	9.117000	0.94347	2.478000	0.83669	0.655000	0.94253	GGT		0.672	WNT10A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256730.2	NM_025216		A	219754883	G	A	219754883	3	1	577	1	0	0	0	0	1	0	0	0	17394	1261	44	2	564	2	WNT10A	2	219754883	Missense_Mutation	SNP	G	TCGA-DZ-6134-01A-11D-1961-08	27894990	219754883	23444490	11	34267										
GPR55	9290	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	231775289	231775289	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	tcctgggggaccggaggtggCtcaccagtagcgggtaacgg	18	10	1	0			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr2:231775289C>T	ENST00000392040.1	-	2	581	c.389G>A	c.(388-390)aGc>aAc	p.S130N	GPR55_ENST00000392039.2_Missense_Mutation_p.S130N|AC012507.4_ENST00000454890.1_RNA	NM_005683.3	NP_005674.2	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	130					activation of phospholipase C activity (GO:0007202)|bone resorption (GO:0045453)|cannabinoid signaling pathway (GO:0038171)|G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of osteoclast differentiation (GO:0045671)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of Rho protein signal transduction (GO:0035025)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cannabinoid receptor activity (GO:0004949)|G-protein coupled receptor activity (GO:0004930)			endometrium(1)|large_intestine(1)|lung(14)|ovary(1)|prostate(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	23		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;1.04e-11)|all cancers(144;4.22e-09)|LUSC - Lung squamous cell carcinoma(224;0.0119)|Lung(119;0.0145)		CCGGAGGTGGCTCACCAGTAG	0.557																																																0													51	46	48					2																	231775289		2203	4300	6503	SO:0001583	missense	9290			AF096786	CCDS2480.1	2q37	2012-08-21			ENSG00000135898	ENSG00000135898		"GPCR / Class A : Orphans"	4511	protein-coding gene	gene with protein product		604107				9931487	Standard	NM_005683		Approved		uc002vrg.3	Q9Y2T6	OTTHUMG00000133224	ENST00000392040.1:c.389G>A	2.37:g.231775289C>T	ENSP00000375894:p.Ser130Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N580	Missense_Mutation	SNP	ENST00000392040.1	37	CCDS2480.1	.	.	.	.	.	.	.	.	.	.	C	10.66	1.412948	0.25465	.	.	ENSG00000135898	ENST00000392040;ENST00000392039;ENST00000438398	T;T;T	0.71698	-0.59;-0.59;-0.59	5.65	-1.33	0.09172	GPCR, rhodopsin-like superfamily (1);	0.431206	0.27464	N	0.019252	T	0.54806	0.1881	L	0.39397	1.21	0.21553	N	0.999648	B	0.02656	0.0	B	0.06405	0.002	T	0.41538	-0.9503	10	0.28530	T	0.3	-29.6367	9.6559	0.39925	0.0:0.4621:0.0:0.5379	.	130	Q9Y2T6	GPR55_HUMAN	N	130	ENSP00000375894:S130N;ENSP00000375893:S130N;ENSP00000412768:S130N	ENSP00000375893:S130N	S	-	2	0	GPR55	231483533	0.000000	0.05858	0.993000	0.49108	0.496000	0.33645	-0.132000	0.10467	-0.141000	0.11374	-0.940000	0.02684	AGC		0.557	GPR55-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000332618.1	NM_005683		T	231775289	C	T	231775289	3	4	577	1	0	0	0	0	1	0	0	0	6706	797	28	2	574	2	GPR55	2	231775289	Missense_Mutation	SNP	C	TCGA-DZ-6134-01A-11D-1961-08	12020406	231775289	11424084	12	34268										
GRM2	2912	broad.mit.edu	37	chr3	51749233	51749233	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	cagaaggcttgactctggacAccagcctcatcccatgggcc	10	15	2	2			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr3:51749233A>C	ENST00000395052.3	+	4	1678	c.1444A>C	c.(1444-1446)Acc>Ccc	p.T482P	GRM2_ENST00000475478.1_3'UTR|GRM2_ENST00000442933.2_Intron	NM_000839.3	NP_000830.2	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2	482					adenylate cyclase-inhibiting G-protein coupled glutamate receptor signaling pathway (GO:0007196)|glutamate secretion (GO:0014047)|negative regulation of adenylate cyclase activity (GO:0007194)|regulation of synaptic transmission, glutamatergic (GO:0051966)|synaptic transmission (GO:0007268)	axon (GO:0030424)|cell junction (GO:0030054)|integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|presynaptic membrane (GO:0042734)	calcium channel regulator activity (GO:0005246)|G-protein coupled receptor activity (GO:0004930)|glutamate receptor activity (GO:0008066)|group II metabotropic glutamate receptor activity (GO:0001641)			breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|liver(1)|lung(11)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	33				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GACTCTGGACACCAGCCTCAT	0.627																																																0													61	51	54					3																	51749233		2203	4300	6503	SO:0001583	missense	2912			L35318	CCDS2834.1	3p21.2	2013-09-20			ENSG00000164082	ENSG00000164082		"GPCR / Class C : Glutamate receptors, metabotropic", "Glutamate receptors"	4594	protein-coding gene	gene with protein product		604099				7620613	Standard	NM_000839		Approved	GPRC1B, mGlu2, MGLUR2	uc010hlv.3	Q14416	OTTHUMG00000156902	ENST00000395052.3:c.1444A>C	3.37:g.51749233A>C	ENSP00000378492:p.Thr482Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B0M0K7|Q14CU5|Q52MC6|Q9H3N6	Missense_Mutation	SNP	ENST00000395052.3	37	CCDS2834.1	.	.	.	.	.	.	.	.	.	.	A	12.49	1.954193	0.34471	.	.	ENSG00000164082	ENST00000395052	D	0.88201	-2.35	4.95	0.946	0.19549	.	0.053035	0.85682	D	0.000000	T	0.76378	0.3979	N	0.19112	0.55	0.80722	D	1	B	0.02656	0.0	B	0.04013	0.001	T	0.62714	-0.6796	10	0.31617	T	0.26	.	6.0978	0.20031	0.716:0.1364:0.1476:0.0	.	482	Q14416	GRM2_HUMAN	P	482	ENSP00000378492:T482P	ENSP00000378492:T482P	T	+	1	0	GRM2	51724273	1.000000	0.71417	0.997000	0.53966	0.985000	0.73830	3.038000	0.49783	0.337000	0.23665	0.379000	0.24179	ACC		0.627	GRM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346542.1			C	51749233	A	C	51749233	3	2	577	1	0	0	0	0	1	0	0	0	6804	159	6	5	1454	5	GRM2	3	51749233	Missense_Mutation	SNP	A	TCGA-DZ-6134-01A-11D-1961-08		51749233	146273197	13	34269										
PIK3CA	5290	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	178936082	178936082	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ctacacgagatcctctctctGaaatcactgagcaggagaaa	8	11	3	4	rs121913273		TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr3:178936082G>A	ENST00000263967.3	+	10	1781	c.1624G>A	c.(1624-1626)Gaa>Aaa	p.E542K		NM_006218.2	NP_006209.2	P42336	PK3CA_HUMAN	phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit alpha	542	PIK helical. {ECO:0000255|PROSITE- ProRule:PRU00878}.		E -> K (in CLOVE, KERSEB, CRC and BC; also found in glioblastoma multiforme and endometrial carcinoma; shows an increase in lipid kinase activity; oncogenic in vivo; occurs in the interface between the PI3K helical domain and the nSH2 (N- terminal SH2) region of the p85 regulatory subunit and may reduce the inhibitory effect of p85; requires interaction with RAS to induce cellular transformation). {ECO:0000269|PubMed:15289301, ECO:0000269|PubMed:15784156, ECO:0000269|PubMed:15924253, ECO:0000269|PubMed:15994075, ECO:0000269|PubMed:16322209, ECO:0000269|PubMed:16353168, ECO:0000269|PubMed:16533766, ECO:0000269|PubMed:17673550, ECO:0000269|PubMed:22658544}.|E -> Q (found in an endometrial carcinoma sample; unknown pathological significance). {ECO:0000269|PubMed:16322209}.|E -> V (in BC; unknown pathological significance). {ECO:0000269|PubMed:16353168}.		angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|endothelial cell migration (GO:0043542)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|glucose metabolic process (GO:0006006)|hypomethylation of CpG island (GO:0044029)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|insulin receptor signaling pathway via phosphatidylinositol 3-kinase (GO:0038028)|leukocyte migration (GO:0050900)|negative regulation of anoikis (GO:2000811)|negative regulation of fibroblast apoptotic process (GO:2000270)|negative regulation of neuron apoptotic process (GO:0043524)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol phosphorylation (GO:0046854)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet activation (GO:0030168)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|protein kinase B signaling (GO:0043491)|regulation of genetic imprinting (GO:2000653)|regulation of multicellular organism growth (GO:0040014)|small molecule metabolic process (GO:0044281)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)|vasculature development (GO:0001944)	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex (GO:0005943)|cytosol (GO:0005829)|lamellipodium (GO:0030027)|phosphatidylinositol 3-kinase complex (GO:0005942)|plasma membrane (GO:0005886)	1-phosphatidylinositol-3-kinase activity (GO:0016303)|1-phosphatidylinositol-4-phosphate 3-kinase activity (GO:0035005)|ATP binding (GO:0005524)|kinase activity (GO:0016301)|phosphatidylinositol 3-kinase activity (GO:0035004)|phosphatidylinositol-4,5-bisphosphate 3-kinase activity (GO:0046934)|protein kinase activator activity (GO:0030295)|protein serine/threonine kinase activity (GO:0004674)	p.E542K(545)|p.E542Q(10)		NS(16)|autonomic_ganglia(4)|biliary_tract(22)|bone(1)|breast(2150)|central_nervous_system(110)|cervix(33)|endometrium(473)|eye(1)|haematopoietic_and_lymphoid_tissue(35)|kidney(14)|large_intestine(1202)|liver(42)|lung(202)|meninges(1)|oesophagus(28)|ovary(235)|pancreas(17)|penis(8)|pituitary(12)|prostate(10)|skin(155)|small_intestine(1)|soft_tissue(18)|stomach(121)|thyroid(80)|upper_aerodigestive_tract(70)|urinary_tract(208)	5269	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)		Caffeine(DB00201)	TCCTCTCTCTGAAATCACTGA	0.333	E542K(BT483_BREAST)|E542K(CAL51_BREAST)|E542K(HGC27_STOMACH)|E542K(IM95_STOMACH)|E542K(JHUEM1_ENDOMETRIUM)|E542K(NCIH1341_LUNG)|E542K(SW948_LARGE_INTESTINE)|E542K(T84_LARGE_INTESTINE)|E542K(VMCUB1_URINARY_TRACT)	57	Mis		"colorectal, gastric, gliobastoma, breast"					HNSCC(19;0.045)|TSP Lung(28;0.18)																											Colon(199;1504 1750 3362 26421 31210 32040)		Dom	yes		3	3q26.3	5290	"phosphoinositide-3-kinase, catalytic, alpha polypeptide"		"E, O"	555	Substitution - Missense(555)	breast(176)|large_intestine(166)|urinary_tract(45)|endometrium(37)|skin(19)|lung(18)|stomach(16)|ovary(16)|thyroid(14)|upper_aerodigestive_tract(9)|central_nervous_system(7)|cervix(6)|liver(6)|oesophagus(5)|penis(4)|kidney(3)|soft_tissue(2)|haematopoietic_and_lymphoid_tissue(2)|prostate(2)|biliary_tract(1)|pituitary(1)											56	56	56					3																	178936082		1809	4069	5878	SO:0001583	missense	5290				CCDS43171.1	3q26.3	2014-09-17	2012-07-13		ENSG00000121879	ENSG00000121879	2.7.1.153		8975	protein-coding gene	gene with protein product		171834	"phosphoinositide-3-kinase, catalytic, alpha polypeptide"			1322797	Standard	NM_006218		Approved	PI3K	uc003fjk.3	P42336	OTTHUMG00000157311	ENST00000263967.3:c.1624G>A	3.37:g.178936082G>A	ENSP00000263967:p.Glu542Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q14CW1|Q99762	Missense_Mutation	SNP	ENST00000263967.3	37	CCDS43171.1	.	.	.	.	.	.	.	.	.	.	G	34	5.360420	0.95877	.	.	ENSG00000121879	ENST00000263967	T	0.62105	0.05	5.78	5.78	0.91487	Phosphoinositide 3-kinase, accessory (PIK) domain (3);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.69287	0.3094	L	0.41356	1.27	0.80722	D	1	D	0.65815	0.995	D	0.63192	0.912	T	0.60296	-0.7291	10	0.09843	T	0.71	-23.9623	20.0024	0.97423	0.0:0.0:1.0:0.0	.	542	P42336	PK3CA_HUMAN	K	542	ENSP00000263967:E542K	ENSP00000263967:E542K	E	+	1	0	PIK3CA	180418776	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	9.476000	0.97823	2.722000	0.93159	0.467000	0.42956	GAA		0.333	PIK3CA-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000348409.2			A	178936082	G	A	178936082	3	1	577	1	0	0	0	0	1	0	0	0	11920	1291	45	2	1658	2	PIK3CA	3	178936082	Missense_Mutation	SNP	G	TCGA-DZ-6134-01A-11D-1961-08	127186849	178936082	19086348	14	34270										
HTT	3064	broad.mit.edu	37	chr4	3076604	3076609	+	In_Frame_Del	DEL	CAGCAG	CAGCAG	-													0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	tcgagtccctcaagtccttcCagcagcagcagcagcagcag					rs71180116|rs374076986	byFrequency	TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	CAGCAG	CAGCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr4:3076604_3076609delCAGCAG	ENST00000355072.5	+	1	197_202	c.52_57delCAGCAG	c.(52-57)cagcagdel	p.QQ36del	HTT-AS_ENST00000503893.1_RNA	NM_002111.6	NP_002102	P42858	HD_HUMAN	huntingtin	36	Poly-Gln.				anterior/posterior pattern specification (GO:0009952)|axon cargo transport (GO:0008088)|cell aging (GO:0007569)|citrulline metabolic process (GO:0000052)|determination of adult lifespan (GO:0008340)|dopamine receptor signaling pathway (GO:0007212)|endoplasmic reticulum organization (GO:0007029)|endosomal transport (GO:0016197)|ER to Golgi vesicle-mediated transport (GO:0006888)|establishment of mitotic spindle orientation (GO:0000132)|Golgi organization (GO:0007030)|grooming behavior (GO:0007625)|hormone metabolic process (GO:0042445)|insulin secretion (GO:0030073)|iron ion homeostasis (GO:0055072)|L-glutamate import (GO:0051938)|lactate biosynthetic process from pyruvate (GO:0019244)|locomotory behavior (GO:0007626)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of neuron apoptotic process (GO:0043524)|neural plate formation (GO:0021990)|neuron apoptotic process (GO:0051402)|neuron development (GO:0048666)|olfactory lobe development (GO:0021988)|organ development (GO:0048513)|paraxial mesoderm formation (GO:0048341)|positive regulation of inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0031587)|protein import into nucleus (GO:0006606)|quinolinate biosynthetic process (GO:0019805)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane potential (GO:0051881)|regulation of protein phosphatase type 2A activity (GO:0034047)|regulation of synaptic plasticity (GO:0048167)|response to calcium ion (GO:0051592)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)|social behavior (GO:0035176)|spermatogenesis (GO:0007283)|striatum development (GO:0021756)|urea cycle (GO:0000050)|vesicle transport along microtubule (GO:0047496)|visual learning (GO:0008542)	autophagic vacuole (GO:0005776)|axon (GO:0030424)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|inclusion body (GO:0016234)|late endosome (GO:0005770)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|protein complex (GO:0043234)	beta-tubulin binding (GO:0048487)|diazepam binding (GO:0050809)|dynactin binding (GO:0034452)|dynein intermediate chain binding (GO:0045505)|identical protein binding (GO:0042802)|ion channel binding (GO:0044325)|p53 binding (GO:0002039)|transcription factor binding (GO:0008134)			breast(1)|cervix(2)|endometrium(14)|kidney(5)|large_intestine(23)|lung(28)|ovary(4)|prostate(2)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	87		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		CAAGTCCTTCcagcagcagcagcagc	0.704														1892	0.377796	0.0741	0.3343	5008	,	,		6929	0.7421		0.327	False		,,,				2504	0.4959															0										33,28,149		16,0,1,14,0,74						2.6	1		dbSNP_119	4	239,82,669		114,3,8,38,3,329	no	codingComplex	HTT	NM_002111.6		130,3,9,52,3,403	A1A1,A1A2,A1R,A2A2,A2R,RR		32.4242,29.0476,31.8333				272,110,818				SO:0001651	inframe_deletion	3064			L12392	CCDS43206.1	4p16.3	2014-09-17	2007-12-04	2007-12-04	ENSG00000197386	ENSG00000197386		"Endogenous ligands"	4851	protein-coding gene	gene with protein product		613004	"huntingtin (Huntington disease)"	HD		8458085	Standard	NM_002111		Approved	IT15	uc021xkv.1	P42858	OTTHUMG00000159916	ENST00000355072.5:c.52_57delCAGCAG	4.37:g.3076610_3076615delCAGCAG	ENSP00000347184:p.Gln36_Gln37del	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UQB7	In_Frame_Del	DEL	ENST00000355072.5	37	CCDS43206.1																																																																																				0.704	HTT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358234.2	NM_002111		-	3076609	CAGCAG	-	3076604	7	5	577	1	0	1	0	1	0	0	0	0	7464	595	21	0	54	0	HTT	4	3076604	In_Frame_Del	DEL	CAGCAG	TCGA-DZ-6134-01A-11D-1961-08		3076604	188077672	15	34271										
PCDHB10	56126	broad.mit.edu	37	chr5	140573732	140573732	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ccgcgtgggcgccacagaccGcggctcccccgcgctgagca	14	19	0	2	rs17844579		TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr5:140573732G>A	ENST00000239446.4	+	1	1791	c.1607G>A	c.(1606-1608)cGc>cAc	p.R536H		NM_018930.3	NP_061753.1	Q9UN67	PCDBA_HUMAN	protocadherin beta 10	536	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(14)|lung(30)|ovary(4)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	76			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCCACAGACCGCGGCTCCCCC	0.682																																																0													52	70	64					5																	140573732		2203	4298	6501	SO:0001583	missense	56126			AF152489	CCDS4252.1	5q31.3	2010-06-15			ENSG00000120324	ENSG00000120324		"Cadherins / Protocadherins : Clustered"	8681	other	protocadherin		606336				10380929	Standard	NM_018930		Approved		uc003lix.3	Q9UN67	OTTHUMG00000129626	ENST00000239446.4:c.1607G>A	5.37:g.140573732G>A	ENSP00000239446:p.Arg536His	Somatic		WXS	Illumina HiSeq	Phase_I	Q96T99	Missense_Mutation	SNP	ENST00000239446.4	37	CCDS4252.1	.	.	.	.	.	.	.	.	.	.	g	9.720	1.159514	0.21454	.	.	ENSG00000120324	ENST00000239446	T	0.01745	4.66	3.53	2.55	0.30701	Cadherin (4);Cadherin-like (1);	.	.	.	.	T	0.01189	0.0039	N	0.11789	0.175	0.09310	N	1	B	0.29481	0.245	B	0.27715	0.082	T	0.49173	-0.8967	9	0.44086	T	0.13	.	3.8548	0.08971	0.2488:0.2797:0.4715:0.0	rs17844579	536	Q9UN67	PCDBA_HUMAN	H	536	ENSP00000239446:R536H	ENSP00000239446:R536H	R	+	2	0	PCDHB10	140553916	0.000000	0.05858	0.964000	0.40570	0.903000	0.53119	-0.301000	0.08232	0.821000	0.34540	0.549000	0.68633	CGC		0.682	PCDHB10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251821.1	NM_018930		A	140573732	G	A	140573732	3	1	577	1	0	0	0	0	1	0	0	0	11542	1087	38	1	1609	1	PCDHB10	5	140573732	Missense_Mutation	SNP	G	TCGA-DZ-6134-01A-11D-1961-08		140573732	40341528	16	34272										
GFPT2	9945	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	179751868	179751868	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	gagagcttgtatttgctccgGactccgatgagcagggggct	15	9	0	2			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr5:179751868G>A	ENST00000253778.8	-	8	793	c.624C>T	c.(622-624)gtC>gtT	p.V208V	GFPT2_ENST00000520165.1_5'Flank	NM_005110.2	NP_005101.1	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	208	Glutamine amidotransferase type-2. {ECO:0000255|PROSITE-ProRule:PRU00609}.				carbohydrate biosynthetic process (GO:0016051)|cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|energy reserve metabolic process (GO:0006112)|fructose 6-phosphate metabolic process (GO:0006002)|glutamine metabolic process (GO:0006541)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)|UDP-N-acetylglucosamine biosynthetic process (GO:0006048)	cytosol (GO:0005829)	carbohydrate binding (GO:0030246)|glutamine-fructose-6-phosphate transaminase (isomerizing) activity (GO:0004360)			breast(1)|central_nervous_system(2)|kidney(2)|large_intestine(9)|lung(12)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	34	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)	ATTTGCTCCGGACTCCGATGA	0.542																																																0													96	104	101					5																	179751868		1961	4154	6115	SO:0001819	synonymous_variant	9945			AB016789	CCDS43411.1	5q	2008-07-18			ENSG00000131459	ENSG00000131459			4242	protein-coding gene	gene with protein product	"glutamine: fructose-6-phosphate aminotransferase 2"	603865				10198162	Standard	NM_005110		Approved	GFAT2	uc003mlw.1	O94808	OTTHUMG00000163442	ENST00000253778.8:c.624C>T	5.37:g.179751868G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q53XM2|Q9BWS4	Silent	SNP	ENST00000253778.8	37	CCDS43411.1																																																																																				0.542	GFPT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373444.4	NM_005110		A	179751868	G	A	179751868	2	1	577	1	0	0	0	0	0	0	0	1	6353	1161	41	2		2	GFPT2	5	179751868	Silent	SNP	G	TCGA-DZ-6134-01A-11D-1961-08	39178136	179751868	1163392	17	34273										
GRM4	2914	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	34059742	34059742	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	gccactgtggacacatagttCcacttgagggcacggacgat	12	11	0	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr6:34059742C>T	ENST00000538487.2	-	3	1097	c.654G>A	c.(652-654)tgG>tgA	p.W218*	GRM4_ENST00000544773.2_Nonsense_Mutation_p.W49*|GRM4_ENST00000374181.4_Nonsense_Mutation_p.W218*|GRM4_ENST00000455714.2_Nonsense_Mutation_p.W78*|GRM4_ENST00000609222.1_Nonsense_Mutation_p.W85*|GRM4_ENST00000535756.1_Nonsense_Mutation_p.W85*|GRM4_ENST00000374177.3_Nonsense_Mutation_p.W149*	NM_000841.2|NM_001256811.1	NP_000832.1|NP_001243740.1	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4	218					activation of MAPK activity (GO:0000187)|adenylate cyclase-inhibiting G-protein coupled glutamate receptor signaling pathway (GO:0007196)|learning (GO:0007612)|neurotransmitter secretion (GO:0007269)|positive regulation of MAPK cascade (GO:0043410)|regulation of neuron apoptotic process (GO:0043523)|regulation of synaptic transmission, glutamatergic (GO:0051966)|synaptic transmission (GO:0007268)	cytoplasmic vesicle (GO:0031410)|dendritic shaft (GO:0043198)|integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|presynaptic active zone membrane (GO:0048787)|presynaptic membrane (GO:0042734)|terminal bouton (GO:0043195)	G-protein coupled receptor activity (GO:0004930)|glutamate receptor activity (GO:0008066)|group III metabotropic glutamate receptor activity (GO:0001642)			NS(1)|breast(1)|endometrium(4)|kidney(4)|large_intestine(9)|liver(1)|lung(19)|ovary(1)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	48						ACACATAGTTCCACTTGAGGG	0.617																																																0													101	71	81					6																	34059742		2203	4300	6503	SO:0001587	stop_gained	2914			U92457	CCDS4787.1, CCDS59010.1, CCDS59011.1, CCDS59012.1, CCDS75432.1	6p21.3	2012-08-29			ENSG00000124493	ENSG00000124493		"GPCR / Class C : Glutamate receptors, metabotropic", "Glutamate receptors"	4596	protein-coding gene	gene with protein product		604100				8738157, 9473604	Standard	NM_000841		Approved	GPRC1D, mGlu4, MGLUR4	uc010jvh.4	Q14833	OTTHUMG00000014538	ENST00000538487.2:c.654G>A	6.37:g.34059742C>T	ENSP00000440556:p.Trp218*	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVL9|B7Z1T9|B7Z1U6|F5GXM5|Q5SZ84|Q6ZMQ2	Nonsense_Mutation	SNP	ENST00000538487.2	37	CCDS4787.1	.	.	.	.	.	.	.	.	.	.	C	37	6.085596	0.97271	.	.	ENSG00000124493	ENST00000374181;ENST00000374177;ENST00000535756;ENST00000544773;ENST00000538487;ENST00000455714	.	.	.	4.07	4.07	0.47477	.	0.000000	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	16.4078	0.83697	0.0:1.0:0.0:0.0	.	.	.	.	X	218;149;85;49;218;78	.	ENSP00000363292:W149X	W	-	3	0	GRM4	34167720	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	7.647000	0.83462	2.080000	0.62538	0.561000	0.74099	TGG		0.617	GRM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040213.2			T	34059742	C	T	34059742	4	4	577	1	0	0	0	0	0	1	0	0	6806	856	30	2	2120	2	GRM4	6	34059742	Nonsense_Mutation	SNP	C	TCGA-DZ-6134-01A-11D-1961-08		34059742	137055325	18	34274										
CRIP3	401262	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	43275462	43275462	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ggattgtacaagtaggagccTacaccaccaatgttcacccc	8	13	1	0			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr6:43275462T>C	ENST00000274990.4	-	4	220	c.216A>G	c.(214-216)gtA>gtG	p.V72V	ZNF318_ENST00000607252.1_5'UTR|CRIP3_ENST00000372569.3_Silent_p.V72V			Q6Q6R5	CRIP3_HUMAN	cysteine-rich protein 3	72					T cell proliferation (GO:0042098)	cytoplasm (GO:0005737)	zinc ion binding (GO:0008270)			endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	10			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00998)|OV - Ovarian serous cystadenocarcinoma(102;0.0305)			AGTAGGAGCCTACACCACCAA	0.627																																																0													45	48	47					6																	43275462		2203	4300	6503	SO:0001819	synonymous_variant	401262			AY555741	CCDS4894.2	6p21	2008-02-05			ENSG00000146215	ENSG00000146215			17751	protein-coding gene	gene with protein product						15380775	Standard	NM_206922		Approved	TLP-A, bA480N24.2, TLP	uc003ouu.1	Q6Q6R5	OTTHUMG00000014727	ENST00000274990.4:c.216A>G	6.37:g.43275462T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2A436|Q5T043|Q6Q6R4|Q6Q6R6|Q6Q6R7	Silent	SNP	ENST00000274990.4	37		.	.	.	.	.	.	.	.	.	.	T	7.040	0.562412	0.13498	.	.	ENSG00000146215	ENST00000416431	.	.	.	5.52	3.63	0.41609	.	.	.	.	.	T	0.33323	0.0859	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.30592	-0.9973	4	.	.	.	-35.039	4.1803	0.10372	0.1604:0.5979:0.1554:0.0862	.	.	.	.	G	20	.	.	R	-	1	2	CRIP3	43383440	0.290000	0.24343	1.000000	0.80357	0.744000	0.42396	-0.819000	0.04462	1.470000	0.48102	-0.132000	0.14878	AGG		0.627	CRIP3-004	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000313968.1			C	43275462	T	C	43275462	2	2	577	1	0	0	0	0	0	0	0	1	3878	1509	53	3		3	CRIP3	6	43275462	Silent	SNP	T	TCGA-DZ-6134-01A-11D-1961-08	9215720	43275462	127839605	19	34275										
ZNF679	168417	broad.mit.edu	37	chr7	63720697	63720697	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ttatatagagatgtgatgttAgagaactacagaaacctggt	10	4	0	4			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr7:63720697A>G	ENST00000421025.1	+	3	407	c.138A>G	c.(136-138)ttA>ttG	p.L46L	ZNF679_ENST00000255746.4_Silent_p.L46L	NM_001159524.1|NM_153363.2	NP_001152996.1|NP_699194.2	Q8IYX0	ZN679_HUMAN	zinc finger protein 679	46	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(2)|kidney(3)|lung(11)|skin(1)|stomach(1)	18						ATGTGATGTTAGAGAACTACA	0.378																																																0													47	42	44					7																	63720697		692	1591	2283	SO:0001819	synonymous_variant	168417			BC033523	CCDS47592.1	7q11.21	2013-01-08			ENSG00000197123	ENSG00000197123		"Zinc fingers, C2H2-type", "-"	28650	protein-coding gene	gene with protein product	"hypothetical protein MGC42415"					12477932	Standard	NM_153363		Approved	MGC42415	uc003tsx.3	Q8IYX0	OTTHUMG00000156486	ENST00000421025.1:c.138A>G	7.37:g.63720697A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000421025.1	37	CCDS47592.1																																																																																				0.378	ZNF679-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344317.2	NM_153363		G	63720697	A	G	63720697	2	3	577	1	0	0	0	0	0	0	0	1	18098	417	15	3		3	ZNF679	7	63720697	Silent	SNP	A	TCGA-DZ-6134-01A-11D-1961-08		63720697	95417966	20	34276										
FZD1	8321	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	90894779	90894779	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ctccctgtgcgagcgcgcgcGccagggctgcgaggcgctca	16	16	1	0			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr7:90894779G>A	ENST00000287934.2	+	1	997	c.584G>A	c.(583-585)cGc>cAc	p.R195H		NM_003505.1	NP_003496.1	Q9UP38	FZD1_HUMAN	frizzled class receptor 1	195	FZ. {ECO:0000255|PROSITE- ProRule:PRU00090}.				autocrine signaling (GO:0035425)|axonogenesis (GO:0007409)|brain development (GO:0007420)|canonical Wnt signaling pathway (GO:0060070)|canonical Wnt signaling pathway involved in mesenchymal stem cell differentiation (GO:0044338)|canonical Wnt signaling pathway involved in osteoblast differentiation (GO:0044339)|cell-cell signaling (GO:0007267)|epithelial cell differentiation (GO:0030855)|G-protein coupled receptor signaling pathway coupled to cGMP nucleotide second messenger (GO:0007199)|gonad development (GO:0008406)|hard palate development (GO:0060022)|lung alveolus development (GO:0048286)|membranous septum morphogenesis (GO:0003149)|muscular septum morphogenesis (GO:0003150)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of catenin import into nucleus (GO:0035414)|negative regulation of transcription, DNA-templated (GO:0045892)|neuron differentiation (GO:0030182)|outflow tract morphogenesis (GO:0003151)|planar cell polarity pathway involved in neural tube closure (GO:0090179)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription, DNA-templated (GO:0045893)|response to drug (GO:0042493)|vasculature development (GO:0001944)|Wnt signaling pathway, calcium modulating pathway (GO:0007223)	apical part of cell (GO:0045177)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|neuron projection membrane (GO:0032589)|plasma membrane (GO:0005886)	frizzled binding (GO:0005109)|G-protein coupled receptor activity (GO:0004930)|PDZ domain binding (GO:0030165)|receptor binding (GO:0005102)|Wnt-activated receptor activity (GO:0042813)|Wnt-protein binding (GO:0017147)			breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(4)|liver(1)|lung(7)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	24	all_cancers(62;3.1e-10)|all_epithelial(64;1.66e-08)|Breast(17;0.000635)|Lung NSC(181;0.153)|all_lung(186;0.154)|all_hematologic(106;0.215)		STAD - Stomach adenocarcinoma(171;0.0134)			GAGCGCGCGCGCCAGGGCTGC	0.672																																																0													52	58	56					7																	90894779		2199	4299	6498	SO:0001583	missense	8321			AB017363	CCDS5620.1	7q21	2014-01-29	2014-01-29		ENSG00000157240	ENSG00000157240		"GPCR / Class F : Frizzled receptors"	4038	protein-coding gene	gene with protein product	"Wnt receptor", "frizzled, Drosophila, homolog of, 1"	603408	"frizzled (Drosophila) homolog 1", "frizzled homolog 1 (Drosophila)", "frizzled 1, seven transmembrane spanning receptor", "frizzled family receptor 1"			9813155	Standard	NM_003505		Approved	DKFZp564G072	uc003ula.3	Q9UP38	OTTHUMG00000023046	ENST00000287934.2:c.584G>A	7.37:g.90894779G>A	ENSP00000287934:p.Arg195His	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1E8|O94815|Q549T8	Missense_Mutation	SNP	ENST00000287934.2	37	CCDS5620.1	.	.	.	.	.	.	.	.	.	.	G	28.6	4.936514	0.92458	.	.	ENSG00000157240	ENST00000287934	T	0.76839	-1.05	4.69	4.69	0.59074	Frizzled domain (5);	0.000000	0.64402	D	0.000003	D	0.90407	0.6997	H	0.94542	3.55	0.80722	D	1	D	0.65815	0.995	P	0.61132	0.884	D	0.93351	0.6718	10	0.87932	D	0	.	17.7914	0.88553	0.0:0.0:1.0:0.0	.	195	Q9UP38	FZD1_HUMAN	H	195	ENSP00000287934:R195H	ENSP00000287934:R195H	R	+	2	0	FZD1	90732715	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	6.543000	0.73874	2.430000	0.82344	0.561000	0.74099	CGC		0.672	FZD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059367.2	NM_003505		A	90894779	G	A	90894779	3	1	577	1	0	0	0	0	1	0	0	0	6135	1087	38	1	586	1	FZD1	7	90894779	Missense_Mutation	SNP	G	TCGA-DZ-6134-01A-11D-1961-08	27174082	90894779	68243884	21	34277										
PTCD1	26024	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	99022814	99022814	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	gagaccactgtagggggaacGgccccgggggtcaggaggtt	19	9	1	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr7:99022814G>A	ENST00000292478.4	-	6	1591	c.1341C>T	c.(1339-1341)gcC>gcT	p.A447A	ATP5J2-PTCD1_ENST00000413834.1_Silent_p.A496A|PTCD1_ENST00000555673.1_Silent_p.A496A	NM_015545.3	NP_056360.2	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	447					tRNA 3'-end processing (GO:0042780)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	poly(A) RNA binding (GO:0044822)|tRNA binding (GO:0000049)			endometrium(5)|large_intestine(3)|lung(16)|ovary(2)|skin(1)	27	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)			TAGGGGGAACGGCCCCGGGGG	0.647																																																0													58	61	60					7																	99022814		2203	4300	6503	SO:0001819	synonymous_variant	100526740			AB014532	CCDS34691.1	7q22.1	2006-01-27				ENSG00000106246			22198	protein-coding gene	gene with protein product		614774					Standard	NM_015545		Approved	KIAA0632		O75127		ENST00000292478.4:c.1341C>T	7.37:g.99022814G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q3ZB78|Q66K60|Q9UDV2	Silent	SNP	ENST00000292478.4	37	CCDS34691.1																																																																																				0.647	PTCD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336391.1	NM_015545		A	99022814	G	A	99022814	2	1	577	1	0	0	0	0	0	0	0	1	12737	1103	39	1		1	PTCD1	7	99022814	Silent	SNP	G	TCGA-DZ-6134-01A-11D-1961-08	8128035	99022814	60115849	22	34278										
ZCWPW1	55063	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	100016757	100016757	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	agcactcctgaagggacttcTgcagaacaatctggacaatc	9	11	2	2			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr7:100016757T>C	ENST00000398027.2	-	5	585	c.338A>G	c.(337-339)cAg>cGg	p.Q113R	ZCWPW1_ENST00000360951.4_Missense_Mutation_p.Q113R|ZCWPW1_ENST00000490721.1_5'UTR|ZCWPW1_ENST00000324725.6_5'UTR	NM_017984.4	NP_060454.3	Q9H0M4	ZCPW1_HUMAN	zinc finger, CW type with PWWP domain 1	113							zinc ion binding (GO:0008270)			breast(1)|kidney(1)|large_intestine(5)|lung(6)|ovary(1)|prostate(1)|skin(1)	16	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AAGGGACTTCTGCAGAACAAT	0.438																																																0													167	155	159					7																	100016757		1886	4103	5989	SO:0001583	missense	55063			AK000919	CCDS43623.1, CCDS59067.1	7q22.1	2012-02-10	2004-11-03		ENSG00000078487	ENSG00000078487			23486	protein-coding gene	gene with protein product			"zinc finger, CW-type with PWWP domain 1"			11230166, 14607086, 20826339	Standard	NM_017984		Approved	FLJ10057, DKFZp434N0510, ZCW1	uc003uut.4	Q9H0M4	OTTHUMG00000159537	ENST00000398027.2:c.338A>G	7.37:g.100016757T>C	ENSP00000381109:p.Gln113Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8MVF5|B4DUQ2|Q8NA98|Q9BUD0|Q9NWF7	Missense_Mutation	SNP	ENST00000398027.2	37	CCDS43623.1	.	.	.	.	.	.	.	.	.	.	T	12.12	1.841227	0.32513	.	.	ENSG00000078487	ENST00000398027;ENST00000360951;ENST00000379559	T;T	0.48522	0.82;0.81	5.59	-7.95	0.01148	.	0.871285	0.09674	N	0.770768	T	0.26195	0.0639	N	0.17474	0.49	0.80722	D	1	B;B;B;B	0.12630	0.006;0.002;0.001;0.005	B;B;B;B	0.16722	0.016;0.002;0.001;0.003	T	0.13575	-1.0504	9	.	.	.	0.2273	13.8447	0.63459	0.0:0.5835:0.0:0.4165	.	113;113;113;113	B4E3W9;B4DUQ2;C9J435;Q9H0M4	.;.;.;ZCPW1_HUMAN	R	113	ENSP00000381109:Q113R;ENSP00000354210:Q113R	.	Q	-	2	0	ZCWPW1	99854693	0.208000	0.23494	0.873000	0.34254	0.986000	0.74619	-1.340000	0.02650	-1.437000	0.01967	-0.376000	0.06991	CAG		0.438	ZCWPW1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000356083.1	NM_017984		C	100016757	T	C	100016757	3	2	577	1	0	0	0	0	1	0	0	0	17609	1580	55	3	1664	3	ZCWPW1	7	100016757	Missense_Mutation	SNP	T	TCGA-DZ-6134-01A-11D-1961-08	993943	100016757	59121906	23	34279										
SERPINE1	5054	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	100780346	100780346	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	gacagacccttcctctttgtGgtccggcacaaccccacagg	9	16	1	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr7:100780346G>C	ENST00000223095.4	+	8	1309	c.1152G>C	c.(1150-1152)gtG>gtC	p.V384V	SERPINE1_ENST00000445463.2_Silent_p.V369V	NM_000602.4	NP_000593.1	P05121	PAI1_HUMAN	serpin peptidase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 1	384					angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|cellular response to lipopolysaccharide (GO:0071222)|chronological cell aging (GO:0001300)|defense response to Gram-negative bacterium (GO:0050829)|extracellular matrix organization (GO:0030198)|fibrinolysis (GO:0042730)|gene expression (GO:0010467)|negative regulation of blood coagulation (GO:0030195)|negative regulation of cell adhesion mediated by integrin (GO:0033629)|negative regulation of cell migration (GO:0030336)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|negative regulation of fibrinolysis (GO:0051918)|negative regulation of plasminogen activation (GO:0010757)|negative regulation of smooth muscle cell migration (GO:0014912)|negative regulation of smooth muscle cell-matrix adhesion (GO:2000098)|negative regulation of vascular wound healing (GO:0061044)|negative regulation of wound healing (GO:0061045)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of angiogenesis (GO:0045766)|positive regulation of blood coagulation (GO:0030194)|positive regulation of inflammatory response (GO:0050729)|positive regulation of interleukin-8 production (GO:0032757)|positive regulation of leukotriene production involved in inflammatory response (GO:0035491)|positive regulation of monocyte chemotaxis (GO:0090026)|positive regulation of receptor-mediated endocytosis (GO:0048260)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of cell proliferation (GO:0042127)|regulation of receptor activity (GO:0010469)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)|platelet alpha granule lumen (GO:0031093)	protease binding (GO:0002020)|serine-type endopeptidase inhibitor activity (GO:0004867)			central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(4)|lung(4)|ovary(1)|prostate(3)	20	Lung NSC(181;0.136)|all_lung(186;0.182)				Alteplase(DB00009)|Anistreplase(DB00029)|Drotrecogin alfa(DB00055)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)	TCCTCTTTGTGGTCCGGCACA	0.552																																																0													139	117	125					7																	100780346		2203	4300	6503	SO:0001819	synonymous_variant	5054			M16006	CCDS5711.1	7q22.1	2014-02-18	2005-08-18		ENSG00000106366	ENSG00000106366		"Serine (or cysteine) peptidase inhibitors"	8583	protein-coding gene	gene with protein product	"plasminogen activator inhibitor, type I"	173360	"serine (or cysteine) proteinase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 1"	PLANH1, PAI1		3097076, 2891140, 24172014	Standard	NM_000602		Approved	PAI	uc003uxt.4	P05121	OTTHUMG00000157107	ENST00000223095.4:c.1152G>C	7.37:g.100780346G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z4S0|F8WD53	Silent	SNP	ENST00000223095.4	37	CCDS5711.1																																																																																				0.552	SERPINE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347458.1	NM_000602		C	100780346	G	C	100780346	2	2	577	1	0	0	0	0	0	0	0	1	14124	1335	47	4		4	SERPINE1	7	100780346	Silent	SNP	G	TCGA-DZ-6134-01A-11D-1961-08	763589	100780346	58358317	24	34280										
SLC26A5	375611	broad.mit.edu;bcgsc.ca	37	chr7	103017286	103017286	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	gctaagtatacatatataccGacgtctccatattcttttac	4	10	2	0	rs372287716		TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr7:103017286G>T	ENST00000306312.3	-	19	2271	c.2010C>A	c.(2008-2010)gtC>gtA	p.V670V	SLC26A5_ENST00000432958.2_Silent_p.V638V|SLC26A5_ENST00000339444.6_Silent_p.V670V|SLC26A5_ENST00000393735.2_Intron|SLC26A5_ENST00000393727.1_Silent_p.V672V|SLC26A5_ENST00000356767.4_Intron|SLC26A5_ENST00000354356.4_Silent_p.V103V|SLC26A5_ENST00000393723.1_Silent_p.V640V|SLC26A5_ENST00000393730.1_Silent_p.V638V|SLC26A5_ENST00000393729.1_Silent_p.V633V	NM_198999.2	NP_945350.1	P58743	S26A5_HUMAN	solute carrier family 26 (anion exchanger), member 5	670	STAS. {ECO:0000255|PROSITE- ProRule:PRU00198}.				regulation of cell shape (GO:0008360)|regulation of membrane potential (GO:0042391)|sensory perception of sound (GO:0007605)	basolateral plasma membrane (GO:0016323)|integral component of membrane (GO:0016021)|lateral plasma membrane (GO:0016328)	secondary active sulfate transmembrane transporter activity (GO:0008271)			endometrium(5)|kidney(2)|large_intestine(9)|lung(15)|ovary(1)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(5)	43						CATATATACCGACGTCTCCAT	0.308																																																0													110	113	112					7																	103017286		2203	4295	6498	SO:0001819	synonymous_variant	375611			AC005064	CCDS5733.1, CCDS43630.1, CCDS55150.1, CCDS5732.1, CCDS43629.1	7q22	2013-07-18	2013-07-18	2005-09-13	ENSG00000170615	ENSG00000170615		"Solute carriers"	9359	protein-coding gene	gene with protein product	"deafness, neurosensory, autosomal recessive, 61"	604943	"prestin (motor protein)"	PRES		10821263	Standard	NM_206883		Approved	DFNB61	uc003vbz.3	P58743	OTTHUMG00000149911	ENST00000306312.3:c.2010C>A	7.37:g.103017286G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q496J2|Q7Z7F3|Q86UF8|Q86UF9|Q86UG0	Silent	SNP	ENST00000306312.3	37	CCDS5733.1																																																																																				0.308	SLC26A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313860.1	NM_198999		T	103017286	G	T	103017286	2	4	577	1	0	0	0	0	0	0	0	1	14533	1045	37	4		4	SLC26A5	7	103017286	Silent	SNP	G	TCGA-DZ-6134-01A-11D-1961-08	2236940	103017286	56121377	25	34281										
HSDL2	84263	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	115181173	115181173	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	taagtatggtatgtctatgtAtgtgcttggaatggcagaag	13	3	1	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr9:115181173A>G	ENST00000398805.3	+	6	760	c.533A>G	c.(532-534)tAt>tGt	p.Y178C	HSDL2_ENST00000488101.1_3'UTR|HSDL2_ENST00000539114.1_Intron|HSDL2_ENST00000262542.7_Missense_Mutation_p.Y58C|HSDL2_ENST00000398803.1_Missense_Mutation_p.Y105C	NM_032303.4	NP_115679.2	Q6YN16	HSDL2_HUMAN	hydroxysteroid dehydrogenase like 2	178						membrane (GO:0016020)|mitochondrion (GO:0005739)|peroxisome (GO:0005777)	oxidoreductase activity (GO:0016491)			NS(1)|breast(2)|cervix(2)|endometrium(1)|large_intestine(2)|lung(2)|prostate(1)|upper_aerodigestive_tract(2)	13						ATGTCTATGTATGTGCTTGGA	0.274																																																0													146	133	137					9																	115181173		1844	4082	5926	SO:0001583	missense	84263			AY093428	CCDS43864.1, CCDS56582.1	9q32	2011-09-14			ENSG00000119471	ENSG00000119471		"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 1"	18572	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 13C, member 1"		"chromosome 9 open reading frame 99"	C9orf99		12834046, 19027726	Standard	NM_032303		Approved	SDR13C1	uc004bga.2	Q6YN16	OTTHUMG00000020504	ENST00000398805.3:c.533A>G	9.37:g.115181173A>G	ENSP00000381785:p.Tyr178Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1L4|A8K8X1|A8MSV3|Q658M8|Q9BT58	Missense_Mutation	SNP	ENST00000398805.3	37	CCDS43864.1	.	.	.	.	.	.	.	.	.	.	A	4.417	0.077003	0.08485	.	.	ENSG00000119471	ENST00000398805;ENST00000398803;ENST00000262542	D;D;T	0.89810	-2.23;-2.57;2.17	5.54	4.61	0.57282	Short-chain dehydrogenase/reductase, conserved site (1);NAD(P)-binding domain (1);	0.043003	0.85682	N	0.000000	T	0.66237	0.2769	N	0.00611	-1.325	0.80722	D	1	B;B	0.06786	0.0;0.001	B;B	0.01281	0.0;0.0	T	0.67364	-0.5689	10	0.02654	T	1	.	14.288	0.66258	0.0732:0.0:0.9268:0.0	.	105;178	Q6YN16-2;Q6YN16	.;HSDL2_HUMAN	C	178;105;58	ENSP00000381785:Y178C;ENSP00000381783:Y105C;ENSP00000262542:Y58C	ENSP00000262542:Y58C	Y	+	2	0	HSDL2	114220994	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.348000	0.79366	1.462000	0.47948	-0.321000	0.08615	TAT		0.274	HSDL2-002	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053681.1	NM_032303		G	115181173	A	G	115181173	3	3	577	1	0	0	0	0	1	0	0	0	7401	449	16	3	555	3	HSDL2	9	115181173	Missense_Mutation	SNP	A	TCGA-DZ-6134-01A-11D-1961-08		115181173	26032258	26	34282										
ALAD	210	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	116151742	116151742	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	tcctttacctcccgcacgatGtccaggtagggcattcccgg	10	15	0	0			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr9:116151742G>A	ENST00000409155.3	-	10	973	c.777C>T	c.(775-777)gaC>gaT	p.D259D	ALAD_ENST00000277315.5_Silent_p.D242D|ALAD_ENST00000482001.1_5'Flank	NM_000031.5	NP_000022.3	P13716	HEM2_HUMAN	aminolevulinate dehydratase	259					cellular response to interleukin-4 (GO:0071353)|heme biosynthetic process (GO:0006783)|porphyrin-containing compound metabolic process (GO:0006778)|protein homooligomerization (GO:0051260)|protoporphyrinogen IX biosynthetic process (GO:0006782)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	catalytic activity (GO:0003824)|identical protein binding (GO:0042802)|lead ion binding (GO:0032791)|porphobilinogen synthase activity (GO:0004655)|zinc ion binding (GO:0008270)			endometrium(1)|kidney(1)|large_intestine(2)|lung(3)|prostate(1)|stomach(1)	9					Aminolevulinic acid(DB00855)	CCCGCACGATGTCCAGGTAGG	0.567																																																0													116	110	112					9																	116151742		2203	4300	6503	SO:0001819	synonymous_variant	210			M13928	CCDS6794.2	9q32	2010-04-29	2010-04-29		ENSG00000148218	ENSG00000148218	4.2.1.24		395	protein-coding gene	gene with protein product	"porphobilinogen synthase"	125270	"aminolevulinate, delta-, dehydratase"			6839527, 6378062	Standard	NM_000031		Approved	ALADH, PBGS	uc011lxf.2	P13716	OTTHUMG00000020522	ENST00000409155.3:c.777C>T	9.37:g.116151742G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K375|B2R6F2|Q16870|Q16871|Q9BVQ9	Silent	SNP	ENST00000409155.3	37	CCDS6794.2																																																																																				0.567	ALAD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053724.3	NM_001003945		A	116151742	G	A	116151742	2	1	577	1	0	0	0	0	0	0	0	1	483	1368	48	2		2	ALAD	9	116151742	Silent	SNP	G	TCGA-DZ-6134-01A-11D-1961-08	970569	116151742	25061689	27	34283										
DIP2C	22982	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	390986	390986	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	tgacgtccacagccgccgccGcctccctggaccgcagcaac	10	20	0	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr10:390986G>A	ENST00000280886.6	-	27	3383	c.3296C>T	c.(3295-3297)gCg>gTg	p.A1099V		NM_014974.2	NP_055789.1	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C (Drosophila)	1099						nucleus (GO:0005634)	catalytic activity (GO:0003824)			breast(8)|endometrium(6)|kidney(10)|large_intestine(13)|lung(26)|ovary(3)|prostate(6)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(4)	81		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		AGCCGCCGCCGCCTCCCTGGA	0.602																																																0													57	49	52					10																	390986		2203	4300	6503	SO:0001583	missense	22982			BC035216	CCDS7054.1	10p15.3	2006-01-13	2006-01-13	2006-01-13	ENSG00000151240	ENSG00000151240			29150	protein-coding gene	gene with protein product		611380	"KIAA0934"	KIAA0934			Standard	NM_014974		Approved		uc001ifp.3	Q9Y2E4	OTTHUMG00000017532	ENST00000280886.6:c.3296C>T	10.37:g.390986G>A	ENSP00000280886:p.Ala1099Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DPI5|Q5SS78	Missense_Mutation	SNP	ENST00000280886.6	37	CCDS7054.1	.	.	.	.	.	.	.	.	.	.	G	34	5.405888	0.96051	.	.	ENSG00000151240	ENST00000280886;ENST00000535541	T	0.10288	2.89	5.59	5.59	0.84812	AMP-dependent synthetase/ligase (1);	0.000000	0.85682	D	0.000000	T	0.34424	0.0897	M	0.73372	2.23	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.00857	-1.1538	10	0.34782	T	0.22	-28.982	19.59	0.95506	0.0:0.0:1.0:0.0	.	1099	Q9Y2E4	DIP2C_HUMAN	V	1099;24	ENSP00000280886:A1099V	ENSP00000280886:A1099V	A	-	2	0	DIP2C	380986	1.000000	0.71417	0.994000	0.49952	0.641000	0.38312	9.813000	0.99286	2.639000	0.89480	0.655000	0.94253	GCG		0.602	DIP2C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046389.1	NM_014974		A	390986	G	A	390986	3	1	577	1	0	0	0	0	1	0	0	0	4531	1087	38	1	1418	1	DIP2C	10	390986	Missense_Mutation	SNP	G	TCGA-DZ-6134-01A-11D-1961-08		390986	135143761	28	34284										
CAMK1D	57118	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	12595265	12595265	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	tttagctgaagagaaggcaaCtggcaagctctttgctgtga	12	7	1	3			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr10:12595265C>T	ENST00000378847.3	+	2	471	c.134C>T	c.(133-135)aCt>aTt	p.T45I	CAMK1D_ENST00000378845.1_Missense_Mutation_p.T45I|CAMK1D_ENST00000487696.1_Intron	NM_153498.2	NP_705718.1	Q8IU85	KCC1D_HUMAN	calcium/calmodulin-dependent protein kinase ID	45	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				inflammatory response (GO:0006954)|positive regulation of CREB transcription factor activity (GO:0032793)|positive regulation of neuron projection development (GO:0010976)|positive regulation of neutrophil chemotaxis (GO:0090023)|positive regulation of phagocytosis (GO:0050766)|positive regulation of respiratory burst (GO:0060267)|regulation of dendrite development (GO:0050773)|regulation of granulocyte chemotaxis (GO:0071622)	calcium- and calmodulin-dependent protein kinase complex (GO:0005954)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|calmodulin-dependent protein kinase activity (GO:0004683)			endometrium(3)|kidney(2)|large_intestine(4)|lung(4)|ovary(1)|skin(1)|stomach(1)	16				GBM - Glioblastoma multiforme(1;3.16e-05)		GAGAAGGCAACTGGCAAGCTC	0.468																																																0													162	150	154					10																	12595265		2203	4300	6503	SO:0001583	missense	57118			AF286366	CCDS7091.1, CCDS7092.1	10p13	2003-11-05			ENSG00000183049	ENSG00000183049			19341	protein-coding gene	gene with protein product		607957				11050006	Standard	XM_006717481		Approved	CKLiK	uc001ilo.3	Q8IU85	OTTHUMG00000017683	ENST00000378847.3:c.134C>T	10.37:g.12595265C>T	ENSP00000368124:p.Thr45Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B0YIY0|Q9HD31	Missense_Mutation	SNP	ENST00000378847.3	37	CCDS7091.1	.	.	.	.	.	.	.	.	.	.	C	14.34	2.507699	0.44558	.	.	ENSG00000183049	ENST00000378847;ENST00000378845	T;T	0.49139	0.79;0.79	5.14	4.23	0.50019	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.055122	0.64402	D	0.000001	T	0.57888	0.2084	M	0.89785	3.06	0.45648	D	0.99857	B;B	0.19073	0.033;0.011	B;B	0.23716	0.048;0.047	T	0.62586	-0.6823	10	0.87932	D	0	-12.4567	13.7457	0.62874	0.0:0.6876:0.3124:0.0	.	45;45	Q8IU85;Q5SQQ7	KCC1D_HUMAN;.	I	45	ENSP00000368124:T45I;ENSP00000368122:T45I	ENSP00000368122:T45I	T	+	2	0	CAMK1D	12635271	1.000000	0.71417	0.981000	0.43875	0.946000	0.59487	3.132000	0.50523	1.127000	0.42034	0.561000	0.74099	ACT		0.468	CAMK1D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046820.1	NM_020397		T	12595265	C	T	12595265	3	4	577	1	0	0	0	0	1	0	0	0	2599	565	20	2	140	2	CAMK1D	10	12595265	Missense_Mutation	SNP	C	TCGA-DZ-6134-01A-11D-1961-08	12204279	12595265	122939482	29	34285										
ATRNL1	26033	hgsc.bcm.edu;broad.mit.edu	37	chr10	116889093	116889093	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	gaattatattttacagaatcAattcttgtcctaacaattgc	4	7	2	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr10:116889093A>C	ENST00000355044.3	+	5	751	c.625A>C	c.(625-627)Aat>Cat	p.N209H	ATRNL1_ENST00000527407.1_Missense_Mutation_p.N209H|ATRNL1_ENST00000529665.1_3'UTR	NM_207303.2	NP_997186.1	Q5VV63	ATRN1_HUMAN	attractin-like 1	209	CUB. {ECO:0000255|PROSITE- ProRule:PRU00059}.|EGF-like 2. {ECO:0000255|PROSITE- ProRule:PRU00076}.				G-protein coupled receptor signaling pathway (GO:0007186)|multicellular organismal development (GO:0007275)	integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)|receptor activity (GO:0004872)			NS(1)|breast(1)|central_nervous_system(2)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(11)|liver(2)|lung(44)|ovary(6)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	95		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)		TTACAGAATCAATTCTTGTCC	0.303																																																0													86	84	84					10																	116889093		2203	4300	6503	SO:0001583	missense	26033			AB011106	CCDS7592.1, CCDS73204.1	10q26	2004-03-04			ENSG00000107518	ENSG00000107518			29063	protein-coding gene	gene with protein product		612869				9628581	Standard	NM_001276282		Approved	KIAA0534, FLJ45344, ALP	uc001lcg.3	Q5VV63	OTTHUMG00000019096	ENST00000355044.3:c.625A>C	10.37:g.116889093A>C	ENSP00000347152:p.Asn209His	Somatic		WXS	Illumina HiSeq	Phase_I	O60283|Q5JSE8|Q5T5Y9|Q6T256|Q6ZSN4|Q86WX2	Missense_Mutation	SNP	ENST00000355044.3	37	CCDS7592.1	.	.	.	.	.	.	.	.	.	.	A	22.3	4.275216	0.80580	.	.	ENSG00000107518	ENST00000526946;ENST00000355044	T;T	0.51071	0.72;0.72	5.47	5.47	0.80525	CUB (3);Epidermal growth factor-like, type 3 (1);	0.040008	0.85682	D	0.000000	T	0.68815	0.3042	M	0.76002	2.32	0.80722	D	1	D;D;D	0.71674	0.977;0.998;0.986	P;D;P	0.78314	0.754;0.991;0.875	T	0.73222	-0.4051	10	0.87932	D	0	-20.838	15.5419	0.76057	1.0:0.0:0.0:0.0	.	142;209;209	E9PL90;Q5VV63;Q5VV63-2	.;ATRN1_HUMAN;.	H	142;209	ENSP00000431423:N142H;ENSP00000347152:N209H	ENSP00000347152:N209H	N	+	1	0	ATRNL1	116879083	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.307000	0.96226	2.085000	0.62840	0.383000	0.25322	AAT		0.303	ATRNL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050507.3	XM_049349		C	116889093	A	C	116889093	3	2	577	1	0	0	0	0	1	0	0	0	1207	130	5	5	643	5	ATRNL1	10	116889093	Missense_Mutation	SNP	A	TCGA-DZ-6134-01A-11D-1961-08	104293828	116889093	18645654	30	34286										
SLC43A1	8501	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	57261478	57261478	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	acactcactctcaggaaggtTttctgaggtgccccgaacat	9	12	3	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr11:57261478T>A	ENST00000278426.3	-	8	1214	c.859A>T	c.(859-861)Aac>Tac	p.N287Y	SLC43A1_ENST00000528450.1_Missense_Mutation_p.N287Y|SLC43A1_ENST00000533515.1_5'UTR	NM_003627.5	NP_003618.1			solute carrier family 43 (amino acid system L transporter), member 1											breast(1)|endometrium(2)|large_intestine(5)|liver(1)|lung(6)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	19						TCAGGAAGGTTTTCTGAGGTG	0.567											OREG0020651	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													74	65	68					11																	57261478		2201	4296	6497	SO:0001583	missense	8501			AF045584	CCDS7958.1	11q12.1	2013-07-17	2013-07-17	2003-09-12	ENSG00000149150	ENSG00000149150		"Solute carriers"	9225	protein-coding gene	gene with protein product		603733	"prostate cancer overexpressed gene 1"	POV1		9255310, 9722952	Standard	NM_003627		Approved	R00504, PB39	uc001nkk.3	O75387	OTTHUMG00000167030	ENST00000278426.3:c.859A>T	11.37:g.57261478T>A	ENSP00000278426:p.Asn287Tyr	Somatic	1021	WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000278426.3	37	CCDS7958.1	.	.	.	.	.	.	.	.	.	.	t	15.67	2.901506	0.52227	.	.	ENSG00000149150	ENST00000278426;ENST00000528450;ENST00000533066	T;T;T	0.58060	0.36;0.36;1.47	5.57	-2.09	0.07232	Major facilitator superfamily domain, general substrate transporter (1);	1.826000	0.01877	N	0.037616	T	0.36524	0.0970	N	0.14661	0.345	0.09310	N	1	P	0.48911	0.917	P	0.46419	0.516	T	0.21965	-1.0230	10	0.35671	T	0.21	0.3003	1.7106	0.02891	0.1305:0.2328:0.1338:0.5029	.	287	O75387	LAT3_HUMAN	Y	287;287;256	ENSP00000278426:N287Y;ENSP00000435673:N287Y;ENSP00000435647:N256Y	ENSP00000278426:N287Y	N	-	1	0	SLC43A1	57018054	0.000000	0.05858	0.000000	0.03702	0.039000	0.13416	0.234000	0.17930	-0.008000	0.14320	0.459000	0.35465	AAC		0.567	SLC43A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392541.1	NM_003627		A	57261478	T	A	57261478	3	1	577	1	0	0	0	0	1	0	0	0	14645	1841	64	5	852	5	SLC43A1	11	57261478	Missense_Mutation	SNP	T	TCGA-DZ-6134-01A-11D-1961-08		57261478	77745038	31	34287										
CAPN5	726	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	76825445	76825445	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ttgagcgcatgttaaaggtgCacagccggggcggcctcatc	14	11	1	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr11:76825445C>T	ENST00000278559.3	+	5	853	c.664C>T	c.(664-666)Cac>Tac	p.H222Y	CAPN5_ENST00000456580.2_Missense_Mutation_p.H262Y|CAPN5_ENST00000531028.1_Intron|CAPN5_ENST00000529629.1_Missense_Mutation_p.H222Y	NM_004055.4	NP_004046.2	O15484	CAN5_HUMAN	calpain 5	222	Calpain catalytic. {ECO:0000255|PROSITE- ProRule:PRU00239}.				proteolysis (GO:0006508)|signal transduction (GO:0007165)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)	calcium-dependent cysteine-type endopeptidase activity (GO:0004198)			NS(1)|breast(2)|endometrium(2)|large_intestine(7)|lung(17)|urinary_tract(1)	30						GTTAAAGGTGCACAGCCGGGG	0.592											OREG0021255	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													200	190	194					11																	76825445		2200	4292	6492	SO:0001583	missense	726				CCDS8248.1	11q14	2014-01-29				ENSG00000149260			1482	protein-coding gene	gene with protein product		602537	"vitreoretinopathy, neovascular inflammatory"	VRNI		9503024, 9367857, 23055945	Standard	NM_004055		Approved	nCL-3, HTRA3, ADNIV	uc001oxx.3	O15484		ENST00000278559.3:c.664C>T	11.37:g.76825445C>T	ENSP00000278559:p.His222Tyr	Somatic	1171	WXS	Illumina HiSeq	Phase_I	O00263	Missense_Mutation	SNP	ENST00000278559.3	37	CCDS8248.1	.	.	.	.	.	.	.	.	.	.	C	15.98	2.992258	0.54041	.	.	ENSG00000149260	ENST00000278559;ENST00000360841;ENST00000529629;ENST00000456580;ENST00000544318	D;D;D	0.87179	-2.22;-2.22;-2.22	4.72	4.72	0.59763	Peptidase C2, calpain, catalytic domain (3);	0.049774	0.85682	D	0.000000	T	0.79569	0.4468	L	0.31926	0.97	0.80722	D	1	B;B;B;B	0.18461	0.028;0.022;0.01;0.028	B;B;B;B	0.22753	0.041;0.035;0.021;0.041	T	0.72821	-0.4177	10	0.02654	T	1	.	16.8563	0.86007	0.0:1.0:0.0:0.0	.	260;262;262;222	Q59GM2;E7EV01;Q6ZRM8;O15484	.;.;.;CAN5_HUMAN	Y	222;262;222;262;262	ENSP00000278559:H222Y;ENSP00000432332:H222Y;ENSP00000409996:H262Y	ENSP00000278559:H222Y	H	+	1	0	CAPN5	76503093	1.000000	0.71417	1.000000	0.80357	0.937000	0.57800	3.902000	0.56310	2.438000	0.82558	0.655000	0.94253	CAC		0.592	CAPN5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382564.2	NM_004055		T	76825445	C	T	76825445	3	4	577	1	0	0	0	0	1	0	0	0	2631	710	25	2	678	2	CAPN5	11	76825445	Missense_Mutation	SNP	C	TCGA-DZ-6134-01A-11D-1961-08	19563967	76825445	58181071	32	34288										
USP35	57558	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	77921303	77921303	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ggtggagctgagccaagggcCgtgctacctcatcctcacac	12	14	2	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr11:77921303C>T	ENST00000529308.1	+	10	2663	c.2402C>T	c.(2401-2403)cCg>cTg	p.P801L	USP35_ENST00000441408.2_Missense_Mutation_p.P387L|USP35_ENST00000530535.1_3'UTR|USP35_ENST00000530267.1_Missense_Mutation_p.P369L|USP35_ENST00000526425.1_Missense_Mutation_p.P532L	NM_020798.2	NP_065849.1	Q9P2H5	UBP35_HUMAN	ubiquitin specific peptidase 35	801	USP.				protein deubiquitination (GO:0016579)|ubiquitin-dependent protein catabolic process (GO:0006511)		ubiquitin-specific protease activity (GO:0004843)			endometrium(6)|kidney(1)|large_intestine(2)|lung(8)|ovary(2)|prostate(3)|urinary_tract(1)	23	all_cancers(14;3.77e-18)|all_epithelial(13;6.16e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.04e-25)			AGCCAAGGGCCGTGCTACCTC	0.622																																																0													86	98	94					11																	77921303		2167	4250	6417	SO:0001583	missense	57558			AB037793	CCDS41693.1	11q13.4	2008-02-05	2005-08-08			ENSG00000118369		"Ubiquitin-specific peptidases"	20061	protein-coding gene	gene with protein product			"ubiquitin specific protease 35"			12838346	Standard	NM_020798		Approved	KIAA1372	uc021qny.1	Q9P2H5		ENST00000529308.1:c.2402C>T	11.37:g.77921303C>T	ENSP00000431876:p.Pro801Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000529308.1	37	CCDS41693.1	.	.	.	.	.	.	.	.	.	.	C	24.8	4.572013	0.86542	.	.	ENSG00000118369	ENST00000530267;ENST00000529308;ENST00000441408;ENST00000526425	D;D;D;D	0.88975	-2.45;-2.45;-2.45;-2.45	4.35	4.35	0.52113	Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2 (2);	0.000000	0.64402	D	0.000019	D	0.96457	0.8844	H	0.96633	3.855	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.999;1.0	D	0.98113	1.0421	10	0.87932	D	0	-41.8622	17.0748	0.86583	0.0:1.0:0.0:0.0	.	801;387	Q9P2H5;E7EWV7	UBP35_HUMAN;.	L	369;801;387;532	ENSP00000435468:P369L;ENSP00000431876:P801L;ENSP00000400825:P387L;ENSP00000434942:P532L	ENSP00000400825:P387L	P	+	2	0	USP35	77598951	1.000000	0.71417	0.993000	0.49108	0.817000	0.46193	7.600000	0.82769	2.257000	0.74773	0.436000	0.28706	CCG		0.622	USP35-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000390026.1	XM_290527		T	77921303	C	T	77921303	3	4	577	1	0	0	0	0	1	0	0	0	17078	652	23	1	2436	1	USP35	11	77921303	Missense_Mutation	SNP	C	TCGA-DZ-6134-01A-11D-1961-08	1095858	77921303	57085213	33	34289										
PCF11	51585	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	82877713	82877713	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	tagaaaactggcaaagttccAagtctgccaaaagatggaaa	9	7	1	2			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr11:82877713A>G	ENST00000298281.4	+	5	2226	c.1774A>G	c.(1774-1776)Aag>Gag	p.K592E		NM_015885.3	NP_056969.2	O94913	PCF11_HUMAN	PCF11 cleavage and polyadenylation factor subunit	592					gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA cleavage (GO:0006379)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	mRNA cleavage factor complex (GO:0005849)|nucleoplasm (GO:0005654)				cervix(1)|endometrium(3)|kidney(4)|large_intestine(1)|lung(22)|ovary(1)|urinary_tract(1)	33						GCAAAGTTCCAAGTCTGCCAA	0.368																																																0													71	71	71					11																	82877713		1781	3947	5728	SO:0001583	missense	51585			AB020631	CCDS44689.1	11q13	2013-07-02	2013-07-02		ENSG00000165494	ENSG00000165494			30097	protein-coding gene	gene with protein product		608876	"PCF11, cleavage and polyadenylation factor II subunit, homolog (S. cerevisiae)", "PCF11, cleavage and polyadenylation factor subunit, homolog (S. cerevisiae)"			11060040	Standard	NM_015885		Approved	KIAA0824	uc001ozx.4	O94913	OTTHUMG00000167031	ENST00000298281.4:c.1774A>G	11.37:g.82877713A>G	ENSP00000298281:p.Lys592Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8W7|O43671|Q6P0X8	Missense_Mutation	SNP	ENST00000298281.4	37	CCDS44689.1	.	.	.	.	.	.	.	.	.	.	A	15.75	2.926781	0.52759	.	.	ENSG00000165494	ENST00000298281;ENST00000530660;ENST00000530304	T;T;T	0.49720	1.75;0.79;0.77	6.07	6.07	0.98685	.	0.000000	0.64402	D	0.000007	T	0.58293	0.2112	L	0.32530	0.975	0.49687	D	0.999816	D;D	0.69078	0.997;0.993	D;D	0.75020	0.985;0.971	T	0.54801	-0.8239	9	.	.	.	.	16.6406	0.85098	1.0:0.0:0.0:0.0	.	592;592	E9PQ01;O94913	.;PCF11_HUMAN	E	592	ENSP00000298281:K592E;ENSP00000434540:K592E;ENSP00000431567:K592E	.	K	+	1	0	PCF11	82555361	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	6.414000	0.73318	2.326000	0.78906	0.533000	0.62120	AAG		0.368	PCF11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392548.2	NM_015885		G	82877713	A	G	82877713	3	3	577	1	0	0	0	0	1	0	0	0	11580	131	5	3	1792	3	PCF11	11	82877713	Missense_Mutation	SNP	A	TCGA-DZ-6134-01A-11D-1961-08	4956410	82877713	52128803	34	34290										
ATF7	11016	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	53910964	53910964	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	gtggggtcatgattacatgcGattgtatcggcatgctcagt	13	7	2	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr12:53910964G>A	ENST00000548446.2	-	12	1554	c.1442C>T	c.(1441-1443)tCg>tTg	p.S481L	RP11-793H13.3_ENST00000548347.1_RNA|ATF7_ENST00000328463.7_Missense_Mutation_p.S481L|ATF7_ENST00000456903.4_Missense_Mutation_p.S470L|ATF7_ENST00000420353.2_Missense_Mutation_p.S470L|RP11-793H13.10_ENST00000591834.1_Intron|ATF7_ENST00000415113.1_Missense_Mutation_p.S449L|ATF7_ENST00000546661.1_5'UTR			P17544	ATF7_HUMAN	activating transcription factor 7	481	Essential for binding adenovirus 2 E1A.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nuclear periphery (GO:0034399)|nucleus (GO:0005634)	enzyme binding (GO:0019899)|metal ion binding (GO:0046872)|mitogen-activated protein kinase binding (GO:0051019)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)			endometrium(2)|kidney(1)|large_intestine(2)|lung(1)|ovary(1)|skin(1)|urinary_tract(1)	9					Pseudoephedrine(DB00852)	GATTACATGCGATTGTATCGG	0.587																																																0													112	109	110					12																	53910964		2075	4216	6291	SO:0001583	missense	11016			X52943	CCDS44906.1, CCDS58238.1	12q13	2013-01-10				ENSG00000170653		"basic leucine zipper proteins"	792	protein-coding gene	gene with protein product		606371				1694576, 11278933	Standard	NM_006856		Approved	ATFA	uc001sdz.3	P17544	OTTHUMG00000169776	ENST00000548446.2:c.1442C>T	12.37:g.53910964G>A	ENSP00000449938:p.Ser481Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A5D6Y4|B2RMP1|B4DQL4|Q13814|Q8IVR8|Q9UD83	Missense_Mutation	SNP	ENST00000548446.2	37		.	.	.	.	.	.	.	.	.	.	G	24.4	4.522447	0.85600	.	.	ENSG00000170653	ENST00000548446;ENST00000328463;ENST00000306727;ENST00000415113;ENST00000420353;ENST00000456903	T;T;T;T;T	0.56776	0.47;0.47;0.44;0.49;0.49	4.47	4.47	0.54385	.	0.132552	0.52532	D	0.000064	T	0.43233	0.1238	L	0.53249	1.67	0.54753	D	0.999981	P;P;B	0.46327	0.876;0.804;0.0	B;B;B	0.28553	0.091;0.042;0.001	T	0.58797	-0.7573	10	0.87932	D	0	-16.9898	16.5074	0.84276	0.0:0.0:1.0:0.0	.	449;470;481	P17544-2;B2RMP1;P17544	.;.;ATF7_HUMAN	L	481;481;294;449;470;470	ENSP00000449938:S481L;ENSP00000329212:S481L;ENSP00000404880:S449L;ENSP00000399465:S470L;ENSP00000387406:S470L	ENSP00000304187:S294L	S	-	2	0	ATF7	52197231	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	6.990000	0.76225	2.513000	0.84729	0.456000	0.33151	TCG		0.587	ATF7-007	KNOWN	NMD_exception|basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000406302.2	NM_001130059		A	53910964	G	A	53910964	3	1	577	1	0	0	0	0	1	0	0	0	1086	1059	37	1	46	1	ATF7	12	53910964	Missense_Mutation	SNP	G	TCGA-DZ-6134-01A-11D-1961-08		53910964	79940931	35	34291										
SMARCC2	6601	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	56558339	56558339	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	agcggggaggttaatactgaTggagtcagctagactaccaa	13	7	1	2			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr12:56558339T>C	ENST00000267064.4	-	27	3402	c.3316A>G	c.(3316-3318)Atc>Gtc	p.I1106V	SMARCC2_ENST00000347471.4_Intron|SMARCC2_ENST00000550164.1_Missense_Mutation_p.I1137V|RP11-977G19.5_ENST00000553176.1_RNA|SMARCC2_ENST00000394023.3_Intron	NM_003075.3	NP_003066.2	Q8TAQ2	SMRC2_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2	1106	Pro-rich.				ATP-dependent chromatin remodeling (GO:0043044)|chromatin remodeling (GO:0006338)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|nucleosome disassembly (GO:0006337)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription from RNA polymerase II promoter involved in forebrain neuron fate commitment (GO:0021882)|transcription, DNA-templated (GO:0006351)	nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|protein complex (GO:0043234)|SWI/SNF complex (GO:0016514)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|transcription coactivator activity (GO:0003713)			breast(1)|central_nervous_system(3)|endometrium(6)|kidney(3)|large_intestine(3)|lung(20)|ovary(1)|skin(2)|soft_tissue(1)|upper_aerodigestive_tract(1)	41			OV - Ovarian serous cystadenocarcinoma(18;0.123)			TTAATACTGATGGAGTCAGCT	0.587																																																0													103	89	94					12																	56558339		2203	4300	6503	SO:0001583	missense	6601			U66616	CCDS8907.1, CCDS8908.1, CCDS55835.1	12q13.2	2008-05-14				ENSG00000139613			11105	protein-coding gene	gene with protein product		601734				8804307, 9693044	Standard	NM_001130420		Approved	BAF170, Rsc8, CRACC2	uc001skb.3	Q8TAQ2	OTTHUMG00000170288	ENST00000267064.4:c.3316A>G	12.37:g.56558339T>C	ENSP00000267064:p.Ile1106Val	Somatic		WXS	Illumina HiSeq	Phase_I	F8VTJ5|Q59GV3|Q92923|Q96E12|Q96GY4	Missense_Mutation	SNP	ENST00000267064.4	37	CCDS8907.1	.	.	.	.	.	.	.	.	.	.	T	10.26	1.300338	0.23650	.	.	ENSG00000139613	ENST00000550164;ENST00000267064	T;T	0.44881	0.91;0.94	5.28	3.99	0.46301	.	0.593150	0.16689	N	0.203617	T	0.20577	0.0495	N	0.08118	0	0.25483	N	0.987717	B	0.02656	0.0	B	0.01281	0.0	T	0.19811	-1.0294	9	.	.	.	-5.712	7.8812	0.29623	0.0:0.1805:0.0:0.8195	.	1106	Q8TAQ2	SMRC2_HUMAN	V	1137;1106	ENSP00000449396:I1137V;ENSP00000267064:I1106V	.	I	-	1	0	SMARCC2	54844606	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	1.211000	0.32382	0.832000	0.34804	0.460000	0.39030	ATC		0.587	SMARCC2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000408370.1			C	56558339	T	C	56558339	3	2	577	1	0	0	0	0	1	0	0	0	14789	1464	51	3	336	3	SMARCC2	12	56558339	Missense_Mutation	SNP	T	TCGA-DZ-6134-01A-11D-1961-08	2647375	56558339	77293556	36	34292										
VSIG10	54621	hgsc.bcm.edu	37	chr12	118506354	118506354	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	tcctcctcctcctcctcctcTtcctcttctgaatccaccaa	1	21	3	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr12:118506354T>C	ENST00000359236.5	-	8	1671	c.1395A>G	c.(1393-1395)gaA>gaG	p.E465E		NM_019086.5	NP_061959.2	Q8N0Z9	VSI10_HUMAN	V-set and immunoglobulin domain containing 10	465	Glu-rich.					integral component of membrane (GO:0016021)				endometrium(5)|large_intestine(3)|lung(6)|skin(1)|stomach(1)|urinary_tract(1)	17						cctcctcctcttcctcttcTG	0.458																																																0													97	90	93					12																	118506354		2037	4183	6220	SO:0001819	synonymous_variant	54621				CCDS44992.1	12q24.23	2013-01-29			ENSG00000176834	ENSG00000176834		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	26078	protein-coding gene	gene with protein product						12477932	Standard	NM_019086		Approved		uc001tws.3	Q8N0Z9		ENST00000359236.5:c.1395A>G	12.37:g.118506354T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NWQ7	Silent	SNP	ENST00000359236.5	37	CCDS44992.1																																																																																				0.458	VSIG10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401273.2	NM_019086		C	118506354	T	C	118506354	2	2	577	1	0	0	0	0	0	0	0	1	17235	1606	56	3		3	VSIG10	12	118506354	Silent	SNP	T	TCGA-DZ-6134-01A-11D-1961-08	61948015	118506354	15345541	37	34293										
GCH1	2643	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	55310765	55310765	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	atgagagtcaggaactcttcCcgagtctttggatcctcccg	10	12	3	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr14:55310765C>T	ENST00000491895.2	-	6	911	c.723G>A	c.(721-723)cgG>cgA	p.R241R	GCH1_ENST00000254299.4_5'UTR|GCH1_ENST00000395514.1_Silent_p.R241R|GCH1_ENST00000543643.2_Intron|GCH1_ENST00000536224.2_Intron	NM_000161.2	NP_000152.1	P30793	GCH1_HUMAN	GTP cyclohydrolase 1	241			R -> W (in DYT5). {ECO:0000269|PubMed:9778264}.		7,8-dihydroneopterin 3'-triphosphate biosynthetic process (GO:0035998)|dopamine biosynthetic process (GO:0042416)|GTP catabolic process (GO:0006184)|metabolic process (GO:0008152)|negative regulation of blood pressure (GO:0045776)|neuromuscular process controlling posture (GO:0050884)|nitric oxide biosynthetic process (GO:0006809)|nitric oxide metabolic process (GO:0046209)|positive regulation of nitric-oxide synthase activity (GO:0051000)|protein heterooligomerization (GO:0051291)|protein homooligomerization (GO:0051260)|pteridine-containing compound biosynthetic process (GO:0042559)|regulation of blood pressure (GO:0008217)|regulation of lung blood pressure (GO:0014916)|regulation of nitric-oxide synthase activity (GO:0050999)|response to interferon-gamma (GO:0034341)|response to lipopolysaccharide (GO:0032496)|response to pain (GO:0048265)|response to tumor necrosis factor (GO:0034612)|small molecule metabolic process (GO:0044281)|tetrahydrobiopterin biosynthetic process (GO:0006729)|tetrahydrofolate biosynthetic process (GO:0046654)|vasodilation (GO:0042311)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|protein complex (GO:0043234)	calcium ion binding (GO:0005509)|coenzyme binding (GO:0050662)|GTP binding (GO:0005525)|GTP cyclohydrolase I activity (GO:0003934)|protein homodimerization activity (GO:0042803)|zinc ion binding (GO:0008270)			endometrium(2)|lung(7)|skin(2)	11						GGAACTCTTCCCGAGTCTTTG	0.493																																					Pancreas(198;1245 2204 4807 21567 38372)											0													185	145	158					14																	55310765		2203	4300	6503	SO:0001819	synonymous_variant	2643			U19523	CCDS9720.1, CCDS41954.1, CCDS45110.1	14q22.1-q22.2	2014-04-01	2008-08-01		ENSG00000131979	ENSG00000131979	3.5.4.16		4193	protein-coding gene	gene with protein product	"dopa-responsive dystonia"	600225	"dystonia 14"	GCH, DYT5, DYT14		7874165, 8695054	Standard	XM_005267530		Approved	GTPCH1, DYT5a	uc001xbi.1	P30793	OTTHUMG00000029754	ENST00000491895.2:c.723G>A	14.37:g.55310765C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6FHY7|Q9Y4I8	Silent	SNP	ENST00000491895.2	37	CCDS9720.1																																																																																				0.493	GCH1-002	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276895.3			T	55310765	C	T	55310765	2	4	577	1	0	0	0	0	0	0	0	1	6298	610	22	2		2	GCH1	14	55310765	Silent	SNP	C	TCGA-DZ-6134-01A-11D-1961-08		55310765	52038775	38	34294										
BTBD6	90135	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	105716270	105716270	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	gatcattgtcactcgggaggCcctcaacaccaaagaggcgg	12	12	3	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr14:105716270C>T	ENST00000392554.3	+	4	1016	c.719C>T	c.(718-720)gCc>gTc	p.A240V	BRF1_ENST00000546474.1_Intron|BRF1_ENST00000551787.1_5'Flank|BRF1_ENST00000440513.3_Intron|BRF1_ENST00000327359.3_Intron|BTBD6_ENST00000536364.1_Missense_Mutation_p.A240V|BRF1_ENST00000379937.2_Intron|BRF1_ENST00000392557.4_5'Flank|BTBD6_ENST00000463376.2_Missense_Mutation_p.A165V|BTBD6_ENST00000327471.3_Missense_Mutation_p.A165V|BRF1_ENST00000446501.2_5'Flank|BRF1_ENST00000379932.4_5'Flank			Q96KE9	BTBD6_HUMAN	BTB (POZ) domain containing 6	240						cytoplasm (GO:0005737)				endometrium(1)|lung(3)	4		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.0163)|Epithelial(46;0.0391)	Epithelial(152;0.18)		ACTCGGGAGGCCCTCAACACC	0.617																																																0													30	27	28					14																	105716270		2201	4298	6499	SO:0001583	missense	90135			AF353674	CCDS10002.1, CCDS10002.2	14q32.33	2013-01-08			ENSG00000184887	ENSG00000184887		"BTB/POZ domain containing"	19897	protein-coding gene	gene with protein product							Standard	NM_033271		Approved	BDPL	uc010tyq.2	Q96KE9	OTTHUMG00000029887	ENST00000392554.3:c.719C>T	14.37:g.105716270C>T	ENSP00000376337:p.Ala240Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVQ7|Q9BR94	Missense_Mutation	SNP	ENST00000392554.3	37	CCDS10002.2	.	.	.	.	.	.	.	.	.	.	C	15.73	2.920172	0.52653	.	.	ENSG00000184887	ENST00000536364;ENST00000537513;ENST00000392554;ENST00000463376;ENST00000327471	T;T;T;T;T	0.69175	-0.38;-0.38;-0.38;-0.38;-0.38	5.07	5.07	0.68467	BTB/Kelch-associated (2);	0.118294	0.64402	D	0.000020	T	0.66218	0.2767	L	0.39898	1.24	0.48511	D	0.999668	B	0.29341	0.242	B	0.39935	0.314	T	0.69011	-0.5258	10	0.87932	D	0	-31.8506	15.9457	0.79792	0.0:1.0:0.0:0.0	.	240	Q96KE9	BTBD6_HUMAN	V	240;240;240;165;165	ENSP00000443091:A240V;ENSP00000446223:A240V;ENSP00000376337:A240V;ENSP00000418150:A165V;ENSP00000329361:A165V	ENSP00000329361:A165V	A	+	2	0	BTBD6	104787315	1.000000	0.71417	1.000000	0.80357	0.093000	0.18481	7.655000	0.83696	2.331000	0.79229	0.563000	0.77884	GCC		0.617	BTBD6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000074556.4			T	105716270	C	T	105716270	3	4	577	1	0	0	0	0	1	0	0	0	1547	739	26	2	733	2	BTBD6	14	105716270	Missense_Mutation	SNP	C	TCGA-DZ-6134-01A-11D-1961-08	50405505	105716270	1633270	39	34295										
MYO5C	55930	broad.mit.edu	37	chr15	52504078	52504078	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ccaccacgccacggggcttcAagtctgaagcagagagagcc	12	14	2	3			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr15:52504078A>G	ENST00000261839.7	-	35	4306	c.4145T>C	c.(4144-4146)tTg>tCg	p.L1382S		NM_018728.3	NP_061198.2	Q9NQX4	MYO5C_HUMAN	myosin VC	1382						extracellular vesicular exosome (GO:0070062)|myosin complex (GO:0016459)	ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(8)|kidney(7)|large_intestine(15)|lung(12)|ovary(7)|prostate(3)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	66				all cancers(107;0.0137)		ACGGGGCTTCAAGTCTGAAGC	0.537																																																0													55	57	57					15																	52504078		2055	4216	6271	SO:0001583	missense	55930			AF272390	CCDS42036.1	15q21	2011-09-27				ENSG00000128833		"Myosins / Myosin superfamily : Class V"	7604	protein-coding gene	gene with protein product	"myosin 5C"	610022				11870218	Standard	NM_018728		Approved	MGC74969	uc010bff.3	Q9NQX4		ENST00000261839.7:c.4145T>C	15.37:g.52504078A>G	ENSP00000261839:p.Leu1382Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P1W8	Missense_Mutation	SNP	ENST00000261839.7	37	CCDS42036.1	.	.	.	.	.	.	.	.	.	.	A	25.0	4.588593	0.86851	.	.	ENSG00000128833	ENST00000261839	T	0.25749	1.78	5.26	5.26	0.73747	.	0.000000	0.64402	D	0.000009	T	0.48095	0.1481	M	0.81802	2.56	0.80722	D	1	P	0.51449	0.945	P	0.55615	0.78	T	0.54616	-0.8267	10	0.87932	D	0	.	15.3487	0.74363	1.0:0.0:0.0:0.0	.	1382	Q9NQX4	MYO5C_HUMAN	S	1382	ENSP00000261839:L1382S	ENSP00000261839:L1382S	L	-	2	0	MYO5C	50291370	1.000000	0.71417	0.927000	0.36925	0.965000	0.64279	9.139000	0.94554	2.208000	0.71279	0.460000	0.39030	TTG		0.537	MYO5C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419562.1	NM_018728		G	52504078	A	G	52504078	3	3	577	1	0	0	0	0	1	0	0	0	10087	131	5	3	1111	3	MYO5C	15	52504078	Missense_Mutation	SNP	A	TCGA-DZ-6134-01A-11D-1961-08		52504078	50027314	40	34296										
ACAN	176	hgsc.bcm.edu	37	chr15	89389052	89389052	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ctgggccctgccacggcattCaccagtgaggacctcgtcgt	12	15	1	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr15:89389052C>G	ENST00000561243.1	+	6	1368	c.1368C>G	c.(1366-1368)ttC>ttG	p.F456L	ACAN_ENST00000559004.1_Missense_Mutation_p.F456L|ACAN_ENST00000439576.2_Missense_Mutation_p.F456L|ACAN_ENST00000352105.7_Missense_Mutation_p.F456L|ACAN_ENST00000558207.1_Missense_Mutation_p.F456L			P16112	PGCA_HUMAN	aggrecan	456					carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate catabolic process (GO:0042340)|keratan sulfate metabolic process (GO:0042339)|proteolysis (GO:0006508)|skeletal system development (GO:0001501)|small molecule metabolic process (GO:0044281)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|lysosomal lumen (GO:0043202)|proteinaceous extracellular matrix (GO:0005578)	carbohydrate binding (GO:0030246)|extracellular matrix structural constituent (GO:0005201)|hyaluronic acid binding (GO:0005540)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(4)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(15)|liver(2)|lung(40)|ovary(2)|prostate(5)|skin(5)|stomach(8)|upper_aerodigestive_tract(1)|urinary_tract(2)	93	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CCACGGCATTCACCAGTGAGG	0.647																																																0													15	17	17					15																	89389052		2006	4159	6165	SO:0001583	missense	176			M55172	CCDS53970.1, CCDS53971.1	15q26.1	2013-05-07	2007-02-16	2007-02-16	ENSG00000157766	ENSG00000157766		"Immunoglobulin superfamily / V-set domain containing", "Proteoglycans / Extracellular Matrix : Hyalectans"	319	protein-coding gene	gene with protein product	"aggrecan proteoglycan"	155760	"chondroitin sulfate proteoglycan 1", "aggrecan 1"	MSK16, CSPG1, AGC1		1985970	Standard	NM_013227		Approved	CSPGCP	uc010upo.1	P16112	OTTHUMG00000171989	ENST00000561243.1:c.1368C>G	15.37:g.89389052C>G	ENSP00000453342:p.Phe456Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q13650|Q9UCD3|Q9UCP4|Q9UCP5|Q9UDE0	Missense_Mutation	SNP	ENST00000561243.1	37	CCDS53970.1	.	.	.	.	.	.	.	.	.	.	C	14.42	2.531494	0.45073	.	.	ENSG00000157766	ENST00000439576;ENST00000352105;ENST00000268134	T;T	0.02158	4.65;4.42	5.37	4.46	0.54185	.	0.247838	0.21313	N	0.076607	T	0.03305	0.0096	M	0.66939	2.045	0.35117	D	0.766671	P;P;P	0.42908	0.793;0.793;0.731	B;B;B	0.38842	0.283;0.283;0.184	T	0.49560	-0.8927	10	0.14656	T	0.56	-15.7967	10.4531	0.44535	0.0:0.9094:0.0:0.0906	.	456;456;456	E7ENV9;E7EX88;Q6PID9	.;.;.	L	456	ENSP00000387356:F456L;ENSP00000341615:F456L	ENSP00000268134:F456L	F	+	3	2	ACAN	87190056	1.000000	0.71417	1.000000	0.80357	0.451000	0.32288	2.606000	0.46291	1.412000	0.46977	0.655000	0.94253	TTC		0.647	ACAN-006	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416267.2	NM_001135		G	89389052	C	G	89389052	3	3	577	1	0	0	0	0	1	0	0	0	117	825	29	4	1390	4	ACAN	15	89389052	Missense_Mutation	SNP	C	TCGA-DZ-6134-01A-11D-1961-08	36884974	89389052	13142340	41	34297										
FAM86A	196483	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	5140457	5140457	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	tagtgaagactgccgggttcTcgatggcccattctgcaagg	13	10	2	2			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr16:5140457T>A	ENST00000427587.4	-	5	520	c.452A>T	c.(451-453)gAg>gTg	p.E151V	FAM86A_ENST00000458008.4_Missense_Mutation_p.E117V|FAM86A_ENST00000587133.1_Missense_Mutation_p.E90V	NM_201400.2	NP_958802.1	Q96G04	FA86A_HUMAN	family with sequence similarity 86, member A	151						cytoplasm (GO:0005737)				endometrium(1)|large_intestine(2)|lung(4)|prostate(3)|skin(2)	12						TGCCGGGTTCTCGATGGCCCA	0.642																																																0													86	84	85					16																	5140457		2197	4300	6497	SO:0001583	missense	196483			BC010084	CCDS10529.1, CCDS10530.1, CCDS73823.1	16p13.3	2012-11-07			ENSG00000118894	ENSG00000118894			32221	protein-coding gene	gene with protein product		615263					Standard	NM_201400		Approved	SB153, MGC19636	uc002cyo.2	Q96G04	OTTHUMG00000129527	ENST00000427587.4:c.452A>T	16.37:g.5140457T>A	ENSP00000398502:p.Glu151Val	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUF0|Q96S85	Missense_Mutation	SNP	ENST00000427587.4	37	CCDS10529.1	.	.	.	.	.	.	.	.	.	.	t	17.73	3.461895	0.63513	.	.	ENSG00000118894	ENST00000458008;ENST00000427587	T;T	0.20200	2.09;2.09	5.02	5.02	0.67125	.	0.188239	0.45867	D	0.000338	T	0.21761	0.0524	N	0.26042	0.785	0.44337	D	0.997227	P;P	0.40731	0.682;0.728	P;P	0.46850	0.522;0.529	T	0.02042	-1.1224	10	0.51188	T	0.08	.	12.2508	0.54597	0.0:0.0:0.0:1.0	.	117;151	Q96G04-2;Q96G04	.;FA86A_HUMAN	V	117;151	ENSP00000389710:E117V;ENSP00000398502:E151V	ENSP00000398502:E151V	E	-	2	0	FAM86A	5080458	0.999000	0.42202	0.910000	0.35882	0.241000	0.25554	6.872000	0.75536	2.117000	0.64856	0.370000	0.22315	GAG		0.642	FAM86A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251713.1	NM_201400		A	5140457	T	A	5140457	3	1	577	1	0	0	0	0	1	0	0	0	5650	1551	54	5	556	5	FAM86A	16	5140457	Missense_Mutation	SNP	T	TCGA-DZ-6134-01A-11D-1961-08		5140457	85214296	42	34298										
TPPP3	51673	broad.mit.edu;bcgsc.ca	37	chr16	67424233	67424233	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	gtgtatctgctggtgtccgtCagccggtctacagcaccccc	11	15	3	0			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr16:67424233C>G	ENST00000564104.1	-	3	1216	c.375G>C	c.(373-375)ctG>ctC	p.L125L	TPPP3_ENST00000393957.2_Silent_p.L125L|RNU1-123P_ENST00000458950.1_RNA|TPPP3_ENST00000290942.5_Silent_p.L125L|TPPP3_ENST00000562206.1_Silent_p.L125L			Q9BW30	TPPP3_HUMAN	tubulin polymerization-promoting protein family member 3	125					microtubule bundle formation (GO:0001578)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)	tubulin binding (GO:0015631)			central_nervous_system(1)|endometrium(2)|large_intestine(1)|lung(2)|prostate(1)	7		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0336)|Epithelial(162;0.0781)		TGGTGTCCGTCAGCCGGTCTA	0.617																																																0													129	119	122					16																	67424233		2198	4300	6498	SO:0001819	synonymous_variant	51673			BC000691	CCDS10835.1	16q22.1	2008-02-05			ENSG00000159713	ENSG00000159713			24162	protein-coding gene	gene with protein product						15590652, 17105200	Standard	XM_005255979		Approved	CGI-38, p25gamma, p20	uc002etb.3	Q9BW30	OTTHUMG00000137516	ENST00000564104.1:c.375G>C	16.37:g.67424233C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q49AH9|Q9Y326|Q9Y6H0	Silent	SNP	ENST00000564104.1	37	CCDS10835.1																																																																																				0.617	TPPP3-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000421787.2	NM_015964		G	67424233	C	G	67424233	2	3	577	1	0	0	0	0	0	0	0	1	16427	813	29	4		4	TPPP3	16	67424233	Silent	SNP	C	TCGA-DZ-6134-01A-11D-1961-08	62283776	67424233	22930520	43	34299										
MYH2	4620	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	10426831	10426831	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	accctggcctccagtttctgGatctgcttcttcccaccctt	6	17	3	0			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr17:10426831G>A	ENST00000245503.5	-	37	5838	c.5454C>T	c.(5452-5454)atC>atT	p.I1818I	MYH2_ENST00000397183.2_Silent_p.I1818I|RP11-799N11.1_ENST00000399342.2_RNA|MYH2_ENST00000532183.2_Intron|CTC-297N7.11_ENST00000587182.2_RNA|RP11-799N11.1_ENST00000581304.1_RNA	NM_017534.5	NP_060004.3	Q9UKX2	MYH2_HUMAN	myosin, heavy chain 2, skeletal muscle, adult	1818					Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|membrane organization (GO:0061024)|metabolic process (GO:0008152)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|plasma membrane repair (GO:0001778)|response to activity (GO:0014823)	A band (GO:0031672)|actomyosin contractile ring (GO:0005826)|cell-cell junction (GO:0005911)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|muscle myosin complex (GO:0005859)|myofibril (GO:0030016)|myosin filament (GO:0032982)|protein complex (GO:0043234)|sarcomere (GO:0030017)	ATP binding (GO:0005524)|microfilament motor activity (GO:0000146)			NS(1)|biliary_tract(1)|breast(9)|central_nervous_system(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(16)|lung(99)|ovary(6)|pancreas(4)|prostate(3)|skin(8)|upper_aerodigestive_tract(2)|urinary_tract(4)	176						CCAGTTTCTGGATCTGCTTCT	0.507																																																0													97	103	101					17																	10426831		2203	4300	6503	SO:0001819	synonymous_variant	4620				CCDS11156.1	17p13.1	2014-02-04	2006-09-29		ENSG00000125414	ENSG00000125414		"Myosins / Myosin superfamily : Class II"	7572	protein-coding gene	gene with protein product		160740	"myosin, heavy polypeptide 2, skeletal muscle, adult", "inclusion body myopathy 3, autosomal dominant"	IBM3		7545970, 11889243	Standard	NM_001100112		Approved	MYH2A, MYHSA2, MyHC-IIa, MYHas8, MyHC-2A	uc010coi.3	Q9UKX2	OTTHUMG00000130363	ENST00000245503.5:c.5454C>T	17.37:g.10426831G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0AVL4|Q14322|Q16229|Q567P6|Q86T56	Silent	SNP	ENST00000245503.5	37	CCDS11156.1																																																																																				0.507	MYH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252726.3	NM_017534		A	10426831	G	A	10426831	2	1	577	1	0	0	0	0	0	0	0	1	10042	1164	41	2		2	MYH2	17	10426831	Silent	SNP	G	TCGA-DZ-6134-01A-11D-1961-08		10426831	70768379	44	34300										
FAM18B2	201158	ucsc.edu	37	chr17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	tgagcaactcacagagaagaCagacgatgattgcactgact	10	9	1	6			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr17:15457087C>T	ENST00000225576.3	-	3	247	c.152G>A	c.(151-153)tGt>tAt	p.C51Y	TVP23C_ENST00000519970.1_Intron|TVP23C-CDRT4_ENST00000522212.2_Missense_Mutation_p.C51Y|TVP23C_ENST00000428082.2_Missense_Mutation_p.C51Y|TVP23C_ENST00000518321.1_Missense_Mutation_p.C51Y|TVP23C_ENST00000438826.3_Missense_Mutation_p.C51Y|TVP23C_ENST00000584811.1_5'UTR	NM_145301.2	NP_660344.2	Q96ET8	TV23C_HUMAN	trans-golgi network vesicle protein 23 homolog C (S. cerevisiae)	51						integral component of membrane (GO:0016021)											ACAGAGAAGACAGACGATGAT	0.373																																																0													274	265	268					17																	15457087		2203	4300	6503	SO:0001583	missense	201158			BC011952	CCDS11170.1, CCDS45617.1	17p12	2012-11-29	2012-11-29	2012-11-29	ENSG00000175106	ENSG00000175106			30453	protein-coding gene	gene with protein product			"family with sequence similarity 18, member B2"	FAM18B2			Standard	NM_001135036		Approved	MGC8763	uc002goq.2	Q96ET8	OTTHUMG00000171461	ENST00000225576.3:c.152G>A	17.37:g.15457087C>T	ENSP00000225576:p.Cys51Tyr	Somatic		WXS	Illumina HiSeq		Q3LIC7	Missense_Mutation	SNP	ENST00000225576.3	37	CCDS11170.1	.	.	.	.	.	.	.	.	.	.	.	2.368	-0.344949	0.05208	.	.	ENSG00000259024;ENSG00000175106;ENSG00000175106;ENSG00000175106	ENST00000522212;ENST00000225576;ENST00000428082;ENST00000438826	T;T;T;T	0.25749	1.78;1.78;1.78;1.78	4.47	4.47	0.54385	.	0.000000	0.85682	N	0.000000	T	0.02571	0.0078	N	0.00004	-3.335	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.06405	0.0;0.0;0.002	T	0.38457	-0.9660	10	0.02654	T	1	-3.8701	9.492	0.38965	0.0:0.0877:0.0:0.9123	.	51;51;51	Q96ET8-2;Q96ET8-3;Q96ET8	.;.;F18B2_HUMAN	Y	51	ENSP00000429865:C51Y;ENSP00000225576:C51Y;ENSP00000406387:C51Y;ENSP00000413355:C51Y	ENSP00000225576:C51Y	C	-	2	0	RP11-726O12.1;FAM18B2	15397812	1.000000	0.71417	1.000000	0.80357	0.703000	0.40648	6.178000	0.71968	0.670000	0.31165	-0.442000	0.05670	TGT		0.373	TVP23C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000130705.2	NM_145301		T	15457087	C	T	15457087	3	4	577	1	0	0	0	0	1	0	0	0	5524	478	17	2	848	2	FAM18B2	17	15457087	Missense_Mutation	SNP	C	TCGA-DZ-6134-01A-11D-1961-08	5030256	15457087	65738123	45	34301										
RHBDL3	162494	bcgsc.ca	37	chr17	30632400	30632400	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	gctgacatgaccgctccagtCgtgggctcttctggaggggt	15	11	2	2			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr17:30632400C>T	ENST00000269051.4	+	7	836	c.822C>T	c.(820-822)gtC>gtT	p.V274V	RHBDL3_ENST00000538145.1_Silent_p.V266V|RHBDL3_ENST00000536287.1_Silent_p.V176V	NM_138328.2	NP_612201.1	P58872	RHBL3_HUMAN	rhomboid, veinlet-like 3 (Drosophila)	274						integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)|serine-type endopeptidase activity (GO:0004252)			breast(1)|endometrium(1)|large_intestine(5)|lung(5)|ovary(1)|prostate(2)|skin(1)	16		Breast(31;0.116)|Ovarian(249;0.182)				CCGCTCCAGTCGTGGGCTCTT	0.572																																																0													174	140	151					17																	30632400		2203	4300	6503	SO:0001819	synonymous_variant	162494			AJ313480	CCDS32613.1	17q11.2	2013-01-10				ENSG00000141314		"EF-hand domain containing"	16502	protein-coding gene	gene with protein product			"rhomboid, veinlet-like 4 (Drosophila)"	RHBDL4		11900977	Standard	XM_006721733		Approved	VRHO	uc002hhe.1	P58872		ENST00000269051.4:c.822C>T	17.37:g.30632400C>T		Somatic		WXS	Illumina HiSeq	Phase_1	A6NMH1|Q495Y4|Q495Y5|Q495Y6	Silent	SNP	ENST00000269051.4	37	CCDS32613.1																																																																																				0.572	RHBDL3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000447120.1	NM_138328		T	30632400	C	T	30632400	2	4	577	1	0	0	0	0	0	0	0	1	13336	871	31	1		1	RHBDL3	17	30632400	Silent	SNP	C	TCGA-DZ-6134-01A-11D-1961-08	15175313	30632400	50562810	46	34302										
RDM1	201299	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	34257138	34257138	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	atgccttttgggctctgtggGcagcccttgcagaataaaac	11	10	1	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr17:34257138G>A	ENST00000293273.6	-	2	263	c.218C>T	c.(217-219)gCc>gTc	p.A73V	RDM1_ENST00000394527.1_Missense_Mutation_p.A50V|RDM1_ENST00000394528.3_Missense_Mutation_p.A73V|RDM1_ENST00000431884.2_Missense_Mutation_p.A73V|RDM1_ENST00000591402.1_Missense_Mutation_p.A50V|RDM1_ENST00000430160.2_Missense_Mutation_p.A50V|RDM1_ENST00000425909.3_Missense_Mutation_p.A73V|RDM1_ENST00000419453.2_Missense_Mutation_p.A50V|RDM1_ENST00000394529.3_Missense_Mutation_p.A50V	NM_145654.3	NP_663629.1	Q8NG50	RDM1_HUMAN	RAD52 motif containing 1	73	Necessary for nuclear localization and for nucleolar accumulation in response to heat shock.|RRM. {ECO:0000255|PROSITE- ProRule:PRU00176}.				DNA recombination (GO:0006310)|DNA repair (GO:0006281)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)	DNA binding (GO:0003677)|nucleotide binding (GO:0000166)|RNA binding (GO:0003723)			breast(1)|kidney(3)|large_intestine(2)|ovary(1)|skin(1)|stomach(1)	9		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		GGCTCTGTGGGCAGCCCTTGC	0.493								Other identified genes with known or suspected DNA repair function																																								0													115	125	122					17																	34257138		2203	4300	6503	SO:0001583	missense	201299			AB080728	CCDS11301.1, CCDS42299.1, CCDS54111.1, CCDS54108.1, CCDS54109.1, CCDS54110.1, CCDS59280.1, CCDS59281.1	17q11.2	2014-04-10	2014-04-10	2005-10-20	ENSG00000187456	ENSG00000278023		"RNA binding motif (RRM) containing"	19950	protein-coding gene	gene with protein product		612896	"RAD52 homolog B (S. cerevisiae)", "RAD52 motif 1"	RAD52B		15611051	Standard	NM_001163120		Approved	MGC33977	uc002hkh.3	Q8NG50	OTTHUMG00000188399	ENST00000293273.6:c.218C>T	17.37:g.34257138G>A	ENSP00000293273:p.Ala73Val	Somatic		WXS	Illumina HiSeq	Phase_I	A0JP55|A8MV46|A8MY68|A8MZ92|A8RCS5|A8RCT0|A8RCT5|A8RCT8|A8RCU3|A8RCU8|A8RCW0|A8RCW5	Missense_Mutation	SNP	ENST00000293273.6	37	CCDS11301.1	.	.	.	.	.	.	.	.	.	.	G	15.35	2.807688	0.50421	.	.	ENSG00000187456	ENST00000293273;ENST00000394529;ENST00000431884;ENST00000425909;ENST00000436836;ENST00000430160;ENST00000394528;ENST00000394527	T;T;T;T;T;T;T;T	0.29142	1.58;1.58;1.58;1.58;1.58;1.58;1.58;1.58	3.78	3.78	0.43462	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (2);	0.134512	0.49916	D	0.000140	T	0.52108	0.1714	M	0.79475	2.455	0.35240	D	0.777732	D;D;P;P;P;D;D;D;P	0.54397	0.957;0.957;0.946;0.859;0.946;0.957;0.957;0.966;0.946	P;P;B;B;P;P;P;P;P	0.61874	0.751;0.491;0.41;0.41;0.636;0.491;0.545;0.895;0.636	T	0.67090	-0.5758	10	0.54805	T	0.06	-6.8607	13.5182	0.61553	0.0:0.0:1.0:0.0	.	50;50;73;73;50;50;73;73;50	B4DZ74;Q8NG50-4;Q8NG50-5;Q8NG50-10;Q8NG50-2;Q8NG50-11;A8MY68;Q8NG50;Q8NG50-6	.;.;.;.;.;.;.;RDM1_HUMAN;.	V	73;50;73;73;73;50;73;50	ENSP00000293273:A73V;ENSP00000378037:A50V;ENSP00000391290:A73V;ENSP00000393620:A73V;ENSP00000397431:A73V;ENSP00000413421:A50V;ENSP00000378036:A73V;ENSP00000378035:A50V	ENSP00000293273:A73V	A	-	2	0	RDM1	31281251	1.000000	0.71417	0.014000	0.15608	0.101000	0.19017	4.843000	0.62838	2.141000	0.66446	0.655000	0.94253	GCC		0.493	RDM1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256588.2	NM_145654		A	34257138	G	A	34257138	3	1	577	1	0	0	0	0	1	0	0	0	13210	1203	42	2	704	2	RDM1	17	34257138	Missense_Mutation	SNP	G	TCGA-DZ-6134-01A-11D-1961-08	3624738	34257138	46938072	47	34303										
MLX	6945	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	40720856	40720856	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	cccccatctctgagcgtagaTgatgaggacagtgattacca	10	11	1	5			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr17:40720856T>C	ENST00000246912.4	+	4	386	c.333T>C	c.(331-333)gaT>gaC	p.D111D	MLX_ENST00000435881.2_Splice_Site_p.D57D|MLX_ENST00000346833.4_Splice_Site_p.D27D	NM_170607.2	NP_733752.1	Q9UH92	MLX_HUMAN	MLX, MAX dimerization protein	111					energy reserve metabolic process (GO:0006112)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|nucleocytoplasmic transport (GO:0006913)|positive regulation of cellular metabolic process (GO:0031325)|regulation of transcription, DNA-templated (GO:0006355)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001227)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)			kidney(3)|large_intestine(4)|lung(1)|ovary(1)|urinary_tract(1)	10		all_cancers(22;4.26e-05)|Breast(137;0.000153)|all_epithelial(22;0.00148)		BRCA - Breast invasive adenocarcinoma(366;0.129)		TGAGCGTAGATGATGAGGACA	0.607																																					GBM(121;657 1601 4665 24731 34640)											0													30	26	27					17																	40720856		2203	4300	6503	SO:0001630	splice_region_variant	6945			AF213668	CCDS11430.1, CCDS42341.1, CCDS45687.1	17q21.1	2013-05-21	2012-11-15	2005-02-11		ENSG00000108788		"MAX dimerization proteins", "Basic helix-loop-helix proteins"	11645	protein-coding gene	gene with protein product		602976	"transcription factor-like 4", "MAX-like protein X"	TCFL4		8973301	Standard	NM_170607		Approved	MAD7, MXD7, bHLHd13	uc002iag.3	Q9UH92		ENST00000246912.4:c.332-1T>C	17.37:g.40720856T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K2J3|B2RAV8|B2RD73|Q53XM6|Q96FL2|Q9H2V0|Q9H2V1|Q9H2V2|Q9NXN3	Silent	SNP	ENST00000246912.4	37	CCDS11430.1																																																																																				0.607	MLX-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000450415.1	NM_170607	Silent	C	40720856	T	C	40720856	5	2	577	1	0	0	0	0	0	0	1	0	9642	1478	51	3	347	3	MLX	17	40720856	Splice_Site	SNP	T	TCGA-DZ-6134-01A-11D-1961-08	6463718	40720856	40474354	48	34304										
KCNN1	3780	broad.mit.edu	37	chr19	18109140	18109140	+	Frame_Shift_Del	DEL	C	C	-													0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	cccctgcctcccaggcccggCcccggcccccaagaccaggc							TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr19:18109140delC	ENST00000222249.9	+	11	1876	c.1557delC	c.(1555-1557)ggcfs	p.G519fs	ARRDC2_ENST00000379656.3_5'Flank	NM_002248.3	NP_002239.2	Q92952	KCNN1_HUMAN	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 1	519				PLPPRPGPGPQDQAARSSPCRWTPVAPSDC -> RLPRQRA GLDH (in Ref. 3; BAD86831). {ECO:0000305}.	potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|synaptic transmission (GO:0007268)	neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	calcium-activated potassium channel activity (GO:0015269)|calmodulin binding (GO:0005516)|small conductance calcium-activated potassium channel activity (GO:0016286)			endometrium(1)|kidney(1)|lung(5)|urinary_tract(1)	8					Miconazole(DB01110)|Procaine(DB00721)	CCAGGCCCGGCCCCGGCCCCC	0.751																																																0													2	3	3					19																	18109140		1429	3432	4861	SO:0001589	frameshift_variant	3780			U69883	CCDS67611.1	19p13.1	2012-07-05				ENSG00000105642		"Potassium channels", "Voltage-gated ion channels / Potassium channels, calcium-activated"	6290	protein-coding gene	gene with protein product		602982				8781233, 10516439, 16382103	Standard	NM_002248		Approved	KCa2.1, hSK1	uc002nht.3	Q92952		ENST00000222249.9:c.1557delC	19.37:g.18109140delC	ENSP00000476519:p.Gly519fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5KR10|Q6DJU4	Frame_Shift_Del	DEL	ENST00000222249.9	37																																																																																					0.751	KCNN1-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000471896.2	NM_002248		-	18109140	C	-	18109140	7	5	577	1	0	1	0	1	0	0	0	0	8085	726	26	0	1591	0	KCNN1	19	18109140	Frame_Shift_Del	DEL	C	TCGA-DZ-6134-01A-11D-1961-08		18109140	41019843	49	34305										
NR2C2AP	126382	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	19313644	19313645	+	Frame_Shift_Ins	INS	-	-	T													0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	tcatcctggtcgaaaagatgINStttttttccaaactgccgag							TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr19:19313644_19313645insT	ENST00000331552.7	-	2	447_448	c.84_85insA	c.(82-87)aaacatfs	p.H29fs	NR2C2AP_ENST00000544883.1_Frame_Shift_Ins_p.H29fs|NR2C2AP_ENST00000420605.3_Frame_Shift_Ins_p.H29fs|NR2C2AP_ENST00000538165.2_Frame_Shift_Ins_p.H29fs	NM_176880.4	NP_795361.1	Q86WQ0	NR2CA_HUMAN	nuclear receptor 2C2-associated protein	29					cell adhesion (GO:0007155)|gene expression (GO:0010467)|transcription initiation from RNA polymerase II promoter (GO:0006367)	extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)				breast(1)|cervix(1)|kidney(2)|ovary(1)	5			Epithelial(12;0.00235)			TCGAAAAGATGTTTTTTTCCAA	0.54																																																0																																										SO:0001589	frameshift_variant	126382			AY101377	CCDS32967.1, CCDS74316.1	19p13.11	2008-01-10				ENSG00000184162			30763	protein-coding gene	gene with protein product	"TR4 orphan receptor associated protein TRA16"	608719				12486131	Standard	XM_005259740		Approved	TRA16	uc002nlx.3	Q86WQ0		ENST00000331552.7:c.85dupA	19.37:g.19313651_19313651dupT	ENSP00000332823:p.His29fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGP7|B4DW92	Frame_Shift_Ins	INS	ENST00000331552.7	37	CCDS32967.1																																																																																				0.54	NR2C2AP-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402936.4	NM_176880		T	19313645	-	T	19313644	7	5	577	1	0	1	1	0	0	0	0	0	10631	1377	48	0	350	0	NR2C2AP	19	19313644	Frame_Shift_Ins	INS	-	TCGA-DZ-6134-01A-11D-1961-08	1204504	19313644	39815339	50	34306										
MLL4	9757	ucsc.edu	37	chr19	36228069	36228069	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ctccccggagcccagcgttgCcagcactataagttccgtta	9	15	0	0			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr19:36228069C>G	ENST00000222270.7	+	33	7455	c.7455C>G	c.(7453-7455)tgC>tgG	p.C2485W	IGFLR1_ENST00000587101.1_5'Flank|KMT2B_ENST00000607650.1_RNA|KMT2B_ENST00000420124.1_Missense_Mutation_p.C2485W	NM_014727.1	NP_055542.1	Q9UMN6	KMT2B_HUMAN	lysine (K)-specific methyltransferase 2B	2485	FYR C-terminal. {ECO:0000255|PROSITE- ProRule:PRU00876}.				chromatin-mediated maintenance of transcription (GO:0048096)|gene silencing (GO:0016458)|histone H3-K4 methylation (GO:0051568)|histone H3-K4 trimethylation (GO:0080182)|oocyte differentiation (GO:0009994)|ovarian follicle development (GO:0001541)|ovulation (GO:0030728)|regulation of histone H3-K4 methylation (GO:0051569)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)										CCCAGCGTTGCCAGCACTATA	0.627																																																0													19	22	21					19																	36228069		2107	4231	6338	SO:0001583	missense	8085			AJ007041	CCDS46055.1	19q13.1	2014-02-18			ENSG00000105663	ENSG00000272333		"Chromatin-modifying enzymes / K-methyltransferases"	15840	protein-coding gene	gene with protein product	"myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila) 4"	606834				10409430, 10637508	Standard	XM_006723513		Approved	KIAA0304, MLL2, TRX2, HRX2, WBP7, MLL1B, MLL4		Q9UMN6	OTTHUMG00000048119	ENST00000222270.7:c.7455C>G	19.37:g.36228069C>G	ENSP00000222270:p.Cys2485Trp	Somatic		WXS	Illumina HiSeq		O15022|O95836|Q96GP2|Q96IP3|Q9UK25|Q9Y668|Q9Y669	Missense_Mutation	SNP	ENST00000222270.7	37	CCDS46055.1	.	.	.	.	.	.	.	.	.	.	C	9.266	1.044498	0.19748	.	.	ENSG00000105663	ENST00000222270;ENST00000420124	T;T	0.58210	0.35;0.35	4.8	1.51	0.23008	FY-rich, C-terminal (1);FY-rich, C-terminal subgroup (1);	0.000000	0.47093	D	0.000255	T	0.69205	0.3085	M	0.80183	2.485	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.69113	-0.5231	10	0.87932	D	0	.	9.2199	0.37370	0.0:0.7553:0.0:0.2447	.	2485	Q9UMN6	MLL4_HUMAN	W	2485	ENSP00000222270:C2485W;ENSP00000398837:C2485W	ENSP00000222270:C2485W	C	+	3	2	AD000671.1	40919909	1.000000	0.71417	1.000000	0.80357	0.881000	0.50899	1.334000	0.33827	0.243000	0.21327	-0.253000	0.11424	TGC		0.627	KMT2B-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_014727		G	36228069	C	G	36228069	3	3	577	1	0	0	0	0	1	0	0	0	9630	747	26	4	7585	4	MLL4	19	36228069	Missense_Mutation	SNP	C	TCGA-DZ-6134-01A-11D-1961-08	16914425	36228069	22900914	51	34307										
ZNF568	374900	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	37441598	37441598	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	gaaaagcctttagtcagaaaTcaaacctcactgaacatgag	7	9	3	3	rs201711551		TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr19:37441598T>C	ENST00000333987.7	+	7	2049	c.1543T>C	c.(1543-1545)Tca>Cca	p.S515P	ZNF568_ENST00000455427.2_Intron|ZNF568_ENST00000427117.1_Intron|ZNF568_ENST00000415168.1_Missense_Mutation_p.S451P	NM_001204835.1|NM_198539.3	NP_001191764.1|NP_940941.2	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	515					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(13)|lung(9)|ovary(1)	29	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TAGTCAGAAATCAAACCTCAC	0.383													T|||	1	0.000199681	0.0	0.0	5008	,	,		19315	0.0		0.001	False		,,,				2504	0.0															0								T	PRO/SER,PRO/SER,PRO/SER,,,PRO/SER	0,4270		0,0,2135	61	67	65		1540,1351,1351,,,1543	1.6	1	19		65	4,8558		0,4,4277	yes	missense,missense,missense,intron,intron,missense	ZNF568	NM_001204835.1,NM_001204836.1,NM_001204837.1,NM_001204838.1,NM_001204839.1,NM_198539.3	74,74,74,,,74	0,4,6412	CC,CT,TT		0.0467,0.0,0.0312	probably-damaging,probably-damaging,probably-damaging,,,probably-damaging	514/644,451/581,451/581,,,515/645	37441598	4,12828	2135	4281	6416	SO:0001583	missense	374900			BX640681	CCDS42558.1, CCDS56092.1, CCDS56093.1, CCDS74351.1	19q13.12	2013-09-20			ENSG00000198453	ENSG00000198453		"Zinc fingers, C2H2-type", "-"	25392	protein-coding gene	gene with protein product							Standard	NM_198539		Approved	DKFZp686B0797	uc002ofc.3	Q3ZCX4	OTTHUMG00000048160	ENST00000333987.7:c.1543T>C	19.37:g.37441598T>C	ENSP00000334685:p.Ser515Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DS92|E7ER33|Q6N060|Q8NA64	Missense_Mutation	SNP	ENST00000333987.7	37	CCDS42558.1	0	0.0	0	0.0	0	0.0	0	0.0	0	0.0	T	14.80	2.645026	0.47258	0.0	4.67E-4	ENSG00000198453	ENST00000333987;ENST00000415168	T;T	0.07908	3.15;3.15	3.96	1.61	0.23674	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.28847	N	0.013944	T	0.27765	0.0683	M	0.84433	2.695	0.23865	N	0.996623	D	0.89917	1.0	D	0.91635	0.999	T	0.02333	-1.1175	10	0.87932	D	0	.	9.0886	0.36596	0.0:0.0:0.346:0.654	.	515	Q3ZCX4	ZN568_HUMAN	P	515;451	ENSP00000334685:S515P;ENSP00000394514:S451P	ENSP00000334685:S515P	S	+	1	0	ZNF568	42133438	0.000000	0.05858	0.961000	0.40146	0.992000	0.81027	-0.500000	0.06405	0.660000	0.30964	0.383000	0.25322	TCA		0.383	ZNF568-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109572.2	NM_198539		C	37441598	T	C	37441598	3	2	577	1	0	0	0	0	1	0	0	0	18011	1435	50	3	1561	3	ZNF568	19	37441598	Missense_Mutation	SNP	T	TCGA-DZ-6134-01A-11D-1961-08	1213529	37441598	21687385	52	34308										
DHDH	27294	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	49447704	49447704	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	cagtcccaaaggactgcaatTttgacaacggggcaggcatg	12	10	0	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr19:49447704T>G	ENST00000221403.2	+	6	875	c.835T>G	c.(835-837)Ttt>Gtt	p.F279V	DHDH_ENST00000522614.1_Intron|DHDH_ENST00000523250.1_Missense_Mutation_p.F140V	NM_014475.3	NP_055290.1	Q9UQ10	DHDH_HUMAN	dihydrodiol dehydrogenase (dimeric)	279					carbohydrate metabolic process (GO:0005975)|D-xylose catabolic process (GO:0042843)		D-xylose 1-dehydrogenase (NADP+) activity (GO:0047837)|electron carrier activity (GO:0009055)|NAD(P)+ transhydrogenase activity (GO:0008746)|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity (GO:0047115)			central_nervous_system(1)|large_intestine(3)|lung(3)|ovary(1)|soft_tissue(1)	9		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000158)|all cancers(93;0.000258)|Epithelial(262;0.0173)|GBM - Glioblastoma multiforme(486;0.0179)		GGACTGCAATTTTGACAACGG	0.622																																																0													65	63	63					19																	49447704		2203	4300	6503	SO:0001583	missense	27294			AB021933	CCDS12741.1	19q13.3	2008-02-05			ENSG00000104808	ENSG00000104808	1.3.1.20		17887	protein-coding gene	gene with protein product		606377				10477285	Standard	NM_014475		Approved	HUM2DD	uc002ple.1	Q9UQ10	OTTHUMG00000165029	ENST00000221403.2:c.835T>G	19.37:g.49447704T>G	ENSP00000221403:p.Phe279Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000221403.2	37	CCDS12741.1	.	.	.	.	.	.	.	.	.	.	T	17.70	3.453658	0.63290	.	.	ENSG00000104808	ENST00000221403;ENST00000523250	T;T	0.21361	2.01;2.01	4.89	3.87	0.44632	.	0.210406	0.49916	D	0.000136	T	0.23330	0.0564	M	0.77616	2.38	0.80722	D	1	B	0.27117	0.168	B	0.28638	0.092	T	0.05903	-1.0857	10	0.33940	T	0.23	-6.6788	6.733	0.23393	0.0:0.1029:0.0:0.8971	.	279	Q9UQ10	DHDH_HUMAN	V	279;140	ENSP00000221403:F279V;ENSP00000428935:F140V	ENSP00000221403:F279V	F	+	1	0	DHDH	54139516	1.000000	0.71417	0.040000	0.18447	0.014000	0.08584	4.583000	0.60964	2.183000	0.69458	0.402000	0.26972	TTT		0.622	DHDH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381477.1	NM_014475		G	49447704	T	G	49447704	3	3	577	1	0	0	0	0	1	0	0	0	4481	1841	64	5	857	5	DHDH	19	49447704	Missense_Mutation	SNP	T	TCGA-DZ-6134-01A-11D-1961-08	12006106	49447704	9681279	53	34309			1	67		2	2	25	T		4.57402e-05
DHDH	27294	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	49447728	49447728	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	acaacggggcaggcatgagtTatgaggccaagcacgtctgg	15	9	1	2			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr19:49447728T>A	ENST00000221403.2	+	6	899	c.859T>A	c.(859-861)Tat>Aat	p.Y287N	DHDH_ENST00000522614.1_Intron|DHDH_ENST00000523250.1_Missense_Mutation_p.Y148N	NM_014475.3	NP_055290.1	Q9UQ10	DHDH_HUMAN	dihydrodiol dehydrogenase (dimeric)	287					carbohydrate metabolic process (GO:0005975)|D-xylose catabolic process (GO:0042843)		D-xylose 1-dehydrogenase (NADP+) activity (GO:0047837)|electron carrier activity (GO:0009055)|NAD(P)+ transhydrogenase activity (GO:0008746)|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity (GO:0047115)			central_nervous_system(1)|large_intestine(3)|lung(3)|ovary(1)|soft_tissue(1)	9		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000158)|all cancers(93;0.000258)|Epithelial(262;0.0173)|GBM - Glioblastoma multiforme(486;0.0179)		AGGCATGAGTTATGAGGCCAA	0.627																																																0													70	67	68					19																	49447728		2203	4300	6503	SO:0001583	missense	27294			AB021933	CCDS12741.1	19q13.3	2008-02-05			ENSG00000104808	ENSG00000104808	1.3.1.20		17887	protein-coding gene	gene with protein product		606377				10477285	Standard	NM_014475		Approved	HUM2DD	uc002ple.1	Q9UQ10	OTTHUMG00000165029	ENST00000221403.2:c.859T>A	19.37:g.49447728T>A	ENSP00000221403:p.Tyr287Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000221403.2	37	CCDS12741.1	.	.	.	.	.	.	.	.	.	.	T	34	5.369860	0.95900	.	.	ENSG00000104808	ENST00000221403;ENST00000523250	T;T	0.24151	1.87;1.87	5.03	5.03	0.67393	.	0.000000	0.85682	D	0.000000	T	0.55784	0.1942	M	0.90483	3.12	0.80722	D	1	D	0.89917	1.0	D	0.79108	0.992	T	0.63301	-0.6668	10	0.59425	D	0.04	-13.1857	11.3361	0.49505	0.0:0.0:0.0:1.0	.	287	Q9UQ10	DHDH_HUMAN	N	287;148	ENSP00000221403:Y287N;ENSP00000428935:Y148N	ENSP00000221403:Y287N	Y	+	1	0	DHDH	54139540	0.999000	0.42202	0.059000	0.19551	0.914000	0.54420	6.248000	0.72418	2.252000	0.74401	0.402000	0.26972	TAT		0.627	DHDH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381477.1	NM_014475		A	49447728	T	A	49447728	3	1	577	1	0	0	0	0	1	0	0	0	4481	1754	61	5	881	5	DHDH	19	49447728	Missense_Mutation	SNP	T	TCGA-DZ-6134-01A-11D-1961-08	24	49447728	9681255	54	34310			1	67		2	2	25	T		4.57402e-05
ZSCAN18	65982	broad.mit.edu	37	chr19	58596700	58596700	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ggcagcacccccgcgggggcGgcctcctcgcaggcgcaccc	15	20	0	0	rs200010643	byFrequency	TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr19:58596700G>A	ENST00000240727.6	-	7	1284	c.885C>T	c.(883-885)gcC>gcT	p.A295A	ZSCAN18_ENST00000600404.1_Silent_p.A351A|ZSCAN18_ENST00000421612.2_Silent_p.A159A|ZSCAN18_ENST00000601144.1_Silent_p.A295A	NM_023926.4	NP_076415.3	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	295					regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)			NS(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(8)|skin(3)	19		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)		CCGCGGGGGCGGCCTCCTCGC	0.741													G|||	6	0.00119808	0.0038	0.0014	5008	,	,		12777	0.0		0.0	False		,,,				2504	0.0															0													6	8	8					19																	58596700		1513	3173	4686	SO:0001819	synonymous_variant	65982			AY280799, AY279352	CCDS12971.1, CCDS46214.1, CCDS46215.1	19q13.43	2013-01-09	2007-02-20	2007-02-20		ENSG00000121413		"-", "Zinc fingers, C2H2-type"	21037	protein-coding gene	gene with protein product			"zinc finger protein 447"	ZNF447			Standard	NM_001145542		Approved	FLJ12895	uc010yht.1	Q8TBC5		ENST00000240727.6:c.885C>T	19.37:g.58596700G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DG23|E9PBI0|Q9BRK7|Q9H9A0	Silent	SNP	ENST00000240727.6	37	CCDS12971.1																																																																																				0.741	ZSCAN18-003	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000466706.1	NM_023926		A	58596700	G	A	58596700	2	1	577	1	0	0	0	0	0	0	0	1	18242	1103	39	1		1	ZSCAN18	19	58596700	Silent	SNP	G	TCGA-DZ-6134-01A-11D-1961-08	9148972	58596700	532283	55	34311										
C20orf141	128653	ucsc.edu;bcgsc.ca	37	chr20	2796280	2796281	+	Nonsense_Mutation	DNP	GC	GC	TT													0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	cagcaggaggctctactcctGcaaatgggtacagtctcagg							TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr20:2796280_2796281GC>TT	ENST00000380589.4	+	2	531_532	c.357_358GC>TT	c.(355-360)ctGCaa>ctTTaa	p.Q120*	TMEM239_ENST00000380593.4_Intron|C20orf141_ENST00000603872.1_Nonsense_Mutation_p.Q120*|TMEM239_ENST00000554164.1_Intron|TMEM239_ENST00000380585.1_5'Flank|TMEM239_ENST00000361033.1_5'Flank	NM_080739.2	NP_542777.1	Q9NUB4	CT141_HUMAN	chromosome 20 open reading frame 141	120	Leu-rich.					integral component of membrane (GO:0016021)				endometrium(4)|kidney(1)|large_intestine(1)|lung(3)|prostate(1)	10						CTCTACTCCTGCAAATGGGTAC	0.629																																																0																																										SO:0001587	stop_gained	128653				CCDS13034.1	20p13	2012-10-30			ENSG00000258713	ENSG00000258713			16134	protein-coding gene	gene with protein product							Standard	NM_001256538		Approved	dJ860F19.4	uc002wgw.3	Q9NUB4	OTTHUMG00000031707	Exception_encountered	20.37:g.2796280_2796281delinsTT	ENSP00000369963:p.Gln120*	Somatic		WXS	Illumina HiSeq			Nonsense_Mutation	DNP	ENST00000380589.4	37	CCDS13034.1																																																																																				0.629	C20orf141-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077644.2	NM_080739		TT	2796281	GC	TT	2796280	4	4	577	1	0	0	0	0	0	1	0	0	2091	1306	46	4	363	4	C20orf141	20	2796280	Nonsense_Mutation	DNP	GC	TCGA-DZ-6134-01A-11D-1961-08		2796280	60229240	56	34312										
NINL	22981	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	25469911	25469912	+	Nonsense_Mutation	DNP	GC	GC	TA													0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	gctcgtattccttcaggactGctgcgaaccgctcctcctgg							TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr20:25469911_25469912GC>TA	ENST00000278886.6	-	13	1718_1719	c.1645_1646GC>TA	c.(1645-1647)GCa>TAa	p.A549*	NINL_ENST00000422516.1_Nonsense_Mutation_p.A549*	NM_025176.4	NP_079452.3	Q9Y2I6	NINL_HUMAN	ninein-like	549					G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)	cytosol (GO:0005829)|microtubule (GO:0005874)	calcium ion binding (GO:0005509)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(13)|lung(25)|ovary(2)|pancreas(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	57						CTTCAGGACTGCTGCGAACCGC	0.614																																																0																																										SO:0001587	stop_gained	22981				CCDS33452.1	20p11.22-p11.1	2013-01-10			ENSG00000101004	ENSG00000101004		"EF-hand domain containing"	29163	protein-coding gene	gene with protein product	"ninein-like protein"	609580				10231032	Standard	XM_005260678		Approved	KIAA0980, NLP	uc002wux.1	Q9Y2I6	OTTHUMG00000032127	ENST00000278886.6:c.1645_1646delinsTA	20.37:g.25469911_25469912delinsTA	ENSP00000278886:p.Ala549*	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJN0|B3V9H6|B7Z1V8|Q5JYP0|Q8NE38|Q9NQE3	Nonsense_Mutation	DNP	ENST00000278886.6	37	CCDS33452.1																																																																																				0.614	NINL-007	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000078445.3	NM_025176		TA	25469912	GC	TA	25469911	4	4	577	1	0	0	0	0	0	1	0	0	10427	1319	46	4	2550	4	NINL	20	25469911	Nonsense_Mutation	DNP	GC	TCGA-DZ-6134-01A-11D-1961-08	22673631	25469911	37555609	57	34313										
TP53TG5	27296	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	44005872	44005872	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	ccagaggagatgcggagaatCtttggaacactgagcagtga	14	7	1	5			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chr20:44005872C>G	ENST00000372726.3	-	3	390	c.234G>C	c.(232-234)aaG>aaC	p.K78N	TP53TG5_ENST00000537995.1_Missense_Mutation_p.K62N|SYS1-DBNDD2_ENST00000475242.1_Intron|SYS1-DBNDD2_ENST00000452133.1_Intron|TP53TG5_ENST00000494455.1_5'UTR	NM_014477.2	NP_055292.1	Q9Y2B4	T53G5_HUMAN	TP53 target 5	78					intracellular signal transduction (GO:0035556)|negative regulation of cell growth (GO:0030308)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(3)|lung(2)|prostate(2)|upper_aerodigestive_tract(1)	12						TGCGGAGAATCTTTGGAACAC	0.512																																																0													168	155	160					20																	44005872		2203	4300	6503	SO:0001583	missense	27296			AB017802	CCDS13352.1	20q13.12	2008-09-18	2008-09-18	2008-09-18	ENSG00000124251	ENSG00000124251			15856	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 10"	C20orf10			Standard	NM_014477		Approved	CLG01, dJ453C12.5	uc002xny.3	Q9Y2B4	OTTHUMG00000032582	ENST00000372726.3:c.234G>C	20.37:g.44005872C>G	ENSP00000361811:p.Lys78Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000372726.3	37	CCDS13352.1	.	.	.	.	.	.	.	.	.	.	C	14.63	2.593647	0.46214	.	.	ENSG00000124251	ENST00000372726;ENST00000537995	T;T	0.18338	2.22;2.22	5.43	5.43	0.79202	.	1.020720	0.07785	N	0.953949	T	0.25195	0.0612	L	0.39898	1.24	0.09310	N	1	P	0.49090	0.919	P	0.48704	0.587	T	0.20438	-1.0275	10	0.66056	D	0.02	-0.733	12.8311	0.57746	0.0:0.8361:0.1639:0.0	.	78	Q9Y2B4	T53G5_HUMAN	N	78;62	ENSP00000361811:K78N;ENSP00000438374:K62N	ENSP00000361811:K78N	K	-	3	2	TP53TG5	43439286	0.039000	0.19947	0.020000	0.16555	0.437000	0.31866	2.319000	0.43788	2.720000	0.93068	0.591000	0.81541	AAG		0.512	TP53TG5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079460.1	NM_014477		G	44005872	C	G	44005872	3	3	577	1	0	0	0	0	1	0	0	0	16403	912	32	4	650	4	TP53TG5	20	44005872	Missense_Mutation	SNP	C	TCGA-DZ-6134-01A-11D-1961-08	18535961	44005872	19019648	58	34314										
CHST7	56548	hgsc.bcm.edu	37	chrX	46434588	46434588	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0677966101694915	4	1	1.05663531870428	4.35862068965517	0.322860791826309	0.485714285714286	1	0	tcgatgccttcgcgctcaacAtgactcgcggcgcggcctac	11	16	1	1			TCGA-DZ-6134-01A-11D-1961-08	TCGA-DZ-6134-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	230ddafa-8d9f-4ddc-b864-ba8eb42a31ab	8e8a3cd2-c9ae-4be6-8682-214badaa00a5	g.chrX:46434588A>C	ENST00000276055.3	+	1	1370	c.1222A>C	c.(1222-1224)Atg>Ctg	p.M408L		NM_019886.2	NP_063939.2	Q9NS84	CHST7_HUMAN	carbohydrate (N-acetylglucosamine 6-O) sulfotransferase 7	408					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|glycosaminoglycan metabolic process (GO:0030203)|N-acetylglucosamine metabolic process (GO:0006044)|polysaccharide metabolic process (GO:0005976)|small molecule metabolic process (GO:0044281)|sulfur compound metabolic process (GO:0006790)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	chondroitin 6-sulfotransferase activity (GO:0008459)|N-acetylglucosamine 6-O-sulfotransferase activity (GO:0001517)			breast(3)|endometrium(2)|kidney(1)|lung(2)	8						CGCGCTCAACATGACTCGCGG	0.746																																																0													1	1	1					X																	46434588		1003	1936	2939	SO:0001583	missense	56548			AB040711	CCDS14268.1	Xp11.3	2008-02-05			ENSG00000147119	ENSG00000147119		"Sulfotransferases, membrane-bound"	13817	protein-coding gene	gene with protein product		300375				10781596	Standard	NM_019886		Approved	C6ST-2, C6ST2	uc004dgt.3	Q9NS84	OTTHUMG00000021423	ENST00000276055.3:c.1222A>C	X.37:g.46434588A>C	ENSP00000276055:p.Met408Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O75667	Missense_Mutation	SNP	ENST00000276055.3	37	CCDS14268.1	.	.	.	.	.	.	.	.	.	.	A	22.0	4.226851	0.79576	.	.	ENSG00000147119	ENST00000276055	D	0.81908	-1.55	4.63	3.44	0.39384	Sulfotransferase domain (1);	0.103863	0.64402	D	0.000007	D	0.84857	0.5565	L	0.49455	1.56	0.39368	D	0.966037	D	0.60575	0.988	D	0.77557	0.99	T	0.80362	-0.1414	10	0.10636	T	0.68	-25.0942	8.8051	0.34932	0.8291:0.0:0.0:0.1709	.	408	Q9NS84	CHST7_HUMAN	L	408	ENSP00000276055:M408L	ENSP00000276055:M408L	M	+	1	0	CHST7	46319532	1.000000	0.71417	0.998000	0.56505	0.939000	0.58152	7.010000	0.76353	0.602000	0.29896	0.350000	0.21858	ATG		0.746	CHST7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056362.1	NM_019886		C	46434588	A	C	46434588	3	2	577	1	0	0	0	0	1	0	0	0	3411	217	8	5	1224	5	CHST7	23	46434588	Missense_Mutation	SNP	A	TCGA-DZ-6134-01A-11D-1961-08		46434588	108835972	59	34315										
SKI	6497	hgsc.bcm.edu	37	chr1	2160390	2160390	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	gggcgcggccgcggtgccggCgccggtgcccgcagccaccg	19	18	0	0	rs28384811	byFrequency	TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr1:2160390C>G	ENST00000378536.4	+	1	257	c.185C>G	c.(184-186)gCg>gGg	p.A62G		NM_003036.3	NP_003027.1	P12755	SKI_HUMAN	SKI proto-oncogene	62					anterior/posterior axis specification (GO:0009948)|BMP signaling pathway (GO:0030509)|bone morphogenesis (GO:0060349)|camera-type eye development (GO:0043010)|camera-type eye morphogenesis (GO:0048593)|cell motility (GO:0048870)|cell proliferation (GO:0008283)|embryonic limb morphogenesis (GO:0030326)|face morphogenesis (GO:0060325)|gene expression (GO:0010467)|lens morphogenesis in camera-type eye (GO:0002089)|myelination in peripheral nervous system (GO:0022011)|myotube differentiation (GO:0014902)|negative regulation of activin receptor signaling pathway (GO:0032926)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of cell proliferation (GO:0008285)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of Schwann cell proliferation (GO:0010626)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neural tube closure (GO:0001843)|nose morphogenesis (GO:0043585)|olfactory bulb development (GO:0021772)|palate development (GO:0060021)|positive regulation of DNA binding (GO:0043388)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of Wnt signaling pathway (GO:0030177)|protein homotrimerization (GO:0070207)|regulation of apoptotic process (GO:0042981)|retina development in camera-type eye (GO:0060041)|skeletal muscle fiber development (GO:0048741)|SMAD protein signal transduction (GO:0060395)|somatic stem cell maintenance (GO:0035019)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|transcription factor complex (GO:0005667)|transcriptional repressor complex (GO:0017053)	chromatin binding (GO:0003682)|histone deacetylase inhibitor activity (GO:0046811)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)|repressing transcription factor binding (GO:0070491)|SMAD binding (GO:0046332)|transcription corepressor activity (GO:0003714)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)			central_nervous_system(1)|kidney(2)|lung(5)|prostate(1)|stomach(1)	10	all_cancers(77;0.000139)|all_epithelial(69;4.45e-05)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)			Epithelial(90;2.14e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.72e-29)|GBM - Glioblastoma multiforme(42;2.45e-08)|Colorectal(212;5.33e-05)|COAD - Colon adenocarcinoma(227;0.000228)|Kidney(185;0.00268)|BRCA - Breast invasive adenocarcinoma(365;0.00471)|STAD - Stomach adenocarcinoma(132;0.0147)|KIRC - Kidney renal clear cell carcinoma(229;0.0385)|Lung(427;0.207)		gcggtgccggcgccggTGCCC	0.776													C|||	229	0.0457268	0.0234	0.0576	5008	,	,		4535	0.0079		0.0706	False		,,,				2504	0.0808				Ovarian(177;144 1678 13697 20086 27838 40755)											0													1	1	1					1																	2160390		788	1840	2628	SO:0001583	missense	6497			X15218	CCDS39.1	1p36.33	2014-06-25	2014-06-25		ENSG00000157933	ENSG00000157933		"SKI transcriptional corepressors"	10896	protein-coding gene	gene with protein product		164780	"v-ski avian sarcoma viral oncogene homolog"			2762147	Standard	NM_003036		Approved		uc001aja.4	P12755	OTTHUMG00000001407	ENST00000378536.4:c.185C>G	1.37:g.2160390C>G	ENSP00000367797:p.Ala62Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SYT7	Missense_Mutation	SNP	ENST00000378536.4	37	CCDS39.1	102	0.046703296703296704	20	0.04065040650406504	28	0.07734806629834254	3	0.005244755244755245	51	0.06728232189973615	C	9.688	1.151208	0.21371	.	.	ENSG00000157933	ENST00000378536	D	0.95821	-3.82	2.3	2.3	0.28687	.	.	.	.	.	T	0.47857	0.1468	N	0.08118	0	0.45733	P	0.001363000000000003	D	0.57899	0.981	P	0.58520	0.84	T	0.76271	-0.3020	8	0.20519	T	0.43	-11.9718	7.7374	0.28823	0.0:1.0:0.0:0.0	rs28384811	62	P12755	SKI_HUMAN	G	62	ENSP00000367797:A62G	ENSP00000367797:A62G	A	+	2	0	SKI	2150250	0.994000	0.37717	0.998000	0.56505	0.971000	0.66376	0.878000	0.28126	1.104000	0.41587	0.185000	0.17295	GCG		0.776	SKI-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004070.1	NM_003036		G	2160390	C	G	2160390	3	3	578	1	0	0	0	0	1	0	0	0	14370	768	27	4	187	4	SKI	1	2160390	Missense_Mutation	SNP	C	TCGA-DZ-6135-01A-11D-1961-08		2160390	247090231	1	34316										
MCOLN3	55283	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	85491894	85491894	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	ctaatcacagatctaatgcaGaggattaatgaaaccaagca	7	8	2	3			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr1:85491894G>C	ENST00000370589.2	-	8	958	c.906C>G	c.(904-906)ctC>ctG	p.L302L	WDR63_ENST00000370596.1_Intron|MCOLN3_ENST00000370587.1_Silent_p.L302L|MCOLN3_ENST00000474447.1_5'Flank|MCOLN3_ENST00000341115.4_Silent_p.L246L	NM_018298.10	NP_060768.8	Q8TDD5	MCLN3_HUMAN	mucolipin 3	302					auditory receptor cell differentiation (GO:0042491)|calcium ion transmembrane transport (GO:0070588)|ion transmembrane transport (GO:0034220)|locomotory behavior (GO:0007626)|transmembrane transport (GO:0055085)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				endometrium(6)|kidney(3)|large_intestine(9)|lung(12)|prostate(3)|skin(1)	34				all cancers(265;0.00957)|Epithelial(280;0.0254)		ATCTAATGCAGAGGATTAATG	0.398																																																0													133	121	125					1																	85491894		2203	4300	6503	SO:0001819	synonymous_variant	55283			AF475085	CCDS701.1, CCDS58009.1	1p22.3	2011-12-16			ENSG00000055732	ENSG00000055732		"Voltage-gated ion channels / Transient receptor potential cation channels"	13358	protein-coding gene	gene with protein product		607400				16382100	Standard	NM_018298		Approved	TRPML3, FLJ11006, TRP-ML3	uc001dkp.3	Q8TDD5	OTTHUMG00000009955	ENST00000370589.2:c.906C>G	1.37:g.85491894G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T4H5|Q5T4H6|Q9NV09	Silent	SNP	ENST00000370589.2	37	CCDS701.1																																																																																				0.398	MCOLN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000027569.2	NM_018298		C	85491894	G	C	85491894	2	2	578	1	0	0	0	0	0	0	0	1	9404	929	33	4		4	MCOLN3	1	85491894	Silent	SNP	G	TCGA-DZ-6135-01A-11D-1961-08	83331504	85491894	163758727	2	34317										
LCE3D	84648	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	152552161	152552161	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	cagcctccagagccatggccGcagccagagcccccgccttg	11	19	0	2	rs374860616		TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr1:152552161G>A	ENST00000368787.3	-	2	308	c.252C>T	c.(250-252)tgC>tgT	p.C84C		NM_032563.1	NP_115952.1	Q9BYE3	LCE3D_HUMAN	late cornified envelope 3D	84					keratinization (GO:0031424)					breast(1)|endometrium(1)|large_intestine(2)|lung(7)|pancreas(1)|skin(1)|stomach(2)	15	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)	UCEC - Uterine corpus endometrioid carcinoma (5;0.153)|KIRC - Kidney renal clear cell carcinoma(4;0.0323)|Kidney(5;0.0378)		AGCCATGGCCGCAGCCAGAGC	0.622																																																0													63	76	72					1																	152552161		2202	4299	6501	SO:0001819	synonymous_variant	84648			BI670519	CCDS1014.1	1q21	2008-02-05	2004-05-21	2004-10-15	ENSG00000163202	ENSG00000163202		"Late cornified envelopes"	16615	protein-coding gene	gene with protein product		612616	"small proline rich-like (epidermal differentiation complex) 6B"	SPRL6B, SPRL6A		11698679	Standard	NM_032563		Approved	LEP16	uc001fab.3	Q9BYE3	OTTHUMG00000012384	ENST00000368787.3:c.252C>T	1.37:g.152552161G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q3MIL1	Silent	SNP	ENST00000368787.3	37	CCDS1014.1																																																																																				0.622	LCE3D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034504.1	NM_032563		A	152552161	G	A	152552161	2	1	578	1	0	0	0	0	0	0	0	1	8679	1079	38	1		1	LCE3D	1	152552161	Silent	SNP	G	TCGA-DZ-6135-01A-11D-1961-08	67060267	152552161	96698460	3	34318										
BCAN	63827	broad.mit.edu	37	chr1	156615922	156615922	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	cagctttagcagatgttctgGaaggagacagctcaggtaag	13	7	2	2			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr1:156615922G>C	ENST00000329117.5	+	2	412	c.76G>C	c.(76-78)Gaa>Caa	p.E26Q	RP11-284F21.10_ENST00000605886.1_RNA|RP11-284F21.7_ENST00000448869.1_RNA|BCAN_ENST00000361588.5_Missense_Mutation_p.E26Q	NM_021948.4	NP_068767.3	Q96GW7	PGCB_HUMAN	brevican	26					carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glycosaminoglycan metabolic process (GO:0030203)|hippocampus development (GO:0021766)|small molecule metabolic process (GO:0044281)	anchored component of membrane (GO:0031225)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|lysosomal lumen (GO:0043202)|proteinaceous extracellular matrix (GO:0005578)	carbohydrate binding (GO:0030246)|hyaluronic acid binding (GO:0005540)			cervix(1)|endometrium(6)|kidney(3)|large_intestine(6)|lung(29)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)	55	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AGATGTTCTGGAAGGAGACAG	0.602																																																0													42	42	42					1																	156615922		2203	4300	6503	SO:0001583	missense	63827			BC027971	CCDS1149.1, CCDS1150.1	1q31	2013-05-07			ENSG00000132692	ENSG00000132692		"Immunoglobulin superfamily / V-set domain containing", "Proteoglycans / Extracellular Matrix : Hyalectans"	23059	protein-coding gene	gene with protein product	"chondroitin sulfate proteoglycan 7", "brevican proteoglycan"	600347				11054543, 11873941	Standard	NM_021948		Approved	BEHAB, MGC13038, CSPG7	uc001fpp.3	Q96GW7	OTTHUMG00000033322	ENST00000329117.5:c.76G>C	1.37:g.156615922G>C	ENSP00000331210:p.Glu26Gln	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVC2|Q5SZ10|Q5T3I5|Q8TBB9|Q9HBK1|Q9HBK4	Missense_Mutation	SNP	ENST00000329117.5	37	CCDS1149.1	.	.	.	.	.	.	.	.	.	.	G	14.68	2.607180	0.46527	.	.	ENSG00000132692	ENST00000441358;ENST00000255029;ENST00000329117;ENST00000457777;ENST00000424639;ENST00000361588	T;T;T;T;T	0.23147	1.92;2.49;2.73;2.19;3.21	4.32	2.4	0.29515	.	0.251422	0.22825	N	0.055179	T	0.12603	0.0306	L	0.34521	1.04	0.22446	N	0.999092	P;D	0.56968	0.458;0.978	B;P	0.56788	0.188;0.806	T	0.06917	-1.0800	10	0.23302	T	0.38	-0.3806	5.4974	0.16809	0.2526:0.0:0.7474:0.0	.	26;26	Q96GW7;Q96GW7-2	PGCB_HUMAN;.	Q	26	ENSP00000392731:E26Q;ENSP00000331210:E26Q;ENSP00000389898:E26Q;ENSP00000401709:E26Q;ENSP00000354925:E26Q	ENSP00000255029:E26Q	E	+	1	0	BCAN	154882546	1.000000	0.71417	0.965000	0.40720	0.563000	0.35712	2.206000	0.42779	1.143000	0.42306	0.462000	0.41574	GAA		0.602	BCAN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000081844.2	NM_021948		C	156615922	G	C	156615922	3	2	578	1	0	0	0	0	1	0	0	0	1345	1175	41	4	78	4	BCAN	1	156615922	Missense_Mutation	SNP	G	TCGA-DZ-6135-01A-11D-1961-08	4063761	156615922	92634699	4	34319										
TTC15	51112	hgsc.bcm.edu	37	chr2	3391827	3391827	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	aggtcccaggcagcgaagccGcgcgcccggagcaggagcct	16	15	0	0	rs145175293		TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr2:3391827G>C	ENST00000324266.5	+	2	628	c.433G>C	c.(433-435)Gcg>Ccg	p.A145P	TRAPPC12_ENST00000382110.2_Missense_Mutation_p.A145P	NM_016030.5	NP_057114.5	Q8WVT3	TPC12_HUMAN	trafficking protein particle complex 12	145					vesicle-mediated transport (GO:0016192)												CAGCGAAGCCGCGCGCCCGGA	0.776																																																0													2	2	2					2																	3391827		1349	3030	4379	SO:0001583	missense	51112			BC017475	CCDS1652.1	2p25.3	2013-01-10	2011-12-12	2011-12-12	ENSG00000171853	ENSG00000171853		"Trafficking protein particle complex", "Tetratricopeptide (TTC) repeat domain containing"	24284	protein-coding gene	gene with protein product		614139	"tetratricopeptide repeat domain 15"	TTC15		10810093, 21525244, 20562859	Standard	NM_016030		Approved	CGI-87, TTC-15	uc002qxm.1	Q8WVT3	OTTHUMG00000090328	ENST00000324266.5:c.433G>C	2.37:g.3391827G>C	ENSP00000324318:p.Ala145Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B3KV01|D6W4Y2|Q8WVW1|Q9Y395	Missense_Mutation	SNP	ENST00000324266.5	37	CCDS1652.1	.	.	.	.	.	.	.	.	.	.	G	7.378	0.628213	0.14257	.	.	ENSG00000171853	ENST00000382110;ENST00000304601;ENST00000324266	T;T	0.58060	0.36;0.36	4.53	-5.23	0.02798	.	5.681270	0.00166	N	0.000004	T	0.48223	0.1488	N	0.14661	0.345	0.09310	N	1	P;B;D	0.61080	0.625;0.001;0.989	B;B;P	0.54026	0.221;0.001;0.74	T	0.53781	-0.8390	10	0.45353	T	0.12	.	12.8907	0.58069	0.8464:0.0:0.1536:0.0	.	128;145;145	E7ENL7;Q8WVT3;Q53S18	.;TPC12_HUMAN;.	P	145;128;145	ENSP00000371544:A145P;ENSP00000324318:A145P	ENSP00000303612:A128P	A	+	1	0	TTC15	3370834	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.236000	0.09003	-1.229000	0.02564	-0.142000	0.14014	GCG		0.776	TRAPPC12-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206693.2	NM_016030		C	3391827	G	C	3391827	3	2	578	1	0	0	0	0	1	0	0	0	16694	1087	38	4	435	4	TTC15	2	3391827	Missense_Mutation	SNP	G	TCGA-DZ-6135-01A-11D-1961-08		3391827	239807546	5	34320										
SPRED2	200734	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	65561771	65561771	+	Frame_Shift_Del	DEL	C	C	-													0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	cttcgattgctttccttactCccctgtcaaaggctcgggca							TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr2:65561771delC	ENST00000356388.4	-	3	530	c.341delG	c.(340-342)ggafs	p.G114fs	SPRED2_ENST00000474228.1_5'UTR|SPRED2_ENST00000443619.2_Frame_Shift_Del_p.G111fs	NM_181784.2	NP_861449.2	Q7Z698	SPRE2_HUMAN	sprouty-related, EVH1 domain containing 2	114	WH1. {ECO:0000255|PROSITE- ProRule:PRU00410}.				inactivation of MAPK activity (GO:0000188)|multicellular organismal development (GO:0007275)|negative regulation of peptidyl-threonine phosphorylation (GO:0010801)|positive regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043517)|regulation of protein deacetylation (GO:0090311)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	protein kinase binding (GO:0019901)|protein serine/threonine kinase inhibitor activity (GO:0030291)|stem cell factor receptor binding (GO:0005173)			breast(2)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(11)|lung(7)|ovary(2)|upper_aerodigestive_tract(3)	34						TTTCCTTACTCCCCTGTCAAA	0.413																																																0													157	146	150					2																	65561771		2203	4300	6503	SO:0001589	frameshift_variant	200734			AF052178	CCDS33211.1, CCDS46308.1	2p14	2003-06-02			ENSG00000198369	ENSG00000198369			17722	protein-coding gene	gene with protein product		609292					Standard	NM_181784		Approved	Spred-2, FLJ21897, FLJ31917	uc002sdr.4	Q7Z698	OTTHUMG00000152737	ENST00000356388.4:c.341delG	2.37:g.65561771delC	ENSP00000348753:p.Gly114fs	Somatic		WXS	Illumina HiSeq	Phase_I	A1L3V4|B7Z5K7|D6W5F7|E9PEP0|Q2NKX6	Frame_Shift_Del	DEL	ENST00000356388.4	37	CCDS33211.1																																																																																				0.413	SPRED2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000327632.1			-	65561771	C	-	65561771	7	5	578	1	0	1	0	1	0	0	0	0	15105	855	30	0	931	0	SPRED2	2	65561771	Frame_Shift_Del	DEL	C	TCGA-DZ-6135-01A-11D-1961-08	62169944	65561771	177637602	6	34321										
ACTG2	72	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	74128513	74128513	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	aaggcaggcttcgcaggagaTgatgccccccgggctgtctt	14	12	1	2			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr2:74128513T>C	ENST00000409624.1	+	3	718	c.75T>C	c.(73-75)gaT>gaC	p.D25D	ACTG2_ENST00000409731.3_Silent_p.D25D|ACTG2_ENST00000409918.1_Silent_p.D25D|ACTG2_ENST00000345517.3_Silent_p.D25D			P63267	ACTH_HUMAN	actin, gamma 2, smooth muscle, enteric	25					muscle contraction (GO:0006936)	blood microparticle (GO:0072562)|cell periphery (GO:0071944)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)			large_intestine(3)|lung(14)|skin(1)	18						TCGCAGGAGATGATGCCCCCC	0.622																																																0													71	65	67					2																	74128513		2203	4300	6503	SO:0001819	synonymous_variant	72				CCDS1930.1, CCDS56124.1	2p13.1	2008-05-20			ENSG00000163017	ENSG00000163017			145	protein-coding gene	gene with protein product		102545		ACTL3, ACTA3		1710027, 1673027	Standard	NM_001199893		Approved	ACTSG	uc002sjw.3	P63267	OTTHUMG00000129813	ENST00000409624.1:c.75T>C	2.37:g.74128513T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R7E7|B4E315|D6W5H8|E9PG30|P12718|Q504R1|Q6FI22	Silent	SNP	ENST00000409624.1	37	CCDS1930.1																																																																																				0.622	ACTG2-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328086.1	NM_001615		C	74128513	T	C	74128513	2	2	578	1	0	0	0	0	0	0	0	1	197	1461	51	3		3	ACTG2	2	74128513	Silent	SNP	T	TCGA-DZ-6135-01A-11D-1961-08	8566742	74128513	169070860	7	34322										
SULT1C4	27233	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	108994906	108994906	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	ctgtgacatctgggataagaTctggaacttccaagccaagc	10	10	2	2			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr2:108994906T>C	ENST00000272452.2	+	1	439	c.113T>C	c.(112-114)aTc>aCc	p.I38T	SULT1C4_ENST00000409309.3_Missense_Mutation_p.I38T	NM_006588.2	NP_006579.2	O75897	ST1C4_HUMAN	sulfotransferase family, cytosolic, 1C, member 4	38					3'-phosphoadenosine 5'-phosphosulfate metabolic process (GO:0050427)|small molecule metabolic process (GO:0044281)|sulfation (GO:0051923)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)	sulfotransferase activity (GO:0008146)			endometrium(1)|large_intestine(3)|lung(7)|upper_aerodigestive_tract(1)	12						TGGGATAAGATCTGGAACTTC	0.473																																																0													171	176	174					2																	108994906		2203	4300	6503	SO:0001583	missense	27233			AF055584	CCDS2077.1	2q12.3	2008-09-04	2007-03-16	2007-03-16	ENSG00000198075	ENSG00000198075		"Sulfotransferases, cytosolic"	11457	protein-coding gene	gene with protein product		608357	"sulfotransferase family, cytosolic, 1C, member 2"	SULT1C2		10783263, 9852044	Standard	NM_006588		Approved	SULT1C	uc002tea.1	O75897	OTTHUMG00000130958	ENST00000272452.2:c.113T>C	2.37:g.108994906T>C	ENSP00000272452:p.Ile38Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q069I8|Q08AS5|Q53S63	Missense_Mutation	SNP	ENST00000272452.2	37	CCDS2077.1	.	.	.	.	.	.	.	.	.	.	T	22.7	4.318519	0.81469	.	.	ENSG00000198075	ENST00000272452;ENST00000409309	T;T	0.01918	4.56;4.56	5.06	5.06	0.68205	.	0.127728	0.35555	N	0.003129	T	0.04452	0.0122	N	0.08118	0	0.31369	N	0.680401	P;D;D	0.63880	0.954;0.993;0.991	P;D;D	0.68765	0.476;0.96;0.918	T	0.35773	-0.9775	10	0.66056	D	0.02	.	14.1553	0.65413	0.0:0.0:0.0:1.0	.	38;38;38	Q08AS5;O75897;Q6PD90	.;ST1C4_HUMAN;.	T	38	ENSP00000272452:I38T;ENSP00000387225:I38T	ENSP00000272452:I38T	I	+	2	0	SULT1C4	108361338	0.999000	0.42202	1.000000	0.80357	0.870000	0.49936	4.416000	0.59815	2.125000	0.65367	0.496000	0.49642	ATC		0.473	SULT1C4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253561.1	NM_006588		C	108994906	T	C	108994906	3	2	578	1	0	0	0	0	1	0	0	0	15391	1435	50	3	115	3	SULT1C4	2	108994906	Missense_Mutation	SNP	T	TCGA-DZ-6135-01A-11D-1961-08	34866393	108994906	134204467	8	34323										
LRP2	4036	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	170145584	170145584	+	Frame_Shift_Del	DEL	A	A	-													0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	gatgatataacctgggggacAaaaacacgctcctccatacg							TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr2:170145584delA	ENST00000263816.3	-	9	1279	c.994delT	c.(994-996)tgtfs	p.C332fs	LRP2_ENST00000443831.1_Frame_Shift_Del_p.C332fs	NM_004525.2	NP_004516.2	P98164	LRP2_HUMAN	low density lipoprotein receptor-related protein 2	332	EGF-like 1. {ECO:0000255|PROSITE- ProRule:PRU00076}.				cell proliferation (GO:0008283)|endocytosis (GO:0006897)|forebrain development (GO:0030900)|lipid metabolic process (GO:0006629)|phototransduction, visible light (GO:0007603)|protein glycosylation (GO:0006486)|receptor-mediated endocytosis (GO:0006898)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|vitamin D metabolic process (GO:0042359)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|coated pit (GO:0005905)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)			biliary_tract(1)|breast(16)|central_nervous_system(6)|cervix(2)|endometrium(24)|haematopoietic_and_lymphoid_tissue(2)|kidney(17)|large_intestine(70)|liver(1)|lung(117)|ovary(19)|pancreas(1)|prostate(2)|skin(17)|upper_aerodigestive_tract(7)|urinary_tract(13)	315				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	"""Insulin(DB00071)|Gentamicin(DB00798)|Insulin Regular(DB00030)|Urokinase(DB00013)"	CCTGGGGGACAAAAACACGCT	0.483																																																0													107	105	106					2																	170145584		2203	4300	6503	SO:0001589	frameshift_variant	4036				CCDS2232.1	2q31.1	2013-05-28	2010-01-26		ENSG00000081479	ENSG00000081479		"Low density lipoprotein receptors"	6694	protein-coding gene	gene with protein product	"megalin"	600073				7959795	Standard	NM_004525		Approved	gp330, DBS	uc002ues.3	P98164	OTTHUMG00000132179	ENST00000263816.3:c.994delT	2.37:g.170145584delA	ENSP00000263816:p.Cys332fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00711|Q16215	Frame_Shift_Del	DEL	ENST00000263816.3	37	CCDS2232.1																																																																																				0.483	LRP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255231.2	NM_004525		-	170145584	A	-	170145584	7	5	578	1	0	1	0	1	0	0	0	0	8963	130	5	0	13257	0	LRP2	2	170145584	Frame_Shift_Del	DEL	A	TCGA-DZ-6135-01A-11D-1961-08	61150678	170145584	73053789	9	34324										
ROBO1	6091	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	78683096	78683096	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	cttacttaccagatgtactaCtgccccggtctgagctgttg	9	12	1	2			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr3:78683096C>A	ENST00000464233.1	-	24	3583	c.3470G>T	c.(3469-3471)aGt>aTt	p.S1157I	ROBO1_ENST00000467549.1_Missense_Mutation_p.S1057I|ROBO1_ENST00000495273.1_Missense_Mutation_p.S1112I|ROBO1_ENST00000436010.2_Missense_Mutation_p.S1118I	NM_002941.3	NP_002932.1	Q9Y6N7	ROBO1_HUMAN	roundabout, axon guidance receptor, homolog 1 (Drosophila)	1157					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|axon guidance (GO:0007411)|axon midline choice point recognition (GO:0016199)|cell adhesion (GO:0007155)|cell migration involved in sprouting angiogenesis (GO:0002042)|chemorepulsion involved in postnatal olfactory bulb interneuron migration (GO:0021836)|homophilic cell adhesion (GO:0007156)|mammary duct terminal end bud growth (GO:0060763)|negative regulation of chemokine-mediated signaling pathway (GO:0070100)|negative regulation of mammary gland epithelial cell proliferation (GO:0033600)|negative regulation of negative chemotaxis (GO:0050925)|nervous system development (GO:0007399)|positive regulation of axonogenesis (GO:0050772)|Roundabout signaling pathway (GO:0035385)	axolemma (GO:0030673)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	axon guidance receptor activity (GO:0008046)|identical protein binding (GO:0042802)|LRR domain binding (GO:0030275)			breast(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(2)|lung(25)|urinary_tract(1)	44		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		AGATGTACTACTGCCCCGGTC	0.423																																																0													224	211	215					3																	78683096		1928	4130	6058	SO:0001583	missense	6091			AF040990	CCDS46872.1, CCDS46872.2, CCDS54610.1, CCDS54611.1	3p12.3	2013-02-11	2001-11-28		ENSG00000169855	ENSG00000169855		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	10249	protein-coding gene	gene with protein product		602430	"roundabout (axon guidance receptor, Drosophila) homolog 1"			9458045, 9608531	Standard	NM_002941		Approved	DUTT1, FLJ21882, SAX3	uc003dqe.2	Q9Y6N7	OTTHUMG00000158843	ENST00000464233.1:c.3470G>T	3.37:g.78683096C>A	ENSP00000420321:p.Ser1157Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RXI1|D3DU36|E9PD49|Q1RMC7|Q7Z300|Q9BUS7	Missense_Mutation	SNP	ENST00000464233.1	37	CCDS54611.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	22.5|22.5	4.301088|4.301088	0.81136|0.81136	.|.	.|.	ENSG00000169855|ENSG00000169855	ENST00000436010;ENST00000398412;ENST00000464233;ENST00000495273;ENST00000467549;ENST00000398414|ENST00000472273	D;D;D;D|.	0.91464|.	-2.85;-2.85;-2.85;-2.85|.	5.82|5.82	5.82|5.82	0.92795|0.92795	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.74756|0.74756	0.3758|0.3758	M|M	0.61703|0.61703	1.905|1.905	0.80722|0.80722	D|D	1|1	D;B;D;P;P|.	0.76494|.	0.997;0.27;0.999;0.754;0.866|.	D;B;D;B;B|.	0.83275|.	0.994;0.082;0.996;0.293;0.376|.	T|T	0.70912|0.70912	-0.4743|-0.4743	9|5	.|.	.|.	.|.	.|.	20.1001|20.1001	0.97870|0.97870	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	1121;1157;1112;1057;1118|.	Q9Y6N7-3;Q9Y6N7;B2RXI1;E9PD49;Q9Y6N7-4|.	.;ROBO1_HUMAN;.;.;.|.	I|L	1118;1112;1157;1112;1057;1161|84	ENSP00000406043:S1118I;ENSP00000420321:S1157I;ENSP00000420637:S1112I;ENSP00000417992:S1057I|.	.|.	S|V	-|-	2|1	0|0	ROBO1|ROBO1	78765786|78765786	1.000000|1.000000	0.71417|0.71417	0.992000|0.992000	0.48379|0.48379	0.595000|0.595000	0.36748|0.36748	7.466000|7.466000	0.80914|0.80914	2.760000|2.760000	0.94817|0.94817	0.655000|0.655000	0.94253|0.94253	AGT|GTA		0.423	ROBO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352610.1	NM_002941		A	78683096	C	A	78683096	3	1	578	1	0	0	0	0	1	0	0	0	13526	565	20	4	1517	4	ROBO1	3	78683096	Missense_Mutation	SNP	C	TCGA-DZ-6135-01A-11D-1961-08		78683096	119339334	10	34325										
KIAA2018	205717	hgsc.bcm.edu	37	chr3	113376148	113376148	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	ctgctgctgctgctgctgctTtatgtagagatggttactat	11	8	0	1			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr3:113376148T>G	ENST00000478658.1	-	5	4398	c.4381A>C	c.(4381-4383)Aag>Cag	p.K1461Q	KIAA2018_ENST00000491165.1_Intron|KIAA2018_ENST00000316407.4_Missense_Mutation_p.K1461Q			Q68DE3	K2018_HUMAN	KIAA2018	1461	Gln-rich.					membrane (GO:0016020)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|DNA binding (GO:0003677)|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity (GO:0004571)			NS(1)|breast(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(13)|liver(1)|lung(30)|ovary(8)|skin(5)|upper_aerodigestive_tract(4)|urinary_tract(2)	80						tgctgctgctTTATGTAGAGA	0.498																																																0													66	71	69					3																	113376148		2179	4278	6457	SO:0001583	missense	205717			AB095938	CCDS43133.1	3q13.2	2014-01-02			ENSG00000176542	ENSG00000176542			30494	protein-coding gene	gene with protein product							Standard	XM_005247208		Approved		uc003eam.3	Q68DE3	OTTHUMG00000159322	ENST00000478658.1:c.4381A>C	3.37:g.113376148T>G	ENSP00000420721:p.Lys1461Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z3L9|Q8IVF3|Q9H8T4	Missense_Mutation	SNP	ENST00000478658.1	37	CCDS43133.1	.	.	.	.	.	.	.	.	.	.	T	15.33	2.802014	0.50315	.	.	ENSG00000176542	ENST00000316407;ENST00000478658	T;T	0.31247	1.5;1.5	5.36	5.36	0.76844	.	0.000000	0.85682	D	0.000000	T	0.45296	0.1335	L	0.32530	0.975	0.49213	D	0.999766	D	0.71674	0.998	D	0.78314	0.991	T	0.41822	-0.9487	10	0.62326	D	0.03	-15.6625	15.5299	0.75952	0.0:0.0:0.0:1.0	.	1461	Q68DE3	K2018_HUMAN	Q	1461	ENSP00000320794:K1461Q;ENSP00000420721:K1461Q	ENSP00000320794:K1461Q	K	-	1	0	KIAA2018	114858838	1.000000	0.71417	0.987000	0.45799	0.600000	0.36913	7.182000	0.77689	2.254000	0.74563	0.459000	0.35465	AAG		0.498	KIAA2018-003	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000354591.1	NM_001009899		G	113376148	T	G	113376148	3	3	578	1	0	0	0	0	1	0	0	0	8275	1850	64	5	2360	5	KIAA2018	3	113376148	Missense_Mutation	SNP	T	TCGA-DZ-6135-01A-11D-1961-08	34693052	113376148	84646282	11	34326										
SSR3	6747	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	156266708	156266708	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	tcaaacctttcatctttctcCttccgagacatctttctatt	2	13	6	1			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr3:156266708C>A	ENST00000265044.2	-	3	439	c.345G>T	c.(343-345)aaG>aaT	p.K115N	SSR3_ENST00000496050.1_Missense_Mutation_p.K63N|SSR3_ENST00000467789.1_Missense_Mutation_p.K115N|SSR3_ENST00000463503.1_Missense_Mutation_p.K63N|SSR3_ENST00000476217.1_Missense_Mutation_p.K115N|SSR3_ENST00000478842.1_5'UTR	NM_007107.3	NP_009038.1	Q9UNL2	SSRG_HUMAN	signal sequence receptor, gamma (translocon-associated protein gamma)	115					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)	integral component of endoplasmic reticulum membrane (GO:0030176)|Sec61 translocon complex (GO:0005784)				endometrium(1)|prostate(2)	3			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			CATCTTTCTCCTTCCGAGACA	0.363																																																0													88	85	86					3																	156266708		2203	4300	6503	SO:0001583	missense	6747			BC017203	CCDS3176.1	3q25.31	2004-02-27			ENSG00000114850	ENSG00000114850			11325	protein-coding gene	gene with protein product		606213					Standard	NM_007107		Approved	TRAPG	uc003fau.3	Q9UNL2	OTTHUMG00000158632	ENST00000265044.2:c.345G>T	3.37:g.156266708C>A	ENSP00000265044:p.Lys115Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7D0|B4E2P2|D3DNK5|Q549M4	Missense_Mutation	SNP	ENST00000265044.2	37	CCDS3176.1	.	.	.	.	.	.	.	.	.	.	C	20.2	3.955265	0.73902	.	.	ENSG00000114850	ENST00000265044;ENST00000467789;ENST00000476217;ENST00000463503;ENST00000496050	.	.	.	5.41	2.62	0.31277	.	0.094589	0.64402	D	0.000001	T	0.79015	0.4375	M	0.87827	2.91	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.74674	0.984;0.971	T	0.81282	-0.1003	9	0.87932	D	0	-1.3739	11.1574	0.48495	0.0:0.7892:0.0:0.2108	.	115;115	B4E2P2;Q9UNL2	.;SSRG_HUMAN	N	115;115;115;63;63	.	ENSP00000265044:K115N	K	-	3	2	SSR3	157749402	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.461000	0.35255	0.767000	0.33267	0.650000	0.86243	AAG		0.363	SSR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351521.1	NM_007107		A	156266708	C	A	156266708	3	1	578	1	0	0	0	0	1	0	0	0	15204	680	24	4	224	4	SSR3	3	156266708	Missense_Mutation	SNP	C	TCGA-DZ-6135-01A-11D-1961-08	42890560	156266708	41755722	12	34327										
HELQ	113510	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	84342848	84342848	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	ttgagcaaggtataaagaacAaaagacagatatagcctgtt	9	5	0	4			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr4:84342848A>G	ENST00000295488.3	-	15	2979	c.2817T>C	c.(2815-2817)ttT>ttC	p.F939F	HELQ_ENST00000510985.1_Silent_p.F872F	NM_133636.2	NP_598375	Q8TDG4	HELQ_HUMAN	helicase, POLQ-like	939					double-strand break repair via homologous recombination (GO:0000724)	nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|nucleic acid binding (GO:0003676)			breast(1)|cervix(2)|endometrium(2)|kidney(2)|large_intestine(10)|lung(17)|ovary(2)|skin(2)	38						TATAAAGAACAAAAGACAGAT	0.343								Other identified genes with known or suspected DNA repair function																																								0													84	83	84					4																	84342848		2203	4300	6503	SO:0001819	synonymous_variant	113510			AF436845	CCDS3603.1, CCDS75158.1	4q21.23	2009-02-26			ENSG00000163312	ENSG00000163312			18536	protein-coding gene	gene with protein product		606769				11751861	Standard	XM_005262711		Approved	Hel308	uc003hom.3	Q8TDG4	OTTHUMG00000130423	ENST00000295488.3:c.2817T>C	4.37:g.84342848A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q05DF9|Q502W9|Q659B8|Q6ZQX4|Q6ZTS4|Q96EX7	Silent	SNP	ENST00000295488.3	37	CCDS3603.1																																																																																				0.343	HELQ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252810.1	NM_133636		G	84342848	A	G	84342848	2	3	578	1	0	0	0	0	0	0	0	1	7054	127	5	3		3	HELQ	4	84342848	Silent	SNP	A	TCGA-DZ-6135-01A-11D-1961-08		84342848	106811428	13	34328										
BHMT	635	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	78415091	78415091	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	cactctcccagttcgccagcTtcatcgagagttcctcagag	8	15	3	2			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr5:78415091T>C	ENST00000274353.5	+	3	283	c.176T>C	c.(175-177)cTt>cCt	p.L59P	DMGDH_ENST00000520388.1_Intron|BHMT_ENST00000524080.1_Intron	NM_001713.2	NP_001704.2	Q93088	BHMT1_HUMAN	betaine--homocysteine S-methyltransferase	59	Hcy-binding. {ECO:0000255|PROSITE- ProRule:PRU00333}.				amino-acid betaine catabolic process (GO:0006579)|amino-acid betaine metabolic process (GO:0006577)|cellular nitrogen compound metabolic process (GO:0034641)|L-methionine salvage (GO:0071267)|protein methylation (GO:0006479)|regulation of homocysteine metabolic process (GO:0050666)|response to organonitrogen compound (GO:0010243)|small molecule metabolic process (GO:0044281)|sulfur amino acid metabolic process (GO:0000096)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|protein complex (GO:0043234)	betaine-homocysteine S-methyltransferase activity (GO:0047150)|S-adenosylmethionine-homocysteine S-methyltransferase activity (GO:0008898)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|kidney(2)|large_intestine(6)|lung(14)|ovary(1)|prostate(1)|skin(2)	29		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.88e-45)|Epithelial(54;8.07e-41)|all cancers(79;3.51e-36)	L-Methionine(DB00134)	GTTCGCCAGCTTCATCGAGAG	0.438																																																0													99	94	95					5																	78415091		2203	4300	6503	SO:0001583	missense	635			BC012616	CCDS4046.1	5q14.1	2012-09-20	2010-04-28		ENSG00000145692	ENSG00000145692	2.1.1.5		1047	protein-coding gene	gene with protein product	"betaine homocysteine methyltransferase"	602888				8798461, 9281325	Standard	NM_001713		Approved	BHMT1	uc003kfu.4	Q93088	OTTHUMG00000108157	ENST00000274353.5:c.176T>C	5.37:g.78415091T>C	ENSP00000274353:p.Leu59Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UNI9	Missense_Mutation	SNP	ENST00000274353.5	37	CCDS4046.1	.	.	.	.	.	.	.	.	.	.	T	25.2	4.611557	0.87258	.	.	ENSG00000145692	ENST00000274353	T	0.13089	2.62	5.6	5.6	0.85130	Homocysteine S-methyltransferase (4);	0.000000	0.85682	D	0.000000	T	0.48390	0.1497	M	0.92833	3.35	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.61237	-0.7103	10	0.87932	D	0	-13.4798	16.0786	0.80985	0.0:0.0:0.0:1.0	.	59	Q93088	BHMT1_HUMAN	P	59	ENSP00000274353:L59P	ENSP00000274353:L59P	L	+	2	0	BHMT	78450847	1.000000	0.71417	1.000000	0.80357	0.972000	0.66771	7.669000	0.83911	2.254000	0.74563	0.460000	0.39030	CTT		0.438	BHMT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000226961.1	NM_001713		C	78415091	T	C	78415091	3	2	578	1	0	0	0	0	1	0	0	0	1425	1609	56	3	186	3	BHMT	5	78415091	Missense_Mutation	SNP	T	TCGA-DZ-6135-01A-11D-1961-08		78415091	102500169	14	34329										
PGGT1B	5229	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	114573574	114573574	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	cctcccatcttccagctgaaGggctctcaagcccgctaagc	8	17	2	1			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr5:114573574G>A	ENST00000419445.1	-	4	480	c.460C>T	c.(460-462)Ctt>Ttt	p.L154F	PGGT1B_ENST00000379615.3_Missense_Mutation_p.L154F	NM_005023.3	NP_005014.2	P53609	PGTB1_HUMAN	protein geranylgeranyltransferase type I, beta subunit	154					negative regulation of nitric-oxide synthase biosynthetic process (GO:0051771)|positive regulation of cell cycle (GO:0045787)|positive regulation of cell proliferation (GO:0008284)|protein geranylgeranylation (GO:0018344)|response to cytokine (GO:0034097)	CAAX-protein geranylgeranyltransferase complex (GO:0005953)	CAAX-protein geranylgeranyltransferase activity (GO:0004662)|protein geranylgeranyltransferase activity (GO:0004661)|zinc ion binding (GO:0008270)			breast(2)|endometrium(1)|large_intestine(2)|lung(1)	6		all_cancers(142;0.000523)|all_epithelial(76;6.45e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)		Epithelial(69;2.95e-08)|OV - Ovarian serous cystadenocarcinoma(64;4.98e-08)|all cancers(49;3.1e-06)		TCCAGCTGAAGGGCTCTCAAG	0.383																																																0													72	78	76					5																	114573574		2201	4300	6501	SO:0001583	missense	5229				CCDS4116.1	5q23.1	2008-02-05			ENSG00000164219	ENSG00000164219			8895	protein-coding gene	gene with protein product		602031				8106351	Standard	NM_005023		Approved	GGTI, BGGI	uc003kqw.4	P53609	OTTHUMG00000128893	ENST00000419445.1:c.460C>T	5.37:g.114573574G>A	ENSP00000404676:p.Leu154Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q5MJP9	Missense_Mutation	SNP	ENST00000419445.1	37	CCDS4116.1	.	.	.	.	.	.	.	.	.	.	G	16.92	3.254124	0.59212	.	.	ENSG00000164219	ENST00000419445;ENST00000379615	T;T	0.32515	1.45;1.45	5.47	4.6	0.57074	Terpenoid cylases/protein prenyltransferase alpha-alpha toroid (1);	0.113305	0.64402	D	0.000008	T	0.64692	0.2621	M	0.91818	3.245	0.58432	D	0.999999	D;D	0.89917	1.0;1.0	D;D	0.85130	0.997;0.993	T	0.75164	-0.3414	10	0.66056	D	0.02	-11.4224	16.6769	0.85281	0.0:0.1298:0.8702:0.0	.	154;154	P53609-2;P53609	.;PGTB1_HUMAN	F	154	ENSP00000404676:L154F;ENSP00000368935:L154F	ENSP00000368935:L154F	L	-	1	0	PGGT1B	114601473	1.000000	0.71417	0.947000	0.38551	0.329000	0.28539	9.740000	0.98839	1.422000	0.47177	0.655000	0.94253	CTT		0.383	PGGT1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250855.2	NM_005023		A	114573574	G	A	114573574	3	1	578	1	0	0	0	0	1	0	0	0	11796	1000	35	2	697	2	PGGT1B	5	114573574	Missense_Mutation	SNP	G	TCGA-DZ-6135-01A-11D-1961-08	36158483	114573574	66341686	15	34330										
WDR55	54853	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	140049032	140049032	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	ttcctggccagtagtggccaTgaccagcgcctcaagttttg	11	12	1	1			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr5:140049032T>C	ENST00000358337.5	+	7	1182	c.945T>C	c.(943-945)caT>caC	p.H315H	WDR55_ENST00000520764.1_3'UTR	NM_017706.4	NP_060176	Q9H6Y2	WDR55_HUMAN	WD repeat domain 55	315					rRNA processing (GO:0006364)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)				NS(1)|kidney(1)|large_intestine(2)|lung(2)|ovary(2)|prostate(1)	9			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTAGTGGCCATGACCAGCGCC	0.632																																																0													27	30	29					5																	140049032		2203	4300	6503	SO:0001819	synonymous_variant	54853			AK000202	CCDS4235.1	5q31.3	2013-01-09			ENSG00000120314	ENSG00000120314		"WD repeat domain containing"	25971	protein-coding gene	gene with protein product						12477932	Standard	NM_017706		Approved	FLJ20195, FLJ21702	uc003lgr.4	Q9H6Y2	OTTHUMG00000129506	ENST00000358337.5:c.945T>C	5.37:g.140049032T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NXK4	Silent	SNP	ENST00000358337.5	37	CCDS4235.1																																																																																				0.632	WDR55-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251680.3	NM_017706		C	140049032	T	C	140049032	2	2	578	1	0	0	0	0	0	0	0	1	17319	1461	51	3		3	WDR55	5	140049032	Silent	SNP	T	TCGA-DZ-6135-01A-11D-1961-08	25475458	140049032	40866228	16	34331										
FGFR4	2264	broad.mit.edu;ucsc.edu	37	chr5	176522539	176522539	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	ccactccctctgcagggcccCtgtacgtgatcgtggagtgc	12	15	1	1			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr5:176522539C>T	ENST00000292408.4	+	13	1881	c.1636C>T	c.(1636-1638)Ctg>Ttg	p.L546L	FGFR4_ENST00000393637.1_Silent_p.L506L|FGFR4_ENST00000502906.1_Silent_p.L546L|FGFR4_ENST00000292410.3_Silent_p.L506L|FGFR4_ENST00000393648.2_Silent_p.L478L	NM_002011.3|NM_213647.1	NP_002002.3|NP_998812.1	P22455	FGFR4_HUMAN	fibroblast growth factor receptor 4	546	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				alveolar secondary septum development (GO:0061144)|cell migration (GO:0016477)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|glucose homeostasis (GO:0042593)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|neurotrophin TRK receptor signaling pathway (GO:0048011)|organ induction (GO:0001759)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphate ion homeostasis (GO:0055062)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell proliferation (GO:0008284)|positive regulation of DNA biosynthetic process (GO:2000573)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of metalloenzyme activity (GO:0048554)|positive regulation of proteolysis (GO:0045862)|protein autophosphorylation (GO:0046777)|regulation of bile acid biosynthetic process (GO:0070857)|regulation of cholesterol homeostasis (GO:2000188)|regulation of extracellular matrix disassembly (GO:0010715)|regulation of lipid metabolic process (GO:0019216)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|fibroblast growth factor binding (GO:0017134)|fibroblast growth factor-activated receptor activity (GO:0005007)|heparin binding (GO:0008201)|protein tyrosine kinase activity (GO:0004713)			breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(16)|ovary(1)|prostate(2)|skin(2)|stomach(1)|urinary_tract(2)	34	all_cancers(89;5.93e-05)|Renal(175;0.000269)|Lung NSC(126;0.0088)|all_lung(126;0.0142)	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)		Palifermin(DB00039)|Ponatinib(DB08901)	TGCAGGGCCCCTGTACGTGAT	0.716										TSP Lung(9;0.080)																																						0													21	23	23					5																	176522539		2202	4299	6501	SO:0001819	synonymous_variant	2264			AF202063	CCDS4410.1, CCDS4411.1	5q35.2	2013-09-19			ENSG00000160867	ENSG00000160867		"CD molecules", "Immunoglobulin superfamily / I-set domain containing"	3691	protein-coding gene	gene with protein product		134935					Standard	XM_005265837		Approved	JTK2, CD334	uc003mfm.3	P22455	OTTHUMG00000151523	ENST00000292408.4:c.1636C>T	5.37:g.176522539C>T		Somatic		WXS	Illumina HiSeq	Phase_I	G3JVM2|G3JVM5|G3JVM7|G3JVM9|O43785|Q14309|Q71TW8|Q8TDA0|Q96KE5	Silent	SNP	ENST00000292408.4	37	CCDS4410.1	.	.	.	.	.	.	.	.	.	.	C	5.620	0.299077	0.10622	.	.	ENSG00000160867	ENST00000511076	D	0.84146	-1.81	5.29	2.13	0.27403	.	.	.	.	.	D	0.84147	0.5408	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.78969	-0.1994	5	.	.	.	.	8.5441	0.33410	0.0:0.6202:0.0:0.3798	.	.	.	.	L	177	ENSP00000424670:P177L	.	P	+	2	0	FGFR4	176455145	0.963000	0.33076	0.999000	0.59377	0.469000	0.32828	2.175000	0.42491	0.631000	0.30412	0.561000	0.74099	CCT		0.716	FGFR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253410.1			T	176522539	C	T	176522539	2	4	578	1	0	0	0	0	0	0	0	1	5875	680	24	2		2	FGFR4	5	176522539	Silent	SNP	C	TCGA-DZ-6135-01A-11D-1961-08	36473507	176522539	4392721	17	34332										
RUNX2	860	hgsc.bcm.edu	37	chr6	45390482	45390482	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	agcaacagcagcagcagcagCaggaggcggcggcggcggct	18	12	0	0			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr6:45390482C>G	ENST00000371438.1	+	2	569	c.211C>G	c.(211-213)Cag>Gag	p.Q71E	RUNX2_ENST00000541979.1_Missense_Mutation_p.Q139E|RUNX2_ENST00000352853.5_Missense_Mutation_p.Q139E|RUNX2_ENST00000359524.5_Missense_Mutation_p.Q57E|RUNX2_ENST00000371436.6_Missense_Mutation_p.Q71E|RUNX2_ENST00000371432.3_Missense_Mutation_p.Q57E|RUNX2_ENST00000465038.2_Missense_Mutation_p.Q71E|RUNX2_ENST00000576263.1_Missense_Mutation_p.Q71E|RP1-244F24.1_ENST00000606796.1_RNA	NM_001024630.3	NP_001019801.3	Q13950	RUNX2_HUMAN	runt-related transcription factor 2	71	Poly-Gln.				BMP signaling pathway (GO:0030509)|cell maturation (GO:0048469)|cellular response to BMP stimulus (GO:0071773)|chondrocyte development (GO:0002063)|embryonic cranial skeleton morphogenesis (GO:0048701)|embryonic forelimb morphogenesis (GO:0035115)|endochondral ossification (GO:0001958)|gene expression (GO:0010467)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription, DNA-templated (GO:0045892)|odontogenesis of dentin-containing tooth (GO:0042475)|ossification (GO:0001503)|osteoblast development (GO:0002076)|osteoblast differentiation (GO:0001649)|osteoblast fate commitment (GO:0002051)|positive regulation of cell proliferation (GO:0008284)|positive regulation of chondrocyte differentiation (GO:0032332)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus (GO:1901522)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of fibroblast growth factor receptor signaling pathway (GO:0040036)|regulation of odontogenesis of dentin-containing tooth (GO:0042487)|stem cell differentiation (GO:0048863)|T cell differentiation (GO:0030217)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|endometrium(2)|kidney(1)|large_intestine(5)|liver(1)|lung(18)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	34						gcagcagcagcaggaggcggc	0.716																																																0													6	10	9					6																	45390482		1279	2789	4068	SO:0001583	missense	860			AF001450	CCDS43467.1, CCDS43468.1, CCDS43467.2, CCDS43468.2	6p21	2010-08-20			ENSG00000124813	ENSG00000124813			10472	protein-coding gene	gene with protein product		600211		CCD, CBFA1, CCD1		7835892	Standard	NM_001024630		Approved	AML3, PEBP2A1, PEBP2aA1	uc011dvx.2	Q13950	OTTHUMG00000014774	ENST00000371438.1:c.211C>G	6.37:g.45390482C>G	ENSP00000360493:p.Gln71Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O14614|O14615|O95181	Missense_Mutation	SNP	ENST00000371438.1	37	CCDS43467.2	.	.	.	.	.	.	.	.	.	.	C	12.60	1.985548	0.35036	.	.	ENSG00000124813	ENST00000465038;ENST00000352853;ENST00000541979;ENST00000371438;ENST00000371436;ENST00000359524;ENST00000371432	T;T;T;T;T;T;T	0.61742	0.08;0.08;0.08;0.08;0.08;0.08;0.08	3.45	3.45	0.39498	.	1.972660	0.03402	N	0.203449	T	0.19248	0.0462	N	0.14661	0.345	0.27094	N	0.962779	B;B;B	0.23806	0.033;0.055;0.091	B;B;B	0.20384	0.029;0.013;0.029	T	0.13818	-1.0495	10	0.02654	T	1	.	14.8379	0.70197	0.0:1.0:0.0:0.0	.	139;71;57	F6RGB9;Q13950;Q13950-2	.;RUNX2_HUMAN;.	E	71;139;139;71;71;57;57	ENSP00000420707:Q71E;ENSP00000319087:Q139E;ENSP00000446290:Q139E;ENSP00000360493:Q71E;ENSP00000360491:Q71E;ENSP00000352514:Q57E;ENSP00000360486:Q57E	ENSP00000319087:Q139E	Q	+	1	0	RUNX2	45498460	1.000000	0.71417	1.000000	0.80357	0.966000	0.64601	1.268000	0.33062	1.622000	0.50330	0.407000	0.27541	CAG		0.716	RUNX2-003	KNOWN	not_organism_supported|upstream_ATG|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040755.2	NM_004348		G	45390482	C	G	45390482	3	3	578	1	0	0	0	0	1	0	0	0	13761	711	25	4	233	4	RUNX2	6	45390482	Missense_Mutation	SNP	C	TCGA-DZ-6135-01A-11D-1961-08		45390482	125724585	18	34333										
REV3L	5980	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	111632330	111632330	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	ataagaaaaacttcctctgtAttccttggcaaagataaagt	6	7	1	2			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr6:111632330A>T	ENST00000358835.3	-	30	9191	c.8737T>A	c.(8737-8739)Tac>Aac	p.Y2913N	REV3L_ENST00000435970.1_Missense_Mutation_p.Y2835N|RP5-1112D6.8_ENST00000607434.1_RNA|REV3L_ENST00000462119.1_5'UTR|REV3L_ENST00000368805.1_Missense_Mutation_p.Y2913N|REV3L_ENST00000368802.3_Missense_Mutation_p.Y2913N			O60673	DPOLZ_HUMAN	REV3-like, polymerase (DNA directed), zeta, catalytic subunit	2913					DNA-dependent DNA replication (GO:0006261)|translesion synthesis (GO:0019985)	chromosome (GO:0005694)|nucleus (GO:0005634)|zeta DNA polymerase complex (GO:0016035)	4 iron, 4 sulfur cluster binding (GO:0051539)|DNA binding (GO:0003677)|DNA-directed DNA polymerase activity (GO:0003887)|metal ion binding (GO:0046872)|nucleotide binding (GO:0000166)			NS(2)|breast(1)|endometrium(6)|kidney(7)|large_intestine(30)|lung(25)|ovary(3)|prostate(5)|skin(8)|upper_aerodigestive_tract(1)	88		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		CTTCCTCTGTATTCCTTGGCA	0.408								DNA polymerases (catalytic subunits)																																								0													179	179	179					6																	111632330		2203	4300	6503	SO:0001583	missense	5980			AF058701	CCDS5091.2, CCDS69177.1	6q22	2012-05-18	2012-05-18		ENSG00000009413	ENSG00000009413		"DNA polymerases"	9968	protein-coding gene	gene with protein product	"polymerase, DNA, zeta"	602776	"REV3 (yeast homolog)-like, catalytic subunit of DNA polymerase zeta", "REV3-like, catalytic subunit of DNA polymerase zeta (yeast)"			9618506, 9925914	Standard	NM_001286431		Approved	POLZ, REV3	uc003puy.4	O60673	OTTHUMG00000016318	ENST00000358835.3:c.8737T>A	6.37:g.111632330A>T	ENSP00000351697:p.Tyr2913Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O43214|Q5TC33	Missense_Mutation	SNP	ENST00000358835.3	37	CCDS5091.2	.	.	.	.	.	.	.	.	.	.	A	27.2	4.809421	0.90707	.	.	ENSG00000009413	ENST00000368802;ENST00000368805;ENST00000358835;ENST00000435970	T;T;T;T	0.17213	2.29;2.29;2.29;2.29	5.48	5.48	0.80851	DNA-directed DNA polymerase, family B, multifunctional domain (1);	0.069117	0.64402	D	0.000012	T	0.41026	0.1141	M	0.88310	2.945	0.58432	D	0.999999	D	0.69078	0.997	D	0.81914	0.995	T	0.52601	-0.8554	10	0.87932	D	0	-3.7627	15.5643	0.76277	1.0:0.0:0.0:0.0	.	2913	O60673	DPOLZ_HUMAN	N	2913;2913;2913;2835	ENSP00000357792:Y2913N;ENSP00000357795:Y2913N;ENSP00000351697:Y2913N;ENSP00000402003:Y2835N	ENSP00000351697:Y2913N	Y	-	1	0	REV3L	111739023	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.266000	0.95659	2.085000	0.62840	0.455000	0.32223	TAC		0.408	REV3L-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043695.1	NM_002912		T	111632330	A	T	111632330	3	4	578	1	0	0	0	0	1	0	0	0	13253	449	16	5	671	5	REV3L	6	111632330	Missense_Mutation	SNP	A	TCGA-DZ-6135-01A-11D-1961-08	66241848	111632330	59482737	19	34334										
ACTB	60	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	5567465	5567465	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	ctgctggaaggtggacagcgAggccaggatggagccgccga	18	10	0	0			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr7:5567465A>G	ENST00000331789.5	-	6	1233	c.1042T>C	c.(1042-1044)Tcg>Ccg	p.S348P	ACTB_ENST00000464611.1_5'UTR|AC006483.1_ENST00000579427.1_RNA	NM_001101.3	NP_001092.1	P63261	ACTG_HUMAN	actin, beta	348					adherens junction organization (GO:0034332)|axon guidance (GO:0007411)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|cellular component movement (GO:0006928)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|membrane organization (GO:0061024)|platelet aggregation (GO:0070527)|retina homeostasis (GO:0001895)|sarcomere organization (GO:0045214)	blood microparticle (GO:0072562)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|filamentous actin (GO:0031941)|membrane (GO:0016020)|myofibril (GO:0030016)|nucleus (GO:0005634)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|central_nervous_system(1)|large_intestine(2)|lung(2)|prostate(2)	8		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		GTGGACAGCGAGGCCAGGATG	0.592																																																0													70	74	72					7																	5567465		2203	4300	6503	SO:0001583	missense	60			M28424	CCDS5341.1	7p22	2014-09-17			ENSG00000075624	ENSG00000075624			132	protein-coding gene	gene with protein product		102630				1505215	Standard	NM_001101		Approved		uc003sot.4	P60709	OTTHUMG00000023268	ENST00000331789.5:c.1042T>C	7.37:g.5567465A>G	ENSP00000349960:p.Ser348Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7C2|P02571|P14104|P99022|Q5U032|Q96E67	Missense_Mutation	SNP	ENST00000331789.5	37	CCDS5341.1	.	.	.	.	.	.	.	.	.	.	A	16.64	3.178644	0.57692	.	.	ENSG00000075624	ENST00000331789;ENST00000445914;ENST00000400179;ENST00000320713	D	0.95518	-3.73	5.55	4.35	0.52113	.	0.000000	0.53938	D	0.000041	D	0.98798	0.9595	H	0.99855	4.85	0.43965	D	0.996645	D	0.76494	0.999	D	0.97110	1.0	D	0.98206	1.0470	10	0.87932	D	0	.	11.3082	0.49347	0.8643:0.0:0.0:0.1357	.	348	P60709	ACTB_HUMAN	P	348;324;320;267	ENSP00000349960:S348P	ENSP00000440549:S267P	S	-	1	0	ACTB	5533991	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.985000	0.70556	2.114000	0.64651	0.529000	0.55759	TCG		0.592	ACTB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059589.4	NM_001101		G	5567465	A	G	5567465	3	3	578	1	0	0	0	0	1	0	0	0	193	304	11	3	89	3	ACTB	7	5567465	Missense_Mutation	SNP	A	TCGA-DZ-6135-01A-11D-1961-08		5567465	153571198	20	34335										
NFE2L3	9603	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	26223344	26223347	+	Frame_Shift_Del	DEL	TTCT	TTCT	-													0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	catctgaatgggacagatacTtctttctctctggaagactt					rs370809004|rs534912151	byFrequency	TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	TTCT	TTCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr7:26223344_26223347delTTCT	ENST00000056233.3	+	3	1033_1036	c.774_777delTTCT	c.(772-777)acttctfs	p.TS258fs		NM_004289.6	NP_004280.5	Q9Y4A8	NF2L3_HUMAN	nuclear factor, erythroid 2-like 3	258					transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)			breast(2)|endometrium(1)|kidney(2)|large_intestine(4)|lung(5)|ovary(1)|prostate(2)|skin(5)|urinary_tract(7)	29						GGACAGATACTTCTTTCTCTCTGG	0.402																																																0																																										SO:0001589	frameshift_variant	9603			AB010812	CCDS5396.1	7p15.2	2013-08-23	2013-08-23		ENSG00000050344	ENSG00000050344		"basic leucine zipper proteins"	7783	protein-coding gene	gene with protein product		604135	"nuclear factor (erythroid-derived 2)-like 3"			10037736	Standard	NM_004289		Approved	Nrf3	uc003sxq.3	Q9Y4A8	OTTHUMG00000023882	ENST00000056233.3:c.774_777delTTCT	7.37:g.26223348_26223351delTTCT	ENSP00000056233:p.Thr258fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NUS0|Q7Z498|Q86UJ4|Q86VR5|Q9UQA4	Frame_Shift_Del	DEL	ENST00000056233.3	37	CCDS5396.1																																																																																				0.402	NFE2L3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214088.1			-	26223347	TTCT	-	26223344	7	5	578	1	0	1	0	1	0	0	0	0	10376	1596	56	0	784	0	NFE2L3	7	26223344	Frame_Shift_Del	DEL	TTCT	TCGA-DZ-6135-01A-11D-1961-08	20655879	26223344	132915319	21	34336										
MET	4233	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	116423474	116423474	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	aaagctgccagtgaagtggaTggctttggaaagtctgcaaa	13	6	1	1	rs121913245		TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr7:116423474T>C	ENST00000318493.6	+	19	3990	c.3803T>C	c.(3802-3804)aTg>aCg	p.M1268T	MET_ENST00000539704.1_Missense_Mutation_p.M120T|MET_ENST00000397752.3_Missense_Mutation_p.M1250T			Q9NWH9	SLTM_HUMAN	MET proto-oncogene, receptor tyrosine kinase	0					apoptotic process (GO:0006915)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)	p.M1268T(4)		NS(10)|breast(4)|central_nervous_system(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|kidney(25)|large_intestine(8)|liver(3)|lung(70)|ovary(10)|pleura(2)|prostate(4)|skin(5)|stomach(6)|testis(1)|thyroid(4)|upper_aerodigestive_tract(64)|urinary_tract(3)	233	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			GTGAAGTGGATGGCTTTGGAA	0.393			Mis		"papillary renal, head-neck squamous cell "	papillary renal			Hereditary Papillary Renal Carcinoma (type 1)																														Dom	yes	Familial Papillary Renal Cancer	7	7q31	4233	met proto-oncogene (hepatocyte growth factor receptor)		E	4	Substitution - Missense(4)	kidney(4)	GRCh37	CM992181	MET	M	rs121913245						93	92	92					7																	116423474		1872	4102	5974	SO:0001583	missense	4233	Familial Cancer Database	HPRC, Hereditary Papillary Renal Cell Cancer	M35073	CCDS43636.1, CCDS47689.1	7q31	2014-09-17	2014-06-26		ENSG00000105976	ENSG00000105976	2.7.10.1		7029	protein-coding gene	gene with protein product	"hepatocyte growth factor receptor"	164860	"met proto-oncogene"			1846706, 1611909	Standard	NM_001127500		Approved	HGFR, RCCP2	uc010lkh.3	P08581	OTTHUMG00000023299	ENST00000318493.6:c.3803T>C	7.37:g.116423474T>C	ENSP00000317272:p.Met1268Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5V8|B2RTX3|Q2VPK7|Q52MB3|Q658J7|Q6ZNF2|Q86TK6|Q9H7C3|Q9H8U9	Missense_Mutation	SNP	ENST00000318493.6	37	CCDS47689.1	.	.	.	.	.	.	.	.	.	.	T	18.99	3.740165	0.69304	.	.	ENSG00000105976	ENST00000397752;ENST00000318493;ENST00000539704	T;T;T	0.37752	1.18;1.18;1.18	5.68	5.68	0.88126	Serine-threonine/tyrosine-protein kinase (2);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.61714	0.2369	M	0.75264	2.295	0.80722	D	1	D;D	0.89917	1.0;0.998	D;D	0.97110	1.0;1.0	T	0.65734	-0.6096	10	0.87932	D	0	.	16.2225	0.82267	0.0:0.0:0.0:1.0	.	1268;1250	P08581-2;P08581	.;MET_HUMAN	T	1250;1268;120	ENSP00000380860:M1250T;ENSP00000317272:M1268T;ENSP00000445020:M120T	ENSP00000317272:M1268T	M	+	2	0	MET	116210710	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.997000	0.88414	2.289000	0.77006	0.460000	0.39030	ATG		0.393	MET-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059620.3			C	116423474	T	C	116423474	3	2	578	1	0	0	0	0	1	0	0	0	9492	1464	51	3	3873	3	MET	7	116423474	Missense_Mutation	SNP	T	TCGA-DZ-6135-01A-11D-1961-08	90200130	116423474	42715189	22	34337										
ARHGEF5	7984	hgsc.bcm.edu	37	chr7	144060273	144060273	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	gacaggcagaagaagaagagGaaacctcttcagataactct	10	8	3	5			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr7:144060273G>C	ENST00000056217.5	+	2	685	c.511G>C	c.(511-513)Gaa>Caa	p.E171Q	ARHGEF5_ENST00000471847.2_5'Flank	NM_005435.3	NP_005426.2	Q12774	ARHG5_HUMAN	Rho guanine nucleotide exchange factor (GEF) 5	171					actin cytoskeleton organization (GO:0030036)|intracellular signal transduction (GO:0035556)|myeloid dendritic cell chemotaxis (GO:0002408)|positive regulation of podosome assembly (GO:0071803)|regulation of Rho GTPase activity (GO:0032319)		GTP binding (GO:0005525)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(1)|endometrium(6)|kidney(8)|large_intestine(9)|liver(1)|lung(8)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	40	Melanoma(164;0.14)					AGAAGAAGAGGAAACCTCTTC	0.478																																																0													14	17	16					7																	144060273		1978	4028	6006	SO:0001583	missense	7984			U02082	CCDS34771.1	7q35	2012-09-20			ENSG00000050327	ENSG00000050327		"Rho guanine nucleotide exchange factors"	13209	protein-coding gene	gene with protein product	"transforming immortalized mammary oncogene", "guanine nucleotide regulatory protein TIM"	600888				8134109, 7656213	Standard	NM_005435		Approved	TIM, TIM1, GEF5, P60	uc003wel.3	Q12774	OTTHUMG00000158004	ENST00000056217.5:c.511G>C	7.37:g.144060273G>C	ENSP00000056217:p.Glu171Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNJ2|Q6ZML7	Missense_Mutation	SNP	ENST00000056217.5	37	CCDS34771.1	.	.	.	.	.	.	.	.	.	.	G	10.83	1.460416	0.26248	.	.	ENSG00000050327	ENST00000056217	T	0.75938	-0.98	4.33	3.43	0.39272	.	0.701833	0.11649	N	0.542925	T	0.67859	0.2938	L	0.52573	1.65	0.31376	N	0.679585	B	0.20550	0.046	B	0.17098	0.017	T	0.63950	-0.6521	9	.	.	.	.	11.5373	0.50645	0.0:0.2034:0.7966:0.0	.	171	Q12774	ARHG5_HUMAN	Q	171	ENSP00000056217:E171Q	.	E	+	1	0	ARHGEF5	143691206	0.974000	0.33945	0.055000	0.19348	0.059000	0.15707	1.548000	0.36201	1.009000	0.39289	0.650000	0.86243	GAA		0.478	ARHGEF5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349981.1	NM_005435		C	144060273	G	C	144060273	3	2	578	1	0	0	0	0	1	0	0	0	909	1175	41	4	513	4	ARHGEF5	7	144060273	Missense_Mutation	SNP	G	TCGA-DZ-6135-01A-11D-1961-08	27636799	144060273	15078390	23	34338										
TOPORS	10210	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	32543270	32543270	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	aagatggtcctggagtttcaTcatcccatggtgcctgacta	10	10	2	2			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr9:32543270T>C	ENST00000360538.2	-	3	1369	c.1253A>G	c.(1252-1254)gAt>gGt	p.D418G	TOPORS_ENST00000379858.1_Missense_Mutation_p.D353G	NM_005802.4	NP_005793.2	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich, E3 ubiquitin protein ligase	418					cellular response to DNA damage stimulus (GO:0006974)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|maintenance of protein location in nucleus (GO:0051457)|negative regulation of apoptotic process (GO:0043066)|photoreceptor cell outer segment organization (GO:0035845)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of ubiquitin-protein transferase activity (GO:0051443)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein K48-linked ubiquitination (GO:0070936)|protein localization to nucleus (GO:0034504)|protein monoubiquitination (GO:0006513)|protein sumoylation (GO:0016925)|regulation of cell proliferation (GO:0042127)|retina layer formation (GO:0010842)|retinal cone cell development (GO:0046549)|retinal rod cell development (GO:0046548)|transcription, DNA-templated (GO:0006351)|ubiquitin-dependent protein catabolic process (GO:0006511)	centriole (GO:0005814)|ciliary basal body (GO:0036064)|gamma-tubulin complex (GO:0000930)|midbody (GO:0030496)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|photoreceptor connecting cilium (GO:0032391)|PML body (GO:0016605)|spindle pole (GO:0000922)|ubiquitin ligase complex (GO:0000151)	antigen binding (GO:0003823)|DNA binding (GO:0003677)|DNA topoisomerase binding (GO:0044547)|SUMO ligase activity (GO:0019789)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			large_intestine(6)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)	12			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		TGGAGTTTCATCATCCCATGG	0.423																																																0													126	126	126					9																	32543270		2203	4299	6502	SO:0001583	missense	10210			AF098300	CCDS6527.1, CCDS56566.1	9p21	2013-01-09	2010-09-17		ENSG00000197579	ENSG00000197579		"RING-type (C3HC4) zinc fingers"	21653	protein-coding gene	gene with protein product		609507	"retinitis pigmentosa 31 (autosomal dominant)", "topoisomerase I binding, arginine/serine-rich"	RP31		10352183, 12083797, 17924349	Standard	NM_005802		Approved	TP53BPL, LUN	uc003zrb.3	Q9NS56	OTTHUMG00000019743	ENST00000360538.2:c.1253A>G	9.37:g.32543270T>C	ENSP00000353735:p.Asp418Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O43273|Q6P987|Q9NS55|Q9UNR9	Missense_Mutation	SNP	ENST00000360538.2	37	CCDS6527.1	.	.	.	.	.	.	.	.	.	.	T	9.322	1.058402	0.19987	.	.	ENSG00000197579	ENST00000360538;ENST00000379858	T;T	0.18657	2.2;2.21	5.63	5.63	0.86233	.	0.140255	0.33199	N	0.005175	T	0.20292	0.0488	L	0.34521	1.04	0.52099	D	0.999947	P	0.47191	0.891	B	0.42522	0.39	T	0.01252	-1.1405	10	0.59425	D	0.04	-15.9255	14.84	0.70217	0.0:0.0:0.0:1.0	.	418	Q9NS56	TOPRS_HUMAN	G	418;353	ENSP00000353735:D418G;ENSP00000369187:D353G	ENSP00000353735:D418G	D	-	2	0	TOPORS	32533270	1.000000	0.71417	1.000000	0.80357	0.280000	0.26924	7.698000	0.84413	2.145000	0.66743	0.528000	0.53228	GAT		0.423	TOPORS-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000052007.1	NM_005802		C	32543270	T	C	32543270	3	2	578	1	0	0	0	0	1	0	0	0	16382	1435	50	3	1888	3	TOPORS	9	32543270	Missense_Mutation	SNP	T	TCGA-DZ-6135-01A-11D-1961-08		32543270	108670161	24	34339										
TNC	3371	hgsc.bcm.edu	37	chr9	117808884	117808922	+	In_Frame_Del	DEL	CATCAGCTGTCCAGGACAGACGGAAACCGTCTGGGGTGG	CATCAGCTGTCCAGGACAGACGGAAACCGTCTGGGGTGG	-													0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	aaaattgtcgaagaccccttCatcagctgtccaggacagac							TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	CATCAGCTGTCCAGGACAGACGGAAACCGTCTGGGGTGG	CATCAGCTGTCCAGGACAGACGGAAACCGTCTGGGGTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr9:117808884_117808922delCATCAGCTGTCCAGGACAGACGGAAACCGTCTGGGGTGG	ENST00000350763.4	-	17	5303_5341	c.4892_4930delCCACCCCAGACGGTTTCCGTCTGTCCTGGACAGCTGATG	c.(4891-4932)gccaccccagacggtttccgtctgtcctggacagctgatgaa>gaa	p.ATPDGFRLSWTAD1631del	TNC_ENST00000423613.2_Intron|TNC_ENST00000341037.4_In_Frame_Del_p.ATPDGFRLSWTAD1449del|TNC_ENST00000340094.3_In_Frame_Del_p.ATPDGFRLSWTAD1267del|TNC_ENST00000537320.1_Intron|TNC_ENST00000345230.3_Intron|TNC_ENST00000346706.3_In_Frame_Del_p.ATPDGFRLSWTAD1085del|TNC_ENST00000481475.1_5'Flank|TNC_ENST00000542877.1_In_Frame_Del_p.ATPDGFRLSWTAD1268del|TNC_ENST00000535648.1_In_Frame_Del_p.ATPDGFRLSWTAD1176del	NM_002160.3	NP_002151.2	P24821	TENA_HUMAN	tenascin C	1631	Fibronectin type-III 12. {ECO:0000255|PROSITE-ProRule:PRU00316}.				bud outgrowth involved in lung branching (GO:0060447)|cell adhesion (GO:0007155)|cellular response to prostaglandin D stimulus (GO:0071799)|cellular response to retinoic acid (GO:0071300)|cellular response to vitamin D (GO:0071305)|extracellular matrix organization (GO:0030198)|mesenchymal-epithelial cell signaling involved in prostate gland development (GO:0060739)|negative regulation of cell adhesion (GO:0007162)|neuromuscular junction development (GO:0007528)|odontogenesis of dentin-containing tooth (GO:0042475)|osteoblast differentiation (GO:0001649)|peripheral nervous system axon regeneration (GO:0014012)|positive regulation of cell proliferation (GO:0008284)|positive regulation of gene expression (GO:0010628)|prostate gland epithelium morphogenesis (GO:0060740)|response to ethanol (GO:0045471)|response to fibroblast growth factor (GO:0071774)|response to mechanical stimulus (GO:0009612)|response to wounding (GO:0009611)|wound healing (GO:0042060)	basement membrane (GO:0005604)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|focal adhesion (GO:0005925)|interstitial matrix (GO:0005614)|membrane (GO:0016020)	syndecan binding (GO:0045545)	p.T1641K(1)|p.D1634E(1)		NS(3)|breast(5)|central_nervous_system(4)|endometrium(8)|kidney(6)|large_intestine(32)|liver(1)|lung(39)|ovary(1)|pancreas(2)|prostate(5)|skin(5)|stomach(5)|upper_aerodigestive_tract(2)|urinary_tract(2)	120						AAGACCCCTTCATCAGCTGTCCAGGACAGACGGAAACCGTCTGGGGTGGCATCTGAAAC	0.494																																																2	Substitution - Missense(2)	large_intestine(1)|lung(1)																																								SO:0001651	inframe_deletion	3371				CCDS6811.1	9q33.1	2014-01-28	2008-07-31	2002-06-07	ENSG00000041982	ENSG00000041982		"Fibrinogen C domain containing", "Fibronectin type III domain containing"	5318	protein-coding gene	gene with protein product	"hexabrachion (tenascin)"	187380	"hexabrachion (tenascin C, cytotactin)", "deafness, autosomal dominant 56"	HXB, DFNA56		1704365, 1707164, 23936043	Standard	NM_002160		Approved	TN, MGC167029	uc004bjj.4	P24821	OTTHUMG00000021010	ENST00000350763.4:c.4892_4930delCCACCCCAGACGGTTTCCGTCTGTCCTGGACAGCTGATG	9.37:g.117808884_117808922delCATCAGCTGTCCAGGACAGACGGAAACCGTCTGGGGTGG	ENSP00000265131:p.Ala1631_Asp1643del	Somatic		WXS	Illumina HiSeq	Phase_I	C9IYT7|C9J575|C9J6D9|C9J848|Q14583|Q15567|Q5T7S3	In_Frame_Del	DEL	ENST00000350763.4	37	CCDS6811.1																																																																																				0.494	TNC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055418.2	NM_002160		-	117808922	CATCAGCTGTCCAGGACAGACGGAAACCGTCTGGGGTGG	-	117808884	7	5	578	1	0	1	0	1	0	0	0	0	16282	835	29	0	1723	0	TNC	9	117808884	In_Frame_Del	DEL	CATCAGCTGTCCAGGACAGACGGAAACCGTCTGGGGTGG	TCGA-DZ-6135-01A-11D-1961-08	85265614	117808884	23404547	25	34340										
SPTAN1	6709	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	131361264	131361264	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	agtgtatggcatgatgcccaGggtaagtttcgggtgctgtg	16	6	0	1			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr9:131361264G>T	ENST00000372731.4	+	26	3652	c.3542G>T	c.(3541-3543)aGg>aTg	p.R1181M	SPTAN1_ENST00000358161.5_Splice_Site_p.R1181M|SPTAN1_ENST00000372739.3_Splice_Site_p.R1181M|SPTAN1_ENST00000475367.1_3'UTR	NM_001195532.1|NM_003127.3	NP_001182461.1|NP_003118.2	Q13813	SPTN1_HUMAN	spectrin, alpha, non-erythrocytic 1	1181					actin filament capping (GO:0051693)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)	cuticular plate (GO:0032437)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|fascia adherens (GO:0005916)|intracellular membrane-bounded organelle (GO:0043231)|lateral plasma membrane (GO:0016328)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|spectrin (GO:0008091)|vesicle (GO:0031982)|Z disc (GO:0030018)	actin binding (GO:0003779)|calcium ion binding (GO:0005509)|structural constituent of cytoskeleton (GO:0005200)			NS(2)|breast(8)|cervix(2)|endometrium(6)|kidney(4)|large_intestine(21)|liver(1)|lung(25)|ovary(5)|pancreas(1)|prostate(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	87						ATGATGCCCAGGGTAAGTTTC	0.398																																					NSCLC(120;833 1744 2558 35612 37579)											0													195	177	183					9																	131361264		2203	4300	6503	SO:0001630	splice_region_variant	6709			M19725	CCDS6905.1, CCDS48036.1, CCDS75914.1	9q34.11	2013-01-10	2012-06-15		ENSG00000197694	ENSG00000197694		"EF-hand domain containing"	11273	protein-coding gene	gene with protein product	"alpha-fodrin"	182810				3336352	Standard	NM_003127		Approved		uc004bvm.4	Q13813	OTTHUMG00000020754	ENST00000372731.4:c.3543+1G>T	9.37:g.131361264G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q13186|Q15324|Q16606|Q59EF1|Q5VXV5|Q5VXV6|Q7Z6M5|Q9P0V0	Missense_Mutation	SNP	ENST00000372731.4	37	CCDS6905.1	.	.	.	.	.	.	.	.	.	.	G	15.18	2.758441	0.49468	.	.	ENSG00000197694	ENST00000358161;ENST00000372731;ENST00000372739;ENST00000372719	T;T;T	0.51325	0.71;0.73;0.71	5.93	2.99	0.34606	.	0.237058	0.49916	D	0.000123	T	0.27419	0.0673	N	0.08118	0	0.41841	D	0.990122	B;B;P;P;P	0.37276	0.187;0.22;0.589;0.589;0.454	B;B;B;B;B	0.37047	0.121;0.188;0.24;0.24;0.121	T	0.13045	-1.0524	10	0.72032	D	0.01	.	10.0762	0.42362	0.2288:0.0:0.7712:0.0	.	1181;1161;1161;1181;1181	A6NG51;B4DTV8;Q13813-3;Q13813-2;Q13813	.;.;.;.;SPTA2_HUMAN	M	1181;1181;1181;1161	ENSP00000350882:R1181M;ENSP00000361816:R1181M;ENSP00000361824:R1181M	ENSP00000350882:R1181M	R	+	2	0	SPTAN1	130401085	1.000000	0.71417	1.000000	0.80357	0.929000	0.56500	1.468000	0.35332	0.342000	0.23796	0.555000	0.69702	AGG		0.398	SPTAN1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054472.1	NM_003127	Missense_Mutation	T	131361264	G	T	131361264	5	4	578	1	0	0	0	0	0	0	1	0	15129	1014	35	4	3640	4	SPTAN1	9	131361264	Splice_Site	SNP	G	TCGA-DZ-6135-01A-11D-1961-08	13552380	131361264	9852167	26	34341										
AGPAT2	10555	bcgsc.ca	37	chr9	139581687	139581687	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	cagacgagcgaggccacggcGgacaccgtgaagcacagcgc	15	14	0	2			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr9:139581687G>A	ENST00000371696.2	-	1	188	c.123C>T	c.(121-123)tcC>tcT	p.S41S	AGPAT2_ENST00000371694.3_Silent_p.S41S|AGPAT2_ENST00000538402.1_Silent_p.S41S	NM_006412.3	NP_006403.2	O15120	PLCB_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 2	41					CDP-diacylglycerol biosynthetic process (GO:0016024)|cellular lipid metabolic process (GO:0044255)|epidermis development (GO:0008544)|glycerophospholipid biosynthetic process (GO:0046474)|phosphatidic acid biosynthetic process (GO:0006654)|phospholipid metabolic process (GO:0006644)|positive regulation of cytokine production (GO:0001819)|positive regulation of cytokine-mediated signaling pathway (GO:0001961)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	1-acylglycerol-3-phosphate O-acyltransferase activity (GO:0003841)			endometrium(1)|large_intestine(1)|lung(2)|prostate(2)	6	all_cancers(76;0.0893)|all_epithelial(76;0.231)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;9.87e-06)|Epithelial(140;0.000123)		AGGCCACGGCGGACACCGTGA	0.741																																																0													16	20	18					9																	139581687		1969	3947	5916	SO:0001819	synonymous_variant	10555			AF000237	CCDS7003.1, CCDS35181.1	9q34.3	2013-02-05	2013-02-05		ENSG00000169692	ENSG00000169692	2.3.1.51	"1-acylglycerol-3-phosphate O-acyltransferases"	325	protein-coding gene	gene with protein product	"LPAAT-beta", "lysophosphatidic acid acyltransferase, beta"	603100	"Berardinelli-Seip congenital lipodystrophy", "1-acylglycerol-3-phosphate O-acyltransferase 2 (lysophosphatidic acid acyltransferase, beta)"	BSCL		9242711, 9212163	Standard	NM_006412		Approved		uc004cii.1	O15120	OTTHUMG00000020936	ENST00000371696.2:c.123C>T	9.37:g.139581687G>A		Somatic		WXS	Illumina HiSeq	Phase_1	O00516|O15106|Q5VUD3|Q5VUD4|Q9BSV7|Q9BWR7	Silent	SNP	ENST00000371696.2	37	CCDS7003.1																																																																																				0.741	AGPAT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055090.1	NM_006412		A	139581687	G	A	139581687	2	1	578	1	0	0	0	0	0	0	0	1	387	1103	39	1		1	AGPAT2	9	139581687	Silent	SNP	G	TCGA-DZ-6135-01A-11D-1961-08	8220423	139581687	1631744	27	34342										
CHD4	1108	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	6711561	6711561	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	cctcctttttttggcgcttgCtcttagggattttagggtcc	10	10	1	0			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr12:6711561C>G	ENST00000357008.2	-	3	366	c.203G>C	c.(202-204)aGc>aCc	p.S68T	CHD4_ENST00000544484.1_Missense_Mutation_p.S65T|CHD4_ENST00000309577.6_Missense_Mutation_p.S68T|CHD4_ENST00000544040.1_Missense_Mutation_p.S68T	NM_001273.2	NP_001264.2	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	68					ATP-dependent chromatin remodeling (GO:0043044)|DNA duplex unwinding (GO:0032508)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|spindle assembly (GO:0051225)|transcription, DNA-templated (GO:0006351)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|NuRD complex (GO:0016581)|protein complex (GO:0043234)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA binding (GO:0003677)|RNA polymerase II repressing transcription factor binding (GO:0001103)|zinc ion binding (GO:0008270)			central_nervous_system(2)	2						TTGGCGCTTGCTCTTAGGGAT	0.478																																					Colon(32;586 792 4568 16848 45314)											0													238	240	239					12																	6711561		2203	4300	6503	SO:0001583	missense	1108			X86691	CCDS8552.1	12p13	2013-01-28				ENSG00000111642		"Zinc fingers, PHD-type"	1919	protein-coding gene	gene with protein product		603277				7575689, 8843877	Standard	XM_006718958		Approved	Mi-2b, Mi2-BETA	uc001qpo.3	Q14839		ENST00000357008.2:c.203G>C	12.37:g.6711561C>G	ENSP00000349508:p.Ser68Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IXZ5	Missense_Mutation	SNP	ENST00000357008.2	37	CCDS8552.1	.	.	.	.	.	.	.	.	.	.	C	11.51	1.660131	0.29515	.	.	ENSG00000111642	ENST00000544484;ENST00000544040;ENST00000309577;ENST00000357008;ENST00000537464;ENST00000545942;ENST00000545584	D;D;D;D;T	0.90197	-2.63;-2.6;-2.62;-2.63;0.88	5.26	5.26	0.73747	.	0.301114	0.34879	N	0.003602	D	0.84106	0.5399	L	0.36672	1.1	0.38243	D	0.941392	B;B;B	0.31817	0.341;0.231;0.341	B;B;B	0.28011	0.085;0.027;0.059	T	0.81773	-0.0779	10	0.12766	T	0.61	-0.8518	14.1344	0.65276	0.1501:0.8499:0.0:0.0	.	68;68;68	Q14839-2;Q14839;F5GWX5	.;CHD4_HUMAN;.	T	65;68;68;68;49;68;68	ENSP00000440392:S65T;ENSP00000440542:S68T;ENSP00000312419:S68T;ENSP00000349508:S68T;ENSP00000437506:S68T	ENSP00000312419:S68T	S	-	2	0	CHD4	6581822	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	3.832000	0.55783	2.633000	0.89246	0.555000	0.69702	AGC		0.478	CHD4-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001273		G	6711561	C	G	6711561	3	3	578	1	0	0	0	0	1	0	0	0	3329	797	28	4	5687	4	CHD4	12	6711561	Missense_Mutation	SNP	C	TCGA-DZ-6135-01A-11D-1961-08		6711561	127140334	28	34343										
LNX2	222484	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	28143269	28143269	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	tgccgctccacaggcactgcGcctgtccccaaacagtctgc	9	18	1	0			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr13:28143269G>A	ENST00000316334.3	-	3	681	c.552C>T	c.(550-552)ggC>ggT	p.G184G		NM_153371.3	NP_699202.1	Q8N448	LNX2_HUMAN	ligand of numb-protein X 2	184					protein homooligomerization (GO:0051260)		zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(8)|lung(7)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	31		Lung SC(185;0.0156)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.113)|all cancers(112;0.127)|Epithelial(112;0.248)		CAGGCACTGCGCCTGTCCCCA	0.532																																																0													241	235	237					13																	28143269		2203	4300	6503	SO:0001819	synonymous_variant	222484			AL138699	CCDS9323.1	13q12.2	2013-01-09	2004-01-22	2004-01-23	ENSG00000139517	ENSG00000139517		"RING-type (C3HC4) zinc fingers"	20421	protein-coding gene	gene with protein product		609733	"PDZ domain containing ring finger 1"	PDZRN1			Standard	NM_153371		Approved	MGC46315	uc001url.4	Q8N448	OTTHUMG00000016634	ENST00000316334.3:c.552C>T	13.37:g.28143269G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5W0P0|Q6ZMH2|Q96SH4	Silent	SNP	ENST00000316334.3	37	CCDS9323.1																																																																																				0.532	LNX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044302.2			A	28143269	G	A	28143269	2	1	578	1	0	0	0	0	0	0	0	1	8873	1074	38	1		1	LNX2	13	28143269	Silent	SNP	G	TCGA-DZ-6135-01A-11D-1961-08		28143269	87026609	29	34344										
KLHL1	57626	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	70549759	70549759	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	cagactactgtacctatgtgCaggtatctttcggttcccaa	8	11	1	1			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr13:70549759C>G	ENST00000377844.4	-	2	1432	c.673G>C	c.(673-675)Gca>Cca	p.A225P	KLHL1_ENST00000545028.1_Intron	NM_020866.2	NP_065917.1	Q9NR64	KLHL1_HUMAN	kelch-like family member 1	225	BTB. {ECO:0000255|PROSITE- ProRule:PRU00037}.				actin cytoskeleton organization (GO:0030036)|adult walking behavior (GO:0007628)|cerebellar Purkinje cell layer development (GO:0021680)|dendrite development (GO:0016358)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|dendrite (GO:0030425)|neuronal cell body (GO:0043025)	actin binding (GO:0003779)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(11)|lung(56)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(4)|urinary_tract(1)	84		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		TACCTATGTGCAGGTATCTTT	0.403																																																0													148	136	140					13																	70549759		2203	4300	6503	SO:0001583	missense	57626			AB040923	CCDS9445.1, CCDS73582.1	13q21	2013-01-30	2013-01-30		ENSG00000150361	ENSG00000150361		"Kelch-like", "BTB/POZ domain containing"	6352	protein-coding gene	gene with protein product	"Kelch-like protein 1", "Mayven-related protein 2"	605332	"kelch (Drosophila)-like 1", "kelch-like 1 (Drosophila)"			10888605	Standard	NM_020866		Approved	KIAA1490, MRP2, FLJ30047	uc001vip.3	Q9NR64	OTTHUMG00000017056	ENST00000377844.4:c.673G>C	13.37:g.70549759C>G	ENSP00000367075:p.Ala225Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5X0|Q5VZ64|Q9H4X4|Q9NR65|Q9P238	Missense_Mutation	SNP	ENST00000377844.4	37	CCDS9445.1	.	.	.	.	.	.	.	.	.	.	C	19.70	3.876217	0.72180	.	.	ENSG00000150361	ENST00000377844	T	0.78003	-1.14	5.82	5.82	0.92795	BTB/POZ-like (2);BTB/POZ (1);BTB/POZ fold (2);	0.172430	0.41097	D	0.000941	D	0.92795	0.7709	H	0.97023	3.925	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	D	0.94480	0.7692	10	0.87932	D	0	.	20.0951	0.97834	0.0:1.0:0.0:0.0	.	225	Q9NR64	KLHL1_HUMAN	P	225	ENSP00000367075:A225P	ENSP00000367075:A225P	A	-	1	0	KLHL1	69447760	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	7.197000	0.77814	2.753000	0.94483	0.467000	0.42956	GCA		0.403	KLHL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045231.3	NM_020866		G	70549759	C	G	70549759	3	3	578	1	0	0	0	0	1	0	0	0	8372	710	25	4	1613	4	KLHL1	13	70549759	Missense_Mutation	SNP	C	TCGA-DZ-6135-01A-11D-1961-08	42406490	70549759	44620119	30	34345										
AHNAK2	113146	ucsc.edu	37	chr14	105418145	105418145	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	ctccaggtcagcggaaggggGctgaatgctgaggtcagtgg	18	8	2	2	rs375277628	byFrequency	TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr14:105418145G>A	ENST00000333244.5	-	7	3762	c.3643C>T	c.(3643-3645)Ccc>Tcc	p.P1215S	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1215						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			GCGGAAGGGGGCTGAATGCTG	0.647													.|||	6	0.00119808	0.0	0.0	5008	,	,		15037	0.0		0.001	False		,,,				2504	0.0051															0								G	SER/PRO	2,3852		0,2,1925	96	70	79		3643	1.6	0	14		79	3,7607		0,3,3802	no	missense	AHNAK2	NM_138420.2	74	0,5,5727	AA,AG,GG		0.0394,0.0519,0.0436	benign	1215/5796	105418145	5,11459	1927	3805	5732	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.3643C>T	14.37:g.105418145G>A	ENSP00000353114:p.Pro1215Ser	Somatic		WXS	Illumina HiSeq		Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	.	.	.	.	.	.	.	.	.	.	g	9.389	1.074896	0.20227	5.19E-4	3.94E-4	ENSG00000185567	ENST00000333244	T	0.00840	5.63	4.55	1.58	0.23477	.	.	.	.	.	T	0.00695	0.0023	N	0.25201	0.72	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.46512	-0.9186	9	0.08837	T	0.75	.	5.6981	0.17867	0.0766:0.3467:0.4538:0.1229	.	1215	Q8IVF2	AHNK2_HUMAN	S	1215	ENSP00000353114:P1215S	ENSP00000353114:P1215S	P	-	1	0	AHNAK2	104489190	.	.	0.009000	0.14445	0.004000	0.04260	.	.	0.383000	0.24910	-1.447000	0.01057	CCC		0.647	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		A	105418145	G	A	105418145	3	1	578	1	0	0	0	0	1	0	0	0	415	1203	42	2	13748	2	AHNAK2	14	105418145	Missense_Mutation	SNP	G	TCGA-DZ-6135-01A-11D-1961-08		105418145	1931395	31	34346										
UBE3A	7337	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	25616649	25616649	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	acagacacatcatcagggccTaatttttgcaaattgttgtc	7	9	2	1			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr15:25616649T>A	ENST00000397954.2	-	4	680	c.681A>T	c.(679-681)ttA>ttT	p.L227F	UBE3A_ENST00000428984.2_Missense_Mutation_p.L204F|UBE3A_ENST00000232165.3_Missense_Mutation_p.L224F|UBE3A_ENST00000566215.1_Missense_Mutation_p.L204F|SNHG14_ENST00000554726.1_RNA|UBE3A_ENST00000438097.1_Missense_Mutation_p.L204F			Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A	227					androgen receptor signaling pathway (GO:0030521)|brain development (GO:0007420)|ovarian follicle development (GO:0001541)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|prostate gland growth (GO:0060736)|protein autoubiquitination (GO:0051865)|protein K48-linked ubiquitination (GO:0070936)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|proteolysis (GO:0006508)|sperm entry (GO:0035037)|ubiquitin-dependent protein catabolic process (GO:0006511)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|proteasome complex (GO:0000502)	ligase activity (GO:0016874)|transcription coactivator activity (GO:0003713)|ubiquitin-protein transferase activity (GO:0004842)			breast(1)|endometrium(3)|kidney(1)|large_intestine(14)|lung(13)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)	38		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		CATCAGGGCCTAATTTTTGCA	0.418																																																0													179	174	176					15																	25616649		2203	4300	6503	SO:0001583	missense	7337			AF002224	CCDS32177.1, CCDS45191.1, CCDS45192.1	15q11.2	2014-09-17	2008-07-31		ENSG00000114062	ENSG00000114062	6.3.2.19		12496	protein-coding gene	gene with protein product	"Angelman syndrome"	601623	"human papilloma virus E6-associated protein"	EPVE6AP, HPVE6A		8221889	Standard	NM_130838		Approved	AS, ANCR, E6-AP, FLJ26981	uc001zas.3	Q05086		ENST00000397954.2:c.681A>T	15.37:g.25616649T>A	ENSP00000381045:p.Leu227Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8Z9|P78355|Q93066|Q9UEP4|Q9UEP5|Q9UEP6|Q9UEP7|Q9UEP8|Q9UEP9	Missense_Mutation	SNP	ENST00000397954.2	37	CCDS45192.1	.	.	.	.	.	.	.	.	.	.	T	5.048	0.194522	0.09599	.	.	ENSG00000114062	ENST00000232165;ENST00000356465;ENST00000397954;ENST00000438097;ENST00000428984	T;T;T;T	0.18657	2.2;2.2;2.2;2.2	5.84	2.23	0.28157	.	0.385567	0.26421	N	0.024461	T	0.09992	0.0245	N	0.14661	0.345	0.47123	D	0.999328	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.17684	-1.0361	10	0.09590	T	0.72	.	9.4825	0.38908	0.0:0.293:0.0:0.707	.	224;227	Q05086-3;Q05086	.;UBE3A_HUMAN	F	224;224;227;204;204	ENSP00000232165:L224F;ENSP00000381045:L227F;ENSP00000411258:L204F;ENSP00000401265:L204F	ENSP00000232165:L224F	L	-	3	2	UBE3A	23167742	0.789000	0.28775	0.833000	0.33012	0.928000	0.56348	-0.010000	0.12743	0.448000	0.26722	0.482000	0.46254	TTA		0.418	UBE3A-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000434203.1	NM_000462		A	25616649	T	A	25616649	3	1	578	1	0	0	0	0	1	0	0	0	16891	1519	53	5	1978	5	UBE3A	15	25616649	Missense_Mutation	SNP	T	TCGA-DZ-6135-01A-11D-1961-08		25616649	76914743	32	34347										
CCDC78	124093	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	775528	775528	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	ggactgcacagccctggctgGtgccatctcctcgcagctcc	11	17	1	0			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr16:775528G>T	ENST00000293889.6	-	4	425	c.320C>A	c.(319-321)aCc>aAc	p.T107N	HAGHL_ENST00000341413.4_5'Flank|HAGHL_ENST00000564545.1_5'Flank|HAGHL_ENST00000561546.1_5'Flank|HAGHL_ENST00000549114.1_5'Flank|HAGHL_ENST00000389703.3_5'Flank|HAGHL_ENST00000564537.1_5'Flank	NM_001031737.2	NP_001026907.2	A2IDD5	CCD78_HUMAN	coiled-coil domain containing 78	107					cell projection organization (GO:0030030)|de novo centriole assembly (GO:0098535)|skeletal muscle contraction (GO:0003009)	centriole (GO:0005814)|deuterosome (GO:0098536)|perinuclear region of cytoplasm (GO:0048471)|sarcolemma (GO:0042383)|sarcoplasmic reticulum (GO:0016529)				central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(1)|lung(2)|skin(3)	9		Hepatocellular(780;0.0218)				GCCCTGGCTGGTGCCATCTCC	0.652																																																0													55	53	53					16																	775528		2194	4297	6491	SO:0001583	missense	124093			BC042110	CCDS32353.1	16p13.3	2014-07-15		2006-02-20	ENSG00000162004	ENSG00000162004			14153	protein-coding gene	gene with protein product		614666		C16orf25		24075808	Standard	NM_001031737		Approved	FLJ34512	uc002cjg.3	A2IDD5	OTTHUMG00000121176	ENST00000293889.6:c.320C>A	16.37:g.775528G>T	ENSP00000293889:p.Thr107Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B4DNY4|B4E1U6|Q05BY7|Q05CA0|Q6T2V5|Q6ZR33|Q8IUR3|Q8NAY7|Q96S12	Missense_Mutation	SNP	ENST00000293889.6	37	CCDS32353.1	.	.	.	.	.	.	.	.	.	.	G	3.380	-0.126581	0.06795	.	.	ENSG00000162004	ENST00000293889	T	0.42900	0.96	3.03	0.647	0.17796	.	0.915341	0.09100	N	0.848716	T	0.18299	0.0439	N	0.08118	0	0.09310	N	1	P;P;P;B	0.39157	0.662;0.662;0.662;0.016	B;B;B;B	0.32624	0.149;0.106;0.149;0.015	T	0.12426	-1.0548	10	0.59425	D	0.04	-0.2556	3.877	0.09061	0.156:0.2512:0.5928:0.0	.	107;107;181;107	A2IDD5-4;A2IDD5-6;A2IDD5-5;A2IDD5	.;.;.;CCD78_HUMAN	N	107	ENSP00000293889:T107N	ENSP00000293889:T107N	T	-	2	0	CCDC78	715529	0.000000	0.05858	0.001000	0.08648	0.006000	0.05464	-0.489000	0.06490	0.376000	0.24707	0.436000	0.28706	ACC		0.652	CCDC78-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241665.3	NM_173476		T	775528	G	T	775528	3	4	578	1	0	0	0	0	1	0	0	0	2854	1261	44	4	1040	4	CCDC78	16	775528	Missense_Mutation	SNP	G	TCGA-DZ-6135-01A-11D-1961-08		775528	89579225	33	34348										
SNX29	92017	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	12618621	12618621	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	tacctgcgcagcgtcatgaaCaaagtcatccagatggtccc	9	13	2	2			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr16:12618621C>T	ENST00000566228.1	+	20	2310	c.2241C>T	c.(2239-2241)aaC>aaT	p.N747N	SNX29_ENST00000306030.3_Silent_p.N362N|SNX29_ENST00000323433.4_Silent_p.N362N	NM_032167.3	NP_115543.3	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	747	PX. {ECO:0000255|PROSITE- ProRule:PRU00147}.					extracellular vesicular exosome (GO:0070062)	phosphatidylinositol binding (GO:0035091)			endometrium(1)|large_intestine(1)|lung(3)|ovary(1)|prostate(1)	7						GCGTCATGAACAAAGTCATCC	0.522																																																0													94	101	99					16																	12618621		2049	4201	6250	SO:0001819	synonymous_variant	92017			AK074072	CCDS10553.2	16p13.13-p13.12	2011-08-16			ENSG00000048471	ENSG00000048471		"Sorting nexins"	30542	protein-coding gene	gene with protein product			"RUN domain containing 2A"	RUNDC2A		16782399	Standard	XM_005255682		Approved	FLJ12363	uc002dby.5	Q8TEQ0		ENST00000566228.1:c.2241C>T	16.37:g.12618621C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B5MDW2|Q8N2X2|Q9HA26	Silent	SNP	ENST00000566228.1	37	CCDS10553.2																																																																																				0.522	SNX29-005	PUTATIVE	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000422622.1			T	12618621	C	T	12618621	2	4	578	1	0	0	0	0	0	0	0	1	14911	477	17	2		2	SNX29	16	12618621	Silent	SNP	C	TCGA-DZ-6135-01A-11D-1961-08	11843093	12618621	77736132	34	34349										
ABCC11	85320	ucsc.edu	37	chr16	48210875	48210875	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	atgcccaccacttcgtggccGcggatggtcaggttgatgcc	13	13	1	1			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr16:48210875G>A	ENST00000394747.1	-	24	3847	c.3498C>T	c.(3496-3498)cgC>cgT	p.R1166R	ABCC11_ENST00000394748.1_Silent_p.R1166R|ABCC11_ENST00000353782.5_Silent_p.R1166R|ABCC11_ENST00000565329.1_5'UTR|ABCC11_ENST00000356608.2_Silent_p.R1166R	NM_033151.3	NP_149163.2	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 11	1166	ABC transporter 2. {ECO:0000255|PROSITE- ProRule:PRU00434}.				organic anion transport (GO:0015711)|purine nucleotide transport (GO:0015865)|transmembrane transport (GO:0055085)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|organic anion transmembrane transporter activity (GO:0008514)|purine nucleotide transmembrane transporter activity (GO:0015216)			breast(3)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(12)|lung(42)|ovary(3)|prostate(2)|skin(5)|urinary_tract(2)	83		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)			Conjugated Estrogens(DB00286)|Folic Acid(DB00158)|Indomethacin(DB00328)|Methotrexate(DB00563)|Probenecid(DB01032)	CTTCGTGGCCGCGGATGGTCA	0.577																																																0													134	105	115					16																	48210875		2201	4300	6501	SO:0001819	synonymous_variant	85320			AF367202	CCDS10732.1, CCDS10733.1	16q12	2012-03-14			ENSG00000121270	ENSG00000121270		"ATP binding cassette transporters / subfamily C"	14639	protein-coding gene	gene with protein product		607040				11483364, 11435397	Standard	NM_033151		Approved	MRP8	uc002efg.1	Q96J66	OTTHUMG00000133146	ENST00000394747.1:c.3498C>T	16.37:g.48210875G>A		Somatic		WXS	Illumina HiSeq		Q8TDJ0|Q96JA6|Q9BX80	Silent	SNP	ENST00000394747.1	37	CCDS10732.1																																																																																				0.577	ABCC11-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000429984.1	NM_032583		A	48210875	G	A	48210875	2	1	578	1	0	0	0	0	0	0	0	1	51	1074	38	1		1	ABCC11	16	48210875	Silent	SNP	G	TCGA-DZ-6135-01A-11D-1961-08	35592254	48210875	42143878	35	34350										
ODF4	146852	broad.mit.edu	37	chr17	8243446	8243446	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	acatcagagacctggaaaggAaaggaagagtggggaggcag	17	5	1	2			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr17:8243446A>G	ENST00000328248.2	+	1	265	c.77A>G	c.(76-78)gAa>gGa	p.E26G	ODF4_ENST00000584943.1_Missense_Mutation_p.E26G|RP11-849F2.4_ENST00000585275.1_lincRNA	NM_153007.4	NP_694552.2	Q2M2E3	ODFP4_HUMAN	outer dense fiber of sperm tails 4	26					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)|motile cilium (GO:0031514)|outer dense fiber (GO:0001520)				endometrium(2)|large_intestine(3)|lung(1)|ovary(1)|stomach(1)	8						CCTGGAAAGGAAAGGAAGAGT	0.552																																																0													74	71	72					17																	8243446		2203	4300	6503	SO:0001583	missense	146852			AB081120	CCDS11140.1	17p13	2010-09-27			ENSG00000184650	ENSG00000184650			19056	protein-coding gene	gene with protein product	"cancer/testis antigen 136"	610097					Standard	NM_153007		Approved	OPPO1, CT136	uc002gle.1	Q2M2E3	OTTHUMG00000108190	ENST00000328248.2:c.77A>G	17.37:g.8243446A>G	ENSP00000331086:p.Glu26Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8J021	Missense_Mutation	SNP	ENST00000328248.2	37	CCDS11140.1	.	.	.	.	.	.	.	.	.	.	A	7.376	0.627768	0.14257	.	.	ENSG00000184650	ENST00000328248	T	0.27890	1.64	4.24	-2.76	0.05896	.	1.415640	0.04533	N	0.386762	T	0.23727	0.0574	L	0.40543	1.245	0.09310	N	1	B	0.17667	0.023	B	0.12156	0.007	T	0.33624	-0.9861	10	0.66056	D	0.02	0.2811	4.8281	0.13427	0.35:0.3516:0.2984:0.0	.	26	Q2M2E3	ODFP4_HUMAN	G	26	ENSP00000331086:E26G	ENSP00000331086:E26G	E	+	2	0	ODF4	8184171	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.058000	0.11750	-0.667000	0.05303	-0.256000	0.11100	GAA		0.552	ODF4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000226996.1			G	8243446	A	G	8243446	3	3	578	1	0	0	0	0	1	0	0	0	10840	246	9	3	79	3	ODF4	17	8243446	Missense_Mutation	SNP	A	TCGA-DZ-6135-01A-11D-1961-08		8243446	72951764	36	34351										
FAM18B2	201158	ucsc.edu	37	chr17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	tgagcaactcacagagaagaCagacgatgattgcactgact	10	9	1	6			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr17:15457087C>T	ENST00000225576.3	-	3	247	c.152G>A	c.(151-153)tGt>tAt	p.C51Y	TVP23C_ENST00000584811.1_5'UTR|TVP23C_ENST00000518321.1_Missense_Mutation_p.C51Y|TVP23C-CDRT4_ENST00000522212.2_Missense_Mutation_p.C51Y|TVP23C_ENST00000428082.2_Missense_Mutation_p.C51Y|TVP23C_ENST00000519970.1_Intron|TVP23C_ENST00000438826.3_Missense_Mutation_p.C51Y	NM_145301.2	NP_660344.2	Q96ET8	TV23C_HUMAN	trans-golgi network vesicle protein 23 homolog C (S. cerevisiae)	51						integral component of membrane (GO:0016021)											ACAGAGAAGACAGACGATGAT	0.373																																																0													274	265	268					17																	15457087		2203	4300	6503	SO:0001583	missense	201158			BC011952	CCDS11170.1, CCDS45617.1	17p12	2012-11-29	2012-11-29	2012-11-29	ENSG00000175106	ENSG00000175106			30453	protein-coding gene	gene with protein product			"family with sequence similarity 18, member B2"	FAM18B2			Standard	NM_001135036		Approved	MGC8763	uc002goq.2	Q96ET8	OTTHUMG00000171461	ENST00000225576.3:c.152G>A	17.37:g.15457087C>T	ENSP00000225576:p.Cys51Tyr	Somatic		WXS	Illumina HiSeq		Q3LIC7	Missense_Mutation	SNP	ENST00000225576.3	37	CCDS11170.1	.	.	.	.	.	.	.	.	.	.	.	2.368	-0.344949	0.05208	.	.	ENSG00000259024;ENSG00000175106;ENSG00000175106;ENSG00000175106	ENST00000522212;ENST00000225576;ENST00000428082;ENST00000438826	T;T;T;T	0.25749	1.78;1.78;1.78;1.78	4.47	4.47	0.54385	.	0.000000	0.85682	N	0.000000	T	0.02571	0.0078	N	0.00004	-3.335	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.06405	0.0;0.0;0.002	T	0.38457	-0.9660	10	0.02654	T	1	-3.8701	9.492	0.38965	0.0:0.0877:0.0:0.9123	.	51;51;51	Q96ET8-2;Q96ET8-3;Q96ET8	.;.;F18B2_HUMAN	Y	51	ENSP00000429865:C51Y;ENSP00000225576:C51Y;ENSP00000406387:C51Y;ENSP00000413355:C51Y	ENSP00000225576:C51Y	C	-	2	0	RP11-726O12.1;FAM18B2	15397812	1.000000	0.71417	1.000000	0.80357	0.703000	0.40648	6.178000	0.71968	0.670000	0.31165	-0.442000	0.05670	TGT		0.373	TVP23C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000130705.2	NM_145301		T	15457087	C	T	15457087	3	4	578	1	0	0	0	0	1	0	0	0	5524	478	17	2	848	2	FAM18B2	17	15457087	Missense_Mutation	SNP	C	TCGA-DZ-6135-01A-11D-1961-08	7213641	15457087	65738123	37	34352										
FAM83G	644815	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	18881233	18881233	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	gttacgtagtcgtcatcatcTtcttcttccaccccatccag	5	15	5	0			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr17:18881233T>A	ENST00000388995.6	-	5	1969	c.1746A>T	c.(1744-1746)gaA>gaT	p.E582D	SLC5A10_ENST00000395643.2_Intron|SLC5A10_ENST00000395647.2_Intron|FAM83G_ENST00000345041.4_Missense_Mutation_p.E582D|FAM83G_ENST00000585154.2_Missense_Mutation_p.E582D|SLC5A10_ENST00000395642.1_Intron|SLC5A10_ENST00000317977.6_Intron|SLC5A10_ENST00000395645.3_Intron|SLC5A10_ENST00000417251.2_Intron			A6ND36	FA83G_HUMAN	family with sequence similarity 83, member G	582					BMP signaling pathway (GO:0030509)	cytosol (GO:0005829)|nucleus (GO:0005634)				central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(7)|ovary(2)|prostate(3)|stomach(1)	22						CGTCATCATCTTCTTCTTCCA	0.657																																																0													46	53	51					17																	18881233		2011	4159	6170	SO:0001583	missense	644815			AK123558	CCDS42276.1	17p11.2	2014-05-01	2006-03-22		ENSG00000188522	ENSG00000188522			32554	protein-coding gene	gene with protein product	"protein associated with SMAD1"	615886				24554596	Standard	NM_001039999		Approved	FLJ41564, PAWS1	uc002guw.3	A6ND36	OTTHUMG00000059411	ENST00000388995.6:c.1746A>T	17.37:g.18881233T>A	ENSP00000373647:p.Glu582Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q3KQZ4|Q6ZW60	Missense_Mutation	SNP	ENST00000388995.6	37	CCDS42276.1	.	.	.	.	.	.	.	.	.	.	T	18.80	3.701515	0.68501	.	.	ENSG00000188522	ENST00000388995;ENST00000345041	T;T	0.14640	2.49;2.49	5.72	-5.84	0.02318	.	0.665977	0.14951	N	0.288895	T	0.08313	0.0207	L	0.53249	1.67	0.21802	N	0.999537	B	0.21606	0.058	B	0.17098	0.017	T	0.35425	-0.9789	10	0.19590	T	0.45	-18.4782	3.4372	0.07450	0.0963:0.4161:0.1946:0.2931	.	582	A6ND36	FA83G_HUMAN	D	582	ENSP00000373647:E582D;ENSP00000343279:E582D	ENSP00000343279:E582D	E	-	3	2	FAM83G	18821958	0.010000	0.17322	0.616000	0.29078	0.890000	0.51754	-1.760000	0.01806	-0.435000	0.07264	0.533000	0.62120	GAA		0.657	FAM83G-002	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253108.4			A	18881233	T	A	18881233	3	1	578	1	0	0	0	0	1	0	0	0	5646	1606	56	5	733	5	FAM83G	17	18881233	Missense_Mutation	SNP	T	TCGA-DZ-6135-01A-11D-1961-08	3424146	18881233	62313977	38	34353										
CDK5R1	8851	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	30815101	30815101	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	ccagtgagctgcttcgctgcCtgggtgagtttctctgccgc	13	13	1	2			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr17:30815101C>T	ENST00000313401.3	+	2	1152	c.463C>T	c.(463-465)Ctg>Ttg	p.L155L		NM_003885.2	NP_003876.1	Q15078	CD5R1_HUMAN	cyclin-dependent kinase 5, regulatory subunit 1 (p35)	155					axon guidance (GO:0007411)|axonal fasciculation (GO:0007413)|brain development (GO:0007420)|cell proliferation (GO:0008283)|cerebellum development (GO:0021549)|embryo development (GO:0009790)|ephrin receptor signaling pathway (GO:0048013)|G-protein coupled acetylcholine receptor signaling pathway (GO:0007213)|hippocampus development (GO:0021766)|ionotropic glutamate receptor signaling pathway (GO:0035235)|layer formation in cerebral cortex (GO:0021819)|negative regulation of axon extension (GO:0030517)|negative regulation of transcription, DNA-templated (GO:0045892)|neuron cell-cell adhesion (GO:0007158)|neuron differentiation (GO:0030182)|neuron migration (GO:0001764)|neuron projection development (GO:0031175)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of protein targeting to membrane (GO:0090314)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of dendritic spine morphogenesis (GO:0061001)|regulation of microtubule cytoskeleton organization (GO:0070507)|regulation of neuron differentiation (GO:0045664)|rhythmic process (GO:0048511)|serine phosphorylation of STAT3 protein (GO:0033136)|superior olivary nucleus maturation (GO:0021722)	axon (GO:0030424)|contractile fiber (GO:0043292)|cyclin-dependent protein kinase 5 holoenzyme complex (GO:0016533)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|dendritic spine (GO:0043197)|growth cone (GO:0030426)|membrane (GO:0016020)|neuromuscular junction (GO:0031594)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)	cadherin binding (GO:0045296)|calcium ion binding (GO:0005509)|cyclin-dependent protein kinase 5 activator activity (GO:0016534)|cyclin-dependent protein serine/threonine kinase activity (GO:0004693)|kinase activity (GO:0016301)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activator activity (GO:0043539)			cervix(1)|endometrium(1)|large_intestine(2)|lung(3)|ovary(1)	8		Breast(31;0.159)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.0938)			GCTTCGCTGCCTGGGTGAGTT	0.667																																																0													44	45	45					17																	30815101		2203	4300	6503	SO:0001819	synonymous_variant	8851			X80343	CCDS11273.1	17q12	2006-03-28			ENSG00000176749	ENSG00000176749			1775	protein-coding gene	gene with protein product		603460				8090221	Standard	NM_003885		Approved	p35nck5a, Nck5a	uc002hhn.3	Q15078	OTTHUMG00000132814	ENST00000313401.3:c.463C>T	17.37:g.30815101C>T		Somatic		WXS	Illumina HiSeq	Phase_I	E1P664|Q5U0G3	Silent	SNP	ENST00000313401.3	37	CCDS11273.1																																																																																				0.667	CDK5R1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256264.1	NM_003885		T	30815101	C	T	30815101	2	4	578	1	0	0	0	0	0	0	0	1	3145	680	24	2		2	CDK5R1	17	30815101	Silent	SNP	C	TCGA-DZ-6135-01A-11D-1961-08	11933868	30815101	50380109	39	34354										
ZNF700	90592	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	12060395	12060395	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	atgtgagaaaggcttttattCtgccaagtcatttcaaacac	7	8	3	1			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr19:12060395C>G	ENST00000254321.5	+	4	1699	c.1556C>G	c.(1555-1557)tCt>tGt	p.S519C	ZNF763_ENST00000591944.1_Intron|ZNF700_ENST00000482090.1_Missense_Mutation_p.S501C|ZNF763_ENST00000590798.1_Intron|CTD-2006C1.12_ENST00000586394.1_RNA|ZNF763_ENST00000538752.1_Intron	NM_001271848.1|NM_144566.1	NP_001258777.1|NP_653167.1	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	519					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)		ZNF700/MAST1_ENST00000251472(2)	breast(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(9)|lung(13)|pancreas(1)|prostate(1)|urinary_tract(1)	33						GGCTTTTATTCTGCCAAGTCA	0.383																																																0													59	63	62					19																	12060395		2203	4300	6503	SO:0001583	missense	90592			AL136732	CCDS32915.1, CCDS74289.1	19p13.2	2013-01-08			ENSG00000196757	ENSG00000196757		"Zinc fingers, C2H2-type", "-"	25292	protein-coding gene	gene with protein product							Standard	NM_144566		Approved	DKFZp434I1610	uc031rjk.1	Q9H0M5	OTTHUMG00000156421	ENST00000254321.5:c.1556C>G	19.37:g.12060395C>G	ENSP00000254321:p.Ser519Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGU4	Missense_Mutation	SNP	ENST00000254321.5	37	CCDS32915.1	.	.	.	.	.	.	.	.	.	.	c	3.218	-0.160082	0.06502	.	.	ENSG00000196757	ENST00000254321	T	0.07688	3.17	0.672	-1.34	0.09143	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (2);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.05181	0.0138	N	0.25647	0.755	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.39333	-0.9619	9	0.36615	T	0.2	.	4.3948	0.11358	0.0:0.3788:0.4495:0.1717	.	519	Q9H0M5	ZN700_HUMAN	C	519	ENSP00000254321:S519C	ENSP00000254321:S519C	S	+	2	0	ZNF700	11921395	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.814000	0.04486	-1.070000	0.03149	-0.705000	0.03659	TCT		0.383	ZNF700-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344126.2	NM_144566		G	12060395	C	G	12060395	3	3	578	1	0	0	0	0	1	0	0	0	18116	913	32	4	1570	4	ZNF700	19	12060395	Missense_Mutation	SNP	C	TCGA-DZ-6135-01A-11D-1961-08		12060395	47068588	40	34355										
IL4I1	259307	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	50393785	50393785	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	gccaccacgggcgcgttcaaCagcacaagcccggacagcga	12	16	1	0			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr19:50393785C>T	ENST00000391826.2	-	8	988	c.846G>A	c.(844-846)ctG>ctA	p.L282L	MIR4750_ENST00000584564.1_RNA|IL4I1_ENST00000595948.1_Silent_p.L304L|IL4I1_ENST00000341114.3_Silent_p.L304L	NM_152899.1	NP_690863.1	Q96RQ9	OXLA_HUMAN	interleukin 4 induced 1	282						extracellular region (GO:0005576)|lysosome (GO:0005764)	L-amino-acid oxidase activity (GO:0001716)			endometrium(3)|large_intestine(3)|lung(6)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	16		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00245)|OV - Ovarian serous cystadenocarcinoma(262;0.0169)	Flavin adenine dinucleotide(DB03147)	GCGCGTTCAACAGCACAAGCC	0.711											OREG0025629	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													18	18	18					19																	50393785		2202	4299	6501	SO:0001819	synonymous_variant	259307			AF293462	CCDS12786.1, CCDS12787.1	19q13.3-q13.4	2014-06-26				ENSG00000104951			19094	protein-coding gene	gene with protein product		609742				12031486	Standard	NM_152899		Approved	FIG1	uc002pqt.1	Q96RQ9		ENST00000391826.2:c.846G>A	19.37:g.50393785C>T		Somatic	969	WXS	Illumina HiSeq	Phase_I	Q1WMJ3|Q4GZN1|Q4GZN2|Q6P2Q3|Q8TEM5|Q96RQ8	Silent	SNP	ENST00000391826.2	37	CCDS12787.1																																																																																				0.711	IL4I1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466413.1			T	50393785	C	T	50393785	2	4	578	1	0	0	0	0	0	0	0	1	7704	465	17	2		2	IL4I1	19	50393785	Silent	SNP	C	TCGA-DZ-6135-01A-11D-1961-08	38333390	50393785	8735198	41	34356										
ZNF615	284370	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	52496292	52496292	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	ccgcagtcactgcatttgtaCggtttctctcctgtgtgaat	9	11	2	1	rs146634089		TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr19:52496292C>A	ENST00000602063.1	-	6	2386	c.2037G>T	c.(2035-2037)ccG>ccT	p.P679P	ZNF615_ENST00000594083.1_Silent_p.P690P|ZNF615_ENST00000598071.1_Silent_p.P690P|ZNF615_ENST00000376716.5_Silent_p.P679P|ZNF615_ENST00000391795.3_Silent_p.P684P			Q8N8J6	ZN615_HUMAN	zinc finger protein 615	679					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.P679P(1)|p.P690P(1)		NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(12)|ovary(5)|prostate(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(2)	42		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		TGCATTTGTACGGTTTCTCTC	0.408																																																2	Substitution - coding silent(2)	large_intestine(2)											160	155	157					19																	52496292		2203	4300	6503	SO:0001819	synonymous_variant	284370			AK096691	CCDS12846.1, CCDS59418.1	19q13.41	2013-01-08						"Zinc fingers, C2H2-type", "-"	24740	protein-coding gene	gene with protein product						12477932	Standard	NM_001199324		Approved	FLJ33710	uc002pyf.2	Q8N8J6		ENST00000602063.1:c.2037G>T	19.37:g.52496292C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKW9|Q2M2Y6|Q5CZB0|Q6ZMT7|Q6ZRB3	Silent	SNP	ENST00000602063.1	37	CCDS12846.1																																																																																				0.408	ZNF615-009	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462391.1	NM_198480		A	52496292	C	A	52496292	2	1	578	1	0	0	0	0	0	0	0	1	18052	523	19	4		4	ZNF615	19	52496292	Silent	SNP	C	TCGA-DZ-6135-01A-11D-1961-08	2102507	52496292	6632691	42	34357										
TRIM28	10155	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	59057198	59057198	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	ggagtgctcggagcctctgtGtgagacctgtgtagaggcgc	17	9	1	2			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr19:59057198G>A	ENST00000253024.5	+	3	810	c.521G>A	c.(520-522)tGt>tAt	p.C174Y	TRIM28_ENST00000341753.6_Intron|RN7SL525P_ENST00000579267.1_RNA	NM_005762.2	NP_005753.1	Q13263	TIF1B_HUMAN	tripartite motif containing 28	174	RBCC domain.				convergent extension involved in axis elongation (GO:0060028)|DNA repair (GO:0006281)|embryonic placenta morphogenesis (GO:0060669)|epithelial to mesenchymal transition (GO:0001837)|gene expression (GO:0010467)|innate immune response (GO:0045087)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of viral release from host cell (GO:1902187)|positive regulation of DNA repair (GO:0045739)|positive regulation of transcription factor import into nucleus (GO:0042993)|positive regulation of transcription, DNA-templated (GO:0045893)|protein autophosphorylation (GO:0046777)|protein oligomerization (GO:0051259)|protein sumoylation (GO:0016925)|protein ubiquitination (GO:0016567)|transcription initiation from RNA polymerase II promoter (GO:0006367)	nuclear euchromatin (GO:0005719)|nuclear heterochromatin (GO:0005720)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromo shadow domain binding (GO:0070087)|DNA binding (GO:0003677)|Krueppel-associated box domain binding (GO:0035851)|ligase activity (GO:0016874)|poly(A) RNA binding (GO:0044822)|protein kinase activity (GO:0004672)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			biliary_tract(1)|breast(2)|endometrium(2)|kidney(2)|large_intestine(3)|lung(7)|ovary(1)|urinary_tract(1)	19		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0434)|all cancers(4;1.39e-13)|Epithelial(4;1.01e-10)|OV - Ovarian serous cystadenocarcinoma(4;2.34e-09)|GBM - Glioblastoma multiforme(193;0.0102)|Lung(386;0.179)		GAGCCTCTGTGTGAGACCTGT	0.577																																																0													80	75	77					19																	59057198		2203	4300	6503	SO:0001583	missense	10155				CCDS12985.1	19q13.4	2014-06-13	2011-01-25			ENSG00000130726		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers", "Zinc fingers, PHD-type"	16384	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 157"	601742	"tripartite motif-containing 28"			11331580, 11226167	Standard	NM_005762		Approved	TIF1B, KAP1, TF1B, RNF96, PPP1R157	uc002qtg.1	Q13263		ENST00000253024.5:c.521G>A	19.37:g.59057198G>A	ENSP00000253024:p.Cys174Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	O00677|Q7Z632|Q93040|Q96IM1	Missense_Mutation	SNP	ENST00000253024.5	37	CCDS12985.1	.	.	.	.	.	.	.	.	.	.	G	20.1	3.934831	0.73442	.	.	ENSG00000130726	ENST00000253024	D	0.99080	-5.4	4.89	4.89	0.63831	Zinc finger, B-box (3);	0.000000	0.64402	D	0.000017	D	0.99453	0.9806	M	0.93638	3.44	0.80722	D	1	D	0.76494	0.999	D	0.87578	0.998	D	0.98378	1.0557	10	0.87932	D	0	-16.8595	15.9183	0.79539	0.0:0.0:1.0:0.0	.	174	Q13263	TIF1B_HUMAN	Y	174	ENSP00000253024:C174Y	ENSP00000253024:C174Y	C	+	2	0	TRIM28	63749010	1.000000	0.71417	0.998000	0.56505	0.414000	0.31173	9.337000	0.96545	2.432000	0.82394	0.558000	0.71614	TGT		0.577	TRIM28-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467074.1	NM_005762		A	59057198	G	A	59057198	3	1	578	1	0	0	0	0	1	0	0	0	16514	1377	48	2	531	2	TRIM28	19	59057198	Missense_Mutation	SNP	G	TCGA-DZ-6135-01A-11D-1961-08	6560906	59057198	71785	43	34358										
KRTAP26-1	388818	hgsc.bcm.edu;broad.mit.edu	37	chr21	31692296	31692296	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	ggaggtgagaggaatatggcGggaggttctgagagatcctg	19	4	1	3			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr21:31692296G>A	ENST00000360542.3	-	1	311	c.58C>T	c.(58-60)Cgc>Tgc	p.R20C		NM_203405.1	NP_981950.1	Q6PEX3	KR261_HUMAN	keratin associated protein 26-1	20						intermediate filament (GO:0005882)				endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(7)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	16						GGAATATGGCGGGAGGTTCTG	0.532																																																0																																										SO:0001583	missense	388818			AB096936	CCDS13588.1	21q22.11	2007-11-23			ENSG00000197683	ENSG00000197683		"Keratin associated proteins"	33760	protein-coding gene	gene with protein product							Standard	NM_203405		Approved		uc002ynw.3	Q6PEX3	OTTHUMG00000057766	ENST00000360542.3:c.58C>T	21.37:g.31692296G>A	ENSP00000353742:p.Arg20Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B0RZD3	Missense_Mutation	SNP	ENST00000360542.3	37	CCDS13588.1	.	.	.	.	.	.	.	.	.	.	g	0.015	-1.544573	0.00934	.	.	ENSG00000197683	ENST00000360542	T	0.02837	4.14	4.95	3.8	0.43715	.	0.425318	0.22440	N	0.060032	T	0.00815	0.0027	N	0.00413	-1.525	0.28406	N	0.918409	B	0.02656	0.0	B	0.01281	0.0	T	0.43097	-0.9412	10	0.02654	T	1	-2.2098	8.113	0.30926	0.9049:0.0:0.0951:0.0	.	20	Q6PEX3	KR261_HUMAN	C	20	ENSP00000353742:R20C	ENSP00000353742:R20C	R	-	1	0	KRTAP26-1	30614167	0.900000	0.30661	0.326000	0.25389	0.313000	0.28021	0.998000	0.29744	0.963000	0.38082	-0.285000	0.09966	CGC		0.532	KRTAP26-1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128218.1	NM_203405		A	31692296	G	A	31692296	3	1	578	1	0	0	0	0	1	0	0	0	8550	1116	39	1	578	1	KRTAP26-1	21	31692296	Missense_Mutation	SNP	G	TCGA-DZ-6135-01A-11D-1961-08		31692296	16437599	44	34359										
PKDREJ	10343	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	46654232	46654232	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.701515151515152	1.71481481481481	0	0.333333333333333	1	0	tttcttctggatgcatacgcAttccatccaacctgatctca	5	13	3	1			TCGA-DZ-6135-01A-11D-1961-08	TCGA-DZ-6135-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	555a55c5-0299-42ea-b192-fd3595ea0aec	0d8c5c0b-123a-491f-a521-4dfea8a0d89d	g.chr22:46654232A>T	ENST00000253255.5	-	1	4987	c.4988T>A	c.(4987-4989)aTg>aAg	p.M1663K		NM_006071.1	NP_006062.1	Q9NTG1	PKDRE_HUMAN	polycystin (PKD) family receptor for egg jelly	1663					acrosome reaction (GO:0007340)|calcium ion transmembrane transport (GO:0070588)|detection of mechanical stimulus (GO:0050982)|neuropeptide signaling pathway (GO:0007218)|regulation of acrosome reaction (GO:0060046)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)			NS(2)|breast(7)|central_nervous_system(1)|cervix(3)|endometrium(4)|kidney(5)|large_intestine(21)|lung(16)|ovary(2)|prostate(6)|skin(4)|upper_aerodigestive_tract(2)	73		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		ATGCATACGCATTCCATCCAA	0.418																																																0													153	131	138					22																	46654232		2203	4300	6503	SO:0001583	missense	10343			AF116458	CCDS14073.1	22q13.31	2013-07-31	2013-07-31		ENSG00000130943	ENSG00000130943			9015	protein-coding gene	gene with protein product		604670	"polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly, sea urchin homolog)-like", "polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly homolog, sea urchin)-like", "polycystic kidney disease (polycystin) and REJ homolog (sperm receptor for egg jelly homolog, sea urchin)"			9949214, 10591208	Standard	NM_006071		Approved		uc003bhh.3	Q9NTG1	OTTHUMG00000150493	ENST00000253255.5:c.4988T>A	22.37:g.46654232A>T	ENSP00000253255:p.Met1663Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B1AJY3|O95850	Missense_Mutation	SNP	ENST00000253255.5	37	CCDS14073.1	.	.	.	.	.	.	.	.	.	.	a	3.730	-0.055823	0.07362	.	.	ENSG00000130943	ENST00000253255	T	0.32988	1.43	4.95	0.169	0.15017	.	2.130620	0.02503	N	0.090693	T	0.21468	0.0517	L	0.40543	1.245	0.09310	N	1	B	0.13594	0.008	B	0.14023	0.01	T	0.07139	-1.0788	10	0.13108	T	0.6	-0.4046	0.9383	0.01350	0.4034:0.2768:0.1678:0.152	.	1663	Q9NTG1	PKDRE_HUMAN	K	1663	ENSP00000253255:M1663K	ENSP00000253255:M1663K	M	-	2	0	PKDREJ	45032896	0.000000	0.05858	0.000000	0.03702	0.048000	0.14542	-0.426000	0.07008	-0.235000	0.09767	0.248000	0.18094	ATG		0.418	PKDREJ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318466.1	NM_006071		T	46654232	A	T	46654232	3	4	578	1	0	0	0	0	1	0	0	0	11977	217	8	5	1777	5	PKDREJ	22	46654232	Missense_Mutation	SNP	A	TCGA-DZ-6135-01A-11D-1961-08		46654232	4650334	45	34360										
KIF1B	23095	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	10425659	10425659	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	agagcagtggctatgattcaGgagacatcgaaagcctggtg	14	7	1	3			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr1:10425659G>C	ENST00000377086.1	+	43	4907	c.4705G>C	c.(4705-4707)Gga>Cga	p.G1569R	KIF1B_ENST00000263934.6_Missense_Mutation_p.G1523R|KIF1B_ENST00000377081.1_Missense_Mutation_p.G1569R			O60333	KIF1B_HUMAN	kinesin family member 1B	1569					anterograde axon cargo transport (GO:0008089)|apoptotic process (GO:0006915)|cytoskeleton-dependent intracellular transport (GO:0030705)|microtubule-based movement (GO:0007018)|mitochondrion transport along microtubule (GO:0047497)|neuromuscular synaptic transmission (GO:0007274)|neuron-neuron synaptic transmission (GO:0007270)|vesicle-mediated transport (GO:0016192)	cytoplasmic vesicle (GO:0031410)|cytoplasmic vesicle membrane (GO:0030659)|kinesin complex (GO:0005871)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|kinesin binding (GO:0019894)|microtubule motor activity (GO:0003777)|plus-end-directed microtubule motor activity (GO:0008574)	p.G1523R(1)		breast(2)|endometrium(7)|kidney(8)|large_intestine(9)|lung(29)|ovary(3)|prostate(3)|skin(5)|stomach(3)|upper_aerodigestive_tract(2)	71	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)		CTATGATTCAGGAGACATCGA	0.527																																																1	Substitution - Missense(1)	kidney(1)											107	100	102					1																	10425659		2203	4300	6503	SO:0001583	missense	23095			AF257176	CCDS111.1, CCDS112.1	1p36.22	2014-09-17			ENSG00000054523	ENSG00000054523		"Kinesins", "Pleckstrin homology (PH) domain containing"	16636	protein-coding gene	gene with protein product		605995		CMT2A, CMT2		11389829, 10762626	Standard	NM_015074		Approved	KIAA0591, KLP, HMSNII	uc001aqw.4	O60333	OTTHUMG00000001817	ENST00000377086.1:c.4705G>C	1.37:g.10425659G>C	ENSP00000366290:p.Gly1569Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFS8|A6NKQ4|Q4VXC3|Q4VXC4|Q4VXC5|Q4VXC6|Q96Q94|Q9BV80|Q9P280	Missense_Mutation	SNP	ENST00000377086.1	37		.	.	.	.	.	.	.	.	.	.	G	8.256	0.810181	0.16537	.	.	ENSG00000054523	ENST00000355249;ENST00000263934;ENST00000377086;ENST00000377081	T;T;T	0.71341	-0.48;-0.56;-0.56	5.75	1.85	0.25348	.	0.254958	0.39341	N	0.001386	T	0.44435	0.1293	N	0.08118	0	0.09310	N	1	B;B;B;B;B;B	0.06786	0.0;0.001;0.001;0.0;0.0;0.0	B;B;B;B;B;B	0.04013	0.0;0.0;0.001;0.001;0.0;0.001	T	0.21518	-1.0243	10	0.10902	T	0.67	.	10.2607	0.43425	0.4501:0.0:0.5499:0.0	.	1555;1529;1569;1543;1569;1523	Q4R9M9;Q4R9M7;Q4VXC4;Q4R9M8;O60333;O60333-2	.;.;.;.;KIF1B_HUMAN;.	R	1569;1523;1569;1569	ENSP00000263934:G1523R;ENSP00000366290:G1569R;ENSP00000366284:G1569R	ENSP00000263934:G1523R	G	+	1	0	KIF1B	10348246	0.203000	0.23435	0.581000	0.28614	0.912000	0.54170	0.707000	0.25704	0.089000	0.17243	-0.145000	0.13849	GGA		0.527	KIF1B-001	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000005102.1			C	10425659	G	C	10425659	3	2	579	1	0	0	0	0	1	0	0	0	8291	1001	35	4	6214	4	KIF1B	1	10425659	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08		10425659	238824962	1	34361										
OR10J1	26476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	159410089	159410089	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	tattcaggttacccttctgtGctagaaaggtgccccacttc	8	12	2	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr1:159410089G>T	ENST00000423932.3	+	1	578	c.541G>T	c.(541-543)Gct>Tct	p.A181S	RP11-550P17.5_ENST00000431862.1_RNA	NM_012351.2	NP_036483.2	P30954	O10J1_HUMAN	olfactory receptor, family 10, subfamily J, member 1	181					G-protein coupled receptor signaling pathway (GO:0007186)|sensory perception of chemical stimulus (GO:0007606)|single fertilization (GO:0007338)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.A181S(1)		endometrium(2)|kidney(1)|large_intestine(5)|lung(13)|ovary(1)|skin(2)|stomach(1)	25	all_hematologic(112;0.0429)					ACCCTTCTGTGCTAGAAAGGT	0.488																																																1	Substitution - Missense(1)	kidney(1)											199	181	187					1																	159410089		2203	4300	6503	SO:0001583	missense	26476			X64995	CCDS1185.1	1q23.2	2012-08-09			ENSG00000196184	ENSG00000196184		"GPCR / Class A : Olfactory receptors"	8175	protein-coding gene	gene with protein product						1370859	Standard	NM_012351		Approved	HGMP07J, HSHGMP07J	uc010piv.2	P30954	OTTHUMG00000022737	ENST00000423932.3:c.541G>T	1.37:g.159410089G>T	ENSP00000399078:p.Ala181Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M1M8|Q5VSV1|Q6IET5|Q96R56	Missense_Mutation	SNP	ENST00000423932.3	37	CCDS1185.1	.	.	.	.	.	.	.	.	.	.	G	0.093	-1.163469	0.01673	.	.	ENSG00000196184	ENST00000423932	T	0.35421	1.31	4.18	4.18	0.49190	GPCR, rhodopsin-like superfamily (1);	1.128410	0.06925	N	0.810072	T	0.06645	0.0170	N	0.01761	-0.735	0.23277	N	0.997997	B	0.19200	0.034	B	0.19666	0.026	T	0.19745	-1.0296	10	0.15066	T	0.55	.	14.3909	0.66978	0.0:0.0:1.0:0.0	.	181	P30954	O10J1_HUMAN	S	181	ENSP00000399078:A181S	ENSP00000399078:A181S	A	+	1	0	OR10J1	157676713	0.000000	0.05858	0.933000	0.37362	0.135000	0.20990	-0.460000	0.06720	2.290000	0.77057	0.650000	0.86243	GCT		0.488	OR10J1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059020.1	NM_012351		T	159410089	G	T	159410089	3	4	579	1	0	0	0	0	1	0	0	0	10917	1319	46	4	543	4	OR10J1	1	159410089	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08	148984430	159410089	89840532	2	34362										
PRG4	10216	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	186277944	186277944	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	accaaagcacccaaaaaaccCacttctaccaaaaagccaaa	2	15	1	0	rs199545586		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr1:186277944C>G	ENST00000445192.2	+	7	3138	c.3093C>G	c.(3091-3093)ccC>ccG	p.P1031P	PRG4_ENST00000367484.3_Silent_p.P560P|PRG4_ENST00000367485.4_Silent_p.P938P|PRG4_ENST00000367483.4_Silent_p.P990P|PRG4_ENST00000367486.3_Silent_p.P988P	NM_005807.3	NP_005798.2	Q92954	PRG4_HUMAN	proteoglycan 4	1031					cell proliferation (GO:0008283)|hematopoietic stem cell proliferation (GO:0071425)|immune response (GO:0006955)|negative regulation of interleukin-6 biosynthetic process (GO:0045409)|regulation of cell proliferation (GO:0042127)	extracellular space (GO:0005615)	polysaccharide binding (GO:0030247)|scavenger receptor activity (GO:0005044)	p.P1031P(1)		NS(2)|breast(1)|central_nervous_system(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(12)|lung(33)|prostate(7)|skin(9)|upper_aerodigestive_tract(2)|urinary_tract(1)	102						CCAAAAAACCCACTTCTACCA	0.418																																																1	Substitution - coding silent(1)	kidney(1)											134	156	148					1																	186277944		2203	4300	6503	SO:0001819	synonymous_variant	23572			U70136	CCDS1369.1, CCDS44287.1, CCDS44288.1	1q25-q31	2008-07-18	2004-11-15		ENSG00000116690	ENSG00000116690			9364	protein-coding gene	gene with protein product	"lubricin", "megakaryocyte stimulating factor", "articular superficial zone protein", "Jacobs camptodactyly-arthropathy-pericarditis syndrome", "camptodactyly, arthropathy, coxa vara, pericarditis syndrome", "bG174L6.2 (MSF: megakaryocyte stimulating factor )"	604283	"proteoglycan 4, (megakaryocyte stimulating factor, articular superficial zone protein, camptodactyly, arthropathy, coxa vara, pericarditis syndrome)"	CACP		10545950, 9920774	Standard	NM_005807		Approved	JCAP, SZP, MSF, HAPO, bG174L6.2, FLJ32635	uc001gru.4	Q92954	OTTHUMG00000035574	ENST00000445192.2:c.3093C>G	1.37:g.186277944C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6DNC4|Q6DNC5|Q6ZMZ5|Q9BX49	Silent	SNP	ENST00000445192.2	37	CCDS1369.1																																																																																				0.418	PRG4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000086346.1	NM_005807		G	186277944	C	G	186277944	2	3	579	1	0	0	0	0	0	0	0	1	12491	581	21	4		4	PRG4	1	186277944	Silent	SNP	C	TCGA-EU-5904-01A-11D-1669-08	26867855	186277944	62972677	3	34363										
TMCC2	9911	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	205238192	205238192	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	acccccagcggaccaaggccGccattgaccacctgcaccag	9	19	0	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr1:205238192G>A	ENST00000358024.3	+	3	1251	c.862G>A	c.(862-864)Gcc>Acc	p.A288T	TMCC2_ENST00000495538.1_3'UTR|TMCC2_ENST00000330675.7_Missense_Mutation_p.A63T|TMCC2_ENST00000329800.7_Missense_Mutation_p.A48T|TMCC2_ENST00000545499.1_Missense_Mutation_p.A210T	NM_014858.3	NP_055673.2	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	288						integral component of membrane (GO:0016021)		p.A63T(1)|p.A288T(1)		breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(5)|liver(2)|lung(3)|pancreas(1)|skin(1)|urinary_tract(1)	20	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			GACCAAGGCCGCCATTGACCA	0.642																																																2	Substitution - Missense(2)	kidney(2)											47	45	45					1																	205238192		2203	4300	6503	SO:0001583	missense	9911			AB001596	CCDS30984.1, CCDS55676.1, CCDS73010.1	1q32.1	2008-02-05	2005-07-13		ENSG00000133069	ENSG00000133069		"Transmembrane and coiled-coil domain containing"	24239	protein-coding gene	gene with protein product			"transmembrane and coiled-coil domains 2"			9455484	Standard	NM_014858		Approved	HUCEP11, FLJ38497	uc021pia.1	O75069	OTTHUMG00000037195	ENST00000358024.3:c.862G>A	1.37:g.205238192G>A	ENSP00000350718:p.Ala288Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRH3|B7Z1P7|Q6ZN09	Missense_Mutation	SNP	ENST00000358024.3	37	CCDS30984.1	.	.	.	.	.	.	.	.	.	.	G	15.34	2.804748	0.50315	.	.	ENSG00000133069	ENST00000358024;ENST00000545499;ENST00000367159;ENST00000330675;ENST00000329800	T;T;T;T;T	0.62232	0.81;0.81;0.04;0.81;0.81	5.82	4.9	0.64082	.	0.000000	0.85682	D	0.000000	T	0.76807	0.4039	M	0.70842	2.15	0.80722	D	1	D;D;D;P	0.89917	1.0;1.0;1.0;0.604	D;D;D;B	0.97110	1.0;0.999;1.0;0.274	T	0.74615	-0.3606	10	0.22706	T	0.39	.	15.9275	0.79632	0.0:0.0:0.8636:0.1364	.	84;48;63;288	Q8IW47;G5E963;B2RAX5;O75069	.;.;.;TMCC2_HUMAN	T	288;210;92;63;48	ENSP00000350718:A288T;ENSP00000437943:A210T;ENSP00000356127:A92T;ENSP00000331842:A63T;ENSP00000329436:A48T	ENSP00000329436:A48T	A	+	1	0	TMCC2	203504815	1.000000	0.71417	0.880000	0.34516	0.001000	0.01503	9.835000	0.99442	1.447000	0.47661	-0.314000	0.08810	GCC		0.642	TMCC2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000090383.1	NM_014858		A	205238192	G	A	205238192	3	1	579	1	0	0	0	0	1	0	0	0	16005	1087	38	1	872	1	TMCC2	1	205238192	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08	18960248	205238192	44012429	4	34364										
C1orf124	83932	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	231487063	231487063	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	cactcaggtataccatacttTtcacgatgaggtggatgagt	10	8	2	2			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr1:231487063T>G	ENST00000295050.7	+	4	800	c.464T>G	c.(463-465)tTt>tGt	p.F155C	SPRTN_ENST00000469904.1_3'UTR|SPRTN_ENST00000391858.4_Missense_Mutation_p.F155C|SPRTN_ENST00000008440.9_Missense_Mutation_p.F112C	NM_001010984.2|NM_032018.5	NP_001010984.1|NP_114407.3	Q9H040	SPRTN_HUMAN	SprT-like N-terminal domain	155	SprT-like.				cellular response to DNA damage stimulus (GO:0006974)|positive regulation of protein ubiquitination (GO:0031398)|response to UV (GO:0009411)|translesion synthesis (GO:0019985)	chromosome (GO:0005694)|nuclear speck (GO:0016607)|nucleus (GO:0005634)	DNA binding (GO:0003677)|K63-linked polyubiquitin binding (GO:0070530)|metal ion binding (GO:0046872)|ubiquitin binding (GO:0043130)	p.F155C(1)									TACCATACTTTTCACGATGAG	0.423																																																1	Substitution - Missense(1)	kidney(1)											63	65	65					1																	231487063		2203	4300	6503	SO:0001583	missense	0			AL512744	CCDS1594.1, CCDS31054.1, CCDS58066.1	1q42.12-q43	2013-01-30	2012-06-18	2012-06-18	ENSG00000010072	ENSG00000010072			25356	protein-coding gene	gene with protein product	"SprT-like domain at the N terminus", "DNA damage-targeting VCP (p97) adaptor"		"chromosome 1 open reading frame 124"	C1orf124		22681887	Standard	NM_032018		Approved	DKFZP547N043, Spartan, DVC1	uc001hur.4	Q9H040	OTTHUMG00000038022	ENST00000295050.7:c.464T>G	1.37:g.231487063T>G	ENSP00000295050:p.Phe155Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B1AKT0|B5MEF7|Q5TE78|Q6UWW6|Q96BC5|Q96KA0	Missense_Mutation	SNP	ENST00000295050.7	37	CCDS1594.1	.	.	.	.	.	.	.	.	.	.	T	23.5	4.420328	0.83559	.	.	ENSG00000010072	ENST00000391858;ENST00000295050;ENST00000008440;ENST00000545269;ENST00000366644	T;T;T	0.50813	0.73;0.73;0.73	5.73	5.73	0.89815	Domain of unknown function SprT-like (2);	0.000000	0.85682	D	0.000000	T	0.78515	0.4295	H	0.95745	3.715	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.997;0.997;0.999	D	0.85299	0.1072	10	0.87932	D	0	-27.6467	16.3135	0.82905	0.0:0.0:0.0:1.0	.	112;155;155	B1AKT0;Q9H040-2;Q9H040	.;.;CA124_HUMAN	C	155;155;112;112;51	ENSP00000375731:F155C;ENSP00000295050:F155C;ENSP00000355604:F51C	ENSP00000008440:F112C	F	+	2	0	C1orf124	229553686	1.000000	0.71417	0.577000	0.28562	0.847000	0.48162	7.997000	0.88414	2.313000	0.78055	0.519000	0.50382	TTT		0.423	SPRTN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092858.1	NM_032018		G	231487063	T	G	231487063	3	3	579	1	0	0	0	0	1	0	0	0	1994	1841	64	5	478	5	C1orf124	1	231487063	Missense_Mutation	SNP	T	TCGA-EU-5904-01A-11D-1669-08	26248871	231487063	17763558	5	34365										
CCDC85A	114800	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	56419911	56419911	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	tccatcgacagccaggccagCctgtgccaactcacagcctc	8	18	1	0			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr2:56419911C>T	ENST00000407595.2	+	2	1078	c.576C>T	c.(574-576)agC>agT	p.S192S	RP11-482H16.1_ENST00000607540.1_RNA	NM_001080433.1	NP_001073902.1	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	192								p.S192S(1)		breast(6)|cervix(2)|endometrium(5)|kidney(1)|lung(18)|ovary(2)|pancreas(1)|prostate(3)	38			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			GCCAGGCCAGCCTGTGCCAAC	0.632																																																1	Substitution - coding silent(1)	kidney(1)											27	34	32					2																	56419911		2155	4252	6407	SO:0001819	synonymous_variant	114800			AB067499	CCDS46290.1	2p16.1	2006-03-29			ENSG00000055813	ENSG00000055813			29400	protein-coding gene	gene with protein product						11572484	Standard	NM_001080433		Approved	KIAA1912	uc002rzn.3	Q96PX6	OTTHUMG00000152033	ENST00000407595.2:c.576C>T	2.37:g.56419911C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000407595.2	37	CCDS46290.1																																																																																				0.632	CCDC85A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324993.1			T	56419911	C	T	56419911	2	4	579	1	0	0	0	0	0	0	0	1	2861	738	26	2		2	CCDC85A	2	56419911	Silent	SNP	C	TCGA-EU-5904-01A-11D-1669-08		56419911	186779462	6	34366										
GCC2	9648	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	109099526	109099526	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	ttttaatttcaggaacatgcCactactgtaaatgaacttga	6	7	1	2			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr2:109099526C>T	ENST00000309863.6	+	12	4068	c.3354C>T	c.(3352-3354)gcC>gcT	p.A1118A		NM_181453.3	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain containing 2	1118					Golgi ribbon formation (GO:0090161)|late endosome to Golgi transport (GO:0034499)|microtubule anchoring (GO:0034453)|microtubule organizing center organization (GO:0031023)|protein localization to Golgi apparatus (GO:0034067)|protein targeting to Golgi (GO:0000042)|protein targeting to lysosome (GO:0006622)|recycling endosome to Golgi transport (GO:0071955)|regulation of protein exit from endoplasmic reticulum (GO:0070861)|retrograde transport, endosome to Golgi (GO:0042147)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|nucleus (GO:0005634)|trans-Golgi network (GO:0005802)	identical protein binding (GO:0042802)	p.A1118A(1)		breast(8)|central_nervous_system(1)|endometrium(2)|kidney(5)|large_intestine(10)|lung(19)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	54						AGGAACATGCCACTACTGTAA	0.358																																																1	Substitution - coding silent(1)	kidney(1)											50	49	49					2																	109099526		2203	4300	6503	SO:0001819	synonymous_variant	9648			BC020645	CCDS33268.1	2q12.3	2008-02-05	2004-03-05		ENSG00000135968	ENSG00000135968			23218	protein-coding gene	gene with protein product		612711	"GRIP and coiled-coil domain-containing 2"			12446665	Standard	NM_181453		Approved	GCC185, KIAA0336	uc002tec.3	Q8IWJ2	OTTHUMG00000153214	ENST00000309863.6:c.3354C>T	2.37:g.109099526C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6H8X8|O15045|Q4ZG46|Q8TDH3|Q9H2G8	Silent	SNP	ENST00000309863.6	37	CCDS33268.1																																																																																				0.358	GCC2-014	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358516.3	NM_014635		T	109099526	C	T	109099526	2	4	579	1	0	0	0	0	0	0	0	1	6293	581	21	2		2	GCC2	2	109099526	Silent	SNP	C	TCGA-EU-5904-01A-11D-1669-08	52679615	109099526	134099847	7	34367										
XIRP2	129446	broad.mit.edu	37	chr2	168105254	168105254	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	tgaactggcaacctccctgtCagatatggaatgtaaaatta	8	8	1	2			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr2:168105254C>A	ENST00000409195.1	+	9	7441	c.7352C>A	c.(7351-7353)tCa>tAa	p.S2451*	XIRP2_ENST00000409043.1_Intron|XIRP2_ENST00000409728.1_Intron|XIRP2_ENST00000295237.9_Nonsense_Mutation_p.S2451*|XIRP2_ENST00000420519.1_Intron|XIRP2_ENST00000409273.1_Nonsense_Mutation_p.S2229*|XIRP2_ENST00000409605.1_Intron|XIRP2_ENST00000409756.2_Intron	NM_152381.5	NP_689594.4	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2	2276					actin cytoskeleton organization (GO:0030036)|cardiac muscle tissue morphogenesis (GO:0055008)|cell-cell junction organization (GO:0045216)|ventricular septum development (GO:0003281)	cell junction (GO:0030054)|Z disc (GO:0030018)		p.S2451*(1)		NS(3)|biliary_tract(2)|breast(5)|cervix(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(51)|lung(160)|ovary(7)|pancreas(3)|prostate(11)|skin(14)|stomach(5)|upper_aerodigestive_tract(8)|urinary_tract(7)	315						ACCTCCCTGTCAGATATGGAA	0.413																																																1	Substitution - Nonsense(1)	kidney(1)											84	84	84					2																	168105254		1857	4115	5972	SO:0001587	stop_gained	129446			AK056582	CCDS42768.1, CCDS42769.1, CCDS56143.1, CCDS56144.1, CCDS56145.1	2q31.1	2013-10-25	2007-06-27	2007-06-27	ENSG00000163092	ENSG00000163092			14303	protein-coding gene	gene with protein product	"myomaxin"	609778	"cardiomyopathy associated 3"	CMYA3		17046827, 12203715, 15454575	Standard	NM_001079810		Approved		uc002udx.3	A4UGR9	OTTHUMG00000154027	ENST00000409195.1:c.7352C>A	2.37:g.168105254C>A	ENSP00000386840:p.Ser2451*	Somatic		WXS	Illumina GAIIx	Phase_I	A0PJ94|B2BBS0|B2BBS1|B2BBS4|B3KVH0|J3KNB1|Q53R52|Q5MJ67|Q702N7|Q86T36|Q86T38|Q86T46|Q86T51|Q86T53|Q86T55|Q86T79|Q86TB6|Q8N1M9|Q8N3R5|Q8TBV6	Nonsense_Mutation	SNP	ENST00000409195.1	37	CCDS42769.1	.	.	.	.	.	.	.	.	.	.	C	47	13.035416	0.99715	.	.	ENSG00000163092	ENST00000409195;ENST00000295237;ENST00000409273	.	.	.	5.85	4.07	0.47477	.	1.295740	0.05306	N	0.523869	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	0.6298	5.0402	0.14454	0.1463:0.6262:0.0:0.2275	.	.	.	.	X	2451;2451;2229	.	ENSP00000295237:S2451X	S	+	2	0	XIRP2	167813500	0.365000	0.25006	0.016000	0.15963	0.358000	0.29455	2.142000	0.42177	0.829000	0.34733	0.643000	0.83706	TCA		0.413	XIRP2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000333547.1	NM_152381		A	168105254	C	A	168105254	4	1	579	1	0	0	0	0	0	1	0	0	17442	838	29	4	7382	4	XIRP2	2	168105254	Nonsense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	59005728	168105254	75094119	8	34368										
ITGA4	3676	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	182396472	182396472	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	agaagccagtgttcatatccAactggaaggccggccatcca	10	12	1	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr2:182396472A>G	ENST00000397033.2	+	25	3183	c.2753A>G	c.(2752-2754)cAa>cGa	p.Q918R		NM_000885.4	NP_000876.3	P13612	ITA4_HUMAN	integrin, alpha 4 (antigen CD49D, alpha 4 subunit of VLA-4 receptor)	918					B cell differentiation (GO:0030183)|blood coagulation (GO:0007596)|blood vessel remodeling (GO:0001974)|cell-matrix adhesion (GO:0007160)|cell-matrix adhesion involved in ameboidal cell migration (GO:0003366)|chorio-allantoic fusion (GO:0060710)|endodermal cell differentiation (GO:0035987)|extracellular matrix organization (GO:0030198)|face development (GO:0060324)|heart development (GO:0007507)|heterophilic cell-cell adhesion (GO:0007157)|heterotypic cell-cell adhesion (GO:0034113)|integrin-mediated signaling pathway (GO:0007229)|leukocyte cell-cell adhesion (GO:0007159)|leukocyte migration (GO:0050900)|leukocyte tethering or rolling (GO:0050901)|negative regulation of protein homodimerization activity (GO:0090074)|receptor clustering (GO:0043113)|regulation of immune response (GO:0050776)|substrate adhesion-dependent cell spreading (GO:0034446)|T cell migration (GO:0072678)	cell surface (GO:0009986)|cell-cell junction (GO:0005911)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integrin alpha4-beta7 complex (GO:0034669)|membrane (GO:0016020)|plasma membrane (GO:0005886)	cell adhesion molecule binding (GO:0050839)|metal ion binding (GO:0046872)	p.Q918R(1)		breast(3)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(9)|lung(27)|ovary(3)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	58			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)|Tinzaparin(DB06822)	GTTCATATCCAACTGGAAGGC	0.343																																																1	Substitution - Missense(1)	kidney(1)											83	83	83					2																	182396472		1811	4072	5883	SO:0001583	missense	3676				CCDS42788.1	2q31-q32	2010-03-23			ENSG00000115232	ENSG00000115232		"CD molecules", "Integrins"	6140	protein-coding gene	gene with protein product		192975		CD49D		1537388	Standard	NM_000885		Approved	CD49d	uc002unu.3	P13612	OTTHUMG00000154212	ENST00000397033.2:c.2753A>G	2.37:g.182396472A>G	ENSP00000380227:p.Gln918Arg	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPG4|Q7Z4L6	Missense_Mutation	SNP	ENST00000397033.2	37	CCDS42788.1	.	.	.	.	.	.	.	.	.	.	A	0.226	-1.024594	0.02061	.	.	ENSG00000115232	ENST00000397033	T	0.41065	1.01	5.62	5.62	0.85841	.	0.268987	0.43260	D	0.000594	T	0.24851	0.0603	L	0.29908	0.895	0.32605	N	0.525386	P	0.34462	0.454	B	0.24394	0.053	T	0.25467	-1.0131	10	0.02654	T	1	.	14.0684	0.64847	1.0:0.0:0.0:0.0	.	918	P13612	ITA4_HUMAN	R	918	ENSP00000380227:Q918R	ENSP00000380227:Q918R	Q	+	2	0	ITGA4	182104717	1.000000	0.71417	0.929000	0.37066	0.048000	0.14542	6.356000	0.73046	2.141000	0.66446	0.528000	0.53228	CAA		0.343	ITGA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000334427.1			G	182396472	A	G	182396472	3	3	579	1	0	0	0	0	1	0	0	0	7885	130	5	3	2851	3	ITGA4	2	182396472	Missense_Mutation	SNP	A	TCGA-EU-5904-01A-11D-1669-08	14291218	182396472	60802901	9	34369										
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10191492	10191492	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	gtatactctgaaagagcgatGcctccaggttgtccggagcc	12	11	1	2	rs397516444|rs5030622		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr3:10191492G>T	ENST00000256474.2	+	3	1325	c.485G>T	c.(484-486)tGc>tTc	p.C162F	VHL_ENST00000477538.1_3'UTR|VHL_ENST00000345392.2_Missense_Mutation_p.C121F	NM_000551.3	NP_000542.1	P40337	VHL_HUMAN	von Hippel-Lindau tumor suppressor, E3 ubiquitin protein ligase	162	Interaction with Elongin BC complex.		C -> F (in VHLD; type I; No effect on interaction with HIF1A nor on HIF1A degradation). {ECO:0000269|PubMed:8956040, ECO:0000269|PubMed:9452032, ECO:0000269|PubMed:9829911}.|C -> R (in VHLD; type I). {ECO:0000269|PubMed:8956040}.|C -> W (in VHLD; type I-II; dbSNP:rs5030622). {ECO:0000269|PubMed:8956040, ECO:0000269|PubMed:9829912}.|C -> Y (in VHLD; type I). {ECO:0000269|PubMed:8956040}.		cell morphogenesis (GO:0000902)|cellular response to hypoxia (GO:0071456)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061428)|positive regulation of cell differentiation (GO:0045597)|positive regulation of transcription, DNA-templated (GO:0045893)|protein stabilization (GO:0050821)|protein ubiquitination (GO:0016567)|proteolysis (GO:0006508)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of transcription, DNA-templated (GO:0006355)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|intermediate filament cytoskeleton (GO:0045111)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	enzyme binding (GO:0019899)|transcription factor binding (GO:0008134)|ubiquitin protein ligase activity (GO:0061630)|ubiquitin-protein transferase activity (GO:0004842)	p.C162Y(5)|p.C162F(3)|p.L158fs*6(1)		adrenal_gland(25)|autonomic_ganglia(3)|central_nervous_system(2)|endometrium(6)|kidney(1662)|large_intestine(14)|lung(6)|pancreas(18)|paratesticular_tissues(1)|pleura(1)|skin(1)|soft_tissue(24)|thyroid(3)|upper_aerodigestive_tract(3)	1769				Kidney(1;0.000404)|KIRC - Kidney renal clear cell carcinoma(1;0.000569)		AAAGAGCGATGCCTCCAGGTT	0.507		1	"D, Mis, N, F, S"		"renal, hemangioma, pheochromocytoma"	"renal, hemangioma, pheochromocytoma"			von Hippel-Lindau disease;Pheochromocytoma (Adrenal), Familial;Chuvash Polycythemia																													yes	Rec	yes	von Hippel-Lindau syndrome	3	3p25	7428	von Hippel-Lindau syndrome gene		"E, M, O"	9	Substitution - Missense(8)|Deletion - Frameshift(1)	kidney(9)	GRCh37	CI011898|CM951291|CM951292	VHL	I|M							94	85	88					3																	10191492		2203	4300	6503	SO:0001583	missense	7428	Familial Cancer Database	VHL; ;Erythrocytosis, Familial type 2	L15409	CCDS2597.1, CCDS2598.1	3p25.3	2014-09-17	2012-02-23		ENSG00000134086	ENSG00000134086			12687	protein-coding gene	gene with protein product		608537	"von Hippel-Lindau syndrome", "von Hippel-Lindau tumor suppressor"			9671762	Standard	NM_000551		Approved	VHL1	uc003bvc.3	P40337	OTTHUMG00000128668	ENST00000256474.2:c.485G>T	3.37:g.10191492G>T	ENSP00000256474:p.Cys162Phe	Somatic		WXS	Illumina GAIIx	Phase_I	B2RE45|Q13599|Q6PDA9	Missense_Mutation	SNP	ENST00000256474.2	37	CCDS2597.1	.	.	.	.	.	.	.	.	.	.	G	18.97	3.735262	0.69189	.	.	ENSG00000134086	ENST00000256474;ENST00000345392;ENST00000450183	D;D	0.99830	-7.01;-7.01	4.86	4.86	0.63082	von Hippel-Lindau disease tumour suppressor, beta/alpha domain (2);von Hippel-Lindau disease tumor suppressor, alpha domain (1);	0.108704	0.64402	D	0.000008	D	0.99725	0.9893	M	0.66939	2.045	0.48511	D	0.99966	D;D	0.89917	0.997;1.0	D;D	0.78314	0.982;0.991	D	0.96980	0.9714	10	0.87932	D	0	-7.1517	15.8663	0.79067	0.0:0.0:1.0:0.0	.	121;162	P40337-2;P40337	.;VHL_HUMAN	F	162;121;80	ENSP00000256474:C162F;ENSP00000344757:C121F	ENSP00000256474:C162F	C	+	2	0	VHL	10166492	1.000000	0.71417	0.998000	0.56505	0.937000	0.57800	4.965000	0.63708	2.676000	0.91093	0.655000	0.94253	TGC		0.507	VHL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250559.1	NM_000551		T	10191492	G	T	10191492	3	4	579	1	0	0	0	0	1	0	0	0	17174	1319	46	4	495	4	VHL	3	10191492	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08		10191492	187830938	10	34370										
NDUFAF3	25915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49059963	49059963	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	tgctcccgcactcggtggtgCagtggaacgtgagtcctggc	15	12	0	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr3:49059963C>A	ENST00000326925.6	+	2	1396	c.262C>A	c.(262-264)Cag>Aag	p.Q88K	MIR191_ENST00000384873.1_RNA|DALRD3_ENST00000313778.5_5'Flank|DALRD3_ENST00000440857.1_5'Flank|NDUFAF3_ENST00000395458.2_Missense_Mutation_p.Q31K|MIR425_ENST00000362162.1_RNA|NDUFAF3_ENST00000326912.4_Missense_Mutation_p.Q31K|DALRD3_ENST00000496568.1_5'Flank|NDUFAF3_ENST00000451378.2_Missense_Mutation_p.Q31K	NM_199069.1	NP_951032.1	Q9BU61	NDUF3_HUMAN	NADH dehydrogenase (ubiquinone) complex I, assembly factor 3	88					mitochondrial respiratory chain complex I assembly (GO:0032981)	mitochondrial inner membrane (GO:0005743)|nucleus (GO:0005634)		p.Q88K(1)		haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|lung(4)	8						CTCGGTGGTGCAGTGGAACGT	0.612																																																1	Substitution - Missense(1)	kidney(1)											26	25	25					3																	49059963		2203	4300	6503	SO:0001583	missense	25915				CCDS2784.1, CCDS2785.1	3p21.31	2012-10-12	2012-05-08	2009-03-18	ENSG00000178057	ENSG00000178057		"Mitochondrial respiratory chain complex assembly factors"	29918	protein-coding gene	gene with protein product		612911	"chromosome 3 open reading frame 60", "NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 3"	C3orf60		12653254, 9349717	Standard	NM_199069		Approved	MGC10527, DKFZP564J0123, E3-3, 2P1	uc003cvq.3	Q9BU61	OTTHUMG00000156773	ENST00000326925.6:c.262C>A	3.37:g.49059963C>A	ENSP00000323076:p.Gln88Lys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000326925.6	37	CCDS2784.1	.	.	.	.	.	.	.	.	.	.	C	19.39	3.817943	0.71028	.	.	ENSG00000178057	ENST00000326912;ENST00000326925;ENST00000395458;ENST00000451378	T;T;T;T	0.76060	-0.99;-0.99;-0.99;-0.99	5.37	5.37	0.77165	.	0.000000	0.85682	D	0.000000	T	0.78717	0.4327	L	0.53729	1.69	0.80722	D	1	P	0.51653	0.947	P	0.57009	0.811	T	0.73119	-0.4083	10	0.06365	T	0.9	-24.1416	18.6934	0.91592	0.0:1.0:0.0:0.0	.	88	Q9BU61	NDUF3_HUMAN	K	31;88;31;31	ENSP00000323003:Q31K;ENSP00000323076:Q88K;ENSP00000378843:Q31K;ENSP00000402465:Q31K	ENSP00000323003:Q31K	Q	+	1	0	NDUFAF3	49034967	1.000000	0.71417	0.999000	0.59377	0.071000	0.16799	7.273000	0.78527	2.509000	0.84616	0.591000	0.81541	CAG		0.612	NDUFAF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345683.2	NM_199069		A	49059963	C	A	49059963	3	1	579	1	0	0	0	0	1	0	0	0	10283	711	25	4	268	4	NDUFAF3	3	49059963	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	38868471	49059963	148962467	11	34371										
TP63	8626	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	189586470	189586470	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	catcagaaagcagcaagtttCggacagtacaaagaacggtg	11	8	1	2	rs147148566		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr3:189586470C>T	ENST00000264731.3	+	8	1183	c.1094C>T	c.(1093-1095)tCg>tTg	p.S365L	TP63_ENST00000320472.5_Missense_Mutation_p.S365L|TP63_ENST00000456148.1_Missense_Mutation_p.S271L|TP63_ENST00000392463.2_Missense_Mutation_p.S271L|TP63_ENST00000437221.1_Missense_Mutation_p.S271L|TP63_ENST00000354600.5_Missense_Mutation_p.S271L|TP63_ENST00000440651.2_Missense_Mutation_p.S365L|TP63_ENST00000392461.3_Missense_Mutation_p.S271L|TP63_ENST00000392460.3_Missense_Mutation_p.S365L|TP63_ENST00000418709.2_Missense_Mutation_p.S365L|TP63_ENST00000382063.4_Missense_Mutation_p.S280L|TP63_ENST00000449992.1_Missense_Mutation_p.S186L	NM_001114978.1|NM_003722.4	NP_001108450.1|NP_003713.3	Q9H3D4	P63_HUMAN	tumor protein p63	365	Interaction with HIPK2.				apoptotic process (GO:0006915)|cell aging (GO:0007569)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to UV (GO:0034644)|chromatin remodeling (GO:0006338)|cloacal septation (GO:0060197)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|ectoderm and mesoderm interaction (GO:0007499)|embryonic limb morphogenesis (GO:0030326)|epidermal cell division (GO:0010481)|epithelial cell development (GO:0002064)|establishment of planar polarity (GO:0001736)|establishment of skin barrier (GO:0061436)|female genitalia morphogenesis (GO:0048807)|hair follicle morphogenesis (GO:0031069)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|keratinocyte differentiation (GO:0030216)|keratinocyte proliferation (GO:0043616)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organismal aging (GO:0010259)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cellular senescence (GO:2000773)|negative regulation of keratinocyte differentiation (GO:0045617)|negative regulation of mesoderm development (GO:2000381)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|odontogenesis of dentin-containing tooth (GO:0042475)|polarized epithelial cell differentiation (GO:0030859)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell cycle G1/S phase transition (GO:1902808)|positive regulation of fibroblast apoptotic process (GO:2000271)|positive regulation of keratinocyte proliferation (GO:0010838)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of Notch signaling pathway (GO:0045747)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|post-anal tail morphogenesis (GO:0036342)|prostatic bud formation (GO:0060513)|protein homotetramerization (GO:0051289)|proximal/distal pattern formation (GO:0009954)|regulation of epidermal cell division (GO:0010482)|regulation of neuron apoptotic process (GO:0043523)|response to gamma radiation (GO:0010332)|response to X-ray (GO:0010165)|skeletal system development (GO:0001501)|smooth muscle tissue development (GO:0048745)|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development (GO:0060529)|sympathetic nervous system development (GO:0048485)|urinary bladder development (GO:0060157)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|double-stranded DNA binding (GO:0003690)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|p53 binding (GO:0002039)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding transcription factor activity (GO:0000989)|transcription regulatory region DNA binding (GO:0044212)|WW domain binding (GO:0050699)	p.S365L(3)		breast(2)|central_nervous_system(2)|cervix(1)|endometrium(7)|kidney(5)|large_intestine(12)|lung(15)|ovary(2)|skin(9)|upper_aerodigestive_tract(6)	61	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		CAGCAAGTTTCGGACAGTACA	0.537										HNSCC(45;0.13)																																						3	Substitution - Missense(3)	skin(2)|kidney(1)											129	122	124					3																	189586470		2203	4300	6503	SO:0001583	missense	8626			AB010153	CCDS3293.1, CCDS46976.1, CCDS46977.1, CCDS46978.1, CCDS46979.1, CCDS46980.1	3q27-q29	2014-09-17			ENSG00000073282	ENSG00000073282			15979	protein-coding gene	gene with protein product		603273	"tumor protein p73-like", "tumor protein p53-like", "tumor protein p53-competing protein"	TP73L, TP53L, TP53CP		9774969, 9662378, 11181441, 11181451	Standard	NM_003722		Approved	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP	uc003fry.2	Q9H3D4	OTTHUMG00000156313	ENST00000264731.3:c.1094C>T	3.37:g.189586470C>T	ENSP00000264731:p.Ser365Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O75080|O75195|O75922|O76078|Q6VEG2|Q6VEG3|Q6VEG4|Q6VFJ1|Q6VFJ2|Q6VFJ3|Q6VH20|Q7LDI3|Q7LDI4|Q7LDI5|Q96KR0|Q9H3D2|Q9H3D3|Q9H3P8|Q9NPH7|Q9P1B4|Q9P1B5|Q9P1B6|Q9P1B7|Q9UBV9|Q9UE10|Q9UP26|Q9UP27|Q9UP28|Q9UP74	Missense_Mutation	SNP	ENST00000264731.3	37	CCDS3293.1	.	.	.	.	.	.	.	.	.	.	C	16.08	3.021890	0.54576	.	.	ENSG00000073282	ENST00000264731;ENST00000418709;ENST00000320472;ENST00000392460;ENST00000440651;ENST00000382063;ENST00000354600;ENST00000437221;ENST00000392463;ENST00000392461;ENST00000449992;ENST00000456148	D;D;D;D;D;D;D;D;D;D;D;D	0.99660	-5.98;-6.23;-6.22;-6.22;-5.96;-6.32;-5.98;-6.24;-6.22;-6.21;-6.32;-5.96	6.03	6.03	0.97812	.	0.057185	0.64402	D	0.000001	D	0.97942	0.9323	N	0.14661	0.345	0.80722	D	1	P;B;B;B;P;P;B;B;P;P	0.38473	0.596;0.003;0.003;0.002;0.464;0.464;0.212;0.005;0.5;0.633	B;B;B;B;B;B;B;B;B;B	0.38156	0.266;0.003;0.002;0.001;0.132;0.183;0.062;0.003;0.089;0.183	D	0.98824	1.0748	9	.	.	.	-4.2957	19.5548	0.95338	0.0:1.0:0.0:0.0	.	186;365;365;271;271;271;271;365;365;365	Q9H3D4-10;Q9H3D4-7;Q9H3D4-11;Q9H3D4-4;Q9H3D4-2;Q9H3D4-6;C9D7C9;Q9H3D4-3;Q9H3D4;Q9H3D4-5	.;.;.;.;.;.;.;.;P63_HUMAN;.	L	365;365;365;365;365;280;271;271;271;271;186;271	ENSP00000264731:S365L;ENSP00000407144:S365L;ENSP00000317510:S365L;ENSP00000376253:S365L;ENSP00000394337:S365L;ENSP00000371495:S280L;ENSP00000346614:S271L;ENSP00000392488:S271L;ENSP00000376256:S271L;ENSP00000376254:S271L;ENSP00000387839:S186L;ENSP00000389485:S271L	.	S	+	2	0	TP63	191069164	0.996000	0.38824	1.000000	0.80357	0.998000	0.95712	3.593000	0.54001	2.854000	0.98071	0.655000	0.94253	TCG		0.537	TP63-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000343865.1	NM_003722		T	189586470	C	T	189586470	3	4	579	1	0	0	0	0	1	0	0	0	16404	893	31	1	1170	1	TP63	3	189586470	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	140526507	189586470	8435960	12	34372										
GPR78	27201	broad.mit.edu;hgsc.bcm.edu	37	chr4	8583134	8583134	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	ggccttctcaggcgctgcacTtggctgctcgtggcttggct	14	13	1	0			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr4:8583134T>A	ENST00000382487.4	+	1	842	c.425T>A	c.(424-426)cTt>cAt	p.L142H	GPR78_ENST00000509216.1_Intron	NM_080819.4	NP_543009.2	Q96P69	GPR78_HUMAN	G protein-coupled receptor 78	142					adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)	p.L142H(1)		central_nervous_system(4)|kidney(4)|large_intestine(1)|lung(8)|ovary(3)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)	26						GGCGCTGCACTTGGCTGCTCG	0.711																																																1	Substitution - Missense(1)	kidney(1)											10	12	11					4																	8583134		2171	4254	6425	SO:0001583	missense	27201			AF411107	CCDS3403.1	4p16.1	2012-08-21			ENSG00000155269	ENSG00000155269		"GPCR / Class A : Orphans"	4528	protein-coding gene	gene with protein product		606921				11574155	Standard	NM_080819		Approved		uc003glk.4	Q96P69	OTTHUMG00000128483	ENST00000382487.4:c.425T>A	4.37:g.8583134T>A	ENSP00000371927:p.Leu142His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NGV3	Missense_Mutation	SNP	ENST00000382487.4	37	CCDS3403.1	.	.	.	.	.	.	.	.	.	.	T	11.09	1.535900	0.27475	.	.	ENSG00000155269	ENST00000382487	T	0.44881	0.91	2.53	1.21	0.21127	GPCR, rhodopsin-like superfamily (1);	0.457587	0.17015	U	0.190338	T	0.51007	0.1649	L	0.52905	1.665	0.09310	N	1	D	0.89917	1.0	D	0.73380	0.98	T	0.38134	-0.9675	10	0.87932	D	0	.	3.8196	0.08830	0.2165:0.0:0.2231:0.5603	.	142	Q96P69	GPR78_HUMAN	H	142	ENSP00000371927:L142H	ENSP00000371927:L142H	L	+	2	0	GPR78	8634034	0.056000	0.20664	0.000000	0.03702	0.004000	0.04260	2.368000	0.44222	-0.067000	0.12976	0.260000	0.18958	CTT		0.711	GPR78-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359201.1			A	8583134	T	A	8583134	3	1	579	1	0	0	0	0	1	0	0	0	6717	1609	56	5	427	5	GPR78	4	8583134	Missense_Mutation	SNP	T	TCGA-EU-5904-01A-11D-1669-08		8583134	182571142	13	34373										
TAPT1	202018	broad.mit.edu;hgsc.bcm.edu	37	chr4	16165153	16165153	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	gcagacaggttttcttctgtGgaaaggcctgtgataaaata	11	6	2	2			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr4:16165153G>T	ENST00000405303.2	-	14	1565	c.1482C>A	c.(1480-1482)tcC>tcA	p.S494S	TAPT1_ENST00000304584.8_3'UTR|TAPT1_ENST00000399920.3_Silent_p.S383S	NM_153365.2	NP_699196.2	Q6NXT6	TAPT1_HUMAN	transmembrane anterior posterior transformation 1	494					embryonic skeletal system development (GO:0048706)|G-protein coupled receptor signaling pathway (GO:0007186)|in utero embryonic development (GO:0001701)|post-embryonic development (GO:0009791)	integral component of membrane (GO:0016021)	growth hormone-releasing hormone receptor activity (GO:0016520)	p.S494S(1)		NS(1)|breast(2)|cervix(1)|kidney(2)|large_intestine(2)|lung(1)|prostate(1)	10						TTTCTTCTGTGGAAAGGCCTG	0.333																																																1	Substitution - coding silent(1)	kidney(1)											55	51	52					4																	16165153		1843	4110	5953	SO:0001819	synonymous_variant	202018			AK074494	CCDS47030.1	4p15.32	2014-01-28			ENSG00000169762	ENSG00000169762			26887	protein-coding gene	gene with protein product		612758				12477932	Standard	NM_153365		Approved	FLJ90013	uc010ied.1	Q6NXT6	OTTHUMG00000160177	ENST00000405303.2:c.1482C>A	4.37:g.16165153G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N2S3|Q9NZK9	Silent	SNP	ENST00000405303.2	37	CCDS47030.1																																																																																				0.333	TAPT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359568.1	NM_153365		T	16165153	G	T	16165153	2	4	579	1	0	0	0	0	0	0	0	1	15566	1335	47	4		4	TAPT1	4	16165153	Silent	SNP	G	TCGA-EU-5904-01A-11D-1669-08	7582019	16165153	174989123	14	34374										
NCAPG	64151	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	17819025	17819026	+	Frame_Shift_Ins	INS	-	-	AA													0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	gttctcaatgccttgttttcINSaataactcctctcagtgaac							TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr4:17819025_17819026insAA	ENST00000251496.2	+	6	1093_1094	c.917_918insAA	c.(916-921)tcaatafs	p.I307fs		NM_022346.4	NP_071741.2	Q9BPX3	CND3_HUMAN	non-SMC condensin I complex, subunit G	307					mitotic cell cycle (GO:0000278)|mitotic chromosome condensation (GO:0007076)	actin cytoskeleton (GO:0015629)|centrosome (GO:0005813)|condensin complex (GO:0000796)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)				breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(11)|lung(10)|prostate(1)|upper_aerodigestive_tract(1)	27				STAD - Stomach adenocarcinoma(129;0.18)		GCCTTGTTTTCAATAACTCCTC	0.391																																																0																																										SO:0001589	frameshift_variant	64151			AF331796	CCDS3424.1	4p15.32	2014-01-15			ENSG00000109805	ENSG00000109805			24304	protein-coding gene	gene with protein product	"chromosome condensation protein G"	606280				10910072, 11136719	Standard	NM_022346		Approved	FLJ12450, hCAP-G, CAP-G, YCG1	uc003gpp.4	Q9BPX3	OTTHUMG00000128539	ENST00000251496.2:c.918_919dupAA	4.37:g.17819026_17819027dupAA	ENSP00000251496:p.Ile307fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MJE0|Q96SV9|Q9BUR3|Q9BVY1|Q9H914|Q9H9Z6|Q9HBI9	Frame_Shift_Ins	INS	ENST00000251496.2	37	CCDS3424.1																																																																																				0.391	NCAPG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250375.1	NM_022346		AA	17819026	-	AA	17819025	7	5	579	1	0	1	1	0	0	0	0	0	10214	838	29	0	939	0	NCAPG	4	17819025	Frame_Shift_Ins	INS	-	TCGA-EU-5904-01A-11D-1669-08	1653872	17819025	173335251	15	34375										
PCDHGA5	56110	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	140745223	140745223	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	agccacatccccttgaaagtAgcagacgttaatgacaaccc	7	13	0	3	rs528991261		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr5:140745223A>G	ENST00000518069.1	+	1	1326	c.1326A>G	c.(1324-1326)gtA>gtG	p.V442V	PCDHGB1_ENST00000523390.1_Intron|PCDHGA4_ENST00000571252.1_Intron|PCDHGB2_ENST00000522605.1_Intron|PCDHGA1_ENST00000517417.1_Intron|PCDHGA3_ENST00000253812.6_Intron|PCDHGA2_ENST00000394576.2_Intron	NM_018918.2|NM_032054.1	NP_061741.1|NP_114443.1	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5	442	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)	p.V442V(1)		endometrium(1)|kidney(1)|large_intestine(5)|lung(3)|ovary(5)|upper_aerodigestive_tract(3)	18			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTTGAAAGTAGCAGACGTTA	0.478																																																1	Substitution - coding silent(1)	kidney(1)											106	111	109					5																	140745223		1919	4118	6037	SO:0001819	synonymous_variant	56110			AF152512	CCDS54925.1, CCDS75333.1	5q31	2010-01-26				ENSG00000253485		"Cadherins / Protocadherins : Clustered"	8703	other	protocadherin	"cadherin ME3"	606292				10380929	Standard	NM_018918		Approved	CDH-GAMMA-A5, ME3, PCDH-GAMMA-A5		Q9Y5G8		ENST00000518069.1:c.1326A>G	5.37:g.140745223A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3F5|Q9Y5D2	Silent	SNP	ENST00000518069.1	37	CCDS54925.1																																																																																				0.478	PCDHGA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374742.1	NM_018918		G	140745223	A	G	140745223	2	3	579	1	0	0	0	0	0	0	0	1	11564	407	15	3		3	PCDHGA5	5	140745223	Silent	SNP	A	TCGA-EU-5904-01A-11D-1669-08		140745223	40170037	16	34376										
ALDH5A1	7915	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	24528317	24528317	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	ggaaaaaatttctttgagccTaccctgctgtgcaatgtcac	8	10	2	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr6:24528317T>C	ENST00000357578.3	+	8	1411	c.1266T>C	c.(1264-1266)ccT>ccC	p.P422P	ALDH5A1_ENST00000491546.1_Silent_p.P394P|ALDH5A1_ENST00000348925.2_Silent_p.P435P|ALDH5A1_ENST00000546278.1_Silent_p.P334P	NM_001080.3	NP_001071.1	P51649	SSDH_HUMAN	aldehyde dehydrogenase 5 family, member A1	422					acetate metabolic process (GO:0006083)|central nervous system development (GO:0007417)|galactosylceramide metabolic process (GO:0006681)|gamma-aminobutyric acid catabolic process (GO:0009450)|glucose metabolic process (GO:0006006)|glucosylceramide metabolic process (GO:0006678)|glutamate metabolic process (GO:0006536)|glutamine metabolic process (GO:0006541)|glutathione metabolic process (GO:0006749)|glycerophospholipid metabolic process (GO:0006650)|neurotransmitter catabolic process (GO:0042135)|neurotransmitter secretion (GO:0007269)|post-embryonic development (GO:0009791)|protein homotetramerization (GO:0051289)|respiratory electron transport chain (GO:0022904)|short-chain fatty acid metabolic process (GO:0046459)|succinate metabolic process (GO:0006105)|synaptic transmission (GO:0007268)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	protein homodimerization activity (GO:0042803)|succinate-semialdehyde dehydrogenase (NAD+) activity (GO:0004777)|succinate-semialdehyde dehydrogenase [NAD(P)+] activity (GO:0009013)	p.P435P(2)		breast(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(7)|skin(2)|urinary_tract(1)	20					Chlormerodrin(DB00534)|Succinic acid(DB00139)|Valproic Acid(DB00313)	TCTTTGAGCCTACCCTGCTGT	0.502																																																2	Substitution - coding silent(2)	kidney(1)|endometrium(1)											103	96	98					6																	24528317		2203	4300	6503	SO:0001819	synonymous_variant	7915			L34820	CCDS4555.1, CCDS4556.1	6p22	2013-06-03	2008-07-31		ENSG00000112294	ENSG00000112294	1.2.1.24	"Aldehyde dehydrogenases"	408	protein-coding gene	gene with protein product	"succinate-semialdehyde dehydrogenase"	610045				7814412, 9059628	Standard	NM_001080		Approved	SSADH, SSDH	uc003nef.3	P51649	OTTHUMG00000014356	ENST00000357578.3:c.1266T>C	6.37:g.24528317T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RD26|G5E949|Q546H9|Q8N3W6	Silent	SNP	ENST00000357578.3	37	CCDS4555.1																																																																																				0.502	ALDH5A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040007.2			C	24528317	T	C	24528317	2	2	579	1	0	0	0	0	0	0	0	1	502	1509	53	3		3	ALDH5A1	6	24528317	Silent	SNP	T	TCGA-EU-5904-01A-11D-1669-08		24528317	146586750	17	34377										
RPP21	79897	hgsc.bcm.edu	37	chr6	30313340	30313340	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	ccgggcctcacctgcacccaGcgccagagacgtgagtgctc	12	17	1	2	rs6986	byFrequency	TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr6:30313340G>C	ENST00000442966.2	+	3	244	c.231G>C	c.(229-231)caG>caC	p.Q77H	RPP21_ENST00000436442.2_Missense_Mutation_p.Q77H|RPP21_ENST00000466327.1_3'UTR|RPP21_ENST00000428040.2_Missense_Mutation_p.Q100H|TRIM39-RPP21_ENST00000513556.1_Missense_Mutation_p.Q338H|RPP21_ENST00000433076.2_Missense_Mutation_p.Q85H			Q9H633	RPP21_HUMAN	ribonuclease P/MRP 21kDa subunit	77			Q -> H (in dbSNP:rs6986). {ECO:0000269|PubMed:14574404, ECO:0000269|PubMed:15489334, ECO:0000269|Ref.2}.		response to drug (GO:0042493)|tRNA processing (GO:0008033)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|ribonuclease P activity (GO:0004526)			endometrium(2)|ovary(1)|prostate(1)	4						CCTGCACCCAGCGCCAGAGAC	0.697													G|||	1302	0.259984	0.2905	0.1816	5008	,	,		7455	0.1667		0.2545	False		,,,				2504	0.3763															0								G	HIS/GLN,HIS/GLN,HIS/GLN,HIS/GLN	952,2048		158,636,706	14	9	11		1278,255,231,231	4.7	1	6	dbSNP_52	11	1197,4197		151,895,1651	yes	missense,missense,missense,missense	RPP21,TRIM39-RPP21	NM_001199119.1,NM_001199120.1,NM_001199121.1,NM_024839.2	24,24,24,24	309,1531,2357	CC,CG,GG		22.1913,31.7333,25.6016	,,,	426/504,85/163,77/145,77/155	30313340	2149,6245	1500	2697	4197	SO:0001583	missense	202658			AK026291	CCDS4679.1, CCDS56409.1, CCDS56410.1	6p21.32	2012-05-21	2007-06-26	2004-03-19	ENSG00000241370	ENSG00000241370			21300	protein-coding gene	gene with protein product		612524	"chromosome 6 open reading frame 135", "ribonuclease P 21kDa subunit"	C6orf135			Standard	NM_001199120		Approved	FLJ22638, Em:AB014085.3		Q9H633	OTTHUMG00000031220	ENST00000442966.2:c.231G>C	6.37:g.30313340G>C	ENSP00000403833:p.Gln77His	Somatic		WXS	Illumina HiSeq	Phase_I	A2AAZ8|B0S834|B0S835|Q5JPL9|Q5JPM1|Q5STF8|Q5STF9|Q5STG2|Q5SU41|Q5SU42|Q86Y49|Q86Y50|Q86Y51|Q96F16	Silent	SNP	ENST00000442966.2	37	CCDS4679.1	489	0.2239010989010989	134	0.27235772357723576	69	0.19060773480662985	93	0.16258741258741258	193	0.2546174142480211	G	16.57	3.159557	0.57368	0.317333	0.221913	ENSG00000204599;ENSG00000248167;ENSG00000241370;ENSG00000241370;ENSG00000241370;ENSG00000241370	ENST00000412529;ENST00000513556;ENST00000433076;ENST00000442966;ENST00000428040;ENST00000436442	T;T;T;T;T	0.43688	0.94;0.94;0.94;0.94;0.94	5.53	4.66	0.58398	.	0.397524	0.25564	N	0.029811	T	0.36771	0.0979	N	0.25890	0.77	0.31574	P	0.655968	D;B;B;B	0.69078	0.997;0.106;0.245;0.004	D;B;B;B	0.71870	0.975;0.019;0.048;0.004	T	0.46707	-0.9172	9	0.87932	D	0	-5.2369	10.8448	0.46737	0.0876:0.0:0.9124:0.0	rs6986;rs1137108;rs2516690;rs3179290;rs3200884;rs11557496;rs17341450;rs17353244;rs17362218;rs6986	340;77;77;100	F5H2V3;Q9H633-3;Q9H633;Q9H633-2	.;.;RPP21_HUMAN;.	H	340;338;85;77;100;77	ENSP00000424048:Q338H;ENSP00000409799:Q85H;ENSP00000403833:Q77H;ENSP00000394320:Q100H;ENSP00000397778:Q77H	ENSP00000394320:Q100H	Q	+	3	2	RPP21;TRIM39-RPP21;TRIM39	30421319	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	3.966000	0.56795	1.466000	0.48025	0.650000	0.86243	CAG		0.697	RPP21-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076451.2	NM_024839		C	30313340	G	C	30313340	3	2	579	1	0	0	0	0	1	0	0	0	13623	962	34	4	241	4	RPP21	6	30313340	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08	5785023	30313340	140801727	18	34378										
CNTLN	54875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	17416024	17416024	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	aagtagcaatattattttatTacgagaacggattatatcct	6	5	0	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr9:17416024T>A	ENST00000380647.3	+	18	3035	c.2951T>A	c.(2950-2952)tTa>tAa	p.L984*	CNTLN_ENST00000262360.5_Nonsense_Mutation_p.L984*|CNTLN_ENST00000425824.1_Nonsense_Mutation_p.L984*			Q9NXG0	CNTLN_HUMAN	centlein, centrosomal protein	984					centriole-centriole cohesion (GO:0010457)|protein localization to organelle (GO:0033365)	centriole (GO:0005814)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	phosphorelay sensor kinase activity (GO:0000155)|protein binding, bridging (GO:0030674)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)	p.L984*(1)		breast(6)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(5)|kidney(3)|large_intestine(10)|lung(17)|ovary(1)|pancreas(1)|prostate(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	53				GBM - Glioblastoma multiforme(50;6.14e-10)		ATTATTTTATTACGAGAACGG	0.274																																																1	Substitution - Nonsense(1)	kidney(1)											64	61	62					9																	17416024		1809	4074	5883	SO:0001587	stop_gained	54875			AK000283	CCDS43789.1, CCDS47953.1	9p22.2-p22.1	2008-11-11	2008-02-08	2008-02-08	ENSG00000044459	ENSG00000044459			23432	protein-coding gene	gene with protein product		611870	"chromosome 9 open reading frame 101", "chromosome 9 open reading frame 39"	C9orf101, C9orf39		18086554	Standard	XM_005251492		Approved	FLJ20276, bA340N12.1, OTTHUMG00000019597	uc003zmy.3	Q9NXG0	OTTHUMG00000019599	ENST00000380647.3:c.2951T>A	9.37:g.17416024T>A	ENSP00000370021:p.Leu984*	Somatic		WXS	Illumina HiSeq	Phase_I	A5Z2X6|Q5VYJ0|Q8N1G9|Q9HAJ5	Nonsense_Mutation	SNP	ENST00000380647.3	37	CCDS43789.1	.	.	.	.	.	.	.	.	.	.	T	41	9.070684	0.99055	.	.	ENSG00000044459	ENST00000380647;ENST00000425824;ENST00000262360	.	.	.	4.88	4.88	0.63580	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	13.0133	0.58743	0.0:0.0:0.0:1.0	.	.	.	.	X	984	.	ENSP00000262360:L984X	L	+	2	0	CNTLN	17406024	1.000000	0.71417	0.990000	0.47175	0.729000	0.41735	4.497000	0.60367	1.947000	0.56498	0.460000	0.39030	TTA		0.274	CNTLN-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000051793.3	NM_017738		A	17416024	T	A	17416024	4	1	579	1	0	0	0	0	0	1	0	0	3641	1764	61	5	3051	5	CNTLN	9	17416024	Nonsense_Mutation	SNP	T	TCGA-EU-5904-01A-11D-1669-08		17416024	123797407	19	34379										
EHMT1	79813	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	140671279	140671279	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	tcggccctggagggcagggcCgacaccacaacgggcaggta	16	13	0	0			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr9:140671279C>T	ENST00000460843.1	+	12	2028	c.2001C>T	c.(1999-2001)gcC>gcT	p.A667A	EHMT1_ENST00000462484.1_Silent_p.A667A|EHMT1_ENST00000334856.6_Silent_p.A636A|EHMT1_ENST00000371394.2_3'UTR	NM_024757.4	NP_079033.4	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	667					chromatin modification (GO:0016568)|DNA methylation (GO:0006306)|embryo development (GO:0009790)|histone methylation (GO:0016571)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|peptidyl-lysine dimethylation (GO:0018027)|peptidyl-lysine monomethylation (GO:0018026)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	histone methyltransferase activity (H3-K27 specific) (GO:0046976)|histone methyltransferase activity (H3-K9 specific) (GO:0046974)|histone-lysine N-methyltransferase activity (GO:0018024)|methyltransferase activity (GO:0008168)|p53 binding (GO:0002039)|protein-lysine N-methyltransferase activity (GO:0016279)|zinc ion binding (GO:0008270)	p.A636A(1)|p.A667A(1)		breast(2)|central_nervous_system(2)|cervix(2)|endometrium(3)|kidney(2)|large_intestine(4)|lung(16)|ovary(1)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	41	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		AGGGCAGGGCCGACACCACAA	0.592																																																2	Substitution - coding silent(2)	kidney(2)											49	45	46					9																	140671279		2203	4300	6503	SO:0001819	synonymous_variant	79813			AY083210	CCDS7050.1, CCDS7050.2, CCDS56595.1	9q34.3	2013-09-20			ENSG00000181090	ENSG00000181090	2.1.1.43	"Chromatin-modifying enzymes / K-methyltransferases", "Ankyrin repeat domain containing"	24650	protein-coding gene	gene with protein product		607001	"euchromatic histone methyltransferase 1"			11347906, 12004135	Standard	NM_024757		Approved	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D	uc011mfc.2	Q9H9B1	OTTHUMG00000020995	ENST00000460843.1:c.2001C>T	9.37:g.140671279C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B1AQ58|B1AQ59|Q86X08|Q8TCN7|Q96F53|Q96JF1|Q96KH4	Silent	SNP	ENST00000460843.1	37	CCDS7050.2																																																																																				0.592	EHMT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055371.2	NM_024757		T	140671279	C	T	140671279	2	4	579	1	0	0	0	0	0	0	0	1	4985	639	23	1		1	EHMT1	9	140671279	Silent	SNP	C	TCGA-EU-5904-01A-11D-1669-08	123255255	140671279	542152	20	34380										
DIP2C	22982	broad.mit.edu;ucsc.edu	37	chr10	409240	409240	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	cgtgcagcacggtcaccgagAacacggctatcctgcgggga	14	13	1	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr10:409240A>T	ENST00000280886.6	-	21	2576	c.2489T>A	c.(2488-2490)tTc>tAc	p.F830Y	DIP2C_ENST00000381496.3_3'UTR|DIP2C_ENST00000540204.1_Missense_Mutation_p.F151Y	NM_014974.2	NP_055789.1	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C (Drosophila)	830						nucleus (GO:0005634)	catalytic activity (GO:0003824)	p.F830Y(1)		breast(8)|endometrium(6)|kidney(10)|large_intestine(13)|lung(26)|ovary(3)|prostate(6)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(4)	81		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		GGTCACCGAGAACACGGCTAT	0.627																																																1	Substitution - Missense(1)	kidney(1)											146	99	115					10																	409240		2203	4300	6503	SO:0001583	missense	22982			BC035216	CCDS7054.1	10p15.3	2006-01-13	2006-01-13	2006-01-13	ENSG00000151240	ENSG00000151240			29150	protein-coding gene	gene with protein product		611380	"KIAA0934"	KIAA0934			Standard	NM_014974		Approved		uc001ifp.3	Q9Y2E4	OTTHUMG00000017532	ENST00000280886.6:c.2489T>A	10.37:g.409240A>T	ENSP00000280886:p.Phe830Tyr	Somatic		WXS	Illumina GAIIx	Phase_I	B4DPI5|Q5SS78	Missense_Mutation	SNP	ENST00000280886.6	37	CCDS7054.1	.	.	.	.	.	.	.	.	.	.	A	28.7	4.946165	0.92593	.	.	ENSG00000151240	ENST00000280886;ENST00000540204	T;T	0.63096	2.86;-0.02	5.91	5.91	0.95273	.	0.000000	0.85682	D	0.000000	D	0.83161	0.5194	M	0.90542	3.125	0.80722	D	1	D;D	0.71674	0.998;0.989	D;D	0.83275	0.996;0.925	D	0.86736	0.1951	10	0.87932	D	0	-32.2904	16.3486	0.83191	1.0:0.0:0.0:0.0	.	151;830	B4DPI5;Q9Y2E4	.;DIP2C_HUMAN	Y	830;151	ENSP00000280886:F830Y;ENSP00000443826:F151Y	ENSP00000280886:F830Y	F	-	2	0	DIP2C	399240	1.000000	0.71417	1.000000	0.80357	0.563000	0.35712	9.331000	0.96430	2.259000	0.74868	0.528000	0.53228	TTC		0.627	DIP2C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046389.1	NM_014974		T	409240	A	T	409240	3	4	579	1	0	0	0	0	1	0	0	0	4531	246	9	5	2249	5	DIP2C	10	409240	Missense_Mutation	SNP	A	TCGA-EU-5904-01A-11D-1669-08		409240	135125507	21	34381										
APBB1IP	54518	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	26789847	26789847	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	gaggacaatccaggcacagaAagagtccttgcagaatcaac	10	10	1	3			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr10:26789847A>T	ENST00000376236.4	+	5	715	c.260A>T	c.(259-261)aAa>aTa	p.K87I	APBB1IP_ENST00000356785.4_Missense_Mutation_p.K87I	NM_019043.3	NP_061916.3	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	87					blood coagulation (GO:0007596)|platelet activation (GO:0030168)|signal transduction (GO:0007165)	cell junction (GO:0030054)|cell projection (GO:0042995)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|plasma membrane (GO:0005886)		p.K87I(1)		central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(27)|skin(7)|upper_aerodigestive_tract(1)	45						CAGGCACAGAAAGAGTCCTTG	0.458																																																1	Substitution - Missense(1)	kidney(1)											155	136	143					10																	26789847		2203	4300	6503	SO:0001583	missense	54518			AB085852	CCDS31167.1	10p12.1	2013-01-10			ENSG00000077420	ENSG00000077420		"Pleckstrin homology (PH) domain containing"	17379	protein-coding gene	gene with protein product	"Rap1-GTP-interacting adaptor molecule"	609036				9407065	Standard	NM_019043		Approved	INAG1, RIAM	uc001iss.3	Q7Z5R6	OTTHUMG00000017841	ENST00000376236.4:c.260A>T	10.37:g.26789847A>T	ENSP00000365411:p.Lys87Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IWS8|Q8IYL7|Q8IZZ7	Missense_Mutation	SNP	ENST00000376236.4	37	CCDS31167.1	.	.	.	.	.	.	.	.	.	.	A	16.05	3.011975	0.54468	.	.	ENSG00000077420	ENST00000445780;ENST00000376236;ENST00000356785	T	0.34472	1.36	5.84	3.49	0.39957	.	0.435227	0.29307	N	0.012535	T	0.46034	0.1372	L	0.44542	1.39	0.30366	N	0.783325	D;D;D	0.71674	0.966;0.987;0.998	P;P;D	0.65874	0.641;0.871;0.939	T	0.46442	-0.9191	10	0.56958	D	0.05	.	8.5787	0.33614	0.8435:0.0:0.1565:0.0	.	87;87;87	B4E100;Q7Z5R6;Q8IYL7	.;AB1IP_HUMAN;.	I	87	ENSP00000365411:K87I	ENSP00000349237:K87I	K	+	2	0	APBB1IP	26829853	0.998000	0.40836	0.991000	0.47740	0.835000	0.47333	3.124000	0.50461	0.458000	0.26988	0.460000	0.39030	AAA		0.458	APBB1IP-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047270.1	NM_019043		T	26789847	A	T	26789847	3	4	579	1	0	0	0	0	1	0	0	0	760	14	1	5	270	5	APBB1IP	10	26789847	Missense_Mutation	SNP	A	TCGA-EU-5904-01A-11D-1669-08	26380607	26789847	108744900	22	34382										
NRP1	8829	broad.mit.edu;hgsc.bcm.edu	37	chr10	33619643	33619643	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	cattcccacttacttgcagtCtctgtcctccaaatcgaagt	5	14	1	0			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr10:33619643C>A	ENST00000265371.4	-	3	766	c.241G>T	c.(241-243)Gac>Tac	p.D81Y	NRP1_ENST00000374822.4_Missense_Mutation_p.D81Y|NRP1_ENST00000374821.5_Missense_Mutation_p.D81Y|NRP1_ENST00000374823.5_Missense_Mutation_p.D81Y|NRP1_ENST00000432372.2_Missense_Mutation_p.D81Y|NRP1_ENST00000395995.1_Missense_Mutation_p.D81Y|NRP1_ENST00000374875.1_5'UTR|NRP1_ENST00000374867.2_Missense_Mutation_p.D81Y|NRP1_ENST00000374816.3_Missense_Mutation_p.D81Y			O14786	NRP1_HUMAN	neuropilin 1	81	CUB 1. {ECO:0000255|PROSITE- ProRule:PRU00059}.				angiogenesis (GO:0001525)|angiogenesis involved in coronary vascular morphogenesis (GO:0060978)|artery morphogenesis (GO:0048844)|axon extension involved in axon guidance (GO:0048846)|axon guidance (GO:0007411)|axonal fasciculation (GO:0007413)|axonogenesis involved in innervation (GO:0060385)|branchiomotor neuron axon guidance (GO:0021785)|cell adhesion (GO:0007155)|cell migration involved in sprouting angiogenesis (GO:0002042)|cell-cell signaling (GO:0007267)|cellular response to hepatocyte growth factor stimulus (GO:0035729)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|commissural neuron axon guidance (GO:0071679)|coronary artery morphogenesis (GO:0060982)|dendrite development (GO:0016358)|dichotomous subdivision of terminal units involved in salivary gland branching (GO:0060666)|endothelial cell chemotaxis (GO:0035767)|endothelial tip cell fate specification (GO:0097102)|facial nerve structural organization (GO:0021612)|gonadotrophin-releasing hormone neuronal migration to the hypothalamus (GO:0021828)|hepatocyte growth factor receptor signaling pathway (GO:0048012)|negative regulation of axon extension involved in axon guidance (GO:0048843)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of neuron apoptotic process (GO:0043524)|nerve development (GO:0021675)|neural crest cell migration involved in autonomic nervous system development (GO:1901166)|neuron migration (GO:0001764)|organ morphogenesis (GO:0009887)|patterning of blood vessels (GO:0001569)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive chemotaxis (GO:0050918)|positive regulation of axon extension involved in axon guidance (GO:0048842)|positive regulation of cytokine activity (GO:0060301)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of retinal ganglion cell axon guidance (GO:1902336)|positive regulation of smooth muscle cell migration (GO:0014911)|protein localization to early endosome (GO:1902946)|regulation of retinal ganglion cell axon guidance (GO:0090259)|regulation of vesicle-mediated transport (GO:0060627)|renal artery morphogenesis (GO:0061441)|response to wounding (GO:0009611)|retina vasculature morphogenesis in camera-type eye (GO:0061299)|retinal ganglion cell axon guidance (GO:0031290)|semaphorin-plexin signaling pathway (GO:0071526)|semaphorin-plexin signaling pathway involved in axon guidance (GO:1902287)|semaphorin-plexin signaling pathway involved in neuron projection guidance (GO:1902285)|signal transduction (GO:0007165)|sprouting angiogenesis (GO:0002040)|sympathetic ganglion development (GO:0061549)|sympathetic neuron projection extension (GO:0097490)|sympathetic neuron projection guidance (GO:0097491)|trigeminal nerve structural organization (GO:0021637)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)|VEGF-activated neuropilin signaling pathway (GO:0038190)|VEGF-activated neuropilin signaling pathway involved in axon guidance (GO:1902378)	axon (GO:0030424)|cell surface (GO:0009986)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|early endosome (GO:0005769)|extracellular space (GO:0005615)|focal adhesion (GO:0005925)|growth cone (GO:0030426)|integral component of membrane (GO:0016021)|neurofilament (GO:0005883)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|semaphorin receptor complex (GO:0002116)|sorting endosome (GO:0097443)	coreceptor activity (GO:0015026)|cytokine binding (GO:0019955)|growth factor binding (GO:0019838)|heparin binding (GO:0008201)|metal ion binding (GO:0046872)|semaphorin receptor activity (GO:0017154)|vascular endothelial growth factor binding (GO:0038085)|vascular endothelial growth factor-activated receptor activity (GO:0005021)	p.D81Y(1)		NS(2)|breast(6)|central_nervous_system(4)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(16)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|stomach(2)	48					Palifermin(DB00039)|Pegaptanib(DB04895)	TACTTGCAGTCTCTGTCCTCC	0.478																																					Melanoma(104;886 1489 44640 45944 51153)											1	Substitution - Missense(1)	kidney(1)											120	103	109					10																	33619643		2203	4300	6503	SO:0001583	missense	8829			AF016050	CCDS7177.1, CCDS31179.1, CCDS31180.1	10p12	2006-02-23			ENSG00000099250	ENSG00000099250		"CD molecules"	8004	protein-coding gene	gene with protein product		602069				9529250, 9331348	Standard	NM_003873		Approved	NRP, VEGF165R, CD304	uc001iwx.4	O14786	OTTHUMG00000019343	ENST00000265371.4:c.241G>T	10.37:g.33619643C>A	ENSP00000265371:p.Asp81Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B0LPG9|O60461|Q5T7F1|Q5T7F2|Q5T7F3|Q86T59|Q96I90|Q96IH5	Missense_Mutation	SNP	ENST00000265371.4	37	CCDS7177.1	.	.	.	.	.	.	.	.	.	.	C	28.0	4.879745	0.91740	.	.	ENSG00000099250	ENST00000265371;ENST00000374867;ENST00000395995;ENST00000374822;ENST00000374821;ENST00000374823;ENST00000374816	T;T;T;T;T;T;T	0.37058	1.22;1.22;1.22;1.22;1.22;1.22;1.22	5.99	5.99	0.97316	CUB (5);	0.047246	0.85682	D	0.000000	T	0.57562	0.2062	L	0.52126	1.63	0.80722	D	1	D;D;D;D;D;D;D;D	0.76494	0.999;0.999;0.999;0.986;0.998;0.999;0.999;0.999	D;D;D;P;D;D;D;D	0.71184	0.953;0.967;0.967;0.774;0.932;0.972;0.967;0.953	T	0.55630	-0.8111	10	0.87932	D	0	-46.1411	20.4777	0.99188	0.0:1.0:0.0:0.0	.	81;81;81;81;81;81;81;81	A8K9V7;E7EX60;Q5T7F0;Q5T7F1;O14786-2;Q68DN3;O14786;E9PEP6	.;.;.;.;.;.;NRP1_HUMAN;.	Y	81	ENSP00000265371:D81Y;ENSP00000364001:D81Y;ENSP00000379317:D81Y;ENSP00000363955:D81Y;ENSP00000363954:D81Y;ENSP00000363956:D81Y;ENSP00000363949:D81Y	ENSP00000265371:D81Y	D	-	1	0	NRP1	33659649	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	7.379000	0.79691	2.840000	0.97914	0.655000	0.94253	GAC		0.478	NRP1-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051203.2			A	33619643	C	A	33619643	3	1	579	1	0	0	0	0	1	0	0	0	10667	913	32	4	2605	4	NRP1	10	33619643	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	6829796	33619643	101915104	23	34383										
SC5DL	6309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	121175086	121175086	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	tcagaatcaagtccgtcgagAgattaagtttactgtccagg	10	8	2	2			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr11:121175086A>T	ENST00000392789.2	+	3	464	c.227A>T	c.(226-228)gAg>gTg	p.E76V	SC5D_ENST00000534230.1_Missense_Mutation_p.E76V|SC5D_ENST00000264027.4_Missense_Mutation_p.E76V	NM_001024956.2	NP_001020127.1	O75845	SC5D_HUMAN	sterol-C5-desaturase	76					cholesterol biosynthetic process (GO:0006695)|cholesterol biosynthetic process via lathosterol (GO:0033490)|fatty acid biosynthetic process (GO:0006633)|lipid metabolic process (GO:0006629)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	C-5 sterol desaturase activity (GO:0000248)|iron ion binding (GO:0005506)|lathosterol oxidase activity (GO:0050046)	p.E76V(1)									GTCCGTCGAGAGATTAAGTTT	0.353																																																1	Substitution - Missense(1)	kidney(1)											127	122	124					11																	121175086		2203	4299	6502	SO:0001583	missense	6309				CCDS8435.1	11q23.3	2013-03-04	2013-03-04	2013-03-04	ENSG00000109929	ENSG00000109929	1.14.21.6	"Fatty acid hydroxylase domain containing"	10547	protein-coding gene	gene with protein product	"lathosterol oxidase"	602286	"sterol-C5-desaturase (fungal ERG3, delta-5-desaturase)-like", "sterol-C5-desaturase (ERG3 delta-5-desaturase homolog, fungal)-like", "sterol-C5-desaturase (ERG3 delta-5-desaturase homolog, S. cerevisiae)-like"	SC5DL		8976377	Standard	NM_006918		Approved		uc001pxu.3	O75845	OTTHUMG00000166068	ENST00000392789.2:c.227A>T	11.37:g.121175086A>T	ENSP00000376539:p.Glu76Val	Somatic		WXS	Illumina HiSeq	Phase_I	O00119|Q6GTM5|Q9UK15	Missense_Mutation	SNP	ENST00000392789.2	37	CCDS8435.1	.	.	.	.	.	.	.	.	.	.	A	28.5	4.923137	0.92319	.	.	ENSG00000109929	ENST00000264027;ENST00000527762;ENST00000534230;ENST00000392789	D;D;D;D	0.88896	-1.96;-2.03;-2.44;-1.96	6.07	6.07	0.98685	.	0.000000	0.85682	D	0.000000	D	0.96377	0.8818	H	0.96080	3.765	0.58432	D	0.999994	D;D	0.89917	0.973;1.0	P;D	0.87578	0.841;0.998	D	0.97514	1.0068	10	0.87932	D	0	-14.6769	15.6232	0.76824	1.0:0.0:0.0:0.0	.	76;76	O75845;E9PQ91	SC5D_HUMAN;.	V	76;83;76;76	ENSP00000264027:E76V;ENSP00000436290:E83V;ENSP00000432550:E76V;ENSP00000376539:E76V	ENSP00000264027:E76V	E	+	2	0	SC5DL	120680296	1.000000	0.71417	0.994000	0.49952	0.951000	0.60555	9.300000	0.96151	2.326000	0.78906	0.533000	0.62120	GAG		0.353	SC5D-002	PUTATIVE	alternative_5_UTR|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000387702.1	NM_001024956		T	121175086	A	T	121175086	3	4	579	1	0	0	0	0	1	0	0	0	13879	304	11	5	233	5	SC5DL	11	121175086	Missense_Mutation	SNP	A	TCGA-EU-5904-01A-11D-1669-08		121175086	13831430	24	34384										
KLRG1	10219	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	9144837	9144837	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	cttcttgttcttgccttgtgGcaatagctttggggcttctg	11	9	3	0			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr12:9144837G>A	ENST00000266551.4	+	2	133	c.118G>A	c.(118-120)Gca>Aca	p.A40T	RP11-259O18.4_ENST00000545706.1_RNA|KLRG1_ENST00000538029.1_Intron|KLRG1_ENST00000356986.3_Missense_Mutation_p.A40T	NM_005810.3	NP_005801.3	Q96E93	KLRG1_HUMAN	killer cell lectin-like receptor subfamily G, member 1	40					cell surface receptor signaling pathway (GO:0007166)|cellular defense response (GO:0006968)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|regulation of immune response (GO:0050776)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)|receptor activity (GO:0004872)	p.A40T(1)		breast(1)|central_nervous_system(1)|kidney(1)|lung(3)|pancreas(1)|upper_aerodigestive_tract(1)	8						TTGCCTTGTGGCAATAGCTTT	0.448																																																1	Substitution - Missense(1)	kidney(1)											241	219	227					12																	9144837		2203	4300	6503	SO:0001583	missense	10219			AF097358	CCDS8599.1	12p13.31	2011-08-30			ENSG00000139187	ENSG00000139187		"Killer cell lectin-like receptors", "C-type lectin domain containing"	6380	protein-coding gene	gene with protein product	"C-type lectin domain family 15, member A"	604874				9862378, 9842918, 16461340, 16140789	Standard	NM_005810		Approved	MAFA, 2F1, MAFA-L, CLEC15A	uc001qvg.3	Q96E93		ENST00000266551.4:c.118G>A	12.37:g.9144837G>A	ENSP00000266551:p.Ala40Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZAM2|O43198|O75613	Missense_Mutation	SNP	ENST00000266551.4	37		.	.	.	.	.	.	.	.	.	.	G	9.523	1.108734	0.20714	.	.	ENSG00000139187	ENST00000356986;ENST00000266551	T;T	0.16743	2.32;2.32	3.69	1.83	0.25207	.	0.617862	0.13731	N	0.366711	T	0.09379	0.0231	N	0.24115	0.695	0.09310	N	1	B;P	0.36392	0.416;0.551	B;B	0.34779	0.092;0.189	T	0.27938	-1.0059	10	0.23302	T	0.38	-0.772	5.7323	0.18047	0.2317:0.0:0.7683:0.0	.	40;40	Q96E93;Q96E93-2	KLRG1_HUMAN;.	T	40	ENSP00000349477:A40T;ENSP00000266551:A40T	ENSP00000266551:A40T	A	+	1	0	KLRG1	9036104	0.625000	0.27111	0.121000	0.21740	0.627000	0.37826	0.952000	0.29149	0.518000	0.28383	0.462000	0.41574	GCA		0.448	KLRG1-002	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000399145.1	NM_005810		A	9144837	G	A	9144837	3	1	579	1	0	0	0	0	1	0	0	0	8428	1203	42	2	124	2	KLRG1	12	9144837	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08		9144837	124707058	25	34385										
C12orf41	54934	broad.mit.edu;ucsc.edu	37	chr12	49073492	49073492	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	tggagtctgagaccccagctCtgtcttagcatatgagctca	10	11	4	2			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr12:49073492C>A	ENST00000420613.2	-	3	423	c.376G>T	c.(376-378)Gag>Tag	p.E126*	KANSL2_ENST00000357861.3_5'UTR|KANSL2_ENST00000550347.1_Nonsense_Mutation_p.E309*|KANSL2_ENST00000553086.1_Nonsense_Mutation_p.E126*	NM_017822.3	NP_060292.3	Q9H9L4	KANL2_HUMAN	KAT8 regulatory NSL complex subunit 2	126					chromatin organization (GO:0006325)|histone H4-K16 acetylation (GO:0043984)|histone H4-K5 acetylation (GO:0043981)|histone H4-K8 acetylation (GO:0043982)	histone acetyltransferase complex (GO:0000123)|nucleoplasm (GO:0005654)		p.E126*(2)									GACCCCAGCTCTGTCTTAGCA	0.507																																																2	Substitution - Nonsense(2)	kidney(2)											52	49	50					12																	49073492		1916	4140	6056	SO:0001587	stop_gained	0			AK094528	CCDS44869.1	12q13.11	2011-10-31	2011-10-31	2011-10-31	ENSG00000139620	ENSG00000139620			26024	protein-coding gene	gene with protein product		615488	"chromosome 12 open reading frame 41"	C12orf41		12477932	Standard	NM_017822		Approved	FLJ20436, NSL2	uc001rrz.2	Q9H9L4	OTTHUMG00000170392	ENST00000420613.2:c.376G>T	12.37:g.49073492C>A	ENSP00000415436:p.Glu126*	Somatic		WXS	Illumina GAIIx	Phase_I	Q8N3B5|Q96CV0|Q9NX51	Nonsense_Mutation	SNP	ENST00000420613.2	37	CCDS44869.1	.	.	.	.	.	.	.	.	.	.	C	37	6.188325	0.97362	.	.	ENSG00000139620	ENST00000550347;ENST00000420613;ENST00000553086;ENST00000550931	.	.	.	5.95	5.95	0.96441	.	0.048243	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-12.7711	19.1412	0.93446	0.0:1.0:0.0:0.0	.	.	.	.	X	309;126;126;63	.	.	E	-	1	0	C12orf41	47359759	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.003000	0.76310	2.811000	0.96726	0.655000	0.94253	GAG		0.507	KANSL2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408841.1	NM_017822		A	49073492	C	A	49073492	4	1	579	1	0	0	0	0	0	1	0	0	1689	922	32	4	1134	4	C12orf41	12	49073492	Nonsense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	39928655	49073492	84778403	26	34386										
TSFM	10677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	58190297	58190297	+	IGR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	gggcagtatgtgcagcctcaGggggtgtcggtagtagactt	17	7	1	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr12:58190297G>A	ENST00000257861.3	-	0	2891				TSFM_ENST00000540550.1_3'UTR|TSFM_ENST00000454289.3_Silent_p.Q303Q|TSFM_ENST00000350762.5_Silent_p.Q263Q|TSFM_ENST00000543727.1_Intron|TSFM_ENST00000548851.1_Intron|TSFM_ENST00000550559.1_Intron|TSFM_ENST00000323833.8_Silent_p.Q324Q	NM_006576.3	NP_006567.3	O75366	AVIL_HUMAN	advillin						actin filament capping (GO:0051693)|cilium morphogenesis (GO:0060271)|cytoskeleton organization (GO:0007010)|nervous system development (GO:0007399)|positive regulation of neuron projection development (GO:0010976)	actin cytoskeleton (GO:0015629)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|neuron projection (GO:0043005)	actin binding (GO:0003779)	p.Q303Q(1)		autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(3)|kidney(4)|large_intestine(6)|lung(9)|ovary(1)|prostate(6)	32	Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					TGCAGCCTCAGGGGGTGTCGG	0.537																																																1	Substitution - coding silent(1)	kidney(1)											63	57	59					12																	58190297		2203	4300	6503	SO:0001628	intergenic_variant	10102			AF041449	CCDS8959.1	12q13.11	2006-03-30				ENSG00000135407			14188	protein-coding gene	gene with protein product		613397				9664034, 12034507	Standard	NM_006576		Approved	p92, FLJ12386, ADVIL, DOC6	uc001sqj.2	O75366	OTTHUMG00000170461		12.37:g.58190297G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RAU7|Q2NKM9	Silent	SNP	ENST00000257861.3	37	CCDS8959.1																																																																																				0.537	AVIL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409276.1	NM_006576		A	58190297	G	A	58190297	1	1	579	0	1	0	0	0	0	0	0	0	16627	991	35	2		2	TSFM	12	58190297	IGR	SNP	G	TCGA-EU-5904-01A-11D-1669-08	9116805	58190297	75661598	27	34387										
PPP1R12A	4659	hgsc.bcm.edu;ucsc.edu	37	chr12	80182470	80182471	+	Frame_Shift_Ins	INS	-	-	T													0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	ccttttctagcctgctgctgINStaaggttttctttcttctaa							TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr12:80182470_80182471insT	ENST00000450142.2	-	21	3025_3026	c.2759_2760insA	c.(2758-2760)tacfs	p.Y920fs	PPP1R12A_ENST00000546369.1_Frame_Shift_Ins_p.Y833fs|PPP1R12A_ENST00000261207.5_Frame_Shift_Ins_p.Y920fs|PPP1R12A_ENST00000437004.2_Frame_Shift_Ins_p.Y920fs|PPP1R12A_ENST00000550107.1_Frame_Shift_Ins_p.Y864fs	NM_002480.2	NP_002471.1	O14974	MYPT1_HUMAN	protein phosphatase 1, regulatory subunit 12A	920					centrosome organization (GO:0051297)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of catalytic activity (GO:0043086)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein dephosphorylation (GO:0006470)|regulation of cell adhesion (GO:0030155)|regulation of myosin-light-chain-phosphatase activity (GO:0035507)|regulation of nucleocytoplasmic transport (GO:0046822)|signal transduction (GO:0007165)	actin cytoskeleton (GO:0015629)|centrosome (GO:0005813)|contractile fiber (GO:0043292)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|kinetochore (GO:0000776)|nucleoplasm (GO:0005654)|PTW/PP1 phosphatase complex (GO:0072357)	14-3-3 protein binding (GO:0071889)|enzyme inhibitor activity (GO:0004857)|phosphatase regulator activity (GO:0019208)|protein kinase binding (GO:0019901)|signal transducer activity (GO:0004871)			breast(5)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(7)|liver(1)|lung(4)|ovary(2)|skin(1)	29						GCCTGCTGCTGTAAGGTTTTCT	0.347																																																0																																										SO:0001589	frameshift_variant	4659			D87930	CCDS44947.1, CCDS44948.1, CCDS58259.1, CCDS58260.1	12q15-q21	2013-01-18	2011-10-04	2001-08-10	ENSG00000058272	ENSG00000058272		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits", "Ankyrin repeat domain containing"	7618	protein-coding gene	gene with protein product	"myosin phosphatase-targeting subunit 1", "myosin binding subunit"	602021	"protein phosphatase 1, regulatory (inhibitor) subunit 12A"	MYPT1		9286714	Standard	NM_002480		Approved	MBS, M130	uc001syz.3	O14974	OTTHUMG00000170100	ENST00000450142.2:c.2760dupA	12.37:g.80182471_80182471dupT	ENSP00000389168:p.Tyr920fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ09|F8VWB4|Q2NKL4|Q569H0|Q86WU3|Q8NFR6|Q9BYH0	Frame_Shift_Del	INS	ENST00000450142.2	37	CCDS44947.1																																																																																				0.347	PPP1R12A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407254.2	NM_002480		T	80182471	-	T	80182470	7	5	579	1	0	1	1	0	0	0	0	0	12364	1372	48	0	352	0	PPP1R12A	12	80182470	Frame_Shift_Ins	INS	-	TCGA-EU-5904-01A-11D-1669-08	21992173	80182470	53669425	28	34388										
RCBTB2	1102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	49086880	49086880	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	ctcacctctccatcagatgtTagcaccaaagaatggtaaga	7	11	3	3	rs199638083		TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr13:49086880T>C	ENST00000344532.3	-	7	924	c.501A>G	c.(499-501)ctA>ctG	p.L167L	RCBTB2_ENST00000481144.1_5'UTR|RCBTB2_ENST00000430805.2_Silent_p.L172L|RCBTB2_ENST00000544904.1_Silent_p.L143L|RCBTB2_ENST00000544492.1_Intron	NM_001268.2	NP_001259.1	O95199	RCBT2_HUMAN	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 2	167					positive regulation of Ran GTPase activity (GO:0032853)	acrosomal vesicle (GO:0001669)	Ran guanyl-nucleotide exchange factor activity (GO:0005087)	p.L167L(1)		breast(5)|endometrium(3)|kidney(2)|large_intestine(2)|lung(11)|ovary(2)|prostate(3)|skin(3)	31		all_cancers(8;4.86e-71)|all_epithelial(8;2.11e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;2.3e-10)|Lung NSC(96;1.07e-07)|Breast(56;1.53e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.00826)|Myeloproliferative disorder(33;0.0179)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(99;1.8e-09)|LUSC - Lung squamous cell carcinoma(3;0.116)		CATCAGATGTTAGCACCAAAG	0.368																																																1	Substitution - coding silent(1)	kidney(1)											129	118	122					13																	49086880		2203	4300	6503	SO:0001819	synonymous_variant	1102			AF060219	CCDS9411.1, CCDS73570.1, CCDS73571.1, CCDS73572.1	13q14.3	2013-01-08	2005-05-09	2005-05-09	ENSG00000136161	ENSG00000136161		"BTB/POZ domain containing"	1914	protein-coding gene	gene with protein product		603524	"chromosome condensation 1-like"	CHC1L		9806834	Standard	XM_005266242		Approved		uc001vch.3	O95199	OTTHUMG00000016902	ENST00000344532.3:c.501A>G	13.37:g.49086880T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RDW8	Silent	SNP	ENST00000344532.3	37	CCDS9411.1																																																																																				0.368	RCBTB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044888.2	NM_001268		C	49086880	T	C	49086880	2	2	579	1	0	0	0	0	0	0	0	1	13185	1741	61	3		3	RCBTB2	13	49086880	Silent	SNP	T	TCGA-EU-5904-01A-11D-1669-08		49086880	66082998	29	34389										
MYO16	23026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	109817265	109817265	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	ttaggttttgaaactaacatGaacataagtagccgagatga	9	5	0	4			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr13:109817265G>A	ENST00000357550.2	+	32	5156	c.5115G>A	c.(5113-5115)atG>atA	p.M1705I	MYO16_ENST00000356711.2_Missense_Mutation_p.M1705I|MYO16-AS1_ENST00000439299.1_RNA	NM_001198950.1	NP_001185879.1			myosin XVI									p.M1705I(1)		NS(3)|breast(4)|central_nervous_system(2)|endometrium(10)|kidney(8)|large_intestine(27)|lung(51)|ovary(9)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	121	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)			AAACTAACATGAACATAAGTA	0.284																																																1	Substitution - Missense(1)	kidney(1)											43	43	43					13																	109817265		2203	4300	6503	SO:0001583	missense	23026				CCDS32008.1, CCDS73598.1	13q33.3	2014-06-12			ENSG00000041515	ENSG00000041515		"Myosins / Myosin superfamily : Class XVI", "Ankyrin repeat domain containing"	29822	protein-coding gene	gene with protein product	"neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adaptor 3", "protein phosphatase 1, regulatory subunit 107"	615479				11588169, 17029291, 21946561	Standard	NM_001198950		Approved	MYR8, KIAA0865, Myo16b, NYAP3, PPP1R107	uc001vqt.1	Q9Y6X6	OTTHUMG00000017333	ENST00000357550.2:c.5115G>A	13.37:g.109817265G>A	ENSP00000350160:p.Met1705Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000357550.2	37	CCDS32008.1	.	.	.	.	.	.	.	.	.	.	G	10.22	1.289250	0.23478	.	.	ENSG00000041515	ENST00000356711;ENST00000357550	T;T	0.79454	-1.27;-1.27	5.19	5.19	0.71726	.	0.180535	0.27143	U	0.020727	T	0.66317	0.2777	L	0.28274	0.84	0.80722	D	1	B	0.09022	0.002	B	0.04013	0.001	T	0.60239	-0.7302	9	.	.	.	.	15.8261	0.78709	0.0:0.0:1.0:0.0	.	1705	Q9Y6X6	MYO16_HUMAN	I	1705	ENSP00000349145:M1705I;ENSP00000350160:M1705I	.	M	+	3	0	MYO16	108615266	1.000000	0.71417	1.000000	0.80357	0.921000	0.55340	2.757000	0.47557	2.579000	0.87056	0.557000	0.71058	ATG		0.284	MYO16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045746.1	NM_015011		A	109817265	G	A	109817265	3	1	579	1	0	0	0	0	1	0	0	0	10071	1290	45	2	5241	2	MYO16	13	109817265	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08	60730385	109817265	5352613	30	34390										
LRP10	26020	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	23344975	23344975	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	ccacttcagcaatggcaaggCtgtcactgtggagacactgt	11	11	2	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr14:23344975C>G	ENST00000359591.4	+	5	1509	c.818C>G	c.(817-819)gCt>gGt	p.A273G	LRP10_ENST00000546834.1_Missense_Mutation_p.A273G	NM_014045.3	NP_054764.2	Q7Z4F1	LRP10_HUMAN	low density lipoprotein receptor-related protein 10	273	CUB 2. {ECO:0000255|PROSITE- ProRule:PRU00059}.				endocytosis (GO:0006897)	coated pit (GO:0005905)|integral component of membrane (GO:0016021)|membrane (GO:0016020)		p.A273G(1)		central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|liver(2)|lung(7)|ovary(2)|prostate(2)|skin(5)|stomach(1)|urinary_tract(2)	32	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.00549)		AATGGCAAGGCTGTCACTGTG	0.582																																																1	Substitution - Missense(1)	kidney(1)											94	77	83					14																	23344975		2203	4300	6503	SO:0001583	missense	26020			AF131760	CCDS9578.1	14q11.2	2013-05-29			ENSG00000197324	ENSG00000197324		"Low density lipoprotein receptors"	14553	protein-coding gene	gene with protein product		609921				11123907	Standard	XM_005267510		Approved	DKFZP564C1940, MGC8675, LRP9, MST087, MSTP087	uc001whd.3	Q7Z4F1	OTTHUMG00000028705	ENST00000359591.4:c.818C>G	14.37:g.23344975C>G	ENSP00000352601:p.Ala273Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4R5|D3DS31|O95882|Q14CK7|Q86T02|Q8NCZ4|Q9HC42|Q9UG33	Missense_Mutation	SNP	ENST00000359591.4	37	CCDS9578.1	.	.	.	.	.	.	.	.	.	.	C	17.75	3.466362	0.63625	.	.	ENSG00000197324	ENST00000359591;ENST00000546834	T;T	0.18810	2.19;2.19	5.97	5.97	0.96955	CUB (5);	0.161366	0.56097	D	0.000030	T	0.32763	0.0840	L	0.55481	1.735	0.37692	D	0.923875	D	0.61697	0.99	P	0.54759	0.76	T	0.04579	-1.0941	10	0.32370	T	0.25	-8.6813	13.1958	0.59738	0.0:0.9238:0.0:0.0762	.	273	Q7Z4F1	LRP10_HUMAN	G	273	ENSP00000352601:A273G;ENSP00000447559:A273G	ENSP00000352601:A273G	A	+	2	0	LRP10	22414815	0.035000	0.19736	1.000000	0.80357	0.994000	0.84299	2.846000	0.48262	2.837000	0.97791	0.655000	0.94253	GCT		0.582	LRP10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071663.3			G	23344975	C	G	23344975	3	3	579	1	0	0	0	0	1	0	0	0	8959	797	28	4	836	4	LRP10	14	23344975	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08		23344975	84004565	31	34391										
MLH3	27030	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	75515759	75515759	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	acgtctttggttttagggagCtgaagaaccatggaaccaga	12	7	1	3			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr14:75515759C>G	ENST00000556740.1	-	1	635	c.600G>C	c.(598-600)caG>caC	p.Q200H	MLH3_ENST00000355774.2_Missense_Mutation_p.Q200H|MLH3_ENST00000238662.7_Missense_Mutation_p.Q200H|MLH3_ENST00000544985.1_5'Flank|MLH3_ENST00000556257.1_Missense_Mutation_p.Q200H|MLH3_ENST00000555671.1_5'Flank|MLH3_ENST00000380968.2_5'UTR			Q9UHC1	MLH3_HUMAN	mutL homolog 3	200					ATP catabolic process (GO:0006200)|female meiosis I (GO:0007144)|male meiosis (GO:0007140)|mismatch repair (GO:0006298)|protein localization (GO:0008104)|reciprocal meiotic recombination (GO:0007131)|synaptonemal complex assembly (GO:0007130)	chiasma (GO:0005712)|male germ cell nucleus (GO:0001673)|mismatch repair complex (GO:0032300)|nucleus (GO:0005634)|synaptonemal complex (GO:0000795)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|centromeric DNA binding (GO:0019237)|chromatin binding (GO:0003682)|mismatched DNA binding (GO:0030983)|satellite DNA binding (GO:0003696)|single-stranded DNA binding (GO:0003697)	p.Q200H(2)		breast(5)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|liver(1)|lung(16)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	44				BRCA - Breast invasive adenocarcinoma(234;0.00688)		TTTTAGGGAGCTGAAGAACCA	0.373								Mismatch excision repair (MMR)																																								2	Substitution - Missense(2)	kidney(2)											46	45	45					14																	75515759		2203	4300	6503	SO:0001583	missense	27030			AF195657	CCDS9837.1, CCDS32123.1	14q24.3	2014-09-17	2013-09-12			ENSG00000119684			7128	protein-coding gene	gene with protein product		604395	"mutL (E. coli) homolog 3", "mutL homolog 3 (E. coli)"			10615123	Standard	XR_245681		Approved		uc001xrd.1	Q9UHC1		ENST00000556740.1:c.600G>C	14.37:g.75515759C>G	ENSP00000452316:p.Gln200His	Somatic		WXS	Illumina HiSeq	Phase_I	P49751|Q56DK9|Q9P292|Q9UHC0	Missense_Mutation	SNP	ENST00000556740.1	37	CCDS32123.1	.	.	.	.	.	.	.	.	.	.	C	12.65	2.001474	0.35320	.	.	ENSG00000119684	ENST00000355774;ENST00000238662;ENST00000556257;ENST00000556740	T;T;T;T	0.81330	-1.48;-1.48;-1.48;-1.48	5.91	-2.85	0.05734	Ribosomal protein S5 domain 2-type fold (1);ATPase-like, ATP-binding domain (2);	0.000000	0.85682	D	0.000000	D	0.82719	0.5098	L	0.39514	1.22	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.78846	-0.2043	10	0.59425	D	0.04	-8.0414	13.7491	0.62897	0.0:0.5399:0.0:0.4601	.	200;200	Q9UHC1-2;Q9UHC1	.;MLH3_HUMAN	H	200	ENSP00000348020:Q200H;ENSP00000238662:Q200H;ENSP00000451540:Q200H;ENSP00000452316:Q200H	ENSP00000238662:Q200H	Q	-	3	2	MLH3	74585512	0.974000	0.33945	0.587000	0.28692	0.951000	0.60555	0.243000	0.18106	-1.383000	0.02106	-0.797000	0.03246	CAG		0.373	MLH3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415006.1	NM_014381		G	75515759	C	G	75515759	3	3	579	1	0	0	0	0	1	0	0	0	9625	796	28	4	3809	4	MLH3	14	75515759	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	52170784	75515759	31833781	32	34392										
PPP4R4	57718	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	94741786	94741786	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	tactcccttaccgagtacttCccgtgggacaggtaactcag	9	13	1	0			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr14:94741786C>T	ENST00000304338.3	+	24	2679	c.2525C>T	c.(2524-2526)tCc>tTc	p.S842F		NM_058237.1	NP_478144.1	Q6NUP7	PP4R4_HUMAN	protein phosphatase 4, regulatory subunit 4	842					negative regulation of phosphoprotein phosphatase activity (GO:0032515)|regulation of protein serine/threonine phosphatase activity (GO:0080163)	cytoplasm (GO:0005737)|protein serine/threonine phosphatase complex (GO:0008287)	protein phosphatase regulator activity (GO:0019888)	p.S842F(1)		NS(1)|breast(2)|central_nervous_system(1)|kidney(2)|large_intestine(15)|lung(10)|skin(7)|upper_aerodigestive_tract(2)	40						CCGAGTACTTCCCGTGGGACA	0.448																																																1	Substitution - Missense(1)	kidney(1)											212	197	202					14																	94741786		2203	4300	6503	SO:0001583	missense	57718			AB046842, BC068491	CCDS9921.1, CCDS9922.1	14q32.2	2014-07-18	2008-09-16	2008-09-16	ENSG00000119698	ENSG00000119698		"Serine/threonine phosphatases / Protein phosphatase 4, regulatory subunits"	23788	protein-coding gene	gene with protein product	"cilia and flagella associated protein 14"		"KIAA1622"	KIAA1622		18715871	Standard	NM_020958		Approved	PP4R4, CFAP14	uc001ycs.1	Q6NUP7		ENST00000304338.3:c.2525C>T	14.37:g.94741786C>T	ENSP00000305924:p.Ser842Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BUF8|Q9HCF0	Missense_Mutation	SNP	ENST00000304338.3	37	CCDS9921.1	.	.	.	.	.	.	.	.	.	.	C	24.2	4.503603	0.85176	.	.	ENSG00000119698	ENST00000304338	.	.	.	6.02	6.02	0.97574	.	0.133902	0.51477	D	0.000082	T	0.66538	0.2799	L	0.32530	0.975	0.80722	D	1	D	0.63880	0.993	P	0.59487	0.858	T	0.66799	-0.5832	9	0.66056	D	0.02	-11.5946	20.5373	0.99239	0.0:1.0:0.0:0.0	.	842	Q6NUP7	PP4R4_HUMAN	F	842	.	ENSP00000305924:S842F	S	+	2	0	PPP4R4	93811539	1.000000	0.71417	1.000000	0.80357	0.884000	0.51177	5.457000	0.66672	2.857000	0.98124	0.650000	0.86243	TCC		0.448	PPP4R4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413056.1	NM_058237		T	94741786	C	T	94741786	3	4	579	1	0	0	0	0	1	0	0	0	12415	855	30	2	2692	2	PPP4R4	14	94741786	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	19226027	94741786	12607754	33	34393										
KIAA1199	57214	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	81172060	81172060	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	caatgctacctcttcaggcaAgctggtcattaaagaccacg	8	12	3	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr15:81172060A>G	ENST00000394685.3	+	5	664	c.245A>G	c.(244-246)aAg>aGg	p.K82R	KIAA1199_ENST00000220244.3_Missense_Mutation_p.K82R|KIAA1199_ENST00000356249.5_Missense_Mutation_p.K82R			Q8WUJ3	CEMIP_HUMAN		82	G8. {ECO:0000255|PROSITE- ProRule:PRU00817}.				hyaluronan catabolic process (GO:0030214)|positive regulation of cell migration (GO:0030335)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of protein kinase C activity (GO:1900020)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of release of sequestered calcium ion into cytosol (GO:0051281)|sensory perception of sound (GO:0007605)	clathrin-coated vesicle membrane (GO:0030665)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	clathrin heavy chain binding (GO:0032050)|ER retention sequence binding (GO:0046923)|hyaluronic acid binding (GO:0005540)|hyalurononglucosaminidase activity (GO:0004415)	p.K82R(1)		breast(4)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(10)|lung(14)|ovary(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	49						TCTTCAGGCAAGCTGGTCATT	0.527																																																1	Substitution - Missense(1)	kidney(1)											77	69	72					15																	81172060		2203	4300	6503	SO:0001583	missense	57214																														ENST00000394685.3:c.245A>G	15.37:g.81172060A>G	ENSP00000378177:p.Lys82Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6L9J5|Q9H1K5|Q9NPN9|Q9ULM1	Missense_Mutation	SNP	ENST00000394685.3	37	CCDS10315.1	.	.	.	.	.	.	.	.	.	.	A	9.941	1.217532	0.22373	.	.	ENSG00000103888	ENST00000220244;ENST00000394685;ENST00000356249;ENST00000394683	D;D;D	0.89485	-2.52;-2.52;-2.52	6.03	4.92	0.64577	G8 domain (2);	0.118551	0.53938	N	0.000052	D	0.91865	0.7425	L	0.53617	1.68	0.44789	D	0.997792	P	0.37781	0.608	P	0.59357	0.856	D	0.88829	0.3304	10	0.25751	T	0.34	-27.1059	11.8835	0.52589	0.9326:0.0:0.0674:0.0	.	82	Q8WUJ3	K1199_HUMAN	R	82	ENSP00000220244:K82R;ENSP00000378177:K82R;ENSP00000348583:K82R	ENSP00000220244:K82R	K	+	2	0	KIAA1199	78959115	1.000000	0.71417	0.997000	0.53966	0.037000	0.13140	5.328000	0.65887	1.108000	0.41662	0.533000	0.62120	AAG		0.527	KIAA1199-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000291389.1			G	81172060	A	G	81172060	3	3	579	1	0	0	0	0	1	0	0	0	8220	72	3	3	255	3	KIAA1199	15	81172060	Missense_Mutation	SNP	A	TCGA-EU-5904-01A-11D-1669-08		81172060	21359332	34	34394										
BTBD12	84464	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	3658538	3658538	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	gatctggagcagaggcaagcAcacccccctccccattcaca	8	17	2	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr16:3658538A>T	ENST00000294008.3	-	2	1068	c.428T>A	c.(427-429)gTg>gAg	p.V143E		NM_032444.2	NP_115820.2	Q8IY92	SLX4_HUMAN	SLX4 structure-specific endonuclease subunit	143	Interaction with SLX4IP, ERCC4 and MSH2.				DNA catabolic process, endonucleolytic (GO:0000737)|DNA double-strand break processing involved in repair via single-strand annealing (GO:0010792)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|double-strand break repair via homologous recombination (GO:0000724)|nucleotide-excision repair (GO:0006289)|positive regulation of catalytic activity (GO:0043085)|response to intra-S DNA damage checkpoint signaling (GO:0072429)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|Slx1-Slx4 complex (GO:0033557)	5'-flap endonuclease activity (GO:0017108)|enzyme activator activity (GO:0008047)	p.V143E(1)		breast(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(18)|lung(20)|ovary(3)|pancreas(1)|prostate(7)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	76						AGAGGCAAGCACACCCCCCTC	0.552								Direct reversal of damage																																								1	Substitution - Missense(1)	kidney(1)											102	99	100					16																	3658538		2197	4300	6497	SO:0001583	missense	84464			AB058687	CCDS10506.2	16p13.3	2014-09-17	2013-06-05	2010-09-13	ENSG00000188827	ENSG00000188827		"Fanconi anemia, complementation groups", "BTB/POZ domain containing"	23845	protein-coding gene	gene with protein product	"Fanconi anemia, complementation group P"	613278	"BTB (POZ) domain containing 12", "SLX4 structure-specific endonuclease subunit homolog (S. cerevisiae)"	BTBD12		11347906, 19595721	Standard	NM_032444		Approved	KIAA1784, KIAA1987, FANCP	uc002cvp.2	Q8IY92	OTTHUMG00000074089	ENST00000294008.3:c.428T>A	16.37:g.3658538A>T	ENSP00000294008:p.Val143Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q69YT8|Q8TF15|Q96JP1	Missense_Mutation	SNP	ENST00000294008.3	37	CCDS10506.2	.	.	.	.	.	.	.	.	.	.	A	18.01	3.528344	0.64860	.	.	ENSG00000188827	ENST00000294008	T	0.01725	4.67	5.53	-0.519	0.11939	.	1.022250	0.07842	N	0.963246	T	0.02193	0.0068	N	0.08118	0	0.09310	N	1	D	0.58620	0.983	P	0.54100	0.742	T	0.54248	-0.8322	10	0.72032	D	0.01	.	8.6206	0.33859	0.5599:0.0:0.4401:0.0	.	143	Q8IY92	SLX4_HUMAN	E	143	ENSP00000294008:V143E	ENSP00000294008:V143E	V	-	2	0	SLX4	3598539	0.001000	0.12720	0.000000	0.03702	0.004000	0.04260	0.863000	0.27913	-0.078000	0.12730	0.528000	0.53228	GTG		0.552	SLX4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157301.3	NM_032444		T	3658538	A	T	3658538	3	4	579	1	0	0	0	0	1	0	0	0	1542	159	6	5	5132	5	BTBD12	16	3658538	Missense_Mutation	SNP	A	TCGA-EU-5904-01A-11D-1669-08		3658538	86696215	35	34395										
GLYR1	84656	hgsc.bcm.edu;ucsc.edu	37	chr16	4867698	4867698	+	Splice_Site	DEL	C	C	-													0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	ccaaggcccaaaaatcctatCctgaaacagagagagactga							TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr16:4867698delC	ENST00000321919.9	-	10	883	c.807delG	c.(805-807)aag>aa	p.K269fs	GLYR1_ENST00000436648.5_Splice_Site_p.K188fs|GLYR1_ENST00000381983.3_Splice_Site_p.K252fs|GLYR1_ENST00000591451.1_Splice_Site_p.K269fs	NM_032569.3	NP_115958	Q49A26	GLYR1_HUMAN	glyoxylate reductase 1 homolog (Arabidopsis)	269					pentose-phosphate shunt (GO:0006098)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)	DNA binding (GO:0003677)|methylated histone binding (GO:0035064)|NAD binding (GO:0051287)|phosphogluconate dehydrogenase (decarboxylating) activity (GO:0004616)			endometrium(1)|kidney(1)|large_intestine(7)|lung(6)|prostate(2)|skin(1)|urinary_tract(1)	19						AAAATCCTATCCTGAAACAGA	0.507																																																0													118	107	111					16																	4867698		2197	4300	6497	SO:0001630	splice_region_variant	84656			AF244907	CCDS10524.1	16p13.3	2010-02-17			ENSG00000140632	ENSG00000140632			24434	protein-coding gene	gene with protein product	"nuclear protein 60kDa"	610660				16352664	Standard	NM_032569		Approved	BM045, HIBDL, NP60, N-PAC	uc002cxx.4	Q49A26	OTTHUMG00000129530	ENST00000321919.9:c.807-1G>-	16.37:g.4867698delC		Somatic		WXS	Illumina HiSeq	Phase_I	B4DL47|C9JJ40|C9JJ60|Q5U632|Q6P1Q2|Q6V3W7|Q9BTI1|Q9BXK2	Frame_Shift_Del	DEL	ENST00000321919.9	37	CCDS10524.1																																																																																				0.507	GLYR1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251717.2	NM_032569	Frame_Shift_Del	-	4867698	C	-	4867698	8	5	579	1	0	1	0	1	0	0	1	0	6490	869	30	0	882	0	GLYR1	16	4867698	Splice_Site	DEL	C	TCGA-EU-5904-01A-11D-1669-08	1209160	4867698	85487055	36	34396										
HSF4	3299	broad.mit.edu	37	chr16	67199696	67199696	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	gcgaccacgtcgagttccagCacccgagcttcgtgcgcggc	13	16	0	0			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr16:67199696C>A	ENST00000521374.1	+	3	307	c.307C>A	c.(307-309)Cac>Aac	p.H103N	HSF4_ENST00000264009.8_Missense_Mutation_p.H103N|HSF4_ENST00000584272.1_Missense_Mutation_p.H103N|HSF4_ENST00000421453.1_Missense_Mutation_p.H103N			Q9ULV5	HSF4_HUMAN	heat shock transcription factor 4	103					camera-type eye development (GO:0043010)|cell development (GO:0048468)|histone H3-K9 demethylation (GO:0033169)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of cell differentiation (GO:0045597)|positive regulation of cell proliferation (GO:0008284)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein homotrimerization (GO:0070207)|regulation of transcription, DNA-templated (GO:0006355)|response to stress (GO:0006950)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	protein phosphatase binding (GO:0019903)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)	p.H103N(1)		central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(1)|lung(3)|prostate(1)|skin(1)	12		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.0335)|all cancers(182;0.184)		CGAGTTCCAGCACCCGAGCTT	0.706																																																1	Substitution - Missense(1)	kidney(1)											11	15	14					16																	67199696		1978	4151	6129	SO:0001583	missense	3299			D87673	CCDS42175.1, CCDS45510.1	16q21	2013-01-22			ENSG00000102878	ENSG00000102878			5227	protein-coding gene	gene with protein product		602438	"cataract, Marner"	CTM		8972228, 10488131, 12089525	Standard	NM_001538		Approved		uc002erl.2	Q9ULV5	OTTHUMG00000178325	ENST00000521374.1:c.307C>A	16.37:g.67199696C>A	ENSP00000430947:p.His103Asn	Somatic		WXS	Illumina GAIIx	Phase_I	Q99472|Q9ULV6	Missense_Mutation	SNP	ENST00000521374.1	37	CCDS42175.1	.	.	.	.	.	.	.	.	.	.	C	29.3	4.997273	0.93167	.	.	ENSG00000102878	ENST00000421453;ENST00000264009;ENST00000517685;ENST00000521374;ENST00000517729	D;D;D;D;D	0.91740	-2.9;-2.9;-2.9;-2.9;-2.9	4.86	4.86	0.63082	Winged helix-turn-helix transcription repressor DNA-binding (1);Heat shock factor (HSF)-type, DNA-binding (2);	0.000000	0.85682	D	0.000000	D	0.91643	0.7359	N	0.20328	0.56	0.80722	D	1	D;B	0.71674	0.998;0.349	D;B	0.79108	0.992;0.153	D	0.88322	0.2963	10	0.12766	T	0.61	-2.2415	16.7364	0.85448	0.0:1.0:0.0:0.0	.	103;103	Q9ULV5-2;Q9ULV5	.;HSF4_HUMAN	N	103;103;103;103;61	ENSP00000408815:H103N;ENSP00000264009:H103N;ENSP00000428978:H103N;ENSP00000430947:H103N;ENSP00000430299:H61N	ENSP00000264009:H103N	H	+	1	0	HSF4	65757197	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.490000	0.81461	2.521000	0.84997	0.561000	0.74099	CAC		0.706	HSF4-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375080.1	NM_001538		A	67199696	C	A	67199696	3	1	579	1	0	0	0	0	1	0	0	0	7405	710	25	4	317	4	HSF4	16	67199696	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	62331998	67199696	23155057	37	34397										
CIRH1A	84916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	69199341	69199341	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	ttggctccaaagggatactcCtatcacacacatcagttttc	6	12	2	0			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr16:69199341C>G	ENST00000314423.7	+	15	1922	c.1745C>G	c.(1744-1746)cCt>cGt	p.P582R	CIRH1A_ENST00000352319.4_Missense_Mutation_p.P467R|CIRH1A_ENST00000563094.1_Missense_Mutation_p.P582R			Q969X6	CIR1A_HUMAN	cirrhosis, autosomal recessive 1A (cirhin)	582					maturation of SSU-rRNA (GO:0030490)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleolus (GO:0005730)|t-UTP complex (GO:0034455)	poly(A) RNA binding (GO:0044822)	p.P582R(1)		breast(2)|endometrium(1)|kidney(3)|large_intestine(4)|lung(4)|prostate(1)|urinary_tract(1)	16				OV - Ovarian serous cystadenocarcinoma(108;0.125)		AGGGATACTCCTATCACACAC	0.468																																					Melanoma(69;1156 1278 4951 8715 52012)											1	Substitution - Missense(1)	kidney(1)											181	144	157					16																	69199341		2198	4300	6498	SO:0001583	missense	84916			AB075868	CCDS10872.1	16q22	2014-04-07			ENSG00000141076	ENSG00000141076		"WD repeat domain containing"	1983	protein-coding gene	gene with protein product	"UTP4, small subunit (SSU) processome component, homolog (yeast)"	607456				10820129, 20385600	Standard	NM_032830		Approved	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4	uc002ews.4	Q969X6	OTTHUMG00000137570	ENST00000314423.7:c.1745C>G	16.37:g.69199341C>G	ENSP00000327179:p.Pro582Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NCD9|Q8TF14|Q96SP0|Q96SR9|Q96SZ9|Q96T13|Q9BWK6	Missense_Mutation	SNP	ENST00000314423.7	37	CCDS10872.1	.	.	.	.	.	.	.	.	.	.	C	26.6	4.756341	0.89843	.	.	ENSG00000141076	ENST00000314423;ENST00000352319	T;T	0.44881	1.5;0.91	6.17	6.17	0.99709	.	0.000000	0.85682	D	0.000000	T	0.64627	0.2615	M	0.73598	2.24	0.80722	D	1	D;D	0.89917	0.988;1.0	P;D	0.91635	0.809;0.999	T	0.55237	-0.8172	10	0.13108	T	0.6	.	19.6509	0.95805	0.0:1.0:0.0:0.0	.	582;582	Q969X6;Q969X6-3	CIR1A_HUMAN;.	R	582;467	ENSP00000327179:P582R;ENSP00000339164:P467R	ENSP00000327179:P582R	P	+	2	0	CIRH1A	67756842	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	6.736000	0.74811	2.941000	0.99782	0.655000	0.94253	CCT		0.468	CIRH1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268950.2	NM_032830		G	69199341	C	G	69199341	3	3	579	1	0	0	0	0	1	0	0	0	3436	681	24	4	1799	4	CIRH1A	16	69199341	Missense_Mutation	SNP	C	TCGA-EU-5904-01A-11D-1669-08	1999645	69199341	21155412	38	34398										
KIAA0100	9703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	26961748	26961748	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	catgggtgtgttgccatagaGacgacgggaacgctggatgt	16	7	0	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr17:26961748G>C	ENST00000528896.2	-	16	2931	c.2857C>G	c.(2857-2859)Ctc>Gtc	p.L953V	KIAA0100_ENST00000544884.1_Missense_Mutation_p.L810V|RP11-192H23.7_ENST00000583787.1_RNA|RP11-192H23.7_ENST00000577814.1_RNA|KIAA0100_ENST00000389003.3_Missense_Mutation_p.L810V	NM_014680.3	NP_055495.2	Q14667	K0100_HUMAN	KIAA0100	953						extracellular region (GO:0005576)		p.L953V(1)		breast(3)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(13)|lung(23)|ovary(2)|prostate(2)|skin(6)|stomach(2)|urinary_tract(3)	68	Lung NSC(42;0.00431)					TTGCCATAGAGACGACGGGAA	0.537																																																1	Substitution - Missense(1)	kidney(1)											121	121	121					17																	26961748		2203	4300	6503	SO:0001583	missense	9703			D43947	CCDS32595.1	17q11.2	2012-11-29			ENSG00000007202	ENSG00000007202			28960	protein-coding gene	gene with protein product	"cancer/testis antigen 101", "breast cancer overexpressed gene 1"	610664				16289875	Standard	NM_014680		Approved	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX	uc002hbu.3	Q14667	OTTHUMG00000166587	ENST00000528896.2:c.2857C>G	17.37:g.26961748G>C	ENSP00000436773:p.Leu953Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NCX3|Q3SYN5|Q49A07|Q5H9T4|Q6WG74|Q6ZP51|Q96HH8	Missense_Mutation	SNP	ENST00000528896.2	37	CCDS32595.1	.	.	.	.	.	.	.	.	.	.	G	18.68	3.675323	0.67928	.	.	ENSG00000007202	ENST00000005905;ENST00000389003;ENST00000528896;ENST00000544884	T;T;T	0.27890	1.98;1.64;1.64	5.9	5.9	0.94986	.	0.000000	0.85682	D	0.000000	T	0.56790	0.2009	M	0.66939	2.045	0.58432	D	0.999999	D	0.69078	0.997	D	0.78314	0.991	T	0.50482	-0.8823	10	0.45353	T	0.12	.	20.2651	0.98459	0.0:0.0:1.0:0.0	.	953	Q14667	K0100_HUMAN	V	953;923;953;810	ENSP00000467716:L923V;ENSP00000436773:L953V;ENSP00000446443:L810V	ENSP00000005905:L953V	L	-	1	0	KIAA0100	23985875	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.400000	0.79949	2.796000	0.96246	0.563000	0.77884	CTC		0.537	KIAA0100-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390571.3	NM_014680		C	26961748	G	C	26961748	3	2	579	1	0	0	0	0	1	0	0	0	8161	942	33	4	3946	4	KIAA0100	17	26961748	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08		26961748	54233462	39	34399										
ROCK1	6093	broad.mit.edu	37	chr18	18535179	18535179	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	gctctatacacatctccttgGgttacaggtctaacgtgaaa	8	10	3	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr18:18535179G>A	ENST00000399799.2	-	30	4480	c.3540C>T	c.(3538-3540)acC>acT	p.T1180T		NM_005406.2	NP_005397.1	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein kinase 1	1180	Auto-inhibitory.|PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				actin cytoskeleton organization (GO:0030036)|apical constriction (GO:0003383)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|bleb assembly (GO:0032060)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|leukocyte cell-cell adhesion (GO:0007159)|leukocyte migration (GO:0050900)|leukocyte tethering or rolling (GO:0050901)|membrane to membrane docking (GO:0022614)|myoblast migration (GO:0051451)|negative regulation of angiogenesis (GO:0016525)|negative regulation of neuron apoptotic process (GO:0043524)|positive regulation of focal adhesion assembly (GO:0051894)|protein phosphorylation (GO:0006468)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of cell adhesion (GO:0030155)|regulation of cell motility (GO:2000145)|regulation of establishment of cell polarity (GO:2000114)|regulation of focal adhesion assembly (GO:0051893)|regulation of keratinocyte differentiation (GO:0045616)|regulation of stress fiber assembly (GO:0051492)|Rho protein signal transduction (GO:0007266)|signal transduction (GO:0007165)|smooth muscle contraction (GO:0006939)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)	p.T1180T(1)		NS(1)|breast(4)|central_nervous_system(1)|large_intestine(8)|lung(2)	16	Melanoma(1;0.165)					CATCTCCTTGGGTTACAGGTC	0.299																																																1	Substitution - coding silent(1)	kidney(1)											10	10	10					18																	18535179		2147	4229	6376	SO:0001819	synonymous_variant	6093				CCDS11870.2	18q11.2	2013-01-10			ENSG00000067900	ENSG00000067900	2.7.11.1	"Pleckstrin homology (PH) domain containing"	10251	protein-coding gene	gene with protein product		601702				8617235	Standard	NM_005406		Approved	p160ROCK	uc002kte.3	Q13464	OTTHUMG00000131723	ENST00000399799.2:c.3540C>T	18.37:g.18535179G>A		Somatic		WXS	Illumina GAIIx	Phase_I	B0YJ91|Q2KHM4|Q59GZ4	Silent	SNP	ENST00000399799.2	37	CCDS11870.2																																																																																				0.299	ROCK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254641.2	NM_005406		A	18535179	G	A	18535179	2	1	579	1	0	0	0	0	0	0	0	1	13530	1219	43	2		2	ROCK1	18	18535179	Silent	SNP	G	TCGA-EU-5904-01A-11D-1669-08		18535179	59542069	40	34400										
ATP4A	495	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	36046491	36046491	+	Splice_Site	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	gatcacacaggcacgggcatCcctggggaggagatgggagg	18	9	1	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr19:36046491C>G	ENST00000262623.3	-	14	2036	c.2008G>C	c.(2008-2010)Gat>Cat	p.D670H		NM_000704.2	NP_000695.2	P20648	ATP4A_HUMAN	ATPase, H+/K+ exchanging, alpha polypeptide	670					ATP biosynthetic process (GO:0006754)|ATP hydrolysis coupled proton transport (GO:0015991)|ion transmembrane transport (GO:0034220)|pH reduction (GO:0045851)|regulation of proton transport (GO:0010155)|response to drug (GO:0042493)|transmembrane transport (GO:0055085)|transport (GO:0006810)	extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|hydrogen:potassium-exchanging ATPase activity (GO:0008900)|magnesium ion binding (GO:0000287)	p.D670H(1)		breast(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(12)|lung(26)|ovary(2)|prostate(2)|upper_aerodigestive_tract(1)	53	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)	GCACGGGCATCCCTGGGGAGG	0.637																																																1	Substitution - Missense(1)	kidney(1)											59	61	60					19																	36046491		2203	4300	6503	SO:0001630	splice_region_variant	495				CCDS12467.1	19q13.1	2010-04-20			ENSG00000105675	ENSG00000105675	3.6.3.10	"ATPases / P-type"	819	protein-coding gene	gene with protein product	"gastric H,K-ATPase alpha subunit", "H(+)-K(+)-ATPase alpha subunit", "proton pump"	137216				1330887	Standard	NM_000704		Approved	ATP6A	uc002oal.1	P20648	OTTHUMG00000048106	ENST00000262623.3:c.2007-1G>C	19.37:g.36046491C>G		Somatic		WXS	Illumina HiSeq	Phase_I	O00738	Missense_Mutation	SNP	ENST00000262623.3	37	CCDS12467.1	.	.	.	.	.	.	.	.	.	.	C	16.28	3.078503	0.55753	.	.	ENSG00000105675	ENST00000262623	D	0.94330	-3.4	4.97	4.97	0.65823	Haloacid dehalogenase-like hydrolase (1);HAD-like domain (1);	0.071059	0.51477	D	0.000084	D	0.94918	0.8357	L	0.42581	1.335	0.80722	D	1	D	0.59767	0.986	D	0.72625	0.978	D	0.95170	0.8289	10	0.66056	D	0.02	.	15.7722	0.78180	0.0:1.0:0.0:0.0	.	670	P20648	ATP4A_HUMAN	H	670	ENSP00000262623:D670H	ENSP00000262623:D670H	D	-	1	0	ATP4A	40738331	1.000000	0.71417	1.000000	0.80357	0.168000	0.22595	4.821000	0.62679	2.595000	0.87683	0.462000	0.41574	GAT		0.637	ATP4A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109470.2	NM_000704	Missense_Mutation	G	36046491	C	G	36046491	5	3	579	1	0	0	0	0	0	0	1	0	1145	869	30	4	1135	4	ATP4A	19	36046491	Splice_Site	SNP	C	TCGA-EU-5904-01A-11D-1669-08		36046491	23082492	41	34401										
TUBA8	51807	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	18609612	18609612	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	cacgaacagctctctgtggcCgagataaccagctcctgctt	9	14	1	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr22:18609612C>A	ENST00000330423.3	+	4	940	c.867C>A	c.(865-867)gcC>gcA	p.A289A	TUBA8_ENST00000316027.6_Silent_p.A223A	NM_018943.2	NP_061816.1	Q9NY65	TBA8_HUMAN	tubulin, alpha 8	289					microtubule-based process (GO:0007017)|protein polymerization (GO:0051258)	cytoplasm (GO:0005737)|microtubule (GO:0005874)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)	p.A289A(1)		breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(5)|prostate(1)	14						TCTCTGTGGCCGAGATAACCA	0.602																																																1	Substitution - coding silent(1)	kidney(1)											112	92	99					22																	18609612		2203	4300	6503	SO:0001819	synonymous_variant	51807			AJ245922	CCDS13751.1, CCDS54495.1	22q11	2005-06-11			ENSG00000183785	ENSG00000183785		"Tubulins"	12410	protein-coding gene	gene with protein product		605742		TUBAL2		10772959, 10591208	Standard	NM_001193414		Approved		uc002znv.2	Q9NY65	OTTHUMG00000150097	ENST00000330423.3:c.867C>A	22.37:g.18609612C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RCX2|B3KPW9|B4DWG3|Q2M3N4	Silent	SNP	ENST00000330423.3	37	CCDS13751.1																																																																																				0.602	TUBA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316232.3	NM_018943		A	18609612	C	A	18609612	2	1	579	1	0	0	0	0	0	0	0	1	16762	639	23	4		4	TUBA8	22	18609612	Silent	SNP	C	TCGA-EU-5904-01A-11D-1669-08		18609612	32694954	42	34402										
PI4KA	5297	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	21115600	21115600	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	taatgagcttaccagatttgTctttctgaatagctttatcc	6	8	2	3			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chr22:21115600T>C	ENST00000572273.1	-	23	2839	c.2609A>G	c.(2608-2610)gAc>gGc	p.D870G	PI4KA_ENST00000466162.1_5'UTR|PI4KA_ENST00000255882.6_Missense_Mutation_p.D928G			P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase, catalytic, alpha	870					phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi-associated vesicle membrane (GO:0030660)|membrane (GO:0016020)|plasma membrane (GO:0005886)	1-phosphatidylinositol 4-kinase activity (GO:0004430)|ATP binding (GO:0005524)	p.D870G(2)		breast(3)|endometrium(8)|kidney(9)|large_intestine(19)|lung(29)|ovary(1)|pancreas(1)|prostate(3)|salivary_gland(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	79	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)			ACCAGATTTGTCTTTCTGAAT	0.363																																					GBM(136;1332 1831 3115 23601 50806)											2	Substitution - Missense(2)	kidney(2)											106	95	99					22																	21115600		2203	4300	6503	SO:0001583	missense	5297			L36151	CCDS33603.1, CCDS33603.2	22q11.21	2011-05-25	2007-08-14	2007-08-02	ENSG00000241973	ENSG00000241973			8983	protein-coding gene	gene with protein product		600286		PIK4CA		7961848, 8662589	Standard	NM_002650		Approved	PI4K-ALPHA, pi4K230	uc002zsz.5	P42356	OTTHUMG00000167440	ENST00000572273.1:c.2609A>G	22.37:g.21115600T>C	ENSP00000458238:p.Asp870Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z625|Q9UPG2	Missense_Mutation	SNP	ENST00000572273.1	37		.	.	.	.	.	.	.	.	.	.	T	27.6	4.847298	0.91277	.	.	ENSG00000241973	ENST00000255882	.	.	.	5.29	5.29	0.74685	.	0.000000	0.85682	D	0.000000	T	0.77785	0.4182	M	0.78049	2.395	0.80722	D	1	D	0.55605	0.972	D	0.66716	0.946	T	0.76921	-0.2780	9	0.33141	T	0.24	-37.0067	15.3991	0.74823	0.0:0.0:0.0:1.0	.	870	P42356	PI4KA_HUMAN	G	870	.	ENSP00000255882:D870G	D	-	2	0	PI4KA	19445600	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.470000	0.80973	2.234000	0.73211	0.533000	0.62120	GAC		0.363	PI4KA-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_058004		C	21115600	T	C	21115600	3	2	579	1	0	0	0	0	1	0	0	0	11880	1667	58	3	3657	3	PI4KA	22	21115600	Missense_Mutation	SNP	T	TCGA-EU-5904-01A-11D-1669-08	2505988	21115600	30188966	43	34403										
XPNPEP2	7512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	128895243	128895243	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	gcattggcaacttcctgtgtGtgcatgagtgtaggtgtctc	13	8	1	1			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chrX:128895243G>T	ENST00000371106.3	+	17	1786	c.1594G>T	c.(1594-1596)Gtg>Ttg	p.V532L		NM_003399.5	NP_003390.4	O43895	XPP2_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 2, membrane-bound	532						anchored component of membrane (GO:0031225)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|plasma membrane (GO:0005886)	aminopeptidase activity (GO:0004177)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)	p.V532L(1)		endometrium(3)|kidney(3)|large_intestine(5)|liver(1)|lung(20)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)	37						CTTCCTGTGTGTGCATGAGTG	0.527																																																1	Substitution - Missense(1)	kidney(1)											141	106	117					X																	128895243		2203	4300	6503	SO:0001583	missense	7512			U90724	CCDS14613.1	Xq25	2008-02-05			ENSG00000122121	ENSG00000122121	3.4.11.9		12823	protein-coding gene	gene with protein product		300145				9375790, 9628831	Standard	NM_003399		Approved		uc004eut.1	O43895	OTTHUMG00000022373	ENST00000371106.3:c.1594G>T	X.37:g.128895243G>T	ENSP00000360147:p.Val532Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV16|O75994	Missense_Mutation	SNP	ENST00000371106.3	37	CCDS14613.1	.	.	.	.	.	.	.	.	.	.	G	19.92	3.915988	0.73098	.	.	ENSG00000122121	ENST00000371106	T	0.77489	-1.1	5.46	5.46	0.80206	Peptidase M24B, X-Pro dipeptidase/aminopeptidase P, conserved site (1);Peptidase M24, structural domain (3);	0.000000	0.85682	D	0.000000	D	0.91143	0.7211	H	0.94620	3.56	0.52099	D	0.999945	D	0.69078	0.997	D	0.68943	0.961	D	0.93617	0.6944	10	0.87932	D	0	-11.1729	16.9949	0.86365	0.0:0.0:1.0:0.0	.	532	O43895	XPP2_HUMAN	L	532	ENSP00000360147:V532L	ENSP00000360147:V532L	V	+	1	0	XPNPEP2	128722924	1.000000	0.71417	1.000000	0.80357	0.650000	0.38633	7.436000	0.80404	2.276000	0.75962	0.513000	0.50165	GTG		0.527	XPNPEP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058210.1	NM_003399		T	128895243	G	T	128895243	3	4	579	1	0	0	0	0	1	0	0	0	17455	1377	48	4	1660	4	XPNPEP2	23	128895243	Missense_Mutation	SNP	G	TCGA-EU-5904-01A-11D-1669-08		128895243	26375317	44	34404										
FAM58A	92002	broad.mit.edu;hgsc.bcm.edu	37	chrX	152860113	152860113	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	2	1	0.847846889952153	0.894949494949495	0.805454545454545	1	1	0	aagcgggagtccaattccagGggctcaccgcttgggttaaa	13	10	1	0			TCGA-EU-5904-01A-11D-1669-08	TCGA-EU-5904-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b13e89f1-683b-4261-94a1-e371d797237f	c4f88bd8-ef81-4eee-8ff3-8320fa1d4442	g.chrX:152860113G>C	ENST00000406277.2	-	5	417	c.315C>G	c.(313-315)ccC>ccG	p.P105P	FAM58A_ENST00000370175.4_5'UTR	NM_001130997.1|NM_152274.3	NP_001124469.1|NP_689487.2	Q8N1B3	FA58A_HUMAN	family with sequence similarity 58, member A	107					regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of transcription, DNA-templated (GO:0006355)			p.P73P(1)		endometrium(2)|kidney(1)|large_intestine(1)|liver(1)|lung(1)	6	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CCAATTCCAGGGGCTCACCGC	0.552																																																1	Substitution - coding silent(1)	kidney(1)											57	52	54					X																	152860113		2203	4300	6503	SO:0001819	synonymous_variant	92002			BC032121	CCDS76054.1	Xq28	2014-08-12	2012-11-30	2012-11-30	ENSG00000147382	ENSG00000262919			28434	protein-coding gene	gene with protein product	"cyclin M"	300708				18297069, 24218572	Standard	NM_152274		Approved	MGC29729, FLJ21610	uc011myr.2	Q8N1B3	OTTHUMG00000024206	ENST00000406277.2:c.315C>G	X.37:g.152860113G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q2I380|Q330J9|Q96IU5|Q9BUU1	Missense_Mutation	SNP	ENST00000406277.2	37		.	.	.	.	.	.	.	.	.	.	G	0.048	-1.259616	0.01445	.	.	ENSG00000147382	ENST00000429336;ENST00000440428	T;T	0.43688	0.94;0.94	4.81	0.899	0.19271	.	0.000000	0.85682	D	0.000000	T	0.47451	0.1446	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.38585	-0.9654	7	0.51188	T	0.08	-37.2143	8.713	0.34395	0.4609:0.0:0.5391:0.0	.	.	.	.	A	29;10	ENSP00000412865:P29A;ENSP00000402949:P10A	ENSP00000412865:P29A	P	-	1	0	FAM58A	152513307	0.011000	0.17503	0.029000	0.17559	0.003000	0.03518	-0.146000	0.10250	0.062000	0.16340	-0.297000	0.09499	CCT		0.552	FAM58A-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_152274		C	152860113	G	C	152860113	2	2	579	1	0	0	0	0	0	0	0	1	5597	1219	43	4		4	FAM58A	23	152860113	Silent	SNP	G	TCGA-EU-5904-01A-11D-1669-08	23964870	152860113	2410447	45	34405										
PHACTR4	65979	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	28785764	28785764	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tgataaatttaaagagacttCagaaggtgagatattaaggg	11	2	1	4			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr1:28785764C>A	ENST00000373839.3	+	3	446	c.185C>A	c.(184-186)tCa>tAa	p.S62*	PHACTR4_ENST00000373836.3_Nonsense_Mutation_p.S72*|PHACTR4_ENST00000493669.1_3'UTR	NM_001048183.1	NP_001041648.1	Q8IZ21	PHAR4_HUMAN	phosphatase and actin regulator 4	62					actin cytoskeleton organization (GO:0030036)|closure of optic fissure (GO:0061386)|enteric nervous system development (GO:0048484)|negative regulation of integrin-mediated signaling pathway (GO:2001045)|neural crest cell migration (GO:0001755)|neural tube closure (GO:0001843)|positive regulation of catalytic activity (GO:0043085)|regulation of cell cycle (GO:0051726)|Rho protein signal transduction (GO:0007266)	cytoplasm (GO:0005737)|lamellipodium (GO:0030027)	actin binding (GO:0003779)|protein phosphatase 1 binding (GO:0008157)|protein phosphatase type 1 activator activity (GO:0071862)	p.S72*(1)		NS(1)|biliary_tract(1)|breast(1)|endometrium(4)|kidney(4)|large_intestine(6)|lung(10)|ovary(3)|skin(1)|urinary_tract(1)	32		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;7.01e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)		OV - Ovarian serous cystadenocarcinoma(117;1.35e-21)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0144)|READ - Rectum adenocarcinoma(331;0.0649)		AAAGAGACTTCAGAAGGTGAG	0.358																																																1	Substitution - Nonsense(1)	kidney(1)											53	53	53					1																	28785764		1819	4084	5903	SO:0001587	stop_gained	65979			AF130081	CCDS41293.1, CCDS41294.1	1p35.2	2014-06-13			ENSG00000204138	ENSG00000204138		"Phosphatase and actin regulators"	25793	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 124"	608726				11483580, 15107502	Standard	NM_023923		Approved	FLJ13171, PPP1R124	uc001bpy.3	Q8IZ21	OTTHUMG00000003541	ENST00000373839.3:c.185C>A	1.37:g.28785764C>A	ENSP00000362945:p.Ser62*	Somatic		WXS	Illumina HiSeq	Phase_I	A2APK6|B9ZVW0|D3DPM3|Q68DD4|Q6NUN6|Q8N384|Q9H395|Q9H6X0|Q9H8W6	Nonsense_Mutation	SNP	ENST00000373839.3	37	CCDS41293.1	.	.	.	.	.	.	.	.	.	.	C	37	6.451314	0.97577	.	.	ENSG00000204138	ENST00000373839;ENST00000373836;ENST00000373838	.	.	.	5.07	5.07	0.68467	.	0.220504	0.40640	N	0.001044	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-5.7715	17.8049	0.88599	0.0:1.0:0.0:0.0	.	.	.	.	X	62;72;61	.	ENSP00000362942:S72X	S	+	2	0	PHACTR4	28658351	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	7.416000	0.80143	2.523000	0.85059	0.650000	0.86243	TCA		0.358	PHACTR4-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000009868.4	NM_023923		A	28785764	C	A	28785764	4	1	580	1	0	0	0	0	0	1	0	0	11819	838	29	4	241	4	PHACTR4	1	28785764	Nonsense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08		28785764	220464857	1	34406										
ZMYM1	79830	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	35579780	35579780	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	actatttgtatgtctggggaAatgttggcaaattttcgaaa	10	4	1	0			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr1:35579780A>T	ENST00000373330.1	+	11	2523	c.2349A>T	c.(2347-2349)gaA>gaT	p.E783D	ZMYM1_ENST00000359858.4_Missense_Mutation_p.E783D|ZMYM1_ENST00000373329.1_3'UTR			Q5SVZ6	ZMYM1_HUMAN	zinc finger, MYM-type 1	783						nucleus (GO:0005634)	nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)	p.E783D(1)		NS(1)|breast(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(5)|lung(8)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)	31		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TGTCTGGGGAAATGTTGGCAA	0.328																																																1	Substitution - Missense(1)	kidney(1)											87	85	85					1																	35579780		1840	4091	5931	SO:0001583	missense	79830			AK096206	CCDS41302.1	1p34.3	2008-05-02	2005-09-12		ENSG00000197056	ENSG00000197056		"Zinc fingers, MYM type"	26253	protein-coding gene	gene with protein product			"zinc finger, MYM domain containing 1"			12477932	Standard	XM_005271216		Approved	FLJ23151, MYM	uc001bym.3	Q5SVZ6	OTTHUMG00000004374	ENST00000373330.1:c.2349A>T	1.37:g.35579780A>T	ENSP00000362427:p.Glu783Asp	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPR7|Q7Z3Q4	Missense_Mutation	SNP	ENST00000373330.1	37	CCDS41302.1	.	.	.	.	.	.	.	.	.	.	A	9.833	1.188910	0.21954	.	.	ENSG00000197056	ENST00000359858;ENST00000373329;ENST00000373330	T;T;T	0.23754	1.89;1.89;1.89	4.24	4.24	0.50183	Ribonuclease H-like (1);	0.272701	0.26467	N	0.024217	T	0.41650	0.1168	L	0.51422	1.61	0.26899	N	0.967155	D;D	0.64830	0.994;0.984	D;D	0.70716	0.97;0.956	T	0.12682	-1.0538	9	.	.	.	-18.8099	11.9416	0.52905	1.0:0.0:0.0:0.0	.	764;783	B4DSJ9;Q5SVZ6	.;ZMYM1_HUMAN	D	783;708;783	ENSP00000352920:E783D;ENSP00000362426:E708D;ENSP00000362427:E783D	.	E	+	3	2	ZMYM1	35352367	1.000000	0.71417	0.777000	0.31699	0.004000	0.04260	0.917000	0.28665	2.138000	0.66242	0.455000	0.32223	GAA		0.328	ZMYM1-001	NOVEL	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012705.1	NM_024772		T	35579780	A	T	35579780	3	4	580	1	0	0	0	0	1	0	0	0	17711	11	1	5	2383	5	ZMYM1	1	35579780	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08	6794016	35579780	213670841	2	34407										
GBP1	2633	broad.mit.edu;hgsc.bcm.edu	37	chr1	89525013	89525013	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	aggatactacagttggtccaTagcctgctggttgatggttc	12	8	0	1			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr1:89525013T>C	ENST00000370473.4	-	4	634	c.415A>G	c.(415-417)Atg>Gtg	p.M139V		NM_002053.2	NP_002044.2	P32455	GBP1_HUMAN	guanylate binding protein 1, interferon-inducible	139	GB1/RHD3-type G.|GTPase domain (Globular).				cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|interferon-gamma-mediated signaling pathway (GO:0060333)	cytosol (GO:0005829)|extracellular region (GO:0005576)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|identical protein binding (GO:0042802)	p.M139V(1)		endometrium(7)|kidney(4)|large_intestine(8)|lung(6)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	30		Lung NSC(277;0.123)		all cancers(265;0.0156)|Epithelial(280;0.0291)		AGTTGGTCCATAGCCTGCTGG	0.522																																																1	Substitution - Missense(1)	kidney(1)											198	167	178					1																	89525013		2203	4300	6503	SO:0001583	missense	2633			BC002666	CCDS718.1	1p22.2	2011-03-09	2011-03-09		ENSG00000117228	ENSG00000117228			4182	protein-coding gene	gene with protein product		600411	"guanylate binding protein 1, interferon-inducible, 67kDa"			7518790	Standard	NM_002053		Approved		uc001dmx.2	P32455	OTTHUMG00000010614	ENST00000370473.4:c.415A>G	1.37:g.89525013T>C	ENSP00000359504:p.Met139Val	Somatic		WXS	Illumina HiSeq	Phase_I	D3DT26|Q5T8M1	Missense_Mutation	SNP	ENST00000370473.4	37	CCDS718.1	.	.	.	.	.	.	.	.	.	.	T	12.63	1.995692	0.35226	.	.	ENSG00000117228	ENST00000370473;ENST00000542693	T	0.74106	-0.81	4.6	4.6	0.57074	Guanylate-binding protein, N-terminal (1);	0.137477	0.64402	D	0.000009	T	0.60038	0.2238	M	0.66297	2.02	0.28799	N	0.898867	B	0.30033	0.266	B	0.33042	0.157	T	0.60281	-0.7294	10	0.51188	T	0.08	.	11.9789	0.53109	0.0:0.0:0.0:1.0	.	139	P32455	GBP1_HUMAN	V	139;102	ENSP00000359504:M139V	ENSP00000359504:M139V	M	-	1	0	GBP1	89297601	0.983000	0.35010	1.000000	0.80357	0.706000	0.40770	-0.127000	0.10547	1.720000	0.51447	0.254000	0.18369	ATG		0.522	GBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029289.3	NM_002053		C	89525013	T	C	89525013	3	2	580	1	0	0	0	0	1	0	0	0	6280	1406	49	3	1395	3	GBP1	1	89525013	Missense_Mutation	SNP	T	TCGA-EU-5905-01A-11D-1669-08	53945233	89525013	159725608	3	34408										
BTBD8	284697	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	92554272	92554272	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	taggcttctaagggaagaatTccatacagatgttaccttct	8	8	2	2			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr1:92554272T>G	ENST00000342818.3	+	2	403	c.167T>G	c.(166-168)tTc>tGc	p.F56C	BTBD8_ENST00000540648.1_Missense_Mutation_p.F56C|BTBD8_ENST00000370382.3_Missense_Mutation_p.F56C	NM_183242.3	NP_899065.2	Q5XKL5	BTBD8_HUMAN	BTB (POZ) domain containing 8	56						nucleus (GO:0005634)		p.F56C(1)		breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|lung(8)|ovary(1)	16		all_lung(203;0.0484)|Lung NSC(277;0.126)|Glioma(108;0.222)		all cancers(265;0.0153)|Epithelial(280;0.0982)		AGGGAAGAATTCCATACAGAT	0.308																																																1	Substitution - Missense(1)	kidney(1)											83	85	84					1																	92554272		2203	4300	6503	SO:0001583	missense	284697			AY346333	CCDS737.1	1p22.1	2013-01-08			ENSG00000189195	ENSG00000189195		"BTB/POZ domain containing"	21019	protein-coding gene	gene with protein product						14654994	Standard	NM_183242		Approved		uc001doo.3	Q5XKL5	OTTHUMG00000010289	ENST00000342818.3:c.167T>G	1.37:g.92554272T>G	ENSP00000343686:p.Phe56Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6V9S5	Missense_Mutation	SNP	ENST00000342818.3	37	CCDS737.1	.	.	.	.	.	.	.	.	.	.	T	14.23	2.473232	0.43942	.	.	ENSG00000189195	ENST00000370382;ENST00000342818;ENST00000540648	T;T;T	0.67698	-0.28;-0.28;-0.28	5.31	4.17	0.49024	BTB/POZ (1);BTB/POZ fold (2);	0.477968	0.19605	N	0.110281	T	0.37320	0.0999	L	0.37697	1.125	0.23174	N	0.99817	P	0.40731	0.728	B	0.38616	0.277	T	0.10382	-1.0632	10	0.36615	T	0.2	-10.4484	10.9475	0.47310	0.1406:0.0:0.0:0.8594	.	56	Q5XKL5	BTBD8_HUMAN	C	56	ENSP00000359408:F56C;ENSP00000343686:F56C;ENSP00000443397:F56C	ENSP00000343686:F56C	F	+	2	0	BTBD8	92326860	0.955000	0.32602	0.656000	0.29637	0.793000	0.44817	2.242000	0.43106	0.936000	0.37367	0.482000	0.46254	TTC		0.308	BTBD8-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000028372.1	NM_183242		G	92554272	T	G	92554272	3	3	580	1	0	0	0	0	1	0	0	0	1549	1783	62	5	173	5	BTBD8	1	92554272	Missense_Mutation	SNP	T	TCGA-EU-5905-01A-11D-1669-08	3029259	92554272	156696349	4	34409										
PRUNE	58497	hgsc.bcm.edu;ucsc.edu	37	chr1	150981137	150981138	+	Frame_Shift_Ins	INS	-	-	TGCT													0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tacctgcagggttgtcgagcINStgctctgcaggtaacgaatc					rs112740880	byFrequency	TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr1:150981137_150981138insTGCT	ENST00000271620.3	+	1	185_186	c.29_30insTGCT	c.(28-33)gctgctfs	p.-11fs	PRUNE_ENST00000368936.1_5'UTR|PRUNE_ENST00000368935.1_5'UTR|PRUNE_ENST00000368937.1_5'UTR|FAM63A_ENST00000312210.5_5'Flank|FAM63A_ENST00000493834.2_5'Flank|PRUNE_ENST00000271619.8_Frame_Shift_Ins_p.-11fs|FAM63A_ENST00000470877.1_5'Flank|PRUNE_ENST00000467771.1_3'UTR|FAM63A_ENST00000361738.6_5'Flank|FAM63A_ENST00000361936.5_5'Flank	NM_021222.1	NP_067045.1	Q86TP1	PRUNE_HUMAN	prune exopolyphosphatase							cell junction (GO:0030054)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	inorganic diphosphatase activity (GO:0004427)|metal ion binding (GO:0046872)			NS(1)|breast(2)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(5)|ovary(1)|upper_aerodigestive_tract(1)	14	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)			GGTTGTCGAGCTGCTCTGCAGG	0.609																																																0																																										SO:0001589	frameshift_variant	58497			U67085	CCDS977.1	1q21.2	2013-04-29	2013-04-29		ENSG00000143363	ENSG00000143363	3.6.1.11		13420	protein-coding gene	gene with protein product			"prune homolog (Drosophila)"			10602478, 11687967, 18700747	Standard	NM_021222		Approved	DRES-17, HTCD37	uc001ewh.1	Q86TP1	OTTHUMG00000035062	ENST00000271620.3:c.30_33dupTGCT	1.37:g.150981138_150981141dupTGCT	ENSP00000271620:p.Ala11fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCH8|B4DFL7|Q5SZF9|Q659E5|Q6P4E0|Q8N654|Q96JU5|Q9C071|Q9C072|Q9UIV0	Frame_Shift_Ins	INS	ENST00000271620.3	37	CCDS977.1																																																																																				0.609	PRUNE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084885.1	NM_021222		TGCT	150981138	-	TGCT	150981137	7	5	580	1	0	1	1	0	0	0	0	0	12650	797	28	0	31	0	PRUNE	1	150981137	Frame_Shift_Ins	INS	-	TCGA-EU-5905-01A-11D-1669-08	58426865	150981137	98269484	5	34410										
ADAMTS4	9507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	161166010	161166010	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tggagcccatcatcctccacAatggcacagctccgagccgg	10	16	1	0			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr1:161166010A>T	ENST00000367996.5	-	3	1469	c.1041T>A	c.(1039-1041)atT>atA	p.I347I	ADAMTS4_ENST00000478394.1_5'Flank|ADAMTS4_ENST00000367995.3_3'UTR	NM_005099.4	NP_005090.3	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 4	347	Peptidase M12B. {ECO:0000255|PROSITE- ProRule:PRU00276}.				defense response to bacterium (GO:0042742)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|proteolysis (GO:0006508)|skeletal system development (GO:0001501)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|peptidase activity (GO:0008233)|protease binding (GO:0002020)|zinc ion binding (GO:0008270)	p.I347I(2)		central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(20)|ovary(4)|prostate(3)|skin(1)|urinary_tract(1)	43	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)		Tinzaparin(DB06822)	CATCCTCCACAATGGCACAGC	0.577																																																2	Substitution - coding silent(2)	kidney(2)											104	98	100					1																	161166010		2203	4300	6503	SO:0001819	synonymous_variant	9507			AB014588	CCDS1223.1	1q31-q32	2008-02-05	2005-08-19		ENSG00000158859	ENSG00000158859		"ADAM metallopeptidases with thrombospondin type 1 motif"	220	protein-coding gene	gene with protein product		603876	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 4"			10094461	Standard	NM_005099		Approved	KIAA0688, ADAMTS-2, ADMP-1	uc001fyt.4	O75173	OTTHUMG00000034349	ENST00000367996.5:c.1041T>A	1.37:g.161166010A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VTW2|Q6P4Q8|Q6UWA8|Q9UN83	Silent	SNP	ENST00000367996.5	37	CCDS1223.1																																																																																				0.577	ADAMTS4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083066.2	NM_005099		T	161166010	A	T	161166010	2	4	580	1	0	0	0	0	0	0	0	1	268	126	5	5		5	ADAMTS4	1	161166010	Silent	SNP	A	TCGA-EU-5905-01A-11D-1669-08	10184873	161166010	88084611	6	34411										
CCT4	10575	hgsc.bcm.edu;ucsc.edu	37	chr2	62104113	62104114	+	Frame_Shift_Ins	INS	-	-	T													0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	aatcttggccttttcaactcINStggttatgccagaatttgac							TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr2:62104113_62104114insT	ENST00000394440.3	-	7	1014_1015	c.718_719insA	c.(718-720)agafs	p.R240fs	CCT4_ENST00000544079.1_Frame_Shift_Ins_p.R210fs|AC107081.5_ENST00000425779.1_RNA|CCT4_ENST00000538252.1_Frame_Shift_Ins_p.R184fs|CCT4_ENST00000544185.1_Frame_Shift_Ins_p.R90fs|CCT4_ENST00000461540.2_5'UTR	NM_006430.3	NP_006421.2	P50991	TCPD_HUMAN	chaperonin containing TCP1, subunit 4 (delta)	240					'de novo' posttranslational protein folding (GO:0051084)|binding of sperm to zona pellucida (GO:0007339)|cellular protein metabolic process (GO:0044267)|protein folding (GO:0006457)	cell body (GO:0044297)|centrosome (GO:0005813)|chaperonin-containing T-complex (GO:0005832)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|nucleus (GO:0005634)|zona pellucida receptor complex (GO:0002199)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|unfolded protein binding (GO:0051082)			breast(1)|large_intestine(2)|lung(6)|ovary(2)	11	Lung NSC(7;0.035)|all_lung(7;0.0691)		LUSC - Lung squamous cell carcinoma(7;6.5e-06)|Epithelial(17;0.0647)|all cancers(80;0.221)			CTTTTCAACTCTGGTTATGCCA	0.406																																																0																																										SO:0001589	frameshift_variant	10575				CCDS33206.1, CCDS58711.1	2p15	2011-09-02			ENSG00000115484	ENSG00000115484		"Heat Shock Proteins / Chaperonins"	1617	protein-coding gene	gene with protein product		605142				9819444	Standard	NM_001256721		Approved	Cctd	uc002sbo.4	P50991	OTTHUMG00000152166	ENST00000394440.3:c.719dupA	2.37:g.62104114_62104114dupT	ENSP00000377958:p.Arg240fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6I3|B7Z8B1|F5H5W3|O14870|Q53QP9|Q96C51	Frame_Shift_Ins	INS	ENST00000394440.3	37	CCDS33206.1																																																																																				0.406	CCT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000325548.2			T	62104114	-	T	62104113	7	5	580	1	0	1	1	0	0	0	0	0	2957	913	32	0	932	0	CCT4	2	62104113	Frame_Shift_Ins	INS	-	TCGA-EU-5905-01A-11D-1669-08		62104113	181095260	7	34412										
MPHOSPH10	10199	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	71361866	71361866	+	Frame_Shift_Del	DEL	T	T	-													0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	ggaaactgaagatacaggtgTtttaaatgtaaagaaaaatt							TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr2:71361866delT	ENST00000244230.2	+	4	1389	c.1037delT	c.(1036-1038)gttfs	p.V346fs	MPHOSPH10_ENST00000498451.2_Frame_Shift_Del_p.V346fs	NM_005791.2	NP_005782.1	O00566	MPP10_HUMAN	M-phase phosphoprotein 10 (U3 small nucleolar ribonucleoprotein)	346					negative regulation of phosphatase activity (GO:0010923)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)|rRNA processing (GO:0006364)	chromosome (GO:0005694)|nucleolus (GO:0005730)|small nucleolar ribonucleoprotein complex (GO:0005732)	poly(A) RNA binding (GO:0044822)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(2)|pancreas(2)|skin(2)|stomach(1)	26						GATACAGGTGTTTTAAATGTA	0.294																																																0													63	73	69					2																	71361866		2202	4294	6496	SO:0001589	frameshift_variant	10199			X98494	CCDS1916.1	2p13.3	2014-06-12			ENSG00000124383	ENSG00000124383			7213	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 106"	605503				8885239, 9450966	Standard	NM_005791		Approved	MPP10, MPP10P, CT90, PPP1R106	uc002sht.2	O00566	OTTHUMG00000129715	ENST00000244230.2:c.1037delT	2.37:g.71361866delT	ENSP00000244230:p.Val346fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVJ8	Frame_Shift_Del	DEL	ENST00000244230.2	37	CCDS1916.1																																																																																				0.294	MPHOSPH10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251924.2	NM_005791		-	71361866	T	-	71361866	7	5	580	1	0	1	0	1	0	0	0	0	9732	1725	60	0	1051	0	MPHOSPH10	2	71361866	Frame_Shift_Del	DEL	T	TCGA-EU-5905-01A-11D-1669-08	9257753	71361866	171837507	8	34413	262	2								
MPHOSPH10	10199	hgsc.bcm.edu	37	chr2	71361870	71361870	+	Missense_Mutation	SNP	A	A	C													0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	actgaagatacaggtgttttAaatgtaaagaaaaattctga							TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr2:71361870A>C	ENST00000244230.2	+	4	1393	c.1041A>C	c.(1039-1041)ttA>ttC	p.L347F	MPHOSPH10_ENST00000498451.2_Missense_Mutation_p.L347F	NM_005791.2	NP_005782.1	O00566	MPP10_HUMAN	M-phase phosphoprotein 10 (U3 small nucleolar ribonucleoprotein)	347					negative regulation of phosphatase activity (GO:0010923)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)|rRNA processing (GO:0006364)	chromosome (GO:0005694)|nucleolus (GO:0005730)|small nucleolar ribonucleoprotein complex (GO:0005732)	poly(A) RNA binding (GO:0044822)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(2)|pancreas(2)|skin(2)|stomach(1)	26						CAGGTGTTTTAAATGTAAAGA	0.289																																																0													60	71	67					2																	71361870		2202	4295	6497	SO:0001583	missense	10199			X98494	CCDS1916.1	2p13.3	2014-06-12			ENSG00000124383	ENSG00000124383			7213	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 106"	605503				8885239, 9450966	Standard	NM_005791		Approved	MPP10, MPP10P, CT90, PPP1R106	uc002sht.2	O00566	OTTHUMG00000129715	ENST00000244230.2:c.1041A>C	2.37:g.71361870A>C	ENSP00000244230:p.Leu347Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVJ8	Missense_Mutation	SNP	ENST00000244230.2	37	CCDS1916.1	.	.	.	.	.	.	.	.	.	.	A	10.85	1.468183	0.26335	.	.	ENSG00000124383	ENST00000244230;ENST00000425650	T;T	0.11063	2.81;2.81	4.34	-0.0522	0.13823	.	0.865324	0.09828	N	0.750609	T	0.11965	0.0291	M	0.61703	1.905	0.22112	N	0.999352	B;B	0.21688	0.028;0.059	B;B	0.23275	0.018;0.045	T	0.32188	-0.9916	10	0.56958	D	0.05	.	6.1592	0.20354	0.3642:0.5343:0.1014:0.0	.	347;347	B3KPV5;O00566	.;MPP10_HUMAN	F	347;207	ENSP00000244230:L347F;ENSP00000393034:L207F	ENSP00000244230:L347F	L	+	3	2	MPHOSPH10	71215378	0.000000	0.05858	0.002000	0.10522	0.236000	0.25371	0.104000	0.15313	0.219000	0.20840	0.383000	0.25322	TTA		0.289	MPHOSPH10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251924.2	NM_005791		C	71361870	A	C	71361870	3	2	580	1	0	0	0	0	1	0	0	0	9732	359	13	5	1055	5	MPHOSPH10	2	71361870	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08	4	71361870	171837503	9	34414	262	2								
FIGN	55137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	164466509	164466509	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	gttagtacagtgtccagttgCatcagaaattcggttctcat	9	8	2	1			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr2:164466509C>G	ENST00000333129.3	-	3	2147	c.1833G>C	c.(1831-1833)atG>atC	p.M611I	FIGN_ENST00000409634.1_Intron|FIGN_ENST00000482917.1_5'Flank	NM_018086.2	NP_060556.2	Q5HY92	FIGN_HUMAN	fidgetin	611					mitotic nuclear division (GO:0007067)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|nuclear matrix (GO:0016363)	ATP binding (GO:0005524)	p.M611I(1)		breast(2)|endometrium(3)|kidney(2)|large_intestine(13)|lung(23)|ovary(1)|prostate(2)|skin(1)	47						TGTCCAGTTGCATCAGAAATT	0.443																																																1	Substitution - Missense(1)	kidney(1)											108	102	104					2																	164466509		1956	4153	6109	SO:0001583	missense	55137			AK001267	CCDS2221.2	2q24	2010-04-21			ENSG00000182263	ENSG00000182263		"ATPases / AAA-type"	13285	protein-coding gene	gene with protein product		605295				11017077	Standard	XM_005246661		Approved		uc002uck.1	Q5HY92	OTTHUMG00000074059	ENST00000333129.3:c.1833G>C	2.37:g.164466509C>G	ENSP00000333836:p.Met611Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWM0|Q9H6M5|Q9NVZ9	Missense_Mutation	SNP	ENST00000333129.3	37	CCDS2221.2	.	.	.	.	.	.	.	.	.	.	C	11.24	1.580047	0.28180	.	.	ENSG00000182263	ENST00000333129	D	0.94723	-3.5	5.47	5.47	0.80525	ATPase, AAA-type, core (1);ATPase, AAA+ type, core (1);	0.080649	0.85682	D	0.000000	D	0.88190	0.6370	N	0.03930	-0.32	0.80722	D	1	B	0.17667	0.023	B	0.29598	0.104	T	0.82506	-0.0423	10	0.25106	T	0.35	-14.8258	19.6959	0.96026	0.0:1.0:0.0:0.0	.	611	Q5HY92	FIGN_HUMAN	I	611	ENSP00000333836:M611I	ENSP00000333836:M611I	M	-	3	0	FIGN	164174755	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	3.212000	0.51145	2.729000	0.93468	0.467000	0.42956	ATG		0.443	FIGN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157220.2	NM_018086		G	164466509	C	G	164466509	3	3	580	1	0	0	0	0	1	0	0	0	5898	710	25	4	450	4	FIGN	2	164466509	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	93104639	164466509	78732864	10	34415										
VHL	7428	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	10188260	10188260	+	Frame_Shift_Del	DEL	T	T	-													0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	ttctggttaaccaaactgaaTtatttgtgccatctctcaat							TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr3:10188260delT	ENST00000256474.2	+	2	1243	c.403delT	c.(403-405)ttafs	p.L135fs	VHL_ENST00000345392.2_Intron|VHL_ENST00000477538.1_3'UTR	NM_000551.3	NP_000542.1	P40337	VHL_HUMAN	von Hippel-Lindau tumor suppressor, E3 ubiquitin protein ligase	135	Involved in binding to CCT complex.		L -> F (in hemangioblastoma). {ECO:0000269|PubMed:8069849}.		cell morphogenesis (GO:0000902)|cellular response to hypoxia (GO:0071456)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061428)|positive regulation of cell differentiation (GO:0045597)|positive regulation of transcription, DNA-templated (GO:0045893)|protein stabilization (GO:0050821)|protein ubiquitination (GO:0016567)|proteolysis (GO:0006508)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of transcription, DNA-templated (GO:0006355)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|intermediate filament cytoskeleton (GO:0045111)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	enzyme binding (GO:0019899)|transcription factor binding (GO:0008134)|ubiquitin protein ligase activity (GO:0061630)|ubiquitin-protein transferase activity (GO:0004842)	p.E134fs*24(1)|p.N131fs*7(1)|p.L135fs*9(1)|p.E134fs*7(1)		adrenal_gland(25)|autonomic_ganglia(3)|central_nervous_system(2)|endometrium(6)|kidney(1662)|large_intestine(14)|lung(6)|pancreas(18)|paratesticular_tissues(1)|pleura(1)|skin(1)|soft_tissue(24)|thyroid(3)|upper_aerodigestive_tract(3)	1769				Kidney(1;0.000404)|KIRC - Kidney renal clear cell carcinoma(1;0.000569)		CCAAACTGAATTATTTGTGCC	0.438		1	"D, Mis, N, F, S"		"renal, hemangioma, pheochromocytoma"	"renal, hemangioma, pheochromocytoma"			von Hippel-Lindau disease;Pheochromocytoma (Adrenal), Familial;Chuvash Polycythemia																													yes	Rec	yes	von Hippel-Lindau syndrome	3	3p25	7428	von Hippel-Lindau syndrome gene		"E, M, O"	4	Deletion - Frameshift(3)|Insertion - Frameshift(1)	kidney(4)											213	197	203					3																	10188260		2203	4300	6503	SO:0001589	frameshift_variant	7428	Familial Cancer Database	VHL; ;Erythrocytosis, Familial type 2	L15409	CCDS2597.1, CCDS2598.1	3p25.3	2014-09-17	2012-02-23		ENSG00000134086	ENSG00000134086			12687	protein-coding gene	gene with protein product		608537	"von Hippel-Lindau syndrome", "von Hippel-Lindau tumor suppressor"			9671762	Standard	NM_000551		Approved	VHL1	uc003bvc.3	P40337	OTTHUMG00000128668	ENST00000256474.2:c.403delT	3.37:g.10188260delT	ENSP00000256474:p.Leu135fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE45|Q13599|Q6PDA9	Frame_Shift_Del	DEL	ENST00000256474.2	37	CCDS2597.1																																																																																				0.438	VHL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250559.1	NM_000551		-	10188260	T	-	10188260	7	5	580	1	0	1	0	1	0	0	0	0	17174	1490	52	0	409	0	VHL	3	10188260	Frame_Shift_Del	DEL	T	TCGA-EU-5905-01A-11D-1669-08		10188260	187834170	11	34416										
ACVR2B	93	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	38519652	38519652	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tcacgtacgagccacccccgAcagcccccaccctgctcacg	7	22	2	0			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr3:38519652A>G	ENST00000352511.4	+	4	863	c.391A>G	c.(391-393)Aca>Gca	p.T131A		NM_001106.3	NP_001097.2	Q13705	AVR2B_HUMAN	activin A receptor, type IIB	131					activation of protein kinase activity (GO:0032147)|activin receptor signaling pathway (GO:0032924)|anterior/posterior pattern specification (GO:0009952)|artery development (GO:0060840)|blood vessel remodeling (GO:0001974)|BMP signaling pathway (GO:0030509)|determination of left/right symmetry (GO:0007368)|embryonic foregut morphogenesis (GO:0048617)|gastrulation with mouth forming second (GO:0001702)|heart development (GO:0007507)|insulin secretion (GO:0030073)|kidney development (GO:0001822)|lung development (GO:0030324)|lymphangiogenesis (GO:0001946)|lymphatic endothelial cell differentiation (GO:0060836)|mesoderm development (GO:0007498)|odontogenesis of dentin-containing tooth (GO:0042475)|organ growth (GO:0035265)|palate development (GO:0060021)|pancreas development (GO:0031016)|positive regulation of activin receptor signaling pathway (GO:0032927)|positive regulation of bone mineralization (GO:0030501)|positive regulation of osteoblast differentiation (GO:0045669)|post-embryonic development (GO:0009791)|regulation of transcription, DNA-templated (GO:0006355)|response to glucose (GO:0009749)|retina vasculature development in camera-type eye (GO:0061298)|signal transduction (GO:0007165)|skeletal system morphogenesis (GO:0048705)|transmembrane receptor protein serine/threonine kinase signaling pathway (GO:0007178)|venous blood vessel development (GO:0060841)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	ATP binding (GO:0005524)|growth factor binding (GO:0019838)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|receptor signaling protein serine/threonine kinase activity (GO:0004702)|transforming growth factor beta-activated receptor activity (GO:0005024)	p.T131A(1)		lung(1)	1	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0565)|Kidney(284;0.071)		GCCACCCCCGACAGCCCCCAC	0.632																																																1	Substitution - Missense(1)	kidney(1)											46	46	46					3																	38519652		2203	4300	6503	SO:0001583	missense	93			X77533	CCDS2679.1	3p22	2006-11-06			ENSG00000114739	ENSG00000114739			174	protein-coding gene	gene with protein product		602730				8161782, 9621519	Standard	NM_001106		Approved	ActR-IIB	uc003cif.3	Q13705	OTTHUMG00000131291	ENST00000352511.4:c.391A>G	3.37:g.38519652A>G	ENSP00000340361:p.Thr131Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VAV0	Missense_Mutation	SNP	ENST00000352511.4	37	CCDS2679.1	.	.	.	.	.	.	.	.	.	.	A	8.004	0.755967	0.15846	.	.	ENSG00000114739	ENST00000352511	D	0.83755	-1.76	4.77	3.52	0.40303	.	0.484226	0.22620	N	0.057703	T	0.61615	0.2361	N	0.08118	0	0.29923	N	0.822536	B	0.02656	0.0	B	0.06405	0.002	T	0.51498	-0.8698	10	0.08179	T	0.78	.	9.1721	0.37089	0.6703:0.3297:0.0:0.0	.	131	Q13705	AVR2B_HUMAN	A	131	ENSP00000340361:T131A	ENSP00000340361:T131A	T	+	1	0	ACVR2B	38494656	1.000000	0.71417	1.000000	0.80357	0.823000	0.46562	2.852000	0.48310	1.788000	0.52465	0.379000	0.24179	ACA		0.632	ACVR2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254059.3	NM_001106		G	38519652	A	G	38519652	3	3	580	1	0	0	0	0	1	0	0	0	224	275	10	3	405	3	ACVR2B	3	38519652	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08	28331392	38519652	159502778	12	34417										
LMOD3	56203	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	69168594	69168595	+	Frame_Shift_Ins	INS	-	-	T													0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	ttctattttcacgcaacatgINSttagccaaggcaaatgctac					rs373295911		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr3:69168594_69168595insT	ENST00000420581.2	-	2	1090_1091	c.911_912insA	c.(910-912)aacfs	p.N304fs	LMOD3_ENST00000489031.1_Frame_Shift_Ins_p.N304fs|LMOD3_ENST00000475434.1_Frame_Shift_Ins_p.N304fs	NM_198271.3	NP_938012.2	Q0VAK6	LMOD3_HUMAN	leiomodin 3 (fetal)	304						cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)				breast(2)|endometrium(2)|kidney(2)|large_intestine(3)|lung(3)|ovary(1)	13		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.88e-05)|Epithelial(33;0.000839)|LUSC - Lung squamous cell carcinoma(21;0.0119)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.205)|Kidney(39;0.24)		CACGCAACATGTTAGCCAAGGC	0.411																																																0																																										SO:0001589	frameshift_variant	56203			AK096900	CCDS46862.1	3p14.1	2003-03-07			ENSG00000163380	ENSG00000163380			6649	protein-coding gene	gene with protein product							Standard	NM_198271		Approved		uc003dns.2	Q0VAK6	OTTHUMG00000158774	ENST00000420581.2:c.912dupA	3.37:g.69168596_69168596dupT	ENSP00000414670:p.Asn304fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DT85|Q0JTT2|Q5JPG6|Q8IUK4|Q96LS4	Frame_Shift_Ins	INS	ENST00000420581.2	37	CCDS46862.1																																																																																				0.411	LMOD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352138.1	XM_067529		T	69168595	-	T	69168594	7	5	580	1	0	1	1	0	0	0	0	0	8865	1368	48	0	778	0	LMOD3	3	69168594	Frame_Shift_Ins	INS	-	TCGA-EU-5905-01A-11D-1669-08	30648942	69168594	128853836	13	34418										
CCDC37	348807	broad.mit.edu;hgsc.bcm.edu	37	chr3	126142411	126142411	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tggaggagcagaacctgtcgCtgatccagaacagccaggag	14	10	0	3			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr3:126142411C>A	ENST00000352312.1	+	13	1309	c.1210C>A	c.(1210-1212)Ctg>Atg	p.L404M	CCDC37_ENST00000393425.1_Missense_Mutation_p.L405M|CCDC37_ENST00000505024.1_Missense_Mutation_p.L405M	NM_182628.2	NP_872434.2	Q494V2	CCD37_HUMAN	coiled-coil domain containing 37	404								p.L404M(1)		NS(1)|autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(8)|lung(5)|ovary(1)|skin(3)	23				GBM - Glioblastoma multiforme(114;0.166)		GAACCTGTCGCTGATCCAGAA	0.597																																																1	Substitution - Missense(1)	kidney(1)											91	77	82					3																	126142411		2203	4300	6503	SO:0001583	missense	348807			AK097402	CCDS3037.1	3q21.2	2014-07-31			ENSG00000163885	ENSG00000163885			26842	protein-coding gene	gene with protein product						23569216	Standard	NM_182628		Approved	FLJ40083, MIA1	uc003eiu.1	Q494V2	OTTHUMG00000162691	ENST00000352312.1:c.1210C>A	3.37:g.126142411C>A	ENSP00000344749:p.Leu404Met	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNA8|Q494V1|Q494V4|Q8N838	Missense_Mutation	SNP	ENST00000352312.1	37	CCDS3037.1	.	.	.	.	.	.	.	.	.	.	C	17.95	3.513949	0.64522	.	.	ENSG00000163885	ENST00000352312;ENST00000393425;ENST00000505024	T;T;T	0.55930	0.49;0.49;0.49	4.93	4.06	0.47325	.	0.155787	0.43110	D	0.000611	T	0.69717	0.3142	M	0.82132	2.575	0.47621	D	0.999471	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.998	T	0.71189	-0.4666	10	0.72032	D	0.01	-22.0493	7.6787	0.28500	0.0:0.8088:0.0:0.1912	.	405;404	Q494V2-2;Q494V2	.;CCD37_HUMAN	M	404;405;405	ENSP00000344749:L404M;ENSP00000377076:L405M;ENSP00000423046:L405M	ENSP00000344749:L404M	L	+	1	2	CCDC37	127625101	0.986000	0.35501	0.813000	0.32504	0.962000	0.63368	2.685000	0.46959	1.081000	0.41110	0.491000	0.48974	CTG		0.597	CCDC37-001	KNOWN	basic|appris_candidate|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000370099.4	NM_182628		A	126142411	C	A	126142411	3	1	580	1	0	0	0	0	1	0	0	0	2811	796	28	4	1256	4	CCDC37	3	126142411	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	56973817	126142411	71880019	14	34419										
STAG1	10274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	136170989	136170989	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	gggtcatgtctgctaaatagCctggaaatgaaaaacagggc	12	7	2	1			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr3:136170989C>T	ENST00000383202.2	-	14	1570	c.1314G>A	c.(1312-1314)aaG>aaA	p.K438K	STAG1_ENST00000236698.5_Splice_Site_p.K438K|STAG1_ENST00000536929.1_Splice_Site_p.Q22Q|STAG1_ENST00000434713.2_Splice_Site_p.K212K	NM_005862.2	NP_005853.2	Q8WVM7	STAG1_HUMAN	stromal antigen 1	438					chromosome segregation (GO:0007059)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	cell junction (GO:0030054)|chromatin (GO:0000785)|chromosome (GO:0005694)|chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)	p.K438K(1)		NS(2)|breast(4)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(16)|lung(16)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	58						TGCTAAATAGCCTGGAAATGA	0.398																																																1	Substitution - coding silent(1)	kidney(1)											103	92	96					3																	136170989		2203	4300	6503	SO:0001630	splice_region_variant	10274			Z75330	CCDS3090.1	3q22.2-q22.3	2011-08-12			ENSG00000118007	ENSG00000118007			11354	protein-coding gene	gene with protein product		604358				9305759	Standard	XM_006713471		Approved	SA-1, SCC3A	uc003era.1	Q8WVM7	OTTHUMG00000159798	ENST00000383202.2:c.1314-1G>A	3.37:g.136170989C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O00539|Q6P275	Silent	SNP	ENST00000383202.2	37	CCDS3090.1	.	.	.	.	.	.	.	.	.	.	C	10.63	1.404987	0.25378	.	.	ENSG00000118007	ENST00000492318	.	.	.	5.51	-0.435	0.12279	.	.	.	.	.	T	0.58793	0.2147	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.54523	-0.8281	4	.	.	.	.	11.7569	0.51880	0.0:0.5001:0.0:0.4999	.	.	.	.	N	49	.	.	S	-	2	0	STAG1	137653679	0.401000	0.25303	0.872000	0.34217	0.979000	0.70002	-0.234000	0.09028	-0.161000	0.10983	0.591000	0.81541	AGC		0.398	STAG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357366.1	NM_005862	Silent	T	136170989	C	T	136170989	5	4	580	1	0	0	0	0	0	0	1	0	15254	753	26	2	2546	2	STAG1	3	136170989	Splice_Site	SNP	C	TCGA-EU-5905-01A-11D-1669-08	10028578	136170989	61851441	15	34420										
PDZD2	23037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	32059357	32059357	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tctcacagagccaagagttgGattaggcattggtgcctgct	12	9	1	2			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr5:32059357G>T	ENST00000438447.1	+	13	2601	c.2213G>T	c.(2212-2214)gGa>gTa	p.G738V	PDZD2_ENST00000282493.3_Missense_Mutation_p.G738V			O15018	PDZD2_HUMAN	PDZ domain containing 2	738	PDZ 4. {ECO:0000255|PROSITE- ProRule:PRU00143}.				cell adhesion (GO:0007155)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|nucleus (GO:0005634)		p.G738V(1)		NS(2)|breast(4)|central_nervous_system(5)|cervix(2)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(31)|lung(58)|ovary(6)|prostate(2)|skin(8)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	148						CCAAGAGTTGGATTAGGCATT	0.418																																																1	Substitution - Missense(1)	kidney(1)											74	64	67					5																	32059357		2203	4300	6503	SO:0001583	missense	23037			AB002298	CCDS34137.1	5p14.1	2008-02-05	2006-01-24	2006-01-24		ENSG00000133401			18486	protein-coding gene	gene with protein product		610697	"PDZ domain containing 3"	PDZK3		9205841	Standard	XM_005248271		Approved	KIAA0300	uc003jhm.3	O15018		ENST00000438447.1:c.2213G>T	5.37:g.32059357G>T	ENSP00000402033:p.Gly738Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BXD4	Missense_Mutation	SNP	ENST00000438447.1	37	CCDS34137.1	.	.	.	.	.	.	.	.	.	.	G	22.0	4.226954	0.79576	.	.	ENSG00000133401	ENST00000438447;ENST00000382161;ENST00000282493	T;T	0.27104	1.69;1.69	5.69	5.69	0.88448	PDZ/DHR/GLGF (3);	0.000000	0.44483	D	0.000459	T	0.65059	0.2655	H	0.95328	3.655	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.75830	-0.3179	10	0.87932	D	0	.	17.3087	0.87202	0.0:0.0:1.0:0.0	.	564;738	B4E3P2;O15018	.;PDZD2_HUMAN	V	738;557;738	ENSP00000402033:G738V;ENSP00000282493:G738V	ENSP00000282493:G738V	G	+	2	0	PDZD2	32095114	1.000000	0.71417	0.962000	0.40283	0.769000	0.43574	9.283000	0.95860	2.679000	0.91253	0.591000	0.81541	GGA		0.418	PDZD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366608.1			T	32059357	G	T	32059357	3	4	580	1	0	0	0	0	1	0	0	0	11708	1174	41	4	2259	4	PDZD2	5	32059357	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08		32059357	148855903	16	34421										
DDX4	54514	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	55056036	55056036	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tgtttgctttagaaatggatGatggaccttctcgaagagat	11	5	1	3			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr5:55056036G>A	ENST00000505374.1	+	4	228	c.136G>A	c.(136-138)Gat>Aat	p.D46N	DDX4_ENST00000508580.1_3'UTR|DDX4_ENST00000353507.5_Missense_Mutation_p.D46N|DDX4_ENST00000354991.5_Missense_Mutation_p.D46N|DDX4_ENST00000514278.2_Missense_Mutation_p.D46N|SLC38A9_ENST00000504880.1_Intron	NM_024415.2	NP_077726.1	Q9NQI0	DDX4_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 4	46					male meiosis I (GO:0007141)|multicellular organismal development (GO:0007275)|regulation of protein localization (GO:0032880)|sperm motility (GO:0030317)|spermatogenesis (GO:0007283)	chromatoid body (GO:0033391)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|pi-body (GO:0071546)|piP-body (GO:0071547)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|nucleic acid binding (GO:0003676)	p.D46N(1)		endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(4)|lung(8)|ovary(1)|skin(3)|upper_aerodigestive_tract(2)	24		Lung NSC(810;6.93e-05)|all_neural(839;0.00409)|Prostate(74;0.0107)|Breast(144;0.0544)|Ovarian(174;0.223)				AGAAATGGATGATGGACCTTC	0.388																																																1	Substitution - Missense(1)	kidney(1)											178	176	177					5																	55056036		2203	4300	6503	SO:0001583	missense	54514			AF262962	CCDS3969.1, CCDS47208.1, CCDS54854.1, CCDS54855.1	5p15.2-p13.1	2008-02-05	2003-06-13		ENSG00000152670	ENSG00000152670		"DEAD-boxes"	18700	protein-coding gene	gene with protein product		605281	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 4"			10920202, 11850529	Standard	NM_001142549		Approved	VASA	uc003jqg.4	Q9NQI0	OTTHUMG00000097044	ENST00000505374.1:c.136G>A	5.37:g.55056036G>A	ENSP00000424838:p.Asp46Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8Q2|B3KSF4|D6RDK4|E9PCD8|Q5M7Z3|Q86VX0|Q9NT92|Q9NYB1	Missense_Mutation	SNP	ENST00000505374.1	37	CCDS3969.1	.	.	.	.	.	.	.	.	.	.	G	13.69	2.312402	0.40895	.	.	ENSG00000152670	ENST00000353507;ENST00000514278;ENST00000505374;ENST00000506511;ENST00000506848;ENST00000514679;ENST00000354991;ENST00000511491	T;T;T;T;T;T;T	0.58060	1.94;1.94;1.98;3.46;0.45;1.94;0.36	4.86	4.0	0.46444	.	0.924655	0.09258	N	0.827037	T	0.37128	0.0992	N	0.19112	0.55	0.26454	N	0.975553	B;B;B	0.30361	0.277;0.005;0.181	B;B;B	0.33042	0.157;0.004;0.051	T	0.26467	-1.0102	10	0.14252	T	0.57	-33.1535	8.9224	0.35619	0.1005:0.0:0.8995:0.0	.	46;46;46	D6RDK4;Q9NQI0-2;Q9NQI0	.;.;DDX4_HUMAN	N	46	ENSP00000334167:D46N;ENSP00000425359:D46N;ENSP00000424838:D46N;ENSP00000427167:D46N;ENSP00000424112:D46N;ENSP00000347087:D46N;ENSP00000427522:D46N	ENSP00000334167:D46N	D	+	1	0	DDX4	55091793	1.000000	0.71417	1.000000	0.80357	0.839000	0.47603	3.949000	0.56668	1.271000	0.44313	-0.251000	0.11542	GAT		0.388	DDX4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214147.2	NM_024415		A	55056036	G	A	55056036	3	1	580	1	0	0	0	0	1	0	0	0	4362	1290	45	2	146	2	DDX4	5	55056036	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	22996679	55056036	125859224	17	34422										
PCDH1	5097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	141248528	141248529	+	Missense_Mutation	DNP	GA	GA	TT													0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tggccagagtgatgactggtGaggcgaagttgggtgtgttg					rs201001001		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G|A	G|A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr5:141248528_141248529GA>TT	ENST00000394536.3	-	2	647_648	c.508_509TC>AA	c.(508-510)TCa>AAa	p.S170K	PCDH1_ENST00000503492.1_Missense_Mutation_p.S170K|PCDH1_ENST00000456271.1_Missense_Mutation_p.S170K|PCDH1_ENST00000536585.1_Missense_Mutation_p.S148K|PCDH1_ENST00000511044.1_5'Flank|PCDH1_ENST00000287008.3_Missense_Mutation_p.S170K	NM_001278613.1|NM_001278615.1	NP_001265542.1|NP_001265544.1	Q08174	PCDH1_HUMAN	protocadherin 1	170	Cadherin 2. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell-cell signaling (GO:0007267)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	cell-cell junction (GO:0005911)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)	p.S170>?(1)|p.S170*(1)|p.S170T(1)		breast(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(4)|lung(20)|ovary(5)|skin(3)|upper_aerodigestive_tract(1)	51		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)		GATGACTGGTGAGGCGAAGTTG	0.559																																					Ovarian(132;1609 1739 4190 14731 45037)											3	Substitution - Nonsense(1)|Substitution - Missense(1)|Complex(1)	kidney(3)																																								SO:0001583	missense	5097			AK075233	CCDS4267.1, CCDS43375.1	5q31.3	2010-01-26	2007-02-12		ENSG00000156453	ENSG00000156453		"Cadherins / Protocadherins : Non-clustered"	8655	protein-coding gene	gene with protein product		603626	"protocadherin 1 (cadherin-like 1)"			8508762	Standard	NM_032420		Approved	pc42	uc003llp.3	Q08174	OTTHUMG00000129661	ENST00000394536.3:c.508_509delinsTT	5.37:g.141248528_141248529delinsTT	ENSP00000378043:p.Ser170Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUP2	Nonsense_Mutation|Missense_Mutation	SNP	ENST00000394536.3	37	CCDS43375.1																																																																																				0.559	PCDH1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000251862.1	NM_032420		TT	141248529	GA	TT	141248528	3	4	580	1	0	0	0	0	1	0	0	0	11513	1294	45	4	3304	4	PCDH1	5	141248528	Missense_Mutation	DNP	GA	TCGA-EU-5905-01A-11D-1669-08	86192492	141248528	39666732	18	34423										
CUTA	51596	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	33384503	33384503	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	gcaggtacggaaagttccccTgttccacaggcaatgcaatt	10	11	0	0			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr6:33384503T>C	ENST00000488034.1	-	6	585	c.464A>G	c.(463-465)cAg>cGg	p.Q155R	CUTA_ENST00000607266.1_Missense_Mutation_p.Q132R|CUTA_ENST00000494751.1_Intron|CUTA_ENST00000492510.1_5'Flank|CUTA_ENST00000374496.3_Missense_Mutation_p.Q132R|CUTA_ENST00000440279.3_Missense_Mutation_p.Q132R|CUTA_ENST00000374500.5_Missense_Mutation_p.Q174R|CUTA_ENST00000488478.1_Silent_p.T138T	NM_001014837.1|NM_001014838.1|NM_001014840.1|NM_015921.2	NP_001014837.1|NP_001014838.1|NP_001014840.1|NP_057005.1	O60888	CUTA_HUMAN	cutA divalent cation tolerance homolog (E. coli)	155					protein localization (GO:0008104)|response to metal ion (GO:0010038)	extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	enzyme binding (GO:0019899)	p.Q132R(1)	SLC22A1/CUTA(2)	kidney(1)|lung(3)|urinary_tract(1)	5						AAAGTTCCCCTGTTCCACAGG	0.517																																																1	Substitution - Missense(1)	kidney(1)											118	99	105					6																	33384503		2203	4300	6503	SO:0001583	missense	51596			AF106943	CCDS4779.1, CCDS34432.1, CCDS34433.1	6p21.32	2008-02-04	2006-02-15	2006-02-15	ENSG00000112514	ENSG00000112514			21101	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 82", "acetylcholinesterase-associated protein"	C6orf82, ACHAP			Standard	XM_006715108		Approved		uc003oen.1	O60888	OTTHUMG00000031254	ENST00000488034.1:c.464A>G	6.37:g.33384503T>C	ENSP00000417544:p.Gln155Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A2AB26|A2BEL4|Q3B784|Q5JXM9|Q5SU05|Q9NYQ9	Missense_Mutation	SNP	ENST00000488034.1	37	CCDS34433.1	.	.	.	.	.	.	.	.	.	.	T	19.62	3.861359	0.71949	.	.	ENSG00000112514	ENST00000374500;ENST00000440279;ENST00000488034;ENST00000374496	.	.	.	4.98	4.98	0.66077	Nitrogen regulatory PII-like, alpha/beta (1);	0.178753	0.50627	D	0.000113	T	0.34424	0.0897	N	0.25094	0.71	0.80722	D	1	P;P	0.50443	0.92;0.935	P;P	0.53988	0.699;0.739	T	0.12142	-1.0559	9	0.20519	T	0.43	-26.8813	10.9821	0.47501	0.0:0.0:0.0:1.0	.	174;155	O60888-2;O60888	.;CUTA_HUMAN	R	174;132;155;132	.	ENSP00000363620:Q132R	Q	-	2	0	CUTA	33492481	1.000000	0.71417	1.000000	0.80357	0.569000	0.35902	5.410000	0.66381	2.088000	0.63022	0.533000	0.62120	CAG		0.517	CUTA-008	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000076541.3	NM_015921		C	33384503	T	C	33384503	3	2	580	1	0	0	0	0	1	0	0	0	4064	1580	55	3	79	3	CUTA	6	33384503	Missense_Mutation	SNP	T	TCGA-EU-5905-01A-11D-1669-08		33384503	137730564	19	34424										
GNMT	27232	hgsc.bcm.edu;ucsc.edu	37	chr6	42929965	42929969	+	Frame_Shift_Del	DEL	GCTGG	GCTGG	-													0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	ctcagggtggactccattatGctggtggaagagggcttcag							TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	GCTGG	GCTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr6:42929965_42929969delGCTGG	ENST00000372808.3	+	2	232_236	c.222_226delGCTGG	c.(220-228)atgctggtgfs	p.MLV74fs		NM_018960.4	NP_061833.1	Q14749	GNMT_HUMAN	glycine N-methyltransferase	74					cellular protein modification process (GO:0006464)|glycogen metabolic process (GO:0005977)|methionine metabolic process (GO:0006555)|one-carbon metabolic process (GO:0006730)|protein homotetramerization (GO:0051289)|regulation of gluconeogenesis (GO:0006111)|S-adenosylmethionine metabolic process (GO:0046500)	cytoplasm (GO:0005737)	folic acid binding (GO:0005542)|glycine binding (GO:0016594)|glycine N-methyltransferase activity (GO:0017174)			kidney(2)|large_intestine(1)|lung(1)	4	Colorectal(47;0.196)		all cancers(41;0.00196)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0461)		Glycine(DB00145)|S-Adenosylmethionine(DB00118)	ACTCCATTATGCTGGTGGAAGAGGG	0.6																																																0																																										SO:0001589	frameshift_variant	27232			AF101475	CCDS4876.1	6p12	2008-02-05			ENSG00000124713	ENSG00000124713			4415	protein-coding gene	gene with protein product		606628				10843803, 9495250	Standard	NM_018960		Approved		uc003otd.3	Q14749	OTTHUMG00000014712	ENST00000372808.3:c.222_226delGCTGG	6.37:g.42929965_42929969delGCTGG	ENSP00000361894:p.Met74fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T8W2|Q9NNZ1|Q9NS24	Frame_Shift_Del	DEL	ENST00000372808.3	37	CCDS4876.1																																																																																				0.6	GNMT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040568.1	NM_018960		-	42929969	GCTGG	-	42929965	7	5	580	1	0	1	0	1	0	0	0	0	6547	1319	46	0	228	0	GNMT	6	42929965	Frame_Shift_Del	DEL	GCTGG	TCGA-EU-5905-01A-11D-1669-08	9545462	42929965	128185102	20	34425										
SGK1	6446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	134494169	134494169	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	ccccctgctcacctctccacCattaatgtagtctaggacaa	5	16	3	0			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr6:134494169C>G	ENST00000237305.7	-	6	629	c.541G>C	c.(541-543)Ggt>Cgt	p.G181R	SGK1_ENST00000489458.2_5'UTR|SGK1_ENST00000367858.5_Missense_Mutation_p.G276R|SGK1_ENST00000528577.1_Missense_Mutation_p.G209R|SGK1_ENST00000475719.2_Intron|SGK1_ENST00000413996.3_Missense_Mutation_p.G195R|SGK1_ENST00000367857.5_Missense_Mutation_p.G171R	NM_005627.3	NP_005618.2	O00141	SGK1_HUMAN	serum/glucocorticoid regulated kinase 1	181	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				apoptotic process (GO:0006915)|cellular response to DNA damage stimulus (GO:0006974)|ion transmembrane transport (GO:0034220)|long-term memory (GO:0007616)|positive regulation of transporter activity (GO:0032411)|protein phosphorylation (GO:0006468)|regulation of apoptotic process (GO:0042981)|regulation of blood pressure (GO:0008217)|regulation of catalytic activity (GO:0050790)|regulation of cell growth (GO:0001558)|regulation of cell migration (GO:0030334)|regulation of cell proliferation (GO:0042127)|regulation of gastric acid secretion (GO:0060453)|regulation of sequence-specific DNA binding transcription factor activity (GO:0051090)|renal sodium ion absorption (GO:0070294)|response to stress (GO:0006950)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|calcium channel regulator activity (GO:0005246)|chloride channel regulator activity (GO:0017081)|potassium channel regulator activity (GO:0015459)|protein serine/threonine kinase activity (GO:0004674)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|sodium channel regulator activity (GO:0017080)	p.G181R(1)|p.G209R(1)|p.G276R(1)|p.G171R(1)		central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(21)|kidney(3)|large_intestine(3)|lung(10)|ovary(1)|skin(4)|stomach(1)	46	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00317)|GBM - Glioblastoma multiforme(68;0.00847)		ACCTCTCCACCATTAATGTAG	0.428																																																4	Substitution - Missense(4)	kidney(4)											92	94	94					6																	134494169		2203	4300	6503	SO:0001583	missense	6446			AJ000512	CCDS5170.1, CCDS47476.1, CCDS47477.1, CCDS47478.1	6q23	2008-02-05	2007-12-05	2007-12-05	ENSG00000118515	ENSG00000118515			10810	protein-coding gene	gene with protein product		602958	"serum/glucocorticoid regulated kinase"	SGK		9114008, 9722955	Standard	NM_005627		Approved		uc003qeo.4	O00141	OTTHUMG00000015613	ENST00000237305.7:c.541G>C	6.37:g.134494169C>G	ENSP00000237305:p.Gly181Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7UUP7|B7UUP8|B7UUP9|B7Z5B2|E1P583|Q5TCN2|Q5TCN3|Q5TCN4|Q5VY65|Q9UN56	Missense_Mutation	SNP	ENST00000237305.7	37	CCDS5170.1	.	.	.	.	.	.	.	.	.	.	C	24.0	4.480934	0.84747	.	.	ENSG00000118515	ENST00000367858;ENST00000413996;ENST00000237305;ENST00000367857;ENST00000528577	T;T;T;T;T	0.11712	2.75;2.75;2.75;2.75;2.75	5.9	5.9	0.94986	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.33089	0.0851	M	0.84156	2.68	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.97110	1.0;1.0;1.0;1.0;1.0	T	0.09773	-1.0659	10	0.87932	D	0	.	20.2723	0.98479	0.0:1.0:0.0:0.0	.	209;195;171;276;181	O00141-5;O00141-3;O00141-4;O00141-2;O00141	.;.;.;.;SGK1_HUMAN	R	276;195;181;171;209	ENSP00000356832:G276R;ENSP00000396242:G195R;ENSP00000237305:G181R;ENSP00000356831:G171R;ENSP00000434450:G209R	ENSP00000237305:G181R	G	-	1	0	SGK1	134535862	1.000000	0.71417	0.966000	0.40874	0.540000	0.34992	7.818000	0.86416	2.793000	0.96121	0.563000	0.77884	GGT		0.428	SGK1-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042312.2			G	134494169	C	G	134494169	3	3	580	1	0	0	0	0	1	0	0	0	14220	594	21	4	782	4	SGK1	6	134494169	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	91564204	134494169	36620898	21	34426										
MYB	4602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	135516962	135516962	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	caccagacctcatggagacaGtgcacctgtttcctgtttgg	10	12	1	2			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr6:135516962G>A	ENST00000367814.4	+	9	1211	c.1025G>A	c.(1024-1026)aGt>aAt	p.S342N	MYB_ENST00000316528.8_Missense_Mutation_p.S342N|MYB_ENST00000531845.1_3'UTR|MYB_ENST00000534044.1_Missense_Mutation_p.S342N|MYB_ENST00000534121.1_Missense_Mutation_p.S342N|MYB_ENST00000528774.1_Missense_Mutation_p.S339N|MYB-AS1_ENST00000455534.1_RNA|MYB_ENST00000341911.5_Missense_Mutation_p.S342N|MYB_ENST00000442647.2_Missense_Mutation_p.S339N|MYB_ENST00000525369.1_Intron|MYB_ENST00000533624.1_Missense_Mutation_p.S307N|MYB_ENST00000527615.1_Missense_Mutation_p.S342N	NM_001161659.1|NM_005375.2	NP_001155131.1|NP_005366.2	P10242	MYB_HUMAN	v-myb avian myeloblastosis viral oncogene homolog	342	Negative regulatory domain. {ECO:0000250}.				B cell differentiation (GO:0030183)|blood coagulation (GO:0007596)|calcium ion transport (GO:0006816)|chromatin remodeling (GO:0006338)|embryonic digestive tract development (GO:0048566)|G1/S transition of mitotic cell cycle (GO:0000082)|homeostasis of number of cells (GO:0048872)|in utero embryonic development (GO:0001701)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of histone H3-K4 methylation (GO:0051571)|positive regulation of histone H3-K9 methylation (GO:0051574)|positive regulation of T-helper cell differentiation (GO:0045624)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription, DNA-templated (GO:0006355)|thymus development (GO:0048538)	nuclear matrix (GO:0016363)	chromatin binding (GO:0003682)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)	p.S342N(2)		breast(4)|endometrium(1)|kidney(2)|large_intestine(3)|lung(13)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	28	all_epithelial(2;0.109)|Breast(56;0.158)|Colorectal(23;0.221)	Lung NSC(302;3.08e-05)|Ovarian(999;0.208)		OV - Ovarian serous cystadenocarcinoma(155;0.0079)|GBM - Glioblastoma multiforme(68;0.0117)		CATGGAGACAGTGCACCTGTT	0.582			T	NFIB	adenoid cystic carcinoma																																		Dom	yes		6	6q22-23	4602	v-myb myeloblastosis viral oncogene homolog		E	2	Substitution - Missense(2)	kidney(2)											161	126	138					6																	135516962		2203	4300	6503	SO:0001583	missense	4602				CCDS5174.1, CCDS47481.1, CCDS47482.1, CCDS55058.1, CCDS55059.1, CCDS55060.1, CCDS55061.1, CCDS55062.1	6q22-q23	2013-07-09	2013-07-09		ENSG00000118513	ENSG00000118513			7545	protein-coding gene	gene with protein product		189990				17599807	Standard	NM_001130172		Approved	c-myb	uc003qfh.3	P10242	OTTHUMG00000015629	ENST00000367814.4:c.1025G>A	6.37:g.135516962G>A	ENSP00000356788:p.Ser342Asn	Somatic		WXS	Illumina HiSeq	Phase_I	E9PI07|E9PLZ5|E9PNA4|E9PNL6|E9PRS2|P78391|P78392|P78525|P78526|Q14023|Q14024|Q708E4|Q708E7|Q9UE83	Missense_Mutation	SNP	ENST00000367814.4	37	CCDS5174.1	.	.	.	.	.	.	.	.	.	.	G	11.87	1.768855	0.31320	.	.	ENSG00000118513	ENST00000341911;ENST00000442647;ENST00000316528;ENST00000237302;ENST00000367814;ENST00000527615;ENST00000528774;ENST00000534121;ENST00000534044;ENST00000533624	T;T;T;T;T;T;T;T;T	0.35973	2.54;2.05;2.04;2.06;1.28;2.53;2.68;1.71;2.11	5.82	2.02	0.26589	.	0.424457	0.30076	N	0.010465	T	0.07188	0.0182	N	0.08118	0	0.25432	N	0.98818	B;B;B;B;B;B;B;B	0.06786	0.0;0.0;0.0;0.0;0.0;0.001;0.001;0.0	B;B;B;B;B;B;B;B	0.08055	0.001;0.001;0.002;0.002;0.002;0.002;0.003;0.001	T	0.32295	-0.9912	10	0.44086	T	0.13	-1.9633	11.0855	0.48084	0.1276:0.1966:0.6759:0.0	.	307;342;339;339;342;342;342;342	E9PI07;E9PLZ5;P10242-2;E9PNL6;E9PNA4;P10242-4;P10242;Q708E1	.;.;.;.;.;.;MYB_HUMAN;.	N	342;339;342;342;342;342;339;342;342;307	ENSP00000339992:S342N;ENSP00000410825:S339N;ENSP00000326328:S342N;ENSP00000356788:S342N;ENSP00000433227:S342N;ENSP00000434723:S339N;ENSP00000432851:S342N;ENSP00000435055:S342N;ENSP00000436605:S307N	ENSP00000237302:S342N	S	+	2	0	MYB	135558655	1.000000	0.71417	0.997000	0.53966	0.978000	0.69477	1.586000	0.36611	0.377000	0.24735	-1.255000	0.01485	AGT		0.582	MYB-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000042347.4			A	135516962	G	A	135516962	3	1	580	1	0	0	0	0	1	0	0	0	10014	1029	36	2	1059	2	MYB	6	135516962	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	1022793	135516962	35598105	22	34427										
BCLAF1	9774	broad.mit.edu;hgsc.bcm.edu	37	chr6	136597333	136597333	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	actttctctattgcctttcaGtgaaactttggacttgtact	6	9	2	1			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr6:136597333G>T	ENST00000531224.1	-	5	1582	c.1330C>A	c.(1330-1332)Ctg>Atg	p.L444M	BCLAF1_ENST00000392348.2_Missense_Mutation_p.L442M|BCLAF1_ENST00000527759.1_Missense_Mutation_p.L442M|BCLAF1_ENST00000527536.1_Missense_Mutation_p.L444M|BCLAF1_ENST00000353331.4_Missense_Mutation_p.L442M|BCLAF1_ENST00000530767.1_Intron	NM_001077441.1|NM_014739.2	NP_001070909.1|NP_055554.1	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1	444					apoptotic process (GO:0006915)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of apoptotic process (GO:0043065)|positive regulation of DNA-templated transcription, initiation (GO:2000144)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of response to DNA damage stimulus (GO:2001022)|regulation of DNA-templated transcription in response to stress (GO:0043620)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)	p.L444M(1)		haematopoietic_and_lymphoid_tissue(3)|large_intestine(4)|ovary(1)|skin(1)	9	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TTGCCTTTCAGTGAAACTTTG	0.393																																					Colon(142;1534 1789 5427 7063 28491)											1	Substitution - Missense(1)	kidney(1)											160	160	160					6																	136597333		2203	4300	6503	SO:0001583	missense	9774			AF249273	CCDS5177.1, CCDS47485.1, CCDS47486.1, CCDS75525.1	6q22-q23	2007-03-02			ENSG00000029363	ENSG00000029363			16863	protein-coding gene	gene with protein product		612588				8724849, 10330179	Standard	NM_001077440		Approved	KIAA0164, BTF	uc003qgx.1	Q9NYF8	OTTHUMG00000033323	ENST00000531224.1:c.1330C>A	6.37:g.136597333G>T	ENSP00000435210:p.Leu444Met	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU75|B7ZM58|E1P586|Q14673|Q86WU6|Q86WY0	Missense_Mutation	SNP	ENST00000531224.1	37	CCDS5177.1	.	.	.	.	.	.	.	.	.	.	G	9.244	1.038909	0.19669	.	.	ENSG00000029363	ENST00000531224;ENST00000353331;ENST00000527536;ENST00000527759;ENST00000392348;ENST00000529826	T;T;T;T;T;T	0.12569	2.84;2.84;2.87;2.85;2.84;2.67	5.21	1.24	0.21308	.	0.132422	0.33938	N	0.004411	T	0.02455	0.0075	N	0.22421	0.69	0.80722	D	1	B;B;B	0.17268	0.005;0.021;0.005	B;B;B	0.15870	0.014;0.006;0.014	T	0.39800	-0.9596	10	0.31617	T	0.26	-3.4136	4.7849	0.13220	0.318:0.0:0.4726:0.2094	.	442;442;444	Q9NYF8-2;Q9NYF8-3;Q9NYF8	.;.;BCLF1_HUMAN	M	444;442;444;442;442;444	ENSP00000435210:L444M;ENSP00000229446:L442M;ENSP00000435441:L444M;ENSP00000434826:L442M;ENSP00000376159:L442M;ENSP00000431734:L444M	ENSP00000229446:L442M	L	-	1	2	BCLAF1	136639026	0.999000	0.42202	0.998000	0.56505	0.997000	0.91878	0.418000	0.21230	0.009000	0.14813	0.644000	0.83932	CTG		0.393	BCLAF1-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042375.2	NM_014739		T	136597333	G	T	136597333	3	4	580	1	0	0	0	0	1	0	0	0	1383	1020	36	4	1468	4	BCLAF1	6	136597333	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	1080371	136597333	34517734	23	34428										
RAB32	10981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	146865253	146865253	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	cgcctgcagctgtgggacatCgcgggtaagcgcggccgcga	17	13	0	0			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr6:146865253C>T	ENST00000367495.3	+	1	425	c.246C>T	c.(244-246)atC>atT	p.I82I		NM_006834.3	NP_006825.1	Q13637	RAB32_HUMAN	RAB32, member RAS oncogene family	82					antigen processing and presentation (GO:0019882)|endosome to melanosome transport (GO:0035646)|GTP catabolic process (GO:0006184)|melanosome organization (GO:0032438)|phagosome maturation (GO:0090382)|protein transport (GO:0015031)|small GTPase mediated signal transduction (GO:0007264)	early endosome (GO:0005769)|melanosome (GO:0042470)|membrane (GO:0016020)|mitochondrion (GO:0005739)|phagocytic vesicle (GO:0045335)	AP-1 adaptor complex binding (GO:0035650)|AP-3 adaptor complex binding (GO:0035651)|GTP binding (GO:0005525)|GTP-dependent protein binding (GO:0030742)|GTPase activity (GO:0003924)|protein complex binding (GO:0032403)	p.I82I(1)		central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(3)	8		Ovarian(120;0.142)		OV - Ovarian serous cystadenocarcinoma(155;2.68e-09)|GBM - Glioblastoma multiforme(68;0.00608)		TGTGGGACATCGCGGGTAAGC	0.627																																																1	Substitution - coding silent(1)	kidney(1)											25	25	25					6																	146865253		2203	4300	6503	SO:0001819	synonymous_variant	10981			U71127	CCDS5210.1	6q24.2	2010-08-20			ENSG00000118508	ENSG00000118508		"RAB, member RAS oncogene", "A-kinase anchor proteins"	9772	protein-coding gene	gene with protein product		612906					Standard	NM_006834		Approved		uc003qln.1	Q13637	OTTHUMG00000015755	ENST00000367495.3:c.246C>T	6.37:g.146865253C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000367495.3	37	CCDS5210.1																																																																																				0.627	RAB32-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042579.1	NM_006834		T	146865253	C	T	146865253	2	4	580	1	0	0	0	0	0	0	0	1	12934	874	31	1		1	RAB32	6	146865253	Silent	SNP	C	TCGA-EU-5905-01A-11D-1669-08	10267920	146865253	24249814	24	34429										
WBSCR17	64409	broad.mit.edu;ucsc.edu	37	chr7	71175760	71175760	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	cgacagcttgcccgctacacCaaggaaggcttcctgcactt	9	15	0	0	rs571368084		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr7:71175760C>A	ENST00000333538.5	+	10	2149	c.1515C>A	c.(1513-1515)acC>acA	p.T505T	WBSCR17_ENST00000498380.2_3'UTR	NM_022479.1	NP_071924.1	Q6IS24	GLTL3_HUMAN	Williams-Beuren syndrome chromosome region 17	505	Ricin B-type lectin. {ECO:0000255|PROSITE-ProRule:PRU00174}.				protein glycosylation (GO:0006486)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)	p.T505T(1)		NS(5)|breast(2)|central_nervous_system(1)|endometrium(7)|kidney(7)|large_intestine(22)|lung(45)|ovary(2)|pancreas(2)|prostate(1)|skin(4)|upper_aerodigestive_tract(2)	100		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				CCCGCTACACCAAGGAAGGCT	0.632													C|||	1	0.000199681	0.0008	0.0	5008	,	,		17882	0.0		0.0	False		,,,				2504	0.0															1	Substitution - coding silent(1)	kidney(1)											92	84	87					7																	71175760		2203	4300	6503	SO:0001819	synonymous_variant	64409			AF410457	CCDS5540.1	7q11.23	2014-03-13			ENSG00000185274	ENSG00000185274		"Glycosyltransferase family 2 domain containing"	16347	protein-coding gene	gene with protein product	"polypeptide N-acetylgalactosaminyltransferase-like 3", "polypeptide GalNAc transferase 3"	615137				12073013, 15744064, 22787146	Standard	NM_022479		Approved	GALNTL3, GalNAc-T5L	uc003tvy.4	Q6IS24	OTTHUMG00000129783	ENST00000333538.5:c.1515C>A	7.37:g.71175760C>A		Somatic		WXS	Illumina GAIIx	Phase_I	Q8NFV9|Q9NTA8	Silent	SNP	ENST00000333538.5	37	CCDS5540.1																																																																																				0.632	WBSCR17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252006.1	NM_022479		A	71175760	C	A	71175760	2	1	580	1	0	0	0	0	0	0	0	1	17276	581	21	4		4	WBSCR17	7	71175760	Silent	SNP	C	TCGA-EU-5905-01A-11D-1669-08		71175760	87962903	25	34430										
SGK223	157285	broad.mit.edu	37	chr8	8175907	8175907	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	accagctcgcgccgaggcccCcacagcaggcactgcagcac	11	19	0	0			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr8:8175907C>A	ENST00000520004.1	-	6	4242	c.3978G>T	c.(3976-3978)tgG>tgT	p.W1326C	SGK223_ENST00000330777.4_Missense_Mutation_p.W1326C			Q86YV5	SG223_HUMAN		1330	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.						ATP binding (GO:0005524)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)	p.W1328C(1)|p.W1326C(1)									GCCGAGGCCCCCACAGCAGGC	0.682																																					GBM(34;731 755 10259 33573 33867)											2	Substitution - Missense(2)	kidney(2)											42	46	44					8																	8175907		2034	4177	6211	SO:0001583	missense	157285																														ENST00000520004.1:c.3978G>T	8.37:g.8175907C>A	ENSP00000428054:p.Trp1326Cys	Somatic		WXS	Illumina GAIIx	Phase_I	Q8N3N5	Missense_Mutation	SNP	ENST00000520004.1	37	CCDS43706.1	.	.	.	.	.	.	.	.	.	.	C	23.6	4.432331	0.83776	.	.	ENSG00000182319	ENST00000330777;ENST00000520004	T;T	0.14391	2.51;2.51	5.39	5.39	0.77823	Protein kinase-like domain (1);	0.000000	0.85682	D	0.000000	T	0.36413	0.0966	L	0.57536	1.79	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	T	0.03175	-1.1064	10	0.87932	D	0	.	18.5141	0.90930	0.0:1.0:0.0:0.0	.	1326	Q86YV5	SG223_HUMAN	C	1326	ENSP00000330930:W1326C;ENSP00000428054:W1326C	ENSP00000330930:W1326C	W	-	3	0	AC068353.1	8213317	1.000000	0.71417	1.000000	0.80357	0.958000	0.62258	7.785000	0.85724	2.701000	0.92244	0.462000	0.41574	TGG		0.682	SGK223-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374864.1			A	8175907	C	A	8175907	3	1	580	1	0	0	0	0	1	0	0	0	14223	624	22	4	234	4	SGK223	8	8175907	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08		8175907	138188115	26	34431										
INTS9	55756	broad.mit.edu;ucsc.edu	37	chr8	28625776	28625776	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	aatctggatgagcgtctcagCctcctggagcaggacgatat	12	10	2	1			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr8:28625776C>G	ENST00000521022.1	-	17	1945	c.1864G>C	c.(1864-1866)Gct>Cct	p.A622P	INTS9_ENST00000521777.1_Missense_Mutation_p.A598P|INTS9_ENST00000397363.4_Missense_Mutation_p.A516P|INTS9_ENST00000416984.2_Missense_Mutation_p.A601P	NM_018250.3	NP_060720.2	Q9NV88	INT9_HUMAN	integrator complex subunit 9	622					snRNA processing (GO:0016180)	cytoplasm (GO:0005737)|integrator complex (GO:0032039)|nucleus (GO:0005634)		p.A622P(1)		breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(6)|pancreas(2)|prostate(1)|urinary_tract(2)	19		Ovarian(32;0.0439)		KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.152)		AGCGTCTCAGCCTCCTGGAGC	0.522																																																1	Substitution - Missense(1)	kidney(1)											268	257	261					8																	28625776		2203	4300	6503	SO:0001583	missense	55756			BC025267	CCDS34873.1, CCDS55215.1, CCDS55216.1	8p21.1	2008-02-05			ENSG00000104299	ENSG00000104299			25592	protein-coding gene	gene with protein product		611352				16239144	Standard	NM_001172562		Approved	FLJ10871, CPSF2L, RC-74	uc011lav.2	Q9NV88	OTTHUMG00000164030	ENST00000521022.1:c.1864G>C	8.37:g.28625776C>G	ENSP00000429065:p.Ala622Pro	Somatic		WXS	Illumina GAIIx	Phase_I	B7Z560|B7Z6M5|O00224|Q8TB16	Missense_Mutation	SNP	ENST00000521022.1	37	CCDS34873.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	19.63|19.63	3.864416|3.864416	0.71949|0.71949	.|.	.|.	ENSG00000104299|ENSG00000104299	ENST00000521022;ENST00000416984;ENST00000541706;ENST00000521777;ENST00000397363|ENST00000517383	T;T;T;T|.	0.45276|.	0.9;0.9;0.9;0.9|.	5.11|5.11	5.11|5.11	0.69529|0.69529	.|.	0.124706|.	0.56097|.	D|.	0.000035|.	T|T	0.67543|0.67543	0.2904|0.2904	L|L	0.44542|0.44542	1.39|1.39	0.58432|0.58432	D|D	0.999994|0.999994	B;B|.	0.29508|.	0.246;0.091|.	B;B|.	0.27608|.	0.081;0.081|.	T|T	0.64300|0.64300	-0.6440|-0.6440	10|5	0.34782|.	T|.	0.22|.	-15.741|-15.741	18.5577|18.5577	0.91090|0.91090	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	601;622|.	B7Z6M5;Q9NV88|.	.;INT9_HUMAN|.	P|S	622;601;466;598;516|113	ENSP00000429065:A622P;ENSP00000398208:A601P;ENSP00000430943:A598P;ENSP00000380520:A516P|.	ENSP00000380520:A516P|.	A|R	-|-	1|3	0|2	INTS9|INTS9	28681695|28681695	1.000000|1.000000	0.71417|0.71417	0.821000|0.821000	0.32701|0.32701	0.910000|0.910000	0.53928|0.53928	7.703000|7.703000	0.84585|0.84585	2.366000|2.366000	0.80165|0.80165	0.655000|0.655000	0.94253|0.94253	GCT|AGG		0.522	INTS9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376846.1	NM_018250		G	28625776	C	G	28625776	3	3	580	1	0	0	0	0	1	0	0	0	7792	739	26	4	116	4	INTS9	8	28625776	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	20449869	28625776	117738246	27	34432										
CPNE3	8895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	87568470	87568470	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	gctgacttcagcgccatggaGtttctggatggtgatggtgg	16	7	2	2			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr8:87568470G>C	ENST00000521271.1	+	16	1557	c.1395G>C	c.(1393-1395)gaG>gaC	p.E465D	CPNE3_ENST00000198765.4_Missense_Mutation_p.E465D	NM_003909.3	NP_003900.1	O75131	CPNE3_HUMAN	copine III	465	VWFA.				lipid metabolic process (GO:0006629)|protein phosphorylation (GO:0006468)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	calcium-dependent phospholipid binding (GO:0005544)|poly(A) RNA binding (GO:0044822)|protein serine/threonine kinase activity (GO:0004674)|transporter activity (GO:0005215)	p.E465D(1)		NS(1)|breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(6)|ovary(1)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	23						GCGCCATGGAGTTTCTGGATG	0.493																																																1	Substitution - Missense(1)	kidney(1)											148	129	136					8																	87568470		2203	4300	6503	SO:0001583	missense	8895			AB014536	CCDS6243.1	8q21	2008-07-03				ENSG00000085719			2316	protein-coding gene	gene with protein product		604207				9430674	Standard	NM_003909		Approved		uc003ydv.2	O75131		ENST00000521271.1:c.1395G>C	8.37:g.87568470G>C	ENSP00000430934:p.Glu465Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA47|Q8IYA1	Missense_Mutation	SNP	ENST00000521271.1	37	CCDS6243.1	.	.	.	.	.	.	.	.	.	.	G	21.8	4.196570	0.79015	.	.	ENSG00000085719	ENST00000198765;ENST00000521271	T;T	0.24538	1.85;1.85	5.72	3.91	0.45181	von Willebrand factor, type A (1);	0.000000	0.85682	D	0.000000	T	0.49029	0.1533	M	0.79343	2.45	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.47433	-0.9118	10	0.59425	D	0.04	-23.9957	10.0457	0.42186	0.201:0.0:0.799:0.0	.	465	O75131	CPNE3_HUMAN	D	465	ENSP00000198765:E465D;ENSP00000430934:E465D	ENSP00000198765:E465D	E	+	3	2	CPNE3	87637586	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.261000	0.58841	0.756000	0.33013	0.650000	0.86243	GAG		0.493	CPNE3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374994.1			C	87568470	G	C	87568470	3	2	580	1	0	0	0	0	1	0	0	0	3815	1020	36	4	1449	4	CPNE3	8	87568470	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	58942694	87568470	58795552	28	34433										
UBR5	51366	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	103327008	103327008	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	actgctggcaattgaggatgCatcactacacgtggatgctg	12	9	1	1			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr8:103327008C>T	ENST00000520539.1	-	15	2464	c.1858G>A	c.(1858-1860)Gca>Aca	p.A620T	UBR5_ENST00000220959.4_Missense_Mutation_p.A620T|UBR5_ENST00000521922.1_Missense_Mutation_p.A614T	NM_001282873.1|NM_015902.5	NP_001269802.1|NP_056986.2	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin 5	620					cell proliferation (GO:0008283)|cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|negative regulation of double-strand break repair (GO:2000780)|negative regulation of histone H2A K63-linked ubiquitination (GO:1901315)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of catenin import into nucleus (GO:0035413)|positive regulation of protein import into nucleus, translocation (GO:0033160)|progesterone receptor signaling pathway (GO:0050847)|protein polyubiquitination (GO:0000209)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	ligase activity (GO:0016874)|RNA binding (GO:0003723)|ubiquitin-protein transferase activity (GO:0004842)|ubiquitin-ubiquitin ligase activity (GO:0034450)|zinc ion binding (GO:0008270)	p.A620S(1)|p.A620T(1)		NS(1)|breast(13)|central_nervous_system(1)|cervix(1)|endometrium(7)|kidney(8)|large_intestine(19)|liver(1)|lung(51)|ovary(6)|pancreas(1)|prostate(5)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(2)	124	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			ATTGAGGATGCATCACTACAC	0.418																																					Ovarian(131;96 1741 5634 7352 27489)											2	Substitution - Missense(2)	lung(1)|kidney(1)											138	111	120					8																	103327008		2203	4300	6503	SO:0001583	missense	51366			AF006010	CCDS34933.1, CCDS64946.1	8q22	2008-06-23	2007-06-19	2007-06-19	ENSG00000104517	ENSG00000104517		"Ubiquitin protein ligase E3 component n-recognins"	16806	protein-coding gene	gene with protein product		608413	"E3 ubiquitin protein ligase, HECT domain containing, 1"	EDD1		10030672, 16055722	Standard	NM_015902		Approved	DD5, HYD, EDD, KIAA0896	uc003ykr.2	O95071	OTTHUMG00000164755	ENST00000520539.1:c.1858G>A	8.37:g.103327008C>T	ENSP00000429084:p.Ala620Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP24|J3KMW7|O94970|Q9NPL3	Missense_Mutation	SNP	ENST00000520539.1	37	CCDS34933.1	.	.	.	.	.	.	.	.	.	.	C	8.395	0.840683	0.16891	.	.	ENSG00000104517	ENST00000520539;ENST00000220959;ENST00000521922	T;T;T	0.38722	1.12;1.12;1.12	5.27	5.27	0.74061	.	0.056644	0.64402	D	0.000001	T	0.16342	0.0393	N	0.01048	-1.04	0.54753	D	0.999986	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.30119	-0.9989	10	0.02654	T	1	.	18.883	0.92364	0.0:1.0:0.0:0.0	.	614;620	E7EMW7;O95071	.;UBR5_HUMAN	T	620;620;614	ENSP00000429084:A620T;ENSP00000220959:A620T;ENSP00000427819:A614T	ENSP00000220959:A620T	A	-	1	0	UBR5	103396184	1.000000	0.71417	0.552000	0.28243	0.856000	0.48823	5.556000	0.67307	2.482000	0.83794	0.585000	0.79938	GCA		0.418	UBR5-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000380075.2	NM_015902		T	103327008	C	T	103327008	3	4	580	1	0	0	0	0	1	0	0	0	16917	710	25	2	6721	2	UBR5	8	103327008	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	15758538	103327008	43037014	29	34434										
KCNQ3	3786	hgsc.bcm.edu	37	chr8	133492523	133492523	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	gcggggtcttggccaggagcCcgatgccctgcggggtcctc	17	14	1	0			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr8:133492523C>G	ENST00000388996.4	-	1	677	c.257G>C	c.(256-258)gGg>gCg	p.G86A	KCNQ3_ENST00000519445.1_Missense_Mutation_p.G86A	NM_004519.3	NP_004510.1	O43525	KCNQ3_HUMAN	potassium voltage-gated channel, KQT-like subfamily, member 3	86					axon guidance (GO:0007411)|membrane hyperpolarization (GO:0060081)|potassium ion transport (GO:0006813)|synaptic transmission (GO:0007268)	axon initial segment (GO:0043194)|node of Ranvier (GO:0033268)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|potassium channel activity (GO:0005267)|voltage-gated potassium channel activity (GO:0005249)	p.G86A(1)		NS(1)|breast(3)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(21)|lung(22)|ovary(2)|pancreas(1)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	70	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)		Amitriptyline(DB00321)|Diclofenac(DB00586)|Ezogabine(DB04953)|Meclofenamic acid(DB00939)	GGCCAGGAGCCCGATGCCCTG	0.692																																																1	Substitution - Missense(1)	kidney(1)											32	36	35					8																	133492523		2203	4297	6500	SO:0001583	missense	3786			AB208890	CCDS34943.1, CCDS56554.1	8q24	2012-07-05			ENSG00000184156	ENSG00000184156		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6297	protein-coding gene	gene with protein product		602232		EBN2		9425900, 16382104	Standard	NM_004519		Approved	Kv7.3	uc003ytj.3	O43525	OTTHUMG00000137472	ENST00000388996.4:c.257G>C	8.37:g.133492523C>G	ENSP00000373648:p.Gly86Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A2VCT8|B4DJY4|E7EQ89	Missense_Mutation	SNP	ENST00000388996.4	37	CCDS34943.1	.	.	.	.	.	.	.	.	.	.	C	13.65	2.300483	0.40694	.	.	ENSG00000184156	ENST00000388996;ENST00000519445;ENST00000542679	D;D	0.98914	-5.22;-5.23	4.43	4.43	0.53597	.	0.273259	0.25789	N	0.028286	D	0.96667	0.8912	L	0.38175	1.15	0.48341	D	0.999631	P;P	0.46784	0.884;0.884	B;B	0.41466	0.358;0.358	D	0.96914	0.9669	10	0.48119	T	0.1	-9.3909	16.2364	0.82377	0.0:1.0:0.0:0.0	.	86;86	E7ET42;O43525	.;KCNQ3_HUMAN	A	86;86;75	ENSP00000373648:G86A;ENSP00000428790:G86A	ENSP00000373648:G86A	G	-	2	0	KCNQ3	133561705	1.000000	0.71417	1.000000	0.80357	0.004000	0.04260	5.705000	0.68355	2.297000	0.77311	0.557000	0.71058	GGG		0.692	KCNQ3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268621.2	NM_004519		G	133492523	C	G	133492523	3	3	580	1	0	0	0	0	1	0	0	0	8091	623	22	4	2421	4	KCNQ3	8	133492523	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	30165515	133492523	12871499	30	34435										
ZNF79	7633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	130206351	130206351	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	ccaccagagcaagccctttcTgaagcttcattccaagaccc	6	16	2	3			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr9:130206351T>C	ENST00000342483.5	+	5	778	c.372T>C	c.(370-372)tcT>tcC	p.S124S	ZNF79_ENST00000543471.1_Silent_p.S100S	NM_007135.2	NP_009066.2	Q15937	ZNF79_HUMAN	zinc finger protein 79	124					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)	p.S124S(1)		breast(1)|central_nervous_system(1)|endometrium(2)|kidney(5)|large_intestine(1)|lung(13)|ovary(2)|prostate(1)|stomach(2)	28						AAGCCCTTTCTGAAGCTTCAT	0.483																																																1	Substitution - coding silent(1)	kidney(1)											91	90	90					9																	130206351		2203	4300	6503	SO:0001819	synonymous_variant	7633			X65232	CCDS6871.1, CCDS69664.1, CCDS75904.1	9q34	2013-01-08	2006-05-12		ENSG00000196152	ENSG00000196152		"Zinc fingers, C2H2-type"	13153	protein-coding gene	gene with protein product		194552	"zinc finger protein 79 (pT7)"			8478004	Standard	NM_007135		Approved	pT7	uc004bqw.4	Q15937	OTTHUMG00000020703	ENST00000342483.5:c.372T>C	9.37:g.130206351T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VVW1|Q96NV1	Silent	SNP	ENST00000342483.5	37	CCDS6871.1																																																																																				0.483	ZNF79-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054188.1	NM_007135		C	130206351	T	C	130206351	2	2	580	1	0	0	0	0	0	0	0	1	18173	1567	55	3		3	ZNF79	9	130206351	Silent	SNP	T	TCGA-EU-5905-01A-11D-1669-08		130206351	11007080	31	34436										
TBC1D13	54662	hgsc.bcm.edu;ucsc.edu	37	chr9	131550656	131550656	+	Frame_Shift_Del	DEL	T	T	-													0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tgaaggagccctcaattgcaTtggaaaagctgcgggaactc					rs550347992		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr9:131550656delT	ENST00000372648.5	+	2	217	c.67delT	c.(67-69)ttgfs	p.L23fs	TBC1D13_ENST00000223865.8_Frame_Shift_Del_p.L23fs|TBC1D13_ENST00000539497.1_De_novo_Start_InFrame|TBC1D13_ENST00000466056.1_3'UTR	NM_018201.3	NP_060671.3	Q9NVG8	TBC13_HUMAN	TBC1 domain family, member 13	23							Rab GTPase activator activity (GO:0005097)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)	6						CTCAATTGCATTGGAAAAGCT	0.512																																																0													145	135	138					9																	131550656		2203	4300	6503	SO:0001589	frameshift_variant	54662			AK001605	CCDS6911.1, CCDS69677.1	9q34.13	2013-07-09			ENSG00000107021	ENSG00000107021			25571	protein-coding gene	gene with protein product						22762500	Standard	XM_005252060		Approved	FLJ10743	uc010myj.3	Q9NVG8	OTTHUMG00000020760	ENST00000372648.5:c.67delT	9.37:g.131550656delT	ENSP00000361731:p.Leu23fs	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2E7|B3KW04|B9EGJ8|Q5T270|Q5T271	Frame_Shift_Del	DEL	ENST00000372648.5	37	CCDS6911.1																																																																																				0.512	TBC1D13-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054496.1	NM_018201		-	131550656	T	-	131550656	7	5	580	1	0	1	0	1	0	0	0	0	15614	1490	52	0	73	0	TBC1D13	9	131550656	Frame_Shift_Del	DEL	T	TCGA-EU-5905-01A-11D-1669-08	1344305	131550656	9662775	32	34437										
GPSM1	26086	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	139250844	139250844	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	ccgaggaattcttcgacctcAtcgccagctcccagagccgc	9	17	2	1			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr9:139250844A>T	ENST00000440944.1	+	13	1883	c.1663A>T	c.(1663-1665)Atc>Ttc	p.I555F	GPSM1_ENST00000429455.1_Missense_Mutation_p.I46F|GPSM1_ENST00000392944.1_Missense_Mutation_p.I46F	NM_001145638.1	NP_001139110	Q86YR5	GPSM1_HUMAN	G-protein signaling modulator 1	555	GoLoco 2. {ECO:0000255|PROSITE- ProRule:PRU00097}.				cell differentiation (GO:0030154)|nervous system development (GO:0007399)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	GDP-dissociation inhibitor activity (GO:0005092)	p.I532F(1)		biliary_tract(1)|endometrium(1)|kidney(2)|lung(4)|upper_aerodigestive_tract(1)	9		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.39e-06)|Epithelial(140;3.24e-06)		CTTCGACCTCATCGCCAGCTC	0.711																																																1	Substitution - Missense(1)	kidney(1)											16	20	19					9																	139250844		2196	4291	6487	SO:0001583	missense	26086			AI272212	CCDS6996.2, CCDS48055.1, CCDS48056.1	9q34.3	2013-01-10	2010-06-24		ENSG00000160360	ENSG00000160360		"Tetratricopeptide (TTC) repeat domain containing"	17858	protein-coding gene	gene with protein product	"AGS3 homolog (C. elegans)"	609491	"G-protein signalling modulator 1 (AGS3-like, C. elegans)"			11278352, 10969064	Standard	NM_001145639		Approved	AGS3, DKFZP727I051	uc004chd.2	Q86YR5	OTTHUMG00000020930	ENST00000440944.1:c.1663A>T	9.37:g.139250844A>T	ENSP00000392828:p.Ile555Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1X4|B1B0W3|Q86SR5|Q969T1|Q9UFS8	Missense_Mutation	SNP	ENST00000440944.1	37	CCDS48055.1	.	.	.	.	.	.	.	.	.	.	A	29.0	4.967250	0.92855	.	.	ENSG00000160360	ENST00000440944;ENST00000354753;ENST00000429455;ENST00000392944;ENST00000291775	D;D	0.94280	-3.39;-3.37	5.3	4.16	0.48862	GoLoco motif (3);	0.107102	0.64402	D	0.000007	D	0.96178	0.8754	M	0.81341	2.54	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.95599	0.8661	10	0.62326	D	0.03	-10.8616	11.2445	0.48990	0.8358:0.1642:0.0:0.0	.	555	Q86YR5	GPSM1_HUMAN	F	555;532;46;46;46	ENSP00000392828:I555F;ENSP00000346797:I532F	ENSP00000291775:I46F	I	+	1	0	GPSM1	138370665	1.000000	0.71417	0.989000	0.46669	0.981000	0.71138	4.506000	0.60428	0.852000	0.35287	0.379000	0.24179	ATC		0.711	GPSM1-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_015597		T	139250844	A	T	139250844	3	4	580	1	0	0	0	0	1	0	0	0	6741	217	8	5	1880	5	GPSM1	9	139250844	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08	7700188	139250844	1962587	33	34438										
TMEM203	94107	broad.mit.edu;hgsc.bcm.edu	37	chr9	140099456	140099456	+	Nonstop_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tctccggcacctcggtgaggCtagttgacccgacaggcgcg	14	14	1	2			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr9:140099456C>A	ENST00000343666.5	-	1	634	c.411G>T	c.(409-411)taG>taT	p.*137Y	NDOR1_ENST00000371521.4_5'Flank|NDOR1_ENST00000427047.2_5'Flank|TMEM203_ENST00000537254.1_Nonstop_Mutation_p.*137Y|NDOR1_ENST00000458322.2_5'Flank|TPRN_ENST00000541945.1_5'Flank|NDOR1_ENST00000344894.5_5'Flank	NM_053045.1	NP_444273.1	Q969S6	TM203_HUMAN	transmembrane protein 203	0						integral component of membrane (GO:0016021)		p.*137Y(1)		central_nervous_system(1)|kidney(1)	2	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		CTCGGTGAGGCTAGTTGACCC	0.622																																																1	Nonstop extension(1)	kidney(1)											30	30	30					9																	140099456		2202	4289	6491	SO:0001578	stop_lost	94107			BC009283	CCDS35185.1	9q34.3	2007-12-18			ENSG00000187713	ENSG00000187713			28217	protein-coding gene	gene with protein product	"HBeAg-binding protein 1"					12477932	Standard	NM_053045		Approved	MGC14327, HBEBP1	uc004clv.3	Q969S6	OTTHUMG00000020985	ENST00000343666.5:c.411G>T	9.37:g.140099456C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6NW08	Missense_Mutation	SNP	ENST00000343666.5	37	CCDS35185.1	.	.	.	.	.	.	.	.	.	.	C	1.292	-0.607218	0.03717	.	.	ENSG00000187713	ENST00000343666;ENST00000537254	.	.	.	4.31	0.307	0.15811	.	.	.	.	.	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	5.1298	0.14903	0.2877:0.5497:0.0:0.1627	.	.	.	.	Y	137	.	.	X	-	3	2	TMEM203	139219277	0.831000	0.29352	0.013000	0.15412	0.005000	0.04900	0.736000	0.26130	-0.120000	0.11809	-0.169000	0.13324	TAG		0.622	TMEM203-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055325.2	NM_053045		A	140099456	C	A	140099456	4	1	580	1	0	0	0	0	0	0	0	0	16140	808	28	4	3	4	TMEM203	9	140099456	Nonstop_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	848612	140099456	1113975	34	34439										
ZNF518A	9849	hgsc.bcm.edu;ucsc.edu	37	chr10	97917981	97917981	+	RNA	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	cctgttgaatcctccaaccaAggatcattaccttttcataa	4	12	2	1			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr10:97917981A>C	ENST00000534948.1	+	0	2759							Q6AHZ1	Z518A_HUMAN	zinc finger protein 518A						transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.Q634H(2)		breast(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(4)|lung(8)|ovary(1)|prostate(2)|urinary_tract(2)	24		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		CCTCCAACCAAGGATCATTAC	0.353																																																2	Substitution - Missense(2)	kidney(2)											57	54	55					10																	97917981		1859	4104	5963			9849			AB002333	CCDS73170.1	10q23.33	2012-08-08	2007-12-07	2007-12-07	ENSG00000177853	ENSG00000177853		"Zinc fingers, C2H2-type"	29009	protein-coding gene	gene with protein product			"zinc finger protein 518"	ZNF518		9205841	Standard	NM_014803		Approved	KIAA0335	uc001klp.3	Q6AHZ1	OTTHUMG00000018828		10.37:g.97917981A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJI5|O15044|Q32MP4	Missense_Mutation	SNP	ENST00000534948.1	37																																																																																					0.353	ZNF518A-202	KNOWN	basic	processed_transcript	processed_transcript		NM_014803		C	97917981	A	C	97917981	1	2	580	0	1	0	0	0	0	0	0	0	17974	69	3	5		5	ZNF518A	10	97917981	RNA	SNP	A	TCGA-EU-5905-01A-11D-1669-08		97917981	37616766	35	34440										
INPP5F	22876	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	121567515	121567515	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	aatcgcatctaccagataatGtgggccaataatggtgactc	9	9	1	2			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr10:121567515G>C	ENST00000361976.2	+	13	1678	c.1512G>C	c.(1510-1512)atG>atC	p.M504I		NM_014937.3	NP_055752.1	Q01968	OCRL_HUMAN	inositol polyphosphate-5-phosphatase F	0	5-phosphatase.				cilium assembly (GO:0042384)|in utero embryonic development (GO:0001701)|inositol phosphate metabolic process (GO:0043647)|lipid metabolic process (GO:0006629)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phospholipid metabolic process (GO:0006644)|positive regulation of Rac GTPase activity (GO:0032855)|regulation of Rac GTPase activity (GO:0032314)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|small molecule metabolic process (GO:0044281)	clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|early endosome (GO:0005769)|extracellular vesicular exosome (GO:0070062)|Golgi stack (GO:0005795)|Golgi-associated vesicle (GO:0005798)|nucleus (GO:0005634)|photoreceptor outer segment (GO:0001750)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)	inositol phosphate phosphatase activity (GO:0052745)|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity (GO:0004439)|Rac GTPase activator activity (GO:0030675)|Rac GTPase binding (GO:0048365)	p.M504I(1)		breast(1)|cervix(1)|endometrium(7)|kidney(4)|large_intestine(9)|lung(5)|ovary(5)|pancreas(1)|prostate(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	42		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		ACCAGATAATGTGGGCCAATA	0.438																																																1	Substitution - Missense(1)	kidney(1)											119	107	111					10																	121567515		2203	4300	6503	SO:0001583	missense	22876			AB023183	CCDS7616.1, CCDS58098.1	10q26.13	2009-02-03			ENSG00000198825	ENSG00000198825			17054	protein-coding gene	gene with protein product		609389				10231032, 11274189	Standard	NM_014937		Approved	SAC2, KIAA0966, hSac2	uc001leo.3	Q9Y2H2	OTTHUMG00000019158	ENST00000361976.2:c.1512G>C	10.37:g.121567515G>C	ENSP00000354519:p.Met504Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKI1|A8KAP2|B7ZLX2|O60800|Q15684|Q15774|Q4VY09|Q4VY10|Q5JQF1|Q5JQF2|Q9UJG5|Q9UMA5	Missense_Mutation	SNP	ENST00000361976.2	37	CCDS7616.1	.	.	.	.	.	.	.	.	.	.	G	16.06	3.016010	0.54468	.	.	ENSG00000198825	ENST00000361976	T	0.23348	1.91	5.55	5.55	0.83447	Synaptojanin, N-terminal (1);	0.042343	0.85682	D	0.000000	T	0.19366	0.0465	L	0.31207	0.915	0.80722	D	1	B	0.10296	0.003	B	0.06405	0.002	T	0.03423	-1.1038	10	0.29301	T	0.29	-29.9176	12.7556	0.57333	0.1173:0.0:0.8827:0.0	.	504	Q9Y2H2	SAC2_HUMAN	I	504	ENSP00000354519:M504I	ENSP00000354519:M504I	M	+	3	0	INPP5F	121557505	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	4.352000	0.59404	2.773000	0.95371	0.585000	0.79938	ATG		0.438	INPP5F-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050679.1	NM_014937		C	121567515	G	C	121567515	3	2	580	1	0	0	0	0	1	0	0	0	7765	1377	48	4	1562	4	INPP5F	10	121567515	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	23649534	121567515	13967232	36	34441										
ESAM	90952	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	124623594	124623594	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	gcaccatcacaggcacagcaCccatgcggctcaagccagag	10	16	2	1			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr11:124623594C>A	ENST00000278927.5	-	7	1250	c.1121G>T	c.(1120-1122)gGt>gTt	p.G374V	VSIG2_ENST00000403470.1_5'Flank|VSIG2_ENST00000326621.5_5'Flank|ESAM_ENST00000442070.2_Intron	NM_138961.2	NP_620411.2	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule	374					blood coagulation (GO:0007596)|homophilic cell adhesion (GO:0007156)|leukocyte migration (GO:0050900)|single organismal cell-cell adhesion (GO:0016337)	adherens junction (GO:0005912)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|tight junction (GO:0005923)		p.G374V(1)		endometrium(2)|kidney(1)|large_intestine(6)|lung(4)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	16	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)		AGGCACAGCACCCATGCGGCT	0.587																																																1	Substitution - Missense(1)	kidney(1)											58	60	59					11																	124623594		2201	4299	6500	SO:0001583	missense	90952			AK075396	CCDS8453.1	11q24.2	2013-01-29			ENSG00000149564	ENSG00000149564		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	17474	protein-coding gene	gene with protein product		614281				11279107, 11906820	Standard	NM_138961		Approved	W117m	uc001qav.4	Q96AP7	OTTHUMG00000151986	ENST00000278927.5:c.1121G>T	11.37:g.124623594C>A	ENSP00000278927:p.Gly374Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DVN8|Q96T50	Missense_Mutation	SNP	ENST00000278927.5	37	CCDS8453.1	.	.	.	.	.	.	.	.	.	.	C	19.00	3.742605	0.69418	.	.	ENSG00000149564	ENST00000278927	T	0.61392	0.11	5.17	4.25	0.50352	.	0.059006	0.64402	D	0.000002	T	0.73651	0.3614	M	0.79011	2.435	0.80722	D	1	D	0.76494	0.999	D	0.70016	0.967	T	0.76721	-0.2855	10	0.72032	D	0.01	.	11.5321	0.50616	0.0:0.9139:0.0:0.0861	.	374	Q96AP7	ESAM_HUMAN	V	374	ENSP00000278927:G374V	ENSP00000278927:G374V	G	-	2	0	ESAM	124128804	0.997000	0.39634	1.000000	0.80357	0.978000	0.69477	3.895000	0.56258	1.295000	0.44724	0.655000	0.94253	GGT		0.587	ESAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324686.1	NM_138961		A	124623594	C	A	124623594	3	1	580	1	0	0	0	0	1	0	0	0	5249	507	18	4	55	4	ESAM	11	124623594	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08		124623594	10382922	37	34442										
PDE3A	5139	broad.mit.edu;hgsc.bcm.edu	37	chr12	20832968	20832968	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	attttatttattttagaaaaGaagactttcaaaaggagaaa	6	2	1	4			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr12:20832968G>T	ENST00000359062.3	+	16	3229	c.3189G>T	c.(3187-3189)aaG>aaT	p.K1063N	PDE3A_ENST00000544307.1_3'UTR	NM_000921.4|NM_001244683.1	NP_000912.3|NP_001231612.1	Q14432	PDE3A_HUMAN	phosphodiesterase 3A, cGMP-inhibited	1063	Catalytic. {ECO:0000250}.				blood coagulation (GO:0007596)|cAMP catabolic process (GO:0006198)|cAMP-mediated signaling (GO:0019933)|cellular response to cGMP (GO:0071321)|cellular response to transforming growth factor beta stimulus (GO:0071560)|cGMP-mediated signaling (GO:0019934)|diterpenoid metabolic process (GO:0016101)|lipid metabolic process (GO:0006629)|negative regulation of apoptotic process (GO:0043066)|negative regulation of vascular permeability (GO:0043116)|oocyte maturation (GO:0001556)|positive regulation of oocyte development (GO:0060282)|positive regulation of vascular permeability (GO:0043117)|regulation of meiosis (GO:0040020)|response to cAMP (GO:0051591)|response to drug (GO:0042493)	cytosol (GO:0005829)|integral component of membrane (GO:0016021)	3',5'-cyclic-AMP phosphodiesterase activity (GO:0004115)|cAMP binding (GO:0030552)|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity (GO:0004119)|metal ion binding (GO:0046872)	p.K1063N(1)		NS(1)|breast(3)|endometrium(4)|kidney(3)|large_intestine(7)|lung(29)|ovary(4)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	58	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Caffeine(DB00201)|Cilostazol(DB01166)|Enoximone(DB04880)|Ibudilast(DB05266)|Levosimendan(DB00922)|Milrinone(DB00235)|Oxtriphylline(DB01303)|Theophylline(DB00277)|Tofisopam(DB08811)	ttttaGAAAAGAAGACTTTCA	0.348																																																1	Substitution - Missense(1)	kidney(1)											27	27	27					12																	20832968		2203	4300	6503	SO:0001583	missense	5139				CCDS31754.1	12p12.2	2011-04-15			ENSG00000172572	ENSG00000172572	3.1.4.17	"Phosphodiesterases"	8778	protein-coding gene	gene with protein product		123805				1315035, 10679291	Standard	NM_000921		Approved	CGI-PDE	uc001reh.2	Q14432	OTTHUMG00000168962	ENST00000359062.3:c.3189G>T	12.37:g.20832968G>T	ENSP00000351957:p.Lys1063Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O60865|Q13348|Q17RD1	Missense_Mutation	SNP	ENST00000359062.3	37	CCDS31754.1	.	.	.	.	.	.	.	.	.	.	G	8.383	0.837893	0.16891	.	.	ENSG00000172572	ENST00000359062	T	0.76709	-1.04	5.72	4.83	0.62350	.	0.542560	0.19315	N	0.117288	T	0.70692	0.3253	L	0.55481	1.735	0.35300	D	0.782966	P	0.35656	0.514	B	0.24269	0.052	T	0.76798	-0.2826	10	0.41790	T	0.15	.	14.9366	0.70960	0.0687:0.0:0.9313:0.0	.	1063	Q14432	PDE3A_HUMAN	N	1063	ENSP00000351957:K1063N	ENSP00000351957:K1063N	K	+	3	2	PDE3A	20724235	1.000000	0.71417	1.000000	0.80357	0.465000	0.32709	2.403000	0.44530	1.423000	0.47198	-0.137000	0.14449	AAG		0.348	PDE3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401756.2			T	20832968	G	T	20832968	3	4	580	1	0	0	0	0	1	0	0	0	11644	933	33	4	3251	4	PDE3A	12	20832968	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08		20832968	113018927	38	34443										
KRT71	112802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	52940112	52940112	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	gcttgcgataggtggcgatcTccatgtccagggccagcttc	13	12	1	0			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr12:52940112T>A	ENST00000267119.5	-	7	1352	c.1283A>T	c.(1282-1284)gAg>gTg	p.E428V		NM_033448.2	NP_258259.1	Q3SY84	K2C71_HUMAN	keratin 71	428	Coil 2.|Rod.				hair follicle morphogenesis (GO:0031069)|intermediate filament organization (GO:0045109)	extracellular vesicular exosome (GO:0070062)|keratin filament (GO:0045095)	structural molecule activity (GO:0005198)	p.E428V(1)		breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(9)|ovary(1)|skin(1)|urinary_tract(1)	22				BRCA - Breast invasive adenocarcinoma(357;0.194)		GGTGGCGATCTCCATGTCCAG	0.662																																																1	Substitution - Missense(1)	kidney(1)											80	70	73					12																	52940112		2203	4300	6503	SO:0001583	missense	112802			AJ308600	CCDS8831.1	12q13.13	2013-01-16			ENSG00000139648	ENSG00000139648		"-", "Intermediate filaments type II, keratins (basic)"	28927	protein-coding gene	gene with protein product		608245				11982755, 12648212, 16831889	Standard	NM_033448		Approved	KRT6IRS, KRT6IRS1, K6IRS1	uc001sao.3	Q3SY84	OTTHUMG00000167831	ENST00000267119.5:c.1283A>T	12.37:g.52940112T>A	ENSP00000267119:p.Glu428Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVC1|Q3SY85|Q96DU2	Missense_Mutation	SNP	ENST00000267119.5	37	CCDS8831.1	.	.	.	.	.	.	.	.	.	.	T	27.6	4.848169	0.91277	.	.	ENSG00000139648	ENST00000267119	D	0.96830	-4.14	4.34	4.34	0.51931	Filament (1);	0.000000	0.40640	N	0.001047	D	0.98960	0.9646	H	0.99074	4.42	0.54753	D	0.99998	D	0.89917	1.0	D	0.97110	1.0	D	0.98925	1.0785	10	0.87932	D	0	.	14.2269	0.65866	0.0:0.0:0.0:1.0	.	428	Q3SY84	K2C71_HUMAN	V	428	ENSP00000267119:E428V	ENSP00000267119:E428V	E	-	2	0	KRT71	51226379	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.997000	0.88414	1.921000	0.55644	0.459000	0.35465	GAG		0.662	KRT71-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396487.1	NM_033448		A	52940112	T	A	52940112	3	1	580	1	0	0	0	0	1	0	0	0	8491	1551	54	5	300	5	KRT71	12	52940112	Missense_Mutation	SNP	T	TCGA-EU-5905-01A-11D-1669-08	32107144	52940112	80911783	39	34444										
ACSS3	79611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	81536908	81536908	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	ggcggttcctttggctcccgGtcgtgaccttgattgggatg	15	10	0	2			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr12:81536908G>A	ENST00000548058.1	+	5	1713	c.803G>A	c.(802-804)gGt>gAt	p.G268D	ACSS3_ENST00000261206.3_Missense_Mutation_p.G267D			Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	268						mitochondrion (GO:0005739)	acetate-CoA ligase activity (GO:0003987)|ATP binding (GO:0005524)	p.G268D(1)		NS(1)|breast(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(5)|kidney(2)|large_intestine(7)|liver(3)|lung(20)|ovary(1)|skin(4)|upper_aerodigestive_tract(2)	51						TTGGCTCCCGGTCGTGACCTT	0.403																																																1	Substitution - Missense(1)	kidney(1)											105	97	100					12																	81536908		2203	4300	6503	SO:0001583	missense	79611				CCDS9022.1	12q21.31	2014-08-08			ENSG00000111058	ENSG00000111058		"Acyl-CoA synthetase family"	24723	protein-coding gene	gene with protein product		614356				17762044	Standard	NM_024560		Approved	FLJ21963	uc001szl.1	Q9H6R3	OTTHUMG00000170179	ENST00000548058.1:c.803G>A	12.37:g.81536908G>A	ENSP00000449535:p.Gly268Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC66	Missense_Mutation	SNP	ENST00000548058.1	37	CCDS9022.1	.	.	.	.	.	.	.	.	.	.	G	9.913	1.210101	0.22289	.	.	ENSG00000111058	ENST00000548058;ENST00000261206	T;T	0.39592	1.07;1.07	5.58	3.76	0.43208	AMP-dependent synthetase/ligase (1);	0.226250	0.53938	N	0.000060	T	0.35008	0.0917	L	0.50993	1.605	0.80722	D	1	B	0.06786	0.001	B	0.09377	0.004	T	0.15235	-1.0444	10	0.51188	T	0.08	-9.9538	8.3603	0.32355	0.1347:0.0:0.739:0.1262	.	268	Q9H6R3	ACSS3_HUMAN	D	268;267	ENSP00000449535:G268D;ENSP00000261206:G267D	ENSP00000261206:G267D	G	+	2	0	ACSS3	80061039	0.998000	0.40836	0.777000	0.31699	0.310000	0.27922	2.565000	0.45939	0.841000	0.35020	-0.291000	0.09656	GGT		0.403	ACSS3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000407794.1	NM_024560		A	81536908	G	A	81536908	3	1	580	1	0	0	0	0	1	0	0	0	190	1261	44	2	821	2	ACSS3	12	81536908	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	28596796	81536908	52314987	40	34445										
MSI1	4440	broad.mit.edu	37	chr12	120805861	120805861	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	cgccagcactttatccacccCcgcctggtccatgaaagtga	8	16	0	2			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr12:120805861C>G	ENST00000257552.2	-	4	305	c.217G>C	c.(217-219)Ggg>Cgg	p.G73R	RPS27P25_ENST00000477404.1_RNA	NM_002442.3	NP_002433.1	O43347	MSI1H_HUMAN	musashi RNA-binding protein 1	73	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				epithelial cell differentiation (GO:0030855)|nervous system development (GO:0007399)|response to hormone (GO:0009725)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|polysome (GO:0005844)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|poly(U) RNA binding (GO:0008266)|RNA binding (GO:0003723)	p.G73R(1)		breast(4)|central_nervous_system(2)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(5)|skin(2)	19	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TTATCCACCCCCGCCTGGTCC	0.647																																																1	Substitution - Missense(1)	kidney(1)											41	34	36					12																	120805861		2203	4300	6503	SO:0001583	missense	4440			AB012851	CCDS9196.1	12q24	2013-07-16	2012-12-13					"RNA binding motif (RRM) containing"	7330	protein-coding gene	gene with protein product		603328	"Musashi (Drosophila) homolog 1", "musashi homolog 1 (Drosophila)"			9790759	Standard	NM_002442		Approved		uc001tye.2	O43347	OTTHUMG00000169344	ENST00000257552.2:c.217G>C	12.37:g.120805861C>G	ENSP00000257552:p.Gly73Arg	Somatic		WXS	Illumina GAIIx	Phase_I	Q96PU0|Q96PU1|Q96PU2|Q96PU3	Missense_Mutation	SNP	ENST00000257552.2	37	CCDS9196.1	.	.	.	.	.	.	.	.	.	.	C	18.83	3.708113	0.68615	.	.	ENSG00000135097	ENST00000257552	D	0.85484	-1.99	3.24	3.24	0.37175	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.000000	0.50627	D	0.000112	D	0.84019	0.5380	N	0.25286	0.73	0.80722	D	1	P	0.48764	0.915	P	0.57468	0.821	D	0.84370	0.0543	10	0.40728	T	0.16	.	14.6092	0.68504	0.0:1.0:0.0:0.0	.	73	O43347	MSI1H_HUMAN	R	73	ENSP00000257552:G73R	ENSP00000257552:G73R	G	-	1	0	MSI1	119290244	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	7.248000	0.78268	1.808000	0.52836	0.305000	0.20034	GGG		0.647	MSI1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403629.1	NM_002442		G	120805861	C	G	120805861	3	3	580	1	0	0	0	0	1	0	0	0	9882	623	22	4	915	4	MSI1	12	120805861	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	39268953	120805861	13046034	41	34446										
TINF2	26277	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24709719	24709719	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	cttagacttcccagtggaggCtgctcttgtgcccatggcta	11	12	1	1			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr14:24709719C>G	ENST00000267415.7	-	6	1308	c.967G>C	c.(967-969)Gcc>Ccc	p.A323P	TINF2_ENST00000399423.4_Missense_Mutation_p.A323P|TINF2_ENST00000540705.1_Missense_Mutation_p.A288P|TINF2_ENST00000559019.1_3'UTR|TINF2_ENST00000558566.1_3'UTR|TINF2_ENST00000558510.1_5'Flank|TINF2_ENST00000538777.1_Missense_Mutation_p.A109P	NM_001099274.1	NP_001092744.1	Q9BSI4	TINF2_HUMAN	TERF1 (TRF1)-interacting nuclear factor 2	323				ASTGKSKSPC -> PSNGKYKGPY (in Ref. 1; AAF18439). {ECO:0000305}.	negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of protein ADP-ribosylation (GO:0010836)|negative regulation of telomere maintenance via telomerase (GO:0032211)|positive regulation of telomere maintenance (GO:0032206)|protein localization to chromosome (GO:0034502)|protein localization to chromosome, telomeric region (GO:0070198)|telomere assembly (GO:0032202)|telomere maintenance (GO:0000723)|telomere maintenance via telomere lengthening (GO:0010833)	chromosome, telomeric region (GO:0000781)|nuclear telomere cap complex (GO:0000783)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perinucleolar chromocenter (GO:0010370)	telomeric DNA binding (GO:0042162)	p.A323P(1)		endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|prostate(1)|urinary_tract(1)	7				GBM - Glioblastoma multiforme(265;0.0185)		CCAGTGGAGGCTGCTCTTGTG	0.537									Congenital Dyskeratosis;Ataxia Pancytopenia syndrome																																							1	Substitution - Missense(1)	kidney(1)											49	50	50					14																	24709719		2020	4176	6196	SO:0001583	missense	26277	Familial Cancer Database	Zinsser-Engman-Cole syndrome, Dyskeratosis Congenita;Myelocerebellar disorder	AF195512	CCDS41936.1, CCDS41937.1	14q12	2008-07-29				ENSG00000092330			11824	protein-coding gene	gene with protein product		604319				10581025, 18252230	Standard	NM_012461		Approved	TIN2	uc001woa.4	Q9BSI4		ENST00000267415.7:c.967G>C	14.37:g.24709719C>G	ENSP00000267415:p.Ala323Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B3W5Q7|Q9H904|Q9UHC2	Missense_Mutation	SNP	ENST00000267415.7	37	CCDS41936.1	.	.	.	.	.	.	.	.	.	.	C	7.444	0.641385	0.14451	.	.	ENSG00000092330	ENST00000267415;ENST00000540705;ENST00000399423;ENST00000538777	D;D;D;D	0.89050	-2.05;-2.05;-2.05;-2.46	4.89	2.66	0.31614	.	0.659581	0.13760	N	0.364659	T	0.81019	0.4736	L	0.33485	1.01	0.09310	N	1	B;B	0.14438	0.01;0.01	B;B	0.14578	0.011;0.011	T	0.68265	-0.5454	10	0.36615	T	0.2	-0.0975	6.7618	0.23544	0.0:0.7023:0.1858:0.1118	.	288;323	B4DFJ1;Q9BSI4	.;TINF2_HUMAN	P	323;288;323;109	ENSP00000267415:A323P;ENSP00000442154:A288P;ENSP00000382350:A323P;ENSP00000437495:A109P	ENSP00000267415:A323P	A	-	1	0	TINF2	23779559	0.004000	0.15560	0.223000	0.23860	0.430000	0.31655	0.206000	0.17375	1.040000	0.40099	0.462000	0.41574	GCC		0.537	TINF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415406.2			G	24709719	C	G	24709719	3	3	580	1	0	0	0	0	1	0	0	0	15935	797	28	4	408	4	TINF2	14	24709719	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08		24709719	82639821	42	34447										
ZNF646	9726	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31090216	31090216	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tccctctgcccgaaggagttTgactctctgcctgccctccg	9	17	2	1			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr16:31090216T>A	ENST00000394979.2	+	1	2994	c.2571T>A	c.(2569-2571)ttT>ttA	p.F857L	ZNF646_ENST00000300850.5_Missense_Mutation_p.F857L			O15015	ZN646_HUMAN	zinc finger protein 646	857					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)	p.F857L(1)		NS(1)|breast(4)|cervix(2)|endometrium(8)|kidney(4)|large_intestine(1)|lung(21)|ovary(1)|prostate(4)|skin(3)	49						CGAAGGAGTTTGACTCTCTGC	0.617																																																1	Substitution - Missense(1)	kidney(1)											70	76	74					16																	31090216		2197	4300	6497	SO:0001583	missense	9726			AB002294	CCDS10702.1	16p11.2	2013-01-08			ENSG00000167395	ENSG00000167395		"Zinc fingers, C2H2-type"	29004	protein-coding gene	gene with protein product							Standard	NM_014699		Approved	KIAA0296	uc002eap.3	O15015	OTTHUMG00000047355	ENST00000394979.2:c.2571T>A	16.37:g.31090216T>A	ENSP00000378429:p.Phe857Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVD8	Missense_Mutation	SNP	ENST00000394979.2	37		.	.	.	.	.	.	.	.	.	.	T	21.1	4.099616	0.76983	.	.	ENSG00000167395	ENST00000300850;ENST00000394979	T;T	0.71461	-0.57;-0.57	5.1	1.65	0.23941	.	.	.	.	.	T	0.79106	0.4390	M	0.82193	2.58	0.30224	N	0.796506	D	0.65815	0.995	P	0.56163	0.793	T	0.74680	-0.3584	9	0.87932	D	0	-8.987	8.2619	0.31790	0.0:0.2346:0.0:0.7654	.	857	O15015-2	.	L	857	ENSP00000300850:F857L;ENSP00000378429:F857L	ENSP00000300850:F857L	F	+	3	2	ZNF646	30997717	0.017000	0.18338	1.000000	0.80357	0.998000	0.95712	0.115000	0.15540	0.290000	0.22444	0.460000	0.39030	TTT		0.617	ZNF646-003	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000108510.2	NM_014699		A	31090216	T	A	31090216	3	1	580	1	0	0	0	0	1	0	0	0	18074	1809	63	5	2573	5	ZNF646	16	31090216	Missense_Mutation	SNP	T	TCGA-EU-5905-01A-11D-1669-08		31090216	59264537	43	34448										
FUS	2521	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	31201624	31201624	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	ggccgtggaggctatggaggTggtggcagtggtggtggtgg	24	4	0	0	rs76570520		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr16:31201624T>C	ENST00000254108.7	+	12	1302	c.1197T>C	c.(1195-1197)ggT>ggC	p.G399G	FUS_ENST00000380244.3_Silent_p.G398G|FUS_ENST00000568685.1_Silent_p.G400G|FUS_ENST00000474990.1_3'UTR	NM_001170634.1|NM_001170937.1|NM_004960.3	NP_001164105.1|NP_001164408.1|NP_004951.1	P35637	FUS_HUMAN	FUS RNA binding protein	399	Arg/Gly-rich.				cell death (GO:0008219)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|identical protein binding (GO:0042802)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|zinc ion binding (GO:0008270)	p.G399G(1)	FUS/ERG(167)|FUS/DDIT3(631)|FUS/FEV(2)|FUS/ATF1(4)|FUS/CREB3L1(6)|FUS/CREB3L2(158)	breast(3)|endometrium(5)|kidney(3)|large_intestine(1)|lung(5)|prostate(3)|skin(1)|urinary_tract(1)	22		Renal(780;0.000219)|Breast(268;0.00957)|Hepatocellular(780;0.121)		GBM - Glioblastoma multiforme(240;2.31e-05)|Kidney(780;0.000209)		gctatggaggtggtggcagtg	0.572			T	"DDIT3, ERG, FEV, ATF1, CREB3L2, CREB3L1"	"liposarcoma, AML, Ewing sarcoma, angiomatoid fibrous histiocytoma, fibromyxoid sarcoma"																																		Dom	yes		16	16p11.2	2521	"fusion, derived from t(12;16) malignant liposarcoma"		"M, L"	1	Substitution - coding silent(1)	kidney(1)											150	111	124					16																	31201624		2197	4300	6497	SO:0001819	synonymous_variant	2521			AF071213	CCDS10707.1, CCDS58454.1	16p11.2	2014-09-17	2014-05-09		ENSG00000089280	ENSG00000089280		"RNA binding motif (RRM) containing"	4010	protein-coding gene	gene with protein product	"heterogeneous nuclear ribonucleoprotein P2", "translocated in liposarcoma"	137070	"fusion, derived from t(12;16) malignant liposarcoma", "amyotrophic lateral sclerosis 6", "fusion (involved in t(12;16) in malignant liposarcoma)", "fused in sarcoma"	ALS6		2372777, 7503811, 19251628, 19251627	Standard	NM_004960		Approved	TLS, FUS1, hnRNP-P2, HNRNPP2	uc002ebe.2	P35637	OTTHUMG00000132395	ENST00000254108.7:c.1197T>C	16.37:g.31201624T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H4A8	Silent	SNP	ENST00000254108.7	37	CCDS10707.1																																																																																				0.572	FUS-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000255526.2	NM_004960		C	31201624	T	C	31201624	2	2	580	1	0	0	0	0	0	0	0	1	6107	1683	59	3		3	FUS	16	31201624	Silent	SNP	T	TCGA-EU-5905-01A-11D-1669-08	111408	31201624	59153129	44	34449										
ZNF423	23090	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	49670001	49670001	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tctgcatgcagaccacacagCggaagcccgtgagtgagttg	13	11	1	3			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr16:49670001C>T	ENST00000561648.1	-	4	3115	c.3062G>A	c.(3061-3063)cGc>cAc	p.R1021H	ZNF423_ENST00000563137.2_Missense_Mutation_p.R961H|ZNF423_ENST00000535559.1_Missense_Mutation_p.R904H|ZNF423_ENST00000562871.1_Missense_Mutation_p.R961H|ZNF423_ENST00000567169.1_Missense_Mutation_p.R904H|ZNF423_ENST00000262383.2_Missense_Mutation_p.R1021H|ZNF423_ENST00000562520.1_Missense_Mutation_p.R961H	NM_001271620.1	NP_001258549.1	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	1021					cell differentiation (GO:0030154)|negative regulation of transcription, DNA-templated (GO:0045892)|nervous system development (GO:0007399)|Notch signaling pathway (GO:0007219)|positive regulation of BMP signaling pathway (GO:0030513)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)	p.R1021H(2)		breast(1)|central_nervous_system(1)|endometrium(8)|kidney(6)|large_intestine(16)|lung(47)|ovary(1)|pancreas(2)|prostate(4)|skin(1)|urinary_tract(2)	89		all_cancers(37;0.0155)				GACCACACAGCGGAAGCCCGT	0.602																																																2	Substitution - Missense(2)	kidney(2)											81	75	77					16																	49670001		2199	4300	6499	SO:0001583	missense	23090			AB018303	CCDS32445.1, CCDS61930.1	16q12	2014-01-28				ENSG00000102935		"Zinc fingers, C2H2-type"	16762	protein-coding gene	gene with protein product	"OLF-1/EBF associated zinc finger gene", " Smad- and Olf-interacting zinc finger protein", "early B-cell factor associated zinc finger protein"	604557				9872452, 10660046	Standard	NM_001271620		Approved	KIAA0760, OAZ, Roaz, Ebfaz, Zfp104, NPHP14, JBTS19	uc031qwd.1	Q2M1K9		ENST00000561648.1:c.3062G>A	16.37:g.49670001C>T	ENSP00000455426:p.Arg1021His	Somatic		WXS	Illumina HiSeq	Phase_I	O94860|Q76N04|Q9NZ13	Missense_Mutation	SNP	ENST00000561648.1	37	CCDS32445.1	.	.	.	.	.	.	.	.	.	.	C	20.4	3.990520	0.74589	.	.	ENSG00000102935	ENST00000262383;ENST00000535559	T;T	0.10288	2.89;2.94	5.0	5.0	0.66597	Zinc finger, C2H2-like (1);	0.050236	0.85682	D	0.000000	T	0.22044	0.0531	L	0.27053	0.805	0.46725	D	0.999174	D	0.89917	1.0	D	0.91635	0.999	T	0.03922	-1.0992	9	.	.	.	-38.9493	18.3264	0.90255	0.0:1.0:0.0:0.0	.	1021	Q2M1K9	ZN423_HUMAN	H	1021;904	ENSP00000262383:R1021H;ENSP00000442321:R904H	.	R	-	2	0	ZNF423	48227502	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	6.089000	0.71384	2.342000	0.79632	0.561000	0.74099	CGC		0.602	ZNF423-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000423258.1	NM_015069		T	49670001	C	T	49670001	3	4	580	1	0	0	0	0	1	0	0	0	17910	768	27	1	812	1	ZNF423	16	49670001	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	18468377	49670001	40684752	45	34450										
PHLPP2	23035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr16	71683569	71683569	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	agaggatggagtggctggctTaggggcatccttgatagtgg	18	5	0	2			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr16:71683569T>C	ENST00000568954.1	-	19	3574	c.3196A>G	c.(3196-3198)Aag>Gag	p.K1066E	PHLPP2_ENST00000567016.1_Missense_Mutation_p.K1101E|PHLPP2_ENST00000393524.2_Missense_Mutation_p.K999E|PHLPP2_ENST00000356272.3_Missense_Mutation_p.K1066E|PHLPP2_ENST00000360429.3_Intron|PHLPP2_ENST00000540628.1_Intron			Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein phosphatase 2	1066					epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|protein dephosphorylation (GO:0006470)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|photoreceptor inner segment (GO:0001917)|photoreceptor outer segment membrane (GO:0042622)	metal ion binding (GO:0046872)|protein serine/threonine phosphatase activity (GO:0004722)	p.K1066E(1)		central_nervous_system(1)|endometrium(5)|kidney(5)|large_intestine(7)|lung(15)|ovary(1)|prostate(1)|skin(1)|stomach(1)	37						GTGGCTGGCTTAGGGGCATCC	0.527																																																1	Substitution - Missense(1)	kidney(1)											70	78	76					16																	71683569		2198	4299	6497	SO:0001583	missense	23035			BX647823	CCDS32479.1, CCDS73910.1	16q22.2	2013-01-11	2009-05-26	2009-05-26	ENSG00000040199	ENSG00000040199		"Serine/threonine phosphatases / Protein phosphatases, Mg2+/Mn2+ dependent", "Pleckstrin homology (PH) domain containing"	29149	protein-coding gene	gene with protein product		611066	"PH domain and leucine rich repeat protein phosphatase-like"	PHLPPL		17386267	Standard	NM_001289003		Approved	KIAA0931	uc002fax.3	Q6ZVD8		ENST00000568954.1:c.3196A>G	16.37:g.71683569T>C	ENSP00000457991:p.Lys1066Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A1L374|Q9NV17|Q9Y2E3	Missense_Mutation	SNP	ENST00000568954.1	37	CCDS32479.1	.	.	.	.	.	.	.	.	.	.	T	1.789	-0.479902	0.04383	.	.	ENSG00000040199	ENST00000356272;ENST00000393524	T;T	0.40225	1.57;1.04	5.9	5.9	0.94986	.	0.104149	0.64402	D	0.000001	T	0.31827	0.0809	L	0.50919	1.6	0.28839	N	0.896739	B;B	0.22746	0.074;0.021	B;B	0.25140	0.058;0.019	T	0.37820	-0.9689	10	0.02654	T	1	-24.4828	8.7521	0.34622	0.0:0.083:0.0:0.917	.	999;1066	Q6ZVD8-3;Q6ZVD8	.;PHLP2_HUMAN	E	1066;999	ENSP00000348611:K1066E;ENSP00000377159:K999E	ENSP00000348611:K1066E	K	-	1	0	PHLPP2	70241070	1.000000	0.71417	0.943000	0.38184	0.260000	0.26232	3.400000	0.52594	2.251000	0.74343	0.528000	0.53228	AAG		0.527	PHLPP2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000434139.1	NM_015020		C	71683569	T	C	71683569	3	2	580	1	0	0	0	0	1	0	0	0	11862	1763	61	3	779	3	PHLPP2	16	71683569	Missense_Mutation	SNP	T	TCGA-EU-5905-01A-11D-1669-08	22013568	71683569	18671184	46	34451										
ACCN1	40	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	31618462	31618463	+	Intron	INS	-	-	T													0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	gcccgcagagctcgccgcggINStacttgcaggagagcagcat							TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr17:31618462_31618463insT	ENST00000359872.6	-	2	1317				ASIC2_ENST00000448983.1_5'Flank|ASIC2_ENST00000225823.2_Frame_Shift_Ins_p.Y224fs	NM_001094.4	NP_001085.2	Q16515	ASIC2_HUMAN	acid-sensing (proton-gated) ion channel 2						central nervous system development (GO:0007417)|detection of mechanical stimulus involved in sensory perception (GO:0050974)|ion transmembrane transport (GO:0034220)|monovalent inorganic cation transport (GO:0015672)|negative regulation of apoptotic process (GO:0043066)|peripheral nervous system development (GO:0007422)|phototransduction (GO:0007602)|positive regulation of synapse assembly (GO:0051965)|protein localization to synapse (GO:0035418)|regulation of blood coagulation (GO:0030193)|regulation of gene expression (GO:0010468)|regulation of membrane potential (GO:0042391)|regulation of systemic arterial blood pressure by aortic arch baroreceptor feedback (GO:0003026)|regulation of vasoconstriction (GO:0019229)|response to acid chemical (GO:0001101)|response to acidic pH (GO:0010447)|sensory perception of sound (GO:0007605)|sensory perception of sour taste (GO:0050915)|sodium ion transmembrane transport (GO:0035725)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	dendritic spine (GO:0043197)|integral component of plasma membrane (GO:0005887)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|synapse (GO:0045202)	ion gated channel activity (GO:0022839)|ligand-gated sodium channel activity (GO:0015280)|voltage-gated sodium channel activity (GO:0005248)									Amiloride(DB00594)	GCTCGCCGCGGTACTTGCAGGA	0.688																																																0																																										SO:0001627	intron_variant	0			AL834182	CCDS11276.1, CCDS42296.1	17q11.2-q12	2012-02-23	2012-02-22	2012-02-22	ENSG00000108684	ENSG00000108684		"Ion channels / Acid-sensing (proton-gated) ion channels"	99	protein-coding gene	gene with protein product	"degenerin"	601784	"amiloride-sensitive cation channel 1, neuronal"	ACCN, ACCN1		8921408	Standard	NM_183377		Approved	ASIC2a, BNC1, BNaC1, hBNaC1, MDEG	uc002hhu.3	Q16515	OTTHUMG00000132885	ENST00000359872.6:c.556-179377->A	17.37:g.31618463_31618463dupT		Somatic		WXS	Illumina HiSeq	Phase_I	E9PBX2|Q13553|Q6DJU1|Q8N3E2	Frame_Shift_Del	INS	ENST00000359872.6	37	CCDS42296.1																																																																																				0.688	ASIC2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447552.1	NM_183377, NM_001094		T	31618463	-	T	31618462	6	5	580	0	1	1	1	0	0	0	0	0	128	1256	44	0		0	ACCN1	17	31618462	Intron	INS	-	TCGA-EU-5905-01A-11D-1669-08		31618462	49576748	47	34452										
PRKAR1A	5573	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	66525084	66525084	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	cagtttgaagatgggcagaaGattgtggtgcagggagaacc	16	5	0	5			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr17:66525084G>C	ENST00000589228.1	+	9	971	c.843G>C	c.(841-843)aaG>aaC	p.K281N	PRKAR1A_ENST00000588188.2_Missense_Mutation_p.K281N|PRKAR1A_ENST00000586397.1_Missense_Mutation_p.K281N|PRKAR1A_ENST00000536854.2_Missense_Mutation_p.K281N|PRKAR1A_ENST00000392711.1_Missense_Mutation_p.K281N|PRKAR1A_ENST00000358598.2_Missense_Mutation_p.K281N	NM_001276289.1|NM_001278433.1	NP_001263218.1|NP_001265362.1	P10644	KAP0_HUMAN	protein kinase, cAMP-dependent, regulatory, type I, alpha	281					activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|blood coagulation (GO:0007596)|cardiac muscle cell proliferation (GO:0060038)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|female meiotic division (GO:0007143)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|mesoderm formation (GO:0001707)|negative regulation of cAMP-dependent protein kinase activity (GO:2000480)|negative regulation of meiosis (GO:0045835)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of insulin secretion (GO:0050796)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|sarcomere organization (GO:0045214)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	AMP-activated protein kinase complex (GO:0031588)|cAMP-dependent protein kinase complex (GO:0005952)|cytosol (GO:0005829)|membrane (GO:0016020)|neuromuscular junction (GO:0031594)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	cAMP binding (GO:0030552)|cAMP-dependent protein kinase inhibitor activity (GO:0004862)|cAMP-dependent protein kinase regulator activity (GO:0008603)|protein kinase A catalytic subunit binding (GO:0034236)|ubiquitin protein ligase binding (GO:0031625)	p.K281N(1)		adrenal_gland(4)|breast(2)|endometrium(1)|kidney(1)|large_intestine(5)|liver(2)|lung(8)|soft_tissue(2)|stomach(2)|testis(1)|thyroid(2)|upper_aerodigestive_tract(1)	31	Breast(10;1.64e-13)					ATGGGCAGAAGATTGTGGTGC	0.403			"T, Mis, N, F, S"	RET	papillary thyroid	"myxoma, endocrine, papillary thyroid"			Primary Pigmented Nodular Adrenocortical Disease, Familial;Carney Complex;Cardiac Myxomas, Familial Clustering of																												Ovarian(167;637 1670 33025 39608 46699 51856)	yes	"Dom, Rec"	yes	Carney complex	17	17q23-q24	5573	"protein kinase, cAMP-dependent, regulatory, type I, alpha (tissue specific extinguisher 1)"		"E, M"	1	Substitution - Missense(1)	kidney(1)											161	152	155					17																	66525084		2203	4300	6503	SO:0001583	missense	5573	Familial Cancer Database	iPPNAD, PPNAD1, incl. familial micronodular adrenocortical hyperplasia, PPNAD2;Carney syndrome, NAME syndrome, LAMB syndrome, Familial Myxoma syndrome;		CCDS11678.1, CCDS62307.1	17q24.2	2014-09-17	2012-07-31		ENSG00000108946	ENSG00000108946	2.7.11.1		9388	protein-coding gene	gene with protein product	"Carney complex type 1"	188830	"tissue specific extinguisher 1"	PRKAR1, TSE1		3479018, 10973256	Standard	NM_212471		Approved	CNC1	uc002jhg.4	P10644	OTTHUMG00000180128	ENST00000589228.1:c.843G>C	17.37:g.66525084G>C	ENSP00000464977:p.Lys281Asn	Somatic		WXS	Illumina HiSeq	Phase_I	K7ER48|Q567S7	Missense_Mutation	SNP	ENST00000589228.1	37	CCDS11678.1	.	.	.	.	.	.	.	.	.	.	G	16.61	3.171490	0.57584	.	.	ENSG00000108946	ENST00000358598;ENST00000392711;ENST00000392710;ENST00000536854	D;D;D	0.92647	-3.08;-3.08;-3.08	5.89	4.9	0.64082	Cyclic nucleotide-binding-like (1);RmlC-like jelly roll fold (1);Cyclic nucleotide-binding domain (3);	0.000000	0.85682	D	0.000000	T	0.81716	0.4881	N	0.05230	-0.09	0.80722	D	1	B;B	0.20459	0.045;0.045	B;B	0.22753	0.041;0.041	T	0.75566	-0.3273	10	0.13853	T	0.58	-26.3948	12.9827	0.58572	0.0816:0.0:0.9184:0.0	.	281;281	B2R5T5;P10644	.;KAP0_HUMAN	N	281	ENSP00000351410:K281N;ENSP00000376475:K281N;ENSP00000445625:K281N	ENSP00000351410:K281N	K	+	3	2	PRKAR1A	64036679	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.695000	0.74593	1.403000	0.46800	0.650000	0.86243	AAG		0.403	PRKAR1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449884.1			C	66525084	G	C	66525084	3	2	580	1	0	0	0	0	1	0	0	0	12513	933	33	4	873	4	PRKAR1A	17	66525084	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	34906622	66525084	14670126	48	34453										
ACTG1	71	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	79477756	79477756	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	cgatggaggggcccgactcgTcgtactcctgcttgctaatc	12	13	0	0			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr17:79477756T>C	ENST00000575842.1	-	5	1514	c.1088A>G	c.(1087-1089)gAc>gGc	p.D363G	ACTG1_ENST00000575087.1_Missense_Mutation_p.D363G|ACTG1_ENST00000573283.1_Missense_Mutation_p.D363G|ACTG1_ENST00000331925.2_Missense_Mutation_p.D363G|AC139149.1_ENST00000584254.1_RNA			P63261	ACTG_HUMAN	actin, gamma 1	363					adherens junction organization (GO:0034332)|axon guidance (GO:0007411)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|cellular component movement (GO:0006928)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|membrane organization (GO:0061024)|platelet aggregation (GO:0070527)|retina homeostasis (GO:0001895)|sarcomere organization (GO:0045214)	blood microparticle (GO:0072562)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|filamentous actin (GO:0031941)|membrane (GO:0016020)|myofibril (GO:0030016)|nucleus (GO:0005634)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|structural constituent of cytoskeleton (GO:0005200)	p.D363G(1)		breast(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|lung(8)|ovary(2)|prostate(5)|urinary_tract(1)	29	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0547)			GCCCGACTCGTCGTACTCCTG	0.547																																																1	Substitution - Missense(1)	kidney(1)											88	88	88					17																	79477756		2203	4300	6503	SO:0001583	missense	71				CCDS11782.1	17q25	2010-04-23	2004-05-19		ENSG00000184009	ENSG00000184009			144	protein-coding gene	gene with protein product		102560	"deafness, autosomal dominant 20; deafness, autosomal dominant 26"	ACTG, DFNA20, DFNA26		14684684	Standard	NM_001614		Approved		uc002kal.2	P63261		ENST00000575842.1:c.1088A>G	17.37:g.79477756T>C	ENSP00000458162:p.Asp363Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7C2|P02571|P14104|P99022|Q5U032|Q96E67	Missense_Mutation	SNP	ENST00000575842.1	37	CCDS11782.1	.	.	.	.	.	.	.	.	.	.	t	11.70	1.716671	0.30413	.	.	ENSG00000184009	ENST00000331925;ENST00000447294	D	0.94966	-3.57	4.05	2.96	0.34315	Actin, conserved site (1);	0.000000	0.64402	D	0.000001	D	0.97801	0.9278	H	0.96208	3.785	0.51233	D	0.999911	D	0.55605	0.972	D	0.80764	0.994	D	0.97368	0.9974	10	0.87932	D	0	.	10.372	0.44060	0.0:0.0:0.1653:0.8347	.	363	P63261	ACTG_HUMAN	G	363;321	ENSP00000331514:D363G	ENSP00000331514:D363G	D	-	2	0	ACTG1	77092351	1.000000	0.71417	0.842000	0.33263	0.784000	0.44337	7.467000	0.80930	0.613000	0.30089	0.525000	0.51046	GAC		0.547	ACTG1-012	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000439935.2	NM_001614		C	79477756	T	C	79477756	3	2	580	1	0	0	0	0	1	0	0	0	196	1667	58	3	43	3	ACTG1	17	79477756	Missense_Mutation	SNP	T	TCGA-EU-5905-01A-11D-1669-08	12952672	79477756	1717454	49	34454										
DPP9	91039	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	4704158	4704158	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	ctcaccatgaagccgttcttGccgccgtcgcggcagtggaa	12	14	2	1			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr19:4704158G>A	ENST00000598800.1	-	7	1003	c.498C>T	c.(496-498)ggC>ggT	p.G166G	DPP9_ENST00000597849.1_Silent_p.G195G|DPP9_ENST00000594671.1_Silent_p.G166G|DPP9_ENST00000262960.9_Silent_p.G195G			Q86TI2	DPP9_HUMAN	dipeptidyl-peptidase 9	166						cytoplasm (GO:0005737)|membrane (GO:0016020)	aminopeptidase activity (GO:0004177)|identical protein binding (GO:0042802)|serine-type peptidase activity (GO:0008236)	p.G274G(1)		cervix(2)|endometrium(3)|kidney(3)|large_intestine(2)|lung(6)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	20		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00884)		AGCCGTTCTTGCCGCCGTCGC	0.672																																																1	Substitution - coding silent(1)	kidney(1)											36	44	42					19																	4704158		2033	4170	6203	SO:0001819	synonymous_variant	91039			AF452102	CCDS45928.1	19p13.3	2014-06-11	2006-01-12		ENSG00000142002	ENSG00000142002			18648	protein-coding gene	gene with protein product		608258	"dipeptidylpeptidase 9"				Standard	NM_139159		Approved		uc002mba.3	Q86TI2	OTTHUMG00000182040	ENST00000598800.1:c.498C>T	19.37:g.4704158G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O75273|O75868|Q1ZZB8|Q6AI37|Q6UAL0|Q6ZMT2|Q6ZNJ5|Q8N2J7|Q8N3F5|Q8WXD8|Q96NT8|Q9BVR3	Silent	SNP	ENST00000598800.1	37																																																																																					0.672	DPP9-026	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000459343.2			A	4704158	G	A	4704158	2	1	580	1	0	0	0	0	0	0	0	1	4735	1306	46	2		2	DPP9	19	4704158	Silent	SNP	G	TCGA-EU-5905-01A-11D-1669-08		4704158	54424825	50	34455										
DAND5	199699	broad.mit.edu;ucsc.edu	37	chr19	13084386	13084386	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tcactggcagctcagcctccCgtcgacgggtgaagatatcc	11	14	2	2			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr19:13084386C>G	ENST00000317060.2	+	2	687	c.508C>G	c.(508-510)Cgt>Ggt	p.R170G	DAND5_ENST00000585548.1_3'UTR	NM_152654.2	NP_689867.1	Q8N907	DAND5_HUMAN	DAN domain family member 5, BMP antagonist	170	CTCK.				atrial septum development (GO:0003283)|determination of heart left/right asymmetry (GO:0061371)|determination of left/right asymmetry in lateral mesoderm (GO:0003140)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of nodal signaling pathway (GO:1900108)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|sequestering of nodal from receptor via nodal binding (GO:0038101)|ventricular septum development (GO:0003281)	extracellular region (GO:0005576)	morphogen activity (GO:0016015)	p.R170G(1)		kidney(2)|lung(3)|ovary(1)	6			OV - Ovarian serous cystadenocarcinoma(19;1.87e-18)			CTCAGCCTCCCGTCGACGGGT	0.607																																																1	Substitution - Missense(1)	kidney(1)											133	109	117					19																	13084386		2203	4300	6503	SO:0001583	missense	199699			AK095926	CCDS12291.1	19p13	2013-02-26	2013-02-26			ENSG00000179284			26780	protein-coding gene	gene with protein product		609068	"DAN domain family, member 5"			15254711	Standard	NM_152654		Approved	FLJ38607, CKTSF1B3, DANTE, GREM3, CER2, DTE	uc002mwc.1	Q8N907		ENST00000317060.2:c.508C>G	19.37:g.13084386C>G	ENSP00000323155:p.Arg170Gly	Somatic		WXS	Illumina GAIIx	Phase_I		Missense_Mutation	SNP	ENST00000317060.2	37	CCDS12291.1	.	.	.	.	.	.	.	.	.	.	C	11.69	1.712743	0.30413	.	.	ENSG00000179284	ENST00000317060	T	0.33654	1.4	5.49	2.2	0.27929	DAN (1);	0.906086	0.09091	N	0.849807	T	0.36276	0.0961	L	0.46157	1.445	0.09310	N	1	P	0.38597	0.639	P	0.45071	0.468	T	0.28490	-1.0042	10	0.45353	T	0.12	-1.7171	4.9825	0.14172	0.1679:0.657:0.0:0.1752	.	170	Q8N907	DAND5_HUMAN	G	170	ENSP00000323155:R170G	ENSP00000323155:R170G	R	+	1	0	DAND5	12945386	0.003000	0.15002	0.002000	0.10522	0.065000	0.16274	0.242000	0.18087	0.280000	0.22209	0.655000	0.94253	CGT		0.607	DAND5-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452761.1	NM_152654		G	13084386	C	G	13084386	3	3	580	1	0	0	0	0	1	0	0	0	4232	652	23	4	514	4	DAND5	19	13084386	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	8380228	13084386	46044597	51	34456										
MYO9B	4650	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	17212688	17212688	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	catcaaggacgccattgccaGcctgcggctggacggcacca	12	15	1	0			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr19:17212688G>A	ENST00000594824.1	+	2	308	c.161G>A	c.(160-162)aGc>aAc	p.S54N	MYO9B_ENST00000397274.2_Missense_Mutation_p.S54N|CTD-2528A14.5_ENST00000597045.1_RNA|MYO9B_ENST00000595618.1_Missense_Mutation_p.S54N			Q13459	MYO9B_HUMAN	myosin IXB	54	Ras-associating. {ECO:0000255|PROSITE- ProRule:PRU00166}.				actin filament-based movement (GO:0030048)|establishment of cell polarity (GO:0030010)|lamellipodium morphogenesis (GO:0072673)|macrophage chemotaxis (GO:0048246)|monocyte chemotaxis (GO:0002548)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	actin cytoskeleton (GO:0015629)|cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|filamentous actin (GO:0031941)|filopodium tip (GO:0032433)|lamellipodium (GO:0030027)|membrane (GO:0016020)|myosin complex (GO:0016459)|perinuclear region of cytoplasm (GO:0048471)|ruffle (GO:0001726)	actin binding (GO:0003779)|actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|calmodulin binding (GO:0005516)|microfilament motor activity (GO:0000146)|Rho GTPase activator activity (GO:0005100)|zinc ion binding (GO:0008270)	p.S54N(2)		breast(3)|endometrium(9)|kidney(2)|large_intestine(1)|lung(19)|soft_tissue(1)|urinary_tract(4)	39						GCCATTGCCAGCCTGCGGCTG	0.637																																																2	Substitution - Missense(2)	kidney(2)											40	48	45					19																	17212688		2137	4233	6370	SO:0001583	missense	4650				CCDS46010.1	19p13.1	2011-09-27				ENSG00000099331		"Myosins / Myosin superfamily : Class IX"	7609	protein-coding gene	gene with protein product		602129		CELIAC4		9226381	Standard	NM_004145		Approved		uc010eak.3	Q13459		ENST00000594824.1:c.161G>A	19.37:g.17212688G>A	ENSP00000471367:p.Ser54Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O75314|Q9NUJ2|Q9UHN0	Missense_Mutation	SNP	ENST00000594824.1	37		.	.	.	.	.	.	.	.	.	.	G	0.047	-1.264058	0.01433	.	.	ENSG00000099331	ENST00000397274	T	0.17213	2.29	4.93	1.2	0.21068	Ras-association (3);	0.988038	0.08234	N	0.977007	T	0.08980	0.0222	N	0.16478	0.41	0.09310	N	1	B;B;B	0.09022	0.002;0.002;0.001	B;B;B	0.10450	0.005;0.005;0.005	T	0.38542	-0.9656	10	0.32370	T	0.25	.	1.5822	0.02637	0.1248:0.1735:0.2414:0.4603	.	54;54;60	Q13459;B0I1T6;Q4LE74	MYO9B_HUMAN;.;.	N	54	ENSP00000380444:S54N	ENSP00000380444:S54N	S	+	2	0	MYO9B	17073688	0.000000	0.05858	0.510000	0.27712	0.018000	0.09664	0.009000	0.13219	0.460000	0.27045	-0.169000	0.13324	AGC		0.637	MYO9B-002	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000463236.1			A	17212688	G	A	17212688	3	1	580	1	0	0	0	0	1	0	0	0	10092	971	34	2	163	2	MYO9B	19	17212688	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	4128302	17212688	41916295	52	34457										
RYR1	6261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	38948875	38948875	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	ccggcgagggctggggcggcAacggggtcggcgatgacctc	20	12	0	1			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr19:38948875A>G	ENST00000359596.3	+	18	2110	c.2110A>G	c.(2110-2112)Aac>Gac	p.N704D	RYR1_ENST00000355481.4_Missense_Mutation_p.N704D|RYR1_ENST00000360985.3_Missense_Mutation_p.N704D			P21817	RYR1_HUMAN	ryanodine receptor 1 (skeletal)	704	B30.2/SPRY 1. {ECO:0000255|PROSITE- ProRule:PRU00548}.				calcium ion transport (GO:0006816)|cellular response to caffeine (GO:0071313)|cytosolic calcium ion homeostasis (GO:0051480)|ion transmembrane transport (GO:0034220)|muscle contraction (GO:0006936)|ossification involved in bone maturation (GO:0043931)|outflow tract morphogenesis (GO:0003151)|release of sequestered calcium ion into cytosol (GO:0051209)|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0014808)|response to caffeine (GO:0031000)|response to hypoxia (GO:0001666)|skeletal muscle fiber development (GO:0048741)|skin development (GO:0043588)|transmembrane transport (GO:0055085)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|I band (GO:0031674)|integral component of plasma membrane (GO:0005887)|junctional membrane complex (GO:0030314)|junctional sarcoplasmic reticulum membrane (GO:0014701)|plasma membrane (GO:0005886)|sarcoplasmic reticulum (GO:0016529)|sarcoplasmic reticulum membrane (GO:0033017)|smooth endoplasmic reticulum (GO:0005790)|T-tubule (GO:0030315)|terminal cisterna (GO:0014802)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)|calcium-release channel activity (GO:0015278)|calmodulin binding (GO:0005516)|ryanodine-sensitive calcium-release channel activity (GO:0005219)|voltage-gated calcium channel activity (GO:0005245)	p.N704D(1)		NS(4)|autonomic_ganglia(2)|breast(3)|central_nervous_system(5)|endometrium(26)|haematopoietic_and_lymphoid_tissue(3)|kidney(34)|large_intestine(42)|liver(1)|lung(106)|ovary(11)|pancreas(5)|prostate(9)|skin(12)|stomach(11)|upper_aerodigestive_tract(4)|urinary_tract(7)	285	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Caffeine(DB00201)|Dantrolene(DB01219)|Suramin(DB04786)	CTGGGGCGGCAACGGGGTCGG	0.652																																																1	Substitution - Missense(1)	kidney(1)											63	61	62					19																	38948875		2203	4299	6502	SO:0001583	missense	6261			J05200	CCDS33011.1, CCDS42563.1	19q13.1	2014-09-17				ENSG00000196218		"Ion channels / Ryanodine receptors"	10483	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 137"	180901	"central core disease of muscle"	MHS, MHS1, CCO		1862346, 16621918	Standard	NM_000540		Approved	RYR, PPP1R137	uc002oit.3	P21817		ENST00000359596.3:c.2110A>G	19.37:g.38948875A>G	ENSP00000352608:p.Asn704Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q16314|Q16368|Q9NPK1|Q9P1U4	Missense_Mutation	SNP	ENST00000359596.3	37	CCDS33011.1	.	.	.	.	.	.	.	.	.	.	A	19.07	3.755513	0.69648	.	.	ENSG00000196218	ENST00000359596;ENST00000355481;ENST00000360985	T;T;T	0.70045	-0.45;-0.45;-0.45	5.02	5.02	0.67125	Concanavalin A-like lectin/glucanase (1);SPla/RYanodine receptor subgroup (1);B30.2/SPRY domain (1);SPla/RYanodine receptor SPRY (1);	0.000000	0.64402	U	0.000001	T	0.80465	0.4628	M	0.70903	2.155	0.45330	D	0.998327	D;D	0.89917	0.991;1.0	P;D	0.85130	0.86;0.997	T	0.82647	-0.0354	10	0.66056	D	0.02	.	14.6028	0.68453	1.0:0.0:0.0:0.0	.	704;704	P21817-2;P21817	.;RYR1_HUMAN	D	704	ENSP00000352608:N704D;ENSP00000347667:N704D;ENSP00000354254:N704D	ENSP00000347667:N704D	N	+	1	0	RYR1	43640715	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.139000	0.94554	2.119000	0.64992	0.449000	0.29647	AAC		0.652	RYR1-010	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000462137.1			G	38948875	A	G	38948875	3	3	580	1	0	0	0	0	1	0	0	0	13781	130	5	3	2180	3	RYR1	19	38948875	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08	21736187	38948875	20180108	53	34458										
CSRP2BP	57325	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	18125954	18125954	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	gttcggattgctcagcagatGgcaaggagcagtatgaaagg	15	6	1	2			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr20:18125954G>T	ENST00000435364.3	+	2	678	c.337G>T	c.(337-339)Ggc>Tgc	p.G113C	CSRP2BP_ENST00000489634.2_5'UTR|CSRP2BP_ENST00000377681.3_Missense_Mutation_p.G113C	NM_020536.4	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	113					chromatin organization (GO:0006325)|G2/M transition of mitotic cell cycle (GO:0000086)|histone H3 acetylation (GO:0043966)	Ada2/Gcn5/Ada3 transcription activator complex (GO:0005671)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	histone acetyltransferase activity (GO:0004402)|LIM domain binding (GO:0030274)	p.G113C(1)		NS(1)|breast(1)|endometrium(3)|kidney(3)|large_intestine(7)|lung(12)|ovary(2)|prostate(3)|skin(1)|stomach(1)	34						CTCAGCAGATGGCAAGGAGCA	0.458																																																1	Substitution - Missense(1)	kidney(1)											182	186	185					20																	18125954		2203	4300	6503	SO:0001583	missense	57325			AF252257	CCDS13133.1	20p11.23	2012-06-06			ENSG00000149474	ENSG00000149474			15904	protein-coding gene	gene with protein product	"cysteine rich protein 2 binding protein", "ATAC component 2 homolog (Drosophila)"					9286703, 10924333, 19103755	Standard	NR_028402		Approved	CRP2BP, dJ717M23.1, PRO1194, ATAC2, KAT14	uc021wbb.1	Q9H8E8	OTTHUMG00000031962	ENST00000435364.3:c.337G>T	20.37:g.18125954G>T	ENSP00000392318:p.Gly113Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2I5|Q96GW6|Q96IH3|Q9HBF0|Q9UIY5	Missense_Mutation	SNP	ENST00000435364.3	37	CCDS13133.1	.	.	.	.	.	.	.	.	.	.	G	25.2	4.611761	0.87258	.	.	ENSG00000149474	ENST00000278816;ENST00000377681;ENST00000435364	T;T;T	0.20738	2.05;2.05;2.05	5.28	5.28	0.74379	.	0.056142	0.64402	D	0.000001	T	0.44201	0.1282	M	0.64997	1.995	0.80722	D	1	D	0.71674	0.998	D	0.62955	0.909	T	0.34054	-0.9844	10	0.72032	D	0.01	-22.0886	19.2737	0.94021	0.0:0.0:1.0:0.0	.	113	Q9H8E8	CSR2B_HUMAN	C	113	ENSP00000278816:G113C;ENSP00000366909:G113C;ENSP00000392318:G113C	ENSP00000278816:G113C	G	+	1	0	CSRP2BP	18073954	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	8.895000	0.92512	2.633000	0.89246	0.467000	0.42956	GGC		0.458	CSRP2BP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000078152.5	NM_020536		T	18125954	G	T	18125954	3	4	580	1	0	0	0	0	1	0	0	0	3970	1348	47	4	343	4	CSRP2BP	20	18125954	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08		18125954	44899566	54	34459										
LSM14B	149986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	60701436	60701436	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tttccgagggatggcgccctAcggcccgctggcggccagct	15	15	0	0			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr20:60701436A>G	ENST00000279068.6	+	3	528	c.368A>G	c.(367-369)tAc>tGc	p.Y123C	LSM14B_ENST00000253001.4_Missense_Mutation_p.Y123C|LSM14B_ENST00000370915.1_Missense_Mutation_p.Y123C	NM_144703.2	NP_653304.2	Q9BX40	LS14B_HUMAN	LSM14B, SCD6 homolog B (S. cerevisiae)	123					multicellular organismal development (GO:0007275)|regulation of translation (GO:0006417)	ribonucleoprotein complex (GO:0030529)	poly(A) RNA binding (GO:0044822)	p.Y123C(2)		endometrium(3)|kidney(1)|lung(4)	8	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			ATGGCGCCCTACGGCCCGCTG	0.632																																																2	Substitution - Missense(2)	kidney(2)											45	47	47					20																	60701436		2048	4179	6227	SO:0001583	missense	149986			AF172328	CCDS46626.1	20q13.33	2010-01-27	2006-12-21	2006-01-24	ENSG00000149657	ENSG00000149657			15887	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 40", "family with sequence similarity 61, member B", "LSM14 homolog B (SCD6, S. cerevisiae)"	C20orf40, FAM61B			Standard	NM_144703		Approved	FT005, bA11M20.3, FLJ25473, LSM13, RAP55B	uc010gjy.1	Q9BX40	OTTHUMG00000032901	ENST00000279068.6:c.368A>G	20.37:g.60701436A>G	ENSP00000279068:p.Tyr123Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PFW8|Q96LH8	Missense_Mutation	SNP	ENST00000279068.6	37	CCDS46626.1	.	.	.	.	.	.	.	.	.	.	A	20.8	4.057621	0.76074	.	.	ENSG00000149657	ENST00000370915;ENST00000279068;ENST00000253001;ENST00000444156;ENST00000400318;ENST00000279069;ENST00000370906;ENST00000361670	T;T;T;T	0.60672	0.8;0.83;0.78;0.17	5.42	5.42	0.78866	.	0.235442	0.45126	D	0.000387	T	0.76637	0.4015	M	0.78801	2.425	0.53005	D	0.999967	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;0.998	D;D;D;D;D	0.85130	0.981;0.991;0.996;0.997;0.982	T	0.80241	-0.1464	10	0.87932	D	0	.	15.4581	0.75330	1.0:0.0:0.0:0.0	.	4;4;123;149;123	E9PG81;C9J454;Q9BX40;Q5TBQ0;Q9BX40-2	.;.;LS14B_HUMAN;.;.	C	123;123;123;4;149;123;4;4	ENSP00000279068:Y123C;ENSP00000253001:Y123C;ENSP00000383172:Y149C;ENSP00000355209:Y4C	ENSP00000253001:Y123C	Y	+	2	0	LSM14B	60134831	1.000000	0.71417	1.000000	0.80357	0.905000	0.53344	7.172000	0.77604	2.046000	0.60703	0.418000	0.28097	TAC		0.632	LSM14B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079996.4	NM_144703		G	60701436	A	G	60701436	3	3	580	1	0	0	0	0	1	0	0	0	9062	391	14	3	378	3	LSM14B	20	60701436	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08	42575482	60701436	2324084	55	34460										
SLCO4A1	28231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	61300316	61300316	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	cccatcgccttcggctgggtGatcgacaaggcctgtctgct	12	14	1	1			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr20:61300316G>T	ENST00000370507.1	+	10	2007	c.1911G>T	c.(1909-1911)gtG>gtT	p.V637V	SLCO4A1_ENST00000470412.1_3'UTR|RP11-93B14.5_ENST00000433126.1_RNA|RP11-93B14.5_ENST00000411824.1_RNA|RP11-93B14.5_ENST00000451648.1_RNA|SLCO4A1_ENST00000217159.1_Silent_p.V637V			Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family, member 4A1	637					sodium-independent organic anion transport (GO:0043252)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)	p.V637V(1)		endometrium(6)|kidney(2)|large_intestine(1)|lung(7)|ovary(3)|prostate(2)	21	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)		Benzylpenicillin(DB01053)|Conjugated Estrogens(DB00286)|Dextrothyroxine(DB00509)|Digoxin(DB00390)|Dinoprostone(DB00917)|Estradiol(DB00783)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Liotrix(DB01583)	TCGGCTGGGTGATCGACAAGG	0.647											OREG0026115	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																									Pancreas(168;741 2006 10379 40139 45334)											1	Substitution - coding silent(1)	kidney(1)											37	38	37					20																	61300316		2203	4299	6502	SO:0001819	synonymous_variant	28231			AB031051	CCDS13501.1	20q13.1	2013-05-22	2003-11-25	2003-11-26	ENSG00000101187	ENSG00000101187		"Solute carriers"	10953	protein-coding gene	gene with protein product		612436	"solute carrier family 21 (organic anion transporter), member 12"	SLC21A12		10873595	Standard	NM_016354		Approved	OATP-E, OATP4A1	uc002ydb.1	Q96BD0	OTTHUMG00000032923	ENST00000370507.1:c.1911G>T	20.37:g.61300316G>T		Somatic	1052	WXS	Illumina HiSeq	Phase_I	Q9H4T7|Q9H4T8|Q9H8P2|Q9NWX8|Q9UI35|Q9UIG7	Silent	SNP	ENST00000370507.1	37	CCDS13501.1																																																																																				0.647	SLCO4A1-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080048.2	NM_016354		T	61300316	G	T	61300316	2	4	580	1	0	0	0	0	0	0	0	1	14742	1277	45	4		4	SLCO4A1	20	61300316	Silent	SNP	G	TCGA-EU-5905-01A-11D-1669-08	598880	61300316	1725204	56	34461										
KCNQ2	3785	broad.mit.edu	37	chr20	62050979	62050979	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tgttccgcggtacctagagcGtccggggcagcatccacaca	12	14	0	1	rs368720575		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr20:62050979G>A	ENST00000359125.2	-	12	1468	c.1294C>T	c.(1294-1296)Cgc>Tgc	p.R432C	KCNQ2_ENST00000344462.4_Intron|KCNQ2_ENST00000360480.3_Intron|KCNQ2_ENST00000357249.2_Intron|KCNQ2_ENST00000359689.1_Missense_Mutation_p.R432C|KCNQ2_ENST00000354587.3_Intron|KCNQ2_ENST00000370224.1_Intron	NM_172107.2	NP_742105.1	O43526	KCNQ2_HUMAN	potassium voltage-gated channel, KQT-like subfamily, member 2	432					axon guidance (GO:0007411)|nervous system development (GO:0007399)|potassium ion transport (GO:0006813)|synaptic transmission (GO:0007268)|transmission of nerve impulse (GO:0019226)	axon initial segment (GO:0043194)|node of Ranvier (GO:0033268)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	ankyrin binding (GO:0030506)|delayed rectifier potassium channel activity (GO:0005251)|potassium channel activity (GO:0005267)|voltage-gated potassium channel activity (GO:0005249)	p.R432C(1)		biliary_tract(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(4)|liver(1)|lung(30)|ovary(2)|prostate(4)|skin(3)|upper_aerodigestive_tract(1)	65	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)|Diclofenac(DB00586)|Ezogabine(DB04953)|Meclofenamic acid(DB00939)	TACCTAGAGCGTCCGGGGCAG	0.662																																																1	Substitution - Missense(1)	kidney(1)						G	CYS/ARG,,,	1,4403	2.1+/-5.4	0,1,2201	41	38	39		1294,,,	3.8	1	20		39	0,8598		0,0,4299	no	missense,intron,intron,intron	KCNQ2	NM_172107.2,NM_004518.4,NM_172106.1,NM_172108.3	180,,,	0,1,6500	AA,AG,GG		0.0,0.0227,0.0077	possibly-damaging,,,	432/873,,,	62050979	1,13001	2202	4299	6501	SO:0001583	missense	3785			AF033348	CCDS13518.1, CCDS13519.1, CCDS13520.1, CCDS13521.1, CCDS46629.1	20q13.33	2012-07-05			ENSG00000075043	ENSG00000075043		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6296	protein-coding gene	gene with protein product		602235		EBN, EBN1		9425895, 16382104	Standard	NM_172107		Approved	Kv7.2, ENB1, BFNC, KCNA11, HNSPC	uc002yex.3	O43526	OTTHUMG00000033049	ENST00000359125.2:c.1294C>T	20.37:g.62050979G>A	ENSP00000352035:p.Arg432Cys	Somatic		WXS	Illumina GAIIx	Phase_I	O43796|O75580|O95845|Q4VXP4|Q4VXR6|Q5VYT8|Q96J59|Q99454	Missense_Mutation	SNP	ENST00000359125.2	37	CCDS13520.1	.	.	.	.	.	.	.	.	.	.	G	15.79	2.938533	0.52972	2.27E-4	0.0	ENSG00000075043	ENST00000359125;ENST00000359689	D;D	0.99098	-5.42;-5.42	4.83	3.81	0.43845	.	.	.	.	.	D	0.94958	0.8369	N	0.14661	0.345	0.80722	D	1	P	0.39116	0.66	B	0.30646	0.118	D	0.94631	0.7822	9	0.56958	D	0.05	.	9.4771	0.38878	0.0:0.0:0.6191:0.3809	.	432	O43526	KCNQ2_HUMAN	C	432	ENSP00000352035:R432C;ENSP00000352718:R432C	ENSP00000352035:R432C	R	-	1	0	KCNQ2	61521423	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	4.218000	0.58554	2.227000	0.72691	0.655000	0.94253	CGC		0.662	KCNQ2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000080353.1	NM_172109		A	62050979	G	A	62050979	3	1	580	1	0	0	0	0	1	0	0	0	8090	1145	40	1	1348	1	KCNQ2	20	62050979	Missense_Mutation	SNP	G	TCGA-EU-5905-01A-11D-1669-08	750663	62050979	974541	57	34462										
TIAM1	7074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu|hgsc.bcm.edu;ucsc.edu	37	chr21	32624302	32624303	+	Missense_Mutation	DNP	CC	CC	AA													0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	gtggtgctcatctccagctcCcgccggaagttctcgtacac							TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr21:32624302_32624303CC>AA	ENST00000286827.3	-	6	1637_1638	c.1166_1167GG>TT	c.(1165-1167)cGG>cTT	p.R389L	TIAM1_ENST00000541036.1_Missense_Mutation_p.R389L|TIAM1_ENST00000469412.1_5'UTR	NM_003253.2	NP_003244.2	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	389					apoptotic signaling pathway (GO:0097190)|cell migration (GO:0016477)|cell-matrix adhesion (GO:0007160)|ephrin receptor signaling pathway (GO:0048013)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of axonogenesis (GO:0050772)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of Rho GTPase activity (GO:0032321)|Rac protein signal transduction (GO:0016601)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cell-cell contact zone (GO:0044291)|cell-cell junction (GO:0005911)|cytosol (GO:0005829)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)	phospholipid binding (GO:0005543)|Rac guanyl-nucleotide exchange factor activity (GO:0030676)|receptor signaling protein activity (GO:0005057)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)	p.R389R(2)|p.R389>?(2)		autonomic_ganglia(3)|breast(7)|central_nervous_system(2)|endometrium(13)|kidney(4)|large_intestine(33)|lung(44)|ovary(2)|prostate(3)|skin(2)|urinary_tract(2)	115						TCTCCAGCTCCCGCCGGAAGTT	0.683																																																4	Substitution - coding silent(2)|Complex(2)	kidney(4)																																								SO:0001583	missense	7074				CCDS13609.1	21q22.1	2013-01-10			ENSG00000156299	ENSG00000156299		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	11805	protein-coding gene	gene with protein product		600687				8595894, 15340013	Standard	NM_003253		Approved		uc002yow.1	Q13009	OTTHUMG00000084869	ENST00000286827.3:c.1166_1167delinsAA	21.37:g.32624302_32624303delinsAA	ENSP00000286827:p.Arg389Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLR6|F5GZ53|Q17RT7	Silent|Missense_Mutation	SNP	ENST00000286827.3	37	CCDS13609.1																																																																																				0.683	TIAM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000192552.1	NM_003253		AA	32624303	CC	AA	32624302	3	1	580	1	0	0	0	0	1	0	0	0	15902	610	22	4	3704	4	TIAM1	21	32624302	Missense_Mutation	DNP	CC	TCGA-EU-5905-01A-11D-1669-08		32624302	15505593	58	34463										
GCFC1	94104	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	34120909	34120909	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tctttgtaggatgtgtagtaTtttgaacgccatgcttcaaa	9	6	2	1	rs371129196		TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr21:34120909T>C	ENST00000331923.4	-	11	2013	c.1824A>G	c.(1822-1824)aaA>aaG	p.K608K	PAXBP1_ENST00000290178.4_Silent_p.K608K	NM_016631.3	NP_057715.2	Q9Y5B6	PAXB1_HUMAN	PAX3 and PAX7 binding protein 1	608					muscle organ development (GO:0007517)|positive regulation of histone methylation (GO:0031062)|positive regulation of myoblast proliferation (GO:2000288)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of satellite cell proliferation (GO:0014842)|transcription, DNA-templated (GO:0006351)	cytosol (GO:0005829)|nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.K608K(1)									ATGTGTAGTATTTTGAACGCC	0.383																																																1	Substitution - coding silent(1)	kidney(1)						T	,	1,4405	2.1+/-5.4	0,1,2202	104	99	101		1824,1824	2.3	1	21		101	0,8600		0,0,4300	no	coding-synonymous,coding-synonymous	GCFC1	NM_013329.3,NM_016631.3	,	0,1,6502	CC,CT,TT		0.0,0.0227,0.0077	,	608/816,608/918	34120909	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	0			AF231920	CCDS13619.1, CCDS33541.1	21q22.11	2014-01-23	2013-01-08	2013-01-08	ENSG00000159086	ENSG00000159086			13579	protein-coding gene	gene with protein product	"functional spliceosome-associated protein 105", "GC-rich sequence DNA-binding factor candidate"		"chromosome 21 open reading frame 66", "GC-rich sequence DNA-binding factor 1"	C21orf66, GCFC1		11707072, 22862948	Standard	NM_016631		Approved	GCFC, fSAP105	uc002yqn.3	Q9Y5B6	OTTHUMG00000064980	ENST00000331923.4:c.1824A>G	21.37:g.34120909T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DSE7|Q96DU8|Q9NYQ0	Silent	SNP	ENST00000331923.4	37	CCDS13619.1																																																																																				0.383	PAXBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000139563.1	NM_013329		C	34120909	T	C	34120909	2	2	580	1	0	0	0	0	0	0	0	1	6296	1490	52	3		3	GCFC1	21	34120909	Silent	SNP	T	TCGA-EU-5905-01A-11D-1669-08	1496607	34120909	14008986	59	34464										
MCM3AP	8888	broad.mit.edu;ucsc.edu	37	chr21	47705106	47705106	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	aaagagaaggttgaccaaatCgaaatggcggcttagatgga	13	5	0	3			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chr21:47705106C>A	ENST00000397708.1	-	2	349	c.95G>T	c.(94-96)cGa>cTa	p.R32L	YBEY_ENST00000397692.1_5'Flank|YBEY_ENST00000397691.1_5'Flank|YBEY_ENST00000339195.6_5'Flank|YBEY_ENST00000397694.1_5'Flank|YBEY_ENST00000397701.4_5'Flank|MCM3AP_ENST00000291688.1_Missense_Mutation_p.R32L|YBEY_ENST00000329319.3_5'Flank			O60318	GANP_HUMAN	minichromosome maintenance complex component 3 associated protein	32					DNA replication (GO:0006260)|immune system process (GO:0002376)|mRNA transport (GO:0051028)|protein import into nucleus (GO:0006606)	cytosol (GO:0005829)|nuclear pore (GO:0005643)|nucleus (GO:0005634)	DNA binding (GO:0003677)|transferase activity, transferring acyl groups (GO:0016746)	p.R32L(1)		NS(1)|breast(2)|central_nervous_system(1)|endometrium(10)|kidney(5)|large_intestine(17)|lung(24)|ovary(4)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	72	Breast(49;0.112)					TTGACCAAATCGAAATGGCGG	0.458																																																1	Substitution - Missense(1)	kidney(1)											73	76	75					21																	47705106		2203	4300	6503	SO:0001583	missense	8888			AB005543	CCDS13734.1	21q22.3	2012-12-19	2007-04-04		ENSG00000160294	ENSG00000160294			6946	protein-coding gene	gene with protein product	"germinal-centre associated nuclear protein"	603294	"minichromosome maintenance deficient (S. cerevisiae) 3-associated protein", "MCM3 minichromosome maintenance deficient 3 (S. cerevisiae) associated protein"			9712829, 16914116, 21195085	Standard	XM_005261205		Approved	Map80, KIAA0572, GANP, SAC3	uc002zir.1	O60318	OTTHUMG00000090630	ENST00000397708.1:c.95G>T	21.37:g.47705106C>A	ENSP00000380820:p.Arg32Leu	Somatic		WXS	Illumina GAIIx	Phase_I	C9JL56|Q2M3C1|Q6PJP6|Q9BSY5|Q9UMT4	Missense_Mutation	SNP	ENST00000397708.1	37	CCDS13734.1	.	.	.	.	.	.	.	.	.	.	C	14.60	2.583022	0.46006	.	.	ENSG00000160294	ENST00000397708;ENST00000291688;ENST00000426537	T;T	0.03386	3.95;3.95	5.57	0.657	0.17850	.	0.708209	0.13075	N	0.415761	T	0.02230	0.0069	L	0.29908	0.895	0.27233	N	0.959352	P	0.40515	0.719	B	0.29524	0.103	T	0.46091	-0.9216	10	0.38643	T	0.18	-0.1106	5.0586	0.14546	0.0:0.4571:0.1428:0.4	.	32	O60318	MCM3A_HUMAN	L	32	ENSP00000380820:R32L;ENSP00000291688:R32L	ENSP00000291688:R32L	R	-	2	0	MCM3AP	46529534	1.000000	0.71417	0.040000	0.18447	0.850000	0.48378	0.579000	0.23788	-0.154000	0.11118	0.561000	0.74099	CGA		0.458	MCM3AP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207254.1	NM_003906		A	47705106	C	A	47705106	3	1	580	1	0	0	0	0	1	0	0	0	9395	884	31	4	5959	4	MCM3AP	21	47705106	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08	13584197	47705106	424789	60	34465										
CCNB3	85417	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	50054338	50054338	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	tcccccaaattggaaccagcCcatatgtgtttagcaccacc	6	15	0	0			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chrX:50054338C>A	ENST00000376042.1	+	6	3467	c.3169C>A	c.(3169-3171)Cca>Aca	p.P1057T	CCNB3_ENST00000376038.1_Intron|CCNB3_ENST00000348603.2_Intron|CCNB3_ENST00000276014.7_Missense_Mutation_p.P1057T			Q8WWL7	CCNB3_HUMAN	cyclin B3	1057					meiotic nuclear division (GO:0007126)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of G2/M transition of mitotic cell cycle (GO:0010389)	nucleus (GO:0005634)		p.P1057T(2)		breast(3)|cervix(1)|endometrium(5)|kidney(4)|large_intestine(9)|lung(41)|ovary(4)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	75	Ovarian(276;0.236)					TGGAACCAGCCCATATGTGTT	0.522																																																2	Substitution - Missense(2)	kidney(2)											115	92	100					X																	50054338		2203	4300	6503	SO:0001583	missense	85417			AJ314764	CCDS14331.1, CCDS14332.1	Xp11	2008-07-03			ENSG00000147082	ENSG00000147082			18709	protein-coding gene	gene with protein product		300456				11846420, 12185076	Standard	XM_006724610		Approved		uc004doy.3	Q8WWL7	OTTHUMG00000021519	ENST00000376042.1:c.3169C>A	X.37:g.50054338C>A	ENSP00000365210:p.Pro1057Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B1AQI5|B1AQI6|Q96SB5|Q96SB6|Q96SB7|Q9NT38	Missense_Mutation	SNP	ENST00000376042.1	37	CCDS14331.1	.	.	.	.	.	.	.	.	.	.	C	9.251	1.040803	0.19669	.	.	ENSG00000147082	ENST00000376042;ENST00000276014	T;T	0.19938	2.11;2.11	2.74	-0.0331	0.13902	.	718.655000	0.00166	N	0.000018	T	0.17916	0.0430	N	0.24115	0.695	0.09310	N	1	D	0.56287	0.975	P	0.46362	0.514	T	0.10989	-1.0606	9	.	.	.	.	5.0148	0.14330	0.0:0.514:0.0:0.486	.	1057	Q8WWL7	CCNB3_HUMAN	T	1057	ENSP00000365210:P1057T;ENSP00000276014:P1057T	.	P	+	1	0	CCNB3	50071078	0.000000	0.05858	0.003000	0.11579	0.007000	0.05969	-1.636000	0.02016	-0.139000	0.11414	0.529000	0.55759	CCA		0.522	CCNB3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056558.1			A	50054338	C	A	50054338	3	1	580	1	0	0	0	0	1	0	0	0	2916	623	22	4	3183	4	CCNB3	23	50054338	Missense_Mutation	SNP	C	TCGA-EU-5905-01A-11D-1669-08		50054338	105216222	61	34466										
VGLL1	51442	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chrX	135638638	135638638	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.972881355932203	0.972881355932203	0.972881355932203	1	1	0	gagttagagacacctgggaaAtactcacttacaccaccaaa	7	11	1	1			TCGA-EU-5905-01A-11D-1669-08	TCGA-EU-5905-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	091c18b6-bfc2-4353-9eba-ebc46c2c18c5	75193f95-bb70-4f8b-90df-9c2ff7df4f8d	g.chrX:135638638A>T	ENST00000370634.3	+	5	887	c.717A>T	c.(715-717)aaA>aaT	p.K239N	VGLL1_ENST00000470358.1_3'UTR	NM_016267.3	NP_057351.1	Q99990	VGLL1_HUMAN	vestigial-like family member 1	239					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)	p.K239N(1)		breast(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(7)|ovary(1)|stomach(1)|upper_aerodigestive_tract(1)	20	Acute lymphoblastic leukemia(192;0.000127)					CACCTGGGAAATACTCACTTA	0.478																																																1	Substitution - Missense(1)	kidney(1)											177	146	157					X																	135638638		2203	4300	6503	SO:0001583	missense	51442			AF137387	CCDS14658.1	Xq26.3	2014-03-03	2014-03-03		ENSG00000102243	ENSG00000102243			20985	protein-coding gene	gene with protein product		300583	"vestigial like 1 (Drosophila)"			10518497	Standard	NM_016267		Approved	TONDU, TDU	uc004ezy.3	Q99990	OTTHUMG00000022509	ENST00000370634.3:c.717A>T	X.37:g.135638638A>T	ENSP00000359668:p.Lys239Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q5H915	Missense_Mutation	SNP	ENST00000370634.3	37	CCDS14658.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	a|a	9.656|9.656	1.142817|1.142817	0.21205|0.21205	.|.	.|.	ENSG00000102243|ENSG00000102243	ENST00000440515|ENST00000370634;ENST00000430688;ENST00000456412	.|T;T	.|0.58797	.|0.66;0.31	3.86|3.86	-4.41|-4.41	0.03590|0.03590	.|.	.|2.199070	.|0.02330	.|N	.|0.073837	T|T	0.33352|0.33352	0.0860|0.0860	N|N	0.08118|0.08118	0|0	0.09310|0.09310	N|N	1|1	.|P	.|0.39480	.|0.675	.|B	.|0.34242	.|0.178	T|T	0.37361|0.37361	-0.9709|-0.9709	5|10	.|0.87932	.|D	.|0	.|.	6.8193|6.8193	0.23849|0.23849	0.3144:0.1626:0.523:0.0|0.3144:0.1626:0.523:0.0	.|.	.|239	.|Q99990	.|VGLL1_HUMAN	L|N	157|239;96;41	.|ENSP00000359668:K239N;ENSP00000388868:K41N	.|ENSP00000359668:K239N	I|K	+|+	1|3	0|2	VGLL1|VGLL1	135466304|135466304	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.030000|0.030000	0.12068|0.12068	-1.282000|-1.282000	0.02799|0.02799	-1.186000|-1.186000	0.02713|0.02713	0.478000|0.478000	0.44815|0.44815	ATA|AAA		0.478	VGLL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058493.1	NM_016267		T	135638638	A	T	135638638	3	4	580	1	0	0	0	0	1	0	0	0	17170	98	4	5	731	5	VGLL1	23	135638638	Missense_Mutation	SNP	A	TCGA-EU-5905-01A-11D-1669-08	85584300	135638638	19631922	62	34467										
RSC1A1	6248	hgsc.bcm.edu;ucsc.edu	37	chr1	15987206	15987206	+	Frame_Shift_Del	DEL	T	T	-													0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	attggtgcattggatctcacTttagataatcccttgatgga							TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr1:15987206delT	ENST00000345034.1	+	1	843	c.843delT	c.(841-843)actfs	p.T281fs	DDI2_ENST00000480945.1_3'UTR	NM_006511.1	NP_006502.1	Q92681	RSCA1_HUMAN	regulatory solute carrier protein, family 1, member 1	281					intestinal absorption (GO:0050892)|negative regulation of transport (GO:0051051)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)|transport (GO:0006810)	brush border (GO:0005903)|cell junction (GO:0030054)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ion channel inhibitor activity (GO:0008200)			kidney(1)|large_intestine(3)|lung(6)|ovary(1)	11		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)		TGGATCTCACTTTAGATAATC	0.388																																																0													76	74	75					1																	15987206		2203	4300	6503	SO:0001589	frameshift_variant	6248			BN000122, X82877	CCDS161.1	1p36.1	1998-08-25			ENSG00000215695	ENSG00000215695			10458	protein-coding gene	gene with protein product		601966					Standard	NM_006511		Approved	RS1	uc010obn.2	Q92681	OTTHUMG00000067830	ENST00000345034.1:c.843delT	1.37:g.15987206delT	ENSP00000341963:p.Thr281fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBP5	Frame_Shift_Del	DEL	ENST00000345034.1	37	CCDS161.1																																																																																				0.388	RSC1A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000145500.1	NM_006511		-	15987206	T	-	15987206	7	5	581	1	0	1	0	1	0	0	0	0	13711	1596	56	0	845	0	RSC1A1	1	15987206	Frame_Shift_Del	DEL	T	TCGA-EU-5906-01A-11D-1669-08		15987206	233263415	1	34468										
C8A	731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	57351710	57351710	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	cagtcattaatggagcttccAgatcagtacaattatggcat	8	8	2	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr1:57351710A>T	ENST00000361249.3	+	7	1062	c.966A>T	c.(964-966)ccA>ccT	p.P322P		NM_000562.2	NP_000553.1	P07357	CO8A_HUMAN	complement component 8, alpha polypeptide	322	MACPF. {ECO:0000255|PROSITE- ProRule:PRU00745}.				complement activation (GO:0006956)|complement activation, alternative pathway (GO:0006957)|complement activation, classical pathway (GO:0006958)|cytolysis (GO:0019835)|immune response (GO:0006955)|innate immune response (GO:0045087)|regulation of complement activation (GO:0030449)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|membrane attack complex (GO:0005579)		p.P322P(1)		NS(1)|breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(25)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	43						TGGAGCTTCCAGATCAGTACA	0.413																																																1	Substitution - coding silent(1)	kidney(1)											118	97	104					1																	57351710		2203	4300	6503	SO:0001819	synonymous_variant	731			M16974	CCDS606.1	1p32.2	2014-09-17			ENSG00000157131	ENSG00000157131		"Complement system"	1352	protein-coding gene	gene with protein product		120950					Standard	NM_000562		Approved		uc001cyo.2	P07357	OTTHUMG00000008306	ENST00000361249.3:c.966A>T	1.37:g.57351710A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2RUI4|A2RUI5|Q13668|Q9H130	Silent	SNP	ENST00000361249.3	37	CCDS606.1																																																																																				0.413	C8A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000022890.1	NM_000562		T	57351710	A	T	57351710	2	4	581	1	0	0	0	0	0	0	0	1	2418	175	7	5		5	C8A	1	57351710	Silent	SNP	A	TCGA-EU-5906-01A-11D-1669-08	41364504	57351710	191898911	2	34469										
CTH	1491	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	70896063	70896063	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	aagccttcataatagacttcGtttcttgcaaaactgtaagt	6	8	2	1	rs147044875		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr1:70896063G>A	ENST00000370938.3	+	7	854	c.710G>A	c.(709-711)cGt>cAt	p.R237H	CTH_ENST00000346806.2_Missense_Mutation_p.R193H|CTH_ENST00000411986.2_Missense_Mutation_p.R205H|CTH_ENST00000464926.1_3'UTR	NM_001902.5	NP_001893.2	Q96IQ7	VSIG2_HUMAN	cystathionine gamma-lyase	0						integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)		p.R237H(1)		breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(6)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	18						AATAGACTTCGTTTCTTGCAA	0.343																																																1	Substitution - Missense(1)	kidney(1)						G	HIS/ARG,HIS/ARG,HIS/ARG	0,4406		0,0,2203	99	99	99		614,710,578	3.5	1	1	dbSNP_134	99	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,missense	CTH	NM_001190463.1,NM_001902.5,NM_153742.4	29,29,29	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	benign,benign,benign	205/374,237/406,193/362	70896063	1,13005	2203	4300	6503	SO:0001583	missense	1491			BC015807	CCDS650.1, CCDS651.1, CCDS53333.1	1p31.1	2014-06-24	2014-06-24		ENSG00000116761	ENSG00000116761	4.4.1.1		2501	protein-coding gene	gene with protein product		607657	"cystathionase (cystathionine gamma-lyase)"			1339280	Standard	NM_001902		Approved		uc001dfd.3	P32929	OTTHUMG00000009352	ENST00000370938.3:c.710G>A	1.37:g.70896063G>A	ENSP00000359976:p.Arg237His	Somatic		WXS	Illumina HiSeq	Phase_I	O95791|Q9NX42	Missense_Mutation	SNP	ENST00000370938.3	37	CCDS650.1	.	.	.	.	.	.	.	.	.	.	G	5.387	0.256627	0.10185	0.0	1.16E-4	ENSG00000116761	ENST00000411986;ENST00000370938;ENST00000346806	D;D;D	0.82711	-1.64;-1.64;-1.64	5.45	3.47	0.39725	Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (1);Pyridoxal phosphate-dependent transferase, major domain (1);	0.154309	0.56097	D	0.000033	T	0.60353	0.2262	L	0.60455	1.87	0.32160	N	0.583024	B;B;B	0.32731	0.382;0.218;0.325	B;B;B	0.29785	0.094;0.083;0.107	T	0.51450	-0.8704	10	0.14656	T	0.56	-16.4804	5.8082	0.18452	0.1908:0.1716:0.6376:0.0	.	205;193;237	E9PDV0;P32929-2;P32929	.;.;CGL_HUMAN	H	205;237;193	ENSP00000413407:R205H;ENSP00000359976:R237H;ENSP00000311554:R193H	ENSP00000311554:R193H	R	+	2	0	CTH	70668651	1.000000	0.71417	0.976000	0.42696	0.086000	0.17979	3.131000	0.50515	2.732000	0.93576	0.650000	0.86243	CGT		0.343	CTH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025918.1	NM_001902		A	70896063	G	A	70896063	3	1	581	1	0	0	0	0	1	0	0	0	4011	1145	40	1	736	1	CTH	1	70896063	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	13544353	70896063	178354558	3	34470										
BAT2L2	23215	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	171556219	171556219	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	caacctctaattgctttgccTcagactcttcagcccccatt	4	16	4	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr1:171556219T>A	ENST00000338920.4	+	31	8058	c.7821T>A	c.(7819-7821)ccT>ccA	p.P2607P	PRRC2C_ENST00000367742.3_Silent_p.P2609P|PRRC2C_ENST00000426496.2_Silent_p.P2542P|PRRC2C_ENST00000392078.3_Silent_p.P2609P	NM_015172.3	NP_055987.2	Q9Y520	PRC2C_HUMAN	proline-rich coiled-coil 2C	2607	Gln-rich.				hematopoietic progenitor cell differentiation (GO:0002244)	membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)	p.P2609P(2)									TTGCTTTGCCTCAGACTCTTC	0.463																																																2	Substitution - coding silent(2)	kidney(2)											94	80	85					1																	171556219		2203	4300	6503	SO:0001819	synonymous_variant	23215			AL096857	CCDS1296.2	1q24.3	2012-07-18	2010-12-09	2010-12-09	ENSG00000117523	ENSG00000117523			24903	protein-coding gene	gene with protein product			"BAT2 domain containing 1", "HLA-B associated transcript 2-like 2"	BAT2D1, BAT2L2		10470851, 12443540	Standard	NM_015172		Approved	KIAA1096, XTP2	uc010pmg.2	Q9Y520	OTTHUMG00000034665	ENST00000338920.4:c.7821T>A	1.37:g.171556219T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q05DM8|Q49A39|Q6PD54|Q9H2N2|Q9HA05|Q9NSM8|Q9NXL3|Q9UF29|Q9UPQ6	Silent	SNP	ENST00000338920.4	37	CCDS1296.2	.	.	.	.	.	.	.	.	.	.	T	11.18	1.561425	0.27915	.	.	ENSG00000117523	ENST00000495585	.	.	.	5.04	-1.82	0.07857	.	.	.	.	.	T	0.21631	0.0521	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.32508	-0.9904	4	.	.	.	.	0.657	0.00836	0.3274:0.1859:0.1112:0.3756	.	.	.	.	H	1090	.	.	L	+	2	0	PRRC2C	169822843	0.945000	0.32115	0.997000	0.53966	0.996000	0.88848	-0.099000	0.11007	-0.239000	0.09710	0.377000	0.23210	CTC		0.463	PRRC2C-010	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000314826.4	NM_015172		A	171556219	T	A	171556219	2	1	581	1	0	0	0	0	0	0	0	1	1321	1538	54	5		5	BAT2L2	1	171556219	Silent	SNP	T	TCGA-EU-5906-01A-11D-1669-08	100660156	171556219	77694402	4	34471										
C1orf31	388753	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	234509989	234509989	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	ccaacagcttcatcgcagtaGgaatggcagccccatctatg	9	13	2	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr1:234509989G>T	ENST00000366613.1	+	2	172	c.136G>T	c.(136-138)Gga>Tga	p.G46*	COA6_ENST00000366612.1_5'UTR|COA6_ENST00000366615.4_Nonsense_Mutation_p.G76*|RP5-827C21.4_ENST00000451795.1_RNA|RP5-827C21.6_ENST00000610233.1_RNA	NM_001012985.2	NP_001013003.1	Q5JTJ3	COA6_HUMAN	cytochrome c oxidase assembly factor 6 homolog (S. cerevisiae)	46						mitochondrion (GO:0005739)	cytochrome-c oxidase activity (GO:0004129)|poly(A) RNA binding (GO:0044822)	p.G46*(1)									CATCGCAGTAGGAATGGCAGC	0.438																																																1	Substitution - Nonsense(1)	kidney(1)											55	63	61					1																	234509989		2203	4300	6503	SO:0001587	stop_gained	0				CCDS31059.1, CCDS55690.1	1q42.2	2012-10-15	2012-10-15	2012-10-15	ENSG00000168275	ENSG00000168275		"Mitochondrial respiratory chain complex assembly factors"	18025	protein-coding gene	gene with protein product		614772	"chromosome 1 open reading frame 31"	C1orf31		22984289	Standard	NM_001012985		Approved		uc001hwc.3	Q5JTJ3	OTTHUMG00000037945	ENST00000366613.1:c.136G>T	1.37:g.234509989G>T	ENSP00000355572:p.Gly46*	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JTJ2|Q5JTJ4|Q8TA88	Nonsense_Mutation	SNP	ENST00000366613.1	37	CCDS31059.1	.	.	.	.	.	.	.	.	.	.	G	22.5	4.295101	0.81025	.	.	ENSG00000168275	ENST00000366615;ENST00000424237;ENST00000366613	.	.	.	4.8	3.8	0.43715	.	0.536654	0.16356	N	0.217997	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.62326	D	0.03	.	8.1624	0.31207	0.1902:0.0:0.8098:0.0	.	.	.	.	X	76;77;46	.	ENSP00000355572:G46X	G	+	1	0	C1orf31	232576612	0.961000	0.32948	0.939000	0.37840	0.593000	0.36681	2.188000	0.42612	2.469000	0.83416	0.655000	0.94253	GGA		0.438	COA6-002	NOVEL	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000092613.1	NM_001012985		T	234509989	G	T	234509989	4	4	581	1	0	0	0	0	0	1	0	0	2039	1001	35	4	142	4	C1orf31	1	234509989	Nonsense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	62953770	234509989	14740632	5	34472										
MAP4K4	9448	broad.mit.edu	37	chr2	102486844	102486844	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	gaaagtgagccggccatgacCccatccaaggagggcactct	12	13	1	2			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr2:102486844C>G	ENST00000347699.4	+	21	2484	c.2484C>G	c.(2482-2484)acC>acG	p.T828T	MAP4K4_ENST00000350878.4_Silent_p.T804T|MAP4K4_ENST00000425019.1_Silent_p.T797T|MAP4K4_ENST00000302217.5_Silent_p.T631T|MAP4K4_ENST00000350198.4_Silent_p.T747T|MAP4K4_ENST00000324219.4_Silent_p.T909T|MAP4K4_ENST00000498066.1_3'UTR|MAP4K4_ENST00000456652.1_Silent_p.T627T|MAP4K4_ENST00000413150.2_Silent_p.T743T	NM_001242559.1|NM_145687.3	NP_001229488.1|NP_663720.1	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase kinase 4	828					intracellular signal transduction (GO:0035556)|protein phosphorylation (GO:0006468)|regulation of JNK cascade (GO:0046328)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)|small GTPase regulator activity (GO:0005083)	p.T909T(1)		breast(1)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(8)|lung(15)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	41						CGGCCATGACCCCATCCAAGG	0.483																																																1	Substitution - coding silent(1)	kidney(1)											70	72	71					2																	102486844		1963	4160	6123	SO:0001819	synonymous_variant	9448			AF096300	CCDS56130.1, CCDS74546.1	2q11.2-q12	2011-06-09			ENSG00000071054	ENSG00000071054		"Mitogen-activated protein kinase cascade / Kinase kinase kinase kinases"	6866	protein-coding gene	gene with protein product	"HPK/GCK-like kinase", "hepatocyte progenitor kinase-like/germinal center kinase-like kinase"	604666				9890973, 9734811, 9135144	Standard	NM_004834		Approved	HGK, NIK, FLH21957	uc002tbf.3	O95819	OTTHUMG00000155394	ENST00000347699.4:c.2484C>G	2.37:g.102486844C>G		Somatic		WXS	Illumina GAIIx	Phase_I	O75172|Q9NST7	Silent	SNP	ENST00000347699.4	37	CCDS56130.1	.	.	.	.	.	.	.	.	.	.	C	8.794	0.931344	0.18131	.	.	ENSG00000071054	ENST00000421882	.	.	.	5.34	-2.23	0.06930	.	.	.	.	.	T	0.50103	0.1596	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.43261	-0.9402	4	.	.	.	.	6.1104	0.20097	0.0:0.3574:0.2296:0.4129	.	.	.	.	A	645	.	.	P	+	1	0	MAP4K4	101853276	0.011000	0.17503	0.991000	0.47740	0.963000	0.63663	-1.091000	0.03369	-0.249000	0.09569	-0.885000	0.02943	CCC		0.483	MAP4K4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000339839.1	NM_004834		G	102486844	C	G	102486844	2	3	581	1	0	0	0	0	0	0	0	1	9269	610	22	4		4	MAP4K4	2	102486844	Silent	SNP	C	TCGA-EU-5906-01A-11D-1669-08		102486844	140712529	6	34473										
ZEB2	9839	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	145157472	145157472	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	actctgagcagatggatgaaCtcctaaagggctggtggctc	13	9	1	3			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr2:145157472C>G	ENST00000558170.2	-	8	2466	c.1282G>C	c.(1282-1284)Gtt>Ctt	p.V428L	ZEB2_ENST00000539609.3_Missense_Mutation_p.V404L|ZEB2_ENST00000409487.3_Missense_Mutation_p.V428L|ZEB2_ENST00000303660.4_Missense_Mutation_p.V428L	NM_014795.3	NP_055610.1	O60315	ZEB2_HUMAN	zinc finger E-box binding homeobox 2	428					cell proliferation in forebrain (GO:0021846)|developmental pigmentation (GO:0048066)|hippocampus development (GO:0021766)|melanocyte migration (GO:0097324)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nervous system development (GO:0007399)|neural crest cell migration (GO:0001755)|neural tube closure (GO:0001843)|positive regulation of JUN kinase activity (GO:0043507)|positive regulation of melanin biosynthetic process (GO:0048023)|positive regulation of melanocyte differentiation (GO:0045636)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of Wnt signaling pathway (GO:0030177)|regulation of melanosome organization (GO:1903056)|somitogenesis (GO:0001756)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|phosphatase regulator activity (GO:0019208)	p.V428L(1)|p.V428I(1)		breast(3)|central_nervous_system(1)|cervix(2)|endometrium(7)|kidney(6)|large_intestine(23)|lung(45)|ovary(5)|pancreas(2)|prostate(6)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(3)	107				BRCA - Breast invasive adenocarcinoma(221;0.112)		GATGGATGAACTCCTAAAGGG	0.458																																					Melanoma(33;1235 1264 5755 16332)											2	Substitution - Missense(2)	large_intestine(1)|kidney(1)											64	69	67					2																	145157472		2203	4300	6503	SO:0001583	missense	9839			AB011141	CCDS2186.1, CCDS54403.1	2q22.3	2013-01-08	2007-02-15	2007-02-15	ENSG00000169554	ENSG00000169554		"Zinc fingers, C2H2-type", "Homeoboxes / ZF class"	14881	protein-coding gene	gene with protein product	"SMAD interacting protein 1"	605802	"zinc finger homeobox 1b"	ZFHX1B			Standard	NM_014795		Approved	KIAA0569, SIP-1, SIP1	uc002tvu.3	O60315	OTTHUMG00000131834	ENST00000558170.2:c.1282G>C	2.37:g.145157472C>G	ENSP00000454157:p.Val428Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A0JP09|B7Z2P2|F5H814|Q9UED1	Missense_Mutation	SNP	ENST00000558170.2	37	CCDS2186.1	.	.	.	.	.	.	.	.	.	.	C	10.28	1.307316	0.23821	.	.	ENSG00000169554	ENST00000539609;ENST00000303660;ENST00000409487;ENST00000427902;ENST00000392861	T;T;T;T;T	0.13089	2.64;2.62;2.62;2.79;2.79	5.53	5.53	0.82687	.	0.113341	0.64402	D	0.000008	T	0.10852	0.0265	N	0.19112	0.55	0.46725	D	0.999177	B;B;B;B	0.20052	0.041;0.014;0.014;0.002	B;B;B;B	0.25291	0.059;0.021;0.008;0.015	T	0.10268	-1.0637	10	0.48119	T	0.1	-7.6837	12.7659	0.57391	0.0:0.925:0.0:0.075	.	404;293;427;428	F5H814;Q53TD9;A0JP08;O60315	.;.;.;ZEB2_HUMAN	L	404;428;428;428;428	ENSP00000443792:V404L;ENSP00000302501:V428L;ENSP00000386854:V428L;ENSP00000395496:V428L;ENSP00000376601:V428L	ENSP00000302501:V428L	V	-	1	0	ZEB2	144873942	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	2.644000	0.46613	2.587000	0.87381	0.655000	0.94253	GTT		0.458	ZEB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254778.5	NM_014795		G	145157472	C	G	145157472	3	3	581	1	0	0	0	0	1	0	0	0	17636	565	20	4	2374	4	ZEB2	2	145157472	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08	42670628	145157472	98041901	7	34474										
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	179422748	179422748	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	gtgatttcatatctcccagcGtcagctgtaacactttcttt	6	11	4	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr2:179422748G>C	ENST00000591111.1	-	278	82634	c.82410C>G	c.(82408-82410)gaC>gaG	p.D27470E	TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000419746.1_RNA|TTN-AS1_ENST00000592689.1_RNA|TTN-AS1_ENST00000592750.1_RNA|TTN-AS1_ENST00000586452.1_RNA|TTN_ENST00000342175.6_Missense_Mutation_p.D20238E|TTN-AS1_ENST00000590807.1_RNA|TTN-AS1_ENST00000456053.1_RNA|TTN_ENST00000342992.6_Missense_Mutation_p.D26543E|TTN-AS1_ENST00000586831.1_RNA|TTN-AS1_ENST00000591332.1_RNA|TTN-AS1_ENST00000592630.1_RNA|TTN-AS1_ENST00000590932.1_RNA|TTN_ENST00000589042.1_Missense_Mutation_p.D29111E|TTN-AS1_ENST00000586707.1_RNA|TTN-AS1_ENST00000438095.1_RNA|TTN_ENST00000359218.5_Missense_Mutation_p.D20171E|TTN_ENST00000460472.2_Missense_Mutation_p.D20046E|TTN-AS1_ENST00000592600.1_RNA			Q8WZ42	TITIN_HUMAN	titin	27470					adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)	p.D20171E(1)|p.D20171D(1)|p.D20238D(1)|p.D20238E(1)|p.D26541E(1)|p.D26541D(1)|p.D26543E(1)|p.D26543D(1)|p.D20046E(1)|p.D20046D(1)		NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATCTCCCAGCGTCAGCTGTAA	0.458																																																10	Substitution - Missense(5)|Substitution - coding silent(5)	breast(5)|kidney(5)											130	128	129					2																	179422748		1908	4129	6037	SO:0001583	missense	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.82410C>G	2.37:g.179422748G>C	ENSP00000465570:p.Asp27470Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	G	14.61	2.587390	0.46110	.	.	ENSG00000155657	ENST00000342992;ENST00000460472;ENST00000342175;ENST00000359218;ENST00000356127	T;T;T;T	0.81163	-1.46;-1.46;-1.46;-1.46	5.63	2.02	0.26589	Immunoglobulin subtype (1);Immunoglobulin I-set (1);Peptidase C2, calpain, large subunit, domain III (1);Ribonuclease H-like (1);Immunoglobulin-like fold (1);	.	.	.	.	D	0.87838	0.6278	M	0.80508	2.5	0.46096	D	0.998868	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.91635	0.999;0.999;0.999;0.999	D	0.86527	0.1819	9	0.87932	D	0	.	8.7533	0.34631	0.7794:0.0:0.2206:0.0	.	20046;20171;20238;27470	D3DPF9;E7EQE6;E7ET18;Q8WZ42	.;.;.;TITIN_HUMAN	E	26543;20046;20238;20171;20043	ENSP00000343764:D26543E;ENSP00000434586:D20046E;ENSP00000340554:D20238E;ENSP00000352154:D20171E	ENSP00000340554:D20238E	D	-	3	2	TTN	179130994	1.000000	0.71417	1.000000	0.80357	0.965000	0.64279	3.004000	0.49513	0.519000	0.28406	-0.339000	0.08088	GAC		0.458	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		C	179422748	G	C	179422748	3	2	581	1	0	0	0	0	1	0	0	0	16747	1136	40	4	20786	4	TTN	2	179422748	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	34265276	179422748	63776625	8	34475										
TTN	7273	broad.mit.edu;ucsc.edu	37	chr2	179439235	179439235	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	gtactaaagctttgctcacaGtctgccagagaataccattt	7	10	2	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr2:179439235G>T	ENST00000591111.1	-	276	66925	c.66701C>A	c.(66700-66702)aCt>aAt	p.T22234N	RP11-171I2.5_ENST00000604215.1_RNA|TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000419746.1_RNA|TTN-AS1_ENST00000592689.1_RNA|TTN-AS1_ENST00000592750.1_RNA|TTN-AS1_ENST00000586452.1_RNA|TTN_ENST00000342175.6_Missense_Mutation_p.T15002N|TTN-AS1_ENST00000590807.1_RNA|TTN-AS1_ENST00000456053.1_RNA|TTN_ENST00000342992.6_Missense_Mutation_p.T21307N|TTN-AS1_ENST00000586831.1_RNA|TTN-AS1_ENST00000591332.1_RNA|TTN-AS1_ENST00000592630.1_RNA|TTN-AS1_ENST00000590932.1_RNA|TTN_ENST00000589042.1_Missense_Mutation_p.T23875N|TTN-AS1_ENST00000586707.1_RNA|TTN-AS1_ENST00000438095.1_RNA|TTN_ENST00000359218.5_Missense_Mutation_p.T14935N|TTN_ENST00000460472.2_Missense_Mutation_p.T14810N|TTN-AS1_ENST00000592600.1_RNA			Q8WZ42	TITIN_HUMAN	titin	22234	Fibronectin type-III 61. {ECO:0000255|PROSITE-ProRule:PRU00316}.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)	p.T21305N(1)|p.T21307N(1)|p.T14810N(1)|p.T15002N(1)|p.T14935N(1)		NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTGCTCACAGTCTGCCAGAG	0.423																																																5	Substitution - Missense(5)	kidney(5)											201	199	200					2																	179439235		1910	4116	6026	SO:0001583	missense	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.66701C>A	2.37:g.179439235G>T	ENSP00000465570:p.Thr22234Asn	Somatic		WXS	Illumina GAIIx	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	G	8.980	0.975067	0.18736	.	.	ENSG00000155657	ENST00000342992;ENST00000460472;ENST00000342175;ENST00000359218;ENST00000356127	T;T;T;T	0.57752	0.38;0.38;0.38;0.38	5.7	3.89	0.44902	Fibronectin, type III (4);Peptidase C2, calpain, large subunit, domain III (1);Ribonuclease H-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.37758	0.1015	N	0.20357	0.565	0.32565	N	0.53057	B;B;B;B	0.09022	0.002;0.002;0.002;0.002	B;B;B;B	0.12156	0.007;0.007;0.007;0.007	T	0.44097	-0.9350	9	0.87932	D	0	.	9.8501	0.41051	0.066:0.0:0.6855:0.2485	.	14810;14935;15002;22234	D3DPF9;E7EQE6;E7ET18;Q8WZ42	.;.;.;TITIN_HUMAN	N	21307;14810;15002;14935;14808	ENSP00000343764:T21307N;ENSP00000434586:T14810N;ENSP00000340554:T15002N;ENSP00000352154:T14935N	ENSP00000340554:T15002N	T	-	2	0	TTN	179147481	1.000000	0.71417	1.000000	0.80357	0.966000	0.64601	3.553000	0.53713	0.748000	0.32831	0.650000	0.86243	ACT		0.423	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		T	179439235	G	T	179439235	3	4	581	1	0	0	0	0	1	0	0	0	16747	1029	36	4	36503	4	TTN	2	179439235	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	16487	179439235	63760138	9	34476										
CUL3	8452	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	225342980	225342980	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	attatccgcactatagcagcTtctatctcatgttttctgtc	5	11	3	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr2:225342980T>C	ENST00000264414.4	-	15	2450	c.2112A>G	c.(2110-2112)gaA>gaG	p.E704E	CUL3_ENST00000409777.1_Silent_p.E680E|CUL3_ENST00000344951.4_Silent_p.E638E|CUL3_ENST00000409096.1_Silent_p.E680E	NM_003590.4	NP_003581.1	Q13618	CUL3_HUMAN	cullin 3	704					cell cycle arrest (GO:0007050)|cell migration (GO:0016477)|COPII vesicle coating (GO:0048208)|cyclin catabolic process (GO:0008054)|embryonic cleavage (GO:0040016)|ER to Golgi vesicle-mediated transport (GO:0006888)|G1/S transition of mitotic cell cycle (GO:0000082)|gastrulation (GO:0007369)|integrin-mediated signaling pathway (GO:0007229)|intrinsic apoptotic signaling pathway (GO:0097193)|mitotic metaphase plate congression (GO:0007080)|negative regulation of Rho protein signal transduction (GO:0035024)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cytokinesis (GO:0032467)|positive regulation of mitotic metaphase/anaphase transition (GO:0045842)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein monoubiquitination (GO:0006513)|protein polyubiquitination (GO:0000209)|protein ubiquitination (GO:0016567)|stem cell division (GO:0017145)|stress fiber assembly (GO:0043149)|trophectodermal cellular morphogenesis (GO:0001831)|Wnt signaling pathway (GO:0016055)	Cul3-RING ubiquitin ligase complex (GO:0031463)|extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|membrane (GO:0016020)|nucleus (GO:0005634)|polar microtubule (GO:0005827)	POZ domain binding (GO:0031208)	p.E704E(1)		endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|large_intestine(2)|liver(1)|lung(19)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(3)	46		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		CTATAGCAGCTTCTATCTCAT	0.403																																																1	Substitution - coding silent(1)	kidney(1)											199	180	186					2																	225342980		2203	4300	6503	SO:0001819	synonymous_variant	8452			U58089	CCDS2462.1, CCDS58751.1	2q36.2	2011-05-24			ENSG00000036257	ENSG00000036257			2553	protein-coding gene	gene with protein product		603136				8681378, 17192413	Standard	NM_003590		Approved		uc002vny.3	Q13618	OTTHUMG00000133167	ENST00000264414.4:c.2112A>G	2.37:g.225342980T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K536|B8ZZC3|O75415|Q569L3|Q9UBI8|Q9UET7	Silent	SNP	ENST00000264414.4	37	CCDS2462.1																																																																																				0.403	CUL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256871.2			C	225342980	T	C	225342980	2	2	581	1	0	0	0	0	0	0	0	1	4058	1606	56	3		3	CUL3	2	225342980	Silent	SNP	T	TCGA-EU-5906-01A-11D-1669-08	45903745	225342980	17856393	10	34477										
GBX2	2637	broad.mit.edu	37	chr2	237076427	237076435	+	In_Frame_Del	DEL	GGCGGCGGC	GGCGGCGGC	-													0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	gcgcggcctggggcagcgcgGgcggcggcggcggcggcggc					rs557135639|rs559648034	byFrequency	TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	GGCGGCGGC	GGCGGCGGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr2:237076427_237076435delGGCGGCGGC	ENST00000306318.4	-	1	577_585	c.180_188delGCCGCCGCC	c.(178-189)ccgccgccgccc>ccc	p.60_63PPPP>P	GBX2_ENST00000551105.1_In_Frame_Del_p.60_63PPPP>P|AC079135.1_ENST00000483218.1_RNA|GBX2_ENST00000465889.1_5'Flank|AC079135.1_ENST00000415226.1_RNA	NM_001485.2	NP_001476.2	P52951	GBX2_HUMAN	gastrulation brain homeobox 2	60	Poly-Pro.				autonomic nervous system development (GO:0048483)|axon guidance (GO:0007411)|cerebellar granule cell precursor proliferation (GO:0021930)|cerebellum development (GO:0021549)|forebrain neuron development (GO:0021884)|inner ear morphogenesis (GO:0042472)|midbrain-hindbrain boundary morphogenesis (GO:0021555)|nervous system development (GO:0007399)|neural crest cell migration (GO:0001755)|patterning of blood vessels (GO:0001569)|rhombomere 2 development (GO:0021568)|thalamus development (GO:0021794)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(1)|kidney(1)|large_intestine(1)|lung(4)	7		Breast(86;0.00235)|Renal(207;0.00339)|all_hematologic(139;0.00357)|all_lung(227;0.0616)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|Lung NSC(271;0.179)		Epithelial(121;4.5e-25)|OV - Ovarian serous cystadenocarcinoma(60;5.16e-11)|BRCA - Breast invasive adenocarcinoma(100;3.4e-05)|Lung(119;0.00195)|LUSC - Lung squamous cell carcinoma(224;0.00471)		GGGCAGCGCGggcggcggcggcggcggcg	0.746														4	0.000798722	0.0	0.0014	5008	,	,		8296	0.0		0.0	False		,,,				2504	0.0031															0										13,20,1327		6,0,1,5,10,658						2.9	1			4	29,61,3590		11,0,7,20,21,1781	no	codingComplex	GBX2	NM_001485.2		17,0,8,25,31,2439	A1A1,A1A2,A1R,A2A2,A2R,RR		2.4457,2.4265,2.4405				42,81,4917				SO:0001651	inframe_deletion	2637			AF118452	CCDS2515.1	2q37.2	2012-03-09	2005-12-22		ENSG00000168505	ENSG00000168505		"Homeoboxes / ANTP class : HOXL subclass"	4186	protein-coding gene	gene with protein product		601135	"gastrulation brain homeo box 2"			9346236, 8838315	Standard	XM_005246071		Approved		uc002vvw.1	P52951	OTTHUMG00000133294	ENST00000306318.4:c.180_188delGCCGCCGCC	2.37:g.237076436_237076444delGGCGGCGGC	ENSP00000302251:p.Pro60_Pro62del	Somatic		WXS	Illumina GAIIx	Phase_I	B2RPH7|O43833|Q53RX5|Q9Y5Y1	In_Frame_Del	DEL	ENST00000306318.4	37	CCDS2515.1																																																																																				0.746	GBX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257078.3	NM_001485		-	237076435	GGCGGCGGC	-	237076427	7	5	581	1	0	1	0	1	0	0	0	0	6288	1232	43	0	866	0	GBX2	2	237076427	In_Frame_Del	DEL	GGCGGCGGC	TCGA-EU-5906-01A-11D-1669-08	11733447	237076427	6122946	11	34478										
VHL	7428	hgsc.bcm.edu	37	chr3	10191572	10191572	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	ggtcgctctacgaagatctgGaagaccacccaaatgtgcag	11	11	2	2	rs121913345		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr3:10191572G>C	ENST00000256474.2	+	3	1405	c.565G>C	c.(565-567)Gaa>Caa	p.E189Q	VHL_ENST00000477538.1_3'UTR|VHL_ENST00000345392.2_Missense_Mutation_p.E148Q	NM_000551.3	NP_000542.1	P40337	VHL_HUMAN	von Hippel-Lindau tumor suppressor, E3 ubiquitin protein ligase	189					cell morphogenesis (GO:0000902)|cellular response to hypoxia (GO:0071456)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061428)|positive regulation of cell differentiation (GO:0045597)|positive regulation of transcription, DNA-templated (GO:0045893)|protein stabilization (GO:0050821)|protein ubiquitination (GO:0016567)|proteolysis (GO:0006508)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of transcription, DNA-templated (GO:0006355)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|intermediate filament cytoskeleton (GO:0045111)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	enzyme binding (GO:0019899)|transcription factor binding (GO:0008134)|ubiquitin protein ligase activity (GO:0061630)|ubiquitin-protein transferase activity (GO:0004842)	p.E189K(3)|p.E189*(2)|p.E189fs*12(1)|p.E189fs*13(1)|p.E189fs*25(1)|p.Y185fs*11(1)|p.L188>?(1)|p.D187_N193del(1)		adrenal_gland(25)|autonomic_ganglia(3)|central_nervous_system(2)|endometrium(6)|kidney(1662)|large_intestine(14)|lung(6)|pancreas(18)|paratesticular_tissues(1)|pleura(1)|skin(1)|soft_tissue(24)|thyroid(3)|upper_aerodigestive_tract(3)	1769				Kidney(1;0.000404)|KIRC - Kidney renal clear cell carcinoma(1;0.000569)		CGAAGATCTGGAAGACCACCC	0.502		1	"D, Mis, N, F, S"		"renal, hemangioma, pheochromocytoma"	"renal, hemangioma, pheochromocytoma"			von Hippel-Lindau disease;Pheochromocytoma (Adrenal), Familial;Chuvash Polycythemia																													yes	Rec	yes	von Hippel-Lindau syndrome	3	3p25	7428	von Hippel-Lindau syndrome gene		"E, M, O"	11	Deletion - Frameshift(4)|Substitution - Missense(3)|Substitution - Nonsense(2)|Complex(1)|Deletion - In frame(1)	kidney(11)	GRCh37	CD983007	VHL	D							77	70	72					3																	10191572		2203	4300	6503	SO:0001583	missense	7428	Familial Cancer Database	VHL; ;Erythrocytosis, Familial type 2	L15409	CCDS2597.1, CCDS2598.1	3p25.3	2014-09-17	2012-02-23		ENSG00000134086	ENSG00000134086			12687	protein-coding gene	gene with protein product		608537	"von Hippel-Lindau syndrome", "von Hippel-Lindau tumor suppressor"			9671762	Standard	NM_000551		Approved	VHL1	uc003bvc.3	P40337	OTTHUMG00000128668	ENST00000256474.2:c.565G>C	3.37:g.10191572G>C	ENSP00000256474:p.Glu189Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE45|Q13599|Q6PDA9	Missense_Mutation	SNP	ENST00000256474.2	37	CCDS2597.1	.	.	.	.	.	.	.	.	.	.	G	27.2	4.806021	0.90623	.	.	ENSG00000134086	ENST00000256474;ENST00000345392;ENST00000450183	D;D	0.99824	-6.96;-6.96	4.97	4.97	0.65823	von Hippel-Lindau disease tumour suppressor, beta/alpha domain (2);von Hippel-Lindau disease tumor suppressor, alpha domain (1);	0.057481	0.64402	D	0.000002	D	0.99658	0.9873	L	0.51422	1.61	0.43637	D	0.996037	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.997	D	0.97385	0.9985	10	0.46703	T	0.11	-3.955	16.1249	0.81386	0.0:0.0:1.0:0.0	.	148;189	P40337-2;P40337	.;VHL_HUMAN	Q	189;148;107	ENSP00000256474:E189Q;ENSP00000344757:E148Q	ENSP00000256474:E189Q	E	+	1	0	VHL	10166572	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	7.062000	0.76706	2.735000	0.93741	0.655000	0.94253	GAA		0.502	VHL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250559.1	NM_000551		C	10191572	G	C	10191572	3	2	581	1	0	0	0	0	1	0	0	0	17174	1175	41	4	575	4	VHL	3	10191572	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08		10191572	187830858	12	34479										
OXSM	54995	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	25835880	25835880	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	gaatttgatctcaactatgtTccactaaaggcacaggaatg	8	8	1	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr3:25835880T>G	ENST00000280701.3	+	3	1374	c.1275T>G	c.(1273-1275)gtT>gtG	p.V425V	OXSM_ENST00000420173.2_Silent_p.V342V	NM_017897.2	NP_060367.1	Q9NWU1	OXSM_HUMAN	3-oxoacyl-ACP synthase, mitochondrial	425					acyl-CoA metabolic process (GO:0006637)|medium-chain fatty acid biosynthetic process (GO:0051792)|short-chain fatty acid biosynthetic process (GO:0051790)	mitochondrion (GO:0005739)	3-oxoacyl-[acyl-carrier-protein] synthase activity (GO:0004315)	p.V425V(1)		breast(1)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(5)|lung(9)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	25						TCAACTATGTTCCACTAAAGG	0.393																																																1	Substitution - coding silent(1)	kidney(1)											94	99	97					3																	25835880		2203	4300	6503	SO:0001819	synonymous_variant	54995			BC008202	CCDS2643.1, CCDS46780.1	3p24.2	2010-03-19			ENSG00000151093	ENSG00000151093	2.3.1.41		26063	protein-coding gene	gene with protein product	"beta-ketoacyl synthase"	610324				12477932	Standard	NM_017897		Approved	KS, FLJ20604, FASN2D	uc003cdn.3	Q9NWU1	OTTHUMG00000130477	ENST00000280701.3:c.1275T>G	3.37:g.25835880T>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000280701.3	37	CCDS2643.1																																																																																				0.393	OXSM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252876.2	NM_017897		G	25835880	T	G	25835880	2	3	581	1	0	0	0	0	0	0	0	1	11342	1770	62	5		5	OXSM	3	25835880	Silent	SNP	T	TCGA-EU-5906-01A-11D-1669-08	15644308	25835880	172186550	13	34480										
USP4	7375	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	49337921	49337921	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	tgagtaggtctgcagtgaggGtcagcaggaaccaggaaaac	15	7	2	2	rs142071789		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr3:49337921G>A	ENST00000265560.4	-	11	1537	c.1491C>T	c.(1489-1491)gaC>gaT	p.D497D	USP4_ENST00000351842.4_Silent_p.D450D|USP4_ENST00000488520.1_5'Flank	NM_003363.3	NP_003354.2	Q13107	UBP4_HUMAN	ubiquitin specific peptidase 4 (proto-oncogene)	497	USP.|Ubiquitin-like 2.				negative regulation of protein ubiquitination (GO:0031397)|protein deubiquitination (GO:0016579)|protein localization to cell surface (GO:0034394)|regulation of protein stability (GO:0031647)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|lysosome (GO:0005764)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	adenosine receptor binding (GO:0031685)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)	p.D497D(1)		breast(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(5)|liver(1)|lung(10)|ovary(3)|prostate(1)|skin(2)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	33		Ovarian(412;0.00308)|Myeloproliferative disorder(1037;0.0255)|Hepatocellular(537;0.121)		OV - Ovarian serous cystadenocarcinoma(275;4.74e-26)|Kidney(197;2.22e-07)|KIRC - Kidney renal clear cell carcinoma(197;5.14e-06)|BRCA - Breast invasive adenocarcinoma(193;9.46e-05)		TGCAGTGAGGGTCAGCAGGAA	0.522																																																1	Substitution - coding silent(1)	kidney(1)											127	124	125					3																	49337921		2203	4300	6503	SO:0001819	synonymous_variant	7375			U20657	CCDS2793.1, CCDS2794.1, CCDS58832.1	3p21.3	2005-10-11	2005-08-08		ENSG00000114316	ENSG00000114316		"Ubiquitin-specific peptidases"	12627	protein-coding gene	gene with protein product		603486	"ubiquitin specific protease 4 (proto-oncogene)"	UNP		12838346, 9464533	Standard	NM_199443		Approved	Unph	uc003cwq.2	Q13107	OTTHUMG00000156825	ENST00000265560.4:c.1491C>T	3.37:g.49337921G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6Y0|C9IY91|O43452|O43453|Q08AK8	Silent	SNP	ENST00000265560.4	37	CCDS2793.1	.	.	.	.	.	.	.	.	.	.	G	8.761	0.923631	0.18056	.	.	ENSG00000114316	ENST00000431357	.	.	.	5.93	2.63	0.31362	.	.	.	.	.	T	0.58921	0.2156	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.54050	-0.8351	4	.	.	.	-30.2844	9.5645	0.39389	0.317:0.0:0.683:0.0	.	.	.	.	S	236	.	.	P	-	1	0	USP4	49312925	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	1.269000	0.33074	0.758000	0.33059	-0.367000	0.07326	CCC		0.522	USP4-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346069.1	NM_199443		A	49337921	G	A	49337921	2	1	581	1	0	0	0	0	0	0	0	1	17083	1252	44	2		2	USP4	3	49337921	Silent	SNP	G	TCGA-EU-5906-01A-11D-1669-08	23502041	49337921	148684509	14	34481										
FILIP1L	11259	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	99568696	99568696	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	gtggatttcccagagtcttgAtttaatttgttttttaggaa	9	4	1	2			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr3:99568696A>G	ENST00000354552.3	-	5	2294	c.1824T>C	c.(1822-1824)aaT>aaC	p.N608N	CMSS1_ENST00000496116.1_Intron|FILIP1L_ENST00000331335.5_Silent_p.N608N|FILIP1L_ENST00000476723.1_Intron|CMSS1_ENST00000421999.2_Intron|FILIP1L_ENST00000383694.2_Silent_p.N368N|FILIP1L_ENST00000487087.1_Silent_p.N184N|FILIP1L_ENST00000471562.1_Silent_p.N368N	NM_182909.2	NP_878913.2	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like	608						cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)		p.N608N(2)		breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(13)|lung(11)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	35						CAGAGTCTTGATTTAATTTGT	0.343																																																2	Substitution - coding silent(2)	kidney(2)											124	115	118					3																	99568696		1827	4077	5904	SO:0001819	synonymous_variant	11259				CCDS43117.1, CCDS43118.1, CCDS43119.1, CCDS63700.1, CCDS74969.1	3q12.1	2011-10-21			ENSG00000168386	ENSG00000168386			24589	protein-coding gene	gene with protein product	"downregulated in ovarian cancer 1", "GPBP-interacting protein of 130 kDa"	612993				8314147, 15935955, 21832087	Standard	NM_001282793		Approved	DOC-1, GIP130	uc003dtm.3	Q4L180	OTTHUMG00000159055	ENST00000354552.3:c.1824T>C	3.37:g.99568696A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2CNV7|B2CNV8|Q13597|Q2YDY5|Q6KFX5|Q6KFX6|Q6KFX7|Q8IUM3|Q8N6Z0	Silent	SNP	ENST00000354552.3	37	CCDS43117.1																																																																																				0.343	FILIP1L-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000353069.1	NM_014890		G	99568696	A	G	99568696	2	3	581	1	0	0	0	0	0	0	0	1	5902	330	12	3		3	FILIP1L	3	99568696	Silent	SNP	A	TCGA-EU-5906-01A-11D-1669-08	50230775	99568696	98453734	15	34482										
POLQ	10721	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	121208546	121208546	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	taaggtaaacgggtcttcacAaagactaggattagacagag	11	6	2	3			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr3:121208546A>T	ENST00000264233.5	-	16	3360	c.3232T>A	c.(3232-3234)Tgt>Agt	p.C1078S		NM_199420.3	NP_955452.3	O75417	DPOLQ_HUMAN	polymerase (DNA directed), theta	1078					ATP catabolic process (GO:0006200)|DNA repair (GO:0006281)	nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|damaged DNA binding (GO:0003684)|DNA-directed DNA polymerase activity (GO:0003887)|single-stranded DNA-dependent ATPase activity (GO:0043142)	p.C1213S(1)		NS(2)|breast(7)|central_nervous_system(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(16)|lung(55)|ovary(5)|prostate(3)|skin(4)|stomach(2)|upper_aerodigestive_tract(4)|urinary_tract(2)	120				GBM - Glioblastoma multiforme(114;0.0915)		GGGTCTTCACAAAGACTAGGA	0.398								DNA polymerases (catalytic subunits)																													Pancreas(152;907 1925 26081 31236 36904)											1	Substitution - Missense(1)	kidney(1)											57	65	62					3																	121208546		2193	4296	6489	SO:0001583	missense	10721			AF052573	CCDS33833.1	3q13.3	2012-05-18			ENSG00000051341	ENSG00000051341	2.7.7.7	"DNA polymerases"	9186	protein-coding gene	gene with protein product		604419				10395804	Standard	NM_199420		Approved	POLH	uc003eee.4	O75417	OTTHUMG00000159396	ENST00000264233.5:c.3232T>A	3.37:g.121208546A>T	ENSP00000264233:p.Cys1078Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O95160|Q6VMB5	Missense_Mutation	SNP	ENST00000264233.5	37	CCDS33833.1	.	.	.	.	.	.	.	.	.	.	A	3.866	-0.028868	0.07589	.	.	ENSG00000051341	ENST00000543272;ENST00000264233;ENST00000393672	T	0.47177	0.85	4.32	0.0515	0.14298	.	1.026350	0.07674	N	0.935982	T	0.28962	0.0719	L	0.32530	0.975	0.09310	N	0.999997	B;P	0.41848	0.255;0.763	B;B	0.39027	0.053;0.288	T	0.13388	-1.0511	10	0.11485	T	0.65	.	2.4075	0.04416	0.6059:0.1546:0.0895:0.15	.	1078;250	O75417;O75417-2	DPOLQ_HUMAN;.	S	701;1078;1214	ENSP00000264233:C1078S	ENSP00000264233:C1078S	C	-	1	0	POLQ	122691236	0.000000	0.05858	0.554000	0.28268	0.060000	0.15804	0.029000	0.13666	0.250000	0.21479	0.460000	0.39030	TGT		0.398	POLQ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355097.1	NM_199420		T	121208546	A	T	121208546	3	4	581	1	0	0	0	0	1	0	0	0	12215	130	5	5	4600	5	POLQ	3	121208546	Missense_Mutation	SNP	A	TCGA-EU-5906-01A-11D-1669-08	21639850	121208546	76813884	16	34483										
GABRG1	2565	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	46043110	46043110	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	ttggcaatgcgtatgtgtatCcttccttccctccaagatcc	7	13	0	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr4:46043110C>T	ENST00000295452.4	-	9	1460	c.1293G>A	c.(1291-1293)agG>agA	p.R431R		NM_173536.3	NP_775807.2	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma 1	431					gamma-aminobutyric acid signaling pathway (GO:0007214)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|postsynaptic membrane (GO:0045211)|receptor complex (GO:0043235)	chloride channel activity (GO:0005254)|extracellular ligand-gated ion channel activity (GO:0005230)|GABA-A receptor activity (GO:0004890)	p.R431R(1)		breast(2)|central_nervous_system(5)|endometrium(3)|kidney(4)|large_intestine(11)|liver(1)|lung(37)|ovary(2)|prostate(5)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	76				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)	Acamprosate(DB00659)|Adinazolam(DB00546)|Alprazolam(DB00404)|Amoxapine(DB00543)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Chlordiazepoxide(DB00475)|Cinolazepam(DB01594)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Clotiazepam(DB01559)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Fludiazepam(DB01567)|Flumazenil(DB01205)|Flurazepam(DB00690)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Isoflurane(DB00753)|Ketazolam(DB01587)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Topiramate(DB00273)|Triazolam(DB00897)	GTATGTGTATCCTTCCTTCCC	0.413																																																1	Substitution - coding silent(1)	kidney(1)											131	132	132					4																	46043110		2203	4300	6503	SO:0001819	synonymous_variant	2565			BC031087	CCDS3470.1	4p12	2012-06-22			ENSG00000163285	ENSG00000163285		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4086	protein-coding gene	gene with protein product	"GABA(A) receptor, gamma"	137166				1321425	Standard	NM_173536		Approved		uc003gxb.3	Q8N1C3	OTTHUMG00000128609	ENST00000295452.4:c.1293G>A	4.37:g.46043110C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5H9T8	Silent	SNP	ENST00000295452.4	37	CCDS3470.1	.	.	.	.	.	.	.	.	.	.	C	9.941	1.217595	0.22373	.	.	ENSG00000163285	ENST00000540030	.	.	.	5.49	-0.0163	0.13973	.	.	.	.	.	T	0.47985	0.1475	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.21042	-1.0257	5	0.17369	T	0.5	.	9.5685	0.39414	0.0:0.4397:0.0:0.5603	.	.	.	.	N	412	.	ENSP00000445441:D412N	D	-	1	0	GABRG1	45737867	0.962000	0.33011	0.979000	0.43373	0.988000	0.76386	0.158000	0.16422	0.010000	0.14839	0.585000	0.79938	GAT		0.413	GABRG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250470.1	NM_173536		T	46043110	C	T	46043110	2	4	581	1	0	0	0	0	0	0	0	1	6178	854	30	2		2	GABRG1	4	46043110	Silent	SNP	C	TCGA-EU-5906-01A-11D-1669-08		46043110	145111166	17	34484										
TEC	7006	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	48170607	48170607	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	gctaaagaccacctaccttcTttgtttctggtgctggaggt	10	10	2	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr4:48170607T>G	ENST00000381501.3	-	6	648	c.491A>C	c.(490-492)aAg>aCg	p.K164T		NM_003215.2	NP_003206.2	P42680	TEC_HUMAN	tec protein tyrosine kinase	164					B cell receptor signaling pathway (GO:0050853)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|integrin-mediated signaling pathway (GO:0007229)|intracellular signal transduction (GO:0035556)|peptidyl-tyrosine phosphorylation (GO:0018108)|protein phosphorylation (GO:0006468)|regulation of platelet activation (GO:0010543)|tissue regeneration (GO:0042246)	cell-cell junction (GO:0005911)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|lipid binding (GO:0008289)|metal ion binding (GO:0046872)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)	p.K164T(1)		breast(1)|central_nervous_system(1)|kidney(3)|large_intestine(4)|lung(16)|ovary(1)|prostate(2)|skin(2)|stomach(1)	31						ACCTACCTTCTTTGTTTCTGG	0.323																																																1	Substitution - Missense(1)	kidney(1)											115	104	108					4																	48170607		2203	4300	6503	SO:0001583	missense	100124696			D29767	CCDS3481.1	4p12	2013-02-14			ENSG00000135605	ENSG00000135605		"Pleckstrin homology (PH) domain containing", "SH2 domain containing"	11719	protein-coding gene	gene with protein product		600583				7934162	Standard	NM_003215		Approved	PSCTK4	uc003gxz.3	P42680	OTTHUMG00000128623	ENST00000381501.3:c.491A>C	4.37:g.48170607T>G	ENSP00000370912:p.Lys164Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKZ6|Q3MIS5	Missense_Mutation	SNP	ENST00000381501.3	37	CCDS3481.1	.	.	.	.	.	.	.	.	.	.	T	9.500	1.103058	0.20632	.	.	ENSG00000135605	ENST00000381501	T	0.16196	2.36	5.14	3.87	0.44632	Src homology-3 domain (1);	0.740503	0.12303	N	0.480934	T	0.07143	0.0181	N	0.08118	0	0.27018	N	0.964538	B	0.02656	0.0	B	0.01281	0.0	T	0.31752	-0.9932	10	0.18276	T	0.48	.	3.613	0.08067	0.3282:0.0968:0.0:0.575	.	164	P42680	TEC_HUMAN	T	164	ENSP00000370912:K164T	ENSP00000370912:K164T	K	-	2	0	TEC	47865364	1.000000	0.71417	0.998000	0.56505	0.982000	0.71751	0.944000	0.29043	2.062000	0.61559	0.383000	0.25322	AAG		0.323	TEC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250492.3			G	48170607	T	G	48170607	3	3	581	1	0	0	0	0	1	0	0	0	15754	1609	56	5	1456	5	TEC	4	48170607	Missense_Mutation	SNP	T	TCGA-EU-5906-01A-11D-1669-08	2127497	48170607	142983669	18	34485										
SPINK2	6691	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	57677912	57677912	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	catgtcactgccacacacagGgttaaagtgtctgggacatc	10	11	2	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr4:57677912G>C	ENST00000248701.4	-	3	227	c.148C>G	c.(148-150)Cct>Gct	p.P50A	SPINK2_ENST00000504762.1_Missense_Mutation_p.P85A|SPINK2_ENST00000506738.1_Missense_Mutation_p.P100A	NM_021114.2	NP_066937.1	P20155	ISK2_HUMAN	serine peptidase inhibitor, Kazal type 2 (acrosin-trypsin inhibitor)	50	Kazal-like. {ECO:0000255|PROSITE- ProRule:PRU00798}.				negative regulation of endopeptidase activity (GO:0010951)	extracellular region (GO:0005576)	endopeptidase inhibitor activity (GO:0004866)|serine-type endopeptidase inhibitor activity (GO:0004867)	p.P50A(1)		kidney(1)|large_intestine(1)|lung(2)	4	Glioma(25;0.08)|all_neural(26;0.181)					CCACACACAGGGTTAAAGTGT	0.403																																																1	Substitution - Missense(1)	kidney(1)											147	144	145					4																	57677912		2203	4300	6503	SO:0001583	missense	6691			BC022514	CCDS3508.1, CCDS63971.1, CCDS63972.1, CCDS75128.1	4q12	2011-08-31	2005-08-17		ENSG00000128040	ENSG00000128040		"Serine peptidase inhibitors, Kazal type"	11245	protein-coding gene	gene with protein product		605753	"serine protease inhibitor, Kazal type 2 (acrosin-trypsin inhibitor)"			8428671	Standard	NM_001271718		Approved	HUSI-II	uc031sep.1	P20155	OTTHUMG00000128769	ENST00000248701.4:c.148C>G	4.37:g.57677912G>C	ENSP00000248701:p.Pro50Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FGH2	Missense_Mutation	SNP	ENST00000248701.4	37	CCDS3508.1	.	.	.	.	.	.	.	.	.	.	G	15.22	2.768812	0.49680	.	.	ENSG00000128040	ENST00000248701;ENST00000506738;ENST00000504762	D;D;D	0.85171	-1.95;-1.95;-1.95	5.26	5.26	0.73747	Proteinase inhibitor I1, Kazal (3);	0.000000	0.85682	D	0.000000	D	0.91801	0.7406	.	.	.	0.46298	D	0.998975	D	0.89917	1.0	D	0.91635	0.999	D	0.91930	0.5554	9	0.59425	D	0.04	-26.9115	14.2953	0.66308	0.0:0.0:1.0:0.0	.	50	P20155	ISK2_HUMAN	A	50;100;85	ENSP00000248701:P50A;ENSP00000425961:P100A;ENSP00000423858:P85A	ENSP00000248701:P50A	P	-	1	0	SPINK2	57372669	1.000000	0.71417	0.907000	0.35723	0.165000	0.22458	3.273000	0.51623	2.749000	0.94314	0.644000	0.83932	CCT		0.403	SPINK2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000250690.2	NM_021114		C	57677912	G	C	57677912	3	2	581	1	0	0	0	0	1	0	0	0	15072	1232	43	4	114	4	SPINK2	4	57677912	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	9507305	57677912	133476364	19	34486										
ADAMTS12	81792	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	33637849	33637849	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	aatatttccctccaaactttGgcctgcaaatgaaacagaca	5	11	0	2			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr5:33637849G>C	ENST00000504830.1	-	12	2056	c.1721C>G	c.(1720-1722)cCa>cGa	p.P574R	ADAMTS12_ENST00000352040.3_Missense_Mutation_p.P574R|ADAMTS12_ENST00000504582.1_5'UTR	NM_030955.2	NP_112217.2	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 12	574	TSP type-1 1. {ECO:0000255|PROSITE- ProRule:PRU00210}.				cell migration (GO:0016477)|cell-matrix adhesion (GO:0007160)|cellular response to BMP stimulus (GO:0071773)|cellular response to interleukin-1 (GO:0071347)|cellular response to tumor necrosis factor (GO:0071356)|negative regulation of cellular response to hepatocyte growth factor stimulus (GO:2001113)|negative regulation of cellular response to vascular endothelial growth factor stimulus (GO:1902548)|negative regulation of chondrocyte differentiation (GO:0032331)|negative regulation of hepatocyte growth factor receptor signaling pathway (GO:1902203)|proteoglycan catabolic process (GO:0030167)|proteolysis involved in cellular protein catabolic process (GO:0051603)|regulation of endothelial tube morphogenesis (GO:1901509)|regulation of inflammatory response (GO:0050727)	extracellular matrix (GO:0031012)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)	p.P574R(1)		NS(1)|breast(7)|central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(11)|large_intestine(31)|liver(1)|lung(135)|ovary(4)|prostate(1)|skin(6)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(5)	216						TCCAAACTTTGGCCTGCAAAT	0.463										HNSCC(64;0.19)																																						1	Substitution - Missense(1)	kidney(1)											82	76	78					5																	33637849		2203	4300	6503	SO:0001583	missense	81792			AJ250725	CCDS34140.1	5q35	2008-07-18	2005-08-19		ENSG00000151388	ENSG00000151388		"ADAM metallopeptidases with thrombospondin type 1 motif"	14605	protein-coding gene	gene with protein product		606184	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 12"			11279086	Standard	NM_030955		Approved		uc003jia.1	P58397	OTTHUMG00000162088	ENST00000504830.1:c.1721C>G	5.37:g.33637849G>C	ENSP00000422554:p.Pro574Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRN9|A5D6V6|Q6UWL3	Missense_Mutation	SNP	ENST00000504830.1	37	CCDS34140.1	.	.	.	.	.	.	.	.	.	.	G	28.5	4.921590	0.92319	.	.	ENSG00000151388	ENST00000504830;ENST00000352040	T;T	0.08008	3.14;3.14	6.03	6.03	0.97812	.	0.000000	0.85682	D	0.000000	T	0.46444	0.1393	H	0.95850	3.73	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.993	T	0.61093	-0.7132	10	0.87932	D	0	.	20.6398	0.99548	0.0:0.0:1.0:0.0	.	574;574	P58397-3;P58397	.;ATS12_HUMAN	R	574	ENSP00000422554:P574R;ENSP00000344847:P574R	ENSP00000344847:P574R	P	-	2	0	ADAMTS12	33673606	1.000000	0.71417	1.000000	0.80357	0.873000	0.50193	9.619000	0.98369	2.881000	0.98747	0.650000	0.86243	CCA		0.463	ADAMTS12-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367164.2	NM_030955		C	33637849	G	C	33637849	3	2	581	1	0	0	0	0	1	0	0	0	257	1348	47	4	3115	4	ADAMTS12	5	33637849	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08		33637849	147277411	20	34487										
ERBB2IP	55914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	65350483	65350483	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	catacagagagttccactcaGcgggaagaactcctccaatg	9	12	1	2			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr5:65350483G>A	ENST00000284037.5	+	21	3726	c.3337G>A	c.(3337-3339)Gcg>Acg	p.A1113T	ERBB2IP_ENST00000380935.1_Missense_Mutation_p.A1113T|ERBB2IP_ENST00000508515.1_Missense_Mutation_p.A1113T|ERBB2IP_ENST00000506030.1_Missense_Mutation_p.A1113T|ERBB2IP_ENST00000511297.1_Missense_Mutation_p.A1109T|ERBB2IP_ENST00000380938.2_Missense_Mutation_p.A1113T|ERBB2IP_ENST00000380943.2_Missense_Mutation_p.A1113T|ERBB2IP_ENST00000380939.2_Missense_Mutation_p.A1113T|ERBB2IP_ENST00000416865.2_Intron|ERBB2IP_ENST00000380936.1_Missense_Mutation_p.A1113T	NM_001253697.1	NP_001240626.1	Q96RT1	LAP2_HUMAN	erbb2 interacting protein	1113					basal protein localization (GO:0045175)|cell adhesion (GO:0007155)|cell cycle (GO:0007049)|cell growth (GO:0016049)|epidermal growth factor receptor signaling pathway (GO:0007173)|establishment or maintenance of epithelial cell apical/basal polarity (GO:0045197)|integrin-mediated signaling pathway (GO:0007229)|intermediate filament cytoskeleton organization (GO:0045104)|signal transduction (GO:0007165)	basal plasma membrane (GO:0009925)|basement membrane (GO:0005604)|cytoplasm (GO:0005737)|hemidesmosome (GO:0030056)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ErbB-2 class receptor binding (GO:0005176)|integrin binding (GO:0005178)|structural constituent of cytoskeleton (GO:0005200)	p.A1113T(1)		breast(2)|central_nervous_system(2)|endometrium(3)|kidney(5)|large_intestine(8)|lung(11)|ovary(3)|skin(2)	36		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)		GTTCCACTCAGCGGGAAGAAC	0.493																																																1	Substitution - Missense(1)	kidney(1)											59	56	57					5																	65350483		2203	4300	6503	SO:0001583	missense	55914				CCDS3990.1, CCDS34172.1, CCDS58951.1, CCDS58952.1, CCDS58953.1, CCDS58954.1	5p14.3-q12.3	2008-07-18	2001-11-29		ENSG00000112851	ENSG00000112851			15842	protein-coding gene	gene with protein product	"densin-180-like protein", "ERBB2-interacting protein"	606944	"erbb2-interacting protein"			10574462, 10878805	Standard	NM_001253697		Approved	ERBIN, LAP2	uc011cqx.2	Q96RT1	OTTHUMG00000097808	ENST00000284037.5:c.3337G>A	5.37:g.65350483G>A	ENSP00000284037:p.Ala1113Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVR1|B4E3F1|B7ZLV9|E7EQW9|E9PCR8|Q1RMD0|Q86W38|Q9NR18|Q9NW48|Q9ULJ5	Missense_Mutation	SNP	ENST00000284037.5	37	CCDS58953.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	11.95|11.95	1.791822|1.791822	0.31685|0.31685	.|.	.|.	ENSG00000112851|ENSG00000112851	ENST00000284037;ENST00000380943;ENST00000380939;ENST00000380936;ENST00000380935;ENST00000380938;ENST00000511297;ENST00000506030;ENST00000508515|ENST00000511671	T;T;T;T;T;T;T;T;T|T	0.38240|0.31510	1.38;1.38;1.38;1.57;1.15;1.45;1.38;1.41;1.15|1.49	5.76|5.76	3.97|3.97	0.46021|0.46021	.|.	0.551531|.	0.20611|.	N|.	0.088970|.	T|T	0.21761|0.21761	0.0524|0.0524	N|N	0.14661|0.14661	0.345|0.345	0.21719|0.21719	N|N	0.999571|0.999571	B;B;B;B;B;B;B|.	0.15930|.	0.015;0.009;0.005;0.005;0.006;0.015;0.015|.	B;B;B;B;B;B;B|.	0.26310|.	0.068;0.031;0.027;0.011;0.006;0.046;0.046|.	T|T	0.15867|0.15867	-1.0422|-1.0422	10|7	0.22109|0.72032	T|D	0.4|0.01	.|.	7.7853|7.7853	0.29089|0.29089	0.2724:0.0:0.7276:0.0|0.2724:0.0:0.7276:0.0	.|.	1113;1113;1113;1109;1113;1113;1113|.	Q96RT1-4;E9PCR8;B7ZLV9;E7EQW9;Q96RT1;Q96RT1-7;Q96RT1-2|.	.;.;.;.;LAP2_HUMAN;.;.|.	T|N	1113;1113;1113;1113;1113;1113;1109;1113;1113|8	ENSP00000284037:A1113T;ENSP00000370330:A1113T;ENSP00000370326:A1113T;ENSP00000370323:A1113T;ENSP00000370322:A1113T;ENSP00000370325:A1113T;ENSP00000422766:A1109T;ENSP00000426632:A1113T;ENSP00000422015:A1113T|ENSP00000425728:S8N	ENSP00000284037:A1113T|ENSP00000425728:S8N	A|S	+|+	1|2	0|0	ERBB2IP|ERBB2IP	65386239|65386239	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.990000|0.990000	0.78478|0.78478	2.371000|2.371000	0.44248|0.44248	1.436000|1.436000	0.47453|0.47453	0.650000|0.650000	0.86243|0.86243	GCG|AGC		0.493	ERBB2IP-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000215070.1	NM_018695		A	65350483	G	A	65350483	3	1	581	1	0	0	0	0	1	0	0	0	5209	971	34	2	3411	2	ERBB2IP	5	65350483	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	31712634	65350483	115564777	21	34488										
SERINC5	256987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	79473191	79473191	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	agctcctgagcacatggcccCcaacagcagaagtttaaaga	9	12	0	3			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr5:79473191C>G	ENST00000507668.2	-	4	553	c.403G>C	c.(403-405)Ggg>Cgg	p.G135R	SERINC5_ENST00000509193.1_Missense_Mutation_p.G135R|SERINC5_ENST00000512721.1_Missense_Mutation_p.G135R|SERINC5_ENST00000512972.2_Missense_Mutation_p.G135R|SERINC5_ENST00000513907.1_5'UTR	NM_001174071.1|NM_178276.5	NP_001167542.1|NP_840060.1	Q86VE9	SERC5_HUMAN	serine incorporator 5	135					myelination (GO:0042552)|phosphatidylserine metabolic process (GO:0006658)|phospholipid biosynthetic process (GO:0008654)|positive regulation of transferase activity (GO:0051347)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|myelin sheath (GO:0043209)	L-serine transmembrane transporter activity (GO:0015194)	p.G134R(1)|p.G135R(1)		endometrium(3)|kidney(1)|lung(3)|ovary(1)	8		Lung NSC(167;0.00328)|all_lung(232;0.00356)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;2.93e-46)|Epithelial(54;5.59e-40)|all cancers(79;1.89e-34)		CACATGGCCCCCAACAGCAGA	0.403																																																2	Substitution - Missense(2)	kidney(2)											101	92	95					5																	79473191		1839	4093	5932	SO:0001583	missense	256987			AF498273	CCDS54874.1	5q14.1	2014-01-28	2005-10-14	2005-10-14		ENSG00000164300			18825	protein-coding gene	gene with protein product		614551	"chromosome 5 open reading frame 12"	C5orf12		12688535	Standard	NM_178276		Approved	TPO1	uc011ctj.2	Q86VE9		ENST00000507668.2:c.403G>C	5.37:g.79473191C>G	ENSP00000426237:p.Gly135Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DMH7|Q495A4|Q495A6	Missense_Mutation	SNP	ENST00000507668.2	37	CCDS54873.1	.	.	.	.	.	.	.	.	.	.	C	20.9	4.068345	0.76301	.	.	ENSG00000164300	ENST00000507668;ENST00000329637;ENST00000509193;ENST00000512972;ENST00000512721	T;T;T;T	0.13538	2.58;2.58;2.58;2.58	5.36	5.36	0.76844	.	0.455087	0.25555	N	0.029868	T	0.20740	0.0499	L	0.50333	1.59	0.40486	D	0.980493	P;P;P;D	0.55800	0.952;0.594;0.942;0.973	P;B;P;P	0.49887	0.625;0.308;0.619;0.625	T	0.00361	-1.1789	10	0.62326	D	0.03	.	12.7758	0.57445	0.0:0.9248:0.0:0.0752	.	135;135;135;135	B4DMH7;Q86VE9-2;D6RHG7;Q86VE9	.;.;.;SERC5_HUMAN	R	135;134;135;135;135	ENSP00000426237:G135R;ENSP00000426134:G135R;ENSP00000421665:G135R;ENSP00000420863:G135R	ENSP00000327542:G134R	G	-	1	0	SERINC5	79508947	0.982000	0.34865	1.000000	0.80357	0.986000	0.74619	2.110000	0.41873	2.671000	0.90904	0.655000	0.94253	GGG		0.403	SERINC5-201	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_178276		G	79473191	C	G	79473191	3	3	581	1	0	0	0	0	1	0	0	0	14096	623	22	4	1056	4	SERINC5	5	79473191	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08	14122708	79473191	101442069	22	34489										
CSNK1A1	1452	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	148904678	148904678	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	aattgaagaggtcttcgaggCtaggtcccagaagatccatg	12	8	1	4			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr5:148904678C>A	ENST00000377843.2	-	3	766	c.287G>T	c.(286-288)aGc>aTc	p.S96I	CSNK1A1_ENST00000504676.1_Missense_Mutation_p.S7I|CSNK1A1_ENST00000261798.5_Missense_Mutation_p.S96I|CSNK1A1_ENST00000515768.1_Missense_Mutation_p.S96I|CSNK1A1_ENST00000515435.1_Missense_Mutation_p.S7I	NM_001025105.1|NM_001892.4	NP_001020276.1|NP_001883.4	P48729	KC1A_HUMAN	casein kinase 1, alpha 1	96	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cell surface receptor signaling pathway (GO:0007166)|mitotic nuclear division (GO:0007067)|protein phosphorylation (GO:0006468)|signal transduction (GO:0007165)|Wnt signaling pathway (GO:0016055)	centrosome (GO:0005813)|cytosol (GO:0005829)|kinetochore (GO:0000776)|membrane (GO:0016020)|nuclear speck (GO:0016607)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)	p.S96I(2)		breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(2)|lung(4)	14			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.0407)		GTCTTCGAGGCTAGGTCCCAG	0.363																																					Colon(5;64 69 1309 10383)											2	Substitution - Missense(2)	kidney(2)											67	66	67					5																	148904678		2179	4292	6471	SO:0001583	missense	1452			AF119911	CCDS47303.1, CCDS47304.1, CCDS64291.1	5q32	2013-01-17			ENSG00000113712	ENSG00000113712			2451	protein-coding gene	gene with protein product	"clock regulator kinase"	600505				8050587	Standard	NM_001025105		Approved	CK1, CK1a, CK1alpha, CKIa, CKIalpha	uc003lqw.2	P48729	OTTHUMG00000163463	ENST00000377843.2:c.287G>T	5.37:g.148904678C>A	ENSP00000367074:p.Ser96Ile	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQG0|D3DQG1|Q4JJA0|Q5U046|Q5U047|Q6FGA2|Q71TU5|Q96HD2|Q9UDK3	Missense_Mutation	SNP	ENST00000377843.2	37	CCDS47303.1	.	.	.	.	.	.	.	.	.	.	C	35	5.456778	0.96223	.	.	ENSG00000113712	ENST00000261798;ENST00000377843;ENST00000504676;ENST00000515435;ENST00000322237;ENST00000515768	T;T;T;T;T	0.26660	1.72;1.72;1.72;1.72;1.72	5.87	5.87	0.94306	Serine/threonine-protein kinase-like domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	U	0.000000	T	0.73094	0.3543	H	0.99368	4.535	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;0.999;1.0	D;D;D;D;D	0.91635	0.996;0.999;0.997;0.984;0.997	D	0.85132	0.0975	10	0.87932	D	0	.	20.206	0.98277	0.0:1.0:0.0:0.0	.	7;96;96;96;7	B4DER9;Q71TU5;P48729;P48729-2;D6REM4	.;.;KC1A_HUMAN;.;.	I	96;96;7;7;96;96	ENSP00000261798:S96I;ENSP00000367074:S96I;ENSP00000426747:S7I;ENSP00000427031:S7I;ENSP00000421689:S96I	ENSP00000261798:S96I	S	-	2	0	CSNK1A1	148884871	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	7.818000	0.86416	2.785000	0.95823	0.655000	0.94253	AGC		0.363	CSNK1A1-201	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_001892		A	148904678	C	A	148904678	3	1	581	1	0	0	0	0	1	0	0	0	3952	797	28	4	846	4	CSNK1A1	5	148904678	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08	69431487	148904678	32010582	23	34490										
SLC36A1	206358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	150856274	150856274	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	tggggtacctgcaatttggaGctaatatccaaggcagcata	11	8	0	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr5:150856274G>A	ENST00000243389.3	+	9	1169	c.946G>A	c.(946-948)Gct>Act	p.A316T	RNA5SP197_ENST00000363357.1_RNA|SLC36A1_ENST00000520701.1_Missense_Mutation_p.A316T|SLC36A1_ENST00000521925.1_Missense_Mutation_p.A316T	NM_078483.2	NP_510968.2	Q7Z2H8	S36A1_HUMAN	solute carrier family 36 (proton/amino acid symporter), member 1	316					amino acid transport (GO:0006865)|ion transport (GO:0006811)|transmembrane transport (GO:0055085)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|plasma membrane (GO:0005886)	glycine transmembrane transporter activity (GO:0015187)|hydrogen ion transmembrane transporter activity (GO:0015078)|L-alanine transmembrane transporter activity (GO:0015180)|L-proline transmembrane transporter activity (GO:0015193)|symporter activity (GO:0015293)	p.A316T(1)		endometrium(5)|kidney(9)|lung(8)|skin(2)|urinary_tract(1)	25		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)		Acamprosate(DB00659)|Glycine(DB00145)|Hydroxyproline(DB08847)|L-Alanine(DB00160)|Spaglumic Acid(DB08835)|Vigabatrin(DB01080)	GCAATTTGGAGCTAATATCCA	0.512																																					Melanoma(151;1534 1860 12947 32979 37872)											1	Substitution - Missense(1)	kidney(1)											144	115	125					5																	150856274		2203	4300	6503	SO:0001583	missense	206358			AK057340	CCDS4316.1	5q33.1	2013-05-22			ENSG00000123643	ENSG00000123643		"Solute carriers"	18761	protein-coding gene	gene with protein product		606561				11959859, 11390972	Standard	NM_078483		Approved	LYAAT-1, PAT1, TRAMD3	uc003luc.3	Q7Z2H8	OTTHUMG00000130125	ENST00000243389.3:c.946G>A	5.37:g.150856274G>A	ENSP00000243389:p.Ala316Thr	Somatic		WXS	Illumina HiSeq	Phase_I	C9JI34|Q1LZ56|Q7Z7C0|Q86YK4|Q96M74	Missense_Mutation	SNP	ENST00000243389.3	37	CCDS4316.1	.	.	.	.	.	.	.	.	.	.	G	14.07	2.425014	0.43020	.	.	ENSG00000123643	ENST00000520701;ENST00000243389;ENST00000456739;ENST00000521925;ENST00000517628	T;T;T;T	0.02236	4.38;4.38;4.38;4.38	5.76	4.89	0.63831	.	0.265474	0.37437	N	0.002087	T	0.03011	0.0089	L	0.51914	1.62	0.33680	D	0.612004	B;B	0.17038	0.01;0.02	B;B	0.18871	0.023;0.023	T	0.13469	-1.0508	10	0.36615	T	0.2	.	9.0411	0.36319	0.0679:0.0:0.67:0.262	.	316;316	E7EW39;Q7Z2H8	.;S36A1_HUMAN	T	316;316;316;316;75	ENSP00000428140:A316T;ENSP00000243389:A316T;ENSP00000430305:A316T;ENSP00000428738:A75T	ENSP00000243389:A316T	A	+	1	0	SLC36A1	150836467	0.984000	0.35163	0.982000	0.44146	0.818000	0.46254	1.519000	0.35888	1.420000	0.47138	-0.169000	0.13324	GCT		0.512	SLC36A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252433.1	NM_078483		A	150856274	G	A	150856274	3	1	581	1	0	0	0	0	1	0	0	0	14606	971	34	2	976	2	SLC36A1	5	150856274	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	1951596	150856274	30058986	24	34491										
ADAMTS2	9509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	178557016	178557016	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	tctgtactcccactccacgcCcatggcaatgaaggttttgg	9	13	1	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr5:178557016C>T	ENST00000251582.7	-	16	2475	c.2374G>A	c.(2374-2376)Ggc>Agc	p.G792S		NM_014244.4	NP_055059.2	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 2	792	Spacer.				collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular matrix organization (GO:0030198)|lung development (GO:0030324)|protein processing (GO:0016485)|skin development (GO:0043588)|spermatogenesis (GO:0007283)	extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)	p.G792S(1)		breast(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(15)|lung(31)|ovary(1)|pancreas(3)|prostate(2)|skin(7)	72	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		CACTCCACGCCCATGGCAATG	0.572																																																1	Substitution - Missense(1)	kidney(1)											122	110	114					5																	178557016		2203	4300	6503	SO:0001583	missense	9509			AJ003125	CCDS4444.1, CCDS34311.1	5q23-q24	2008-07-18	2005-08-19		ENSG00000087116	ENSG00000087116		"ADAM metallopeptidases with thrombospondin type 1 motif"	218	protein-coding gene	gene with protein product	"procollagen I N-proteinase", "procollagen N-endopeptidase"	604539	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 2"			10094461, 15373769	Standard	NM_014244		Approved	ADAMTS-3, hPCPNI, PCINP, ADAM-TS2, NPI	uc003mjw.3	O95450	OTTHUMG00000130915	ENST00000251582.7:c.2374G>A	5.37:g.178557016C>T	ENSP00000251582:p.Gly792Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000251582.7	37	CCDS4444.1	.	.	.	.	.	.	.	.	.	.	C	23.6	4.437666	0.83885	.	.	ENSG00000087116	ENST00000251582	T	0.63417	-0.04	5.09	5.09	0.68999	ADAM-TS Spacer 1 (1);	0.000000	0.56097	D	0.000032	T	0.81297	0.4793	M	0.83012	2.62	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	D	0.84274	0.0490	10	0.87932	D	0	.	17.8402	0.88713	0.0:1.0:0.0:0.0	.	792	O95450	ATS2_HUMAN	S	792	ENSP00000251582:G792S	ENSP00000251582:G792S	G	-	1	0	ADAMTS2	178489622	1.000000	0.71417	1.000000	0.80357	0.635000	0.38103	5.779000	0.68948	2.523000	0.85059	0.462000	0.41574	GGC		0.572	ADAMTS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253507.1	NM_014244		T	178557016	C	T	178557016	3	4	581	1	0	0	0	0	1	0	0	0	265	623	22	2	1289	2	ADAMTS2	5	178557016	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08	27700742	178557016	2358244	25	34492										
GFOD1	54438	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	13365468	13365468	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	tgcagcacaccccgccctccAgcaccatctggaaggtgcag	10	17	1	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr6:13365468A>G	ENST00000379287.3	-	2	1344	c.680T>C	c.(679-681)cTg>cCg	p.L227P	GFOD1_ENST00000379284.1_Missense_Mutation_p.L124P	NM_018988.3	NP_061861.1	Q9NXC2	GFOD1_HUMAN	glucose-fructose oxidoreductase domain containing 1	227						extracellular region (GO:0005576)	oxidoreductase activity (GO:0016491)	p.L227P(1)		central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(4)|lung(6)|ovary(2)	18	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)			CCCGCCCTCCAGCACCATCTG	0.617																																																1	Substitution - Missense(1)	kidney(1)											89	77	81					6																	13365468		2203	4300	6503	SO:0001583	missense	54438			AK000337	CCDS4524.1, CCDS56397.1, CCDS64351.1	6p24.1-p23	2013-09-19			ENSG00000145990	ENSG00000145990			21096	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 114"	C6orf114			Standard	NM_018988		Approved	FLJ20330, ADG-90	uc003nat.2	Q9NXC2	OTTHUMG00000014276	ENST00000379287.3:c.680T>C	6.37:g.13365468A>G	ENSP00000368589:p.Leu227Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8E4L6|Q5T058|Q96JD4|Q9H5K2	Missense_Mutation	SNP	ENST00000379287.3	37	CCDS4524.1	.	.	.	.	.	.	.	.	.	.	A	21.5	4.154288	0.78114	.	.	ENSG00000145990	ENST00000379287;ENST00000379284	T;T	0.47869	0.83;0.83	5.73	5.73	0.89815	.	0.000000	0.64402	D	0.000001	T	0.56093	0.1962	L	0.55213	1.73	0.80722	D	1	D	0.69078	0.997	D	0.70935	0.971	T	0.61633	-0.7023	10	0.87932	D	0	-13.8618	15.2091	0.73206	1.0:0.0:0.0:0.0	.	227	Q9NXC2	GFOD1_HUMAN	P	227;124	ENSP00000368589:L227P;ENSP00000368586:L124P	ENSP00000368586:L124P	L	-	2	0	GFOD1	13473447	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.335000	0.96500	2.173000	0.68751	0.528000	0.53228	CTG		0.617	GFOD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039902.1	NM_018988		G	13365468	A	G	13365468	3	3	581	1	0	0	0	0	1	0	0	0	6350	188	7	3	496	3	GFOD1	6	13365468	Missense_Mutation	SNP	A	TCGA-EU-5906-01A-11D-1669-08		13365468	157749599	26	34493										
CDC40	51362	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	110501714	110501714	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	cagggtccgaatcggactcgGacagtgagagcagtcggtgt	16	9	0	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr6:110501714G>A	ENST00000368932.1	+	2	168	c.67G>A	c.(67-69)Gac>Aac	p.D23N	WASF1_ENST00000359451.2_5'Flank|WASF1_ENST00000392586.1_5'Flank|WASF1_ENST00000392587.2_5'Flank|WASF1_ENST00000392589.1_5'Flank|CDC40_ENST00000307731.1_Missense_Mutation_p.D23N|CDC40_ENST00000368930.1_Missense_Mutation_p.D23N|WASF1_ENST00000392588.1_5'Flank			O60508	PRP17_HUMAN	cell division cycle 40	23					gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA export from nucleus (GO:0006406)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	catalytic step 2 spliceosome (GO:0071013)|nucleoplasm (GO:0005654)|spliceosomal complex (GO:0005681)	poly(A) RNA binding (GO:0044822)	p.D23N(1)		breast(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(4)|lung(7)|prostate(1)|skin(1)	18		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		ATCGGACTCGGACAGTGAGAG	0.592																																																1	Substitution - Missense(1)	kidney(1)											58	55	56					6																	110501714		2203	4300	6503	SO:0001583	missense	51362			AF015044	CCDS5081.1	6q22.1	2013-01-17	2013-01-17		ENSG00000168438	ENSG00000168438		"WD repeat domain containing"	17350	protein-coding gene	gene with protein product		605585	"cell division cycle 40 homolog (yeast)", "cell division cycle 40 homolog (S. cerevisiae)"			9769104, 9830021	Standard	NM_015891		Approved	PRP17, EHB3, PRPF17, FLJ10564	uc003pua.3	O60508	OTTHUMG00000015358	ENST00000368932.1:c.67G>A	6.37:g.110501714G>A	ENSP00000357928:p.Asp23Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBC5|O75471|Q5SRN0|Q9UPG1	Missense_Mutation	SNP	ENST00000368932.1	37	CCDS5081.1	.	.	.	.	.	.	.	.	.	.	G	21.2	4.114759	0.77210	.	.	ENSG00000168438	ENST00000368932;ENST00000368933;ENST00000368930;ENST00000307731;ENST00000439165	T;T;T;T	0.61627	0.22;0.09;0.09;0.22	5.54	5.54	0.83059	.	0.200018	0.52532	D	0.000069	T	0.53899	0.1825	N	0.24115	0.695	0.52501	D	0.999955	D	0.63880	0.993	D	0.68192	0.956	T	0.49670	-0.8915	10	0.30854	T	0.27	-8.4761	16.5155	0.84299	0.0:0.0:1.0:0.0	.	23	O60508	PRP17_HUMAN	N	23	ENSP00000357928:D23N;ENSP00000357929:D23N;ENSP00000357926:D23N;ENSP00000304370:D23N	ENSP00000304370:D23N	D	+	1	0	CDC40	110608407	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.761000	0.62243	2.884000	0.98904	0.655000	0.94253	GAC		0.592	CDC40-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041791.1	NM_015891		A	110501714	G	A	110501714	3	1	581	1	0	0	0	0	1	0	0	0	3072	1174	41	2	69	2	CDC40	6	110501714	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	97136246	110501714	60613353	27	34494										
AKAP12	9590	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr6	151671390	151671390	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	agatggtgacgcccaagaagCgtgttagacggccttcggaa	14	9	0	4	rs143476871		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr6:151671390C>A	ENST00000253332.1	+	3	2053	c.1864C>A	c.(1864-1866)Cgt>Agt	p.R622S	AKAP12_ENST00000359755.5_Missense_Mutation_p.R517S|AKAP12_ENST00000402676.2_Missense_Mutation_p.R622S|AKAP12_ENST00000354675.6_Missense_Mutation_p.R524S			Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12	622	AKAP 1.				G-protein coupled receptor signaling pathway (GO:0007186)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of protein kinase A signaling (GO:0010739)|protein targeting (GO:0006605)|regulation of protein kinase C signaling (GO:0090036)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|focal adhesion (GO:0005925)	adenylate cyclase binding (GO:0008179)|protein kinase A binding (GO:0051018)	p.R622S(1)		breast(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(22)|lung(22)|ovary(2)|pancreas(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	68		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		GCCCAAGAAGCGTGTTAGACG	0.498																																					Melanoma(141;1616 1805 10049 24534 51979)											1	Substitution - Missense(1)	kidney(1)											64	63	63					6																	151671390		2203	4300	6503	SO:0001583	missense	9590			U81607	CCDS5229.1, CCDS5230.1	6q24-q25	2011-07-01	2008-08-29		ENSG00000131016	ENSG00000131016		"A-kinase anchor proteins"	370	protein-coding gene	gene with protein product	"gravin", "Src-Suppressed C Kinase Substrate"	604698	"A kinase (PRKA) anchor protein (gravin) 12"			9000000	Standard	NM_144497		Approved	AKAP250, SSeCKS	uc011eep.2	Q02952	OTTHUMG00000015833	ENST00000253332.1:c.1864C>A	6.37:g.151671390C>A	ENSP00000253332:p.Arg622Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O00310|O00498|Q4LE68|Q5SZ80|Q5TGN1|Q68D82|Q99970	Missense_Mutation	SNP	ENST00000253332.1	37	CCDS5229.1	.	.	.	.	.	.	.	.	.	.	C	21.8	4.206146	0.79127	.	.	ENSG00000131016	ENST00000402676;ENST00000253332;ENST00000354675;ENST00000359755	T;T;T;T	0.55760	0.5;0.5;0.5;0.5	5.52	5.52	0.82312	Protein kinase A anchoring, WSK motif (1);	0.000000	0.39687	N	0.001298	T	0.49881	0.1583	N	0.24115	0.695	0.58432	D	0.999994	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.85130	0.99;0.99;0.997	T	0.39583	-0.9607	10	0.18276	T	0.48	.	19.065	0.93106	0.0:1.0:0.0:0.0	.	517;524;622	Q02952-3;Q02952-2;Q02952	.;.;AKA12_HUMAN	S	622;622;524;517	ENSP00000384537:R622S;ENSP00000253332:R622S;ENSP00000346702:R524S;ENSP00000352794:R517S	ENSP00000253332:R622S	R	+	1	0	AKAP12	151713083	1.000000	0.71417	0.934000	0.37439	0.385000	0.30292	7.794000	0.85869	2.591000	0.87537	0.650000	0.86243	CGT		0.498	AKAP12-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042712.1			A	151671390	C	A	151671390	3	1	581	1	0	0	0	0	1	0	0	0	448	768	27	4	1903	4	AKAP12	6	151671390	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08	41169676	151671390	19443677	28	34495										
INTS1	26173	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	1523722	1523722	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	ggacaacagagcgctcagcaCggcgtccgacgcggcactcg	14	15	1	1	rs369814462		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr7:1523722C>A	ENST00000404767.3	-	25	3431	c.3346G>T	c.(3346-3348)Gtg>Ttg	p.V1116L	INTS1_ENST00000389470.4_Missense_Mutation_p.V1278L	NM_001080453.2	NP_001073922.2	Q8N201	INT1_HUMAN	integrator complex subunit 1	1116					inner cell mass cell proliferation (GO:0001833)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|snRNA processing (GO:0016180)|U2 snRNA 3'-end processing (GO:0034474)	integral component of membrane (GO:0016021)|integrator complex (GO:0032039)|membrane (GO:0016020)		p.V1278L(1)		autonomic_ganglia(1)|cervix(1)|endometrium(14)|kidney(3)|large_intestine(7)|lung(24)|ovary(1)|prostate(4)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	62		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		GCGCTCAGCACGGCGTCCGAC	0.657																																																1	Substitution - Missense(1)	kidney(1)											81	92	88					7																	1523722		2165	4251	6416	SO:0001583	missense	26173			AB037861	CCDS47526.1	7p22.3	2009-11-06			ENSG00000164880	ENSG00000164880			24555	protein-coding gene	gene with protein product		611345				16239144	Standard	NM_001080453		Approved	DKFZp586J0619, KIAA1440, INT1, NET28	uc003skn.2	Q8N201	OTTHUMG00000151449	ENST00000404767.3:c.3346G>T	7.37:g.1523722C>A	ENSP00000385722:p.Val1116Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJ44|Q6NT70|Q6UX74|Q8WV40|Q96D36|Q9NTD1|Q9P2A8|Q9Y3W8	Missense_Mutation	SNP	ENST00000404767.3	37	CCDS47526.1	.	.	.	.	.	.	.	.	.	.	C	19.60	3.857305	0.71834	.	.	ENSG00000164880	ENST00000404767;ENST00000389470	T;T	0.68181	-0.31;-0.31	4.81	4.81	0.61882	.	0.000000	0.85682	D	0.000000	T	0.71643	0.3364	L	0.40543	1.245	0.80722	D	1	P;P	0.43578	0.811;0.811	P;P	0.54346	0.749;0.591	T	0.70615	-0.4823	10	0.37606	T	0.19	.	17.8815	0.88842	0.0:1.0:0.0:0.0	.	1284;1116	A4D213;Q8N201	.;INT1_HUMAN	L	1116;1278	ENSP00000385722:V1116L;ENSP00000374121:V1278L	ENSP00000374121:V1278L	V	-	1	0	INTS1	1490248	1.000000	0.71417	0.299000	0.25016	0.458000	0.32498	7.433000	0.80362	2.226000	0.72624	0.462000	0.41574	GTG		0.657	INTS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323683.1			A	1523722	C	A	1523722	3	1	581	1	0	0	0	0	1	0	0	0	7782	536	19	4	3322	4	INTS1	7	1523722	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08		1523722	157614941	29	34496										
ANKIB1	54467	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	92027037	92027038	+	Splice_Site	DEL	AT	AT	-													0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	taccaattgctttgaaacagAtattccagaaggcggcagca							TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr7:92027037_92027038delAT	ENST00000265742.3	+	19	2772_2773	c.2396_2397delAT	c.(2395-2397)gat>g	p.D799fs		NM_019004.1	NP_061877.1	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	799							zinc ion binding (GO:0008270)			cervix(1)|endometrium(7)|kidney(3)|large_intestine(10)|lung(19)|skin(1)	41	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TTTGAAACAGATATTCCAGAAG	0.441																																																0																																										SO:0001630	splice_region_variant	54467			AB037807	CCDS47639.1	7q21.3	2013-01-10			ENSG00000001629	ENSG00000001629		"Ankyrin repeat domain containing"	22215	protein-coding gene	gene with protein product							Standard	NM_019004		Approved	DKFZP434A0225, KIAA1386	uc003ulw.2	Q9P2G1	OTTHUMG00000155859	ENST00000265742.3:c.2396-1AT>-	7.37:g.92027039_92027040delAT		Somatic		WXS	Illumina HiSeq	Phase_I	Q6GMS4|Q6P3S9|Q9NTD7|Q9NW49	Frame_Shift_Del	DEL	ENST00000265742.3	37	CCDS47639.1																																																																																				0.441	ANKIB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342018.1		Frame_Shift_Del	-	92027038	AT	-	92027037	8	5	581	1	0	1	0	1	0	0	1	0	630	347	12	0	2466	0	ANKIB1	7	92027037	Splice_Site	DEL	AT	TCGA-EU-5906-01A-11D-1669-08	90503315	92027037	67111626	30	34497										
NUDCD1	84955	hgsc.bcm.edu;ucsc.edu	37	chr8	110346160	110346161	+	Frame_Shift_Del	DEL	AG	AG	-													0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	ggtaacaaggcagcggctcaAgagagagcttgtaaccctcg					rs201844231		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr8:110346160_110346161delAG	ENST00000239690.4	-	1	453_454	c.79_80delCT	c.(79-81)cttfs	p.L27fs	ENY2_ENST00000521662.1_5'Flank|ENY2_ENST00000520147.1_5'Flank|ENY2_ENST00000521688.1_5'Flank	NM_032869.3	NP_116258.2			NudC domain containing 1											breast(1)|kidney(1)|large_intestine(4)|lung(15)|ovary(1)|prostate(2)|skin(1)	25	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;1.56e-12)			CAGCGGCTCAAGAGAGAGCTTG	0.624																																																0																																										SO:0001589	frameshift_variant	84955			AF283302	CCDS6312.1, CCDS47910.1	8q23	2005-02-07			ENSG00000120526	ENSG00000120526			24306	protein-coding gene	gene with protein product		606109				11416219	Standard	NM_032869		Approved	CML66, FLJ14991	uc003ynb.4	Q96RS6	OTTHUMG00000164931	ENST00000239690.4:c.79_80delCT	8.37:g.110346166_110346167delAG	ENSP00000239690:p.Leu27fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000239690.4	37	CCDS6312.1																																																																																				0.624	NUDCD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380996.1	NM_032869		-	110346161	AG	-	110346160	7	5	581	1	0	1	0	1	0	0	0	0	10729	72	3	0	1746	0	NUDCD1	8	110346160	Frame_Shift_Del	DEL	AG	TCGA-EU-5906-01A-11D-1669-08		110346160	36017862	31	34498										
WISP1	8840	hgsc.bcm.edu;ucsc.edu	37	chr8	134233012	134233013	+	Frame_Shift_Del	DEL	TG	TG	-													0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	tgagcatacctggccactgcTgtgagcagtgggtatgtgag							TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr8:134233012_134233013delTG	ENST00000250160.6	+	3	644_645	c.538_539delTG	c.(538-540)tgtfs	p.C180fs	WISP1_ENST00000377863.2_Intron|WISP1_ENST00000220856.6_Intron|WISP1_ENST00000517423.1_Intron|WISP1_ENST00000519433.1_Intron	NM_003882.3	NP_003873.1	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	180	VWFC. {ECO:0000255|PROSITE- ProRule:PRU00220}.				cell adhesion (GO:0007155)|cell-cell signaling (GO:0007267)|regulation of cell growth (GO:0001558)|signal transduction (GO:0007165)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)				central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(8)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	21	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			TGGCCACTGCTGTGAGCAGTGG	0.703																																																0																																										SO:0001589	frameshift_variant	8840			AF100779	CCDS6371.1, CCDS6372.1, CCDS56555.1, CCDS56556.1	8q24.22	2007-05-14			ENSG00000104415	ENSG00000104415			12769	protein-coding gene	gene with protein product		603398				9843955	Standard	NM_003882		Approved	CCN4	uc003yub.3	O95388	OTTHUMG00000164440	ENST00000250160.6:c.538_539delTG	8.37:g.134233014_134233015delTG	ENSP00000250160:p.Cys180fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAG6|E7EMM5|Q5JBS6|Q5JBS7|Q5JBS8|Q9HCS3	Frame_Shift_Del	DEL	ENST00000250160.6	37	CCDS6371.1																																																																																				0.703	WISP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378794.2	NM_003882		-	134233013	TG	-	134233012	7	5	581	1	0	1	0	1	0	0	0	0	17384	1580	55	0	548	0	WISP1	8	134233012	Frame_Shift_Del	DEL	TG	TCGA-EU-5906-01A-11D-1669-08	23886852	134233012	12131010	32	34499										
UBQLN1	29979	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	86279973	86279973	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	gaggcccggggcttccgttgCtaatgtctgtaaaccctgct	12	12	1	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr9:86279973C>T	ENST00000376395.4	-	9	1943	c.1420G>A	c.(1420-1422)Gca>Aca	p.A474T	UBQLN1_ENST00000257468.7_Missense_Mutation_p.A446T	NM_013438.4|NM_053067.2	NP_038466.2|NP_444295.1	Q9UMX0	UBQL1_HUMAN	ubiquilin 1	474					cellular response to hypoxia (GO:0071456)|regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902175)|regulation of protein ubiquitination (GO:0031396)|response to endoplasmic reticulum stress (GO:0034976)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|proteasome complex (GO:0000502)|protein complex (GO:0043234)	kinase binding (GO:0019900)	p.A474T(1)		breast(4)|endometrium(2)|kidney(4)|large_intestine(6)|lung(10)|prostate(1)	27						GCTTCCGTTGCTAATGTCTGT	0.423																																					Melanoma(186;1284 2073 12755 14558 18426)											1	Substitution - Missense(1)	kidney(1)											105	94	98					9																	86279973		2203	4300	6503	SO:0001583	missense	29979			AF176069	CCDS6663.1, CCDS6664.1	9q22	2013-02-12			ENSG00000135018	ENSG00000135018		"Ubiquilin family"	12508	protein-coding gene	gene with protein product		605046				9303440, 10807547	Standard	NM_013438		Approved	DSK2, PLIC-1, XDRP1, DA41	uc004amv.3	Q9UMX0	OTTHUMG00000020104	ENST00000376395.4:c.1420G>A	9.37:g.86279973C>T	ENSP00000365576:p.Ala474Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6J5|Q5T6J9|Q8IXS9|Q8N2Q3|Q9H0T8|Q9H3R4|Q9HAZ5	Missense_Mutation	SNP	ENST00000376395.4	37	CCDS6663.1	.	.	.	.	.	.	.	.	.	.	C	15.67	2.903461	0.52333	.	.	ENSG00000135018	ENST00000376395;ENST00000257468	T;T	0.54675	1.06;0.56	5.65	5.65	0.86999	.	0.000000	0.85682	D	0.000000	T	0.75347	0.3837	M	0.85041	2.73	0.46298	D	0.998979	P;D	0.71674	0.876;0.998	P;D	0.81914	0.596;0.995	T	0.70669	-0.4808	10	0.19147	T	0.46	.	20.0919	0.97823	0.0:1.0:0.0:0.0	.	446;474	Q9UMX0-2;Q9UMX0	.;UBQL1_HUMAN	T	474;446	ENSP00000365576:A474T;ENSP00000257468:A446T	ENSP00000257468:A446T	A	-	1	0	UBQLN1	85469793	1.000000	0.71417	0.987000	0.45799	0.983000	0.72400	5.812000	0.69194	2.810000	0.96702	0.650000	0.86243	GCA		0.423	UBQLN1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000052834.1	NM_013438		T	86279973	C	T	86279973	3	4	581	1	0	0	0	0	1	0	0	0	16908	797	28	2	361	2	UBQLN1	9	86279973	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08		86279973	54933458	33	34500										
NOL8	55035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	95062258	95062258	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	aaacgagggtcttcctgccaGacaatctttccaggtttcac	8	12	3	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr9:95062258G>C	ENST00000535387.1	-	12	3101	c.3102C>G	c.(3100-3102)gtC>gtG	p.V1034V	NOL8_ENST00000545558.1_Silent_p.V1072V|NOL8_ENST00000442668.2_Silent_p.V1072V|NOL8_ENST00000542053.1_Silent_p.V1004V|NOL8_ENST00000358855.4_Silent_p.V1004V					nucleolar protein 8									p.V1074V(1)|p.V1072V(1)		endometrium(3)|kidney(2)|large_intestine(5)|lung(5)|ovary(1)	16						CTTCCTGCCAGACAATCTTTC	0.408																																																2	Substitution - coding silent(2)	kidney(2)											242	229	233					9																	95062258		1859	4113	5972	SO:0001819	synonymous_variant	55035			AB109030	CCDS47993.1, CCDS59135.1	9q22.32	2013-02-12	2004-01-12	2004-01-14	ENSG00000198000	ENSG00000198000		"RNA binding motif (RRM) containing"	23387	protein-coding gene	gene with protein product		611534	"chromosome 9 open reading frame 34"	C9orf34		12477932	Standard	NM_017948		Approved	FLJ20736, Nop132	uc022bjx.1	Q76FK4	OTTHUMG00000020221	ENST00000535387.1:c.3102C>G	9.37:g.95062258G>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000535387.1	37	CCDS47993.1																																																																																				0.408	NOL8-010	NOVEL	basic|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000053082.2	NM_017948		C	95062258	G	C	95062258	2	2	581	1	0	0	0	0	0	0	0	1	10534	929	33	4		4	NOL8	9	95062258	Silent	SNP	G	TCGA-EU-5906-01A-11D-1669-08	8782285	95062258	46151173	34	34501										
BAAT	570	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	104130484	104130484	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	gtttgcggggcaggtcttcaTagttatggtaagccaaggcc	14	8	2	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr9:104130484T>A	ENST00000395051.3	-	2	657	c.587A>T	c.(586-588)tAt>tTt	p.Y196F	BAAT_ENST00000259407.2_Missense_Mutation_p.Y196F			Q14032	BAAT_HUMAN	bile acid CoA:amino acid N-acyltransferase	196					acyl-CoA metabolic process (GO:0006637)|bile acid and bile salt transport (GO:0015721)|bile acid biosynthetic process (GO:0006699)|bile acid conjugation (GO:0002152)|bile acid metabolic process (GO:0008206)|fatty acid metabolic process (GO:0006631)|glycine metabolic process (GO:0006544)|liver development (GO:0001889)|organ regeneration (GO:0031100)|small molecule metabolic process (GO:0044281)|taurine metabolic process (GO:0019530)	cytosol (GO:0005829)|peroxisomal matrix (GO:0005782)|peroxisome (GO:0005777)	carboxylic ester hydrolase activity (GO:0052689)|glycine N-choloyltransferase activity (GO:0047963)|long-chain acyl-CoA hydrolase activity (GO:0052816)|medium-chain acyl-CoA hydrolase activity (GO:0052815)|N-acyltransferase activity (GO:0016410)|palmitoyl-CoA hydrolase activity (GO:0016290)|receptor binding (GO:0005102)|very long chain acyl-CoA hydrolase activity (GO:0052817)	p.Y196F(1)		breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(9)|ovary(1)|skin(1)	23		Acute lymphoblastic leukemia(62;0.0559)			Glycine(DB00145)	CAGGTCTTCATAGTTATGGTA	0.473																																																1	Substitution - Missense(1)	kidney(1)											72	76	75					9																	104130484		2203	4300	6503	SO:0001583	missense	570			L34081	CCDS6752.1	9q22.3	2014-06-24	2014-06-24		ENSG00000136881	ENSG00000136881	2.3.1.65		932	protein-coding gene	gene with protein product	"glycine N-choloyltransferase"	602938	"bile acid Coenzyme A:amino acid N-acyltransferase (glycine N-choloyltransferase)", "bile acid CoA: amino acid N-acyltransferase (glycine N-choloyltransferase)"				Standard	NM_001701		Approved	BAT	uc010mtd.3	Q14032	OTTHUMG00000020377	ENST00000395051.3:c.587A>T	9.37:g.104130484T>A	ENSP00000378491:p.Tyr196Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q3B7W9|Q96L31	Missense_Mutation	SNP	ENST00000395051.3	37	CCDS6752.1	.	.	.	.	.	.	.	.	.	.	T	5.771	0.326630	0.10900	.	.	ENSG00000136881	ENST00000259407;ENST00000395051	T;T	0.40756	1.02;1.02	4.47	3.31	0.37934	.	0.238726	0.29087	N	0.013182	T	0.28466	0.0704	L	0.42744	1.35	0.38744	D	0.953966	P	0.34934	0.476	B	0.31547	0.132	T	0.08086	-1.0739	10	0.14656	T	0.56	-18.0123	8.1685	0.31241	0.1965:0.0:0.0:0.8035	.	196	Q14032	BAAT_HUMAN	F	196	ENSP00000259407:Y196F;ENSP00000378491:Y196F	ENSP00000259407:Y196F	Y	-	2	0	BAAT	103170305	0.991000	0.36638	0.969000	0.41365	0.053000	0.15095	1.011000	0.29911	0.719000	0.32188	0.459000	0.35465	TAT		0.473	BAAT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053433.1			A	104130484	T	A	104130484	3	1	581	1	0	0	0	0	1	0	0	0	1280	1406	49	5	677	5	BAAT	9	104130484	Missense_Mutation	SNP	T	TCGA-EU-5906-01A-11D-1669-08	9068226	104130484	37082947	35	34502										
SCAI	286205	broad.mit.edu;hgsc.bcm.edu	37	chr9	127789180	127789180	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	ttcagatagctggtttccgaTgtgcgtaagctatgagaaaa	11	6	1	2	rs375130234		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr9:127789180T>G	ENST00000336505.6	-	6	481	c.423A>C	c.(421-423)acA>acC	p.T141T	SCAI_ENST00000373549.4_Silent_p.T164T	NM_001144877.2	NP_001138349.1	Q8N9R8	SCAI_HUMAN	suppressor of cancer cell invasion	141	Necessary to inhibit MKL1-induced SRF transcriptional activity. {ECO:0000250}.|Required for interaction with MKL1. {ECO:0000250}.				negative regulation of cell migration (GO:0030336)|negative regulation of Rho protein signal transduction (GO:0035024)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	transcription corepressor activity (GO:0003714)	p.T164T(1)		breast(2)|central_nervous_system(1)|endometrium(3)|kidney(7)|large_intestine(4)|lung(8)|ovary(2)|pancreas(1)|prostate(5)|stomach(1)|urinary_tract(1)	35						TGGTTTCCGATGTGCGTAAGC	0.358																																																1	Substitution - coding silent(1)	kidney(1)											93	86	88					9																	127789180		1825	4074	5899	SO:0001819	synonymous_variant	286205			AK093983	CCDS43877.1, CCDS48017.1	9q34.11	2009-11-06	2009-07-09	2009-07-09	ENSG00000173611	ENSG00000173611			26709	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 126"	C9orf126			Standard	NM_173690		Approved	FLJ36664, NET40	uc004bpd.3	Q8N9R8	OTTHUMG00000020667	ENST00000336505.6:c.423A>C	9.37:g.127789180T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q3SXZ1|Q3SXZ2|Q5T163|Q8N1I4	Silent	SNP	ENST00000336505.6	37	CCDS48017.1																																																																																				0.358	SCAI-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054055.3	NM_173690		G	127789180	T	G	127789180	2	3	581	1	0	0	0	0	0	0	0	1	13882	1451	51	5		5	SCAI	9	127789180	Silent	SNP	T	TCGA-EU-5906-01A-11D-1669-08	23658696	127789180	13424251	36	34503										
UBE2D1	7321	broad.mit.edu;hgsc.bcm.edu	37	chr10	60124536	60124536	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	ttgttttatgtttagattgcTttcacaacaaaaatttacca	4	6	1	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr10:60124536T>A	ENST00000373910.4	+	5	431	c.204T>A	c.(202-204)gcT>gcA	p.A68A		NM_001204880.1|NM_003338.4	NP_001191809.1|NP_003329.1	P51668	UB2D1_HUMAN	ubiquitin-conjugating enzyme E2D 1	68					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|BMP signaling pathway (GO:0030509)|cellular response to hypoxia (GO:0071456)|gene expression (GO:0010467)|innate immune response (GO:0045087)|mitotic cell cycle (GO:0000278)|mitotic spindle assembly checkpoint (GO:0007094)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K48-linked ubiquitination (GO:0070936)|protein polyubiquitination (GO:0000209)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor signaling pathway (GO:0002224)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|protein complex (GO:0043234)|ubiquitin ligase complex (GO:0000151)	acid-amino acid ligase activity (GO:0016881)|ATP binding (GO:0005524)|ubiquitin-protein transferase activity (GO:0004842)	p.A68A(1)		central_nervous_system(1)|kidney(3)|large_intestine(1)|lung(2)|prostate(1)|skin(2)	10						TTTAGATTGCTTTCACAACAA	0.323																																																1	Substitution - coding silent(1)	kidney(1)											99	93	95					10																	60124536		2203	4300	6503	SO:0001819	synonymous_variant	7321			BC015997	CCDS7252.1, CCDS73139.1	10q21.1	2011-05-19	2011-05-19		ENSG00000072401	ENSG00000072401		"Ubiquitin-conjugating enzymes E2"	12474	protein-coding gene	gene with protein product		602961	"stimulator of Fe transport", "ubiquitin-conjugating enzyme E2D 1 (UBC4/5 homolog, yeast)"	SFT		10072594, 8530467	Standard	NM_003338		Approved	UbcH5A, UBCH5, UBC4/5, E2(17)KB1	uc001jke.2	P51668	OTTHUMG00000018269	ENST00000373910.4:c.204T>A	10.37:g.60124536T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NLF6|A8K786	Silent	SNP	ENST00000373910.4	37	CCDS7252.1																																																																																				0.323	UBE2D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048143.2	NM_003338		A	60124536	T	A	60124536	2	1	581	1	0	0	0	0	0	0	0	1	16860	1596	56	5		5	UBE2D1	10	60124536	Silent	SNP	T	TCGA-EU-5906-01A-11D-1669-08		60124536	75410211	37	34504										
ANK3	288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	61835232	61835232	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	agatattgacgacccaagggAtgtatagagtgcacttgcgg	13	7	0	3			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr10:61835232A>G	ENST00000280772.2	-	37	5598	c.5407T>C	c.(5407-5409)Tcc>Ccc	p.S1803P	ANK3_ENST00000373827.2_Intron|ANK3_ENST00000355288.2_Intron|ANK3_ENST00000503366.1_Intron	NM_020987.3	NP_066267.2	Q12955	ANK3_HUMAN	ankyrin 3, node of Ranvier (ankyrin G)	1803	Ser-rich.				axon guidance (GO:0007411)|axonogenesis (GO:0007409)|cytoskeletal anchoring at plasma membrane (GO:0007016)|establishment of protein localization (GO:0045184)|Golgi to plasma membrane protein transport (GO:0043001)|maintenance of protein location in plasma membrane (GO:0072660)|membrane assembly (GO:0071709)|mitotic cytokinesis (GO:0000281)|neuromuscular junction development (GO:0007528)|neuronal action potential (GO:0019228)|plasma membrane organization (GO:0007009)|positive regulation of cell communication by electrical coupling (GO:0010650)|positive regulation of gene expression (GO:0010628)|positive regulation of homotypic cell-cell adhesion (GO:0034112)|positive regulation of membrane depolarization during cardiac muscle cell action potential (GO:1900827)|positive regulation of membrane potential (GO:0045838)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|positive regulation of sodium ion transport (GO:0010765)|protein localization to plasma membrane (GO:0072659)|protein targeting to plasma membrane (GO:0072661)|regulation of potassium ion transport (GO:0043266)|signal transduction (GO:0007165)	axon initial segment (GO:0043194)|basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|costamere (GO:0043034)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|intercalated disc (GO:0014704)|lateral plasma membrane (GO:0016328)|lysosome (GO:0005764)|neuromuscular junction (GO:0031594)|node of Ranvier (GO:0033268)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|sarcoplasmic reticulum (GO:0016529)|spectrin-associated cytoskeleton (GO:0014731)|T-tubule (GO:0030315)|Z disc (GO:0030018)	cadherin binding (GO:0045296)|cytoskeletal protein binding (GO:0008092)|ion channel binding (GO:0044325)|protein binding, bridging (GO:0030674)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)	p.S1803P(1)		NS(4)|breast(7)|central_nervous_system(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(5)|kidney(14)|large_intestine(30)|liver(2)|lung(59)|ovary(8)|pancreas(2)|prostate(5)|skin(26)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(7)	196						GACCCAAGGGATGTATAGAGT	0.438																																																1	Substitution - Missense(1)	kidney(1)											126	134	131					10																	61835232		2203	4300	6503	SO:0001583	missense	288			U13616	CCDS7258.1, CCDS7259.1, CCDS55711.1, CCDS55712.1	10q21	2013-01-10			ENSG00000151150	ENSG00000151150		"Ankyrin repeat domain containing"	494	protein-coding gene	gene with protein product	"ankyrin-3, node of Ranvier", "ankyrin-G"	600465				7665168	Standard	NM_020987		Approved		uc001jky.3	Q12955	OTTHUMG00000018288	ENST00000280772.2:c.5407T>C	10.37:g.61835232A>G	ENSP00000280772:p.Ser1803Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B1AQT2|B4DIL1|E9PE32|Q13484|Q5CZH9|Q5VXD5|Q7Z3G4|Q9H0P5	Missense_Mutation	SNP	ENST00000280772.2	37	CCDS7258.1	.	.	.	.	.	.	.	.	.	.	A	14.25	2.480818	0.44044	.	.	ENSG00000151150	ENST00000280772	T	0.66995	-0.24	5.54	5.54	0.83059	.	0.000000	0.41823	D	0.000813	T	0.63248	0.2495	L	0.58101	1.795	0.80722	D	1	B	0.13145	0.007	B	0.12837	0.008	T	0.62412	-0.6860	10	0.62326	D	0.03	.	12.4968	0.55933	0.8513:0.1487:0.0:0.0	.	1803	Q12955	ANK3_HUMAN	P	1803	ENSP00000280772:S1803P	ENSP00000280772:S1803P	S	-	1	0	ANK3	61505238	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	4.866000	0.63005	2.135000	0.66039	0.378000	0.23410	TCC		0.438	ANK3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048201.4	NM_020987		G	61835232	A	G	61835232	3	3	581	1	0	0	0	0	1	0	0	0	622	333	12	3	8067	3	ANK3	10	61835232	Missense_Mutation	SNP	A	TCGA-EU-5906-01A-11D-1669-08	1710696	61835232	73699515	38	34505										
CYP2E1	1571	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	135347393	135347393	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	gattctcatgaaataccctgAgattgaaggtaggcaagtga	11	6	1	4			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr10:135347393A>C	ENST00000463117.2	+	8	1231	c.959A>C	c.(958-960)gAg>gCg	p.E320A	SPRN_ENST00000541506.1_Intron|CYP2E1_ENST00000252945.3_Missense_Mutation_p.E320A			P05181	CP2E1_HUMAN	cytochrome P450, family 2, subfamily E, polypeptide 1	320					drug metabolic process (GO:0017144)|heterocycle metabolic process (GO:0046483)|monoterpenoid metabolic process (GO:0016098)|oxidation-reduction process (GO:0055114)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to organonitrogen compound (GO:0010243)|response to ozone (GO:0010193)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|triglyceride metabolic process (GO:0006641)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)|Golgi membrane (GO:0000139)|intrinsic component of endoplasmic reticulum membrane (GO:0031227)|mitochondrion (GO:0005739)	enzyme binding (GO:0019899)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity (GO:0016491)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen (GO:0016709)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen (GO:0016712)|oxygen binding (GO:0019825)	p.E320A(1)		NS(1)|central_nervous_system(3)|endometrium(1)|kidney(4)|large_intestine(6)|liver(2)|lung(7)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	30		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;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)	Acetaminophen(DB00316)|Aldesleukin(DB00041)|Almotriptan(DB00918)|Alosetron(DB00969)|Aminophylline(DB01223)|Amitriptyline(DB00321)|Antipyrine(DB01435)|Azelastine(DB00972)|Benzyl alcohol(DB06770)|Bifonazole(DB04794)|Bromazepam(DB01558)|Brompheniramine(DB00835)|Bupropion(DB01156)|Caffeine(DB00201)|Carbinoxamine(DB00748)|Carvedilol(DB01136)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cimetidine(DB00501)|Citalopram(DB00215)|Clevidipine(DB04920)|Clofibrate(DB00636)|Clomifene(DB00882)|Clonazepam(DB01068)|Clotrimazole(DB00257)|Clozapine(DB00363)|Colchicine(DB01394)|Dacarbazine(DB00851)|Dalfampridine(DB06637)|Dapsone(DB00250)|Desipramine(DB01151)|Dexamethasone(DB01234)|Dexfenfluramine(DB01191)|Dexmedetomidine(DB00633)|Dextromethorphan(DB00514)|Diazepam(DB00829)|Diclofenac(DB00586)|Diethylstilbestrol(DB00255)|Disulfiram(DB00822)|Econazole(DB01127)|Enflurane(DB00228)|Enfuvirtide(DB00109)|Estrone(DB00655)|Ethanol(DB00898)|Ethanolamine Oleate(DB06689)|Ethosuximide(DB00593)|Etoposide(DB00773)|Etoricoxib(DB01628)|Felbamate(DB00949)|Fingolimod(DB08868)|Flunitrazepam(DB01544)|Fluphenazine(DB00623)|Flurazepam(DB00690)|Fluvoxamine(DB00176)|Folic Acid(DB00158)|Fomepizole(DB01213)|Glucosamine(DB01296)|Halothane(DB01159)|Hexobarbital(DB01355)|Iloperidone(DB04946)|Imipramine(DB00458)|Isoflurane(DB00753)|Isoniazid(DB00951)|Isosorbide Dinitrate(DB00883)|Itraconazole(DB01167)|Menadione(DB00170)|Meprobamate(DB00371)|Methazolamide(DB00703)|Methimazole(DB00763)|Methotrimeprazine(DB01403)|Methoxyflurane(DB01028)|Metyrapone(DB01011)|Mexiletine(DB00379)|Miconazole(DB01110)|Midazolam(DB00683)|Mitoxantrone(DB01204)|Nicardipine(DB00622)|Nicotine(DB00184)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nitrazepam(DB01595)|Nortriptyline(DB00540)|Ondansetron(DB00904)|Orphenadrine(DB01173)|Oxaliplatin(DB00526)|Paramethadione(DB00617)|Phenelzine(DB00780)|Phenobarbital(DB01174)|Pilocarpine(DB01085)|Pimozide(DB01100)|Proguanil(DB01131)|Propofol(DB00818)|Quinidine(DB00908)|Quinine(DB00468)|Rifampicin(DB01045)|Ritonavir(DB00503)|Rufinamide(DB06201)|S-Adenosylmethionine(DB00118)|Selegiline(DB01037)|Sevoflurane(DB01236)|Sildenafil(DB00203)|Streptozocin(DB00428)|Sulfadiazine(DB00359)|Sulfanilamide(DB00259)|Tamoxifen(DB00675)|Thalidomide(DB01041)|Theobromine(DB01412)|Theophylline(DB00277)|Thiopental(DB00599)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tioconazole(DB01007)|Trabectedin(DB05109)|Tranylcypromine(DB00752)|Trimethadione(DB00347)|Ursodeoxycholic acid(DB01586)|Zafirlukast(DB00549)|Zopiclone(DB01198)	AAATACCCTGAGATTGAAGGT	0.542									Naso-/Oropharyngeal/Laryngeal Cancer, Familial Clustering of																																							1	Substitution - Missense(1)	kidney(1)											115	100	106					10																	135347393		2203	4300	6503	SO:0001583	missense	1571	Familial Cancer Database	incl.: Familial Head and Neck Cancer	J02843	CCDS7686.1	10q26.3	2013-05-03	2003-01-14	2002-09-13	ENSG00000130649	ENSG00000130649		"Cytochrome P450s"	2631	protein-coding gene	gene with protein product		124040	"cytochrome P450, subfamily IIE (ethanol-inducible), polypeptide 1"	CYP2E			Standard	NM_000773		Approved		uc001lnj.1	P05181	OTTHUMG00000019322	ENST00000463117.2:c.959A>C	10.37:g.135347393A>C	ENSP00000440689:p.Glu320Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VZD5|Q6NWT9|Q9UK47	Missense_Mutation	SNP	ENST00000463117.2	37	CCDS7686.1	.	.	.	.	.	.	.	.	.	.	A	18.79	3.699132	0.68501	.	.	ENSG00000130649	ENST00000463117;ENST00000252945;ENST00000421586;ENST00000418356	T;T;T;D	0.81739	4.74;4.74;2.37;-1.53	4.12	4.12	0.48240	.	0.515339	0.23466	N	0.047861	D	0.83788	0.5330	M	0.81112	2.525	0.30241	N	0.795043	P;P	0.43094	0.737;0.799	B;P	0.46825	0.368;0.528	D	0.84219	0.0460	10	0.87932	D	0	.	11.7939	0.52088	1.0:0.0:0.0:0.0	.	216;320	Q59EW1;P05181	.;CP2E1_HUMAN	A	320;320;233;183	ENSP00000440689:E320A;ENSP00000252945:E320A;ENSP00000412754:E233A;ENSP00000397299:E183A	ENSP00000252945:E320A	E	+	2	0	CYP2E1	135197383	0.998000	0.40836	0.718000	0.30602	0.845000	0.48019	8.220000	0.89772	2.103000	0.63969	0.486000	0.48141	GAG		0.542	CYP2E1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051161.2	NM_000773		C	135347393	A	C	135347393	3	2	581	1	0	0	0	0	1	0	0	0	4172	304	11	5	981	5	CYP2E1	10	135347393	Missense_Mutation	SNP	A	TCGA-EU-5906-01A-11D-1669-08	73512161	135347393	187354	39	34506										
NUP98	4928	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	3797242	3797242	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	gtcctccactgctagtactgGttccaaaatctaaaaataag	6	10	1	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr11:3797242G>A	ENST00000324932.7	-	5	785	c.365C>T	c.(364-366)aCc>aTc	p.T122I	NUP98_ENST00000397007.4_Missense_Mutation_p.T122I|NUP98_ENST00000397004.4_Missense_Mutation_p.T122I|NUP98_ENST00000355260.3_Missense_Mutation_p.T122I|NUP98_ENST00000359171.4_Missense_Mutation_p.T122I	NM_016320.4|NM_139132.3	NP_057404.2|NP_624358.2	P52948	NUP98_HUMAN	nucleoporin 98kDa	122	FG repeats 1.|Gly/Thr-rich.				carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|DNA replication (GO:0006260)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|nuclear pore complex assembly (GO:0051292)|nuclear pore organization (GO:0006999)|nucleocytoplasmic transport (GO:0006913)|protein import into nucleus, docking (GO:0000059)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytosol (GO:0005829)|nuclear envelope (GO:0005635)|nuclear inclusion body (GO:0042405)|nuclear membrane (GO:0031965)|nuclear periphery (GO:0034399)|nuclear pore (GO:0005643)|nuclear pore nuclear basket (GO:0044615)|nuclear pore outer ring (GO:0031080)|nucleoplasm (GO:0005654)	peptide binding (GO:0042277)|structural constituent of nuclear pore (GO:0017056)|transporter activity (GO:0005215)	p.T122I(1)		NS(1)|autonomic_ganglia(1)|breast(8)|central_nervous_system(1)|endometrium(5)|kidney(5)|large_intestine(13)|liver(1)|lung(15)|ovary(2)|prostate(2)|skin(9)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	66		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		GCTAGTACTGGTTCCAAAATC	0.398			T	"HOXA9, NSD1, WHSC1L1, DDX10, TOP1, HOXD13, PMX1, HOXA13, HOXD11, HOXA11, RAP1GDS1, HOXC11"	AML																																		Dom	yes		11	11p15	4928	nucleoporin 98kDa		L	1	Substitution - Missense(1)	kidney(1)											115	126	122					11																	3797242		2201	4298	6499	SO:0001583	missense	4928			AF071076, AF231130, BC012906, BG773331	CCDS7746.1, CCDS31347.1, CCDS41605.1, CCDS41606.1	11p15	2008-02-26	2002-08-29		ENSG00000110713	ENSG00000110713			8068	protein-coding gene	gene with protein product		601021	"nucleoporin 98kD"			9166830	Standard	NM_139131		Approved	NUP96	uc001lyh.3	P52948	OTTHUMG00000011846	ENST00000324932.7:c.365C>T	11.37:g.3797242G>A	ENSP00000316032:p.Thr122Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUT2|Q8WYB0|Q96E54|Q9H3Q4|Q9NT02|Q9UF57|Q9UHX0|Q9Y6J4|Q9Y6J5	Missense_Mutation	SNP	ENST00000324932.7	37	CCDS7746.1	.	.	.	.	.	.	.	.	.	.	G	26.7	4.761659	0.89932	.	.	ENSG00000110713	ENST00000324932;ENST00000359171;ENST00000355260;ENST00000397004;ENST00000397007;ENST00000532475	.	.	.	5.45	5.45	0.79879	.	0.000000	0.85682	D	0.000000	D	0.83945	0.5364	M	0.84511	2.7	0.54753	D	0.999985	D;D;D;D;D	0.89917	1.0;1.0;0.999;1.0;1.0	D;D;D;D;D	0.91635	0.998;0.996;0.991;0.999;0.999	D	0.85623	0.1265	9	0.56958	D	0.05	.	17.8531	0.88754	0.0:0.0:1.0:0.0	.	122;122;122;122;122	P52948;P52948-3;P52948-4;P52948-2;P52948-5	NUP98_HUMAN;.;.;.;.	I	122;122;122;122;122;85	.	ENSP00000316032:T122I	T	-	2	0	NUP98	3753818	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	7.002000	0.76304	2.573000	0.86826	0.655000	0.94253	ACC		0.398	NUP98-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032766.3	NM_016320		A	3797242	G	A	3797242	3	1	581	1	0	0	0	0	1	0	0	0	10780	1261	44	2	5225	2	NUP98	11	3797242	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08		3797242	131209274	40	34507										
P2RX3	5024	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	57117325	57117325	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	gccccatcttgcgggtagggGacgtggtcaagtttgcgggg	18	9	2	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr11:57117325G>A	ENST00000263314.2	+	7	692	c.658G>A	c.(658-660)Gac>Aac	p.D220N		NM_002559.3	NP_002550.2	P56373	P2RX3_HUMAN	purinergic receptor P2X, ligand-gated ion channel, 3	220					behavioral response to pain (GO:0048266)|cation transmembrane transport (GO:0098655)|neuromuscular synaptic transmission (GO:0007274)|neuronal action potential (GO:0019228)|peristalsis (GO:0030432)|positive regulation of calcium ion transport into cytosol (GO:0010524)|positive regulation of calcium-mediated signaling (GO:0050850)|protein homooligomerization (GO:0051260)|purinergic nucleotide receptor signaling pathway (GO:0035590)|regulation of synaptic plasticity (GO:0048167)|response to ATP (GO:0033198)|response to carbohydrate (GO:0009743)|response to cold (GO:0009409)|response to heat (GO:0009408)|response to hypoxia (GO:0001666)|response to mechanical stimulus (GO:0009612)|sensory perception of taste (GO:0050909)|signal transduction (GO:0007165)|transport (GO:0006810)|urinary bladder smooth muscle contraction (GO:0014832)	dendritic spine (GO:0043197)|Golgi apparatus (GO:0005794)|integral component of nuclear inner membrane (GO:0005639)|integral component of plasma membrane (GO:0005887)|membrane raft (GO:0045121)|neuronal cell body (GO:0043025)|receptor complex (GO:0043235)|rough endoplasmic reticulum (GO:0005791)|terminal bouton (GO:0043195)	ATP binding (GO:0005524)|extracellular ATP-gated cation channel activity (GO:0004931)|purinergic nucleotide receptor activity (GO:0001614)	p.D220N(1)		endometrium(4)|kidney(2)|large_intestine(4)|lung(15)|prostate(1)	26						GCGGGTAGGGGACGTGGTCAA	0.612											OREG0020966	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				1	Substitution - Missense(1)	kidney(1)											75	62	67					11																	57117325		2201	4296	6497	SO:0001583	missense	5024			Y07683	CCDS7953.1	11q12	2012-01-17			ENSG00000109991	ENSG00000109991		"Purinergic receptors", "Ligand-gated ion channels / Purinergic receptors, ionotropic"	8534	protein-coding gene	gene with protein product		600843				9221902	Standard	NM_002559		Approved	P2X3	uc001nju.3	P56373	OTTHUMG00000167025	ENST00000263314.2:c.658G>A	11.37:g.57117325G>A	ENSP00000263314:p.Asp220Asn	Somatic	1020	WXS	Illumina HiSeq	Phase_I	Q6DK37|Q9UQB6	Missense_Mutation	SNP	ENST00000263314.2	37	CCDS7953.1	.	.	.	.	.	.	.	.	.	.	G	34	5.338255	0.95758	.	.	ENSG00000109991	ENST00000439993;ENST00000263314	T	0.05139	3.49	5.78	5.78	0.91487	.	0.000000	0.85682	D	0.000000	T	0.25606	0.0623	M	0.74881	2.28	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.00111	-1.2045	10	0.36615	T	0.2	-27.1745	16.9372	0.86206	0.0:0.0:1.0:0.0	.	220	P56373	P2RX3_HUMAN	N	220	ENSP00000263314:D220N	ENSP00000263314:D220N	D	+	1	0	P2RX3	56873901	1.000000	0.71417	0.995000	0.50966	0.997000	0.91878	6.236000	0.72339	2.729000	0.93468	0.650000	0.86243	GAC		0.612	P2RX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392465.1	NM_002559		A	57117325	G	A	57117325	3	1	581	1	0	0	0	0	1	0	0	0	11348	1174	41	2	684	2	P2RX3	11	57117325	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	53320083	57117325	77889191	41	34508										
ALDH3B1	221	broad.mit.edu;hgsc.bcm.edu	37	chr11	67789230	67789230	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	cgacgacccccagagctcccCaaacctgggccgcatcatca	8	19	2	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr11:67789230C>G	ENST00000539229.1	+	8	952	c.836C>G	c.(835-837)cCa>cGa	p.P279R	ALDH3B1_ENST00000342456.6_Missense_Mutation_p.P243R|ALDH3B1_ENST00000007633.8_Missense_Mutation_p.P279R|ALDH3B1_ENST00000434449.1_3'UTR|ALDH3B1_ENST00000316367.6_Intron	NM_001161473.1	NP_001154945.1	P43353	AL3B1_HUMAN	aldehyde dehydrogenase 3 family, member B1	280					alcohol metabolic process (GO:0006066)|aldehyde catabolic process (GO:0046185)|cellular response to oxidative stress (GO:0034599)|ethanol catabolic process (GO:0006068)|lipid metabolic process (GO:0006629)|oxidation-reduction process (GO:0055114)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	3-chloroallyl aldehyde dehydrogenase activity (GO:0004028)|aldehyde dehydrogenase [NAD(P)+] activity (GO:0004030)										CAGAGCTCCCCAAACCTGGGC	0.637											OREG0021141	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													93	105	101					11																	67789230		2200	4294	6494	SO:0001583	missense	221			U10868	CCDS73335.1, CCDS73336.1	11q13	2010-04-27			ENSG00000006534	ENSG00000006534	1.2.1.5	"Aldehyde dehydrogenases"	410	protein-coding gene	gene with protein product	"aldehyde dehydrogenase 7", "aldehyde dehydrogenase 3B1"	600466		ALDH7		9161417, 7828891	Standard	NM_000694		Approved		uc001ona.3	P43353	OTTHUMG00000154910	ENST00000539229.1:c.836C>G	11.37:g.67789230C>G	ENSP00000474034:p.Pro279Arg	Somatic	1102	WXS	Illumina HiSeq	Phase_I	A3FMP9|Q53XL5|Q8N515|Q96CK8	Missense_Mutation	SNP	ENST00000539229.1	37																																																																																					0.637	ALDH3B1-204	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_000694		G	67789230	C	G	67789230	3	3	581	1	0	0	0	0	1	0	0	0	499	594	21	4	860	4	ALDH3B1	11	67789230	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08	10671905	67789230	67217286	42	34509										
PRB3	5544	broad.mit.edu	37	chr12	11420500	11420500	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	tgttgcctccttgtgggggtGgtccttctggctttcccgga	14	11	1	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr12:11420500G>T	ENST00000279573.7	-	3	818	c.683C>A	c.(682-684)cCa>cAa	p.P228Q	PRB3_ENST00000381842.3_Intron|PRB3_ENST00000440870.3_Intron|PRB3_ENST00000538488.1_Intron			Q04118	PRB3_HUMAN	proline-rich protein BstNI subfamily 3	228	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.				defense response to Gram-negative bacterium (GO:0050829)	extracellular region (GO:0005576)				breast(2)|endometrium(1)|kidney(2)|large_intestine(1)|lung(13)|ovary(1)|skin(5)	25			OV - Ovarian serous cystadenocarcinoma(49;0.201)			TTGTGGGGGTGGTCCTTCTGG	0.627																																																0																																										SO:0001583	missense	5544					12p13.2	2012-10-02				ENSG00000197870			9339	protein-coding gene	gene with protein product		168840				1894623	Standard	NM_006249		Approved	PRG	uc001qzs.3	Q04118		ENST00000279573.7:c.683C>A	12.37:g.11420500G>T	ENSP00000279573:p.Pro228Gln	Somatic		WXS	Illumina GAIIx	Phase_I	Q15188|Q4VAY3|Q4VAY4|Q7M4M9|Q9UCT9	Missense_Mutation	SNP	ENST00000279573.7	37																																																																																					0.627	PRB3-001	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000402119.5	NM_006249		T	11420500	G	T	11420500	3	4	581	1	0	0	0	0	1	0	0	0	12454	1348	47	4	254	4	PRB3	12	11420500	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08		11420500	122431395	43	34510										
TUBA1A	7846	broad.mit.edu	37	chr12	49579013	49579013	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	cagcaatggctgtggtgttgCtcagcatgcacacagctctc	11	12	2	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr12:49579013C>T	ENST00000295766.5	-	4	1615	c.1136G>A	c.(1135-1137)aGc>aAc	p.S379N	TUBA1A_ENST00000550767.1_Missense_Mutation_p.S344N|TUBA1A_ENST00000301071.7_Missense_Mutation_p.S379N	NM_001270399.1	NP_001257328.1	Q71U36	TBA1A_HUMAN	tubulin, alpha 1a	379					'de novo' posttranslational protein folding (GO:0051084)|cell division (GO:0051301)|cellular protein metabolic process (GO:0044267)|cytoskeleton-dependent intracellular transport (GO:0030705)|G2/M transition of mitotic cell cycle (GO:0000086)|microtubule-based process (GO:0007017)|mitotic cell cycle (GO:0000278)|protein folding (GO:0006457)|protein polymerization (GO:0051258)	cytoplasmic microtubule (GO:0005881)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)	p.S379N(1)		stomach(1)|upper_aerodigestive_tract(1)	2					Albendazole(DB00518)|Mebendazole(DB00643)|Vinblastine(DB00570)	TGTGGTGTTGCTCAGCATGCA	0.582																																					Pancreas(111;782 2307 24613 44561)|NSCLC(165;1667 2752 9496 39006)|Ovarian(19;24 776 10875 37451)											1	Substitution - Missense(1)	kidney(1)											69	58	62					12																	49579013		2203	4296	6499	SO:0001583	missense	7846			AF141347	CCDS8781.1, CCDS58226.1, CCDS58227.1	12q13.12	2007-02-07						"Tubulins"	20766	protein-coding gene	gene with protein product	"tubulin, alpha, brain-specific"	602529				11504633, 3839072	Standard	NM_006009		Approved	TUBA3, B-ALPHA-1, FLJ25113	uc010smg.1	Q71U36	OTTHUMG00000169511	ENST00000295766.5:c.1136G>A	12.37:g.49579013C>T	ENSP00000439020:p.Ser379Asn	Somatic		WXS	Illumina GAIIx	Phase_I	A8K0B8|G3V1U9|P04687|P05209	Missense_Mutation	SNP	ENST00000295766.5	37	CCDS58227.1	.	.	.	.	.	.	.	.	.	.	C	12.96	2.095811	0.36952	.	.	ENSG00000167552	ENST00000301071;ENST00000552597;ENST00000548405;ENST00000295766;ENST00000550767	D;D;D	0.82803	-1.65;-1.65;-1.65	5.47	5.47	0.80525	Tubulin/FtsZ, 2-layer sandwich domain (3);Tubulin/FtsZ, C-terminal (1);	0.000000	0.85682	D	0.000000	D	0.90397	0.6994	H	0.96269	3.795	0.80722	D	1	B	0.12630	0.006	B	0.31016	0.123	D	0.89441	0.3723	10	0.87932	D	0	.	18.1914	0.89808	0.0:1.0:0.0:0.0	.	379	Q71U36	TBA1A_HUMAN	N	379;110;226;379;344	ENSP00000301071:S379N;ENSP00000439020:S379N;ENSP00000446637:S344N	ENSP00000439020:S379N	S	-	2	0	TUBA1A	47865280	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.320000	0.79064	2.577000	0.86979	0.650000	0.86243	AGC		0.582	TUBA1A-002	PUTATIVE	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000404547.2	NM_006009		T	49579013	C	T	49579013	3	4	581	1	0	0	0	0	1	0	0	0	16755	797	28	2	223	2	TUBA1A	12	49579013	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08	38158513	49579013	84272882	44	34511										
ESPL1	9700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	53685545	53685545	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	gcctacgggctgtgcccaacCcagccagagcgagcccagga	13	16	0	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr12:53685545C>G	ENST00000257934.4	+	26	5683	c.5592C>G	c.(5590-5592)acC>acG	p.T1864T	ESPL1_ENST00000552462.1_Silent_p.T1864T	NM_012291.4	NP_036423.4	Q14674	ESPL1_HUMAN	extra spindle pole bodies homolog 1 (S. cerevisiae)	1864					apoptotic process (GO:0006915)|cytokinesis (GO:0000910)|establishment of mitotic spindle localization (GO:0040001)|homologous chromosome segregation (GO:0045143)|meiotic spindle organization (GO:0000212)|mitotic cell cycle (GO:0000278)|mitotic sister chromatid segregation (GO:0000070)|negative regulation of sister chromatid cohesion (GO:0045875)|positive regulation of mitotic metaphase/anaphase transition (GO:0045842)	centrosome (GO:0005813)|cytosol (GO:0005829)|nucleus (GO:0005634)	catalytic activity (GO:0003824)|cysteine-type peptidase activity (GO:0008234)	p.T1864T(1)		breast(1)|central_nervous_system(1)|endometrium(7)|kidney(10)|large_intestine(12)|lung(21)|ovary(2)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(8)	70						TGTGCCCAACCCAGCCAGAGC	0.602																																					Colon(53;1069 1201 2587 5382)											1	Substitution - coding silent(1)	kidney(1)											134	130	131					12																	53685545		2203	4300	6503	SO:0001819	synonymous_variant	9700			D79987	CCDS8852.1	12q13.13	2014-08-04	2013-05-03		ENSG00000135476	ENSG00000135476	3.4.22.49		16856	protein-coding gene	gene with protein product	"separin", "separase", "separin, cysteine protease"	604143	"extra spindle poles like 1 (S. cerevisiae)"			8724849, 16258266	Standard	NM_012291		Approved	KIAA0165, ESP1, SEPA	uc001sck.2	Q14674	OTTHUMG00000169674	ENST00000257934.4:c.5592C>G	12.37:g.53685545C>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000257934.4	37	CCDS8852.1																																																																																				0.602	ESPL1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406899.2	NM_012291		G	53685545	C	G	53685545	2	3	581	1	0	0	0	0	0	0	0	1	5255	610	22	4		4	ESPL1	12	53685545	Silent	SNP	C	TCGA-EU-5906-01A-11D-1669-08	4106532	53685545	80166350	45	34512										
GPR109A	338442	broad.mit.edu;hgsc.bcm.edu	37	chr12	123187634	123187635	+	Nonsense_Mutation	DNP	AG	AG	TA													0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	cagccactgccaggttgaacAggaaaatccggctggatttc							TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A|G	A|G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr12:123187634_123187635AG>TA	ENST00000328880.5	-	1	255_256	c.196_197CT>TA	c.(196-198)CTg>TAg	p.L66*	HCAR1_ENST00000356987.2_Intron|RP11-324E6.6_ENST00000543611.1_lincRNA	NM_177551.3	NP_808219.1	Q8TDS4	HCAR2_HUMAN	hydroxycarboxylic acid receptor 2	66					negative regulation of lipid catabolic process (GO:0050995)|neutrophil apoptotic process (GO:0001781)|positive regulation of adiponectin secretion (GO:0070165)|positive regulation of neutrophil apoptotic process (GO:0033031)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	nicotinic acid receptor activity (GO:0070553)	p.L66Q(1)|p.L66*(1)|p.L66L(1)		breast(1)|central_nervous_system(1)|endometrium(1)|kidney(5)|large_intestine(2)|lung(2)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	15					Niacin(DB00627)	CAGGTTGAACAGGAAAATCCGG	0.53																																																3	Substitution - Missense(1)|Substitution - Nonsense(1)|Substitution - coding silent(1)	kidney(3)																																								SO:0001587	stop_gained	0			AY148884	CCDS9235.1	12q24.31	2012-08-08	2011-05-30	2011-05-30	ENSG00000182782	ENSG00000182782		"GPCR / Class A : Hydroxy-carboxylic acid receptors"	24827	protein-coding gene	gene with protein product	"niacin receptor 1"	609163	"G protein-coupled receptor 109A"	GPR109A		21167710, 12522134, 12646212, 19141678, 18983141, 21454438	Standard	NM_177551		Approved	HCA2, HM74A, PUMAG, Puma-g, NIACR1	uc001ucx.1	Q8TDS4	OTTHUMG00000162722	ENST00000328880.5:c.196_197delinsTA	12.37:g.123187634_123187635delinsTA	ENSP00000375066:p.Leu66*	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJL5|A7LGG3	Missense_Mutation|Silent	SNP	ENST00000328880.5	37	CCDS9235.1																																																																																				0.53	HCAR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370202.1	NM_177551		TA	123187635	AG	TA	123187634	4	4	581	1	0	0	0	0	0	1	0	0	6632	188	7	5	898	5	GPR109A	12	123187634	Nonsense_Mutation	DNP	AG	TCGA-EU-5906-01A-11D-1669-08	69502089	123187634	10664261	46	34513										
GOLGA3	2802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	133354283	133354283	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	ggcctcggcctgcagcttctGcaccaggtgttccttggcct	12	15	1	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr12:133354283G>T	ENST00000450791.2	-	18	3874	c.3691C>A	c.(3691-3693)Cag>Aag	p.Q1231K	GOLGA3_ENST00000456883.2_Missense_Mutation_p.Q1231K|GOLGA3_ENST00000204726.3_Missense_Mutation_p.Q1231K			Q08378	GOGA3_HUMAN	golgin A3	1231	Gln-rich.				intra-Golgi vesicle-mediated transport (GO:0006891)	cytosol (GO:0005829)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extrinsic component of Golgi membrane (GO:0090498)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi transport complex (GO:0017119)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	transporter activity (GO:0005215)	p.Q1231K(1)		breast(1)|central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(4)|lung(33)|ovary(3)|pancreas(1)|prostate(4)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	64	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		TGCAGCTTCTGCACCAGGTGT	0.632																																																1	Substitution - Missense(1)	kidney(1)											68	60	62					12																	133354283		2203	4300	6503	SO:0001583	missense	2802			AF485338	CCDS9281.1, CCDS53846.1	12q24.33	2010-02-12	2010-02-12		ENSG00000090615	ENSG00000090615			4426	protein-coding gene	gene with protein product	"SY2/SY10 protein", "Golgi complex-associated protein of 170 kD"	602581	"golgi autoantigen, golgin subfamily a, 3"			8315394, 15829563	Standard	NM_001172557		Approved	golgin-160, GCP170, MEA-2	uc001ukz.1	Q08378	OTTHUMG00000168023	ENST00000450791.2:c.3691C>A	12.37:g.133354283G>T	ENSP00000410378:p.Gln1231Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKX6|O43241|Q6P9C7|Q86XW3|Q8TDA9|Q8WZA3	Missense_Mutation	SNP	ENST00000450791.2	37	CCDS9281.1	.	.	.	.	.	.	.	.	.	.	G	16.25	3.069669	0.55539	.	.	ENSG00000090615	ENST00000204726;ENST00000450791;ENST00000456883	T;T;T	0.78364	-1.17;-1.17;1.97	5.59	5.59	0.84812	.	0.216583	0.48286	D	0.000194	T	0.70228	0.3200	L	0.47716	1.5	0.80722	D	1	P;B	0.37207	0.587;0.052	B;B	0.32465	0.146;0.011	T	0.68157	-0.5483	10	0.10377	T	0.69	.	19.577	0.95449	0.0:0.0:1.0:0.0	.	1231;1231	Q08378-2;Q08378	.;GOGA3_HUMAN	K	1231	ENSP00000204726:Q1231K;ENSP00000410378:Q1231K;ENSP00000409303:Q1231K	ENSP00000204726:Q1231K	Q	-	1	0	GOLGA3	131864356	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	5.660000	0.68018	2.631000	0.89168	0.561000	0.74099	CAG		0.632	GOLGA3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000397569.2	NM_005895		T	133354283	G	T	133354283	3	4	581	1	0	0	0	0	1	0	0	0	6561	1328	46	4	829	4	GOLGA3	12	133354283	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	10166649	133354283	497612	47	34514										
NFATC4	4776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24839730	24839730	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	ggaaggaggtggctggcatgGactacctggcagtgccctcc	16	11	0	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr14:24839730G>A	ENST00000250373.4	+	2	1267	c.1126G>A	c.(1126-1128)Gac>Aac	p.D376N	NFATC4_ENST00000555453.1_Missense_Mutation_p.D364N|NFATC4_ENST00000422617.3_Missense_Mutation_p.D364N|NFATC4_ENST00000555167.1_5'Flank|NFATC4_ENST00000424781.2_Missense_Mutation_p.D389N|NFATC4_ENST00000556169.1_Missense_Mutation_p.D364N|NFATC4_ENST00000554966.1_Missense_Mutation_p.D389N|NFATC4_ENST00000553879.1_Missense_Mutation_p.D306N|NFATC4_ENST00000554591.1_Missense_Mutation_p.D439N|NFATC4_ENST00000440487.2_3'UTR|NFATC4_ENST00000539237.2_Missense_Mutation_p.D408N|NFATC4_ENST00000413692.2_Missense_Mutation_p.D439N|NFATC4_ENST00000553469.1_Missense_Mutation_p.D408N|NFATC4_ENST00000556279.1_Missense_Mutation_p.D408N|NFATC4_ENST00000556759.1_5'Flank|NFATC4_ENST00000554473.1_5'Flank|NFATC4_ENST00000554050.1_Missense_Mutation_p.D376N|NFATC4_ENST00000554344.1_Missense_Mutation_p.D306N|NFATC4_ENST00000553708.1_Missense_Mutation_p.D376N|NFATC4_ENST00000557451.1_Missense_Mutation_p.D306N|NFATC4_ENST00000555590.1_Missense_Mutation_p.D389N|NFATC4_ENST00000554661.1_Missense_Mutation_p.D306N	NM_004554.4	NP_004545.2	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 4	376					cellular respiration (GO:0045333)|cellular response to lithium ion (GO:0071285)|cellular response to UV (GO:0034644)|heart development (GO:0007507)|inflammatory response (GO:0006954)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|muscle cell development (GO:0055001)|patterning of blood vessels (GO:0001569)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor production (GO:0032760)|regulation of synaptic plasticity (GO:0048167)|smooth muscle cell differentiation (GO:0051145)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intermediate filament cytoskeleton (GO:0045111)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|transcription coactivator activity (GO:0003713)	p.D439N(1)|p.D376N(1)		breast(2)|central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(7)|liver(4)|lung(12)|ovary(1)|skin(2)	34				GBM - Glioblastoma multiforme(265;0.018)		GGCTGGCATGGACTACCTGGC	0.637																																																2	Substitution - Missense(2)	kidney(2)											49	44	46					14																	24839730		2203	4300	6503	SO:0001583	missense	4776			BC053855	CCDS9629.1, CCDS45089.1, CCDS55909.1, CCDS55910.1, CCDS55911.1, CCDS73625.1	14q11.2	2009-11-24			ENSG00000100968	ENSG00000100968		"Nuclear factor of activated T-cells"	7778	protein-coding gene	gene with protein product		602699				7749981	Standard	NM_004554		Approved	NFAT3	uc010tok.2	Q14934	OTTHUMG00000029351	ENST00000250373.4:c.1126G>A	14.37:g.24839730G>A	ENSP00000250373:p.Asp376Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B4DDG5|B4DY55|B5B2U7|B5B2U8|B5B2U9|B5B2V0|B5B2V1|B5B2V2|B5B2V3|B5B2V4|B5B2V5|B5B2V7|B5B2V8|B5B2V9|B5B2W0|B5B2W1|B5B2W2|B5B2W3|B5B2W4|B5B2W5|B5B2W6|B5B2W7|B5B2W8|B5B2W9|B5B2X0|Q7Z598|Q96H68	Missense_Mutation	SNP	ENST00000250373.4	37	CCDS9629.1	.	.	.	.	.	.	.	.	.	.	G	21.6	4.176454	0.78564	.	.	ENSG00000100968	ENST00000413692;ENST00000554591;ENST00000555590;ENST00000554966;ENST00000424781;ENST00000539237;ENST00000556279;ENST00000553469;ENST00000554050;ENST00000250373;ENST00000553708;ENST00000553879;ENST00000554344;ENST00000554661;ENST00000556169;ENST00000557451;ENST00000422617;ENST00000555453	T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.10382	3.21;3.23;3.21;3.24;3.22;3.21;3.2;3.23;3.24;3.21;3.22;2.89;2.89;2.92;2.91;2.9;2.89;2.88	4.58	4.58	0.56647	.	0.065273	0.64402	D	0.000014	T	0.21307	0.0513	L	0.40543	1.245	0.80722	D	1	D;D;D;D;D;D;D;D;D;D;D;D;D;P	0.69078	0.969;0.969;0.97;0.988;0.97;0.97;0.969;0.988;0.988;0.969;0.97;0.997;0.97;0.949	P;P;P;P;P;P;P;P;P;P;P;P;P;P	0.61201	0.785;0.785;0.839;0.844;0.839;0.885;0.785;0.844;0.844;0.785;0.885;0.879;0.839;0.694	T	0.00386	-1.1772	10	0.44086	T	0.13	-11.3754	15.2442	0.73493	0.0:0.0:1.0:0.0	.	364;364;408;408;389;389;389;439;439;364;408;353;439;376	Q14934-17;Q14934-9;Q14934-14;Q14934-4;Q14934-15;Q14934-6;Q14934-7;Q14934-2;Q14934-3;Q14934-10;Q14934-5;B4DU09;Q14934-11;Q14934	.;.;.;.;.;.;.;.;.;.;.;.;.;NFAC4_HUMAN	N	439;439;389;389;389;408;408;408;376;376;376;306;306;306;364;306;364;364	ENSP00000388910:D439N;ENSP00000452039:D439N;ENSP00000451224:D389N;ENSP00000450644:D389N;ENSP00000388668:D389N;ENSP00000439350:D408N;ENSP00000452270:D408N;ENSP00000451502:D408N;ENSP00000451151:D376N;ENSP00000250373:D376N;ENSP00000450590:D376N;ENSP00000452349:D306N;ENSP00000450469:D306N;ENSP00000450733:D306N;ENSP00000451454:D364N;ENSP00000451284:D306N;ENSP00000396788:D364N;ENSP00000450686:D364N	ENSP00000250373:D376N	D	+	1	0	NFATC4	23909570	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	2.877000	0.48506	2.531000	0.85337	0.591000	0.81541	GAC		0.637	NFATC4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000073206.6	NM_004554		A	24839730	G	A	24839730	3	1	581	1	0	0	0	0	1	0	0	0	10372	1174	41	2	1325	2	NFATC4	14	24839730	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08		24839730	82509810	48	34515										
FANCM	57697	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	45639810	45639810	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	aggaatgaggcaaagtagccTaaagaaagattggttcttat	11	4	1	3			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr14:45639810T>C	ENST00000267430.5	+	12	2106	c.2021T>C	c.(2020-2022)cTa>cCa	p.L674P	FANCM_ENST00000542564.2_Missense_Mutation_p.L648P	NM_020937.2	NP_065988.1	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	674					DNA repair (GO:0006281)|replication fork processing (GO:0031297)|resolution of meiotic recombination intermediates (GO:0000712)	FANCM-MHF complex (GO:0071821)|Fanconi anaemia nuclear complex (GO:0043240)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|nuclease activity (GO:0004518)	p.L674P(1)		breast(4)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(18)|liver(2)|lung(31)|ovary(4)|prostate(2)|skin(1)|upper_aerodigestive_tract(6)|urinary_tract(1)	85						CAAAGTAGCCTAAAGAAAGAT	0.303								Involved in tolerance or repair of DNA crosslinks	Fanconi Anemia																																							1	Substitution - Missense(1)	kidney(1)											44	48	46					14																	45639810		2201	4297	6498	SO:0001583	missense	57697	Familial Cancer Database	Pancytopenia Dysmelia, FA (several complementation groups)	AK001672	CCDS32070.1	14q21.3	2014-09-17	2005-09-01	2005-09-01		ENSG00000187790		"Fanconi anemia, complementation groups"	23168	protein-coding gene	gene with protein product		609644	"KIAA1596"	KIAA1596		10997877, 16116422	Standard	NM_020937		Approved	FAAP250	uc001wwd.4	Q8IYD8		ENST00000267430.5:c.2021T>C	14.37:g.45639810T>C	ENSP00000267430:p.Leu674Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTQ9|Q3YFH9|Q8N9X6|Q9HCH6	Missense_Mutation	SNP	ENST00000267430.5	37	CCDS32070.1	.	.	.	.	.	.	.	.	.	.	T	2.273	-0.366436	0.05069	.	.	ENSG00000187790	ENST00000267430;ENST00000542564;ENST00000556250	T;T;T	0.18657	2.78;2.78;2.2	5.35	1.44	0.22558	.	2.644850	0.00763	N	0.001158	T	0.18635	0.0447	L	0.43152	1.355	0.42913	D	0.994264	P;B	0.36086	0.536;0.403	B;B	0.28232	0.087;0.07	T	0.07927	-1.0747	10	0.33940	T	0.23	.	8.0501	0.30572	0.0:0.5768:0.0:0.4232	.	648;674	B2RTQ9;Q8IYD8	.;FANCM_HUMAN	P	674;648;190	ENSP00000267430:L674P;ENSP00000442493:L648P;ENSP00000452033:L190P	ENSP00000267430:L674P	L	+	2	0	FANCM	44709560	0.002000	0.14202	0.341000	0.25589	0.151000	0.21798	-0.041000	0.12084	0.219000	0.20840	-0.366000	0.07423	CTA		0.303	FANCM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410474.1	XM_048128		C	45639810	T	C	45639810	3	2	581	1	0	0	0	0	1	0	0	0	5678	1522	53	3	2067	3	FANCM	14	45639810	Missense_Mutation	SNP	T	TCGA-EU-5906-01A-11D-1669-08	20800080	45639810	61709730	49	34516										
ZFYVE1	53349	broad.mit.edu	37	chr14	73465019	73465019	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	taataaagtcttcttcatttGttacctgcaaaaaaaaaaaa	3	6	3	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr14:73465019G>T	ENST00000556143.1	-	3	1208	c.488C>A	c.(487-489)aCa>aAa	p.T163K	ZFYVE1_ENST00000318876.5_Missense_Mutation_p.T163K|ZFYVE1_ENST00000553891.1_Missense_Mutation_p.T163K	NM_001281735.1|NM_021260.2	NP_001268664.1|NP_067083.1	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1	163					negative regulation of phosphatase activity (GO:0010923)	autophagic vacuole (GO:0005776)|endoplasmic reticulum (GO:0005783)|ER-mitochondrion membrane contact site (GO:0044233)|Golgi stack (GO:0005795)|perinuclear region of cytoplasm (GO:0048471)|pre-autophagosomal structure (GO:0000407)	1-phosphatidylinositol binding (GO:0005545)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)|zinc ion binding (GO:0008270)	p.T163K(1)		breast(2)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(17)|ovary(1)|prostate(2)|skin(1)	35		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		TTCTTCATTTGTTACCTGCAA	0.353																																																1	Substitution - Missense(1)	kidney(1)											25	25	25					14																	73465019		2148	4171	6319	SO:0001583	missense	53349			AF251025	CCDS9811.1, CCDS41969.1, CCDS61498.1	14q24.2	2014-06-13	2003-02-28	2003-03-07		ENSG00000165861		"Zinc fingers, FYVE domain containing"	13180	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 172"	605471	"zinc finger protein, subfamily 2A (FYVE domain containing), 1"	ZNFN2A1		11024279, 11256955	Standard	NM_021260		Approved	DFCP1, KIAA1589, TAFF1, PPP1R172	uc001xnm.3	Q9HBF4		ENST00000556143.1:c.488C>A	14.37:g.73465019G>T	ENSP00000450742:p.Thr163Lys	Somatic		WXS	Illumina GAIIx	Phase_I	J3KNL9|Q8WYX7|Q96K57|Q9BXP9|Q9HCI3	Missense_Mutation	SNP	ENST00000556143.1	37	CCDS9811.1	.	.	.	.	.	.	.	.	.	.	G	1.558	-0.537361	0.04082	.	.	ENSG00000165861	ENST00000553891;ENST00000318876;ENST00000556143	T;T;T	0.61274	0.12;0.12;0.12	5.42	3.31	0.37934	.	0.223482	0.45606	D	0.000354	T	0.13628	0.0330	N	0.00246	-1.78	0.80722	D	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.46331	-0.9199	10	0.02654	T	1	-6.3589	2.617	0.04907	0.095:0.1517:0.3898:0.3636	.	163;163	G3V5N8;Q9HBF4	.;ZFYV1_HUMAN	K	163	ENSP00000452442:T163K;ENSP00000326921:T163K;ENSP00000450742:T163K	ENSP00000326921:T163K	T	-	2	0	ZFYVE1	72534772	0.951000	0.32395	0.993000	0.49108	0.907000	0.53573	1.675000	0.37555	2.545000	0.85829	0.591000	0.81541	ACA		0.353	ZFYVE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413172.1	NM_021260		T	73465019	G	T	73465019	3	4	581	1	0	0	0	0	1	0	0	0	17675	1377	48	4	1885	4	ZFYVE1	14	73465019	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	27825209	73465019	33884521	50	34517										
PSMC1	5700	broad.mit.edu;hgsc.bcm.edu	37	chr14	90730154	90730154	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	ttcatttgtagacaaggatcTgctggaacctggctgctcgg	12	9	2	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr14:90730154T>A	ENST00000261303.8	+	5	531	c.428T>A	c.(427-429)cTg>cAg	p.L143Q	PSMC1_ENST00000543772.2_Missense_Mutation_p.L70Q	NM_002802.2	NP_002793.2	P62191	PRS4_HUMAN	proteasome (prosome, macropain) 26S subunit, ATPase, 1	143					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|ATP catabolic process (GO:0006200)|cellular nitrogen compound metabolic process (GO:0034641)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|negative regulation of apoptotic process (GO:0043066)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|proteasome accessory complex (GO:0022624)|proteasome complex (GO:0000502)|proteasome regulatory particle (GO:0005838)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|poly(A) RNA binding (GO:0044822)	p.L143Q(1)		endometrium(2)|kidney(2)|upper_aerodigestive_tract(2)	6		all_cancers(154;0.142)		COAD - Colon adenocarcinoma(157;0.21)		GACAAGGATCTGCTGGAACCT	0.473																																																1	Substitution - Missense(1)	kidney(1)											46	47	47					14																	90730154		2203	4299	6502	SO:0001583	missense	5700			L02426	CCDS32139.1	14q32.11	2010-04-21			ENSG00000100764	ENSG00000100764		"Proteasome (prosome, macropain) subunits", "ATPases / AAA-type"	9547	protein-coding gene	gene with protein product		602706				9473509	Standard	NM_002802		Approved	S4, p56	uc001xyf.3	P62191		ENST00000261303.8:c.428T>A	14.37:g.90730154T>A	ENSP00000261303:p.Leu143Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DR63|P49014|Q03527|Q6IAW0|Q6NW36|Q96AZ3	Missense_Mutation	SNP	ENST00000261303.8	37	CCDS32139.1	.	.	.	.	.	.	.	.	.	.	T	15.87	2.959601	0.53400	.	.	ENSG00000100764	ENST00000261303;ENST00000543772	D;D	0.94376	-3.41;-3.39	5.49	5.49	0.81192	.	0.000000	0.85682	D	0.000000	D	0.86368	0.5916	N	0.12831	0.26	0.80722	D	1	B	0.06786	0.001	B	0.06405	0.002	T	0.81747	-0.0791	10	0.23891	T	0.37	-6.5197	15.8844	0.79232	0.0:0.0:0.0:1.0	.	143	P62191	PRS4_HUMAN	Q	143;70	ENSP00000261303:L143Q;ENSP00000445147:L70Q	ENSP00000261303:L143Q	L	+	2	0	PSMC1	89799907	1.000000	0.71417	0.999000	0.59377	0.959000	0.62525	7.851000	0.86920	2.218000	0.71995	0.533000	0.62120	CTG		0.473	PSMC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411253.1	NM_002802		A	90730154	T	A	90730154	3	1	581	1	0	0	0	0	1	0	0	0	12695	1580	55	5	446	5	PSMC1	14	90730154	Missense_Mutation	SNP	T	TCGA-EU-5906-01A-11D-1669-08	17265135	90730154	16619386	51	34518										
DDX24	57062	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	94528593	94528593	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	ctgttttagatttccagtctGctctttatcaagattttcct	5	9	3	2			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr14:94528593G>A	ENST00000330836.5	-	3	1224	c.1093C>T	c.(1093-1095)Cag>Tag	p.Q365*	DDX24_ENST00000544005.1_Nonsense_Mutation_p.Q115*|DDX24_ENST00000555054.1_Nonsense_Mutation_p.Q322*	NM_020414.3	NP_065147.1	Q9GZR7	DDX24_HUMAN	DEAD (Asp-Glu-Ala-Asp) box helicase 24	365	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				RNA metabolic process (GO:0016070)	membrane (GO:0016020)|nucleolus (GO:0005730)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|poly(A) RNA binding (GO:0044822)|RNA helicase activity (GO:0003724)	p.Q365*(1)		cervix(3)|endometrium(4)|kidney(4)|large_intestine(5)|lung(3)|ovary(2)|skin(1)|urinary_tract(1)	23		all_cancers(154;0.12)		Epithelial(152;0.114)|all cancers(159;0.19)|COAD - Colon adenocarcinoma(157;0.207)		TTTCCAGTCTGCTCTTTATCA	0.478																																																1	Substitution - Nonsense(1)	kidney(1)											161	146	151					14																	94528593		2203	4300	6503	SO:0001587	stop_gained	57062			AF214731	CCDS9918.1	14q32	2013-07-16	2013-07-16			ENSG00000089737		"DEAD-boxes"	13266	protein-coding gene	gene with protein product		606181	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 24", "DEAD (Asp-Glu-Ala-Asp) box polypeptide 24"			10936056, 18289627	Standard	NM_020414		Approved		uc001ycj.3	Q9GZR7		ENST00000330836.5:c.1093C>T	14.37:g.94528593G>A	ENSP00000328690:p.Gln365*	Somatic		WXS	Illumina HiSeq	Phase_I	E7EMJ4|Q4V9L5	Nonsense_Mutation	SNP	ENST00000330836.5	37	CCDS9918.1	.	.	.	.	.	.	.	.	.	.	G	17.81	3.480650	0.63849	.	.	ENSG00000089737	ENST00000330836;ENST00000544005;ENST00000440370;ENST00000555054;ENST00000542247	.	.	.	5.49	3.54	0.40534	.	0.872025	0.10487	N	0.668805	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.33940	T	0.23	-21.2915	11.0127	0.47671	0.0:0.3444:0.5423:0.1132	.	.	.	.	X	365;115;310;322;322	.	ENSP00000328690:Q365X	Q	-	1	0	DDX24	93598346	0.006000	0.16342	0.019000	0.16419	0.026000	0.11368	0.343000	0.19944	1.433000	0.47394	0.655000	0.94253	CAG		0.478	DDX24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412861.1	NM_020414		A	94528593	G	A	94528593	4	1	581	1	0	0	0	0	0	1	0	0	4353	1328	46	2	1514	2	DDX24	14	94528593	Nonsense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	3798439	94528593	12820947	52	34519										
LYSMD4	145748	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	100269896	100269896	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	atttcaaagcatataagtctTgttctctgatgaagttgttg	8	5	3	2			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr15:100269896T>G	ENST00000409796.1	-	3	385	c.323A>C	c.(322-324)cAa>cCa	p.Q108P	LYSMD4_ENST00000545021.1_5'UTR|LYSMD4_ENST00000604213.1_Intron|LYSMD4_ENST00000344791.2_Missense_Mutation_p.Q109P|LYSMD4_ENST00000332728.4_Missense_Mutation_p.Q108P	NM_001284417.1|NM_001284418.1|NM_001284420.1	NP_001271346.1|NP_001271347.1|NP_001271349.1	Q5XG99	LYSM4_HUMAN	LysM, putative peptidoglycan-binding, domain containing 4	108						integral component of membrane (GO:0016021)		p.Q109P(1)		breast(1)|cervix(1)|kidney(2)|large_intestine(2)|lung(3)|stomach(1)	10	Lung NSC(78;0.00335)|all_lung(78;0.00659)|Melanoma(26;0.00778)|Medulloblastoma(229;0.163)		OV - Ovarian serous cystadenocarcinoma(32;0.00162)|LUSC - Lung squamous cell carcinoma(107;0.17)|Lung(145;0.208)			ATATAAGTCTTGTTCTCTGAT	0.403																																																1	Substitution - Missense(1)	kidney(1)											58	57	57					15																	100269896		2203	4300	6503	SO:0001583	missense	145748			BC041097	CCDS10381.1, CCDS66876.1, CCDS66877.1, CCDS73788.1	15q26.3	2005-10-24			ENSG00000183060	ENSG00000183060			26571	protein-coding gene	gene with protein product						12477932	Standard	NM_001284418		Approved	FLJ33008	uc002bvl.3	Q5XG99	OTTHUMG00000149853	ENST00000409796.1:c.323A>C	15.37:g.100269896T>G	ENSP00000386283:p.Gln108Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NII6|A8K2N1|Q96LY7	Missense_Mutation	SNP	ENST00000409796.1	37		.	.	.	.	.	.	.	.	.	.	T	21.5	4.153466	0.78114	.	.	ENSG00000183060	ENST00000409796;ENST00000344791;ENST00000332728;ENST00000450512	T;T;T;T	0.36520	1.25;1.25;1.25;1.25	4.73	4.73	0.59995	Peptidoglycan-binding Lysin subgroup (1);	0.000000	0.85682	D	0.000000	T	0.63663	0.2530	M	0.86178	2.8	0.80722	D	1	D;D	0.89917	0.999;1.0	D;D	0.91635	0.991;0.999	T	0.69803	-0.5046	10	0.56958	D	0.05	-0.5176	14.5161	0.67821	0.0:0.0:0.0:1.0	.	109;108	Q5XG99-2;Q5XG99	.;LYSM4_HUMAN	P	108;109;108;104	ENSP00000386283:Q108P;ENSP00000342840:Q109P;ENSP00000333008:Q108P;ENSP00000400054:Q104P	ENSP00000333008:Q108P	Q	-	2	0	LYSMD4	98087419	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	7.638000	0.83328	1.884000	0.54569	0.533000	0.62120	CAA		0.403	LYSMD4-005	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000335634.1	NM_152449		G	100269896	T	G	100269896	3	3	581	1	0	0	0	0	1	0	0	0	9134	1812	63	5	571	5	LYSMD4	15	100269896	Missense_Mutation	SNP	T	TCGA-EU-5906-01A-11D-1669-08		100269896	2261496	53	34520										
TOP3A	7156	broad.mit.edu	37	chr17	18196163	18196163	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	tctgttcggggatagctgatGtacctaaaaccaaggcaaac	10	9	1	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr17:18196163G>A	ENST00000321105.5	-	11	1291	c.1077C>T	c.(1075-1077)taC>taT	p.Y359Y	TOP3A_ENST00000542570.1_Silent_p.Y264Y|TOP3A_ENST00000540524.1_Intron	NM_004618.3	NP_004609.1	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	359					DNA topological change (GO:0006265)|meiotic nuclear division (GO:0007126)	chromosome (GO:0005694)|nucleus (GO:0005634)|PML body (GO:0016605)	DNA binding (GO:0003677)|DNA topoisomerase type I activity (GO:0003917)|zinc ion binding (GO:0008270)	p.Y359Y(1)		breast(1)|endometrium(2)|kidney(1)|large_intestine(7)|lung(15)|ovary(1)|skin(6)|stomach(2)|urinary_tract(1)	36						GATAGCTGATGTACCTAAAAC	0.458																																																1	Substitution - coding silent(1)	kidney(1)											89	84	86					17																	18196163		2203	4300	6503	SO:0001819	synonymous_variant	7156			U43431	CCDS11194.1	17p12-p11.2	2014-02-18			ENSG00000177302	ENSG00000177302			11992	protein-coding gene	gene with protein product	"zinc finger, GRF-type containing 7"	601243		TOP3		9450867	Standard	NM_004618		Approved	ZGRF7	uc002gsx.1	Q13472	OTTHUMG00000059391	ENST00000321105.5:c.1077C>T	17.37:g.18196163G>A		Somatic		WXS	Illumina GAIIx	Phase_I	A8KA61|B4DK80|D3DXC7|Q13473	Silent	SNP	ENST00000321105.5	37	CCDS11194.1	.	.	.	.	.	.	.	.	.	.	G	7.388	0.630198	0.14257	.	.	ENSG00000177302	ENST00000412083	.	.	.	5.42	1.75	0.24633	.	.	.	.	.	T	0.59729	0.2215	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.55848	-0.8076	4	.	.	.	-21.4864	11.0381	0.47814	0.3491:0.0:0.6509:0.0	.	.	.	.	Y	339	.	.	H	-	1	0	TOP3A	18136888	0.995000	0.38212	1.000000	0.80357	0.979000	0.70002	0.256000	0.18351	0.612000	0.30071	0.563000	0.77884	CAT		0.458	TOP3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132052.2			A	18196163	G	A	18196163	2	1	581	1	0	0	0	0	0	0	0	1	16379	1372	48	2		2	TOP3A	17	18196163	Silent	SNP	G	TCGA-EU-5906-01A-11D-1669-08		18196163	62999047	54	34521										
MYO18A	399687	broad.mit.edu;hgsc.bcm.edu	37	chr17	27493028	27493028	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	gctgagctcgctgagctctgGaatgggctgcaccttgagcc	14	12	1	3			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr17:27493028G>C	ENST00000527372.1	-	2	1111	c.931C>G	c.(931-933)Cca>Gca	p.P311A	MYO18A_ENST00000533112.1_Missense_Mutation_p.P311A|MYO18A_ENST00000531253.1_Missense_Mutation_p.P311A|MYO18A_ENST00000354329.4_Missense_Mutation_p.P311A	NM_078471.3	NP_510880.2	Q92614	MY18A_HUMAN	myosin XVIIIA	311	Mediates nucleotide-independent binding to F-actin and interaction with GOLPH3.|PDZ. {ECO:0000255|PROSITE- ProRule:PRU00143}.				actomyosin structure organization (GO:0031032)|cell migration (GO:0016477)|DNA metabolic process (GO:0006259)|Golgi organization (GO:0007030)|Golgi vesicle budding (GO:0048194)|negative regulation of apoptotic process (GO:0043066)|positive regulation of protein secretion (GO:0050714)	actomyosin (GO:0042641)|Golgi membrane (GO:0000139)|membrane (GO:0016020)|myosin complex (GO:0016459)|trans-Golgi network (GO:0005802)	actin filament binding (GO:0051015)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|DNA binding (GO:0003677)|motor activity (GO:0003774)|poly(A) RNA binding (GO:0044822)	p.P311A(2)		NS(1)|cervix(1)|endometrium(6)|kidney(6)|lung(20)|urinary_tract(2)	36			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			CTGAGCTCTGGAATGGGCTGC	0.617																																					Esophageal Squamous(182;472 2015 7001 15270 22562)											2	Substitution - Missense(2)	kidney(2)											58	66	63					17																	27493028		2198	4294	6492	SO:0001583	missense	399687			D86970	CCDS45641.1, CCDS45642.1	17q11.2	2011-09-27			ENSG00000196535	ENSG00000196535		"Myosins / Myosin superfamily : Class XVIII"	31104	protein-coding gene	gene with protein product		610067				12761286	Standard	NM_078471		Approved	KIAA0216, MysPDZ	uc002hdt.1	Q92614	OTTHUMG00000166360	ENST00000527372.1:c.931C>G	17.37:g.27493028G>C	ENSP00000437073:p.Pro311Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5H9U3|Q5W9F9|Q5W9G1|Q8IXP8	Missense_Mutation	SNP	ENST00000527372.1	37	CCDS45642.1	.	.	.	.	.	.	.	.	.	.	G	0.610	-0.825273	0.02755	.	.	ENSG00000196535	ENST00000354329;ENST00000359450;ENST00000533112;ENST00000531253;ENST00000527372	D;D;D;D	0.87491	-2.15;-2.26;-2.15;-2.15	5.31	5.31	0.75309	PDZ/DHR/GLGF (3);	0.069122	0.64402	D	0.000006	T	0.80660	0.4665	L	0.58669	1.825	0.42665	D	0.993492	B;B;B	0.30406	0.228;0.228;0.278	B;B;B	0.27796	0.083;0.083;0.057	T	0.72795	-0.4185	10	0.06236	T	0.91	.	9.9125	0.41415	0.0733:0.0:0.7862:0.1405	.	311;311;311	Q92614-3;Q92614-4;Q92614	.;.;MY18A_HUMAN	A	311	ENSP00000346291:P311A;ENSP00000435932:P311A;ENSP00000434228:P311A;ENSP00000437073:P311A	ENSP00000346291:P311A	P	-	1	0	MYO18A	24517154	1.000000	0.71417	0.998000	0.56505	0.568000	0.35870	4.263000	0.58853	2.755000	0.94549	0.563000	0.77884	CCA		0.617	MYO18A-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000389396.1	NM_078471		C	27493028	G	C	27493028	3	2	581	1	0	0	0	0	1	0	0	0	10072	1174	41	4	5397	4	MYO18A	17	27493028	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	9296865	27493028	53702182	55	34522										
ZGLP1	100125288	broad.mit.edu	37	chr19	10419249	10419249	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	ggggagaagggcagtggggtCacgttttcttgggtgactcc	18	7	2	2			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr19:10419249C>T	ENST00000403903.3	-	1	1307	c.109G>A	c.(109-111)Gac>Aac	p.D37N	FDX1L_ENST00000541276.1_Intron|CTD-2369P2.10_ENST00000452032.2_Intron|ZGLP1_ENST00000403352.1_Intron|FDX1L_ENST00000492239.1_5'Flank	NM_001103167.1	NP_001096637.1	P0C6A0	ZGLP1_HUMAN	zinc finger, GATA-like protein 1	37					multicellular organismal development (GO:0007275)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|oocyte development (GO:0048599)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)	p.D37N(2)		endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(2)|ovary(1)	6						GCAGTGGGGTCACGTTTTCTT	0.622																																																2	Substitution - Missense(2)	kidney(2)											42	49	47					19																	10419249		1988	4148	6136	SO:0001583	missense	100125288			AK096830	CCDS45959.1	19p13.2	2013-01-25			ENSG00000220201	ENSG00000220201		"GATA zinc finger domain containing"	37245	protein-coding gene	gene with protein product	"GATA like protein 1", "GATA zinc finger domain containing 3"	611639				16982049	Standard	NM_001103167		Approved	GLP1, GLP-1, GATAD3	uc002mnw.4	P0C6A0	OTTHUMG00000152114	ENST00000403903.3:c.109G>A	19.37:g.10419249C>T	ENSP00000384434:p.Asp37Asn	Somatic		WXS	Illumina GAIIx	Phase_I		Missense_Mutation	SNP	ENST00000403903.3	37	CCDS45959.1	.	.	.	.	.	.	.	.	.	.	C	13.70	2.315893	0.40996	.	.	ENSG00000220201	ENST00000403903	D	0.97976	-4.64	3.55	1.39	0.22231	.	.	.	.	.	D	0.91670	0.7367	N	0.14661	0.345	0.09310	N	1	B	0.21821	0.061	B	0.15484	0.013	D	0.84430	0.0576	9	0.22706	T	0.39	1.3362	5.2278	0.15404	0.0:0.7292:0.0:0.2708	.	37	P0C6A0	ZGLP1_HUMAN	N	37	ENSP00000384434:D37N	ENSP00000384434:D37N	D	-	1	0	ZGLP1	10280249	0.305000	0.24481	0.064000	0.19789	0.854000	0.48673	0.042000	0.13949	0.816000	0.34421	0.462000	0.41574	GAC		0.622	ZGLP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000325278.1	NM_001103167		T	10419249	C	T	10419249	3	4	581	1	0	0	0	0	1	0	0	0	17685	826	29	2	722	2	ZGLP1	19	10419249	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08		10419249	48709734	56	34523										
PODNL1	79883	broad.mit.edu	37	chr19	14043756	14043756	+	Frame_Shift_Del	DEL	A	A	-													0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	gctggttgcgttgcagctgcAgggtgcgcaggccagtgggc							TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr19:14043756delA	ENST00000339560.5	-	8	1574	c.1301delT	c.(1300-1302)ctgfs	p.L434fs	PODNL1_ENST00000538517.2_Frame_Shift_Del_p.L343fs|PODNL1_ENST00000538371.2_Frame_Shift_Del_p.L432fs|PODNL1_ENST00000254320.3_Frame_Shift_Del_p.L352fs	NM_024825.3	NP_079101.3	Q6PEZ8	PONL1_HUMAN	podocan-like 1	434	Leu-rich.					proteinaceous extracellular matrix (GO:0005578)				central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(2)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(19;5.26e-23)			TTGCAGCTGCAGGGTGCGCAG	0.716																																																0													7	8	8					19																	14043756		2150	4225	6375	SO:0001589	frameshift_variant	79883			AK027100	CCDS12300.1, CCDS54225.1, CCDS54226.1	19p13.12	2008-02-05							26275	protein-coding gene	gene with protein product						12477932	Standard	NM_024825		Approved	FLJ23447, SLRR5B	uc010xnj.2	Q6PEZ8		ENST00000339560.5:c.1301delT	19.37:g.14043756delA	ENSP00000345175:p.Leu434fs	Somatic		WXS	Illumina GAIIx	Phase_I	B7Z564|Q9H5G9	Frame_Shift_Del	DEL	ENST00000339560.5	37	CCDS12300.1																																																																																				0.716	PODNL1-003	KNOWN	overlapping_uORF|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000457967.1	NM_024825		-	14043756	A	-	14043756	7	5	581	1	0	1	0	1	0	0	0	0	12186	188	7	0	241	0	PODNL1	19	14043756	Frame_Shift_Del	DEL	A	TCGA-EU-5906-01A-11D-1669-08	3624507	14043756	45085227	57	34524										
MAP1S	55201	broad.mit.edu;hgsc.bcm.edu	37	chr19	17837059	17837059	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	ggaccgcgtggatgccgtgcTggtgacccaccctggcgccg	16	15	0	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr19:17837059T>C	ENST00000324096.4	+	5	1017	c.866T>C	c.(865-867)cTg>cCg	p.L289P	CTD-3149D2.4_ENST00000595363.1_RNA|MAP1S_ENST00000597681.1_Intron|MAP1S_ENST00000544059.2_Missense_Mutation_p.L263P	NM_018174.4	NP_060644.4	Q66K74	MAP1S_HUMAN	microtubule-associated protein 1S	289	Necessary for the microtubule-organizing center localization.				apoptotic DNA fragmentation (GO:0006309)|brain development (GO:0007420)|execution phase of apoptosis (GO:0097194)|microtubule bundle formation (GO:0001578)|mitochondrion transport along microtubule (GO:0047497)|nervous system development (GO:0007399)|neuron projection morphogenesis (GO:0048812)	cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|microtubule (GO:0005874)|neuronal cell body (GO:0043025)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|synapse (GO:0045202)	actin filament binding (GO:0051015)|beta-tubulin binding (GO:0048487)|DNA binding (GO:0003677)|microtubule binding (GO:0008017)|tubulin binding (GO:0015631)	p.L289P(1)		NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(5)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	25						GATGCCGTGCTGGTGACCCAC	0.672																																																1	Substitution - Missense(1)	kidney(1)											25	21	22					19																	17837059		2203	4297	6500	SO:0001583	missense	55201			BC067115	CCDS32954.1	19p13.12	2008-02-05	2006-07-04	2006-07-04		ENSG00000130479			15715	protein-coding gene	gene with protein product		607573	"chromosome 19 open reading frame 5", "VCY2 interacting protein 1", "BPY2 interacting protein 1"	C19orf5, VCY2IP1, BPY2IP1		11827465, 15528209, 16297881, 14627543	Standard	NM_018174		Approved	FLJ10669, MAP8	uc002nhe.1	Q66K74		ENST00000324096.4:c.866T>C	19.37:g.17837059T>C	ENSP00000325313:p.Leu289Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DH53|Q27QB1|Q6NXF1|Q8N3L8|Q8N3W5|Q8NI88|Q96H94|Q96IT4|Q96SP8|Q9BRC6|Q9H928|Q9NVK7	Missense_Mutation	SNP	ENST00000324096.4	37	CCDS32954.1	.	.	.	.	.	.	.	.	.	.	T	15.66	2.897846	0.52227	.	.	ENSG00000130479	ENST00000324096;ENST00000544059	T;T	0.29655	1.56;1.56	4.26	4.26	0.50523	.	0.000000	0.38217	N	0.001773	T	0.55433	0.1920	M	0.82056	2.57	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.999	T	0.61148	-0.7121	10	0.87932	D	0	-19.9764	11.312	0.49368	0.0:0.0:0.0:1.0	.	263;289;289	B4DH53;A8K940;Q66K74	.;.;MAP1S_HUMAN	P	289;263	ENSP00000325313:L289P;ENSP00000439243:L263P	ENSP00000325313:L289P	L	+	2	0	MAP1S	17698059	1.000000	0.71417	0.947000	0.38551	0.063000	0.16089	7.853000	0.86934	1.554000	0.49487	0.379000	0.24179	CTG		0.672	MAP1S-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466027.1	NM_018174		C	17837059	T	C	17837059	3	2	581	1	0	0	0	0	1	0	0	0	9241	1580	55	3	884	3	MAP1S	19	17837059	Missense_Mutation	SNP	T	TCGA-EU-5906-01A-11D-1669-08	3793303	17837059	41291924	58	34525										
ZNF808	388558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	53057358	53057358	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	ctagaattcatagtggagagAaaacatacaagtgtaatgag	10	4	1	3			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr19:53057358A>T	ENST00000359798.4	+	5	1369	c.1189A>T	c.(1189-1191)Aaa>Taa	p.K397*		NM_001039886.3	NP_001034975.2	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	397					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.K397*(1)		endometrium(8)|kidney(3)|lung(12)|urinary_tract(1)	24				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		TAGTGGAGAGAAAACATACAA	0.373																																																1	Substitution - Nonsense(1)	kidney(1)											94	101	98					19																	53057358		2197	4293	6490	SO:0001587	stop_gained	388558			CR749856	CCDS46167.1	19q13.41	2013-01-08			ENSG00000198482	ENSG00000198482		"Zinc fingers, C2H2-type", "-"	33230	protein-coding gene	gene with protein product							Standard	NM_001039886		Approved		uc010epq.1	Q8N4W9	OTTHUMG00000158230	ENST00000359798.4:c.1189A>T	19.37:g.53057358A>T	ENSP00000352846:p.Lys397*	Somatic		WXS	Illumina HiSeq	Phase_I	Q68CN7	Nonsense_Mutation	SNP	ENST00000359798.4	37	CCDS46167.1	.	.	.	.	.	.	.	.	.	.	.	25.1	4.607890	0.87258	.	.	ENSG00000198482	ENST00000359798	.	.	.	1.5	1.5	0.22942	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	7.836	0.29369	1.0:0.0:0.0:0.0	.	.	.	.	X	397	.	ENSP00000352846:K397X	K	+	1	0	ZNF808	57749170	0.445000	0.25657	0.023000	0.16930	0.014000	0.08584	3.395000	0.52558	0.666000	0.31087	0.164000	0.16699	AAA		0.373	ZNF808-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350447.3	NM_001039886		T	53057358	A	T	53057358	4	4	581	1	0	0	0	0	0	1	0	0	18185	247	9	5	1199	5	ZNF808	19	53057358	Nonsense_Mutation	SNP	A	TCGA-EU-5906-01A-11D-1669-08	35220299	53057358	6071625	59	34526										
NLRP5	126206	broad.mit.edu	37	chr19	56539568	56539568	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	aggtcctgctgggctgtcccGttcccctgggggtgaagcag	16	12	0	1	rs370513314		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr19:56539568G>A	ENST00000390649.3	+	7	1969	c.1969G>A	c.(1969-1971)Gtt>Att	p.V657I		NM_153447.4	NP_703148.4	P59047	NALP5_HUMAN	NLR family, pyrin domain containing 5	657					cellular protein complex assembly (GO:0043623)|cellular protein localization (GO:0034613)|embryo implantation (GO:0007566)|fertilization (GO:0009566)|in utero embryonic development (GO:0001701)|neuron death (GO:0070997)|organ morphogenesis (GO:0009887)|regulation of protein stability (GO:0031647)|regulation of RNA stability (GO:0043487)	apical cortex (GO:0045179)|cytosol (GO:0005829)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|protein complex (GO:0043234)	ATP binding (GO:0005524)	p.V657I(2)		breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|ovary(5)|skin(2)|stomach(4)|upper_aerodigestive_tract(2)	25		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		GGGCTGTCCCGTTCCCCTGGG	0.597																																																2	Substitution - Missense(2)	kidney(1)|central_nervous_system(1)						G	ILE/VAL	0,3966		0,0,1983	62	65	64		1969	-0.3	0	19		64	1,8307		0,1,4153	no	missense	NLRP5	NM_153447.4	29	0,1,6136	AA,AG,GG		0.012,0.0,0.0081	possibly-damaging	657/1201	56539568	1,12273	1983	4154	6137	SO:0001583	missense	126206			AY154460	CCDS12938.1	19q13.43	2008-10-30	2006-12-08	2006-12-08	ENSG00000171487	ENSG00000171487		"Nucleotide-binding domain and leucine rich repeat containing"	21269	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 5"	609658	"NACHT, leucine rich repeat and PYD containing 5"	NALP5		12563287, 11925379	Standard	NM_153447		Approved	PYPAF8, MATER, PAN11, CLR19.8	uc002qmj.3	P59047	OTTHUMG00000149887	ENST00000390649.3:c.1969G>A	19.37:g.56539568G>A	ENSP00000375063:p.Val657Ile	Somatic		WXS	Illumina GAIIx	Phase_I	A8MTY4|Q86W29	Missense_Mutation	SNP	ENST00000390649.3	37	CCDS12938.1	.	.	.	.	.	.	.	.	.	.	G	9.763	1.170697	0.21621	0.0	1.2E-4	ENSG00000171487	ENST00000390649	D	0.88975	-2.45	3.26	-0.266	0.12942	.	0.497253	0.15090	N	0.281128	T	0.79907	0.4527	L	0.52905	1.665	0.09310	N	1	P	0.43607	0.812	B	0.36845	0.234	T	0.68228	-0.5464	10	0.22109	T	0.4	.	3.4644	0.07544	0.2522:0.2153:0.5325:0.0	.	657	P59047	NALP5_HUMAN	I	657	ENSP00000375063:V657I	ENSP00000375063:V657I	V	+	1	0	NLRP5	61231380	0.000000	0.05858	0.000000	0.03702	0.023000	0.10783	0.169000	0.16641	0.044000	0.15775	-0.258000	0.10820	GTT		0.597	NLRP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313735.1	NM_153447		A	56539568	G	A	56539568	3	1	581	1	0	0	0	0	1	0	0	0	10487	1145	40	1	1995	1	NLRP5	19	56539568	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08	3482210	56539568	2589415	60	34527										
PIGT	51604	broad.mit.edu	37	chr20	44044813	44044813	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	aggcatggcggcggctatgcCgcttgctctgctcgtcctgt	14	13	1	0	rs551062552		TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr20:44044813C>T	ENST00000279036.6	+	1	97	c.17C>T	c.(16-18)cCg>cTg	p.P6L	PIGT_ENST00000341555.5_Missense_Mutation_p.P6L|PIGT_ENST00000545755.1_5'UTR|PIGT_ENST00000279035.9_Missense_Mutation_p.P6L|PIGT_ENST00000535404.1_5'UTR|PIGT_ENST00000543458.2_Missense_Mutation_p.P6L|PIGT_ENST00000372689.5_Missense_Mutation_p.P6L	NM_015937.5	NP_057021.2	Q969N2	PIGT_HUMAN	phosphatidylinositol glycan anchor biosynthesis, class T	6					attachment of GPI anchor to protein (GO:0016255)|C-terminal protein lipidation (GO:0006501)|cellular protein metabolic process (GO:0044267)|neuron apoptotic process (GO:0051402)|neuron differentiation (GO:0030182)|post-translational protein modification (GO:0043687)	cytoplasmic membrane-bounded vesicle (GO:0016023)|endoplasmic reticulum membrane (GO:0005789)|GPI-anchor transamidase complex (GO:0042765)|integral component of endoplasmic reticulum membrane (GO:0030176)|membrane (GO:0016020)	GPI-anchor transamidase activity (GO:0003923)	p.P6L(2)		breast(1)|endometrium(2)|kidney(5)|large_intestine(4)|lung(7)|pancreas(1)|skin(1)|stomach(1)	22		Myeloproliferative disorder(115;0.0122)				GCGGCTATGCCGCTTGCTCTG	0.647													C|||	1	0.000199681	0.0	0.0	5008	,	,		14099	0.0		0.0	False		,,,				2504	0.001															2	Substitution - Missense(2)	kidney(2)											5	8	7					20																	44044813		2136	4206	6342	SO:0001583	missense	51604				CCDS13353.1, CCDS54464.1, CCDS54465.1, CCDS54466.1	20q12-q13.12	2013-02-26	2006-06-28		ENSG00000124155	ENSG00000124155		"Phosphatidylinositol glycan anchor biosynthesis"	14938	protein-coding gene	gene with protein product	"GPI transamidase subunit"	610272	"phosphatidylinositol glycan, class T"			15713669	Standard	NM_015937		Approved		uc002xoh.3	Q969N2	OTTHUMG00000032574	ENST00000279036.6:c.17C>T	20.37:g.44044813C>T	ENSP00000279036:p.Pro6Leu	Somatic		WXS	Illumina GAIIx	Phase_I	B2RND5|B7Z3N1|B7Z7I8|E1P622|G8JLF5|Q2NL69|Q7Z3N7|Q9BQY7|Q9BQY8|Q9UJG6|Q9Y2Z5	Missense_Mutation	SNP	ENST00000279036.6	37	CCDS13353.1	.	.	.	.	.	.	.	.	.	.	C	11.05	1.524481	0.27299	.	.	ENSG00000124155	ENST00000543458;ENST00000372689;ENST00000279035;ENST00000279036;ENST00000455050;ENST00000341555	T;T;T;T;T	0.45276	0.99;1.02;0.9;1.04;0.9	5.65	-3.66	0.04489	.	0.940554	0.08958	N	0.869149	T	0.24624	0.0597	N	0.08118	0	0.80722	D	1	B;B;P;B;B	0.38642	0.33;0.222;0.641;0.222;0.118	B;B;B;B;B	0.26693	0.072;0.033;0.072;0.033;0.016	T	0.36504	-0.9745	10	0.87932	D	0	-11.6378	23.96	0.99987	0.0:0.2652:0.7348:0.0	.	6;6;6;6;6	Q969N2-4;B7Z3N1;Q969N2-2;B7Z7C5;Q969N2	.;.;.;.;PIGT_HUMAN	L	6	ENSP00000441577:P6L;ENSP00000361774:P6L;ENSP00000279035:P6L;ENSP00000279036:P6L;ENSP00000343783:P6L	ENSP00000279035:P6L	P	+	2	0	PIGT	43478227	0.000000	0.05858	0.658000	0.29665	0.383000	0.30230	-2.274000	0.01163	-0.355000	0.08199	0.655000	0.94253	CCG		0.647	PIGT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079434.2	NM_015937		T	44044813	C	T	44044813	3	4	581	1	0	0	0	0	1	0	0	0	11906	652	23	1	19	1	PIGT	20	44044813	Missense_Mutation	SNP	C	TCGA-EU-5906-01A-11D-1669-08		44044813	18980707	61	34528										
NRIP1	8204	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr21	16338673	16338673	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	tctgtgcaccttcattttggGctggtttctctcctggtggg	12	10	3	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr21:16338673G>A	ENST00000400202.1	-	3	2553	c.1841C>T	c.(1840-1842)gCc>gTc	p.A614V	NRIP1_ENST00000400199.1_Missense_Mutation_p.A614V|AF127577.10_ENST00000446301.1_RNA|NRIP1_ENST00000318948.4_Missense_Mutation_p.A614V			P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	614	Repression domain 2.				androgen receptor signaling pathway (GO:0030521)|lipid storage (GO:0019915)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|ovarian follicle rupture (GO:0001543)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	cell junction (GO:0030054)|histone deacetylase complex (GO:0000118)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|estrogen receptor binding (GO:0030331)|glucocorticoid receptor binding (GO:0035259)|nuclear hormone receptor binding (GO:0035257)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)	p.A614V(1)		cervix(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(6)|lung(13)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(4)	39				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)		TTCATTTTGGGCTGGTTTCTC	0.433																																																1	Substitution - Missense(1)	kidney(1)											239	242	241					21																	16338673		2202	4299	6501	SO:0001583	missense	8204			X84373	CCDS13568.1	21q11.2	2008-07-31			ENSG00000180530	ENSG00000180530			8001	protein-coding gene	gene with protein product	"receptor interacting protein 140", "nuclear factor RIP140"	602490				7641693, 9521594	Standard	NM_003489		Approved	RIP140	uc002yjx.2	P48552	OTTHUMG00000074323	ENST00000400202.1:c.1841C>T	21.37:g.16338673G>A	ENSP00000383063:p.Ala614Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IWE8	Missense_Mutation	SNP	ENST00000400202.1	37	CCDS13568.1	.	.	.	.	.	.	.	.	.	.	G	0.004	-2.253012	0.00268	.	.	ENSG00000180530	ENST00000400199;ENST00000400202;ENST00000318948	T;T;T	0.18810	2.19;2.19;2.19	6.02	-1.16	0.09678	.	1.038430	0.07682	N	0.937232	T	0.09992	0.0245	N	0.19112	0.55	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.38178	-0.9673	10	0.17832	T	0.49	0.9352	1.6925	0.02855	0.2507:0.2066:0.3644:0.1783	.	614	P48552	NRIP1_HUMAN	V	614	ENSP00000383060:A614V;ENSP00000383063:A614V;ENSP00000327213:A614V	ENSP00000327213:A614V	A	-	2	0	NRIP1	15260544	0.039000	0.19947	0.081000	0.20488	0.351000	0.29236	0.147000	0.16202	0.060000	0.16281	-0.127000	0.14921	GCC		0.433	NRIP1-002	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157926.1	NM_003489		A	16338673	G	A	16338673	3	1	581	1	0	0	0	0	1	0	0	0	10659	1203	42	2	1639	2	NRIP1	21	16338673	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08		16338673	31791222	62	34529										
PI4KA	5297	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	21161667	21161667	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	cacccttcatgtagtacagaGtgtcacgcagcatcttgaac	8	12	3	2			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr22:21161667G>A	ENST00000572273.1	-	10	1207	c.977C>T	c.(976-978)aCt>aTt	p.T326I	PI4KA_ENST00000255882.6_Missense_Mutation_p.T384I			P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase, catalytic, alpha	326					phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi-associated vesicle membrane (GO:0030660)|membrane (GO:0016020)|plasma membrane (GO:0005886)	1-phosphatidylinositol 4-kinase activity (GO:0004430)|ATP binding (GO:0005524)	p.T326I(2)		breast(3)|endometrium(8)|kidney(9)|large_intestine(19)|lung(29)|ovary(1)|pancreas(1)|prostate(3)|salivary_gland(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	79	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)			GTAGTACAGAGTGTCACGCAG	0.537																																					GBM(136;1332 1831 3115 23601 50806)											2	Substitution - Missense(2)	kidney(2)											185	128	147					22																	21161667		2203	4300	6503	SO:0001583	missense	5297			L36151	CCDS33603.1, CCDS33603.2	22q11.21	2011-05-25	2007-08-14	2007-08-02	ENSG00000241973	ENSG00000241973			8983	protein-coding gene	gene with protein product		600286		PIK4CA		7961848, 8662589	Standard	NM_002650		Approved	PI4K-ALPHA, pi4K230	uc002zsz.5	P42356	OTTHUMG00000167440	ENST00000572273.1:c.977C>T	22.37:g.21161667G>A	ENSP00000458238:p.Thr326Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z625|Q9UPG2	Missense_Mutation	SNP	ENST00000572273.1	37		.	.	.	.	.	.	.	.	.	.	G	13.28	2.190537	0.38707	.	.	ENSG00000241973	ENST00000255882	.	.	.	5.24	5.24	0.73138	.	0.048124	0.85682	D	0.000000	T	0.55721	0.1938	L	0.43152	1.355	0.80722	D	1	B;B	0.19331	0.035;0.001	B;B	0.15052	0.012;0.002	T	0.49799	-0.8901	9	0.20046	T	0.44	-12.5314	19.003	0.92841	0.0:0.0:1.0:0.0	.	384;326	D3DX33;P42356	.;PI4KA_HUMAN	I	326	.	ENSP00000255882:T326I	T	-	2	0	PI4KA	19491667	1.000000	0.71417	1.000000	0.80357	0.937000	0.57800	6.529000	0.73812	2.725000	0.93324	0.655000	0.94253	ACT		0.537	PI4KA-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_058004		A	21161667	G	A	21161667	3	1	581	1	0	0	0	0	1	0	0	0	11880	1029	36	2	5341	2	PI4KA	22	21161667	Missense_Mutation	SNP	G	TCGA-EU-5906-01A-11D-1669-08		21161667	30142899	63	34530										
SF3A1	10291	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	30740940	30740940	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	accttggtgtactgttccacTagcttcgtgaagtagttgaa	10	8	0	2			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr22:30740940T>A	ENST00000215793.8	-	4	787	c.633A>T	c.(631-633)ctA>ctT	p.L211L	SF3A1_ENST00000439242.1_Silent_p.L146L	NM_005877.4	NP_005868.1	Q15459	SF3A1_HUMAN	splicing factor 3a, subunit 1, 120kDa	211					gene expression (GO:0010467)|mRNA 3'-splice site recognition (GO:0000389)|mRNA processing (GO:0006397)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)|U2-type spliceosomal complex (GO:0005684)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)	p.L211L(1)		endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(9)|ovary(4)|pancreas(1)|prostate(1)|urinary_tract(1)	29						ACTGTTCCACTAGCTTCGTGA	0.552																																																1	Substitution - coding silent(1)	kidney(1)											142	136	138					22																	30740940		2203	4300	6503	SO:0001819	synonymous_variant	10291			X85237	CCDS13875.1	22q12.2	2014-09-17	2002-08-29		ENSG00000099995	ENSG00000099995			10765	protein-coding gene	gene with protein product		605595	"splicing factor 3a, subunit 1, 120kD"			7489498	Standard	NM_005877		Approved	SF3a120, SAP114, PRPF21, Prp21	uc003ahl.3	Q15459	OTTHUMG00000151005	ENST00000215793.8:c.633A>T	22.37:g.30740940T>A		Somatic		WXS	Illumina HiSeq	Phase_I	E9PAW1	Silent	SNP	ENST00000215793.8	37	CCDS13875.1																																																																																				0.552	SF3A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320916.2	NM_005877		A	30740940	T	A	30740940	2	1	581	1	0	0	0	0	0	0	0	1	14159	1509	53	5		5	SF3A1	22	30740940	Silent	SNP	T	TCGA-EU-5906-01A-11D-1669-08	9579273	30740940	20563626	64	34531										
ADSL	158	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	40742592	40742592	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	ggaggcgatcatggttcgccCgacagctaccgctcacctct	11	15	3	0			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr22:40742592C>G	ENST00000216194.7	+	1	86	c.30C>G	c.(28-30)ccC>ccG	p.P10P	ADSL_ENST00000342312.6_Silent_p.P10P|ADSL_ENST00000454266.2_Silent_p.P10P	NM_000026.2	NP_000017.1	P30566	PUR8_HUMAN	adenylosuccinate lyase	10					'de novo' AMP biosynthetic process (GO:0044208)|'de novo' IMP biosynthetic process (GO:0006189)|aerobic respiration (GO:0009060)|AMP biosynthetic process (GO:0006167)|metabolic process (GO:0008152)|nucleobase-containing small molecule metabolic process (GO:0055086)|protein tetramerization (GO:0051262)|purine nucleobase metabolic process (GO:0006144)|purine nucleotide biosynthetic process (GO:0006164)|purine ribonucleoside monophosphate biosynthetic process (GO:0009168)|response to hypoxia (GO:0001666)|response to muscle activity (GO:0014850)|response to nutrient (GO:0007584)|response to starvation (GO:0042594)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|mitochondrion (GO:0005739)	(S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamido)succinate AMP-lyase (fumarate-forming) activity (GO:0070626)|N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity (GO:0004018)	p.P10P(2)		breast(2)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(7)|lung(2)|ovary(1)|prostate(1)	19						ATGGTTCGCCCGACAGCTACC	0.642																																					Colon(4;65 130 1097 1516)											2	Substitution - coding silent(2)	kidney(2)											29	24	26					22																	40742592		2202	4299	6501	SO:0001819	synonymous_variant	158			X65867	CCDS14001.1, CCDS46714.1	22q13.1	2011-02-17			ENSG00000239900	ENSG00000239900	4.3.2.2		291	protein-coding gene	gene with protein product		608222				8404037	Standard	NM_000026		Approved		uc003ayp.4	P30566	OTTHUMG00000166425	ENST00000216194.7:c.30C>G	22.37:g.40742592C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0QY76|O75495|Q5TI34	Silent	SNP	ENST00000216194.7	37	CCDS14001.1																																																																																				0.642	ADSL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321386.1	NM_000026		G	40742592	C	G	40742592	2	3	581	1	0	0	0	0	0	0	0	1	346	639	23	4		4	ADSL	22	40742592	Silent	SNP	C	TCGA-EU-5906-01A-11D-1669-08	10001652	40742592	10561974	65	34532										
NCAPH2	29781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	50960640	50960640	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0303030303030303	2	1	0.490482869164496	0.633540372670807	0.400130761686826	1	1	0	cctgtactggacacacgtgaAggagcagttggaaactctcc	11	11	1	1			TCGA-EU-5906-01A-11D-1669-08	TCGA-EU-5906-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	050dc3b7-e560-44f4-a05c-8c792d8467a8	e096d1a2-684d-43cc-b84c-b302aaf33c3f	g.chr22:50960640A>C	ENST00000420993.2	+	14	1315	c.1193A>C	c.(1192-1194)aAg>aCg	p.K398T	NCAPH2_ENST00000299821.11_Missense_Mutation_p.K398T|CTA-384D8.36_ENST00000608319.1_RNA|NCAPH2_ENST00000395701.3_Missense_Mutation_p.K398T|NCAPH2_ENST00000520297.1_3'UTR	NM_001185011.1|NM_152299.3	NP_001171940.1|NP_689512.2	Q6IBW4	CNDH2_HUMAN	non-SMC condensin II complex, subunit H2	398					chromosome condensation (GO:0030261)|mitotic cell cycle (GO:0000278)	chromosome (GO:0005694)|membrane (GO:0016020)|nucleoplasm (GO:0005654)		p.K398T(1)		breast(1)|cervix(1)|endometrium(2)|kidney(3)|lung(10)|ovary(1)|prostate(2)|skin(3)|stomach(1)	24		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)		ACACACGTGAAGGAGCAGTTG	0.612																																																1	Substitution - Missense(1)	kidney(1)											74	78	77					22																	50960640		2203	4300	6503	SO:0001583	missense	29781			BC001937	CCDS14094.2, CCDS43038.1, CCDS54546.1	22q13.33	2008-02-04			ENSG00000025770	ENSG00000025770			25071	protein-coding gene	gene with protein product	"kleisin beta", "CAP-H2 subunit of the condensin II complex"	611230				10493829	Standard	NM_014551		Approved	384D8-2, hCAP-H2, CAP-H2	uc003blx.4	Q6IBW4	OTTHUMG00000150205	ENST00000420993.2:c.1193A>C	22.37:g.50960640A>C	ENSP00000410088:p.Lys398Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B7WPH1|O43788|Q13391|Q96C14|Q96GJ0|Q9BQ71|Q9BUT3|Q9BVD1	Missense_Mutation	SNP	ENST00000420993.2	37	CCDS14094.2	.	.	.	.	.	.	.	.	.	.	A	14.30	2.494180	0.44352	.	.	ENSG00000025770	ENST00000420993;ENST00000395701;ENST00000299821	.	.	.	4.93	-4.14	0.03892	.	1.019470	0.07804	N	0.957029	T	0.45915	0.1366	L	0.55481	1.735	0.24192	N	0.995542	P;P;P	0.36683	0.51;0.51;0.565	B;B;B	0.40825	0.23;0.23;0.341	T	0.49634	-0.8919	9	0.48119	T	0.1	-6.7668	12.8429	0.57813	0.8688:0.0:0.1312:0.0	.	398;376;398	Q6IBW4-4;Q6IBW4-2;Q6IBW4	.;.;CNDH2_HUMAN	T	398	.	ENSP00000299821:K398T	K	+	2	0	NCAPH2	49307506	0.116000	0.22171	0.044000	0.18714	0.418000	0.31294	-0.157000	0.10085	-1.363000	0.02164	-0.326000	0.08463	AAG		0.612	NCAPH2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000317012.1	NM_152299		C	50960640	A	C	50960640	3	2	581	1	0	0	0	0	1	0	0	0	10217	72	3	5	1286	5	NCAPH2	22	50960640	Missense_Mutation	SNP	A	TCGA-EU-5906-01A-11D-1669-08	10218048	50960640	343926	66	34533										
SPEN	23013	broad.mit.edu;hgsc.bcm.edu	37	chr1	16256217	16256217	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	tactgaagaaaaaattggcaTtgacatcgatcacacgcaga	8	8	1	4			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr1:16256217T>C	ENST00000375759.3	+	11	3686	c.3482T>C	c.(3481-3483)aTt>aCt	p.I1161T		NM_015001.2	NP_055816.2	Q96T58	MINT_HUMAN	spen family transcriptional repressor	1161					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|Notch signaling pathway (GO:0007219)|positive regulation of neurogenesis (GO:0050769)|positive regulation of transcription, DNA-templated (GO:0045893)|viral process (GO:0016032)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding transcription factor activity (GO:0003700)|single-stranded DNA binding (GO:0003697)|transcription corepressor activity (GO:0003714)	p.I1161T(1)		NS(1)|breast(13)|central_nervous_system(3)|cervix(5)|endometrium(16)|kidney(18)|large_intestine(27)|liver(2)|lung(37)|ovary(7)|prostate(7)|skin(7)|upper_aerodigestive_tract(5)|urinary_tract(1)	149		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)		AAAATTGGCATTGACATCGAT	0.403																																																1	Substitution - Missense(1)	kidney(1)											48	44	46					1																	16256217		2203	4300	6503	SO:0001583	missense	23013				CCDS164.1	1p36	2013-10-17	2013-10-17		ENSG00000065526	ENSG00000065526		"RNA binding motif (RRM) containing"	17575	protein-coding gene	gene with protein product		613484	"SPEN homolog, transcriptional regulator (Drosophila)", "spen homolog, transcriptional regulator (Drosophila)"			10451362, 11331609	Standard	NM_015001		Approved	KIAA0929, MINT, SHARP, RBM15C	uc001axk.1	Q96T58	OTTHUMG00000009376	ENST00000375759.3:c.3482T>C	1.37:g.16256217T>C	ENSP00000364912:p.Ile1161Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H9A8|Q9NWH5|Q9UQ01|Q9Y556	Missense_Mutation	SNP	ENST00000375759.3	37	CCDS164.1	.	.	.	.	.	.	.	.	.	.	T	11.75	1.732130	0.30684	.	.	ENSG00000065526	ENST00000375759	T	0.10288	2.89	5.2	5.2	0.72013	.	.	.	.	.	T	0.17450	0.0419	L	0.60455	1.87	0.42403	D	0.992579	P	0.52842	0.956	P	0.47528	0.549	T	0.02150	-1.1205	9	0.31617	T	0.26	-10.8372	15.2199	0.73303	0.0:0.0:0.0:1.0	.	1161	Q96T58	MINT_HUMAN	T	1161	ENSP00000364912:I1161T	ENSP00000364912:I1161T	I	+	2	0	SPEN	16128804	1.000000	0.71417	0.999000	0.59377	0.997000	0.91878	5.311000	0.65786	2.184000	0.69523	0.528000	0.53228	ATT		0.403	SPEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025993.1	NM_015001		C	16256217	T	C	16256217	3	2	582	1	0	0	0	0	1	0	0	0	15050	1493	52	3	3524	3	SPEN	1	16256217	Missense_Mutation	SNP	T	TCGA-EU-5907-01A-11D-1669-08		16256217	232994404	1	34534										
RAP1GAP	5909	broad.mit.edu	37	chr1	21924516	21924516	+	Frame_Shift_Del	DEL	C	C	-													0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	gatctcgggacacgcagggtCccccaacttgccggcgtctg							TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr1:21924516delC	ENST00000374765.4	-	23	2121	c.1921delG	c.(1921-1923)gacfs	p.D641fs	RAP1GAP_ENST00000290101.4_Frame_Shift_Del_p.D705fs|RAP1GAP_ENST00000374761.2_Frame_Shift_Del_p.D672fs|RAP1GAP_ENST00000542643.2_Frame_Shift_Del_p.D659fs|RAP1GAP_ENST00000374763.2_Frame_Shift_Del_p.D726fs	NM_002885.2	NP_002876.2	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein	641					GTP catabolic process (GO:0006184)|positive regulation of Rap GTPase activity (GO:0032854)|regulation of Ras GTPase activity (GO:0032318)|signal transduction (GO:0007165)	cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	GTPase activator activity (GO:0005096)|GTPase activity (GO:0003924)|protein homodimerization activity (GO:0042803)|Rap GTPase activator activity (GO:0046582)|Ras GTPase binding (GO:0017016)			breast(2)|central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(7)|ovary(2)|skin(1)	17		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		CACGCAGGGTCCCCCAACTTG	0.692																																																0													16	17	17					1																	21924516		2196	4281	6477	SO:0001589	frameshift_variant	5909			BC054490	CCDS218.1, CCDS53276.1, CCDS53277.1	1p36.1-p35	2009-09-14	2006-04-12	2006-04-12	ENSG00000076864	ENSG00000076864			9858	protein-coding gene	gene with protein product		600278	"RAP1, GTPase activating protein 1"	RAP1GA1		1904317	Standard	NM_001145657		Approved	KIAA0474, RAP1GAP1, RAP1GAPII	uc001bew.3	P47736	OTTHUMG00000007513	ENST00000374765.4:c.1921delG	1.37:g.21924516delC	ENSP00000363897:p.Asp641fs	Somatic		WXS	Illumina GAIIx	Phase_I	J3QSS6|O75062|Q5T3S9|Q5T3T4|Q7Z5S8|Q9UQ51	Frame_Shift_Del	DEL	ENST00000374765.4	37	CCDS218.1																																																																																				0.692	RAP1GAP-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000019759.2	NM_002885		-	21924516	C	-	21924516	7	5	582	1	0	1	0	1	0	0	0	0	13050	855	30	0	78	0	RAP1GAP	1	21924516	Frame_Shift_Del	DEL	C	TCGA-EU-5907-01A-11D-1669-08	5668299	21924516	227326105	2	34535										
ATG4C	84938	broad.mit.edu;hgsc.bcm.edu	37	chr1	63269471	63269471	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	tttgaatatggaggctacagGaacagatgaagttgacaagc	12	5	0	4			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr1:63269471G>C	ENST00000317868.4	+	2	221	c.14G>C	c.(13-15)gGa>gCa	p.G5A	ATG4C_ENST00000371120.3_Missense_Mutation_p.G5A	NM_032852.3	NP_116241.2	Q96DT6	ATG4C_HUMAN	autophagy related 4C, cysteine peptidase	5					autophagic vacuole assembly (GO:0000045)|autophagy (GO:0006914)|protein targeting to membrane (GO:0006612)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)	cysteine-type endopeptidase activity (GO:0004197)|peptidase activity (GO:0008233)	p.G5A(2)	ATG4C/FBXO38(2)	NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(6)|lung(3)|ovary(1)|prostate(2)	19						GAGGCTACAGGAACAGATGAA	0.284																																																2	Substitution - Missense(2)	kidney(2)											59	61	60					1																	63269471		2203	4287	6490	SO:0001583	missense	84938			AK027773	CCDS623.1	1p31.3	2014-02-12	2012-06-06	2005-09-11	ENSG00000125703	ENSG00000125703			16040	protein-coding gene	gene with protein product		611339	"AUT (S. cerevisiae)-like 1, cysteine endopeptidase; AUT-like 1, cysteine endopeptidase (S. cerevisiae)", "APG4 autophagy 4 homolog C (S. cerevisiae)", "ATG4 autophagy related 4 homolog C (S. cerevisiae)"	AUTL1, APG4C		12446702	Standard	NM_032852		Approved	FLJ14867, AUTL3	uc001dau.3	Q96DT6	OTTHUMG00000009142	ENST00000317868.4:c.14G>C	1.37:g.63269471G>C	ENSP00000322159:p.Gly5Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLR8|D3DQ58|Q96K04	Missense_Mutation	SNP	ENST00000317868.4	37	CCDS623.1	.	.	.	.	.	.	.	.	.	.	G	16.88	3.245851	0.59103	.	.	ENSG00000125703	ENST00000317868;ENST00000371120;ENST00000443289;ENST00000540025;ENST00000371118	.	.	.	4.98	4.98	0.66077	.	0.000000	0.85682	D	0.000000	T	0.36608	0.0973	L	0.53249	1.67	0.80722	D	1	P	0.39480	0.675	B	0.28553	0.091	T	0.38067	-0.9678	9	0.30078	T	0.28	-19.2855	18.2493	0.89997	0.0:0.0:1.0:0.0	.	5	Q96DT6	ATG4C_HUMAN	A	5	.	ENSP00000322159:G5A	G	+	2	0	ATG4C	63042059	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	6.660000	0.74417	2.318000	0.78349	0.555000	0.69702	GGA		0.284	ATG4C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025332.2	NM_032852		C	63269471	G	C	63269471	3	2	582	1	0	0	0	0	1	0	0	0	1098	1174	41	4	16	4	ATG4C	1	63269471	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	41344955	63269471	185981150	3	34536										
PI4KB	5298	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr1	151280208	151280208	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	tttctgctctttggtggggaGcgtggccagccgcttgccga	15	11	2	0			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr1:151280208G>C	ENST00000368873.1	-	4	1192	c.1024C>G	c.(1024-1026)Ctc>Gtc	p.L342V	PI4KB_ENST00000529142.1_Missense_Mutation_p.L10V|PI4KB_ENST00000271657.5_Missense_Mutation_p.L354V|PI4KB_ENST00000368875.2_Missense_Mutation_p.L354V|PI4KB_ENST00000368872.1_Missense_Mutation_p.L327V|PI4KB_ENST00000368874.4_Missense_Mutation_p.L327V			Q9UBF8	PI4KB_HUMAN	phosphatidylinositol 4-kinase, catalytic, beta	342					phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|receptor-mediated endocytosis (GO:0006898)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|Golgi membrane (GO:0000139)|mitochondrial outer membrane (GO:0005741)|plasma membrane (GO:0005886)	1-phosphatidylinositol 4-kinase activity (GO:0004430)|ATP binding (GO:0005524)	p.L354V(1)		breast(3)|endometrium(5)|kidney(3)|large_intestine(2)|lung(7)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	27	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)			TTGGTGGGGAGCGTGGCCAGC	0.567																																					Colon(154;765 1838 9854 28443 37492)											1	Substitution - Missense(1)	kidney(1)											112	105	107					1																	151280208		2203	4300	6503	SO:0001583	missense	5298			AB005910	CCDS993.1, CCDS55637.1, CCDS55638.1	1q21	2008-02-05	2007-08-14	2007-08-02	ENSG00000143393	ENSG00000143393			8984	protein-coding gene	gene with protein product		602758		PIK4CB		9020160, 9405938	Standard	NM_002651		Approved	PI4K-BETA, pi4K92	uc001exu.3	Q9UBF8	OTTHUMG00000012348	ENST00000368873.1:c.1024C>G	1.37:g.151280208G>C	ENSP00000357867:p.Leu342Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DGI2|O15096|P78405|Q5VWB9|Q5VWC0|Q5VWC1|Q9BWR6	Missense_Mutation	SNP	ENST00000368873.1	37		.	.	.	.	.	.	.	.	.	.	G	19.74	3.883273	0.72410	.	.	ENSG00000143393	ENST00000368874;ENST00000368875;ENST00000271657;ENST00000368873;ENST00000529142;ENST00000368872;ENST00000430800;ENST00000489223	T;T;T;T;T;T	0.81163	-1.46;-1.46;-1.46;-1.46;-0.09;-1.46	5.89	5.89	0.94794	Protein kinase-like domain (1);	0.000000	0.85682	D	0.000000	T	0.59985	0.2234	N	0.17838	0.53	0.80722	D	1	B;B;B	0.19331	0.005;0.035;0.027	B;B;B	0.27608	0.017;0.081;0.022	T	0.57441	-0.7811	10	0.18276	T	0.48	-16.6481	18.82	0.92092	0.0:0.0:1.0:0.0	.	342;327;10	Q9UBF8;Q9UBF8-2;Q9UBF8-3	PI4KB_HUMAN;.;.	V	327;354;354;342;10;327;10;10	ENSP00000357868:L327V;ENSP00000357869:L354V;ENSP00000271657:L354V;ENSP00000357867:L342V;ENSP00000433149:L10V;ENSP00000357866:L327V	ENSP00000271657:L354V	L	-	1	0	PI4KB	149546832	1.000000	0.71417	0.976000	0.42696	0.984000	0.73092	3.687000	0.54692	2.797000	0.96272	0.563000	0.77884	CTC		0.567	PI4KB-002	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000034400.3	NM_002651		C	151280208	G	C	151280208	3	2	582	1	0	0	0	0	1	0	0	0	11881	971	34	4	1462	4	PI4KB	1	151280208	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	88010737	151280208	97970413	4	34537										
DDX18	8886	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	118577223	118577223	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	attttgtcttttaaaaccaaAgatacgaaaaaagcaaaaac	4	6	1	1			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr2:118577223A>G	ENST00000263239.2	+	3	498		c.e3-1		DDX18_ENST00000474694.1_Splice_Site	NM_006773.3	NP_006764.3	Q9NVP1	DDX18_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 18						ATP catabolic process (GO:0006200)	membrane (GO:0016020)|nucleolus (GO:0005730)	ATP binding (GO:0005524)|ATP-dependent RNA helicase activity (GO:0004004)|poly(A) RNA binding (GO:0044822)	p.?(1)		breast(2)|endometrium(2)|kidney(4)|large_intestine(3)|lung(9)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	25						TTAAAACCAAAGATACGAAAA	0.303											OREG0003814	type=REGULATORY REGION|Gene=DDX18|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay																																				1	Unknown(1)	kidney(1)											36	35	35					2																	118577223		2203	4299	6502	SO:0001630	splice_region_variant	8886			X98743	CCDS2120.1	2q21.2	2008-02-05	2003-06-13		ENSG00000088205	ENSG00000088205		"DEAD-boxes"	2741	protein-coding gene	gene with protein product		606355	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 18 (Myc-regulated)"			8861962	Standard	NM_006773		Approved	MrDb	uc002tlh.1	Q9NVP1	OTTHUMG00000058521	ENST00000263239.2:c.371-1A>G	2.37:g.118577223A>G		Somatic	1489	WXS	Illumina HiSeq	Phase_I	Q6GTZ9|Q6IAU4|Q92732|Q9BQB7	Splice_Site	SNP	ENST00000263239.2	37	CCDS2120.1	.	.	.	.	.	.	.	.	.	.	A	9.503	1.103767	0.20632	.	.	ENSG00000088205	ENST00000263239	.	.	.	4.29	4.29	0.51040	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	11.2167	0.48830	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	DDX18	118293693	1.000000	0.71417	0.999000	0.59377	0.113000	0.19764	4.043000	0.57354	1.934000	0.56057	0.528000	0.53228	.		0.303	DDX18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000129632.3	NM_006773	Intron	G	118577223	A	G	118577223	5	3	582	1	0	0	0	0	0	0	1	0	4347	86	3	3	379	3	DDX18	2	118577223	Splice_Site	SNP	A	TCGA-EU-5907-01A-11D-1669-08		118577223	124622150	5	34538										
THSD7B	80731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	138414637	138414637	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	tatcatatttacttacaggaGgcaaatgttatcactacaca	5	8	2	0			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr2:138414637G>A	ENST00000409968.1	+	24	4460	c.4282G>A	c.(4282-4284)Ggc>Agc	p.G1428S	THSD7B_ENST00000543459.1_Intron|THSD7B_ENST00000413152.2_Missense_Mutation_p.G1400S|THSD7B_ENST00000272643.3_Missense_Mutation_p.G1431S			Q9C0I4	THS7B_HUMAN	thrombospondin, type I, domain containing 7B	1430	TSP type-1 18. {ECO:0000255|PROSITE- ProRule:PRU00210}.					integral component of membrane (GO:0016021)		p.G1400S(1)|p.G1431S(1)		NS(3)|breast(3)|central_nervous_system(2)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(14)|lung(57)|ovary(4)|pancreas(3)|prostate(11)|skin(4)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(3)	134				BRCA - Breast invasive adenocarcinoma(221;0.19)		ACTTACAGGAGGCAAATGTTA	0.393																																																2	Substitution - Missense(2)	kidney(2)											109	106	107					2																	138414637		1915	4135	6050	SO:0001583	missense	80731					2q22.1	2006-11-24			ENSG00000144229	ENSG00000144229			29348	protein-coding gene	gene with protein product						11214970	Standard	NM_001080427		Approved	KIAA1679	uc002tva.1	Q9C0I4	OTTHUMG00000153590	ENST00000409968.1:c.4282G>A	2.37:g.138414637G>A	ENSP00000387145:p.Gly1428Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000409968.1	37		.	.	.	.	.	.	.	.	.	.	G	35	5.463320	0.96257	.	.	ENSG00000144229	ENST00000409968;ENST00000272643;ENST00000413152	T;T;T	0.51325	0.71;0.71;0.71	6.13	6.13	0.99165	.	0.000000	0.85682	D	0.000000	T	0.70666	0.3250	M	0.73962	2.25	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.64019	-0.6505	10	0.32370	T	0.25	.	20.8599	0.99761	0.0:0.0:1.0:0.0	.	1400	C9JKN6	.	S	1428;1431;1400	ENSP00000387145:G1428S;ENSP00000272643:G1431S;ENSP00000413841:G1400S	ENSP00000272643:G1431S	G	+	1	0	THSD7B	138131107	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.476000	0.97823	2.937000	0.99478	0.650000	0.86243	GGC		0.393	THSD7B-001	NOVEL	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000331769.2	XM_046570.9		A	138414637	G	A	138414637	3	1	582	1	0	0	0	0	1	0	0	0	15892	1000	35	2	4284	2	THSD7B	2	138414637	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	19837414	138414637	104784736	6	34539										
COL6A3	1293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr2	238249156	238249156	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	ggctcctcgttgagctcggtGgacttgtccactaatttgaa	11	10	0	2			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr2:238249156G>C	ENST00000295550.4	-	38	8855	c.8403C>G	c.(8401-8403)tcC>tcG	p.S2801S	COL6A3_ENST00000409809.1_Silent_p.S2595S|COL6A3_ENST00000472056.1_Silent_p.S2194S|COL6A3_ENST00000353578.4_Silent_p.S2595S|COL6A3_ENST00000346358.4_Silent_p.S2601S|COL6A3_ENST00000347401.3_Silent_p.S2600S	NM_004369.3	NP_004360.2	P12111	CO6A3_HUMAN	collagen, type VI, alpha 3	2801	Nonhelical region.|VWFA 12. {ECO:0000255|PROSITE- ProRule:PRU00219}.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|muscle organ development (GO:0007517)|response to glucose (GO:0009749)	collagen type VI trimer (GO:0005589)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)|sarcolemma (GO:0042383)|vesicle (GO:0031982)	serine-type endopeptidase inhibitor activity (GO:0004867)	p.S2801S(1)		breast(6)|central_nervous_system(7)|cervix(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(13)|large_intestine(64)|lung(62)|ovary(14)|pancreas(2)|prostate(11)|skin(14)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(4)	217		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)		TGAGCTCGGTGGACTTGTCCA	0.557																																																1	Substitution - coding silent(1)	kidney(1)											95	84	88					2																	238249156		2203	4300	6503	SO:0001819	synonymous_variant	1293			X52022	CCDS33409.1, CCDS33410.1, CCDS33411.1, CCDS33412.1, CCDS33410.2, CCDS33411.2, CCDS54439.1	2q37	2014-09-17			ENSG00000163359	ENSG00000163359		"Collagens"	2213	protein-coding gene	gene with protein product		120250				1339440, 11992252	Standard	NM_004369		Approved		uc002vwl.2	P12111	OTTHUMG00000150020	ENST00000295550.4:c.8403C>G	2.37:g.238249156G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8MT30|B4E3U5|B7ZMJ7|E9PFQ6|E9PGQ9|Q16501|Q53QF4|Q53QF6	Silent	SNP	ENST00000295550.4	37	CCDS33412.1																																																																																				0.557	COL6A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000315790.2	NM_004369		C	238249156	G	C	238249156	2	2	582	1	0	0	0	0	0	0	0	1	3703	1335	47	4		4	COL6A3	2	238249156	Silent	SNP	G	TCGA-EU-5907-01A-11D-1669-08	99834519	238249156	4950217	7	34540										
VHL	7428	broad.mit.edu;ucsc.edu	37	chr3	10183787	10183787	+	Frame_Shift_Del	DEL	C	C	-													0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	gcagtccgcgcgtcgtgctgCccgtatggctcaacttcgac					rs398123481		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr3:10183787delC	ENST00000256474.2	+	1	1096	c.256delC	c.(256-258)cccfs	p.P86fs	snoU13_ENST00000458986.1_RNA|VHL_ENST00000345392.2_Frame_Shift_Del_p.P86fs	NM_000551.3	NP_000542.1	P40337	VHL_HUMAN	von Hippel-Lindau tumor suppressor, E3 ubiquitin protein ligase	86			P -> A (in VHLD; type I). {ECO:0000269|PubMed:8956040}.|P -> H (in VHLD).|P -> L (in VHLD; type I). {ECO:0000269|PubMed:8956040}.|P -> R (in VHLD; type I). {ECO:0000269|PubMed:9829911}.|P -> S (in VHLD). {ECO:0000269|PubMed:17344846, ECO:0000269|PubMed:9829912}.		cell morphogenesis (GO:0000902)|cellular response to hypoxia (GO:0071456)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061428)|positive regulation of cell differentiation (GO:0045597)|positive regulation of transcription, DNA-templated (GO:0045893)|protein stabilization (GO:0050821)|protein ubiquitination (GO:0016567)|proteolysis (GO:0006508)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of transcription, DNA-templated (GO:0006355)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|intermediate filament cytoskeleton (GO:0045111)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	enzyme binding (GO:0019899)|transcription factor binding (GO:0008134)|ubiquitin protein ligase activity (GO:0061630)|ubiquitin-protein transferase activity (GO:0004842)	p.P86S(5)|p.P86fs*72(2)|p.S72_V87>L(1)|p.R60fs*35(1)|p.P86A(1)|p.V87fs*72(1)|p.V84_E94>E(1)|p.V84fs*69(1)|p.P86T(1)|p.L85fs*46(1)|p.L85fs*44(1)|p.V84fs*72(1)|p.V84_P86del(1)		adrenal_gland(25)|autonomic_ganglia(3)|central_nervous_system(2)|endometrium(6)|kidney(1662)|large_intestine(14)|lung(6)|pancreas(18)|paratesticular_tissues(1)|pleura(1)|skin(1)|soft_tissue(24)|thyroid(3)|upper_aerodigestive_tract(3)	1769				Kidney(1;0.000404)|KIRC - Kidney renal clear cell carcinoma(1;0.000569)		CGTCGTGCTGCCCGTATGGCT	0.721		1	"D, Mis, N, F, S"		"renal, hemangioma, pheochromocytoma"	"renal, hemangioma, pheochromocytoma"			von Hippel-Lindau disease;Pheochromocytoma (Adrenal), Familial;Chuvash Polycythemia																													yes	Rec	yes	von Hippel-Lindau syndrome	3	3p25	7428	von Hippel-Lindau syndrome gene		"E, M, O"	18	Deletion - Frameshift(8)|Substitution - Missense(7)|Complex - deletion inframe(2)|Deletion - In frame(1)	kidney(17)|soft_tissue(1)	GRCh37	CM951276|CM952019	VHL	M							13	16	15					3																	10183787		2149	4208	6357	SO:0001589	frameshift_variant	7428	Familial Cancer Database	VHL; ;Erythrocytosis, Familial type 2	L15409	CCDS2597.1, CCDS2598.1	3p25.3	2014-09-17	2012-02-23		ENSG00000134086	ENSG00000134086			12687	protein-coding gene	gene with protein product		608537	"von Hippel-Lindau syndrome", "von Hippel-Lindau tumor suppressor"			9671762	Standard	NM_000551		Approved	VHL1	uc003bvc.3	P40337	OTTHUMG00000128668	ENST00000256474.2:c.256delC	3.37:g.10183787delC	ENSP00000256474:p.Pro86fs	Somatic		WXS	Illumina GAIIx	Phase_I	B2RE45|Q13599|Q6PDA9	Frame_Shift_Del	DEL	ENST00000256474.2	37	CCDS2597.1																																																																																				0.721	VHL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250559.1	NM_000551		-	10183787	C	-	10183787	7	5	582	1	0	1	0	1	0	0	0	0	17174	739	26	0	258	0	VHL	3	10183787	Frame_Shift_Del	DEL	C	TCGA-EU-5907-01A-11D-1669-08		10183787	187838643	8	34541										
PBRM1	55193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr3	52661325	52661325	+	Nonsense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	taccagtatcagaggtggctGaagagatcatgctgtctccg	12	9	3	3			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr3:52661325G>C	ENST00000296302.7	-	13	1506	c.1505C>G	c.(1504-1506)tCa>tGa	p.S502*	PBRM1_ENST00000409057.1_Nonsense_Mutation_p.S502*|PBRM1_ENST00000409767.1_Nonsense_Mutation_p.S502*|PBRM1_ENST00000394830.3_Nonsense_Mutation_p.S502*|PBRM1_ENST00000410007.1_Nonsense_Mutation_p.S502*|PBRM1_ENST00000356770.4_Nonsense_Mutation_p.S470*|PBRM1_ENST00000409114.3_Nonsense_Mutation_p.S502*|PBRM1_ENST00000337303.4_Nonsense_Mutation_p.S502*			Q86U86	PB1_HUMAN	polybromo 1	502					chromatin remodeling (GO:0006338)|heart development (GO:0007507)|mitotic nuclear division (GO:0007067)|negative regulation of cell proliferation (GO:0008285)|placenta development (GO:0001890)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	kinetochore (GO:0000776)|nuclear chromosome (GO:0000228)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)	p.S502*(2)|p.S470*(1)		breast(5)|endometrium(5)|kidney(301)|liver(1)|lung(22)|pancreas(1)	335				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		AGAGGTGGCTGAAGAGATCAT	0.433			"Mis, N, F, S, D, O"		"clear cell renal carcinoma, breast"																																		Rec	yes		3	3p21	55193	polybromo 1		E	3	Substitution - Nonsense(3)	kidney(3)											149	133	138					3																	52661325		2203	4300	6503	SO:0001587	stop_gained	55193			BC015323	CCDS43099.1	3p21	2007-03-29			ENSG00000163939	ENSG00000163939			30064	protein-coding gene	gene with protein product		606083				11078522, 11483580	Standard	NM_018313		Approved	BAF180, PB1	uc003der.2	Q86U86	OTTHUMG00000152663	ENST00000296302.7:c.1505C>G	3.37:g.52661325G>C	ENSP00000296302:p.Ser502*	Somatic		WXS	Illumina HiSeq	Phase_I	A1L381|A1L382|A4FUJ7|Q1RMD1|Q1RMD2|Q96MS2|Q9H2T3|Q9H2T4|Q9H2T5|Q9H301|Q9H314	Nonsense_Mutation	SNP	ENST00000296302.7	37		.	.	.	.	.	.	.	.	.	.	G	39	7.440044	0.98286	.	.	ENSG00000163939	ENST00000356770;ENST00000394830;ENST00000296302;ENST00000337303;ENST00000409057;ENST00000410007;ENST00000409114;ENST00000409767;ENST00000423351;ENST00000446103	.	.	.	5.93	5.93	0.95920	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.35671	T	0.21	-0.253	20.3539	0.98825	0.0:0.0:1.0:0.0	.	.	.	.	X	470;502;502;502;502;502;502;502;502;446	.	ENSP00000296302:S502X	S	-	2	0	PBRM1	52636365	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.110000	0.94302	2.826000	0.97356	0.655000	0.94253	TCA		0.433	PBRM1-008	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000327232.1	NM_018165		C	52661325	G	C	52661325	4	2	582	1	0	0	0	0	0	1	0	0	11498	1294	45	4	3467	4	PBRM1	3	52661325	Nonsense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	42477538	52661325	145361105	9	34542										
TMEM108	66000	hgsc.bcm.edu	37	chr3	133099097	133099097	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	aggggctggtaattcatcacGccctgtcccgcctgcacctg	11	15	2	0			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr3:133099097G>A	ENST00000321871.6	+	4	752	c.542G>A	c.(541-543)cGc>cAc	p.R181H	TMEM108_ENST00000515826.1_Missense_Mutation_p.R181H|TMEM108_ENST00000508711.1_Intron|TMEM108_ENST00000393130.3_Missense_Mutation_p.R181H	NM_001136469.1|NM_023943.2	NP_001129941.1|NP_076432.1	Q6UXF1	TM108_HUMAN	transmembrane protein 108	181	Pro-rich.					integral component of membrane (GO:0016021)		p.R181H(1)		endometrium(3)|kidney(1)|large_intestine(5)|lung(22)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	38						AATTCATCACGCCCTGTCCCG	0.682																																																1	Substitution - Missense(1)	kidney(1)											23	26	25					3																	133099097		2203	4299	6502	SO:0001583	missense	66000			AL136578	CCDS33858.1, CCDS75012.1	3q22.1	2014-04-07			ENSG00000144868	ENSG00000144868			28451	protein-coding gene	gene with protein product	"cancer/testis antigen 124"					11214970	Standard	XM_005247726		Approved	MGC3040, CT124	uc003epi.3	Q6UXF1	OTTHUMG00000159685	ENST00000321871.6:c.542G>A	3.37:g.133099097G>A	ENSP00000324651:p.Arg181His	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNC9|Q9BQH1|Q9BW81|Q9C0H3	Missense_Mutation	SNP	ENST00000321871.6	37	CCDS33858.1	.	.	.	.	.	.	.	.	.	.	G	14.69	2.610155	0.46527	.	.	ENSG00000144868	ENST00000321871;ENST00000393130;ENST00000515826	T;T;T	0.50548	0.74;0.74;0.74	4.32	2.33	0.28932	.	0.391872	0.20199	N	0.097139	T	0.33933	0.0880	L	0.57536	1.79	0.09310	N	1	P;B	0.41265	0.744;0.36	B;B	0.28784	0.094;0.06	T	0.26467	-1.0102	10	0.46703	T	0.11	-7.3257	7.2305	0.26040	0.0952:0.1696:0.7352:0.0	.	181;181	E9PB58;Q6UXF1	.;TM108_HUMAN	H	181	ENSP00000324651:R181H;ENSP00000376838:R181H;ENSP00000423338:R181H	ENSP00000324651:R181H	R	+	2	0	TMEM108	134581787	0.001000	0.12720	0.269000	0.24586	0.793000	0.44817	0.956000	0.29202	0.928000	0.37168	0.561000	0.74099	CGC		0.682	TMEM108-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356907.2	NM_023943		A	133099097	G	A	133099097	3	1	582	1	0	0	0	0	1	0	0	0	16036	1087	38	1	548	1	TMEM108	3	133099097	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	80437772	133099097	64923333	10	34543										
SLIT2	9353	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	20541152	20541152	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	tgctttctttgtatgataatCaaattactacagttgcacca	5	8	2	1	rs553808717		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr4:20541152C>A	ENST00000504154.1	+	19	2173	c.1921C>A	c.(1921-1923)Caa>Aaa	p.Q641K	SLIT2_ENST00000503823.1_Missense_Mutation_p.Q633K|SLIT2_ENST00000273739.5_Missense_Mutation_p.Q645K|SLIT2_ENST00000503837.1_Missense_Mutation_p.Q637K	NM_004787.1	NP_004778.1	O94813	SLIT2_HUMAN	slit homolog 2 (Drosophila)	641					apoptotic process involved in luteolysis (GO:0061364)|axon extension involved in axon guidance (GO:0048846)|axon guidance (GO:0007411)|branching morphogenesis of an epithelial tube (GO:0048754)|cell migration involved in sprouting angiogenesis (GO:0002042)|cellular response to heparin (GO:0071504)|cellular response to hormone stimulus (GO:0032870)|chemorepulsion involved in postnatal olfactory bulb interneuron migration (GO:0021836)|corticospinal neuron axon guidance through spinal cord (GO:0021972)|dorsal/ventral axon guidance (GO:0033563)|in utero embryonic development (GO:0001701)|induction of negative chemotaxis (GO:0050929)|mammary duct terminal end bud growth (GO:0060763)|metanephros development (GO:0001656)|motor neuron axon guidance (GO:0008045)|negative chemotaxis (GO:0050919)|negative regulation of actin filament polymerization (GO:0030837)|negative regulation of axon extension (GO:0030517)|negative regulation of catalytic activity (GO:0043086)|negative regulation of cell growth (GO:0030308)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cellular response to growth factor stimulus (GO:0090288)|negative regulation of chemokine-mediated signaling pathway (GO:0070100)|negative regulation of endothelial cell migration (GO:0010596)|negative regulation of gene expression (GO:0010629)|negative regulation of lamellipodium assembly (GO:0010593)|negative regulation of leukocyte chemotaxis (GO:0002689)|negative regulation of monocyte chemotaxis (GO:0090027)|negative regulation of mononuclear cell migration (GO:0071676)|negative regulation of neutrophil chemotaxis (GO:0090024)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of retinal ganglion cell axon guidance (GO:0090260)|negative regulation of small GTPase mediated signal transduction (GO:0051058)|negative regulation of smooth muscle cell chemotaxis (GO:0071672)|negative regulation of smooth muscle cell migration (GO:0014912)|negative regulation of vascular permeability (GO:0043116)|positive regulation of apoptotic process (GO:0043065)|positive regulation of axonogenesis (GO:0050772)|response to cortisol (GO:0051414)|retinal ganglion cell axon guidance (GO:0031290)|Roundabout signaling pathway (GO:0035385)|single organismal cell-cell adhesion (GO:0016337)|ureteric bud development (GO:0001657)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|chemorepellent activity (GO:0045499)|GTPase inhibitor activity (GO:0005095)|heparin binding (GO:0008201)|identical protein binding (GO:0042802)|laminin-1 binding (GO:0043237)|protein homodimerization activity (GO:0042803)|proteoglycan binding (GO:0043394)|Roundabout binding (GO:0048495)	p.Q641K(1)		NS(1)|breast(4)|central_nervous_system(4)|cervix(1)|endometrium(5)|kidney(7)|large_intestine(17)|lung(60)|ovary(3)|pancreas(1)|prostate(2)|skin(10)|upper_aerodigestive_tract(1)	116						GTATGATAATCAAATTACTAC	0.378													C|||	1	0.000199681	0.0008	0.0	5008	,	,		14976	0.0		0.0	False		,,,				2504	0.0															1	Substitution - Missense(1)	kidney(1)											136	129	131					4																	20541152		2203	4300	6503	SO:0001583	missense	9353			AF055585	CCDS3426.1, CCDS75110.1, CCDS75111.1	4p15.2	2008-08-01	2001-11-28		ENSG00000145147	ENSG00000145147			11086	protein-coding gene	gene with protein product		603746	"slit (Drosophila) homolog 2"	SLIL3		9813312, 18269211	Standard	XM_005248211		Approved	Slit-2	uc003gpr.1	O94813	OTTHUMG00000128551	ENST00000504154.1:c.1921C>A	4.37:g.20541152C>A	ENSP00000422591:p.Gln641Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLR5|O95710|Q17RU3|Q9Y5Q7	Missense_Mutation	SNP	ENST00000504154.1	37	CCDS3426.1	.	.	.	.	.	.	.	.	.	.	C	17.38	3.376165	0.61735	.	.	ENSG00000145147	ENST00000503823;ENST00000504154;ENST00000273739;ENST00000382173;ENST00000503837	T;T;T;T	0.54866	0.55;0.55;0.55;0.55	5.88	5.88	0.94601	.	0.050442	0.85682	D	0.000000	T	0.42404	0.1201	L	0.38692	1.165	0.58432	D	0.999999	B;P	0.39920	0.008;0.695	B;B	0.32724	0.016;0.151	T	0.26916	-1.0089	10	0.16420	T	0.52	.	20.2187	0.98312	0.0:1.0:0.0:0.0	.	633;641	O94813-3;O94813	.;SLIT2_HUMAN	K	633;641;645;637;637	ENSP00000427548:Q633K;ENSP00000422591:Q641K;ENSP00000273739:Q645K;ENSP00000422261:Q637K	ENSP00000273739:Q645K	Q	+	1	0	SLIT2	20150250	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	6.036000	0.70948	2.780000	0.95670	0.655000	0.94253	CAA		0.378	SLIT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250396.2			A	20541152	C	A	20541152	3	1	582	1	0	0	0	0	1	0	0	0	14753	827	29	4	1995	4	SLIT2	4	20541152	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08		20541152	170613124	11	34544										
MTTP	4547	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr4	100532310	100532310	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	tatgttgcagcaaaattgtcCgtcgagttctgaaggaaatg	11	6	1	1	rs561968572	byFrequency	TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr4:100532310C>T	ENST00000265517.5	+	13	1983	c.1780C>T	c.(1780-1782)Cgt>Tgt	p.R594C	MTTP_ENST00000511045.1_Missense_Mutation_p.R621C|RP11-766F14.1_ENST00000508578.1_RNA|MTTP_ENST00000457717.1_Missense_Mutation_p.R594C			P55157	MTP_HUMAN	microsomal triglyceride transfer protein	594	Vitellogenin. {ECO:0000255|PROSITE- ProRule:PRU00557}.				cholesterol homeostasis (GO:0042632)|lipid metabolic process (GO:0006629)|lipoprotein metabolic process (GO:0042157)|lipoprotein transport (GO:0042953)|protein lipidation (GO:0006497)|response to calcium ion (GO:0051592)|small molecule metabolic process (GO:0044281)|triglyceride metabolic process (GO:0006641)	basolateral plasma membrane (GO:0016323)|brush border membrane (GO:0031526)|endoplasmic reticulum lumen (GO:0005788)|Golgi apparatus (GO:0005794)|membrane-bounded vesicle (GO:0031988)|microvillus membrane (GO:0031528)|receptor complex (GO:0043235)|rough endoplasmic reticulum (GO:0005791)	lipid binding (GO:0008289)|lipid transporter activity (GO:0005319)	p.R594C(1)		breast(3)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(14)|lung(19)|ovary(4)|prostate(5)|skin(1)|urinary_tract(1)	57				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)|Lomitapide(DB08827)	CAAAATTGTCCGTCGAGTTCT	0.398													C|||	2	0.000399361	0.0	0.0	5008	,	,		17310	0.0		0.0	False		,,,				2504	0.002															1	Substitution - Missense(1)	kidney(1)											139	129	132					4																	100532310		2203	4300	6503	SO:0001583	missense	4547				CCDS3651.1, CCDS75169.1	4q24	2008-02-05	2005-11-04	2005-11-04	ENSG00000138823	ENSG00000138823			7467	protein-coding gene	gene with protein product		157147	"microsomal triglyceride transfer protein (large polypeptide, 88kD)", "microsomal triglyceride transfer protein (large polypeptide, 88kDa)"	MTP		8111381	Standard	XM_005263025		Approved	ABL	uc003hvc.4	P55157	OTTHUMG00000131023	ENST00000265517.5:c.1780C>T	4.37:g.100532310C>T	ENSP00000265517:p.Arg594Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K428|Q08AM4|Q6P5T3	Missense_Mutation	SNP	ENST00000265517.5	37	CCDS3651.1	.	.	.	.	.	.	.	.	.	.	C	18.88	3.717701	0.68844	.	.	ENSG00000138823	ENST00000511045;ENST00000457717;ENST00000265517	T;T;T	0.70869	-0.52;-0.52;-0.52	5.84	5.0	0.66597	Lipid transport protein, N-terminal (1);Vitellinogen, superhelical (2);	0.154327	0.64402	D	0.000012	T	0.78155	0.4239	M	0.70595	2.14	0.80722	D	1	D;D	0.69078	0.997;0.995	P;P	0.53185	0.72;0.609	T	0.80979	-0.1140	10	0.62326	D	0.03	-0.3192	14.7905	0.69837	0.0:0.9312:0.0:0.0688	.	621;594	E9PBP6;P55157	.;MTP_HUMAN	C	621;594;594	ENSP00000427679:R621C;ENSP00000400821:R594C;ENSP00000265517:R594C	ENSP00000265517:R594C	R	+	1	0	MTTP	100751333	1.000000	0.71417	0.990000	0.47175	0.613000	0.37349	3.848000	0.55903	1.475000	0.48197	0.655000	0.94253	CGT		0.398	MTTP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253662.3			T	100532310	C	T	100532310	3	4	582	1	0	0	0	0	1	0	0	0	9971	652	23	1	1830	1	MTTP	4	100532310	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08	79991158	100532310	90621966	12	34545										
GOLPH3	64083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	32126321	32126321	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	gttcaccccgagcagagttaCttggtgaacgccgccaccac	10	15	1	2			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr5:32126321C>T	ENST00000265070.6	-	4	1209	c.894G>A	c.(892-894)aaG>aaA	p.K298K	GOLPH3_ENST00000512668.1_5'Flank	NM_022130.3	NP_071413.1	Q9H4A6	GOLP3_HUMAN	golgi phosphoprotein 3 (coat-protein)	298					cell adhesion molecule production (GO:0060352)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|gene expression (GO:0010467)|glycoprotein biosynthetic process (GO:0009101)|Golgi organization (GO:0007030)|Golgi to plasma membrane protein transport (GO:0043001)|Golgi vesicle budding (GO:0048194)|lamellipodium assembly (GO:0030032)|leukocyte tethering or rolling (GO:0050901)|positive regulation of protein secretion (GO:0050714)|positive regulation of TOR signaling (GO:0032008)|protein retention in Golgi apparatus (GO:0045053)|protein secretion (GO:0009306)|regulation of mitochondrion organization (GO:0010821)	cytosol (GO:0005829)|endosome (GO:0005768)|Golgi cisterna (GO:0031985)|Golgi membrane (GO:0000139)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)	enzyme binding (GO:0019899)|phosphatidylinositol-4-phosphate binding (GO:0070273)	p.K298K(1)		kidney(2)|large_intestine(3)|lung(4)|ovary(1)|prostate(1)	11						AGCAGAGTTACTTGGTGAACG	0.488																																																1	Substitution - coding silent(1)	kidney(1)											106	107	106					5																	32126321		2203	4300	6503	SO:0001819	synonymous_variant	64083			AK075156	CCDS3896.1	5p13.2	2008-07-18			ENSG00000113384	ENSG00000113384			15452	protein-coding gene	gene with protein product	"golgi peripheral membrane protein 1, 34 kDa", "golgi protein", "coat-protein", "golgi-associated protein"	612207				11042173, 16263763	Standard	NM_022130		Approved	GPP34, GOPP1, MIDAS	uc003jhp.1	Q9H4A6	OTTHUMG00000090679	ENST00000265070.6:c.894G>A	5.37:g.32126321C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UIW5	Silent	SNP	ENST00000265070.6	37	CCDS3896.1																																																																																				0.488	GOLPH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207363.2	NM_022130		T	32126321	C	T	32126321	2	4	582	1	0	0	0	0	0	0	0	1	6575	564	20	2		2	GOLPH3	5	32126321	Silent	SNP	C	TCGA-EU-5907-01A-11D-1669-08		32126321	148788939	13	34546										
FOXD1	2297	broad.mit.edu	37	chr5	72743654	72743654	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	ttgacgaagcagtcgttgagCgagaggttgtggcggatgct	17	6	0	3	rs1052207		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr5:72743654C>T	ENST00000499003.3	-	1	698	c.534G>A	c.(532-534)tcG>tcA	p.S178S	RP11-79P5.2_ENST00000514661.1_lincRNA|FOXD1_ENST00000513595.1_5'Flank	NM_004472.2	NP_004463.1	Q16676	FOXD1_HUMAN	forkhead box D1	178					axon guidance (GO:0007411)|dichotomous subdivision of terminal units involved in ureteric bud branching (GO:0060678)|metanephric capsule development (GO:0072213)|metanephric capsule specification (GO:0072267)|metanephric nephron development (GO:0072210)|negative regulation of transcription, DNA-templated (GO:0045892)|nephrogenic mesenchyme development (GO:0072076)|positive regulation of BMP signaling pathway (GO:0030513)|positive regulation of gene expression (GO:0010628)|positive regulation of kidney development (GO:0090184)	nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA binding, bending (GO:0008301)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.S178S(2)		endometrium(1)|kidney(1)|lung(2)	4		Lung NSC(167;0.00327)|Ovarian(174;0.0175)|Prostate(461;0.151)		OV - Ovarian serous cystadenocarcinoma(47;1.07e-54)		AGTCGTTGAGCGAGAGGTTGT	0.637																																																2	Substitution - coding silent(2)	kidney(2)											71	86	81					5																	72743654		2203	4299	6502	SO:0001819	synonymous_variant	2297			U59831	CCDS75259.1	5q13.2	2014-06-04			ENSG00000251493	ENSG00000251493		"Forkhead boxes"	3802	protein-coding gene	gene with protein product		601091		FKHL8		7957066, 8825632	Standard	NM_004472		Approved	FREAC4	uc003kcp.3	Q16676	OTTHUMG00000162495	ENST00000499003.3:c.534G>A	5.37:g.72743654C>T		Somatic		WXS	Illumina GAIIx	Phase_I	Q12949	Silent	SNP	ENST00000499003.3	37																																																																																					0.637	FOXD1-001	KNOWN	sequence_error|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000369154.2	NM_004472		T	72743654	C	T	72743654	2	4	582	1	0	0	0	0	0	0	0	1	6003	755	27	1		1	FOXD1	5	72743654	Silent	SNP	C	TCGA-EU-5907-01A-11D-1669-08	40617333	72743654	108171606	14	34547										
UNC5A	90249	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr5	176305475	176305475	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	tcctctctgcatccccatcaGgagatccccttttatcacat	4	16	3	1			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr5:176305475G>A	ENST00000329542.4	+	13	2293		c.e13-1		UNC5A_ENST00000261961.3_Splice_Site	NM_133369.2	NP_588610.2	Q6ZN44	UNC5A_HUMAN	unc-5 homolog A (C. elegans)						anterior/posterior axon guidance (GO:0033564)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|positive regulation of apoptotic process (GO:0043065)|regulation of apoptotic process (GO:0042981)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)		p.?(1)		endometrium(4)|kidney(3)|large_intestine(2)|lung(14)|ovary(1)|pancreas(1)|prostate(1)|skin(6)|upper_aerodigestive_tract(2)	34	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ATCCCCATCAGGAGATCCCCT	0.612																																																1	Unknown(1)	kidney(1)											89	83	85					5																	176305475		2203	4300	6503	SO:0001630	splice_region_variant	90249			AB075856	CCDS34299.1	5q35.3	2013-01-11	2001-11-28		ENSG00000113763	ENSG00000113763		"Immunoglobulin superfamily / I-set domain containing"	12567	protein-coding gene	gene with protein product		607869	"unc5 (C.elegans homolog) a"				Standard	XM_006714927		Approved	KIAA1976, UNC5H1	uc003mey.3	Q6ZN44	OTTHUMG00000163225	ENST00000329542.4:c.2020-1G>A	5.37:g.176305475G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RXE6|Q8TF26|Q96GP4	Splice_Site	SNP	ENST00000329542.4	37	CCDS34299.1	.	.	.	.	.	.	.	.	.	.	G	22.3	4.275028	0.80580	.	.	ENSG00000113763	ENST00000329542;ENST00000261961	.	.	.	5.6	5.6	0.85130	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	18.176	0.89761	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	UNC5A	176238081	1.000000	0.71417	1.000000	0.80357	0.926000	0.56050	9.860000	0.99555	2.641000	0.89580	0.491000	0.48974	.		0.612	UNC5A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372166.1	XM_030300	Intron	A	176305475	G	A	176305475	5	1	582	1	0	0	0	0	0	0	1	0	17003	1014	35	2	2069	2	UNC5A	5	176305475	Splice_Site	SNP	G	TCGA-EU-5907-01A-11D-1669-08	103561821	176305475	4609785	15	34548										
MRPL2	51069	broad.mit.edu;hgsc.bcm.edu	37	chr6	43024130	43024130	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	ccggaaacgcagaaagtcaaTcattcgataacgttgcttgt	9	9	2	1			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr6:43024130T>G	ENST00000388752.3	-	3	743	c.319A>C	c.(319-321)Att>Ctt	p.I107L	CUL7_ENST00000535468.1_5'Flank|MRPL2_ENST00000230413.5_Missense_Mutation_p.I107L|CUL7_ENST00000265348.3_5'Flank|MRPL2_ENST00000489623.1_Intron	NM_015950.3	NP_057034.2	Q5T653	RM02_HUMAN	mitochondrial ribosomal protein L2	107					translation (GO:0006412)	mitochondrion (GO:0005739)|ribosome (GO:0005840)	poly(A) RNA binding (GO:0044822)|structural constituent of ribosome (GO:0003735)	p.I107L(1)		breast(1)|endometrium(2)|kidney(3)|large_intestine(1)|lung(2)	9		Ovarian(999;0.0014)	Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00708)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)	BRCA - Breast invasive adenocarcinoma(397;0.0026)		AGAAAGTCAATCATTCGATAA	0.512																																																1	Substitution - Missense(1)	kidney(1)											93	82	86					6																	43024130		2203	4300	6503	SO:0001583	missense	51069			AB051617	CCDS34454.1, CCDS75458.1	6p21.3	2012-09-13			ENSG00000112651	ENSG00000112651		"Mitochondrial ribosomal proteins / large subunits"	14056	protein-coding gene	gene with protein product		611822					Standard	XM_005249161		Approved	MRP-L14, RPML14, CGI-22	uc003ots.1	Q5T653	OTTHUMG00000014719	ENST00000388752.3:c.319A>C	6.37:g.43024130T>G	ENSP00000373404:p.Ile107Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RC56|Q8WUL1|Q96Q56|Q9Y311	Missense_Mutation	SNP	ENST00000388752.3	37	CCDS34454.1	.	.	.	.	.	.	.	.	.	.	t	18.54	3.646818	0.67358	.	.	ENSG00000112651	ENST00000388752;ENST00000230413	T	0.51817	0.69	5.86	5.86	0.93980	Nucleic acid-binding, OB-fold-like (1);Ribosomal Proteins L2, RNA binding domain (1);Nucleic acid-binding, OB-fold (1);	0.051433	0.85682	D	0.000000	T	0.65428	0.2690	M	0.91768	3.24	0.80722	D	1	D;B	0.57899	0.981;0.137	P;B	0.58077	0.832;0.063	T	0.75277	-0.3374	10	0.87932	D	0	-13.5974	14.8262	0.70113	0.0:0.0:0.0:1.0	.	107;107	B4DVE2;Q5T653	.;RM02_HUMAN	L	107	ENSP00000373404:I107L	ENSP00000230413:I107L	I	-	1	0	MRPL2	43132108	1.000000	0.71417	1.000000	0.80357	0.913000	0.54294	2.413000	0.44618	2.239000	0.73571	0.529000	0.55759	ATT		0.512	MRPL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040577.2			G	43024130	T	G	43024130	3	3	582	1	0	0	0	0	1	0	0	0	9792	1435	50	5	618	5	MRPL2	6	43024130	Missense_Mutation	SNP	T	TCGA-EU-5907-01A-11D-1669-08		43024130	128090937	16	34549										
MET	4233	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	116380121	116380121	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	accaaaatggctacacactgGttatcactgggaagaaggta	10	8	1	1	rs587780735		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr7:116380121G>C	ENST00000318493.6	+	4	1697	c.1510G>C	c.(1510-1512)Gtt>Ctt	p.V504L	MET_ENST00000495962.1_3'UTR|MET_ENST00000436117.2_Missense_Mutation_p.V504L|MET_ENST00000397752.3_Missense_Mutation_p.V504L			Q9NWH9	SLTM_HUMAN	MET proto-oncogene, receptor tyrosine kinase	0					apoptotic process (GO:0006915)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)	p.V504L(1)		NS(10)|breast(4)|central_nervous_system(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|kidney(25)|large_intestine(8)|liver(3)|lung(70)|ovary(10)|pleura(2)|prostate(4)|skin(5)|stomach(6)|testis(1)|thyroid(4)|upper_aerodigestive_tract(64)|urinary_tract(3)	233	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			CTACACACTGGTTATCACTGG	0.443			Mis		"papillary renal, head-neck squamous cell "	papillary renal			Hereditary Papillary Renal Carcinoma (type 1)																														Dom	yes	Familial Papillary Renal Cancer	7	7q31	4233	met proto-oncogene (hepatocyte growth factor receptor)		E	1	Substitution - Missense(1)	kidney(1)											151	133	139					7																	116380121		1871	4102	5973	SO:0001583	missense	4233	Familial Cancer Database	HPRC, Hereditary Papillary Renal Cell Cancer	M35073	CCDS43636.1, CCDS47689.1	7q31	2014-09-17	2014-06-26		ENSG00000105976	ENSG00000105976	2.7.10.1		7029	protein-coding gene	gene with protein product	"hepatocyte growth factor receptor"	164860	"met proto-oncogene"			1846706, 1611909	Standard	NM_001127500		Approved	HGFR, RCCP2	uc010lkh.3	P08581	OTTHUMG00000023299	ENST00000318493.6:c.1510G>C	7.37:g.116380121G>C	ENSP00000317272:p.Val504Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5V8|B2RTX3|Q2VPK7|Q52MB3|Q658J7|Q6ZNF2|Q86TK6|Q9H7C3|Q9H8U9	Missense_Mutation	SNP	ENST00000318493.6	37	CCDS47689.1	.	.	.	.	.	.	.	.	.	.	G	12.42	1.933589	0.34096	.	.	ENSG00000105976	ENST00000397752;ENST00000318493;ENST00000436117	T;T;T	0.06294	3.32;3.32;3.32	5.91	5.91	0.95273	WD40/YVTN repeat-like-containing domain (1);Semaphorin/CD100 antigen (2);	0.178797	0.49916	D	0.000132	T	0.10981	0.0268	L	0.58428	1.81	0.80722	D	1	P;B;B;B;B;B;B;B;B;P	0.47302	0.893;0.003;0.245;0.005;0.005;0.009;0.009;0.052;0.057;0.891	B;B;B;B;B;B;B;B;B;B	0.41946	0.371;0.019;0.118;0.019;0.019;0.019;0.028;0.036;0.046;0.338	T	0.16512	-1.0400	10	0.22109	T	0.4	.	20.2896	0.98541	0.0:0.0:1.0:0.0	.	504;504;504;504;504;504;504;504;504;504	B5A929;E7EQ94;B5A930;B5A934;B5A936;B5A937;B5A939;B5A941;P08581-2;P08581	.;.;.;.;.;.;.;.;.;MET_HUMAN	L	504	ENSP00000380860:V504L;ENSP00000317272:V504L;ENSP00000410980:V504L	ENSP00000317272:V504L	V	+	1	0	MET	116167357	1.000000	0.71417	0.952000	0.39060	0.875000	0.50365	4.475000	0.60210	2.794000	0.96219	0.655000	0.94253	GTT		0.443	MET-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059620.3			C	116380121	G	C	116380121	3	2	582	1	0	0	0	0	1	0	0	0	9492	1261	44	4	1520	4	MET	7	116380121	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08		116380121	42758542	17	34550										
AASS	10157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr7	121717991	121717991	+	Frame_Shift_Del	DEL	T	T	-													0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	ataagccacaagatcaatcgTtttatgttctaaatgtccag							TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr7:121717991delT	ENST00000393376.1	-	22	2658	c.2563delA	c.(2563-2565)acgfs	p.T855fs	AASS_ENST00000417368.2_Frame_Shift_Del_p.T855fs|AASS_ENST00000473553.1_5'UTR			Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase	855	Saccharopine dehydrogenase.				cellular nitrogen compound metabolic process (GO:0034641)|L-lysine catabolic process to acetyl-CoA via saccharopine (GO:0033512)|lysine catabolic process (GO:0006554)|protein tetramerization (GO:0051262)|small molecule metabolic process (GO:0044281)	intracellular membrane-bounded organelle (GO:0043231)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity (GO:0047131)|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity (GO:0047130)	p.T855P(1)		autonomic_ganglia(1)|breast(2)|endometrium(3)|kidney(6)|large_intestine(12)|lung(27)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	54						AGATCAATCGTTTTATGTTCT	0.413																																																1	Substitution - Missense(1)	large_intestine(1)											272	286	281					7																	121717991		2203	4300	6503	SO:0001589	frameshift_variant	10157			AF229180	CCDS5783.1	7q31.3	2010-12-14			ENSG00000008311	ENSG00000008311			17366	protein-coding gene	gene with protein product		605113				10775527	Standard	NM_005763		Approved	LORSDH, LKRSDH	uc003vkb.3	Q9UDR5	OTTHUMG00000157058	ENST00000393376.1:c.2563delA	7.37:g.121717991delT	ENSP00000377040:p.Thr855fs	Somatic		WXS	Illumina HiSeq	Phase_I	O95462	Frame_Shift_Del	DEL	ENST00000393376.1	37	CCDS5783.1																																																																																				0.413	AASS-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347300.1	NM_005763		-	121717991	T	-	121717991	7	5	582	1	0	1	0	1	0	0	0	0	24	1725	60	0	225	0	AASS	7	121717991	Frame_Shift_Del	DEL	T	TCGA-EU-5907-01A-11D-1669-08	5337870	121717991	37420672	18	34551										
ATP6V1B2	526	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	20075680	20075680	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	ttagtatgcgtgctatgctaTtggaaaggatgtgcaagcca	12	6	0	0			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr8:20075680T>C	ENST00000276390.2	+	13	1323	c.1283T>C	c.(1282-1284)aTt>aCt	p.I428T		NM_001693.3	NP_001684.2	P21281	VATB2_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B2	428					ATP hydrolysis coupled proton transport (GO:0015991)|cellular iron ion homeostasis (GO:0006879)|insulin receptor signaling pathway (GO:0008286)|interaction with host (GO:0051701)|phagosome maturation (GO:0090382)|proton transport (GO:0015992)|transferrin transport (GO:0033572)|transmembrane transport (GO:0055085)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal membrane (GO:0005765)|microvillus (GO:0005902)|plasma membrane (GO:0005886)|proton-transporting V-type ATPase, V1 domain (GO:0033180)|ruffle (GO:0001726)	ATP binding (GO:0005524)|hydrogen ion transmembrane transporter activity (GO:0015078)|proton-transporting ATPase activity, rotational mechanism (GO:0046961)	p.I428T(1)		endometrium(1)|kidney(2)|lung(5)|prostate(1)	9				Colorectal(74;0.0535)|COAD - Colon adenocarcinoma(73;0.211)	Gallium nitrate(DB05260)	TGCTATGCTATTGGAAAGGAT	0.438																																					Pancreas(119;1230 1726 3901 4036 31644)											1	Substitution - Missense(1)	kidney(1)											158	144	149					8																	20075680		2203	4300	6503	SO:0001583	missense	526			L35249	CCDS6014.1	8p21.3	2010-04-21	2006-01-13	2002-05-10	ENSG00000147416	ENSG00000147416	3.6.3.14	"ATPases / V-type"	854	protein-coding gene	gene with protein product		606939	"ATPase, H+ transporting, lysosomal (vacuolar proton pump), beta polypeptide, 56/58kD, isoform 2", "ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 2"	VPP3, ATP6B2		2145275, 14580332	Standard	NM_001693		Approved	VATB, Vma2, HO57	uc003wzp.3	P21281	OTTHUMG00000131073	ENST00000276390.2:c.1283T>C	8.37:g.20075680T>C	ENSP00000276390:p.Ile428Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5Z3|D3DSQ5|Q14544|Q15859|Q96IR0	Missense_Mutation	SNP	ENST00000276390.2	37	CCDS6014.1	.	.	.	.	.	.	.	.	.	.	T	21.2	4.105844	0.77096	.	.	ENSG00000147416	ENST00000276390;ENST00000542368	T	0.75938	-0.98	5.56	5.56	0.83823	ATPase, F1/V1/A1 complex, alpha/beta subunit, C-terminal (1);	0.000000	0.85682	D	0.000000	T	0.77471	0.4135	M	0.79614	2.46	0.80722	D	1	B	0.30793	0.295	B	0.36186	0.219	T	0.76745	-0.2846	10	0.42905	T	0.14	-31.3571	14.8249	0.70104	0.0:0.0:0.0:1.0	.	428	P21281	VATB2_HUMAN	T	428;302	ENSP00000276390:I428T	ENSP00000276390:I428T	I	+	2	0	ATP6V1B2	20119960	1.000000	0.71417	0.819000	0.32651	0.787000	0.44495	6.295000	0.72744	2.241000	0.73720	0.533000	0.62120	ATT		0.438	ATP6V1B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253732.1	NM_001693		C	20075680	T	C	20075680	3	2	582	1	0	0	0	0	1	0	0	0	1179	1493	52	3	1333	3	ATP6V1B2	8	20075680	Missense_Mutation	SNP	T	TCGA-EU-5907-01A-11D-1669-08		20075680	126288342	19	34552										
PKHD1L1	93035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr8	110477389	110477389	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	tggagtgcaaagtttgttgaCgtccagtattctcacacacc	9	10	1	1	rs376156063		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr8:110477389C>T	ENST00000378402.5	+	49	8432	c.8328C>T	c.(8326-8328)gaC>gaT	p.D2776D		NM_177531.4	NP_803875.2	Q86WI1	PKHL1_HUMAN	polycystic kidney and hepatic disease 1 (autosomal recessive)-like 1	2776					immune response (GO:0006955)	cytosol (GO:0005829)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)	receptor activity (GO:0004872)	p.D2778D(2)		NS(4)|breast(13)|central_nervous_system(6)|cervix(1)|endometrium(19)|kidney(17)|large_intestine(34)|lung(122)|ovary(11)|pancreas(3)|prostate(9)|skin(3)|stomach(4)|upper_aerodigestive_tract(13)|urinary_tract(4)	263			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			AGTTTGTTGACGTCCAGTATT	0.433										HNSCC(38;0.096)																																						2	Substitution - coding silent(2)	prostate(1)|kidney(1)						C		0,3904		0,0,1952	106	108	108		8328	4	0.2	8		108	1,8275		0,1,4137	no	coding-synonymous	PKHD1L1	NM_177531.4		0,1,6089	TT,TC,CC		0.0121,0.0,0.0082		2776/4244	110477389	1,12179	1952	4138	6090	SO:0001819	synonymous_variant	93035			AY219181	CCDS47911.1	8q23	2003-03-28			ENSG00000205038	ENSG00000205038			20313	protein-coding gene	gene with protein product		607843				12620974	Standard	NM_177531		Approved		uc003yne.3	Q86WI1	OTTHUMG00000164934	ENST00000378402.5:c.8328C>T	8.37:g.110477389C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q567P2|Q9UF27	Silent	SNP	ENST00000378402.5	37	CCDS47911.1																																																																																				0.433	PKHD1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381017.1	NM_177531		T	110477389	C	T	110477389	2	4	582	1	0	0	0	0	0	0	0	1	11979	535	19	1		1	PKHD1L1	8	110477389	Silent	SNP	C	TCGA-EU-5907-01A-11D-1669-08	90401709	110477389	35886633	20	34553										
FLJ46321	389763	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr9	84605805	84605805	+	Silent	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	aagagagcaactgctgatatCcagcaactgctgtcttggga	11	9	1	2			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr9:84605805C>A	ENST00000344803.2	+	4	467	c.420C>A	c.(418-420)atC>atA	p.I140I		NM_001001670.2	NP_001001670.1	Q6ZQQ2	S31D1_HUMAN	SPATA31 subfamily D, member 1	140					cell differentiation (GO:0030154)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)		p.I140I(2)									CTGCTGATATCCAGCAACTGC	0.552																																																2	Substitution - coding silent(2)	kidney(2)											123	119	120					9																	84605805		1997	4163	6160	SO:0001819	synonymous_variant	0				CCDS47986.1	9q21.32	2012-10-12	2012-10-12	2012-10-12	ENSG00000214929	ENSG00000214929			37283	protein-coding gene	gene with protein product			"family with sequence similarity 75, member D1"	FAM75D1			Standard	NM_001001670		Approved	FLJ46321	uc004amn.3	Q6ZQQ2	OTTHUMG00000169122	ENST00000344803.2:c.420C>A	9.37:g.84605805C>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000344803.2	37	CCDS47986.1																																																																																				0.552	SPATA31D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402325.1	NM_001001670		A	84605805	C	A	84605805	2	1	582	1	0	0	0	0	0	0	0	1	5939	845	30	4		4	FLJ46321	9	84605805	Silent	SNP	C	TCGA-EU-5907-01A-11D-1669-08		84605805	56607626	21	34554										
MYO3A	53904	broad.mit.edu;ucsc.edu	37	chr10	26463158	26463158	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	gatatgcagccaggaggaagGcagaggccgtctgaggcatg	17	8	1	2			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr10:26463158G>T	ENST00000265944.5	+	30	4131	c.3965G>T	c.(3964-3966)gGc>gTc	p.G1322V	MYO3A_ENST00000543632.1_Intron	NM_017433.4	NP_059129.3	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1322					ATP catabolic process (GO:0006200)|inner ear development (GO:0048839)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|positive regulation of filopodium assembly (GO:0051491)|protein autophosphorylation (GO:0046777)|response to stimulus (GO:0050896)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|filamentous actin (GO:0031941)|filopodium (GO:0030175)|filopodium tip (GO:0032433)|myosin complex (GO:0016459)|photoreceptor inner segment (GO:0001917)|stereocilium bundle tip (GO:0032426)	actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|calmodulin binding (GO:0005516)|microfilament motor activity (GO:0000146)|plus-end directed microfilament motor activity (GO:0060002)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)	p.G1322V(1)		NS(2)|breast(9)|central_nervous_system(3)|endometrium(9)|kidney(10)|large_intestine(28)|liver(1)|lung(46)|ovary(11)|pancreas(1)|prostate(6)|skin(11)|stomach(6)|upper_aerodigestive_tract(1)|urinary_tract(2)	146						CAGGAGGAAGGCAGAGGCCGT	0.478																																																1	Substitution - Missense(1)	kidney(1)											124	131	129					10																	26463158		2203	4300	6503	SO:0001583	missense	53904			AF229172	CCDS7148.1	10p11.1	2011-09-27	2004-05-19		ENSG00000095777	ENSG00000095777		"Myosins / Myosin superfamily : Class III"	7601	protein-coding gene	gene with protein product		606808	"deafness, autosomal recessive 30"	DFNB30		10936054	Standard	NM_017433		Approved		uc001isn.2	Q8NEV4	OTTHUMG00000017837	ENST00000265944.5:c.3965G>T	10.37:g.26463158G>T	ENSP00000265944:p.Gly1322Val	Somatic		WXS	Illumina GAIIx	Phase_I	Q4G0X2|Q5VZ28|Q8WX17|Q9NYS8	Missense_Mutation	SNP	ENST00000265944.5	37	CCDS7148.1	.	.	.	.	.	.	.	.	.	.	G	1.657	-0.512406	0.04200	.	.	ENSG00000095777	ENST00000265944	T	0.78481	-1.18	0.158	0.158	0.14942	.	0.707258	0.12423	U	0.470276	T	0.52565	0.1742	N	0.08118	0	0.09310	N	1	B	0.16396	0.017	B	0.08055	0.003	T	0.42172	-0.9467	10	0.54805	T	0.06	.	2.9707	0.05922	2.0E-4:2.0E-4:0.5121:0.4875	.	1322	Q8NEV4	MYO3A_HUMAN	V	1322	ENSP00000265944:G1322V	ENSP00000265944:G1322V	G	+	2	0	MYO3A	26503164	0.014000	0.17966	0.003000	0.11579	0.005000	0.04900	0.251000	0.18257	0.202000	0.20498	0.205000	0.17691	GGC		0.478	MYO3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047259.1	NM_017433		T	26463158	G	T	26463158	3	4	582	1	0	0	0	0	1	0	0	0	10083	1203	42	4	4075	4	MYO3A	10	26463158	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08		26463158	109071589	22	34555										
ZMIZ1	57178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr10	81065919	81065919	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	gcggccggtgcccatcaagtCggacttacacatcaaggacg	12	13	2	0			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr10:81065919C>T	ENST00000334512.5	+	22	3058	c.2486C>T	c.(2485-2487)tCg>tTg	p.S829L	ZMIZ1_ENST00000446377.2_5'Flank	NM_020338.3	NP_065071.1	Q9ULJ6	ZMIZ1_HUMAN	zinc finger, MIZ-type containing 1	829					artery morphogenesis (GO:0048844)|cell aging (GO:0007569)|developmental growth (GO:0048589)|heart morphogenesis (GO:0003007)|in utero embryonic development (GO:0001701)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)|vasculogenesis (GO:0001570)|vitellogenesis (GO:0007296)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	zinc ion binding (GO:0008270)	p.S829L(1)		breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(14)|ovary(2)|prostate(3)|skin(1)	30	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			CCCATCAAGTCGGACTTACAC	0.592																																																1	Substitution - Missense(1)	kidney(1)											75	64	68					10																	81065919		2203	4300	6503	SO:0001583	missense	57178			AB033050	CCDS7357.1	10q22.3	2012-11-30	2006-10-24	2006-10-24	ENSG00000108175	ENSG00000108175		"Zinc fingers, MIZ-type"	16493	protein-coding gene	gene with protein product		607159	"retinoic acid induced 17"	RAI17		15626329	Standard	NM_020338		Approved	RP11-519K18.1, KIAA1224, FLJ13541, hZIMP10, Zimp10, MIZ	uc001kaf.2	Q9ULJ6	OTTHUMG00000018560	ENST00000334512.5:c.2486C>T	10.37:g.81065919C>T	ENSP00000334474:p.Ser829Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JSH9|Q7Z7E6	Missense_Mutation	SNP	ENST00000334512.5	37	CCDS7357.1	.	.	.	.	.	.	.	.	.	.	C	20.6	4.014388	0.75161	.	.	ENSG00000108175	ENST00000334512;ENST00000360331;ENST00000372347	T	0.34072	1.38	4.87	4.87	0.63330	.	0.000000	0.35096	N	0.003457	T	0.33904	0.0879	L	0.47190	1.495	0.80722	D	1	B	0.30741	0.293	B	0.24848	0.056	T	0.12319	-1.0552	10	0.38643	T	0.18	-7.9231	18.389	0.90475	0.0:1.0:0.0:0.0	.	829	Q9ULJ6	ZMIZ1_HUMAN	L	829;759;731	ENSP00000334474:S829L	ENSP00000334474:S829L	S	+	2	0	ZMIZ1	80735925	1.000000	0.71417	0.998000	0.56505	0.993000	0.82548	7.458000	0.80787	2.418000	0.82041	0.491000	0.48974	TCG		0.592	ZMIZ1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048944.2	NM_020338		T	81065919	C	T	81065919	3	4	582	1	0	0	0	0	1	0	0	0	17708	893	31	1	2556	1	ZMIZ1	10	81065919	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08	54602761	81065919	54468828	23	34556										
PTEN	5728	broad.mit.edu;hgsc.bcm.edu	37	chr10	89692880	89692893	+	Frame_Shift_Del	DEL	ATTCACTGTAAAGC	ATTCACTGTAAAGC	-													0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	atgacaatcatgttgcagcaAttcactgtaaagctggaaag					rs121909222|rs121909223		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	ATTCACTGTAAAGC	ATTCACTGTAAAGC	ATTCACTGTAAAGC	-	ATTCACTGTAAAGC	ATTCACTGTAAAGC	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr10:89692880_89692893delATTCACTGTAAAGC	ENST00000371953.3	+	5	1721_1734	c.364_377delATTCACTGTAAAGC	c.(364-378)attcactgtaaagctfs	p.IHCKA122fs		NM_000314.4	NP_000305.3	P60484	PTEN_HUMAN	phosphatase and tensin homolog	122	Phosphatase tensin-type. {ECO:0000255|PROSITE-ProRule:PRU00590}.				activation of mitotic anaphase-promoting complex activity (GO:0007092)|aging (GO:0007568)|angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|brain morphogenesis (GO:0048854)|canonical Wnt signaling pathway (GO:0060070)|cardiac muscle tissue development (GO:0048738)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|central nervous system development (GO:0007417)|central nervous system myelin maintenance (GO:0032286)|central nervous system neuron axonogenesis (GO:0021955)|dendritic spine morphogenesis (GO:0060997)|dentate gyrus development (GO:0021542)|endothelial cell migration (GO:0043542)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|forebrain morphogenesis (GO:0048853)|heart development (GO:0007507)|innate immune response (GO:0045087)|inositol phosphate dephosphorylation (GO:0046855)|inositol phosphate metabolic process (GO:0043647)|learning or memory (GO:0007611)|locomotor rhythm (GO:0045475)|locomotory behavior (GO:0007626)|long term synaptic depression (GO:0060292)|long-term synaptic potentiation (GO:0060291)|male mating behavior (GO:0060179)|maternal behavior (GO:0042711)|memory (GO:0007613)|multicellular organismal response to stress (GO:0033555)|negative regulation of apoptotic process (GO:0043066)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell aging (GO:0090344)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031658)|negative regulation of dendritic spine morphogenesis (GO:0061002)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of myelination (GO:0031642)|negative regulation of organ growth (GO:0046621)|negative regulation of phagocytosis (GO:0050765)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of ribosome biogenesis (GO:0090071)|negative regulation of synaptic vesicle clustering (GO:2000808)|neuron-neuron synaptic transmission (GO:0007270)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell proliferation (GO:0008284)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|postsynaptic density assembly (GO:0097107)|prepulse inhibition (GO:0060134)|presynaptic membrane assembly (GO:0097105)|prostate gland growth (GO:0060736)|protein dephosphorylation (GO:0006470)|protein kinase B signaling (GO:0043491)|protein stabilization (GO:0050821)|regulation of B cell apoptotic process (GO:0002902)|regulation of cellular component size (GO:0032535)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of myeloid cell apoptotic process (GO:0033032)|regulation of neuron projection development (GO:0010975)|regulation of protein stability (GO:0031647)|response to arsenic-containing substance (GO:0046685)|response to ATP (GO:0033198)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to ethanol (GO:0045471)|response to glucose (GO:0009749)|response to nutrient (GO:0007584)|response to zinc ion (GO:0010043)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synapse maturation (GO:0060074)|T cell receptor signaling pathway (GO:0050852)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|extracellular region (GO:0005576)|mitochondrion (GO:0005739)|myelin sheath adaxonal region (GO:0035749)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|Schmidt-Lanterman incisure (GO:0043220)	anaphase-promoting complex binding (GO:0010997)|enzyme binding (GO:0019899)|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity (GO:0051717)|lipid binding (GO:0008289)|magnesium ion binding (GO:0000287)|PDZ domain binding (GO:0030165)|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity (GO:0016314)|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity (GO:0051800)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|phosphoprotein phosphatase activity (GO:0004721)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)	p.0?(37)|p.C124S(7)|p.A126T(6)|p.?(5)|p.R55fs*1(5)|p.H123Y(5)|p.C124fs*10(3)|p.I122fs*2(3)|p.A126D(3)|p.K125N(2)|p.K125E(2)|p.A126V(2)|p.Y27fs*1(2)|p.A126S(2)|p.A126P(2)|p.C124F(1)|p.I122N(1)|p.I122S(1)|p.A121_F145del(1)|p.C124R(1)|p.F56fs*2(1)|p.C124Y(1)|p.A126fs*8(1)|p.H123D(1)|p.K125*(1)		NS(28)|autonomic_ganglia(2)|biliary_tract(6)|bone(5)|breast(92)|central_nervous_system(676)|cervix(26)|endometrium(1068)|eye(8)|haematopoietic_and_lymphoid_tissue(137)|kidney(24)|large_intestine(98)|liver(20)|lung(91)|meninges(2)|oesophagus(2)|ovary(82)|pancreas(6)|prostate(129)|salivary_gland(5)|skin(127)|soft_tissue(19)|stomach(30)|testis(1)|thyroid(29)|upper_aerodigestive_tract(29)|urinary_tract(12)|vulva(17)	2771		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TGTTGCAGCAATTCACTGTAAAGCTGGAAAGGGA	0.407		31	"D, Mis, N, F, S"		"glioma,  prostate, endometrial"	"harmartoma, glioma,  prostate, endometrial"			Proteus syndrome;Juvenile Polyposis;Hereditary Mixed Polyposis Syndrome type 1;Cowden syndrome;Bannayan-Riley-Ruvalcaba syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)																												yes	Rec	yes	"Cowden Syndrome, Bannayan-Riley-Ruvalcaba syndrome"	10	10q23.3	5728	phosphatase and tensin homolog gene		"L, E, M, O"	96	Whole gene deletion(37)|Substitution - Missense(37)|Deletion - Frameshift(15)|Unknown(5)|Deletion - In frame(1)|Substitution - Nonsense(1)	central_nervous_system(27)|endometrium(19)|prostate(16)|lung(8)|skin(6)|breast(5)|haematopoietic_and_lymphoid_tissue(4)|ovary(4)|large_intestine(3)|thyroid(1)|stomach(1)|soft_tissue(1)|urinary_tract(1)	GRCh37	CI004327|CM020755|CM041823|CM971270|CM971271	PTEN	I|M	rs121909222|rs121909223																																			SO:0001589	frameshift_variant	5728	Familial Cancer Database	Incl.: Encephalocraniocutaneous Lipomatosis, ECCL, Proteus-like s.;incl.: Juvenile Polyposis of the Stomach;HMPS1, Colorectal Adenoma Carcinoma syndrome, CRAC, CRAC1;CS, Cowden disease, Multiple Hamartoma Syndrome, incl.: Lhermitte-Duclos; part of PTEN hamartoma tumour syndrome (PHTS) / PTEN-MATCHS, Cowden-like syndrome;subset of PTEN-Hamartoma Tumor Syndrome; incl.: Ruvalcaba-Myhre-Smith s.	U92436	CCDS31238.1	10q23	2014-09-17	2008-07-31		ENSG00000171862	ENSG00000171862		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs"	9588	protein-coding gene	gene with protein product	"mutated in multiple advanced cancers 1"	601728		BZS, MHAM		9090379	Standard	NM_000314		Approved	MMAC1, TEP1, PTEN1	uc001kfb.3	P60484	OTTHUMG00000018688	ENST00000371953.3:c.364_377delATTCACTGTAAAGC	10.37:g.89692880_89692893delATTCACTGTAAAGC	ENSP00000361021:p.Ile122fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R904|F2YHV0|O00633|O02679|Q6ICT7	Frame_Shift_Del	DEL	ENST00000371953.3	37	CCDS31238.1																																																																																				0.407	PTEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049241.1	NM_000314		-	89692893	ATTCACTGTAAAGC	-	89692880	7	5	582	1	0	1	0	1	0	0	0	0	12748	101	4	0	382	0	PTEN	10	89692880	Frame_Shift_Del	DEL	ATTCACTGTAAAGC	TCGA-EU-5907-01A-11D-1669-08	8626961	89692880	45841867	24	34557										
EIF3A	8661	broad.mit.edu;hgsc.bcm.edu	37	chr10	120832959	120832959	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	tctaacccacatacctctcaGgagtttgaatattatctaga	5	10	3	2			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr10:120832959G>A	ENST00000369144.3	-	3	498	c.371C>T	c.(370-372)cCt>cTt	p.P124L	EIF3A_ENST00000541549.1_Missense_Mutation_p.P90L	NM_003750.2	NP_003741.1	P56537	IF6_HUMAN	eukaryotic translation initiation factor 3, subunit A	0					mature ribosome assembly (GO:0042256)|ribosomal large subunit biogenesis (GO:0042273)|ribosomal subunit export from nucleus (GO:0000054)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|lamin filament (GO:0005638)|nucleus (GO:0005634)	ribosomal large subunit binding (GO:0043023)|ribosome binding (GO:0043022)|translation initiation factor activity (GO:0003743)	p.P124L(1)		endometrium(8)|kidney(4)|large_intestine(14)|lung(22)|prostate(1)|skin(4)|urinary_tract(3)	56		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		ATACCTCTCAGGAGTTTGAAT	0.353																																																1	Substitution - Missense(1)	kidney(1)											106	109	108					10																	120832959		2203	4299	6502	SO:0001583	missense	8661			U78311	CCDS7608.1	10q26.11	2007-08-03	2007-07-27	2007-07-27	ENSG00000107581	ENSG00000107581			3271	protein-coding gene	gene with protein product		602039	"eukaryotic translation initiation factor 3, subunit 10 theta, 150/170kDa"	EIF3, EIF3S10		9054404, 8590280	Standard	NM_003750		Approved	eIF3-theta, eIF3-p170, KIAA0139, eIF3a, TIF32	uc001ldu.3	Q14152	OTTHUMG00000019144	ENST00000369144.3:c.371C>T	10.37:g.120832959G>A	ENSP00000358140:p.Pro124Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBG9|Q6IBN8|Q96TD5	Missense_Mutation	SNP	ENST00000369144.3	37	CCDS7608.1	.	.	.	.	.	.	.	.	.	.	G	22.8	4.333633	0.81801	.	.	ENSG00000107581	ENST00000369144;ENST00000541549	T;T	0.45668	0.89;0.89	6.17	6.17	0.99709	.	0.000000	0.39146	N	0.001446	T	0.73837	0.3638	M	0.90650	3.135	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.77107	-0.2710	10	0.87932	D	0	-22.9813	20.8794	0.99867	0.0:0.0:1.0:0.0	.	124	Q14152	EIF3A_HUMAN	L	124;90	ENSP00000358140:P124L;ENSP00000438178:P90L	ENSP00000358140:P124L	P	-	2	0	EIF3A	120822949	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.827000	0.99397	2.941000	0.99782	0.655000	0.94253	CCT		0.353	EIF3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050634.1	NM_003750		A	120832959	G	A	120832959	3	1	582	1	0	0	0	0	1	0	0	0	5014	1000	35	2	3857	2	EIF3A	10	120832959	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	31140079	120832959	14701788	25	34558										
HPS5	11234	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	18303659	18303659	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	ccacattgatgggggaaggcCcatcactgaggctcccattt	11	12	1	2			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr11:18303659C>G	ENST00000349215.3	-	22	3444	c.3167G>C	c.(3166-3168)gGg>gCg	p.G1056A	HPS5_ENST00000438420.2_Missense_Mutation_p.G942A|HPS5_ENST00000396253.3_Missense_Mutation_p.G942A|HPS5_ENST00000537258.1_Missense_Mutation_p.G163A|HPS5_ENST00000352460.3_5'UTR	NM_181507.1	NP_852608.1	Q9UPZ3	HPS5_HUMAN	Hermansky-Pudlak syndrome 5	1056					blood coagulation (GO:0007596)|organelle organization (GO:0006996)|pigmentation (GO:0043473)	BLOC-2 complex (GO:0031084)		p.G1056A(1)		breast(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(17)|ovary(1)|pancreas(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	30						GGGGGAAGGCCCATCACTGAG	0.562									Hermansky-Pudlak syndrome																																							1	Substitution - Missense(1)	kidney(1)											84	79	81					11																	18303659		2199	4293	6492	SO:0001583	missense	11234	Familial Cancer Database	HPS, HPS1-8	AB023234	CCDS7836.1, CCDS7837.1	11p14	2014-06-18			ENSG00000110756	ENSG00000110756			17022	protein-coding gene	gene with protein product		607521				10231032, 10094488	Standard	NM_181507		Approved		uc001mod.1	Q9UPZ3	OTTHUMG00000166612	ENST00000349215.3:c.3167G>C	11.37:g.18303659C>G	ENSP00000265967:p.Gly1056Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6J8|A8K8S1|D3DQX9|D3DQY0|O95942|Q8N4U0	Missense_Mutation	SNP	ENST00000349215.3	37	CCDS7836.1	.	.	.	.	.	.	.	.	.	.	C	15.16	2.752175	0.49362	.	.	ENSG00000110756	ENST00000396253;ENST00000438420;ENST00000349215;ENST00000537258	T;T;T	0.53857	0.6;0.6;0.6	4.82	3.92	0.45320	.	0.777924	0.12207	N	0.489725	T	0.33962	0.0881	N	0.19112	0.55	0.80722	D	1	P	0.34615	0.459	B	0.33960	0.173	T	0.09751	-1.0660	10	0.02654	T	1	.	13.0027	0.58685	0.0:0.9222:0.0:0.0778	.	1056	Q9UPZ3	HPS5_HUMAN	A	942;942;1056;163	ENSP00000379552:G942A;ENSP00000399590:G942A;ENSP00000265967:G1056A	ENSP00000265967:G1056A	G	-	2	0	HPS5	18260235	0.148000	0.22702	0.998000	0.56505	0.973000	0.67179	2.142000	0.42177	1.248000	0.43934	0.650000	0.86243	GGG		0.562	HPS5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390808.1	NM_181507		G	18303659	C	G	18303659	3	3	582	1	0	0	0	0	1	0	0	0	7349	623	22	4	230	4	HPS5	11	18303659	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08		18303659	116702857	26	34559										
SLC22A9	114571	hgsc.bcm.edu	37	chr11	63137795	63137796	+	In_Frame_Ins	INS	-	-	CGCGCG													0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	tgaggccagagaagtgtcgtINScgctttgttcatcctcagtg					rs377211288		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr11:63137795_63137796insCGCGCG	ENST00000279178.3	+	1	516_517	c.267_268insCGCGCG	c.(268-270)cgc>CGCGCGcgc	p.90_90R>RAR	SLC22A9_ENST00000310969.4_In_Frame_Ins_p.90_90R>RAR	NM_080866.2	NP_543142.2	Q8IVM8	S22A9_HUMAN	solute carrier family 22 (organic anion transporter), member 9	90					hormone transport (GO:0009914)|short-chain fatty acid import (GO:0015913)|sodium-independent organic anion transport (GO:0043252)	basolateral plasma membrane (GO:0016323)|integral component of membrane (GO:0016021)	anion:anion antiporter activity (GO:0015301)|short-chain fatty acid uptake transporter activity (GO:0015636)|sodium-independent organic anion transmembrane transporter activity (GO:0015347)			breast(2)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(7)|upper_aerodigestive_tract(1)	18						AGAAGTGTCGTCGCTTTGTTCA	0.535																																																0																																										SO:0001652	inframe_insertion	114571			AP001880	CCDS8043.1	11q12.3	2014-05-20	2008-01-11		ENSG00000149742	ENSG00000149742		"Solute carriers"	16261	protein-coding gene	gene with protein product		607579				11327718, 17393504	Standard	NM_080866		Approved	OAT4, FLJ23666, UST3, OAT7	uc001nww.3	Q8IVM8	OTTHUMG00000167805	Exception_encountered	11.37:g.63137795_63137796insCGCGCG	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVB7|A4PB24|Q8TCC8|Q8TEC0|Q8WYN7	In_Frame_Ins	INS	ENST00000279178.3	37	CCDS8043.1																																																																																				0.535	SLC22A9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396371.1	NM_080866		CGCGCG	63137796	-	CGCGCG	63137795	7	5	582	1	0	1	1	0	0	0	0	0	14474	1654	58	0	269	0	SLC22A9	11	63137795	In_Frame_Ins	INS	-	TCGA-EU-5907-01A-11D-1669-08	44834136	63137795	71868721	27	34560										
TMEM123	114908	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr11	102272803	102272803	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	tgagaccatccctggtgttgTtgtattagatgccgctgtag	12	8	0	2	rs373043680		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr11:102272803T>C	ENST00000398136.2	-	3	712	c.292A>G	c.(292-294)Aca>Gca	p.T98A	TMEM123_ENST00000532161.1_Missense_Mutation_p.T10A|TMEM123_ENST00000361236.3_Missense_Mutation_p.T79A|TMEM123_ENST00000525577.1_5'UTR	NM_052932.2	NP_443164.2	Q8N131	PORIM_HUMAN	transmembrane protein 123	98	Thr-rich.				oncosis (GO:0070267)	external side of plasma membrane (GO:0009897)|integral component of membrane (GO:0016021)	receptor activity (GO:0004872)	p.T98A(1)		breast(3)|kidney(1)|large_intestine(1)|lung(3)|urinary_tract(1)	9	all_cancers(8;0.00027)|all_epithelial(12;0.0021)|Lung NSC(15;0.227)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0033)	Epithelial(9;0.0314)|Lung(13;0.109)|all cancers(10;0.12)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0149)		CCTGGTGTTGTTGTATTAGAT	0.423													T|||	1	0.000199681	0.0	0.0	5008	,	,		14653	0.0		0.0	False		,,,				2504	0.001															1	Substitution - Missense(1)	kidney(1)						T	ALA/THR	0,4038		0,0,2019	459	424	435		292	-5.1	0	11		435	1,8337		0,1,4168	no	missense	TMEM123	NM_052932.2	58	0,1,6187	CC,CT,TT		0.012,0.0,0.0081	benign	98/209	102272803	1,12375	2019	4169	6188	SO:0001583	missense	114908			AL050161	CCDS41702.1	11q22.1	2014-01-02			ENSG00000152558	ENSG00000152558			30138	protein-coding gene	gene with protein product	"pro oncosis receptor inducing membrane injury gene"	606356				11481458, 24318988	Standard	NM_052932		Approved	PORIMIN, KCT3	uc001pha.3	Q8N131	OTTHUMG00000167326	ENST00000398136.2:c.292A>G	11.37:g.102272803T>C	ENSP00000381204:p.Thr98Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IWS2|Q96QV2	Missense_Mutation	SNP	ENST00000398136.2	37	CCDS41702.1	.	.	.	.	.	.	.	.	.	.	T	15.32	2.799772	0.50208	0.0	1.2E-4	ENSG00000152558	ENST00000361236;ENST00000398136;ENST00000532161;ENST00000528969;ENST00000531103	T;T;T;T	0.52754	1.98;1.65;0.65;0.65	5.63	-5.07	0.02938	.	0.848450	0.10299	N	0.691332	T	0.27063	0.0663	L	0.34521	1.04	0.09310	N	1	B;B	0.17038	0.002;0.02	B;B	0.15484	0.004;0.013	T	0.25676	-1.0125	10	0.54805	T	0.06	-3.131	1.3565	0.02183	0.4037:0.3034:0.1198:0.1732	.	79;98	Q8N131-2;Q8N131	.;PORIM_HUMAN	A	79;98;10;10;10	ENSP00000355285:T79A;ENSP00000381204:T98A;ENSP00000435331:T10A;ENSP00000434976:T10A	ENSP00000355285:T79A	T	-	1	0	TMEM123	101778013	0.005000	0.15991	0.000000	0.03702	0.005000	0.04900	-0.154000	0.10130	-0.637000	0.05516	0.460000	0.39030	ACA		0.423	TMEM123-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394178.1	NM_052932		C	102272803	T	C	102272803	3	2	582	1	0	0	0	0	1	0	0	0	16048	1725	60	3	346	3	TMEM123	11	102272803	Missense_Mutation	SNP	T	TCGA-EU-5907-01A-11D-1669-08	39135008	102272803	32733713	28	34561										
SPSB2	84727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	6981774	6981774	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	ggcatgcgtgcccctctgctCtaggggccagctgatctccc	12	16	3	1			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr12:6981774C>A	ENST00000524270.1	-	2	478	c.292G>T	c.(292-294)Gag>Tag	p.E98*	SPSB2_ENST00000523102.1_Nonsense_Mutation_p.E98*|SPSB2_ENST00000519357.1_Nonsense_Mutation_p.E98*|LRRC23_ENST00000433346.1_5'Flank|RPL13P5_ENST00000412023.1_RNA	NM_032641.3	NP_116030.1	Q99619	SPSB2_HUMAN	splA/ryanodine receptor domain and SOCS box containing 2	98	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.				intracellular signal transduction (GO:0035556)|protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)		p.E98*(1)		kidney(2)|lung(2)|upper_aerodigestive_tract(1)	5						CCCCTCTGCTCTAGGGGCCAG	0.697											OREG0021639	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				1	Substitution - Nonsense(1)	kidney(1)											29	33	31					12																	6981774		2203	4297	6500	SO:0001587	stop_gained	84727			AF403027	CCDS8567.1	12p13.31	2008-02-05				ENSG00000111671			29522	protein-coding gene	gene with protein product		611658				8723724, 12076535	Standard	NM_001146316		Approved	GRCC9, SSB-2	uc001qrl.3	Q99619		ENST00000524270.1:c.292G>T	12.37:g.6981774C>A	ENSP00000428338:p.Glu98*	Somatic	638	WXS	Illumina HiSeq	Phase_I	B7Z4W1|D3DUT0	Nonsense_Mutation	SNP	ENST00000524270.1	37	CCDS8567.1	.	.	.	.	.	.	.	.	.	.	C	15.28	2.785609	0.49997	.	.	ENSG00000111671	ENST00000523102;ENST00000524270;ENST00000519357	.	.	.	3.84	2.94	0.34122	.	0.480118	0.19336	N	0.116781	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.20046	T	0.44	.	5.3577	0.16071	0.0:0.677:0.2083:0.1147	.	.	.	.	X	98	.	ENSP00000431037:E98X	E	-	1	0	SPSB2	6852035	0.000000	0.05858	0.766000	0.31476	0.181000	0.23173	0.216000	0.17585	0.942000	0.37525	0.563000	0.77884	GAG		0.697	SPSB2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375721.1	NM_032641		A	6981774	C	A	6981774	4	1	582	1	0	0	0	0	0	1	0	0	15125	922	32	4	507	4	SPSB2	12	6981774	Nonsense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08		6981774	126870121	29	34562										
PLEKHG7	440107	broad.mit.edu;ucsc.edu	37	chr12	93134670	93134670	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	tatctgcaaactcatgaataTctcctagatgtggatttatg	7	7	3	2			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr12:93134670T>C	ENST00000344636.3	+	3	229	c.45T>C	c.(43-45)taT>taC	p.Y15Y	PLEKHG7_ENST00000549856.1_Silent_p.Y15Y	NM_001004330.2	NP_001004330.1	Q6ZR37	PKHG7_HUMAN	pleckstrin homology domain containing, family G (with RhoGef domain) member 7	15	DH. {ECO:0000255|PROSITE- ProRule:PRU00062}.						Rho guanyl-nucleotide exchange factor activity (GO:0005089)	p.Y15Y(1)		breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(7)|ovary(1)	17						CTCATGAATATCTCCTAGATG	0.323																																																1	Substitution - coding silent(1)	kidney(1)											84	84	84					12																	93134670		2203	4300	6503	SO:0001819	synonymous_variant	440107			AK128530	CCDS31873.1	12q22	2013-01-11				ENSG00000187510		"Pleckstrin homology (PH) domain containing"	33829	protein-coding gene	gene with protein product							Standard	NM_001004330		Approved	FLJ46688	uc001tcj.2	Q6ZR37		ENST00000344636.3:c.45T>C	12.37:g.93134670T>C		Somatic		WXS	Illumina GAIIx	Phase_I	B2RNR7	Silent	SNP	ENST00000344636.3	37	CCDS31873.1																																																																																				0.323	PLEKHG7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407288.1	NM_001004330		C	93134670	T	C	93134670	2	2	582	1	0	0	0	0	0	0	0	1	12082	1442	50	3		3	PLEKHG7	12	93134670	Silent	SNP	T	TCGA-EU-5907-01A-11D-1669-08	86152896	93134670	40717225	30	34563										
CHST11	50515	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr12	104851282	104851282	+	Frame_Shift_Del	DEL	C	C	-													0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	tcctttatcctggtcatcttCtatttccaaagtatgttgca							TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr12:104851282delC	ENST00000303694.5	+	1	532	c.93delC	c.(91-93)ttcfs	p.F31fs	CHST11_ENST00000547956.1_Frame_Shift_Del_p.F31fs|CHST11_ENST00000546689.1_Frame_Shift_Del_p.F31fs|CHST11_ENST00000549260.1_Frame_Shift_Del_p.F31fs	NM_018413.5	NP_060883.1	Q9NPF2	CHSTB_HUMAN	carbohydrate (chondroitin 4) sulfotransferase 11	31					carbohydrate biosynthetic process (GO:0016051)|carbohydrate metabolic process (GO:0005975)|chondrocyte development (GO:0002063)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|developmental growth (GO:0048589)|embryonic digit morphogenesis (GO:0042733)|embryonic viscerocranium morphogenesis (GO:0048703)|glycosaminoglycan metabolic process (GO:0030203)|negative regulation of apoptotic process (GO:0043066)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|polysaccharide localization (GO:0033037)|post-anal tail morphogenesis (GO:0036342)|post-embryonic development (GO:0009791)|regulation of cell proliferation (GO:0042127)|respiratory gaseous exchange (GO:0007585)|small molecule metabolic process (GO:0044281)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	chondroitin 4-sulfotransferase activity (GO:0047756)|N-acetylgalactosamine 4-O-sulfotransferase activity (GO:0001537)|N-acetylgalactosamine 4-sulfate 6-O-sulfotransferase activity (GO:0050659)			breast(2)|endometrium(2)|large_intestine(4)|lung(6)|ovary(1)|prostate(2)|skin(1)	18						TGGTCATCTTCTATTTCCAAA	0.512																																																0													217	203	207					12																	104851282		2203	4300	6503	SO:0001589	frameshift_variant	50515			AB042326	CCDS9099.1, CCDS55878.1	12q23.3	2008-02-05				ENSG00000171310	2.8.2.5	"Sulfotransferases, membrane-bound"	17422	protein-coding gene	gene with protein product		610128				10781601	Standard	NM_018413		Approved	C4ST1, C4St-1, C4ST, HSA269537	uc001tkz.3	Q9NPF2	OTTHUMG00000169803	ENST00000303694.5:c.93delC	12.37:g.104851282delC	ENSP00000305725:p.Phe31fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4F8|Q9NXY6|Q9NY36	Frame_Shift_Del	DEL	ENST00000303694.5	37	CCDS9099.1																																																																																				0.512	CHST11-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000405960.2	NM_018413		-	104851282	C	-	104851282	7	5	582	1	0	1	0	1	0	0	0	0	3401	912	32	0	95	0	CHST11	12	104851282	Frame_Shift_Del	DEL	C	TCGA-EU-5907-01A-11D-1669-08	11716612	104851282	29000613	31	34564										
C13orf30	144809	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr13	43362794	43362794	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	gattcaaccaagagagcctcAgccaaggtagctcctcaaag	9	12	3	1			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr13:43362794A>C	ENST00000537894.1	+	4	411	c.288A>C	c.(286-288)tcA>tcC	p.S96S	FAM216B_ENST00000313851.1_Silent_p.S96S	NM_182508.2	NP_872314.1	Q8N7L0	F216B_HUMAN	family with sequence similarity 216, member B	96								p.S96S(1)									AGAGAGCCTCAGCCAAGGTAG	0.453																																																1	Substitution - coding silent(1)	kidney(1)											111	103	105					13																	43362794		2203	4300	6503	SO:0001819	synonymous_variant	0			AK098238	CCDS9386.1	13q14.11	2012-02-07	2012-02-07	2012-02-07	ENSG00000179813	ENSG00000179813			26883	protein-coding gene	gene with protein product			"chromosome 13 open reading frame 30"	C13orf30			Standard	NM_182508		Approved	FLJ40919	uc010tfk.2	Q8N7L0	OTTHUMG00000016809	ENST00000537894.1:c.288A>C	13.37:g.43362794A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B1ALI3	Silent	SNP	ENST00000537894.1	37	CCDS9386.1																																																																																				0.453	FAM216B-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044705.2	NM_182508		C	43362794	A	C	43362794	2	2	582	1	0	0	0	0	0	0	0	1	1727	175	7	5		5	C13orf30	13	43362794	Silent	SNP	A	TCGA-EU-5907-01A-11D-1669-08		43362794	71807084	32	34565										
RABGGTA	5875	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24737807	24737807	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	caactggtcgttgagggaggCagcaggcaggtcacagagct	16	9	1	2			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr14:24737807C>G	ENST00000399409.3	-	9	1402	c.919G>C	c.(919-921)Gcc>Ccc	p.A307P	RABGGTA_ENST00000559586.1_5'Flank|RABGGTA_ENST00000216840.6_Missense_Mutation_p.A307P|RABGGTA_ENST00000560777.1_Intron	NM_004581.5	NP_004572.3	Q92696	PGTA_HUMAN	Rab geranylgeranyltransferase, alpha subunit	307					cellular protein modification process (GO:0006464)|protein geranylgeranylation (GO:0018344)|visual perception (GO:0007601)	Rab-protein geranylgeranyltransferase complex (GO:0005968)	Rab geranylgeranyltransferase activity (GO:0004663)|Rab GTPase binding (GO:0017137)|zinc ion binding (GO:0008270)	p.A307P(1)		breast(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(6)	12				GBM - Glioblastoma multiforme(265;0.0184)		TTGAGGGAGGCAGCAGGCAGG	0.542																																																1	Substitution - Missense(1)	kidney(1)											85	91	89					14																	24737807		2085	4202	6287	SO:0001583	missense	5875				CCDS45088.1	14q11.2	2011-06-27				ENSG00000100949		"Prenyltransferase alpha subunit repeat containing"	9795	protein-coding gene	gene with protein product	"protein prenyltransferase alpha subunit repeat containing 3"	601905				8954794	Standard	NM_182836		Approved	PTAR3	uc001wog.4	Q92696		ENST00000399409.3:c.919G>C	14.37:g.24737807C>G	ENSP00000382341:p.Ala307Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5N2|D3DS69	Missense_Mutation	SNP	ENST00000399409.3	37	CCDS45088.1	.	.	.	.	.	.	.	.	.	.	C	4.772	0.143537	0.09134	.	.	ENSG00000100949	ENST00000216840;ENST00000399409;ENST00000543002	T;T	0.50548	0.74;0.74	5.11	-0.039	0.13878	Rab geranylgeranyltransferase, alpha subunit, insert-domain (4);	0.698644	0.15113	N	0.279879	T	0.24547	0.0595	N	0.14661	0.345	0.09310	N	0.999999	B	0.02656	0.0	B	0.06405	0.002	T	0.12682	-1.0538	10	0.30854	T	0.27	0.4037	5.3589	0.16077	0.1262:0.4833:0.0:0.3905	.	307	Q92696	PGTA_HUMAN	P	307;307;270	ENSP00000216840:A307P;ENSP00000382341:A307P	ENSP00000216840:A307P	A	-	1	0	RABGGTA	23807647	0.698000	0.27777	0.012000	0.15200	0.585000	0.36419	1.341000	0.33907	-0.216000	0.10048	-0.379000	0.06801	GCC		0.542	RABGGTA-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415308.5	NM_182836		G	24737807	C	G	24737807	3	3	582	1	0	0	0	0	1	0	0	0	12980	710	25	4	816	4	RABGGTA	14	24737807	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08		24737807	82611733	33	34566										
NYNRIN	57523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr14	24885001	24885001	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	cttctcctgctccccttacaCgccaacctatgcccacctgg	5	20	1	0	rs538061448		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr14:24885001C>T	ENST00000382554.3	+	9	4364	c.4046C>T	c.(4045-4047)aCg>aTg	p.T1349M		NM_025081.2	NP_079357.2	Q9P2P1	NYNRI_HUMAN	NYN domain and retroviral integrase containing	1349					DNA integration (GO:0015074)	integral component of membrane (GO:0016021)	nucleic acid binding (GO:0003676)	p.T1349M(1)		breast(3)|central_nervous_system(1)|endometrium(7)|kidney(6)|large_intestine(8)|lung(21)|ovary(2)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	56						TCCCCTTACACGCCAACCTAT	0.597													C|||	1	0.000199681	0.0	0.0	5008	,	,		17104	0.001		0.0	False		,,,				2504	0.0															1	Substitution - Missense(1)	kidney(1)											102	109	106					14																	24885001		2038	4163	6201	SO:0001583	missense	57523			AB037726	CCDS45090.1	14q11.2	2009-10-14	2009-10-14	2009-10-14		ENSG00000205978			20165	protein-coding gene	gene with protein product	"Cousin of GIN1"		"KIAA1305"	KIAA1305		19561090, 17114934	Standard	NM_025081		Approved	FLJ11811, CGIN1	uc001wpf.4	Q9P2P1		ENST00000382554.3:c.4046C>T	14.37:g.24885001C>T	ENSP00000371994:p.Thr1349Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P153|Q86TR3|Q9HAC4	Missense_Mutation	SNP	ENST00000382554.3	37	CCDS45090.1	.	.	.	.	.	.	.	.	.	.	C	15.16	2.750312	0.49257	.	.	ENSG00000205978	ENST00000382554	T	0.12879	2.64	4.93	4.93	0.64822	Ribonuclease H-like (1);	.	.	.	.	T	0.25344	0.0616	N	0.24115	0.695	0.21841	N	0.999514	D	0.89917	1.0	D	0.73708	0.981	T	0.11348	-1.0591	9	0.87932	D	0	.	15.6876	0.77424	0.0:1.0:0.0:0.0	.	1349	Q9P2P1	NYNRI_HUMAN	M	1349	ENSP00000371994:T1349M	ENSP00000371994:T1349M	T	+	2	0	NYNRIN	23954841	0.719000	0.27986	0.767000	0.31495	0.960000	0.62799	3.413000	0.52686	2.551000	0.86045	0.655000	0.94253	ACG		0.597	NYNRIN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412939.1			T	24885001	C	T	24885001	3	4	582	1	0	0	0	0	1	0	0	0	10803	536	19	1	4076	1	NYNRIN	14	24885001	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08	147194	24885001	82464539	34	34567										
PHF23	79142	broad.mit.edu;ucsc.edu	37	chr17	7139291	7139291	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	gtccatgacccgcatctcgcCttcactggagctggcatctc	9	16	3	1			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr17:7139291C>G	ENST00000320316.3	-	4	1181	c.955G>C	c.(955-957)Ggc>Cgc	p.G319R	PHF23_ENST00000454255.2_Missense_Mutation_p.G315R|PHF23_ENST00000571362.1_Missense_Mutation_p.G252R|PHF23_ENST00000576955.1_Missense_Mutation_p.G189R|DVL2_ENST00000575458.1_5'Flank|DVL2_ENST00000005340.5_5'Flank|PHF23_ENST00000570753.1_5'Flank	NM_001284518.1|NM_024297.2	NP_001271447.1|NP_077273.2	Q9BUL5	PHF23_HUMAN	PHD finger protein 23	319							zinc ion binding (GO:0008270)	p.G319R(1)		breast(4)|kidney(2)|large_intestine(6)|lung(3)	15						CGCATCTCGCCTTCACTGGAG	0.577																																																1	Substitution - Missense(1)	kidney(1)											281	291	288					17																	7139291		2081	4216	6297	SO:0001583	missense	79142			AK122791	CCDS42250.1, CCDS67143.1, CCDS67144.1	17p13.1	2014-08-13			ENSG00000040633	ENSG00000040633		"Zinc fingers, PHD-type"	28428	protein-coding gene	gene with protein product		612910					Standard	NM_024297		Approved	MGC2941, FLJ16355	uc002gfa.3	Q9BUL5	OTTHUMG00000177972	ENST00000320316.3:c.955G>C	17.37:g.7139291C>G	ENSP00000322579:p.Gly319Arg	Somatic		WXS	Illumina GAIIx	Phase_I	A1DZ74|B3KVH8|B4DLK6|D3DTN4|Q8IZK0|Q96HG7|Q9H5X0	Missense_Mutation	SNP	ENST00000320316.3	37	CCDS42250.1	.	.	.	.	.	.	.	.	.	.	C	14.26	2.482018	0.44147	.	.	ENSG00000040633	ENST00000320316;ENST00000454255	T;T	0.31510	1.49;1.49	4.65	3.67	0.42095	.	0.000000	0.85682	D	0.000000	T	0.18882	0.0453	N	0.19112	0.55	0.51482	D	0.999926	P;B	0.36438	0.553;0.272	B;B	0.35240	0.198;0.085	T	0.05500	-1.0881	10	0.72032	D	0.01	-9.0452	8.4448	0.32836	0.0:0.8931:0.0:0.1069	.	252;319	B4DLK6;Q9BUL5	.;PHF23_HUMAN	R	319;315	ENSP00000322579:G319R;ENSP00000414607:G315R	ENSP00000322579:G319R	G	-	1	0	PHF23	7080015	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	4.603000	0.61105	1.161000	0.42604	0.313000	0.20887	GGC		0.577	PHF23-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440047.1	NM_024297		G	7139291	C	G	7139291	3	3	582	1	0	0	0	0	1	0	0	0	11842	681	24	4	264	4	PHF23	17	7139291	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08		7139291	74055919	35	34568										
MYH4	4622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10366258	10366258	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	ggctgacaaatgcgaagtcaTatgggttggtggtgatcaga	15	5	2	3			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr17:10366258T>A	ENST00000255381.2	-	11	1042	c.932A>T	c.(931-933)tAt>tTt	p.Y311F	RP11-799N11.1_ENST00000581304.1_RNA|CTC-297N7.11_ENST00000587182.2_RNA|RP11-799N11.1_ENST00000399342.2_RNA	NM_017533.2	NP_060003.2	Q9Y623	MYH4_HUMAN	myosin, heavy chain 4, skeletal muscle	311	Myosin motor.				actin filament-based movement (GO:0030048)|ATP catabolic process (GO:0006200)|membrane organization (GO:0061024)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|response to activity (GO:0014823)	muscle myosin complex (GO:0005859)|myofibril (GO:0030016)|myosin filament (GO:0032982)|sarcomere (GO:0030017)	ATP binding (GO:0005524)|double-stranded RNA binding (GO:0003725)|microfilament motor activity (GO:0000146)	p.Y311F(1)		NS(4)|breast(8)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(13)|lung(72)|ovary(10)|prostate(7)|skin(9)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	149						TGCGAAGTCATATGGGTTGGT	0.418																																																1	Substitution - Missense(1)	kidney(1)											124	120	121					17																	10366258		2203	4300	6503	SO:0001583	missense	4622				CCDS11154.1	17p13.1	2013-09-19	2006-09-29		ENSG00000264424	ENSG00000264424		"Myosins / Myosin superfamily : Class II"	7574	protein-coding gene	gene with protein product		160742	"myosin, heavy polypeptide 4, skeletal muscle"			8518795	Standard	NM_017533		Approved	MYH2B, MyHC-2B, MyHC-IIb	uc002gmn.3	Q9Y623	OTTHUMG00000130365	ENST00000255381.2:c.932A>T	17.37:g.10366258T>A	ENSP00000255381:p.Tyr311Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000255381.2	37	CCDS11154.1	.	.	.	.	.	.	.	.	.	.	T	17.58	3.425236	0.62733	.	.	ENSG00000141048	ENST00000255381	T	0.71698	-0.59	5.37	5.37	0.77165	Myosin head, motor domain (2);	0.000000	0.34245	U	0.004124	T	0.72203	0.3431	M	0.73962	2.25	0.58432	D	0.999998	B	0.06786	0.001	B	0.21360	0.034	T	0.70350	-0.4896	10	0.51188	T	0.08	.	15.659	0.77169	0.0:0.0:0.0:1.0	.	311	Q9Y623	MYH4_HUMAN	F	311	ENSP00000255381:Y311F	ENSP00000255381:Y311F	Y	-	2	0	MYH4	10306983	1.000000	0.71417	1.000000	0.80357	0.905000	0.53344	4.994000	0.63901	2.153000	0.67306	0.528000	0.53228	TAT		0.418	MYH4-001	KNOWN	NAGNAG_splice_site|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252731.1	NM_017533		A	10366258	T	A	10366258	3	1	582	1	0	0	0	0	1	0	0	0	10044	1406	49	5	5007	5	MYH4	17	10366258	Missense_Mutation	SNP	T	TCGA-EU-5907-01A-11D-1669-08	3226967	10366258	70828952	36	34569			1	68		3	3	627	N	T_C	5.305859e-07
MYH4	4622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10366705	10366705	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	ctgtggcaccaaaatggatcCtgatgaatttacccttaaaa	7	9	0	2			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr17:10366705C>G	ENST00000255381.2	-	9	865	c.755G>C	c.(754-756)aGg>aCg	p.R252T	RP11-799N11.1_ENST00000581304.1_RNA|CTC-297N7.11_ENST00000587182.2_RNA|RP11-799N11.1_ENST00000399342.2_RNA	NM_017533.2	NP_060003.2	Q9Y623	MYH4_HUMAN	myosin, heavy chain 4, skeletal muscle	252	Myosin motor.				actin filament-based movement (GO:0030048)|ATP catabolic process (GO:0006200)|membrane organization (GO:0061024)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|response to activity (GO:0014823)	muscle myosin complex (GO:0005859)|myofibril (GO:0030016)|myosin filament (GO:0032982)|sarcomere (GO:0030017)	ATP binding (GO:0005524)|double-stranded RNA binding (GO:0003725)|microfilament motor activity (GO:0000146)	p.R252T(1)		NS(4)|breast(8)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(13)|lung(72)|ovary(10)|prostate(7)|skin(9)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	149						AAAATGGATCCTGATGAATTT	0.323																																																1	Substitution - Missense(1)	kidney(1)											62	67	66					17																	10366705		2203	4300	6503	SO:0001583	missense	4622				CCDS11154.1	17p13.1	2013-09-19	2006-09-29		ENSG00000264424	ENSG00000264424		"Myosins / Myosin superfamily : Class II"	7574	protein-coding gene	gene with protein product		160742	"myosin, heavy polypeptide 4, skeletal muscle"			8518795	Standard	NM_017533		Approved	MYH2B, MyHC-2B, MyHC-IIb	uc002gmn.3	Q9Y623	OTTHUMG00000130365	ENST00000255381.2:c.755G>C	17.37:g.10366705C>G	ENSP00000255381:p.Arg252Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000255381.2	37	CCDS11154.1	.	.	.	.	.	.	.	.	.	.	C	24.1	4.488565	0.84854	.	.	ENSG00000141048	ENST00000255381	T	0.72167	-0.63	4.96	4.96	0.65561	Myosin head, motor domain (3);	0.000000	0.41097	U	0.000953	D	0.88897	0.6562	H	0.94306	3.52	0.58432	D	0.999999	D	0.89917	1.0	D	0.83275	0.996	D	0.92115	0.5699	10	0.87932	D	0	.	18.542	0.91031	0.0:1.0:0.0:0.0	.	252	Q9Y623	MYH4_HUMAN	T	252	ENSP00000255381:R252T	ENSP00000255381:R252T	R	-	2	0	MYH4	10307430	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.746000	0.85057	2.436000	0.82500	0.557000	0.71058	AGG		0.323	MYH4-001	KNOWN	NAGNAG_splice_site|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252731.1	NM_017533		G	10366705	C	G	10366705	3	3	582	1	0	0	0	0	1	0	0	0	10044	681	24	4	5192	4	MYH4	17	10366705	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08	447	10366705	70828505	37	34570			1	68		3	3	627	N	T_C	5.305859e-07
MYH4	4622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	10366884	10366884	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	ttacaaagcgagaggagttgTcattcctcacggtcttggca	11	9	3	1			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr17:10366884T>A	ENST00000255381.2	-	8	835	c.725A>T	c.(724-726)gAc>gTc	p.D242V	RP11-799N11.1_ENST00000581304.1_RNA|CTC-297N7.11_ENST00000587182.2_RNA|RP11-799N11.1_ENST00000399342.2_RNA	NM_017533.2	NP_060003.2	Q9Y623	MYH4_HUMAN	myosin, heavy chain 4, skeletal muscle	242	Myosin motor.				actin filament-based movement (GO:0030048)|ATP catabolic process (GO:0006200)|membrane organization (GO:0061024)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|response to activity (GO:0014823)	muscle myosin complex (GO:0005859)|myofibril (GO:0030016)|myosin filament (GO:0032982)|sarcomere (GO:0030017)	ATP binding (GO:0005524)|double-stranded RNA binding (GO:0003725)|microfilament motor activity (GO:0000146)	p.D242V(1)		NS(4)|breast(8)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(13)|lung(72)|ovary(10)|prostate(7)|skin(9)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	149						AGAGGAGTTGTCATTCCTCAC	0.438																																																1	Substitution - Missense(1)	kidney(1)											116	111	113					17																	10366884		2203	4300	6503	SO:0001583	missense	4622				CCDS11154.1	17p13.1	2013-09-19	2006-09-29		ENSG00000264424	ENSG00000264424		"Myosins / Myosin superfamily : Class II"	7574	protein-coding gene	gene with protein product		160742	"myosin, heavy polypeptide 4, skeletal muscle"			8518795	Standard	NM_017533		Approved	MYH2B, MyHC-2B, MyHC-IIb	uc002gmn.3	Q9Y623	OTTHUMG00000130365	ENST00000255381.2:c.725A>T	17.37:g.10366884T>A	ENSP00000255381:p.Asp242Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000255381.2	37	CCDS11154.1	.	.	.	.	.	.	.	.	.	.	T	21.3	4.133712	0.77662	.	.	ENSG00000141048	ENST00000255381	D	0.89123	-2.47	4.96	4.96	0.65561	Myosin head, motor domain (3);	0.000000	0.39020	U	0.001482	D	0.97402	0.9150	H	0.99909	4.93	0.80722	D	1	D	0.53151	0.958	D	0.72625	0.978	D	0.98945	1.0792	10	0.87932	D	0	.	14.8998	0.70670	0.0:0.0:0.0:1.0	.	242	Q9Y623	MYH4_HUMAN	V	242	ENSP00000255381:D242V	ENSP00000255381:D242V	D	-	2	0	MYH4	10307609	1.000000	0.71417	1.000000	0.80357	0.926000	0.56050	7.966000	0.87956	1.971000	0.57363	0.455000	0.32223	GAC		0.438	MYH4-001	KNOWN	NAGNAG_splice_site|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252731.1	NM_017533		A	10366884	T	A	10366884	3	1	582	1	0	0	0	0	1	0	0	0	10044	1667	58	5	5226	5	MYH4	17	10366884	Missense_Mutation	SNP	T	TCGA-EU-5907-01A-11D-1669-08	179	10366884	70828326	38	34571			1	68		3	3	627	N	T_C	5.305859e-07
KRT23	25984	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	39086293	39086293	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	caggttgtctaaggtccttcGgaggccctcgacttcaattt	10	11	2	0	rs370055839		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr17:39086293G>A	ENST00000209718.3	-	4	959	c.535C>T	c.(535-537)Cga>Tga	p.R179*	AC004231.2_ENST00000418393.1_RNA|KRT23_ENST00000436344.3_Nonsense_Mutation_p.R42*	NM_015515.3	NP_056330.3	Q9C075	K1C23_HUMAN	keratin 23 (histone deacetylase inducible)	179	Coil 1B.|Rod.					intermediate filament (GO:0005882)	structural molecule activity (GO:0005198)	p.R179*(1)		central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(10)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	21		Breast(137;0.000301)|Ovarian(249;0.15)				AAGGTCCTTCGGAGGCCCTCG	0.458																																																1	Substitution - Nonsense(1)	kidney(1)						G	stop/ARG	0,4406		0,0,2203	224	178	194		535	3.7	1	17		194	1,8599	1.2+/-3.3	0,1,4299	no	stop-gained	KRT23	NM_015515.3		0,1,6502	AA,AG,GG		0.0116,0.0,0.0077		179/423	39086293	1,13005	2203	4300	6503	SO:0001587	stop_gained	25984			AF102848	CCDS11380.1, CCDS62182.1	17q21.2	2013-01-16			ENSG00000108244	ENSG00000108244		"-", "Intermediate filaments type I, keratins (acidic)"	6438	protein-coding gene	gene with protein product		606194				11135429, 16831889	Standard	NM_015515		Approved	K23, DKFZP434G032, HAIK1, CK23, MGC26158	uc002hvm.1	Q9C075	OTTHUMG00000133376	ENST00000209718.3:c.535C>T	17.37:g.39086293G>A	ENSP00000209718:p.Arg179*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K084|B7Z7J2|I3L3Q6|Q9NUR6	Nonsense_Mutation	SNP	ENST00000209718.3	37	CCDS11380.1	.	.	.	.	.	.	.	.	.	.	G	21.5	4.153670	0.78114	0.0	1.16E-4	ENSG00000108244	ENST00000209718;ENST00000436344	.	.	.	5.74	3.72	0.42706	.	0.000000	0.45361	D	0.000363	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	15.2982	0.73925	0.0:0.0:0.745:0.255	.	.	.	.	X	179;42	.	ENSP00000209718:R179X	R	-	1	2	KRT23	36339819	1.000000	0.71417	0.999000	0.59377	0.928000	0.56348	2.984000	0.49353	0.745000	0.32763	0.460000	0.39030	CGA		0.458	KRT23-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257223.1			A	39086293	G	A	39086293	4	1	582	1	0	0	0	0	0	1	0	0	8467	1124	39	1	757	1	KRT23	17	39086293	Nonsense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	28719409	39086293	42108917	39	34572										
NGFR	4804	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	47587945	47587945	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	gcccgtggtgacccgaggcaCcaccgacaacctcatccctg	10	18	1	1			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr17:47587945C>A	ENST00000172229.3	+	4	865	c.740C>A	c.(739-741)aCc>aAc	p.T247N	RP5-1029K10.2_ENST00000514506.1_RNA|NGFR_ENST00000504201.1_Missense_Mutation_p.T153N	NM_002507.3	NP_002498.1	P08138	TNR16_HUMAN	nerve growth factor receptor	247	Ser/Thr-rich.				apoptotic signaling pathway (GO:0097190)|axon guidance (GO:0007411)|central nervous system development (GO:0007417)|circadian regulation of gene expression (GO:0032922)|detection of temperature stimulus (GO:0016048)|glucose homeostasis (GO:0042593)|hair follicle morphogenesis (GO:0031069)|intracellular protein transport (GO:0006886)|membrane protein intracellular domain proteolysis (GO:0031293)|negative regulation of apoptotic process (GO:0043066)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell cycle (GO:0045786)|negative regulation of fibroblast growth factor receptor signaling pathway (GO:0040037)|negative regulation of hair follicle development (GO:0051799)|nerve development (GO:0021675)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of axonogenesis (GO:0050772)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of odontogenesis of dentin-containing tooth (GO:0042488)|regulation of axonogenesis (GO:0050770)|regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043281)|regulation of glucose import in response to insulin stimulus (GO:2001273)	cell surface (GO:0009986)|cytosol (GO:0005829)|endosome (GO:0005768)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|neuronal postsynaptic density (GO:0097481)|nucleoplasm (GO:0005654)|plasma membrane (GO:0005886)	death receptor activity (GO:0005035)|Rab GTPase binding (GO:0017137)|receptor activity (GO:0004872)|signal transducer activity (GO:0004871)|transmembrane signaling receptor activity (GO:0004888)|ubiquitin protein ligase binding (GO:0031625)	p.T247N(1)		central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(4)|liver(1)|lung(7)|ovary(1)	17	all_cancers(4;1.45e-13)|Breast(4;6.34e-28)|all_epithelial(4;4.95e-17)					ACCCGAGGCACCACCGACAAC	0.607																																																1	Substitution - Missense(1)	kidney(1)											111	101	104					17																	47587945		2203	4300	6503	SO:0001583	missense	4804			M14764	CCDS11549.1	17q21-q22	2013-05-22	2010-04-28		ENSG00000064300	ENSG00000064300		"Tumor necrosis factor receptor superfamily", "CD molecules"	7809	protein-coding gene	gene with protein product	"low affinity nerve growth factor receptor", "TNFR superfamily, member 16"	162010	"nerve growth factor receptor (TNFR superfamily, member 16)"			3022937, 3006050	Standard	NM_002507		Approved	TNFRSF16, CD271, p75NTR	uc002ioz.4	P08138	OTTHUMG00000161495	ENST00000172229.3:c.740C>A	17.37:g.47587945C>A	ENSP00000172229:p.Thr247Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2R961|B4E096	Missense_Mutation	SNP	ENST00000172229.3	37	CCDS11549.1	.	.	.	.	.	.	.	.	.	.	C	8.152	0.787673	0.16258	.	.	ENSG00000064300	ENST00000172229;ENST00000504201	D;D	0.90261	-2.57;-2.64	4.85	4.85	0.62838	.	0.377733	0.28921	N	0.013707	D	0.83013	0.5162	N	0.16368	0.405	0.23546	N	0.997447	P	0.40000	0.698	B	0.37888	0.26	T	0.74867	-0.3518	10	0.27082	T	0.32	-43.6711	16.0977	0.81139	0.0:1.0:0.0:0.0	.	247	P08138	TNR16_HUMAN	N	247;153	ENSP00000172229:T247N;ENSP00000421731:T153N	ENSP00000172229:T247N	T	+	2	0	NGFR	44942944	0.008000	0.16893	0.954000	0.39281	0.871000	0.50021	0.684000	0.25364	2.397000	0.81536	0.650000	0.86243	ACC		0.607	NGFR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365150.1			A	47587945	C	A	47587945	3	1	582	1	0	0	0	0	1	0	0	0	10403	507	18	4	754	4	NGFR	17	47587945	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08	8501652	47587945	33607265	40	34573										
ABCA5	23461	broad.mit.edu;hgsc.bcm.edu	37	chr17	67280186	67280186	+	Nonsense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	aagaaatgacacccaaatttGaatgactgtctagggcagaa	9	7	1	5			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr17:67280186G>C	ENST00000392676.3	-	18	2364	c.2300C>G	c.(2299-2301)tCa>tGa	p.S767*	ABCA5_ENST00000588877.1_Nonsense_Mutation_p.S767*|ABCA5_ENST00000392677.2_Nonsense_Mutation_p.S767*			Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 5	767					cholesterol efflux (GO:0033344)|high-density lipoprotein particle remodeling (GO:0034375)|negative regulation of macrophage derived foam cell differentiation (GO:0010745)|reverse cholesterol transport (GO:0043691)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|late endosome (GO:0005770)|lysosome (GO:0005764)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)	p.S767*(1)		breast(2)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(18)|lung(19)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	54	Breast(10;3.72e-11)				Tacrolimus(DB00864)	ACCCAAATTTGAATGACTGTC	0.299																																																1	Substitution - Nonsense(1)	kidney(1)											61	58	59					17																	67280186		2203	4300	6503	SO:0001587	stop_gained	23461			U66672	CCDS11685.1	17q24.3	2012-03-14			ENSG00000154265	ENSG00000154265		"ATP binding cassette transporters / subfamily A"	35	protein-coding gene	gene with protein product		612503				8894702	Standard	NM_172232		Approved	EST90625	uc002jig.2	Q8WWZ7		ENST00000392676.3:c.2300C>G	17.37:g.67280186G>C	ENSP00000376443:p.Ser767*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVJ2|Q96LJ1|Q96MS4|Q96PZ9|Q9NY14	Nonsense_Mutation	SNP	ENST00000392676.3	37	CCDS11685.1	.	.	.	.	.	.	.	.	.	.	G	50	16.797406	0.99872	.	.	ENSG00000154265	ENST00000392677;ENST00000392676	.	.	.	5.58	5.58	0.84498	.	0.000000	0.56097	D	0.000023	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	19.1719	0.93581	0.0:0.0:1.0:0.0	.	.	.	.	X	767	.	.	S	-	2	0	ABCA5	64791781	1.000000	0.71417	1.000000	0.80357	0.964000	0.63967	6.998000	0.76277	2.622000	0.88805	0.650000	0.86243	TCA		0.299	ABCA5-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000450654.1	NM_018672		C	67280186	G	C	67280186	4	2	582	1	0	0	0	0	0	1	0	0	35	1294	45	4	2716	4	ABCA5	17	67280186	Nonsense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	19692241	67280186	13915024	41	34574										
TMC8	147138	broad.mit.edu;hgsc.bcm.edu	37	chr17	76137117	76137117	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	cgtggatgccgcgggactgcGttccccttgccctggacagc	14	15	0	0			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr17:76137117G>A	ENST00000318430.5	+	16	2479	c.2105G>A	c.(2104-2106)cGt>cAt	p.R702H	TMC8_ENST00000591144.1_3'UTR|TMC8_ENST00000589691.1_Missense_Mutation_p.R479H	NM_152468.4	NP_689681.2	Q8IU68	TMC8_HUMAN	transmembrane channel-like 8	702					ion transport (GO:0006811)|negative regulation of protein binding (GO:0032091)|negative regulation of protein oligomerization (GO:0032460)|regulation of cell growth (GO:0001558)|regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902041)|zinc ion homeostasis (GO:0055069)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nuclear membrane (GO:0031965)	receptor binding (GO:0005102)	p.R702H(1)		breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	12			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)|OV - Ovarian serous cystadenocarcinoma(97;0.192)			GCGGGACTGCGTTCCCCTTGC	0.756																																																1	Substitution - Missense(1)	kidney(1)											9	11	10					17																	76137117		2174	4260	6434	SO:0001583	missense	147138			AY057380	CCDS32749.1	17q25.3	2014-09-17	2005-11-10	2005-11-10	ENSG00000167895	ENSG00000167895			20474	protein-coding gene	gene with protein product		605829	"epidermodysplasia verruciformis 2"	EVER2		12426567	Standard	NM_152468		Approved	EVIN2	uc002jup.2	Q8IU68		ENST00000318430.5:c.2105G>A	17.37:g.76137117G>A	ENSP00000325561:p.Arg702His	Somatic		WXS	Illumina HiSeq	Phase_I	Q2YDC0|Q8IWU7|Q8N358|Q8NF04	Missense_Mutation	SNP	ENST00000318430.5	37	CCDS32749.1	.	.	.	.	.	.	.	.	.	.	G	15.13	2.741503	0.49151	.	.	ENSG00000167895	ENST00000318430	T	0.75477	-0.94	4.04	-3.25	0.05079	.	3.727870	0.00894	N	0.002268	T	0.59155	0.2173	L	0.36672	1.1	0.09310	N	1	B	0.10296	0.003	B	0.04013	0.001	T	0.32188	-0.9916	10	0.36615	T	0.2	0.4031	0.1294	0.00072	0.2687:0.1619:0.2416:0.3278	.	702	Q8IU68	TMC8_HUMAN	H	702	ENSP00000325561:R702H	ENSP00000325561:R702H	R	+	2	0	TMC8	73648712	0.000000	0.05858	0.000000	0.03702	0.007000	0.05969	-0.516000	0.06282	-0.122000	0.11766	0.561000	0.74099	CGT		0.756	TMC8-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000436900.3			A	76137117	G	A	76137117	3	1	582	1	0	0	0	0	1	0	0	0	16003	1145	40	1	2163	1	TMC8	17	76137117	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	8856931	76137117	5058093	42	34575										
TK1	7083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr17	76170949	76170960	+	In_Frame_Del	DEL	CCGGCAGGCTGG	CCGGCAGGCTGG	-													0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	agttctctttgttgtccggcCcggcaggctggcctgaggcc					rs1065767|rs386352371	byFrequency	TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	CCGGCAGGCTGG	CCGGCAGGCTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr17:76170949_76170960delCCGGCAGGCTGG	ENST00000301634.7	-	7	823_834	c.585_596delCCAGCCTGCCGG	c.(583-597)ggccagcctgccggg>ggg	p.195_199GQPAG>G	TK1_ENST00000590430.1_3'UTR|TK1_ENST00000588734.1_In_Frame_Del_p.228_232GQPAG>G|TK1_ENST00000405273.1_In_Frame_Del_p.195_199GQPAG>G|TK1_ENST00000590862.1_Intron	NM_003258.4	NP_003249.3	P04183	KITH_HUMAN	thymidine kinase 1, soluble	195					deoxyribonucleoside monophosphate biosynthetic process (GO:0009157)|digestive tract development (GO:0048565)|DNA replication (GO:0006260)|fetal process involved in parturition (GO:0060138)|liver development (GO:0001889)|nucleobase-containing compound metabolic process (GO:0006139)|nucleobase-containing small molecule metabolic process (GO:0055086)|nucleotide biosynthetic process (GO:0009165)|protein homotetramerization (GO:0051289)|pyrimidine nucleobase metabolic process (GO:0006206)|pyrimidine nucleoside salvage (GO:0043097)|response to copper ion (GO:0046688)|response to cortisol (GO:0051414)|response to nutrient levels (GO:0031667)|response to toxic substance (GO:0009636)|skeletal muscle cell proliferation (GO:0014856)|small molecule metabolic process (GO:0044281)|thymidine metabolic process (GO:0046104)	cytosol (GO:0005829)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|nucleoside kinase activity (GO:0019206)|thymidine kinase activity (GO:0004797)|zinc ion binding (GO:0008270)			endometrium(1)|large_intestine(1)|urinary_tract(2)	4			BRCA - Breast invasive adenocarcinoma(99;0.00269)|OV - Ovarian serous cystadenocarcinoma(97;0.0804)|Lung(188;0.23)		Trifluridine(DB00432)|Zidovudine(DB00495)	GTTGTCCGGCCCGGCAGGCTGGCCTGAGGCCT	0.618																																																0																																										SO:0001651	inframe_deletion	7083				CCDS11754.1	17q23.2-q25.3	2012-10-02			ENSG00000167900	ENSG00000167900	2.7.1.21		11830	protein-coding gene	gene with protein product		188300					Standard	NM_003258		Approved		uc002juw.2	P04183	OTTHUMG00000150674	ENST00000301634.7:c.585_596delCCAGCCTGCCGG	17.37:g.76170949_76170960delCCGGCAGGCTGG	ENSP00000301634:p.Gly195_Ala198del	Somatic		WXS	Illumina HiSeq	Phase_I	B2RC58|Q969V0|Q9UMG9	In_Frame_Del	DEL	ENST00000301634.7	37	CCDS11754.1																																																																																				0.618	TK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319577.1	NM_003258		-	76170960	CCGGCAGGCTGG	-	76170949	7	5	582	1	0	1	0	1	0	0	0	0	15944	623	22	0	112	0	TK1	17	76170949	In_Frame_Del	DEL	CCGGCAGGCTGG	TCGA-EU-5907-01A-11D-1669-08	33832	76170949	5024261	43	34576										
IL12RB1	3594	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	18191685	18191685	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	acctcaggagacttctctgtCtggttcctggcccaggattc	10	13	3	1			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr19:18191685C>T	ENST00000600835.2	-	5	664	c.366G>A	c.(364-366)caG>caA	p.Q122Q	IL12RB1_ENST00000593993.2_Silent_p.Q122Q|IL12RB1_ENST00000322153.7_Silent_p.Q122Q			P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1	122	Fibronectin type-III 1. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cellular response to interferon-gamma (GO:0071346)|cytokine-mediated signaling pathway (GO:0019221)|interleukin-12-mediated signaling pathway (GO:0035722)|interleukin-23-mediated signaling pathway (GO:0038155)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of activated T cell proliferation (GO:0042104)|positive regulation of defense response to virus by host (GO:0002230)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of memory T cell differentiation (GO:0043382)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|positive regulation of T-helper 1 type immune response (GO:0002827)|positive regulation of T-helper 17 cell lineage commitment (GO:2000330)|positive regulation of T-helper 17 type immune response (GO:2000318)|signal transduction (GO:0007165)	external side of plasma membrane (GO:0009897)|interleukin-12 receptor complex (GO:0042022)|interleukin-23 receptor complex (GO:0072536)	cytokine receptor activity (GO:0004896)	p.Q122Q(2)		endometrium(1)|kidney(1)|lung(3)|pancreas(1)|skin(2)	8						ACTTCTCTGTCTGGTTCCTGG	0.597																																																2	Substitution - coding silent(2)	kidney(2)											93	86	88					19																	18191685		2203	4300	6503	SO:0001819	synonymous_variant	3594			U03187	CCDS32957.1, CCDS54232.1	19p13.1	2014-09-17						"Interleukins and interleukin receptors", "CD molecules", "Fibronectin type III domain containing"	5971	protein-coding gene	gene with protein product		601604		IL12RB		9284929	Standard	XM_005259893		Approved	CD212	uc002nhw.1	P42701		ENST00000600835.2:c.366G>A	19.37:g.18191685C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K308|B2RPF1|B7ZKK3|Q8N6Q7	Silent	SNP	ENST00000600835.2	37	CCDS54232.1																																																																																				0.597	IL12RB1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466525.3			T	18191685	C	T	18191685	2	4	582	1	0	0	0	0	0	0	0	1	7633	912	32	2		2	IL12RB1	19	18191685	Silent	SNP	C	TCGA-EU-5907-01A-11D-1669-08		18191685	40937298	44	34577										
PRX	57716	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	40901528	40901528	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	ccgcccttcctcaatttccaCggcgggcagctgtggggtga	13	14	1	1	rs377457671		TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr19:40901528C>T	ENST00000324001.7	-	7	3001	c.2731G>A	c.(2731-2733)Gtg>Atg	p.V911M	PRX_ENST00000291825.7_3'UTR	NM_181882.2	NP_870998.2	Q9BXM0	PRAX_HUMAN	periaxin	911					axon ensheathment (GO:0008366)|cell death (GO:0008219)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)		p.V911M(1)		breast(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(7)|lung(12)|ovary(2)|prostate(3)|skin(1)|urinary_tract(9)	47			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TCAATTTCCACGGCGGGCAGC	0.587																																																1	Substitution - Missense(1)	kidney(1)						C	,MET/VAL	0,4406		0,0,2203	55	65	62		,2731	1.8	0	19		62	1,8599	1.2+/-3.3	0,1,4299	no	utr-3,missense	PRX	NM_020956.2,NM_181882.2	,21	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	,benign	,911/1462	40901528	1,13005	2203	4300	6503	SO:0001583	missense	57716			AB046840	CCDS12556.1, CCDS33028.1	19q13.2	2014-09-17				ENSG00000105227			13797	protein-coding gene	gene with protein product		605725				10839370, 9143514	Standard	NM_181882		Approved	KIAA1620	uc002onr.3	Q9BXM0		ENST00000324001.7:c.2731G>A	19.37:g.40901528C>T	ENSP00000326018:p.Val911Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BXL9|Q9HCF2	Missense_Mutation	SNP	ENST00000324001.7	37	CCDS33028.1	.	.	.	.	.	.	.	.	.	.	C	3.809	-0.040145	0.07497	0.0	1.16E-4	ENSG00000105227	ENST00000324001;ENST00000341562	T	0.01516	4.81	5.3	1.75	0.24633	.	1.789140	0.03368	N	0.198570	T	0.01558	0.0050	N	0.19112	0.55	0.09310	N	1	P	0.50710	0.938	B	0.37731	0.257	T	0.44982	-0.9292	10	0.48119	T	0.1	-2.7585	5.2098	0.15310	0.1425:0.3632:0.416:0.0783	.	911	Q9BXM0	PRAX_HUMAN	M	911	ENSP00000326018:V911M	ENSP00000326018:V911M	V	-	1	0	PRX	45593368	0.000000	0.05858	0.000000	0.03702	0.029000	0.11900	-0.067000	0.11579	0.175000	0.19841	0.650000	0.86243	GTG		0.587	PRX-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000462582.1	NM_020956		T	40901528	C	T	40901528	3	4	582	1	0	0	0	0	1	0	0	0	12652	536	19	1	1658	1	PRX	19	40901528	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08	22709843	40901528	18227455	45	34578										
SLC8A2	6543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	47969097	47969097	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	aggtgcttgatcttgcggctCtcgccggctgggatgacgta	15	10	2	2			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr19:47969097C>G	ENST00000236877.6	-	2	959	c.564G>C	c.(562-564)gaG>gaC	p.E188D	SLC8A2_ENST00000539381.1_Intron|SLC8A2_ENST00000542837.1_Intron	NM_015063.2	NP_055878.1	Q9UPR5	NAC2_HUMAN	solute carrier family 8 (sodium/calcium exchanger), member 2	188					blood coagulation (GO:0007596)|cell communication (GO:0007154)|ion transport (GO:0006811)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium:sodium antiporter activity (GO:0005432)	p.E188D(1)		breast(1)|endometrium(4)|kidney(2)|large_intestine(4)|lung(10)|ovary(2)|prostate(2)|skin(5)|stomach(1)	31		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		TCTTGCGGCTCTCGCCGGCTG	0.572																																																1	Substitution - Missense(1)	kidney(1)											66	47	53					19																	47969097		2203	4300	6503	SO:0001583	missense	6543			AB029010	CCDS33065.1	19q13.32	2013-07-15	2008-09-02		ENSG00000118160	ENSG00000118160		"Solute carriers"	11069	protein-coding gene	gene with protein product		601901				8021246	Standard	NM_015063		Approved	NCX2, KIAA1087	uc002pgx.3	Q9UPR5	OTTHUMG00000183529	ENST00000236877.6:c.564G>C	19.37:g.47969097C>G	ENSP00000236877:p.Glu188Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYQ9	Missense_Mutation	SNP	ENST00000236877.6	37	CCDS33065.1	.	.	.	.	.	.	.	.	.	.	C	17.24	3.340365	0.60963	.	.	ENSG00000118160	ENST00000391903;ENST00000236877	T	0.65178	-0.14	4.04	4.04	0.47022	Sodium/calcium exchanger membrane region (1);	0.000000	0.85682	D	0.000000	T	0.78084	0.4228	M	0.88512	2.96	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.80764	0.994;0.984	T	0.79761	-0.1667	10	0.66056	D	0.02	.	6.0397	0.19728	0.0:0.7885:0.0:0.2115	.	16;188	E9PGS7;Q9UPR5	.;NAC2_HUMAN	D	16;188	ENSP00000236877:E188D	ENSP00000236877:E188D	E	-	3	2	SLC8A2	52660909	0.038000	0.19896	1.000000	0.80357	0.993000	0.82548	0.464000	0.21988	2.098000	0.63641	0.462000	0.41574	GAG		0.572	SLC8A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466997.1			G	47969097	C	G	47969097	3	3	582	1	0	0	0	0	1	0	0	0	14720	912	32	4	2237	4	SLC8A2	19	47969097	Missense_Mutation	SNP	C	TCGA-EU-5907-01A-11D-1669-08	7067569	47969097	11159886	46	34579										
EPB41L1	2036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	34776292	34776292	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	tctgagggcatcgacatcatGttaggcgtttgtgccaatgg	13	8	2	1			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr20:34776292G>T	ENST00000338074.2	+	9	1058	c.897G>T	c.(895-897)atG>atT	p.M299I	EPB41L1_ENST00000441639.1_Missense_Mutation_p.M237I|EPB41L1_ENST00000202028.5_Missense_Mutation_p.M237I|EPB41L1_ENST00000373946.3_Missense_Mutation_p.M268I|EPB41L1_ENST00000373950.2_Missense_Mutation_p.M202I|EPB41L1_ENST00000373941.1_Missense_Mutation_p.M299I	NM_001258329.1|NM_012156.2	NP_001245258.1|NP_036288.2	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	299	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.				cortical actin cytoskeleton organization (GO:0030866)|synaptic transmission (GO:0007268)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extrinsic component of membrane (GO:0019898)|plasma membrane (GO:0005886)	structural molecule activity (GO:0005198)	p.M299I(1)		breast(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(10)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	37	Breast(12;0.0239)					TCGACATCATGTTAGGCGTTT	0.572																																																1	Substitution - Missense(1)	kidney(1)											148	137	141					20																	34776292		2203	4300	6503	SO:0001583	missense	2036			AB002336	CCDS13271.1, CCDS13272.1, CCDS58771.1	20q11.2-q12	2003-03-17			ENSG00000088367	ENSG00000088367			3378	protein-coding gene	gene with protein product		602879				9570967, 9828140	Standard	NM_012156		Approved	KIAA0338	uc002xfb.3	Q9H4G0	OTTHUMG00000032378	ENST00000338074.2:c.897G>T	20.37:g.34776292G>T	ENSP00000337168:p.Met299Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O15046|Q4VXM6|Q4VXM7|Q4VXM8|Q4VXN4|Q6ZT61|Q8IUU7|Q96CV5|Q96L65	Missense_Mutation	SNP	ENST00000338074.2	37	CCDS13271.1	.	.	.	.	.	.	.	.	.	.	G	33	5.203386	0.95033	.	.	ENSG00000088367	ENST00000202028;ENST00000430276;ENST00000373950;ENST00000397315;ENST00000373951;ENST00000441639;ENST00000373946;ENST00000338074;ENST00000373941	D;T;D;D;D;D;D	0.86297	-2.1;-1.1;-2.1;-2.1;-2.1;-2.1;-2.1	5.75	5.75	0.90469	FERM, C-terminal PH-like domain (1);FERM domain (1);Pleckstrin homology-type (1);	.	.	.	.	D	0.90896	0.7139	L	0.48362	1.52	0.80722	D	1	P;D;P;D;B;B	0.58268	0.566;0.969;0.556;0.982;0.089;0.119	P;D;B;D;B;B	0.68943	0.545;0.959;0.118;0.961;0.062;0.098	D	0.88254	0.2918	9	0.27082	T	0.32	.	18.5116	0.90918	0.0:0.0:1.0:0.0	.	299;299;268;202;202;237	B7Z653;Q9H4G0;Q9H4G0-4;Q9H4G0-3;B3KUB6;Q9H4G0-2	.;E41L1_HUMAN;.;.;.;.	I	237;237;202;299;202;237;268;299;299	ENSP00000202028:M237I;ENSP00000404341:M237I;ENSP00000363061:M202I;ENSP00000399214:M237I;ENSP00000363057:M268I;ENSP00000337168:M299I;ENSP00000363052:M299I	ENSP00000202028:M237I	M	+	3	0	EPB41L1	34239706	1.000000	0.71417	1.000000	0.80357	0.963000	0.63663	9.869000	0.99810	2.721000	0.93114	0.561000	0.74099	ATG		0.572	EPB41L1-008	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000078978.3	NM_012156		T	34776292	G	T	34776292	3	4	582	1	0	0	0	0	1	0	0	0	5154	1377	48	4	927	4	EPB41L1	20	34776292	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08		34776292	28249228	47	34580										
PIGT	51604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44045233	44045233	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	ctacgggagctgcacctgtcAttcacacaaggcttttggag	11	11	2	0			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr20:44045233A>G	ENST00000279036.6	+	2	344	c.264A>G	c.(262-264)tcA>tcG	p.S88S	PIGT_ENST00000372689.5_Silent_p.S88S|PIGT_ENST00000545755.1_Intron|PIGT_ENST00000341555.5_Intron|PIGT_ENST00000279035.9_Intron|PIGT_ENST00000535404.1_5'UTR|PIGT_ENST00000543458.2_Silent_p.S88S	NM_015937.5	NP_057021.2	Q969N2	PIGT_HUMAN	phosphatidylinositol glycan anchor biosynthesis, class T	88					attachment of GPI anchor to protein (GO:0016255)|C-terminal protein lipidation (GO:0006501)|cellular protein metabolic process (GO:0044267)|neuron apoptotic process (GO:0051402)|neuron differentiation (GO:0030182)|post-translational protein modification (GO:0043687)	cytoplasmic membrane-bounded vesicle (GO:0016023)|endoplasmic reticulum membrane (GO:0005789)|GPI-anchor transamidase complex (GO:0042765)|integral component of endoplasmic reticulum membrane (GO:0030176)|membrane (GO:0016020)	GPI-anchor transamidase activity (GO:0003923)	p.S88S(2)		breast(1)|endometrium(2)|kidney(5)|large_intestine(4)|lung(7)|pancreas(1)|skin(1)|stomach(1)	22		Myeloproliferative disorder(115;0.0122)				TGCACCTGTCATTCACACAAG	0.577																																																2	Substitution - coding silent(2)	kidney(2)											43	42	42					20																	44045233		2203	4300	6503	SO:0001819	synonymous_variant	51604				CCDS13353.1, CCDS54464.1, CCDS54465.1, CCDS54466.1	20q12-q13.12	2013-02-26	2006-06-28		ENSG00000124155	ENSG00000124155		"Phosphatidylinositol glycan anchor biosynthesis"	14938	protein-coding gene	gene with protein product	"GPI transamidase subunit"	610272	"phosphatidylinositol glycan, class T"			15713669	Standard	NM_015937		Approved		uc002xoh.3	Q969N2	OTTHUMG00000032574	ENST00000279036.6:c.264A>G	20.37:g.44045233A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RND5|B7Z3N1|B7Z7I8|E1P622|G8JLF5|Q2NL69|Q7Z3N7|Q9BQY7|Q9BQY8|Q9UJG6|Q9Y2Z5	Silent	SNP	ENST00000279036.6	37	CCDS13353.1																																																																																				0.577	PIGT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079434.2	NM_015937		G	44045233	A	G	44045233	2	3	582	1	0	0	0	0	0	0	0	1	11906	204	8	3		3	PIGT	20	44045233	Silent	SNP	A	TCGA-EU-5907-01A-11D-1669-08	9268941	44045233	18980287	48	34581										
PIGT	51604	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr20	44045300	44045300	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	tgcaggccccatcaggtgcaGagctgtgggtctggttccaa	14	11	2	1			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr20:44045300G>A	ENST00000279036.6	+	2	411	c.331G>A	c.(331-333)Gag>Aag	p.E111K	PIGT_ENST00000372689.5_Missense_Mutation_p.E111K|PIGT_ENST00000545755.1_Intron|PIGT_ENST00000341555.5_Intron|PIGT_ENST00000279035.9_Intron|PIGT_ENST00000535404.1_5'UTR|PIGT_ENST00000543458.2_Intron	NM_015937.5	NP_057021.2	Q969N2	PIGT_HUMAN	phosphatidylinositol glycan anchor biosynthesis, class T	111					attachment of GPI anchor to protein (GO:0016255)|C-terminal protein lipidation (GO:0006501)|cellular protein metabolic process (GO:0044267)|neuron apoptotic process (GO:0051402)|neuron differentiation (GO:0030182)|post-translational protein modification (GO:0043687)	cytoplasmic membrane-bounded vesicle (GO:0016023)|endoplasmic reticulum membrane (GO:0005789)|GPI-anchor transamidase complex (GO:0042765)|integral component of endoplasmic reticulum membrane (GO:0030176)|membrane (GO:0016020)	GPI-anchor transamidase activity (GO:0003923)	p.E111K(2)		breast(1)|endometrium(2)|kidney(5)|large_intestine(4)|lung(7)|pancreas(1)|skin(1)|stomach(1)	22		Myeloproliferative disorder(115;0.0122)				ATCAGGTGCAGAGCTGTGGGT	0.577																																																2	Substitution - Missense(2)	kidney(2)											54	45	48					20																	44045300		2203	4300	6503	SO:0001583	missense	51604				CCDS13353.1, CCDS54464.1, CCDS54465.1, CCDS54466.1	20q12-q13.12	2013-02-26	2006-06-28		ENSG00000124155	ENSG00000124155		"Phosphatidylinositol glycan anchor biosynthesis"	14938	protein-coding gene	gene with protein product	"GPI transamidase subunit"	610272	"phosphatidylinositol glycan, class T"			15713669	Standard	NM_015937		Approved		uc002xoh.3	Q969N2	OTTHUMG00000032574	ENST00000279036.6:c.331G>A	20.37:g.44045300G>A	ENSP00000279036:p.Glu111Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RND5|B7Z3N1|B7Z7I8|E1P622|G8JLF5|Q2NL69|Q7Z3N7|Q9BQY7|Q9BQY8|Q9UJG6|Q9Y2Z5	Missense_Mutation	SNP	ENST00000279036.6	37	CCDS13353.1	.	.	.	.	.	.	.	.	.	.	G	37	6.123245	0.97305	.	.	ENSG00000124155	ENST00000372689;ENST00000279036	T;T	0.57595	0.39;0.39	5.95	5.95	0.96441	.	0.000000	0.85682	D	0.000000	T	0.79387	0.4437	M	0.91872	3.25	0.80722	D	1	D;D	0.69078	0.997;0.989	D;P	0.71414	0.973;0.824	T	0.82829	-0.0264	10	0.72032	D	0.01	-28.5787	19.3629	0.94448	0.0:0.0:1.0:0.0	.	111;111	B7Z7C5;Q969N2	.;PIGT_HUMAN	K	111	ENSP00000361774:E111K;ENSP00000279036:E111K	ENSP00000279036:E111K	E	+	1	0	PIGT	43478714	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	9.455000	0.97625	2.817000	0.96982	0.563000	0.77884	GAG		0.577	PIGT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079434.2	NM_015937		A	44045300	G	A	44045300	3	1	582	1	0	0	0	0	1	0	0	0	11906	943	33	2	337	2	PIGT	20	44045300	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08	67	44045300	18980220	49	34582										
B4GALT5	9334	broad.mit.edu	37	chr20	48330184	48330184	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	agaagaagagcgcggcgagcAgcgagcggcgcggcagccgc	19	12	0	3			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr20:48330184A>T	ENST00000371711.4	-	1	231	c.44T>A	c.(43-45)cTg>cAg	p.L15Q		NM_004776.3	NP_004767.1	O43286	B4GT5_HUMAN	UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 5	15					carbohydrate metabolic process (GO:0005975)|cellular protein metabolic process (GO:0044267)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate metabolic process (GO:0042339)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	galactosyltransferase activity (GO:0008378)|metal ion binding (GO:0046872)	p.L15Q(1)		breast(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(8)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	20			BRCA - Breast invasive adenocarcinoma(9;2.51e-06)			CGCGGCGAGCAGCGAGCGGCG	0.721																																																1	Substitution - Missense(1)	kidney(1)											5	8	7					20																	48330184		2066	4150	6216	SO:0001583	missense	9334			AB004550	CCDS13420.1	20q13.1-q13.2	2013-02-19			ENSG00000158470	ENSG00000158470		"Beta 4-glycosyltransferases"	928	protein-coding gene	gene with protein product	"beta4-GalT IV"	604016				9597550, 9435216	Standard	NM_004776		Approved	beta4GalT-V	uc002xuu.4	O43286	OTTHUMG00000033086	ENST00000371711.4:c.44T>A	20.37:g.48330184A>T	ENSP00000360776:p.Leu15Gln	Somatic		WXS	Illumina GAIIx	Phase_I	E1P625|Q2M394|Q9UJQ8	Missense_Mutation	SNP	ENST00000371711.4	37	CCDS13420.1	.	.	.	.	.	.	.	.	.	.	A	14.00	2.405520	0.42715	.	.	ENSG00000158470	ENST00000371711	T	0.47528	0.84	2.66	1.52	0.23074	.	0.400832	0.23539	U	0.047091	T	0.32255	0.0823	L	0.48642	1.525	0.38374	D	0.944945	P	0.48694	0.914	B	0.36030	0.216	T	0.15065	-1.0450	10	0.49607	T	0.09	-0.0625	6.6252	0.22826	0.8706:0.0:0.1294:0.0	.	15	O43286	B4GT5_HUMAN	Q	15	ENSP00000360776:L15Q	ENSP00000360776:L15Q	L	-	2	0	B4GALT5	47763591	1.000000	0.71417	0.811000	0.32455	0.742000	0.42306	3.248000	0.51430	0.161000	0.19458	0.156000	0.16432	CTG		0.721	B4GALT5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080543.3	NM_004776		T	48330184	A	T	48330184	3	4	582	1	0	0	0	0	1	0	0	0	1274	188	7	5	1158	5	B4GALT5	20	48330184	Missense_Mutation	SNP	A	TCGA-EU-5907-01A-11D-1669-08	4284884	48330184	14695336	50	34583										
EIF3L	51386	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr22	38274117	38274117	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0980392156862745	5	1	1.3953488372093	1.97885835095137	0.967441860465116	1	1	0	gaacctcgtgtggaccagcgGtatctcagccctggatggtg	14	11	1	0			TCGA-EU-5907-01A-11D-1669-08	TCGA-EU-5907-10A-01D-1669-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5fded36e-05ba-4cce-8303-738f5b04ad16	fbe54bba-5614-4f31-9139-0fa08b9d72bb	g.chr22:38274117G>T	ENST00000412331.2	+	11	2096	c.1514G>T	c.(1513-1515)gGt>gTt	p.G505V	EIF3L_ENST00000406934.1_Missense_Mutation_p.G407V|EIF3L_ENST00000381683.6_Missense_Mutation_p.G457V	NM_016091.3	NP_057175.1			eukaryotic translation initiation factor 3, subunit L									p.G505V(1)		kidney(2)|large_intestine(3)|lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	15						TGGACCAGCGGTATCTCAGCC	0.522																																																1	Substitution - Missense(1)	kidney(1)											66	63	64					22																	38274117		2179	4239	6418	SO:0001583	missense	51386			AF083243	CCDS13960.1, CCDS56230.1	22q	2012-12-20	2009-01-07	2009-01-07	ENSG00000100129	ENSG00000100129			18138	protein-coding gene	gene with protein product			"eukaryotic translation initiation factor 3, subunit 6 interacting protein", "eukaryotic translation initiation factor 3, subunit E interacting protein"	EIF3S6IP, EIF3EIP		11042152, 11590142	Standard	NM_016091		Approved	HSPC021, HSPC025, EIF3S11	uc003auf.3	Q9Y262	OTTHUMG00000150671	ENST00000412331.2:c.1514G>T	22.37:g.38274117G>T	ENSP00000416892:p.Gly505Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000412331.2	37	CCDS13960.1	.	.	.	.	.	.	.	.	.	.	g	16.49	3.138321	0.56936	.	.	ENSG00000100129	ENST00000412331;ENST00000425539;ENST00000381683;ENST00000262832;ENST00000406934;ENST00000450376	T;T;T;T	0.50001	0.76;0.76;0.76;0.76	5.07	5.07	0.68467	.	0.000000	0.85682	D	0.000000	T	0.76076	0.3937	M	0.91300	3.195	0.80722	D	1	D;D;D;D	0.89917	0.992;0.991;1.0;1.0	D;D;D;D	0.79108	0.926;0.92;0.986;0.992	T	0.81784	-0.0774	10	0.62326	D	0.03	-18.4534	18.8132	0.92065	0.0:0.0:1.0:0.0	.	457;407;505;548	B4DYB2;B0QY90;Q9Y262;B0QY89	.;.;EIF3L_HUMAN;.	V	505;548;457;472;407;17	ENSP00000416892:G505V;ENSP00000371099:G457V;ENSP00000384634:G407V;ENSP00000412349:G17V	ENSP00000262832:G472V	G	+	2	0	EIF3L	36604063	1.000000	0.71417	1.000000	0.80357	0.194000	0.23727	9.824000	0.99380	2.497000	0.84241	0.443000	0.29094	GGT		0.522	EIF3L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319551.2	NM_016091		T	38274117	G	T	38274117	3	4	582	1	0	0	0	0	1	0	0	0	5024	1261	44	4	1556	4	EIF3L	22	38274117	Missense_Mutation	SNP	G	TCGA-EU-5907-01A-11D-1669-08		38274117	13030449	51	34584										
C1orf94	84970	ucsc.edu	37	chr1	34677972	34677972	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	gaccctcccctaatggcaggAgatggaccgcagtacctctt	10	14	1	1			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr1:34677972A>G	ENST00000488417.1	+	6	1806	c.1686A>G	c.(1684-1686)ggA>ggG	p.G562G	C1orf94_ENST00000373374.3_Silent_p.G372G	NM_001134734.1	NP_001128206.1	Q6P1W5	CA094_HUMAN	chromosome 1 open reading frame 94	562										central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(5)|lung(15)|skin(4)|upper_aerodigestive_tract(2)	32		Myeloproliferative disorder(586;0.0393)				TAATGGCAGGAGATGGACCGC	0.567																																																0													83	73	77					1																	34677972		2203	4300	6503	SO:0001819	synonymous_variant	84970			AK123355	CCDS381.1, CCDS44108.1	1p34.3	2012-06-26			ENSG00000142698	ENSG00000142698			28250	protein-coding gene	gene with protein product						12477932	Standard	NM_001134734		Approved	MGC15882	uc001bxt.3	Q6P1W5	OTTHUMG00000004012	ENST00000488417.1:c.1686A>G	1.37:g.34677972A>G		Somatic		WXS	Illumina HiSeq		B3KVT1|D3DPR3|E9PJ76|Q96IC8	Silent	SNP	ENST00000488417.1	37	CCDS44108.1																																																																																				0.567	C1orf94-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000036845.2	NM_032884		G	34677972	A	G	34677972	2	3	583	1	0	0	0	0	0	0	0	1	2073	291	11	3		3	C1orf94	1	34677972	Silent	SNP	A	TCGA-EV-5901-01A-11D-1589-08		34677972	214572649	1	34585										
RNF115	27246	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	145688091	145688091	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	aatatttttctgtttcagcaTgacacatgtcctgtatgtag	7	7	2	1			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr1:145688091T>A	ENST00000369291.5	+	9	990	c.786T>A	c.(784-786)caT>caA	p.H262Q		NM_014455.2	NP_055270.1			ring finger protein 115											breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|lung(4)|ovary(1)|upper_aerodigestive_tract(1)	13						TGTTTCAGCATGACACATGTC	0.418																																																0													117	112	114					1																	145688091		2203	4300	6503	SO:0001583	missense	27246			AF419857	CCDS72863.1	1q12	2013-01-09	2008-06-16	2008-06-16	ENSG00000121848	ENSG00000265491		"RING-type (C3HC4) zinc fingers"	18154	protein-coding gene	gene with protein product			"zinc finger protein 364"	ZNF364			Standard	NM_014455		Approved	CL469780	uc001eoj.3	Q9Y4L5	OTTHUMG00000013758	ENST00000369291.5:c.786T>A	1.37:g.145688091T>A	ENSP00000358297:p.His262Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000369291.5	37	CCDS922.1	.	.	.	.	.	.	.	.	.	.	T	18.57	3.651541	0.67472	.	.	ENSG00000121848	ENST00000369291	T	0.41758	0.99	5.65	0.199	0.15175	Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, RING-type (2);Zinc finger, RING-H2-type (1);	0.000000	0.85682	D	0.000000	T	0.35624	0.0938	L	0.38733	1.17	0.54753	D	0.999989	D	0.71674	0.998	D	0.69824	0.966	T	0.27971	-1.0058	10	0.72032	D	0.01	-5.7379	9.6735	0.40026	0.0:0.5176:0.0:0.4824	.	262	Q9Y4L5	RN115_HUMAN	Q	262	ENSP00000358297:H262Q	ENSP00000358297:H262Q	H	+	3	2	RNF115	144399448	0.949000	0.32298	0.997000	0.53966	0.972000	0.66771	-0.007000	0.12810	-0.112000	0.11979	0.533000	0.62120	CAT		0.418	RNF115-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000038554.2	NM_014455		A	145688091	T	A	145688091	3	1	583	1	0	0	0	0	1	0	0	0	13443	1461	51	5	820	5	RNF115	1	145688091	Missense_Mutation	SNP	T	TCGA-EV-5901-01A-11D-1589-08	111010119	145688091	103562530	2	34586										
ANP32E	81611	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	150201557	150201557	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	acaggtcaagacttttcaaaTttttaagattttgctggaaa	7	5	2	2			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr1:150201557T>G	ENST00000314136.8	-	4	710	c.341A>C	c.(340-342)aAt>aCt	p.N114T	ANP32E_ENST00000369116.4_Intron|ANP32E_ENST00000369115.2_Intron|ANP32E_ENST00000533654.1_Intron|ANP32E_ENST00000436748.2_Missense_Mutation_p.N73T|ANP32E_ENST00000369114.5_Intron|ANP32E_ENST00000369119.3_Missense_Mutation_p.N66T	NM_001136478.2|NM_001280559.1|NM_030920.3	NP_001129950.1|NP_001267488.1|NP_112182.1	Q9BTT0	AN32E_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32 family, member E	114					histone exchange (GO:0043486)|negative regulation of catalytic activity (GO:0043086)	cytoplasmic membrane-bounded vesicle (GO:0016023)|nucleus (GO:0005634)|Swr1 complex (GO:0000812)	histone binding (GO:0042393)|phosphatase inhibitor activity (GO:0019212)			breast(3)|endometrium(3)|lung(7)|skin(1)|urinary_tract(1)	15	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			ACTTTTCAAATTTTTAAGATT	0.264																																																0													34	35	34					1																	150201557		2202	4300	6502	SO:0001583	missense	81611			AK092672	CCDS946.1, CCDS44214.1, CCDS44215.1, CCDS60245.1	1q22	2008-02-05			ENSG00000143401	ENSG00000143401		"ANP32 acidic nuclear phosphoproteins"	16673	protein-coding gene	gene with protein product		609611				12438741	Standard	NM_030920		Approved	LANPL, MGC5350, LANP-L	uc001etw.3	Q9BTT0	OTTHUMG00000012547	ENST00000314136.8:c.341A>C	1.37:g.150201557T>G	ENSP00000324074:p.Asn114Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4E0I6|E9PEA6|Q5TB18|Q5TB20|Q8N1S4|Q8WWW9	Missense_Mutation	SNP	ENST00000314136.8	37	CCDS946.1	.	.	.	.	.	.	.	.	.	.	T	16.11	3.030304	0.54790	.	.	ENSG00000143401	ENST00000314136;ENST00000369119;ENST00000436748;ENST00000532744	T;T;T;T	0.13307	2.6;2.6;7.97;2.6	5.97	3.58	0.41010	.	0.126247	0.64402	D	0.000001	T	0.13713	0.0332	L	0.60012	1.86	0.80722	D	1	D;B;D	0.61080	0.989;0.15;0.978	P;B;P	0.59221	0.854;0.295;0.776	T	0.01909	-1.1249	10	0.52906	T	0.07	.	6.1046	0.20067	0.1475:0.1013:0.0:0.7512	.	73;114;66	E9PEA6;Q9BTT0;Q5TB20	.;AN32E_HUMAN;.	T	114;66;73;64	ENSP00000324074:N114T;ENSP00000358115:N66T;ENSP00000393718:N73T;ENSP00000432684:N64T	ENSP00000324074:N114T	N	-	2	0	ANP32E	148468181	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	1.568000	0.36418	1.023000	0.39654	0.533000	0.62120	AAT		0.264	ANP32E-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000035056.1	NM_030920		G	150201557	T	G	150201557	3	3	583	1	0	0	0	0	1	0	0	0	709	1493	52	5	481	5	ANP32E	1	150201557	Missense_Mutation	SNP	T	TCGA-EV-5901-01A-11D-1589-08	4513466	150201557	99049064	3	34587										
NHLH1	4807	broad.mit.edu;bcgsc.ca	37	chr1	160340735	160340735	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	agcgccggcgccggcgccgcGccacagccaagtaccgcacg	14	19	0	0			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr1:160340735G>A	ENST00000302101.5	+	2	660	c.214G>A	c.(214-216)Gcc>Acc	p.A72T		NM_005598.3	NP_005589.1	Q02575	HEN1_HUMAN	nescient helix loop helix 1	72					cell differentiation (GO:0030154)|central nervous system development (GO:0007417)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	nucleus (GO:0005634)	RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)			breast(2)|endometrium(1)|large_intestine(1)|lung(2)|ovary(1)	7	all_cancers(52;7.11e-19)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			ccggcgccgcgccACAGCCAA	0.731																																																0													15	18	17					1																	160340735		2197	4289	6486	SO:0001583	missense	4807			BC013789	CCDS1204.1	1q22	2013-05-21			ENSG00000171786	ENSG00000171786		"Basic helix-loop-helix proteins"	7817	protein-coding gene	gene with protein product		162360		HEN1			Standard	NM_005598		Approved	NSCL, NSCL1, bHLHa35	uc001fwa.2	Q02575	OTTHUMG00000033121	ENST00000302101.5:c.214G>A	1.37:g.160340735G>A	ENSP00000302189:p.Ala72Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000302101.5	37	CCDS1204.1	.	.	.	.	.	.	.	.	.	.	G	22.5	4.300368	0.81136	.	.	ENSG00000171786	ENST00000302101	D	0.95756	-3.8	4.05	4.05	0.47172	Helix-loop-helix DNA-binding (2);	0.000000	0.52532	D	0.000061	T	0.82056	0.4954	N	0.12182	0.205	0.58432	D	0.999999	P	0.36199	0.543	B	0.17098	0.017	D	0.84431	0.0577	10	0.30078	T	0.28	-19.7981	15.3083	0.74011	0.0:0.0:1.0:0.0	.	72	Q02575	HEN1_HUMAN	T	72	ENSP00000302189:A72T	ENSP00000302189:A72T	A	+	1	0	NHLH1	158607359	1.000000	0.71417	0.998000	0.56505	0.998000	0.95712	6.506000	0.73712	2.238000	0.73509	0.655000	0.94253	GCC		0.731	NHLH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080676.1	NM_005598		A	160340735	G	A	160340735	3	1	583	1	0	0	0	0	1	0	0	0	10410	1087	38	1	216	1	NHLH1	1	160340735	Missense_Mutation	SNP	G	TCGA-EV-5901-01A-11D-1589-08	10139178	160340735	88909886	4	34588										
ARHGAP30	257106	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	161021130	161021130	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	ggccagggccaaggccagggCcagggccagggccagaggca	19	13	0	1			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr1:161021130C>A	ENST00000368013.3	-	10	1714	c.1394G>T	c.(1393-1395)gGc>gTc	p.G465V	ARHGAP30_ENST00000368016.3_Missense_Mutation_p.G465V|ARHGAP30_ENST00000368015.1_Missense_Mutation_p.G288V	NM_001025598.1|NM_181720.2	NP_001020769.1|NP_859071.2	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30	465					regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)	GTPase activator activity (GO:0005096)			breast(2)|cervix(3)|endometrium(4)|kidney(2)|large_intestine(4)|lung(6)|ovary(4)|pancreas(1)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	37	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			aaggccagggccagggccagg	0.612																																																0													29	31	30					1																	161021130		2203	4298	6501	SO:0001583	missense	257106			AL832852	CCDS1215.1, CCDS30918.1, CCDS72958.1	1q23.3	2011-06-29			ENSG00000186517	ENSG00000186517		"Rho GTPase activating proteins"	27414	protein-coding gene	gene with protein product		614264					Standard	NM_001287602		Approved	FLJ00267	uc001fxl.3	Q7Z6I6	OTTHUMG00000031477	ENST00000368013.3:c.1394G>T	1.37:g.161021130C>A	ENSP00000356992:p.Gly465Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SY52|Q5SY53|Q5SY54|Q6ZML6|Q7Z3J8|Q86XI7	Missense_Mutation	SNP	ENST00000368013.3	37	CCDS30918.1	.	.	.	.	.	.	.	.	.	.	C	14.77	2.633427	0.47049	.	.	ENSG00000186517	ENST00000368016;ENST00000368013;ENST00000368017;ENST00000368015	T;T;T	0.48201	2.6;2.35;0.82	3.83	3.83	0.44106	.	0.323164	0.22031	N	0.065593	T	0.37461	0.1004	L	0.27053	0.805	0.49389	D	0.999786	B;D	0.61697	0.354;0.99	B;P	0.57152	0.074;0.814	T	0.37407	-0.9707	10	0.72032	D	0.01	.	11.4473	0.50131	0.0:1.0:0.0:0.0	.	465;465	Q7Z6I6;Q7Z6I6-2	RHG30_HUMAN;.	V	465;465;317;288	ENSP00000356995:G465V;ENSP00000356992:G465V;ENSP00000356994:G288V	ENSP00000356992:G465V	G	-	2	0	ARHGAP30	159287754	0.992000	0.36948	0.997000	0.53966	0.998000	0.95712	3.749000	0.55150	2.131000	0.65755	0.555000	0.69702	GGC		0.612	ARHGAP30-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077090.2	NM_181720		A	161021130	C	A	161021130	3	1	583	1	0	0	0	0	1	0	0	0	879	739	26	4	1923	4	ARHGAP30	1	161021130	Missense_Mutation	SNP	C	TCGA-EV-5901-01A-11D-1589-08	680395	161021130	88229491	5	34589										
VPS54	51542	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	64199372	64199372	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	cttgcatctctcatgaatctTctctctctaataaaaagaca	3	11	5	2			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr2:64199372T>A	ENST00000272322.4	-	4	539	c.385A>T	c.(385-387)Aag>Tag	p.K129*	VPS54_ENST00000354504.3_Nonsense_Mutation_p.K12*|VPS54_ENST00000409558.4_Nonsense_Mutation_p.K117*			Q9P1Q0	VPS54_HUMAN	vacuolar protein sorting 54 homolog (S. cerevisiae)	129					growth (GO:0040007)|homeostasis of number of cells within a tissue (GO:0048873)|musculoskeletal movement (GO:0050881)|neurofilament cytoskeleton organization (GO:0060052)|protein transport (GO:0015031)|retrograde transport, endosome to Golgi (GO:0042147)	GARP complex (GO:0000938)				endometrium(3)|kidney(4)|large_intestine(8)|lung(10)|ovary(1)|upper_aerodigestive_tract(1)	27						TCATGAATCTTCTCTCTCTAA	0.303																																																0													69	67	68					2																	64199372		2202	4292	6494	SO:0001587	stop_gained	51542			AF102177	CCDS33208.1, CCDS46302.1	2p15-p14	2014-06-13	2006-12-19		ENSG00000143952	ENSG00000143952			18652	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 164"	614633	"vacuolar protein sorting 54 (yeast)"			12039048	Standard	NM_016516		Approved	HCC8, PPP1R164	uc002scq.3	Q9P1Q0	OTTHUMG00000152627	ENST00000272322.4:c.385A>T	2.37:g.64199372T>A	ENSP00000272322:p.Lys129*	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VIR5|Q86YF7|Q8N6G3|Q9NPV0|Q9NT07|Q9NUJ0	Nonsense_Mutation	SNP	ENST00000272322.4	37	CCDS33208.1	.	.	.	.	.	.	.	.	.	.	T	42	9.754681	0.99256	.	.	ENSG00000143952	ENST00000354504;ENST00000272322;ENST00000409558;ENST00000483277;ENST00000394400	.	.	.	5.66	5.66	0.87406	.	0.089994	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	15.8882	0.79269	0.0:0.0:0.0:1.0	.	.	.	.	X	12;129;117;117;129	.	ENSP00000272322:K129X	K	-	1	0	VPS54	64052876	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	5.116000	0.64661	2.166000	0.68216	0.454000	0.30748	AAG		0.303	VPS54-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327062.2	NM_016516		A	64199372	T	A	64199372	4	1	583	1	0	0	0	0	0	1	0	0	17228	1792	62	5	2628	5	VPS54	2	64199372	Nonsense_Mutation	SNP	T	TCGA-EV-5901-01A-11D-1589-08		64199372	179000001	6	34590										
ARID5A	10865	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	97216937	97216937	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	cagcagggcctggcctctggGtcttctgtgtcctttgtggg	15	11	3	0			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr2:97216937G>A	ENST00000357485.3	+	7	750	c.672G>A	c.(670-672)ggG>ggA	p.G224G	ARID5A_ENST00000454558.2_Silent_p.G156G	NM_212481.1	NP_997646.1	Q03989	ARI5A_HUMAN	AT rich interactive domain 5A (MRF1-like)	224					chondrocyte differentiation (GO:0002062)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of histone acetylation (GO:0035066)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nucleolus (GO:0005730)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			endometrium(1)|kidney(1)|large_intestine(1)|lung(6)|prostate(2)|skin(1)|urinary_tract(2)	14						TGGCCTCTGGGTCTTCTGTGT	0.602																																																0													56	61	60					2																	97216937		2203	4300	6503	SO:0001819	synonymous_variant	10865			M62324	CCDS33251.1	2p11.1	2013-02-07			ENSG00000196843	ENSG00000196843		"-"	17361	protein-coding gene	gene with protein product	"modulator recognition factor 1"	611583				8649988	Standard	NM_212481		Approved	MRF-1, RP11-363D14	uc002swe.3	Q03989	OTTHUMG00000155229	ENST00000357485.3:c.672G>A	2.37:g.97216937G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6NX37	Silent	SNP	ENST00000357485.3	37	CCDS33251.1																																																																																				0.602	ARID5A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338888.2	NM_212481		A	97216937	G	A	97216937	2	1	583	1	0	0	0	0	0	0	0	1	921	1248	44	2		2	ARID5A	2	97216937	Silent	SNP	G	TCGA-EV-5901-01A-11D-1589-08	33017565	97216937	145982436	7	34591										
CNNM4	26504	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	97427340	97427340	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	tgtcgggcatattttctggcCtcaacctcgggcttatggcc	11	12	2	0			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr2:97427340C>A	ENST00000377075.2	+	1	702	c.604C>A	c.(604-606)Ctc>Atc	p.L202I		NM_020184.3	NP_064569.3	Q6P4Q7	CNNM4_HUMAN	cyclin and CBS domain divalent metal cation transport mediator 4	202	DUF21.				biomineral tissue development (GO:0031214)|ion transport (GO:0006811)|response to stimulus (GO:0050896)|visual perception (GO:0007601)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	adenyl nucleotide binding (GO:0030554)			breast(2)|endometrium(4)|kidney(1)|large_intestine(1)|lung(9)|ovary(1)|prostate(2)	20						ATTTTCTGGCCTCAACCTCGG	0.587																																																0													85	92	89					2																	97427340		2203	4300	6503	SO:0001583	missense	26504			AB046812	CCDS2024.2	2q11.2	2014-08-08	2014-08-07		ENSG00000158158	ENSG00000158158			105	protein-coding gene	gene with protein product		607805	"cyclin M4"	ACDP4		21393841, 24194943	Standard	XM_005263914		Approved	KIAA1592	uc002swx.3	Q6P4Q7	OTTHUMG00000130532	ENST00000377075.2:c.604C>A	2.37:g.97427340C>A	ENSP00000366275:p.Leu202Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z1U0|C7SQM3|C7SQM4|C7SQM5|Q53RE5|Q9H9G3|Q9HCI0|Q9NRN1	Missense_Mutation	SNP	ENST00000377075.2	37	CCDS2024.2	.	.	.	.	.	.	.	.	.	.	c	20.6	4.021298	0.75275	.	.	ENSG00000158158	ENST00000377075	D	0.89485	-2.52	4.85	4.85	0.62838	Domain of unknown function DUF21 (1);	0.077015	0.50627	D	0.000112	D	0.94925	0.8359	M	0.92122	3.275	0.80722	D	1	D	0.76494	0.999	D	0.71656	0.974	D	0.95382	0.8474	10	0.87932	D	0	-12.6701	10.4274	0.44387	0.0:0.908:0.0:0.092	.	202	Q6P4Q7	CNNM4_HUMAN	I	202	ENSP00000366275:L202I	ENSP00000366275:L202I	L	+	1	0	CNNM4	96791067	0.997000	0.39634	1.000000	0.80357	0.994000	0.84299	3.112000	0.50368	2.234000	0.73211	0.556000	0.70494	CTC		0.587	CNNM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252954.1	NM_020184		A	97427340	C	A	97427340	3	1	583	1	0	0	0	0	1	0	0	0	3617	681	24	4	606	4	CNNM4	2	97427340	Missense_Mutation	SNP	C	TCGA-EV-5901-01A-11D-1589-08	210403	97427340	145772033	8	34592										
PRPF40A	55660	hgsc.bcm.edu	37	chr2	153532998	153532998	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	ttgatcctgaatagcaggggTactagtaagttgtgcttgtt	12	5	0	2	rs372660010		TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr2:153532998T>C	ENST00000410080.1	-	10	1493	c.952A>G	c.(952-954)Acc>Gcc	p.T318A		NM_017892.3	NP_060362.3	O75400	PR40A_HUMAN	PRP40 pre-mRNA processing factor 40 homolog A (S. cerevisiae)	345					cell cycle (GO:0007049)|cell division (GO:0051301)|cell migration (GO:0016477)|cytoskeleton organization (GO:0007010)|mRNA processing (GO:0006397)|regulation of cell shape (GO:0008360)|regulation of cytokinesis (GO:0032465)|RNA splicing (GO:0008380)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(9)|prostate(1)|urinary_tract(1)	21						ATAGCAGGGGTACTAGTAAGT	0.378																																																0								T	ALA/THR	0,3770		0,0,1885	81	77	78		952	3.6	1	2		78	1,8221		0,1,4110	no	missense	PRPF40A	NM_017892.3	58	0,1,5995	CC,CT,TT		0.0122,0.0,0.0083	possibly-damaging	318/931	153532998	1,11991	1885	4111	5996	SO:0001583	missense	55660			AF049523	CCDS46430.1	2q23.3	2010-01-25	2007-01-12	2006-01-13	ENSG00000196504	ENSG00000196504			16463	protein-coding gene	gene with protein product		612941	"formin-binding protein 3", "formin binding protein 3", "PRP40 pre-mRNA processing factor 40 homolog A (yeast)"	FNBP3		9724750, 12460579	Standard	NM_017892		Approved	FLJ20585, FBP11, HYPA, NY-REN-6, HIP10, FBP-11, FLAF1, Prp40	uc002tyh.4	O75400	OTTHUMG00000154031	ENST00000410080.1:c.952A>G	2.37:g.153532998T>C	ENSP00000386458:p.Thr318Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O43856|O75404|Q8TBQ1|Q9H782|Q9NWU9|Q9P0Q2|Q9Y5A8	Missense_Mutation	SNP	ENST00000410080.1	37	CCDS46430.1	.	.	.	.	.	.	.	.	.	.	T	4.743	0.138086	0.09083	0.0	1.22E-4	ENSG00000196504	ENST00000410080;ENST00000356402;ENST00000440252;ENST00000359961;ENST00000545856;ENST00000493468	T	0.30182	1.54	4.77	3.61	0.41365	.	0.488453	0.23416	N	0.048404	T	0.12732	0.0309	N	0.14661	0.345	0.34226	D	0.676017	B;B;B	0.30193	0.272;0.049;0.028	B;B;B	0.17722	0.019;0.015;0.016	T	0.20472	-1.0274	10	0.07813	T	0.8	-1.5293	7.4308	0.27126	0.0:0.1016:0.0:0.8984	.	345;327;318	O75400;O75400-3;E9PFS0	PR40A_HUMAN;.;.	A	318;327;214;265;345;320	ENSP00000386458:T318A	ENSP00000348770:T327A	T	-	1	0	PRPF40A	153241244	0.998000	0.40836	1.000000	0.80357	0.990000	0.78478	0.937000	0.28951	0.934000	0.37316	0.455000	0.32223	ACC		0.378	PRPF40A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333559.2	XM_371575		C	153532998	T	C	153532998	3	2	583	1	0	0	0	0	1	0	0	0	12581	1638	57	3	1908	3	PRPF40A	2	153532998	Missense_Mutation	SNP	T	TCGA-EV-5901-01A-11D-1589-08	56105658	153532998	89666375	9	34593										
BSN	8927	hgsc.bcm.edu	37	chr3	49698758	49698759	+	Frame_Shift_Del	DEL	CT	CT	-													0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	gagcagaaggtgcccaccaaCtatgaggtgatcgccagccc							TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr3:49698758_49698759delCT	ENST00000296452.4	+	6	9594_9595	c.9480_9481delCT	c.(9478-9483)aactatfs	p.NY3160fs		NM_003458.3	NP_003449.2	Q9UPA5	BSN_HUMAN	bassoon presynaptic cytomatrix protein	3160					synaptic transmission (GO:0007268)	axon (GO:0030424)|cell junction (GO:0030054)|dendrite (GO:0030425)|neuron projection terminus (GO:0044306)|nucleus (GO:0005634)|presynaptic cytoskeletal matrix assembled at active zones (GO:0048788)	metal ion binding (GO:0046872)			breast(8)|central_nervous_system(2)|cervix(2)|endometrium(16)|kidney(3)|large_intestine(17)|lung(37)|ovary(7)|pancreas(1)|prostate(4)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	106				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		TGCCCACCAACTATGAGGTGAT	0.604																																																0																																										SO:0001589	frameshift_variant	8927			AF052224	CCDS2800.1	3p21	2013-01-07	2013-01-07		ENSG00000164061	ENSG00000164061			1117	protein-coding gene	gene with protein product	"zinc finger protein 231", "neuronal double zinc finger protein"	604020	"bassoon (presynaptic cytomatrix protein)"	ZNF231		9806829, 10329005	Standard	NM_003458		Approved		uc003cxe.4	Q9UPA5	OTTHUMG00000133750	ENST00000296452.4:c.9480_9481delCT	3.37:g.49698758_49698759delCT	ENSP00000296452:p.Asn3160fs	Somatic		WXS	Illumina HiSeq	Phase_I	O43161|Q7LGH3	Frame_Shift_Del	DEL	ENST00000296452.4	37	CCDS2800.1																																																																																				0.604	BSN-001	KNOWN	NMD_exception|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000258164.1	NM_003458		-	49698759	CT	-	49698758	7	5	583	1	0	1	0	1	0	0	0	0	1532	564	20	0	9502	0	BSN	3	49698758	Frame_Shift_Del	DEL	CT	TCGA-EV-5901-01A-11D-1589-08		49698758	148323672	10	34594										
PSMD6	9861	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	64004274	64004274	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	aaatatcaaccctatccttaCctaatgattggaagaaaaca	4	9	1	2			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr3:64004274C>A	ENST00000295901.4	-	5	967		c.e5+1		RP11-245J9.6_ENST00000605919.1_RNA|PSMD6_ENST00000394431.2_Splice_Site|PSMD6_ENST00000482510.1_Splice_Site|RP11-245J9.4_ENST00000462717.1_RNA|PSMD6_ENST00000492933.1_Splice_Site	NM_014814.1	NP_055629.1	Q15008	PSMD6_HUMAN	proteasome (prosome, macropain) 26S subunit, non-ATPase, 6						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|ATP catabolic process (GO:0006200)|cellular nitrogen compound metabolic process (GO:0034641)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|negative regulation of apoptotic process (GO:0043066)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|proteolysis (GO:0006508)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|viral process (GO:0016032)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|proteasome accessory complex (GO:0022624)|proteasome complex (GO:0000502)	ATPase activity (GO:0016887)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(2)|pancreas(1)|prostate(1)|skin(1)	13		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000805)|Kidney(15;0.00188)|KIRC - Kidney renal clear cell carcinoma(15;0.00212)		CCTATCCTTACCTAATGATTG	0.388																																																0													78	71	73					3																	64004274		2203	4300	6503	SO:0001630	splice_region_variant	9861			AF215935	CCDS2901.1, CCDS63677.1, CCDS63678.1, CCDS63679.1	3p14.1	2008-05-22			ENSG00000163636	ENSG00000163636		"Proteasome (prosome, macropain) subunits"	9564	protein-coding gene	gene with protein product						10723133	Standard	NM_001271779		Approved	S10, p44S10, KIAA0107, Rpn7	uc003dmb.2	Q15008	OTTHUMG00000158765	ENST00000295901.4:c.826+1G>T	3.37:g.64004274C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K2E0|E9PHI9|Q6UV22	Splice_Site	SNP	ENST00000295901.4	37	CCDS2901.1	.	.	.	.	.	.	.	.	.	.	C	18.23	3.577357	0.65878	.	.	ENSG00000163636	ENST00000295901;ENST00000480205;ENST00000492933;ENST00000394431;ENST00000482510	.	.	.	5.94	5.94	0.96194	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	20.3633	0.98874	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	PSMD6	63979314	1.000000	0.71417	1.000000	0.80357	0.501000	0.33797	6.088000	0.71371	2.826000	0.97356	0.561000	0.74099	.		0.388	PSMD6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352082.1	NM_014814	Intron	A	64004274	C	A	64004274	5	1	583	1	0	0	0	0	0	0	1	0	12712	521	18	4	358	4	PSMD6	3	64004274	Splice_Site	SNP	C	TCGA-EV-5901-01A-11D-1589-08	14305516	64004274	134018156	11	34595										
EPHA6	285220	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	97202865	97202865	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	tgaatttgcaaaggagattgAtccctcaagaattcgtattg	9	6	1	4			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr3:97202865A>C	ENST00000514100.1	+	7	580	c.338A>C	c.(337-339)gAt>gCt	p.D113A	EPHA6_ENST00000442602.2_Missense_Mutation_p.D87A|EPHA6_ENST00000389672.5_Missense_Mutation_p.D721A|EPHA6_ENST00000502694.1_Missense_Mutation_p.D113A	NM_001278300.1	NP_001265229.1	Q9UF33	EPHA6_HUMAN	EPH receptor A6	627	Eph LBD. {ECO:0000255|PROSITE- ProRule:PRU00883}.					integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ephrin receptor activity (GO:0005003)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(6)|liver(2)|lung(60)|ovary(3)|skin(11)|stomach(5)|upper_aerodigestive_tract(2)	101						AAGGAGATTGATCCCTCAAGA	0.383																																																0													99	101	100					3																	97202865		1865	4106	5971	SO:0001583	missense	285220			AK092565	CCDS46876.1, CCDS54616.1, CCDS63697.1	3q12.1	2013-02-11	2004-10-28		ENSG00000080224	ENSG00000080224		"EPH receptors", "Sterile alpha motif (SAM) domain containing", "Fibronectin type III domain containing"	19296	protein-coding gene	gene with protein product		600066				12471243	Standard	NM_001080448		Approved	FLJ35246	uc010how.1	Q9UF33	OTTHUMG00000159208	ENST00000514100.1:c.338A>C	3.37:g.97202865A>C	ENSP00000421711:p.Asp113Ala	Somatic		WXS	Illumina HiSeq	Phase_I	D6RAL5	Missense_Mutation	SNP	ENST00000514100.1	37		.	.	.	.	.	.	.	.	.	.	A	22.3	4.273321	0.80580	.	.	ENSG00000080224	ENST00000389672;ENST00000514100;ENST00000502694;ENST00000442602	T;T;T;T	0.21932	1.98;1.98;1.98;1.98	5.32	5.32	0.75619	Protein kinase-like domain (1);	.	.	.	.	T	0.54615	0.1869	M	0.89785	3.06	0.80722	D	1	D;D;D;D	0.89917	0.999;0.962;1.0;1.0	P;P;D;D	0.85130	0.907;0.598;0.997;0.962	T	0.65438	-0.6168	9	0.87932	D	0	.	15.3417	0.74303	1.0:0.0:0.0:0.0	.	87;626;113;113	B4DXQ6;Q9UF33;Q9UF33-2;D6RAL5	.;EPHA6_HUMAN;.;.	A	721;113;113;87	ENSP00000374323:D721A;ENSP00000421711:D113A;ENSP00000423950:D113A;ENSP00000403100:D87A	ENSP00000374323:D721A	D	+	2	0	EPHA6	98685555	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	8.958000	0.93099	2.026000	0.59711	0.454000	0.30748	GAT		0.383	EPHA6-007	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000359997.1	NM_001080448		C	97202865	A	C	97202865	3	2	583	1	0	0	0	0	1	0	0	0	5173	333	12	5	2268	5	EPHA6	3	97202865	Missense_Mutation	SNP	A	TCGA-EV-5901-01A-11D-1589-08	33198591	97202865	100819565	12	34596										
CD86	942	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	121825262	121825263	+	Frame_Shift_Del	DEL	AT	AT	-													0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	tccatcagcttgtctgtttcAttccctgatgttacgagcaa					rs375108955		TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr3:121825262_121825263delAT	ENST00000330540.2	+	4	734_735	c.618_619delAT	c.(616-621)tcattcfs	p.F207fs	CD86_ENST00000393627.2_Frame_Shift_Del_p.F201fs|CD86_ENST00000264468.5_Intron|CD86_ENST00000469710.1_Frame_Shift_Del_p.F125fs|CD86_ENST00000493101.1_Frame_Shift_Del_p.F95fs	NM_175862.4	NP_787058	P42081	CD86_HUMAN	CD86 molecule	207	Ig-like C2-type.				aging (GO:0007568)|B cell activation (GO:0042113)|cell-cell signaling (GO:0007267)|cellular response to cytokine stimulus (GO:0071345)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to metal ion (GO:0071248)|defense response to virus (GO:0051607)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|immune response (GO:0006955)|innate immune response (GO:0045087)|myeloid dendritic cell differentiation (GO:0043011)|negative regulation of T cell anergy (GO:0002668)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of activated T cell proliferation (GO:0042104)|positive regulation of cell proliferation (GO:0008284)|positive regulation of interleukin-2 biosynthetic process (GO:0045086)|positive regulation of interleukin-4 biosynthetic process (GO:0045404)|positive regulation of lymphotoxin A biosynthetic process (GO:0043017)|positive regulation of T-helper 2 cell differentiation (GO:0045630)|positive regulation of transcription, DNA-templated (GO:0045893)|response to drug (GO:0042493)|response to interferon-gamma (GO:0034341)|response to yeast (GO:0001878)|T cell activation (GO:0042110)|T cell costimulation (GO:0031295)|T cell proliferation involved in immune response (GO:0002309)|toll-like receptor signaling pathway (GO:0002224)|viral process (GO:0016032)	cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|plasma membrane (GO:0005886)	coreceptor activity (GO:0015026)|receptor activity (GO:0004872)			breast(2)|endometrium(1)|kidney(1)|lung(11)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(3)	23				GBM - Glioblastoma multiforme(114;0.156)	Abatacept(DB01281)|Antithymocyte globulin(DB00098)|Belatacept(DB06681)	TGTCTGTTTCATTCCCTGATGT	0.391																																					GBM(67;1379 1389 36064 39806)											0																																										SO:0001589	frameshift_variant	942				CCDS3009.1, CCDS43138.1, CCDS56272.1, CCDS56273.1, CCDS74991.1	3q21	2013-01-29	2006-03-28		ENSG00000114013	ENSG00000114013		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	1705	protein-coding gene	gene with protein product	"B-lymphocyte antigen B7-2"	601020	"CD86 antigen (CD28 antigen ligand 2, B7-2 antigen)"	CD28LG2		7513726	Standard	NM_006889		Approved	B7.2, B7-2	uc003eet.3	P42081	OTTHUMG00000159482	ENST00000330540.2:c.618_619delAT	3.37:g.121825262_121825263delAT	ENSP00000332049:p.Phe207fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0N0P0|B7Z2F3|B7Z702|E7ETN5|E9PC27|Q13655|Q6FHB1|Q6GTS4|Q7M4L5	Frame_Shift_Del	DEL	ENST00000330540.2	37	CCDS3009.1																																																																																				0.391	CD86-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000355671.1	NM_006889		-	121825263	AT	-	121825262	7	5	583	1	0	1	0	1	0	0	0	0	3045	204	8	0	632	0	CD86	3	121825262	Frame_Shift_Del	DEL	AT	TCGA-EV-5901-01A-11D-1589-08	24622397	121825262	76197168	13	34597										
CEP63	80254	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	134250746	134250746	+	Frame_Shift_Del	DEL	G	G	-													0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	atcaagcaagagatgaccatGgaatataagcaggagttgaa					rs544307188		TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr3:134250746delG	ENST00000337090.3	+	4	455	c.282delG	c.(280-282)atgfs	p.M94fs	CEP63_ENST00000383229.3_Frame_Shift_Del_p.M94fs|CEP63_ENST00000513612.2_Frame_Shift_Del_p.M94fs|CEP63_ENST00000606977.1_Frame_Shift_Del_p.M94fs|CEP63_ENST00000354446.3_Frame_Shift_Del_p.M94fs|CEP63_ENST00000332047.5_Frame_Shift_Del_p.M94fs|CEP63_ENST00000504013.1_3'UTR			Q96MT8	CEP63_HUMAN	centrosomal protein 63kDa	94					centriole replication (GO:0007099)|DNA damage checkpoint (GO:0000077)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|signal transduction in response to DNA damage (GO:0042770)|spindle assembly (GO:0051225)	centriole (GO:0005814)|centrosome (GO:0005813)|cytosol (GO:0005829)|spindle pole (GO:0000922)				kidney(1)|large_intestine(6)|lung(12)|ovary(1)|prostate(4)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	27						AGATGACCATGGAATATAAGC	0.353																																																0													171	168	169					3																	134250746		2203	4300	6503	SO:0001589	frameshift_variant	80254			AK056465	CCDS3086.1, CCDS43152.1, CCDS43153.1, CCDS43154.1	3q22.1	2014-02-20			ENSG00000182923	ENSG00000182923			25815	protein-coding gene	gene with protein product		614724				14654843, 24240477	Standard	NM_001042383		Approved	FLJ13386	uc003eqo.1	Q96MT8	OTTHUMG00000159725	ENST00000337090.3:c.282delG	3.37:g.134250746delG	ENSP00000336524:p.Met94fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DND8|D3DND9|D3DNE0|Q96CR0|Q9H8F5|Q9H8N0	Frame_Shift_Del	DEL	ENST00000337090.3	37	CCDS3086.1																																																																																				0.353	CEP63-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000470139.1	NM_025180		-	134250746	G	-	134250746	7	5	583	1	0	1	0	1	0	0	0	0	3259	1348	47	0	292	0	CEP63	3	134250746	Frame_Shift_Del	DEL	G	TCGA-EV-5901-01A-11D-1589-08	12425484	134250746	63771684	14	34598										
PHC3	80012	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	169847187	169847187	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	tacagtgctgggatgggggtGggtcttgagttgaattctga	17	4	2	3			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr3:169847187G>A	ENST00000494943.1	-	8	1105	c.1037C>T	c.(1036-1038)cCa>cTa	p.P346L	PHC3_ENST00000467570.1_Missense_Mutation_p.P305L|PHC3_ENST00000495893.2_Missense_Mutation_p.P358L			Q8NDX5	PHC3_HUMAN	polyhomeotic homolog 3 (Drosophila)	346	Gln-rich.|Pro-rich.				multicellular organismal development (GO:0007275)	actin cytoskeleton (GO:0015629)|intracellular membrane-bounded organelle (GO:0043231)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PcG protein complex (GO:0031519)|PRC1 complex (GO:0035102)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(12)|ovary(1)|upper_aerodigestive_tract(2)	26	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			GGATGGGGGTGGGTCTTGAGT	0.488																																																0													205	205	205					3																	169847187		2024	4175	6199	SO:0001583	missense	80012				CCDS46952.1	3q26.32	2014-01-28	2006-09-12		ENSG00000173889	ENSG00000173889		"Sterile alpha motif (SAM) domain containing"	15682	protein-coding gene	gene with protein product	"early development regulator 3", "polyhomeotic like 3"		"polyhomeotic like 3 (Drosophila)"			12167701, 12384788	Standard	NM_024947		Approved	EDR3, FLJ12967, FLJ12729, HPH3	uc003fgl.2	Q8NDX5	OTTHUMG00000158777	ENST00000494943.1:c.1037C>T	3.37:g.169847187G>A	ENSP00000420271:p.Pro346Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRP9|Q5HYF0|Q6NSG2|Q8NFT7|Q8NFZ1|Q8TBM2|Q9H971|Q9H9I4	Missense_Mutation	SNP	ENST00000494943.1	37		.	.	.	.	.	.	.	.	.	.	G	12.23	1.875524	0.33162	.	.	ENSG00000173889	ENST00000494943;ENST00000495893;ENST00000467570;ENST00000484931	T;T	0.32515	1.45;1.47	5.35	5.35	0.76521	.	0.000000	0.64402	D	0.000001	T	0.37046	0.0989	L	0.55481	1.735	0.80722	D	1	B;P;B;B	0.47302	0.008;0.893;0.0;0.0	B;P;B;B	0.44811	0.006;0.461;0.0;0.002	T	0.08046	-1.0741	10	0.35671	T	0.21	-10.2153	18.6641	0.91483	0.0:0.0:1.0:0.0	.	305;305;346;358	B4E2T1;E7EX82;Q8NDX5;Q8NDX5-7	.;.;PHC3_HUMAN;.	L	346;358;305;184	ENSP00000420271:P346L;ENSP00000420294:P358L	ENSP00000419089:P305L	P	-	2	0	PHC3	171329881	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	5.385000	0.66231	2.514000	0.84764	0.561000	0.74099	CCA		0.488	PHC3-004	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000352182.3	NM_024947		A	169847187	G	A	169847187	3	1	583	1	0	0	0	0	1	0	0	0	11825	1348	47	2	1946	2	PHC3	3	169847187	Missense_Mutation	SNP	G	TCGA-EV-5901-01A-11D-1589-08	35596441	169847187	28175243	15	34599										
PDGFRA	5156	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	55139834	55139834	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	aagtggaggagaccatcgccGtgcgatgcctggctaagaat	14	9	0	2			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr4:55139834G>A	ENST00000257290.5	+	10	1826	c.1495G>A	c.(1495-1497)Gtg>Atg	p.V499M	FIP1L1_ENST00000507166.1_Intron	NM_006206.4	NP_006197.1	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor, alpha polypeptide	499	Ig-like C2-type 5.				adrenal gland development (GO:0030325)|cardiac myofibril assembly (GO:0055003)|cell activation (GO:0001775)|cell chemotaxis (GO:0060326)|cellular response to amino acid stimulus (GO:0071230)|embryonic cranial skeleton morphogenesis (GO:0048701)|embryonic digestive tract morphogenesis (GO:0048557)|embryonic skeletal system morphogenesis (GO:0048704)|epidermal growth factor receptor signaling pathway (GO:0007173)|estrogen metabolic process (GO:0008210)|extracellular matrix organization (GO:0030198)|face morphogenesis (GO:0060325)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|hematopoietic progenitor cell differentiation (GO:0002244)|in utero embryonic development (GO:0001701)|innate immune response (GO:0045087)|Leydig cell differentiation (GO:0033327)|lung development (GO:0030324)|luteinization (GO:0001553)|male genitalia development (GO:0030539)|metanephric glomerular capillary formation (GO:0072277)|negative regulation of platelet activation (GO:0010544)|neurotrophin TRK receptor signaling pathway (GO:0048011)|odontogenesis of dentin-containing tooth (GO:0042475)|palate development (GO:0060021)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphatidylinositol-mediated signaling (GO:0048015)|platelet aggregation (GO:0070527)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|platelet-derived growth factor receptor-alpha signaling pathway (GO:0035790)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cell proliferation by VEGF-activated platelet derived growth factor receptor signaling pathway (GO:0038091)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of DNA replication (GO:0045740)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of phospholipase C activity (GO:0010863)|protein autophosphorylation (GO:0046777)|regulation of actin cytoskeleton reorganization (GO:2000249)|regulation of chemotaxis (GO:0050920)|regulation of mesenchymal stem cell differentiation (GO:2000739)|retina vasculature development in camera-type eye (GO:0061298)|signal transduction involved in regulation of gene expression (GO:0023019)|viral process (GO:0016032)|wound healing (GO:0042060)	cytoplasm (GO:0005737)|external side of plasma membrane (GO:0009897)|integral component of plasma membrane (GO:0005887)|intrinsic component of plasma membrane (GO:0031226)|membrane (GO:0016020)|microvillus (GO:0005902)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|platelet-derived growth factor alpha-receptor activity (GO:0005018)|platelet-derived growth factor binding (GO:0048407)|platelet-derived growth factor receptor binding (GO:0005161)|protein homodimerization activity (GO:0042803)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)|vascular endothelial growth factor binding (GO:0038085)|vascular endothelial growth factor-activated receptor activity (GO:0005021)	p.V499M(1)		NS(1)|autonomic_ganglia(1)|bone(1)|breast(4)|central_nervous_system(17)|cervix(1)|endometrium(4)|eye(1)|gastrointestinal_tract_(site_indeterminate)(1)|haematopoietic_and_lymphoid_tissue(22)|kidney(6)|large_intestine(26)|liver(4)|lung(48)|ovary(4)|prostate(6)|skin(11)|small_intestine(49)|soft_tissue(727)|stomach(32)|urinary_tract(1)	967	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Pazopanib(DB06589)|Ponatinib(DB08901)|Regorafenib(DB08896)|Sunitinib(DB01268)	GACCATCGCCGTGCGATGCCT	0.557			"Mis, O, T"	FIP1L1	"GIST, idiopathic hypereosinophilic syndrome, paediatric GBM"				Gastrointestinal Stromal Tumors, Sporadic Multiple Primary;Familial Intestinal Neurofibromatosis	TSP Lung(21;0.16)																											Pancreas(151;208 1913 7310 23853 37092)		Dom	yes		4	4q11-q13	5156	"platelet-derived growth factor, alpha-receptor"		"L, M, O"	1	Substitution - Missense(1)	breast(1)											85	83	83					4																	55139834		2203	4300	6503	SO:0001583	missense	5156	Familial Cancer Database	Sporadic Multiple GIST;Familial Intestinal Stromal Tumors, NF3B, subset of Familial GIST,	D50001	CCDS3495.1	4q12	2014-09-17			ENSG00000134853	ENSG00000134853		"CD molecules", "Immunoglobulin superfamily / I-set domain containing"	8803	protein-coding gene	gene with protein product		173490					Standard	NM_006206		Approved	CD140a, PDGFR2	uc003han.4	P16234	OTTHUMG00000128699	ENST00000257290.5:c.1495G>A	4.37:g.55139834G>A	ENSP00000257290:p.Val499Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE69|E9PBH0|Q6P4H5|Q96KZ7|Q9UD28	Missense_Mutation	SNP	ENST00000257290.5	37	CCDS3495.1	.	.	.	.	.	.	.	.	.	.	G	15.54	2.863494	0.51482	.	.	ENSG00000134853	ENST00000257290	T	0.77750	-1.12	5.9	5.9	0.94986	Immunoglobulin-like fold (1);	0.000000	0.29529	U	0.011898	D	0.86401	0.5924	M	0.73217	2.22	0.80722	D	1	D;D	0.89917	1.0;0.997	D;P	0.75020	0.985;0.882	D	0.86433	0.1762	10	0.56958	D	0.05	.	13.4661	0.61254	0.0709:0.0:0.9291:0.0	.	499;499	P16234-3;P16234	.;PGFRA_HUMAN	M	499	ENSP00000257290:V499M	ENSP00000257290:V499M	V	+	1	0	PDGFRA	54834591	1.000000	0.71417	0.136000	0.22124	0.003000	0.03518	6.915000	0.75770	2.788000	0.95919	0.650000	0.86243	GTG		0.557	PDGFRA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250598.2	NM_006206		A	55139834	G	A	55139834	3	1	583	1	0	0	0	0	1	0	0	0	11668	1145	40	1	1529	1	PDGFRA	4	55139834	Missense_Mutation	SNP	G	TCGA-EV-5901-01A-11D-1589-08		55139834	136014442	16	34600										
TERT	7015	broad.mit.edu	37	chr5	1268651	1268651	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	tcacccgtcccgccgaatccCcgcaaacagcttgttctcca	6	19	2	0			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr5:1268651C>A	ENST00000310581.5	-	9	2623	c.2566G>T	c.(2566-2568)Ggg>Tgg	p.G856W	TERT_ENST00000508104.2_Missense_Mutation_p.G795V|TERT_ENST00000334602.6_Missense_Mutation_p.G856W|TERT_ENST00000296820.5_Missense_Mutation_p.G795V	NM_001193376.1|NM_198253.2	NP_001180305.1|NP_937983.2	O14746	TERT_HUMAN	telomerase reverse transcriptase	856	Reverse transcriptase. {ECO:0000255|PROSITE-ProRule:PRU00405}.				DNA strand elongation (GO:0022616)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|replicative senescence (GO:0090399)|telomere formation via telomerase (GO:0032203)|telomere maintenance (GO:0000723)|telomere maintenance via telomerase (GO:0007004)	chromosome, telomeric region (GO:0000781)|cytoplasm (GO:0005737)|nuclear telomere cap complex (GO:0000783)|nucleoplasm (GO:0005654)|telomerase holoenzyme complex (GO:0005697)	metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|telomerase activity (GO:0003720)|telomeric DNA binding (GO:0042162)|telomeric RNA binding (GO:0070034)|telomeric template RNA reverse transcriptase activity (GO:0003721)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(2)|kidney(4)|large_intestine(3)|lung(22)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	41	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)		Zidovudine(DB00495)	CGCCGAATCCCCGCAAACAGC	0.602									TERT Mutation-Associated Haematological Disorders;Pulmonary Fibrosis, Idiopathic;Congenital Dyskeratosis																																							0													54	52	53					5																	1268651		2203	4300	6503	SO:0001583	missense	7015	Familial Cancer Database	;Hamman-Rich syndrome, Fibrocystic Pulmonary Dysplasia;Zinsser-Engman-Cole syndrome, Dyskeratosis Congenita	AF015950	CCDS3861.2, CCDS54831.1	5p15.33	2014-09-17			ENSG00000164362	ENSG00000164362			11730	protein-coding gene	gene with protein product		187270				9252327	Standard	NM_198253		Approved	TRT, TP2, TCS1, hEST2, EST2	uc003jcb.1	O14746	OTTHUMG00000090357	ENST00000310581.5:c.2566G>T	5.37:g.1268651C>A	ENSP00000309572:p.Gly856Trp	Somatic		WXS	Illumina HiSeq	Phase_I	O14783|Q2XS35|Q8N6C3|Q8NG38|Q8NG46	Missense_Mutation	SNP	ENST00000310581.5	37	CCDS3861.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	12.71|12.71	2.019452|2.019452	0.35606|0.35606	.|.	.|.	ENSG00000164362|ENSG00000164362	ENST00000296820;ENST00000508104|ENST00000310581;ENST00000334602	D;D|D;D	0.97016|0.98419	-4.21;-4.21|-4.92;-4.92	4.26|4.26	4.26|4.26	0.50523|0.50523	.|Reverse transcriptase (2);	0.130499|0.130499	0.52532|0.52532	D|D	0.000072|0.000072	D|D	0.98698|0.98698	0.9563|0.9563	M|M	0.81942|0.81942	2.565|2.565	0.34527|0.34527	D|D	0.708733|0.708733	.|D;D	.|0.89917	.|0.998;1.0	.|D;D	.|0.91635	.|0.964;0.999	D|D	0.99969|0.99969	1.1929|1.1929	8|10	0.26408|0.37606	T|T	0.33|0.19	-12.8165|-12.8165	13.6164|13.6164	0.62110|0.62110	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|856;856	.|O14746-3;O14746	.|.;TERT_HUMAN	V|W	795|856	ENSP00000296820:G795V;ENSP00000426042:G795V|ENSP00000309572:G856W;ENSP00000334346:G856W	ENSP00000296820:G795V|ENSP00000309572:G856W	G|G	-|-	2|1	0|0	TERT|TERT	1321651|1321651	0.009000|0.009000	0.17119|0.17119	0.006000|0.006000	0.13384|0.13384	0.006000|0.006000	0.05464|0.05464	1.381000|1.381000	0.34362|0.34362	1.932000|1.932000	0.55993|0.55993	0.561000|0.561000	0.74099|0.74099	GGG|GGG		0.602	TERT-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000206729.2			A	1268651	C	A	1268651	3	1	583	1	0	0	0	0	1	0	0	0	15776	623	22	4	864	4	TERT	5	1268651	Missense_Mutation	SNP	C	TCGA-EV-5901-01A-11D-1589-08		1268651	179646609	17	34601										
LPCAT1	79888	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	1488543	1488543	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	aggcaggtcctgtttgtacaAgttccttctggaaaaatcat	9	8	2	0			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr5:1488543A>T	ENST00000283415.3	-	5	762	c.630T>A	c.(628-630)acT>acA	p.T210T		NM_024830.3	NP_079106.3	Q8NF37	PCAT1_HUMAN	lysophosphatidylcholine acyltransferase 1	210					cellular lipid metabolic process (GO:0044255)|glycerophospholipid biosynthetic process (GO:0046474)|negative regulation of phosphatidylcholine biosynthetic process (GO:2001246)|phosphatidic acid biosynthetic process (GO:0006654)|phosphatidylcholine acyl-chain remodeling (GO:0036151)|phosphatidylglycerol acyl-chain remodeling (GO:0036148)|phospholipid biosynthetic process (GO:0008654)|phospholipid metabolic process (GO:0006644)|positive regulation of protein catabolic process (GO:0045732)|retina development in camera-type eye (GO:0060041)|small molecule metabolic process (GO:0044281)|surfactant homeostasis (GO:0043129)|triglyceride biosynthetic process (GO:0019432)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|lipid particle (GO:0005811)|membrane (GO:0016020)	1-acylglycerophosphocholine O-acyltransferase activity (GO:0047184)|1-alkenylglycerophosphocholine O-acyltransferase activity (GO:0047159)|1-alkylglycerophosphocholine O-acetyltransferase activity (GO:0047192)|1-alkylglycerophosphocholine O-acyltransferase activity (GO:0047191)|calcium ion binding (GO:0005509)			breast(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(12)|ovary(4)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	30			OV - Ovarian serous cystadenocarcinoma(19;0.0274)|all cancers(22;0.0534)	GBM - Glioblastoma multiforme(108;0.156)		TGTTTGTACAAGTTCCTTCTG	0.323																																																0													87	90	89					5																	1488543		2203	4300	6503	SO:0001819	synonymous_variant	79888			BC020166	CCDS3864.1	5p15.33	2013-01-10	2007-12-17	2007-12-17	ENSG00000153395	ENSG00000153395		"EF-hand domain containing"	25718	protein-coding gene	gene with protein product		610472	"acyltransferase like 2"	AYTL2		8619474, 16704971	Standard	NM_024830		Approved	FLJ12443	uc003jcm.3	Q8NF37	OTTHUMG00000131017	ENST00000283415.3:c.630T>A	5.37:g.1488543A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q1HAQ1|Q7Z4G6|Q8N3U7|Q8WUL8|Q9GZW6	Silent	SNP	ENST00000283415.3	37	CCDS3864.1																																																																																				0.323	LPCAT1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000304032.1	NM_024830		T	1488543	A	T	1488543	2	4	583	1	0	0	0	0	0	0	0	1	8917	59	3	5		5	LPCAT1	5	1488543	Silent	SNP	A	TCGA-EV-5901-01A-11D-1589-08	219892	1488543	179426717	18	34602										
NSUN2	54888	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	6620280	6620280	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	ctctttcctgccgtccacatCtatctggagcctgggtatgc	9	14	3	0			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr5:6620280C>T	ENST00000264670.6	-	7	1065	c.754G>A	c.(754-756)Gat>Aat	p.D252N	NSUN2_ENST00000539938.1_Missense_Mutation_p.D16N|NSUN2_ENST00000505264.1_5'UTR|NSUN2_ENST00000506139.1_Missense_Mutation_p.D217N	NM_017755.5	NP_060225.4	Q08J23	NSUN2_HUMAN	NOP2/Sun RNA methyltransferase family, member 2	252					mitotic nuclear division (GO:0007067)|tRNA methylation (GO:0030488)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|tRNA (cytosine-5-)-methyltransferase activity (GO:0016428)|tRNA binding (GO:0000049)			breast(1)|endometrium(6)|kidney(2)|large_intestine(5)|lung(23)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	41						CCGTCCACATCTATCTGGAGC	0.493																																																0													108	105	106					5																	6620280		2203	4300	6503	SO:0001583	missense	54888			AK000310	CCDS3869.1, CCDS54832.1	5p15.32	2014-01-31	2012-06-12		ENSG00000037474	ENSG00000037474		"NOP2/Sun domain containing"	25994	protein-coding gene	gene with protein product	"tRNA methyltransferase 4 homolog (S. cerevisiae)", "Myc-induced SUN-domain-containing protein"	610916	"NOL1/NOP2/Sun domain family, member 2", "NOP2/Sun domain family, member 2", "mental retardation, non-syndromic, autosomal recessive, 5"	MRT5		17071714, 22541559	Standard	NM_017755		Approved	FLJ20303, TRM4, Misu	uc003jdu.3	Q08J23	OTTHUMG00000090455	ENST00000264670.6:c.754G>A	5.37:g.6620280C>T	ENSP00000264670:p.Asp252Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K529|B2RNR4|B3KP09|B4DQW2|G3V1R4|Q9BVN4|Q9H858|Q9NXD9	Missense_Mutation	SNP	ENST00000264670.6	37	CCDS3869.1	.	.	.	.	.	.	.	.	.	.	C	10.16	1.273421	0.23221	.	.	ENSG00000037474	ENST00000264670;ENST00000539938;ENST00000506139	T;T;T	0.38560	1.16;2.97;1.13	6.02	6.02	0.97574	.	0.084604	0.85682	D	0.000000	T	0.20740	0.0499	N	0.02985	-0.445	0.51767	D	0.999935	B;B	0.15930	0.015;0.005	B;B	0.20384	0.022;0.029	T	0.18808	-1.0325	10	0.12766	T	0.61	-53.9111	14.6603	0.68865	0.0:0.9312:0.0:0.0688	.	217;252	B4DQW2;Q08J23	.;NSUN2_HUMAN	N	252;16;217	ENSP00000264670:D252N;ENSP00000444338:D16N;ENSP00000420957:D217N	ENSP00000264670:D252N	D	-	1	0	NSUN2	6673280	0.863000	0.29885	0.538000	0.28064	0.018000	0.09664	2.600000	0.46240	2.865000	0.98341	0.655000	0.94253	GAT		0.493	NSUN2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000206902.1	NM_017755		T	6620280	C	T	6620280	3	4	583	1	0	0	0	0	1	0	0	0	10685	913	32	2	1601	2	NSUN2	5	6620280	Missense_Mutation	SNP	C	TCGA-EV-5901-01A-11D-1589-08	5131737	6620280	174294980	19	34603										
VCAN	1462	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	82836813	82836813	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	tgaagatagaagccaactagAtcacatgggctttcacttca	8	9	3	4			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr5:82836813A>G	ENST00000265077.3	+	8	8556	c.7991A>G	c.(7990-7992)gAt>gGt	p.D2664G	VCAN-AS1_ENST00000513899.1_RNA|VCAN_ENST00000513016.1_3'UTR|VCAN_ENST00000343200.5_Missense_Mutation_p.D1677G|VCAN_ENST00000342785.4_Intron|VCAN_ENST00000512590.2_Intron|VCAN-AS1_ENST00000512090.1_RNA|VCAN_ENST00000502527.2_Intron	NM_004385.4	NP_004376.2	P13611	CSPG2_HUMAN	versican	2664	GAG-beta.				carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|cell recognition (GO:0008037)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|extracellular matrix organization (GO:0030198)|glial cell migration (GO:0008347)|glycosaminoglycan metabolic process (GO:0030203)|heart development (GO:0007507)|multicellular organismal development (GO:0007275)|osteoblast differentiation (GO:0001649)|small molecule metabolic process (GO:0044281)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi lumen (GO:0005796)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|carbohydrate binding (GO:0030246)|glycosaminoglycan binding (GO:0005539)|hyaluronic acid binding (GO:0005540)			NS(2)|biliary_tract(1)|breast(3)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(52)|lung(64)|ovary(8)|pancreas(3)|prostate(13)|skin(14)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(5)	190		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)	Hyaluronan(DB08818)	AGCCAACTAGATCACATGGGC	0.453																																																0													126	122	123					5																	82836813		2203	4300	6503	SO:0001583	missense	1462			X15998	CCDS4060.1, CCDS47242.1, CCDS54875.1, CCDS54876.1	5q14.2-q14.3	2013-05-07	2007-02-15	2007-02-15	ENSG00000038427	ENSG00000038427		"Immunoglobulin superfamily / V-set domain containing", "Proteoglycans / Extracellular Matrix : Hyalectans"	2464	protein-coding gene	gene with protein product	"versican proteoglycan"	118661	"chondroitin sulfate proteoglycan 2"	CSPG2		1478664, 21063030	Standard	NM_004385		Approved	PG-M	uc003kii.3	P13611	OTTHUMG00000131321	ENST00000265077.3:c.7991A>G	5.37:g.82836813A>G	ENSP00000265077:p.Asp2664Gly	Somatic		WXS	Illumina HiSeq	Phase_I	P20754|Q13010|Q13189|Q15123|Q9UCL9|Q9UNW5	Missense_Mutation	SNP	ENST00000265077.3	37	CCDS4060.1	.	.	.	.	.	.	.	.	.	.	A	2.766	-0.256719	0.05829	.	.	ENSG00000038427	ENST00000265077;ENST00000343200	T;T	0.35605	1.3;1.3	6.04	2.03	0.26663	.	0.465278	0.21973	N	0.066435	T	0.30324	0.0761	L	0.53249	1.67	0.09310	N	1	B;B	0.17268	0.021;0.012	B;B	0.15484	0.013;0.006	T	0.19582	-1.0301	10	0.35671	T	0.21	.	9.0589	0.36423	0.7098:0.0:0.2902:0.0	.	1677;2664	P13611-2;P13611	.;CSPG2_HUMAN	G	2664;1677	ENSP00000265077:D2664G;ENSP00000340062:D1677G	ENSP00000265077:D2664G	D	+	2	0	VCAN	82872569	0.001000	0.12720	0.002000	0.10522	0.019000	0.09904	0.608000	0.24223	0.540000	0.28808	-0.375000	0.07067	GAT		0.453	VCAN-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000254092.3	NM_004385		G	82836813	A	G	82836813	3	3	583	1	0	0	0	0	1	0	0	0	17150	333	12	3	8017	3	VCAN	5	82836813	Missense_Mutation	SNP	A	TCGA-EV-5901-01A-11D-1589-08	76216533	82836813	98078447	20	34604										
SLC22A5	6584	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	131729504	131729504	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	cagatgctaagagtcaaaggGtaagaagacctcctctgtca	10	9	3	4	rs386134226		TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr5:131729504G>A	ENST00000245407.3	+	9	1807		c.e9+1		SLC22A5_ENST00000435065.2_Splice_Site	NM_003060.3	NP_003051.1	O76082	S22A5_HUMAN	solute carrier family 22 (organic cation/carnitine transporter), member 5						carnitine transmembrane transport (GO:1902603)|carnitine transport (GO:0015879)|drug transmembrane transport (GO:0006855)|drug transport (GO:0015893)|positive regulation of intestinal epithelial structure maintenance (GO:0060731)|quaternary ammonium group transport (GO:0015697)|quorum sensing involved in interaction with host (GO:0052106)|sodium ion transport (GO:0006814)|sodium-dependent organic cation transport (GO:0070715)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|brush border membrane (GO:0031526)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	antibiotic transporter activity (GO:0042895)|ATP binding (GO:0005524)|carnitine transmembrane transporter activity (GO:0015226)|drug transmembrane transporter activity (GO:0015238)|PDZ domain binding (GO:0030165)|quaternary ammonium group transmembrane transporter activity (GO:0015651)|symporter activity (GO:0015293)			NS(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(2)|stomach(1)	8		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Acetylcarnitine(DB08842)|Aminohippurate(DB00345)|Amphetamine(DB00182)|Ampicillin(DB00415)|Azidocillin(DB08795)|Benzylpenicillin(DB01053)|Cefadroxil(DB01140)|Cefalotin(DB00456)|Cefdinir(DB00535)|Cefepime(DB01413)|Cefixime(DB00671)|Cefradine(DB01333)|Ceftazidime(DB00438)|Cephalexin(DB00567)|Cephaloglycin(DB00689)|Choline(DB00122)|Cimetidine(DB00501)|Clonidine(DB00575)|Creatine(DB00148)|Cyclacillin(DB01000)|Dactinomycin(DB00970)|Desipramine(DB01151)|Diphenhydramine(DB01075)|Dopamine(DB00988)|Epinephrine(DB00668)|Furosemide(DB00695)|Guanidine(DB00536)|Histamine Phosphate(DB00667)|Ipratropium bromide(DB00332)|L-Arginine(DB00125)|L-Carnitine(DB00583)|Lidocaine(DB00281)|Lomefloxacin(DB00978)|Mepyramine(DB06691)|Methamphetamine(DB01577)|Niacin(DB00627)|Nicotine(DB00184)|Norepinephrine(DB00368)|Norfloxacin(DB01059)|Ofloxacin(DB01165)|Probenecid(DB01032)|Procainamide(DB01035)|Quinidine(DB00908)|Quinine(DB00468)|Sparfloxacin(DB01208)|Thiamine(DB00152)|Tiotropium(DB01409)|Valproic Acid(DB00313)|Verapamil(DB00661)	GAGTCAAAGGGTAAGAAGACC	0.542																																																0													200	186	191					5																	131729504		2203	4300	6503	SO:0001630	splice_region_variant	6584			AF057164	CCDS4154.1	5q23.3	2013-05-22	2008-01-11		ENSG00000197375	ENSG00000197375		"Solute carriers"	10969	protein-coding gene	gene with protein product		603377		CDSP		9618255, 9916797, 9685390	Standard	NM_003060		Approved	OCTN2, SCD	uc003kww.4	O76082	OTTHUMG00000059634	ENST00000245407.3:c.1586+1G>A	5.37:g.131729504G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2Q0V1|B2R844|D3DQ87|Q6ZQZ8|Q96EH6	Splice_Site	SNP	ENST00000245407.3	37	CCDS4154.1	.	.	.	.	.	.	.	.	.	.	G	27.4	4.828787	0.90955	.	.	ENSG00000197375	ENST00000245407;ENST00000435065	.	.	.	5.87	5.87	0.94306	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	20.5827	0.99408	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	SLC22A5	131757403	1.000000	0.71417	1.000000	0.80357	0.907000	0.53573	9.442000	0.97566	2.941000	0.99782	0.655000	0.94253	.		0.542	SLC22A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132631.1	NM_003060	Intron	A	131729504	G	A	131729504	5	1	583	1	0	0	0	0	0	0	1	0	14470	1275	44	2	1621	2	SLC22A5	5	131729504	Splice_Site	SNP	G	TCGA-EV-5901-01A-11D-1589-08	48892691	131729504	49185756	21	34605										
PPP1R10	5514	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	30577691	30577691	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	gctgtccaggcccttgagaaGttctttggggtctatgggac	14	9	2	1			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr6:30577691G>T	ENST00000376511.2	-	3	583	c.31C>A	c.(31-33)Ctt>Att	p.L11I	PPP1R10_ENST00000484449.1_5'Flank	NM_002714.3	NP_002705.2	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	11	Interaction with TOX4. {ECO:0000250}.				protein import into nucleus (GO:0006606)|transcription, DNA-templated (GO:0006351)	chromatin (GO:0000785)|nucleus (GO:0005634)|PTW/PP1 phosphatase complex (GO:0072357)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|protein phosphatase inhibitor activity (GO:0004864)			cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(2)|lung(9)|ovary(2)|prostate(3)|skin(1)	25						CCCTTGAGAAGTTCTTTGGGG	0.468																																																0													112	107	109					6																	30577691		2203	4300	6503	SO:0001583	missense	5514			Y13247	CCDS4681.1	6p21.3	2012-04-17	2011-10-04		ENSG00000204569	ENSG00000204569		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	9284	protein-coding gene	gene with protein product	"phosphatase 1 nuclear targeting subunit", "HLA-C associated transcript 53"	603771	"protein phosphatase 1, regulatory (inhibitor) subunit 10"			9461602, 9784381	Standard	NM_002714		Approved	PNUTS, FB19, CAT53, p99	uc003nqn.2	Q96QC0	OTTHUMG00000031259	ENST00000376511.2:c.31C>A	6.37:g.30577691G>T	ENSP00000365694:p.Leu11Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O00405	Missense_Mutation	SNP	ENST00000376511.2	37	CCDS4681.1	.	.	.	.	.	.	.	.	.	.	G	19.22	3.785297	0.70337	.	.	ENSG00000204569	ENST00000376511;ENST00000537132	T	0.54675	0.56	5.65	5.65	0.86999	.	0.119294	0.64402	D	0.000018	T	0.33876	0.0878	L	0.37850	1.14	0.43399	D	0.995525	B	0.30236	0.274	B	0.26416	0.069	T	0.21008	-1.0258	10	0.52906	T	0.07	-18.5396	18.8591	0.92265	0.0:0.0:1.0:0.0	.	11	Q96QC0	PP1RA_HUMAN	I	11	ENSP00000365694:L11I	ENSP00000365694:L11I	L	-	1	0	PPP1R10	30685670	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	5.210000	0.65214	2.825000	0.97269	0.655000	0.94253	CTT		0.468	PPP1R10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076556.2	NM_002714		T	30577691	G	T	30577691	3	4	583	1	0	0	0	0	1	0	0	0	12362	1029	36	4	2863	4	PPP1R10	6	30577691	Missense_Mutation	SNP	G	TCGA-EV-5901-01A-11D-1589-08		30577691	140537376	22	34606										
CCDC129	223075	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	31683522	31683527	+	In_Frame_Del	DEL	GACTTT	GACTTT	-													0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	caggaagcccagttcatgacGactttgaaagcccttcagga							TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	GACTTT	GACTTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr7:31683522_31683527delGACTTT	ENST00000407970.3	+	11	2576_2581	c.2538_2543delGACTTT	c.(2536-2544)acgactttg>acg	p.TL847del	CCDC129_ENST00000451887.2_In_Frame_Del_p.TL873del|CCDC129_ENST00000319386.3_In_Frame_Del_p.TL699del|CCDC129_ENST00000409210.1_In_Frame_Del_p.TL755del	NM_001257967.1|NM_194300.3	NP_001244896.1|NP_919276.2	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	847										cervix(1)|endometrium(3)|kidney(3)|large_intestine(6)|lung(31)	44						AGTTCATGACGACTTTGAAAGCCCTT	0.549																																																0																																										SO:0001651	inframe_deletion	223075			AK128026	CCDS5435.2, CCDS59050.1, CCDS75577.1	7p14.3	2006-08-21			ENSG00000180347	ENSG00000180347			27363	protein-coding gene	gene with protein product						14702039	Standard	NM_001257967		Approved	FLJ38344	uc011kad.1	Q6ZRS4	OTTHUMG00000128611	ENST00000407970.3:c.2538_2543delGACTTT	7.37:g.31683522_31683527delGACTTT	ENSP00000384416:p.Thr847_Leu848del	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU17|B3KTI9|B4DHB0|B4E2R1|F5H3V5	In_Frame_Del	DEL	ENST00000407970.3	37	CCDS5435.2																																																																																				0.549	CCDC129-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318975.1	NM_194300		-	31683527	GACTTT	-	31683522	7	5	583	1	0	1	0	1	0	0	0	0	2766	1045	37	0	2576	0	CCDC129	7	31683522	In_Frame_Del	DEL	GACTTT	TCGA-EV-5901-01A-11D-1589-08		31683522	127455141	23	34607										
URGCP	55665	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	43918184	43918184	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	agttgaggtcccgatgccagAagcagtcccactgcctgtgg	13	12	0	2			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr7:43918184A>C	ENST00000453200.1	-	6	1371	c.878T>G	c.(877-879)tTc>tGc	p.F293C	URGCP_ENST00000497914.1_5'UTR|URGCP_ENST00000447717.3_Missense_Mutation_p.F250C|URGCP_ENST00000336086.6_Missense_Mutation_p.F250C|URGCP_ENST00000443736.1_Missense_Mutation_p.F250C|URGCP-MRPS24_ENST00000603700.1_Intron|URGCP_ENST00000223341.7_Missense_Mutation_p.F250C|URGCP_ENST00000402306.3_Missense_Mutation_p.F284C			Q8TCY9	URGCP_HUMAN	upregulator of cell proliferation	293					cell cycle (GO:0007049)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	GTP binding (GO:0005525)			breast(3)|endometrium(4)|kidney(2)|large_intestine(3)|liver(1)|lung(13)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	34						CCGATGCCAGAAGCAGTCCCA	0.602																																																0													43	47	45					7																	43918184		1981	4149	6130	SO:0001583	missense	55665				CCDS43572.1, CCDS47577.1, CCDS47578.1	7p13	2010-02-17			ENSG00000106608	ENSG00000106608			30890	protein-coding gene	gene with protein product	"up-regulated gene 4"	610337				10819331, 12082552	Standard	NM_017920		Approved	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457	uc003tiw.3	Q8TCY9	OTTHUMG00000155245	ENST00000453200.1:c.878T>G	7.37:g.43918184A>C	ENSP00000396918:p.Phe293Cys	Somatic		WXS	Illumina HiSeq	Phase_I	E9PFF6|Q658M4|Q68DH6|Q6MZZ5|Q8WV98|Q9NWR7|Q9P221	Missense_Mutation	SNP	ENST00000453200.1	37	CCDS47578.1	.	.	.	.	.	.	.	.	.	.	A	19.91	3.914953	0.72983	.	.	ENSG00000106608	ENST00000223341;ENST00000336086;ENST00000402306;ENST00000443736;ENST00000453200;ENST00000447717	T;T;T;T;T;T	0.43688	1.02;1.02;0.95;1.02;0.94;1.02	5.52	5.52	0.82312	.	0.000000	0.85682	D	0.000000	T	0.67720	0.2923	M	0.85945	2.785	0.49483	D	0.999796	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.73665	-0.3911	10	0.87932	D	0	-32.908	13.5869	0.61937	1.0:0.0:0.0:0.0	.	284;293	Q8TCY9-2;Q8TCY9	.;URGCP_HUMAN	C	250;250;284;250;293;250	ENSP00000223341:F250C;ENSP00000336872:F250C;ENSP00000384955:F284C;ENSP00000392136:F250C;ENSP00000396918:F293C;ENSP00000402803:F250C	ENSP00000223341:F250C	F	-	2	0	URGCP	43884709	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	8.761000	0.91691	2.104000	0.64026	0.402000	0.26972	TTC		0.602	URGCP-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000338995.1	NM_001077664		C	43918184	A	C	43918184	3	2	583	1	0	0	0	0	1	0	0	0	17038	246	9	5	1921	5	URGCP	7	43918184	Missense_Mutation	SNP	A	TCGA-EV-5901-01A-11D-1589-08	12234662	43918184	115220479	24	34608										
BAZ1B	9031	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	72907199	72907199	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	ggaggagcccatttcctttcTcctttttttaatgaagtagg	9	8	1	1			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr7:72907199T>C	ENST00000339594.4	-	5	962	c.624A>G	c.(622-624)ggA>ggG	p.G208G	BAZ1B_ENST00000404251.1_Silent_p.G208G	NM_032408.3	NP_115784.1	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	208	Mediates the tyrosine-protein kinase activity.				cellular response to DNA damage stimulus (GO:0006974)|chromatin assembly or disassembly (GO:0006333)|chromatin-mediated maintenance of transcription (GO:0048096)|double-strand break repair (GO:0006302)|heart morphogenesis (GO:0003007)|histone phosphorylation (GO:0016572)|peptidyl-tyrosine phosphorylation (GO:0018108)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	condensed chromosome (GO:0000793)|nucleus (GO:0005634)|pericentric heterochromatin (GO:0005721)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|histone kinase activity (GO:0035173)|lysine-acetylated histone binding (GO:0070577)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein tyrosine kinase activity (GO:0004713)|vitamin D receptor activator activity (GO:0071884)|zinc ion binding (GO:0008270)			NS(1)|breast(5)|cervix(1)|endometrium(5)|kidney(5)|large_intestine(12)|lung(20)|ovary(5)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	61		Lung NSC(55;0.0659)|all_lung(88;0.152)				ATTTCCTTTCTCCTTTTTTTA	0.328																																					Esophageal Squamous(112;1167 1561 21085 43672 48228)											0													129	125	127					7																	72907199		2203	4299	6502	SO:0001819	synonymous_variant	9031			AF084479	CCDS5549.1	7q11.23	2013-01-28			ENSG00000009954	ENSG00000009954		"Zinc fingers, PHD-type"	961	protein-coding gene	gene with protein product	"Williams-Beuren syndrome chromosome region 9", "Williams-Beuren syndrome chromosome region 10", "transcription factor WSTF"	605681		WBSCR9, WBSCR10		9858827, 9828126	Standard	NM_032408		Approved	WSTF	uc003tyc.3	Q9UIG0	OTTHUMG00000023847	ENST00000339594.4:c.624A>G	7.37:g.72907199T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B9EGK3|D3DXE9|O95039|O95247|O95277|Q6P1K4|Q86UJ6	Silent	SNP	ENST00000339594.4	37	CCDS5549.1																																																																																				0.328	BAZ1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252123.4	NM_032408		C	72907199	T	C	72907199	2	2	583	1	0	0	0	0	0	0	0	1	1330	1538	54	3		3	BAZ1B	7	72907199	Silent	SNP	T	TCGA-EV-5901-01A-11D-1589-08	28989015	72907199	86231464	25	34609										
DNAJC2	27000	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	102963052	102963053	+	Nonsense_Mutation	DNP	AT	AT	TA													0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	cttcttccttgaacttttttAtccttggatcacagctgtat							TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr7:102963052_102963053AT>TA	ENST00000379263.3	-	9	1088_1089	c.838_839AT>TA	c.(838-840)ATa>TAa	p.I280*	PMPCB_ENST00000420236.2_Intron|DNAJC2_ENST00000249270.7_Nonsense_Mutation_p.I280*	NM_014377.1	NP_055192.1	Q99543	DNJC2_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 2	280					'de novo' cotranslational protein folding (GO:0051083)|chromatin modification (GO:0016568)|DNA replication (GO:0006260)|negative regulation of cell growth (GO:0030308)|negative regulation of DNA biosynthetic process (GO:2000279)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|histone binding (GO:0042393)|Hsp70 protein binding (GO:0030544)|poly(A) RNA binding (GO:0044822)|ubiquitin binding (GO:0043130)			endometrium(1)|kidney(9)|large_intestine(6)|lung(4)|ovary(1)	21						GAACTTTTTTATCCTTGGATCA	0.337																																																0																																										SO:0001587	stop_gained	27000			X98260	CCDS43628.1, CCDS47679.1	7q22-q32	2011-09-02	2008-07-01	2008-07-01	ENSG00000105821	ENSG00000105821		"Heat shock proteins / DNAJ (HSP40)"	13192	protein-coding gene	gene with protein product		605502	"zuotin related factor 1"	ZRF1		8885239	Standard	NM_001129887		Approved	MPP11, MPHOSPH11, ZUO1, zuotin	uc003vbo.3	Q99543	OTTHUMG00000157202	ENST00000379263.3:c.838_839delinsTA	7.37:g.102963052_102963053delinsTA	ENSP00000368565:p.Ile280*	Somatic		WXS	Illumina HiSeq	Phase_I	A4VCI0|Q9BVX1	Nonsense_Mutation	DNP	ENST00000379263.3	37	CCDS43628.1																																																																																				0.337	DNAJC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347891.1			TA	102963053	AT	TA	102963052	4	4	583	1	0	0	0	0	0	1	0	0	4641	449	16	5	1062	5	DNAJC2	7	102963052	Nonsense_Mutation	DNP	AT	TCGA-EV-5901-01A-11D-1589-08	30055853	102963052	56175611	26	34610										
ZFHX4	79776	hgsc.bcm.edu	37	chr8	77618779	77618779	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	cctcgccccggcggaagcagAgctttatcagtactacctag	10	14	1	1			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr8:77618779A>G	ENST00000521891.2	+	2	2904	c.2456A>G	c.(2455-2457)gAg>gGg	p.E819G	ZFHX4_ENST00000518282.1_Missense_Mutation_p.E819G|ZFHX4_ENST00000517683.1_Intron|ZFHX4_ENST00000455469.2_Missense_Mutation_p.E819G|ZFHX4_ENST00000050961.6_Missense_Mutation_p.E819G	NM_024721.4	NP_078997.4	Q86UP3	ZFHX4_HUMAN	zinc finger homeobox 4	819					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|zinc ion binding (GO:0008270)			NS(3)|breast(11)|central_nervous_system(1)|endometrium(36)|haematopoietic_and_lymphoid_tissue(2)|kidney(15)|large_intestine(66)|liver(2)|lung(245)|ovary(11)|pancreas(3)|prostate(11)|skin(7)|upper_aerodigestive_tract(13)|urinary_tract(6)	432			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GCGGAAGCAGAGCTTTATCAG	0.507										HNSCC(33;0.089)																																						0													20	20	20					8																	77618779		2018	4177	6195	SO:0001583	missense	79776				CCDS47878.1, CCDS47878.2	8q21.11	2012-07-02	2007-07-16		ENSG00000091656	ENSG00000091656		"Homeoboxes / ZF class"	30939	protein-coding gene	gene with protein product		606940	"zinc finger homeodomain 4"			10873665, 11935336	Standard	NM_024721		Approved	ZFH4, FLJ20980	uc003yau.2	Q86UP3	OTTHUMG00000164557	ENST00000521891.2:c.2456A>G	8.37:g.77618779A>G	ENSP00000430497:p.Glu819Gly	Somatic		WXS	Illumina HiSeq	Phase_I	G3V138|Q18PS0|Q6ZN20	Missense_Mutation	SNP	ENST00000521891.2	37	CCDS47878.2	.	.	.	.	.	.	.	.	.	.	A	12.39	1.922655	0.33908	.	.	ENSG00000091656	ENST00000521891;ENST00000399468;ENST00000455469;ENST00000050961;ENST00000518282	T;T;T;T	0.56776	0.48;0.46;0.44;0.44	4.91	4.91	0.64330	.	0.000000	0.43579	U	0.000548	T	0.70150	0.3191	M	0.66939	2.045	0.80722	D	1	D;D;D;D	0.76494	0.998;0.999;0.999;0.984	D;D;D;P	0.78314	0.979;0.991;0.991;0.885	T	0.74131	-0.3764	10	0.87932	D	0	.	14.9861	0.71348	1.0:0.0:0.0:0.0	.	819;819;819;819	Q86UP3;Q86UP3-4;G3V138;Q86UP3-3	ZFHX4_HUMAN;.;.;.	G	819	ENSP00000430497:E819G;ENSP00000399605:E819G;ENSP00000050961:E819G;ENSP00000430848:E819G	ENSP00000050961:E819G	E	+	2	0	ZFHX4	77781334	1.000000	0.71417	0.996000	0.52242	0.913000	0.54294	9.048000	0.93830	2.179000	0.69175	0.477000	0.44152	GAG		0.507	ZFHX4-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000379197.2	NM_024721		G	77618779	A	G	77618779	3	3	583	1	0	0	0	0	1	0	0	0	17647	304	11	3	2458	3	ZFHX4	8	77618779	Missense_Mutation	SNP	A	TCGA-EV-5901-01A-11D-1589-08		77618779	68745243	27	34611										
PLEC	5339	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	144997708	144997708	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	tctctgcagccgcctgtgccTgagcccgggcctgtgcctgc	13	17	1	1			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr8:144997708T>A	ENST00000322810.4	-	31	6969	c.6800A>T	c.(6799-6801)cAg>cTg	p.Q2267L	PLEC_ENST00000357649.2_Missense_Mutation_p.Q2134L|PLEC_ENST00000354958.2_Missense_Mutation_p.Q2108L|PLEC_ENST00000398774.2_Missense_Mutation_p.Q2098L|PLEC_ENST00000345136.3_Missense_Mutation_p.Q2130L|PLEC_ENST00000354589.3_Missense_Mutation_p.Q2130L|PLEC_ENST00000436759.2_Missense_Mutation_p.Q2157L|PLEC_ENST00000356346.3_Missense_Mutation_p.Q2116L|PLEC_ENST00000527096.1_Missense_Mutation_p.Q2153L	NM_201380.2	NP_958782.1	Q15149	PLEC_HUMAN	plectin	2267	Central fibrous rod domain.				apoptotic process (GO:0006915)|cell junction assembly (GO:0034329)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)	costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|intermediate filament cytoskeleton (GO:0045111)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcoplasm (GO:0016528)	ankyrin binding (GO:0030506)|poly(A) RNA binding (GO:0044822)|structural constituent of muscle (GO:0008307)			NS(1)|breast(3)|central_nervous_system(4)|cervix(7)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(8)|lung(57)|ovary(4)|pancreas(2)|prostate(11)|skin(9)|stomach(2)|upper_aerodigestive_tract(10)	137						CGCCTGTGCCTGAGCCCGGGC	0.741																																																0													8	10	10					8																	144997708		1949	4030	5979	SO:0001583	missense	5339			U53204	CCDS43769.1, CCDS43770.1, CCDS43771.1, CCDS43772.1, CCDS43773.1, CCDS43774.1, CCDS43775.1, CCDS47936.1	8q24	2010-02-04	2010-02-04	2010-02-04	ENSG00000178209	ENSG00000178209			9069	protein-coding gene	gene with protein product		601282	"plectin 1, intermediate filament binding protein, 500kD", "epidermolysis bullosa simplex 1 (Ogna)", "plectin 1, intermediate filament binding protein 500kDa"	EBS1, PLEC1		8633055, 8696340	Standard	XM_005250976		Approved	PCN, PLTN	uc003zaf.1	Q15149	OTTHUMG00000165291	ENST00000322810.4:c.6800A>T	8.37:g.144997708T>A	ENSP00000323856:p.Gln2267Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q15148|Q16640|Q6S376|Q6S377|Q6S378|Q6S379|Q6S380|Q6S381|Q6S382|Q6S383	Missense_Mutation	SNP	ENST00000322810.4	37	CCDS43772.1	.	.	.	.	.	.	.	.	.	.	T	4.904	0.167918	0.09339	.	.	ENSG00000178209	ENST00000345136;ENST00000357649;ENST00000354589;ENST00000398774;ENST00000322810;ENST00000354958;ENST00000356346;ENST00000436759;ENST00000527096	T;T;T;T;T;T;T;T;T	0.78816	-1.17;-1.17;-1.2;-1.21;-1.14;-1.17;-1.17;-1.14;-1.17	4.98	3.77	0.43336	.	0.288111	0.26875	U	0.022050	T	0.62684	0.2448	N	0.16790	0.44	0.32967	D	0.521856	B;B;B;B;B;B;B;B	0.13594	0.008;0.008;0.008;0.005;0.008;0.008;0.008;0.008	B;B;B;B;B;B;B;B	0.12156	0.007;0.007;0.007;0.003;0.007;0.007;0.007;0.007	T	0.64935	-0.6290	10	0.66056	D	0.02	.	10.4644	0.44598	0.1462:0.0:0.0:0.8538	.	2157;2116;2108;2267;2098;2130;2134;2130	Q15149-2;Q15149-9;Q15149-8;Q15149;Q15149-7;Q15149-5;Q15149-6;Q15149-4	.;.;.;PLEC_HUMAN;.;.;.;.	L	2130;2134;2130;2098;2267;2108;2116;2157;2153	ENSP00000344848:Q2130L;ENSP00000350277:Q2134L;ENSP00000346602:Q2130L;ENSP00000381756:Q2098L;ENSP00000323856:Q2267L;ENSP00000347044:Q2108L;ENSP00000348702:Q2116L;ENSP00000388180:Q2157L;ENSP00000434583:Q2153L	ENSP00000323856:Q2267L	Q	-	2	0	PLEC	145069696	0.350000	0.24878	0.725000	0.30721	0.062000	0.15995	1.232000	0.32636	0.690000	0.31570	0.368000	0.22195	CAG		0.741	PLEC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383281.1	NM_000445		A	144997708	T	A	144997708	3	1	583	1	0	0	0	0	1	0	0	0	12059	1580	55	5	7262	5	PLEC	8	144997708	Missense_Mutation	SNP	T	TCGA-EV-5901-01A-11D-1589-08	67378929	144997708	1366314	28	34612										
ABCA2	20	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	139908396	139908396	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	cgggcgcagtggaagcgtttGaccagcagcccgtggaactg	16	11	0	1			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr9:139908396G>C	ENST00000371605.3	-	27	4479	c.4332C>G	c.(4330-4332)gtC>gtG	p.V1444V	ABCA2_ENST00000341511.6_Silent_p.V1445V|ABCA2_ENST00000265662.5_Silent_p.V1445V			Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 2	1444					ATP catabolic process (GO:0006200)|cholesterol homeostasis (GO:0042632)|lipid metabolic process (GO:0006629)|regulation of intracellular cholesterol transport (GO:0032383)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to drug (GO:0042493)|response to steroid hormone (GO:0048545)|transmembrane transport (GO:0055085)|transport (GO:0006810)	ATP-binding cassette (ABC) transporter complex (GO:0043190)|cytoplasmic membrane-bounded vesicle (GO:0016023)|endosome (GO:0005768)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|nucleotide binding (GO:0000166)			central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|liver(1)|lung(25)|prostate(2)|skin(1)|stomach(1)|urinary_tract(1)	41	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GGAAGCGTTTGACCAGCAGCC	0.672																																																0													44	56	52					9																	139908396		2147	4225	6372	SO:0001819	synonymous_variant	20			U18235	CCDS43909.1	9q34	2012-03-14			ENSG00000107331	ENSG00000107331		"ATP binding cassette transporters / subfamily A"	32	protein-coding gene	gene with protein product		600047		ABC2		8088782	Standard	NM_212533		Approved		uc022bpy.1	Q9BZC7	OTTHUMG00000020958	ENST00000371605.3:c.4332C>G	9.37:g.139908396G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NED5|Q5SPY5|Q5W9G5|Q76MW7|Q9HC28	Silent	SNP	ENST00000371605.3	37																																																																																					0.672	ABCA2-202	KNOWN	basic	protein_coding	protein_coding		NM_001606		C	139908396	G	C	139908396	2	2	583	1	0	0	0	0	0	0	0	1	32	1277	45	4		4	ABCA2	9	139908396	Silent	SNP	G	TCGA-EV-5901-01A-11D-1589-08		139908396	1305035	29	34613										
ANK3	288	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	61836183	61836183	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	gtaagtggtggggagggatcTtgttgctcctgtactccgtt	15	7	1	0			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr10:61836183T>C	ENST00000280772.2	-	37	4647	c.4456A>G	c.(4456-4458)Aga>Gga	p.R1486G	ANK3_ENST00000355288.2_Intron|ANK3_ENST00000373827.2_Intron|ANK3_ENST00000503366.1_Intron	NM_020987.3	NP_066267.2	Q12955	ANK3_HUMAN	ankyrin 3, node of Ranvier (ankyrin G)	1486					axon guidance (GO:0007411)|axonogenesis (GO:0007409)|cytoskeletal anchoring at plasma membrane (GO:0007016)|establishment of protein localization (GO:0045184)|Golgi to plasma membrane protein transport (GO:0043001)|maintenance of protein location in plasma membrane (GO:0072660)|membrane assembly (GO:0071709)|mitotic cytokinesis (GO:0000281)|neuromuscular junction development (GO:0007528)|neuronal action potential (GO:0019228)|plasma membrane organization (GO:0007009)|positive regulation of cell communication by electrical coupling (GO:0010650)|positive regulation of gene expression (GO:0010628)|positive regulation of homotypic cell-cell adhesion (GO:0034112)|positive regulation of membrane depolarization during cardiac muscle cell action potential (GO:1900827)|positive regulation of membrane potential (GO:0045838)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|positive regulation of sodium ion transport (GO:0010765)|protein localization to plasma membrane (GO:0072659)|protein targeting to plasma membrane (GO:0072661)|regulation of potassium ion transport (GO:0043266)|signal transduction (GO:0007165)	axon initial segment (GO:0043194)|basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|costamere (GO:0043034)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|intercalated disc (GO:0014704)|lateral plasma membrane (GO:0016328)|lysosome (GO:0005764)|neuromuscular junction (GO:0031594)|node of Ranvier (GO:0033268)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|sarcoplasmic reticulum (GO:0016529)|spectrin-associated cytoskeleton (GO:0014731)|T-tubule (GO:0030315)|Z disc (GO:0030018)	cadherin binding (GO:0045296)|cytoskeletal protein binding (GO:0008092)|ion channel binding (GO:0044325)|protein binding, bridging (GO:0030674)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)			NS(4)|breast(7)|central_nervous_system(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(5)|kidney(14)|large_intestine(30)|liver(2)|lung(59)|ovary(8)|pancreas(2)|prostate(5)|skin(26)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(7)	196						GGGAGGGATCTTGTTGCTCCT	0.418																																																0													86	86	86					10																	61836183		2203	4300	6503	SO:0001583	missense	288			U13616	CCDS7258.1, CCDS7259.1, CCDS55711.1, CCDS55712.1	10q21	2013-01-10			ENSG00000151150	ENSG00000151150		"Ankyrin repeat domain containing"	494	protein-coding gene	gene with protein product	"ankyrin-3, node of Ranvier", "ankyrin-G"	600465				7665168	Standard	NM_020987		Approved		uc001jky.3	Q12955	OTTHUMG00000018288	ENST00000280772.2:c.4456A>G	10.37:g.61836183T>C	ENSP00000280772:p.Arg1486Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B1AQT2|B4DIL1|E9PE32|Q13484|Q5CZH9|Q5VXD5|Q7Z3G4|Q9H0P5	Missense_Mutation	SNP	ENST00000280772.2	37	CCDS7258.1	.	.	.	.	.	.	.	.	.	.	T	17.52	3.410662	0.62399	.	.	ENSG00000151150	ENST00000280772	T	0.70045	-0.45	5.69	5.69	0.88448	.	0.000000	0.46145	D	0.000309	T	0.71484	0.3345	L	0.57536	1.79	0.80722	D	1	D	0.56521	0.976	P	0.50109	0.631	T	0.74763	-0.3555	10	0.59425	D	0.04	.	15.9352	0.79698	0.0:0.0:0.0:1.0	.	1486	Q12955	ANK3_HUMAN	G	1486	ENSP00000280772:R1486G	ENSP00000280772:R1486G	R	-	1	2	ANK3	61506189	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.698000	0.84413	2.167000	0.68274	0.477000	0.44152	AGA		0.418	ANK3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048201.4	NM_020987		C	61836183	T	C	61836183	3	2	583	1	0	0	0	0	1	0	0	0	622	1617	56	3	9018	3	ANK3	10	61836183	Missense_Mutation	SNP	T	TCGA-EV-5901-01A-11D-1589-08		61836183	73698564	30	34614										
ZMYND17	118490	hgsc.bcm.edu;broad.mit.edu	37	chr10	75185676	75185676	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	gggcactaagctgaattgtgCcaggttccaggggtgaagtt	15	7	0	2	rs143815503	byFrequency	TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr10:75185676C>T	ENST00000372912.1	-	4	964	c.962G>A	c.(961-963)gGc>gAc	p.G321D	AL353731.1_ENST00000584907.1_RNA|MSS51_ENST00000299432.2_Missense_Mutation_p.G321D			Q4VC12	MSS51_HUMAN	MSS51 mitochondrial translational activator	321					social behavior (GO:0035176)		metal ion binding (GO:0046872)										CTGAATTGTGCCAGGTTCCAG	0.547																																																0													76	70	72					10																	75185676		2203	4300	6503	SO:0001583	missense	118490			AK096884	CCDS31221.1	10q22.3	2013-01-10	2013-01-10	2012-02-24	ENSG00000166343	ENSG00000166343		"Zinc fingers, MYND-type"	21000	protein-coding gene	gene with protein product		614773	"zinc finger, MYND-type containing 17", "MSS51 mitochondrial translational activator homolog (S. cerevisiae)"	ZMYND17		19710419	Standard	NM_001024593		Approved	FLJ39565	uc001jud.3	Q4VC12	OTTHUMG00000018464	ENST00000372912.1:c.962G>A	10.37:g.75185676C>T	ENSP00000362003:p.Gly321Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGH6|Q2VP95|Q5F2H5|Q7Z3M9|Q8N8G0	Missense_Mutation	SNP	ENST00000372912.1	37	CCDS31221.1	.	.	.	.	.	.	.	.	.	.	C	20.5	4.004490	0.74932	.	.	ENSG00000166343	ENST00000299432;ENST00000372912	T;T	0.47869	0.83;0.83	5.64	3.73	0.42828	.	0.228496	0.46758	D	0.000274	T	0.41858	0.1177	L	0.59436	1.845	0.41812	D	0.989971	B;B	0.27140	0.169;0.027	B;B	0.28553	0.091;0.018	T	0.34601	-0.9822	10	0.32370	T	0.25	-6.4632	9.5419	0.39257	0.0:0.7782:0.143:0.0788	.	100;321	Q4VC12-2;Q4VC12	.;ZMY17_HUMAN	D	321	ENSP00000299432:G321D;ENSP00000362003:G321D	ENSP00000299432:G321D	G	-	2	0	ZMYND17	74855682	1.000000	0.71417	0.995000	0.50966	0.964000	0.63967	2.882000	0.48546	1.627000	0.50400	0.650000	0.86243	GGC		0.547	MSS51-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048652.3	NM_178451		T	75185676	C	T	75185676	3	4	583	1	0	0	0	0	1	0	0	0	17721	739	26	2	432	2	ZMYND17	10	75185676	Missense_Mutation	SNP	C	TCGA-EV-5901-01A-11D-1589-08	13349493	75185676	60349071	31	34615										
LDB3	11155	hgsc.bcm.edu	37	chr10	88476182	88476182	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	acaccccctcccctgcccctGcctacaccccctcacctgtc	3	26	1	0			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr10:88476182G>C	ENST00000361373.4	+	9	1351	c.1330G>C	c.(1330-1332)Gcc>Ccc	p.A444P	LDB3_ENST00000429277.2_Missense_Mutation_p.A449P|LDB3_ENST00000352360.5_Missense_Mutation_p.A187P|LDB3_ENST00000263066.6_Missense_Mutation_p.A334P|LDB3_ENST00000458213.2_Missense_Mutation_p.A334P	NM_007078.2	NP_009009.1			LIM domain binding 3											breast(1)|endometrium(3)|kidney(2)|large_intestine(5)|lung(9)|ovary(3)|prostate(1)|soft_tissue(1)	25						ccctgcccctgcctacacccc	0.652																																																0													25	24	24					10																	88476182		2192	4264	6456	SO:0001583	missense	11155			AB014513	CCDS7377.1, CCDS41544.1, CCDS41545.1, CCDS53549.1, CCDS53550.1	10q22.3-q23.2	2014-09-17			ENSG00000122367	ENSG00000122367			15710	protein-coding gene	gene with protein product	"cypher", "oracle", "Z-band alternatively spliced PDZ motif protein"	605906	"cardiomyopathy, dilated 1C (autosomal dominant)"	CMD1C		10427098, 23271734, 23996002, 14662268	Standard	NM_001080114		Approved	PDLIM6, KIAA0613, ZASP	uc001kdv.3	O75112	OTTHUMG00000018655	ENST00000361373.4:c.1330G>C	10.37:g.88476182G>C	ENSP00000355296:p.Ala444Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000361373.4	37	CCDS7377.1	.	.	.	.	.	.	.	.	.	.	G	13.34	2.208962	0.39003	.	.	ENSG00000122367	ENST00000429277;ENST00000458213;ENST00000352360;ENST00000263066;ENST00000361373	T;T;T;T;T	0.54071	0.78;0.63;0.6;0.63;0.59	4.32	2.05	0.26809	.	0.805872	0.10145	N	0.710390	T	0.29389	0.0732	N	0.03608	-0.345	0.80722	D	1	B;B;B;D;B	0.53885	0.001;0.437;0.0;0.963;0.0	B;B;B;P;B	0.46796	0.001;0.143;0.002;0.527;0.001	T	0.04400	-1.0954	10	0.21540	T	0.41	.	4.7296	0.12957	0.1602:0.2243:0.6155:0.0	.	449;381;187;444;334	B4E3K3;F5H0C2;O75112-3;O75112;O75112-2	.;.;.;LDB3_HUMAN;.	P	449;334;187;334;444	ENSP00000401437:A449P;ENSP00000409148:A334P;ENSP00000263067:A187P;ENSP00000263066:A334P;ENSP00000355296:A444P	ENSP00000263066:A334P	A	+	1	0	LDB3	88466162	0.931000	0.31567	0.999000	0.59377	0.787000	0.44495	0.960000	0.29253	0.761000	0.33130	0.650000	0.86243	GCC		0.652	LDB3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000049160.2			C	88476182	G	C	88476182	3	2	583	1	0	0	0	0	1	0	0	0	8704	1319	46	4	1700	4	LDB3	10	88476182	Missense_Mutation	SNP	G	TCGA-EV-5901-01A-11D-1589-08	13290506	88476182	47058565	32	34616										
IFIT1B	439996	broad.mit.edu	37	chr10	91143275	91143275	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	aacacctgaaaggccagaatGaggaagccctggtcagcttg	12	10	1	3			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr10:91143275G>C	ENST00000371809.3	+	2	285	c.205G>C	c.(205-207)Gag>Cag	p.E69Q	LIPA_ENST00000371837.1_Intron	NM_001010987.2	NP_001010987.1	Q5T764	IFT1B_HUMAN	interferon-induced protein with tetratricopeptide repeats 1B	69										endometrium(2)|large_intestine(3)|lung(8)	13						AGGCCAGAATGAGGAAGCCCT	0.448																																																0													87	87	87					10																	91143275		2203	4300	6503	SO:0001583	missense	439996				CCDS31242.1	10q23.31	2014-05-22	2010-03-22	2010-03-22	ENSG00000204010	ENSG00000204010		"Tetratricopeptide (TTC) repeat domain containing"	23442	protein-coding gene	gene with protein product			"interferon-induced protein with tetratricopeptide repeats 1-like"	IFIT1L			Standard	NM_001010987		Approved	bA149I23.6	uc001kgh.3	Q5T764	OTTHUMG00000018709	ENST00000371809.3:c.205G>C	10.37:g.91143275G>C	ENSP00000360874:p.Glu69Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A7E245	Missense_Mutation	SNP	ENST00000371809.3	37	CCDS31242.1	.	.	.	.	.	.	.	.	.	.	G	13.98	2.397772	0.42512	.	.	ENSG00000204010	ENST00000371809	D	0.94537	-3.45	4.61	-0.804	0.10882	Tetratricopeptide-like helical (1);	0.385721	0.27613	U	0.018591	D	0.89784	0.6815	L	0.41027	1.25	0.09310	N	1	P	0.39551	0.678	P	0.44696	0.458	T	0.81876	-0.0731	10	0.28530	T	0.3	.	4.9756	0.14138	0.3147:0.2608:0.4244:0.0	.	69	Q5T764	IFT1B_HUMAN	Q	69	ENSP00000360874:E69Q	ENSP00000360874:E69Q	E	+	1	0	IFIT1B	91133255	0.017000	0.18338	0.001000	0.08648	0.874000	0.50279	0.199000	0.17237	-0.188000	0.10499	0.557000	0.71058	GAG		0.448	IFIT1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049296.3	NM_001010987		C	91143275	G	C	91143275	3	2	583	1	0	0	0	0	1	0	0	0	7529	1291	45	4	211	4	IFIT1B	10	91143275	Missense_Mutation	SNP	G	TCGA-EV-5901-01A-11D-1589-08	2667093	91143275	44391472	33	34617										
GUCY2C	2984	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	14796597	14796597	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	cgcagttggtagatttcagaCgaccatggacttctgtctta	10	9	3	2			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr12:14796597C>T	ENST00000261170.3	-	17	1977	c.1841G>A	c.(1840-1842)cGt>cAt	p.R614H		NM_004963.3	NP_004954.2	P25092	GUC2C_HUMAN	guanylate cyclase 2C (heat stable enterotoxin receptor)	614	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				intracellular signal transduction (GO:0035556)|receptor guanylyl cyclase signaling pathway (GO:0007168)|regulation of cell proliferation (GO:0042127)|response to toxic substance (GO:0009636)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|GTP binding (GO:0005525)|guanylate cyclase activity (GO:0004383)|protein kinase activity (GO:0004672)|toxic substance binding (GO:0015643)			breast(3)|endometrium(7)|kidney(3)|large_intestine(9)|lung(17)|ovary(4)|skin(7)|urinary_tract(1)	51					Linaclotide(DB08890)	AGATTTCAGACGACCATGGAC	0.398																																																0													162	153	156					12																	14796597		2203	4300	6503	SO:0001583	missense	2984				CCDS8664.1	12p12	2008-08-18			ENSG00000070019	ENSG00000070019			4688	protein-coding gene	gene with protein product		601330		GUC2C		8661067	Standard	NM_004963		Approved	STAR	uc001rcd.3	P25092	OTTHUMG00000168732	ENST00000261170.3:c.1841G>A	12.37:g.14796597C>T	ENSP00000261170:p.Arg614His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMY6	Missense_Mutation	SNP	ENST00000261170.3	37	CCDS8664.1	.	.	.	.	.	.	.	.	.	.	C	21.2	4.110733	0.77210	.	.	ENSG00000070019	ENST00000261170	T	0.61980	0.06	5.47	5.47	0.80525	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.56232	0.1971	L	0.28458	0.855	0.80722	D	1	P	0.38767	0.646	B	0.39562	0.303	T	0.59862	-0.7374	10	0.54805	T	0.06	.	19.3191	0.94231	0.0:1.0:0.0:0.0	.	614	P25092	GUC2C_HUMAN	H	614	ENSP00000261170:R614H	ENSP00000261170:R614H	R	-	2	0	GUCY2C	14687864	1.000000	0.71417	0.800000	0.32199	0.988000	0.76386	4.932000	0.63476	2.549000	0.85964	0.650000	0.86243	CGT		0.398	GUCY2C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400835.1			T	14796597	C	T	14796597	3	4	583	1	0	0	0	0	1	0	0	0	6903	536	19	1	1424	1	GUCY2C	12	14796597	Missense_Mutation	SNP	C	TCGA-EV-5901-01A-11D-1589-08		14796597	119055298	34	34618										
KDM2B	84678	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	121947832	121947832	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	aagccgtctatgctgggcttCctcggggcatctgtgggggc	16	11	2	0			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr12:121947832C>T	ENST00000377071.4	-	11	1257	c.1185G>A	c.(1183-1185)agG>agA	p.R395R	KDM2B_ENST00000542973.1_5'Flank|KDM2B_ENST00000377069.4_Silent_p.R364R|KDM2B_ENST00000536437.1_Silent_p.R278R|KDM2B_ENST00000538046.2_Silent_p.R305R	NM_032590.4	NP_115979.3	Q8NHM5	KDM2B_HUMAN	lysine (K)-specific demethylase 2B	395					embryonic camera-type eye morphogenesis (GO:0048596)|forebrain development (GO:0030900)|fourth ventricle development (GO:0021592)|hindbrain development (GO:0030902)|histone demethylation (GO:0016577)|histone H2A monoubiquitination (GO:0035518)|initiation of neural tube closure (GO:0021993)|lateral ventricle development (GO:0021670)|midbrain development (GO:0030901)|midbrain-hindbrain boundary morphogenesis (GO:0021555)|negative regulation of neural precursor cell proliferation (GO:2000178)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|spermatogenesis (GO:0007283)|third ventricle development (GO:0021678)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone demethylase activity (GO:0032452)|histone demethylase activity (H3-K36 specific) (GO:0051864)|rRNA binding (GO:0019843)|zinc ion binding (GO:0008270)			breast(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(8)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	19						TGCTGGGCTTCCTCGGGGCAT	0.577																																																0													34	38	37					12																	121947832		1945	4141	6086	SO:0001819	synonymous_variant	84678			AJ459424	CCDS41849.1, CCDS41850.1	12q24.31	2014-02-18	2009-04-06	2009-04-06	ENSG00000089094	ENSG00000089094		"F-boxes / Leucine-rich repeats", "Chromatin-modifying enzymes / K-demethylases"	13610	protein-coding gene	gene with protein product	"jumonji C domain-containing histone demethylase 1B"	609078	"F-box and leucine-rich repeat protein 10"	FBXL10		10799292	Standard	NM_032590		Approved	PCCX2, CXXC2, Fbl10, JHDM1B	uc001uat.3	Q8NHM5	OTTHUMG00000169071	ENST00000377071.4:c.1185G>A	12.37:g.121947832C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MRS1|Q8NCI2|Q96HC7|Q96SL0|Q96T03|Q9NS96|Q9UF75	Silent	SNP	ENST00000377071.4	37	CCDS41850.1																																																																																				0.577	KDM2B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000402132.2	NM_032590		T	121947832	C	T	121947832	2	4	583	1	0	0	0	0	0	0	0	1	8132	854	30	2		2	KDM2B	12	121947832	Silent	SNP	C	TCGA-EV-5901-01A-11D-1589-08	107151235	121947832	11904063	35	34619										
SACS	26278	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	23909472	23909472	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	cagctactccaccacgtgggAaaagagtaatatcttggttc	9	10	1	1			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr13:23909472A>T	ENST00000382292.3	-	9	8816	c.8543T>A	c.(8542-8544)tTc>tAc	p.F2848Y	SACS_ENST00000382298.3_Missense_Mutation_p.F2848Y|SACS_ENST00000402364.1_Missense_Mutation_p.F2098Y			Q9NZJ4	SACS_HUMAN	sacsin molecular chaperone	2848					cell death (GO:0008219)|negative regulation of inclusion body assembly (GO:0090084)|protein folding (GO:0006457)	axon (GO:0030424)|cell body fiber (GO:0070852)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	chaperone binding (GO:0051087)|Hsp70 protein binding (GO:0030544)|proteasome binding (GO:0070628)			NS(1)|biliary_tract(1)|breast(3)|central_nervous_system(2)|endometrium(22)|haematopoietic_and_lymphoid_tissue(1)|kidney(15)|large_intestine(54)|lung(49)|ovary(7)|pancreas(1)|prostate(4)|skin(10)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(11)	189		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)		ACCACGTGGGAAAAGAGTAAT	0.408																																																0													85	83	84					13																	23909472		2203	4299	6502	SO:0001583	missense	26278			AF193556	CCDS9300.2	13q11	2014-06-13	2014-01-30		ENSG00000151835	ENSG00000151835		"Heat shock proteins / DNAJ (HSP40)"	10519	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 138"	604490	"spastic ataxia of Charlevoix-Saguenay (sacsin)"			10610707, 15057823, 21726565	Standard	NM_001278055		Approved	ARSACS, KIAA0730, DKFZp686B15167, DNAJC29, SPAX6, PPP1R138	uc001uon.3	Q9NZJ4	OTTHUMG00000016562	ENST00000382292.3:c.8543T>A	13.37:g.23909472A>T	ENSP00000371729:p.Phe2848Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	O94835|Q5T9J5|Q5T9J7|Q5T9J8|Q68DF5|Q6MZR4|Q8NBF9	Missense_Mutation	SNP	ENST00000382292.3	37	CCDS9300.2	.	.	.	.	.	.	.	.	.	.	A	28.1	4.889154	0.91889	.	.	ENSG00000151835	ENST00000382292;ENST00000402364;ENST00000382298	D;D;D	0.87491	-2.1;-2.26;-2.1	5.46	5.46	0.80206	.	0.000000	0.85682	D	0.000000	D	0.88819	0.6540	L	0.40543	1.245	0.43588	D	0.995931	D	0.59357	0.985	P	0.59221	0.854	D	0.87733	0.2580	10	0.33940	T	0.23	.	15.58	0.76425	1.0:0.0:0.0:0.0	.	2848	Q9NZJ4	SACS_HUMAN	Y	2848;2098;2848	ENSP00000371729:F2848Y;ENSP00000385844:F2098Y;ENSP00000371735:F2848Y	ENSP00000371729:F2848Y	F	-	2	0	SACS	22807472	1.000000	0.71417	0.920000	0.36463	0.995000	0.86356	8.962000	0.93254	2.084000	0.62774	0.449000	0.29647	TTC		0.408	SACS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044148.3	NM_014363		T	23909472	A	T	23909472	3	4	583	1	0	0	0	0	1	0	0	0	13817	246	9	5	5200	5	SACS	13	23909472	Missense_Mutation	SNP	A	TCGA-EV-5901-01A-11D-1589-08		23909472	91260406	36	34620										
B3GALTL	145173	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	31821210	31821210	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	ctggctaaacaagaaggtgcAtggaccatacttccgttgtt	10	9	0	1			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr13:31821210A>G	ENST00000343307.4	+	5	470	c.321A>G	c.(319-321)gcA>gcG	p.A107A		NM_194318.3	NP_919299.3	Q6Y288	B3GLT_HUMAN	beta 1,3-galactosyltransferase-like	107					fucose metabolic process (GO:0006004)|protein glycosylation (GO:0006486)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	transferase activity, transferring glycosyl groups (GO:0016757)			breast(1)|cervix(1)|kidney(1)|large_intestine(4)|lung(7)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	19		Lung SC(185;0.0257)		all cancers(112;0.00436)|Epithelial(112;0.0285)|OV - Ovarian serous cystadenocarcinoma(117;0.0512)|GBM - Glioblastoma multiforme(144;0.184)		AAGAAGGTGCATGGACCATAC	0.418																																																0													166	132	144					13																	31821210		2203	4300	6503	SO:0001819	synonymous_variant	145173			AB101481	CCDS9341.1	13q12.3	2014-03-24			ENSG00000187676	ENSG00000187676		"Beta 3-glycosyltransferases"	20207	protein-coding gene	gene with protein product		610308				12943678, 16899492, 17032646	Standard	NM_194318		Approved	B3GTL, B3Glc-T	uc010aaz.3	Q6Y288	OTTHUMG00000016688	ENST00000343307.4:c.321A>G	13.37:g.31821210A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5F8|Q5W0H2|Q6NUI3	Silent	SNP	ENST00000343307.4	37	CCDS9341.1																																																																																				0.418	B3GALTL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044396.3	NM_194318		G	31821210	A	G	31821210	2	3	583	1	0	0	0	0	0	0	0	1	1252	204	8	3		3	B3GALTL	13	31821210	Silent	SNP	A	TCGA-EV-5901-01A-11D-1589-08	7911738	31821210	83348668	37	34621										
AHNAK2	113146	ucsc.edu	37	chr14	105418145	105418145	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	ctccaggtcagcggaaggggGctgaatgctgaggtcagtgg	18	8	2	2	rs375277628	byFrequency	TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr14:105418145G>A	ENST00000333244.5	-	7	3762	c.3643C>T	c.(3643-3645)Ccc>Tcc	p.P1215S	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1215						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			GCGGAAGGGGGCTGAATGCTG	0.647													.|||	6	0.00119808	0.0	0.0	5008	,	,		15037	0.0		0.001	False		,,,				2504	0.0051															0								G	SER/PRO	2,3852		0,2,1925	96	70	79		3643	1.6	0	14		79	3,7607		0,3,3802	no	missense	AHNAK2	NM_138420.2	74	0,5,5727	AA,AG,GG		0.0394,0.0519,0.0436	benign	1215/5796	105418145	5,11459	1927	3805	5732	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.3643C>T	14.37:g.105418145G>A	ENSP00000353114:p.Pro1215Ser	Somatic		WXS	Illumina HiSeq		Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	.	.	.	.	.	.	.	.	.	.	g	9.389	1.074896	0.20227	5.19E-4	3.94E-4	ENSG00000185567	ENST00000333244	T	0.00840	5.63	4.55	1.58	0.23477	.	.	.	.	.	T	0.00695	0.0023	N	0.25201	0.72	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.46512	-0.9186	9	0.08837	T	0.75	.	5.6981	0.17867	0.0766:0.3467:0.4538:0.1229	.	1215	Q8IVF2	AHNK2_HUMAN	S	1215	ENSP00000353114:P1215S	ENSP00000353114:P1215S	P	-	1	0	AHNAK2	104489190	.	.	0.009000	0.14445	0.004000	0.04260	.	.	0.383000	0.24910	-1.447000	0.01057	CCC		0.647	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		A	105418145	G	A	105418145	3	1	583	1	0	0	0	0	1	0	0	0	415	1203	42	2	13748	2	AHNAK2	14	105418145	Missense_Mutation	SNP	G	TCGA-EV-5901-01A-11D-1589-08		105418145	1931395	38	34622										
ZFP106	64397	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	42717056	42717056	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	atgcaaagaatggttttgctAtggccctccagagttctgag	11	8	1	3			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr15:42717056A>C	ENST00000263805.4	-	13	5423	c.5097T>G	c.(5095-5097)caT>caG	p.H1699Q	RNU6-188P_ENST00000364207.1_RNA|ZNF106_ENST00000565660.1_5'Flank|ZNF106_ENST00000565380.1_Missense_Mutation_p.H927Q|ZNF106_ENST00000565611.1_Missense_Mutation_p.H884Q	NM_001284306.1|NM_001284307.1|NM_022473.1	NP_001271235.1|NP_001271236.1|NP_071918.1	Q9H2Y7	ZN106_HUMAN	zinc finger protein 106	1699					insulin receptor signaling pathway (GO:0008286)	cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)										TGGTTTTGCTATGGCCCTCCA	0.522																																																0													75	62	67					15																	42717056		2203	4299	6502	SO:0001583	missense	64397			AF205632	CCDS32208.1, CCDS61602.1, CCDS61603.1	15q15.1	2012-11-27	2012-11-27		ENSG00000103994	ENSG00000103994		"Zinc fingers, C2H2-type"	12886	protein-coding gene	gene with protein product	"SH3-domain binding protein 3"		"zinc finger protein 106 homolog (mouse)"	ZFP106			Standard	XM_005254591		Approved	ZNF474, SH3BP3	uc001zpw.3	Q9H2Y7	OTTHUMG00000173244	ENST00000263805.4:c.5097T>G	15.37:g.42717056A>C	ENSP00000263805:p.His1699Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ40|E9PE29|Q6NSD9|Q6PEK1|Q86T43|Q86T45|Q86T50|Q86T58|Q86TA9|Q96M37|Q9H7B8	Missense_Mutation	SNP	ENST00000263805.4	37	CCDS32208.1	.	.	.	.	.	.	.	.	.	.	A	19.19	3.779019	0.70107	.	.	ENSG00000103994	ENST00000263805;ENST00000434903	T	0.81415	-1.49	5.44	-5.28	0.02755	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.000000	0.85682	D	0.000000	D	0.88952	0.6577	M	0.86805	2.84	0.51233	D	0.999915	D;D;D	0.89917	0.999;1.0;1.0	D;D;D	0.91635	0.996;0.999;0.999	D	0.89321	0.3640	10	0.87932	D	0	-15.4983	17.6295	0.88103	0.1114:0.0:0.8886:0.0	.	927;1699;927	E9PE29;Q9H2Y7;B4DZ40	.;ZF106_HUMAN;.	Q	1699;927	ENSP00000263805:H1699Q	ENSP00000263805:H1699Q	H	-	3	2	ZFP106	40504348	0.990000	0.36364	0.928000	0.36995	0.984000	0.73092	0.230000	0.17852	-0.844000	0.04184	-1.151000	0.01829	CAT		0.522	ZNF106-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000422587.1	NM_022473		C	42717056	A	C	42717056	3	2	583	1	0	0	0	0	1	0	0	0	17649	446	16	5	582	5	ZFP106	15	42717056	Missense_Mutation	SNP	A	TCGA-EV-5901-01A-11D-1589-08		42717056	59814336	39	34623										
KIAA1199	57214	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	81230320	81230320	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	ctactgggacgaggactcagGgtgagcaggcgcccacttgg	16	11	1	1			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr15:81230320G>A	ENST00000394685.3	+	25	3826	c.3407G>A	c.(3406-3408)gGg>gAg	p.G1136E	RP11-351M8.2_ENST00000560873.1_RNA|KIAA1199_ENST00000356249.5_Splice_Site_p.G1136E|KIAA1199_ENST00000220244.3_Splice_Site_p.G1136E			Q8WUJ3	CEMIP_HUMAN		1136					hyaluronan catabolic process (GO:0030214)|positive regulation of cell migration (GO:0030335)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of protein kinase C activity (GO:1900020)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of release of sequestered calcium ion into cytosol (GO:0051281)|sensory perception of sound (GO:0007605)	clathrin-coated vesicle membrane (GO:0030665)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	clathrin heavy chain binding (GO:0032050)|ER retention sequence binding (GO:0046923)|hyaluronic acid binding (GO:0005540)|hyalurononglucosaminidase activity (GO:0004415)			breast(4)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(10)|lung(14)|ovary(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	49						GAGGACTCAGGGTGAGCAGGC	0.547																																																0													38	33	35					15																	81230320		2203	4300	6503	SO:0001630	splice_region_variant	57214																														ENST00000394685.3:c.3407+1G>A	15.37:g.81230320G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6L9J5|Q9H1K5|Q9NPN9|Q9ULM1	Missense_Mutation	SNP	ENST00000394685.3	37	CCDS10315.1	.	.	.	.	.	.	.	.	.	.	G	33	5.227247	0.95173	.	.	ENSG00000103888	ENST00000220244;ENST00000394685;ENST00000356249	T;T;T	0.50813	0.73;0.73;0.73	5.46	5.46	0.80206	.	0.000000	0.85682	D	0.000000	T	0.72463	0.3463	M	0.82193	2.58	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.72934	-0.4141	10	0.41790	T	0.15	-33.8466	19.3153	0.94211	0.0:0.0:1.0:0.0	.	1136	Q8WUJ3	K1199_HUMAN	E	1136	ENSP00000220244:G1136E;ENSP00000378177:G1136E;ENSP00000348583:G1136E	ENSP00000220244:G1136E	G	+	2	0	KIAA1199	79017375	1.000000	0.71417	0.998000	0.56505	0.924000	0.55760	9.063000	0.93927	2.559000	0.86315	0.655000	0.94253	GGG		0.547	KIAA1199-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000291389.1		Missense_Mutation	A	81230320	G	A	81230320	5	1	583	1	0	0	0	0	0	0	1	0	8220	1246	43	2	3497	2	KIAA1199	15	81230320	Splice_Site	SNP	G	TCGA-EV-5901-01A-11D-1589-08	38513264	81230320	21301072	40	34624										
AXIN1	8312	broad.mit.edu	37	chr16	354433	354433	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	cggacctccttcggcacccgGtacgtgcgctgcgagggaca	14	15	0	0			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr16:354433G>A	ENST00000262320.3	-	5	1496	c.1125C>T	c.(1123-1125)taC>taT	p.Y375Y	AXIN1_ENST00000354866.3_Silent_p.Y375Y|AXIN1_ENST00000481769.1_5'UTR	NM_003502.3	NP_003493.1	O15169	AXIN1_HUMAN	axin 1	375	Interaction with GSK3B. {ECO:0000250}.				activation of JUN kinase activity (GO:0007257)|activation of protein kinase activity (GO:0032147)|apoptotic process (GO:0006915)|axial mesoderm formation (GO:0048320)|canonical Wnt signaling pathway (GO:0060070)|canonical Wnt signaling pathway involved in neural plate anterior/posterior pattern formation (GO:0060823)|cell death (GO:0008219)|cellular protein complex assembly (GO:0043623)|cellular response to organic cyclic compound (GO:0071407)|cytoplasmic microtubule organization (GO:0031122)|determination of left/right symmetry (GO:0007368)|dorsal/ventral axis specification (GO:0009950)|embryonic eye morphogenesis (GO:0048048)|embryonic skeletal joint morphogenesis (GO:0060272)|forebrain anterior/posterior pattern specification (GO:0021797)|genetic imprinting (GO:0071514)|in utero embryonic development (GO:0001701)|muscle cell development (GO:0055001)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of protein metabolic process (GO:0051248)|negative regulation of transcription elongation from RNA polymerase II promoter (GO:0034244)|negative regulation of Wnt signaling pathway (GO:0030178)|nucleocytoplasmic transport (GO:0006913)|olfactory placode formation (GO:0030910)|optic placode formation (GO:0001743)|positive regulation of GTPase activity (GO:0043547)|positive regulation of JNK cascade (GO:0046330)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|positive regulation of ubiquitin-protein transferase activity (GO:0051443)|post-anal tail morphogenesis (GO:0036342)|protein catabolic process (GO:0030163)|protein homooligomerization (GO:0051260)|protein polyubiquitination (GO:0000209)|regulation of catenin import into nucleus (GO:0035412)|sensory perception of sound (GO:0007605)|termination of G-protein coupled receptor signaling pathway (GO:0038032)|Wnt signaling pathway involved in somitogenesis (GO:0090244)|Wnt-activated signaling pathway involved in forebrain neuron fate commitment (GO:0021881)	beta-catenin destruction complex (GO:0030877)|cell cortex (GO:0005938)|cell periphery (GO:0071944)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytoplasmic microtubule (GO:0005881)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|lateral plasma membrane (GO:0016328)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|postsynaptic density (GO:0014069)	armadillo repeat domain binding (GO:0070016)|beta-catenin binding (GO:0008013)|enzyme binding (GO:0019899)|GTPase activator activity (GO:0005096)|I-SMAD binding (GO:0070411)|identical protein binding (GO:0042802)|protein complex scaffold (GO:0032947)|protein homodimerization activity (GO:0042803)|protein kinase binding (GO:0019901)|signal transducer activity (GO:0004871)|SMAD binding (GO:0046332)|ubiquitin protein ligase binding (GO:0031625)	p.?(1)		biliary_tract(27)|breast(4)|central_nervous_system(6)|cervix(1)|endometrium(5)|kidney(4)|large_intestine(20)|liver(81)|lung(5)|ovary(2)|prostate(3)|salivary_gland(7)|skin(5)|stomach(4)|thyroid(41)|upper_aerodigestive_tract(4)|urinary_tract(2)	221		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				TCGGCACCCGGTACGTGCGCT	0.617																																																1	Unknown(1)	liver(1)											27	27	27					16																	354433		2199	4290	6489	SO:0001819	synonymous_variant	8312			AF009674	CCDS10405.1, CCDS10406.1	16p13.3	2012-04-17			ENSG00000103126	ENSG00000103126		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	903	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 49"	603816				9230313	Standard	NM_003502		Approved	PPP1R49	uc002cgp.2	O15169	OTTHUMG00000064930	ENST00000262320.3:c.1125C>T	16.37:g.354433G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q4TT26|Q4TT27|Q86YA7|Q8WVW6|Q96S28	Silent	SNP	ENST00000262320.3	37	CCDS10405.1																																																																																				0.617	AXIN1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000139441.3			A	354433	G	A	354433	2	1	583	1	0	0	0	0	0	0	0	1	1236	1256	44	2		2	AXIN1	16	354433	Silent	SNP	G	TCGA-EV-5901-01A-11D-1589-08		354433	90000320	41	34625										
ROGDI	79641	hgsc.bcm.edu	37	chr16	4849745	4849745	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	ggtcccggctggtaagcaggTaaatggcttggctcacatgg	15	9	1	0			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr16:4849745T>C	ENST00000322048.7	-	6	752	c.374A>G	c.(373-375)tAc>tGc	p.Y125C	ROGDI_ENST00000586336.1_5'UTR	NM_024589.2	NP_078865.1	Q9GZN7	ROGDI_HUMAN	rogdi homolog (Drosophila)	125					hemopoiesis (GO:0030097)|positive regulation of cell proliferation (GO:0008284)	intracellular (GO:0005622)|nucleus (GO:0005634)				endometrium(2)|lung(1)|ovary(1)|skin(1)	5						GGTAAGCAGGTAAATGGCTTG	0.627																																																0													107	84	92					16																	4849745		2197	4300	6497	SO:0001583	missense	79641			AK026039	CCDS10523.1	16p13.3	2014-09-17			ENSG00000067836	ENSG00000067836			29478	protein-coding gene	gene with protein product		614574				11230166	Standard	NM_024589		Approved	FLJ22386	uc002cxv.4	Q9GZN7	OTTHUMG00000129479	ENST00000322048.7:c.374A>G	16.37:g.4849745T>C	ENSP00000322832:p.Tyr125Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IA00	Missense_Mutation	SNP	ENST00000322048.7	37	CCDS10523.1	.	.	.	.	.	.	.	.	.	.	T	18.71	3.683056	0.68157	.	.	ENSG00000067836	ENST00000322048	T	0.42513	0.97	4.91	4.91	0.64330	.	0.134555	0.52532	D	0.000077	T	0.50309	0.1608	L	0.44542	1.39	0.49798	D	0.999821	D	0.63046	0.992	P	0.57371	0.819	T	0.50684	-0.8799	10	0.51188	T	0.08	-43.9912	13.5501	0.61728	0.0:0.0:0.0:1.0	.	125	Q9GZN7	ROGDI_HUMAN	C	125	ENSP00000322832:Y125C	ENSP00000322832:Y125C	Y	-	2	0	ROGDI	4789746	1.000000	0.71417	0.992000	0.48379	0.802000	0.45316	4.942000	0.63547	1.845000	0.53610	0.459000	0.35465	TAC		0.627	ROGDI-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251643.3	NM_024589		C	4849745	T	C	4849745	3	2	583	1	0	0	0	0	1	0	0	0	13533	1638	57	3	513	3	ROGDI	16	4849745	Missense_Mutation	SNP	T	TCGA-EV-5901-01A-11D-1589-08	4495312	4849745	85505008	42	34626										
FBRS	64319	hgsc.bcm.edu;broad.mit.edu	37	chr16	30676958	30676958	+	Splice_Site	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	ccctccactcccctttcccaGagcacgaaccctgagctgcc	6	21	0	2			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr16:30676958G>C	ENST00000287468.5	+	5	407		c.e5-1		FBRS_ENST00000568722.1_Intron|FBRS_ENST00000395073.2_Splice_Site|FBRS_ENST00000356166.6_Splice_Site	NM_001105079.1	NP_001098549.1	Q9HAH7	FBRS_HUMAN	fibrosin											ovary(1)	1			Colorectal(24;0.103)			CCCTTTCCCAGAGCACGAACC	0.652																																																0													21	22	22					16																	30676958		1984	4156	6140	SO:0001630	splice_region_variant	64319			AK021680		16p11.2	2008-02-05	2007-04-18	2007-04-18	ENSG00000156860	ENSG00000156860			20442	protein-coding gene	gene with protein product		608601	"fibrosin 1"	FBS1		7892239, 9809749	Standard	NM_001105079		Approved	FBS, FLJ11618	uc002dzd.4	Q9HAH7	OTTHUMG00000132390	ENST00000287468.5:c.145-1G>C	16.37:g.30676958G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DP86|Q96CI9|Q9H9X4	Splice_Site	SNP	ENST00000287468.5	37		.	.	.	.	.	.	.	.	.	.	G	16.21	3.058130	0.55325	.	.	ENSG00000156860	ENST00000356166;ENST00000287468	.	.	.	5.18	5.18	0.71444	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.6054	0.76664	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	FBRS	30584459	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.886000	0.63149	2.419000	0.82065	0.591000	0.81541	.		0.652	FBRS-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_022452	Intron	C	30676958	G	C	30676958	5	2	583	1	0	0	0	0	0	0	1	0	5714	956	33	4	158	4	FBRS	16	30676958	Splice_Site	SNP	G	TCGA-EV-5901-01A-11D-1589-08	25827213	30676958	59677795	43	34627										
ALOX12	239	broad.mit.edu	37	chr17	6905026	6905026	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	gggtccgaaattcagatttcCaactgcacgagatccagtat	9	10	1	2			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr17:6905026C>A	ENST00000251535.6	+	8	1110	c.1057C>A	c.(1057-1059)Caa>Aaa	p.Q353K	AC027763.2_ENST00000575727.1_Intron|AC027763.2_ENST00000399541.2_Intron|AC027763.2_ENST00000399540.2_3'UTR|AC027763.2_ENST00000574377.1_Intron|RP11-589P10.7_ENST00000572547.1_RNA	NM_000697.2	NP_000688.2	P18054	LOX12_HUMAN	arachidonate 12-lipoxygenase	353	Lipoxygenase. {ECO:0000255|PROSITE- ProRule:PRU00726}.				aging (GO:0007568)|arachidonic acid metabolic process (GO:0019369)|cellular component movement (GO:0006928)|cellular response to lipid (GO:0071396)|establishment of skin barrier (GO:0061436)|fatty acid oxidation (GO:0019395)|hepoxilin biosynthetic process (GO:0051122)|hepoxilin metabolic process (GO:0051121)|leukotriene A4 metabolic process (GO:1901751)|linoleic acid metabolic process (GO:0043651)|lipoxin A4 biosynthetic process (GO:2001303)|lipoxin B4 biosynthetic process (GO:2001306)|lipoxin metabolic process (GO:2001300)|lipoxygenase pathway (GO:0019372)|negative regulation of apoptotic process (GO:0043066)|negative regulation of muscle cell apoptotic process (GO:0010656)|negative regulation of platelet aggregation (GO:0090331)|positive regulation of angiogenesis (GO:0045766)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cell adhesion (GO:0045785)|positive regulation of cell growth (GO:0030307)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of endothelial cell differentiation (GO:0045603)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of gene expression (GO:0010628)|positive regulation of mitochondrial depolarization (GO:0051901)|positive regulation of smooth muscle cell proliferation (GO:0048661)|positive regulation of vasodilation (GO:0045909)|reactive oxygen species metabolic process (GO:0072593)|small molecule metabolic process (GO:0044281)|superoxide anion generation (GO:0042554)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|sarcolemma (GO:0042383)	arachidonate 12-lipoxygenase activity (GO:0004052)|hepoxilin A3 synthase activity (GO:0051120)|hepoxilin-epoxide hydrolase activity (GO:0047977)|iron ion binding (GO:0005506)|linoleate 13S-lipoxygenase activity (GO:0016165)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen (GO:0016702)			breast(2)|central_nervous_system(1)|endometrium(3)|large_intestine(4)|lung(4)|ovary(1)|prostate(3)|urinary_tract(1)	19						TTCAGATTTCCAACTGCACGA	0.592																																																0													123	111	115					17																	6905026		2203	4300	6503	SO:0001583	missense	239			M35418	CCDS11084.1	17p13.1	2010-01-14			ENSG00000108839	ENSG00000108839	1.13.11.31	"Arachidonate lipoxygenases"	429	protein-coding gene	gene with protein product	"platelet 12-LOX"	152391				1570320	Standard	NM_000697		Approved	12S-LOX	uc002gdx.4	P18054	OTTHUMG00000102088	ENST00000251535.6:c.1057C>A	17.37:g.6905026C>A	ENSP00000251535:p.Gln353Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O95569|Q6ISF8|Q9UQM4	Missense_Mutation	SNP	ENST00000251535.6	37	CCDS11084.1	.	.	.	.	.	.	.	.	.	.	C	20.8	4.057271	0.76074	.	.	ENSG00000108839	ENST00000251535	T	0.76578	-1.03	4.9	4.9	0.64082	Lipoxygenase, C-terminal (4);	0.000000	0.85682	D	0.000000	D	0.87657	0.6232	M	0.88570	2.965	0.44995	D	0.998011	P	0.49253	0.921	P	0.56648	0.803	D	0.88947	0.3384	10	0.52906	T	0.07	-10.0858	15.9493	0.79820	0.0:1.0:0.0:0.0	.	353	P18054	LOX12_HUMAN	K	353	ENSP00000251535:Q353K	ENSP00000251535:Q353K	Q	+	1	0	ALOX12	6845750	1.000000	0.71417	1.000000	0.80357	0.645000	0.38454	2.872000	0.48467	2.699000	0.92147	0.573000	0.79308	CAA		0.592	ALOX12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219922.2			A	6905026	C	A	6905026	3	1	583	1	0	0	0	0	1	0	0	0	536	595	21	4	1087	4	ALOX12	17	6905026	Missense_Mutation	SNP	C	TCGA-EV-5901-01A-11D-1589-08		6905026	74290184	44	34628										
LRRC37A3	374819	ucsc.edu	37	chr17	62855652	62855652	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	gtccgtatcccattctatctTggatgcctttacttcctgct	6	13	2	0			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr17:62855652T>C	ENST00000584306.1	-	11	5142	c.4612A>G	c.(4612-4614)Aag>Gag	p.K1538E	LRRC37A3_ENST00000319651.5_Missense_Mutation_p.K1538E|LRRC37A3_ENST00000339474.5_Missense_Mutation_p.K656E|LRRC37A3_ENST00000334962.5_Missense_Mutation_p.K515E|LRRC37A3_ENST00000400877.3_Missense_Mutation_p.K576E	NM_199340.2	NP_955372.2	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	1538						integral component of membrane (GO:0016021)				NS(1)|breast(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(6)|liver(1)|lung(10)|pancreas(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	40						CATTCTATCTTGGATGCCTTT	0.522																																																0													165	172	169					17																	62855652		2202	4294	6496	SO:0001583	missense	374819			AB011135	CCDS32708.1	17q24.1	2008-10-22			ENSG00000176809	ENSG00000176809			32427	protein-coding gene	gene with protein product							Standard	NM_199340		Approved	FLJ34306, KIAA0563	uc031rbi.1	O60309	OTTHUMG00000132307	ENST00000584306.1:c.4612A>G	17.37:g.62855652T>C	ENSP00000464535:p.Lys1538Glu	Somatic		WXS	Illumina HiSeq		Q49A01|Q49A80|Q8NB33	Missense_Mutation	SNP	ENST00000584306.1	37	CCDS32708.1	.	.	.	.	.	.	.	.	.	.	.	10.65	1.408868	0.25378	.	.	ENSG00000176809	ENST00000339474;ENST00000400877;ENST00000334962;ENST00000319651	T;T;T	0.51817	0.69;0.69;0.69	2.39	1.1	0.20463	.	.	.	.	.	T	0.56978	0.2022	M	0.65498	2.005	0.09310	N	1	P;D	0.53151	0.941;0.958	B;P	0.60682	0.323;0.878	T	0.42103	-0.9471	9	0.59425	D	0.04	.	4.8525	0.13543	0.0:0.0:0.3244:0.6756	.	656;1538	B4DG20;O60309	.;L37A3_HUMAN	E	619;576;515;1538	ENSP00000383674:K576E;ENSP00000335617:K515E;ENSP00000325713:K1538E	ENSP00000325713:K1538E	K	-	1	0	LRRC37A3	60286114	0.000000	0.05858	0.025000	0.17156	0.011000	0.07611	0.003000	0.13083	1.098000	0.41479	0.155000	0.16302	AAG		0.522	LRRC37A3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445377.1	NM_199340		C	62855652	T	C	62855652	3	2	583	1	0	0	0	0	1	0	0	0	9000	1821	63	3	308	3	LRRC37A3	17	62855652	Missense_Mutation	SNP	T	TCGA-EV-5901-01A-11D-1589-08	55950626	62855652	18339558	45	34629										
ABCA5	23461	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	67283846	67283846	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	aaagattccatacaatatgtCgagaacaggggtccattcca	8	9	0	2			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr17:67283846C>T	ENST00000392676.3	-	15	2013	c.1949G>A	c.(1948-1950)cGa>cAa	p.R650Q	ABCA5_ENST00000392677.2_Missense_Mutation_p.R650Q|ABCA5_ENST00000588877.1_Missense_Mutation_p.R650Q			Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 5	650	ABC transporter 1. {ECO:0000255|PROSITE- ProRule:PRU00434}.				cholesterol efflux (GO:0033344)|high-density lipoprotein particle remodeling (GO:0034375)|negative regulation of macrophage derived foam cell differentiation (GO:0010745)|reverse cholesterol transport (GO:0043691)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|late endosome (GO:0005770)|lysosome (GO:0005764)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(18)|lung(19)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	54	Breast(10;3.72e-11)				Tacrolimus(DB00864)	TACAATATGTCGAGAACAGGG	0.408																																																0													113	109	110					17																	67283846		2203	4300	6503	SO:0001583	missense	23461			U66672	CCDS11685.1	17q24.3	2012-03-14			ENSG00000154265	ENSG00000154265		"ATP binding cassette transporters / subfamily A"	35	protein-coding gene	gene with protein product		612503				8894702	Standard	NM_172232		Approved	EST90625	uc002jig.2	Q8WWZ7		ENST00000392676.3:c.1949G>A	17.37:g.67283846C>T	ENSP00000376443:p.Arg650Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVJ2|Q96LJ1|Q96MS4|Q96PZ9|Q9NY14	Missense_Mutation	SNP	ENST00000392676.3	37	CCDS11685.1	.	.	.	.	.	.	.	.	.	.	C	36	5.706333	0.96821	.	.	ENSG00000154265	ENST00000392677;ENST00000392676	T;T	0.39997	1.05;1.05	5.63	5.63	0.86233	ATPase, AAA+ type, core (1);ABC transporter-like (1);	0.186313	0.36815	N	0.002382	T	0.70150	0.3191	M	0.85630	2.765	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.997	T	0.72707	-0.4212	9	.	.	.	.	19.2741	0.94023	0.0:1.0:0.0:0.0	.	650;650	Q8WWZ7-2;Q8WWZ7	.;ABCA5_HUMAN	Q	650	ENSP00000376444:R650Q;ENSP00000376443:R650Q	.	R	-	2	0	ABCA5	64795441	1.000000	0.71417	0.982000	0.44146	0.925000	0.55904	7.391000	0.79828	2.641000	0.89580	0.585000	0.79938	CGA		0.408	ABCA5-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000450654.1	NM_018672		T	67283846	C	T	67283846	3	4	583	1	0	0	0	0	1	0	0	0	35	884	31	1	3079	1	ABCA5	17	67283846	Missense_Mutation	SNP	C	TCGA-EV-5901-01A-11D-1589-08	4428194	67283846	13911364	46	34630										
POLRMT	5442	broad.mit.edu	37	chr19	621842	621842	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	ccgggtgcggcttcaggatgCcgatctggggtgcgacaggc	18	11	2	0			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr19:621842C>T	ENST00000588649.2	-	10	1940	c.1856G>A	c.(1855-1857)gGc>gAc	p.G619D	LLNLR-299G3.1_ENST00000607288.1_RNA	NM_005035.3	NP_005026.3	O00411	RPOM_HUMAN	polymerase (RNA) mitochondrial (DNA directed)	619					gene expression (GO:0010467)|transcription from mitochondrial promoter (GO:0006390)|transcription initiation from mitochondrial promoter (GO:0006391)	mitochondrial matrix (GO:0005759)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)|poly(A) RNA binding (GO:0044822)			cervix(2)|endometrium(3)|large_intestine(1)|lung(9)|ovary(1)|pancreas(2)|prostate(1)|stomach(1)	20		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)		CTTCAGGATGCCGATCTGGGG	0.687																																																0													22	25	24					19																	621842		2199	4293	6492	SO:0001583	missense	5442				CCDS12036.1	19p13.3	2010-10-22			ENSG00000099821	ENSG00000099821	2.7.7.6		9200	protein-coding gene	gene with protein product		601778				9097968	Standard	NM_005035		Approved	h-mtRPOL, APOLMT, MTRNAP, MTRPOL	uc002lpf.1	O00411		ENST00000588649.2:c.1856G>A	19.37:g.621842C>T	ENSP00000465759:p.Gly619Asp	Somatic		WXS	Illumina HiSeq	Phase_I	O60370	Missense_Mutation	SNP	ENST00000588649.2	37	CCDS12036.1	.	.	.	.	.	.	.	.	.	.	.	19.54	3.847427	0.71603	.	.	ENSG00000099821	ENST00000215591	T	0.56444	0.46	4.62	4.62	0.57501	.	0.000000	0.85682	D	0.000000	T	0.72890	0.3517	M	0.79926	2.475	0.80722	D	1	D	0.69078	0.997	D	0.68765	0.96	T	0.76841	-0.2810	10	0.56958	D	0.05	-44.8841	16.5929	0.84772	0.0:1.0:0.0:0.0	.	619	O00411	RPOM_HUMAN	D	619	ENSP00000215591:G619D	ENSP00000215591:G619D	G	-	2	0	POLRMT	572842	1.000000	0.71417	1.000000	0.80357	0.473000	0.32948	7.412000	0.80091	2.398000	0.81561	0.455000	0.32223	GGC		0.687	POLRMT-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452172.3	NM_005035		T	621842	C	T	621842	3	4	583	1	0	0	0	0	1	0	0	0	12245	739	26	2	1884	2	POLRMT	19	621842	Missense_Mutation	SNP	C	TCGA-EV-5901-01A-11D-1589-08		621842	58507141	47	34631										
PDE4A	5141	hgsc.bcm.edu	37	chr19	10541704	10541704	+	Intron	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	cgtccccaactttccgcagaCgccttcggcttctccgcagc	8	19	1	1			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr19:10541704C>A	ENST00000352831.6	+	1	430				PDE4A_ENST00000380702.2_Intron|PDE4A_ENST00000293683.5_Missense_Mutation_p.R62S|PDE4A_ENST00000592685.1_Intron|PDE4A_ENST00000440014.2_5'Flank	NM_001111307.1	NP_001104777.1	P27815	PDE4A_HUMAN	phosphodiesterase 4A, cAMP-specific						cAMP catabolic process (GO:0006198)|cellular response to drug (GO:0035690)|regulation of cAMP-mediated signaling (GO:0043949)|regulation of protein kinase A signaling (GO:0010738)|sensory perception of smell (GO:0007608)|signal transduction (GO:0007165)	cell projection (GO:0042995)|cytosol (GO:0005829)|membrane (GO:0016020)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	3',5'-cyclic-AMP phosphodiesterase activity (GO:0004115)|cAMP binding (GO:0030552)|metal ion binding (GO:0046872)			NS(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(4)|large_intestine(3)|lung(4)|ovary(2)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	27			OV - Ovarian serous cystadenocarcinoma(20;5.8e-10)|Epithelial(33;7.58e-07)|all cancers(31;3.91e-06)		Caffeine(DB00201)|Dipyridamole(DB00975)|Drotaverine(DB06751)|Dyphylline(DB00651)|Enprofylline(DB00824)|Ibudilast(DB05266)|Iloprost(DB01088)|Ketotifen(DB00920)|Oxtriphylline(DB01303)|Pentoxifylline(DB00806)|Roflumilast(DB01656)|Theophylline(DB00277)|Tofisopam(DB08811)	TTTCCGCAGACGCCTTCGGCT	0.731																																																0													10	10	10					19																	10541704		1557	3562	5119	SO:0001627	intron_variant	5141				CCDS12238.1, CCDS45961.1, CCDS45962.1, CCDS45963.1, CCDS58649.1	19p13.2	2010-06-24	2010-06-24			ENSG00000065989	3.1.4.17	"Phosphodiesterases"	8780	protein-coding gene	gene with protein product	"phosphodiesterase E2 dunce homolog (Drosophila)"	600126	"phosphodiesterase 4A, cAMP-specific (dunce (Drosophila)-homolog phosphodiesterase E2)"	DPDE2		8009369	Standard	NM_006202		Approved		uc002moj.2	P27815		ENST00000352831.6:c.320+9944C>A	19.37:g.10541704C>A		Somatic		WXS	Illumina HiSeq	Phase_I	O75522|O76092|Q16255|Q16691|Q5DM53|Q6PMT2|Q8IVA7|Q8WUQ3|Q9H3H2	Missense_Mutation	SNP	ENST00000352831.6	37	CCDS45961.1	.	.	.	.	.	.	.	.	.	.	c	18.49	3.635976	0.67130	.	.	ENSG00000065989	ENST00000293683	T	0.68479	-0.33	3.48	3.48	0.39840	.	.	.	.	.	T	0.48840	0.1522	N	0.20986	0.625	0.80722	D	1	P	0.44478	0.836	B	0.40444	0.329	T	0.39231	-0.9624	9	0.19147	T	0.46	.	10.7182	0.46026	0.0:1.0:0.0:0.0	.	62	P27815-2	.	S	62	ENSP00000293683:R62S	ENSP00000293683:R62S	R	+	1	0	PDE4A	10402704	0.429000	0.25530	0.993000	0.49108	0.604000	0.37047	1.697000	0.37784	1.966000	0.57179	0.537000	0.68136	CGC		0.731	PDE4A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000451244.1			A	10541704	C	A	10541704	1	1	583	0	1	0	0	0	0	0	0	0	11646	536	19	4		4	PDE4A	19	10541704	Intron	SNP	C	TCGA-EV-5901-01A-11D-1589-08	9919862	10541704	48587279	48	34632										
RAB3A	5864	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	18313494	18313494	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	agaatcttgaacatgtagtcGaagttctgatccgaggactc	10	8	2	3			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr19:18313494G>C	ENST00000222256.4	-	2	235	c.57C>G	c.(55-57)ttC>ttG	p.F19L	AC068499.10_ENST00000596473.1_RNA|AC068499.10_ENST00000594805.3_RNA|AC068499.10_ENST00000599416.2_RNA|RAB3A_ENST00000464076.3_Intron	NM_002866.4	NP_002857.1	P20336	RAB3A_HUMAN	RAB3A, member RAS oncogene family	19					axonogenesis (GO:0007409)|constitutive secretory pathway (GO:0045054)|glutamate secretion (GO:0014047)|GTP catabolic process (GO:0006184)|lung development (GO:0030324)|maintenance of presynaptic active zone structure (GO:0048790)|mitochondrion organization (GO:0007005)|neuromuscular synaptic transmission (GO:0007274)|neurotransmitter secretion (GO:0007269)|positive regulation of exocytosis (GO:0045921)|post-embryonic development (GO:0009791)|protein transport (GO:0015031)|regulation of short-term neuronal synaptic plasticity (GO:0048172)|regulation of synaptic vesicle fusion to presynaptic membrane (GO:0031630)|respiratory system process (GO:0003016)|response to electrical stimulus (GO:0051602)|sensory perception of touch (GO:0050975)|small GTPase mediated signal transduction (GO:0007264)|synaptic transmission (GO:0007268)|synaptic vesicle exocytosis (GO:0016079)|synaptic vesicle maturation (GO:0016188)|synaptic vesicle recycling (GO:0036465)	acrosomal vesicle (GO:0001669)|axon (GO:0030424)|clathrin-sculpted acetylcholine transport vesicle membrane (GO:0060201)|clathrin-sculpted gamma-aminobutyric acid transport vesicle membrane (GO:0061202)|clathrin-sculpted glutamate transport vesicle membrane (GO:0060203)|clathrin-sculpted monoamine transport vesicle membrane (GO:0070083)|cytosol (GO:0005829)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|synaptic vesicle (GO:0008021)|terminal bouton (GO:0043195)|vesicle (GO:0031982)	ATPase activator activity (GO:0001671)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|myosin V binding (GO:0031489)			NS(1)|kidney(1)|large_intestine(2)|lung(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	8						ACATGTAGTCGAAGTTCTGAT	0.582											OREG0025360	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													257	217	230					19																	18313494		2203	4300	6503	SO:0001583	missense	5864				CCDS12372.1	19p13.2	2008-07-17			ENSG00000105649	ENSG00000105649		"RAB, member RAS oncogene"	9777	protein-coding gene	gene with protein product	"RAS-associated protein RAB3A"	179490				2687157, 7532276	Standard	NM_002866		Approved		uc002nie.2	P20336	OTTHUMG00000137378	ENST00000222256.4:c.57C>G	19.37:g.18313494G>C	ENSP00000222256:p.Phe19Leu	Somatic	724	WXS	Illumina HiSeq	Phase_I	A8K0J4|Q9NYE1	Missense_Mutation	SNP	ENST00000222256.4	37	CCDS12372.1	.	.	.	.	.	.	.	.	.	.	G	20.6	4.017822	0.75161	.	.	ENSG00000105649	ENST00000222256	T	0.79141	-1.24	4.4	0.678	0.17969	.	0.000000	0.85682	D	0.000000	T	0.72890	0.3517	N	0.25890	0.77	0.80722	D	1	D	0.65815	0.995	P	0.59889	0.865	T	0.70490	-0.4857	10	0.87932	D	0	-19.6435	5.4616	0.16619	0.5735:0.0:0.4265:0.0	.	19	P20336	RAB3A_HUMAN	L	19	ENSP00000222256:F19L	ENSP00000222256:F19L	F	-	3	2	RAB3A	18174494	0.677000	0.27577	1.000000	0.80357	0.984000	0.73092	-0.040000	0.12104	0.318000	0.23185	0.313000	0.20887	TTC		0.582	RAB3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268056.2	NM_002866		C	18313494	G	C	18313494	3	2	583	1	0	0	0	0	1	0	0	0	12944	1049	37	4	621	4	RAB3A	19	18313494	Missense_Mutation	SNP	G	TCGA-EV-5901-01A-11D-1589-08	7771790	18313494	40815489	49	34633										
ZNF155	7711	broad.mit.edu	37	chr19	44501505	44501505	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	gcttgtacacaggacataccGtaaagaccagccgagagact	10	11	0	2			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr19:44501505G>A	ENST00000270014.2	+	5	1624	c.1496G>A	c.(1495-1497)cGt>cAt	p.R499H	RP11-15A1.7_ENST00000586860.1_RNA|ZNF155_ENST00000590615.1_Missense_Mutation_p.R499H|RP11-15A1.7_ENST00000589021.1_RNA|ZNF155_ENST00000407951.2_Missense_Mutation_p.R510H	NM_001260487.1|NM_198089.2	NP_001247416|NP_932355	Q12901	ZN155_HUMAN	zinc finger protein 155	499					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.R499H(1)		endometrium(3)|kidney(2)|large_intestine(1)|lung(6)|ovary(1)|upper_aerodigestive_tract(2)	15		Prostate(69;0.0352)				AGGACATACCGTAAAGACCAG	0.453																																					NSCLC(61;554 1277 20909 42067 42312)											1	Substitution - Missense(1)	kidney(1)											89	91	91					19																	44501505		2203	4300	6503	SO:0001583	missense	7711			U09852	CCDS12634.1, CCDS58668.1	19q13.2-q13.32	2013-01-08	2006-08-22			ENSG00000204920		"Zinc fingers, C2H2-type", "-"	12940	protein-coding gene	gene with protein product		604086	"zinc finger protein 155 (pHZ-96)"			7557990	Standard	NM_001260486		Approved	pHZ-96	uc010xwt.2	Q12901		ENST00000270014.2:c.1496G>A	19.37:g.44501505G>A	ENSP00000270014:p.Arg499His	Somatic		WXS	Illumina HiSeq	Phase_I	A2BDE6|B2RB63|B4DM95|J3KQ08|Q6AZZ8|Q9UIE1|Q9UK14	Missense_Mutation	SNP	ENST00000270014.2	37	CCDS12634.1	.	.	.	.	.	.	.	.	.	.	G	14.21	2.468786	0.43839	.	.	ENSG00000204920	ENST00000407951;ENST00000270014	T;T	0.15256	2.44;2.44	2.36	1.31	0.21738	Zinc finger, C2H2 (1);	.	.	.	.	T	0.17365	0.0417	L	0.35542	1.07	0.09310	N	1	D;D	0.57899	0.981;0.981	P;P	0.49361	0.608;0.608	T	0.12656	-1.0539	9	0.72032	D	0.01	.	7.8091	0.29219	0.0:0.0:0.2272:0.7728	.	510;499	B4DM95;Q12901	.;ZN155_HUMAN	H	510;499	ENSP00000385163:R510H;ENSP00000270014:R499H	ENSP00000270014:R499H	R	+	2	0	ZNF155	49193345	0.000000	0.05858	0.004000	0.12327	0.003000	0.03518	0.433000	0.21477	0.338000	0.23692	-0.397000	0.06425	CGT		0.453	ZNF155-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000460074.1	NM_003445		A	44501505	G	A	44501505	3	1	583	1	0	0	0	0	1	0	0	0	17748	1145	40	1	1510	1	ZNF155	19	44501505	Missense_Mutation	SNP	G	TCGA-EV-5901-01A-11D-1589-08	26188011	44501505	14627478	50	34634										
CSNK2A1	1457	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr20	468205	468205	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	tgtggacaaagcgttcccatCgctttcgagagtgtctgcag	12	10	1	1			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr20:468205C>T	ENST00000217244.3	-	12	1214	c.839G>A	c.(838-840)cGa>cAa	p.R280Q	CSNK2A1_ENST00000400217.2_Missense_Mutation_p.R144Q|CSNK2A1_ENST00000400227.3_Missense_Mutation_p.R280Q|CSNK2A1_ENST00000349736.5_Missense_Mutation_p.R280Q	NM_177559.2	NP_808227.1	P68400	CSK21_HUMAN	casein kinase 2, alpha 1 polypeptide	280	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				axon guidance (GO:0007411)|chaperone-mediated protein folding (GO:0061077)|mitotic cell cycle (GO:0000278)|mitotic spindle checkpoint (GO:0071174)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|positive regulation of cell growth (GO:0030307)|positive regulation of cell proliferation (GO:0008284)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of Wnt signaling pathway (GO:0030177)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of transcription, DNA-templated (GO:0006355)|rhythmic process (GO:0048511)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)|Wnt signaling pathway (GO:0016055)	cytosol (GO:0005829)|nucleus (GO:0005634)|NuRD complex (GO:0016581)|plasma membrane (GO:0005886)|Sin3 complex (GO:0016580)	ATP binding (GO:0005524)|Hsp90 protein binding (GO:0051879)|protein N-terminus binding (GO:0047485)|protein phosphatase regulator activity (GO:0019888)|protein serine/threonine kinase activity (GO:0004674)			autonomic_ganglia(1)|central_nervous_system(2)|endometrium(1)|large_intestine(4)|lung(5)|ovary(1)|prostate(2)|urinary_tract(1)	17		Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.0969)			GCGTTCCCATCGCTTTCGAGA	0.502																																																0													85	76	80					20																	468205		2203	4300	6503	SO:0001583	missense	1457			M55265	CCDS13003.1, CCDS13004.1	20p13	2013-01-17			ENSG00000101266	ENSG00000101266			2457	protein-coding gene	gene with protein product		115440				2174700, 1766873	Standard	NM_177559		Approved		uc002wdx.1	P68400	OTTHUMG00000031636	ENST00000217244.3:c.839G>A	20.37:g.468205C>T	ENSP00000217244:p.Arg280Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYS6|D3DVV8|P19138|P20426|Q14013|Q5U065	Missense_Mutation	SNP	ENST00000217244.3	37	CCDS13003.1	.	.	.	.	.	.	.	.	.	.	C	33	5.233597	0.95207	.	.	ENSG00000101266	ENST00000400227;ENST00000349736;ENST00000217244;ENST00000381973;ENST00000400217	T;T;T;T	0.43294	3.29;3.29;3.29;0.95	5.24	5.24	0.73138	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.48352	0.1495	N	0.17594	0.5	0.80722	D	1	D	0.89917	1.0	D	0.65140	0.932	T	0.51426	-0.8707	10	0.52906	T	0.07	-6.9053	17.9724	0.89117	0.0:1.0:0.0:0.0	.	280	P68400	CSK21_HUMAN	Q	280;280;280;280;144	ENSP00000383086:R280Q;ENSP00000339247:R280Q;ENSP00000217244:R280Q;ENSP00000383076:R144Q	ENSP00000217244:R280Q	R	-	2	0	CSNK2A1	416205	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.601000	0.82783	2.713000	0.92767	0.585000	0.79938	CGA		0.502	CSNK2A1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077466.1	NM_001895		T	468205	C	T	468205	3	4	583	1	0	0	0	0	1	0	0	0	3959	884	31	1	348	1	CSNK2A1	20	468205	Missense_Mutation	SNP	C	TCGA-EV-5901-01A-11D-1589-08		468205	62557315	51	34635										
CRYZL1	9946	broad.mit.edu	37	chr21	34974552	34974552	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	ttacccacctatgggaggtcTgaatctttcaaggcactgct	9	11	3	1			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr21:34974552T>C	ENST00000381554.3	-	8	650	c.565A>G	c.(565-567)Aga>Gga	p.R189G	CRYZL1_ENST00000445393.1_Missense_Mutation_p.R151G|CRYZL1_ENST00000381540.3_Missense_Mutation_p.R189G|CRYZL1_ENST00000290244.5_Missense_Mutation_p.R174G|CRYZL1_ENST00000361534.2_Missense_Mutation_p.R213G|AP000304.12_ENST00000429238.1_Intron	NM_145858.2	NP_665857.2	O95825	QORL1_HUMAN	crystallin, zeta (quinone reductase)-like 1	189					quinone metabolic process (GO:1901661)	cytosol (GO:0005829)	NADP binding (GO:0050661)|NADPH:quinone reductase activity (GO:0003960)|zinc ion binding (GO:0008270)			lung(1)|prostate(1)|urinary_tract(1)	3						ATGGGAGGTCTGAATCTTTCA	0.373																																																0													142	132	135					21																	34974552		2203	4300	6503	SO:0001583	missense	9946			AF029689	CCDS13633.2	21q22.1	2008-07-31			ENSG00000205758	ENSG00000205758			2420	protein-coding gene	gene with protein product	"quinone reductase-like 1"	603920				10191096	Standard	NM_145858		Approved	QOH-1, 4P11	uc021wio.1	O95825	OTTHUMG00000065954	ENST00000381554.3:c.565A>G	21.37:g.34974552T>C	ENSP00000370966:p.Arg189Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDX1|B3KQ77|Q96DY0|Q9NVY7	Missense_Mutation	SNP	ENST00000381554.3	37	CCDS13633.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	20.2|20.2	3.942777|3.942777	0.73672|0.73672	.|.	.|.	ENSG00000205758|ENSG00000205758	ENST00000440526|ENST00000381554;ENST00000290244;ENST00000381540;ENST00000445393;ENST00000361534;ENST00000452332;ENST00000414079;ENST00000426935	.|T;T;T;T;T;T;T	.|0.29917	.|5.33;5.33;5.33;1.83;5.33;5.33;1.55	4.98|4.98	-2.68|-2.68	0.06041|0.06041	.|Alcohol dehydrogenase, C-terminal (1);NAD(P)-binding domain (1);	.|0.115715	.|0.64402	.|D	.|0.000007	T|T	0.13329|0.13329	0.0323|0.0323	N|N	0.00569|0.00569	-1.365|-1.365	0.30079|0.30079	N|N	0.809379|0.809379	.|B;P	.|0.45634	.|0.171;0.863	.|B;P	.|0.54856	.|0.174;0.762	T|T	0.39210|0.39210	-0.9625|-0.9625	5|10	.|0.39692	.|T	.|0.17	-6.7286|-6.7286	9.2606|9.2606	0.37610|0.37610	0.1262:0.0:0.5228:0.351|0.1262:0.0:0.5228:0.351	.|.	.|189;213	.|O95825;A6NHJ8	.|QORL1_HUMAN;.	R|G	132|189;174;189;151;213;189;49;137	.|ENSP00000370966:R189G;ENSP00000290244:R174G;ENSP00000370951:R189G;ENSP00000399730:R151G;ENSP00000355075:R213G;ENSP00000409387:R49G;ENSP00000387660:R137G	.|ENSP00000290244:R174G	Q|R	-|-	2|1	0|2	CRYZL1|CRYZL1	33896422|33896422	0.876000|0.876000	0.30132|0.30132	0.008000|0.008000	0.14137|0.14137	0.603000|0.603000	0.37013|0.37013	0.722000|0.722000	0.25925|0.25925	-0.656000|-0.656000	0.05380|0.05380	-0.313000|-0.313000	0.08912|0.08912	CAG|AGA		0.373	CRYZL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000141282.2	NM_145858		C	34974552	T	C	34974552	3	2	583	1	0	0	0	0	1	0	0	0	3925	1588	55	3	508	3	CRYZL1	21	34974552	Missense_Mutation	SNP	T	TCGA-EV-5901-01A-11D-1589-08		34974552	13155343	52	34636										
HMOX1	3162	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	35779129	35779129	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	gatttgtcagaggccctgaaGgaggccaccaaggaggtgca	15	9	1	2			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr22:35779129G>T	ENST00000216117.8	+	2	393	c.54G>T	c.(52-54)aaG>aaT	p.K18N		NM_002133.2	NP_002124.1	P09601	HMOX1_HUMAN	heme oxygenase (decycling) 1	18					angiogenesis (GO:0001525)|cell death (GO:0008219)|cellular iron ion homeostasis (GO:0006879)|cellular response to arsenic-containing substance (GO:0071243)|cellular response to cadmium ion (GO:0071276)|cellular response to hypoxia (GO:0071456)|cellular response to nutrient (GO:0031670)|endothelial cell proliferation (GO:0001935)|erythrocyte homeostasis (GO:0034101)|excretion (GO:0007588)|heme catabolic process (GO:0042167)|heme oxidation (GO:0006788)|intracellular signal transduction (GO:0035556)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|iron ion homeostasis (GO:0055072)|low-density lipoprotein particle clearance (GO:0034383)|negative regulation of DNA binding (GO:0043392)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|negative regulation of leukocyte migration (GO:0002686)|negative regulation of mast cell cytokine production (GO:0032764)|negative regulation of mast cell degranulation (GO:0043305)|negative regulation of muscle cell apoptotic process (GO:0010656)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of smooth muscle cell proliferation (GO:0048662)|porphyrin-containing compound metabolic process (GO:0006778)|positive regulation of angiogenesis (GO:0045766)|positive regulation of chemokine biosynthetic process (GO:0045080)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of smooth muscle cell proliferation (GO:0048661)|positive regulation of vasodilation (GO:0045909)|protein homooligomerization (GO:0051260)|regulation of angiogenesis (GO:0045765)|regulation of blood pressure (GO:0008217)|regulation of sequence-specific DNA binding transcription factor activity (GO:0051090)|regulation of transcription from RNA polymerase II promoter in response to iron (GO:0034395)|regulation of transcription from RNA polymerase II promoter in response to oxidative stress (GO:0043619)|response to estrogen (GO:0043627)|response to hydrogen peroxide (GO:0042542)|response to nicotine (GO:0035094)|response to oxidative stress (GO:0006979)|small GTPase mediated signal transduction (GO:0007264)|small molecule metabolic process (GO:0044281)|smooth muscle hyperplasia (GO:0014806)|transmembrane transport (GO:0055085)|wound healing involved in inflammatory response (GO:0002246)	caveola (GO:0005901)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|extracellular space (GO:0005615)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	enzyme binding (GO:0019899)|heme binding (GO:0020037)|heme oxygenase (decyclizing) activity (GO:0004392)|metal ion binding (GO:0046872)|phospholipase D activity (GO:0004630)|protein homodimerization activity (GO:0042803)|signal transducer activity (GO:0004871)			central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)	16					Vitamin E(DB00163)	AGGCCCTGAAGGAGGCCACCA	0.577																																																0													85	78	80					22																	35779129		2203	4300	6503	SO:0001583	missense	3162				CCDS13914.1	22q12	2003-10-13			ENSG00000100292	ENSG00000100292	1.14.99.3		5013	protein-coding gene	gene with protein product		141250				10591208	Standard	NM_002133		Approved	bK286B10, HO-1	uc003ant.2	P09601	OTTHUMG00000150960	ENST00000216117.8:c.54G>T	22.37:g.35779129G>T	ENSP00000216117:p.Lys18Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000216117.8	37	CCDS13914.1	.	.	.	.	.	.	.	.	.	.	G	20.4	3.982022	0.74474	.	.	ENSG00000100292	ENST00000412893;ENST00000216117	T;T	0.26957	1.7;1.7	6.06	2.67	0.31697	Haem oxygenase-like, multi-helical (2);	0.000000	0.85682	D	0.000000	T	0.54515	0.1863	M	0.91300	3.195	0.58432	D	0.999999	D	0.89917	1.0	D	0.85130	0.997	T	0.60367	-0.7277	10	0.87932	D	0	-50.6157	9.0075	0.36120	0.338:0.0:0.662:0.0	.	18	P09601	HMOX1_HUMAN	N	18	ENSP00000413316:K18N;ENSP00000216117:K18N	ENSP00000216117:K18N	K	+	3	2	HMOX1	34109129	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	1.625000	0.37029	0.909000	0.36697	0.655000	0.94253	AAG		0.577	HMOX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320657.1			T	35779129	G	T	35779129	3	4	583	1	0	0	0	0	1	0	0	0	7250	991	35	4	60	4	HMOX1	22	35779129	Missense_Mutation	SNP	G	TCGA-EV-5901-01A-11D-1589-08		35779129	15525437	53	34637										
SUN2	25777	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	39146253	39146253	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	gcgaagtggccaccatccagAgtaaggagcccgcccgtgag	14	13	0	2			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chr22:39146253A>G	ENST00000405510.1	-	6	855	c.497T>C	c.(496-498)cTc>cCc	p.L166P	SUN2_ENST00000411587.2_Missense_Mutation_p.L155P|RP3-508I15.14_ENST00000416406.1_RNA|SUN2_ENST00000405018.1_Missense_Mutation_p.L187P|SUN2_ENST00000406622.1_Missense_Mutation_p.L166P|SUN2_ENST00000216064.4_Missense_Mutation_p.L166P	NM_001199580.1	NP_001186509.1	Q9UH99	SUN2_HUMAN	Sad1 and UNC84 domain containing 2	166					centrosome localization (GO:0051642)|cytoskeletal anchoring at nuclear membrane (GO:0090286)|mitotic spindle organization (GO:0007052)|nuclear envelope organization (GO:0006998)|nuclear matrix anchoring at nuclear membrane (GO:0090292)|nuclear migration (GO:0007097)|nuclear migration along microfilament (GO:0031022)|positive regulation of cell migration (GO:0030335)	condensed nuclear chromosome (GO:0000794)|endosome (GO:0005768)|integral component of membrane (GO:0016021)|nuclear chromosome, telomeric region (GO:0000784)|nuclear envelope (GO:0005635)|nuclear inner membrane (GO:0005637)|nuclear membrane (GO:0031965)|SUN-KASH complex (GO:0034993)	identical protein binding (GO:0042802)|lamin binding (GO:0005521)|microtubule binding (GO:0008017)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(3)|ovary(1)|skin(2)|stomach(1)	15						CACCATCCAGAGTAAGGAGCC	0.602																																																0													47	52	50					22																	39146253		2203	4300	6503	SO:0001583	missense	25777			AF202723	CCDS13978.1, CCDS56231.1	22q12-q13	2010-05-18	2010-05-18	2010-01-27	ENSG00000100242	ENSG00000100242			14210	protein-coding gene	gene with protein product		613569	"unc-84 homolog B (C. elegans)"	UNC84B		10508607, 10375507	Standard	NM_015374		Approved		uc010gxq.2	Q9UH99	OTTHUMG00000151031	ENST00000405510.1:c.497T>C	22.37:g.39146253A>G	ENSP00000385740:p.Leu166Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B0QY62|O75156|Q2NKN8|Q2T9F7|Q504T5|Q6B4H1|Q7Z3E3	Missense_Mutation	SNP	ENST00000405510.1	37	CCDS13978.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	14.41|14.41	2.527820|2.527820	0.44969|0.44969	.|.	.|.	ENSG00000100242|ENSG00000100242	ENST00000405510;ENST00000216064;ENST00000405018;ENST00000406622;ENST00000411587;ENST00000438058;ENST00000456894;ENST00000420859|ENST00000430185	T;T;T;T;T;T;T;T|.	0.40756|.	2.3;2.3;2.31;2.3;2.16;1.03;1.23;1.02|.	5.09|5.09	5.09|5.09	0.68999|0.68999	.|.	0.691574|.	0.13508|.	N|.	0.382686|.	T|T	0.49029|0.49029	0.1533|0.1533	N|N	0.19112|0.19112	0.55|0.55	0.41384|0.41384	D|D	0.987572|0.987572	P;D;D;D;D|.	0.57257|.	0.826;0.979;0.963;0.971;0.963|.	B;P;P;P;P|.	0.50617|.	0.347;0.642;0.642;0.646;0.521|.	T|T	0.46762|0.46762	-0.9168|-0.9168	10|5	0.87932|.	D|.	0|.	-3.5021|-3.5021	13.3916|13.3916	0.60827|0.60827	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	155;201;166;187;166|.	B4DIU6;B4E2A6;Q2T9F7;B0QY62;Q9UH99|.	.;.;.;.;SUN2_HUMAN|.	P|P	166;166;187;166;155;120;166;120|23	ENSP00000385740:L166P;ENSP00000216064:L166P;ENSP00000385616:L187P;ENSP00000383992:L166P;ENSP00000395601:L155P;ENSP00000406941:L120P;ENSP00000415588:L166P;ENSP00000408834:L120P|.	ENSP00000216064:L166P|.	L|S	-|-	2|1	0|0	SUN2|SUN2	37476199|37476199	0.307000|0.307000	0.24500|0.24500	0.729000|0.729000	0.30791|0.30791	0.137000|0.137000	0.21094|0.21094	1.454000|1.454000	0.35178|0.35178	2.032000|2.032000	0.59987|0.59987	0.528000|0.528000	0.53228|0.53228	CTC|TCT		0.602	SUN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321057.1	XM_039332		G	39146253	A	G	39146253	3	3	583	1	0	0	0	0	1	0	0	0	15404	304	11	3	1712	3	SUN2	22	39146253	Missense_Mutation	SNP	A	TCGA-EV-5901-01A-11D-1589-08	3367124	39146253	12158313	54	34638										
DDX3X	1654	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	41202004	41202004	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0727272727272727	4	1	1.48821548821549	4.91111111111111	0.481481481481481	0.485714285714286	1	0	tttgagggaactcttttctgGaggcaacactgggattaatt	11	6	2	1			TCGA-EV-5901-01A-11D-1589-08	TCGA-EV-5901-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	846543e9-145b-4332-9043-5817b55e2208	8623db0f-675b-4d34-ba2b-5c12aa3e9b7b	g.chrX:41202004G>A	ENST00000399959.2	+	6	1313	c.458G>A	c.(457-459)gGa>gAa	p.G153E	RN7SL15P_ENST00000582825.1_RNA|DDX3X_ENST00000542215.1_Missense_Mutation_p.G197E|DDX3X_ENST00000478993.1_3'UTR|DDX3X_ENST00000457138.2_Missense_Mutation_p.G137E|DDX3X_ENST00000441189.2_Intron	NM_001193416.1|NM_001193417.1|NM_001356.3	NP_001180345.1|NP_001180346.1|NP_001347.3	O00571	DDX3X_HUMAN	DEAD (Asp-Glu-Ala-Asp) box helicase 3, X-linked	153	Interaction with GSK3B.				ATP catabolic process (GO:0006200)|cellular response to arsenic-containing substance (GO:0071243)|cellular response to osmotic stress (GO:0071470)|chromosome segregation (GO:0007059)|DNA duplex unwinding (GO:0032508)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|intrinsic apoptotic signaling pathway (GO:0097193)|mature ribosome assembly (GO:0042256)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of intrinsic apoptotic signaling pathway (GO:2001243)|negative regulation of protein complex assembly (GO:0031333)|negative regulation of translation (GO:0017148)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cell growth (GO:0030307)|positive regulation of chemokine (C-C motif) ligand 5 production (GO:0071651)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of G1/S transition of mitotic cell cycle (GO:1900087)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of translation (GO:0045727)|positive regulation of translational initiation (GO:0045948)|response to virus (GO:0009615)|RNA secondary structure unwinding (GO:0010501)|stress granule assembly (GO:0034063)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytoplasmic stress granule (GO:0010494)|extracellular vesicular exosome (GO:0070062)|mitochondrial outer membrane (GO:0005741)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|ATP-dependent RNA helicase activity (GO:0004004)|ATPase activity (GO:0016887)|DNA binding (GO:0003677)|eukaryotic initiation factor 4E binding (GO:0008190)|mRNA 5'-UTR binding (GO:0048027)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)|ribosomal small subunit binding (GO:0043024)|RNA binding (GO:0003723)|RNA stem-loop binding (GO:0035613)|transcription factor binding (GO:0008134)|translation initiation factor binding (GO:0031369)			NS(3)|breast(8)|central_nervous_system(36)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(3)|lung(7)|ovary(2)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(4)|urinary_tract(1)	84						CTCTTTTCTGGAGGCAACACT	0.363										HNSCC(61;0.18)																																						0													102	93	96					X																	41202004		2049	4205	6254	SO:0001583	missense	1654			U50553	CCDS43931.1, CCDS55404.1	Xp11.3-p11.23	2013-07-16	2013-07-16	2003-06-20	ENSG00000215301	ENSG00000215301		"DEAD-boxes"	2745	protein-coding gene	gene with protein product		300160	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3", "DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, X-linked"	DDX3		9381176, 9730595	Standard	NM_001193416		Approved	DBX, HLP2, DDX14	uc004dfe.3	O00571	OTTHUMG00000021369	ENST00000399959.2:c.458G>A	X.37:g.41202004G>A	ENSP00000382840:p.Gly153Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K538|B4E3E8|O15536	Missense_Mutation	SNP	ENST00000399959.2	37	CCDS43931.1	.	.	.	.	.	.	.	.	.	.	G	13.34	2.209130	0.39003	.	.	ENSG00000215301	ENST00000399959;ENST00000457138;ENST00000542215	T;T;T	0.42513	2.21;2.18;0.97	5.75	5.75	0.90469	.	0.050157	0.85682	D	0.000000	T	0.38799	0.1054	L	0.45228	1.405	0.80722	D	1	B;B;B;B;B	0.11235	0.004;0.002;0.001;0.004;0.004	B;B;B;B;B	0.10450	0.005;0.005;0.003;0.005;0.005	T	0.15407	-1.0438	10	0.20046	T	0.44	-0.7141	18.9517	0.92643	0.0:0.0:1.0:0.0	.	153;137;153;165;153	B4DLU5;B4E3E8;B5BTY4;Q59GX6;O00571	.;.;.;.;DDX3X_HUMAN	E	153;137;197	ENSP00000382840:G153E;ENSP00000392494:G137E;ENSP00000439799:G197E	ENSP00000382840:G153E	G	+	2	0	DDX3X	41086948	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	4.723000	0.61965	2.424000	0.82194	0.600000	0.82982	GGA		0.363	DDX3X-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056253.1	NM_024005		A	41202004	G	A	41202004	3	1	583	1	0	0	0	0	1	0	0	0	4360	1174	41	2	480	2	DDX3X	23	41202004	Missense_Mutation	SNP	G	TCGA-EV-5901-01A-11D-1589-08		41202004	114068556	55	34639										
AHDC1	27245	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	27875947	27875947	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	cactgccactgggctggcctTggctccccggctagggaagg	15	14	0	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr1:27875947T>G	ENST00000247087.5	-	5	3276	c.2680A>C	c.(2680-2682)Aag>Cag	p.K894Q	AHDC1_ENST00000374011.2_Missense_Mutation_p.K894Q			Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	894							DNA binding (GO:0003677)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(3)|large_intestine(8)|lung(20)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	42		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;8.48e-25)|Colorectal(126;9.17e-09)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00192)|BRCA - Breast invasive adenocarcinoma(304;0.00259)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0291)		GGGCTGGCCTTGGCTCCCCGG	0.716																																																0													19	23	22					1																	27875947		2196	4287	6483	SO:0001583	missense	27245			AK125431	CCDS30652.1	1p36.13	2008-02-05			ENSG00000126705	ENSG00000126705			25230	protein-coding gene	gene with protein product		615790				8619474, 9110174	Standard	XM_005245848		Approved	DJ159A19.3, RP1-159A19.1	uc009vsy.3	Q5TGY3	OTTHUMG00000003398	ENST00000247087.5:c.2680A>C	1.37:g.27875947T>G	ENSP00000247087:p.Lys894Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TGY4|Q6PJK1|Q6ZUQ6|Q99769|Q9NUF5	Missense_Mutation	SNP	ENST00000247087.5	37	CCDS30652.1	.	.	.	.	.	.	.	.	.	.	T	20.2	3.943941	0.73672	.	.	ENSG00000126705	ENST00000247087;ENST00000374011	T;T	0.55052	0.54;0.54	5.77	5.77	0.91146	.	0.088674	0.42548	D	0.000697	T	0.57504	0.2058	N	0.14661	0.345	0.46774	D	0.999191	D	0.76494	0.999	D	0.83275	0.996	T	0.64740	-0.6336	10	0.72032	D	0.01	-11.4835	15.0705	0.72034	0.0:0.0:0.0:1.0	.	894	Q5TGY3	AHDC1_HUMAN	Q	894	ENSP00000247087:K894Q;ENSP00000363123:K894Q	ENSP00000247087:K894Q	K	-	1	0	AHDC1	27748534	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	7.070000	0.76763	2.199000	0.70637	0.533000	0.62120	AAG		0.716	AHDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000009523.3			G	27875947	T	G	27875947	3	3	584	1	0	0	0	0	1	0	0	0	412	1821	63	5	2135	5	AHDC1	1	27875947	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08		27875947	221374674	1	34640										
RLF	6018	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	40705390	40705391	+	Frame_Shift_Ins	INS	-	-	T													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tgctctacaggggaactttgINSaaatgtaatcatagttccaa							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr1:40705390_40705391insT	ENST00000372771.4	+	8	5043_5044	c.5016_5017insT	c.(5017-5019)aaafs	p.K1673fs		NM_012421.3	NP_036553.2	Q13129	RLF_HUMAN	rearranged L-myc fusion	1673					chromosome organization (GO:0051276)|DNA integration (GO:0015074)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(11)|kidney(4)|large_intestine(18)|lung(18)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|stomach(4)|urinary_tract(2)	68	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			GGGGAACTTTGAAATGTAATCA	0.411																																																0																																										SO:0001589	frameshift_variant	6018				CCDS448.1	1p32	2010-05-07	2005-08-16		ENSG00000117000	ENSG00000117000		"Zinc fingers, C2H2-type"	10025	protein-coding gene	gene with protein product		180610	"rearranged L-myc fusion sequence"			1649386	Standard	NM_012421		Approved	ZNF292L, Zn-15L	uc001cfc.4	Q13129	OTTHUMG00000005763	Exception_encountered	1.37:g.40705390_40705391insT	ENSP00000361857:p.Lys1673fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q14CQ1|Q9NU60	Frame_Shift_Ins	INS	ENST00000372771.4	37	CCDS448.1																																																																																				0.411	RLF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000015767.1	NM_012421		T	40705391	-	T	40705390	7	5	584	1	0	1	1	0	0	0	0	0	13402	1281	45	0	5046	0	RLF	1	40705390	Frame_Shift_Ins	INS	-	TCGA-EV-5902-01A-11D-1589-08	12829443	40705390	208545231	2	34641										
USP24	23358	hgsc.bcm.edu;broad.mit.edu	37	chr1	55569689	55569689	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	caatcggctattcgctgtacTacacctagaaacaaaagaca	6	11	0	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr1:55569689T>C	ENST00000294383.6	-	42	4884	c.4885A>G	c.(4885-4887)Agt>Ggt	p.S1629G	USP24_ENST00000407756.1_Missense_Mutation_p.S1469G	NM_015306.2	NP_056121.2	Q9UPU5	UBP24_HUMAN	ubiquitin specific peptidase 24	1629					ubiquitin-dependent protein catabolic process (GO:0006511)		cysteine-type peptidase activity (GO:0008234)|ubiquitinyl hydrolase activity (GO:0036459)			breast(4)|cervix(1)|endometrium(8)|kidney(13)|large_intestine(7)|lung(16)|ovary(6)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	60						TTCGCTGTACTACACCTAGAA	0.328																																																0													43	40	41					1																	55569689		1867	4093	5960	SO:0001583	missense	23358			AB028980	CCDS44154.1, CCDS44154.2	1p32.3	2008-04-11	2005-08-08		ENSG00000162402	ENSG00000162402		"Ubiquitin-specific peptidases"	12623	protein-coding gene	gene with protein product		610569	"ubiquitin specific protease 24"			12838346	Standard	NM_015306		Approved	KIAA1057	uc021onw.1	Q9UPU5	OTTHUMG00000008135	ENST00000294383.6:c.4885A>G	1.37:g.55569689T>C	ENSP00000294383:p.Ser1629Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZSY2|Q8N2Y4|Q9NXD1	Missense_Mutation	SNP	ENST00000294383.6	37	CCDS44154.2	.	.	.	.	.	.	.	.	.	.	T	15.27	2.782405	0.49891	.	.	ENSG00000162402	ENST00000294383;ENST00000407756	T;T	0.02323	4.34;4.34	6.05	6.05	0.98169	.	0.084787	0.85682	D	0.000000	T	0.03178	0.0093	N	0.25890	0.77	0.43152	D	0.994923	B	0.22003	0.063	B	0.22386	0.039	T	0.56944	-0.7895	10	0.23302	T	0.38	.	15.1642	0.72807	0.0:0.0:0.0:1.0	.	1469	B7WPF4	.	G	1629;1469	ENSP00000294383:S1629G;ENSP00000385700:S1469G	ENSP00000294383:S1629G	S	-	1	0	USP24	55342277	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	7.616000	0.83018	2.320000	0.78422	0.528000	0.53228	AGT		0.328	USP24-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000022275.2			C	55569689	T	C	55569689	3	2	584	1	0	0	0	0	1	0	0	0	17067	1522	53	3	3085	3	USP24	1	55569689	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08	14864299	55569689	193680932	3	34642										
C1orf54	79630	broad.mit.edu	37	chr1	150246559	150246559	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ggtggtctattattatacagTcacccccagttatggtgagt	10	8	2	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr1:150246559T>C	ENST00000369102.1	+	4	886	c.116T>C	c.(115-117)gTc>gCc	p.V39A	C1orf54_ENST00000369099.3_Missense_Mutation_p.V39A|C1orf54_ENST00000369098.3_Missense_Mutation_p.V39A			Q8WWF1	CA054_HUMAN	chromosome 1 open reading frame 54	39						extracellular region (GO:0005576)				breast(1)|endometrium(1)|large_intestine(2)|lung(2)|urinary_tract(1)	7	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			TATTATACAGTCACCCCCAGT	0.438																																																0													138	142	141					1																	150246559		2203	4300	6503	SO:0001583	missense	79630			BC017761	CCDS948.1, CCDS72905.1	1q21.2	2012-06-25			ENSG00000118292	ENSG00000118292			26258	protein-coding gene	gene with protein product						12477932	Standard	NM_024579		Approved	FLJ23221	uc001eud.3	Q8WWF1	OTTHUMG00000012546	ENST00000369102.1:c.116T>C	1.37:g.150246559T>C	ENSP00000358098:p.Val39Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H5P3	Missense_Mutation	SNP	ENST00000369102.1	37	CCDS948.1	.	.	.	.	.	.	.	.	.	.	T	21.2	4.115321	0.77323	.	.	ENSG00000118292	ENST00000369102;ENST00000369099;ENST00000369098	.	.	.	4.9	4.9	0.64082	.	0.484707	0.17387	N	0.176072	T	0.37156	0.0993	L	0.54323	1.7	0.32047	N	0.597459	P;P	0.49961	0.93;0.93	P;P	0.47915	0.561;0.561	T	0.42783	-0.9431	9	0.72032	D	0.01	-7.2786	11.0953	0.48141	0.0:0.0:0.0:1.0	.	39;39	Q5TB16;Q8WWF1	.;CA054_HUMAN	A	39	.	ENSP00000358094:V39A	V	+	2	0	C1orf54	148513183	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	3.432000	0.52824	2.184000	0.69523	0.533000	0.62120	GTC		0.438	C1orf54-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000035055.1	NM_024579		C	150246559	T	C	150246559	3	2	584	1	0	0	0	0	1	0	0	0	2048	1667	58	3	122	3	C1orf54	1	150246559	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08	94676870	150246559	99004062	4	34643										
FLG	2312	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	152279672	152279672	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gtcctggctaaaactggatcCccagttcctgcttgtcctgg	10	13	0	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr1:152279672C>A	ENST00000368799.1	-	3	7725	c.7690G>T	c.(7690-7692)Gga>Tga	p.G2564*	FLG-AS1_ENST00000420707.1_RNA|FLG-AS1_ENST00000593011.1_RNA	NM_002016.1	NP_002007.1	P20930	FILA_HUMAN	filaggrin	2564	Ser-rich.				establishment of skin barrier (GO:0061436)|keratinocyte differentiation (GO:0030216)|multicellular organismal development (GO:0007275)	cytoplasmic membrane-bounded vesicle (GO:0016023)|intermediate filament (GO:0005882)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|structural molecule activity (GO:0005198)			autonomic_ganglia(1)|breast(13)|central_nervous_system(5)|cervix(2)|endometrium(38)|haematopoietic_and_lymphoid_tissue(1)|kidney(16)|large_intestine(57)|lung(211)|ovary(13)|pancreas(1)|prostate(15)|skin(24)|stomach(5)|upper_aerodigestive_tract(10)|urinary_tract(12)	424	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AAACTGGATCCCCAGTTCCTG	0.582									Ichthyosis																																							0													187	200	196					1																	152279672		2201	4300	6501	SO:0001587	stop_gained	2312	Familial Cancer Database	X-linked Ichthyosis, Steroid Sulfatase Deficiency, Ichthyosis Vulgaris	XM_048104	CCDS30860.1	1q21.3	2013-01-10			ENSG00000143631	ENSG00000143631		"EF-hand domain containing"	3748	protein-coding gene	gene with protein product		135940				2740331, 2248957, 16444271	Standard	NM_002016		Approved		uc001ezu.1	P20930	OTTHUMG00000012202	ENST00000368799.1:c.7690G>T	1.37:g.152279672C>A	ENSP00000357789:p.Gly2564*	Somatic		WXS	Illumina HiSeq	Phase_I	Q01720|Q5T583|Q9UC71	Nonsense_Mutation	SNP	ENST00000368799.1	37	CCDS30860.1	.	.	.	.	.	.	.	.	.	.	C	46	12.137190	0.99639	.	.	ENSG00000143631	ENST00000368799	.	.	.	3.61	-1.65	0.08291	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.22706	T	0.39	.	7.5003	0.27513	0.0:0.4216:0.4707:0.1077	.	.	.	.	X	2564	.	ENSP00000357789:G2564X	G	-	1	0	FLG	150546296	0.001000	0.12720	0.000000	0.03702	0.004000	0.04260	0.888000	0.28268	-0.164000	0.10927	0.306000	0.20318	GGA		0.582	FLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033742.1	NM_002016		A	152279672	C	A	152279672	4	1	584	1	0	0	0	0	0	1	0	0	5929	632	22	4	4499	4	FLG	1	152279672	Nonsense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	2033113	152279672	96970949	5	34644										
MYOC	4653	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	171605341	171605341	+	Silent	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tttgtctcccaggtttgttcGagttccagattctctgggtt	10	9	2	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr1:171605341G>C	ENST00000037502.6	-	3	1310	c.1239C>G	c.(1237-1239)ctC>ctG	p.L413L		NM_000261.1	NP_000252.1	Q99972	MYOC_HUMAN	myocilin, trabecular meshwork inducible glucocorticoid response	413	Olfactomedin-like. {ECO:0000255|PROSITE- ProRule:PRU00446}.				bone development (GO:0060348)|clustering of voltage-gated sodium channels (GO:0045162)|ERBB2-ERBB3 signaling pathway (GO:0038133)|myelination in peripheral nervous system (GO:0022011)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of Rho protein signal transduction (GO:0035024)|negative regulation of stress fiber assembly (GO:0051497)|neuron projection development (GO:0031175)|non-canonical Wnt signaling pathway via JNK cascade (GO:0038031)|osteoblast differentiation (GO:0001649)|positive regulation of cell migration (GO:0030335)|positive regulation of focal adhesion assembly (GO:0051894)|positive regulation of mitochondrial depolarization (GO:0051901)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of stress fiber assembly (GO:0051496)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|regulation of MAPK cascade (GO:0043408)|skeletal muscle hypertrophy (GO:0014734)	cilium (GO:0005929)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|extracellular matrix (GO:0031012)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|mitochondrial inner membrane (GO:0005743)|mitochondrial intermembrane space (GO:0005758)|mitochondrial outer membrane (GO:0005741)|node of Ranvier (GO:0033268)|proteinaceous extracellular matrix (GO:0005578)	fibronectin binding (GO:0001968)|frizzled binding (GO:0005109)|myosin light chain binding (GO:0032027)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(4)|lung(12)|ovary(2)|prostate(1)|urinary_tract(2)	28	all_cancers(6;5.47e-10)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					AGGTTTGTTCGAGTTCCAGAT	0.522																																																0													210	193	199					1																	171605341		2203	4300	6503	SO:0001819	synonymous_variant	4653			BC029261	CCDS1297.1	1q23-q24	2008-02-05			ENSG00000034971	ENSG00000034971			7610	protein-coding gene	gene with protein product		601652		GLC1A		9169133, 9005853	Standard	NM_000261		Approved	TIGR, JOAG1	uc001ghu.3	Q99972	OTTHUMG00000034789	ENST00000037502.6:c.1239C>G	1.37:g.171605341G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RD84|O00620|Q7Z6Q9	Silent	SNP	ENST00000037502.6	37	CCDS1297.1																																																																																				0.522	MYOC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084178.2	NM_000261		C	171605341	G	C	171605341	2	2	584	1	0	0	0	0	0	0	0	1	10093	1045	37	4		4	MYOC	1	171605341	Silent	SNP	G	TCGA-EV-5902-01A-11D-1589-08	19325669	171605341	77645280	6	34645										
OBSCN	84033	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	228473855	228473855	+	Silent	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tcggccaccttccgttgccgGatctccccggccaactacga	9	18	1	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr1:228473855G>C	ENST00000422127.1	+	34	9125	c.9081G>C	c.(9079-9081)cgG>cgC	p.R3027R	OBSCN_ENST00000366709.4_Silent_p.R146R|OBSCN_ENST00000284548.11_Silent_p.R3027R|OBSCN_ENST00000366707.4_Silent_p.R146R|OBSCN_ENST00000570156.2_Silent_p.R3456R|OBSCN_ENST00000359599.6_Silent_p.R1874R	NM_001098623.2	NP_001092093.2	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF	3027	Ig-like 30.				apoptotic signaling pathway (GO:0097190)|multicellular organismal development (GO:0007275)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|protein localization to M-band (GO:0036309)|regulation of small GTPase mediated signal transduction (GO:0051056)|sarcomere organization (GO:0045214)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|M band (GO:0031430)|myofibril (GO:0030016)|Z disc (GO:0030018)	ankyrin binding (GO:0030506)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			NS(2)|breast(7)|central_nervous_system(5)|cervix(2)|endometrium(30)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(37)|lung(89)|ovary(8)|pancreas(3)|prostate(13)|skin(6)|stomach(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	223		Prostate(94;0.0405)				TCCGTTGCCGGATCTCCCCGG	0.627																																																0													33	43	40					1																	228473855		2117	4218	6335	SO:0001819	synonymous_variant	84033			AJ002535	CCDS1570.2, CCDS58065.1, CCDS59204.1	1q42	2014-09-17			ENSG00000154358	ENSG00000154358		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	15719	protein-coding gene	gene with protein product		608616				11448995, 11814696	Standard	NM_001098623		Approved	KIAA1556, UNC89, KIAA1639, ARHGEF30	uc001hsq.2	Q5VST9	OTTHUMG00000039772	ENST00000422127.1:c.9081G>C	1.37:g.228473855G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q2A664|Q5T7G8|Q5T7G9|Q5VSU2|Q86YC7|Q8NHN0|Q8NHN1|Q8NHN2|Q8NHN3|Q8NHN4|Q8NHN5|Q8NHN6|Q8NHN7|Q8NHN8|Q8NHN9|Q96AA2|Q9HCD3|Q9HCL6	Silent	SNP	ENST00000422127.1	37	CCDS58065.1																																																																																				0.627	OBSCN-204	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_052843		C	228473855	G	C	228473855	2	2	584	1	0	0	0	0	0	0	0	1	10819	1161	41	4		4	OBSCN	1	228473855	Silent	SNP	G	TCGA-EV-5902-01A-11D-1589-08	56868514	228473855	20776766	7	34646										
BIRC6	57448	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	32667276	32667276	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ctgttggttagctggagttcAttcaaatggacccggaaggt	13	7	2	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr2:32667276A>C	ENST00000421745.2	+	18	4222	c.4088A>C	c.(4087-4089)cAt>cCt	p.H1363P		NM_016252.3	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat containing 6	1363					apoptotic process (GO:0006915)|labyrinthine layer development (GO:0060711)|mitotic nuclear division (GO:0007067)|negative regulation of apoptotic process (GO:0043066)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|positive regulation of cell proliferation (GO:0008284)|protein phosphorylation (GO:0006468)|protein ubiquitination (GO:0016567)|regulation of cell proliferation (GO:0042127)|regulation of cytokinesis (GO:0032465)|spongiotrophoblast layer development (GO:0060712)	endosome (GO:0005768)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)|midbody (GO:0030496)|spindle pole (GO:0000922)|trans-Golgi network (GO:0005802)	acid-amino acid ligase activity (GO:0016881)|cysteine-type endopeptidase inhibitor activity (GO:0004869)|ubiquitin-protein transferase activity (GO:0004842)			NS(4)|breast(8)|central_nervous_system(3)|endometrium(21)|haematopoietic_and_lymphoid_tissue(1)|kidney(15)|large_intestine(31)|lung(65)|ovary(7)|pancreas(1)|prostate(5)|skin(5)|stomach(1)|urinary_tract(5)	172	Acute lymphoblastic leukemia(172;0.155)					GCTGGAGTTCATTCAAATGGA	0.383																																					Pancreas(94;175 1509 16028 18060 45422)											0													62	61	61					2																	32667276		2203	4300	6503	SO:0001583	missense	57448			AF265555	CCDS33175.2	2p22.3	2011-01-25	2011-01-25		ENSG00000115760	ENSG00000115760		"Baculoviral IAP repeat containing", "Ubiquitin-conjugating enzymes E2"	13516	protein-coding gene	gene with protein product	"apollon"	605638	"baculoviral IAP repeat-containing 6"			10544019	Standard	NM_016252		Approved	BRUCE	uc010ezu.3	Q9NR09	OTTHUMG00000150528	ENST00000421745.2:c.4088A>C	2.37:g.32667276A>C	ENSP00000393596:p.His1363Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q9ULD1	Missense_Mutation	SNP	ENST00000421745.2	37	CCDS33175.2	.	.	.	.	.	.	.	.	.	.	A	14.04	2.417748	0.42918	.	.	ENSG00000115760	ENST00000421745	T	0.74209	-0.82	5.4	5.4	0.78164	.	0.220885	0.39083	N	0.001466	T	0.66317	0.2777	L	0.29908	0.895	0.40728	D	0.982722	B	0.22604	0.072	B	0.25291	0.059	T	0.65697	-0.6105	10	0.59425	D	0.04	.	15.4322	0.75108	1.0:0.0:0.0:0.0	.	1363	Q9NR09	BIRC6_HUMAN	P	1363	ENSP00000393596:H1363P	ENSP00000393596:H1363P	H	+	2	0	BIRC6	32520780	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	4.513000	0.60476	2.039000	0.60335	0.519000	0.50382	CAT		0.383	BIRC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318769.3	NM_016252		C	32667276	A	C	32667276	3	2	584	1	0	0	0	0	1	0	0	0	1438	217	8	5	4158	5	BIRC6	2	32667276	Missense_Mutation	SNP	A	TCGA-EV-5902-01A-11D-1589-08		32667276	210532097	8	34647										
HNRPLL	92906	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	38791355	38791355	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	atgatgtagaaaagcaaagcTtcaatgtatagggattggaa	11	3	1	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr2:38791355T>A	ENST00000449105.3	-	13	1937	c.1598A>T	c.(1597-1599)aAg>aTg	p.K533M	HNRNPLL_ENST00000409328.1_Missense_Mutation_p.K499M|HNRNPLL_ENST00000409636.1_Missense_Mutation_p.K528M|HNRNPLL_ENST00000378915.3_Missense_Mutation_p.K499M|HNRNPLL_ENST00000608859.1_Missense_Mutation_p.K533M			Q8WVV9	HNRLL_HUMAN	heterogeneous nuclear ribonucleoprotein L-like	533					mRNA processing (GO:0006397)|positive regulation of RNA splicing (GO:0033120)	membrane (GO:0016020)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)										AAAGCAAAGCTTCAATGTATA	0.289																																																0													86	94	91					2																	38791355		2203	4298	6501	SO:0001583	missense	92906			BC008217	CCDS46261.1, CCDS1796.2	2p22	2014-02-10		2013-06-12	ENSG00000143889	ENSG00000143889		"RNA binding motif (RRM) containing"	25127	protein-coding gene	gene with protein product		611208		HNRPLL		18669861	Standard	NM_138394		Approved		uc021vgc.1	Q8WVV9	OTTHUMG00000102075	ENST00000449105.3:c.1598A>T	2.37:g.38791355T>A	ENSP00000390625:p.Lys533Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q53T80|Q5JB51|Q5JB52|Q659B9|Q8IVH5|Q8IVH6|Q96HR5	Missense_Mutation	SNP	ENST00000449105.3	37		.	.	.	.	.	.	.	.	.	.	T	19.35	3.810102	0.70797	.	.	ENSG00000143889	ENST00000449105;ENST00000409636;ENST00000378915;ENST00000409328	.	.	.	5.83	5.83	0.93111	Nucleotide-binding, alpha-beta plait (1);	0.000000	0.85682	D	0.000000	T	0.80592	0.4652	M	0.81341	2.54	0.80722	D	1	D;D;D	0.89917	0.999;0.999;1.0	D;D;D	0.83275	0.994;0.994;0.996	T	0.83330	-0.0013	9	0.87932	D	0	.	16.194	0.82011	0.0:0.0:0.0:1.0	.	528;533;533	C9J9G0;D6W592;Q8WVV9	.;.;HNRLL_HUMAN	M	533;528;499;499	.	ENSP00000368195:K499M	K	-	2	0	HNRPLL	38644859	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.360000	0.79487	2.225000	0.72522	0.460000	0.39030	AAG		0.289	HNRNPLL-001	KNOWN	non_canonical_conserved|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000219887.2	NM_138394		A	38791355	T	A	38791355	3	1	584	1	0	0	0	0	1	0	0	0	7284	1609	56	5	34	5	HNRPLL	2	38791355	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08	6124079	38791355	204408018	9	34648										
DHX57	90957	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	39030017	39030017	+	Frame_Shift_Del	DEL	T	T	-													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	atactcgactagtttttatcTtctcgtggtacaacaggtag							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr2:39030017delT	ENST00000295373.6	-	23	3983	c.3857delA	c.(3856-3858)aagfs	p.K1286fs		NM_198963.1	NP_945314.1	Q6P158	DHX57_HUMAN	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	1286							ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			NS(2)|breast(3)|central_nervous_system(1)|endometrium(9)|kidney(2)|large_intestine(15)|lung(20)|ovary(1)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	62		all_hematologic(82;0.248)				AGTTTTTATCTTCTCGTGGTA	0.468																																					Melanoma(191;1090 2095 4375 23729 47341)											0													165	163	164					2																	39030017		2203	4300	6503	SO:0001589	frameshift_variant	90957			AF070590	CCDS1800.1	2p22.3	2008-02-05			ENSG00000163214	ENSG00000163214		"DEAH-boxes"	20086	protein-coding gene	gene with protein product							Standard	NM_198963		Approved	DDX57	uc002rrf.3	Q6P158	OTTHUMG00000102103	ENST00000295373.6:c.3857delA	2.37:g.39030017delT	ENSP00000295373:p.Lys1286fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRC7|Q53SI4|Q6P9G1|Q7Z6H3|Q8NG17|Q96M33	Frame_Shift_Del	DEL	ENST00000295373.6	37	CCDS1800.1																																																																																				0.468	DHX57-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219940.2	NM_145646		-	39030017	T	-	39030017	7	5	584	1	0	1	0	1	0	0	0	0	4515	1609	56	0	311	0	DHX57	2	39030017	Frame_Shift_Del	DEL	T	TCGA-EV-5902-01A-11D-1589-08	238662	39030017	204169356	10	34649										
SLC3A1	6519	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	44508525	44508525	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gaaatgtcttttactcattaGgtttaaaattaatcatcgat	5	5	3	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr2:44508525G>C	ENST00000260649.6	+	3	686		c.e3-1		SLC3A1_ENST00000409741.1_Splice_Site|SLC3A1_ENST00000409229.3_Splice_Site|SLC3A1_ENST00000409387.1_Splice_Site|SLC3A1_ENST00000410056.3_Splice_Site	NM_000341.3	NP_000332.2	Q07837	SLC31_HUMAN	solute carrier family 3 (amino acid transporter heavy chain), member 1						amino acid transmembrane transport (GO:0003333)|amino acid transport (GO:0006865)|basic amino acid transport (GO:0015802)|carbohydrate metabolic process (GO:0005975)|cellular amino acid metabolic process (GO:0006520)|ion transport (GO:0006811)|L-cystine transport (GO:0015811)|transmembrane transport (GO:0055085)	brush border membrane (GO:0031526)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|plasma membrane (GO:0005886)|vacuolar membrane (GO:0005774)	amino acid transmembrane transporter activity (GO:0015171)|basic amino acid transmembrane transporter activity (GO:0015174)|catalytic activity (GO:0003824)|cation binding (GO:0043169)|L-cystine transmembrane transporter activity (GO:0015184)			breast(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(5)|lung(11)|prostate(1)|skin(3)	26		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	TTACTCATTAGGTTTAAAATT	0.353																																																0													64	63	63					2																	44508525		2203	4300	6503	SO:0001630	splice_region_variant	6519				CCDS1819.1	2p16.3	2013-07-19	2013-07-19		ENSG00000138079	ENSG00000138079		"Solute carriers"	11025	protein-coding gene	gene with protein product		104614	"solute carrier family 3 (cystine, dibasic and neutral amino acid transporters, activator of cystine, dibasic and neutral amino acid transport), member 1"			8486766, 9186880	Standard	NM_000341		Approved	CSNU1, D2H, RBAT, ATR1, NBAT	uc002ruc.4	Q07837	OTTHUMG00000128759	ENST00000260649.6:c.611-1G>C	2.37:g.44508525G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0S1|O00658|Q15295|Q4J6B4|Q4J6B5|Q4J6B6|Q4J6B7|Q4J6B8|Q4J6B9|Q52M92|Q52M94	Splice_Site	SNP	ENST00000260649.6	37	CCDS1819.1	.	.	.	.	.	.	.	.	.	.	G	13.02	2.112058	0.37242	.	.	ENSG00000138079	ENST00000260649;ENST00000409387;ENST00000540334;ENST00000410056;ENST00000409741;ENST00000409229;ENST00000541289	.	.	.	4.19	4.19	0.49359	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	17.147	0.86768	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	SLC3A1	44362029	1.000000	0.71417	0.999000	0.59377	0.336000	0.28762	9.024000	0.93689	2.323000	0.78572	0.551000	0.68910	.		0.353	SLC3A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250676.1	NM_000341	Intron	C	44508525	G	C	44508525	5	2	584	1	0	0	0	0	0	0	1	0	14639	1014	35	4	620	4	SLC3A1	2	44508525	Splice_Site	SNP	G	TCGA-EV-5902-01A-11D-1589-08	5478508	44508525	198690848	11	34650										
FSHR	2492	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	49190328	49190328	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tggatatagcagccacagatGaccacaaaggccaggacatt	10	10	0	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr2:49190328G>A	ENST00000406846.2	-	10	1751	c.1632C>T	c.(1630-1632)gtC>gtT	p.V544V	FSHR_ENST00000541117.1_Silent_p.V280V|FSHR_ENST00000304421.4_Silent_p.V518V|FSHR_ENST00000346173.3_Silent_p.V482V	NM_000145.3	NP_000136.2	P23945	FSHR_HUMAN	follicle stimulating hormone receptor	544					female gamete generation (GO:0007292)|female gonad development (GO:0008585)|follicle-stimulating hormone signaling pathway (GO:0042699)|G-protein coupled receptor signaling pathway (GO:0007186)|gonad development (GO:0008406)|male gonad development (GO:0008584)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	follicle-stimulating hormone receptor activity (GO:0004963)			NS(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(10)|liver(1)|lung(45)|ovary(4)|pancreas(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	73		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)|Suramin(DB04786)|Urofollitropin(DB00094)	AGCCACAGATGACCACAAAGG	0.532									Gonadal Dysgenesis, 46 XX																																							0													141	111	121					2																	49190328		2203	4300	6503	SO:0001819	synonymous_variant	2492	Familial Cancer Database			CCDS1843.1, CCDS1844.1, CCDS1844.2	2p21-p16	2014-09-17			ENSG00000170820	ENSG00000170820		"GPCR / Class A : Gonadotropin and TSH receptors"	3969	protein-coding gene	gene with protein product		136435		ODG1		8230163, 8855829	Standard	NM_000145		Approved	FSHRO, LGR1	uc002rww.3	P23945	OTTHUMG00000129259	ENST00000406846.2:c.1632C>T	2.37:g.49190328G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K947|G5CBS7|G5E967|J3KQ00|Q05AH0|Q16225|Q4QRJ3|Q4ZFZ2|Q53RW2	Silent	SNP	ENST00000406846.2	37	CCDS1843.1																																																																																				0.532	FSHR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251367.2			A	49190328	G	A	49190328	2	1	584	1	0	0	0	0	0	0	0	1	6080	1277	45	2		2	FSHR	2	49190328	Silent	SNP	G	TCGA-EV-5902-01A-11D-1589-08	4681803	49190328	194009045	12	34651										
MRPS5	64969	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	95753148	95753148	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	accacacagagcgcttcattCcctgtgcagtcttcacatct	6	15	4	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr2:95753148C>G	ENST00000272418.2	-	12	1455	c.1247G>C	c.(1246-1248)gGa>gCa	p.G416A		NM_031902.3	NP_114108.1	P82675	RT05_HUMAN	mitochondrial ribosomal protein S5	416					translation (GO:0006412)	mitochondrion (GO:0005739)|ribosome (GO:0005840)	poly(A) RNA binding (GO:0044822)|structural constituent of ribosome (GO:0003735)			central_nervous_system(1)|kidney(2)|large_intestine(4)|lung(9)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	20						GCGCTTCATTCCCTGTGCAGT	0.572																																																0													103	96	99					2																	95753148		2203	4300	6503	SO:0001583	missense	64969			AB049940	CCDS2010.1	2p11.2-q11.2	2012-09-13			ENSG00000144029	ENSG00000144029		"Mitochondrial ribosomal proteins / small subunits"	14498	protein-coding gene	gene with protein product	"mitochondrial 28S ribosomal protein S5"	611972					Standard	NM_031902		Approved	MRP-S5, S5mt	uc002sub.3	P82675	OTTHUMG00000130394	ENST00000272418.2:c.1247G>C	2.37:g.95753148C>G	ENSP00000272418:p.Gly416Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZFY5|Q96LJ6|Q9BWI4|Q9BYC4	Missense_Mutation	SNP	ENST00000272418.2	37	CCDS2010.1	.	.	.	.	.	.	.	.	.	.	C	17.16	3.318910	0.60524	.	.	ENSG00000144029	ENST00000272418	.	.	.	5.98	5.1	0.69264	.	0.052056	0.85682	D	0.000000	T	0.75781	0.3896	M	0.63843	1.955	0.58432	D	0.999999	D	0.89917	1.0	D	0.87578	0.998	T	0.78175	-0.2306	9	0.72032	D	0.01	-16.5572	13.0098	0.58725	0.0:0.9224:0.0:0.0776	.	416	P82675	RT05_HUMAN	A	416	.	ENSP00000272418:G416A	G	-	2	0	MRPS5	95116875	1.000000	0.71417	0.990000	0.47175	0.070000	0.16714	6.883000	0.75595	1.560000	0.49568	0.650000	0.86243	GGA		0.572	MRPS5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252772.1	NM_031902		G	95753148	C	G	95753148	3	3	584	1	0	0	0	0	1	0	0	0	9853	855	30	4	49	4	MRPS5	2	95753148	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	46562820	95753148	147446225	13	34652										
IL1RL2	8808	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	102836361	102836361	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	aacccatgtctcttttcgggAacataatttgtacacagtaa	6	9	1	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr2:102836361A>C	ENST00000264257.2	+	8	1001	c.875A>C	c.(874-876)gAa>gCa	p.E292A	IL1RL2_ENST00000481806.1_3'UTR|IL1RL2_ENST00000539491.1_Missense_Mutation_p.E292A|IL1RL2_ENST00000441515.2_Missense_Mutation_p.E174A	NM_003854.2	NP_003845.2	Q9HB29	ILRL2_HUMAN	interleukin 1 receptor-like 2	292	Ig-like C2-type 3.				cellular defense response (GO:0006968)|cytokine-mediated signaling pathway (GO:0019221)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of T cell differentiation (GO:0045582)|regulation of inflammatory response (GO:0050727)|signal transduction (GO:0007165)	integral component of plasma membrane (GO:0005887)	interleukin-1 receptor activity (GO:0004908)|interleukin-1, Type I, activating receptor activity (GO:0004909)			breast(1)|cervix(1)|endometrium(5)|large_intestine(6)|liver(2)|lung(8)|ovary(2)|prostate(1)	26						TCTTTTCGGGAACATAATTTG	0.358																																																0													103	98	100					2																	102836361		2203	4300	6503	SO:0001583	missense	8808			U49065	CCDS2056.1	2q12	2013-01-14			ENSG00000115598	ENSG00000115598		"Interleukins and interleukin receptors", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5999	protein-coding gene	gene with protein product		604512				8898719, 10191101, 11466363	Standard	NM_003854		Approved	IL1R-rp2, IL1RRP2	uc002tbs.3	Q9HB29	OTTHUMG00000130776	ENST00000264257.2:c.875A>C	2.37:g.102836361A>C	ENSP00000264257:p.Glu292Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A4FU63|Q13525|Q45H74|Q53TU8|Q587I8	Missense_Mutation	SNP	ENST00000264257.2	37	CCDS2056.1	.	.	.	.	.	.	.	.	.	.	A	5.529	0.282573	0.10458	.	.	ENSG00000115598	ENST00000264257;ENST00000441515;ENST00000539491	T;T;T	0.13901	2.55;2.55;2.55	5.09	2.7	0.31948	.	1.166780	0.05889	N	0.627921	T	0.11495	0.0280	L	0.36672	1.1	0.09310	N	1	B;B	0.25312	0.057;0.123	B;B	0.22753	0.028;0.041	T	0.41342	-0.9514	10	0.17369	T	0.5	.	6.8812	0.24174	0.8123:0.0:0.1877:0.0	.	174;292	A4FU63;Q9HB29	.;ILRL2_HUMAN	A	292;174;292	ENSP00000264257:E292A;ENSP00000413348:E174A;ENSP00000442184:E292A	ENSP00000264257:E292A	E	+	2	0	IL1RL2	102202793	0.000000	0.05858	0.000000	0.03702	0.011000	0.07611	0.965000	0.29319	0.357000	0.24183	-0.256000	0.11100	GAA		0.358	IL1RL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253290.1	NM_003854		C	102836361	A	C	102836361	3	2	584	1	0	0	0	0	1	0	0	0	7671	246	9	5	901	5	IL1RL2	2	102836361	Missense_Mutation	SNP	A	TCGA-EV-5902-01A-11D-1589-08	7083213	102836361	140363012	14	34653										
RND3	390	broad.mit.edu	37	chr2	151328205	151328205	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ctaatgtactaacatctgtcCgcagatcagacttgcagccg	8	12	2	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr2:151328205C>A	ENST00000375734.2	-	4	668	c.419G>T	c.(418-420)cGg>cTg	p.R140L	RND3_ENST00000472416.1_5'UTR|RND3_ENST00000409557.1_Missense_Mutation_p.R11L|RND3_ENST00000263895.4_Missense_Mutation_p.R140L	NM_001254738.1	NP_001241667.1	P61587	RND3_HUMAN	Rho family GTPase 3	140					actin cytoskeleton organization (GO:0030036)|cell adhesion (GO:0007155)|GTP catabolic process (GO:0006184)|small GTPase mediated signal transduction (GO:0007264)	extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)	p.R140Q(1)		endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(7)|prostate(1)|urinary_tract(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.106)		AACATCTGTCCGCAGATCAGA	0.403																																																1	Substitution - Missense(1)	lung(1)											102	96	98					2																	151328205		2203	4300	6503	SO:0001583	missense	390				CCDS2190.1	2q23.3	2008-02-05	2005-01-24	2005-01-27	ENSG00000115963	ENSG00000115963			671	protein-coding gene	gene with protein product		602924	"ras homolog gene family, member E"	ARHE		8649376	Standard	NM_001254738		Approved	RhoE, Rho8	uc002txe.3	P61587	OTTHUMG00000131859	ENST00000375734.2:c.419G>T	2.37:g.151328205C>A	ENSP00000364886:p.Arg140Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DP95|P52199	Missense_Mutation	SNP	ENST00000375734.2	37	CCDS2190.1	.	.	.	.	.	.	.	.	.	.	C	36	5.654258	0.96724	.	.	ENSG00000115963	ENST00000375734;ENST00000263895;ENST00000409557	T;T;T	0.77620	-1.11;-1.11;-1.11	5.76	5.76	0.90799	Small GTP-binding protein domain (1);	0.000000	0.85682	D	0.000000	D	0.88797	0.6534	M	0.77486	2.375	0.80722	D	1	D;D;D	0.89917	0.978;1.0;1.0	D;D;D	0.97110	0.969;1.0;1.0	D	0.89414	0.3705	10	0.87932	D	0	-17.2601	18.9641	0.92689	0.0:1.0:0.0:0.0	.	11;139;140	B4DSG7;D3DP96;P61587	.;.;RND3_HUMAN	L	140;140;11	ENSP00000364886:R140L;ENSP00000263895:R140L;ENSP00000386576:R11L	ENSP00000263895:R140L	R	-	2	0	RND3	151036451	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.796000	0.85898	2.713000	0.92767	0.655000	0.94253	CGG		0.403	RND3-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254809.1	NM_005168		A	151328205	C	A	151328205	3	1	584	1	0	0	0	0	1	0	0	0	13434	652	23	4	323	4	RND3	2	151328205	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	48491844	151328205	91871168	15	34654										
XIRP2	129446	hgsc.bcm.edu;bcgsc.ca	37	chr2	168115244	168115247	+	Frame_Shift_Del	DEL	TTTC	TTTC	-													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	agaagacatctattttagaaTttcttgatctattacccttg							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	TTTC	TTTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr2:168115244_168115247delTTTC	ENST00000409728.1	+	11	2376_2379	c.2287_2290delTTTC	c.(2287-2292)tttcttfs	p.FL763fs	XIRP2_ENST00000409043.1_Frame_Shift_Del_p.FL730fs|XIRP2_ENST00000420519.1_Frame_Shift_Del_p.FL763fs|XIRP2_ENST00000409605.1_Frame_Shift_Del_p.FL508fs|XIRP2_ENST00000295237.9_3'UTR|XIRP2_ENST00000409756.2_Frame_Shift_Del_p.FL730fs|XIRP2_ENST00000409195.1_3'UTR|XIRP2_ENST00000409273.1_3'UTR	NM_001199143.1	NP_001186072.1	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2	1281					actin cytoskeleton organization (GO:0030036)|cardiac muscle tissue morphogenesis (GO:0055008)|cell-cell junction organization (GO:0045216)|ventricular septum development (GO:0003281)	cell junction (GO:0030054)|Z disc (GO:0030018)				NS(3)|biliary_tract(2)|breast(5)|cervix(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(51)|lung(160)|ovary(7)|pancreas(3)|prostate(11)|skin(14)|stomach(5)|upper_aerodigestive_tract(8)|urinary_tract(7)	315						TATTTTAGAATTTCTTGATCTATT	0.299																																																0																																										SO:0001589	frameshift_variant	129446			AK056582	CCDS42768.1, CCDS42769.1, CCDS56143.1, CCDS56144.1, CCDS56145.1	2q31.1	2013-10-25	2007-06-27	2007-06-27	ENSG00000163092	ENSG00000163092			14303	protein-coding gene	gene with protein product	"myomaxin"	609778	"cardiomyopathy associated 3"	CMYA3		17046827, 12203715, 15454575	Standard	NM_001079810		Approved		uc002udx.3	A4UGR9	OTTHUMG00000154027	ENST00000409728.1:c.2287_2290delTTTC	2.37:g.168115244_168115247delTTTC	ENSP00000386619:p.Phe763fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJ94|B2BBS0|B2BBS1|B2BBS4|B3KVH0|J3KNB1|Q53R52|Q5MJ67|Q702N7|Q86T36|Q86T38|Q86T46|Q86T51|Q86T53|Q86T55|Q86T79|Q86TB6|Q8N1M9|Q8N3R5|Q8TBV6	Frame_Shift_Del	DEL	ENST00000409728.1	37	CCDS56143.1																																																																																				0.299	XIRP2-006	NOVEL	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000333552.1	NM_152381		-	168115247	TTTC	-	168115244	7	5	584	1	0	1	0	1	0	0	0	0	17442	1493	52	0	11605	0	XIRP2	2	168115244	Frame_Shift_Del	DEL	TTTC	TCGA-EV-5902-01A-11D-1589-08	16787039	168115244	75084129	16	34655										
FAM171B	165215	hgsc.bcm.edu	37	chr2	187559029	187559029	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tccgacctcagcctcatccaAcagcagcagcagcagcagca	8	17	2	0	rs549897920|rs56669143	byFrequency	TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr2:187559029A>G	ENST00000304698.5	+	1	332	c.129A>G	c.(127-129)caA>caG	p.Q43Q	AC017101.10_ENST00000453665.1_RNA	NM_177454.3	NP_803237.3	Q6P995	F171B_HUMAN	family with sequence similarity 171, member B	43	Gln-rich.					integral component of membrane (GO:0016021)	DNA binding (GO:0003677)			NS(1)|breast(6)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(10)|lung(22)|ovary(6)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	54						GCCTCATCcaacagcagcagc	0.642																																																0													18	20	19					2																	187559029		2201	4300	6501	SO:0001819	synonymous_variant	165215			AF361495	CCDS33347.1	2q32.2	2008-06-16	2008-06-16	2008-06-16	ENSG00000144369	ENSG00000144369			29412	protein-coding gene	gene with protein product			"KIAA1946"	KIAA1946		11853319	Standard	NM_177454		Approved	FLJ34104	uc002ups.3	Q6P995	OTTHUMG00000154278	ENST00000304698.5:c.129A>G	2.37:g.187559029A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q53SK3|Q8N1Y4|Q8N3K1|Q8N970|Q8NB81|Q8TF55|Q8WYR8	Silent	SNP	ENST00000304698.5	37	CCDS33347.1																																																																																				0.642	FAM171B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000334679.1	NM_177454		G	187559029	A	G	187559029	2	3	584	1	0	0	0	0	0	0	0	1	5495	40	2	3		3	FAM171B	2	187559029	Silent	SNP	A	TCGA-EV-5902-01A-11D-1589-08	19443785	187559029	55640344	17	34656										
CASP10	843	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	202073930	202073931	+	Frame_Shift_Del	DEL	TG	TG	-													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	acggggactgcttcgtgttcTgtattctgacccatgggaga							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr2:202073930_202073931delTG	ENST00000272879.5	+	9	1244_1245	c.1060_1061delTG	c.(1060-1062)tgtfs	p.C354fs	CASP10_ENST00000346817.5_Frame_Shift_Del_p.C311fs|CASP10_ENST00000448480.1_Frame_Shift_Del_p.C311fs|CASP10_ENST00000360132.3_3'UTR|CASP10_ENST00000286186.6_Frame_Shift_Del_p.C354fs|CASP10_ENST00000313728.7_Frame_Shift_Del_p.C287fs|CASP10_ENST00000492363.1_3'UTR	NM_032974.4	NP_116756.2	Q92851	CASPA_HUMAN	caspase 10, apoptosis-related cysteine peptidase	354					apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|innate immune response (GO:0045087)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|regulation of apoptotic process (GO:0042981)	CD95 death-inducing signaling complex (GO:0031265)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|plasma membrane (GO:0005886)|ripoptosome (GO:0097342)	cysteine-type endopeptidase activity (GO:0004197)|cysteine-type endopeptidase activity involved in apoptotic signaling pathway (GO:0097199)|death effector domain binding (GO:0035877)|ubiquitin protein ligase binding (GO:0031625)			breast(2)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(8)|ovary(1)|pancreas(1)|prostate(1)|skin(3)	27						CTTCGTGTTCTGTATTCTGACC	0.515																																																0																																										SO:0001589	frameshift_variant	843			U60519	CCDS2338.1, CCDS2339.1, CCDS2340.1, CCDS56159.1, CCDS56160.1	2q33-q34	2014-09-17	2005-08-17		ENSG00000003400	ENSG00000003400	3.4.22.63	"Caspases"	1500	protein-coding gene	gene with protein product		601762	"caspase 10, apoptosis-related cysteine protease"			8755496	Standard	NM_032974		Approved	MCH4	uc002uxj.1	Q92851	OTTHUMG00000132818	ENST00000272879.5:c.1060_1061delTG	2.37:g.202073930_202073931delTG	ENSP00000272879:p.Cys354fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q68HC0|Q6KF62|Q6KF63|Q8IUP5|Q8WYQ8|Q99845|Q9Y2U6|Q9Y2U7	Frame_Shift_Del	DEL	ENST00000272879.5	37	CCDS2338.1																																																																																				0.515	CASP10-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256273.1	NM_032977		-	202073931	TG	-	202073930	7	5	584	1	0	1	0	1	0	0	0	0	2671	1580	55	0	1090	0	CASP10	2	202073930	Frame_Shift_Del	DEL	TG	TCGA-EV-5902-01A-11D-1589-08	14514901	202073930	41125443	18	34657										
WNT10A	80326	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	219754716	219754716	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ttaaccacaggtttccgagaGagcgcttttgcctacgccat	9	12	0	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr2:219754716G>C	ENST00000258411.3	+	3	1020	c.387G>C	c.(385-387)gaG>gaC	p.E129D	WNT10A_ENST00000483911.1_3'UTR	NM_025216.2	NP_079492.2	Q9GZT5	WN10A_HUMAN	wingless-type MMTV integration site family, member 10A	129					cell fate commitment (GO:0045165)|cellular response to transforming growth factor beta stimulus (GO:0071560)|epidermis morphogenesis (GO:0048730)|hair follicle development (GO:0001942)|hair follicle morphogenesis (GO:0031069)|neural crest cell differentiation (GO:0014033)|neuron differentiation (GO:0030182)|odontogenesis (GO:0042476)|positive regulation of gene expression (GO:0010628)|regulation of odontogenesis of dentin-containing tooth (GO:0042487)|sebaceous gland development (GO:0048733)|skin development (GO:0043588)|tongue development (GO:0043586)|Wnt signaling pathway (GO:0016055)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)	frizzled binding (GO:0005109)			breast(1)|cervix(1)|endometrium(2)|lung(6)|skin(2)	12		Renal(207;0.0474)		Epithelial(149;4.26e-07)|all cancers(144;8.8e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GTTTCCGAGAGAGCGCTTTTG	0.582																																																0													96	86	90					2																	219754716		2203	4300	6503	SO:0001583	missense	80326			AB059569	CCDS2426.1	2q35	2008-05-23			ENSG00000135925	ENSG00000135925		"Wingless-type MMTV integration sites"	13829	protein-coding gene	gene with protein product		606268				11350055, 17847007	Standard	NM_025216		Approved		uc002vjd.1	Q9GZT5	OTTHUMG00000133085	ENST00000258411.3:c.387G>C	2.37:g.219754716G>C	ENSP00000258411:p.Glu129Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q53S44|Q96TA7|Q9H7S8	Missense_Mutation	SNP	ENST00000258411.3	37	CCDS2426.1	.	.	.	.	.	.	.	.	.	.	G	20.5	3.993868	0.74703	.	.	ENSG00000135925	ENST00000258411	D	0.84944	-1.92	4.7	3.82	0.43975	.	0.000000	0.85682	D	0.000000	D	0.94627	0.8268	H	0.97564	4.03	0.58432	D	0.999999	D	0.89917	1.0	D	0.91635	0.999	D	0.95446	0.8530	10	0.72032	D	0.01	.	12.015	0.53309	0.085:0.0:0.915:0.0	.	129	Q9GZT5	WN10A_HUMAN	D	129	ENSP00000258411:E129D	ENSP00000258411:E129D	E	+	3	2	WNT10A	219462960	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	2.220000	0.42908	1.338000	0.45544	0.655000	0.94253	GAG		0.582	WNT10A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256730.2	NM_025216		C	219754716	G	C	219754716	3	2	584	1	0	0	0	0	1	0	0	0	17394	933	33	4	397	4	WNT10A	2	219754716	Missense_Mutation	SNP	G	TCGA-EV-5902-01A-11D-1589-08	17680786	219754716	23444657	19	34658										
NR1D2	9975	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	24003534	24003534	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	aattgaaatgcaaagtgcaaTgaagaccatgatgaacagcc	9	7	0	5			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr3:24003534T>G	ENST00000312521.4	+	5	903	c.584T>G	c.(583-585)aTg>aGg	p.M195R	NR1D2_ENST00000492552.1_3'UTR	NM_001145425.1|NM_005126.4	NP_001138897.1|NP_005117	Q14995	NR1D2_HUMAN	nuclear receptor subfamily 1, group D, member 2	195	Hinge.				gene expression (GO:0010467)|intracellular receptor signaling pathway (GO:0030522)|lipid homeostasis (GO:0055088)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of circadian rhythm (GO:0042752)|regulation of energy homeostasis (GO:2000505)|regulation of inflammatory response (GO:0050727)|regulation of lipid metabolic process (GO:0019216)|regulation of skeletal muscle cell differentiation (GO:2001014)|regulation of transcription, DNA-templated (GO:0006355)|rhythmic process (GO:0048511)|transcription initiation from RNA polymerase II promoter (GO:0006367)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)	core promoter sequence-specific DNA binding (GO:0001046)|ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|steroid hormone receptor activity (GO:0003707)|zinc ion binding (GO:0008270)			NS(2)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(6)|lung(4)|ovary(1)|prostate(2)|skin(1)|urinary_tract(2)	22						CAAAGTGCAATGAAGACCATG	0.413																																																0													72	63	66					3																	24003534		2203	4300	6503	SO:0001583	missense	9975			BC045613	CCDS33718.1	3p24.1	2013-01-16			ENSG00000174738	ENSG00000174738		"Nuclear hormone receptors"	7963	protein-coding gene	gene with protein product		602304				7997240, 10198169	Standard	NM_005126		Approved	BD73, RVR, EAR-1r, HZF2, Hs.37288	uc003ccs.2	Q14995	OTTHUMG00000155659	ENST00000312521.4:c.584T>G	3.37:g.24003534T>G	ENSP00000310006:p.Met195Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8Q3|O00402|Q86XD4	Missense_Mutation	SNP	ENST00000312521.4	37	CCDS33718.1	.	.	.	.	.	.	.	.	.	.	T	22.9	4.347423	0.82022	.	.	ENSG00000174738	ENST00000312521;ENST00000396676	D	0.92647	-3.08	5.98	5.98	0.97165	.	0.000000	0.85682	D	0.000000	D	0.95411	0.8510	M	0.67397	2.05	0.80722	D	1	D	0.89917	1.0	D	0.79784	0.993	D	0.95294	0.8397	10	0.52906	T	0.07	.	16.4614	0.84056	0.0:0.0:0.0:1.0	.	195	Q14995	NR1D2_HUMAN	R	195	ENSP00000310006:M195R	ENSP00000310006:M195R	M	+	2	0	NR1D2	23978538	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.635000	0.83286	2.285000	0.76669	0.533000	0.62120	ATG		0.413	NR1D2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341017.3			G	24003534	T	G	24003534	3	3	584	1	0	0	0	0	1	0	0	0	10623	1464	51	5	602	5	NR1D2	3	24003534	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08		24003534	174018896	20	34659										
SCN11A	11280	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	38889146	38889146	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	cccggacaagcctcaggattCggccaatccgagccaagcgg	12	15	1	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr3:38889146C>T	ENST00000302328.3	-	26	4613	c.4415G>A	c.(4414-4416)cGa>cAa	p.R1472Q	SCN11A_ENST00000456224.3_Missense_Mutation_p.R1434Q|SCN11A_ENST00000450244.1_Missense_Mutation_p.R1472Q	NM_014139.2	NP_054858.2	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha subunit	1472					cell death (GO:0008219)|membrane depolarization during action potential (GO:0086010)|neuronal action potential (GO:0019228)|regulation of sensory perception of pain (GO:0051930)|response to drug (GO:0042493)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	C-fiber (GO:0044299)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)			NS(3)|biliary_tract(1)|breast(4)|cervix(2)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(29)|lung(29)|ovary(3)|pancreas(2)|prostate(12)|skin(14)|upper_aerodigestive_tract(5)|urinary_tract(3)	119				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)|Valproic Acid(DB00313)|Zonisamide(DB00909)	CCTCAGGATTCGGCCAATCCG	0.498																																																0													44	49	48					3																	38889146		2203	4300	6503	SO:0001583	missense	11280			AF126739	CCDS33737.1	3p22.2	2012-02-26	2007-01-23		ENSG00000168356	ENSG00000168356		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10583	protein-coding gene	gene with protein product		604385	"sodium channel, voltage-gated, type XI, alpha polypeptide", "sodium channel, voltage-gated, type XII, alpha"	SCN12A		10444332, 16382098	Standard	NM_014139		Approved	Nav1.9, NaN, SNS-2	uc021wvy.1	Q9UI33	OTTHUMG00000048246	ENST00000302328.3:c.4415G>A	3.37:g.38889146C>T	ENSP00000307599:p.Arg1472Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NN05|C9JD48|C9JR31|Q68K15|Q8NDX3|Q9UHE0|Q9UHM0	Missense_Mutation	SNP	ENST00000302328.3	37	CCDS33737.1	.	.	.	.	.	.	.	.	.	.	C	36	5.839006	0.97009	.	.	ENSG00000168356	ENST00000302328;ENST00000450244;ENST00000456224	D;D;D	0.99607	-6.27;-6.27;-6.27	5.81	5.81	0.92471	Ion transport (1);	0.069151	0.64402	D	0.000010	D	0.99857	0.9933	H	0.99130	4.44	0.58432	D	0.999998	D	0.89917	1.0	D	0.91635	0.999	D	0.96576	0.9427	10	0.87932	D	0	.	20.0787	0.97763	0.0:1.0:0.0:0.0	.	1472	Q9UI33	SCNBA_HUMAN	Q	1472;1472;1434	ENSP00000307599:R1472Q;ENSP00000400945:R1472Q;ENSP00000416757:R1434Q	ENSP00000307599:R1472Q	R	-	2	0	SCN11A	38864150	1.000000	0.71417	0.962000	0.40283	0.998000	0.95712	7.789000	0.85783	2.750000	0.94351	0.637000	0.83480	CGA		0.498	SCN11A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109746.4	NM_014139		T	38889146	C	T	38889146	3	4	584	1	0	0	0	0	1	0	0	0	13926	884	31	1	964	1	SCN11A	3	38889146	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	14885612	38889146	159133284	21	34660										
TGM4	7047	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	44935102	44935102	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	catgcctgatgaggacgagcGcaaagagtacatcctcaatg	11	10	1	3	rs147559877		TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr3:44935102G>A	ENST00000296125.4	+	5	532	c.464G>A	c.(463-465)cGc>cAc	p.R155H		NM_003241.3	NP_003232.2	P49221	TGM4_HUMAN	transglutaminase 4	155					mating plug formation (GO:0042628)|peptide cross-linking (GO:0018149)	cytoplasm (GO:0005737)|extracellular matrix (GO:0031012)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)	metal ion binding (GO:0046872)|protein-glutamine gamma-glutamyltransferase activity (GO:0003810)			NS(1)|breast(1)|endometrium(2)|large_intestine(9)|lung(21)|ovary(2)|stomach(1)|upper_aerodigestive_tract(1)	38				BRCA - Breast invasive adenocarcinoma(193;0.00963)|KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0686)	L-Glutamine(DB00130)	GAGGACGAGCGCAAAGAGTAC	0.507													G|||	1	0.000199681	0.0008	0.0	5008	,	,		15581	0.0		0.0	False		,,,				2504	0.0															0								G	HIS/ARG	2,4404	4.2+/-10.8	0,2,2201	129	115	120		464	-1.3	0	3	dbSNP_134	120	0,8600		0,0,4300	no	missense	TGM4	NM_003241.3	29	0,2,6501	AA,AG,GG		0.0,0.0454,0.0154	probably-damaging	155/685	44935102	2,13004	2203	4300	6503	SO:0001583	missense	7047			BC007003	CCDS2723.1	3p22-p21.33	2013-05-02	2013-05-02		ENSG00000163810	ENSG00000163810	2.3.2.13	"Transglutaminases"	11780	protein-coding gene	gene with protein product		600585	"transglutaminase 4 (prostate)"			7665178, 7916568	Standard	NM_003241		Approved	TGP	uc003coc.4	P49221	OTTHUMG00000133096	ENST00000296125.4:c.464G>A	3.37:g.44935102G>A	ENSP00000296125:p.Arg155His	Somatic		WXS	Illumina HiSeq	Phase_I	Q16707|Q96QN4	Missense_Mutation	SNP	ENST00000296125.4	37	CCDS2723.1	.	.	.	.	.	.	.	.	.	.	G	14.17	2.455059	0.43634	4.54E-4	0.0	ENSG00000163810	ENST00000296125	D	0.92099	-2.97	2.32	-1.33	0.09172	.	0.000000	0.40818	U	0.001008	D	0.95056	0.8399	M	0.90870	3.155	0.09310	N	0.999991	D	0.89917	1.0	D	0.79784	0.993	D	0.88191	0.2877	10	0.66056	D	0.02	.	4.1154	0.10079	0.3177:0.0:0.5237:0.1586	.	155	P49221	TGM4_HUMAN	H	155	ENSP00000296125:R155H	ENSP00000296125:R155H	R	+	2	0	TGM4	44910106	0.694000	0.27738	0.000000	0.03702	0.008000	0.06430	1.522000	0.35921	-0.584000	0.05913	-0.518000	0.04402	CGC		0.507	TGM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256755.2	NM_003241		A	44935102	G	A	44935102	3	1	584	1	0	0	0	0	1	0	0	0	15844	1087	38	1	482	1	TGM4	3	44935102	Missense_Mutation	SNP	G	TCGA-EV-5902-01A-11D-1589-08	6045956	44935102	153087328	22	34661										
LZTFL1	54585	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	45874547	45874547	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	aaataataatattaccttgtTtaggagttctgctgttccac	6	7	1	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr3:45874547T>G	ENST00000296135.6	-	5	625	c.451A>C	c.(451-453)Aac>Cac	p.N151H	LZTFL1_ENST00000536047.1_Missense_Mutation_p.N134H|LZTFL1_ENST00000490463.1_5'UTR|LZTFL1_ENST00000539217.1_Missense_Mutation_p.N147H	NM_001276378.1|NM_020347.2	NP_001263307.1|NP_065080.1	Q9NQ48	LZTL1_HUMAN	leucine zipper transcription factor-like 1	151	Interaction with BSS9.				establishment of protein localization to organelle (GO:0072594)	BBSome (GO:0034464)|cytoplasm (GO:0005737)	identical protein binding (GO:0042802)			endometrium(1)|large_intestine(2)|lung(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(2)	8				BRCA - Breast invasive adenocarcinoma(193;0.00867)|KIRC - Kidney renal clear cell carcinoma(197;0.0177)|Kidney(197;0.0208)		ATTACCTTGTTTAGGAGTTCT	0.393																																																0													100	99	99					3																	45874547		2203	4300	6503	SO:0001583	missense	54585			AJ297351	CCDS2731.1, CCDS63608.1, CCDS63609.1	3p21.3	2014-01-28			ENSG00000163818	ENSG00000163818			6741	protein-coding gene	gene with protein product		606568				11352561, 22510444	Standard	NM_020347		Approved	BBS17	uc003cox.2	Q9NQ48	OTTHUMG00000133452	ENST00000296135.6:c.451A>C	3.37:g.45874547T>G	ENSP00000296135:p.Asn151His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KSI9|B4E0K7|Q8TC61|Q9NQ56	Missense_Mutation	SNP	ENST00000296135.6	37	CCDS2731.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	16.78|16.78	3.217504|3.217504	0.58560|0.58560	.|.	.|.	ENSG00000163818|ENSG00000163818	ENST00000440576|ENST00000296135;ENST00000536047;ENST00000539217	.|T;T;T	.|0.24151	.|1.87;1.87;1.87	5.49|5.49	5.49|5.49	0.81192|0.81192	.|.	.|0.131960	.|0.64402	.|D	.|0.000002	T|T	0.28333|0.28333	0.0700|0.0700	L|L	0.58302|0.58302	1.8|1.8	0.54753|0.54753	D|D	0.999989|0.999989	.|B	.|0.12013	.|0.005	.|B	.|0.16289	.|0.015	T|T	0.03166|0.03166	-1.1065|-1.1065	5|10	.|0.38643	.|T	.|0.18	-17.4947|-17.4947	14.7592|14.7592	0.69593|0.69593	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	.|151	.|Q9NQ48	.|LZTL1_HUMAN	T|H	108|151;134;147	.|ENSP00000296135:N151H;ENSP00000439522:N134H;ENSP00000441784:N147H	.|ENSP00000296135:N151H	K|N	-|-	2|1	0|0	LZTFL1|LZTFL1	45849551|45849551	1.000000|1.000000	0.71417|0.71417	0.999000|0.999000	0.59377|0.59377	0.986000|0.986000	0.74619|0.74619	7.333000|7.333000	0.79214|0.79214	2.074000|2.074000	0.62210|0.62210	0.528000|0.528000	0.53228|0.53228	AAA|AAC		0.393	LZTFL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257326.3	NM_020347		G	45874547	T	G	45874547	3	3	584	1	0	0	0	0	1	0	0	0	9143	1841	64	5	472	5	LZTFL1	3	45874547	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08	939445	45874547	152147883	23	34662										
USP4	7375	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	49362339	49362339	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	cctcctacctgaccctggtaTagcccagcatcctggacagt	8	16	0	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr3:49362339T>C	ENST00000265560.4	-	5	667	c.621A>G	c.(619-621)ctA>ctG	p.L207L	USP4_ENST00000351842.4_Silent_p.L207L|USP4_ENST00000416417.1_Silent_p.L207L|USP4_ENST00000415188.1_Silent_p.L207L	NM_003363.3	NP_003354.2	Q13107	UBP4_HUMAN	ubiquitin specific peptidase 4 (proto-oncogene)	207	Necessary for interaction with SART3. {ECO:0000269|PubMed:20595234}.|Ubiquitin-like 1.				negative regulation of protein ubiquitination (GO:0031397)|protein deubiquitination (GO:0016579)|protein localization to cell surface (GO:0034394)|regulation of protein stability (GO:0031647)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|lysosome (GO:0005764)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	adenosine receptor binding (GO:0031685)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			breast(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(5)|liver(1)|lung(10)|ovary(3)|prostate(1)|skin(2)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	33		Ovarian(412;0.00308)|Myeloproliferative disorder(1037;0.0255)|Hepatocellular(537;0.121)		OV - Ovarian serous cystadenocarcinoma(275;4.74e-26)|Kidney(197;2.22e-07)|KIRC - Kidney renal clear cell carcinoma(197;5.14e-06)|BRCA - Breast invasive adenocarcinoma(193;9.46e-05)		GACCCTGGTATAGCCCAGCAT	0.547																																																0													154	156	155					3																	49362339		2203	4300	6503	SO:0001819	synonymous_variant	7375			U20657	CCDS2793.1, CCDS2794.1, CCDS58832.1	3p21.3	2005-10-11	2005-08-08		ENSG00000114316	ENSG00000114316		"Ubiquitin-specific peptidases"	12627	protein-coding gene	gene with protein product		603486	"ubiquitin specific protease 4 (proto-oncogene)"	UNP		12838346, 9464533	Standard	NM_199443		Approved	Unph	uc003cwq.2	Q13107	OTTHUMG00000156825	ENST00000265560.4:c.621A>G	3.37:g.49362339T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6Y0|C9IY91|O43452|O43453|Q08AK8	Silent	SNP	ENST00000265560.4	37	CCDS2793.1																																																																																				0.547	USP4-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346069.1	NM_199443		C	49362339	T	C	49362339	2	2	584	1	0	0	0	0	0	0	0	1	17083	1393	49	3		3	USP4	3	49362339	Silent	SNP	T	TCGA-EV-5902-01A-11D-1589-08	3487792	49362339	148660091	24	34663										
CNTN3	5067	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	74350871	74350871	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	taggatataactgggctatgGttgtctttaccttctttcca	8	8	2	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr3:74350871G>T	ENST00000263665.6	-	14	1899	c.1872C>A	c.(1870-1872)aaC>aaA	p.N624K		NM_020872.1	NP_065923.1	Q9P232	CNTN3_HUMAN	contactin 3 (plasmacytoma associated)	624	Fibronectin type-III 1. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell adhesion (GO:0007155)|nervous system development (GO:0007399)	anchored component of membrane (GO:0031225)|plasma membrane (GO:0005886)				NS(2)|breast(4)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(14)|lung(39)|ovary(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	83		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)		CTGGGCTATGGTTGTCTTTAC	0.468																																																0													309	273	285					3																	74350871		2203	4300	6503	SO:0001583	missense	5067			AB040929	CCDS33790.1	3p12.3	2013-02-11			ENSG00000113805	ENSG00000113805		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	2173	protein-coding gene	gene with protein product		601325		PANG		8661054, 8586965	Standard	XM_005264757		Approved	BIG-1	uc003dpm.1	Q9P232	OTTHUMG00000158813	ENST00000263665.6:c.1872C>A	3.37:g.74350871G>T	ENSP00000263665:p.Asn624Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B9EK50|Q9H039	Missense_Mutation	SNP	ENST00000263665.6	37	CCDS33790.1	.	.	.	.	.	.	.	.	.	.	G	18.24	3.579172	0.65878	.	.	ENSG00000113805	ENST00000263665	T	0.56611	0.45	5.98	2.16	0.27623	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.091203	0.85682	D	0.000000	T	0.71576	0.3356	M	0.89030	3	0.38345	D	0.944171	P	0.46020	0.871	P	0.61132	0.884	T	0.76044	-0.3103	10	0.87932	D	0	.	10.2822	0.43545	0.4578:0.0:0.5422:0.0	.	624	Q9P232	CNTN3_HUMAN	K	624	ENSP00000263665:N624K	ENSP00000263665:N624K	N	-	3	2	CNTN3	74433561	0.972000	0.33761	0.988000	0.46212	0.988000	0.76386	0.098000	0.15189	0.415000	0.25817	0.591000	0.81541	AAC		0.468	CNTN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352306.1	NM_020872		T	74350871	G	T	74350871	3	4	584	1	0	0	0	0	1	0	0	0	3644	1252	44	4	1250	4	CNTN3	3	74350871	Missense_Mutation	SNP	G	TCGA-EV-5902-01A-11D-1589-08	24988532	74350871	123671559	25	34664										
PIK3CB	5291	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	138456588	138456588	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tgatcaccaaaaacatattcTactctcccgctgacttgcaa	4	13	3	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr3:138456588T>C	ENST00000477593.1	-	5	835	c.762A>G	c.(760-762)gtA>gtG	p.V254V	PIK3CB_ENST00000289153.2_Silent_p.V254V			P42338	PK3CB_HUMAN	phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit beta	254	PI3K-RBD. {ECO:0000255|PROSITE- ProRule:PRU00879}.				activation of MAPK activity (GO:0000187)|autophagy (GO:0006914)|blood coagulation (GO:0007596)|cell migration (GO:0016477)|cellular calcium ion homeostasis (GO:0006874)|chemotaxis (GO:0006935)|embryonic cleavage (GO:0040016)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|leukocyte migration (GO:0050900)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet activation (GO:0030168)|platelet aggregation (GO:0070527)|positive regulation of autophagy (GO:0010508)|regulation of cell-matrix adhesion (GO:0001952)|regulation of clathrin-mediated endocytosis (GO:2000369)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|T cell receptor signaling pathway (GO:0050852)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cytosol (GO:0005829)|nucleus (GO:0005634)|phosphatidylinositol 3-kinase complex (GO:0005942)|plasma membrane (GO:0005886)	1-phosphatidylinositol-3-kinase activity (GO:0016303)|1-phosphatidylinositol-4-phosphate 3-kinase activity (GO:0035005)|ATP binding (GO:0005524)|phosphatidylinositol 3-kinase activity (GO:0035004)|phosphatidylinositol-4,5-bisphosphate 3-kinase activity (GO:0046934)			NS(1)|breast(3)|endometrium(5)|kidney(2)|large_intestine(4)|lung(17)|ovary(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(4)	41					Caffeine(DB00201)	AAACATATTCTACTCTCCCGC	0.318																																																0													96	88	91					3																	138456588		2203	4300	6503	SO:0001819	synonymous_variant	5291				CCDS3104.1	3q22.3	2013-09-19	2012-07-13		ENSG00000051382	ENSG00000051382	2.7.1.153		8976	protein-coding gene	gene with protein product		602925	"phosphoinositide-3-kinase, catalytic, beta polypeptide"	PIK3C1		8246984	Standard	NM_006219		Approved		uc011bmq.3	P42338	OTTHUMG00000159893	ENST00000477593.1:c.762A>G	3.37:g.138456588T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DNF0|Q24JU2	Silent	SNP	ENST00000477593.1	37	CCDS3104.1	.	.	.	.	.	.	.	.	.	.	T	0.792	-0.758451	0.03019	.	.	ENSG00000051382	ENST00000462294	.	.	.	5.82	-3.54	0.04653	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-6.8436	11.0692	0.47993	0.1175:0.6147:0.0:0.2678	.	.	.	.	W	122	.	.	X	-	2	0	PIK3CB	139939278	0.887000	0.30362	0.907000	0.35723	0.002000	0.02628	-0.157000	0.10085	-0.658000	0.05366	-1.216000	0.01612	TAG		0.318	PIK3CB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358019.1			C	138456588	T	C	138456588	2	2	584	1	0	0	0	0	0	0	0	1	11921	1509	53	3		3	PIK3CB	3	138456588	Silent	SNP	T	TCGA-EV-5902-01A-11D-1589-08	64105717	138456588	59565842	26	34665										
PARL	55486	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	183551347	183551348	+	Missense_Mutation	DNP	CT	CT	GG													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ccatcccaggatcattcctgCtgtatccatggcgataatgg							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr3:183551347_183551348CT>GG	ENST00000317096.4	-	9	1020_1021	c.960_961AG>CC	c.(958-963)acAGca>acCCca	p.A321P	PARL_ENST00000311101.5_Missense_Mutation_p.A271P|PARL_ENST00000435888.1_Missense_Mutation_p.A237P	NM_018622.5	NP_061092.3	Q9H300	PARL_HUMAN	presenilin associated, rhomboid-like	321					membrane protein proteolysis (GO:0033619)|negative regulation of intrinsic apoptotic signaling pathway (GO:2001243)|negative regulation of release of cytochrome c from mitochondria (GO:0090201)|proteolysis (GO:0006508)|regulation of protein targeting to mitochondrion (GO:1903214)|regulation of reactive oxygen species metabolic process (GO:2000377)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	endopeptidase activity (GO:0004175)|serine-type endopeptidase activity (GO:0004252)			endometrium(2)|large_intestine(3)|liver(1)|lung(6)|prostate(1)|skin(1)|stomach(2)|urinary_tract(1)	17	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.21e-41)|Epithelial(37;1.34e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			ATCATTCCTGCTGTATCCATGG	0.446																																																0																																										SO:0001583	missense	55486			AF116692	CCDS3248.1, CCDS33897.1	3q27.3	2008-02-05		2006-02-28	ENSG00000175193	ENSG00000175193			18253	protein-coding gene	gene with protein product	"rhomboid 7 homolog 1 (Drosophila)"	607858		PSARL			Standard	XM_005247587		Approved	PRO2207, PSARL1, RHBDS1	uc003fmd.3	Q9H300	OTTHUMG00000156890	ENST00000317096.4:c.960_961delinsGG	3.37:g.183551347_183551348delinsGG	ENSP00000325421:p.Ala321Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q96CQ4|Q9BTJ6|Q9P1E3	Missense_Mutation	DNP	ENST00000317096.4	37	CCDS3248.1																																																																																				0.446	PARL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346465.1	NM_018622		GG	183551348	CT	GG	183551347	3	3	584	1	0	0	0	0	1	0	0	0	11458	797	28	4	186	4	PARL	3	183551347	Missense_Mutation	DNP	CT	TCGA-EV-5902-01A-11D-1589-08	45094759	183551347	14471083	27	34666										
RNF168	165918	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	196214405	196214405	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ctctgtatgtattcttcactGgctttgttttcttcttcctc	5	11	5	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr3:196214405G>T	ENST00000318037.3	-	3	1017	c.423C>A	c.(421-423)gcC>gcA	p.A141A		NM_152617.3	NP_689830.2	Q8IYW5	RN168_HUMAN	ring finger protein 168, E3 ubiquitin protein ligase	141	Glu-rich.				cellular response to DNA damage stimulus (GO:0006974)|double-strand break repair (GO:0006302)|histone H2A K63-linked ubiquitination (GO:0070535)|histone H2A monoubiquitination (GO:0035518)|histone H2A-K13 ubiquitination (GO:0036351)|histone H2A-K15 ubiquitination (GO:0036352)|interstrand cross-link repair (GO:0036297)|isotype switching (GO:0045190)|negative regulation of translational elongation (GO:0045900)|positive regulation of DNA repair (GO:0045739)|protein K63-linked ubiquitination (GO:0070534)|protein ubiquitination (GO:0016567)|response to ionizing radiation (GO:0010212)|ubiquitin-dependent protein catabolic process (GO:0006511)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|site of double-strand break (GO:0035861)|ubiquitin ligase complex (GO:0000151)	chromatin binding (GO:0003682)|histone binding (GO:0042393)|K63-linked polyubiquitin binding (GO:0070530)|ligase activity (GO:0016874)|nucleosome binding (GO:0031491)|ubiquitin binding (GO:0043130)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|endometrium(2)|large_intestine(7)|lung(9)|ovary(1)	20	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;5.25e-24)|all cancers(36;5.47e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00348)		ATTCTTCACTGGCTTTGTTTT	0.443																																																0													223	208	213					3																	196214405		2203	4300	6503	SO:0001819	synonymous_variant	165918			AK054732	CCDS3317.1	3q29	2014-09-17	2012-02-23		ENSG00000163961	ENSG00000163961		"RING-type (C3HC4) zinc fingers"	26661	protein-coding gene	gene with protein product		612688	"ring finger protein 168"			12477932	Standard	NM_152617		Approved	FLJ35794	uc003fwq.3	Q8IYW5	OTTHUMG00000155582	ENST00000318037.3:c.423C>A	3.37:g.196214405G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NA67|Q96NS4	Silent	SNP	ENST00000318037.3	37	CCDS3317.1																																																																																				0.443	RNF168-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340778.1	NM_152617		T	196214405	G	T	196214405	2	4	584	1	0	0	0	0	0	0	0	1	13472	1335	47	4		4	RNF168	3	196214405	Silent	SNP	G	TCGA-EV-5902-01A-11D-1589-08	12663058	196214405	1808025	28	34667										
DRD5	1816	hgsc.bcm.edu	37	chr4	9784112	9784112	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	cgctacaagcgcaagatgacTcagcgcatggccttggtcat	11	12	2	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr4:9784112T>C	ENST00000304374.2	+	1	855	c.459T>C	c.(457-459)acT>acC	p.T153T		NM_000798.4	NP_000789.1	P21918	DRD5_HUMAN	dopamine receptor D5	153					activation of adenylate cyclase activity (GO:0007190)|adenylate cyclase-activating dopamine receptor signaling pathway (GO:0007191)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|associative learning (GO:0008306)|cellular calcium ion homeostasis (GO:0006874)|cellular response to catecholamine stimulus (GO:0071870)|long term synaptic depression (GO:0060292)|negative regulation of blood pressure (GO:0045776)|negative regulation of NAD(P)H oxidase activity (GO:0033861)|norepinephrine-epinephrine vasoconstriction involved in regulation of systemic arterial blood pressure (GO:0001994)|phospholipase C-activating dopamine receptor signaling pathway (GO:0060158)|positive regulation of adenylate cyclase activity (GO:0045762)|positive regulation of adenylate cyclase activity involved in G-protein coupled receptor signaling pathway (GO:0010579)|reactive oxygen species metabolic process (GO:0072593)|regulation of female receptivity (GO:0045924)|regulation of systemic arterial blood pressure by vasopressin (GO:0001992)|response to amphetamine (GO:0001975)|response to cocaine (GO:0042220)|sensitization (GO:0046960)|synaptic transmission (GO:0007268)|synaptic transmission, dopaminergic (GO:0001963)|transmission of nerve impulse (GO:0019226)|wound healing (GO:0042060)	brush border membrane (GO:0031526)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	dopamine binding (GO:0035240)|dopamine neurotransmitter receptor activity (GO:0004952)|dopamine neurotransmitter receptor activity, coupled via Gs (GO:0001588)			NS(2)|endometrium(8)|kidney(4)|large_intestine(8)|lung(22)|prostate(7)|skin(3)|stomach(2)|urinary_tract(1)	57					Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Cabergoline(DB00248)|Chlorpromazine(DB00477)|Cinnarizine(DB00568)|Dopamine(DB00988)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Imipramine(DB00458)|L-DOPA(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Pergolide(DB01186)|Pramipexole(DB00413)|Quetiapine(DB01224)|Ropinirole(DB00268)|Rotigotine(DB05271)|Trimipramine(DB00726)|Ziprasidone(DB00246)	GCAAGATGACTCAGCGCATGG	0.602																																																0													38	37	37					4																	9784112		2203	4300	6503	SO:0001819	synonymous_variant	1816			X58454	CCDS3405.1	4p16.1	2012-08-08			ENSG00000169676	ENSG00000169676		"GPCR / Class A : Dopamine receptors"	3026	protein-coding gene	gene with protein product		126453		DRD1L2		1774076	Standard	NM_000798		Approved	DRD1B	uc003gmb.4	P21918	OTTHUMG00000128489	ENST00000304374.2:c.459T>C	4.37:g.9784112T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9S3|Q8NEQ8	Silent	SNP	ENST00000304374.2	37	CCDS3405.1																																																																																				0.602	DRD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250293.1			C	9784112	T	C	9784112	2	2	584	1	0	0	0	0	0	0	0	1	4762	1538	54	3		3	DRD5	4	9784112	Silent	SNP	T	TCGA-EV-5902-01A-11D-1589-08		9784112	181370164	29	34668										
TLR6	10333	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr4	38830116	38830116	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	aatgttcatctcagaaaacaCggtgtacaaagctgtctgtg	9	8	3	1	rs3796508	byFrequency	TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr4:38830116C>A	ENST00000381950.1	-	1	1044	c.979G>T	c.(979-981)Gtg>Ttg	p.V327L	TLR6_ENST00000436693.2_Missense_Mutation_p.V327L			Q9Y2C9	TLR6_HUMAN	toll-like receptor 6	327			V -> M (in dbSNP:rs3796508). {ECO:0000269|PubMed:21618349, ECO:0000269|Ref.3}.		activation of NF-kappaB-inducing kinase activity (GO:0007250)|cellular response to diacyl bacterial lipopeptide (GO:0071726)|defense response to bacterium (GO:0042742)|detection of diacyl bacterial lipopeptide (GO:0042496)|immune response (GO:0006955)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|microglial cell activation involved in immune response (GO:0002282)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|nitric oxide metabolic process (GO:0046209)|pathogen-associated molecular pattern dependent induction by symbiont of host innate immune response (GO:0052033)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interleukin-6 biosynthetic process (GO:0045410)|positive regulation of JUN kinase activity (GO:0043507)|regulation of cytokine secretion (GO:0050707)|signal transduction (GO:0007165)|T-helper 1 type immune response (GO:0042088)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 6 signaling pathway (GO:0034150)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)	cytoplasmic vesicle (GO:0031410)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|Toll-like receptor 2-Toll-like receptor 6 protein complex (GO:0035355)	diacyl lipopeptide binding (GO:0042498)|lipopeptide binding (GO:0071723)|receptor activity (GO:0004872)|transmembrane signaling receptor activity (GO:0004888)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(7)|ovary(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	22						TCAGAAAACACGGTGTACAAA	0.343																																																0													68	72	71					4																	38830116		2203	4300	6503	SO:0001583	missense	10333				CCDS3446.1	4p16.1	2009-11-23			ENSG00000174130	ENSG00000174130		"CD molecules"	16711	protein-coding gene	gene with protein product		605403				10231569	Standard	NM_006068		Approved	CD286	uc010ifg.2	Q9Y2C9	OTTHUMG00000128579	ENST00000381950.1:c.979G>T	4.37:g.38830116C>A	ENSP00000371376:p.Val327Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3Y640|B6CH35|B6RFS4|B6RFS5|Q2NKL3	Missense_Mutation	SNP	ENST00000381950.1	37	CCDS3446.1	.	.	.	.	.	.	.	.	.	.	C	0.011	-1.699200	0.00725	.	.	ENSG00000174130	ENST00000436693;ENST00000381950;ENST00000508542	T;T	0.07216	3.21;3.21	5.08	0.624	0.17659	.	0.875863	0.09937	N	0.736454	T	0.03959	0.0111	N	0.22421	0.69	0.09310	N	0.999999	B	0.02656	0.0	B	0.04013	0.001	T	0.46400	-0.9194	10	0.07482	T	0.82	.	0.9789	0.01432	0.1458:0.2038:0.2868:0.3636	.	327	Q9Y2C9	TLR6_HUMAN	L	327	ENSP00000389600:V327L;ENSP00000371376:V327L	ENSP00000371376:V327L	V	-	1	0	TLR6	38506511	0.000000	0.05858	0.152000	0.22495	0.301000	0.27625	-0.736000	0.04882	0.168000	0.19655	0.491000	0.48974	GTG		0.343	TLR6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250431.1			A	38830116	C	A	38830116	3	1	584	1	0	0	0	0	1	0	0	0	15967	536	19	4	1415	4	TLR6	4	38830116	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	29046004	38830116	152324160	30	34669										
YTHDC1	91746	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	69203291	69203291	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ctgcaataatatttactaccTcagaaccatctggcgtagga	7	10	2	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr4:69203291T>G	ENST00000344157.4	-	3	793	c.458A>C	c.(457-459)gAg>gCg	p.E153A	YTHDC1_ENST00000579690.1_Splice_Site_p.E153A|YTHDC1_ENST00000355665.3_Splice_Site_p.E153A	NM_001031732.2	NP_001026902.1	Q96MU7	YTDC1_HUMAN	YTH domain containing 1	153					mRNA splice site selection (GO:0006376)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(10)|lung(7)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)	30						ATTTACTACCTCAGAACCATC	0.403																																																0													48	47	47					4																	69203291		2200	4300	6500	SO:0001630	splice_region_variant	91746			AK098515	CCDS3522.2, CCDS33992.1	4q13.3	2009-01-14			ENSG00000083896	ENSG00000083896			30626	protein-coding gene	gene with protein product						12368078, 10564280	Standard	XM_005265706		Approved	YT521, KIAA1966, YT521-B	uc003hdx.3	Q96MU7	OTTHUMG00000129306	ENST00000344157.4:c.459+1A>C	4.37:g.69203291T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5Q3|Q7Z622|Q8TF35	Missense_Mutation	SNP	ENST00000344157.4	37	CCDS33992.1	.	.	.	.	.	.	.	.	.	.	T	13.61	2.287484	0.40494	.	.	ENSG00000083896	ENST00000344157;ENST00000355665	T;T	0.30448	1.68;1.53	5.29	5.29	0.74685	.	0.369189	0.29396	N	0.012273	T	0.24084	0.0583	L	0.27053	0.805	0.52099	D	0.999947	B;B	0.32573	0.376;0.0	B;B	0.34722	0.188;0.001	T	0.06826	-1.0805	10	0.49607	T	0.09	.	11.8336	0.52309	0.0:0.0:0.1463:0.8537	.	153;153	Q96MU7-2;Q96MU7	.;YTDC1_HUMAN	A	153	ENSP00000339245:E153A;ENSP00000347888:E153A	ENSP00000339245:E153A	E	-	2	0	YTHDC1	68885886	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	4.195000	0.58400	1.981000	0.57761	0.477000	0.44152	GAG		0.403	YTHDC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251437.1	NM_133370	Missense_Mutation	G	69203291	T	G	69203291	5	3	584	1	0	0	0	0	0	0	1	0	17508	1565	54	5	1785	5	YTHDC1	4	69203291	Splice_Site	SNP	T	TCGA-EV-5902-01A-11D-1589-08	30373175	69203291	121950985	31	34670										
ENAM	10117	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	71510231	71510231	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	cacctgatgaaggctccaatCcagaaggcatccaaagtcaa	8	12	1	3			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr4:71510231C>T	ENST00000396073.3	+	9	3369	c.3088C>T	c.(3088-3090)Cca>Tca	p.P1030S	ENAM_ENST00000472903.1_Intron	NM_031889.2	NP_114095.2	Q9NRM1	ENAM_HUMAN	enamelin	1030					amelogenesis (GO:0097186)|biomineral tissue development (GO:0031214)	proteinaceous extracellular matrix (GO:0005578)				haematopoietic_and_lymphoid_tissue(1)|ovary(3)|upper_aerodigestive_tract(2)	6			Lung(101;0.235)			AGGCTCCAATCCAGAAGGCAT	0.433																																																0													119	104	109					4																	71510231		2203	4300	6503	SO:0001583	missense	10117			AF125373	CCDS3544.2	4q13.3	2008-02-05			ENSG00000132464	ENSG00000132464			3344	protein-coding gene	gene with protein product		606585	"amelogenesis imperfecta 2, hypocalcification (autosomal dominant)"	AIH2		11978766	Standard	NM_031889		Approved		uc011caw.1	Q9NRM1	OTTHUMG00000129914	ENST00000396073.3:c.3088C>T	4.37:g.71510231C>T	ENSP00000379383:p.Pro1030Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RI5|Q9H3D1	Missense_Mutation	SNP	ENST00000396073.3	37	CCDS3544.2	.	.	.	.	.	.	.	.	.	.	C	10.67	1.416036	0.25552	.	.	ENSG00000132464	ENST00000396073	T	0.37411	1.2	5.97	5.11	0.69529	.	0.116712	0.39407	N	0.001380	T	0.49660	0.1570	M	0.81802	2.56	0.30657	N	0.754852	P	0.50272	0.933	P	0.49477	0.612	T	0.60596	-0.7232	10	0.62326	D	0.03	-10.6665	12.7104	0.57086	0.1631:0.8369:0.0:0.0	.	1030	Q9NRM1	ENAM_HUMAN	S	1030	ENSP00000379383:P1030S	ENSP00000379383:P1030S	P	+	1	0	ENAM	71729095	0.747000	0.28283	0.848000	0.33437	0.024000	0.10985	1.284000	0.33249	2.836000	0.97738	0.655000	0.94253	CCA		0.433	ENAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252166.3	NM_031889		T	71510231	C	T	71510231	3	4	584	1	0	0	0	0	1	0	0	0	5114	855	30	2	3118	2	ENAM	4	71510231	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	2306940	71510231	119644045	32	34671										
ANXA3	306	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	79512751	79512751	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ccgaaacatctggtgacttcCggaaagctctgttgactttg	10	10	2	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr4:79512751C>T	ENST00000264908.6	+	7	836	c.457C>T	c.(457-459)Cgg>Tgg	p.R153W	ANXA3_ENST00000503570.2_Missense_Mutation_p.R114W|ANXA3_ENST00000512884.1_Missense_Mutation_p.R114W	NM_005139.2	NP_005130.1	P12429	ANXA3_HUMAN	annexin A3	153					defense response to bacterium (GO:0042742)|neutrophil degranulation (GO:0043312)|phagocytosis (GO:0006909)|positive regulation of angiogenesis (GO:0045766)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)|specific granule (GO:0042581)	calcium ion binding (GO:0005509)|calcium-dependent phospholipid binding (GO:0005544)|calcium-dependent protein binding (GO:0048306)|phospholipase A2 inhibitor activity (GO:0019834)			NS(1)|breast(1)|kidney(1)|large_intestine(1)|lung(7)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	15						TGGTGACTTCCGGAAAGCTCT	0.343																																					GBM(2;126 157 27790 28920 42492)											0													135	139	138					4																	79512751		2203	4300	6503	SO:0001583	missense	306			M63310	CCDS3584.1	4q21.21	2009-07-10			ENSG00000138772	ENSG00000138772	3.1.4.43	"Annexins"	541	protein-coding gene	gene with protein product		106490		ANX3		1830024	Standard	XM_005262973		Approved		uc003hld.3	P12429	OTTHUMG00000130198	ENST00000264908.6:c.457C>T	4.37:g.79512751C>T	ENSP00000264908:p.Arg153Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9W6|Q6LET2	Missense_Mutation	SNP	ENST00000264908.6	37	CCDS3584.1	.	.	.	.	.	.	.	.	.	.	C	21.4	4.142653	0.77888	.	.	ENSG00000138772	ENST00000264908;ENST00000512884;ENST00000503570;ENST00000514171	T;T;T;T	0.03831	3.79;3.79;3.79;3.79	5.21	4.3	0.51218	Annexin repeat, conserved site (1);	0.348448	0.28901	N	0.013775	T	0.23410	0.0566	M	0.90759	3.145	0.46260	D	0.998954	D	0.89917	1.0	D	0.69142	0.962	T	0.00593	-1.1654	10	0.87932	D	0	.	10.6705	0.45755	0.3225:0.6775:0.0:0.0	.	153	P12429	ANXA3_HUMAN	W	153;114;114;153	ENSP00000264908:R153W;ENSP00000423068:R114W;ENSP00000421015:R114W;ENSP00000421512:R153W	ENSP00000264908:R153W	R	+	1	2	ANXA3	79731775	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	1.345000	0.33953	2.708000	0.92522	0.585000	0.79938	CGG		0.343	ANXA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252516.3	NM_005139		T	79512751	C	T	79512751	3	4	584	1	0	0	0	0	1	0	0	0	719	643	23	1	479	1	ANXA3	4	79512751	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	8002520	79512751	111641525	33	34672										
MTRR	4552	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	7873543	7873543	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tggtttctaccacgggcaccGgagacccacccgacacagcc	10	17	1	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr5:7873543G>A	ENST00000264668.2	+	3	298	c.268G>A	c.(268-270)Gga>Aga	p.G90R	MTRR_ENST00000440940.2_Missense_Mutation_p.G63R|MTRR_ENST00000341013.6_Intron|MTRR_ENST00000502509.1_Intron	NM_002454.2|NM_024010.2	NP_002445.2|NP_076915.2	Q9UBK8	MTRR_HUMAN	5-methyltetrahydrofolate-homocysteine methyltransferase reductase	90	Flavodoxin-like. {ECO:0000255|PROSITE- ProRule:PRU00088}.				cellular nitrogen compound metabolic process (GO:0034641)|cobalamin metabolic process (GO:0009235)|DNA methylation (GO:0006306)|folic acid metabolic process (GO:0046655)|methionine biosynthetic process (GO:0009086)|methionine metabolic process (GO:0006555)|methylation (GO:0032259)|oxidation-reduction process (GO:0055114)|small molecule metabolic process (GO:0044281)|sulfur amino acid metabolic process (GO:0000096)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intermediate filament cytoskeleton (GO:0045111)|nucleus (GO:0005634)	[methionine synthase] reductase activity (GO:0030586)|flavin adenine dinucleotide binding (GO:0050660)|FMN binding (GO:0010181)|iron ion binding (GO:0005506)|NADP binding (GO:0050661)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen (GO:0016709)|oxidoreductase activity, oxidizing metal ions, NAD or NADP as acceptor (GO:0016723)			NS(1)|breast(3)|endometrium(2)|kidney(1)|large_intestine(4)|liver(1)|lung(14)|ovary(1)|prostate(3)|stomach(1)	31					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	CACGGGCACCGGAGACCCACC	0.478																																																0													158	161	160					5																	7873543		2203	4300	6503	SO:0001583	missense	4552			AF025794	CCDS3874.1, CCDS47190.1	5p15.31	2011-05-12			ENSG00000124275	ENSG00000124275	1.16.1.8		7473	protein-coding gene	gene with protein product		602568				9501215	Standard	NM_024010		Approved	cblE	uc003jed.3	Q9UBK8	OTTHUMG00000090477	ENST00000264668.2:c.268G>A	5.37:g.7873543G>A	ENSP00000264668:p.Gly90Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O60471|Q32MA9|Q7Z4M8	Missense_Mutation	SNP	ENST00000264668.2	37	CCDS3874.1	.	.	.	.	.	.	.	.	.	.	G	26.1	4.701195	0.88924	.	.	ENSG00000124275	ENST00000264668;ENST00000440940;ENST00000502550;ENST00000512217	D;D;D;D	0.92911	-3.13;-3.13;-3.13;-3.13	5.67	4.8	0.61643	Flavodoxin/nitric oxide synthase (2);	0.000000	0.85682	D	0.000000	D	0.97698	0.9245	H	0.98446	4.235	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.98911	1.0780	10	0.87932	D	0	-22.8766	14.7195	0.69294	0.0693:0.0:0.9307:0.0	.	90	Q9UBK8	MTRR_HUMAN	R	90;63;63;63	ENSP00000264668:G90R;ENSP00000402510:G63R;ENSP00000424599:G63R;ENSP00000421318:G63R	ENSP00000264668:G90R	G	+	1	0	MTRR	7926543	1.000000	0.71417	0.874000	0.34290	0.973000	0.67179	7.942000	0.87708	1.405000	0.46838	0.655000	0.94253	GGA		0.478	MTRR-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000206931.1			A	7873543	G	A	7873543	3	1	584	1	0	0	0	0	1	0	0	0	9968	1117	39	1	278	1	MTRR	5	7873543	Missense_Mutation	SNP	G	TCGA-EV-5902-01A-11D-1589-08		7873543	173041717	34	34673										
TRIO	7204	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	14471560	14471560	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ggaagaaaggaaatccagctCtttaaagagaagacagtaag	11	5	1	3			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr5:14471560C>T	ENST00000344204.4	+	38	5921	c.5897C>T	c.(5896-5898)tCt>tTt	p.S1966F	TRIO_ENST00000537187.1_Missense_Mutation_p.S1966F	NM_007118.2	NP_009049.2	O75962	TRIO_HUMAN	trio Rho guanine nucleotide exchange factor	1966					apoptotic signaling pathway (GO:0097190)|axon guidance (GO:0007411)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	cytosol (GO:0005829)	ATP binding (GO:0005524)|guanyl-nucleotide exchange factor activity (GO:0005085)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(2)|breast(6)|central_nervous_system(4)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(21)|lung(34)|ovary(4)|prostate(2)|skin(11)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(4)	118	Lung NSC(4;0.000742)					AAATCCAGCTCTTTAAAGAGA	0.438																																																0													73	70	71					5																	14471560		2203	4300	6503	SO:0001583	missense	7204			AF091395	CCDS3883.1	5p14-p15.1	2013-01-11	2012-07-12		ENSG00000038382	ENSG00000038382		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing"	12303	protein-coding gene	gene with protein product		601893	"triple functional domain (PTPRF interacting)"			8643598	Standard	NM_007118		Approved	ARHGEF23	uc003jff.3	O75962	OTTHUMG00000131057	ENST00000344204.4:c.5897C>T	5.37:g.14471560C>T	ENSP00000339299:p.Ser1966Phe	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTD1|Q13458|Q59EQ7|Q6PJC9|Q6ZN05|Q8IWK8	Missense_Mutation	SNP	ENST00000344204.4	37	CCDS3883.1	.	.	.	.	.	.	.	.	.	.	C	15.79	2.936293	0.52972	.	.	ENSG00000038382	ENST00000344204;ENST00000537187;ENST00000513206;ENST00000541447	T;T	0.68479	-0.33;-0.33	5.39	5.39	0.77823	Dbl homology (DH) domain (2);	0.056462	0.64402	D	0.000001	T	0.48150	0.1484	N	0.03608	-0.345	0.47737	D	0.999501	B;B	0.14805	0.011;0.0	B;B	0.15052	0.012;0.001	T	0.45293	-0.9271	10	0.52906	T	0.07	.	19.2167	0.93781	0.0:1.0:0.0:0.0	.	1966;1966	O75962-5;O75962	.;TRIO_HUMAN	F	1966;1966;1653;46	ENSP00000339299:S1966F;ENSP00000446348:S1966F	ENSP00000339299:S1966F	S	+	2	0	TRIO	14524560	1.000000	0.71417	0.951000	0.38953	0.965000	0.64279	5.667000	0.68067	2.537000	0.85549	0.650000	0.86243	TCT		0.438	TRIO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253711.2	NM_007118		T	14471560	C	T	14471560	3	4	584	1	0	0	0	0	1	0	0	0	16564	913	32	2	6047	2	TRIO	5	14471560	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	6598017	14471560	166443700	35	34674										
RICTOR	253260	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	38954924	38954924	+	Nonsense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ttatggtgtactagttgtccAtaaaggtgtataggcaggta	12	4	0	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr5:38954924A>C	ENST00000357387.3	-	27	2679	c.2649T>G	c.(2647-2649)taT>taG	p.Y883*	RICTOR_ENST00000296782.5_Nonsense_Mutation_p.Y883*|RICTOR_ENST00000503698.1_5'UTR	NM_152756.3	NP_689969.2			RPTOR independent companion of MTOR, complex 2											NS(1)|breast(4)|central_nervous_system(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(14)|lung(33)|ovary(3)|prostate(3)|skin(5)	75	all_lung(31;0.000396)					CTAGTTGTCCATAAAGGTGTA	0.313																																																0													121	118	119					5																	38954924		2203	4300	6503	SO:0001587	stop_gained	253260				CCDS34148.1, CCDS68861.1	5p13.1	2009-07-09			ENSG00000164327	ENSG00000164327			28611	protein-coding gene	gene with protein product	"rapamycin-insensitive companion of mTOR", "pianissimo"	609022				12477932	Standard	XM_005248278		Approved	MGC39830, AVO3, PIA, KIAA1999	uc003jlp.2	Q6R327	OTTHUMG00000162037	ENST00000357387.3:c.2649T>G	5.37:g.38954924A>C	ENSP00000349959:p.Tyr883*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000357387.3	37	CCDS34148.1	.	.	.	.	.	.	.	.	.	.	A	38	7.042770	0.98021	.	.	ENSG00000164327	ENST00000357387;ENST00000296782	.	.	.	5.79	3.38	0.38709	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-16.3188	9.8756	0.41202	0.8005:0.0:0.1995:0.0	.	.	.	.	X	883	.	ENSP00000296782:Y883X	Y	-	3	2	RICTOR	38990681	1.000000	0.71417	1.000000	0.80357	0.953000	0.61014	2.863000	0.48396	0.449000	0.26747	0.477000	0.44152	TAT		0.313	RICTOR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366985.1	NM_152756		C	38954924	A	C	38954924	4	2	584	1	0	0	0	0	0	1	0	0	13371	224	8	5	2525	5	RICTOR	5	38954924	Nonsense_Mutation	SNP	A	TCGA-EV-5902-01A-11D-1589-08	24483364	38954924	141960336	36	34675										
PIK3R1	5295	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	67588178	67588178	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gatgctgaatggtactggggAgatatctcgaggtaaggcta	15	5	1	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr5:67588178A>G	ENST00000521381.1	+	8	1624	c.1008A>G	c.(1006-1008)ggA>ggG	p.G336G	PIK3R1_ENST00000396611.1_Silent_p.G336G|PIK3R1_ENST00000274335.5_Silent_p.G336G|PIK3R1_ENST00000521657.1_Silent_p.G336G|PIK3R1_ENST00000523872.1_5'Flank|PIK3R1_ENST00000336483.5_Silent_p.G66G|PIK3R1_ENST00000320694.8_Silent_p.G36G	NM_181523.2	NP_852664.1	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1 (alpha)	336	SH2 1. {ECO:0000255|PROSITE- ProRule:PRU00191}.				B cell differentiation (GO:0030183)|blood coagulation (GO:0007596)|cellular response to UV (GO:0034644)|epidermal growth factor receptor signaling pathway (GO:0007173)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|growth hormone receptor signaling pathway (GO:0060396)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|insulin-like growth factor receptor signaling pathway (GO:0048009)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|leukocyte migration (GO:0050900)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of osteoclast differentiation (GO:0045671)|neurotrophin TRK receptor signaling pathway (GO:0048011)|NFAT protein import into nucleus (GO:0051531)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol phosphorylation (GO:0046854)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet activation (GO:0030168)|positive regulation of cell migration (GO:0030335)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of glucose import (GO:0046326)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor production (GO:0032760)|protein phosphorylation (GO:0006468)|regulation of phosphatidylinositol 3-kinase activity (GO:0043551)|small molecule metabolic process (GO:0044281)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)|viral process (GO:0016032)	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex (GO:0005943)|cell-cell junction (GO:0005911)|cytosol (GO:0005829)|membrane (GO:0016020)|phosphatidylinositol 3-kinase complex (GO:0005942)|plasma membrane (GO:0005886)	ErbB-3 class receptor binding (GO:0043125)|insulin binding (GO:0043559)|insulin receptor binding (GO:0005158)|insulin receptor substrate binding (GO:0043560)|insulin-like growth factor receptor binding (GO:0005159)|neurotrophin TRKA receptor binding (GO:0005168)|phosphatidylinositol 3-kinase binding (GO:0043548)|phosphatidylinositol 3-kinase regulator activity (GO:0035014)|protein phosphatase binding (GO:0019903)|transmembrane receptor protein tyrosine kinase adaptor activity (GO:0005068)	p.0?(1)|p.?(1)		breast(12)|central_nervous_system(31)|cervix(1)|endometrium(68)|haematopoietic_and_lymphoid_tissue(5)|kidney(1)|large_intestine(32)|lung(10)|ovary(9)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	178		Lung NSC(167;1.99e-05)|Prostate(74;0.00308)|Ovarian(174;0.00473)|Colorectal(97;0.0176)		OV - Ovarian serous cystadenocarcinoma(47;3.76e-51)|Lung(70;0.0211)	Isoprenaline(DB01064)	GGTACTGGGGAGATATCTCGA	0.393			"Mis, F, O"		"gliobastoma, ovarian, colorectal"					TCGA GBM(4;<1E-08)																													Rec	yes		5	5q13.1	5295	"phosphoinositide-3-kinase, regulatory subunit 1 (alpha)"		"E, O"	2	Whole gene deletion(1)|Unknown(1)	large_intestine(1)|lung(1)											153	143	146					5																	67588178		2203	4300	6503	SO:0001819	synonymous_variant	5295			M61906	CCDS3993.1, CCDS3994.1, CCDS3995.1, CCDS56374.1	5q13.1	2014-09-17	2008-02-04		ENSG00000145675	ENSG00000145675		"SH2 domain containing"	8979	protein-coding gene	gene with protein product		171833				1314371, 18387942	Standard	NM_181524		Approved	GRB1, p85-ALPHA, p85	uc003jva.3	P27986	OTTHUMG00000131251	ENST00000521381.1:c.1008A>G	5.37:g.67588178A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KT19|D3DWA0|E7EX19|Q15747|Q4VBZ7|Q53EM6|Q8IXA2|Q8N1C5	Silent	SNP	ENST00000521381.1	37	CCDS3993.1																																																																																				0.393	PIK3R1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254013.2	NM_181504		G	67588178	A	G	67588178	2	3	584	1	0	0	0	0	0	0	0	1	11925	291	11	3		3	PIK3R1	5	67588178	Silent	SNP	A	TCGA-EV-5902-01A-11D-1589-08	28633254	67588178	113327082	37	34676										
PIK3R1	5295	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	67591286	67591286	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tgttcggcaaaagaagttgaAcgagtggttgggcaatgaaa	14	4	0	3			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr5:67591286A>T	ENST00000521381.1	+	14	2400	c.1784A>T	c.(1783-1785)aAc>aTc	p.N595I	PIK3R1_ENST00000396611.1_Missense_Mutation_p.N595I|PIK3R1_ENST00000274335.5_Missense_Mutation_p.N595I|PIK3R1_ENST00000521657.1_Missense_Mutation_p.N595I|PIK3R1_ENST00000523872.1_Missense_Mutation_p.N232I|PIK3R1_ENST00000336483.5_Missense_Mutation_p.N325I|PIK3R1_ENST00000320694.8_Missense_Mutation_p.N295I	NM_181523.2	NP_852664.1	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1 (alpha)	595					B cell differentiation (GO:0030183)|blood coagulation (GO:0007596)|cellular response to UV (GO:0034644)|epidermal growth factor receptor signaling pathway (GO:0007173)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|growth hormone receptor signaling pathway (GO:0060396)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|insulin-like growth factor receptor signaling pathway (GO:0048009)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|leukocyte migration (GO:0050900)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of osteoclast differentiation (GO:0045671)|neurotrophin TRK receptor signaling pathway (GO:0048011)|NFAT protein import into nucleus (GO:0051531)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol phosphorylation (GO:0046854)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet activation (GO:0030168)|positive regulation of cell migration (GO:0030335)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of glucose import (GO:0046326)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor production (GO:0032760)|protein phosphorylation (GO:0006468)|regulation of phosphatidylinositol 3-kinase activity (GO:0043551)|small molecule metabolic process (GO:0044281)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)|viral process (GO:0016032)	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex (GO:0005943)|cell-cell junction (GO:0005911)|cytosol (GO:0005829)|membrane (GO:0016020)|phosphatidylinositol 3-kinase complex (GO:0005942)|plasma membrane (GO:0005886)	ErbB-3 class receptor binding (GO:0043125)|insulin binding (GO:0043559)|insulin receptor binding (GO:0005158)|insulin receptor substrate binding (GO:0043560)|insulin-like growth factor receptor binding (GO:0005159)|neurotrophin TRKA receptor binding (GO:0005168)|phosphatidylinositol 3-kinase binding (GO:0043548)|phosphatidylinositol 3-kinase regulator activity (GO:0035014)|protein phosphatase binding (GO:0019903)|transmembrane receptor protein tyrosine kinase adaptor activity (GO:0005068)	p.M582_D605>I(4)|p.Y580fs*1(1)|p.0?(1)|p.?(1)		breast(12)|central_nervous_system(31)|cervix(1)|endometrium(68)|haematopoietic_and_lymphoid_tissue(5)|kidney(1)|large_intestine(32)|lung(10)|ovary(9)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	178		Lung NSC(167;1.99e-05)|Prostate(74;0.00308)|Ovarian(174;0.00473)|Colorectal(97;0.0176)		OV - Ovarian serous cystadenocarcinoma(47;3.76e-51)|Lung(70;0.0211)	Isoprenaline(DB01064)	AAGAAGTTGAACGAGTGGTTG	0.368			"Mis, F, O"		"gliobastoma, ovarian, colorectal"					TCGA GBM(4;<1E-08)																													Rec	yes		5	5q13.1	5295	"phosphoinositide-3-kinase, regulatory subunit 1 (alpha)"		"E, O"	7	Complex - deletion inframe(4)|Whole gene deletion(1)|Deletion - Frameshift(1)|Unknown(1)	large_intestine(4)|lung(1)|ovary(1)|central_nervous_system(1)											152	156	155					5																	67591286		2203	4300	6503	SO:0001583	missense	5295			M61906	CCDS3993.1, CCDS3994.1, CCDS3995.1, CCDS56374.1	5q13.1	2014-09-17	2008-02-04		ENSG00000145675	ENSG00000145675		"SH2 domain containing"	8979	protein-coding gene	gene with protein product		171833				1314371, 18387942	Standard	NM_181524		Approved	GRB1, p85-ALPHA, p85	uc003jva.3	P27986	OTTHUMG00000131251	ENST00000521381.1:c.1784A>T	5.37:g.67591286A>T	ENSP00000428056:p.Asn595Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B3KT19|D3DWA0|E7EX19|Q15747|Q4VBZ7|Q53EM6|Q8IXA2|Q8N1C5	Missense_Mutation	SNP	ENST00000521381.1	37	CCDS3993.1	.	.	.	.	.	.	.	.	.	.	A	25.0	4.587453	0.86851	.	.	ENSG00000145675	ENST00000521381;ENST00000521657;ENST00000396611;ENST00000274335;ENST00000320694;ENST00000336483;ENST00000523872	T;T;T;T;T;T;T	0.31510	1.49;1.49;1.49;1.49;1.49;1.49;1.49	4.84	4.84	0.62591	.	0.042090	0.85682	D	0.000000	T	0.57257	0.2041	M	0.82923	2.615	0.80722	D	1	D;P;P;D	0.67145	0.991;0.811;0.901;0.996	P;P;P;D	0.67725	0.892;0.844;0.844;0.953	T	0.65084	-0.6254	10	0.87932	D	0	-28.7516	14.6086	0.68498	1.0:0.0:0.0:0.0	.	265;325;295;595	B7Z2N8;P27986-2;P27986-3;P27986	.;.;.;P85A_HUMAN	I	595;595;595;595;295;325;232	ENSP00000428056:N595I;ENSP00000429277:N595I;ENSP00000379855:N595I;ENSP00000274335:N595I;ENSP00000323512:N295I;ENSP00000338554:N325I;ENSP00000430098:N232I	ENSP00000274335:N595I	N	+	2	0	PIK3R1	67627042	1.000000	0.71417	0.997000	0.53966	0.929000	0.56500	9.087000	0.94110	2.036000	0.60181	0.377000	0.23210	AAC		0.368	PIK3R1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254013.2	NM_181504		T	67591286	A	T	67591286	3	4	584	1	0	0	0	0	1	0	0	0	11925	43	2	5	1964	5	PIK3R1	5	67591286	Missense_Mutation	SNP	A	TCGA-EV-5902-01A-11D-1589-08	3108	67591286	113323974	38	34677										
C5orf36	285600	broad.mit.edu;bcgsc.ca	37	chr5	93856355	93856362	+	Frame_Shift_Del	DEL	AAATTTTT	AAATTTTT	-													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	taagcactgctttttcaataAaattttttgctgtgaattgt							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	AAATTTTT	AAATTTTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr5:93856355_93856362delAAATTTTT	ENST00000329378.7	-	5	810_817	c.561_568delAAAAATTT	c.(559-570)caaaaaattttafs	p.QKIL187fs	KIAA0825_ENST00000513200.3_Frame_Shift_Del_p.QKIL187fs|KIAA0825_ENST00000312498.7_Frame_Shift_Del_p.QKIL187fs|KIAA0825_ENST00000427991.2_Frame_Shift_Del_p.QKIL187fs	NM_173665.2	NP_775936.1	Q8IV33	K0825_HUMAN	KIAA0825	187										breast(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(1)|pancreas(1)|prostate(1)|skin(1)	13						TTTTTCAATAAAATTTTTTGCTGTGAAT	0.322																																																0																																										SO:0001589	frameshift_variant	285600			BX648338	CCDS4070.1	5q15	2011-02-23	2011-02-23	2011-02-23	ENSG00000185261	ENSG00000185261			28532	protein-coding gene	gene with protein product			"chromosome 5 open reading frame 36"	C5orf36		12477932	Standard	NM_173665		Approved	DKFZp686F0372, MGC34713	uc011cuk.2	Q8IV33	OTTHUMG00000131331	ENST00000329378.7:c.561_568delAAAAATTT	5.37:g.93856355_93856362delAAATTTTT	ENSP00000331385:p.Gln187fs	Somatic		WXS	Illumina HiSeq	Phase_I	O94914|Q6ZNN2	Frame_Shift_Del	DEL	ENST00000329378.7	37	CCDS4070.1																																																																																				0.322	KIAA0825-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371180.2	NM_173665		-	93856362	AAATTTTT	-	93856355	7	5	584	1	0	1	0	1	0	0	0	0	2297	11	1	0	3332	0	C5orf36	5	93856355	Frame_Shift_Del	DEL	AAATTTTT	TCGA-EV-5902-01A-11D-1589-08	26265069	93856355	87058905	39	34678	263	2								
C5orf36	285600	bcgsc.ca	37	chr5	93856363	93856363	+	Missense_Mutation	SNP	T	T	C													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gctttttcaataaaatttttTgctgtgaattgtttatttca							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr5:93856363T>C	ENST00000329378.7	-	5	809	c.560A>G	c.(559-561)cAa>cGa	p.Q187R	KIAA0825_ENST00000513200.3_Missense_Mutation_p.Q187R|KIAA0825_ENST00000312498.7_Missense_Mutation_p.Q187R|KIAA0825_ENST00000427991.2_Missense_Mutation_p.Q187R	NM_173665.2	NP_775936.1	Q8IV33	K0825_HUMAN	KIAA0825	187										breast(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(1)|pancreas(1)|prostate(1)|skin(1)	13						TAAAATTTTTTGCTGTGAATT	0.318																																																0													105	109	108					5																	93856363		2203	4300	6503	SO:0001583	missense	285600			BX648338	CCDS4070.1	5q15	2011-02-23	2011-02-23	2011-02-23	ENSG00000185261	ENSG00000185261			28532	protein-coding gene	gene with protein product			"chromosome 5 open reading frame 36"	C5orf36		12477932	Standard	NM_173665		Approved	DKFZp686F0372, MGC34713	uc011cuk.2	Q8IV33	OTTHUMG00000131331	ENST00000329378.7:c.560A>G	5.37:g.93856363T>C	ENSP00000331385:p.Gln187Arg	Somatic		WXS	Illumina HiSeq	Phase_1	O94914|Q6ZNN2	Missense_Mutation	SNP	ENST00000329378.7	37	CCDS4070.1	.	.	.	.	.	.	.	.	.	.	T	12.93	2.084971	0.36758	.	.	ENSG00000185261	ENST00000513200;ENST00000427991;ENST00000312498;ENST00000329378	T;T;D;D	0.85773	0.86;0.86;-2.03;-2.03	5.51	5.51	0.81932	.	1.945680	0.01632	N	0.023587	D	0.85199	0.5642	L	0.54323	1.7	0.30939	N	0.726027	P;P	0.42692	0.675;0.787	B;B	0.39258	0.295;0.295	T	0.74293	-0.3712	10	0.59425	D	0.04	.	11.5917	0.50949	0.0:0.0:0.1489:0.8511	.	187;187	Q8IV33;Q8IV33-2	K0825_HUMAN;.	R	187	ENSP00000424618:Q187R;ENSP00000400288:Q187R;ENSP00000312205:Q187R;ENSP00000331385:Q187R	ENSP00000312205:Q187R	Q	-	2	0	KIAA0825	93882119	0.998000	0.40836	1.000000	0.80357	0.921000	0.55340	2.676000	0.46883	2.091000	0.63221	0.477000	0.44152	CAA		0.318	KIAA0825-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371180.2	NM_173665		C	93856363	T	C	93856363	3	2	584	1	0	0	0	0	1	0	0	0	2297	1812	63	3	3340	3	C5orf36	5	93856363	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08	8	93856363	87058897	40	34679	263	2								
ACSL6	23305	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	131324510	131324510	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gggcttacctgtattgatgaTgtagcggatagccccagggc	14	9	0	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr5:131324510T>A	ENST00000379240.1	-	6	718	c.565A>T	c.(565-567)Atc>Ttc	p.I189F	ACSL6_ENST00000379249.3_Missense_Mutation_p.I189F|ACSL6_ENST00000379244.1_Missense_Mutation_p.I189F|ACSL6_ENST00000379255.1_Missense_Mutation_p.I154F|ACSL6_ENST00000379264.2_Missense_Mutation_p.I214F|ACSL6_ENST00000357096.1_Missense_Mutation_p.I154F|ACSL6_ENST00000379272.2_Missense_Mutation_p.I189F|ACSL6_ENST00000379246.1_Missense_Mutation_p.I200F|ACSL6_ENST00000296869.4_Missense_Mutation_p.I214F|ACSL6_ENST00000543479.1_Missense_Mutation_p.I189F|ACSL6_ENST00000544770.1_Missense_Mutation_p.I98F|ACSL6_ENST00000431707.1_Missense_Mutation_p.I154F			Q9UKU0	ACSL6_HUMAN	acyl-CoA synthetase long-chain family member 6	189					acyl-CoA metabolic process (GO:0006637)|cellular lipid metabolic process (GO:0044255)|cellular response to insulin stimulus (GO:0032869)|fatty acid transport (GO:0015908)|long-chain fatty acid metabolic process (GO:0001676)|long-chain fatty-acyl-CoA biosynthetic process (GO:0035338)|neuroblast proliferation (GO:0007405)|neuron development (GO:0048666)|phospholipid biosynthetic process (GO:0008654)|positive regulation of neuron projection development (GO:0010976)|positive regulation of plasma membrane long-chain fatty acid transport (GO:0010747)|positive regulation of triglyceride biosynthetic process (GO:0010867)|response to gravity (GO:0009629)|response to hypoxia (GO:0001666)|response to nutrient (GO:0007584)|response to steroid hormone (GO:0048545)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|mitochondrial outer membrane (GO:0005741)|nucleus (GO:0005634)|peroxisome (GO:0005777)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|enzyme binding (GO:0019899)|long-chain fatty acid-CoA ligase activity (GO:0004467)|protein homodimerization activity (GO:0042803)			NS(1)|breast(1)|endometrium(2)|kidney(4)|large_intestine(8)|lung(12)|ovary(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	35		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GTATTGATGATGTAGCGGATA	0.572																																																0													114	112	113					5																	131324510		2203	4300	6503	SO:0001583	missense	23305			AB020644	CCDS34228.1, CCDS34229.1, CCDS56381.1, CCDS56382.1, CCDS56383.1	5q31	2008-02-05	2004-02-19	2004-02-20	ENSG00000164398	ENSG00000164398		"Acyl-CoA synthetase family"	16496	protein-coding gene	gene with protein product		604443	"fatty-acid-Coenzyme A ligase, long-chain 6"	FACL6		10502316, 10548543	Standard	NM_015256		Approved	KIAA0837, ACS2, LACS5, LACS2	uc003kvy.2	Q9UKU0	OTTHUMG00000150692	ENST00000379240.1:c.565A>T	5.37:g.131324510T>A	ENSP00000368542:p.Ile189Phe	Somatic		WXS	Illumina HiSeq	Phase_I	J3KPG3|O94924|O95829|Q108M9|Q108N0|Q4G191|Q86TN7	Missense_Mutation	SNP	ENST00000379240.1	37		.	.	.	.	.	.	.	.	.	.	T	20.8	4.053835	0.75960	.	.	ENSG00000164398	ENST00000379249;ENST00000379264;ENST00000379272;ENST00000357096;ENST00000379255;ENST00000296869;ENST00000379246;ENST00000379244;ENST00000544770;ENST00000379240;ENST00000431707;ENST00000543479;ENST00000434099;ENST00000430403	T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.52295	0.67;0.67;0.67;0.67;0.67;0.67;0.67;0.67;0.67;0.67;0.67;0.67;0.67;0.67	5.79	5.79	0.91817	AMP-dependent synthetase/ligase (1);	0.000000	0.85682	D	0.000000	T	0.81399	0.4814	H	0.98446	4.235	0.80722	D	1	D;D;D;D;D;D;D	0.89917	0.998;1.0;1.0;0.998;1.0;1.0;1.0	D;D;D;D;D;D;D	0.91635	0.993;0.995;0.999;0.996;0.988;0.995;0.995	D	0.88843	0.3314	10	0.87932	D	0	.	16.1224	0.81369	0.0:0.0:0.0:1.0	.	189;189;179;189;154;214;214	Q9UKU0-3;Q9UKU0-6;B4DFW3;Q9UKU0;Q9UKU0-7;Q9UKU0-1;Q9UKU0-8	.;.;.;ACSL6_HUMAN;.;.;.	F	189;214;189;154;154;214;200;189;98;189;154;189;154;189	ENSP00000368551:I189F;ENSP00000368566:I214F;ENSP00000368574:I189F;ENSP00000349608:I154F;ENSP00000368557:I154F;ENSP00000296869:I214F;ENSP00000368548:I200F;ENSP00000368546:I189F;ENSP00000445154:I98F;ENSP00000368542:I189F;ENSP00000413329:I154F;ENSP00000442124:I189F;ENSP00000397507:I154F;ENSP00000398423:I189F	ENSP00000296869:I214F	I	-	1	0	ACSL6	131352409	1.000000	0.71417	1.000000	0.80357	0.248000	0.25809	7.953000	0.87836	2.208000	0.71279	0.533000	0.62120	ATC		0.572	ACSL6-004	NOVEL	basic|appris_candidate_longest|exp_conf	protein_coding	protein_coding	OTTHUMT00000132622.1	NM_015256		A	131324510	T	A	131324510	3	1	584	1	0	0	0	0	1	0	0	0	181	1464	51	5	1674	5	ACSL6	5	131324510	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08	37468147	131324510	49590750	41	34680										
MRPL22	29093	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	154330411	154330411	+	Frame_Shift_Del	DEL	T	T	-													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	caatcatatatccacacaagTgcttctcttgacatttctcg							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr5:154330411delT	ENST00000523037.1	+	3	149	c.108delT	c.(106-108)agtfs	p.S36fs	MRPL22_ENST00000439747.3_Frame_Shift_Del_p.S62fs|MRPL22_ENST00000265229.8_Intron|MRPL22_ENST00000522038.1_Frame_Shift_Del_p.S42fs	NM_014180.3	NP_054899.2	Q9NWU5	RM22_HUMAN	mitochondrial ribosomal protein L22	36					translation (GO:0006412)	large ribosomal subunit (GO:0015934)|mitochondrion (GO:0005739)	poly(A) RNA binding (GO:0044822)|structural constituent of ribosome (GO:0003735)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(3)|urinary_tract(2)	10	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TCCACACAAGTGCTTCTCTTG	0.398																																																0													124	122	123					5																	154330411		2203	4300	6503	SO:0001589	frameshift_variant	29093			AB051622	CCDS4331.1, CCDS43391.1	5q33.2	2012-09-13			ENSG00000082515	ENSG00000082515		"Mitochondrial ribosomal proteins / large subunits"	14480	protein-coding gene	gene with protein product		611835					Standard	NM_014180		Approved	MRP-L25, RPML25, HSPC158	uc003lvy.4	Q9NWU5	OTTHUMG00000130190	ENST00000523037.1:c.108delT	5.37:g.154330411delT	ENSP00000431040:p.Ser36fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGJ8|Q5H9Q1|Q96Q51|Q9P006	Frame_Shift_Del	DEL	ENST00000523037.1	37	CCDS4331.1																																																																																				0.398	MRPL22-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000252508.2			-	154330411	T	-	154330411	7	5	584	1	0	1	0	1	0	0	0	0	9795	1693	59	0	118	0	MRPL22	5	154330411	Frame_Shift_Del	DEL	T	TCGA-EV-5902-01A-11D-1589-08	23005901	154330411	26584849	42	34681										
ATP10B	23120	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	160113261	160113262	+	Missense_Mutation	DNP	GG	GG	TC													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gttcaaaatcaccaggaacaGgaaatagaggttagcccatc							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr5:160113261_160113262GG>TC	ENST00000327245.5	-	6	1140_1141	c.294_295CC>GA	c.(292-297)ttCCtg>ttGAtg	p.98_99FL>LM	ATP10B_ENST00000518411.1_5'UTR|CTC-529G1.1_ENST00000524198.1_RNA	NM_025153.2	NP_079429.2	O94823	AT10B_HUMAN	ATPase, class V, type 10B	98					phospholipid translocation (GO:0045332)	cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|liver(2)|lung(37)|ovary(4)|pancreas(1)|prostate(5)|skin(3)|stomach(1)	75	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)			ACCAGGAACAGGAAATAGAGGT	0.45																																																0																																										SO:0001583	missense	23120			AB018258	CCDS43394.1	5q34	2010-04-20	2007-09-19		ENSG00000118322	ENSG00000118322		"ATPases / P-type"	13543	protein-coding gene	gene with protein product			"ATPase, Class V, type 10B"			9872452, 11015572	Standard	NM_025153		Approved	ATPVB, KIAA0715, FLJ21477	uc003lym.1	O94823	OTTHUMG00000163551	ENST00000327245.5:c.294_295delinsTC	5.37:g.160113261_160113262delinsTC	ENSP00000313600:p.F98_L99delinsLM	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H725	Missense_Mutation	DNP	ENST00000327245.5	37	CCDS43394.1																																																																																				0.45	ATP10B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374127.1	NM_025153		TC	160113262	GG	TC	160113261	3	4	584	1	0	0	0	0	1	0	0	0	1117	991	35	4	4174	4	ATP10B	5	160113261	Missense_Mutation	DNP	GG	TCGA-EV-5902-01A-11D-1589-08	5782850	160113261	20801999	43	34682										
BTNL8	79908	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	180374575	180374575	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	actgggaatactctgctgtgGcctattttttggcattgttg	11	7	1	0	rs371555886		TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr5:180374575G>A	ENST00000340184.4	+	4	943	c.737G>A	c.(736-738)gGc>gAc	p.G246D	BTNL8_ENST00000511704.1_Missense_Mutation_p.G130D|BTNL8_ENST00000533815.2_Missense_Mutation_p.G62D|BTNL8_ENST00000231229.4_Missense_Mutation_p.G246D|BTNL8_ENST00000400707.3_Missense_Mutation_p.G121D|BTNL8_ENST00000505126.1_Missense_Mutation_p.G39D|BTNL8_ENST00000508408.1_Missense_Mutation_p.G246D	NM_001040462.2	NP_001035552.1	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8	246					immune system process (GO:0002376)	integral component of membrane (GO:0016021)				breast(1)|endometrium(4)|kidney(2)|large_intestine(4)|lung(12)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	28	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)			CTCTGCTGTGGCCTATTTTTT	0.443																																																0								G	ASP/GLY,ASP/GLY,ASP/GLY,ASP/GLY,ASP/GLY,ASP/GLY	0,4406		0,0,2203	231	240	237		737,389,737,362,185,737	-2.9	0	5		237	1,8591	1.2+/-3.3	0,1,4295	yes	missense,missense,missense,missense,missense,missense	BTNL8	NM_001040462.2,NM_001159707.1,NM_001159708.1,NM_001159709.1,NM_001159710.1,NM_024850.2	94,94,94,94,94,94	0,1,6498	AA,AG,GG		0.0116,0.0,0.0077	possibly-damaging,possibly-damaging,possibly-damaging,possibly-damaging,possibly-damaging,possibly-damaging	246/501,130/385,246/341,121/376,62/317,246/348	180374575	1,12997	2203	4296	6499	SO:0001583	missense	79908			AK025111	CCDS4459.1, CCDS43413.1, CCDS54956.1, CCDS54957.1, CCDS54958.1, CCDS54959.1	5q35.3	2014-01-14			ENSG00000113303	ENSG00000113303		"Immunoglobulin superfamily / V-set domain containing", "Butyrophilins"	26131	protein-coding gene	gene with protein product		615606				12975309	Standard	NM_024850		Approved	FLJ21458, BTN9.2	uc003mmp.3	Q6UX41	OTTHUMG00000130932	ENST00000340184.4:c.737G>A	5.37:g.180374575G>A	ENSP00000342197:p.Gly246Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A4QMZ8|A6NEX6|B7Z409|B7Z5B1|E9PEF6|E9PG07|F2Z2B2|F8W712|Q9H730	Missense_Mutation	SNP	ENST00000340184.4	37	CCDS43413.1	.	.	.	.	.	.	.	.	.	.	G	6.384	0.438919	0.12104	0.0	1.16E-4	ENSG00000113303	ENST00000231229;ENST00000340184;ENST00000400707;ENST00000508408;ENST00000511704;ENST00000505126;ENST00000533815	T;T;T;T;T;T;T	0.61274	4.8;1.28;0.63;4.8;0.62;0.12;0.19	1.52	-2.87	0.05700	.	.	.	.	.	T	0.52224	0.1721	L	0.34521	1.04	0.09310	N	1	D;D;P;P;P	0.64830	0.982;0.994;0.808;0.808;0.838	P;P;B;B;B	0.59221	0.769;0.854;0.159;0.159;0.367	T	0.44034	-0.9354	9	0.35671	T	0.21	.	3.793	0.08728	0.0:0.2104:0.2868:0.5028	.	121;130;246;246;246	E9PG07;E9PEF6;F2Z2B2;A6NEX6;Q6UX41	.;.;.;.;BTNL8_HUMAN	D	246;246;121;246;130;39;62	ENSP00000231229:G246D;ENSP00000342197:G246D;ENSP00000383543:G121D;ENSP00000424585:G246D;ENSP00000425207:G130D;ENSP00000427441:G39D;ENSP00000435098:G62D	ENSP00000231229:G246D	G	+	2	0	BTNL8	180307181	0.000000	0.05858	0.000000	0.03702	0.009000	0.06853	-0.641000	0.05434	-0.893000	0.03930	0.436000	0.28706	GGC		0.443	BTNL8-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000368440.1	NM_024850		A	180374575	G	A	180374575	3	1	584	1	0	0	0	0	1	0	0	0	1569	1203	42	2	777	2	BTNL8	5	180374575	Missense_Mutation	SNP	G	TCGA-EV-5902-01A-11D-1589-08	20261314	180374575	540685	44	34683										
MTCH1	23787	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	36949411	36949411	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ggaccttcctccccagcacaTtggtcccaagggtggggggc	14	14	0	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr6:36949411T>A	ENST00000373627.5	-	2	483	c.359A>T	c.(358-360)aAt>aTt	p.N120I	MTCH1_ENST00000373616.5_Missense_Mutation_p.N120I|MTCH1_ENST00000538808.1_Intron	NM_001271641.1	NP_001258570.1	Q9NZJ7	MTCH1_HUMAN	mitochondrial carrier 1	120					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|neuronal ion channel clustering (GO:0045161)|positive regulation of apoptotic process (GO:0043065)|regulation of signal transduction (GO:0009966)|transport (GO:0006810)	integral component of membrane (GO:0016021)|intracellular (GO:0005622)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)				endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|prostate(1)	6						CCCCAGCACATTGGTCCCAAG	0.562																																																0													59	52	54					6																	36949411		2203	4300	6503	SO:0001583	missense	23787			AF151822	CCDS4828.1, CCDS64411.1	6p21.2	2013-05-22	2011-05-19		ENSG00000137409	ENSG00000137409		"Solute carriers"	17586	protein-coding gene	gene with protein product	"solute carrier family 25, member 49"	610449	"mitochondrial carrier homolog 1 (C. elegans)"			12377771	Standard	NM_014341		Approved	CGI-64, PSAP, SLC25A49	uc003ond.2	Q9NZJ7	OTTHUMG00000014614	ENST00000373627.5:c.359A>T	6.37:g.36949411T>A	ENSP00000362730:p.Asn120Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAX5|B2RCE3|Q6PK60|Q6UX45|Q7L465|Q9BW23|Q9NZR6|Q9UJZ5	Missense_Mutation	SNP	ENST00000373627.5	37		.	.	.	.	.	.	.	.	.	.	T	19.24	3.788911	0.70337	.	.	ENSG00000137409	ENST00000373616;ENST00000373627;ENST00000337855;ENST00000373550;ENST00000460219	T;T;T	0.48201	0.82;0.82;0.82	4.87	2.42	0.29668	Mitochondrial carrier domain (2);	0.078934	0.49305	D	0.000154	T	0.43787	0.1263	L	0.49126	1.545	0.80722	D	1	D;D;D	0.69078	0.997;0.991;0.99	D;P;P	0.63597	0.916;0.843;0.891	T	0.45527	-0.9255	10	0.72032	D	0.01	-3.3591	7.5839	0.27980	0.0:0.1805:0.0:0.8195	.	102;120;120	Q8IW90;Q9NZJ7;Q9NZJ7-2	.;MTCH1_HUMAN;.	I	120;120;56;56;104	ENSP00000362718:N120I;ENSP00000362730:N120I;ENSP00000419739:N104I	ENSP00000338712:N56I	N	-	2	0	MTCH1	37057389	1.000000	0.71417	0.997000	0.53966	0.959000	0.62525	4.282000	0.58971	0.713000	0.32060	0.402000	0.26972	AAT		0.562	MTCH1-008	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000040396.1	NM_014341		A	36949411	T	A	36949411	3	1	584	1	0	0	0	0	1	0	0	0	9920	1493	52	5	803	5	MTCH1	6	36949411	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08		36949411	134165656	45	34684										
SNX10	29887	hgsc.bcm.edu;bcgsc.ca	37	chr7	26412183	26412200	+	Stop_Codon_Del	DEL	GGAATCCTGAAAAATAAT	GGAATCCTGAAAAATAAT	-													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	aaagtaaatacagctccgcaGgaatcctgaaaaataattct							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	GGAATCCTGAAAAATAAT	GGAATCCTGAAAAATAAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr7:26412183_26412200delGGAATCCTGAAAAATAAT	ENST00000338523.4	+	0	784_801				SNX10_ENST00000446848.2_Stop_Codon_Del|SNX10_ENST00000396376.1_Stop_Codon_Del|AC004540.4_ENST00000451264.1_RNA|SNX10_ENST00000409838.1_Stop_Codon_Del|SNX10_ENST00000462993.1_3'UTR|SNX10_ENST00000409367.1_Stop_Codon_Del|AC004540.4_ENST00000451368.1_RNA	NM_001199835.1|NM_013322.2	NP_001186764.1|NP_037454.2	Q9Y5X0	SNX10_HUMAN	sorting nexin 10						cilium assembly (GO:0042384)|endosome organization (GO:0007032)|intracellular protein transport (GO:0006886)|osteoclast differentiation (GO:0030316)|protein localization to centrosome (GO:0071539)|protein localization to cilium (GO:0061512)	cytoskeleton (GO:0005856)|endoplasmic reticulum (GO:0005783)|extrinsic component of endosome membrane (GO:0031313)|nucleus (GO:0005634)	1-phosphatidylinositol binding (GO:0005545)|ATPase binding (GO:0051117)			endometrium(1)|large_intestine(1)|lung(3)|upper_aerodigestive_tract(1)	6						CAGCTCCGCAGGAATCCTGAAAAATAATTCTAATGTTA	0.367																																																0																																										SO:0001567	stop_retained_variant	29887			AF121860	CCDS5399.1, CCDS56470.1	7p15.2	2008-05-22			ENSG00000086300	ENSG00000086300		"Sorting nexins"	14974	protein-coding gene	gene with protein product		614780				17012226	Standard	NM_013322		Approved		uc010kuu.3	Q9Y5X0	OTTHUMG00000023650	Exception_encountered	7.37:g.26412183_26412200delGGAATCCTGAAAAATAAT		Somatic		WXS	Illumina HiSeq	Phase_I	E9PFH5|Q8IYT5	Frame_Shift_Del	DEL	ENST00000338523.4	37	CCDS5399.1																																																																																				0.367	SNX10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214120.1			-	26412200	GGAATCCTGAAAAATAAT	-	26412183	7	5	584	1	0	1	0	1	0	0	0	0	14894	991	35	0	619	0	SNX10	7	26412183	Stop_Codon_Del	DEL	GGAATCCTGAAAAATAAT	TCGA-EV-5902-01A-11D-1589-08		26412183	132726480	46	34685										
GBAS	2631	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	56045954	56045955	+	Frame_Shift_Del	DEL	AC	AC	-													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	acaagcaatctatacaaattAcagtgtgagtgacaggtttg							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr7:56045954_56045955delAC	ENST00000322090.3	+	2	257_258	c.228_229delAC	c.(226-231)ttacagfs	p.Q77fs	GBAS_ENST00000446778.1_Frame_Shift_Del_p.Q77fs|GBAS_ENST00000487370.1_3'UTR	NM_001483.2	NP_001474.1	O75323	NIPS2_HUMAN	glioblastoma amplified sequence	77					ATP biosynthetic process (GO:0006754)|negative regulation of ATP citrate synthase activity (GO:2000984)|oxidative phosphorylation (GO:0006119)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|mitochondrion (GO:0005739)				breast(1)|central_nervous_system(1)|large_intestine(1)|lung(2)	5	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TATACAAATTACAGTGTGAGTG	0.361																																																0																																										SO:0001589	frameshift_variant	2631			AF029786	CCDS5521.1, CCDS56488.1	7p12	2014-03-11			ENSG00000146729	ENSG00000146729			4179	protein-coding gene	gene with protein product		603004				9615231, 9661659, 20888800	Standard	NM_001483		Approved	NIPSNAP2	uc003tre.2	O75323	OTTHUMG00000022932	ENST00000322090.3:c.228_229delAC	7.37:g.56045954_56045955delAC	ENSP00000313050:p.Gln77fs	Somatic		WXS	Illumina HiSeq	Phase_I	C9IYJ3|O43801|Q53X96	Frame_Shift_Del	DEL	ENST00000322090.3	37	CCDS5521.1																																																																																				0.361	GBAS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251524.1	NM_001483		-	56045955	AC	-	56045954	7	5	584	1	0	1	0	1	0	0	0	0	6276	388	14	0	234	0	GBAS	7	56045954	Frame_Shift_Del	DEL	AC	TCGA-EV-5902-01A-11D-1589-08	29633771	56045954	103092709	47	34686										
C7orf43	55262	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	99753405	99753405	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tggcagacgacggagtccagGgcagcctgcatggcccggcg	17	13	0	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr7:99753405G>A	ENST00000316937.3	-	9	1469	c.1284C>T	c.(1282-1284)gcC>gcT	p.A428A	C7orf43_ENST00000498638.1_5'Flank|MIR4658_ENST00000584344.1_RNA|C7orf43_ENST00000394035.2_Silent_p.A4A|C7orf43_ENST00000419841.1_Silent_p.A196A|C7orf43_ENST00000457641.1_Silent_p.A159A	NM_018275.3	NP_060745.3	Q8WVR3	CG043_HUMAN	chromosome 7 open reading frame 43	428										breast(1)|endometrium(3)|large_intestine(3)|lung(2)|prostate(1)	10	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CGGAGTCCAGGGCAGCCTGCA	0.637																																																0													53	50	51					7																	99753405		2203	4300	6503	SO:0001819	synonymous_variant	55262				CCDS5687.1	7q22.1	2011-11-25			ENSG00000146826	ENSG00000146826			25604	protein-coding gene	gene with protein product						12477932	Standard	NM_018275		Approved	FLJ10925	uc003utr.3	Q8WVR3	OTTHUMG00000154862	ENST00000316937.3:c.1284C>T	7.37:g.99753405G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D2A9|D6W5U4|Q9BQJ1|Q9BUB6|Q9NV47	Silent	SNP	ENST00000316937.3	37	CCDS5687.1	.	.	.	.	.	.	.	.	.	.	G	12.58	1.981597	0.34942	.	.	ENSG00000146826	ENST00000456769	.	.	.	5.66	0.404	0.16355	.	.	.	.	.	T	0.50343	0.1610	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.35025	-0.9805	4	.	.	.	-21.6416	4.7431	0.13024	0.2529:0.2971:0.4501:0.0	.	.	.	.	S	334	.	.	P	-	1	0	C7orf43	99591341	0.997000	0.39634	0.998000	0.56505	0.961000	0.63080	0.253000	0.18296	0.054000	0.16065	-0.258000	0.10820	CCT		0.637	C7orf43-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337395.2	NM_018275		A	99753405	G	A	99753405	2	1	584	1	0	0	0	0	0	0	0	1	2395	1219	43	2		2	C7orf43	7	99753405	Silent	SNP	G	TCGA-EV-5902-01A-11D-1589-08	43707451	99753405	59385258	48	34687										
LRRN3	54674	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	110763780	110763780	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	taagaaaaatagaagctactAacaaccctagattgtcttac	5	8	1	3			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr7:110763780A>G	ENST00000422987.3	+	2	1783	c.952A>G	c.(952-954)Aac>Gac	p.N318D	IMMP2L_ENST00000452895.1_Intron|IMMP2L_ENST00000437687.1_Intron|IMMP2L_ENST00000447215.1_Intron|IMMP2L_ENST00000489381.1_Intron|IMMP2L_ENST00000415362.1_Intron|LRRN3_ENST00000451085.1_Missense_Mutation_p.N318D|IMMP2L_ENST00000331762.3_Intron|IMMP2L_ENST00000450877.1_Intron|IMMP2L_ENST00000405709.2_Intron|LRRN3_ENST00000308478.5_Missense_Mutation_p.N318D	NM_018334.4	NP_060804.3	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3	318					positive regulation of protein phosphorylation (GO:0001934)	clathrin adaptor complex (GO:0030131)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(15)|lung(20)|ovary(2)|pancreas(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	55				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)		AGAAGCTACTAACAACCCTAG	0.418																																																0													85	88	87					7																	110763780		2203	4300	6503	SO:0001583	missense	54674			AB060967	CCDS5754.1	7q31.1	2013-02-11			ENSG00000173114	ENSG00000173114		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	17200	protein-coding gene	gene with protein product	"fibronectin type III, immunoglobulin and leucine rich repeat domains 5"					11549284	Standard	NM_001099660		Approved	NLRR3, FLJ11129, FIGLER5	uc003vfs.4	Q9H3W5	OTTHUMG00000155039	ENST00000422987.3:c.952A>G	7.37:g.110763780A>G	ENSP00000412417:p.Asn318Asp	Somatic		WXS	Illumina HiSeq	Phase_I	O43377|Q6I9V8|Q8IYQ6	Missense_Mutation	SNP	ENST00000422987.3	37	CCDS5754.1	.	.	.	.	.	.	.	.	.	.	A	19.37	3.814302	0.70912	.	.	ENSG00000173114	ENST00000308478;ENST00000451085;ENST00000422987	T;T;T	0.59083	0.29;0.29;0.29	5.96	5.96	0.96718	.	0.000000	0.64402	D	0.000002	T	0.63663	0.2530	N	0.20845	0.615	0.58432	D	0.999999	D	0.89917	1.0	D	0.87578	0.998	T	0.64351	-0.6428	10	0.37606	T	0.19	.	16.4311	0.83844	1.0:0.0:0.0:0.0	.	318	Q9H3W5	LRRN3_HUMAN	D	318	ENSP00000312001:N318D;ENSP00000397312:N318D;ENSP00000412417:N318D	ENSP00000312001:N318D	N	+	1	0	LRRN3	110551016	1.000000	0.71417	0.997000	0.53966	0.967000	0.64934	9.339000	0.96797	2.277000	0.76020	0.528000	0.53228	AAC		0.418	LRRN3-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338171.2	NM_018334		G	110763780	A	G	110763780	3	3	584	1	0	0	0	0	1	0	0	0	9043	362	13	3	954	3	LRRN3	7	110763780	Missense_Mutation	SNP	A	TCGA-EV-5902-01A-11D-1589-08	11010375	110763780	48374883	49	34688										
TNPO3	23534	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	128626935	128626935	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ctgcagcagaagccaggggcTtttcacacaggcctttcatc	10	13	2	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr7:128626935T>A	ENST00000265388.5	-	12	1681	c.1538A>T	c.(1537-1539)aAg>aTg	p.K513M	TNPO3_ENST00000393245.1_Missense_Mutation_p.K547M|TNPO3_ENST00000482320.1_Missense_Mutation_p.K447M|TNPO3_ENST00000471234.1_Intron|TNPO3_ENST00000471166.1_Missense_Mutation_p.K547M			Q9Y5L0	TNPO3_HUMAN	transportin 3	513					splicing factor protein import into nucleus (GO:0035048)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	receptor activity (GO:0004872)			central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(2)|lung(7)|ovary(2)|prostate(2)|skin(3)	22						AGCCAGGGGCTTTTCACACAG	0.453																																					Pancreas(147;583 2585 39696 52331)											0													79	81	80					7																	128626935		2203	4300	6503	SO:0001583	missense	23534			AF145029	CCDS5809.1, CCDS55162.1	7q32.2	2014-02-03			ENSG00000064419	ENSG00000064419		"Importins"	17103	protein-coding gene	gene with protein product	"importin 12"	610032	"limb girdle muscular dystrophy 1F (autosomal dominant)"	LGMD1F		10366588, 10713112, 23543484, 23667635	Standard	NM_012470		Approved	TRN-SR, MTR10A, TRN-SR2, IPO12	uc003vol.2	Q9Y5L0	OTTHUMG00000158409	ENST00000265388.5:c.1538A>T	7.37:g.128626935T>A	ENSP00000265388:p.Lys513Met	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1K9|C9IZM0|Q6NUM1|Q96G71|Q96GU9|Q9Y3R2	Missense_Mutation	SNP	ENST00000265388.5	37	CCDS5809.1	.	.	.	.	.	.	.	.	.	.	T	21.2	4.118999	0.77323	.	.	ENSG00000064419	ENST00000393245;ENST00000265388;ENST00000482320;ENST00000471166	T;T;T;T	0.67698	-0.28;-0.28;-0.28;-0.28	5.95	5.95	0.96441	Armadillo-like helical (1);Armadillo-type fold (1);	0.154879	0.56097	D	0.000021	T	0.67924	0.2945	L	0.36672	1.1	0.48571	D	0.999679	D;P	0.63046	0.992;0.895	P;P	0.55999	0.789;0.497	T	0.70920	-0.4741	10	0.66056	D	0.02	-17.8899	10.4289	0.44395	0.0:0.0:0.1635:0.8365	.	547;513	C9J7E5;Q9Y5L0	.;TNPO3_HUMAN	M	547;513;447;547	ENSP00000376936:K547M;ENSP00000265388:K513M;ENSP00000420089:K447M;ENSP00000418267:K547M	ENSP00000265388:K513M	K	-	2	0	TNPO3	128414171	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.677000	0.61634	2.279000	0.76181	0.533000	0.62120	AAG		0.453	TNPO3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350929.1	NM_012470		A	128626935	T	A	128626935	3	1	584	1	0	0	0	0	1	0	0	0	16349	1609	56	5	1277	5	TNPO3	7	128626935	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08	17863155	128626935	30511728	50	34689										
STMN4	81551	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	27097566	27097566	+	Frame_Shift_Del	DEL	T	T	-													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gattccatcttctgggccagTttttccttagccatcttgat							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr8:27097566delT	ENST00000265770.7	-	5	568	c.432delA	c.(430-432)aaafs	p.K144fs	STMN4_ENST00000523048.1_Frame_Shift_Del_p.K171fs|STMN4_ENST00000350889.4_Frame_Shift_Del_p.K171fs|STMN4_ENST00000519614.1_Frame_Shift_Del_p.K144fs|STMN4_ENST00000522908.1_Frame_Shift_Del_p.K171fs|STMN4_ENST00000519997.1_Frame_Shift_Del_p.K135fs			Q9H169	STMN4_HUMAN	stathmin-like 4	144	SLD. {ECO:0000255|PROSITE- ProRule:PRU00998}.				regulation of microtubule polymerization or depolymerization (GO:0031110)	cell projection (GO:0042995)|Golgi apparatus (GO:0005794)				endometrium(1)|kidney(1)|large_intestine(3)|lung(4)|ovary(1)|pancreas(1)	11		Ovarian(32;0.00167)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0214)|Epithelial(17;9.82e-10)|Colorectal(74;0.142)	Lomustine(DB01206)	TCTGGGCCAGTTTTTCCTTAG	0.517																																																0													233	213	220					8																	27097566		2203	4300	6503	SO:0001589	frameshift_variant	81551				CCDS6055.1, CCDS64851.1, CCDS64852.1, CCDS64854.1	8p21.2	2006-12-09			ENSG00000015592	ENSG00000015592			16078	protein-coding gene	gene with protein product						11230166	Standard	NM_001283054		Approved	RB3	uc003xfj.3	Q9H169	OTTHUMG00000099461	ENST00000265770.7:c.432delA	8.37:g.27097566delT	ENSP00000265770:p.Lys144fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2Z7|B7Z4I9|D3DSS8|D3DSS9|G5EA16|Q2TAB9	Frame_Shift_Del	DEL	ENST00000265770.7	37																																																																																					0.517	STMN4-006	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000375941.1	NM_030795		-	27097566	T	-	27097566	7	5	584	1	0	1	0	1	0	0	0	0	15323	1722	60	0	145	0	STMN4	8	27097566	Frame_Shift_Del	DEL	T	TCGA-EV-5902-01A-11D-1589-08		27097566	119266456	51	34690										
C8orf76	84933	broad.mit.edu	37	chr8	124243792	124243792	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tgaaactgtgctgtttctgaGatgacgcaagtgctgctgaa	12	7	1	4			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr8:124243792G>T	ENST00000276704.4	-	4	614	c.563C>A	c.(562-564)tCt>tAt	p.S188Y	C8orf76_ENST00000521310.1_5'UTR|ZHX1-C8ORF76_ENST00000357082.4_Missense_Mutation_p.S156Y	NM_032847.2	NP_116236.1	Q96K31	CH076_HUMAN	chromosome 8 open reading frame 76	188										NS(1)|lung(9)|ovary(2)|prostate(1)|urinary_tract(4)	17	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			CTGTTTCTGAGATGACGCAAG	0.438																																																0													145	153	150					8																	124243792		2203	4300	6503	SO:0001583	missense	84933			AK027731	CCDS6341.1	8q24.13	2012-06-27			ENSG00000189376	ENSG00000189376			25924	protein-coding gene	gene with protein product							Standard	NM_032847		Approved	FLJ14825	uc003yqc.2	Q96K31	OTTHUMG00000172562	ENST00000276704.4:c.563C>A	8.37:g.124243792G>T	ENSP00000276704:p.Ser188Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q53HC1	Missense_Mutation	SNP	ENST00000276704.4	37	CCDS6341.1	.	.	.	.	.	.	.	.	.	.	G	19.08	3.758786	0.69763	.	.	ENSG00000189376	ENST00000276704;ENST00000357082	.	.	.	5.48	4.6	0.57074	.	0.599351	0.18054	N	0.153184	T	0.58991	0.2161	M	0.68952	2.095	0.28752	N	0.901361	P;D	0.58620	0.911;0.983	P;P	0.54759	0.76;0.653	T	0.58340	-0.7653	9	0.62326	D	0.03	-1.0579	12.0576	0.53544	0.0805:0.0:0.9195:0.0	.	156;188	Q96EF9;Q96K31	.;CH076_HUMAN	Y	188;156	.	ENSP00000276704:S188Y	S	-	2	0	C8orf76	124312973	1.000000	0.71417	0.753000	0.31225	0.940000	0.58332	2.322000	0.43814	1.325000	0.45301	0.655000	0.94253	TCT		0.438	C8orf76-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381748.1	NM_032847		T	124243792	G	T	124243792	3	4	584	1	0	0	0	0	1	0	0	0	2439	942	33	4	591	4	C8orf76	8	124243792	Missense_Mutation	SNP	G	TCGA-EV-5902-01A-11D-1589-08	97146226	124243792	22120230	52	34691										
PLEC	5339	broad.mit.edu	37	chr8	144995793	144995793	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	aggaagcctgaggccgcctgCgcctccagcaggatgagggc	16	13	0	2	rs372807129		TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr8:144995793C>T	ENST00000322810.4	-	32	8776	c.8607G>A	c.(8605-8607)gcG>gcA	p.A2869A	PLEC_ENST00000345136.3_Silent_p.A2732A|PLEC_ENST00000356346.3_Silent_p.A2718A|PLEC_ENST00000357649.2_Silent_p.A2736A|PLEC_ENST00000354958.2_Silent_p.A2710A|PLEC_ENST00000527096.1_Silent_p.A2755A|PLEC_ENST00000398774.2_Silent_p.A2700A|PLEC_ENST00000436759.2_Silent_p.A2759A|PLEC_ENST00000354589.3_Silent_p.A2732A	NM_201380.2	NP_958782.1	Q15149	PLEC_HUMAN	plectin	2869	Globular 2.				apoptotic process (GO:0006915)|cell junction assembly (GO:0034329)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)	costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|intermediate filament cytoskeleton (GO:0045111)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcoplasm (GO:0016528)	ankyrin binding (GO:0030506)|poly(A) RNA binding (GO:0044822)|structural constituent of muscle (GO:0008307)			NS(1)|breast(3)|central_nervous_system(4)|cervix(7)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(8)|lung(57)|ovary(4)|pancreas(2)|prostate(11)|skin(9)|stomach(2)|upper_aerodigestive_tract(10)	137						AGGCCGCCTGCGCCTCCAGCA	0.667																																																0													26	32	30					8																	144995793		2070	4177	6247	SO:0001819	synonymous_variant	5339			U53204	CCDS43769.1, CCDS43770.1, CCDS43771.1, CCDS43772.1, CCDS43773.1, CCDS43774.1, CCDS43775.1, CCDS47936.1	8q24	2010-02-04	2010-02-04	2010-02-04	ENSG00000178209	ENSG00000178209			9069	protein-coding gene	gene with protein product		601282	"plectin 1, intermediate filament binding protein, 500kD", "epidermolysis bullosa simplex 1 (Ogna)", "plectin 1, intermediate filament binding protein 500kDa"	EBS1, PLEC1		8633055, 8696340	Standard	XM_005250976		Approved	PCN, PLTN	uc003zaf.1	Q15149	OTTHUMG00000165291	ENST00000322810.4:c.8607G>A	8.37:g.144995793C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q15148|Q16640|Q6S376|Q6S377|Q6S378|Q6S379|Q6S380|Q6S381|Q6S382|Q6S383	Silent	SNP	ENST00000322810.4	37	CCDS43772.1																																																																																				0.667	PLEC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383281.1	NM_000445		T	144995793	C	T	144995793	2	4	584	1	0	0	0	0	0	0	0	1	12059	755	27	1		1	PLEC	8	144995793	Silent	SNP	C	TCGA-EV-5902-01A-11D-1589-08	20752001	144995793	1368229	53	34692										
GBA2	57704	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	35739010	35739010	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gacttttacctgggtccccaAtatcatgggggatgacgttc	11	10	1	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr9:35739010A>G	ENST00000378103.3	-	11	2307	c.1784T>C	c.(1783-1785)aTt>aCt	p.I595T	GBA2_ENST00000378094.4_Missense_Mutation_p.I595T|GBA2_ENST00000467252.1_5'UTR|GBA2_ENST00000545786.1_Missense_Mutation_p.I601T|GBA2_ENST00000378088.1_5'Flank	NM_020944.2	NP_065995.1	Q9HCG7	GBA2_HUMAN	glucosidase, beta (bile acid) 2	595					bile acid metabolic process (GO:0008206)|cell death (GO:0008219)|central nervous system neuron development (GO:0021954)|glucosylceramide catabolic process (GO:0006680)|glycoside catabolic process (GO:0016139)|glycosphingolipid metabolic process (GO:0006687)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|smooth endoplasmic reticulum (GO:0005790)	beta-glucosidase activity (GO:0008422)|glucosylceramidase activity (GO:0004348)			NS(1)|kidney(3)|large_intestine(5)|lung(5)|ovary(4)|skin(3)	21	all_epithelial(49;0.167)		Lung(28;0.00416)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TGGGTCCCCAATATCATGGGG	0.572																																																0													78	76	77					9																	35739010		2203	4300	6503	SO:0001583	missense	57704			AJ309567	CCDS6589.1	9p13.2	2013-09-11			ENSG00000070610	ENSG00000070610			18986	protein-coding gene	gene with protein product	"bile acid beta-glucosidase", "non-lysosomal glucosylceramidase"	609471	"spastic paraplegia 46 (autosomal recessive)"	SPG46		11489889, 23332916, 23332917	Standard	NM_020944		Approved	KIAA1605, AD035, DKFZp762K054	uc003zxw.3	Q9HCG7	OTTHUMG00000021024	ENST00000378103.3:c.1784T>C	9.37:g.35739010A>G	ENSP00000367343:p.Ile595Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRP2|Q5TCV6|Q96A51|Q96LY1|Q96SJ2|Q9H2L8	Missense_Mutation	SNP	ENST00000378103.3	37	CCDS6589.1	.	.	.	.	.	.	.	.	.	.	A	16.56	3.156258	0.57259	.	.	ENSG00000070610	ENST00000378103;ENST00000378094;ENST00000545786	.	.	.	5.69	5.69	0.88448	Six-hairpin glycosidase-like (1);Glucosylceramidase (1);	0.259629	0.44285	D	0.000468	T	0.64571	0.2610	L	0.58101	1.795	0.80722	D	1	B;P;P	0.35493	0.449;0.493;0.505	B;B;B	0.41374	0.241;0.079;0.355	T	0.67518	-0.5650	9	0.62326	D	0.03	-8.062	14.5115	0.67791	1.0:0.0:0.0:0.0	.	601;595;595	F5H7P6;Q9HCG7-2;Q9HCG7	.;.;GBA2_HUMAN	T	595;595;601	.	ENSP00000367334:I595T	I	-	2	0	GBA2	35729010	1.000000	0.71417	0.973000	0.42090	0.994000	0.84299	8.924000	0.92827	2.171000	0.68590	0.459000	0.35465	ATT		0.572	GBA2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000055456.1	NM_020944		G	35739010	A	G	35739010	3	3	584	1	0	0	0	0	1	0	0	0	6274	101	4	3	1027	3	GBA2	9	35739010	Missense_Mutation	SNP	A	TCGA-EV-5902-01A-11D-1589-08		35739010	105474421	54	34693										
ZNF169	169841	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	97063238	97063238	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tgccctgattgtgggcgtggCtttggtcagaaggtcaccct	14	10	2	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr9:97063238C>T	ENST00000395395.2	+	5	1488	c.1398C>T	c.(1396-1398)ggC>ggT	p.G466G	ZNF169_ENST00000340911.4_3'UTR	NM_194320.2	NP_919301.2	Q14929	ZN169_HUMAN	zinc finger protein 169	466					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|kidney(2)|large_intestine(3)|lung(8)|ovary(2)|prostate(3)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	24		Acute lymphoblastic leukemia(62;0.136)				GTGGGCGTGGCTTTGGTCAGA	0.577																																																0													73	66	68					9																	97063238		2203	4300	6503	SO:0001819	synonymous_variant	169841			U28322	CCDS6709.2	9q22.32	2014-07-30			ENSG00000175787	ENSG00000175787		"Zinc fingers, C2H2-type", "-"	12957	protein-coding gene	gene with protein product		603404				9186526, 9071574	Standard	NM_001301275		Approved	MGC51961	uc004aum.1	Q14929	OTTHUMG00000020264	ENST00000395395.2:c.1398C>T	9.37:g.97063238C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2AGP5|A8K127|Q6PI28	Silent	SNP	ENST00000395395.2	37	CCDS6709.2																																																																																				0.577	ZNF169-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253714.1	NM_194320		T	97063238	C	T	97063238	2	4	584	1	0	0	0	0	0	0	0	1	17754	784	28	2		2	ZNF169	9	97063238	Silent	SNP	C	TCGA-EV-5902-01A-11D-1589-08	61324228	97063238	44150193	55	34694										
C9orf84	158401	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	114503767	114503767	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	aatctttacctgtaagcaaaAatgggttcaaagggcttcta	8	7	3	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr9:114503767A>T	ENST00000318737.4	-	9	1099	c.971T>A	c.(970-972)tTt>tAt	p.F324Y	C9orf84_ENST00000394777.4_Missense_Mutation_p.F285Y|C9orf84_ENST00000394779.3_Missense_Mutation_p.F285Y|C9orf84_ENST00000374283.5_Missense_Mutation_p.F388Y|C9orf84_ENST00000374287.3_Missense_Mutation_p.F324Y	NM_173521.3	NP_775792.3	Q5VXU9	CI084_HUMAN	chromosome 9 open reading frame 84	324										breast(1)|cervix(1)|endometrium(3)|kidney(7)|large_intestine(10)|liver(1)|lung(7)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	35						TGTAAGCAAAAATGGGTTCAA	0.323																																																0													66	65	65					9																	114503767		2202	4299	6501	SO:0001583	missense	158401			AL833535	CCDS6781.3, CCDS43863.1	9q32	2012-03-16			ENSG00000165181	ENSG00000165181			26535	protein-coding gene	gene with protein product							Standard	XM_005251738		Approved	FLJ32779	uc004bfr.3	Q5VXU9	OTTHUMG00000020495	ENST00000318737.4:c.971T>A	9.37:g.114503767A>T	ENSP00000322108:p.Phe324Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2V3|Q2M1H8|Q96M73	Missense_Mutation	SNP	ENST00000318737.4	37	CCDS6781.3	.	.	.	.	.	.	.	.	.	.	A	12.21	1.869763	0.33069	.	.	ENSG00000165181	ENST00000394779;ENST00000394777;ENST00000374287;ENST00000318737;ENST00000374283	T;T;T;T;T	0.48201	0.82;0.82;0.82;0.82;0.82	4.56	3.41	0.39046	.	1.021630	0.07826	N	0.960679	T	0.46483	0.1395	L	0.32530	0.975	0.09310	N	1	P;P;P;P	0.45827	0.718;0.844;0.867;0.867	P;P;B;P	0.49829	0.447;0.528;0.439;0.623	T	0.32745	-0.9895	10	0.62326	D	0.03	-0.5524	6.8232	0.23868	0.8939:0.0:0.1061:0.0	.	285;388;324;285	A6PVK7;Q5VXU9-2;Q5VXU9;A2A2V3	.;.;CI084_HUMAN;.	Y	285;285;324;324;388	ENSP00000378259:F285Y;ENSP00000378257:F285Y;ENSP00000363405:F324Y;ENSP00000322108:F324Y;ENSP00000363401:F388Y	ENSP00000322108:F324Y	F	-	2	0	C9orf84	113543588	0.140000	0.22579	0.106000	0.21319	0.691000	0.40173	0.554000	0.23407	0.876000	0.35872	0.455000	0.32223	TTT		0.323	C9orf84-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000053656.2	NM_173521		T	114503767	A	T	114503767	3	4	584	1	0	0	0	0	1	0	0	0	2502	14	1	5	3435	5	C9orf84	9	114503767	Missense_Mutation	SNP	A	TCGA-EV-5902-01A-11D-1589-08	17440529	114503767	26709664	56	34695										
AMBP	259	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	116837296	116837296	+	Frame_Shift_Del	DEL	G	G	-													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ttttctcataagctccagacGtctcctcacagacacctttc							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr9:116837296delG	ENST00000265132.3	-	3	543	c.281delC	c.(280-282)acgfs	p.T94fs		NM_001633.3	NP_001624.1	P02760	AMBP_HUMAN	alpha-1-microglobulin/bikunin precursor	94					cell adhesion (GO:0007155)|female pregnancy (GO:0007565)|heme catabolic process (GO:0042167)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of immune response (GO:0050777)|negative regulation of JNK cascade (GO:0046329)|protein catabolic process (GO:0030163)|protein-chromophore linkage (GO:0018298)|viral process (GO:0016032)	blood microparticle (GO:0072562)|cell surface (GO:0009986)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|intracellular membrane-bounded organelle (GO:0043231)|plasma membrane (GO:0005886)	calcium channel inhibitor activity (GO:0019855)|calcium oxalate binding (GO:0046904)|heme binding (GO:0020037)|IgA binding (GO:0019862)|protein homodimerization activity (GO:0042803)|serine-type endopeptidase inhibitor activity (GO:0004867)|small molecule binding (GO:0036094)			breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(4)|skin(1)	11					Human Serum Albumin(DB00062)|Serum albumin iodonated(DB00064)	AGCTCCAGACGTCTCCTCACA	0.453																																																0													143	125	131					9																	116837296		2203	4300	6503	SO:0001589	frameshift_variant	259			X04494	CCDS6800.1	9q32-q33	2014-01-22			ENSG00000106927	ENSG00000106927		"Lipocalins"	453	protein-coding gene	gene with protein product	"growth-inhibiting protein 19", "uristatin", "complex-forming glycoprotein heterogeneous in charge", "bikunin", "inter-alpha-trypsin inhibitor light chain", "protein HC", "uronic-acid-rich protein", "trypstatin"	176870		ITI, ITIL		1708673, 1385302	Standard	NM_001633		Approved	UTI, HCP, EDC1, HI30, IATIL, ITILC	uc004bie.4	P02760	OTTHUMG00000020534	ENST00000265132.3:c.281delC	9.37:g.116837296delG	ENSP00000265132:p.Thr94fs	Somatic		WXS	Illumina HiSeq	Phase_I	P00977|P02759|P78491|Q2TU33|Q5TBD7|Q9UC58|Q9UDI8	Frame_Shift_Del	DEL	ENST00000265132.3	37	CCDS6800.1																																																																																				0.453	AMBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053758.2	NM_001633		-	116837296	G	-	116837296	7	5	584	1	0	1	0	1	0	0	0	0	564	1145	40	0	809	0	AMBP	9	116837296	Frame_Shift_Del	DEL	G	TCGA-EV-5902-01A-11D-1589-08	2333529	116837296	24376135	57	34696										
GSN	2934	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	124074615	124074615	+	Splice_Site	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ttcctgggtctctgtcttccAgaacatccaccagtggtgtg	10	12	2	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr9:124074615A>T	ENST00000373818.4	+	5	735		c.e5-1		GSN_ENST00000341272.2_Splice_Site|GSN_ENST00000373807.1_5'UTR|GSN_ENST00000412819.1_Splice_Site|GSN_ENST00000436847.1_Splice_Site|GSN_ENST00000545652.1_Splice_Site|GSN_ENST00000485767.1_3'UTR|GSN_ENST00000449733.1_Splice_Site|GSN_ENST00000394353.2_Splice_Site|GSN_ENST00000373808.2_Splice_Site|GSN_ENST00000373823.3_Splice_Site	NM_000177.4|NM_001258029.1	NP_000168.1|NP_001244958.1	P06396	GELS_HUMAN	gelsolin						actin filament polymerization (GO:0030041)|actin filament severing (GO:0051014)|aging (GO:0007568)|apoptotic process (GO:0006915)|barbed-end actin filament capping (GO:0051016)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular response to cadmium ion (GO:0071276)|cilium morphogenesis (GO:0060271)|oligodendrocyte development (GO:0014003)|phosphatidylinositol-mediated signaling (GO:0048015)|regulation of cell adhesion (GO:0030155)|response to ethanol (GO:0045471)|response to folic acid (GO:0051593)|tissue regeneration (GO:0042246)|vesicle-mediated transport (GO:0016192)	actin cytoskeleton (GO:0015629)|blood microparticle (GO:0072562)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|perinuclear region of cytoplasm (GO:0048471)|protein complex (GO:0043234)|ruffle (GO:0001726)	calcium ion binding (GO:0005509)			NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(6)|kidney(1)|large_intestine(1)|lung(8)|ovary(1)	21						TCTGTCTTCCAGAACATCCAC	0.612																																																0													97	100	99					9																	124074615		2203	4300	6503	SO:0001630	splice_region_variant	2934			X04412	CCDS6828.1, CCDS6829.1, CCDS48011.1, CCDS65118.1, CCDS75890.1, CCDS75891.1	9q33	2010-04-27	2010-04-27		ENSG00000148180	ENSG00000148180			4620	protein-coding gene	gene with protein product	"amyloidosis, Finnish type"	137350	"gelsolin (amyloidosis, Finnish type)"			1652889	Standard	NM_001127662		Approved	DKFZp313L0718	uc004blf.1	P06396	OTTHUMG00000020584	ENST00000373818.4:c.667-1A>T	9.37:g.124074615A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2A418|A8MUD1|A8MYN7|B7Z373|B7Z5V1|F5H1A8|Q5T0I2|Q8WVV7	Splice_Site	SNP	ENST00000373818.4	37	CCDS6828.1	.	.	.	.	.	.	.	.	.	.	A	20.4	3.988296	0.74589	.	.	ENSG00000148180	ENST00000373823;ENST00000432226;ENST00000449773;ENST00000436847;ENST00000394353;ENST00000449733;ENST00000412819;ENST00000341272;ENST00000373808;ENST00000394352;ENST00000456109;ENST00000545652;ENST00000373818	.	.	.	5.67	5.67	0.87782	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.0966	0.72238	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	GSN	123114436	1.000000	0.71417	1.000000	0.80357	0.779000	0.44077	9.281000	0.95811	2.178000	0.69098	0.533000	0.62120	.		0.612	GSN-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000053861.1	NM_000177	Intron	T	124074615	A	T	124074615	5	4	584	1	0	0	0	0	0	0	1	0	6832	202	7	5	711	5	GSN	9	124074615	Splice_Site	SNP	A	TCGA-EV-5902-01A-11D-1589-08	7237319	124074615	17138816	58	34697										
RABGAP1	23637	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	125772734	125772738	+	Frame_Shift_Del	DEL	TTCAG	TTCAG	-													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	aggaaaactacagccagtccTtcagttcgcctgccacagtc					rs201077208		TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	TTCAG	TTCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr9:125772734_125772738delTTCAG	ENST00000373647.4	+	11	1610_1614	c.1476_1480delTTCAG	c.(1474-1482)ccttcagttfs	p.SV493fs		NM_012197.3	NP_036329.3	Q9Y3P9	RBGP1_HUMAN	RAB GTPase activating protein 1	493					cell cycle (GO:0007049)|positive regulation of GTPase activity (GO:0043547)|regulation of GTP catabolic process (GO:0033124)	centrosome (GO:0005813)|cytosol (GO:0005829)|microtubule associated complex (GO:0005875)	DNA binding (GO:0003677)|GTPase activator activity (GO:0005096)|Rab GTPase activator activity (GO:0005097)|Rab GTPase binding (GO:0017137)|tubulin binding (GO:0015631)			breast(3)|endometrium(3)|kidney(5)|large_intestine(8)|lung(11)|ovary(3)|prostate(4)|stomach(3)|upper_aerodigestive_tract(1)	41						CAGCCAGTCCTTCAGTTCGCCTGCC	0.4																																																0																																										SO:0001589	frameshift_variant	23637			AJ011679	CCDS6848.2	9q34.11	2013-07-09			ENSG00000011454	ENSG00000011454			17155	protein-coding gene	gene with protein product	"rab6 GTPase activating protein (GAP and centrosome-associated)", "TBC1 domain family, member 11"	615882				10202141	Standard	NM_012197		Approved	GAPCenA, TBC1D11	uc011lzh.2	Q9Y3P9	OTTHUMG00000020633	ENST00000373647.4:c.1476_1480delTTCAG	9.37:g.125772734_125772738delTTCAG	ENSP00000362751:p.Ser493fs	Somatic		WXS	Illumina HiSeq	Phase_I	B9A6L2|Q05CW2|Q6ZMY1|Q9HA28|Q9P0E2|Q9UG67	Frame_Shift_Del	DEL	ENST00000373647.4	37	CCDS6848.2																																																																																				0.4	RABGAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053976.3	NM_012197		-	125772738	TTCAG	-	125772734	7	5	584	1	0	1	0	1	0	0	0	0	12977	1596	56	0	1514	0	RABGAP1	9	125772734	Frame_Shift_Del	DEL	TTCAG	TCGA-EV-5902-01A-11D-1589-08	1698119	125772734	15440697	59	34698										
ZER1	10444	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	131515779	131515779	+	Frame_Shift_Del	DEL	A	A	-													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	agaaaatgtttgtacagccgAagaggctcaaggacaccagg							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr9:131515779delA	ENST00000291900.2	-	4	816	c.410delT	c.(409-411)ttcfs	p.F137fs	ZER1_ENST00000494461.1_5'UTR	NM_006336.2	NP_006327.2	Q7Z7L7	ZER1_HUMAN	zyg-11 related, cell cycle regulator	137					protein ubiquitination (GO:0016567)|regulation of ubiquitin-protein transferase activity (GO:0051438)	Cul2-RING ubiquitin ligase complex (GO:0031462)	ubiquitin-protein transferase activity (GO:0004842)			endometrium(1)|kidney(2)|large_intestine(5)|lung(4)|ovary(1)|prostate(1)|urinary_tract(1)	15						TGTACAGCCGAAGAGGCTCAA	0.557																																																0													54	57	56					9																	131515779		2203	4300	6503	SO:0001589	frameshift_variant	10444			X99802	CCDS6910.1	9q33.3	2013-01-17	2012-12-10	2007-01-04	ENSG00000160445	ENSG00000160445		"ZYG11 cell cycle regulator family"	30960	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 60", "zyg-11 homolog B (C. elegans)-like", "zer-1 homolog (C. elegans)"	C9orf60, ZYG11BL		11719588	Standard	NM_006336		Approved	ZYG, Hzyg	uc004bwa.2	Q7Z7L7	OTTHUMG00000020759	ENST00000291900.2:c.410delT	9.37:g.131515779delA	ENSP00000291900:p.Phe137fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00156|Q5T272|Q5T273	Frame_Shift_Del	DEL	ENST00000291900.2	37	CCDS6910.1																																																																																				0.557	ZER1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054491.1	NM_006336		-	131515779	A	-	131515779	7	5	584	1	0	1	0	1	0	0	0	0	17637	246	9	0	1942	0	ZER1	9	131515779	Frame_Shift_Del	DEL	A	TCGA-EV-5902-01A-11D-1589-08	5743045	131515779	9697652	60	34699										
TUBB2C	10383	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	140137389	140137389	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gagtggggtcaccacctgccTgcgcttcccaggccagctca	12	16	2	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr9:140137389T>C	ENST00000340384.4	+	4	867	c.719T>C	c.(718-720)cTg>cCg	p.L240P		NM_006088.5	NP_006079.1	P68371	TBB4B_HUMAN	tubulin, beta 4B class IVb	240					'de novo' posttranslational protein folding (GO:0051084)|cellular component movement (GO:0006928)|cellular protein metabolic process (GO:0044267)|G2/M transition of mitotic cell cycle (GO:0000086)|microtubule-based process (GO:0007017)|mitotic cell cycle (GO:0000278)|natural killer cell mediated cytotoxicity (GO:0042267)|protein folding (GO:0006457)|protein polymerization (GO:0051258)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|nucleus (GO:0005634)|vesicle (GO:0031982)	double-stranded RNA binding (GO:0003725)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|MHC class I protein binding (GO:0042288)|structural constituent of cytoskeleton (GO:0005200)|unfolded protein binding (GO:0051082)									Albendazole(DB00518)|Mebendazole(DB00643)	ACCACCTGCCTGCGCTTCCCA	0.592																																																0													30	31	31					9																	140137389		2200	4290	6490	SO:0001583	missense	10383			BC019359	CCDS7039.1	9q34.3	2011-10-10	2011-10-10	2011-10-10	ENSG00000188229	ENSG00000188229		"Tubulins"	20771	protein-coding gene	gene with protein product	"class IVb beta-tubulin"	602660	"tubulin, beta 2C"	TUBB2C		3999141	Standard	NM_006088		Approved	Beta2	uc004cmh.1	P68371	OTTHUMG00000131783	ENST00000340384.4:c.719T>C	9.37:g.140137389T>C	ENSP00000341289:p.Leu240Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A2BFA2|P05217	Missense_Mutation	SNP	ENST00000340384.4	37	CCDS7039.1	.	.	.	.	.	.	.	.	.	.	T	16.11	3.029097	0.54790	.	.	ENSG00000188229	ENST00000340384	T	0.71934	-0.61	5.57	5.57	0.84162	.	0.000000	0.53938	D	0.000043	D	0.91955	0.7452	H	0.99919	4.95	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.95434	0.8519	10	0.87932	D	0	.	14.5794	0.68274	0.0:0.0:0.0:1.0	.	240	P68371	TBB4B_HUMAN	P	240	ENSP00000341289:L240P	ENSP00000341289:L240P	L	+	2	0	TUBB2C	139257210	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	6.111000	0.71541	2.122000	0.65172	0.533000	0.62120	CTG		0.592	TUBB4B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254715.1	NM_006088		C	140137389	T	C	140137389	3	2	584	1	0	0	0	0	1	0	0	0	16768	1580	55	3	733	3	TUBB2C	9	140137389	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08	8621610	140137389	1076042	61	34700										
WDR37	22884	hgsc.bcm.edu	37	chr10	1151150	1151150	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ccgtgacacgactttccgccTctgggatttcagggacccct	10	15	2	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr10:1151150T>C	ENST00000358220.1	+	11	1190	c.1046T>C	c.(1045-1047)cTc>cCc	p.L349P	WDR37_ENST00000263150.4_Missense_Mutation_p.L349P			Q9Y2I8	WDR37_HUMAN	WD repeat domain 37	349										breast(2)|endometrium(2)|kidney(1)|lung(9)|prostate(2)|skin(1)	17		all_epithelial(10;0.0449)|Colorectal(49;0.142)		Epithelial(11;0.134)		ACTTTCCGCCTCTGGGATTTC	0.562																																																0													83	67	72					10																	1151150		2203	4300	6503	SO:0001583	missense	22884			AB023199	CCDS7057.1	10p15.3	2013-01-09			ENSG00000047056	ENSG00000047056		"WD repeat domain containing"	31406	protein-coding gene	gene with protein product						10231032, 11230166	Standard	NM_014023		Approved	KIAA0982	uc001igf.1	Q9Y2I8	OTTHUMG00000017540	ENST00000358220.1:c.1046T>C	10.37:g.1151150T>C	ENSP00000350954:p.Leu349Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K976|D3DRQ7|Q5SW03|Q8WVG2|Q9NTJ6	Missense_Mutation	SNP	ENST00000358220.1	37	CCDS7057.1	.	.	.	.	.	.	.	.	.	.	T	27.6	4.843266	0.91197	.	.	ENSG00000047056	ENST00000358220;ENST00000263150	T;T	0.67345	-0.26;-0.26	5.6	5.6	0.85130	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.000000	0.85682	D	0.000000	D	0.85483	0.5707	M	0.91872	3.25	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.88902	0.3353	10	0.87932	D	0	.	15.7724	0.78180	0.0:0.0:0.0:1.0	.	350;349	A8K976;Q9Y2I8	.;WDR37_HUMAN	P	349	ENSP00000350954:L349P;ENSP00000263150:L349P	ENSP00000263150:L349P	L	+	2	0	WDR37	1141150	1.000000	0.71417	0.997000	0.53966	0.988000	0.76386	7.736000	0.84948	2.133000	0.65898	0.459000	0.35465	CTC		0.562	WDR37-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046418.1	NM_014023		C	1151150	T	C	1151150	3	2	584	1	0	0	0	0	1	0	0	0	17303	1551	54	3	1084	3	WDR37	10	1151150	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08		1151150	134383597	62	34701										
ABLIM1	3983	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	116225561	116225561	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ggctcgtggaccgatggatcAtccgatcccgaacatcctgg	12	13	1	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr10:116225561A>G	ENST00000277895.5	-	12	1434	c.1337T>C	c.(1336-1338)aTg>aCg	p.M446T	ABLIM1_ENST00000369266.3_Missense_Mutation_p.M158T|ABLIM1_ENST00000369253.2_Missense_Mutation_p.M104T|ABLIM1_ENST00000369252.4_Missense_Mutation_p.M386T|ABLIM1_ENST00000533213.2_Missense_Mutation_p.M386T|ABLIM1_ENST00000392952.3_Missense_Mutation_p.M158T	NM_002313.5	NP_002304.3	O14639	ABLM1_HUMAN	actin binding LIM protein 1	446					axon guidance (GO:0007411)|cilium assembly (GO:0042384)|cytoskeleton organization (GO:0007010)|lamellipodium assembly (GO:0030032)|organ morphogenesis (GO:0009887)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|visual perception (GO:0007601)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|lamellipodium (GO:0030027)|stress fiber (GO:0001725)	actin binding (GO:0003779)|zinc ion binding (GO:0008270)			breast(3)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(11)|prostate(2)|skin(2)|stomach(1)|urinary_tract(1)	30		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		CCGATGGATCATCCGATCCCG	0.557																																																0													215	192	200					10																	116225561		2203	4300	6503	SO:0001583	missense	3983			AF005654	CCDS7590.1, CCDS31289.1	10q25	2008-07-07		2002-09-13	ENSG00000099204	ENSG00000099204			78	protein-coding gene	gene with protein product		602330		LIMAB1, ABLIM		9245787	Standard	NM_002313		Approved	abLIM, limatin	uc021pyw.1	O14639	OTTHUMG00000019088	ENST00000277895.5:c.1337T>C	10.37:g.116225561A>G	ENSP00000277895:p.Met446Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NI16|A6NJ06|A8MXA9|B3KVH2|Q15039|Q5JVV1|Q5JVV2|Q5T6N2|Q5T6N3|Q5T6N5|Q68CQ9|Q9BUP1	Missense_Mutation	SNP	ENST00000277895.5	37	CCDS7590.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	10.82|10.82	1.459451|1.459451	0.26248|0.26248	.|.	.|.	ENSG00000099204|ENSG00000099204	ENST00000336585;ENST00000369252;ENST00000392952;ENST00000369257;ENST00000369267;ENST00000533213;ENST00000369262;ENST00000369263;ENST00000369266;ENST00000369256;ENST00000369260;ENST00000277895;ENST00000369253;ENST00000440467;ENST00000428430|ENST00000392955	T;T;T;T;T;T|.	0.54866|.	0.55;0.55;0.55;0.55;0.55;0.55|.	5.41|5.41	5.41|5.41	0.78517|0.78517	.|.	0.318695|.	0.42548|.	D|.	0.000696|.	T|.	0.38295|.	0.1035|.	N|N	0.08118|0.08118	0|0	0.36815|0.36815	D|D	0.88611|0.88611	B;B;B;B;B;B;B;B;B|.	0.15930|.	0.0;0.002;0.015;0.0;0.0;0.001;0.001;0.0;0.002|.	B;B;B;B;B;B;B;B;B|.	0.22386|.	0.002;0.005;0.039;0.002;0.001;0.004;0.003;0.001;0.009|.	T|.	0.45745|.	-0.9240|.	10|.	0.15499|.	T|.	0.54|.	.|.	14.3083|14.3083	0.66397|0.66397	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	370;130;386;414;446;158;414;370;104|.	B7Z4H1;B4DQA3;F8W8M4;A6NKJ2;O14639;O14639-5;B3KVH2;C9K0X4;O14639-4|.	.;.;.;.;ABLM1_HUMAN;.;.;.;.|.	T|R	446;386;158;104;414;386;474;370;158;370;370;474;158;111;130|355	ENSP00000358256:M386T;ENSP00000376679:M158T;ENSP00000433629:M386T;ENSP00000358270:M158T;ENSP00000414154:M111T;ENSP00000400934:M130T|.	ENSP00000277895:M474T|.	M|X	-|-	2|1	0|0	ABLIM1|ABLIM1	116215551|116215551	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.997000|0.997000	0.91878|0.91878	6.016000|6.016000	0.70798|0.70798	2.185000|2.185000	0.69588|0.69588	0.528000|0.528000	0.53228|0.53228	ATG|TGA		0.557	ABLIM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050469.3			G	116225561	A	G	116225561	3	3	584	1	0	0	0	0	1	0	0	0	94	217	8	3	1043	3	ABLIM1	10	116225561	Missense_Mutation	SNP	A	TCGA-EV-5902-01A-11D-1589-08	115074411	116225561	19309186	63	34702										
TRIM22	10346	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	5717510	5717510	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gagaaggaggtgacctgcccCatctgcctggagctcctgac	13	13	1	3			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr11:5717510C>T	ENST00000379965.3	+	2	325	c.48C>T	c.(46-48)ccC>ccT	p.P16P	TRIM5_ENST00000380027.1_Intron	NM_001199573.1|NM_006074.4	NP_001186502.1|NP_006065.2	Q8IYM9	TRI22_HUMAN	tripartite motif containing 22	16					defense response to virus (GO:0051607)|immune response (GO:0006955)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|protein trimerization (GO:0070206)|protein ubiquitination (GO:0016567)|regulation of transcription, DNA-templated (GO:0006355)|response to virus (GO:0009615)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ligase activity (GO:0016874)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			kidney(3)|large_intestine(8)|lung(9)|prostate(1)|stomach(2)	23		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;7.54e-09)|BRCA - Breast invasive adenocarcinoma(625;0.14)		TGACCTGCCCCATCTGCCTGG	0.502																																					GBM(104;491 2336 5222)											0													87	92	90					11																	5717510		2201	4297	6498	SO:0001819	synonymous_variant	10346			X82200	CCDS41612.1	11p15	2013-01-09	2011-01-25		ENSG00000132274	ENSG00000132274		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	16379	protein-coding gene	gene with protein product		606559	"tripartite motif-containing 22"			11331580, 11096452	Standard	NM_006074		Approved	STAF50, GPSTAF50, RNF94	uc001mbr.3	Q8IYM9	OTTHUMG00000066904	ENST00000379965.3:c.48C>T	11.37:g.5717510C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q05CQ0|Q15521	Silent	SNP	ENST00000379965.3	37	CCDS41612.1																																																																																				0.502	TRIM22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000143387.2	NM_006074		T	5717510	C	T	5717510	2	4	584	1	0	0	0	0	0	0	0	1	16508	581	21	2		2	TRIM22	11	5717510	Silent	SNP	C	TCGA-EV-5902-01A-11D-1589-08		5717510	129289006	64	34703										
INCENP	3619	broad.mit.edu	37	chr11	61916013	61916015	+	In_Frame_Del	DEL	AGA	AGA	-													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gctgcagagggaactggaggAgaagaagaagaaggtgaggg					rs79863590		TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr11:61916013_61916015delAGA	ENST00000394818.3	+	16	2472_2474	c.2270_2272delAGA	c.(2269-2274)gagaag>gag	p.K761del	INCENP_ENST00000278849.4_In_Frame_Del_p.K757del	NM_001040694.1	NP_001035784.1	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	761					chromosome segregation (GO:0007059)|cytokinesis (GO:0000910)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	central element (GO:0000801)|chromocenter (GO:0010369)|chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|kinetochore (GO:0000776)|lateral element (GO:0000800)|microtubule (GO:0005874)|midbody (GO:0030496)|pericentric heterochromatin (GO:0005721)|protein complex (GO:0043234)|spindle (GO:0005819)				breast(1)|endometrium(1)|kidney(6)|large_intestine(2)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	19						GAACTGGAGGAGAAGAAGAAGAA	0.655																																																0																																										SO:0001651	inframe_deletion	3619			AF282265	CCDS31582.1, CCDS44624.1	11q12.3	2013-01-17	2002-08-29		ENSG00000149503	ENSG00000149503			6058	protein-coding gene	gene with protein product		604411	"inner centromere protein antigens (135kD, 155kD)"			1860899, 11453556	Standard	NM_001040694		Approved	FLJ31633	uc001nsw.1	Q9NQS7	OTTHUMG00000167470	ENST00000394818.3:c.2270_2272delAGA	11.37:g.61916022_61916024delAGA	ENSP00000378295:p.Lys761del	Somatic		WXS	Illumina HiSeq	Phase_I	A8MQD2|Q5Y192	In_Frame_Del	DEL	ENST00000394818.3	37	CCDS44624.1																																																																																				0.655	INCENP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000394723.2	NM_020238		-	61916015	AGA	-	61916013	7	5	584	1	0	1	0	1	0	0	0	0	7740	304	11	0	2328	0	INCENP	11	61916013	In_Frame_Del	DEL	AGA	TCGA-EV-5902-01A-11D-1589-08	56198503	61916013	73090503	65	34704										
GPR137	56834	broad.mit.edu	37	chr11	64056826	64056826	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	cctgtcatagtgagcttgtgCcgtccccctaggatgggggg	15	11	1	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr11:64056826C>T	ENST00000313074.3	+	7	1348	c.1243C>T	c.(1243-1245)Ccg>Tcg	p.P415S	KCNK4_ENST00000538767.1_5'Flank|RP11-783K16.10_ENST00000539086.1_RNA|KCNK4_ENST00000394525.2_5'Flank|GPR137_ENST00000539851.1_3'UTR|GPR137_ENST00000438980.2_3'UTR|GPR137_ENST00000377702.4_3'UTR|GPR137_ENST00000411458.1_Missense_Mutation_p.P473S|KCNK4_ENST00000422670.2_5'Flank	NM_020155.3	NP_064540.3	Q96N19	G137A_HUMAN	G protein-coupled receptor 137	415						integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(3)|kidney(1)|lung(4)|skin(1)	10						TGAGCTTGTGCCGTCCCCCTA	0.647																																																0													61	61	61					11																	64056826		2201	4297	6498	SO:0001583	missense	56834			AJ250392	CCDS8066.1, CCDS53655.1, CCDS53656.1, CCDS53657.1, CCDS53658.1	11q13.1	2014-02-12	2006-01-26		ENSG00000173264	ENSG00000173264		"GPCR / Unclassified : 7TM orphan receptors"	24300	protein-coding gene	gene with protein product						10873569, 12732197	Standard	NM_001170726		Approved	C11orf4, GPR137A, TM7SF1L1	uc010rni.2	Q96N19	OTTHUMG00000167817	ENST00000313074.3:c.1243C>T	11.37:g.64056826C>T	ENSP00000321698:p.Pro415Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTG7|B7Z7M1|Q4G0Y9|Q8N4K6	Missense_Mutation	SNP	ENST00000313074.3	37	CCDS8066.1	.	.	.	.	.	.	.	.	.	.	C	9.310	1.055330	0.19907	.	.	ENSG00000173264	ENST00000411458;ENST00000313074	T;T	0.51574	0.7;0.85	5.27	3.38	0.38709	.	1.323320	0.05536	N	0.564845	T	0.30293	0.0760	N	0.08118	0	0.58432	D	0.999993	B;B	0.09022	0.002;0.0	B;B	0.08055	0.003;0.001	T	0.06991	-1.0796	10	0.49607	T	0.09	-0.0272	7.3883	0.26895	0.0:0.7394:0.1696:0.091	.	473;415	B4DTG7;Q96N19	.;G137A_HUMAN	S	473;415	ENSP00000411827:P473S;ENSP00000321698:P415S	ENSP00000321698:P415S	P	+	1	0	GPR137	63813402	0.698000	0.27777	0.584000	0.28653	0.551000	0.35334	1.531000	0.36018	0.718000	0.32166	0.561000	0.74099	CCG		0.647	GPR137-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000396412.1	NM_020155		T	64056826	C	T	64056826	3	4	584	1	0	0	0	0	1	0	0	0	6652	739	26	2	1557	2	GPR137	11	64056826	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	2140813	64056826	70949690	66	34705										
ARHGEF17	9828	ucsc.edu;bcgsc.ca	37	chr11	73073120	73073120	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	cccaccctgaacagctgcccGgagccctcgcctgaggtatg	11	17	0	2	rs200742689		TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr11:73073120G>T	ENST00000263674.3	+	13	4880	c.4530G>T	c.(4528-4530)ccG>ccT	p.P1510P		NM_014786.3	NP_055601.2	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	1510					actin cytoskeleton organization (GO:0030036)|apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	guanyl-nucleotide exchange factor activity (GO:0005085)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(15)|ovary(2)|skin(2)	32						ACAGCTGCCCGGAGCCCTCGC	0.662																																																0													29	31	30					11																	73073120		2200	4292	6492	SO:0001819	synonymous_variant	9828			AF378754	CCDS8221.1	11q13.3	2011-11-16			ENSG00000110237	ENSG00000110237		"Rho guanine nucleotide exchange factors"	21726	protein-coding gene	gene with protein product	"Rho-specific guanine-nucleotide exchange factor 164 kDa", "tumor endothelial marker 4"					11559528, 12071859	Standard	NM_014786		Approved	TEM4, KIAA0337, p164-RhoGEF	uc001otu.3	Q96PE2	OTTHUMG00000167971	ENST00000263674.3:c.4530G>T	11.37:g.73073120G>T		Somatic		WXS	Illumina HiSeq		B2RP20|Q86XU2|Q8N2S0|Q9Y4G3	Silent	SNP	ENST00000263674.3	37	CCDS8221.1																																																																																				0.662	ARHGEF17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397365.1	NM_014786		T	73073120	G	T	73073120	2	4	584	1	0	0	0	0	0	0	0	1	900	1103	39	4		4	ARHGEF17	11	73073120	Silent	SNP	G	TCGA-EV-5902-01A-11D-1589-08	9016294	73073120	61933396	67	34706										
OR2AT4	341152	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	74800733	74800733	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	agacgggtgagccatccactGattcattacaggctgtggca	12	10	1	3			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr11:74800733G>A	ENST00000305159.3	-	1	66	c.26C>T	c.(25-27)tCa>tTa	p.S9L		NM_001005285.1	NP_001005285.1	A6NND4	O2AT4_HUMAN	olfactory receptor, family 2, subfamily AT, member 4	9						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(3)|large_intestine(3)|lung(3)|ovary(1)|upper_aerodigestive_tract(2)	12						GCCATCCACTGATTCATTACA	0.473																																																0													50	52	51					11																	74800733		2200	4292	6492	SO:0001583	missense	341152			BK004820	CCDS31639.1	11q13.4	2012-08-09			ENSG00000171561	ENSG00000171561		"GPCR / Class A : Olfactory receptors"	19620	protein-coding gene	gene with protein product							Standard	NM_001005285		Approved		uc010rro.2	A6NND4	OTTHUMG00000165370	ENST00000305159.3:c.26C>T	11.37:g.74800733G>A	ENSP00000304846:p.Ser9Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGZ8	Missense_Mutation	SNP	ENST00000305159.3	37	CCDS31639.1	.	.	.	.	.	.	.	.	.	.	G	15.90	2.970843	0.53614	.	.	ENSG00000171561	ENST00000305159	T	0.54675	0.56	4.58	4.58	0.56647	.	0.000000	0.28241	U	0.016072	T	0.31702	0.0805	N	0.08118	0	0.36873	D	0.88902	P	0.49783	0.928	B	0.37601	0.254	T	0.51903	-0.8646	10	0.87932	D	0	.	15.2827	0.73801	0.0:0.0:1.0:0.0	.	9	A6NND4	O2AT4_HUMAN	L	9	ENSP00000304846:S9L	ENSP00000304846:S9L	S	-	2	0	OR2AT4	74478381	0.991000	0.36638	0.999000	0.59377	0.919000	0.55068	2.954000	0.49113	2.533000	0.85409	0.462000	0.41574	TCA		0.473	OR2AT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383734.1	NM_001005285		A	74800733	G	A	74800733	3	1	584	1	0	0	0	0	1	0	0	0	10994	1294	45	2	939	2	OR2AT4	11	74800733	Missense_Mutation	SNP	G	TCGA-EV-5902-01A-11D-1589-08	1727613	74800733	60205783	68	34707										
MYO7A	4647	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	76867021	76867021	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tccatctactcgccagagcaCatccgccagtataccaacaa	5	16	1	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr11:76867021C>T	ENST00000409709.3	+	5	626	c.354C>T	c.(352-354)caC>caT	p.H118H	MYO7A_ENST00000409893.1_Silent_p.H118H|MYO7A_ENST00000409619.2_Silent_p.H107H|MYO7A_ENST00000458637.2_Silent_p.H118H	NM_000260.3	NP_000251.3	Q13402	MYO7A_HUMAN	myosin VIIA	118	Myosin motor.				actin filament-based movement (GO:0030048)|auditory receptor cell stereocilium organization (GO:0060088)|equilibrioception (GO:0050957)|eye photoreceptor cell development (GO:0042462)|intracellular protein transport (GO:0006886)|lysosome organization (GO:0007040)|metabolic process (GO:0008152)|phagolysosome assembly (GO:0001845)|pigment granule transport (GO:0051904)|post-embryonic organ morphogenesis (GO:0048563)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|lysosomal membrane (GO:0005765)|melanosome (GO:0042470)|myosin VII complex (GO:0031477)|photoreceptor connecting cilium (GO:0032391)|photoreceptor inner segment (GO:0001917)|photoreceptor outer segment (GO:0001750)|stereocilium (GO:0032420)|synapse (GO:0045202)	actin filament binding (GO:0051015)|actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|calmodulin binding (GO:0005516)|microfilament motor activity (GO:0000146)|spectrin binding (GO:0030507)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(10)|lung(32)|ovary(4)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	64						CGCCAGAGCACATCCGCCAGT	0.562																																																0													35	39	38					11																	76867021		2139	4251	6390	SO:0001819	synonymous_variant	4647			U39226	CCDS53683.1, CCDS53684.1, CCDS53685.1	11q13.5	2013-01-08	2005-09-12		ENSG00000137474	ENSG00000137474		"A-kinase anchor proteins", "Myosins / Myosin superfamily : Class VII"	7606	protein-coding gene	gene with protein product		276903	"myosin VIIA (Usher syndrome 1B (autosomal recessive, severe))"	USH1B, DFNB2, DFNA11		8884266	Standard	NM_000260		Approved	NSRD2	uc001oyb.2	Q13402	OTTHUMG00000152822	ENST00000409709.3:c.354C>T	11.37:g.76867021C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B9A011|F8VUN5|P78427|Q13321|Q14785|Q92821|Q92822	Silent	SNP	ENST00000409709.3	37	CCDS53683.1																																																																																				0.562	MYO7A-001	KNOWN	non_canonical_conserved|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000328133.1	NM_000260		T	76867021	C	T	76867021	2	4	584	1	0	0	0	0	0	0	0	1	10089	477	17	2		2	MYO7A	11	76867021	Silent	SNP	C	TCGA-EV-5902-01A-11D-1589-08	2066288	76867021	58139495	69	34708										
GAB2	9846	broad.mit.edu	37	chr11	77991912	77991912	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tctgggtcaccgctcatccgGccactccgcaggataaacca	9	16	3	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr11:77991912G>A	ENST00000361507.4	-	2	196	c.111C>T	c.(109-111)ggC>ggT	p.G37G	GAB2_ENST00000526030.1_5'UTR|GAB2_ENST00000340149.2_5'UTR	NM_080491.2	NP_536739.1	Q9UQC2	GAB2_HUMAN	GRB2-associated binding protein 2	37	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				cell migration (GO:0016477)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|integrin-mediated signaling pathway (GO:0007229)|osteoclast differentiation (GO:0030316)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell proliferation (GO:0008284)|positive regulation of mast cell degranulation (GO:0043306)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|plasma membrane (GO:0005886)	phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)|transmembrane receptor protein tyrosine kinase adaptor activity (GO:0005068)		INTS4/GAB2(2)	NS(1)|breast(1)|endometrium(5)|kidney(1)|large_intestine(1)|lung(8)|ovary(5)|skin(1)|upper_aerodigestive_tract(1)	24	all_cancers(14;3.31e-18)|all_epithelial(13;5.3e-21)|Breast(9;5.6e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1.58e-23)			CGCTCATCCGGCCACTCCGCA	0.463																																																0													83	84	83					11																	77991912		2200	4292	6492	SO:0001819	synonymous_variant	9846			AB011143	CCDS8259.1, CCDS8260.1	11q13.4-q13.5	2013-01-10			ENSG00000033327	ENSG00000033327		"Pleckstrin homology (PH) domain containing"	14458	protein-coding gene	gene with protein product	"Grb2-associated binder 2"	606203				10391903, 10068651	Standard	NM_080491		Approved	KIAA0571	uc001ozh.3	Q9UQC2	OTTHUMG00000166673	ENST00000361507.4:c.111C>T	11.37:g.77991912G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2RRM2|A6NEW9|A7MD36|O60317	Silent	SNP	ENST00000361507.4	37	CCDS8259.1																																																																																				0.463	GAB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391085.1	NM_080491		A	77991912	G	A	77991912	2	1	584	1	0	0	0	0	0	0	0	1	6156	1190	42	2		2	GAB2	11	77991912	Silent	SNP	G	TCGA-EV-5902-01A-11D-1589-08	1124891	77991912	57014604	70	34709										
C12orf26	84190	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	82752495	82752495	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	aatccgtgtgggaggagctgGtcgacttgccaccggagaca	15	10	0	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr12:82752495G>A	ENST00000248306.3	+	1	220	c.151G>A	c.(151-153)Gtc>Atc	p.V51I	CCDC59_ENST00000548126.1_5'UTR|CCDC59_ENST00000256151.7_5'UTR|METTL25_ENST00000547357.1_3'UTR	NM_032230.2	NP_115606.2	Q8N6Q8	MET25_HUMAN	methyltransferase like 25	51							methyltransferase activity (GO:0008168)										GGAGGAGCTGGTCGACTTGCC	0.602											OREG0022008	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													94	79	84					12																	82752495		2203	4300	6503	SO:0001583	missense	84190			BC029120	CCDS9024.1	12q21.31	2012-08-13	2012-08-13	2012-08-13	ENSG00000127720	ENSG00000127720			26228	protein-coding gene	gene with protein product			"chromosome 12 open reading frame 26"	C12orf26			Standard	NM_032230		Approved	FLJ22789	uc001szq.3	Q8N6Q8	OTTHUMG00000170252	ENST00000248306.3:c.151G>A	12.37:g.82752495G>A	ENSP00000248306:p.Val51Ile	Somatic	1216	WXS	Illumina HiSeq	Phase_I	Q9H5Y3	Missense_Mutation	SNP	ENST00000248306.3	37	CCDS9024.1	.	.	.	.	.	.	.	.	.	.	G	14.10	2.434382	0.43224	.	.	ENSG00000127720	ENST00000248306;ENST00000548200	T	0.36340	1.26	5.49	1.42	0.22433	.	0.278728	0.40222	N	0.001147	T	0.25494	0.0620	L	0.44542	1.39	0.26395	N	0.976518	B	0.13145	0.007	B	0.15052	0.012	T	0.15378	-1.0439	10	0.29301	T	0.29	-2.0635	7.0129	0.24873	0.2126:0.1248:0.6626:0.0	.	51	Q8N6Q8	CL026_HUMAN	I	51	ENSP00000248306:V51I	ENSP00000248306:V51I	V	+	1	0	C12orf26	81276626	0.991000	0.36638	0.064000	0.19789	0.869000	0.49853	0.289000	0.18957	0.294000	0.22547	0.650000	0.86243	GTC		0.602	METTL25-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408192.1	NM_032230		A	82752495	G	A	82752495	3	1	584	1	0	0	0	0	1	0	0	0	1681	1261	44	2	153	2	C12orf26	12	82752495	Missense_Mutation	SNP	G	TCGA-EV-5902-01A-11D-1589-08		82752495	51099400	71	34710										
SBNO1	55206	broad.mit.edu	37	chr12	123780522	123780522	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	atagctgtttctgttggaccGcaagctgttgagactggtct	12	8	2	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr12:123780522G>A	ENST00000602398.1	-	32	4242	c.4115C>T	c.(4114-4116)gCg>gTg	p.A1372V	SBNO1_ENST00000602750.1_Missense_Mutation_p.A1371V|SBNO1_ENST00000267176.4_Missense_Mutation_p.A1371V|SBNO1_ENST00000420886.2_Missense_Mutation_p.A1372V			A3KN83	SBNO1_HUMAN	strawberry notch homolog 1 (Drosophila)	1372					regulation of transcription, DNA-templated (GO:0006355)			p.A1371V(2)		NS(2)|breast(6)|cervix(2)|endometrium(8)|kidney(3)|large_intestine(11)|lung(18)|ovary(2)|pancreas(1)|prostate(3)|skin(4)|stomach(2)	62	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		CTGTTGGACCGCAAGCTGTTG	0.433																																																2	Substitution - Missense(2)	lung(1)|prostate(1)											340	303	316					12																	123780522		2203	4300	6503	SO:0001583	missense	55206			AK001563	CCDS9246.1, CCDS53844.1	12q24.31	2006-10-06	2006-10-06			ENSG00000139697			22973	protein-coding gene	gene with protein product		614274	"sno, strawberry notch homolog 1 (Drosophila)"				Standard	NM_018183		Approved	MOP3, FLJ10701, FLJ10833, Sno	uc010tap.2	A3KN83		ENST00000602398.1:c.4115C>T	12.37:g.123780522G>A	ENSP00000473665:p.Ala1372Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q05C06|Q3ZTS3|Q9H3T8|Q9NVB2	Missense_Mutation	SNP	ENST00000602398.1	37	CCDS53844.1	.	.	.	.	.	.	.	.	.	.	G	25.3	4.622923	0.87460	.	.	ENSG00000139697	ENST00000420886;ENST00000267176	T;T	0.32515	1.45;1.45	6.04	6.04	0.98038	.	0.000000	0.85682	D	0.000000	T	0.45236	0.1332	L	0.27053	0.805	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.73708	0.959;0.981	T	0.12785	-1.0534	10	0.33940	T	0.23	-19.465	20.5792	0.99380	0.0:0.0:1.0:0.0	.	1372;1371	A3KN83;A3KN83-2	SBNO1_HUMAN;.	V	1372;1371	ENSP00000387361:A1372V;ENSP00000267176:A1371V	ENSP00000267176:A1371V	A	-	2	0	SBNO1	122346475	1.000000	0.71417	0.790000	0.31976	0.976000	0.68499	9.431000	0.97494	2.873000	0.98535	0.561000	0.74099	GCG		0.433	SBNO1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000467684.1	NM_018183		A	123780522	G	A	123780522	3	1	584	1	0	0	0	0	1	0	0	0	13875	1087	38	1	70	1	SBNO1	12	123780522	Missense_Mutation	SNP	G	TCGA-EV-5902-01A-11D-1589-08	41028027	123780522	10071373	72	34711										
C13orf23	80209	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	39587414	39587414	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gctggagagacctgacaatgCaggattaaggcaagcagata	13	7	0	3			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr13:39587414C>A	ENST00000352251.3	-	11	2808	c.1975G>T	c.(1975-1977)Gca>Tca	p.A659S	PROSER1_ENST00000350125.3_Missense_Mutation_p.A637S|PROSER1_ENST00000484434.3_Intron	NM_025138.4	NP_079414.3	Q86XN7	PRSR1_HUMAN	proline and serine rich 1	659	Ser-rich.																CCTGACAATGCAGGATTAAGG	0.478																																																0													131	122	125					13																	39587414		2203	4300	6503	SO:0001583	missense	80209			AK022723	CCDS9368.2	13q13.2	2011-08-09	2011-08-09	2011-08-09	ENSG00000120685	ENSG00000120685			20291	protein-coding gene	gene with protein product			"chromosome 13 open reading frame 23"	C13orf23			Standard	NM_025138		Approved	bA50D16.2, FLJ12661	uc001uwy.4	Q86XN7	OTTHUMG00000016764	ENST00000352251.3:c.1975G>T	13.37:g.39587414C>A	ENSP00000332034:p.Ala659Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJ97|Q6P2S2|Q7Z3X5|Q8N3D2|Q8N3P1|Q9H9M1	Missense_Mutation	SNP	ENST00000352251.3	37	CCDS9368.2	.	.	.	.	.	.	.	.	.	.	C	10.07	1.248685	0.22880	.	.	ENSG00000120685	ENST00000352251;ENST00000350125	T;T	0.47528	0.84;0.84	5.27	2.55	0.30701	.	.	.	.	.	T	0.32793	0.0841	L	0.29908	0.895	0.09310	N	1	P;P	0.45531	0.86;0.775	B;B	0.38264	0.269;0.197	T	0.05971	-1.0853	8	.	.	.	-13.5541	10.4949	0.44772	0.0:0.7738:0.0:0.2262	.	637;659	A6NJ97;Q86XN7	.;PRSR1_HUMAN	S	659;637	ENSP00000332034:A659S;ENSP00000339123:A637S	.	A	-	1	0	PROSER1	38485414	0.982000	0.34865	0.377000	0.26055	0.533000	0.34776	2.976000	0.49289	0.711000	0.32018	0.561000	0.74099	GCA		0.478	PROSER1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044607.5	NM_025138		A	39587414	C	A	39587414	3	1	584	1	0	0	0	0	1	0	0	0	1723	710	25	4	871	4	C13orf23	13	39587414	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08		39587414	75582464	73	34712										
ZC3H13	23091	broad.mit.edu;bcgsc.ca	37	chr13	46543501	46543502	+	Frame_Shift_Ins	INS	-	-	T													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tcactgaatgctgtatcttcINSttttttctgggagtcctcta							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr13:46543501_46543502insT	ENST00000242848.4	-	14	3525_3526	c.3177_3178insA	c.(3175-3180)aaagaafs	p.E1060fs	ZC3H13_ENST00000378921.2_Frame_Shift_Ins_p.E16fs|ZC3H13_ENST00000282007.3_Frame_Shift_Ins_p.E1060fs			Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	1060							metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(27)|lung(25)|ovary(2)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	79		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)		GCTGTATCTTCTTTTTTCTGGG	0.475																																					Esophageal Squamous(187;747 2077 11056 31291 44172)											0																																										SO:0001589	frameshift_variant	23091			AB020660	CCDS9400.1	13q14.11	2012-07-05	2006-05-15	2006-05-15	ENSG00000123200	ENSG00000123200		"Zinc fingers, CCCH-type domain containing"	20368	protein-coding gene	gene with protein product			"KIAA0853"	KIAA0853		10048485	Standard	XM_005266301		Approved	DKFZp434D1812	uc001vas.1	Q5T200	OTTHUMG00000016863	ENST00000242848.4:c.3178dupA	13.37:g.46543507_46543507dupT	ENSP00000242848:p.Glu1060fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2A323|O94936|Q5T1Z9|Q7Z7J3|Q8NDT6|Q9H0L6	Frame_Shift_Ins	INS	ENST00000242848.4	37																																																																																					0.475	ZC3H13-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000044789.1	NM_015070		T	46543502	-	T	46543501	7	5	584	1	0	1	1	0	0	0	0	0	17577	922	32	0	1532	0	ZC3H13	13	46543501	Frame_Shift_Ins	INS	-	TCGA-EV-5902-01A-11D-1589-08	6956087	46543501	68626377	74	34713										
DACH1	1602	hgsc.bcm.edu	37	chr13	72440673	72440673	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tccgctgccgccgccgccgcCgccgccgccgccgccggtag	14	23	0	0	rs200162861		TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr13:72440673C>T	ENST00000359684.2	-	1	234	c.235G>A	c.(235-237)Ggc>Agc	p.G79S	DACH1_ENST00000354591.4_Missense_Mutation_p.G79S|DACH1_ENST00000313174.7_Missense_Mutation_p.G79S|DACH1_ENST00000305425.4_Missense_Mutation_p.G79S			Q9UI36	DACH1_HUMAN	dachshund family transcription factor 1	79	Poly-Gly.				cell proliferation (GO:0008283)|development of primary female sexual characteristics (GO:0046545)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation involved in contact inhibition (GO:0060244)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of transcription by competitive promoter binding (GO:0010944)|respiratory gaseous exchange (GO:0007585)|suckling behavior (GO:0001967)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity involved in preinitiation complex assembly (GO:0001075)			NS(1)|breast(2)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(23)|ovary(1)|pancreas(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	41		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)		ccgccgccgccgccgccgccg	0.801																																																0													1	1	1					13																	72440673		224	1002	1226	SO:0001583	missense	1602			AJ005670	CCDS41899.1, CCDS53874.1, CCDS53873.1	13q22	2014-02-03	2014-02-03	2004-04-02	ENSG00000165659	ENSG00000276644			2663	protein-coding gene	gene with protein product		603803	"dachshund homolog (Drosophila)", "dachshund homolog 1 (Drosophila)"	DACH		9933575, 10395809, 15057823	Standard	NM_004392		Approved		uc021rkj.1	Q9UI36	OTTHUMG00000017063	ENST00000359684.2:c.235G>A	13.37:g.72440673C>T	ENSP00000352712:p.Gly79Ser	Somatic		WXS	Illumina HiSeq	Phase_I	D0FY35|D0FY36|O75523|O75687|Q5VYY3|Q5VYY4|Q96SG3|Q96SG4|Q9H524|Q9UMH4	Missense_Mutation	SNP	ENST00000359684.2	37		.	.	.	.	.	.	.	.	.	.	c	9.793	1.178369	0.21787	.	.	ENSG00000165659	ENST00000305425;ENST00000313174;ENST00000354591;ENST00000359684;ENST00000377826	T;T;T;D	0.87029	1.13;1.28;1.4;-2.2	3.05	3.05	0.35203	.	.	.	.	.	T	0.71787	0.3381	N	0.12182	0.205	0.25137	N	0.990525	B;B;B	0.18863	0.031;0.006;0.003	B;B;B	0.06405	0.002;0.001;0.001	T	0.55798	-0.8084	9	0.09843	T	0.71	-0.641	8.5869	0.33664	0.2302:0.7698:0.0:0.0	.	79;79;79	Q9UI36-4;Q9UI36-3;Q9UI36-2	.;.;.	S	79	ENSP00000304994:G79S;ENSP00000318506:G79S;ENSP00000346604:G79S;ENSP00000352712:G79S	ENSP00000304994:G79S	G	-	1	0	DACH1	71338674	0.981000	0.34729	0.996000	0.52242	0.392000	0.30506	2.007000	0.40883	1.534000	0.49203	0.306000	0.20318	GGC		0.801	DACH1-002	KNOWN	not_organism_supported|basic	protein_coding	protein_coding	OTTHUMT00000045240.1	NM_004392		T	72440673	C	T	72440673	3	4	584	1	0	0	0	0	1	0	0	0	4222	652	23	1	1935	1	DACH1	13	72440673	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	25897172	72440673	42729205	75	34714										
MYCBP2	23077	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	77799654	77799654	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tggagggtatgttgtgatttTgcttgcatccttttcgcctc	11	8	0	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr13:77799654T>C	ENST00000544440.2	-	19	2676	c.2659A>G	c.(2659-2661)Aaa>Gaa	p.K887E	MYCBP2_ENST00000360084.5_5'UTR|MYCBP2_ENST00000357337.6_Missense_Mutation_p.K887E|MYCBP2_ENST00000407578.2_Missense_Mutation_p.K925E					MYC binding protein 2, E3 ubiquitin protein ligase											NS(1)|autonomic_ganglia(1)|breast(8)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(17)|lung(51)|ovary(5)|pancreas(2)|prostate(5)|skin(7)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	118		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GTTGTGATTTTGCTTGCATCC	0.413																																																0													215	181	192					13																	77799654		2203	4300	6503	SO:0001583	missense	23077			AB020723		13q22	2012-02-23	2012-02-23		ENSG00000005810	ENSG00000005810			23386	protein-coding gene	gene with protein product		610392	"MYC binding protein 2"			9689053, 15057823	Standard	NM_015057		Approved	PAM, KIAA0916, FLJ10106	uc021rks.1	O75592	OTTHUMG00000017105	ENST00000544440.2:c.2659A>G	13.37:g.77799654T>C	ENSP00000444596:p.Lys887Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000544440.2	37		.	.	.	.	.	.	.	.	.	.	T	21.8	4.197089	0.79015	.	.	ENSG00000005810	ENST00000357337;ENST00000407578;ENST00000544440	T;T;T	0.28666	1.61;1.6;1.61	5.96	5.96	0.96718	Regulator of chromosome condensation/beta-lactamase-inhibitor protein II (2);	0.000000	0.85682	D	0.000000	T	0.45034	0.1322	L	0.34521	1.04	0.58432	D	0.999998	P	0.52842	0.956	D	0.65010	0.931	T	0.38156	-0.9674	10	0.66056	D	0.02	.	16.4381	0.83884	0.0:0.0:0.0:1.0	.	887	O75592	MYCB2_HUMAN	E	887;925;887	ENSP00000349892:K887E;ENSP00000384288:K925E;ENSP00000444596:K887E	ENSP00000349892:K887E	K	-	1	0	MYCBP2	76697655	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.679000	0.84048	2.280000	0.76307	0.533000	0.62120	AAA		0.413	MYCBP2-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000045326.1	NM_015057		C	77799654	T	C	77799654	3	2	584	1	0	0	0	0	1	0	0	0	10025	1821	63	3	11523	3	MYCBP2	13	77799654	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08	5358981	77799654	37370224	76	34715										
COCH	1690	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	31355476	31355476	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ttgtcacagatgggcagtccTatgatgatgtccaaggccct	11	10	1	3			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr14:31355476T>C	ENST00000396618.3	+	11	1491	c.1435T>C	c.(1435-1437)Tat>Cat	p.Y479H	RP11-829H16.3_ENST00000468444.2_RNA|RP11-829H16.3_ENST00000555421.1_RNA|RP11-829H16.3_ENST00000556786.1_RNA|COCH_ENST00000460581.2_Missense_Mutation_p.Y367H|COCH_ENST00000475087.1_Missense_Mutation_p.Y479H|COCH_ENST00000382493.4_Missense_Mutation_p.Y330H|RP11-829H16.3_ENST00000555108.1_RNA|COCH_ENST00000216361.4_Missense_Mutation_p.Y479H	NM_004086.2	NP_004077.1	O43405	COCH_HUMAN	cochlin	479	VWFA 2. {ECO:0000255|PROSITE- ProRule:PRU00219}.				defense response to bacterium (GO:0042742)|positive regulation of innate immune response (GO:0045089)|regulation of cell shape (GO:0008360)|sensory perception of sound (GO:0007605)	extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)				central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(7)|pancreas(1)|skin(3)	19	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)		TGGGCAGTCCTATGATGATGT	0.453																																																0													62	61	61					14																	31355476		2203	4300	6503	SO:0001583	missense	1690				CCDS9640.1	14q11.2-q13	2013-05-01	2013-05-01		ENSG00000100473	ENSG00000100473			2180	protein-coding gene	gene with protein product		603196	"coagulation factor C (Limulus polyphemus homolog); cochlin", "coagulation factor C homolog, cochlin (Limulus polyphemus)"	DFNA31, DFNA9		9806553	Standard	NM_004086		Approved	COCH-5B2	uc001wqp.2	O43405	OTTHUMG00000029432	ENST00000396618.3:c.1435T>C	14.37:g.31355476T>C	ENSP00000379862:p.Tyr479His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9K9|D3DS84|Q96IU6	Missense_Mutation	SNP	ENST00000396618.3	37	CCDS9640.1	.	.	.	.	.	.	.	.	.	.	T	23.7	4.451692	0.84209	.	.	ENSG00000100473	ENST00000216361;ENST00000396618;ENST00000475087;ENST00000460581;ENST00000382493	T;T;T;T;T	0.76709	-1.04;-1.04;-1.04;-1.04;-1.04	5.89	5.89	0.94794	von Willebrand factor, type A (3);	0.000000	0.85682	D	0.000000	D	0.85392	0.5686	L	0.50333	1.59	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.977	D	0.86401	0.1742	10	0.66056	D	0.02	-15.6938	16.3156	0.82923	0.0:0.0:0.0:1.0	.	330;479;479	E7EN67;Q96IU6;O43405	.;.;COCH_HUMAN	H	479;479;479;367;330	ENSP00000216361:Y479H;ENSP00000379862:Y479H;ENSP00000451528:Y479H;ENSP00000451713:Y367H;ENSP00000371933:Y330H	ENSP00000216361:Y479H	Y	+	1	0	COCH	30425227	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.884000	0.87274	2.245000	0.73994	0.455000	0.32223	TAT		0.453	COCH-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276608.1	NM_004086		C	31355476	T	C	31355476	3	2	584	1	0	0	0	0	1	0	0	0	3658	1522	53	3	1473	3	COCH	14	31355476	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08		31355476	75994064	77	34716										
MBIP	51562	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	36770005	36770006	+	Frame_Shift_Ins	INS	-	-	T													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	cttacttgaggtggttgaacINSttttcttctttttccagaaa							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr14:36770005_36770006insT	ENST00000416007.4	-	8	999_1000	c.912_913insA	c.(910-915)aaagttfs	p.V305fs	MBIP_ENST00000359527.7_Frame_Shift_Ins_p.S272fs|MBIP_ENST00000318473.7_Frame_Shift_Ins_p.V305fs	NM_001144891.1|NM_016586.2	NP_001138363.1|NP_057670.2	Q9NS73	MBIP1_HUMAN	MAP3K12 binding inhibitory protein 1	305	Interaction with MAP3K12.				chromatin organization (GO:0006325)|histone H3 acetylation (GO:0043966)|inactivation of MAPK activity involved in osmosensory signaling pathway (GO:0000173)	Ada2/Gcn5/Ada3 transcription activator complex (GO:0005671)|cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	identical protein binding (GO:0042802)|protein kinase inhibitor activity (GO:0004860)			breast(2)|large_intestine(1)|lung(5)	8	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)		GGTGGTTGAACTTTTCTTCTTT	0.243																																																0																																										SO:0001589	frameshift_variant	51562			BC016821	CCDS9658.1, CCDS45096.1	14q13.2	2005-01-10			ENSG00000151332	ENSG00000151332			20427	protein-coding gene	gene with protein product		609431				10801814	Standard	NM_016586		Approved		uc001wtm.2	Q9NS73	OTTHUMG00000140222	ENST00000416007.4:c.913dupA	14.37:g.36770009_36770009dupT	ENSP00000399718:p.Val305fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q86TZ2|Q96AS5|Q9BS93|Q9NZE1	Frame_Shift_Ins	INS	ENST00000416007.4	37	CCDS9658.1																																																																																				0.243	MBIP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000276685.2	NM_016586		T	36770006	-	T	36770005	7	5	584	1	0	1	1	0	0	0	0	0	9356	565	20	0	129	0	MBIP	14	36770005	Frame_Shift_Ins	INS	-	TCGA-EV-5902-01A-11D-1589-08	5414529	36770005	70579535	78	34717										
FERMT2	10979	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	53360052	53360052	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gcccctctaattcaagtgccTcatcttcagactggtcatct	6	14	7	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr14:53360052T>C	ENST00000395631.2	-	4	701	c.485A>G	c.(484-486)gAg>gGg	p.E162G	FERMT2_ENST00000399304.3_Missense_Mutation_p.E162G|FERMT2_ENST00000343279.4_Missense_Mutation_p.E162G|FERMT2_ENST00000553373.1_Missense_Mutation_p.E162G|FERMT2_ENST00000341590.3_Missense_Mutation_p.E162G			Q96AC1	FERM2_HUMAN	fermitin family member 2	162					cell junction assembly (GO:0034329)|cell-matrix adhesion (GO:0007160)|focal adhesion assembly (GO:0048041)|integrin activation (GO:0033622)|integrin-mediated signaling pathway (GO:0007229)|protein localization to membrane (GO:0072657)|regulation of cell shape (GO:0008360)|substrate adhesion-dependent cell spreading (GO:0034446)|transforming growth factor beta receptor signaling pathway (GO:0007179)|Wnt signaling pathway (GO:0016055)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)|filamentous actin (GO:0031941)|focal adhesion (GO:0005925)|nucleus (GO:0005634)|stress fiber (GO:0001725)	phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)		ERO1L/FERMT2(2)	NS(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(4)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	20	Breast(41;0.0342)					TTCAAGTGCCTCATCTTCAGA	0.413																																																0													137	135	136					14																	53360052		2203	4300	6503	SO:0001583	missense	10979			Z24725	CCDS9713.1, CCDS45107.1, CCDS45108.1	14q22.1	2013-01-10	2010-06-24	2007-12-14	ENSG00000073712	ENSG00000073712		"Fermitins", "Pleckstrin homology (PH) domain containing"	15767	protein-coding gene	gene with protein product	"kindlin-2"	607746	"pleckstrin homology domain containing, family C (with FERM domain) member 1", "fermitin family homolog 2 (Drosophila)"	PLEKHC1		8175911, 12697302	Standard	NM_006832		Approved	mig-2, KIND2, UNC112B	uc001xac.3	Q96AC1	OTTHUMG00000140309	ENST00000395631.2:c.485A>G	14.37:g.53360052T>C	ENSP00000378993:p.Glu162Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B5TJY2|Q14840|Q86TY7	Missense_Mutation	SNP	ENST00000395631.2	37	CCDS9713.1	.	.	.	.	.	.	.	.	.	.	T	14.38	2.518696	0.44763	.	.	ENSG00000073712	ENST00000395631;ENST00000341590;ENST00000554152;ENST00000343279;ENST00000553373;ENST00000399304;ENST00000554288;ENST00000555692	T;T;T;T;T;T;T	0.48201	0.82;0.82;0.84;0.82;0.82;0.82;1.41	5.77	5.77	0.91146	FERM, N-terminal (1);Band 4.1 domain (1);	0.051253	0.85682	D	0.000000	T	0.36082	0.0954	N	0.14661	0.345	0.51482	D	0.999927	B;B;B	0.26602	0.043;0.154;0.01	B;B;B	0.34038	0.087;0.174;0.099	T	0.18618	-1.0331	10	0.24483	T	0.36	.	16.0828	0.81017	0.0:0.0:0.0:1.0	.	162;162;162	Q96AC1-2;Q96AC1;B5TJY2	.;FERM2_HUMAN;.	G	162;162;104;162;162;162;57;118	ENSP00000378993:E162G;ENSP00000340391:E162G;ENSP00000450741:E104G;ENSP00000342858:E162G;ENSP00000451084:E162G;ENSP00000382243:E162G;ENSP00000451268:E57G	ENSP00000340391:E162G	E	-	2	0	FERMT2	52429802	1.000000	0.71417	1.000000	0.80357	0.881000	0.50899	5.957000	0.70323	2.199000	0.70637	0.528000	0.53228	GAG		0.413	FERMT2-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276907.2	NM_006832		C	53360052	T	C	53360052	3	2	584	1	0	0	0	0	1	0	0	0	5825	1551	54	3	1642	3	FERMT2	14	53360052	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08	16590047	53360052	53989488	79	34718										
MRPL46	26589	broad.mit.edu	37	chr15	89008985	89008985	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gaagctcgtggtctgaatacAggcttctctctatctcaatc	8	11	4	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr15:89008985A>G	ENST00000312475.4	-	2	289	c.248T>C	c.(247-249)cTg>cCg	p.L83P	MRPL46_ENST00000559538.1_5'Flank|MRPS11_ENST00000353598.6_5'Flank|MRPS11_ENST00000325844.4_5'Flank	NM_022163.3	NP_071446.2	Q9H2W6	RM46_HUMAN	mitochondrial ribosomal protein L46	83						mitochondrion (GO:0005739)|ribosome (GO:0005840)	hydrolase activity (GO:0016787)			central_nervous_system(1)|endometrium(1)|large_intestine(2)|lung(1)	5	Lung NSC(78;0.203)		BRCA - Breast invasive adenocarcinoma(143;0.188)			GTCTGAATACAGGCTTCTCTC	0.388																																																0													83	88	86					15																	89008985		2201	4299	6500	SO:0001583	missense	26589			AF210056	CCDS10341.1	15q25.3	2012-10-08	2001-12-10	2001-12-14	ENSG00000259494	ENSG00000259494		"Mitochondrial ribosomal proteins / large subunits"	1192	protein-coding gene	gene with protein product		611851	"chromosome 15 open reading frame 4"	C15orf4		11761714, 11551941	Standard	NM_022163		Approved	LIECG2, P2ECSL	uc002bmj.2	Q9H2W6	OTTHUMG00000148683	ENST00000312475.4:c.248T>C	15.37:g.89008985A>G	ENSP00000312311:p.Leu83Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RD75|Q9HBU8	Missense_Mutation	SNP	ENST00000312475.4	37	CCDS10341.1	.	.	.	.	.	.	.	.	.	.	A	15.87	2.961915	0.53400	.	.	ENSG00000173867	ENST00000312475	T	0.46451	0.87	5.08	2.58	0.30949	.	0.386469	0.25555	N	0.029867	T	0.56337	0.1978	M	0.83774	2.66	0.34905	D	0.746853	D	0.58620	0.983	P	0.57057	0.812	T	0.67814	-0.5573	10	0.51188	T	0.08	.	8.0952	0.30824	0.631:0.2483:0.0:0.1206	.	83	Q9H2W6	RM46_HUMAN	P	83	ENSP00000312311:L83P	ENSP00000312311:L83P	L	-	2	0	MRPL46	86809989	0.090000	0.21635	0.346000	0.25655	0.943000	0.58893	1.092000	0.30927	1.029000	0.39812	0.533000	0.62120	CTG		0.388	MRPL46-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000309073.1	NM_022163		G	89008985	A	G	89008985	3	3	584	1	0	0	0	0	1	0	0	0	9817	188	7	3	603	3	MRPL46	15	89008985	Missense_Mutation	SNP	A	TCGA-EV-5902-01A-11D-1589-08		89008985	13522407	80	34719										
LINS1	55180	hgsc.bcm.edu;bcgsc.ca	37	chr15	101109778	101109778	+	Frame_Shift_Del	DEL	T	T	-													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gtgtaaagatgtctgtttacTgttagctaaacactgctctg							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr15:101109778delT	ENST00000314742.8	-	7	2161	c.1939delA	c.(1939-1941)agtfs	p.S647fs	LINS_ENST00000559149.1_5'Flank	NM_001040616.2	NP_001035706	Q8NG48	LINES_HUMAN	lines homolog (Drosophila)	647										central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(3)|ovary(1)|prostate(1)|skin(1)|stomach(4)	21						GTCTGTTTACTGTTAGCTAAA	0.473																																																0													103	100	101					15																	101109778		2203	4300	6503	SO:0001589	frameshift_variant	55180			AK095448	CCDS10385.1	15q26.3	2010-09-08	2010-09-08	2010-09-08	ENSG00000140471	ENSG00000140471			30922	protein-coding gene	gene with protein product		610350	"lines homolog 1 (Drosophila)"	LINS1		12119551, 8889548	Standard	NM_001040616		Approved	WINS1	uc002bwg.3	Q8NG48	OTTHUMG00000149865	ENST00000314742.8:c.1939delA	15.37:g.101109778delT	ENSP00000318423:p.Ser647fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q96FW2|Q9NVQ3	Frame_Shift_Del	DEL	ENST00000314742.8	37	CCDS10385.1																																																																																				0.473	LINS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313592.1	NM_018148		-	101109778	T	-	101109778	7	5	584	1	0	1	0	1	0	0	0	0	8825	1580	55	0	338	0	LINS1	15	101109778	Frame_Shift_Del	DEL	T	TCGA-EV-5902-01A-11D-1589-08	12100793	101109778	1421614	81	34720										
CRAMP1L	57585	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	1718163	1718163	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	acacacattagcgactccatCattgagatcgccatcagctc	6	14	2	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr16:1718163C>T	ENST00000397412.3	+	18	3402	c.3303C>T	c.(3301-3303)atC>atT	p.I1101I	CRAMP1L_ENST00000262317.4_Silent_p.I479I|CRAMP1L_ENST00000436138.3_Silent_p.I1098I|CRAMP1L_ENST00000293925.5_Silent_p.I1101I|LA16c-431H6.6_ENST00000454337.1_3'UTR			Q96RY5	CRML_HUMAN	Crm, cramped-like (Drosophila)	1101	Ser-rich.					nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			NS(2)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(3)|lung(6)|pancreas(1)	22						GCGACTCCATCATTGAGATCG	0.607																																																0													64	65	65					16																	1718163		2165	4268	6433	SO:0001819	synonymous_variant	57585			AB037847	CCDS10440.2	16p13.3	2008-07-30	2001-11-28		ENSG00000007545	ENSG00000007545			14122	protein-coding gene	gene with protein product			"Crm (Cramped Drosophila)-like"				Standard	NM_020825		Approved	KIAA1426	uc010uvh.2	Q96RY5	OTTHUMG00000074087	ENST00000397412.3:c.3303C>T	16.37:g.1718163C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MZL1|B1AJY1|Q8NDN1|Q9P2C1	Silent	SNP	ENST00000397412.3	37	CCDS10440.2																																																																																				0.607	CRAMP1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157297.4			T	1718163	C	T	1718163	2	4	584	1	0	0	0	0	0	0	0	1	3848	816	29	2		2	CRAMP1L	16	1718163	Silent	SNP	C	TCGA-EV-5902-01A-11D-1589-08		1718163	88636590	82	34721										
MKL2	57496	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	14342808	14342808	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	accacaagcaggaatgcagaCtcagcctcagatagcaactg	9	12	2	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr16:14342808C>G	ENST00000341243.5	+	11	2240	c.2240C>G	c.(2239-2241)aCt>aGt	p.T747S	MKL2_ENST00000318282.5_Missense_Mutation_p.T708S|MKL2_ENST00000574045.1_Missense_Mutation_p.T708S|MKL2_ENST00000571589.1_Missense_Mutation_p.T758S			Q9ULH7	MKL2_HUMAN	MKL/myocardin-like 2	747	Gln-rich.				blood vessel morphogenesis (GO:0048514)|cardiac muscle tissue development (GO:0048738)|embryonic organ development (GO:0048568)|heart morphogenesis (GO:0003007)|in utero embryonic development (GO:0001701)|liver development (GO:0001889)|muscle organ development (GO:0007517)|positive regulation of striated muscle tissue development (GO:0045844)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|smooth muscle cell differentiation (GO:0051145)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)			breast(3)|central_nervous_system(1)|endometrium(5)|kidney(6)|large_intestine(6)|liver(2)|lung(7)|ovary(4)|pancreas(1)|prostate(2)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	42						GGAATGCAGACTCAGCCTCAG	0.448																																																0													127	105	112					16																	14342808		2197	4300	6497	SO:0001583	missense	57496			AB033069	CCDS32391.1	16p13.12	2012-11-29			ENSG00000186260	ENSG00000186260			29819	protein-coding gene	gene with protein product		609463				10574462	Standard	NM_014048		Approved	MRTF-B, FLJ31823	uc002dcg.3	Q9ULH7	OTTHUMG00000177379	ENST00000341243.5:c.2240C>G	16.37:g.14342808C>G	ENSP00000345841:p.Thr747Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6ND53|B4DGT8|Q68CT1|Q6UB16|Q86WW2|Q8N226	Missense_Mutation	SNP	ENST00000341243.5	37		.	.	.	.	.	.	.	.	.	.	C	9.285	1.049055	0.19827	.	.	ENSG00000186260	ENST00000318282;ENST00000341243	.	.	.	5.43	5.43	0.79202	.	0.708129	0.14605	N	0.309376	T	0.43478	0.1249	L	0.46157	1.445	0.22954	N	0.99852	B;B	0.22683	0.018;0.073	B;B	0.24394	0.025;0.053	T	0.32079	-0.9920	9	0.09084	T	0.74	-0.2632	18.5657	0.91115	0.0:1.0:0.0:0.0	.	758;708	B4DGT8;Q9ULH7-4	.;.	S	708;747	.	ENSP00000339086:T708S	T	+	2	0	MKL2	14250309	0.591000	0.26824	0.921000	0.36526	0.984000	0.73092	3.533000	0.53561	2.709000	0.92574	0.655000	0.94253	ACT		0.448	MKL2-202	KNOWN	basic	protein_coding	protein_coding		NM_014048		G	14342808	C	G	14342808	3	3	584	1	0	0	0	0	1	0	0	0	9609	565	20	4	2165	4	MKL2	16	14342808	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	12624645	14342808	76011945	83	34722										
RPGRIP1L	23322	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	53636027	53636027	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ctgtattgcttgtagacagaCtggagggcatggagagcttc	14	7	0	3			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr16:53636027C>A	ENST00000379925.3	-	27	3959	c.3909G>T	c.(3907-3909)caG>caT	p.Q1303H	RPGRIP1L_ENST00000262135.4_Missense_Mutation_p.Q1223H|RPGRIP1L_ENST00000563746.1_Missense_Mutation_p.Q1269H	NM_015272.2	NP_056087.2	Q68CZ1	FTM_HUMAN	RPGRIP1-like	1303					camera-type eye development (GO:0043010)|cerebellum development (GO:0021549)|cilium assembly (GO:0042384)|corpus callosum development (GO:0022038)|determination of left/right symmetry (GO:0007368)|embryonic forelimb morphogenesis (GO:0035115)|embryonic hindlimb morphogenesis (GO:0035116)|establishment or maintenance of cell polarity (GO:0007163)|head development (GO:0060322)|in utero embryonic development (GO:0001701)|kidney development (GO:0001822)|lateral ventricle development (GO:0021670)|liver development (GO:0001889)|negative regulation of G-protein coupled receptor protein signaling pathway (GO:0045744)|neural tube patterning (GO:0021532)|nose development (GO:0043584)|olfactory bulb development (GO:0021772)|pericardium development (GO:0060039)|regulation of smoothened signaling pathway (GO:0008589)	axoneme (GO:0005930)|cell-cell junction (GO:0005911)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cilium (GO:0005929)|cytoplasm (GO:0005737)|tight junction (GO:0005923)	thromboxane A2 receptor binding (GO:0031870)			endometrium(6)|kidney(3)|large_intestine(9)|lung(19)|ovary(2)|prostate(2)|skin(1)|stomach(2)|urinary_tract(2)	46		all_cancers(37;0.0973)				TGTAGACAGACTGGAGGGCAT	0.468																																																0													115	94	101					16																	53636027		2198	4300	6498	SO:0001583	missense	23322				CCDS32447.1, CCDS45486.1	16q12.2	2014-09-17				ENSG00000103494			29168	protein-coding gene	gene with protein product	"fantom homolog", "Meckel syndrome, type 5", "protein phosphatase 1, regulatory subunit 134"	610937				10231032	Standard	NM_015272		Approved	KIAA1005, CORS3, JBTS7, MKS5, NPHP8, FTM, PPP1R134	uc002ehp.3	Q68CZ1		ENST00000379925.3:c.3909G>T	16.37:g.53636027C>A	ENSP00000369257:p.Gln1303His	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJ88|Q9Y2K8	Missense_Mutation	SNP	ENST00000379925.3	37	CCDS32447.1	.	.	.	.	.	.	.	.	.	.	C	0.956	-0.704864	0.03255	.	.	ENSG00000103494	ENST00000379925;ENST00000262135	T;T	0.63913	-0.07;-0.07	5.86	2.79	0.32731	.	0.807726	0.11522	N	0.555606	T	0.33527	0.0866	N	0.08118	0	0.80722	D	1	B;P;P	0.38250	0.13;0.49;0.624	B;B;B	0.31812	0.136;0.136;0.129	T	0.14671	-1.0464	10	0.46703	T	0.11	-0.5926	2.457	0.04532	0.1189:0.437:0.269:0.175	.	1257;1303;1223	B7ZKJ9;Q68CZ1;Q68CZ1-2	.;FTM_HUMAN;.	H	1303;1223	ENSP00000369257:Q1303H;ENSP00000262135:Q1223H	ENSP00000262135:Q1223H	Q	-	3	2	RPGRIP1L	52193528	0.184000	0.23200	0.813000	0.32504	0.392000	0.30506	0.388000	0.20735	0.840000	0.34995	-0.142000	0.14014	CAG		0.468	RPGRIP1L-009	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000422187.1	NM_015272		A	53636027	C	A	53636027	3	1	584	1	0	0	0	0	1	0	0	0	13563	564	20	4	42	4	RPGRIP1L	16	53636027	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	39293219	53636027	36718726	84	34723										
ELMO3	79767	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	67236330	67236330	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	agcccaggacttctcacccaTgttcttcggccaagaccaga	8	15	2	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr16:67236330T>G	ENST00000360833.1	+	13	1457	c.1400T>G	c.(1399-1401)aTg>aGg	p.M467R	ELMO3_ENST00000393997.2_Missense_Mutation_p.M484R|MIR328_ENST00000385213.1_RNA|ELMO3_ENST00000477898.1_Missense_Mutation_p.M318R			Q96BJ8	ELMO3_HUMAN	engulfment and cell motility 3	431	ELMO. {ECO:0000255|PROSITE- ProRule:PRU00664}.				apoptotic process (GO:0006915)|phagocytosis (GO:0006909)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)				cervix(2)|kidney(4)|large_intestine(3)|lung(3)|ovary(2)|prostate(1)|upper_aerodigestive_tract(3)	18		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00067)|Epithelial(162;0.00442)|all cancers(182;0.0417)		TTCTCACCCATGTTCTTCGGC	0.597																																																0													84	86	85					16																	67236330		2198	4300	6498	SO:0001583	missense	79767				CCDS10833.2	16q22.1	2010-03-18	2006-01-20		ENSG00000102890	ENSG00000102890		"Engulfment and cell motility proteins"	17289	protein-coding gene	gene with protein product		606422	"engulfment and cell motility 3 (ced-12 homolog, C. elegans)"			11595183	Standard	NM_024712		Approved	FLJ13824, CED12, ELMO-3, CED-12	uc002esa.3	Q96BJ8	OTTHUMG00000133570	ENST00000360833.1:c.1400T>G	16.37:g.67236330T>G	ENSP00000354077:p.Met467Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DV86|Q9H8A5	Missense_Mutation	SNP	ENST00000360833.1	37		.	.	.	.	.	.	.	.	.	.	T	17.46	3.395742	0.62177	.	.	ENSG00000102890	ENST00000360833;ENST00000393997	T;T	0.29397	1.57;1.57	5.66	5.66	0.87406	Engulfment/cell motility, ELMO (2);	0.165679	0.64402	D	0.000003	T	0.42131	0.1189	M	0.67397	2.05	0.80722	D	1	P;D;D	0.55172	0.822;0.97;0.97	P;P;P	0.48552	0.577;0.581;0.581	T	0.44174	-0.9345	10	0.87932	D	0	-28.916	14.7211	0.69308	0.0:0.0:0.0:1.0	.	431;467;484	Q96BJ8;F8W9E7;Q96BJ8-3	ELMO3_HUMAN;.;.	R	467;484	ENSP00000354077:M467R;ENSP00000377566:M484R	ENSP00000354077:M467R	M	+	2	0	ELMO3	65793831	1.000000	0.71417	1.000000	0.80357	0.646000	0.38490	8.040000	0.89188	2.160000	0.67779	0.533000	0.62120	ATG		0.597	ELMO3-001	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000257667.2	NM_024712		G	67236330	T	G	67236330	3	3	584	1	0	0	0	0	1	0	0	0	5069	1464	51	5	1505	5	ELMO3	16	67236330	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08	13600303	67236330	23118423	85	34724										
CNTNAP4	85445	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	76587277	76587278	+	Frame_Shift_Ins	INS	-	-	GC													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gccacgtggcccctctgaagINSgcagctctgcaccccagcca							TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr16:76587277_76587278insGC	ENST00000476707.1	+	21	3688_3689	c.3549_3550insGC	c.(3550-3552)gcafs	p.A1184fs	CNTNAP4_ENST00000478060.1_Frame_Shift_Ins_p.A1108fs|CNTNAP4_ENST00000377504.4_Frame_Shift_Ins_p.A1132fs|CNTNAP4_ENST00000469589.1_3'UTR|RP11-58C22.1_ENST00000563764.1_5'Flank|CNTNAP4_ENST00000307431.8_Frame_Shift_Ins_p.A1180fs			Q9C0A0	CNTP4_HUMAN	contactin associated protein-like 4	1181	Laminin G-like 4. {ECO:0000255|PROSITE- ProRule:PRU00122}.				cell adhesion (GO:0007155)|regulation of grooming behavior (GO:2000821)|regulation of synaptic transmission, dopaminergic (GO:0032225)|regulation of synaptic transmission, GABAergic (GO:0032228)	cell junction (GO:0030054)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|presynaptic membrane (GO:0042734)				breast(4)|central_nervous_system(1)|cervix(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(6)|lung(33)|ovary(2)|pancreas(1)|prostate(3)|upper_aerodigestive_tract(1)	64						CCCCTCTGAAGGCAGCTCTGCA	0.604																																																0																																										SO:0001589	frameshift_variant	85445			AB051550	CCDS10924.1, CCDS10924.2, CCDS73915.1	16q23.1	2008-02-05			ENSG00000152910	ENSG00000152910			18747	protein-coding gene	gene with protein product		610518				12093160	Standard	NM_033401		Approved	CASPR4, KIAA1763	uc010chb.1	Q9C0A0	OTTHUMG00000137617	ENST00000476707.1:c.3550_3551dupGC	16.37:g.76587278_76587279dupGC	ENSP00000417628:p.Ala1184fs	Somatic		WXS	Illumina HiSeq	Phase_I	E9PFZ6|Q86YZ7	Frame_Shift_Ins	INS	ENST00000476707.1	37																																																																																					0.604	CNTNAP4-005	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000348216.1	NM_033401		GC	76587278	-	GC	76587277	7	5	584	1	0	1	1	0	0	0	0	0	3651	991	35	0	3639	0	CNTNAP4	16	76587277	Frame_Shift_Ins	INS	-	TCGA-EV-5902-01A-11D-1589-08	9350947	76587277	13767476	86	34725										
CDK5RAP3	80279	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	46051766	46051766	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gtttttctgttcttactcagGattggcaggagattatagct	10	6	3	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr17:46051766G>A	ENST00000338399.4	+	5	392	c.286G>A	c.(286-288)Gat>Aat	p.D96N	RP11-6N17.9_ENST00000582262.1_RNA|CDK5RAP3_ENST00000536708.2_Splice_Site_p.D121N	NM_176096.1	NP_788276.1	Q96JB5	CK5P3_HUMAN	CDK5 regulatory subunit associated protein 3	96					brain development (GO:0007420)|protein ufmylation (GO:0071569)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of neuron differentiation (GO:0045664)	membrane (GO:0016020)	protein kinase binding (GO:0019901)			NS(1)|central_nervous_system(2)|cervix(3)|endometrium(3)|large_intestine(2)|lung(5)|prostate(1)|skin(1)	18						TCTTACTCAGGATTGGCAGGA	0.493																																																0													171	171	171					17																	46051766		1981	4164	6145	SO:0001630	splice_region_variant	80279			AF110322	CCDS42356.1, CCDS62232.1	17q21.2	2008-07-18				ENSG00000108465			18673	protein-coding gene	gene with protein product	"ischemic heart CDK5 activator-binding protein C53", "LXXLL/leucine-zipper-containing ARFbinding protein"	608202				10721722	Standard	NM_176096		Approved	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP	uc010wlc.3	Q96JB5		ENST00000338399.4:c.286-1G>A	17.37:g.46051766G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6N4|D3DTU1|D3DTU2|F5H3I5|Q53FA2|Q9H3F8|Q9H8G0|Q9HBR9	Missense_Mutation	SNP	ENST00000338399.4	37	CCDS42356.1	.	.	.	.	.	.	.	.	.	.	G	28.2	4.898300	0.91962	.	.	ENSG00000108465	ENST00000536708;ENST00000338399	T;T	0.54866	0.55;0.55	5.64	5.64	0.86602	.	0.000000	0.85682	D	0.000000	T	0.66386	0.2784	M	0.90977	3.165	0.80722	D	1	B	0.31241	0.315	B	0.35312	0.2	T	0.68511	-0.5389	9	.	.	.	-8.6694	18.4593	0.90732	0.0:0.0:1.0:0.0	.	96	Q96JB5	CK5P3_HUMAN	N	121;96	ENSP00000438886:D121N;ENSP00000344683:D96N	.	D	+	1	0	CDK5RAP3	43406765	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	9.231000	0.95317	2.670000	0.90874	0.655000	0.94253	GAT		0.493	CDK5RAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000442913.1	NM_176096	Missense_Mutation	A	46051766	G	A	46051766	5	1	584	1	0	0	0	0	0	0	1	0	3149	1188	41	2	304	2	CDK5RAP3	17	46051766	Splice_Site	SNP	G	TCGA-EV-5902-01A-11D-1589-08		46051766	35143444	87	34726										
APPBP2	10513	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	58525181	58525181	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tagtccactgtagccctcacCaaaaagtttcttccctgtaa	5	13	2	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr17:58525181C>A	ENST00000083182.3	-	13	1806	c.1519G>T	c.(1519-1521)Ggt>Tgt	p.G507C		NM_001282476.1|NM_006380.2	NP_001269405.1|NP_006371.2	Q92624	APBP2_HUMAN	amyloid beta precursor protein (cytoplasmic tail) binding protein 2	507					intracellular protein transport (GO:0006886)|intracellular transport (GO:0046907)|metabolic process (GO:0008152)	cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|nucleus (GO:0005634)	microtubule motor activity (GO:0003777)			breast(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(17)|pancreas(1)|urinary_tract(1)	25	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.67e-13)|all cancers(12;1.44e-11)|Colorectal(3;0.01)			TAGCCCTCACCAAAAAGTTTC	0.308																																																0													55	57	56					17																	58525181		2203	4300	6503	SO:0001583	missense	10513			AF017782	CCDS32699.1	17q23.2	2012-09-20	2001-11-28		ENSG00000062725	ENSG00000062725			622	protein-coding gene	gene with protein product	"protein interacting with APP tail 1"	605324	"amyloid beta precursor protein (cytoplasmic tail)-binding protein 2"			9843960	Standard	NM_006380		Approved	KIAA0228, Hs.84084, PAT1	uc002iys.1	Q92624		ENST00000083182.3:c.1519G>T	17.37:g.58525181C>A	ENSP00000083182:p.Gly507Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K862|O95095|Q8WVC9	Missense_Mutation	SNP	ENST00000083182.3	37	CCDS32699.1	.	.	.	.	.	.	.	.	.	.	C	18.38	3.611670	0.66558	.	.	ENSG00000062725	ENST00000083182	D	0.90385	-2.66	5.5	5.5	0.81552	Tetratricopeptide-like helical (1);	0.000000	0.85682	D	0.000000	D	0.95175	0.8436	M	0.71036	2.16	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.95322	0.8421	10	0.87932	D	0	-12.3778	19.4753	0.94985	0.0:1.0:0.0:0.0	.	507	Q92624	APBP2_HUMAN	C	507	ENSP00000083182:G507C	ENSP00000083182:G507C	G	-	1	0	APPBP2	55879963	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.453000	0.80700	2.611000	0.88343	0.650000	0.86243	GGT		0.308	APPBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449465.1	NM_006380		A	58525181	C	A	58525181	3	1	584	1	0	0	0	0	1	0	0	0	816	594	21	4	242	4	APPBP2	17	58525181	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	12473415	58525181	22670029	88	34727										
KIAA1012	22878	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	29488737	29488737	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ctgatcgtttaattgcctaaTtgttttctctatatgtggca	7	7	1	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr18:29488737T>G	ENST00000283351.4	-	7	1437	c.1102A>C	c.(1102-1104)Att>Ctt	p.I368L	TRAPPC8_ENST00000582539.1_Missense_Mutation_p.I314L|TRAPPC8_ENST00000582513.1_Missense_Mutation_p.I368L	NM_014939.3	NP_055754	Q9Y2L5	TPPC8_HUMAN	trafficking protein particle complex 8	368					vesicle-mediated transport (GO:0016192)	Golgi apparatus (GO:0005794)				breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(6)|large_intestine(7)|liver(2)|lung(13)|ovary(6)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	47						AATTGCCTAATTGTTTTCTCT	0.284																																																0													45	43	44					18																	29488737		2203	4297	6500	SO:0001583	missense	22878			AB023229	CCDS11901.1	18q12.1	2011-10-10	2010-06-29	2010-06-29	ENSG00000153339	ENSG00000153339		"Trafficking protein particle complex"	29169	protein-coding gene	gene with protein product	"general sporulation gene 1 homolog (S. cerevisiae)"	614136	"KIAA1012"	KIAA1012		10231032, 11230166	Standard	NM_014939		Approved	HsT2706, TRS85, GSG1	uc002kxc.4	Q9Y2L5	OTTHUMG00000132267	ENST00000283351.4:c.1102A>C	18.37:g.29488737T>G	ENSP00000283351:p.Ile368Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A0JP15|B3KME5|Q9H0L2	Missense_Mutation	SNP	ENST00000283351.4	37	CCDS11901.1	.	.	.	.	.	.	.	.	.	.	T	13.35	2.211203	0.39102	.	.	ENSG00000153339	ENST00000283351	T	0.19806	2.12	5.7	4.55	0.56014	.	0.000000	0.85682	D	0.000000	T	0.27313	0.0670	L	0.39147	1.195	0.53005	D	0.99996	P;D	0.55605	0.655;0.972	P;P	0.56216	0.557;0.794	T	0.01228	-1.1412	10	0.23302	T	0.38	.	11.1138	0.48249	0.0:0.0717:0.0:0.9283	.	368;368	Q6PCC9;Q9Y2L5	.;TPPC8_HUMAN	L	368	ENSP00000283351:I368L	ENSP00000283351:I368L	I	-	1	0	TRAPPC8	27742735	1.000000	0.71417	0.998000	0.56505	0.710000	0.40934	7.231000	0.78106	2.181000	0.69327	0.459000	0.35465	ATT		0.284	TRAPPC8-001	KNOWN	NAGNAG_splice_site|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255355.1	NM_014939		G	29488737	T	G	29488737	3	3	584	1	0	0	0	0	1	0	0	0	8211	1493	52	5	3297	5	KIAA1012	18	29488737	Missense_Mutation	SNP	T	TCGA-EV-5902-01A-11D-1589-08		29488737	48588511	89	34728										
CNDP2	55748	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	72179734	72179734	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gggtgtacgggggctcggtgCatgaggccatgactgatctc	17	9	1	3			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr18:72179734C>A	ENST00000324262.4	+	7	1025	c.709C>A	c.(709-711)Cat>Aat	p.H237N	CNDP2_ENST00000579847.1_Missense_Mutation_p.H237N|CNDP2_ENST00000324301.8_Missense_Mutation_p.H153N	NM_018235.2	NP_060705.2	Q96KP4	CNDP2_HUMAN	CNDP dipeptidase 2 (metallopeptidase M20 family)	237					cellular nitrogen compound metabolic process (GO:0034641)|glutathione biosynthetic process (GO:0006750)|glutathione derivative biosynthetic process (GO:1901687)|small molecule metabolic process (GO:0044281)|sulfur amino acid metabolic process (GO:0000096)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	carboxypeptidase activity (GO:0004180)|dipeptidase activity (GO:0016805)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)|tripeptidase activity (GO:0034701)			breast(1)|cervix(1)|endometrium(3)|large_intestine(7)|lung(5)|ovary(2)|skin(2)|stomach(3)	24		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.22)		GGGCTCGGTGCATGAGGCCAT	0.562																																																0													255	196	216					18																	72179734		2203	4300	6503	SO:0001583	missense	55748			AK001692	CCDS12006.1, CCDS54190.1	18q22.3	2014-07-14	2004-07-12		ENSG00000133313	ENSG00000133313	3.4.13.18		24437	protein-coding gene	gene with protein product	"cytosolic nonspecific dipeptidase"	169800	"peptidase A"	PEPA		12473676	Standard	NM_018235		Approved	FLJ10830, CN2, HsT2298, CPGL	uc002llm.2	Q96KP4	OTTHUMG00000132853	ENST00000324262.4:c.709C>A	18.37:g.72179734C>A	ENSP00000325548:p.His237Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B3KUG4|Q8WY59|Q9BQ94|Q9NVB4	Missense_Mutation	SNP	ENST00000324262.4	37	CCDS12006.1	.	.	.	.	.	.	.	.	.	.	C	12.98	2.100562	0.37048	.	.	ENSG00000133313	ENST00000324262;ENST00000324301	T;T	0.56776	0.44;0.44	5.14	3.33	0.38152	Peptidase M20, dimerisation (1);	0.047588	0.85682	D	0.000000	T	0.59582	0.2204	M	0.73962	2.25	0.80722	D	1	B;B;B	0.25743	0.133;0.021;0.002	B;B;B	0.40410	0.328;0.267;0.084	T	0.59757	-0.7394	10	0.38643	T	0.18	-19.4529	11.6458	0.51261	0.0:0.8542:0.0:0.1458	.	142;153;237	B4DPF1;Q96KP4-2;Q96KP4	.;.;CNDP2_HUMAN	N	237;153	ENSP00000325548:H237N;ENSP00000325756:H153N	ENSP00000325548:H237N	H	+	1	0	CNDP2	70330714	0.989000	0.36119	0.949000	0.38748	0.779000	0.44077	1.712000	0.37940	1.169000	0.42739	0.655000	0.94253	CAT		0.562	CNDP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256327.1	NM_018235		A	72179734	C	A	72179734	3	1	584	1	0	0	0	0	1	0	0	0	3596	710	25	4	731	4	CNDP2	18	72179734	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	42690997	72179734	5897514	90	34729										
ZNF236	7776	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	74561610	74561610	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	aacgccacatgagggatcacGagcgaaatgacaaggtatgt	12	8	1	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr18:74561610G>A	ENST00000253159.8	+	2	376	c.178G>A	c.(178-180)Gag>Aag	p.E60K	ZNF236_ENST00000320610.9_Missense_Mutation_p.E62K	NM_007345.3	NP_031371.3	Q9UL36	ZN236_HUMAN	zinc finger protein 236	60					cellular response to glucose stimulus (GO:0071333)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(2)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(14)|lung(43)|ovary(7)|pancreas(1)|prostate(6)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	94		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GAGGGATCACGAGCGAAATGA	0.358																																																0													65	62	63					18																	74561610		1875	4104	5979	SO:0001583	missense	7776			AF085243	CCDS42447.1	18q22-q23	2013-01-08				ENSG00000130856		"Zinc fingers, C2H2-type"	13028	protein-coding gene	gene with protein product		604760				10458916	Standard	NM_007345		Approved		uc002lmi.3	Q9UL36		ENST00000253159.8:c.178G>A	18.37:g.74561610G>A	ENSP00000253159:p.Glu60Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTX9|Q9UL37	Missense_Mutation	SNP	ENST00000253159.8	37	CCDS42447.1	.	.	.	.	.	.	.	.	.	.	G	22.1	4.244485	0.79912	.	.	ENSG00000130856	ENST00000253159;ENST00000543926;ENST00000320610	T;T	0.16743	2.32;2.32	5.65	5.65	0.86999	Zinc finger, C2H2 (1);	0.000000	0.85682	D	0.000000	T	0.28499	0.0705	N	0.20483	0.58	0.46725	D	0.999171	D;D	0.89917	1.0;0.998	D;P	0.91635	0.999;0.766	T	0.05305	-1.0893	10	0.20519	T	0.43	.	19.7319	0.96186	0.0:0.0:1.0:0.0	.	60;60	Q9NWI2;Q9UL36	.;ZN236_HUMAN	K	60	ENSP00000253159:E60K;ENSP00000444524:E60K	ENSP00000253159:E60K	E	+	1	0	ZNF236	72690598	1.000000	0.71417	1.000000	0.80357	0.890000	0.51754	5.692000	0.68256	2.668000	0.90789	0.655000	0.94253	GAG		0.358	ZNF236-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000445776.1			A	74561610	G	A	74561610	3	1	584	1	0	0	0	0	1	0	0	0	17801	1059	37	1	184	1	ZNF236	18	74561610	Missense_Mutation	SNP	G	TCGA-EV-5902-01A-11D-1589-08	2381876	74561610	3515638	91	34730										
FAM108A1	81926	hgsc.bcm.edu	37	chr19	1881550	1881550	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gaggcagcagagctcactcaGcgacagcccattcatggcgg	13	13	3	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr19:1881550G>A	ENST00000292577.7	-	2	449	c.16C>T	c.(16-18)Ctg>Ttg	p.L6L	ABHD17A_ENST00000590661.1_Silent_p.L6L|ABHD17A_ENST00000250974.9_Silent_p.L6L	NM_001130111.1	NP_001123583.1	Q96GS6	AB17A_HUMAN	abhydrolase domain containing 17A	6						extracellular region (GO:0005576)|membrane (GO:0016020)	hydrolase activity (GO:0016787)										AGCTCACTCAGCGACAGCCCA	0.761																																																0																																										SO:0001819	synonymous_variant	81926			BC020512	CCDS32867.1, CCDS45902.1	19p13.3	2013-03-15	2013-03-15	2013-03-15	ENSG00000129968	ENSG00000129968		"Abhydrolase domain containing"	28756	protein-coding gene	gene with protein product			"chromosome 19 open reading frame 27", "family with sequence similarity 108, member A1"	C19orf27, FAM108A1		14702039	Standard	NM_031213		Approved	MGC5244	uc002lug.3	Q96GS6	OTTHUMG00000171872	ENST00000292577.7:c.16C>T	19.37:g.1881550G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0G8|D6W5Z9|Q6PJU2|Q8WUH9|Q9BWL0|Q9H7Q9	Silent	SNP	ENST00000292577.7	37	CCDS45902.1																																																																																				0.761	ABHD17A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415556.2	NM_031213		A	1881550	G	A	1881550	2	1	584	1	0	0	0	0	0	0	0	1	5395	962	34	2		2	FAM108A1	19	1881550	Silent	SNP	G	TCGA-EV-5902-01A-11D-1589-08		1881550	57247433	92	34731										
HNRNPM	4670	ucsc.edu	37	chr19	8527467	8527467	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	cgctgaaggaaagtcaagggTaagtgtctgagagaatttct	13	5	3	3			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr19:8527467T>G	ENST00000325495.4	+	3	377		c.e3+2		HNRNPM_ENST00000348943.3_Splice_Site	NM_005968.4	NP_005959.2	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M						alternative mRNA splicing, via spliceosome (GO:0000380)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|extracellular matrix (GO:0031012)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|paraspeckles (GO:0042382)|spliceosomal complex (GO:0005681)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein domain specific binding (GO:0019904)|RNA binding (GO:0003723)			endometrium(5)|kidney(2)|large_intestine(7)|lung(10)|ovary(1)	25						AAGTCAAGGGTAAGTGTCTGA	0.428																																																0													241	220	227					19																	8527467		2203	4300	6503	SO:0001630	splice_region_variant	4670			L03532	CCDS12203.1, CCDS12204.1	19p13.2	2013-06-12		2008-04-18	ENSG00000099783	ENSG00000099783		"RNA binding motif (RRM) containing"	5046	protein-coding gene	gene with protein product	"CEA receptor"	160994		NAGR1, HNRPM		8441656, 7558047	Standard	NM_005968		Approved	HTGR1, HNRNPM4, HNRPM4, CEAR	uc010dwe.3	P52272	OTTHUMG00000182383	ENST00000325495.4:c.336+2T>G	19.37:g.8527467T>G		Somatic		WXS	Illumina HiSeq		Q15584|Q8WZ44|Q96H56|Q9BWL9|Q9Y492	Splice_Site	SNP	ENST00000325495.4	37	CCDS12203.1	.	.	.	.	.	.	.	.	.	.	T	18.24	3.580056	0.65992	.	.	ENSG00000099783	ENST00000325495;ENST00000348943	.	.	.	5.82	5.82	0.92795	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.0018	0.71479	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	HNRNPM	8433467	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.698000	0.84413	2.225000	0.72522	0.459000	0.35465	.		0.428	HNRNPM-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000460894.1		Intron	G	8527467	T	G	8527467	5	3	584	1	0	0	0	0	0	0	1	0	7278	1652	57	5	348	5	HNRNPM	19	8527467	Splice_Site	SNP	T	TCGA-EV-5902-01A-11D-1589-08	6645917	8527467	50601516	93	34732										
MYO1F	4542	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	8609279	8609279	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	cttctgcagcagtgtctggtCtgctcccccgcccgtggcgt	12	16	3	0			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr19:8609279C>A	ENST00000338257.8	-	14	1693	c.1426G>T	c.(1426-1428)Gac>Tac	p.D476Y	AC092316.2_ENST00000581156.1_RNA	NM_012335.3	NP_036467.2	O00160	MYO1F_HUMAN	myosin IF	476	Myosin motor.				defense response to Gram-positive bacterium (GO:0050830)|negative regulation of cell adhesion (GO:0007162)|neutrophil degranulation (GO:0043312)|positive regulation of cell migration (GO:0030335)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of innate immune response (GO:0045088)	cortical actin cytoskeleton (GO:0030864)|filamentous actin (GO:0031941)|unconventional myosin complex (GO:0016461)	actin binding (GO:0003779)|ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(6)|large_intestine(7)|lung(13)|ovary(3)|prostate(3)|skin(3)|urinary_tract(1)	42						AGTGTCTGGTCTGCTCCCCCG	0.677																																																0													22	31	28					19																	8609279		2096	4212	6308	SO:0001583	missense	4542			X98411	CCDS42494.1	19p13.3-p13.2	2011-09-27			ENSG00000142347	ENSG00000142347		"Myosins / Myosin superfamily : Class I"	7600	protein-coding gene	gene with protein product		601480				9119401, 8884266	Standard	NM_012335		Approved		uc002mkg.3	O00160	OTTHUMG00000156005	ENST00000338257.8:c.1426G>T	19.37:g.8609279C>A	ENSP00000344871:p.Asp476Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WWN7	Missense_Mutation	SNP	ENST00000338257.8	37	CCDS42494.1	.	.	.	.	.	.	.	.	.	.	c	20.5	4.009105	0.75046	.	.	ENSG00000142347	ENST00000305795;ENST00000338257	D	0.92099	-2.97	3.49	3.49	0.39957	Myosin head, motor domain (2);	0.133964	0.47455	U	0.000236	D	0.97081	0.9046	H	0.96576	3.845	0.80722	D	1	D	0.58620	0.983	D	0.67725	0.953	D	0.98150	1.0441	10	0.87932	D	0	.	13.73	0.62781	0.0:1.0:0.0:0.0	.	476	O00160	MYO1F_HUMAN	Y	521;476	ENSP00000344871:D476Y	ENSP00000304899:D521Y	D	-	1	0	MYO1F	8515279	1.000000	0.71417	0.989000	0.46669	0.860000	0.49131	5.743000	0.68655	1.781000	0.52344	0.290000	0.19541	GAC		0.677	MYO1F-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342716.2			A	8609279	C	A	8609279	3	1	584	1	0	0	0	0	1	0	0	0	10080	913	32	4	1930	4	MYO1F	19	8609279	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	81812	8609279	50519704	94	34733										
CACNA1A	773	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	13397703	13397703	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ctgccaggggtgggtcttggCggcccaggtcctgctggatt	17	11	1	0	rs200850308		TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr19:13397703C>T	ENST00000360228.5	-	20	3166	c.3167G>A	c.(3166-3168)cGc>cAc	p.R1056H	CACNA1A_ENST00000573710.2_Missense_Mutation_p.R1057H	NM_000068.3|NM_001127222.1|NM_001174080.1|NM_023035.2	NP_000059.3|NP_001120694.1|NP_001167551.1|NP_075461.2	O00555	CAC1A_HUMAN	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	1057					adult walking behavior (GO:0007628)|behavioral response to pain (GO:0048266)|calcium ion import (GO:0070509)|calcium ion-dependent exocytosis (GO:0017156)|calcium ion-dependent exocytosis of neurotransmitter (GO:0048791)|cell death (GO:0008219)|cell growth (GO:0016049)|cellular chloride ion homeostasis (GO:0030644)|cerebellar molecular layer development (GO:0021679)|cerebellar Purkinje cell differentiation (GO:0021702)|cerebellum maturation (GO:0021590)|dendrite morphogenesis (GO:0048813)|energy reserve metabolic process (GO:0006112)|gamma-aminobutyric acid secretion (GO:0014051)|gamma-aminobutyric acid signaling pathway (GO:0007214)|glucose metabolic process (GO:0006006)|hormone metabolic process (GO:0042445)|membrane depolarization (GO:0051899)|membrane depolarization during action potential (GO:0086010)|musculoskeletal movement, spinal reflex action (GO:0050883)|negative regulation of hormone biosynthetic process (GO:0032353)|negative regulation of neuron apoptotic process (GO:0043524)|neuromuscular process controlling balance (GO:0050885)|neuromuscular synaptic transmission (GO:0007274)|neurotransmitter metabolic process (GO:0042133)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|receptor clustering (GO:0043113)|regulation of acetylcholine secretion, neurotransmission (GO:0014056)|regulation of axonogenesis (GO:0050770)|regulation of calcium ion-dependent exocytosis (GO:0017158)|regulation of insulin secretion (GO:0050796)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|spinal cord motor neuron differentiation (GO:0021522)|sulfur amino acid metabolic process (GO:0000096)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transmission of nerve impulse (GO:0019226)|vestibular nucleus development (GO:0021750)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|syntaxin binding (GO:0019905)|voltage-gated calcium channel activity (GO:0005245)			breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(25)|prostate(2)|urinary_tract(1)	42			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Loperamide(DB00836)|Pregabalin(DB00230)|Spironolactone(DB00421)|Verapamil(DB00661)	TGGGTCTTGGCGGCCCAGGTC	0.642																																																0								C	HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG	0,3700		0,0,1850	19	22	21		3179,3170,3167,3170,3179	5.2	1	19		21	1,8013		0,1,4006	yes	missense,missense,missense,missense,missense	CACNA1A	NM_000068.3,NM_001127221.1,NM_001127222.1,NM_001174080.1,NM_023035.2	29,29,29,29,29	0,1,5856	TT,TC,CC		0.0125,0.0,0.0085	benign,benign,benign,benign,benign	1060/2267,1057/2262,1056/2507,1057/2264,1060/2513	13397703	1,11713	1850	4007	5857	SO:0001583	missense	773			U79666	CCDS45998.1, CCDS45999.1	19p13	2014-09-17			ENSG00000141837	ENSG00000141837		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1388	protein-coding gene	gene with protein product		601011		CACNL1A4, SCA6, MHP1, MHP		8825650, 16382099, 23827678	Standard	NM_000068		Approved	Cav2.1, EA2, APCA, HPCA, FHM	uc010xne.2	O00555	OTTHUMG00000044590	ENST00000360228.5:c.3167G>A	19.37:g.13397703C>T	ENSP00000353362:p.Arg1056His	Somatic		WXS	Illumina HiSeq	Phase_I	J3KP41|P78510|P78511|Q16290|Q92690|Q99790|Q99791|Q99792|Q99793|Q9NS88|Q9UDC4	Missense_Mutation	SNP	ENST00000360228.5	37	CCDS45998.1	.	.	.	.	.	.	.	.	.	.	C	15.17	2.754278	0.49362	0.0	1.25E-4	ENSG00000141837	ENST00000360228;ENST00000418012;ENST00000357018;ENST00000325084	D	0.96168	-3.93	5.19	5.19	0.71726	.	0.663946	0.14837	N	0.295520	D	0.95108	0.8415	L	0.43152	1.355	0.42961	D	0.9944	B;B;D	0.65815	0.343;0.239;0.995	B;B;P	0.51016	0.021;0.034;0.656	D	0.94508	0.7716	10	0.44086	T	0.13	.	17.4837	0.87682	0.0:1.0:0.0:0.0	.	1057;1060;1056	O00555;E9PD31;Q9NS88	CAC1A_HUMAN;.;.	H	1056;1060;1057;1057	ENSP00000353362:R1056H	ENSP00000317661:R1057H	R	-	2	0	CACNA1A	13258703	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	3.265000	0.51561	2.427000	0.82271	0.555000	0.69702	CGC		0.642	CACNA1A-001	KNOWN	non_canonical_U12|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000104062.2	NM_000068		T	13397703	C	T	13397703	3	4	584	1	0	0	0	0	1	0	0	0	2540	768	27	1	4567	1	CACNA1A	19	13397703	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08	4788424	13397703	45731280	95	34734										
ZNF780B	163131	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	40541550	40541550	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	agcatgaatactctggtgttGaataaggtttgaactacgat	10	5	1	3			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr19:40541550G>T	ENST00000434248.1	-	5	1281	c.1216C>A	c.(1216-1218)Caa>Aaa	p.Q406K	ZNF780B_ENST00000221355.6_Missense_Mutation_p.Q258K	NM_001005851.2	NP_001005851.1	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	406					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(3)|kidney(2)|large_intestine(3)|lung(12)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	23	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					CTCTGGTGTTGAATAAGGTTT	0.358																																																0													100	107	105					19																	40541550		2203	4300	6503	SO:0001583	missense	163131			AK127063	CCDS46077.1	19q13.2	2013-01-08	2006-08-15	2006-08-15	ENSG00000128000	ENSG00000128000		"Zinc fingers, C2H2-type", "-"	33109	protein-coding gene	gene with protein product			"zinc finger protein 779"	ZNF779			Standard	NM_001005851		Approved		uc002omu.3	Q9Y6R6	OTTHUMG00000155118	ENST00000434248.1:c.1216C>A	19.37:g.40541550G>T	ENSP00000391641:p.Gln406Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B9EH00	Missense_Mutation	SNP	ENST00000434248.1	37	CCDS46077.1	.	.	.	.	.	.	.	.	.	.	G	1.025	-0.683570	0.03353	.	.	ENSG00000128000	ENST00000434248;ENST00000221355	T;T	0.35048	1.33;1.33	2.29	1.07	0.20283	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.21307	0.0513	N	0.01081	-1.03	0.09310	N	1	D	0.57571	0.98	D	0.69824	0.966	T	0.17930	-1.0353	9	0.05833	T	0.94	.	8.391	0.32528	0.0:0.2421:0.7579:0.0	.	406	Q9Y6R6	Z780B_HUMAN	K	406;258	ENSP00000391641:Q406K;ENSP00000221355:Q258K	ENSP00000221355:Q258K	Q	-	1	0	ZNF780B	45233390	0.000000	0.05858	0.006000	0.13384	0.003000	0.03518	-5.529000	0.00115	1.103000	0.41568	0.313000	0.20887	CAA		0.358	ZNF780B-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338466.1	NM_001005851		T	40541550	G	T	40541550	3	4	584	1	0	0	0	0	1	0	0	0	18165	1299	45	4	1289	4	ZNF780B	19	40541550	Missense_Mutation	SNP	G	TCGA-EV-5902-01A-11D-1589-08	27143847	40541550	18587433	96	34735										
RPL18	6141	ucsc.edu	37	chr19	49118705	49118705	+	Splice_Site	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ccttggagcggacgtagggtCtgtggggagaggagggagtg	22	5	1	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr19:49118705C>T	ENST00000549920.1	-	7	884		c.e7-1		FAM83E_ENST00000595110.1_5'Flank|RPL18_ENST00000552588.1_Splice_Site|FAM83E_ENST00000263266.3_5'Flank|RPL18_ENST00000550645.1_Splice_Site|RPL18_ENST00000549273.1_3'UTR	NM_000979.3	NP_000970.1	Q07020	RL18_HUMAN	ribosomal protein L18						cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	RNA binding (GO:0003723)|structural constituent of ribosome (GO:0003735)			cervix(1)|kidney(2)	3		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;9.89e-05)|all cancers(93;0.00011)|GBM - Glioblastoma multiforme(486;0.0061)|Epithelial(262;0.0154)		GACGTAGGGTCTGTGGGGAGA	0.592																																																0													61	72	68					19																	49118705		2203	4299	6502	SO:0001630	splice_region_variant	6141			L11566	CCDS12726.1, CCDS58669.1	19q13	2011-04-06				ENSG00000063177		"L ribosomal proteins"	10310	protein-coding gene	gene with protein product	"60S ribosomal protein L18"	604179				8218404	Standard	NM_000979		Approved	L18	uc002pjq.2	Q07020	OTTHUMG00000169760	ENST00000549920.1:c.492-1G>A	19.37:g.49118705C>T		Somatic		WXS	Illumina HiSeq		F8VWC5|Q8WTZ6	Splice_Site	SNP	ENST00000549920.1	37	CCDS12726.1	.	.	.	.	.	.	.	.	.	.	C	26.2	4.714067	0.89112	.	.	ENSG00000063177	ENST00000549920;ENST00000084795;ENST00000550645;ENST00000552588;ENST00000546623;ENST00000550973	.	.	.	5.26	5.26	0.73747	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.7247	0.69336	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	RPL18	53810517	1.000000	0.71417	1.000000	0.80357	0.960000	0.62799	6.911000	0.75746	2.631000	0.89168	0.655000	0.94253	.		0.592	RPL18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405732.2	NM_000979	Intron	T	49118705	C	T	49118705	5	4	584	1	0	0	0	0	0	0	1	0	13577	927	32	2	79	2	RPL18	19	49118705	Splice_Site	SNP	C	TCGA-EV-5902-01A-11D-1589-08	8577155	49118705	10010278	97	34736										
ZNF320	162967	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	53384942	53384942	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tcctatgtcttcgcaaatgcAaatgaaatcttgattcaagc	6	9	3	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr19:53384942A>G	ENST00000595635.1	-	8	938	c.437T>C	c.(436-438)tTg>tCg	p.L146S	ZNF320_ENST00000391781.2_Missense_Mutation_p.L146S|ZNF320_ENST00000600930.1_Intron|ZNF320_ENST00000597909.1_Intron	NM_207333.2	NP_997216.2	A2RRD8	ZN320_HUMAN	zinc finger protein 320	146					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|endometrium(2)|kidney(4)|large_intestine(5)|liver(1)|lung(10)|urinary_tract(1)	24				GBM - Glioblastoma multiforme(134;0.0534)		TCGCAAATGCAAATGAAATCT	0.348																																																0													117	113	114					19																	53384942		2203	4300	6503	SO:0001583	missense	162967			AF086262	CCDS33095.1	19q13.41	2014-09-04			ENSG00000182986	ENSG00000182986		"Zinc fingers, C2H2-type", "-"	13842	protein-coding gene	gene with protein product		606427				11536051	Standard	XM_006723059		Approved	ZFPL, DKFZp686G16228	uc002qag.3	A2RRD8	OTTHUMG00000182797	ENST00000595635.1:c.437T>C	19.37:g.53384942A>G	ENSP00000473091:p.Leu146Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NDR6	Missense_Mutation	SNP	ENST00000595635.1	37	CCDS33095.1	.	.	.	.	.	.	.	.	.	.	-	0.006	-2.115473	0.00349	.	.	ENSG00000182986	ENST00000391781	T	0.12361	2.69	1.39	0.0569	0.14321	.	.	.	.	.	T	0.04998	0.0134	N	0.11427	0.14	0.09310	N	1	B	0.10296	0.003	B	0.01281	0.0	T	0.43245	-0.9403	9	0.02654	T	1	.	5.4228	0.16409	0.2247:0.0:0.7753:0.0	.	146	A2RRD8	ZN320_HUMAN	S	146	ENSP00000375660:L146S	ENSP00000375660:L146S	L	-	2	0	ZNF320	58076754	0.000000	0.05858	0.001000	0.08648	0.155000	0.21991	-0.162000	0.10012	-0.124000	0.11724	0.163000	0.16589	TTG		0.348	ZNF320-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463771.1	NM_207333		G	53384942	A	G	53384942	3	3	584	1	0	0	0	0	1	0	0	0	17851	131	5	3	1096	3	ZNF320	19	53384942	Missense_Mutation	SNP	A	TCGA-EV-5902-01A-11D-1589-08	4266237	53384942	5744041	98	34737										
ZSCAN22	342945	broad.mit.edu;bcgsc.ca	37	chr19	58849878	58849878	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	ccccacagaccagcgtggccGtgaatctggtgcctcgagga	13	14	1	2	rs558607664		TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr19:58849878G>A	ENST00000329665.4	+	3	809	c.662G>A	c.(661-663)cGt>cAt	p.R221H		NM_181846.2	NP_862829.1	P10073	ZSC22_HUMAN	zinc finger and SCAN domain containing 22	221					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			cervix(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(7)|pancreas(1)|prostate(2)	16		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0289)		CAGCGTGGCCGTGAATCTGGT	0.512																																																0													154	159	158					19																	58849878		2203	4300	6503	SO:0001583	missense	342945			M20675	CCDS12975.1	19q13.43	2013-01-08	2006-09-20	2006-09-20				"-", "Zinc fingers, C2H2-type"	4929	protein-coding gene	gene with protein product	"oncogene HKR2"	165260	"zinc finger protein 50", "GLI-Kruppel family member HKR2"	ZNF50, HKR2		2850480, 1505991	Standard	NM_181846		Approved		uc002qsc.2	P10073		ENST00000329665.4:c.662G>A	19.37:g.58849878G>A	ENSP00000332433:p.Arg221His	Somatic		WXS	Illumina HiSeq	Phase_I	Q15922|Q7Z3L8	Missense_Mutation	SNP	ENST00000329665.4	37	CCDS12975.1	.	.	.	.	.	.	.	.	.	.	G	6.106	0.387827	0.11581	.	.	ENSG00000182318	ENST00000329665	T	0.08458	3.09	3.72	-4.75	0.03239	.	.	.	.	.	T	0.03095	0.0091	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.47573	-0.9107	9	0.15499	T	0.54	.	6.0075	0.19554	0.5667:0.2768:0.1565:0.0	.	221	P10073	ZSC22_HUMAN	H	221	ENSP00000332433:R221H	ENSP00000332433:R221H	R	+	2	0	ZSCAN22	63541690	0.000000	0.05858	0.001000	0.08648	0.170000	0.22686	-0.814000	0.04486	-0.604000	0.05760	0.313000	0.20887	CGT		0.512	ZSCAN22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466765.1	NM_181846		A	58849878	G	A	58849878	3	1	584	1	0	0	0	0	1	0	0	0	18246	1145	40	1	668	1	ZSCAN22	19	58849878	Missense_Mutation	SNP	G	TCGA-EV-5902-01A-11D-1589-08	5464936	58849878	279105	99	34738										
PLK1S1	101929591	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	21142793	21142793	+	RNA	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	aacatagatggaaaggcatcTcttcagattggtgagaaaat	10	5	2	3			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr20:21142793T>A	ENST00000591761.1	-	0	5142				RP5-872K7.7_ENST00000425746.2_RNA|PLK1S1_ENST00000457464.1_RNA																							GAAAGGCATCTCTTCAGATTG	0.433																																																0													86	87	87					20																	21142793		1964	4155	6119			55857																															20.37:g.21142793T>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000591761.1	37																																																																																					0.433	RP4-777D9.2-002	KNOWN	basic	antisense	antisense	OTTHUMT00000078258.2			A	21142793	T	A	21142793	1	1	584	0	1	0	0	0	0	0	0	0	12102	1538	54	5		5	PLK1S1	20	21142793	RNA	SNP	T	TCGA-EV-5902-01A-11D-1589-08		21142793	41882727	100	34739										
NCAM2	4685	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	22656582	22656582	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	agataatttcaacacagaggGtagtagtgcaaaaggaaggt	12	4	1	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr21:22656582G>T	ENST00000400546.1	+	3	448	c.199G>T	c.(199-201)Gta>Tta	p.V67L	NCAM2_ENST00000486367.1_3'UTR|NCAM2_ENST00000535285.1_Missense_Mutation_p.V92L|NCAM2_ENST00000284894.7_Intron	NM_004540.3	NP_004531.2	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2	67	Ig-like C2-type 1.				axonal fasciculation (GO:0007413)|neuron cell-cell adhesion (GO:0007158)|sensory perception of smell (GO:0007608)	axon (GO:0030424)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(4)|cervix(2)|endometrium(8)|kidney(6)|large_intestine(22)|liver(4)|lung(49)|ovary(4)|prostate(4)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	108		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)		AACACAGAGGGTAGTAGTGCA	0.398																																																0													132	122	125					21																	22656582		1859	4101	5960	SO:0001583	missense	4685				CCDS42910.1	21q21	2013-02-11			ENSG00000154654	ENSG00000154654		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	7657	protein-coding gene	gene with protein product		602040				9226371	Standard	NM_004540		Approved	NCAM21, MGC51008	uc002yld.2	O15394	OTTHUMG00000078121	ENST00000400546.1:c.199G>T	21.37:g.22656582G>T	ENSP00000383392:p.Val67Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8MQ06|B7Z841|Q7Z7F2	Missense_Mutation	SNP	ENST00000400546.1	37	CCDS42910.1	.	.	.	.	.	.	.	.	.	.	G	13.01	2.109633	0.37242	.	.	ENSG00000154654	ENST00000400546;ENST00000535285	T;T	0.67345	-0.26;-0.26	5.58	4.7	0.59300	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.104866	0.64402	D	0.000003	T	0.57562	0.2062	L	0.37630	1.12	0.29058	N	0.884114	P;D	0.56968	0.799;0.978	B;P	0.44447	0.251;0.45	T	0.54510	-0.8283	10	0.09338	T	0.73	-17.3832	16.3191	0.82939	0.0715:0.0:0.9285:0.0	.	92;67	B7Z841;O15394	.;NCAM2_HUMAN	L	67;92	ENSP00000383392:V67L;ENSP00000441887:V92L	ENSP00000383392:V67L	V	+	1	0	NCAM2	21578453	1.000000	0.71417	0.498000	0.27564	0.836000	0.47400	3.223000	0.51231	0.735000	0.32537	-1.094000	0.02160	GTA		0.398	NCAM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000170915.1	NM_004540		T	22656582	G	T	22656582	3	4	584	1	0	0	0	0	1	0	0	0	10210	1261	44	4	209	4	NCAM2	21	22656582	Missense_Mutation	SNP	G	TCGA-EV-5902-01A-11D-1589-08		22656582	25473313	101	34740										
TTC3	7267	broad.mit.edu	37	chr21	38536463	38536463	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	cagtaacgaatatgttgtccGcaataagaagctatgggaca	10	7	0	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr21:38536463G>A	ENST00000399017.2	+	32	6028	c.3281G>A	c.(3280-3282)cGc>cAc	p.R1094H	TTC3_ENST00000354749.2_Missense_Mutation_p.R1094H|TTC3_ENST00000355666.1_Missense_Mutation_p.R1094H|TTC3_ENST00000479930.1_3'UTR	NM_003316.3	NP_003307.3	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	1094					negative regulation of cell morphogenesis involved in differentiation (GO:0010771)|negative regulation of neuron differentiation (GO:0045665)|protein K48-linked ubiquitination (GO:0070936)|ubiquitin-dependent protein catabolic process (GO:0006511)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|vacuole (GO:0005773)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(5)|endometrium(7)|kidney(5)|large_intestine(17)|liver(1)|lung(18)|ovary(4)|prostate(2)|skin(9)|upper_aerodigestive_tract(2)|urinary_tract(5)	75		Myeloproliferative disorder(46;0.0412)				TATGTTGTCCGCAATAAGAAG	0.393																																					Ovarian(38;194 1649 35661)											0													84	77	79					21																	38536463		2203	4300	6503	SO:0001583	missense	7267			D84296	CCDS13651.1	21q22.2	2013-01-11			ENSG00000182670	ENSG00000182670		"RING-type (C3HC4) zinc fingers", "Tetratricopeptide (TTC) repeat domain containing"	12393	protein-coding gene	gene with protein product		602259				8947847	Standard	NM_003316		Approved	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105	uc002yvz.3	P53804	OTTHUMG00000086654	ENST00000399017.2:c.3281G>A	21.37:g.38536463G>A	ENSP00000381981:p.Arg1094His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7H7|B2RPA7|D3DSG9|D3DSH2|D3DSH3|O60767|P78476|P78477|Q569I2|Q6P578|Q9UEK4	Missense_Mutation	SNP	ENST00000399017.2	37	CCDS13651.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	15.52|15.52	2.858057|2.858057	0.51376|0.51376	.|.	.|.	ENSG00000182670|ENSG00000182670	ENST00000411496|ENST00000418766;ENST00000438055;ENST00000355666;ENST00000399017;ENST00000354749	.|T;T;T;T;T	.|0.12255	.|2.7;2.7;3.05;3.05;3.05	4.92|4.92	2.66|2.66	0.31614|0.31614	.|.	.|0.390747	.|0.20615	.|N	.|0.088890	T|T	0.26048|0.26048	0.0635|0.0635	L|L	0.57536|0.57536	1.79|1.79	0.22666|0.22666	N|N	0.998871|0.998871	.|D;D	.|0.89917	.|1.0;0.999	.|D;P	.|0.74023	.|0.982;0.869	T|T	0.02546|0.02546	-1.1143|-1.1143	5|10	.|0.52906	.|T	.|0.07	-5.9888|-5.9888	4.9199|4.9199	0.13865|0.13865	0.3454:0.0:0.6546:0.0|0.3454:0.0:0.6546:0.0	.|.	.|152;1094	.|Q5GIT6;P53804	.|.;TTC3_HUMAN	T|H	250|1094;1076;1094;1094;1094	.|ENSP00000403943:R1094H;ENSP00000391891:R1076H;ENSP00000347889:R1094H;ENSP00000381981:R1094H;ENSP00000346791:R1094H	.|ENSP00000346791:R1094H	A|R	+|+	1|2	0|0	TTC3|TTC3	37458333|37458333	0.000000|0.000000	0.05858|0.05858	0.882000|0.882000	0.34594|0.34594	0.975000|0.975000	0.68041|0.68041	0.380000|0.380000	0.20602|0.20602	1.204000|1.204000	0.43247|0.43247	0.591000|0.591000	0.81541|0.81541	GCA|CGC		0.393	TTC3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000194776.1			A	38536463	G	A	38536463	3	1	584	1	0	0	0	0	1	0	0	0	16709	1087	38	1	3403	1	TTC3	21	38536463	Missense_Mutation	SNP	G	TCGA-EV-5902-01A-11D-1589-08	15879881	38536463	9593432	102	34741										
BCL2L13	23786	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	18138590	18138590	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gcaagagcaacatctttcctCaccccaaggtattatctttg	6	12	3	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr22:18138590C>T	ENST00000317582.5	+	2	460	c.113C>T	c.(112-114)tCa>tTa	p.S38L	BCL2L13_ENST00000337612.5_5'UTR|BCL2L13_ENST00000418951.2_Missense_Mutation_p.S38L|BCL2L13_ENST00000493680.1_Missense_Mutation_p.S38L|BCL2L13_ENST00000538149.1_Missense_Mutation_p.H26Y|BCL2L13_ENST00000399782.1_Missense_Mutation_p.S38L|BCL2L13_ENST00000355028.3_Missense_Mutation_p.S38L|BCL2L13_ENST00000543133.1_5'UTR	NM_015367.3	NP_056182.2	Q9BXK5	B2L13_HUMAN	BCL2-like 13 (apoptosis facilitator)	38					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic process (GO:0006915)	integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	cysteine-type endopeptidase activator activity involved in apoptotic process (GO:0008656)			breast(2)|central_nervous_system(1)|large_intestine(2)|liver(2)|lung(2)|ovary(1)|skin(3)|urinary_tract(2)	15		all_epithelial(15;0.123)		Lung(27;0.199)		CATCTTTCCTCACCCCAAGGT	0.358																																																0													94	83	87					22																	18138590		2203	4300	6503	SO:0001583	missense	23786			AF146568	CCDS13746.1, CCDS59447.1, CCDS59448.1, CCDS74810.1, CCDS74811.1, CCDS74812.1, CCDS74813.1, CCDS74814.1	22q11	2014-03-07			ENSG00000099968	ENSG00000099968			17164	protein-coding gene	gene with protein product						11262395, 11381032	Standard	NM_015367		Approved	MIL1, BCL-RAMBO	uc002zmw.4	Q9BXK5	OTTHUMG00000150088	ENST00000317582.5:c.113C>T	22.37:g.18138590C>T	ENSP00000318883:p.Ser38Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPE7|Q96B37|Q96IB7|Q9BY01|Q9HC05|Q9UFE0|Q9UKN3	Missense_Mutation	SNP	ENST00000317582.5	37	CCDS13746.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	12.60|12.60	1.986267|1.986267	0.35036|0.35036	.|.	.|.	ENSG00000099968|ENSG00000099968	ENST00000538149|ENST00000399782;ENST00000317582;ENST00000493680;ENST00000355028;ENST00000418951	T|T;T;T;T;T	0.40756|0.05513	1.02|3.43;3.43;3.43;3.43;3.43	5.68|5.68	2.49|2.49	0.30216|0.30216	.|.	.|0.492205	.|0.20751	.|N	.|0.086347	T|T	0.04952|0.04952	0.0133|0.0133	L|L	0.27053|0.27053	0.805|0.805	0.80722|0.80722	D|D	1|1	B|B;B;B	0.06786|0.11235	0.001|0.004;0.001;0.001	B|B;B;B	0.12156|0.13407	0.007|0.009;0.003;0.004	T|T	0.39418|0.39418	-0.9615|-0.9615	9|10	0.87932|0.38643	D|T	0|0.18	-0.0021|-0.0021	8.7678|8.7678	0.34713|0.34713	0.0:0.7614:0.0:0.2386|0.0:0.7614:0.0:0.2386	.|.	26|38;38;38	B7Z238|E9PDD6;Q9BXK5;Q9BXK5-2	.|.;B2L13_HUMAN;.	Y|L	26|38	ENSP00000441344:H26Y|ENSP00000382682:S38L;ENSP00000318883:S38L;ENSP00000434764:S38L;ENSP00000347133:S38L;ENSP00000410019:S38L	ENSP00000441344:H26Y|ENSP00000318883:S38L	H|S	+|+	1|2	0|0	BCL2L13|BCL2L13	16518590|16518590	0.012000|0.012000	0.17670|0.17670	0.956000|0.956000	0.39512|0.39512	0.989000|0.989000	0.77384|0.77384	0.630000|0.630000	0.24553|0.24553	0.343000|0.343000	0.23821|0.23821	0.591000|0.591000	0.81541|0.81541	CAC|TCA		0.358	BCL2L13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316184.1	NM_015367		T	18138590	C	T	18138590	3	4	584	1	0	0	0	0	1	0	0	0	1371	838	29	2	115	2	BCL2L13	22	18138590	Missense_Mutation	SNP	C	TCGA-EV-5902-01A-11D-1589-08		18138590	33165976	103	34742										
PI4KA	5297	bcgsc.ca	37	chr22	21073055	21073055	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	taaaagtccttcgctgggccGgacaaggagcctgtgatctc	12	11	1	1	rs530508978	byFrequency	TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr22:21073055G>A	ENST00000572273.1	-	44	5228	c.4998C>T	c.(4996-4998)tcC>tcT	p.S1666S	PI4KA_ENST00000414196.3_Silent_p.S476S|PI4KA_ENST00000255882.6_Silent_p.S1724S			P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase, catalytic, alpha	1666	Pleckstrin homology (PH) domain conferring phosphoinositide binding specificity. {ECO:0000250}.				phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi-associated vesicle membrane (GO:0030660)|membrane (GO:0016020)|plasma membrane (GO:0005886)	1-phosphatidylinositol 4-kinase activity (GO:0004430)|ATP binding (GO:0005524)			breast(3)|endometrium(8)|kidney(9)|large_intestine(19)|lung(29)|ovary(1)|pancreas(1)|prostate(3)|salivary_gland(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	79	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)			TCGCTGGGCCGGACAAGGAGC	0.517																																					GBM(136;1332 1831 3115 23601 50806)											0													86	80	82					22																	21073055		2203	4300	6503	SO:0001819	synonymous_variant	5297			L36151	CCDS33603.1, CCDS33603.2	22q11.21	2011-05-25	2007-08-14	2007-08-02	ENSG00000241973	ENSG00000241973			8983	protein-coding gene	gene with protein product		600286		PIK4CA		7961848, 8662589	Standard	NM_002650		Approved	PI4K-ALPHA, pi4K230	uc002zsz.5	P42356	OTTHUMG00000167440	ENST00000572273.1:c.4998C>T	22.37:g.21073055G>A		Somatic		WXS	Illumina HiSeq	Phase_1	Q7Z625|Q9UPG2	Silent	SNP	ENST00000572273.1	37																																																																																					0.517	PI4KA-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_058004		A	21073055	G	A	21073055	2	1	584	1	0	0	0	0	0	0	0	1	11880	1103	39	1		1	PI4KA	22	21073055	Silent	SNP	G	TCGA-EV-5902-01A-11D-1589-08	2934465	21073055	30231511	104	34743										
NF2	4771	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	30067890	30067905	+	Frame_Shift_Del	DEL	AGGCTGCTGCAGATGA	AGGCTGCTGCAGATGA	-													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	cgagggatgagttggagaggAggctgctgcagatgaaagaa					rs74315492|rs74315498		TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	AGGCTGCTGCAGATGA	AGGCTGCTGCAGATGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chr22:30067890_30067905delAGGCTGCTGCAGATGA	ENST00000338641.4	+	11	1516_1531	c.1075_1090delAGGCTGCTGCAGATGA	c.(1075-1092)aggctgctgcagatgaaafs	p.RLLQMK359fs	NF2_ENST00000403435.1_Splice_Site_p.GC334fs|NF2_ENST00000353887.4_Frame_Shift_Del_p.RLLQMK276fs|NF2_ENST00000413209.2_Intron|NF2_ENST00000347330.5_Intron|NF2_ENST00000361676.4_Frame_Shift_Del_p.RLLQMK317fs|NF2_ENST00000403999.3_Frame_Shift_Del_p.RLLQMK359fs|NF2_ENST00000397789.3_Frame_Shift_Del_p.RLLQMK359fs|NF2_ENST00000361166.4_Frame_Shift_Del_p.RLLQMK359fs|NF2_ENST00000334961.7_Frame_Shift_Del_p.RLLQMK276fs|NF2_ENST00000361452.4_Frame_Shift_Del_p.RLLQMK318fs	NM_000268.3|NM_016418.5|NM_181832.2	NP_000259.1|NP_057502.2|NP_861970.1	P35240	MERL_HUMAN	neurofibromin 2 (merlin)	359	Glu-rich.				actin cytoskeleton organization (GO:0030036)|cell-cell junction organization (GO:0045216)|ectoderm development (GO:0007398)|hippocampus development (GO:0021766)|lens fiber cell differentiation (GO:0070306)|mesoderm formation (GO:0001707)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of DNA replication (GO:0008156)|negative regulation of JAK-STAT cascade (GO:0046426)|negative regulation of MAPK cascade (GO:0043409)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of tyrosine phosphorylation of Stat3 protein (GO:0042518)|negative regulation of tyrosine phosphorylation of Stat5 protein (GO:0042524)|odontogenesis of dentin-containing tooth (GO:0042475)|positive regulation of cell differentiation (GO:0045597)|positive regulation of stress fiber assembly (GO:0051496)|regulation of hippo signaling (GO:0035330)|regulation of neural precursor cell proliferation (GO:2000177)|regulation of protein localization to nucleus (GO:1900180)|regulation of protein stability (GO:0031647)|Schwann cell proliferation (GO:0014010)	adherens junction (GO:0005912)|apical part of cell (GO:0045177)|cleavage furrow (GO:0032154)|cortical actin cytoskeleton (GO:0030864)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|early endosome (GO:0005769)|extrinsic component of membrane (GO:0019898)|filopodium (GO:0030175)|lamellipodium (GO:0030027)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|ruffle (GO:0001726)		p.Q362*(4)|p.?(3)|p.M363fs*12(2)|p.L361fs*6(1)|p.M334fs*4(1)|p.L361fs*3(1)|p.M334_Q362del(1)|p.K364fs*5(1)		NS(1)|bone(2)|breast(5)|central_nervous_system(21)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(17)|large_intestine(9)|liver(1)|lung(9)|meninges(372)|ovary(2)|pituitary(1)|pleura(9)|prostate(1)|skin(7)|soft_tissue(303)|stomach(2)|thyroid(2)|upper_aerodigestive_tract(1)|urinary_tract(4)	776						GTTGGAGAGGAGGCTGCTGCAGATGAAAGAAGAAGC	0.565			"D, Mis, N, F, S, O"		"meningioma, acoustic neuroma, renal "	"meningioma, acoustic neuroma"			Neurofibromatosis, type 2																													yes	Rec	yes	Neurofibromatosis type 2	22	22q12.2	4771	neurofibromatosis type 2 gene		O	14	Deletion - Frameshift(6)|Substitution - Nonsense(4)|Unknown(3)|Deletion - In frame(1)	meninges(5)|soft_tissue(4)|large_intestine(1)|central_nervous_system(1)|endometrium(1)|skin(1)|stomach(1)	GRCh37	CM066148|CM930517	NF2	M	rs74315492|rs74315498																																			SO:0001589	frameshift_variant	4771	Familial Cancer Database	NF2, Central Neurofibromatosis, Bilateral Acoustic Neurofibromatosis	L11353	CCDS13861.1, CCDS13862.1, CCDS13863.1, CCDS13864.1, CCDS13865.1, CCDS54516.1	22q12.2	2014-09-17	2007-12-17		ENSG00000186575	ENSG00000186575		"A-kinase anchor proteins"	7773	protein-coding gene	gene with protein product	"moesin-ezrin-radixin like", "schwannomin"	607379	"neurofibromin 2 (bilateral acoustic neuroma)"			10591208	Standard	NM_000268		Approved	merlin	uc003age.4	P35240	OTTHUMG00000030727	ENST00000338641.4:c.1075_1090delAGGCTGCTGCAGATGA	22.37:g.30067890_30067905delAGGCTGCTGCAGATGA	ENSP00000344666:p.Arg359fs	Somatic		WXS	Illumina HiSeq	Phase_I	O95683|Q8WUJ2|Q969N0|Q969Q3|Q96T30|Q96T31|Q96T32|Q96T33|Q9BTW3|Q9UNG9|Q9UNH3|Q9UNH4	Frame_Shift_Del	DEL	ENST00000338641.4	37	CCDS13861.1																																																																																				0.565	NF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075615.3	NM_000268		-	30067905	AGGCTGCTGCAGATGA	-	30067890	7	5	584	1	0	1	0	1	0	0	0	0	10364	295	11	0	1117	0	NF2	22	30067890	Frame_Shift_Del	DEL	AGGCTGCTGCAGATGA	TCGA-EV-5902-01A-11D-1589-08	8994835	30067890	21236676	105	34744										
GAGE2A	729408	broad.mit.edu	37	chrX	49208295	49208296	+	In_Frame_Ins	INS	-	-	TAT													0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	gttggcgaggaagatcgaccINStatcggcctagaccaagacg					rs372553636		TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chrX:49208295_49208296insTAT	ENST00000404720.2	+	2	96_97	c.24_25insTAT	c.(25-27)tat>TATtat	p.9_9Y>YY		NM_001098407.1|NM_012196.1	NP_001091877.1|NP_036328.1	Q9UEU5	GGE2D_HUMAN	G antigen 2D	9					cellular defense response (GO:0006968)												GAAGATCGACCTATCGGCCTAG	0.465														477	0.126358	0.031	0.098	3775	,	,		26951	0.0972		0.1441	False		,,,				2504	0.1278															0										10,505,1500		1,1,3,4,46,330,82,490,187						-1.1	0			8	27,1244,2482		1,3,16,6,128,539,446,675,577	no	codingComplex	GAGE2D	NM_001098407.1		2,4,19,10,174,869,528,1165,764	A1A1,A1A2,A1R,A1,A2A2,A2R,A2,RR,R		33.8662,25.5583,30.9639				37,1749,3982				SO:0001652	inframe_insertion	729447					Xp11.23	2012-10-02			ENSG00000240257				31959	protein-coding gene	gene with protein product		300735					Standard	NM_001098407		Approved	GAGE8		Q9UEU5	OTTHUMG00000067393	ENST00000404720.2:c.25_27dupTAT	X.37:g.49208296_49208298dupTAT	ENSP00000386110:p.Tyr9dup	Somatic		WXS	Illumina HiSeq	Phase_I	A6NG46|A6NNR8|B7ZL76|Q4V325	In_Frame_Ins	INS	ENST00000404720.2	37	CCDS43941.1																																																																																				0.465	GAGE2D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000144212.1	NM_001098407		TAT	49208296	-	TAT	49208295	7	5	584	1	0	1	1	0	0	0	0	0	6197	668	24	0	236	0	GAGE2A	23	49208295	In_Frame_Ins	INS	-	TCGA-EV-5902-01A-11D-1589-08		49208295	106062265	106	34745										
ODZ1	10178	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	123519705	123519705	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	cgccctgtccccagatgcagGgtctgtagcaatcggccatc	11	15	1	1			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chrX:123519705G>T	ENST00000371130.3	-	28	5940	c.5877C>A	c.(5875-5877)acC>acA	p.T1959T	TENM1_ENST00000422452.2_Silent_p.T1966T|STAG2_ENST00000469481.1_Intron	NM_014253.3	NP_055068.2	Q9UKZ4	TEN1_HUMAN	teneurin transmembrane protein 1	1959					immune response (GO:0006955)|negative regulation of cell proliferation (GO:0008285)|nervous system development (GO:0007399)|neuropeptide signaling pathway (GO:0007218)|positive regulation of actin filament polymerization (GO:0030838)|positive regulation of filopodium assembly (GO:0051491)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|regulation of transcription from RNA polymerase III promoter (GO:0006359)|response to stress (GO:0006950)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|nuclear matrix (GO:0016363)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	heparin binding (GO:0008201)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)										CCAGATGCAGGGTCTGTAGCA	0.488																																																0													173	144	154					X																	123519705		2203	4300	6503	SO:0001819	synonymous_variant	10178			AF100772	CCDS14609.1, CCDS55488.1	Xq25	2012-10-02	2012-10-02	2012-10-02	ENSG00000009694	ENSG00000009694			8117	protein-coding gene	gene with protein product		300588	"tenascin M", "odz, odd Oz/ten-m homolog 1 (Drosophila)"	ODZ3, TNM, ODZ1		10331952, 10341219	Standard	NM_001163278		Approved	TEN-M1	uc010nqy.3	Q9UKZ4	OTTHUMG00000022721	ENST00000371130.3:c.5877C>A	X.37:g.123519705G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RTR5|Q5JZ17	Silent	SNP	ENST00000371130.3	37	CCDS14609.1																																																																																				0.488	TENM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058985.1	NM_014253		T	123519705	G	T	123519705	2	4	584	1	0	0	0	0	0	0	0	1	10841	1219	43	4		4	ODZ1	23	123519705	Silent	SNP	G	TCGA-EV-5902-01A-11D-1589-08	74311410	123519705	31750855	107	34746										
ZDHHC9	51114	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	128963040	128963040	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0654205607476635	7	1	1.49834710743802	1.24862258953168	1.55001424907381	0.0572755417956657	0.96831955922865	0	tgaagctggtcctcaacagtGtagccatggagaaaaggaag	13	7	1	2			TCGA-EV-5902-01A-11D-1589-08	TCGA-EV-5902-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	05c0e7bb-5be8-4e8d-9724-8063e99cc058	c49e0138-d7e1-4094-9d2d-b41239dea126	g.chrX:128963040G>T	ENST00000357166.6	-	4	636	c.245C>A	c.(244-246)aCa>aAa	p.T82K	ZDHHC9_ENST00000371064.3_Missense_Mutation_p.T82K	NM_016032.3	NP_057116.2	Q9Y397	ZDHC9_HUMAN	zinc finger, DHHC-type containing 9	82					peptidyl-L-cysteine S-palmitoylation (GO:0018230)|protein palmitoylation (GO:0018345)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|intrinsic component of Golgi membrane (GO:0031228)|palmitoyltransferase complex (GO:0002178)	palmitoyltransferase activity (GO:0016409)|protein-cysteine S-palmitoyltransferase activity (GO:0019706)|Ras palmitoyltransferase activity (GO:0043849)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(3)|lung(8)|ovary(1)|pancreas(1)	19						CCTCAACAGTGTAGCCATGGA	0.522																																																0													127	102	110					X																	128963040		2203	4300	6503	SO:0001583	missense	51114			AF151847	CCDS35395.1	Xq26.1	2008-02-05			ENSG00000188706	ENSG00000188706		"Zinc fingers, DHHC-type"	18475	protein-coding gene	gene with protein product		300646	"zinc finger, DHHC-type containing 10", "chromosome X open reading frame 11"	ZDHHC10, CXorf11		10810093	Standard	NM_001008222		Approved	ZNF379, CGI-89, ZNF380	uc004euw.3	Q9Y397	OTTHUMG00000022375	ENST00000357166.6:c.245C>A	X.37:g.128963040G>T	ENSP00000349689:p.Thr82Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4F6G2|D3DTF9|Q59EK4|Q5JSW5|Q8WWS7|Q9BPY4|Q9NSP0|Q9NVL0|Q9NVR6	Missense_Mutation	SNP	ENST00000357166.6	37	CCDS35395.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	19.36|19.36	3.812188|3.812188	0.70797|0.70797	.|.	.|.	ENSG00000188706|ENSG00000188706	ENST00000433917|ENST00000357166;ENST00000371064;ENST00000406492	.|T;T;T	.|0.25085	.|1.82;1.82;1.82	5.7|5.7	5.7|5.7	0.88788|0.88788	.|.	.|0.088515	.|0.85682	.|D	.|0.000000	T|T	0.39572|0.39572	0.1083|0.1083	M|M	0.75777|0.75777	2.31|2.31	0.51482|0.51482	D|D	0.999924|0.999924	.|P	.|0.41041	.|0.736	.|P	.|0.44422	.|0.449	T|T	0.16305|0.16305	-1.0407|-1.0407	5|10	.|0.36615	.|T	.|0.2	-7.38|-7.38	18.76|18.76	0.91847|0.91847	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|82	.|Q9Y397	.|ZDHC9_HUMAN	N|K	42|82	.|ENSP00000349689:T82K;ENSP00000360103:T82K;ENSP00000383991:T82K	.|ENSP00000349689:T82K	H|T	-|-	1|2	0|0	ZDHHC9|ZDHHC9	128790721|128790721	1.000000|1.000000	0.71417|0.71417	0.972000|0.972000	0.41901|0.41901	0.891000|0.891000	0.51852|0.51852	4.787000|4.787000	0.62432|0.62432	2.375000|2.375000	0.81037|0.81037	0.594000|0.594000	0.82650|0.82650	CAC|ACA		0.522	ZDHHC9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058213.1	NM_016032		T	128963040	G	T	128963040	3	4	584	1	0	0	0	0	1	0	0	0	17634	1377	48	4	881	4	ZDHHC9	23	128963040	Missense_Mutation	SNP	G	TCGA-EV-5902-01A-11D-1589-08	5443335	128963040	26307520	108	34747										
VPS13D	55187	bcgsc.ca	37	chr1	12304650	12304650	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tcagttaccgcctccgtagtTacaaggattgtggagaatat	10	8	1	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr1:12304650T>C	ENST00000358136.3	+	5	553	c.423T>C	c.(421-423)gtT>gtC	p.V141V	VPS13D_ENST00000356315.4_Silent_p.V141V	NM_015378.2	NP_056193.2			vacuolar protein sorting 13 homolog D (S. cerevisiae)											NS(1)|breast(6)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(13)|large_intestine(28)|lung(44)|ovary(5)|pancreas(1)|prostate(8)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(4)	130	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)		CCTCCGTAGTTACAAGGATTG	0.413																																																0													143	133	137					1																	12304650		2203	4300	6503	SO:0001819	synonymous_variant	55187			AJ608774	CCDS30588.1, CCDS30589.1	1p36.21	2008-02-05	2006-04-04		ENSG00000048707	ENSG00000048707			23595	protein-coding gene	gene with protein product		608877	"vacuolar protein sorting 13D (yeast)"				Standard	NM_015378		Approved	FLJ10619, KIAA0453	uc001atv.3	Q5THJ4	OTTHUMG00000013155	ENST00000358136.3:c.423T>C	1.37:g.12304650T>C		Somatic		WXS	Illumina HiSeq	Phase_1		Silent	SNP	ENST00000358136.3	37	CCDS30588.1																																																																																				0.413	VPS13D-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000036897.2	NM_015378		C	12304650	T	C	12304650	2	2	585	1	0	0	0	0	0	0	0	1	17204	1741	61	3		3	VPS13D	1	12304650	Silent	SNP	T	TCGA-EV-5903-01A-11D-1589-08		12304650	236945971	1	34748										
INADL	10207	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	62550317	62550317	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gtgggaggaaaagacacaccCttggtaagtttctagaaata	11	6	1	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr1:62550317C>T	ENST00000371158.2	+	33	4488	c.4374C>T	c.(4372-4374)ccC>ccT	p.P1458P	INADL_ENST00000545929.1_Silent_p.P131P|INADL_ENST00000543708.1_Silent_p.P242P|INADL_ENST00000316485.6_Silent_p.P1458P	NM_176877.2	NP_795352	Q8NI35	INADL_HUMAN	InaD-like (Drosophila)	1458	PDZ 8. {ECO:0000255|PROSITE- ProRule:PRU00143}.				cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|intracellular signal transduction (GO:0035556)|tight junction assembly (GO:0070830)	apical part of cell (GO:0045177)|extracellular vesicular exosome (GO:0070062)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|tight junction (GO:0005923)		p.P1458P(1)		breast(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(8)|liver(1)|lung(51)|ovary(3)|pancreas(1)|prostate(7)|skin(5)|stomach(1)|upper_aerodigestive_tract(3)	103						AAGACACACCCTTGGTAAGTT	0.448																																																1	Substitution - coding silent(1)	lung(1)											88	89	89					1																	62550317		2203	4300	6503	SO:0001819	synonymous_variant	10207			AB044807	CCDS617.2	1p31	2008-02-05			ENSG00000132849	ENSG00000132849			28881	protein-coding gene	gene with protein product		603199				9280290, 11374908	Standard	NM_176877		Approved	Cipp, PATJ	uc001dab.3	Q8NI35	OTTHUMG00000008560	ENST00000371158.2:c.4374C>T	1.37:g.62550317C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O15249|O43742|O60833|Q5VUA5|Q5VUA6|Q5VUA7|Q5VUA8|Q5VUA9|Q5VUB0|Q8WU78|Q9H3N9	Silent	SNP	ENST00000371158.2	37	CCDS617.2																																																																																				0.448	INADL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023639.2	NM_170605		T	62550317	C	T	62550317	2	4	585	1	0	0	0	0	0	0	0	1	7738	668	24	2		2	INADL	1	62550317	Silent	SNP	C	TCGA-EV-5903-01A-11D-1589-08	50245667	62550317	186700304	2	34749										
FAM40A	85369	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	110587506	110587507	+	Frame_Shift_Ins	INS	-	-	TA													0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gagtccagccgcagcaaattINStataggttacactctaggca							TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr1:110587506_110587507insTA	ENST00000369795.3	+	11	1353_1354	c.1331_1332insTA	c.(1330-1335)tttatafs	p.FI444fs	STRIP1_ENST00000369796.1_Frame_Shift_Ins_p.FI349fs	NM_033088.3	NP_149079.2	Q5VSL9	STRP1_HUMAN	striatin interacting protein 1	444					cortical actin cytoskeleton organization (GO:0030866)|regulation of cell morphogenesis (GO:0022604)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)											CGCAGCAAATTTATAGGTTACA	0.436																																																0																																										SO:0001589	frameshift_variant	85369			AK027649	CCDS30798.1, CCDS59197.1	1p13.3	2012-11-05	2012-11-05	2012-11-05	ENSG00000143093	ENSG00000143093			25916	protein-coding gene	gene with protein product	"FAR11 factor arrest 11 homolog A (yeast)"		"family with sequence similarity 40, member A"	FAM40A		11214970, 12588993, 22782902, 22298706, 18782753	Standard	NM_033088		Approved	FLJ14743, KIAA1761, FAR11A	uc001dza.2	Q5VSL9	OTTHUMG00000170607	ENST00000369795.3:c.1334_1335dupTA	1.37:g.110587509_110587510dupTA	ENSP00000358810:p.Phe444fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q0V925|Q5VSL8|Q658K2|Q6ZV31|Q8N598|Q96SN2|Q9C0A2	Frame_Shift_Ins	INS	ENST00000369795.3	37	CCDS30798.1																																																																																				0.436	STRIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032213.1	NM_033088		TA	110587507	-	TA	110587506	7	5	585	1	0	1	1	0	0	0	0	0	5567	1841	64	0	1373	0	FAM40A	1	110587506	Frame_Shift_Ins	INS	-	TCGA-EV-5903-01A-11D-1589-08	48037189	110587506	138663115	3	34750										
LY9	4063	broad.mit.edu	37	chr1	160783509	160783509	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	acatcactctaatgtgctccGtgaagggggcagagaaaagt	12	8	2	2	rs568376272		TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr1:160783509G>A	ENST00000263285.6	+	3	568	c.538G>A	c.(538-540)Gtg>Atg	p.V180M	LY9_ENST00000471816.1_3'UTR|LY9_ENST00000368037.5_Missense_Mutation_p.V180M|LY9_ENST00000368041.2_Missense_Mutation_p.V140M|LY9_ENST00000341032.4_Missense_Mutation_p.V180M|LY9_ENST00000392203.4_Missense_Mutation_p.V180M|LY9_ENST00000368040.1_5'UTR			Q9HBG7	LY9_HUMAN	lymphocyte antigen 9	180	Ig-like C2-type 1.				cell adhesion (GO:0007155)	integral component of membrane (GO:0016021)	receptor activity (GO:0004872)			autonomic_ganglia(1)|breast(1)|endometrium(4)|kidney(3)|large_intestine(5)|lung(17)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	36	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			AATGTGCTCCGTGAAGGGGGC	0.537													G|||	1	0.000199681	0.0	0.0014	5008	,	,		20846	0.0		0.0	False		,,,				2504	0.0															0													113	109	111					1																	160783509		2203	4300	6503	SO:0001583	missense	4063			L42621	CCDS30916.1, CCDS30917.1, CCDS65695.1, CCDS65696.1	1q23.3	2013-01-11			ENSG00000122224	ENSG00000122224		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6730	protein-coding gene	gene with protein product		600684				8537117, 7797269	Standard	NM_001261457		Approved	CD229, mLY9, SLAMF3, hly9	uc001fwu.4	Q9HBG7	OTTHUMG00000024007	ENST00000263285.6:c.538G>A	1.37:g.160783509G>A	ENSP00000263285:p.Val180Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7N3|Q14775|Q5VYI3|Q6P2J4|Q9H4N5|Q9NQ24	Missense_Mutation	SNP	ENST00000263285.6	37	CCDS30916.1	.	.	.	.	.	.	.	.	.	.	G	13.30	2.195454	0.38806	.	.	ENSG00000122224	ENST00000368041;ENST00000341032;ENST00000263285;ENST00000542780;ENST00000392203;ENST00000368037;ENST00000368036	T;T	0.03951	3.75;3.75	4.12	0.914	0.19360	Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.153604	0.42964	N	0.000624	T	0.03390	0.0098	M	0.70275	2.135	0.22050	N	0.999398	D;D;D;D;D;D	0.59357	0.981;0.981;0.96;0.962;0.967;0.985	P;P;B;P;B;P	0.48795	0.509;0.509;0.235;0.516;0.328;0.59	T	0.30650	-0.9971	10	0.56958	D	0.05	-4.7988	6.5251	0.22297	0.3552:0.0:0.6447:0.0	.	180;140;140;180;180;180	B4E0J5;Q5VYH7;Q5VYH9;E7EME5;Q9HBG7-2;Q9HBG7	.;.;.;.;.;LY9_HUMAN	M	180;180;180;180;140;140;82	ENSP00000342921:V180M;ENSP00000263285:V180M	ENSP00000263285:V180M	V	+	1	0	LY9	159050133	0.001000	0.12720	0.004000	0.12327	0.008000	0.06430	-0.026000	0.12392	0.069000	0.16605	0.557000	0.71058	GTG		0.537	LY9-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000060457.3	NM_002348		A	160783509	G	A	160783509	3	1	585	1	0	0	0	0	1	0	0	0	9108	1145	40	1	680	1	LY9	1	160783509	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	50196003	160783509	88467112	4	34751										
LRRC52	440699	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	165514059	165514059	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ccttataccacctcactactCtggagaccctgtttctgagt	6	14	3	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr1:165514059C>G	ENST00000294818.1	+	1	816	c.526C>G	c.(526-528)Ctg>Gtg	p.L176V	RP11-280O1.2_ENST00000416424.1_RNA|RP11-280O1.2_ENST00000438275.1_RNA|RP11-280O1.2_ENST00000421273.1_RNA	NM_001005214.3	NP_001005214.2	Q8N7C0	LRC52_HUMAN	leucine rich repeat containing 52	176					ion transport (GO:0006811)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(5)|ovary(1)	18	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)					CCTCACTACTCTGGAGACCCT	0.512																																																0													148	152	151					1																	165514059		2203	4300	6503	SO:0001583	missense	440699			AK098677	CCDS30930.1	1q23.3	2008-02-05			ENSG00000162763	ENSG00000162763			32156	protein-coding gene	gene with protein product		615218					Standard	NM_001005214		Approved	FLJ25811	uc001gde.2	Q8N7C0	OTTHUMG00000034625	ENST00000294818.1:c.526C>G	1.37:g.165514059C>G	ENSP00000294818:p.Leu176Val	Somatic		WXS	Illumina HiSeq	Phase_I	A2RUN7|Q5T9K5	Missense_Mutation	SNP	ENST00000294818.1	37	CCDS30930.1	.	.	.	.	.	.	.	.	.	.	C	12.19	1.863665	0.32884	.	.	ENSG00000162763	ENST00000294818	T	0.06449	3.3	5.39	5.39	0.77823	.	0.089285	0.53938	D	0.000042	T	0.17195	0.0413	M	0.74881	2.28	0.34422	D	0.697524	D	0.65815	0.995	D	0.67231	0.95	T	0.00436	-1.1740	9	0.72032	D	0.01	.	16.6547	0.85225	0.0:1.0:0.0:0.0	.	176	Q8N7C0	LRC52_HUMAN	V	176	ENSP00000294818:L176V	ENSP00000294818:L176V	L	+	1	2	LRRC52	163780683	1.000000	0.71417	0.049000	0.19019	0.023000	0.10783	5.468000	0.66743	2.517000	0.84864	0.563000	0.77884	CTG		0.512	LRRC52-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083793.1	NM_001005214		G	165514059	C	G	165514059	3	3	585	1	0	0	0	0	1	0	0	0	9017	912	32	4	528	4	LRRC52	1	165514059	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08	4730550	165514059	83736562	5	34752										
C1orf107	27042	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	210015618	210015618	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ttccactcaaagcatttgatGaatcacatgaacctactacc	4	12	2	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr1:210015618G>A	ENST00000491415.2	+	9	1551	c.1494G>A	c.(1492-1494)atG>atA	p.M498I		NM_014388.6	NP_055203.4	Q68CQ4	DIEXF_HUMAN	digestive organ expansion factor homolog (zebrafish)	498					multicellular organismal development (GO:0007275)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			breast(6)|central_nervous_system(2)|cervix(2)|endometrium(2)|kidney(15)|large_intestine(7)|lung(12)|ovary(1)|skin(3)|stomach(1)|urinary_tract(2)	53						AGCATTTGATGAATCACATGA	0.418																																																0													82	74	76					1																	210015618		2203	4300	6503	SO:0001583	missense	27042			BC022964	CCDS1493.1	1q32.2	2011-08-12	2011-02-16	2011-02-16	ENSG00000117597	ENSG00000117597			28440	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 107"	C1orf107		16322560	Standard	NM_014388		Approved	MGC29875, DEF, UTP25	uc001hhr.2	Q68CQ4	OTTHUMG00000036654	ENST00000491415.2:c.1494G>A	1.37:g.210015618G>A	ENSP00000419005:p.Met498Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O75992|Q4VY00|Q63HL9	Missense_Mutation	SNP	ENST00000491415.2	37	CCDS1493.1	.	.	.	.	.	.	.	.	.	.	G	21.0	4.076476	0.76415	.	.	ENSG00000117597	ENST00000491415	T	0.37411	1.2	6.17	6.17	0.99709	.	0.069797	0.85682	D	0.000000	T	0.36580	0.0972	L	0.45228	1.405	0.58432	D	0.999996	P	0.45044	0.849	B	0.39971	0.315	T	0.03315	-1.1049	10	0.35671	T	0.21	-37.8963	20.8794	0.99867	0.0:0.0:1.0:0.0	.	498	Q68CQ4	DIEXF_HUMAN	I	498	ENSP00000419005:M498I	ENSP00000419005:M498I	M	+	3	0	DIEXF	208082241	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.791000	0.85805	2.941000	0.99782	0.655000	0.94253	ATG		0.418	DIEXF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089127.2	NM_014388		A	210015618	G	A	210015618	3	1	585	1	0	0	0	0	1	0	0	0	1983	1290	45	2	1528	2	C1orf107	1	210015618	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	44501559	210015618	39235003	6	34753										
OR2L8	391190	hgsc.bcm.edu	37	chr1	248112762	248112763	+	Frame_Shift_Del	DEL	TG	TG	-													0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gagggcacagtgtttttgagTgccaccatctttctcgtgtt					rs34851853|rs4925790|rs4925789	byFrequency	TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr1:248112762_248112763delTG	ENST00000357191.3	+	1	603_604	c.603_604delTG	c.(601-606)agtgccfs	p.A202fs	OR2L13_ENST00000366478.2_Intron	NM_001001963.1	NP_001001963.1	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L, member 8 (gene/pseudogene)	202			A -> T (in dbSNP:rs4925790).			integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(1)|kidney(3)|large_intestine(3)|lung(30)|ovary(1)|prostate(1)|skin(3)	42	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)			TGTTTTTGAGTGCCACCATCTT	0.49																																																0																																										SO:0001589	frameshift_variant	391190			BK004459	CCDS31101.1	1q44	2013-10-10	2013-10-10		ENSG00000196936	ENSG00000196936		"GPCR / Class A : Olfactory receptors"	15014	protein-coding gene	gene with protein product			"olfactory receptor, family 2, subfamily L, member 8"				Standard	NM_001001963		Approved		uc001idt.1	Q8NGY9	OTTHUMG00000040196	ENST00000357191.3:c.603_604delTG	1.37:g.248112762_248112763delTG	ENSP00000349719:p.Ala202fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF03	Frame_Shift_Del	DEL	ENST00000357191.3	37	CCDS31101.1																																																																																				0.49	OR2L8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096853.2			-	248112763	TG	-	248112762	7	5	585	1	0	1	0	1	0	0	0	0	11016	1693	59	0	605	0	OR2L8	1	248112762	Frame_Shift_Del	DEL	TG	TCGA-EV-5903-01A-11D-1589-08	38097144	248112762	1137859	7	34754										
KHK	3795	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	27322367	27322367	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	aattgctccactcggatgctTtcccgccaccccgcgtggtg	10	16	0	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr2:27322367T>C	ENST00000260599.6	+	7	1246	c.733T>C	c.(733-735)Ttc>Ctc	p.F245L	KHK_ENST00000490823.1_3'UTR|KHK_ENST00000260598.5_Missense_Mutation_p.F245L|CGREF1_ENST00000402550.1_3'UTR|CGREF1_ENST00000452318.2_3'UTR	NM_000221.2	NP_000212.1	P50053	KHK_HUMAN	ketohexokinase (fructokinase)	245					carbohydrate metabolic process (GO:0005975)|carbohydrate phosphorylation (GO:0046835)|fructose catabolic process (GO:0006001)|regulation of glycogen metabolic process (GO:0070873)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ketohexokinase activity (GO:0004454)			endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(2)|lung(4)|skin(1)|upper_aerodigestive_tract(1)	16	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTCGGATGCTTTCCCGCCACC	0.637																																																0													80	82	82					2																	27322367		2203	4300	6503	SO:0001583	missense	3795				CCDS1734.1, CCDS1735.1	2p23.3-p23.2	2008-02-05			ENSG00000138030	ENSG00000138030	2.7.1.3		6315	protein-coding gene	gene with protein product		614058				7833921	Standard	NM_000221		Approved		uc002rim.2	P50053	OTTHUMG00000097077	ENST00000260599.6:c.733T>C	2.37:g.27322367T>C	ENSP00000260599:p.Phe245Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IBK2|Q99532|Q9BRJ3|Q9UMN1	Missense_Mutation	SNP	ENST00000260599.6	37	CCDS1734.1	.	.	.	.	.	.	.	.	.	.	T	17.98	3.519838	0.64634	.	.	ENSG00000138030	ENST00000260599;ENST00000260598	T;T	0.75477	-0.94;-0.94	5.29	4.11	0.48088	Carbohydrate/purine kinase (1);	0.048848	0.85682	D	0.000000	T	0.71324	0.3326	M	0.66939	2.045	0.80722	D	1	B;P;B;P	0.51791	0.021;0.948;0.08;0.948	B;B;B;B	0.43052	0.022;0.406;0.049;0.406	T	0.69621	-0.5096	10	0.38643	T	0.18	-12.9402	10.6793	0.45804	0.0:0.0:0.1603:0.8397	.	245;245;245;245	Q53G56;Q6IBK2;P50053-2;P50053	.;.;.;KHK_HUMAN	L	245	ENSP00000260599:F245L;ENSP00000260598:F245L	ENSP00000260598:F245L	F	+	1	0	KHK	27175871	1.000000	0.71417	0.979000	0.43373	0.490000	0.33462	4.841000	0.62824	0.811000	0.34303	0.454000	0.30748	TTC		0.637	KHK-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000214196.1			C	27322367	T	C	27322367	3	2	585	1	0	0	0	0	1	0	0	0	8156	1841	64	3	898	3	KHK	2	27322367	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08		27322367	215877006	8	34755										
DNAJC5G	285126	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	27503082	27503082	+	Nonstop_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	aaatagcgaagatgatttttAagagatgaagaaggatgagg	13	1	0	6			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr2:27503082A>T	ENST00000296097.3	+	6	987	c.569A>T	c.(568-570)tAa>tTa	p.*190L	DNAJC5G_ENST00000406962.1_Nonsense_Mutation_p.K103*|TRIM54_ENST00000380075.2_5'Flank|TRIM54_ENST00000296098.4_5'Flank|DNAJC5G_ENST00000402462.1_Nonstop_Mutation_p.*190L|DNAJC5G_ENST00000404433.1_Nonstop_Mutation_p.*174L	NM_173650.1	NP_775921.1	Q8N7S2	DNJ5G_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5 gamma	0						membrane (GO:0016020)				cervix(1)|large_intestine(2)|lung(5)|skin(1)|urinary_tract(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GATGATTTTTAAGAGATGAAG	0.333											OREG0014517	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													141	153	149					2																	27503082		2203	4300	6503	SO:0001578	stop_lost	285126			AF368277	CCDS1744.1	2p23	2011-09-02			ENSG00000163793	ENSG00000163793		"Heat shock proteins / DNAJ (HSP40)"	24844	protein-coding gene	gene with protein product		613946					Standard	NM_173650		Approved	FLJ40417, CSP-gamma	uc002rjl.1	Q8N7S2	OTTHUMG00000097079	ENST00000296097.3:c.569A>T	2.37:g.27503082A>T	ENSP00000296097:p.*190Leuext*11	Somatic	794	WXS	Illumina HiSeq	Phase_I	B4DY29|Q53SY5|Q8IYQ4|Q96RJ8	Missense_Mutation	SNP	ENST00000296097.3	37	CCDS1744.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	16.13|16.13	3.037320|3.037320	0.54896|0.54896	.|.	.|.	ENSG00000163793|ENSG00000163793	ENST00000406962|ENST00000296097;ENST00000402462;ENST00000404433	.|.	.|.	.|.	3.86|3.86	0.87|0.87	0.19102|0.19102	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	0.09310|0.09310	N|N	1|1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	2.2003|2.2003	0.03921|0.03921	0.5749:0.0:0.1962:0.2289|0.5749:0.0:0.1962:0.2289	.|.	.|.	.|.	.|.	X|L	103|190;190;174	.|.	.|.	K|X	+|+	1|2	0|2	DNAJC5G|DNAJC5G	27356586|27356586	0.017000|0.017000	0.18338|0.18338	0.000000|0.000000	0.03702|0.03702	0.353000|0.353000	0.29299|0.29299	0.770000|0.770000	0.26618|0.26618	0.154000|0.154000	0.19237|0.19237	0.379000|0.379000	0.24179|0.24179	AAG|TAA		0.333	DNAJC5G-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000214200.1	NM_173650		T	27503082	A	T	27503082	4	4	585	1	0	0	0	0	0	0	0	0	4654	369	13	5	583	5	DNAJC5G	2	27503082	Nonstop_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	180715	27503082	215696291	9	34756										
LTBP1	4052	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	33359941	33359941	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	caccaagggcagctgtcagaAcagctgtgagaaggggaaca	14	9	1	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr2:33359941A>C	ENST00000404816.2	+	5	1468	c.1115A>C	c.(1114-1116)aAc>aCc	p.N372T	LTBP1_ENST00000354476.3_Missense_Mutation_p.N372T|LTBP1_ENST00000418533.2_Missense_Mutation_p.N46T|LTBP1_ENST00000407925.1_Missense_Mutation_p.N46T|LTBP1_ENST00000404525.1_Missense_Mutation_p.N46T|LTBP1_ENST00000402934.1_Missense_Mutation_p.N46T|LTBP1_ENST00000390003.4_Missense_Mutation_p.N46T			Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding protein 1	372					extracellular matrix organization (GO:0030198)|sequestering of TGFbeta in extracellular matrix (GO:0035583)|transmembrane receptor protein serine/threonine kinase signaling pathway (GO:0007178)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|transforming growth factor beta binding (GO:0050431)|transforming growth factor beta-activated receptor activity (GO:0005024)			breast(2)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(13)|lung(60)|ovary(4)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(3)	108	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				AGCTGTCAGAACAGCTGTGAG	0.562																																																0													101	86	92					2																	33359941		2203	4300	6503	SO:0001583	missense	4052				CCDS33177.1, CCDS33178.1, CCDS33177.2, CCDS33178.2, CCDS54344.1, CCDS54345.1	2p22-p21	2008-05-23			ENSG00000049323	ENSG00000049323		"Latent transforming growth factor, beta binding proteins"	6714	protein-coding gene	gene with protein product	"TGF-beta1-BP-1"	150390				2350783, 11104663	Standard	NM_206943		Approved		uc021vft.1	Q14766	OTTHUMG00000152118	ENST00000404816.2:c.1115A>C	2.37:g.33359941A>C	ENSP00000386043:p.Asn372Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A1L3V1|P22064|Q53SD8|Q53SF3|Q53SG1|Q59HF7|Q8TD95	Missense_Mutation	SNP	ENST00000404816.2	37	CCDS33177.2	.	.	.	.	.	.	.	.	.	.	A	22.4	4.287221	0.80803	.	.	ENSG00000049323	ENST00000404816;ENST00000354476;ENST00000432635;ENST00000390003;ENST00000418533;ENST00000402934;ENST00000404525;ENST00000407925	D;D;D;D;D;D;D	0.84873	-1.91;-1.91;-1.72;-1.66;-1.75;-1.73;-1.69	5.57	5.57	0.84162	.	.	.	.	.	D	0.91133	0.7208	M	0.62723	1.935	0.80722	D	1	D;D;D;D;D;D	0.89917	0.998;0.999;1.0;0.999;0.999;0.999	D;D;D;D;D;D	0.97110	0.995;0.998;1.0;0.998;0.998;0.998	D	0.92071	0.5664	9	0.87932	D	0	.	15.7244	0.77743	1.0:0.0:0.0:0.0	.	372;46;46;46;46;372	Q14766;E7EV71;Q14766-3;Q14766-2;Q14766-5;Q14766-4	LTBP1_HUMAN;.;.;.;.;.	T	372;372;61;46;46;46;46;46	ENSP00000386043:N372T;ENSP00000346467:N372T;ENSP00000374653:N46T;ENSP00000393057:N46T;ENSP00000384373:N46T;ENSP00000385359:N46T;ENSP00000384091:N46T	ENSP00000346467:N372T	N	+	2	0	LTBP1	33213445	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.228000	0.95250	2.110000	0.64415	0.379000	0.24179	AAC		0.562	LTBP1-014	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000326227.2	NM_206943		C	33359941	A	C	33359941	3	2	585	1	0	0	0	0	1	0	0	0	9080	43	2	5	1188	5	LTBP1	2	33359941	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	5856859	33359941	209839432	10	34757										
IMMT	10989	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	86371396	86371396	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	aaatcttcctaaacctcactCtggctgcacctgagtggttc	7	13	3	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr2:86371396C>G	ENST00000410111.3	-	15	2659	c.2272G>C	c.(2272-2274)Gag>Cag	p.E758Q	IMMT_ENST00000254636.5_Missense_Mutation_p.E659Q|IMMT_ENST00000409051.2_Missense_Mutation_p.E711Q|IMMT_ENST00000442664.2_Missense_Mutation_p.E757Q|IMMT_ENST00000449247.2_Missense_Mutation_p.E747Q	NM_001100169.1|NM_001100170.1|NM_006839.2	NP_001093639.1|NP_001093640.1|NP_006830.2	Q16891	MIC60_HUMAN	inner membrane protein, mitochondrial	758				E -> D (in Ref. 3; CAG33074). {ECO:0000305}.	mitochondrial calcium ion homeostasis (GO:0051560)|response to cold (GO:0009409)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	poly(A) RNA binding (GO:0044822)	p.E758Q(1)		breast(1)|endometrium(1)|kidney(3)|large_intestine(9)|lung(12)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	30						AAACCTCACTCTGGCTGCACC	0.473																																																1	Substitution - Missense(1)	lung(1)											59	57	58					2																	86371396		1907	4127	6034	SO:0001583	missense	10989			D21094	CCDS46355.1, CCDS46356.1, CCDS46357.1	2p11.2	2011-10-04	2010-04-29		ENSG00000132305	ENSG00000132305			6047	protein-coding gene	gene with protein product	"mitofilin", "mitochondrial inner membrane organizing system 2"	600378	"inner membrane protein, mitochondrial (mitofilin)"			9168817, 8039717	Standard	NM_001100169		Approved	P87, P89, HMP, MINOS2	uc002sqz.4	Q16891	OTTHUMG00000153170	ENST00000410111.3:c.2272G>C	2.37:g.86371396C>G	ENSP00000387262:p.Glu758Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B1H0U5|B2R5N6|Q14539|Q15092|Q68D41|Q69HW5|Q6IBL0|Q7Z3X1|Q8TAJ5|Q9P0V2	Missense_Mutation	SNP	ENST00000410111.3	37	CCDS46355.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	11.72|11.72	1.722342|1.722342	0.30503|0.30503	.|.	.|.	ENSG00000132305|ENSG00000132305	ENST00000254636;ENST00000449247;ENST00000410111;ENST00000442664;ENST00000409051;ENST00000545283;ENST00000377310;ENST00000398211;ENST00000409715|ENST00000419070	T;T;T;T;T|.	0.35236|.	1.32;1.35;1.36;1.35;1.34|.	4.44|4.44	3.55|3.55	0.40652|0.40652	.|.	0.145672|.	0.32041|.	N|.	0.006672|.	T|T	0.13157|0.13157	0.0319|0.0319	N|N	0.02011|0.02011	-0.69|-0.69	0.24917|0.24917	N|N	0.992003|0.992003	D;D;D;D;D|.	0.71674|.	0.994;0.997;0.998;0.998;0.989|.	D;D;D;D;P|.	0.79784|.	0.979;0.985;0.993;0.993;0.742|.	T|T	0.18335|0.18335	-1.0340|-1.0340	10|5	0.49607|.	T|.	0.09|.	-13.9033|-13.9033	8.3828|8.3828	0.32481|0.32481	0.0:0.7575:0.1586:0.0839|0.0:0.7575:0.1586:0.0839	.|.	711;746;747;726;758|.	B9A067;B4DKR1;Q16891-2;Q16891-3;Q16891|.	.;.;.;.;IMMT_HUMAN|.	Q|T	659;747;758;757;711;747;726;372;659|612	ENSP00000254636:E659Q;ENSP00000396899:E747Q;ENSP00000387262:E758Q;ENSP00000407788:E757Q;ENSP00000387227:E711Q|.	ENSP00000254636:E659Q|.	E|R	-|-	1|2	0|0	IMMT|IMMT	86224907|86224907	0.036000|0.036000	0.19791|0.19791	0.972000|0.972000	0.41901|0.41901	0.346000|0.346000	0.29079|0.29079	1.134000|1.134000	0.31442|0.31442	1.467000|1.467000	0.48044|0.48044	0.650000|0.650000	0.86243|0.86243	GAG|AGA		0.473	IMMT-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000329909.2	NM_006839		G	86371396	C	G	86371396	3	3	585	1	0	0	0	0	1	0	0	0	7725	922	32	4	8	4	IMMT	2	86371396	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08	53011455	86371396	156827977	11	34758										
ASTL	431705	broad.mit.edu;bcgsc.ca	37	chr2	96789883	96789883	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tccccaggccctgcaggaacGggctggcctcccgcactgga	13	17	0	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr2:96789883G>C	ENST00000342380.2	-	9	1001	c.1002C>G	c.(1000-1002)ccC>ccG	p.P334P		NM_001002036.3	NP_001002036.3			astacin-like metallo-endopeptidase (M12 family)											endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(13)|ovary(1)|prostate(1)|skin(2)	30						CTGCAGGAACGGGCTGGCCTC	0.672																																																0													34	39	37					2																	96789883		2203	4297	6500	SO:0001819	synonymous_variant	431705			AJ537600	CCDS33249.1	2q11.1	2014-07-23	2006-10-10		ENSG00000188886	ENSG00000188886	3.4.24.21		31704	protein-coding gene	gene with protein product	"sperm acrosomal SLLP1 binding"	608860	"astacin-like metalloendopeptidase (M12 family)"			15087446	Standard	NM_001002036		Approved	ovastacin, SAS1B	uc010yui.2	Q6HA08	OTTHUMG00000155212	ENST00000342380.2:c.1002C>G	2.37:g.96789883G>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000342380.2	37	CCDS33249.1																																																																																				0.672	ASTL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338801.1			C	96789883	G	C	96789883	2	2	585	1	0	0	0	0	0	0	0	1	1063	1103	39	4		4	ASTL	2	96789883	Silent	SNP	G	TCGA-EV-5903-01A-11D-1589-08	10418487	96789883	146409490	12	34759										
POTEE	445582	hgsc.bcm.edu;broad.mit.edu	37	chr2	132020929	132020929	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gttctctttgtttacttagcTttctcttagttgtaagaaag	7	6	2	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr2:132020929T>G	ENST00000356920.5	+	15	1995	c.1901T>G	c.(1900-1902)cTt>cGt	p.L634R	PLEKHB2_ENST00000404460.1_Intron|PLEKHB2_ENST00000303908.3_Intron|POTEE_ENST00000358087.5_3'UTR	NM_001083538.1	NP_001077007.1	Q6S8J3	POTEE_HUMAN	POTE ankyrin domain family, member E	634					retina homeostasis (GO:0001895)|substantia nigra development (GO:0021762)	blood microparticle (GO:0072562)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)											TTTACTTAGCTTTCTCTTAGT	0.318																																																0													17	19	18					2																	132020929		1871	4085	5956	SO:0001630	splice_region_variant	445582			AY462868	CCDS46414.1	2q21.1	2014-04-10	2008-11-26	2008-11-26	ENSG00000188219	ENSG00000188219		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33895	protein-coding gene	gene with protein product	"cancer/testis antigen family 104, member 2"	608914	"ANKRD26-like family C, member 1A"	A26C1A			Standard	NM_001083538		Approved	POTE2, POTE-2, A26C1, POTE2gamma, CT104.2	uc002tsn.2	Q6S8J3	OTTHUMG00000186974	ENST00000356920.5:c.1900-1T>G	2.37:g.132020929T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6S8J4|Q6S8J5|Q6S8J8	Missense_Mutation	SNP	ENST00000356920.5	37	CCDS46414.1	.	.	.	.	.	.	.	.	.	.	.	10.54	1.377767	0.24944	.	.	ENSG00000188219	ENST00000356920	T	0.78003	-1.14	0.993	-0.489	0.12052	.	.	.	.	.	T	0.51924	0.1703	N	0.22421	0.69	0.22213	N	0.999286	P	0.42993	0.797	B	0.28305	0.088	T	0.51340	-0.8718	9	0.87932	D	0	.	1.3779	0.02224	0.3298:0.2367:0.0:0.4335	.	634	Q6S8J3	POTEE_HUMAN	R	634	ENSP00000439189:L634R	ENSP00000439189:L634R	L	+	2	0	AC131180.1	131737399	0.008000	0.16893	0.656000	0.29637	0.025000	0.11179	1.904000	0.39868	-0.140000	0.11394	0.155000	0.16302	CTT		0.318	POTEE-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001083538	Missense_Mutation	G	132020929	T	G	132020929	5	3	585	1	0	0	0	0	0	0	1	0	12271	1623	56	5	1959	5	POTEE	2	132020929	Splice_Site	SNP	T	TCGA-EV-5903-01A-11D-1589-08	35231046	132020929	111178444	13	34760										
NEB	4703	hgsc.bcm.edu	37	chr2	152553243	152553243	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cttatctggatggactttgtAggtgtgctgtggggaagcaa	15	5	1	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr2:152553243A>G	ENST00000172853.10	-	17	1624	c.1477T>C	c.(1477-1479)Tac>Cac	p.Y493H	NEB_ENST00000427231.2_Missense_Mutation_p.Y493H|NEB_ENST00000397345.3_Missense_Mutation_p.Y493H|NEB_ENST00000409198.1_Missense_Mutation_p.Y493H|NEB_ENST00000603639.1_Missense_Mutation_p.Y493H|NEB_ENST00000604864.1_Missense_Mutation_p.Y493H			P20929	NEBU_HUMAN	nebulin	493					muscle filament sliding (GO:0030049)|muscle organ development (GO:0007517)|regulation of actin filament length (GO:0030832)|somatic muscle development (GO:0007525)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|Z disc (GO:0030018)	structural constituent of muscle (GO:0008307)			NS(5)|autonomic_ganglia(3)|breast(9)|central_nervous_system(5)|cervix(3)|endometrium(35)|kidney(16)|large_intestine(77)|liver(1)|lung(99)|ovary(9)|pancreas(3)|prostate(13)|skin(7)|stomach(8)|upper_aerodigestive_tract(6)|urinary_tract(2)	301				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGGACTTTGTAGGTGTGCTGT	0.463																																																0													191	188	189					2																	152553243		1938	4128	6066	SO:0001583	missense	4703			X83957	CCDS46424.1, CCDS54407.1, CCDS54408.1, CCDS74588.1	2q22	2014-09-17			ENSG00000183091	ENSG00000183091			7720	protein-coding gene	gene with protein product	"nemaline myopathy type 2"	161650		NEM2		10051637, 9359044	Standard	NM_001164507		Approved	NEB177D	uc010fnx.3	P20929	OTTHUMG00000153784	ENST00000172853.10:c.1477T>C	2.37:g.152553243A>G	ENSP00000172853:p.Tyr493His	Somatic		WXS	Illumina HiSeq	Phase_I	F8WCL5|F8WCP0|Q15346|Q53QQ2|Q53TG8	Missense_Mutation	SNP	ENST00000172853.10	37		.	.	.	.	.	.	.	.	.	.	A	25.8	4.671821	0.88348	.	.	ENSG00000183091	ENST00000409198;ENST00000397345;ENST00000427231;ENST00000172853;ENST00000536533	T;T;T;T	0.12147	2.71;2.79;2.77;2.72	5.93	5.93	0.95920	.	0.000000	0.85682	D	0.000000	T	0.36054	0.0953	M	0.79475	2.455	0.80722	D	1	D;D	0.63880	0.993;0.985	P;P	0.61070	0.883;0.845	T	0.13926	-1.0491	10	0.87932	D	0	.	14.6206	0.68582	1.0:0.0:0.0:0.0	.	126;493	Q86TG3;P20929	.;NEBU_HUMAN	H	493;493;493;493;219	ENSP00000386259:Y493H;ENSP00000380505:Y493H;ENSP00000416578:Y493H;ENSP00000172853:Y493H	ENSP00000172853:Y493H	Y	-	1	0	NEB	152261489	1.000000	0.71417	0.999000	0.59377	0.974000	0.67602	3.275000	0.51639	2.268000	0.75426	0.455000	0.32223	TAC		0.463	NEB-201	KNOWN	basic	protein_coding	protein_coding		NM_004543		G	152553243	A	G	152553243	3	3	585	1	0	0	0	0	1	0	0	0	10309	420	15	3	24873	3	NEB	2	152553243	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	20532314	152553243	90646130	14	34761										
CWC22	57703	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	180810243	180810243	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tctgatgtgtactttgttatAggatctctccaatttgaacc	7	8	2	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr2:180810243A>G	ENST00000410053.3	-	20	2639	c.2340T>C	c.(2338-2340)ccT>ccC	p.P780P	CWC22_ENST00000295749.6_Silent_p.P780P	NM_020943.2	NP_065994.1	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein	780					mRNA splicing, via spliceosome (GO:0000398)|regulation of mRNA splicing, via spliceosome (GO:0048024)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)	RNA binding (GO:0003723)			NS(1)|autonomic_ganglia(1)|breast(1)|endometrium(7)|kidney(2)|large_intestine(8)|liver(1)|lung(8)|stomach(1)	30						ACTTTGTTATAGGATCTCTCC	0.388																																																0													222	206	211					2																	180810243		1860	4108	5968	SO:0001819	synonymous_variant	57703				CCDS46465.1	2q31.3	2014-07-03	2014-07-03		ENSG00000163510	ENSG00000163510			29322	protein-coding gene	gene with protein product	"functional spliceosome-associated protein b"	615186	"CWC22 spliceosome-associated protein homolog (S. cerevisiae)"			9136012, 23236153	Standard	NM_020943		Approved	KIAA1604, EIF4GL, fSAPb, NCM	uc010frh.1	Q9HCG8	OTTHUMG00000154244	ENST00000410053.3:c.2340T>C	2.37:g.180810243A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q05DC2|Q4G135|Q52LF0|Q6PEX2|Q7Z6I0|Q9H5L3|Q9H6Q6	Silent	SNP	ENST00000410053.3	37	CCDS46465.1																																																																																				0.388	CWC22-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000334537.1	NM_020943		G	180810243	A	G	180810243	2	3	585	1	0	0	0	0	0	0	0	1	4070	407	15	3		3	CWC22	2	180810243	Silent	SNP	A	TCGA-EV-5903-01A-11D-1589-08	28257000	180810243	62389130	15	34762										
ERBB4	2066	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	212295693	212295693	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tcctccatcagcattgtactCtttttcatctccttccaaga	3	14	4	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr2:212295693C>A	ENST00000342788.4	-	21	2930	c.2620G>T	c.(2620-2622)Gag>Tag	p.E874*	ERBB4_ENST00000436443.1_Nonsense_Mutation_p.E874*|ERBB4_ENST00000402597.1_Nonsense_Mutation_p.E864*	NM_005235.2	NP_005226.1	Q15303	ERBB4_HUMAN	v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 4	874	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cardiac muscle tissue regeneration (GO:0061026)|cell fate commitment (GO:0045165)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|central nervous system morphogenesis (GO:0021551)|embryonic pattern specification (GO:0009880)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|lactation (GO:0007595)|mammary gland alveolus development (GO:0060749)|mammary gland epithelial cell differentiation (GO:0060644)|mitochondrial fragmentation involved in apoptotic process (GO:0043653)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|nervous system development (GO:0007399)|neural crest cell migration (GO:0001755)|neurotrophin TRK receptor signaling pathway (GO:0048011)|olfactory bulb interneuron differentiation (GO:0021889)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cardiac muscle cell proliferation (GO:0060045)|positive regulation of cell proliferation (GO:0008284)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of STAT protein import into nucleus (GO:2000366)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of tyrosine phosphorylation of Stat5 protein (GO:0042523)|protein autophosphorylation (GO:0046777)|regulation of cell migration (GO:0030334)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	basolateral plasma membrane (GO:0016323)|cytosol (GO:0005829)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|epidermal growth factor receptor binding (GO:0005154)|protein homodimerization activity (GO:0042803)|protein tyrosine kinase activity (GO:0004713)|receptor signaling protein tyrosine kinase activity (GO:0004716)|transcription regulatory region DNA binding (GO:0044212)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			NS(1)|breast(7)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(31)|lung(71)|pancreas(1)|prostate(3)|skin(39)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	179		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)	Afatinib(DB08916)	GCATTGTACTCTTTTTCATCT	0.373										TSP Lung(8;0.080)																																						0													147	139	142					2																	212295693		2203	4300	6503	SO:0001587	stop_gained	2066			L07868	CCDS2394.1, CCDS42811.1	2q33.3-q34	2013-10-11	2013-07-09		ENSG00000178568	ENSG00000178568			3432	protein-coding gene	gene with protein product		600543	"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"			7700649, 17018285	Standard	NM_001042599		Approved	ALS19	uc002veg.1	Q15303	OTTHUMG00000133012	ENST00000342788.4:c.2620G>T	2.37:g.212295693C>A	ENSP00000342235:p.Glu874*	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLD7|B7ZLE2|B7ZLE3|Q2M1W1|Q59EW4	Nonsense_Mutation	SNP	ENST00000342788.4	37	CCDS2394.1	.	.	.	.	.	.	.	.	.	.	C	33	5.264878	0.95399	.	.	ENSG00000178568	ENST00000342788;ENST00000436443;ENST00000402597	.	.	.	5.19	5.19	0.71726	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.59425	D	0.04	.	19.0631	0.93100	0.0:1.0:0.0:0.0	.	.	.	.	X	874;874;864	.	ENSP00000342235:E874X	E	-	1	0	ERBB4	212003938	1.000000	0.71417	1.000000	0.80357	0.028000	0.11728	7.747000	0.85070	2.565000	0.86533	0.563000	0.77884	GAG		0.373	ERBB4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256597.1	NM_001042599		A	212295693	C	A	212295693	4	1	585	1	0	0	0	0	0	1	0	0	5211	922	32	4	1338	4	ERBB4	2	212295693	Nonsense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08	31485450	212295693	30903680	16	34763										
ARPC2	10109	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	219103554	219103554	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	agaacagggcagttatccatTatagggatgatgagaccatg	12	6	0	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr2:219103554T>A	ENST00000295685.10	+	5	697	c.436T>A	c.(436-438)Tat>Aat	p.Y146N	ARPC2_ENST00000477992.1_3'UTR|ARPC2_ENST00000315717.5_Missense_Mutation_p.Y146N	NM_005731.2	NP_005722.1	O15144	ARPC2_HUMAN	actin related protein 2/3 complex, subunit 2, 34kDa	146					Arp2/3 complex-mediated actin nucleation (GO:0034314)|cellular component movement (GO:0006928)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|positive regulation of lamellipodium assembly (GO:0010592)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)	actin cytoskeleton (GO:0015629)|Arp2/3 protein complex (GO:0005885)|cell leading edge (GO:0031252)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi apparatus (GO:0005794)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)|synapse (GO:0045202)	structural constituent of cytoskeleton (GO:0005200)			cervix(1)|kidney(1)|large_intestine(2)|lung(1)|ovary(1)	6		Renal(207;0.0474)		Epithelial(149;1.21e-06)|all cancers(144;0.000212)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0103)		AGTTATCCATTATAGGGATGA	0.438																																																0													74	70	72					2																	219103554		2203	4300	6503	SO:0001583	missense	10109			AF006085	CCDS2410.1	2q36.1	2011-07-06	2002-08-29		ENSG00000163466	ENSG00000163466		"Actin related protein 2/3 complex subunits"	705	protein-coding gene	gene with protein product		604224	"actin related protein 2/3 complex, subunit 2 (34 kD)"			9359840, 9230079	Standard	NM_005731		Approved	p34-Arc, ARC34	uc002vhd.4	O15144	OTTHUMG00000133618	ENST00000295685.10:c.436T>A	2.37:g.219103554T>A	ENSP00000295685:p.Tyr146Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q92801|Q9P1D4	Missense_Mutation	SNP	ENST00000295685.10	37	CCDS2410.1	.	.	.	.	.	.	.	.	.	.	T	17.59	3.427174	0.62733	.	.	ENSG00000163466	ENST00000315717;ENST00000295685	.	.	.	5.65	4.48	0.54585	.	0.000000	0.85682	D	0.000000	D	0.85703	0.5758	H	0.94925	3.6	0.80722	D	1	D	0.89917	1.0	D	0.78314	0.991	D	0.88920	0.3365	9	0.87932	D	0	.	12.9852	0.58588	0.0:0.0:0.135:0.865	.	146	O15144	ARPC2_HUMAN	N	146	.	ENSP00000295685:Y146N	Y	+	1	0	ARPC2	218811799	1.000000	0.71417	1.000000	0.80357	0.418000	0.31294	7.868000	0.87116	1.130000	0.42092	0.533000	0.62120	TAT		0.438	ARPC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256777.2	NM_005731		A	219103554	T	A	219103554	3	1	585	1	0	0	0	0	1	0	0	0	971	1754	61	5	454	5	ARPC2	2	219103554	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	6807861	219103554	24095819	17	34764										
HDAC4	9759	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	239988463	239988463	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	catgcttccgaggcgtcgcaAatggcggtcaggtcgtggcc	15	12	1	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr2:239988463A>T	ENST00000345617.3	-	24	3734	c.2943T>A	c.(2941-2943)atT>atA	p.I981I	AC017028.6_ENST00000577291.1_RNA|AC017028.4_ENST00000577359.1_RNA|MIR4440_ENST00000583986.1_RNA|AC017028.5_ENST00000582834.1_RNA|AC017028.9_ENST00000581111.1_RNA|AC017028.2_ENST00000578555.1_RNA|AC017028.3_ENST00000584260.1_RNA|AC017028.10_ENST00000579161.1_RNA|HDAC4_ENST00000543185.1_Silent_p.I565I	NM_006037.3	NP_006028.2	P56524	HDAC4_HUMAN	histone deacetylase 4	981	Histone deacetylase.				B cell activation (GO:0042113)|B cell differentiation (GO:0030183)|cardiac muscle hypertrophy in response to stress (GO:0014898)|chromatin remodeling (GO:0006338)|histone deacetylation (GO:0016575)|histone H3 deacetylation (GO:0070932)|histone H4 deacetylation (GO:0070933)|inflammatory response (GO:0006954)|negative regulation of cell proliferation (GO:0008285)|negative regulation of glycolytic process (GO:0045820)|negative regulation of myotube differentiation (GO:0010832)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|nervous system development (GO:0007399)|osteoblast development (GO:0002076)|peptidyl-lysine deacetylation (GO:0034983)|positive regulation of cell proliferation (GO:0008284)|positive regulation of protein sumoylation (GO:0033235)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cardiac muscle contraction by calcium ion signaling (GO:0010882)|regulation of gene expression, epigenetic (GO:0040029)|regulation of protein binding (GO:0043393)|regulation of skeletal muscle fiber development (GO:0048742)|response to denervation involved in regulation of muscle adaptation (GO:0014894)|response to drug (GO:0042493)|response to interleukin-1 (GO:0070555)|skeletal system development (GO:0001501)|transcription, DNA-templated (GO:0006351)	A band (GO:0031672)|actomyosin (GO:0042641)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|histone deacetylase complex (GO:0000118)|neuromuscular junction (GO:0031594)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)|Z disc (GO:0030018)	activating transcription factor binding (GO:0033613)|core promoter binding (GO:0001047)|histone deacetylase activity (GO:0004407)|histone deacetylase binding (GO:0042826)|NAD-dependent histone deacetylase activity (H3-K14 specific) (GO:0032041)|NAD-dependent histone deacetylase activity (H3-K18 specific) (GO:0097372)|NAD-dependent histone deacetylase activity (H3-K9 specific) (GO:0046969)|NAD-dependent histone deacetylase activity (H4-K16 specific) (GO:0046970)|potassium ion binding (GO:0030955)|protein deacetylase activity (GO:0033558)|repressing transcription factor binding (GO:0070491)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			NS(1)|biliary_tract(1)|breast(4)|endometrium(5)|kidney(2)|large_intestine(7)|lung(27)|ovary(3)|pancreas(1)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(5)	62		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)		AGGCGTCGCAAATGGCGGTCA	0.632																																																0													78	75	76					2																	239988463		2203	4300	6503	SO:0001819	synonymous_variant	9759			AB006626	CCDS2529.1	2q37.3	2014-02-12			ENSG00000068024	ENSG00000068024			14063	protein-coding gene	gene with protein product		605314	"brachydactyly-mental retardation syndrome"	BDMR		10206986, 10220385, 20691407	Standard	NM_006037		Approved	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4	uc002vyk.4	P56524	OTTHUMG00000133344	ENST00000345617.3:c.2943T>A	2.37:g.239988463A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UND6	Silent	SNP	ENST00000345617.3	37	CCDS2529.1	.	.	.	.	.	.	.	.	.	.	A	11.87	1.768867	0.31320	.	.	ENSG00000068024	ENST00000430200	.	.	.	4.21	-5.54	0.02544	.	.	.	.	.	T	0.62829	0.2460	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.64305	-0.6439	4	.	.	.	.	14.9101	0.70749	0.3468:0.0:0.6532:0.0	.	.	.	.	Y	72	.	.	F	-	2	0	HDAC4	239653400	0.715000	0.27946	0.962000	0.40283	0.971000	0.66376	-0.071000	0.11505	-1.038000	0.03279	-0.376000	0.06991	TTT		0.632	HDAC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257174.2	NM_006037		T	239988463	A	T	239988463	2	4	585	1	0	0	0	0	0	0	0	1	7016	10	1	5		5	HDAC4	2	239988463	Silent	SNP	A	TCGA-EV-5903-01A-11D-1589-08	20884909	239988463	3210910	18	34765										
FARP2	9855	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	242433435	242433435	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tcctccaggtggatggaggtGatccagggggccagcagctc	16	11	0	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr2:242433435G>C	ENST00000264042.3	+	27	3230	c.3060G>C	c.(3058-3060)gtG>gtC	p.V1020V	STK25_ENST00000316586.4_3'UTR|STK25_ENST00000478403.1_5'Flank	NM_014808.2	NP_055623.1	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	1020	PH 2. {ECO:0000255|PROSITE- ProRule:PRU00145}.				actin cytoskeleton reorganization (GO:0031532)|axon guidance (GO:0007411)|cell adhesion (GO:0007155)|neuron remodeling (GO:0016322)|osteoclast differentiation (GO:0030316)|podosome assembly (GO:0071800)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of Rho GTPase activity (GO:0032321)|Rac protein signal transduction (GO:0016601)|regulation of integrin activation (GO:0033623)|regulation of Rac GTPase activity (GO:0032314)|semaphorin-plexin signaling pathway (GO:0071526)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extrinsic component of membrane (GO:0019898)	Rac guanyl-nucleotide exchange factor activity (GO:0030676)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(8)|lung(18)|ovary(2)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	43		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		GGATGGAGGTGATCCAGGGGG	0.637																																																0													51	56	55					2																	242433435		2202	4299	6501	SO:0001819	synonymous_variant	9855			AB018336	CCDS33424.1, CCDS63197.1	2q37.3	2013-01-10			ENSG00000006607	ENSG00000006607		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	16460	protein-coding gene	gene with protein product						9872452, 12351724	Standard	NM_001282984		Approved	KIAA0793, FIR, PLEKHC3, FRG	uc002wbi.2	O94887	OTTHUMG00000151574	ENST00000264042.3:c.3060G>C	2.37:g.242433435G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6J8|F5GZ84|Q53QM5|Q8WU27|Q9UFE7	Silent	SNP	ENST00000264042.3	37	CCDS33424.1	.	.	.	.	.	.	.	.	.	.	G	10.70	1.424530	0.25639	.	.	ENSG00000006607	ENST00000444371;ENST00000412332	.	.	.	4.94	4.04	0.47022	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.5752	0.61870	0.0:0.1619:0.8381:0.0	.	.	.	.	S	163;22	.	.	X	+	2	2	FARP2	242082108	1.000000	0.71417	0.997000	0.53966	0.721000	0.41392	0.714000	0.25808	1.176000	0.42840	0.655000	0.94253	TGA		0.637	FARP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323153.1			C	242433435	G	C	242433435	2	2	585	1	0	0	0	0	0	0	0	1	5684	1277	45	4		4	FARP2	2	242433435	Silent	SNP	G	TCGA-EV-5903-01A-11D-1589-08	2444972	242433435	765938	19	34766										
EOMES	8320	hgsc.bcm.edu	37	chr3	27762953	27762953	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tttggtggcggtggaatttgAgccacagaggccggttgcac	16	8	0	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr3:27762953A>G	ENST00000295743.4	-	1	1036	c.833T>C	c.(832-834)cTc>cCc	p.L278P	EOMES_ENST00000449599.1_Missense_Mutation_p.L278P|EOMES_ENST00000461503.1_Intron|EOMES_ENST00000537516.1_Intron			O95936	EOMES_HUMAN	eomesodermin	278					brain development (GO:0007420)|cardioblast differentiation (GO:0010002)|CD8-positive, alpha-beta T cell differentiation involved in immune response (GO:0002302)|cell differentiation involved in embryonic placenta development (GO:0060706)|cerebral cortex neuron differentiation (GO:0021895)|cerebral cortex regionalization (GO:0021796)|endoderm formation (GO:0001706)|endodermal cell fate specification (GO:0001714)|interferon-gamma production (GO:0032609)|mesoderm formation (GO:0001707)|mesodermal to mesenchymal transition involved in gastrulation (GO:0060809)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|olfactory bulb development (GO:0021772)|positive regulation of cell differentiation (GO:0045597)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of neuron differentiation (GO:0045664)|skeletal muscle cell differentiation (GO:0035914)|stem cell maintenance (GO:0019827)|trophectodermal cell differentiation (GO:0001829)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|endometrium(1)|kidney(1)|large_intestine(6)|lung(7)|ovary(3)|prostate(1)	21						GTGGAATTTGAGCCACAGAGG	0.637																																																0													19	25	23					3																	27762953		2200	4298	6498	SO:0001583	missense	8320			BC025363	CCDS2646.1, CCDS63585.1	3p24.1	2011-06-13	2010-06-24		ENSG00000163508	ENSG00000163508		"T-boxes"	3372	protein-coding gene	gene with protein product	"T-box brain2"	604615	"eomesodermin (Xenopus laevis) homolog"			9888994, 9434949	Standard	NM_005442		Approved	TBR2	uc003cdy.4	O95936	OTTHUMG00000130570	ENST00000295743.4:c.833T>C	3.37:g.27762953A>G	ENSP00000295743:p.Leu278Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z4I2|B7ZA51|G3XAI5|Q8TAZ2|Q9UPM7	Missense_Mutation	SNP	ENST00000295743.4	37	CCDS2646.1	.	.	.	.	.	.	.	.	.	.	A	21.6	4.174990	0.78564	.	.	ENSG00000163508	ENST00000295743;ENST00000449599;ENST00000535713	T;T	0.80393	-1.37;-1.37	5.08	5.08	0.68730	Transcription factor, T-box, conserved site (1);p53-like transcription factor, DNA-binding (1);	0.000000	0.85682	D	0.000000	D	0.88941	0.6574	M	0.79926	2.475	0.80722	D	1	D;D;P	0.89917	1.0;0.972;0.953	D;P;P	0.91635	0.999;0.774;0.737	D	0.88000	0.2755	10	0.30854	T	0.27	.	13.8135	0.63276	1.0:0.0:0.0:0.0	.	278;278;278	F5H3K1;G3XAI5;O95936	.;.;EOMES_HUMAN	P	278;278;143	ENSP00000295743:L278P;ENSP00000388620:L278P	ENSP00000295743:L278P	L	-	2	0	EOMES	27737957	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.252000	0.78309	1.901000	0.55032	0.379000	0.24179	CTC		0.637	EOMES-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252995.1	NM_005442		G	27762953	A	G	27762953	3	3	585	1	0	0	0	0	1	0	0	0	5149	304	11	3	1251	3	EOMES	3	27762953	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08		27762953	170259477	20	34767										
CLASP2	23122	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	33552091	33552091	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ctctggcaaaagcaggtttaGggtttccttggacactctct	10	10	2	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr3:33552091G>T	ENST00000468888.2	-	37	4346	c.4300C>A	c.(4300-4302)Cta>Ata	p.L1434I	CLASP2_ENST00000307312.7_Missense_Mutation_p.L915I|CLASP2_ENST00000539981.1_3'UTR|CLASP2_ENST00000480013.1_Missense_Mutation_p.L1213I|CLASP2_ENST00000359576.5_Missense_Mutation_p.L1425I|CLASP2_ENST00000461133.3_Missense_Mutation_p.L1193I|CLASP2_ENST00000399362.4_Missense_Mutation_p.L1433I			O75122	CLAP2_HUMAN	cytoplasmic linker associated protein 2	1214					axon guidance (GO:0007411)|establishment or maintenance of cell polarity (GO:0007163)|fucosylation (GO:0036065)|microtubule anchoring (GO:0034453)|microtubule nucleation (GO:0007020)|microtubule organizing center organization (GO:0031023)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of microtubule depolymerization (GO:0007026)|regulation of microtubule polymerization or depolymerization (GO:0031110)|regulation of microtubule-based process (GO:0032886)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytoplasmic microtubule (GO:0005881)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|kinetochore (GO:0000776)|kinetochore microtubule (GO:0005828)|membrane (GO:0016020)|microtubule (GO:0005874)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)|trans-Golgi network (GO:0005802)	galactoside 2-alpha-L-fucosyltransferase activity (GO:0008107)|microtubule plus-end binding (GO:0051010)			breast(2)|central_nervous_system(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(19)|ovary(3)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	48						AGCAGGTTTAGGGTTTCCTTG	0.393																																																0													195	174	181					3																	33552091		1882	4117	5999	SO:0001583	missense	23122			AB014527		3p24.3	2013-01-18			ENSG00000163539	ENSG00000163539			17078	protein-coding gene	gene with protein product		605853				9734811, 10899121	Standard	NM_015097		Approved	KIAA0627	uc021wvc.1	O75122	OTTHUMG00000156489	ENST00000468888.2:c.4300C>A	3.37:g.33552091G>T	ENSP00000419974:p.Leu1434Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q7L8F6|Q8N6R6|Q9BQT3|Q9BQT4|Q9H7A3|Q9NSZ2	Missense_Mutation	SNP	ENST00000468888.2	37		.	.	.	.	.	.	.	.	.	.	G	28.7	4.942933	0.92526	.	.	ENSG00000163539	ENST00000468888;ENST00000399362;ENST00000359576;ENST00000307312;ENST00000480013;ENST00000461133	T;T;T;T;T;T	0.66638	-0.22;-0.22;-0.22;-0.22;-0.22;-0.22	6.08	6.08	0.98989	.	0.000000	0.85682	D	0.000000	T	0.80210	0.4581	L	0.60845	1.875	0.80722	D	1	D;P	0.71674	0.998;0.725	D;P	0.77557	0.99;0.759	T	0.74633	-0.3600	10	0.31617	T	0.26	-16.2438	20.6634	0.99662	0.0:0.0:1.0:0.0	.	1425;1433	F5H604;E7ERI8	.;.	I	1434;1433;1425;915;1213;1193	ENSP00000419974:L1434I;ENSP00000382297:L1433I;ENSP00000352581:L1425I;ENSP00000304743:L915I;ENSP00000417518:L1213I;ENSP00000419305:L1193I	ENSP00000304743:L915I	L	-	1	2	CLASP2	33527095	1.000000	0.71417	0.998000	0.56505	0.972000	0.66771	7.666000	0.83877	2.894000	0.99253	0.655000	0.94253	CTA		0.393	CLASP2-001	NOVEL	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000344320.4	NM_001207044		T	33552091	G	T	33552091	3	4	585	1	0	0	0	0	1	0	0	0	3457	991	35	4	256	4	CLASP2	3	33552091	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	5789138	33552091	164470339	21	34768										
USP19	10869	broad.mit.edu;ucsc.edu	37	chr3	49155544	49155544	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cagcctgggcaacatatcgaGaccctgtctctaaaaaaaaa	7	11	1	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr3:49155544G>A	ENST00000398888.2	-	3	452	c.134C>T	c.(133-135)tCt>tTt	p.S45F	USP19_ENST00000434032.2_Missense_Mutation_p.S45F|USP19_ENST00000398898.2_Intron|USP19_ENST00000453664.1_Missense_Mutation_p.S45F|USP19_ENST00000398892.3_Intron|USP19_ENST00000488993.1_5'UTR|USP19_ENST00000398896.1_5'Flank|USP19_ENST00000417901.1_Missense_Mutation_p.S45F	NM_006677.2	NP_006668.1	O94966	UBP19_HUMAN	ubiquitin specific peptidase 19	45					ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|negative regulation of skeletal muscle tissue development (GO:0048642)|positive regulation of cell cycle process (GO:0090068)|protein deubiquitination (GO:0016579)|regulation of cellular response to hypoxia (GO:1900037)|regulation of protein stability (GO:0031647)|response to endoplasmic reticulum stress (GO:0034976)|skeletal muscle atrophy (GO:0014732)	cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	metal ion binding (GO:0046872)|ubiquitin-specific protease activity (GO:0004843)			NS(1)|breast(3)|endometrium(5)|kidney(2)|large_intestine(10)|lung(5)|ovary(4)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	38				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		aacatatcgagaccctgtctc	0.522																																																0													15	15	15					3																	49155544		1908	4109	6017	SO:0001583	missense	10869			AB020698	CCDS43090.1, CCDS56254.1, CCDS56255.1, CCDS56256.1	3p21.31	2005-10-13	2005-08-08		ENSG00000172046	ENSG00000172046		"Zinc fingers, MYND-type", "Ubiquitin-specific peptidases"	12617	protein-coding gene	gene with protein product		614471	"ubiquitin specific protease 19"			12838346	Standard	NM_001199160		Approved	KIAA0891, ZMYND9	uc011bch.2	O94966	OTTHUMG00000133611	ENST00000398888.2:c.134C>T	3.37:g.49155544G>A	ENSP00000381863:p.Ser45Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKX8|A6H8U2|B4DGT3|B4DTZ0|E7EN22|E7ETS0|E9PEG8|Q3KQW4|Q641Q9|Q6NZY8|Q86XV9	Missense_Mutation	SNP	ENST00000398888.2	37	CCDS43090.1	.	.	.	.	.	.	.	.	.	.	G	8.694	0.908135	0.17833	.	.	ENSG00000172046	ENST00000417901;ENST00000453664;ENST00000398888;ENST00000434032;ENST00000306026;ENST00000425298	T;T;T;T;T	0.00648	5.99;5.99;5.99;5.99;5.99	0.418	0.418	0.16429	.	6.701840	0.01692	U	0.026694	T	0.00552	0.0018	N	0.01686	-0.76	0.09310	N	0.999998	B;B;B;B;P	0.42941	0.044;0.054;0.011;0.004;0.794	B;B;B;B;P	0.46110	0.018;0.022;0.007;0.001;0.504	T	0.43589	-0.9382	9	0.59425	D	0.04	.	.	.	.	.	108;45;45;45;45	A5PKX8;E9PEG8;E7EN22;O94966;O94966-2	.;.;.;UBP19_HUMAN;.	F	45	ENSP00000395260:S45F;ENSP00000400090:S45F;ENSP00000381863:S45F;ENSP00000401197:S45F;ENSP00000303503:S45F	ENSP00000303503:S45F	S	-	2	0	USP19	49130548	0.762000	0.28451	0.353000	0.25747	0.354000	0.29330	0.334000	0.19787	0.452000	0.26830	0.460000	0.39030	TCT		0.522	USP19-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000257721.1	NM_006677		A	49155544	G	A	49155544	3	1	585	1	0	0	0	0	1	0	0	0	17062	942	33	2	3918	2	USP19	3	49155544	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	15603453	49155544	148866886	22	34769										
LAMB2	3913	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	49159166	49159166	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cactgcctgccgtttcttctGctgtagaggctgccagacta	10	13	2	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr3:49159166G>A	ENST00000418109.1	-	31	5215	c.5051C>T	c.(5050-5052)gCa>gTa	p.A1684V	USP19_ENST00000434032.2_5'Flank|USP19_ENST00000398898.2_5'Flank|USP19_ENST00000453664.1_5'Flank|USP19_ENST00000398888.2_5'Flank|USP19_ENST00000398892.3_5'Flank|USP19_ENST00000488993.1_5'Flank|LAMB2_ENST00000305544.4_Missense_Mutation_p.A1684V|USP19_ENST00000417901.1_5'Flank	NM_002292.3	NP_002283.3	P55268	LAMB2_HUMAN	laminin, beta 2 (laminin S)	1684	Domain I.				astrocyte development (GO:0014002)|axon extension involved in regeneration (GO:0048677)|axon guidance (GO:0007411)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|metanephric glomerular basement membrane development (GO:0072274)|metanephric glomerular visceral epithelial cell development (GO:0072249)|neuromuscular junction development (GO:0007528)|retina development in camera-type eye (GO:0060041)|Schwann cell development (GO:0014044)|visual perception (GO:0007601)	basal lamina (GO:0005605)|basement membrane (GO:0005604)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|laminin-11 complex (GO:0043260)|laminin-3 complex (GO:0005608)|synapse (GO:0045202)	structural molecule activity (GO:0005198)			NS(1)|breast(1)|endometrium(15)|kidney(3)|large_intestine(6)|lung(21)|ovary(4)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	61				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CGTTTCTTCTGCTGTAGAGGC	0.607																																																0													75	78	77					3																	49159166		2202	4300	6502	SO:0001583	missense	3913				CCDS2789.1	3p21.3-p21.2	2013-03-01			ENSG00000172037	ENSG00000172037		"Laminins"	6487	protein-coding gene	gene with protein product	"laminin S"	150325		LAMS		2922051, 10393422	Standard	NM_002292		Approved		uc003cwe.3	P55268	OTTHUMG00000156807	ENST00000418109.1:c.5051C>T	3.37:g.49159166G>A	ENSP00000388325:p.Ala1684Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q16321	Missense_Mutation	SNP	ENST00000418109.1	37	CCDS2789.1	.	.	.	.	.	.	.	.	.	.	G	21.2	4.107341	0.77096	.	.	ENSG00000172037	ENST00000418109;ENST00000305544	T;T	0.38240	1.15;1.15	5.79	4.92	0.64577	.	0.000000	0.85682	D	0.000000	T	0.49677	0.1571	L	0.49350	1.555	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.44574	-0.9319	10	0.07325	T	0.83	.	14.8494	0.70284	0.0689:0.0:0.9311:0.0	.	1684	P55268	LAMB2_HUMAN	V	1684	ENSP00000388325:A1684V;ENSP00000307156:A1684V	ENSP00000307156:A1684V	A	-	2	0	LAMB2	49134170	1.000000	0.71417	0.027000	0.17364	0.970000	0.65996	9.339000	0.96797	1.451000	0.47736	0.655000	0.94253	GCA		0.607	LAMB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345939.1	NM_002292		A	49159166	G	A	49159166	3	1	585	1	0	0	0	0	1	0	0	0	8618	1319	46	2	357	2	LAMB2	3	49159166	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	3622	49159166	148863264	23	34770										
ABI3BP	25890	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr3	100593699	100593699	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gcttacctaattgtgtcttgAgtgcatctgaaatctcaaac	7	9	3	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr3:100593699A>C	ENST00000284322.5	-	9	1026	c.917T>G	c.(916-918)cTc>cGc	p.L306R	ABI3BP_ENST00000471714.1_Missense_Mutation_p.L306R|ABI3BP_ENST00000495063.1_Missense_Mutation_p.L306R	NM_015429.3	NP_056244.2	Q7Z7G0	TARSH_HUMAN	ABI family, member 3 (NESH) binding protein	306					extracellular matrix organization (GO:0030198)|positive regulation of cell-substrate adhesion (GO:0010811)	extracellular space (GO:0005615)|interstitial matrix (GO:0005614)	heparin binding (GO:0008201)			central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(13)|lung(18)|ovary(2)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	50						TTGTGTCTTGAGTGCATCTGA	0.343																																																0													102	95	97					3																	100593699		1842	4085	5927	SO:0001583	missense	25890			AB056106	CCDS46880.1	3q12.2	2013-02-11	2008-09-12		ENSG00000154175	ENSG00000154175		"Fibronectin type III domain containing"	17265	protein-coding gene	gene with protein product	"target of Nesh-SH3"	606279				11501947	Standard	NM_015429		Approved	NESHBP, DKFZP586L2024, TARSH	uc003dun.3	Q7Z7G0	OTTHUMG00000159094	ENST00000284322.5:c.917T>G	3.37:g.100593699A>C	ENSP00000284322:p.Leu306Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B3KSL4|Q6ZW20|Q6ZW22|Q9C082|Q9UFI6	Missense_Mutation	SNP	ENST00000284322.5	37	CCDS46880.1	.	.	.	.	.	.	.	.	.	.	A	16.99	3.274771	0.59649	.	.	ENSG00000154175	ENST00000471714;ENST00000284322;ENST00000495063	T;T	0.24723	2.14;1.84	5.38	4.23	0.50019	.	0.912926	0.09478	N	0.796729	T	0.32406	0.0828	L	0.43152	1.355	0.80722	D	1	D;D;P	0.59767	0.971;0.986;0.814	P;P;P	0.54100	0.736;0.742;0.534	T	0.01480	-1.1344	10	0.25106	T	0.35	-1.5191	8.2196	0.31532	0.909:0.0:0.091:0.0	.	299;306;306	Q9H717;Q5JPC9;Q7Z7G0	.;.;TARSH_HUMAN	R	306	ENSP00000420524:L306R;ENSP00000284322:L306R	ENSP00000284322:L306R	L	-	2	0	ABI3BP	102076389	0.995000	0.38212	0.933000	0.37362	0.982000	0.71751	3.127000	0.50484	0.988000	0.38734	0.533000	0.62120	CTC		0.343	ABI3BP-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000353260.1			C	100593699	A	C	100593699	3	2	585	1	0	0	0	0	1	0	0	0	91	304	11	5	2418	5	ABI3BP	3	100593699	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	51434533	100593699	97428731	24	34771										
POLQ	10721	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	121260262	121260262	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ataaacaaagctttcttccgCatttccaaaacccgcttcaa	3	13	2	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr3:121260262C>A	ENST00000264233.5	-	3	536	c.408G>T	c.(406-408)atG>atT	p.M136I		NM_199420.3	NP_955452.3	O75417	DPOLQ_HUMAN	polymerase (DNA directed), theta	136	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				ATP catabolic process (GO:0006200)|DNA repair (GO:0006281)	nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|damaged DNA binding (GO:0003684)|DNA-directed DNA polymerase activity (GO:0003887)|single-stranded DNA-dependent ATPase activity (GO:0043142)			NS(2)|breast(7)|central_nervous_system(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(16)|lung(55)|ovary(5)|prostate(3)|skin(4)|stomach(2)|upper_aerodigestive_tract(4)|urinary_tract(2)	120				GBM - Glioblastoma multiforme(114;0.0915)		CTTTCTTCCGCATTTCCAAAA	0.348								DNA polymerases (catalytic subunits)																													Pancreas(152;907 1925 26081 31236 36904)											0													145	161	155					3																	121260262		2203	4300	6503	SO:0001583	missense	10721			AF052573	CCDS33833.1	3q13.3	2012-05-18			ENSG00000051341	ENSG00000051341	2.7.7.7	"DNA polymerases"	9186	protein-coding gene	gene with protein product		604419				10395804	Standard	NM_199420		Approved	POLH	uc003eee.4	O75417	OTTHUMG00000159396	ENST00000264233.5:c.408G>T	3.37:g.121260262C>A	ENSP00000264233:p.Met136Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O95160|Q6VMB5	Missense_Mutation	SNP	ENST00000264233.5	37	CCDS33833.1	.	.	.	.	.	.	.	.	.	.	C	13.77	2.335029	0.41398	.	.	ENSG00000051341	ENST00000264233;ENST00000393672	T	0.40225	1.04	5.74	2.71	0.32032	DEAD-like helicase (2);DNA/RNA helicase, DEAD/DEAH box type, N-terminal (1);	0.437807	0.27891	N	0.017433	T	0.26340	0.0643	N	0.17723	0.515	0.20764	N	0.999854	B	0.29432	0.244	B	0.36030	0.216	T	0.13953	-1.0490	10	0.44086	T	0.13	.	3.6248	0.08109	0.3565:0.3671:0.2011:0.0753	.	136	O75417	DPOLQ_HUMAN	I	136;271	ENSP00000264233:M136I	ENSP00000264233:M136I	M	-	3	0	POLQ	122742952	0.754000	0.28360	0.747000	0.31113	0.988000	0.76386	-0.046000	0.11983	0.703000	0.31848	0.563000	0.77884	ATG		0.348	POLQ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355097.1	NM_199420		A	121260262	C	A	121260262	3	1	585	1	0	0	0	0	1	0	0	0	12215	710	25	4	7476	4	POLQ	3	121260262	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08	20666563	121260262	76762168	25	34772										
TMEM22	80723	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	136573495	136573495	+	Frame_Shift_Del	DEL	G	G	-													0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tgagtgaaatgaaaaaaaaaGggagagctttctttggaacc							TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr3:136573495delG	ENST00000446465.2	+	2	821	c.193delG	c.(193-195)gggfs	p.G65fs	RP11-85F14.5_ENST00000474250.1_RNA|RP11-85F14.5_ENST00000461864.1_RNA|SLC35G2_ENST00000393079.3_Frame_Shift_Del_p.G65fs|RP11-85F14.5_ENST00000470236.1_RNA	NM_025246.2	NP_079522.2			solute carrier family 35, member G2									p.G65R(1)									GAAAAAAAAAGGGAGAGCTTT	0.403																																																1	Substitution - Missense(1)	lung(1)											84	94	91					3																	136573495		2203	4300	6503	SO:0001589	frameshift_variant	80723			BC022557	CCDS3091.1	3q22.3	2013-05-22	2012-03-09	2012-03-09	ENSG00000168917	ENSG00000168917		"Solute carriers"	28480	protein-coding gene	gene with protein product			"transmembrane protein 22"	TMEM22		11230166	Standard	NM_001097600		Approved	MGC3295, DKFZp564K2464	uc003erf.4	Q8TBE7	OTTHUMG00000159787	ENST00000446465.2:c.193delG	3.37:g.136573495delG	ENSP00000400839:p.Gly65fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000446465.2	37	CCDS3091.1																																																																																				0.403	SLC35G2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357317.1	NM_025246		-	136573495	G	-	136573495	7	5	585	1	0	1	0	1	0	0	0	0	16155	1000	35	0	195	0	TMEM22	3	136573495	Frame_Shift_Del	DEL	G	TCGA-EV-5903-01A-11D-1589-08	15313233	136573495	61448935	26	34773										
TNFSF10	8743	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	172227069	172227069	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tgtgagctgctactctctgaGgacctctttctctcactagg	9	12	4	2	rs369143448		TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr3:172227069G>C	ENST00000241261.2	-	4	478	c.356C>G	c.(355-357)cCt>cGt	p.P119R	TNFSF10_ENST00000420541.2_Intron	NM_003810.3	NP_003801.1	P50591	TNF10_HUMAN	tumor necrosis factor (ligand) superfamily, member 10	119					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|cell-cell signaling (GO:0007267)|immune response (GO:0006955)|male gonad development (GO:0008584)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001239)|response to insulin (GO:0032868)|signal transduction (GO:0007165)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	metal ion binding (GO:0046872)|receptor binding (GO:0005102)			breast(2)|cervix(1)|large_intestine(1)|lung(6)|ovary(1)|skin(4)	15	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.67e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			TACTCTCTGAGGACCTCTTTC	0.388																																																0													105	102	103					3																	172227069		2203	4300	6503	SO:0001583	missense	8743			U37518	CCDS3219.1, CCDS54680.1	3q26	2006-09-20			ENSG00000121858	ENSG00000121858		"Tumor necrosis factor (ligand) superfamily", "CD molecules"	11925	protein-coding gene	gene with protein product		603598				8777713, 8663110	Standard	NM_003810		Approved	TRAIL, Apo-2L, TL2, CD253	uc003fid.3	P50591	OTTHUMG00000156917	ENST00000241261.2:c.356C>G	3.37:g.172227069G>C	ENSP00000241261:p.Pro119Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A1Y9B3	Missense_Mutation	SNP	ENST00000241261.2	37	CCDS3219.1	.	.	.	.	.	.	.	.	.	.	G	4.858	0.159457	0.09236	.	.	ENSG00000121858	ENST00000241261	D	0.86769	-2.17	4.71	-4.74	0.03249	.	1.516980	0.03189	N	0.173149	T	0.80325	0.4602	L	0.54323	1.7	0.09310	N	1	B	0.28324	0.207	B	0.23574	0.047	T	0.64097	-0.6487	10	0.08837	T	0.75	5.0717	8.19	0.31363	0.659:0.1329:0.208:0.0	.	119	P50591	TNF10_HUMAN	R	119	ENSP00000241261:P119R	ENSP00000241261:P119R	P	-	2	0	TNFSF10	173709763	0.000000	0.05858	0.000000	0.03702	0.008000	0.06430	-1.053000	0.03500	-0.976000	0.03542	-1.113000	0.02065	CCT		0.388	TNFSF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346601.1			C	172227069	G	C	172227069	3	2	585	1	0	0	0	0	1	0	0	0	16313	1000	35	4	497	4	TNFSF10	3	172227069	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	35653574	172227069	25795361	27	34774										
YEATS2	55689	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	183508727	183508727	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cgtcagcgccacgtccctcgTgcctacaccaaaccccatct	6	20	2	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr3:183508727T>C	ENST00000305135.5	+	21	3251	c.3056T>C	c.(3055-3057)gTg>gCg	p.V1019A		NM_018023.4	NP_060493.3	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	1019					chromatin organization (GO:0006325)|histone H3 acetylation (GO:0043966)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)	Ada2/Gcn5/Ada3 transcription activator complex (GO:0005671)|mitotic spindle (GO:0072686)	TBP-class protein binding (GO:0017025)			NS(1)|breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(24)|ovary(3)|prostate(2)|skin(3)	49	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)			ACGTCCCTCGTGCCTACACCA	0.532																																																0													101	111	108					3																	183508727		2042	4199	6241	SO:0001583	missense	55689			AB033023	CCDS43175.1	3q27.3	2004-08-18			ENSG00000163872	ENSG00000163872			25489	protein-coding gene	gene with protein product		613373				10574462	Standard	NM_018023		Approved	FLJ10201, FLJ12841, FLJ13308, KIAA1197	uc003fly.2	Q9ULM3	OTTHUMG00000156898	ENST00000305135.5:c.3056T>C	3.37:g.183508727T>C	ENSP00000306983:p.Val1019Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2B9|D3DNS9|Q641P6|Q9NW96	Missense_Mutation	SNP	ENST00000305135.5	37	CCDS43175.1	.	.	.	.	.	.	.	.	.	.	T	14.14	2.447745	0.43429	.	.	ENSG00000163872	ENST00000421660;ENST00000305135	T	0.35236	1.32	5.68	5.68	0.88126	.	0.173852	0.36591	N	0.002520	T	0.24005	0.0581	N	0.19112	0.55	0.42581	D	0.993217	P;B	0.44139	0.827;0.38	B;B	0.38264	0.269;0.098	T	0.04870	-1.0921	10	0.27082	T	0.32	-14.1917	14.1631	0.65459	0.0:0.0:0.0:1.0	.	181;1019	Q8N5H6;Q9ULM3	.;YETS2_HUMAN	A	1019	ENSP00000306983:V1019A	ENSP00000306983:V1019A	V	+	2	0	YEATS2	184991421	1.000000	0.71417	1.000000	0.80357	0.324000	0.28378	3.246000	0.51414	2.164000	0.68074	0.477000	0.44152	GTG		0.532	YEATS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346507.2	NM_018023		C	183508727	T	C	183508727	3	2	585	1	0	0	0	0	1	0	0	0	17484	1696	59	3	3134	3	YEATS2	3	183508727	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	11281658	183508727	14513703	28	34775										
FGF12	2257	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	192078247	192078247	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gttttcgtccttggtcccatCaatggtaccatctgggtgca	10	11	2	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr3:192078247C>A	ENST00000454309.2	-	2	1105	c.280G>T	c.(280-282)Gat>Tat	p.D94Y	FGF12_ENST00000430714.1_Intron|FGF12_ENST00000445105.2_Missense_Mutation_p.D32Y|FGF12_ENST00000450716.1_Missense_Mutation_p.D32Y|FGF12_ENST00000264730.3_Missense_Mutation_p.D32Y	NM_021032.4	NP_066360.1	P61328	FGF12_HUMAN	fibroblast growth factor 12	94					adult locomotory behavior (GO:0008344)|cardiac muscle cell action potential involved in contraction (GO:0086002)|cell-cell signaling (GO:0007267)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|JNK cascade (GO:0007254)|negative regulation of cation channel activity (GO:2001258)|nervous system development (GO:0007399)|neuromuscular process (GO:0050905)|positive regulation of sodium ion transport (GO:0010765)|regulation of membrane depolarization (GO:0003254)|regulation of sodium ion transmembrane transport (GO:1902305)|regulation of sodium ion transmembrane transporter activity (GO:2000649)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)	extracellular space (GO:0005615)|nucleus (GO:0005634)	growth factor activity (GO:0008083)|heparin binding (GO:0008201)|ion channel binding (GO:0044325)|sodium channel regulator activity (GO:0017080)			endometrium(1)|large_intestine(7)|lung(14)|ovary(2)|pancreas(1)|skin(4)|upper_aerodigestive_tract(1)	30	all_cancers(143;1.72e-08)|Ovarian(172;0.0634)|Breast(254;0.247)	Lung NSC(153;0.21)	LUSC - Lung squamous cell carcinoma(58;5.45e-06)|Lung(62;6.17e-06)	GBM - Glioblastoma multiforme(46;0.00032)		TTGGTCCCATCAATGGTACCA	0.408																																																0													178	150	159					3																	192078247		2203	4300	6503	SO:0001583	missense	2257			U66197	CCDS3301.1, CCDS46983.1	3q28	2008-07-18			ENSG00000114279	ENSG00000114279			3668	protein-coding gene	gene with protein product	"fibroblast growth factor 12B", "fibroblast growth factor homologous factor 1", "myocyte-activating factor", "fibroblast growth factor FGF-12b"	601513		FGF12B		8790420, 9345906	Standard	NM_021032		Approved	FHF1	uc003fsx.3	P61328	OTTHUMG00000156132	ENST00000454309.2:c.280G>T	3.37:g.192078247C>A	ENSP00000413496:p.Asp94Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6B7|B2R976|O35339|P70376|Q8TBG5|Q92912|Q93001	Missense_Mutation	SNP	ENST00000454309.2	37	CCDS3301.1	.	.	.	.	.	.	.	.	.	.	C	19.73	3.882126	0.72294	.	.	ENSG00000114279	ENST00000264730;ENST00000392454;ENST00000445105;ENST00000454309;ENST00000450716;ENST00000448795;ENST00000418610	T;T;T;T;T;T	0.69306	-0.39;-0.39;-0.39;-0.39;-0.39;-0.39	5.53	5.53	0.82687	.	0.192095	0.56097	D	0.000035	D	0.82857	0.5128	M	0.85630	2.765	0.80722	D	1	D;D	0.62365	0.981;0.991	P;P	0.62298	0.838;0.9	D	0.85384	0.1121	10	0.72032	D	0.01	.	18.4573	0.90725	0.0:1.0:0.0:0.0	.	32;94	P61328-2;P61328	.;FGF12_HUMAN	Y	32;32;32;94;32;8;32	ENSP00000264730:D32Y;ENSP00000393686:D32Y;ENSP00000413496:D94Y;ENSP00000397635:D32Y;ENSP00000412904:D8Y;ENSP00000395517:D32Y	ENSP00000264730:D32Y	D	-	1	0	FGF12	193560941	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.390000	0.59646	2.613000	0.88420	0.591000	0.81541	GAT		0.408	FGF12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000343160.1	NM_021032		A	192078247	C	A	192078247	3	1	585	1	0	0	0	0	1	0	0	0	5848	826	29	4	467	4	FGF12	3	192078247	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08	8569520	192078247	5944183	29	34776										
SPON2	10417	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	1165206	1165206	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ggcctcgccgcgctccgcaaAgtcgcgcagcccgttactga	12	17	0	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr4:1165206A>T	ENST00000290902.5	-	3	621	c.289T>A	c.(289-291)Ttt>Att	p.F97I	SPON2_ENST00000431380.1_Missense_Mutation_p.F97I	NM_012445.3	NP_036577	Q9BUD6	SPON2_HUMAN	spondin 2, extracellular matrix protein	97	Spondin. {ECO:0000255|PROSITE- ProRule:PRU00364}.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|innate immune response (GO:0045087)	extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)	metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(2)|pancreas(1)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(23;0.00805)	UCEC - Uterine corpus endometrioid carcinoma (64;0.139)|Colorectal(103;0.19)		CGCTCCGCAAAGTCGCGCAGC	0.701																																																0													26	28	27					4																	1165206		2193	4283	6476	SO:0001583	missense	10417			AB027466	CCDS3347.1	4p16.3	2008-07-29			ENSG00000159674	ENSG00000159674			11253	protein-coding gene	gene with protein product	"Mindin", "M-spondin"	605918				10512675, 15094111	Standard	NM_012445		Approved	DIL1	uc003gco.4	Q9BUD6	OTTHUMG00000089002	ENST00000290902.5:c.289T>A	4.37:g.1165206A>T	ENSP00000290902:p.Phe97Ile	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVN9|Q4W5N4|Q9ULW1	Missense_Mutation	SNP	ENST00000290902.5	37	CCDS3347.1	.	.	.	.	.	.	.	.	.	.	A	19.08	3.757899	0.69648	.	.	ENSG00000159674	ENST00000290902;ENST00000431380;ENST00000503765	T;T;T	0.44881	0.91;0.91;0.91	4.5	4.5	0.54988	Spondin, N-terminal (2);	0.000000	0.85682	D	0.000000	T	0.61236	0.2331	M	0.71296	2.17	0.80722	D	1	D;D;D	0.76494	0.999;0.999;0.999	D;D;D	0.76071	0.987;0.955;0.967	T	0.61187	-0.7113	10	0.35671	T	0.21	.	13.4453	0.61138	1.0:0.0:0.0:0.0	.	97;97;97	D6RB12;D3DVN9;Q9BUD6	.;.;SPON2_HUMAN	I	97	ENSP00000290902:F97I;ENSP00000394832:F97I;ENSP00000424542:F97I	ENSP00000290902:F97I	F	-	1	0	SPON2	1155206	1.000000	0.71417	0.979000	0.43373	0.095000	0.18619	5.240000	0.65378	1.667000	0.50832	0.418000	0.28097	TTT		0.701	SPON2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000202080.2			T	1165206	A	T	1165206	3	4	585	1	0	0	0	0	1	0	0	0	15095	72	3	5	722	5	SPON2	4	1165206	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08		1165206	189989070	30	34777										
KIAA1530	57654	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	1347115	1347115	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cacaggtgacccctcagatgAggacgaggacagcgacctcg	13	13	1	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr4:1347115A>C	ENST00000389851.4	+	5	1295	c.848A>C	c.(847-849)gAg>gCg	p.E283A	UVSSA_ENST00000511216.1_Missense_Mutation_p.E283A|UVSSA_ENST00000507531.1_Missense_Mutation_p.E283A	NM_020894.2	NP_065945.2	Q2YD98	UVSSA_HUMAN	UV-stimulated scaffold protein A	283					protein ubiquitination (GO:0016567)|response to UV (GO:0009411)|transcription-coupled nucleotide-excision repair (GO:0006283)	chromosome (GO:0005694)	RNA polymerase II core binding (GO:0000993)										CCCTCAGATGAGGACGAGGAC	0.657																																																0													17	18	18					4																	1347115		2193	4283	6476	SO:0001583	missense	57654			BC021930	CCDS33938.1	4p16.3	2012-04-27	2012-04-27	2012-04-27		ENSG00000163945			29304	protein-coding gene	gene with protein product		614632	"KIAA1530"	KIAA1530		10819331, 22466610, 22466611, 22466612	Standard	NM_020894		Approved		uc003gde.4	Q2YD98		ENST00000389851.4:c.848A>C	4.37:g.1347115A>C	ENSP00000374501:p.Glu283Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9E6|B2RU11|Q8WTX4|Q9P1Z8	Missense_Mutation	SNP	ENST00000389851.4	37	CCDS33938.1	.	.	.	.	.	.	.	.	.	.	A	6.849	0.525889	0.13066	.	.	ENSG00000163945	ENST00000511216;ENST00000389851;ENST00000507531	T;T;T	0.32988	1.43;1.43;1.43	4.13	2.89	0.33648	.	0.479895	0.23176	N	0.051071	T	0.20007	0.0481	L	0.55481	1.735	0.23204	N	0.998124	B	0.30406	0.278	B	0.24974	0.057	T	0.29058	-1.0024	10	0.05721	T	0.95	.	5.9647	0.19318	0.7766:0.0:0.2234:0.0	.	283	Q2YD98	K1530_HUMAN	A	283	ENSP00000425130:E283A;ENSP00000374501:E283A;ENSP00000421741:E283A	ENSP00000374501:E283A	E	+	2	0	KIAA1530	1337115	0.933000	0.31639	0.289000	0.24876	0.208000	0.24298	3.004000	0.49513	0.438000	0.26450	0.260000	0.18958	GAG		0.657	UVSSA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359480.1	NM_020894		C	1347115	A	C	1347115	3	2	585	1	0	0	0	0	1	0	0	0	8248	304	11	5	862	5	KIAA1530	4	1347115	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	181909	1347115	189807161	31	34778										
TBC1D9	23158	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	141560501	141560501	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	taccacgttgcgtttcgtagTatcctccagcgtctggatca	9	12	2	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr4:141560501T>C	ENST00000442267.2	-	14	2493	c.2419A>G	c.(2419-2421)Act>Gct	p.T807A		NM_015130.2	NP_055945.2	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	807							calcium ion binding (GO:0005509)|Rab GTPase activator activity (GO:0005097)			endometrium(3)|kidney(2)|large_intestine(3)|lung(18)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	31	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				CGTTTCGTAGTATCCTCCAGC	0.458																																																0													88	90	89					4																	141560501		1980	4151	6131	SO:0001583	missense	23158			AB020689	CCDS47136.1	4q31.1	2013-01-10	2006-07-12		ENSG00000109436	ENSG00000109436		"EF-hand domain containing"	21710	protein-coding gene	gene with protein product			"TBC1 domain family, member 9"			12970790	Standard	NM_015130		Approved	KIAA0882, MDR1	uc010ioj.3	Q6ZT07	OTTHUMG00000161405	ENST00000442267.2:c.2419A>G	4.37:g.141560501T>C	ENSP00000411197:p.Thr807Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8U8|D3DNZ1|O94958	Missense_Mutation	SNP	ENST00000442267.2	37	CCDS47136.1	.	.	.	.	.	.	.	.	.	.	T	22.7	4.330187	0.81690	.	.	ENSG00000109436	ENST00000442267	T	0.08984	3.03	5.42	5.42	0.78866	.	0.000000	0.85682	D	0.000000	T	0.16685	0.0401	M	0.66939	2.045	0.80722	D	1	P	0.46656	0.882	P	0.48952	0.596	T	0.07501	-1.0769	10	0.17369	T	0.5	-9.4557	15.4755	0.75474	0.0:0.0:0.0:1.0	.	807	Q6ZT07	TBCD9_HUMAN	A	807	ENSP00000411197:T807A	ENSP00000411197:T807A	T	-	1	0	TBC1D9	141779951	1.000000	0.71417	0.880000	0.34516	0.996000	0.88848	6.093000	0.71422	2.052000	0.61016	0.533000	0.62120	ACT		0.458	TBC1D9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364806.1	NM_015130		C	141560501	T	C	141560501	3	2	585	1	0	0	0	0	1	0	0	0	15639	1638	57	3	1413	3	TBC1D9	4	141560501	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	140213386	141560501	49593775	32	34779										
DCHS2	54798	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	155180741	155180741	+	Frame_Shift_Del	DEL	C	C	-													0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ttggctttcagacactgatgCctggtaaatgctttgttcaa							TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr4:155180741delC	ENST00000357232.4	-	20	5379	c.5380delG	c.(5380-5382)gcafs	p.A1794fs		NM_017639.3	NP_060109.2	Q6V1P9	PCD23_HUMAN	dachsous cadherin-related 2	1794	Cadherin 16. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|central_nervous_system(1)|cervix(3)|endometrium(8)|kidney(5)|large_intestine(54)|lung(63)|ovary(4)|pancreas(1)|prostate(14)|skin(12)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	176	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GACACTGATGCCTGGTAAATG	0.413																																																0													213	191	199					4																	155180741		2203	4300	6503	SO:0001589	frameshift_variant	54798			BC140919	CCDS3785.1, CCDS47150.1	4q32.1	2014-06-04	2013-10-04	2004-09-03		ENSG00000197410		"Cadherins / Cadherin-related"	23111	protein-coding gene	gene with protein product	"cadherin-related family member 7"	612486	"cadherin-like 27", "dachsous 2 (Drosophila)"	CDH27, PCDH23		15003449	Standard	NM_017639		Approved	CDHJ, FLJ20047, PCDHJ, CDHR7	uc003inw.2	Q6V1P9		ENST00000357232.4:c.5380delG	4.37:g.155180741delC	ENSP00000349768:p.Ala1794fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RU14|E9PC11|Q4W5P9|Q6ZS61|Q9NXU8	Frame_Shift_Del	DEL	ENST00000357232.4	37	CCDS3785.1																																																																																				0.413	DCHS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365281.2	NM_001142552		-	155180741	C	-	155180741	7	5	585	1	0	1	0	1	0	0	0	0	4290	739	26	0	3394	0	DCHS2	4	155180741	Frame_Shift_Del	DEL	C	TCGA-EV-5903-01A-11D-1589-08	13620240	155180741	35973535	33	34780										
RGNEF	64283	broad.mit.edu;bcgsc.ca	37	chr5	73161823	73161823	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	aatataacaagaacaaaccaCagaccatccttggaagtaag	6	9	0	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr5:73161823C>T	ENST00000426542.2	+	17	2157	c.2137C>T	c.(2137-2139)Cag>Tag	p.Q713*	ARHGEF28_ENST00000287898.5_Nonsense_Mutation_p.Q713*|ARHGEF28_ENST00000513042.2_Nonsense_Mutation_p.Q713*|ARHGEF28_ENST00000296794.6_Nonsense_Mutation_p.Q713*|ARHGEF28_ENST00000545377.1_Nonsense_Mutation_p.Q713*|ARHGEF28_ENST00000437974.1_Nonsense_Mutation_p.Q713*|ARHGEF28_ENST00000296799.4_Nonsense_Mutation_p.Q400*			Q8N1W1	ARG28_HUMAN	Rho guanine nucleotide exchange factor (GEF) 28	713					central nervous system neuron axonogenesis (GO:0021955)|intracellular signal transduction (GO:0035556)|neurofilament cytoskeleton organization (GO:0060052)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|RNA binding (GO:0003723)										GAACAAACCACAGACCATCCT	0.269																																																0													53	50	51					5																	73161823		1796	4050	5846	SO:0001587	stop_gained	64283				CCDS47231.1, CCDS47231.2, CCDS54870.1, CCDS58957.1	5q13.2	2012-08-08			ENSG00000214944	ENSG00000214944			30322	protein-coding gene	gene with protein product		612790				9199174, 11058585	Standard	NM_001177693		Approved	RGNEF, p190RhoGEF, RIP2	uc010izf.3	Q8N1W1	OTTHUMG00000162454	ENST00000426542.2:c.2137C>T	5.37:g.73161823C>T	ENSP00000412175:p.Gln713*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RXG7|B4E3K4|B5MDA3|B7ZW32|E9PC75|Q8NCM7|Q96E37|Q9H6L3|Q9H6W0	Nonsense_Mutation	SNP	ENST00000426542.2	37	CCDS54870.1	.	.	.	.	.	.	.	.	.	.	C	40	8.056392	0.98632	.	.	ENSG00000214944	ENST00000296794;ENST00000545377;ENST00000513042;ENST00000287898;ENST00000437974;ENST00000426542;ENST00000296799	.	.	.	5.77	5.77	0.91146	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.59425	D	0.04	.	17.7711	0.88493	0.0:1.0:0.0:0.0	.	.	.	.	X	713;713;713;713;713;713;400	.	ENSP00000287898:Q713X	Q	+	1	0	RP11-428C6.1	73197579	0.997000	0.39634	0.994000	0.49952	0.997000	0.91878	4.306000	0.59117	2.729000	0.93468	0.655000	0.94253	CAG		0.269	ARHGEF28-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000368975.1			T	73161823	C	T	73161823	4	4	585	1	0	0	0	0	0	1	0	0	13296	479	17	2	2203	2	RGNEF	5	73161823	Nonsense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08		73161823	107753437	34	34781										
TMEM161B	153396	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	87521633	87521633	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ttgtttctagatgaaggtcaAtatcctttggaatggttaat	9	4	2	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr5:87521633A>G	ENST00000296595.6	-	4	366	c.242T>C	c.(241-243)aTt>aCt	p.I81T	TMEM161B_ENST00000506536.1_5'UTR|TMEM161B_ENST00000514135.1_Missense_Mutation_p.I81T|TMEM161B_ENST00000509387.1_5'UTR|TMEM161B_ENST00000512429.1_Missense_Mutation_p.I70T	NM_153354.3	NP_699185.1	Q8NDZ6	T161B_HUMAN	transmembrane protein 161B	81						integral component of membrane (GO:0016021)				endometrium(4)|large_intestine(3)|lung(9)|skin(3)|upper_aerodigestive_tract(1)	20		all_cancers(142;0.000275)|Lung NSC(167;0.00901)|all_lung(232;0.0111)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;6.24e-36)|Epithelial(54;6.8e-31)|all cancers(79;1.07e-26)		ATGAAGGTCAATATCCTTTGG	0.299																																																0													132	129	130					5																	87521633		2202	4298	6500	SO:0001583	missense	153396			BC037287	CCDS4065.1, CCDS75269.1, CCDS75270.1	5q14.3	2008-02-05			ENSG00000164180	ENSG00000164180			28483	protein-coding gene	gene with protein product						12477932	Standard	NM_001289008		Approved	MGC33214	uc003kjc.3	Q8NDZ6	OTTHUMG00000131323	ENST00000296595.6:c.242T>C	5.37:g.87521633A>G	ENSP00000296595:p.Ile81Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5CZH7|Q6UWQ6	Missense_Mutation	SNP	ENST00000296595.6	37	CCDS4065.1	.	.	.	.	.	.	.	.	.	.	A	16.80	3.222869	0.58668	.	.	ENSG00000164180	ENST00000514135;ENST00000296595;ENST00000512429;ENST00000443393	.	.	.	5.02	5.02	0.67125	.	0.047070	0.85682	D	0.000000	T	0.55369	0.1916	L	0.44542	1.39	0.80722	D	1	B	0.15719	0.014	B	0.18871	0.023	T	0.52056	-0.8626	9	0.35671	T	0.21	-0.078	15.0267	0.71674	1.0:0.0:0.0:0.0	.	81	Q8NDZ6	T161B_HUMAN	T	81;81;70;81	.	ENSP00000296595:I81T	I	-	2	0	TMEM161B	87557389	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	8.804000	0.91921	2.025000	0.59659	0.383000	0.25322	ATT		0.299	TMEM161B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254094.1	NM_153354		G	87521633	A	G	87521633	3	3	585	1	0	0	0	0	1	0	0	0	16089	101	4	3	1257	3	TMEM161B	5	87521633	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	14359810	87521633	93393627	35	34782										
GALNT10	55568	broad.mit.edu	37	chr5	153755873	153755873	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tcttgaagactacatggcccTtttccccagtgtgaggattc	9	11	1	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr5:153755873T>C	ENST00000297107.6	+	5	742	c.605T>C	c.(604-606)cTt>cCt	p.L202P	GALNT10_ENST00000377661.2_Intron|GALNT10_ENST00000425427.2_Missense_Mutation_p.L202P|SAP30L-AS1_ENST00000519727.1_RNA	NM_198321.3	NP_938080.1	Q86SR1	GLT10_HUMAN	polypeptide N-acetylgalactosaminyltransferase 10	202	Catalytic subdomain A.				cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(12)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	32	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)			TACATGGCCCTTTTCCCCAGT	0.502																																																0													137	134	135					5																	153755873		2203	4300	6503	SO:0001583	missense	55568			AK023782	CCDS4325.1	5q34	2014-03-13	2014-03-13		ENSG00000164574	ENSG00000164574	2.4.1.41	"Glycosyltransferase family 2 domain containing"	19873	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 10"	608043	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 10 (GalNAc-T10)"			12417297	Standard	NM_198321		Approved	GalNAc-T10	uc003lvh.3	Q86SR1	OTTHUMG00000130145	ENST00000297107.6:c.605T>C	5.37:g.153755873T>C	ENSP00000297107:p.Leu202Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXC9|Q6IN56|Q86VP8|Q8IXJ2|Q8TEJ2|Q96IV2|Q9H8E1|Q9Y4M4	Missense_Mutation	SNP	ENST00000297107.6	37	CCDS4325.1	.	.	.	.	.	.	.	.	.	.	T	12.77	2.036802	0.35893	.	.	ENSG00000164574	ENST00000425427;ENST00000297107	T;T	0.59772	0.24;0.24	5.98	-6.42	0.01932	Glycosyl transferase, family 2 (1);	0.438212	0.26923	N	0.021806	T	0.38904	0.1058	L	0.33710	1.025	0.09310	N	0.999996	B;B	0.30634	0.288;0.0	B;B	0.35899	0.213;0.0	T	0.37596	-0.9699	10	0.46703	T	0.11	.	8.2076	0.31465	0.5976:0.0:0.248:0.1545	.	202;202	Q86SR1;Q86SR1-3	GLT10_HUMAN;.	P	202	ENSP00000415210:L202P;ENSP00000297107:L202P	ENSP00000297107:L202P	L	+	2	0	GALNT10	153736066	0.991000	0.36638	0.165000	0.22776	0.896000	0.52359	2.523000	0.45580	-0.512000	0.06505	0.533000	0.62120	CTT		0.502	GALNT10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252453.1	NM_198321		C	153755873	T	C	153755873	3	2	585	1	0	0	0	0	1	0	0	0	6215	1609	56	3	623	3	GALNT10	5	153755873	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	66234240	153755873	27159387	36	34783										
LCP2	3937	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	169724562	169724562	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ttgaaatagtcagcaaggctGtcggggtcccagcccaggac	13	11	1	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr5:169724562G>C	ENST00000046794.5	-	1	669	c.54C>G	c.(52-54)gaC>gaG	p.D18E		NM_005565.3	NP_005556.1	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2 (SH2 domain containing leukocyte protein of 76kDa)	18	SAM.				blood coagulation (GO:0007596)|cytokine secretion (GO:0050663)|Fc-epsilon receptor signaling pathway (GO:0038095)|immune response (GO:0006955)|innate immune response (GO:0045087)|mast cell activation (GO:0045576)|platelet activation (GO:0030168)|T cell receptor signaling pathway (GO:0050852)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cell-cell junction (GO:0005911)|cytosol (GO:0005829)				cervix(1)|endometrium(1)|kidney(3)|large_intestine(4)|lung(12)|ovary(1)|upper_aerodigestive_tract(1)	23	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)		CAGCAAGGCTGTCGGGGTCCC	0.557																																																0													43	45	45					5																	169724562		2003	4173	6176	SO:0001583	missense	3937				CCDS47339.1	5q35.1	2013-02-14	2002-08-29		ENSG00000043462	ENSG00000043462		"SH2 domain containing"	6529	protein-coding gene	gene with protein product	"76 kDa tyrosine phosphoprotein", "SH2 domain-containing leukocyte protein of 76kD"	601603	"lymphocyte cytosolic protein 2 (SH2 domain-containing leukocyte protein of 76kD)"	SLP76		7706237	Standard	NM_005565		Approved	SLP-76	uc003man.1	Q13094	OTTHUMG00000163121	ENST00000046794.5:c.54C>G	5.37:g.169724562G>C	ENSP00000046794:p.Asp18Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA25|Q53XV4	Missense_Mutation	SNP	ENST00000046794.5	37	CCDS47339.1	.	.	.	.	.	.	.	.	.	.	G	10.48	1.361638	0.24684	.	.	ENSG00000043462	ENST00000046794	D	0.83506	-1.73	5.44	2.13	0.27403	Sterile alpha motif domain (1);Sterile alpha motif/pointed domain (2);Sterile alpha motif, type 2 (1);	0.236840	0.42964	D	0.000627	T	0.66809	0.2827	L	0.29908	0.895	0.80722	D	1	B	0.10296	0.003	B	0.13407	0.009	T	0.55457	-0.8138	9	.	.	.	-17.5712	3.0362	0.06123	0.2448:0.0:0.5448:0.2105	.	18	Q13094	LCP2_HUMAN	E	18	ENSP00000046794:D18E	.	D	-	3	2	LCP2	169657140	0.998000	0.40836	0.982000	0.44146	0.798000	0.45092	1.020000	0.30027	1.198000	0.43158	-0.345000	0.07892	GAC		0.557	LCP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371727.1	NM_005565		C	169724562	G	C	169724562	3	2	585	1	0	0	0	0	1	0	0	0	8699	1368	48	4	1631	4	LCP2	5	169724562	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	15968689	169724562	11190698	37	34784										
NSD1	64324	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	176639042	176639042	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	actccttcagcaagcatactTgaggaaccactgacagagca	8	12	1	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr5:176639042T>C	ENST00000439151.2	+	5	3687	c.3642T>C	c.(3640-3642)ctT>ctC	p.L1214L	NSD1_ENST00000354179.4_Silent_p.L945L|NSD1_ENST00000361032.4_Silent_p.L1111L|NSD1_ENST00000347982.4_Silent_p.L945L	NM_022455.4	NP_071900.2	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	1214					gastrulation with mouth forming second (GO:0001702)|histone H3-K36 methylation (GO:0010452)|histone H4-K20 methylation (GO:0034770)|histone methylation (GO:0016571)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|chromatin binding (GO:0003682)|estrogen receptor binding (GO:0030331)|histone methyltransferase activity (H3-K36 specific) (GO:0046975)|histone methyltransferase activity (H4-K20 specific) (GO:0042799)|retinoic acid receptor binding (GO:0042974)|retinoid X receptor binding (GO:0046965)|thyroid hormone receptor binding (GO:0046966)|transcription cofactor activity (GO:0003712)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(2)|kidney(13)|large_intestine(18)|lung(24)|ovary(2)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(7)|urinary_tract(3)	96	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)		CAAGCATACTTGAGGAACCAC	0.483			T	NUP98	AML		Sotos Syndrome		Weaver syndrome;Sotos syndrome;Beckwith-Wiedemann syndrome	HNSCC(47;0.14)																													Dom	yes		5	5q35	64324	nuclear receptor binding SET domain protein 1	yes	L	0													84	82	83					5																	176639042		2203	4300	6503	SO:0001819	synonymous_variant	64324	Familial Cancer Database	Weaver-Smith syndrome;Cerebral Gigantism;BWS, Exomphalos-Macroglossia-Gigantism (EMG) syndrome, Wiedemann-Beckwith syndrome, WBS	AK026066	CCDS4412.1, CCDS4413.1	5q35	2014-09-17	2003-03-12		ENSG00000165671	ENSG00000165671		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	14234	protein-coding gene	gene with protein product		606681	"Sotos syndrome"	STO		9628876, 11896389	Standard	NM_022455		Approved	ARA267, FLJ22263, KMT3B	uc003mfr.4	Q96L73	OTTHUMG00000130846	ENST00000439151.2:c.3642T>C	5.37:g.176639042T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q96PD8|Q96RN7	Silent	SNP	ENST00000439151.2	37	CCDS4412.1																																																																																				0.483	NSD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253412.2	NM_172349		C	176639042	T	C	176639042	2	2	585	1	0	0	0	0	0	0	0	1	10676	1799	63	3		3	NSD1	5	176639042	Silent	SNP	T	TCGA-EV-5903-01A-11D-1589-08	6914480	176639042	4276218	38	34785										
NUP153	9972	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	17688708	17688708	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ctcatcggcatataccagatGgtcctctttattttctggcc	7	12	3	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr6:17688708G>A	ENST00000262077.2	-	2	252	c.253C>T	c.(253-255)Cat>Tat	p.H85Y	NUP153_ENST00000537253.1_Missense_Mutation_p.H85Y	NM_005124.2	NP_005115.2	P49790	NU153_HUMAN	nucleoporin 153kDa	85					carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|negative regulation of RNA export from nucleus (GO:0046832)|nuclear pore complex assembly (GO:0051292)|protein transport (GO:0015031)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral entry into host cell (GO:0046718)|viral penetration into host nucleus (GO:0075732)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nuclear inclusion body (GO:0042405)|nuclear membrane (GO:0031965)|nuclear periphery (GO:0034399)|nuclear pore (GO:0005643)|nuclear pore nuclear basket (GO:0044615)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|identical protein binding (GO:0042802)|nucleocytoplasmic transporter activity (GO:0005487)|protein anchor (GO:0043495)|structural constituent of nuclear pore (GO:0017056)|transporter activity (GO:0005215)|zinc ion binding (GO:0008270)			NS(2)|breast(6)|endometrium(4)|kidney(3)|large_intestine(7)|lung(23)|ovary(3)|skin(3)|urinary_tract(2)	53	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			TATACCAGATGGTCCTCTTTA	0.438																																																0													130	123	125					6																	17688708		2203	4300	6503	SO:0001583	missense	9972			Z25535	CCDS4541.1, CCDS64359.1, CCDS75407.1	6p22.3	2008-07-29	2002-08-29		ENSG00000124789	ENSG00000124789			8062	protein-coding gene	gene with protein product		603948	"nucleoporin 153kD"			8110839	Standard	NM_001278209		Approved	HNUP153	uc003ncd.2	P49790	OTTHUMG00000014312	ENST00000262077.2:c.253C>T	6.37:g.17688708G>A	ENSP00000262077:p.His85Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DIK2|E7EPX5|F6QR24|Q4LE47|Q5T9I7|Q7Z743	Missense_Mutation	SNP	ENST00000262077.2	37	CCDS4541.1	.	.	.	.	.	.	.	.	.	.	G	14.97	2.693922	0.48202	.	.	ENSG00000124789	ENST00000262077;ENST00000430136;ENST00000537253	T;T	0.08282	3.13;3.11	5.37	5.37	0.77165	.	0.125530	0.35805	N	0.002971	T	0.06600	0.0169	L	0.29908	0.895	0.42291	D	0.99213	D;B;P	0.65815	0.995;0.021;0.94	P;B;B	0.60609	0.877;0.008;0.439	T	0.06144	-1.0843	10	0.02654	T	1	-2.2032	16.8895	0.86083	0.0:0.0:1.0:0.0	.	85;107;85	F6QR24;Q4LE47;P49790	.;.;NU153_HUMAN	Y	85;107;85	ENSP00000262077:H85Y;ENSP00000444029:H85Y	ENSP00000262077:H85Y	H	-	1	0	NUP153	17796687	0.927000	0.31430	0.892000	0.35008	0.127000	0.20565	4.623000	0.61247	2.494000	0.84150	0.650000	0.86243	CAT		0.438	NUP153-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039953.1			A	17688708	G	A	17688708	3	1	585	1	0	0	0	0	1	0	0	0	10762	1348	47	2	4258	2	NUP153	6	17688708	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08		17688708	153426359	39	34786										
ZNF184	7738	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	27420017	27420017	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	atcatagggtttctccccagTatgagttttttgatgctgag	10	7	2	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr6:27420017T>C	ENST00000211936.6	-	6	1605	c.1321A>G	c.(1321-1323)Act>Gct	p.T441A	ZNF184_ENST00000377419.1_Missense_Mutation_p.T441A	NM_007149.2	NP_009080.2	Q99676	ZN184_HUMAN	zinc finger protein 184	441					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(4)|kidney(9)|large_intestine(13)|lung(14)|ovary(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	48						TTCTCCCCAGTATGAGTTTTT	0.403																																																0													86	86	86					6																	27420017		2203	4300	6503	SO:0001583	missense	7738			U66561	CCDS4624.1	6p21.3	2013-01-08	2006-06-28		ENSG00000096654	ENSG00000096654		"Zinc fingers, C2H2-type", "-"	12975	protein-coding gene	gene with protein product		602277	"zinc finger protein 184 (Kruppel-like)"				Standard	NM_007149		Approved		uc003nji.3	Q99676	OTTHUMG00000014478	ENST00000211936.6:c.1321A>G	6.37:g.27420017T>C	ENSP00000211936:p.Thr441Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2R715|O60792|Q8TBA9	Missense_Mutation	SNP	ENST00000211936.6	37	CCDS4624.1	.	.	.	.	.	.	.	.	.	.	T	20.1	3.937528	0.73557	.	.	ENSG00000096654	ENST00000211936;ENST00000377419	T;T	0.26518	1.73;1.73	5.27	5.27	0.74061	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.130826	0.35585	N	0.003116	T	0.11367	0.0277	L	0.33624	1.015	0.42611	D	0.993316	P	0.46706	0.883	B	0.38921	0.285	T	0.03139	-1.1068	10	0.87932	D	0	.	13.1686	0.59585	0.0:0.0:0.0:1.0	.	441	Q99676	ZN184_HUMAN	A	441	ENSP00000211936:T441A;ENSP00000366636:T441A	ENSP00000211936:T441A	T	-	1	0	ZNF184	27527996	0.995000	0.38212	0.769000	0.31535	0.998000	0.95712	2.951000	0.49089	2.214000	0.71695	0.533000	0.62120	ACT		0.403	ZNF184-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040146.1	NM_007149		C	27420017	T	C	27420017	3	2	585	1	0	0	0	0	1	0	0	0	17763	1638	57	3	938	3	ZNF184	6	27420017	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	9731309	27420017	143695050	40	34787										
RGL2	5863	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	33260849	33260849	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ctccatctggactcggatgaTacggcaatcagaggcccctg	11	13	2	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr6:33260849T>C	ENST00000497454.1	-	16	2446	c.1951A>G	c.(1951-1953)Atc>Gtc	p.I651V	RGL2_ENST00000437840.2_5'UTR|PFDN6_ENST00000463584.1_Intron	NM_001243738.1|NM_004761.4	NP_001230667.1|NP_004752.1	O15211	RGL2_HUMAN	ral guanine nucleotide dissociation stimulator-like 2	651	Ras-associating. {ECO:0000255|PROSITE- ProRule:PRU00166}.				positive regulation of Ras GTPase activity (GO:0032320)|Ras protein signal transduction (GO:0007265)	intracellular (GO:0005622)	Ras guanyl-nucleotide exchange factor activity (GO:0005088)			breast(2)|cervix(2)|endometrium(7)|kidney(2)|lung(14)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|urinary_tract(1)	34						ACTCGGATGATACGGCAATCA	0.597																																																0													202	229	220					6																	33260849		2203	4300	6503	SO:0001583	missense	5863				CCDS4774.1	6p21.3	2010-02-17	2004-06-11	2004-06-16	ENSG00000237441	ENSG00000237441			9769	protein-coding gene	gene with protein product		602306	"RAB2, member RAS oncogene family-like"	RAB2L		8976381	Standard	NM_001243738		Approved	KE1.5, HKE1.5	uc003odv.3	O15211	OTTHUMG00000031072	ENST00000497454.1:c.1951A>G	6.37:g.33260849T>C	ENSP00000420211:p.Ile651Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DG72|Q5STK0|Q9Y3F3	Missense_Mutation	SNP	ENST00000497454.1	37	CCDS4774.1	.	.	.	.	.	.	.	.	.	.	T	14.82	2.650468	0.47362	.	.	ENSG00000237441	ENST00000497454;ENST00000421215	T	0.49139	0.79	4.6	4.6	0.57074	Ras-association (3);	0.000000	0.85682	D	0.000000	T	0.46073	0.1374	L	0.40543	1.245	0.80722	D	1	D	0.58620	0.983	D	0.73708	0.981	T	0.45131	-0.9282	10	0.42905	T	0.14	.	10.3298	0.43816	0.0:0.0:0.0:1.0	.	651	O15211	RGL2_HUMAN	V	651;515	ENSP00000420211:I651V	ENSP00000400083:I515V	I	-	1	0	RGL2	33368827	1.000000	0.71417	0.998000	0.56505	0.992000	0.81027	5.349000	0.66010	1.937000	0.56155	0.523000	0.50628	ATC		0.597	RGL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076098.2			C	33260849	T	C	33260849	3	2	585	1	0	0	0	0	1	0	0	0	13290	1406	49	3	394	3	RGL2	6	33260849	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	5840832	33260849	137854218	41	34788										
NUDT3	11165	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	34309651	34309651	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	atgcatacctcctcacagacTtcacgaactgctgccacact	5	16	2	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr6:34309651T>G	ENST00000607016.1	-	2	509	c.198A>C	c.(196-198)gaA>gaC	p.E66D	RPS10-NUDT3_ENST00000605528.1_Missense_Mutation_p.E185D	NM_006703.3	NP_006694.1	O95989	NUDT3_HUMAN	nudix (nucleoside diphosphate linked moiety X)-type motif 3	66	Nudix hydrolase. {ECO:0000255|PROSITE- ProRule:PRU00794}.				cell-cell signaling (GO:0007267)|diadenosine polyphosphate catabolic process (GO:0015961)|diphosphoinositol polyphosphate catabolic process (GO:0071544)|inositol phosphate metabolic process (GO:0043647)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	diphosphoinositol-polyphosphate diphosphatase activity (GO:0008486)|inositol diphosphate tetrakisphosphate diphosphatase activity (GO:0052840)|inositol-1,5-bisdiphosphate-2,3,4,6-tetrakisphosphate 1-diphosphatase activity (GO:0052846)|inositol-1,5-bisdiphosphate-2,3,4,6-tetrakisphosphate 5-diphosphatase activity (GO:0052847)|inositol-1-diphosphate-2,3,4,5,6-pentakisphosphate diphosphatase activity (GO:0052843)|inositol-3,5-bisdiphosphate-2,3,4,6-tetrakisphosphate 5-diphosphatase activity (GO:0052848)|inositol-3-diphosphate-1,2,4,5,6-pentakisphosphate diphosphatase activity (GO:0052844)|inositol-5-diphosphate-1,2,3,4,6-pentakisphosphate diphosphatase activity (GO:0052845)|magnesium ion binding (GO:0000287)			lung(2)	2						CCTCACAGACTTCACGAACTG	0.532																																					GBM(96;1206 1939 18658 39482)											0													155	119	131					6																	34309651		2203	4300	6503	SO:0001583	missense	0			AF062530	CCDS4791.1	6p21.2	2014-07-16			ENSG00000272325	ENSG00000272325		"Nudix motif containing"	8050	protein-coding gene	gene with protein product		609228				9822604	Standard	NM_006703		Approved	DIPP		O95989	OTTHUMG00000014545	ENST00000607016.1:c.198A>C	6.37:g.34309651T>G	ENSP00000476119:p.Glu66Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8N4	Missense_Mutation	SNP	ENST00000607016.1	37	CCDS4791.1	.	.	.	.	.	.	.	.	.	.	T	26.3	4.725873	0.89298	.	.	ENSG00000112664	ENST00000358797	T	0.29917	1.55	5.66	4.5	0.54988	NUDIX hydrolase domain (3);NUDIX hydrolase, conserved site (1);NUDIX hydrolase domain-like (1);	0.000000	0.85682	D	0.000000	T	0.65428	0.2690	H	0.99415	4.555	0.80722	D	1	P	0.48589	0.912	D	0.75020	0.985	T	0.76889	-0.2792	10	0.87932	D	0	-14.5823	10.5134	0.44874	0.0:0.0772:0.0:0.9228	.	66	O95989	NUDT3_HUMAN	D	66	ENSP00000351650:E66D	ENSP00000351650:E66D	E	-	3	2	NUDT3	34417629	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	2.537000	0.45702	0.989000	0.38761	0.477000	0.44152	GAA		0.532	NUDT3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040224.2			G	34309651	T	G	34309651	3	3	585	1	0	0	0	0	1	0	0	0	10747	1606	56	5	336	5	NUDT3	6	34309651	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	1048802	34309651	136805416	42	34789										
ENPP4	22875	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	46108114	46108114	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	atactacactcttatagattTgagcccagttgctgcaatac	6	10	1	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr6:46108114T>G	ENST00000321037.4	+	2	1024	c.794T>G	c.(793-795)tTg>tGg	p.L265W		NM_014936.4	NP_055751.1	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase 4 (putative)	265					blood coagulation (GO:0007596)|positive regulation of blood coagulation (GO:0030194)|purine ribonucleoside catabolic process (GO:0046130)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	bis(5'-adenosyl)-triphosphatase activity (GO:0047710)|metal ion binding (GO:0046872)			central_nervous_system(1)|large_intestine(2)|lung(7)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	18						CTTATAGATTTGAGCCCAGTT	0.418																																																0													79	78	79					6																	46108114		2203	4300	6503	SO:0001583	missense	22875			AB020686	CCDS34468.1	6p12.3	2010-06-24	2010-06-24		ENSG00000001561	ENSG00000001561			3359	protein-coding gene	gene with protein product						11027689	Standard	NM_014936		Approved	NPP4, KIAA0879	uc003oxy.3	Q9Y6X5	OTTHUMG00000014779	ENST00000321037.4:c.794T>G	6.37:g.46108114T>G	ENSP00000318066:p.Leu265Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5G1|Q7L2N1	Missense_Mutation	SNP	ENST00000321037.4	37	CCDS34468.1	.	.	.	.	.	.	.	.	.	.	T	9.575	1.121947	0.20877	.	.	ENSG00000001561	ENST00000321037;ENST00000371401	T	0.72394	-0.65	5.67	1.87	0.25490	Alkaline-phosphatase-like, core domain (1);	0.743246	0.13551	N	0.379453	T	0.33411	0.0862	L	0.41710	1.295	0.24368	N	0.994846	B	0.14438	0.01	B	0.21917	0.037	T	0.20240	-1.0281	10	0.37606	T	0.19	-1.2896	0.3197	0.00301	0.2449:0.1895:0.2931:0.2725	.	265	Q9Y6X5	ENPP4_HUMAN	W	265	ENSP00000318066:L265W	ENSP00000318066:L265W	L	+	2	0	ENPP4	46216073	0.000000	0.05858	0.992000	0.48379	0.972000	0.66771	-0.065000	0.11617	0.400000	0.25396	0.533000	0.62120	TTG		0.418	ENPP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040777.2			G	46108114	T	G	46108114	3	3	585	1	0	0	0	0	1	0	0	0	5134	1821	63	5	796	5	ENPP4	6	46108114	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	11798463	46108114	125006953	43	34790										
DOPEY1	23033	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	83862020	83862020	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tttatagatatgttatcaccTgcaatggaaaccgcaaacat	6	8	1	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr6:83862020T>A	ENST00000349129.2	+	30	6323	c.6063T>A	c.(6061-6063)ccT>ccA	p.P2021P	DOPEY1_ENST00000484282.1_3'UTR|DOPEY1_ENST00000237163.5_Intron|DOPEY1_ENST00000369739.3_Silent_p.P2012P	NM_015018.3	NP_055833.2	Q5JWR5	DOP1_HUMAN	dopey family member 1	2021					protein transport (GO:0015031)					breast(4)|central_nervous_system(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(15)|lung(16)|ovary(5)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(2)	67		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		TGTTATCACCTGCAATGGAAA	0.313																																																0													59	59	59					6																	83862020		2203	4292	6495	SO:0001819	synonymous_variant	23033			AK027030	CCDS4996.1, CCDS64467.1	6q15	2013-03-05	2006-02-02	2006-02-02	ENSG00000083097	ENSG00000083097			21194	protein-coding gene	gene with protein product			"KIAA1117"	KIAA1117		16301316, 16303751, 10931277	Standard	NM_015018		Approved	dJ202D23.2	uc011dyy.2	Q5JWR5	OTTHUMG00000016365	ENST00000349129.2:c.6063T>A	6.37:g.83862020T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q86XV1|Q9H5J5|Q9NSL4|Q9UPN5|Q9Y414	Silent	SNP	ENST00000349129.2	37	CCDS4996.1																																																																																				0.313	DOPEY1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043785.2	NM_015018		A	83862020	T	A	83862020	2	1	585	1	0	0	0	0	0	0	0	1	4709	1567	55	5		5	DOPEY1	6	83862020	Silent	SNP	T	TCGA-EV-5903-01A-11D-1589-08	37753906	83862020	87253047	44	34791										
CDC40	51362	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	110528715	110528715	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ttttttgctttcaggttatgCattagacccttcattagata	6	7	2	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr6:110528715C>T	ENST00000368932.1	+	5	514	c.413C>T	c.(412-414)gCa>gTa	p.A138V	CDC40_ENST00000368930.1_Missense_Mutation_p.A138V|CDC40_ENST00000307731.1_Missense_Mutation_p.A138V			O60508	PRP17_HUMAN	cell division cycle 40	138					gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA export from nucleus (GO:0006406)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	catalytic step 2 spliceosome (GO:0071013)|nucleoplasm (GO:0005654)|spliceosomal complex (GO:0005681)	poly(A) RNA binding (GO:0044822)			breast(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(4)|lung(7)|prostate(1)|skin(1)	18		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		TCAGGTTATGCATTAGACCCT	0.249																																																0													98	107	104					6																	110528715		2203	4295	6498	SO:0001583	missense	51362			AF015044	CCDS5081.1	6q22.1	2013-01-17	2013-01-17		ENSG00000168438	ENSG00000168438		"WD repeat domain containing"	17350	protein-coding gene	gene with protein product		605585	"cell division cycle 40 homolog (yeast)", "cell division cycle 40 homolog (S. cerevisiae)"			9769104, 9830021	Standard	NM_015891		Approved	PRP17, EHB3, PRPF17, FLJ10564	uc003pua.3	O60508	OTTHUMG00000015358	ENST00000368932.1:c.413C>T	6.37:g.110528715C>T	ENSP00000357928:p.Ala138Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBC5|O75471|Q5SRN0|Q9UPG1	Missense_Mutation	SNP	ENST00000368932.1	37	CCDS5081.1	.	.	.	.	.	.	.	.	.	.	C	34	5.333199	0.95758	.	.	ENSG00000168438	ENST00000368932;ENST00000368933;ENST00000368930;ENST00000307731;ENST00000439165;ENST00000453107	T;T;T;T	0.67171	-0.09;-0.25;-0.25;-0.09	5.75	5.75	0.90469	.	0.000000	0.85682	D	0.000000	T	0.79405	0.4440	M	0.86805	2.84	0.80722	D	1	D	0.67145	0.996	P	0.55965	0.788	T	0.82794	-0.0281	10	0.87932	D	0	-9.413	19.9384	0.97150	0.0:1.0:0.0:0.0	.	138	O60508	PRP17_HUMAN	V	138;138;138;138;138;35	ENSP00000357928:A138V;ENSP00000357929:A138V;ENSP00000357926:A138V;ENSP00000304370:A138V	ENSP00000304370:A138V	A	+	2	0	CDC40	110635408	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.252000	0.78309	2.717000	0.92951	0.585000	0.79938	GCA		0.249	CDC40-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041791.1	NM_015891		T	110528715	C	T	110528715	3	4	585	1	0	0	0	0	1	0	0	0	3072	710	25	2	427	2	CDC40	6	110528715	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08	26666695	110528715	60586352	45	34792										
SLC16A10	117247	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	111409219	111409219	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gggtcggtgttcggcatccaGaacgcttgcggggtgctctt	16	10	1	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr6:111409219G>T	ENST00000368851.5	+	1	439	c.264G>T	c.(262-264)caG>caT	p.Q88H		NM_018593.4	NP_061063.2	Q8TF71	MOT10_HUMAN	solute carrier family 16 (aromatic amino acid transporter), member 10	88					amino acid transport (GO:0006865)|aromatic amino acid transport (GO:0015801)|ion transport (GO:0006811)|transmembrane transport (GO:0055085)	basolateral plasma membrane (GO:0016323)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|prostate(2)	12		all_cancers(87;0.00172)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0313)|Colorectal(196;0.0466)		OV - Ovarian serous cystadenocarcinoma(136;0.0703)|Epithelial(106;0.12)|all cancers(137;0.132)	Droxidopa(DB06262)|Glycine(DB00145)|L-Alanine(DB00160)|L-Arginine(DB00125)|L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)|L-Cysteine(DB00151)|L-Cystine(DB00138)|L-DOPA(DB01235)|L-Glutamine(DB00130)|L-Histidine(DB00117)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|L-Lysine(DB00123)|L-Methionine(DB00134)|L-Phenylalanine(DB00120)|L-Proline(DB00172)|L-Serine(DB00133)|L-Threonine(DB00156)|L-Tryptophan(DB00150)|L-Tyrosine(DB00135)|L-Valine(DB00161)|Liothyronine(DB00279)|Liotrix(DB01583)|Pyruvic acid(DB00119)	TCGGCATCCAGAACGCTTGCG	0.662																																																0													51	41	44					6																	111409219		2203	4299	6502	SO:0001583	missense	117247			AF116652	CCDS5089.1	6q21-q22	2014-01-28	2013-07-18		ENSG00000112394	ENSG00000112394		"Solute carriers"	17027	protein-coding gene	gene with protein product		607550	"solute carrier family 16 (monocarboxylic acid transporters), member 10"			11278508, 11827462	Standard	NM_018593		Approved	TAT1, MCT10	uc003pus.3	Q8TF71	OTTHUMG00000015371	ENST00000368851.5:c.264G>T	6.37:g.111409219G>T	ENSP00000357844:p.Gln88His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWY0|Q6ZMG0|Q8WVI5	Missense_Mutation	SNP	ENST00000368851.5	37	CCDS5089.1	.	.	.	.	.	.	.	.	.	.	G	19.54	3.846966	0.71603	.	.	ENSG00000112394	ENST00000535637;ENST00000368851	T	0.59364	0.27	3.79	3.79	0.43588	Major facilitator superfamily domain, general substrate transporter (1);	0.071282	0.64402	D	0.000016	T	0.33876	0.0878	N	0.13235	0.315	0.80722	D	1	P;B	0.42375	0.778;0.339	P;B	0.44647	0.456;0.134	T	0.37526	-0.9702	10	0.44086	T	0.13	.	15.8498	0.78921	0.0:0.0:1.0:0.0	.	88;88	Q8TF71;Q05BR4	MOT10_HUMAN;.	H	88	ENSP00000357844:Q88H	ENSP00000357844:Q88H	Q	+	3	2	SLC16A10	111515912	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	8.303000	0.89955	1.950000	0.56595	0.448000	0.29417	CAG		0.662	SLC16A10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041822.2			T	111409219	G	T	111409219	3	4	585	1	0	0	0	0	1	0	0	0	14416	933	33	4	266	4	SLC16A10	6	111409219	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	880504	111409219	59705848	46	34793										
MAP7	9053	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	136693761	136693761	+	Frame_Shift_Del	DEL	A	A	-													0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	catgatgatggggctgcaagAtgctgaacgaggacaaatgg							TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr6:136693761delA	ENST00000354570.3	-	8	1164	c.754delT	c.(754-756)tctfs	p.S252fs	MAP7_ENST00000438100.2_Frame_Shift_Del_p.S237fs|MAP7_ENST00000544465.1_Frame_Shift_Del_p.S237fs|MAP7_ENST00000432797.2_Frame_Shift_Del_p.S106fs|MAP7_ENST00000454590.1_Frame_Shift_Del_p.S274fs	NM_001198616.1|NM_001198617.1|NM_001198619.1|NM_003980.4	NP_001185545.1|NP_001185546.1|NP_001185548.1|NP_003971.1	Q14244	MAP7_HUMAN	microtubule-associated protein 7	252					cell morphogenesis (GO:0000902)|cell proliferation (GO:0008283)|establishment or maintenance of cell polarity (GO:0007163)|fertilization (GO:0009566)|germ cell development (GO:0007281)|glycosphingolipid metabolic process (GO:0006687)|homeostasis of number of cells (GO:0048872)|Leydig cell differentiation (GO:0033327)|microtubule bundle formation (GO:0001578)|microtubule cytoskeleton organization (GO:0000226)|nucleus organization (GO:0006997)|organ growth (GO:0035265)|protein localization to plasma membrane (GO:0072659)|response to osmotic stress (GO:0006970)|response to retinoic acid (GO:0032526)|Sertoli cell development (GO:0060009)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|microtubule cytoskeleton (GO:0015630)|plasma membrane (GO:0005886)	receptor binding (GO:0005102)|structural molecule activity (GO:0005198)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(10)|lung(11)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	33	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00199)|OV - Ovarian serous cystadenocarcinoma(155;0.00643)		GGGCTGCAAGATGCTGAACGA	0.488																																																0													175	153	161					6																	136693761		2203	4300	6503	SO:0001589	frameshift_variant	9053			X73882	CCDS5178.1, CCDS56452.1, CCDS56453.1, CCDS56454.1, CCDS56455.1, CCDS75527.1, CCDS75528.1, CCDS75529.1	6q23.2	2008-07-28			ENSG00000135525	ENSG00000135525			6869	protein-coding gene	gene with protein product		604108				8408219	Standard	NM_003980		Approved	E-MAP-115	uc011edg.2	Q14244	OTTHUMG00000015646	ENST00000354570.3:c.754delT	6.37:g.136693761delA	ENSP00000346581:p.Ser252fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z290|B7Z400|B7Z5S7|B7Z9U7|C9JPS0|E9PCP3|F5H1E2|Q7Z6S0|Q8TAU5|Q9NY82|Q9NY83	Frame_Shift_Del	DEL	ENST00000354570.3	37	CCDS5178.1																																																																																				0.488	MAP7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042382.2	NM_003980		-	136693761	A	-	136693761	7	5	585	1	0	1	0	1	0	0	0	0	9273	333	12	0	1539	0	MAP7	6	136693761	Frame_Shift_Del	DEL	A	TCGA-EV-5903-01A-11D-1589-08	25284542	136693761	34421306	47	34794										
SHPRH	257218	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	146264642	146264642	+	Frame_Shift_Del	DEL	T	T	-													0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cagtcctctgtttcatgttcTtggttgaattcagagataca							TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr6:146264642delT	ENST00000367505.2	-	9	2139	c.1875delA	c.(1873-1875)caafs	p.Q625fs	SHPRH_ENST00000367503.3_Frame_Shift_Del_p.Q625fs|SHPRH_ENST00000275233.7_Frame_Shift_Del_p.Q625fs|SHPRH_ENST00000438092.2_Frame_Shift_Del_p.Q625fs			Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase, E3 ubiquitin protein ligase	625					DNA repair (GO:0006281)|nucleosome assembly (GO:0006334)|protein polyubiquitination (GO:0000209)	nucleosome (GO:0000786)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(15)|lung(33)|ovary(3)|pancreas(2)|prostate(7)|skin(1)|urinary_tract(1)	79		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		TTTCATGTTCTTGGTTGAATT	0.408																																																0													196	183	187					6																	146264642		1952	4153	6105	SO:0001589	frameshift_variant	257218			AB095943	CCDS43513.1, CCDS47496.1, CCDS43513.2	6q24.2	2012-02-23	2012-02-23		ENSG00000146414	ENSG00000146414		"RING-type (C3HC4) zinc fingers"	19336	protein-coding gene	gene with protein product		608048	"SNF2 histone linker PHD RING helicase"			12837266	Standard	NM_001042683		Approved	FLJ90837, KIAA2023, bA545I5.2	uc003qlf.3	Q149N8	OTTHUMG00000015750	ENST00000367505.2:c.1875delA	6.37:g.146264642delT	ENSP00000356475:p.Gln625fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q149N9|Q5VV79|Q68DS5|Q7Z5J5|Q8IVE8|Q8IWQ9|Q8N1S8|Q8NBR7	Frame_Shift_Del	DEL	ENST00000367505.2	37	CCDS43513.2																																																																																				0.408	SHPRH-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000042571.2	NM_173082		-	146264642	T	-	146264642	7	5	585	1	0	1	0	1	0	0	0	0	14304	1606	56	0	3308	0	SHPRH	6	146264642	Frame_Shift_Del	DEL	T	TCGA-EV-5903-01A-11D-1589-08	9570881	146264642	24850425	48	34795										
C7orf27	221927	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	2587034	2587034	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	agaaggagaggaccccagaaCtcaggtcctggactttcagc	12	11	2	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr7:2587034C>G	ENST00000340611.4	-	3	462	c.206G>C	c.(205-207)aGt>aCt	p.S69T		NM_152743.3	NP_689956.2	Q6PJG6	BRAT1_HUMAN	BRCA1-associated ATM activator 1	69					response to ionizing radiation (GO:0010212)	membrane (GO:0016020)|nucleus (GO:0005634)				breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(3)|lung(7)|ovary(1)|pancreas(1)|skin(2)|urinary_tract(1)	23						GACCCCAGAACTCAGGTCCTG	0.622																																																0													85	79	81					7																	2587034		2203	4300	6503	SO:0001583	missense	221927			BC015632	CCDS5334.1	7p22.3	2011-03-22	2011-02-28	2011-03-22	ENSG00000106009	ENSG00000106009			21701	protein-coding gene	gene with protein product	"BRCA1-associated protein required for ATM activation protein 1"	614506	"chromosome 7 open reading frame 27"	C7orf27, BAAT1		16452482	Standard	NM_152743		Approved	MGC22916	uc003smi.3	Q6PJG6	OTTHUMG00000119091	ENST00000340611.4:c.206G>C	7.37:g.2587034C>G	ENSP00000339637:p.Ser69Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A4D200|C9JY24|Q8IW85|Q8IZ43|Q8WVR8|Q96IV9|Q9H7J8|Q9UFA3	Missense_Mutation	SNP	ENST00000340611.4	37	CCDS5334.1	.	.	.	.	.	.	.	.	.	.	C	9.253	1.041205	0.19669	.	.	ENSG00000106009	ENST00000340611	T	0.71103	-0.54	5.01	4.11	0.48088	Armadillo-type fold (1);	0.211492	0.47093	D	0.000255	T	0.68091	0.2963	M	0.72118	2.19	0.09310	N	1	B;P	0.46987	0.184;0.888	B;B	0.42163	0.208;0.378	T	0.66705	-0.5856	10	0.59425	D	0.04	-13.2539	9.9258	0.41492	0.0:0.8427:0.0:0.1573	.	69;69	Q6PJG6-2;Q6PJG6	.;BRAT1_HUMAN	T	69	ENSP00000339637:S69T	ENSP00000339637:S69T	S	-	2	0	BRAT1	2553560	0.000000	0.05858	0.026000	0.17262	0.004000	0.04260	0.191000	0.17076	2.331000	0.79229	0.650000	0.86243	AGT		0.622	BRAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239305.2	NM_152743		G	2587034	C	G	2587034	3	3	585	1	0	0	0	0	1	0	0	0	2384	565	20	4	2307	4	C7orf27	7	2587034	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08		2587034	156551629	49	34796										
SCIN	85477	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	12679988	12679988	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tcagatccgagtctcccaagGcaaagagcctgttcacctac	8	14	3	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr7:12679988G>A	ENST00000297029.5	+	11	1528	c.1427G>A	c.(1426-1428)gGc>gAc	p.G476D	SCIN_ENST00000519209.1_Missense_Mutation_p.G229D|SCIN_ENST00000445618.2_Missense_Mutation_p.G229D	NM_001112706.2	NP_001106177.1	Q9Y6U3	ADSV_HUMAN	scinderin	476	Ca(2+)-dependent actin binding.			G -> D (in Ref. 1; AAK60494). {ECO:0000305}.	actin filament capping (GO:0051693)|actin filament severing (GO:0051014)|actin nucleation (GO:0045010)|calcium ion-dependent exocytosis (GO:0017156)|negative regulation of cell proliferation (GO:0008285)|positive regulation of apoptotic process (GO:0043065)|positive regulation of megakaryocyte differentiation (GO:0045654)|positive regulation of secretion (GO:0051047)|regulation of chondrocyte differentiation (GO:0032330)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|protein complex (GO:0043234)	1-phosphatidylinositol binding (GO:0005545)|actin binding (GO:0003779)|actin filament binding (GO:0051015)|calcium ion binding (GO:0005509)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|phosphatidylserine binding (GO:0001786)			endometrium(3)|kidney(1)|large_intestine(2)|lung(9)|ovary(2)	17				UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		GTCTCCCAAGGCAAAGAGCCT	0.428																																																0													54	52	53					7																	12679988		1843	4090	5933	SO:0001583	missense	85477			AF276507	CCDS47545.1, CCDS47546.1	7p21.3	2006-04-25			ENSG00000006747	ENSG00000006747			21695	protein-coding gene	gene with protein product		613416					Standard	NM_033128		Approved	adseverin, KIAA1905	uc003ssn.4	Q9Y6U3	OTTHUMG00000152385	ENST00000297029.5:c.1427G>A	7.37:g.12679988G>A	ENSP00000297029:p.Gly476Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2U8|Q8NBZ6|Q8WU97|Q96JC7|Q96PY2	Missense_Mutation	SNP	ENST00000297029.5	37	CCDS47545.1	.	.	.	.	.	.	.	.	.	.	G	23.6	4.435588	0.83885	.	.	ENSG00000006747	ENST00000297029;ENST00000519209;ENST00000445618	T;T;T	0.27256	1.68;1.68;1.68	4.56	4.56	0.56223	Gelsolin domain (1);	0.000000	0.85682	D	0.000000	T	0.58779	0.2146	M	0.88906	2.99	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.69807	-0.5045	10	0.87932	D	0	-12.3981	17.3228	0.87240	0.0:0.0:1.0:0.0	.	476	Q9Y6U3	ADSV_HUMAN	D	476;229;229	ENSP00000297029:G476D;ENSP00000430997:G229D;ENSP00000390189:G229D	ENSP00000297029:G476D	G	+	2	0	SCIN	12646513	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	9.476000	0.97823	2.069000	0.61940	0.561000	0.74099	GGC		0.428	SCIN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000326041.1	NM_033128		A	12679988	G	A	12679988	3	1	585	1	0	0	0	0	1	0	0	0	13918	1203	42	2	1469	2	SCIN	7	12679988	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	10092954	12679988	146458675	50	34797										
DNAH11	8701	ucsc.edu;bcgsc.ca	37	chr7	21784089	21784089	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cttctcctgagtgtttaaaaGgtccacttgatttaatacat	6	8	1	2	rs28549882	byFrequency	TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr7:21784089G>A	ENST00000409508.3	+	50	8219	c.8188G>A	c.(8188-8190)Ggt>Agt	p.G2730S	DNAH11_ENST00000328843.6_Missense_Mutation_p.G2737S	NM_001277115.1	NP_001264044.1	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2737					microtubule-based movement (GO:0007018)	cilium (GO:0005929)|cytoplasm (GO:0005737)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(1)|autonomic_ganglia(1)|breast(13)|central_nervous_system(3)|cervix(4)|endometrium(18)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(50)|lung(101)|ovary(10)|pancreas(4)|prostate(7)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	230						GTGTTTAAAAGGTCCACTTGA	0.363									Kartagener syndrome																																							0													246	238	241					7																	21784089		1834	4086	5920	SO:0001583	missense	8701	Familial Cancer Database	Ciliary Dyskinesia, Primary (CILD1 - CILD13), Immotile Cilia Syndrome	U83569	CCDS64602.1	7p21	2008-07-18	2006-09-04					"Axonemal dyneins"	2942	protein-coding gene	gene with protein product	"dynein, ciliary, heavy chain 11", "dynein, heavy chain beta-like"	603339	"dynein, axonemal, heavy polypeptide 11"			9256245	Standard	NM_001277115		Approved	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL	uc031swp.1	Q96DT5		ENST00000409508.3:c.8188G>A	7.37:g.21784089G>A	ENSP00000475939:p.Gly2730Ser	Somatic		WXS	Illumina HiSeq		Q9UJ82	Missense_Mutation	SNP	ENST00000409508.3	37		.	.	.	.	.	.	.	.	.	.	G	0.044	-1.273480	0.01421	.	.	ENSG00000105877	ENST00000328843	T	0.37235	1.21	5.91	0.806	0.18708	.	1.549630	0.03077	N	0.158047	T	0.14485	0.0350	.	.	.	0.09310	N	1	B	0.06786	0.001	B	0.10450	0.005	T	0.17868	-1.0355	9	0.05959	T	0.93	.	1.7176	0.02905	0.142:0.2088:0.3289:0.3203	.	2737	Q96DT5	DYH11_HUMAN	S	2737	ENSP00000330671:G2737S	ENSP00000330671:G2737S	G	+	1	0	DNAH11	21750614	0.003000	0.15002	0.005000	0.12908	0.289000	0.27227	0.518000	0.22847	-0.133000	0.11537	-0.140000	0.14226	GGT		0.363	DNAH11-001	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000326582.6	NM_003777		A	21784089	G	A	21784089	3	1	585	1	0	0	0	0	1	0	0	0	4601	1000	35	2	8408	2	DNAH11	7	21784089	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	9104101	21784089	137354574	51	34798										
FBXO24	26261	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	100187679	100187679	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	aggaaatccgatttccatccAgttgttccccccagagctgg	9	13	0	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr7:100187679A>C	ENST00000241071.6	+	2	441	c.119A>C	c.(118-120)cAg>cCg	p.Q40P	FBXO24_ENST00000427939.2_Missense_Mutation_p.Q78P|FBXO24_ENST00000468962.1_Missense_Mutation_p.Q28P|PCOLCE-AS1_ENST00000544873.1_RNA|FBXO24_ENST00000465843.1_Missense_Mutation_p.Q40P|PCOLCE-AS1_ENST00000442166.2_RNA|FBXO24_ENST00000360609.2_Missense_Mutation_p.Q40P|FBXO24_ENST00000498195.1_3'UTR	NM_033506.2	NP_277041.1	O75426	FBX24_HUMAN	F-box protein 24	40	F-box. {ECO:0000255|PROSITE- ProRule:PRU00080}.				protein ubiquitination (GO:0016567)	ubiquitin ligase complex (GO:0000151)	ubiquitin-protein transferase activity (GO:0004842)			NS(2)|breast(2)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(3)|ovary(3)|skin(4)|urinary_tract(2)	28	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					ATTTCCATCCAGTTGTTCCCC	0.557																																																0													72	68	69					7																	100187679		2203	4300	6503	SO:0001583	missense	26261			AF174604	CCDS5698.1, CCDS5699.1, CCDS5699.2, CCDS55138.1	7q22	2005-10-07	2004-06-15		ENSG00000106336	ENSG00000106336		"F-boxes /  "other""	13595	protein-coding gene	gene with protein product		609097	"F-box only protein 24"			10531035, 10531037	Standard	NM_012172		Approved	FBX24	uc011kjz.1	O75426	OTTHUMG00000159543	ENST00000241071.6:c.119A>C	7.37:g.100187679A>C	ENSP00000241071:p.Gln40Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2D4|B4DX91|B4DY42|Q9H0G1	Missense_Mutation	SNP	ENST00000241071.6	37	CCDS5698.1	.	.	.	.	.	.	.	.	.	.	A	16.14	3.038493	0.55003	.	.	ENSG00000106336	ENST00000461079;ENST00000241071;ENST00000360609;ENST00000465843;ENST00000466053;ENST00000468962;ENST00000427939	T;T;T;T;T;T;T	0.54279	0.58;0.58;0.58;0.58;0.58;0.58;0.58	4.67	4.67	0.58626	F-box domain, cyclin-like (2);F-box domain, Skp2-like (1);	0.000000	0.48767	D	0.000177	T	0.45034	0.1322	N	0.03194	-0.395	0.38008	D	0.93445	D;D;D;P	0.67145	0.996;0.996;0.996;0.952	P;P;P;P	0.62089	0.898;0.898;0.898;0.536	T	0.59815	-0.7383	10	0.87932	D	0	-5.3735	10.4753	0.44661	1.0:0.0:0.0:0.0	.	28;78;40;40	B4DY42;B4DX91;O75426;O75426-2	.;.;FBX24_HUMAN;.	P	63;40;40;40;45;28;78	ENSP00000419587:Q63P;ENSP00000241071:Q40P;ENSP00000353821:Q40P;ENSP00000419602:Q40P;ENSP00000417179:Q45P;ENSP00000420239:Q28P;ENSP00000416558:Q78P	ENSP00000241071:Q40P	Q	+	2	0	FBXO24	100025615	1.000000	0.71417	1.000000	0.80357	0.789000	0.44602	4.861000	0.62969	1.968000	0.57251	0.449000	0.29647	CAG		0.557	FBXO24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356104.1			C	100187679	A	C	100187679	3	2	585	1	0	0	0	0	1	0	0	0	5742	188	7	5	282	5	FBXO24	7	100187679	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	78403590	100187679	58950984	52	34799										
IMMP2L	83943	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	111127299	111127299	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ttctgagttacttacaccaaTgatacaatgtcaccacggtg	7	10	2	2	rs201012120		TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr7:111127299T>A	ENST00000405709.2	-	3	676	c.234A>T	c.(232-234)tcA>tcT	p.S78S	IMMP2L_ENST00000415362.1_Silent_p.S78S|IMMP2L_ENST00000331762.3_Silent_p.S78S|IMMP2L_ENST00000452895.1_Silent_p.S78S|IMMP2L_ENST00000437687.1_Silent_p.S78S|IMMP2L_ENST00000447215.1_Silent_p.S78S	NM_032549.3	NP_115938.1	Q96T52	IMP2L_HUMAN	IMP2 inner mitochondrial membrane peptidase-like (S. cerevisiae)	78					ovarian follicle development (GO:0001541)|ovulation (GO:0030728)|protein processing involved in protein targeting to mitochondrion (GO:0006627)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)|mitochondrial inner membrane peptidase complex (GO:0042720)	peptidase activity (GO:0008233)|serine-type peptidase activity (GO:0008236)			endometrium(3)|large_intestine(6)|lung(5)	14				UCEC - Uterine corpus endometrioid carcinoma (4;0.053)|Epithelial(3;2.27e-07)|all cancers(3;1.36e-05)|STAD - Stomach adenocarcinoma(3;0.00148)|KIRC - Kidney renal clear cell carcinoma(11;0.0339)|Lung(3;0.0375)|Kidney(11;0.0415)|LUSC - Lung squamous cell carcinoma(290;0.173)		CTTACACCAATGATACAATGT	0.363																																																0													102	99	100					7																	111127299		2203	4300	6503	SO:0001819	synonymous_variant	83943			AF359563	CCDS5753.1	7q31	2014-01-06	2005-08-17		ENSG00000184903	ENSG00000184903			14598	protein-coding gene	gene with protein product		605977	"IMP2 inner mitochondrial membrane protease-like (S. cerevisiae)", "IMMP2L intronic transcript 1 (non-protein coding)"	IMMP2L-IT1		11254443	Standard	NM_032549		Approved	IMP2	uc010ljr.2	Q96T52	OTTHUMG00000155023	ENST00000405709.2:c.234A>T	7.37:g.111127299T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q75MF1|Q75MN9|Q75MP0|Q75MS5|Q75MS8|Q96HJ2	Silent	SNP	ENST00000405709.2	37	CCDS5753.1																																																																																				0.363	IMMP2L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338109.4	NM_032549		A	111127299	T	A	111127299	2	1	585	1	0	0	0	0	0	0	0	1	7724	1451	51	5		5	IMMP2L	7	111127299	Silent	SNP	T	TCGA-EV-5903-01A-11D-1589-08	10939620	111127299	48011364	53	34800										
SSPO	23145	hgsc.bcm.edu;broad.mit.edu	37	chr7	149509420	149509420	+	RNA	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gagctgtgggggaggcctgcGgagccggacccgggcctgtg	21	11	0	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr7:149509420G>A	ENST00000378016.2	+	0	9818							A2VEC9	SSPO_HUMAN	SCO-spondin						cell adhesion (GO:0007155)	extracellular space (GO:0005615)	peptidase inhibitor activity (GO:0030414)					Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GGAGGCCTGCGGAGCCGGACC	0.726																																																0													6	7	7					7																	149509420		1692	3840	5532			23145			AK093431		7q36.1	2013-08-07	2013-08-06		ENSG00000197558	ENSG00000197558			21998	protein-coding gene	gene with protein product	"subcommissural organ spondin", "SCO protein, thrombospondin domain containing"		"SCO-spondin homolog (Bos taurus)"			8743952, 11008217	Standard	NM_198455		Approved	SCO-spondin, KIAA0543, FLJ36112	uc010lpk.3	A2VEC9	OTTHUMG00000157884		7.37:g.149509420G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q76B61	Missense_Mutation	SNP	ENST00000378016.2	37																																																																																					0.726	SSPO-202	KNOWN	basic	processed_transcript	processed_transcript				A	149509420	G	A	149509420	1	1	585	0	1	0	0	0	0	0	0	0	15201	1116	39	1		1	SSPO	7	149509420	RNA	SNP	G	TCGA-EV-5903-01A-11D-1589-08	38382121	149509420	9629243	54	34801										
ATP6V1B2	526	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	20068802	20068802	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gcagaaaattcctatcttctCtgctgctgggctaccacaca	7	13	2	1	rs374210970		TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr8:20068802C>T	ENST00000276390.2	+	6	618	c.578C>T	c.(577-579)tCt>tTt	p.S193F		NM_001693.3	NP_001684.2	P21281	VATB2_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B2	193					ATP hydrolysis coupled proton transport (GO:0015991)|cellular iron ion homeostasis (GO:0006879)|insulin receptor signaling pathway (GO:0008286)|interaction with host (GO:0051701)|phagosome maturation (GO:0090382)|proton transport (GO:0015992)|transferrin transport (GO:0033572)|transmembrane transport (GO:0055085)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal membrane (GO:0005765)|microvillus (GO:0005902)|plasma membrane (GO:0005886)|proton-transporting V-type ATPase, V1 domain (GO:0033180)|ruffle (GO:0001726)	ATP binding (GO:0005524)|hydrogen ion transmembrane transporter activity (GO:0015078)|proton-transporting ATPase activity, rotational mechanism (GO:0046961)			endometrium(1)|kidney(2)|lung(5)|prostate(1)	9				Colorectal(74;0.0535)|COAD - Colon adenocarcinoma(73;0.211)	Gallium nitrate(DB05260)	CCTATCTTCTCTGCTGCTGGG	0.453																																					Pancreas(119;1230 1726 3901 4036 31644)											0													110	98	102					8																	20068802		2203	4300	6503	SO:0001583	missense	526			L35249	CCDS6014.1	8p21.3	2010-04-21	2006-01-13	2002-05-10	ENSG00000147416	ENSG00000147416	3.6.3.14	"ATPases / V-type"	854	protein-coding gene	gene with protein product		606939	"ATPase, H+ transporting, lysosomal (vacuolar proton pump), beta polypeptide, 56/58kD, isoform 2", "ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 2"	VPP3, ATP6B2		2145275, 14580332	Standard	NM_001693		Approved	VATB, Vma2, HO57	uc003wzp.3	P21281	OTTHUMG00000131073	ENST00000276390.2:c.578C>T	8.37:g.20068802C>T	ENSP00000276390:p.Ser193Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5Z3|D3DSQ5|Q14544|Q15859|Q96IR0	Missense_Mutation	SNP	ENST00000276390.2	37	CCDS6014.1	.	.	.	.	.	.	.	.	.	.	C	33	5.203929	0.95033	.	.	ENSG00000147416	ENST00000276390;ENST00000542368	D	0.83250	-1.7	5.65	5.65	0.86999	ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding domain (1);	0.097834	0.64402	D	0.000001	D	0.92519	0.7624	M	0.86573	2.825	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.93134	0.6535	10	0.87932	D	0	-15.587	18.6584	0.91463	0.0:1.0:0.0:0.0	.	193	P21281	VATB2_HUMAN	F	193;67	ENSP00000276390:S193F	ENSP00000276390:S193F	S	+	2	0	ATP6V1B2	20113082	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.040000	0.70980	2.822000	0.97130	0.650000	0.86243	TCT		0.453	ATP6V1B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253732.1	NM_001693		T	20068802	C	T	20068802	3	4	585	1	0	0	0	0	1	0	0	0	1179	913	32	2	600	2	ATP6V1B2	8	20068802	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08		20068802	126295220	55	34802										
SFTPC	649	bcgsc.ca	37	chr8	22020986	22020986	+	5'Flank	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gccagcccctggcacctgctGctacatcatgaagatagctc	9	15	1	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr8:22020986G>T	ENST00000306385.5	+	0	0				SFTPC_ENST00000521315.1_Missense_Mutation_p.C121F|BMP1_ENST00000397816.3_5'Flank|SFTPC_ENST00000318561.3_Missense_Mutation_p.C121F|BMP1_ENST00000306349.8_5'Flank|SFTPC_ENST00000524255.1_Missense_Mutation_p.C68F|BMP1_ENST00000354870.5_5'Flank|SFTPC_ENST00000520605.1_Missense_Mutation_p.C68F|SFTPC_ENST00000437090.2_Missense_Mutation_p.C121F|SFTPC_ENST00000522109.1_Missense_Mutation_p.C121F|BMP1_ENST00000397814.3_5'Flank	NM_006129.4	NP_006120.1	P13497	BMP1_HUMAN	bone morphogenetic protein 1						cartilage condensation (GO:0001502)|cell differentiation (GO:0030154)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|lipoprotein metabolic process (GO:0042157)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|positive regulation of cartilage development (GO:0061036)|proteolysis (GO:0006508)|skeletal system development (GO:0001501)|small molecule metabolic process (GO:0044281)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|membrane-bounded vesicle (GO:0031988)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|peptidase activity (GO:0008233)|zinc ion binding (GO:0008270)			breast(1)|endometrium(7)|kidney(2)|large_intestine(7)|lung(7)|ovary(2)|prostate(1)|skin(3)	30				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		GGCACCTGCTGCTACATCATG	0.562																																																0													71	74	73					8																	22020986		1951	4169	6120	SO:0001631	upstream_gene_variant	6440				CCDS6026.1, CCDS34856.1	8p21	2013-02-06	2004-08-09		ENSG00000168487	ENSG00000168487	3.4.24.19	"Bone morphogenetic proteins"	1067	protein-coding gene	gene with protein product	"procollagen C-endopeptidase"	112264	"procollagen C-endopeptidase"	PCOLC		2004778	Standard	NM_006129		Approved		uc003xbg.3	P13497	OTTHUMG00000097761		8.37:g.22020986G>T	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_1	A8K6F5|B2RN46|D3DSR0|Q13292|Q13872|Q14874|Q99421|Q99422|Q99423|Q9UL38	Missense_Mutation	SNP	ENST00000306385.5	37	CCDS6026.1	.	.	.	.	.	.	.	.	.	.	G	21.8	4.197672	0.79015	.	.	ENSG00000168484	ENST00000318561;ENST00000521315;ENST00000437090;ENST00000520605;ENST00000522109;ENST00000524255;ENST00000523296	D;D;D;D;D;D;D	0.98531	-4.98;-4.98;-4.98;-4.98;-4.98;-4.98;-4.98	5.49	5.49	0.81192	BRICHOS (2);	0.000000	0.56097	D	0.000026	D	0.98682	0.9558	M	0.74881	2.28	0.49130	D	0.99975	D;D;D;D	0.76494	0.999;0.996;0.999;0.984	D;P;D;P	0.70716	0.97;0.908;0.97;0.876	D	0.99490	1.0950	10	0.87932	D	0	-27.3137	14.864	0.70401	0.0:0.0:1.0:0.0	.	121;121;121;121	E9PGX3;C9JYF6;P11686;E5RI92	.;.;PSPC_HUMAN;.	F	121;121;121;68;121;68;68	ENSP00000316152:C121F;ENSP00000430410:C121F;ENSP00000407931:C121F;ENSP00000430266:C68F;ENSP00000429496:C121F;ENSP00000429552:C68F;ENSP00000429619:C68F	ENSP00000316152:C121F	C	+	2	0	SFTPC	22076931	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	5.426000	0.66476	2.570000	0.86706	0.655000	0.94253	TGC		0.562	BMP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214995.2	NM_006132		T	22020986	G	T	22020986	1	4	585	0	1	0	0	0	0	0	0	0	14205	1319	46	4		4	SFTPC	8	22020986	5'Flank	SNP	G	TCGA-EV-5903-01A-11D-1589-08	1952184	22020986	124343036	56	34803										
PROSC	11212	broad.mit.edu	37	chr8	37630321	37630321	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	agtggattctgtgaagttggCagacaaagtgaacagttcct	12	6	1	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr8:37630321C>T	ENST00000328195.3	+	5	435	c.368C>T	c.(367-369)gCa>gTa	p.A123V		NM_007198.3	NP_009129.1	O94903	PROSC_HUMAN	proline synthetase co-transcribed homolog (bacterial)	123					alpha-amino acid metabolic process (GO:1901605)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|mitochondrion (GO:0005739)	pyridoxal phosphate binding (GO:0030170)			central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(2)|prostate(1)	7		Lung NSC(58;0.174)	BRCA - Breast invasive adenocarcinoma(5;6.14e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)		L-Proline(DB00172)	GTGAAGTTGGCAGACAAAGTG	0.438																																																0													128	121	123					8																	37630321		2203	4300	6503	SO:0001583	missense	11212			AB018566	CCDS6096.1	8p11.2	2008-01-07	2001-12-04		ENSG00000147471	ENSG00000147471			9457	protein-coding gene	gene with protein product		604436	"proline synthetase co-transcribed (bacterial homolog)"				Standard	NM_007198		Approved		uc003xkh.3	O94903	OTTHUMG00000164024	ENST00000328195.3:c.368C>T	8.37:g.37630321C>T	ENSP00000333551:p.Ala123Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FI94	Missense_Mutation	SNP	ENST00000328195.3	37	CCDS6096.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	35|35	5.544535|5.544535	0.96488|0.96488	.|.	.|.	ENSG00000147471|ENSG00000147471	ENST00000328195;ENST00000523358;ENST00000523187;ENST00000523521|ENST00000521494	T;T;T;T|.	0.52526|.	0.66;0.66;0.66;0.66|.	5.96|5.96	5.96|5.96	0.96718|0.96718	Alanine racemase, N-terminal (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	D|.	0.83482|.	0.5264|.	M|M	0.84433|0.84433	2.695|2.695	0.80722|0.80722	D|D	1|1	D|.	0.60575|.	0.988|.	D|.	0.75484|.	0.986|.	D|.	0.83718|.	0.0191|.	10|.	0.87932|.	D|.	0|.	-23.3919|-23.3919	20.017|20.017	0.97481|0.97481	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	123|.	O94903|.	PROSC_HUMAN|.	V|X	123;123;71;42|92	ENSP00000333551:A123V;ENSP00000427778:A123V;ENSP00000427886:A71V;ENSP00000429425:A42V|.	ENSP00000333551:A123V|.	A|Q	+|+	2|1	0|0	PROSC|PROSC	37749479|37749479	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.905000|0.905000	0.53344|0.53344	7.743000|7.743000	0.85020|0.85020	2.832000|2.832000	0.97577|0.97577	0.655000|0.655000	0.94253|0.94253	GCA|CAG		0.438	PROSC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376796.1	NM_007198		T	37630321	C	T	37630321	3	4	585	1	0	0	0	0	1	0	0	0	12569	710	25	2	386	2	PROSC	8	37630321	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08	15609335	37630321	108733701	57	34804										
RRS1	23212	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	67342373	67342373	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ccagggagggaagaggaaagGgggcttgggaggcaagatga	21	4	0	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr8:67342373G>A	ENST00000320270.2	+	1	1111	c.1007G>A	c.(1006-1008)gGg>gAg	p.G336E	RP11-346I3.4_ENST00000499642.1_lincRNA|ADHFE1_ENST00000396623.3_5'Flank|ADHFE1_ENST00000379385.4_5'Flank|ADHFE1_ENST00000415254.1_5'Flank	NM_015169.3	NP_055984.1	Q15050	RRS1_HUMAN	RRS1 ribosome biogenesis regulator homolog (S. cerevisiae)	336	Arg/Gly/Lys-rich.				hematopoietic progenitor cell differentiation (GO:0002244)|mitotic metaphase plate congression (GO:0007080)|ribosome biogenesis (GO:0042254)	condensed nuclear chromosome (GO:0000794)|endoplasmic reticulum (GO:0005783)|nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			kidney(2)|lung(2)	4		Lung NSC(129;0.197)	Epithelial(68;0.0391)|all cancers(69;0.0898)|BRCA - Breast invasive adenocarcinoma(89;0.111)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			AAGAGGAAAGGGGGCTTGGGA	0.602																																																0													34	44	41					8																	67342373		2192	4287	6479	SO:0001583	missense	23212			BC001811	CCDS6189.1	8q13.1	2013-10-22			ENSG00000179041	ENSG00000179041			17083	protein-coding gene	gene with protein product						7788527, 10688653	Standard	NM_015169		Approved	KIAA0112	uc003xwa.3	Q15050	OTTHUMG00000164765	ENST00000320270.2:c.1007G>A	8.37:g.67342373G>A	ENSP00000322396:p.Gly336Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BUX8	Missense_Mutation	SNP	ENST00000320270.2	37	CCDS6189.1	.	.	.	.	.	.	.	.	.	.	G	13.22	2.170934	0.38315	.	.	ENSG00000179041	ENST00000320270	D	0.89552	-2.53	5.26	4.38	0.52667	.	0.233360	0.44688	D	0.000435	D	0.87621	0.6223	M	0.77486	2.375	0.52501	D	0.999957	B	0.24043	0.096	B	0.18263	0.021	D	0.85609	0.1257	10	0.62326	D	0.03	-32.1208	10.2291	0.43245	0.1636:0.0:0.8364:0.0	.	336	Q15050	RRS1_HUMAN	E	336	ENSP00000322396:G336E	ENSP00000322396:G336E	G	+	2	0	RRS1	67504927	0.999000	0.42202	0.810000	0.32431	0.561000	0.35649	2.865000	0.48412	1.369000	0.46134	0.537000	0.68136	GGG		0.602	RRS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380126.1	NM_015169		A	67342373	G	A	67342373	3	1	585	1	0	0	0	0	1	0	0	0	13705	1232	43	2	1009	2	RRS1	8	67342373	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	29712052	67342373	79021649	58	34805										
TTC35	9694	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	109462688	109462688	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tatgaacaggtgatgattgcAgcactagactatggtcggga	13	6	0	4			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr8:109462688A>T	ENST00000220853.3	+	3	221	c.186A>T	c.(184-186)gcA>gcT	p.A62A		NM_014673.3	NP_055488.1	Q15006	EMC2_HUMAN	ER membrane protein complex subunit 2	62						cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|ER membrane protein complex (GO:0072546)|mitochondrion (GO:0005739)|nucleus (GO:0005634)											TGATGATTGCAGCACTAGACT	0.308																																																0													206	200	202					8																	109462688		2203	4300	6503	SO:0001819	synonymous_variant	9694			BC021667	CCDS6309.1	8q23.2	2012-05-23	2012-05-23	2012-05-23	ENSG00000104412	ENSG00000104412			28963	protein-coding gene	gene with protein product		607722	"tetratricopeptide repeat domain 35"	KIAA0103, TTC35		7788527, 22119785	Standard	NM_014673		Approved		uc003ymw.1	Q15006	OTTHUMG00000164873	ENST00000220853.3:c.186A>T	8.37:g.109462688A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8WUE1	Silent	SNP	ENST00000220853.3	37	CCDS6309.1	.	.	.	.	.	.	.	.	.	.	A	8.680	0.904927	0.17760	.	.	ENSG00000104412	ENST00000519642	.	.	.	5.86	-9.77	0.00500	.	.	.	.	.	T	0.43743	0.1261	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.52328	-0.8590	4	.	.	.	-10.7326	6.6457	0.22934	0.3445:0.0:0.3347:0.3207	.	.	.	.	L	10	.	.	Q	+	2	0	TTC35	109531864	0.354000	0.24912	0.564000	0.28396	0.612000	0.37316	-0.270000	0.08584	-1.322000	0.02278	-1.132000	0.01976	CAG		0.308	EMC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380717.1	NM_014673		T	109462688	A	T	109462688	2	4	585	1	0	0	0	0	0	0	0	1	16715	175	7	5		5	TTC35	8	109462688	Silent	SNP	A	TCGA-EV-5903-01A-11D-1589-08	42120315	109462688	36901334	59	34806										
COLEC10	10584	broad.mit.edu	37	chr8	120114630	120114630	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cttggaatacctggagaaaaAggcaaagcaggtacgatatg	12	6	0	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr8:120114630A>G	ENST00000332843.2	+	4	377	c.336A>G	c.(334-336)aaA>aaG	p.K112K	COLEC10_ENST00000521788.1_3'UTR	NM_006438.3	NP_006429.2	Q9Y6Z7	COL10_HUMAN	collectin sub-family member 10 (C-type lectin)	112	Collagen-like.					collagen trimer (GO:0005581)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)	mannose binding (GO:0005537)	p.K112K(1)		endometrium(2)|kidney(3)|large_intestine(3)|lung(8)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	21	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)			CTGGAGAAAAAGGCAAAGCAG	0.294																																																1	Substitution - coding silent(1)	kidney(1)											109	114	112					8																	120114630		2203	4300	6503	SO:0001819	synonymous_variant	10584			AB002631	CCDS6327.1	8q23-q24.1	2007-12-19				ENSG00000184374		"Collectins"	2220	protein-coding gene	gene with protein product		607620				10224141	Standard	NM_006438		Approved	CL-L1	uc003yoo.3	Q9Y6Z7		ENST00000332843.2:c.336A>G	8.37:g.120114630A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q3SYH6|Q6UW19	Silent	SNP	ENST00000332843.2	37	CCDS6327.1																																																																																				0.294	COLEC10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381225.1			G	120114630	A	G	120114630	2	3	585	1	0	0	0	0	0	0	0	1	3712	69	3	3		3	COLEC10	8	120114630	Silent	SNP	A	TCGA-EV-5903-01A-11D-1589-08	10651942	120114630	26249392	60	34807										
C9orf72	203228	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	27548367	27548367	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gatcgccctctgctgttaaaTcaaggtctatcttcaggttc	8	11	5	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr9:27548367T>A	ENST00000380003.3	-	11	1376	c.1313A>T	c.(1312-1314)gAt>gTt	p.D438V	C9orf72_ENST00000488117.1_5'UTR	NM_001256054.1|NM_018325.3	NP_001242983.1|NP_060795.1	Q96LT7	CI072_HUMAN	chromosome 9 open reading frame 72	438					autophagy (GO:0006914)|cell death (GO:0008219)|endocytosis (GO:0006897)	autophagic vacuole (GO:0005776)|cytoplasmic vesicle (GO:0031410)|endosome (GO:0005768)|extracellular space (GO:0005615)|lysosome (GO:0005764)|nucleus (GO:0005634)	Rab GTPase binding (GO:0017137)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(2)|lung(10)|ovary(4)|pancreas(1)	23		all_neural(11;7.57e-10)		LUSC - Lung squamous cell carcinoma(38;0.0001)|Lung(218;0.00016)		TGCTGTTAAATCAAGGTCTAT	0.348																																																0													99	100	100					9																	27548367		2203	4300	6503	SO:0001583	missense	203228			AL832467	CCDS6522.1, CCDS6523.1	9p21.1	2014-09-17			ENSG00000147894	ENSG00000147894			28337	protein-coding gene	gene with protein product		614260				21944778, 24549040	Standard	NM_145005		Approved	MGC23980	uc003zqq.3	Q96LT7	OTTHUMG00000019716	ENST00000380003.3:c.1313A>T	9.37:g.27548367T>A	ENSP00000369339:p.Asp438Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5W0|D3DRK6|G8I0B6|Q6NUS9	Missense_Mutation	SNP	ENST00000380003.3	37	CCDS6522.1	.	.	.	.	.	.	.	.	.	.	T	22.8	4.338256	0.81911	.	.	ENSG00000147894	ENST00000380003	T	0.52057	0.68	5.75	5.75	0.90469	.	0.042474	0.85682	D	0.000000	T	0.52789	0.1756	N	0.19112	0.55	0.80722	D	1	D	0.71674	0.998	D	0.68943	0.961	T	0.51513	-0.8696	9	.	.	.	.	16.0488	0.80740	0.0:0.0:0.0:1.0	.	438	Q96LT7	CI072_HUMAN	V	438	ENSP00000369339:D438V	.	D	-	2	0	C9orf72	27538367	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.698000	0.84413	2.199000	0.70637	0.374000	0.22700	GAT		0.348	C9orf72-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051969.1	NM_018325		A	27548367	T	A	27548367	3	1	585	1	0	0	0	0	1	0	0	0	2497	1435	50	5	136	5	C9orf72	9	27548367	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08		27548367	113665064	61	34808										
NFX1	4799	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	33319104	33319106	+	In_Frame_Del	DEL	CCT	CCT	-													0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gtggaaaagtgtgcggcaagCctctgccttgtggttcctta							TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	CCT	CCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr9:33319104_33319106delCCT	ENST00000379540.3	+	9	1947_1949	c.1885_1887delCCT	c.(1885-1887)cctdel	p.P629del	NFX1_ENST00000318524.6_In_Frame_Del_p.P629del|NFX1_ENST00000379521.4_In_Frame_Del_p.P629del	NM_002504.4	NP_002495.2	Q12986	NFX1_HUMAN	nuclear transcription factor, X-box binding 1	629					inflammatory response (GO:0006954)|negative regulation of MHC class II biosynthetic process (GO:0045347)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription from RNA polymerase II promoter (GO:0006366)|viral process (GO:0016032)	nucleus (GO:0005634)	DNA binding (GO:0003677)|ligase activity (GO:0016874)|poly(A) RNA binding (GO:0044822)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(8)|lung(4)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	25			LUSC - Lung squamous cell carcinoma(29;0.00506)	GBM - Glioblastoma multiforme(74;0.224)		GTGCGGCAAGCCTCTGCCTTGTG	0.438																																																0																																										SO:0001651	inframe_deletion	4799			U19759	CCDS6538.1, CCDS6539.1, CCDS6540.1	9p12	2013-12-13			ENSG00000086102	ENSG00000086102			7803	protein-coding gene	gene with protein product		603255				7964459, 2511169	Standard	NM_002504		Approved	NFX2, MGC20369, Tex42, TEG-42	uc003zsq.3	Q12986	OTTHUMG00000019772	ENST00000379540.3:c.1885_1887delCCT	9.37:g.33319104_33319106delCCT	ENSP00000368856:p.Pro629del	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6H8|Q5VXW6|Q96EL5|Q9BXI1	In_Frame_Del	DEL	ENST00000379540.3	37	CCDS6538.1																																																																																				0.438	NFX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052069.1			-	33319106	CCT	-	33319104	7	5	585	1	0	1	0	1	0	0	0	0	10394	739	26	0	1919	0	NFX1	9	33319104	In_Frame_Del	DEL	CCT	TCGA-EV-5903-01A-11D-1589-08	5770737	33319104	107894327	62	34809										
CCIN	881	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	36170075	36170075	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gatgaaaaccttcacgtgctCaatgaagaccaggcgctcag	10	11	3	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr9:36170075C>T	ENST00000335119.2	+	1	687	c.576C>T	c.(574-576)ctC>ctT	p.L192L		NM_005893.2	NP_005884.2	Q13939	CALI_HUMAN	calicin	192	BACK.				cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)				breast(3)|endometrium(2)|large_intestine(4)|liver(2)|lung(5)|ovary(1)|skin(4)	21			STAD - Stomach adenocarcinoma(86;0.228)			TTCACGTGCTCAATGAAGACC	0.507																																																0													58	57	58					9																	36170075		2203	4300	6503	SO:0001819	synonymous_variant	881			Z46967	CCDS6599.1	9p13.1	2013-10-02			ENSG00000185972	ENSG00000185972		"BTB/POZ domain containing"	1568	protein-coding gene	gene with protein product		603960				7641791	Standard	NM_005893		Approved	KBTBD14, BTBD20	uc003zzb.4	Q13939	OTTHUMG00000019901	ENST00000335119.2:c.576C>T	9.37:g.36170075C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BXG7	Silent	SNP	ENST00000335119.2	37	CCDS6599.1																																																																																				0.507	CCIN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052418.1	NM_005893		T	36170075	C	T	36170075	2	4	585	1	0	0	0	0	0	0	0	1	2880	813	29	2		2	CCIN	9	36170075	Silent	SNP	C	TCGA-EV-5903-01A-11D-1589-08	2850971	36170075	105043356	63	34810										
FLJ46321	389763	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	84605892	84605892	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gcttctgcgactgagtcatcGttcactctggcttccacccc	8	16	4	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr9:84605892G>A	ENST00000344803.2	+	4	554	c.507G>A	c.(505-507)tcG>tcA	p.S169S		NM_001001670.2	NP_001001670.1	Q6ZQQ2	S31D1_HUMAN	SPATA31 subfamily D, member 1	169					cell differentiation (GO:0030154)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)											CTGAGTCATCGTTCACTCTGG	0.562																																																0													123	123	123					9																	84605892		2001	4169	6170	SO:0001819	synonymous_variant	389763				CCDS47986.1	9q21.32	2012-10-12	2012-10-12	2012-10-12	ENSG00000214929	ENSG00000214929			37283	protein-coding gene	gene with protein product			"family with sequence similarity 75, member D1"	FAM75D1			Standard	NM_001001670		Approved	FLJ46321	uc004amn.3	Q6ZQQ2	OTTHUMG00000169122	ENST00000344803.2:c.507G>A	9.37:g.84605892G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000344803.2	37	CCDS47986.1																																																																																				0.562	SPATA31D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402325.1	NM_001001670		A	84605892	G	A	84605892	2	1	585	1	0	0	0	0	0	0	0	1	5939	1132	40	1		1	FLJ46321	9	84605892	Silent	SNP	G	TCGA-EV-5903-01A-11D-1589-08	48435817	84605892	56607539	64	34811										
PHF2	5253	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	96416716	96416716	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gggagaagaccttctatctcAtcaggccggcctcggccaac	11	14	3	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr9:96416716A>C	ENST00000359246.4	+	7	1178	c.811A>C	c.(811-813)Atc>Ctc	p.I271L	PHF2_ENST00000375376.4_Intron	NM_005392.3	NP_005383.3	O75151	PHF2_HUMAN	PHD finger protein 2	271	JmjC. {ECO:0000255|PROSITE- ProRule:PRU00538}.				liver development (GO:0001889)|negative regulation of chromatin silencing at rDNA (GO:0061188)|protein demethylation (GO:0006482)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	dioxygenase activity (GO:0051213)|histone demethylase activity (H3-K9 specific) (GO:0032454)|iron ion binding (GO:0005506)|methylated histone binding (GO:0035064)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|endometrium(6)|large_intestine(9)|lung(14)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	40		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		CTTCTATCTCATCAGGCCGGC	0.587																																																0													59	56	57					9																	96416716		2203	4300	6503	SO:0001583	missense	5253			AF043725	CCDS35069.1	9q22	2013-01-28			ENSG00000197724	ENSG00000197724		"Chromatin-modifying enzymes / K-demethylases", "Zinc fingers, PHD-type"	8920	protein-coding gene	gene with protein product	"jumonji C domain-containing histone demethylase 1E", "centromere protein 35"	604351				10051327, 20129925	Standard	NM_005392		Approved	KIAA0662, JHDM1E, CENP-35	uc004aub.3	O75151	OTTHUMG00000020253	ENST00000359246.4:c.811A>C	9.37:g.96416716A>C	ENSP00000352185:p.Ile271Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VXG0|Q8N3K2|Q9Y6N4	Missense_Mutation	SNP	ENST00000359246.4	37	CCDS35069.1	.	.	.	.	.	.	.	.	.	.	A	32	5.129480	0.94473	.	.	ENSG00000197724	ENST00000359246	T	0.74947	-0.89	4.79	4.79	0.61399	Transcription factor jumonji/aspartyl beta-hydroxylase (2);Transcription factor jumonji (1);	0.000000	0.85682	D	0.000000	D	0.87026	0.6075	M	0.86028	2.79	0.80722	D	1	D	0.55385	0.971	D	0.76575	0.988	D	0.89290	0.3618	10	0.87932	D	0	-32.051	14.5008	0.67719	1.0:0.0:0.0:0.0	.	271	O75151	PHF2_HUMAN	L	271	ENSP00000352185:I271L	ENSP00000352185:I271L	I	+	1	0	PHF2	95456537	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.037000	0.93765	2.008000	0.58898	0.477000	0.44152	ATC		0.587	PHF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053162.1	NM_005392		C	96416716	A	C	96416716	3	2	585	1	0	0	0	0	1	0	0	0	11837	217	8	5	837	5	PHF2	9	96416716	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	11810824	96416716	44796715	65	34812										
ABCA1	19	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	107599352	107599352	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cttccagatcatggaacacaGccagttcctggaaggtcttg	10	11	2	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr9:107599352G>T	ENST00000374736.3	-	11	1614	c.1220C>A	c.(1219-1221)gCt>gAt	p.A407D		NM_005502.3	NP_005493.2	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 1	407					apolipoprotein A-I-mediated signaling pathway (GO:0038027)|cellular lipid metabolic process (GO:0044255)|cellular response to cholesterol (GO:0071397)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to retinoic acid (GO:0071300)|cholesterol efflux (GO:0033344)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|endosomal transport (GO:0016197)|G-protein coupled receptor signaling pathway (GO:0007186)|high-density lipoprotein particle assembly (GO:0034380)|interleukin-1 beta secretion (GO:0050702)|intracellular cholesterol transport (GO:0032367)|lipoprotein metabolic process (GO:0042157)|lysosome organization (GO:0007040)|negative regulation of cholesterol storage (GO:0010887)|negative regulation of macrophage derived foam cell differentiation (GO:0010745)|peptide secretion (GO:0002790)|phagocytosis, engulfment (GO:0006911)|phospholipid efflux (GO:0033700)|phospholipid homeostasis (GO:0055091)|phospholipid translocation (GO:0045332)|platelet dense granule organization (GO:0060155)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of cholesterol efflux (GO:0010875)|protein lipidation (GO:0006497)|regulation of Cdc42 protein signal transduction (GO:0032489)|response to drug (GO:0042493)|response to laminar fluid shear stress (GO:0034616)|response to low-density lipoprotein particle (GO:0055098)|response to nutrient (GO:0007584)|reverse cholesterol transport (GO:0043691)|small molecule metabolic process (GO:0044281)	endocytic vesicle (GO:0030139)|external side of plasma membrane (GO:0009897)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|membrane raft (GO:0045121)|perinuclear region of cytoplasm (GO:0048471)|phagocytic vesicle (GO:0045335)|plasma membrane (GO:0005886)	anion transmembrane transporter activity (GO:0008509)|apolipoprotein A-I binding (GO:0034186)|apolipoprotein A-I receptor activity (GO:0034188)|apolipoprotein binding (GO:0034185)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase binding (GO:0051117)|cholesterol binding (GO:0015485)|cholesterol transporter activity (GO:0017127)|phospholipid binding (GO:0005543)|phospholipid transporter activity (GO:0005548)|receptor binding (GO:0005102)|small GTPase binding (GO:0031267)|syntaxin binding (GO:0019905)			NS(1)|autonomic_ganglia(1)|breast(5)|central_nervous_system(2)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(31)|liver(1)|lung(40)|ovary(5)|pancreas(2)|prostate(4)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	115				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glyburide(DB01016)|Probucol(DB01599)	ATGGAACACAGCCAGTTCCTG	0.552																																																0													86	71	76					9																	107599352		2203	4300	6503	SO:0001583	missense	19			AJ012376	CCDS6762.1	9q31	2014-03-14			ENSG00000165029	ENSG00000165029		"ATP binding cassette transporters / subfamily A"	29	protein-coding gene	gene with protein product	"Tangier disease"	600046		ABC1, HDLDT1		8088782, 10431236, 10431237, 10431238	Standard	NM_005502		Approved	TGD	uc004bcl.3	O95477	OTTHUMG00000020417	ENST00000374736.3:c.1220C>A	9.37:g.107599352G>T	ENSP00000363868:p.Ala407Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VX33|Q96S56|Q96T85|Q9NQV4|Q9UN06|Q9UN07|Q9UN08|Q9UN09	Missense_Mutation	SNP	ENST00000374736.3	37	CCDS6762.1	.	.	.	.	.	.	.	.	.	.	G	15.23	2.773257	0.49786	.	.	ENSG00000165029	ENST00000374736	D	0.85861	-2.04	5.7	4.76	0.60689	.	0.209202	0.49916	D	0.000130	T	0.76807	0.4039	L	0.28192	0.835	0.80722	D	1	B	0.06786	0.001	B	0.13407	0.009	T	0.70454	-0.4867	10	0.27082	T	0.32	.	15.0006	0.71469	0.0:0.2679:0.7321:0.0	.	407	O95477	ABCA1_HUMAN	D	407	ENSP00000363868:A407D	ENSP00000363868:A407D	A	-	2	0	ABCA1	106639173	1.000000	0.71417	1.000000	0.80357	0.941000	0.58515	5.271000	0.65553	2.687000	0.91594	0.655000	0.94253	GCT		0.552	ABCA1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053491.1	NM_005502		T	107599352	G	T	107599352	3	4	585	1	0	0	0	0	1	0	0	0	28	971	34	4	5725	4	ABCA1	9	107599352	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	11182636	107599352	33614079	66	34813										
NUP188	23511	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	131755475	131755475	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gtgtgttccggtctccaccaGgtggccccaatgtcagtgta	12	12	2	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr9:131755475G>A	ENST00000372577.2	+	26	2661		c.e26-1			NM_015354.1	NP_056169.1	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa						carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|protein transport (GO:0015031)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	membrane (GO:0016020)|nuclear envelope (GO:0005635)|nuclear pore (GO:0005643)				breast(2)|central_nervous_system(3)|endometrium(6)|kidney(4)|large_intestine(9)|lung(20)|ovary(6)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(3)	60						GTCTCCACCAGGTGGCCCCAA	0.537											OREG0019527	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													100	99	99					9																	131755475		2203	4300	6503	SO:0001630	splice_region_variant	23511			D79991	CCDS35156.1	9q34.13	2014-01-28	2004-03-19	2004-03-24	ENSG00000095319	ENSG00000095319			17859	protein-coding gene	gene with protein product		615587	"KIAA0169"	KIAA0169		11029043	Standard	NM_015354		Approved		uc004bws.2	Q5SRE5	OTTHUMG00000020768	ENST00000372577.2:c.2641-1G>A	9.37:g.131755475G>A		Somatic	1590	WXS	Illumina HiSeq	Phase_I	Q14675|Q2TA87|Q7Z3K8|Q8IWF1	Splice_Site	SNP	ENST00000372577.2	37	CCDS35156.1	.	.	.	.	.	.	.	.	.	.	G	23.4	4.417591	0.83449	.	.	ENSG00000095319	ENST00000356693;ENST00000372577	.	.	.	6.0	6.0	0.97389	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	19.4831	0.95018	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	NUP188	130795296	1.000000	0.71417	1.000000	0.80357	0.942000	0.58702	7.423000	0.80229	2.848000	0.98002	0.655000	0.94253	.		0.537	NUP188-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054529.2		Intron	A	131755475	G	A	131755475	5	1	585	1	0	0	0	0	0	0	1	0	10765	1014	35	2	2742	2	NUP188	9	131755475	Splice_Site	SNP	G	TCGA-EV-5903-01A-11D-1589-08	24156123	131755475	9457956	67	34814										
USP20	10868	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	132618631	132618631	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ccggaccaaacctatgggccTgtctgcaggtaaaagaccct	10	13	1	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr9:132618631T>A	ENST00000315480.4	+	4	285	c.127T>A	c.(127-129)Tgt>Agt	p.C43S	USP20_ENST00000372429.3_Missense_Mutation_p.C43S|USP20_ENST00000358355.1_Missense_Mutation_p.C43S			Q9Y2K6	UBP20_HUMAN	ubiquitin specific peptidase 20	43					endocytosis (GO:0006897)|protein deubiquitination (GO:0016579)|protein K48-linked deubiquitination (GO:0071108)|protein K63-linked deubiquitination (GO:0070536)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|ubiquitin-dependent protein catabolic process (GO:0006511)	centrosome (GO:0005813)|cytoplasm (GO:0005737)	cysteine-type endopeptidase activity (GO:0004197)|G-protein coupled receptor binding (GO:0001664)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|large_intestine(3)|lung(4)|urinary_tract(1)	11		Ovarian(14;0.00556)				CCTATGGGCCTGTCTGCAGGT	0.582																																																0													136	137	137					9																	132618631		1947	4141	6088	SO:0001583	missense	10868			AB023220	CCDS43892.1	9q34.2	2014-07-15	2005-08-08		ENSG00000136878	ENSG00000136878		"Ubiquitin-specific peptidases"	12619	protein-coding gene	gene with protein product		615143	"ubiquitin specific protease 20"			12838346	Standard	NM_006676		Approved	KIAA1003	uc004byr.3	Q9Y2K6	OTTHUMG00000020793	ENST00000315480.4:c.127T>A	9.37:g.132618631T>A	ENSP00000313811:p.Cys43Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q541F1|Q8IXQ1|Q96LG5|Q9UQN8|Q9UQP0	Missense_Mutation	SNP	ENST00000315480.4	37	CCDS43892.1	.	.	.	.	.	.	.	.	.	.	T	27.3	4.816658	0.90790	.	.	ENSG00000136878	ENST00000372429;ENST00000315480;ENST00000358355	T;T;T	0.72282	-0.64;-0.64;-0.64	4.99	4.99	0.66335	Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, UBP-type (2);	0.000000	0.85682	D	0.000000	D	0.89273	0.6668	H	0.97611	4.04	0.80722	D	1	D	0.69078	0.997	D	0.83275	0.996	D	0.92667	0.6146	10	0.87932	D	0	.	13.5285	0.61609	0.0:0.0:0.0:1.0	.	43	Q9Y2K6	UBP20_HUMAN	S	43	ENSP00000361506:C43S;ENSP00000313811:C43S;ENSP00000351122:C43S	ENSP00000313811:C43S	C	+	1	0	USP20	131658452	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	7.432000	0.80349	1.880000	0.54463	0.460000	0.39030	TGT		0.582	USP20-003	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054604.2			A	132618631	T	A	132618631	3	1	585	1	0	0	0	0	1	0	0	0	17064	1580	55	5	133	5	USP20	9	132618631	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	863156	132618631	8594800	68	34815										
ABL1	25	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	133730265	133730265	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ccaaaaatggccaaggctggGtcccaagcaactacatcacg	9	13	1	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr9:133730265G>C	ENST00000318560.5	+	3	712	c.331G>C	c.(331-333)Gtc>Ctc	p.V111L		NM_005157.4	NP_005148.2	P00519	ABL1_HUMAN	ABL proto-oncogene 1, non-receptor tyrosine kinase	111	SH3. {ECO:0000255|PROSITE- ProRule:PRU00192}.				actin cytoskeleton organization (GO:0030036)|autophagy (GO:0006914)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cellular protein modification process (GO:0006464)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to dopamine (GO:1903351)|cellular response to oxidative stress (GO:0034599)|DNA damage induced protein phosphorylation (GO:0006975)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|mismatch repair (GO:0006298)|mitochondrial depolarization (GO:0051882)|mitotic nuclear division (GO:0007067)|muscle cell differentiation (GO:0042692)|negative regulation of phospholipase C activity (GO:1900275)|negative regulation of protein serine/threonine kinase activity (GO:0071901)|negative regulation of ubiquitin-protein transferase activity (GO:0051444)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of oxidoreductase activity (GO:0051353)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|regulation of actin cytoskeleton reorganization (GO:2000249)|regulation of autophagy (GO:0010506)|regulation of cell adhesion (GO:0030155)|regulation of cell motility (GO:2000145)|regulation of endocytosis (GO:0030100)|regulation of response to DNA damage stimulus (GO:2001020)|regulation of transcription, DNA-templated (GO:0006355)|response to oxidative stress (GO:0006979)|signal transduction in response to DNA damage (GO:0042770)	actin cytoskeleton (GO:0015629)|cell leading edge (GO:0031252)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	actin monomer binding (GO:0003785)|ATP binding (GO:0005524)|DNA binding (GO:0003677)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|mitogen-activated protein kinase binding (GO:0051019)|nicotinate-nucleotide adenylyltransferase activity (GO:0004515)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|proline-rich region binding (GO:0070064)|protein C-terminus binding (GO:0008022)|protein kinase activity (GO:0004672)|protein tyrosine kinase activity (GO:0004713)|SH3 domain binding (GO:0017124)|syntaxin binding (GO:0019905)			breast(3)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1149)|kidney(3)|large_intestine(7)|lung(15)|ovary(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	1195		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Bosutinib(DB06616)|Dasatinib(DB01254)|Imatinib(DB00619)|Nilotinib(DB04868)|Ponatinib(DB08901)|Regorafenib(DB08896)	CCAAGGCTGGGTCCCAAGCAA	0.522			"T, Mis"	"BCR, ETV6, NUP214"	"CML, ALL, T-ALL"																																		Dom	yes		9	9q34.1	25	v-abl Abelson murine leukemia viral oncogene homolog 1		L	0													107	89	95					9																	133730265		2203	4300	6503	SO:0001583	missense	25			M14752	CCDS35165.1, CCDS35166.1	9q34.1	2014-09-17	2014-06-26		ENSG00000097007	ENSG00000097007		"SH2 domain containing"	76	protein-coding gene	gene with protein product		189980	"v-abl Abelson murine leukemia viral oncogene homolog 1", "c-abl oncogene 1, receptor tyrosine kinase", "c-abl oncogene 1, non-receptor tyrosine kinase"	ABL		1857987, 12626632	Standard	NM_007313		Approved	JTK7, c-ABL, p150	uc004bzv.3	P00519	OTTHUMG00000020813	ENST00000318560.5:c.331G>C	9.37:g.133730265G>C	ENSP00000323315:p.Val111Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A3KFJ3|Q13869|Q13870|Q16133|Q17R61|Q45F09	Missense_Mutation	SNP	ENST00000318560.5	37	CCDS35166.1	.	.	.	.	.	.	.	.	.	.	G	36	5.707803	0.96821	.	.	ENSG00000097007	ENST00000372348;ENST00000438426;ENST00000318560	T;T	0.55930	0.49;0.49	5.67	5.67	0.87782	Src homology-3 domain (3);	0.000000	0.85682	D	0.000000	T	0.75057	0.3798	M	0.90977	3.165	0.80722	D	1	P;P	0.39862	0.692;0.692	P;P	0.51016	0.656;0.656	T	0.79553	-0.1756	10	0.87932	D	0	.	18.8246	0.92111	0.0:0.0:1.0:0.0	.	111;148	P00519;Q59FK4	ABL1_HUMAN;.	L	130;157;111	ENSP00000361423:V130L;ENSP00000323315:V111L	ENSP00000323315:V111L	V	+	1	0	ABL1	132720086	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.812000	0.99227	2.677000	0.91161	0.638000	0.83543	GTC		0.522	ABL1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000054684.1	NM_007313		C	133730265	G	C	133730265	3	2	585	1	0	0	0	0	1	0	0	0	92	1261	44	4	481	4	ABL1	9	133730265	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	1111634	133730265	7483166	69	34816										
ABL1	25	broad.mit.edu	37	chr9	133750315	133750315	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ttggtgaaggtagctgatttTggcctgagcaggttgatgac	15	5	0	5			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr9:133750315T>G	ENST00000318560.5	+	7	1527	c.1146T>G	c.(1144-1146)ttT>ttG	p.F382L		NM_005157.4	NP_005148.2	P00519	ABL1_HUMAN	ABL proto-oncogene 1, non-receptor tyrosine kinase	382	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				actin cytoskeleton organization (GO:0030036)|autophagy (GO:0006914)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cellular protein modification process (GO:0006464)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to dopamine (GO:1903351)|cellular response to oxidative stress (GO:0034599)|DNA damage induced protein phosphorylation (GO:0006975)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|mismatch repair (GO:0006298)|mitochondrial depolarization (GO:0051882)|mitotic nuclear division (GO:0007067)|muscle cell differentiation (GO:0042692)|negative regulation of phospholipase C activity (GO:1900275)|negative regulation of protein serine/threonine kinase activity (GO:0071901)|negative regulation of ubiquitin-protein transferase activity (GO:0051444)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of oxidoreductase activity (GO:0051353)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|regulation of actin cytoskeleton reorganization (GO:2000249)|regulation of autophagy (GO:0010506)|regulation of cell adhesion (GO:0030155)|regulation of cell motility (GO:2000145)|regulation of endocytosis (GO:0030100)|regulation of response to DNA damage stimulus (GO:2001020)|regulation of transcription, DNA-templated (GO:0006355)|response to oxidative stress (GO:0006979)|signal transduction in response to DNA damage (GO:0042770)	actin cytoskeleton (GO:0015629)|cell leading edge (GO:0031252)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	actin monomer binding (GO:0003785)|ATP binding (GO:0005524)|DNA binding (GO:0003677)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|mitogen-activated protein kinase binding (GO:0051019)|nicotinate-nucleotide adenylyltransferase activity (GO:0004515)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|proline-rich region binding (GO:0070064)|protein C-terminus binding (GO:0008022)|protein kinase activity (GO:0004672)|protein tyrosine kinase activity (GO:0004713)|SH3 domain binding (GO:0017124)|syntaxin binding (GO:0019905)	p.?(1)		breast(3)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1149)|kidney(3)|large_intestine(7)|lung(15)|ovary(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	1195		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Bosutinib(DB06616)|Dasatinib(DB01254)|Imatinib(DB00619)|Nilotinib(DB04868)|Ponatinib(DB08901)|Regorafenib(DB08896)	TAGCTGATTTTGGCCTGAGCA	0.537			"T, Mis"	"BCR, ETV6, NUP214"	"CML, ALL, T-ALL"																																		Dom	yes		9	9q34.1	25	v-abl Abelson murine leukemia viral oncogene homolog 1		L	1	Unknown(1)	haematopoietic_and_lymphoid_tissue(1)											163	142	149					9																	133750315		2203	4300	6503	SO:0001583	missense	25			M14752	CCDS35165.1, CCDS35166.1	9q34.1	2014-09-17	2014-06-26		ENSG00000097007	ENSG00000097007		"SH2 domain containing"	76	protein-coding gene	gene with protein product		189980	"v-abl Abelson murine leukemia viral oncogene homolog 1", "c-abl oncogene 1, receptor tyrosine kinase", "c-abl oncogene 1, non-receptor tyrosine kinase"	ABL		1857987, 12626632	Standard	NM_007313		Approved	JTK7, c-ABL, p150	uc004bzv.3	P00519	OTTHUMG00000020813	ENST00000318560.5:c.1146T>G	9.37:g.133750315T>G	ENSP00000323315:p.Phe382Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A3KFJ3|Q13869|Q13870|Q16133|Q17R61|Q45F09	Missense_Mutation	SNP	ENST00000318560.5	37	CCDS35166.1	.	.	.	.	.	.	.	.	.	.	T	26.7	4.760517	0.89932	.	.	ENSG00000097007	ENST00000444970;ENST00000372348;ENST00000318560	T;T	0.81247	-1.47;-1.47	5.23	-5.23	0.02798	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	D	0.86859	0.6034	M	0.89715	3.055	0.80722	D	1	P;P	0.51057	0.941;0.941	P;P	0.56042	0.79;0.79	D	0.87399	0.2368	10	0.87932	D	0	.	14.2212	0.65828	0.0:0.4481:0.0:0.5519	.	382;419	P00519;Q59FK4	ABL1_HUMAN;.	L	197;401;382	ENSP00000361423:F401L;ENSP00000323315:F382L	ENSP00000323315:F382L	F	+	3	2	ABL1	132740136	0.957000	0.32711	0.826000	0.32828	0.970000	0.65996	0.065000	0.14466	-1.415000	0.02022	-0.290000	0.09829	TTT		0.537	ABL1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000054684.1	NM_007313		G	133750315	T	G	133750315	3	3	585	1	0	0	0	0	1	0	0	0	92	1809	63	5	1312	5	ABL1	9	133750315	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	20050	133750315	7463116	70	34817										
C9orf98	158067	hgsc.bcm.edu;broad.mit.edu	37	chr9	135601117	135601117	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ggattaatgatcccactctcGatgtattcgaagactgtgta	9	8	1	2	rs184476196	byFrequency	TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr9:135601117G>C	ENST00000298545.3	-	13	1919	c.1398C>G	c.(1396-1398)atC>atG	p.I466M	AK8_ENST00000477396.1_5'UTR	NM_152572.2	NP_689785.1	Q96MA6	KAD8_HUMAN	adenylate kinase 8	466	Adenylate kinase 2.				nucleoside diphosphate phosphorylation (GO:0006165)|nucleoside triphosphate biosynthetic process (GO:0009142)|ventricular system development (GO:0021591)	cytoplasm (GO:0005737)	adenylate kinase activity (GO:0004017)|ATP binding (GO:0005524)|cytidylate kinase activity (GO:0004127)|nucleoside diphosphate kinase activity (GO:0004550)			NS(1)|kidney(2)|large_intestine(4)|lung(11)|pancreas(2)|prostate(1)|urinary_tract(2)	23						TCCCACTCTCGATGTATTCGA	0.557																																																0													71	55	61					9																	135601117		2203	4300	6503	SO:0001583	missense	158067			AK093446	CCDS6954.1	9q34.13	2013-04-29	2010-12-07	2010-12-07	ENSG00000165695	ENSG00000165695	2.7.4.3	"Adenylate kinases"	26526	protein-coding gene	gene with protein product		615365	"chromosome 9 open reading frame 98"	C9orf98		21080915	Standard	NM_152572		Approved	FLJ32704	uc004cbu.1	Q96MA6	OTTHUMG00000021009	ENST00000298545.3:c.1398C>G	9.37:g.135601117G>C	ENSP00000298545:p.Ile466Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K821|Q8N9W9	Missense_Mutation	SNP	ENST00000298545.3	37	CCDS6954.1	.	.	.	.	.	.	.	.	.	.	G	10.81	1.456806	0.26161	.	.	ENSG00000165695	ENST00000298545	T	0.72282	-0.64	5.08	-10.2	0.00374	.	0.233363	0.35013	N	0.003515	T	0.70622	0.3245	M	0.79475	2.455	0.32487	N	0.540767	D	0.54772	0.968	P	0.57720	0.826	T	0.76002	-0.3118	10	0.87932	D	0	-3.3208	5.6233	0.17469	0.1067:0.148:0.5577:0.1876	.	466	Q96MA6	KAD8_HUMAN	M	466	ENSP00000298545:I466M	ENSP00000298545:I466M	I	-	3	3	AK8	134590938	0.221000	0.23642	0.372000	0.25991	0.016000	0.09150	-0.970000	0.03810	-2.541000	0.00485	-1.284000	0.01376	ATC		0.557	AK8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055413.1	NM_152572		C	135601117	G	C	135601117	3	2	585	1	0	0	0	0	1	0	0	0	2511	1048	37	4	45	4	C9orf98	9	135601117	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	1850802	135601117	5612314	71	34818										
LARP4B	23185	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	858887	858887	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cactgaggagacttggggggAgtgctctgctctcggctgag	17	9	2	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr10:858887A>G	ENST00000316157.3	-	17	2236	c.2196T>C	c.(2194-2196)acT>acC	p.T732T	LARP4B_ENST00000469487.1_5'Flank	NM_015155.1	NP_055970.1	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	732					positive regulation of translation (GO:0045727)	cytoplasm (GO:0005737)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleolus (GO:0005730)|polysomal ribosome (GO:0042788)	poly(A) RNA binding (GO:0044822)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(13)|lung(13)|ovary(2)|skin(2)|urinary_tract(2)	38						ACTTGGGGGGAGTGCTCTGCT	0.662																																																0													36	40	39					10																	858887		2202	4298	6500	SO:0001819	synonymous_variant	23185			D86971	CCDS31131.1	10p15.3	2011-08-24	2009-06-09	2009-06-09	ENSG00000107929	ENSG00000107929		"La ribonucleoprotein domain containing"	28987	protein-coding gene	gene with protein product			"KIAA0217", "La ribonucleoprotein domain family, member 5"	KIAA0217, LARP5		9039502, 20573744	Standard	NM_015155		Approved		uc031ptb.1	Q92615	OTTHUMG00000017534	ENST00000316157.3:c.2196T>C	10.37:g.858887A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A7MD20|Q5T3R3|Q5T3R4|Q5T3R5|Q68CY4	Silent	SNP	ENST00000316157.3	37	CCDS31131.1	.	.	.	.	.	.	.	.	.	.	A	6.457	0.452392	0.12283	.	.	ENSG00000107929	ENST00000448368	.	.	.	6.07	-5.87	0.02297	.	.	.	.	.	T	0.39036	0.1063	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.41270	-0.9518	4	.	.	.	-3.3912	3.9687	0.09443	0.1675:0.3281:0.3845:0.12	.	.	.	.	P	333	.	.	S	-	1	0	LARP4B	848887	0.998000	0.40836	0.905000	0.35620	0.944000	0.59088	0.260000	0.18424	-0.881000	0.03992	-1.236000	0.01555	TCC		0.662	LARP4B-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046395.2	NM_015155		G	858887	A	G	858887	2	3	585	1	0	0	0	0	0	0	0	1	8638	291	11	3		3	LARP4B	10	858887	Silent	SNP	A	TCGA-EV-5903-01A-11D-1589-08		858887	134675860	72	34819										
PITRM1	10531	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	3191832	3191832	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cttggtgaggacgctgcagaAgaggggcacatagggcctca	16	9	1	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr10:3191832A>C	ENST00000224949.4	-	16	1886	c.1852T>G	c.(1852-1854)Ttc>Gtc	p.F618V	PITRM1_ENST00000380989.2_Missense_Mutation_p.F618V|PITRM1-AS1_ENST00000598280.1_RNA|PITRM1_ENST00000464395.1_5'Flank|PITRM1_ENST00000380994.1_Missense_Mutation_p.F176V|PITRM1_ENST00000451104.2_Missense_Mutation_p.F586V|PITRM1-AS1_ENST00000601046.1_RNA			Q5JRX3	PREP_HUMAN	pitrilysin metallopeptidase 1	618					positive regulation of catalytic activity (GO:0043085)|proteolysis (GO:0006508)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	enzyme activator activity (GO:0008047)|metal ion binding (GO:0046872)|metalloendopeptidase activity (GO:0004222)			breast(2)|cervix(1)|endometrium(2)|kidney(5)|large_intestine(5)|liver(1)|lung(5)|ovary(1)|pancreas(1)|prostate(4)|skin(1)|stomach(2)|urinary_tract(3)	33						ACGCTGCAGAAGAGGGGCACA	0.517																																																0													183	187	186					10																	3191832		2033	4194	6227	SO:0001583	missense	10531			AB029027	CCDS55699.1, CCDS55700.1, CCDS59208.1	10p15.2	2008-07-30	2005-08-17		ENSG00000107959	ENSG00000107959			17663	protein-coding gene	gene with protein product	"PreP peptidasome"		"pitrilysin metalloproteinase 1"			1036083, 10470851, 16849325	Standard	NM_014889		Approved	MP1, KIAA1104, hMP1, PreP	uc009xhv.2	Q5JRX3	OTTHUMG00000017557	ENST00000224949.4:c.1852T>G	10.37:g.3191832A>C	ENSP00000224949:p.Phe618Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3KMJ6|B4E0J8|C9JSL2|E7ES23|O95204|Q2M2G6|Q4VBR1|Q5JRW7|Q7L5Z7|Q9BSI6|Q9BVJ5|Q9UPP8	Missense_Mutation	SNP	ENST00000224949.4	37	CCDS59208.1	.	.	.	.	.	.	.	.	.	.	a	22.4	4.280763	0.80692	.	.	ENSG00000107959	ENST00000224949;ENST00000380980;ENST00000380989;ENST00000380994;ENST00000451104	T;T;T;T	0.46063	0.88;0.88;0.88;0.88	5.41	4.28	0.50868	Peptidase M16C associated (1);Metalloenzyme, LuxS/M16 peptidase-like, metal-binding (1);	0.000000	0.85682	D	0.000000	T	0.68559	0.3014	M	0.90309	3.105	0.58432	D	0.999998	D;D;D;D;D	0.89917	0.97;0.997;1.0;1.0;1.0	P;D;D;D;D	0.85130	0.824;0.994;0.997;0.997;0.997	T	0.73582	-0.3937	10	0.87932	D	0	.	11.2282	0.48897	0.9278:0.0:0.0722:0.0	.	611;586;618;618;611	E9PDX6;E7ES23;C9JSL2;Q5JRX3;B4DH07	.;.;.;PREP_HUMAN;.	V	618;611;618;176;586	ENSP00000224949:F618V;ENSP00000370377:F618V;ENSP00000370382:F176V;ENSP00000401201:F586V	ENSP00000224949:F618V	F	-	1	0	PITRM1	3181832	1.000000	0.71417	1.000000	0.80357	0.913000	0.54294	7.161000	0.77505	0.900000	0.36469	0.454000	0.30748	TTC		0.517	PITRM1-007	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000046469.2			C	3191832	A	C	3191832	3	2	585	1	0	0	0	0	1	0	0	0	11960	72	3	5	1309	5	PITRM1	10	3191832	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	2332945	3191832	132342915	73	34820										
CSGALNACT2	55454	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	43651227	43651227	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gagggtccccttggagagaaActgatatttaatgaaaatga	11	5	0	4			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr10:43651227A>G	ENST00000374466.3	+	2	965	c.630A>G	c.(628-630)aaA>aaG	p.K210K	CSGALNACT2_ENST00000374464.1_Silent_p.K210K	NM_018590.3	NP_061060.3	Q8N6G5	CGAT2_HUMAN	chondroitin sulfate N-acetylgalactosaminyltransferase 2	210					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|chondroitin sulfate proteoglycan biosynthetic process (GO:0050650)|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050653)|dermatan sulfate proteoglycan biosynthetic process (GO:0050651)|dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050652)|glycosaminoglycan metabolic process (GO:0030203)|proteoglycan biosynthetic process (GO:0030166)|small molecule metabolic process (GO:0044281)	Golgi cisterna membrane (GO:0032580)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)|membrane (GO:0016020)	acetylgalactosaminyltransferase activity (GO:0008376)|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity (GO:0047237)|metal ion binding (GO:0046872)			endometrium(12)|kidney(3)|large_intestine(5)|lung(16)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	42						TTGGAGAGAAACTGATATTTA	0.363																																																0													44	46	46					10																	43651227		2203	4299	6502	SO:0001819	synonymous_variant	55454			AF116646	CCDS7201.1	10q11.21	2013-02-19			ENSG00000169826	ENSG00000169826		"Beta 4-glycosyltransferases"	24292	protein-coding gene	gene with protein product	"chondroitin beta1,4 N-acetylgalactosaminyltransferase 2"					12446672	Standard	NM_018590		Approved	GALNACT2, MGC40204, PRO0082, GALNACT-2	uc001jan.4	Q8N6G5	OTTHUMG00000018023	ENST00000374466.3:c.630A>G	10.37:g.43651227A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KWL7|Q6MZJ5|Q6MZP6|Q8TCH4|Q9P1I6	Silent	SNP	ENST00000374466.3	37	CCDS7201.1																																																																																				0.363	CSGALNACT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047693.1	NM_018590		G	43651227	A	G	43651227	2	3	585	1	0	0	0	0	0	0	0	1	3941	40	2	3		3	CSGALNACT2	10	43651227	Silent	SNP	A	TCGA-EV-5903-01A-11D-1589-08	40459395	43651227	91883520	74	34821										
POLR3A	11128	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	79741971	79741971	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	accgtgtgtggccatgactgCccgcaggttatcaccttcca	10	14	1	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr10:79741971C>G	ENST00000372371.3	-	28	3837	c.3700G>C	c.(3700-3702)Gca>Cca	p.A1234P		NM_007055.3	NP_008986.2	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide A, 155kDa	1234					defense response to virus (GO:0051607)|gene expression (GO:0010467)|innate immune response (GO:0045087)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of type I interferon production (GO:0032481)|termination of RNA polymerase III transcription (GO:0006386)|transcription elongation from RNA polymerase III promoter (GO:0006385)|transcription from RNA polymerase III promoter (GO:0006383)|transcription, DNA-templated (GO:0006351)	cytosol (GO:0005829)|DNA-directed RNA polymerase III complex (GO:0005666)|membrane (GO:0016020)|nucleoplasm (GO:0005654)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)|ribonucleoside binding (GO:0032549)|zinc ion binding (GO:0008270)			breast(1)|endometrium(7)|kidney(3)|large_intestine(13)|lung(25)|ovary(1)|prostate(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	59	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)			GCCATGACTGCCCGCAGGTTA	0.567																																																0													188	151	163					10																	79741971		2203	4300	6503	SO:0001583	missense	11128			AF021351	CCDS7354.1	10q22-q23	2013-01-21			ENSG00000148606	ENSG00000148606		"RNA polymerase subunits"	30074	protein-coding gene	gene with protein product		614258				9331371, 12391170	Standard	NM_007055		Approved	RPC1, RPC155, hRPC155	uc001jzn.3	O14802	OTTHUMG00000018550	ENST00000372371.3:c.3700G>C	10.37:g.79741971C>G	ENSP00000361446:p.Ala1234Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IW34|Q8TCW5	Missense_Mutation	SNP	ENST00000372371.3	37	CCDS7354.1	.	.	.	.	.	.	.	.	.	.	C	16.69	3.192613	0.58017	.	.	ENSG00000148606	ENST00000539141;ENST00000372371;ENST00000540842	T	0.78126	-1.15	5.99	5.99	0.97316	RNA polymerase Rpb1, domain 5 (1);	0.051369	0.85682	D	0.000000	D	0.83718	0.5315	M	0.87097	2.86	0.58432	D	0.999998	P	0.35155	0.487	B	0.42112	0.376	T	0.83056	-0.0150	9	.	.	.	-11.4876	15.1985	0.73116	0.1408:0.8591:0.0:0.0	.	1234	O14802	RPC1_HUMAN	P	50;1234;1213	ENSP00000361446:A1234P	.	A	-	1	0	POLR3A	79411977	1.000000	0.71417	0.998000	0.56505	0.938000	0.57974	4.200000	0.58433	2.843000	0.97960	0.655000	0.94253	GCA		0.567	POLR3A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048923.1	NM_007055		G	79741971	C	G	79741971	3	3	585	1	0	0	0	0	1	0	0	0	12235	739	26	4	488	4	POLR3A	10	79741971	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08	36090744	79741971	55792776	75	34822										
KIAA1598	57698	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	118689489	118689489	+	Missense_Mutation	SNP	C	C	T													0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tttgtggagtgtttcattttCtagttgctcttctaattctt							TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr10:118689489C>T	ENST00000355371.4	-	10	1380	c.883G>A	c.(883-885)Gaa>Aaa	p.E295K	KIAA1598_ENST00000260777.10_Missense_Mutation_p.E295K|KIAA1598_ENST00000497044.1_5'UTR|KIAA1598_ENST00000392903.2_Missense_Mutation_p.E295K|KIAA1598_ENST00000392901.4_Missense_Mutation_p.E235K	NM_001127211.2|NM_001258298.1|NM_001258299.1	NP_001120683.1|NP_001245227.1|NP_001245228.1	A0MZ66	SHOT1_HUMAN	KIAA1598	295					axon guidance (GO:0007411)|regulation of establishment of cell polarity (GO:2000114)|regulation of neuron migration (GO:2001222)	axonal growth cone (GO:0044295)				endometrium(1)|kidney(1)|large_intestine(5)|lung(3)	10				all cancers(201;0.00494)		GTTTCATTTTCTAGTTGCTCT	0.308																																																0													163	152	155					10																	118689489		2201	4298	6499	SO:0001583	missense	57698			BC022348	CCDS31293.1, CCDS44482.1, CCDS58097.1, CCDS73207.1, CCDS73208.1	10q26.12	2007-01-30			ENSG00000187164	ENSG00000187164			29319	protein-coding gene	gene with protein product		611171				10997877, 17030985	Standard	NM_001127211		Approved	shootin1, shootin-1	uc009xyw.4	A0MZ66	OTTHUMG00000019114	ENST00000355371.4:c.883G>A	10.37:g.118689489C>T	ENSP00000347532:p.Glu295Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8MYU7|B3KRD3|B3KRH2|B3KTE0|B3KTJ7|B3KTJ8|B4E3U1|B7Z7Z9|Q68DG1|Q6PIM5|Q9HCH4|Q9NUV0	Missense_Mutation	SNP	ENST00000355371.4	37	CCDS44482.1	.	.	.	.	.	.	.	.	.	.	C	12.59	1.982973	0.34942	.	.	ENSG00000187164	ENST00000392903;ENST00000260777;ENST00000355371;ENST00000392901	T;T;T;T	0.75260	1.61;1.61;1.61;-0.92	5.35	4.45	0.53987	.	0.493073	0.23371	N	0.048907	T	0.65626	0.2709	L	0.52573	1.65	0.32981	D	0.52363	B;B;B	0.26845	0.069;0.008;0.161	B;B;B	0.24701	0.055;0.022;0.033	T	0.67643	-0.5618	10	0.23891	T	0.37	-14.1816	9.9478	0.41621	0.1475:0.6917:0.1608:0.0	.	295;295;265	A0MZ66;A0MZ66-2;A0MZ66-6	SHOT1_HUMAN;.;.	K	295;295;295;235	ENSP00000376636:E295K;ENSP00000260777:E295K;ENSP00000347532:E295K;ENSP00000376635:E235K	ENSP00000260777:E295K	E	-	1	0	KIAA1598	118679479	0.984000	0.35163	0.971000	0.41717	0.986000	0.74619	2.414000	0.44627	1.404000	0.46819	0.561000	0.74099	GAA		0.308	KIAA1598-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_018330		T	118689489	C	T	118689489	3	4	585	1	0	0	0	0	1	0	0	0	8253	922	32	2	1044	2	KIAA1598	10	118689489	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08	38947518	118689489	16845258	76	34823	264	2								
KIAA1598	57698	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	118689491	118689491	+	Missense_Mutation	SNP	A	A	G													0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tgtggagtgtttcattttctAgttgctcttctaattctttg							TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr10:118689491A>G	ENST00000355371.4	-	10	1378	c.881T>C	c.(880-882)cTa>cCa	p.L294P	KIAA1598_ENST00000260777.10_Missense_Mutation_p.L294P|KIAA1598_ENST00000497044.1_5'UTR|KIAA1598_ENST00000392903.2_Missense_Mutation_p.L294P|KIAA1598_ENST00000392901.4_Missense_Mutation_p.L234P	NM_001127211.2|NM_001258298.1|NM_001258299.1	NP_001120683.1|NP_001245227.1|NP_001245228.1	A0MZ66	SHOT1_HUMAN	KIAA1598	294					axon guidance (GO:0007411)|regulation of establishment of cell polarity (GO:2000114)|regulation of neuron migration (GO:2001222)	axonal growth cone (GO:0044295)				endometrium(1)|kidney(1)|large_intestine(5)|lung(3)	10				all cancers(201;0.00494)		TTCATTTTCTAGTTGCTCTTC	0.303																																																0													161	150	154					10																	118689491		2201	4298	6499	SO:0001583	missense	57698			BC022348	CCDS31293.1, CCDS44482.1, CCDS58097.1, CCDS73207.1, CCDS73208.1	10q26.12	2007-01-30			ENSG00000187164	ENSG00000187164			29319	protein-coding gene	gene with protein product		611171				10997877, 17030985	Standard	NM_001127211		Approved	shootin1, shootin-1	uc009xyw.4	A0MZ66	OTTHUMG00000019114	ENST00000355371.4:c.881T>C	10.37:g.118689491A>G	ENSP00000347532:p.Leu294Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8MYU7|B3KRD3|B3KRH2|B3KTE0|B3KTJ7|B3KTJ8|B4E3U1|B7Z7Z9|Q68DG1|Q6PIM5|Q9HCH4|Q9NUV0	Missense_Mutation	SNP	ENST00000355371.4	37	CCDS44482.1	.	.	.	.	.	.	.	.	.	.	A	18.91	3.723729	0.68959	.	.	ENSG00000187164	ENST00000392903;ENST00000260777;ENST00000355371;ENST00000392901	T;T;T;T	0.24538	2.72;2.72;2.72;1.85	5.35	5.35	0.76521	.	0.239875	0.36268	N	0.002695	T	0.48978	0.1530	M	0.66939	2.045	0.80722	D	1	D;D;D	0.89917	0.999;0.997;1.0	D;D;D	0.87578	0.998;0.994;0.996	T	0.49273	-0.8957	10	0.59425	D	0.04	-9.5016	13.8675	0.63598	1.0:0.0:0.0:0.0	.	294;294;264	A0MZ66;A0MZ66-2;A0MZ66-6	SHOT1_HUMAN;.;.	P	294;294;294;234	ENSP00000376636:L294P;ENSP00000260777:L294P;ENSP00000347532:L294P;ENSP00000376635:L234P	ENSP00000260777:L294P	L	-	2	0	KIAA1598	118679481	0.999000	0.42202	0.840000	0.33206	0.981000	0.71138	5.819000	0.69243	2.163000	0.67991	0.459000	0.35465	CTA		0.303	KIAA1598-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_018330		G	118689491	A	G	118689491	3	3	585	1	0	0	0	0	1	0	0	0	8253	420	15	3	1046	3	KIAA1598	10	118689491	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	2	118689491	16845256	77	34824	264	2								
GLRX3	10539	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	131964822	131964822	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	caaacataatattcagtttaGcagttttgatatcttctcag	5	7	3	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr10:131964822G>T	ENST00000368644.1	+	5	552	c.530G>T	c.(529-531)aGc>aTc	p.S177I	GLRX3_ENST00000331244.5_Missense_Mutation_p.S177I	NM_001199868.1	NP_001186797.1	O76003	GLRX3_HUMAN	glutaredoxin 3	177	Glutaredoxin 1. {ECO:0000255|PROSITE- ProRule:PRU00686}.				cell redox homeostasis (GO:0045454)|negative regulation of cardiac muscle hypertrophy (GO:0010614)|regulation of the force of heart contraction (GO:0002026)	extracellular vesicular exosome (GO:0070062)|Z disc (GO:0030018)	electron carrier activity (GO:0009055)|iron-sulfur cluster binding (GO:0051536)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|protein disulfide oxidoreductase activity (GO:0015035)			endometrium(1)|large_intestine(5)|lung(7)	13		all_cancers(35;9.59e-07)|all_epithelial(44;1.48e-06)|Lung NSC(174;0.00566)|all_lung(145;0.00949)|Colorectal(57;0.142)|all_neural(114;0.16)|Breast(234;0.173)|Glioma(114;0.222)		OV - Ovarian serous cystadenocarcinoma(35;0.00218)		ATTCAGTTTAGCAGTTTTGAT	0.393																																																0													122	121	122					10																	131964822		2203	4300	6503	SO:0001583	missense	10539			AJ010841	CCDS7661.1	10q26	2009-05-29	2007-08-16	2007-08-16	ENSG00000108010	ENSG00000108010			15987	protein-coding gene	gene with protein product	"glutaredoxin 4"	612754	"thioredoxin-like 2"	TXNL2		10636891, 11124703	Standard	NM_006541		Approved	PICOT, bA500G10.4, GRX3, GLRX4, GRX4	uc001lkm.2	O76003	OTTHUMG00000019267	ENST00000368644.1:c.530G>T	10.37:g.131964822G>T	ENSP00000357633:p.Ser177Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B3KMP7|B3KMQ5|D3DRG2|Q5JV01|Q96CE0|Q9P1B0|Q9P1B1	Missense_Mutation	SNP	ENST00000368644.1	37	CCDS7661.1	.	.	.	.	.	.	.	.	.	.	G	24.8	4.573832	0.86542	.	.	ENSG00000108010	ENST00000331244;ENST00000368644	T;T	0.29917	1.55;1.55	5.0	5.0	0.66597	Glutaredoxin (2);Thioredoxin-like fold (2);	0.000000	0.85682	D	0.000000	T	0.43523	0.1251	L	0.28649	0.875	0.80722	D	1	D	0.63046	0.992	D	0.70487	0.969	T	0.23440	-1.0188	10	0.35671	T	0.21	-14.9931	17.3131	0.87215	0.0:0.0:1.0:0.0	.	177	O76003	GLRX3_HUMAN	I	177	ENSP00000330836:S177I;ENSP00000357633:S177I	ENSP00000330836:S177I	S	+	2	0	GLRX3	131854812	1.000000	0.71417	1.000000	0.80357	0.974000	0.67602	9.365000	0.97139	2.323000	0.78572	0.655000	0.94253	AGC		0.393	GLRX3-002	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051021.1	NM_006541		T	131964822	G	T	131964822	3	4	585	1	0	0	0	0	1	0	0	0	6468	971	34	4	548	4	GLRX3	10	131964822	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	13275331	131964822	3569925	78	34825										
LRRC56	115399	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	552211	552211	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ggccttggctgggctcagggCctggagggaacatggcgtgc	19	10	1	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr11:552211C>T	ENST00000270115.7	+	12	1660	c.1160C>T	c.(1159-1161)gCc>gTc	p.A387V		NM_198075.3	NP_932341.1	Q8IYG6	LRC56_HUMAN	leucine rich repeat containing 56	387										kidney(1)|lung(4)|skin(1)	6		all_cancers(49;2.16e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;7.63e-28)|Epithelial(43;7.29e-27)|OV - Ovarian serous cystadenocarcinoma(40;7.15e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGGCTCAGGGCCTGGAGGGAA	0.657																																																0													41	44	43					11																	552211		2202	4300	6502	SO:0001583	missense	115399				CCDS7700.1	11p15.5	2005-10-18			ENSG00000161328	ENSG00000161328			25430	protein-coding gene	gene with protein product						12477932	Standard	NM_198075		Approved	FLJ00101, DKFZp761L1518	uc010qvz.2	Q8IYG6	OTTHUMG00000132003	ENST00000270115.7:c.1160C>T	11.37:g.552211C>T	ENSP00000270115:p.Ala387Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3Q4	Missense_Mutation	SNP	ENST00000270115.7	37	CCDS7700.1	.	.	.	.	.	.	.	.	.	.	C	17.56	3.420638	0.62622	.	.	ENSG00000161328	ENST00000270115	T	0.15952	2.38	4.38	4.38	0.52667	.	0.301734	0.24145	N	0.041134	T	0.14570	0.0352	L	0.27053	0.805	0.35067	D	0.762095	P	0.43287	0.802	B	0.42245	0.381	T	0.15549	-1.0433	10	0.59425	D	0.04	0.5026	12.6067	0.56527	0.0:1.0:0.0:0.0	.	387	Q8IYG6	LRC56_HUMAN	V	387	ENSP00000270115:A387V	ENSP00000270115:A387V	A	+	2	0	LRRC56	542211	0.208000	0.23494	0.120000	0.21714	0.036000	0.12997	2.410000	0.44592	2.441000	0.82636	0.561000	0.74099	GCC		0.657	LRRC56-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254969.1	NM_198075		T	552211	C	T	552211	3	4	585	1	0	0	0	0	1	0	0	0	9019	739	26	2	1194	2	LRRC56	11	552211	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08		552211	134454305	79	34826										
OR51A7	119687	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	4929158	4929158	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ttcatcaggataccatgaagCtggcctgctctgacaacaag	9	11	3	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr11:4929158C>T	ENST00000359350.4	+	1	559	c.559C>T	c.(559-561)Ctg>Ttg	p.L187L	MMP26_ENST00000380390.1_Intron|MMP26_ENST00000477339.1_Intron	NM_001004749.1	NP_001004749.1	Q8NH64	O51A7_HUMAN	olfactory receptor, family 51, subfamily A, member 7	187						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(1)|large_intestine(7)|lung(13)|ovary(1)|skin(4)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	33		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		TACCATGAAGCTGGCCTGCTC	0.398																																																0													199	164	176					11																	4929158		2201	4298	6499	SO:0001819	synonymous_variant	119687			AB065525	CCDS31364.1	11p15.4	2012-08-09			ENSG00000176895	ENSG00000176895		"GPCR / Class A : Olfactory receptors"	15188	protein-coding gene	gene with protein product							Standard	NM_001004749		Approved		uc010qyq.2	Q8NH64	OTTHUMG00000066502	ENST00000359350.4:c.559C>T	11.37:g.4929158C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFH8	Silent	SNP	ENST00000359350.4	37	CCDS31364.1																																																																																				0.398	OR51A7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000142175.1	NM_001004749		T	4929158	C	T	4929158	2	4	585	1	0	0	0	0	0	0	0	1	11095	796	28	2		2	OR51A7	11	4929158	Silent	SNP	C	TCGA-EV-5903-01A-11D-1589-08	4376947	4929158	130077358	80	34827										
TPP1	8642	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	6640045	6640045	+	IGR	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gatccgacacagcctgcaccAgctccgagagtctttccaca	8	16	1	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr11:6640045A>C	ENST00000299441.3	-	0	10763				TPP1_ENST00000534644.1_Intron|TPP1_ENST00000528657.1_3'UTR|TPP1_ENST00000299427.6_Missense_Mutation_p.L64R|RP11-732A19.5_ENST00000526456.1_RNA|TPP1_ENST00000533371.1_5'UTR|RP11-732A19.9_ENST00000545572.1_RNA	NM_003737.2	NP_003728.1	Q96JQ0	PCD16_HUMAN	dachsous cadherin-related 1						branching involved in ureteric bud morphogenesis (GO:0001658)|calcium-dependent cell-cell adhesion (GO:0016339)|cochlea development (GO:0090102)|digestive tract development (GO:0048565)|heart morphogenesis (GO:0003007)|heterophilic cell-cell adhesion (GO:0007157)|hippo signaling (GO:0035329)|homophilic cell adhesion (GO:0007156)|neural tube development (GO:0021915)|neurogenesis (GO:0022008)|ossification involved in bone maturation (GO:0043931)|post-anal tail morphogenesis (GO:0036342)	apical part of cell (GO:0045177)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(16)|liver(1)|lung(41)|ovary(4)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(6)|urinary_tract(4)	103		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGCCTGCACCAGCTCCGAGAG	0.622																																																0													77	68	71					11																	6640045		2201	4296	6497	SO:0001628	intergenic_variant	1200			AB000895	CCDS7771.1	11p15.4	2013-10-04	2013-10-04	2004-09-03	ENSG00000166341	ENSG00000166341		"Cadherins / Cadherin-related"	13681	protein-coding gene	gene with protein product	"cadherin-related family member 6"	603057	"protocadherin 16", "dachsous 1 (Drosophila)"	CDH25, PCDH16		9199196	Standard	XM_005253207		Approved	FIB1, KIAA1773, FLJ11790, CDHR6	uc001mem.1	Q96JQ0	OTTHUMG00000133398		11.37:g.6640045A>C		Somatic		WXS	Illumina HiSeq	Phase_I	O15098	Missense_Mutation	SNP	ENST00000299441.3	37	CCDS7771.1	.	.	.	.	.	.	.	.	.	.	A	21.8	4.196515	0.79015	.	.	ENSG00000166340	ENST00000299427;ENST00000453338;ENST00000436873	T;T	0.70516	-0.49;-0.49	5.64	4.45	0.53987	Proteinase inhibitor, propeptide (1);Peptidase S53, propeptide (2);	0.231767	0.37530	N	0.002054	T	0.72407	0.3456	L	0.48260	1.515	0.80722	D	1	D;D	0.61697	0.99;0.972	P;P	0.59288	0.855;0.639	T	0.68633	-0.5357	10	0.25751	T	0.34	-18.2713	9.3741	0.38272	0.8409:0.0:0.0:0.1591	.	64;64	B4DEQ3;O14773	.;TPP1_HUMAN	R	64	ENSP00000299427:L64R;ENSP00000398136:L64R	ENSP00000299427:L64R	L	-	2	0	TPP1	6596621	1.000000	0.71417	0.996000	0.52242	0.992000	0.81027	3.517000	0.53443	2.146000	0.66826	0.379000	0.24179	CTG		0.622	DCHS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257258.1	NM_003737		C	6640045	A	C	6640045	1	2	585	0	1	0	0	0	0	0	0	0	16423	188	7	5		5	TPP1	11	6640045	IGR	SNP	A	TCGA-EV-5903-01A-11D-1589-08	1710887	6640045	128366471	81	34828										
F2	2147	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	46740795	46740795	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gctgacacactatggcgcacGtccgaggcttgcagctgcct	12	14	0	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr11:46740795G>A	ENST00000311907.5	+	1	66	c.10G>A	c.(10-12)Gtc>Atc	p.V4I	F2_ENST00000530231.1_Missense_Mutation_p.V4I	NM_000506.3	NP_000497.1	P00734	THRB_HUMAN	coagulation factor II (thrombin)	4					acute-phase response (GO:0006953)|blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|cell surface receptor signaling pathway (GO:0007166)|cellular protein metabolic process (GO:0044267)|cytosolic calcium ion homeostasis (GO:0051480)|fibrinolysis (GO:0042730)|leukocyte migration (GO:0050900)|multicellular organismal development (GO:0007275)|negative regulation of astrocyte differentiation (GO:0048712)|negative regulation of fibrinolysis (GO:0051918)|negative regulation of platelet activation (GO:0010544)|negative regulation of proteolysis (GO:0045861)|peptidyl-glutamic acid carboxylation (GO:0017187)|platelet activation (GO:0030168)|positive regulation of blood coagulation (GO:0030194)|positive regulation of cell growth (GO:0030307)|positive regulation of cell proliferation (GO:0008284)|positive regulation of collagen biosynthetic process (GO:0032967)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of phospholipase C-activating G-protein coupled receptor signaling pathway (GO:1900738)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of sequestered calcium ion into cytosol (GO:0051281)|post-translational protein modification (GO:0043687)|proteolysis (GO:0006508)|regulation of blood coagulation (GO:0030193)|regulation of cell shape (GO:0008360)|response to wounding (GO:0009611)	blood microparticle (GO:0072562)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|growth factor activity (GO:0008083)|receptor binding (GO:0005102)|serine-type endopeptidase activity (GO:0004252)|thrombospondin receptor activity (GO:0070053)			endometrium(3)|kidney(2)|large_intestine(4)|lung(10)|ovary(3)|prostate(2)|stomach(2)|upper_aerodigestive_tract(1)	27		all_lung(304;0.000414)|Lung NSC(402;0.0011)		BRCA - Breast invasive adenocarcinoma(625;0.146)	Antihemophilic Factor(DB00025)|Argatroban(DB00278)|ART-123(DB05777)|Bivalirudin(DB00006)|Coagulation Factor IX(DB00100)|Dabigatran etexilate(DB06695)|Drotrecogin alfa(DB00055)|Lepirudin(DB00001)|Menadione(DB00170)|Proflavine(DB01123)|Suramin(DB04786)|Ximelagatran(DB04898)	TATGGCGCACGTCCGAGGCTT	0.577																																					Esophageal Squamous(147;1147 1808 2148 38609 51144)											0													47	40	42					11																	46740795		2201	4299	6500	SO:0001583	missense	2147			M33031	CCDS31476.1	11p11.2	2013-02-28			ENSG00000180210	ENSG00000180210	3.4.21.5	"Endogenous ligands"	3535	protein-coding gene	gene with protein product	"prepro-coagulation factor II"	176930					Standard	NM_000506		Approved		uc001ndf.4	P00734	OTTHUMG00000150344	ENST00000311907.5:c.10G>A	11.37:g.46740795G>A	ENSP00000308541:p.Val4Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7F7|B4E1A7|Q4QZ40|Q53H04|Q53H06|Q69EZ7|Q7Z7P3|Q9UCA1	Missense_Mutation	SNP	ENST00000311907.5	37	CCDS31476.1	.	.	.	.	.	.	.	.	.	.	G	4.679	0.126175	0.08931	.	.	ENSG00000180210	ENST00000311907;ENST00000530231	D;D	0.91295	-2.61;-2.82	5.76	1.65	0.23941	.	1.055420	0.07341	N	0.880761	D	0.84293	0.5440	L	0.34521	1.04	0.09310	N	1	B	0.14438	0.01	B	0.06405	0.002	T	0.71258	-0.4646	10	0.87932	D	0	.	4.8209	0.13390	0.3861:0.1476:0.4664:0.0	.	4	P00734	THRB_HUMAN	I	4	ENSP00000308541:V4I;ENSP00000433907:V4I	ENSP00000308541:V4I	V	+	1	0	F2	46697371	0.575000	0.26692	0.994000	0.49952	0.981000	0.71138	0.307000	0.19296	0.047000	0.15862	-0.140000	0.14226	GTC		0.577	F2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317706.1			A	46740795	G	A	46740795	3	1	585	1	0	0	0	0	1	0	0	0	5344	1145	40	1	12	1	F2	11	46740795	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	40100750	46740795	88265721	82	34829										
LRFN4	78999	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	66627368	66627368	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	actggtcttcactgtggcctTgctggttcggggccgggggg	18	10	2	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr11:66627368T>A	ENST00000309602.4	+	2	1853	c.1610T>A	c.(1609-1611)tTg>tAg	p.L537*	PC_ENST00000393958.2_Intron|LRFN4_ENST00000393952.3_Intron|PC_ENST00000393955.2_Intron|PC_ENST00000393960.1_Intron	NM_024036.4	NP_076941.2	Q6PJG9	LRFN4_HUMAN	leucine rich repeat and fibronectin type III domain containing 4	537						integral component of membrane (GO:0016021)				breast(1)|lung(1)|prostate(1)	3						ACTGTGGCCTTGCTGGTTCGG	0.711																																																0													34	28	30					11																	66627368		2188	4284	6472	SO:0001587	stop_gained	78999			BC007718	CCDS8153.1	11q13.1	2013-02-11				ENSG00000173621		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	28456	protein-coding gene	gene with protein product	"fibronectin type III, immunoglobulin and leucine rich repeat domains 6"	612810				16495444, 16828986	Standard	NM_024036		Approved	MGC3103, SALM3., FIGLER6	uc001ojr.3	Q6PJG9		ENST00000309602.4:c.1610T>A	11.37:g.66627368T>A	ENSP00000312535:p.Leu537*	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VBZ3|Q59GV4|Q8N644|Q9BWJ0	Nonsense_Mutation	SNP	ENST00000309602.4	37	CCDS8153.1	.	.	.	.	.	.	.	.	.	.	T	39	7.854370	0.98525	.	.	ENSG00000173621	ENST00000309602	.	.	.	4.79	4.79	0.61399	.	0.484734	0.15470	N	0.260642	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	12.2823	0.54771	0.0:0.0:0.0:1.0	.	.	.	.	X	537	.	ENSP00000312535:L537X	L	+	2	0	LRFN4	66383944	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.178000	0.58284	1.799000	0.52666	0.379000	0.24179	TTG		0.711	LRFN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393127.1	NM_024036		A	66627368	T	A	66627368	4	1	585	1	0	0	0	0	0	1	0	0	8947	1821	63	5	1616	5	LRFN4	11	66627368	Nonsense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	19886573	66627368	68379148	83	34830										
PCF11	51585	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	82877690	82877690	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	aggcactgaaccaaaggagaAtgtagaaaactggcaaagtt	11	6	0	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr11:82877690A>T	ENST00000298281.4	+	5	2203	c.1751A>T	c.(1750-1752)aAt>aTt	p.N584I		NM_015885.3	NP_056969.2	O94913	PCF11_HUMAN	PCF11 cleavage and polyadenylation factor subunit	584					gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA cleavage (GO:0006379)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	mRNA cleavage factor complex (GO:0005849)|nucleoplasm (GO:0005654)				cervix(1)|endometrium(3)|kidney(4)|large_intestine(1)|lung(22)|ovary(1)|urinary_tract(1)	33						CCAAAGGAGAATGTAGAAAAC	0.393																																																0													66	66	66					11																	82877690		1824	4044	5868	SO:0001583	missense	51585			AB020631	CCDS44689.1	11q13	2013-07-02	2013-07-02		ENSG00000165494	ENSG00000165494			30097	protein-coding gene	gene with protein product		608876	"PCF11, cleavage and polyadenylation factor II subunit, homolog (S. cerevisiae)", "PCF11, cleavage and polyadenylation factor subunit, homolog (S. cerevisiae)"			11060040	Standard	NM_015885		Approved	KIAA0824	uc001ozx.4	O94913	OTTHUMG00000167031	ENST00000298281.4:c.1751A>T	11.37:g.82877690A>T	ENSP00000298281:p.Asn584Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8W7|O43671|Q6P0X8	Missense_Mutation	SNP	ENST00000298281.4	37	CCDS44689.1	.	.	.	.	.	.	.	.	.	.	A	16.07	3.019444	0.54576	.	.	ENSG00000165494	ENST00000298281;ENST00000530660;ENST00000530304	T;T;T	0.53206	1.58;0.64;0.63	6.07	6.07	0.98685	.	0.000000	0.64402	D	0.000005	T	0.54775	0.1879	L	0.29908	0.895	0.33890	D	0.637211	D;P	0.71674	0.998;0.915	P;B	0.61940	0.896;0.294	T	0.62798	-0.6778	9	.	.	.	.	16.6406	0.85098	1.0:0.0:0.0:0.0	.	584;584	E9PQ01;O94913	.;PCF11_HUMAN	I	584	ENSP00000298281:N584I;ENSP00000434540:N584I;ENSP00000431567:N584I	.	N	+	2	0	PCF11	82555338	1.000000	0.71417	0.991000	0.47740	0.967000	0.64934	3.827000	0.55745	2.326000	0.78906	0.533000	0.62120	AAT		0.393	PCF11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392548.2	NM_015885		T	82877690	A	T	82877690	3	4	585	1	0	0	0	0	1	0	0	0	11580	101	4	5	1769	5	PCF11	11	82877690	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	16250322	82877690	52128826	84	34831										
PCF11	51585	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	82878314	82878314	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	aatcttcagattcctaaagaGttaactcttgcaagcaaaag	6	8	3	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr11:82878314G>C	ENST00000298281.4	+	6	2417	c.1965G>C	c.(1963-1965)gaG>gaC	p.E655D		NM_015885.3	NP_056969.2	O94913	PCF11_HUMAN	PCF11 cleavage and polyadenylation factor subunit	655					gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA cleavage (GO:0006379)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	mRNA cleavage factor complex (GO:0005849)|nucleoplasm (GO:0005654)				cervix(1)|endometrium(3)|kidney(4)|large_intestine(1)|lung(22)|ovary(1)|urinary_tract(1)	33						TTCCTAAAGAGTTAACTCTTG	0.368																																																0													62	61	61					11																	82878314		1875	4100	5975	SO:0001583	missense	51585			AB020631	CCDS44689.1	11q13	2013-07-02	2013-07-02		ENSG00000165494	ENSG00000165494			30097	protein-coding gene	gene with protein product		608876	"PCF11, cleavage and polyadenylation factor II subunit, homolog (S. cerevisiae)", "PCF11, cleavage and polyadenylation factor subunit, homolog (S. cerevisiae)"			11060040	Standard	NM_015885		Approved	KIAA0824	uc001ozx.4	O94913	OTTHUMG00000167031	ENST00000298281.4:c.1965G>C	11.37:g.82878314G>C	ENSP00000298281:p.Glu655Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8W7|O43671|Q6P0X8	Missense_Mutation	SNP	ENST00000298281.4	37	CCDS44689.1	.	.	.	.	.	.	.	.	.	.	G	16.59	3.165064	0.57476	.	.	ENSG00000165494	ENST00000298281;ENST00000530660;ENST00000530304	T;T;T	0.48836	1.78;0.82;0.8	5.98	1.48	0.22813	.	0.000000	0.64402	D	0.000015	T	0.42381	0.1200	L	0.29908	0.895	0.26221	N	0.979152	D;D	0.67145	0.996;0.985	P;P	0.54499	0.754;0.541	T	0.25398	-1.0133	9	.	.	.	.	8.1397	0.31076	0.5069:0.0:0.4931:0.0	.	655;655	E9PQ01;O94913	.;PCF11_HUMAN	D	655	ENSP00000298281:E655D;ENSP00000434540:E655D;ENSP00000431567:E655D	.	E	+	3	2	PCF11	82555962	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	0.998000	0.29744	0.412000	0.25729	0.591000	0.81541	GAG		0.368	PCF11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392548.2	NM_015885		C	82878314	G	C	82878314	3	2	585	1	0	0	0	0	1	0	0	0	11580	1020	36	4	1987	4	PCF11	11	82878314	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	624	82878314	52128202	85	34832										
TRIM49	57093	hgsc.bcm.edu	37	chr11	89537575	89537575	+	Nonsense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	atggtgaccgggtctatgaaGtagttcatgcacagggggca	15	7	2	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr11:89537575G>C	ENST00000329758.1	-	3	391	c.63C>G	c.(61-63)taC>taG	p.Y21*	TRIM49_ENST00000532501.2_Nonsense_Mutation_p.Y21*	NM_020358.2	NP_065091.1	P0CI25	TRI49_HUMAN	tripartite motif containing 49	21						intracellular (GO:0005622)	zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|liver(1)|lung(14)|prostate(1)|skin(2)|stomach(1)	27		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				GGTCTATGAAGTAGTTCATGC	0.473																																																0													21	21	21					11																	89537575		2185	4268	6453	SO:0001587	stop_gained	57093			AB037682	CCDS8287.1	11p11.12-q12	2012-05-21	2011-01-25	2004-11-17	ENSG00000168930	ENSG00000168930		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	13431	protein-coding gene	gene with protein product		606124	"ring finger protein 18", "tripartite motif-containing 49"	RNF18		11018261	Standard	NM_020358		Approved	TRIM49A	uc001pdb.3	P0CI25		ENST00000329758.1:c.63C>G	11.37:g.89537575G>C	ENSP00000327604:p.Tyr21*	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVR7|A0AVR9|Q6DJV1|Q9NS80	Nonsense_Mutation	SNP	ENST00000329758.1	37	CCDS8287.1	.	.	.	.	.	.	.	.	.	.	G	11.69	1.713868	0.30413	.	.	ENSG00000168930	ENST00000329758;ENST00000532501	.	.	.	0.821	-0.817	0.10836	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	2.9772	0.05941	0.6362:0.0:0.3638:0.0	.	.	.	.	X	21	.	.	Y	-	3	2	TRIM49	89177223	0.000000	0.05858	0.011000	0.14972	0.050000	0.14768	-0.246000	0.08878	-0.218000	0.10018	0.194000	0.17425	TAC		0.473	TRIM49-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395435.1	NM_020358		C	89537575	G	C	89537575	4	2	585	1	0	0	0	0	0	1	0	0	16536	1024	36	4	1319	4	TRIM49	11	89537575	Nonsense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	6659261	89537575	45468941	86	34833										
RPUSD4	84881	broad.mit.edu	37	chr11	126079570	126079570	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gtggccatgaagcatctttgCcaggataggtagtacatcag	12	8	2	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr11:126079570C>T	ENST00000298317.4	-	3	456	c.403G>A	c.(403-405)Gca>Aca	p.A135T	RP11-50B3.4_ENST00000532866.1_RNA|FAM118B_ENST00000360194.4_5'Flank|RPUSD4_ENST00000533628.1_Missense_Mutation_p.A135T|RPUSD4_ENST00000534393.1_5'UTR|FAM118B_ENST00000529731.1_5'Flank|FAM118B_ENST00000533050.1_5'Flank	NM_032795.2	NP_116184.2	Q96CM3	RUSD4_HUMAN	RNA pseudouridylate synthase domain containing 4	135					pseudouridine synthesis (GO:0001522)	mitochondrion (GO:0005739)	poly(A) RNA binding (GO:0044822)|pseudouridine synthase activity (GO:0009982)			breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(3)|lung(8)|skin(1)	17	all_hematologic(175;0.145)	Breast(109;0.00867)|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;0.0761)		AGCATCTTTGCCAGGATAGGT	0.532																																																0													212	196	202					11																	126079570		2201	4299	6500	SO:0001583	missense	84881			BC014131	CCDS8469.1, CCDS53721.1	11q24.2	2013-02-11			ENSG00000165526	ENSG00000165526		"RNA pseudouridylate synthase domain containing"	25898	protein-coding gene	gene with protein product							Standard	NM_032795		Approved	FLJ14494	uc001qde.3	Q96CM3	OTTHUMG00000165815	ENST00000298317.4:c.403G>A	11.37:g.126079570C>T	ENSP00000298317:p.Ala135Thr	Somatic		WXS	Illumina HiSeq	Phase_I	E9PML2|Q96K56	Missense_Mutation	SNP	ENST00000298317.4	37	CCDS8469.1	.	.	.	.	.	.	.	.	.	.	C	25.6	4.656196	0.88056	.	.	ENSG00000165526	ENST00000298317;ENST00000533628;ENST00000532674	T;T;T	0.21543	2.0;2.0;2.0	5.33	5.33	0.75918	Pseudouridine synthase, RsuA and RluB/C/D/E/F (1);Pseudouridine synthase, catalytic domain (1);	0.054402	0.64402	D	0.000001	T	0.36880	0.0983	L	0.53561	1.675	0.45172	D	0.998189	P;P	0.47191	0.872;0.891	P;P	0.57720	0.688;0.826	T	0.02471	-1.1154	10	0.15066	T	0.55	-6.8966	18.0365	0.89305	0.0:1.0:0.0:0.0	.	135;135	E9PML2;Q96CM3	.;RUSD4_HUMAN	T	135	ENSP00000298317:A135T;ENSP00000433065:A135T;ENSP00000433709:A135T	ENSP00000298317:A135T	A	-	1	0	RPUSD4	125584780	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.771000	0.55318	2.495000	0.84180	0.655000	0.94253	GCA		0.532	RPUSD4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386336.1	NM_032795		T	126079570	C	T	126079570	3	4	585	1	0	0	0	0	1	0	0	0	13682	739	26	2	750	2	RPUSD4	11	126079570	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08	36541995	126079570	8926946	87	34834										
SLC6A13	6540	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	346349	346349	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ctgtggacttcacccccttcCagatgcagaagtagcagatg	10	12	1	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr12:346349C>G	ENST00000343164.4	-	6	723	c.671G>C	c.(670-672)tGg>tCg	p.W224S	SLC6A13_ENST00000445055.2_Missense_Mutation_p.W132S	NM_016615.4	NP_057699.2	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter transporter), member 13	224					neurotransmitter secretion (GO:0007269)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	gamma-aminobutyric acid:sodium symporter activity (GO:0005332)|neurotransmitter:sodium symporter activity (GO:0005328)			NS(1)|autonomic_ganglia(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(7)|lung(11)|prostate(1)|urinary_tract(1)	28	all_cancers(10;0.0416)|all_epithelial(11;0.0537)|all_lung(10;0.0989)|Lung NSC(10;0.139)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00153)|BRCA - Breast invasive adenocarcinoma(9;0.239)			CACCCCCTTCCAGATGCAGAA	0.632																																																0													87	83	84					12																	346349		2203	4300	6503	SO:0001583	missense	6540			U76343	CCDS8502.1, CCDS53729.1, CCDS58198.1	12p13.33	2013-07-19	2013-07-19		ENSG00000010379	ENSG00000010379		"Solute carriers"	11046	protein-coding gene	gene with protein product	"GABA transporter 2"	615097	"solute carrier family 6 (neurotransmitter transporter, GABA), member 13"				Standard	NM_001243392		Approved	GAT2	uc001qic.2	Q9NSD5	OTTHUMG00000168053	ENST00000343164.4:c.671G>C	12.37:g.346349C>G	ENSP00000339260:p.Trp224Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DJL1|Q8TCC2|Q8WW56	Missense_Mutation	SNP	ENST00000343164.4	37	CCDS8502.1	.	.	.	.	.	.	.	.	.	.	C	26.9	4.782040	0.90282	.	.	ENSG00000010379	ENST00000445055;ENST00000313154;ENST00000343164;ENST00000546319	T;T;T	0.74842	-0.88;-0.88;-0.88	5.5	5.5	0.81552	.	0.054680	0.85682	D	0.000000	D	0.85013	0.5600	M	0.76170	2.325	0.80722	D	1	D;D;D	0.57257	0.979;0.971;0.971	P;P;P	0.59546	0.859;0.827;0.827	D	0.85988	0.1487	10	0.87932	D	0	.	19.6592	0.95857	0.0:1.0:0.0:0.0	.	132;203;224	B4DJL1;B4DJS3;Q9NSD5	.;.;S6A13_HUMAN	S	132;203;224;132	ENSP00000407104:W132S;ENSP00000339260:W224S;ENSP00000444606:W132S	ENSP00000318097:W203S	W	-	2	0	SLC6A13	216610	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.905000	0.69893	2.880000	0.98712	0.650000	0.86243	TGG		0.632	SLC6A13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397801.1	NM_016615		G	346349	C	G	346349	3	3	585	1	0	0	0	0	1	0	0	0	14689	595	21	4	1177	4	SLC6A13	12	346349	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08		346349	133505546	88	34835										
DCP1B	196513	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	2064679	2064679	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	atgagatttggattgtcataGatggcagaggaactggttat	13	3	1	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr12:2064679G>C	ENST00000280665.6	-	6	649	c.570C>G	c.(568-570)atC>atG	p.I190M	DCP1B_ENST00000541700.1_Intron|DCP1B_ENST00000540622.1_Missense_Mutation_p.I64M|DCP1B_ENST00000397173.4_Missense_Mutation_p.I88M	NM_152640.3	NP_689853.3	Q8IZD4	DCP1B_HUMAN	decapping mRNA 1B	190					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay (GO:0043928)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA metabolic process (GO:0016070)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)	hydrolase activity (GO:0016787)			NS(1)|breast(1)|endometrium(6)|kidney(2)|large_intestine(3)|lung(10)|skin(1)	24			OV - Ovarian serous cystadenocarcinoma(31;0.00193)			GATTGTCATAGATGGCAGAGG	0.413																																																0													239	227	231					12																	2064679		2203	4300	6503	SO:0001583	missense	196513			AY146652	CCDS31727.1	12p13.33	2013-05-02	2013-05-02		ENSG00000151065	ENSG00000151065			24451	protein-coding gene	gene with protein product		609843	"DCP1 decapping enzyme homolog B (S. cerevisiae)"			12417715, 15067023	Standard	NM_152640		Approved	FLJ31638	uc001qjx.1	Q8IZD4	OTTHUMG00000168113	ENST00000280665.6:c.570C>G	12.37:g.2064679G>C	ENSP00000280665:p.Ile190Met	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRD1|Q86XH9|Q96BP8|Q96MZ8	Missense_Mutation	SNP	ENST00000280665.6	37	CCDS31727.1	.	.	.	.	.	.	.	.	.	.	G	18.95	3.732160	0.69189	.	.	ENSG00000151065	ENST00000280665;ENST00000397173;ENST00000540622	T;T;T	0.23950	2.1;2.1;1.88	5.73	4.84	0.62591	.	0.054750	0.64402	D	0.000001	T	0.49029	0.1533	M	0.67953	2.075	0.45791	D	0.998674	D;D	0.89917	1.0;0.999	D;D	0.87578	0.998;0.971	T	0.51849	-0.8653	10	0.72032	D	0.01	-25.192	13.8354	0.63406	0.0731:0.0:0.9269:0.0	.	88;190	B4DRD1;Q8IZD4	.;DCP1B_HUMAN	M	190;88;64	ENSP00000280665:I190M;ENSP00000380358:I88M;ENSP00000444374:I64M	ENSP00000280665:I190M	I	-	3	3	DCP1B	1934940	1.000000	0.71417	0.999000	0.59377	0.998000	0.95712	1.749000	0.38319	1.426000	0.47256	0.655000	0.94253	ATC		0.413	DCP1B-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398244.1	NM_152640		C	2064679	G	C	2064679	3	2	585	1	0	0	0	0	1	0	0	0	4301	932	33	4	1299	4	DCP1B	12	2064679	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	1718330	2064679	131787216	89	34836										
DDX47	51202	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	12980185	12980185	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gttttccttcctcaggtatgAtgtggaactcttccagcgca	9	11	2	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr12:12980185A>C	ENST00000358007.3	+	11	1134	c.1112A>C	c.(1111-1113)gAt>gCt	p.D371A	DDX47_ENST00000352940.4_Missense_Mutation_p.D322A	NM_016355.3	NP_057439.2	Q9H0S4	DDX47_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 47	371	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|mRNA processing (GO:0006397)|RNA splicing (GO:0008380)|rRNA processing (GO:0006364)	membrane (GO:0016020)|nucleolus (GO:0005730)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(5)|kidney(1)|large_intestine(3)|lung(3)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	16		Prostate(47;0.0526)		BRCA - Breast invasive adenocarcinoma(232;0.0354)		CTCAGGTATGATGTGGAACTC	0.448																																																0													110	109	110					12																	12980185		2203	4300	6503	SO:0001583	missense	51202			AK127712	CCDS8655.1, CCDS8656.1	12p13.2	2010-07-06			ENSG00000213782	ENSG00000213782		"DEAD-boxes"	18682	protein-coding gene	gene with protein product		615428					Standard	NM_016355		Approved	DKFZp564O176, FLJ30012, HQ0256, RRP3	uc001rax.3	Q9H0S4	OTTHUMG00000168709	ENST00000358007.3:c.1112A>C	12.37:g.12980185A>C	ENSP00000350698:p.Asp371Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXP4|G5E955|Q96GM0|Q96NV8|Q9UI98	Missense_Mutation	SNP	ENST00000358007.3	37	CCDS8655.1	.	.	.	.	.	.	.	.	.	.	A	20.1	3.939470	0.73557	.	.	ENSG00000213782	ENST00000352940;ENST00000358007	T;T	0.52983	0.64;3.36	5.64	5.64	0.86602	Helicase, C-terminal (1);	0.050495	0.85682	D	0.000000	T	0.73560	0.3602	M	0.89287	3.02	0.80722	D	1	D;D	0.76494	0.998;0.999	D;D	0.74023	0.982;0.971	T	0.79650	-0.1715	10	0.87932	D	0	-16.8971	15.8578	0.78994	1.0:0.0:0.0:0.0	.	322;371	G5E955;Q9H0S4	.;DDX47_HUMAN	A	322;371	ENSP00000319578:D322A;ENSP00000350698:D371A	ENSP00000319578:D322A	D	+	2	0	DDX47	12871452	1.000000	0.71417	0.944000	0.38274	0.435000	0.31806	8.932000	0.92897	2.147000	0.66899	0.533000	0.62120	GAT		0.448	DDX47-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400674.1	NM_016355		C	12980185	A	C	12980185	3	2	585	1	0	0	0	0	1	0	0	0	4367	333	12	5	1154	5	DDX47	12	12980185	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	10915506	12980185	120871710	90	34837										
ITPR2	3709	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	26810769	26810769	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gccaaacttcttcatcatcaAtgtcatctgaaaggatggag	8	9	6	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr12:26810769A>T	ENST00000381340.3	-	18	2479	c.2063T>A	c.(2062-2064)aTt>aAt	p.I688N		NM_002223.2	NP_002214.2	Q14571	ITPR2_HUMAN	inositol 1,4,5-trisphosphate receptor, type 2	688					activation of phospholipase C activity (GO:0007202)|blood coagulation (GO:0007596)|cellular response to cAMP (GO:0071320)|cellular response to ethanol (GO:0071361)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|inositol phosphate-mediated signaling (GO:0048016)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet activation (GO:0030168)|regulation of insulin secretion (GO:0050796)|response to hypoxia (GO:0001666)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|transport (GO:0006810)	cell cortex (GO:0005938)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|platelet dense tubular network membrane (GO:0031095)|receptor complex (GO:0043235)|sarcoplasmic reticulum membrane (GO:0033017)	calcium ion transmembrane transporter activity (GO:0015085)|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0005220)|phosphatidylinositol binding (GO:0035091)		ETV6/ITPR2(2)	biliary_tract(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(16)|large_intestine(20)|liver(1)|lung(51)|ovary(5)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(5)|urinary_tract(3)	125	Colorectal(261;0.0847)				Caffeine(DB00201)	TTCATCATCAATGTCATCTGA	0.423																																																0													117	109	112					12																	26810769		1908	4126	6034	SO:0001583	missense	3709			D26350	CCDS41764.1	12p11.23	2014-07-18	2011-04-28		ENSG00000123104	ENSG00000123104		"Ion channels / Inositol triphosphate receptors"	6181	protein-coding gene	gene with protein product	"cilia and flagella associated protein 48"	600144	"inositol 1,4,5-triphosphate receptor, type 2"			8081734	Standard	XM_006719064		Approved	IP3R2, CFAP48	uc001rhg.3	Q14571	OTTHUMG00000169181	ENST00000381340.3:c.2063T>A	12.37:g.26810769A>T	ENSP00000370744:p.Ile688Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O94773	Missense_Mutation	SNP	ENST00000381340.3	37	CCDS41764.1	.	.	.	.	.	.	.	.	.	.	A	8.672	0.902956	0.17760	.	.	ENSG00000123104	ENST00000381340	D	0.91894	-2.93	4.4	4.4	0.53042	.	0.556787	0.20935	N	0.083032	D	0.83815	0.5336	N	0.14661	0.345	0.80722	D	1	B	0.06786	0.001	B	0.10450	0.005	T	0.78633	-0.2128	10	0.23891	T	0.37	.	12.6771	0.56901	1.0:0.0:0.0:0.0	.	688	Q14571	ITPR2_HUMAN	N	688	ENSP00000370744:I688N	ENSP00000370744:I688N	I	-	2	0	ITPR2	26702036	0.839000	0.29477	0.973000	0.42090	0.226000	0.24999	3.396000	0.52565	1.983000	0.57843	0.533000	0.62120	ATT		0.423	ITPR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402732.1	NM_002223		T	26810769	A	T	26810769	3	4	585	1	0	0	0	0	1	0	0	0	7928	101	4	5	6202	5	ITPR2	12	26810769	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	13830584	26810769	107041126	91	34838										
SLC2A13	114134	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	40265609	40265609	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cagccacctacctgctaaacTaccaaaggtaagctttctgc	6	14	1	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr12:40265609T>C	ENST00000280871.4	-	5	1239	c.1189A>G	c.(1189-1191)Agt>Ggt	p.S397G		NM_052885.3	NP_443117.3	Q96QE2	MYCT_HUMAN	solute carrier family 2 (facilitated glucose transporter), member 13	397					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	substrate-specific transmembrane transporter activity (GO:0022891)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(12)|ovary(1)|prostate(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	29		Lung NSC(34;0.105)|all_lung(34;0.123)				CCTGCTAAACTACCAAAGGTA	0.378										HNSCC(50;0.14)																																						0													55	54	54					12																	40265609		2203	4300	6503	SO:0001583	missense	114134			AJ315644	CCDS8736.2	12q12	2013-05-22			ENSG00000151229	ENSG00000151229		"Solute carriers"	15956	protein-coding gene	gene with protein product	"H(+)-myo-inositol symporter"	611036				11500374	Standard	NM_052885		Approved	HMIT	uc010skm.2	Q96QE2	OTTHUMG00000059743	ENST00000280871.4:c.1189A>G	12.37:g.40265609T>C	ENSP00000280871:p.Ser397Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q17S07	Missense_Mutation	SNP	ENST00000280871.4	37	CCDS8736.2	.	.	.	.	.	.	.	.	.	.	T	25.2	4.609414	0.87258	.	.	ENSG00000151229	ENST00000280871	T	0.58797	0.31	5.48	5.48	0.80851	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);Sugar transporter, conserved site (1);	0.000000	0.85682	D	0.000000	T	0.59487	0.2197	N	0.19112	0.55	0.80722	D	1	D	0.65815	0.995	D	0.67382	0.951	T	0.54556	-0.8276	10	0.14252	T	0.57	-16.2802	15.8683	0.79084	0.0:0.0:0.0:1.0	.	397	Q96QE2	MYCT_HUMAN	G	397	ENSP00000280871:S397G	ENSP00000280871:S397G	S	-	1	0	SLC2A13	38551876	1.000000	0.71417	0.996000	0.52242	0.977000	0.68977	7.745000	0.85046	2.214000	0.71695	0.528000	0.53228	AGT		0.378	SLC2A13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132849.2			C	40265609	T	C	40265609	3	2	585	1	0	0	0	0	1	0	0	0	14555	1522	53	3	781	3	SLC2A13	12	40265609	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	13454840	40265609	93586286	92	34839										
CCNT1	904	broad.mit.edu	37	chr12	49088009	49088009	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ggacagccaacgcttgcccgGcaacatctccacactggtta	9	15	1	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr12:49088009G>A	ENST00000261900.3	-	9	1210	c.988C>T	c.(988-990)Ccg>Tcg	p.P330S		NM_001240.3	NP_001231.2	O60563	CCNT1_HUMAN	cyclin T1	330					cell cycle (GO:0007049)|cell division (GO:0051301)|gene expression (GO:0010467)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of viral transcription (GO:0050434)|protein phosphorylation (GO:0006468)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|positive transcription elongation factor complex b (GO:0008024)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|snRNA binding (GO:0017069)|transcription regulatory region DNA binding (GO:0044212)			breast(3)|endometrium(1)|kidney(1)|large_intestine(4)|lung(13)|ovary(3)|skin(2)	27						CGCTTGCCCGGCAACATCTCC	0.488																																																0													123	111	115					12																	49088009		2203	4300	6503	SO:0001583	missense	904			AF048730	CCDS8766.1, CCDS61109.1	12q13.11	2010-11-15			ENSG00000129315	ENSG00000129315			1599	protein-coding gene	gene with protein product		143055	"human immunodeficiency virus type 1 (HIV-1) expression (elevated) 1"	HIVE1		9491887, 9499409	Standard	NM_001240		Approved	CCNT, CYCT1	uc001rsd.4	O60563	OTTHUMG00000170393	ENST00000261900.3:c.988C>T	12.37:g.49088009G>A	ENSP00000261900:p.Pro330Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A9XU13|E7EX76|O60581	Missense_Mutation	SNP	ENST00000261900.3	37	CCDS8766.1	.	.	.	.	.	.	.	.	.	.	G	0.006	-2.037628	0.00402	.	.	ENSG00000129315	ENST00000261900	T	0.40476	1.03	5.49	4.6	0.57074	.	0.466481	0.20096	N	0.099336	T	0.17195	0.0413	N	0.08118	0	0.19575	N	0.999967	B	0.02656	0.0	B	0.01281	0.0	T	0.31308	-0.9948	10	0.02654	T	1	-0.5634	6.0824	0.19948	0.166:0.1564:0.6776:0.0	.	330	O60563	CCNT1_HUMAN	S	330	ENSP00000261900:P330S	ENSP00000261900:P330S	P	-	1	0	CCNT1	47374276	0.206000	0.23470	0.888000	0.34837	0.341000	0.28922	2.581000	0.46077	1.327000	0.45338	0.491000	0.48974	CCG		0.488	CCNT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408853.1	NM_001240		A	49088009	G	A	49088009	3	1	585	1	0	0	0	0	1	0	0	0	2936	1203	42	2	1196	2	CCNT1	12	49088009	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	8822400	49088009	84763886	93	34840										
MARS	4141	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	57891971	57891971	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ctggagaaaggaatgtgctcAtcaccagtgccctcccttac	9	13	2	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr12:57891971A>C	ENST00000262027.5	+	8	936	c.802A>C	c.(802-804)Atc>Ctc	p.I268L	MARS_ENST00000447721.2_3'UTR|MARS_ENST00000315473.5_Missense_Mutation_p.I34L	NM_004990.3	NP_004981.2	P56192	SYMC_HUMAN	methionyl-tRNA synthetase	268					gene expression (GO:0010467)|methionyl-tRNA aminoacylation (GO:0006431)|tRNA aminoacylation for protein translation (GO:0006418)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|methionine-tRNA ligase activity (GO:0004825)|tRNA binding (GO:0000049)			breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(8)|lung(8)|ovary(3)|pancreas(1)|prostate(2)|skin(1)	33			GBM - Glioblastoma multiforme(3;4.27e-41)		L-Methionine(DB00134)	GAATGTGCTCATCACCAGTGC	0.537																																																0													182	131	148					12																	57891971		2203	4300	6503	SO:0001583	missense	4141			X94754	CCDS8942.1	12q13.3	2014-05-06	2007-02-26		ENSG00000166986	ENSG00000166986	6.1.1.10	"Aminoacyl tRNA synthetases / Class I"	6898	protein-coding gene	gene with protein product	"methionine tRNA ligase 1, cytoplasmic"	156560				10448063, 24482476	Standard	NM_004990		Approved	MetRS, SPG70	uc001sog.3	P56192	OTTHUMG00000169996	ENST00000262027.5:c.802A>C	12.37:g.57891971A>C	ENSP00000262027:p.Ile268Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVK7|Q14895|Q53H14|Q96A15|Q96BZ0|Q9NSE0	Missense_Mutation	SNP	ENST00000262027.5	37	CCDS8942.1	.	.	.	.	.	.	.	.	.	.	A	26.7	4.760542	0.89932	.	.	ENSG00000166986	ENST00000262027;ENST00000315473	T;T	0.54675	1.05;0.56	4.7	4.7	0.59300	Aminoacyl-tRNA synthetase, class I (M) (1);Rossmann-like alpha/beta/alpha sandwich fold (1);	0.070998	0.64402	D	0.000014	T	0.69223	0.3087	M	0.85630	2.765	0.54753	D	0.999982	B;P;P	0.45902	0.338;0.606;0.868	B;P;P	0.55087	0.167;0.46;0.768	T	0.74760	-0.3556	10	0.72032	D	0.01	-16.6576	11.9918	0.53180	1.0:0.0:0.0:0.0	.	34;141;268	A6NC17;B4E0E9;P56192	.;.;SYMC_HUMAN	L	268;34	ENSP00000262027:I268L;ENSP00000314653:I34L	ENSP00000262027:I268L	I	+	1	0	MARS	56178238	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	3.315000	0.51951	1.884000	0.54569	0.459000	0.35465	ATC		0.537	MARS-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407014.1	NM_004990		C	57891971	A	C	57891971	3	2	585	1	0	0	0	0	1	0	0	0	9323	217	8	5	832	5	MARS	12	57891971	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	8803962	57891971	75959924	94	34841										
NAV3	89795	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	78513435	78513436	+	Frame_Shift_Ins	INS	-	-	G													0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gtggcattcctggccgaggaINSggccacagatccagtaccag							TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr12:78513435_78513436insG	ENST00000397909.2	+	15	3632_3633	c.3459_3460insG	c.(3460-3462)ggcfs	p.G1154fs	NAV3_ENST00000536525.2_Frame_Shift_Ins_p.G1154fs|NAV3_ENST00000266692.7_Frame_Shift_Ins_p.G1154fs|NAV3_ENST00000228327.6_Frame_Shift_Ins_p.G1154fs			Q8IVL0	NAV3_HUMAN	neuron navigator 3	1154	Ser-rich.					membrane (GO:0016020)|nuclear envelope (GO:0005635)				NS(2)|breast(5)|central_nervous_system(2)|cervix(1)|endometrium(13)|kidney(16)|large_intestine(39)|liver(2)|lung(126)|ovary(5)|pancreas(3)|prostate(6)|skin(5)|stomach(2)|upper_aerodigestive_tract(8)|urinary_tract(1)	236						CTGGCCGAGGAGGCCACAGATC	0.525										HNSCC(70;0.22)																																						0																																										SO:0001589	frameshift_variant	89795			AB023155	CCDS41815.1, CCDS66432.1	12q14.3	2008-08-05				ENSG00000067798			15998	protein-coding gene	gene with protein product	"pore membrane and/or filament interacting like protein 1", "steerin 3"	611629				12079279, 12062803	Standard	XM_005269215		Approved	KIAA0938, POMFIL1	uc001syo.3	Q8IVL0	OTTHUMG00000170001	ENST00000397909.2:c.3461dupG	12.37:g.78513437_78513437dupG	ENSP00000381007:p.Gly1154fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NFW7|Q9Y2E7	Frame_Shift_Ins	INS	ENST00000397909.2	37																																																																																					0.525	NAV3-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000406812.1	NM_001024383		G	78513436	-	G	78513435	7	5	585	1	0	1	1	0	0	0	0	0	10192	291	11	0	3517	0	NAV3	12	78513435	Frame_Shift_Ins	INS	-	TCGA-EV-5903-01A-11D-1589-08	20621464	78513435	55338460	95	34842										
PEBP1	5037	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	118577332	118577332	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cagtcctctccgattatgtgGgctcggggcctcccaagggc	13	14	1	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr12:118577332G>T	ENST00000261313.2	+	3	674	c.322G>T	c.(322-324)Ggc>Tgc	p.G108C	PEBP1_ENST00000542939.1_3'UTR	NM_002567.2	NP_002558.1	P30086	PEBP1_HUMAN	phosphatidylethanolamine binding protein 1	108	Interaction with RAF1.					cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	ATP binding (GO:0005524)|enzyme binding (GO:0019899)|phosphatidylethanolamine binding (GO:0008429)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)|serine-type endopeptidase inhibitor activity (GO:0004867)			ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CGATTATGTGGGCTCGGGGCC	0.527																																					NSCLC(44;94 1357 12187 49467)											0													125	112	116					12																	118577332		2203	4300	6503	SO:0001583	missense	5037			X85033	CCDS9187.1	12q24	2009-06-16	2006-02-16	2006-02-16	ENSG00000089220	ENSG00000089220			8630	protein-coding gene	gene with protein product	"Raf kinase inhibitory protein", "hippocampal cholinergic neurostimulating peptide"	604591	"prostatic binding protein"	PBP		15782137	Standard	NM_002567		Approved	RKIP, HCNP, PEBP	uc001twu.1	P30086	OTTHUMG00000168860	ENST00000261313.2:c.322G>T	12.37:g.118577332G>T	ENSP00000261313:p.Gly108Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4S1	Missense_Mutation	SNP	ENST00000261313.2	37	CCDS9187.1	.	.	.	.	.	.	.	.	.	.	G	25.0	4.595001	0.86953	.	.	ENSG00000089220	ENST00000261313;ENST00000418769	T	0.57595	0.39	5.43	4.54	0.55810	.	0.047800	0.85682	D	0.000000	D	0.82614	0.5075	H	0.98426	4.23	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.88953	0.3388	10	0.87932	D	0	.	13.8987	0.63790	0.0734:0.0:0.9265:0.0	.	108;108	B4DRT4;P30086	.;PEBP1_HUMAN	C	108	ENSP00000261313:G108C	ENSP00000261313:G108C	G	+	1	0	PEBP1	117061715	1.000000	0.71417	1.000000	0.80357	0.957000	0.61999	9.447000	0.97595	1.280000	0.44463	0.563000	0.77884	GGC		0.527	PEBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401405.1	NM_002567		T	118577332	G	T	118577332	3	4	585	1	0	0	0	0	1	0	0	0	11720	1232	43	4	332	4	PEBP1	12	118577332	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	40063897	118577332	15274563	96	34843										
PSPC1	55269	hgsc.bcm.edu;bcgsc.ca	37	chr13	20356720	20356720	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gtcgatagtgaaccccatctCctcgtccgggtggtcctctg	11	14	2	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr13:20356720C>T	ENST00000338910.4	-	1	337	c.178G>A	c.(178-180)Gag>Aag	p.E60K		NM_001042414.2	NP_001035879.1	Q8WXF1	PSPC1_HUMAN	paraspeckle component 1	60					negative regulation of transcription, DNA-templated (GO:0045892)|regulation of circadian rhythm (GO:0042752)|rhythmic process (GO:0048511)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)|paraspeckles (GO:0042382)	core promoter binding (GO:0001047)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(1)|large_intestine(4)|lung(10)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	23		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		AACCCCATCTCCTCGTCCGGG	0.692																																																0													35	37	36					13																	20356720		1929	4130	6059	SO:0001583	missense	55269			AK001817	CCDS41870.1	13q11	2013-02-12			ENSG00000121390	ENSG00000121390		"RNA binding motif (RRM) containing"	20320	protein-coding gene	gene with protein product		612408				11790299	Standard	NM_001042414		Approved	PSP1, FLJ10955	uc021rgx.1	Q8WXF1	OTTHUMG00000016502	ENST00000338910.4:c.178G>A	13.37:g.20356720C>T	ENSP00000343966:p.Glu60Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JTQ3|Q8NCZ9|Q8WXE8|Q9NV36	Missense_Mutation	SNP	ENST00000338910.4	37	CCDS41870.1	.	.	.	.	.	.	.	.	.	.	C	13.65	2.301856	0.40694	.	.	ENSG00000121390	ENST00000338910;ENST00000427943	T;T	0.14640	2.49;2.52	4.8	4.8	0.61643	.	0.347470	0.29396	N	0.012262	T	0.12561	0.0305	L	0.36672	1.1	0.45648	D	0.998577	B	0.21688	0.059	B	0.15870	0.014	T	0.11108	-1.0601	10	0.15499	T	0.54	-5.6938	18.0489	0.89341	0.0:1.0:0.0:0.0	.	60	Q8WXF1	PSPC1_HUMAN	K	60	ENSP00000343966:E60K;ENSP00000393069:E60K	ENSP00000343966:E60K	E	-	1	0	PSPC1	19254720	0.983000	0.35010	0.801000	0.32222	0.460000	0.32559	3.317000	0.51968	2.511000	0.84671	0.313000	0.20887	GAG		0.692	PSPC1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044037.2			T	20356720	C	T	20356720	3	4	585	1	0	0	0	0	1	0	0	0	12726	864	30	2	1429	2	PSPC1	13	20356720	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08		20356720	94813158	97	34844										
SUPT16H	11198	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	21821861	21821861	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	actttgctctgtaagactaaCctgactcttctgcttctgat	6	11	4	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr14:21821861C>T	ENST00000216297.2	-	24	3259		c.e24+1			NM_007192.3	NP_009123.1	Q9Y5B9	SP16H_HUMAN	suppressor of Ty 16 homolog (S. cerevisiae)						DNA repair (GO:0006281)|DNA replication (GO:0006260)|gene expression (GO:0010467)|nucleosome disassembly (GO:0006337)|positive regulation of DNA-templated transcription, elongation (GO:0032786)|positive regulation of viral transcription (GO:0050434)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|viral process (GO:0016032)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			breast(3)|endometrium(4)|kidney(1)|large_intestine(9)|lung(6)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	27	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		GTAAGACTAACCTGACTCTTC	0.378																																																0													178	155	163					14																	21821861		2203	4300	6503	SO:0001630	splice_region_variant	11198			AF152961	CCDS9569.1	14q11.1	2008-08-13	2001-11-28		ENSG00000092201	ENSG00000092201			11465	protein-coding gene	gene with protein product	"facilitates chromatin remodeling 140 kDa subunit"	605012	"suppressor of Ty (S.cerevisiae) 16 homolog"			9489704, 11239457	Standard	NM_007192		Approved	FACT, FACTP140, SPT16/CDC68, FLJ14010, FLJ10857, CDC68	uc001wao.2	Q9Y5B9	OTTHUMG00000029685	ENST00000216297.2:c.2920+1G>A	14.37:g.21821861C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6GMT8|Q6P2F1|Q6PJM1|Q9NRX0	Splice_Site	SNP	ENST00000216297.2	37	CCDS9569.1	.	.	.	.	.	.	.	.	.	.	C	22.2	4.254717	0.80135	.	.	ENSG00000092201	ENST00000216297	.	.	.	5.21	5.21	0.72293	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	17.9497	0.89048	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	SUPT16H	20891701	1.000000	0.71417	0.998000	0.56505	0.899000	0.52679	6.568000	0.73987	2.602000	0.87976	0.558000	0.71614	.		0.378	SUPT16H-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000074025.2		Intron	T	21821861	C	T	21821861	5	4	585	1	0	0	0	0	0	0	1	0	15408	521	18	2	234	2	SUPT16H	14	21821861	Splice_Site	SNP	C	TCGA-EV-5903-01A-11D-1589-08		21821861	85527679	98	34845										
OR4E2	26686	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	22133796	22133796	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cttcttgactattcgtctacCttactgtggccccaacatta	5	13	2	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr14:22133796C>G	ENST00000408935.1	+	1	500	c.500C>G	c.(499-501)cCt>cGt	p.P167R		NM_001001912.1	NP_001001912.1	Q8NGC2	OR4E2_HUMAN	olfactory receptor, family 4, subfamily E, member 2	167						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(5)|ovary(2)|pancreas(1)|skin(2)|urinary_tract(1)	15	all_cancers(95;0.00113)	Acute lymphoblastic leukemia(2;0.0279)		GBM - Glioblastoma multiforme(265;0.0137)		ATTCGTCTACCTTACTGTGGC	0.458																																																0													166	157	160					14																	22133796		1998	4205	6203	SO:0001583	missense	26686				CCDS41916.1	14q11.2	2013-09-23			ENSG00000221977	ENSG00000221977		"GPCR / Class A : Olfactory receptors"	8297	protein-coding gene	gene with protein product							Standard	NM_001001912		Approved		uc010tmd.2	Q8NGC2	OTTHUMG00000168979	ENST00000408935.1:c.500C>G	14.37:g.22133796C>G	ENSP00000386195:p.Pro167Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IET6|Q96R62	Missense_Mutation	SNP	ENST00000408935.1	37	CCDS41916.1	.	.	.	.	.	.	.	.	.	.	C	15.79	2.937879	0.52972	.	.	ENSG00000221977	ENST00000408935	T	0.00193	8.58	5.88	5.88	0.94601	GPCR, rhodopsin-like superfamily (1);	0.000000	0.37955	U	0.001868	T	0.00637	0.0021	M	0.85041	2.73	0.39412	D	0.96676	D	0.89917	1.0	D	0.91635	0.999	T	0.70360	-0.4893	10	0.87932	D	0	.	12.6329	0.56667	0.1653:0.8346:0.0:0.0	.	167	Q8NGC2	OR4E2_HUMAN	R	167	ENSP00000386195:P167R	ENSP00000386195:P167R	P	+	2	0	OR4E2	21203636	0.013000	0.17824	0.998000	0.56505	0.982000	0.71751	2.541000	0.45735	2.777000	0.95525	0.585000	0.79938	CCT		0.458	OR4E2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401874.1			G	22133796	C	G	22133796	3	3	585	1	0	0	0	0	1	0	0	0	11067	681	24	4	502	4	OR4E2	14	22133796	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08	311935	22133796	85215744	99	34846										
AP1G2	8906	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	24036472	24036472	+	Frame_Shift_Del	DEL	C	C	-													0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ctcctgggcctgagtcttggCcccgcgaatctcttcgatga							TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr14:24036472delC	ENST00000308724.5	-	1	807	c.52delG	c.(52-54)gccfs	p.A18fs	AP1G2_ENST00000556277.1_5'UTR|AP1G2_ENST00000397120.3_Frame_Shift_Del_p.A18fs|RP11-66N24.3_ENST00000555968.1_RNA	NM_003917.2	NP_003908.1	O75843	AP1G2_HUMAN	adaptor-related protein complex 1, gamma 2 subunit	18					intracellular protein transport (GO:0006886)|vesicle-mediated transport (GO:0016192)|viral process (GO:0016032)	AP-1 adaptor complex (GO:0030121)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|Golgi-associated vesicle (GO:0005798)|membrane (GO:0016020)|transport vesicle (GO:0030133)	protein transporter activity (GO:0008565)			breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(10)|lung(4)|ovary(1)|pancreas(1)|stomach(1)	28	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00672)		TGAGTCTTGGCCCCGCGAATC	0.637											OREG0022606	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													53	43	46					14																	24036472		2203	4300	6503	SO:0001589	frameshift_variant	8906			AB015318	CCDS9602.1	14q11.2	2008-07-03			ENSG00000213983	ENSG00000213983			556	protein-coding gene	gene with protein product		603534				9733768, 9762922	Standard	XM_005268167		Approved	G2AD	uc001wkl.2	O75843	OTTHUMG00000028760	ENST00000308724.5:c.52delG	14.37:g.24036472delC	ENSP00000312442:p.Ala18fs	Somatic	768	WXS	Illumina HiSeq	Phase_I	D3DS51|O75504	Frame_Shift_Del	DEL	ENST00000308724.5	37	CCDS9602.1																																																																																				0.637	AP1G2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071812.4	NM_003917		-	24036472	C	-	24036472	7	5	585	1	0	1	0	1	0	0	0	0	733	739	26	0	2389	0	AP1G2	14	24036472	Frame_Shift_Del	DEL	C	TCGA-EV-5903-01A-11D-1589-08	1902676	24036472	83313068	100	34847										
NIN	51199	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	51219341	51219341	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tccttctggcatagcatttcTgttagacgttgattaagttc	8	8	2	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr14:51219341T>A	ENST00000382041.3	-	21	5035	c.4845A>T	c.(4843-4845)acA>acT	p.T1615T	NIN_ENST00000389868.3_Silent_p.T902T|NIN_ENST00000245441.5_Silent_p.T1615T|NIN_ENST00000530997.2_Silent_p.T1615T|NIN_ENST00000324330.9_Silent_p.T1615T|NIN_ENST00000382043.4_Silent_p.T902T|NIN_ENST00000453196.1_Silent_p.T1615T	NM_016350.4|NM_182946.1	NP_057434.4|NP_891991	Q8N4C6	NIN_HUMAN	ninein (GSK3B interacting protein)	1615					centrosome localization (GO:0051642)|centrosome-templated microtubule nucleation (GO:0090222)|microtubule anchoring at centrosome (GO:0034454)	centriole (GO:0005814)|centrosome (GO:0005813)|microtubule (GO:0005874)|nucleolus (GO:0005730)|spindle pole (GO:0000922)	calcium ion binding (GO:0005509)|GTP binding (GO:0005525)			breast(4)|central_nervous_system(1)|cervix(2)|endometrium(10)|kidney(5)|large_intestine(13)|lung(16)|ovary(1)|pancreas(1)|prostate(5)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(5)	71	all_epithelial(31;0.00244)|Breast(41;0.127)					ATAGCATTTCTGTTAGACGTT	0.368			T	PDGFRB	MPD																																		Dom	yes		14	14q24	51199	ninein (GSK3B interacting protein)		L	0													306	295	299					14																	51219341		2203	4300	6503	SO:0001819	synonymous_variant	51199			AF212162	CCDS32078.1, CCDS32079.1, CCDS32078.2	14q21-q22	2013-01-10			ENSG00000100503	ENSG00000100503		"EF-hand domain containing"	14906	protein-coding gene	gene with protein product		608684				11004522, 11162463	Standard	NM_020921		Approved		uc001wyi.3	Q8N4C6	OTTHUMG00000029569	ENST00000382041.3:c.4845A>T	14.37:g.51219341T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NDB8|B7WPA3|C9JSB6|C9JSG2|C9JXL2|Q5BKU3|Q6P0P6|Q9BWU6|Q9C012|Q9C013|Q9C014|Q9H5I6|Q9HAT7|Q9HBY5|Q9HCK7|Q9UH61	Silent	SNP	ENST00000382041.3	37	CCDS32079.1	.	.	.	.	.	.	.	.	.	.	T	9.123	1.009401	0.19277	.	.	ENSG00000100503	ENST00000530997;ENST00000389869;ENST00000530853	.	.	.	5.74	-2.9	0.05648	.	.	.	.	.	.	.	.	.	.	.	0.38083	D	0.936736	.	.	.	.	.	.	.	.	.	.	.	.	.	-1.4293	2.5367	0.04716	0.1233:0.351:0.1277:0.398	.	.	.	.	X	1106	.	.	R	-	1	2	NIN	50289091	0.799000	0.28903	0.876000	0.34364	0.839000	0.47603	-0.187000	0.09656	-0.385000	0.07833	0.533000	0.62120	AGA		0.368	NIN-016	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000395207.2	NM_182946		A	51219341	T	A	51219341	2	1	585	1	0	0	0	0	0	0	0	1	10424	1567	55	5		5	NIN	14	51219341	Silent	SNP	T	TCGA-EV-5903-01A-11D-1589-08	27182869	51219341	56130199	101	34848										
MNAT1	4331	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	61434986	61434986	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gctgcctcaccacaggacctTgctggaggctatacttcttc	9	14	2	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr14:61434986T>C	ENST00000261245.4	+	8	950	c.849T>C	c.(847-849)ctT>ctC	p.L283L	MNAT1_ENST00000539616.2_Silent_p.L241L|RP11-193F5.1_ENST00000553946.1_RNA	NM_002431.3	NP_002422.1	P51948	MAT1_HUMAN	MNAT CDK-activating kinase assembly factor 1	283					7-methylguanosine mRNA capping (GO:0006370)|adult heart development (GO:0007512)|ATP catabolic process (GO:0006200)|cell proliferation (GO:0008283)|DNA repair (GO:0006281)|G1/S transition of mitotic cell cycle (GO:0000082)|G2/M transition of mitotic cell cycle (GO:0000086)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|negative regulation of apoptotic process (GO:0043066)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair, DNA damage removal (GO:0000718)|positive regulation of smooth muscle cell proliferation (GO:0048661)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of viral transcription (GO:0050434)|protein complex assembly (GO:0006461)|protein phosphorylation (GO:0006468)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to calcium ion (GO:0051592)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase I promoter (GO:0006360)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase I promoter (GO:0006361)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription-coupled nucleotide-excision repair (GO:0006283)|ventricular system development (GO:0021591)|viral process (GO:0016032)	cytoplasm (GO:0005737)|holo TFIIH complex (GO:0005675)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	protein N-terminus binding (GO:0047485)|zinc ion binding (GO:0008270)			NS(1)|large_intestine(1)|lung(5)|ovary(2)|upper_aerodigestive_tract(2)	11				OV - Ovarian serous cystadenocarcinoma(108;0.0174)		CACAGGACCTTGCTGGAGGCT	0.398								Direct reversal of damage;Direct reversal of damage;Nucleotide excision repair (NER)																																								0													133	119	124					14																	61434986		2203	4300	6503	SO:0001819	synonymous_variant	4331			X87843	CCDS9750.1, CCDS53899.1	14q23	2013-07-31	2013-07-31		ENSG00000020426	ENSG00000020426		"RING-type (C3HC4) zinc fingers", "General transcription factor IIH complex subunits"	7181	protein-coding gene	gene with protein product	"CDK-activating kinase assembly factor"	602659	"menage a trois 1 (CAK assembly factor)", "menage a trois homolog 1, cyclin H assembly factor (Xenopus laevis)"			9465303	Standard	NM_002431		Approved	MAT1, RNF66	uc001xfd.3	P51948	OTTHUMG00000152340	ENST00000261245.4:c.849T>C	14.37:g.61434986T>C		Somatic		WXS	Illumina HiSeq	Phase_I	G3V1U8|Q15817|Q6ICQ7	Silent	SNP	ENST00000261245.4	37	CCDS9750.1																																																																																				0.398	MNAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276956.1	NM_002431		C	61434986	T	C	61434986	2	2	585	1	0	0	0	0	0	0	0	1	9681	1799	63	3		3	MNAT1	14	61434986	Silent	SNP	T	TCGA-EV-5903-01A-11D-1589-08	10215645	61434986	45914554	102	34849										
PAPLN	89932	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	73733497	73733497	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gggtgatacggccaggctatTgtgtgtggtagcaggagaaa	17	5	0	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr14:73733497T>C	ENST00000554301.1	+	24	3621	c.3458T>C	c.(3457-3459)tTg>tCg	p.L1153S	PAPLN_ENST00000427855.1_Missense_Mutation_p.L1153S|PAPLN_ENST00000555445.1_Missense_Mutation_p.L1137S|PAPLN_ENST00000340738.5_Missense_Mutation_p.L1126S|PAPLN_ENST00000381166.3_Intron			O95428	PPN_HUMAN	papilin, proteoglycan-like sulfated glycoprotein	1153	Ig-like C2-type 3.					basement membrane (GO:0005604)	metalloendopeptidase activity (GO:0004222)|serine-type endopeptidase inhibitor activity (GO:0004867)|zinc ion binding (GO:0008270)			NS(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(4)|lung(11)|ovary(3)|pancreas(3)|prostate(5)|skin(3)|upper_aerodigestive_tract(3)	42				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GCCAGGCTATTGTGTGTGGTA	0.542																																																0													211	153	173					14																	73733497		2203	4300	6503	SO:0001583	missense	89932			BC042057	CCDS32114.1	14q24.2	2013-01-11				ENSG00000100767		"Immunoglobulin superfamily / I-set domain containing"	19262	protein-coding gene	gene with protein product						11076767, 19734141	Standard	NM_173462		Approved	MGC50452	uc001xnw.4	O95428		ENST00000554301.1:c.3458T>C	14.37:g.73733497T>C	ENSP00000451803:p.Leu1153Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DES8|B4DGE6|Q659F2|Q6UXJ4|Q6ZNM1|Q6ZUJ0|Q7Z681|Q8IVU0	Missense_Mutation	SNP	ENST00000554301.1	37		.	.	.	.	.	.	.	.	.	.	T	2.259	-0.369785	0.05069	.	.	ENSG00000100767	ENST00000340738;ENST00000427855;ENST00000554301;ENST00000555445	T;T;T;T	0.65178	-0.14;-0.14;-0.14;-0.14	5.06	-8.09	0.01090	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.28400	0.0702	N	0.03608	-0.345	0.24632	N	0.993617	P;P;B;P	0.39920	0.646;0.695;0.2;0.622	B;B;B;B	0.43331	0.292;0.416;0.077;0.217	T	0.31392	-0.9945	9	0.08837	T	0.75	.	2.1116	0.03704	0.3364:0.3542:0.1653:0.1441	.	1137;1153;352;1126	O95428-5;O95428;O95428-2;O95428-6	.;PPN_HUMAN;.;.	S	1126;1153;1153;1137	ENSP00000345395:L1126S;ENSP00000403403:L1153S;ENSP00000451803:L1153S;ENSP00000451729:L1137S	ENSP00000345395:L1126S	L	+	2	0	PAPLN	72803250	0.000000	0.05858	0.051000	0.19133	0.088000	0.18126	0.124000	0.15728	-1.220000	0.02594	-0.389000	0.06534	TTG		0.542	PAPLN-002	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000413182.1	NM_173462		C	73733497	T	C	73733497	3	2	585	1	0	0	0	0	1	0	0	0	11435	1821	63	3	3467	3	PAPLN	14	73733497	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	12298511	73733497	33616043	103	34850										
DLK1	8788	broad.mit.edu	37	chr14	101198410	101198410	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tgctcctcggccccctgtgcCaacaacaggacctgcgtgag	11	16	0	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr14:101198410C>T	ENST00000341267.4	+	4	536	c.294C>T	c.(292-294)gcC>gcT	p.A98A	DLK1_ENST00000331224.6_Silent_p.A98A	NM_003836.5	NP_003827	P80370	DLK1_HUMAN	delta-like 1 homolog (Drosophila)	98	EGF-like 3. {ECO:0000255|PROSITE- ProRule:PRU00076}.				cell differentiation (GO:0030154)|embryonic skeletal system development (GO:0048706)|multicellular organismal development (GO:0007275)|negative regulation of Notch signaling pathway (GO:0045746)|Notch signaling pathway (GO:0007219)|post-embryonic development (GO:0009791)|regulation of gene expression (GO:0010468)	external side of plasma membrane (GO:0009897)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)				breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(16)|ovary(2)|prostate(1)|skin(1)	29		Melanoma(154;0.155)				CCCCCTGTGCCAACAACAGGA	0.627																																																0													64	61	62					14																	101198410		2203	4300	6503	SO:0001819	synonymous_variant	8788			U15979	CCDS9963.1	14q32	2011-12-05	2001-12-03			ENSG00000185559			2907	protein-coding gene	gene with protein product		176290	"delta-like homolog (Drosophila)"			8095043, 7925474	Standard	NM_003836		Approved	FA1, pG2, Pref-1, ZOG, Delta1	uc001yhs.4	P80370		ENST00000341267.4:c.294C>T	14.37:g.101198410C>T		Somatic		WXS	Illumina HiSeq	Phase_I	P15803|Q96DW5	Silent	SNP	ENST00000341267.4	37	CCDS9963.1																																																																																				0.627	DLK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414389.1			T	101198410	C	T	101198410	2	4	585	1	0	0	0	0	0	0	0	1	4566	581	21	2		2	DLK1	14	101198410	Silent	SNP	C	TCGA-EV-5903-01A-11D-1589-08	27464913	101198410	6151130	104	34851										
ACSBG1	23205	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	78474881	78474881	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	agactagcacacagcactggTtgggctgctgggtgtcaatg	14	9	1	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr15:78474881T>G	ENST00000258873.4	-	7	1026	c.821A>C	c.(820-822)aAc>aCc	p.N274T	ACSBG1_ENST00000541759.1_Missense_Mutation_p.N32T|ACSBG1_ENST00000560817.1_Missense_Mutation_p.N32T	NM_001199377.1|NM_015162.4	NP_001186306.1|NP_055977.3	Q96GR2	ACBG1_HUMAN	acyl-CoA synthetase bubblegum family member 1	274					long-chain fatty acid metabolic process (GO:0001676)|myelination (GO:0042552)|ovarian follicle atresia (GO:0001552)|response to glucocorticoid (GO:0051384)|very long-chain fatty acid metabolic process (GO:0000038)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)	ATP binding (GO:0005524)|long-chain fatty acid-CoA ligase activity (GO:0004467)|very long-chain fatty acid-CoA ligase activity (GO:0031957)			endometrium(2)|kidney(2)|large_intestine(11)|liver(1)|lung(15)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)	37						ACAGCACTGGTTGGGCTGCTG	0.587																																																0													81	67	72					15																	78474881		2196	4293	6489	SO:0001583	missense	23205			AB014531	CCDS10298.1	15q23-q24	2006-02-09			ENSG00000103740	ENSG00000103740		"Acyl-CoA synthetase family"	29567	protein-coding gene	gene with protein product	"bubblegum", "very long-chain acyl-CoA synthetase", "lipidosin"	614362				9734811, 10954726	Standard	NM_015162		Approved	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG	uc002bdh.3	Q96GR2	OTTHUMG00000143734	ENST00000258873.4:c.821A>C	15.37:g.78474881T>G	ENSP00000258873:p.Asn274Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RB61|O75126|Q76N27|Q9HC26	Missense_Mutation	SNP	ENST00000258873.4	37	CCDS10298.1	.	.	.	.	.	.	.	.	.	.	T	18.36	3.606742	0.66558	.	.	ENSG00000103740	ENST00000258873;ENST00000541759	T;T	0.11063	2.81;2.81	5.27	5.27	0.74061	AMP-dependent synthetase/ligase (1);	0.056615	0.64402	D	0.000003	T	0.20373	0.0490	L	0.52823	1.66	0.53688	D	0.999972	P;B	0.43519	0.809;0.291	P;B	0.50162	0.633;0.363	T	0.00403	-1.1761	10	0.51188	T	0.08	-47.8285	14.4501	0.67379	0.0:0.0:0.0:1.0	.	270;274	B7Z2Y6;Q96GR2	.;ACBG1_HUMAN	T	274;32	ENSP00000258873:N274T;ENSP00000439955:N32T	ENSP00000258873:N274T	N	-	2	0	ACSBG1	76261936	1.000000	0.71417	1.000000	0.80357	0.901000	0.52897	7.948000	0.87774	1.991000	0.58162	0.529000	0.55759	AAC		0.587	ACSBG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000289802.2	NM_015162		G	78474881	T	G	78474881	3	3	585	1	0	0	0	0	1	0	0	0	173	1725	60	5	1385	5	ACSBG1	15	78474881	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08		78474881	24056511	105	34852										
SOLH	6650	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	599030	599030	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ggatgacagcttccctcccgGgcccgagtctgtcggcttcc	12	16	1	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr16:599030G>A	ENST00000219611.2	+	5	1850	c.1487G>A	c.(1486-1488)gGg>gAg	p.G496E	LA16c-366D1.3_ENST00000565879.1_RNA	NM_005632.2	NP_005623.1	O75808	CAN15_HUMAN	calpain 15	496	Calpain catalytic. {ECO:0000255|PROSITE- ProRule:PRU00239}.				proteolysis (GO:0006508)|regulation of transcription, DNA-templated (GO:0006355)	cytoplasm (GO:0005737)	calcium-dependent cysteine-type endopeptidase activity (GO:0004198)|cysteine-type peptidase activity (GO:0008234)|peptidase activity (GO:0008233)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)										TTCCCTCCCGGGCCCGAGTCT	0.657																																																0													105	94	98					16																	599030		2198	4296	6494	SO:0001583	missense	6650			U85647	CCDS10410.1	16p13.3	2013-06-27	2013-06-27	2013-06-27	ENSG00000103326	ENSG00000103326			11182	protein-coding gene	gene with protein product		603267	"small optic lobes (Drosophila) homolog", "small optic lobes homolog (Drosophila)"	SOLH		9722942	Standard	NM_005632		Approved		uc002chi.3	O75808	OTTHUMG00000119059	ENST00000219611.2:c.1487G>A	16.37:g.599030G>A	ENSP00000219611:p.Gly496Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B1B1M4|Q2KHS2|Q8WTY9|Q9BUW0	Missense_Mutation	SNP	ENST00000219611.2	37	CCDS10410.1	.	.	.	.	.	.	.	.	.	.	g	17.87	3.495721	0.64186	.	.	ENSG00000103326	ENST00000219611	T	0.39056	1.1	5.04	5.04	0.67666	Peptidase C2, calpain, catalytic domain (3);	0.097082	0.64402	D	0.000001	T	0.46776	0.1410	N	0.12920	0.275	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.40496	-0.9560	10	0.21014	T	0.42	.	16.9735	0.86306	0.0:0.0:1.0:0.0	.	496	O75808	CAN15_HUMAN	E	496	ENSP00000219611:G496E	ENSP00000219611:G496E	G	+	2	0	SOLH	539031	1.000000	0.71417	0.994000	0.49952	0.379000	0.30106	7.684000	0.84104	2.347000	0.79759	0.556000	0.70494	GGG		0.657	CAPN15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239271.1	NM_005632		A	599030	G	A	599030	3	1	585	1	0	0	0	0	1	0	0	0	14938	1232	43	2	1493	2	SOLH	16	599030	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08		599030	89755723	106	34853										
ZNF598	90850	hgsc.bcm.edu	37	chr16	2059674	2059674	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	acagcacgcagctcccgcctTcccgctcaggagctgccgcc	10	20	1	0	rs71384660		TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr16:2059674T>C	ENST00000431526.1	-	2	88	c.74A>G	c.(73-75)gAa>gGa	p.E25G	ZNF598_ENST00000563630.1_5'UTR|ZNF598_ENST00000562103.1_5'UTR	NM_178167.2	NP_835461.2	Q86UK7	ZN598_HUMAN	zinc finger protein 598	25							poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|lung(7)|skin(1)|urinary_tract(1)	16						GCTCCCGCCTTCCCGCTCAGG	0.766													C|||	5008	1.0	1.0	1.0	5008	,	,		5162	1.0		1.0	False		,,,				2504	1.0															0													1	2	2					16																	2059674		1089	2314	3403	SO:0001583	missense	90850			BC029270		16p13.3	2008-05-02				ENSG00000167962		"Zinc fingers, C2H2-type"	28079	protein-coding gene	gene with protein product							Standard	NM_178167		Approved	FLJ00086	uc002cof.2	Q86UK7		ENST00000431526.1:c.74A>G	16.37:g.2059674T>C	ENSP00000411409:p.Glu25Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IW49|Q8N3D9|Q96FG3|Q9H7J3	Missense_Mutation	SNP	ENST00000431526.1	37		2168	0.9926739926739927	487	0.9898373983739838	361	0.9972375690607734	568	0.993006993006993	752	0.9920844327176781	N	1.560	-0.537056	0.04082	.	.	ENSG00000167962	ENST00000431526	T	0.77098	-1.07	3.3	3.3	0.37823	.	0.415485	0.23105	N	0.051871	T	0.00012	0.0000	.	.	.	0.48696	P	3.1000000000003247E-4	.	.	.	.	.	.	T	0.34650	-0.9820	6	0.22706	T	0.39	-7.8624	8.393	0.32540	0.0:0.8796:0.0:0.1204	.	.	.	.	G	25	ENSP00000411409:E25G	ENSP00000411409:E25G	E	-	2	0	ZNF598	1999675	1.000000	0.71417	1.000000	0.80357	0.107000	0.19398	0.911000	0.28584	0.691000	0.31592	-0.642000	0.03964	GAA		0.766	ZNF598-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_178167		C	2059674	T	C	2059674	3	2	585	1	0	0	0	0	1	0	0	0	18040	1770	62	3	2689	3	ZNF598	16	2059674	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	1460644	2059674	88295079	107	34854										
CORO7	79585	ucsc.edu	37	chr16	4405363	4405363	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tccccagttttgccaccatgGcattcagcagctgggagaga	11	12	1	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr16:4405363G>A	ENST00000251166.4	-	27	2841	c.2696C>T	c.(2695-2697)gCc>gTc	p.A899V	CORO7_ENST00000539968.1_Missense_Mutation_p.A679V|CORO7-PAM16_ENST00000572467.1_Missense_Mutation_p.A899V|PAM16_ENST00000576217.1_Intron|CORO7-PAM16_ENST00000572274.1_5'UTR|CORO7_ENST00000574025.1_Missense_Mutation_p.A814V|CORO7_ENST00000537233.2_Missense_Mutation_p.A881V	NM_024535.4	NP_078811.3	P57737	CORO7_HUMAN	coronin 7	899					actin filament polymerization (GO:0030041)|Golgi to endosome transport (GO:0006895)|protein transport (GO:0015031)	cytoplasmic vesicle (GO:0031410)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|trans-Golgi network (GO:0005802)	actin binding (GO:0003779)			breast(3)|central_nervous_system(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|lung(8)|prostate(2)|skin(2)|urinary_tract(2)	23						TGCCACCATGGCATTCAGCAG	0.577																																																0													31	26	28					16																	4405363		2197	4300	6497	SO:0001583	missense	79585			AK097238	CCDS10513.1, CCDS55982.1, CCDS58417.1	16p13.3	2013-01-10			ENSG00000262246	ENSG00000262246		"Coronins", "WD repeat domain containing"	26161	protein-coding gene	gene with protein product		611668				15327992	Standard	NM_024535		Approved	FLJ22021		P57737	OTTHUMG00000129465	ENST00000251166.4:c.2696C>T	16.37:g.4405363G>A	ENSP00000251166:p.Ala899Val	Somatic		WXS	Illumina HiSeq		B4DFD6|B4DL18|I3L416|Q17RK4	Missense_Mutation	SNP	ENST00000251166.4	37	CCDS10513.1	.	.	.	.	.	.	.	.	.	.	G	17.88	3.497148	0.64186	.	.	ENSG00000103426	ENST00000251166;ENST00000537233;ENST00000539968	T;T;T	0.68331	-0.32;1.48;-0.32	4.96	4.0	0.46444	.	0.486738	0.16832	N	0.197705	T	0.80042	0.4551	M	0.70595	2.14	0.80722	D	1	D;P;P;D	0.89917	1.0;0.911;0.911;1.0	D;B;B;D	0.91635	0.999;0.432;0.432;0.997	T	0.80241	-0.1464	10	0.62326	D	0.03	-20.2483	12.9016	0.58128	0.0801:0.0:0.9199:0.0	.	814;881;899;880	P57737-2;B4DFD6;P57737;B4DKU9	.;.;CORO7_HUMAN;.	V	899;814;679	ENSP00000251166:A899V;ENSP00000440460:A814V;ENSP00000446221:A679V	ENSP00000251166:A899V	A	-	2	0	CORO7	4345364	1.000000	0.71417	0.997000	0.53966	0.200000	0.23975	7.319000	0.79040	1.091000	0.41335	-0.229000	0.12294	GCC		0.577	CORO7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251628.2	NM_024535		A	4405363	G	A	4405363	3	1	585	1	0	0	0	0	1	0	0	0	3761	1203	42	2	89	2	CORO7	16	4405363	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	2345689	4405363	85949390	108	34855										
TMEM186	25880	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	8890423	8890423	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cacagcttttccccgaaaccTacgcacagctcggagaaggg	10	14	0	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr16:8890423T>C	ENST00000333050.6	-	2	61	c.28A>G	c.(28-30)Agg>Ggg	p.R10G	PMM2_ENST00000539622.1_5'Flank|PMM2_ENST00000268261.4_5'Flank|PMM2_ENST00000537352.1_5'Flank|PMM2_ENST00000569958.1_5'Flank|TMEM186_ENST00000564869.1_Intron|PMM2_ENST00000566983.1_Intron	NM_015421.3	NP_056236.2	Q96B77	TM186_HUMAN	transmembrane protein 186	10						integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)				NS(1)|endometrium(1)|large_intestine(1)|lung(3)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	9						CCCCGAAACCTACGCACAGCT	0.547																																																0													67	70	69					16																	8890423		2197	4300	6497	SO:0001583	missense	25880			BC015912	CCDS10535.1	16p13.2	2008-02-05	2007-02-08	2007-02-08	ENSG00000184857	ENSG00000184857			24530	protein-coding gene	gene with protein product			"chromosome 16 open reading frame 51"	C16orf51		11230166	Standard	NM_015421		Approved	DKFZP564K2062	uc002cze.3	Q96B77	OTTHUMG00000129696	ENST00000333050.6:c.28A>G	16.37:g.8890423T>C	ENSP00000331640:p.Arg10Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAY0|Q9Y4T4	Missense_Mutation	SNP	ENST00000333050.6	37	CCDS10535.1	.	.	.	.	.	.	.	.	.	.	T	12.60	1.985216	0.35036	.	.	ENSG00000184857	ENST00000333050	.	.	.	4.53	2.24	0.28232	.	0.345193	0.20611	N	0.088971	T	0.34193	0.0889	L	0.57536	1.79	0.09310	N	1	P	0.36535	0.557	B	0.33620	0.167	T	0.15983	-1.0418	9	0.36615	T	0.2	-12.3261	8.7598	0.34667	0.0:0.0:0.3002:0.6998	.	10	Q96B77	TM186_HUMAN	G	10	.	ENSP00000331640:R10G	R	-	1	2	TMEM186	8797924	0.000000	0.05858	0.001000	0.08648	0.003000	0.03518	0.134000	0.15932	1.030000	0.39839	0.533000	0.62120	AGG		0.547	TMEM186-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251903.1	NM_015421		C	8890423	T	C	8890423	3	2	585	1	0	0	0	0	1	0	0	0	16120	1521	53	3	617	3	TMEM186	16	8890423	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	4485060	8890423	81464330	109	34856										
SPNS1	83985	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	28989282	28989282	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tgtttggctacctgggtgacAggtacaatcggaagtatctc	12	8	1	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr16:28989282A>G	ENST00000311008.11	+	3	738	c.361A>G	c.(361-363)Agg>Ggg	p.R121G	SPNS1_ENST00000323081.8_Missense_Mutation_p.R48G|SPNS1_ENST00000334536.8_Missense_Mutation_p.R121G|RP11-264B17.3_ENST00000569969.1_RNA|SPNS1_ENST00000352260.7_Missense_Mutation_p.R99G|SPNS1_ENST00000565975.1_Missense_Mutation_p.R166G|RP11-264B17.4_ENST00000567209.1_RNA|SPNS1_ENST00000561868.1_Intron	NM_032038.2	NP_114427.1	Q9H2V7	SPNS1_HUMAN	spinster homolog 1 (Drosophila)	121					lipid transport (GO:0006869)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|mitochondrial inner membrane (GO:0005743)				cervix(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(9)|prostate(1)|skin(2)|urinary_tract(1)	21						CCTGGGTGACAGGTACAATCG	0.577											OREG0023711	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													239	183	202					16																	28989282		2197	4300	6497	SO:0001583	missense	83985			BC006156	CCDS10646.1, CCDS45452.1, CCDS45453.1, CCDS45454.1	16p11.2	2007-04-12			ENSG00000169682	ENSG00000169682			30621	protein-coding gene	gene with protein product		612583				11340170, 12815463	Standard	NM_032038		Approved	HSpin1, nrs, SPINL, PP2030, SPIN1, LAT	uc010vdi.1	Q9H2V7	OTTHUMG00000131762	ENST00000311008.11:c.361A>G	16.37:g.28989282A>G	ENSP00000309945:p.Arg121Gly	Somatic	806	WXS	Illumina HiSeq	Phase_I	B5MDM9|Q6P182|Q71RB5|Q7L541|Q86VU7|Q8N953|Q8TCS5|Q9BRN5	Missense_Mutation	SNP	ENST00000311008.11	37	CCDS10646.1	.	.	.	.	.	.	.	.	.	.	A	17.88	3.497831	0.64186	.	.	ENSG00000169682	ENST00000311008;ENST00000334536;ENST00000352260;ENST00000323081	T;T;T;T	0.65732	-0.17;-0.17;-0.17;-0.17	4.68	3.54	0.40534	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.000000	0.85682	D	0.000000	T	0.81202	0.4773	M	0.92880	3.355	0.58432	D	0.999996	D;D;D;D;D	0.89917	1.0;1.0;0.996;1.0;1.0	D;D;D;D;D	0.97110	0.998;0.999;0.998;0.999;1.0	T	0.82168	-0.0591	10	0.87932	D	0	.	8.7405	0.34554	0.6228:0.3772:0.0:0.0	.	48;99;121;121;121	Q9H2V7-4;Q9H2V7-3;Q9H2V7;Q9H2V7-2;Q9H2V7-5	.;.;SPNS1_HUMAN;.;.	G	121;121;99;48	ENSP00000309945:R121G;ENSP00000335494:R121G;ENSP00000306050:R99G;ENSP00000318228:R48G	ENSP00000309945:R121G	R	+	1	2	SPNS1	28896783	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	3.943000	0.56621	0.774000	0.33427	0.402000	0.26972	AGG		0.577	SPNS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254690.2	NM_032038		G	28989282	A	G	28989282	3	3	585	1	0	0	0	0	1	0	0	0	15086	179	7	3	371	3	SPNS1	16	28989282	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	20098859	28989282	61365471	110	34857										
MT1B	4490	ucsc.edu	37	chr16	56686910	56686910	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ctgctcttgctgccccgtggGctgtgccaagtgtgcccagg	14	14	1	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr16:56686910G>A	ENST00000334346.2	+	3	174	c.119G>A	c.(118-120)gGc>gAc	p.G40D	MT1B_ENST00000562399.1_Silent_p.G39G|RP11-249C24.11_ENST00000568608.1_RNA	NM_005947.2	NP_005938.1	P07438	MT1B_HUMAN	metallothionein 1B	40	Alpha.				cellular response to zinc ion (GO:0071294)|negative regulation of growth (GO:0045926)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	zinc ion binding (GO:0008270)			endometrium(1)|large_intestine(1)|lung(1)|ovary(1)	4						TGCCCCGTGGGCTGTGCCAAG	0.592																																																0													123	121	122					16																	56686910		2198	4300	6498	SO:0001583	missense	4490			AY168638	CCDS10765.1	16q13	2008-02-05	2007-03-02		ENSG00000169688	ENSG00000169688		"Metallothioneins"	7394	protein-coding gene	gene with protein product		156349	"metallothionein 1Q"	MT1, MT1Q		6089206, 3785191	Standard	NM_005947		Approved		uc002ejs.3	P07438	OTTHUMG00000133277	ENST00000334346.2:c.119G>A	16.37:g.56686910G>A	ENSP00000334998:p.Gly40Asp	Somatic		WXS	Illumina HiSeq		Q86YX0	Missense_Mutation	SNP	ENST00000334346.2	37	CCDS10765.1	.	.	.	.	.	.	.	.	.	.	G	10.04	1.241689	0.22711	.	.	ENSG00000169688	ENST00000334346	T	0.10288	2.89	2.84	1.84	0.25277	Metallothionein domain, vertebrate (1);Metallothionein domain (1);	0.089620	0.44483	N	0.000445	T	0.09512	0.0234	.	.	.	0.37807	D	0.927896	B	0.06786	0.001	B	0.06405	0.002	T	0.11891	-1.0569	9	0.66056	D	0.02	.	9.9659	0.41723	0.1226:0.0:0.8774:0.0	.	40	P07438	MT1B_HUMAN	D	40	ENSP00000334998:G40D	ENSP00000334998:G40D	G	+	2	0	MT1B	55244411	0.672000	0.27530	0.943000	0.38184	0.706000	0.40770	2.562000	0.45914	0.086000	0.17137	-1.303000	0.01326	GGC		0.592	MT1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257057.2	NM_005947		A	56686910	G	A	56686910	3	1	585	1	0	0	0	0	1	0	0	0	9905	1203	42	2	129	2	MT1B	16	56686910	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	27697628	56686910	33667843	111	34858										
PMFBP1	83449	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	72198700	72198700	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cctcctccatgcagagctgaTtgtcctgcaaggtcttcctc	8	15	1	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr16:72198700T>C	ENST00000237353.10	-	3	389	c.128A>G	c.(127-129)aAt>aGt	p.N43S	PMFBP1_ENST00000537465.1_Missense_Mutation_p.N43S|PMFBP1_ENST00000355636.6_5'UTR|PMFBP1_ENST00000543746.1_5'UTR	NM_031293.2	NP_112583.2	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	43						cytoplasm (GO:0005737)				NS(1)|breast(3)|endometrium(1)|kidney(2)|large_intestine(7)|lung(25)|ovary(2)|skin(3)|urinary_tract(1)	45		Ovarian(137;0.179)				GCAGAGCTGATTGTCCTGCAA	0.542																																																0													133	111	119					16																	72198700		2198	4300	6498	SO:0001583	missense	83449			AF239683	CCDS32483.1	16q23.1	2008-08-04			ENSG00000118557	ENSG00000118557			17728	protein-coding gene	gene with protein product						11468771	Standard	NM_031293		Approved		uc002fcd.3	Q8TBY8	OTTHUMG00000167827	ENST00000237353.10:c.128A>G	16.37:g.72198700T>C	ENSP00000237353:p.Asn43Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVI9|H7BY07|Q8NA09|Q9BY16|Q9H0H4	Missense_Mutation	SNP	ENST00000237353.10	37	CCDS32483.1	.	.	.	.	.	.	.	.	.	.	T	9.847	1.192729	0.21954	.	.	ENSG00000118557	ENST00000537465;ENST00000237353;ENST00000535461;ENST00000539172;ENST00000536211;ENST00000540440	T;T	0.12774	2.65;2.65	5.85	2.17	0.27698	.	0.117279	0.38959	N	0.001506	T	0.05868	0.0153	N	0.19112	0.55	0.80722	D	1	B;B	0.16396	0.017;0.017	B;B	0.12156	0.007;0.007	T	0.30504	-0.9976	10	0.09590	T	0.72	-14.5061	2.3595	0.04304	0.1534:0.0827:0.1601:0.6038	.	43;43	Q8TBY8-2;G3V1Q7	.;.	S	43	ENSP00000443817:N43S;ENSP00000237353:N43S	ENSP00000237353:N43S	N	-	2	0	PMFBP1	70756201	0.858000	0.29795	0.998000	0.56505	0.204000	0.24138	0.499000	0.22546	0.464000	0.27142	-0.290000	0.09829	AAT		0.542	PMFBP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000396473.2	NM_031293		C	72198700	T	C	72198700	3	2	585	1	0	0	0	0	1	0	0	0	12141	1493	52	3	3031	3	PMFBP1	16	72198700	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	15511790	72198700	18156053	112	34859										
C16orf7	9605	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	89776218	89776219	+	Frame_Shift_Del	DEL	GA	GA	-													0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gcagcagaggccacagcgggGagaaaaagggttcctcaatg					rs565573769		TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr16:89776218_89776219delGA	ENST00000389386.3	-	11	1478_1479	c.1354_1355delTC	c.(1354-1356)tccfs	p.S452fs	VPS9D1_ENST00000561976.1_Frame_Shift_Del_p.S382fs|VPS9D1-AS1_ENST00000562866.1_RNA|VPS9D1_ENST00000565452.1_5'Flank	NM_004913.2	NP_004904.2	Q9Y2B5	VP9D1_HUMAN	VPS9 domain containing 1	452					ATP synthesis coupled proton transport (GO:0015986)		GTPase activator activity (GO:0005096)|transporter activity (GO:0005215)										CCACAGCGGGGAGAAAAAGGGT	0.619																																																0																																										SO:0001589	frameshift_variant	9605			AB018551	CCDS42220.1	16q24.3	2012-10-09	2012-10-09	2012-10-09	ENSG00000075399	ENSG00000075399			13526	protein-coding gene	gene with protein product			"chromosome 16 open reading frame 7"	C16orf7		10231027	Standard	NM_004913		Approved	ATP-BL	uc002fom.1	Q9Y2B5	OTTHUMG00000173219	ENST00000389386.3:c.1354_1355delTC	16.37:g.89776220_89776221delGA	ENSP00000374037:p.Ser452fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000389386.3	37	CCDS42220.1																																																																																				0.619	VPS9D1-002	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000422508.1	NM_004913		-	89776219	GA	-	89776218	7	5	585	1	0	1	0	1	0	0	0	0	1830	1174	41	0	560	0	C16orf7	16	89776218	Frame_Shift_Del	DEL	GA	TCGA-EV-5903-01A-11D-1589-08	17577518	89776218	578535	113	34860										
AIPL1	23746	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	6328845	6328845	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tggctctgcagggggccctgCggacagctctgcagatggtg	17	11	2	1	rs201875142		TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr17:6328845C>T	ENST00000381129.3	-	6	1170	c.1090G>A	c.(1090-1092)Gca>Aca	p.A364T	AIPL1_ENST00000576776.1_Missense_Mutation_p.A340T|AIPL1_ENST00000570466.1_Missense_Mutation_p.A342T|AIPL1_ENST00000575265.1_3'UTR|AIPL1_ENST00000250087.5_Missense_Mutation_p.A301T|AIPL1_ENST00000576307.1_Missense_Mutation_p.A304T|AIPL1_ENST00000574506.1_Missense_Mutation_p.A352T	NM_001033055.1|NM_014336.3	NP_001028227.1|NP_055151.3	Q9NZN9	AIPL1_HUMAN	aryl hydrocarbon receptor interacting protein-like 1	364					negative regulation of apoptotic process (GO:0043066)|phototransduction, visible light (GO:0007603)|protein farnesylation (GO:0018343)|protein folding (GO:0006457)|regulation of cGMP metabolic process (GO:0030823)|retina homeostasis (GO:0001895)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|photoreceptor inner segment (GO:0001917)	farnesylated protein binding (GO:0001918)|unfolded protein binding (GO:0051082)			NS(1)|kidney(1)|large_intestine(2)|liver(1)|lung(5)|ovary(1)|skin(1)	12				COAD - Colon adenocarcinoma(228;0.141)		gggggccctgcggacagctct	0.701																																																0													47	47	47					17																	6328845		2202	4297	6499	SO:0001583	missense	23746			AF148864	CCDS11075.1, CCDS32539.1, CCDS32540.1, CCDS67130.1, CCDS67131.1, CCDS67132.1, CCDS67133.1	17p13.1	2013-01-08	2001-11-29		ENSG00000129221	ENSG00000129221			359	protein-coding gene	gene with protein product		604392	"aryl hydrocarbon receptor-interacting protein-like 1"	LCA4		10615133, 14555765, 15365173	Standard	NM_001285402		Approved		uc002gcp.3	Q9NZN9	OTTHUMG00000102043	ENST00000381129.3:c.1090G>A	17.37:g.6328845C>T	ENSP00000370521:p.Ala364Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTM4|Q659W3|Q659W4|Q6ZZB6|Q8N6A0|Q9H873|Q9NS10	Missense_Mutation	SNP	ENST00000381129.3	37	CCDS11075.1	.	.	.	.	.	.	.	.	.	.	C	0.009	-1.800010	0.00611	.	.	ENSG00000129221	ENST00000381129;ENST00000381128;ENST00000250087	D;D	0.88354	-2.37;-2.28	2.43	-4.86	0.03132	.	14.175600	0.00357	N	0.000030	T	0.68357	0.2992	N	0.02539	-0.55	0.09310	N	1	B;B;B;B;B	0.02656	0.0;0.0;0.0;0.0;0.0	B;B;B;B;B	0.01281	0.0;0.0;0.0;0.0;0.0	T	0.62282	-0.6887	10	0.15066	T	0.55	.	0.3578	0.00359	0.2708:0.2404:0.1332:0.3556	.	340;342;301;304;364	Q659W3;Q659W4;Q9NZN9-3;Q9NZN9-2;Q9NZN9	.;.;.;.;AIPL1_HUMAN	T	364;304;301	ENSP00000370521:A364T;ENSP00000250087:A301T	ENSP00000250087:A301T	A	-	1	0	AIPL1	6269569	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-2.245000	0.01192	-4.315000	0.00057	-3.419000	0.00038	GCA		0.701	AIPL1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000219828.3	NM_014336		T	6328845	C	T	6328845	3	4	585	1	0	0	0	0	1	0	0	0	436	768	27	1	68	1	AIPL1	17	6328845	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08		6328845	74866365	114	34861										
AIPL1	23746	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	6328868	6328868	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	acagctctgcagatggtgctGtgggtggctctgcaggtggc	17	9	2	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr17:6328868G>A	ENST00000381129.3	-	6	1147	c.1067C>T	c.(1066-1068)aCa>aTa	p.T356I	AIPL1_ENST00000576776.1_Missense_Mutation_p.T332I|AIPL1_ENST00000570466.1_Missense_Mutation_p.T334I|AIPL1_ENST00000575265.1_3'UTR|AIPL1_ENST00000250087.5_Missense_Mutation_p.T293I|AIPL1_ENST00000576307.1_Missense_Mutation_p.T296I|AIPL1_ENST00000574506.1_Missense_Mutation_p.T344I	NM_001033055.1|NM_014336.3	NP_001028227.1|NP_055151.3	Q9NZN9	AIPL1_HUMAN	aryl hydrocarbon receptor interacting protein-like 1	356					negative regulation of apoptotic process (GO:0043066)|phototransduction, visible light (GO:0007603)|protein farnesylation (GO:0018343)|protein folding (GO:0006457)|regulation of cGMP metabolic process (GO:0030823)|retina homeostasis (GO:0001895)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|photoreceptor inner segment (GO:0001917)	farnesylated protein binding (GO:0001918)|unfolded protein binding (GO:0051082)			NS(1)|kidney(1)|large_intestine(2)|liver(1)|lung(5)|ovary(1)|skin(1)	12				COAD - Colon adenocarcinoma(228;0.141)		agatggtgctgtgggtggctc	0.692																																																0													72	65	68					17																	6328868		2203	4298	6501	SO:0001583	missense	23746			AF148864	CCDS11075.1, CCDS32539.1, CCDS32540.1, CCDS67130.1, CCDS67131.1, CCDS67132.1, CCDS67133.1	17p13.1	2013-01-08	2001-11-29		ENSG00000129221	ENSG00000129221			359	protein-coding gene	gene with protein product		604392	"aryl hydrocarbon receptor-interacting protein-like 1"	LCA4		10615133, 14555765, 15365173	Standard	NM_001285402		Approved		uc002gcp.3	Q9NZN9	OTTHUMG00000102043	ENST00000381129.3:c.1067C>T	17.37:g.6328868G>A	ENSP00000370521:p.Thr356Ile	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTM4|Q659W3|Q659W4|Q6ZZB6|Q8N6A0|Q9H873|Q9NS10	Missense_Mutation	SNP	ENST00000381129.3	37	CCDS11075.1	.	.	.	.	.	.	.	.	.	.	G	9.219	1.032866	0.19590	.	.	ENSG00000129221	ENST00000381129;ENST00000381128;ENST00000250087	D;D	0.88818	-2.43;-2.33	2.56	2.56	0.30785	.	13.968300	0.01841	U	0.035287	T	0.81744	0.4887	N	0.19112	0.55	0.09310	N	0.999999	B;B;B;B;B	0.26775	0.099;0.099;0.159;0.159;0.099	B;B;B;B;B	0.15870	0.005;0.005;0.014;0.011;0.005	T	0.69624	-0.5095	10	0.37606	T	0.19	.	8.5789	0.33617	0.0:0.0:1.0:0.0	.	332;334;293;296;356	Q659W3;Q659W4;Q9NZN9-3;Q9NZN9-2;Q9NZN9	.;.;.;.;AIPL1_HUMAN	I	356;296;293	ENSP00000370521:T356I;ENSP00000250087:T293I	ENSP00000250087:T293I	T	-	2	0	AIPL1	6269592	0.000000	0.05858	0.001000	0.08648	0.012000	0.07955	-1.481000	0.02323	1.405000	0.46838	0.407000	0.27541	ACA		0.692	AIPL1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000219828.3	NM_014336		A	6328868	G	A	6328868	3	1	585	1	0	0	0	0	1	0	0	0	436	1377	48	2	91	2	AIPL1	17	6328868	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	23	6328868	74866342	115	34862										
AMAC1L3	643664	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	7386125	7386125	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	acatgtgtgagctatgcggtCaccaaggcccaccctgccct	10	15	1	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr17:7386125C>T	ENST00000412468.2	+	2	937	c.822C>T	c.(820-822)gtC>gtT	p.V274V	ZBTB4_ENST00000311403.4_Intron|POLR2A_ENST00000572844.1_5'Flank|POLR2A_ENST00000322644.6_5'Flank	NM_001102614.1	NP_001096084.1	P0C7Q6	S35G6_HUMAN	solute carrier family 35, member G6	274	EamA 2.					integral component of membrane (GO:0016021)											GCTATGCGGTCACCAAGGCCC	0.592																																																0													146	125	132					17																	7386125		2203	4300	6503	SO:0001819	synonymous_variant	643664				CCDS45603.1	17p13.1	2013-05-22	2011-08-03	2011-08-03		ENSG00000259224		"Solute carriers"	31351	protein-coding gene	gene with protein product			"transmembrane protein 21B", "acyl-malonyl condensing enzyme 1-like 3"	TMEM21B, AMAC1L3			Standard	NM_001102614		Approved		uc010cmj.1	P0C7Q6		ENST00000412468.2:c.822C>T	17.37:g.7386125C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000412468.2	37	CCDS45603.1																																																																																				0.592	SLC35G6-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001102614		T	7386125	C	T	7386125	2	4	585	1	0	0	0	0	0	0	0	1	561	813	29	2		2	AMAC1L3	17	7386125	Silent	SNP	C	TCGA-EV-5903-01A-11D-1589-08	1057257	7386125	73809085	116	34863										
FAM18B2	201158	ucsc.edu	37	chr17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tgagcaactcacagagaagaCagacgatgattgcactgact	10	9	1	6			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr17:15457087C>T	ENST00000225576.3	-	3	247	c.152G>A	c.(151-153)tGt>tAt	p.C51Y	TVP23C_ENST00000519970.1_Intron|TVP23C_ENST00000438826.3_Missense_Mutation_p.C51Y|TVP23C_ENST00000584811.1_5'UTR|TVP23C_ENST00000518321.1_Missense_Mutation_p.C51Y|TVP23C_ENST00000428082.2_Missense_Mutation_p.C51Y|TVP23C-CDRT4_ENST00000522212.2_Missense_Mutation_p.C51Y	NM_145301.2	NP_660344.2	Q96ET8	TV23C_HUMAN	trans-golgi network vesicle protein 23 homolog C (S. cerevisiae)	51						integral component of membrane (GO:0016021)											ACAGAGAAGACAGACGATGAT	0.373																																																0													274	265	268					17																	15457087		2203	4300	6503	SO:0001583	missense	201158			BC011952	CCDS11170.1, CCDS45617.1	17p12	2012-11-29	2012-11-29	2012-11-29	ENSG00000175106	ENSG00000175106			30453	protein-coding gene	gene with protein product			"family with sequence similarity 18, member B2"	FAM18B2			Standard	NM_001135036		Approved	MGC8763	uc002goq.2	Q96ET8	OTTHUMG00000171461	ENST00000225576.3:c.152G>A	17.37:g.15457087C>T	ENSP00000225576:p.Cys51Tyr	Somatic		WXS	Illumina HiSeq		Q3LIC7	Missense_Mutation	SNP	ENST00000225576.3	37	CCDS11170.1	.	.	.	.	.	.	.	.	.	.	.	2.368	-0.344949	0.05208	.	.	ENSG00000259024;ENSG00000175106;ENSG00000175106;ENSG00000175106	ENST00000522212;ENST00000225576;ENST00000428082;ENST00000438826	T;T;T;T	0.25749	1.78;1.78;1.78;1.78	4.47	4.47	0.54385	.	0.000000	0.85682	N	0.000000	T	0.02571	0.0078	N	0.00004	-3.335	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.06405	0.0;0.0;0.002	T	0.38457	-0.9660	10	0.02654	T	1	-3.8701	9.492	0.38965	0.0:0.0877:0.0:0.9123	.	51;51;51	Q96ET8-2;Q96ET8-3;Q96ET8	.;.;F18B2_HUMAN	Y	51	ENSP00000429865:C51Y;ENSP00000225576:C51Y;ENSP00000406387:C51Y;ENSP00000413355:C51Y	ENSP00000225576:C51Y	C	-	2	0	RP11-726O12.1;FAM18B2	15397812	1.000000	0.71417	1.000000	0.80357	0.703000	0.40648	6.178000	0.71968	0.670000	0.31165	-0.442000	0.05670	TGT		0.373	TVP23C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000130705.2	NM_145301		T	15457087	C	T	15457087	3	4	585	1	0	0	0	0	1	0	0	0	5524	478	17	2	848	2	FAM18B2	17	15457087	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08	8070962	15457087	65738123	117	34864										
FLCN	201163	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	17119717	17119717	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	aggagagcacgtggggggggAtctgcacgtgcgggctgagc	21	8	1	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr17:17119717A>G	ENST00000285071.4	-	11	1731	c.1277T>C	c.(1276-1278)aTc>aCc	p.I426T	RP11-45M22.4_ENST00000427497.3_3'UTR	NM_144997.5	NP_659434.2	Q8NFG4	FLCN_HUMAN	folliculin	426					cell-cell junction assembly (GO:0007043)|hemopoiesis (GO:0030097)|in utero embryonic development (GO:0001701)|negative regulation of ATP biosynthetic process (GO:2001170)|negative regulation of cell growth (GO:0030308)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation involved in kidney development (GO:1901723)|negative regulation of energy homeostasis (GO:2000506)|negative regulation of ERK1 and ERK2 cascade (GO:0070373)|negative regulation of gene expression (GO:0010629)|negative regulation of mitochondrion organization (GO:0010823)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein localization to nucleus (GO:1900181)|negative regulation of Rho protein signal transduction (GO:0035024)|negative regulation of TOR signaling (GO:0032007)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cell adhesion (GO:0045785)|positive regulation of gene expression (GO:0010628)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of TOR signaling (GO:0032008)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|regulation of cytokinesis (GO:0032465)|regulation of histone acetylation (GO:0035065)|regulation of pro-B cell differentiation (GO:2000973)|regulation of protein phosphorylation (GO:0001932)|regulation of TOR signaling (GO:0032006)|TOR signaling (GO:0031929)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	protein complex binding (GO:0032403)			NS(1)|breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(11)|stomach(1)|thyroid(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	23						GTGGGGGGGGATCTGCACGTG	0.667									Familial Non-VHL Clear Cell Renal Cancer;Birt-Hogg-Dub syndrome																																							0													81	67	72					17																	17119717		2203	4300	6503	SO:0001583	missense	201163	Familial Cancer Database	Familial Clear Cell Renal Cell Cancer, FcRCC, Familial Non-VHL Non-Papillary Clear Cell Renal Cancer;BHD, Fibrofolliculomas with Trichodiscomas and Acrochordons, incl.: Hornstein-Knickenberg syndrome, Perifollicular Fibromatosis	AF517523	CCDS32579.1, CCDS32580.1	17p11.2	2014-09-17			ENSG00000154803	ENSG00000154803			27310	protein-coding gene	gene with protein product		607273					Standard	NM_144997		Approved	BHD, MGC17998, MGC23445	uc002gra.4	Q8NFG4	OTTHUMG00000059275	ENST00000285071.4:c.1277T>C	17.37:g.17119717A>G	ENSP00000285071:p.Ile426Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJJ8|Q6ZRX1|Q96BD2|Q96BE4	Missense_Mutation	SNP	ENST00000285071.4	37	CCDS32579.1	.	.	.	.	.	.	.	.	.	.	A	21.2	4.111106	0.77210	.	.	ENSG00000154803	ENST00000285071	D	0.94576	-3.46	5.9	5.9	0.94986	.	0.140262	0.64402	D	0.000005	D	0.93400	0.7895	M	0.68593	2.085	0.80722	D	1	P	0.34462	0.454	B	0.32864	0.154	D	0.93165	0.6561	10	0.72032	D	0.01	-32.1067	16.3313	0.83015	1.0:0.0:0.0:0.0	.	426	Q8NFG4	FLCN_HUMAN	T	426	ENSP00000285071:I426T	ENSP00000285071:I426T	I	-	2	0	FLCN	17060442	1.000000	0.71417	0.996000	0.52242	0.959000	0.62525	8.547000	0.90665	2.266000	0.75297	0.529000	0.55759	ATC		0.667	FLCN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131577.1	NM_144606		G	17119717	A	G	17119717	3	3	585	1	0	0	0	0	1	0	0	0	5928	333	12	3	478	3	FLCN	17	17119717	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	1662630	17119717	64075493	118	34865										
MYO15A	51168	hgsc.bcm.edu	37	chr17	18063318	18063318	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tgaagcagatcacagacaatAccagctccaagcagtgagtg	10	10	1	4			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr17:18063318A>G	ENST00000205890.5	+	56	9711	c.9373A>G	c.(9373-9375)Acc>Gcc	p.T3125A	MYO15A_ENST00000451725.2_Missense_Mutation_p.T17A|MYO15A_ENST00000418233.3_Missense_Mutation_p.T389A	NM_016239.3	NP_057323.3	Q9UKN7	MYO15_HUMAN	myosin XVA	3125	MyTH4 2. {ECO:0000255|PROSITE- ProRule:PRU00359}.|Tail.				inner ear morphogenesis (GO:0042472)|locomotory behavior (GO:0007626)|sensory perception of sound (GO:0007605)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|myosin complex (GO:0016459)|stereocilium (GO:0032420)	ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(5)|central_nervous_system(2)|endometrium(17)|kidney(3)|large_intestine(16)|lung(27)|ovary(3)|pancreas(1)|prostate(6)|skin(13)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	99	all_neural(463;0.228)					CACAGACAATACCAGCTCCAA	0.562																																																0													108	110	110					17																	18063318		2118	4230	6348	SO:0001583	missense	51168			AF144094	CCDS42271.1	17p11.2	2011-09-27			ENSG00000091536	ENSG00000091536		"Myosins / Myosin superfamily : Class XV"	7594	protein-coding gene	gene with protein product		602666		DFNB3, MYO15		9603736	Standard	NM_016239		Approved		uc021trl.1	Q9UKN7	OTTHUMG00000059390	ENST00000205890.5:c.9373A>G	17.37:g.18063318A>G	ENSP00000205890:p.Thr3125Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFC7	Missense_Mutation	SNP	ENST00000205890.5	37	CCDS42271.1	.	.	.	.	.	.	.	.	.	.	A	12.13	1.844770	0.32606	.	.	ENSG00000091536	ENST00000205890;ENST00000418233;ENST00000556535;ENST00000557190;ENST00000451725	D;D;D	0.91521	-2.86;-2.86;-2.86	5.6	4.52	0.55395	MyTH4 domain (3);	.	.	.	.	D	0.87842	0.6279	L	0.56396	1.775	0.48135	D	0.999593	B;B;B;B;P	0.44776	0.106;0.039;0.006;0.058;0.843	B;B;B;B;B	0.40659	0.147;0.052;0.02;0.076;0.336	D	0.85057	0.0932	9	0.35671	T	0.21	.	11.4255	0.50007	0.9294:0.0:0.0706:0.0	.	17;114;389;3125;132	B4DQJ3;B4DLV9;B4DFC7;Q9UKN7;Q8TCK0	.;.;.;MYO15_HUMAN;.	A	3125;114;79;17;17	ENSP00000205890:T3125A;ENSP00000451782:T79A;ENSP00000409098:T17A	ENSP00000205890:T3125A	T	+	1	0	MYO15A	18004043	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	3.660000	0.54496	0.967000	0.38186	0.459000	0.35465	ACC		0.562	MYO15A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132048.1	NM_016239		G	18063318	A	G	18063318	3	3	585	1	0	0	0	0	1	0	0	0	10070	391	14	3	9587	3	MYO15A	17	18063318	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	943601	18063318	63131892	119	34866										
ZNF207	7756	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	30687743	30687743	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tattcctccaatggcacagcCaggactgccaccagtaccag	8	15	0	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr17:30687743C>A	ENST00000321233.6	+	4	588	c.434C>A	c.(433-435)cCa>cAa	p.P145Q	ZNF207_ENST00000577908.1_Missense_Mutation_p.P145Q|RP11-227G15.3_ENST00000581915.1_RNA|ZNF207_ENST00000341711.6_Intron|ZNF207_ENST00000342555.6_Missense_Mutation_p.P148Q|ZNF207_ENST00000394673.2_Missense_Mutation_p.P145Q|ZNF207_ENST00000394670.4_Missense_Mutation_p.P145Q	NM_003457.3	NP_003448.1	O43670	ZN207_HUMAN	zinc finger protein 207	145					attachment of spindle microtubules to kinetochore (GO:0008608)|mitotic sister chromatid segregation (GO:0000070)|mitotic spindle assembly checkpoint (GO:0007094)|protein stabilization (GO:0050821)|regulation of chromosome segregation (GO:0051983)|regulation of transcription, DNA-templated (GO:0006355)	kinetochore (GO:0000776)|microtubule (GO:0005874)|nucleus (GO:0005634)	DNA binding (GO:0003677)|heparin binding (GO:0008201)|microtubule binding (GO:0008017)|poly(A) RNA binding (GO:0044822)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|kidney(2)|lung(3)|urinary_tract(2)	10		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			ATGGCACAGCCAGGACTGCCA	0.443																																																0													60	51	54					17																	30687743		2203	4300	6503	SO:0001583	missense	7756			AF046001	CCDS11271.1, CCDS32614.1, CCDS42294.1	17q11.2	2008-07-10			ENSG00000010244	ENSG00000010244		"Zinc fingers, C2H2-type"	12998	protein-coding gene	gene with protein product		603428				9799612	Standard	NM_001098507		Approved		uc002hhj.4	O43670	OTTHUMG00000132810	ENST00000321233.6:c.434C>A	17.37:g.30687743C>A	ENSP00000322777:p.Pro145Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6Y6|E1P660|E1P661|E1P662|Q53XS9|Q96HW5|Q9BUQ7	Missense_Mutation	SNP	ENST00000321233.6	37	CCDS11271.1	.	.	.	.	.	.	.	.	.	.	C	10.67	1.415696	0.25552	.	.	ENSG00000010244	ENST00000394670;ENST00000394673;ENST00000394679;ENST00000321233;ENST00000342555	T;T;T	0.50813	0.74;0.73;0.74	5.27	5.27	0.74061	.	0.165688	0.53938	D	0.000051	T	0.51873	0.1700	M	0.62723	1.935	0.80722	D	1	P;P;P;P;P	0.49090	0.919;0.919;0.919;0.799;0.799	P;P;P;B;B	0.46110	0.504;0.504;0.504;0.367;0.367	T	0.47873	-0.9083	10	0.18710	T	0.47	.	18.8845	0.92370	0.0:1.0:0.0:0.0	.	145;148;145;145;145	A8MTG3;Q59G94;E1P660;O43670-2;O43670	.;.;.;.;ZN207_HUMAN	Q	145;145;148;145;145	ENSP00000378165:P145Q;ENSP00000378168:P145Q;ENSP00000322777:P145Q	ENSP00000322777:P145Q	P	+	2	0	ZNF207	27711856	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	4.611000	0.61162	2.463000	0.83235	0.655000	0.94253	CCA		0.443	ZNF207-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256251.2			A	30687743	C	A	30687743	3	1	585	1	0	0	0	0	1	0	0	0	17777	594	21	4	448	4	ZNF207	17	30687743	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08	12624425	30687743	50507467	120	34867										
SKAP1	8631	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	46266785	46266785	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tctgtgggtctgaccaatacCtttgcttttcttctccaagt	7	11	4	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr17:46266785C>T	ENST00000336915.6	-	5	427	c.358G>A	c.(358-360)Gat>Aat	p.D120N	SKAP1_ENST00000584924.1_Splice_Site_p.D120N|RP11-456D7.1_ENST00000582246.1_RNA	NM_001075099.1|NM_003726.3	NP_001068567.1|NP_003717.3	Q86WV1	SKAP1_HUMAN	src kinase associated phosphoprotein 1	120	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				positive regulation of signal transduction (GO:0009967)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|T cell receptor signaling pathway (GO:0050852)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	protein kinase binding (GO:0019901)|protein phosphatase binding (GO:0019903)|SH2 domain binding (GO:0042169)|SH3 domain binding (GO:0017124)|SH3/SH2 adaptor activity (GO:0005070)			large_intestine(1)|lung(10)|prostate(2)|skin(4)|urinary_tract(1)	18						TGACCAATACCTTTGCTTTTC	0.433																																																0													183	146	158					17																	46266785		2203	4300	6503	SO:0001630	splice_region_variant	8631			Y11215	CCDS32674.1	17q21.32	2013-01-10	2006-09-28	2006-09-28		ENSG00000141293		"Pleckstrin homology (PH) domain containing"	15605	protein-coding gene	gene with protein product		604969	"src family associated phosphoprotein 1"	SCAP1		9195899	Standard	NM_003726		Approved	SKAP55	uc002ini.1	Q86WV1		ENST00000336915.6:c.358+1G>A	17.37:g.46266785C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DTV1|O15268	Missense_Mutation	SNP	ENST00000336915.6	37	CCDS32674.1	.	.	.	.	.	.	.	.	.	.	C	16.00	2.998944	0.54147	.	.	ENSG00000141293	ENST00000336915	T	0.11821	2.74	5.61	5.61	0.85477	Pleckstrin homology-type (1);Pleckstrin homology domain (3);	0.000000	0.85682	D	0.000000	T	0.35770	0.0943	L	0.60904	1.88	0.58432	D	0.999998	P;D	0.76494	0.536;0.999	P;D	0.79784	0.614;0.993	T	0.00783	-1.1568	9	.	.	.	-29.0873	19.225	0.93815	0.0:1.0:0.0:0.0	.	120;120	Q86WV1-2;Q86WV1	.;SKAP1_HUMAN	N	120	ENSP00000338171:D120N	.	D	-	1	0	SKAP1	43621784	1.000000	0.71417	1.000000	0.80357	0.870000	0.49936	6.108000	0.71522	2.640000	0.89533	0.563000	0.77884	GAT		0.433	SKAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443432.1	NM_003726	Missense_Mutation	T	46266785	C	T	46266785	5	4	585	1	0	0	0	0	0	0	1	0	14368	695	24	2	753	2	SKAP1	17	46266785	Splice_Site	SNP	C	TCGA-EV-5903-01A-11D-1589-08	15579042	46266785	34928425	121	34868										
FN3KRP	79672	broad.mit.edu	37	chr17	80674717	80674717	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cgggtgcatcagccagggccGgagctacgacacggatcaag	15	12	2	0	rs138953335		TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr17:80674717G>A	ENST00000269373.6	+	1	159	c.86G>A	c.(85-87)cGg>cAg	p.R29Q	RP11-388C12.1_ENST00000574471.1_lincRNA|FN3KRP_ENST00000535965.1_5'UTR	NM_024619.3	NP_078895.2	Q9HA64	KT3K_HUMAN	fructosamine 3 kinase related protein	29							kinase activity (GO:0016301)			breast(1)|large_intestine(2)|lung(1)|ovary(2)|upper_aerodigestive_tract(1)	7	Breast(20;0.000523)|all_neural(118;0.0952)		BRCA - Breast invasive adenocarcinoma(99;0.0344)|OV - Ovarian serous cystadenocarcinoma(97;0.061)			AGCCAGGGCCGGAGCTACGAC	0.701													G|||	1	0.000199681	0.0	0.0	5008	,	,		8572	0.0		0.001	False		,,,				2504	0.0															0								G	GLN/ARG	0,4400		0,0,2200	29	31	30		86	0.5	1	17	dbSNP_134	30	2,8588		0,2,4293	yes	missense	FN3KRP	NM_024619.3	43	0,2,6493	AA,AG,GG		0.0233,0.0,0.0154	benign	29/310	80674717	2,12988	2200	4295	6495	SO:0001583	missense	79672			AY360465	CCDS11817.1	17q25.3	2014-08-12			ENSG00000141560	ENSG00000141560			25700	protein-coding gene	gene with protein product		611683				14633848	Standard	NM_024619		Approved	FLJ12171, FN3KL	uc002kfu.3	Q9HA64	OTTHUMG00000177846	ENST00000269373.6:c.86G>A	17.37:g.80674717G>A	ENSP00000269373:p.Arg29Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q969F4|Q9H0U7	Missense_Mutation	SNP	ENST00000269373.6	37	CCDS11817.1	.	.	.	.	.	.	.	.	.	.	G	10.73	1.433978	0.25813	0.0	2.33E-4	ENSG00000141560	ENST00000269373	T	0.51071	0.72	5.29	0.486	0.16836	Protein kinase-like domain (1);	0.111667	0.64402	N	0.000005	T	0.20495	0.0493	N	0.03154	-0.405	0.80722	D	1	B	0.02656	0.0	B	0.09377	0.004	T	0.04178	-1.0971	10	0.25106	T	0.35	-18.0073	9.3104	0.37900	0.7114:0.0:0.2886:0.0	.	29	Q9HA64	KT3K_HUMAN	Q	29	ENSP00000269373:R29Q	ENSP00000269373:R29Q	R	+	2	0	FN3KRP	78268006	1.000000	0.71417	0.999000	0.59377	0.985000	0.73830	2.337000	0.43947	0.065000	0.16485	-0.312000	0.09012	CGG		0.701	FN3KRP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000439219.1	NM_024619		A	80674717	G	A	80674717	3	1	585	1	0	0	0	0	1	0	0	0	5971	1116	39	1	88	1	FN3KRP	17	80674717	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	34407932	80674717	520493	122	34869										
PTPRM	5797	broad.mit.edu	37	chr18	8376563	8376563	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	acaactgcgtcagggagctgCggtcacggagggtgaacatg	16	9	2	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr18:8376563C>T	ENST00000332175.8	+	24	4428	c.3391C>T	c.(3391-3393)Cgg>Tgg	p.R1131W	PTPRM_ENST00000580170.1_Missense_Mutation_p.R1144W|PTPRM_ENST00000400053.4_Missense_Mutation_p.R1069W|PTPRM_ENST00000444013.1_Missense_Mutation_p.R918W|PTPRM_ENST00000400060.4_Missense_Mutation_p.R1145W	NM_002845.3	NP_002836.3	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1131	Tyrosine-protein phosphatase 1. {ECO:0000255|PROSITE-ProRule:PRU00160}.				homophilic cell adhesion (GO:0007156)|negative regulation of angiogenesis (GO:0016525)|negative regulation of endothelial cell migration (GO:0010596)|negative regulation of endothelial cell proliferation (GO:0001937)|neuron projection development (GO:0031175)|peptidyl-tyrosine dephosphorylation (GO:0035335)|positive regulation of vasodilation (GO:0045909)|protein dephosphorylation (GO:0006470)|response to drug (GO:0042493)|retina layer formation (GO:0010842)|retinal ganglion cell axon guidance (GO:0031290)|signal transduction (GO:0007165)	cell-cell adherens junction (GO:0005913)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|perinuclear region of cytoplasm (GO:0048471)	cadherin binding (GO:0045296)|identical protein binding (GO:0042802)|protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			breast(3)|central_nervous_system(1)|cervix(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(32)|lung(25)|ovary(2)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	90		Colorectal(10;0.234)				CAGGGAGCTGCGGTCACGGAG	0.572																																																0													134	107	116					18																	8376563		2203	4300	6503	SO:0001583	missense	5797			X58288	CCDS11840.1, CCDS58613.1	18p11.2	2013-02-11			ENSG00000173482	ENSG00000173482		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	9675	protein-coding gene	gene with protein product		176888		PTPRL1		1655529, 8404049	Standard	NM_002845		Approved	RPTPU, hR-PTPu	uc010dkv.3	P28827	OTTHUMG00000131575	ENST00000332175.8:c.3391C>T	18.37:g.8376563C>T	ENSP00000331418:p.Arg1131Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A7MBN1|D3DUH8|J3QL11	Missense_Mutation	SNP	ENST00000332175.8	37	CCDS11840.1	.	.	.	.	.	.	.	.	.	.	C	29.5	5.010361	0.93346	.	.	ENSG00000173482	ENST00000332175;ENST00000400060;ENST00000400053;ENST00000444013	D;D;D;D	0.91631	-2.88;-2.88;-2.88;-2.88	5.88	5.88	0.94601	Protein-tyrosine phosphatase, receptor/non-receptor type (4);Protein-tyrosine/Dual-specificity phosphatase (1);	0.000000	0.85682	D	0.000000	D	0.97845	0.9292	H	0.97540	4.025	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;0.999	D	0.98415	1.0574	10	0.72032	D	0.01	.	20.2314	0.98350	0.0:1.0:0.0:0.0	.	918;1144;1131	E7EVX9;A7MBN1;P28827	.;.;PTPRM_HUMAN	W	1131;1145;1069;918	ENSP00000331418:R1131W;ENSP00000382933:R1145W;ENSP00000382927:R1069W;ENSP00000387608:R918W	ENSP00000331418:R1131W	R	+	1	2	PTPRM	8366563	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.781000	0.62389	2.789000	0.95967	0.591000	0.81541	CGG		0.572	PTPRM-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000254456.1			T	8376563	C	T	8376563	3	4	585	1	0	0	0	0	1	0	0	0	12819	759	27	1	3532	1	PTPRM	18	8376563	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08		8376563	69700685	123	34870										
TMX3	54495	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	66378637	66378637	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tcatcatttcgattttctttAaacctaaaaaacaagaaaac	2	8	3	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr18:66378637A>C	ENST00000299608.2	-	3	421	c.105T>G	c.(103-105)ttT>ttG	p.F35L	TMX3_ENST00000562706.1_Missense_Mutation_p.F35L|TMX3_ENST00000443099.2_Missense_Mutation_p.F35L	NM_019022.3	NP_061895.3	Q96JJ7	TMX3_HUMAN	thioredoxin-related transmembrane protein 3	35	Thioredoxin. {ECO:0000255|PROSITE- ProRule:PRU00691}.				cell redox homeostasis (GO:0045454)|protein folding (GO:0006457)|response to endoplasmic reticulum stress (GO:0034976)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	protein disulfide isomerase activity (GO:0003756)			cervix(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(5)|ovary(1)|skin(1)|urinary_tract(1)	17						GATTTTCTTTAAACCTAAAAA	0.279																																																0													84	90	88					18																	66378637		2202	4289	6491	SO:0001583	missense	54495			BX647846	CCDS32840.1	18q22	2011-10-19	2009-02-23	2009-02-23		ENSG00000166479		"Protein disulfide isomerases"	24718	protein-coding gene	gene with protein product	"protein disulfide isomerase family A, member 13"		"thioredoxin domain containing 10"	TXNDC10		15623505	Standard	NM_019022		Approved	FLJ20793, KIAA1830, PDIA13	uc002lkf.3	Q96JJ7		ENST00000299608.2:c.105T>G	18.37:g.66378637A>C	ENSP00000299608:p.Phe35Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KV75|Q52LT7|Q8N5J0|Q9NWJ9	Missense_Mutation	SNP	ENST00000299608.2	37	CCDS32840.1	.	.	.	.	.	.	.	.	.	.	A	25.2	4.615363	0.87359	.	.	ENSG00000166479	ENST00000299608;ENST00000544714;ENST00000443099	T;T;T	0.06608	3.28;3.28;3.28	5.36	5.36	0.76844	Thioredoxin domain (1);Thioredoxin-like fold (3);	0.000000	0.85682	D	0.000000	T	0.26955	0.0660	M	0.83384	2.64	0.80722	D	1	D;D;D	0.89917	1.0;0.998;1.0	D;D;D	0.91635	0.998;0.986;0.999	T	0.01596	-1.1316	10	0.52906	T	0.07	.	13.3017	0.60328	1.0:0.0:0.0:0.0	.	35;35;35	B4DIE3;Q96JJ7-2;Q96JJ7	.;.;TMX3_HUMAN	L	35	ENSP00000299608:F35L;ENSP00000444954:F35L;ENSP00000402605:F35L	ENSP00000299608:F35L	F	-	3	2	TMX3	64529617	1.000000	0.71417	1.000000	0.80357	0.952000	0.60782	4.620000	0.61226	2.042000	0.60477	0.528000	0.53228	TTT		0.279	TMX3-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000420155.1	NM_019022		C	66378637	A	C	66378637	3	2	585	1	0	0	0	0	1	0	0	0	16280	359	13	5	1315	5	TMX3	18	66378637	Missense_Mutation	SNP	A	TCGA-EV-5903-01A-11D-1589-08	58002074	66378637	11698611	124	34871										
ATP8B3	148229	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	1785678	1785678	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cccaccacgtacagctccggCttctccaggctctgctctgc	8	19	3	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr19:1785678C>A	ENST00000310127.6	-	26	3421	c.3183G>T	c.(3181-3183)aaG>aaT	p.K1061N	ATP8B3_ENST00000539485.1_Missense_Mutation_p.K1071N|ATP8B3_ENST00000525591.1_Missense_Mutation_p.K1024N	NM_138813.3	NP_620168.1	O60423	AT8B3_HUMAN	ATPase, aminophospholipid transporter, class I, type 8B, member 3	1061					binding of sperm to zona pellucida (GO:0007339)	acrosomal vesicle (GO:0001669)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(9)|ovary(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	23		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)		ACAGCTCCGGCTTCTCCAGGC	0.602																																																0													26	29	28					19																	1785678		2120	4237	6357	SO:0001583	missense	148229			AA827939	CCDS45901.1, CCDS54196.1	19p13.3	2010-04-28	2010-04-28		ENSG00000130270	ENSG00000130270		"ATPases / P-type"	13535	protein-coding gene	gene with protein product	"aminophospholipid translocase ATP8B3", "potential phospholipid-transporting ATPase IK"	605866	"ATPase, Class I, type 8B, member 3", "ATPase, class I, type 8B, member 3"			11015572	Standard	NM_138813		Approved	ATPIK	uc002ltw.4	O60423	OTTHUMG00000166189	ENST00000310127.6:c.3183G>T	19.37:g.1785678C>A	ENSP00000311336:p.Lys1061Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z485|Q8IVB8|Q8N4Y8|Q96M22	Missense_Mutation	SNP	ENST00000310127.6	37	CCDS45901.1	.	.	.	.	.	.	.	.	.	.	C	8.917	0.960236	0.18507	.	.	ENSG00000130270	ENST00000310127;ENST00000539485;ENST00000525591	T;T;T	0.70516	-0.49;-0.49;-0.49	4.48	3.39	0.38822	.	0.558416	0.19418	N	0.114773	T	0.40815	0.1132	N	0.02697	-0.525	0.23855	N	0.996656	B;B	0.30664	0.289;0.086	B;B	0.23275	0.045;0.045	T	0.33420	-0.9869	10	0.66056	D	0.02	.	6.6084	0.22737	0.149:0.5306:0.3204:0.0	.	1061;1024	O60423;Q7Z485	AT8B3_HUMAN;.	N	1061;1071;1024	ENSP00000311336:K1061N;ENSP00000443574:K1071N;ENSP00000437115:K1024N	ENSP00000311336:K1061N	K	-	3	2	ATP8B3	1736678	0.965000	0.33210	0.457000	0.27056	0.051000	0.14879	1.815000	0.38981	2.027000	0.59764	0.655000	0.94253	AAG		0.602	ATP8B3-002	KNOWN	alternative_5_UTR|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000388279.1	NM_138813		A	1785678	C	A	1785678	3	1	585	1	0	0	0	0	1	0	0	0	1196	796	28	4	735	4	ATP8B3	19	1785678	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08		1785678	57343305	125	34872										
SFRS14	10147	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	19115397	19115397	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gaaacaaattgatggacataGttcaaacactttctttcgat	6	7	2	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr19:19115397G>T	ENST00000601879.1	-	7	2806	c.2509C>A	c.(2509-2511)Cta>Ata	p.L837I	SUGP2_ENST00000600377.1_Missense_Mutation_p.L851I|SUGP2_ENST00000337018.6_Missense_Mutation_p.L837I|SUGP2_ENST00000452918.2_Missense_Mutation_p.L837I|SUGP2_ENST00000456085.2_Missense_Mutation_p.L606I			Q8IX01	SUGP2_HUMAN	SURP and G patch domain containing 2	837					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			NS(1)|breast(1)|endometrium(8)|kidney(1)|large_intestine(9)|lung(13)|ovary(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	43						GATGGACATAGTTCAAACACT	0.463																																																0													74	73	73					19																	19115397		2203	4300	6503	SO:0001583	missense	10147			AB002363	CCDS12392.1	19p13	2013-01-28	2010-08-10	2010-08-10	ENSG00000064607	ENSG00000064607		"G patch domain containing"	18641	protein-coding gene	gene with protein product		607993	"splicing factor, arginine/serine-rich 14"	SFRS14		12594045	Standard	NM_014884		Approved	KIAA0365	uc002nkx.2	Q8IX01		ENST00000601879.1:c.2509C>A	19.37:g.19115397G>T	ENSP00000472286:p.Leu837Ile	Somatic		WXS	Illumina HiSeq	Phase_I	C9JI71|O15071|O60369|Q5JPH7|Q8WUF7	Missense_Mutation	SNP	ENST00000601879.1	37	CCDS12392.1	.	.	.	.	.	.	.	.	.	.	G	18.29	3.590575	0.66219	.	.	ENSG00000064607	ENST00000337018;ENST00000330854;ENST00000452918;ENST00000456085	T;T;T;T	0.39592	1.07;1.07;1.07;1.07	5.26	5.26	0.73747	SWAP/Surp (1);	0.000000	0.42294	D	0.000725	T	0.46151	0.1378	N	0.16307	0.4	0.39998	D	0.975121	D;D;D	0.76494	0.999;0.976;0.999	D;D;D	0.87578	0.998;0.914;0.997	T	0.45366	-0.9266	10	0.41790	T	0.15	-13.6122	11.5508	0.50719	0.086:0.0:0.914:0.0	.	606;837;837	E7ETX7;A8K5G0;Q8IX01	.;.;SUGP2_HUMAN	I	837;837;837;606	ENSP00000337926:L837I;ENSP00000332373:L837I;ENSP00000389380:L837I;ENSP00000409603:L606I	ENSP00000332373:L837I	L	-	1	2	SUGP2	18976397	1.000000	0.71417	1.000000	0.80357	0.820000	0.46376	1.688000	0.37690	2.459000	0.83118	0.563000	0.77884	CTA		0.463	SUGP2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000464627.1	NM_001017392		T	19115397	G	T	19115397	3	4	585	1	0	0	0	0	1	0	0	0	14183	1020	36	4	755	4	SFRS14	19	19115397	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	17329719	19115397	40013586	126	34873										
RINL	126432	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	39359912	39359925	+	Frame_Shift_Del	DEL	TGCAGCGTCCGCCT	TGCAGCGTCCGCCT	-													0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	ctctgggatgatcctttctgTgcagcgtccgcctgcggtgc							TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	TGCAGCGTCCGCCT	TGCAGCGTCCGCCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr19:39359912_39359925delTGCAGCGTCCGCCT	ENST00000591812.1	-	11	1686_1699	c.1600_1613delAGGCGGACGCTGCA	c.(1600-1614)aggcggacgctgcacfs	p.RRTLH534fs	RINL_ENST00000340740.3_Frame_Shift_Del_p.RRTLH420fs|CTC-360G5.6_ENST00000593830.1_RNA|RINL_ENST00000602238.1_5'Flank|RINL_ENST00000598904.1_Frame_Shift_Del_p.RRTLH420fs			Q6ZS11	RINL_HUMAN	Ras and Rab interactor-like	534					endocytosis (GO:0006897)|positive regulation of GTPase activity (GO:0043547)|protein transport (GO:0015031)	actin cytoskeleton (GO:0015629)|cytoplasmic vesicle (GO:0031410)|ruffle (GO:0001726)	GTPase activator activity (GO:0005096)|guanyl-nucleotide exchange factor activity (GO:0005085)			endometrium(3)|kidney(4)|large_intestine(2)|lung(4)|pancreas(1)|skin(1)|urinary_tract(2)	17						ATCCTTTCTGTGCAGCGTCCGCCTGCGGTGCCAC	0.673																																																0																																										SO:0001589	frameshift_variant	126432			AK127808	CCDS12522.1, CCDS59386.1	19q13.2	2010-07-13			ENSG00000187994	ENSG00000187994			24795	protein-coding gene	gene with protein product							Standard	NM_001195833		Approved	FLJ45909	uc010xuo.2	Q6ZS11		ENST00000591812.1:c.1600_1613delAGGCGGACGCTGCA	19.37:g.39359912_39359925delTGCAGCGTCCGCCT	ENSP00000467107:p.Arg534fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DPG5	Frame_Shift_Del	DEL	ENST00000591812.1	37	CCDS59386.1																																																																																				0.673	RINL-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000460433.1	NM_198445		-	39359925	TGCAGCGTCCGCCT	-	39359912	7	5	585	1	0	1	0	1	0	0	0	0	13388	1696	59	0	95	0	RINL	19	39359912	Frame_Shift_Del	DEL	TGCAGCGTCCGCCT	TCGA-EV-5903-01A-11D-1589-08	20244515	39359912	19769071	127	34874										
ALDH16A1	126133	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	49969107	49969107	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tccatggctacgtggctgagGgtggagccaaggacatccga	15	10	0	1			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr19:49969107G>A	ENST00000293350.4	+	13	1844	c.1681G>A	c.(1681-1683)Ggt>Agt	p.G561S	ALDH16A1_ENST00000433981.2_Missense_Mutation_p.G396S|ALDH16A1_ENST00000540132.1_Missense_Mutation_p.G398S|CTD-3148I10.9_ENST00000599536.1_Intron|ALDH16A1_ENST00000455361.2_Missense_Mutation_p.G510S	NM_153329.3	NP_699160.2	Q8IZ83	A16A1_HUMAN	aldehyde dehydrogenase 16 family, member A1	561						extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor (GO:0016620)			cervix(2)|endometrium(3)|kidney(2)|large_intestine(3)|lung(5)|skin(2)|urinary_tract(3)	20		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)		CGTGGCTGAGGGTGGAGCCAA	0.642																																																0													39	40	40					19																	49969107		2203	4300	6503	SO:0001583	missense	126133			AY007096	CCDS12766.1, CCDS46141.1	19q13.33	2014-08-12			ENSG00000161618	ENSG00000161618		"Aldehyde dehydrogenases"	28114	protein-coding gene	gene with protein product		613358					Standard	NM_153329		Approved	MGC10204	uc002pnt.3	Q8IZ83	OTTHUMG00000183163	ENST00000293350.4:c.1681G>A	19.37:g.49969107G>A	ENSP00000293350:p.Gly561Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DLQ1|C9JBH6|Q86YF0|Q8IYL4|Q8TEI8	Missense_Mutation	SNP	ENST00000293350.4	37	CCDS12766.1	.	.	.	.	.	.	.	.	.	.	G	20.5	4.007403	0.75046	.	.	ENSG00000161618	ENST00000293350;ENST00000455361;ENST00000540132;ENST00000433981	T;T;T;T	0.75938	-0.98;-0.98;-0.98;-0.98	4.77	4.77	0.60923	Aldehyde dehydrogenase domain (1);Aldehyde dehydrogenase, N-terminal (1);Aldehyde/histidinol dehydrogenase (1);	0.220696	0.37623	N	0.002003	D	0.83751	0.5322	M	0.64567	1.98	0.44254	D	0.997108	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.84182	0.0440	10	0.46703	T	0.11	-20.3157	15.3078	0.74008	0.0:0.0:1.0:0.0	.	398;510;561	F5H4B6;B4DLQ1;Q8IZ83	.;.;A16A1_HUMAN	S	561;510;398;396	ENSP00000293350:G561S;ENSP00000410142:G510S;ENSP00000445088:G398S;ENSP00000398675:G396S	ENSP00000293350:G561S	G	+	1	0	ALDH16A1	54660919	0.985000	0.35326	0.999000	0.59377	0.666000	0.39218	1.078000	0.30754	2.206000	0.71126	0.561000	0.74099	GGT		0.642	ALDH16A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465358.1	NM_153329		A	49969107	G	A	49969107	3	1	585	1	0	0	0	0	1	0	0	0	488	1232	43	2	1731	2	ALDH16A1	19	49969107	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	10609195	49969107	9159876	128	34875										
ZNF836	162962	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	52659397	52659397	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tgaattatcttatgtcgagtGagtaatgagccctgtttaaa	9	5	1	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr19:52659397G>A	ENST00000322146.8	-	5	2060	c.1539C>T	c.(1537-1539)ctC>ctT	p.L513L	CTC-471J1.8_ENST00000594362.1_RNA|ZNF836_ENST00000597252.1_Silent_p.L513L	NM_001102657.1	NP_001096127.1	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	513					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(2)|kidney(2)|large_intestine(9)|lung(10)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	26						TATGTCGAGTGAGTAATGAGC	0.388																																																0													75	84	81					19																	52659397		2186	4294	6480	SO:0001819	synonymous_variant	162962			BC011784	CCDS46162.1	19q13.33	2013-01-08			ENSG00000196267	ENSG00000196267		"Zinc fingers, C2H2-type", "-"	34333	protein-coding gene	gene with protein product							Standard	NM_001102657		Approved	FLJ16287	uc010ydj.2	Q6ZNA1		ENST00000322146.8:c.1539C>T	19.37:g.52659397G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000322146.8	37	CCDS46162.1																																																																																				0.388	ZNF836-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462456.1	NM_001102657		A	52659397	G	A	52659397	2	1	585	1	0	0	0	0	0	0	0	1	18199	1277	45	2		2	ZNF836	19	52659397	Silent	SNP	G	TCGA-EV-5903-01A-11D-1589-08	2690290	52659397	6469586	129	34876										
NLRP11	204801	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	56329449	56329449	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tgaaatcaagaatcttgcgtGccagatacttcttaaaactc	6	9	3	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr19:56329449G>T	ENST00000589093.1	-	2	185	c.92C>A	c.(91-93)gCa>gAa	p.A31E	NLRP11_ENST00000443188.1_Missense_Mutation_p.A31E|NLRP11_ENST00000589824.2_Missense_Mutation_p.A31E|NLRP11_ENST00000592953.1_Intron|NLRP11_ENST00000360133.3_Missense_Mutation_p.A31E			P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	31	DAPIN. {ECO:0000255|PROSITE- ProRule:PRU00061}.						ATP binding (GO:0005524)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced ascorbate as one donor, and incorporation of one atom of oxygen (GO:0016715)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(1)|large_intestine(14)|lung(22)|ovary(3)|pancreas(1)|prostate(1)|skin(5)|stomach(2)|upper_aerodigestive_tract(3)	66		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		AATCTTGCGTGCCAGATACTT	0.413																																																0													135	126	129					19																	56329449		2203	4300	6503	SO:0001583	missense	204801			AY095145	CCDS12935.1, CCDS74458.1	19q13.43	2008-02-05	2006-12-08	2006-12-08		ENSG00000179873		"Nucleotide-binding domain and leucine rich repeat containing"	22945	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 11"	609664	"NACHT, leucine rich repeat and PYD containing 11"	NALP11		12563287, 12019269	Standard	NM_145007		Approved	PYPAF6, NOD17, PAN10, CLR19.6	uc010ygf.2	P59045		ENST00000589093.1:c.92C>A	19.37:g.56329449G>T	ENSP00000466285:p.Ala31Glu	Somatic		WXS	Illumina HiSeq	Phase_I	C9JSF5|Q2TV85|Q2TV86|Q53ZZ0|Q8NBF5	Missense_Mutation	SNP	ENST00000589093.1	37	CCDS12935.1	.	.	.	.	.	.	.	.	.	.	G	0.719	-0.784370	0.02907	.	.	ENSG00000179873	ENST00000443188;ENST00000360133	T;T	0.48522	0.81;0.81	2.56	-5.13	0.02884	Pyrin (2);DEATH-like (2);	.	.	.	.	T	0.23846	0.0577	N	0.22421	0.69	0.09310	N	1	B	0.18461	0.028	B	0.26094	0.066	T	0.26360	-1.0105	9	0.18710	T	0.47	.	0.3757	0.00387	0.2979:0.2202:0.2836:0.1983	.	31	P59045	NAL11_HUMAN	E	31	ENSP00000409898:A31E;ENSP00000353251:A31E	ENSP00000353251:A31E	A	-	2	0	NLRP11	61021261	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.568000	0.02144	-1.980000	0.00990	-2.070000	0.00385	GCA		0.413	NLRP11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453657.1	NM_145007		T	56329449	G	T	56329449	3	4	585	1	0	0	0	0	1	0	0	0	10480	1319	46	4	3045	4	NLRP11	19	56329449	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08	3670052	56329449	2799534	130	34877										
BPIL1	80341	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	31601760	31601760	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	aacgagtttgatggcagtaaCaggtgggtgcctggtgaggg	18	5	0	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr20:31601760C>G	ENST00000170150.3	+	5	648	c.453C>G	c.(451-453)aaC>aaG	p.N151K		NM_025227.1	NP_079503.1	Q8N4F0	BPIB2_HUMAN	BPI fold containing family B, member 2	151						extracellular vesicular exosome (GO:0070062)	lipid binding (GO:0008289)										ATGGCAGTAACAGGTGGGTGC	0.582																																																0													47	41	43					20																	31601760		2203	4300	6503	SO:0001583	missense	80341			AF465765	CCDS13210.1	20q11.21	2011-08-04	2011-07-29	2011-07-29	ENSG00000078898	ENSG00000078898		"BPI fold containing"	16177	protein-coding gene	gene with protein product		614108	"bactericidal/permeability-increasing protein-like 1"	C20orf184, BPIL1		12185532, 21787333	Standard	NM_025227		Approved	dJ726C3.2, LPLUNC2	uc002wyj.4	Q8N4F0	OTTHUMG00000032232	ENST00000170150.3:c.453C>G	20.37:g.31601760C>G	ENSP00000170150:p.Asn151Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UWN3|Q6ZME0|Q8NFQ7	Missense_Mutation	SNP	ENST00000170150.3	37	CCDS13210.1	.	.	.	.	.	.	.	.	.	.	C	0.777	-0.763664	0.02996	.	.	ENSG00000078898	ENST00000170150	T	0.05025	3.51	3.37	1.32	0.21799	.	1.051320	0.07484	N	0.904509	T	0.04363	0.0120	L	0.27053	0.805	0.21802	N	0.999535	B	0.09022	0.002	B	0.08055	0.003	T	0.43829	-0.9367	10	0.05833	T	0.94	0.1991	7.9791	0.30172	0.4451:0.5549:0.0:0.0	.	151	Q8N4F0	BPIB2_HUMAN	K	151	ENSP00000170150:N151K	ENSP00000170150:N151K	N	+	3	2	BPIFB2	31065421	0.257000	0.24022	0.587000	0.28692	0.145000	0.21501	0.314000	0.19432	0.396000	0.25283	0.491000	0.48974	AAC		0.582	BPIFB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078652.2	NM_025227		G	31601760	C	G	31601760	3	3	585	1	0	0	0	0	1	0	0	0	1493	477	17	4	467	4	BPIL1	20	31601760	Missense_Mutation	SNP	C	TCGA-EV-5903-01A-11D-1589-08		31601760	31423760	131	34878										
ZNF341	84905	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	32376706	32376706	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	tgctcagtgtgcgagtctgcGttcaaccgcaaggacaaact	11	11	3	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr20:32376706G>T	ENST00000375200.1	+	13	2255	c.1890G>T	c.(1888-1890)gcG>gcT	p.A630A	RP4-553F4.6_ENST00000423074.1_RNA|RP4-553F4.6_ENST00000443171.1_RNA|RP4-553F4.6_ENST00000439444.1_RNA|ZNF341_ENST00000342427.2_Silent_p.A623A	NM_001282933.1	NP_001269862.1	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	630					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)	p.A623A(1)		NS(1)|breast(1)|central_nervous_system(2)|endometrium(3)|kidney(4)|large_intestine(3)|lung(8)|ovary(2)|prostate(3)|skin(1)|urinary_tract(3)	31						GCGAGTCTGCGTTCAACCGCA	0.547																																																1	Substitution - coding silent(1)	endometrium(1)											122	99	107					20																	32376706		2203	4300	6503	SO:0001819	synonymous_variant	84905			AK027550	CCDS13227.1, CCDS74719.1	20q11.22	2013-01-08			ENSG00000131061	ENSG00000131061		"Zinc fingers, C2H2-type"	15992	protein-coding gene	gene with protein product							Standard	NM_001282933		Approved	dJ553F4.3	uc002wzx.3	Q9BYN7	OTTHUMG00000032275	ENST00000375200.1:c.1890G>T	20.37:g.32376706G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2RUF4|B2RXE5|B7ZM09|Q5JXM8|Q96ST5	Silent	SNP	ENST00000375200.1	37																																																																																					0.547	ZNF341-201	KNOWN	basic	protein_coding	protein_coding				T	32376706	G	T	32376706	2	4	585	1	0	0	0	0	0	0	0	1	17869	1132	40	4		4	ZNF341	20	32376706	Silent	SNP	G	TCGA-EV-5903-01A-11D-1589-08	774946	32376706	30648814	132	34879										
PTPRT	11122	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	40730779	40730779	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cttacatccatcagtgctgcGttgatgtaattgctggattc	9	9	1	1	rs146474971	byFrequency	TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr20:40730779G>A	ENST00000373187.1	-	26	3698	c.3699C>T	c.(3697-3699)aaC>aaT	p.N1233N	PTPRT_ENST00000373198.4_Silent_p.N1252N|PTPRT_ENST00000356100.2_Silent_p.N1242N|PTPRT_ENST00000373201.1_Silent_p.N1223N|PTPRT_ENST00000373184.1_Silent_p.N1243N|PTPRT_ENST00000373193.3_Silent_p.N1236N|PTPRT_ENST00000373190.1_Silent_p.N1232N			O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1233	Tyrosine-protein phosphatase 2. {ECO:0000255|PROSITE-ProRule:PRU00160}.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)|signal transduction (GO:0007165)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	alpha-catenin binding (GO:0045294)|beta-catenin binding (GO:0008013)|cadherin binding (GO:0045296)|delta-catenin binding (GO:0070097)|gamma-catenin binding (GO:0045295)|protein tyrosine phosphatase activity (GO:0004725)			NS(2)|breast(2)|endometrium(9)|haematopoietic_and_lymphoid_tissue(4)|kidney(12)|large_intestine(26)|liver(1)|lung(63)|ovary(8)|pancreas(2)|prostate(5)|skin(35)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	176		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				TCAGTGCTGCGTTGATGTAAT	0.552													G|||	5	0.000998403	0.0	0.0	5008	,	,		19597	0.005		0.0	False		,,,				2504	0.0															0								G	,	1,4227		0,1,2113	76	76	76		3699,3756	-4.6	0.5	20	dbSNP_134	76	0,8508		0,0,4254	no	coding-synonymous,coding-synonymous	PTPRT	NM_007050.5,NM_133170.3	,	0,1,6367	AA,AG,GG		0.0,0.0237,0.0079	,	1233/1442,1252/1461	40730779	1,12735	2114	4254	6368	SO:0001819	synonymous_variant	11122			AF043644	CCDS42874.1, CCDS68127.1	20q12-q13	2013-02-11			ENSG00000196090	ENSG00000196090		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	9682	protein-coding gene	gene with protein product		608712				9486824, 9602027	Standard	NM_133170		Approved	RPTPrho, KIAA0283	uc010ggj.3	O14522	OTTHUMG00000033040	ENST00000373187.1:c.3699C>T	20.37:g.40730779G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8E4R6|O43655|O75664|Q5W0X9|Q5W0Y1|Q9BR24|Q9BR28|Q9H0Y8|Q9NTL1|Q9NU72|Q9UBD2|Q9UJL7	Silent	SNP	ENST00000373187.1	37	CCDS42874.1																																																																																				0.552	PTPRT-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000080315.1			A	40730779	G	A	40730779	2	1	585	1	0	0	0	0	0	0	0	1	12825	1136	40	1		1	PTPRT	20	40730779	Silent	SNP	G	TCGA-EV-5903-01A-11D-1589-08	8354073	40730779	22294741	133	34880										
C21orf45	54069	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr21	33651272	33651272	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	catttgcccttgtcgccgcaCtcacagccgccagcgcatcc	8	19	1	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr21:33651272C>T	ENST00000290130.3	-	1	108	c.54G>A	c.(52-54)gaG>gaA	p.E18E	MIS18A-AS1_ENST00000453549.1_RNA	NM_018944.2	NP_061817.1	Q9NYP9	MS18A_HUMAN	MIS18 kinetochore protein A	18					CENP-A containing nucleosome assembly (GO:0034080)|chromosome segregation (GO:0007059)|mitotic nuclear division (GO:0007067)|nucleosome assembly (GO:0006334)|regulation of DNA methylation (GO:0044030)	chromosome, centromeric region (GO:0000775)|cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				breast(1)|endometrium(1)|kidney(2)|large_intestine(1)|lung(2)	7						TGTCGCCGCACTCACAGCCGC	0.607																																																0													36	39	38					21																	33651272		2202	4296	6498	SO:0001819	synonymous_variant	54069			AF231921	CCDS13611.1	21q22.11	2013-10-21	2013-10-21	2011-02-23	ENSG00000159055	ENSG00000159055			1286	protein-coding gene	gene with protein product			"chromosome 21 open reading frame 46", "chromosome 21 open reading frame 45", "MIS18 kinetochore protein homolog A (S. pombe)"	C21orf46, C21orf45		17199038	Standard	NM_018944		Approved	B28, FASP1, hMis18alpha	uc002ypi.3	Q9NYP9	OTTHUMG00000085308	ENST00000290130.3:c.54G>A	21.37:g.33651272C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R562|Q542Z0	Silent	SNP	ENST00000290130.3	37	CCDS13611.1																																																																																				0.607	MIS18A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000193090.1	NM_018944		T	33651272	C	T	33651272	2	4	585	1	0	0	0	0	0	0	0	1	2128	564	20	2		2	C21orf45	21	33651272	Silent	SNP	C	TCGA-EV-5903-01A-11D-1589-08		33651272	14478623	134	34881										
SON	6651	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	34922663	34922663	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	cgttggagctgcaggagtcgTcggtggcctcagcgatggag	18	9	1	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr21:34922663T>C	ENST00000356577.4	+	3	1601	c.1126T>C	c.(1126-1128)Tcg>Ccg	p.S376P	SON_ENST00000381679.4_Missense_Mutation_p.S376P|SON_ENST00000381692.2_Intron|SON_ENST00000290239.6_Missense_Mutation_p.S376P|SON_ENST00000300278.4_Missense_Mutation_p.S376P	NM_138927.1	NP_620305	P18583	SON_HUMAN	SON DNA binding protein	376					cytokinesis (GO:0000910)|microtubule cytoskeleton organization (GO:0000226)|mRNA processing (GO:0006397)|negative regulation of apoptotic process (GO:0043066)|regulation of cell cycle (GO:0051726)|regulation of RNA splicing (GO:0043484)|RNA splicing (GO:0008380)	nuclear speck (GO:0016607)|nucleus (GO:0005634)	DNA binding (GO:0003677)|nucleic acid binding (GO:0003676)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			breast(3)|central_nervous_system(2)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(13)|lung(25)|ovary(4)|prostate(2)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	72						GCAGGAGTCGTCGGTGGCCTC	0.627																																																0													78	85	82					21																	34922663		2203	4300	6503	SO:0001583	missense	6651			AF380181	CCDS13629.1, CCDS13631.1, CCDS74784.1	21q22.1-q22.2	2013-01-28			ENSG00000159140	ENSG00000159140		"G patch domain containing"	11183	protein-coding gene	gene with protein product	"NRE-binding protein", "negative regulatory element-binding protein", "Bax antagonist selected in Saccharomyces 1"	182465		C21orf50		8318737, 21551269	Standard	NM_032195		Approved	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914	uc002yse.1	P18583	OTTHUMG00000065806	ENST00000356577.4:c.1126T>C	21.37:g.34922663T>C	ENSP00000348984:p.Ser376Pro	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSF5|D3DSF6|E7ETE8|E7EU67|E7EVW3|E9PFQ2|O14487|O95981|Q14120|Q6PKE0|Q9H7B1|Q9P070|Q9P072|Q9UKP9|Q9UPY0	Missense_Mutation	SNP	ENST00000356577.4	37	CCDS13629.1	.	.	.	.	.	.	.	.	.	.	T	12.36	1.913625	0.33815	.	.	ENSG00000159140	ENST00000356577;ENST00000290239;ENST00000300278;ENST00000381679	T;T;T;T	0.14022	2.71;2.72;2.72;2.54	5.43	1.29	0.21616	.	0.277107	0.26272	N	0.025322	T	0.05593	0.0147	N	0.14661	0.345	0.21802	N	0.999532	B;B;B	0.22080	0.038;0.064;0.015	B;B;B	0.22880	0.019;0.042;0.023	T	0.36335	-0.9752	10	0.15499	T	0.54	.	2.7433	0.05259	0.1873:0.2368:0.0:0.5759	.	376;376;376	P18583;P18583-3;P18583-6	SON_HUMAN;.;.	P	376	ENSP00000348984:S376P;ENSP00000290239:S376P;ENSP00000300278:S376P;ENSP00000371095:S376P	ENSP00000290239:S376P	S	+	1	0	SON	33844533	0.991000	0.36638	1.000000	0.80357	0.997000	0.91878	0.194000	0.17135	0.413000	0.25759	0.459000	0.35465	TCG		0.627	SON-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000140978.2	NM_138927		C	34922663	T	C	34922663	3	2	585	1	0	0	0	0	1	0	0	0	14939	1667	58	3	1136	3	SON	21	34922663	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	1271391	34922663	13207232	135	34882										
PICK1	9463	broad.mit.edu	37	chr22	38461040	38461040	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	caccccagcagccttggacgGcacagtggcagctggcgatg	14	14	0	0			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr22:38461040G>A	ENST00000404072.3	+	4	532	c.185G>A	c.(184-186)gGc>gAc	p.G62D	PICK1_ENST00000468288.1_3'UTR|PICK1_ENST00000356976.3_Missense_Mutation_p.G62D|RP5-1039K5.13_ENST00000445483.1_RNA	NM_001039583.1|NM_001039584.1	NP_001034672.1|NP_001034673.1	Q9NRD5	PICK1_HUMAN	protein interacting with PRKCA 1	62	PDZ. {ECO:0000255|PROSITE- ProRule:PRU00143}.				ATP catabolic process (GO:0006200)|cellular response to decreased oxygen levels (GO:0036294)|cellular response to glucose starvation (GO:0042149)|dendritic spine maintenance (GO:0097062)|dendritic spine organization (GO:0097061)|DNA methylation involved in embryo development (GO:0043045)|DNA methylation involved in gamete generation (GO:0043046)|glial cell development (GO:0021782)|long term synaptic depression (GO:0060292)|monoamine transport (GO:0015844)|negative regulation of Arp2/3 complex-mediated actin nucleation (GO:0034316)|neuronal ion channel clustering (GO:0045161)|positive regulation of receptor internalization (GO:0002092)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|protein phosphorylation (GO:0006468)|protein targeting (GO:0006605)|receptor clustering (GO:0043113)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|endocytic vesicle membrane (GO:0030666)|Golgi apparatus (GO:0005794)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|neuronal postsynaptic density (GO:0097481)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|presynaptic membrane (GO:0042734)|synapse (GO:0045202)	actin filament binding (GO:0051015)|Arp2/3 complex binding (GO:0071933)|ATPase activity (GO:0016887)|enzyme binding (GO:0019899)|metal ion binding (GO:0046872)|protein C-terminus binding (GO:0008022)|protein kinase C binding (GO:0005080)|receptor binding (GO:0005102)			cervix(1)|endometrium(3)|large_intestine(1)|lung(6)|prostate(1)|upper_aerodigestive_tract(1)	13	Melanoma(58;0.045)					GCCTTGGACGGCACAGTGGCA	0.542																																																0													127	106	113					22																	38461040		2203	4300	6503	SO:0001583	missense	9463			AL049654	CCDS13965.1	22q13.1	2006-02-14	2006-02-14	2006-02-14	ENSG00000100151	ENSG00000100151			9394	protein-coding gene	gene with protein product		605926	"protein kinase C, alpha binding protein", "protein interacting with PRKCA"	PRKCABP		10340301, 10591208	Standard	XM_006724377		Approved	dJ1039K5, MGC15204	uc003aus.3	Q9NRD5	OTTHUMG00000151159	ENST00000404072.3:c.185G>A	22.37:g.38461040G>A	ENSP00000385205:p.Gly62Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B3KS52|O95906	Missense_Mutation	SNP	ENST00000404072.3	37	CCDS13965.1	.	.	.	.	.	.	.	.	.	.	G	20.8	4.052351	0.75960	.	.	ENSG00000100151	ENST00000404072;ENST00000424694;ENST00000437453;ENST00000356976;ENST00000435166	T;T;T;T;T	0.60299	0.2;0.2;0.2;0.2;0.2	5.12	5.12	0.69794	PDZ/DHR/GLGF (4);	0.000000	0.85682	D	0.000000	T	0.70150	0.3191	M	0.92317	3.295	0.80722	D	1	B	0.14438	0.01	B	0.19391	0.025	T	0.72679	-0.4220	10	0.59425	D	0.04	-35.1501	18.9552	0.92655	0.0:0.0:1.0:0.0	.	62	Q9NRD5	PICK1_HUMAN	D	62	ENSP00000385205:G62D;ENSP00000398141:G62D;ENSP00000410793:G62D;ENSP00000349465:G62D;ENSP00000397588:G62D	ENSP00000349465:G62D	G	+	2	0	PICK1	36790986	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.534000	0.98061	2.562000	0.86427	0.563000	0.77884	GGC		0.542	PICK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321569.2	NM_012407		A	38461040	G	A	38461040	3	1	585	1	0	0	0	0	1	0	0	0	11888	1203	42	2	195	2	PICK1	22	38461040	Missense_Mutation	SNP	G	TCGA-EV-5903-01A-11D-1589-08		38461040	12843526	136	34883										
FAM116B	414918	hgsc.bcm.edu	37	chr22	50752671	50752671	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	gggtcttcaaccttgaaggcTttttcagcttgacttgctta	9	9	3	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chr22:50752671T>C	ENST00000413817.3	-	13	1174	c.1103A>G	c.(1102-1104)aAg>aGg	p.K368R	XX-C283C717.1_ENST00000453835.1_RNA	NM_001001794.3	NP_001001794.3	Q8NEG7	DEN6B_HUMAN	DENN/MADD domain containing 6B	368					positive regulation of Rab GTPase activity (GO:0032851)	endosome (GO:0005768)	Rab guanyl-nucleotide exchange factor activity (GO:0017112)										CCTTGAAGGCTTTTTCAGCTT	0.642																																																0													40	47	45					22																	50752671		1956	4125	6081	SO:0001583	missense	414918			AK054743	CCDS46732.1	22q13.33	2012-10-03	2012-10-03	2012-10-03	ENSG00000205593	ENSG00000205593		"DENN/MADD domain containing"	32690	protein-coding gene	gene with protein product			"family with sequence similarity 116, member B"	FAM116B		21330364	Standard	NM_001001794		Approved	MGC33692, AFI1B	uc011arv.1	Q8NEG7	OTTHUMG00000150210	ENST00000413817.3:c.1103A>G	22.37:g.50752671T>C	ENSP00000391524:p.Lys368Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6X8I5	Missense_Mutation	SNP	ENST00000413817.3	37	CCDS46732.1	.	.	.	.	.	.	.	.	.	.	T	26.0	4.692743	0.88735	.	.	ENSG00000205593	ENST00000413817	.	.	.	5.09	5.09	0.68999	.	0.000000	0.85682	D	0.000000	T	0.74419	0.3714	M	0.62723	1.935	0.58432	D	0.999992	D;D	0.69078	0.997;0.997	D;D	0.75020	0.985;0.985	T	0.74172	-0.3751	9	0.39692	T	0.17	-29.4347	12.8207	0.57692	0.0:0.0:0.0:1.0	.	368;368	Q8NEG7;C9JIV6	F116B_HUMAN;.	R	368	.	ENSP00000391524:K368R	K	-	2	0	FAM116B	49095243	1.000000	0.71417	1.000000	0.80357	0.945000	0.59286	4.326000	0.59241	1.916000	0.55485	0.379000	0.24179	AAG		0.642	DENND6B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316845.3	NM_001001794		C	50752671	T	C	50752671	3	2	585	1	0	0	0	0	1	0	0	0	5412	1609	56	3	686	3	FAM116B	22	50752671	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	12291631	50752671	551895	137	34884										
HDAC6	10013	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	48682180	48682180	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	atgctgatgcagggatctagGggcctcactgatcaggtgag	15	8	3	3			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chrX:48682180G>A	ENST00000334136.5	+	26	3466	c.3288G>A	c.(3286-3288)agG>agA	p.R1096R	HDAC6_ENST00000444343.2_Silent_p.R1110R|HDAC6_ENST00000376619.2_Silent_p.R1096R			Q9UBN7	HDAC6_HUMAN	histone deacetylase 6	1096					aggresome assembly (GO:0070842)|cellular response to hydrogen peroxide (GO:0070301)|cellular response to misfolded protein (GO:0071218)|cellular response to topologically incorrect protein (GO:0035967)|histone deacetylation (GO:0016575)|Hsp90 deacetylation (GO:0070846)|intracellular protein transport (GO:0006886)|lysosome localization (GO:0032418)|macroautophagy (GO:0016236)|misfolded or incompletely synthesized protein catabolic process (GO:0006515)|negative regulation of hydrogen peroxide metabolic process (GO:0010727)|negative regulation of microtubule depolymerization (GO:0007026)|negative regulation of oxidoreductase activity (GO:0051354)|negative regulation of protein complex disassembly (GO:0043242)|negative regulation of proteolysis (GO:0045861)|negative regulation of transcription, DNA-templated (GO:0045892)|peptidyl-lysine deacetylation (GO:0034983)|polyubiquitinated misfolded protein transport (GO:0070845)|positive regulation of chaperone-mediated protein complex assembly (GO:0090035)|positive regulation of epithelial cell migration (GO:0010634)|positive regulation of hydrogen peroxide-mediated programmed cell death (GO:1901300)|positive regulation of receptor biosynthetic process (GO:0010870)|positive regulation of signal transduction (GO:0009967)|protein complex disassembly (GO:0043241)|protein deacetylation (GO:0006476)|protein polyubiquitination (GO:0000209)|regulation of androgen receptor signaling pathway (GO:0060765)|regulation of establishment of protein localization (GO:0070201)|regulation of gene expression, epigenetic (GO:0040029)|regulation of microtubule-based movement (GO:0060632)|regulation of receptor activity (GO:0010469)|response to growth factor (GO:0070848)|response to misfolded protein (GO:0051788)|response to organic substance (GO:0010033)|response to toxic substance (GO:0009636)|transcription, DNA-templated (GO:0006351)|tubulin deacetylation (GO:0090042)|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway (GO:0043162)	aggresome (GO:0016235)|axon (GO:0030424)|caveola (GO:0005901)|cell leading edge (GO:0031252)|cytoplasm (GO:0005737)|cytoplasmic microtubule (GO:0005881)|cytosol (GO:0005829)|dendrite (GO:0030425)|histone deacetylase complex (GO:0000118)|inclusion body (GO:0016234)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|nucleus (GO:0005634)|perikaryon (GO:0043204)|perinuclear region of cytoplasm (GO:0048471)	alpha-tubulin binding (GO:0043014)|beta-catenin binding (GO:0008013)|core promoter binding (GO:0001047)|dynein complex binding (GO:0070840)|enzyme binding (GO:0019899)|histone deacetylase activity (GO:0004407)|histone deacetylase binding (GO:0042826)|Hsp90 protein binding (GO:0051879)|microtubule binding (GO:0008017)|NAD-dependent histone deacetylase activity (H3-K14 specific) (GO:0032041)|NAD-dependent histone deacetylase activity (H3-K18 specific) (GO:0097372)|NAD-dependent histone deacetylase activity (H3-K9 specific) (GO:0046969)|NAD-dependent histone deacetylase activity (H4-K16 specific) (GO:0046970)|polyubiquitin binding (GO:0031593)|tau protein binding (GO:0048156)|tubulin deacetylase activity (GO:0042903)|zinc ion binding (GO:0008270)			breast(2)|endometrium(6)|kidney(5)|large_intestine(8)|lung(9)|ovary(3)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	40					Vorinostat(DB02546)	AGGGATCTAGGGGCCTCACTG	0.547																																					Pancreas(112;205 1675 2305 8976 15959)											0													83	66	72					X																	48682180		2203	4300	6503	SO:0001819	synonymous_variant	10013			AF132609	CCDS14306.1	Xp11.23	2014-06-12			ENSG00000094631	ENSG00000094631			14064	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 90"	300272				10220385, 10048485	Standard	NM_006044		Approved	KIAA0901, JM21, HD6, FLJ16239, PPP1R90	uc004dks.1	Q9UBN7	OTTHUMG00000034496	ENST00000334136.5:c.3288G>A	X.37:g.48682180G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O94975|Q6NT75|Q7L3E5|Q96CY0	Silent	SNP	ENST00000334136.5	37	CCDS14306.1	.	.	.	.	.	.	.	.	.	.	G	3.939	-0.014623	0.07681	.	.	ENSG00000094631	ENST00000430858	.	.	.	5.56	0.474	0.16768	.	.	.	.	.	T	0.23410	0.0566	.	.	.	0.09310	N	1	.	.	.	.	.	.	T	0.24333	-1.0163	4	.	.	.	0.2517	3.6925	0.08351	0.2664:0.0:0.4392:0.2944	.	.	.	.	E	57	.	.	G	+	2	0	HDAC6	48567124	0.016000	0.18221	0.000000	0.03702	0.048000	0.14542	0.329000	0.19698	-0.044000	0.13491	0.600000	0.82982	GGG		0.547	HDAC6-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000083394.2	NM_006044		A	48682180	G	A	48682180	2	1	585	1	0	0	0	0	0	0	0	1	7018	1223	43	2		2	HDAC6	23	48682180	Silent	SNP	G	TCGA-EV-5903-01A-11D-1589-08		48682180	106588380	138	34885										
RGAG1	57529	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	109695935	109695935	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.072463768115942	10	1	1.2326628088546	1.7565445026178	1.02822117226408	0.688167990308251	1	0	agggatgtccatgccactaaTgagagctcaagacccaggag	12	10	1	2			TCGA-EV-5903-01A-11D-1589-08	TCGA-EV-5903-10A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47cd3f3e-d93f-4343-8212-7656684a197c	f11afb9d-944d-4565-a9df-bdd5c35e0568	g.chrX:109695935T>G	ENST00000465301.2	+	3	2336	c.2090T>G	c.(2089-2091)aTg>aGg	p.M697R	RGAG1_ENST00000540313.1_Missense_Mutation_p.M697R	NM_020769.2	NP_065820.1	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	697								p.M697T(1)		NS(1)|autonomic_ganglia(1)|breast(2)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(15)|liver(1)|lung(29)|ovary(1)|prostate(5)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	73						ATGCCACTAATGAGAGCTCAA	0.517																																																1	Substitution - Missense(1)	endometrium(1)											118	99	105					X																	109695935		2203	4300	6503	SO:0001583	missense	57529			AY121804	CCDS14552.1	Xq23	2008-02-05			ENSG00000243978	ENSG00000243978			29245	protein-coding gene	gene with protein product						10718198, 15716091, 16093683	Standard	NM_020769		Approved	KIAA1318, Mart9, Mar9	uc004eor.2	Q8NET4	OTTHUMG00000022196	ENST00000465301.2:c.2090T>G	X.37:g.109695935T>G	ENSP00000419786:p.Met697Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q9P2M8	Missense_Mutation	SNP	ENST00000465301.2	37	CCDS14552.1	.	.	.	.	.	.	.	.	.	.	T	1.022	-0.684599	0.03353	.	.	ENSG00000243978	ENST00000465301;ENST00000540313	T;T	0.48201	0.82;0.82	3.63	2.48	0.30137	.	0.141438	0.32935	N	0.005468	T	0.30792	0.0776	L	0.39898	1.24	0.09310	N	1	P	0.35982	0.531	B	0.35413	0.202	T	0.10989	-1.0606	9	.	.	.	-0.0102	2.2783	0.04108	0.2497:0.1407:0.0:0.6096	.	697	Q8NET4	RGAG1_HUMAN	R	697	ENSP00000419786:M697R;ENSP00000441452:M697R	.	M	+	2	0	RGAG1	109582591	0.001000	0.12720	0.002000	0.10522	0.031000	0.12232	-0.744000	0.04839	0.596000	0.29794	0.486000	0.48141	ATG		0.517	RGAG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057906.2	NM_020769		G	109695935	T	G	109695935	3	3	585	1	0	0	0	0	1	0	0	0	13287	1464	51	5	2092	5	RGAG1	23	109695935	Missense_Mutation	SNP	T	TCGA-EV-5903-01A-11D-1589-08	61013755	109695935	45574625	139	34886										
CGN	57530	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	151502428	151502428	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	ggcaacagtgctggggcagcGgcgggccgcagtggagacga	20	10	0	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr1:151502428G>A	ENST00000271636.7	+	12	2283	c.2150G>A	c.(2149-2151)cGg>cAg	p.R717Q	SNORA44_ENST00000517031.1_RNA	NM_020770.2	NP_065821.1	Q9P2M7	CING_HUMAN	cingulin	711	Glu-rich.				transforming growth factor beta receptor signaling pathway (GO:0007179)	cell junction (GO:0030054)|myosin complex (GO:0016459)|tight junction (GO:0005923)	actin binding (GO:0003779)|motor activity (GO:0003774)			NS(1)|central_nervous_system(3)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(8)|liver(1)|lung(14)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	45	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)			CTGGGGCAGCGGCGGGCCGCA	0.652																																																0													30	37	34					1																	151502428		2203	4300	6503	SO:0001583	missense	57530			AB037740	CCDS999.1	1q21	2008-02-05			ENSG00000143375	ENSG00000143375			17429	protein-coding gene	gene with protein product		609473				11042084, 12529927	Standard	NM_020770		Approved	KIAA1319	uc009wmw.3	Q9P2M7	OTTHUMG00000012497	ENST00000271636.7:c.2150G>A	1.37:g.151502428G>A	ENSP00000271636:p.Arg717Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8L3|A7MD22|Q5T386|Q9NR25	Missense_Mutation	SNP	ENST00000271636.7	37	CCDS999.1	.	.	.	.	.	.	.	.	.	.	G	13.54	2.267974	0.40095	.	.	ENSG00000143375	ENST00000271636	T	0.64438	-0.1	5.27	5.27	0.74061	.	0.472495	0.21879	N	0.067773	T	0.62332	0.2419	L	0.50919	1.6	0.29222	N	0.87387	D	0.76494	0.999	P	0.60068	0.868	T	0.58685	-0.7593	10	0.39692	T	0.17	-10.0013	16.3784	0.83418	0.0:0.0:1.0:0.0	.	711	Q9P2M7	CING_HUMAN	Q	717	ENSP00000271636:R717Q	ENSP00000271636:R717Q	R	+	2	0	CGN	149769052	0.901000	0.30685	0.933000	0.37362	0.335000	0.28730	2.924000	0.48876	2.439000	0.82584	0.563000	0.77884	CGG		0.652	CGN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034900.3	NM_020770		A	151502428	G	A	151502428	3	1	586	1	0	0	0	0	1	0	0	0	3305	1116	39	1	2192	1	CGN	1	151502428	Missense_Mutation	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10		151502428	97748193	1	34887										
SHE	126669	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	154471704	154471704	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	aagggtcagcatagtcttctAaaatgatgacctgaaaaaga	9	6	3	4			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr1:154471704A>G	ENST00000304760.2	-	2	688	c.602T>C	c.(601-603)tTa>tCa	p.L201S	TDRD10_ENST00000368482.4_5'Flank	NM_001010846.2	NP_001010846.1	Q5VZ18	SHE_HUMAN	Src homology 2 domain containing E	201										breast(4)|central_nervous_system(1)|kidney(2)|large_intestine(2)|lung(2)|ovary(2)|pancreas(1)	14	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			ATAGTCTTCTAAAATGATGAC	0.448																																																0													129	108	115					1																	154471704		2203	4300	6503	SO:0001583	missense	126669			AK074067	CCDS30877.1	1q21.3	2013-02-14			ENSG00000169291	ENSG00000169291		"SH2 domain containing"	27004	protein-coding gene	gene with protein product		610482				9315092	Standard	NM_001010846		Approved		uc001ffb.3	Q5VZ18	OTTHUMG00000036072	ENST00000304760.2:c.602T>C	1.37:g.154471704A>G	ENSP00000307369:p.Leu201Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TEQ5	Missense_Mutation	SNP	ENST00000304760.2	37	CCDS30877.1	.	.	.	.	.	.	.	.	.	.	A	22.9	4.353420	0.82243	.	.	ENSG00000169291	ENST00000304760	T	0.31510	1.49	5.02	5.02	0.67125	.	0.102997	0.42821	D	0.000657	T	0.41050	0.1142	M	0.72894	2.215	0.42961	D	0.9944	D	0.89917	1.0	D	0.69307	0.963	T	0.22836	-1.0205	10	0.27082	T	0.32	-29.5539	13.7207	0.62725	1.0:0.0:0.0:0.0	.	201	Q5VZ18	SHE_HUMAN	S	201	ENSP00000307369:L201S	ENSP00000307369:L201S	L	-	2	0	SHE	152738328	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.237000	0.89807	2.099000	0.63709	0.533000	0.62120	TTA		0.448	SHE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087910.2	NM_001010846		G	154471704	A	G	154471704	3	3	586	1	0	0	0	0	1	0	0	0	14289	372	13	3	905	3	SHE	1	154471704	Missense_Mutation	SNP	A	TCGA-F9-A4JJ-01A-11D-A25F-10	2969276	154471704	94778917	2	34888										
OR10J5	127385	broad.mit.edu	37	chr1	159505502	159505502	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	taacaaaaaagaacatttgtGtagcacagcctgccaaggag	9	8	0	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr1:159505502G>A	ENST00000334857.2	-	1	340	c.296C>T	c.(295-297)aCa>aTa	p.T99I		NM_001004469.1	NP_001004469.1	Q8NHC4	O10J5_HUMAN	olfactory receptor, family 10, subfamily J, member 5	99						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			kidney(1)|large_intestine(4)|lung(9)|ovary(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	22	all_hematologic(112;0.0429)					GAACATTTGTGTAGCACAGCC	0.463																																																0													128	111	117					1																	159505502		2203	4300	6503	SO:0001583	missense	127385				CCDS30910.1	1q23.2	2012-08-09			ENSG00000184155	ENSG00000184155		"GPCR / Class A : Olfactory receptors"	14993	protein-coding gene	gene with protein product							Standard	NM_001004469		Approved		uc010piw.2	Q8NHC4	OTTHUMG00000022738	ENST00000334857.2:c.296C>T	1.37:g.159505502G>A	ENSP00000334441:p.Thr99Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B9EH35|Q6IFH2	Missense_Mutation	SNP	ENST00000334857.2	37	CCDS30910.1	.	.	.	.	.	.	.	.	.	.	G	0.914	-0.718207	0.03182	.	.	ENSG00000184155	ENST00000334857	T	0.02837	4.14	4.32	2.43	0.29744	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.00936	0.0031	L	0.35542	1.07	0.09310	N	1	B	0.24043	0.096	B	0.24974	0.057	T	0.46830	-0.9163	9	0.38643	T	0.18	.	8.3927	0.32537	0.196:0.0:0.804:0.0	.	99	Q8NHC4	O10J5_HUMAN	I	99	ENSP00000334441:T99I	ENSP00000334441:T99I	T	-	2	0	OR10J5	157772126	0.005000	0.15991	0.004000	0.12327	0.225000	0.24961	1.462000	0.35266	0.561000	0.29186	0.467000	0.42956	ACA		0.463	OR10J5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059021.1	NM_001004469		A	159505502	G	A	159505502	3	1	586	1	0	0	0	0	1	0	0	0	10919	1377	48	2	635	2	OR10J5	1	159505502	Missense_Mutation	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10	5033798	159505502	89745119	3	34889										
ATP1B1	481	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	169094224	169094232	+	In_Frame_Del	DEL	AAAAGTACA	AAAAGTACA	-													0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	gaacatagttaggttcctggAaaagtacaaagattcagccc							TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	AAAAGTACA	AAAAGTACA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr1:169094224_169094232delAAAAGTACA	ENST00000367816.1	+	4	858_866	c.329_337delAAAAGTACA	c.(328-339)gaaaagtacaaa>gaa	p.KYK111del	ATP1B1_ENST00000499679.3_In_Frame_Del_p.KYK55del|ATP1B1_ENST00000367815.4_In_Frame_Del_p.KYK111del|ATP1B1_ENST00000367813.3_In_Frame_Del_p.KYK103del			P05026	AT1B1_HUMAN	ATPase, Na+/K+ transporting, beta 1 polypeptide	111					blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cell adhesion (GO:0007155)|cell communication by electrical coupling involved in cardiac conduction (GO:0086064)|cellular calcium ion homeostasis (GO:0006874)|cellular potassium ion homeostasis (GO:0030007)|cellular sodium ion homeostasis (GO:0006883)|ion transmembrane transport (GO:0034220)|leukocyte migration (GO:0050900)|membrane repolarization (GO:0086009)|membrane repolarization during cardiac muscle cell action potential (GO:0086013)|positive regulation of ATP catabolic process (GO:1903291)|positive regulation of ATPase activity (GO:0032781)|positive regulation of calcium:sodium antiporter activity (GO:1903281)|positive regulation of potassium ion import (GO:1903288)|positive regulation of potassium ion transmembrane transporter activity (GO:1901018)|positive regulation of sodium ion export from cell (GO:1903278)|potassium ion import (GO:0010107)|protein localization to plasma membrane (GO:0072659)|protein stabilization (GO:0050821)|protein transport into plasma membrane raft (GO:0044861)|regulation of cardiac muscle contraction by calcium ion signaling (GO:0010882)|regulation of gene expression (GO:0010468)|relaxation of cardiac muscle (GO:0055119)|response to hypoxia (GO:0001666)|sodium ion export from cell (GO:0036376)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|caveola (GO:0005901)|extracellular vesicular exosome (GO:0070062)|intercalated disc (GO:0014704)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sodium:potassium-exchanging ATPase complex (GO:0005890)|vesicle (GO:0031982)	ATPase activator activity (GO:0001671)|ATPase binding (GO:0051117)|MHC class II protein complex binding (GO:0023026)|sodium:potassium-exchanging ATPase activity (GO:0005391)			breast(1)|endometrium(1)|kidney(3)|large_intestine(3)|lung(4)|ovary(1)|prostate(1)	14	all_hematologic(923;0.208)					AGGTTCCTGGAAAAGTACAAAGATTCAGC	0.392																																																0																																										SO:0001651	inframe_deletion	481			U16799	CCDS1276.1	1q24.2	2012-10-22			ENSG00000143153	ENSG00000143153		"ATPases / P-type"	804	protein-coding gene	gene with protein product	"sodium/potassium-transporting ATPase subunit beta-1", "sodium pump subunit beta-1", "sodium-potassium ATPase subunit beta 1 (non-catalytic)"	182330		ATP1B			Standard	NM_001677		Approved		uc001gfr.1	P05026	OTTHUMG00000034590	ENST00000367816.1:c.329_337delAAAAGTACA	1.37:g.169094224_169094232delAAAAGTACA	ENSP00000356790:p.Lys111_Lys113del	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TGZ3	In_Frame_Del	DEL	ENST00000367816.1	37	CCDS1276.1																																																																																				0.392	ATP1B1-002	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083696.1			-	169094232	AAAAGTACA	-	169094224	7	5	586	1	0	1	0	1	0	0	0	0	1132	246	9	0	339	0	ATP1B1	1	169094224	In_Frame_Del	DEL	AAAAGTACA	TCGA-F9-A4JJ-01A-11D-A25F-10	9588722	169094224	80156397	4	34890										
IGFN1	91156	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	201166405	201166405	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	tgcacagcagtaaatgcgtaCggagaggccgcttgctcagt	13	10	1	1	rs370452044		TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr1:201166405C>T	ENST00000335211.4	+	5	457	c.327C>T	c.(325-327)taC>taT	p.Y109Y	IGFN1_ENST00000295591.8_5'UTR|IGFN1_ENST00000451870.2_Silent_p.Y109Y	NM_001164586.1	NP_001158058.1	Q86VF2	IGFN1_HUMAN	immunoglobulin-like and fibronectin type III domain containing 1	109	Ig-like 1.					nucleus (GO:0005634)|Z disc (GO:0030018)				autonomic_ganglia(2)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(6)|lung(21)|ovary(2)|pancreas(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	45						TAAATGCGTACGGAGAGGCCG	0.557																																																0								C		1,1383		0,1,691	172	157	162		327	-2.2	0.1	1		162	0,3182		0,0,1591	no	coding-synonymous	IGFN1	NM_001164586.1		0,1,2282	TT,TC,CC		0.0,0.0723,0.0219		109/3709	201166405	1,4565	692	1591	2283	SO:0001819	synonymous_variant	91156			AY245430	CCDS53455.1	1q32.1	2013-02-11			ENSG00000163395	ENSG00000163395		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	24607	protein-coding gene	gene with protein product							Standard	NM_001164586		Approved	DKFZp434B1231, EEF1A2BP1	uc001gwc.3	Q86VF2	OTTHUMG00000035728	ENST00000335211.4:c.327C>T	1.37:g.201166405C>T		Somatic		WXS	Illumina HiSeq	Phase_I	F8WAI1|Q9NT72	Silent	SNP	ENST00000335211.4	37	CCDS53455.1																																																																																				0.557	IGFN1-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_178275		T	201166405	C	T	201166405	2	4	586	1	0	0	0	0	0	0	0	1	7597	547	19	1		1	IGFN1	1	201166405	Silent	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10	32072181	201166405	48084216	5	34891										
CR1	1378	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	207669654	207669654	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	agcccggagcctgtcgggccGccggcgcccggtctcccctt	14	19	1	0			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr1:207669654G>C	ENST00000367049.4	+	1	42	c.42G>C	c.(40-42)ccG>ccC	p.P14P	CR1_ENST00000367050.4_3'UTR|CR1_ENST00000367053.1_Silent_p.P14P|CR1_ENST00000367052.1_Silent_p.P14P|CR1_ENST00000400960.2_Silent_p.P14P|CR1_ENST00000367051.1_Silent_p.P14P	NM_000651.4	NP_000642.3	P17927	CR1_HUMAN	complement component (3b/4b) receptor 1 (Knops blood group)	14					complement activation, classical pathway (GO:0006958)|complement receptor mediated signaling pathway (GO:0002430)|innate immune response (GO:0045087)|negative regulation of complement activation, alternative pathway (GO:0045957)|negative regulation of complement activation, classical pathway (GO:0045959)|negative regulation of serine-type endopeptidase activity (GO:1900004)|positive regulation of serine-type endopeptidase activity (GO:1900005)|regulation of complement activation (GO:0030449)	cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	complement component C3b binding (GO:0001851)|complement component C3b receptor activity (GO:0004877)|complement component C4b binding (GO:0001855)|complement component C4b receptor activity (GO:0001861)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(9)|kidney(11)|large_intestine(13)|lung(33)|ovary(3)|prostate(6)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	82						CTGTCGGGCCGCCGGCGCCCG	0.632																																																0													21	27	25					1																	207669654		1819	4077	5896	SO:0001819	synonymous_variant	1378			Y00816	CCDS44308.1, CCDS44309.1	1q32	2014-07-19	2006-01-12		ENSG00000203710	ENSG00000203710		"CD molecules", "Blood group antigens", "Complement system"	2334	protein-coding gene	gene with protein product		120620	"complement component (3b/4b) receptor 1, including Knops blood group system"			1708809	Standard	XM_005273064		Approved	CD35, KN	uc001hfx.3	P17927	OTTHUMG00000036311	ENST00000367049.4:c.42G>C	1.37:g.207669654G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q16744|Q16745|Q5SR43|Q5SR45|Q9UQV2	Silent	SNP	ENST00000367049.4	37	CCDS44308.1																																																																																				0.632	CR1-012	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382527.1	NM_000573		C	207669654	G	C	207669654	2	2	586	1	0	0	0	0	0	0	0	1	3842	1074	38	4		4	CR1	1	207669654	Silent	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10	6503249	207669654	41580967	6	34892										
PROX1	5629	broad.mit.edu;bcgsc.ca	37	chr1	214170147	214170147	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	catgatgccttttccaggagCaaccataatttcccagctgt	7	12	0	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr1:214170147C>A	ENST00000366958.4	+	2	877	c.269C>A	c.(268-270)gCa>gAa	p.A90E	PROX1_ENST00000435016.1_Missense_Mutation_p.A90E|PROX1_ENST00000498508.2_Missense_Mutation_p.A90E|PROX1_ENST00000261454.4_Missense_Mutation_p.A90E	NM_001270616.1	NP_001257545.1	Q92786	PROX1_HUMAN	prospero homeobox 1	90					aorta smooth muscle tissue morphogenesis (GO:0060414)|atrial cardiac muscle tissue morphogenesis (GO:0055009)|brain development (GO:0007420)|cell fate determination (GO:0001709)|cerebellar granule cell differentiation (GO:0021707)|dentate gyrus development (GO:0021542)|dorsal spinal cord development (GO:0021516)|embryonic retina morphogenesis in camera-type eye (GO:0060059)|endocardium formation (GO:0060214)|hepatocyte cell migration (GO:0002194)|hepatocyte differentiation (GO:0070365)|hepatocyte proliferation (GO:0072574)|kidney development (GO:0001822)|lens development in camera-type eye (GO:0002088)|lens fiber cell morphogenesis (GO:0070309)|liver development (GO:0001889)|lung development (GO:0030324)|lymphangiogenesis (GO:0001946)|lymphatic endothelial cell differentiation (GO:0060836)|negative regulation of bile acid biosynthetic process (GO:0070858)|negative regulation of cell proliferation (GO:0008285)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of viral genome replication (GO:0045071)|neural tube development (GO:0021915)|neuronal stem cell maintenance (GO:0097150)|olfactory placode formation (GO:0030910)|optic placode formation involved in camera-type eye formation (GO:0046619)|otic placode formation (GO:0043049)|pancreas development (GO:0031016)|positive regulation of cell cycle (GO:0045787)|positive regulation of cell cycle checkpoint (GO:1901978)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045737)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of forebrain neuron differentiation (GO:2000979)|positive regulation of heart growth (GO:0060421)|positive regulation of neural precursor cell proliferation (GO:2000179)|positive regulation of sarcomere organization (GO:0060298)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of circadian rhythm (GO:0042752)|regulation of gene expression (GO:0010468)|regulation of transcription involved in lymphatic endothelial cell fate commitment (GO:0060849)|response to nutrient levels (GO:0031667)|retina morphogenesis in camera-type eye (GO:0060042)|skeletal muscle thin filament assembly (GO:0030240)|venous blood vessel morphogenesis (GO:0048845)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)|ventricular cardiac myofibril assembly (GO:0055005)|ventricular septum morphogenesis (GO:0060412)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	core promoter sequence-specific DNA binding (GO:0001046)|DBD domain binding (GO:0050692)|DNA binding (GO:0003677)|LBD domain binding (GO:0050693)|ligand-dependent nuclear receptor binding (GO:0016922)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)|transcription regulatory region DNA binding (GO:0044212)			autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(6)|lung(15)|ovary(3)|prostate(2)|skin(4)	47				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		TTTCCAGGAGCAACCATAATT	0.488																																																0													85	83	84					1																	214170147		2203	4300	6503	SO:0001583	missense	5629			U44060	CCDS31021.1	1q41	2011-06-20	2007-06-01		ENSG00000117707	ENSG00000117707		"Homeoboxes / PROS class"	9459	protein-coding gene	gene with protein product		601546	"prospero-related homeobox 1"			8812486	Standard	NM_002763		Approved		uc001hkg.2	Q92786	OTTHUMG00000036946	ENST00000366958.4:c.269C>A	1.37:g.214170147C>A	ENSP00000355925:p.Ala90Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NK29|A8K2B1|Q5SW76|Q8TB91	Missense_Mutation	SNP	ENST00000366958.4	37	CCDS31021.1	.	.	.	.	.	.	.	.	.	.	C	20.4	3.981386	0.74474	.	.	ENSG00000117707	ENST00000471129;ENST00000498508;ENST00000366958;ENST00000435016;ENST00000261454	T;T;T;T;T	0.20598	2.06;2.06;2.06;2.06;2.06	5.77	5.77	0.91146	.	0.048799	0.85682	D	0.000000	T	0.38719	0.1051	L	0.44542	1.39	0.80722	D	1	D	0.58268	0.982	P	0.59825	0.864	T	0.02950	-1.1090	10	0.72032	D	0.01	-2.6486	20.3627	0.98863	0.0:1.0:0.0:0.0	.	90	Q92786	PROX1_HUMAN	E	90	ENSP00000419517:A90E;ENSP00000420283:A90E;ENSP00000355925:A90E;ENSP00000400694:A90E;ENSP00000261454:A90E	ENSP00000261454:A90E	A	+	2	0	PROX1	212236770	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.677000	0.68142	2.885000	0.99019	0.655000	0.94253	GCA		0.488	PROX1-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089727.6	NM_002763		A	214170147	C	A	214170147	3	1	586	1	0	0	0	0	1	0	0	0	12570	710	25	4	271	4	PROX1	1	214170147	Missense_Mutation	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10	6500493	214170147	35080474	7	34893										
FMN2	56776	hgsc.bcm.edu	37	chr1	240255571	240255571	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	cacggcaaggggggagggggCggcggcggcggcggggagtc	26	9	0	0	rs71929261|rs140531536	byFrequency	TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr1:240255571C>G	ENST00000319653.9	+	1	392	c.162C>G	c.(160-162)ggC>ggG	p.G54G		NM_020066.4	NP_064450.3	Q9NZ56	FMN2_HUMAN	formin 2	54					cellular response to DNA damage stimulus (GO:0006974)|cellular response to hypoxia (GO:0071456)|establishment of meiotic spindle localization (GO:0051295)|formin-nucleated actin cable assembly (GO:0070649)|homologous chromosome movement towards spindle pole involved in homologous chromosome segregation (GO:0051758)|intracellular signal transduction (GO:0035556)|intracellular transport (GO:0046907)|multicellular organismal development (GO:0007275)|negative regulation of apoptotic process (GO:0043066)|negative regulation of protein catabolic process (GO:0042177)|oogenesis (GO:0048477)|polar body extrusion after meiotic divisions (GO:0040038)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	cell cortex (GO:0005938)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|microvillus (GO:0005902)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)|spindle (GO:0005819)	actin binding (GO:0003779)	p.G197delG(1)		NS(1)|breast(7)|central_nervous_system(6)|cervix(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(13)|lung(87)|ovary(6)|pancreas(3)|prostate(12)|skin(7)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(2)	178	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GGGGAgggggcggcggcggcg	0.662																																																1	Deletion - In frame(1)	prostate(1)											2	3	3					1																	240255571		1816	3578	5394	SO:0001819	synonymous_variant	56776			AF218942	CCDS31069.2	1q43	2008-02-05			ENSG00000155816	ENSG00000155816			14074	protein-coding gene	gene with protein product		606373				10781961	Standard	NM_020066		Approved		uc010pyd.2	Q9NZ56	OTTHUMG00000039883	ENST00000319653.9:c.162C>G	1.37:g.240255571C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0QZA7|B4DP05|Q59GF6|Q5VU37|Q9NZ55	Silent	SNP	ENST00000319653.9	37	CCDS31069.2																																																																																				0.662	FMN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096217.2	XM_371352		G	240255571	C	G	240255571	2	3	586	1	0	0	0	0	0	0	0	1	5957	755	27	4		4	FMN2	1	240255571	Silent	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10	26085424	240255571	8995050	8	34894										
FH	2271	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	241661272	241661272	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	tttgctgccttgtcatacccTgaagaaaaaataaaaagacg	7	8	1	3			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr1:241661272T>G	ENST00000366560.3	-	10	1429		c.e10-2			NM_000143.3	NP_000134.2	P07954	FUMH_HUMAN	fumarate hydratase						cellular metabolic process (GO:0044237)|fumarate metabolic process (GO:0006106)|homeostasis of number of cells within a tissue (GO:0048873)|small molecule metabolic process (GO:0044281)|tricarboxylic acid cycle (GO:0006099)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|tricarboxylic acid cycle enzyme complex (GO:0045239)	fumarate hydratase activity (GO:0004333)			biliary_tract(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(11)|ovary(1)|skin(2)	26	Ovarian(103;0.103)	all_cancers(173;2.37e-314)|all_epithelial(177;5.17e-286)|Breast(1374;1.06e-10)|Acute lymphoblastic leukemia(190;4.93e-10)|all_neural(198;0.00118)	OV - Ovarian serous cystadenocarcinoma(106;0.0214)	Colorectal(1306;2.33e-53)|COAD - Colon adenocarcinoma(196;1.05e-44)|KIRC - Kidney renal clear cell carcinoma(1967;0.000109)		TGTCATACCCTGAAGAAAAAA	0.378			"Mis, N, F"			"lieomyomatosis, renal"			Hereditary Leiomyomatosis and Renal Cell Cancer																												Melanoma(148;1573 2486 7381 46575)	yes	Rec		hereditary leiomyomatosis and renal cell cancer	1	1q42.1	2271	fumarate hydratase		"E, M"	0													101	99	100					1																	241661272		2203	4300	6503	SO:0001630	splice_region_variant	2271	Familial Cancer Database	HLRCC, Reed syndrome, Hereditary Multiple Leiomyomata of Skin and Uterus	BC003108	CCDS1617.1	1q42.1	2014-09-17			ENSG00000091483	ENSG00000091483	4.2.1.2		3700	protein-coding gene	gene with protein product		136850					Standard	NM_000143		Approved	fumarase	uc001hyx.3	P07954	OTTHUMG00000039597	ENST00000366560.3:c.1391-2A>C	1.37:g.241661272T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B1ANK7	Splice_Site	SNP	ENST00000366560.3	37	CCDS1617.1	.	.	.	.	.	.	.	.	.	.	T	20.4	3.987598	0.74589	.	.	ENSG00000091483	ENST00000366560	.	.	.	5.75	5.75	0.90469	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.0202	0.64550	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	FH	239727895	1.000000	0.71417	1.000000	0.80357	0.883000	0.51084	6.531000	0.73820	2.188000	0.69820	0.528000	0.53228	.		0.378	FH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000095490.1	NM_000143	Intron	G	241661272	T	G	241661272	5	3	586	1	0	0	0	0	0	0	1	0	5882	1594	55	5	147	5	FH	1	241661272	Splice_Site	SNP	T	TCGA-F9-A4JJ-01A-11D-A25F-10	1405701	241661272	7589349	9	34895										
LRRTM4	80059	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	77746638	77746638	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	ttgtgcagataagtaattttGttggagcttagaattaattc	9	3	0	2			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr2:77746638G>T	ENST00000409093.1	-	3	693	c.357C>A	c.(355-357)aaC>aaA	p.N119K	LRRTM4_ENST00000409884.1_Missense_Mutation_p.N119K|LRRTM4_ENST00000409088.3_Missense_Mutation_p.N119K|LRRTM4_ENST00000409282.1_Missense_Mutation_p.N120K|LRRTM4_ENST00000409911.1_Missense_Mutation_p.N120K			Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	119					alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor clustering (GO:0097113)|regulation of presynaptic membrane organization (GO:1901629)	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex (GO:0032281)|cell junction (GO:0030054)|postsynaptic membrane (GO:0045211)				autonomic_ganglia(1)|endometrium(1)|large_intestine(6)|lung(49)|ovary(2)|pancreas(3)|prostate(1)|upper_aerodigestive_tract(1)	64				Colorectal(11;0.059)		AAGTAATTTTGTTGGAGCTTA	0.373																																																0													158	140	145					2																	77746638		1842	4084	5926	SO:0001583	missense	80059			AK122612	CCDS46346.1, CCDS46347.1, CCDS74530.1	2p12	2008-02-05			ENSG00000176204	ENSG00000176204			19411	protein-coding gene	gene with protein product		610870				12676565	Standard	NM_024993		Approved	FLJ12568	uc002snr.3	Q86VH4	OTTHUMG00000152842	ENST00000409093.1:c.357C>A	2.37:g.77746638G>T	ENSP00000386357:p.Asn119Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q4FZ98|Q6UXJ7	Missense_Mutation	SNP	ENST00000409093.1	37	CCDS46346.1	.	.	.	.	.	.	.	.	.	.	G	14.41	2.526251	0.44969	.	.	ENSG00000176204	ENST00000409911;ENST00000409884;ENST00000409093;ENST00000409088;ENST00000409282	T;T;T;T;T	0.72835	-0.69;-0.69;-0.69;-0.69;-0.69	5.96	4.91	0.64330	.	0.044427	0.85682	D	0.000000	D	0.87873	0.6287	H	0.96489	3.83	0.58432	D	0.999999	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;0.999;1.0	D	0.89990	0.4107	10	0.87932	D	0	.	11.0841	0.48076	0.1556:0.0:0.8444:0.0	.	120;119;119	Q4KMX1;Q86VH4-2;Q86VH4	.;.;LRRT4_HUMAN	K	120;119;119;119;120	ENSP00000387228:N120K;ENSP00000387297:N119K;ENSP00000386357:N119K;ENSP00000386236:N119K;ENSP00000386286:N120K	ENSP00000386236:N119K	N	-	3	2	LRRTM4	77600146	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.981000	0.49329	2.826000	0.97356	0.655000	0.94253	AAC		0.373	LRRTM4-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000328225.1	NM_024993		T	77746638	G	T	77746638	3	4	586	1	0	0	0	0	1	0	0	0	9049	1368	48	4	1429	4	LRRTM4	2	77746638	Missense_Mutation	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10		77746638	165452735	10	34896										
YSK4	80122	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	135738691	135738691	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	cccaggccaaacgcctggcaCagccaaagtcaatcagcttt	8	15	2	0			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr2:135738691C>G	ENST00000375845.3	-	9	3650	c.3620G>C	c.(3619-3621)tGt>tCt	p.C1207S	MAP3K19_ENST00000392917.3_Missense_Mutation_p.C339S|MAP3K19_ENST00000358371.4_Missense_Mutation_p.C1094S|MAP3K19_ENST00000392918.3_Missense_Mutation_p.C341S|MAP3K19_ENST00000375844.3_Missense_Mutation_p.C389S|MAP3K19_ENST00000392915.1_3'UTR|MAP3K19_ENST00000315513.3_Missense_Mutation_p.C68S	NM_001018044.2|NM_025052.3	NP_001018054.1|NP_079328.3	Q56UN5	M3K19_HUMAN	mitogen-activated protein kinase kinase kinase 19	1207	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.						ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)										ACGCCTGGCACAGCCAAAGTC	0.458																																																0													113	112	112					2																	135738691		2203	4300	6503	SO:0001583	missense	80122			AK026727	CCDS2176.2, CCDS33293.1, CCDS63021.1, CCDS63020.1, CCDS63022.1	2q21.3	2012-10-16	2012-10-16	2012-10-16	ENSG00000176601	ENSG00000176601		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	26249	protein-coding gene	gene with protein product			"Yeast Sps1/Ste20-related kinase 4 (S. cerevisiae)", "yeast Sps1/Ste20-related kinase 4 (S. cerevisiae)", "YSK4 Sps1/Ste20-related kinase homolog (S. cerevisiae)"	YSK4		12477932	Standard	NM_001282883		Approved	FLJ23074	uc002tue.1	Q56UN5	OTTHUMG00000074083	ENST00000375845.3:c.3620G>C	2.37:g.135738691C>G	ENSP00000365005:p.Cys1207Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP57|B7ZMH9|E2QRE3|Q56UN1|Q56UN2|Q56UN3|Q56UN4|Q8N4E9|Q9H5T2	Missense_Mutation	SNP	ENST00000375845.3	37	CCDS2176.2	.	.	.	.	.	.	.	.	.	.	C	21.6	4.167028	0.78339	.	.	ENSG00000176601	ENST00000375845;ENST00000358371;ENST00000375844;ENST00000392918;ENST00000392917;ENST00000437365;ENST00000315513	T;T;T;T;T;T;T	0.22539	1.95;1.95;1.95;1.95;1.95;1.95;1.95	5.88	5.88	0.94601	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.50627	D	0.000113	T	0.27384	0.0672	N	0.05031	-0.125	0.58432	D	0.999999	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.97110	0.998;0.999;0.999;0.999;1.0	T	0.31613	-0.9937	10	0.25106	T	0.35	.	19.2304	0.93836	0.0:1.0:0.0:0.0	.	339;1094;341;389;1207	B7ZMH9;Q56UN5-3;Q56UN5-4;Q56UN5-5;Q56UN5	.;.;.;.;YSK4_HUMAN	S	1207;1094;389;341;339;597;68	ENSP00000365005:C1207S;ENSP00000351140:C1094S;ENSP00000365004:C389S;ENSP00000376650:C341S;ENSP00000376649:C339S;ENSP00000392827:C597S;ENSP00000321160:C68S	ENSP00000321160:C68S	C	-	2	0	YSK4	135455161	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.616000	0.83018	2.782000	0.95742	0.655000	0.94253	TGT		0.458	MAP3K19-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000158244.1	NM_025052		G	135738691	C	G	135738691	3	3	586	1	0	0	0	0	1	0	0	0	17507	478	17	4	374	4	YSK4	2	135738691	Missense_Mutation	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10	57992053	135738691	107460682	11	34897										
ATXN7	6314	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	63981359	63981359	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	atagcaaatcggtaccagctCatggaaccacactaaatgca	7	11	1	0			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr3:63981359C>T	ENST00000295900.6	+	12	2411	c.1861C>T	c.(1861-1863)Cat>Tat	p.H621Y	ATXN7_ENST00000398590.3_Missense_Mutation_p.H621Y|ATXN7_ENST00000484332.1_Missense_Mutation_p.H476Y|ATXN7_ENST00000487717.1_Missense_Mutation_p.H621Y|ATXN7_ENST00000538065.1_Missense_Mutation_p.H621Y	NM_000333.3	NP_000324.1	O15265	ATX7_HUMAN	ataxin 7	621					cell death (GO:0008219)|chromatin organization (GO:0006325)|histone deubiquitination (GO:0016578)|microtubule cytoskeleton organization (GO:0000226)|negative regulation of insulin-like growth factor receptor signaling pathway (GO:0043569)|negative regulation of phosphorylation (GO:0042326)|nucleus organization (GO:0006997)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|microtubule cytoskeleton (GO:0015630)|nucleus (GO:0005634)	chromatin binding (GO:0003682)			NS(1)|breast(1)|endometrium(6)|kidney(2)|large_intestine(7)|lung(12)|prostate(2)|stomach(1)|urinary_tract(3)	35		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		GGTACCAGCTCATGGAACCAC	0.527																																																0													171	176	175					3																	63981359		2194	4281	6475	SO:0001583	missense	6314			AJ000517	CCDS43102.1, CCDS46861.1, CCDS46861.2, CCDS54603.1	3p21.1-p12	2014-09-17	2004-08-12	2004-08-12	ENSG00000163635	ENSG00000163635		"Ataxins"	10560	protein-coding gene	gene with protein product		607640	"spinocerebellar ataxia 7 (olivopontocerebellar atrophy with retinal degeneration)"	SCA7		7647798, 10598805	Standard	NM_000333		Approved	OPCA3, ADCAII	uc021wzy.1	O15265	OTTHUMG00000158763	ENST00000295900.6:c.1861C>T	3.37:g.63981359C>T	ENSP00000295900:p.His621Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B4E207|E9PHP9|O75328|O75329|Q9Y6P8	Missense_Mutation	SNP	ENST00000295900.6	37	CCDS43102.1	.	.	.	.	.	.	.	.	.	.	C	17.12	3.309327	0.60414	.	.	ENSG00000163635	ENST00000398590;ENST00000295900;ENST00000487717;ENST00000538065;ENST00000484332	T;T;T;T;T	0.13778	2.56;2.56;2.56;2.56;2.57	5.16	4.27	0.50696	.	0.168276	0.52532	D	0.000062	T	0.25606	0.0623	L	0.35723	1.085	0.41667	D	0.98921	D;B;B	0.69078	0.997;0.018;0.01	D;B;B	0.75484	0.986;0.011;0.005	T	0.02184	-1.1199	10	0.21540	T	0.41	-8.2112	14.9298	0.70906	0.1444:0.8556:0.0:0.0	.	476;621;621	E9PHP9;O15265-2;O15265	.;.;ATX7_HUMAN	Y	621;621;621;621;476	ENSP00000381590:H621Y;ENSP00000295900:H621Y;ENSP00000420234:H621Y;ENSP00000439585:H621Y;ENSP00000428277:H476Y	ENSP00000295900:H621Y	H	+	1	0	ATXN7	63956399	1.000000	0.71417	0.982000	0.44146	0.990000	0.78478	5.146000	0.64845	1.155000	0.42497	0.650000	0.86243	CAT		0.527	ATXN7-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000352070.1	NM_000333		T	63981359	C	T	63981359	3	4	586	1	0	0	0	0	1	0	0	0	1215	826	29	2	1967	2	ATXN7	3	63981359	Missense_Mutation	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10		63981359	134041071	12	34898										
TRIO	7204	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	14497115	14497115	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	gggaaggactcagcaacaagGtatctgtgaaggtgtgttcg	15	6	2	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr5:14497115G>C	ENST00000344204.4	+	50	8032	c.8008G>C	c.(8008-8010)Gta>Cta	p.V2670L	TRIO_ENST00000344135.5_Missense_Mutation_p.V169L|TRIO_ENST00000537187.1_Missense_Mutation_p.V2494L	NM_007118.2	NP_009049.2	O75962	TRIO_HUMAN	trio Rho guanine nucleotide exchange factor	2670					apoptotic signaling pathway (GO:0097190)|axon guidance (GO:0007411)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	cytosol (GO:0005829)	ATP binding (GO:0005524)|guanyl-nucleotide exchange factor activity (GO:0005085)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(2)|breast(6)|central_nervous_system(4)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(21)|lung(34)|ovary(4)|prostate(2)|skin(11)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(4)	118	Lung NSC(4;0.000742)					CAGCAACAAGGTATCTGTGAA	0.498																																																0													122	103	109					5																	14497115		2203	4300	6503	SO:0001583	missense	7204			AF091395	CCDS3883.1	5p14-p15.1	2013-01-11	2012-07-12		ENSG00000038382	ENSG00000038382		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing"	12303	protein-coding gene	gene with protein product		601893	"triple functional domain (PTPRF interacting)"			8643598	Standard	NM_007118		Approved	ARHGEF23	uc003jff.3	O75962	OTTHUMG00000131057	ENST00000344204.4:c.8008G>C	5.37:g.14497115G>C	ENSP00000339299:p.Val2670Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTD1|Q13458|Q59EQ7|Q6PJC9|Q6ZN05|Q8IWK8	Missense_Mutation	SNP	ENST00000344204.4	37	CCDS3883.1	.	.	.	.	.	.	.	.	.	.	G	31	5.094039	0.94149	.	.	ENSG00000038382	ENST00000344204;ENST00000537187;ENST00000513206;ENST00000344135	T;T;T	0.68025	-0.3;-0.21;-0.26	5.27	5.27	0.74061	.	0.000000	0.85682	D	0.000000	T	0.77253	0.4103	L	0.52759	1.655	0.32172	N	0.581488	D	0.67145	0.996	D	0.67900	0.954	T	0.81075	-0.1097	10	0.59425	D	0.04	.	17.1098	0.86672	0.0:0.0:1.0:0.0	.	2670	O75962	TRIO_HUMAN	L	2670;2494;2357;169	ENSP00000339299:V2670L;ENSP00000446348:V2494L;ENSP00000339291:V169L	ENSP00000339291:V169L	V	+	1	0	TRIO	14550115	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.441000	0.97557	2.461000	0.83175	0.655000	0.94253	GTA		0.498	TRIO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253711.2	NM_007118		C	14497115	G	C	14497115	3	2	586	1	0	0	0	0	1	0	0	0	16564	1261	44	4	8206	4	TRIO	5	14497115	Missense_Mutation	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10		14497115	166418145	13	34899										
RICTOR	253260	broad.mit.edu	37	chr5	38947463	38947463	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	ccatggaccgcactgaggaaGatcgttgcagggtattttga	13	8	0	3			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr5:38947463G>A	ENST00000357387.3	-	32	4247	c.4217C>T	c.(4216-4218)tCt>tTt	p.S1406F	RICTOR_ENST00000296782.5_Missense_Mutation_p.S1430F	NM_152756.3	NP_689969.2			RPTOR independent companion of MTOR, complex 2											NS(1)|breast(4)|central_nervous_system(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(14)|lung(33)|ovary(3)|prostate(3)|skin(5)	75	all_lung(31;0.000396)					CACTGAGGAAGATCGTTGCAG	0.388																																																0													132	120	124					5																	38947463		2203	4300	6503	SO:0001583	missense	253260				CCDS34148.1, CCDS68861.1	5p13.1	2009-07-09			ENSG00000164327	ENSG00000164327			28611	protein-coding gene	gene with protein product	"rapamycin-insensitive companion of mTOR", "pianissimo"	609022				12477932	Standard	XM_005248278		Approved	MGC39830, AVO3, PIA, KIAA1999	uc003jlp.2	Q6R327	OTTHUMG00000162037	ENST00000357387.3:c.4217C>T	5.37:g.38947463G>A	ENSP00000349959:p.Ser1406Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000357387.3	37	CCDS34148.1	.	.	.	.	.	.	.	.	.	.	G	26.6	4.751872	0.89753	.	.	ENSG00000164327	ENST00000357387;ENST00000296782	T;T	0.56275	0.76;0.47	5.69	5.69	0.88448	.	0.095984	0.64402	D	0.000001	T	0.62060	0.2397	L	0.43152	1.355	0.58432	D	0.999994	D;D	0.54207	0.965;0.965	P;P	0.54312	0.748;0.748	T	0.63866	-0.6540	10	0.87932	D	0	-7.8353	19.8165	0.96571	0.0:0.0:1.0:0.0	.	1406;1430	Q6R327;Q6R327-3	RICTR_HUMAN;.	F	1406;1430	ENSP00000349959:S1406F;ENSP00000296782:S1430F	ENSP00000296782:S1430F	S	-	2	0	RICTOR	38983220	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.139000	0.77314	2.683000	0.91414	0.655000	0.94253	TCT		0.388	RICTOR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366985.1	NM_152756		A	38947463	G	A	38947463	3	1	586	1	0	0	0	0	1	0	0	0	13371	942	33	2	937	2	RICTOR	5	38947463	Missense_Mutation	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10	24450348	38947463	141967797	14	34900										
TNXB	7148	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	32037362	32037362	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	cggccgagatggggcccacaCgcttgccgtggtgcagcccg	16	15	0	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr6:32037362C>T	ENST00000375244.3	-	15	5756	c.5555G>A	c.(5554-5556)cGt>cAt	p.R1852H	TNXB_ENST00000375247.2_Missense_Mutation_p.R1852H			P22105	TENX_HUMAN	tenascin XB	1934					actin cytoskeleton organization (GO:0030036)|cell adhesion (GO:0007155)|cell-matrix adhesion (GO:0007160)|collagen fibril organization (GO:0030199)|collagen metabolic process (GO:0032963)|elastic fiber assembly (GO:0048251)|extracellular fibril organization (GO:0043206)|fatty acid metabolic process (GO:0006631)|regulation of JUN kinase activity (GO:0043506)|single organismal cell-cell adhesion (GO:0016337)|triglyceride metabolic process (GO:0006641)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|proteinaceous extracellular matrix (GO:0005578)	heparin binding (GO:0008201)|integrin binding (GO:0005178)			endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|prostate(1)	8						GGGGCCCACACGCTTGCCGTG	0.672																																																0													27	34	32					6																	32037362		2155	4268	6423	SO:0001583	missense	7148			X71923	CCDS4736.1	6p21.3	2013-02-11			ENSG00000168477	ENSG00000168477		"Fibrinogen C domain containing", "Fibronectin type III domain containing"	11976	protein-coding gene	gene with protein product		600985		TNXB1, TNXB2		8530023	Standard	NM_019105		Approved	TNXBS, XBS, XB	uc021yvf.2	P22105	OTTHUMG00000031088	ENST00000375244.3:c.5555G>A	6.37:g.32037362C>T	ENSP00000364393:p.Arg1852His	Somatic		WXS	Illumina HiSeq	Phase_I	P78530|P78531|Q08424|Q08AM0|Q08AM1|Q59GU7|Q5SQD3|Q5ST74|Q7L8Q4|Q8N4R1|Q9NPK9|Q9UC10|Q9UC11|Q9UC12|Q9UC13|Q9UMG7	Missense_Mutation	SNP	ENST00000375244.3	37		.	.	.	.	.	.	.	.	.	.	C	19.43	3.825390	0.71143	.	.	ENSG00000168477	ENST00000375244;ENST00000375247	T;T	0.05025	3.51;3.51	5.5	4.44	0.53790	.	0.000000	0.46758	D	0.000265	T	0.22205	0.0535	M	0.93594	3.435	0.09310	N	1	D	0.89917	1.0	D	0.87578	0.998	T	0.09530	-1.0670	10	0.66056	D	0.02	.	12.1698	0.54152	0.0:0.9037:0.0:0.0963	.	1852	P22105-3	.	H	1852	ENSP00000364393:R1852H;ENSP00000364396:R1852H	ENSP00000364393:R1852H	R	-	2	0	TNXB	32145340	0.757000	0.28394	0.251000	0.24312	0.105000	0.19272	2.166000	0.42406	2.598000	0.87819	0.591000	0.81541	CGT		0.672	TNXB-001	PUTATIVE	not_organism_supported|basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000268927.2	NM_019105		T	32037362	C	T	32037362	3	4	586	1	0	0	0	0	1	0	0	0	16358	536	19	1	9278	1	TNXB	6	32037362	Missense_Mutation	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10		32037362	139077705	15	34901										
EYA4	2070	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	133849920	133849920	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	acctcctggctctccaccaaGcactggaattagagtatttg	8	12	1	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr6:133849920G>T	ENST00000367895.5	+	20	2361	c.1897G>T	c.(1897-1899)Gca>Tca	p.A633S	EYA4_ENST00000525849.1_Missense_Mutation_p.A610S|EYA4_ENST00000431403.2_Missense_Mutation_p.A633S|EYA4_ENST00000430974.2_Intron|EYA4_ENST00000452339.2_Missense_Mutation_p.A579S|EYA4_ENST00000355167.3_Missense_Mutation_p.A633S|EYA4_ENST00000355286.6_Missense_Mutation_p.A610S|RP3-323P13.2_ENST00000607033.1_RNA|EYA4_ENST00000531901.1_Missense_Mutation_p.A639S	NM_004100.4	NP_004091.3	O95677	EYA4_HUMAN	EYA transcriptional coactivator and phosphatase 4	633					anatomical structure morphogenesis (GO:0009653)|chromatin modification (GO:0016568)|DNA repair (GO:0006281)|inner ear development (GO:0048839)|middle ear morphogenesis (GO:0042474)|regulation of transcription, DNA-templated (GO:0006355)|sensory perception of sound (GO:0007605)|transcription, DNA-templated (GO:0006351)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|protein tyrosine phosphatase activity (GO:0004725)			breast(1)|central_nervous_system(3)|endometrium(5)|kidney(2)|large_intestine(11)|lung(25)|skin(1)	48	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		TCTCCACCAAGCACTGGAATT	0.453																																					Melanoma(57;398 1237 3528 4702 7415)											0													260	238	245					6																	133849920		2203	4300	6503	SO:0001583	missense	2070			Y17114	CCDS5165.1, CCDS5166.1, CCDS43506.1, CCDS75521.1, CCDS75523.1	6q23	2014-09-17	2014-06-19		ENSG00000112319	ENSG00000112319		"Protein tyrosine phosphatases / Asp-based PTPs"	3522	protein-coding gene	gene with protein product		603550	"eyes absent (Drosophila) homolog 4", "eyes absent homolog 4 (Drosophila)"	DFNA10, CMD1J		9887327, 11159937	Standard	NM_004100		Approved		uc003qed.4	O95677	OTTHUMG00000015602	ENST00000367895.5:c.1897G>T	6.37:g.133849920G>T	ENSP00000356870:p.Ala633Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7F7|O95464|O95679|Q8IW39|Q9NTR7	Missense_Mutation	SNP	ENST00000367895.5	37	CCDS5165.1	.	.	.	.	.	.	.	.	.	.	G	25.4	4.636157	0.87760	.	.	ENSG00000112319	ENST00000452339;ENST00000367895;ENST00000355167;ENST00000355286;ENST00000531901;ENST00000525849;ENST00000431403	D;D;D;D;D;D;D	0.93247	-3.19;-3.19;-3.19;-3.19;-3.19;-3.19;-3.19	6.07	6.07	0.98685	EYA (1);	0.000000	0.85682	D	0.000000	D	0.97021	0.9027	M	0.83483	2.645	0.80722	D	1	D;D;D;D;D	0.89917	1.0;0.999;0.999;1.0;0.999	D;D;D;D;D	0.91635	0.999;0.996;0.996;0.999;0.998	D	0.96683	0.9505	10	0.87932	D	0	-22.8527	20.6593	0.99626	0.0:0.0:1.0:0.0	.	639;579;610;633;633	F2Z2Y1;E7EN58;O95677-2;O95677-4;O95677	.;.;.;.;EYA4_HUMAN	S	579;633;633;610;639;610;633	ENSP00000395916:A579S;ENSP00000356870:A633S;ENSP00000347294:A633S;ENSP00000347434:A610S;ENSP00000432770:A639S;ENSP00000433219:A610S;ENSP00000404558:A633S	ENSP00000347294:A633S	A	+	1	0	EYA4	133891613	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.837000	0.99465	2.885000	0.99019	0.655000	0.94253	GCA		0.453	EYA4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000042282.2	NM_004100		T	133849920	G	T	133849920	3	4	586	1	0	0	0	0	1	0	0	0	5333	971	34	4	2076	4	EYA4	6	133849920	Missense_Mutation	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10	101812558	133849920	37265147	16	34902										
CCDC132	55610	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	92932815	92932815	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	tgttcttagagaatgagactTgggaactttgtcctgttaag	11	5	1	2			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr7:92932815T>G	ENST00000305866.5	+	17	1533	c.1405T>G	c.(1405-1407)Tgg>Ggg	p.W469G	CCDC132_ENST00000535481.1_Missense_Mutation_p.W189G|CCDC132_ENST00000544910.1_Missense_Mutation_p.W439G|CCDC132_ENST00000541136.1_Missense_Mutation_p.W280G|CCDC132_ENST00000317751.6_Missense_Mutation_p.W200G	NM_017667.3	NP_060137.2	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132	469						extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)				endometrium(1)|large_intestine(2)|lung(5)	8	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			GAATGAGACTTGGGAACTTTG	0.348																																																0													141	135	137					7																	92932815		1823	4079	5902	SO:0001583	missense	55610			AL833112, AK055965, AL832393	CCDS5630.1, CCDS43617.1, CCDS59065.1	7q21.3	2007-07-23			ENSG00000004766	ENSG00000004766			25956	protein-coding gene	gene with protein product						11347906	Standard	NM_024553		Approved	KIAA1861, FLJ20097, DKFZp313I2429	uc003umo.4	Q96JG6	OTTHUMG00000131733	ENST00000305866.5:c.1405T>G	7.37:g.92932815T>G	ENSP00000307666:p.Trp469Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KX22|D1MQ00|F5H5U7|Q75N07|Q8WVK3|Q9H5C6	Missense_Mutation	SNP	ENST00000305866.5	37	CCDS43617.1	.	.	.	.	.	.	.	.	.	.	T	21.0	4.084073	0.76642	.	.	ENSG00000004766	ENST00000305866;ENST00000544910;ENST00000541136;ENST00000535481;ENST00000317751	T	0.73681	-0.77	4.92	4.92	0.64577	.	0.000000	0.85682	D	0.000000	D	0.86033	0.5836	M	0.80982	2.52	0.80722	D	1	D;D;D	0.57899	0.967;0.981;0.967	D;D;D	0.70487	0.932;0.969;0.932	D	0.88196	0.2880	10	0.87932	D	0	-0.9767	15.0541	0.71897	0.0:0.0:0.0:1.0	.	189;439;469	B4DS55;F5H5U7;Q96JG6	.;.;CC132_HUMAN	G	469;439;280;189;200	ENSP00000325582:W200G	ENSP00000307666:W469G	W	+	1	0	CCDC132	92770751	1.000000	0.71417	0.989000	0.46669	0.997000	0.91878	7.794000	0.85869	2.200000	0.70718	0.460000	0.39030	TGG		0.348	CCDC132-019	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341687.1	NM_017667		G	92932815	T	G	92932815	3	3	586	1	0	0	0	0	1	0	0	0	2769	1812	63	5	1513	5	CCDC132	7	92932815	Missense_Mutation	SNP	T	TCGA-F9-A4JJ-01A-11D-A25F-10		92932815	66205848	17	34903										
FLNC	2318	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	128482660	128482660	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	cgagggcagccaccccgagcGggtaaaggtgtacggccccg	16	14	0	0	rs369935650		TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr7:128482660G>A	ENST00000325888.8	+	15	2558	c.2297G>A	c.(2296-2298)cGg>cAg	p.R766Q	FLNC_ENST00000346177.6_Missense_Mutation_p.R766Q	NM_001458.4	NP_001449.3	Q14315	FLNC_HUMAN	filamin C, gamma	766					cell junction assembly (GO:0034329)	costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcoplasm (GO:0016528)	ankyrin binding (GO:0030506)|cytoskeletal protein binding (GO:0008092)			biliary_tract(1)|breast(7)|central_nervous_system(1)|cervix(1)|endometrium(19)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(19)|lung(59)|ovary(2)|pancreas(2)|prostate(1)|skin(6)|upper_aerodigestive_tract(2)	128						CACCCCGAGCGGGTAAAGGTG	0.692											OREG0018297	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0								G	GLN/ARG,GLN/ARG	0,3844		0,0,1922	20	26	24		2297,2297	3.4	1	7		24	1,7821		0,1,3910	no	missense,missense	FLNC	NM_001127487.1,NM_001458.4	43,43	0,1,5832	AA,AG,GG		0.0128,0.0,0.0086	possibly-damaging,possibly-damaging	766/2693,766/2726	128482660	1,11665	1922	3911	5833	SO:0001583	missense	2318			AB208865	CCDS43644.1, CCDS47705.1	7q32-q35	2014-09-17	2009-07-23		ENSG00000128591	ENSG00000128591			3756	protein-coding gene	gene with protein product	"actin binding protein 280"	102565	"filamin C, gamma (actin binding protein 280)"	FLN2		7689010, 8088838	Standard	NM_001458		Approved	ABP-280, ABPL	uc003vnz.4	Q14315	OTTHUMG00000023627	ENST00000325888.8:c.2297G>A	7.37:g.128482660G>A	ENSP00000327145:p.Arg766Gln	Somatic	1565	WXS	Illumina HiSeq	Phase_I	B2ZZ88|O95303|Q07985|Q9NS12|Q9NYE5|Q9UMR8|Q9Y503	Missense_Mutation	SNP	ENST00000325888.8	37	CCDS43644.1	.	.	.	.	.	.	.	.	.	.	g	19.02	3.744937	0.69418	0.0	1.28E-4	ENSG00000128591	ENST00000325888;ENST00000346177	D;D	0.85484	-1.99;-1.99	5.52	3.39	0.38822	Immunoglobulin E-set (1);Fibronectin, type III (1);Immunoglobulin-like fold (1);	0.385179	0.24571	N	0.037392	T	0.76990	0.4065	L	0.38175	1.15	0.33779	D	0.624033	B;P	0.35107	0.434;0.484	B;B	0.36666	0.135;0.23	T	0.81247	-0.1019	10	0.72032	D	0.01	.	6.4307	0.21794	0.3702:0.0:0.6298:0.0	.	766;766	Q14315-2;Q14315	.;FLNC_HUMAN	Q	766	ENSP00000327145:R766Q;ENSP00000344002:R766Q	ENSP00000327145:R766Q	R	+	2	0	FLNC	128269896	0.027000	0.19231	0.996000	0.52242	0.479000	0.33129	2.236000	0.43052	1.349000	0.45751	0.645000	0.84053	CGG		0.692	FLNC-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059948.3			A	128482660	G	A	128482660	3	1	586	1	0	0	0	0	1	0	0	0	5942	1116	39	1	2355	1	FLNC	7	128482660	Missense_Mutation	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10	35549845	128482660	30656003	18	34904										
CSMD1	64478	broad.mit.edu	37	chr8	2808726	2808727	+	Frame_Shift_Ins	INS	-	-	G													0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	cagtcaacagttagagtggcINSgggttgtcttttccctaaat					rs374654290		TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr8:2808726_2808727insG	ENST00000520002.1	-	67	10668_10669	c.10113_10114insC	c.(10111-10116)cccgccfs	p.A3372fs	CSMD1_ENST00000400186.3_Frame_Shift_Ins_p.A3195fs|CSMD1_ENST00000542608.1_Frame_Shift_Ins_p.A3194fs|CSMD1_ENST00000537824.1_Frame_Shift_Ins_p.A3371fs|CSMD1_ENST00000602557.1_Frame_Shift_Ins_p.A3372fs|CSMD1_ENST00000602723.1_Frame_Shift_Ins_p.A3195fs			Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1	3372						integral component of membrane (GO:0016021)		p.P3370P(1)|p.P3099P(1)		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)		GTTAGAGTGGCGGGTTGTCTTT	0.485																																																2	Substitution - coding silent(2)	prostate(2)																																								SO:0001589	frameshift_variant	64478					8p23.2	2012-04-17			ENSG00000183117	ENSG00000183117		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	14026	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 24"	608397					Standard	NM_033225		Approved	KIAA1890, PPP1R24	uc022aqr.1	Q96PZ7	OTTHUMG00000163605	ENST00000520002.1:c.10114dupC	8.37:g.2808729_2808729dupG	ENSP00000430733:p.Ala3372fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q0H0J5|Q96QU9|Q96RM4	Frame_Shift_Ins	INS	ENST00000520002.1	37																																																																																					0.485	CSMD1-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000374500.2	NM_033225		G	2808727	-	G	2808726	7	5	586	1	0	1	1	0	0	0	0	0	3946	768	27	0	603	0	CSMD1	8	2808726	Frame_Shift_Ins	INS	-	TCGA-F9-A4JJ-01A-11D-A25F-10		2808726	143555296	19	34905										
KIF13B	23303	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	29037680	29037680	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	tttgaaaactgcatgggatcGgctactctcctcgttcatgt	9	10	2	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr8:29037680G>A	ENST00000524189.1	-	8	699	c.661C>T	c.(661-663)Cga>Tga	p.R221*	KIF13B_ENST00000521515.1_Nonsense_Mutation_p.R221*	NM_015254.3	NP_056069.2	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	221	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|protein targeting (GO:0006605)|regulation of axonogenesis (GO:0050770)|signal transduction (GO:0007165)|T cell activation (GO:0042110)	axon (GO:0030424)|cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	14-3-3 protein binding (GO:0071889)|ATP binding (GO:0005524)|microtubule motor activity (GO:0003777)|protein kinase binding (GO:0019901)			endometrium(6)|kidney(1)|lung(20)|urinary_tract(1)	28		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		GCATGGGATCGGCTACTCTCC	0.438																																																0													192	192	192					8																	29037680		1932	4134	6066	SO:0001587	stop_gained	23303			AB014539	CCDS55217.1	8p21	2008-07-30				ENSG00000197892		"Kinesins"	14405	protein-coding gene	gene with protein product		607350				9734811, 10859302, 16864656	Standard	NM_015254		Approved	GAKIN, KIAA0639	uc003xhh.4	Q9NQT8		ENST00000524189.1:c.661C>T	8.37:g.29037680G>A	ENSP00000427900:p.Arg221*	Somatic		WXS	Illumina HiSeq	Phase_I	B4DGY5|B5MC45|F8VPJ2|O75134|Q9BYJ6	Nonsense_Mutation	SNP	ENST00000524189.1	37	CCDS55217.1	.	.	.	.	.	.	.	.	.	.	G	35	5.587513	0.96590	.	.	ENSG00000197892	ENST00000524189;ENST00000521515	.	.	.	4.77	2.84	0.33178	.	0.000000	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	13.45	0.61165	0.0:0.0:0.7156:0.2844	.	.	.	.	X	221	.	ENSP00000429201:R221X	R	-	1	2	KIF13B	29093599	1.000000	0.71417	0.998000	0.56505	0.991000	0.79684	1.457000	0.35212	1.203000	0.43233	0.563000	0.77884	CGA		0.438	KIF13B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376878.1			A	29037680	G	A	29037680	4	1	586	1	0	0	0	0	0	1	0	0	8282	1124	39	1	4951	1	KIF13B	8	29037680	Nonsense_Mutation	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10	26228954	29037680	117326342	20	34906										
WWP1	11059	broad.mit.edu;bcgsc.ca	37	chr8	87443954	87443954	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	aacaacattcaaagatcctcGcaatgggaagtcatctgtgt	8	9	3	1	rs554041348		TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr8:87443954G>A	ENST00000517970.1	+	14	1890	c.1583G>A	c.(1582-1584)cGc>cAc	p.R528H	WWP1_ENST00000349423.2_Missense_Mutation_p.R310H|WWP1_ENST00000341922.2_Missense_Mutation_p.R398H|WWP1_ENST00000265428.4_Missense_Mutation_p.R528H	NM_007013.3	NP_008944.1	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase 1	528	WW 4. {ECO:0000255|PROSITE- ProRule:PRU00224}.				central nervous system development (GO:0007417)|ion transmembrane transport (GO:0034220)|negative regulation of transcription, DNA-templated (GO:0045892)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|signal transduction (GO:0007165)|transmembrane transport (GO:0055085)|viral entry into host cell (GO:0046718)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ubiquitin ligase complex (GO:0000151)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			endometrium(3)|kidney(2)|large_intestine(9)|liver(4)|lung(10)|prostate(2)|urinary_tract(1)	31						AAAGATCCTCGCAATGGGAAG	0.388													G|||	1	0.000199681	0.0	0.0	5008	,	,		18477	0.0		0.0	False		,,,				2504	0.001															0													91	90	90					8																	87443954		2203	4300	6503	SO:0001583	missense	11059			AY043361	CCDS6242.1	8q21.3	2013-07-22			ENSG00000123124	ENSG00000123124			17004	protein-coding gene	gene with protein product		602307				9169421, 9647693	Standard	NM_007013		Approved	AIP5, DKFZP434D2111	uc003ydt.3	Q9H0M0	OTTHUMG00000163690	ENST00000517970.1:c.1583G>A	8.37:g.87443954G>A	ENSP00000427793:p.Arg528His	Somatic		WXS	Illumina HiSeq	Phase_I	O00307|Q5YLC1|Q96BP4	Missense_Mutation	SNP	ENST00000517970.1	37	CCDS6242.1	.	.	.	.	.	.	.	.	.	.	G	29.2	4.986456	0.93044	.	.	ENSG00000123124	ENST00000517970;ENST00000265428;ENST00000341922;ENST00000349423	T;T;T;T	0.61980	0.06;0.06;0.14;0.19	5.35	5.35	0.76521	WW/Rsp5/WWP (4);	0.302657	0.33272	N	0.005098	D	0.85592	0.5732	H	0.97732	4.065	0.80722	D	1	D;D	0.69078	0.997;0.995	P;P	0.60236	0.871;0.747	D	0.90859	0.4737	10	0.72032	D	0.01	.	19.0481	0.93030	0.0:0.0:1.0:0.0	.	310;528	Q9H0M0-6;Q9H0M0	.;WWP1_HUMAN	H	528;528;398;310	ENSP00000427793:R528H;ENSP00000265428:R528H;ENSP00000340564:R398H;ENSP00000342665:R310H	ENSP00000265428:R528H	R	+	2	0	WWP1	87513070	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.744000	0.98853	2.498000	0.84270	0.563000	0.77884	CGC		0.388	WWP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374755.1	NM_007013		A	87443954	G	A	87443954	3	1	586	1	0	0	0	0	1	0	0	0	17427	1087	38	1	1629	1	WWP1	8	87443954	Missense_Mutation	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10	58406274	87443954	58920068	21	34907										
PHF20L1	51105	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	133829702	133829702	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	tcctcttaccgtaatgaatgTcccagggcagaaaaagagga	10	9	1	3			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr8:133829702T>G	ENST00000395386.2	+	12	1790	c.1491T>G	c.(1489-1491)tgT>tgG	p.C497W	PHF20L1_ENST00000395390.2_Missense_Mutation_p.C472W|PHF20L1_ENST00000220847.7_5'UTR	NM_016018.4	NP_057102.4	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1	497							zinc ion binding (GO:0008270)			breast(1)|endometrium(1)|large_intestine(1)|lung(10)|ovary(2)	15	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)			GTAATGAATGTCCCAGGGCAG	0.478																																																0													74	67	70					8																	133829702		2203	4300	6503	SO:0001583	missense	51105			AF230666	CCDS6367.2, CCDS6368.1, CCDS75791.1	8q24.22	2014-03-24			ENSG00000129292	ENSG00000129292		"Tudor domain containing", "Zinc fingers, PHD-type"	24280	protein-coding gene	gene with protein product	"tudor domain containing 20B"					10810093, 24492612	Standard	NM_016018		Approved	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B	uc003ytt.3	A8MW92	OTTHUMG00000148656	ENST00000395386.2:c.1491T>G	8.37:g.133829702T>G	ENSP00000378784:p.Cys497Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8MZC9|Q86U89|Q86W43|Q96BT0|Q9H702|Q9HBK3|Q9NYR3|Q9Y381	Missense_Mutation	SNP	ENST00000395386.2	37	CCDS6367.2	.	.	.	.	.	.	.	.	.	.	T	15.88	2.964653	0.53507	.	.	ENSG00000129292	ENST00000395383;ENST00000361997;ENST00000395386;ENST00000315808;ENST00000395382;ENST00000395390	T;T;T;T;T	0.52057	0.73;0.68;1.42;0.7;1.43	5.27	3.01	0.34805	.	.	.	.	.	T	0.36524	0.0970	L	0.29908	0.895	0.80722	D	1	B;P;P	0.41569	0.32;0.602;0.755	B;B;B	0.43950	0.134;0.283;0.437	T	0.05451	-1.0884	9	0.38643	T	0.18	-0.054	6.933	0.24451	0.0:0.4761:0.0:0.5239	.	472;497;497	F8W9L8;A8MW92;A8MW92-4	.;P20L1_HUMAN;.	W	501;472;497;497;367;472	ENSP00000378781:C501W;ENSP00000355301:C472W;ENSP00000378784:C497W;ENSP00000324519:C497W;ENSP00000378788:C472W	ENSP00000324519:C497W	C	+	3	2	PHF20L1	133898884	0.394000	0.25246	0.875000	0.34327	0.928000	0.56348	1.393000	0.34497	0.385000	0.24970	0.477000	0.44152	TGT		0.478	PHF20L1-008	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000308949.3	NM_016018		G	133829702	T	G	133829702	3	3	586	1	0	0	0	0	1	0	0	0	11839	1673	58	5	1539	5	PHF20L1	8	133829702	Missense_Mutation	SNP	T	TCGA-F9-A4JJ-01A-11D-A25F-10	46385748	133829702	12534320	22	34908										
FLJ46321	389763	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	84608041	84608041	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	tggtgagtgaggaccactgcGttgatacttcccaggaaatt	12	8	0	3			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr9:84608041G>A	ENST00000344803.2	+	4	2703	c.2656G>A	c.(2656-2658)Gtt>Att	p.V886I		NM_001001670.2	NP_001001670.1	Q6ZQQ2	S31D1_HUMAN	SPATA31 subfamily D, member 1	886					cell differentiation (GO:0030154)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)											GGACCACTGCGTTGATACTTC	0.438																																																0													100	85	90					9																	84608041		1867	4118	5985	SO:0001583	missense	389763				CCDS47986.1	9q21.32	2012-10-12	2012-10-12	2012-10-12	ENSG00000214929	ENSG00000214929			37283	protein-coding gene	gene with protein product			"family with sequence similarity 75, member D1"	FAM75D1			Standard	NM_001001670		Approved	FLJ46321	uc004amn.3	Q6ZQQ2	OTTHUMG00000169122	ENST00000344803.2:c.2656G>A	9.37:g.84608041G>A	ENSP00000341988:p.Val886Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000344803.2	37	CCDS47986.1	.	.	.	.	.	.	.	.	.	.	G	6.075	0.382087	0.11524	.	.	ENSG00000214929	ENST00000344803	T	0.49432	0.78	2.92	-1.61	0.08399	.	1.757670	0.03395	N	0.202455	T	0.37237	0.0996	L	0.50333	1.59	0.09310	N	1	B	0.15141	0.012	B	0.10450	0.005	T	0.06144	-1.0843	10	0.23302	T	0.38	0.4107	2.1957	0.03910	0.1774:0.3151:0.3841:0.1234	.	886	Q6ZQQ2	F75D1_HUMAN	I	886	ENSP00000341988:V886I	ENSP00000341988:V886I	V	+	1	0	FAM75D1	83797861	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-2.475000	0.00987	-0.318000	0.08665	-0.171000	0.13296	GTT		0.438	SPATA31D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402325.1	NM_001001670		A	84608041	G	A	84608041	3	1	586	1	0	0	0	0	1	0	0	0	5939	1145	40	1	2670	1	FLJ46321	9	84608041	Missense_Mutation	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10		84608041	56605390	23	34909										
DIRAS2	54769	ucsc.edu;bcgsc.ca	37	chr9	93375537	93375537	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	atcacgcacttgcctttgagCttctctttccttttctgctg	6	13	3	1	rs201919906		TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr9:93375537C>T	ENST00000375765.3	-	2	961	c.573G>A	c.(571-573)aaG>aaA	p.K191K		NM_017594.3	NP_060064.2	Q96HU8	DIRA2_HUMAN	DIRAS family, GTP-binding RAS-like 2	191					GTP catabolic process (GO:0006184)|small GTPase mediated signal transduction (GO:0007264)	plasma membrane (GO:0005886)	GTP binding (GO:0005525)			kidney(1)|large_intestine(6)|lung(3)|skin(2)	12						TGCCTTTGAGCTTCTCTTTCC	0.567													C|||	1	0.000199681	0.0	0.0	5008	,	,		22124	0.001		0.0	False		,,,				2504	0.0															0													192	171	178					9																	93375537		2203	4300	6503	SO:0001819	synonymous_variant	54769			AB076889	CCDS6687.1	9q22.32	2014-05-09			ENSG00000165023	ENSG00000165023			19323	protein-coding gene	gene with protein product		607863				12194967	Standard	NM_017594		Approved	Di-Ras2, DKFZp761C07121	uc004aqx.1	Q96HU8	OTTHUMG00000020196	ENST00000375765.3:c.573G>A	9.37:g.93375537C>T		Somatic		WXS	Illumina HiSeq		B3KVM2	Silent	SNP	ENST00000375765.3	37	CCDS6687.1																																																																																				0.567	DIRAS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053012.1			T	93375537	C	T	93375537	2	4	586	1	0	0	0	0	0	0	0	1	4533	796	28	2		2	DIRAS2	9	93375537	Silent	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10	8767496	93375537	47837894	24	34910										
ITGA8	8516	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	15688856	15688856	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	ttaaattaccattgtatccaTcttggttcaggtctcctaag	6	9	3	0			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr10:15688856T>C	ENST00000378076.3	-	12	1549	c.1196A>G	c.(1195-1197)gAt>gGt	p.D399G		NM_003638.1	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8	399					brain development (GO:0007420)|cell projection organization (GO:0030030)|cell-matrix adhesion (GO:0007160)|establishment of protein localization (GO:0045184)|extracellular matrix organization (GO:0030198)|inner ear morphogenesis (GO:0042472)|integrin-mediated signaling pathway (GO:0007229)|kidney development (GO:0001822)|memory (GO:0007613)|mesodermal cell differentiation (GO:0048333)|metanephros development (GO:0001656)|positive regulation of transcription from RNA polymerase II promoter involved in smooth muscle cell differentiation (GO:2000721)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|single organismal cell-cell adhesion (GO:0016337)|smooth muscle tissue development (GO:0048745)|substrate adhesion-dependent cell spreading (GO:0034446)	apical part of cell (GO:0045177)|cell surface (GO:0009986)|dendritic spine membrane (GO:0032591)|endoplasmic reticulum (GO:0005783)|focal adhesion (GO:0005925)|integrin alpha8-beta1 complex (GO:0034678)|integrin complex (GO:0008305)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)	metal ion binding (GO:0046872)			NS(2)|breast(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(57)|ovary(3)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	96						ATTGTATCCATCTTGGTTCAG	0.468																																																0													96	89	92					10																	15688856		2203	4300	6503	SO:0001583	missense	8516			L36531	CCDS31155.1	10p13	2010-03-23			ENSG00000077943	ENSG00000077943		"Integrins"	6144	protein-coding gene	gene with protein product		604063				7768999	Standard	XM_005252633		Approved		uc001ioc.1	P53708	OTTHUMG00000017733	ENST00000378076.3:c.1196A>G	10.37:g.15688856T>C	ENSP00000367316:p.Asp399Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ31|Q5VX94	Missense_Mutation	SNP	ENST00000378076.3	37	CCDS31155.1	.	.	.	.	.	.	.	.	.	.	T	26.0	4.698910	0.88830	.	.	ENSG00000077943	ENST00000378076;ENST00000538044	T	0.75589	-0.95	5.09	5.09	0.68999	.	0.093018	0.64402	D	0.000001	D	0.89322	0.6682	H	0.94264	3.515	0.80722	D	1	D;D	0.71674	0.998;0.997	D;D	0.69142	0.962;0.943	D	0.92371	0.5905	10	0.87932	D	0	.	14.8578	0.70355	0.0:0.0:0.0:1.0	.	384;399	F5H818;P53708	.;ITA8_HUMAN	G	399;384	ENSP00000367316:D399G	ENSP00000367316:D399G	D	-	2	0	ITGA8	15728862	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	8.040000	0.89188	1.897000	0.54924	0.460000	0.39030	GAT		0.468	ITGA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046987.1	NM_003638		C	15688856	T	C	15688856	3	2	586	1	0	0	0	0	1	0	0	0	7889	1435	50	3	2071	3	ITGA8	10	15688856	Missense_Mutation	SNP	T	TCGA-F9-A4JJ-01A-11D-A25F-10		15688856	119845891	25	34911										
TRPM5	29850	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	2432685	2432685	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	ccgtcatgggggtgcagcagCgcctgggtggtgacaccgta	17	11	1	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr11:2432685C>T	ENST00000155858.6	-	18	2687	c.2679G>A	c.(2677-2679)gcG>gcA	p.A893A	TRPM5_ENST00000533060.1_Silent_p.A893A|TRPM5_ENST00000452833.1_Silent_p.A895A|TRPM5_ENST00000528453.1_Silent_p.A893A	NM_014555.3	NP_055370.1			transient receptor potential cation channel, subfamily M, member 5											breast(1)|central_nervous_system(1)|endometrium(4)|liver(1)|lung(8)|ovary(2)|prostate(2)|skin(2)|urinary_tract(2)	23		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)		GGTGCAGCAGCGCCTGGGTGG	0.632																																					NSCLC(1;49 61 17205 18850 43201)											0													33	37	36					11																	2432685		2202	4295	6497	SO:0001819	synonymous_variant	29850			AF177473	CCDS31340.1	11p15.5	2011-12-14			ENSG00000070985	ENSG00000070985		"Voltage-gated ion channels / Transient receptor potential cation channels"	14323	protein-coding gene	gene with protein product		604600				10607831, 16382100	Standard	NM_014555		Approved	LTRPC5, MTR1	uc001lwm.4	Q9NZQ8	OTTHUMG00000009896	ENST00000155858.6:c.2679G>A	11.37:g.2432685C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000155858.6	37	CCDS31340.1																																																																																				0.632	TRPM5-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000027378.1	NM_014555		T	2432685	C	T	2432685	2	4	586	1	0	0	0	0	0	0	0	1	16601	755	27	1		1	TRPM5	11	2432685	Silent	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10		2432685	132573831	26	34912										
MAML2	84441	hgsc.bcm.edu	37	chr11	95825362	95825362	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	tgttgctgttgctgttgctgCtgctgctgctgttgctgctg	14	9	0	0			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr11:95825362C>T	ENST00000524717.1	-	2	3117	c.1833G>A	c.(1831-1833)caG>caA	p.Q611Q		NM_032427.1	NP_115803.1	Q8IZL2	MAML2_HUMAN	mastermind-like 2 (Drosophila)	611					gene expression (GO:0010467)|Notch signaling pathway (GO:0007219)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription initiation from RNA polymerase II promoter (GO:0006367)	Golgi apparatus (GO:0005794)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)	p.Q611Q(2)	CRTC3/MAML2(26)|CRTC1/MAML2(516)	breast(2)|cervix(1)|endometrium(11)|kidney(4)|large_intestine(8)|lung(12)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	43		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				gctgttgctgctgctgctgct	0.542			T	"MECT1, CRTC3"	salivary gland mucoepidermoid																																		Dom	yes		11	11q22-q23	84441	mastermind-like 2 (Drosophila)		E	2	Substitution - coding silent(2)	endometrium(1)|kidney(1)											39	44	42					11																	95825362		2057	4042	6099	SO:0001819	synonymous_variant	84441			AB058722	CCDS44714.1	11q	2008-02-05	2001-11-28		ENSG00000184384	ENSG00000184384			16259	protein-coding gene	gene with protein product		607537	"mastermind (Drosophila)-like 2"			12370315, 12386158	Standard	NM_032427		Approved	KIAA1819, MAM3	uc001pfw.1	Q8IZL2	OTTHUMG00000167677	ENST00000524717.1:c.1833G>A	11.37:g.95825362C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7MD26|Q6AI23|Q6Y3A3|Q8IUL3|Q96JK6	Silent	SNP	ENST00000524717.1	37	CCDS44714.1																																																																																				0.542	MAML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395540.1			T	95825362	C	T	95825362	2	4	586	1	0	0	0	0	0	0	0	1	9213	796	28	2		2	MAML2	11	95825362	Silent	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10	93392677	95825362	39181154	27	34913			1	69		2	2	46	C		7.849354e-05
MAML2	84441	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr11	95825407	95825407	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	tgctgctgctgctgctgctgCtgctgctgttgctgctgttg	14	11	0	0	rs61901862		TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr11:95825407C>T	ENST00000524717.1	-	2	3072	c.1788G>A	c.(1786-1788)caG>caA	p.Q596Q		NM_032427.1	NP_115803.1	Q8IZL2	MAML2_HUMAN	mastermind-like 2 (Drosophila)	596					gene expression (GO:0010467)|Notch signaling pathway (GO:0007219)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription initiation from RNA polymerase II promoter (GO:0006367)	Golgi apparatus (GO:0005794)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)	p.Q596Q(1)	CRTC3/MAML2(26)|CRTC1/MAML2(516)	breast(2)|cervix(1)|endometrium(11)|kidney(4)|large_intestine(8)|lung(12)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	43		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				gctgctgctgctgctgctgtt	0.532			T	"MECT1, CRTC3"	salivary gland mucoepidermoid																																		Dom	yes		11	11q22-q23	84441	mastermind-like 2 (Drosophila)		E	1	Substitution - coding silent(1)	kidney(1)											28	35	33					11																	95825407		2119	4148	6267	SO:0001819	synonymous_variant	84441			AB058722	CCDS44714.1	11q	2008-02-05	2001-11-28		ENSG00000184384	ENSG00000184384			16259	protein-coding gene	gene with protein product		607537	"mastermind (Drosophila)-like 2"			12370315, 12386158	Standard	NM_032427		Approved	KIAA1819, MAM3	uc001pfw.1	Q8IZL2	OTTHUMG00000167677	ENST00000524717.1:c.1788G>A	11.37:g.95825407C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7MD26|Q6AI23|Q6Y3A3|Q8IUL3|Q96JK6	Silent	SNP	ENST00000524717.1	37	CCDS44714.1																																																																																				0.532	MAML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395540.1			T	95825407	C	T	95825407	2	4	586	1	0	0	0	0	0	0	0	1	9213	796	28	2		2	MAML2	11	95825407	Silent	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10	45	95825407	39181109	28	34914			1	69		2	2	46	C		7.849354e-05
TRPC6	7225	ucsc.edu	37	chr11	101340201	101340201	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	ttgaaaggtcttcatgacttCctaaaattccaagtttcttt	5	8	3	2	rs138519687		TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr11:101340201C>T	ENST00000344327.3	-	10	2865	c.2441G>A	c.(2440-2442)gGa>gAa	p.G814E	TRPC6_ENST00000360497.4_Missense_Mutation_p.G759E|TRPC6_ENST00000532133.1_Missense_Mutation_p.G736E|TRPC6_ENST00000348423.4_Missense_Mutation_p.G698E	NM_004621.5	NP_004612.2	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel, subfamily C, member 6	814					aging (GO:0007568)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|calcium ion transmembrane transport (GO:0070588)|cation transport (GO:0006812)|cellular response to hydrogen peroxide (GO:0070301)|cellular response to hypoxia (GO:0071456)|ion transmembrane transport (GO:0034220)|platelet activation (GO:0030168)|positive regulation of calcium ion transport (GO:0051928)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of ion transmembrane transporter activity (GO:0032414)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|slit diaphragm (GO:0036057)	inositol 1,4,5 trisphosphate binding (GO:0070679)|store-operated calcium channel activity (GO:0015279)	p.G814E(1)		autonomic_ganglia(1)|breast(3)|central_nervous_system(2)|endometrium(3)|kidney(3)|large_intestine(14)|lung(17)|ovary(2)|pancreas(1)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	55		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		ttcatgacttcctaaaattcc	0.284																																					Colon(166;1315 1927 11094 12848 34731)											1	Substitution - Missense(1)	skin(1)											74	72	73					11																	101340201		2198	4295	6493	SO:0001583	missense	7225			AJ006276	CCDS8311.1	11q22.1	2014-02-04				ENSG00000137672		"Voltage-gated ion channels / Transient receptor potential cation channels"	12338	protein-coding gene	gene with protein product		603652	"focal segmental glomerulosclerosis 2"	FSGS2		9925922, 16382100, 15879175	Standard	NM_004621		Approved	TRP6	uc001pgk.4	Q9Y210		ENST00000344327.3:c.2441G>A	11.37:g.101340201C>T	ENSP00000340913:p.Gly814Glu	Somatic		WXS	Illumina HiSeq		Q52M59|Q9HCW3|Q9NQA8|Q9NQA9	Missense_Mutation	SNP	ENST00000344327.3	37	CCDS8311.1	.	.	.	.	.	.	.	.	.	.	C	9.959	1.222338	0.22457	.	.	ENSG00000137672	ENST00000344327;ENST00000532133;ENST00000348423;ENST00000360497	T;T;T;T	0.77750	-0.95;-1.02;-0.86;-1.12	4.43	2.45	0.29901	.	2.229520	0.01753	N	0.030032	T	0.63827	0.2544	N	0.14661	0.345	0.28120	N	0.930653	B;B;B	0.30406	0.032;0.278;0.008	B;B;B	0.30316	0.055;0.114;0.011	T	0.57985	-0.7716	10	0.40728	T	0.16	-2.2809	5.3878	0.16227	0.0:0.66:0.2253:0.1147	.	759;698;814	Q9Y210-3;Q9Y210-2;Q9Y210	.;.;TRPC6_HUMAN	E	814;736;698;759	ENSP00000340913:G814E;ENSP00000435574:G736E;ENSP00000343672:G698E;ENSP00000353687:G759E	ENSP00000340913:G814E	G	-	2	0	TRPC6	100845411	1.000000	0.71417	0.999000	0.59377	0.912000	0.54170	1.258000	0.32944	1.082000	0.41137	-0.145000	0.13849	GGA		0.284	TRPC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394770.1	NM_004621		T	101340201	C	T	101340201	3	4	586	1	0	0	0	0	1	0	0	0	16595	855	30	2	370	2	TRPC6	11	101340201	Missense_Mutation	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10	5514794	101340201	33666315	29	34915										
OR8G1	219865	bcgsc.ca	37	chr11	124135723	124135723	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	gaggaataaagatgtccacgTtgccctgaagaaaacgctag	11	8	0	3			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr11:124135723T>C	ENST00000524943.2	+	1	1001	c.1001T>C	c.(1000-1002)gTt>gCt	p.V334A	OR8G1_ENST00000341493.2_RNA	NM_001005198.1	NP_001005198.1	Q8NG78	OR8G5_HUMAN	olfactory receptor, family 8, subfamily G, member 5	334						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)						Breast(109;0.0157)|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;0.0523)		GATGTCCACGTTGCCCTGAAG	0.408																																					Ovarian(169;523 1969 8640 31295 51256)											0													56	55	55					11																	124135723		2026	4204	6230	SO:0001583	missense	219865			BK004516	CCDS66256.1	11q24.1	2014-04-17		2004-03-10	ENSG00000255298	ENSG00000255298		"GPCR / Class A : Olfactory receptors"	19622	protein-coding gene	gene with protein product				OR8G5P, OR8G6			Standard	NM_001005198		Approved			Q8NG78	OTTHUMG00000186059	ENST00000524943.2:c.1001T>C	11.37:g.124135723T>C	ENSP00000477014:p.Val334Ala	Somatic		WXS	Illumina HiSeq	Phase_1	B2RND3|Q6IEU6	Missense_Mutation	SNP	ENST00000524943.2	37																																																																																					0.408	OR8G5-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000387283.2	NM_001005198		C	124135723	T	C	124135723	3	2	586	1	0	0	0	0	1	0	0	0	11241	1725	60	3	902	3	OR8G1	11	124135723	Missense_Mutation	SNP	T	TCGA-F9-A4JJ-01A-11D-A25F-10	22795522	124135723	10870793	30	34916										
ACAD8	27034	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	134131026	134131026	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	aattgggagcgaggggcaggGcttcctcattgccgtgagag	17	8	1	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr11:134131026G>A	ENST00000281182.4	+	7	900	c.794G>A	c.(793-795)gGc>gAc	p.G265D	ACAD8_ENST00000374752.4_Missense_Mutation_p.G138D|ACAD8_ENST00000524547.1_3'UTR|ACAD8_ENST00000537423.1_Missense_Mutation_p.G188D|ACAD8_ENST00000543332.1_Missense_Mutation_p.G167D	NM_014384.2	NP_055199.1	Q9UKU7	ACAD8_HUMAN	acyl-CoA dehydrogenase family, member 8	265					branched-chain amino acid catabolic process (GO:0009083)|cellular nitrogen compound metabolic process (GO:0034641)|lipid metabolic process (GO:0006629)|regulation of transcription, DNA-templated (GO:0006355)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)|valine catabolic process (GO:0006574)	mitochondrial matrix (GO:0005759)	acyl-CoA dehydrogenase activity (GO:0003995)|flavin adenine dinucleotide binding (GO:0050660)			endometrium(4)|large_intestine(3)|lung(5)|ovary(1)|urinary_tract(1)	14	all_hematologic(175;0.127)	all_cancers(12;8e-23)|all_epithelial(12;2.59e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|all_neural(223;0.0189)|Medulloblastoma(222;0.0245)|Esophageal squamous(93;0.0559)		Epithelial(10;1.92e-10)|all cancers(11;2.26e-09)|BRCA - Breast invasive adenocarcinoma(10;8.73e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00154)|Lung(977;0.21)	Flavin adenine dinucleotide(DB03147)	GAGGGGCAGGGCTTCCTCATT	0.587																																					GBM(65;238 1125 33403 41853 48889)											0													70	66	67					11																	134131026		2201	4297	6498	SO:0001583	missense	27034			AF126245	CCDS8498.1	11q25	2014-09-17	2010-04-30		ENSG00000151498	ENSG00000151498			87	protein-coding gene	gene with protein product		604773	"acyl-Coenzyme A dehydrogenase family, member 8"			10524212	Standard	NM_014384		Approved		uc001qhk.3	Q9UKU7	OTTHUMG00000167177	ENST00000281182.4:c.794G>A	11.37:g.134131026G>A	ENSP00000281182:p.Gly265Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z5W4|Q6ZWP6|Q9BUS8	Missense_Mutation	SNP	ENST00000281182.4	37	CCDS8498.1	.	.	.	.	.	.	.	.	.	.	G	34	5.343370	0.95783	.	.	ENSG00000151498	ENST00000281182;ENST00000537423;ENST00000543332;ENST00000374752;ENST00000537915	D;D;D;D	0.99961	-9.25;-9.25;-9.25;-9.25	5.44	5.44	0.79542	Acyl-CoA dehydrogenase/oxidase (1);Acyl-CoA dehydrogenase/oxidase C-terminal (2);Acyl-CoA oxidase/dehydrogenase, type 1 (1);	0.000000	0.85682	D	0.000000	D	0.99971	0.9990	H	0.97874	4.095	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.998;0.999;0.996	D	0.96958	0.9699	10	0.87932	D	0	.	19.2501	0.93921	0.0:0.0:1.0:0.0	.	188;138;265	B7Z5W4;Q6ZWP6;Q9UKU7	.;.;ACAD8_HUMAN	D	265;188;167;138;227	ENSP00000281182:G265D;ENSP00000443763:G188D;ENSP00000438302:G167D;ENSP00000363884:G138D	ENSP00000281182:G265D	G	+	2	0	ACAD8	133636236	1.000000	0.71417	1.000000	0.80357	0.969000	0.65631	9.793000	0.99091	2.561000	0.86390	0.561000	0.74099	GGC		0.587	ACAD8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393607.1	NM_014384		A	134131026	G	A	134131026	3	1	586	1	0	0	0	0	1	0	0	0	110	1203	42	2	820	2	ACAD8	11	134131026	Missense_Mutation	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10	9995303	134131026	875490	31	34917										
MYO1A	4640	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	57440666	57440666	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	cagtttgtgatgacaccaccGaggggggatcccttgaagtc	13	10	0	3	rs561295735	byFrequency	TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr12:57440666G>A	ENST00000442789.2	-	8	809	c.522C>T	c.(520-522)ctC>ctT	p.L174L	MYO1A_ENST00000544473.1_Silent_p.L12L|MYO1A_ENST00000300119.3_Silent_p.L174L	NM_001256041.1	NP_001242970.1	Q9UBC5	MYO1A_HUMAN	myosin IA	174	Myosin motor.				microvillus assembly (GO:0030033)|sensory perception of sound (GO:0007605)|vesicle localization (GO:0051648)	apical plasma membrane (GO:0016324)|basal plasma membrane (GO:0009925)|basolateral plasma membrane (GO:0016323)|brush border (GO:0005903)|cortical actin cytoskeleton (GO:0030864)|cytoplasm (GO:0005737)|filamentous actin (GO:0031941)|lateral plasma membrane (GO:0016328)|microvillus (GO:0005902)|myosin complex (GO:0016459)	ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(1)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(12)|lung(17)|ovary(2)|skin(7)|urinary_tract(3)	50						TGACACCACCGAGGGGGGATC	0.498													G|||	6	0.00119808	0.0	0.0	5008	,	,		20056	0.0		0.0	False		,,,				2504	0.0061															0													98	93	94					12																	57440666		2203	4300	6503	SO:0001819	synonymous_variant	4640			L29137	CCDS8929.1	12q13-q15	2011-09-27			ENSG00000166866	ENSG00000166866		"Myosins / Myosin superfamily : Class I"	7595	protein-coding gene	gene with protein product		601478		MYHL, DFNA48		8884266, 12736868	Standard	NM_001256041		Approved		uc009zpd.3	Q9UBC5	OTTHUMG00000149899	ENST00000442789.2:c.522C>T	12.37:g.57440666G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UQD7	Silent	SNP	ENST00000442789.2	37	CCDS8929.1																																																																																				0.498	MYO1A-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313833.2	NM_005379		A	57440666	G	A	57440666	2	1	586	1	0	0	0	0	0	0	0	1	10075	1045	37	1		1	MYO1A	12	57440666	Silent	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10		57440666	76411229	32	34918										
FREM2	341640	broad.mit.edu;bcgsc.ca	37	chr13	39438496	39438496	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	cacaagagttggaaaccacaAgtgctccaacctcctggatt	8	12	0	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr13:39438496A>G	ENST00000280481.7	+	16	7952	c.7736A>G	c.(7735-7737)aAg>aGg	p.K2579R		NM_207361.4	NP_997244.3	Q5SZK8	FREM2_HUMAN	FRAS1 related extracellular matrix protein 2	2579					cell communication (GO:0007154)|homophilic cell adhesion (GO:0007156)|inner ear development (GO:0048839)|morphogenesis of an epithelium (GO:0002009)	basement membrane (GO:0005604)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(35)|lung(39)|ovary(9)|pancreas(2)|prostate(12)|skin(11)|upper_aerodigestive_tract(7)|urinary_tract(2)	148		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GGAAACCACAAGTGCTCCAAC	0.438																																																0													105	94	98					13																	39438496		2203	4300	6503	SO:0001583	missense	341640			BX538150	CCDS31960.1	13q13.3	2004-12-15			ENSG00000150893	ENSG00000150893			25396	protein-coding gene	gene with protein product		608945				15345741	Standard	NM_207361		Approved	DKFZp686J0811	uc001uwv.3	Q5SZK8	OTTHUMG00000016759	ENST00000280481.7:c.7736A>G	13.37:g.39438496A>G	ENSP00000280481:p.Lys2579Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q4QQG1|Q5H9N8|Q5T6Q1|Q6N057|Q6ZSB4|Q7Z305|Q7Z341	Missense_Mutation	SNP	ENST00000280481.7	37	CCDS31960.1	.	.	.	.	.	.	.	.	.	.	A	6.849	0.525823	0.13066	.	.	ENSG00000150893	ENST00000280481	T	0.18174	2.23	5.81	-0.748	0.11087	.	0.352897	0.31233	N	0.008018	T	0.05318	0.0141	N	0.05012	-0.13	0.34872	D	0.743695	B;B	0.02656	0.0;0.0	B;B	0.06405	0.002;0.002	T	0.42766	-0.9432	10	0.07175	T	0.84	.	6.1782	0.20455	0.6157:0.122:0.2623:0.0	.	2579;2579	Q5SZK8-2;Q5SZK8	.;FREM2_HUMAN	R	2579	ENSP00000280481:K2579R	ENSP00000280481:K2579R	K	+	2	0	FREM2	38336496	1.000000	0.71417	0.985000	0.45067	0.980000	0.70556	2.923000	0.48868	-0.095000	0.12351	-0.280000	0.10049	AAG		0.438	FREM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044599.2	NM_207361		G	39438496	A	G	39438496	3	3	586	1	0	0	0	0	1	0	0	0	6052	72	3	3	7798	3	FREM2	13	39438496	Missense_Mutation	SNP	A	TCGA-F9-A4JJ-01A-11D-A25F-10		39438496	75731382	33	34919										
CFL2	1073	hgsc.bcm.edu	37	chr14	35182529	35182529	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	tggcatcgtacaaagcatatCggcaatcattcagaggtagc	10	9	2	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr14:35182529C>T	ENST00000341223.3	-	2	393	c.242G>A	c.(241-243)cGa>cAa	p.R81Q	CFL2_ENST00000555765.1_Missense_Mutation_p.R64Q|CFL2_ENST00000556161.1_Missense_Mutation_p.R64Q|CFL2_ENST00000298159.6_Missense_Mutation_p.R81Q	NM_001243645.1|NM_021914.7	NP_001230574.1|NP_068733.1	Q9Y281	COF2_HUMAN	cofilin 2 (muscle)	81	ADF-H. {ECO:0000255|PROSITE- ProRule:PRU00599}.				actin filament depolymerization (GO:0030042)|muscle cell cellular homeostasis (GO:0046716)|positive regulation of actin filament depolymerization (GO:0030836)|regulation of dendritic spine morphogenesis (GO:0061001)|sarcomere organization (GO:0045214)	actin cytoskeleton (GO:0015629)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|I band (GO:0031674)|nucleus (GO:0005634)				breast(3)|endometrium(2)|lung(3)	8	Breast(36;0.0361)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;6.07e-06)|Lung(238;2.23e-05)|Epithelial(34;0.0387)|all cancers(34;0.0814)	GBM - Glioblastoma multiforme(112;0.0424)		CAAAGCATATCGGCAATCATT	0.378																																																0													113	108	109					14																	35182529		2203	4300	6503	SO:0001583	missense	1073			AF087867	CCDS9649.1, CCDS9650.1, CCDS58311.1	14q13.2	2014-09-17			ENSG00000165410	ENSG00000165410			1875	protein-coding gene	gene with protein product	"nemaline myopathy type 7"	601443				8800436	Standard	NM_138638		Approved	NEM7	uc001wsh.3	Q9Y281	OTTHUMG00000029536	ENST00000341223.3:c.242G>A	14.37:g.35182529C>T	ENSP00000340635:p.Arg81Gln	Somatic		WXS	Illumina HiSeq	Phase_I	G3V5P4	Missense_Mutation	SNP	ENST00000341223.3	37	CCDS9650.1	.	.	.	.	.	.	.	.	.	.	C	24.3	4.521545	0.85600	.	.	ENSG00000165410	ENST00000341223;ENST00000298159;ENST00000555765;ENST00000556161	D;D;D;D	0.84944	-1.92;-1.92;-1.92;-1.92	6.02	6.02	0.97574	Actin-binding, cofilin/tropomyosin type (3);	0.000000	0.85682	D	0.000000	D	0.95351	0.8491	H	0.96805	3.885	0.80722	D	1	D	0.71674	0.998	D	0.66847	0.947	D	0.95938	0.8944	10	0.72032	D	0.01	-0.5517	20.5407	0.99260	0.0:1.0:0.0:0.0	.	81	Q9Y281	COF2_HUMAN	Q	81;81;64;64	ENSP00000340635:R81Q;ENSP00000298159:R81Q;ENSP00000452451:R64Q;ENSP00000452188:R64Q	ENSP00000298159:R81Q	R	-	2	0	CFL2	34252280	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.747000	0.85070	2.865000	0.98341	0.655000	0.94253	CGA		0.378	CFL2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276639.1	NM_138638		T	35182529	C	T	35182529	3	4	586	1	0	0	0	0	1	0	0	0	3293	884	31	1	270	1	CFL2	14	35182529	Missense_Mutation	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10		35182529	72167011	34	34920										
PRC1	9055	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	91517424	91517424	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	gccgcttgctaggtgttcgaGgagcgctgccatacagcatc	13	12	0	0			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr15:91517424G>T	ENST00000361188.5	-	11	2614	c.1403C>A	c.(1402-1404)cCt>cAt	p.P468H	PRC1_ENST00000361919.3_Missense_Mutation_p.P468H|PRC1-AS1_ENST00000556200.1_RNA|PRC1_ENST00000394249.3_Missense_Mutation_p.P468H|PRC1-AS1_ENST00000554388.1_RNA|PRC1_ENST00000442656.2_Missense_Mutation_p.P427H					protein regulator of cytokinesis 1									p.P468R(1)		endometrium(1)|kidney(2)|large_intestine(7)|lung(9)|ovary(3)|prostate(1)|skin(2)	25	Lung NSC(78;0.0987)|all_lung(78;0.175)					AGGTGTTCGAGGAGCGCTGCC	0.498																																																1	Substitution - Missense(1)	ovary(1)											201	170	180					15																	91517424		2198	4298	6496	SO:0001583	missense	9055			AF044588	CCDS32334.1, CCDS45352.1, CCDS45353.1, CCDS45353.2	15q26.1	2013-05-29		2006-07-07	ENSG00000198901	ENSG00000198901			9341	protein-coding gene	gene with protein product	"anaphase spindle elongation 1 homolog (S. cerevisiae)"	603484				9885575	Standard	NM_003981		Approved	ASE1	uc002bqm.4	O43663	OTTHUMG00000171685	ENST00000361188.5:c.1403C>A	15.37:g.91517424G>T	ENSP00000354679:p.Pro468His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000361188.5	37	CCDS45352.1	.	.	.	.	.	.	.	.	.	.	G	18.91	3.723028	0.68959	.	.	ENSG00000198901	ENST00000394249;ENST00000361919;ENST00000361188;ENST00000555455;ENST00000442656	T;T;T;T	0.37752	1.18;1.18;1.18;1.18	5.37	5.37	0.77165	.	0.293466	0.39146	N	0.001451	T	0.61413	0.2345	M	0.71581	2.175	0.38985	D	0.959022	D;D;D;D	0.76494	0.999;0.999;0.999;0.999	D;D;D;D	0.75484	0.976;0.976;0.976;0.986	T	0.63989	-0.6512	10	0.59425	D	0.04	-9.2179	18.9064	0.92464	0.0:0.0:1.0:0.0	.	427;468;438;468	O43663-3;F8W9B5;O43663-2;O43663	.;.;.;PRC1_HUMAN	H	468;468;468;71;427	ENSP00000377793:P468H;ENSP00000354618:P468H;ENSP00000354679:P468H;ENSP00000409549:P427H	ENSP00000354679:P468H	P	-	2	0	PRC1	89318428	1.000000	0.71417	0.781000	0.31783	0.590000	0.36582	6.445000	0.73456	2.788000	0.95919	0.650000	0.86243	CCT		0.498	PRC1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414760.1	NM_003981		T	91517424	G	T	91517424	3	4	586	1	0	0	0	0	1	0	0	0	12456	1000	35	4	479	4	PRC1	15	91517424	Missense_Mutation	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10		91517424	11013968	35	34921										
DCUN1D3	123879	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	20871250	20871250	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	aagccctcaggccctgagctGagtgcacctctcccttcccc	8	19	2	2			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr16:20871250G>A	ENST00000324344.4	-	3	1158	c.873C>T	c.(871-873)ctC>ctT	p.L291L	DCUN1D3_ENST00000563934.1_Silent_p.L291L|ERI2_ENST00000564349.1_Intron	NM_173475.2	NP_775746.1	Q8IWE4	DCNL3_HUMAN	DCN1, defective in cullin neddylation 1, domain containing 3	291					negative regulation of cell growth (GO:0030308)|positive regulation of apoptotic process (GO:0043065)|response to gamma radiation (GO:0010332)|response to UV-C (GO:0010225)	perinuclear region of cytoplasm (GO:0048471)				NS(2)|breast(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(3)|ovary(2)	14				GBM - Glioblastoma multiforme(48;0.249)		GCCCTGAGCTGAGTGCACCTC	0.577																																																0													73	63	66					16																	20871250		2201	4300	6501	SO:0001819	synonymous_variant	123879			BC040442	CCDS10592.1	16p12.3	2013-06-10	2013-06-10		ENSG00000188215	ENSG00000188215			28734	protein-coding gene	gene with protein product			"DCN1, defective in cullin neddylation 1, domain containing 3 (S. cerevisiae)"			15988528	Standard	NM_173475		Approved	MGC48972, FLJ41725, DKFZp686O0290	uc002dhz.3	Q8IWE4	OTTHUMG00000131553	ENST00000324344.4:c.873C>T	16.37:g.20871250G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KVY4	Silent	SNP	ENST00000324344.4	37	CCDS10592.1																																																																																				0.577	DCUN1D3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254415.2	NM_173475		A	20871250	G	A	20871250	2	1	586	1	0	0	0	0	0	0	0	1	4317	1277	45	2		2	DCUN1D3	16	20871250	Silent	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10		20871250	69483503	36	34922										
CDH8	1006	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	61687954	61687954	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	cgtcttcatcatctttgataAttaatggttcatttttatgc	5	7	5	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr16:61687954A>C	ENST00000577390.1	-	12	2912	c.1958T>G	c.(1957-1959)aTt>aGt	p.I653S	CDH8_ENST00000299345.6_Missense_Mutation_p.I653S|CDH8_ENST00000577730.1_Missense_Mutation_p.I653S	NM_001796.4	NP_001787.2	P55286	CADH8_HUMAN	cadherin 8, type 2	653					adherens junction organization (GO:0034332)|cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|homophilic cell adhesion (GO:0007156)|response to cold (GO:0009409)|synaptic transmission, glutamatergic (GO:0035249)	axon terminus (GO:0043679)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|synaptic cleft (GO:0043083)	calcium ion binding (GO:0005509)			biliary_tract(1)|breast(3)|cervix(1)|endometrium(7)|kidney(6)|large_intestine(22)|liver(2)|lung(49)|ovary(6)|pancreas(2)|prostate(5)|skin(4)|urinary_tract(4)	112		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)		ATCTTTGATAATTAATGGTTC	0.388																																																0													81	78	79					16																	61687954		2203	4300	6503	SO:0001583	missense	1006			L34060	CCDS10802.1	16q22.1	2010-01-26			ENSG00000150394	ENSG00000150394		"Cadherins / Major cadherins"	1767	protein-coding gene	gene with protein product		603008				9615235, 2059658	Standard	NM_001796		Approved		uc002eog.2	P55286	OTTHUMG00000137493	ENST00000577390.1:c.1958T>G	16.37:g.61687954A>C	ENSP00000462701:p.Ile653Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWC1|Q14DC6|Q9ULB2	Missense_Mutation	SNP	ENST00000577390.1	37	CCDS10802.1	.	.	.	.	.	.	.	.	.	.	A	23.0	4.367372	0.82463	.	.	ENSG00000150394	ENST00000299345	T	0.78246	-1.16	5.7	5.7	0.88788	Cadherin, cytoplasmic domain (1);	0.000000	0.85682	D	0.000000	T	0.72558	0.3475	L	0.39566	1.225	0.80722	D	1	B	0.23249	0.082	B	0.29663	0.105	T	0.68573	-0.5373	10	0.38643	T	0.18	.	15.1545	0.72730	1.0:0.0:0.0:0.0	.	653	P55286	CADH8_HUMAN	S	653	ENSP00000299345:I653S	ENSP00000299345:I653S	I	-	2	0	CDH8	60245455	1.000000	0.71417	0.984000	0.44739	0.916000	0.54674	9.251000	0.95483	2.164000	0.68074	0.533000	0.62120	ATT		0.388	CDH8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268754.3	NM_001796		C	61687954	A	C	61687954	3	2	586	1	0	0	0	0	1	0	0	0	3118	101	4	5	445	5	CDH8	16	61687954	Missense_Mutation	SNP	A	TCGA-F9-A4JJ-01A-11D-A25F-10	40816704	61687954	28666799	37	34923										
RPL13	6137	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	89627425	89627425	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	acttccacaaggactggcagCggcgcgtggccacgtggttc	14	13	0	0			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr16:89627425C>T	ENST00000393099.3	+	1	307	c.58C>T	c.(58-60)Cgg>Tgg	p.R20W	RPL13_ENST00000452368.3_Missense_Mutation_p.R20W|SNORD68_ENST00000363214.1_RNA|RPL13_ENST00000567815.1_Missense_Mutation_p.R20W|RPL13_ENST00000311528.5_Missense_Mutation_p.R20W	NM_033251.2	NP_150254.1	P26373	RL13_HUMAN	ribosomal protein L13	20					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|cytosolic ribosome (GO:0022626)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|structural constituent of ribosome (GO:0003735)			lung(3)|skin(1)|upper_aerodigestive_tract(2)	6		all_hematologic(23;0.0748)		all cancers(4;1.15e-07)|OV - Ovarian serous cystadenocarcinoma(4;7.8e-06)|BRCA - Breast invasive adenocarcinoma(80;0.0139)		GGACTGGCAGCGGCGCGTGGC	0.711																																																0													14	15	15					16																	89627425		2144	4198	6342	SO:0001583	missense	6137			AB007172	CCDS10979.1, CCDS58492.1	16q24.3	2011-04-06			ENSG00000167526	ENSG00000167526		"L ribosomal proteins"	10303	protein-coding gene	gene with protein product		113703				9582194	Standard	NM_000977		Approved	D16S444E, BBC1, L13	uc002fnm.2	P26373	OTTHUMG00000133770	ENST00000393099.3:c.58C>T	16.37:g.89627425C>T	ENSP00000376811:p.Arg20Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DLX3|F5H1S2|Q3KQT8|Q567Q8|Q9BPX0	Missense_Mutation	SNP	ENST00000393099.3	37	CCDS10979.1	.	.	.	.	.	.	.	.	.	.	c	31	5.083913	0.94050	.	.	ENSG00000167526	ENST00000311528;ENST00000452368;ENST00000393099	T;T;T	0.32753	1.44;1.44;1.44	4.7	2.4	0.29515	.	0.117520	0.53938	U	0.000041	T	0.54679	0.1873	M	0.90705	3.14	0.48511	D	0.999666	D;D;D	0.61697	0.987;0.99;0.99	D;P;P	0.63793	0.918;0.851;0.851	T	0.60105	-0.7328	10	0.87932	D	0	-9.0218	7.8657	0.29535	0.2806:0.6293:0.0:0.0901	.	20;20;20	F5H1S2;A8K4C8;P26373	.;.;RL13_HUMAN	W	20	ENSP00000307889:R20W;ENSP00000438959:R20W;ENSP00000376811:R20W	ENSP00000307889:R20W	R	+	1	2	RPL13	88154926	1.000000	0.71417	1.000000	0.80357	0.969000	0.65631	4.902000	0.63266	1.107000	0.41642	0.563000	0.77884	CGG		0.711	RPL13-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258294.2	NM_000977		T	89627425	C	T	89627425	3	4	586	1	0	0	0	0	1	0	0	0	13572	759	27	1	60	1	RPL13	16	89627425	Missense_Mutation	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10	27939471	89627425	727328	38	34924										
SPAG7	9552	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	4871031	4871031	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	tcacctcgggccttgcgccgAgtctcctggtcaccgaggct	12	16	3	0			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr17:4871031A>C	ENST00000206020.3	-	1	136	c.69T>G	c.(67-69)acT>acG	p.T23T	SPAG7_ENST00000575142.1_Silent_p.T12T|RP5-1050D4.3_ENST00000576752.1_RNA|SPAG7_ENST00000573366.1_5'Flank|SPAG7_ENST00000571023.1_5'UTR	NM_004890.2	NP_004881.2	O75391	SPAG7_HUMAN	sperm associated antigen 7	23						nucleus (GO:0005634)	nucleic acid binding (GO:0003676)			central_nervous_system(1)|endometrium(1)|kidney(2)|lung(3)|ovary(2)|urinary_tract(1)	10						CCTTGCGCCGAGTCTCCTGGT	0.627																																																0													94	105	101					17																	4871031		1986	4146	6132	SO:0001819	synonymous_variant	9552			AF047437	CCDS42240.1	17p13.2	2008-07-18				ENSG00000091640			11216	protein-coding gene	gene with protein product		610056				9653160	Standard	NM_004890		Approved	FSA-1, ACRP, MGC20134	uc002gae.3	O75391		ENST00000206020.3:c.69T>G	17.37:g.4871031A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q96EU5	Silent	SNP	ENST00000206020.3	37	CCDS42240.1																																																																																				0.627	SPAG7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438747.1	NM_004890		C	4871031	A	C	4871031	2	2	586	1	0	0	0	0	0	0	0	1	14996	291	11	5		5	SPAG7	17	4871031	Silent	SNP	A	TCGA-F9-A4JJ-01A-11D-A25F-10		4871031	76324179	39	34925										
GPR172B	55065	hgsc.bcm.edu;bcgsc.ca	37	chr17	4937586	4937586	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	ggggccagctgcctccacagGgtcaccaccagcagacccag	12	17	1	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr17:4937586G>T	ENST00000424747.1	-	3	910	c.198C>A	c.(196-198)acC>acA	p.T66T	SLC52A1_ENST00000254853.5_Silent_p.T66T|SLC52A1_ENST00000512825.2_Silent_p.T66T	NM_001104577.1	NP_001098047.1	Q9NWF4	S52A1_HUMAN	solute carrier family 52 (riboflavin transporter), member 1	66					riboflavin transport (GO:0032218)	integral component of plasma membrane (GO:0005887)	riboflavin transporter activity (GO:0032217)|virus receptor activity (GO:0001618)										GCCTCCACAGGGTCACCACCA	0.642																																																0													49	50	50					17																	4937586		2203	4300	6503	SO:0001819	synonymous_variant	55065			AY070775	CCDS11066.1	17p13.3	2013-07-17	2013-07-17	2012-02-29	ENSG00000132517	ENSG00000132517		"Solute carriers"	30225	protein-coding gene	gene with protein product	"riboflavin transporter 1"	607883	"G protein-coupled receptor 172B"	GPR172B		12740431, 18632736	Standard	NM_001104577		Approved	FLJ10060, GPCR42, PAR2, hRFT1, RFVT1	uc002gao.4	Q9NWF4	OTTHUMG00000099448	ENST00000424747.1:c.198C>A	17.37:g.4937586G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B5MEV1|B5MEV2|Q6P9E0|Q86UT0	Silent	SNP	ENST00000424747.1	37	CCDS11066.1																																																																																				0.642	SLC52A1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216913.1	NM_017986		T	4937586	G	T	4937586	2	4	586	1	0	0	0	0	0	0	0	1	6677	1219	43	4		4	GPR172B	17	4937586	Silent	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10	66555	4937586	76257624	40	34926										
ITGA3	3675	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	48148253	48148253	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	ggagtgggacttatctgagtAtagttacaaggacccagagg	14	6	1	2			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr17:48148253A>G	ENST00000320031.8	+	5	1040	c.710A>G	c.(709-711)tAt>tGt	p.Y237C	ITGA3_ENST00000544892.1_Missense_Mutation_p.Y12C|ITGA3_ENST00000007722.7_Missense_Mutation_p.Y237C	NM_002204.2|NM_005501.2	NP_002195.1|NP_005492.1	P26006	ITA3_HUMAN	integrin, alpha 3 (antigen CD49C, alpha 3 subunit of VLA-3 receptor)	237					blood coagulation (GO:0007596)|cell-matrix adhesion (GO:0007160)|extracellular matrix organization (GO:0030198)|heart development (GO:0007507)|integrin-mediated signaling pathway (GO:0007229)|leukocyte migration (GO:0050900)|lung development (GO:0030324)|maternal process involved in female pregnancy (GO:0060135)|memory (GO:0007613)|mesodermal cell differentiation (GO:0048333)|negative regulation of cell projection organization (GO:0031345)|nephron development (GO:0072006)|neuron migration (GO:0001764)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of epithelial cell migration (GO:0010634)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of gene expression (GO:0010628)|positive regulation of neuron projection development (GO:0010976)|regulation of BMP signaling pathway (GO:0030510)|regulation of transforming growth factor beta receptor signaling pathway (GO:0017015)|regulation of Wnt signaling pathway (GO:0030111)|renal filtration (GO:0097205)|response to drug (GO:0042493)|response to gonadotropin (GO:0034698)|skin development (GO:0043588)	basolateral plasma membrane (GO:0016323)|cell periphery (GO:0071944)|cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|filopodium membrane (GO:0031527)|focal adhesion (GO:0005925)|growth cone (GO:0030426)|integrin alpha3-beta1 complex (GO:0034667)|integrin complex (GO:0008305)|invadopodium membrane (GO:0071438)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|synapse (GO:0045202)	glycoprotein binding (GO:0001948)|metal ion binding (GO:0046872)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)			endometrium(3)|kidney(2)|large_intestine(7)|lung(11)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|stomach(2)	31						TTATCTGAGTATAGTTACAAG	0.502																																																0													206	211	209					17																	48148253		2203	4300	6503	SO:0001583	missense	3675			M59911	CCDS11557.1, CCDS11558.1	17q21.33	2010-03-23	2003-10-13		ENSG00000005884	ENSG00000005884		"CD molecules", "Integrins"	6139	protein-coding gene	gene with protein product		605025	"antigen identified by monoclonal antibody J143"	MSK18		1655803, 9704023	Standard	NM_005501		Approved	CD49c, VLA3a, VCA-2, GAP-B3	uc010dbm.3	P26006	OTTHUMG00000161890	ENST00000320031.8:c.710A>G	17.37:g.48148253A>G	ENSP00000315190:p.Tyr237Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A7E246|B7ZM80|B9EGQ1|D3DTX4|D3DTX5	Missense_Mutation	SNP	ENST00000320031.8	37	CCDS11558.1	.	.	.	.	.	.	.	.	.	.	A	15.96	2.986557	0.53934	.	.	ENSG00000005884	ENST00000544892;ENST00000007722;ENST00000538917;ENST00000320031	T;T;T	0.57107	0.42;0.42;0.42	5.69	3.33	0.38152	.	0.874333	0.10328	N	0.687966	T	0.52108	0.1714	L	0.54323	1.7	0.27793	N	0.942745	D;P	0.56968	0.978;0.898	P;B	0.48901	0.594;0.379	T	0.43442	-0.9391	10	0.46703	T	0.11	.	5.9462	0.19219	0.6614:0.173:0.0:0.1656	.	237;237	P26006-1;P26006	.;ITA3_HUMAN	C	12;237;223;237	ENSP00000446133:Y12C;ENSP00000007722:Y237C;ENSP00000315190:Y237C	ENSP00000007722:Y237C	Y	+	2	0	ITGA3	45503252	0.979000	0.34478	0.526000	0.27913	0.985000	0.73830	1.665000	0.37449	0.961000	0.38030	0.533000	0.62120	TAT		0.502	ITGA3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000366298.1	NM_005501		G	48148253	A	G	48148253	3	3	586	1	0	0	0	0	1	0	0	0	7884	449	16	3	728	3	ITGA3	17	48148253	Missense_Mutation	SNP	A	TCGA-F9-A4JJ-01A-11D-A25F-10	43210667	48148253	33046957	41	34927										
ABCA6	23460	broad.mit.edu;bcgsc.ca	37	chr17	67081770	67081770	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	accatttcctcactacctctCcagcagttggctttgtgatc	6	14	2	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr17:67081770C>T	ENST00000284425.2	-	31	4199	c.4025G>A	c.(4024-4026)gGa>gAa	p.G1342E	ABCA6_ENST00000446604.2_5'UTR	NM_080284.2	NP_525023.2	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 6	1342	ABC transporter 2. {ECO:0000255|PROSITE- ProRule:PRU00434}.				transport (GO:0006810)	integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)			breast(6)|endometrium(5)|kidney(17)|large_intestine(18)|lung(20)|ovary(3)|prostate(2)|skin(5)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	82	Breast(10;5.65e-12)					CACTACCTCTCCAGCAGTTGG	0.343																																																0													92	81	85					17																	67081770		2203	4300	6503	SO:0001583	missense	23460			U66680	CCDS11683.1	17q21	2012-03-14			ENSG00000154262	ENSG00000154262		"ATP binding cassette transporters / subfamily A"	36	protein-coding gene	gene with protein product		612504				8894702	Standard	NM_080284		Approved	EST155051	uc002jhw.1	Q8N139		ENST00000284425.2:c.4025G>A	17.37:g.67081770C>T	ENSP00000284425:p.Gly1342Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NSH9|Q8N856|Q8WWZ6	Missense_Mutation	SNP	ENST00000284425.2	37	CCDS11683.1	.	.	.	.	.	.	.	.	.	.	C	16.45	3.126830	0.56721	.	.	ENSG00000154262	ENST00000284425;ENST00000446604	D	0.97888	-4.59	4.66	4.66	0.58398	ATPase, AAA+ type, core (1);ABC transporter-like (2);	0.000000	0.49305	D	0.000142	D	0.99378	0.9781	H	0.99404	4.55	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.98055	1.0390	10	0.87932	D	0	.	17.0615	0.86548	0.0:1.0:0.0:0.0	.	1342	Q8N139	ABCA6_HUMAN	E	1342;202	ENSP00000284425:G1342E	ENSP00000284425:G1342E	G	-	2	0	ABCA6	64593365	1.000000	0.71417	0.999000	0.59377	0.085000	0.17905	6.669000	0.74462	2.576000	0.86940	0.650000	0.86243	GGA		0.343	ABCA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450463.1	NM_080284		T	67081770	C	T	67081770	3	4	586	1	0	0	0	0	1	0	0	0	36	855	30	2	864	2	ABCA6	17	67081770	Missense_Mutation	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10	18933517	67081770	14113440	42	34928										
ASXL3	80816	broad.mit.edu;ucsc.edu	37	chr18	31224902	31224902	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	gaatgcaatgcttcacactaAcactcgaataggggatggaa	10	8	1	0			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr18:31224902A>G	ENST00000269197.5	+	3	182	c.182A>G	c.(181-183)aAc>aGc	p.N61S		NM_030632.1	NP_085135.1	Q9C0F0	ASXL3_HUMAN	additional sex combs like transcriptional regulator 3	61					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(3)|endometrium(3)|kidney(3)|large_intestine(6)|lung(22)|ovary(2)|pancreas(1)|skin(2)|urinary_tract(1)	43						CTTCACACTAACACTCGAATA	0.393																																																0													101	89	93					18																	31224902		1862	4111	5973	SO:0001583	missense	80816			AB051500	CCDS45847.1	18q11	2014-06-17	2014-06-17	2007-02-01		ENSG00000141431			29357	protein-coding gene	gene with protein product		615115	"KIAA1713", "additional sex combs like 3 (Drosophila)"	KIAA1713		11214970	Standard	NM_030632		Approved		uc010dmg.1	Q9C0F0		ENST00000269197.5:c.182A>G	18.37:g.31224902A>G	ENSP00000269197:p.Asn61Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZMX6|Q96MU3|Q9UFC5	Missense_Mutation	SNP	ENST00000269197.5	37	CCDS45847.1	.	.	.	.	.	.	.	.	.	.	A	18.75	3.689578	0.68271	.	.	ENSG00000141431	ENST00000269197	T	0.20738	2.05	5.57	4.41	0.53225	.	.	.	.	.	T	0.21550	0.0519	M	0.62723	1.935	0.34860	D	0.742502	B	0.32653	0.379	B	0.23716	0.048	T	0.28004	-1.0057	9	0.87932	D	0	.	11.4354	0.50064	0.9295:0.0:0.0705:0.0	.	61	Q9C0F0	ASXL3_HUMAN	S	61	ENSP00000269197:N61S	ENSP00000269197:N61S	N	+	2	0	ASXL3	29478900	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.017000	0.64047	1.063000	0.40649	0.533000	0.62120	AAC		0.393	ASXL3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441865.2			G	31224902	A	G	31224902	3	3	586	1	0	0	0	0	1	0	0	0	1068	43	2	3	192	3	ASXL3	18	31224902	Missense_Mutation	SNP	A	TCGA-F9-A4JJ-01A-11D-A25F-10		31224902	46852346	43	34929										
TCEB3B	51224	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	44560193	44560193	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	tttgcctgggaggtcatggaGtcagaatccgaaagcggatc	14	8	2	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr18:44560193G>A	ENST00000332567.4	-	1	1795	c.1443C>T	c.(1441-1443)gaC>gaT	p.D481D	KATNAL2_ENST00000245121.5_Intron|KATNAL2_ENST00000592005.1_Intron|KATNAL2_ENST00000356157.7_Intron	NM_016427.2	NP_057511.2	Q8IYF1	ELOA2_HUMAN	transcription elongation factor B polypeptide 3B (elongin A2)	481					regulation of DNA-templated transcription, elongation (GO:0032784)|transcription from RNA polymerase II promoter (GO:0006366)	integral component of membrane (GO:0016021)|nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|cervix(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(15)|lung(24)|ovary(2)|pancreas(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	58						AGGTCATGGAGTCAGAATCCG	0.582																																																0													60	66	64					18																	44560193		2203	4300	6503	SO:0001819	synonymous_variant	51224			BC036022	CCDS11932.1	18q21.1	2009-08-04			ENSG00000206181	ENSG00000206181			30771	protein-coding gene	gene with protein product	"transcription elongation factor (SIII) elongin A2", "elongin A2"	609522				7660129, 8244996	Standard	NM_016427		Approved	HsT832, TCEB3L	uc002lcr.1	Q8IYF1	OTTHUMG00000132649	ENST00000332567.4:c.1443C>T	18.37:g.44560193G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9P2V9	Silent	SNP	ENST00000332567.4	37	CCDS11932.1																																																																																				0.582	TCEB3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255900.1	NM_016427		A	44560193	G	A	44560193	2	1	586	1	0	0	0	0	0	0	0	1	15694	1020	36	2		2	TCEB3B	18	44560193	Silent	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10	13335291	44560193	33517055	44	34930										
ZNF799	90576	ucsc.edu	37	chr19	12501560	12501560	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	tctctctcatgtgaattcttTcatgtcgtagaaagcaagtg	8	8	4	2			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr19:12501560T>C	ENST00000430385.3	-	4	1852	c.1652A>G	c.(1651-1653)gAa>gGa	p.E551G	CTD-3105H18.14_ENST00000435033.1_Intron|ZNF799_ENST00000419318.1_Missense_Mutation_p.E519G	NM_001080821.2	NP_001074290.1	Q96GE5	ZN799_HUMAN	zinc finger protein 799	551					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(3)|kidney(2)|large_intestine(4)|lung(4)|ovary(2)|prostate(2)|skin(2)	19						GTGAATTCTTTCATGTCGTAG	0.393																																																0													93	96	95					19																	12501560		2202	4300	6502	SO:0001583	missense	90576			BC009517	CCDS45989.1	19p13.2	2013-01-08			ENSG00000196466	ENSG00000196466		"Zinc fingers, C2H2-type", "-"	28071	protein-coding gene	gene with protein product			"zinc finger protein 842"	ZNF842			Standard	NM_001080821		Approved	HIT-40, MGC71805	uc002mts.4	Q96GE5	OTTHUMG00000156408	ENST00000430385.3:c.1652A>G	19.37:g.12501560T>C	ENSP00000411084:p.Glu551Gly	Somatic		WXS	Illumina HiSeq			Missense_Mutation	SNP	ENST00000430385.3	37	CCDS45989.1	.	.	.	.	.	.	.	.	.	.	T	12.02	1.811876	0.32053	.	.	ENSG00000196466	ENST00000419318;ENST00000430385	T;T	0.18657	2.2;2.2	1.53	-0.919	0.10478	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.20414	0.0491	M	0.62209	1.925	0.09310	N	1	B	0.17852	0.024	B	0.29353	0.101	T	0.40720	-0.9548	9	0.62326	D	0.03	.	3.0258	0.06090	0.2117:0.1463:0.0:0.642	.	551	Q96GE5	ZN799_HUMAN	G	519;551	ENSP00000415278:E519G;ENSP00000411084:E551G	ENSP00000415278:E519G	E	-	2	0	ZNF799	12362560	0.000000	0.05858	0.005000	0.12908	0.094000	0.18550	-1.204000	0.03017	-0.358000	0.08162	0.352000	0.21897	GAA		0.393	ZNF799-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344099.2	NM_001080821		C	12501560	T	C	12501560	3	2	586	1	0	0	0	0	1	0	0	0	18178	1783	62	3	283	3	ZNF799	19	12501560	Missense_Mutation	SNP	T	TCGA-F9-A4JJ-01A-11D-A25F-10		12501560	46627423	45	34931										
ZNF709	163051	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	12574997	12574997	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	gtttcactccagtgtgagtcCtttcatgcattcgaacagaa	8	10	2	2			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr19:12574997C>T	ENST00000397732.3	-	4	1910	c.1739G>A	c.(1738-1740)aGg>aAg	p.R580K	ZNF709_ENST00000428311.1_Missense_Mutation_p.R580K|CTD-3105H18.18_ENST00000598753.1_Intron	NM_152601.3	NP_689814.1	Q8N972	ZN709_HUMAN	zinc finger protein 709	580					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			large_intestine(3)|upper_aerodigestive_tract(3)	6						AGTGTGAGTCCTTTCATGCAT	0.423																																					GBM(33;565 669 12371 29134 51667)											0													139	147	144					19																	12574997		2202	4300	6502	SO:0001583	missense	163051			AK095600	CCDS42504.1	19p13.2	2013-01-08			ENSG00000242852	ENSG00000242852		"Zinc fingers, C2H2-type", "-"	20629	protein-coding gene	gene with protein product							Standard	NM_152601		Approved	FLJ38281	uc002mtv.4	Q8N972	OTTHUMG00000156406	ENST00000397732.3:c.1739G>A	19.37:g.12574997C>T	ENSP00000380840:p.Arg580Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4E6	Missense_Mutation	SNP	ENST00000397732.3	37	CCDS42504.1	.	.	.	.	.	.	.	.	.	.	C	18.59	3.656147	0.67586	.	.	ENSG00000242852;ENSG00000196826	ENST00000397732;ENST00000428311	T;T	0.18338	2.22;2.22	2.89	1.85	0.25348	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.17577	0.0422	L	0.45581	1.43	0.22127	N	0.99935	B	0.27498	0.18	B	0.33121	0.158	T	0.24190	-1.0167	9	0.48119	T	0.1	.	9.5077	0.39058	0.0:0.8844:0.0:0.1156	.	580	Q8N972	ZN709_HUMAN	K	580	ENSP00000380840:R580K;ENSP00000404127:R580K	ENSP00000404127:R580K	R	-	2	0	ZNF709;CTD-2192J16.17	12435997	0.000000	0.05858	0.050000	0.19076	0.605000	0.37080	-0.136000	0.10405	0.797000	0.33971	0.655000	0.94253	AGG		0.423	ZNF709-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344088.1	NM_152601		T	12574997	C	T	12574997	3	4	586	1	0	0	0	0	1	0	0	0	18125	681	24	2	190	2	ZNF709	19	12574997	Missense_Mutation	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10	73437	12574997	46553986	46	34932										
CILP2	148113	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	19654855	19654855	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	tgctgggccaggagcccatcGgcttcaccgcctaccagggc	13	16	1	0			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr19:19654855G>A	ENST00000291495.5	+	8	1586	c.1501G>A	c.(1501-1503)Ggc>Agc	p.G501S	CILP2_ENST00000586018.1_Missense_Mutation_p.G507S	NM_153221.2	NP_694953.2	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	501						extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)				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						GGAGCCCATCGGCTTCACCGC	0.672																																																0													27	30	29					19																	19654855		2203	4300	6503	SO:0001583	missense	148113			AF542080	CCDS12405.1	19p13.11	2013-01-14				ENSG00000160161		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	24213	protein-coding gene	gene with protein product		612419				12477932	Standard	NM_153221		Approved	MGC45771	uc002nmv.4	Q8IUL8		ENST00000291495.5:c.1501G>A	19.37:g.19654855G>A	ENSP00000291495:p.Gly501Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NV88|Q8N4A6|Q8WV21	Missense_Mutation	SNP	ENST00000291495.5	37	CCDS12405.1	.	.	.	.	.	.	.	.	.	.	G	11.13	1.549039	0.27652	.	.	ENSG00000160161	ENST00000291495	T	0.45276	0.9	3.76	3.76	0.43208	Carbohydrate-binding-like fold (1);	0.000000	0.85682	D	0.000000	T	0.31009	0.0783	L	0.35793	1.09	0.58432	D	0.999992	P;P	0.52692	0.955;0.955	B;B	0.41619	0.361;0.252	T	0.05886	-1.0858	10	0.15952	T	0.53	-24.9444	13.1257	0.59354	0.0:0.0:1.0:0.0	.	501;501	B2RAJ0;Q8IUL8	.;CILP2_HUMAN	S	501	ENSP00000291495:G501S	ENSP00000291495:G501S	G	+	1	0	CILP2	19515855	1.000000	0.71417	0.926000	0.36857	0.540000	0.34992	4.647000	0.61418	1.657000	0.50732	0.423000	0.28283	GGC		0.672	CILP2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000459738.3	NM_153221		A	19654855	G	A	19654855	3	1	586	1	0	0	0	0	1	0	0	0	3432	1116	39	1	1531	1	CILP2	19	19654855	Missense_Mutation	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10	7079858	19654855	39474128	47	34933										
FPR3	2359	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	52327625	52327625	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	ctgatcctccacttcattatTggcttcagcgtgcctatgtc	7	13	2	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr19:52327625T>A	ENST00000339223.4	+	2	803	c.624T>A	c.(622-624)atT>atA	p.I208I	FPR3_ENST00000595991.1_Silent_p.I208I	NM_002030.3	NP_002021.3	P25089	FPR3_HUMAN	formyl peptide receptor 3	208					cellular component movement (GO:0006928)|chemotaxis (GO:0006935)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	N-formyl peptide receptor activity (GO:0004982)			NS(1)|breast(3)|endometrium(3)|kidney(1)|large_intestine(5)|lung(17)|ovary(1)|prostate(1)|skin(3)	35						ACTTCATTATTGGCTTCAGCG	0.458																																																0													146	118	128					19																	52327625		2203	4300	6503	SO:0001819	synonymous_variant	2359				CCDS12841.1	19q13.3-q13.4	2012-08-08	2008-04-17	2008-04-17		ENSG00000187474		"GPCR / Class A : Formyl peptide receptors"	3828	protein-coding gene	gene with protein product		136539	"formyl peptide receptor-like 2"	FPRL2		1612600, 8198572	Standard	NM_002030		Approved	FPRH1, FMLPY, RMLP-R-I	uc002pxt.1	P25089		ENST00000339223.4:c.624T>A	19.37:g.52327625T>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000339223.4	37	CCDS12841.1																																																																																				0.458	FPR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466914.1	NM_002030		A	52327625	T	A	52327625	2	1	586	1	0	0	0	0	0	0	0	1	6047	1800	63	5		5	FPR3	19	52327625	Silent	SNP	T	TCGA-F9-A4JJ-01A-11D-A25F-10	32672770	52327625	6801358	48	34934										
KIAA1755	85449	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	36870194	36870194	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	atgatgcagacagactgctcCtcctggggctccacttggag	12	12	0	3			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr20:36870194C>T	ENST00000279024.4	-	3	610	c.339G>A	c.(337-339)gaG>gaA	p.E113E		NM_001029864.1	NP_001025035.1	Q5JYT7	K1755_HUMAN	KIAA1755	113										breast(2)|endometrium(3)|kidney(1)|large_intestine(5)|lung(31)|ovary(5)|pancreas(2)|skin(4)|stomach(1)	54		Myeloproliferative disorder(115;0.00874)				CAGACTGCTCCTCCTGGGGCT	0.557																																																0													92	90	90					20																	36870194		2203	4300	6503	SO:0001819	synonymous_variant	85449			AB051542	CCDS33467.1	20q11.23	2007-12-07			ENSG00000149633	ENSG00000149633			29372	protein-coding gene	gene with protein product						11214970	Standard	NM_001029864		Approved	RP5-1054A22.3	uc002xhy.1	Q5JYT7	OTTHUMG00000032436	ENST00000279024.4:c.339G>A	20.37:g.36870194C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9C0A8	Silent	SNP	ENST00000279024.4	37	CCDS33467.1																																																																																				0.557	KIAA1755-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079144.3	NM_001029864		T	36870194	C	T	36870194	2	4	586	1	0	0	0	0	0	0	0	1	8264	680	24	2		2	KIAA1755	20	36870194	Silent	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10		36870194	26155326	49	34935										
RBM11	54033	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	15599303	15599303	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	cctcactgaatcatgttccaGatcttgaggctggacccagc	9	13	3	3			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr21:15599303G>T	ENST00000400577.3	+	5	544	c.535G>T	c.(535-537)Gat>Tat	p.D179Y	RBM11_ENST00000468643.1_3'UTR	NM_144770.3	NP_658983.3	P57052	RBM11_HUMAN	RNA binding motif protein 11	179					cell differentiation (GO:0030154)|cellular response to oxidative stress (GO:0034599)|mRNA processing (GO:0006397)|multicellular organismal development (GO:0007275)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|RNA splicing (GO:0008380)	nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(U) RNA binding (GO:0008266)|protein homodimerization activity (GO:0042803)			endometrium(3)|kidney(3)|lung(7)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	16				Epithelial(23;0.000314)|COAD - Colon adenocarcinoma(22;0.00242)|Colorectal(24;0.0129)|Lung(58;0.141)		TCATGTTCCAGATCTTGAGGC	0.458																																																0													199	186	190					21																	15599303		1928	4131	6059	SO:0001583	missense	54033			AF130358	CCDS46635.1	21q11	2013-02-12			ENSG00000185272	ENSG00000185272		"RNA binding motif (RRM) containing"	9897	protein-coding gene	gene with protein product						12036298	Standard	NM_144770		Approved		uc002yjo.4	P57052	OTTHUMG00000074263	ENST00000400577.3:c.535G>T	21.37:g.15599303G>T	ENSP00000383421:p.Asp179Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6YNC2|Q8NBA1|Q8NFF6	Missense_Mutation	SNP	ENST00000400577.3	37	CCDS46635.1	.	.	.	.	.	.	.	.	.	.	G	8.231	0.804684	0.16467	.	.	ENSG00000185272	ENST00000400577	T	0.08546	3.08	2.74	1.85	0.25348	.	0.523863	0.19918	N	0.103153	T	0.08758	0.0217	L	0.51422	1.61	0.09310	N	1	P	0.40144	0.704	B	0.41571	0.36	T	0.16689	-1.0394	10	0.62326	D	0.03	-7.9775	4.814	0.13358	0.2974:0.0:0.7026:0.0	.	179	P57052	RBM11_HUMAN	Y	179	ENSP00000383421:D179Y	ENSP00000383421:D179Y	D	+	1	0	RBM11	14521174	0.201000	0.23410	0.002000	0.10522	0.803000	0.45373	0.649000	0.24843	0.712000	0.32039	0.430000	0.28490	GAT		0.458	RBM11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157818.1	NM_144770		T	15599303	G	T	15599303	3	4	586	1	0	0	0	0	1	0	0	0	13125	942	33	4	553	4	RBM11	21	15599303	Missense_Mutation	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10		15599303	32530592	50	34936										
SEPT5	5413	ucsc.edu	37	chr22	19710008	19710008	+	3'UTR	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	agcagatgcaggaccagtgaCgctcgccgcggacacaccgt	13	14	0	2			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chr22:19710008C>T	ENST00000455784.2	+	0	1236				GP1BB_ENST00000366425.3_5'Flank|SEPT5_ENST00000406395.1_3'UTR|SEPT5_ENST00000383045.3_3'UTR|SEPT5_ENST00000438754.2_3'UTR	NM_002688.5	NP_002679.2	Q99719	SEPT5_HUMAN	septin 5						cytokinesis (GO:0000910)|GTP catabolic process (GO:0006184)|regulation of exocytosis (GO:0017157)|regulation of synaptic vesicle exocytosis (GO:2000300)|synaptic vesicle targeting (GO:0016080)	plasma membrane (GO:0005886)|septin complex (GO:0031105)|synaptic vesicle (GO:0008021)|terminal bouton (GO:0043195)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural molecule activity (GO:0005198)			lung(1)|upper_aerodigestive_tract(1)	2	Colorectal(54;0.0993)					GGACCAGTGACGCTCGCCGCG	0.706																																																0													29	29	29					22																	19710008		2181	4281	6462	SO:0001624	3_prime_UTR_variant	0			Y11593	CCDS13764.1, CCDS56224.1	22q11.2	2013-01-21	2005-01-11	2005-01-12	ENSG00000184702	ENSG00000184702		"Septins"	9164	protein-coding gene	gene with protein product		602724	"peanut-like 1 (Drosophila)"	PNUTL1		9385360, 9611266	Standard	NM_002688		Approved	HCDCREL-1, H5		Q99719	OTTHUMG00000150399	ENST00000455784.2:c.*1C>T	22.37:g.19710008C>T		Somatic		WXS	Illumina HiSeq		O15251|Q96MY5	RNA	SNP	ENST00000455784.2	37	CCDS13764.1																																																																																				0.706	SEPT5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317937.1	NM_002688		T	19710008	C	T	19710008	1	4	586	0	1	0	0	0	0	0	0	0	14080	551	19	1		1	SEPT5	22	19710008	3'UTR	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10		19710008	31594558	51	34937										
GRIPAP1	56850	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	48840222	48840222	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	taattcctgggtcaactgctCcttctcctgccctatttctt	5	14	3	0			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chrX:48840222C>T	ENST00000376441.1	-	15	1271	c.1237G>A	c.(1237-1239)Gag>Aag	p.E413K	GRIPAP1_ENST00000376444.3_Missense_Mutation_p.E368K|GRIPAP1_ENST00000473581.1_5'UTR|GRIPAP1_ENST00000376423.4_Missense_Mutation_p.E360K|GRIPAP1_ENST00000376425.3_Missense_Mutation_p.E382K	NM_020137.3	NP_064522.3	Q4V328	GRAP1_HUMAN	GRIP1 associated protein 1	413						blood microparticle (GO:0072562)|endosome (GO:0005768)				breast(2)|endometrium(1)|kidney(1)|large_intestine(4)|lung(2)	10						GTCAACTGCTCCTTCTCCTGC	0.507																																																0													268	196	221					X																	48840222		2203	4300	6503	SO:0001583	missense	56850			AB032993	CCDS35248.1	Xp11.23	2008-02-05			ENSG00000068400	ENSG00000068400			18706	protein-coding gene	gene with protein product		300408				10896157	Standard	NM_020137		Approved	GRASP-1, GRASP1, KIAA1167, MPMGp800B12492Q3, DKFZp434P0630	uc004dly.1	Q4V328	OTTHUMG00000033192	ENST00000376441.1:c.1237G>A	X.37:g.48840222C>T	ENSP00000365624:p.Glu413Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NL78|Q3MJ75|Q4V327|Q4V330|Q5HYG1|Q6N046|Q96DH8|Q9NQ43|Q9ULQ3	Missense_Mutation	SNP	ENST00000376441.1	37	CCDS35248.1	.	.	.	.	.	.	.	.	.	.	-	17.86	3.491722	0.64074	.	.	ENSG00000068400	ENST00000376425;ENST00000376444;ENST00000376441;ENST00000537291;ENST00000376423	T;T;T;T	0.24151	1.87;1.87;1.87;1.87	4.34	4.34	0.51931	.	0.072191	0.53938	D	0.000057	T	0.40670	0.1126	L	0.50333	1.59	0.40778	D	0.983142	D;D;P	0.65815	0.995;0.982;0.873	P;P;B	0.59487	0.858;0.831;0.385	T	0.30909	-0.9962	10	0.46703	T	0.11	-19.9581	15.2526	0.73559	0.0:1.0:0.0:0.0	.	360;303;413	Q4V328-2;Q4V328-3;Q4V328	.;.;GRAP1_HUMAN	K	382;368;413;382;360	ENSP00000365608:E382K;ENSP00000365627:E368K;ENSP00000365624:E413K;ENSP00000365606:E360K	ENSP00000365606:E360K	E	-	1	0	GRIPAP1	48725166	1.000000	0.71417	0.996000	0.52242	0.011000	0.07611	5.495000	0.66912	1.925000	0.55765	0.522000	0.50473	GAG		0.507	GRIPAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080970.2	NM_207672		T	48840222	C	T	48840222	3	4	586	1	0	0	0	0	1	0	0	0	6796	864	30	2	1390	2	GRIPAP1	23	48840222	Missense_Mutation	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10		48840222	106430338	52	34938										
PCDH11X	27328	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	91133625	91133625	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	gcactgaagcaccagtgaccCcaaatactgagatagctgat	9	11	0	4			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chrX:91133625C>A	ENST00000373094.1	+	2	3231	c.2386C>A	c.(2386-2388)Cca>Aca	p.P796T	PCDH11X_ENST00000406881.1_Missense_Mutation_p.P796T|PCDH11X_ENST00000504220.2_Missense_Mutation_p.P796T|PCDH11X_ENST00000373088.1_Missense_Mutation_p.P796T|PCDH11X_ENST00000361655.2_Missense_Mutation_p.P796T|PCDH11X_ENST00000298274.8_Missense_Mutation_p.P796T|PCDH11X_ENST00000373097.1_Missense_Mutation_p.P796T|PCDH11X_ENST00000361724.1_Missense_Mutation_p.P796T|PCDH11X_ENST00000395337.2_Missense_Mutation_p.P796T	NM_032968.3	NP_116750.1	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked	796					homophilic cell adhesion (GO:0007156)|negative regulation of phosphatase activity (GO:0010923)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|autonomic_ganglia(1)|biliary_tract(1)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(30)|liver(4)|lung(92)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	159						ACCAGTGACCCCAAATACTGA	0.438																																					NSCLC(38;925 1092 2571 38200 45895)											0													145	118	127					X																	91133625		2203	4300	6503	SO:0001583	missense	27328			AB026187	CCDS14461.1, CCDS14462.1, CCDS55458.1, CCDS55459.1, CCDS55460.1, CCDS55461.1	Xq21.3	2014-06-13	2002-05-22	2002-05-24	ENSG00000102290	ENSG00000102290		"Cadherins / Protocadherins : Non-clustered"	8656	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 119"	300246	"protocadherin 11"	PCDH11		10644456	Standard	NM_001168360		Approved	PCDH-X, PCDHX, PPP1R119	uc004efm.2	Q9BZA7	OTTHUMG00000021965	ENST00000373094.1:c.2386C>A	X.37:g.91133625C>A	ENSP00000362186:p.Pro796Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NIQ4|Q2TJH0|Q2TJH1|Q2TJH3|Q5JVZ0|Q70LR8|Q70LS7|Q70LS8|Q70LS9|Q70LT7|Q70LT8|Q70LT9|Q70LU0|Q70LU1|Q96RV4|Q96RW0|Q9BZA6|Q9H4E0|Q9P2M0|Q9P2X5	Missense_Mutation	SNP	ENST00000373094.1	37	CCDS14461.1	.	.	.	.	.	.	.	.	.	.	C	0.003	-2.399277	0.00198	.	.	ENSG00000102290	ENST00000395337;ENST00000373094;ENST00000373097;ENST00000361724;ENST00000373088;ENST00000504220;ENST00000361655;ENST00000406881;ENST00000356934;ENST00000298274	T;T;T;T;T;T;T;T;T	0.27890	1.64;1.64;1.64;1.64;1.64;1.64;1.64;1.64;1.64	5.15	2.3	0.28687	Protocadherin (1);	0.414782	0.27245	N	0.020252	T	0.25382	0.0617	L	0.36672	1.1	0.09310	N	1	B;B;B;B;B;B;B;B	0.22909	0.077;0.017;0.035;0.035;0.035;0.044;0.077;0.032	B;B;B;B;B;B;B;B	0.25987	0.062;0.026;0.039;0.039;0.039;0.065;0.062;0.062	T	0.14559	-1.0468	10	0.22109	T	0.4	.	15.2794	0.73770	0.0:0.4515:0.5485:0.0	.	796;796;796;796;796;796;796;796	Q9BZA7-6;Q9BZA7-5;Q9BZA7-4;Q9BZA7-8;Q9BZA7-3;Q9BZA7;Q9BZA7-7;Q9BZA7-2	.;.;.;.;.;PC11X_HUMAN;.;.	T	796	ENSP00000378746:P796T;ENSP00000362186:P796T;ENSP00000362189:P796T;ENSP00000355040:P796T;ENSP00000362180:P796T;ENSP00000423762:P796T;ENSP00000355105:P796T;ENSP00000384758:P796T;ENSP00000298274:P796T	ENSP00000298274:P796T	P	+	1	0	PCDH11X	91020281	0.999000	0.42202	0.001000	0.08648	0.003000	0.03518	1.394000	0.34509	0.053000	0.16036	-0.226000	0.12346	CCA		0.438	PCDH11X-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000057436.1	NM_032969		A	91133625	C	A	91133625	3	1	586	1	0	0	0	0	1	0	0	0	11515	623	22	4	2392	4	PCDH11X	23	91133625	Missense_Mutation	SNP	C	TCGA-F9-A4JJ-01A-11D-A25F-10	42293403	91133625	64136935	53	34939										
LAMP2	3920	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	119581842	119581842	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	3	1	0.799715909090909	0	0.913961038961039	0.142857142857143	1	0	cacagtggtgtgtatggtggGtgccactgttgaagttttgt	15	5	0	1			TCGA-F9-A4JJ-01A-11D-A25F-10	TCGA-F9-A4JJ-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0e4d764c-5196-4566-ae92-e291608bcd73	05c628cd-15ec-47b2-851d-fdcd131c5172	g.chrX:119581842G>A	ENST00000200639.4	-	5	731	c.595C>T	c.(595-597)Ccc>Tcc	p.P199S	LAMP2_ENST00000434600.2_Missense_Mutation_p.P199S|LAMP2_ENST00000538785.1_Missense_Mutation_p.P88S|LAMP2_ENST00000371335.4_Missense_Mutation_p.P199S|LAMP2_ENST00000540603.1_Missense_Mutation_p.P152S			P13473	LAMP2_HUMAN	lysosomal-associated membrane protein 2	199	Hinge.				blood coagulation (GO:0007596)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|protein stabilization (GO:0050821)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|late endosome (GO:0005770)|late endosome membrane (GO:0031902)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|membrane (GO:0016020)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)|platelet dense granule membrane (GO:0031088)	enzyme binding (GO:0019899)			endometrium(4)|large_intestine(2)|lung(5)|ovary(2)|urinary_tract(2)	15						TGTATGGTGGGTGCCACTGTT	0.408																																																0													229	204	212					X																	119581842		2203	4300	6503	SO:0001583	missense	3920			X77196	CCDS14599.1, CCDS14600.1, CCDS48159.1	Xq24-q25	2014-09-17			ENSG00000005893	ENSG00000005893		"CD molecules"	6501	protein-coding gene	gene with protein product		309060					Standard	NM_002294		Approved	CD107b	uc004ess.4	P13473	OTTHUMG00000022301	ENST00000200639.4:c.595C>T	X.37:g.119581842G>A	ENSP00000200639:p.Pro199Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4X5|D3DTF0|Q16641|Q6Q3G8|Q96J30|Q99534|Q9UD93	Missense_Mutation	SNP	ENST00000200639.4	37	CCDS14599.1	.	.	.	.	.	.	.	.	.	.	G	14.73	2.623881	0.46840	.	.	ENSG00000005893	ENST00000434600;ENST00000538785;ENST00000200639;ENST00000371335;ENST00000540603	T;T;T;T;T	0.66995	-0.15;0.23;-0.24;-0.13;-0.13	5.98	3.11	0.35812	.	0.053375	0.85682	D	0.000000	T	0.81823	0.4904	M	0.88704	2.975	0.19775	N	0.99996	D;D;D;D;D	0.76494	0.997;0.995;0.996;0.999;0.995	D;D;D;D;D	0.73708	0.965;0.965;0.941;0.981;0.965	T	0.72802	-0.4183	10	0.72032	D	0.01	-7.1395	10.4302	0.44403	0.0:0.1116:0.5665:0.3219	.	152;88;199;199;199	B4E2S7;B7Z2R9;P13473-2;P13473;Q6Q3G8	.;.;.;LAMP2_HUMAN;.	S	199;88;199;199;152	ENSP00000408411:P199S;ENSP00000440506:P88S;ENSP00000200639:P199S;ENSP00000360386:P199S;ENSP00000440479:P152S	ENSP00000200639:P199S	P	-	1	0	LAMP2	119465870	0.975000	0.34042	0.079000	0.20413	0.014000	0.08584	1.620000	0.36976	1.244000	0.43870	0.600000	0.82982	CCC		0.408	LAMP2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000058099.1			A	119581842	G	A	119581842	3	1	586	1	0	0	0	0	1	0	0	0	8625	1261	44	2	948	2	LAMP2	23	119581842	Missense_Mutation	SNP	G	TCGA-F9-A4JJ-01A-11D-A25F-10	28448217	119581842	35688718	54	34940										
CROCC	9696	broad.mit.edu	37	chr1	17294710	17294710	+	Frame_Shift_Del	DEL	A	A	-													0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	acctgcaggagaagatcagcAagatgaaggccaatgagaca							TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr1:17294710delA	ENST00000375541.5	+	31	4942	c.4873delA	c.(4873-4875)aagfs	p.K1625fs		NM_014675.3	NP_055490.3			ciliary rootlet coiled-coil, rootletin											breast(3)|central_nervous_system(2)|cervix(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(12)|large_intestine(1)|lung(20)|ovary(3)|prostate(9)|skin(3)|urinary_tract(1)	62		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)		GAAGATCAGCAAGATGAAGGC	0.652																																																0													20	18	19					1																	17294710		2180	4276	6456	SO:0001589	frameshift_variant	9696			AB007914	CCDS30616.1	1p36.13	2010-06-04	2009-03-04	2009-03-04	ENSG00000058453	ENSG00000058453			21299	protein-coding gene	gene with protein product	"rootletin, ciliary rootlet protein"	615776				12427867, 17971504	Standard	XM_006711056		Approved	rootletin, ROLT	uc001azt.2	Q5TZA2	OTTHUMG00000002200	ENST00000375541.5:c.4873delA	1.37:g.17294710delA	ENSP00000364691:p.Lys1625fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000375541.5	37	CCDS30616.1																																																																																				0.652	CROCC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006249.2	NM_014675		-	17294710	A	-	17294710	7	5	587	1	0	1	0	1	0	0	0	0	3895	131	5	0	4995	0	CROCC	1	17294710	Frame_Shift_Del	DEL	A	TCGA-G7-6789-01A-11D-1961-08		17294710	231955911	1	34941										
SNIP1	79753	ucsc.edu	37	chr1	38019775	38019775	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	ccgccggcagcaccacgtccCcgtcccggtgtcttcgccgg	12	20	1	0			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr1:38019775C>A	ENST00000296215.6	-	1	128	c.56G>T	c.(55-57)gGg>gTg	p.G19V	SNIP1_ENST00000468040.1_Intron|DNALI1_ENST00000541606.1_5'Flank|DNALI1_ENST00000296218.7_5'Flank	NM_024700.3	NP_078976.2	Q8TAD8	SNIP1_HUMAN	Smad nuclear interacting protein 1	19					I-kappaB kinase/NF-kappaB signaling (GO:0007249)|production of miRNAs involved in gene silencing by miRNA (GO:0035196)|regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			breast(2)|cervix(2)|endometrium(1)|large_intestine(3)|lung(15)|ovary(1)|upper_aerodigestive_tract(1)	25		Myeloproliferative disorder(586;0.0393)				CACCACGTCCCCGTCCCGGTG	0.652																																																0													38	35	36					1																	38019775		2202	4295	6497	SO:0001583	missense	79753				CCDS419.1	1p34.3	2010-07-06			ENSG00000163877	ENSG00000163877			30587	protein-coding gene	gene with protein product		608241				10887155, 15378006	Standard	NM_024700		Approved		uc001cbi.4	Q8TAD8	OTTHUMG00000004225	ENST00000296215.6:c.56G>T	1.37:g.38019775C>A	ENSP00000296215:p.Gly19Val	Somatic		WXS	Illumina HiSeq		Q96SP9|Q9H9T7	Missense_Mutation	SNP	ENST00000296215.6	37	CCDS419.1	.	.	.	.	.	.	.	.	.	.	C	9.945	1.218512	0.22373	.	.	ENSG00000163877	ENST00000296215	T	0.14640	2.49	5.68	-2.41	0.06562	.	0.458709	0.21366	N	0.075702	T	0.07234	0.0183	N	0.19112	0.55	0.46678	D	0.999157	P	0.36065	0.535	B	0.37346	0.247	T	0.27191	-1.0081	10	0.46703	T	0.11	-0.0057	6.0189	0.19618	0.1232:0.4174:0.0:0.4595	.	19	Q8TAD8	SNIP1_HUMAN	V	19	ENSP00000296215:G19V	ENSP00000296215:G19V	G	-	2	0	SNIP1	37792362	0.013000	0.17824	0.325000	0.25375	0.001000	0.01503	-0.950000	0.03889	-0.332000	0.08489	-1.093000	0.02169	GGG		0.652	SNIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012169.2	NM_024700		A	38019775	C	A	38019775	3	1	587	1	0	0	0	0	1	0	0	0	14861	623	22	4	1150	4	SNIP1	1	38019775	Missense_Mutation	SNP	C	TCGA-G7-6789-01A-11D-1961-08	20725065	38019775	211230846	2	34942										
ZNF684	127396	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	41012446	41012446	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	tagacttacttaaatataatAgaagttatactgtagaaaac	5	4	0	3			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr1:41012446A>G	ENST00000372699.3	+	5	702	c.451A>G	c.(451-453)Aga>Gga	p.R151G	ZNF684_ENST00000493756.1_3'UTR	NM_152373.3	NP_689586.3	Q5T5D7	ZN684_HUMAN	zinc finger protein 684	151					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|endometrium(2)|kidney(2)|lung(3)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)	13	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;5.42e-18)			TAAATATAATAGAAGTTATAC	0.299																																																0													35	39	38					1																	41012446		2197	4296	6493	SO:0001583	missense	127396				CCDS454.1	1p34.2	2013-01-08			ENSG00000117010	ENSG00000117010		"Zinc fingers, C2H2-type", "-"	28418	protein-coding gene	gene with protein product	"hypothetical protein MGC27466"					12477932	Standard	NM_152373		Approved	MGC27466	uc001cft.2	Q5T5D7	OTTHUMG00000007359	ENST00000372699.3:c.451A>G	1.37:g.41012446A>G	ENSP00000361784:p.Arg151Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKY4	Missense_Mutation	SNP	ENST00000372699.3	37	CCDS454.1	.	.	.	.	.	.	.	.	.	.	A	1.875	-0.459201	0.04508	.	.	ENSG00000117010	ENST00000372699	T	0.05717	3.4	3.87	0.211	0.15236	.	0.866547	0.09619	N	0.777770	T	0.06234	0.0161	L	0.41492	1.28	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.37337	-0.9710	10	0.66056	D	0.02	.	7.0072	0.24844	0.6969:0.0:0.3031:0.0	.	151	Q5T5D7	ZN684_HUMAN	G	151	ENSP00000361784:R151G	ENSP00000361784:R151G	R	+	1	2	ZNF684	40785033	0.004000	0.15560	0.000000	0.03702	0.007000	0.05969	0.763000	0.26517	-0.060000	0.13132	-0.326000	0.08463	AGA		0.299	ZNF684-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019260.3	NM_152373		G	41012446	A	G	41012446	3	3	587	1	0	0	0	0	1	0	0	0	18103	412	15	3	465	3	ZNF684	1	41012446	Missense_Mutation	SNP	A	TCGA-G7-6789-01A-11D-1961-08	2992671	41012446	208238175	3	34943										
TNNI3K	100526835	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	74905226	74905226	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	gcagtgcactcggtacaccaTcaaagcagatgtcttcagct	9	12	3	1			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr1:74905226T>G	ENST00000370899.3	+	22	2271	c.2234T>G	c.(2233-2235)aTc>aGc	p.I745S	TNNI3K_ENST00000326637.3_Missense_Mutation_p.I644S|TNNI3K_ENST00000370891.2_Missense_Mutation_p.I745S|FPGT-TNNI3K_ENST00000557284.2_Missense_Mutation_p.I758S	NM_001199327.1	NP_001186256			FPGT-TNNI3K readthrough																		CGGTACACCATCAAAGCAGAT	0.478																																																0													164	136	145					1																	74905226		2203	4300	6503	SO:0001583	missense	100526835					1p31.3	2014-03-14			ENSG00000259030	ENSG00000259030			42952	other	readthrough							Standard	NM_001112808		Approved		uc001dge.2		OTTHUMG00000166281	ENST00000370899.3:c.2234T>G	1.37:g.74905226T>G	ENSP00000359936:p.Ile745Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000370899.3	37		.	.	.	.	.	.	.	.	.	.	T	10.84	1.464750	0.26335	.	.	ENSG00000259030;ENSG00000259030;ENSG00000116783;ENSG00000116783	ENST00000370899;ENST00000557284;ENST00000370891;ENST00000326637	D;D;D;D	0.81739	-1.53;-1.53;-1.53;-1.53	5.74	5.74	0.90152	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.056318	0.64402	D	0.000001	T	0.41328	0.1154	N	0.03983	-0.305	0.42989	D	0.994482	B;P;B	0.37276	0.183;0.589;0.372	B;B;B	0.32677	0.131;0.15;0.114	T	0.58451	-0.7634	10	0.08837	T	0.75	.	16.0467	0.80725	0.0:0.0:0.0:1.0	.	644;745;745	Q59H18;Q59H18-1;Q59H18-4	TNI3K_HUMAN;.;.	S	745;745;745;644	ENSP00000359936:I745S;ENSP00000450895:I745S;ENSP00000359928:I745S;ENSP00000322251:I644S	ENSP00000322251:I644S	I	+	2	0	RP11-653A5.2;AC093158.1	74677814	1.000000	0.71417	1.000000	0.80357	0.760000	0.43138	5.774000	0.68906	2.197000	0.70478	0.454000	0.30748	ATC		0.478	FPGT-TNNI3K-003	NOVEL	basic|appris_candidate|readthrough_transcript|exp_conf	protein_coding	protein_coding	OTTHUMT00000026438.3			G	74905226	T	G	74905226	3	3	587	1	0	0	0	0	1	0	0	0	16341	1435	50	5	2364	5	TNNI3K	1	74905226	Missense_Mutation	SNP	T	TCGA-G7-6789-01A-11D-1961-08	33892780	74905226	174345395	4	34944										
GBP7	388646	hgsc.bcm.edu	37	chr1	89598981	89598981	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	tctttctcagttctctcataTagttttccctttccctctcc	2	15	5	0	rs369457817		TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr1:89598981T>A	ENST00000294671.2	-	10	1760	c.1622A>T	c.(1621-1623)tAt>tTt	p.Y541F		NM_207398.2	NP_997281.2	Q8N8V2	GBP7_HUMAN	guanylate binding protein 7	541						membrane (GO:0016020)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(2)|large_intestine(9)|lung(5)|ovary(1)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	27		Lung NSC(277;0.0908)		all cancers(265;0.00835)|Epithelial(280;0.0322)		TTCTCTCATATAGTTTTCCCT	0.438																																																0													311	277	289					1																	89598981		2202	4300	6502	SO:0001583	missense	388646			AK096141	CCDS720.1	1p22.2	2008-02-05			ENSG00000213512	ENSG00000213512			29606	protein-coding gene	gene with protein product		612468					Standard	NM_207398		Approved	FLJ38822, GBP4L	uc001dna.2	Q8N8V2	OTTHUMG00000010659	ENST00000294671.2:c.1622A>T	1.37:g.89598981T>A	ENSP00000294671:p.Tyr541Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000294671.2	37	CCDS720.1	.	.	.	.	.	.	.	.	.	.	T	5.441	0.266483	0.10294	.	.	ENSG00000213512	ENST00000294671	T	0.52526	0.66	3.49	0.919	0.19392	Guanylate-binding protein, C-terminal (3);	2.126890	0.02428	N	0.083298	T	0.06826	0.0174	N	0.01352	-0.895	0.09310	N	1	B	0.02656	0.0	B	0.09377	0.004	T	0.13045	-1.0524	10	0.45353	T	0.12	.	3.8536	0.08965	0.5682:0.2068:0.0:0.225	.	541	Q8N8V2	GBP7_HUMAN	F	541	ENSP00000294671:Y541F	ENSP00000294671:Y541F	Y	-	2	0	GBP7	89371569	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.009000	0.12765	0.053000	0.16036	-1.223000	0.01593	TAT		0.438	GBP7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029401.1	NM_207398		A	89598981	T	A	89598981	3	1	587	1	0	0	0	0	1	0	0	0	6286	1406	49	5	302	5	GBP7	1	89598981	Missense_Mutation	SNP	T	TCGA-G7-6789-01A-11D-1961-08	14693755	89598981	159651640	5	34945										
AMPD1	270	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	115218255	115218255	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	tcctggggcttgggactcttGgaggagaacatgtggccact	15	9	1	1			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr1:115218255G>C	ENST00000520113.2	-	12	1689	c.1674C>G	c.(1672-1674)tcC>tcG	p.S558S	AMPD1_ENST00000353928.6_Silent_p.S525S|AMPD1_ENST00000369538.3_Silent_p.S554S			P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1	558					IMP salvage (GO:0032264)|nucleobase-containing small molecule metabolic process (GO:0055086)|purine nucleobase metabolic process (GO:0006144)|purine-containing compound salvage (GO:0043101)|response to organic substance (GO:0010033)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	AMP deaminase activity (GO:0003876)|metal ion binding (GO:0046872)			NS(1)|breast(1)|endometrium(5)|kidney(1)|large_intestine(10)|lung(17)|ovary(3)|pancreas(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	45	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	TGGGACTCTTGGAGGAGAACA	0.468																																																0													189	179	183					1																	115218255		2203	4300	6503	SO:0001819	synonymous_variant	270			M60092	CCDS876.1, CCDS876.2, CCDS53349.1	1p13	2010-02-10	2010-02-10		ENSG00000116748	ENSG00000116748	3.5.4.6		468	protein-coding gene	gene with protein product	"AMPD isoform M", "skeletal muscle AMPD"	102770	"adenosine monophosphate deaminase 1 (isoform M)"			1400401	Standard	NM_001172626		Approved	MAD, MADA	uc001efe.2	P23109	OTTHUMG00000011892	ENST00000520113.2:c.1674C>G	1.37:g.115218255G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5N4|B2RAM1|F2Z3B3|Q5TF00|Q5TF02	Silent	SNP	ENST00000520113.2	37	CCDS876.2																																																																																				0.468	AMPD1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000032860.4			C	115218255	G	C	115218255	2	2	587	1	0	0	0	0	0	0	0	1	585	1335	47	4		4	AMPD1	1	115218255	Silent	SNP	G	TCGA-G7-6789-01A-11D-1961-08	25619274	115218255	134032366	6	34946										
TDRD5	163589	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	179609042	179609042	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	atgttttattcagccgggacAtctctgttgtgtaaggattt	10	6	2	0			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr1:179609042A>C	ENST00000367614.1	+	10	1948	c.1589A>C	c.(1588-1590)cAt>cCt	p.H530P	TDRD5_ENST00000294848.8_Missense_Mutation_p.H530P|TDRD5_ENST00000444136.1_Missense_Mutation_p.H530P	NM_001199091.1	NP_001186020.1	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	530	Tudor. {ECO:0000255|PROSITE- ProRule:PRU00211}.				DNA methylation involved in gamete generation (GO:0043046)|P granule organization (GO:0030719)|spermatid development (GO:0007286)	chromatoid body (GO:0033391)|pi-body (GO:0071546)				NS(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(7)|lung(44)|ovary(2)|prostate(1)|skin(9)|stomach(1)|upper_aerodigestive_tract(2)	77						CAGCCGGGACATCTCTGTTGT	0.418																																																0													206	197	200					1																	179609042		2203	4300	6503	SO:0001583	missense	163589			AK092142	CCDS1332.1, CCDS55663.1	1q24.2	2013-01-23			ENSG00000162782	ENSG00000162782		"Tudor domain containing"	20614	protein-coding gene	gene with protein product							Standard	NM_001199085		Approved	FLJ34823, TUDOR3	uc010pnp.2	Q8NAT2	OTTHUMG00000035259	ENST00000367614.1:c.1589A>C	1.37:g.179609042A>C	ENSP00000356586:p.His530Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A1L4G5|B7ZLV0|Q5EBN4|Q5VTV0|Q6ZSK2	Missense_Mutation	SNP	ENST00000367614.1	37	CCDS1332.1	.	.	.	.	.	.	.	.	.	.	A	18.16	3.562855	0.65538	.	.	ENSG00000162782	ENST00000367614;ENST00000294848;ENST00000444136	T;T;T	0.08984	3.03;3.03;3.03	5.33	4.19	0.49359	Tudor subgroup (1);Maternal tudor protein (1);Tudor domain (1);	0.062123	0.64402	D	0.000003	T	0.16727	0.0402	L	0.32530	0.975	0.35819	D	0.824489	D;D	0.76494	0.999;0.999	D;D	0.73380	0.977;0.98	T	0.09122	-1.0689	10	0.54805	T	0.06	-11.2483	10.2602	0.43423	0.9209:0.0:0.0791:0.0	.	530;530	Q8NAT2-1;Q8NAT2	.;TDRD5_HUMAN	P	530	ENSP00000356586:H530P;ENSP00000294848:H530P;ENSP00000406052:H530P	ENSP00000294848:H530P	H	+	2	0	TDRD5	177875665	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	3.266000	0.51569	0.854000	0.35336	0.533000	0.62120	CAT		0.418	TDRD5-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000085295.1	NM_173533		C	179609042	A	C	179609042	3	2	587	1	0	0	0	0	1	0	0	0	15745	217	8	5	1623	5	TDRD5	1	179609042	Missense_Mutation	SNP	A	TCGA-G7-6789-01A-11D-1961-08	64390787	179609042	69641579	7	34947										
PTPRC	5788	broad.mit.edu;bcgsc.ca	37	chr1	198678927	198678927	+	Frame_Shift_Del	DEL	G	G	-													0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	ccacaagtttactaacgcaaGtaaaattattaaaacagatt							TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr1:198678927delG	ENST00000367376.2	+	11	1310	c.1139delG	c.(1138-1140)agtfs	p.S380fs	PTPRC_ENST00000442510.2_Frame_Shift_Del_p.S382fs|PTPRC_ENST00000352140.3_Frame_Shift_Del_p.S332fs|PTPRC_ENST00000348564.6_Frame_Shift_Del_p.S221fs|PTPRC_ENST00000594404.1_Frame_Shift_Del_p.S219fs	NM_002838.4	NP_002829.3	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	380					axon guidance (GO:0007411)|B cell proliferation (GO:0042100)|B cell receptor signaling pathway (GO:0050853)|bone marrow development (GO:0048539)|cell cycle phase transition (GO:0044770)|cell surface receptor signaling pathway (GO:0007166)|defense response to virus (GO:0051607)|dephosphorylation (GO:0016311)|hematopoietic progenitor cell differentiation (GO:0002244)|immunoglobulin biosynthetic process (GO:0002378)|negative regulation of cell adhesion involved in substrate-bound cell migration (GO:0006933)|negative regulation of cytokine-mediated signaling pathway (GO:0001960)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of T cell mediated cytotoxicity (GO:0001915)|peptidyl-tyrosine dephosphorylation (GO:0035335)|positive regulation of antigen receptor-mediated signaling pathway (GO:0050857)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of hematopoietic stem cell migration (GO:2000473)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of stem cell proliferation (GO:2000648)|positive regulation of T cell proliferation (GO:0042102)|protein dephosphorylation (GO:0006470)|regulation of cell cycle (GO:0051726)|release of sequestered calcium ion into cytosol (GO:0051209)|stem cell development (GO:0048864)|T cell differentiation (GO:0030217)|T cell receptor signaling pathway (GO:0050852)	external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	protein kinase binding (GO:0019901)|protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			breast(7)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(22)|lung(41)|ovary(4)|pancreas(2)|prostate(1)|skin(13)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(3)	111						ACTAACGCAAGTAAAATTATT	0.274																																																0													75	91	85					1																	198678927		2198	4265	6463	SO:0001589	frameshift_variant	5788			Y00062	CCDS1397.1, CCDS1398.1, CCDS44291.1, CCDS1397.2, CCDS1398.2, CCDS44291.2	1q31-q32	2014-09-17			ENSG00000081237	ENSG00000081237		"CD molecules", "Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Fibronectin type III domain containing"	9666	protein-coding gene	gene with protein product		151460		CD45		2169617	Standard	NM_001267798		Approved	LCA, T200, GP180	uc001gur.2	P08575	OTTHUMG00000035702	ENST00000367376.2:c.1139delG	1.37:g.198678927delG	ENSP00000356346:p.Ser380fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7W6|Q16614|Q9H0Y6	Frame_Shift_Del	DEL	ENST00000367376.2	37																																																																																					0.274	PTPRC-202	KNOWN	basic|appris_candidate	protein_coding	protein_coding				-	198678927	G	-	198678927	7	5	587	1	0	1	0	1	0	0	0	0	12810	1029	36	0	1188	0	PTPRC	1	198678927	Frame_Shift_Del	DEL	G	TCGA-G7-6789-01A-11D-1961-08	19069885	198678927	50571694	8	34948										
LTBP1	4052	hgsc.bcm.edu	37	chr2	33172879	33172879	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	ggttcaccagaagcagcagcTgcaggggtaagcccacaccc	12	14	1	1	rs62135680	byFrequency	TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr2:33172879T>C	ENST00000404816.2	+	1	841	c.488T>C	c.(487-489)cTg>cCg	p.L163P	Y_RNA_ENST00000384224.1_RNA|LTBP1_ENST00000354476.3_Missense_Mutation_p.L163P			Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding protein 1	163					extracellular matrix organization (GO:0030198)|sequestering of TGFbeta in extracellular matrix (GO:0035583)|transmembrane receptor protein serine/threonine kinase signaling pathway (GO:0007178)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|transforming growth factor beta binding (GO:0050431)|transforming growth factor beta-activated receptor activity (GO:0005024)			breast(2)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(13)|lung(60)|ovary(4)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(3)	108	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				AAGCAGCAGCTGCAGGGGTAA	0.716													T|||	22	0.00439297	0.0	0.0	5008	,	,		8051	0.0		0.0189	False		,,,				2504	0.0031															0								T	PRO/LEU	5,3041		0,5,1518	6	6	6		488	3.5	1	2	dbSNP_129	6	61,5721		0,61,2830	yes	missense	LTBP1	NM_206943.2	98	0,66,4348	CC,CT,TT		1.055,0.1641,0.7476	possibly-damaging	163/1722	33172879	66,8762	1523	2891	4414	SO:0001583	missense	4052				CCDS33177.1, CCDS33178.1, CCDS33177.2, CCDS33178.2, CCDS54344.1, CCDS54345.1	2p22-p21	2008-05-23			ENSG00000049323	ENSG00000049323		"Latent transforming growth factor, beta binding proteins"	6714	protein-coding gene	gene with protein product	"TGF-beta1-BP-1"	150390				2350783, 11104663	Standard	NM_206943		Approved		uc021vft.1	Q14766	OTTHUMG00000152118	ENST00000404816.2:c.488T>C	2.37:g.33172879T>C	ENSP00000386043:p.Leu163Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A1L3V1|P22064|Q53SD8|Q53SF3|Q53SG1|Q59HF7|Q8TD95	Missense_Mutation	SNP	ENST00000404816.2	37	CCDS33177.2	17	0.007783882783882784	0	0.0	0	0.0	0	0.0	17	0.022427440633245383	T	20.4	3.981933	0.74474	0.001641	0.01055	ENSG00000049323	ENST00000404816;ENST00000354476	D;D	0.83992	-1.79;-1.78	4.67	3.52	0.40303	.	.	.	.	.	T	0.56124	0.1964	N	0.24115	0.695	0.80722	D	1	B	0.15930	0.015	B	0.14578	0.011	T	0.60905	-0.7170	9	0.87932	D	0	.	7.8282	0.29328	0.0:0.0979:0.0:0.9021	rs62135680	163	Q14766-4	.	P	163	ENSP00000386043:L163P;ENSP00000346467:L163P	ENSP00000346467:L163P	L	+	2	0	LTBP1	33026383	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	3.717000	0.54911	0.649000	0.30751	0.459000	0.35465	CTG		0.716	LTBP1-014	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000326227.2	NM_206943		C	33172879	T	C	33172879	3	2	587	1	0	0	0	0	1	0	0	0	9080	1580	55	3	490	3	LTBP1	2	33172879	Missense_Mutation	SNP	T	TCGA-G7-6789-01A-11D-1961-08		33172879	210026494	9	34949										
CCDC142	84865	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	74702509	74702509	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	gaccactaaaccagcatactCactaggagcactgggaggtt	10	11	1	0			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr2:74702509C>T	ENST00000393965.3	-	7	2035	c.1639G>A	c.(1639-1641)Gag>Aag	p.E547K	MRPL53_ENST00000409710.1_5'Flank|MRPL53_ENST00000258105.7_5'Flank|CCDC142_ENST00000290418.4_Missense_Mutation_p.E540K	NM_032779.3	NP_116168.3	Q17RM4	CC142_HUMAN	coiled-coil domain containing 142	547										central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(4)|ovary(1)|prostate(2)|skin(2)|urinary_tract(2)	16						CCAGCATACTCACTAGGAGCA	0.532																																																0													61	63	62					2																	74702509		2203	4300	6503	SO:0001583	missense	84865			AK075543	CCDS1945.1	2p13.1	2008-02-05			ENSG00000135637	ENSG00000135637			25889	protein-coding gene	gene with protein product							Standard	NM_032779		Approved	FLJ14397	uc002slq.3	Q17RM4	OTTHUMG00000129962	ENST00000393965.3:c.1639G>A	2.37:g.74702509C>T	ENSP00000377537:p.Glu547Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKV5|Q8NBJ3|Q8NBV2|Q96KA7	Missense_Mutation	SNP	ENST00000393965.3	37		.	.	.	.	.	.	.	.	.	.	C	12.40	1.925984	0.34002	.	.	ENSG00000135637	ENST00000393965;ENST00000290418	T;T	0.44881	0.91;0.91	4.9	3.08	0.35506	.	0.243987	0.32161	N	0.006491	T	0.50309	0.1608	M	0.68317	2.08	0.32597	N	0.526396	D;D;D	0.58268	0.982;0.982;0.982	P;P;P	0.58013	0.831;0.831;0.831	T	0.57923	-0.7727	10	0.32370	T	0.25	-6.6459	6.4852	0.22085	0.0:0.7188:0.1836:0.0976	.	547;540;547	Q17RM4;Q17RM4-2;Q17RM4-3	CC142_HUMAN;.;.	K	547;540	ENSP00000377537:E547K;ENSP00000290418:E540K	ENSP00000290418:E540K	E	-	1	0	CCDC142	74556017	1.000000	0.71417	0.998000	0.56505	0.039000	0.13416	3.184000	0.50926	0.661000	0.30985	-0.218000	0.12543	GAG		0.532	CCDC142-003	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000328391.1	NM_032779		T	74702509	C	T	74702509	3	4	587	1	0	0	0	0	1	0	0	0	2778	835	29	2	625	2	CCDC142	2	74702509	Missense_Mutation	SNP	C	TCGA-G7-6789-01A-11D-1961-08	41529630	74702509	168496864	10	34950										
POLR1B	84172	broad.mit.edu;bcgsc.ca	37	chr2	113308552	113308559	+	Frame_Shift_Del	DEL	CTTTCTTC	CTTTCTTC	-													0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	atttaccgaaaagaactgttCtttcttcctttgggatttgc							TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	CTTTCTTC	CTTTCTTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr2:113308552_113308559delCTTTCTTC	ENST00000263331.5	+	5	1315_1322	c.735_742delCTTTCTTC	c.(733-744)ttctttcttcctfs	p.FLP246fs	POLR1B_ENST00000537335.1_Frame_Shift_Del_p.FLP35fs|POLR1B_ENST00000417433.2_Frame_Shift_Del_p.FLP190fs|POLR1B_ENST00000541869.1_Frame_Shift_Del_p.FLP284fs|POLR1B_ENST00000409894.3_Frame_Shift_Del_p.FLP246fs	NM_019014.4	NP_061887.2	Q9H9Y6	RPA2_HUMAN	polymerase (RNA) I polypeptide B, 128kDa	246					gene expression (GO:0010467)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription from RNA polymerase I promoter (GO:0006360)|transcription initiation from RNA polymerase I promoter (GO:0006361)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)|metal ion binding (GO:0046872)|ribonucleoside binding (GO:0032549)			breast(3)|endometrium(9)|kidney(2)|large_intestine(9)|lung(14)|ovary(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	42						AAGAACTGTTCTTTCTTCCTTTGGGATT	0.394																																					Ovarian(16;256 576 9537 23969 41147)											0																																										SO:0001589	frameshift_variant	84172			AK001678	CCDS2097.1, CCDS46395.1, CCDS62988.1, CCDS62989.1, CCDS62990.1	2q13	2013-01-21			ENSG00000125630	ENSG00000125630		"RNA polymerase subunits"	20454	protein-coding gene	gene with protein product		602000					Standard	NM_001137604		Approved	Rpo1-2, FLJ21921, FLJ10816, RPA2	uc002thw.2	Q9H9Y6	OTTHUMG00000131314	ENST00000263331.5:c.735_742delCTTTCTTC	2.37:g.113308552_113308559delCTTTCTTC	ENSP00000263331:p.Phe246fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6Y7|B7Z823|F5GZX4|F8W898|Q2TAM4|Q585T5|Q6ZRR2|Q9H9D3	Frame_Shift_Del	DEL	ENST00000263331.5	37	CCDS2097.1																																																																																				0.394	POLR1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254083.1	NM_019014		-	113308559	CTTTCTTC	-	113308552	7	5	587	1	0	1	0	1	0	0	0	0	12217	912	32	0	753	0	POLR1B	2	113308552	Frame_Shift_Del	DEL	CTTTCTTC	TCGA-G7-6789-01A-11D-1961-08	38606043	113308552	129890821	11	34951										
ALPPL2	251	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	233272617	233272617	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	cctcgccagccggcgcctacGcccacacggtgaaccgcaac	10	20	0	1	rs145892470		TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr2:233272617G>A	ENST00000295453.3	+	5	590	c.538G>A	c.(538-540)Gcc>Acc	p.A180T		NM_031313.2	NP_112603.2	P10696	PPBN_HUMAN	alkaline phosphatase, placental-like 2	180					dephosphorylation (GO:0016311)	anchored component of membrane (GO:0031225)|plasma membrane (GO:0005886)	alkaline phosphatase activity (GO:0004035)|metal ion binding (GO:0046872)			breast(2)|kidney(1)|large_intestine(1)|liver(2)|lung(6)|skin(1)	13		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)	Amifostine(DB01143)	CGGCGCCTACGCCCACACGGT	0.627																																																0								G	THR/ALA	0,4406		0,0,2203	67	69	68		538	2.7	0.1	2	dbSNP_134	68	1,8597	1.2+/-3.3	0,1,4298	no	missense	ALPPL2	NM_031313.2	58	0,1,6501	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	180/533	233272617	1,13003	2203	4299	6502	SO:0001583	missense	251			J04948	CCDS2491.1	2q37	2008-05-20			ENSG00000163286	ENSG00000163286			441	protein-coding gene	gene with protein product		171810					Standard	NM_031313		Approved		uc002vss.4	P10696	OTTHUMG00000133257	ENST00000295453.3:c.538G>A	2.37:g.233272617G>A	ENSP00000295453:p.Ala180Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAF2|Q16727|Q53S81|Q96CM1	Missense_Mutation	SNP	ENST00000295453.3	37	CCDS2491.1	.	.	.	.	.	.	.	.	.	.	g	14.70	2.615024	0.46631	0.0	1.16E-4	ENSG00000163286	ENST00000295453	D	0.98400	-4.91	2.71	2.71	0.32032	Alkaline phosphatase-like, alpha/beta/alpha (1);Alkaline-phosphatase-like, core domain (1);	0.057529	0.64402	D	0.000002	D	0.99118	0.9696	H	0.94306	3.52	0.45005	D	0.998024	D	0.89917	1.0	D	0.77004	0.989	D	0.99047	1.0826	10	0.87932	D	0	.	13.8099	0.63256	0.0:0.0:1.0:0.0	.	180	P10696	PPBN_HUMAN	T	180	ENSP00000295453:A180T	ENSP00000295453:A180T	A	+	1	0	ALPPL2	232980861	1.000000	0.71417	0.066000	0.19879	0.144000	0.21451	5.834000	0.69361	1.499000	0.48617	0.205000	0.17691	GCC		0.627	ALPPL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257034.2	NM_031313		A	233272617	G	A	233272617	3	1	587	1	0	0	0	0	1	0	0	0	549	1087	38	1	556	1	ALPPL2	2	233272617	Missense_Mutation	SNP	G	TCGA-G7-6789-01A-11D-1961-08	119964065	233272617	9926756	12	34952										
DNAH1	25981	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	52422876	52422876	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	ggcaggagacggtggagaacCtgcagtacatgctcaacaac	13	10	1	2			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr3:52422876C>T	ENST00000420323.2	+	59	9679	c.9418C>T	c.(9418-9420)Ctg>Ttg	p.L3140L		NM_015512.4	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	3205					cilium movement (GO:0003341)|cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|response to mechanical stimulus (GO:0009612)	axonemal dynein complex (GO:0005858)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			cervix(2)|endometrium(18)|kidney(6)|large_intestine(3)|lung(31)|prostate(1)|urinary_tract(1)	62				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)		GGTGGAGAACCTGCAGTACAT	0.637																																																0													59	71	67					3																	52422876		2151	4243	6394	SO:0001819	synonymous_variant	25981			U61738	CCDS46842.1	3p21-p14	2008-02-05	2006-09-04		ENSG00000114841	ENSG00000114841		"Axonemal dyneins"	2940	protein-coding gene	gene with protein product		603332	"dynein, axonemal, heavy polypeptide 1"			8812413, 9256245	Standard	NM_015512		Approved	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11	uc011bef.2	Q9P2D7	OTTHUMG00000158378	ENST00000420323.2:c.9418C>T	3.37:g.52422876C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0I1R6|O00436|O15435|O95491|Q6ZU48|Q86YK7|Q8TEJ4|Q92863|Q9H8E6|Q9UFW6|Q9Y4Z7	Silent	SNP	ENST00000420323.2	37	CCDS46842.1																																																																																				0.637	DNAH1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350816.1	NM_015512		T	52422876	C	T	52422876	2	4	587	1	0	0	0	0	0	0	0	1	4599	680	24	2		2	DNAH1	3	52422876	Silent	SNP	C	TCGA-G7-6789-01A-11D-1961-08		52422876	145599554	13	34953										
BEND4	389206	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	42146005	42146005	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	caaaggcatccaagatcattCgactctctgaaacaaatgaa	6	10	2	3	rs200387125		TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr4:42146005C>T	ENST00000502486.1	-	3	1073	c.494G>A	c.(493-495)cGa>cAa	p.R165Q	BEND4_ENST00000504360.1_Missense_Mutation_p.R161Q	NM_207406.3	NP_997289.2	Q6ZU67	BEND4_HUMAN	BEN domain containing 4	165										NS(2)|breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(15)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	26						CAAGATCATTCGACTCTCTGA	0.413																																																0								C	GLN/ARG,GLN/ARG	0,3866		0,0,1933	30	28	28		494,494	5.9	0.9	4		28	1,8269		0,1,4134	yes	missense,missense	BEND4	NM_001159547.1,NM_207406.3	43,43	0,1,6067	TT,TC,CC		0.0121,0.0,0.0082	probably-damaging,probably-damaging	165/442,165/535	42146005	1,12135	1933	4135	6068	SO:0001583	missense	389206			AK092951	CCDS47048.1	4p13	2012-11-22	2008-10-03	2008-10-03	ENSG00000188848	ENSG00000188848		"BEN domain containing"	23815	protein-coding gene	gene with protein product			"coiled-coil domain containing 4"	CCDC4			Standard	NM_207406		Approved	FLJ35632, FLJ43965	uc003gwn.3	Q6ZU67	OTTHUMG00000160531	ENST00000502486.1:c.494G>A	4.37:g.42146005C>T	ENSP00000421169:p.Arg165Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A1A5D6|A1A5D7|C9JQZ5|Q58A26|Q58A27	Missense_Mutation	SNP	ENST00000502486.1	37	CCDS47048.1	.	.	.	.	.	.	.	.	.	.	C	29.8	5.033242	0.93575	0.0	1.21E-4	ENSG00000188848	ENST00000411720;ENST00000502486;ENST00000504360	.	.	.	5.93	5.93	0.95920	.	0.000000	0.85682	D	0.000000	T	0.73369	0.3578	L	0.32530	0.975	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.83275	0.996;0.992;0.996	T	0.74589	-0.3615	9	0.87932	D	0	-14.1289	20.3539	0.98825	0.0:1.0:0.0:0.0	.	87;165;165	Q6ZU67-3;Q6ZU67;Q6ZU67-2	.;BEND4_HUMAN;.	Q	36;165;161	.	ENSP00000412495:R36Q	R	-	2	0	BEND4	41840762	1.000000	0.71417	0.920000	0.36463	0.697000	0.40408	7.487000	0.81328	2.826000	0.97356	0.655000	0.94253	CGA		0.413	BEND4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360975.2	NM_207406		T	42146005	C	T	42146005	3	4	587	1	0	0	0	0	1	0	0	0	1400	884	31	1	1126	1	BEND4	4	42146005	Missense_Mutation	SNP	C	TCGA-G7-6789-01A-11D-1961-08		42146005	149008271	14	34954										
TMEM161B	153396	broad.mit.edu	37	chr5	87498782	87498782	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	caaatgcccatacttacaaaGggatactttctttgcccagt	6	11	1	0			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr5:87498782G>C	ENST00000296595.6	-	9	1035	c.911C>G	c.(910-912)cCt>cGt	p.P304R	TMEM161B_ENST00000511218.1_Missense_Mutation_p.P122R|TMEM161B_ENST00000509387.1_Missense_Mutation_p.P177R|TMEM161B_ENST00000512429.1_Missense_Mutation_p.P293R|TMEM161B_ENST00000514135.1_Missense_Mutation_p.P304R|TMEM161B_ENST00000506536.1_Missense_Mutation_p.P122R	NM_153354.3	NP_699185.1	Q8NDZ6	T161B_HUMAN	transmembrane protein 161B	304						integral component of membrane (GO:0016021)				endometrium(4)|large_intestine(3)|lung(9)|skin(3)|upper_aerodigestive_tract(1)	20		all_cancers(142;0.000275)|Lung NSC(167;0.00901)|all_lung(232;0.0111)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;6.24e-36)|Epithelial(54;6.8e-31)|all cancers(79;1.07e-26)		TACTTACAAAGGGATACTTTC	0.368																																																0													175	166	169					5																	87498782		2203	4300	6503	SO:0001583	missense	153396			BC037287	CCDS4065.1, CCDS75269.1, CCDS75270.1	5q14.3	2008-02-05			ENSG00000164180	ENSG00000164180			28483	protein-coding gene	gene with protein product						12477932	Standard	NM_001289008		Approved	MGC33214	uc003kjc.3	Q8NDZ6	OTTHUMG00000131323	ENST00000296595.6:c.911C>G	5.37:g.87498782G>C	ENSP00000296595:p.Pro304Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5CZH7|Q6UWQ6	Missense_Mutation	SNP	ENST00000296595.6	37	CCDS4065.1	.	.	.	.	.	.	.	.	.	.	G	23.0	4.363061	0.82353	.	.	ENSG00000164180	ENST00000514135;ENST00000296595;ENST00000506536;ENST00000511218;ENST00000512429;ENST00000509387	.	.	.	5.73	5.73	0.89815	.	0.000000	0.85682	D	0.000000	T	0.79690	0.4489	M	0.73217	2.22	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.78516	-0.2174	9	0.48119	T	0.1	.	19.8949	0.96954	0.0:0.0:1.0:0.0	.	122;304	B7Z6A5;Q8NDZ6	.;T161B_HUMAN	R	304;304;122;122;293;177	.	ENSP00000296595:P304R	P	-	2	0	TMEM161B	87534538	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	7.832000	0.86757	2.704000	0.92352	0.650000	0.86243	CCT		0.368	TMEM161B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254094.1	NM_153354		C	87498782	G	C	87498782	3	2	587	1	0	0	0	0	1	0	0	0	16089	1000	35	4	568	4	TMEM161B	5	87498782	Missense_Mutation	SNP	G	TCGA-G7-6789-01A-11D-1961-08		87498782	93416478	15	34955										
ANKS1A	23294	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	35051232	35051232	+	Silent	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	aagaagatccccaccatcatCctgtccatcacatacaaagg	5	14	2	2	rs371531749		TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr6:35051232C>A	ENST00000360359.3	+	20	3084	c.2946C>A	c.(2944-2946)atC>atA	p.I982I	ANKS1A_ENST00000535627.1_Intron	NM_015245.2	NP_056060.2	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain containing 1A	982	PID. {ECO:0000255|PROSITE- ProRule:PRU00148}.				ephrin receptor signaling pathway (GO:0048013)|neuron remodeling (GO:0016322)|substrate-dependent cell migration (GO:0006929)	cytoplasm (GO:0005737)|neuron projection (GO:0043005)|nucleus (GO:0005634)				cervix(2)|endometrium(3)|large_intestine(4)|lung(16)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	31						CCACCATCATCCTGTCCATCA	0.547																																																0													232	185	201					6																	35051232		2203	4300	6503	SO:0001819	synonymous_variant	23294			D86982	CCDS4798.1	6p21.31	2013-01-10	2006-02-17	2006-02-17	ENSG00000064999	ENSG00000064999		"Sterile alpha motif (SAM) domain containing", "Ankyrin repeat domain containing"	20961	protein-coding gene	gene with protein product		608994	"ankyrin repeat and SAM domain containing 1", "ankyrin repeat and sterile alpha motif domain containing 1"	ANKS1		9039502	Standard	NM_015245		Approved	KIAA0229	uc003ojx.4	Q92625	OTTHUMG00000014559	ENST00000360359.3:c.2946C>A	6.37:g.35051232C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2RUC1|B4DQW8|Q5JYI9|Q5SYR2|Q86WQ7	Silent	SNP	ENST00000360359.3	37	CCDS4798.1																																																																																				0.547	ANKS1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040262.1	XM_166478		A	35051232	C	A	35051232	2	1	587	1	0	0	0	0	0	0	0	1	688	845	30	4		4	ANKS1A	6	35051232	Silent	SNP	C	TCGA-G7-6789-01A-11D-1961-08		35051232	136063835	16	34956										
AHI1	54806	hgsc.bcm.edu	37	chr6	135759585	135759585	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	aggaaagatcataaatgataTtgaggtggccacacaattct	9	6	2	3			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr6:135759585T>C	ENST00000367800.4	-	13	2180	c.1964A>G	c.(1963-1965)aAt>aGt	p.N655S	AHI1_ENST00000327035.6_Missense_Mutation_p.N655S|AHI1_ENST00000457866.2_Missense_Mutation_p.N655S|AHI1_ENST00000417892.2_Missense_Mutation_p.N9S	NM_001134830.1	NP_001128302.1	Q8N157	AHI1_HUMAN	Abelson helper integration site 1	655					cellular protein localization (GO:0034613)|central nervous system development (GO:0007417)|cilium assembly (GO:0042384)|cilium morphogenesis (GO:0060271)|cloaca development (GO:0035844)|heart looping (GO:0001947)|hindbrain development (GO:0030902)|Kupffer's vesicle development (GO:0070121)|left/right axis specification (GO:0070986)|morphogenesis of a polarized epithelium (GO:0001738)|negative regulation of apoptotic process (GO:0043066)|otic vesicle development (GO:0071599)|photoreceptor cell outer segment organization (GO:0035845)|positive regulation of polarized epithelial cell differentiation (GO:0030862)|positive regulation of receptor internalization (GO:0002092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|pronephric duct morphogenesis (GO:0039023)|pronephric nephron tubule morphogenesis (GO:0039008)|protein localization to organelle (GO:0033365)|regulation of behavior (GO:0050795)|retina layer formation (GO:0010842)|specification of axis polarity (GO:0065001)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|vesicle targeting (GO:0006903)|vesicle-mediated transport (GO:0016192)	adherens junction (GO:0005912)|cell-cell junction (GO:0005911)|centriole (GO:0005814)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cilium (GO:0005929)|nonmotile primary cilium (GO:0031513)|photoreceptor outer segment (GO:0001750)|primary cilium (GO:0072372)|TCTN-B9D complex (GO:0036038)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(6)|lung(18)|ovary(1)	37	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)		ATAAATGATATTGAGGTGGCC	0.363																																																0													46	41	43					6																	135759585		1861	4090	5951	SO:0001583	missense	54806			AJ459824	CCDS47483.1, CCDS47484.1	6q23.2	2013-01-10	2005-11-29		ENSG00000135541	ENSG00000135541		"WD repeat domain containing"	21575	protein-coding gene	gene with protein product	"Jouberin"	608894	"Abelson helper integration site"			15060101, 16240161	Standard	NM_017651		Approved	FLJ20069, ORF1, JBTS3	uc003qgj.3	Q8N157	OTTHUMG00000015631	ENST00000367800.4:c.1964A>G	6.37:g.135759585T>C	ENSP00000356774:p.Asn655Ser	Somatic		WXS	Illumina HiSeq	Phase_I	E1P584|Q4FD35|Q504T3|Q5TCP9|Q6P098|Q6PIT6|Q8NDX0|Q9H0H2	Missense_Mutation	SNP	ENST00000367800.4	37	CCDS47483.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	17.42|17.42	3.384268|3.384268	0.61845|0.61845	.|.	.|.	ENSG00000135541|ENSG00000135541	ENST00000367799|ENST00000367800;ENST00000457866;ENST00000417892;ENST00000265602;ENST00000327035;ENST00000367801	.|T;T;T;T;T	.|0.57595	.|0.39;0.39;0.39;0.39;0.39	5.79|5.79	5.79|5.79	0.91817|0.91817	.|WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	.|0.050290	.|0.85682	.|D	.|0.000000	T|T	0.47783|0.47783	0.1464|0.1464	N|N	0.21545|0.21545	0.675|0.675	0.80722|0.80722	D|D	1|1	.|D;D;B	.|0.71674	.|0.997;0.998;0.145	.|D;D;B	.|0.70227	.|0.921;0.968;0.219	T|T	0.46373|0.46373	-0.9196|-0.9196	5|10	.|0.25751	.|T	.|0.34	-31.7502|-31.7502	16.1222|16.1222	0.81365|0.81365	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	.|655;655;655	.|Q8N157-2;Q8N157;Q4FD35	.|.;AHI1_HUMAN;.	V|S	155|655;655;9;655;655;655	.|ENSP00000356774:N655S;ENSP00000388650:N655S;ENSP00000416867:N9S;ENSP00000265602:N655S;ENSP00000322478:N655S	.|ENSP00000265602:N655S	I|N	-|-	1|2	0|0	AHI1|AHI1	135801278|135801278	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.979000|0.979000	0.70002|0.70002	4.305000|4.305000	0.59110|0.59110	2.215000|2.215000	0.71742|0.71742	0.528000|0.528000	0.53228|0.53228	ATA|AAT		0.363	AHI1-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391948.1	NM_017651		C	135759585	T	C	135759585	3	2	587	1	0	0	0	0	1	0	0	0	413	1493	52	3	1743	3	AHI1	6	135759585	Missense_Mutation	SNP	T	TCGA-G7-6789-01A-11D-1961-08	100708353	135759585	35355482	17	34957										
FZD1	8321	broad.mit.edu	37	chr7	90894984	90894984	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	gggcaccgtggcggcttcccGgggggcgccggcgcgtcgga	21	14	0	0			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr7:90894984G>T	ENST00000287934.2	+	1	1202	c.789G>T	c.(787-789)ccG>ccT	p.P263P		NM_003505.1	NP_003496.1	Q9UP38	FZD1_HUMAN	frizzled class receptor 1	263					autocrine signaling (GO:0035425)|axonogenesis (GO:0007409)|brain development (GO:0007420)|canonical Wnt signaling pathway (GO:0060070)|canonical Wnt signaling pathway involved in mesenchymal stem cell differentiation (GO:0044338)|canonical Wnt signaling pathway involved in osteoblast differentiation (GO:0044339)|cell-cell signaling (GO:0007267)|epithelial cell differentiation (GO:0030855)|G-protein coupled receptor signaling pathway coupled to cGMP nucleotide second messenger (GO:0007199)|gonad development (GO:0008406)|hard palate development (GO:0060022)|lung alveolus development (GO:0048286)|membranous septum morphogenesis (GO:0003149)|muscular septum morphogenesis (GO:0003150)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of catenin import into nucleus (GO:0035414)|negative regulation of transcription, DNA-templated (GO:0045892)|neuron differentiation (GO:0030182)|outflow tract morphogenesis (GO:0003151)|planar cell polarity pathway involved in neural tube closure (GO:0090179)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription, DNA-templated (GO:0045893)|response to drug (GO:0042493)|vasculature development (GO:0001944)|Wnt signaling pathway, calcium modulating pathway (GO:0007223)	apical part of cell (GO:0045177)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|neuron projection membrane (GO:0032589)|plasma membrane (GO:0005886)	frizzled binding (GO:0005109)|G-protein coupled receptor activity (GO:0004930)|PDZ domain binding (GO:0030165)|receptor binding (GO:0005102)|Wnt-activated receptor activity (GO:0042813)|Wnt-protein binding (GO:0017147)			breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(4)|liver(1)|lung(7)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	24	all_cancers(62;3.1e-10)|all_epithelial(64;1.66e-08)|Breast(17;0.000635)|Lung NSC(181;0.153)|all_lung(186;0.154)|all_hematologic(106;0.215)		STAD - Stomach adenocarcinoma(171;0.0134)			GCGGCTTCCCGGGGGGCGCCG	0.697																																																0													5	6	5					7																	90894984		2094	4109	6203	SO:0001819	synonymous_variant	8321			AB017363	CCDS5620.1	7q21	2014-01-29	2014-01-29		ENSG00000157240	ENSG00000157240		"GPCR / Class F : Frizzled receptors"	4038	protein-coding gene	gene with protein product	"Wnt receptor", "frizzled, Drosophila, homolog of, 1"	603408	"frizzled (Drosophila) homolog 1", "frizzled homolog 1 (Drosophila)", "frizzled 1, seven transmembrane spanning receptor", "frizzled family receptor 1"			9813155	Standard	NM_003505		Approved	DKFZp564G072	uc003ula.3	Q9UP38	OTTHUMG00000023046	ENST00000287934.2:c.789G>T	7.37:g.90894984G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4D1E8|O94815|Q549T8	Silent	SNP	ENST00000287934.2	37	CCDS5620.1																																																																																				0.697	FZD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059367.2	NM_003505		T	90894984	G	T	90894984	2	4	587	1	0	0	0	0	0	0	0	1	6135	1103	39	4		4	FZD1	7	90894984	Silent	SNP	G	TCGA-G7-6789-01A-11D-1961-08		90894984	68243679	18	34958										
SLC26A3	1811	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	107415276	107415276	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	tttcggattttcctcaaagcTttgttgcgcttgcgtagaat	9	8	1	1			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr7:107415276T>G	ENST00000340010.5	-	16	1903	c.1719A>C	c.(1717-1719)aaA>aaC	p.K573N	SLC26A3_ENST00000422236.2_Missense_Mutation_p.K538N	NM_000111.2	NP_000102.1	P40879	S26A3_HUMAN	solute carrier family 26 (anion exchanger), member 3	573	STAS. {ECO:0000255|PROSITE- ProRule:PRU00198}.				anion transport (GO:0006820)|cellular response to cAMP (GO:0071320)|excretion (GO:0007588)|intracellular pH elevation (GO:0051454)|ion transport (GO:0006811)|membrane hyperpolarization (GO:0060081)|regulation of RNA biosynthetic process (GO:2001141)|regulation of transcription, DNA-templated (GO:0006355)|sperm capacitation (GO:0048240)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|sperm midpiece (GO:0097225)	anion:anion antiporter activity (GO:0015301)|bicarbonate transmembrane transporter activity (GO:0015106)|chloride transmembrane transporter activity (GO:0015108)|secondary active sulfate transmembrane transporter activity (GO:0008271)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription cofactor activity (GO:0003712)|transporter activity (GO:0005215)			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(18)|ovary(4)|prostate(1)|skin(6)|upper_aerodigestive_tract(3)|urinary_tract(1)	46						TCCTCAAAGCTTTGTTGCGCT	0.393																																																0													166	145	152					7																	107415276		2203	4300	6503	SO:0001583	missense	1811			L02785	CCDS5748.1	7q31	2014-09-17	2013-07-18		ENSG00000091138	ENSG00000091138		"Solute carriers"	3018	protein-coding gene	gene with protein product		126650	"congenital chloride diarrhea", "solute carrier family 26, member 3"	DRA, CLD		8020951, 11087667	Standard	NM_000111		Approved		uc003ver.2	P40879	OTTHUMG00000154812	ENST00000340010.5:c.1719A>C	7.37:g.107415276T>G	ENSP00000345873:p.Lys573Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000340010.5	37	CCDS5748.1	.	.	.	.	.	.	.	.	.	.	T	22.0	4.232480	0.79688	.	.	ENSG00000091138	ENST00000422236;ENST00000340010	D;D	0.94793	-2.3;-3.52	6.11	3.74	0.42951	Sulphate transporter/antisigma-factor antagonist STAS (3);	0.040256	0.85682	D	0.000000	D	0.96654	0.8908	M	0.82923	2.615	0.51233	D	0.999917	D;D	0.89917	0.997;1.0	D;D	0.80764	0.951;0.994	D	0.95529	0.8601	10	0.66056	D	0.02	.	8.8658	0.35284	0.0:0.2007:0.0:0.7993	.	538;573	G5E9U3;P40879	.;S26A3_HUMAN	N	538;573	ENSP00000415817:K538N;ENSP00000345873:K573N	ENSP00000345873:K573N	K	-	3	2	SLC26A3	107202512	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	0.954000	0.29175	0.544000	0.28883	0.533000	0.62120	AAA		0.393	SLC26A3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337190.1	NM_000111		G	107415276	T	G	107415276	3	3	587	1	0	0	0	0	1	0	0	0	14531	1606	56	5	599	5	SLC26A3	7	107415276	Missense_Mutation	SNP	T	TCGA-G7-6789-01A-11D-1961-08	16520292	107415276	51723387	19	34959										
GSTK1	373156	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	142965268	142965268	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	accggatggagctgctggcgCacctgctgggtaagtaagtt	15	9	0	0			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr7:142965268C>T	ENST00000358406.5	+	7	693	c.622C>T	c.(622-624)Cac>Tac	p.H208Y	GSTK1_ENST00000479303.1_Missense_Mutation_p.H264Y|GSTK1_ENST00000409500.3_Missense_Mutation_p.H196Y|AC073342.12_ENST00000427392.1_RNA|GSTK1_ENST00000443571.2_Missense_Mutation_p.H165Y	NM_015917.2	NP_057001.1	Q9Y2Q3	GSTK1_HUMAN	glutathione S-transferase kappa 1	208					epithelial cell differentiation (GO:0030855)|glutathione metabolic process (GO:0006749)|oxidation-reduction process (GO:0055114)	extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|peroxisome (GO:0005777)	glutathione peroxidase activity (GO:0004602)|glutathione transferase activity (GO:0004364)|protein disulfide oxidoreductase activity (GO:0015035)|receptor binding (GO:0005102)			lung(4)	4	Melanoma(164;0.059)				Glutathione(DB00143)	GCTGCTGGCGCACCTGCTGGG	0.567																																																0													181	182	182					7																	142965268		2203	4300	6503	SO:0001583	missense	373156				CCDS5877.1, CCDS47730.1, CCDS47731.1, CCDS47732.1	7q34	2012-06-21			ENSG00000197448	ENSG00000197448	2.5.1.18	"Glutathione S-transferases / Mitochondrial (kappa)"	16906	protein-coding gene	gene with protein product		602321				12720545, 14742434	Standard	NM_015917		Approved	GST13	uc003wcj.3	Q9Y2Q3	OTTHUMG00000152637	ENST00000358406.5:c.622C>T	7.37:g.142965268C>T	ENSP00000351181:p.His208Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DIH1|B4DSY2|Q6P4H0|Q7Z520|Q9P1S4	Missense_Mutation	SNP	ENST00000358406.5	37	CCDS5877.1	.	.	.	.	.	.	.	.	.	.	C	4.988	0.183556	0.09495	.	.	ENSG00000197448	ENST00000409500;ENST00000443571;ENST00000358406;ENST00000479303	.	.	.	5.78	-3.58	0.04597	DSBA-like thioredoxin domain (1);Thioredoxin-like fold (1);	1.302130	0.04873	N	0.446319	T	0.28167	0.0695	N	0.25380	0.74	0.09310	N	1	B;B;B;B	0.11235	0.0;0.0;0.004;0.002	B;B;B;B	0.14578	0.003;0.005;0.011;0.004	T	0.34825	-0.9813	9	0.08837	T	0.75	-3.554	12.5207	0.56058	0.0:0.6216:0.0:0.3784	.	196;165;264;208	Q9Y2Q3-3;Q9Y2Q3-4;Q9Y2Q3-2;Q9Y2Q3	.;.;.;GSTK1_HUMAN	Y	196;165;208;264	.	ENSP00000351181:H208Y	H	+	1	0	GSTK1	142675390	0.000000	0.05858	0.003000	0.11579	0.606000	0.37113	-1.201000	0.03026	-1.038000	0.03279	-0.259000	0.10710	CAC		0.567	GSTK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327091.1	NM_015917		T	142965268	C	T	142965268	3	4	587	1	0	0	0	0	1	0	0	0	6843	710	25	2	812	2	GSTK1	7	142965268	Missense_Mutation	SNP	C	TCGA-G7-6789-01A-11D-1961-08	35549992	142965268	16173395	20	34960										
CDKN2A	1029	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	21971120	21971120	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	ggcagcgtcgtgcacgggtcGggtgagagtggcggggtcgg	23	8	0	1	rs121913388		TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr9:21971120G>A	ENST00000304494.5	-	2	508	c.238C>T	c.(238-240)Cga>Tga	p.R80*	CDKN2A_ENST00000479692.2_Nonsense_Mutation_p.R29*|CDKN2A_ENST00000361570.3_Missense_Mutation_p.P135L|CDKN2A_ENST00000498124.1_Nonsense_Mutation_p.R80*|CDKN2A_ENST00000446177.1_Nonsense_Mutation_p.R80*|CDKN2A_ENST00000579122.1_Nonsense_Mutation_p.R80*|RP11-145E5.5_ENST00000404796.2_Intron|CDKN2A_ENST00000578845.2_Nonsense_Mutation_p.R29*|CDKN2A_ENST00000530628.2_Missense_Mutation_p.P94L|CDKN2A_ENST00000497750.1_Nonsense_Mutation_p.R29*|CDKN2A_ENST00000498628.2_Nonsense_Mutation_p.R29*|CDKN2A_ENST00000579755.1_Missense_Mutation_p.P94L|CDKN2A_ENST00000494262.1_Nonsense_Mutation_p.R29*	NM_000077.4	NP_000068.1	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A	80			R -> L (in a head and neck tumor).|R -> P (in CMM2; loss of CDK4 binding). {ECO:0000269|PubMed:19260062}.		cell cycle arrest (GO:0007050)|cell cycle checkpoint (GO:0000075)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045736)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of phosphorylation (GO:0042326)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cellular senescence (GO:2000774)|positive regulation of macrophage apoptotic process (GO:2000111)|positive regulation of smooth muscle cell apoptotic process (GO:0034393)|Ras protein signal transduction (GO:0007265)|replicative senescence (GO:0090399)|senescence-associated heterochromatin focus assembly (GO:0035986)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|senescence-associated heterochromatin focus (GO:0035985)	cyclin-dependent protein serine/threonine kinase inhibitor activity (GO:0004861)|NF-kappaB binding (GO:0051059)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)	p.0?(1315)|p.R80*(100)|p.?(44)|p.P135L(7)|p.L65fs*38(1)|p.T79fs*37(1)|p.0(1)|p.A76fs*64(1)|p.T79fs*65(1)|p.E61_L94del(1)|p.A68fs*3(1)|p.R80fs*34(1)		NS(28)|adrenal_gland(6)|autonomic_ganglia(11)|biliary_tract(74)|bone(84)|breast(46)|central_nervous_system(522)|cervix(23)|endometrium(14)|eye(4)|genital_tract(15)|haematopoietic_and_lymphoid_tissue(698)|kidney(39)|large_intestine(11)|liver(92)|lung(365)|meninges(18)|oesophagus(239)|ovary(98)|pancreas(263)|pleura(94)|prostate(13)|salivary_gland(10)|skin(541)|small_intestine(1)|soft_tissue(93)|stomach(48)|thymus(4)|thyroid(24)|upper_aerodigestive_tract(436)|urinary_tract(283)|vulva(2)	4199		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)		TGCACGGGTCGGGTGAGAGTG	0.726	R80*(HSC4_UPPER_AERODIGESTIVE_TRACT)|R80*(MEWO_SKIN)	17								HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)																																						1474	Whole gene deletion(1316)|Substitution - Nonsense(100)|Unknown(44)|Substitution - Missense(7)|Deletion - Frameshift(6)|Deletion - In frame(1)	haematopoietic_and_lymphoid_tissue(298)|skin(206)|central_nervous_system(168)|lung(150)|urinary_tract(91)|bone(76)|oesophagus(72)|upper_aerodigestive_tract(63)|soft_tissue(60)|pleura(51)|pancreas(37)|ovary(36)|kidney(32)|breast(32)|biliary_tract(16)|thyroid(15)|NS(14)|stomach(14)|large_intestine(7)|autonomic_ganglia(7)|meninges(7)|liver(6)|salivary_gland(4)|thymus(4)|vulva(3)|endometrium(3)|prostate(2)	GRCh37	CM014695	CDKN2A	M	rs121913388						11	14	13					9																	21971120		2172	4246	6418	SO:0001587	stop_gained	1029			L27211	CCDS6510.1, CCDS6511.1, CCDS6511.2, CCDS56565.1	9p21	2014-09-17	2012-03-08		ENSG00000147889	ENSG00000147889			1787	protein-coding gene	gene with protein product		600160	"cyclin-dependent kinase inhibitor 2A (melanoma, p16, inhibits CDK4)"	CDKN2, MLM		8152487, 7606716	Standard	NM_058195		Approved	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf	uc003zpk.3	P42771	OTTHUMG00000019686	ENST00000304494.5:c.238C>T	9.37:g.21971120G>A	ENSP00000307101:p.Arg80*	Somatic		WXS	Illumina HiSeq	Phase_I	A5X2G7|D3DRK1|O95440|Q15191|Q5VVJ5|Q96B52|Q9NP05	Nonsense_Mutation	SNP	ENST00000304494.5	37	CCDS6510.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	39|39	7.328457|7.328457	0.98214|0.98214	.|.	.|.	ENSG00000147889|ENSG00000147889	ENST00000361570;ENST00000530628|ENST00000304494;ENST00000446177	D;D|.	0.86497|.	-2.13;-2.02|.	5.93|5.93	5.01|5.01	0.66863|0.66863	.|.	0.000000|.	0.37136|.	N|.	0.002233|.	T|.	0.44561|.	0.1299|.	L|L	0.36672|0.36672	1.1|1.1	0.47511|0.47511	D|D	0.999443|0.999443	D|.	0.59357|.	0.985|.	B|.	0.40602|.	0.334|.	T|.	0.34825|.	-0.9813|.	10|.	0.13108|0.02654	T|T	0.6|1	-2.989|-2.989	8.7197|8.7197	0.34434|0.34434	0.0759:0.0:0.7715:0.1526|0.0759:0.0:0.7715:0.1526	.|.	135|.	Q8N726|.	CD2A2_HUMAN|.	L|X	135;94|80	ENSP00000355153:P135L;ENSP00000432664:P94L|.	ENSP00000355153:P135L|ENSP00000307101:R80X	P|R	-|-	2|1	0|2	CDKN2A|CDKN2A	21961120|21961120	0.995000|0.995000	0.38212|0.38212	1.000000|1.000000	0.80357|0.80357	0.899000|0.899000	0.52679|0.52679	2.363000|2.363000	0.44178|0.44178	1.464000|1.464000	0.47987|0.47987	0.650000|0.650000	0.86243|0.86243	CCG|CGA		0.726	CDKN2A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000051915.1	NM_000077		A	21971120	G	A	21971120	4	1	587	1	0	0	0	0	0	1	0	0	3163	1125	39	1	240	1	CDKN2A	9	21971120	Nonsense_Mutation	SNP	G	TCGA-G7-6789-01A-11D-1961-08		21971120	119242311	21	34961										
BAT2L1	84726	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	134350415	134350415	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	agaagattaagcaggagctaGgggaggagagtacccggctg	17	6	0	3			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr9:134350415G>C	ENST00000357304.4	+	15	2954	c.2899G>C	c.(2899-2901)Ggg>Cgg	p.G967R	PRRC2B_ENST00000405995.1_Intron|PRRC2B_ENST00000372249.1_5'UTR|PRRC2B_ENST00000458550.1_Intron	NM_013318.3	NP_037450.2	Q5JSZ5	PRC2B_HUMAN	proline-rich coiled-coil 2B	967							poly(A) RNA binding (GO:0044822)			cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(7)|lung(20)|ovary(2)	44						GCAGGAGCTAGGGGAGGAGAG	0.582																																																0													37	42	40					9																	134350415		2050	4189	6239	SO:0001583	missense	84726			AB011087	CCDS48044.1	9q34.13	2010-12-09	2010-12-09	2010-12-09	ENSG00000130723	ENSG00000130723			28121	protein-coding gene	gene with protein product			"KIAA0515", "HLA-B associated transcript 2-like", "HLA-B associated transcript 2-like 1"	KIAA0515, BAT2L, BAT2L1		9628581	Standard	NM_013318		Approved	MGC10526, LQFBS-1	uc004can.4	Q5JSZ5	OTTHUMG00000020827	ENST00000357304.4:c.2899G>C	9.37:g.134350415G>C	ENSP00000349856:p.Gly967Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O60270|Q5JSZ7|Q66VZ2|Q68CR0|Q96EI9|Q9H683	Missense_Mutation	SNP	ENST00000357304.4	37	CCDS48044.1	.	.	.	.	.	.	.	.	.	.	G	11.07	1.531552	0.27387	.	.	ENSG00000130723	ENST00000357304;ENST00000418650	T	0.01918	4.56	5.87	4.98	0.66077	.	.	.	.	.	T	0.01627	0.0052	N	0.12182	0.205	0.80722	D	1	B;B	0.18166	0.026;0.004	B;B	0.18561	0.022;0.005	T	0.57985	-0.7716	8	.	.	.	.	9.9519	0.41645	0.152:0.0:0.848:0.0	.	263;967	Q5H9R5;Q5JSZ5	.;PRC2B_HUMAN	R	967;263	ENSP00000349856:G967R	.	G	+	1	0	PRRC2B	133340236	1.000000	0.71417	0.147000	0.22382	0.913000	0.54294	6.182000	0.71995	1.487000	0.48415	0.655000	0.94253	GGG		0.582	PRRC2B-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding				C	134350415	G	C	134350415	3	2	587	1	0	0	0	0	1	0	0	0	1320	1000	35	4	2957	4	BAT2L1	9	134350415	Missense_Mutation	SNP	G	TCGA-G7-6789-01A-11D-1961-08	112379295	134350415	6863016	22	34962										
C11orf70	85016	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	101937281	101937281	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	agctttcaatgtcattttttCatcggttatatgatgaagat	7	5	3	3			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr11:101937281C>G	ENST00000434758.2	+	4	362	c.334C>G	c.(334-336)Cat>Gat	p.H112D	C11orf70_ENST00000534360.1_Intron|C11orf70_ENST00000526781.1_Missense_Mutation_p.H112D	NM_032930.2	NP_116319.2	Q9BRQ4	CK070_HUMAN	chromosome 11 open reading frame 70	112										breast(1)|kidney(1)|lung(5)|ovary(1)|prostate(2)|skin(2)	12	all_epithelial(12;0.0137)	Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.0137)	Lung(13;0.245)	BRCA - Breast invasive adenocarcinoma(274;0.0335)		GTCATTTTTTCATCGGTTATA	0.303																																																0													107	101	103					11																	101937281		2200	4294	6494	SO:0001583	missense	85016			AK094851	CCDS8313.1, CCDS8313.2, CCDS53698.1	11q22.1	2012-05-31			ENSG00000137691	ENSG00000137691			28188	protein-coding gene	gene with protein product							Standard	NM_032930		Approved	MGC13040	uc001pgp.3	Q9BRQ4	OTTHUMG00000167320	ENST00000434758.2:c.334C>G	11.37:g.101937281C>G	ENSP00000414390:p.His112Asp	Somatic		WXS	Illumina HiSeq	Phase_I	E9PJU1	Missense_Mutation	SNP	ENST00000434758.2	37	CCDS8313.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	0.099|0.099	-1.155573|-1.155573	0.01686|0.01686	.|.	.|.	ENSG00000137691|ENSG00000137691	ENST00000529204|ENST00000434758;ENST00000526781;ENST00000423732	.|.	.|.	.|.	5.53|5.53	-5.51|-5.51	0.02568|0.02568	.|.	.|0.382417	.|0.32769	.|N	.|0.005664	T|T	0.04998|0.04998	0.0134|0.0134	N|N	0.00032|0.00032	-2.585|-2.585	0.80722|0.80722	D|D	1|1	.|B	.|0.02656	.|0.0	.|B	.|0.01281	.|0.0	T|T	0.46261|0.46261	-0.9204|-0.9204	6|9	0.87932|0.02654	D|T	0|1	-3.2945|-3.2945	9.2395|9.2395	0.37486|0.37486	0.1423:0.5247:0.3329:0.0|0.1423:0.5247:0.3329:0.0	.|.	.|112	.|Q9BRQ4	.|CK070_HUMAN	L|D	3|112;112;74	.|.	ENSP00000432322:F3L|ENSP00000392150:H74D	F|H	+|+	3|1	2|0	C11orf70|C11orf70	101442491|101442491	1.000000|1.000000	0.71417|0.71417	0.222000|0.222000	0.23844|0.23844	0.555000|0.555000	0.35460|0.35460	0.684000|0.684000	0.25364|0.25364	-0.778000|-0.778000	0.04566|0.04566	-0.474000|-0.474000	0.04947|0.04947	TTC|CAT		0.303	C11orf70-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394144.1	NM_032930		G	101937281	C	G	101937281	3	3	587	1	0	0	0	0	1	0	0	0	1661	826	29	4	230	4	C11orf70	11	101937281	Missense_Mutation	SNP	C	TCGA-G7-6789-01A-11D-1961-08		101937281	33069235	23	34963										
GYS2	2998	broad.mit.edu	37	chr12	21728873	21728873	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	ctcggtcatgataaggaatgCcgacactgcatgcttcccag	10	12	1	1			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr12:21728873C>T	ENST00000261195.2	-	3	676	c.422G>A	c.(421-423)gGc>gAc	p.G141D		NM_021957.3	NP_068776.2	P54840	GYS2_HUMAN	glycogen synthase 2 (liver)	141					carbohydrate metabolic process (GO:0005975)|generation of precursor metabolites and energy (GO:0006091)|glucose metabolic process (GO:0006006)|glycogen biosynthetic process (GO:0005978)|response to glucose (GO:0009749)|small molecule metabolic process (GO:0044281)	cell cortex (GO:0005938)|cortical actin cytoskeleton (GO:0030864)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|ectoplasm (GO:0043265)	glycogen (starch) synthase activity (GO:0004373)|glycogen synthase activity, transferring glucose-1-phosphate (GO:0061547)|protein homodimerization activity (GO:0042803)			NS(1)|breast(2)|endometrium(5)|kidney(1)|large_intestine(14)|lung(14)|prostate(6)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	48						ATAAGGAATGCCGACACTGCA	0.418																																					Colon(149;9 1820 3690 10544 50424)											0													145	132	136					12																	21728873		2203	4300	6503	SO:0001583	missense	2998				CCDS8690.1	12p12.2-p11.2	2013-02-22			ENSG00000111713	ENSG00000111713	2.4.1.11	"Glycosyltransferase group 1 domain containing"	4707	protein-coding gene	gene with protein product		138571					Standard	NM_021957		Approved		uc001rfb.3	P54840	OTTHUMG00000169135	ENST00000261195.2:c.422G>A	12.37:g.21728873C>T	ENSP00000261195:p.Gly141Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVD8	Missense_Mutation	SNP	ENST00000261195.2	37	CCDS8690.1	.	.	.	.	.	.	.	.	.	.	C	25.0	4.589443	0.86851	.	.	ENSG00000111713	ENST00000261195	T	0.68479	-0.33	5.03	5.03	0.67393	.	0.000000	0.85682	D	0.000000	T	0.69993	0.3173	L	0.37507	1.11	0.80722	D	1	P	0.51933	0.949	P	0.55545	0.778	T	0.64558	-0.6379	10	0.25106	T	0.35	-20.376	18.9212	0.92526	0.0:1.0:0.0:0.0	.	141	P54840	GYS2_HUMAN	D	141	ENSP00000261195:G141D	ENSP00000261195:G141D	G	-	2	0	GYS2	21620140	1.000000	0.71417	0.998000	0.56505	0.916000	0.54674	7.194000	0.77789	2.781000	0.95711	0.650000	0.86243	GGC		0.418	GYS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402396.1	NM_021957		T	21728873	C	T	21728873	3	4	587	1	0	0	0	0	1	0	0	0	6920	739	26	2	1745	2	GYS2	12	21728873	Missense_Mutation	SNP	C	TCGA-G7-6789-01A-11D-1961-08		21728873	112123022	24	34964										
FAR2	55711	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	29485566	29485566	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	acgtgcgccagttgaactggTtggaatacattgaaaattat	10	6	0	2			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr12:29485566T>C	ENST00000536681.3	+	11	1537	c.1291T>C	c.(1291-1293)Ttg>Ctg	p.L431L	FAR2_ENST00000182377.4_Silent_p.L431L|FAR2_ENST00000547116.1_Silent_p.L334L	NM_001271783.1|NM_001271784.1	NP_001258712.1|NP_001258713.1	Q96K12	FACR2_HUMAN	fatty acyl CoA reductase 2	431					cellular lipid metabolic process (GO:0044255)|ether lipid biosynthetic process (GO:0008611)|long-chain fatty-acyl-CoA metabolic process (GO:0035336)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|peroxisomal matrix (GO:0005782)|peroxisome (GO:0005777)	fatty-acyl-CoA reductase (alcohol-forming) activity (GO:0080019)|long-chain-fatty-acyl-CoA reductase activity (GO:0050062)			central_nervous_system(1)|endometrium(3)|large_intestine(6)|liver(2)|lung(15)|prostate(1)|stomach(1)	29						GTTGAACTGGTTGGAATACAT	0.398																																																0													92	89	90					12																	29485566		2203	4300	6503	SO:0001819	synonymous_variant	55711			AL136843	CCDS8717.1, CCDS61084.1	12p11.23	2013-07-30	2008-06-06	2008-06-06	ENSG00000064763	ENSG00000064763	1.2.1.-	"Short chain dehydrogenase/reductase superfamily / Atypical members"	25531	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 10E, member 2"		"male sterility domain containing 1"	MLSTD1		15220348, 15220349, 19027726	Standard	NM_001271783		Approved	FLJ10462, SDR10E2	uc001ris.5	Q96K12	OTTHUMG00000169320	ENST00000536681.3:c.1291T>C	12.37:g.29485566T>C		Somatic		WXS	Illumina HiSeq	Phase_I	F8VV73|Q9H0D5|Q9NVW8	Silent	SNP	ENST00000536681.3	37	CCDS8717.1																																																																																				0.398	FAR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403479.2	NM_018099		C	29485566	T	C	29485566	2	2	587	1	0	0	0	0	0	0	0	1	5682	1722	60	3		3	FAR2	12	29485566	Silent	SNP	T	TCGA-G7-6789-01A-11D-1961-08	7756693	29485566	104366329	25	34965										
TRHDE	29953	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	72680574	72680574	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	catcaagcatcaagcaacctAtttatctttatctaatatgc	3	10	4	0			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr12:72680574A>G	ENST00000261180.4	+	2	989	c.893A>G	c.(892-894)tAt>tGt	p.Y298C		NM_013381.2	NP_037513.1	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	298					cell-cell signaling (GO:0007267)|signal transduction (GO:0007165)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	aminopeptidase activity (GO:0004177)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(8)|kidney(3)|large_intestine(13)|lung(38)|ovary(2)|skin(4)|soft_tissue(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	79						CAAGCAACCTATTTATCTTTA	0.408																																																0													170	160	164					12																	72680574		2203	4300	6503	SO:0001583	missense	29953			AF126372	CCDS9004.1	12q15-q21	2012-07-25		2005-08-09		ENSG00000072657	3.4.19.6		30748	protein-coding gene	gene with protein product	"pyroglutamyl-peptidase II", "pyroglutamyl aminopeptidase II", "TRH-specific aminopeptidase"	606950				10491199, 12975309	Standard	NM_013381		Approved	PGPEP2, TRH-DE, PAP-II	uc001sxa.3	Q9UKU6		ENST00000261180.4:c.893A>G	12.37:g.72680574A>G	ENSP00000261180:p.Tyr298Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A5PL19|Q6UWJ4	Missense_Mutation	SNP	ENST00000261180.4	37	CCDS9004.1	.	.	.	.	.	.	.	.	.	.	A	19.45	3.830477	0.71258	.	.	ENSG00000072657	ENST00000261180	T	0.05025	3.51	5.93	5.93	0.95920	Peptidase M1, membrane alanine aminopeptidase, N-terminal (1);	0.000000	0.85682	D	0.000000	T	0.32224	0.0822	M	0.88450	2.955	0.58432	D	0.999999	D	0.89917	1.0	D	0.91635	0.999	T	0.17048	-1.0382	10	0.72032	D	0.01	.	16.3943	0.83563	1.0:0.0:0.0:0.0	.	298	Q9UKU6	TRHDE_HUMAN	C	298	ENSP00000261180:Y298C	ENSP00000261180:Y298C	Y	+	2	0	TRHDE	70966841	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.327000	0.79147	2.281000	0.76405	0.533000	0.62120	TAT		0.408	TRHDE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405380.1	NM_013381		G	72680574	A	G	72680574	3	3	587	1	0	0	0	0	1	0	0	0	16491	449	16	3	899	3	TRHDE	12	72680574	Missense_Mutation	SNP	A	TCGA-G7-6789-01A-11D-1961-08	43195008	72680574	61171321	26	34966										
LRRIQ1	84125	bcgsc.ca	37	chr12	85441091	85441091	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	tagacagtcttttgaggcttGgcaagagaaacagaaggaat	12	5	1	4			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr12:85441091G>T	ENST00000393217.2	+	6	582	c.521G>T	c.(520-522)tGg>tTg	p.W174L		NM_001079910.1	NP_001073379.1	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	174	Glu-rich.									breast(1)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(21)|liver(1)|lung(28)|ovary(5)|prostate(1)|skin(8)|stomach(2)|upper_aerodigestive_tract(2)	83				GBM - Glioblastoma multiforme(134;0.212)		TTTGAGGCTTGGCAAGAGAAA	0.343																																																0													76	84	81					12																	85441091		2203	4300	6503	SO:0001583	missense	84125			AK022365	CCDS41816.1	12q21	2008-02-05			ENSG00000133640	ENSG00000133640			25708	protein-coding gene	gene with protein product						11347906	Standard	NM_001079910		Approved	FLJ12303, KIAA1801	uc001tac.3	Q96JM4	OTTHUMG00000166185	ENST00000393217.2:c.521G>T	12.37:g.85441091G>T	ENSP00000376910:p.Trp174Leu	Somatic		WXS	Illumina HiSeq	Phase_1	Q567P4|Q9BS17|Q9HA36	Missense_Mutation	SNP	ENST00000393217.2	37	CCDS41816.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	21.5|21.5	4.162023|4.162023	0.78226|0.78226	.|.	.|.	ENSG00000133640|ENSG00000133640	ENST00000533414|ENST00000256007;ENST00000378580;ENST00000393217	.|D	.|0.84589	.|-1.87	5.08|5.08	5.08|5.08	0.68730|0.68730	.|.	.|0.234668	.|0.36200	.|N	.|0.002733	D|D	0.91085|0.91085	0.7194|0.7194	M|M	0.62723|0.62723	1.935|1.935	0.37344|0.37344	D|D	0.910531|0.910531	.|D;D;D	.|0.89917	.|1.0;0.998;1.0	.|D;D;D	.|0.91635	.|0.999;0.991;0.998	D|D	0.93375|0.93375	0.6738|0.6738	5|10	.|0.87932	.|D	.|0	.|.	16.2441|16.2441	0.82431|0.82431	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|174;174;174	.|Q96JM4-2;Q96JM4;C9JI57	.|.;LRIQ1_HUMAN;.	C|L	72|174	.|ENSP00000376910:W174L	.|ENSP00000256007:W174L	G|W	+|+	1|2	0|0	LRRIQ1|LRRIQ1	83965222|83965222	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.993000|0.993000	0.82548|0.82548	3.805000|3.805000	0.55575|0.55575	2.359000|2.359000	0.80004|0.80004	0.585000|0.585000	0.79938|0.79938	GGC|TGG		0.343	LRRIQ1-004	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000388249.2	NM_032165		T	85441091	G	T	85441091	3	4	587	1	0	0	0	0	1	0	0	0	9036	1357	47	4	539	4	LRRIQ1	12	85441091	Missense_Mutation	SNP	G	TCGA-G7-6789-01A-11D-1961-08	12760517	85441091	48410804	27	34967										
OR11G2	390439	broad.mit.edu	37	chr14	20666485	20666485	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	accctgtgatatatagtcttAggaacaaagatatgagaaaa	8	5	1	3			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr14:20666485A>G	ENST00000357366.3	+	1	991	c.991A>G	c.(991-993)Agg>Ggg	p.R331G		NM_001005503.1	NP_001005503.1	Q8NGC1	O11G2_HUMAN	olfactory receptor, family 11, subfamily G, member 2	331						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(3)|kidney(1)|large_intestine(4)|lung(7)|ovary(3)|pancreas(1)|skin(1)|upper_aerodigestive_tract(2)	22	all_cancers(95;0.00108)		Epithelial(56;9.76e-07)|all cancers(55;5.61e-06)	GBM - Glioblastoma multiforme(265;0.0144)		atatagtCTTAGGAACAAAGA	0.373																																																0													93	99	97					14																	20666485		2203	4300	6503	SO:0001583	missense	390439				CCDS32032.1	14q11.2	2013-09-24			ENSG00000196832	ENSG00000196832		"GPCR / Class A : Olfactory receptors"	15346	protein-coding gene	gene with protein product							Standard	NM_001005503		Approved		uc010tlb.2	Q8NGC1	OTTHUMG00000167700	ENST00000357366.3:c.991A>G	14.37:g.20666485A>G	ENSP00000349930:p.Arg331Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF09|Q96R33	Missense_Mutation	SNP	ENST00000357366.3	37	CCDS32032.1	.	.	.	.	.	.	.	.	.	.	a	16.59	3.166574	0.57476	.	.	ENSG00000196832	ENST00000357366	T	0.40476	1.03	4.94	4.94	0.65067	.	0.000000	0.51477	D	0.000085	T	0.76800	0.4038	H	0.99042	4.41	0.25750	N	0.985068	D	0.69078	0.997	D	0.65773	0.938	T	0.77099	-0.2713	10	0.87932	D	0	.	13.7206	0.62725	1.0:0.0:0.0:0.0	.	331	Q8NGC1	O11G2_HUMAN	G	331	ENSP00000349930:R331G	ENSP00000349930:R331G	R	+	1	2	OR11G2	19736325	1.000000	0.71417	0.999000	0.59377	0.992000	0.81027	5.215000	0.65241	2.077000	0.62373	0.533000	0.62120	AGG		0.373	OR11G2-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395722.1			G	20666485	A	G	20666485	3	3	587	1	0	0	0	0	1	0	0	0	10932	411	15	3	993	3	OR11G2	14	20666485	Missense_Mutation	SNP	A	TCGA-G7-6789-01A-11D-1961-08		20666485	86683055	28	34968										
SAV1	60485	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	51132011	51132012	+	Frame_Shift_Ins	INS	-	-	A													0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	ggccgctttctctgaccatcINSaaaaaaattgtctgaataat							TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr14:51132011_51132012insA	ENST00000324679.4	-	2	783_784	c.420_421insT	c.(418-423)tttgatfs	p.D141fs	RP11-248J18.2_ENST00000602954.1_RNA	NM_021818.3	NP_068590.1	Q9H4B6	SAV1_HUMAN	salvador family WW domain containing protein 1	141					hair follicle development (GO:0001942)|hippo signaling (GO:0035329)|intestinal epithelial cell differentiation (GO:0060575)|keratinocyte differentiation (GO:0030216)|lung epithelial cell differentiation (GO:0060487)|negative regulation of cardiac muscle cell proliferation (GO:0060044)|negative regulation of epithelial cell proliferation (GO:0050680)|positive regulation of apoptotic process (GO:0043065)|regulation of stem cell maintenance (GO:2000036)|ventricular septum morphogenesis (GO:0060412)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)				breast(1)|kidney(2)|lung(2)|prostate(1)	6	all_epithelial(31;0.000611)|Breast(41;0.0333)					CTCTGACCATCAAAAAAATTGT	0.396																																																0																																										SO:0001589	frameshift_variant	60485			AK023071	CCDS9701.1	14q13-q23	2014-04-14	2014-04-14		ENSG00000151748	ENSG00000151748			17795	protein-coding gene	gene with protein product	"WW domain-containing adaptor 45"	607203	"salvador homolog 1 (Drosophila)"			12202036, 11027580	Standard	NM_021818		Approved	WW45, WWP4, salvador	uc001wyh.2	Q9H4B6	OTTHUMG00000140293	ENST00000324679.4:c.421dupT	14.37:g.51132018_51132018dupA	ENSP00000324729:p.Asp141fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4B8|D3DSB6|Q6IA58|Q9H949|Q9HAK9	Nonsense_Mutation	INS	ENST00000324679.4	37	CCDS9701.1																																																																																				0.396	SAV1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276879.1			A	51132012	-	A	51132011	7	5	587	1	0	1	1	0	0	0	0	0	13869	826	29	0	746	0	SAV1	14	51132011	Frame_Shift_Ins	INS	-	TCGA-G7-6789-01A-11D-1961-08	30465526	51132011	56217529	29	34969										
FAM18B2	201158	ucsc.edu	37	chr17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	tgagcaactcacagagaagaCagacgatgattgcactgact	10	9	1	6			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr17:15457087C>T	ENST00000225576.3	-	3	247	c.152G>A	c.(151-153)tGt>tAt	p.C51Y	TVP23C_ENST00000518321.1_Missense_Mutation_p.C51Y|TVP23C_ENST00000519970.1_Intron|TVP23C_ENST00000438826.3_Missense_Mutation_p.C51Y|TVP23C_ENST00000428082.2_Missense_Mutation_p.C51Y|TVP23C-CDRT4_ENST00000522212.2_Missense_Mutation_p.C51Y|TVP23C_ENST00000584811.1_5'UTR	NM_145301.2	NP_660344.2	Q96ET8	TV23C_HUMAN	trans-golgi network vesicle protein 23 homolog C (S. cerevisiae)	51						integral component of membrane (GO:0016021)											ACAGAGAAGACAGACGATGAT	0.373																																																0													274	265	268					17																	15457087		2203	4300	6503	SO:0001583	missense	201158			BC011952	CCDS11170.1, CCDS45617.1	17p12	2012-11-29	2012-11-29	2012-11-29	ENSG00000175106	ENSG00000175106			30453	protein-coding gene	gene with protein product			"family with sequence similarity 18, member B2"	FAM18B2			Standard	NM_001135036		Approved	MGC8763	uc002goq.2	Q96ET8	OTTHUMG00000171461	ENST00000225576.3:c.152G>A	17.37:g.15457087C>T	ENSP00000225576:p.Cys51Tyr	Somatic		WXS	Illumina HiSeq		Q3LIC7	Missense_Mutation	SNP	ENST00000225576.3	37	CCDS11170.1	.	.	.	.	.	.	.	.	.	.	.	2.368	-0.344949	0.05208	.	.	ENSG00000259024;ENSG00000175106;ENSG00000175106;ENSG00000175106	ENST00000522212;ENST00000225576;ENST00000428082;ENST00000438826	T;T;T;T	0.25749	1.78;1.78;1.78;1.78	4.47	4.47	0.54385	.	0.000000	0.85682	N	0.000000	T	0.02571	0.0078	N	0.00004	-3.335	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.06405	0.0;0.0;0.002	T	0.38457	-0.9660	10	0.02654	T	1	-3.8701	9.492	0.38965	0.0:0.0877:0.0:0.9123	.	51;51;51	Q96ET8-2;Q96ET8-3;Q96ET8	.;.;F18B2_HUMAN	Y	51	ENSP00000429865:C51Y;ENSP00000225576:C51Y;ENSP00000406387:C51Y;ENSP00000413355:C51Y	ENSP00000225576:C51Y	C	-	2	0	RP11-726O12.1;FAM18B2	15397812	1.000000	0.71417	1.000000	0.80357	0.703000	0.40648	6.178000	0.71968	0.670000	0.31165	-0.442000	0.05670	TGT		0.373	TVP23C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000130705.2	NM_145301		T	15457087	C	T	15457087	3	4	587	1	0	0	0	0	1	0	0	0	5524	478	17	2	848	2	FAM18B2	17	15457087	Missense_Mutation	SNP	C	TCGA-G7-6789-01A-11D-1961-08		15457087	65738123	30	34970										
RNF213	57674	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	78355391	78355391	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	ccagtgagggatccaaaaggCtttctgcagcagcacatcct	10	12	1	1			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr17:78355391C>G	ENST00000582970.1	+	57	13985	c.13842C>G	c.(13840-13842)ggC>ggG	p.G4614G	RNF213_ENST00000336301.6_Silent_p.G2687G|CTD-2047H16.4_ENST00000575034.1_RNA|CTD-2047H16.4_ENST00000572151.1_RNA|RNF213_ENST00000508628.2_Silent_p.G4663G|CTD-2047H16.4_ENST00000573394.1_RNA	NM_001256071.1	NP_001243000.1	Q63HN8	RN213_HUMAN	ring finger protein 213	4614					ATP catabolic process (GO:0006200)|protein autoubiquitination (GO:0051865)|protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)|membrane (GO:0016020)	ATPase activity (GO:0016887)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(7)|central_nervous_system(1)|cervix(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(23)|lung(36)|ovary(11)|pancreas(2)|prostate(4)|skin(3)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	130	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			ATCCAAAAGGCTTTCTGCAGC	0.562																																																0													109	94	99					17																	78355391		2203	4300	6503	SO:0001819	synonymous_variant	57674			AK074030	CCDS58606.1	17q25.3	2013-01-09	2007-02-08	2007-02-08		ENSG00000173821		"RING-type (C3HC4) zinc fingers"	14539	protein-coding gene	gene with protein product		613768	"chromosome 17 open reading frame 27", "KIAA1618", "moyamoya disease 2", "Moyamoya disease 2"	C17orf27, KIAA1618, MYMY2		10997877, 21048783, 21799892	Standard	NM_020954		Approved	KIAA1554, NET57	uc021uen.2	Q63HN8		ENST00000582970.1:c.13842C>G	17.37:g.78355391C>G		Somatic		WXS	Illumina HiSeq	Phase_I	C9JCP4|D6RI12|F8WKS1|Q658P6|Q69YK7|Q6MZR1|Q8IWF4|Q8IZX1|Q8IZX2|Q8N406|Q8TEU0|Q9H6C9|Q9H6H9|Q9H6P3|Q9H8A9|Q9HCF4|Q9HCL8	Silent	SNP	ENST00000582970.1	37	CCDS58606.1																																																																																				0.562	RNF213-020	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000443298.1	NM_020914		G	78355391	C	G	78355391	2	3	587	1	0	0	0	0	0	0	0	1	13490	784	28	4		4	RNF213	17	78355391	Silent	SNP	C	TCGA-G7-6789-01A-11D-1961-08	62898304	78355391	2839819	31	34971										
RPRD1A	55197	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	33606995	33606995	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	taatctgccagcaacatacaCgcatcctctaccattttgga	5	13	2	0	rs202026701		TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr18:33606995C>T	ENST00000399022.4	-	6	828	c.657G>A	c.(655-657)gcG>gcA	p.A219A	RPRD1A_ENST00000588737.1_Silent_p.A183A|RPRD1A_ENST00000590898.1_Silent_p.A183A|RPRD1A_ENST00000357384.4_Silent_p.A219A|RPRD1A_ENST00000337059.5_Silent_p.A183A|RPRD1A_ENST00000319040.6_Silent_p.A219A	NM_018170.3	NP_060640.2	Q96P16	RPR1A_HUMAN	regulation of nuclear pre-mRNA domain containing 1A	219					dephosphorylation of RNA polymerase II C-terminal domain (GO:0070940)	DNA-directed RNA polymerase II, holoenzyme (GO:0016591)		p.A219A(1)		NS(1)|breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(2)|ovary(1)|urinary_tract(2)	12						GCAACATACACGCATCCTCTA	0.373																																																1	Substitution - coding silent(1)	lung(1)						C		0,4406		0,0,2203	90	85	87		657	-5.7	1	18		87	1,8597	1.2+/-3.3	0,1,4298	no	coding-synonymous	RPRD1A	NM_018170.3		0,1,6501	TT,TC,CC		0.0116,0.0,0.0077		219/313	33606995	1,13003	2203	4299	6502	SO:0001819	synonymous_variant	55197			AF419845	CCDS11917.1	18q12.2	2012-02-09	2008-08-15		ENSG00000141425	ENSG00000141425			25560	protein-coding gene	gene with protein product	"cyclin-dependent kinase 2B-inhibitor-related protein", "Cyclin-dependent kinase inhibitor 2B-related protein (p15INK4B-related protein)"	610347				12470661, 22231121	Standard	NM_018170		Approved	P15RS, FLJ10656, HsT3101	uc002kzg.3	Q96P16	OTTHUMG00000132591	ENST00000399022.4:c.657G>A	18.37:g.33606995C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8KA42|B2RBA3|Q7Z5G8|Q96FY9|Q9NVL4	Silent	SNP	ENST00000399022.4	37	CCDS11917.1																																																																																				0.373	RPRD1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255802.1	NM_018170		T	33606995	C	T	33606995	2	4	587	1	0	0	0	0	0	0	0	1	13628	523	19	1		1	RPRD1A	18	33606995	Silent	SNP	C	TCGA-G7-6789-01A-11D-1961-08		33606995	44470253	32	34972										
MED16	10025	hgsc.bcm.edu	37	chr19	879943	879943	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	ccccagcagctcaccttcccGtggctgtcaatccccaccag	7	20	2	0	rs201392672|rs76403059	byFrequency	TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr19:879943G>C	ENST00000589119.1	-	7	1346	c.1347C>G	c.(1345-1347)caC>caG	p.H449Q	MED16_ENST00000269814.4_Missense_Mutation_p.H449Q|MED16_ENST00000325464.1_Missense_Mutation_p.H449Q|MED16_ENST00000395808.3_Missense_Mutation_p.H449Q|MED16_ENST00000312090.6_Missense_Mutation_p.H449Q|MED16_ENST00000606828.1_Intron			Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	449					androgen receptor signaling pathway (GO:0030521)|gene expression (GO:0010467)|intracellular steroid hormone receptor signaling pathway (GO:0030518)|positive regulation of receptor activity (GO:2000273)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)	mediator complex (GO:0016592)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	catalytic activity (GO:0003824)|receptor activity (GO:0004872)|thyroid hormone receptor binding (GO:0046966)|thyroid hormone receptor coactivator activity (GO:0030375)|transcription coactivator activity (GO:0003713)|transcription cofactor activity (GO:0003712)|vitamin D receptor binding (GO:0042809)			NS(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(12)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	21		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)		TCACCTTCCCGTGGCTGTCAA	0.672																																																0													13	11	12					19																	879943		2152	4247	6399	SO:0001583	missense	10025			AF121228	CCDS12047.1	19p13.3	2013-01-10	2007-07-30	2007-07-30		ENSG00000175221		"WD repeat domain containing"	17556	protein-coding gene	gene with protein product		604062	"thyroid hormone receptor associated protein 5"	THRAP5		10235266, 10198638	Standard	NM_005481		Approved	DRIP92, TRAP95	uc002lqd.1	Q9Y2X0		ENST00000589119.1:c.1347C>G	19.37:g.879943G>C	ENSP00000464810:p.His449Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PJT2|Q96AD4|Q96I35|Q9Y652	Missense_Mutation	SNP	ENST00000589119.1	37	CCDS12047.1	.	.	.	.	.	.	.	.	.	.	C	3.376	-0.127462	0.06753	.	.	ENSG00000175221	ENST00000325464;ENST00000312090;ENST00000395808;ENST00000269814;ENST00000534906;ENST00000537596;ENST00000540679;ENST00000538572;ENST00000424039	T;T;T;T	0.42131	0.98;0.98;0.98;0.98	4.21	-7.89	0.01174	WD40 repeat-like-containing domain (1);	0.323237	0.32357	N	0.006220	T	0.21307	0.0513	L	0.37850	1.14	0.37741	D	0.925623	B;B;B;B;B	0.13145	0.006;0.007;0.002;0.001;0.001	B;B;B;B;B	0.14023	0.006;0.006;0.003;0.006;0.01	T	0.20009	-1.0288	10	0.15066	T	0.55	-14.2411	8.1092	0.30905	0.4704:0.1904:0.3392:0.0	.	449;449;449;449;449	Q9Y2X0-2;E7ETV0;Q9Y2X0-4;Q9Y2X0-3;Q9Y2X0	.;.;.;.;MED16_HUMAN	Q	449;449;449;449;449;305;210;208;449	ENSP00000325612:H449Q;ENSP00000308528:H449Q;ENSP00000379153:H449Q;ENSP00000269814:H449Q	ENSP00000269814:H449Q	H	-	3	2	MED16	830943	0.000000	0.05858	0.886000	0.34754	0.057000	0.15508	-3.404000	0.00482	-1.779000	0.01280	-2.326000	0.00250	CAC		0.672	MED16-006	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000457902.3	NM_005481		C	879943	G	C	879943	3	2	587	1	0	0	0	0	1	0	0	0	9441	1136	40	4	1322	4	MED16	19	879943	Missense_Mutation	SNP	G	TCGA-G7-6789-01A-11D-1961-08		879943	58249040	33	34973										
FCGBP	8857	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	40408648	40408648	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	ggcttctggaagtcatccttGgggtcgccgttgtagttccc	13	11	2	0			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr19:40408648G>C	ENST00000221347.6	-	8	4198	c.4191C>G	c.(4189-4191)ccC>ccG	p.P1397P		NM_003890.2	NP_003881.2	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein	1397	VWFD 3. {ECO:0000255|PROSITE- ProRule:PRU00580}.					extracellular vesicular exosome (GO:0070062)				NS(3)|autonomic_ganglia(1)|breast(7)|central_nervous_system(5)|endometrium(13)|kidney(9)|large_intestine(27)|lung(49)|ovary(8)|pancreas(3)|prostate(13)|skin(9)|stomach(9)|upper_aerodigestive_tract(6)|urinary_tract(3)	165	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)			AGTCATCCTTGGGGTCGCCGT	0.607																																																0													121	108	112					19																	40408648		2203	4300	6503	SO:0001819	synonymous_variant	8857			D84239		19q13.2	2013-09-20			ENSG00000090920	ENSG00000275395			13572	protein-coding gene	gene with protein product	"IgG Fc binding protein", "Human Fc gamma BP"					9182547	Standard	NM_003890		Approved	FC(GAMMA)BP	uc002omp.4	Q9Y6R7	OTTHUMG00000182580	ENST00000221347.6:c.4191C>G	19.37:g.40408648G>C		Somatic		WXS	Illumina HiSeq	Phase_I	O95784	Silent	SNP	ENST00000221347.6	37	CCDS12546.1																																																																																				0.607	FCGBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462507.1	NM_003890		C	40408648	G	C	40408648	2	2	587	1	0	0	0	0	0	0	0	1	5785	1335	47	4		4	FCGBP	19	40408648	Silent	SNP	G	TCGA-G7-6789-01A-11D-1961-08	39528705	40408648	18720335	34	34974										
FAM65C	140876	bcgsc.ca	37	chr20	49219029	49219029	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	gtctccgtgtctcgggggtcCtcagagctgaaggagtccat	14	11	3	2			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chr20:49219029C>A	ENST00000327979.2	-	13	1638	c.1227G>T	c.(1225-1227)gaG>gaT	p.E409D	FAM65C_ENST00000045083.2_Missense_Mutation_p.E409D|FAM65C_ENST00000535356.1_Missense_Mutation_p.E413D			Q96MK2	FA65C_HUMAN	family with sequence similarity 65, member C	409										endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|liver(1)|lung(12)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	29						CTCGGGGGTCCTCAGAGCTGA	0.627																																																0													41	39	40					20																	49219029		2091	4148	6239	SO:0001583	missense	140876			AL133230	CCDS13431.2	20q13.13	2011-11-24	2008-06-13	2008-06-13	ENSG00000042062	ENSG00000042062			16168	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 175", "chromosome 20 open reading frame 176"	C20orf175, C20orf176			Standard	XM_005260294		Approved	dJ530I15.2, dJ530I15.3	uc002xvm.3	Q96MK2	OTTHUMG00000032724	ENST00000327979.2:c.1227G>T	20.37:g.49219029C>A	ENSP00000332663:p.Glu409Asp	Somatic		WXS	Illumina HiSeq	Phase_1	Q5QPB6|Q9NQQ2	Missense_Mutation	SNP	ENST00000327979.2	37	CCDS13431.2	.	.	.	.	.	.	.	.	.	.	C	12.14	1.848134	0.32699	.	.	ENSG00000042062	ENST00000327979;ENST00000045083;ENST00000535356	T;T;T	0.15139	2.46;2.46;2.45	4.77	2.53	0.30540	.	0.497453	0.23202	N	0.050769	T	0.15003	0.0362	L	0.50333	1.59	0.36489	D	0.868329	B;B	0.21606	0.058;0.058	B;B	0.20184	0.028;0.028	T	0.09862	-1.0655	10	0.26408	T	0.33	-28.4224	10.6816	0.45817	0.128:0.6762:0.1958:0.0	.	413;409	F5H0X2;Q96MK2	.;FA65C_HUMAN	D	409;409;413	ENSP00000332663:E409D;ENSP00000045083:E409D;ENSP00000439802:E413D	ENSP00000045083:E409D	E	-	3	2	FAM65C	48652436	1.000000	0.71417	1.000000	0.80357	0.857000	0.48899	1.193000	0.32162	2.206000	0.71126	0.561000	0.74099	GAG		0.627	FAM65C-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257962.1			A	49219029	C	A	49219029	3	1	587	1	0	0	0	0	1	0	0	0	5608	680	24	4	1653	4	FAM65C	20	49219029	Missense_Mutation	SNP	C	TCGA-G7-6789-01A-11D-1961-08		49219029	13806491	35	34975										
SLC6A14	11254	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	115573956	115573956	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0833333333333333	3	1	1.27407886231416	1.03139717425432	1.44395604395604	1	1	0	tgtttgcttcttttcaaagtGaactaccatggaaaaattgt	7	6	2	1			TCGA-G7-6789-01A-11D-1961-08	TCGA-G7-6789-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73b0f7f3-54f1-4030-b2a9-89bb6b4e6d3e	e2d58fed-dc32-460b-aae1-c39d371dfca5	g.chrX:115573956G>A	ENST00000371900.4	+	4	536	c.448G>A	c.(448-450)Gaa>Aaa	p.E150K		NM_007231.3	NP_009162.1	Q9UN76	S6A14_HUMAN	solute carrier family 6 (amino acid transporter), member 14	150					amino acid transmembrane transport (GO:0003333)|amino acid transport (GO:0006865)|cellular amino acid metabolic process (GO:0006520)|ion transport (GO:0006811)|response to toxic substance (GO:0009636)|transmembrane transport (GO:0055085)|transport (GO:0006810)	brush border membrane (GO:0031526)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	amino acid transmembrane transporter activity (GO:0015171)|neurotransmitter:sodium symporter activity (GO:0005328)			breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(8)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(1)	23					L-Proline(DB00172)|Valaciclovir(DB00577)|Valganciclovir(DB01610)	TTTTCAAAGTGAACTACCATG	0.323																																																0													126	118	121					X																	115573956		2203	4297	6500	SO:0001583	missense	11254			AF151978	CCDS14570.1	Xq23	2013-05-22			ENSG00000087916	ENSG00000268104		"Solute carriers"	11047	protein-coding gene	gene with protein product		300444	"solute carrier family 6 (neurotransmitter transporter), member 14"			10446133	Standard	NM_007231		Approved		uc004eqi.3	Q9UN76	OTTHUMG00000022245	ENST00000371900.4:c.448G>A	X.37:g.115573956G>A	ENSP00000360967:p.Glu150Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5H942	Missense_Mutation	SNP	ENST00000371900.4	37	CCDS14570.1	.	.	.	.	.	.	.	.	.	.	G	5.346	0.249106	0.10130	.	.	ENSG00000087916	ENST00000371900	T	0.74526	-0.85	5.61	2.77	0.32553	.	0.454788	0.25045	N	0.033578	T	0.56171	0.1967	L	0.33339	1.005	0.22435	N	0.999103	B	0.02656	0.0	B	0.09377	0.004	T	0.35773	-0.9775	10	0.06625	T	0.88	.	8.3675	0.32395	0.0857:0.4534:0.4609:0.0	.	150	Q9UN76	S6A14_HUMAN	K	150	ENSP00000360967:E150K	ENSP00000360967:E150K	E	+	1	0	SLC6A14	115487984	0.371000	0.25056	0.448000	0.26945	0.981000	0.71138	1.623000	0.37008	0.143000	0.18926	-0.218000	0.12543	GAA		0.323	SLC6A14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057986.1			A	115573956	G	A	115573956	3	1	587	1	0	0	0	0	1	0	0	0	14690	1291	45	2	462	2	SLC6A14	23	115573956	Missense_Mutation	SNP	G	TCGA-G7-6789-01A-11D-1961-08		115573956	39696604	36	34976										
LOC440563	0	broad.mit.edu;bcgsc.ca	37	chr1	13183399	13183399	+	IGR	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ccactcttagaattgaagccActtttgccccttcgtgaggt	8	12	1	3			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr1:13183399A>G								RP13-221M14.3 (18931 upstream) : PRAMEF26 (32956 downstream)																							AATTGAAGCCACTTTTGCCCC	0.512																																																0													56	45	48					1																	13183399		692	1591	2283	SO:0001628	intergenic_variant	0																															1.37:g.13183399A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP		37																																																																																				0	0.512									G	13183399	A	G	13183399	1	3	588	0	1	0	0	0	0	0	0	0	8886	156	6	3		3	LOC440563	1	13183399	IGR	SNP	A	TCGA-G7-6790-01A-11D-1961-08		13183399	236067222	1	34977										
C1orf64	149563	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	16332451	16332451	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	catcagaagaccgtccccacGgctcacctgacttttgttat	7	14	2	3	rs531928100		TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr1:16332451G>C	ENST00000329454.2	+	2	188	c.120G>C	c.(118-120)acG>acC	p.T40T	RP11-5P18.5_ENST00000437156.1_RNA	NM_178840.2	NP_849162.1	Q8NEQ6	CA064_HUMAN	chromosome 1 open reading frame 64	40										breast(2)|endometrium(1)|lung(3)	6		Colorectal(325;0.000435)|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;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;3.25e-07)|COAD - Colon adenocarcinoma(227;2.08e-05)|BRCA - Breast invasive adenocarcinoma(304;9.19e-05)|Kidney(64;0.000165)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.0114)|READ - Rectum adenocarcinoma(331;0.0649)		CCGTCCCCACGGCTCACCTGA	0.562																																																0													220	231	228					1																	16332451		2203	4300	6503	SO:0001819	synonymous_variant	149563			AK127425	CCDS166.1	1p36.13	2013-10-11			ENSG00000183888	ENSG00000183888			28339	protein-coding gene	gene with protein product	"ER-related factor"					22341523	Standard	NM_178840		Approved	MGC24047, ERRF	uc001axn.3	Q8NEQ6	OTTHUMG00000009523	ENST00000329454.2:c.120G>C	1.37:g.16332451G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KXI9	Silent	SNP	ENST00000329454.2	37	CCDS166.1																																																																																				0.562	C1orf64-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026317.1	NM_178840		C	16332451	G	C	16332451	2	2	588	1	0	0	0	0	0	0	0	1	2056	1103	39	4		4	C1orf64	1	16332451	Silent	SNP	G	TCGA-G7-6790-01A-11D-1961-08	3149052	16332451	232918170	2	34978										
JAK1	3716	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	65330541	65330541	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	aatgtgagtgatttcagggaAgtaagaaaaattgttccact	10	4	1	3			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr1:65330541A>T	ENST00000342505.4	-	8	1353	c.1105T>A	c.(1105-1107)Ttc>Atc	p.F369I		NM_002227.2	NP_002218.2	P23458	JAK1_HUMAN	Janus kinase 1	369	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.				cytokine-mediated signaling pathway (GO:0019221)|enzyme linked receptor protein signaling pathway (GO:0007167)|interferon-gamma-mediated signaling pathway (GO:0060333)|interleukin-2-mediated signaling pathway (GO:0038110)|intracellular signal transduction (GO:0035556)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of interferon-gamma-mediated signaling pathway (GO:0060334)|regulation of type I interferon-mediated signaling pathway (GO:0060338)|response to antibiotic (GO:0046677)|type I interferon signaling pathway (GO:0060337)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|growth hormone receptor binding (GO:0005131)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein phosphatase binding (GO:0019903)|protein tyrosine kinase activity (GO:0004713)			breast(5)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(48)|kidney(3)|large_intestine(8)|liver(2)|lung(19)|ovary(1)|prostate(12)|skin(1)|soft_tissue(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	120				BRCA - Breast invasive adenocarcinoma(111;0.0485)	Ruxolitinib(DB08877)|Tofacitinib(DB08895)	ATTTCAGGGAAGTAAGAAAAA	0.368			Mis		ALL																																		Dom	yes		1	1p32.3-p31.3	3716	Janus kinase 1		L	0													156	150	152					1																	65330541		1885	4123	6008	SO:0001583	missense	3716			M64174	CCDS41346.1	1p32.3-p31.3	2009-07-10	2009-04-23		ENSG00000162434	ENSG00000162434	2.7.10.1		6190	protein-coding gene	gene with protein product		147795		JAK1B		1848670, 7698020	Standard	NM_002227		Approved	JAK1A, JTK3	uc001dbu.1	P23458	OTTHUMG00000009310	ENST00000342505.4:c.1105T>A	1.37:g.65330541A>T	ENSP00000343204:p.Phe369Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q59GQ2|Q9UD26	Missense_Mutation	SNP	ENST00000342505.4	37	CCDS41346.1	.	.	.	.	.	.	.	.	.	.	A	27.8	4.861730	0.91433	.	.	ENSG00000162434	ENST00000342505	T	0.21191	2.02	5.55	5.55	0.83447	FERM domain (1);	.	.	.	.	T	0.25382	0.0617	M	0.85462	2.755	0.52099	D	0.999945	D	0.53619	0.961	P	0.47206	0.541	T	0.10042	-1.0647	9	0.28530	T	0.3	-5.6269	16.0013	0.80294	1.0:0.0:0.0:0.0	.	369	P23458	JAK1_HUMAN	I	369	ENSP00000343204:F369I	ENSP00000343204:F369I	F	-	1	0	JAK1	65103129	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	8.607000	0.90891	2.247000	0.74100	0.528000	0.53228	TTC		0.368	JAK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025791.1	NM_002227		T	65330541	A	T	65330541	3	4	588	1	0	0	0	0	1	0	0	0	7944	72	3	5	2431	5	JAK1	1	65330541	Missense_Mutation	SNP	A	TCGA-G7-6790-01A-11D-1961-08	48998090	65330541	183920080	3	34979										
SLC6A17	388662	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	110738291	110738291	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ttgtcaccatgttcgatgacTactcggccaccctgccactc	7	16	1	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr1:110738291T>A	ENST00000331565.4	+	10	2061	c.1576T>A	c.(1576-1578)Tac>Aac	p.Y526N		NM_001010898.2	NP_001010898.1	Q9H1V8	S6A17_HUMAN	solute carrier family 6 (neutral amino acid transporter), member 17	526					alanine transport (GO:0032328)|glycine transport (GO:0015816)|leucine transport (GO:0015820)|neutral amino acid transport (GO:0015804)|proline transport (GO:0015824)	cell junction (GO:0030054)|integral component of plasma membrane (GO:0005887)|synaptic vesicle (GO:0008021)	neurotransmitter:sodium symporter activity (GO:0005328)			breast(1)|endometrium(4)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	37		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)		GTTCGATGACTACTCGGCCAC	0.537																																																0													107	88	94					1																	110738291		2203	4300	6503	SO:0001583	missense	388662				CCDS30799.1	1p13.2	2013-07-19	2013-07-19		ENSG00000197106	ENSG00000197106		"Solute carriers"	31399	protein-coding gene	gene with protein product		610299	"solute carrier family 6 (neurotransmitter transporter), member 17", "solute carrier family 6, member 17"				Standard	NM_001010898		Approved		uc009wfq.3	Q9H1V8	OTTHUMG00000011761	ENST00000331565.4:c.1576T>A	1.37:g.110738291T>A	ENSP00000330199:p.Tyr526Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEA8|A8K1R7|B9EIR5|Q5T5Q9	Missense_Mutation	SNP	ENST00000331565.4	37	CCDS30799.1	.	.	.	.	.	.	.	.	.	.	T	32	5.131369	0.94473	.	.	ENSG00000197106	ENST00000331565;ENST00000450985	D	0.81996	-1.56	5.65	5.65	0.86999	.	0.056027	0.64402	D	0.000001	D	0.92492	0.7616	M	0.93507	3.425	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.94407	0.7628	10	0.87932	D	0	.	15.8499	0.78921	0.0:0.0:0.0:1.0	.	526	Q9H1V8	S6A17_HUMAN	N	526	ENSP00000330199:Y526N	ENSP00000330199:Y526N	Y	+	1	0	SLC6A17	110539814	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	7.934000	0.87649	2.146000	0.66826	0.533000	0.62120	TAC		0.537	SLC6A17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032550.2	XM_371280		A	110738291	T	A	110738291	3	1	588	1	0	0	0	0	1	0	0	0	14693	1522	53	5	1610	5	SLC6A17	1	110738291	Missense_Mutation	SNP	T	TCGA-G7-6790-01A-11D-1961-08	45407750	110738291	138512330	4	34980										
SIKE1	80143	hgsc.bcm.edu;bcgsc.ca	37	chr1	115323170	115323170	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	cggcggccgcatcgtgctccCgtagcctctccagcagcgtc	12	18	1	0			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr1:115323170C>A	ENST00000060969.5	-	1	128	c.59G>T	c.(58-60)cGg>cTg	p.R20L	SIKE1_ENST00000369528.5_Missense_Mutation_p.R20L|SIKE1_ENST00000506320.1_5'UTR			Q9BRV8	SIKE1_HUMAN	suppressor of IKBKE 1	20					innate immune response (GO:0045087)	cytosol (GO:0005829)				endometrium(1)|kidney(2)|large_intestine(1)|lung(2)	6						ATCGTGCTCCCGTAGCCTCTC	0.687																																																0													22	24	23					1																	115323170		2200	4298	6498	SO:0001583	missense	80143			AK024821	CCDS878.1, CCDS41371.1	1p13.1	2009-08-13			ENSG00000052723	ENSG00000052723			26119	protein-coding gene	gene with protein product	"suppressor of IKK epsilon"	611656				16281057	Standard	NM_025073		Approved	FLJ21168, SIKE	uc001efp.4	Q9BRV8	OTTHUMG00000012061	ENST00000060969.5:c.59G>T	1.37:g.115323170C>A	ENSP00000060969:p.Arg20Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TEZ7|Q5TEZ9|Q68DZ4|Q9H778	Missense_Mutation	SNP	ENST00000060969.5	37	CCDS878.1	.	.	.	.	.	.	.	.	.	.	C	28.7	4.946346	0.92593	.	.	ENSG00000052723	ENST00000369528;ENST00000060969	.	.	.	5.39	5.39	0.77823	.	0.052522	0.64402	D	0.000001	T	0.24586	0.0596	L	0.39898	1.24	0.38578	D	0.950123	P;P	0.47191	0.891;0.8	B;B	0.41764	0.331;0.366	T	0.16247	-1.0409	9	0.48119	T	0.1	-15.9215	6.8936	0.24243	0.0:0.7981:0.0:0.2019	.	20;20	Q9BRV8-2;Q9BRV8	.;SIKE1_HUMAN	L	20	.	ENSP00000060969:R20L	R	-	2	0	SIKE1	115124693	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.668000	0.46816	2.791000	0.96007	0.655000	0.94253	CGG		0.687	SIKE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033401.1	NM_025073		A	115323170	C	A	115323170	3	1	588	1	0	0	0	0	1	0	0	0	14333	652	23	4	596	4	SIKE1	1	115323170	Missense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08	4584879	115323170	133927451	5	34981										
FCGR1A	2209	hgsc.bcm.edu	37	chr1	149755582	149755582	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ccacaaaggcagtgatcactTtgcagcctccatgggtcagc	10	13	2	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr1:149755582T>G	ENST00000369168.4	+	3	130	c.76T>G	c.(76-78)Ttg>Gtg	p.L26V	RP11-196G18.3_ENST00000428289.1_RNA|RP11-196G18.21_ENST00000420462.1_RNA|HIST2H2BF_ENST00000545683.1_Intron	NM_000566.3	NP_000557.1	P12314	FCGR1_HUMAN	Fc fragment of IgG, high affinity Ia, receptor (CD64)	26	Ig-like C2-type 1.				antibody-dependent cellular cytotoxicity (GO:0001788)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|defense response to bacterium (GO:0042742)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|immune response (GO:0006955)|innate immune response (GO:0045087)|interferon-gamma-mediated signaling pathway (GO:0060333)|intracellular signal transduction (GO:0035556)|phagocytosis, engulfment (GO:0006911)|phagocytosis, recognition (GO:0006910)|positive regulation of phagocytosis (GO:0050766)|positive regulation of type IIa hypersensitivity (GO:0001798)|positive regulation of type III hypersensitivity (GO:0001805)|receptor-mediated endocytosis (GO:0006898)|signal transduction (GO:0007165)	clathrin-coated endocytic vesicle membrane (GO:0030669)|early endosome membrane (GO:0031901)|external side of plasma membrane (GO:0009897)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	IgG receptor activity (GO:0019770)|receptor signaling protein activity (GO:0005057)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|ovary(2)	10	Breast(34;0.0124)|all_hematologic(923;0.127)				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)|Intravenous Immunoglobulin(DB00028)|Methyl aminolevulinate(DB00992)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Porfimer(DB00707)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	AGTGATCACTTTGCAGCCTCC	0.498																																																0													1	1	1					1																	149755582		647	1295	1942	SO:0001583	missense	2209			BC032634	CCDS933.1	1q21.2-q21.3	2014-09-17	2005-02-02		ENSG00000150337	ENSG00000150337		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	3613	protein-coding gene	gene with protein product		146760	"Fc fragment of IgG, high affinity Ia, receptor for (CD64)"			8697799, 9763663	Standard	NM_000566		Approved	CD64, CD64A	uc001esp.4	P12314	OTTHUMG00000012089	ENST00000369168.4:c.76T>G	1.37:g.149755582T>G	ENSP00000358165:p.Leu26Val	Somatic		WXS	Illumina HiSeq	Phase_I	P12315|Q5QNW7|Q92495|Q92663	Missense_Mutation	SNP	ENST00000369168.4	37	CCDS933.1	.	.	.	.	.	.	.	.	.	.	T	10.09	1.255432	0.22965	.	.	ENSG00000150337	ENST00000369168	T	0.12465	2.68	3.13	-0.514	0.11958	Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.40469	N	0.001099	T	0.12263	0.0298	M	0.68728	2.09	0.80722	D	1	P	0.41978	0.767	P	0.54431	0.752	T	0.06092	-1.0846	10	0.51188	T	0.08	.	5.5384	0.17023	0.0:0.4493:0.0:0.5506	.	26	P12314	FCGR1_HUMAN	V	26	ENSP00000358165:L26V	ENSP00000358165:L26V	L	+	1	2	FCGR1A	148022206	0.999000	0.42202	0.990000	0.47175	0.526000	0.34562	0.495000	0.22483	0.003000	0.14656	0.338000	0.21704	TTG		0.498	FCGR1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033446.1	NM_000566		G	149755582	T	G	149755582	3	3	588	1	0	0	0	0	1	0	0	0	5786	1838	64	5	86	5	FCGR1A	1	149755582	Missense_Mutation	SNP	T	TCGA-G7-6790-01A-11D-1961-08	34432412	149755582	99495039	6	34982										
TRIM46	80128	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	155148034	155148034	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ccccagctccgagcccacctCtcctgcctccaccccttcca	4	25	1	0			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr1:155148034C>G	ENST00000334634.4	+	2	236	c.236C>G	c.(235-237)tCt>tGt	p.S79C	TRIM46_ENST00000368383.3_Missense_Mutation_p.S79C|TRIM46_ENST00000368382.1_Missense_Mutation_p.S56C|TRIM46_ENST00000545012.1_Intron|KRTCAP2_ENST00000295682.4_5'Flank|KRTCAP2_ENST00000490672.1_5'Flank|TRIM46_ENST00000468878.1_3'UTR|TRIM46_ENST00000368385.4_Missense_Mutation_p.S79C|TRIM46_ENST00000543729.1_Missense_Mutation_p.S86C|RP11-201K10.3_ENST00000473363.2_Intron|TRIM46_ENST00000392451.2_Missense_Mutation_p.S79C	NM_001256601.1|NM_001282378.1	NP_001243530.1|NP_001269307.1	Q7Z4K8	TRI46_HUMAN	tripartite motif containing 46	79						intracellular (GO:0005622)	zinc ion binding (GO:0008270)			NS(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(4)|lung(11)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	29	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;6.62e-10)|all cancers(21;2.68e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GAGCCCACCTCTCCTGCCTCC	0.677																																																0													56	55	55					1																	155148034		2203	4300	6503	SO:0001583	missense	80128				CCDS1097.1, CCDS58033.1, CCDS60285.1, CCDS72932.1, CCDS72931.1	1q22	2013-01-09	2011-01-25		ENSG00000163462	ENSG00000163462		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	19019	protein-coding gene	gene with protein product		600986	"tripartite motif-containing 46"				Standard	NM_025058		Approved	FLJ23229, TRIFIC	uc001fhs.2	Q7Z4K8	OTTHUMG00000035680	ENST00000334634.4:c.236C>G	1.37:g.155148034C>G	ENSP00000334657:p.Ser79Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVI6|B1AVQ4|Q5VT60|Q5VT62|Q6NT17|Q6NT41|Q6ZRL7|Q9H5P2	Missense_Mutation	SNP	ENST00000334634.4	37	CCDS1097.1	.	.	.	.	.	.	.	.	.	.	C	23.7	4.448430	0.84101	.	.	ENSG00000163462	ENST00000543729;ENST00000430513;ENST00000368385;ENST00000392451;ENST00000368383;ENST00000368382;ENST00000334634	T;T;T;T;T;T	0.60672	0.75;0.5;0.69;0.42;0.17;0.23	4.53	4.53	0.55603	Zinc finger, RING-type (1);	0.348037	0.29205	N	0.012829	T	0.60856	0.2301	L	0.51422	1.61	0.47547	D	0.999457	D;B;D;D;B;D	0.89917	0.998;0.014;1.0;0.999;0.014;0.999	P;B;D;P;B;D	0.68765	0.889;0.033;0.96;0.867;0.033;0.924	T	0.58567	-0.7614	10	0.33141	T	0.24	.	15.1434	0.72630	0.0:1.0:0.0:0.0	.	66;79;66;56;79;79	F5H5Z2;Q5VT61;B7Z3S2;B1AVQ4;Q7Z4K8;Q7Z4K8-2	.;.;.;.;TRI46_HUMAN;.	C	86;66;79;79;79;56;79	ENSP00000442719:S86C;ENSP00000357369:S79C;ENSP00000376245:S79C;ENSP00000357367:S79C;ENSP00000357366:S56C;ENSP00000334657:S79C	ENSP00000334657:S79C	S	+	2	0	TRIM46	153414658	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	6.676000	0.74498	2.222000	0.72286	0.650000	0.86243	TCT		0.677	TRIM46-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086728.1	NM_025058		G	155148034	C	G	155148034	3	3	588	1	0	0	0	0	1	0	0	0	16533	913	32	4	242	4	TRIM46	1	155148034	Missense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08	5392452	155148034	94102587	7	34983										
F5	2153	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	169510915	169510916	+	Frame_Shift_Ins	INS	-	-	TT													0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ggggtctgaagtagagtgcaINStttgatcagggtcttgaatg							TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr1:169510915_169510916insTT	ENST00000367797.3	-	13	3613_3614	c.3412_3413insAA	c.(3412-3414)atgfs	p.M1138fs	F5_ENST00000367796.3_Frame_Shift_Ins_p.M1143fs	NM_000130.4	NP_000121	P12259	FA5_HUMAN	coagulation factor V (proaccelerin, labile factor)	1138	B.				blood circulation (GO:0008015)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|membrane (GO:0016020)|plasma membrane (GO:0005886)|platelet alpha granule lumen (GO:0031093)|vesicle (GO:0031982)	copper ion binding (GO:0005507)			NS(1)|breast(4)|central_nervous_system(4)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(24)|lung(55)|ovary(3)|prostate(4)|skin(5)|stomach(1)|upper_aerodigestive_tract(7)|urinary_tract(1)	128	all_hematologic(923;0.208)				ART-123(DB05777)|Drotrecogin alfa(DB00055)	AGTAGAGTGCATTTGATCAGGG	0.48																																																0																																										SO:0001589	frameshift_variant	2153			M14335	CCDS1281.1	1q23	2012-10-02			ENSG00000198734	ENSG00000198734			3542	protein-coding gene	gene with protein product		612309					Standard	NM_000130		Approved		uc001ggg.1	P12259	OTTHUMG00000034595	ENST00000367797.3:c.3411_3412dupAA	1.37:g.169510916_169510917dupTT	ENSP00000356771:p.Met1138fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6E8|Q14285|Q2EHR5|Q5R346|Q5R347|Q6UPU6|Q8WWQ6	Frame_Shift_Ins	INS	ENST00000367797.3	37	CCDS1281.1																																																																																				0.48	F5-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000083712.1	NM_000130		TT	169510916	-	TT	169510915	7	5	588	1	0	1	1	0	0	0	0	0	5350	217	8	0	3313	0	F5	1	169510915	Frame_Shift_Ins	INS	-	TCGA-G7-6790-01A-11D-1961-08	14362881	169510915	79739706	8	34984										
RC3H1	149041	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	173916659	173916660	+	Frame_Shift_Del	DEL	GT	GT	-													0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ggatgaggtcatcatcactgGtttctgctgctcttctctga							TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr1:173916659_173916660delGT	ENST00000367696.2	-	15	2935_2936	c.2584_2585delAC	c.(2584-2586)accfs	p.T862fs	RC3H1_ENST00000367694.2_Frame_Shift_Del_p.T862fs|RC3H1_ENST00000258349.4_Frame_Shift_Del_p.T862fs			Q5TC82	RC3H1_HUMAN	ring finger and CCCH-type domains 1	862					B cell homeostasis (GO:0001782)|cytoplasmic mRNA processing body assembly (GO:0033962)|lymph node development (GO:0048535)|negative regulation of activated T cell proliferation (GO:0046007)|negative regulation of B cell proliferation (GO:0030889)|negative regulation of germinal center formation (GO:0002635)|negative regulation of T-helper cell differentiation (GO:0045623)|nuclear-transcribed mRNA catabolic process (GO:0000956)|positive regulation of NIK/NF-kappaB signaling (GO:1901224)|posttranscriptional regulation of gene expression (GO:0010608)|protein ubiquitination (GO:0016567)|regulation of germinal center formation (GO:0002634)|regulation of mRNA stability (GO:0043488)|regulation of T cell receptor signaling pathway (GO:0050856)|spleen development (GO:0048536)|T cell homeostasis (GO:0043029)|T cell proliferation (GO:0042098)|T follicular helper cell differentiation (GO:0061470)	cytoplasmic mRNA processing body (GO:0000932)|cytoplasmic stress granule (GO:0010494)	mRNA 3'-UTR binding (GO:0003730)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(7)|lung(20)|ovary(2)|pancreas(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(4)|urinary_tract(1)	50						ATCATCACTGGTTTCTGCTGCT	0.45																																																0																																										SO:0001589	frameshift_variant	149041			AK093501	CCDS30940.1, CCDS72987.1	1q25.1	2013-01-18	2010-09-15		ENSG00000135870	ENSG00000135870		"RING-type (C3HC4) zinc fingers", "Zinc fingers, CCCH-type domain containing"	29434	protein-coding gene	gene with protein product	"KIAA2025 protein"	609424	"ring finger and CCCH-type zinc finger domains 1"			15917799	Standard	XM_005244918		Approved	KIAA2025, roquin, RP5-1198E17.5, RNF198	uc001gju.4	Q5TC82	OTTHUMG00000037275	ENST00000367696.2:c.2584_2585delAC	1.37:g.173916659_173916660delGT	ENSP00000356669:p.Thr862fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVK1|Q5W180|Q5W181|Q8IVE6|Q8N9V1	Frame_Shift_Del	DEL	ENST00000367696.2	37	CCDS30940.1																																																																																				0.45	RC3H1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090733.2	NM_172071		-	173916660	GT	-	173916659	7	5	588	1	0	1	0	1	0	0	0	0	13179	1261	44	0	840	0	RC3H1	1	173916659	Frame_Shift_Del	DEL	GT	TCGA-G7-6790-01A-11D-1961-08	4405744	173916659	75333962	9	34985										
GRHL1	29841	broad.mit.edu;bcgsc.ca	37	chr2	10130855	10130855	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gaaaatcagggatgaagaacGaaagcaaagcaaaagaaaag	11	4	1	3			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr2:10130855G>A	ENST00000324907.9	+	10	1437	c.1301G>A	c.(1300-1302)cGa>cAa	p.R434Q	GRHL1_ENST00000324883.5_Missense_Mutation_p.R245Q|GRHL1_ENST00000405379.2_Missense_Mutation_p.R434Q	NM_198182.2	NP_937825.2	Q9NZI5	GRHL1_HUMAN	grainyhead-like 1 (Drosophila)	434					cellular lipid metabolic process (GO:0044255)|multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)			cervix(1)|endometrium(1)|large_intestine(2)|lung(8)|ovary(1)|pancreas(1)|skin(1)|stomach(1)|urinary_tract(1)	17	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.246)		GATGAAGAACGAAAGCAAAGC	0.418																																																0													114	99	104					2																	10130855		2203	4300	6503	SO:0001583	missense	29841			AF198489	CCDS33144.1, CCDS33144.2	2p25.2	2008-02-05	2005-07-11	2005-07-11	ENSG00000134317	ENSG00000134317			17923	protein-coding gene	gene with protein product		609786	"transcription factor CP2-like 2"	TFCP2L2		10644752, 12393799	Standard	NM_198182		Approved	LBP-32, MGR	uc002raa.3	Q9NZI5	OTTHUMG00000151704	ENST00000324907.9:c.1301G>A	2.37:g.10130855G>A	ENSP00000324693:p.Arg434Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLA4|B2R7E4|B5MEC2|Q53T93|Q6NWN7|Q6NWN8|Q6NWN9|Q8NI33	Missense_Mutation	SNP	ENST00000324907.9	37	CCDS33144.2	.	.	.	.	.	.	.	.	.	.	G	27.3	4.817681	0.90790	.	.	ENSG00000134317	ENST00000405379;ENST00000324883;ENST00000324907	T;T;T	0.18016	2.24;2.24;2.24	5.76	5.76	0.90799	CP2 transcription factor (1);	0.000000	0.85682	D	0.000000	T	0.45617	0.1351	M	0.73598	2.24	0.58432	D	0.999999	D;D	0.89917	0.999;1.0	D;D	0.74674	0.961;0.984	T	0.35822	-0.9773	10	0.72032	D	0.01	-7.5436	19.9574	0.97228	0.0:0.0:1.0:0.0	.	245;434	Q9NZI5-2;Q9NZI5	.;GRHL1_HUMAN	Q	434;245;434	ENSP00000384209:R434Q;ENSP00000324494:R245Q;ENSP00000324693:R434Q	ENSP00000324494:R245Q	R	+	2	0	GRHL1	10048306	1.000000	0.71417	1.000000	0.80357	0.801000	0.45260	7.066000	0.76734	2.715000	0.92844	0.561000	0.74099	CGA		0.418	GRHL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323543.2	NM_014552		A	10130855	G	A	10130855	3	1	588	1	0	0	0	0	1	0	0	0	6770	1058	37	1	1339	1	GRHL1	2	10130855	Missense_Mutation	SNP	G	TCGA-G7-6790-01A-11D-1961-08		10130855	233068518	10	34986										
GREB1	9687	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	11706688	11706688	+	Frame_Shift_Del	DEL	G	G	-													0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	cctgcgggctttctcctcgtGggggtcaagtcccccagcct							TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr2:11706688delG	ENST00000381486.2	+	4	660	c.360delG	c.(358-360)gtgfs	p.V120fs	GREB1_ENST00000381483.2_Frame_Shift_Del_p.V120fs|GREB1_ENST00000389825.3_Frame_Shift_Del_p.V10fs|GREB1_ENST00000234142.5_Frame_Shift_Del_p.V120fs|GREB1_ENST00000263834.5_Frame_Shift_Del_p.V120fs	NM_014668.3	NP_055483.2	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	120						integral component of membrane (GO:0016021)				breast(3)|central_nervous_system(2)|endometrium(2)|kidney(4)|large_intestine(9)|lung(9)|ovary(1)	30	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		TTCTCCTCGTGGGGGTCAAGT	0.597																																					Ovarian(39;850 945 2785 23371 33093)											0													98	91	93					2																	11706688		2203	4300	6503	SO:0001589	frameshift_variant	9687				CCDS33146.1, CCDS33147.1, CCDS42655.1	2p25.1	2010-02-17	2009-09-10		ENSG00000196208	ENSG00000196208			24885	protein-coding gene	gene with protein product	"gene regulated by estrogen in breast cancer"	611736				11103799	Standard	NM_014668		Approved	KIAA0575	uc002rbk.1	Q4ZG55	OTTHUMG00000141276	ENST00000381486.2:c.360delG	2.37:g.11706688delG	ENSP00000370896:p.Val120fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHD0|A6NKN0|B5MDA9|O60321|Q7Z5S2|Q9H2Q6|Q9H2Q7|Q9H2Q8	Frame_Shift_Del	DEL	ENST00000381486.2	37	CCDS42655.1																																																																																				0.597	GREB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280490.1	NM_014668		-	11706688	G	-	11706688	7	5	588	1	0	1	0	1	0	0	0	0	6767	1335	47	0	370	0	GREB1	2	11706688	Frame_Shift_Del	DEL	G	TCGA-G7-6790-01A-11D-1961-08	1575833	11706688	231492685	11	34987										
GREB1	9687	hgsc.bcm.edu;broad.mit.edu	37	chr2	11758729	11758729	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	tgccggcacgtgggtcctgcAggcctcccagtgctccttga	13	15	0	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr2:11758729A>G	ENST00000381486.2	+	22	4028	c.3728A>G	c.(3727-3729)cAg>cGg	p.Q1243R	GREB1_ENST00000234142.5_Missense_Mutation_p.Q1243R|GREB1_ENST00000396123.1_Missense_Mutation_p.Q241R	NM_014668.3	NP_055483.2	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1243						integral component of membrane (GO:0016021)				breast(3)|central_nervous_system(2)|endometrium(2)|kidney(4)|large_intestine(9)|lung(9)|ovary(1)	30	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		TGGGTCCTGCAGGCCTCCCAG	0.652																																					Ovarian(39;850 945 2785 23371 33093)											0													24	27	26					2																	11758729		2170	4247	6417	SO:0001583	missense	9687				CCDS33146.1, CCDS33147.1, CCDS42655.1	2p25.1	2010-02-17	2009-09-10		ENSG00000196208	ENSG00000196208			24885	protein-coding gene	gene with protein product	"gene regulated by estrogen in breast cancer"	611736				11103799	Standard	NM_014668		Approved	KIAA0575	uc002rbk.1	Q4ZG55	OTTHUMG00000141276	ENST00000381486.2:c.3728A>G	2.37:g.11758729A>G	ENSP00000370896:p.Gln1243Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHD0|A6NKN0|B5MDA9|O60321|Q7Z5S2|Q9H2Q6|Q9H2Q7|Q9H2Q8	Missense_Mutation	SNP	ENST00000381486.2	37	CCDS42655.1	.	.	.	.	.	.	.	.	.	.	A	13.72	2.322801	0.41096	.	.	ENSG00000196208	ENST00000381486;ENST00000234142;ENST00000396123	T;T;T	0.25579	3.12;3.12;1.79	4.79	4.79	0.61399	.	0.429519	0.25958	N	0.027219	T	0.27454	0.0674	L	0.56769	1.78	0.36790	D	0.884798	B	0.30709	0.291	B	0.27715	0.082	T	0.30534	-0.9975	10	0.56958	D	0.05	-42.3953	14.313	0.66429	1.0:0.0:0.0:0.0	.	1243	Q4ZG55	GREB1_HUMAN	R	1243;1243;241	ENSP00000370896:Q1243R;ENSP00000234142:Q1243R;ENSP00000379429:Q241R	ENSP00000234142:Q1243R	Q	+	2	0	GREB1	11676180	1.000000	0.71417	0.906000	0.35671	0.930000	0.56654	3.610000	0.54125	1.802000	0.52723	0.445000	0.29226	CAG		0.652	GREB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280490.1	NM_014668		G	11758729	A	G	11758729	3	3	588	1	0	0	0	0	1	0	0	0	6767	188	7	3	3918	3	GREB1	2	11758729	Missense_Mutation	SNP	A	TCGA-G7-6790-01A-11D-1961-08	52041	11758729	231440644	12	34988										
NBAS	51594	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr2	15691634	15691634	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	taccttgacatttcccaataAtggatgtaaaatcatctttt	4	8	2	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr2:15691634A>G	ENST00000281513.5	-	6	387	c.362T>C	c.(361-363)aTt>aCt	p.I121T	NBAS_ENST00000441750.1_Missense_Mutation_p.I121T	NM_015909.3	NP_056993.2	A2RRP1	NBAS_HUMAN	neuroblastoma amplified sequence	121					negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:2000623)|nuclear-transcribed mRNA catabolic process (GO:0000956)	cytoplasm (GO:0005737)|membrane (GO:0016020)				NS(4)|breast(4)|central_nervous_system(3)|endometrium(6)|kidney(5)|large_intestine(12)|liver(1)|lung(54)|ovary(2)|pancreas(3)|prostate(9)|skin(6)|stomach(3)	112						TTTCCCAATAATGGATGTAAA	0.299																																																0													41	40	41					2																	15691634		2201	4297	6498	SO:0001583	missense	51594			BC051792	CCDS1685.1	2p24.3	2009-02-23			ENSG00000151779	ENSG00000151779			15625	protein-coding gene	gene with protein product		608025				9926938, 12706883	Standard	NM_015909		Approved	NAG	uc002rcc.2	A2RRP1	OTTHUMG00000121153	ENST00000281513.5:c.362T>C	2.37:g.15691634A>G	ENSP00000281513:p.Ile121Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O95790|Q2VPJ7|Q53TK6|Q86V39|Q8NFY8|Q9Y3W5	Missense_Mutation	SNP	ENST00000281513.5	37	CCDS1685.1	.	.	.	.	.	.	.	.	.	.	A	9.005	0.980968	0.18812	.	.	ENSG00000151779	ENST00000441750;ENST00000281513	T;T	0.52526	0.66;0.66	5.66	5.66	0.87406	Quinoprotein amine dehydrogenase, beta chain-like (1);	0.283763	0.33854	N	0.004482	T	0.36026	0.0952	N	0.21448	0.665	0.23657	N	0.997182	B	0.06786	0.001	B	0.06405	0.002	T	0.36065	-0.9763	10	0.87932	D	0	.	13.4276	0.61035	1.0:0.0:0.0:0.0	.	121	A2RRP1	NBAS_HUMAN	T	121	ENSP00000413201:I121T;ENSP00000281513:I121T	ENSP00000281513:I121T	I	-	2	0	NBAS	15609085	1.000000	0.71417	0.995000	0.50966	0.472000	0.32918	4.934000	0.63491	2.144000	0.66660	0.477000	0.44152	ATT		0.299	NBAS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241638.1	NM_015909		G	15691634	A	G	15691634	3	3	588	1	0	0	0	0	1	0	0	0	10193	101	4	3	6941	3	NBAS	2	15691634	Missense_Mutation	SNP	A	TCGA-G7-6790-01A-11D-1961-08	3932905	15691634	227507739	13	34989										
LTBP1	4052	hgsc.bcm.edu	37	chr2	33172879	33172879	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ggttcaccagaagcagcagcTgcaggggtaagcccacaccc	12	14	1	1	rs62135680	byFrequency	TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr2:33172879T>C	ENST00000404816.2	+	1	841	c.488T>C	c.(487-489)cTg>cCg	p.L163P	Y_RNA_ENST00000384224.1_RNA|LTBP1_ENST00000354476.3_Missense_Mutation_p.L163P			Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding protein 1	163					extracellular matrix organization (GO:0030198)|sequestering of TGFbeta in extracellular matrix (GO:0035583)|transmembrane receptor protein serine/threonine kinase signaling pathway (GO:0007178)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|transforming growth factor beta binding (GO:0050431)|transforming growth factor beta-activated receptor activity (GO:0005024)			breast(2)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(13)|lung(60)|ovary(4)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(3)	108	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				AAGCAGCAGCTGCAGGGGTAA	0.716													T|||	22	0.00439297	0.0	0.0	5008	,	,		8051	0.0		0.0189	False		,,,				2504	0.0031															0								T	PRO/LEU	5,3041		0,5,1518	6	6	6		488	3.5	1	2	dbSNP_129	6	61,5721		0,61,2830	yes	missense	LTBP1	NM_206943.2	98	0,66,4348	CC,CT,TT		1.055,0.1641,0.7476	possibly-damaging	163/1722	33172879	66,8762	1523	2891	4414	SO:0001583	missense	4052				CCDS33177.1, CCDS33178.1, CCDS33177.2, CCDS33178.2, CCDS54344.1, CCDS54345.1	2p22-p21	2008-05-23			ENSG00000049323	ENSG00000049323		"Latent transforming growth factor, beta binding proteins"	6714	protein-coding gene	gene with protein product	"TGF-beta1-BP-1"	150390				2350783, 11104663	Standard	NM_206943		Approved		uc021vft.1	Q14766	OTTHUMG00000152118	ENST00000404816.2:c.488T>C	2.37:g.33172879T>C	ENSP00000386043:p.Leu163Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A1L3V1|P22064|Q53SD8|Q53SF3|Q53SG1|Q59HF7|Q8TD95	Missense_Mutation	SNP	ENST00000404816.2	37	CCDS33177.2	17	0.007783882783882784	0	0.0	0	0.0	0	0.0	17	0.022427440633245383	T	20.4	3.981933	0.74474	0.001641	0.01055	ENSG00000049323	ENST00000404816;ENST00000354476	D;D	0.83992	-1.79;-1.78	4.67	3.52	0.40303	.	.	.	.	.	T	0.56124	0.1964	N	0.24115	0.695	0.80722	D	1	B	0.15930	0.015	B	0.14578	0.011	T	0.60905	-0.7170	9	0.87932	D	0	.	7.8282	0.29328	0.0:0.0979:0.0:0.9021	rs62135680	163	Q14766-4	.	P	163	ENSP00000386043:L163P;ENSP00000346467:L163P	ENSP00000346467:L163P	L	+	2	0	LTBP1	33026383	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	3.717000	0.54911	0.649000	0.30751	0.459000	0.35465	CTG		0.716	LTBP1-014	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000326227.2	NM_206943		C	33172879	T	C	33172879	3	2	588	1	0	0	0	0	1	0	0	0	9080	1580	55	3	490	3	LTBP1	2	33172879	Missense_Mutation	SNP	T	TCGA-G7-6790-01A-11D-1961-08	17481245	33172879	210026494	14	34990										
SMEK2	57223	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	55812212	55812212	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	cactctgctgagcttcttgcAttacaaactctcggaccata	6	13	3	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr2:55812212A>G	ENST00000345102.5	-	7	1509	c.1208T>C	c.(1207-1209)aTg>aCg	p.M403T	SMEK2_ENST00000407823.3_Missense_Mutation_p.M403T|SMEK2_ENST00000272313.5_Missense_Mutation_p.M403T	NM_001122964.1	NP_001116436	Q5MIZ7	P4R3B_HUMAN	SMEK homolog 2, suppressor of mek1 (Dictyostelium)	403					positive regulation of gluconeogenesis (GO:0045722)|protein dephosphorylation (GO:0006470)|regulation of lipid metabolic process (GO:0019216)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)|protein phosphatase 4 complex (GO:0030289)				kidney(1)|large_intestine(4)|liver(1)|lung(7)|ovary(1)|prostate(1)|skin(1)	16			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			AGCTTCTTGCATTACAAACTC	0.368																																																0													114	111	112					2																	55812212		2203	4300	6503	SO:0001583	missense	57223			AB037808	CCDS1855.1, CCDS46289.1, CCDS62913.1	2p16.1	2008-09-15			ENSG00000138041				29267	protein-coding gene	gene with protein product		610352				16085932, 18614045	Standard	NM_001122964		Approved	PSY2, FLFL2, KIAA1387, FLJ31474	uc002rzc.3	Q5MIZ7	OTTHUMG00000129336	ENST00000345102.5:c.1208T>C	2.37:g.55812212A>G	ENSP00000339769:p.Met403Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P9B0|Q86XB8|Q9BQJ0|Q9BRK2|Q9H913|Q9P2G0	Missense_Mutation	SNP	ENST00000345102.5	37	CCDS46289.1	.	.	.	.	.	.	.	.	.	.	A	17.19	3.325891	0.60743	.	.	ENSG00000138041	ENST00000272313;ENST00000407823;ENST00000345102	T;T;T	0.40225	1.04;1.04;1.04	5.8	5.8	0.92144	Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.46852	0.1414	M	0.66939	2.045	0.80722	D	1	B;B;B;B	0.25850	0.018;0.136;0.002;0.136	B;B;B;B	0.30782	0.071;0.082;0.005;0.12	T	0.40979	-0.9534	10	0.44086	T	0.13	-11.8434	16.134	0.81465	1.0:0.0:0.0:0.0	.	403;403;403;403	Q5MIZ7-2;Q5MIZ7;Q5MIZ7-3;B4DKA9	.;P4R3B_HUMAN;.;.	T	403	ENSP00000272313:M403T;ENSP00000385912:M403T;ENSP00000339769:M403T	ENSP00000272313:M403T	M	-	2	0	SMEK2	55665716	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.339000	0.96797	2.216000	0.71823	0.528000	0.53228	ATG		0.368	SMEK2-002	NOVEL	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000251483.1	NM_020463		G	55812212	A	G	55812212	3	3	588	1	0	0	0	0	1	0	0	0	14807	217	8	3	1385	3	SMEK2	2	55812212	Missense_Mutation	SNP	A	TCGA-G7-6790-01A-11D-1961-08	22639333	55812212	187387161	15	34991										
GAD1	2571	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	171687570	171687570	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ttgatcgctccaccaaggtgCtggactttcatcacccacac	7	15	2	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr2:171687570C>T	ENST00000358196.3	+	5	965	c.415C>T	c.(415-417)Ctg>Ttg	p.L139L	GAD1_ENST00000344257.5_Silent_p.L139L|GAD1_ENST00000375272.1_Silent_p.L139L|GAD1_ENST00000429023.1_3'UTR	NM_000817.2	NP_000808.2	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 (brain, 67kDa)	139					gamma-aminobutyric acid biosynthetic process (GO:0009449)|glutamate catabolic process (GO:0006538)|glutamate decarboxylation to succinate (GO:0006540)|neurotransmitter biosynthetic process (GO:0042136)|neurotransmitter secretion (GO:0007269)|protein-pyridoxal-5-phosphate linkage (GO:0018352)|response to drug (GO:0042493)|synaptic transmission (GO:0007268)	clathrin-sculpted gamma-aminobutyric acid transport vesicle membrane (GO:0061202)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|vesicle membrane (GO:0012506)	glutamate binding (GO:0016595)|glutamate decarboxylase activity (GO:0004351)|pyridoxal phosphate binding (GO:0030170)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(11)|lung(15)|ovary(1)|urinary_tract(2)	35						CACCAAGGTGCTGGACTTTCA	0.547																																																0													114	99	104					2																	171687570		2203	4300	6503	SO:0001819	synonymous_variant	2571				CCDS2239.1, CCDS2240.1	2q31	2008-02-05	2002-08-29		ENSG00000128683	ENSG00000128683	4.1.1.15		4092	protein-coding gene	gene with protein product		605363	"glutamate decarboxylase 1 (brain, 67kD)"	GAD		1549570	Standard	XM_005246443		Approved		uc002ugi.3	Q99259	OTTHUMG00000044175	ENST00000358196.3:c.415C>T	2.37:g.171687570C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q49AK1|Q53TQ7|Q9BU91|Q9UHH4	Silent	SNP	ENST00000358196.3	37	CCDS2239.1																																																																																				0.547	GAD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000102664.2			T	171687570	C	T	171687570	2	4	588	1	0	0	0	0	0	0	0	1	6186	796	28	2		2	GAD1	2	171687570	Silent	SNP	C	TCGA-G7-6790-01A-11D-1961-08	115875358	171687570	71511803	16	34992										
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	179419674	179419674	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	tagcatccactattaaggcgAtcggcatctttgatgagtat	9	8	1	2			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr2:179419674A>G	ENST00000591111.1	-	281	83813	c.83589T>C	c.(83587-83589)gaT>gaC	p.D27863D	TTN_ENST00000460472.2_Silent_p.D20439D|TTN-AS1_ENST00000586707.1_RNA|TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000592750.1_RNA|TTN-AS1_ENST00000586452.1_RNA|TTN_ENST00000359218.5_Silent_p.D20564D|TTN_ENST00000342992.6_Silent_p.D26936D|TTN-AS1_ENST00000419746.1_RNA|TTN_ENST00000342175.6_Silent_p.D20631D|TTN-AS1_ENST00000592689.1_RNA|TTN_ENST00000589042.1_Silent_p.D29504D|TTN-AS1_ENST00000590932.1_RNA|TTN-AS1_ENST00000592630.1_RNA|TTN-AS1_ENST00000438095.1_RNA|TTN-AS1_ENST00000456053.1_RNA|TTN-AS1_ENST00000592600.1_RNA|TTN-AS1_ENST00000586831.1_RNA|TTN-AS1_ENST00000591332.1_RNA|TTN-AS1_ENST00000590807.1_RNA			Q8WZ42	TITIN_HUMAN	titin	27863	Ig-like 130.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TATTAAGGCGATCGGCATCTT	0.423																																																0													90	86	87					2																	179419674		1936	4131	6067	SO:0001819	synonymous_variant	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.83589T>C	2.37:g.179419674A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Silent	SNP	ENST00000591111.1	37																																																																																					0.423	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		G	179419674	A	G	179419674	2	3	588	1	0	0	0	0	0	0	0	1	16747	330	12	3		3	TTN	2	179419674	Silent	SNP	A	TCGA-G7-6790-01A-11D-1961-08	7732104	179419674	63779699	17	34993										
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	179650834	179650834	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ggtctactgcagcaacaactGttgctacagcttcagccttt	8	12	2	0			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr2:179650834G>C	ENST00000591111.1	-	14	2335	c.2111C>G	c.(2110-2112)aCa>aGa	p.T704R	TTN_ENST00000460472.2_Missense_Mutation_p.T658R|TTN_ENST00000360870.5_Missense_Mutation_p.T704R|TTN_ENST00000359218.5_Missense_Mutation_p.T658R|TTN_ENST00000342992.6_Missense_Mutation_p.T704R|TTN_ENST00000342175.6_Missense_Mutation_p.T658R|TTN_ENST00000589042.1_Missense_Mutation_p.T704R			Q8WZ42	TITIN_HUMAN	titin	0					adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGCAACAACTGTTGCTACAGC	0.493																																																0													53	55	54					2																	179650834		2203	4300	6503	SO:0001583	missense	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.2111C>G	2.37:g.179650834G>C	ENSP00000465570:p.Thr704Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	G	16.74	3.207756	0.58343	.	.	ENSG00000155657	ENST00000342992;ENST00000460472;ENST00000342175;ENST00000359218;ENST00000356127;ENST00000360870;ENST00000436599	T;T;T;T;T;T	0.70399	-0.48;-0.26;-0.26;-0.27;0.29;0.24	5.99	5.99	0.97316	Ribonuclease H-like (1);	.	.	.	.	T	0.80303	0.4598	L	0.36672	1.1	0.43574	D	0.995901	D;D;D;D;D	0.89917	0.999;0.999;0.999;0.999;1.0	D;D;D;D;D	0.91635	0.996;0.996;0.996;0.996;0.999	T	0.80732	-0.1251	9	0.87932	D	0	.	20.4777	0.99188	0.0:0.0:1.0:0.0	.	658;658;658;704;704	D3DPF9;E7EQE6;E7ET18;Q8WZ42;Q8WZ42-6	.;.;.;TITIN_HUMAN;.	R	704;658;658;658;658;704;208	ENSP00000343764:T704R;ENSP00000434586:T658R;ENSP00000340554:T658R;ENSP00000352154:T658R;ENSP00000354117:T704R;ENSP00000405517:T208R	ENSP00000340554:T658R	T	-	2	0	TTN	179359079	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	7.402000	0.79972	2.840000	0.97914	0.655000	0.94253	ACA		0.493	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		C	179650834	G	C	179650834	3	2	588	1	0	0	0	0	1	0	0	0	16747	1377	48	4	109273	4	TTN	2	179650834	Missense_Mutation	SNP	G	TCGA-G7-6790-01A-11D-1961-08	231160	179650834	63548539	18	34994										
ZNF804A	91752	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	185801068	185801068	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ccttcattttgcaagtttcaActtcagttatcttctgatgc	5	10	5	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr2:185801068A>G	ENST00000302277.6	+	4	1539	c.945A>G	c.(943-945)caA>caG	p.Q315Q		NM_194250.1	NP_919226.1	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	315							metal ion binding (GO:0046872)			NS(5)|breast(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(22)|liver(2)|lung(79)|ovary(7)|pancreas(1)|prostate(2)|skin(12)|urinary_tract(1)	146						GCAAGTTTCAACTTCAGTTAT	0.333																																																0													33	32	33					2																	185801068		2203	4296	6499	SO:0001819	synonymous_variant	91752			AF052145	CCDS2291.1	2q32.1	2012-10-05	2006-10-27	2006-10-27	ENSG00000170396	ENSG00000170396			21711	protein-coding gene	gene with protein product		612282		C2orf10		12970790	Standard	NM_194250		Approved		uc002uph.3	Q7Z570	OTTHUMG00000132625	ENST00000302277.6:c.945A>G	2.37:g.185801068A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A7E253|Q6ZN26	Silent	SNP	ENST00000302277.6	37	CCDS2291.1																																																																																				0.333	ZNF804A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255871.1	NM_194250		G	185801068	A	G	185801068	2	3	588	1	0	0	0	0	0	0	0	1	18182	40	2	3		3	ZNF804A	2	185801068	Silent	SNP	A	TCGA-G7-6790-01A-11D-1961-08	6150234	185801068	57398305	19	34995										
RUFY4	285180	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	218938568	218938568	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ctccagttccacccaaacccAgggaaggagacccagaaaaa	8	14	0	2			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr2:218938568A>T	ENST00000344321.7	+	8	1078	c.560A>T	c.(559-561)cAg>cTg	p.Q187L	RUFY4_ENST00000441828.2_Silent_p.P151P|RUFY4_ENST00000463872.1_Intron|RUFY4_ENST00000374155.3_Missense_Mutation_p.Q187L	NM_198483.3	NP_940885.2	Q6ZNE9	RUFY4_HUMAN	RUN and FYVE domain containing 4	187							metal ion binding (GO:0046872)			endometrium(2)|kidney(2)|large_intestine(4)|pancreas(1)|upper_aerodigestive_tract(1)	10		Renal(207;0.0915)		Epithelial(149;4.11e-06)|all cancers(144;0.000519)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		ACCCAAACCCAGGGAAGGAGA	0.562											OREG0015195	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													77	86	83					2																	218938568		1983	4166	6149	SO:0001583	missense	285180			AK128393		2q35	2007-01-29			ENSG00000188282	ENSG00000188282		"Zinc fingers, FYVE domain containing"	24804	protein-coding gene	gene with protein product							Standard	NM_198483		Approved	FLJ46536	uc010fvl.2	Q6ZNE9	OTTHUMG00000155235	ENST00000344321.7:c.560A>T	2.37:g.218938568A>T	ENSP00000345900:p.Gln187Leu	Somatic	2255	WXS	Illumina HiSeq	Phase_I	Q6ZR96	Missense_Mutation	SNP	ENST00000344321.7	37		.	.	.	.	.	.	.	.	.	.	A	8.780	0.927938	0.18056	.	.	ENSG00000188282	ENST00000344321;ENST00000374155	T;T	0.48836	1.44;0.8	3.8	-1.56	0.08532	.	1.202910	0.06250	N	0.691990	T	0.25382	0.0617	L	0.27053	0.805	0.09310	N	0.999999	B	0.33694	0.421	B	0.29267	0.1	T	0.10543	-1.0625	10	0.07644	T	0.81	-1.2143	3.9675	0.09437	0.4544:0.1956:0.35:0.0	.	187	Q6ZNE9	RUFY4_HUMAN	L	187	ENSP00000345900:Q187L;ENSP00000363270:Q187L	ENSP00000345900:Q187L	Q	+	2	0	RUFY4	218646813	0.084000	0.21492	0.030000	0.17652	0.036000	0.12997	0.189000	0.17037	-0.380000	0.07894	0.482000	0.46254	CAG		0.562	RUFY4-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_198483		T	218938568	A	T	218938568	3	4	588	1	0	0	0	0	1	0	0	0	13754	188	7	5	582	5	RUFY4	2	218938568	Missense_Mutation	SNP	A	TCGA-G7-6790-01A-11D-1961-08	33137500	218938568	24260805	20	34996										
COL6A3	1293	broad.mit.edu	37	chr2	238277277	238277277	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	cggagggtccaaacgagttcAtgattctttcttctatgttg	10	8	4	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr2:238277277A>G	ENST00000295550.4	-	10	5281	c.4829T>C	c.(4828-4830)aTg>aCg	p.M1610T	COL6A3_ENST00000346358.4_Missense_Mutation_p.M1410T|COL6A3_ENST00000409809.1_Missense_Mutation_p.M1404T|COL6A3_ENST00000472056.1_Missense_Mutation_p.M1003T|COL6A3_ENST00000353578.4_Missense_Mutation_p.M1404T|COL6A3_ENST00000347401.3_Missense_Mutation_p.M1409T	NM_004369.3	NP_004360.2	P12111	CO6A3_HUMAN	collagen, type VI, alpha 3	1610	Nonhelical region.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|muscle organ development (GO:0007517)|response to glucose (GO:0009749)	collagen type VI trimer (GO:0005589)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)|sarcolemma (GO:0042383)|vesicle (GO:0031982)	serine-type endopeptidase inhibitor activity (GO:0004867)			breast(6)|central_nervous_system(7)|cervix(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(13)|large_intestine(64)|lung(62)|ovary(14)|pancreas(2)|prostate(11)|skin(14)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(4)	217		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)		AAACGAGTTCATGATTCTTTC	0.547																																																0													118	112	114					2																	238277277		2203	4300	6503	SO:0001583	missense	1293			X52022	CCDS33409.1, CCDS33410.1, CCDS33411.1, CCDS33412.1, CCDS33410.2, CCDS33411.2, CCDS54439.1	2q37	2014-09-17			ENSG00000163359	ENSG00000163359		"Collagens"	2213	protein-coding gene	gene with protein product		120250				1339440, 11992252	Standard	NM_004369		Approved		uc002vwl.2	P12111	OTTHUMG00000150020	ENST00000295550.4:c.4829T>C	2.37:g.238277277A>G	ENSP00000295550:p.Met1610Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8MT30|B4E3U5|B7ZMJ7|E9PFQ6|E9PGQ9|Q16501|Q53QF4|Q53QF6	Missense_Mutation	SNP	ENST00000295550.4	37	CCDS33412.1	.	.	.	.	.	.	.	.	.	.	A	6.501	0.460572	0.12342	.	.	ENSG00000163359	ENST00000295550;ENST00000347401;ENST00000353578;ENST00000472056;ENST00000409809;ENST00000346358	T;T;T;T;T;T	0.77098	-1.07;-1.07;-1.07;-1.07;-1.07;-1.07	5.69	4.52	0.55395	.	0.789008	0.11541	N	0.553748	T	0.63212	0.2492	N	0.16368	0.405	0.09310	N	1	P;B;B	0.34757	0.467;0.409;0.005	B;B;B	0.37422	0.17;0.249;0.006	T	0.51663	-0.8677	10	0.26408	T	0.33	.	7.117	0.25423	0.6357:0.1219:0.0:0.2424	.	1003;1404;1610	E9PFQ6;P12111-2;P12111	.;.;CO6A3_HUMAN	T	1610;1409;1404;1003;1404;1410	ENSP00000295550:M1610T;ENSP00000315609:M1409T;ENSP00000315873:M1404T;ENSP00000418285:M1003T;ENSP00000386844:M1404T;ENSP00000295546:M1410T	ENSP00000295550:M1610T	M	-	2	0	COL6A3	237942016	0.528000	0.26314	0.001000	0.08648	0.004000	0.04260	4.745000	0.62125	0.963000	0.38082	0.533000	0.62120	ATG		0.547	COL6A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000315790.2	NM_004369		G	238277277	A	G	238277277	3	3	588	1	0	0	0	0	1	0	0	0	3703	217	8	3	4844	3	COL6A3	2	238277277	Missense_Mutation	SNP	A	TCGA-G7-6790-01A-11D-1961-08	19338709	238277277	4922096	21	34997										
PODXL2	50512	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	127379599	127379599	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gagcagcatggggcccagctTgctgctgccttcagtcaccc	12	15	2	0			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr3:127379599T>A	ENST00000342480.6	+	3	767	c.728T>A	c.(727-729)tTg>tAg	p.L243*		NM_015720.2	NP_056535.1	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2	243					leukocyte tethering or rolling (GO:0050901)	integral component of plasma membrane (GO:0005887)	glycosaminoglycan binding (GO:0005539)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(1)|large_intestine(4)|lung(12)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	26						GGGCCCAGCTTGCTGCTGCCT	0.647																																																0													51	57	55					3																	127379599		2203	4300	6503	SO:0001587	stop_gained	50512			AF219137	CCDS3044.1	3q21.3	2005-02-18			ENSG00000114631	ENSG00000114631			17936	protein-coding gene	gene with protein product	"endoglycan"					10722749	Standard	NM_015720		Approved	PODLX2, endoglycan	uc003ejq.3	Q9NZ53	OTTHUMG00000159642	ENST00000342480.6:c.728T>A	3.37:g.127379599T>A	ENSP00000345359:p.Leu243*	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UVY4|Q8WUV6	Nonsense_Mutation	SNP	ENST00000342480.6	37	CCDS3044.1	.	.	.	.	.	.	.	.	.	.	T	13.31	2.198338	0.38806	.	.	ENSG00000114631	ENST00000342480;ENST00000302192	.	.	.	4.67	-0.49	0.12049	.	0.719396	0.11780	N	0.530317	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-0.0789	7.8382	0.29382	0.0:0.3596:0.0:0.6404	.	.	.	.	X	243	.	ENSP00000304498:L243X	L	+	2	0	PODXL2	128862289	0.001000	0.12720	0.001000	0.08648	0.181000	0.23173	0.600000	0.24104	-0.256000	0.09473	0.402000	0.26972	TTG		0.647	PODXL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356638.1	NM_015720		A	127379599	T	A	127379599	4	1	588	1	0	0	0	0	0	1	0	0	12188	1821	63	5	738	5	PODXL2	3	127379599	Nonsense_Mutation	SNP	T	TCGA-G7-6790-01A-11D-1961-08		127379599	70642831	22	34998										
XRN1	54464	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	142123863	142123863	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	cactatgttggtttcttttcCtctcttcctttttgagggag	8	9	2	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr3:142123863C>G	ENST00000264951.4	-	16	1886	c.1769G>C	c.(1768-1770)aGg>aCg	p.R590T	XRN1_ENST00000392981.2_Missense_Mutation_p.R590T|RNU6-1294P_ENST00000515995.1_RNA	NM_019001.3	NP_061874.3	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1	590					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay (GO:0043928)|gene expression (GO:0010467)|histone mRNA catabolic process (GO:0071044)|mRNA metabolic process (GO:0016071)|nuclear mRNA surveillance (GO:0071028)|nuclear-transcribed mRNA catabolic process (GO:0000956)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|RNA metabolic process (GO:0016070)|rRNA catabolic process (GO:0016075)	cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|membrane (GO:0016020)	5'-3' exonuclease activity (GO:0008409)|DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(3)|endometrium(6)|kidney(12)|large_intestine(11)|liver(1)|lung(17)|ovary(3)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	61						GTTTCTTTTCCTCTCTTCCTT	0.408																																																0													162	148	152					3																	142123863		2203	4300	6503	SO:0001583	missense	54464			AY137776	CCDS3123.1, CCDS63801.1, CCDS75028.1	3q23	2008-02-05			ENSG00000114127	ENSG00000114127			30654	protein-coding gene	gene with protein product		607994				12515382	Standard	XM_005247544		Approved	SEP1	uc003eus.3	Q8IZH2	OTTHUMG00000159251	ENST00000264951.4:c.1769G>C	3.37:g.142123863C>G	ENSP00000264951:p.Arg590Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0S3|Q68D88|Q6AI24|Q6MZS8|Q86WS7|Q8N8U4|Q9UF39	Missense_Mutation	SNP	ENST00000264951.4	37	CCDS3123.1	.	.	.	.	.	.	.	.	.	.	C	13.86	2.363718	0.41902	.	.	ENSG00000114127	ENST00000264951;ENST00000392981	T;T	0.26373	1.74;1.74	5.53	2.35	0.29111	.	0.408805	0.27109	N	0.020895	T	0.15825	0.0381	L	0.31664	0.95	0.80722	D	1	B;P;B	0.34800	0.067;0.469;0.417	B;B;B	0.33121	0.024;0.158;0.142	T	0.05599	-1.0875	10	0.40728	T	0.16	-9.364	7.0395	0.25013	0.0:0.5382:0.0:0.4618	.	451;590;590	B3KW17;Q8IZH2-2;Q8IZH2	.;.;XRN1_HUMAN	T	590	ENSP00000264951:R590T;ENSP00000376707:R590T	ENSP00000264951:R590T	R	-	2	0	XRN1	143606553	1.000000	0.71417	0.999000	0.59377	0.961000	0.63080	1.245000	0.32790	0.691000	0.31592	-0.145000	0.13849	AGG		0.408	XRN1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000354087.2	NM_019001		G	142123863	C	G	142123863	3	3	588	1	0	0	0	0	1	0	0	0	17471	681	24	4	3459	4	XRN1	3	142123863	Missense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08	14744264	142123863	55898567	23	34999										
CHRD	8646	hgsc.bcm.edu	37	chr3	184098193	184098193	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ccggcccgcggcgccggcccAgagccccccgtgctgcccat	13	22	0	1	rs1920128		TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr3:184098193A>C	ENST00000204604.1	+	1	333	c.87A>C	c.(85-87)ccA>ccC	p.P29P	THPO_ENST00000204615.7_5'Flank|THPO_ENST00000445696.2_5'Flank|CHRD_ENST00000545352.1_5'Flank|CHRD_ENST00000348986.3_Silent_p.P29P|CHRD_ENST00000450923.1_Silent_p.P29P|EIF2B5_ENST00000444495.1_Intron|CHRD_ENST00000310236.3_Silent_p.P29P	NM_003741.2	NP_003732.2	Q9H2X0	CHRD_HUMAN	chordin	29					BMP signaling pathway involved in spinal cord dorsal/ventral patterning (GO:0021919)|floor plate development (GO:0033504)|forebrain development (GO:0030900)|gastrulation with mouth forming second (GO:0001702)|mesoderm formation (GO:0001707)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of cell migration (GO:0030336)|negative regulation of osteoblast differentiation (GO:0045668)|osteoblast differentiation (GO:0001649)|positive regulation of cell adhesion (GO:0045785)|positive regulation of mesenchymal cell proliferation (GO:0002053)|skeletal system development (GO:0001501)	extracellular space (GO:0005615)	cytokine binding (GO:0019955)|heparin binding (GO:0008201)			NS(1)|biliary_tract(1)|breast(2)|endometrium(2)|kidney(3)|large_intestine(5)|lung(23)|ovary(2)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	48	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			gcgccggcccAGAGCCCCCCG	0.796																																																0													1	1	1					3																	184098193		283	643	926	SO:0001819	synonymous_variant	8646			AF076612	CCDS3266.1	3q27	2008-07-18			ENSG00000090539	ENSG00000090539			1949	protein-coding gene	gene with protein product		603475				9782094, 11472837	Standard	NM_003741		Approved		uc003fov.3	Q9H2X0	OTTHUMG00000141267	ENST00000204604.1:c.87A>C	3.37:g.184098193A>C		Somatic		WXS	Illumina HiSeq	Phase_I	O95254|Q2M1I8|Q6UW83|Q9H2D3|Q9H2W8|Q9H2W9|Q9P0Z2|Q9P0Z3|Q9P0Z4|Q9P0Z5	Silent	SNP	ENST00000204604.1	37	CCDS3266.1																																																																																				0.796	CHRD-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000280432.1	NM_003741		C	184098193	A	C	184098193	2	2	588	1	0	0	0	0	0	0	0	1	3374	175	7	5		5	CHRD	3	184098193	Silent	SNP	A	TCGA-G7-6790-01A-11D-1961-08	41974330	184098193	13924237	24	35000										
FRYL	285527	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	48578146	48578147	+	Missense_Mutation	DNP	TG	TG	CT													0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gtggaagatgacgatgttgcTgcactgcagcaaaggatcag							TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr4:48578146_48578147TG>CT	ENST00000503238.1	-	21	2620_2621	c.2621_2622CA>AG	c.(2620-2622)gCA>gAG	p.A874E	FRYL_ENST00000507711.1_Missense_Mutation_p.A874E|FRYL_ENST00000264319.7_5'UTR|FRYL_ENST00000537810.1_Missense_Mutation_p.A874E|RNU5E-3P_ENST00000515913.1_RNA|FRYL_ENST00000358350.4_Missense_Mutation_p.A874E			O94915	FRYL_HUMAN	FRY-like	874					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)					breast(2)|central_nervous_system(2)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(21)|lung(38)|ovary(1)|pancreas(1)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	91						ACGATGTTGCTGCACTGCAGCA	0.47																																																0																																										SO:0001583	missense	285527			AL833170	CCDS43227.1	4p12	2011-08-03	2006-11-17	2005-11-24	ENSG00000075539	ENSG00000075539			29127	protein-coding gene	gene with protein product			"KIAA0826", "furry homolog-like (Drosophila)"	KIAA0826		10048485	Standard	NM_015030		Approved	DKFZp686E205	uc003gyh.1	O94915	OTTHUMG00000160608	ENST00000503238.1:c.2621_2622delinsCT	4.37:g.48578146_48578147delinsCT	ENSP00000426064:p.Ala874Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O95640|Q8WTZ5|Q9NT40	Missense_Mutation	DNP	ENST00000503238.1	37	CCDS43227.1																																																																																				0.47	FRYL-011	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000369265.2			CT	48578147	TG	CT	48578146	3	2	588	1	0	0	0	0	1	0	0	0	6071	1567	55	3	6583	3	FRYL	4	48578146	Missense_Mutation	DNP	TG	TCGA-G7-6790-01A-11D-1961-08		48578146	142576130	25	35001	265	2								
FRYL	285527	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	48578148	48578148	+	Missense_Mutation	SNP	C	C	T													0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ggaagatgacgatgttgctgCactgcagcaaaggatcagat							TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr4:48578148C>T	ENST00000503238.1	-	21	2619	c.2620G>A	c.(2620-2622)Gca>Aca	p.A874T	FRYL_ENST00000507711.1_Missense_Mutation_p.A874T|FRYL_ENST00000264319.7_5'UTR|FRYL_ENST00000537810.1_Missense_Mutation_p.A874T|RNU5E-3P_ENST00000515913.1_RNA|FRYL_ENST00000358350.4_Missense_Mutation_p.A874T			O94915	FRYL_HUMAN	FRY-like	874					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)					breast(2)|central_nervous_system(2)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(21)|lung(38)|ovary(1)|pancreas(1)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	91						GATGTTGCTGCACTGCAGCAA	0.468																																																0													122	124	124					4																	48578148		1943	4148	6091	SO:0001583	missense	285527			AL833170	CCDS43227.1	4p12	2011-08-03	2006-11-17	2005-11-24	ENSG00000075539	ENSG00000075539			29127	protein-coding gene	gene with protein product			"KIAA0826", "furry homolog-like (Drosophila)"	KIAA0826		10048485	Standard	NM_015030		Approved	DKFZp686E205	uc003gyh.1	O94915	OTTHUMG00000160608	ENST00000503238.1:c.2620G>A	4.37:g.48578148C>T	ENSP00000426064:p.Ala874Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O95640|Q8WTZ5|Q9NT40	Missense_Mutation	SNP	ENST00000503238.1	37	CCDS43227.1	.	.	.	.	.	.	.	.	.	.	C	15.58	2.875024	0.51695	.	.	ENSG00000075539	ENST00000503238;ENST00000358350;ENST00000537810;ENST00000507711	T;T;T;T	0.34859	2.35;2.35;2.35;1.34	5.14	5.14	0.70334	.	0.163703	0.41001	U	0.000974	T	0.19685	0.0473	N	0.08118	0	0.80722	D	1	B;B	0.25441	0.043;0.126	B;B	0.24701	0.011;0.055	T	0.09707	-1.0662	10	0.02654	T	1	.	18.6027	0.91255	0.0:1.0:0.0:0.0	.	874;874	F2Z2S2;O94915	.;FRYL_HUMAN	T	874	ENSP00000426064:A874T;ENSP00000351113:A874T;ENSP00000441114:A874T;ENSP00000421584:A874T	ENSP00000351113:A874T	A	-	1	0	FRYL	48272905	1.000000	0.71417	0.894000	0.35097	0.417000	0.31264	4.730000	0.62015	2.370000	0.80446	0.467000	0.42956	GCA		0.468	FRYL-011	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000369265.2			T	48578148	C	T	48578148	3	4	588	1	0	0	0	0	1	0	0	0	6071	710	25	2	6585	2	FRYL	4	48578148	Missense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08	2	48578148	142576128	26	35002	265	2								
SHROOM3	57619	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	77675996	77675996	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	cagcccctgattttgcaaacCtgaagcactatcaaaaacag	6	12	1	2			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr4:77675996C>A	ENST00000296043.6	+	7	5313	c.4360C>A	c.(4360-4362)Ctg>Atg	p.L1454M	RP11-359D14.2_ENST00000452412.1_RNA	NM_020859.3	NP_065910.3	Q8TF72	SHRM3_HUMAN	shroom family member 3	1454					actin cytoskeleton organization (GO:0030036)|apical protein localization (GO:0045176)|cell morphogenesis (GO:0000902)|cellular pigment accumulation (GO:0043482)|columnar/cuboidal epithelial cell development (GO:0002066)|neural tube closure (GO:0001843)|pattern specification process (GO:0007389)|regulation of cell shape (GO:0008360)	adherens junction (GO:0005912)|apical junction complex (GO:0043296)|apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|microtubule (GO:0005874)				NS(3)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(10)|kidney(2)|large_intestine(6)|lung(29)|ovary(1)|skin(5)|upper_aerodigestive_tract(1)	60			Lung(101;0.0903)			TTTTGCAAACCTGAAGCACTA	0.567																																																0													52	54	54					4																	77675996		2203	4300	6503	SO:0001583	missense	57619			AB055660	CCDS3579.2	4q21.1	2009-11-25			ENSG00000138771	ENSG00000138771			30422	protein-coding gene	gene with protein product		604570				10589677, 16615870	Standard	NM_020859		Approved	ShrmL, SHRM, KIAA1481, APXL3	uc011cbx.2	Q8TF72	OTTHUMG00000157075	ENST00000296043.6:c.4360C>A	4.37:g.77675996C>A	ENSP00000296043:p.Leu1454Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5QTQ3|Q6ZRW3|Q96IR9|Q9P247	Missense_Mutation	SNP	ENST00000296043.6	37	CCDS3579.2	.	.	.	.	.	.	.	.	.	.	C	10.47	1.358823	0.24598	.	.	ENSG00000138771	ENST00000296043	T	0.22743	1.94	5.23	5.23	0.72850	.	1.171820	0.06113	N	0.667490	T	0.22820	0.0551	N	0.24115	0.695	0.09310	N	1	D	0.56521	0.976	P	0.47744	0.556	T	0.17837	-1.0356	10	0.33141	T	0.24	-1.3606	12.5341	0.56133	0.0:0.9214:0.0:0.0786	.	1454	Q8TF72	SHRM3_HUMAN	M	1454	ENSP00000296043:L1454M	ENSP00000296043:L1454M	L	+	1	2	SHROOM3	77895020	0.251000	0.23961	0.544000	0.28141	0.006000	0.05464	2.227000	0.42972	2.716000	0.92895	0.655000	0.94253	CTG		0.567	SHROOM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252408.2	NM_020859		A	77675996	C	A	77675996	3	1	588	1	0	0	0	0	1	0	0	0	14308	680	24	4	4386	4	SHROOM3	4	77675996	Missense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08	29097848	77675996	113478280	27	35003										
SLC39A8	64116	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	103225511	103225511	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	tgacattatcaaaatggataTgtccattagcttctgtgaca	7	7	2	2			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr4:103225511T>C	ENST00000394833.2	-	5	1279	c.803A>G	c.(802-804)cAt>cGt	p.H268R	SLC39A8_ENST00000356736.4_Missense_Mutation_p.H268R|SLC39A8_ENST00000510255.1_5'Flank|SLC39A8_ENST00000424970.2_Missense_Mutation_p.H268R	NM_001135148.1|NM_022154.5	NP_001128620.1|NP_071437.3	Q9C0K1	S39A8_HUMAN	solute carrier family 39 (zinc transporter), member 8	268					transmembrane transport (GO:0055085)|zinc ion transport (GO:0006829)	integral component of membrane (GO:0016021)|organelle membrane (GO:0031090)|plasma membrane (GO:0005886)	metal ion transmembrane transporter activity (GO:0046873)			large_intestine(1)|lung(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	9		Hepatocellular(203;0.217)		all cancers(1;9.78e-10)|OV - Ovarian serous cystadenocarcinoma(123;1.52e-09)|GBM - Glioblastoma multiforme(1;0.000142)		AAAATGGATATGTCCATTAGC	0.363																																																0													158	138	145					4																	103225511		2203	4300	6503	SO:0001583	missense	64116				CCDS3656.1, CCDS47117.1	4q22-q24	2013-05-22			ENSG00000138821	ENSG00000138821		"Solute carriers"	20862	protein-coding gene	gene with protein product		608732	"solute carrier family 39 (metal ion transporter), member 8"			12504855, 12659941	Standard	NM_001135146		Approved	BIGM103	uc003hwc.2	Q9C0K1	OTTHUMG00000131120	ENST00000394833.2:c.803A>G	4.37:g.103225511T>C	ENSP00000378310:p.His268Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2H3|Q96SM9|Q9BVC0|Q9NSA4	Missense_Mutation	SNP	ENST00000394833.2	37	CCDS3656.1	.	.	.	.	.	.	.	.	.	.	T	9.588	1.125353	0.20959	.	.	ENSG00000138821	ENST00000424970;ENST00000356736;ENST00000394833	T;T;T	0.44881	0.91;0.91;0.91	4.81	4.81	0.61882	.	0.460729	0.18153	U	0.150001	T	0.25938	0.0632	L	0.27053	0.805	0.33924	D	0.641179	B;B;B	0.32350	0.366;0.002;0.016	B;B;B	0.28385	0.089;0.003;0.048	T	0.32640	-0.9899	10	0.16896	T	0.51	-3.0995	9.2864	0.37760	0.1605:0.0:0.0:0.8395	.	268;268;201	B4E2H3;Q9C0K1;Q9C0K1-2	.;S39A8_HUMAN;.	R	268	ENSP00000394548:H268R;ENSP00000349174:H268R;ENSP00000378310:H268R	ENSP00000349174:H268R	H	-	2	0	SLC39A8	103444534	1.000000	0.71417	1.000000	0.80357	0.946000	0.59487	2.339000	0.43965	1.930000	0.55929	0.528000	0.53228	CAT		0.363	SLC39A8-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253798.1	NM_022154		C	103225511	T	C	103225511	3	2	588	1	0	0	0	0	1	0	0	0	14637	1464	51	3	672	3	SLC39A8	4	103225511	Missense_Mutation	SNP	T	TCGA-G7-6790-01A-11D-1961-08	25549515	103225511	87928765	28	35004										
ACSL1	2180	broad.mit.edu	37	chr4	185686012	185686012	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ctcctacagccatacctgcgGtccagtctccaggcatggtc	9	16	1	0			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr4:185686012G>A	ENST00000515030.1	-	15	1752	c.1427C>T	c.(1426-1428)aCc>aTc	p.T476I	ACSL1_ENST00000513317.1_Missense_Mutation_p.T476I|ACSL1_ENST00000437665.3_Missense_Mutation_p.T305I|ACSL1_ENST00000507295.1_Missense_Mutation_p.T442I|ACSL1_ENST00000454703.2_Missense_Mutation_p.T305I|ACSL1_ENST00000281455.2_Missense_Mutation_p.T476I|ACSL1_ENST00000504342.1_Missense_Mutation_p.T476I			P33121	ACSL1_HUMAN	acyl-CoA synthetase long-chain family member 1	476					adiponectin-activated signaling pathway (GO:0033211)|alpha-linolenic acid metabolic process (GO:0036109)|cellular lipid metabolic process (GO:0044255)|linoleic acid metabolic process (GO:0043651)|lipid biosynthetic process (GO:0008610)|long-chain fatty acid import (GO:0044539)|long-chain fatty acid metabolic process (GO:0001676)|long-chain fatty-acyl-CoA biosynthetic process (GO:0035338)|positive regulation of protein serine/threonine kinase activity (GO:0071902)|response to drug (GO:0042493)|response to nutrient (GO:0007584)|response to oleic acid (GO:0034201)|response to organic cyclic compound (GO:0014070)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)|unsaturated fatty acid metabolic process (GO:0033559)|xenobiotic catabolic process (GO:0042178)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|peroxisomal membrane (GO:0005778)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|long-chain fatty acid-CoA ligase activity (GO:0004467)			NS(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(6)|liver(1)|lung(17)|ovary(2)|prostate(1)|skin(2)	38		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Colorectal(36;0.00172)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0315)|all_neural(102;0.107)|Medulloblastoma(177;0.146)		all cancers(43;1.33e-28)|Epithelial(43;5.3e-25)|OV - Ovarian serous cystadenocarcinoma(60;4.88e-11)|Colorectal(24;3.59e-06)|STAD - Stomach adenocarcinoma(60;2.72e-05)|GBM - Glioblastoma multiforme(59;2.83e-05)|BRCA - Breast invasive adenocarcinoma(30;7.66e-05)|COAD - Colon adenocarcinoma(29;0.000538)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.0419)	Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CATACCTGCGGTCCAGTCTCC	0.468																																																0													60	56	57					4																	185686012		2203	4300	6503	SO:0001583	missense	2180			BC026290	CCDS3839.1, CCDS68825.1, CCDS68826.1, CCDS75213.1	4q35.1	2014-08-08	2004-02-19	2004-02-20	ENSG00000151726	ENSG00000151726	6.2.1.3	"Acyl-CoA synthetase family"	3569	protein-coding gene	gene with protein product	"lignoceroyl-CoA synthase", "long-chain fatty-acid-coenzyme A ligase 1"	152425	"fatty-acid-Coenzyme A ligase, long-chain 2"	FACL2		2341402, 1531127	Standard	XM_005262828		Approved	LACS2, LACS, ACS1, LACS1, FACL1	uc003iwu.1	P33121	OTTHUMG00000160547	ENST00000515030.1:c.1427C>T	4.37:g.185686012G>A	ENSP00000422607:p.Thr476Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z452|D3DP57|P41215|Q8N8V7|Q8TA99	Missense_Mutation	SNP	ENST00000515030.1	37	CCDS3839.1	.	.	.	.	.	.	.	.	.	.	G	16.91	3.252413	0.59212	.	.	ENSG00000151726	ENST00000454703;ENST00000515030;ENST00000503407;ENST00000281455;ENST00000507295;ENST00000437665;ENST00000504342;ENST00000513317	T;T;T;T;T;T;T;T	0.42900	0.96;0.96;0.96;0.96;0.96;0.96;0.96;0.96	5.58	5.58	0.84498	AMP-dependent synthetase/ligase (1);	0.130276	0.64402	D	0.000001	T	0.56396	0.1982	M	0.84082	2.675	0.54753	D	0.999987	B;B;B;B	0.21905	0.062;0.023;0.023;0.019	B;B;B;B	0.33042	0.157;0.082;0.05;0.03	T	0.57230	-0.7847	10	0.56958	D	0.05	-15.4726	19.9889	0.97359	0.0:0.0:1.0:0.0	.	442;476;476;476	E7EPM6;B7Z452;P33121;P33121-2	.;.;ACSL1_HUMAN;.	I	305;476;82;476;442;305;476;476	ENSP00000407165:T305I;ENSP00000422607:T476I;ENSP00000425098:T82I;ENSP00000281455:T476I;ENSP00000426244:T442I;ENSP00000405687:T305I;ENSP00000425006:T476I;ENSP00000426150:T476I	ENSP00000281455:T476I	T	-	2	0	ACSL1	185923006	1.000000	0.71417	0.992000	0.48379	0.901000	0.52897	6.556000	0.73932	2.804000	0.96469	0.650000	0.86243	ACC		0.468	ACSL1-011	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361112.2	NM_001995		A	185686012	G	A	185686012	3	1	588	1	0	0	0	0	1	0	0	0	177	1261	44	2	697	2	ACSL1	4	185686012	Missense_Mutation	SNP	G	TCGA-G7-6790-01A-11D-1961-08	82460501	185686012	5468264	29	35005										
IPO11	51194	ucsc.edu	37	chr5	61897615	61897615	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	atgttgatgtctcatcttgaGgaaccaaaagtaacagaaga	9	6	2	4			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr5:61897615G>T	ENST00000325324.6	+	29	2872	c.2703G>T	c.(2701-2703)gaG>gaT	p.E901D	IPO11_ENST00000409296.3_Missense_Mutation_p.E941D|IPO11_ENST00000409534.1_Missense_Mutation_p.E20D|IPO11_ENST00000512177.1_3'UTR	NM_016338.4	NP_057422.3	Q9UI26	IPO11_HUMAN	importin 11	901					ribosomal protein import into nucleus (GO:0006610)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	protein transporter activity (GO:0008565)			endometrium(2)|kidney(3)|large_intestine(5)|lung(14)|skin(4)|stomach(2)	30		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		CTCATCTTGAGGAACCAAAAG	0.269																																																0													62	60	61					5																	61897615		2203	4298	6501	SO:0001583	missense	51194			AF111109	CCDS34167.1, CCDS47217.1	5q12.1	2008-09-19			ENSG00000086200	ENSG00000086200		"Importins"	20628	protein-coding gene	gene with protein product		610889					Standard	NM_016338		Approved	RanBP11	uc011cqr.2	Q9UI26	OTTHUMG00000154400	ENST00000325324.6:c.2703G>T	5.37:g.61897615G>T	ENSP00000316651:p.Glu901Asp	Somatic		WXS	Illumina HiSeq		A6NGJ5|B4DZ73|D3DW98|Q8N5R2|Q9NSJ6|Q9NVB1	Missense_Mutation	SNP	ENST00000325324.6	37	CCDS34167.1	.	.	.	.	.	.	.	.	.	.	G	9.497	1.102268	0.20632	.	.	ENSG00000086200	ENST00000325324;ENST00000409296;ENST00000540553;ENST00000409534	T;T;T	0.73469	-0.75;-0.75;0.18	4.92	0.572	0.17357	Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.61350	0.2340	L	0.36672	1.1	0.48901	D	0.999726	P;P	0.48089	0.905;0.846	P;B	0.45276	0.475;0.283	T	0.55289	-0.8164	10	0.13853	T	0.58	.	9.1233	0.36799	0.807:0.0:0.193:0.0	.	941;901	Q9UI26-2;Q9UI26	.;IPO11_HUMAN	D	901;941;471;20	ENSP00000316651:E901D;ENSP00000386992:E941D;ENSP00000387039:E20D	ENSP00000316651:E901D	E	+	3	2	IPO11	61933371	0.986000	0.35501	1.000000	0.80357	0.992000	0.81027	0.142000	0.16096	0.217000	0.20800	-0.136000	0.14681	GAG		0.269	IPO11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335062.1	NM_016338		T	61897615	G	T	61897615	3	4	588	1	0	0	0	0	1	0	0	0	7800	991	35	4	2937	4	IPO11	5	61897615	Missense_Mutation	SNP	G	TCGA-G7-6790-01A-11D-1961-08		61897615	119017645	30	35006										
CTNNA1	1495	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	138266342	138266342	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	tggagatgacagactttaccCggtgagcagcaccccggccc	12	14	0	4			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr5:138266342C>T	ENST00000302763.7	+	15	2281	c.2191C>T	c.(2191-2193)Cga>Tga	p.R731*	CTNNA1_ENST00000355078.5_Splice_Site_p.R628*|CTNNA1_ENST00000518825.1_Splice_Site_p.R731*|CTNNA1_ENST00000540387.1_Splice_Site_p.R361*	NM_001903.2	NP_001894.2	P35221	CTNA1_HUMAN	catenin (cadherin-associated protein), alpha 1, 102kDa	731					adherens junction organization (GO:0034332)|aging (GO:0007568)|apical junction assembly (GO:0043297)|axon regeneration (GO:0031103)|cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|cellular protein localization (GO:0034613)|cellular response to indole-3-methanol (GO:0071681)|epithelial cell-cell adhesion (GO:0090136)|establishment or maintenance of cell polarity (GO:0007163)|gap junction assembly (GO:0016264)|male gonad development (GO:0008584)|muscle cell differentiation (GO:0042692)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell motility (GO:2000146)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of integrin-mediated signaling pathway (GO:2001045)|negative regulation of neuroblast proliferation (GO:0007406)|odontogenesis of dentin-containing tooth (GO:0042475)|ovarian follicle development (GO:0001541)|positive regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001241)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of smoothened signaling pathway (GO:0045880)|protein heterooligomerization (GO:0051291)|response to estrogen (GO:0043627)	acrosomal vesicle (GO:0001669)|actin cytoskeleton (GO:0015629)|catenin complex (GO:0016342)|cell-cell junction (GO:0005911)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|intercalated disc (GO:0014704)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)|zonula adherens (GO:0005915)	beta-catenin binding (GO:0008013)|cadherin binding (GO:0045296)|gamma-catenin binding (GO:0045295)|poly(A) RNA binding (GO:0044822)|structural molecule activity (GO:0005198)|vinculin binding (GO:0017166)	p.R731R(1)		NS(1)|breast(7)|cervix(2)|endometrium(4)|kidney(6)|large_intestine(16)|lung(9)|oesophagus(2)|ovary(3)|prostate(1)|upper_aerodigestive_tract(1)	52			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			AGACTTTACCCGGTGAGCAGC	0.582																																																1	Substitution - coding silent(1)	lung(1)											134	129	130					5																	138266342		2203	4300	6503	SO:0001630	splice_region_variant	1495			D13866	CCDS34243.1, CCDS75315.1	5q31.2	2008-02-05	2002-08-29			ENSG00000044115			2509	protein-coding gene	gene with protein product		116805	"catenin (cadherin-associated protein), alpha 1 (102kD)"			1924379	Standard	XM_005271898		Approved	CAP102	uc003ldh.3	P35221		ENST00000302763.7:c.2192+1C>T	5.37:g.138266342C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q12795|Q8N1C0	Nonsense_Mutation	SNP	ENST00000302763.7	37	CCDS34243.1	.	.	.	.	.	.	.	.	.	.	C	36	5.632988	0.96682	.	.	ENSG00000044115	ENST00000355078;ENST00000302763;ENST00000537034;ENST00000541863;ENST00000518825;ENST00000540387;ENST00000520520	.	.	.	5.77	3.89	0.44902	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-5.7916	13.7731	0.63038	0.4172:0.5828:0.0:0.0	.	.	.	.	X	628;731;731;716;731;361;6	.	ENSP00000304669:R731X	R	+	1	2	CTNNA1	138294241	1.000000	0.71417	1.000000	0.80357	0.408000	0.30992	4.424000	0.59868	1.565000	0.49641	0.655000	0.94253	CGA		0.582	CTNNA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373868.1	NM_001903	Nonsense_Mutation	T	138266342	C	T	138266342	5	4	588	1	0	0	0	0	0	0	1	0	4014	666	23	1	2245	1	CTNNA1	5	138266342	Splice_Site	SNP	C	TCGA-G7-6790-01A-11D-1961-08	76368727	138266342	42648918	31	35007										
FAM71B	153745	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	156590094	156590094	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gtggagatgaggggtcccacTgctggtccttcagttctttc	13	10	2	2			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr5:156590094T>A	ENST00000302938.4	-	2	1277	c.1182A>T	c.(1180-1182)gcA>gcT	p.A394A		NM_130899.2	NP_570969.2	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	394						nucleus (GO:0005634)				NS(3)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(2)|kidney(5)|large_intestine(10)|lung(32)|ovary(4)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	68	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GGGGTCCCACTGCTGGTCCTT	0.552																																																0													62	65	64					5																	156590094		2203	4300	6503	SO:0001819	synonymous_variant	153745				CCDS4335.1	5q33.3	2005-08-09			ENSG00000170613	ENSG00000170613			28397	protein-coding gene	gene with protein product						12477932	Standard	NM_130899		Approved	MGC26988	uc003lwn.3	Q8TC56	OTTHUMG00000130246	ENST00000302938.4:c.1182A>T	5.37:g.156590094T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q1EDD9|Q8TC64|Q96LY8	Silent	SNP	ENST00000302938.4	37	CCDS4335.1																																																																																				0.552	FAM71B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252570.2	NM_130899		A	156590094	T	A	156590094	2	1	588	1	0	0	0	0	0	0	0	1	5615	1567	55	5		5	FAM71B	5	156590094	Silent	SNP	T	TCGA-G7-6790-01A-11D-1961-08	18323752	156590094	24325166	32	35008										
BPHL	670	broad.mit.edu;bcgsc.ca	37	chr6	3123907	3123927	+	In_Frame_Del	DEL	GCCAAAGTGGCTGTGAATGGC	GCCAAAGTGGCTGTGAATGGC	-													0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ctagcacctcggtaacctctGccaaagtggctgtgaatggc					rs148622332|rs375917764	byFrequency	TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	GCCAAAGTGGCTGTGAATGGC	GCCAAAGTGGCTGTGAATGGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr6:3123907_3123927delGCCAAAGTGGCTGTGAATGGC	ENST00000380379.5	+	2	173_193	c.124_144delGCCAAAGTGGCTGTGAATGGC	c.(124-144)gccaaagtggctgtgaatggcdel	p.AKVAVNG42del	BPHL_ENST00000380368.2_In_Frame_Del_p.AKVAVNG25del|BPHL_ENST00000380375.3_In_Frame_Del_p.AKVAVNG25del|BPHL_ENST00000434640.1_In_Frame_Del_p.AKVAVNG25del	NM_004332.2	NP_004323.2	Q86WA6	BPHL_HUMAN	biphenyl hydrolase-like (serine hydrolase)	42					cellular amino acid metabolic process (GO:0006520)|response to toxic substance (GO:0009636)	extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	hydrolase activity (GO:0016787)			endometrium(4)|kidney(1)|large_intestine(2)|lung(6)	13	Ovarian(93;0.0386)	all_hematologic(90;0.108)				GGTAACCTCTGCCAAAGTGGCTGTGAATGGCGTTCAGCTGC	0.475																																																0																																										SO:0001651	inframe_deletion	670			X81372	CCDS4483.2	6p25	2008-08-29	2008-08-29		ENSG00000137274	ENSG00000137274			1094	protein-coding gene	gene with protein product	"breast epithelial mucin-associated antigen"	603156		MCNAA		7759552, 9721218, 15832508	Standard	NM_004332		Approved	Bph-rp	uc003mva.3	Q86WA6	OTTHUMG00000014140	ENST00000380379.5:c.124_144delGCCAAAGTGGCTGTGAATGGC	6.37:g.3123907_3123927delGCCAAAGTGGCTGTGAATGGC	ENSP00000369739:p.Ala42_Gly48del	Somatic		WXS	Illumina HiSeq	Phase_I	Q00306|Q13855|Q3KP51	In_Frame_Del	DEL	ENST00000380379.5	37	CCDS4483.2																																																																																				0.475	BPHL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039670.5			-	3123927	GCCAAAGTGGCTGTGAATGGC	-	3123907	7	5	588	1	0	1	0	1	0	0	0	0	1491	1319	46	0	130	0	BPHL	6	3123907	In_Frame_Del	DEL	GCCAAAGTGGCTGTGAATGGC	TCGA-G7-6790-01A-11D-1961-08		3123907	167991160	33	35009										
HIST1H3A	8350	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	26021008	26021008	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	atggctctgcaggaggcgtgCgaggcctacttggtagggct	17	9	1	0			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr6:26021008C>T	ENST00000357647.3	+	1	291	c.291C>T	c.(289-291)tgC>tgT	p.C97C	HIST1H4A_ENST00000359907.3_5'Flank|HIST1H1A_ENST00000244573.3_5'Flank	NM_003529.2	NP_003520.1	P68431	H31_HUMAN	histone cluster 1, H3a	97					blood coagulation (GO:0007596)|chromatin organization (GO:0006325)|DNA replication-dependent nucleosome assembly (GO:0006335)|regulation of gene silencing (GO:0060968)	extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nuclear chromosome (GO:0000228)|nucleoplasm (GO:0005654)|nucleosome (GO:0000786)|nucleus (GO:0005634)|protein complex (GO:0043234)	DNA binding (GO:0003677)			endometrium(1)|lung(3)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	8						AGGAGGCGTGCGAGGCCTACT	0.587																																																0													46	47	47					6																	26021008		2203	4300	6503	SO:0001819	synonymous_variant	8350			Z46261	CCDS4570.1	6p22.1	2011-01-27	2006-10-11	2003-02-21	ENSG00000198366	ENSG00000275714		"Histones / Replication-dependent"	4766	protein-coding gene	gene with protein product		602810	"H3 histone family, member A", "histone 1, H3a"	H3FA		9119399, 12408966	Standard	NM_003529		Approved	H3/A	uc003nfp.1	P68431	OTTHUMG00000014418	ENST00000357647.3:c.291C>T	6.37:g.26021008C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJT7|A5PLR1|P02295|P02296|P16106|Q6ISV8|Q6NWP8|Q6NWP9|Q6NXU4|Q71DJ3|Q93081	Silent	SNP	ENST00000357647.3	37	CCDS4570.1																																																																																				0.587	HIST1H3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040080.1	NM_003529		T	26021008	C	T	26021008	2	4	588	1	0	0	0	0	0	0	0	1	7162	776	27	1		1	HIST1H3A	6	26021008	Silent	SNP	C	TCGA-G7-6790-01A-11D-1961-08	22897101	26021008	145094059	34	35010										
RPL10A	4736	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	35437266	35437267	+	Frame_Shift_Ins	INS	-	-	A													0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	acatggacatcgaggcgctgINSaaaaaactcaacaagaataa							TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr6:35437266_35437267insA	ENST00000322203.6	+	4	297_298	c.270_271insA	c.(271-273)aaafs	p.K91fs	RPL10A_ENST00000467020.1_3'UTR	NM_007104.4	NP_009035.3	P62906	RL10A_HUMAN	ribosomal protein L10a	91					anatomical structure morphogenesis (GO:0009653)|cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|structural constituent of ribosome (GO:0003735)			breast(1)|large_intestine(2)|ovary(1)	4						TCGAGGCGCTGAAAAAACTCAA	0.55																																																0																																										SO:0001589	frameshift_variant	4736			U12404	CCDS4806.1	6p21.31	2011-04-06			ENSG00000198755	ENSG00000198755		"L ribosomal proteins"	10299	protein-coding gene	gene with protein product		615660		NEDD6		7609734, 9647638	Standard	NM_007104		Approved	Csa-19, L10A	uc003okp.1	P62906	OTTHUMG00000014566	ENST00000322203.6:c.276dupA	6.37:g.35437272_35437272dupA	ENSP00000363018:p.Lys91fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R801|P52859|P53025|Q5TZT6|Q8J013	Frame_Shift_Ins	INS	ENST00000322203.6	37	CCDS4806.1																																																																																				0.55	RPL10A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040283.1	NM_007104		A	35437267	-	A	35437266	7	5	588	1	0	1	1	0	0	0	0	0	13568	1277	45	0	284	0	RPL10A	6	35437266	Frame_Shift_Ins	INS	-	TCGA-G7-6790-01A-11D-1961-08	9416258	35437266	135677801	35	35011										
FTSJD2	23070	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	37442389	37442389	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ctgccccgggacactctgctAtctgtggaaattgtgcatga	11	11	2	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr6:37442389A>G	ENST00000373451.4	+	18	2075	c.1911A>G	c.(1909-1911)ctA>ctG	p.L637L		NM_015050.2	NP_055865.1	Q8N1G2	CMTR1_HUMAN	cap methyltransferase 1	637					7-methylguanosine mRNA capping (GO:0006370)|cap1 mRNA methylation (GO:0097309)|mRNA methylation (GO:0080009)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	mRNA (nucleoside-2'-O-)-methyltransferase activity (GO:0004483)|nucleic acid binding (GO:0003676)										ACACTCTGCTATCTGTGGAAA	0.572																																																0													105	100	102					6																	37442389		2203	4300	6503	SO:0001819	synonymous_variant	23070			BC031890	CCDS4835.1	6p21.2	2013-07-23	2013-07-23	2013-07-23	ENSG00000137200	ENSG00000137200	2.1.1.57	"G patch domain containing"	21077	protein-coding gene	gene with protein product			"KIAA0082", "FtsJ methyltransferase domain containing 2"	KIAA0082, FTSJD2		20713356	Standard	NM_015050		Approved	MTr1, ISG95	uc003ons.3	Q8N1G2	OTTHUMG00000014624	ENST00000373451.4:c.1911A>G	6.37:g.37442389A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K949|Q14670|Q96FJ9	Silent	SNP	ENST00000373451.4	37	CCDS4835.1																																																																																				0.572	CMTR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040408.1	NM_015050		G	37442389	A	G	37442389	2	3	588	1	0	0	0	0	0	0	0	1	6098	436	16	3		3	FTSJD2	6	37442389	Silent	SNP	A	TCGA-G7-6790-01A-11D-1961-08	2005123	37442389	133672678	36	35012										
ADCY1	107	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	45747951	45747951	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ccatctgtttacacctaggcTaagaagtccatctcctccca	5	15	2	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr7:45747951T>C	ENST00000297323.7	+	18	2842	c.2820T>C	c.(2818-2820)gcT>gcC	p.A940A		NM_021116.2	NP_066939.1	Q08828	ADCY1_HUMAN	adenylate cyclase 1 (brain)	940			A -> T (in dbSNP:rs45444695).		activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|axonogenesis (GO:0007409)|cellular response to glucagon stimulus (GO:0071377)|circadian rhythm (GO:0007623)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|long-term memory (GO:0007616)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of circadian rhythm (GO:0042752)|response to drug (GO:0042493)|response to lithium ion (GO:0010226)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|calcium- and calmodulin-responsive adenylate cyclase activity (GO:0008294)|metal ion binding (GO:0046872)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(14)|lung(33)|ovary(4)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)	71					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	ACACCTAGGCTAAGAAGTCCA	0.522																																																0													179	135	150					7																	45747951		2203	4300	6503	SO:0001819	synonymous_variant	107			L05500	CCDS34631.1, CCDS75593.1	7p13-p12	2013-02-04			ENSG00000164742	ENSG00000164742	4.6.1.1	"Adenylate cyclases"	232	protein-coding gene	gene with protein product		103072				8314585	Standard	NM_021116		Approved	AC1	uc003tne.4	Q08828	OTTHUMG00000155420	ENST00000297323.7:c.2820T>C	7.37:g.45747951T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A4D2L8|Q75MI1	Silent	SNP	ENST00000297323.7	37	CCDS34631.1																																																																																				0.522	ADCY1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340055.2	NM_021116		C	45747951	T	C	45747951	2	2	588	1	0	0	0	0	0	0	0	1	292	1509	53	3		3	ADCY1	7	45747951	Silent	SNP	T	TCGA-G7-6790-01A-11D-1961-08		45747951	113390712	37	35013										
MLL5	55904	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	104717426	104717426	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ttagggttcagctccagagaTtgatccttcatctgatggtt	10	8	3	3			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr7:104717426T>G	ENST00000311117.3	+	10	1330	c.785T>G	c.(784-786)aTt>aGt	p.I262S	KMT2E_ENST00000257745.4_Missense_Mutation_p.I262S|KMT2E_ENST00000476671.1_Missense_Mutation_p.I262S|KMT2E_ENST00000334914.7_De_novo_Start_InFrame|KMT2E_ENST00000334877.4_Missense_Mutation_p.I262S	NM_182931.2	NP_891847.1	Q8IZD2	KMT2E_HUMAN	lysine (K)-specific methyltransferase 2E	262					cell cycle arrest (GO:0007050)|cellular response to retinoic acid (GO:0071300)|DNA methylation (GO:0006306)|erythrocyte differentiation (GO:0030218)|histone H3-K4 methylation (GO:0051568)|neutrophil activation (GO:0042119)|neutrophil mediated immunity (GO:0002446)|positive regulation of granulocyte differentiation (GO:0030854)|positive regulation of transcription, DNA-templated (GO:0045893)|retinoic acid receptor signaling pathway (GO:0048384)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|MLL5-L complex (GO:0070688)|plasma membrane (GO:0005886)	enzyme binding (GO:0019899)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)										GCTCCAGAGATTGATCCTTCA	0.418																																																0													89	88	88					7																	104717426		2203	4300	6503	SO:0001583	missense	55904			AF067804	CCDS34723.1	7q22.1	2013-05-09	2013-05-09	2013-05-09	ENSG00000005483	ENSG00000005483		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	18541	protein-coding gene	gene with protein product		608444	"myeloid/lymphoid or mixed-lineage leukemia 5 (trithorax homolog, Drosophila)"	MLL5		9218106, 7672722	Standard	XM_005250493		Approved	HDCMC04P		Q8IZD2	OTTHUMG00000157403	ENST00000311117.3:c.785T>G	7.37:g.104717426T>G	ENSP00000312379:p.Ile262Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B6ZDE4|B6ZDM3|M4K8J3|Q6P5Y2|Q6PKG4|Q6T316|Q86TI3|Q86W12|Q86WG0|Q86WL2|Q8IV78|Q8IWR5|Q8NFF8|Q9NWE7	Missense_Mutation	SNP	ENST00000311117.3	37	CCDS34723.1	.	.	.	.	.	.	.	.	.	.	T	10.81	1.456010	0.26161	.	.	ENSG00000005483	ENST00000311117;ENST00000393656;ENST00000334877;ENST00000351043;ENST00000257745;ENST00000478990;ENST00000476671;ENST00000537308	D;D;D;D;D	0.95482	-2.85;-2.47;-2.85;-3.72;-3.22	6.07	4.92	0.64577	.	0.471220	0.25735	N	0.028644	D	0.92639	0.7661	L	0.44542	1.39	0.80722	D	1	D;B	0.54207	0.965;0.372	P;B	0.46758	0.526;0.083	D	0.89734	0.3928	10	0.08837	T	0.75	.	12.0897	0.53719	0.0:0.0668:0.0:0.9332	.	262;262	Q8IZD2;Q8IZD2-3	MLL5_HUMAN;.	S	262;262;262;262;262;120;262;196	ENSP00000312379:I262S;ENSP00000335599:I262S;ENSP00000257745:I262S;ENSP00000419883:I120S;ENSP00000417888:I262S	ENSP00000257745:I262S	I	+	2	0	MLL5	104504662	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.809000	0.38922	1.114000	0.41781	0.533000	0.62120	ATT		0.418	KMT2E-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348697.1			G	104717426	T	G	104717426	3	3	588	1	0	0	0	0	1	0	0	0	9631	1493	52	5	815	5	MLL5	7	104717426	Missense_Mutation	SNP	T	TCGA-G7-6790-01A-11D-1961-08	58969475	104717426	54421237	38	35014										
COL14A1	7373	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	121237425	121237425	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	atctatgatgaaggacagtcAgagcctctgactggagtttt	11	7	3	4			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr8:121237425A>T	ENST00000297848.3	+	15	2106	c.1836A>T	c.(1834-1836)tcA>tcT	p.S612S	COL14A1_ENST00000247781.3_Silent_p.S517S|COL14A1_ENST00000537875.1_3'UTR|COL14A1_ENST00000432943.2_3'UTR|COL14A1_ENST00000309791.4_Silent_p.S612S	NM_021110.1	NP_066933.1			collagen, type XIV, alpha 1											NS(1)|autonomic_ganglia(1)|breast(11)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(9)|large_intestine(31)|lung(42)|ovary(5)|pancreas(1)|prostate(1)|skin(8)|stomach(2)|upper_aerodigestive_tract(2)	119	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)			AAGGACAGTCAGAGCCTCTGA	0.418																																																0													76	75	76					8																	121237425		2203	4300	6503	SO:0001819	synonymous_variant	7373				CCDS34938.1	8q23	2013-02-11	2008-02-04		ENSG00000187955	ENSG00000187955		"Collagens", "Fibronectin type III domain containing"	2191	protein-coding gene	gene with protein product		120324	"undulin"	UND		1716629, 9427527	Standard	NM_021110		Approved		uc003yox.4	Q05707	OTTHUMG00000149877	ENST00000297848.3:c.1836A>T	8.37:g.121237425A>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000297848.3	37	CCDS34938.1																																																																																				0.418	COL14A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313657.2	NM_021110		T	121237425	A	T	121237425	2	4	588	1	0	0	0	0	0	0	0	1	3673	175	7	5		5	COL14A1	8	121237425	Silent	SNP	A	TCGA-G7-6790-01A-11D-1961-08		121237425	25126597	39	35015										
WDYHV1	55093	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	124448833	124448833	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gatgatgacattcacccacaGtttaggaggtgaggacattc	11	8	1	3	rs201436036		TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr8:124448833G>T	ENST00000287387.2	+	4	500	c.375G>T	c.(373-375)caG>caT	p.Q125H	WDYHV1_ENST00000523984.1_Missense_Mutation_p.Q65H|WDYHV1_ENST00000517609.1_3'UTR|WDYHV1_ENST00000518125.1_Intron|WDYHV1_ENST00000523356.1_Missense_Mutation_p.Q125H	NM_018024.1	NP_060494.1	Q96HA8	NTAQ1_HUMAN	WDYHV motif containing 1	125					cellular protein modification process (GO:0006464)	cytosol (GO:0005829)|nucleus (GO:0005634)	protein-N-terminal glutamine amidohydrolase activity (GO:0070773)			endometrium(2)|kidney(1)|large_intestine(1)|lung(7)|ovary(1)|prostate(1)|skin(1)|stomach(3)	17						TTCACCCACAGTTTAGGAGGT	0.358																																																0													179	152	161					8																	124448833		2203	4300	6503	SO:0001583	missense	55093			AK001066	CCDS6344.1, CCDS64965.1	8q24.13	2008-10-01	2008-10-01	2008-10-01		ENSG00000156795			25490	protein-coding gene	gene with protein product			"chromosome 8 open reading frame 32"	C8orf32		12477932	Standard	NM_018024		Approved	FLJ10204	uc003yqn.1	Q96HA8		ENST00000287387.2:c.375G>T	8.37:g.124448833G>T	ENSP00000287387:p.Gln125His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DE68|Q9NW95	Missense_Mutation	SNP	ENST00000287387.2	37	CCDS6344.1	.	.	.	.	.	.	.	.	.	.	G	16.87	3.242859	0.58995	.	.	ENSG00000156795	ENST00000287387;ENST00000523984;ENST00000523356	T;T;T	0.17854	2.25;2.25;2.25	5.78	4.72	0.59763	Protein N-terminal glutamine amidohydrolase, alpha beta roll (1);Protein N-terminal glutamine amidohydrolase (1);	0.467670	0.22279	N	0.062144	T	0.17323	0.0416	L	0.39245	1.2	0.80722	D	1	P	0.46952	0.887	P	0.47118	0.538	T	0.00484	-1.1712	10	0.62326	D	0.03	-11.18	6.1363	0.20235	0.1332:0.0:0.6856:0.1812	.	125	Q96HA8	NTAQ1_HUMAN	H	125;65;125	ENSP00000287387:Q125H;ENSP00000430427:Q65H;ENSP00000428615:Q125H	ENSP00000287387:Q125H	Q	+	3	2	WDYHV1	124518014	1.000000	0.71417	1.000000	0.80357	0.848000	0.48234	1.216000	0.32443	2.724000	0.93272	0.655000	0.94253	CAG		0.358	WDYHV1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381772.1	NM_018024		T	124448833	G	T	124448833	3	4	588	1	0	0	0	0	1	0	0	0	17355	1020	36	4	389	4	WDYHV1	8	124448833	Missense_Mutation	SNP	G	TCGA-G7-6790-01A-11D-1961-08	3211408	124448833	21915189	40	35016										
WASH1	0	hgsc.bcm.edu	37	chr9	17011	17011	+	IGR	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gtgtggaaggtgggcagttcTggaatggtgccaggggcaga	20	5	1	1	rs201297177	byFrequency	TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr9:17011T>C								None (None upstream) : MIR1302-2 (10645 downstream)																							TGGGCAGTTCTGGAATGGTGC	0.642																																																0													5	8	7					9																	17011		767	1848	2615	SO:0001628	intergenic_variant	100287171																															9.37:g.17011T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP		37																																																																																				0	0.642									C	17011	T	C	17011	1	2	588	0	1	0	0	0	0	0	0	0	17267	1567	55	3		3	WASH1	9	17011	IGR	SNP	T	TCGA-G7-6790-01A-11D-1961-08		17011	141196420	41	35017										
CNTLN	54875	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	17332674	17332674	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gactcagaagagctacagaaGctgagaaaagctgaaagaaa	11	6	1	6			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr9:17332674G>A	ENST00000380647.3	+	10	1674	c.1590G>A	c.(1588-1590)aaG>aaA	p.K530K	CNTLN_ENST00000262360.5_Silent_p.K530K|CNTLN_ENST00000425824.1_Silent_p.K530K			Q9NXG0	CNTLN_HUMAN	centlein, centrosomal protein	530					centriole-centriole cohesion (GO:0010457)|protein localization to organelle (GO:0033365)	centriole (GO:0005814)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	phosphorelay sensor kinase activity (GO:0000155)|protein binding, bridging (GO:0030674)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)			breast(6)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(5)|kidney(3)|large_intestine(10)|lung(17)|ovary(1)|pancreas(1)|prostate(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	53				GBM - Glioblastoma multiforme(50;6.14e-10)		AGCTACAGAAGCTGAGAAAAG	0.378																																																0													74	70	71					9																	17332674		1836	4082	5918	SO:0001819	synonymous_variant	54875			AK000283	CCDS43789.1, CCDS47953.1	9p22.2-p22.1	2008-11-11	2008-02-08	2008-02-08	ENSG00000044459	ENSG00000044459			23432	protein-coding gene	gene with protein product		611870	"chromosome 9 open reading frame 101", "chromosome 9 open reading frame 39"	C9orf101, C9orf39		18086554	Standard	XM_005251492		Approved	FLJ20276, bA340N12.1, OTTHUMG00000019597	uc003zmy.3	Q9NXG0	OTTHUMG00000019599	ENST00000380647.3:c.1590G>A	9.37:g.17332674G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A5Z2X6|Q5VYJ0|Q8N1G9|Q9HAJ5	Silent	SNP	ENST00000380647.3	37	CCDS43789.1																																																																																				0.378	CNTLN-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000051793.3	NM_017738		A	17332674	G	A	17332674	2	1	588	1	0	0	0	0	0	0	0	1	3641	962	34	2		2	CNTLN	9	17332674	Silent	SNP	G	TCGA-G7-6790-01A-11D-1961-08	17315663	17332674	123880757	42	35018										
ACO1	48	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	32448942	32448942	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	acgagcgcattcaccgcagtAacctggttgggatgggtgtg	15	9	1	0			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr9:32448942A>T	ENST00000309951.6	+	20	2557	c.2419A>T	c.(2419-2421)Aac>Tac	p.N807Y	ACO1_ENST00000379923.1_Missense_Mutation_p.N807Y|ACO1_ENST00000541043.1_Missense_Mutation_p.N708Y	NM_002197.2	NP_002188.1	P21399	ACOC_HUMAN	aconitase 1, soluble	807					cellular iron ion homeostasis (GO:0006879)|citrate metabolic process (GO:0006101)|intestinal absorption (GO:0050892)|post-embryonic development (GO:0009791)|regulation of translation (GO:0006417)|response to iron(II) ion (GO:0010040)|tricarboxylic acid cycle (GO:0006099)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|mitochondrion (GO:0005739)	4 iron, 4 sulfur cluster binding (GO:0051539)|aconitate hydratase activity (GO:0003994)|iron-responsive element binding (GO:0030350)|metal ion binding (GO:0046872)|RNA binding (GO:0003723)			breast(1)|endometrium(7)|kidney(5)|large_intestine(6)|lung(6)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	30			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;3.94e-06)		TCACCGCAGTAACCTGGTTGG	0.478																																																0													131	111	117					9																	32448942		2203	4300	6503	SO:0001583	missense	48			M58510	CCDS6525.1	9p21.1	2013-05-21			ENSG00000122729	ENSG00000122729	4.2.1.3		117	protein-coding gene	gene with protein product	"aconitate hydratase, cytoplasmic"	100880		IREB1		2172968, 2771641	Standard	NM_002197		Approved	IRP1, IREBP	uc003zqw.4	P21399	OTTHUMG00000019740	ENST00000309951.6:c.2419A>T	9.37:g.32448942A>T	ENSP00000309477:p.Asn807Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRK7|Q14652|Q5VZA7	Missense_Mutation	SNP	ENST00000309951.6	37	CCDS6525.1	.	.	.	.	.	.	.	.	.	.	A	22.9	4.351925	0.82132	.	.	ENSG00000122729	ENST00000309951;ENST00000379923;ENST00000541043	T;T;T	0.61392	0.11;0.11;1.13	5.83	5.83	0.93111	Aconitase/3-isopropylmalate dehydratase, swivel (2);Aconitase A/isopropylmalate dehydratase small subunit, swivel (1);	0.000000	0.85682	D	0.000000	D	0.86711	0.5998	H	0.99600	4.65	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.92343	0.5883	10	0.87932	D	0	-31.6045	15.1831	0.72975	1.0:0.0:0.0:0.0	.	807	P21399	ACOC_HUMAN	Y	807;807;708	ENSP00000309477:N807Y;ENSP00000369255:N807Y;ENSP00000438733:N708Y	ENSP00000309477:N807Y	N	+	1	0	ACO1	32438942	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	4.996000	0.63914	2.227000	0.72691	0.528000	0.53228	AAC		0.478	ACO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051998.3	NM_002197		T	32448942	A	T	32448942	3	4	588	1	0	0	0	0	1	0	0	0	146	362	13	5	2493	5	ACO1	9	32448942	Missense_Mutation	SNP	A	TCGA-G7-6790-01A-11D-1961-08	15116268	32448942	108764489	43	35019										
HNRNPK	3190	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	86585225	86585225	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	tttaatccgctgaccaccttTgccaataatagatccagcca	5	13	0	2			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr9:86585225T>A	ENST00000376264.2	-	16	1471	c.1213A>T	c.(1213-1215)Aaa>Taa	p.K405*	HNRNPK_ENST00000351839.3_Nonsense_Mutation_p.K405*|MIR7-1_ENST00000384871.1_RNA|HNRNPK_ENST00000360384.5_Nonsense_Mutation_p.K405*|HNRNPK_ENST00000376281.4_Nonsense_Mutation_p.K405*|HNRNPK_ENST00000376263.3_Nonsense_Mutation_p.K405*|RP11-575L7.8_ENST00000448389.1_RNA	NM_002140.3|NM_031262.2	NP_002131.2|NP_112552.1	P61978	HNRPK_HUMAN	heterogeneous nuclear ribonucleoprotein K	405	2 X 22 AA approximate repeats.|5 X 4 AA repeats of G-X-G-G.|KH 3. {ECO:0000255|PROSITE- ProRule:PRU00117}.				gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|positive regulation of low-density lipoprotein particle receptor biosynthetic process (GO:0045716)|positive regulation of receptor-mediated endocytosis (GO:0048260)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of lipid transport by positive regulation of transcription from RNA polymerase II promoter (GO:0072369)|regulation of low-density lipoprotein particle clearance (GO:0010988)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)|signal transduction (GO:0007165)|viral process (GO:0016032)	catalytic step 2 spliceosome (GO:0071013)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|single-stranded DNA binding (GO:0003697)			endometrium(3)|kidney(2)|large_intestine(4)|lung(8)|skin(1)|stomach(1)	19						TGACCACCTTTGCCAATAATA	0.368																																																0													60	58	59					9																	86585225		2203	4300	6503	SO:0001587	stop_gained	3190				CCDS6667.1, CCDS6668.1	9q21.32-q21.33	2011-10-24		2008-04-18	ENSG00000165119	ENSG00000165119			5044	protein-coding gene	gene with protein product	"transformation upregulated nuclear protein"	600712		HNRPK		8107114	Standard	NM_031263		Approved	CSBP, TUNP	uc004anf.4	P61978	OTTHUMG00000020107	ENST00000376264.2:c.1213A>T	9.37:g.86585225T>A	ENSP00000365440:p.Lys405*	Somatic		WXS	Illumina HiSeq	Phase_I	Q07244|Q15671|Q59F98|Q5T6W4|Q60577|Q922Y7|Q96J62	Nonsense_Mutation	SNP	ENST00000376264.2	37	CCDS6667.1	.	.	.	.	.	.	.	.	.	.	T	38	7.091735	0.98059	.	.	ENSG00000165119	ENST00000376281;ENST00000376264;ENST00000376263;ENST00000376268;ENST00000351839;ENST00000435158;ENST00000360384;ENST00000376258	.	.	.	5.33	5.33	0.75918	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-7.1915	15.5864	0.76485	0.0:0.0:0.0:1.0	.	.	.	.	X	405;405;405;405;405;370;405;400	.	ENSP00000317788:K405X	K	-	1	0	HNRNPK	85775045	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.510000	0.81708	2.142000	0.66516	0.482000	0.46254	AAA		0.368	HNRNPK-202	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000052846.2			A	86585225	T	A	86585225	4	1	588	1	0	0	0	0	0	1	0	0	7276	1821	63	5	224	5	HNRNPK	9	86585225	Nonsense_Mutation	SNP	T	TCGA-G7-6790-01A-11D-1961-08	54136283	86585225	54628206	44	35020										
SPTLC1	10558	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	94877626	94877626	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gcctgtaccatctccaccagAacccactgctccgtggcggt	9	17	1	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr9:94877626A>T	ENST00000262554.2	-	1	32	c.27T>A	c.(25-27)gtT>gtA	p.V9V	SPTLC1_ENST00000482632.1_5'UTR|SPTLC1_ENST00000337841.4_Silent_p.V9V	NM_006415.2	NP_006406.1	O15269	SPTC1_HUMAN	serine palmitoyltransferase, long chain base subunit 1	9					ceramide biosynthetic process (GO:0046513)|small molecule metabolic process (GO:0044281)|sphinganine biosynthetic process (GO:0046511)|sphingolipid biosynthetic process (GO:0030148)|sphingolipid metabolic process (GO:0006665)|sphingomyelin biosynthetic process (GO:0006686)|sphingosine biosynthetic process (GO:0046512)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|serine C-palmitoyltransferase complex (GO:0017059)|SPOTS complex (GO:0035339)	pyridoxal phosphate binding (GO:0030170)|serine C-palmitoyltransferase activity (GO:0004758)			breast(2)|kidney(1)|large_intestine(4)|lung(4)|ovary(1)|skin(1)|urinary_tract(1)	14					L-Serine(DB00133)	TCTCCACCAGAACCCACTGCT	0.652																																																0													33	36	35					9																	94877626		2197	4292	6489	SO:0001819	synonymous_variant	10558			Y08685	CCDS6692.1, CCDS6693.1	9q22.31	2014-09-17	2003-12-02		ENSG00000090054	ENSG00000090054	2.3.1.50		11277	protein-coding gene	gene with protein product		605712	"hereditary sensory neuropathy, type 1"	HSN1		9363775	Standard	NM_006415		Approved	LCB1, SPTI, HSAN1, hLCB1	uc004arl.1	O15269	OTTHUMG00000021047	ENST00000262554.2:c.27T>A	9.37:g.94877626A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K681|Q5VWB4|Q96IX6	Silent	SNP	ENST00000262554.2	37	CCDS6692.1																																																																																				0.652	SPTLC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055553.1	NM_006415		T	94877626	A	T	94877626	2	4	588	1	0	0	0	0	0	0	0	1	15135	233	9	5		5	SPTLC1	9	94877626	Silent	SNP	A	TCGA-G7-6790-01A-11D-1961-08	8292401	94877626	46335805	45	35021										
ADAMTS13	11093	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	136305491	136305491	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ggatcggagggcgctatgtcGtggctgggaagatgagcatc	18	7	0	2			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr9:136305491G>C	ENST00000371929.3	+	16	2257	c.1813G>C	c.(1813-1815)Gtg>Ctg	p.V605L	ADAMTS13_ENST00000371916.1_3'UTR|ADAMTS13_ENST00000356589.2_Missense_Mutation_p.V574L|ADAMTS13_ENST00000355699.2_Missense_Mutation_p.V605L|ADAMTS13_ENST00000536611.1_Missense_Mutation_p.V277L|ADAMTS13_ENST00000485925.1_3'UTR	NM_139025.3|NM_139027.3	NP_620594.1|NP_620596.2	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 13	605	Spacer.				cell-matrix adhesion (GO:0007160)|glycoprotein metabolic process (GO:0009100)|integrin-mediated signaling pathway (GO:0007229)|peptide catabolic process (GO:0043171)|platelet activation (GO:0030168)|protein processing (GO:0016485)|proteolysis (GO:0006508)|response to interferon-gamma (GO:0034341)|response to interleukin-4 (GO:0070670)|response to tumor necrosis factor (GO:0034612)	cell surface (GO:0009986)|extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|integrin binding (GO:0005178)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|lung(13)|ovary(2)|prostate(3)|skin(4)	36				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		GCGCTATGTCGTGGCTGGGAA	0.627																																																0													139	98	112					9																	136305491		2203	4300	6503	SO:0001583	missense	11093			AJ011374	CCDS6970.1, CCDS6971.1, CCDS6972.1	9q34	2008-07-21	2005-08-19	2001-09-21	ENSG00000160323	ENSG00000160323		"ADAM metallopeptidases with thrombospondin type 1 motif"	1366	protein-coding gene	gene with protein product		604134	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 13"	C9orf8		11557746, 11535495	Standard	NM_139025		Approved	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322	uc004cdv.4	Q76LX8	OTTHUMG00000020876	ENST00000371929.3:c.1813G>C	9.37:g.136305491G>C	ENSP00000360997:p.Val605Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UY16|Q710F6|Q711T8|Q96L37|Q9H0G3|Q9UGQ1	Missense_Mutation	SNP	ENST00000371929.3	37	CCDS6970.1	.	.	.	.	.	.	.	.	.	.	G	14.87	2.663418	0.47572	.	.	ENSG00000160323	ENST00000371929;ENST00000355699;ENST00000356589;ENST00000536611	T;T;T;T	0.62788	0.04;0.0;0.06;0.49	5.21	4.31	0.51392	.	.	.	.	.	T	0.61912	0.2385	N	0.25825	0.765	0.41780	D	0.989816	D;D;D;D	0.89917	1.0;1.0;1.0;0.992	D;D;D;P	0.91635	0.997;0.999;0.99;0.742	T	0.59241	-0.7491	9	0.02654	T	1	.	12.261	0.54651	0.0833:0.0:0.9167:0.0	.	605;574;605;277	Q76LX8;Q76LX8-3;Q76LX8-2;Q9UGQ1	ATS13_HUMAN;.;.;.	L	605;605;574;277	ENSP00000360997:V605L;ENSP00000347927:V605L;ENSP00000348997:V574L;ENSP00000444504:V277L	ENSP00000347927:V605L	V	+	1	0	ADAMTS13	135295312	1.000000	0.71417	0.300000	0.25030	0.035000	0.12851	5.003000	0.63959	1.191000	0.43056	0.561000	0.74099	GTG		0.627	ADAMTS13-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000054920.1	NM_139025		C	136305491	G	C	136305491	3	2	588	1	0	0	0	0	1	0	0	0	258	1145	40	4	1875	4	ADAMTS13	9	136305491	Missense_Mutation	SNP	G	TCGA-G7-6790-01A-11D-1961-08	41427865	136305491	4907940	46	35022										
JMJD1C	221037	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	64968980	64968980	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	aggggtgggctgatgtagccAaggactgggagaattctatt	16	5	1	2			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr10:64968980A>T	ENST00000399262.2	-	9	2928	c.2710T>A	c.(2710-2712)Tgg>Agg	p.W904R	JMJD1C_ENST00000399251.1_Missense_Mutation_p.W685R|JMJD1C_ENST00000402544.1_Missense_Mutation_p.W685R|JMJD1C_ENST00000542921.1_Missense_Mutation_p.W722R	NM_032776.1	NP_116165.1	Q15652	JHD2C_HUMAN	jumonji domain containing 1C	904					blood coagulation (GO:0007596)|chromatin modification (GO:0016568)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	intracellular (GO:0005622)|nucleoplasm (GO:0005654)	dioxygenase activity (GO:0051213)|metal ion binding (GO:0046872)|thyroid hormone receptor binding (GO:0046966)			breast(2)|central_nervous_system(2)|cervix(1)|endometrium(8)|kidney(8)|large_intestine(9)|lung(27)|ovary(6)|prostate(4)|skin(4)|stomach(3)|upper_aerodigestive_tract(3)	77	Prostate(12;0.0119)|all_hematologic(501;0.191)					TGATGTAGCCAAGGACTGGGA	0.433																																																0													65	59	61					10																	64968980		1882	4108	5990	SO:0001583	missense	221037			L40411	CCDS41532.1, CCDS60538.1	10q22.1	2011-05-25	2004-03-31	2004-04-01	ENSG00000171988	ENSG00000171988			12313	protein-coding gene	gene with protein product		604503	"thyroid hormone receptor interactor 8"	TRIP8		7776974	Standard	XM_005269624		Approved	DKFZp761F0118, KIAA1380, FLJ14374	uc001jmn.3	Q15652	OTTHUMG00000018311	ENST00000399262.2:c.2710T>A	10.37:g.64968980A>T	ENSP00000382204:p.Trp904Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A0T124|Q5SQZ8|Q5SQZ9|Q5SR00|Q7Z3E7|Q8N3U0|Q96KB9|Q9P2G7	Missense_Mutation	SNP	ENST00000399262.2	37	CCDS41532.1	.	.	.	.	.	.	.	.	.	.	A	24.0	4.480118	0.84747	.	.	ENSG00000171988	ENST00000399262;ENST00000402544;ENST00000399251;ENST00000542921	T;T;T;T	0.63096	-0.02;-0.02;-0.02;-0.02	6.03	6.03	0.97812	.	0.000000	0.85682	D	0.000000	T	0.77624	0.4158	M	0.62723	1.935	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.79105	-0.1940	10	0.66056	D	0.02	-4.4645	16.5655	0.84588	1.0:0.0:0.0:0.0	.	904;722	Q15652;A0T124	JHD2C_HUMAN;.	R	904;685;685;722	ENSP00000382204:W904R;ENSP00000384990:W685R;ENSP00000382195:W685R;ENSP00000444682:W722R	ENSP00000382195:W685R	W	-	1	0	JMJD1C	64638986	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	8.372000	0.90127	2.302000	0.77476	0.533000	0.62120	TGG		0.433	JMJD1C-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048249.2	NM_004241		T	64968980	A	T	64968980	3	4	588	1	0	0	0	0	1	0	0	0	7957	130	5	5	4984	5	JMJD1C	10	64968980	Missense_Mutation	SNP	A	TCGA-G7-6790-01A-11D-1961-08		64968980	70565767	47	35023										
DBX1	120237	bcgsc.ca	37	chr11	20177947	20177947	+	Frame_Shift_Del	DEL	G	G	-													0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ggcggtggctggggctgcccGggccctcctcctcctcttcg							TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr11:20177947delG	ENST00000524983.2	-	4	1133	c.845delC	c.(844-846)ccgfs	p.P282fs	DBX1_ENST00000227256.3_Frame_Shift_Del_p.P321fs			A6NMT0	DBX1_HUMAN	developing brain homeobox 1	282					regulation of transcription from RNA polymerase II promoter (GO:0006357)|ventral spinal cord interneuron specification (GO:0021521)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)			endometrium(2)|large_intestine(4)|lung(11)|ovary(1)|prostate(1)|skin(2)	21						GGGGCTGCCCGGGCCCTCCTC	0.751																																																0													8	11	10					11																	20177947		2164	4209	6373	SO:0001589	frameshift_variant	120237					11p15.1	2011-06-20				ENSG00000109851		"Homeoboxes / ANTP class : NKL subclass"	33185	protein-coding gene	gene with protein product						11239429	Standard	NM_001029865		Approved		uc021qey.1	A6NMT0		ENST00000524983.2:c.845delC	11.37:g.20177947delG	ENSP00000436881:p.Pro282fs	Somatic		WXS	Illumina HiSeq	Phase_1		Frame_Shift_Del	DEL	ENST00000524983.2	37																																																																																					0.751	DBX1-001	KNOWN	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000387585.2	NM_001029865		-	20177947	G	-	20177947	7	5	588	1	0	1	0	1	0	0	0	0	4261	1116	39	0	190	0	DBX1	11	20177947	Frame_Shift_Del	DEL	G	TCGA-G7-6790-01A-11D-1961-08		20177947	114828569	48	35024										
LRRC4C	57689	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	40136275	40136275	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	tgatgattttggtagtcttcAtgacctcatcaattcctggg	9	8	4	3			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr11:40136275A>C	ENST00000278198.2	-	2	3531	c.1568T>G	c.(1567-1569)aTg>aGg	p.M523R	LRRC4C_ENST00000528697.1_Missense_Mutation_p.M523R|LRRC4C_ENST00000530763.1_Missense_Mutation_p.M523R|LRRC4C_ENST00000527150.1_Missense_Mutation_p.M523R			Q9HCJ2	LRC4C_HUMAN	leucine rich repeat containing 4C	523					regulation of axonogenesis (GO:0050770)	cell junction (GO:0030054)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|postsynaptic membrane (GO:0045211)				NS(2)|central_nervous_system(3)|endometrium(1)|large_intestine(14)|lung(43)|ovary(5)|prostate(2)|skin(9)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	86		all_lung(304;0.0575)|Lung NSC(402;0.138)				GGTAGTCTTCATGACCTCATC	0.478																																																0													174	145	155					11																	40136275		2203	4300	6503	SO:0001583	missense	57689			AB046800	CCDS31464.1	11p12	2013-01-14				ENSG00000148948		"Immunoglobulin superfamily / I-set domain containing"	29317	protein-coding gene	gene with protein product		608817				14595443	Standard	NM_020929		Approved	KIAA1580, NGL-1	uc031pzu.1	Q9HCJ2		ENST00000278198.2:c.1568T>G	11.37:g.40136275A>C	ENSP00000278198:p.Met523Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0T1|Q7L0N3	Missense_Mutation	SNP	ENST00000278198.2	37	CCDS31464.1	.	.	.	.	.	.	.	.	.	.	A	15.37	2.813848	0.50527	.	.	ENSG00000148948	ENST00000278198;ENST00000527150;ENST00000528697;ENST00000530763	T;T;T;T	0.38887	1.11;1.11;1.11;1.11	5.99	5.99	0.97316	.	0.000000	0.85682	D	0.000000	T	0.63319	0.2501	M	0.69358	2.11	0.80722	D	1	D	0.76494	0.999	D	0.72982	0.979	T	0.65940	-0.6046	10	0.72032	D	0.01	.	15.6754	0.77316	1.0:0.0:0.0:0.0	.	523	Q9HCJ2	LRC4C_HUMAN	R	523	ENSP00000278198:M523R;ENSP00000436976:M523R;ENSP00000437132:M523R;ENSP00000434761:M523R	ENSP00000278198:M523R	M	-	2	0	LRRC4C	40092851	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.339000	0.96797	2.291000	0.77112	0.533000	0.62120	ATG		0.478	LRRC4C-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389499.1	NM_020929		C	40136275	A	C	40136275	3	2	588	1	0	0	0	0	1	0	0	0	9015	217	8	5	358	5	LRRC4C	11	40136275	Missense_Mutation	SNP	A	TCGA-G7-6790-01A-11D-1961-08	19958328	40136275	94870241	49	35025										
ACCS	84680	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	44105011	44105011	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ctttgaggaggaaatgctgcTctggcgccgctttttggaca	13	9	1	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr11:44105011T>C	ENST00000263776.8	+	14	1726	c.1292T>C	c.(1291-1293)cTc>cCc	p.L431P		NM_001127219.1|NM_032592.3	NP_001120691.1|NP_115981.1	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase homolog (Arabidopsis)(non-functional)	431					biosynthetic process (GO:0009058)		catalytic activity (GO:0003824)|protein homodimerization activity (GO:0042803)|pyridoxal phosphate binding (GO:0030170)			breast(4)|endometrium(3)|large_intestine(11)|lung(15)|ovary(1)|skin(1)	35						GAAATGCTGCTCTGGCGCCGC	0.567																																					Esophageal Squamous(158;148 1889 8077 23160 41213)											0													71	65	67					11																	44105011		2203	4300	6503	SO:0001583	missense	84680			AY026508	CCDS7907.1	11p11	2008-03-12	2008-01-28		ENSG00000110455	ENSG00000110455			23989	protein-coding gene	gene with protein product		608405				11470512	Standard	NM_032592		Approved	PHACS, ACS	uc009yks.1	Q96QU6	OTTHUMG00000166427	ENST00000263776.8:c.1292T>C	11.37:g.44105011T>C	ENSP00000263776:p.Leu431Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4E219|Q8WUL4|Q96LX5	Missense_Mutation	SNP	ENST00000263776.8	37	CCDS7907.1	.	.	.	.	.	.	.	.	.	.	T	16.09	3.025435	0.54683	.	.	ENSG00000110455	ENST00000263776	D	0.93488	-3.23	5.91	5.91	0.95273	Aminotransferase, class I/classII (1);Pyridoxal phosphate-dependent transferase, major region, subdomain 2 (1);Pyridoxal phosphate-dependent transferase, major domain (1);	0.073130	0.56097	D	0.000026	D	0.97942	0.9323	H	0.96943	3.91	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.99297	1.0900	10	0.87932	D	0	-19.4821	16.0098	0.80391	0.0:0.0:0.0:1.0	.	431	Q96QU6	1A1L1_HUMAN	P	431	ENSP00000263776:L431P	ENSP00000263776:L431P	L	+	2	0	ACCS	44061587	0.997000	0.39634	0.041000	0.18516	0.142000	0.21351	7.315000	0.78998	2.254000	0.74563	0.533000	0.62120	CTC		0.567	ACCS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389721.1	NM_032592		C	44105011	T	C	44105011	3	2	588	1	0	0	0	0	1	0	0	0	133	1551	54	3	1342	3	ACCS	11	44105011	Missense_Mutation	SNP	T	TCGA-G7-6790-01A-11D-1961-08	3968736	44105011	90901505	50	35026										
AHNAK	79026	broad.mit.edu	37	chr11	62288080	62288080	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	tcgcccttcacctttggaccTttcagattcaggtcaacttc	6	14	4	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr11:62288080T>G	ENST00000378024.4	-	5	14083	c.13809A>C	c.(13807-13809)aaA>aaC	p.K4603N	AHNAK_ENST00000257247.7_Intron|AHNAK_ENST00000530124.1_Intron	NM_001620.1	NP_001611.1	Q09666	AHNK_HUMAN	AHNAK nucleoprotein	4603					protein oligomerization (GO:0051259)|regulation of RNA splicing (GO:0043484)|regulation of voltage-gated calcium channel activity (GO:1901385)	actin cytoskeleton (GO:0015629)|cell-cell contact zone (GO:0044291)|costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|vesicle (GO:0031982)	poly(A) RNA binding (GO:0044822)|S100 protein binding (GO:0044548)|structural molecule activity conferring elasticity (GO:0097493)			NS(3)|autonomic_ganglia(1)|breast(10)|central_nervous_system(5)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(33)|large_intestine(40)|liver(1)|lung(108)|ovary(13)|pancreas(4)|prostate(5)|skin(16)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(6)	268		Melanoma(852;0.155)				CCTTTGGACCTTTCAGATTCA	0.507																																																0													103	102	103					11																	62288080		2202	4299	6501	SO:0001583	missense	79026			M80899	CCDS31584.1, CCDS44625.1	11q12-q13	2008-02-05	2007-03-30		ENSG00000124942	ENSG00000124942			347	protein-coding gene	gene with protein product	"desmoyokin"	103390	"AHNAK nucleoprotein (desmoyokin)"			7987395, 12153988	Standard	NM_024060		Approved	MGC5395	uc001ntl.3	Q09666	OTTHUMG00000167558	ENST00000378024.4:c.13809A>C	11.37:g.62288080T>G	ENSP00000367263:p.Lys4603Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A1A586	Missense_Mutation	SNP	ENST00000378024.4	37	CCDS31584.1	.	.	.	.	.	.	.	.	.	.	T	12.46	1.945631	0.34377	.	.	ENSG00000124942	ENST00000378024	T	0.01665	4.7	5.43	-4.89	0.03103	.	0.190348	0.43579	D	0.000541	T	0.11281	0.0275	H	0.95187	3.635	0.30066	N	0.8105	D	0.69078	0.997	D	0.79784	0.993	T	0.03728	-1.1009	10	0.20046	T	0.44	.	15.082	0.72122	0.0:0.3027:0.0:0.6973	.	4603	Q09666	AHNK_HUMAN	N	4603	ENSP00000367263:K4603N	ENSP00000367263:K4603N	K	-	3	2	AHNAK	62044656	0.003000	0.15002	0.838000	0.33150	0.111000	0.19643	-1.791000	0.01758	-0.699000	0.05077	-0.276000	0.10085	AAA		0.507	AHNAK-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395572.1	NM_024060		G	62288080	T	G	62288080	3	3	588	1	0	0	0	0	1	0	0	0	414	1606	56	5	3983	5	AHNAK	11	62288080	Missense_Mutation	SNP	T	TCGA-G7-6790-01A-11D-1961-08	18183069	62288080	72718436	51	35027										
MLL2	8085	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	49434235	49434235	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ggactggaagcgaggggtaaCgggtgatgggcaaaaagctt	18	5	0	1	rs375114492		TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr12:49434235C>T	ENST00000301067.7	-	31	7317	c.7318G>A	c.(7318-7320)Gtt>Att	p.V2440I		NM_003482.3	NP_003473.3	O14686	KMT2D_HUMAN	lysine (K)-specific methyltransferase 2D	2440	Pro-rich.				chromatin silencing (GO:0006342)|histone H3-K4 methylation (GO:0051568)|oocyte growth (GO:0001555)|oogenesis (GO:0048477)|positive regulation of cell proliferation (GO:0008284)|positive regulation of intracellular estrogen receptor signaling pathway (GO:0033148)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|response to estrogen (GO:0043627)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)										CGAGGGGTAACGGGTGATGGG	0.622																																																0								C	ILE/VAL	1,4177		0,1,2088	40	46	44		7318	5.2	0.8	12		44	0,8456		0,0,4228	no	missense	MLL2	NM_003482.3	29	0,1,6316	TT,TC,CC		0.0,0.0239,0.0079	probably-damaging	2440/5538	49434235	1,12633	2089	4228	6317	SO:0001583	missense	8085			AF010403	CCDS44873.1	12q13.12	2013-05-09	2013-05-09	2013-05-09	ENSG00000167548	ENSG00000167548		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	7133	protein-coding gene	gene with protein product		602113	"trinucleotide repeat containing 21", "myeloid/lymphoid or mixed-lineage leukemia 2"	TNRC21, MLL2		9247308	Standard	NM_003482		Approved	ALR, MLL4, CAGL114		O14686	OTTHUMG00000166524	ENST00000301067.7:c.7318G>A	12.37:g.49434235C>T	ENSP00000301067:p.Val2440Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O14687	Missense_Mutation	SNP	ENST00000301067.7	37	CCDS44873.1	.	.	.	.	.	.	.	.	.	.	C	12.39	1.924285	0.34002	2.39E-4	0.0	ENSG00000167548	ENST00000301067	T	0.80033	-1.33	5.21	5.21	0.72293	.	0.000000	0.34002	N	0.004349	T	0.77136	0.4086	L	0.36672	1.1	0.26063	N	0.981323	D	0.57899	0.981	P	0.44772	0.46	T	0.74553	-0.3627	10	0.87932	D	0	.	17.9117	0.88936	0.0:1.0:0.0:0.0	.	2440	O14686	MLL2_HUMAN	I	2440	ENSP00000301067:V2440I	ENSP00000301067:V2440I	V	-	1	0	MLL2	47720502	0.544000	0.26441	0.785000	0.31869	0.974000	0.67602	3.934000	0.56553	2.596000	0.87737	0.591000	0.81541	GTT		0.622	KMT2D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390183.2			T	49434235	C	T	49434235	3	4	588	1	0	0	0	0	1	0	0	0	9628	536	19	1	9391	1	MLL2	12	49434235	Missense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08		49434235	84417660	52	35028										
RDH5	5959	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	56115126	56115126	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gcagctggaccagagaggctTccgagtcctggccagctgcc	14	14	0	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr12:56115126T>C	ENST00000257895.5	+	2	310	c.158T>C	c.(157-159)tTc>tCc	p.F53S	RDH5_ENST00000547072.1_5'UTR|RP11-644F5.10_ENST00000550412.1_Intron|RP11-644F5.10_ENST00000549424.1_Intron|RDH5_ENST00000553160.1_Intron|RDH5_ENST00000548082.1_Missense_Mutation_p.F53S	NM_001199771.1|NM_002905.3	NP_001186700.1|NP_002896.2	Q92781	RDH1_HUMAN	retinol dehydrogenase 5 (11-cis/9-cis)	53					phototransduction, visible light (GO:0007603)|retinoid metabolic process (GO:0001523)|retinol metabolic process (GO:0042572)|visual perception (GO:0007601)	cell body (GO:0044297)|endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum membrane (GO:0005789)	retinol dehydrogenase activity (GO:0004745)			breast(2)|endometrium(1)|kidney(2)|large_intestine(2)|lung(2)|ovary(1)|pancreas(1)|skin(1)	12					Vitamin A(DB00162)	CAGAGAGGCTTCCGAGTCCTG	0.662											OREG0021907	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													37	40	39					12																	56115126		2202	4299	6501	SO:0001583	missense	5959			U89717	CCDS31829.1	12q13-q14	2013-06-03	2006-05-09			ENSG00000135437	1.1.1.105	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 2"	9940	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 9C, member 5"	601617	"retinol dehydrogenase 5 (11-cis and 9-cis)"	RDH1		9115228, 8884265, 19027726	Standard	NM_002905		Approved	HSD17B9, SDR9C5	uc001shl.3	Q92781	OTTHUMG00000170126	ENST00000257895.5:c.158T>C	12.37:g.56115126T>C	ENSP00000257895:p.Phe53Ser	Somatic	1013	WXS	Illumina HiSeq	Phase_I	O00179|Q8TAI2	Missense_Mutation	SNP	ENST00000257895.5	37	CCDS31829.1	.	.	.	.	.	.	.	.	.	.	T	16.32	3.091465	0.55968	.	.	ENSG00000135437	ENST00000257895;ENST00000548082	D;D	0.93019	-3.15;-3.15	5.11	3.88	0.44766	NAD(P)-binding domain (1);	0.095258	0.64402	D	0.000001	D	0.95636	0.8581	M	0.74881	2.28	0.58432	D	0.999993	D	0.76494	0.999	D	0.76575	0.988	D	0.95464	0.8545	10	0.87932	D	0	.	10.0549	0.42239	0.0:0.0:0.1688:0.8312	.	53	Q92781	RDH1_HUMAN	S	53	ENSP00000257895:F53S;ENSP00000447128:F53S	ENSP00000257895:F53S	F	+	2	0	RDH5	54401393	1.000000	0.71417	1.000000	0.80357	0.078000	0.17371	4.981000	0.63819	2.062000	0.61559	0.533000	0.62120	TTC		0.662	RDH5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407493.1	NM_002905		C	56115126	T	C	56115126	3	2	588	1	0	0	0	0	1	0	0	0	13208	1783	62	3	160	3	RDH5	12	56115126	Missense_Mutation	SNP	T	TCGA-G7-6790-01A-11D-1961-08	6680891	56115126	77736769	53	35029										
AGAP2	100130776	broad.mit.edu;bcgsc.ca	37	chr12	58120789	58120789	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ttgcgtgatgacgacgtgggCgagctcggccgccaggtgga	18	10	0	2			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr12:58120789C>T	ENST00000542466.2	+	2	150	c.14C>T	c.(13-15)gCg>gTg	p.A5V	AGAP2_ENST00000547588.1_Missense_Mutation_p.A1102T|RP11-571M6.8_ENST00000548410.2_RNA|AGAP2_ENST00000257897.3_Missense_Mutation_p.A746T					AGAP2 antisense RNA 1																		ACGACGTGGGCGAGCTCGGCC	0.647											OREG0021951	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													18	20	19					12																	58120789		2202	4300	6502	SO:0001583	missense	116986			BC039697, BC069024		12q14.1	2013-05-30			ENSG00000255737	ENSG00000255737		"Long non-coding RNAs"	48633	non-coding RNA	RNA, long non-coding							Standard	NR_027032		Approved				OTTHUMG00000170286	ENST00000542466.2:c.14C>T	12.37:g.58120789C>T	ENSP00000437523:p.Ala5Val	Somatic	1028	WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000542466.2	37		.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	C|C|C	17.61|17.61|17.61	3.432070|3.432070|3.432070	0.62844|0.62844|0.62844	.|.|.	.|.|.	ENSG00000135439|ENSG00000255737|ENSG00000135439	ENST00000257897;ENST00000547588|ENST00000542466|ENST00000328568	T;T|.|.	0.64260|.|.	-0.09;-0.09|.|.	4.62|4.62|4.62	3.72|3.72|3.72	0.42706|0.42706|0.42706	Ankyrin repeat-containing domain (3);|.|.	0.192175|0.192175|.	0.43110|0.43110|.	D|D|.	0.000610|0.000610|.	T|T|T	0.42675|0.42675|0.42675	0.1213|0.1213|0.1213	L|L|L	0.33668|0.33668|0.33668	1.02|1.02|1.02	0.31617|0.31617|0.31617	N|N|N	0.650763|0.650763|0.650763	D;D;D|D|.	0.63880|0.65815|.	0.989;0.98;0.993|0.995|.	P;P;P|P|.	0.51055|0.49637|.	0.651;0.525;0.657|0.617|.	T|T|T	0.48352|0.48352|0.48352	-0.9043|-0.9043|-0.9043	10|9|5	0.87932|0.87932|.	D|D|.	0|0|.	.|.|.	11.8047|11.8047|11.8047	0.52147|0.52147|0.52147	0.317:0.683:0.0:0.0|0.317:0.683:0.0:0.0|0.317:0.683:0.0:0.0	.|.|.	746;1102;1102|5|.	Q99490-2;F8VVT9;Q99490|B7Z718|.	.;.;AGAP2_HUMAN|.|.	T|V|H	746;1102|5|945	ENSP00000257897:A746T;ENSP00000449241:A1102T|.|.	ENSP00000257897:A746T|ENSP00000437523:A5V|.	A|A|R	-|+|-	1|2|2	0|0|0	AGAP2|RP11-571M6.6|AGAP2	56407056|56407056|56407056	0.926000|0.926000|0.926000	0.31397|0.31397|0.31397	1.000000|1.000000|1.000000	0.80357|0.80357|0.80357	0.948000|0.948000|0.948000	0.59901|0.59901|0.59901	1.941000|1.941000|1.941000	0.40233|0.40233|0.40233	1.047000|1.047000|1.047000	0.40274|0.40274|0.40274	0.455000|0.455000|0.455000	0.32223|0.32223|0.32223	GCC|GCG|CGC		0.647	AGAP2-AS1-001	PUTATIVE	basic|appris_principal|exp_conf	protein_coding	protein_coding	OTTHUMT00000408368.1			T	58120789	C	T	58120789	3	4	588	1	0	0	0	0	1	0	0	0	368	768	27	1	282	1	AGAP2	12	58120789	Missense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08	2005663	58120789	75731106	54	35030										
HNF1A	6927	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	121437343	121437343	+	Nonsense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ggcttcacacgccggcatctCaggccaccaccctccacgtc	8	20	2	0			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr12:121437343C>T	ENST00000257555.6	+	9	1907	c.1681C>T	c.(1681-1683)Cag>Tag	p.Q561*	HNF1A_ENST00000544413.1_Nonsense_Mutation_p.Q568*|RP11-216P16.2_ENST00000606238.1_RNA|HNF1A_ENST00000541395.1_Nonsense_Mutation_p.Q592*			P20823	HNF1A_HUMAN	HNF1 homeobox A	561					glucose homeostasis (GO:0042593)|glucose import (GO:0046323)|insulin secretion (GO:0030073)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription initiation from RNA polymerase II promoter (GO:0060261)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|renal glucose absorption (GO:0035623)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|protein complex (GO:0043234)	DNA binding (GO:0003677)|protein dimerization activity (GO:0046983)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(3)|central_nervous_system(2)|cervix(1)|endometrium(8)|large_intestine(19)|liver(175)|lung(9)|ovary(2)|prostate(1)|urinary_tract(1)	221	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					GCCGGCATCTCAGGCCACCAC	0.701									Hepatic Adenoma, Familial Clustering of																																							0			GRCh37	CM056410	HNF1A	M							28	28	28					12																	121437343		2201	4300	6501	SO:0001587	stop_gained	6927	Familial Cancer Database	incl. Maturity-Onset Diabetes of the Young type 3, MODY3	M57732	CCDS9209.1	12q24.31	2014-09-17	2007-08-24	2007-08-24	ENSG00000135100	ENSG00000135100		"Homeoboxes / HNF class"	11621	protein-coding gene	gene with protein product		142410	"transcription factor 1, hepatic; LF-B1, hepatic nuclear factor (HNF1), albumin proximal factor"	MODY3, TCF1		1535333, 7795649	Standard	NM_000545		Approved	HNF1, LFB1	uc001tzg.3	P20823	OTTHUMG00000151015	ENST00000257555.6:c.1681C>T	12.37:g.121437343C>T	ENSP00000257555:p.Gln561*	Somatic		WXS	Illumina HiSeq	Phase_I	A5Z2R8|E0YMJ5|E0YMK0|E0YMK1|E2I9R4|E2I9R5|F5H5U3|Q2M3H2|Q99861	Nonsense_Mutation	SNP	ENST00000257555.6	37	CCDS9209.1	.	.	.	.	.	.	.	.	.	.	C	37	6.366855	0.97511	.	.	ENSG00000135100	ENST00000257555;ENST00000535125;ENST00000537424;ENST00000543027;ENST00000541395;ENST00000544413	.	.	.	5.8	5.8	0.92144	.	0.246461	0.28754	N	0.014249	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.59425	D	0.04	-4.9172	17.2189	0.86952	0.0:1.0:0.0:0.0	.	.	.	.	X	561;453;561;382;592;568	.	ENSP00000257555:Q561X	Q	+	1	0	HNF1A	119921726	0.929000	0.31497	0.953000	0.39169	0.944000	0.59088	3.336000	0.52113	2.741000	0.93983	0.650000	0.86243	CAG		0.701	HNF1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320957.5	NM_000545		T	121437343	C	T	121437343	4	4	588	1	0	0	0	0	0	1	0	0	7258	827	29	2	1715	2	HNF1A	12	121437343	Nonsense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08	63316554	121437343	12414552	55	35031										
HMGB1	3146	broad.mit.edu	37	chr13	31035512	31035512	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	acttattcatcatcatcatcTtcttcttcatcttcatcttc	0	13	11	0	rs200836895	byFrequency	TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr13:31035512T>A	ENST00000405805.1	-	5	1570	c.630A>T	c.(628-630)gaA>gaT	p.E210D	HMGB1_ENST00000399494.1_Missense_Mutation_p.E210D|HMGB1_ENST00000341423.5_Missense_Mutation_p.E210D|HMGB1_ENST00000468384.1_5'Flank|HMGB1_ENST00000399489.1_3'UTR|HMGB1_ENST00000339872.4_Missense_Mutation_p.E210D			P09429	HMGB1_HUMAN	high mobility group box 1	210	Asp/Glu-rich (acidic).				apoptotic DNA fragmentation (GO:0006309)|apoptotic process (GO:0006915)|base-excision repair, DNA ligation (GO:0006288)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|dendritic cell chemotaxis (GO:0002407)|DNA ligation involved in DNA repair (GO:0051103)|DNA recombination (GO:0006310)|DNA topological change (GO:0006265)|inflammatory response to antigenic stimulus (GO:0002437)|innate immune response (GO:0045087)|myeloid dendritic cell activation (GO:0001773)|negative regulation of apoptotic cell clearance (GO:2000426)|negative regulation of RNA polymerase II transcriptional preinitiation complex assembly (GO:0017055)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron projection development (GO:0031175)|positive chemotaxis (GO:0050918)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of DNA binding (GO:0043388)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|V(D)J recombination (GO:0033151)	cell surface (GO:0009986)|condensed chromosome (GO:0000793)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chemoattractant activity (GO:0042056)|cytokine activity (GO:0005125)|damaged DNA binding (GO:0003684)|DNA binding, bending (GO:0008301)|double-stranded DNA binding (GO:0003690)|poly(A) RNA binding (GO:0044822)|RAGE receptor binding (GO:0050786)|repressing transcription factor binding (GO:0070491)|sequence-specific DNA binding transcription factor activity (GO:0003700)|single-stranded DNA binding (GO:0003697)|transcription factor binding (GO:0008134)			endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(2)|lung(1)|ovary(1)	8		Lung SC(185;0.0257)		all cancers(112;0.072)|OV - Ovarian serous cystadenocarcinoma(117;0.177)|Lung(94;0.216)|GBM - Glioblastoma multiforme(144;0.232)		CATCAtcatcttcttcttcat	0.378													T|||	6	0.00119808	0.003	0.0	5008	,	,		18295	0.0		0.0	False		,,,				2504	0.002															0													20	25	23					13																	31035512		1894	4135	6029	SO:0001583	missense	3146			D63874	CCDS9335.1	13q12	2011-07-01	2011-04-05	2002-08-16	ENSG00000189403	ENSG00000189403		"High-mobility group / Canonical"	4983	protein-coding gene	gene with protein product	"high mobility group box 1", "Sulfoglucuronyl carbohydrate binding protein", "Amphoterin", "high mobility group protein 1"	163905	"high-mobility group (nonhistone chromosomal) protein 1", "high-mobility group box 1"	HMG1		8661151, 11279268	Standard	NM_002128		Approved	HMG3, SBP-1, DKFZp686A04236	uc001usx.3	P09429	OTTHUMG00000016670	ENST00000405805.1:c.630A>T	13.37:g.31035512T>A	ENSP00000384678:p.Glu210Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A5D8W9|Q14321|Q5T7C3|Q6IBE1	Missense_Mutation	SNP	ENST00000405805.1	37	CCDS9335.1	.	.	.	.	.	.	.	.	.	.	T	13.77	2.336740	0.41398	.	.	ENSG00000189403	ENST00000405805;ENST00000339872;ENST00000341423;ENST00000399494	T;T;T;T	0.65178	-0.14;-0.14;-0.14;-0.14	5.68	-1.58	0.08479	Armadillo-like helical (1);	0.305542	0.22770	N	0.055856	T	0.33440	0.0863	N	0.08118	0	0.80722	D	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.02901	-1.1096	10	0.87932	D	0	.	4.5078	0.11896	0.474:0.2443:0.0:0.2817	.	171;210	B3KQ05;P09429	.;HMGB1_HUMAN	D	210	ENSP00000384678:E210D;ENSP00000343040:E210D;ENSP00000345347:E210D;ENSP00000382417:E210D	ENSP00000343040:E210D	E	-	3	2	HMGB1	29933512	0.999000	0.42202	0.997000	0.53966	0.995000	0.86356	0.152000	0.16302	-0.149000	0.11215	-0.276000	0.10085	GAA		0.378	HMGB1-012	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000303998.2	NM_002128		A	31035512	T	A	31035512	3	1	588	1	0	0	0	0	1	0	0	0	7232	1606	56	5	21	5	HMGB1	13	31035512	Missense_Mutation	SNP	T	TCGA-G7-6790-01A-11D-1961-08		31035512	84134366	56	35032										
EPSTI1	94240	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	43463356	43463357	+	Intron	DNP	CT	CT	TA													0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	aagtgacccaccttaggtgcCtcgaaaaaactaatagagaa							TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr13:43463356_43463357CT>TA	ENST00000398762.3	-	12	948				EPSTI1_ENST00000313624.7_Intron|EPSTI1_ENST00000313640.7_Nonsense_Mutation_p.R324*			Q96J88	ESIP1_HUMAN	epithelial stromal interaction 1 (breast)											endometrium(2)|kidney(1)|large_intestine(1)|lung(11)|ovary(1)|skin(1)	17		Lung NSC(96;3.6e-06)|Breast(139;0.00869)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		GBM - Glioblastoma multiforme(144;0.000528)|BRCA - Breast invasive adenocarcinoma(63;0.0858)		CCTTAGGTGCCTCGAAAAAACT	0.292																																																0																																										SO:0001627	intron_variant	94240			AF396928	CCDS9387.1, CCDS31964.1	13q13.3	2011-06-27			ENSG00000133106	ENSG00000133106			16465	protein-coding gene	gene with protein product	"epithelial stromal interaction protein 1"	607441				11991720	Standard	NM_033255		Approved	BRESI1, MGC29634	uc001uyw.2	Q96J88	OTTHUMG00000016814	ENST00000398762.3:c.949_949delinsTA	13.37:g.43463356_43463357delinsTA		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVC7|Q8NDQ7	Nonsense_Mutation	DNP	ENST00000398762.3	37	CCDS9387.1																																																																																				0.292	EPSTI1-010	PUTATIVE	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000400321.1	NM_001002264		TA	43463357	CT	TA	43463356	1	4	588	0	1	0	0	0	0	0	0	0	5200	681	24	2		2	EPSTI1	13	43463356	Intron	DNP	CT	TCGA-G7-6790-01A-11D-1961-08	12427844	43463356	71706522	57	35033										
CCDC70	83446	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	52439743	52439743	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ggactttccgaggcaagatcCatgctttccggggccagatc	12	12	0	2			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr13:52439743C>T	ENST00000242819.4	+	2	525	c.229C>T	c.(229-231)Cat>Tat	p.H77Y		NM_031290.2	NP_112580.2	Q6NSX1	CCD70_HUMAN	coiled-coil domain containing 70	77						extracellular region (GO:0005576)|plasma membrane (GO:0005886)				breast(1)|large_intestine(4)|lung(7)|skin(2)|urinary_tract(1)	15		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)		AGGCAAGATCCATGCTTTCCG	0.463																																																0													58	65	62					13																	52439743		2203	4300	6503	SO:0001583	missense	83446				CCDS9431.1	13q14.3	2006-02-07			ENSG00000123171	ENSG00000123171			25303	protein-coding gene	gene with protein product						11230166	Standard	NM_031290		Approved	DKFZP434K1172, FLJ25853	uc001vfu.4	Q6NSX1	OTTHUMG00000016950	ENST00000242819.4:c.229C>T	13.37:g.52439743C>T	ENSP00000242819:p.His77Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N7A8|Q9H097	Missense_Mutation	SNP	ENST00000242819.4	37	CCDS9431.1	.	.	.	.	.	.	.	.	.	.	C	4.558	0.103562	0.08731	.	.	ENSG00000123171	ENST00000242819	T	0.20463	2.07	5.19	-0.626	0.11544	.	0.950993	0.08647	N	0.914676	T	0.13670	0.0331	N	0.22421	0.69	0.09310	N	1	B	0.18013	0.025	B	0.21708	0.036	T	0.35674	-0.9779	10	0.62326	D	0.03	-14.9052	6.1269	0.20184	0.4441:0.3965:0.0:0.1594	.	77	Q6NSX1	CCD70_HUMAN	Y	77	ENSP00000242819:H77Y	ENSP00000242819:H77Y	H	+	1	0	CCDC70	51337744	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.815000	0.04481	-0.051000	0.13334	-0.311000	0.09066	CAT		0.463	CCDC70-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045033.2	NM_031290		T	52439743	C	T	52439743	3	4	588	1	0	0	0	0	1	0	0	0	2845	594	21	2	231	2	CCDC70	13	52439743	Missense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08	8976387	52439743	62730135	58	35034										
PCDH8	5100	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	53418949	53418949	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	cagtgacgtgctcttacagaAggttgacatctgggctggtg	14	8	2	3			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr13:53418949A>T	ENST00000377942.3	-	3	3162	c.2959T>A	c.(2959-2961)Ttc>Atc	p.F987I	PCDH8_ENST00000338862.4_Missense_Mutation_p.F890I	NM_002590.3	NP_002581.2	O95206	PCDH8_HUMAN	protocadherin 8	987					cell-cell signaling (GO:0007267)|homophilic cell adhesion (GO:0007156)|morphogenesis of embryonic epithelium (GO:0016331)|somitogenesis (GO:0001756)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|cell projection (GO:0042995)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	calcium ion binding (GO:0005509)			breast(1)|central_nervous_system(2)|endometrium(2)|large_intestine(5)|lung(23)|ovary(1)|skin(1)|urinary_tract(1)	36		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		CTCTTACAGAAGGTTGACATC	0.602																																					GBM(36;25 841 9273 49207)											0													163	95	118					13																	53418949		2203	4300	6503	SO:0001583	missense	5100			AF061573	CCDS9438.1, CCDS9439.1	13q21.1	2010-02-22			ENSG00000136099	ENSG00000136099		"Cadherins / Protocadherins : Non-clustered"	8660	protein-coding gene	gene with protein product		603580				9787079, 9315676	Standard	NM_002590		Approved	PAPC, ARCADLIN	uc001vhi.3	O95206	OTTHUMG00000016979	ENST00000377942.3:c.2959T>A	13.37:g.53418949A>T	ENSP00000367177:p.Phe987Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B4DMV7|Q5TAN1|Q5TAN2|Q8IYE9|Q96SF1	Missense_Mutation	SNP	ENST00000377942.3	37	CCDS9438.1	.	.	.	.	.	.	.	.	.	.	A	17.56	3.419256	0.62622	.	.	ENSG00000136099	ENST00000377942;ENST00000338862;ENST00000418407;ENST00000448969	T;T	0.56444	0.46;0.47	5.95	5.95	0.96441	.	0.000000	0.46442	D	0.000291	T	0.62816	0.2459	L	0.34521	1.04	0.52501	D	0.999954	D;D	0.89917	1.0;0.999	D;D	0.83275	0.996;0.994	T	0.59731	-0.7399	10	0.31617	T	0.26	.	16.4069	0.83677	1.0:0.0:0.0:0.0	.	890;987	O95206-2;O95206	.;PCDH8_HUMAN	I	987;890;513;830	ENSP00000367177:F987I;ENSP00000341350:F890I	ENSP00000341350:F890I	F	-	1	0	PCDH8	52316950	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	8.730000	0.91510	2.272000	0.75746	0.460000	0.39030	TTC		0.602	PCDH8-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000045108.2	NM_002590		T	53418949	A	T	53418949	3	4	588	1	0	0	0	0	1	0	0	0	11524	72	3	5	257	5	PCDH8	13	53418949	Missense_Mutation	SNP	A	TCGA-G7-6790-01A-11D-1961-08	979206	53418949	61750929	59	35035										
KTN1	3895	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	56107681	56107681	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	cacatgaattggagaagatgCaacaaaggtgactaaagtat	10	5	0	4			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr14:56107681C>T	ENST00000395314.3	+	16	2082	c.2014C>T	c.(2014-2016)Caa>Taa	p.Q672*	KTN1_ENST00000416613.1_Nonsense_Mutation_p.Q672*|KTN1_ENST00000395308.1_Nonsense_Mutation_p.Q672*|KTN1_ENST00000438792.2_Nonsense_Mutation_p.Q672*|KTN1_ENST00000395309.3_Nonsense_Mutation_p.Q672*|KTN1_ENST00000395311.1_Nonsense_Mutation_p.Q672*|KTN1_ENST00000413890.2_Nonsense_Mutation_p.Q672*	NM_001079521.1	NP_001072989.1	Q86UP2	KTN1_HUMAN	kinectin 1 (kinesin receptor)	672					microtubule-based movement (GO:0007018)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)			breast(4)|central_nervous_system(1)|large_intestine(8)|lung(1)|ovary(3)|skin(1)|upper_aerodigestive_tract(1)	19						GGAGAAGATGCAACAAAGGTG	0.338			T	RET	papillary thryoid																																		Dom	yes		14	14q22.1	3895	kinectin 1 (kinesin receptor)		E	0													72	65	68					14																	56107681		2203	4298	6501	SO:0001587	stop_gained	3895				CCDS41957.1, CCDS41958.1, CCDS41959.1	14q22.1	2008-05-02			ENSG00000126777	ENSG00000126777			6467	protein-coding gene	gene with protein product		600381				9605849	Standard	NM_001079521		Approved	KIAA0004, CG1	uc001xcc.3	Q86UP2	OTTHUMG00000140312	ENST00000395314.3:c.2014C>T	14.37:g.56107681C>T	ENSP00000378725:p.Gln672*	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ88|Q13999|Q14707|Q15387|Q17RZ5|Q5GGW3|Q86W57	Nonsense_Mutation	SNP	ENST00000395314.3	37	CCDS41957.1	.	.	.	.	.	.	.	.	.	.	C	39	7.766813	0.98477	.	.	ENSG00000126777	ENST00000413890;ENST00000395309;ENST00000438792;ENST00000395314;ENST00000395308;ENST00000395311;ENST00000416613	.	.	.	4.87	4.87	0.63330	.	0.125962	0.35495	N	0.003163	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-1.3869	12.113	0.53850	0.0:0.9168:0.0:0.0832	.	.	.	.	X	672	.	ENSP00000378719:Q672X	Q	+	1	0	KTN1	55177434	1.000000	0.71417	0.932000	0.37286	0.677000	0.39632	2.235000	0.43044	2.400000	0.81607	0.591000	0.81541	CAA		0.338	KTN1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000276912.2			T	56107681	C	T	56107681	4	4	588	1	0	0	0	0	0	1	0	0	8592	711	25	2	2072	2	KTN1	14	56107681	Nonsense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08		56107681	51241859	60	35036										
ITGA11	22801	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	68631978	68631978	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	cgacggctcccagcagaaccCcatcctggcattggggaggg	14	14	0	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr15:68631978C>G	ENST00000315757.7	-	11	1222	c.1136G>C	c.(1135-1137)gGg>gCg	p.G379A	ITGA11_ENST00000423218.2_Missense_Mutation_p.G379A	NM_001004439.1	NP_001004439.1	Q9UKX5	ITA11_HUMAN	integrin, alpha 11	379					cell adhesion (GO:0007155)|cell adhesion mediated by integrin (GO:0033627)|cell-matrix adhesion (GO:0007160)|collagen-activated signaling pathway (GO:0038065)|extracellular matrix organization (GO:0030198)|integrin-mediated signaling pathway (GO:0007229)|muscle organ development (GO:0007517)|osteoblast differentiation (GO:0001649)|substrate-dependent cell migration (GO:0006929)	focal adhesion (GO:0005925)|integrin alpha11-beta1 complex (GO:0034681)|integrin complex (GO:0008305)|membrane (GO:0016020)|plasma membrane (GO:0005886)	collagen binding (GO:0005518)|collagen binding involved in cell-matrix adhesion (GO:0098639)|collagen receptor activity (GO:0038064)|metal ion binding (GO:0046872)	p.G379V(1)		NS(2)|breast(1)|central_nervous_system(1)|endometrium(7)|kidney(6)|large_intestine(6)|lung(22)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	52						CAGCAGAACCCCATCCTGGCA	0.597																																																1	Substitution - Missense(1)	kidney(1)											61	65	63					15																	68631978		2028	4187	6215	SO:0001583	missense	22801			AF109681	CCDS45291.1	15q22.3-q23	2010-03-23				ENSG00000137809		"Integrins"	6136	protein-coding gene	gene with protein product		604789				10486209	Standard	NM_001004439		Approved	HsT18964	uc002ari.3	Q9UKX5		ENST00000315757.7:c.1136G>C	15.37:g.68631978C>G	ENSP00000327290:p.Gly379Ala	Somatic		WXS	Illumina HiSeq	Phase_I	J3KQM2|Q8WYI8|Q9UKQ1	Missense_Mutation	SNP	ENST00000315757.7	37	CCDS45291.1	.	.	.	.	.	.	.	.	.	.	C	20.8	4.049868	0.75846	.	.	ENSG00000137809	ENST00000315757;ENST00000423218;ENST00000535491;ENST00000537153	T;T	0.77750	-1.12;-1.12	5.09	5.09	0.68999	.	0.141219	0.64402	D	0.000005	D	0.86690	0.5993	M	0.84511	2.7	0.54753	D	0.999988	D;D	0.59357	0.985;0.984	P;P	0.55871	0.786;0.736	D	0.87055	0.2149	10	0.38643	T	0.18	.	17.5593	0.87901	0.0:1.0:0.0:0.0	.	379;379	A8K8T0;Q9UKX5	.;ITA11_HUMAN	A	379;379;14;379	ENSP00000327290:G379A;ENSP00000403392:G379A	ENSP00000327290:G379A	G	-	2	0	ITGA11	66419032	1.000000	0.71417	0.983000	0.44433	0.842000	0.47809	7.818000	0.86416	2.391000	0.81399	0.555000	0.69702	GGG		0.597	ITGA11-201	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding		NM_012211		G	68631978	C	G	68631978	3	3	588	1	0	0	0	0	1	0	0	0	7881	623	22	4	2510	4	ITGA11	15	68631978	Missense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08		68631978	33899414	61	35037										
SCAPER	49855	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	76673781	76673781	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	acgtaaactctgaatggccaCttggatggtattttgagtgt	11	6	1	2			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr15:76673781C>T	ENST00000563290.1	-	28	3738	c.3643G>A	c.(3643-3645)Gtg>Atg	p.V1215M	SCAPER_ENST00000324767.7_Missense_Mutation_p.V1215M|SCAPER_ENST00000538941.2_Missense_Mutation_p.V969M			Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	1215						endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)	metal ion binding (GO:0046872)			NS(1)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(8)|lung(16)|ovary(2)|prostate(2)|skin(1)|urinary_tract(2)	39						TGAATGGCCACTTGGATGGTA	0.443																																																0													92	88	89					15																	76673781		1939	4133	6072	SO:0001583	missense	49855			AB040887, AF242528	CCDS53961.1, CCDS53962.1	15q24.3	2012-10-05	2009-03-11	2007-08-20	ENSG00000140386	ENSG00000140386		"Zinc fingers, C2H2-type"	13081	protein-coding gene	gene with protein product		611611	"zinc finger protein 291"	ZNF291		17698606	Standard	NM_020843		Approved	Zfp291	uc002bby.3	Q9BY12	OTTHUMG00000172655	ENST00000563290.1:c.3643G>A	15.37:g.76673781C>T	ENSP00000454973:p.Val1215Met	Somatic		WXS	Illumina HiSeq	Phase_I	F5H7X8|H3BNR7|Q3B7X7|Q96BS9|Q9H3D8|Q9NT03|Q9P274	Missense_Mutation	SNP	ENST00000563290.1	37	CCDS53962.1	.	.	.	.	.	.	.	.	.	.	C	17.81	3.481299	0.63849	.	.	ENSG00000140386	ENST00000324767;ENST00000538941;ENST00000303521	T;T	0.32023	1.5;1.47	5.8	5.8	0.92144	.	0.000000	0.85682	D	0.000000	T	0.53334	0.1790	M	0.67953	2.075	0.51767	D	0.999932	D;D	0.65815	0.975;0.995	P;D	0.67231	0.793;0.95	T	0.53599	-0.8416	10	0.87932	D	0	.	15.5231	0.75881	0.0:0.8625:0.1375:0.0	.	1214;969	Q9BY12;F5H7X8	SCAPE_HUMAN;.	M	1215;969;1237	ENSP00000326924:V1215M;ENSP00000442190:V969M	ENSP00000303560:V1237M	V	-	1	0	SCAPER	74460836	1.000000	0.71417	0.920000	0.36463	0.589000	0.36550	5.651000	0.67951	2.740000	0.93945	0.650000	0.86243	GTG		0.443	SCAPER-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419698.1	NM_020843		T	76673781	C	T	76673781	3	4	588	1	0	0	0	0	1	0	0	0	13891	565	20	2	579	2	SCAPER	15	76673781	Missense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08	8041803	76673781	25857611	62	35038										
XYLT1	64131	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	17252766	17252766	+	Splice_Site	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gccaccaactggtcatttgtCctgtggaaacaaaccaaggg	10	11	1	0	rs369970325		TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr16:17252766C>G	ENST00000261381.6	-	6	1374	c.1290G>C	c.(1288-1290)agG>agC	p.R430S		NM_022166.3	NP_071449.1	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	430					cellular response to heat (GO:0034605)|chondroitin sulfate biosynthetic process (GO:0030206)|glycosaminoglycan biosynthetic process (GO:0006024)|heparan sulfate proteoglycan biosynthetic process (GO:0015012)	endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	acetylglucosaminyltransferase activity (GO:0008375)|protein xylosyltransferase activity (GO:0030158)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(9)|kidney(2)|large_intestine(7)|lung(35)|ovary(4)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	67						GGTCATTTGTCCTGTGGAAAC	0.498																																																0													82	76	78					16																	17252766		2197	4300	6497	SO:0001630	splice_region_variant	64131			AJ277441	CCDS10569.1	16p12	2013-02-25			ENSG00000103489	ENSG00000103489	2.4.2.26	"Glucosaminyl (N-acetyl) transferase and xylosyltransferase family"	15516	protein-coding gene	gene with protein product	"protein xylosyltransferase 1"	608124				11099377	Standard	NM_022166		Approved	XT-I, PXYLT1	uc002dfa.3	Q86Y38	OTTHUMG00000129975	ENST00000261381.6:c.1290-1G>C	16.37:g.17252766C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H1B6	Missense_Mutation	SNP	ENST00000261381.6	37	CCDS10569.1	.	.	.	.	.	.	.	.	.	.	C	19.84	3.902489	0.72754	.	.	ENSG00000103489	ENST00000261381	T	0.11495	2.77	4.9	3.93	0.45458	.	0.000000	0.85682	D	0.000000	T	0.32793	0.0841	M	0.82056	2.57	0.58432	D	0.999997	D	0.89917	1.0	D	0.91635	0.999	T	0.07404	-1.0774	10	0.72032	D	0.01	.	11.9464	0.52930	0.0:0.8562:0.0:0.1438	.	430	Q86Y38	XYLT1_HUMAN	S	430	ENSP00000261381:R430S	ENSP00000261381:R430S	R	-	3	2	XYLT1	17160267	1.000000	0.71417	1.000000	0.80357	0.969000	0.65631	2.638000	0.46562	2.398000	0.81561	0.563000	0.77884	AGG		0.498	XYLT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252241.2	NM_022166	Missense_Mutation	G	17252766	C	G	17252766	5	3	588	1	0	0	0	0	0	0	1	0	17475	869	30	4	1617	4	XYLT1	16	17252766	Splice_Site	SNP	C	TCGA-G7-6790-01A-11D-1961-08		17252766	73101987	63	35039										
DCUN1D3	123879	broad.mit.edu	37	chr16	20871518	20871518	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	acagggcaatggctatttccCgatgcagtgaccgctgccct	11	13	0	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr16:20871518C>A	ENST00000324344.4	-	3	890	c.605G>T	c.(604-606)cGg>cTg	p.R202L	DCUN1D3_ENST00000563934.1_Missense_Mutation_p.R202L|ERI2_ENST00000564349.1_Intron	NM_173475.2	NP_775746.1	Q8IWE4	DCNL3_HUMAN	DCN1, defective in cullin neddylation 1, domain containing 3	202	DCUN1. {ECO:0000255|PROSITE- ProRule:PRU00574}.				negative regulation of cell growth (GO:0030308)|positive regulation of apoptotic process (GO:0043065)|response to gamma radiation (GO:0010332)|response to UV-C (GO:0010225)	perinuclear region of cytoplasm (GO:0048471)				NS(2)|breast(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(3)|ovary(2)	14				GBM - Glioblastoma multiforme(48;0.249)		GGCTATTTCCCGATGCAGTGA	0.478																																																0													166	169	168					16																	20871518		2201	4300	6501	SO:0001583	missense	123879			BC040442	CCDS10592.1	16p12.3	2013-06-10	2013-06-10		ENSG00000188215	ENSG00000188215			28734	protein-coding gene	gene with protein product			"DCN1, defective in cullin neddylation 1, domain containing 3 (S. cerevisiae)"			15988528	Standard	NM_173475		Approved	MGC48972, FLJ41725, DKFZp686O0290	uc002dhz.3	Q8IWE4	OTTHUMG00000131553	ENST00000324344.4:c.605G>T	16.37:g.20871518C>A	ENSP00000319482:p.Arg202Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVY4	Missense_Mutation	SNP	ENST00000324344.4	37	CCDS10592.1	.	.	.	.	.	.	.	.	.	.	C	10.29	1.310323	0.23821	.	.	ENSG00000188215	ENST00000324344	.	.	.	6.08	6.08	0.98989	Domain of unknown function DUF298 (2);	0.000000	0.85682	D	0.000000	T	0.20333	0.0489	N	0.00329	-1.635	0.80722	D	1	B	0.27791	0.189	B	0.26969	0.075	T	0.48647	-0.9017	9	0.02654	T	1	-21.6441	20.6634	0.99662	0.0:1.0:0.0:0.0	.	202	Q8IWE4	DCNL3_HUMAN	L	202	.	ENSP00000319482:R202L	R	-	2	0	DCUN1D3	20779019	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.760000	0.85248	2.894000	0.99253	0.655000	0.94253	CGG		0.478	DCUN1D3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254415.2	NM_173475		A	20871518	C	A	20871518	3	1	588	1	0	0	0	0	1	0	0	0	4317	652	23	4	313	4	DCUN1D3	16	20871518	Missense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08	3618752	20871518	69483235	64	35040										
MYH13	8735	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	10227379	10227379	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	tctccttttcaactttcgtcAaggtcagctccaggtcatca	6	13	6	0			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr17:10227379A>T	ENST00000418404.3	-	22	3057	c.2894T>A	c.(2893-2895)tTg>tAg	p.L965*	MYH13_ENST00000252172.4_Nonsense_Mutation_p.L965*|RP11-401O9.3_ENST00000577743.1_RNA			Q9UKX3	MYH13_HUMAN	myosin, heavy chain 13, skeletal muscle	965					cellular response to starvation (GO:0009267)|metabolic process (GO:0008152)|muscle contraction (GO:0006936)	extracellular vesicular exosome (GO:0070062)|muscle myosin complex (GO:0005859)|myofibril (GO:0030016)|myosin filament (GO:0032982)	ATP binding (GO:0005524)|microfilament motor activity (GO:0000146)			breast(3)|cervix(2)|endometrium(11)|kidney(7)|large_intestine(21)|lung(48)|ovary(7)|skin(2)|upper_aerodigestive_tract(5)|urinary_tract(2)	108						AACTTTCGTCAAGGTCAGCTC	0.463																																																0													106	105	106					17																	10227379		2195	4300	6495	SO:0001587	stop_gained	8735			AF075248	CCDS45613.1	17p13	2011-09-27	2006-09-29			ENSG00000006788		"Myosins / Myosin superfamily : Class II"	7571	protein-coding gene	gene with protein product	"extraocular muscle myosin heavy chain", "extraocular myosin heavy chain"	603487	"myosin, heavy polypeptide 13, skeletal muscle"			9806854	Standard	NM_003802		Approved	MyHC-eo	uc002gmk.1	Q9UKX3		ENST00000418404.3:c.2894T>A	17.37:g.10227379A>T	ENSP00000404570:p.Leu965*	Somatic		WXS	Illumina HiSeq	Phase_I	O95252|Q9P0U8	Nonsense_Mutation	SNP	ENST00000418404.3	37	CCDS45613.1	.	.	.	.	.	.	.	.	.	.	A	42	9.641822	0.99227	.	.	ENSG00000006788	ENST00000252172;ENST00000418404	.	.	.	4.37	4.37	0.52481	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	14.0394	0.64665	1.0:0.0:0.0:0.0	.	.	.	.	X	965;591	.	ENSP00000252172:L965X	L	-	2	0	MYH13	10168104	1.000000	0.71417	0.965000	0.40720	0.705000	0.40729	8.981000	0.93465	1.950000	0.56595	0.533000	0.62120	TTG		0.463	MYH13-003	KNOWN	alternative_3_UTR|alternative_5_UTR|NMD_exception|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000442255.1	NM_003802		T	10227379	A	T	10227379	4	4	588	1	0	0	0	0	0	1	0	0	10039	131	5	5	2998	5	MYH13	17	10227379	Nonsense_Mutation	SNP	A	TCGA-G7-6790-01A-11D-1961-08		10227379	70967831	65	35041										
MYH8	4626	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	10309460	10309460	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	atttttcatctctcatttctTccagaagacccagaagtcca	4	12	4	3			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr17:10309460T>C	ENST00000403437.2	-	21	2424	c.2330A>G	c.(2329-2331)gAa>gGa	p.E777G	CTC-297N7.11_ENST00000587182.2_RNA|RP11-799N11.1_ENST00000399342.2_RNA|RP11-799N11.1_ENST00000581304.1_RNA	NM_002472.2	NP_002463.2	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle, perinatal	777	Myosin motor.				ATP catabolic process (GO:0006200)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|skeletal muscle contraction (GO:0003009)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|muscle myosin complex (GO:0005859)|myosin filament (GO:0032982)|sarcomere (GO:0030017)	actin filament binding (GO:0051015)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microfilament motor activity (GO:0000146)|myosin light chain binding (GO:0032027)|structural constituent of muscle (GO:0008307)			NS(3)|breast(8)|central_nervous_system(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(23)|lung(61)|ovary(3)|prostate(3)|skin(10)|upper_aerodigestive_tract(2)|urinary_tract(2)	134						TCTCATTTCTTCCAGAAGACC	0.413									Trismus-Pseudocamptodactyly Syndrome with Cardiac Myxoma and Freckling																																							0													113	108	110					17																	10309460		2203	4300	6503	SO:0001583	missense	4626	Familial Cancer Database	Carney Complex Variant		CCDS11153.1	17p13.1	2013-09-19	2006-09-29		ENSG00000133020	ENSG00000133020		"Myosins / Myosin superfamily : Class II"	7578	protein-coding gene	gene with protein product		160741	"myosin, heavy polypeptide 8, skeletal muscle, perinatal"			2373371	Standard	NM_002472		Approved	MyHC-peri, MyHC-pn	uc002gmm.2	P13535	OTTHUMG00000130361	ENST00000403437.2:c.2330A>G	17.37:g.10309460T>C	ENSP00000384330:p.Glu777Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q14910	Missense_Mutation	SNP	ENST00000403437.2	37	CCDS11153.1	.	.	.	.	.	.	.	.	.	.	T	24.3	4.512766	0.85389	.	.	ENSG00000133020	ENST00000252173;ENST00000403437	T	0.75260	-0.92	5.22	5.22	0.72569	Myosin head, motor domain (1);	0.000000	0.42420	U	0.000719	D	0.92182	0.7521	H	0.99415	4.555	0.58432	D	0.999999	D	0.71674	0.998	D	0.74674	0.984	D	0.95289	0.8393	10	0.66056	D	0.02	.	15.2675	0.73672	0.0:0.0:0.0:1.0	.	777	P13535	MYH8_HUMAN	G	777	ENSP00000384330:E777G	ENSP00000252173:E777G	E	-	2	0	MYH8	10250185	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.825000	0.86693	2.205000	0.71048	0.528000	0.53228	GAA		0.413	MYH8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252724.2	NM_002472		C	10309460	T	C	10309460	3	2	588	1	0	0	0	0	1	0	0	0	10048	1783	62	3	3563	3	MYH8	17	10309460	Missense_Mutation	SNP	T	TCGA-G7-6790-01A-11D-1961-08	82081	10309460	70885750	66	35042										
FAM18B2	201158	ucsc.edu	37	chr17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	tgagcaactcacagagaagaCagacgatgattgcactgact	10	9	1	6			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr17:15457087C>T	ENST00000225576.3	-	3	247	c.152G>A	c.(151-153)tGt>tAt	p.C51Y	TVP23C_ENST00000518321.1_Missense_Mutation_p.C51Y|TVP23C_ENST00000428082.2_Missense_Mutation_p.C51Y|TVP23C-CDRT4_ENST00000522212.2_Missense_Mutation_p.C51Y|TVP23C_ENST00000584811.1_5'UTR|TVP23C_ENST00000519970.1_Intron|TVP23C_ENST00000438826.3_Missense_Mutation_p.C51Y	NM_145301.2	NP_660344.2	Q96ET8	TV23C_HUMAN	trans-golgi network vesicle protein 23 homolog C (S. cerevisiae)	51						integral component of membrane (GO:0016021)											ACAGAGAAGACAGACGATGAT	0.373																																																0													274	265	268					17																	15457087		2203	4300	6503	SO:0001583	missense	201158			BC011952	CCDS11170.1, CCDS45617.1	17p12	2012-11-29	2012-11-29	2012-11-29	ENSG00000175106	ENSG00000175106			30453	protein-coding gene	gene with protein product			"family with sequence similarity 18, member B2"	FAM18B2			Standard	NM_001135036		Approved	MGC8763	uc002goq.2	Q96ET8	OTTHUMG00000171461	ENST00000225576.3:c.152G>A	17.37:g.15457087C>T	ENSP00000225576:p.Cys51Tyr	Somatic		WXS	Illumina HiSeq		Q3LIC7	Missense_Mutation	SNP	ENST00000225576.3	37	CCDS11170.1	.	.	.	.	.	.	.	.	.	.	.	2.368	-0.344949	0.05208	.	.	ENSG00000259024;ENSG00000175106;ENSG00000175106;ENSG00000175106	ENST00000522212;ENST00000225576;ENST00000428082;ENST00000438826	T;T;T;T	0.25749	1.78;1.78;1.78;1.78	4.47	4.47	0.54385	.	0.000000	0.85682	N	0.000000	T	0.02571	0.0078	N	0.00004	-3.335	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.06405	0.0;0.0;0.002	T	0.38457	-0.9660	10	0.02654	T	1	-3.8701	9.492	0.38965	0.0:0.0877:0.0:0.9123	.	51;51;51	Q96ET8-2;Q96ET8-3;Q96ET8	.;.;F18B2_HUMAN	Y	51	ENSP00000429865:C51Y;ENSP00000225576:C51Y;ENSP00000406387:C51Y;ENSP00000413355:C51Y	ENSP00000225576:C51Y	C	-	2	0	RP11-726O12.1;FAM18B2	15397812	1.000000	0.71417	1.000000	0.80357	0.703000	0.40648	6.178000	0.71968	0.670000	0.31165	-0.442000	0.05670	TGT		0.373	TVP23C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000130705.2	NM_145301		T	15457087	C	T	15457087	3	4	588	1	0	0	0	0	1	0	0	0	5524	478	17	2	848	2	FAM18B2	17	15457087	Missense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08	5147627	15457087	65738123	67	35043										
NLK	51701	broad.mit.edu;bcgsc.ca	37	chr17	26459690	26459690	+	Frame_Shift_Del	DEL	T	T	-													0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	caacctccacacattgactaTtttgaagaaatgtatcctaa							TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr17:26459690delT	ENST00000407008.3	+	3	1351	c.633delT	c.(631-633)tatfs	p.Y211fs		NM_016231.4	NP_057315.3	Q9UBE8	NLK_HUMAN	nemo-like kinase	211	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.|Required for interaction with TAB2. {ECO:0000250}.|Sufficient for interaction with DAPK3.				intracellular signal transduction (GO:0035556)|MAPK cascade (GO:0000165)|negative regulation of Wnt signaling pathway (GO:0030178)|peptidyl-threonine phosphorylation (GO:0018107)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of transcription, DNA-templated (GO:0006355)|serine phosphorylation of STAT3 protein (GO:0033136)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|Wnt signaling pathway (GO:0016055)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|MAP kinase activity (GO:0004707)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|SH2 domain binding (GO:0042169)|transcription factor binding (GO:0008134)|ubiquitin protein ligase binding (GO:0031625)			breast(1)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(2)|liver(2)|lung(4)|ovary(1)	14	all_lung(13;0.000343)|Lung NSC(42;0.00184)			UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		ACATTGACTATTTTGAAGAAA	0.353																																																0													54	49	51					17																	26459690		2203	4300	6503	SO:0001589	frameshift_variant	51701			AF197898	CCDS11224.2	17q11.2	2005-12-22	2005-12-22		ENSG00000087095	ENSG00000087095			29858	protein-coding gene	gene with protein product		609476	"nemo like kinase"			9448268, 10863097	Standard	NM_016231		Approved		uc010crj.3	Q9UBE8	OTTHUMG00000132451	ENST00000407008.3:c.633delT	17.37:g.26459690delT	ENSP00000384625:p.Tyr211fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCX1|Q2PNI9|Q6P2A3	Frame_Shift_Del	DEL	ENST00000407008.3	37	CCDS11224.2																																																																																				0.353	NLK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255607.3	NM_016231		-	26459690	T	-	26459690	7	5	588	1	0	1	0	1	0	0	0	0	10473	1500	52	0	643	0	NLK	17	26459690	Frame_Shift_Del	DEL	T	TCGA-G7-6790-01A-11D-1961-08	11002603	26459690	54735520	68	35044										
STAC2	342667	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	37368584	37368584	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	tcgactggcaccaggccccgCttcttgccactgctgacgcg	11	17	1	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr17:37368584C>T	ENST00000333461.5	-	11	1566	c.1197G>A	c.(1195-1197)aaG>aaA	p.K399K		NM_198993.3	NP_945344.1	Q6ZMT1	STAC2_HUMAN	SH3 and cysteine rich domain 2	399					intracellular signal transduction (GO:0035556)		metal ion binding (GO:0046872)			NS(2)|endometrium(1)|kidney(2)|large_intestine(1)|lung(7)|pancreas(1)|prostate(1)|skin(2)	17						CCAGGCCCCGCTTCTTGCCAC	0.622																																																0													58	52	54					17																	37368584		2203	4300	6503	SO:0001819	synonymous_variant	342667			AJ608762	CCDS11335.1	17q21.2	2012-11-19			ENSG00000141750	ENSG00000141750			23990	protein-coding gene	gene with protein product							Standard	NM_198993		Approved	24b2	uc002hrs.3	Q6ZMT1	OTTHUMG00000179039	ENST00000333461.5:c.1197G>A	17.37:g.37368584C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q32MA3	Silent	SNP	ENST00000333461.5	37	CCDS11335.1																																																																																				0.622	STAC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444533.2	NM_198993		T	37368584	C	T	37368584	2	4	588	1	0	0	0	0	0	0	0	1	15252	796	28	2		2	STAC2	17	37368584	Silent	SNP	C	TCGA-G7-6790-01A-11D-1961-08	10908894	37368584	43826626	69	35045										
ITGB4	3691	hgsc.bcm.edu	37	chr17	73750000	73750000	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gggcccccggacgacggcggCgcgggcgggaagggcggcag	23	13	0	0			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr17:73750000C>G	ENST00000200181.3	+	33	4450	c.4263C>G	c.(4261-4263)ggC>ggG	p.G1421G	GALK1_ENST00000225614.2_Intron|ITGB4_ENST00000450894.3_Intron|ITGB4_ENST00000579662.1_Intron|ITGB4_ENST00000449880.2_Intron|ITGB4_ENST00000339591.3_Intron	NM_000213.3	NP_000204.3	P16144	ITB4_HUMAN	integrin, beta 4	1421				HGPPDDGGAGGKGGSL -> TAPRTTAARAGRAAAV (in Ref. 3; CAA37656). {ECO:0000305}.	amelogenesis (GO:0097186)|autophagy (GO:0006914)|cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|cell motility (GO:0048870)|cell-matrix adhesion (GO:0007160)|digestive tract development (GO:0048565)|extracellular matrix organization (GO:0030198)|filopodium assembly (GO:0046847)|hemidesmosome assembly (GO:0031581)|integrin-mediated signaling pathway (GO:0007229)|mesodermal cell differentiation (GO:0048333)|nail development (GO:0035878)|renal system development (GO:0072001)|response to wounding (GO:0009611)|skin development (GO:0043588)	basal plasma membrane (GO:0009925)|basement membrane (GO:0005604)|cell leading edge (GO:0031252)|cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|hemidesmosome (GO:0030056)|integrin complex (GO:0008305)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	G-protein coupled receptor binding (GO:0001664)|receptor activity (GO:0004872)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|liver(1)|lung(25)|skin(1)|urinary_tract(1)	43	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			ACGACGGCGGCGCGGGCGGGA	0.811																																																0													1	1	1					17																	73750000		306	673	979	SO:0001819	synonymous_variant	3691				CCDS11727.1, CCDS32736.1, CCDS58599.1	17q25.1	2013-09-19			ENSG00000132470	ENSG00000132470		"CD molecules", "Integrins", "Fibronectin type III domain containing"	6158	protein-coding gene	gene with protein product		147557				2070796	Standard	XM_005257309		Approved	CD104	uc002jpg.3	P16144	OTTHUMG00000179814	ENST00000200181.3:c.4263C>G	17.37:g.73750000C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0AVL6|O14690|O14691|O15339|O15340|O15341|Q0VF97|Q9UIQ4	Silent	SNP	ENST00000200181.3	37	CCDS11727.1																																																																																				0.811	ITGB4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000448334.1			G	73750000	C	G	73750000	2	3	588	1	0	0	0	0	0	0	0	1	7904	755	27	4		4	ITGB4	17	73750000	Silent	SNP	C	TCGA-G7-6790-01A-11D-1961-08	36381416	73750000	7445210	70	35046										
C19orf21	126353	broad.mit.edu	37	chr19	757398	757398	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ggccgtcatccagggccaggCagtcaggaagagcagcaccg	15	13	2	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr19:757398C>A	ENST00000215582.6	+	2	555	c.452C>A	c.(451-453)gCa>gAa	p.A151E		NM_173481.2	NP_775752.1	Q8IVT2	MISP_HUMAN	mitotic spindle positioning	151					mitotic nuclear division (GO:0007067)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)											CAGGGCCAGGCAGTCAGGAAG	0.687																																																0													33	33	33					19																	757398		2195	4295	6490	SO:0001583	missense	126353			BC052236	CCDS12042.1	19p13.3	2014-06-25	2013-05-03	2013-05-03	ENSG00000099812	ENSG00000099812			27000	protein-coding gene	gene with protein product	"mitotic interactor and substrate of Plk1"	615289	"chromosome 19 open reading frame 21"	C19orf21		23574715, 23509069, 24475924	Standard	NM_173481		Approved	DKFZp686H18209, Caprice		Q8IVT2	OTTHUMG00000181786	ENST00000215582.6:c.452C>A	19.37:g.757398C>A	ENSP00000215582:p.Ala151Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000215582.6	37	CCDS12042.1	.	.	.	.	.	.	.	.	.	.	C	15.71	2.914658	0.52546	.	.	ENSG00000099812	ENST00000215582	T	0.72167	-0.63	4.5	-0.245	0.13027	.	0.782626	0.11427	N	0.565152	T	0.75027	0.3794	M	0.62723	1.935	0.09310	N	0.999994	D	0.69078	0.997	D	0.63793	0.918	T	0.61564	-0.7037	10	0.62326	D	0.03	-21.0524	3.6537	0.08213	0.0:0.4294:0.1998:0.3708	.	151	Q8IVT2	CS021_HUMAN	E	151	ENSP00000215582:A151E	ENSP00000215582:A151E	A	+	2	0	C19orf21	708398	0.000000	0.05858	0.315000	0.25238	0.640000	0.38277	-0.256000	0.08757	0.308000	0.22923	0.313000	0.20887	GCA		0.687	MISP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457600.2	NM_173481		A	757398	C	A	757398	3	1	588	1	0	0	0	0	1	0	0	0	1915	710	25	4	454	4	C19orf21	19	757398	Missense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08		757398	58371585	71	35047										
CAPS	8498	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	5914495	5914495	+	IGR	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gcctcgggcatccagggcctGgccaggtgagctgtcccctc	14	16	0	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr19:5914495G>T	ENST00000340578.6	-	0	3233				AC104532.2_ENST00000588891.1_3'UTR|CAPS_ENST00000452990.2_Silent_p.L26L|AC104532.4_ENST00000591109.1_RNA|CAPS_ENST00000222125.5_Silent_p.L26L|CAPS_ENST00000588776.1_Silent_p.L112L	NM_003624.2|NM_007320.2|NM_007322.2	NP_003615.2|NP_015559.2|NP_015561.1	Q9H6Z4	RANB3_HUMAN	RAN binding protein 3						intracellular transport (GO:0046907)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	R-SMAD binding (GO:0070412)|Ran GTPase binding (GO:0008536)			breast(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(6)|ovary(3)|upper_aerodigestive_tract(1)	18						TCCAGGGCCTGGCCAGGTGAG	0.667																																																0													38	42	41					19																	5914495		2203	4300	6503	SO:0001628	intergenic_variant	828			Y08698	CCDS42477.1, CCDS42478.1, CCDS45935.1, CCDS74268.1	19p13.3	2008-02-05							9850	protein-coding gene	gene with protein product		603327				9637251	Standard	NM_007322		Approved		uc002mdw.3	Q9H6Z4			19.37:g.5914495G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RAT8|O60405|O75759|O75760|Q9BT47|Q9UG74	Silent	SNP	ENST00000340578.6	37	CCDS42478.1																																																																																				0.667	RANBP3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000452304.1	NM_007322		T	5914495	G	T	5914495	1	4	588	0	1	0	0	0	0	0	0	0	2639	1335	47	4		4	CAPS	19	5914495	IGR	SNP	G	TCGA-G7-6790-01A-11D-1961-08	5157097	5914495	53214488	72	35048										
C3	718	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	6709834	6709834	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	caggctgccggtcttctgacTggccgctttttaccaccagc	10	15	2	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr19:6709834T>G	ENST00000245907.6	-	14	1798	c.1706A>C	c.(1705-1707)cAg>cCg	p.Q569P		NM_000064.2	NP_000055.2	P01024	CO3_HUMAN	complement component 3	569					complement activation (GO:0006956)|complement activation, alternative pathway (GO:0006957)|complement activation, classical pathway (GO:0006958)|fatty acid metabolic process (GO:0006631)|G-protein coupled receptor signaling pathway (GO:0007186)|immune response (GO:0006955)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|positive regulation of activation of membrane attack complex (GO:0001970)|positive regulation of angiogenesis (GO:0045766)|positive regulation of apoptotic cell clearance (GO:2000427)|positive regulation of G-protein coupled receptor protein signaling pathway (GO:0045745)|positive regulation of glucose transport (GO:0010828)|positive regulation of lipid storage (GO:0010884)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of type IIa hypersensitivity (GO:0001798)|positive regulation vascular endothelial growth factor production (GO:0010575)|regulation of complement activation (GO:0030449)|regulation of immune response (GO:0050776)|regulation of triglyceride biosynthetic process (GO:0010866)|signal transduction (GO:0007165)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	C5L2 anaphylatoxin chemotactic receptor binding (GO:0031715)|endopeptidase inhibitor activity (GO:0004866)|receptor binding (GO:0005102)			breast(5)|endometrium(7)|kidney(6)|large_intestine(18)|liver(1)|lung(18)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|upper_aerodigestive_tract(3)	72				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)	Intravenous Immunoglobulin(DB00028)	GTCTTCTGACTGGCCGCTTTT	0.637																																																0													51	52	52					19																	6709834		2203	4300	6503	SO:0001583	missense	718			J04763	CCDS32883.1	19p13.3-p13.2	2014-09-17			ENSG00000125730	ENSG00000125730	3.4.21.43	"Complement system", "Endogenous ligands"	1318	protein-coding gene	gene with protein product	"C3a anaphylatoxin", "complement component C3a", "complement component C3b", "prepro-C3"	120700					Standard	NM_000064		Approved	CPAMD1, ARMD9, C3a, C3b	uc002mfm.3	P01024	OTTHUMG00000150335	ENST00000245907.6:c.1706A>C	19.37:g.6709834T>G	ENSP00000245907:p.Gln569Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A7E236	Missense_Mutation	SNP	ENST00000245907.6	37	CCDS32883.1	.	.	.	.	.	.	.	.	.	.	T	7.093	0.572475	0.13623	.	.	ENSG00000125730	ENST00000245907	T	0.60548	0.18	5.15	-4.43	0.03568	Alpha-2-macroglobulin, N-terminal 2 (1);	1.754940	0.02473	N	0.087708	T	0.26991	0.0661	N	0.03608	-0.345	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.09143	-1.0688	10	0.15066	T	0.55	.	2.5674	0.04786	0.1135:0.1705:0.2356:0.4803	.	569	P01024	CO3_HUMAN	P	569	ENSP00000245907:Q569P	ENSP00000245907:Q569P	Q	-	2	0	C3	6660834	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-1.671000	0.01954	-0.737000	0.04824	-0.382000	0.06688	CAG		0.637	C3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317636.2	NM_000064		G	6709834	T	G	6709834	3	3	588	1	0	0	0	0	1	0	0	0	2206	1580	55	5	3397	5	C3	19	6709834	Missense_Mutation	SNP	T	TCGA-G7-6790-01A-11D-1961-08	795339	6709834	52419149	73	35049										
FCER2	2208	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	7755293	7755293	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ctgcagagccccagcccaccTgctcctccgggctgtggatg	12	17	0	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr19:7755293T>A	ENST00000346664.5	-	9	832	c.620A>T	c.(619-621)cAg>cTg	p.Q207L	FCER2_ENST00000597921.1_Splice_Site_p.Q207L|FCER2_ENST00000360067.4_Splice_Site_p.Q206L	NM_001220500.1|NM_002002.4	NP_001207429.1|NP_001993.2	P06734	FCER2_HUMAN	Fc fragment of IgE, low affinity II, receptor for (CD23)	207	C-type lectin. {ECO:0000255|PROSITE- ProRule:PRU00040}.				Notch signaling pathway (GO:0007219)|positive regulation of humoral immune response mediated by circulating immunoglobulin (GO:0002925)|positive regulation of killing of cells of other organism (GO:0051712)|positive regulation of nitric-oxide synthase activity (GO:0051000)|positive regulation of nitric-oxide synthase biosynthetic process (GO:0051770)	external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)|integrin binding (GO:0005178)|metal ion binding (GO:0046872)			breast(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(5)|upper_aerodigestive_tract(1)	10						CCAGCCCACCTGCTCCTCCGG	0.667																																																0													43	46	45					19																	7755293		2203	4300	6503	SO:0001630	splice_region_variant	2208			M15059	CCDS12184.1	19p13.3	2011-08-30	2006-03-09			ENSG00000104921		"C-type lectin domain containing", "CD molecules"	3612	protein-coding gene	gene with protein product		151445	"Fc fragment of IgE, low affinity II, receptor for (CD23A)"	CD23A, FCE2			Standard	NM_002002		Approved	CLEC4J, CD23	uc002mhm.2	P06734		ENST00000346664.5:c.621+1A>T	19.37:g.7755293T>A		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000346664.5	37	CCDS12184.1	.	.	.	.	.	.	.	.	.	.	t	14.83	2.652954	0.47362	.	.	ENSG00000104921	ENST00000346664;ENST00000360067	T;T	0.16457	2.34;2.34	4.61	4.61	0.57282	C-type lectin fold (1);C-type lectin-like (1);C-type lectin (3);	0.000000	0.33477	U	0.004865	T	0.37652	0.1011	M	0.66378	2.025	0.36695	D	0.879773	D	0.76494	0.999	D	0.87578	0.998	T	0.46843	-0.9162	10	0.87932	D	0	.	10.4446	0.44486	0.0:0.0:0.0:1.0	.	207	P06734	FCER2_HUMAN	L	207;206	ENSP00000264072:Q207L;ENSP00000353178:Q206L	ENSP00000264072:Q207L	Q	-	2	0	FCER2	7661293	1.000000	0.71417	1.000000	0.80357	0.567000	0.35839	3.912000	0.56386	1.733000	0.51620	0.382000	0.24955	CAG		0.667	FCER2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000461832.1	NM_002002	Missense_Mutation	A	7755293	T	A	7755293	5	1	588	1	0	0	0	0	0	0	1	0	5783	1594	55	5	357	5	FCER2	19	7755293	Splice_Site	SNP	T	TCGA-G7-6790-01A-11D-1961-08	1045459	7755293	51373690	74	35050										
SMARCA4	6597	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	11113781	11113781	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gagtgggaagatcctcacagGcacagatgcccccaaagccg	12	13	1	2			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr19:11113781G>C	ENST00000429416.3	+	13	2170	c.1889G>C	c.(1888-1890)gGc>gCc	p.G630A	SMARCA4_ENST00000444061.3_Missense_Mutation_p.G630A|SMARCA4_ENST00000358026.2_Missense_Mutation_p.G630A|SMARCA4_ENST00000450717.3_Missense_Mutation_p.G630A|SMARCA4_ENST00000590574.1_Missense_Mutation_p.G630A|SMARCA4_ENST00000413806.3_Missense_Mutation_p.G630A|SMARCA4_ENST00000344626.4_Missense_Mutation_p.G630A|SMARCA4_ENST00000589677.1_Missense_Mutation_p.G630A|SMARCA4_ENST00000541122.2_Missense_Mutation_p.G630A	NM_001128844.1	NP_001122316.1	P51532	SMCA4_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4	630					aortic smooth muscle cell differentiation (GO:0035887)|ATP catabolic process (GO:0006200)|ATP-dependent chromatin remodeling (GO:0043044)|blastocyst growth (GO:0001832)|blastocyst hatching (GO:0001835)|cell morphogenesis (GO:0000902)|chromatin remodeling (GO:0006338)|definitive erythrocyte differentiation (GO:0060318)|DNA methylation on cytosine within a CG sequence (GO:0010424)|embryonic hindlimb morphogenesis (GO:0035116)|embryonic organ morphogenesis (GO:0048562)|epidermis morphogenesis (GO:0048730)|extracellular matrix organization (GO:0030198)|forebrain development (GO:0030900)|glial cell fate determination (GO:0007403)|heart trabecula formation (GO:0060347)|hindbrain development (GO:0030902)|histone H3 acetylation (GO:0043966)|keratinocyte differentiation (GO:0030216)|lens fiber cell development (GO:0070307)|liver development (GO:0001889)|methylation-dependent chromatin silencing (GO:0006346)|negative regulation of androgen receptor signaling pathway (GO:0060766)|negative regulation of cell growth (GO:0030308)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription from RNA polymerase II promoter during mitosis (GO:0007070)|negative regulation of transcription, DNA-templated (GO:0045892)|neural retina development (GO:0003407)|nucleosome disassembly (GO:0006337)|positive regulation by host of viral transcription (GO:0043923)|positive regulation of DNA binding (GO:0043388)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|stem cell maintenance (GO:0019827)|vasculogenesis (GO:0001570)	extracellular space (GO:0005615)|heterochromatin (GO:0000792)|membrane (GO:0016020)|nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nuclear euchromatin (GO:0005719)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perichromatin fibrils (GO:0005726)|protein complex (GO:0043234)|SWI/SNF complex (GO:0016514)	androgen receptor binding (GO:0050681)|ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA-dependent ATPase activity (GO:0008094)|helicase activity (GO:0004386)|lysine-acetylated histone binding (GO:0070577)|p53 binding (GO:0002039)|protein N-terminus binding (GO:0047485)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription coactivator activity (GO:0001105)|Tat protein binding (GO:0030957)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)	p.?(1)		adrenal_gland(1)|autonomic_ganglia(1)|breast(6)|central_nervous_system(23)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(16)|liver(4)|lung(60)|ovary(10)|pancreas(7)|prostate(3)|skin(8)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	163		all_lung(6;0.0512)|Lung NSC(9;0.0568)				ATCCTCACAGGCACAGATGCC	0.597			"F, N, Mis"		NSCLC																																		Rec	yes		19	19p13.2	6597	"SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4"		E	1	Unknown(1)	lung(1)											77	79	78					19																	11113781		2203	4300	6503	SO:0001583	missense	6597			D26156	CCDS12253.1, CCDS45972.1, CCDS45973.1, CCDS54217.1, CCDS54218.1	19p13.3	2014-09-17	2006-11-09		ENSG00000127616	ENSG00000127616			11100	protein-coding gene	gene with protein product	"SNF2-like 4", "global transcription activator homologous sequence", "sucrose nonfermenting-like 4", "mitotic growth and transcription activator", "BRM/SWI2-related gene 1", "homeotic gene regulator", "nuclear protein GRB1", "brahma protein-like 1", "ATP-dependent helicase SMARCA4"	603254		SNF2L4		8208605	Standard	NM_003072		Approved	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786	uc010dxo.3	P51532	OTTHUMG00000169272	ENST00000429416.3:c.1889G>C	19.37:g.11113781G>C	ENSP00000395654:p.Gly630Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B1A8Z4|B1A8Z5|B1A8Z6|B1A8Z7|E9PBR8|O95052|Q9HBD3	Missense_Mutation	SNP	ENST00000429416.3	37	CCDS12253.1	.	.	.	.	.	.	.	.	.	.	G	27.8	4.862182	0.91511	.	.	ENSG00000127616	ENST00000429416;ENST00000358026;ENST00000421844;ENST00000344626;ENST00000541122;ENST00000444061;ENST00000450717;ENST00000413806	T;T;T;T;T;T;T	0.74315	-0.83;-0.83;-0.83;-0.83;-0.83;-0.83;-0.83	4.57	4.57	0.56435	BRK domain (2);	0.000000	0.85682	D	0.000000	T	0.79805	0.4509	L	0.58510	1.815	0.80722	D	1	P;P;P;P;D;P;P	0.54772	0.857;0.932;0.932;0.853;0.968;0.868;0.868	P;P;P;P;P;P;P	0.53760	0.597;0.708;0.708;0.734;0.699;0.708;0.708	T	0.82386	-0.0483	10	0.66056	D	0.02	-36.4878	16.6596	0.85238	0.0:0.0:1.0:0.0	.	630;630;630;630;630;630;630	B1A8Z6;B1A8Z4;B1A8Z7;Q9HBD4;B1A8Z5;A7E2E1;P51532	.;.;.;.;.;.;SMCA4_HUMAN	A	630;630;694;630;630;630;630;630	ENSP00000395654:G630A;ENSP00000350720:G630A;ENSP00000343896:G630A;ENSP00000445036:G630A;ENSP00000392837:G630A;ENSP00000397783:G630A;ENSP00000414727:G630A	ENSP00000343896:G630A	G	+	2	0	SMARCA4	10974781	1.000000	0.71417	1.000000	0.80357	0.966000	0.64601	9.601000	0.98297	2.526000	0.85167	0.563000	0.77884	GGC		0.597	SMARCA4-007	KNOWN	alternative_5_UTR|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000452638.2	NM_003072		C	11113781	G	C	11113781	3	2	588	1	0	0	0	0	1	0	0	0	14783	1203	42	4	1931	4	SMARCA4	19	11113781	Missense_Mutation	SNP	G	TCGA-G7-6790-01A-11D-1961-08	3358488	11113781	48015202	75	35051										
KIAA0892	23383	broad.mit.edu;bcgsc.ca	37	chr19	19431865	19431865	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gccgcagcgcatcgaggcccGtacacacctgcagctgggct	13	16	0	0			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr19:19431865G>T	ENST00000392313.6	+	1	376	c.197G>T	c.(196-198)cGt>cTt	p.R66L	SUGP1_ENST00000247001.5_5'Flank|MAU2_ENST00000262815.8_Missense_Mutation_p.R66L|SUGP1_ENST00000585763.1_5'Flank|SUGP1_ENST00000334782.5_5'Flank	NM_015329.3	NP_056144.3	Q9Y6X3	SCC4_HUMAN	MAU2 sister chromatid cohesion factor	66	Sufficient for interaction with NIPBL.				maintenance of mitotic sister chromatid cohesion (GO:0034088)|mitotic cell cycle (GO:0000278)	chromatin (GO:0000785)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SMC loading complex (GO:0032116)	protein N-terminus binding (GO:0047485)			NS(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(5)|skin(1)|upper_aerodigestive_tract(1)	18						ATCGAGGCCCGTACACACCTG	0.682																																																0													26	30	29					19																	19431865		2080	4228	6308	SO:0001583	missense	23383			AB020699	CCDS32969.2	19p13.11	2013-08-28	2013-08-28	2013-08-28	ENSG00000129933	ENSG00000129933			29140	protein-coding gene	gene with protein product	"sister chromatid cohesion 4"	614560	"KIAA0892", "MAU2 chromatid cohesion factor homolog (C. elegans)"	KIAA0892		10048485	Standard	NM_015329		Approved	MGC75361, mau-2, MAU2L, SCC4	uc002nmk.4	Q9Y6X3	OTTHUMG00000150188	ENST00000392313.6:c.197G>T	19.37:g.19431865G>T	ENSP00000376127:p.Arg66Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q66PT1|Q6P3S7|Q6ZTT2|Q9UFX8	Missense_Mutation	SNP	ENST00000392313.6	37	CCDS32969.2	.	.	.	.	.	.	.	.	.	.	G	33	5.199804	0.94997	.	.	ENSG00000129933	ENST00000392313;ENST00000262815	T;T	0.76060	-0.99;-0.99	5.31	5.31	0.75309	.	0.000000	0.85682	U	0.000000	T	0.73575	0.3604	L	0.47716	1.5	0.80722	D	1	P	0.42908	0.793	P	0.46275	0.51	T	0.69453	-0.5141	10	0.20519	T	0.43	.	17.548	0.87867	0.0:0.0:1.0:0.0	.	66	Q9Y6X3	SCC4_HUMAN	L	66	ENSP00000376127:R66L;ENSP00000262815:R66L	ENSP00000262815:R66L	R	+	2	0	MAU2	19292865	1.000000	0.71417	0.996000	0.52242	0.975000	0.68041	8.702000	0.91338	2.511000	0.84671	0.561000	0.74099	CGT		0.682	MAU2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000316748.6	NM_015329		T	19431865	G	T	19431865	3	4	588	1	0	0	0	0	1	0	0	0	8203	1145	40	4	199	4	KIAA0892	19	19431865	Missense_Mutation	SNP	G	TCGA-G7-6790-01A-11D-1961-08	8318084	19431865	39697118	76	35052										
RYR1	6261	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	38990577	38990577	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ggaaccgcctgaagaaaaccGggtgcacctgggacacgcca	13	13	0	2	rs201584482		TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr19:38990577G>A	ENST00000359596.3	+	45	7244	c.7244G>A	c.(7243-7245)cGg>cAg	p.R2415Q	RYR1_ENST00000355481.4_Missense_Mutation_p.R2415Q|RYR1_ENST00000360985.3_Missense_Mutation_p.R2415Q			P21817	RYR1_HUMAN	ryanodine receptor 1 (skeletal)	2415	6 X approximate repeats.				calcium ion transport (GO:0006816)|cellular response to caffeine (GO:0071313)|cytosolic calcium ion homeostasis (GO:0051480)|ion transmembrane transport (GO:0034220)|muscle contraction (GO:0006936)|ossification involved in bone maturation (GO:0043931)|outflow tract morphogenesis (GO:0003151)|release of sequestered calcium ion into cytosol (GO:0051209)|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0014808)|response to caffeine (GO:0031000)|response to hypoxia (GO:0001666)|skeletal muscle fiber development (GO:0048741)|skin development (GO:0043588)|transmembrane transport (GO:0055085)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|I band (GO:0031674)|integral component of plasma membrane (GO:0005887)|junctional membrane complex (GO:0030314)|junctional sarcoplasmic reticulum membrane (GO:0014701)|plasma membrane (GO:0005886)|sarcoplasmic reticulum (GO:0016529)|sarcoplasmic reticulum membrane (GO:0033017)|smooth endoplasmic reticulum (GO:0005790)|T-tubule (GO:0030315)|terminal cisterna (GO:0014802)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)|calcium-release channel activity (GO:0015278)|calmodulin binding (GO:0005516)|ryanodine-sensitive calcium-release channel activity (GO:0005219)|voltage-gated calcium channel activity (GO:0005245)			NS(4)|autonomic_ganglia(2)|breast(3)|central_nervous_system(5)|endometrium(26)|haematopoietic_and_lymphoid_tissue(3)|kidney(34)|large_intestine(42)|liver(1)|lung(106)|ovary(11)|pancreas(5)|prostate(9)|skin(12)|stomach(11)|upper_aerodigestive_tract(4)|urinary_tract(7)	285	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Caffeine(DB00201)|Dantrolene(DB01219)|Suramin(DB04786)	GAAGAAAACCGGGTGCACCTG	0.632																																																0													120	97	104					19																	38990577		2203	4300	6503	SO:0001583	missense	6261			J05200	CCDS33011.1, CCDS42563.1	19q13.1	2014-09-17				ENSG00000196218		"Ion channels / Ryanodine receptors"	10483	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 137"	180901	"central core disease of muscle"	MHS, MHS1, CCO		1862346, 16621918	Standard	NM_000540		Approved	RYR, PPP1R137	uc002oit.3	P21817		ENST00000359596.3:c.7244G>A	19.37:g.38990577G>A	ENSP00000352608:p.Arg2415Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q16314|Q16368|Q9NPK1|Q9P1U4	Missense_Mutation	SNP	ENST00000359596.3	37	CCDS33011.1	.	.	.	.	.	.	.	.	.	.	G	15.00	2.704736	0.48412	.	.	ENSG00000196218	ENST00000359596;ENST00000355481;ENST00000360985	D;D;D	0.97529	-4.42;-4.42;-4.42	3.99	3.99	0.46301	.	0.000000	0.64402	U	0.000007	D	0.95726	0.8610	L	0.48362	1.52	0.38108	D	0.937463	D;D	0.63046	0.992;0.985	P;B	0.48901	0.594;0.44	D	0.95492	0.8570	10	0.33141	T	0.24	.	15.0045	0.71501	0.0:0.0:1.0:0.0	.	2415;2415	P21817-2;P21817	.;RYR1_HUMAN	Q	2415	ENSP00000352608:R2415Q;ENSP00000347667:R2415Q;ENSP00000354254:R2415Q	ENSP00000347667:R2415Q	R	+	2	0	RYR1	43682417	0.992000	0.36948	1.000000	0.80357	0.705000	0.40729	2.287000	0.43505	2.045000	0.60652	0.297000	0.19635	CGG		0.632	RYR1-010	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000462137.1			A	38990577	G	A	38990577	3	1	588	1	0	0	0	0	1	0	0	0	13781	1116	39	1	7422	1	RYR1	19	38990577	Missense_Mutation	SNP	G	TCGA-G7-6790-01A-11D-1961-08	19558712	38990577	20138406	77	35053										
MYH14	79784	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	50764757	50764757	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	ggcgctggaactggaccccaAcctctaccgcgtgggacaga	13	14	1	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr19:50764757A>G	ENST00000596571.1	+	18	2327	c.2327A>G	c.(2326-2328)aAc>aGc	p.N776S	MYH14_ENST00000262269.8_Missense_Mutation_p.N817S|MYH14_ENST00000425460.1_Missense_Mutation_p.N784S|MYH14_ENST00000376970.2_Missense_Mutation_p.N809S|MYH14_ENST00000601313.1_Missense_Mutation_p.N817S|MYH14_ENST00000440075.2_Missense_Mutation_p.N817S|MYH14_ENST00000598205.1_Missense_Mutation_p.N784S			Q7Z406	MYH14_HUMAN	myosin, heavy chain 14, non-muscle	776	Myosin motor.				actin filament-based movement (GO:0030048)|actomyosin structure organization (GO:0031032)|ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|mitochondrion morphogenesis (GO:0070584)|neuronal action potential (GO:0019228)|regulation of cell shape (GO:0008360)|sensory perception of sound (GO:0007605)|skeletal muscle atrophy (GO:0014732)|skeletal muscle contraction (GO:0003009)|skeletal muscle tissue development (GO:0007519)|vocalization behavior (GO:0071625)	actomyosin (GO:0042641)|axon (GO:0030424)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|growth cone (GO:0030426)|membrane (GO:0016020)|myosin II complex (GO:0016460)|myosin II filament (GO:0097513)|stress fiber (GO:0001725)	actin-dependent ATPase activity (GO:0030898)|ATP binding (GO:0005524)|microfilament motor activity (GO:0000146)			central_nervous_system(1)|cervix(2)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(10)|ovary(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	46		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		CTGGACCCCAACCTCTACCGC	0.632																																																0													40	44	42					19																	50764757		2011	4174	6185	SO:0001583	missense	79784			AY165122	CCDS46151.1, CCDS54295.1, CCDS59411.1	19q13.33	2011-09-27	2009-11-19			ENSG00000105357		"Myosins / Myosin superfamily : Class II"	23212	protein-coding gene	gene with protein product		608568	"myosin, heavy polypeptide 14", "myosin, heavy chain 14"	DFNA4		12909352, 15015131, 17940200	Standard	NM_024729		Approved	FLJ13881, KIAA2034, MHC16, MYH17	uc010enu.1	Q7Z406		ENST00000596571.1:c.2327A>G	19.37:g.50764757A>G	ENSP00000472819:p.Asn776Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1S2|C3TTN4|Q5CZ75|Q6XYE4|Q76B62|Q8WV23|Q96I22|Q9BT27|Q9BW35|Q9H882	Missense_Mutation	SNP	ENST00000596571.1	37	CCDS59411.1	.	.	.	.	.	.	.	.	.	.	A	16.39	3.111012	0.56398	.	.	ENSG00000105357	ENST00000301415;ENST00000440075;ENST00000376970;ENST00000425460;ENST00000376965;ENST00000262269	D;D;D;D	0.87571	-2.27;-2.27;-2.27;-2.27	4.48	4.48	0.54585	Myosin head, motor domain (2);	.	.	.	.	D	0.82770	0.5109	L	0.47016	1.485	0.80722	D	1	B;B;B	0.29909	0.144;0.261;0.22	B;B;B	0.29176	0.03;0.099;0.06	T	0.82348	-0.0502	9	0.54805	T	0.06	.	12.0425	0.53460	1.0:0.0:0.0:0.0	.	817;776;784	Q7Z406-2;Q7Z406;Q7Z406-6	.;MYH14_HUMAN;.	S	776;817;809;784;776;817	ENSP00000406273:N817S;ENSP00000366169:N809S;ENSP00000407879:N784S;ENSP00000262269:N817S	ENSP00000262269:N817S	N	+	2	0	MYH14	55456569	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	8.830000	0.92063	2.028000	0.59812	0.454000	0.30748	AAC		0.632	MYH14-008	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000464710.2	NM_024729		G	50764757	A	G	50764757	3	3	588	1	0	0	0	0	1	0	0	0	10040	43	2	3	2528	3	MYH14	19	50764757	Missense_Mutation	SNP	A	TCGA-G7-6790-01A-11D-1961-08	11774180	50764757	8364226	78	35054										
NLRP8	126205	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	56459545	56459545	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	atctcttgatagagcgtttcCctggacgacgcgcttgggat	12	10	1	2			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr19:56459545C>A	ENST00000291971.3	+	1	348	c.277C>A	c.(277-279)Cct>Act	p.P93T	NLRP8_ENST00000590542.1_Missense_Mutation_p.P93T	NM_176811.2	NP_789781.2	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	93	DAPIN. {ECO:0000255|PROSITE- ProRule:PRU00061}.				neuron death (GO:0070997)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)			breast(4)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(14)|ovary(5)|skin(2)|stomach(3)|upper_aerodigestive_tract(2)	35		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		AGAGCGTTTCCCTGGACGACG	0.507																																																0													115	106	109					19																	56459545		2203	4300	6503	SO:0001583	missense	126205			AY154463	CCDS12937.1	19q13.43	2008-02-05	2006-12-08	2006-12-08		ENSG00000179709		"Nucleotide-binding domain and leucine rich repeat containing"	22940	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 8"	609659	"NACHT, leucine rich repeat and PYD containing 8"	NALP8		12563287	Standard	NM_176811		Approved	NOD16, PAN4, CLR19.2	uc002qmh.3	Q86W28		ENST00000291971.3:c.277C>A	19.37:g.56459545C>A	ENSP00000291971:p.Pro93Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q7RTR4	Missense_Mutation	SNP	ENST00000291971.3	37	CCDS12937.1	.	.	.	.	.	.	.	.	.	.	C	12.73	2.024871	0.35701	.	.	ENSG00000179709	ENST00000291971	T	0.51574	0.7	2.05	2.05	0.26809	Pyrin (2);DEATH-like (2);	.	.	.	.	T	0.63177	0.2489	M	0.76170	2.325	0.09310	N	1	D;D	0.76494	0.993;0.999	D;D	0.79784	0.916;0.993	T	0.46555	-0.9183	9	0.44086	T	0.13	.	7.6404	0.28290	0.0:1.0:0.0:0.0	.	93;93	Q86W28-2;Q86W28	.;NALP8_HUMAN	T	93	ENSP00000291971:P93T	ENSP00000291971:P93T	P	+	1	0	NLRP8	61151357	0.001000	0.12720	0.262000	0.24481	0.056000	0.15407	0.287000	0.18920	1.462000	0.47948	0.514000	0.50259	CCT		0.507	NLRP8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457462.1	NM_176811		A	56459545	C	A	56459545	3	1	588	1	0	0	0	0	1	0	0	0	10490	623	22	4	279	4	NLRP8	19	56459545	Missense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08	5694788	56459545	2669438	79	35055										
ZBTB45	84878	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	59027831	59027831	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	cttgcgacagtggctgcactCatacgtaggtggctcagcac	12	12	2	0			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr19:59027831C>G	ENST00000594051.1	-	2	1690	c.1210G>C	c.(1210-1212)Gag>Cag	p.E404Q	ZBTB45_ENST00000354590.3_Missense_Mutation_p.E404Q|ZBTB45_ENST00000600990.1_Missense_Mutation_p.E404Q			Q96K62	ZBT45_HUMAN	zinc finger and BTB domain containing 45	404					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|endometrium(3)|lung(5)|urinary_tract(1)	11		all_cancers(17;1.81e-17)|all_epithelial(17;1.21e-12)|Lung NSC(17;2.8e-05)|all_lung(17;0.000139)|Colorectal(82;0.000147)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0165)|Lung(386;0.18)		TGGCTGCACTCATACGTAGGT	0.642																																					NSCLC(164;1383 2017 5233 27540 46677)											0													63	61	62					19																	59027831		2203	4300	6503	SO:0001583	missense	84878			AK027392	CCDS12984.1	19q13.43	2013-10-10	2006-09-19	2006-09-19	ENSG00000119574	ENSG00000119574		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	23715	protein-coding gene	gene with protein product			"zinc finger protein 499"	ZNF499			Standard	NM_032792		Approved	FLJ14486	uc002qtd.3	Q96K62	OTTHUMG00000183545	ENST00000594051.1:c.1210G>C	19.37:g.59027831C>G	ENSP00000469089:p.Glu404Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000594051.1	37	CCDS12984.1	.	.	.	.	.	.	.	.	.	.	c	13.94	2.388310	0.42308	.	.	ENSG00000119574	ENST00000354590	T	0.35236	1.32	3.41	3.41	0.39046	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (2);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.411951	0.20599	N	0.089190	T	0.41328	0.1154	N	0.20328	0.56	0.28981	N	0.888614	D	0.71674	0.998	D	0.65874	0.939	T	0.27020	-1.0086	10	0.56958	D	0.05	.	13.1018	0.59224	0.0:1.0:0.0:0.0	.	404	Q96K62	ZBT45_HUMAN	Q	404	ENSP00000346603:E404Q	ENSP00000346603:E404Q	E	-	1	0	ZBTB45	63719643	0.226000	0.23696	0.996000	0.52242	0.534000	0.34807	1.041000	0.30291	2.221000	0.72209	0.467000	0.42956	GAG		0.642	ZBTB45-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467067.1	NM_032792		G	59027831	C	G	59027831	3	3	588	1	0	0	0	0	1	0	0	0	17558	835	29	4	333	4	ZBTB45	19	59027831	Missense_Mutation	SNP	C	TCGA-G7-6790-01A-11D-1961-08	2568286	59027831	101152	80	35056										
CEP250	11190	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	34092361	34092361	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	tgaagagctgagacatcagcAggaacgggagcagctgctgg	16	8	1	3			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr20:34092361A>G	ENST00000397527.1	+	30	6884	c.6164A>G	c.(6163-6165)cAg>cGg	p.Q2055R	CEP250_ENST00000342580.4_Missense_Mutation_p.Q1999R	NM_007186.3	NP_009117.2	Q9BV73	CP250_HUMAN	centrosomal protein 250kDa	2055	Gln/Glu-rich.				centriole-centriole cohesion (GO:0010457)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|protein localization (GO:0008104)|protein localization to organelle (GO:0033365)|regulation of centriole-centriole cohesion (GO:0030997)	centriole (GO:0005814)|centrosome (GO:0005813)|cilium (GO:0005929)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|microtubule organizing center (GO:0005815)|protein complex (GO:0043234)|spindle pole centrosome (GO:0031616)	protein C-terminus binding (GO:0008022)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)			NS(1)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(13)|lung(13)|ovary(4)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	45	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			AGACATCAGCAGGAACGGGAG	0.557																																																0													29	31	30					20																	34092361		2203	4300	6503	SO:0001583	missense	11190			AF022655	CCDS13255.1	20q11.22	2014-02-20	2006-01-11	2006-01-11	ENSG00000126001	ENSG00000126001			1859	protein-coding gene	gene with protein product		609689	"centrosomal protein 2"	CEP2		9506584, 9647649	Standard	NM_007186		Approved	C-NAP1	uc021wco.1	Q9BV73	OTTHUMG00000032343	ENST00000397527.1:c.6164A>G	20.37:g.34092361A>G	ENSP00000380661:p.Gln2055Arg	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5Q3|O14812|O60588|Q9H450	Missense_Mutation	SNP	ENST00000397527.1	37	CCDS13255.1	.	.	.	.	.	.	.	.	.	.	A	7.149	0.583366	0.13749	.	.	ENSG00000126001	ENST00000397527;ENST00000342580;ENST00000422671	T;T;T	0.43688	2.96;2.95;0.94	4.83	1.33	0.21861	.	0.879228	0.09850	N	0.747749	T	0.14743	0.0356	N	0.00926	-1.1	0.09310	N	1	B	0.06786	0.001	B	0.06405	0.002	T	0.29792	-1.0000	10	0.19147	T	0.46	.	8.6927	0.34275	0.6701:0.0:0.3299:0.0	.	2055	Q9BV73	CP250_HUMAN	R	2055;1999;543	ENSP00000380661:Q2055R;ENSP00000341541:Q1999R;ENSP00000395992:Q543R	ENSP00000341541:Q1999R	Q	+	2	0	CEP250	33555775	0.990000	0.36364	0.012000	0.15200	0.910000	0.53928	0.903000	0.28475	0.045000	0.15804	0.533000	0.62120	CAG		0.557	CEP250-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078877.7	NM_007186		G	34092361	A	G	34092361	3	3	588	1	0	0	0	0	1	0	0	0	3254	188	7	3	6270	3	CEP250	20	34092361	Missense_Mutation	SNP	A	TCGA-G7-6790-01A-11D-1961-08		34092361	28933159	81	35057										
EPB41L1	2036	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	34778270	34778270	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gccaagagactgtggaaggtCtgcatcgagcatcatacatt	11	9	2	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr20:34778270C>A	ENST00000338074.2	+	10	1259	c.1098C>A	c.(1096-1098)gtC>gtA	p.V366V	EPB41L1_ENST00000373941.1_Silent_p.V366V|EPB41L1_ENST00000373950.2_Silent_p.V269V|EPB41L1_ENST00000202028.5_Silent_p.V304V|EPB41L1_ENST00000441639.1_Silent_p.V304V|EPB41L1_ENST00000373946.3_Silent_p.V335V	NM_001258329.1|NM_012156.2	NP_001245258.1|NP_036288.2	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	366	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.				cortical actin cytoskeleton organization (GO:0030866)|synaptic transmission (GO:0007268)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extrinsic component of membrane (GO:0019898)|plasma membrane (GO:0005886)	structural molecule activity (GO:0005198)	p.V366V(1)		breast(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(10)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	37	Breast(12;0.0239)					TGTGGAAGGTCTGCATCGAGC	0.537																																																1	Substitution - coding silent(1)	kidney(1)											84	71	75					20																	34778270		2203	4300	6503	SO:0001819	synonymous_variant	2036			AB002336	CCDS13271.1, CCDS13272.1, CCDS58771.1	20q11.2-q12	2003-03-17			ENSG00000088367	ENSG00000088367			3378	protein-coding gene	gene with protein product		602879				9570967, 9828140	Standard	NM_012156		Approved	KIAA0338	uc002xfb.3	Q9H4G0	OTTHUMG00000032378	ENST00000338074.2:c.1098C>A	20.37:g.34778270C>A		Somatic		WXS	Illumina HiSeq	Phase_I	O15046|Q4VXM6|Q4VXM7|Q4VXM8|Q4VXN4|Q6ZT61|Q8IUU7|Q96CV5|Q96L65	Silent	SNP	ENST00000338074.2	37	CCDS13271.1																																																																																				0.537	EPB41L1-008	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000078978.3	NM_012156		A	34778270	C	A	34778270	2	1	588	1	0	0	0	0	0	0	0	1	5154	900	32	4		4	EPB41L1	20	34778270	Silent	SNP	C	TCGA-G7-6790-01A-11D-1961-08	685909	34778270	28247250	82	35058										
TMEM189-UBE2V1	7335	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	48713266	48713266	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	agtgtcatgtcttcgtcatcTtctagaccccagctaactgt	7	12	5	1			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr20:48713266T>C	ENST00000371674.3	-	2	158	c.114A>G	c.(112-114)gaA>gaG	p.E38E	UBE2V1_ENST00000371677.3_Silent_p.E61E|UBE2V1_ENST00000396059.3_Intron|TMEM189-UBE2V1_ENST00000341698.2_Silent_p.E261E|UBE2V1_ENST00000415862.2_Intron|UBE2V1_ENST00000420027.2_Intron|UBE2V1_ENST00000340309.3_Silent_p.E61E|TMEM189_ENST00000557021.1_Silent_p.E261E|UBE2V1_ENST00000371657.5_Silent_p.E38E	NM_001032288.2|NM_001257395.1	NP_001027459.1|NP_001244324.1	Q13404	UB2V1_HUMAN	ubiquitin-conjugating enzyme E2 variant 1	38					cell differentiation (GO:0030154)|error-free postreplication DNA repair (GO:0042275)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of transcription, DNA-templated (GO:0045893)|protein K63-linked ubiquitination (GO:0070534)|protein polyubiquitination (GO:0000209)|regulation of DNA repair (GO:0006282)|regulation of transcription, DNA-templated (GO:0006355)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|protein complex (GO:0043234)|UBC13-UEV1A complex (GO:0035370)|ubiquitin conjugating enzyme complex (GO:0031371)|ubiquitin ligase complex (GO:0000151)	acid-amino acid ligase activity (GO:0016881)|ubiquitin-protein transferase activity (GO:0004842)			endometrium(2)|large_intestine(3)|lung(4)	9			BRCA - Breast invasive adenocarcinoma(9;4.74e-06)			CTTCGTCATCTTCTAGACCCC	0.443																																																0													140	132	134					20																	48713266		2203	4298	6501	SO:0001819	synonymous_variant	387522			U39360	CCDS13426.1, CCDS13427.1, CCDS33483.1, CCDS58775.1, CCDS74740.1	20q13.2	2007-07-18			ENSG00000244687	ENSG00000244687		"Ubiquitin-conjugating enzymes E2"	12494	protein-coding gene	gene with protein product		602995		UBE2V		9418904, 9305758	Standard	NM_001032288		Approved	UEV-1, CROC-1, UEV1A, CROC1		Q13404	OTTHUMG00000152626	ENST00000371674.3:c.114A>G	20.37:g.48713266T>C		Somatic		WXS	Illumina HiSeq	Phase_I	E1P629|Q13403|Q13532|Q5TGE0|Q5TGE3|Q96H34|Q9GZT0|Q9GZW1|Q9H4J3|Q9H4J4|Q9UKL1|Q9UM48|Q9UM49|Q9UM50	Silent	SNP	ENST00000371674.3	37	CCDS33483.1																																																																																				0.443	UBE2V1-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000080530.1	NM_021988		C	48713266	T	C	48713266	2	2	588	1	0	0	0	0	0	0	0	1	16124	1606	56	3		3	TMEM189-UBE2V1	20	48713266	Silent	SNP	T	TCGA-G7-6790-01A-11D-1961-08	13934996	48713266	14312254	83	35059										
ADNP	23394	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	49510230	49510230	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	cattgactgaccaacactgtAaccctggcctacagatttga	7	12	0	4			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr20:49510230A>T	ENST00000396029.3	-	5	1588	c.1021T>A	c.(1021-1023)Tac>Aac	p.Y341N	ADNP_ENST00000349014.3_Missense_Mutation_p.Y341N|ADNP_ENST00000371602.4_Missense_Mutation_p.Y341N|ADNP_ENST00000396032.3_Missense_Mutation_p.Y341N	NM_001282531.1|NM_015339.2	NP_001269460.1|NP_056154.1	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector homeobox	341					negative regulation of neuron apoptotic process (GO:0043524)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	extracellular space (GO:0005615)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(4)|endometrium(7)|kidney(1)|large_intestine(13)|lung(7)|ovary(2)|prostate(2)|skin(2)	39						CCAACACTGTAACCCTGGCCT	0.443																																																0													137	123	128					20																	49510230		2203	4300	6503	SO:0001583	missense	23394			AF250860	CCDS13433.1	20q13.13	2011-06-20	2007-07-17		ENSG00000101126	ENSG00000101126		"Homeoboxes / ZF class"	15766	protein-coding gene	gene with protein product	"ADNP homeobox 1"	611386	"activity-dependent neuroprotector"			9872452, 11013255	Standard	NM_015339		Approved	KIAA0784, ADNP1	uc002xvu.1	Q9H2P0	OTTHUMG00000032737	ENST00000396029.3:c.1021T>A	20.37:g.49510230A>T	ENSP00000379346:p.Tyr341Asn	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5Y2|O94881|Q5BKU2|Q9UG34	Missense_Mutation	SNP	ENST00000396029.3	37	CCDS13433.1	.	.	.	.	.	.	.	.	.	.	A	12.89	2.072885	0.36566	.	.	ENSG00000101126	ENST00000371602;ENST00000349014;ENST00000396029;ENST00000396032	.	.	.	5.91	5.91	0.95273	.	0.295208	0.38663	N	0.001605	T	0.74665	0.3746	L	0.55990	1.75	0.42457	D	0.992773	D	0.76494	0.999	D	0.81914	0.995	T	0.72121	-0.4386	9	0.30078	T	0.28	-7.2492	16.3436	0.83110	1.0:0.0:0.0:0.0	.	341	Q9H2P0	ADNP_HUMAN	N	341	.	ENSP00000342905:Y341N	Y	-	1	0	ADNP	48943637	1.000000	0.71417	1.000000	0.80357	0.803000	0.45373	8.948000	0.93006	2.269000	0.75478	0.533000	0.62120	TAC		0.443	ADNP-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079705.2	NM_181442		T	49510230	A	T	49510230	3	4	588	1	0	0	0	0	1	0	0	0	323	362	13	5	2291	5	ADNP	20	49510230	Missense_Mutation	SNP	A	TCGA-G7-6790-01A-11D-1961-08	796964	49510230	13515290	84	35060										
ADARB1	104	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	46596347	46596347	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	gatgatcttgaacgaactgcGcccaggactcaagtatgact	10	10	2	3			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr21:46596347G>A	ENST00000360697.3	+	2	746	c.731G>A	c.(730-732)cGc>cAc	p.R244H	ADARB1_ENST00000348831.4_Missense_Mutation_p.R244H|ADARB1_ENST00000389863.4_Missense_Mutation_p.R244H|ADARB1_ENST00000437626.1_Intron|ADARB1_ENST00000539173.1_Missense_Mutation_p.R244H			P78563	RED1_HUMAN	adenosine deaminase, RNA-specific, B1	244	DRBM 2. {ECO:0000255|PROSITE- ProRule:PRU00266}.				adenosine to inosine editing (GO:0006382)|base conversion or substitution editing (GO:0016553)|defense response to virus (GO:0051607)|gene expression (GO:0010467)|innate immune response (GO:0045087)|mRNA modification (GO:0016556)|mRNA processing (GO:0006397)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of protein kinase activity by regulation of protein phosphorylation (GO:0044387)|positive regulation of viral genome replication (GO:0045070)|regulation of cell cycle (GO:0051726)|RNA processing (GO:0006396)	nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	adenosine deaminase activity (GO:0004000)|double-stranded RNA adenosine deaminase activity (GO:0003726)|double-stranded RNA binding (GO:0003725)|metal ion binding (GO:0046872)|mRNA binding (GO:0003729)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			endometrium(4)|kidney(1)|large_intestine(3)|lung(8)|skin(1)	17				Colorectal(79;0.115)		AACGAACTGCGCCCAGGACTC	0.587																																																0													108	97	101					21																	46596347		2203	4300	6503	SO:0001583	missense	104			U76420	CCDS33589.1, CCDS33590.1, CCDS42970.1	21q22.3	2012-03-22	2010-06-24		ENSG00000197381	ENSG00000197381	3.5.-.-		226	protein-coding gene	gene with protein product	"RED1 homolog (rat)"	601218	"adenosine deaminase, RNA-specific, B1 (homolog of rat RED1)"			9143496, 14759252	Standard	NR_027672		Approved	ADAR2, DRADA2, ADAR2g, DRABA2, RED1, hRED1, ADAR2a-L1, ADAR2a-L2, ADAR2a-L3, ADAR2a, ADAR2b, ADAR2c, ADAR2d	uc002zgy.2	P78563	OTTHUMG00000090295	ENST00000360697.3:c.731G>A	21.37:g.46596347G>A	ENSP00000353920:p.Arg244His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFK8|A6NJ84|C3TTQ1|C3TTQ2|C9JUP4|G5E9B4|O00395|O00465|O00691|O00692|P78555|Q4AE79|Q6P0M9|Q8NFD1	Missense_Mutation	SNP	ENST00000360697.3	37	CCDS33589.1	.	.	.	.	.	.	.	.	.	.	G	24.7	4.564135	0.86335	.	.	ENSG00000197381	ENST00000539173;ENST00000539917;ENST00000389863;ENST00000348831;ENST00000360697	T;T;T;T	0.77750	-1.12;-1.12;-1.12;-1.12	5.28	5.28	0.74379	Double-stranded RNA-binding (2);Double-stranded RNA-binding-like (1);	0.000000	0.85682	U	0.000000	D	0.86818	0.6024	M	0.75447	2.3	0.80722	D	1	P;D;D;B;P	0.61697	0.928;0.99;0.97;0.046;0.861	P;D;P;B;P	0.66716	0.521;0.946;0.877;0.04;0.521	D	0.85797	0.1371	10	0.38643	T	0.18	-42.4461	16.7859	0.85574	0.0:0.0:1.0:0.0	.	271;244;244;272;244	P78563-4;P78563;Q4AE77;G5E9B4;P78563-3	.;RED1_HUMAN;.;.;.	H	244	ENSP00000441897:R244H;ENSP00000374513:R244H;ENSP00000015877:R244H;ENSP00000353920:R244H	ENSP00000015877:R244H	R	+	2	0	ADARB1	45420775	1.000000	0.71417	1.000000	0.80357	0.762000	0.43233	9.347000	0.97059	2.633000	0.89246	0.655000	0.94253	CGC		0.587	ADARB1-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000206648.2	NM_015833		A	46596347	G	A	46596347	3	1	588	1	0	0	0	0	1	0	0	0	282	1087	38	1	737	1	ADARB1	21	46596347	Missense_Mutation	SNP	G	TCGA-G7-6790-01A-11D-1961-08		46596347	1533548	85	35061										
CRKL	1399	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	21272259	21272259	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	tcgactcctcggaccgctccGcctggtatatggggccggtg	14	14	0	0			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr22:21272259G>C	ENST00000354336.3	+	1	546	c.37G>C	c.(37-39)Gcc>Ccc	p.A13P		NM_005207.3	NP_005198.1	P46109	CRKL_HUMAN	v-crk avian sarcoma virus CT10 oncogene homolog-like	13					activation of MAPKK activity (GO:0000186)|anterior/posterior pattern specification (GO:0009952)|blood vessel development (GO:0001568)|heart development (GO:0007507)|intracellular signal transduction (GO:0035556)|JNK cascade (GO:0007254)|neurotrophin TRK receptor signaling pathway (GO:0048011)|organ morphogenesis (GO:0009887)|parathyroid gland development (GO:0060017)|positive regulation of signal transduction (GO:0009967)|Ras protein signal transduction (GO:0007265)|thymus development (GO:0048538)	cytosol (GO:0005829)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)	poly(A) RNA binding (GO:0044822)|SH3/SH2 adaptor activity (GO:0005070)|signal transducer activity (GO:0004871)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(7)	14	all_cancers(11;1.16e-25)|all_epithelial(7;3.37e-24)|Lung NSC(8;7.25e-16)|all_lung(8;1.37e-14)|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;0.000204)|Lung(15;0.00494)|Epithelial(17;0.176)			GGACCGCTCCGCCTGGTATAT	0.697																																					Pancreas(85;3 1441 23889 42519 42763)											0													29	30	29					22																	21272259		2202	4299	6501	SO:0001583	missense	1399				CCDS13785.1	22q11.21	2013-07-09	2013-07-09		ENSG00000099942	ENSG00000099942		"SH2 domain containing"	2363	protein-coding gene	gene with protein product		602007				8361759, 8798523	Standard	NM_005207		Approved		uc002ztf.2	P46109	OTTHUMG00000150807	ENST00000354336.3:c.37G>C	22.37:g.21272259G>C	ENSP00000346300:p.Ala13Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA44|D3DX35	Missense_Mutation	SNP	ENST00000354336.3	37	CCDS13785.1	.	.	.	.	.	.	.	.	.	.	G	18.72	3.683747	0.68157	.	.	ENSG00000099942	ENST00000354336	T	0.21932	1.98	5.27	0.287	0.15714	SH2 motif (2);	0.368313	0.30611	N	0.009241	T	0.07098	0.0180	N	0.02412	-0.56	0.42745	D	0.993759	B	0.33000	0.393	B	0.29353	0.101	T	0.31888	-0.9927	10	0.14252	T	0.57	.	13.4072	0.60919	0.0:0.0:0.4263:0.5737	.	13	P46109	CRKL_HUMAN	P	13	ENSP00000346300:A13P	ENSP00000346300:A13P	A	+	1	0	CRKL	19602259	0.824000	0.29247	0.757000	0.31301	0.988000	0.76386	1.158000	0.31737	-0.041000	0.13558	0.650000	0.86243	GCC		0.697	CRKL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320158.1	NM_005207		C	21272259	G	C	21272259	3	2	588	1	0	0	0	0	1	0	0	0	3887	1087	38	4	39	4	CRKL	22	21272259	Missense_Mutation	SNP	G	TCGA-G7-6790-01A-11D-1961-08		21272259	30032307	86	35062										
APOL4	80832	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	36595420	36595420	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	agcctggatggttttgctgcAcccttgaggaagagaaaaca	12	8	0	2			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chr22:36595420A>G	ENST00000405511.1	-	4	460	c.38T>C	c.(37-39)gTg>gCg	p.V13A	APOL4_ENST00000328429.4_Splice_Site_p.C31R|APOL4_ENST00000479929.1_5'UTR|APOL4_ENST00000332987.1_Missense_Mutation_p.V13A|APOL4_ENST00000352371.1_Missense_Mutation_p.V16A|APOL4_ENST00000429038.2_Missense_Mutation_p.V13A|APOL4_ENST00000397275.2_Missense_Mutation_p.C31R|APOL4_ENST00000404685.3_Missense_Mutation_p.V16A	NM_030643.3	NP_085146.2	Q9BPW4	APOL4_HUMAN	apolipoprotein L, 4	16					lipid metabolic process (GO:0006629)|lipid transport (GO:0006869)|lipoprotein metabolic process (GO:0042157)	extracellular space (GO:0005615)	lipid binding (GO:0008289)			lung(1)	1						GTTTTGCTGCACCCTTGAGGA	0.557																																																0													122	129	127					22																	36595420		2186	4294	6480	SO:0001583	missense	80832			AF305226	CCDS74851.1, CCDS74852.1	22q11.2-q13.2	2013-01-24			ENSG00000100336	ENSG00000100336		"Apolipoproteins"	14867	protein-coding gene	gene with protein product		607254				11374903	Standard	NM_030643		Approved	APOLIV	uc003aox.3	Q9BPW4	OTTHUMG00000150630	ENST00000405511.1:c.38T>C	22.37:g.36595420A>G	ENSP00000384011:p.Val13Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BQ37|Q9BXQ8	Missense_Mutation	SNP	ENST00000405511.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	a|a	5.282|5.282	0.237449|0.237449	0.10023|0.10023	.|.	.|.	ENSG00000100336|ENSG00000100336	ENST00000397275;ENST00000328429|ENST00000404685;ENST00000405511;ENST00000429038;ENST00000352371;ENST00000332987;ENST00000457630;ENST00000419360;ENST00000449084;ENST00000436763	.|T;T;T;T;T;T;T;T;T	.|0.61742	.|1.51;1.37;1.37;3.81;3.92;0.81;0.77;0.39;0.08	1.44|1.44	0.359|0.359	0.16088|0.16088	.|.	.|9.394490	.|0.00944	.|U	.|0.002875	T|T	0.40448|0.40448	0.1117|0.1117	.|.	.|.	.|.	0.09310|0.09310	N|N	1|1	.|B;B	.|0.17465	.|0.013;0.022	.|B;B	.|0.11329	.|0.003;0.006	T|T	0.11251|0.11251	-1.0595|-1.0595	5|9	0.87932|0.26408	D|T	0|0.33	.|.	3.4282|3.4282	0.07418|0.07418	0.767:0.0:0.233:0.0|0.767:0.0:0.233:0.0	.|.	.|16;13	.|Q9BPW4;Q9BPW4-3	.|APOL4_HUMAN;.	R|A	31|16;13;13;16;13;13;13;13;13	.|ENSP00000385119:V16A;ENSP00000384011:V13A;ENSP00000404366:V13A;ENSP00000338260:V16A;ENSP00000333229:V13A;ENSP00000409085:V13A;ENSP00000395548:V13A;ENSP00000388936:V13A;ENSP00000393096:V13A	ENSP00000331089:C31R|ENSP00000333229:V13A	C|V	-|-	1|2	0|0	APOL4|APOL4	34925366|34925366	0.001000|0.001000	0.12720|0.12720	0.002000|0.002000	0.10522|0.10522	0.001000|0.001000	0.01503|0.01503	0.524000|0.524000	0.22940|0.22940	0.051000|0.051000	0.15978|0.15978	-0.946000|-0.946000	0.02672|0.02672	TGC|GTG		0.557	APOL4-002	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000319256.2	NM_145660		G	36595420	A	G	36595420	3	3	588	1	0	0	0	0	1	0	0	0	808	159	6	3	1018	3	APOL4	22	36595420	Missense_Mutation	SNP	A	TCGA-G7-6790-01A-11D-1961-08	15323161	36595420	14709146	87	35063										
OFD1	8481	broad.mit.edu	37	chrX	13754640	13754640	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	tcatgagttgatgcaccctgTattgagtggagaactgcagc	12	8	1	4			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chrX:13754640T>C	ENST00000340096.6	+	3	482	c.155T>C	c.(154-156)gTa>gCa	p.V52A	TRAPPC2_ENST00000519885.1_5'Flank|TRAPPC2_ENST00000380579.1_5'Flank|OFD1_ENST00000380550.3_Missense_Mutation_p.V52A|TRAPPC2_ENST00000453655.2_5'Flank|TRAPPC2_ENST00000358231.5_5'Flank|OFD1_ENST00000490265.1_3'UTR|TRAPPC2_ENST00000458511.2_5'Flank|TRAPPC2_ENST00000359680.5_5'Flank|OFD1_ENST00000398395.3_Missense_Mutation_p.V52A|OFD1_ENST00000380567.1_5'UTR	NM_003611.2	NP_003602.1	O75665	OFD1_HUMAN	oral-facial-digital syndrome 1	52					axoneme assembly (GO:0035082)|cilium morphogenesis (GO:0060271)|embryonic body morphogenesis (GO:0010172)|epithelial cilium movement involved in determination of left/right asymmetry (GO:0060287)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|negative regulation of fibroblast growth factor receptor signaling pathway involved in neural plate anterior/posterior pattern formation (GO:2000314)	centriolar satellite (GO:0034451)|centriole (GO:0005814)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cilium (GO:0005929)|cytosol (GO:0005829)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|nucleus (GO:0005634)	alpha-tubulin binding (GO:0043014)|gamma-tubulin binding (GO:0043015)			breast(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(5)|lung(7)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	25						ATGCACCCTGTATTGAGTGGA	0.398																																																0													152	148	149					X																	13754640		2203	4300	6503	SO:0001583	missense	8481			Y15164	CCDS14157.1	Xp22	2014-06-18			ENSG00000046651	ENSG00000046651			2567	protein-coding gene	gene with protein product		300170	"retinitis pigmentosa 23 (X-linked recessive)"	CXorf5, RP23		9722947, 9215688, 22619378	Standard	NM_003611		Approved	71-7A, JBTS10	uc004cvp.4	O75665	OTTHUMG00000021159	ENST00000340096.6:c.155T>C	X.37:g.13754640T>C	ENSP00000344314:p.Val52Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B9ZVU5|O75666|Q4VAK4	Missense_Mutation	SNP	ENST00000340096.6	37	CCDS14157.1	.	.	.	.	.	.	.	.	.	.	T	14.49	2.550708	0.45383	.	.	ENSG00000046651	ENST00000380550;ENST00000398395;ENST00000340096	D;D;D	0.95412	-3.68;-3.44;-3.7	5.55	4.38	0.52667	.	0.499719	0.22428	N	0.060189	D	0.93880	0.8042	M	0.76002	2.32	0.09310	N	1	P;P;P	0.47106	0.89;0.82;0.89	B;B;B	0.42738	0.396;0.285;0.396	D	0.87609	0.2502	10	0.42905	T	0.14	-9.6943	7.333	0.26594	0.0:0.2422:0.0:0.7578	.	52;52;52	A8K2T9;O75665-3;O75665	.;.;OFD1_HUMAN	A	52	ENSP00000369923:V52A;ENSP00000381432:V52A;ENSP00000344314:V52A	ENSP00000344314:V52A	V	+	2	0	OFD1	13664561	0.946000	0.32159	0.608000	0.28969	0.837000	0.47467	1.572000	0.36461	0.740000	0.32651	-0.314000	0.08810	GTA		0.398	OFD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000055808.1	NM_003611		C	13754640	T	C	13754640	3	2	588	1	0	0	0	0	1	0	0	0	10845	1638	57	3	165	3	OFD1	23	13754640	Missense_Mutation	SNP	T	TCGA-G7-6790-01A-11D-1961-08		13754640	141515920	88	35064										
PNCK	139728	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	152937464	152937464	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0340909090909091	3	1	0.793522267206478	1.29849098270151	0.446356275303644	1	1	0	atgcggtcaaacagctcgccAcccgtcaccctgggggtgcc	12	16	2	0			TCGA-G7-6790-01A-11D-1961-08	TCGA-G7-6790-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ef807a92-f471-4d93-8ae9-24bbb846feaa	66cbb40f-14b3-40c0-a332-e8a8e21bca11	g.chrX:152937464A>T	ENST00000370150.1	-	5	463	c.285T>A	c.(283-285)ggT>ggA	p.G95G	PNCK_ENST00000370142.1_Silent_p.G95G|PNCK_ENST00000447676.2_Silent_p.G178G|PNCK_ENST00000340888.3_Silent_p.G95G|PNCK_ENST00000475172.1_5'UTR|PNCK_ENST00000370145.4_Silent_p.G112G|PNCK_ENST00000393831.2_Silent_p.G95G			Q6P2M8	KCC1B_HUMAN	pregnancy up-regulated nonubiquitous CaM kinase	95	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.					cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|calmodulin-dependent protein kinase activity (GO:0004683)			breast(2)|lung(3)|skin(1)	6	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ACAGCTCGCCACCCGTCACCC	0.657																																																0													39	35	36					X																	152937464		2203	4299	6502	SO:0001819	synonymous_variant	139728			BC033746	CCDS35503.2, CCDS48189.1	Xq28	2013-10-14	2013-10-14		ENSG00000130822	ENSG00000130822			13415	protein-coding gene	gene with protein product		300680	"pregnancy upregulated non-ubiquitously expressed CaM kinase", "pregnancy up-regulated non-ubiquitously expressed CaM kinase"			12477932	Standard	NM_001039582		Approved	MGC45419, CaMK1b	uc011myu.2	Q6P2M8	OTTHUMG00000024216	ENST00000370150.1:c.285T>A	X.37:g.152937464A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DJR8|B4E1A6|B7WPG0|D3DWU7|Q8N4R0	Silent	SNP	ENST00000370150.1	37																																																																																					0.657	PNCK-001	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000061044.2	NM_198452		T	152937464	A	T	152937464	2	4	588	1	0	0	0	0	0	0	0	1	12152	146	6	5		5	PNCK	23	152937464	Silent	SNP	A	TCGA-G7-6790-01A-11D-1961-08	139182824	152937464	2333096	89	35065										
ESPN	83715	hgsc.bcm.edu	37	chr1	6500833	6500833	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	ctgacctgtggggcgggaccCcgctgcacgacgccgccgag	16	16	0	1	rs3817921		TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr1:6500833C>G	ENST00000377828.1	+	4	991	c.823C>G	c.(823-825)Ccg>Gcg	p.P275A	RP1-202O8.2_ENST00000419034.1_RNA	NM_031475.2	NP_113663.2	B1AK53	ESPN_HUMAN	espin	275					locomotory behavior (GO:0007626)|negative regulation of cytoskeleton organization (GO:0051494)|parallel actin filament bundle assembly (GO:0030046)|positive regulation of filopodium assembly (GO:0051491)|sensory perception of sound (GO:0007605)	brush border (GO:0005903)|cytoplasm (GO:0005737)|filamentous actin (GO:0031941)|microvillus (GO:0005902)|stereocilium bundle tip (GO:0032426)	actin filament binding (GO:0051015)|SH3 domain binding (GO:0017124)			NS(1)|breast(2)|cervix(1)|kidney(1)|large_intestine(2)|lung(7)|ovary(1)|prostate(1)|skin(1)	17	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)		GGGCGGGACCCCGCTGCACGA	0.746																																																0																																										SO:0001583	missense	83715			AF134401	CCDS70.1	1p36.31	2013-01-10			ENSG00000187017	ENSG00000187017		"Ankyrin repeat domain containing"	13281	protein-coding gene	gene with protein product		606351	"deafness, autosomal recessive 36"	DFNB36		10975527, 15286153	Standard	NM_031475		Approved		uc001amy.3	B1AK53	OTTHUMG00000000753	ENST00000377828.1:c.823C>G	1.37:g.6500833C>G	ENSP00000367059:p.Pro275Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6XYB2|Q9H0A2|Q9Y329	Missense_Mutation	SNP	ENST00000377828.1	37	CCDS70.1	.	.	.	.	.	.	.	.	.	.	C	17.78	3.472642	0.63737	.	.	ENSG00000187017	ENST00000377828;ENST00000418286	T;T	0.67523	-0.27;0.91	3.84	3.84	0.44239	Ankyrin repeat-containing domain (4);	0.437340	0.22224	N	0.062901	T	0.45577	0.1349	N	0.05414	-0.055	0.80722	D	1	B	0.14438	0.01	B	0.18263	0.021	T	0.39057	-0.9632	10	0.32370	T	0.25	-11.7359	12.6418	0.56714	0.0:1.0:0.0:0.0	rs3817921	275	B1AK53	ESPN_HUMAN	A	275;60	ENSP00000367059:P275A;ENSP00000401793:P60A	ENSP00000367059:P275A	P	+	1	0	ESPN	6423420	1.000000	0.71417	1.000000	0.80357	0.955000	0.61496	7.267000	0.78462	1.989000	0.58080	0.430000	0.28490	CCG		0.746	ESPN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000001887.3	NM_031475		G	6500833	C	G	6500833	3	3	589	1	0	0	0	0	1	0	0	0	5256	623	22	4	837	4	ESPN	1	6500833	Missense_Mutation	SNP	C	TCGA-G7-6792-01A-21D-1961-08		6500833	242749788	1	35066										
C1orf187	374946	broad.mit.edu	37	chr1	11771907	11771907	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	ccccttctccacggtctccaGcaggcacagcccaggtctga	9	18	3	1	rs147444302		TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr1:11771907G>A	ENST00000294485.5	+	4	777		c.e4-1			NM_198545.3	NP_940947.3			dorsal inhibitory axon guidance protein																		ACGGTCTCCAGCAGGCACAGC	0.552																																																0													54	42	46					1																	11771907		2203	4300	6503	SO:0001630	splice_region_variant	374946			AY358750	CCDS135.1	1p36.22	2012-08-20	2012-08-14	2012-08-14	ENSG00000162490	ENSG00000162490			25054	protein-coding gene	gene with protein product	"dorsal repulsive axon guidance protein", "neural tissue-specific cysteine-rich protein"	612682	"chromosome 1 open reading frame 187"	C1orf187		19150847	Standard	NM_198545		Approved	FLJ34999, Draxin, Neucrin	uc001asr.1	Q8NBI3	OTTHUMG00000002227	ENST00000294485.5:c.643-1G>A	1.37:g.11771907G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Splice_Site	SNP	ENST00000294485.5	37	CCDS135.1	.	.	.	.	.	.	.	.	.	.	G	3.498	-0.102520	0.06967	.	.	ENSG00000162490	ENST00000294485	.	.	.	5.52	2.29	0.28610	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	10.5109	0.44862	0.0667:0.1084:0.7246:0.1002	.	.	.	.	.	-1	.	.	.	+	.	.	C1orf187	11694494	1.000000	0.71417	0.453000	0.27007	0.065000	0.16274	3.334000	0.52097	0.276000	0.22118	-0.797000	0.03246	.		0.552	DRAXIN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006325.1	NM_198545	Intron	A	11771907	G	A	11771907	5	1	589	1	0	0	0	0	0	0	1	0	2023	985	34	2	652	2	C1orf187	1	11771907	Splice_Site	SNP	G	TCGA-G7-6792-01A-21D-1961-08	5271074	11771907	237478714	2	35067										
CELSR2	1952	hgsc.bcm.edu	37	chr1	109792762	109792762	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	cgccgccgctgctgctgctgTtgctgctgctgctgccgccg	14	17	0	0			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr1:109792762T>C	ENST00000271332.3	+	1	122	c.61T>C	c.(61-63)Ttg>Ctg	p.L21L		NM_001408.2	NP_001399.1	Q9HCU4	CELR2_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 2	21					cerebrospinal fluid secretion (GO:0033326)|cilium assembly (GO:0042384)|cilium movement (GO:0003341)|dendrite morphogenesis (GO:0048813)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|neural plate anterior/posterior regionalization (GO:0021999)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|regulation of cell-cell adhesion (GO:0022407)|regulation of protein localization (GO:0032880)|regulation of transcription, DNA-templated (GO:0006355)|ventricular system development (GO:0021591)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|cervix(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(14)|lung(27)|ovary(5)|prostate(1)|skin(3)|urinary_tract(2)	82		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)		gctgctgctgttgctgctgct	0.746																																					NSCLC(158;1285 2011 34800 34852 42084)											0													9	11	11					1																	109792762		1973	3925	5898	SO:0001819	synonymous_variant	1952			D87469	CCDS796.1	1p13.3	2014-08-08	2013-02-18		ENSG00000143126	ENSG00000143126		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	3231	protein-coding gene	gene with protein product		604265	"cadherin, EGF LAG seven-pass G-type receptor 2, flamingo (Drosophila) homolog"	EGFL2		9693030, 10907856	Standard	NM_001408		Approved	KIAA0279, MEGF3, Flamingo1, CDHF10	uc001dxa.4	Q9HCU4	OTTHUMG00000012003	ENST00000271332.3:c.61T>C	1.37:g.109792762T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T2Y7|Q92566	Silent	SNP	ENST00000271332.3	37	CCDS796.1																																																																																				0.746	CELSR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033200.1	NM_001408		C	109792762	T	C	109792762	2	2	589	1	0	0	0	0	0	0	0	1	3224	1722	60	3		3	CELSR2	1	109792762	Silent	SNP	T	TCGA-G7-6792-01A-21D-1961-08	98020855	109792762	139457859	3	35068										
DDX20	11218	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	112303729	112303729	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	atttaatcaagctttagtctTttctaatttgcacagcaggt	6	7	3	0			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr1:112303729T>G	ENST00000369702.4	+	6	1564	c.944T>G	c.(943-945)tTt>tGt	p.F315C	DDX20_ENST00000536167.1_3'UTR|DDX20_ENST00000475700.1_5'UTR	NM_007204.4	NP_009135.4	Q9UHI6	DDX20_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 20	315	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				ATP catabolic process (GO:0006200)|gene expression (GO:0010467)|ncRNA metabolic process (GO:0034660)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|oogenesis (GO:0048477)|positive regulation of apoptotic process (GO:0043065)|regulation of steroid biosynthetic process (GO:0050810)|RNA metabolic process (GO:0016070)|RNA processing (GO:0006396)|spliceosomal snRNP assembly (GO:0000387)|spliceosomal tri-snRNP complex assembly (GO:0000244)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SMN complex (GO:0032797)|SMN-Sm protein complex (GO:0034719)|transcriptional repressor complex (GO:0017053)	ATP binding (GO:0005524)|ATP-dependent RNA helicase activity (GO:0004004)|DNA binding (GO:0003677)			endometrium(3)|kidney(7)|large_intestine(6)|lung(3)|pancreas(1)|prostate(1)	21		all_cancers(81;1.06e-05)|all_epithelial(167;7.36e-06)|all_lung(203;2.44e-05)|Lung NSC(69;4.15e-05)		Lung(183;0.0234)|Colorectal(144;0.0282)|all cancers(265;0.0614)|Epithelial(280;0.0999)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCTTTAGTCTTTTCTAATTTG	0.353																																																0													111	114	113					1																	112303729		2203	4300	6503	SO:0001583	missense	11218			AF106019	CCDS842.1	1p21.1-p13.2	2008-02-05	2003-06-13		ENSG00000064703	ENSG00000064703		"DEAD-boxes"	2743	protein-coding gene	gene with protein product		606168	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 20, 103kD"			10383418	Standard	NM_007204		Approved	DP103, GEMIN3	uc001ebs.3	Q9UHI6	OTTHUMG00000011956	ENST00000369702.4:c.944T>G	1.37:g.112303729T>G	ENSP00000358716:p.Phe315Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DWV7|Q96F72|Q9NVM3|Q9UF59|Q9UIY0|Q9Y659	Missense_Mutation	SNP	ENST00000369702.4	37	CCDS842.1	.	.	.	.	.	.	.	.	.	.	T	20.3	3.962407	0.74016	.	.	ENSG00000064703	ENST00000369702	T	0.11063	2.81	5.62	5.62	0.85841	Helicase, C-terminal (1);	0.000000	0.85682	D	0.000000	T	0.43344	0.1243	H	0.98178	4.165	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.66106	-0.6006	10	0.87932	D	0	-23.1854	15.4768	0.75489	0.0:0.0:0.0:1.0	.	315	Q9UHI6	DDX20_HUMAN	C	315	ENSP00000358716:F315C	ENSP00000358716:F315C	F	+	2	0	DDX20	112105252	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.586000	0.82596	2.152000	0.67230	0.459000	0.35465	TTT		0.353	DDX20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033063.2	NM_007204		G	112303729	T	G	112303729	3	3	589	1	0	0	0	0	1	0	0	0	4350	1841	64	5	966	5	DDX20	1	112303729	Missense_Mutation	SNP	T	TCGA-G7-6792-01A-21D-1961-08	2510967	112303729	136946892	4	35069										
RXFP4	339403	broad.mit.edu;bcgsc.ca	37	chr1	155912175	155912175	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	gtcatcaccaccagctacctGctgctgctggccttcctgca	8	17	2	0			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr1:155912175G>A	ENST00000368318.3	+	1	696	c.675G>A	c.(673-675)ctG>ctA	p.L225L		NM_181885.2	NP_871001.1	Q8TDU9	RL3R2_HUMAN	relaxin/insulin-like family peptide receptor 4	225						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	angiotensin type II receptor activity (GO:0004945)			endometrium(1)|large_intestine(4)|lung(6)|ovary(1)|skin(1)	13	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					CCAGCTACCTGCTGCTGCTGG	0.662																																																0													45	49	48					1																	155912175		2203	4300	6503	SO:0001819	synonymous_variant	339403			AB065617	CCDS1124.1	1q22	2012-08-08	2006-05-09	2006-03-15	ENSG00000173080	ENSG00000173080		"GPCR / Class A : Relaxin family peptide receptors"	14666	protein-coding gene	gene with protein product		609043	"G protein-coupled receptor 100", "relaxin 3 receptor 2", "relaxin family peptide receptor 4"	GPR100, RLN3R2		15956688, 16507880	Standard	NM_181885		Approved	GPCR142, RXFPR4	uc010pgs.2	Q8TDU9	OTTHUMG00000017463	ENST00000368318.3:c.675G>A	1.37:g.155912175G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B0M0L4|Q3MJB1|Q8NGZ8	Silent	SNP	ENST00000368318.3	37	CCDS1124.1																																																																																				0.662	RXFP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046203.1	NM_181885		A	155912175	G	A	155912175	2	1	589	1	0	0	0	0	0	0	0	1	13775	1306	46	2		2	RXFP4	1	155912175	Silent	SNP	G	TCGA-G7-6792-01A-21D-1961-08	43608446	155912175	93338446	5	35070										
DSTYK	25778	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	205132071	205132071	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	ctgtttgatttgctcccataGcatccttgtaactgacgacc	7	12	0	2			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr1:205132071G>A	ENST00000367162.3	-	5	1651	c.1621C>T	c.(1621-1623)Cta>Tta	p.L541L	DSTYK_ENST00000367161.3_Silent_p.L541L|DSTYK_ENST00000367160.4_Intron	NM_015375.2	NP_056190.1	Q6XUX3	DUSTY_HUMAN	dual serine/threonine and tyrosine protein kinase	541					cellular response to fibroblast growth factor stimulus (GO:0044344)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of fibroblast growth factor receptor signaling pathway (GO:0045743)|positive regulation of kinase activity (GO:0033674)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|cytoplasm (GO:0005737)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|protein tyrosine kinase activity (GO:0004713)			breast(2)|kidney(1)|large_intestine(1)|lung(7)|prostate(1)|skin(2)	14						TGCTCCCATAGCATCCTTGTA	0.418																																																0													205	191	196					1																	205132071		2203	4300	6503	SO:0001819	synonymous_variant	25778			AF068286	CCDS1451.1, CCDS1452.1	1q32	2008-12-18	2008-12-18	2008-12-18	ENSG00000133059	ENSG00000133059			29043	protein-coding gene	gene with protein product		612666	"receptor interacting protein kinase 5"	RIPK5		15178406	Standard	NM_015375		Approved	KIAA0472, DustyPK, RIP5	uc001hbw.3	Q6XUX3	OTTHUMG00000037102	ENST00000367162.3:c.1621C>T	1.37:g.205132071G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZL64|O75060|Q17R94|Q5RKT0|Q6IN87|Q6P997|Q86Y03|Q9P1S5	Silent	SNP	ENST00000367162.3	37	CCDS1451.1																																																																																				0.418	DSTYK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090345.1	NM_015375		A	205132071	G	A	205132071	2	1	589	1	0	0	0	0	0	0	0	1	4787	962	34	2		2	DSTYK	1	205132071	Silent	SNP	G	TCGA-G7-6792-01A-21D-1961-08	49219896	205132071	44118550	6	35071										
LEFTY1	10637	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	226075314	226075314	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	gtcacgtcgaaggccttccaGccgctctcgtggacggacac	12	15	2	0			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr1:226075314G>A	ENST00000272134.5	-	3	601	c.522C>T	c.(520-522)ggC>ggT	p.G174G	LEFTY1_ENST00000492457.1_5'Flank|RP4-559A3.7_ENST00000432920.2_Silent_p.L283L	NM_020997.3	NP_066277.1	O75610	LFTY1_HUMAN	left-right determination factor 1	174					cell growth (GO:0016049)|determination of left/right symmetry (GO:0007368)|heart morphogenesis (GO:0003007)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transforming growth factor beta receptor signaling pathway (GO:0007179)	extracellular space (GO:0005615)				cervix(1)|endometrium(1)|large_intestine(1)|lung(4)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	10	Breast(184;0.197)					AGGCCTTCCAGCCGCTCTCGT	0.701																																																0													14	18	17					1																	226075314		2133	4177	6310	SO:0001819	synonymous_variant	10637			AF081507	CCDS1548.1	1q42.1	2008-02-05	2004-11-17	2004-11-17	ENSG00000243709	ENSG00000243709			6552	protein-coding gene	gene with protein product		603037	"left-right determination, factor B"	LEFTB		10053005, 10886363	Standard	NM_020997		Approved	LEFTYB	uc001hpo.3	O75610	OTTHUMG00000037443	ENST00000272134.5:c.522C>T	1.37:g.226075314G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R7U0|Q53H67|Q5TE94	Silent	SNP	ENST00000272134.5	37	CCDS1548.1																																																																																				0.701	LEFTY1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091155.1	NM_020997		A	226075314	G	A	226075314	2	1	589	1	0	0	0	0	0	0	0	1	8722	958	34	2		2	LEFTY1	1	226075314	Silent	SNP	G	TCGA-G7-6792-01A-21D-1961-08	20943243	226075314	23175307	7	35072										
AGT	183	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	230841791	230841791	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	cagcagcaggcaggcgctctCagtgaagggcacttgagtca	14	11	2	2			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr1:230841791C>T	ENST00000366667.4	-	3	1226	c.1012G>A	c.(1012-1014)Gag>Aag	p.E338K		NM_000029.3	NP_000020.1	P01019	ANGT_HUMAN	angiotensinogen (serpin peptidase inhibitor, clade A, member 8)	338					activation of NF-kappaB-inducing kinase activity (GO:0007250)|activation of phospholipase C activity (GO:0007202)|aging (GO:0007568)|angiotensin maturation (GO:0002003)|angiotensin mediated vasoconstriction involved in regulation of systemic arterial blood pressure (GO:0001998)|angiotensin-mediated drinking behavior (GO:0003051)|artery smooth muscle contraction (GO:0014824)|astrocyte activation (GO:0048143)|blood vessel development (GO:0001568)|blood vessel remodeling (GO:0001974)|branching involved in ureteric bud morphogenesis (GO:0001658)|catenin import into nucleus (GO:0035411)|cell growth involved in cardiac muscle cell development (GO:0061049)|cell-cell signaling (GO:0007267)|cell-matrix adhesion (GO:0007160)|cellular lipid metabolic process (GO:0044255)|cellular protein metabolic process (GO:0044267)|cellular response to mechanical stimulus (GO:0071260)|cellular sodium ion homeostasis (GO:0006883)|cytokine secretion (GO:0050663)|ERK1 and ERK2 cascade (GO:0070371)|establishment of blood-nerve barrier (GO:0008065)|excretion (GO:0007588)|extracellular matrix organization (GO:0030198)|fibroblast proliferation (GO:0048144)|G-protein coupled receptor signaling pathway (GO:0007186)|G-protein coupled receptor signaling pathway coupled to cGMP nucleotide second messenger (GO:0007199)|kidney development (GO:0001822)|low-density lipoprotein particle remodeling (GO:0034374)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of neurotrophin TRK receptor signaling pathway (GO:0051387)|negative regulation of sodium ion transmembrane transporter activity (GO:2000650)|negative regulation of tissue remodeling (GO:0034104)|nitric oxide mediated signal transduction (GO:0007263)|ovarian follicle rupture (GO:0001543)|peristalsis (GO:0030432)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|positive regulation of activation of JAK2 kinase activity (GO:0010535)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|positive regulation of cardiac muscle hypertrophy (GO:0010613)|positive regulation of cellular protein metabolic process (GO:0032270)|positive regulation of cholesterol esterification (GO:0010873)|positive regulation of cytokine production (GO:0001819)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of epidermal growth factor receptor signaling pathway (GO:0045742)|positive regulation of extracellular matrix constituent secretion (GO:0003331)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of fatty acid biosynthetic process (GO:0045723)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of inflammatory response (GO:0050729)|positive regulation of macrophage derived foam cell differentiation (GO:0010744)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of multicellular organism growth (GO:0040018)|positive regulation of NAD(P)H oxidase activity (GO:0033864)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of organ growth (GO:0046622)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein tyrosine kinase activity (GO:0061098)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of renal sodium excretion (GO:0035815)|positive regulation of superoxide anion generation (GO:0032930)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of blood vessel size by renin-angiotensin (GO:0002034)|regulation of blood volume by renin-angiotensin (GO:0002016)|regulation of calcium ion transport (GO:0051924)|regulation of cell growth (GO:0001558)|regulation of cell proliferation (GO:0042127)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of norepinephrine secretion (GO:0014061)|regulation of proteolysis (GO:0030162)|regulation of renal output by angiotensin (GO:0002019)|regulation of renal sodium excretion (GO:0035813)|regulation of vasoconstriction (GO:0019229)|renal response to blood flow involved in circulatory renin-angiotensin regulation of systemic arterial blood pressure (GO:0001999)|renal system process (GO:0003014)|renin-angiotensin regulation of aldosterone production (GO:0002018)|response to cold (GO:0009409)|response to muscle activity involved in regulation of muscle adaptation (GO:0014873)|response to salt stress (GO:0009651)|small molecule metabolic process (GO:0044281)|smooth muscle cell differentiation (GO:0051145)|smooth muscle cell proliferation (GO:0048659)|stress-activated MAPK cascade (GO:0051403)|uterine smooth muscle contraction (GO:0070471)|vasodilation (GO:0042311)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	growth factor activity (GO:0008083)|hormone activity (GO:0005179)|serine-type endopeptidase inhibitor activity (GO:0004867)|superoxide-generating NADPH oxidase activator activity (GO:0016176)|type 1 angiotensin receptor binding (GO:0031702)|type 2 angiotensin receptor binding (GO:0031703)			endometrium(5)|kidney(1)|large_intestine(6)|lung(7)|pancreas(1)|prostate(5)	25	Breast(184;0.0735)|Ovarian(103;0.183)	all_cancers(173;4.64e-23)|all_epithelial(177;3.61e-18)|Breast(1374;0.00093)|all_neural(198;0.0604)|Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;4.4e-06)|Colorectal(1306;5.46e-06)|COAD - Colon adenocarcinoma(196;0.000256)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		CAGGCGCTCTCAGTGAAGGGC	0.557																																																0													109	103	105					1																	230841791		2203	4300	6503	SO:0001583	missense	183			K02215	CCDS1585.1	1q42.2	2014-02-18	2005-08-18	2001-06-29	ENSG00000135744	ENSG00000135744		"Serine (or cysteine) peptidase inhibitors", "Endogenous ligands"	333	protein-coding gene	gene with protein product	"alpha-1 antiproteinase, antitrypsin"	106150		SERPINA8		6089875, 24172014	Standard	NM_000029		Approved		uc001hty.4	P01019	OTTHUMG00000037757	ENST00000366667.4:c.1012G>A	1.37:g.230841791C>T	ENSP00000355627:p.Glu338Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q16358|Q16359|Q96F91	Missense_Mutation	SNP	ENST00000366667.4	37	CCDS1585.1	.	.	.	.	.	.	.	.	.	.	C	0.022	-1.416535	0.01136	.	.	ENSG00000135744	ENST00000366667;ENST00000430091	D	0.87571	-2.27	5.17	1.03	0.20045	Serpin domain (3);	0.577268	0.19344	N	0.116572	T	0.70657	0.3249	N	0.11560	0.145	0.09310	N	1	B;B;B	0.16396	0.006;0.017;0.006	B;B;B	0.12156	0.003;0.007;0.003	T	0.54234	-0.8324	10	0.15499	T	0.54	.	9.4035	0.38447	0.0:0.543:0.0:0.457	.	338;338;338	B0ZBE2;B2R5S1;P01019	.;.;ANGT_HUMAN	K	338;256	ENSP00000355627:E338K	ENSP00000355627:E338K	E	-	1	0	AGT	228908414	0.000000	0.05858	0.000000	0.03702	0.018000	0.09664	0.077000	0.14738	0.168000	0.19655	0.655000	0.94253	GAG		0.557	AGT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092102.1	NM_000029		T	230841791	C	T	230841791	3	4	589	1	0	0	0	0	1	0	0	0	399	835	29	2	457	2	AGT	1	230841791	Missense_Mutation	SNP	C	TCGA-G7-6792-01A-21D-1961-08	4766477	230841791	18408830	8	35073										
FOSL2	2355	ucsc.edu	37	chr2	28631654	28631654	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	tgaagaggaggagaagcgtcGcatccggcgggagaggaaca	18	7	0	4			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr2:28631654G>A	ENST00000264716.4	+	3	1246	c.383G>A	c.(382-384)cGc>cAc	p.R128H	FOSL2_ENST00000545753.1_Missense_Mutation_p.R89H|FOSL2_ENST00000460736.1_3'UTR|FOSL2_ENST00000379619.1_Missense_Mutation_p.R103H	NM_005253.3	NP_005244.1	P15408	FOSL2_HUMAN	FOS-like antigen 2	128	Basic motif. {ECO:0000255|PROSITE- ProRule:PRU00978}.|bZIP. {ECO:0000255|PROSITE- ProRule:PRU00978}.				cell death (GO:0008219)|cellular response to hormone stimulus (GO:0032870)|female pregnancy (GO:0007565)|positive regulation of fibroblast proliferation (GO:0048146)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to cAMP (GO:0051591)|response to corticosterone (GO:0051412)|response to drug (GO:0042493)|response to mechanical stimulus (GO:0009612)|response to morphine (GO:0043278)|response to progesterone (GO:0032570)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	double-stranded DNA binding (GO:0003690)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(1)|large_intestine(3)|lung(1)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	14	Acute lymphoblastic leukemia(172;0.155)					GAGAAGCGTCGCATCCGGCGG	0.537																																																0													35	35	35					2																	28631654		2203	4300	6503	SO:0001583	missense	2355				CCDS1766.1	2p23.3	2013-01-10			ENSG00000075426	ENSG00000075426		"basic leucine zipper proteins"	3798	protein-coding gene	gene with protein product		601575					Standard	NM_005253		Approved	FRA2, FLJ23306	uc002rma.3	P15408	OTTHUMG00000097832	ENST00000264716.4:c.383G>A	2.37:g.28631654G>A	ENSP00000264716:p.Arg128His	Somatic		WXS	Illumina HiSeq		B2RD58|B3KP27|B4DYV4|Q6FG46	Missense_Mutation	SNP	ENST00000264716.4	37	CCDS1766.1	.	.	.	.	.	.	.	.	.	.	G	36	5.689889	0.96784	.	.	ENSG00000075426	ENST00000379619;ENST00000264716;ENST00000436647;ENST00000545753	T;T;T;T	0.71934	-0.61;-0.61;-0.61;-0.61	5.45	5.45	0.79879	Basic-leucine zipper (bZIP) transcription factor (2);bZIP transcription factor, bZIP-1 (1);	0.000000	0.85682	D	0.000000	D	0.87334	0.6151	M	0.88570	2.965	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.89396	0.3692	10	0.87932	D	0	-12.7055	19.2653	0.93983	0.0:0.0:1.0:0.0	.	128	P15408	FOSL2_HUMAN	H	103;128;89;89	ENSP00000368939:R103H;ENSP00000264716:R128H;ENSP00000396497:R89H;ENSP00000439303:R89H	ENSP00000264716:R128H	R	+	2	0	FOSL2	28485158	1.000000	0.71417	0.994000	0.49952	0.968000	0.65278	9.790000	0.99075	2.554000	0.86153	0.655000	0.94253	CGC		0.537	FOSL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215116.2	NM_005253		A	28631654	G	A	28631654	3	1	589	1	0	0	0	0	1	0	0	0	5995	1087	38	1	393	1	FOSL2	2	28631654	Missense_Mutation	SNP	G	TCGA-G7-6792-01A-21D-1961-08		28631654	214567719	9	35074										
NRXN1	9378	hgsc.bcm.edu	37	chr2	50574025	50574025	+	Intron	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	cctgcgccgccgccgccgccGccgccgccgccgcccccggg	14	26	0	0			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr2:50574025G>C	ENST00000406316.2	-	18	4841				NRXN1_ENST00000401669.2_Intron|NRXN1_ENST00000406859.3_Intron|NRXN1_ENST00000331040.5_Intron|NRXN1_ENST00000404971.1_Intron|NRXN1_ENST00000402717.3_Intron|NRXN1_ENST00000405472.3_Intron|NRXN1_ENST00000342183.5_Silent_p.G21G|NRXN1_ENST00000401710.1_Intron	NM_004801.4	NP_004792.1	Q9ULB1	NRX1A_HUMAN	neurexin 1						adult behavior (GO:0030534)|axon guidance (GO:0007411)|calcium-dependent cell-cell adhesion (GO:0016339)|cerebellar granule cell differentiation (GO:0021707)|establishment of protein localization (GO:0045184)|extracellular matrix organization (GO:0030198)|gamma-aminobutyric acid receptor clustering (GO:0097112)|gephyrin clustering (GO:0097116)|guanylate kinase-associated protein clustering (GO:0097117)|heterophilic cell-cell adhesion (GO:0007157)|learning (GO:0007612)|N-methyl-D-aspartate receptor clustering (GO:0097114)|negative regulation of filopodium assembly (GO:0051490)|neuroligin clustering (GO:0097118)|neuromuscular process controlling balance (GO:0050885)|neuron cell-cell adhesion (GO:0007158)|neuron maturation (GO:0042551)|neurotransmitter secretion (GO:0007269)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of synapse assembly (GO:0051965)|positive regulation of synapse maturation (GO:0090129)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|postsynaptic density protein 95 clustering (GO:0097119)|postsynaptic membrane assembly (GO:0097104)|presynaptic membrane assembly (GO:0097105)|receptor localization to synapse (GO:0097120)|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:2000311)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)|synaptic vesicle clustering (GO:0097091)|vocal learning (GO:0042297)|vocalization behavior (GO:0071625)	axonal growth cone (GO:0044295)|cell junction (GO:0030054)|cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|presynaptic membrane (GO:0042734)	acetylcholine receptor binding (GO:0033130)|calcium channel regulator activity (GO:0005246)|calcium ion binding (GO:0005509)|cell adhesion molecule binding (GO:0050839)|neuroligin family protein binding (GO:0097109)|receptor activity (GO:0004872)			breast(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(33)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	58		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			cgccgccgccgccgccgccgc	0.791																																																0													1	2	2					2																	50574025		764	1771	2535	SO:0001627	intron_variant	9378			AB011150	CCDS1845.1, CCDS46282.1, CCDS54360.1	2p16.3	2008-05-15			ENSG00000179915	ENSG00000179915			8008	protein-coding gene	gene with protein product		600565					Standard	NM_001135659		Approved	KIAA0578, Hs.22998	uc021vhj.1	P58400	OTTHUMG00000129263	ENST00000406316.2:c.3365-109917C>G	2.37:g.50574025G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A7KRL9|O60323|Q53TJ9|Q53TQ1|Q9C079|Q9C080|Q9C081|Q9H3M2|Q9UDM6	Silent	SNP	ENST00000406316.2	37	CCDS54360.1																																																																																				0.791	NRXN1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000325291.2			C	50574025	G	C	50574025	1	2	589	0	1	0	0	0	0	0	0	0	10672	1074	38	4		4	NRXN1	2	50574025	Intron	SNP	G	TCGA-G7-6792-01A-21D-1961-08	21942371	50574025	192625348	10	35075										
CXCR1	3577	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	219029397	219029397	+	Missense_Mutation	SNP	G	G	C													0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	aactggactggaattgtttgGatggtaagcctggcggaaaa							TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr2:219029397G>C	ENST00000295683.2	-	2	658	c.538C>G	c.(538-540)Cca>Gca	p.P180A		NM_000634.2	NP_000625.1	P25024	CXCR1_HUMAN	chemokine (C-X-C motif) receptor 1	180					cell surface receptor signaling pathway (GO:0007166)|chemokine-mediated signaling pathway (GO:0070098)|chemotaxis (GO:0006935)|dendritic cell chemotaxis (GO:0002407)|G-protein coupled receptor signaling pathway (GO:0007186)|inflammatory response (GO:0006954)|interleukin-8-mediated signaling pathway (GO:0038112)|receptor internalization (GO:0031623)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	chemokine receptor activity (GO:0004950)|G-protein coupled receptor activity (GO:0004930)|interleukin-8 binding (GO:0019959)|interleukin-8 receptor activity (GO:0004918)			endometrium(1)|large_intestine(2)|lung(7)|prostate(3)	13					Ketoprofen(DB01009)	GAATTGTTTGGATGGTAAGCC	0.512																																																0													88	77	81					2																	219029397		2203	4300	6503	SO:0001583	missense	3577			U11870	CCDS2409.1	2q35	2012-08-08	2009-11-25	2009-11-25	ENSG00000163464	ENSG00000163464		"CD molecules", "GPCR / Class A : Chemokine receptors : C-X-C motif", "Interleukins and interleukin receptors"	6026	protein-coding gene	gene with protein product		146929	"interleukin 8 receptor, alpha"	CMKAR1, IL8RA		1303245, 1427896	Standard	NM_000634		Approved	CKR-1, CDw128a, CD181	uc002vhc.3	P25024	OTTHUMG00000133108	ENST00000295683.2:c.538C>G	2.37:g.219029397G>C	ENSP00000295683:p.Pro180Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6Q3|Q2YEF8|Q2YEG4|Q2YEG5|Q2YEG7|Q2YEG8|Q53R18|Q6IN95|Q8N6T6|Q9P2T8|Q9P2T9|Q9P2U0|Q9P2U1|Q9P2U2	Missense_Mutation	SNP	ENST00000295683.2	37	CCDS2409.1	.	.	.	.	.	.	.	.	.	.	G	0.035	-1.310146	0.01342	.	.	ENSG00000163464	ENST00000295683;ENST00000421691	T	0.38077	1.16	4.71	2.87	0.33458	GPCR, rhodopsin-like superfamily (1);	0.779117	0.10221	N	0.700944	T	0.26122	0.0637	L	0.39245	1.2	0.09310	N	1	B	0.06786	0.001	B	0.18263	0.021	T	0.29488	-1.0010	10	0.14656	T	0.56	.	6.0111	0.19575	0.1817:0.2623:0.556:0.0	.	180	P25024	CXCR1_HUMAN	A	180;124	ENSP00000295683:P180A	ENSP00000295683:P180A	P	-	1	0	CXCR1	218737642	0.000000	0.05858	0.004000	0.12327	0.003000	0.03518	-0.300000	0.08243	1.109000	0.41680	0.655000	0.94253	CCA		0.512	CXCR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256773.2	NM_000634		C	219029397	G	C	219029397	3	2	589	1	0	0	0	0	1	0	0	0	4092	1174	41	4	518	4	CXCR1	2	219029397	Missense_Mutation	SNP	G	TCGA-G7-6792-01A-21D-1961-08	168455372	219029397	24169976	11	35076	266	2								
CXCR1	3577	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	219029403	219029403	+	Missense_Mutation	SNP	A	A	T													0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	actggaattgtttggatggtAagcctggcggaaaaggaaga							TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr2:219029403A>T	ENST00000295683.2	-	2	652	c.532T>A	c.(532-534)Tac>Aac	p.Y178N		NM_000634.2	NP_000625.1	P25024	CXCR1_HUMAN	chemokine (C-X-C motif) receptor 1	178					cell surface receptor signaling pathway (GO:0007166)|chemokine-mediated signaling pathway (GO:0070098)|chemotaxis (GO:0006935)|dendritic cell chemotaxis (GO:0002407)|G-protein coupled receptor signaling pathway (GO:0007186)|inflammatory response (GO:0006954)|interleukin-8-mediated signaling pathway (GO:0038112)|receptor internalization (GO:0031623)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	chemokine receptor activity (GO:0004950)|G-protein coupled receptor activity (GO:0004930)|interleukin-8 binding (GO:0019959)|interleukin-8 receptor activity (GO:0004918)			endometrium(1)|large_intestine(2)|lung(7)|prostate(3)	13					Ketoprofen(DB01009)	TTTGGATGGTAAGCCTGGCGG	0.512																																																0													89	78	82					2																	219029403		2203	4300	6503	SO:0001583	missense	3577			U11870	CCDS2409.1	2q35	2012-08-08	2009-11-25	2009-11-25	ENSG00000163464	ENSG00000163464		"CD molecules", "GPCR / Class A : Chemokine receptors : C-X-C motif", "Interleukins and interleukin receptors"	6026	protein-coding gene	gene with protein product		146929	"interleukin 8 receptor, alpha"	CMKAR1, IL8RA		1303245, 1427896	Standard	NM_000634		Approved	CKR-1, CDw128a, CD181	uc002vhc.3	P25024	OTTHUMG00000133108	ENST00000295683.2:c.532T>A	2.37:g.219029403A>T	ENSP00000295683:p.Tyr178Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6Q3|Q2YEF8|Q2YEG4|Q2YEG5|Q2YEG7|Q2YEG8|Q53R18|Q6IN95|Q8N6T6|Q9P2T8|Q9P2T9|Q9P2U0|Q9P2U1|Q9P2U2	Missense_Mutation	SNP	ENST00000295683.2	37	CCDS2409.1	.	.	.	.	.	.	.	.	.	.	A	9.226	1.034501	0.19590	.	.	ENSG00000163464	ENST00000295683;ENST00000421691	T	0.70986	-0.53	4.71	0.229	0.15368	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.55065	0.1897	L	0.33245	0.995	0.09310	N	1	B	0.10296	0.003	B	0.09377	0.004	T	0.46205	-0.9208	9	0.62326	D	0.03	.	5.2232	0.15379	0.433:0.0:0.0791:0.4878	.	178	P25024	CXCR1_HUMAN	N	178;122	ENSP00000295683:Y178N	ENSP00000295683:Y178N	Y	-	1	0	CXCR1	218737648	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	0.010000	0.13242	-0.169000	0.10834	-0.333000	0.08304	TAC		0.512	CXCR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256773.2	NM_000634		T	219029403	A	T	219029403	3	4	589	1	0	0	0	0	1	0	0	0	4092	362	13	5	524	5	CXCR1	2	219029403	Missense_Mutation	SNP	A	TCGA-G7-6792-01A-21D-1961-08	6	219029403	24169970	12	35077	266	2								
CTDSPL	10217	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	38009318	38009318	+	Splice_Site	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	tagtctcttttttctctagcCtattagtaatgctgatttta	5	7	2	1			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr3:38009318C>G	ENST00000273179.5	+	5	397	c.371C>G	c.(370-372)cCt>cGt	p.P124R	MIR26A1_ENST00000362205.1_RNA|CTDSPL_ENST00000310189.3_3'UTR|CTDSPL_ENST00000443503.2_Splice_Site_p.P113R	NM_001008392.1	NP_001008393.1	O15194	CTDSL_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like	124	FCP1 homology. {ECO:0000255|PROSITE- ProRule:PRU00336}.					extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|phosphoprotein phosphatase activity (GO:0004721)			breast(1)|endometrium(2)|large_intestine(4)|skin(1)	8		Melanoma(1037;0.0122)		KIRC - Kidney renal clear cell carcinoma(284;0.0729)|Kidney(284;0.0902)		TTTCTCTAGCCTATTAGTAAT	0.308											OREG0015472	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													64	61	62					3																	38009318		2199	4299	6498	SO:0001630	splice_region_variant	10217			D88153	CCDS33734.1, CCDS33735.1	3p21.3	2010-06-21	2003-10-27	2003-10-29	ENSG00000144677	ENSG00000144677	3.1.3.16	"Serine/threonine phosphatases / CTD aspartate-based phosphatases"	16890	protein-coding gene	gene with protein product	"small CTD phosphatase 3", "HYA22 protein", "RB protein serine phosphatase from chromosome 3"	608592	"chromosome 3 open reading frame 8"	C3orf8		9179494, 12543795	Standard	NM_005808		Approved	HYA22, SCP3, PSR1, RBSP3	uc003chg.3	O15194	OTTHUMG00000155942	ENST00000273179.5:c.370-1C>G	3.37:g.38009318C>G		Somatic	874	WXS	Illumina HiSeq	Phase_I	Q3ZTU0|Q70KI4|Q7Z5Q2	Missense_Mutation	SNP	ENST00000273179.5	37	CCDS33734.1	.	.	.	.	.	.	.	.	.	.	C	25.3	4.625293	0.87560	.	.	ENSG00000144677	ENST00000443503;ENST00000273179;ENST00000447745	T;T;T	0.17213	2.29;2.29;2.29	5.15	5.15	0.70609	NLI interacting factor (3);Dullard phosphatase domain, eukaryotic (1);HAD-like domain (2);	0.049311	0.85682	D	0.000000	T	0.46756	0.1409	M	0.79926	2.475	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.81914	0.992;0.995	T	0.49133	-0.8971	10	0.62326	D	0.03	-20.9054	19.0018	0.92837	0.0:1.0:0.0:0.0	.	113;124	O15194-2;O15194	.;CTDSL_HUMAN	R	113;124;13	ENSP00000398288:P113R;ENSP00000273179:P124R;ENSP00000407443:P13R	ENSP00000273179:P124R	P	+	2	0	CTDSPL	37984322	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.720000	0.84759	2.571000	0.86741	0.655000	0.94253	CCT		0.308	CTDSPL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342392.1	NM_005808	Missense_Mutation	G	38009318	C	G	38009318	5	3	589	1	0	0	0	0	0	0	1	0	4007	695	24	4	389	4	CTDSPL	3	38009318	Splice_Site	SNP	C	TCGA-G7-6792-01A-21D-1961-08		38009318	160013112	13	35078										
FYCO1	79443	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	46008824	46008824	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	acccaagtgccggatgctggCctgctcggcctccagggagg	15	14	0	0			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr3:46008824C>T	ENST00000296137.2	-	8	2207	c.2002G>A	c.(2002-2004)Gcc>Acc	p.A668T	FYCO1_ENST00000535325.1_Missense_Mutation_p.A668T	NM_024513.3	NP_078789.2	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	668					plus-end-directed vesicle transport along microtubule (GO:0072383)	autophagic vacuole (GO:0005776)|cytoplasmic vesicle (GO:0031410)|integral component of membrane (GO:0016021)|late endosome (GO:0005770)|lysosome (GO:0005764)|membrane (GO:0016020)	metal ion binding (GO:0046872)			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)		CGGATGCTGGCCTGCTCGGCC	0.632																																																0													48	53	52					3																	46008824		2203	4299	6502	SO:0001583	missense	79443			AJ292348	CCDS2734.1	3p21.3	2008-02-05			ENSG00000163820	ENSG00000163820		"Zinc fingers, FYVE domain containing"	14673	protein-coding gene	gene with protein product		607182				11896456	Standard	NM_024513		Approved	FLJ13335, ZFYVE7	uc003cpb.5	Q9BQS8	OTTHUMG00000133447	ENST00000296137.2:c.2002G>A	3.37:g.46008824C>T	ENSP00000296137:p.Ala668Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKT7|Q3MJE6|Q86T41|Q86TB1|Q8TEF9|Q96IV5|Q9H8P9	Missense_Mutation	SNP	ENST00000296137.2	37	CCDS2734.1	.	.	.	.	.	.	.	.	.	.	C	14.80	2.644029	0.47258	.	.	ENSG00000163820	ENST00000296137;ENST00000535325	T;T	0.21932	1.98;1.98	5.77	3.98	0.46160	.	0.365546	0.30492	N	0.009502	T	0.29355	0.0731	M	0.62723	1.935	0.25407	N	0.988398	D;D	0.60575	0.988;0.983	P;P	0.57204	0.815;0.766	T	0.12016	-1.0564	10	0.19147	T	0.46	-9.0348	5.1628	0.15070	0.0:0.5992:0.1506:0.2502	.	668;668	B7ZKT7;Q9BQS8	.;FYCO1_HUMAN	T	668	ENSP00000296137:A668T;ENSP00000441178:A668T	ENSP00000296137:A668T	A	-	1	0	FYCO1	45983828	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	1.289000	0.33307	0.786000	0.33708	0.655000	0.94253	GCC		0.632	FYCO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257320.2	NM_024513		T	46008824	C	T	46008824	3	4	589	1	0	0	0	0	1	0	0	0	6132	739	26	2	2478	2	FYCO1	3	46008824	Missense_Mutation	SNP	C	TCGA-G7-6792-01A-21D-1961-08	7999506	46008824	152013606	14	35079										
IDUA	3425	hgsc.bcm.edu	37	chr4	980971	980971	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	gaggccccgcacctggtgcaTgtggacgcggcccgcgcgct	16	16	0	0	rs10794537	byFrequency	TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr4:980971T>G	ENST00000247933.4	+	1	187	c.99T>G	c.(97-99)caT>caG	p.H33Q	IDUA_ENST00000453894.1_Missense_Mutation_p.H33Q|SLC26A1_ENST00000398520.2_Intron	NM_000203.3	NP_000194.2	P35475	IDUA_HUMAN	iduronidase, alpha-L-	33			H -> Q (in dbSNP:rs10794537). {ECO:0000269|PubMed:1362562, ECO:0000269|PubMed:1505961, ECO:0000269|PubMed:1946389, ECO:0000269|PubMed:21394825}.		carbohydrate metabolic process (GO:0005975)|cell morphogenesis (GO:0000902)|chemical homeostasis (GO:0048878)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate catabolic process (GO:0030209)|disaccharide metabolic process (GO:0005984)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|limb morphogenesis (GO:0035108)|lysosome organization (GO:0007040)|skeletal system morphogenesis (GO:0048705)|small molecule metabolic process (GO:0044281)	coated vesicle (GO:0030135)|extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)	L-iduronidase activity (GO:0003940)			breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(5)|upper_aerodigestive_tract(1)	12			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			ACCTGGTGCATGTGGACGCGG	0.801													G|||	4467	0.891973	0.9826	0.8386	5008	,	,		8604	0.8472		0.8042	False		,,,				2504	0.9438															0													1	1	1					4																	980971		552	1375	1927	SO:0001583	missense	3425			M74715	CCDS3343.1	4p16.3	2012-10-02			ENSG00000127415	ENSG00000127415	3.2.1.76		5391	protein-coding gene	gene with protein product		252800				1832239	Standard	NM_000203		Approved	MPS1	uc003gby.3	P35475	OTTHUMG00000088901	ENST00000247933.4:c.99T>G	4.37:g.980971T>G	ENSP00000247933:p.His33Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWK6	Missense_Mutation	SNP	ENST00000247933.4	37	CCDS3343.1	1801|1801	0.8246336996336996|0.8246336996336996	464|464	0.943089430894309|0.943089430894309	294|294	0.8121546961325967|0.8121546961325967	448|448	0.7832167832167832|0.7832167832167832	595|595	0.7849604221635884|0.7849604221635884	G|G	3.726|3.726	-0.056533|-0.056533	0.07362|0.07362	.|.	.|.	ENSG00000127415|ENSG00000127415	ENST00000504568|ENST00000247933;ENST00000453894;ENST00000502910	.|D;D;D	.|0.93247	.|-3.18;-3.19;-3.03	3.62|3.62	-0.897|-0.897	0.10553|0.10553	.|.	.|0.728933	.|0.12190	.|N	.|0.491278	T|T	0.00012|0.00012	0.0000|0.0000	N|N	0.08118|0.08118	0|0	0.80722|0.80722	P|P	0.0|0.0	.|B;B	.|0.02656	.|0.0;0.0	.|B;B	.|0.01281	.|0.0;0.0	T|T	0.36817|0.36817	-0.9732|-0.9732	4|9	.|0.10111	.|T	.|0.7	.|.	1.2904|1.2904	0.02059|0.02059	0.1461:0.2669:0.3485:0.2385|0.1461:0.2669:0.3485:0.2385	rs10794537|rs10794537	.|33;33	.|B3KWK6;P35475	.|.;IDUA_HUMAN	G|Q	33|33	.|ENSP00000247933:H33Q;ENSP00000396458:H33Q;ENSP00000422952:H33Q	.|ENSP00000247933:H33Q	C|H	+|+	1|3	0|2	IDUA|IDUA	970971|970971	0.000000|0.000000	0.05858|0.05858	0.992000|0.992000	0.48379|0.48379	0.012000|0.012000	0.07955|0.07955	-2.547000|-2.547000	0.00931|0.00931	-0.253000|-0.253000	0.09514|0.09514	-1.482000|-1.482000	0.00985|0.00985	TGT|CAT		0.801	IDUA-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000201812.1	NM_000203		G	980971	T	G	980971	3	3	589	1	0	0	0	0	1	0	0	0	7511	1461	51	5	101	5	IDUA	4	980971	Missense_Mutation	SNP	T	TCGA-G7-6792-01A-21D-1961-08		980971	190173305	15	35080										
FNIP2	57600	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	159825696	159825696	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	gtggctcaaatactcttataAgctaaagctcaggacagttc	8	9	3	0			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr4:159825696A>G	ENST00000264433.6	+	17	3420	c.3345A>G	c.(3343-3345)taA>taG	p.*1115*	C4orf45_ENST00000434826.2_Intron|FNIP2_ENST00000379346.3_Silent_p.*1138*|C4orf45_ENST00000508011.1_Intron	NM_020840.1	NP_065891.1	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	0					intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|protein phosphorylation (GO:0006468)|regulation of protein phosphorylation (GO:0001932)	cytoplasm (GO:0005737)|microtubule organizing center (GO:0005815)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(3)|prostate(1)	9	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		TACTCTTATAAGCTAAAGCTC	0.388																																																0													141	133	136					4																	159825696		1847	4095	5942	SO:0001819	synonymous_variant	57600			AB040883	CCDS47155.1	4q32.1	2012-10-31			ENSG00000052795	ENSG00000052795			29280	protein-coding gene	gene with protein product	"O6-methylguanine-induced apoptosis 1"	612768				18403135	Standard	NM_020840		Approved	KIAA1450, FNIPL, MAPO1	uc003iqe.4	Q9P278	OTTHUMG00000161983	ENST00000264433.6:c.3345A>G	4.37:g.159825696A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q05DC3|Q96I31|Q9H994	Silent	SNP	ENST00000264433.6	37	CCDS47155.1																																																																																				0.388	FNIP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366602.1	NM_020840		G	159825696	A	G	159825696	2	3	589	1	0	0	0	0	0	0	0	1	5983	79	3	3		3	FNIP2	4	159825696	Silent	SNP	A	TCGA-G7-6792-01A-21D-1961-08	158844725	159825696	31328580	16	35081										
SH3RF1	57630	hgsc.bcm.edu	37	chr4	170043337	170043337	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	cccattccagcagcagcagcAgcggcggtggcgcctggtgg	16	14	0	0			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr4:170043337A>G	ENST00000284637.9	-	7	1601	c.1260T>C	c.(1258-1260)gcT>gcC	p.A420A	SH3RF1_ENST00000508685.1_5'UTR	NM_020870.3	NP_065921.2	Q7Z6J0	SH3R1_HUMAN	SH3 domain containing ring finger 1	420	Poly-Ala.				negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|protein ubiquitination (GO:0016567)|regulation of JNK cascade (GO:0046328)	cell projection (GO:0042995)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)	ligase activity (GO:0016874)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|endometrium(2)|kidney(2)|large_intestine(4)|lung(10)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(4)	31		Prostate(90;0.00267)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)		CAGCAGCAGCAGCGGCGGTGG	0.582																																																0													47	43	44					4																	170043337		2203	4300	6503	SO:0001819	synonymous_variant	57630			BC033203	CCDS34099.1	4q32.3	2013-01-09	2006-02-13	2006-02-13	ENSG00000154447	ENSG00000154447		"RING-type (C3HC4) zinc fingers"	17650	protein-coding gene	gene with protein product	"plenty of SH3 domains"		"SH3 multiple domains 2"	SH3MD2		9482736	Standard	NM_020870		Approved	POSH, RNF142, KIAA1494	uc003isa.1	Q7Z6J0	OTTHUMG00000161010	ENST00000284637.9:c.1260T>C	4.37:g.170043337A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q05BT2|Q8IW46|Q9HAM2|Q9P234	Silent	SNP	ENST00000284637.9	37	CCDS34099.1																																																																																				0.582	SH3RF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363382.3	NM_020870		G	170043337	A	G	170043337	2	3	589	1	0	0	0	0	0	0	0	1	14271	175	7	3		3	SH3RF1	4	170043337	Silent	SNP	A	TCGA-G7-6792-01A-21D-1961-08	10217641	170043337	21110939	17	35082										
ZCCHC10	54819	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	132334373	132334373	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	ggaatctgagtctgaatcagAggaggaggaagaggttgtgg	18	3	3	4			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr5:132334373A>G	ENST00000509437.1	-	5	488	c.481T>C	c.(481-483)Tct>Cct	p.S161P	ZCCHC10_ENST00000508080.1_5'UTR|ZCCHC10_ENST00000355372.2_Missense_Mutation_p.S155P|ZCCHC10_ENST00000513848.1_Missense_Mutation_p.S125P|ZCCHC10_ENST00000324170.3_Missense_Mutation_p.S139P|ZCCHC10_ENST00000509008.1_3'UTR|ZCCHC10_ENST00000513541.1_3'UTR			Q8TBK6	ZCH10_HUMAN	zinc finger, CCHC domain containing 10	161	Ser-rich.						nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCTGAATCAgaggaggaggaa	0.478																																																0													84	89	87					5																	132334373		2203	4300	6503	SO:0001583	missense	54819			BC005211	CCDS4165.1, CCDS75300.1, CCDS75301.1, CCDS75302.1	5q31.1	2008-05-02			ENSG00000155329	ENSG00000155329		"Zinc fingers, CCHC domain containing"	25954	protein-coding gene	gene with protein product						12477932	Standard	XM_005272024		Approved	FLJ20094	uc003kyg.3	Q8TBK6	OTTHUMG00000129013	ENST00000509437.1:c.481T>C	5.37:g.132334373A>G	ENSP00000423276:p.Ser161Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NXR4	Missense_Mutation	SNP	ENST00000509437.1	37		.	.	.	.	.	.	.	.	.	.	A	14.70	2.613809	0.46631	.	.	ENSG00000155329	ENST00000324170;ENST00000355372;ENST00000509437;ENST00000513848	.	.	.	4.82	4.82	0.62117	.	0.135986	0.50627	D	0.000119	T	0.75027	0.3794	.	.	.	0.80722	D	1	D;D;D	0.69078	0.978;0.995;0.997	P;P;P	0.59288	0.629;0.795;0.855	T	0.79420	-0.1811	8	0.87932	D	0	.	14.339	0.66611	1.0:0.0:0.0:0.0	.	125;161;139	G3XAM1;Q8TBK6;Q8TBK6-2	.;ZCH10_HUMAN;.	P	139;155;161;125	.	ENSP00000324274:S139P	S	-	1	0	ZCCHC10	132362272	1.000000	0.71417	0.987000	0.45799	0.813000	0.45954	4.104000	0.57790	1.939000	0.56221	0.460000	0.39030	TCT		0.478	ZCCHC10-004	NOVEL	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000370163.1	NM_017665		G	132334373	A	G	132334373	3	3	589	1	0	0	0	0	1	0	0	0	17591	304	11	3	101	3	ZCCHC10	5	132334373	Missense_Mutation	SNP	A	TCGA-G7-6792-01A-21D-1961-08		132334373	48580887	18	35083										
PCDHGB3	56102	hgsc.bcm.edu	37	chr5	140751166	140751166	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	tcaagataccaaaaacacatAcaggttggtgacagatggag	10	7	1	3			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr5:140751166A>G	ENST00000576222.1	+	1	1336	c.1205A>G	c.(1204-1206)tAc>tGc	p.Y402C	PCDHGA3_ENST00000253812.6_Intron|PCDHGA4_ENST00000571252.1_Intron|PCDHGB1_ENST00000523390.1_Intron|PCDHGA1_ENST00000517417.1_Intron|PCDHGA6_ENST00000517434.1_5'Flank|PCDHGA2_ENST00000394576.2_Intron|PCDHGA5_ENST00000518069.1_Intron|PCDHGB2_ENST00000522605.1_Intron	NM_018924.2|NM_032097.1	NP_061747.1|NP_115268.1	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3	402	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			endometrium(1)|kidney(1)|lung(3)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAAACACATACAGGTTGGTG	0.448																																																0													64	66	66					5																	140751166		2002	4173	6175	SO:0001583	missense	56102			AF152519	CCDS58980.1, CCDS75334.1	5q31	2010-01-26						"Cadherins / Protocadherins : Clustered"	8710	other	protocadherin		606301				10380929	Standard	NM_018924		Approved	PCDH-GAMMA-B3		Q9Y5G1		ENST00000576222.1:c.1205A>G	5.37:g.140751166A>G	ENSP00000461862:p.Tyr402Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A7E229|Q9Y5C7	Missense_Mutation	SNP	ENST00000576222.1	37	CCDS58980.1																																																																																				0.448	PCDHGB3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437094.1	NM_018924		G	140751166	A	G	140751166	3	3	589	1	0	0	0	0	1	0	0	0	11571	391	14	3	1207	3	PCDHGB3	5	140751166	Missense_Mutation	SNP	A	TCGA-G7-6792-01A-21D-1961-08	8416793	140751166	40164094	19	35084										
RBM27	54439	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	145610424	145610424	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	ttactataacaatcatagctCttccaattcttttggtcgaa	4	9	3	0			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr5:145610424C>A	ENST00000265271.5	+	6	960	c.794C>A	c.(793-795)tCt>tAt	p.S265Y	RBM27_ENST00000506502.1_Missense_Mutation_p.S265Y	NM_018989.1	NP_061862.1	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	265					mRNA processing (GO:0006397)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(3)|endometrium(4)|kidney(5)|large_intestine(7)|liver(2)|lung(10)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)	39			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AATCATAGCTCTTCCAATTCT	0.428																																																0													124	108	113					5																	145610424		1568	3582	5150	SO:0001583	missense	54439			AL833706	CCDS43378.1	5q32	2013-01-09				ENSG00000091009		"Zinc fingers, CCCH-type domain containing", "RNA binding motif (RRM) containing"	29243	protein-coding gene	gene with protein product	"acidic rich RS domain containing 1"					10718198, 15741184	Standard	NM_018989		Approved	KIAA1311, ARRS1, Psc1, ZC3H18	uc003lnz.4	Q9P2N5		ENST00000265271.5:c.794C>A	5.37:g.145610424C>A	ENSP00000265271:p.Ser265Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYW9	Missense_Mutation	SNP	ENST00000265271.5	37	CCDS43378.1	.	.	.	.	.	.	.	.	.	.	C	14.96	2.690372	0.48097	.	.	ENSG00000091009	ENST00000265271	T	0.48201	0.82	5.56	5.56	0.83823	.	0.344763	0.28332	N	0.015722	T	0.36496	0.0969	N	0.22421	0.69	0.35199	D	0.774129	P;P	0.51653	0.454;0.947	B;B	0.41374	0.064;0.355	T	0.53514	-0.8428	10	0.59425	D	0.04	-7.8615	15.2609	0.73621	0.1489:0.8511:0.0:0.0	.	265;265	Q9P2N5;B3KY61	RBM27_HUMAN;.	Y	265	ENSP00000265271:S265Y	ENSP00000265271:S265Y	S	+	2	0	RBM27	145590617	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.339000	0.43965	2.614000	0.88457	0.563000	0.77884	TCT		0.428	RBM27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373420.1	XM_291128		A	145610424	C	A	145610424	3	1	589	1	0	0	0	0	1	0	0	0	13140	913	32	4	816	4	RBM27	5	145610424	Missense_Mutation	SNP	C	TCGA-G7-6792-01A-21D-1961-08	4859258	145610424	35304836	20	35085										
ARSI	340075	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	149677576	149677576	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	gcggccagttgctgccccccGagaaagtctggccaccattg	12	15	1	1			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr5:149677576G>A	ENST00000328668.7	-	2	1490	c.911C>T	c.(910-912)tCg>tTg	p.S304L		NM_001012301.2	NP_001012301.1	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I	304					cellular protein metabolic process (GO:0044267)|glycosphingolipid metabolic process (GO:0006687)|post-translational protein modification (GO:0043687)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	arylsulfatase activity (GO:0004065)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(11)|ovary(1)|pancreas(1)|skin(1)|urinary_tract(1)	23			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCTGCCCCCCGAGAAAGTCTG	0.587																																																0													36	32	34					5																	149677576		2199	4292	6491	SO:0001583	missense	340075			AY875937	CCDS34275.1	5q32	2014-03-03	2006-03-07			ENSG00000183876		"Arylsulfatase family"	32521	protein-coding gene	gene with protein product		610009	"arylsulfatase I"			16174644, 24482476	Standard	NM_001012301		Approved	FLJ16069, SPG66	uc003lrv.2	Q5FYB1		ENST00000328668.7:c.911C>T	5.37:g.149677576G>A	ENSP00000333395:p.Ser304Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A1L3B0|B3KV22|B7XD03	Missense_Mutation	SNP	ENST00000328668.7	37	CCDS34275.1	.	.	.	.	.	.	.	.	.	.	G	17.33	3.361900	0.61403	.	.	ENSG00000183876	ENST00000328668;ENST00000515301	D;D	0.96745	-4.11;-4.11	4.46	4.46	0.54185	Alkaline phosphatase-like, alpha/beta/alpha (1);Sulfatase (1);Alkaline-phosphatase-like, core domain (1);	0.059421	0.64402	D	0.000001	D	0.92473	0.7610	N	0.25426	0.745	0.54753	D	0.999982	B	0.18166	0.026	B	0.18263	0.021	D	0.89036	0.3445	10	0.22109	T	0.4	.	17.6599	0.88189	0.0:0.0:1.0:0.0	.	304	Q5FYB1	ARSI_HUMAN	L	304;161	ENSP00000333395:S304L;ENSP00000426879:S161L	ENSP00000333395:S304L	S	-	2	0	ARSI	149657769	1.000000	0.71417	0.961000	0.40146	0.945000	0.59286	7.738000	0.84966	2.460000	0.83146	0.561000	0.74099	TCG		0.587	ARSI-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373681.1	NM_001012301		A	149677576	G	A	149677576	3	1	589	1	0	0	0	0	1	0	0	0	994	1059	37	1	802	1	ARSI	5	149677576	Missense_Mutation	SNP	G	TCGA-G7-6792-01A-21D-1961-08	4067152	149677576	31237684	21	35086										
F12	2161	broad.mit.edu;bcgsc.ca	37	chr5	176830985	176830985	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	ccgcgtagcgccaccagcccGccaacgacgcgggtcatcga	12	18	1	0			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr5:176830985G>A	ENST00000253496.3	-	10	1173	c.1125C>T	c.(1123-1125)ggC>ggT	p.G375G	F12_ENST00000514943.1_5'Flank	NM_000505.3	NP_000496.2	P00748	FA12_HUMAN	coagulation factor XII (Hageman factor)	375	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|Factor XII activation (GO:0002542)|fibrinolysis (GO:0042730)|innate immune response (GO:0045087)|plasma kallikrein-kinin cascade (GO:0002353)|positive regulation of blood coagulation (GO:0030194)|positive regulation of fibrinolysis (GO:0051919)|positive regulation of plasminogen activation (GO:0010756)|protein autoprocessing (GO:0016540)|protein processing (GO:0016485)|response to misfolded protein (GO:0051788)|zymogen activation (GO:0031638)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	misfolded protein binding (GO:0051787)|serine-type aminopeptidase activity (GO:0070009)|serine-type endopeptidase activity (GO:0004252)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(5)|skin(1)|urinary_tract(1)	12	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)		Ethanolamine Oleate(DB06689)	CCACCAGCCCGCCAACGACGC	0.706									Hereditary Angioedema		OREG0017088	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0																																										SO:0001819	synonymous_variant	2161	Familial Cancer Database	HAE, type I-III, Hereditary Angioneurotic Edema, HANE,	M31315	CCDS34302.1	5q35.3	2014-09-17			ENSG00000131187	ENSG00000131187	3.4.21.38		3530	protein-coding gene	gene with protein product		610619					Standard	NM_000505		Approved		uc003mgo.4	P00748	OTTHUMG00000163403	ENST00000253496.3:c.1125C>T	5.37:g.176830985G>A		Somatic	1934	WXS	Illumina HiSeq	Phase_I	P78339	Silent	SNP	ENST00000253496.3	37	CCDS34302.1																																																																																				0.706	F12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373217.1			A	176830985	G	A	176830985	2	1	589	1	0	0	0	0	0	0	0	1	5341	1074	38	1		1	F12	5	176830985	Silent	SNP	G	TCGA-G7-6792-01A-21D-1961-08	27153409	176830985	4084275	22	35087										
NDUFAF4	29078	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	97344647	97344647	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	gaagacacaggatctttggaAtcaacatacacatcttttag	7	8	3	1			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr6:97344647A>G	ENST00000316149.7	-	2	292	c.213T>C	c.(211-213)gaT>gaC	p.D71D	NDUFAF4_ENST00000489477.1_5'UTR	NM_014165.3	NP_054884.1	Q9P032	NDUF4_HUMAN	NADH dehydrogenase (ubiquinone) complex I, assembly factor 4	71					mitochondrial respiratory chain complex I assembly (GO:0032981)	mitochondrial membrane (GO:0031966)|mitochondrion (GO:0005739)				large_intestine(5)|lung(3)|ovary(1)|skin(1)	10						GATCTTTGGAATCAACATACA	0.358																																																0													148	149	149					6																	97344647		2203	4300	6503	SO:0001819	synonymous_variant	29078			AF161474	CCDS5037.1	6q16.3	2012-10-12	2012-05-08	2009-03-18	ENSG00000123545	ENSG00000123545		"Mitochondrial respiratory chain complex assembly factors"	21034	protein-coding gene	gene with protein product		611776	"chromosome 6 open reading frame 66", "NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 4"	C6orf66		11042152, 18179882	Standard	NM_014165		Approved	HSPC125, bA22L21.1, My013, HRPAP20	uc003pow.3	Q9P032	OTTHUMG00000015246	ENST00000316149.7:c.213T>C	6.37:g.97344647A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R4J5	Silent	SNP	ENST00000316149.7	37	CCDS5037.1																																																																																				0.358	NDUFAF4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041567.1	NM_014165		G	97344647	A	G	97344647	2	3	589	1	0	0	0	0	0	0	0	1	10284	98	4	3		3	NDUFAF4	6	97344647	Silent	SNP	A	TCGA-G7-6792-01A-21D-1961-08		97344647	73770420	23	35088										
CALU	813	broad.mit.edu	37	chr7	128407599	128407599	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	ttgagtttcgggataagaacCgtgatgggaagatggacaag	15	4	0	4			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr7:128407599C>A	ENST00000249364.4	+	6	835	c.733C>A	c.(733-735)Cgt>Agt	p.R245S	CALU_ENST00000535623.1_3'UTR|CALU_ENST00000479257.1_Missense_Mutation_p.R253S|CALU_ENST00000538546.1_Missense_Mutation_p.R94S|CALU_ENST00000535011.2_Intron|CALU_ENST00000542996.2_Missense_Mutation_p.R253S|CALU_ENST00000449187.2_Missense_Mutation_p.R245S	NM_001219.4	NP_001210.1	O43852	CALU_HUMAN	calumenin	245	EF-hand 5. {ECO:0000255|PROSITE- ProRule:PRU00448}.				blood coagulation (GO:0007596)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)	endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|sarcoplasmic reticulum (GO:0016529)	calcium ion binding (GO:0005509)			kidney(2)|large_intestine(3)|lung(5)	10						GGATAAGAACCGTGATGGGAA	0.488																																																0													192	179	183					7																	128407599		2203	4300	6503	SO:0001583	missense	813			AF013759	CCDS5805.1, CCDS47703.1, CCDS56506.1, CCDS56507.1, CCDS56508.1	7q32	2013-01-10			ENSG00000128595	ENSG00000128595		"EF-hand domain containing"	1458	protein-coding gene	gene with protein product		603420				9598325	Standard	NM_001219		Approved		uc003vnq.3	O43852	OTTHUMG00000158274	ENST00000249364.4:c.733C>A	7.37:g.128407599C>A	ENSP00000249364:p.Arg245Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPG9|D6QS48|D6QS49|D6QS50|D6QS51|D6QS52|D6QS53|D6QS54|D6QS55|D6QS56|D6QS57|D6QS58|D6QS59|F5H1Q9|F5H879|O60456|Q6FHB9|Q96RL3|Q9NR43	Missense_Mutation	SNP	ENST00000249364.4	37	CCDS5805.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	15.93|15.93	2.978015|2.978015	0.53720|0.53720	.|.	.|.	ENSG00000128595|ENSG00000128595	ENST00000493278|ENST00000542996;ENST00000538546;ENST00000249364;ENST00000449187;ENST00000479257	.|T;T;T;T;T	.|0.54866	.|0.55;0.55;0.55;0.55;0.55	5.44|5.44	4.56|4.56	0.56223|0.56223	.|EF-hand-like domain (1);	.|0.267158	.|0.39759	.|N	.|0.001271	T|T	0.34948|0.34948	0.0915|0.0915	N|N	0.17474|0.17474	0.49|0.49	0.38401|0.38401	D|D	0.945668|0.945668	.|B;B	.|0.25007	.|0.116;0.001	.|B;B	.|0.20184	.|0.028;0.003	T|T	0.18304|0.18304	-1.0341|-1.0341	5|10	.|0.20046	.|T	.|0.44	-2.8562|-2.8562	13.5218|13.5218	0.61572|0.61572	0.1568:0.8432:0.0:0.0|0.1568:0.8432:0.0:0.0	.|.	.|253;245	.|D6QS48;O43852	.|.;CALU_HUMAN	Q|S	76|253;94;245;245;253	.|ENSP00000438248:R253S;ENSP00000438994:R94S;ENSP00000249364:R245S;ENSP00000408838:R245S;ENSP00000420381:R253S	.|ENSP00000249364:R245S	P|R	+|+	2|1	0|0	CALU|CALU	128194835|128194835	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.991000|0.991000	0.79684|0.79684	2.613000|2.613000	0.46351|0.46351	1.287000|1.287000	0.44583|0.44583	0.563000|0.563000	0.77884|0.77884	CCG|CGT		0.488	CALU-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350533.1	NM_001219		A	128407599	C	A	128407599	3	1	589	1	0	0	0	0	1	0	0	0	2596	652	23	4	949	4	CALU	7	128407599	Missense_Mutation	SNP	C	TCGA-G7-6792-01A-21D-1961-08		128407599	30731064	24	35089										
CHCHD3	54927	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	132709362	132709362	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	aatgccagctcctcagctacTcttcttttcaattcttcatc	3	14	6	0			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr7:132709362T>A	ENST00000262570.5	-	3	339	c.195A>T	c.(193-195)agA>agT	p.R65S	CHCHD3_ENST00000476546.1_5'UTR|CHCHD3_ENST00000542753.1_Missense_Mutation_p.R65S|CHCHD3_ENST00000448878.1_Missense_Mutation_p.R65S	NM_017812.2	NP_060282.1	Q9NX63	MIC19_HUMAN	coiled-coil-helix-coiled-coil-helix domain containing 3	65					inner mitochondrial membrane organization (GO:0007007)|mitochondrial fusion (GO:0008053)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	phosphatase binding (GO:0019902)|protein complex scaffold (GO:0032947)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001227)			endometrium(1)|large_intestine(1)|lung(3)|ovary(1)|urinary_tract(1)	7						CCTCAGCTACTCTTCTTTTCA	0.383																																																0													126	127	127					7																	132709362		2203	4300	6503	SO:0001583	missense	54927			BC011596	CCDS5828.1	7q33	2012-10-02			ENSG00000106554	ENSG00000106554		"Coiled-coil-helix-coiled-coil-helix domain containing", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	21906	protein-coding gene	gene with protein product	"mitochondrial inner membrane organizing system 3", "protein phosphatase 1, regulatory subunit 22"	613748				22252321, 23019327, 21081504, 17624330	Standard	NM_017812		Approved	FLJ20420, MINOS3, PPP1R22	uc003vre.3	Q9NX63	OTTHUMG00000155231	ENST00000262570.5:c.195A>T	7.37:g.132709362T>A	ENSP00000262570:p.Arg65Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000262570.5	37	CCDS5828.1	.	.	.	.	.	.	.	.	.	.	T	24.7	4.556929	0.86231	.	.	ENSG00000106554	ENST00000262570;ENST00000448878;ENST00000542753	T;T;T	0.42513	0.97;0.97;0.97	5.81	3.44	0.39384	.	0.092160	0.85682	D	0.000000	T	0.54631	0.1870	M	0.76574	2.34	0.34318	D	0.686194	P;D;P	0.64830	0.9;0.994;0.772	P;D;B	0.64595	0.65;0.927;0.428	T	0.62144	-0.6916	10	0.09843	T	0.71	-13.2962	9.4483	0.38710	0.0:0.1445:0.0:0.8555	.	65;65;65	G3V1K1;C9JRZ6;Q9NX63	.;.;CHCH3_HUMAN	S	65	ENSP00000262570:R65S;ENSP00000389297:R65S;ENSP00000440267:R65S	ENSP00000262570:R65S	R	-	3	2	CHCHD3	132359902	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	2.356000	0.44116	0.553000	0.29044	0.496000	0.49642	AGA		0.383	CHCHD3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000338899.1	NM_017812		A	132709362	T	A	132709362	3	1	589	1	0	0	0	0	1	0	0	0	3319	1548	54	5	512	5	CHCHD3	7	132709362	Missense_Mutation	SNP	T	TCGA-G7-6792-01A-21D-1961-08	4301763	132709362	26429301	25	35090										
KRBA1	84626	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	149416749	149416749	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	gatgcgggagaactacgagaCgctggtctctgtgggtaagg	17	7	1	2			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr7:149416749C>T	ENST00000485033.2	+	1	20	c.20C>T	c.(19-21)aCg>aTg	p.T7M	KRBA1_ENST00000479560.1_3'UTR|KRBA1_ENST00000319551.8_Missense_Mutation_p.T7M|KRBA1_ENST00000255992.10_Missense_Mutation_p.T7M			A5PL33	KRBA1_HUMAN	KRAB-A domain containing 1	7										breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(17)|ovary(1)|prostate(1)	27	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			AACTACGAGACGCTGGTCTCT	0.657																																																0													46	59	55					7																	149416749		2129	4258	6387	SO:0001583	missense	84626			AB058765	CCDS75674.1	7q36	2014-02-12	2006-08-15		ENSG00000133619	ENSG00000133619		"-"	22228	protein-coding gene	gene with protein product			"KRAB A domain containing 1"				Standard	NM_001290187		Approved	KIAA1862	uc003wfz.3	A5PL33	OTTHUMG00000157886	ENST00000485033.2:c.20C>T	7.37:g.149416749C>T	ENSP00000420112:p.Thr7Met	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2F5|E7ENE9|Q8N4X0|Q96JG5	Missense_Mutation	SNP	ENST00000485033.2	37		.	.	.	.	.	.	.	.	.	.	C	10.86	1.468525	0.26335	.	.	ENSG00000133619	ENST00000486744;ENST00000255992;ENST00000319551;ENST00000497895;ENST00000485033	T;T;T	0.34072	1.39;1.38;1.38	4.86	3.03	0.35002	.	0.734681	0.12271	N	0.483815	T	0.15522	0.0374	N	0.14661	0.345	0.19775	N	0.99995	P	0.46220	0.874	B	0.31101	0.124	T	0.11397	-1.0589	10	0.87932	D	0	-3.3573	4.6081	0.12387	0.1745:0.6412:0.0:0.1843	.	7	A5PL33	KRBA1_HUMAN	M	7	ENSP00000255992:T7M;ENSP00000317165:T7M;ENSP00000420112:T7M	ENSP00000255992:T7M	T	+	2	0	KRBA1	149047682	0.005000	0.15991	0.217000	0.23759	0.579000	0.36224	0.249000	0.18216	1.285000	0.44548	0.561000	0.74099	ACG		0.657	KRBA1-004	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000349841.3	NM_032534		T	149416749	C	T	149416749	3	4	589	1	0	0	0	0	1	0	0	0	8446	536	19	1	22	1	KRBA1	7	149416749	Missense_Mutation	SNP	C	TCGA-G7-6792-01A-21D-1961-08	16707387	149416749	9721914	26	35091										
PABPC1	26986	hgsc.bcm.edu	37	chr8	101719226	101719226	+	Splice_Site	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	accgggcatattttggaatgCtgcattttaaagatgtgaat	10	5	0	2	rs112580522		TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr8:101719226C>G	ENST00000318607.5	-	10	2465		c.e10-1		PABPC1_ENST00000519596.1_Intron|PABPC1_ENST00000519004.1_Splice_Site|PABPC1_ENST00000522387.1_Splice_Site|AP001205.1_ENST00000579868.1_RNA	NM_002568.3	NP_002559.2	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1						cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|mRNA polyadenylation (GO:0006378)|mRNA splicing, via spliceosome (GO:0000398)|mRNA stabilization (GO:0048255)|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:2000623)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|positive regulation of translation (GO:0045727)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)|poly(U) RNA binding (GO:0008266)|protein C-terminus binding (GO:0008022)|translation activator activity (GO:0008494)	p.?(1)		breast(2)|endometrium(4)|kidney(15)|large_intestine(4)|lung(13)|prostate(1)|skin(1)	40	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			TTTTGGAATGCTGCATTTTAA	0.413																																																1	Unknown(1)	lung(1)											39	41	40					8																	101719226		2203	4300	6503	SO:0001630	splice_region_variant	26986			Y00345	CCDS6289.1	8q22.2-q23	2013-02-12	2004-04-20		ENSG00000070756	ENSG00000070756		"RNA binding motif (RRM) containing"	8554	protein-coding gene	gene with protein product		604679	"poly(A)-binding protein, cytoplasmic 2"	PAB1, PABPC2		2885805	Standard	XM_005250861		Approved	PABP1, PABPL1	uc003yjs.1	P11940	OTTHUMG00000164779	ENST00000318607.5:c.1337-1G>C	8.37:g.101719226C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q15097|Q93004	Splice_Site	SNP	ENST00000318607.5	37	CCDS6289.1	.	.	.	.	.	.	.	.	.	.	C	21.1	4.096182	0.76870	.	.	ENSG00000070756	ENST00000318607;ENST00000519004;ENST00000522387;ENST00000517403	.	.	.	6.04	6.04	0.98038	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	20.5891	0.99427	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	PABPC1	101788402	1.000000	0.71417	0.998000	0.56505	0.957000	0.61999	5.388000	0.66249	2.876000	0.98609	0.650000	0.86243	.		0.413	PABPC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380217.1	NM_002568	Intron	G	101719226	C	G	101719226	5	3	589	1	0	0	0	0	0	0	1	0	11370	811	28	4	594	4	PABPC1	8	101719226	Splice_Site	SNP	C	TCGA-G7-6792-01A-21D-1961-08		101719226	44644796	27	35092										
TG	7038	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	133931710	133931710	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	aacaggcagggagcttggccTgtgtcccatgtcctgtgggc	15	11	0	0			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr8:133931710T>G	ENST00000220616.4	+	21	4508	c.4468T>G	c.(4468-4470)Tgt>Ggt	p.C1490G	TG_ENST00000377869.1_Missense_Mutation_p.C1490G|TG_ENST00000542445.1_5'UTR	NM_003235.4	NP_003226.4	P01266	THYG_HUMAN	thyroglobulin	1490					hormone biosynthetic process (GO:0042446)|iodide transport (GO:0015705)|regulation of myelination (GO:0031641)|signal transduction (GO:0007165)|thyroid gland development (GO:0030878)|thyroid hormone generation (GO:0006590)	extracellular region (GO:0005576)|extracellular space (GO:0005615)				NS(1)|breast(11)|central_nervous_system(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(34)|liver(2)|lung(59)|ovary(9)|pancreas(2)|prostate(6)|skin(7)|stomach(4)|upper_aerodigestive_tract(4)|urinary_tract(8)	168	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GAGCTTGGCCTGTGTCCCATG	0.478																																																0													141	112	122					8																	133931710		2203	4300	6503	SO:0001583	missense	7038			AU141420	CCDS34944.1	8q24	2012-10-02			ENSG00000042832	ENSG00000042832			11764	protein-coding gene	gene with protein product		188450					Standard	NM_003235		Approved	TGN, AITD3	uc003ytw.3	P01266	OTTHUMG00000164649	ENST00000220616.4:c.4468T>G	8.37:g.133931710T>G	ENSP00000220616:p.Cys1490Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O15274|O43899|Q15593|Q15948|Q9NYR1|Q9NYR2|Q9UMZ0|Q9UNY3	Missense_Mutation	SNP	ENST00000220616.4	37	CCDS34944.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	16.60|16.60	3.168293|3.168293	0.57584|0.57584	.|.	.|.	ENSG00000042832|ENSG00000042832	ENST00000377869;ENST00000543313;ENST00000220616|ENST00000519178	D;D|.	0.86865|.	-2.18;-2.18|.	5.52|5.52	5.52|5.52	0.82312|0.82312	Tyrosine-protein kinase ephrin type A/B receptor-like (1);|.	0.194939|.	0.36703|.	N|.	0.002444|.	T|T	0.80374|0.80374	0.4611|0.4611	H|H	0.97516|0.97516	4.02|4.02	0.28752|0.28752	N|N	0.90136|0.90136	D|.	0.89917|.	1.0|.	D|.	0.91635|.	0.999|.	T|T	0.80527|0.80527	-0.1343|-0.1343	10|5	0.87932|.	D|.	0|.	.|.	12.3216|12.3216	0.54987|0.54987	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	1490|.	P01266|.	THYG_HUMAN|.	G|R	1490;296;1490|9	ENSP00000367100:C1490G;ENSP00000220616:C1490G|.	ENSP00000220616:C1490G|.	C|L	+|+	1|2	0|0	TG|TG	134000892|134000892	1.000000|1.000000	0.71417|0.71417	0.890000|0.890000	0.34922|0.34922	0.588000|0.588000	0.36517|0.36517	5.096000|5.096000	0.64535|0.64535	2.225000|2.225000	0.72522|0.72522	0.533000|0.533000	0.62120|0.62120	TGT|CTG		0.478	TG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379606.1	NM_003235		G	133931710	T	G	133931710	3	3	589	1	0	0	0	0	1	0	0	0	15825	1580	55	5	4550	5	TG	8	133931710	Missense_Mutation	SNP	T	TCGA-G7-6792-01A-21D-1961-08	32212484	133931710	12432312	28	35093										
SMARCA2	6595	hgsc.bcm.edu	37	chr9	2039761	2039761	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	acgttgcctggcttgcagcaAcaacagcagcagcaacagca	10	13	0	0	rs13296982		TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr9:2039761A>G	ENST00000382203.1	+	4	860	c.651A>G	c.(649-651)caA>caG	p.Q217Q	SMARCA2_ENST00000382194.1_Silent_p.Q217Q|SMARCA2_ENST00000491574.1_3'UTR|SMARCA2_ENST00000349721.2_Silent_p.Q217Q|SMARCA2_ENST00000357248.2_Silent_p.Q217Q|RP11-264I13.2_ENST00000426860.1_RNA			P51531	SMCA2_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	217	Poly-Gln.				aortic smooth muscle cell differentiation (GO:0035887)|ATP catabolic process (GO:0006200)|chromatin remodeling (GO:0006338)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|nervous system development (GO:0007399)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)	intermediate filament cytoskeleton (GO:0045111)|intracellular membrane-bounded organelle (GO:0043231)|nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SWI/SNF complex (GO:0016514)	ATP binding (GO:0005524)|DNA-dependent ATPase activity (GO:0008094)|helicase activity (GO:0004386)|RNA polymerase II transcription coactivator activity (GO:0001105)|transcription coactivator activity (GO:0003713)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(3)|large_intestine(11)|liver(2)|lung(19)|ovary(3)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	56		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		GCTTgcagcaacaacagcagc	0.607																																																0								A	,	1,4405		0,1,2202	16	18	17		651,651	1.4	1	9	dbSNP_121	17	0,8594		0,0,4297	no	coding-synonymous,coding-synonymous	SMARCA2	NM_003070.3,NM_139045.2	,	0,1,6499	GG,GA,AA		0.0,0.0227,0.0077	,	217/1591,217/1573	2039761	1,12999	2203	4297	6500	SO:0001819	synonymous_variant	6595			D26155	CCDS34977.1, CCDS34978.1, CCDS75807.1, CCDS75808.1	9p24.3	2008-11-11	2006-11-09		ENSG00000080503	ENSG00000080503			11098	protein-coding gene	gene with protein product		600014		SNF2L2		8012116	Standard	NM_003070		Approved	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2	uc003zhc.3	P51531	OTTHUMG00000019445	ENST00000382203.1:c.651A>G	9.37:g.2039761A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B1ALG3|B1ALG4|D3DRH4|D3DRH5	Silent	SNP	ENST00000382203.1	37	CCDS34977.1																																																																																				0.607	SMARCA2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000051505.1	NM_003070		G	2039761	A	G	2039761	2	3	589	1	0	0	0	0	0	0	0	1	14782	40	2	3		3	SMARCA2	9	2039761	Silent	SNP	A	TCGA-G7-6792-01A-21D-1961-08		2039761	139173670	29	35094										
KIAA1279	26128	ucsc.edu	37	chr10	70775350	70775350	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	tctgaacttagagctttaagGaaaaaagaactagatgagga	10	4	1	5			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr10:70775350G>A	ENST00000361983.4	+	7	1146	c.1044G>A	c.(1042-1044)agG>agA	p.R348R		NM_015634.3	NP_056449.1	Q96EK5	KBP_HUMAN	KIAA1279	348					cell differentiation (GO:0030154)|mitochondrial transport (GO:0006839)|nervous system development (GO:0007399)	cytoskeleton (GO:0005856)|mitochondrion (GO:0005739)	kinesin binding (GO:0019894)			breast(2)|endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|ovary(1)|skin(1)	14						GAGCTTTAAGGAAAAAAGAAC	0.398																																																0													81	84	83					10																	70775350		2203	4300	6503	SO:0001819	synonymous_variant	26128			BC012180	CCDS7284.1	10q22.1	2008-02-05			ENSG00000198954	ENSG00000198954			23419	protein-coding gene	gene with protein product		609367					Standard	NM_015634		Approved	DKFZP586B0923, TTC20	uc001joy.3	Q96EK5	OTTHUMG00000018363	ENST00000361983.4:c.1044G>A	10.37:g.70775350G>A		Somatic		WXS	Illumina HiSeq		A8K5M8|Q9BR89|Q9ULE1|Q9Y428	Silent	SNP	ENST00000361983.4	37	CCDS7284.1																																																																																				0.398	KIAA1279-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048370.1	NM_015634		A	70775350	G	A	70775350	2	1	589	1	0	0	0	0	0	0	0	1	8228	1165	41	2		2	KIAA1279	10	70775350	Silent	SNP	G	TCGA-G7-6792-01A-21D-1961-08		70775350	64759397	30	35095										
ERLIN1	10613	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	101911987	101911987	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	cttccagtcctaatatctgaAtatttcaaagcacatgagga	6	9	2	2			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr10:101911987A>G	ENST00000421367.2	-	11	3655	c.948T>C	c.(946-948)taT>taC	p.Y316Y	ERLIN1_ENST00000407654.3_Silent_p.Y316Y	NM_001100626.1|NM_006459.3	NP_001094096.1|NP_006450.2	O75477	ERLN1_HUMAN	ER lipid raft associated 1	314					ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|protein complex (GO:0043234)							Colorectal(252;0.234)		Epithelial(162;3.85e-10)|all cancers(201;3.25e-08)		TAATATCTGAATATTTCAAAG	0.443																																																0													119	115	116					10																	101911987		2203	4300	6503	SO:0001819	synonymous_variant	10613			AF064093	CCDS7487.2	10q24.31	2014-03-03	2007-01-26	2007-01-26	ENSG00000107566	ENSG00000107566			16947	protein-coding gene	gene with protein product	"Band_7 23-211 Keo4 (Interim) similar to C.elegans protein C42C1.9"	611604	"chromosome 10 open reading frame 69", "SPFH domain family, member 1"	C10orf69, SPFH1		11118313, 16835267, 24482476	Standard	NM_006459		Approved	KE04, Erlin-1, SPG62	uc001kqo.4	O75477	OTTHUMG00000018900	ENST00000421367.2:c.948T>C	10.37:g.101911987A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0QZ42|Q53HV0	Silent	SNP	ENST00000421367.2	37	CCDS7487.2																																																																																				0.443	ERLIN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049840.2	NM_006459		G	101911987	A	G	101911987	2	3	589	1	0	0	0	0	0	0	0	1	5234	108	4	3		3	ERLIN1	10	101911987	Silent	SNP	A	TCGA-G7-6792-01A-21D-1961-08	31136637	101911987	33622760	31	35096										
PPFIBP2	8495	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	7669667	7669667	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	gcacagagcgtgtgtgtgcaTggctggaggactttggcctg	17	8	0	1			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr11:7669667T>C	ENST00000299492.4	+	18	2084	c.1696T>C	c.(1696-1698)Tgg>Cgg	p.W566R	PPFIBP2_ENST00000533792.1_Missense_Mutation_p.W408R|PPFIBP2_ENST00000530582.1_3'UTR|PPFIBP2_ENST00000530181.1_Missense_Mutation_p.W423R|PPFIBP2_ENST00000528883.1_Missense_Mutation_p.W454R	NM_003621.3	NP_003612	Q8ND30	LIPB2_HUMAN	PTPRF interacting protein, binding protein 2 (liprin beta 2)	566	SAM 1. {ECO:0000255|PROSITE- ProRule:PRU00184}.				cell-matrix adhesion (GO:0007160)|signal transduction (GO:0007165)	extracellular space (GO:0005615)|intracellular (GO:0005622)|presynaptic active zone (GO:0048786)	DNA binding (GO:0003677)|integrase activity (GO:0008907)			breast(8)|cervix(1)|kidney(1)|large_intestine(8)|lung(8)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	32				Epithelial(150;2.01e-07)|BRCA - Breast invasive adenocarcinoma(625;0.236)		TGTGTGTGCATGGCTGGAGGA	0.547																																																0													165	124	138					11																	7669667		2201	4296	6497	SO:0001583	missense	8495			AF034803	CCDS31419.1, CCDS58116.1, CCDS58117.1	11p15.4	2013-01-10			ENSG00000166387	ENSG00000166387		"Sterile alpha motif (SAM) domain containing"	9250	protein-coding gene	gene with protein product		603142				9624153	Standard	NM_003621		Approved	Cclp1	uc001mfj.5	Q8ND30	OTTHUMG00000165617	ENST00000299492.4:c.1696T>C	11.37:g.7669667T>C	ENSP00000299492:p.Trp566Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z433|E9PK77|O75337|Q8WW26	Missense_Mutation	SNP	ENST00000299492.4	37	CCDS31419.1	.	.	.	.	.	.	.	.	.	.	T	23.7	4.451254	0.84209	.	.	ENSG00000166387	ENST00000299492;ENST00000533792;ENST00000541115;ENST00000528883;ENST00000530181	T;T;T;T	0.61510	0.1;0.1;0.1;0.1	5.74	5.74	0.90152	Sterile alpha motif domain (2);Sterile alpha motif/pointed domain (2);Sterile alpha motif, type 1 (1);	0.000000	0.64402	D	0.000001	D	0.82660	0.5085	H	0.95114	3.625	0.80722	D	1	D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D	0.97110	1.0;1.0;1.0;1.0;1.0;1.0	D	0.87696	0.2557	10	0.87932	D	0	-9.1173	13.9867	0.64339	0.0:0.0:0.0:1.0	.	454;454;489;408;423;566	E9PK77;B7Z433;F5GWB0;E9PP16;E9PMU1;Q8ND30	.;.;.;.;.;LIPB2_HUMAN	R	566;408;489;454;423	ENSP00000299492:W566R;ENSP00000436498:W408R;ENSP00000435469:W454R;ENSP00000437321:W423R	ENSP00000299492:W566R	W	+	1	0	PPFIBP2	7626243	1.000000	0.71417	0.926000	0.36857	0.995000	0.86356	8.040000	0.89188	2.194000	0.70268	0.459000	0.35465	TGG		0.547	PPFIBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385345.2	NM_003621		C	7669667	T	C	7669667	3	2	589	1	0	0	0	0	1	0	0	0	12321	1464	51	3	1762	3	PPFIBP2	11	7669667	Missense_Mutation	SNP	T	TCGA-G7-6792-01A-21D-1961-08		7669667	127336849	32	35097										
SLC22A20	440044	bcgsc.ca	37	chr11	64985059	64985059	+	RNA	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	cctgcagctggcagcttcggGggccgccacagcgtatttca	13	14	1	0	rs113875023	byFrequency	TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr11:64985059G>T	ENST00000525437.1	+	0	572							A6NK97	S22AK_HUMAN	solute carrier family 22, member 20						ion transport (GO:0006811)	integral component of membrane (GO:0016021)	transmembrane transporter activity (GO:0022857)			central_nervous_system(1)|endometrium(2)|large_intestine(1)|lung(2)|prostate(2)	8						GCAGCTTCGGGGGCCGCCACA	0.602																																																0													35	41	39					11																	64985059		1966	4142	6108			440044			DQ053017		11q13.1	2014-02-20			ENSG00000197847	ENSG00000197847		"Solute carriers"	29867	other	unknown		611696				15369770, 16478971	Standard	NM_001004326		Approved	Oat6, FLJ16331	uc021qlh.1	A6NK97	OTTHUMG00000165615		11.37:g.64985059G>T		Somatic		WXS	Illumina HiSeq	Phase_1	B9EJB2|Q6ZN88	Missense_Mutation	SNP	ENST00000525437.1	37																																																																																					0.602	SLC22A20-003	KNOWN	basic	processed_transcript	pseudogene	OTTHUMT00000385336.1	NM_001004326		T	64985059	G	T	64985059	1	4	589	0	1	0	0	0	0	0	0	0	14464	1232	43	4		4	SLC22A20	11	64985059	RNA	SNP	G	TCGA-G7-6792-01A-21D-1961-08	57315392	64985059	70021457	33	35098										
B3GNT6	192134	hgsc.bcm.edu	37	chr11	76751585	76751585	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	cagcggccacgagggcatccTggcccttcggcgtgcagctt	14	15	0	0	rs11292199		TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr11:76751585T>C	ENST00000354301.5	+	4	1076	c.988T>C	c.(988-990)Tgg>Cgg	p.W330R	B3GNT6_ENST00000421061.1_Splice_Site|B3GNT6_ENST00000533140.1_Silent_p.P330P	NM_138706.3	NP_619651.3	O43505	B3GN1_HUMAN	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 6 (core 3 synthase)	0					axon guidance (GO:0007411)|carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate metabolic process (GO:0042339)|poly-N-acetyllactosamine biosynthetic process (GO:0030311)|protein glycosylation (GO:0006486)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)	N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase activity (GO:0008532)			central_nervous_system(1)|kidney(2)|lung(4)|prostate(1)	8						GAGGGCATCCTGGCCCTTCGG	0.697																																																0													6	5	6					11																	76751585		1175	2610	3785	SO:0001630	splice_region_variant	192134			AB073740	CCDS53681.1	11q13.4	2013-02-19			ENSG00000198488	ENSG00000198488		"Beta 3-glycosyltransferases"	24141	protein-coding gene	gene with protein product		615315				11821425	Standard	NM_138706		Approved	B3Gn-T6	uc021qnp.1	Q6ZMB0		ENST00000354301.5:c.988-1T>C	11.37:g.76751585T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q4TTN0	Splice_Site	SNP	ENST00000354301.5	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	-|-	0.007|0.007	-1.936685|-1.936685	0.00484|0.00484	.|.	.|.	ENSG00000198488|ENSG00000198488	ENST00000354301;ENST00000421061|ENST00000354301	.|T	.|0.24538	.|1.85	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.11024	.|0.0269	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.26916	.|-1.0089	.|4	.|0.02654	.|T	.|1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|R	-1|330	.|ENSP00000346256:W330R	.|ENSP00000346256:W330R	.|W	+|+	.|1	.|0	B3GNT6|B3GNT6	76429233|76429233	0.988000|0.988000	0.35896|0.35896	1.000000|1.000000	0.80357|0.80357	0.975000|0.975000	0.68041|0.68041	0.000000|0.000000	0.12993|0.12993	0.000000|0.000000	0.14550|0.14550	0.000000|0.000000	0.15137|0.15137	.|TGG		0.697	B3GNT6-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_138706	Missense_Mutation	C	76751585	T	C	76751585	5	2	589	1	0	0	0	0	0	0	1	0	1261	1567	55	3	992	3	B3GNT6	11	76751585	Splice_Site	SNP	T	TCGA-G7-6792-01A-21D-1961-08	11766526	76751585	58254931	34	35099										
KLRK1	22914	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	10539567	10539567	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	gccatcgtgttgaaaaatcaCtcttcttcagatccaagtta	6	10	4	2			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr12:10539567C>T	ENST00000240618.6	-	3	223	c.83G>A	c.(82-84)aGt>aAt	p.S28N	KLRC4-KLRK1_ENST00000539300.1_3'UTR|KLRK1_ENST00000540818.1_Missense_Mutation_p.S28N|RP11-277P12.20_ENST00000500682.1_RNA	NM_001199805.1|NM_007360.3	NP_001186734.1|NP_031386.2	P26718	NKG2D_HUMAN	killer cell lectin-like receptor subfamily K, member 1	28					cell differentiation (GO:0030154)|innate immune response (GO:0045087)|natural killer cell activation (GO:0030101)|positive regulation of natural killer cell mediated cytotoxicity (GO:0045954)|regulation of immune response (GO:0050776)|signal transduction (GO:0007165)|T cell costimulation (GO:0031295)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)|receptor activity (GO:0004872)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(3)|skin(1)	9						TGAAAAATCACTCTTCTTCAG	0.363																																																0													171	159	163					12																	10539567		2203	4299	6502	SO:0001583	missense	0			AJ001687	CCDS8623.1	12p13.2-p12.3	2010-02-17	2003-02-19		ENSG00000213809	ENSG00000213809		"Killer cell lectin-like receptors", "CD molecules"	18788	protein-coding gene	gene with protein product		611817	"DNA segment on chromosome 12 (unique) 2489 expressed sequence"	D12S2489E		9683661, 2007850	Standard	NM_007360		Approved	NKG2D, KLR, NKG2-D, CD314	uc009zhj.3	P26718	OTTHUMG00000168574	ENST00000240618.6:c.83G>A	12.37:g.10539567C>T	ENSP00000240618:p.Ser28Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7K5|A8K7P4|Q9NR41	Missense_Mutation	SNP	ENST00000240618.6	37	CCDS8623.1	.	.	.	.	.	.	.	.	.	.	C	0.017	-1.506590	0.00992	.	.	ENSG00000213809	ENST00000240618;ENST00000540818	T;T	0.01430	4.9;4.9	4.09	-8.18	0.01053	.	2.508350	0.01286	N	0.009885	T	0.00998	0.0033	L	0.29908	0.895	0.09310	N	1	B;B;B	0.21520	0.0;0.0;0.057	B;B;B	0.15870	0.0;0.001;0.014	T	0.48958	-0.8988	10	0.11794	T	0.64	.	1.9441	0.03353	0.1238:0.2263:0.3731:0.2768	.	28;9;28	Q8WZ67;Q1HEA1;P26718	.;.;NKG2D_HUMAN	N	28	ENSP00000240618:S28N;ENSP00000446003:S28N	ENSP00000240618:S28N	S	-	2	0	KLRK1	10430834	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-3.256000	0.00538	-1.778000	0.01282	-1.161000	0.01788	AGT		0.363	KLRK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400269.1	NM_007360		T	10539567	C	T	10539567	3	4	589	1	0	0	0	0	1	0	0	0	8430	565	20	2	591	2	KLRK1	12	10539567	Missense_Mutation	SNP	C	TCGA-G7-6792-01A-21D-1961-08		10539567	123312328	35	35100										
STK38L	23012	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	27468238	27468238	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	ttagcatttcagaacatgaaCtcaaagaggaaagcagaaac	8	7	2	4			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr12:27468238C>A	ENST00000389032.3	+	9	961	c.792C>A	c.(790-792)aaC>aaA	p.N264K	STK38L_ENST00000539577.1_Missense_Mutation_p.N171K	NM_015000.3	NP_055815.1			serine/threonine kinase 38 like											breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(2)|ovary(2)|prostate(1)|skin(1)	12	Colorectal(261;0.0847)					AGAACATGAACTCAAAGAGGA	0.348																																																0													65	70	69					12																	27468238		2203	4300	6503	SO:0001583	missense	23012			AB023182	CCDS31761.1	12p11.23	2014-04-23			ENSG00000211455	ENSG00000211455			17848	protein-coding gene	gene with protein product	"nuclear Dbf2-related 2"	615836				16488889	Standard	NM_015000		Approved	KIAA0965, NDR2	uc001rhr.3	Q9Y2H1	OTTHUMG00000169284	ENST00000389032.3:c.792C>A	12.37:g.27468238C>A	ENSP00000373684:p.Asn264Lys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000389032.3	37	CCDS31761.1	.	.	.	.	.	.	.	.	.	.	C	15.85	2.955368	0.53293	.	.	ENSG00000211455	ENST00000389032;ENST00000539577	T;T	0.58358	0.34;0.41	4.5	-0.848	0.10727	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.46502	0.1396	L	0.37800	1.135	0.58432	D	0.999996	P;P	0.37276	0.589;0.589	P;B	0.46208	0.507;0.405	T	0.35226	-0.9797	10	0.48119	T	0.1	.	9.8271	0.40919	0.0:0.5362:0.0:0.4638	.	171;264	B4E3J8;Q9Y2H1	.;ST38L_HUMAN	K	264;171	ENSP00000373684:N264K;ENSP00000446386:N171K	ENSP00000373684:N264K	N	+	3	2	STK38L	27359505	1.000000	0.71417	0.991000	0.47740	0.990000	0.78478	1.582000	0.36568	-0.260000	0.09418	-0.229000	0.12294	AAC		0.348	STK38L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403297.1	NM_015000		A	27468238	C	A	27468238	3	1	589	1	0	0	0	0	1	0	0	0	15316	564	20	4	822	4	STK38L	12	27468238	Missense_Mutation	SNP	C	TCGA-G7-6792-01A-21D-1961-08	16928671	27468238	106383657	36	35101										
KRT18	3875	broad.mit.edu	37	chr12	53344644	53344644	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	gcagctggagacagagatcgAggctctcaaggaggagctgc	16	9	1	2			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr12:53344644A>G	ENST00000388835.3	+	3	821	c.611A>G	c.(610-612)gAg>gGg	p.E204G	AC107016.2_ENST00000581256.1_RNA|KRT18_ENST00000550600.1_Missense_Mutation_p.E204G|KRT18_ENST00000388837.2_Missense_Mutation_p.E204G|KRT8_ENST00000552551.1_5'Flank|KRT8_ENST00000546897.1_5'Flank|KRT8_ENST00000549198.1_5'Flank	NM_000224.2	NP_000215.1	P05783	K1C18_HUMAN	keratin 18	204	Coil 1B.|Necessary for interaction with PNN.|Rod.				anatomical structure morphogenesis (GO:0009653)|cell cycle (GO:0007049)|extrinsic apoptotic signaling pathway (GO:0097191)|Golgi to plasma membrane CFTR protein transport (GO:0043000)|hepatocyte apoptotic process (GO:0097284)|intermediate filament cytoskeleton organization (GO:0045104)|negative regulation of apoptotic process (GO:0043066)|tumor necrosis factor-mediated signaling pathway (GO:0033209)|viral process (GO:0016032)	cell periphery (GO:0071944)|centriolar satellite (GO:0034451)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)|keratin filament (GO:0045095)|microtubule organizing center (GO:0005815)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|scaffold protein binding (GO:0097110)|structural molecule activity (GO:0005198)			central_nervous_system(1)|large_intestine(2)|lung(4)|prostate(3)|skin(1)	11						ACAGAGATCGAGGCTCTCAAG	0.577																																																0													20	16	17					12																	53344644		2203	4300	6503	SO:0001583	missense	3875				CCDS31809.1	12q13	2013-01-16			ENSG00000111057	ENSG00000111057		"-", "Intermediate filaments type I, keratins (acidic)"	6430	protein-coding gene	gene with protein product		148070				1705144, 16831889	Standard	NM_000224		Approved		uc001sbg.3	P05783	OTTHUMG00000169882	ENST00000388835.3:c.611A>G	12.37:g.53344644A>G	ENSP00000373487:p.Glu204Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q53G38|Q5U0N8|Q9BW26	Missense_Mutation	SNP	ENST00000388835.3	37	CCDS31809.1	.	.	.	.	.	.	.	.	.	.	a	23.8	4.456730	0.84317	.	.	ENSG00000111057	ENST00000388837;ENST00000550600;ENST00000388835	D;D;D	0.91351	-2.83;-2.83;-2.83	3.85	3.85	0.44370	Filament (1);	0.000000	0.64402	D	0.000013	D	0.95642	0.8583	M	0.92555	3.32	0.58432	D	0.999999	D;D	0.61697	0.99;0.984	D;D	0.68192	0.927;0.956	D	0.96030	0.9016	10	0.87932	D	0	.	11.2377	0.48951	1.0:0.0:0.0:0.0	.	204;204	F8VZY9;P05783	.;K1C18_HUMAN	G	204	ENSP00000373489:E204G;ENSP00000447278:E204G;ENSP00000373487:E204G	ENSP00000373487:E204G	E	+	2	0	KRT18	51630911	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.068000	0.93961	1.964000	0.57103	0.459000	0.35465	GAG		0.577	KRT18-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406405.1	NM_199187		G	53344644	A	G	53344644	3	3	589	1	0	0	0	0	1	0	0	0	8462	304	11	3	621	3	KRT18	12	53344644	Missense_Mutation	SNP	A	TCGA-G7-6792-01A-21D-1961-08	25876406	53344644	80507251	37	35102										
KRR1	11103	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	75895546	75895546	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	ttttccttaggtggaataaaTgctttgtttctttcctcttg	7	7	2	0			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr12:75895546T>C	ENST00000229214.4	-	9	983	c.960A>G	c.(958-960)gcA>gcG	p.A320A	GLIPR1_ENST00000266659.3_3'UTR|KRR1_ENST00000438169.2_Silent_p.A263A	NM_007043.6	NP_008974.5	Q13601	KRR1_HUMAN	KRR1, small subunit (SSU) processome component, homolog (yeast)	320	Lys-rich.				rRNA processing (GO:0006364)	cytoplasm (GO:0005737)|intercellular bridge (GO:0045171)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(3)|liver(1)|lung(1)|ovary(1)|pancreas(1)|urinary_tract(1)	11						GTGGAATAAATGCTTTGTTTC	0.279																																																0													125	123	124					12																	75895546		2203	4299	6502	SO:0001819	synonymous_variant	11103			U55766	CCDS9012.1	12q	2011-03-15	2006-05-18	2006-05-18	ENSG00000111615	ENSG00000111615			5176	protein-coding gene	gene with protein product		612817	"HIV-1 rev binding protein 2", "HIV-1 Rev binding protein 2"	HRB2		7505766, 11027267, 11359931, 8675026	Standard	NM_007043		Approved	RIP-1	uc001sxt.3	Q13601	OTTHUMG00000169759	ENST00000229214.4:c.960A>G	12.37:g.75895546T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A0FIK6|A0JLP0|B2R989|E7EUQ0|Q8NEA8|Q8TC37|Q96AT5	Silent	SNP	ENST00000229214.4	37	CCDS9012.1																																																																																				0.279	KRR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405727.1	NM_007043		C	75895546	T	C	75895546	2	2	589	1	0	0	0	0	0	0	0	1	8453	1451	51	3		3	KRR1	12	75895546	Silent	SNP	T	TCGA-G7-6792-01A-21D-1961-08	22550902	75895546	57956349	38	35103										
GNPTAB	79158	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	102159058	102159058	+	Frame_Shift_Del	DEL	A	A	-													0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	tctggtttgggagaaggatcActttatacaattcatgaaaa							TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr12:102159058delA	ENST00000299314.7	-	13	1899	c.1637delT	c.(1636-1638)gtgfs	p.V546fs	RNU6-101P_ENST00000410323.1_RNA	NM_024312.4	NP_077288.2	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits	546					carbohydrate phosphorylation (GO:0046835)|cell differentiation (GO:0030154)|lysosome organization (GO:0007040)|protein secretion (GO:0009306)	Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity (GO:0003976)			NS(1)|breast(3)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(8)|lung(8)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	37						GAGAAGGATCACTTTATACAA	0.358																																																0													77	77	77					12																	102159058		2203	4300	6503	SO:0001589	frameshift_variant	79158			AY687932	CCDS9088.1	12q23.3	2013-01-10				ENSG00000111670		"EF-hand domain containing"	29670	protein-coding gene	gene with protein product		607840		GNPTA		10574462, 16116615	Standard	NM_024312		Approved	KIAA1208, MGC4170	uc001tit.3	Q3T906	OTTHUMG00000170444	ENST00000299314.7:c.1637delT	12.37:g.102159058delA	ENSP00000299314:p.Val546fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRQ9|Q3ZQK2|Q6IPW5|Q86TQ2|Q96N13|Q9ULL2	Frame_Shift_Del	DEL	ENST00000299314.7	37	CCDS9088.1																																																																																				0.358	GNPTAB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409182.1			-	102159058	A	-	102159058	7	5	589	1	0	1	0	1	0	0	0	0	6552	159	6	0	2169	0	GNPTAB	12	102159058	Frame_Shift_Del	DEL	A	TCGA-G7-6792-01A-21D-1961-08	26263512	102159058	31692837	39	35104										
ACACB	32	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	109692084	109692084	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	gacagagaaattgaattcctCccatccagagctccctacga	7	13	0	3			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr12:109692084C>T	ENST00000338432.7	+	44	6230	c.6111C>T	c.(6109-6111)ctC>ctT	p.L2037L	ACACB_ENST00000543201.1_Silent_p.L703L|ACACB_ENST00000377854.5_Silent_p.L1967L|ACACB_ENST00000377848.3_Silent_p.L2037L			O00763	ACACB_HUMAN	acetyl-CoA carboxylase beta	2037	Carboxyltransferase.				acetyl-CoA metabolic process (GO:0006084)|biotin metabolic process (GO:0006768)|carnitine shuttle (GO:0006853)|cellular lipid metabolic process (GO:0044255)|energy reserve metabolic process (GO:0006112)|fatty acid biosynthetic process (GO:0006633)|malonyl-CoA biosynthetic process (GO:2001295)|positive regulation of cellular metabolic process (GO:0031325)|protein homotetramerization (GO:0051289)|response to drug (GO:0042493)|response to organic cyclic compound (GO:0014070)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	acetyl-CoA carboxylase activity (GO:0003989)|ATP binding (GO:0005524)|biotin binding (GO:0009374)|biotin carboxylase activity (GO:0004075)|metal ion binding (GO:0046872)			NS(1)|breast(2)|endometrium(9)|kidney(5)|large_intestine(20)|lung(40)|ovary(6)|pancreas(1)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	95					Adenine(DB00173)|Biotin(DB00121)	TTGAATTCCTCCCATCCAGAG	0.488																																																0													206	202	203					12																	109692084		2203	4300	6503	SO:0001819	synonymous_variant	32			U89344	CCDS31898.1	12q24.1	2010-05-07	2010-04-30		ENSG00000076555	ENSG00000076555	6.4.1.2		85	protein-coding gene	gene with protein product	"acetyl-CoA carboxylase 2"	601557	"acetyl-Coenzyme A carboxylase beta"			8670171	Standard	NM_001093		Approved	HACC275, ACC2, ACCB	uc001toc.3	O00763	OTTHUMG00000169250	ENST00000338432.7:c.6111C>T	12.37:g.109692084C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NK36|Q16852|Q1HEC1|Q6KE87|Q6KE89|Q6TY48	Silent	SNP	ENST00000338432.7	37	CCDS31898.1																																																																																				0.488	ACACB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403077.1	NM_001093		T	109692084	C	T	109692084	2	4	589	1	0	0	0	0	0	0	0	1	107	842	30	2		2	ACACB	12	109692084	Silent	SNP	C	TCGA-G7-6792-01A-21D-1961-08	7533026	109692084	24159811	40	35105										
EXOC5	10640	ucsc.edu	37	chr14	57684753	57684753	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	tgttcaattatttcttttttCttctgaaggcattcagataa	5	6	5	2			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr14:57684753C>T	ENST00000413566.2	-	15	1919	c.1560G>A	c.(1558-1560)aaG>aaA	p.K520K	EXOC5_ENST00000340918.7_Silent_p.K455K	NM_006544.3	NP_006535.1	O00471	EXOC5_HUMAN	exocyst complex component 5	520					cellular protein metabolic process (GO:0044267)|exocytosis (GO:0006887)|membrane organization (GO:0061024)|post-Golgi vesicle-mediated transport (GO:0006892)|protein transport (GO:0015031)|vesicle docking (GO:0048278)	cytoplasm (GO:0005737)|cytosol (GO:0005829)				breast(3)|endometrium(1)|large_intestine(3)|lung(10)|ovary(3)|skin(1)|upper_aerodigestive_tract(1)	22						TTTCTTTTTTCTTCTGAAGGC	0.259																																																0													67	69	68					14																	57684753		1785	4055	5840	SO:0001819	synonymous_variant	10640			U85946	CCDS45111.1	14q22.3	2013-01-22	2005-11-01	2005-11-01	ENSG00000070367	ENSG00000070367			10696	protein-coding gene	gene with protein product		604469	"SEC10 (S. cerevisiae)-like 1", "SEC10-like 1 (S. cerevisiae)"	SEC10L1		9119050	Standard	XM_005267272		Approved	SEC10, SEC10P	uc001xct.3	O00471	OTTHUMG00000171309	ENST00000413566.2:c.1560G>A	14.37:g.57684753C>T		Somatic		WXS	Illumina HiSeq		B2R6C5	Silent	SNP	ENST00000413566.2	37	CCDS45111.1																																																																																				0.259	EXOC5-001	KNOWN	upstream_uORF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412905.1	NM_006544		T	57684753	C	T	57684753	2	4	589	1	0	0	0	0	0	0	0	1	5309	912	32	2		2	EXOC5	14	57684753	Silent	SNP	C	TCGA-G7-6792-01A-21D-1961-08		57684753	49664787	41	35106										
CDAN1	146059	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	43024004	43024004	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	ccaagacggtgcccccagcaCcaccagggctctgacacatc	9	18	1	2			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr15:43024004C>T	ENST00000356231.3	-	11	1576	c.1553G>A	c.(1552-1554)gGt>gAt	p.G518D		NM_138477.2	NP_612486.2	Q8IWY9	CDAN1_HUMAN	codanin 1	518					chromatin assembly (GO:0031497)|chromatin organization (GO:0006325)|negative regulation of DNA replication (GO:0008156)|protein localization (GO:0008104)	cytoplasm (GO:0005737)|endomembrane system (GO:0012505)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				endometrium(2)|kidney(4)|large_intestine(3)|lung(6)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|urinary_tract(3)	24		all_cancers(109;5.4e-16)|all_epithelial(112;2.97e-14)|Lung NSC(122;1.75e-08)|all_lung(180;5.99e-08)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;2.49e-07)		GCCCCCAGCACCACCAGGGCT	0.532																																																0													34	38	36					15																	43024004		2203	4299	6502	SO:0001583	missense	146059			AF525398	CCDS32209.1	15q15.2	2012-04-25	2012-04-25			ENSG00000140326			1713	protein-coding gene	gene with protein product		607465	"congenital dyserythropoietic anemia, type I"			8634422, 12434312	Standard	XM_005254177		Approved	CDA-I, CDAI	uc001zql.3	Q8IWY9		ENST00000356231.3:c.1553G>A	15.37:g.43024004C>T	ENSP00000348564:p.Gly518Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NYD0|Q7Z7L5|Q969N3	Missense_Mutation	SNP	ENST00000356231.3	37	CCDS32209.1	.	.	.	.	.	.	.	.	.	.	c	17.73	3.462735	0.63513	.	.	ENSG00000140326	ENST00000356231;ENST00000267892	D	0.86694	-2.16	5.85	4.9	0.64082	.	0.352932	0.32785	N	0.005652	D	0.88526	0.6460	L	0.41236	1.265	0.37581	D	0.919811	D	0.63046	0.992	P	0.57101	0.813	D	0.89548	0.3797	10	0.46703	T	0.11	-7.4334	16.3622	0.83271	0.1325:0.8675:0.0:0.0	.	518	Q8IWY9	CDAN1_HUMAN	D	518;516	ENSP00000348564:G518D	ENSP00000267892:G516D	G	-	2	0	CDAN1	40811296	0.601000	0.26907	0.996000	0.52242	0.629000	0.37895	3.677000	0.54619	2.773000	0.95371	0.651000	0.88453	GGT		0.532	CDAN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000431103.1	XM_085300		T	43024004	C	T	43024004	3	4	589	1	0	0	0	0	1	0	0	0	3056	507	18	2	2202	2	CDAN1	15	43024004	Missense_Mutation	SNP	C	TCGA-G7-6792-01A-21D-1961-08		43024004	59507388	42	35107										
LACTB	114294	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr15	63414861	63414861	+	Frame_Shift_Del	DEL	G	G	-													0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	gtgggcgcaccgggcatagtGgttggagtttctgtagatgg							TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr15:63414861delG	ENST00000261893.4	+	2	456	c.384delG	c.(382-384)gtgfs	p.V129fs	LACTB_ENST00000413507.2_Frame_Shift_Del_p.V129fs	NM_032857.3	NP_116246.2	P83111	LACTB_HUMAN	lactamase, beta	129						cytoplasm (GO:0005737)|mitochondrion (GO:0005739)	hydrolase activity (GO:0016787)			NS(1)|breast(1)|kidney(1)|large_intestine(3)|lung(3)|prostate(1)|skin(1)|stomach(1)	12						CGGGCATAGTGGTTGGAGTTT	0.488																																					Melanoma(85;443 1381 6215 27308 35583)											0													169	148	155					15																	63414861		2203	4300	6503	SO:0001589	frameshift_variant	114294			AK027808	CCDS10182.1, CCDS45275.1	15q22.1	2012-11-14	2001-12-12	2001-12-14	ENSG00000103642	ENSG00000103642		"Mitochondrial ribosomal proteins / large subunits"	16468	protein-coding gene	gene with protein product		608440	"mitochondrial ribosomal protein L56"	MRPL56		11707067	Standard	NM_032857		Approved	FLJ14902	uc002alw.3	P83111	OTTHUMG00000132807	ENST00000261893.4:c.384delG	15.37:g.63414861delG	ENSP00000261893:p.Val129fs	Somatic		WXS	Illumina HiSeq	Phase_I	P83096	Frame_Shift_Del	DEL	ENST00000261893.4	37	CCDS10182.1																																																																																				0.488	LACTB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256224.1	NM_032857		-	63414861	G	-	63414861	7	5	589	1	0	1	0	1	0	0	0	0	8604	1335	47	0	390	0	LACTB	15	63414861	Frame_Shift_Del	DEL	G	TCGA-G7-6792-01A-21D-1961-08	20390857	63414861	39116531	43	35108										
PSTPIP1	9051	hgsc.bcm.edu	37	chr15	77328195	77328195	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	cggaatgagggtgtctacacAgccatcgcagtgcaggagat	14	9	1	2			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr15:77328195A>G	ENST00000558012.1	+	14	1527	c.1038A>G	c.(1036-1038)acA>acG	p.T346T	PSTPIP1_ENST00000559295.1_Silent_p.T327T|PSTPIP1_ENST00000557995.1_3'UTR|PSTPIP1_ENST00000379595.3_Silent_p.T343T|PSTPIP1_ENST00000267939.5_Silent_p.T326T	NM_003978.3	NP_003969.2	O43586	PPIP1_HUMAN	proline-serine-threonine phosphatase interacting protein 1	346					cell adhesion (GO:0007155)|endocytosis (GO:0006897)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|signal transduction (GO:0007165)	actomyosin contractile ring (GO:0005826)|cell projection (GO:0042995)|cleavage furrow (GO:0032154)|cytosol (GO:0005829)|membrane (GO:0016020)|stress fiber (GO:0001725)				breast(1)|endometrium(3)|lung(2)|ovary(2)|upper_aerodigestive_tract(1)	9						GTGTCTACACAGCCATCGCAG	0.617																																																0													36	43	41					15																	77328195		1972	4126	6098	SO:0001819	synonymous_variant	9051			U94778	CCDS45312.1	15q24.3	2014-09-17			ENSG00000140368	ENSG00000140368			9580	protein-coding gene	gene with protein product	"CD2 cytoplasmic tail-binding protein", "CD2 antigen-binding protein 1", "PEST phosphatase-interacting protein 1"	606347				9857189	Standard	NM_003978		Approved	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS	uc002bcf.2	O43586	OTTHUMG00000172594	ENST00000558012.1:c.1038A>G	15.37:g.77328195A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B5BU74|B5BUK4|O43585|O95657	Silent	SNP	ENST00000558012.1	37	CCDS45312.1																																																																																				0.617	PSTPIP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000419373.2	NM_003978		G	77328195	A	G	77328195	2	3	589	1	0	0	0	0	0	0	0	1	12731	175	7	3		3	PSTPIP1	15	77328195	Silent	SNP	A	TCGA-G7-6792-01A-21D-1961-08	13913334	77328195	25203197	44	35109										
TSC2	7249	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	2138135	2138135	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	cccgccagatggccctgcacGcaaatgtgagtgggggtggg	17	11	0	2	rs137854164|rs137854321|rs201206500		TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr16:2138135G>A	ENST00000219476.3	+	40	5785	c.5155G>A	c.(5155-5157)Gca>Aca	p.A1719T	TSC2_ENST00000439673.2_Missense_Mutation_p.A1616T|MIR1225_ENST00000408729.1_RNA|TSC2_ENST00000350773.4_Missense_Mutation_p.A1696T|TSC2_ENST00000401874.2_Missense_Mutation_p.A1652T|TSC2_ENST00000568454.1_Missense_Mutation_p.A1663T|TSC2_ENST00000353929.4_Missense_Mutation_p.A1676T|TSC2_ENST00000382538.6_Missense_Mutation_p.A1604T	NM_000548.3	NP_000539.2	P49815	TSC2_HUMAN	tuberous sclerosis 2	1719	Rap-GAP. {ECO:0000255|PROSITE- ProRule:PRU00165}.				acute-phase response (GO:0006953)|cell cycle arrest (GO:0007050)|cell projection organization (GO:0030030)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|insulin-like growth factor receptor signaling pathway (GO:0048009)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of TOR signaling (GO:0032007)|negative regulation of Wnt signaling pathway (GO:0030178)|neural tube closure (GO:0001843)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol-mediated signaling (GO:0048015)|positive chemotaxis (GO:0050918)|positive regulation of Ras GTPase activity (GO:0032320)|protein heterooligomerization (GO:0051291)|protein homooligomerization (GO:0051260)|protein import into nucleus (GO:0006606)|protein kinase B signaling (GO:0043491)|protein localization (GO:0008104)|regulation of cell cycle (GO:0051726)|regulation of endocytosis (GO:0030100)|regulation of insulin receptor signaling pathway (GO:0046626)|response to hypoxia (GO:0001666)|vesicle-mediated transport (GO:0016192)	caveola (GO:0005901)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|Golgi apparatus (GO:0005794)|growth cone (GO:0030426)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|TSC1-TSC2 complex (GO:0033596)	GTPase activator activity (GO:0005096)|phosphatase binding (GO:0019902)|protein homodimerization activity (GO:0042803)			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(4)|cervix(2)|endometrium(8)|kidney(2)|large_intestine(3)|lung(19)|ovary(2)|pancreas(1)|prostate(2)|skin(7)|soft_tissue(1)	56		Hepatocellular(780;0.0202)				GGCCCTGCACGCAAATGTGAG	0.652			"D, Mis, N, F, S"			"hamartoma, renal cell"			Tuberous Sclerosis				G|||	1	0.000199681	0.0	0.0	5008	,	,		16634	0.0		0.001	False		,,,				2504	0.0					yes	Rec		Tuberous sclerosis 2	16	16p13.3	7249	tuberous sclerosis 2 gene		"E, O"	0													81	79	80					16																	2138135		2198	4299	6497	SO:0001583	missense	7249	Familial Cancer Database	TS, Tuberous Sclerosis Complex, TSC, Bourneville-Pringle disease	AB014460	CCDS10458.1, CCDS45384.1, CCDS58408.1	16p13.3	2014-09-17			ENSG00000103197	ENSG00000103197			12363	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 160"	191092		TSC4		1303246, 7558029	Standard	NM_001077183		Approved	tuberin, LAM, PPP1R160	uc002con.3	P49815	OTTHUMG00000128745	ENST00000219476.3:c.5155G>A	16.37:g.2138135G>A	ENSP00000219476:p.Ala1719Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2E2|B4DIL8|B4DIQ7|B4DRN2|B7Z2B8|C9J378|O75275|Q4LE71|Q8TAZ1	Missense_Mutation	SNP	ENST00000219476.3	37	CCDS10458.1	0	0.0	0	0.0	0	0.0	0	0.0	0	0.0	G	17.57	3.423704	0.62733	.	.	ENSG00000103197	ENST00000219476;ENST00000401874;ENST00000353929;ENST00000439673;ENST00000382538;ENST00000350773	D;D;D;D;D	0.96554	-4.05;-4.05;-4.05;-4.05;-4.05	4.51	4.51	0.55191	Rap/ran-GAP (2);	0.295757	0.31301	N	0.007885	D	0.97244	0.9099	M	0.90705	3.14	0.58432	D	0.999999	P;P;P;P;P;P;P	0.49635	0.697;0.878;0.797;0.926;0.648;0.648;0.882	P;P;P;P;B;B;P	0.50231	0.547;0.503;0.572;0.635;0.412;0.412;0.478	D	0.97347	0.9961	10	0.54805	T	0.06	-4.9954	12.3699	0.55250	0.0:0.0:0.8315:0.1685	.	1604;1616;1696;494;1675;1652;1719	B4DIL8;P49815-6;P49815-4;B3KSR9;P49815-3;P49815-5;P49815	.;.;.;.;.;.;TSC2_HUMAN	T	1719;1653;1676;1616;1604;1696	ENSP00000219476:A1719T;ENSP00000248099:A1676T;ENSP00000399232:A1616T;ENSP00000371978:A1604T;ENSP00000344383:A1696T	ENSP00000219476:A1719T	A	+	1	0	TSC2	2078136	1.000000	0.71417	0.990000	0.47175	0.076000	0.17211	7.766000	0.85320	2.065000	0.61736	0.313000	0.20887	GCA		0.652	TSC2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000250657.2	NM_000548		A	2138135	G	A	2138135	3	1	589	1	0	0	0	0	1	0	0	0	16618	1087	38	1	5309	1	TSC2	16	2138135	Missense_Mutation	SNP	G	TCGA-G7-6792-01A-21D-1961-08		2138135	88216618	45	35110										
MGRN1	23295	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	4731570	4731570	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	gaactctgacagcgtcccacCtggctacgagcccatctcgc	9	17	2	1			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr16:4731570C>A	ENST00000399577.5	+	13	1244	c.1151C>A	c.(1150-1152)cCt>cAt	p.P384H	MGRN1_ENST00000262370.7_Missense_Mutation_p.P384H|MGRN1_ENST00000586183.1_Missense_Mutation_p.P362H|MGRN1_ENST00000415496.1_Missense_Mutation_p.P363H|MGRN1_ENST00000588994.1_Missense_Mutation_p.P362H	NM_001142290.2	NP_001135762.1	O60291	MGRN1_HUMAN	mahogunin ring finger 1, E3 ubiquitin protein ligase	384					endosome to lysosome transport (GO:0008333)|negative regulation of cAMP-mediated signaling (GO:0043951)|negative regulation of G-protein coupled receptor protein signaling pathway (GO:0045744)|protein monoubiquitination (GO:0006513)|protein polyubiquitination (GO:0000209)	cytoplasm (GO:0005737)|early endosome (GO:0005769)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			endometrium(3)|kidney(1)|large_intestine(2)|lung(4)|ovary(3)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	18						AGCGTCCCACCTGGCTACGAG	0.637																																																0													35	41	39					16																	4731570		2113	4219	6332	SO:0001583	missense	23295			AB011116	CCDS42115.1, CCDS45401.1, CCDS45402.1, CCDS45401.2, CCDS59256.1	16p13	2012-02-23	2012-02-23					"RING-type (C3HC4) zinc fingers"	20254	protein-coding gene	gene with protein product		607559	"mahogunin, ring finger 1"			9628581	Standard	NM_015246		Approved	KIAA0544, RNF156	uc002cxa.3	O60291		ENST00000399577.5:c.1151C>A	16.37:g.4731570C>A	ENSP00000382487:p.Pro384His	Somatic		WXS	Illumina HiSeq	Phase_I	A4URL3|A4URL4|Q86W76	Missense_Mutation	SNP	ENST00000399577.5	37	CCDS45402.1	.	.	.	.	.	.	.	.	.	.	C	21.9	4.211518	0.79240	.	.	ENSG00000102858	ENST00000262370;ENST00000399577;ENST00000415496	T;T;T	0.46451	0.87;0.94;1.18	5.25	5.25	0.73442	.	0.000000	0.85682	D	0.000000	T	0.59473	0.2196	L	0.52011	1.625	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.91635	0.999;0.997;0.993;0.998;0.999	T	0.61836	-0.6981	10	0.87932	D	0	-15.6411	15.5901	0.76521	0.0:1.0:0.0:0.0	.	362;362;363;384;384	O60291-4;O60291-3;E9PB19;O60291-2;O60291	.;.;.;.;MGRN1_HUMAN	H	384;384;363	ENSP00000262370:P384H;ENSP00000382487:P384H;ENSP00000393311:P363H	ENSP00000262370:P384H	P	+	2	0	MGRN1	4671571	0.998000	0.40836	0.943000	0.38184	0.715000	0.41141	5.746000	0.68681	2.456000	0.83038	0.561000	0.74099	CCT		0.637	MGRN1-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000432060.2			A	4731570	C	A	4731570	3	1	589	1	0	0	0	0	1	0	0	0	9566	681	24	4	1204	4	MGRN1	16	4731570	Missense_Mutation	SNP	C	TCGA-G7-6792-01A-21D-1961-08	2593435	4731570	85623183	46	35111										
PDXDC1	23042	ucsc.edu;bcgsc.ca	37	chr16	15130101	15130101	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	acacccagaagatgaccactCacaggtagaaggaccggaga	11	11	1	5			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr16:15130101C>A	ENST00000396410.4	+	23	2433	c.2336C>A	c.(2335-2337)tCa>tAa	p.S779*	PDXDC1_ENST00000563679.1_Nonsense_Mutation_p.S797*|PDXDC1_ENST00000325823.7_Nonsense_Mutation_p.S764*|PDXDC1_ENST00000569715.1_Nonsense_Mutation_p.S752*|PDXDC1_ENST00000535621.2_Intron|PDXDC1_ENST00000450288.2_Nonsense_Mutation_p.S751*|PDXDC1_ENST00000447912.2_Nonsense_Mutation_p.S688*	NM_015027.2	NP_055842.2	Q6P996	PDXD1_HUMAN	pyridoxal-dependent decarboxylase domain containing 1	779					carboxylic acid metabolic process (GO:0019752)	Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)	carboxy-lyase activity (GO:0016831)|pyridoxal phosphate binding (GO:0030170)			central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|large_intestine(2)|liver(1)|lung(10)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	38						GATGACCACTCACAGGTAGAA	0.537																																																0													142	147	146					16																	15130101		2197	4300	6497	SO:0001587	stop_gained	23042			AK025504, BX647809	CCDS32393.1, CCDS66954.1, CCDS66957.1, CCDS73830.1, CCDS73831.1	16p13.11	2008-02-05							28995	protein-coding gene	gene with protein product		614244					Standard	XM_005255173		Approved	KIAA0251	uc002dda.4	Q6P996	OTTHUMG00000166304	ENST00000396410.4:c.2336C>A	16.37:g.15130101C>A	ENSP00000379691:p.Ser779*	Somatic		WXS	Illumina HiSeq		B4DR55|B4DSL3|E7EMH5|E7EPL4|H3BNZ1|O00236|Q4F6X7|Q6PID7|Q86YF1|Q8N4Q9|Q8TBS5	Nonsense_Mutation	SNP	ENST00000396410.4	37	CCDS32393.1	.	.	.	.	.	.	.	.	.	.	C	24.0	4.482807	0.84747	.	.	ENSG00000179889	ENST00000325823;ENST00000447912;ENST00000396410;ENST00000450288	.	.	.	5.17	5.17	0.71159	.	0.745129	0.13527	N	0.381244	.	.	.	.	.	.	0.46701	D	0.999161	.	.	.	.	.	.	.	.	.	.	0.09338	T	0.73	-0.0189	17.8527	0.88752	0.0:1.0:0.0:0.0	.	.	.	.	X	764;688;779;751	.	ENSP00000322807:S764X	S	+	2	0	PDXDC1	15037602	0.001000	0.12720	0.721000	0.30653	0.095000	0.18619	1.280000	0.33202	2.683000	0.91414	0.655000	0.94253	TCA		0.537	PDXDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389065.2	NM_015027		A	15130101	C	A	15130101	4	1	589	1	0	0	0	0	0	1	0	0	11703	838	29	4	2426	4	PDXDC1	16	15130101	Nonsense_Mutation	SNP	C	TCGA-G7-6792-01A-21D-1961-08	10398531	15130101	75224652	47	35112										
STARD3	10948	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	37817259	37817259	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	tcgtgaatgtccggcgcattGagcggcgcagggaccgatac	15	11	0	2			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr17:37817259G>T	ENST00000336308.5	+	13	1278	c.1060G>T	c.(1060-1062)Gag>Tag	p.E354*	STARD3_ENST00000544210.2_Nonsense_Mutation_p.E354*|STARD3_ENST00000580611.1_Nonsense_Mutation_p.E328*|STARD3_ENST00000394250.4_Nonsense_Mutation_p.E336*	NM_001165937.1|NM_006804.3	NP_001159409.1|NP_006795.3	Q14849	STAR3_HUMAN	StAR-related lipid transfer (START) domain containing 3	354	START. {ECO:0000255|PROSITE- ProRule:PRU00197}.				cholesterol metabolic process (GO:0008203)|lipid metabolic process (GO:0006629)|lipid transport (GO:0006869)|mitochondrial transport (GO:0006839)|progesterone biosynthetic process (GO:0006701)|steroid metabolic process (GO:0008202)	cytoplasm (GO:0005737)|endosome (GO:0005768)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|mitochondrion (GO:0005739)	cholesterol binding (GO:0015485)			endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|pancreas(1)|prostate(2)|stomach(1)	14	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)			CCGGCGCATTGAGCGGCGCAG	0.602																																																0													75	66	69					17																	37817259		2203	4300	6503	SO:0001587	stop_gained	10948				CCDS11341.1, CCDS54117.1, CCDS54118.1	17q11-q12	2011-09-12	2007-08-16		ENSG00000131748	ENSG00000131748		"StAR-related lipid transfer (START) domain containing"	17579	protein-coding gene	gene with protein product		607048	"START domain containing 3"				Standard	NM_006804		Approved	es64, MLN64	uc002hsd.3	Q14849	OTTHUMG00000133213	ENST00000336308.5:c.1060G>T	17.37:g.37817259G>T	ENSP00000337446:p.Glu354*	Somatic		WXS	Illumina HiSeq	Phase_I	A8MXA4|B4DUY1|F5H0G2|Q53Y53|Q96HM9	Nonsense_Mutation	SNP	ENST00000336308.5	37	CCDS11341.1	.	.	.	.	.	.	.	.	.	.	G	39	7.324673	0.98214	.	.	ENSG00000131748	ENST00000336308;ENST00000544210;ENST00000394250	.	.	.	5.02	5.02	0.67125	.	0.107907	0.64402	D	0.000008	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.25106	T	0.35	.	18.3139	0.90210	0.0:0.0:1.0:0.0	.	.	.	.	X	354;354;336	.	ENSP00000337446:E354X	E	+	1	0	STARD3	35070785	1.000000	0.71417	0.985000	0.45067	0.996000	0.88848	9.015000	0.93640	2.343000	0.79666	0.561000	0.74099	GAG		0.602	STARD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256933.1			T	37817259	G	T	37817259	4	4	589	1	0	0	0	0	0	1	0	0	15269	1291	45	4	1119	4	STARD3	17	37817259	Nonsense_Mutation	SNP	G	TCGA-G7-6792-01A-21D-1961-08		37817259	43377951	48	35113										
TMC8	147138	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	76133427	76133427	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	gagtcctacggctacaacgtTtgtgactatcaggtggctgg	13	9	1	1			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr17:76133427T>G	ENST00000318430.5	+	10	1613	c.1239T>G	c.(1237-1239)gtT>gtG	p.V413V	TMC8_ENST00000589691.1_Silent_p.V190V	NM_152468.4	NP_689681.2	Q8IU68	TMC8_HUMAN	transmembrane channel-like 8	413					ion transport (GO:0006811)|negative regulation of protein binding (GO:0032091)|negative regulation of protein oligomerization (GO:0032460)|regulation of cell growth (GO:0001558)|regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902041)|zinc ion homeostasis (GO:0055069)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nuclear membrane (GO:0031965)	receptor binding (GO:0005102)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	12			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)|OV - Ovarian serous cystadenocarcinoma(97;0.192)			GCTACAACGTTTGTGACTATC	0.587																																																0													129	116	120					17																	76133427		2203	4300	6503	SO:0001819	synonymous_variant	147138			AY057380	CCDS32749.1	17q25.3	2014-09-17	2005-11-10	2005-11-10	ENSG00000167895	ENSG00000167895			20474	protein-coding gene	gene with protein product		605829	"epidermodysplasia verruciformis 2"	EVER2		12426567	Standard	NM_152468		Approved	EVIN2	uc002jup.2	Q8IU68		ENST00000318430.5:c.1239T>G	17.37:g.76133427T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q2YDC0|Q8IWU7|Q8N358|Q8NF04	Silent	SNP	ENST00000318430.5	37	CCDS32749.1																																																																																				0.587	TMC8-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000436900.3			G	76133427	T	G	76133427	2	3	589	1	0	0	0	0	0	0	0	1	16003	1828	64	5		5	TMC8	17	76133427	Silent	SNP	T	TCGA-G7-6792-01A-21D-1961-08	38316168	76133427	5061783	49	35114										
KIAA1632	57724	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr18	43464597	43464598	+	Frame_Shift_Ins	INS	-	-	AA													0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	ttaccttggttagcagcatgINSaaaatcatatcactgttgtc							TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr18:43464597_43464598insAA	ENST00000282041.5	-	30	5322_5323	c.5288_5289insTT	c.(5287-5289)ttcfs	p.F1763fs	EPG5_ENST00000585906.1_5'UTR	NM_020964.2	NP_066015.2	Q9HCE0	EPG5_HUMAN	ectopic P-granules autophagy protein 5 homolog (C. elegans)	1763					autophagic vacuole maturation (GO:0097352)|autophagy (GO:0006914)|endocytic recycling (GO:0032456)					NS(1)|breast(9)|central_nervous_system(3)|cervix(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(22)|lung(35)|ovary(2)|pancreas(1)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	95						TTAGCAGCATGAAAATCATATC	0.421																																																0																																										SO:0001589	frameshift_variant	57724			AK023817	CCDS11926.2	18q12.3	2011-03-02	2011-03-02	2011-03-02	ENSG00000152223	ENSG00000152223			29331	protein-coding gene	gene with protein product		615068	"KIAA1632"	KIAA1632		10997877, 20550938	Standard	XM_005258323		Approved	hEPG5	uc002lbm.3	Q9HCE0	OTTHUMG00000132626	ENST00000282041.5:c.5287_5288dupTT	18.37:g.43464600_43464601dupAA	ENSP00000282041:p.Phe1763fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2BDF3|Q9H8C8	Frame_Shift_Ins	INS	ENST00000282041.5	37	CCDS11926.2																																																																																				0.421	EPG5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445081.1	NM_020964		AA	43464598	-	AA	43464597	7	5	589	1	0	1	1	0	0	0	0	0	8256	1281	45	0	2510	0	KIAA1632	18	43464597	Frame_Shift_Ins	INS	-	TCGA-G7-6792-01A-21D-1961-08		43464597	34612651	50	35115										
APC2	10297	hgsc.bcm.edu	37	chr19	1469819	1469819	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	ctgccactgcggggctccacGcccgaggacgccccggccgg	15	19	0	0	rs556845921	byFrequency	TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr19:1469819G>C	ENST00000535453.1	+	14	8232	c.6519G>C	c.(6517-6519)acG>acC	p.T2173T	C19orf25_ENST00000588427.1_Intron|APC2_ENST00000238483.4_Silent_p.T1899T|APC2_ENST00000233607.2_Silent_p.T2173T			P02655	APOC2_HUMAN	adenomatosis polyposis coli 2	0					cholesterol efflux (GO:0033344)|cholesterol homeostasis (GO:0042632)|chylomicron remnant clearance (GO:0034382)|chylomicron remodeling (GO:0034371)|high-density lipoprotein particle clearance (GO:0034384)|lipid catabolic process (GO:0016042)|lipoprotein metabolic process (GO:0042157)|negative regulation of catalytic activity (GO:0043086)|negative regulation of cholesterol transport (GO:0032375)|negative regulation of lipid metabolic process (GO:0045833)|negative regulation of receptor-mediated endocytosis (GO:0048261)|negative regulation of very-low-density lipoprotein particle clearance (GO:0010916)|phospholipid efflux (GO:0033700)|phototransduction, visible light (GO:0007603)|positive regulation of fatty acid biosynthetic process (GO:0045723)|positive regulation of lipoprotein lipase activity (GO:0051006)|positive regulation of phospholipase activity (GO:0010518)|positive regulation of phospholipid catabolic process (GO:0060697)|positive regulation of triglyceride catabolic process (GO:0010898)|positive regulation of very-low-density lipoprotein particle remodeling (GO:0010902)|retinoid metabolic process (GO:0001523)|reverse cholesterol transport (GO:0043691)|small molecule metabolic process (GO:0044281)|triglyceride homeostasis (GO:0070328)|triglyceride-rich lipoprotein particle remodeling (GO:0034370)|very-low-density lipoprotein particle remodeling (GO:0034372)	chylomicron (GO:0042627)|early endosome (GO:0005769)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|intermediate-density lipoprotein particle (GO:0034363)|low-density lipoprotein particle (GO:0034362)|spherical high-density lipoprotein particle (GO:0034366)|very-low-density lipoprotein particle (GO:0034361)	lipase inhibitor activity (GO:0055102)|lipid binding (GO:0008289)|lipoprotein lipase activator activity (GO:0060230)|phospholipase activator activity (GO:0016004)|phospholipase binding (GO:0043274)|protein homodimerization activity (GO:0042803)			breast(3)|cervix(1)|kidney(4)|large_intestine(2)|lung(5)|pancreas(1)|skin(2)	18		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGGGCTCCACGCCCGAGGAcg	0.761													G|||	26	0.00519169	0.0166	0.0058	5008	,	,		8412	0.0		0.0	False		,,,				2504	0.0															0																																										SO:0001819	synonymous_variant	10297				CCDS12068.1	19p13.3	2013-02-14			ENSG00000115266	ENSG00000115266		"Armadillo repeat containing"	24036	protein-coding gene	gene with protein product	"adenomatous polyposis coli like"	612034				9823329, 10021369	Standard	XM_005259475		Approved	APCL	uc002lsr.1	O95996		ENST00000535453.1:c.6519G>C	19.37:g.1469819G>C		Somatic		WXS	Illumina HiSeq	Phase_I	C0JYY4|Q9BS39|Q9UDE3|Q9UNK3	Silent	SNP	ENST00000535453.1	37	CCDS12068.1																																																																																				0.761	APC2-004	KNOWN	NAGNAG_splice_site|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449539.2	NM_005883		C	1469819	G	C	1469819	2	2	589	1	0	0	0	0	0	0	0	1	764	1074	38	4		4	APC2	19	1469819	Silent	SNP	G	TCGA-G7-6792-01A-21D-1961-08		1469819	57659164	51	35116										
RAB3D	9545	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	11447891	11447891	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	tgtcatggcggtagacggtcTtgaccttgaaatcgatgccc	12	10	2	3			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr19:11447891T>A	ENST00000222120.3	-	2	445	c.185A>T	c.(184-186)aAg>aTg	p.K62M	RAB3D_ENST00000589655.1_Missense_Mutation_p.K62M	NM_004283.3	NP_004274.1	O95716	RAB3D_HUMAN	RAB3D, member RAS oncogene family	62					exocytosis (GO:0006887)|GTP catabolic process (GO:0006184)|peptidyl-cysteine methylation (GO:0018125)|protein transport (GO:0015031)|regulation of exocytosis (GO:0017157)|small GTPase mediated signal transduction (GO:0007264)	extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|transport vesicle (GO:0030133)|zymogen granule (GO:0042588)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|myosin V binding (GO:0031489)			cervix(1)|endometrium(3)|kidney(1)|large_intestine(3)|liver(1)|lung(3)|ovary(2)	14						GTAGACGGTCTTGACCTTGAA	0.577																																																0													232	208	216					19																	11447891		2203	4300	6503	SO:0001583	missense	9545			AF081353	CCDS12257.1	19p13.2	2012-10-02			ENSG00000105514	ENSG00000105514		"RAB, member RAS oncogene"	9779	protein-coding gene	gene with protein product	"Rab3D upregulated with myeloid differentiation", "glioblastoma overexpressed"	604350		GOV		10023084, 10072586	Standard	NM_004283		Approved	RAB16, D2-2, RAD3D	uc002mqx.3	O95716	OTTHUMG00000180835	ENST00000222120.3:c.185A>T	19.37:g.11447891T>A	ENSP00000222120:p.Lys62Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000222120.3	37	CCDS12257.1	.	.	.	.	.	.	.	.	.	.	T	21.4	4.150596	0.78001	.	.	ENSG00000105514	ENST00000222120	T	0.79554	-1.28	4.46	3.43	0.39272	Small GTP-binding protein domain (1);	0.045218	0.85682	D	0.000000	D	0.91030	0.7178	H	0.94582	3.555	0.80722	D	1	D	0.76494	0.999	D	0.75484	0.986	D	0.91079	0.4898	10	0.87932	D	0	.	9.368	0.38237	0.0:0.088:0.0:0.912	.	62	O95716	RAB3D_HUMAN	M	62	ENSP00000222120:K62M	ENSP00000222120:K62M	K	-	2	0	RAB3D	11308891	1.000000	0.71417	1.000000	0.80357	0.953000	0.61014	7.805000	0.86005	0.847000	0.35167	0.482000	0.46254	AAG		0.577	RAB3D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453211.1	NM_004283		A	11447891	T	A	11447891	3	1	589	1	0	0	0	0	1	0	0	0	12947	1609	56	5	490	5	RAB3D	19	11447891	Missense_Mutation	SNP	T	TCGA-G7-6792-01A-21D-1961-08	9978072	11447891	47681092	52	35117										
PTPRA	5786	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	3016489	3016489	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	ttccatggctggcctgaagtGggcatccccagtgacggaaa	13	11	0	2			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr20:3016489G>T	ENST00000216877.6	+	21	2473	c.2073G>T	c.(2071-2073)gtG>gtT	p.V691V	PTPRA_ENST00000318266.5_Silent_p.V691V|PTPRA_ENST00000356147.3_Silent_p.V691V|PTPRA_ENST00000380393.3_Silent_p.V700V|PTPRA_ENST00000425918.2_Silent_p.V711V|PTPRA_ENST00000399903.2_Silent_p.V700V|PTPRA_ENST00000358719.4_Silent_p.V556V	NM_080840.2	NP_543030.1	P18433	PTPRA_HUMAN	protein tyrosine phosphatase, receptor type, A	700	Tyrosine-protein phosphatase 2. {ECO:0000255|PROSITE-ProRule:PRU00160}.				axon guidance (GO:0007411)|insulin receptor signaling pathway (GO:0008286)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein phosphorylation (GO:0006468)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(1)|breast(1)|endometrium(3)|large_intestine(3)|lung(5)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	17						GGCCTGAAGTGGGCATCCCCA	0.587																																																0													78	73	74					20																	3016489		2203	4300	6503	SO:0001819	synonymous_variant	5786				CCDS13038.1, CCDS13039.1	20p13	2011-06-09			ENSG00000132670	ENSG00000132670		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like"	9664	protein-coding gene	gene with protein product		176884		PTPRL2, PTPA		2172030, 2169617	Standard	NM_080840		Approved	LRP, HLPR, HPTPA, RPTPA	uc002whn.3	P18433	OTTHUMG00000031718	ENST00000216877.6:c.2073G>T	20.37:g.3016489G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K2G8|D3DVX5|Q14513|Q7Z2I2|Q96TD9	Silent	SNP	ENST00000216877.6	37	CCDS13039.1																																																																																				0.587	PTPRA-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077682.3			T	3016489	G	T	3016489	2	4	589	1	0	0	0	0	0	0	0	1	12808	1335	47	4		4	PTPRA	20	3016489	Silent	SNP	G	TCGA-G7-6792-01A-21D-1961-08		3016489	60009031	53	35118										
CST9L	128821	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	23548869	23548869	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	tgctccttccaggaattcaaGatgtgccccagtctgtaggc	10	12	2	1			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr20:23548869G>T	ENST00000376979.3	-	1	517	c.219C>A	c.(217-219)atC>atA	p.I73I		NM_080610.2	NP_542177.1	Q9H4G1	CST9L_HUMAN	cystatin 9-like	73						extracellular region (GO:0005576)	cysteine-type endopeptidase inhibitor activity (GO:0004869)			breast(1)|endometrium(1)|large_intestine(1)|lung(4)|prostate(1)	8	Colorectal(13;0.0431)|Lung NSC(19;0.235)					AGGAATTCAAGATGTGCCCCA	0.547																																																0													155	122	133					20																	23548869		2203	4300	6503	SO:0001819	synonymous_variant	128821				CCDS13157.1	20p11.21	2012-08-14	2008-03-06		ENSG00000101435	ENSG00000101435			16233	protein-coding gene	gene with protein product			"cystatin 9 (mouse)-like"			20565543	Standard	NM_080610		Approved	bA218C14.1, CTES7B	uc002wtk.4	Q9H4G1	OTTHUMG00000032073	ENST00000376979.3:c.219C>A	20.37:g.23548869G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R5A1	Silent	SNP	ENST00000376979.3	37	CCDS13157.1																																																																																				0.547	CST9L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078338.1	NM_080610		T	23548869	G	T	23548869	2	4	589	1	0	0	0	0	0	0	0	1	3982	932	33	4		4	CST9L	20	23548869	Silent	SNP	G	TCGA-G7-6792-01A-21D-1961-08	20532380	23548869	39476651	54	35119										
PFKL	5211	broad.mit.edu	37	chr21	45741733	45741733	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	agtatacgtggtgcacgatgGcttcgaaggcctagccaagg	14	9	0	0			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr21:45741733G>A	ENST00000349048.4	+	13	1368	c.1313G>A	c.(1312-1314)gGc>gAc	p.G438D	PFKL_ENST00000403390.1_Missense_Mutation_p.G485D	NM_002626.4	NP_002617.3	P17858	PFKAL_HUMAN	phosphofructokinase, liver	438	C-terminal regulatory PFK domain 2.				carbohydrate metabolic process (GO:0005975)|carbohydrate phosphorylation (GO:0046835)|fructose 1,6-bisphosphate metabolic process (GO:0030388)|fructose 6-phosphate metabolic process (GO:0006002)|glucose metabolic process (GO:0006006)|glycolytic process (GO:0006096)|negative regulation of insulin secretion (GO:0046676)|protein homotetramerization (GO:0051289)|protein oligomerization (GO:0051259)|response to glucose (GO:0009749)|small molecule metabolic process (GO:0044281)	6-phosphofructokinase complex (GO:0005945)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	6-phosphofructokinase activity (GO:0003872)|ATP binding (GO:0005524)|fructose binding (GO:0070061)|fructose-6-phosphate binding (GO:0070095)|identical protein binding (GO:0042802)|kinase binding (GO:0019900)|metal ion binding (GO:0046872)			cervix(1)|endometrium(1)|kidney(2)|large_intestine(1)|lung(10)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	23				Colorectal(79;0.0811)		GTGCACGATGGCTTCGAAGGC	0.642																																																0													93	92	92					21																	45741733		2202	4300	6502	SO:0001583	missense	5211				CCDS33582.1	21q22.3	1992-12-17			ENSG00000141959	ENSG00000141959	2.7.1.11		8876	protein-coding gene	gene with protein product		171860					Standard	NR_024108		Approved		uc002zel.3	P17858	OTTHUMG00000086910	ENST00000349048.4:c.1313G>A	21.37:g.45741733G>A	ENSP00000269848:p.Gly438Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q96A64|Q96IH4|Q9BR91	Missense_Mutation	SNP	ENST00000349048.4	37	CCDS33582.1	.	.	.	.	.	.	.	.	.	.	G	19.09	3.760200	0.69763	.	.	ENSG00000141959	ENST00000349048;ENST00000534847;ENST00000403390	D;D	0.97994	-4.65;-4.65	4.3	4.3	0.51218	Phosphofructokinase domain (2);	0.000000	0.85682	D	0.000000	D	0.99321	0.9762	H	0.99261	4.49	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.998;1.0	D	0.98287	1.0511	10	0.87932	D	0	-31.7745	15.5438	0.76077	0.0:0.0:1.0:0.0	.	438;485	P17858;P17858-2	K6PL_HUMAN;.	D	438;231;485	ENSP00000269848:G438D;ENSP00000384038:G485D	ENSP00000269848:G438D	G	+	2	0	PFKL	44566161	1.000000	0.71417	0.993000	0.49108	0.160000	0.22226	9.380000	0.97202	1.912000	0.55364	0.462000	0.41574	GGC		0.642	PFKL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195805.1			A	45741733	G	A	45741733	3	1	589	1	0	0	0	0	1	0	0	0	11771	1203	42	2	1363	2	PFKL	21	45741733	Missense_Mutation	SNP	G	TCGA-G7-6792-01A-21D-1961-08		45741733	2388162	55	35120										
SGSM3	57591	hgsc.bcm.edu	37	chr22	40804935	40804935	+	IGR	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	cagctgacggtgccgttcccAggctgtgcagtctgtgaacg	14	12	1	2			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chr22:40804935A>G	ENST00000355630.3	-	0	4496				SGSM3_ENST00000248929.9_Splice_Site|SGSM3_ENST00000454798.2_Splice_Site	NM_020831.3	NP_065882.1	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia (translocation) 1						negative regulation of apoptotic signaling pathway (GO:2001234)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription via serum response element binding (GO:0010735)|smooth muscle cell differentiation (GO:0051145)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	actin binding (GO:0003779)|actin monomer binding (GO:0003785)|leucine zipper domain binding (GO:0043522)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription regulatory region sequence-specific DNA binding (GO:0000976)			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(3)|lung(13)|ovary(4)|skin(1)|stomach(1)|urinary_tract(1)	30						TGCCGTTCCCAGGCTGTGCAG	0.597			T	RBM15	acute megakaryocytic leukemia																																		Dom	yes		22	22q13	57591	megakaryoblastic leukemia (translocation) 1		L	0													36	36	36					22																	40804935		2203	4298	6501	SO:0001628	intergenic_variant	27352			AB037859	CCDS14003.1, CCDS74865.1, CCDS74866.1	22q13	2008-06-12			ENSG00000196588	ENSG00000196588			14334	protein-coding gene	gene with protein product	"megakaryocytic acute leukemia", "myocardin-related transcription factor A", "basic, SAP and coiled-coil domain"	606078				11431691, 12019265, 14970199	Standard	XM_005261692		Approved	KIAA1438, MAL, MRTF-A, BSAC	uc003ayw.1	Q969V6	OTTHUMG00000151146		22.37:g.40804935A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TCL1|Q96SC5|Q96SC6|Q9P2B0	Splice_Site	SNP	ENST00000355630.3	37	CCDS14003.1	.	.	.	.	.	.	.	.	.	.	A	15.44	2.834085	0.50951	.	.	ENSG00000100359	ENST00000248929;ENST00000454798;ENST00000427834;ENST00000417424	.	.	.	4.56	4.56	0.56223	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.2125	0.65773	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	SGSM3	39134881	1.000000	0.71417	0.944000	0.38274	0.077000	0.17291	8.433000	0.90291	1.834000	0.53371	0.260000	0.18958	.		0.597	MKL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321522.1	NM_020831		G	40804935	A	G	40804935	1	3	589	0	1	0	0	0	0	0	0	0	14237	202	7	3		3	SGSM3	22	40804935	IGR	SNP	A	TCGA-G7-6792-01A-21D-1961-08		40804935	10499631	56	35121										
USP11	8237	hgsc.bcm.edu	37	chrX	47102998	47102998	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0357142857142857	2	1	0.772077922077922	0	0.999159663865546	0.454545454545454	1	0	taacgtcctgatgtaccggcTctcgtaagtgtcctcttccc	8	14	2	1			TCGA-G7-6792-01A-21D-1961-08	TCGA-G7-6792-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcb71dd8-5625-4d0c-9148-b70199b7f6f3	381c414c-def1-4d55-95b5-9071eaf29fa6	g.chrX:47102998T>C	ENST00000218348.3	+	13	1916	c.1916T>C	c.(1915-1917)cTc>cCc	p.L639P	USP11_ENST00000377107.2_Missense_Mutation_p.L596P	NM_004651.3	NP_004642.2	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	639	USP.				protein deubiquitination (GO:0016579)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	cysteine-type endopeptidase activity (GO:0004197)|ubiquitin-specific protease activity (GO:0004843)			breast(2)|central_nervous_system(2)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(9)|lung(14)|ovary(3)|pancreas(1)|stomach(1)	40						ATGTACCGGCTCTCGTAAGTG	0.577																																																0													45	43	44					X																	47102998		2203	4300	6503	SO:0001583	missense	8237			U44839	CCDS14277.1	Xp11.23	2008-02-05	2005-08-08		ENSG00000102226	ENSG00000102226		"Ubiquitin-specific peptidases"	12609	protein-coding gene	gene with protein product		300050	"ubiquitin specific protease 11"			12838346	Standard	XM_005272674		Approved	UHX1	uc004dhp.3	P51784	OTTHUMG00000021437	ENST00000218348.3:c.1916T>C	X.37:g.47102998T>C	ENSP00000218348:p.Leu639Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTX1|Q8IUG6|Q9BWE1	Missense_Mutation	SNP	ENST00000218348.3	37	CCDS14277.1	.	.	.	.	.	.	.	.	.	.	T	19.34	3.808542	0.70797	.	.	ENSG00000102226	ENST00000377107;ENST00000218348	T;T	0.25085	1.84;1.82	4.69	4.69	0.59074	Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2 (2);	0.096142	0.42821	D	0.000655	T	0.47857	0.1468	M	0.75884	2.315	0.80722	D	1	B;D	0.69078	0.389;0.997	B;D	0.68621	0.403;0.959	T	0.51458	-0.8703	10	0.87932	D	0	-17.6823	10.9784	0.47480	0.0:0.0:0.0:1.0	.	366;639	B3KP28;P51784	.;UBP11_HUMAN	P	596;639	ENSP00000366311:L596P;ENSP00000218348:L639P	ENSP00000218348:L639P	L	+	2	0	USP11	46987942	1.000000	0.71417	1.000000	0.80357	0.800000	0.45204	5.422000	0.66453	1.861000	0.53984	0.417000	0.27973	CTC		0.577	USP11-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_004651		C	47102998	T	C	47102998	3	2	589	1	0	0	0	0	1	0	0	0	17054	1551	54	3	1966	3	USP11	23	47102998	Missense_Mutation	SNP	T	TCGA-G7-6792-01A-21D-1961-08		47102998	108167562	57	35122										
PIK3CD	5293	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	9782066	9782066	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	gcaaactgaaggccctgaatGacttcgtcaagctgagctct	10	11	2	4			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr1:9782066G>T	ENST00000377346.4	+	17	2284	c.2089G>T	c.(2089-2091)Gac>Tac	p.D697Y	PIK3CD_ENST00000536656.1_Missense_Mutation_p.D721Y|PIK3CD_ENST00000543390.1_3'UTR|PIK3CD_ENST00000361110.2_Missense_Mutation_p.D721Y	NM_005026.3	NP_005017.3	O00329	PK3CD_HUMAN	phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit delta	697					adaptive immune response (GO:0002250)|B cell activation (GO:0042113)|B cell chemotaxis (GO:0035754)|B cell homeostasis (GO:0001782)|B cell receptor signaling pathway (GO:0050853)|cytokine production (GO:0001816)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|mast cell chemotaxis (GO:0002551)|mast cell degranulation (GO:0043303)|mast cell differentiation (GO:0060374)|natural killer cell activation (GO:0030101)|natural killer cell chemotaxis (GO:0035747)|natural killer cell differentiation (GO:0001779)|neurotrophin TRK receptor signaling pathway (GO:0048011)|neutrophil chemotaxis (GO:0030593)|neutrophil extravasation (GO:0072672)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-3-phosphate biosynthetic process (GO:0036092)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|protein phosphorylation (GO:0006468)|respiratory burst involved in defense response (GO:0002679)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|T cell activation (GO:0042110)|T cell chemotaxis (GO:0010818)|T cell differentiation (GO:0030217)|T cell receptor signaling pathway (GO:0050852)	cytosol (GO:0005829)|mast cell granule (GO:0042629)|phosphatidylinositol 3-kinase complex (GO:0005942)|plasma membrane (GO:0005886)	1-phosphatidylinositol-3-kinase activity (GO:0016303)|1-phosphatidylinositol-4-phosphate 3-kinase activity (GO:0035005)|ATP binding (GO:0005524)|phosphatidylinositol 3-kinase activity (GO:0035004)|phosphatidylinositol-4,5-bisphosphate 3-kinase activity (GO:0046934)			central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(12)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)	31	all_lung(157;0.222)	all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0231)|Colorectal(212;7.52e-08)|COAD - Colon adenocarcinoma(227;1.78e-05)|Kidney(185;0.000322)|KIRC - Kidney renal clear cell carcinoma(229;0.00114)|BRCA - Breast invasive adenocarcinoma(304;0.0021)|STAD - Stomach adenocarcinoma(132;0.00395)|READ - Rectum adenocarcinoma(331;0.0419)	Caffeine(DB00201)	GGCCCTGAATGACTTCGTCAA	0.637											OREG0013082	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													74	84	81					1																	9782066		2203	4300	6503	SO:0001583	missense	5293				CCDS104.1	1p36.2	2014-09-17	2012-07-13		ENSG00000171608	ENSG00000171608	2.7.1.153		8977	protein-coding gene	gene with protein product	"phosphatidylinositol 3-kinase, catalytic, delta polypeptide", "phosphoinositide-3-kinase C"	602839	"phosphoinositide-3-kinase, catalytic, delta polypeptide"			9113989, 9455486	Standard	NM_005026		Approved	p110D	uc001aqb.4	O00329	OTTHUMG00000001450	ENST00000377346.4:c.2089G>T	1.37:g.9782066G>T	ENSP00000366563:p.Asp697Tyr	Somatic	659	WXS	Illumina HiSeq	Phase_I	A6NCG0|G1FFP1|O15445|Q5SR49	Missense_Mutation	SNP	ENST00000377346.4	37	CCDS104.1	.	.	.	.	.	.	.	.	.	.	G	12.34	1.908660	0.33721	.	.	ENSG00000171608	ENST00000536656;ENST00000377346;ENST00000361110;ENST00000360563	D;D;D	0.82081	-1.57;-1.57;-1.57	5.4	4.48	0.54585	Protein kinase-like domain (1);	0.151853	0.64402	D	0.000020	D	0.86339	0.5909	L	0.55990	1.75	0.80722	D	1	P;D;P	0.65815	0.939;0.995;0.939	P;P;P	0.57620	0.615;0.824;0.707	D	0.87479	0.2419	10	0.87932	D	0	-44.469	13.397	0.60858	0.0756:0.0:0.9244:0.0	.	696;721;697	B7ZM44;Q5SR50;O00329	.;.;PK3CD_HUMAN	Y	721;697;721;721	ENSP00000446444:D721Y;ENSP00000366563:D697Y;ENSP00000354410:D721Y	ENSP00000353766:D721Y	D	+	1	0	PIK3CD	9704653	1.000000	0.71417	0.063000	0.19743	0.112000	0.19704	7.859000	0.86982	1.275000	0.44379	0.561000	0.74099	GAC		0.637	PIK3CD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004235.1	NM_005026		T	9782066	G	T	9782066	3	4	590	1	0	0	0	0	1	0	0	0	11922	1290	45	4	2147	4	PIK3CD	1	9782066	Missense_Mutation	SNP	G	TCGA-G7-6793-01A-11D-1961-08		9782066	239468555	1	35123										
TAS1R2	80834	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	19186021	19186021	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	taaggtgaacaatgcccttcAtgttggcatggagggagaag	14	6	1	2			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr1:19186021A>T	ENST00000375371.3	-	1	155	c.134T>A	c.(133-135)aTg>aAg	p.M45K	RP13-279N23.2_ENST00000494072.3_3'UTR	NM_152232.2	NP_689418.2	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2	45					detection of chemical stimulus involved in sensory perception of sweet taste (GO:0001582)|G-protein coupled receptor signaling pathway (GO:0007186)|positive regulation of cytokinesis (GO:0032467)|sensory perception of sweet taste (GO:0050916)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	protein heterodimerization activity (GO:0046982)|taste receptor activity (GO:0008527)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(4)|large_intestine(10)|lung(14)|ovary(1)|pancreas(3)|prostate(1)|skin(3)|stomach(1)	45		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;3.56e-05)|Kidney(64;0.000177)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	Aspartame(DB00168)	AATGCCCTTCATGTTGGCATG	0.592																																																0													118	109	112					1																	19186021		2203	4300	6503	SO:0001583	missense	80834				CCDS187.1	1p36.13	2012-08-22	2003-03-07		ENSG00000179002	ENSG00000179002		"Taste receptors / Type 1", "GPCR / Unclassified : Taste receptors"	14905	protein-coding gene	gene with protein product		606226	"G protein-coupled receptor 71"	GPR71			Standard	NM_152232		Approved	T1R2, TR2	uc001bba.1	Q8TE23	OTTHUMG00000002442	ENST00000375371.3:c.134T>A	1.37:g.19186021A>T	ENSP00000364520:p.Met45Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TZ19	Missense_Mutation	SNP	ENST00000375371.3	37	CCDS187.1	.	.	.	.	.	.	.	.	.	.	A	8.739	0.918447	0.17982	.	.	ENSG00000179002	ENST00000375371	D	0.88046	-2.33	4.47	2.07	0.26955	.	0.544004	0.13698	U	0.369069	T	0.74627	0.3741	N	0.22421	0.69	0.09310	N	0.999998	B	0.27068	0.167	B	0.18871	0.023	T	0.63093	-0.6714	10	0.52906	T	0.07	.	4.5956	0.12327	0.699:0.196:0.1051:0.0	.	45	Q8TE23	TS1R2_HUMAN	K	45	ENSP00000364520:M45K	ENSP00000364520:M45K	M	-	2	0	TAS1R2	19058608	0.239000	0.23836	0.384000	0.26145	0.776000	0.43924	1.724000	0.38064	0.201000	0.20466	0.260000	0.18958	ATG		0.592	TAS1R2-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000006953.1			T	19186021	A	T	19186021	3	4	590	1	0	0	0	0	1	0	0	0	15575	217	8	5	2409	5	TAS1R2	1	19186021	Missense_Mutation	SNP	A	TCGA-G7-6793-01A-11D-1961-08	9403955	19186021	230064600	2	35124										
AHDC1	27245	ucsc.edu	37	chr1	27875553	27875553	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	gtggcaggcaggggcccccgGtaggcggtggggcatagccg	21	11	0	0			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr1:27875553G>A	ENST00000247087.5	-	5	3670	c.3074C>T	c.(3073-3075)aCc>aTc	p.T1025I	AHDC1_ENST00000374011.2_Missense_Mutation_p.T1025I			Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	1025							DNA binding (GO:0003677)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(3)|large_intestine(8)|lung(20)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	42		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;8.48e-25)|Colorectal(126;9.17e-09)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00192)|BRCA - Breast invasive adenocarcinoma(304;0.00259)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0291)		GGGGCCCCCGGTAGGCGGTGG	0.682																																																0													15	18	17					1																	27875553		2199	4295	6494	SO:0001583	missense	27245			AK125431	CCDS30652.1	1p36.13	2008-02-05			ENSG00000126705	ENSG00000126705			25230	protein-coding gene	gene with protein product		615790				8619474, 9110174	Standard	XM_005245848		Approved	DJ159A19.3, RP1-159A19.1	uc009vsy.3	Q5TGY3	OTTHUMG00000003398	ENST00000247087.5:c.3074C>T	1.37:g.27875553G>A	ENSP00000247087:p.Thr1025Ile	Somatic		WXS	Illumina HiSeq		Q5TGY4|Q6PJK1|Q6ZUQ6|Q99769|Q9NUF5	Missense_Mutation	SNP	ENST00000247087.5	37	CCDS30652.1	.	.	.	.	.	.	.	.	.	.	G	15.38	2.817319	0.50633	.	.	ENSG00000126705	ENST00000247087;ENST00000374011	T;T	0.49720	0.77;0.77	5.79	5.79	0.91817	.	0.215591	0.30510	N	0.009468	T	0.41534	0.1163	N	0.14661	0.345	0.38962	D	0.958562	D	0.53745	0.962	P	0.46825	0.528	T	0.49986	-0.8880	10	0.87932	D	0	-10.3301	18.7978	0.92003	0.0:0.0:1.0:0.0	.	1025	Q5TGY3	AHDC1_HUMAN	I	1025	ENSP00000247087:T1025I;ENSP00000363123:T1025I	ENSP00000247087:T1025I	T	-	2	0	AHDC1	27748140	0.932000	0.31603	0.942000	0.38095	0.996000	0.88848	2.672000	0.46850	2.735000	0.93741	0.655000	0.94253	ACC		0.682	AHDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000009523.3			A	27875553	G	A	27875553	3	1	590	1	0	0	0	0	1	0	0	0	412	1261	44	2	1741	2	AHDC1	1	27875553	Missense_Mutation	SNP	G	TCGA-G7-6793-01A-11D-1961-08	8689532	27875553	221375068	3	35125										
LRRC8C	84230	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	90180336	90180336	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	gaaacttaaaactctgaagaTtggaaaaaacagcctatctg	7	7	2	2			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr1:90180336T>C	ENST00000370454.4	+	3	2462	c.2207T>C	c.(2206-2208)aTt>aCt	p.I736T	RP11-302M6.4_ENST00000370453.5_Intron|LRRC8C_ENST00000479252.1_Intron	NM_032270.4	NP_115646	Q8TDW0	LRC8C_HUMAN	leucine rich repeat containing 8 family, member C	736					fat cell differentiation (GO:0045444)|ion transport (GO:0006811)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)				breast(1)|central_nervous_system(1)|large_intestine(5)|lung(10)|ovary(3)|pancreas(1)|prostate(1)|skin(5)|urinary_tract(1)	28		all_lung(203;0.126)		all cancers(265;0.00756)|Epithelial(280;0.0313)		ACTCTGAAGATTGGAAAAAAC	0.353																																																0													62	64	64					1																	90180336		2203	4300	6503	SO:0001583	missense	84230				CCDS725.1	1p22.2	2011-02-10			ENSG00000171488	ENSG00000171488			25075	protein-coding gene	gene with protein product	"hypothetical protein AD158"	612889				11230166	Standard	NM_032270		Approved	AD158	uc001dnl.4	Q8TDW0	OTTHUMG00000010305	ENST00000370454.4:c.2207T>C	1.37:g.90180336T>C	ENSP00000359483:p.Ile736Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXS9|Q29RV6|Q9H075	Missense_Mutation	SNP	ENST00000370454.4	37	CCDS725.1	.	.	.	.	.	.	.	.	.	.	T	12.90	2.077889	0.36662	.	.	ENSG00000171488	ENST00000370454	T	0.27402	1.67	5.87	5.87	0.94306	.	0.047961	0.85682	D	0.000000	T	0.25791	0.0628	M	0.69358	2.11	0.53688	D	0.99997	B	0.21821	0.061	B	0.27715	0.082	T	0.08953	-1.0697	10	0.87932	D	0	.	16.5764	0.84681	0.0:0.0:0.0:1.0	.	736	Q8TDW0	LRC8C_HUMAN	T	736	ENSP00000359483:I736T	ENSP00000359483:I736T	I	+	2	0	LRRC8C	89952924	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.655000	0.83696	2.371000	0.80710	0.533000	0.62120	ATT		0.353	LRRC8C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000028435.2	NM_032270		C	90180336	T	C	90180336	3	2	590	1	0	0	0	0	1	0	0	0	9030	1493	52	3	2213	3	LRRC8C	1	90180336	Missense_Mutation	SNP	T	TCGA-G7-6793-01A-11D-1961-08	62304783	90180336	159070285	4	35126										
FCRL3	115352	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	157667660	157667660	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	ttcccctgacatctcagaatGacattgtctccttcaaagac	5	13	3	4			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr1:157667660G>A	ENST00000368184.3	-	5	639	c.348C>T	c.(346-348)gtC>gtT	p.V116V	RP11-367J7.3_ENST00000453692.1_RNA|FCRL3_ENST00000473231.1_5'UTR|FCRL3_ENST00000368186.5_Silent_p.V116V	NM_052939.3	NP_443171.2	Q96P31	FCRL3_HUMAN	Fc receptor-like 3	116	Ig-like C2-type 2.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				autonomic_ganglia(1)|breast(3)|endometrium(7)|kidney(1)|large_intestine(13)|lung(31)|ovary(3)|prostate(3)|skin(5)|upper_aerodigestive_tract(2)	69	all_hematologic(112;0.0378)					ATCTCAGAATGACATTGTCTC	0.423																																																0													104	96	99					1																	157667660		2203	4300	6503	SO:0001819	synonymous_variant	115352			AF459027	CCDS1167.1	1q21-q22	2013-01-11			ENSG00000160856	ENSG00000160856		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	18506	protein-coding gene	gene with protein product		606510				11493702, 12014205	Standard	XR_241065		Approved	FCRH3, IRTA3, IFGP3, SPAP2a, SPAP2, SPAP2b, SPAP2c, SPAP2d, SPAP2e, CD307c	uc001frb.3	Q96P31	OTTHUMG00000019400	ENST00000368184.3:c.348C>T	1.37:g.157667660G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0N0M4|A8MTH7|D3DVD2|Q5VXZ8|Q8N6S2|Q96LA4|Q96P27|Q96P28|Q96P29|Q96P30	Silent	SNP	ENST00000368184.3	37	CCDS1167.1																																																																																				0.423	FCRL3-006	NOVEL	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051419.2	NM_052939		A	157667660	G	A	157667660	2	1	590	1	0	0	0	0	0	0	0	1	5803	1277	45	2		2	FCRL3	1	157667660	Silent	SNP	G	TCGA-G7-6793-01A-11D-1961-08	67487324	157667660	91582961	5	35127										
IER5	51278	hgsc.bcm.edu	37	chr1	181058618	181058618	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	gtacaccggccgcgacccccCgcgctgcctgctgctgcgcg	13	20	0	0	rs1416829	byFrequency	TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr1:181058618C>G	ENST00000367577.4	+	1	981	c.580C>G	c.(580-582)Cgc>Ggc	p.R194G	RP11-309G3.3_ENST00000606938.1_lincRNA	NM_016545.4	NP_057629.2	Q5VY09	IER5_HUMAN	immediate early response 5	194			R -> G (in dbSNP:rs1416829). {ECO:0000269|PubMed:15498874}.							lung(1)|ovary(1)|pancreas(1)|urinary_tract(1)	4						CGCGACCCCCCGCGCTGCCTG	0.811													C|||	2222	0.44369	0.2489	0.4452	5008	,	,		5637	0.6012		0.3777	False		,,,				2504	0.6115															0													1	1	1					1																	181058618		352	834	1186	SO:0001583	missense	51278			BC000128	CCDS1343.1	1q25.3	2008-02-05			ENSG00000162783	ENSG00000162783			5393	protein-coding gene	gene with protein product		607177				10049588, 11102586	Standard	NM_016545		Approved		uc001got.4	Q5VY09	OTTHUMG00000035178	ENST00000367577.4:c.580C>G	1.37:g.181058618C>G	ENSP00000356549:p.Arg194Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBV3|Q8WY68|Q9NY49|Q9NZP9	Missense_Mutation	SNP	ENST00000367577.4	37	CCDS1343.1	948	0.4340659340659341	135	0.27439024390243905	158	0.43646408839779005	360	0.6293706293706294	295	0.3891820580474934	C	4.540	0.100211	0.08731	.	.	ENSG00000162783	ENST00000367577	T	0.11821	2.74	3.33	-0.106	0.13596	.	1.560750	0.05354	N	0.532505	T	0.00012	0.0000	N	0.02011	-0.69	0.80722	P	0.0	B	0.18610	0.029	B	0.15484	0.013	T	0.38972	-0.9636	9	0.34782	T	0.22	.	8.3021	0.32021	0.0:0.4746:0.4312:0.0942	rs1416829;rs3747953	194	Q5VY09	IER5_HUMAN	G	194	ENSP00000356549:R194G	ENSP00000356549:R194G	R	+	1	0	IER5	179325241	0.001000	0.12720	0.001000	0.08648	0.005000	0.04900	-0.019000	0.12546	0.004000	0.14682	-1.520000	0.00934	CGC		0.811	IER5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085142.1	NM_016545		G	181058618	C	G	181058618	3	3	590	1	0	0	0	0	1	0	0	0	7515	652	23	4	582	4	IER5	1	181058618	Missense_Mutation	SNP	C	TCGA-G7-6793-01A-11D-1961-08	23390958	181058618	68192003	6	35128										
PRELP	5549	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	203455866	203455866	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	cccagatttgccccaacgacCtagtggcgttccatgacttc	8	15	0	2			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr1:203455866C>A	ENST00000343110.2	+	3	1133	c.1006C>A	c.(1006-1008)Cta>Ata	p.L336I		NM_002725.3|NM_201348.1	NP_002716.1|NP_958505.1	P51888	PRELP_HUMAN	proline/arginine-rich end leucine-rich repeat protein	336					carbohydrate metabolic process (GO:0005975)|cell aging (GO:0007569)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate catabolic process (GO:0042340)|keratan sulfate metabolic process (GO:0042339)|skeletal system development (GO:0001501)|small molecule metabolic process (GO:0044281)	extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|lysosomal lumen (GO:0043202)|proteinaceous extracellular matrix (GO:0005578)|vesicle (GO:0031982)	extracellular matrix structural constituent (GO:0005201)|heparin binding (GO:0008201)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(7)|lung(15)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	36			BRCA - Breast invasive adenocarcinoma(75;0.109)			CCCCAACGACCTAGTGGCGTT	0.567																																																0													110	100	103					1																	203455866		2203	4300	6503	SO:0001583	missense	5549			BC032498	CCDS1438.1	1q32	2008-02-05	2005-07-24		ENSG00000188783	ENSG00000188783		"Proteoglycans / Extracellular Matrix : Small leucine-rich repeats"	9357	protein-coding gene	gene with protein product	"prolargin proteoglycan"	601914	"proline arginine-rich end leucine-rich repeat protein"				Standard	NM_002725		Approved	SLRR2A, prolargin	uc001gzt.3	P51888	OTTHUMG00000035911	ENST00000343110.2:c.1006C>A	1.37:g.203455866C>A	ENSP00000343924:p.Leu336Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FG38	Missense_Mutation	SNP	ENST00000343110.2	37	CCDS1438.1	.	.	.	.	.	.	.	.	.	.	C	1.678	-0.507353	0.04231	.	.	ENSG00000188783	ENST00000343110	T	0.49139	0.79	5.45	1.38	0.22167	.	0.097389	0.42964	N	0.000628	T	0.26557	0.0649	N	0.24115	0.695	0.19775	N	0.999957	B	0.06786	0.001	B	0.12156	0.007	T	0.15607	-1.0431	10	0.18710	T	0.47	-7.7426	5.6324	0.17518	0.2531:0.5559:0.1222:0.0687	.	336	P51888	PRELP_HUMAN	I	336	ENSP00000343924:L336I	ENSP00000343924:L336I	L	+	1	2	PRELP	201722489	0.003000	0.15002	0.003000	0.11579	0.246000	0.25737	-0.032000	0.12266	0.005000	0.14708	-0.300000	0.09419	CTA		0.567	PRELP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087474.1	NM_002725		A	203455866	C	A	203455866	3	1	590	1	0	0	0	0	1	0	0	0	12483	680	24	4	1012	4	PRELP	1	203455866	Missense_Mutation	SNP	C	TCGA-G7-6793-01A-11D-1961-08	22397248	203455866	45794755	7	35129										
CKAP2L	150468	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	113513875	113513875	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	tctgaggtatacaaacttggCtggacttctgatcttgcttg	10	8	3	2			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr2:113513875C>T	ENST00000302450.6	-	4	1151	c.1073G>A	c.(1072-1074)aGc>aAc	p.S358N	CKAP2L_ENST00000541405.1_Missense_Mutation_p.S193N|CKAP2L_ENST00000481732.1_5'Flank	NM_152515.3	NP_689728.3	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	358						centrosome (GO:0005813)|cytoplasm (GO:0005737)				breast(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(4)|lung(15)|skin(1)|upper_aerodigestive_tract(1)	28						ACAAACTTGGCTGGACTTCTG	0.428																																																0													149	144	145					2																	113513875		2203	4300	6503	SO:0001583	missense	150468			AL832036	CCDS2100.1	2q13	2008-02-05			ENSG00000169607	ENSG00000169607			26877	protein-coding gene	gene with protein product						12477932	Standard	NM_152515		Approved	FLJ40629	uc002tie.2	Q8IYA6	OTTHUMG00000131313	ENST00000302450.6:c.1073G>A	2.37:g.113513875C>T	ENSP00000305204:p.Ser358Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K915|B4DZE3|B7ZAC6|F5H0M5|Q53QF8|Q53RS8|Q8N1J8	Missense_Mutation	SNP	ENST00000302450.6	37	CCDS2100.1	.	.	.	.	.	.	.	.	.	.	c	9.225	1.034367	0.19590	.	.	ENSG00000169607	ENST00000541405;ENST00000302450	T;T	0.11821	2.74;3.39	4.69	-4.0	0.04057	.	0.732493	0.12806	N	0.437566	T	0.04227	0.0117	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.34925	-0.9809	10	0.24483	T	0.36	-1.0892	0.994	0.01462	0.2342:0.3464:0.1852:0.2342	.	358	Q8IYA6	CKP2L_HUMAN	N	193;358	ENSP00000438763:S193N;ENSP00000305204:S358N	ENSP00000305204:S358N	S	-	2	0	CKAP2L	113230346	0.000000	0.05858	0.000000	0.03702	0.005000	0.04900	-0.718000	0.04980	-0.903000	0.03881	-0.911000	0.02809	AGC		0.428	CKAP2L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254082.2	NM_152515		T	113513875	C	T	113513875	3	4	590	1	0	0	0	0	1	0	0	0	3445	797	28	2	1188	2	CKAP2L	2	113513875	Missense_Mutation	SNP	C	TCGA-G7-6793-01A-11D-1961-08		113513875	129685498	8	35130										
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	179425266	179425266	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	tctaggggctcaccaacaccAtatttattaacaccagttac	5	12	2	0			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr2:179425266A>G	ENST00000591111.1	-	276	80894	c.80670T>C	c.(80668-80670)taT>taC	p.Y26890Y	TTN-AS1_ENST00000592689.1_RNA|TTN_ENST00000342175.6_Silent_p.Y19658Y|TTN-AS1_ENST00000591332.1_RNA|TTN-AS1_ENST00000590807.1_RNA|TTN-AS1_ENST00000586831.1_RNA|TTN-AS1_ENST00000592630.1_RNA|TTN-AS1_ENST00000590932.1_RNA|TTN-AS1_ENST00000586707.1_RNA|TTN-AS1_ENST00000438095.1_RNA|TTN_ENST00000359218.5_Silent_p.Y19591Y|TTN_ENST00000460472.2_Silent_p.Y19466Y|TTN-AS1_ENST00000592600.1_RNA|TTN-AS1_ENST00000456053.1_RNA|TTN_ENST00000589042.1_Silent_p.Y28531Y|TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000419746.1_RNA|TTN-AS1_ENST00000592750.1_RNA|TTN_ENST00000342992.6_Silent_p.Y25963Y|TTN-AS1_ENST00000586452.1_RNA			Q8WZ42	TITIN_HUMAN	titin	26890	Fibronectin type-III 95. {ECO:0000255|PROSITE-ProRule:PRU00316}.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CACCAACACCATATTTATTAA	0.388																																																0													57	56	56					2																	179425266		1865	4100	5965	SO:0001819	synonymous_variant	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.80670T>C	2.37:g.179425266A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Silent	SNP	ENST00000591111.1	37																																																																																					0.388	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		G	179425266	A	G	179425266	2	3	590	1	0	0	0	0	0	0	0	1	16747	224	8	3		3	TTN	2	179425266	Silent	SNP	A	TCGA-G7-6793-01A-11D-1961-08	65911391	179425266	63774107	9	35131										
ITGA4	3676	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	182399601	182399601	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	ttatttcaccatagtgattaTttcaagtagcttgctacttg	6	7	2	1			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr2:182399601T>C	ENST00000397033.2	+	27	3372	c.2942T>C	c.(2941-2943)aTt>aCt	p.I981T		NM_000885.4	NP_000876.3	P13612	ITA4_HUMAN	integrin, alpha 4 (antigen CD49D, alpha 4 subunit of VLA-4 receptor)	981					B cell differentiation (GO:0030183)|blood coagulation (GO:0007596)|blood vessel remodeling (GO:0001974)|cell-matrix adhesion (GO:0007160)|cell-matrix adhesion involved in ameboidal cell migration (GO:0003366)|chorio-allantoic fusion (GO:0060710)|endodermal cell differentiation (GO:0035987)|extracellular matrix organization (GO:0030198)|face development (GO:0060324)|heart development (GO:0007507)|heterophilic cell-cell adhesion (GO:0007157)|heterotypic cell-cell adhesion (GO:0034113)|integrin-mediated signaling pathway (GO:0007229)|leukocyte cell-cell adhesion (GO:0007159)|leukocyte migration (GO:0050900)|leukocyte tethering or rolling (GO:0050901)|negative regulation of protein homodimerization activity (GO:0090074)|receptor clustering (GO:0043113)|regulation of immune response (GO:0050776)|substrate adhesion-dependent cell spreading (GO:0034446)|T cell migration (GO:0072678)	cell surface (GO:0009986)|cell-cell junction (GO:0005911)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integrin alpha4-beta7 complex (GO:0034669)|membrane (GO:0016020)|plasma membrane (GO:0005886)	cell adhesion molecule binding (GO:0050839)|metal ion binding (GO:0046872)			breast(3)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(9)|lung(27)|ovary(3)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	58			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)|Tinzaparin(DB06822)	ATAGTGATTATTTCAAGTAGC	0.313																																																0													148	140	143					2																	182399601		1850	4088	5938	SO:0001583	missense	3676				CCDS42788.1	2q31-q32	2010-03-23			ENSG00000115232	ENSG00000115232		"CD molecules", "Integrins"	6140	protein-coding gene	gene with protein product		192975		CD49D		1537388	Standard	NM_000885		Approved	CD49d	uc002unu.3	P13612	OTTHUMG00000154212	ENST00000397033.2:c.2942T>C	2.37:g.182399601T>C	ENSP00000380227:p.Ile981Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPG4|Q7Z4L6	Missense_Mutation	SNP	ENST00000397033.2	37	CCDS42788.1	.	.	.	.	.	.	.	.	.	.	T	20.7	4.035378	0.75617	.	.	ENSG00000115232	ENST00000397033	T	0.74737	-0.87	6.17	6.17	0.99709	.	0.088153	0.85682	D	0.000000	T	0.78735	0.4330	M	0.78049	2.395	0.58432	D	0.999995	P	0.52577	0.954	P	0.45310	0.476	T	0.82464	-0.0444	10	0.87932	D	0	.	15.3933	0.74767	0.0:0.0:0.0:1.0	.	981	P13612	ITA4_HUMAN	T	981	ENSP00000380227:I981T	ENSP00000380227:I981T	I	+	2	0	ITGA4	182107846	1.000000	0.71417	0.171000	0.22900	0.989000	0.77384	5.141000	0.64814	2.371000	0.80710	0.533000	0.62120	ATT		0.313	ITGA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000334427.1			C	182399601	T	C	182399601	3	2	590	1	0	0	0	0	1	0	0	0	7885	1493	52	3	3048	3	ITGA4	2	182399601	Missense_Mutation	SNP	T	TCGA-G7-6793-01A-11D-1961-08	2974335	182399601	60799772	10	35132										
NBEAL1	65065	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	204058575	204058575	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	tgcagaagccaaccaaaataGacacttcaaccctaaacctg	5	13	1	2			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr2:204058575G>T	ENST00000449802.1	+	46	7225	c.6892G>T	c.(6892-6894)Gac>Tac	p.D2298Y		NM_001114132.1	NP_001107604.1	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1	2298										NS(1)|breast(3)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(8)|liver(1)|lung(8)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	37						AACCAAAATAGACACTTCAAC	0.343																																																0													157	157	157					2																	204058575		1870	4098	5968	SO:0001583	missense	65065			AY172970	CCDS46495.1	2q33	2013-01-10			ENSG00000144426	ENSG00000144426		"WD repeat domain containing"	20681	protein-coding gene	gene with protein product		609816	"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 17", "amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 16"	ALS2CR17, ALS2CR16		15193433	Standard	NM_001114132		Approved	MGC164581	uc002uzt.3	Q6ZS30	OTTHUMG00000154129	ENST00000449802.1:c.6892G>T	2.37:g.204058575G>T	ENSP00000399903:p.Asp2298Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHD5|Q6Y876|Q6ZP36|Q6ZQY5|Q8N8R4|Q96Q30|Q96Q31	Missense_Mutation	SNP	ENST00000449802.1	37	CCDS46495.1	.	.	.	.	.	.	.	.	.	.	G	17.83	3.486179	0.63962	.	.	ENSG00000144426	ENST00000449802;ENST00000414576	T;T	0.56776	0.44;1.1	5.43	5.43	0.79202	.	0.063926	0.64402	U	0.000013	T	0.66684	0.2814	M	0.77103	2.36	0.58432	D	0.999999	P	0.49862	0.929	P	0.51487	0.671	T	0.67385	-0.5684	10	0.39692	T	0.17	.	18.8378	0.92169	0.0:0.0:1.0:0.0	.	2298	Q6ZS30	NBEL1_HUMAN	Y	2298;313	ENSP00000399903:D2298Y;ENSP00000388466:D313Y	ENSP00000388466:D313Y	D	+	1	0	NBEAL1	203766820	1.000000	0.71417	0.973000	0.42090	0.900000	0.52787	9.028000	0.93712	2.550000	0.86006	0.650000	0.86243	GAC		0.343	NBEAL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333982.4			T	204058575	G	T	204058575	3	4	590	1	0	0	0	0	1	0	0	0	10195	942	33	4	7070	4	NBEAL1	2	204058575	Missense_Mutation	SNP	G	TCGA-G7-6793-01A-11D-1961-08	21658974	204058575	39140798	11	35133										
SETD5	55209	hgsc.bcm.edu	37	chr3	9495547	9495547	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	ttctagtatctgcaaagacaAtgcaggtacgtatctaaaac	7	8	3	1			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr3:9495547A>G	ENST00000406341.1	+	16	2661	c.2471A>G	c.(2470-2472)aAt>aGt	p.N824S	SETD5_ENST00000402198.1_Missense_Mutation_p.N824S|SETD5_ENST00000488236.1_3'UTR|SETD5_ENST00000302463.6_Missense_Mutation_p.N726S|SETD5_ENST00000402466.1_Missense_Mutation_p.N726S|SETD5_ENST00000407969.1_Missense_Mutation_p.N843S			Q9C0A6	SETD5_HUMAN	SET domain containing 5	824										NS(2)|breast(3)|central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(10)|lung(11)|ovary(3)|prostate(7)|upper_aerodigestive_tract(1)|urinary_tract(1)	47	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		TGCAAAGACAATGCAGGTACG	0.353																																																0													86	80	82					3																	9495547		1861	4110	5971	SO:0001583	missense	55209			BC020956	CCDS46741.1, CCDS74892.1	3p25.3	2011-12-13			ENSG00000168137	ENSG00000168137			25566	protein-coding gene	gene with protein product		615743				11214970	Standard	XM_005265299		Approved	FLJ10707	uc003brt.3	Q9C0A6	OTTHUMG00000150491	ENST00000406341.1:c.2471A>G	3.37:g.9495547A>G	ENSP00000383939:p.Asn824Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6AI17|Q8WUB6|Q9H3X4|Q9H6V7|Q9H7S3|Q9NVI9	Missense_Mutation	SNP	ENST00000406341.1	37	CCDS46741.1	.	.	.	.	.	.	.	.	.	.	A	0.331	-0.956084	0.02267	.	.	ENSG00000168137	ENST00000402198;ENST00000402466;ENST00000406341;ENST00000407969;ENST00000302463	D;D;D;D;D	0.90504	-2.37;-2.68;-2.37;-2.37;-2.68	5.4	-1.65	0.08291	.	0.396214	0.29015	N	0.013418	T	0.68879	0.3049	N	0.03608	-0.345	0.23581	N	0.997369	B;B;B;B	0.14438	0.01;0.008;0.0;0.002	B;B;B;B	0.15052	0.012;0.009;0.0;0.003	T	0.62416	-0.6859	10	0.02654	T	1	-4.8279	5.9999	0.19515	0.3801:0.2636:0.3563:0.0	.	493;726;824;843	B3KXG4;Q9C0A6-3;Q9C0A6;E7EWN3	.;.;SETD5_HUMAN;.	S	824;726;824;843;726	ENSP00000385852:N824S;ENSP00000384429:N726S;ENSP00000383939:N824S;ENSP00000384114:N843S;ENSP00000302028:N726S	ENSP00000302028:N726S	N	+	2	0	SETD5	9470547	0.998000	0.40836	0.970000	0.41538	0.385000	0.30292	0.664000	0.25068	-0.105000	0.12132	0.533000	0.62120	AAT		0.353	SETD5-001	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318425.1	XM_371614		G	9495547	A	G	9495547	3	3	590	1	0	0	0	0	1	0	0	0	14147	101	4	3	2529	3	SETD5	3	9495547	Missense_Mutation	SNP	A	TCGA-G7-6793-01A-11D-1961-08		9495547	188526883	12	35134										
MTMR14	64419	ucsc.edu	37	chr3	9691415	9691415	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	ccaaggatggcagcgggaccGgcggctctaaggtgagattg	17	9	1	1			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr3:9691415G>A	ENST00000296003.4	+	1	270	c.148G>A	c.(148-150)Ggc>Agc	p.G50S	MTMR14_ENST00000351233.5_Missense_Mutation_p.G50S|MTMR14_ENST00000353332.5_Missense_Mutation_p.G50S|MTMR14_ENST00000420925.1_Missense_Mutation_p.G50S	NM_001077525.2	NP_001070993.1	Q8NCE2	MTMRE_HUMAN	myotubularin related protein 14	50					phosphatidylinositol biosynthetic process (GO:0006661)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|perinuclear region of cytoplasm (GO:0048471)|ruffle (GO:0001726)	phosphatidylinositol-3-phosphatase activity (GO:0004438)|protein tyrosine phosphatase activity (GO:0004725)			breast(1)|endometrium(3)|kidney(2)|lung(10)|skin(3)|upper_aerodigestive_tract(2)	21	Medulloblastoma(99;0.227)					CAGCGGGACCGGCGGCTCTAA	0.617																																																0													13	16	15					3																	9691415		1951	4134	6085	SO:0001583	missense	64419			BC001674	CCDS43043.1, CCDS43044.1, CCDS43045.1	3p26	2011-06-09	2006-12-18	2006-12-18	ENSG00000163719	ENSG00000163719		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	26190	protein-coding gene	gene with protein product	"egg-derived tyrosine phosphatase homolog (Drosophila)"	611089	"chromosome 3 open reading frame 29"	C3orf29		15186772	Standard	NM_022485		Approved	FLJ22405, FLJ90311, hJumpy, hEDTP	uc003brz.3	Q8NCE2	OTTHUMG00000155111	ENST00000296003.4:c.148G>A	3.37:g.9691415G>A	ENSP00000296003:p.Gly50Ser	Somatic		WXS	Illumina HiSeq		Q0JTH5|Q0JU83|Q6PIZ4|Q6QE21|Q86VK9|Q8IYK1|Q8TCM7|Q9H6C0	Missense_Mutation	SNP	ENST00000296003.4	37	CCDS43043.1	.	.	.	.	.	.	.	.	.	.	G	8.957	0.969656	0.18659	.	.	ENSG00000163719	ENST00000353332;ENST00000420925;ENST00000296003;ENST00000351233;ENST00000419048	T;D;T;T	0.89939	1.62;-2.59;1.62;1.62	5.3	1.8	0.24995	.	0.376195	0.26099	N	0.026353	T	0.77294	0.4109	L	0.29908	0.895	0.09310	N	1	B;B;B;B	0.12630	0.003;0.006;0.004;0.001	B;B;B;B	0.11329	0.002;0.003;0.006;0.001	T	0.57015	-0.7883	10	0.06625	T	0.88	-10.6331	7.7854	0.29089	0.295:0.0:0.705:0.0	.	50;50;50;50	C9JSR1;Q8NCE2-3;Q8NCE2-2;Q8NCE2	.;.;.;MTMRE_HUMAN	S	50	ENSP00000323462:G50S;ENSP00000401993:G50S;ENSP00000296003:G50S;ENSP00000334070:G50S	ENSP00000296003:G50S	G	+	1	0	MTMR14	9666415	0.756000	0.28383	0.024000	0.17045	0.002000	0.02628	1.655000	0.37345	0.029000	0.15352	-0.142000	0.14014	GGC		0.617	MTMR14-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000338435.1	NM_022485		A	9691415	G	A	9691415	3	1	590	1	0	0	0	0	1	0	0	0	9949	1116	39	1	150	1	MTMR14	3	9691415	Missense_Mutation	SNP	G	TCGA-G7-6793-01A-11D-1961-08	195868	9691415	188331015	13	35135										
SLC9A10	285335	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	111918287	111918287	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	ctttgttttcacagtgacagCaatttctgggtgatcatact	8	8	3	2			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr3:111918287C>T	ENST00000305815.5	-	20	2656	c.2404G>A	c.(2404-2406)Gct>Act	p.A802T	SLC9C1_ENST00000487372.1_Missense_Mutation_p.A754T	NM_183061.1	NP_898884.1	Q4G0N8	SL9C1_HUMAN	solute carrier family 9, subfamily C (Na+-transporting carboxylic acid decarboxylase), member 1	802					cell differentiation (GO:0030154)|ion transmembrane transport (GO:0034220)|multicellular organismal development (GO:0007275)|sodium ion transport (GO:0006814)|sperm motility (GO:0030317)|spermatogenesis (GO:0007283)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|motile cilium (GO:0031514)|plasma membrane (GO:0005886)	solute:proton antiporter activity (GO:0015299)										ACAGTGACAGCAATTTCTGGG	0.279																																																0													73	73	73					3																	111918287		2201	4297	6498	SO:0001583	missense	285335			AK128084	CCDS33817.1	3q13	2013-05-22	2012-03-22	2012-03-22	ENSG00000172139	ENSG00000172139		"Solute carriers"	31401	protein-coding gene	gene with protein product	"sperm-NHE"	612738	"solute carrier family 9, isoform 10", "solute carrier family 9, member 10"	SLC9A10		12783626	Standard	NM_183061		Approved	NHE	uc003dyu.3	Q4G0N8	OTTHUMG00000159245	ENST00000305815.5:c.2404G>A	3.37:g.111918287C>T	ENSP00000306627:p.Ala802Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZRP4|Q7RTP2	Missense_Mutation	SNP	ENST00000305815.5	37	CCDS33817.1	.	.	.	.	.	.	.	.	.	.	C	15.97	2.990748	0.54041	.	.	ENSG00000172139	ENST00000305815;ENST00000487372	T;T	0.80480	-1.35;-1.38	5.55	2.81	0.32909	.	0.221517	0.31577	N	0.007408	T	0.81264	0.4786	M	0.65498	2.005	0.27008	N	0.96476	P;D	0.59767	0.855;0.986	P;P	0.52909	0.713;0.655	T	0.71745	-0.4500	10	0.33940	T	0.23	.	7.6697	0.28451	0.0:0.7356:0.0:0.2644	.	754;802	Q4G0N8-2;Q4G0N8	.;S9A10_HUMAN	T	802;754	ENSP00000306627:A802T;ENSP00000420688:A754T	ENSP00000306627:A802T	A	-	1	0	SLC9A10	113400977	0.902000	0.30710	0.686000	0.30086	0.473000	0.32948	1.823000	0.39062	0.310000	0.22990	-0.140000	0.14226	GCT		0.279	SLC9C1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354066.1	NM_183061		T	111918287	C	T	111918287	3	4	590	1	0	0	0	0	1	0	0	0	14723	710	25	2	1169	2	SLC9A10	3	111918287	Missense_Mutation	SNP	C	TCGA-G7-6793-01A-11D-1961-08	102226872	111918287	86104143	14	35136										
TMCC1	23023	hgsc.bcm.edu	37	chr3	129390056	129390057	+	Missense_Mutation	DNP	AG	AG	TT													0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	gatgctgccatcggtactggAggccactgcactggatgttt							TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr3:129390056_129390057AG>TT	ENST00000393238.3	-	4	967_968	c.627_628CT>AA	c.(625-630)gcCTcc>gcAAcc	p.S210T	TMCC1_ENST00000432054.2_5'UTR|TMCC1_ENST00000329333.5_Missense_Mutation_p.S31T|TMCC1_ENST00000426664.2_Missense_Mutation_p.S96T	NM_001017395.3	NP_001017395.2	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	210						endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)			PLXND1/TMCC1(4)	breast(1)|endometrium(3)|large_intestine(8)|lung(12)|skin(1)	25						TCGGTACTGGAGGCCACTGCAC	0.52																																																0																																										SO:0001583	missense	23023			AB018322	CCDS33855.1	3q21.3	2010-04-19	2005-07-13		ENSG00000172765	ENSG00000172765		"Transmembrane and coiled-coil domain containing"	29116	protein-coding gene	gene with protein product			"transmembrane and coiled-coil domains 1"			9872452	Standard	NR_033361		Approved	KIAA0779	uc021xdy.1	O94876	OTTHUMG00000159579	ENST00000393238.3:c.627_628delinsTT	3.37:g.129390056_129390057delinsTT	ENSP00000376930:p.Ser210Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5Y3|B4DE04|Q68E06|Q8IXM8	Missense_Mutation	DNP	ENST00000393238.3	37	CCDS33855.1																																																																																				0.52	TMCC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356418.2	NM_015008		TT	129390057	AG	TT	129390056	3	4	590	1	0	0	0	0	1	0	0	0	16004	304	11	5	1345	5	TMCC1	3	129390056	Missense_Mutation	DNP	AG	TCGA-G7-6793-01A-11D-1961-08	17471769	129390056	68632374	15	35137										
TSC22D2	9819	ucsc.edu	37	chr3	150128649	150128649	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	ggccctcacgccgtggtgccCggagttccaaacgtgcctgc	13	16	1	0			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr3:150128649C>T	ENST00000361875.3	+	1	2528	c.1512C>T	c.(1510-1512)ccC>ccT	p.P504P	TSC22D2_ENST00000361136.2_Silent_p.P504P	NM_014779.2	NP_055594.1	O75157	T22D2_HUMAN	TSC22 domain family, member 2	504					response to osmotic stress (GO:0006970)		sequence-specific DNA binding transcription factor activity (GO:0003700)			cervix(2)|endometrium(2)|kidney(1)|large_intestine(3)|lung(8)|ovary(1)|upper_aerodigestive_tract(1)	18			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			CCGTGGTGCCCGGAGTTCCAA	0.667																																																0													46	46	46					3																	150128649		2203	4300	6503	SO:0001819	synonymous_variant	9819			AB014569	CCDS3149.1	3q25.1	2005-03-01			ENSG00000196428	ENSG00000196428			29095	protein-coding gene	gene with protein product						9734811	Standard	NM_014779		Approved	KIAA0669, TILZ4a, TILZ4b, TILZ4c	uc003exv.3	O75157	OTTHUMG00000159744	ENST00000361875.3:c.1512C>T	3.37:g.150128649C>T		Somatic		WXS	Illumina HiSeq		D3DNI5|Q6PI50|Q9H2Z6|Q9H2Z7|Q9H2Z8	Silent	SNP	ENST00000361875.3	37	CCDS3149.1																																																																																				0.667	TSC22D2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000357123.2	NM_014779		T	150128649	C	T	150128649	2	4	590	1	0	0	0	0	0	0	0	1	16620	639	23	1		1	TSC22D2	3	150128649	Silent	SNP	C	TCGA-G7-6793-01A-11D-1961-08	20738593	150128649	47893781	16	35138										
N4BP2	55728	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	40103811	40103811	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	taggtgcagcagaaagtaaaAtaatggaaaaacgtcctgaa	10	5	0	2			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr4:40103811A>G	ENST00000261435.6	+	4	762	c.346A>G	c.(346-348)Ata>Gta	p.I116V		NM_018177.4	NP_060647.2	Q86UW6	N4BP2_HUMAN	NEDD4 binding protein 2	116					nucleic acid phosphodiester bond hydrolysis (GO:0090305)|phosphorylation (GO:0016310)	cytosol (GO:0005829)	ATP binding (GO:0005524)|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity (GO:0046404)|endonuclease activity (GO:0004519)			breast(4)|endometrium(3)|kidney(12)|large_intestine(7)|liver(2)|lung(22)|ovary(1)|pancreas(1)|prostate(2)|skin(5)|upper_aerodigestive_tract(1)	60						AGAAAGTAAAATAATGGAAAA	0.368																																																0													92	90	91					4																	40103811		2203	4300	6503	SO:0001583	missense	55728			AB037834	CCDS3457.1	4p14	2008-01-18			ENSG00000078177	ENSG00000078177			29851	protein-coding gene	gene with protein product	"BCL-3 binding protein"					10718198, 11717310	Standard	NM_018177		Approved	B3BP	uc003guy.4	Q86UW6	OTTHUMG00000128599	ENST00000261435.6:c.346A>G	4.37:g.40103811A>G	ENSP00000261435:p.Ile116Val	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVR3|Q9NVK2|Q9P2D4	Missense_Mutation	SNP	ENST00000261435.6	37	CCDS3457.1	.	.	.	.	.	.	.	.	.	.	A	0.424	-0.906575	0.02434	.	.	ENSG00000078177	ENST00000261435;ENST00000381804;ENST00000515550	T;T	0.79247	-1.25;-1.25	6.08	1.18	0.20946	.	0.531518	0.19034	N	0.124467	T	0.52451	0.1735	N	0.12746	0.255	0.09310	N	1	B;B	0.11235	0.004;0.002	B;B	0.14578	0.011;0.003	T	0.37291	-0.9712	10	0.02654	T	1	-6.4549	8.9819	0.35970	0.7223:0.0:0.2777:0.0	.	116;116	Q86UW6-2;Q86UW6	.;N4BP2_HUMAN	V	116;36;36	ENSP00000261435:I116V;ENSP00000422057:I36V	ENSP00000261435:I116V	I	+	1	0	N4BP2	39780206	0.971000	0.33674	0.507000	0.27676	0.442000	0.32017	0.597000	0.24059	0.543000	0.28864	0.482000	0.46254	ATA		0.368	N4BP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250458.2	NM_018177		G	40103811	A	G	40103811	3	3	590	1	0	0	0	0	1	0	0	0	10117	101	4	3	352	3	N4BP2	4	40103811	Missense_Mutation	SNP	A	TCGA-G7-6793-01A-11D-1961-08		40103811	151050465	17	35139										
CUTA	51596	hgsc.bcm.edu	37	chr6	33384696	33384696	+	Splice_Site	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	catccatctcaaagttctcaCcgaacaaaatctgtcaaagc	4	13	4	0	rs113648187		TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr6:33384696C>G	ENST00000488034.1	-	5	535		c.e5+1		CUTA_ENST00000607266.1_Splice_Site|CUTA_ENST00000494751.1_Splice_Site|CUTA_ENST00000374496.3_Splice_Site|CUTA_ENST00000488478.1_Intron|CUTA_ENST00000492510.1_5'Flank|CUTA_ENST00000374500.5_Splice_Site|CUTA_ENST00000440279.3_Splice_Site	NM_001014837.1|NM_001014838.1|NM_001014840.1|NM_015921.2	NP_001014837.1|NP_001014838.1|NP_001014840.1|NP_057005.1	O60888	CUTA_HUMAN	cutA divalent cation tolerance homolog (E. coli)						protein localization (GO:0008104)|response to metal ion (GO:0010038)	extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	enzyme binding (GO:0019899)		SLC22A1/CUTA(2)	kidney(1)|lung(3)|urinary_tract(1)	5						AAAGTTCTCACCGAACAAAAT	0.468																																																0								C	,,,,	0,4406		0,0,2203	133	138	137		,,,,	4.1	1	6	dbSNP_132	137	1,8599	1.2+/-3.3	0,1,4299	no	splice-5,splice-5,splice-5,splice-5,splice-5	CUTA	NM_001014433.2,NM_001014837.1,NM_001014838.1,NM_001014840.1,NM_015921.2	,,,,	0,1,6502	GG,GC,CC		0.0116,0.0,0.0077	,,,,	,,,,	33384696	1,13005	2203	4300	6503	SO:0001630	splice_region_variant	51596			AF106943	CCDS4779.1, CCDS34432.1, CCDS34433.1	6p21.32	2008-02-04	2006-02-15	2006-02-15	ENSG00000112514	ENSG00000112514			21101	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 82", "acetylcholinesterase-associated protein"	C6orf82, ACHAP			Standard	XM_006715108		Approved		uc003oen.1	O60888	OTTHUMG00000031254	ENST00000488034.1:c.413+1G>C	6.37:g.33384696C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A2AB26|A2BEL4|Q3B784|Q5JXM9|Q5SU05|Q9NYQ9	Splice_Site	SNP	ENST00000488034.1	37	CCDS34433.1	.	.	.	.	.	.	.	.	.	.	C	19.42	3.823920	0.71143	0.0	1.16E-4	ENSG00000112514	ENST00000374500;ENST00000440279;ENST00000488034;ENST00000494751;ENST00000374496	.	.	.	4.14	4.14	0.48551	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	11.8038	0.52143	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	CUTA	33492674	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	4.873000	0.63057	2.150000	0.67090	0.561000	0.74099	.		0.468	CUTA-008	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000076541.3	NM_015921	Intron	G	33384696	C	G	33384696	5	3	590	1	0	0	0	0	0	0	1	0	4064	521	18	4	133	4	CUTA	6	33384696	Splice_Site	SNP	C	TCGA-G7-6793-01A-11D-1961-08		33384696	137730371	18	35140										
MOXD1	26002	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	132649712	132649712	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	gtgcaccagactctcatggcCtctctgtatcactggctcaa	8	14	4	1	rs146988576	byFrequency	TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr6:132649712C>G	ENST00000367963.3	-	5	803	c.685G>C	c.(685-687)Ggc>Cgc	p.G229R	MOXD1_ENST00000336749.3_Missense_Mutation_p.G161R	NM_015529.2	NP_056344.2	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1	229						endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	copper ion binding (GO:0005507)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced ascorbate as one donor, and incorporation of one atom of oxygen (GO:0016715)			breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(15)|ovary(1)|prostate(3)|skin(1)	37	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		CTCTCATGGCCTCTCTGTATC	0.488																																																0													131	109	117					6																	132649712		2203	4300	6503	SO:0001583	missense	26002			AY007239	CCDS5152.2	6q23.2	2010-09-24			ENSG00000079931	ENSG00000079931			21063	protein-coding gene	gene with protein product		609000				9751809	Standard	XM_006715456		Approved	DKFZP564G202, MOX, dJ248E1.1	uc003qdf.3	Q6UVY6	OTTHUMG00000055853	ENST00000367963.3:c.685G>C	6.37:g.132649712C>G	ENSP00000356940:p.Gly229Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5THU6|Q8NC97|Q8WV49|Q9H4M6|Q9Y4U3	Missense_Mutation	SNP	ENST00000367963.3	37	CCDS5152.2	.	.	.	.	.	.	.	.	.	.	C	26.4	4.738753	0.89573	.	.	ENSG00000079931	ENST00000367963;ENST00000336749	T;T	0.29142	1.58;1.58	5.25	5.25	0.73442	Copper type II, ascorbate-dependent monooxygenase, N-terminal (2);PHM/PNGase F domain (1);	0.057506	0.64402	D	0.000002	T	0.51041	0.1651	M	0.77103	2.36	0.80722	D	1	D;D	0.76494	0.997;0.999	D;D	0.71870	0.973;0.975	T	0.51631	-0.8681	10	0.49607	T	0.09	-9.5898	19.1947	0.93682	0.0:1.0:0.0:0.0	.	229;161	Q6UVY6;Q6UVY6-2	MOXD1_HUMAN;.	R	229;161	ENSP00000356940:G229R;ENSP00000336998:G161R	ENSP00000336998:G161R	G	-	1	0	MOXD1	132691405	1.000000	0.71417	1.000000	0.80357	0.948000	0.59901	6.470000	0.73558	2.592000	0.87571	0.655000	0.94253	GGC		0.488	MOXD1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000125837.1	NM_015529		G	132649712	C	G	132649712	3	3	590	1	0	0	0	0	1	0	0	0	9727	681	24	4	1188	4	MOXD1	6	132649712	Missense_Mutation	SNP	C	TCGA-G7-6793-01A-11D-1961-08	99265016	132649712	38465355	19	35141										
KIAA0146	23514	broad.mit.edu;bcgsc.ca	37	chr8	48508505	48508506	+	In_Frame_Ins	INS	-	-	AGC													0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	acataccccttccaagaagaINSagcatctctttggcccagat							TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr8:48508505_48508506insAGC	ENST00000297423.4	+	9	1614_1615	c.1230_1231insAGC	c.(1231-1233)agc>AGCagc	p.411_411S>SS	SPIDR_ENST00000541342.1_In_Frame_Ins_p.341_341S>SS|SPIDR_ENST00000518074.1_In_Frame_Ins_p.351_351S>SS|SPIDR_ENST00000521214.1_3'UTR	NM_001080394.2|NM_001282916.1	NP_001073863.1|NP_001269845.1	Q14159	SPIDR_HUMAN	scaffolding protein involved in DNA repair	411	Necessary for interaction with RAD51.				cellular response to camptothecin (GO:0072757)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to hydroxyurea (GO:0072711)|cellular response to ionizing radiation (GO:0071479)|double-strand break repair via homologous recombination (GO:0000724)|positive regulation of double-strand break repair (GO:2000781)|positive regulation of protein complex assembly (GO:0031334)|regulation of double-strand break repair via homologous recombination (GO:0010569)|regulation of establishment of protein localization to chromosome (GO:0070202)	nuclear chromosome (GO:0000228)											TTCCAAGAAGAAGCATCTCTTT	0.371																																																0																																										SO:0001652	inframe_insertion	23514			AK055680	CCDS43737.1, CCDS64890.1, CCDS64891.1	8q11.21	2013-07-02	2013-07-02	2013-07-02	ENSG00000164808	ENSG00000164808			28971	protein-coding gene	gene with protein product		615384	"KIAA0146"	KIAA0146		8590280, 23509288	Standard	XM_005251189		Approved		uc003xqd.3	Q14159	OTTHUMG00000164176	ENST00000297423.4:c.1231_1233dupAGC	8.37:g.48508506_48508508dupAGC	ENSP00000297423:p.Ser411dup	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFV2|B4E0Y6|Q96BI5	In_Frame_Ins	INS	ENST00000297423.4	37	CCDS43737.1																																																																																				0.371	SPIDR-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000377611.1	NM_001080394		AGC	48508506	-	AGC	48508505	7	5	590	1	0	1	1	0	0	0	0	0	8164	243	9	0	1264	0	KIAA0146	8	48508505	In_Frame_Ins	INS	-	TCGA-G7-6793-01A-11D-1961-08		48508505	97855517	20	35142										
RIPK2	8767	ucsc.edu	37	chr8	90770295	90770295	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	gagcgcccgggaccatgaacGgggaggccatctgcagcgcc	16	14	1	1			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr8:90770295G>A	ENST00000220751.4	+	1	321	c.7G>A	c.(7-9)Ggg>Agg	p.G3R	RIPK2_ENST00000540020.1_5'UTR|RP11-37B2.1_ENST00000504145.1_lincRNA	NM_003821.5	NP_003812.1	O43353	RIPK2_HUMAN	receptor-interacting serine-threonine kinase 2	3					activation of MAPK activity (GO:0000187)|adaptive immune response (GO:0002250)|apoptotic process (GO:0006915)|cellular response to lipoteichoic acid (GO:0071223)|cellular response to muramyl dipeptide (GO:0071225)|cellular response to peptidoglycan (GO:0071224)|defense response to Gram-positive bacterium (GO:0050830)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|JNK cascade (GO:0007254)|lipopolysaccharide-mediated signaling pathway (GO:0031663)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic process (GO:0043066)|neurotrophin TRK receptor signaling pathway (GO:0048011)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing 1 signaling pathway (GO:0070427)|nucleotide-binding oligomerization domain containing 2 signaling pathway (GO:0070431)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of alpha-beta T cell proliferation (GO:0046641)|positive regulation of apoptotic process (GO:0043065)|positive regulation of chemokine production (GO:0032722)|positive regulation of cytokine-mediated signaling pathway (GO:0001961)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of immature T cell proliferation (GO:0033091)|positive regulation of interferon-alpha production (GO:0032727)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of interleukin-2 production (GO:0032743)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of JNK cascade (GO:0046330)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of T-helper 1 cell differentiation (GO:0045627)|positive regulation of T-helper 1 type immune response (GO:0002827)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor production (GO:0032760)|response to exogenous dsRNA (GO:0043330)|response to interleukin-1 (GO:0070555)|response to interleukin-12 (GO:0070671)|response to interleukin-18 (GO:0070673)|signal transduction (GO:0007165)|stress-activated MAPK cascade (GO:0051403)|T cell proliferation (GO:0042098)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|protein complex (GO:0043234)|vesicle (GO:0031982)	ATP binding (GO:0005524)|CARD domain binding (GO:0050700)|LIM domain binding (GO:0030274)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein homodimerization activity (GO:0042803)|protein serine/threonine kinase activity (GO:0004674)|signal transducer activity (GO:0004871)			kidney(1)|large_intestine(3)|lung(2)|ovary(2)|prostate(2)	10			BRCA - Breast invasive adenocarcinoma(11;0.0474)			GACCATGAACGGGGAGGCCAT	0.726																																																0													20	22	21					8																	90770295		2195	4290	6485	SO:0001583	missense	8767			AC004003	CCDS6247.1	8q21	2008-05-02			ENSG00000104312	ENSG00000104312			10020	protein-coding gene	gene with protein product		603455				9575181, 9705938	Standard	XM_005251092		Approved	RICK, RIP2, CARDIAK, CARD3	uc003yee.3	O43353	OTTHUMG00000163809	ENST00000220751.4:c.7G>A	8.37:g.90770295G>A	ENSP00000220751:p.Gly3Arg	Somatic		WXS	Illumina HiSeq		B7Z748|Q6UWF0	Missense_Mutation	SNP	ENST00000220751.4	37	CCDS6247.1	.	.	.	.	.	.	.	.	.	.	G	6.747	0.506603	0.12883	.	.	ENSG00000104312	ENST00000220751	T	0.80123	-1.34	4.48	2.67	0.31697	.	0.739382	0.11020	N	0.608540	T	0.64249	0.2581	N	0.16478	0.41	0.80722	D	1	B	0.11235	0.004	B	0.06405	0.002	T	0.48293	-0.9048	10	0.14656	T	0.56	1.359	9.0698	0.36486	0.0847:0.3987:0.5166:0.0	.	3	O43353	RIPK2_HUMAN	R	3	ENSP00000220751:G3R	ENSP00000220751:G3R	G	+	1	0	RIPK2	90839430	1.000000	0.71417	0.284000	0.24805	0.935000	0.57460	1.916000	0.39986	0.494000	0.27859	0.462000	0.41574	GGG		0.726	RIPK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375686.1			A	90770295	G	A	90770295	3	1	590	1	0	0	0	0	1	0	0	0	13394	1116	39	1	9	1	RIPK2	8	90770295	Missense_Mutation	SNP	G	TCGA-G7-6793-01A-11D-1961-08	42261790	90770295	55593727	21	35143										
SMU1	55234	hgsc.bcm.edu	37	chr9	33068839	33068839	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	tacctgtcccagcaatgccaTgagacgagatggaggcacca	11	12	0	2			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr9:33068839T>A	ENST00000397149.3	-	4	534	c.484A>T	c.(484-486)Atg>Ttg	p.M162L	SMU1_ENST00000536631.1_Start_Codon_SNP_p.M1L	NM_018225.2	NP_060695.2	Q2TAY7	SMU1_HUMAN	smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans)	162						cytoplasm (GO:0005737)|nucleus (GO:0005634)				endometrium(2)|lung(4)|ovary(2)|prostate(1)	9			LUSC - Lung squamous cell carcinoma(29;0.0227)	GBM - Glioblastoma multiforme(74;0.11)		AGCAATGCCATGAGACGAGAT	0.522																																																0													163	132	142					9																	33068839		2203	4300	6503	SO:0001583	missense	55234			AK001667	CCDS6534.1	9p12	2013-01-10			ENSG00000122692	ENSG00000122692		"WD repeat domain containing"	18247	protein-coding gene	gene with protein product	"functional spliceosome-associated protein 57"					11438655, 11410362	Standard	NM_018225		Approved	SMU-1, FLJ10805, BWD, fSAP57	uc003zsf.1	Q2TAY7	OTTHUMG00000019757	ENST00000397149.3:c.484A>T	9.37:g.33068839T>A	ENSP00000380336:p.Met162Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3L0|Q9BU59|Q9HA96|Q9NVD1	Missense_Mutation	SNP	ENST00000397149.3	37	CCDS6534.1	.	.	.	.	.	.	.	.	.	.	T	8.836	0.941179	0.18281	.	.	ENSG00000122692	ENST00000397149;ENST00000536631	T;T	0.40476	1.03;1.25	5.57	5.57	0.84162	WD40 repeat-like-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.14527	0.0351	N	0.00926	-1.1	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.24693	-1.0153	10	0.02654	T	1	-36.168	13.9704	0.64237	0.0:0.0:0.0:1.0	.	162;1;162	A0MNN4;B4E3L0;Q2TAY7	.;.;SMU1_HUMAN	L	162;1	ENSP00000380336:M162L;ENSP00000443639:M1L	ENSP00000380336:M162L	M	-	1	0	SMU1	33058839	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.910000	0.87451	2.248000	0.74166	0.533000	0.62120	ATG		0.522	SMU1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052022.1	NM_018225		A	33068839	T	A	33068839	3	1	590	1	0	0	0	0	1	0	0	0	14830	1464	51	5	1093	5	SMU1	9	33068839	Missense_Mutation	SNP	T	TCGA-G7-6793-01A-11D-1961-08		33068839	108144592	22	35144										
ITGA8	8516	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	15688933	15688933	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	gtgccagtgaggatctggggGtctctgaagaggagagagct	18	6	2	4			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr10:15688933G>A	ENST00000378076.3	-	12	1472	c.1119C>T	c.(1117-1119)gaC>gaT	p.D373D		NM_003638.1	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8	373					brain development (GO:0007420)|cell projection organization (GO:0030030)|cell-matrix adhesion (GO:0007160)|establishment of protein localization (GO:0045184)|extracellular matrix organization (GO:0030198)|inner ear morphogenesis (GO:0042472)|integrin-mediated signaling pathway (GO:0007229)|kidney development (GO:0001822)|memory (GO:0007613)|mesodermal cell differentiation (GO:0048333)|metanephros development (GO:0001656)|positive regulation of transcription from RNA polymerase II promoter involved in smooth muscle cell differentiation (GO:2000721)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|single organismal cell-cell adhesion (GO:0016337)|smooth muscle tissue development (GO:0048745)|substrate adhesion-dependent cell spreading (GO:0034446)	apical part of cell (GO:0045177)|cell surface (GO:0009986)|dendritic spine membrane (GO:0032591)|endoplasmic reticulum (GO:0005783)|focal adhesion (GO:0005925)|integrin alpha8-beta1 complex (GO:0034678)|integrin complex (GO:0008305)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)	metal ion binding (GO:0046872)			NS(2)|breast(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(57)|ovary(3)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	96						GGATCTGGGGGTCTCTGAAGA	0.483																																																0													122	109	113					10																	15688933		2203	4300	6503	SO:0001819	synonymous_variant	8516			L36531	CCDS31155.1	10p13	2010-03-23			ENSG00000077943	ENSG00000077943		"Integrins"	6144	protein-coding gene	gene with protein product		604063				7768999	Standard	XM_005252633		Approved		uc001ioc.1	P53708	OTTHUMG00000017733	ENST00000378076.3:c.1119C>T	10.37:g.15688933G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ31|Q5VX94	Silent	SNP	ENST00000378076.3	37	CCDS31155.1																																																																																				0.483	ITGA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046987.1	NM_003638		A	15688933	G	A	15688933	2	1	590	1	0	0	0	0	0	0	0	1	7889	1252	44	2		2	ITGA8	10	15688933	Silent	SNP	G	TCGA-G7-6793-01A-11D-1961-08		15688933	119845814	23	35145										
CUBN	8029	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	16916468	16916468	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	gaataggcaggacttgtgatGattccagaagagaaattgaa	12	4	0	5			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr10:16916468G>T	ENST00000377833.4	-	58	9206	c.9141C>A	c.(9139-9141)atC>atA	p.I3047I		NM_001081.3	NP_001072.2	O60494	CUBN_HUMAN	cubilin (intrinsic factor-cobalamin receptor)	3047	CUB 23. {ECO:0000255|PROSITE- ProRule:PRU00059}.				cholesterol metabolic process (GO:0008203)|cobalamin metabolic process (GO:0009235)|cobalamin transport (GO:0015889)|lipoprotein metabolic process (GO:0042157)|lipoprotein transport (GO:0042953)|receptor-mediated endocytosis (GO:0006898)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|tissue homeostasis (GO:0001894)|vitamin D metabolic process (GO:0042359)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|coated pit (GO:0005905)|cytosol (GO:0005829)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|extrinsic component of external side of plasma membrane (GO:0031232)|Golgi apparatus (GO:0005794)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|cobalamin binding (GO:0031419)|protein homodimerization activity (GO:0042803)|receptor activity (GO:0004872)|transporter activity (GO:0005215)			breast(8)|central_nervous_system(4)|cervix(1)|endometrium(18)|haematopoietic_and_lymphoid_tissue(3)|kidney(12)|large_intestine(42)|liver(1)|lung(107)|ovary(9)|pancreas(2)|prostate(3)|skin(9)|stomach(3)|upper_aerodigestive_tract(11)|urinary_tract(8)	241					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GACTTGTGATGATTCCAGAAG	0.433																																																0													168	135	146					10																	16916468		2203	4300	6503	SO:0001819	synonymous_variant	8029			AF034611	CCDS7113.1	10p12	2014-09-17			ENSG00000107611	ENSG00000107611			2548	protein-coding gene	gene with protein product		602997		MGA1		9572993, 9478979	Standard	NM_001081		Approved	IFCR, gp280	uc001ioo.3	O60494	OTTHUMG00000017741	ENST00000377833.4:c.9141C>A	10.37:g.16916468G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0YIZ4|Q5VTA6|Q96RU9	Silent	SNP	ENST00000377833.4	37	CCDS7113.1																																																																																				0.433	CUBN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047009.1	NM_001081		T	16916468	G	T	16916468	2	4	590	1	0	0	0	0	0	0	0	1	4053	1280	45	4		4	CUBN	10	16916468	Silent	SNP	G	TCGA-G7-6793-01A-11D-1961-08	1227535	16916468	118618279	24	35146										
UBTD1	80019	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	99327795	99327795	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	cctgccttcgagggccgcaaGgagatctgggatgccctcaa	13	13	2	1			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr10:99327795G>A	ENST00000370664.3	+	2	531	c.195G>A	c.(193-195)aaG>aaA	p.K65K		NM_024954.3	NP_079230.1	Q9HAC8	UBTD1_HUMAN	ubiquitin domain containing 1	65										central_nervous_system(1)|endometrium(2)|large_intestine(2)|lung(1)|skin(1)	7		Colorectal(252;0.162)		Epithelial(162;3.04e-10)|all cancers(201;2.86e-08)		AGGGCCGCAAGGAGATCTGGG	0.632																																					Pancreas(100;169 2668 32720)											0													87	86	86					10																	99327795		2203	4300	6503	SO:0001819	synonymous_variant	80019			BC007331	CCDS7465.1	10q24.2	2005-09-22			ENSG00000165886	ENSG00000165886			25683	protein-coding gene	gene with protein product						12477932	Standard	NM_024954		Approved	FLJ11807	uc001knv.1	Q9HAC8	OTTHUMG00000018856	ENST00000370664.3:c.195G>A	10.37:g.99327795G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DR57|Q53HI3	Silent	SNP	ENST00000370664.3	37	CCDS7465.1																																																																																				0.632	UBTD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049701.1	NM_024954		A	99327795	G	A	99327795	2	1	590	1	0	0	0	0	0	0	0	1	16919	991	35	2		2	UBTD1	10	99327795	Silent	SNP	G	TCGA-G7-6793-01A-11D-1961-08	82411327	99327795	36206952	25	35147										
SFRP5	6425	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	99527530	99527530	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	ccttgcgcttcagggggcccGgcttgagcagcttcttcttt	12	13	3	1	rs199605298	byFrequency	TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr10:99527530G>T	ENST00000266066.3	-	3	813	c.695C>A	c.(694-696)cCg>cAg	p.P232Q		NM_003015.3	NP_003006.2	Q5T4F7	SFRP5_HUMAN	secreted frizzled-related protein 5	232	NTR. {ECO:0000255|PROSITE- ProRule:PRU00295}.				anatomical structure morphogenesis (GO:0009653)|apoptotic process (GO:0006915)|brain development (GO:0007420)|cell differentiation (GO:0030154)|convergent extension involved in axis elongation (GO:0060028)|digestive tract morphogenesis (GO:0048546)|establishment or maintenance of cell polarity (GO:0007163)|gonad development (GO:0008406)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of catenin import into nucleus (GO:0035414)|negative regulation of cell proliferation (GO:0008285)|negative regulation of JUN kinase activity (GO:0043508)|negative regulation of planar cell polarity pathway involved in axis elongation (GO:2000041)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of Wnt signaling pathway involved in digestive tract morphogenesis (GO:2000057)|planar cell polarity pathway involved in neural tube closure (GO:0090179)|post-anal tail morphogenesis (GO:0036342)|signal transduction (GO:0007165)|vasculature development (GO:0001944)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|plasma membrane (GO:0005886)	PDZ domain binding (GO:0030165)|Wnt-activated receptor activity (GO:0042813)|Wnt-protein binding (GO:0017147)			large_intestine(1)|lung(4)	5		Colorectal(252;0.234)		Epithelial(162;4.98e-10)|all cancers(201;3.58e-08)		CAGGGGGCCCGGCTTGAGCAG	0.587													G|||	8	0.00159744	0.0	0.0	5008	,	,		16353	0.0079		0.0	False		,,,				2504	0.0															0													55	60	58					10																	99527530		2203	4300	6503	SO:0001583	missense	6425			AF017988	CCDS7472.1	10q24	2008-07-10			ENSG00000120057	ENSG00000120057		"Secreted frizzled-related proteins"	10779	protein-coding gene	gene with protein product	"secreted apoptosis related protein 3"	604158				9391078	Standard	NM_003015		Approved	SARP3	uc001kor.4	Q5T4F7	OTTHUMG00000018866	ENST00000266066.3:c.695C>A	10.37:g.99527530G>T	ENSP00000266066:p.Pro232Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O14780|Q86TH7	Missense_Mutation	SNP	ENST00000266066.3	37	CCDS7472.1	2	9.157509157509158E-4	0	0.0	0	0.0	2	0.0034965034965034965	0	0.0	G	8.727	0.915701	0.17907	.	.	ENSG00000120057	ENST00000266066	T	0.19938	2.11	5.74	5.74	0.90152	Tissue inhibitor of metalloproteinases-like, OB-fold (1);Netrin domain (1);Netrin module, non-TIMP type (2);	0.747332	0.12885	N	0.431104	T	0.09774	0.0240	N	0.03608	-0.345	0.22292	N	0.999227	B	0.16396	0.017	B	0.18561	0.022	T	0.26985	-1.0087	10	0.13470	T	0.59	.	10.9329	0.47228	0.1134:0.0:0.8866:0.0	.	232	Q5T4F7	SFRP5_HUMAN	Q	232	ENSP00000266066:P232Q	ENSP00000266066:P232Q	P	-	2	0	SFRP5	99517520	0.958000	0.32768	0.999000	0.59377	0.995000	0.86356	2.473000	0.45145	2.712000	0.92718	0.561000	0.74099	CCG		0.587	SFRP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049742.1	NM_003015		T	99527530	G	T	99527530	3	4	590	1	0	0	0	0	1	0	0	0	14177	1116	39	4	262	4	SFRP5	10	99527530	Missense_Mutation	SNP	G	TCGA-G7-6793-01A-11D-1961-08	199735	99527530	36007217	26	35148										
ATE1	11101	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	123658376	123658376	+	Intron	DEL	C	C	-													0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	ctcagtcttcccacattcatCgggtggatcctggtgtatgg					rs150970157		TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr10:123658376delC	ENST00000224652.6	-	7	1028				ATE1_ENST00000543447.1_Intron|ATE1_ENST00000535655.1_Intron|ATE1_ENST00000540606.1_Frame_Shift_Del_p.D301fs|ATE1_ENST00000369040.3_Frame_Shift_Del_p.D212fs|ATE1_ENST00000369043.3_Frame_Shift_Del_p.D308fs|ATE1_ENST00000481784.1_Intron	NM_001001976.1	NP_001001976.1	O95260	ATE1_HUMAN	arginyltransferase 1						protein arginylation (GO:0016598)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	arginyltransferase activity (GO:0004057)			endometrium(2)|kidney(2)|large_intestine(2)|lung(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	14		all_neural(114;0.061)|Lung NSC(174;0.095)|all_lung(145;0.124)|Breast(234;0.212)				CCACATTCATCGGGTGGATCC	0.423																																																0													189	157	168					10																	123658376		2203	4300	6503	SO:0001627	intron_variant	11101			AF079098	CCDS31299.1, CCDS31300.1, CCDS73211.1, CCDS73212.1, CCDS73213.1	10q26	2013-05-08			ENSG00000107669	ENSG00000107669	2.3.2.8		782	protein-coding gene	gene with protein product		607103				16002466, 16943202	Standard	XM_005269458		Approved		uc001lfq.3	O95260	OTTHUMG00000019178	ENST00000224652.6:c.942+1004G>-	10.37:g.123658376delC		Somatic		WXS	Illumina HiSeq	Phase_I	O95261|Q5SQQ3|Q8WW04	Frame_Shift_Del	DEL	ENST00000224652.6	37	CCDS31300.1																																																																																				0.423	ATE1-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_001001976		-	123658376	C	-	123658376	6	5	590	0	1	1	0	1	0	0	0	0	1078	884	31	0		0	ATE1	10	123658376	Intron	DEL	C	TCGA-G7-6793-01A-11D-1961-08	24130846	123658376	11876371	27	35149										
CNIH2	254263	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	66049735	66049735	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	acgcccctcccccagatcatAgcctttgatgagctgcggac	9	16	1	3			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr11:66049735A>G	ENST00000311445.6	+	2	345	c.87A>G	c.(85-87)atA>atG	p.I29M	YIF1A_ENST00000526497.1_5'Flank|CNIH2_ENST00000530519.1_3'UTR|CNIH2_ENST00000528852.1_Missense_Mutation_p.I29M	NM_182553.2	NP_872359.1	Q6PI25	CNIH2_HUMAN	cornichon family AMPA receptor auxiliary protein 2	29					intracellular signal transduction (GO:0035556)|localization within membrane (GO:0051668)|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:2000311)|regulation of membrane potential (GO:0042391)|synaptic transmission, glutamatergic (GO:0035249)	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex (GO:0032281)|cell junction (GO:0030054)|dendrite (GO:0030425)|dendritic shaft (GO:0043198)|dendritic spine (GO:0043197)|endoplasmic reticulum (GO:0005783)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)				endometrium(1)|large_intestine(1)|lung(2)|prostate(1)	5						CCCAGATCATAGCCTTTGATG	0.597																																																0													72	66	68					11																	66049735		2200	4295	6495	SO:0001583	missense	254263			BC047953	CCDS8131.1	11q13.2	2013-08-28	2013-08-28		ENSG00000174871	ENSG00000174871			28744	protein-coding gene	gene with protein product		611288	"cornichon homolog 2 (Drosophila)"			12477932	Standard	NM_182553		Approved	MGC50896, Cnil, CNIH-2	uc001ohi.2	Q6PI25	OTTHUMG00000166919	ENST00000311445.6:c.87A>G	11.37:g.66049735A>G	ENSP00000310003:p.Ile29Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000311445.6	37	CCDS8131.1	.	.	.	.	.	.	.	.	.	.	A	14.77	2.634157	0.47049	.	.	ENSG00000174871	ENST00000528852;ENST00000311445	T;T	0.55760	0.5;0.5	5.33	1.49	0.22878	.	0.000000	0.85682	D	0.000000	T	0.68869	0.3048	M	0.89478	3.035	0.58432	D	0.999998	D;D	0.71674	0.961;0.998	P;D	0.68483	0.791;0.958	T	0.68221	-0.5466	10	0.59425	D	0.04	-24.0482	4.9261	0.13894	0.3807:0.2295:0.0:0.3897	.	29;29	Q6PI25;E9PS15	CNIH2_HUMAN;.	M	29	ENSP00000432177:I29M;ENSP00000310003:I29M	ENSP00000310003:I29M	I	+	3	3	CNIH2	65806311	0.998000	0.40836	1.000000	0.80357	0.547000	0.35210	1.267000	0.33050	0.919000	0.36945	0.460000	0.39030	ATA		0.597	CNIH2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000391892.1	NM_182553		G	66049735	A	G	66049735	3	3	590	1	0	0	0	0	1	0	0	0	3605	410	15	3	93	3	CNIH2	11	66049735	Missense_Mutation	SNP	A	TCGA-G7-6793-01A-11D-1961-08		66049735	68956781	28	35150										
NPAS4	266743	broad.mit.edu	37	chr11	66191471	66191471	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	accgcagcactgggggctccCagaagcaccagcttccccag	11	17	0	1			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr11:66191471C>A	ENST00000311034.2	+	7	1286	c.1110C>A	c.(1108-1110)ccC>ccA	p.P370P		NM_178864.3	NP_849195.2	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	370					positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|signal transducer activity (GO:0004871)			breast(4)|endometrium(2)|kidney(3)|large_intestine(11)|liver(2)|lung(20)|ovary(1)|prostate(3)|skin(3)	49						TGGGGGCTCCCAGAAGCACCA	0.552																																																0													134	140	138					11																	66191471		2200	4295	6495	SO:0001819	synonymous_variant	266743			AB049469	CCDS8138.1	11q13.2	2013-05-21			ENSG00000174576	ENSG00000174576		"Basic helix-loop-helix proteins"	18983	protein-coding gene	gene with protein product		608554				14701734	Standard	NM_178864		Approved	PASD10, NXF, Le-PAS, bHLHe79	uc001ohx.1	Q8IUM7	OTTHUMG00000167045	ENST00000311034.2:c.1110C>A	11.37:g.66191471C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZL81|Q8N8S5|Q8N9Q9	Silent	SNP	ENST00000311034.2	37	CCDS8138.1																																																																																				0.552	NPAS4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392634.1	NM_178864		A	66191471	C	A	66191471	2	1	590	1	0	0	0	0	0	0	0	1	10572	581	21	4		4	NPAS4	11	66191471	Silent	SNP	C	TCGA-G7-6793-01A-11D-1961-08	141736	66191471	68815045	29	35151										
EXPH5	23086	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	108380880	108380880	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	agaggtgtggctcaggttccCactccagagatgaagcactc	12	11	1	3			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr11:108380880C>T	ENST00000265843.4	-	6	5464	c.5354G>A	c.(5353-5355)tGg>tAg	p.W1785*	EXPH5_ENST00000443411.1_Nonsense_Mutation_p.W1597*|EXPH5_ENST00000428840.1_Nonsense_Mutation_p.W1709*|EXPH5_ENST00000525344.1_Nonsense_Mutation_p.W1778*	NM_015065.2	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5	1785					intracellular protein transport (GO:0006886)|keratinocyte development (GO:0003334)|multivesicular body sorting pathway (GO:0071985)|positive regulation of exocytosis (GO:0045921)|positive regulation of protein secretion (GO:0050714)	endosome (GO:0005768)	Rab GTPase binding (GO:0017137)			breast(3)|central_nervous_system(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(13)|liver(1)|lung(34)|ovary(3)|pancreas(2)|prostate(2)|skin(11)|stomach(3)|upper_aerodigestive_tract(1)	91		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)		CTCAGGTTCCCACTCCAGAGA	0.483																																																0													89	96	94					11																	108380880		2201	4298	6499	SO:0001587	stop_gained	23086				CCDS8341.1	11q22.3	2008-02-05			ENSG00000110723	ENSG00000110723			30578	protein-coding gene	gene with protein product	"synaptotagmin-like homologue lacking C2 domains b"	612878				9734811, 11773082	Standard	NM_015065		Approved	SLAC2-B	uc001pkk.3	Q8NEV8	OTTHUMG00000166536	ENST00000265843.4:c.5354G>A	11.37:g.108380880C>T	ENSP00000265843:p.Trp1785*	Somatic		WXS	Illumina HiSeq	Phase_I	Q2KHM1|Q9Y4D6	Nonsense_Mutation	SNP	ENST00000265843.4	37	CCDS8341.1	.	.	.	.	.	.	.	.	.	.	C	41	8.551547	0.98859	.	.	ENSG00000110723	ENST00000265843;ENST00000428840;ENST00000443411;ENST00000525344;ENST00000439956;ENST00000526312	.	.	.	6.17	4.26	0.50523	.	0.766008	0.12354	N	0.476287	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.45353	T	0.12	1.7662	10.3652	0.44019	0.0:0.497:0.431:0.0721	.	.	.	.	X	1785;1709;1597;1778;615;1709	.	ENSP00000265843:W1785X	W	-	2	0	EXPH5	107886090	0.060000	0.20803	0.159000	0.22649	0.035000	0.12851	0.897000	0.28390	0.883000	0.36040	0.655000	0.94253	TGG		0.483	EXPH5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390279.1	NM_015065		T	108380880	C	T	108380880	4	4	590	1	0	0	0	0	0	1	0	0	5324	595	21	2	619	2	EXPH5	11	108380880	Nonsense_Mutation	SNP	C	TCGA-G7-6793-01A-11D-1961-08	42189409	108380880	26625636	30	35152										
KRT6A	3853	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	52882316	52882316	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	gctcagcatcagcaatggcgGcctgcaggttggcgcactgg	15	12	2	0			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr12:52882316G>A	ENST00000330722.6	-	7	1288	c.1220C>T	c.(1219-1221)gCc>gTc	p.A407V		NM_005554.3	NP_005545.1	P02538	K2C6A_HUMAN	keratin 6A	407	Coil 2.|Rod.				cell differentiation (GO:0030154)|positive regulation of cell proliferation (GO:0008284)	extracellular vesicular exosome (GO:0070062)|keratin filament (GO:0045095)|membrane (GO:0016020)|nucleus (GO:0005634)	structural constituent of cytoskeleton (GO:0005200)			breast(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|liver(1)|lung(14)|ovary(4)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	39				BRCA - Breast invasive adenocarcinoma(357;0.189)		AGCAATGGCGGCCTGCAGGTT	0.557																																																0													71	66	67					12																	52882316		2203	4300	6503	SO:0001583	missense	3853			BC014152, L42593, L42610	CCDS41786.1	12q13.13	2013-01-16			ENSG00000205420	ENSG00000205420		"-", "Intermediate filaments type II, keratins (basic)"	6443	protein-coding gene	gene with protein product		148041	"keratin 6C", "keratin 6D"	KRT6C, KRT6D		1713141, 16831889	Standard	NM_005554		Approved	CK6C, K6C, CK6D, K6D	uc001sam.3	P02538	OTTHUMG00000169597	ENST00000330722.6:c.1220C>T	12.37:g.52882316G>A	ENSP00000369317:p.Ala407Val	Somatic		WXS	Illumina HiSeq	Phase_I	A4QPC1|P48667|Q08AR4|Q6NT67|Q96CL4	Missense_Mutation	SNP	ENST00000330722.6	37	CCDS41786.1	.	.	.	.	.	.	.	.	.	.	g	17.33	3.362592	0.61403	.	.	ENSG00000205420	ENST00000330722;ENST00000452121	T	0.75821	-0.97	5.15	4.21	0.49690	Filament (1);	0.570128	0.16803	N	0.198918	T	0.74344	0.3704	M	0.75085	2.285	0.26350	N	0.977228	P	0.42757	0.789	B	0.43194	0.411	T	0.70769	-0.4782	10	0.62326	D	0.03	.	9.2357	0.37464	0.076:0.0:0.7787:0.1453	.	407	P02538	K2C6A_HUMAN	V	407;363	ENSP00000369317:A407V	ENSP00000369317:A407V	A	-	2	0	KRT6A	51168583	0.003000	0.15002	0.944000	0.38274	0.754000	0.42855	1.333000	0.33816	2.549000	0.85964	0.655000	0.94253	GCC		0.557	KRT6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404978.2	NM_005554		A	52882316	G	A	52882316	3	1	590	1	0	0	0	0	1	0	0	0	8487	1203	42	2	486	2	KRT6A	12	52882316	Missense_Mutation	SNP	G	TCGA-G7-6793-01A-11D-1961-08		52882316	80969579	31	35153										
KDM2B	84678	broad.mit.edu;bcgsc.ca	37	chr12	122016841	122016841	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	tctcgtcgtatcgctggcggTcaatcgggcgctgcgaggac	15	12	2	0			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr12:122016841T>C	ENST00000377071.4	-	2	209	c.137A>G	c.(136-138)gAc>gGc	p.D46G	KDM2B_ENST00000377069.4_Missense_Mutation_p.D15G|KDM2B_ENST00000538046.2_Missense_Mutation_p.D46G|RP13-941N14.1_ENST00000541574.1_lincRNA|KDM2B_ENST00000536437.1_5'UTR	NM_032590.4	NP_115979.3	Q8NHM5	KDM2B_HUMAN	lysine (K)-specific demethylase 2B	46					embryonic camera-type eye morphogenesis (GO:0048596)|forebrain development (GO:0030900)|fourth ventricle development (GO:0021592)|hindbrain development (GO:0030902)|histone demethylation (GO:0016577)|histone H2A monoubiquitination (GO:0035518)|initiation of neural tube closure (GO:0021993)|lateral ventricle development (GO:0021670)|midbrain development (GO:0030901)|midbrain-hindbrain boundary morphogenesis (GO:0021555)|negative regulation of neural precursor cell proliferation (GO:2000178)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|spermatogenesis (GO:0007283)|third ventricle development (GO:0021678)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone demethylase activity (GO:0032452)|histone demethylase activity (H3-K36 specific) (GO:0051864)|rRNA binding (GO:0019843)|zinc ion binding (GO:0008270)			breast(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(8)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	19						TCGCTGGCGGTCAATCGGGCG	0.627																																																0													64	71	68					12																	122016841		2046	4187	6233	SO:0001583	missense	84678			AJ459424	CCDS41849.1, CCDS41850.1	12q24.31	2014-02-18	2009-04-06	2009-04-06	ENSG00000089094	ENSG00000089094		"F-boxes / Leucine-rich repeats", "Chromatin-modifying enzymes / K-demethylases"	13610	protein-coding gene	gene with protein product	"jumonji C domain-containing histone demethylase 1B"	609078	"F-box and leucine-rich repeat protein 10"	FBXL10		10799292	Standard	NM_032590		Approved	PCCX2, CXXC2, Fbl10, JHDM1B	uc001uat.3	Q8NHM5	OTTHUMG00000169071	ENST00000377071.4:c.137A>G	12.37:g.122016841T>C	ENSP00000366271:p.Asp46Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MRS1|Q8NCI2|Q96HC7|Q96SL0|Q96T03|Q9NS96|Q9UF75	Missense_Mutation	SNP	ENST00000377071.4	37	CCDS41850.1	.	.	.	.	.	.	.	.	.	.	T	9.672	1.146946	0.21288	.	.	ENSG00000089094	ENST00000397480;ENST00000377069;ENST00000377071;ENST00000397478;ENST00000261824;ENST00000446152;ENST00000539371	T;T;T	0.42900	2.55;1.96;0.96	4.06	4.06	0.47325	.	1.411770	0.04385	N	0.361475	T	0.26521	0.0648	N	0.08118	0	0.80722	D	1	B;B;B	0.09022	0.002;0.0;0.0	B;B;B	0.12156	0.007;0.001;0.0	T	0.28235	-1.0050	10	0.46703	T	0.11	-14.2477	6.3037	0.21127	0.0:0.1551:0.0:0.8449	.	46;46;15	E7EML5;Q8NHM5;A8MRS1	.;KDM2B_HUMAN;.	G	46;15;46;46;46;9;15	ENSP00000366269:D15G;ENSP00000366271:D46G;ENSP00000398279:D9G	ENSP00000261824:D46G	D	-	2	0	KDM2B	120501224	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	3.418000	0.52721	1.711000	0.51337	0.374000	0.22700	GAC		0.627	KDM2B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000402132.2	NM_032590		C	122016841	T	C	122016841	3	2	590	1	0	0	0	0	1	0	0	0	8132	1667	58	3	4013	3	KDM2B	12	122016841	Missense_Mutation	SNP	T	TCGA-G7-6793-01A-11D-1961-08	69134525	122016841	11835054	32	35154										
OR4N4	283694	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr15	22382930	22382930	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	ggctctgtggcttgggggttTtgtccactccattatccagg	13	10	1	0			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr15:22382930T>C	ENST00000328795.4	+	1	549	c.458T>C	c.(457-459)tTt>tCt	p.F153S	RP11-69H14.6_ENST00000558896.1_RNA	NM_001005241.2	NP_001005241.2	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N, member 4	153						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(3)|kidney(3)|large_intestine(6)|lung(19)|ovary(4)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	40		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)		CTTGGGGGTTTTGTCCACTCC	0.527																																																0													100	87	91					15																	22382930		2187	4254	6441	SO:0001583	missense	283694			AI018459	CCDS32173.1	15q11.2	2012-08-09				ENSG00000183706		"GPCR / Class A : Olfactory receptors"	15375	protein-coding gene	gene with protein product							Standard	NM_001005241		Approved		uc010tzv.2	Q8N0Y3		ENST00000328795.4:c.458T>C	15.37:g.22382930T>C	ENSP00000332500:p.Phe153Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEY3|Q6IF56	Missense_Mutation	SNP	ENST00000328795.4	37	CCDS32173.1	.	.	.	.	.	.	.	.	.	.	.	10.03	1.238759	0.22711	.	.	ENSG00000183706	ENST00000328795	T	0.00216	8.53	3.37	3.37	0.38596	GPCR, rhodopsin-like superfamily (1);	0.000000	0.50627	D	0.000117	T	0.00412	0.0013	M	0.62723	1.935	0.09310	N	1	D	0.67145	0.996	D	0.74348	0.983	T	0.47873	-0.9083	10	0.87932	D	0	-8.9888	10.041	0.42158	0.0:0.0:0.0:1.0	.	153	Q8N0Y3	OR4N4_HUMAN	S	153	ENSP00000332500:F153S	ENSP00000332500:F153S	F	+	2	0	OR4N4	19884294	0.006000	0.16342	0.918000	0.36340	0.103000	0.19146	1.078000	0.30754	1.522000	0.49001	0.332000	0.21555	TTT		0.527	OR4N4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414922.1			C	22382930	T	C	22382930	3	2	590	1	0	0	0	0	1	0	0	0	11085	1841	64	3	460	3	OR4N4	15	22382930	Missense_Mutation	SNP	T	TCGA-G7-6793-01A-11D-1961-08		22382930	80148462	33	35155										
FURIN	5045	ucsc.edu	37	chr15	91419099	91419099	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	cgcatccctggaggcccagcGgtggccaacagtgtggcacg	15	14	0	0	rs141410539		TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr15:91419099G>A	ENST00000268171.3	+	2	408	c.129G>A	c.(127-129)gcG>gcA	p.A43A		NM_002569.2	NP_002560.1	P09958	FURIN_HUMAN	furin (paired basic amino acid cleaving enzyme)	43			A -> V (in dbSNP:rs16944971).		cell proliferation (GO:0008283)|cellular protein metabolic process (GO:0044267)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of low-density lipoprotein particle receptor catabolic process (GO:0032804)|negative regulation of transforming growth factor beta1 production (GO:0032911)|nerve growth factor processing (GO:0032455)|nerve growth factor production (GO:0032902)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch signaling pathway (GO:0007219)|peptide biosynthetic process (GO:0043043)|peptide hormone processing (GO:0016486)|peptidyl-glutamic acid carboxylation (GO:0017187)|positive regulation of membrane protein ectodomain proteolysis (GO:0051044)|post-translational protein modification (GO:0043687)|protein processing (GO:0016485)|proteolysis (GO:0006508)|regulation of endopeptidase activity (GO:0052548)|regulation of protein catabolic process (GO:0042176)|secretion by cell (GO:0032940)|signal peptide processing (GO:0006465)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral protein processing (GO:0019082)|virion assembly (GO:0019068)	cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)|trans-Golgi network transport vesicle (GO:0030140)	endopeptidase activity (GO:0004175)|metal ion binding (GO:0046872)|nerve growth factor binding (GO:0048406)|peptidase activity (GO:0008233)|peptide binding (GO:0042277)|protease binding (GO:0002020)|serine-type endopeptidase activity (GO:0004252)|serine-type endopeptidase inhibitor activity (GO:0004867)			breast(1)|central_nervous_system(4)|endometrium(4)|large_intestine(3)|liver(2)|lung(13)|ovary(2)|prostate(3)|skin(1)|urinary_tract(3)	36	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			GAGGCCCAGCGGTGGCCAACA	0.622																																																0								G		1,4387		0,1,2193	54	40	45		129	-9.5	0	15	dbSNP_134	45	1,8579		0,1,4289	no	coding-synonymous	FURIN	NM_002569.2		0,2,6482	AA,AG,GG		0.0117,0.0228,0.0154		43/795	91419099	2,12966	2194	4290	6484	SO:0001819	synonymous_variant	5045			X17094	CCDS10364.1	15q26.1	2007-01-24	2002-12-04	2002-12-06	ENSG00000140564	ENSG00000140564			8568	protein-coding gene	gene with protein product		136950	"paired basic amino acid cleaving enzyme (furin, membrane associated receptor protein)"	PCSK3, FUR, PACE		2251280, 1741956	Standard	NM_002569		Approved	SPC1	uc002bpu.1	P09958	OTTHUMG00000149831	ENST00000268171.3:c.129G>A	15.37:g.91419099G>A		Somatic		WXS	Illumina HiSeq		Q14336|Q6LBS3|Q9UCZ5	Silent	SNP	ENST00000268171.3	37	CCDS10364.1																																																																																				0.622	FURIN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313492.1	NM_002569		A	91419099	G	A	91419099	2	1	590	1	0	0	0	0	0	0	0	1	6106	1103	39	1		1	FURIN	15	91419099	Silent	SNP	G	TCGA-G7-6793-01A-11D-1961-08	69036169	91419099	11112293	34	35156										
MRPS34	65993	hgsc.bcm.edu	37	chr16	1822947	1822947	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	aagaggcggctctcgcggcgCacgtcggcccaggcccggac	16	16	1	1	rs1076695	byFrequency	TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr16:1822947C>G	ENST00000397375.2	-	1	209	c.174G>C	c.(172-174)gtG>gtC	p.V58V	MRPS34_ENST00000177742.3_Silent_p.V58V|NME3_ENST00000219302.3_5'Flank|EME2_ENST00000307394.7_5'Flank|NME3_ENST00000563498.1_5'Flank|EME2_ENST00000568449.1_5'Flank	NM_023936.1	NP_076425.1	P82930	RT34_HUMAN	mitochondrial ribosomal protein S34	58						mitochondrion (GO:0005739)|ribosome (GO:0005840)				breast(1)|skin(2)	3						TCTCGCGGCGCACGTCGGCCC	0.726													C|||	251	0.0501198	0.0061	0.0965	5008	,	,		10499	0.002		0.1421	False		,,,				2504	0.0317															0								C		25,2311		0,25,1143	1	2	2		174	1.7	1	16	dbSNP_86	2	405,4871		9,387,2242	no	coding-synonymous	MRPS34	NM_023936.1		9,412,3385	GG,GC,CC		7.6763,1.0702,5.649		58/219	1822947	430,7182	1168	2638	3806	SO:0001819	synonymous_variant	65993			BC001182	CCDS10444.1, CCDS73805.1	16p13.3	2012-09-13			ENSG00000074071	ENSG00000074071		"Mitochondrial ribosomal proteins / small subunits"	16618	protein-coding gene	gene with protein product		611994					Standard	NM_023936		Approved	MRP-S12, MGC2616	uc002cmo.3	P82930	OTTHUMG00000128636	ENST00000397375.2:c.174G>C	16.37:g.1822947C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BVI7	Silent	SNP	ENST00000397375.2	37	CCDS10444.1																																																																																				0.726	MRPS34-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250506.1	NM_023936		G	1822947	C	G	1822947	2	3	590	1	0	0	0	0	0	0	0	1	9850	697	25	4		4	MRPS34	16	1822947	Silent	SNP	C	TCGA-G7-6793-01A-11D-1961-08		1822947	88531806	35	35157										
E4F1	1877	broad.mit.edu;ucsc.edu	37	chr16	2284711	2284711	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	acaccacacaggcgagaagcCgttcaagtgctacaagtgcg	11	12	1	1			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr16:2284711C>T	ENST00000301727.4	+	11	1769	c.1721C>T	c.(1720-1722)cCg>cTg	p.P574L	DNASE1L2_ENST00000564065.1_5'Flank|E4F1_ENST00000564139.1_Missense_Mutation_p.P574L|RP11-304L19.12_ENST00000564055.1_lincRNA|DNASE1L2_ENST00000382437.4_5'Flank|DNASE1L2_ENST00000320700.5_5'Flank|E4F1_ENST00000565090.1_Missense_Mutation_p.P397L|DNASE1L2_ENST00000567494.1_5'Flank	NM_004424.3	NP_004415.2	Q66K89	E4F1_HUMAN	E4F transcription factor 1	574	Interaction with BMI1.|Mediates interaction with TP53.				cell proliferation (GO:0008283)|DNA replication (GO:0006260)|mitotic cell cycle arrest (GO:0071850)|mitotic nuclear division (GO:0007067)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|protein ubiquitination (GO:0016567)|regulation of cell cycle process (GO:0010564)|regulation of growth (GO:0040008)|regulation of mitotic cell cycle, embryonic (GO:0009794)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|spindle (GO:0005819)	cAMP response element binding (GO:0035497)|DNA binding (GO:0003677)|ligase activity (GO:0016874)|metal ion binding (GO:0046872)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001227)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)			ovary(1)	1						GGCGAGAAGCCGTTCAAGTGC	0.667																																																0													17	14	15					16																	2284711		2176	4283	6459	SO:0001583	missense	1877			U87269	CCDS32370.1, CCDS73809.1, CCDS73810.1	16p13.3	2013-01-08				ENSG00000167967		"Zinc fingers, C2H2-type"	3121	protein-coding gene	gene with protein product		603022				9763670, 8828041	Standard	XM_005255155		Approved	E4F	uc002cpm.3	Q66K89		ENST00000301727.4:c.1721C>T	16.37:g.2284711C>T	ENSP00000301727:p.Pro574Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2R4|O00146	Missense_Mutation	SNP	ENST00000301727.4	37	CCDS32370.1	.	.	.	.	.	.	.	.	.	.	C	15.45	2.838062	0.50951	.	.	ENSG00000167967	ENST00000301727	T	0.27557	1.66	5.38	5.38	0.77491	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.049374	0.85682	D	0.000000	T	0.56863	0.2014	M	0.72118	2.19	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.59579	-0.7428	10	0.72032	D	0.01	-22.8742	17.7029	0.88300	0.0:1.0:0.0:0.0	.	574	Q66K89	E4F1_HUMAN	L	574	ENSP00000301727:P574L	ENSP00000301727:P574L	P	+	2	0	E4F1	2224712	1.000000	0.71417	1.000000	0.80357	0.680000	0.39746	7.722000	0.84778	2.528000	0.85240	0.549000	0.68633	CCG		0.667	E4F1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000435225.1	NM_004424		T	2284711	C	T	2284711	3	4	590	1	0	0	0	0	1	0	0	0	4876	652	23	1	1763	1	E4F1	16	2284711	Missense_Mutation	SNP	C	TCGA-G7-6793-01A-11D-1961-08	461764	2284711	88070042	36	35158										
SMG1	23049	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	18856756	18856756	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	gggattattctgtacctcttTaaatggaatccagctgctcc	8	10	2	0			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr16:18856756T>C	ENST00000446231.2	-	39	6626	c.6214A>G	c.(6214-6216)Aaa>Gaa	p.K2072E	SMG1_ENST00000389467.3_Missense_Mutation_p.K2072E			Q96Q15	SMG1_HUMAN	SMG1 phosphatidylinositol 3-kinase-related kinase	2072					DNA repair (GO:0006281)|gene expression (GO:0010467)|mRNA export from nucleus (GO:0006406)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|peptidyl-serine phosphorylation (GO:0018105)|phosphatidylinositol phosphorylation (GO:0046854)|protein autophosphorylation (GO:0046777)|response to stress (GO:0006950)|RNA metabolic process (GO:0016070)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			NS(2)|breast(8)|cervix(2)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(16)|lung(37)|ovary(1)|skin(1)|stomach(4)|urinary_tract(1)	92						TGTACCTCTTTAAATGGAATC	0.408																																																0													57	52	54					16																	18856756		1866	4105	5971	SO:0001583	missense	23049			AB061371	CCDS45430.1	16p12.3	2013-07-02	2013-07-02		ENSG00000157106	ENSG00000157106			30045	protein-coding gene	gene with protein product	"phosphatidylinositol 3-kinase-related kinase"	607032	"smg-1 homolog, phosphatidylinositol 3-kinase-related kinase (C. elegans)"			9455477, 11331269, 17229728	Standard	NM_015092		Approved	LIP, KIAA0421, ATX	uc002dfm.3	Q96Q15	OTTHUMG00000166900	ENST00000446231.2:c.6214A>G	16.37:g.18856756T>C	ENSP00000402515:p.Lys2072Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O43305|Q13284|Q8NFX2|Q96QV0|Q96RW3	Missense_Mutation	SNP	ENST00000446231.2	37	CCDS45430.1	.	.	.	.	.	.	.	.	.	.	T	22.1	4.237482	0.79800	.	.	ENSG00000157106	ENST00000446231;ENST00000389467	T;T	0.80824	-1.42;-1.42	5.79	5.79	0.91817	Protein kinase-like domain (1);Armadillo-type fold (1);	0.080055	0.53938	D	0.000055	D	0.90249	0.6951	M	0.86178	2.8	0.80722	D	1	D;P	0.56035	0.974;0.743	D;B	0.67725	0.953;0.305	D	0.91308	0.5072	10	0.59425	D	0.04	.	16.1343	0.81471	0.0:0.0:0.0:1.0	.	1932;2072	Q96Q15-2;Q96Q15	.;SMG1_HUMAN	E	2072	ENSP00000402515:K2072E;ENSP00000374118:K2072E	ENSP00000374118:K2072E	K	-	1	0	SMG1	18764257	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	6.155000	0.71833	2.209000	0.71365	0.533000	0.62120	AAA		0.408	SMG1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000391817.1	NM_015092		C	18856756	T	C	18856756	3	2	590	1	0	0	0	0	1	0	0	0	14808	1763	61	3	4871	3	SMG1	16	18856756	Missense_Mutation	SNP	T	TCGA-G7-6793-01A-11D-1961-08	16572045	18856756	71497997	37	35159										
PDILT	204474	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	20376785	20376785	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	tctttgtcaaagacgactacGttgaagttcttccccacgag	8	11	3	2			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr16:20376785G>A	ENST00000302451.4	-	9	1442	c.1194C>T	c.(1192-1194)aaC>aaT	p.N398N		NM_174924.1	NP_777584.1	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis expressed	398	Thioredoxin. {ECO:0000255|PROSITE- ProRule:PRU00691}.				cell migration (GO:0016477)|cell redox homeostasis (GO:0045454)|multicellular organismal development (GO:0007275)|protein folding (GO:0006457)|spermatid development (GO:0007286)	endoplasmic reticulum (GO:0005783)	protein disulfide isomerase activity (GO:0003756)			breast(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(13)|liver(1)|lung(33)|prostate(3)|skin(1)|urinary_tract(1)	61						AGACGACTACGTTGAAGTTCT	0.448																																																0													175	164	168					16																	20376785		2203	4300	6503	SO:0001819	synonymous_variant	204474				CCDS10584.1	16p12.3	2011-11-10	2009-02-23		ENSG00000169340	ENSG00000169340		"Protein disulfide isomerases"	27338	protein-coding gene	gene with protein product	"protein disulfide isomerase family A, member 7", "protein disulfide isomerase-like protein of the testis"					15475357	Standard	NM_174924		Approved	PDIA7	uc002dhc.1	Q8N807	OTTHUMG00000131487	ENST00000302451.4:c.1194C>T	16.37:g.20376785G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVQ5	Silent	SNP	ENST00000302451.4	37	CCDS10584.1																																																																																				0.448	PDILT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254332.1	NM_174924		A	20376785	G	A	20376785	2	1	590	1	0	0	0	0	0	0	0	1	11681	1136	40	1		1	PDILT	16	20376785	Silent	SNP	G	TCGA-G7-6793-01A-11D-1961-08	1520029	20376785	69977968	38	35160										
RNASEH2A	10535	ucsc.edu	37	chr19	12917561	12917561	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	gcctgtgcccgcggtgtgccGcaaggagccttgcgtcctgg	16	14	0	0			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr19:12917561G>A	ENST00000221486.4	+	1	168	c.74G>A	c.(73-75)cGc>cAc	p.R25H		NM_006397.2	NP_006388.2	O75792	RNH2A_HUMAN	ribonuclease H2, subunit A	25					DNA replication (GO:0006260)|mismatch repair (GO:0006298)|RNA catabolic process (GO:0006401)|RNA phosphodiester bond hydrolysis (GO:0090501)|RNA phosphodiester bond hydrolysis, endonucleolytic (GO:0090502)	nucleus (GO:0005634)|ribonuclease H2 complex (GO:0032299)	metal ion binding (GO:0046872)|ribonuclease activity (GO:0004540)|RNA binding (GO:0003723)|RNA-DNA hybrid ribonuclease activity (GO:0004523)			breast(3)|central_nervous_system(1)|endometrium(2)|large_intestine(3)|lung(3)|skin(1)|urinary_tract(1)	14						GCGGTGTGCCGCAAGGAGCCT	0.706																																																0													17	14	15					19																	12917561		2190	4286	6476	SO:0001583	missense	10535			Z97029	CCDS12282.1	19p13.13	2014-09-17	2006-08-17			ENSG00000104889	3.1.26.-		18518	protein-coding gene	gene with protein product		606034	"ribonuclease H2, large subunit", "Aicardi-Goutieres syndrome 4"			9789007, 16845400	Standard	NM_006397		Approved	RNASEHI, RNHIA, RNHL, AGS4	uc002mvg.1	O75792		ENST00000221486.4:c.74G>A	19.37:g.12917561G>A	ENSP00000221486:p.Arg25His	Somatic		WXS	Illumina HiSeq		B2RCY1|Q96F11	Missense_Mutation	SNP	ENST00000221486.4	37	CCDS12282.1	.	.	.	.	.	.	.	.	.	.	G	23.5	4.425088	0.83667	.	.	ENSG00000104889	ENST00000221486	D	0.83250	-1.7	4.97	1.52	0.23074	.	0.337880	0.30142	N	0.010304	T	0.76449	0.3989	L	0.53249	1.67	0.43381	D	0.995487	D	0.54397	0.966	B	0.42522	0.39	T	0.72316	-0.4330	10	0.59425	D	0.04	-3.1733	7.5491	0.27786	0.0807:0.0:0.6165:0.3028	.	25	O75792	RNH2A_HUMAN	H	25	ENSP00000221486:R25H	ENSP00000221486:R25H	R	+	2	0	RNASEH2A	12778561	0.118000	0.22208	0.974000	0.42286	0.665000	0.39181	0.302000	0.19192	0.105000	0.17753	0.462000	0.41574	CGC		0.706	RNASEH2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451507.1	NM_006397		A	12917561	G	A	12917561	3	1	590	1	0	0	0	0	1	0	0	0	13425	1087	38	1	76	1	RNASEH2A	19	12917561	Missense_Mutation	SNP	G	TCGA-G7-6793-01A-11D-1961-08		12917561	46211422	39	35161										
SYT5	6861	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	55685920	55685920	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	gggcacctcgaagctgaaagCttcgttgtaataggggttca	13	8	1	1			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr19:55685920C>T	ENST00000354308.3	-	8	1294	c.925G>A	c.(925-927)Gct>Act	p.A309T	SYT5_ENST00000590851.1_Missense_Mutation_p.A305T|SYT5_ENST00000537500.1_Missense_Mutation_p.A309T|SYT5_ENST00000592935.1_5'Flank|CTD-2587H24.5_ENST00000591665.1_RNA	NM_003180.2	NP_003171.2	O00445	SYT5_HUMAN	synaptotagmin V	309	C2 2. {ECO:0000255|PROSITE- ProRule:PRU00041}.				calcium ion-dependent exocytosis (GO:0017156)|energy reserve metabolic process (GO:0006112)|regulation of insulin secretion (GO:0050796)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|dense core granule (GO:0031045)|endosome (GO:0005768)|integral component of membrane (GO:0016021)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|perinuclear region of cytoplasm (GO:0048471)|synaptic vesicle (GO:0008021)	calcium-dependent phospholipid binding (GO:0005544)|metal ion binding (GO:0046872)|transporter activity (GO:0005215)			kidney(2)|large_intestine(5)|lung(6)|ovary(1)|prostate(2)|skin(1)|urinary_tract(1)	18			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		AAGCTGAAAGCTTCGTTGTAA	0.527																																																0													190	182	185					19																	55685920		2203	4300	6503	SO:0001583	missense	6861			X96783	CCDS12919.1, CCDS74455.1	19q13.42	2014-07-02			ENSG00000129990	ENSG00000129990		"Synaptotagmins"	11513	protein-coding gene	gene with protein product	"synaptotagmin 5"	600782				9177789	Standard	XM_006723338		Approved		uc002qjn.1	O00445	OTTHUMG00000180669	ENST00000354308.3:c.925G>A	19.37:g.55685920C>T	ENSP00000346265:p.Ala309Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWJ8|B7Z300|Q86X72	Missense_Mutation	SNP	ENST00000354308.3	37	CCDS12919.1	.	.	.	.	.	.	.	.	.	.	C	16.51	3.144796	0.57044	.	.	ENSG00000129990	ENST00000537500;ENST00000354308;ENST00000543844	T;T	0.67345	-0.26;-0.26	3.42	1.23	0.21249	C2 membrane targeting protein (1);C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);	0.175642	0.49305	D	0.000147	T	0.38401	0.1039	N	0.03071	-0.42	0.38441	D	0.946694	B;B;B	0.27594	0.081;0.102;0.182	B;B;B	0.32465	0.146;0.026;0.092	T	0.23048	-1.0199	10	0.66056	D	0.02	.	5.0538	0.14522	0.4913:0.4025:0.0:0.1062	.	305;308;309	B7Z300;Q4FD32;O00445	.;.;SYT5_HUMAN	T	309;309;305	ENSP00000442896:A309T;ENSP00000346265:A309T	ENSP00000346265:A309T	A	-	1	0	SYT5	60377732	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	0.882000	0.28186	0.442000	0.26555	0.561000	0.74099	GCT		0.527	SYT5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452501.1	NM_003180		T	55685920	C	T	55685920	3	4	590	1	0	0	0	0	1	0	0	0	15489	797	28	2	243	2	SYT5	19	55685920	Missense_Mutation	SNP	C	TCGA-G7-6793-01A-11D-1961-08	42768359	55685920	3443063	40	35162										
ZNF549	256051	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	58049607	58049607	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	tgatcaccatagaatccacaCgggagaaaggccttatgagt	10	9	1	4	rs531934209		TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr19:58049607C>G	ENST00000376233.3	+	4	1416	c.1235C>G	c.(1234-1236)aCg>aGg	p.T412R	ZNF549_ENST00000240719.3_Missense_Mutation_p.T399R|ZNF549_ENST00000594943.1_Intron|ZNF549_ENST00000602149.1_Intron|ZNF550_ENST00000601415.1_Intron	NM_001199295.1	NP_001186224	Q6P9A3	ZN549_HUMAN	zinc finger protein 549	412					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(3)|endometrium(1)|kidney(1)|large_intestine(8)|lung(3)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	21		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)		AGAATCCACACGGGAGAAAGG	0.433																																																0													58	59	59					19																	58049607		2203	4300	6503	SO:0001583	missense	256051			AK092236	CCDS12952.1, CCDS56106.1	19q13.43	2013-01-08				ENSG00000121406		"Zinc fingers, C2H2-type", "-"	26632	protein-coding gene	gene with protein product						12477932	Standard	NM_153263		Approved	FLJ34917	uc002qpb.2	Q6P9A3		ENST00000376233.3:c.1235C>G	19.37:g.58049607C>G	ENSP00000365407:p.Thr412Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B3KV91|O43336|Q8NAR4	Missense_Mutation	SNP	ENST00000376233.3	37	CCDS56106.1	.	.	.	.	.	.	.	.	.	.	C	16.55	3.153855	0.57259	.	.	ENSG00000121406	ENST00000240719;ENST00000376233	T;T	0.25749	1.78;1.78	2.35	-0.274	0.12910	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.37489	0.1005	L	0.46885	1.475	0.31073	N	0.712839	D;D	0.89917	1.0;1.0	D;D	0.87578	0.987;0.998	T	0.39683	-0.9602	9	0.72032	D	0.01	.	6.4994	0.22160	0.0:0.6894:0.1838:0.1268	.	412;399	Q6P9A3;Q6P9A3-2	ZN549_HUMAN;.	R	399;412	ENSP00000240719:T399R;ENSP00000365407:T412R	ENSP00000240719:T399R	T	+	2	0	ZNF549	62741419	0.892000	0.30473	0.923000	0.36655	0.989000	0.77384	2.036000	0.41165	0.319000	0.23209	0.585000	0.79938	ACG		0.433	ZNF549-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000466780.1	NM_153263		G	58049607	C	G	58049607	3	3	590	1	0	0	0	0	1	0	0	0	17993	536	19	4	1206	4	ZNF549	19	58049607	Missense_Mutation	SNP	C	TCGA-G7-6793-01A-11D-1961-08	2363687	58049607	1079376	41	35163										
ZIK1	284307	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	58101980	58101980	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	catactggagaaaggccttgGgagtgcaatgaatgtggaaa	14	5	0	2	rs577749417		TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr19:58101980G>C	ENST00000597850.1	+	4	1016	c.801G>C	c.(799-801)tgG>tgC	p.W267C	ZIK1_ENST00000599456.1_Missense_Mutation_p.W212C|ZIK1_ENST00000536878.2_Missense_Mutation_p.W254C|ZIK1_ENST00000307468.4_3'UTR	NM_001010879.2	NP_001010879.2	Q3SY52	ZIK1_HUMAN	zinc finger protein interacting with K protein 1	267					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(10)|prostate(2)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	34		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;0.0257)		AAAGGCCTTGGGAGTGCAATG	0.473																																																0													58	59	58					19																	58101980		2203	4300	6503	SO:0001583	missense	284307			AK092538	CCDS33135.1	19q13.43	2013-01-08	2012-12-07		ENSG00000171649	ENSG00000171649		"Zinc fingers, C2H2-type", "-"	33104	protein-coding gene	gene with protein product			"zinc finger protein interacting with K protein 1 homolog (mouse)"				Standard	XM_005258769		Approved	ZNF762	uc002qpg.3	Q3SY52		ENST00000597850.1:c.801G>C	19.37:g.58101980G>C	ENSP00000472867:p.Trp267Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O43339|Q3SY51|Q3SY53	Missense_Mutation	SNP	ENST00000597850.1	37	CCDS33135.1	.	.	.	.	.	.	.	.	.	.	G	14.31	2.497409	0.44455	.	.	ENSG00000171649	ENST00000536878;ENST00000356724;ENST00000307468	T	0.17691	2.26	3.37	-2.36	0.06663	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.09992	0.0245	N	0.01438	-0.865	0.09310	N	0.999996	D;D	0.69078	0.997;0.993	P;P	0.60173	0.821;0.87	T	0.15178	-1.0446	9	0.87932	D	0	.	2.8351	0.05512	0.1183:0.0948:0.3259:0.4609	.	254;267	F5H435;Q3SY52	.;ZIK1_HUMAN	C	254;248;267	ENSP00000438487:W254C	ENSP00000303820:W267C	W	+	3	0	ZIK1	62793792	0.000000	0.05858	0.000000	0.03702	0.547000	0.35210	-1.932000	0.01554	-0.690000	0.05142	-0.182000	0.12963	TGG		0.473	ZIK1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000466791.1	NM_001010879		C	58101980	G	C	58101980	3	2	590	1	0	0	0	0	1	0	0	0	17695	1241	43	4	815	4	ZIK1	19	58101980	Missense_Mutation	SNP	G	TCGA-G7-6793-01A-11D-1961-08	52373	58101980	1027003	42	35164										
USP25	29761	broad.mit.edu	37	chr21	17138432	17138432	+	Nonsense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	cttcctggcaatgatagataCatcagtgtgggaagccaagc	11	9	1	2			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chr21:17138432C>G	ENST00000285679.6	+	3	609	c.240C>G	c.(238-240)taC>taG	p.Y80*	USP25_ENST00000351097.5_Nonsense_Mutation_p.Y80*|USP25_ENST00000400183.2_Nonsense_Mutation_p.Y80*|USP25_ENST00000285681.2_Nonsense_Mutation_p.Y80*	NM_013396.3	NP_037528.3	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	80	SUMO interaction domain (SIM).				cellular protein modification process (GO:0006464)|protein K48-linked deubiquitination (GO:0071108)|protein K63-linked deubiquitination (GO:0070536)|proteolysis (GO:0006508)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	peptidase activity (GO:0008233)|SUMO binding (GO:0032183)|ubiquitin-specific protease activity (GO:0004843)			breast(4)|endometrium(6)|kidney(2)|large_intestine(13)|liver(5)|lung(14)|ovary(4)|prostate(1)|skin(1)|urinary_tract(2)	52				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)		ATGATAGATACATCAGTGTGG	0.368																																																0													108	98	101					21																	17138432		2203	4300	6503	SO:0001587	stop_gained	29761			AF170562	CCDS33515.1, CCDS63336.1, CCDS63337.1	21q11.2	2011-02-24	2005-08-08		ENSG00000155313	ENSG00000155313		"Ubiquitin-specific peptidases"	12624	protein-coding gene	gene with protein product		604736	"ubiquitin specific protease 25"			12838346, 10612803	Standard	NM_013396		Approved	USP21	uc002yjy.1	Q9UHP3	OTTHUMG00000074343	ENST00000285679.6:c.240C>G	21.37:g.17138432C>G	ENSP00000285679:p.Tyr80*	Somatic		WXS	Illumina HiSeq	Phase_I	C0LSZ0|Q6DHZ9|Q9H9W1	Nonsense_Mutation	SNP	ENST00000285679.6	37	CCDS33515.1	.	.	.	.	.	.	.	.	.	.	c	36	5.933887	0.97122	.	.	ENSG00000155313	ENST00000285681;ENST00000285679;ENST00000351097;ENST00000400183	.	.	.	5.42	0.564	0.17302	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	9.7186	0.40289	0.0:0.6591:0.0:0.3409	.	.	.	.	X	80	.	ENSP00000285679:Y80X	Y	+	3	2	USP25	16060303	0.926000	0.31397	0.996000	0.52242	0.828000	0.46876	0.110000	0.15437	0.035000	0.15519	-0.993000	0.02533	TAC		0.368	USP25-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157964.1			G	17138432	C	G	17138432	4	3	590	1	0	0	0	0	0	1	0	0	17068	489	17	4	250	4	USP25	21	17138432	Nonsense_Mutation	SNP	C	TCGA-G7-6793-01A-11D-1961-08		17138432	30991463	43	35165										
RBBP7	5931	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	16864059	16864059	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	gcagtgtgtcctccatgaatAaactgttacaagaacaaaaa	7	8	0	2			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chrX:16864059A>G	ENST00000380087.2	-	11	1461	c.1101T>C	c.(1099-1101)ttT>ttC	p.F367F	RBBP7_ENST00000380084.4_Silent_p.F411F|RBBP7_ENST00000404022.1_Silent_p.F358F			Q16576	RBBP7_HUMAN	retinoblastoma binding protein 7	367					cell proliferation (GO:0008283)|cellular heat acclimation (GO:0070370)|CENP-A containing nucleosome assembly (GO:0034080)|chromatin organization (GO:0006325)|DNA replication (GO:0006260)|multicellular organismal development (GO:0007275)|negative regulation of cell growth (GO:0030308)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nucleosome assembly (GO:0006334)|transcription, DNA-templated (GO:0006351)	ESC/E(Z) complex (GO:0035098)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|NuRD complex (GO:0016581)	RNA binding (GO:0003723)			biliary_tract(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(2)|ovary(2)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	25	Hepatocellular(33;0.0997)					CTCCATGAATAAACTGTTACA	0.363																																																0													59	54	56					X																	16864059		2203	4300	6503	SO:0001819	synonymous_variant	5931			U35143	CCDS14179.1, CCDS56598.1	Xp22.22	2013-01-10	2001-11-28		ENSG00000102054	ENSG00000102054		"WD repeat domain containing"	9890	protein-coding gene	gene with protein product	"G1/S transition control protein-binding protein RbAp46", "retinoblastoma-binding protein 7", "retinoblastoma-binding protein RbAp46", "histone acetyltransferase type B subunit 2", "retinoblastoma-binding protein p46"	300825	"retinoblastoma-binding protein 7"			7503932	Standard	NM_002893		Approved	RbAp46	uc004cxs.2	Q16576	OTTHUMG00000021198	ENST00000380087.2:c.1101T>C	X.37:g.16864059A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JP00	Silent	SNP	ENST00000380087.2	37	CCDS14179.1																																																																																				0.363	RBBP7-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055920.2	NM_002893		G	16864059	A	G	16864059	2	3	590	1	0	0	0	0	0	0	0	1	13117	359	13	3		3	RBBP7	23	16864059	Silent	SNP	A	TCGA-G7-6793-01A-11D-1961-08		16864059	138406501	44	35166										
ITIH5L	347365	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	54777529	54777529	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	ggtactgggatgcctgtagcGgtgtcggaggactaggaact	17	7	0	0			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chrX:54777529G>A	ENST00000218436.6	-	12	3666	c.3637C>T	c.(3637-3639)Cgc>Tgc	p.R1213C		NM_198510.2	NP_940912.1	Q6UXX5	ITIH6_HUMAN	inter-alpha-trypsin inhibitor heavy chain family, member 6	1213					hyaluronan metabolic process (GO:0030212)	extracellular region (GO:0005576)	serine-type endopeptidase inhibitor activity (GO:0004867)										TGCCTGTAGCGGTGTCGGAGG	0.632																																																0													40	32	35					X																	54777529		2202	4299	6501	SO:0001583	missense	347365			AY358170	CCDS14361.1	Xp11.22-p11.21	2011-10-26	2011-10-26	2011-10-26	ENSG00000102313	ENSG00000102313			28907	protein-coding gene	gene with protein product			"inter-alpha (globulin) inhibitor H5-like"	ITIH5L		12975309	Standard	NM_198510		Approved	UNQ6369	uc004dtj.2	Q6UXX5	OTTHUMG00000021634	ENST00000218436.6:c.3637C>T	X.37:g.54777529G>A	ENSP00000218436:p.Arg1213Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NN03	Missense_Mutation	SNP	ENST00000218436.6	37	CCDS14361.1	.	.	.	.	.	.	.	.	.	.	G	8.570	0.879748	0.17467	.	.	ENSG00000102313	ENST00000218436	T	0.13778	2.56	3.58	0.739	0.18324	Inter-alpha-trypsin inhibitor heavy chain, C-terminal (1);	1.511080	0.04820	U	0.436715	T	0.14874	0.0359	L	0.48642	1.525	0.28420	N	0.917793	B	0.15141	0.012	B	0.08055	0.003	T	0.35919	-0.9769	10	0.87932	D	0	.	7.9091	0.29780	0.2917:0.0:0.7083:0.0	.	1213	Q6UXX5	ITH5L_HUMAN	C	1213	ENSP00000218436:R1213C	ENSP00000218436:R1213C	R	-	1	0	ITIH5L	54794254	0.236000	0.23804	0.001000	0.08648	0.494000	0.33585	0.980000	0.29513	-0.321000	0.08627	0.287000	0.19450	CGC		0.632	ITIH6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056814.2	NM_198510		A	54777529	G	A	54777529	3	1	590	1	0	0	0	0	1	0	0	0	7915	1116	39	1	312	1	ITIH5L	23	54777529	Missense_Mutation	SNP	G	TCGA-G7-6793-01A-11D-1961-08	37913470	54777529	100493031	45	35167										
ALAS2	212	broad.mit.edu	37	chrX	55051151	55051151	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	aggtggaacttgactccaacCtgtcttgaaagccttcacat	8	11	2	2			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chrX:55051151C>A	ENST00000330807.5	-	3	441	c.304G>T	c.(304-306)Gat>Tat	p.D102Y	ALAS2_ENST00000396198.3_Splice_Site_p.G126*|ALAS2_ENST00000335854.4_Splice_Site_p.G102*	NM_000032.4	NP_000023.2	P22557	HEM0_HUMAN	aminolevulinate, delta-, synthase 2	102					cellular iron ion homeostasis (GO:0006879)|erythrocyte differentiation (GO:0030218)|heme biosynthetic process (GO:0006783)|hemoglobin biosynthetic process (GO:0042541)|oxygen homeostasis (GO:0032364)|porphyrin-containing compound metabolic process (GO:0006778)|protoporphyrinogen IX biosynthetic process (GO:0006782)|response to hypoxia (GO:0001666)|small molecule metabolic process (GO:0044281)	mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	5-aminolevulinate synthase activity (GO:0003870)|coenzyme binding (GO:0050662)|glycine binding (GO:0016594)|pyridoxal phosphate binding (GO:0030170)			central_nervous_system(1)|kidney(2)|large_intestine(6)|lung(4)|ovary(1)|prostate(2)|skin(1)	17					Glycine(DB00145)	TGACTCCAACCTGTCTTGAAA	0.493																																																0													224	136	166					X																	55051151		2203	4300	6503	SO:0001630	splice_region_variant	212				CCDS14366.1, CCDS35303.1, CCDS43960.1	Xp11.21	2008-02-05	2008-02-04		ENSG00000158578	ENSG00000158578	2.3.1.37		397	protein-coding gene	gene with protein product	"sideroblastic/hypochromic anemia"	301300	"aminolevulinate, delta-, synthase 2 (sideroblastic/hypochromic anemia)"	ASB		1577484	Standard	NM_000032		Approved		uc004dua.4	P22557	OTTHUMG00000021641	ENST00000330807.5:c.304+1G>T	X.37:g.55051151C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K3F0|A8K6C4|Q13735|Q5JZF5|Q8N6H3	Nonsense_Mutation	SNP	ENST00000330807.5	37	CCDS14366.1	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	C|C|C	33|33|33	5.289644|5.289644|5.289644	0.95546|0.95546|0.95546	.|.|.	.|.|.	ENSG00000158578|ENSG00000158578|ENSG00000158578	ENST00000330807|ENST00000396198;ENST00000335854|ENST00000455688	D|.|.	0.96856|.|.	-4.15|.|.	4.75|4.75|4.75	4.75|4.75|4.75	0.60458|0.60458|0.60458	.|.|.	0.743369|.|.	0.12618|.|.	N|.|.	0.453284|.|.	T|.|T	0.55114|.|0.55114	0.1900|.|0.1900	L|L|L	0.29908|0.29908|0.29908	0.895|0.895|0.895	0.80722|0.80722|0.80722	A|A|A	1|1|1	P|.|.	0.39311|.|.	0.667|.|.	B|.|.	0.35859|.|.	0.212|.|.	T|.|T	0.60732|.|0.60732	-0.7205|.|-0.7205	8|.|4	.|.|.	.|.|.	.|.|.	-4.8311|-4.8311|-4.8311	15.9952|15.9952|15.9952	0.80234|0.80234|0.80234	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.|.	102|.|.	P22557|.|.	HEM0_HUMAN|.|.	Y|X|H	102|126;102|53	ENSP00000332369:D102Y|.|.	.|.|.	D|G|Q	-|-|-	1|1|3	0|0|2	ALAS2|ALAS2|ALAS2	55067876|55067876|55067876	1.000000|1.000000|1.000000	0.71417|0.71417|0.71417	1.000000|1.000000|1.000000	0.80357|0.80357|0.80357	0.662000|0.662000|0.662000	0.39071|0.39071|0.39071	5.652000|5.652000|5.652000	0.67959|0.67959|0.67959	2.110000|2.110000|2.110000	0.64415|0.64415|0.64415	0.600000|0.600000|0.600000	0.82982|0.82982|0.82982	GAT|GGA|CAG		0.493	ALAS2-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056843.3	NM_000032	Missense_Mutation	A	55051151	C	A	55051151	5	1	590	1	0	0	0	0	0	0	1	0	485	695	24	4	1495	4	ALAS2	23	55051151	Splice_Site	SNP	C	TCGA-G7-6793-01A-11D-1961-08	273622	55051151	100219409	46	35168										
MED12	9968	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	70349198	70349198	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	taggaatccgctcctcctgcGaccgccacctgctggctgcc	10	18	0	0			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chrX:70349198G>T	ENST00000374080.3	+	26	3642	c.3610G>T	c.(3610-3612)Gac>Tac	p.D1204Y	MED12_ENST00000374102.1_Missense_Mutation_p.D1204Y|MED12_ENST00000333646.6_Missense_Mutation_p.D1204Y			Q93074	MED12_HUMAN	mediator complex subunit 12	1204					androgen receptor signaling pathway (GO:0030521)|axis elongation involved in somitogenesis (GO:0090245)|canonical Wnt signaling pathway (GO:0060070)|gene expression (GO:0010467)|heart development (GO:0007507)|intracellular steroid hormone receptor signaling pathway (GO:0030518)|negative regulation of Wnt signaling pathway (GO:0030178)|neural tube closure (GO:0001843)|oligodendrocyte development (GO:0014003)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|Schwann cell development (GO:0014044)|stem cell maintenance (GO:0019827)|transcription initiation from RNA polymerase II promoter (GO:0006367)|Wnt signaling pathway, planar cell polarity pathway (GO:0060071)	mediator complex (GO:0016592)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|protein C-terminus binding (GO:0008022)|protein domain specific binding (GO:0019904)|receptor activity (GO:0004872)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II transcription cofactor activity (GO:0001104)|RNA polymerase II transcription factor binding transcription factor activity involved in positive regulation of transcription (GO:0001190)|thyroid hormone receptor binding (GO:0046966)|transcription coactivator activity (GO:0003713)|transcription cofactor activity (GO:0003712)|vitamin D receptor binding (GO:0042809)			breast(6)|central_nervous_system(2)|endometrium(22)|kidney(5)|large_intestine(8)|lung(31)|ovary(2)|pancreas(1)|prostate(11)|skin(5)|soft_tissue(323)|upper_aerodigestive_tract(1)|urinary_tract(3)	420	Renal(35;0.156)					CTCCTCCTGCGACCGCCACCT	0.572			"M, S"		uterine leiomyoma		Opitz-Kaveggia Syndrome				OREG0019857	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																											Dom	yes		X	Xq13	9968	mediator complex subunit 12	Yes	M	0													51	54	53					X																	70349198		2101	4209	6310	SO:0001583	missense	9968			U80742	CCDS43970.1	Xq13	2011-02-14	2007-07-30	2004-11-26	ENSG00000184634	ENSG00000184634			11957	protein-coding gene	gene with protein product		300188	"trinucleotide repeat containing 11 (THR-associated protein, 230kDa subunit)", "mediator of RNA polymerase II transcription, subunit 12 homolog (S. cerevisiae)", "FG syndrome 1"	TNRC11, FGS1		9225980, 10198638, 17334363, 20507344	Standard	NM_005120		Approved	CAGH45, HOPA, OPA1, TRAP230, KIAA0192, OKS	uc004dyy.3	Q93074	OTTHUMG00000021788	ENST00000374080.3:c.3610G>T	X.37:g.70349198G>T	ENSP00000363193:p.Asp1204Tyr	Somatic	1121	WXS	Illumina HiSeq	Phase_I	O15410|O75557|Q9UHV6|Q9UND7	Missense_Mutation	SNP	ENST00000374080.3	37	CCDS43970.1	.	.	.	.	.	.	.	.	.	.	.	21.5	4.165566	0.78339	.	.	ENSG00000184634	ENST00000333646;ENST00000536756;ENST00000374102;ENST00000374080;ENST00000430072	T;T;T;T	0.34859	1.34;1.34;1.34;1.34	4.98	4.98	0.66077	.	0.000000	0.85682	D	0.000000	T	0.61085	0.2319	M	0.72353	2.195	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	1.0;1.0;1.0;1.0	T	0.65335	-0.6193	10	0.87932	D	0	-21.5589	17.7452	0.88419	0.0:0.0:1.0:0.0	.	1204;1051;1204;1204	F5H3Y1;Q7Z3Z5;Q93074-3;Q93074	.;.;.;MED12_HUMAN	Y	1204;1204;1204;1204;1172	ENSP00000333125:D1204Y;ENSP00000363215:D1204Y;ENSP00000363193:D1204Y;ENSP00000414203:D1172Y	ENSP00000333125:D1204Y	D	+	1	0	MED12	70265923	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	8.894000	0.92506	2.465000	0.83290	0.529000	0.55759	GAC		0.572	MED12-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000057105.1	NM_005120		T	70349198	G	T	70349198	3	4	590	1	0	0	0	0	1	0	0	0	9435	1058	37	4	3712	4	MED12	23	70349198	Missense_Mutation	SNP	G	TCGA-G7-6793-01A-11D-1961-08	15298047	70349198	84921362	47	35169										
ARHGEF6	9459	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	135825892	135825892	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0208333333333333	1	1	0.323567708333333	0	0.456801470588235	1	1	0	tcatcctcattagtctgcttAaagttgaatcttgcttttac	5	9	4	1			TCGA-G7-6793-01A-11D-1961-08	TCGA-G7-6793-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7ab802f1-4c29-4c65-9073-b2b17d3a7bba	33f384e6-bc1d-4ef9-8886-7319f51cd68b	g.chrX:135825892A>T	ENST00000250617.6	-	5	1718	c.513T>A	c.(511-513)ttT>ttA	p.F171L	ARHGEF6_ENST00000370620.1_Missense_Mutation_p.F17L|ARHGEF6_ENST00000535227.1_Missense_Mutation_p.F17L|ARHGEF6_ENST00000370622.1_Missense_Mutation_p.F17L	NM_004840.2	NP_004831.1	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor (GEF) 6	171	SH3. {ECO:0000255|PROSITE- ProRule:PRU00192}.				apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|cell junction assembly (GO:0034329)|JNK cascade (GO:0007254)|lamellipodium assembly (GO:0030032)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|positive regulation of Rho GTPase activity (GO:0032321)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cell-cell junction (GO:0005911)|cytosol (GO:0005829)|intracellular (GO:0005622)|lamellipodium (GO:0030027)	GTPase activator activity (GO:0005096)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(12)|liver(1)|lung(14)|prostate(1)	38	Acute lymphoblastic leukemia(192;0.000127)					TAGTCTGCTTAAAGTTGAATC	0.413																																																0													193	158	170					X																	135825892		2203	4300	6503	SO:0001583	missense	9459			D13631	CCDS14660.1	Xq26	2013-01-10	2002-05-23		ENSG00000129675	ENSG00000129675		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	685	protein-coding gene	gene with protein product	"Rac/Cdc42 guanine exchange factor (GEF) 6", "PAK-interacting exchange factor, alpha", "rho guanine nucleotide exchange factor 6"	300267	"mental retardation, X-linked 46"	MRX46		7584048, 9659915	Standard	NM_004840		Approved	alphaPIX, Cool-2, KIAA0006, alpha-PIX, Cool2	uc004fab.3	Q15052	OTTHUMG00000022518	ENST00000250617.6:c.513T>A	X.37:g.135825892A>T	ENSP00000250617:p.Phe171Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMW9|A8K6S7|B1AL37|Q15396|Q5JQ66|Q7Z3W1|Q86XH0	Missense_Mutation	SNP	ENST00000250617.6	37	CCDS14660.1	.	.	.	.	.	.	.	.	.	.	A	24.4	4.525856	0.85600	.	.	ENSG00000129675	ENST00000250617;ENST00000370620;ENST00000370622;ENST00000535736;ENST00000535227	T;T;T;T	0.42513	0.97;0.97;0.97;0.97	6.08	2.47	0.30058	Src homology-3 domain (3);Variant SH3 (1);	0.000000	0.85682	D	0.000000	T	0.60869	0.2302	M	0.78916	2.43	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.83275	0.994;0.996	T	0.58763	-0.7579	10	0.72032	D	0.01	.	8.7263	0.34471	0.7085:0.0:0.2915:0.0	.	17;171	B7Z3C7;Q15052	.;ARHG6_HUMAN	L	171;17;17;17;17	ENSP00000250617:F171L;ENSP00000359654:F17L;ENSP00000359656:F17L;ENSP00000439483:F17L	ENSP00000250617:F171L	F	-	3	2	ARHGEF6	135653558	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.119000	0.50422	0.071000	0.16664	0.486000	0.48141	TTT		0.413	ARHGEF6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058511.2	NM_004840		T	135825892	A	T	135825892	3	4	590	1	0	0	0	0	1	0	0	0	910	359	13	5	1889	5	ARHGEF6	23	135825892	Missense_Mutation	SNP	A	TCGA-G7-6793-01A-11D-1961-08	65476694	135825892	19444668	48	35170										
CC2D1B	200014	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	52819228	52819228	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ccagaaccagccagttctcaGtgaccatctgcacatcctgg	8	15	2	2			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr1:52819228G>C	ENST00000371586.2	-	24	2678	c.2540C>G	c.(2539-2541)aCt>aGt	p.T847S	RP11-155O18.6_ENST00000606527.1_RNA|CC2D1B_ENST00000460261.1_5'UTR|CC2D1B_ENST00000284376.3_Missense_Mutation_p.T841S	NM_032449.2	NP_115825.1	Q5T0F9	C2D1B_HUMAN	coiled-coil and C2 domain containing 1B	847						nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)			breast(1)|large_intestine(6)|lung(13)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	27						CCAGTTCTCAGTGACCATCTG	0.592																																																0													48	46	47					1																	52819228		2203	4300	6503	SO:0001583	missense	200014			AB058739	CCDS30714.1	1p32.3	2008-02-05			ENSG00000154222	ENSG00000154222			29386	protein-coding gene	gene with protein product						11347906	Standard	NM_032449		Approved	KIAA1836	uc001ctq.2	Q5T0F9	OTTHUMG00000008102	ENST00000371586.2:c.2540C>G	1.37:g.52819228G>C	ENSP00000360642:p.Thr847Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q49AE8|Q5T0F8|Q5T0G0|Q6ZNQ1|Q96AP3|Q96I04|Q96JJ1	Missense_Mutation	SNP	ENST00000371586.2	37	CCDS30714.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	16.43|16.43	3.121445|3.121445	0.56613|0.56613	.|.	.|.	ENSG00000154222|ENSG00000154222	ENST00000450942|ENST00000371586;ENST00000284376	.|T;T	.|0.21543	.|2.0;2.0	4.97|4.97	4.06|4.06	0.47325|0.47325	.|.	.|0.215167	.|0.44483	.|D	.|0.000459	T|T	0.27524|0.27524	0.0676|0.0676	L|L	0.53249|0.53249	1.67|1.67	0.80722|0.80722	D|D	1|1	.|P;P	.|0.43477	.|0.808;0.757	.|P;B	.|0.46026	.|0.501;0.327	T|T	0.03051|0.03051	-1.1078|-1.1078	5|10	.|0.48119	.|T	.|0.1	-6.0069|-6.0069	13.5782|13.5782	0.61888|0.61888	0.0745:0.0:0.9255:0.0|0.0745:0.0:0.9255:0.0	.|.	.|841;847	.|Q5T0F9-2;Q5T0F9	.|.;C2D1B_HUMAN	V|S	761|847;841	.|ENSP00000360642:T847S;ENSP00000284376:T841S	.|ENSP00000284376:T841S	L|T	-|-	1|2	2|0	CC2D1B|CC2D1B	52591816|52591816	1.000000|1.000000	0.71417|0.71417	0.830000|0.830000	0.32933|0.32933	0.821000|0.821000	0.46438|0.46438	6.187000|6.187000	0.72039|0.72039	1.323000|1.323000	0.45263|0.45263	0.561000|0.561000	0.74099|0.74099	CTG|ACT		0.592	CC2D1B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000022189.1	NM_032449		C	52819228	G	C	52819228	3	2	591	1	0	0	0	0	1	0	0	0	2729	1029	36	4	40	4	CC2D1B	1	52819228	Missense_Mutation	SNP	G	TCGA-G7-6795-01A-11D-1961-08		52819228	196431393	1	35171										
DPYD	1806	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	98058809	98058809	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tcttatattaacaaagccttTtctgaagacgatgaacacac	5	9	2	3			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr1:98058809T>A	ENST00000370192.3	-	10	1193	c.1093A>T	c.(1093-1095)Aaa>Taa	p.K365*		NM_000110.3	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase	365					beta-alanine biosynthetic process (GO:0019483)|nucleobase-containing small molecule metabolic process (GO:0055086)|purine nucleobase catabolic process (GO:0006145)|pyrimidine nucleobase catabolic process (GO:0006208)|pyrimidine nucleobase metabolic process (GO:0006206)|pyrimidine nucleoside catabolic process (GO:0046135)|small molecule metabolic process (GO:0044281)|thymidine catabolic process (GO:0006214)|thymine catabolic process (GO:0006210)|UMP biosynthetic process (GO:0006222)|uracil catabolic process (GO:0006212)	cytoplasm (GO:0005737)|cytosol (GO:0005829)	4 iron, 4 sulfur cluster binding (GO:0051539)|dihydroorotate dehydrogenase activity (GO:0004152)|dihydropyrimidine dehydrogenase (NADP+) activity (GO:0017113)|flavin adenine dinucleotide binding (GO:0050660)|metal ion binding (GO:0046872)|NADP binding (GO:0050661)|protein homodimerization activity (GO:0042803)			NS(2)|breast(4)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(18)|lung(30)|ovary(4)|prostate(6)|skin(7)|upper_aerodigestive_tract(1)	83		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)|Flavin adenine dinucleotide(DB03147)|Fluorouracil(DB00544)	ACAAAGCCTTTTCTGAAGACG	0.448																																																0													119	116	117					1																	98058809		2203	4300	6503	SO:0001587	stop_gained	1806			U20938	CCDS30777.1, CCDS53346.1	1p22	2014-09-17			ENSG00000188641	ENSG00000188641	1.3.1.2		3012	protein-coding gene	gene with protein product		612779				7713523	Standard	NM_000110		Approved	DPD	uc001drv.3	Q12882	OTTHUMG00000039683	ENST00000370192.3:c.1093A>T	1.37:g.98058809T>A	ENSP00000359211:p.Lys365*	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRQ2|A2RRQ3|A8K5A2|A8MWG9|B1AN21|E9PFN1|Q16694|Q16761|Q32NB0|Q96HL6|Q96TH1	Nonsense_Mutation	SNP	ENST00000370192.3	37	CCDS30777.1	.	.	.	.	.	.	.	.	.	.	T	39	7.840231	0.98519	.	.	ENSG00000188641	ENST00000370192	.	.	.	6.17	6.17	0.99709	.	0.048348	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-20.3061	15.3933	0.74767	0.0:0.0:0.0:1.0	.	.	.	.	X	365	.	ENSP00000359211:K365X	K	-	1	0	DPYD	97831397	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.664000	0.68045	2.371000	0.80710	0.533000	0.62120	AAA		0.448	DPYD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000095698.3	NM_000110		A	98058809	T	A	98058809	4	1	591	1	0	0	0	0	0	1	0	0	4747	1850	64	5	2040	5	DPYD	1	98058809	Nonsense_Mutation	SNP	T	TCGA-G7-6795-01A-11D-1961-08	45239581	98058809	151191812	2	35172										
YY1AP1	55249	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	155630357	155630357	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tgtattgggtgaggaatccgGagcaccattttgctcggagg	15	7	0	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr1:155630357G>A	ENST00000295566.4	-	11	1505	c.1482C>T	c.(1480-1482)ctC>ctT	p.L494L	YY1AP1_ENST00000404643.1_Silent_p.L428L|YY1AP1_ENST00000368339.5_Silent_p.L586L|YY1AP1_ENST00000535662.1_Silent_p.L294L|YY1AP1_ENST00000407221.1_Silent_p.L417L|YY1AP1_ENST00000368330.2_Silent_p.L448L|YY1AP1_ENST00000368340.5_Silent_p.L566L|YY1AP1_ENST00000347088.5_Silent_p.L448L|YY1AP1_ENST00000361831.5_Silent_p.L437L|YY1AP1_ENST00000311573.5_Silent_p.L417L|YY1AP1_ENST00000355499.4_Silent_p.L448L|MSTO1_ENST00000452804.2_Intron|YY1AP1_ENST00000359205.5_Silent_p.L437L|MSTO1_ENST00000538143.1_Intron	NM_001198906.1|NM_139118.2	NP_001185835.1|NP_620829.1	Q9H869	YYAP1_HUMAN	YY1 associated protein 1	494					regulation of cell cycle (GO:0051726)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(6)|liver(1)|lung(7)|ovary(2)|skin(2)|urinary_tract(2)	31	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					GAGGAATCCGGAGCACCATTT	0.552																																																0													55	65	62					1																	155630357		2203	4300	6503	SO:0001819	synonymous_variant	55249			BC008766	CCDS1115.1, CCDS1116.1, CCDS55643.1, CCDS55644.1, CCDS55645.1	1q22	2009-05-07			ENSG00000163374	ENSG00000163374			30935	protein-coding gene	gene with protein product		607860				11710830	Standard	NM_139119		Approved	YY1AP, HCCA2, YAP		Q9H869	OTTHUMG00000035437	ENST00000295566.4:c.1482C>T	1.37:g.155630357G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B0QZ54|B4DMP2|B4E0I0|D3DV96|D3DV98|H7BY62|Q5VYZ1|Q5VYZ4|Q5VYZ7|Q7L4C3|Q7L5E2|Q8IXA6|Q8TEW5|Q8TF04|Q96HB6|Q9BQ64|Q9NV84	Silent	SNP	ENST00000295566.4	37	CCDS1115.1																																																																																				0.552	YY1AP1-043	PUTATIVE	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000086027.1	NM_139118		A	155630357	G	A	155630357	2	1	591	1	0	0	0	0	0	0	0	1	17520	1161	41	2		2	YY1AP1	1	155630357	Silent	SNP	G	TCGA-G7-6795-01A-11D-1961-08	57571548	155630357	93620264	3	35173										
RHBG	57127	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	156347130	156347130	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ccatggtcttcgtgggctttGgcttcctcatggtcttcctg	11	12	3	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr1:156347130G>C	ENST00000368249.1	+	2	264	c.226G>C	c.(226-228)Ggc>Cgc	p.G76R	RHBG_ENST00000255013.3_Missense_Mutation_p.G7R|RHBG_ENST00000400992.2_Missense_Mutation_p.G7R|RHBG_ENST00000368246.2_Missense_Mutation_p.G76R|RHBG_ENST00000451864.2_Missense_Mutation_p.G7R|RHBG_ENST00000537040.1_Intron	NM_001256396.1|NM_020407.4	NP_001243325.1|NP_065140.3	Q9H310	RHBG_HUMAN	Rh family, B glycoprotein (gene/pseudogene)	76			G -> D (in dbSNP:rs2245623). {ECO:0000269|PubMed:14702039, ECO:0000269|Ref.5}.		ammonium transmembrane transport (GO:0072488)|ammonium transport (GO:0015696)|transepithelial ammonium transport (GO:0070634)|transmembrane transport (GO:0055085)	anchored component of plasma membrane (GO:0046658)|basolateral plasma membrane (GO:0016323)|cytoplasmic vesicle (GO:0031410)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|spectrin-associated cytoskeleton (GO:0014731)	ammonium transmembrane transporter activity (GO:0008519)|ankyrin binding (GO:0030506)			endometrium(1)|kidney(1)|large_intestine(4)|lung(9)|ovary(3)|skin(2)|stomach(1)|urinary_tract(1)	22	Hepatocellular(266;0.158)					CGTGGGCTTTGGCTTCCTCAT	0.637																																																0													142	144	143					1																	156347130		2203	4300	6503	SO:0001583	missense	57127			AF193807		1q22	2013-05-22	2009-01-22		ENSG00000132677	ENSG00000132677		"Solute carriers"	14572	protein-coding gene	gene with protein product		607079	"Rhesus blood group, B glycoprotein"			10852913	Standard	NM_020407		Approved	SLC42A2	uc010pho.3	Q9H310	OTTHUMG00000024057	ENST00000368249.1:c.226G>C	1.37:g.156347130G>C	ENSP00000357232:p.Gly76Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K475|Q5SZW4|Q5SZW6|Q5SZW7|Q6P193|Q6YJI2|Q6YJI3	Missense_Mutation	SNP	ENST00000368249.1	37		.	.	.	.	.	.	.	.	.	.	G	29.7	5.031766	0.93575	.	.	ENSG00000132677	ENST00000368249;ENST00000368246;ENST00000400992;ENST00000255013;ENST00000451864	D;D;D;D;D	0.81579	-1.51;-1.51;-1.51;-1.51;-1.51	4.86	4.86	0.63082	Ammonium transporter AmtB-like (3);	0.000000	0.85682	D	0.000000	D	0.91744	0.7389	H	0.94582	3.555	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.93736	0.7046	10	0.87932	D	0	-6.6399	16.7188	0.85405	0.0:0.0:1.0:0.0	.	76;7;113	Q9H310;Q9H310-3;Q5SZW5	RHBG_HUMAN;.;.	R	76;76;7;7;7	ENSP00000357232:G76R;ENSP00000357229:G76R;ENSP00000383777:G7R;ENSP00000255013:G7R;ENSP00000389836:G7R	ENSP00000255013:G7R	G	+	1	0	RHBG	154613754	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	6.365000	0.73090	2.512000	0.84698	0.561000	0.74099	GGC		0.637	RHBG-001	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000060589.2	NM_001256395		C	156347130	G	C	156347130	3	2	591	1	0	0	0	0	1	0	0	0	13337	1348	47	4	232	4	RHBG	1	156347130	Missense_Mutation	SNP	G	TCGA-G7-6795-01A-11D-1961-08	716773	156347130	92903491	4	35174										
TDRD5	163589	broad.mit.edu	37	chr1	179621298	179621298	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	taatgaagaccgaaagataaGtccacagtcaaaagagagtg	10	6	1	4			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr1:179621298G>T	ENST00000367614.1	+	13	2485	c.2126G>T	c.(2125-2127)aGt>aTt	p.S709I	TDRD5_ENST00000294848.8_Missense_Mutation_p.S709I|TDRD5_ENST00000444136.1_Missense_Mutation_p.S709I	NM_001199091.1	NP_001186020.1	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	709					DNA methylation involved in gamete generation (GO:0043046)|P granule organization (GO:0030719)|spermatid development (GO:0007286)	chromatoid body (GO:0033391)|pi-body (GO:0071546)				NS(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(7)|lung(44)|ovary(2)|prostate(1)|skin(9)|stomach(1)|upper_aerodigestive_tract(2)	77						CGAAAGATAAGTCCACAGTCA	0.368																																																0													95	91	92					1																	179621298		2203	4300	6503	SO:0001583	missense	163589			AK092142	CCDS1332.1, CCDS55663.1	1q24.2	2013-01-23			ENSG00000162782	ENSG00000162782		"Tudor domain containing"	20614	protein-coding gene	gene with protein product							Standard	NM_001199085		Approved	FLJ34823, TUDOR3	uc010pnp.2	Q8NAT2	OTTHUMG00000035259	ENST00000367614.1:c.2126G>T	1.37:g.179621298G>T	ENSP00000356586:p.Ser709Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A1L4G5|B7ZLV0|Q5EBN4|Q5VTV0|Q6ZSK2	Missense_Mutation	SNP	ENST00000367614.1	37	CCDS1332.1	.	.	.	.	.	.	.	.	.	.	G	10.56	1.385165	0.25031	.	.	ENSG00000162782	ENST00000367614;ENST00000294848;ENST00000444136;ENST00000417329	T;T;T;T	0.32753	2.74;2.74;2.85;1.44	4.55	1.53	0.23141	.	0.629622	0.14481	N	0.316979	T	0.18087	0.0434	L	0.40543	1.245	0.23889	N	0.99655	P;B	0.39424	0.673;0.391	B;B	0.33521	0.165;0.079	T	0.10520	-1.0626	10	0.23891	T	0.37	-31.3686	4.7749	0.13175	0.1919:0.0:0.6278:0.1802	.	709;709	Q8NAT2-1;Q8NAT2	.;TDRD5_HUMAN	I	709;709;709;165	ENSP00000356586:S709I;ENSP00000294848:S709I;ENSP00000406052:S709I;ENSP00000410744:S165I	ENSP00000294848:S709I	S	+	2	0	TDRD5	177887921	0.487000	0.25988	0.332000	0.25469	0.942000	0.58702	0.029000	0.13666	0.569000	0.29329	0.557000	0.71058	AGT		0.368	TDRD5-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000085295.1	NM_173533		T	179621298	G	T	179621298	3	4	591	1	0	0	0	0	1	0	0	0	15745	1029	36	4	2172	4	TDRD5	1	179621298	Missense_Mutation	SNP	G	TCGA-G7-6795-01A-11D-1961-08	23274168	179621298	69629323	5	35175										
ADAM17	6868	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	9645412	9645412	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ccctcgagttcccacaaactTtattgctgcgttcttgaaaa	6	12	1	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr2:9645412T>G	ENST00000310823.3	-	12	1609	c.1427A>C	c.(1426-1428)aAa>aCa	p.K476T	RP11-400L8.2_ENST00000472619.1_RNA|RP11-400L8.2_ENST00000480764.1_RNA	NM_003183.4	NP_003174.3	P78536	ADA17_HUMAN	ADAM metallopeptidase domain 17	476	Disintegrin. {ECO:0000255|PROSITE- ProRule:PRU00068}.				apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|B cell differentiation (GO:0030183)|cell adhesion (GO:0007155)|cell adhesion mediated by integrin (GO:0033627)|cell motility (GO:0048870)|collagen catabolic process (GO:0030574)|epidermal growth factor receptor signaling pathway (GO:0007173)|epidermal growth factor-activated receptor transactivation by G-protein coupled receptor signaling pathway (GO:0035625)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|germinal center formation (GO:0002467)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|membrane protein ectodomain proteolysis (GO:0006509)|membrane protein intracellular domain proteolysis (GO:0031293)|negative regulation of interleukin-8 production (GO:0032717)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neurotrophin TRK receptor signaling pathway (GO:0048011)|neutrophil mediated immunity (GO:0002446)|Notch receptor processing (GO:0007220)|Notch signaling pathway (GO:0007219)|PMA-inducible membrane protein ectodomain proteolysis (GO:0051088)|positive regulation of cell growth (GO:0030307)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cellular component movement (GO:0051272)|positive regulation of chemokine production (GO:0032722)|positive regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031659)|positive regulation of epidermal growth factor-activated receptor activity (GO:0045741)|positive regulation of leukocyte chemotaxis (GO:0002690)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of T cell chemotaxis (GO:0010820)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|proteolysis (GO:0006508)|regulation of mast cell apoptotic process (GO:0033025)|response to drug (GO:0042493)|response to high density lipoprotein particle (GO:0055099)|response to hypoxia (GO:0001666)|response to lipopolysaccharide (GO:0032496)|spleen development (GO:0048536)|T cell differentiation in thymus (GO:0033077)|wound healing, spreading of epidermal cells (GO:0035313)	actin cytoskeleton (GO:0015629)|apical plasma membrane (GO:0016324)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)	integrin binding (GO:0005178)|interleukin-6 receptor binding (GO:0005138)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|Notch binding (GO:0005112)|PDZ domain binding (GO:0030165)|zinc ion binding (GO:0008270)			breast(1)|cervix(4)|endometrium(2)|kidney(2)|large_intestine(7)|lung(8)|ovary(1)|prostate(2)|skin(1)	28	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.225)		CCCACAAACTTTATTGCTGCG	0.438																																																0													178	155	163					2																	9645412		2203	4300	6503	SO:0001583	missense	6868			U69611	CCDS1665.1	2p25	2010-08-05	2008-07-31		ENSG00000151694	ENSG00000151694		"ADAM metallopeptidase domain containing", "CD molecules"	195	protein-coding gene	gene with protein product		603639	"tumor necrosis factor, alpha, converting enzyme"	TACE		9034190, 9574564	Standard	NM_003183		Approved	cSVP, CD156B	uc002qzu.3	P78536	OTTHUMG00000090425	ENST00000310823.3:c.1427A>C	2.37:g.9645412T>G	ENSP00000309968:p.Lys476Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O60226	Missense_Mutation	SNP	ENST00000310823.3	37	CCDS1665.1	.	.	.	.	.	.	.	.	.	.	T	12.83	2.056207	0.36277	.	.	ENSG00000151694	ENST00000310823	T	0.21191	2.02	5.66	3.33	0.38152	Blood coagulation inhibitor, Disintegrin (1);	0.226724	0.51477	D	0.000087	T	0.18718	0.0449	L	0.46670	1.46	0.80722	D	1	B;B	0.10296	0.003;0.003	B;B	0.12156	0.007;0.007	T	0.03325	-1.1048	10	0.48119	T	0.1	.	9.5244	0.39156	0.0:0.1409:0.0:0.8591	.	476;476	B2RNB2;P78536	.;ADA17_HUMAN	T	476	ENSP00000309968:K476T	ENSP00000309968:K476T	K	-	2	0	ADAM17	9562863	1.000000	0.71417	0.994000	0.49952	0.915000	0.54546	3.947000	0.56652	0.444000	0.26612	0.460000	0.39030	AAA		0.438	ADAM17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206857.1			G	9645412	T	G	9645412	3	3	591	1	0	0	0	0	1	0	0	0	238	1841	64	5	1079	5	ADAM17	2	9645412	Missense_Mutation	SNP	T	TCGA-G7-6795-01A-11D-1961-08		9645412	233553961	6	35176										
MYCN	4613	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	16082320	16082321	+	Frame_Shift_Ins	INS	-	-	G													0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ggccccgactcgacccccccINSgggggaggacatctggaaga							TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr2:16082320_16082321insG	ENST00000281043.3	+	2	431_432	c.134_135insG	c.(133-138)ccggggfs	p.PG45fs	MYCNOS_ENST00000419083.1_RNA|MYCNOS_ENST00000439180.1_RNA|MYCNOS_ENST00000448719.1_RNA|MYCNOS_ENST00000420452.1_RNA|MYCNOS_ENST00000453400.1_RNA	NM_005378.4	NP_005369.2	P04198	MYCN_HUMAN	v-myc avian myelocytomatosis viral oncogene neuroblastoma derived homolog	45					branching morphogenesis of an epithelial tube (GO:0048754)|cartilage condensation (GO:0001502)|embryonic digit morphogenesis (GO:0042733)|embryonic skeletal system morphogenesis (GO:0048704)|lung development (GO:0030324)|negative regulation of astrocyte differentiation (GO:0048712)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|positive regulation of cell death (GO:0010942)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)	chromatin (GO:0000785)|nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(2)|autonomic_ganglia(1)|breast(1)|central_nervous_system(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(7)|ovary(1)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	31	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)			TCGACCCCCCCGGGGGAGGACA	0.644			A		neuroblastoma																																		Dom	yes		2	2p24.1	4613	"v-myc myelocytomatosis viral related oncogene, neuroblastoma derived (avian)"		O	0			GRCh37	CI084293	MYCN	I																																				SO:0001589	frameshift_variant	4613			BC002712	CCDS1687.1	2p24.3	2013-08-14	2013-07-09		ENSG00000134323	ENSG00000134323		"Basic helix-loop-helix proteins"	7559	protein-coding gene	gene with protein product		164840		NMYC			Standard	XM_006711886		Approved	bHLHe37, N-myc, MYCNOT	uc002rci.3	P04198	OTTHUMG00000039579	ENST00000281043.3:c.139dupG	2.37:g.16082325_16082325dupG	ENSP00000281043:p.Pro45fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q53XS5|Q6LDT9	Frame_Shift_Ins	INS	ENST00000281043.3	37	CCDS1687.1																																																																																				0.644	MYCN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000095469.2	NM_005378		G	16082321	-	G	16082320	7	5	591	1	0	1	1	0	0	0	0	0	10028	652	23	0	136	0	MYCN	2	16082320	Frame_Shift_Ins	INS	-	TCGA-G7-6795-01A-11D-1961-08	6436908	16082320	227117053	7	35177										
APOB	338	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	21260848	21260848	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	accagaaacaacacttgcttGgcttcttctgtctctggggg	10	11	3	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr2:21260848G>A	ENST00000233242.1	-	5	646	c.519C>T	c.(517-519)gcC>gcT	p.A173A	APOB_ENST00000399256.4_Silent_p.A173A	NM_000384.2	NP_000375	P04114	APOB_HUMAN	apolipoprotein B	173	Vitellogenin. {ECO:0000255|PROSITE- ProRule:PRU00557}.				artery morphogenesis (GO:0048844)|blood coagulation (GO:0007596)|cellular response to prostaglandin stimulus (GO:0071379)|cellular response to tumor necrosis factor (GO:0071356)|cholesterol efflux (GO:0033344)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|cholesterol transport (GO:0030301)|fertilization (GO:0009566)|in utero embryonic development (GO:0001701)|leukocyte migration (GO:0050900)|lipoprotein biosynthetic process (GO:0042158)|lipoprotein catabolic process (GO:0042159)|lipoprotein metabolic process (GO:0042157)|lipoprotein transport (GO:0042953)|low-density lipoprotein particle clearance (GO:0034383)|low-density lipoprotein particle remodeling (GO:0034374)|nervous system development (GO:0007399)|phototransduction, visible light (GO:0007603)|positive regulation of cholesterol storage (GO:0010886)|positive regulation of lipid storage (GO:0010884)|positive regulation of macrophage derived foam cell differentiation (GO:0010744)|post-embryonic development (GO:0009791)|receptor-mediated endocytosis (GO:0006898)|regulation of cholesterol biosynthetic process (GO:0045540)|response to carbohydrate (GO:0009743)|response to lipopolysaccharide (GO:0032496)|response to selenium ion (GO:0010269)|response to virus (GO:0009615)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)|sperm motility (GO:0030317)|spermatogenesis (GO:0007283)|triglyceride catabolic process (GO:0019433)|triglyceride mobilization (GO:0006642)|very-low-density lipoprotein particle assembly (GO:0034379)	actin cytoskeleton (GO:0015629)|chylomicron (GO:0042627)|chylomicron remnant (GO:0034360)|clathrin-coated endocytic vesicle membrane (GO:0030669)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|early endosome (GO:0005769)|endocytic vesicle lumen (GO:0071682)|endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum membrane (GO:0005789)|endosome lumen (GO:0031904)|endosome membrane (GO:0010008)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|intermediate-density lipoprotein particle (GO:0034363)|intracellular membrane-bounded organelle (GO:0043231)|low-density lipoprotein particle (GO:0034362)|mature chylomicron (GO:0034359)|plasma membrane (GO:0005886)|very-low-density lipoprotein particle (GO:0034361)	cholesterol transporter activity (GO:0017127)|heparin binding (GO:0008201)|lipase binding (GO:0035473)|low-density lipoprotein particle receptor binding (GO:0050750)|phospholipid binding (GO:0005543)			NS(5)|autonomic_ganglia(1)|breast(6)|central_nervous_system(4)|cervix(3)|endometrium(19)|kidney(10)|large_intestine(63)|liver(5)|lung(125)|ovary(16)|pancreas(1)|prostate(5)|skin(31)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(6)	305	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACACTTGCTTGGCTTCTTCTG	0.458																																																0													128	129	129					2																	21260848		2203	4300	6503	SO:0001819	synonymous_variant	338			M14162	CCDS1703.1	2p24-p23	2013-05-29	2013-05-29		ENSG00000084674	ENSG00000084674		"Apolipoproteins"	603	protein-coding gene	gene with protein product		107730	"apolipoprotein B (including Ag(x) antigen)"				Standard	NM_000384		Approved		uc002red.3	P04114	OTTHUMG00000090785	ENST00000233242.1:c.519C>T	2.37:g.21260848G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O00502|P78479|P78480|P78481|Q13779|Q13785|Q13786|Q13787|Q13788|Q4ZG63|Q53QC8|Q7Z600|Q9UMN0	Silent	SNP	ENST00000233242.1	37	CCDS1703.1																																																																																				0.458	APOB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207571.1			A	21260848	G	A	21260848	2	1	591	1	0	0	0	0	0	0	0	1	785	1335	47	2		2	APOB	2	21260848	Silent	SNP	G	TCGA-G7-6795-01A-11D-1961-08	5178528	21260848	221938525	8	35178										
ATAD2B	54454	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	24051776	24051776	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tgacaattttggattccagtCcctggtatggatctgtaaga	10	7	1	2			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr2:24051776C>A	ENST00000238789.5	-	15	2105	c.1762G>T	c.(1762-1764)Gac>Tac	p.D588Y	ATAD2B_ENST00000474583.1_5'UTR	NM_001242338.1|NM_017552.2	NP_001229267.1|NP_060022.1	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	588						nucleus (GO:0005634)	ATP binding (GO:0005524)|lysine-acetylated histone binding (GO:0070577)			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGATTCCAGTCCCTGGTATGG	0.333																																																0													121	114	116					2																	24051776		1842	4090	5932	SO:0001583	missense	54454			AB033066	CCDS46227.1	2p24.1-p23.3	2010-04-21		2007-02-08	ENSG00000119778	ENSG00000119778		"ATPases / AAA-type"	29230	protein-coding gene	gene with protein product		615347					Standard	XM_005264372		Approved	KIAA1240	uc002rek.4	Q9ULI0	OTTHUMG00000151902	ENST00000238789.5:c.1762G>T	2.37:g.24051776C>A	ENSP00000238789:p.Asp588Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B9ZVQ5|Q6ZNA6|Q8N9E7	Missense_Mutation	SNP	ENST00000238789.5	37	CCDS46227.1	.	.	.	.	.	.	.	.	.	.	C	15.81	2.944509	0.53079	.	.	ENSG00000119778	ENST00000238789;ENST00000458510	D;D	0.94931	-3.56;-1.77	4.7	4.7	0.59300	.	.	.	.	.	D	0.95023	0.8389	L	0.60957	1.885	0.49299	D	0.999776	D	0.54047	0.964	P	0.53912	0.737	D	0.95210	0.8324	9	0.72032	D	0.01	.	14.2998	0.66339	0.1494:0.8506:0.0:0.0	.	588	Q9ULI0	ATD2B_HUMAN	Y	588;26	ENSP00000238789:D588Y;ENSP00000392764:D26Y	ENSP00000238789:D588Y	D	-	1	0	ATAD2B	23905280	1.000000	0.71417	1.000000	0.80357	0.951000	0.60555	3.884000	0.56175	2.551000	0.86045	0.650000	0.86243	GAC		0.333	ATAD2B-001	KNOWN	mRNA_end_NF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324333.1	NM_017552		A	24051776	C	A	24051776	3	1	591	1	0	0	0	0	1	0	0	0	1072	855	30	4	2670	4	ATAD2B	2	24051776	Missense_Mutation	SNP	C	TCGA-G7-6795-01A-11D-1961-08	2790928	24051776	219147597	9	35179										
ITSN2	50618	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	24509153	24509155	+	In_Frame_Del	DEL	TTC	TTC	-													0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ttttcaagagcatctaactgTtctttaagtctttggcataa					rs201163358		TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	TTC	TTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr2:24509153_24509155delTTC	ENST00000355123.4	-	16	2232_2234	c.1789_1791delGAA	c.(1789-1791)gaadel	p.E597del	ITSN2_ENST00000361999.3_In_Frame_Del_p.E597del|ITSN2_ENST00000406921.3_In_Frame_Del_p.E597del	NM_006277.2	NP_006268.2	Q9NZM3	ITSN2_HUMAN	intersectin 2	597					endocytosis (GO:0006897)|positive regulation of signal transduction (GO:0009967)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|SH3/SH2 adaptor activity (GO:0005070)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(8)|large_intestine(11)|liver(3)|lung(28)|ovary(2)|stomach(1)	61	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CATCTAACTGTTCTTTAAGTCTT	0.286																																																0																																										SO:0001651	inframe_deletion	50618			AB033082	CCDS1710.2, CCDS1711.2, CCDS46230.1	2p23.3	2013-09-19	2002-10-30		ENSG00000198399	ENSG00000198399		"Rho guanine nucleotide exchange factors", "EF-hand domain containing"	6184	protein-coding gene	gene with protein product	"SH3 domain protein 1B", "SH3P18-like WASP associated protein"	604464	"SH3 domain protein 1B"	SH3D1B		10922467, 11748279	Standard	NM_006277		Approved	KIAA1256, SWAP, SH3P18, SWA, PRO2015	uc002rfe.2	Q9NZM3	OTTHUMG00000090818	ENST00000355123.4:c.1789_1791delGAA	2.37:g.24509153_24509155delTTC	ENSP00000347244:p.Glu597del	Somatic		WXS	Illumina HiSeq	Phase_I	O95062|Q15812|Q9HAK4|Q9NXE6|Q9NYG0|Q9NZM2|Q9ULG4	In_Frame_Del	DEL	ENST00000355123.4	37	CCDS1710.2																																																																																				0.286	ITSN2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000207620.2	NM_006277		-	24509155	TTC	-	24509153	7	5	591	1	0	1	0	1	0	0	0	0	7934	1722	60	0	3453	0	ITSN2	2	24509153	In_Frame_Del	DEL	TTC	TCGA-G7-6795-01A-11D-1961-08	457377	24509153	218690220	10	35180										
AGBL5	60509	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	27291539	27291539	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	gtcctctggagacaaaccagAggctgtcatggtaatcggga	13	9	2	2			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr2:27291539A>G	ENST00000360131.4	+	13	2441	c.2282A>G	c.(2281-2283)gAg>gGg	p.E761G		NM_021831.5	NP_068603.4	Q8NDL9	CBPC5_HUMAN	ATP/GTP binding protein-like 5	761					protein branching point deglutamylation (GO:0035611)|protein deglutamylation (GO:0035608)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	metallocarboxypeptidase activity (GO:0004181)|tubulin binding (GO:0015631)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|large_intestine(5)|lung(8)|ovary(3)|pancreas(1)|prostate(2)|skin(1)	28	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GACAAACCAGAGGCTGTCATG	0.512																																																0													84	85	85					2																	27291539		2203	4300	6503	SO:0001583	missense	60509			BC007415	CCDS1732.3, CCDS42665.1	2p23.3	2014-06-23			ENSG00000084693	ENSG00000084693			26147	protein-coding gene	gene with protein product	"cytosolic carboxypeptidase 5"	615900				24022482	Standard	NM_001035507		Approved	FLJ21839, CCP5	uc002rie.3	Q8NDL9	OTTHUMG00000128406	ENST00000360131.4:c.2282A>G	2.37:g.27291539A>G	ENSP00000353249:p.Glu761Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A2VDI7|B7WPG9|B7Z7I7|D6W548|Q53SW0|Q53SZ0|Q96IK8|Q9H6V0|Q9H8P8	Missense_Mutation	SNP	ENST00000360131.4	37	CCDS1732.3	.	.	.	.	.	.	.	.	.	.	A	10.83	1.459849	0.26248	.	.	ENSG00000084693	ENST00000360131	T	0.17370	2.28	5.61	4.46	0.54185	.	0.426245	0.25285	N	0.031768	T	0.10723	0.0262	N	0.19112	0.55	0.32634	N	0.521593	B	0.13145	0.007	B	0.09377	0.004	T	0.03641	-1.1017	10	0.87932	D	0	-0.026	7.4869	0.27439	0.9054:0.0:0.0946:0.0	.	761	Q8NDL9	CBPC5_HUMAN	G	761	ENSP00000353249:E761G	ENSP00000353249:E761G	E	+	2	0	AGBL5	27145043	1.000000	0.71417	1.000000	0.80357	0.237000	0.25408	2.781000	0.47750	2.123000	0.65237	0.459000	0.35465	GAG		0.512	AGBL5-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000309033.1	NM_021831		G	27291539	A	G	27291539	3	3	591	1	0	0	0	0	1	0	0	0	378	304	11	3	2393	3	AGBL5	2	27291539	Missense_Mutation	SNP	A	TCGA-G7-6795-01A-11D-1961-08	2782386	27291539	215907834	11	35181										
PAX8	7849	bcgsc.ca	37	chr2	113984805	113984805	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	gggatgtggggtgggtatccGggcagcgtgggccccaccat	19	10	0	0	rs189229644	byFrequency	TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr2:113984805G>A	ENST00000429538.3	-	10	1310	c.1116C>T	c.(1114-1116)ccC>ccT	p.P372P	PAX8_ENST00000348715.5_Missense_Mutation_p.P346L|AC016683.6_ENST00000456685.1_RNA|PAX8_ENST00000263335.7_Missense_Mutation_p.P269L|PAX8_ENST00000263334.5_Missense_Mutation_p.P346L|PAX8_ENST00000397647.3_Intron	NM_003466.3	NP_003457.1	Q06710	PAX8_HUMAN	paired box 8	372					anatomical structure morphogenesis (GO:0009653)|branching involved in ureteric bud morphogenesis (GO:0001658)|cellular response to gonadotropin stimulus (GO:0071371)|central nervous system development (GO:0007417)|inner ear morphogenesis (GO:0042472)|kidney development (GO:0001822)|mesenchymal to epithelial transition involved in metanephros morphogenesis (GO:0003337)|mesonephros development (GO:0001823)|metanephric comma-shaped body morphogenesis (GO:0072278)|metanephric distal convoluted tubule development (GO:0072221)|metanephric epithelium development (GO:0072207)|metanephric nephron tubule formation (GO:0072289)|metanephric S-shaped body morphogenesis (GO:0072284)|negative regulation of apoptotic process involved in metanephric collecting duct development (GO:1900215)|negative regulation of apoptotic process involved in metanephric nephron tubule development (GO:1900218)|negative regulation of mesenchymal cell apoptotic process involved in metanephric nephron morphogenesis (GO:0072305)|negative regulation of mesenchymal cell apoptotic process involved in metanephros development (GO:1900212)|otic vesicle development (GO:0071599)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis (GO:0072108)|positive regulation of metanephric DCT cell differentiation (GO:2000594)|positive regulation of thyroid hormone generation (GO:2000611)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|pronephric field specification (GO:0039003)|pronephros development (GO:0048793)|regulation of apoptotic process (GO:0042981)|regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072307)|regulation of thyroid-stimulating hormone secretion (GO:2000612)|thyroid gland development (GO:0030878)|thyroid-stimulating hormone signaling pathway (GO:0038194)|transcription, DNA-templated (GO:0006351)|urogenital system development (GO:0001655)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|sequence-specific DNA binding transcription factor activity (GO:0003700)|thyroid-stimulating hormone receptor activity (GO:0004996)|transcription regulatory region DNA binding (GO:0044212)		PAX8/PPARG(117)	breast(1)|endometrium(4)|kidney(2)|large_intestine(1)|liver(1)|lung(9)|ovary(1)|skin(1)	20						GTGGGTATCCGGGCAGCGTGG	0.612			T	PPARG	follicular thyroid		Thyroid dysgenesis						G|||	8	0.00159744	0.0	0.0043	5008	,	,		18400	0.004		0.0	False		,,,				2504	0.001				Ovarian(188;7 2067 9084 29802 29892)		Dom	yes		2	2q12-q14	7849	paired box gene 8	yes	E	0													26	31	29					2																	113984805		2021	4167	6188	SO:0001819	synonymous_variant	7849			X69699	CCDS42735.1, CCDS42736.1, CCDS46398.1, CCDS46399.1	2q13	2011-06-20	2007-07-12		ENSG00000125618	ENSG00000125618		"Paired boxes", "Homeoboxes / PRD class"	8622	protein-coding gene	gene with protein product		167415	"paired box gene 8"			8431641, 7981748	Standard	NM_003466		Approved		uc010yxt.2	Q06710	OTTHUMG00000128529	ENST00000429538.3:c.1116C>T	2.37:g.113984805G>A		Somatic		WXS	Illumina HiSeq	Phase_1	Q09155|Q16337|Q16338|Q16339|Q4ZG35|Q96J49	Missense_Mutation	SNP	ENST00000429538.3	37	CCDS46398.1	2|2	9.157509157509158E-4|9.157509157509158E-4	0|0	0.0|0.0	2|2	0.0055248618784530384|0.0055248618784530384	0|0	0.0|0.0	0|0	0.0|0.0	G|G	4.284|4.284	0.051899|0.051899	0.08291|0.08291	.|.	.|.	ENSG00000125618|ENSG00000125618	ENST00000263335;ENST00000348715;ENST00000263334|ENST00000465084;ENST00000468980	D;D;D|.	0.97976|.	-4.64;-4.55;-4.55|.	5.3|5.3	-2.97|-2.97	0.05530|0.05530	.|.	0.056682|.	0.64402|.	D|.	0.000001|.	T|T	0.25606|0.25606	0.0623|0.0623	.|.	.|.	.|.	0.31672|0.31672	N|N	0.644221|0.644221	B;B|.	0.09022|.	0.002;0.0|.	B;B|.	0.06405|.	0.002;0.0|.	T|T	0.41963|0.41963	-0.9479|-0.9479	9|4	0.25106|.	T|.	0.35|.	.|.	5.1393|5.1393	0.14950|0.14950	0.5248:0.0:0.2619:0.2132|0.5248:0.0:0.2619:0.2132	.|.	346;269|.	Q06710-3;Q06710-4|.	.;.|.	L|W	269;346;346|27;95	ENSP00000263335:P269L;ENSP00000314750:P346L;ENSP00000263334:P346L|.	ENSP00000263334:P346L|.	P|R	-|-	2|1	0|2	PAX8|PAX8	113701276|113701276	0.027000|0.027000	0.19231|0.19231	0.982000|0.982000	0.44146|0.44146	0.999000|0.999000	0.98932|0.98932	-1.187000|-1.187000	0.03067|0.03067	-0.463000|-0.463000	0.06973|0.06973	0.609000|0.609000	0.83330|0.83330	CCG|CGG		0.612	PAX8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250353.5			A	113984805	G	A	113984805	2	1	591	1	0	0	0	0	0	0	0	1	11492	1116	39	1		1	PAX8	2	113984805	Silent	SNP	G	TCGA-G7-6795-01A-11D-1961-08	86693266	113984805	129214568	12	35182										
PKP4	8502	bcgsc.ca	37	chr2	159490676	159490676	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	aacacaacagctacctacgcGgagccctacaggcctataca	7	15	0	0	rs200605632		TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr2:159490676G>T	ENST00000389759.3	+	9	1549	c.1437G>T	c.(1435-1437)gcG>gcT	p.A479A	PKP4_ENST00000389757.3_Silent_p.A479A	NM_003628.3	NP_003619.2	Q99569	PKP4_HUMAN	plakophilin 4	479					cell-cell junction assembly (GO:0007043)|cell-cell signaling (GO:0007267)|positive regulation of cytokinesis (GO:0032467)|positive regulation of gene expression (GO:0010628)|positive regulation of Rho GTPase activity (GO:0032321)|regulation of cell adhesion (GO:0030155)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytoskeleton (GO:0005856)|desmosome (GO:0030057)|midbody (GO:0030496)|mitotic spindle (GO:0072686)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|spindle midzone (GO:0051233)|spindle pole (GO:0000922)				breast(2)|central_nervous_system(1)|endometrium(7)|kidney(3)|large_intestine(9)|lung(21)|ovary(6)|skin(5)|upper_aerodigestive_tract(6)|urinary_tract(1)	61						CTACCTACGCGGAGCCCTACA	0.458										HNSCC(62;0.18)																																						0													124	126	125					2																	159490676		2203	4300	6503	SO:0001819	synonymous_variant	8502			X81889	CCDS33305.1, CCDS33306.1	2q24.1	2013-02-14			ENSG00000144283	ENSG00000144283		"Armadillo repeat containing"	9026	protein-coding gene	gene with protein product		604276				9342840, 8937994	Standard	NM_003628		Approved	p0071	uc002tzv.3	Q99569	OTTHUMG00000153969	ENST00000389759.3:c.1437G>T	2.37:g.159490676G>T		Somatic		WXS	Illumina HiSeq	Phase_1	Q86W91	Silent	SNP	ENST00000389759.3	37	CCDS33305.1																																																																																				0.458	PKP4-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333250.1			T	159490676	G	T	159490676	2	4	591	1	0	0	0	0	0	0	0	1	11994	1103	39	4		4	PKP4	2	159490676	Silent	SNP	G	TCGA-G7-6795-01A-11D-1961-08	45505871	159490676	83708697	13	35183										
UBR3	130507	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	170843280	170843281	+	Frame_Shift_Ins	INS	-	-	T													0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	agatcgacctactggattagINSttgtactgttacaagcatcc							TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr2:170843280_170843281insT	ENST00000272793.5	+	25	3810_3811	c.3760_3761insT	c.(3760-3762)gttfs	p.V1254fs	UBR3_ENST00000418381.1_Frame_Shift_Ins_p.V1254fs|UBR3_ENST00000392631.1_Frame_Shift_Ins_p.V75fs			Q6ZT12	UBR3_HUMAN	ubiquitin protein ligase E3 component n-recognin 3 (putative)	1254					embryo development (GO:0009790)|in utero embryonic development (GO:0001701)|olfactory behavior (GO:0042048)|sensory perception of smell (GO:0007608)|suckling behavior (GO:0001967)|ubiquitin-dependent protein catabolic process (GO:0006511)	integral component of membrane (GO:0016021)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(2)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(9)|liver(1)|lung(8)|ovary(1)|prostate(3)|stomach(1)	33						TACTGGATTAGTTGTACTGTTA	0.396																																																0																																										SO:0001589	frameshift_variant	130507			AL834144	CCDS2238.2	2q31.1	2008-06-23	2008-06-23	2007-11-29	ENSG00000144357	ENSG00000144357		"Ubiquitin protein ligase E3 component n-recognins"	30467	protein-coding gene	gene with protein product		613831	"zinc finger protein 650"	ZNF650		17462990	Standard	NM_172070		Approved	KIAA2024, DKFZp434P117, FLJ37422	uc010zdi.2	Q6ZT12	OTTHUMG00000132229	ENST00000272793.5:c.3762dupT	2.37:g.170843282_170843282dupT	ENSP00000272793:p.Val1254fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZR7|Q2KHN5|Q6ZR55|Q6ZSC2|Q8IVE7|Q8ND96	Frame_Shift_Ins	INS	ENST00000272793.5	37																																																																																					0.396	UBR3-001	KNOWN	non_canonical_conserved|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000255290.2	NM_172070		T	170843281	-	T	170843280	7	5	591	1	0	1	1	0	0	0	0	0	16915	1029	36	0	3858	0	UBR3	2	170843280	Frame_Shift_Ins	INS	-	TCGA-G7-6795-01A-11D-1961-08	11352604	170843280	72356093	14	35184										
NDUFS1	4719	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	207006722	207006724	+	In_Frame_Del	DEL	AGA	AGA	-													0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	aacgtgggtttgtaccaaccAgaagaacaacatctgcctct							TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr2:207006722_207006724delAGA	ENST00000233190.6	-	12	1469_1471	c.1203_1205delTCT	c.(1201-1206)cttctg>ctg	p.401_402LL>L	NDUFS1_ENST00000423725.1_In_Frame_Del_p.344_345LL>L|NDUFS1_ENST00000455934.2_In_Frame_Del_p.415_416LL>L|NDUFS1_ENST00000457011.1_In_Frame_Del_p.285_286LL>L|NDUFS1_ENST00000440274.1_In_Frame_Del_p.365_366LL>L|NDUFS1_ENST00000432169.1_In_Frame_Del_p.290_291LL>L|NDUFS1_ENST00000449699.1_In_Frame_Del_p.401_402LL>L	NM_005006.6	NP_004997.4	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1, 75kDa (NADH-coenzyme Q reductase)	401					apoptotic mitochondrial changes (GO:0008637)|ATP metabolic process (GO:0046034)|cellular metabolic process (GO:0044237)|cellular respiration (GO:0045333)|mitochondrial electron transport, NADH to ubiquinone (GO:0006120)|reactive oxygen species metabolic process (GO:0072593)|regulation of mitochondrial membrane potential (GO:0051881)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)	mitochondrial inner membrane (GO:0005743)|mitochondrial intermembrane space (GO:0005758)|mitochondrial respiratory chain complex I (GO:0005747)	2 iron, 2 sulfur cluster binding (GO:0051537)|4 iron, 4 sulfur cluster binding (GO:0051539)|electron carrier activity (GO:0009055)|metal ion binding (GO:0046872)|NADH dehydrogenase (ubiquinone) activity (GO:0008137)			breast(1)|central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(7)|lung(15)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	38						TGTACCAACCAGAAGAACAACAT	0.325																																																0																																										SO:0001651	inframe_deletion	4719				CCDS2366.1, CCDS56162.1, CCDS56163.1, CCDS56164.1, CCDS56165.1	2q33-q34	2011-07-04	2002-08-29		ENSG00000023228	ENSG00000023228	1.6.5.3	"Mitochondrial respiratory chain complex / Complex I"	7707	protein-coding gene	gene with protein product	"complex I 75kDa subunit", "NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial"	157655	"NADH dehydrogenase (ubiquinone) Fe-S protein 1 (75kD) (NADH-coenzyme Q reductase)"			1935949	Standard	NM_005006		Approved	CI-75k	uc010ziq.2	P28331	OTTHUMG00000132892	ENST00000233190.6:c.1203_1205delTCT	2.37:g.207006725_207006727delAGA	ENSP00000233190:p.Leu402del	Somatic		WXS	Illumina HiSeq	Phase_I	B4DIN9|B4DJA0|B4DPG1|B4DUC1|E7ENF3|Q53TR8|Q8N1C4|Q8TCC9	In_Frame_Del	DEL	ENST00000233190.6	37	CCDS2366.1																																																																																				0.325	NDUFS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256391.4	NM_005006		-	207006724	AGA	-	207006722	7	5	591	1	0	1	0	1	0	0	0	0	10298	188	7	0	1010	0	NDUFS1	2	207006722	In_Frame_Del	DEL	AGA	TCGA-G7-6795-01A-11D-1961-08	36163442	207006722	36192651	15	35185										
TNS1	7145	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	218713795	218713795	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tcccatctagtggcccctgcGtgtgtcccaccacctctgca	8	18	2	0	rs200862766		TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr2:218713795G>A	ENST00000171887.4	-	17	1522	c.1070C>T	c.(1069-1071)aCg>aTg	p.T357M	TNS1_ENST00000419504.1_Missense_Mutation_p.T357M|TNS1_ENST00000430930.1_Missense_Mutation_p.T357M|TNS1_ENST00000480665.1_5'UTR	NM_022648.4	NP_072174.3	Q9HBL0	TENS1_HUMAN	tensin 1	357					cell-substrate junction assembly (GO:0007044)|fibroblast migration (GO:0010761)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|focal adhesion (GO:0005925)	poly(A) RNA binding (GO:0044822)			breast(2)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(23)|liver(1)|lung(24)|ovary(3)|pancreas(1)|prostate(3)|skin(5)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	79		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		TGGCCCCTGCGTGTGTCCCAC	0.577																																																0								G	MET/THR	0,4406		0,0,2203	89	89	89		1070	4.3	1	2		89	2,8598	2.2+/-6.3	0,2,4298	no	missense	TNS1	NM_022648.4	81	0,2,6501	AA,AG,GG		0.0233,0.0,0.0154	benign	357/1736	218713795	2,13004	2203	4300	6503	SO:0001583	missense	7145			AB209238	CCDS2407.1	2q35-q36	2014-06-13	2005-05-13	2005-05-13	ENSG00000079308	ENSG00000079308		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs", "SH2 domain containing"	11973	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 155"	600076	"tensin", "matrix-remodelling associated 6"	TNS, MXRA6			Standard	NM_022648		Approved	DKFZp586K0617, PPP1R155	uc002vgt.2	Q9HBL0	OTTHUMG00000133056	ENST00000171887.4:c.1070C>T	2.37:g.218713795G>A	ENSP00000171887:p.Thr357Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZG71|Q6IPI5	Missense_Mutation	SNP	ENST00000171887.4	37	CCDS2407.1	.	.	.	.	.	.	.	.	.	.	G	17.74	3.464168	0.63513	0.0	2.33E-4	ENSG00000079308	ENST00000171887;ENST00000419504;ENST00000430930;ENST00000446903;ENST00000413554	D;D;D;D;D	0.96334	-3.5;-3.49;-3.51;-3.83;-3.98	5.22	4.34	0.51931	.	0.767219	0.12422	N	0.470300	D	0.95255	0.8461	M	0.83603	2.65	0.80722	D	1	P;B;B;P;P	0.43519	0.809;0.423;0.345;0.704;0.704	B;B;B;B;B	0.32090	0.14;0.053;0.05;0.09;0.09	D	0.94356	0.7583	10	0.66056	D	0.02	.	14.202	0.65710	0.0727:0.0:0.9273:0.0	.	357;411;357;357;357	B2RU35;A1L0S7;Q9HBL0;E9PGF5;E9PF55	.;.;TENS1_HUMAN;.;.	M	357;357;357;482;425	ENSP00000171887:T357M;ENSP00000408724:T357M;ENSP00000406016:T357M;ENSP00000405460:T482M;ENSP00000400383:T425M	ENSP00000171887:T357M	T	-	2	0	TNS1	218422040	1.000000	0.71417	0.991000	0.47740	0.969000	0.65631	7.726000	0.84824	1.404000	0.46819	0.655000	0.94253	ACG		0.577	TNS1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256672.2	NM_022648		A	218713795	G	A	218713795	3	1	591	1	0	0	0	0	1	0	0	0	16355	1145	40	1	4205	1	TNS1	2	218713795	Missense_Mutation	SNP	G	TCGA-G7-6795-01A-11D-1961-08	11707073	218713795	24485578	16	35186										
UGT1A5	54579	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	234622277	234622277	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tcctgcaaagggtcaagaacAtgctctaccctctggccctg	9	14	3	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr2:234622277A>G	ENST00000373414.3	+	1	640	c.640A>G	c.(640-642)Atg>Gtg	p.M214V	UGT1A1_ENST00000373450.4_Intron|UGT1A9_ENST00000354728.4_Intron|UGT1A10_ENST00000344644.5_Intron|UGT1A6_ENST00000480628.1_Intron|UGT1A6_ENST00000373424.1_Intron|UGT1A6_ENST00000406651.1_Intron|UGT1A1_ENST00000608381.1_Missense_Mutation_p.M214V|UGT1A7_ENST00000373426.3_Intron|UGT1A6_ENST00000305139.6_Intron|UGT1A1_ENST00000609637.1_Intron|UGT1A10_ENST00000373445.1_Intron			P35504	UD15_HUMAN	UDP glucuronosyltransferase 1 family, polypeptide A5	214						endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	glucuronosyltransferase activity (GO:0015020)			cervix(1)|endometrium(3)|large_intestine(4)|lung(9)|ovary(1)|skin(3)|urinary_tract(1)	22		Breast(86;0.000765)|all_lung(227;0.00267)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0457)|Lung SC(224;0.128)		Epithelial(121;4.51e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000523)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.00645)		GGTCAAGAACATGCTCTACCC	0.483																																																0													209	197	201					2																	234622277		2203	4300	6503	SO:0001583	missense	54579			M84129	CCDS33404.1	2q37	2010-03-05	2005-07-20		ENSG00000240224	ENSG00000240224		"UDP glucuronosyltransferases"	12537	other	complex locus constituent		606430	"UDP glycosyltransferase 1 family, polypeptide A5"			9295054, 1339448	Standard	NM_019078		Approved	UGT1E		P35504	OTTHUMG00000059120	ENST00000373414.3:c.640A>G	2.37:g.234622277A>G	ENSP00000362513:p.Met214Val	Somatic		WXS	Illumina HiSeq	Phase_I	B8K294	Missense_Mutation	SNP	ENST00000373414.3	37	CCDS33404.1	.	.	.	.	.	.	.	.	.	.	A	9.408	1.079672	0.20309	.	.	ENSG00000240224	ENST00000373414	T	0.61040	0.14	4.77	-0.524	0.11920	.	0.585446	0.20090	N	0.099480	T	0.34221	0.0890	N	0.25201	0.72	0.26978	N	0.965428	B;B	0.13594	0.008;0.008	B;B	0.23150	0.044;0.044	T	0.12604	-1.0541	10	0.45353	T	0.12	.	1.3681	0.02205	0.4274:0.2431:0.2117:0.1179	.	214;214	Q5DSZ9;P35504	.;UD15_HUMAN	V	214	ENSP00000362513:M214V	ENSP00000362513:M214V	M	+	1	0	UGT1A5	234287016	0.000000	0.05858	0.992000	0.48379	0.655000	0.38815	-0.882000	0.04174	-0.055000	0.13244	0.459000	0.35465	ATG		0.483	UGT1A5-001	KNOWN	basic|appris_principal|readthrough_transcript|CCDS	protein_coding	protein_coding	OTTHUMT00000130985.1	NM_019078		G	234622277	A	G	234622277	3	3	591	1	0	0	0	0	1	0	0	0	16960	217	8	3	642	3	UGT1A5	2	234622277	Missense_Mutation	SNP	A	TCGA-G7-6795-01A-11D-1961-08	15908482	234622277	8577096	17	35187										
LRRFIP1	9208	broad.mit.edu	37	chr2	238672176	238672176	+	Frame_Shift_Del	DEL	A	A	-													0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	agatttaagtgaaattaaggAagaagagcaggtaaagtcta							TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr2:238672176delA	ENST00000392000.4	+	11	1937	c.1820delA	c.(1819-1821)gaafs	p.E609fs	LRRFIP1_ENST00000308482.9_Intron|LRRFIP1_ENST00000289175.6_Frame_Shift_Del_p.E553fs|LRRFIP1_ENST00000244815.5_Frame_Shift_Del_p.E585fs	NM_001137552.1	NP_001131024.1	Q32MZ4	LRRF1_HUMAN	leucine rich repeat (in FLII) interacting protein 1	609			E -> K (in dbSNP:rs3739041).		innate immune response (GO:0045087)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of type I interferon production (GO:0032481)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	DNA binding (GO:0003677)|double-stranded RNA binding (GO:0003725)|protein homodimerization activity (GO:0042803)			NS(1)|breast(4)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(10)|ovary(1)|upper_aerodigestive_tract(1)	29		Breast(86;0.00257)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;9.75e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.01e-10)|Kidney(56;4.85e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.31e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000151)|Lung(119;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0325)|COAD - Colon adenocarcinoma(134;0.228)		GAAATTAAGGAAGAAGAGCAG	0.373																																																0													49	51	51					2																	238672176		2203	4300	6503	SO:0001589	frameshift_variant	9208			AJ223075	CCDS2521.1, CCDS46551.1, CCDS46552.1, CCDS46553.1	2q37.3	2010-09-30			ENSG00000124831	ENSG00000124831			6702	protein-coding gene	gene with protein product	"GC-binding factor 2"	603256				9705290, 9525888, 16199883	Standard	NM_004735		Approved	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1	uc002vxe.3	Q32MZ4	OTTHUMG00000133339	ENST00000392000.4:c.1820delA	2.37:g.238672176delA	ENSP00000375857:p.Glu609fs	Somatic		WXS	Illumina HiSeq	Phase_I	E9PGZ2|O75766|O75799|Q32MZ5|Q53T49|Q6PKG2|Q9Y607	Frame_Shift_Del	DEL	ENST00000392000.4	37	CCDS46552.1																																																																																				0.373	LRRFIP1-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000317198.1	NM_004735		-	238672176	A	-	238672176	7	5	591	1	0	1	0	1	0	0	0	0	9034	246	9	0	2538	0	LRRFIP1	2	238672176	Frame_Shift_Del	DEL	A	TCGA-G7-6795-01A-11D-1961-08	4049899	238672176	4527197	18	35188										
SYNPR	132204	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	63466530	63466530	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ttttgcaatctttgcatttgCaacatgcggtggctattctg	9	8	2	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr3:63466530C>T	ENST00000295894.5	+	2	416	c.47C>T	c.(46-48)gCa>gTa	p.A16V	SYNPR_ENST00000465156.1_Missense_Mutation_p.A16V|SYNPR_ENST00000478300.1_Missense_Mutation_p.A36V|SYNPR_ENST00000478744.1_3'UTR|SYNPR_ENST00000479198.1_Missense_Mutation_p.A16V|SYNPR-AS1_ENST00000488201.1_RNA|SYNPR_ENST00000460711.1_Missense_Mutation_p.A27V	NM_144642.4	NP_653243.1	Q8TBG9	SYNPR_HUMAN	synaptoporin	16	MARVEL. {ECO:0000255|PROSITE- ProRule:PRU00581}.					cell junction (GO:0030054)|integral component of synaptic vesicle membrane (GO:0030285)|neuron projection (GO:0043005)	transporter activity (GO:0005215)			NS(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(3)	8				BRCA - Breast invasive adenocarcinoma(55;0.000918)|KIRC - Kidney renal clear cell carcinoma(15;0.0658)|Kidney(15;0.0904)		TTTGCATTTGCAACATGCGGT	0.433																																					NSCLC(29;1052 1116 20025 32519)											0													160	161	160					3																	63466530		1945	4146	6091	SO:0001583	missense	132204			AF411860	CCDS46859.1, CCDS46860.1	3p14.3	2011-07-28			ENSG00000163630	ENSG00000163630			16507	protein-coding gene	gene with protein product						8034131, 12974474	Standard	NM_144642		Approved	MGC26651, SPO	uc003dlp.3	Q8TBG9	OTTHUMG00000158699	ENST00000295894.5:c.47C>T	3.37:g.63466530C>T	ENSP00000295894:p.Ala16Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R675|G5E9W4	Missense_Mutation	SNP	ENST00000295894.5	37	CCDS46860.1	.	.	.	.	.	.	.	.	.	.	C	23.4	4.408930	0.83340	.	.	ENSG00000163630	ENST00000478300;ENST00000295894;ENST00000479198;ENST00000460711;ENST00000465156	T;T;T;T;T	0.76186	-1.0;-1.0;-1.0;-1.0;-1.0	5.38	5.38	0.77491	Marvel (1);MARVEL-like domain (1);	0.105267	0.64402	D	0.000004	D	0.87597	0.6217	M	0.90870	3.155	0.80722	D	1	D;D;D	0.60160	0.979;0.979;0.987	P;P;P	0.58013	0.831;0.831;0.74	D	0.90454	0.4441	10	0.87932	D	0	-3.3962	18.124	0.89580	0.0:1.0:0.0:0.0	.	27;16;36	B3KVD8;Q8TBG9;G5E9W4	.;SYNPR_HUMAN;.	V	36;16;16;27;16	ENSP00000418994:A36V;ENSP00000295894:A16V;ENSP00000418929:A16V;ENSP00000418701:A27V;ENSP00000418123:A16V	ENSP00000295894:A16V	A	+	2	0	SYNPR	63441570	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.487000	0.81328	2.523000	0.85059	0.650000	0.86243	GCA		0.433	SYNPR-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000351787.1			T	63466530	C	T	63466530	3	4	591	1	0	0	0	0	1	0	0	0	15471	710	25	2	145	2	SYNPR	3	63466530	Missense_Mutation	SNP	C	TCGA-G7-6795-01A-11D-1961-08		63466530	134555900	19	35189										
ROBO2	6092	broad.mit.edu;bcgsc.ca	37	chr3	77542437	77542437	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	gccaattaaccaggtggtacTggaggaagaagctgtagaat	13	6	0	2			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr3:77542437T>G	ENST00000461745.1	+	5	1610	c.710T>G	c.(709-711)cTg>cGg	p.L237R	ROBO2_ENST00000332191.8_Missense_Mutation_p.L237R|ROBO2_ENST00000487694.3_Missense_Mutation_p.L253R	NM_002942.4	NP_002933.1	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2 (Drosophila)	237	Ig-like C2-type 3.				apoptotic process involved in luteolysis (GO:0061364)|axon guidance (GO:0007411)|axon midline choice point recognition (GO:0016199)|brain development (GO:0007420)|cellular response to hormone stimulus (GO:0032870)|central nervous system development (GO:0007417)|homophilic cell adhesion (GO:0007156)|metanephros development (GO:0001656)|negative regulation of negative chemotaxis (GO:0050925)|negative regulation of synapse assembly (GO:0051964)|olfactory bulb interneuron development (GO:0021891)|positive regulation of axonogenesis (GO:0050772)|retinal ganglion cell axon guidance (GO:0031290)|ureteric bud development (GO:0001657)	axolemma (GO:0030673)|cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	axon guidance receptor activity (GO:0008046)|identical protein binding (GO:0042802)			NS(1)|biliary_tract(5)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(23)|liver(1)|lung(52)|ovary(2)|pancreas(2)|prostate(5)|skin(8)|upper_aerodigestive_tract(1)	117				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		CAGGTGGTACTGGAGGAAGAA	0.403																																																0													135	122	126					3																	77542437		1872	4114	5986	SO:0001583	missense	6092			AF040991	CCDS43109.1, CCDS54609.1	3p12.3	2013-02-11	2001-11-28		ENSG00000185008	ENSG00000185008		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	10250	protein-coding gene	gene with protein product		602431	"roundabout (axon guidance receptor, Drosophila) homolog 2"			9458045	Standard	NM_002942		Approved	KIAA1568	uc003dpy.4	Q9HCK4	OTTHUMG00000158935	ENST00000461745.1:c.710T>G	3.37:g.77542437T>G	ENSP00000417164:p.Leu237Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O43608|Q19AB4|Q19AB5	Missense_Mutation	SNP	ENST00000461745.1	37	CCDS43109.1	.	.	.	.	.	.	.	.	.	.	T	25.2	4.615646	0.87359	.	.	ENSG00000185008	ENST00000487694;ENST00000403211;ENST00000343019;ENST00000461745;ENST00000332191	T;T;T	0.65916	-0.18;-0.18;-0.18	5.88	5.88	0.94601	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.34411	U	0.003992	T	0.68220	0.2977	N	0.25060	0.705	0.42707	D	0.993639	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.998;0.994;0.998	T	0.70107	-0.4963	9	0.37606	T	0.19	.	16.2851	0.82714	0.0:0.0:0.0:1.0	.	253;237;237	Q19AB5;F8W703;Q9HCK4	.;.;ROBO2_HUMAN	R	253;253;253;237;237	ENSP00000417335:L253R;ENSP00000417164:L237R;ENSP00000327536:L237R	ENSP00000327536:L237R	L	+	2	0	ROBO2	77625127	1.000000	0.71417	0.990000	0.47175	0.960000	0.62799	7.982000	0.88131	2.252000	0.74401	0.402000	0.26972	CTG		0.403	ROBO2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000352600.2	XM_031246		G	77542437	T	G	77542437	3	3	591	1	0	0	0	0	1	0	0	0	13527	1580	55	5	730	5	ROBO2	3	77542437	Missense_Mutation	SNP	T	TCGA-G7-6795-01A-11D-1961-08	14075907	77542437	120479993	20	35190										
TOPBP1	11073	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	133329894	133329895	+	Frame_Shift_Ins	INS	-	-	CT													0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ctggattttttttctccatcINStcattgctgcaagtgctagt							TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr3:133329894_133329895insCT	ENST00000260810.5	-	25	4257_4258	c.4126_4127insAG	c.(4126-4128)agafs	p.R1376fs		NM_007027.3	NP_008958.2	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	1376					cellular response to DNA damage stimulus (GO:0006974)|DNA metabolic process (GO:0006259)|DNA repair (GO:0006281)|response to ionizing radiation (GO:0010212)	chromosome (GO:0005694)|condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|male germ cell nucleus (GO:0001673)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|PML body (GO:0016605)	DNA binding (GO:0003677)|identical protein binding (GO:0042802)|protein C-terminus binding (GO:0008022)			breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(5)|lung(14)|ovary(2)|pancreas(1)|skin(3)|upper_aerodigestive_tract(1)	40						TTTTCTCCATCTCATTGCTGCA	0.356								Other conserved DNA damage response genes																													Ovarian(21;193 658 4424 15423 17362)											0																																										SO:0001589	frameshift_variant	11073			AB019397	CCDS46919.1	3q22.1	2004-06-21			ENSG00000163781	ENSG00000163781			17008	protein-coding gene	gene with protein product		607760				9461304, 9039502	Standard	NM_007027		Approved	KIAA0259, TOP2BP1	uc003eps.3	Q92547	OTTHUMG00000159773	ENST00000260810.5:c.4126_4127insAG	3.37:g.133329894_133329895insCT	ENSP00000260810:p.Arg1376fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7W8|Q7LGC1|Q9UEB9	Frame_Shift_Ins	INS	ENST00000260810.5	37	CCDS46919.1																																																																																				0.356	TOPBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357254.1	NM_007027		CT	133329895	-	CT	133329894	7	5	591	1	0	1	1	0	0	0	0	0	16381	913	32	0	457	0	TOPBP1	3	133329894	Frame_Shift_Ins	INS	-	TCGA-G7-6795-01A-11D-1961-08	55787457	133329894	64692536	21	35191										
PLOD2	5352	broad.mit.edu	37	chr3	145806381	145806381	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tcaaatacttactttgttatGaataaaaagtttaagtgctt	5	4	1	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr3:145806381G>A	ENST00000360060.3	-	9	1174	c.997C>T	c.(997-999)Cat>Tat	p.H333Y	PLOD2_ENST00000494950.1_Missense_Mutation_p.H278Y|PLOD2_ENST00000461497.1_5'Flank|RP11-274H2.2_ENST00000480247.1_RNA|PLOD2_ENST00000282903.5_Missense_Mutation_p.H333Y	NM_000935.2	NP_000926.2	O00469	PLOD2_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase 2	333					cellular protein modification process (GO:0006464)|extracellular matrix organization (GO:0030198)|response to hypoxia (GO:0001666)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)	iron ion binding (GO:0005506)|L-ascorbic acid binding (GO:0031418)|procollagen-lysine 5-dioxygenase activity (GO:0008475)			breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(6)|lung(11)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	29					Vitamin C(DB00126)	ACTTTGTTATGAATAAAAAGT	0.294																																																0													55	55	55					3																	145806381		2201	4296	6497	SO:0001583	missense	5352			U84573	CCDS3131.1, CCDS3132.1	3q24	2011-08-24	2005-01-04		ENSG00000152952	ENSG00000152952			9082	protein-coding gene	gene with protein product	"lysyl hydroxlase 2"	601865	"procollagen-lysine, 2-oxoglutarate 5-dioxygenase (lysine hydroxylase) 2"			9054364	Standard	XM_005247535		Approved	LH2	uc003evr.1	O00469	OTTHUMG00000159417	ENST00000360060.3:c.997C>T	3.37:g.145806381G>A	ENSP00000353170:p.His333Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWS3|Q59ED2|Q8N170	Missense_Mutation	SNP	ENST00000360060.3	37	CCDS3131.1	.	.	.	.	.	.	.	.	.	.	G	19.11	3.763173	0.69763	.	.	ENSG00000152952	ENST00000282903;ENST00000360060;ENST00000494950	D;D;D	0.84516	-1.86;-1.86;-1.86	5.38	5.38	0.77491	.	0.000000	0.85682	D	0.000000	D	0.89986	0.6874	L	0.48362	1.52	0.80722	D	1	D;D;B	0.76494	0.998;0.999;0.078	D;D;B	0.91635	0.99;0.999;0.1	D	0.87909	0.2696	10	0.30854	T	0.27	-8.4591	19.1315	0.93410	0.0:0.0:1.0:0.0	.	278;333;333	E7ETU9;O00469;O00469-2	.;PLOD2_HUMAN;.	Y	333;333;278	ENSP00000282903:H333Y;ENSP00000353170:H333Y;ENSP00000420094:H278Y	ENSP00000282903:H333Y	H	-	1	0	PLOD2	147289071	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.441000	0.97557	2.523000	0.85059	0.650000	0.86243	CAT		0.294	PLOD2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000355185.1	NM_000935		A	145806381	G	A	145806381	3	1	591	1	0	0	0	0	1	0	0	0	12109	1290	45	2	1327	2	PLOD2	3	145806381	Missense_Mutation	SNP	G	TCGA-G7-6795-01A-11D-1961-08	12476487	145806381	52216049	22	35192										
P2RY1	5028	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	152553966	152553966	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	actgcagaggttcatctttcAtgtgaacctctatggcagca	9	10	4	2			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr3:152553966A>G	ENST00000305097.3	+	1	1231	c.395A>G	c.(394-396)cAt>cGt	p.H132R		NM_002563.3	NP_002554.1	P47900	P2RY1_HUMAN	purinergic receptor P2Y, G-protein coupled, 1	132					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|aging (GO:0007568)|blood coagulation (GO:0007596)|brain development (GO:0007420)|cell surface receptor signaling pathway (GO:0007166)|eating behavior (GO:0042755)|G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of binding (GO:0051100)|negative regulation of norepinephrine secretion (GO:0010700)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|platelet activation (GO:0030168)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of hormone secretion (GO:0046887)|positive regulation of inositol trisphosphate biosynthetic process (GO:0032962)|positive regulation of ion transport (GO:0043270)|positive regulation of penile erection (GO:0060406)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein localization to plasma membrane (GO:0072659)|regulation of receptor activity (GO:0010469)|regulation of vasodilation (GO:0042312)|relaxation of muscle (GO:0090075)|response to growth factor (GO:0070848)|response to mechanical stimulus (GO:0009612)|sensory perception of pain (GO:0019233)|signal transduction involved in regulation of gene expression (GO:0023019)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|cell body (GO:0044297)|cell surface (GO:0009986)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|neuronal postsynaptic density (GO:0097481)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	ADP binding (GO:0043531)|ADP-activated nucleotide receptor activity (GO:0045032)|ATP binding (GO:0005524)|ATP-activated nucleotide receptor activity (GO:0045031)|G-protein coupled purinergic nucleotide receptor activity (GO:0045028)|receptor activity (GO:0004872)|scaffold protein binding (GO:0097110)			breast(1)|endometrium(1)|large_intestine(7)|lung(11)|ovary(1)|prostate(2)	23			LUSC - Lung squamous cell carcinoma(72;0.0628)|Lung(72;0.11)			TTCATCTTTCATGTGAACCTC	0.507																																																0													79	76	77					3																	152553966		2203	4300	6503	SO:0001583	missense	5028			U42029	CCDS3169.1	3q25.2	2012-08-08			ENSG00000169860	ENSG00000169860		"Purinergic receptors", "GPCR / Class A : Purinergic receptors, P2Y"	8539	protein-coding gene	gene with protein product		601167				8579591	Standard	NM_002563		Approved	P2Y1	uc003ezq.3	P47900	OTTHUMG00000159694	ENST00000305097.3:c.395A>G	3.37:g.152553966A>G	ENSP00000304767:p.His132Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000305097.3	37	CCDS3169.1	.	.	.	.	.	.	.	.	.	.	A	20.6	4.019475	0.75275	.	.	ENSG00000169860	ENST00000305097	T	0.71698	-0.59	5.76	5.76	0.90799	GPCR, rhodopsin-like superfamily (1);	0.000000	0.85682	D	0.000000	D	0.82944	0.5147	M	0.79475	2.455	0.80722	D	1	D	0.58268	0.982	D	0.62955	0.909	D	0.85045	0.0925	10	0.66056	D	0.02	.	15.2728	0.73717	1.0:0.0:0.0:0.0	.	132	P47900	P2RY1_HUMAN	R	132	ENSP00000304767:H132R	ENSP00000304767:H132R	H	+	2	0	P2RY1	154036656	1.000000	0.71417	0.987000	0.45799	0.981000	0.71138	9.210000	0.95106	2.186000	0.69663	0.533000	0.62120	CAT		0.507	P2RY1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356943.1	NM_002563		G	152553966	A	G	152553966	3	3	591	1	0	0	0	0	1	0	0	0	11353	217	8	3	397	3	P2RY1	3	152553966	Missense_Mutation	SNP	A	TCGA-G7-6795-01A-11D-1961-08	6747585	152553966	45468464	23	35193										
SH3TC1	54436	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	8230107	8230107	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ccctgcgggtggctcgggacCtgggccagcaaaggaaccag	16	13	0	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr4:8230107C>T	ENST00000245105.3	+	12	2753	c.2686C>T	c.(2686-2688)Ctg>Ttg	p.L896L	SH3TC1_ENST00000539824.1_Silent_p.L820L	NM_018986.3	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	896										NS(1)|breast(3)|endometrium(4)|kidney(4)|large_intestine(6)|lung(10)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	33						GGCTCGGGACCTGGGCCAGCA	0.692																																					NSCLC(145;2298 2623 35616 37297)											0													37	43	41					4																	8230107		2203	4299	6502	SO:0001819	synonymous_variant	54436			AK074093	CCDS3399.1	4p16.1	2013-01-11			ENSG00000125089	ENSG00000125089		"Tetratricopeptide (TTC) repeat domain containing"	26009	protein-coding gene	gene with protein product							Standard	NM_018986		Approved	FLJ20356	uc003gkv.4	Q8TE82	OTTHUMG00000160934	ENST00000245105.3:c.2686C>T	4.37:g.8230107C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5G5	Silent	SNP	ENST00000245105.3	37	CCDS3399.1																																																																																				0.692	SH3TC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000206991.2	NM_018986		T	8230107	C	T	8230107	2	4	591	1	0	0	0	0	0	0	0	1	14274	680	24	2		2	SH3TC1	4	8230107	Silent	SNP	C	TCGA-G7-6795-01A-11D-1961-08		8230107	182924169	24	35194										
LAP3	51056	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	17586652	17586653	+	Missense_Mutation	DNP	AC	AC	GA													0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	gcttctgggcagaacttggcAcgccaattgatggagacgcc							TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr4:17586652_17586653AC>GA	ENST00000226299.4	+	6	871_872	c.597_598AC>GA	c.(595-600)gcACgc>gcGAgc	p.R200S	AC006160.5_ENST00000511010.1_RNA|LAP3_ENST00000606142.1_Missense_Mutation_p.R169S	NM_015907.2	NP_056991.2	P28838	AMPL_HUMAN	leucine aminopeptidase 3	200					proteolysis (GO:0006508)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|trans-Golgi network (GO:0005802)	aminopeptidase activity (GO:0004177)|manganese ion binding (GO:0030145)|metalloexopeptidase activity (GO:0008235)			endometrium(4)|kidney(1)|large_intestine(4)|lung(10)|urinary_tract(1)	20						AGAACTTGGCACGCCAATTGAT	0.475																																																0																																										SO:0001583	missense	51056			AF061738	CCDS3422.1	4p15.33	2012-07-25	2003-09-12		ENSG00000002549	ENSG00000002549	3.4.11.1		18449	protein-coding gene	gene with protein product		170250	"peptidase S"	PEPS		6350155, 689684	Standard	NM_015907		Approved	LAPEP, LAP	uc003gph.1	P28838	OTTHUMG00000048214	Exception_encountered	4.37:g.17586652_17586653delinsGA	ENSP00000226299:p.Arg200Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KMQ3|Q6IAM6|Q6P0L6|Q9UQE3	Missense_Mutation	DNP	ENST00000226299.4	37	CCDS3422.1																																																																																				0.475	LAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250365.1			GA	17586653	AC	GA	17586652	3	3	591	1	0	0	0	0	1	0	0	0	8630	146	6	3	619	3	LAP3	4	17586652	Missense_Mutation	DNP	AC	TCGA-G7-6795-01A-11D-1961-08	9356545	17586652	173567624	25	35195										
DDX60L	91351	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	169317122	169317122	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tgacgtactgagtctttattCctggtaatttcagtgtgtag	10	6	2	2			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr4:169317122C>T	ENST00000511577.1	-	27	3892	c.3645G>A	c.(3643-3645)agG>agA	p.R1215R	DDX60L_ENST00000505890.1_Silent_p.R1216R|DDX60L_ENST00000260184.7_Silent_p.R1215R			Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	1215	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.						ATP binding (GO:0005524)|helicase activity (GO:0004386)|RNA binding (GO:0003723)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(7)|lung(23)|ovary(2)|prostate(1)|skin(1)|stomach(1)	43		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		AGTCTTTATTCCTGGTAATTT	0.343																																																0													103	93	96					4																	169317122		1813	4069	5882	SO:0001819	synonymous_variant	91351			AK092461	CCDS47161.1	4q32.3	2008-01-08				ENSG00000181381			26429	protein-coding gene	gene with protein product							Standard	XM_005263341		Approved	FLJ31033	uc003irq.4	Q5H9U9		ENST00000511577.1:c.3645G>A	4.37:g.169317122C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q96ND6	Silent	SNP	ENST00000511577.1	37		.	.	.	.	.	.	.	.	.	.	C	0.998	-0.691845	0.03303	.	.	ENSG00000181381	ENST00000514580	.	.	.	1.42	0.293	0.15742	.	.	.	.	.	T	0.24967	0.0606	.	.	.	0.09310	N	0.999999	.	.	.	.	.	.	T	0.25950	-1.0117	4	.	.	.	.	5.6565	0.17644	0.0:0.4727:0.5273:0.0	.	.	.	.	K	103	.	.	E	-	1	0	DDX60L	169553697	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	0.305000	0.19254	0.010000	0.14839	0.313000	0.20887	GAA		0.343	DDX60L-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000364839.1	NM_001012967		T	169317122	C	T	169317122	2	4	591	1	0	0	0	0	0	0	0	1	4381	854	30	2		2	DDX60L	4	169317122	Silent	SNP	C	TCGA-G7-6795-01A-11D-1961-08	151730470	169317122	21837154	26	35196										
WDR70	55100	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	37381726	37381726	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	aaaaaagctcgcacatttgaCttggaagcaatgtttgaaca	8	7	0	2			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr5:37381726C>T	ENST00000265107.4	+	3	270	c.114C>T	c.(112-114)gaC>gaT	p.D38D	WDR70_ENST00000504564.1_Silent_p.D38D	NM_018034.2	NP_060504.1	Q9NW82	WDR70_HUMAN	WD repeat domain 70	38							enzyme binding (GO:0019899)			central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(5)|lung(18)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	37	all_lung(31;0.000285)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GCACATTTGACTTGGAAGCAA	0.378																																																0													119	127	124					5																	37381726		2203	4300	6503	SO:0001819	synonymous_variant	55100			BC009648	CCDS34147.1	5p13.2	2013-01-09			ENSG00000082068	ENSG00000082068		"WD repeat domain containing"	25495	protein-coding gene	gene with protein product						12477932	Standard	NM_018034		Approved	FLJ10233	uc003jkv.3	Q9NW82	OTTHUMG00000162263	ENST00000265107.4:c.114C>T	5.37:g.37381726C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H053	Silent	SNP	ENST00000265107.4	37	CCDS34147.1																																																																																				0.378	WDR70-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368294.1	NM_018034		T	37381726	C	T	37381726	2	4	591	1	0	0	0	0	0	0	0	1	17333	564	20	2		2	WDR70	5	37381726	Silent	SNP	C	TCGA-G7-6795-01A-11D-1961-08		37381726	143533534	27	35197										
NDFIP1	80762	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	141524143	141524144	+	Missense_Mutation	DNP	CC	CC	AG													0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ttttttaaattaggctttctCctgtttctcagaggatttat							TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr5:141524143_141524144CC>AG	ENST00000253814.4	+	7	1040_1041	c.570_571CC>AG	c.(568-573)ctCCtg>ctAGtg	p.L191V		NM_030571.3	NP_085048.1	Q9BT67	NFIP1_HUMAN	Nedd4 family interacting protein 1	191					cellular iron ion homeostasis (GO:0006879)|negative regulation of gene expression (GO:0010629)|negative regulation of inflammatory response (GO:0050728)|negative regulation of interleukin-4 production (GO:0032713)|negative regulation of isotype switching to IgE isotypes (GO:0048294)|negative regulation of protein transport (GO:0051224)|negative regulation of T cell proliferation (GO:0042130)|negative regulation of transporter activity (GO:0032410)|negative regulation of type 2 immune response (GO:0002829)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of protein ubiquitination (GO:0031398)|regulation of isotype switching to IgG isotypes (GO:0048302)|regulation of lymphocyte differentiation (GO:0045619)|regulation of myeloid leukocyte differentiation (GO:0002761)|signal transduction (GO:0007165)|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway (GO:0043162)	cell cortex (GO:0005938)|endosome (GO:0005768)|extracellular region (GO:0005576)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)	signal transducer activity (GO:0004871)			large_intestine(3)|lung(1)|ovary(1)	5		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAGGCTTTCTCCTGTTTCTCAG	0.356																																																0																																										SO:0001583	missense	80762			BC004317	CCDS4273.1	5q31.3	2008-02-05			ENSG00000131507	ENSG00000131507			17592	protein-coding gene	gene with protein product		612050				11042109, 11748237	Standard	NM_030571		Approved	N4WBP5, MGC10924	uc003lmi.4	Q9BT67	OTTHUMG00000129659	Exception_encountered	5.37:g.141524143_141524144delinsAG	ENSP00000253814:p.Leu191Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDB8|D3DQF0|Q658T8|Q8N2E3|Q8N2F9	Missense_Mutation	DNP	ENST00000253814.4	37	CCDS4273.1																																																																																				0.356	NDFIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251859.2	NM_030571		AG	141524144	CC	AG	141524143	3	1	591	1	0	0	0	0	1	0	0	0	10252	842	30	4	596	4	NDFIP1	5	141524143	Missense_Mutation	DNP	CC	TCGA-G7-6795-01A-11D-1961-08	104142417	141524143	39391117	28	35198										
TUBE1	51175	hgsc.bcm.edu	37	chr6	112408628	112408628	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	cttaccctgtacgaccaccgActgggtcatggtggtgcgcc	12	14	1	0	rs199513778		TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr6:112408628A>C	ENST00000368662.5	-	1	88	c.10T>G	c.(10-12)Tcg>Gcg	p.S4A	FAM229B_ENST00000368656.2_5'Flank|FAM229B_ENST00000604268.1_5'Flank|TUBE1_ENST00000604814.1_5'Flank	NM_016262.4	NP_057346.1	Q9UJT0	TBE_HUMAN	tubulin, epsilon 1	4					centrosome cycle (GO:0007098)|protein polymerization (GO:0051258)	microtubule (GO:0005874)|pericentriolar material (GO:0000242)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)			cervix(1)|endometrium(2)|large_intestine(5)|lung(2)|ovary(1)|upper_aerodigestive_tract(1)	12		all_cancers(87;0.0101)|all_hematologic(75;0.000258)|Colorectal(196;0.0466)|all_epithelial(87;0.1)		all cancers(137;0.0217)|OV - Ovarian serous cystadenocarcinoma(136;0.0613)|Epithelial(106;0.0636)|GBM - Glioblastoma multiforme(226;0.0972)|BRCA - Breast invasive adenocarcinoma(108;0.246)	Vinblastine(DB00570)	ACGACCACCGACTGGGTCATG	0.632													A|||	1	0.000199681	0.0	0.0	5008	,	,		16095	0.0		0.001	False		,,,				2504	0.0															0													13	13	13					6																	112408628		2036	3985	6021	SO:0001583	missense	51175			AF201334	CCDS5100.1	6q21	2005-11-03			ENSG00000074935	ENSG00000074935		"Tubulins"	20775	protein-coding gene	gene with protein product		607345				10620804	Standard	NM_016262		Approved	dJ142L7.2, FLJ22589, TUBE	uc003pvq.3	Q9UJT0	OTTHUMG00000015382	ENST00000368662.5:c.10T>G	6.37:g.112408628A>C	ENSP00000357651:p.Ser4Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5H8W8|Q8NEG3	Missense_Mutation	SNP	ENST00000368662.5	37	CCDS5100.1	.	.	.	.	.	.	.	.	.	.	A	18.99	3.739608	0.69304	.	.	ENSG00000074935	ENST00000368662;ENST00000368657	T	0.66815	-0.23	4.86	4.86	0.63082	Tubulin/FtsZ, GTPase domain (2);	0.259719	0.40385	N	0.001104	T	0.73621	0.3610	M	0.73430	2.235	0.58432	D	0.999991	D	0.62365	0.991	P	0.60286	0.872	T	0.77981	-0.2383	10	0.66056	D	0.02	.	14.5546	0.68091	1.0:0.0:0.0:0.0	.	4	Q9UJT0	TBE_HUMAN	A	4	ENSP00000357651:S4A	ENSP00000357646:S4A	S	-	1	0	TUBE1	112515321	1.000000	0.71417	1.000000	0.80357	0.083000	0.17756	6.872000	0.75536	2.168000	0.68352	0.397000	0.26171	TCG		0.632	TUBE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041867.1	NM_016262		C	112408628	A	C	112408628	3	2	591	1	0	0	0	0	1	0	0	0	16775	275	10	5	1465	5	TUBE1	6	112408628	Missense_Mutation	SNP	A	TCGA-G7-6795-01A-11D-1961-08		112408628	58706439	29	35199										
ABCA13	154664	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	48506568	48506568	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	agcagcagtgggggcgacaaCttggacctcacccgtgtgct	14	12	1	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr7:48506568C>T	ENST00000435803.1	+	44	12855	c.12831C>T	c.(12829-12831)aaC>aaT	p.N4277N	ABCA13_ENST00000544596.1_Intron	NM_152701.3	NP_689914.2	Q86UQ4	ABCAD_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 13	4277			N -> D (in dbSNP:rs4917152).		transport (GO:0006810)	integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)			breast(13)|central_nervous_system(8)|endometrium(25)|haematopoietic_and_lymphoid_tissue(4)|kidney(20)|large_intestine(51)|lung(100)|ovary(5)|pancreas(2)|prostate(22)|skin(10)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(4)	270						GGGGCGACAACTTGGACCTCA	0.498																																																0													109	118	115					7																	48506568		2069	4210	6279	SO:0001819	synonymous_variant	154664			AY204751	CCDS47584.1	7p12.3	2012-03-14			ENSG00000179869	ENSG00000179869		"ATP binding cassette transporters / subfamily A"	14638	protein-coding gene	gene with protein product		607807				12697998	Standard	NM_152701		Approved	FLJ33876, FLJ33951	uc003toq.2	Q86UQ4	OTTHUMG00000155840	ENST00000435803.1:c.12831C>T	7.37:g.48506568C>T		Somatic		WXS	Illumina HiSeq	Phase_I	K9LC76|K9LC79|K9LCX7|K9LDK8|K9LDY4|Q6ZTT7|Q86WI2|Q8N248	Silent	SNP	ENST00000435803.1	37	CCDS47584.1																																																																																				0.498	ABCA13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341964.2	NM_152701		T	48506568	C	T	48506568	2	4	591	1	0	0	0	0	0	0	0	1	31	564	20	2		2	ABCA13	7	48506568	Silent	SNP	C	TCGA-G7-6795-01A-11D-1961-08		48506568	110632095	30	35200										
ZNF680	340252	broad.mit.edu	37	chr7	63982808	63982808	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	cattttccatatcctctcagTatcactttttgaaaagaatc	3	10	2	2			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr7:63982808T>C	ENST00000309683.6	-	4	475	c.324A>G	c.(322-324)atA>atG	p.I108M	ZNF680_ENST00000476563.1_5'UTR	NM_178558.4	NP_848653.2	Q8NEM1	ZN680_HUMAN	zinc finger protein 680	108					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(11)|ovary(1)|prostate(1)	27		Lung NSC(55;0.118)|all_lung(88;0.243)				ATCCTCTCAGTATCACTTTTT	0.318																																																0													46	47	47					7																	63982808		2202	4288	6490	SO:0001583	missense	340252			AK074911	CCDS34644.1, CCDS47594.1	7q11.21	2013-01-08			ENSG00000173041	ENSG00000173041		"Zinc fingers, C2H2-type", "-"	26897	protein-coding gene	gene with protein product	"hypothetical protein FLJ90430"					12477932	Standard	NM_178558		Approved	FLJ90430	uc003tta.2	Q8NEM1	OTTHUMG00000156542	ENST00000309683.6:c.324A>G	7.37:g.63982808T>C	ENSP00000309330:p.Ile108Met	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVJ4|Q6ZNF3|Q8NC79	Missense_Mutation	SNP	ENST00000309683.6	37	CCDS34644.1	.	.	.	.	.	.	.	.	.	.	t	5.664	0.307088	0.10733	.	.	ENSG00000173041	ENST00000309683	T	0.05580	3.42	0.468	0.468	0.16732	.	.	.	.	.	T	0.12008	0.0292	M	0.76574	2.34	0.09310	N	1	D	0.56968	0.978	P	0.49012	0.598	T	0.15607	-1.0431	8	0.45353	T	0.12	.	.	.	.	.	108	Q8NEM1	ZN680_HUMAN	M	108	ENSP00000309330:I108M	ENSP00000309330:I108M	I	-	3	3	ZNF680	63620243	0.001000	0.12720	0.034000	0.17996	0.031000	0.12232	-0.161000	0.10026	0.413000	0.25759	0.402000	0.26972	ATA		0.318	ZNF680-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344568.1	NM_178558		C	63982808	T	C	63982808	3	2	591	1	0	0	0	0	1	0	0	0	18099	1628	57	3	1272	3	ZNF680	7	63982808	Missense_Mutation	SNP	T	TCGA-G7-6795-01A-11D-1961-08	15476240	63982808	95155855	31	35201										
SLC13A1	6561	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	122765636	122765636	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	actcaaccaatttctcctgtAggtgtagttttagtcagtgt	8	8	3	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr7:122765636A>G	ENST00000194130.2	-	11	1266	c.1227T>C	c.(1225-1227)ccT>ccC	p.P409P	SLC13A1_ENST00000539873.1_3'UTR	NM_022444.3	NP_071889.2	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate symporter), member 1	409					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	sodium:sulfate symporter activity (GO:0015382)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(9)|lung(20)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	45					Succinic acid(DB00139)	TTTCTCCTGTAGGTGTAGTTT	0.368																																																0													123	129	127					7																	122765636		2203	4300	6503	SO:0001819	synonymous_variant	6561				CCDS5786.1	7q31.32	2013-07-18	2013-07-18		ENSG00000081800	ENSG00000081800		"Solute carriers"	10916	protein-coding gene	gene with protein product		606193	"solute carrier family 13 (sodium/sulphate symporters), member 1"			11161786	Standard	NM_022444		Approved	NaSi-1, NAS1	uc003vkm.3	Q9BZW2	OTTHUMG00000157087	ENST00000194130.2:c.1227T>C	7.37:g.122765636A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H5Z0	Silent	SNP	ENST00000194130.2	37	CCDS5786.1																																																																																				0.368	SLC13A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347404.1	NM_022444		G	122765636	A	G	122765636	2	3	591	1	0	0	0	0	0	0	0	1	14404	407	15	3		3	SLC13A1	7	122765636	Silent	SNP	A	TCGA-G7-6795-01A-11D-1961-08	58782828	122765636	36373027	32	35202										
AKR1B15	441282	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	134260255	134260255	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ttccagatcgagaggctcttGaacaaacctggactgaaata	9	9	1	4			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr7:134260255G>T	ENST00000457545.2	+	7	857	c.597G>T	c.(595-597)ttG>ttT	p.L199F	AKR1B15_ENST00000423958.1_Missense_Mutation_p.L171F	NM_001080538.2	NP_001074007.2	C9JRZ8	AK1BF_HUMAN	aldo-keto reductase family 1, member B15	199							oxidoreductase activity (GO:0016491)			endometrium(1)|kidney(3)|large_intestine(2)|lung(10)|ovary(1)|urinary_tract(1)	18						AGAGGCTCTTGAACAAACCTG	0.463																																																0													71	77	75					7																	134260255		2203	4300	6503	SO:0001583	missense	441282				CCDS47715.1, CCDS47715.2	7q33	2009-09-09			ENSG00000227471	ENSG00000227471		"Aldo-keto reductases"	37281	protein-coding gene	gene with protein product							Standard	NM_001080538		Approved		uc011kpr.2	C9JRZ8	OTTHUMG00000155376	ENST00000457545.2:c.597G>T	7.37:g.134260255G>T	ENSP00000389289:p.Leu199Phe	Somatic		WXS	Illumina HiSeq	Phase_I	C9J3V2	Missense_Mutation	SNP	ENST00000457545.2	37	CCDS47715.2	.	.	.	.	.	.	.	.	.	.	G	14.27	2.484711	0.44147	.	.	ENSG00000227471	ENST00000457545;ENST00000423958	T;T	0.21031	2.03;2.03	3.82	0.986	0.19784	NADP-dependent oxidoreductase domain (3);	.	.	.	.	T	0.42832	0.1220	M	0.80508	2.5	0.47308	D	0.999386	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.23619	-1.0183	9	0.87932	D	0	.	7.683	0.28524	0.2865:0.0:0.7135:0.0	.	171;199	C9JRZ8-2;C9JRZ8	.;AK1BF_HUMAN	F	199;171	ENSP00000389289:L199F;ENSP00000397009:L171F	ENSP00000397009:L171F	L	+	3	2	AKR1B15	133910795	0.998000	0.40836	0.832000	0.32986	0.573000	0.36030	0.344000	0.19962	-0.004000	0.14419	0.543000	0.68304	TTG		0.463	AKR1B15-001	PUTATIVE	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000339726.2			T	134260255	G	T	134260255	3	4	591	1	0	0	0	0	1	0	0	0	468	1281	45	4	615	4	AKR1B15	7	134260255	Missense_Mutation	SNP	G	TCGA-G7-6795-01A-11D-1961-08	11494619	134260255	24878408	33	35203										
MGAM	8972	broad.mit.edu	37	chr7	141794622	141794622	+	Frame_Shift_Del	DEL	T	T	-													0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	gctggatgcagctgggggccTtttaccccttctcaagaaac							TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr7:141794622delT	ENST00000549489.2	+	40	4824	c.4729delT	c.(4729-4731)tttfs	p.F1577fs	MGAM_ENST00000475668.2_Frame_Shift_Del_p.F2473fs	NM_004668.2	NP_004659.2	O43451	MGA_HUMAN	maltase-glucoamylase (alpha-glucosidase)	1577	Glucoamylase.				carbohydrate metabolic process (GO:0005975)|polysaccharide digestion (GO:0044245)|small molecule metabolic process (GO:0044281)|starch catabolic process (GO:0005983)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	alpha-1,4-glucosidase activity (GO:0004558)|amylase activity (GO:0016160)|carbohydrate binding (GO:0030246)|catalytic activity (GO:0003824)|glucan 1,4-alpha-glucosidase activity (GO:0004339)|maltose alpha-glucosidase activity (GO:0032450)			cervix(1)|endometrium(1)|large_intestine(4)|lung(3)|ovary(2)|skin(2)	13	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	GCTGGGGGCCTTTTACCCCTT	0.493																																																0													58	57	57					7																	141794622		1894	4106	6000	SO:0001589	frameshift_variant	8972			AF016833	CCDS47727.1	7q34	2012-10-03			ENSG00000257335	ENSG00000257335			7043	protein-coding gene	gene with protein product		154360				9446624	Standard	NM_004668		Approved	MGA	uc003vwy.3	O43451	OTTHUMG00000158395	ENST00000549489.2:c.4729delT	7.37:g.141794622delT	ENSP00000447378:p.Phe1577fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAX6|Q75ME7|Q86UM5	Frame_Shift_Del	DEL	ENST00000549489.2	37	CCDS47727.1																																																																																				0.493	MGAM-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000351244.3			-	141794622	T	-	141794622	7	5	591	1	0	1	0	1	0	0	0	0	9548	1609	56	0	4883	0	MGAM	7	141794622	Frame_Shift_Del	DEL	T	TCGA-G7-6795-01A-11D-1961-08	7534367	141794622	17344041	34	35204										
TPD52	7163	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	80963849	80963851	+	In_Frame_Del	DEL	GAT	GAT	-													0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	cagcctgggataaggtttcaGatgtcttcttgtaactatat							TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	GAT	GAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr8:80963849_80963851delGAT	ENST00000379097.3	-	4	779_781	c.417_419delATC	c.(415-420)acatct>act	p.S140del	TPD52_ENST00000379096.5_In_Frame_Del_p.S100del|TPD52_ENST00000537855.1_In_Frame_Del_p.S140del|TPD52_ENST00000520527.1_In_Frame_Del_p.S140del|TPD52_ENST00000448733.2_In_Frame_Del_p.S140del|TPD52_ENST00000523395.1_5'Flank|TPD52_ENST00000518937.1_In_Frame_Del_p.S100del|TPD52_ENST00000519303.2_5'UTR|TPD52_ENST00000517427.1_In_Frame_Del_p.S140del	NM_001025252.1	NP_001020423.1	P55327	TPD52_HUMAN	tumor protein D52	140					anatomical structure morphogenesis (GO:0009653)|B cell differentiation (GO:0030183)|positive regulation of cell proliferation (GO:0008284)|secretion (GO:0046903)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|perinuclear region of cytoplasm (GO:0048471)	calcium ion binding (GO:0005509)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)			endometrium(1)|large_intestine(2)|lung(3)|ovary(1)|prostate(1)	8	all_epithelial(4;1.13e-09)|Lung NSC(7;9.71e-07)|all_lung(9;3.75e-06)	Lung NSC(129;3.55e-06)|all_lung(136;1.53e-05)|Acute lymphoblastic leukemia(644;0.158)	BRCA - Breast invasive adenocarcinoma(6;0.00181)|Epithelial(68;0.0149)|all cancers(69;0.0612)			TAAGGTTTCAGATGTCTTCTTGT	0.404																																																0																																										SO:0001651	inframe_deletion	7163			U18914	CCDS34912.1, CCDS47879.1, CCDS55249.1, CCDS75757.1, CCDS75758.1, CCDS75759.1	8q21.13	2014-06-24			ENSG00000076554	ENSG00000076554			12005	protein-coding gene	gene with protein product		604068				7796418	Standard	NM_001287144		Approved	D52, hD52, N8L	uc003ybr.1	P55327	OTTHUMG00000164565	ENST00000379097.3:c.417_419delATC	8.37:g.80963849_80963851delGAT	ENSP00000368391:p.Ser140del	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z414|C9J502|D0UFD1|D0UFD2|D0UFD3|D0UFD4|D0UFD5|E5RKB4|Q13056|Q53EK8|Q6FGP3|Q6FGS3|Q86YZ2|Q9UCX8	In_Frame_Del	DEL	ENST00000379097.3	37	CCDS34912.1																																																																																				0.404	TPD52-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000379539.2	NM_005079		-	80963851	GAT	-	80963849	7	5	591	1	0	1	0	1	0	0	0	0	16409	942	33	0	344	0	TPD52	8	80963849	In_Frame_Del	DEL	GAT	TCGA-G7-6795-01A-11D-1961-08		80963849	65400173	35	35205										
OXR1	55074	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	107718929	107718929	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ctactggtactcctggtcacTtaagatctgatactgaacat	7	10	2	3			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr8:107718929T>C	ENST00000442977.2	+	8	1282	c.1183T>C	c.(1183-1185)Tta>Cta	p.L395L	OXR1_ENST00000445937.1_Silent_p.L394L|OXR1_ENST00000452423.2_5'UTR|OXR1_ENST00000312046.6_Silent_p.L387L|OXR1_ENST00000497705.1_Silent_p.L327L|OXR1_ENST00000531443.1_Silent_p.L394L|OXR1_ENST00000517566.2_Silent_p.L394L	NM_001198532.1	NP_001185461.1	Q8N573	OXR1_HUMAN	oxidation resistance 1	395					adult walking behavior (GO:0007628)|cellular response to hydroperoxide (GO:0071447)|negative regulation of neuron apoptotic process (GO:0043524)|response to oxidative stress (GO:0006979)	mitochondrion (GO:0005739)|nucleolus (GO:0005730)	oxidoreductase activity (GO:0016491)			NS(2)|breast(2)|endometrium(2)|large_intestine(9)|lung(10)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(4)	31			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)			TCCTGGTCACTTAAGATCTGA	0.368																																																0													86	89	88					8																	107718929		2203	4300	6503	SO:0001819	synonymous_variant	55074			AF309387	CCDS6304.2, CCDS47909.1, CCDS56547.1, CCDS56548.1, CCDS56549.1, CCDS56550.1	8q23	2013-03-14			ENSG00000164830	ENSG00000164830			15822	protein-coding gene	gene with protein product	"TBC/LysM-associated domain containing 3"	605609				11114193	Standard	NM_181354		Approved	TLDC3	uc011lht.2	Q8N573	OTTHUMG00000167682	ENST00000442977.2:c.1183T>C	8.37:g.107718929T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NK11|A8KA34|B3KXL1|B7Z402|B7Z8N5|D3HIS6|Q3LIB5|Q6ZVK9|Q8N8V0|Q9H266|Q9NWC7	Silent	SNP	ENST00000442977.2	37	CCDS56548.1																																																																																				0.368	OXR1-201	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_181354		C	107718929	T	C	107718929	2	2	591	1	0	0	0	0	0	0	0	1	11341	1606	56	3		3	OXR1	8	107718929	Silent	SNP	T	TCGA-G7-6795-01A-11D-1961-08	26755080	107718929	38645093	36	35206										
COL22A1	169044	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	139737673	139737673	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ggcctgggacaccagggggtCctggagggccctgtagagaa	18	10	0	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr8:139737673C>T	ENST00000303045.6	-	24	2596	c.2150G>A	c.(2149-2151)gGa>gAa	p.G717E	COL22A1_ENST00000435777.1_Missense_Mutation_p.G717E	NM_152888.1	NP_690848.1	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	717	Collagen-like 5.|Gly-rich.|Pro-rich.				extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)				breast(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(14)|large_intestine(29)|lung(107)|ovary(13)|pancreas(1)|prostate(3)|skin(12)|upper_aerodigestive_tract(15)|urinary_tract(4)	211	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)			ACCAGGGGGTCCTGGAGGGCC	0.582										HNSCC(7;0.00092)																																						0													50	57	55					8																	139737673		2203	4300	6503	SO:0001583	missense	169044			AF406780	CCDS6376.1	8q24.3	2013-01-16			ENSG00000169436	ENSG00000169436		"Collagens"	22989	protein-coding gene	gene with protein product		610026					Standard	NM_152888		Approved		uc003yvd.3	Q8NFW1	OTTHUMG00000150035	ENST00000303045.6:c.2150G>A	8.37:g.139737673C>T	ENSP00000303153:p.Gly717Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZMH0|C9K0G4|Q8IVT9	Missense_Mutation	SNP	ENST00000303045.6	37	CCDS6376.1	.	.	.	.	.	.	.	.	.	.	C	16.16	3.043885	0.55110	.	.	ENSG00000169436	ENST00000303045;ENST00000435777;ENST00000545577	D;D	0.99353	-5.77;-5.14	4.8	4.8	0.61643	.	0.000000	0.49305	D	0.000157	D	0.99722	0.9892	H	0.99719	4.725	0.52099	D	0.999949	D;D	0.89917	1.0;1.0	D;D	0.97110	0.999;1.0	D	0.96966	0.9705	10	0.87932	D	0	.	14.0818	0.64929	0.0:1.0:0.0:0.0	.	717;717	Q8NFW1-2;Q8NFW1	.;COMA1_HUMAN	E	717;717;430	ENSP00000303153:G717E;ENSP00000387655:G717E	ENSP00000303153:G717E	G	-	2	0	COL22A1	139806855	1.000000	0.71417	1.000000	0.80357	0.892000	0.51952	3.436000	0.52856	2.567000	0.86603	0.655000	0.94253	GGA		0.582	COL22A1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000315905.2	XM_291257		T	139737673	C	T	139737673	3	4	591	1	0	0	0	0	1	0	0	0	3683	855	30	2	2898	2	COL22A1	8	139737673	Missense_Mutation	SNP	C	TCGA-G7-6795-01A-11D-1961-08	32018744	139737673	6626349	37	35207										
ZNF658	26149	broad.mit.edu	37	chr9	40772391	40772392	+	Frame_Shift_Del	DEL	CT	CT	-													0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	acattcataggatttctcccCtgtgtgaattctttgatgta							TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr9:40772391_40772392delCT	ENST00000602553.1	-	5	3177_3178	c.2883_2884delAG	c.(2881-2886)acagggfs	p.G962fs	ZNF658_ENST00000377626.3_Frame_Shift_Del_p.G962fs|ZNF658_ENST00000441795.1_Intron			Q5TYW1	ZN658_HUMAN	zinc finger protein 658	962					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(3)|central_nervous_system(1)|endometrium(6)|kidney(1)|large_intestine(9)|lung(21)|ovary(2)|prostate(1)|upper_aerodigestive_tract(2)	46				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		GATTTCTCCCCTGTGTGAATTC	0.436																																																0										0,2758		0,0,1379						2.2	0			6	5,5899		2,1,2949	no	frameshift	ZNF658	NM_033160.5		2,1,4328	A1A1,A1R,RR		0.0847,0.0,0.0577				5,8657				SO:0001589	frameshift_variant	26149			AA482262	CCDS75846.1	9p13.1	2013-01-08			ENSG00000196409	ENSG00000274349		"Zinc fingers, C2H2-type", "-"	25226	protein-coding gene	gene with protein product							Standard	NM_033160		Approved	MGC35232, DKFZp572C163, FLJ32813	uc004abs.2	Q5TYW1	OTTHUMG00000013392	ENST00000602553.1:c.2883_2884delAG	9.37:g.40772391_40772392delCT	ENSP00000473484:p.Gly962fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PIP3|Q96M55|Q9H9S6|Q9UG02	Frame_Shift_Del	DEL	ENST00000602553.1	37	CCDS35023.1																																																																																				0.436	ZNF658-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467800.1	NM_033160		-	40772392	CT	-	40772391	7	5	591	1	0	1	0	1	0	0	0	0	18081	681	24	0	299	0	ZNF658	9	40772391	Frame_Shift_Del	DEL	CT	TCGA-G7-6795-01A-11D-1961-08		40772391	100441040	38	35208										
SEC16A	9919	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	139371469	139371469	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	gctgagggagggaaggggatGctgctggggtgaccacaccg	20	8	0	2			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr9:139371469G>A	ENST00000371706.3	-	1	98	c.65C>T	c.(64-66)gCa>gTa	p.A22V	SEC16A_ENST00000431893.2_Missense_Mutation_p.A22V|SEC16A_ENST00000313050.7_Missense_Mutation_p.A200V|SEC16A_ENST00000290037.6_Missense_Mutation_p.A22V			O15027	SC16A_HUMAN	SEC16 homolog A (S. cerevisiae)	22					COPII vesicle coating (GO:0048208)|endoplasmic reticulum organization (GO:0007029)|protein transport (GO:0015031)|substantia nigra development (GO:0021762)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)				breast(1)|central_nervous_system(3)|endometrium(7)|kidney(5)|large_intestine(15)|lung(14)|ovary(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	51		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		GGAAGGGGATGCTGCTGGGGT	0.652																																																0													47	53	51					9																	139371469		2113	4220	6333	SO:0001583	missense	9919			AK074565	CCDS55351.1, CCDS75936.1	9q34.3	2007-06-20	2007-06-20	2007-06-20	ENSG00000148396	ENSG00000148396			29006	protein-coding gene	gene with protein product		612854	"KIAA0310"	KIAA0310		9205841	Standard	NM_014866		Approved	p250	uc004chx.3	O15027	OTTHUMG00000020932	ENST00000371706.3:c.65C>T	9.37:g.139371469G>A	ENSP00000360771:p.Ala22Val	Somatic		WXS	Illumina HiSeq	Phase_I	A1YCA4|Q4G0D7|Q5SXP0|Q5SXP1|Q8N347|Q96HP1	Missense_Mutation	SNP	ENST00000371706.3	37		.	.	.	.	.	.	.	.	.	.	G	14.35	2.509363	0.44660	.	.	ENSG00000148396	ENST00000313050;ENST00000371706;ENST00000290037;ENST00000431893	T;T;T;T	0.27256	1.87;1.68;1.68;1.68	5.39	5.39	0.77823	.	0.642215	0.15172	N	0.276561	T	0.33381	0.0861	L	0.54323	1.7	0.26691	N	0.97136	P;P;P	0.42296	0.666;0.775;0.775	B;B;B	0.42282	0.212;0.382;0.382	T	0.23119	-1.0197	10	0.66056	D	0.02	-7.54	18.5216	0.90954	0.0:0.0:1.0:0.0	.	200;22;22	F1T0I1;O15027-5;O15027-4	.;.;.	V	200;22;22;22	ENSP00000325827:A200V;ENSP00000360771:A22V;ENSP00000290037:A22V;ENSP00000387583:A22V	ENSP00000290037:A22V	A	-	2	0	SEC16A	138491290	0.015000	0.18098	0.007000	0.13788	0.065000	0.16274	1.962000	0.40442	2.692000	0.91855	0.655000	0.94253	GCA		0.652	SEC16A-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000055077.1	XM_088459		A	139371469	G	A	139371469	3	1	591	1	0	0	0	0	1	0	0	0	13999	1319	46	2	6594	2	SEC16A	9	139371469	Missense_Mutation	SNP	G	TCGA-G7-6795-01A-11D-1961-08	98599078	139371469	1841962	39	35209										
ADD3	120	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	111860443	111860443	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tgccagccaaggcgtgattaCcactcctcctcctcccagca	7	18	0	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr10:111860443C>G	ENST00000356080.4	+	2	399	c.32C>G	c.(31-33)aCc>aGc	p.T11S	ADD3_ENST00000360162.3_Missense_Mutation_p.T11S|ADD3_ENST00000277900.8_Missense_Mutation_p.T11S|ADD3_ENST00000497125.1_3'UTR	NM_016824.3	NP_058432.1	Q9UEY8	ADDG_HUMAN	adducin 3 (gamma)	11						cell cortex (GO:0005938)|cell-cell junction (GO:0005911)|condensed nuclear chromosome (GO:0000794)|cytoskeleton (GO:0005856)|membrane (GO:0016020)|plasma membrane (GO:0005886)	structural constituent of cytoskeleton (GO:0005200)			central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(9)|ovary(2)|pancreas(1)|prostate(1)|skin(3)	29		Breast(234;0.052)|Lung NSC(174;0.223)		Epithelial(162;4.15e-05)|all cancers(201;0.000587)|BRCA - Breast invasive adenocarcinoma(275;0.0742)		GGCGTGATTACCACTCCTCCT	0.418																																																0													84	70	74					10																	111860443		2203	4300	6503	SO:0001583	missense	120			U37122	CCDS7561.1, CCDS7562.1	10q25.2	2005-11-08			ENSG00000148700	ENSG00000148700			245	protein-coding gene	gene with protein product		601568		ADDL		8893809	Standard	XM_005269529		Approved		uc001kyv.3	Q9UEY8	OTTHUMG00000019032	ENST00000356080.4:c.32C>G	10.37:g.111860443C>G	ENSP00000348381:p.Thr11Ser	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRA8|O43243|Q5VU09|Q92773|Q9UEY7	Missense_Mutation	SNP	ENST00000356080.4	37	CCDS7561.1	.	.	.	.	.	.	.	.	.	.	C	21.5	4.165457	0.78339	.	.	ENSG00000148700	ENST00000360162;ENST00000356080;ENST00000277900	T;T;T	0.30714	1.52;1.52;1.52	6.06	6.06	0.98353	.	0.000000	0.85682	D	0.000000	T	0.47377	0.1442	M	0.76838	2.35	0.80722	D	1	P;B	0.51653	0.947;0.383	P;B	0.48400	0.576;0.155	T	0.32107	-0.9919	10	0.30078	T	0.28	-16.68	20.6397	0.99537	0.0:1.0:0.0:0.0	.	11;11	Q9UEY8;Q9UEY8-2	ADDG_HUMAN;.	S	11	ENSP00000353286:T11S;ENSP00000348381:T11S;ENSP00000277900:T11S	ENSP00000277900:T11S	T	+	2	0	ADD3	111850433	1.000000	0.71417	0.988000	0.46212	0.954000	0.61252	7.481000	0.81124	2.880000	0.98712	0.650000	0.86243	ACC		0.418	ADD3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000050289.1	NM_019903		G	111860443	C	G	111860443	3	3	591	1	0	0	0	0	1	0	0	0	306	507	18	4	34	4	ADD3	10	111860443	Missense_Mutation	SNP	C	TCGA-G7-6795-01A-11D-1961-08		111860443	23674304	40	35210										
MRVI1	10335	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	10647666	10647666	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ttggcaagcactttctgcagCcgggggccaggttcttcagg	14	11	3	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr11:10647666C>G	ENST00000436272.1	-	8	1212	c.1134G>C	c.(1132-1134)cgG>cgC	p.R378R	MRVI1_ENST00000552103.1_Silent_p.R314R|MRVI1_ENST00000534266.2_Silent_p.R90R|MRVI1_ENST00000527509.2_Silent_p.R314R|MRVI1_ENST00000423302.2_Silent_p.R405R|MRVI1_ENST00000421747.1_Silent_p.R396R|MRVI1_ENST00000547195.1_Silent_p.R314R|MRVI1_ENST00000558540.1_Silent_p.R90R|MRVI1_ENST00000424001.1_Silent_p.R90R|MRVI1_ENST00000541483.1_Intron|MRVI1_ENST00000531107.1_Silent_p.R397R|MRVI1_ENST00000545852.1_Silent_p.R90R			Q9Y6F6	MRVI1_HUMAN	murine retrovirus integration site 1 homolog	378					blood coagulation (GO:0007596)|cGMP-mediated signaling (GO:0019934)|relaxation of vascular smooth muscle (GO:0060087)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|platelet dense tubular network membrane (GO:0031095)|sarcoplasmic reticulum (GO:0016529)				central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(4)|ovary(2)|prostate(2)	22				all cancers(16;2.68e-07)|Epithelial(150;3.04e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0723)		CTTTCTGCAGCCGGGGGCCAG	0.647																																																0													16	18	18					11																	10647666		1874	4079	5953	SO:0001819	synonymous_variant	10335			AF081249	CCDS44538.1, CCDS44539.1, CCDS44540.1, CCDS44538.2, CCDS55745.1, CCDS55746.1	11p15.4	2014-09-11			ENSG00000072952	ENSG00000072952			7237	protein-coding gene	gene with protein product	"inositol 1,4,5-triphosphate-associated cGMP kinase substrate", "IP3R-associated cGMP kinase substrate"	604673				10321731	Standard	NM_001098579		Approved	JAW1L, IRAG	uc010rcb.1	Q9Y6F6	OTTHUMG00000165773	ENST00000436272.1:c.1134G>C	11.37:g.10647666C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3T4|B7Z6I2|B7Z9A3|E9PQY6|F5H6A1|J3KQZ7|Q17S00|Q9UNY1	Silent	SNP	ENST00000436272.1	37																																																																																					0.647	MRVI1-203	KNOWN	basic	protein_coding	protein_coding		NM_001098579		G	10647666	C	G	10647666	2	3	591	1	0	0	0	0	0	0	0	1	9860	726	26	4		4	MRVI1	11	10647666	Silent	SNP	C	TCGA-G7-6795-01A-11D-1961-08		10647666	124358850	41	35211										
HPS5	11234	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	18309441	18309441	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	aatatacaggacaacttaccGggtagcataaacaaccaaca	6	10	0	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr11:18309441G>A	ENST00000349215.3	-	17	2837	c.2560C>T	c.(2560-2562)Cgg>Tgg	p.R854W	HPS5_ENST00000438420.2_Splice_Site_p.R740W|HPS5_ENST00000396253.3_Splice_Site_p.R740W|HPS5_ENST00000537258.1_5'Flank|HPS5_ENST00000352460.3_5'UTR	NM_181507.1	NP_852608.1	Q9UPZ3	HPS5_HUMAN	Hermansky-Pudlak syndrome 5	854					blood coagulation (GO:0007596)|organelle organization (GO:0006996)|pigmentation (GO:0043473)	BLOC-2 complex (GO:0031084)				breast(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(17)|ovary(1)|pancreas(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	30						ACAACTTACCGGGTAGCATAA	0.363									Hermansky-Pudlak syndrome																																							0													140	122	129					11																	18309441		2199	4293	6492	SO:0001630	splice_region_variant	11234	Familial Cancer Database	HPS, HPS1-8	AB023234	CCDS7836.1, CCDS7837.1	11p14	2014-06-18			ENSG00000110756	ENSG00000110756			17022	protein-coding gene	gene with protein product		607521				10231032, 10094488	Standard	NM_181507		Approved		uc001mod.1	Q9UPZ3	OTTHUMG00000166612	ENST00000349215.3:c.2561+1C>T	11.37:g.18309441G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6J8|A8K8S1|D3DQX9|D3DQY0|O95942|Q8N4U0	Missense_Mutation	SNP	ENST00000349215.3	37	CCDS7836.1	.	.	.	.	.	.	.	.	.	.	G	14.03	2.415187	0.42817	.	.	ENSG00000110756	ENST00000396253;ENST00000438420;ENST00000349215;ENST00000544218	D;D;D;D	0.88046	-2.33;-2.33;-2.33;-2.33	5.36	-0.639	0.11497	.	0.091394	0.85682	D	0.000000	D	0.90017	0.6883	M	0.66939	2.045	0.48830	D	0.999711	D	0.76494	0.999	D	0.65443	0.935	D	0.88319	0.2961	10	0.87932	D	0	.	10.3165	0.43740	0.0768:0.0:0.2154:0.7078	.	854	Q9UPZ3	HPS5_HUMAN	W	740;740;854;40	ENSP00000379552:R740W;ENSP00000399590:R740W;ENSP00000265967:R854W;ENSP00000441781:R40W	ENSP00000265967:R854W	R	-	1	2	HPS5	18266017	0.959000	0.32827	0.725000	0.30721	0.174000	0.22865	1.548000	0.36201	-0.008000	0.14320	-0.475000	0.04921	CGG		0.363	HPS5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390808.1	NM_181507	Missense_Mutation	A	18309441	G	A	18309441	5	1	591	1	0	0	0	0	0	0	1	0	7349	1130	39	1	857	1	HPS5	11	18309441	Splice_Site	SNP	G	TCGA-G7-6795-01A-11D-1961-08	7661775	18309441	116697075	42	35212										
NPAT	4863	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	108032024	108032024	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	gtccggggcacaggtaaatcActactatcagcaagcctact	9	12	2	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr11:108032024A>G	ENST00000278612.8	-	17	3894	c.3789T>C	c.(3787-3789)agT>agC	p.S1263S		NM_002519.2	NP_002510.2	Q14207	NPAT_HUMAN	nuclear protein, ataxia-telangiectasia locus	1263					positive regulation of transcription, DNA-templated (GO:0045893)|regulation of gene expression (GO:0010468)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)|transcription, DNA-templated (GO:0006351)	Cajal body (GO:0015030)|cytoplasm (GO:0005737)|Gemini of coiled bodies (GO:0097504)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	protein C-terminus binding (GO:0008022)|protein N-terminus binding (GO:0047485)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(6)|lung(21)|ovary(2)|prostate(2)|skin(5)	46		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		CAGGTAAATCACTACTATCAG	0.443																																																0													107	105	106					11																	108032024		1852	4092	5944	SO:0001819	synonymous_variant	4863			X97186	CCDS41710.1	11q22-q23	2008-02-01			ENSG00000149308	ENSG00000149308			7896	protein-coding gene	gene with protein product		601448				9205109	Standard	NM_002519		Approved	E14	uc001pjz.4	Q14207	OTTHUMG00000166385	ENST00000278612.8:c.3789T>C	11.37:g.108032024A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1V5|A8K6M2|Q13632|Q14967|Q16580|Q86W55|Q8IWE9	Silent	SNP	ENST00000278612.8	37	CCDS41710.1	.	.	.	.	.	.	.	.	.	.	A	0.009	-1.813585	0.00600	.	.	ENSG00000149308	ENST00000527296	.	.	.	3.92	-3.71	0.04424	.	.	.	.	.	T	0.35970	0.0950	.	.	.	0.44275	D	0.997137	.	.	.	.	.	.	T	0.37197	-0.9716	4	.	.	.	-0.1192	0.4805	0.00547	0.1833:0.2475:0.2586:0.3106	.	.	.	.	A	262	.	.	V	-	2	0	NPAT	107537234	0.001000	0.12720	0.012000	0.15200	0.023000	0.10783	-0.273000	0.08548	-0.420000	0.07427	-0.256000	0.11100	GTG		0.443	NPAT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389506.2	NM_002519		G	108032024	A	G	108032024	2	3	591	1	0	0	0	0	0	0	0	1	10573	156	6	3		3	NPAT	11	108032024	Silent	SNP	A	TCGA-G7-6795-01A-11D-1961-08	89722583	108032024	26974492	43	35213										
IGSF9B	22997	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	133790126	133790126	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	cataccaccgggtgtccaggCcaaatgtgctggggccgccg	14	14	0	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr11:133790126C>A	ENST00000321016.8	-	18	3724	c.3494G>T	c.(3493-3495)gGc>gTc	p.G1165V	IGSF9B_ENST00000533871.2_Missense_Mutation_p.G1165V			Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	1165	Pro-rich.				homophilic cell adhesion (GO:0007156)|positive regulation of inhibitory postsynaptic membrane potential (GO:0097151)	dendrite (GO:0030425)|inhibitory synapse (GO:0060077)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)				breast(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(18)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	44	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)		GGTGTCCAGGCCAAATGTGCT	0.692																																																0													30	34	33					11																	133790126		1905	4106	6011	SO:0001583	missense	22997			AK097578	CCDS61010.1	11q25	2013-02-11	2005-10-12	2005-11-20				"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	32326	protein-coding gene	gene with protein product		613773					Standard	NM_001277285		Approved	KIAA1030	uc031qfh.1	Q9UPX0		ENST00000321016.8:c.3494G>T	11.37:g.133790126C>A	ENSP00000317980:p.Gly1165Val	Somatic		WXS	Illumina HiSeq	Phase_I	G5EA26	Missense_Mutation	SNP	ENST00000321016.8	37		.	.	.	.	.	.	.	.	.	.	C	15.82	2.946783	0.53186	.	.	ENSG00000080854	ENST00000321016;ENST00000533871	T;T	0.65364	0.18;-0.15	5.08	5.08	0.68730	.	0.000000	0.45606	D	0.000349	T	0.50205	0.1602	N	0.19112	0.55	0.58432	D	0.999991	P	0.35774	0.519	B	0.34418	0.182	T	0.57225	-0.7848	10	0.62326	D	0.03	.	18.0591	0.89371	0.0:1.0:0.0:0.0	.	1165	Q9UPX0	TUTLB_HUMAN	V	1165;1007	ENSP00000317980:G1165V;ENSP00000436552:G1007V	ENSP00000317980:G1165V	G	-	2	0	IGSF9B	133295336	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	5.261000	0.65496	2.358000	0.79984	0.455000	0.32223	GGC		0.692	IGSF9B-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		XM_290502		A	133790126	C	A	133790126	3	1	591	1	0	0	0	0	1	0	0	0	7613	739	26	4	563	4	IGSF9B	11	133790126	Missense_Mutation	SNP	C	TCGA-G7-6795-01A-11D-1961-08	25758102	133790126	1216390	44	35214										
IGSF9B	22997	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	133794760	133794760	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	gctgggctcgctgatcagatCctgcatgacggccagaaccc	12	14	1	4			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr11:133794760C>T	ENST00000321016.8	-	15	2304	c.2074G>A	c.(2074-2076)Gat>Aat	p.D692N	IGSF9B_ENST00000533871.2_Missense_Mutation_p.D692N			Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	692	Fibronectin type-III 2. {ECO:0000255|PROSITE-ProRule:PRU00316}.				homophilic cell adhesion (GO:0007156)|positive regulation of inhibitory postsynaptic membrane potential (GO:0097151)	dendrite (GO:0030425)|inhibitory synapse (GO:0060077)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)				breast(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(18)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	44	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)		CTGATCAGATCCTGCATGACG	0.587																																																0													114	123	120					11																	133794760		2090	4217	6307	SO:0001583	missense	22997			AK097578	CCDS61010.1	11q25	2013-02-11	2005-10-12	2005-11-20				"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	32326	protein-coding gene	gene with protein product		613773					Standard	NM_001277285		Approved	KIAA1030	uc031qfh.1	Q9UPX0		ENST00000321016.8:c.2074G>A	11.37:g.133794760C>T	ENSP00000317980:p.Asp692Asn	Somatic		WXS	Illumina HiSeq	Phase_I	G5EA26	Missense_Mutation	SNP	ENST00000321016.8	37		.	.	.	.	.	.	.	.	.	.	C	34	5.382681	0.95967	.	.	ENSG00000080854	ENST00000321016;ENST00000533871;ENST00000527648	T;T;T	0.56941	0.43;0.43;0.43	5.02	5.02	0.67125	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.000000	0.41500	D	0.000871	T	0.64505	0.2604	L	0.46157	1.445	0.53005	D	0.999967	P	0.42518	0.782	P	0.56278	0.795	T	0.62353	-0.6872	10	0.42905	T	0.14	.	18.7177	0.91682	0.0:1.0:0.0:0.0	.	692	Q9UPX0	TUTLB_HUMAN	N	692;534;692	ENSP00000317980:D692N;ENSP00000436552:D534N;ENSP00000436576:D692N	ENSP00000317980:D692N	D	-	1	0	IGSF9B	133299970	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.637000	0.83313	2.493000	0.84123	0.655000	0.94253	GAT		0.587	IGSF9B-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		XM_290502		T	133794760	C	T	133794760	3	4	591	1	0	0	0	0	1	0	0	0	7613	855	30	2	1995	2	IGSF9B	11	133794760	Missense_Mutation	SNP	C	TCGA-G7-6795-01A-11D-1961-08	4634	133794760	1211756	45	35215										
TROAP	10024	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	49717751	49717751	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tggggatcagtcagcctcggAaccccttggaagagctcagg	14	11	3	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr12:49717751A>C	ENST00000257909.3	+	3	344	c.268A>C	c.(268-270)Aac>Cac	p.N90H	TROAP_ENST00000551245.1_Missense_Mutation_p.N90H|TROAP_ENST00000549275.1_Intron|TROAP_ENST00000550709.1_Missense_Mutation_p.N90H|RP11-161H23.9_ENST00000553259.1_RNA|TROAP_ENST00000549534.1_3'UTR|TROAP_ENST00000548311.1_Missense_Mutation_p.N90H|TROAP_ENST00000547923.1_5'Flank|TROAP_ENST00000380327.5_Missense_Mutation_p.N90H	NM_005480.3	NP_005471.3	Q12815	TROAP_HUMAN	trophinin associated protein	90					cell adhesion (GO:0007155)	cytoplasm (GO:0005737)				breast(1)|endometrium(1)|kidney(2)|large_intestine(4)|lung(14)|ovary(1)|prostate(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(4)	32						TCAGCCTCGGAACCCCTTGGA	0.602																																																0													86	83	84					12																	49717751		2203	4300	6503	SO:0001583	missense	10024			U04810	CCDS8784.1, CCDS41779.1, CCDS61117.1	12q13.12	2012-10-17	2012-10-17		ENSG00000135451	ENSG00000135451			12327	protein-coding gene	gene with protein product	"tastin"	603872				7758945	Standard	NM_005480		Approved	TASTIN	uc001rtx.4	Q12815	OTTHUMG00000169486	ENST00000257909.3:c.268A>C	12.37:g.49717751A>C	ENSP00000257909:p.Asn90His	Somatic		WXS	Illumina HiSeq	Phase_I	F8VSF9|Q6PJU7|Q8N5B2	Missense_Mutation	SNP	ENST00000257909.3	37	CCDS8784.1	.	.	.	.	.	.	.	.	.	.	A	12.58	1.979408	0.34942	.	.	ENSG00000135451	ENST00000551245;ENST00000380327;ENST00000548311;ENST00000550709;ENST00000257909;ENST00000547807;ENST00000551567	T;T;T;T;T;T;T	0.24151	1.87;1.87;1.87;1.87;1.87;1.87;1.87	5.77	4.43	0.53597	.	0.417260	0.22706	N	0.056634	T	0.36524	0.0970	L	0.46157	1.445	0.80722	D	1	D;D;D;D	0.60160	0.987;0.986;0.987;0.987	P;P;P;P	0.60473	0.875;0.864;0.821;0.723	T	0.11036	-1.0604	10	0.72032	D	0.01	-0.9898	8.2741	0.31862	0.8997:0.0:0.1003:0.0	.	90;90;90;90	F8W130;Q12815;Q6PJU7;F8VSF9	.;TROAP_HUMAN;.;.	H	90	ENSP00000447509:N90H;ENSP00000369684:N90H;ENSP00000448313:N90H;ENSP00000449984:N90H;ENSP00000257909:N90H;ENSP00000446646:N90H;ENSP00000447244:N90H	ENSP00000257909:N90H	N	+	1	0	TROAP	48004018	0.998000	0.40836	0.800000	0.32199	0.062000	0.15995	2.669000	0.46825	2.199000	0.70637	0.533000	0.62120	AAC		0.602	TROAP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000404300.1	NM_005480		C	49717751	A	C	49717751	3	2	591	1	0	0	0	0	1	0	0	0	16587	246	9	5	274	5	TROAP	12	49717751	Missense_Mutation	SNP	A	TCGA-G7-6795-01A-11D-1961-08		49717751	84134144	46	35216										
RDH5	5959	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	56118170	56118170	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	gacctaaccaaggtgagccgAtgcctggagcatgccctgac	12	13	0	2			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr12:56118170A>T	ENST00000257895.5	+	5	950	c.798A>T	c.(796-798)cgA>cgT	p.R266R	RP11-644F5.10_ENST00000550412.1_3'UTR|RDH5_ENST00000547072.1_Silent_p.R169R|RDH5_ENST00000548082.1_Silent_p.R266R	NM_001199771.1|NM_002905.3	NP_001186700.1|NP_002896.2	Q92781	RDH1_HUMAN	retinol dehydrogenase 5 (11-cis/9-cis)	266					phototransduction, visible light (GO:0007603)|retinoid metabolic process (GO:0001523)|retinol metabolic process (GO:0042572)|visual perception (GO:0007601)	cell body (GO:0044297)|endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum membrane (GO:0005789)	retinol dehydrogenase activity (GO:0004745)			breast(2)|endometrium(1)|kidney(2)|large_intestine(2)|lung(2)|ovary(1)|pancreas(1)|skin(1)	12					Vitamin A(DB00162)	AGGTGAGCCGATGCCTGGAGC	0.592											OREG0021908	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													153	129	137					12																	56118170		2203	4300	6503	SO:0001819	synonymous_variant	5959			U89717	CCDS31829.1	12q13-q14	2013-06-03	2006-05-09			ENSG00000135437	1.1.1.105	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 2"	9940	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 9C, member 5"	601617	"retinol dehydrogenase 5 (11-cis and 9-cis)"	RDH1		9115228, 8884265, 19027726	Standard	NM_002905		Approved	HSD17B9, SDR9C5	uc001shl.3	Q92781	OTTHUMG00000170126	ENST00000257895.5:c.798A>T	12.37:g.56118170A>T		Somatic	1013	WXS	Illumina HiSeq	Phase_I	O00179|Q8TAI2	Silent	SNP	ENST00000257895.5	37	CCDS31829.1																																																																																				0.592	RDH5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407493.1	NM_002905		T	56118170	A	T	56118170	2	4	591	1	0	0	0	0	0	0	0	1	13208	320	12	5		5	RDH5	12	56118170	Silent	SNP	A	TCGA-G7-6795-01A-11D-1961-08	6400419	56118170	77733725	47	35217										
NACA	4666	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr12	57114205	57114205	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ccactggaaaggcagccacaGtagcaggaactacctcattt	9	12	1	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr12:57114205G>A	ENST00000454682.1	-	3	1390	c.1109C>T	c.(1108-1110)aCt>aTt	p.T370I	NACA_ENST00000550952.1_Missense_Mutation_p.T370I|NACA_ENST00000551793.1_Intron|NACA_ENST00000548563.1_Intron|NACA_ENST00000356769.3_Intron|NACA_ENST00000546392.1_Intron|NACA_ENST00000552540.1_Intron|NACA_ENST00000393891.4_Intron	NM_001113203.2	NP_001106674.2	E9PAV3	NACAM_HUMAN	nascent polypeptide-associated complex alpha subunit	370	Pro-rich.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(1)|ovary(2)|upper_aerodigestive_tract(1)	10						GGCAGCCACAGTAGCAGGAAC	0.488			T	BCL6	NHL																																		Dom	yes		12	12q23-q24.1	4666	nascent-polypeptide-associated complex alpha polypeptide		L	0													60	55	56					12																	57114205		1568	3582	5150	SO:0001583	missense	4666			X80909	CCDS31837.1, CCDS44925.1, CCDS44925.2	12q23-q24.1	2008-09-05	2007-04-20		ENSG00000196531	ENSG00000196531			7629	protein-coding gene	gene with protein product		601234	"nascent-polypeptide-associated complex alpha polypeptide"			8047162	Standard	NM_001113202		Approved	NACA1	uc001sma.2	E9PAV3		ENST00000454682.1:c.1109C>T	12.37:g.57114205G>A	ENSP00000403817:p.Thr370Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000454682.1	37		.	.	.	.	.	.	.	.	.	.	G	14.65	2.598833	0.46318	.	.	ENSG00000196531	ENST00000454682;ENST00000550952	T;T	0.47869	0.83;0.9	3.29	3.29	0.37713	.	.	.	.	.	T	0.23171	0.0560	N	0.08118	0	0.09310	N	1	P;B	0.38978	0.652;0.358	B;B	0.30943	0.122;0.117	T	0.03750	-1.1007	9	0.26408	T	0.33	.	10.4563	0.44553	0.0:0.0:1.0:0.0	.	370;370	E9PAV3;F8VU71	.;.	I	370	ENSP00000403817:T370I;ENSP00000448035:T370I	ENSP00000403817:T370I	T	-	2	0	NACA	55400472	0.001000	0.12720	0.018000	0.16275	0.537000	0.34900	0.083000	0.14871	1.569000	0.49696	0.306000	0.20318	ACT		0.488	NACA-201	KNOWN	basic	protein_coding	protein_coding		NM_005594		A	57114205	G	A	57114205	3	1	591	1	0	0	0	0	1	0	0	0	10140	1029	36	2	5155	2	NACA	12	57114205	Missense_Mutation	SNP	G	TCGA-G7-6795-01A-11D-1961-08	996035	57114205	76737690	48	35218										
MBD6	114785	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	57918527	57918527	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	agtggcacagagctgtcttcCttggagcaaacccggagcta	12	11	1	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr12:57918527C>A	ENST00000355673.3	+	4	494	c.138C>A	c.(136-138)tcC>tcA	p.S46S	MBD6_ENST00000549231.1_3'UTR|MBD6_ENST00000431731.2_Silent_p.S46S	NM_052897.3	NP_443129.3	Q96DN6	MBD6_HUMAN	methyl-CpG binding domain protein 6	46	MBD. {ECO:0000255|PROSITE- ProRule:PRU00338}.					chromocenter (GO:0010369)|nucleus (GO:0005634)	chromatin binding (GO:0003682)			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(8)|lung(8)|ovary(1)|urinary_tract(1)	31						AGCTGTCTTCCTTGGAGCAAA	0.572																																																0													83	76	78					12																	57918527		2203	4300	6503	SO:0001819	synonymous_variant	114785			AB067474	CCDS8944.1	12q13.2	2008-02-05				ENSG00000166987			20445	protein-coding gene	gene with protein product						12529184	Standard	NM_052897		Approved	KIAA1887	uc001soj.1	Q96DN6		ENST00000355673.3:c.138C>A	12.37:g.57918527C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3M0|Q8NA81|Q96Q00	Silent	SNP	ENST00000355673.3	37	CCDS8944.1																																																																																				0.572	MBD6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407250.1			A	57918527	C	A	57918527	2	1	591	1	0	0	0	0	0	0	0	1	9355	668	24	4		4	MBD6	12	57918527	Silent	SNP	C	TCGA-G7-6795-01A-11D-1961-08	804322	57918527	75933368	49	35219										
WDR66	144406	broad.mit.edu	37	chr12	122398516	122398516	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	aagttttactgtggctgtttAcatgctggtggtcagaaatg	12	5	1	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr12:122398516A>G	ENST00000288912.4	+	14	3013	c.2159A>G	c.(2158-2160)tAc>tGc	p.Y720C	WDR66_ENST00000397454.2_Missense_Mutation_p.Y720C	NM_144668.5	NP_653269.3	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	720							calcium ion binding (GO:0005509)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(11)|liver(2)|lung(13)|ovary(2)|prostate(2)|skin(2)|soft_tissue(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	43	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		GTGGCTGTTTACATGCTGGTG	0.433																																					Esophageal Squamous(85;849 1794 49757 52143)											0													124	123	123					12																	122398516		1926	4142	6068	SO:0001583	missense	144406			AL833930	CCDS41853.1, CCDS53840.1	12q24.31	2014-07-31			ENSG00000158023	ENSG00000158023		"WD repeat domain containing"	28506	protein-coding gene	gene with protein product						17967944	Standard	NM_001178003		Approved	MGC33630, CaM-IP4	uc009zxk.3	Q8TBY9	OTTHUMG00000168948	ENST00000288912.4:c.2159A>G	12.37:g.122398516A>G	ENSP00000288912:p.Tyr720Cys	Somatic		WXS	Illumina HiSeq	Phase_I	C9J1W2|Q8IYA3|Q8N898|Q8NDE7	Missense_Mutation	SNP	ENST00000288912.4	37	CCDS41853.1	.	.	.	.	.	.	.	.	.	.	A	15.22	2.768449	0.49680	.	.	ENSG00000158023	ENST00000288912;ENST00000397454	T;T	0.67345	0.86;-0.26	4.72	3.54	0.40534	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.136662	0.51477	D	0.000098	T	0.79009	0.4374	M	0.78916	2.43	0.35226	D	0.776497	D	0.89917	1.0	D	0.77557	0.99	D	0.83490	0.0069	10	0.87932	D	0	.	8.7806	0.34789	0.6981:0.0:0.0:0.3019	.	720	Q8TBY9	WDR66_HUMAN	C	720	ENSP00000288912:Y720C;ENSP00000380595:Y720C	ENSP00000288912:Y720C	Y	+	2	0	WDR66	120882899	1.000000	0.71417	0.021000	0.16686	0.016000	0.09150	4.265000	0.58865	0.717000	0.32145	0.533000	0.62120	TAC		0.433	WDR66-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401700.1	NM_144668		G	122398516	A	G	122398516	3	3	591	1	0	0	0	0	1	0	0	0	17329	391	14	3	2209	3	WDR66	12	122398516	Missense_Mutation	SNP	A	TCGA-G7-6795-01A-11D-1961-08	64479989	122398516	11453379	50	35220										
THBS1	7057	hgsc.bcm.edu	37	chr15	39880743	39880743	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	acagtcaatggaggctggggTccttggtcaccatgggacat	14	9	2	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr15:39880743T>G	ENST00000260356.5	+	10	1653	c.1488T>G	c.(1486-1488)ggT>ggG	p.G496G		NM_003246.2	NP_003237.2	P07996	TSP1_HUMAN	thrombospondin 1	496	TSP type-1 3. {ECO:0000255|PROSITE- ProRule:PRU00210}.				activation of MAPK activity (GO:0000187)|behavioral response to pain (GO:0048266)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cell migration (GO:0016477)|cellular response to growth factor stimulus (GO:0071363)|cellular response to heat (GO:0034605)|cellular response to tumor necrosis factor (GO:0071356)|chronic inflammatory response (GO:0002544)|endocardial cushion development (GO:0003197)|engulfment of apoptotic cell (GO:0043652)|extracellular matrix organization (GO:0030198)|growth plate cartilage development (GO:0003417)|immune response (GO:0006955)|negative regulation of angiogenesis (GO:0016525)|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II (GO:0002581)|negative regulation of apoptotic process (GO:0043066)|negative regulation of blood vessel endothelial cell migration (GO:0043537)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of cGMP-mediated signaling (GO:0010754)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of dendritic cell antigen processing and presentation (GO:0002605)|negative regulation of endothelial cell migration (GO:0010596)|negative regulation of endothelial cell proliferation (GO:0001937)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of fibrinolysis (GO:0051918)|negative regulation of fibroblast growth factor receptor signaling pathway (GO:0040037)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of interleukin-12 production (GO:0032695)|negative regulation of nitric oxide mediated signal transduction (GO:0010751)|negative regulation of plasma membrane long-chain fatty acid transport (GO:0010748)|negative regulation of plasminogen activation (GO:0010757)|outflow tract morphogenesis (GO:0003151)|peptide cross-linking (GO:0018149)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of angiogenesis (GO:0045766)|positive regulation of blood coagulation (GO:0030194)|positive regulation of blood vessel endothelial cell migration (GO:0043536)|positive regulation of cell migration (GO:0030335)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of chemotaxis (GO:0050921)|positive regulation of endothelial cell apoptotic process (GO:2000353)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902043)|positive regulation of fibroblast migration (GO:0010763)|positive regulation of macrophage activation (GO:0043032)|positive regulation of macrophage chemotaxis (GO:0010759)|positive regulation of phosphorylation (GO:0042327)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|positive regulation of transforming growth factor beta1 production (GO:0032914)|positive regulation of translation (GO:0045727)|positive regulation of tumor necrosis factor biosynthetic process (GO:0042535)|response to calcium ion (GO:0051592)|response to drug (GO:0042493)|response to endoplasmic reticulum stress (GO:0034976)|response to glucose (GO:0009749)|response to hypoxia (GO:0001666)|response to magnesium ion (GO:0032026)|response to mechanical stimulus (GO:0009612)|response to progesterone (GO:0032570)|response to testosterone (GO:0033574)|response to unfolded protein (GO:0006986)|sprouting angiogenesis (GO:0002040)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|external side of plasma membrane (GO:0009897)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|fibrinogen complex (GO:0005577)|platelet alpha granule (GO:0031091)|platelet alpha granule lumen (GO:0031093)|sarcoplasmic reticulum (GO:0016529)|secretory granule (GO:0030141)	calcium ion binding (GO:0005509)|collagen V binding (GO:0070052)|fibrinogen binding (GO:0070051)|fibroblast growth factor binding (GO:0017134)|fibronectin binding (GO:0001968)|glycoprotein binding (GO:0001948)|heparin binding (GO:0008201)|identical protein binding (GO:0042802)|integrin binding (GO:0005178)|laminin binding (GO:0043236)|low-density lipoprotein particle binding (GO:0030169)|phosphatidylserine binding (GO:0001786)|proteoglycan binding (GO:0043394)|transforming growth factor beta binding (GO:0050431)			breast(1)|central_nervous_system(3)|endometrium(8)|kidney(5)|large_intestine(15)|lung(9)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	53		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)		GAGGCTGGGGTCCTTGGTCAC	0.507																																																0													66	66	66					15																	39880743		2200	4297	6497	SO:0001819	synonymous_variant	7057				CCDS32194.1	15q15	2009-04-08			ENSG00000137801	ENSG00000137801			11785	protein-coding gene	gene with protein product	"thrombospondin-1p180"	188060				2341158, 2335352	Standard	NM_003246		Approved	TSP1, THBS, TSP, THBS-1, TSP-1	uc001zkh.3	P07996	OTTHUMG00000133665	ENST00000260356.5:c.1488T>G	15.37:g.39880743T>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6H4|B4E3J7|B9EGH6|Q15667|Q59E99	Silent	SNP	ENST00000260356.5	37	CCDS32194.1																																																																																				0.507	THBS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257831.2	NM_003246		G	39880743	T	G	39880743	2	3	591	1	0	0	0	0	0	0	0	1	15865	1654	58	5		5	THBS1	15	39880743	Silent	SNP	T	TCGA-G7-6795-01A-11D-1961-08		39880743	62650649	51	35221										
UBR1	197131	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	43299382	43299382	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ttctattttcacctcctgttCttcttggcaaaggatgcacg	7	11	4	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr15:43299382C>T	ENST00000290650.4	-	30	3388	c.3310G>A	c.(3310-3312)Gaa>Aaa	p.E1104K	UBR1_ENST00000568782.1_5'UTR|UBR1_ENST00000382177.2_3'UTR	NM_174916.2	NP_777576.1	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin 1	1104					cellular response to leucine (GO:0071233)|negative regulation of TOR signaling (GO:0032007)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|proteasome complex (GO:0000502)|ubiquitin ligase complex (GO:0000151)	leucine binding (GO:0070728)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(2)|endometrium(2)|kidney(7)|large_intestine(12)|lung(25)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	58		all_cancers(109;4.32e-15)|all_epithelial(112;4.05e-13)|Lung NSC(122;1.75e-08)|all_lung(180;2e-07)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.08e-07)|COAD - Colon adenocarcinoma(120;0.185)|Colorectal(105;0.214)		ACCTCCTGTTCTTCTTGGCAA	0.473																																																0													128	115	119					15																	43299382		2203	4299	6502	SO:0001583	missense	197131				CCDS10091.1	15q13	2008-06-23			ENSG00000159459	ENSG00000159459		"Ubiquitin protein ligase E3 component n-recognins"	16808	protein-coding gene	gene with protein product		605981				9653112	Standard	NM_174916		Approved		uc001zqq.3	Q8IWV7	OTTHUMG00000130702	ENST00000290650.4:c.3310G>A	15.37:g.43299382C>T	ENSP00000290650:p.Glu1104Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O60708|O75492|Q14D45|Q68DN9|Q8IWY6|Q96JY4	Missense_Mutation	SNP	ENST00000290650.4	37	CCDS10091.1	.	.	.	.	.	.	.	.	.	.	C	34	5.388214	0.95988	.	.	ENSG00000159459	ENST00000290650	T	0.55760	0.5	4.99	4.99	0.66335	Zinc finger, RING/FYVE/PHD-type (1);	0.050391	0.85682	D	0.000000	T	0.71829	0.3386	M	0.71206	2.165	0.80722	D	1	D	0.76494	0.999	D	0.80764	0.994	T	0.71066	-0.4700	10	0.40728	T	0.16	-8.6741	18.4574	0.90725	0.0:1.0:0.0:0.0	.	1104	Q8IWV7	UBR1_HUMAN	K	1104	ENSP00000290650:E1104K	ENSP00000290650:E1104K	E	-	1	0	UBR1	41086674	1.000000	0.71417	1.000000	0.80357	0.972000	0.66771	7.320000	0.79064	2.593000	0.87608	0.655000	0.94253	GAA		0.473	UBR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253202.1	NM_174916		T	43299382	C	T	43299382	3	4	591	1	0	0	0	0	1	0	0	0	16913	922	32	2	2011	2	UBR1	15	43299382	Missense_Mutation	SNP	C	TCGA-G7-6795-01A-11D-1961-08	3418639	43299382	59232010	52	35222										
SPG11	80208	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	44951365	44951365	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	actgcctgtgcaggcaagggAagtgtgaaacagttgagtac	14	7	0	2			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr15:44951365A>T	ENST00000261866.7	-	3	595	c.579T>A	c.(577-579)ctT>ctA	p.L193L	SPG11_ENST00000559193.1_Silent_p.L193L|SPG11_ENST00000427534.2_Silent_p.L193L|SPG11_ENST00000535302.2_Silent_p.L193L|SPG11_ENST00000558319.1_Silent_p.L193L	NM_025137.3	NP_079413.3	Q96JI7	SPTCS_HUMAN	spastic paraplegia 11 (autosomal recessive)	193					cell death (GO:0008219)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)				autonomic_ganglia(1)|breast(5)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(4)|large_intestine(16)|lung(24)|ovary(5)|prostate(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	72		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)		CAGGCAAGGGAAGTGTGAAAC	0.398																																																0													136	135	135					15																	44951365		2198	4298	6496	SO:0001819	synonymous_variant	80208				CCDS10112.1, CCDS53939.1	15q13-q15	2007-11-13			ENSG00000104133	ENSG00000104133			11226	protein-coding gene	gene with protein product	"spatacsin"	610844	"KIAA1840"	KIAA1840		10408536, 17322883	Standard	NM_001160227		Approved	FLJ21439	uc001ztx.3	Q96JI7	OTTHUMG00000131199	ENST00000261866.7:c.579T>A	15.37:g.44951365A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8KAX9|B9EK60|F5H3N6|Q4VC11|Q58G86|Q69YG6|Q6NW01|Q8N270|Q8TBU9|Q9H734	Silent	SNP	ENST00000261866.7	37	CCDS10112.1																																																																																				0.398	SPG11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000253927.1			T	44951365	A	T	44951365	2	4	591	1	0	0	0	0	0	0	0	1	15053	233	9	5		5	SPG11	15	44951365	Silent	SNP	A	TCGA-G7-6795-01A-11D-1961-08	1651983	44951365	57580027	53	35223										
PKD1	5310	hgsc.bcm.edu	37	chr16	2155892	2155892	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	cagcacggtgaccagggccaAcgagtactcgatgacgtgct	13	12	0	2			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr16:2155892A>G	ENST00000262304.4	-	20	8045	c.7837T>C	c.(7837-7839)Ttg>Ctg	p.L2613L	PKD1_ENST00000561991.1_5'UTR|PKD1_ENST00000423118.1_Silent_p.L2613L	NM_001009944.2	NP_001009944	P98161	PKD1_HUMAN	polycystic kidney disease 1 (autosomal dominant)	2613	REJ. {ECO:0000255|PROSITE- ProRule:PRU00511}.		Missing (in PKD1; unknown pathological significance). {ECO:0000269|PubMed:11571556}.		anatomical structure morphogenesis (GO:0009653)|branching morphogenesis of an epithelial tube (GO:0048754)|calcium ion transmembrane transport (GO:0070588)|calcium-independent cell-matrix adhesion (GO:0007161)|cartilage condensation (GO:0001502)|cartilage development (GO:0051216)|cation transmembrane transport (GO:0098655)|cell cycle arrest (GO:0007050)|cell-matrix adhesion (GO:0007160)|cytoplasmic sequestering of transcription factor (GO:0042994)|detection of mechanical stimulus (GO:0050982)|digestive tract development (GO:0048565)|embryonic placenta development (GO:0001892)|genitalia development (GO:0048806)|heart development (GO:0007507)|homophilic cell adhesion (GO:0007156)|in utero embryonic development (GO:0001701)|JAK-STAT cascade (GO:0007259)|kidney development (GO:0001822)|liver development (GO:0001889)|lung epithelium development (GO:0060428)|mesonephric duct development (GO:0072177)|mesonephric tubule development (GO:0072164)|metanephric ascending thin limb development (GO:0072218)|metanephric collecting duct development (GO:0072205)|metanephric distal tubule morphogenesis (GO:0072287)|metanephric proximal tubule development (GO:0072237)|neural tube development (GO:0021915)|neuropeptide signaling pathway (GO:0007218)|nitrogen compound metabolic process (GO:0006807)|peptidyl-serine phosphorylation (GO:0018105)|placenta blood vessel development (GO:0060674)|positive regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031659)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of protein binding (GO:0032092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein export from nucleus (GO:0006611)|regulation of mitotic spindle organization (GO:0060236)|regulation of proteasomal protein catabolic process (GO:0061136)|response to fluid shear stress (GO:0034405)|skin development (GO:0043588)|spinal cord development (GO:0021510)	basolateral plasma membrane (GO:0016323)|cilium (GO:0005929)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|lateral plasma membrane (GO:0016328)|motile primary cilium (GO:0031512)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|polycystin complex (GO:0002133)	calcium channel activity (GO:0005262)|carbohydrate binding (GO:0030246)|cation channel activity (GO:0005261)|ion channel binding (GO:0044325)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)	p.L2613L(1)		breast(1)|central_nervous_system(3)|cervix(1)|endometrium(7)|kidney(6)|lung(34)|prostate(4)|skin(10)|upper_aerodigestive_tract(3)|urinary_tract(3)	72						ACCAGGGCCAACGAGTACTCG	0.657																																																1	Substitution - coding silent(1)	lung(1)											46	45	45					16																	2155892		1400	2465	3865	SO:0001819	synonymous_variant	5310			L33243	CCDS32369.1, CCDS45385.1	16p13.3	2014-01-28			ENSG00000008710	ENSG00000008710		"Voltage-gated ion channels / Transient receptor potential cation channels"	9008	protein-coding gene	gene with protein product	"polycystin 1", "transient receptor potential cation channel, subfamily P, member 1"	601313					Standard	NM_001009944		Approved	PBP, Pc-1, TRPP1	uc002cos.1	P98161	OTTHUMG00000155795	ENST00000262304.4:c.7837T>C	16.37:g.2155892A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q15140|Q15141	Silent	SNP	ENST00000262304.4	37	CCDS32369.1																																																																																				0.657	PKD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000341688.1			G	2155892	A	G	2155892	2	3	591	1	0	0	0	0	0	0	0	1	11970	40	2	3		3	PKD1	16	2155892	Silent	SNP	A	TCGA-G7-6795-01A-11D-1961-08		2155892	88198861	54	35224										
B3GNT9	80262	broad.mit.edu;bcgsc.ca	37	chr16	67184131	67184131	+	IGR	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tggtccttggcgcgcaaataGcgggcgaagtcaaagggtcc	15	10	1	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr16:67184131G>C	ENST00000219139.3	+	0	2865				B3GNT9_ENST00000449549.3_Silent_p.R86R	NM_025187.3	NP_079463.2	Q9BSU1	CP070_HUMAN	chromosome 16 open reading frame 70											cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(6)|ovary(3)|skin(1)	17		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0017)|Epithelial(162;0.00655)|all cancers(182;0.0579)		CGCGCAAATAGCGGGCGAAGT	0.706																																																0													12	15	14					16																	67184131		1877	4071	5948	SO:0001628	intergenic_variant	84752			AK022138	CCDS10828.1	16q22.1	2011-01-25	2006-04-12	2006-04-12	ENSG00000125149	ENSG00000125149			29564	protein-coding gene	gene with protein product			"chromosome 16 open reading frame 6"	C16orf6, LIN10		12477932	Standard	NM_025187		Approved	lin-10, FLJ12076	uc002erd.3	Q9BSU1	OTTHUMG00000137510		16.37:g.67184131G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9HA86	Silent	SNP	ENST00000219139.3	37	CCDS10828.1																																																																																				0.706	C16orf70-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268829.2	NM_025187		C	67184131	G	C	67184131	1	2	591	0	1	0	0	0	0	0	0	0	1264	958	34	4		4	B3GNT9	16	67184131	IGR	SNP	G	TCGA-G7-6795-01A-11D-1961-08	65028239	67184131	23170622	55	35225										
ZFHX3	463	hgsc.bcm.edu	37	chr16	72992635	72992635	+	Silent	SNP	T	T	C													0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tcctcctcctcctccgcctcTtcctcctcctcttcctcctc							TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr16:72992635T>C	ENST00000268489.5	-	2	2082	c.1410A>G	c.(1408-1410)gaA>gaG	p.E470E	ZFHX3_ENST00000397992.5_Intron	NM_006885.3	NP_008816.3	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3	470	Poly-Glu.				brain development (GO:0007420)|cell cycle arrest (GO:0007050)|muscle organ development (GO:0007517)|negative regulation of myoblast differentiation (GO:0045662)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of myoblast differentiation (GO:0045663)|regulation of neuron differentiation (GO:0045664)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	enzyme binding (GO:0019899)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)			NS(3)|breast(7)|cervix(2)|endometrium(18)|haematopoietic_and_lymphoid_tissue(5)|kidney(8)|large_intestine(22)|liver(1)|lung(46)|ovary(5)|pancreas(1)|prostate(15)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(11)	153		Ovarian(137;0.13)				cctccgcctcttcctcctcct	0.587																																																0													38	42	40					16																	72992635		2198	4300	6498	SO:0001819	synonymous_variant	463			D10250	CCDS10908.1, CCDS54035.1	16q22.3	2012-03-09	2007-08-09	2007-08-09	ENSG00000140836	ENSG00000140836		"Zinc fingers, C2H2-type", "Homeoboxes / ZF class"	777	protein-coding gene	gene with protein product		104155	"AT-binding transcription factor 1"	ATBF1		1719379, 7592926	Standard	NM_006885		Approved	ZNF927	uc002fck.3	Q15911	OTTHUMG00000137599	ENST00000268489.5:c.1410A>G	16.37:g.72992635T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DWS8|O15101|Q13719	Silent	SNP	ENST00000268489.5	37	CCDS10908.1																																																																																				0.587	ZFHX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269008.1	NM_006885		C	72992635	T	C	72992635	2	2	591	1	0	0	0	0	0	0	0	1	17646	1606	56	3		3	ZFHX3	16	72992635	Silent	SNP	T	TCGA-G7-6795-01A-11D-1961-08	5808504	72992635	17362118	56	35226	267	3								
ZFHX3	463	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	72992638	72992638	+	Silent	SNP	C	C	T													0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tcctcctcctccgcctcttcCtcctcctcttcctcctccgc							TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr16:72992638C>T	ENST00000268489.5	-	2	2079	c.1407G>A	c.(1405-1407)gaG>gaA	p.E469E	ZFHX3_ENST00000397992.5_Intron	NM_006885.3	NP_008816.3	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3	469	Poly-Glu.				brain development (GO:0007420)|cell cycle arrest (GO:0007050)|muscle organ development (GO:0007517)|negative regulation of myoblast differentiation (GO:0045662)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of myoblast differentiation (GO:0045663)|regulation of neuron differentiation (GO:0045664)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	enzyme binding (GO:0019899)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)			NS(3)|breast(7)|cervix(2)|endometrium(18)|haematopoietic_and_lymphoid_tissue(5)|kidney(8)|large_intestine(22)|liver(1)|lung(46)|ovary(5)|pancreas(1)|prostate(15)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(11)	153		Ovarian(137;0.13)				ccgcctcttcctcctcctctt	0.587																																																0													38	41	40					16																	72992638		2198	4300	6498	SO:0001819	synonymous_variant	463			D10250	CCDS10908.1, CCDS54035.1	16q22.3	2012-03-09	2007-08-09	2007-08-09	ENSG00000140836	ENSG00000140836		"Zinc fingers, C2H2-type", "Homeoboxes / ZF class"	777	protein-coding gene	gene with protein product		104155	"AT-binding transcription factor 1"	ATBF1		1719379, 7592926	Standard	NM_006885		Approved	ZNF927	uc002fck.3	Q15911	OTTHUMG00000137599	ENST00000268489.5:c.1407G>A	16.37:g.72992638C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DWS8|O15101|Q13719	Silent	SNP	ENST00000268489.5	37	CCDS10908.1																																																																																				0.587	ZFHX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269008.1	NM_006885		T	72992638	C	T	72992638	2	4	591	1	0	0	0	0	0	0	0	1	17646	680	24	2		2	ZFHX3	16	72992638	Silent	SNP	C	TCGA-G7-6795-01A-11D-1961-08	3	72992638	17362115	57	35227	267	3								
ZFHX3	463	broad.mit.edu	37	chr16	72992645	72992647	+	In_Frame_Del	DEL	TCT	TCT	-													0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	cctccgcctcttcctcctccTcttcctcctccgcctcctct							TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	TCT	TCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr16:72992645_72992647delTCT	ENST00000268489.5	-	2	2070_2072	c.1398_1400delAGA	c.(1396-1401)gaagag>gag	p.466_467EE>E	ZFHX3_ENST00000397992.5_Intron	NM_006885.3	NP_008816.3	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3	466	Poly-Glu.				brain development (GO:0007420)|cell cycle arrest (GO:0007050)|muscle organ development (GO:0007517)|negative regulation of myoblast differentiation (GO:0045662)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of myoblast differentiation (GO:0045663)|regulation of neuron differentiation (GO:0045664)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	enzyme binding (GO:0019899)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)			NS(3)|breast(7)|cervix(2)|endometrium(18)|haematopoietic_and_lymphoid_tissue(5)|kidney(8)|large_intestine(22)|liver(1)|lung(46)|ovary(5)|pancreas(1)|prostate(15)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(11)	153		Ovarian(137;0.13)				ttcctcctcctcttcctcctccg	0.586																																																0																																										SO:0001651	inframe_deletion	463			D10250	CCDS10908.1, CCDS54035.1	16q22.3	2012-03-09	2007-08-09	2007-08-09	ENSG00000140836	ENSG00000140836		"Zinc fingers, C2H2-type", "Homeoboxes / ZF class"	777	protein-coding gene	gene with protein product		104155	"AT-binding transcription factor 1"	ATBF1		1719379, 7592926	Standard	NM_006885		Approved	ZNF927	uc002fck.3	Q15911	OTTHUMG00000137599	ENST00000268489.5:c.1398_1400delAGA	16.37:g.72992645_72992647delTCT	ENSP00000268489:p.Glu471del	Somatic		WXS	Illumina HiSeq	Phase_I	D3DWS8|O15101|Q13719	In_Frame_Del	DEL	ENST00000268489.5	37	CCDS10908.1																																																																																				0.586	ZFHX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269008.1	NM_006885		-	72992647	TCT	-	72992645	7	5	591	1	0	1	0	1	0	0	0	0	17646	1551	54	0	9747	0	ZFHX3	16	72992645	In_Frame_Del	DEL	TCT	TCGA-G7-6795-01A-11D-1961-08	7	72992645	17362108	58	35228	267	3								
OR1E1	8387	broad.mit.edu	37	chr17	3301701	3301701	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	gctggtttgattttgtcccaTcatgctctgtctccagtatc	8	11	3	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr17:3301701T>C	ENST00000322608.2	-	1	3	c.4A>G	c.(4-6)Atg>Gtg	p.M2V		NM_003553.2	NP_003544.2	P30953	OR1E1_HUMAN	olfactory receptor, family 1, subfamily E, member 1	2					detection of chemical stimulus involved in sensory perception of smell (GO:0050911)|sensory perception of smell (GO:0007608)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(3)|large_intestine(2)|lung(5)	10						TTTTGTCCCATCATGCTCTGT	0.438																																																0													58	59	58					17																	3301701		2202	4300	6502	SO:0001583	missense	8387			U04642	CCDS11024.1	17p13.3	2012-08-09			ENSG00000180016	ENSG00000180016		"GPCR / Class A : Olfactory receptors"	8189	protein-coding gene	gene with protein product				OR1E9P, OR1E5, OR1E6		8004088, 1370859	Standard	NM_003553		Approved	OR17-2, HGM071, OR17-32, OR13-66	uc002fvj.1	P30953	OTTHUMG00000090643	ENST00000322608.2:c.4A>G	17.37:g.3301701T>C	ENSP00000313384:p.Met2Val	Somatic		WXS	Illumina HiSeq	Phase_I	O43884|P47882|P47885|Q6IFA9|Q6IFM5|Q9UBJ1|Q9UM60	Missense_Mutation	SNP	ENST00000322608.2	37	CCDS11024.1	.	.	.	.	.	.	.	.	.	.	T	3.178	-0.168613	0.06461	.	.	ENSG00000180016	ENST00000322608	T	0.00573	6.48	3.26	0.843	0.18935	.	1.550200	0.03385	N	0.200962	T	0.00440	0.0014	N	0.10685	0.025	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.45600	-0.9250	10	0.59425	D	0.04	.	3.8262	0.08855	0.2176:0.0:0.2254:0.557	.	2	P30953	OR1E1_HUMAN	V	2	ENSP00000313384:M2V	ENSP00000313384:M2V	M	-	1	0	OR1E1	3248451	0.000000	0.05858	0.000000	0.03702	0.021000	0.10359	-0.362000	0.07602	0.134000	0.18681	0.456000	0.33151	ATG		0.438	OR1E1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207303.1	NM_003553		C	3301701	T	C	3301701	3	2	591	1	0	0	0	0	1	0	0	0	10961	1435	50	3	944	3	OR1E1	17	3301701	Missense_Mutation	SNP	T	TCGA-G7-6795-01A-11D-1961-08		3301701	77893509	59	35229										
MYH10	4628	broad.mit.edu	37	chr17	8416922	8416922	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	gtctgcttctccttcaccttCaacagctcttcatctttggc	5	15	7	0	rs375330015		TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr17:8416922C>T	ENST00000269243.4	-	21	2724	c.2586G>A	c.(2584-2586)ttG>ttA	p.L862L	MYH10_ENST00000379980.4_Silent_p.L878L|MYH10_ENST00000360416.3_Silent_p.L893L|RNU7-43P_ENST00000516554.1_RNA|MYH10_ENST00000396239.1_Silent_p.L883L	NM_005964.3	NP_005955.3	P35580	MYH10_HUMAN	myosin, heavy chain 10, non-muscle	862					actin filament-based movement (GO:0030048)|actomyosin structure organization (GO:0031032)|adult heart development (GO:0007512)|ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|cardiac myofibril assembly (GO:0055003)|cell adhesion (GO:0007155)|cell proliferation (GO:0008283)|cerebellar Purkinje cell layer development (GO:0021680)|exocytosis (GO:0006887)|fourth ventricle development (GO:0021592)|in utero embryonic development (GO:0001701)|lateral ventricle development (GO:0021670)|mitotic cytokinesis (GO:0000281)|neuromuscular process controlling balance (GO:0050885)|neuron migration (GO:0001764)|nuclear migration (GO:0007097)|plasma membrane repair (GO:0001778)|regulation of cell shape (GO:0008360)|retina development in camera-type eye (GO:0060041)|substrate-dependent cell migration, cell extension (GO:0006930)|third ventricle development (GO:0021678)|ventricular cardiac muscle cell development (GO:0055015)	actomyosin (GO:0042641)|axon (GO:0030424)|cell cortex (GO:0005938)|cleavage furrow (GO:0032154)|cytoplasm (GO:0005737)|dendritic spine (GO:0043197)|extracellular vesicular exosome (GO:0070062)|growth cone (GO:0030426)|midbody (GO:0030496)|myosin complex (GO:0016459)|myosin II complex (GO:0016460)|myosin II filament (GO:0097513)|neuromuscular junction (GO:0031594)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|spindle (GO:0005819)|stress fiber (GO:0001725)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|microfilament motor activity (GO:0000146)			breast(5)|endometrium(9)|kidney(2)|large_intestine(16)|lung(9)|ovary(3)|prostate(3)|skin(4)|stomach(1)	52						CCTTCACCTTCAACAGCTCTT	0.483													C|||	1	0.000199681	0.0	0.0	5008	,	,		19613	0.001		0.0	False		,,,				2504	0.0															0								C		1,4405	4.2+/-10.8	0,1,2202	202	168	179		2586	4.2	1	17		179	0,8600		0,0,4300	no	coding-synonymous	MYH10	NM_005964.1		0,1,6502	TT,TC,CC		0.0,0.0227,0.0077		862/1977	8416922	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	4628			M69181	CCDS11144.1, CCDS58515.1, CCDS73984.1	17p13	2011-09-27	2006-09-29		ENSG00000133026	ENSG00000133026		"Myosins / Myosin superfamily : Class II"	7568	protein-coding gene	gene with protein product		160776	"myosin, heavy polypeptide 10, non-muscle"			1860190	Standard	NM_001256012		Approved	NMMHCB	uc002glm.4	P35580	OTTHUMG00000108195	ENST00000269243.4:c.2586G>A	17.37:g.8416922C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RWP9|D3DTS1|F8VTL3|Q12989|Q149N3|Q149N4|Q16087|Q4LE45|Q6PK16|Q9BWG0	Silent	SNP	ENST00000269243.4	37	CCDS11144.1																																																																																				0.483	MYH10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000227001.2			T	8416922	C	T	8416922	2	4	591	1	0	0	0	0	0	0	0	1	10037	825	29	2		2	MYH10	17	8416922	Silent	SNP	C	TCGA-G7-6795-01A-11D-1961-08	5115221	8416922	72778288	60	35230										
MPRIP	23164	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	17030034	17030034	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	agcccacgacccttcctcagGgcaccatcaacatgaaccag	7	17	2	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr17:17030034G>A	ENST00000341712.4	+	4	286	c.286G>A	c.(286-288)Ggc>Agc	p.G96S	MPRIP_ENST00000444976.1_Missense_Mutation_p.G96S|MPRIP_ENST00000395811.5_Missense_Mutation_p.G96S|MPRIP_ENST00000395804.3_Missense_Mutation_p.G96S			Q6WCQ1	MPRIP_HUMAN	myosin phosphatase Rho interacting protein	96	Interaction with F-actin. {ECO:0000250}.|PH 1. {ECO:0000255|PROSITE- ProRule:PRU00145}.					actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)				biliary_tract(1)|breast(1)|endometrium(4)|kidney(2)|large_intestine(6)|lung(9)|ovary(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	31						CCTTCCTCAGGGCACCATCAA	0.602																																																0													80	73	75					17																	17030034		2203	4300	6503	SO:0001583	missense	23164			BC014102	CCDS32578.1, CCDS42268.1	17p11.2	2013-01-10			ENSG00000133030	ENSG00000133030		"Pleckstrin homology (PH) domain containing"	30321	protein-coding gene	gene with protein product	"Rho interacting protein 3"	612935				10048485	Standard	NM_201274		Approved	RHOIP3, M-RIP, p116Rip	uc002gqy.2	Q6WCQ1	OTTHUMG00000059276	ENST00000341712.4:c.286G>A	17.37:g.17030034G>A	ENSP00000342379:p.Gly96Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q3KQZ5|Q5FB94|Q6DHW2|Q7Z5Y2|Q8N390|Q96G40	Missense_Mutation	SNP	ENST00000341712.4	37	CCDS32578.1	.	.	.	.	.	.	.	.	.	.	G	33	5.203730	0.95033	.	.	ENSG00000133030	ENST00000444976;ENST00000395811;ENST00000395804;ENST00000341712	D;D;D;D	0.95518	-3.73;-3.73;-3.73;-3.73	5.59	5.59	0.84812	Pleckstrin homology-type (1);Pleckstrin homology domain (3);	.	.	.	.	D	0.97826	0.9286	M	0.80982	2.52	0.80722	D	1	D;D	0.89917	1.0;0.996	D;D	0.91635	0.999;0.993	D	0.98164	1.0448	9	0.66056	D	0.02	.	19.5944	0.95530	0.0:0.0:1.0:0.0	.	96;96	Q6WCQ1-2;Q6WCQ1	.;MPRIP_HUMAN	S	96	ENSP00000400189:G96S;ENSP00000379156:G96S;ENSP00000379149:G96S;ENSP00000342379:G96S	ENSP00000342379:G96S	G	+	1	0	MPRIP	16970759	1.000000	0.71417	0.993000	0.49108	0.756000	0.42949	9.414000	0.97362	2.642000	0.89623	0.561000	0.74099	GGC		0.602	MPRIP-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000131587.1	NM_015134		A	17030034	G	A	17030034	3	1	591	1	0	0	0	0	1	0	0	0	9750	1232	43	2	300	2	MPRIP	17	17030034	Missense_Mutation	SNP	G	TCGA-G7-6795-01A-11D-1961-08	8613112	17030034	64165176	61	35231										
PHF12	57649	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	27251080	27251080	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tggttcctcatccacgtcaaTgatgtcttcgtcgacatcat	7	12	4	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr17:27251080T>A	ENST00000332830.4	-	4	1372	c.562A>T	c.(562-564)Att>Ttt	p.I188F	PHF12_ENST00000577226.1_Missense_Mutation_p.I188F|PHF12_ENST00000268756.3_Missense_Mutation_p.I188F|RP11-20B24.5_ENST00000582631.1_RNA|PHF12_ENST00000582655.1_5'UTR|RP11-20B24.5_ENST00000580782.1_RNA	NM_001033561.1	NP_001028733.1			PHD finger protein 12											breast(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(8)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	30	all_cancers(5;1.95e-14)|all_epithelial(6;5e-18)|Lung NSC(42;0.01)		Epithelial(11;1.64e-05)|all cancers(11;7.47e-05)|BRCA - Breast invasive adenocarcinoma(11;9.79e-05)			TCCACGTCAATGATGTCTTCG	0.602																																																0													83	65	71					17																	27251080		2203	4300	6503	SO:0001583	missense	57649			AB040956	CCDS11247.1, CCDS32598.1	17q11.2	2013-01-28			ENSG00000109118	ENSG00000109118		"Zinc fingers, PHD-type"	20816	protein-coding gene	gene with protein product						11390640	Standard	XM_005258015		Approved	PF1, KIAA1523	uc002hdg.1	Q96QT6	OTTHUMG00000132676	ENST00000332830.4:c.562A>T	17.37:g.27251080T>A	ENSP00000329933:p.Ile188Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000332830.4	37	CCDS32598.1	.	.	.	.	.	.	.	.	.	.	T	15.88	2.962952	0.53507	.	.	ENSG00000109118	ENST00000332830;ENST00000378879;ENST00000268756	D;D;D	0.94793	-3.48;-3.52;-3.52	5.8	4.72	0.59763	.	0.213282	0.49305	D	0.000141	D	0.93527	0.7934	L	0.44542	1.39	0.46260	D	0.998956	D;D;B;D	0.57899	0.968;0.981;0.437;0.968	P;P;B;P	0.54026	0.474;0.74;0.068;0.474	D	0.91577	0.5276	10	0.36615	T	0.2	-19.0128	10.4673	0.44616	0.0:0.0766:0.0:0.9234	.	170;188;188;188	B4DFE2;Q96QT6-2;Q2TAK2;Q96QT6	.;.;.;PHF12_HUMAN	F	188	ENSP00000329933:I188F;ENSP00000368157:I188F;ENSP00000268756:I188F	ENSP00000268756:I188F	I	-	1	0	PHF12	24275206	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	2.241000	0.43097	1.031000	0.39867	0.533000	0.62120	ATT		0.602	PHF12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255941.1	NM_020889		A	27251080	T	A	27251080	3	1	591	1	0	0	0	0	1	0	0	0	11830	1464	51	5	2526	5	PHF12	17	27251080	Missense_Mutation	SNP	T	TCGA-G7-6795-01A-11D-1961-08	10221046	27251080	53944130	62	35232										
KRT17	3872	broad.mit.edu	37	chr17	39777877	39777877	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ccaatcctcggcatccttgcGgttcttctctgccatcttct	6	16	4	0	rs560576342		TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr17:39777877G>T	ENST00000311208.8	-	4	869	c.802C>A	c.(802-804)Cgc>Agc	p.R268S	JUP_ENST00000540235.1_Missense_Mutation_p.R427S	NM_000422.2	NP_000413.1	Q04695	K1C17_HUMAN	keratin 17	268	Coil 2.|Rod.				epidermis development (GO:0008544)|intermediate filament organization (GO:0045109)|keratinization (GO:0031424)|morphogenesis of an epithelium (GO:0002009)|positive regulation of cell growth (GO:0030307)|positive regulation of hair follicle development (GO:0051798)|positive regulation of translation (GO:0045727)|signal transduction (GO:0007165)	cell periphery (GO:0071944)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)	MHC class II protein binding (GO:0042289)|MHC class II receptor activity (GO:0032395)|structural constituent of cytoskeleton (GO:0005200)			central_nervous_system(1)|endometrium(2)|large_intestine(2)|lung(5)|ovary(1)|skin(1)	12		Breast(137;0.000307)				GCATCCTTGCGGTTCTTCTCT	0.592																																					Pancreas(92;1242 2086 39193 50508)											0													113	100	105					17																	39777877		2203	4298	6501	SO:0001583	missense	3872			X62571	CCDS11402.1	17q21.2	2014-06-12			ENSG00000128422	ENSG00000128422		"-", "Intermediate filaments type I, keratins (acidic)"	6427	protein-coding gene	gene with protein product		148069		PCHC1		7539673, 1281771, 16831889	Standard	NM_000422		Approved		uc002hxh.2	Q04695	OTTHUMG00000133505	ENST00000311208.8:c.802C>A	17.37:g.39777877G>T	ENSP00000308452:p.Arg268Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A5Z1M9|A5Z1N0|A5Z1N1|A5Z1N2|A6NDV6|A6NKQ2|Q6IP98|Q8N1P6	Missense_Mutation	SNP	ENST00000311208.8	37	CCDS11402.1	.	.	.	.	.	.	.	.	.	.	G	23.1	4.376396	0.82682	.	.	ENSG00000128422;ENSG00000173801	ENST00000311208;ENST00000540235	D;D	0.89681	-2.55;-2.55	3.82	3.82	0.43975	Prefoldin (1);Filament (1);	0.000000	0.47852	D	0.000202	D	0.95890	0.8662	H	0.95114	3.625	0.38398	D	0.94557	D	0.62365	0.991	D	0.68943	0.961	D	0.98465	1.0598	10	0.87932	D	0	.	16.2789	0.82658	0.0:0.0:1.0:0.0	.	268	Q04695	K1C17_HUMAN	S	268;427	ENSP00000308452:R268S;ENSP00000441751:R427S	ENSP00000441751:R427S	R	-	1	0	JUP;KRT17	37031403	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.624000	0.54231	2.135000	0.66039	0.655000	0.94253	CGC		0.592	KRT17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257460.1	NM_000422		T	39777877	G	T	39777877	3	4	591	1	0	0	0	0	1	0	0	0	8461	1116	39	4	516	4	KRT17	17	39777877	Missense_Mutation	SNP	G	TCGA-G7-6795-01A-11D-1961-08	12526797	39777877	41417333	63	35233										
GJC1	10052	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	42882624	42882624	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ccctatcagaaaacccacctCaaacacggtccttgccagca	5	17	2	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr17:42882624C>G	ENST00000426548.1	-	3	831	c.562G>C	c.(562-564)Gag>Cag	p.E188Q	GJC1_ENST00000590758.1_Missense_Mutation_p.E188Q|GJC1_ENST00000592524.1_Missense_Mutation_p.E188Q|GJC1_ENST00000330514.4_Missense_Mutation_p.E188Q	NM_001080383.1|NM_005497.3	NP_001073852.1|NP_005488.2	P36383	CXG1_HUMAN	gap junction protein, gamma 1, 45kDa	188					atrial cardiac muscle cell action potential (GO:0086014)|cardiac muscle tissue development (GO:0048738)|cell development (GO:0048468)|cell-cell junction assembly (GO:0007043)|gap junction assembly (GO:0016264)|membrane organization (GO:0061024)|muscle contraction (GO:0006936)|synaptic transmission (GO:0007268)|transport (GO:0006810)|vasculogenesis (GO:0001570)|visual perception (GO:0007601)	connexon complex (GO:0005922)|endoplasmic reticulum membrane (GO:0005789)|gap junction (GO:0005921)|integral component of membrane (GO:0016021)|intercalated disc (GO:0014704)|plasma membrane (GO:0005886)	gap junction channel activity (GO:0005243)|ion channel activity (GO:0005216)			NS(1)|kidney(1)|large_intestine(5)|liver(1)|lung(10)|prostate(1)	19		Prostate(33;0.0959)				AAACCCACCTCAAACACGGTC	0.493																																																0													188	173	178					17																	42882624		2203	4300	6503	SO:0001583	missense	10052			U03493	CCDS11487.1	17q21.31	2008-02-04	2007-11-06	2007-11-06		ENSG00000182963		"Ion channels / Gap junction proteins (connexins)"	4280	protein-coding gene	gene with protein product	"connexin 45"	608655	"gap junction protein, alpha 7, 45kDa"	GJA7		7966354	Standard	NM_005497		Approved	CX45	uc002ihl.3	P36383		ENST00000426548.1:c.562G>C	17.37:g.42882624C>G	ENSP00000411528:p.Glu188Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B3KW68|Q4VAY0	Missense_Mutation	SNP	ENST00000426548.1	37	CCDS11487.1	.	.	.	.	.	.	.	.	.	.	C	21.8	4.201522	0.79015	.	.	ENSG00000182963	ENST00000426548;ENST00000330514	D;D	0.97850	-4.57;-4.57	5.52	5.52	0.82312	Gap junction protein, cysteine-rich domain (1);	0.000000	0.85682	D	0.000000	D	0.99306	0.9757	H	0.98218	4.175	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.98674	1.0689	10	0.87932	D	0	.	18.419	0.90582	0.0:1.0:0.0:0.0	.	188	P36383	CXG1_HUMAN	Q	188	ENSP00000411528:E188Q;ENSP00000333193:E188Q	ENSP00000333193:E188Q	E	-	1	0	GJC1	40238150	1.000000	0.71417	1.000000	0.80357	0.961000	0.63080	7.805000	0.86005	2.581000	0.87130	0.514000	0.50259	GAG		0.493	GJC1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000448661.1	NM_005497		G	42882624	C	G	42882624	3	3	591	1	0	0	0	0	1	0	0	0	6421	835	29	4	632	4	GJC1	17	42882624	Missense_Mutation	SNP	C	TCGA-G7-6795-01A-11D-1961-08	3104747	42882624	38312586	64	35234										
SAMD14	201191	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	48190273	48190273	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tcccctagctcttcttggccTcctgctctcggcgccggagc	10	18	3	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr17:48190273T>G	ENST00000330175.4	-	10	1555	c.1238A>C	c.(1237-1239)gAg>gCg	p.E413A	SAMD14_ENST00000503131.1_Missense_Mutation_p.E441A	NM_001257359.1	NP_001244288.1	Q8IZD0	SAM14_HUMAN	sterile alpha motif domain containing 14	413										breast(1)|endometrium(1)|kidney(4)|large_intestine(4)|lung(3)|prostate(1)|urinary_tract(1)	15						CTTCTTGGCCTCCTGCTCTCG	0.697																																																0													40	43	42					17																	48190273		2203	4300	6503	SO:0001583	missense	201191				CCDS11560.1, CCDS58562.1	17q21.33	2013-01-10				ENSG00000167100		"Sterile alpha motif (SAM) domain containing"	27312	protein-coding gene	gene with protein product						8619474	Standard	NM_174920		Approved	FLJ36890	uc002iqg.4	Q8IZD0		ENST00000330175.4:c.1238A>C	17.37:g.48190273T>G	ENSP00000329144:p.Glu413Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A5D8V1|Q8N2X0	Missense_Mutation	SNP	ENST00000330175.4	37	CCDS58562.1	.	.	.	.	.	.	.	.	.	.	T	16.48	3.134428	0.56828	.	.	ENSG00000167100	ENST00000330175;ENST00000285206;ENST00000503131	.	.	.	5.11	4.02	0.46733	.	0.370723	0.24490	N	0.038069	T	0.47544	0.1451	L	0.27053	0.805	0.27885	N	0.939546	D;B	0.63880	0.993;0.137	D;B	0.68192	0.956;0.046	T	0.37911	-0.9685	9	0.59425	D	0.04	-11.4398	10.0803	0.42386	0.0:0.0:0.1686:0.8313	.	413;441	Q8IZD0;Q8IZD0-2	SAM14_HUMAN;.	A	413;425;441	.	ENSP00000285206:E425A	E	-	2	0	SAMD14	45545272	0.996000	0.38824	1.000000	0.80357	0.862000	0.49288	2.701000	0.47094	0.773000	0.33404	0.379000	0.24179	GAG		0.697	SAMD14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366661.1	NM_174920		G	48190273	T	G	48190273	3	3	591	1	0	0	0	0	1	0	0	0	13832	1551	54	5	19	5	SAMD14	17	48190273	Missense_Mutation	SNP	T	TCGA-G7-6795-01A-11D-1961-08	5307649	48190273	33004937	65	35235										
CACNA1G	8913	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	48669448	48669448	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ttctggtggagggcttccagGcggaggtaacccactgctct	14	11	2	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr17:48669448G>A	ENST00000359106.5	+	13	2905	c.2905G>A	c.(2905-2907)Gcg>Acg	p.A969T	CACNA1G_ENST00000416767.4_Missense_Mutation_p.A969T|CACNA1G_ENST00000503485.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000514079.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000507609.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000513689.2_Missense_Mutation_p.A969T|CACNA1G_ENST00000429973.2_Missense_Mutation_p.A969T|CACNA1G_ENST00000507336.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000507510.2_Missense_Mutation_p.A969T|CACNA1G_ENST00000510115.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000502264.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000507896.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000505165.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000510366.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000354983.4_Missense_Mutation_p.A969T|CACNA1G_ENST00000515411.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000514717.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000514181.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000512389.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000513964.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000360761.4_Missense_Mutation_p.A969T|CACNA1G_ENST00000442258.2_Missense_Mutation_p.A969T|CACNA1G_ENST00000515165.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000358244.5_Missense_Mutation_p.A969T|CACNA1G_ENST00000515765.1_Missense_Mutation_p.A969T|CACNA1G_ENST00000352832.5_Missense_Mutation_p.A969T	NM_018896.4	NP_061496.2	O43497	CAC1G_HUMAN	calcium channel, voltage-dependent, T type, alpha 1G subunit	969					axon guidance (GO:0007411)|calcium ion import (GO:0070509)|membrane depolarization during action potential (GO:0086010)|positive regulation of calcium ion-dependent exocytosis (GO:0045956)|regulation of atrial cardiac muscle cell membrane depolarization (GO:0060371)|regulation of heart rate (GO:0002027)|regulation of membrane potential (GO:0042391)|response to nickel cation (GO:0010045)|synaptic transmission (GO:0007268)|transport (GO:0006810)	plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	low voltage-gated calcium channel activity (GO:0008332)|scaffold protein binding (GO:0097110)			breast(5)|cervix(1)|endometrium(13)|kidney(5)|lung(23)	47	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Cinnarizine(DB00568)|Ethosuximide(DB00593)|Flunarizine(DB04841)|Methsuximide(DB05246)|Spironolactone(DB00421)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	GGGCTTCCAGGCGGAGGTAAC	0.582																																																0													50	55	53					17																	48669448		2071	4210	6281	SO:0001583	missense	8913			AC004590	CCDS45730.1, CCDS45731.1, CCDS45732.1, CCDS45733.1, CCDS45734.1, CCDS45735.1, CCDS45736.1, CCDS45737.1, CCDS54142.1, CCDS54143.1, CCDS54144.1, CCDS54145.1, CCDS54146.1, CCDS58565.1, CCDS58566.1, CCDS58567.1, CCDS58568.1, CCDS58569.1, CCDS58570.1, CCDS58571.1, CCDS58572.1, CCDS58573.1, CCDS58574.1, CCDS58575.1, CCDS58576.1	17q22	2012-03-07	2007-02-16		ENSG00000006283	ENSG00000006283		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1394	protein-coding gene	gene with protein product		604065				9495342, 16382099	Standard	NM_001256334		Approved	Cav3.1, NBR13	uc002irk.2	O43497	OTTHUMG00000162180	ENST00000359106.5:c.2905G>A	17.37:g.48669448G>A	ENSP00000352011:p.Ala969Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D6RA64|E7EPR0|O43498|O94770|Q19QY8|Q19QY9|Q19QZ0|Q19QZ1|Q19QZ2|Q19QZ3|Q19QZ4|Q19QZ5|Q19QZ6|Q19QZ7|Q19QZ8|Q19QZ9|Q19R00|Q19R01|Q19R02|Q19R03|Q19R04|Q19R05|Q19R06|Q19R07|Q19R08|Q19R09|Q19R10|Q19R11|Q19R12|Q19R13|Q19R15|Q19R16|Q19R17|Q19R18|Q2TAC4|Q9NYU4|Q9NYU5|Q9NYU6|Q9NYU7|Q9NYU8|Q9NYU9|Q9NYV0|Q9NYV1|Q9UHN9|Q9UHP0|Q9ULU6|Q9UNG7|Q9Y5T2|Q9Y5T3	Missense_Mutation	SNP	ENST00000359106.5	37	CCDS45730.1	.	.	.	.	.	.	.	.	.	.	g	14.26	2.482345	0.44147	.	.	ENSG00000006283	ENST00000360761;ENST00000352832;ENST00000416767;ENST00000354983;ENST00000442258;ENST00000502264;ENST00000512389;ENST00000513964;ENST00000514717;ENST00000510366;ENST00000503485;ENST00000507510;ENST00000507336;ENST00000513689;ENST00000507609;ENST00000510115;ENST00000515165;ENST00000514181;ENST00000515765;ENST00000514079;ENST00000358244;ENST00000359106;ENST00000429973;ENST00000515411;ENST00000505165;ENST00000507896	D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D	0.97186	-4.13;-4.12;-4.28;-4.08;-4.13;-4.12;-4.16;-4.26;-4.22;-4.24;-4.25;-4.11;-4.12;-4.2;-4.12;-4.07;-4.16;-4.12;-4.12;-4.16;-4.12;-4.12;-4.16;-4.11;-4.16;-4.17	5.08	1.63	0.23807	.	0.106565	0.64402	N	0.000006	D	0.88142	0.6357	N	0.02916	-0.46	0.33790	D	0.625335	B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B	0.22080	0.064;0.0;0.0;0.0;0.0;0.001;0.001;0.0;0.001;0.019;0.0;0.001;0.002;0.0;0.001;0.001;0.007;0.0;0.0;0.001;0.001;0.002;0.0;0.001;0.001;0.013	B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B	0.25987	0.017;0.005;0.001;0.005;0.001;0.006;0.004;0.001;0.004;0.013;0.001;0.017;0.02;0.001;0.004;0.007;0.029;0.005;0.001;0.008;0.003;0.007;0.001;0.007;0.001;0.065	T	0.82715	-0.0320	10	0.23891	T	0.37	.	5.465	0.16637	0.6206:0.0:0.3794:0.0	.	969;969;969;969;969;969;969;969;969;969;969;969;969;969;969;969;969;969;969;969;969;969;969;969;969;969	Q19QZ5;Q19QZ1;Q19QZ4;Q19R07;Q19QY8;Q19R10;Q19QZ6;Q19QZ3;Q19R06;Q19R00;Q19R04;O43497-10;Q19QZ9;Q19QZ7;Q19R08;Q19QZ8;Q19R03;O43497-4;Q19R02;Q19R12;Q19R17;Q19R11;Q2TAC4;O43497;Q19R13;O43497-11	.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;CAC1G_HUMAN;.;.	T	969	ENSP00000353990:A969T;ENSP00000339302:A969T;ENSP00000392390:A969T;ENSP00000347078:A969T;ENSP00000409759:A969T;ENSP00000425522:A969T;ENSP00000426261:A969T;ENSP00000425451:A969T;ENSP00000422407:A969T;ENSP00000426814:A969T;ENSP00000427238:A969T;ENSP00000423112:A969T;ENSP00000420918:A969T;ENSP00000426172:A969T;ENSP00000423045:A969T;ENSP00000427173:A969T;ENSP00000426098:A969T;ENSP00000425698:A969T;ENSP00000426232:A969T;ENSP00000423317:A969T;ENSP00000350979:A969T;ENSP00000352011:A969T;ENSP00000414388:A969T;ENSP00000423155:A969T;ENSP00000422268:A969T;ENSP00000421518:A969T	ENSP00000339302:A969T	A	+	1	0	CACNA1G	46024447	1.000000	0.71417	0.982000	0.44146	0.980000	0.70556	2.660000	0.46749	0.553000	0.29044	0.462000	0.41574	GCG		0.582	CACNA1G-013	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000367895.1	NM_018896		A	48669448	G	A	48669448	3	1	591	1	0	0	0	0	1	0	0	0	2546	1203	42	2	2955	2	CACNA1G	17	48669448	Missense_Mutation	SNP	G	TCGA-G7-6795-01A-11D-1961-08	479175	48669448	32525762	66	35236										
VEZF1	7716	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	56060465	56060465	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ggggaaccaccgtggtggggGttttctttggccgggacacc	17	10	1	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr17:56060465G>T	ENST00000581208.1	-	2	363	c.323C>A	c.(322-324)aCc>aAc	p.T108N	VEZF1_ENST00000584396.1_Missense_Mutation_p.T99N	NM_007146.2	NP_009077.2	Q14119	VEZF1_HUMAN	vascular endothelial zinc finger 1	108					angiogenesis (GO:0001525)|cellular defense response (GO:0006968)|endothelial cell development (GO:0001885)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(1)|kidney(2)|lung(5)|ovary(1)	10						CGTGGTGGGGGTTTTCTTTGG	0.547																																																0													91	91	91					17																	56060465		2203	4300	6503	SO:0001583	missense	7716			D28118	CCDS32687.1	17q22	2012-10-05	2006-08-16	2006-08-16	ENSG00000136451	ENSG00000136451		"Zinc fingers, C2H2-type"	12949	protein-coding gene	gene with protein product		606747	"zinc finger protein 161"	ZNF161		8035792	Standard	XM_005257643		Approved	DB1	uc002ivf.1	Q14119	OTTHUMG00000178777	ENST00000581208.1:c.323C>A	17.37:g.56060465G>T	ENSP00000462337:p.Thr108Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000581208.1	37	CCDS32687.1	.	.	.	.	.	.	.	.	.	.	G	16.12	3.033269	0.54896	.	.	ENSG00000136451	ENST00000258963	.	.	.	5.48	5.48	0.80851	.	0.000000	0.85682	D	0.000000	T	0.52092	0.1713	L	0.27053	0.805	0.80722	D	1	P	0.49185	0.92	B	0.44085	0.44	T	0.58142	-0.7688	9	0.66056	D	0.02	-9.6184	19.3617	0.94442	0.0:0.0:1.0:0.0	.	108	Q14119	VEZF1_HUMAN	N	108	.	ENSP00000258963:T108N	T	-	2	0	VEZF1	53415464	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.196000	0.94978	2.590000	0.87494	0.643000	0.83706	ACC		0.547	VEZF1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000443321.1			T	56060465	G	T	56060465	3	4	591	1	0	0	0	0	1	0	0	0	17167	1261	44	4	1262	4	VEZF1	17	56060465	Missense_Mutation	SNP	G	TCGA-G7-6795-01A-11D-1961-08	7391017	56060465	25134745	67	35237										
DYM	54808	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	46645145	46645145	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tttgcattatatcctgaaatGaaggatgagttcgaaattgt	9	4	0	3			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr18:46645145G>A	ENST00000269445.6	-	15	2172	c.1715C>T	c.(1714-1716)tCa>tTa	p.S572L	RP11-15F12.3_ENST00000585251.1_RNA|DYM_ENST00000442713.2_Missense_Mutation_p.S382L	NM_017653.3	NP_060123.3	Q7RTS9	DYM_HUMAN	dymeclin	572					bone development (GO:0060348)|Golgi organization (GO:0007030)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)	enzyme binding (GO:0019899)			NS(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(6)|skin(1)|upper_aerodigestive_tract(1)	18						ATCCTGAAATGAAGGATGAGT	0.353																																																0													136	120	126					18																	46645145		2203	4300	6503	SO:0001583	missense	54808			AK000078	CCDS11937.1	18q21.1	2008-03-12			ENSG00000141627	ENSG00000141627			21317	protein-coding gene	gene with protein product		607461					Standard	NM_017653		Approved	FLJ20071, DMC, SMC	uc002ldi.1	Q7RTS9	OTTHUMG00000132659	ENST00000269445.6:c.1715C>T	18.37:g.46645145G>A	ENSP00000269445:p.Ser572Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5I8|B2RCF9|B4DKI7|Q3ZTS8|Q6P2P5|Q8N2M0|Q9BVE9|Q9NPU7	Missense_Mutation	SNP	ENST00000269445.6	37	CCDS11937.1	.	.	.	.	.	.	.	.	.	.	G	31	5.094436	0.94149	.	.	ENSG00000141627	ENST00000442713;ENST00000269445	D;D	0.81908	-1.55;-1.55	5.51	5.51	0.81932	.	0.000000	0.85682	D	0.000000	D	0.86981	0.6064	L	0.48362	1.52	0.80722	D	1	P;D;P	0.56287	0.879;0.975;0.481	B;P;B	0.56648	0.399;0.803;0.22	D	0.87691	0.2554	10	0.66056	D	0.02	-11.3305	19.412	0.94677	0.0:0.0:1.0:0.0	.	382;394;572	Q7RTS9-2;Q9NXS9;Q7RTS9	.;.;DYM_HUMAN	L	382;572	ENSP00000395942:S382L;ENSP00000269445:S572L	ENSP00000269445:S572L	S	-	2	0	DYM	44899143	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.827000	0.99397	2.601000	0.87937	0.650000	0.86243	TCA		0.353	DYM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255912.3	NM_017653		A	46645145	G	A	46645145	3	1	591	1	0	0	0	0	1	0	0	0	4842	1294	45	2	306	2	DYM	18	46645145	Missense_Mutation	SNP	G	TCGA-G7-6795-01A-11D-1961-08		46645145	31432103	68	35238										
TMPRSS9	360200	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	2408353	2408353	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	agctggggtttgctcctgcaGgttccaagacccgacgaagt	13	11	0	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr19:2408353G>A	ENST00000332578.3	+	7	740		c.e7-1			NM_182973.1	NP_892018.1	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9						plasminogen activation (GO:0031639)	integral component of plasma membrane (GO:0005887)	serine-type endopeptidase activity (GO:0004252)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(3)|large_intestine(3)|lung(12)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	29				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)		TGCTCCTGCAGGTTCCAAGAC	0.652																																																0													45	44	44					19																	2408353		2203	4300	6503	SO:0001630	splice_region_variant	360200			AJ488946	CCDS12088.1	19p13.3	2010-04-13						"Serine peptidases / Transmembrane"	30079	protein-coding gene	gene with protein product	"polyserase 1"	610477				12886014	Standard	NM_182973		Approved		uc010xgx.2	Q7Z410		ENST00000332578.3:c.741-1G>A	19.37:g.2408353G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZND6|Q7Z411	Splice_Site	SNP	ENST00000332578.3	37	CCDS12088.1	.	.	.	.	.	.	.	.	.	.	G	12.37	1.918286	0.33908	.	.	ENSG00000178297	ENST00000395264;ENST00000332578	.	.	.	4.45	4.45	0.53987	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.6211	0.76808	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	TMPRSS9	2359353	1.000000	0.71417	0.797000	0.32132	0.227000	0.25037	8.627000	0.90974	2.039000	0.60335	0.491000	0.48974	.		0.652	TMPRSS9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451330.3	NM_182973	Intron	A	2408353	G	A	2408353	5	1	591	1	0	0	0	0	0	0	1	0	16265	1014	35	2	766	2	TMPRSS9	19	2408353	Splice_Site	SNP	G	TCGA-G7-6795-01A-11D-1961-08		2408353	56720630	69	35239										
USHBP1	83878	hgsc.bcm.edu;bcgsc.ca	37	chr19	17370111	17370111	+	Frame_Shift_Del	DEL	C	C	-													0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	cactgacctgtactgcaaggCcagatgcaatgctgtggcct							TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr19:17370111delC	ENST00000252597.3	-	7	1206	c.1033delG	c.(1033-1035)gccfs	p.A345fs	USHBP1_ENST00000431146.2_Frame_Shift_Del_p.A281fs	NM_031941.3	NP_114147.2			Usher syndrome 1C binding protein 1											breast(3)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(10)|liver(1)|lung(12)|ovary(3)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	44						TACTGCAAGGCCAGATGCAAT	0.602																																																0													53	49	50					19																	17370111		2203	4300	6503	SO:0001589	frameshift_variant	83878			AK096028	CCDS12353.1	19p13.11	2013-06-10			ENSG00000130307	ENSG00000130307			24058	protein-coding gene	gene with protein product		611810				11311560	Standard	XM_005260093		Approved	MCC2, AIEBP, FLJ38709	uc002nfs.1	Q8N6Y0	OTTHUMG00000182730	ENST00000252597.3:c.1033delG	19.37:g.17370111delC	ENSP00000252597:p.Ala345fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000252597.3	37	CCDS12353.1																																																																																				0.602	USHBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463328.1	NM_031941		-	17370111	C	-	17370111	7	5	591	1	0	1	0	1	0	0	0	0	17049	739	26	0	1106	0	USHBP1	19	17370111	Frame_Shift_Del	DEL	C	TCGA-G7-6795-01A-11D-1961-08	14961758	17370111	41758872	70	35240										
SSBP4	170463	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	18538728	18538728	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	cgtcttctgggacctgtactGcgcggcgcctgacagaagag	14	12	2	3			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr19:18538728G>A	ENST00000270061.7	+	4	509	c.215G>A	c.(214-216)tGc>tAc	p.C72Y	SSBP4_ENST00000598159.2_3'UTR|SSBP4_ENST00000348495.6_Missense_Mutation_p.C72Y	NM_032627.4	NP_116016.1	Q9BWG4	SSBP4_HUMAN	single stranded DNA binding protein 4	72						nucleus (GO:0005634)	single-stranded DNA binding (GO:0003697)			endometrium(2)|kidney(1)|skin(1)	4						GACCTGTACTGCGCGGCGCCT	0.667																																																0													77	70	72					19																	18538728		2203	4300	6503	SO:0001583	missense	170463				CCDS12378.1, CCDS32960.1	19p13.1	2008-02-05				ENSG00000130511			15676	protein-coding gene	gene with protein product		607391				12079286	Standard	NM_032627		Approved		uc002niy.3	Q9BWG4		ENST00000270061.7:c.215G>A	19.37:g.18538728G>A	ENSP00000270061:p.Cys72Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BWW5	Missense_Mutation	SNP	ENST00000270061.7	37	CCDS12378.1	.	.	.	.	.	.	.	.	.	.	G	13.61	2.288142	0.40494	.	.	ENSG00000130511	ENST00000270061;ENST00000348495	.	.	.	3.7	3.7	0.42460	.	0.000000	0.85682	U	0.000000	T	0.58921	0.2156	L	0.57536	1.79	0.58432	D	0.999999	B;B	0.25048	0.048;0.117	B;B	0.27715	0.077;0.082	T	0.64193	-0.6465	9	0.72032	D	0.01	-16.1844	12.9926	0.58627	0.0:0.0:1.0:0.0	.	72;72	Q9BWW5;Q9BWG4	.;SSBP4_HUMAN	Y	72	.	ENSP00000270061:C72Y	C	+	2	0	SSBP4	18399728	1.000000	0.71417	0.932000	0.37286	0.036000	0.12997	8.730000	0.91510	1.883000	0.54544	0.561000	0.74099	TGC		0.667	SSBP4-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000466348.3	NM_032627		A	18538728	G	A	18538728	3	1	591	1	0	0	0	0	1	0	0	0	15194	1319	46	2	229	2	SSBP4	19	18538728	Missense_Mutation	SNP	G	TCGA-G7-6795-01A-11D-1961-08	1168617	18538728	40590255	71	35241										
SLC25A42	284439	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	19218750	19218750	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	ccgcatctcgagagaagaggGgctgaagactctctaccatg	12	11	2	4			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr19:19218750G>T	ENST00000318596.7	+	7	696	c.545G>T	c.(544-546)gGg>gTg	p.G182V	SLC25A42_ENST00000600275.1_3'UTR	NM_178526.4	NP_848621.2	Q86VD7	S2542_HUMAN	solute carrier family 25, member 42	182					ADP transport (GO:0015866)|AMP transport (GO:0080121)|ATP transport (GO:0015867)|coenzyme A transmembrane transport (GO:0035349)|metabolic process (GO:0008152)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	adenosine-diphosphatase activity (GO:0043262)|ADP transmembrane transporter activity (GO:0015217)|AMP transmembrane transporter activity (GO:0080122)|ATP transmembrane transporter activity (GO:0005347)|coenzyme A transmembrane transporter activity (GO:0015228)			cervix(1)|large_intestine(2)|lung(3)	6			OV - Ovarian serous cystadenocarcinoma(5;5.4e-06)|Epithelial(12;0.000497)			AGAGAAGAGGGGCTGAAGACT	0.572																																																0													119	105	110					19																	19218750		2203	4300	6503	SO:0001583	missense	284439				CCDS32966.1	19p13.11	2013-05-22			ENSG00000181035	ENSG00000181035		"Solute carriers"	28380	protein-coding gene	gene with protein product		610823				16949250, 19429682	Standard	NM_178526		Approved	MGC26694	uc002nlf.3	Q86VD7		ENST00000318596.7:c.545G>T	19.37:g.19218750G>T	ENSP00000326693:p.Gly182Val	Somatic		WXS	Illumina HiSeq	Phase_I	D2T2J5|O14553|O43378	Missense_Mutation	SNP	ENST00000318596.7	37	CCDS32966.1	.	.	.	.	.	.	.	.	.	.	G	23.6	4.441353	0.83993	.	.	ENSG00000181035	ENST00000318596	D	0.95238	-3.65	5.26	5.26	0.73747	Mitochondrial carrier domain (2);	0.000000	0.85682	D	0.000000	D	0.98701	0.9564	H	0.99435	4.565	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.99686	1.1000	10	0.87932	D	0	-10.1963	17.8525	0.88751	0.0:0.0:1.0:0.0	.	182	Q86VD7	S2542_HUMAN	V	182	ENSP00000326693:G182V	ENSP00000326693:G182V	G	+	2	0	SLC25A42	19079750	1.000000	0.71417	0.987000	0.45799	0.753000	0.42808	8.259000	0.89855	2.449000	0.82847	0.491000	0.48974	GGG		0.572	SLC25A42-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465931.1	NM_178526		T	19218750	G	T	19218750	3	4	591	1	0	0	0	0	1	0	0	0	14520	1232	43	4	567	4	SLC25A42	19	19218750	Missense_Mutation	SNP	G	TCGA-G7-6795-01A-11D-1961-08	680022	19218750	39910233	72	35242										
ZNF254	9534	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	24310237	24310237	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	tatggtcctcaaccctaactAgacataagaggatgcacact	7	11	1	2			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr19:24310237A>T	ENST00000357002.4	+	4	1550	c.1435A>T	c.(1435-1437)Aga>Tga	p.R479*	ZNF254_ENST00000342944.6_Nonsense_Mutation_p.R394*	NM_001278661.1|NM_001278662.1|NM_001278664.1|NM_001278677.1|NM_001278678.1|NM_203282.2	NP_001265590.1|NP_001265591.1|NP_001265593.1|NP_001265606.1|NP_001265607.1|NP_975011.3	O75437	ZN254_HUMAN	zinc finger protein 254	479					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)						all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				AACCCTAACTAGACATAAGAG	0.388																																																0													62	62	62					19																	24310237		2203	4299	6502	SO:0001587	stop_gained	9534			AF054180	CCDS32983.1, CCDS62622.1, CCDS62623.1, CCDS74323.1, CCDS74324.1	19p13	2013-01-08				ENSG00000213096		"Zinc fingers, C2H2-type", "-"	13047	protein-coding gene	gene with protein product		604768	"zinc finger protein 539"	ZNF91L, ZNF539		9653160	Standard	NM_001278661		Approved	HD-ZNF1, BMZF-5	uc002nru.3	O75437		ENST00000357002.4:c.1435A>T	19.37:g.24310237A>T	ENSP00000349494:p.Arg479*	Somatic		WXS	Illumina HiSeq	Phase_I	A4QPC0|Q86XL7	Nonsense_Mutation	SNP	ENST00000357002.4	37	CCDS32983.1	.	.	.	.	.	.	.	.	.	.	A	35	5.491375	0.96339	.	.	ENSG00000213096	ENST00000342944;ENST00000357002	.	.	.	1.07	-2.07	0.07276	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.12430	T	0.62	.	3.7155	0.08437	0.6048:0.3952:0.0:0.0	.	.	.	.	X	394;479	.	ENSP00000445527:R394X	R	+	1	2	ZNF254	24102077	0.000000	0.05858	0.040000	0.18447	0.918000	0.54935	-0.462000	0.06704	-0.565000	0.06061	0.248000	0.18094	AGA		0.388	ZNF254-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466453.1	NM_004876		T	24310237	A	T	24310237	4	4	591	1	0	0	0	0	0	1	0	0	17810	412	15	5	1449	5	ZNF254	19	24310237	Nonsense_Mutation	SNP	A	TCGA-G7-6795-01A-11D-1961-08	5091487	24310237	34818746	73	35243										
SPINT2	10653	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	38774304	38774304	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	aaggtggtgggcagatgccgGgcctccatgcctaggtggtg	18	9	0	1			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr19:38774304G>T	ENST00000301244.7	+	2	579	c.144G>T	c.(142-144)cgG>cgT	p.R48R	SPINT2_ENST00000587090.1_5'UTR|SPINT2_ENST00000454580.3_Intron	NM_021102.3	NP_066925.1	O43291	SPIT2_HUMAN	serine peptidase inhibitor, Kunitz type, 2	48	BPTI/Kunitz inhibitor 1. {ECO:0000255|PROSITE-ProRule:PRU00031}.	Reactive bond. {ECO:0000250}.			cellular component movement (GO:0006928)|negative regulation of endopeptidase activity (GO:0010951)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)	endopeptidase inhibitor activity (GO:0004866)|serine-type endopeptidase inhibitor activity (GO:0004867)			large_intestine(2)|lung(1)|ovary(1)	4	all_cancers(60;6.83e-07)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GCAGATGCCGGGCCTCCATGC	0.562																																																0													170	144	153					19																	38774304		2203	4300	6503	SO:0001819	synonymous_variant	10653			U78095	CCDS12510.1, CCDS54261.1	19q13.2	2010-05-12	2005-08-17		ENSG00000167642	ENSG00000167642			11247	protein-coding gene	gene with protein product	"placental bikunin"	605124	"serine protease inhibitor, Kunitz type, 2"			9115294, 9346890	Standard	NM_021102		Approved	Kop, HAI-2	uc002ohr.2	O43291		ENST00000301244.7:c.144G>T	19.37:g.38774304G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K667|B4DLU1|O00271|O14895|Q5TZQ3|Q969E0	Silent	SNP	ENST00000301244.7	37	CCDS12510.1																																																																																				0.562	SPINT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458151.2			T	38774304	G	T	38774304	2	4	591	1	0	0	0	0	0	0	0	1	15081	1219	43	4		4	SPINT2	19	38774304	Silent	SNP	G	TCGA-G7-6795-01A-11D-1961-08	14464067	38774304	20354679	74	35244										
CYP2S1	29785	broad.mit.edu	37	chr19	41712375	41712375	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	cgtcccactgaccttcactcCaccacgcagaccagatgaag	7	17	1	4			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr19:41712375C>T	ENST00000310054.4	+	9	1713	c.1497C>T	c.(1495-1497)tcC>tcT	p.S499S	CYP2S1_ENST00000542619.1_Silent_p.S224S	NM_030622.6	NP_085125.1	Q96SQ9	CP2S1_HUMAN	cytochrome P450, family 2, subfamily S, polypeptide 1	499					small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)	aromatase activity (GO:0070330)|heme binding (GO:0020037)|iron ion binding (GO:0005506)			breast(1)|endometrium(3)|large_intestine(3)|lung(5)|skin(2)	14						ACCTTCACTCCACCACGCAGA	0.607																																																0													99	92	95					19																	41712375		2203	4300	6503	SO:0001819	synonymous_variant	29785			AA301039	CCDS12573.1	19q13.2	2013-11-11	2003-01-14		ENSG00000167600	ENSG00000167600		"Cytochrome P450s"	15654	protein-coding gene	gene with protein product		611529	"cytochrome P450, subfamily IIS, polypeptide 1"			11181079	Standard	NM_030622		Approved		uc002opw.3	Q96SQ9	OTTHUMG00000182721	ENST00000310054.4:c.1497C>T	19.37:g.41712375C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BZ66	Silent	SNP	ENST00000310054.4	37	CCDS12573.1																																																																																				0.607	CYP2S1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463287.1			T	41712375	C	T	41712375	2	4	591	1	0	0	0	0	0	0	0	1	4176	581	21	2		2	CYP2S1	19	41712375	Silent	SNP	C	TCGA-G7-6795-01A-11D-1961-08	2938071	41712375	17416608	75	35245										
ZNF471	57573	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	57037032	57037032	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	cagagatcacaccttgcccaAcatcagaaaactcatacagg	6	13	3	2			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr19:57037032A>G	ENST00000308031.5	+	5	1729	c.1596A>G	c.(1594-1596)caA>caG	p.Q532Q	ZNF471_ENST00000591537.1_3'UTR|ZNF471_ENST00000593197.1_Intron	NM_020813.2	NP_065864.2	Q9BX82	ZN471_HUMAN	zinc finger protein 471	532					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(12)|liver(2)|lung(8)|ovary(1)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	36		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0307)		ACCTTGCCCAACATCAGAAAA	0.398																																					Colon(65;957 1402 6678 10163)|Esophageal Squamous(159;2295 2541 15408 21211)											0													105	111	109					19																	57037032		2203	4300	6503	SO:0001819	synonymous_variant	57573			AB037817	CCDS12945.1	19q13.43	2013-01-08				ENSG00000196263		"Zinc fingers, C2H2-type", "-"	23226	protein-coding gene	gene with protein product						10718198	Standard	NM_020813		Approved	KIAA1396, Z1971	uc002qnh.3	Q9BX82		ENST00000308031.5:c.1596A>G	19.37:g.57037032A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DF32|O75260|Q08AD6|Q08AD7|Q8N3V1|Q9P2F1	Silent	SNP	ENST00000308031.5	37	CCDS12945.1																																																																																				0.398	ZNF471-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458405.1	NM_020813		G	57037032	A	G	57037032	2	3	591	1	0	0	0	0	0	0	0	1	17942	40	2	3		3	ZNF471	19	57037032	Silent	SNP	A	TCGA-G7-6795-01A-11D-1961-08	15324657	57037032	2091951	76	35246										
RALGAPA2	57186	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	20491913	20491913	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	cataccactggcgggagtccAaatttttcagctctctcaat	7	12	3	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr20:20491913A>T	ENST00000202677.7	-	33	4920	c.4913T>A	c.(4912-4914)tTg>tAg	p.L1638*		NM_020343.3	NP_065076.2	Q2PPJ7	RGPA2_HUMAN	Ral GTPase activating protein, alpha subunit 2 (catalytic)	1638	Rap-GAP. {ECO:0000255|PROSITE- ProRule:PRU00165}.				activation of Ral GTPase activity (GO:0032859)|membrane organization (GO:0061024)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|plasma membrane (GO:0005886)	protein heterodimerization activity (GO:0046982)|Ral GTPase activator activity (GO:0017123)			endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(6)|liver(1)|lung(25)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	54						GCGGGAGTCCAAATTTTTCAG	0.328																																																0													33	31	32					20																	20491913		1795	4058	5853	SO:0001587	stop_gained	57186			AL078634, DQ310704	CCDS46584.1	20p11.23	2009-09-09	2009-09-09	2009-09-09	ENSG00000188559	ENSG00000188559			16207	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 74"	C20orf74		16490346, 19520869	Standard	NM_020343		Approved	dJ1049G11.4, AS250, KIAA1272, RapGAPalpha2	uc002wrz.3	Q2PPJ7	OTTHUMG00000032010	ENST00000202677.7:c.4913T>A	20.37:g.20491913A>T	ENSP00000202677:p.Leu1638*	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VXU6|Q5JUA3|Q5JUA4|Q5T9K3|Q96CX9|Q9BQT7|Q9H9D9|Q9ULE8	Nonsense_Mutation	SNP	ENST00000202677.7	37	CCDS46584.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	47|47	13.108967|13.108967	0.99720|0.99720	.|.	.|.	ENSG00000188559|ENSG00000188559	ENST00000417022;ENST00000202677|ENST00000430436;ENST00000427175	.|.	.|.	.|.	5.51|5.51	5.51|5.51	0.81932|0.81932	.|.	0.000000|.	0.64402|.	D|.	0.000002|.	.|T	.|0.71298	.|0.3323	.|.	.|.	.|.	0.80722|0.80722	A|A	1|1	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.73978	.|-0.3812	.|3	0.02654|.	T|.	1|.	.|.	15.6215|15.6215	0.76810|0.76810	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	.|.	.|.	.|.	X|R	68;1638|1455;49	.|.	ENSP00000202677:L1638X|.	L|W	-|-	2|1	0|0	RALGAPA2|RALGAPA2	20439913|20439913	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.927000|0.927000	0.56198|0.56198	9.273000|9.273000	0.95719|0.95719	2.093000|2.093000	0.63338|0.63338	0.460000|0.460000	0.39030|0.39030	TTG|TGG		0.328	RALGAPA2-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000471941.1	NM_020343		T	20491913	A	T	20491913	4	4	591	1	0	0	0	0	0	1	0	0	13027	131	5	5	736	5	RALGAPA2	20	20491913	Nonsense_Mutation	SNP	A	TCGA-G7-6795-01A-11D-1961-08		20491913	42533607	77	35247										
SSTR4	6754	broad.mit.edu	37	chr20	23017198	23017198	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	gcaaaggtggggcagggtgcAtgtgccccccactcccctgc	14	15	0	0			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr20:23017198A>T	ENST00000255008.3	+	1	1142	c.1078A>T	c.(1078-1080)Atg>Ttg	p.M360L	RP4-753D10.3_ENST00000440921.1_RNA	NM_001052.2	NP_001043.2	P31391	SSR4_HUMAN	somatostatin receptor 4	360					arachidonic acid metabolic process (GO:0019369)|cell migration (GO:0016477)|cellular response to glucocorticoid stimulus (GO:0071385)|forebrain development (GO:0030900)|G-protein coupled receptor signaling pathway (GO:0007186)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|negative regulation of cAMP metabolic process (GO:0030815)|negative regulation of cell proliferation (GO:0008285)|positive regulation of MAPK cascade (GO:0043410)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	somatostatin receptor activity (GO:0004994)			breast(1)|central_nervous_system(2)|endometrium(6)|kidney(1)|large_intestine(4)|lung(16)|ovary(1)|upper_aerodigestive_tract(1)	32	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GGCAGGGTGCATGTGCCCCCC	0.657																																					Esophageal Squamous(15;850 1104 16640)											0													37	43	41					20																	23017198		2127	4243	6370	SO:0001583	missense	6754				CCDS42856.1	20p11.21	2014-07-11			ENSG00000132671	ENSG00000132671		"GPCR / Class A : Somatostatin receptors"	11333	protein-coding gene	gene with protein product		182454				8483934	Standard	NM_001052		Approved		uc002wsr.2	P31391	OTTHUMG00000032054	ENST00000255008.3:c.1078A>T	20.37:g.23017198A>T	ENSP00000255008:p.Met360Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RM1|Q17RM3|Q9UIY1	Missense_Mutation	SNP	ENST00000255008.3	37	CCDS42856.1	.	.	.	.	.	.	.	.	.	.	A	0.199	-1.046780	0.01997	.	.	ENSG00000132671	ENST00000255008	T	0.63417	-0.04	3.65	1.32	0.21799	.	0.550833	0.15820	U	0.243030	T	0.40595	0.1123	N	0.22421	0.69	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.16630	-1.0396	10	0.27785	T	0.31	.	4.5158	0.11934	0.7291:0.0:0.0996:0.1712	.	360	P31391	SSR4_HUMAN	L	360	ENSP00000255008:M360L	ENSP00000255008:M360L	M	+	1	0	SSTR4	22965198	0.032000	0.19561	0.019000	0.16419	0.020000	0.10135	0.547000	0.23299	0.047000	0.15862	-0.250000	0.11733	ATG		0.657	SSTR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078308.1			T	23017198	A	T	23017198	3	4	591	1	0	0	0	0	1	0	0	0	15212	217	8	5	1080	5	SSTR4	20	23017198	Missense_Mutation	SNP	A	TCGA-G7-6795-01A-11D-1961-08	2525285	23017198	40008322	78	35248										
C20orf70	140683	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	31761923	31761923	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	cctcatcctggatgtcaaagCtgaaccgatcgatgatggca	10	11	2	2			TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr20:31761923C>T	ENST00000253362.2	+	4	487	c.341C>T	c.(340-342)gCt>gTt	p.A114V	BPIFA2_ENST00000354932.5_Missense_Mutation_p.A114V			Q96DR5	BPIA2_HUMAN	BPI fold containing family A, member 2	114						extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	lipopolysaccharide binding (GO:0001530)										GATGTCAAAGCTGAACCGATC	0.507																																																0													192	132	152					20																	31761923		2203	4300	6503	SO:0001583	missense	140683			AF432917	CCDS13214.1	20q11.21	2011-08-04	2011-07-29	2011-07-29	ENSG00000131050	ENSG00000131050		"BPI fold containing"	16203	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 70"	C20orf70		11971875	Standard	NM_080574		Approved	bA49G10.1, SPLUNC2, PSP	uc002wyo.1	Q96DR5	OTTHUMG00000032244	ENST00000253362.2:c.341C>T	20.37:g.31761923C>T	ENSP00000253362:p.Ala114Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BQQ0	Missense_Mutation	SNP	ENST00000253362.2	37	CCDS13214.1	.	.	.	.	.	.	.	.	.	.	C	1.293	-0.607118	0.03717	.	.	ENSG00000131050	ENST00000253362;ENST00000354932	T;T	0.04758	3.56;3.56	4.11	-1.34	0.09143	.	1.919610	0.02314	N	0.072384	T	0.03520	0.0101	N	0.20685	0.6	0.09310	N	1	P	0.39862	0.692	B	0.42692	0.395	T	0.35276	-0.9795	10	0.02654	T	1	-22.3913	3.4184	0.07384	0.1782:0.4121:0.0:0.4097	.	114	Q96DR5	BPIA2_HUMAN	V	114	ENSP00000253362:A114V;ENSP00000347012:A114V	ENSP00000253362:A114V	A	+	2	0	BPIFA2	31225584	0.000000	0.05858	0.000000	0.03702	0.009000	0.06853	-1.978000	0.01494	-0.194000	0.10399	0.561000	0.74099	GCT		0.507	BPIFA2-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257117.1	NM_080574		T	31761923	C	T	31761923	3	4	591	1	0	0	0	0	1	0	0	0	2118	797	28	2	351	2	C20orf70	20	31761923	Missense_Mutation	SNP	C	TCGA-G7-6795-01A-11D-1961-08	8744725	31761923	31263597	79	35249										
BCR	613	ucsc.edu	37	chr22	23656859	23656859	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0641025641025641	5	1	1.29834254143646	1.29834254143646	1.29834254143646	0.242424242424242	1	0	cctgccaaccccagccagccTatcaccatgactgacagctg	7	18	1	2	rs55715766	byFrequency	TCGA-G7-6795-01A-11D-1961-08	TCGA-G7-6795-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	1af4c17e-514e-4b9d-bfcb-ed019430178f	0428b3c1-9f63-45bc-8457-3fffb9bcf9fb	g.chr22:23656859T>A	ENST00000305877.8	+	22	4435	c.3684T>A	c.(3682-3684)ccT>ccA	p.P1228P	BCR_ENST00000359540.3_Silent_p.P1184P|BCR_ENST00000436990.2_3'UTR	NM_004327.3	NP_004318.3	P11274	BCR_HUMAN	breakpoint cluster region	1228	Rho-GAP. {ECO:0000255|PROSITE- ProRule:PRU00172}.				actin cytoskeleton organization (GO:0030036)|brain development (GO:0007420)|inner ear morphogenesis (GO:0042472)|negative regulation of cell migration (GO:0030336)|negative regulation of inflammatory response (GO:0050728)|negative regulation of neutrophil degranulation (GO:0043314)|neuromuscular process controlling balance (GO:0050885)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of phagocytosis (GO:0050766)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of cell cycle (GO:0051726)|regulation of small GTPase mediated signal transduction (GO:0051056)|response to lipopolysaccharide (GO:0032496)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	ATP binding (GO:0005524)|GTPase activator activity (GO:0005096)|kinase activity (GO:0016301)|protein serine/threonine kinase activity (GO:0004674)|protein tyrosine kinase activity (GO:0004713)|Rac GTPase activator activity (GO:0030675)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)		BCR/JAK2(6)	central_nervous_system(3)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(9)|ovary(1)|prostate(1)|skin(4)|stomach(1)|urinary_tract(1)	35					Bosutinib(DB06616)|Ponatinib(DB08901)	CCAGCCAGCCTATCACCATGA	0.612			T	"ABL1,  FGFR1, JAK2 "	"CML, ALL, AML"																																		Dom	yes		22	22q11.21	613	breakpoint cluster region		L	0													45	36	39					22																	23656859		2203	4296	6499	SO:0001819	synonymous_variant	613				CCDS13806.1, CCDS13807.1	22q11	2013-01-10			ENSG00000186716	ENSG00000186716		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	1014	protein-coding gene	gene with protein product		151410		D22S11, BCR1		1657398, 18070886	Standard	NM_004327		Approved	D22S662, CML, PHL, ALL	uc002zww.3	P11274	OTTHUMG00000150655	ENST00000305877.8:c.3684T>A	22.37:g.23656859T>A		Somatic		WXS	Illumina HiSeq		P78501|Q12842|Q4LE80|Q6NZI3	Silent	SNP	ENST00000305877.8	37	CCDS13806.1																																																																																				0.612	BCR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075819.1	NM_004327		A	23656859	T	A	23656859	2	1	591	1	0	0	0	0	0	0	0	1	1388	1509	53	5		5	BCR	22	23656859	Silent	SNP	T	TCGA-G7-6795-01A-11D-1961-08		23656859	27647707	80	35250										
RPL22	6146	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	6246873	6246873	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tttttggtgagatatttcaaAtacctgcagagaaaggacac	9	6	1	2			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr1:6246873A>T	ENST00000234875.4	-	4	284	c.246T>A	c.(244-246)taT>taA	p.Y82*	RPL22_ENST00000484532.1_Intron|RPL22_ENST00000497965.1_Nonsense_Mutation_p.Y49*	NM_000983.3	NP_000974.1	P35268	RL22_HUMAN	ribosomal protein L22	82					alpha-beta T cell differentiation (GO:0046632)|cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	heparin binding (GO:0008201)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|structural constituent of ribosome (GO:0003735)			kidney(1)|large_intestine(2)|lung(2)|skin(1)	6	Ovarian(185;0.0634)	all_cancers(23;2.78e-38)|all_epithelial(116;8.88e-22)|all_lung(118;7.95e-08)|Lung NSC(185;1.6e-06)|all_neural(13;3.18e-06)|all_hematologic(16;8.99e-06)|Acute lymphoblastic leukemia(12;0.000365)|Breast(487;0.000496)|Renal(390;0.0007)|Colorectal(325;0.00104)|Glioma(11;0.00203)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)|Medulloblastoma(700;0.211)		Epithelial(90;4.53e-38)|GBM - Glioblastoma multiforme(13;3.33e-32)|OV - Ovarian serous cystadenocarcinoma(86;2.8e-19)|Colorectal(212;6.8e-08)|COAD - Colon adenocarcinoma(227;8.04e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|BRCA - Breast invasive adenocarcinoma(365;0.00107)|STAD - Stomach adenocarcinoma(132;0.00311)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.182)		GATATTTCAAATACCTGCAGA	0.358			T	RUNX1	"AML, CML"																																		Dom	yes		1	1p36.31	6146	ribosomal protein L22 (EAP)		L	0													46	47	46					1																	6246873		2202	4300	6502	SO:0001587	stop_gained	6146			BC058887	CCDS58.1	1p36.31	2011-04-06			ENSG00000116251	ENSG00000116251		"L ribosomal proteins"	10315	protein-coding gene	gene with protein product		180474				8395054	Standard	NM_000983		Approved	EAP, L22	uc001amd.3	P35268	OTTHUMG00000000953	ENST00000234875.4:c.246T>A	1.37:g.6246873A>T	ENSP00000346088:p.Tyr82*	Somatic		WXS	Illumina HiSeq	Phase_I	B2R495|Q6IBD1	Nonsense_Mutation	SNP	ENST00000234875.4	37	CCDS58.1	.	.	.	.	.	.	.	.	.	.	A	22.4	4.279556	0.80692	.	.	ENSG00000116251	ENST00000234875	.	.	.	5.43	4.31	0.51392	.	0.122602	0.56097	D	0.000023	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	2.2758	7.3535	0.26706	0.7815:0.0:0.2185:0.0	.	.	.	.	X	82	.	ENSP00000346088:Y82X	Y	-	3	2	RPL22	6169460	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	2.692000	0.47018	0.906000	0.36621	0.379000	0.24179	TAT		0.358	RPL22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000002830.1	NM_000983		T	6246873	A	T	6246873	4	4	592	1	0	0	0	0	0	1	0	0	13581	108	4	5	144	5	RPL22	1	6246873	Nonsense_Mutation	SNP	A	TCGA-G7-6796-01A-11D-1961-08		6246873	243003748	1	35251										
KIF1B	23095	broad.mit.edu	37	chr1	10352150	10352150	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	gttgccattcgggaagatggAggaaccctaggggttttctc	14	8	1	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr1:10352150A>G	ENST00000377086.1	+	17	1762	c.1560A>G	c.(1558-1560)ggA>ggG	p.G520G	KIF1B_ENST00000377083.1_Silent_p.G474G|KIF1B_ENST00000377081.1_Silent_p.G520G|KIF1B_ENST00000377093.4_Silent_p.G474G|KIF1B_ENST00000263934.6_Silent_p.G474G			O60333	KIF1B_HUMAN	kinesin family member 1B	520					anterograde axon cargo transport (GO:0008089)|apoptotic process (GO:0006915)|cytoskeleton-dependent intracellular transport (GO:0030705)|microtubule-based movement (GO:0007018)|mitochondrion transport along microtubule (GO:0047497)|neuromuscular synaptic transmission (GO:0007274)|neuron-neuron synaptic transmission (GO:0007270)|vesicle-mediated transport (GO:0016192)	cytoplasmic vesicle (GO:0031410)|cytoplasmic vesicle membrane (GO:0030659)|kinesin complex (GO:0005871)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|kinesin binding (GO:0019894)|microtubule motor activity (GO:0003777)|plus-end-directed microtubule motor activity (GO:0008574)			breast(2)|endometrium(7)|kidney(8)|large_intestine(9)|lung(29)|ovary(3)|prostate(3)|skin(5)|stomach(3)|upper_aerodigestive_tract(2)	71	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)		GGGAAGATGGAGGAACCCTAG	0.408																																																0													126	134	131					1																	10352150		2203	4300	6503	SO:0001819	synonymous_variant	23095			AF257176	CCDS111.1, CCDS112.1	1p36.22	2014-09-17			ENSG00000054523	ENSG00000054523		"Kinesins", "Pleckstrin homology (PH) domain containing"	16636	protein-coding gene	gene with protein product		605995		CMT2A, CMT2		11389829, 10762626	Standard	NM_015074		Approved	KIAA0591, KLP, HMSNII	uc001aqw.4	O60333	OTTHUMG00000001817	ENST00000377086.1:c.1560A>G	1.37:g.10352150A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NFS8|A6NKQ4|Q4VXC3|Q4VXC4|Q4VXC5|Q4VXC6|Q96Q94|Q9BV80|Q9P280	Silent	SNP	ENST00000377086.1	37																																																																																					0.408	KIF1B-001	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000005102.1			G	10352150	A	G	10352150	2	3	592	1	0	0	0	0	0	0	0	1	8291	291	11	3		3	KIF1B	1	10352150	Silent	SNP	A	TCGA-G7-6796-01A-11D-1961-08	4105277	10352150	238898471	2	35252										
ARID1A	8289	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	27094329	27094329	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	agaagatcaccaagttgtatGagctgggtggtgagcctgag	15	6	1	5			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr1:27094329G>A	ENST00000324856.7	+	11	3408	c.3037G>A	c.(3037-3039)Gag>Aag	p.E1013K	ARID1A_ENST00000457599.2_Missense_Mutation_p.E1013K|ARID1A_ENST00000374152.2_Missense_Mutation_p.E630K	NM_006015.4	NP_006006.3	O14497	ARI1A_HUMAN	AT rich interactive domain 1A (SWI-like)	1013					androgen receptor signaling pathway (GO:0030521)|ATP-dependent chromatin remodeling (GO:0043044)|cardiac chamber development (GO:0003205)|chromatin remodeling (GO:0006338)|chromatin-mediated maintenance of transcription (GO:0048096)|forebrain development (GO:0030900)|glucocorticoid receptor signaling pathway (GO:0042921)|intracellular estrogen receptor signaling pathway (GO:0030520)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neural tube closure (GO:0001843)|nucleosome disassembly (GO:0006337)|nucleosome mobilization (GO:0042766)|optic cup formation involved in camera-type eye development (GO:0003408)|placenta blood vessel development (GO:0060674)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|SWI/SNF complex (GO:0016514)	DNA binding (GO:0003677)|ligand-dependent nuclear receptor binding (GO:0016922)|transcription coactivator activity (GO:0003713)		ARID1A/MAST2_ENST00000361297(2)	NS(1)|autonomic_ganglia(1)|biliary_tract(1)|breast(13)|central_nervous_system(6)|cervix(2)|endometrium(56)|haematopoietic_and_lymphoid_tissue(8)|kidney(10)|large_intestine(41)|liver(31)|lung(34)|ovary(130)|pancreas(18)|prostate(8)|skin(9)|stomach(14)|upper_aerodigestive_tract(4)|urinary_tract(24)	411		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)		CAAGTTGTATGAGCTGGGTGG	0.488			"Mis, N, F, S, D"		"clear cell ovarian carcinoma, RCC"																																		Rec	yes		1	1p35.3	8289	AT rich interactive domain 1A (SWI-like)		E	0													146	122	130					1																	27094329		2203	4300	6503	SO:0001583	missense	8289			AB001895	CCDS285.1, CCDS44091.1	1p36.1-p35	2014-09-17	2006-11-08	2004-01-30	ENSG00000117713	ENSG00000117713		"-"	11110	protein-coding gene	gene with protein product		603024	"SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily f, member 1", "AT rich interactive domain 1A (SWI- like)"	C1orf4, SMARCF1		9630625, 9434167	Standard	NM_139135		Approved	B120, P270, C10rf4, BAF250, BAF250a	uc001bmv.1	O14497	OTTHUMG00000004004	ENST00000324856.7:c.3037G>A	1.37:g.27094329G>A	ENSP00000320485:p.Glu1013Lys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPL1|Q53FK9|Q5T0W1|Q5T0W2|Q5T0W3|Q8NFD6|Q96T89|Q9BY33|Q9HBJ5|Q9UPZ1	Missense_Mutation	SNP	ENST00000324856.7	37	CCDS285.1	.	.	.	.	.	.	.	.	.	.	G	36	5.703514	0.96812	.	.	ENSG00000117713	ENST00000324856;ENST00000457599;ENST00000374152	T;T;T	0.46819	0.86;0.86;0.86	5.17	5.17	0.71159	ARID/BRIGHT DNA-binding domain (2);	0.049842	0.85682	D	0.000000	T	0.64886	0.2639	L	0.59436	1.845	0.80722	D	1	D;D;D	0.67145	0.995;0.996;0.993	D;D;P	0.65323	0.909;0.934;0.861	T	0.64601	-0.6369	10	0.51188	T	0.08	-14.8758	18.8566	0.92255	0.0:0.0:1.0:0.0	.	1013;1013;667	O14497;O14497-2;Q4LE49	ARI1A_HUMAN;.;.	K	1013;1013;630	ENSP00000320485:E1013K;ENSP00000387636:E1013K;ENSP00000363267:E630K	ENSP00000320485:E1013K	E	+	1	0	ARID1A	26966916	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.657000	0.98554	2.678000	0.91216	0.655000	0.94253	GAG		0.488	ARID1A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000011437.2	NM_139135		A	27094329	G	A	27094329	3	1	592	1	0	0	0	0	1	0	0	0	913	1291	45	2	3079	2	ARID1A	1	27094329	Missense_Mutation	SNP	G	TCGA-G7-6796-01A-11D-1961-08	16742179	27094329	222156292	3	35253										
PDE4DIP	9659	hgsc.bcm.edu;broad.mit.edu	37	chr1	144856892	144856892	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ctatctttttgaccagcagcTtgccctccgcaatctgctgt	7	14	2	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr1:144856892T>C	ENST00000369354.3	-	40	6782	c.6593A>G	c.(6592-6594)aAg>aGg	p.K2198R	RP4-791M13.4_ENST00000532137.1_RNA|PDE4DIP_ENST00000524974.1_5'UTR|PDE4DIP_ENST00000369356.4_Missense_Mutation_p.K2198R|PDE4DIP_ENST00000313382.9_Missense_Mutation_p.K2092R|PDE4DIP_ENST00000369359.4_Missense_Mutation_p.K2334R|PDE4DIP_ENST00000530740.1_Missense_Mutation_p.K2283R			Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein	2198					cellular protein complex assembly (GO:0043623)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|myofibril (GO:0030016)|nucleus (GO:0005634)	enzyme binding (GO:0019899)			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(12)|lung(106)|ovary(8)|prostate(7)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	176				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GACCAGCAGCTTGCCCTCCGC	0.517			T	PDGFRB	MPD																																		Dom	yes		1	1q12	9659	phosphodiesterase 4D interacting protein (myomegalin)		L	0													38	34	35					1																	144856892		2193	4248	6441	SO:0001583	missense	9659			AB007923, AB007946	CCDS72887.1, CCDS72888.1, CCDS72889.1, CCDS72890.1, CCDS72891.1, CCDS72892.1, CCDS72893.1, CCDS72894.1	1q21.1	2008-07-31	2008-07-31		ENSG00000178104	ENSG00000178104			15580	protein-coding gene	gene with protein product	"myomegalin"	608117	"cardiomyopathy associated 2"	CMYA2		9455484, 11134006	Standard	NM_022359		Approved	KIAA0477, KIAA0454, MMGL	uc021ouh.1	Q5VU43	OTTHUMG00000013846	ENST00000369354.3:c.6593A>G	1.37:g.144856892T>C	ENSP00000358360:p.Lys2198Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU15|O75042|O75065|Q2YDC1|Q5VU42|Q5VU44|Q5VU45|Q5VU46|Q5VU47|Q5VU48|Q5VU49|Q68DU2|Q6AZ93|Q6PK88|Q86T40|Q86TB2|Q8N3W0|Q8TAY9|Q9HCP2|Q9HCP3|Q9HCP4|Q9HCP5	Missense_Mutation	SNP	ENST00000369354.3	37	CCDS30824.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	6.042|6.042	0.376140|0.376140	0.11466|0.11466	.|.	.|.	ENSG00000178104|ENSG00000178104	ENST00000313382;ENST00000369354;ENST00000369356;ENST00000530740;ENST00000369359|ENST00000530130	T;T;T;T;T|.	0.01430|.	4.9;5.03;5.06;4.99;5.01|.	4.52|4.52	-2.16|-2.16	0.07080|0.07080	.|.	.|.	.|.	.|.	.|.	T|T	0.12220|0.12220	0.0297|0.0297	L|L	0.33339|0.33339	1.005|1.005	0.09310|0.09310	N|N	1|1	B;B|.	0.13594|.	0.001;0.008|.	B;B|.	0.11329|.	0.003;0.006|.	T|T	0.33879|0.33879	-0.9851|-0.9851	8|5	.|.	.|.	.|.	.|.	5.6438|5.6438	0.17579|0.17579	0.0:0.2482:0.1388:0.613|0.0:0.2482:0.1388:0.613	.|.	2092;2198|.	Q5VU43-3;Q5VU43|.	.;MYOME_HUMAN|.	R|G	2092;2198;2198;2283;2334|275	ENSP00000327209:K2092R;ENSP00000358360:K2198R;ENSP00000358363:K2198R;ENSP00000435654:K2283R;ENSP00000358366:K2334R|.	.|.	K|S	-|-	2|1	0|0	PDE4DIP|PDE4DIP	143568249|143568249	0.003000|0.003000	0.15002|0.15002	0.837000|0.837000	0.33122|0.33122	0.007000|0.007000	0.05969|0.05969	0.773000|0.773000	0.26661|0.26661	-0.611000|-0.611000	0.05709|0.05709	-0.475000|-0.475000	0.04921|0.04921	AAG|AGC		0.517	PDE4DIP-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000038858.2	NM_022359		C	144856892	T	C	144856892	3	2	592	1	0	0	0	0	1	0	0	0	11650	1609	56	3	467	3	PDE4DIP	1	144856892	Missense_Mutation	SNP	T	TCGA-G7-6796-01A-11D-1961-08	117762563	144856892	104393729	4	35254										
SEC22B	9554	broad.mit.edu	37	chr1	145112418	145112418	+	RNA	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	gctctacattgacagttgtgCtcgaagaaacctaggctcca	9	11	1	2			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr1:145112418C>G	ENST00000453618.1	+	0	719							O75396	SC22B_HUMAN	SEC22 vesicle trafficking protein homolog B (S. cerevisiae) (gene/pseudogene)						ER to Golgi vesicle-mediated transport (GO:0006888)|protein transport (GO:0015031)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)											GACAGTTGTGCTCGAAGAAAC	0.418																																																0													155	139	144					1																	145112418		2068	4212	6280			9554			AF047442		1q21.1	2012-04-20	2010-03-12	2006-04-25	ENSG00000223380				10700	protein-coding gene	gene with protein product		604029	"SEC22, vesicle trafficking protein (S. cerevisiae)-like 1", "SEC22 vesicle trafficking protein-like 1 (S. cerevisiae)", "SEC22 vesicle trafficking protein homolog B (S. cerevisiae)"	SEC22L1		9094723, 16354670	Standard	NM_004892		Approved	sec22b, ERS-24	uc031poa.1	O75396	OTTHUMG00000013745		1.37:g.145112418C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1G0	Missense_Mutation	SNP	ENST00000453618.1	37																																																																																					0.418	SEC22B-001	KNOWN	basic	processed_transcript	processed_transcript	OTTHUMT00000038523.5	NM_004892		G	145112418	C	G	145112418	1	3	592	0	1	0	0	0	0	0	0	0	14002	797	28	4		4	SEC22B	1	145112418	RNA	SNP	C	TCGA-G7-6796-01A-11D-1961-08	255526	145112418	104138203	5	35255										
ADAR	103	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	154574720	154574720	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	cctgatcttggtagatactcAgttcctggaaatgtgaggaa	11	7	2	3			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr1:154574720A>T	ENST00000368474.4	-	2	597	c.398T>A	c.(397-399)cTg>cAg	p.L133Q	ADAR_ENST00000368471.3_5'UTR|ADAR_ENST00000471068.1_5'UTR|ADAR_ENST00000292205.5_Missense_Mutation_p.L176Q	NM_001111.4|NM_015840.3|NM_015841.3	NP_001102|NP_056655.2|NP_056656.2	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific	133					adenosine to inosine editing (GO:0006382)|base conversion or substitution editing (GO:0016553)|cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|gene expression (GO:0010467)|in utero embryonic development (GO:0001701)|innate immune response (GO:0045087)|miRNA loading onto RISC involved in gene silencing by miRNA (GO:0035280)|mRNA modification (GO:0016556)|mRNA processing (GO:0006397)|negative regulation of apoptotic process (GO:0043066)|negative regulation of protein kinase activity by regulation of protein phosphorylation (GO:0044387)|negative regulation of viral genome replication (GO:0045071)|positive regulation of viral genome replication (GO:0045070)|pre-miRNA processing (GO:0031054)|protein export from nucleus (GO:0006611)|protein import into nucleus (GO:0006606)|response to interferon-alpha (GO:0035455)|response to virus (GO:0009615)|type I interferon signaling pathway (GO:0060337)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|supraspliceosomal complex (GO:0044530)	DNA binding (GO:0003677)|double-stranded RNA adenosine deaminase activity (GO:0003726)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(9)|lung(20)|ovary(4)|prostate(2)|skin(2)	51	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		GTAGATACTCAGTTCCTGGAA	0.517																																																0													65	67	66					1																	154574720		2203	4300	6503	SO:0001583	missense	103			BC038227	CCDS1071.1, CCDS30879.1	1q21.3	2012-03-22			ENSG00000160710	ENSG00000160710	3.5.4.-		225	protein-coding gene	gene with protein product		146920	"interferon-induced protein 4"	IFI4, G1P1		7972084	Standard	NM_001111		Approved	ADAR1	uc001ffh.3	P55265	OTTHUMG00000037261	ENST00000368474.4:c.398T>A	1.37:g.154574720A>T	ENSP00000357459:p.Leu133Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B1AQQ9|B1AQR0|D3DV76|O15223|O43859|O43860|Q9BYM3|Q9BYM4	Missense_Mutation	SNP	ENST00000368474.4	37	CCDS1071.1	.	.	.	.	.	.	.	.	.	.	A	18.97	3.736498	0.69304	.	.	ENSG00000160710	ENST00000292205;ENST00000368474;ENST00000529168	T;T;T	0.79749	-1.3;-1.3;-1.3	4.47	4.47	0.54385	Winged helix-turn-helix transcription repressor DNA-binding (1);Double-stranded RNA-specific adenosine deaminase (DRADA) (2);	0.910334	0.09504	N	0.793175	D	0.86008	0.5830	M	0.63843	1.955	0.53688	D	0.999979	D;D;D	0.89917	0.998;1.0;0.999	D;D;D	0.85130	0.972;0.992;0.997	D	0.83933	0.0307	10	0.87932	D	0	-11.1093	13.8697	0.63610	1.0:0.0:0.0:0.0	.	133;133;133	P55265-3;P55265-2;P55265	.;.;DSRAD_HUMAN	Q	176;133;128	ENSP00000292205:L176Q;ENSP00000357459:L133Q;ENSP00000431794:L128Q	ENSP00000292205:L176Q	L	-	2	0	ADAR	152841344	1.000000	0.71417	0.166000	0.22797	0.666000	0.39218	6.906000	0.75719	1.992000	0.58205	0.402000	0.26972	CTG		0.517	ADAR-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000090691.2	NM_001111		T	154574720	A	T	154574720	3	4	592	1	0	0	0	0	1	0	0	0	281	188	7	5	3338	5	ADAR	1	154574720	Missense_Mutation	SNP	A	TCGA-G7-6796-01A-11D-1961-08	9462302	154574720	94675901	6	35256										
FCRL4	83417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	157559028	157559028	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	aagcgcacagggttacttcgTggggagccccgggcctggca	16	12	0	0			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr1:157559028T>C	ENST00000271532.1	-	3	408	c.273A>G	c.(271-273)ccA>ccG	p.P91P	FCRL4_ENST00000448509.2_5'UTR	NM_031282.2	NP_112572.1	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4	91	Ig-like C2-type 1.				immune system process (GO:0002376)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(2)|central_nervous_system(2)|endometrium(1)|kidney(3)|large_intestine(5)|lung(20)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	40	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)				GGTTACTTCGTGGGGAGCCCC	0.498																																																0													74	79	77					1																	157559028		2203	4300	6503	SO:0001819	synonymous_variant	83417			AF343661	CCDS1166.1	1q21	2013-01-14			ENSG00000163518	ENSG00000163518		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	18507	protein-coding gene	gene with protein product		605876				11290337, 11493702	Standard	NM_031282		Approved	FCRH4, IRTA1, IGFP2, CD307d	uc001fqw.3	Q96PJ5	OTTHUMG00000035488	ENST00000271532.1:c.273A>G	1.37:g.157559028T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q96PJ3|Q96RE0	Silent	SNP	ENST00000271532.1	37	CCDS1166.1																																																																																				0.498	FCRL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086180.1	NM_031282		C	157559028	T	C	157559028	2	2	592	1	0	0	0	0	0	0	0	1	5804	1683	59	3		3	FCRL4	1	157559028	Silent	SNP	T	TCGA-G7-6796-01A-11D-1961-08	2984308	157559028	91691593	7	35257										
MPZL1	9019	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	167745333	167745333	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	agagagtttgtcaccagttaAgcaggctcctcggaagtccc	11	11	1	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr1:167745333A>C	ENST00000359523.2	+	5	840	c.638A>C	c.(637-639)aAg>aCg	p.K213T	MPZL1_ENST00000392121.3_Intron|MPZL1_ENST00000403379.3_3'UTR|MPZL1_ENST00000474859.1_Intron	NM_003953.5|NM_024569.4	NP_003944.1|NP_078845.3	O95297	MPZL1_HUMAN	myelin protein zero-like 1	213					cell-cell signaling (GO:0007267)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cell surface (GO:0009986)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)	structural molecule activity (GO:0005198)			breast(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(4)|ovary(2)|prostate(2)	15	all_hematologic(923;0.215)					TCACCAGTTAAGCAGGCTCCT	0.413																																																0													76	74	75					1																	167745333		2203	4300	6503	SO:0001583	missense	9019			AF087020	CCDS1264.1, CCDS44273.1, CCDS53425.1	1q24.2	2013-01-11			ENSG00000197965	ENSG00000197965		"Immunoglobulin superfamily / V-set domain containing"	7226	protein-coding gene	gene with protein product		604376				9792637	Standard	NM_003953		Approved	PZR, FLJ21047	uc001geo.3	O95297	OTTHUMG00000034571	ENST00000359523.2:c.638A>C	1.37:g.167745333A>C	ENSP00000352513:p.Lys213Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2REB9|B2REC0|Q5R332|Q8IX11|Q9BWZ3|Q9NYK4|Q9UL20	Missense_Mutation	SNP	ENST00000359523.2	37	CCDS1264.1	.	.	.	.	.	.	.	.	.	.	A	22.6	4.313200	0.81358	.	.	ENSG00000197965	ENST00000359523	D	0.96365	-3.99	5.28	5.28	0.74379	.	.	.	.	.	D	0.95370	0.8497	L	0.29908	0.895	0.33196	D	0.551469	D	0.71674	0.998	D	0.78314	0.991	D	0.94904	0.8059	8	0.33141	T	0.24	.	14.4968	0.67694	1.0:0.0:0.0:0.0	.	213	O95297	MPZL1_HUMAN	T	213	ENSP00000352513:K213T	ENSP00000352513:K213T	K	+	2	0	MPZL1	166011957	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.562000	0.53777	2.307000	0.77673	0.528000	0.53228	AAG		0.413	MPZL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083655.2	NM_024569		C	167745333	A	C	167745333	3	2	592	1	0	0	0	0	1	0	0	0	9756	72	3	5	656	5	MPZL1	1	167745333	Missense_Mutation	SNP	A	TCGA-G7-6796-01A-11D-1961-08	10186305	167745333	81505288	8	35258										
CACYBP	27101	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	174979129	174979129	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ttctaaagaaaatttatgaaGatggagacgatgatatgaag	10	2	1	6			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr1:174979129G>T	ENST00000367679.2	+	6	1049	c.601G>T	c.(601-603)Gat>Tat	p.D201Y	CACYBP_ENST00000405362.1_Missense_Mutation_p.D158Y|CACYBP_ENST00000367681.2_Missense_Mutation_p.D158Y|MRPS14_ENST00000498253.1_5'Flank	NM_014412.2	NP_055227.1	Q9HB71	CYBP_HUMAN	calcyclin binding protein	201	Interaction with S100A6. {ECO:0000250}.|Interaction with SKP1.|SGS. {ECO:0000255|PROSITE- ProRule:PRU00386}.				aging (GO:0007568)|cardiac muscle cell differentiation (GO:0055007)|cellular response to calcium ion (GO:0071277)|negative regulation of cell death (GO:0060548)|positive regulation of DNA replication (GO:0045740)|response to growth hormone (GO:0060416)	beta-catenin destruction complex (GO:0030877)|cell body (GO:0044297)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|neuron projection (GO:0043005)|nuclear envelope lumen (GO:0005641)|nucleus (GO:0005634)	protein homodimerization activity (GO:0042803)			NS(1)|breast(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(1)|prostate(1)	11						AATTTATGAAGATGGAGACGA	0.383																																																0													86	85	85					1																	174979129		2203	4300	6503	SO:0001583	missense	27101			BC022352	CCDS1315.1, CCDS30942.1	1q24-q25	2008-02-05			ENSG00000116161	ENSG00000116161			30423	protein-coding gene	gene with protein product		606186				11389839, 12421809	Standard	XM_005245092		Approved	SIP, S100A6BP	uc001gkj.1	Q9HB71	OTTHUMG00000034941	ENST00000367679.2:c.601G>T	1.37:g.174979129G>T	ENSP00000356652:p.Asp201Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B2ZWH2|B3KSF1|O60666|Q5R370|Q5R371	Missense_Mutation	SNP	ENST00000367679.2	37	CCDS1315.1	.	.	.	.	.	.	.	.	.	.	G	28.1	4.891415	0.91889	.	.	ENSG00000116161	ENST00000367681;ENST00000450101;ENST00000367679;ENST00000405362	T;T	0.58060	0.36;0.36	5.89	5.89	0.94794	SGS (2);HSP20-like chaperone (1);	0.132069	0.64402	D	0.000002	T	0.68091	0.2963	M	0.79258	2.445	0.80722	D	1	P	0.48589	0.912	P	0.50791	0.65	T	0.71031	-0.4710	10	0.72032	D	0.01	-24.1569	20.2561	0.98419	0.0:0.0:1.0:0.0	.	201	Q9HB71	CYBP_HUMAN	Y	158;174;201;158	ENSP00000356654:D158Y;ENSP00000385771:D158Y	ENSP00000356652:D201Y	D	+	1	0	CACYBP	173245752	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.296000	0.96104	2.797000	0.96272	0.563000	0.77884	GAT		0.383	CACYBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084583.3	NM_014412		T	174979129	G	T	174979129	3	4	592	1	0	0	0	0	1	0	0	0	2566	942	33	4	623	4	CACYBP	1	174979129	Missense_Mutation	SNP	G	TCGA-G7-6796-01A-11D-1961-08	7233796	174979129	74271492	9	35259										
RGS16	6004	ucsc.edu	37	chr1	182569597	182569597	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	atcaaagcatgtggctgtggCagtctgcaggttcatcctcg	12	10	3	0			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr1:182569597C>T	ENST00000367558.5	-	5	587	c.439G>A	c.(439-441)Gcc>Acc	p.A147T		NM_002928.3	NP_002919.3	O15492	RGS16_HUMAN	regulator of G-protein signaling 16	147	RGS. {ECO:0000255|PROSITE- ProRule:PRU00171}.				positive regulation of GTPase activity (GO:0043547)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|termination of G-protein coupled receptor signaling pathway (GO:0038032)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	calmodulin binding (GO:0005516)|GTPase activator activity (GO:0005096)			NS(1)|endometrium(3)|large_intestine(2)|lung(4)|ovary(1)	11						GTGGCTGTGGCAGTCTGCAGG	0.587																																																0													143	111	121					1																	182569597		2203	4300	6503	SO:0001583	missense	6004			U70426	CCDS1348.1	1q25-q31	2008-02-05	2007-08-14		ENSG00000143333	ENSG00000143333		"Regulators of G-protein signaling"	9997	protein-coding gene	gene with protein product		602514	"regulator of G-protein signalling 16"			9469939	Standard	NM_002928		Approved	A28-RGS14, RGS-r	uc001gpl.4	O15492	OTTHUMG00000035212	ENST00000367558.5:c.439G>A	1.37:g.182569597C>T	ENSP00000356529:p.Ala147Thr	Somatic		WXS	Illumina HiSeq		B2R4M4|Q5VYN9|Q99701	Missense_Mutation	SNP	ENST00000367558.5	37	CCDS1348.1	.	.	.	.	.	.	.	.	.	.	C	9.805	1.181561	0.21787	.	.	ENSG00000143333	ENST00000367558	T	0.29655	1.56	5.38	3.51	0.40186	Regulator of G protein signalling (3);Regulator of G protein signalling superfamily (1);	0.156624	0.56097	N	0.000025	T	0.34716	0.0907	M	0.75615	2.305	0.19300	N	0.99998	B	0.33940	0.433	B	0.38156	0.266	T	0.17471	-1.0368	10	0.32370	T	0.25	.	9.3651	0.38219	0.0:0.6543:0.2723:0.0734	.	147	O15492	RGS16_HUMAN	T	147	ENSP00000356529:A147T	ENSP00000356529:A147T	A	-	1	0	RGS16	180836220	0.000000	0.05858	0.022000	0.16811	0.002000	0.02628	0.321000	0.19558	0.655000	0.30866	0.555000	0.69702	GCC		0.587	RGS16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085188.1	NM_002928		T	182569597	C	T	182569597	3	4	592	1	0	0	0	0	1	0	0	0	13311	710	25	2	173	2	RGS16	1	182569597	Missense_Mutation	SNP	C	TCGA-G7-6796-01A-11D-1961-08	7590468	182569597	66681024	10	35260										
NAV1	89796	hgsc.bcm.edu	37	chr1	201762968	201762968	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	gcctggtgaatatgacatccCgcctgcgacacctggcagag	12	13	0	3			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr1:201762968C>G	ENST00000367296.4	+	14	3790	c.3370C>G	c.(3370-3372)Cgc>Ggc	p.R1124G	NAV1_ENST00000367295.1_Missense_Mutation_p.R733G|NAV1_ENST00000367300.3_Missense_Mutation_p.R1067G|NAV1_ENST00000367302.1_Missense_Mutation_p.R1080G|NAV1_ENST00000469130.1_3'UTR|NAV1_ENST00000367297.4_Missense_Mutation_p.R1116G|IPO9-AS1_ENST00000413035.1_RNA|NAV1_ENST00000295624.6_Missense_Mutation_p.R1124G	NM_020443.4	NP_065176.3	Q8NEY1	NAV1_HUMAN	neuron navigator 1	1124					microtubule bundle formation (GO:0001578)|neuron migration (GO:0001764)	cytoplasm (GO:0005737)|microtubule (GO:0005874)				breast(5)|central_nervous_system(4)|endometrium(4)|haematopoietic_and_lymphoid_tissue(5)|kidney(3)|large_intestine(10)|lung(29)|ovary(4)|prostate(3)|skin(1)|stomach(2)	70						TATGACATCCCGCCTGCGACA	0.582																																																0													70	66	67					1																	201762968		2203	4300	6503	SO:0001583	missense	89796			AF086348	CCDS1414.1, CCDS1414.2, CCDS53456.1	1q32.3	2008-07-18			ENSG00000134369	ENSG00000134369			15989	protein-coding gene	gene with protein product	"neuron navigator-1", "pore membrane and/or filament interacting like protein 3"	611628				12079279, 12062803	Standard	NM_020443		Approved	FLJ12560, FLJ14203, KIAA1151, MGC14961, POMFIL3, steerin-1, DKFZp781D0314	uc001gwu.3	Q8NEY1	OTTHUMG00000035766	ENST00000367296.4:c.3370C>G	1.37:g.201762968C>G	ENSP00000356265:p.Arg1124Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MS88|Q5SVH1|Q5SVH2|Q5SVH3|Q5SVH7|Q5VUY9|Q8IVL2|Q96II1|Q9H7V9|Q9H9S9|Q9H9T5|Q9UGI1|Q9ULK7|Q9ULR9	Missense_Mutation	SNP	ENST00000367296.4	37	CCDS1414.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	27.5|27.5	4.841219|4.841219	0.91197|0.91197	.|.	.|.	ENSG00000134369|ENSG00000134369	ENST00000430015|ENST00000367302;ENST00000367296;ENST00000295624;ENST00000367297;ENST00000367300;ENST00000391966;ENST00000367295	.|D;D;D;D;D;D	.|0.94497	.|-3.44;-3.44;-3.44;-3.44;-3.44;-3.44	4.95|4.95	4.95|4.95	0.65309|0.65309	.|.	.|0.058638	.|0.64402	.|D	.|0.000002	D|D	0.97037|0.97037	0.9032|0.9032	M|M	0.73598|0.73598	2.24|2.24	0.58432|0.58432	D|D	0.999991|0.999991	.|D;D;D;D;D	.|0.89917	.|1.0;0.997;0.996;0.998;1.0	.|D;D;D;D;D	.|0.87578	.|0.998;0.932;0.948;0.991;0.998	D|D	0.97499|0.97499	1.0059|1.0059	5|10	.|0.72032	.|D	.|0.01	-24.902|-24.902	17.9873|17.9873	0.89159|0.89159	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|1116;733;1124;624;1124	.|Q8NEY1-6;Q8NEY1-5;Q8NEY1;A8MYI2;Q8NEY1-3	.|.;.;NAV1_HUMAN;.;.	R|G	673|1080;1124;1124;1116;1067;624;733	.|ENSP00000356271:R1080G;ENSP00000356265:R1124G;ENSP00000295624:R1124G;ENSP00000356266:R1116G;ENSP00000356269:R1067G;ENSP00000356264:R733G	.|ENSP00000295624:R1124G	P|R	+|+	2|1	0|0	NAV1|NAV1	200029591|200029591	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.939000|0.939000	0.58152|0.58152	5.512000|5.512000	0.67030|0.67030	2.557000|2.557000	0.86248|0.86248	0.462000|0.462000	0.41574|0.41574	CCG|CGC		0.582	NAV1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000087013.1	NM_020443		G	201762968	C	G	201762968	3	3	592	1	0	0	0	0	1	0	0	0	10190	652	23	4	3481	4	NAV1	1	201762968	Missense_Mutation	SNP	C	TCGA-G7-6796-01A-11D-1961-08	19193371	201762968	47487653	11	35261										
TRAF5	7188	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	211545951	211545952	+	Frame_Shift_Ins	INS	-	-	C													0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	gtccccgctttgtggctcatINStctgttttggagaatgccaa							TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr1:211545951_211545952insC	ENST00000261464.5	+	11	1635_1636	c.1581_1582insC	c.(1582-1584)tctfs	p.S528fs	TRAF5_ENST00000367004.3_Frame_Shift_Ins_p.S528fs|TRAF5_ENST00000336184.2_Frame_Shift_Ins_p.S528fs|TRAF5_ENST00000427925.2_Frame_Shift_Ins_p.S422fs	NM_001033910.2	NP_001029082.1	O00463	TRAF5_HUMAN	TNF receptor-associated factor 5	528	Interaction with EIF2AK2/PKR.|MATH. {ECO:0000255|PROSITE- ProRule:PRU00129}.				apoptotic process (GO:0006915)|positive regulation of cell proliferation (GO:0008284)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|regulation of apoptotic process (GO:0042981)|signal transduction (GO:0007165)	CD40 receptor complex (GO:0035631)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)	signal transducer activity (GO:0004871)|thioesterase binding (GO:0031996)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(8)|lung(6)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29				OV - Ovarian serous cystadenocarcinoma(81;0.00946)|all cancers(67;0.0808)|Epithelial(68;0.144)		TTGTGGCTCATTCTGTTTTGGA	0.465																																																0																																										SO:0001589	frameshift_variant	7188			AB000509	CCDS1497.1	1q32	2008-02-05			ENSG00000082512	ENSG00000082512		"RING-type (C3HC4) zinc fingers"	12035	protein-coding gene	gene with protein product		602356				9126477	Standard	NM_001033910		Approved	RNF84	uc001hii.3	O00463	OTTHUMG00000036997	Exception_encountered	1.37:g.211545951_211545952insC	ENSP00000261464:p.Ser528fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DIS9|B4E0A2|Q6FHY1	Frame_Shift_Ins	INS	ENST00000261464.5	37	CCDS1497.1																																																																																				0.465	TRAF5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089825.1	NM_004619		C	211545952	-	C	211545951	7	5	592	1	0	1	1	0	0	0	0	0	16456	1490	52	0	1619	0	TRAF5	1	211545951	Frame_Shift_Ins	INS	-	TCGA-G7-6796-01A-11D-1961-08	9782983	211545951	37704670	12	35262										
ABCA12	26154	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	215865500	215865500	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tcctgggagttccttccagtTtgcaattcaatgattgctct	8	10	2	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr2:215865500T>G	ENST00000272895.7	-	22	3327	c.3108A>C	c.(3106-3108)caA>caC	p.Q1036H	ABCA12_ENST00000389661.4_Missense_Mutation_p.Q718H	NM_173076.2	NP_775099.2	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 12	1036					cellular homeostasis (GO:0019725)|ceramide transport (GO:0035627)|establishment of skin barrier (GO:0061436)|keratinization (GO:0031424)|lipid homeostasis (GO:0055088)|lipid transport (GO:0006869)|lung alveolus development (GO:0048286)|phospholipid efflux (GO:0033700)|positive regulation of cholesterol efflux (GO:0010875)|positive regulation of protein localization to cell surface (GO:2000010)|protein localization to plasma membrane (GO:0072659)|regulated secretory pathway (GO:0045055)|secretion by cell (GO:0032940)|surfactant homeostasis (GO:0043129)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|epidermal lamellar body (GO:0097209)|integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|plasma membrane (GO:0005886)	apolipoprotein A-I receptor binding (GO:0034191)|ATP binding (GO:0005524)|lipid transporter activity (GO:0005319)|lipid-transporting ATPase activity (GO:0034040)|receptor binding (GO:0005102)			NS(3)|breast(5)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(45)|lung(44)|ovary(8)|pancreas(2)|prostate(4)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	139		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)		TCCTTCCAGTTTGCAATTCAA	0.428																																					Ovarian(66;664 1488 5121 34295)											0													125	130	128					2																	215865500		2203	4300	6503	SO:0001583	missense	26154			AF418105	CCDS33372.1, CCDS33373.1	2q34	2012-03-14			ENSG00000144452	ENSG00000144452		"ATP binding cassette transporters / subfamily A"	14637	protein-coding gene	gene with protein product		607800	"ichthyosis congenita II, lamellar ichthyosis B"	ICR2B		11435397, 12915478, 8845852, 10094194	Standard	NM_015657		Approved	DKFZP434G232, LI2	uc002vew.3	Q86UK0	OTTHUMG00000154801	ENST00000272895.7:c.3108A>C	2.37:g.215865500T>G	ENSP00000272895:p.Gln1036His	Somatic		WXS	Illumina HiSeq	Phase_I	Q53QE2|Q53S55|Q8IZW6|Q96JT3|Q9Y4M5	Missense_Mutation	SNP	ENST00000272895.7	37	CCDS33372.1	.	.	.	.	.	.	.	.	.	.	T	14.43	2.533445	0.45073	.	.	ENSG00000144452	ENST00000272895;ENST00000389661	D;D	0.95656	-3.77;-3.77	5.73	2.68	0.31781	.	0.087482	0.49916	D	0.000121	D	0.92456	0.7605	L	0.43152	1.355	0.80722	D	1	B;B	0.32467	0.136;0.372	B;B	0.38156	0.152;0.266	D	0.89343	0.3655	10	0.66056	D	0.02	.	8.1984	0.31411	0.0:0.731:0.0:0.269	.	1036;718	Q86UK0;Q86UK0-2	ABCAC_HUMAN;.	H	1036;718	ENSP00000272895:Q1036H;ENSP00000374312:Q718H	ENSP00000272895:Q1036H	Q	-	3	2	ABCA12	215573745	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	2.506000	0.45433	0.612000	0.30071	0.454000	0.30748	CAA		0.428	ABCA12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337111.1	NM_173076		G	215865500	T	G	215865500	3	3	592	1	0	0	0	0	1	0	0	0	30	1838	64	5	4807	5	ABCA12	2	215865500	Missense_Mutation	SNP	T	TCGA-G7-6796-01A-11D-1961-08		215865500	27333873	13	35263										
C2orf62	375307	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	219222364	219222364	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	aggtgcagagagggaaatacCaggaaaaactcggcatgctg	14	7	0	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr2:219222364C>T	ENST00000289388.3	+	3	255	c.226C>T	c.(226-228)Cag>Tag	p.Q76*	AC021016.8_ENST00000411433.1_RNA	NM_198559.1	NP_940961.1	Q7Z7H3	CATIP_HUMAN		76					actin filament polymerization (GO:0030041)|cilium organization (GO:0044782)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				endometrium(4)|kidney(2)|large_intestine(4)|lung(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	16		Renal(207;0.0915)		Epithelial(149;8.08e-07)|all cancers(144;0.000146)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGGGAAATACCAGGAAAAACT	0.552																																																0													72	63	66					2																	219222364		2203	4300	6503	SO:0001587	stop_gained	375307																														ENST00000289388.3:c.226C>T	2.37:g.219222364C>T	ENSP00000289388:p.Gln76*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000289388.3	37	CCDS2414.1	.	.	.	.	.	.	.	.	.	.	C	12.60	1.987633	0.35036	.	.	ENSG00000158428	ENST00000289388	.	.	.	4.56	-4.72	0.03269	.	1.478090	0.03845	N	0.271323	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-27.2458	4.8866	0.13706	0.2205:0.5606:0.0905:0.1283	.	.	.	.	X	76	.	ENSP00000289388:Q76X	Q	+	1	0	C2orf62	218930608	0.000000	0.05858	0.000000	0.03702	0.051000	0.14879	0.212000	0.17497	-0.542000	0.06249	-0.457000	0.05445	CAG		0.552	C2orf62-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256771.1			T	219222364	C	T	219222364	4	4	592	1	0	0	0	0	0	1	0	0	2183	595	21	2	236	2	C2orf62	2	219222364	Nonsense_Mutation	SNP	C	TCGA-G7-6796-01A-11D-1961-08	3356864	219222364	23977009	14	35264										
ZNF142	7701	hgsc.bcm.edu;bcgsc.ca	37	chr2	219509115	219509115	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	acctcctcaaggggtggctcAgtcacagactccagctctac	9	15	4	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr2:219509115A>T	ENST00000449707.1	-	8	2545	c.2124T>A	c.(2122-2124)acT>acA	p.T708T	ZNF142_ENST00000411696.2_Silent_p.T708T	NM_001105537.1	NP_001099007.1	P52746	ZN142_HUMAN	zinc finger protein 142	708					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(7)|endometrium(7)|large_intestine(5)|lung(12)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	38		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		GGGGTGGCTCAGTCACAGACT	0.612																																					Colon(170;867 1942 8995 15834 18053)											0													42	44	43					2																	219509115		1959	4152	6111	SO:0001819	synonymous_variant	7701			U09849	CCDS42817.1	2q35	2013-01-08	2006-06-13		ENSG00000115568	ENSG00000115568		"Zinc fingers, C2H2-type"	12927	protein-coding gene	gene with protein product		604083	"zinc finger protein 142 (clone pHZ-49)"				Standard	NM_001105537		Approved	KIAA0236, pHZ-49	uc002vin.4	P52746	OTTHUMG00000154736	ENST00000449707.1:c.2124T>A	2.37:g.219509115A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q92510	Silent	SNP	ENST00000449707.1	37	CCDS42817.1																																																																																				0.612	ZNF142-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336833.1	NM_005081		T	219509115	A	T	219509115	2	4	592	1	0	0	0	0	0	0	0	1	17743	175	7	5		5	ZNF142	2	219509115	Silent	SNP	A	TCGA-G7-6796-01A-11D-1961-08	286751	219509115	23690258	15	35265										
SP100	6672	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	231338157	231338157	+	Splice_Site	DEL	T	T	-													0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	caagcatctgacatgatgggTaaggctaccctagggtcttg							TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr2:231338157delT	ENST00000264052.5	+	16	1901		c.e16+2		SP100_ENST00000409112.1_Splice_Site|SP100_ENST00000340126.4_Splice_Site	NM_003113.3	NP_003104.2	P23497	SP100_HUMAN	SP100 nuclear antigen						cytokine-mediated signaling pathway (GO:0019221)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|interferon-gamma-mediated signaling pathway (GO:0060333)|negative regulation of cellular component movement (GO:0051271)|negative regulation of DNA binding (GO:0043392)|negative regulation of endothelial cell migration (GO:0010596)|negative regulation of protein export from nucleus (GO:0046826)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of viral transcription (GO:0032897)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of angiogenesis (GO:0045765)|regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902041)|regulation of Fas signaling pathway (GO:1902044)|response to cytokine (GO:0034097)|response to interferon-gamma (GO:0034341)|response to retinoic acid (GO:0032526)|response to type I interferon (GO:0034340)|retinoic acid receptor signaling pathway (GO:0048384)|telomere maintenance (GO:0000723)|transcription, DNA-templated (GO:0006351)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nuclear periphery (GO:0034399)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)	chromo shadow domain binding (GO:0070087)|DNA binding (GO:0003677)|identical protein binding (GO:0042802)|kinase binding (GO:0019900)|protein domain specific binding (GO:0019904)|protein homodimerization activity (GO:0042803)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(4)|lung(12)|ovary(4)|upper_aerodigestive_tract(1)	25		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		ACATGATGGGTAAGGCTACCC	0.468																																																0													164	152	156					2																	231338157		2203	4300	6503	SO:0001630	splice_region_variant	6672			AF056322	CCDS2477.1, CCDS42832.1, CCDS56170.1, CCDS56171.1, CCDS56172.1, CCDS56173.1	2q37.1	2013-01-28	2005-11-30		ENSG00000067066	ENSG00000067066		"Zinc fingers, PHD-type"	11206	protein-coding gene	gene with protein product		604585	"nuclear antigen Sp100"			2258622, 8695863	Standard	NM_001080391		Approved		uc002vqu.1	P23497	OTTHUMG00000133203	ENST00000264052.5:c.1546+2T>-	2.37:g.231338157delT		Somatic		WXS	Illumina HiSeq	Phase_I	B4DDX5|B8ZZD8|E7EUA7|E9PH61|F8WFE2|O75450|Q13343|Q8TE34|Q96F70|Q96T24|Q96T95|Q9NP33|Q9UE32	Splice_Site	DEL	ENST00000264052.5	37	CCDS2477.1																																																																																				0.468	SP100-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256914.2	NM_003113	Intron	-	231338157	T	-	231338157	8	5	592	1	0	1	0	1	0	0	1	0	14973	1652	57	0	1610	0	SP100	2	231338157	Splice_Site	DEL	T	TCGA-G7-6796-01A-11D-1961-08	11829042	231338157	11861216	16	35266										
CPNE9	151835	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	9758767	9758768	+	Frame_Shift_Ins	INS	-	-	T													0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	gctgaacttcacagtagccaINSttgacttcacggcttccaat							TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr3:9758767_9758768insT	ENST00000383832.3	+	15	1100_1101	c.910_911insT	c.(910-912)attfs	p.I304fs	CPNE9_ENST00000383831.3_Frame_Shift_Ins_p.I304fs	NM_153635.2	NP_705899.2	Q8IYJ1	CPNE9_HUMAN	copine family member IX	304	VWFA. {ECO:0000255|PROSITE- ProRule:PRU00219}.					extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)				breast(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(2)|lung(2)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	16	Medulloblastoma(99;0.227)					CACAGTAGCCATTGACTTCACG	0.45																																																0																																										SO:0001589	frameshift_variant	151835				CCDS2574.2	3p25.3	2008-10-30			ENSG00000144550	ENSG00000144550			24336	protein-coding gene	gene with protein product						9430674	Standard	XM_006712990		Approved	KIAA4217	uc003bsd.3	Q8IYJ1	OTTHUMG00000128418	ENST00000383832.3:c.912dupT	3.37:g.9758769_9758769dupT	ENSP00000373343:p.Ile304fs	Somatic		WXS	Illumina HiSeq	Phase_I	A1L430|A6NDX6|A8MSP8	Targeted_Region	INS	ENST00000383832.3	37	CCDS2574.2																																																																																				0.45	CPNE9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250205.4	NM_001033755		T	9758768	-	T	9758767	7	5	592	1	0	1	1	0	0	0	0	0	3821	217	8	0	964	0	CPNE9	3	9758767	Frame_Shift_Ins	INS	-	TCGA-G7-6796-01A-11D-1961-08		9758767	188263663	17	35267										
SLC25A38	54977	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	39431018	39431018	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	atcaaggctttcctgtgtggCtccatcagtgggacctgctc	11	12	2	0			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr3:39431018C>T	ENST00000273158.4	+	2	479	c.102C>T	c.(100-102)ggC>ggT	p.G34G		NM_017875.2	NP_060345.2			solute carrier family 25, member 38									p.G34G(1)		breast(1)|endometrium(1)|large_intestine(1)|lung(6)|skin(1)|stomach(1)	11				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		TCCTGTGTGGCTCCATCAGTG	0.522																																																1	Substitution - coding silent(1)	large_intestine(1)											209	174	186					3																	39431018		2203	4300	6503	SO:0001819	synonymous_variant	54977			BC013194	CCDS2685.1	3p22.1	2013-05-22			ENSG00000144659	ENSG00000144659		"Solute carriers"	26054	protein-coding gene	gene with protein product		610819				16949250	Standard	NM_017875		Approved	FLJ20551	uc003cjo.2	Q96DW6	OTTHUMG00000131289	ENST00000273158.4:c.102C>T	3.37:g.39431018C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000273158.4	37	CCDS2685.1																																																																																				0.522	SLC25A38-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254057.3	NM_017875		T	39431018	C	T	39431018	2	4	592	1	0	0	0	0	0	0	0	1	14515	784	28	2		2	SLC25A38	3	39431018	Silent	SNP	C	TCGA-G7-6796-01A-11D-1961-08	29672251	39431018	158591412	18	35268										
TNFSF10	8743	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	172232704	172232704	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ttgccagcaggggctgttcaTactctcttcgtcattggggt	12	10	3	0			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr3:172232704T>C	ENST00000241261.2	-	2	339	c.217A>G	c.(217-219)Atg>Gtg	p.M73V	TNFSF10_ENST00000420541.2_Missense_Mutation_p.M73V	NM_003810.3	NP_003801.1	P50591	TNF10_HUMAN	tumor necrosis factor (ligand) superfamily, member 10	73					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|cell-cell signaling (GO:0007267)|immune response (GO:0006955)|male gonad development (GO:0008584)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001239)|response to insulin (GO:0032868)|signal transduction (GO:0007165)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	metal ion binding (GO:0046872)|receptor binding (GO:0005102)			breast(2)|cervix(1)|large_intestine(1)|lung(6)|ovary(1)|skin(4)	15	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.67e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			GGGCTGTTCATACTCTCTTCG	0.502																																																0													144	137	140					3																	172232704		2203	4300	6503	SO:0001583	missense	8743			U37518	CCDS3219.1, CCDS54680.1	3q26	2006-09-20			ENSG00000121858	ENSG00000121858		"Tumor necrosis factor (ligand) superfamily", "CD molecules"	11925	protein-coding gene	gene with protein product		603598				8777713, 8663110	Standard	NM_003810		Approved	TRAIL, Apo-2L, TL2, CD253	uc003fid.3	P50591	OTTHUMG00000156917	ENST00000241261.2:c.217A>G	3.37:g.172232704T>C	ENSP00000241261:p.Met73Val	Somatic		WXS	Illumina HiSeq	Phase_I	A1Y9B3	Missense_Mutation	SNP	ENST00000241261.2	37	CCDS3219.1	.	.	.	.	.	.	.	.	.	.	T	0.003	-2.547137	0.00140	.	.	ENSG00000121858	ENST00000241261;ENST00000420541	D;T	0.86366	-2.11;1.59	5.61	-1.89	0.07689	.	0.989409	0.08265	N	0.972345	T	0.71804	0.3383	L	0.34521	1.04	0.09310	N	1	B;B	0.12630	0.006;0.001	B;B	0.11329	0.006;0.001	T	0.57136	-0.7863	10	0.05351	T	0.99	-3.1928	0.8408	0.01149	0.3634:0.1464:0.1187:0.3715	.	73;73	A1Y9B3;P50591	.;TNF10_HUMAN	V	73	ENSP00000241261:M73V;ENSP00000389931:M73V	ENSP00000241261:M73V	M	-	1	0	TNFSF10	173715398	0.001000	0.12720	0.000000	0.03702	0.003000	0.03518	0.552000	0.23376	-0.567000	0.06046	-0.256000	0.11100	ATG		0.502	TNFSF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346601.1			C	172232704	T	C	172232704	3	2	592	1	0	0	0	0	1	0	0	0	16313	1406	49	3	644	3	TNFSF10	3	172232704	Missense_Mutation	SNP	T	TCGA-G7-6796-01A-11D-1961-08	132801686	172232704	25789726	19	35269										
ACOX3	8310	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr4	8372681	8372681	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	agtccagaacaaagtcaggaGgagcgatcacgtctaccagg	12	10	3	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr4:8372681G>A	ENST00000356406.5	-	17	2014	c.1937C>T	c.(1936-1938)cCt>cTt	p.P646L	ACOX3_ENST00000515797.1_5'UTR|ACOX3_ENST00000413009.2_Silent_p.S623S|ACOX3_ENST00000503233.1_Missense_Mutation_p.P646L	NM_003501.2	NP_003492.2	O15254	ACOX3_HUMAN	acyl-CoA oxidase 3, pristanoyl	646					cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)|small molecule metabolic process (GO:0044281)	membrane (GO:0016020)|mitochondrion (GO:0005739)|peroxisomal matrix (GO:0005782)|peroxisome (GO:0005777)	acyl-CoA dehydrogenase activity (GO:0003995)|flavin adenine dinucleotide binding (GO:0050660)|pristanoyl-CoA oxidase activity (GO:0016402)|receptor binding (GO:0005102)			breast(2)|central_nervous_system(1)|endometrium(4)|kidney(4)|large_intestine(9)|lung(17)|prostate(1)|skin(3)|stomach(1)	42						AAAGTCAGGAGGAGCGATCAC	0.562																																																0													120	104	109					4																	8372681		2203	4300	6503	SO:0001583	missense	8310			Y11411	CCDS3401.1, CCDS47017.1	4p15.3	2010-04-30	2010-04-30		ENSG00000087008	ENSG00000087008	1.3.3.6		121	protein-coding gene	gene with protein product		603402	"acyl-Coenzyme A oxidase 3, pristanoyl"			9271077	Standard	NM_003501		Approved		uc003glc.4	O15254	OTTHUMG00000090509	ENST00000356406.5:c.1937C>T	4.37:g.8372681G>A	ENSP00000348775:p.Pro646Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q96AJ8	Missense_Mutation	SNP	ENST00000356406.5	37	CCDS3401.1	.	.	.	.	.	.	.	.	.	.	G	24.9	4.577015	0.86645	.	.	ENSG00000087008	ENST00000356406;ENST00000503233	T;T	0.38401	1.14;1.14	4.88	4.88	0.63580	Acyl-CoA oxidase, C-terminal (1);Acyl-CoA dehydrogenase/oxidase C-terminal (1);	0.069225	0.64402	N	0.000015	T	0.50718	0.1632	.	.	.	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.38628	-0.9652	9	0.11182	T	0.66	-18.1485	15.4924	0.75619	0.0:0.0:1.0:0.0	.	646	O15254	ACOX3_HUMAN	L	646	ENSP00000348775:P646L;ENSP00000421625:P646L	ENSP00000348775:P646L	P	-	2	0	ACOX3	8423581	1.000000	0.71417	0.995000	0.50966	0.992000	0.81027	6.945000	0.75947	2.226000	0.72624	0.549000	0.68633	CCT		0.562	ACOX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206997.4			A	8372681	G	A	8372681	3	1	592	1	0	0	0	0	1	0	0	0	160	1000	35	2	173	2	ACOX3	4	8372681	Missense_Mutation	SNP	G	TCGA-G7-6796-01A-11D-1961-08		8372681	182781595	20	35270										
BOD1L	259282	broad.mit.edu	37	chr4	13616069	13616069	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tttttgctcactgctttcctGttgaacatccttatttagca	5	10	1	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr4:13616069G>T	ENST00000040738.5	-	4	1060	c.925C>A	c.(925-927)Cag>Aag	p.Q309K		NM_148894.2	NP_683692.2	Q8NFC6	BD1L1_HUMAN	biorientation of chromosomes in cell division 1-like 1	309						nucleus (GO:0005634)	DNA binding (GO:0003677)										CTGCTTTCCTGTTGAACATCC	0.353																																																0													72	65	68					4																	13616069		2203	4300	6503	SO:0001583	missense	259282			AF528529	CCDS3411.2	4p16.1	2012-04-10	2012-04-10	2012-04-10	ENSG00000038219	ENSG00000038219			31792	protein-coding gene	gene with protein product			"family with sequence similarity 44, member A", "biorientation of chromosomes in cell division 1-like"	FAM44A, BOD1L			Standard	XM_005248150		Approved	FLJ33215, KIAA1327	uc003gmz.1	Q8NFC6	OTTHUMG00000090659	ENST00000040738.5:c.925C>A	4.37:g.13616069G>T	ENSP00000040738:p.Gln309Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P0M8|Q96AL1|Q9H6G0|Q9NTD6|Q9P2L9	Missense_Mutation	SNP	ENST00000040738.5	37	CCDS3411.2	.	.	.	.	.	.	.	.	.	.	G	17.96	3.515408	0.64634	.	.	ENSG00000038219	ENST00000040738	T	0.08720	3.06	5.75	5.75	0.90469	.	0.169210	0.28515	N	0.015067	T	0.16385	0.0394	M	0.64997	1.995	0.29521	N	0.853525	D	0.56521	0.976	P	0.50109	0.631	T	0.03761	-1.1006	10	0.32370	T	0.25	-5.5179	14.3952	0.67005	0.0:0.0:0.852:0.148	.	309	Q8NFC6	BOD1L_HUMAN	K	309	ENSP00000040738:Q309K	ENSP00000040738:Q309K	Q	-	1	0	BOD1L	13225167	0.980000	0.34600	0.997000	0.53966	0.941000	0.58515	3.862000	0.56009	2.709000	0.92574	0.591000	0.81541	CAG		0.353	BOD1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207321.1	NM_148894		T	13616069	G	T	13616069	3	4	592	1	0	0	0	0	1	0	0	0	1483	1386	48	4	8322	4	BOD1L	4	13616069	Missense_Mutation	SNP	G	TCGA-G7-6796-01A-11D-1961-08	5243388	13616069	177538207	21	35271										
CENPC1	1060	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	68385012	68385012	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tcaaaagtgtaagtctctctCttttgggcactagatggaat	9	7	3	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr4:68385012C>G	ENST00000273853.6	-	6	790	c.540G>C	c.(538-540)aaG>aaC	p.K180N		NM_001812.2	NP_001803.2	Q03188	CENPC_HUMAN	centromere protein C	180					chromosome segregation (GO:0007059)|kinetochore assembly (GO:0051382)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	condensed nuclear chromosome, centromeric region (GO:0000780)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinetochore (GO:0000776)|nucleus (GO:0005634)|pericentric heterochromatin (GO:0005721)	centromeric DNA binding (GO:0019237)|DNA binding (GO:0003677)										AAGTCTCTCTCTTTTGGGCAC	0.323																																																0													88	83	84					4																	68385012		1809	4078	5887	SO:0001583	missense	1060			M95724	CCDS47063.1	4q13.2	2013-11-05	2013-07-03	2013-07-03	ENSG00000145241	ENSG00000145241			1854	protein-coding gene	gene with protein product		117141	"centromere protein C 1"	CENPC1		7959789	Standard	XR_245245		Approved	CENP-C, hcp-4, MIF2	uc003hdd.1	Q03188	OTTHUMG00000160735	ENST00000273853.6:c.540G>C	4.37:g.68385012C>G	ENSP00000273853:p.Lys180Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IW27|Q9P0M5	Missense_Mutation	SNP	ENST00000273853.6	37	CCDS47063.1	.	.	.	.	.	.	.	.	.	.	C	10.84	1.463886	0.26335	.	.	ENSG00000145241	ENST00000273853	.	.	.	4.75	0.447	0.16608	.	0.626565	0.15039	N	0.283991	T	0.39226	0.1070	L	0.59436	1.845	0.28032	N	0.9341	D;D	0.65815	0.995;0.995	P;P	0.53954	0.738;0.738	T	0.30592	-0.9973	9	0.72032	D	0.01	-2.2885	2.5395	0.04722	0.3496:0.401:0.1533:0.0961	.	180;180	Q8IW27;Q03188	.;CENPC_HUMAN	N	180	.	ENSP00000273853:K180N	K	-	3	2	CENPC1	68067607	0.030000	0.19436	0.952000	0.39060	0.104000	0.19210	-0.627000	0.05521	0.173000	0.19788	-0.293000	0.09583	AAG		0.323	CENPC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362001.2			G	68385012	C	G	68385012	3	3	592	1	0	0	0	0	1	0	0	0	3231	912	32	4	2347	4	CENPC1	4	68385012	Missense_Mutation	SNP	C	TCGA-G7-6796-01A-11D-1961-08	54768943	68385012	122769264	22	35272										
RNF150	57484	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	141832440	141832440	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tcgctggcacctgtgatctgGttggtgggtggacctcccag	15	11	1	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr4:141832440G>C	ENST00000515673.2	-	6	1089	c.1056C>G	c.(1054-1056)aaC>aaG	p.N352K	RNF150_ENST00000379512.2_Missense_Mutation_p.N211K|RNF150_ENST00000507500.1_Missense_Mutation_p.N352K|RNF150_ENST00000306799.3_Missense_Mutation_p.N310K|RNF150_ENST00000420921.2_Missense_Mutation_p.N211K			Q9ULK6	RN150_HUMAN	ring finger protein 150	352						integral component of membrane (GO:0016021)	zinc ion binding (GO:0008270)			breast(1)|large_intestine(10)|lung(7)|ovary(1)	19	all_hematologic(180;0.162)					CTGTGATCTGGTTGGTGGGTG	0.557																																																0													100	93	95					4																	141832440		2203	4300	6503	SO:0001583	missense	57484			AB033040	CCDS34065.1	4q31.1	2013-01-09			ENSG00000170153	ENSG00000170153		"RING-type (C3HC4) zinc fingers"	23138	protein-coding gene	gene with protein product						10574462	Standard	XM_005263150		Approved	KIAA1214	uc003iio.1	Q9ULK6	OTTHUMG00000161380	ENST00000515673.2:c.1056C>G	4.37:g.141832440G>C	ENSP00000425840:p.Asn352Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q3T1D0|Q6ZNW6	Missense_Mutation	SNP	ENST00000515673.2	37	CCDS34065.1	.	.	.	.	.	.	.	.	.	.	G	17.78	3.474491	0.63737	.	.	ENSG00000170153	ENST00000379512;ENST00000420921;ENST00000306799;ENST00000515673;ENST00000507500;ENST00000506101	T;T;T;T;T;T	0.15139	2.45;2.45;2.49;3.47;3.48;2.51	5.74	0.749	0.18381	.	0.472179	0.23614	N	0.046304	T	0.16257	0.0391	L	0.29908	0.895	0.51767	D	0.999932	P;B;B	0.40970	0.734;0.294;0.415	P;B;B	0.47528	0.549;0.299;0.334	T	0.03103	-1.1072	10	0.46703	T	0.11	.	9.3149	0.37928	0.5802:0.0:0.4198:0.0	.	310;352;352	Q9ULK6-2;Q9ULK6-3;Q9ULK6	.;.;RN150_HUMAN	K	211;211;310;352;352;183	ENSP00000368827:N211K;ENSP00000394581:N211K;ENSP00000304321:N310K;ENSP00000425840:N352K;ENSP00000425568:N352K;ENSP00000425947:N183K	ENSP00000304321:N310K	N	-	3	2	RNF150	142051890	1.000000	0.71417	1.000000	0.80357	0.944000	0.59088	0.973000	0.29422	0.180000	0.19960	0.655000	0.94253	AAC		0.557	RNF150-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364739.2	XM_291090		C	141832440	G	C	141832440	3	2	592	1	0	0	0	0	1	0	0	0	13464	1252	44	4	268	4	RNF150	4	141832440	Missense_Mutation	SNP	G	TCGA-G7-6796-01A-11D-1961-08	73447428	141832440	49321836	23	35273										
DNAH5	1767	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	13928214	13928214	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ttcagatacctgtttctgctTcctccacatcttgatagtaa	5	11	3	2			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr5:13928214T>A	ENST00000265104.4	-	3	370	c.266A>T	c.(265-267)gAa>gTa	p.E89V		NM_001369.2	NP_001360.1	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	89	Stem. {ECO:0000250}.				cilium movement (GO:0003341)|lateral ventricle development (GO:0021670)|left/right axis specification (GO:0070986)	axonemal dynein complex (GO:0005858)|axoneme (GO:0005930)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(6)|breast(14)|central_nervous_system(4)|cervix(2)|endometrium(23)|haematopoietic_and_lymphoid_tissue(8)|kidney(11)|large_intestine(85)|liver(1)|lung(129)|ovary(16)|pancreas(2)|prostate(5)|skin(48)|stomach(5)|upper_aerodigestive_tract(11)|urinary_tract(8)	378	Lung NSC(4;0.00476)					TGTTTCTGCTTCCTCCACATC	0.378									Kartagener syndrome																																							0													114	112	113					5																	13928214		2203	4300	6503	SO:0001583	missense	1767	Familial Cancer Database	Ciliary Dyskinesia, Primary (CILD1 - CILD13), Immotile Cilia Syndrome	AJ132090	CCDS3882.1	5p15.2	2008-07-18	2006-09-04		ENSG00000039139	ENSG00000039139		"Axonemal dyneins"	2950	protein-coding gene	gene with protein product	"dynein heavy chain 5"	603335	"dynein, axonemal, heavy polypeptide 5"			9256245, 11788826	Standard	NM_001369		Approved	Dnahc5, HL1, PCD, CILD3, KTGNR	uc003jfd.2	Q8TE73	OTTHUMG00000090533	ENST00000265104.4:c.266A>T	5.37:g.13928214T>A	ENSP00000265104:p.Glu89Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q92860|Q96L74|Q9H5S7|Q9HCG9	Missense_Mutation	SNP	ENST00000265104.4	37	CCDS3882.1	.	.	.	.	.	.	.	.	.	.	T	11.28	1.592955	0.28357	.	.	ENSG00000039139	ENST00000265104	T	0.24723	1.84	5.32	1.09	0.20402	.	0.308380	0.34652	N	0.003789	T	0.04861	0.0131	N	0.00413	-1.525	0.25592	N	0.986686	B	0.02656	0.0	B	0.01281	0.0	T	0.29274	-1.0017	10	0.28530	T	0.3	.	1.1003	0.01682	0.3742:0.3113:0.1656:0.1488	.	89	Q8TE73	DYH5_HUMAN	V	89	ENSP00000265104:E89V	ENSP00000265104:E89V	E	-	2	0	DNAH5	13981214	0.142000	0.22610	0.967000	0.41034	0.969000	0.65631	1.040000	0.30278	0.391000	0.25143	-0.302000	0.09304	GAA		0.378	DNAH5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207057.2	NM_001369		A	13928214	T	A	13928214	3	1	592	1	0	0	0	0	1	0	0	0	4606	1783	62	5	13916	5	DNAH5	5	13928214	Missense_Mutation	SNP	T	TCGA-G7-6796-01A-11D-1961-08		13928214	166987046	24	35274										
PCDHGA8	9708	broad.mit.edu	37	chr5	140772927	140772927	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	accacttctccctggacgtgCagactggagacaatggagcc	11	13	1	2			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr5:140772927C>T	ENST00000398604.2	+	1	547	c.547C>T	c.(547-549)Cag>Tag	p.Q183*	PCDHGA3_ENST00000253812.6_Intron|PCDHGB4_ENST00000519479.1_Intron|PCDHGB3_ENST00000576222.1_Intron|PCDHGA7_ENST00000518325.1_Intron|PCDHGA2_ENST00000394576.2_Intron|PCDHGB1_ENST00000523390.1_Intron|PCDHGB2_ENST00000522605.1_Intron|PCDHGA1_ENST00000517417.1_Intron|PCDHGA4_ENST00000571252.1_Intron|PCDHGA5_ENST00000518069.1_Intron|PCDHGA6_ENST00000517434.1_Intron	NM_032088.1	NP_114477.1	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8	183	Cadherin 2. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			endometrium(6)|kidney(6)|large_intestine(6)|lung(30)|ovary(1)|stomach(1)|upper_aerodigestive_tract(1)	51			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTGGACGTGCAGACTGGAGA	0.612																																																0													52	58	56					5																	140772927		2147	4282	6429	SO:0001587	stop_gained	9708			AF152515	CCDS47291.1, CCDS75338.1	5q31	2010-01-26			ENSG00000253767	ENSG00000253767		"Cadherins / Protocadherins : Clustered"	8706	other	protocadherin		606295				10380929	Standard	NM_014004		Approved	KIAA0327, PCDH-GAMMA-A8		Q9Y5G5	OTTHUMG00000164053	ENST00000398604.2:c.547C>T	5.37:g.140772927C>T	ENSP00000381605:p.Gln183*	Somatic		WXS	Illumina HiSeq	Phase_I	A7MCZ4|O15039	Nonsense_Mutation	SNP	ENST00000398604.2	37	CCDS47291.1	.	.	.	.	.	.	.	.	.	.	.	17.30	3.354337	0.61293	.	.	ENSG00000253767	ENST00000398604	.	.	.	5.41	5.41	0.78517	.	0.000000	0.30118	U	0.010368	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.15066	T	0.55	.	13.7424	0.62855	0.1539:0.8461:0.0:0.0	.	.	.	.	X	183	.	ENSP00000381605:Q183X	Q	+	1	0	PCDHGA8	140753111	0.000000	0.05858	0.859000	0.33776	0.662000	0.39071	-0.042000	0.12063	2.552000	0.86080	0.655000	0.94253	CAG		0.612	PCDHGA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376972.1	NM_032088		T	140772927	C	T	140772927	4	4	592	1	0	0	0	0	0	1	0	0	11567	711	25	2	549	2	PCDHGA8	5	140772927	Nonsense_Mutation	SNP	C	TCGA-G7-6796-01A-11D-1961-08	126844713	140772927	40142333	25	35275										
LRRC16A	55604	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	25600730	25600730	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	aggggcagtcagaagtccacCtgtggactgtcccaggaagg	15	10	1	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr6:25600730C>A	ENST00000329474.6	+	33	3676	c.3308C>A	c.(3307-3309)cCt>cAt	p.P1103H		NM_001173977.1|NM_017640.5	NP_001167448.1|NP_060110.4	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	1103					actin filament organization (GO:0007015)|barbed-end actin filament uncapping (GO:0051638)|blood coagulation (GO:0007596)|cell migration (GO:0016477)|lamellipodium assembly (GO:0030032)|negative regulation of barbed-end actin filament capping (GO:2000813)|positive regulation of actin filament polymerization (GO:0030838)|positive regulation of cell migration (GO:0030335)|positive regulation of lamellipodium organization (GO:1902745)|positive regulation of stress fiber assembly (GO:0051496)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|ruffle organization (GO:0031529)|urate metabolic process (GO:0046415)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|filamentous actin (GO:0031941)|lamellipodium (GO:0030027)|nucleus (GO:0005634)	protein complex binding (GO:0032403)			breast(4)|central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(10)|lung(19)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	50						AGAAGTCCACCTGTGGACTGT	0.488																																																0													64	64	64					6																	25600730		1925	4128	6053	SO:0001583	missense	55604			AK000055	CCDS54973.1	6p22.1	2010-09-10	2008-02-12	2008-02-12	ENSG00000079691	ENSG00000079691			21581	protein-coding gene	gene with protein product	"capping protein, Arp2/3, and Myosin-I Linker homolog 1 (Dictyostelium)"	609593	"leucine rich repeat containing 16"	LRRC16		19846667	Standard	NM_017640		Approved	dJ501N12.1, FLJ20048, CARMIL, CARMIL1	uc011djw.2	Q5VZK9	OTTHUMG00000014393	ENST00000329474.6:c.3308C>A	6.37:g.25600730C>A	ENSP00000331983:p.Pro1103His	Somatic		WXS	Illumina HiSeq	Phase_I	B8X1J0|Q6ZUH5|Q6ZW07|Q9NXU7	Missense_Mutation	SNP	ENST00000329474.6	37	CCDS54973.1	.	.	.	.	.	.	.	.	.	.	C	12.44	1.939309	0.34189	.	.	ENSG00000079691	ENST00000329474;ENST00000399313	T	0.41758	0.99	5.2	4.33	0.51752	.	0.466121	0.23528	N	0.047208	T	0.26593	0.0650	L	0.29908	0.895	0.80722	D	1	P;P;P	0.50272	0.621;0.933;0.917	P;B;P	0.48166	0.471;0.315;0.569	T	0.06373	-1.0830	10	0.56958	D	0.05	-1.9805	13.6423	0.62257	0.0:0.925:0.0:0.075	.	1103;1103;1103	Q5VZK9;B2RTQ5;Q5VZK9-2	LR16A_HUMAN;.;.	H	1103	ENSP00000331983:P1103H	ENSP00000331983:P1103H	P	+	2	0	LRRC16A	25708709	0.971000	0.33674	0.029000	0.17559	0.016000	0.09150	2.953000	0.49105	1.165000	0.42670	0.455000	0.32223	CCT		0.488	LRRC16A-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000040045.2	NM_017640		A	25600730	C	A	25600730	3	1	592	1	0	0	0	0	1	0	0	0	8978	681	24	4	3438	4	LRRC16A	6	25600730	Missense_Mutation	SNP	C	TCGA-G7-6796-01A-11D-1961-08		25600730	145514337	26	35276										
HLA-F	3134	ucsc.edu	37	chr6	29692860	29692860	+	Silent	SNP	C	C	T													0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	atctctgaccatgaggccacCctgaggtgctgggccctggg							TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr6:29692860C>T	ENST00000376861.1	+	5	1047	c.663C>T	c.(661-663)acC>acT	p.T221T	HLA-F_ENST00000434407.2_Intron|HLA-F_ENST00000334668.4_Silent_p.T221T|HLA-F_ENST00000440587.2_Silent_p.T103T|HLA-F_ENST00000259951.7_Silent_p.T221T			P30511	HLAF_HUMAN	major histocompatibility complex, class I, F	221	Alpha-3.|Ig-like C1-type.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)	early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|membrane (GO:0016020)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)|TAP1 binding (GO:0046978)|TAP2 binding (GO:0046979)			cervix(1)|endometrium(1)|large_intestine(1)|lung(3)|prostate(1)|upper_aerodigestive_tract(1)	8						ATGAGGCCACCCTGAGGTGCT	0.587																																																0													55	54	54					6																	29692860		2203	4300	6503	SO:0001819	synonymous_variant	3134			AY253269	CCDS43437.1, CCDS43438.1, CCDS43439.1	6p21.3	2013-01-11			ENSG00000204642	ENSG00000204642		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4963	protein-coding gene	gene with protein product		143110				1688605	Standard	NM_018950		Approved		uc003nno.4	P30511	OTTHUMG00000031156	ENST00000376861.1:c.663C>T	6.37:g.29692860C>T		Somatic		WXS	Illumina HiSeq		Q5JQI8|Q5JQJ1|Q5SPT5|Q860R0|Q8MGQ1|Q8WLP5|Q95HC0|Q9TP68	Silent	SNP	ENST00000376861.1	37	CCDS43438.1	.	.	.	.	.	.	.	.	.	.	.	9.704	1.155158	0.21371	.	.	ENSG00000204642	ENST00000429294	.	.	.	1.92	1.92	0.25849	.	.	.	.	.	T	0.41673	0.1169	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.33471	-0.9867	4	.	.	.	.	7.2321	0.26049	0.0:1.0:0.0:0.0	.	.	.	.	L	100	.	.	P	+	2	0	HLA-F	29800839	0.995000	0.38212	0.970000	0.41538	0.982000	0.71751	1.737000	0.38197	1.046000	0.40249	0.436000	0.28706	CCC		0.587	HLA-F-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195083.1	NM_018950		T	29692860	C	T	29692860	2	4	592	1	0	0	0	0	0	0	0	1	7218	610	22	2		2	HLA-F	6	29692860	Silent	SNP	C	TCGA-G7-6796-01A-11D-1961-08	4092130	29692860	141422207	27	35277	268	2								
HLA-F	3134	ucsc.edu	37	chr6	29692866	29692866	+	Silent	SNP	G	G	A													0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	gaccatgaggccaccctgagGtgctgggccctgggcttcta							TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr6:29692866G>A	ENST00000376861.1	+	5	1053	c.669G>A	c.(667-669)agG>agA	p.R223R	HLA-F_ENST00000434407.2_Intron|HLA-F_ENST00000334668.4_Silent_p.R223R|HLA-F_ENST00000440587.2_Silent_p.R105R|HLA-F_ENST00000259951.7_Silent_p.R223R			P30511	HLAF_HUMAN	major histocompatibility complex, class I, F	223	Alpha-3.|Ig-like C1-type.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)	early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|membrane (GO:0016020)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)|TAP1 binding (GO:0046978)|TAP2 binding (GO:0046979)			cervix(1)|endometrium(1)|large_intestine(1)|lung(3)|prostate(1)|upper_aerodigestive_tract(1)	8						CCACCCTGAGGTGCTGGGCCC	0.597																																																0													54	53	53					6																	29692866		2203	4300	6503	SO:0001819	synonymous_variant	3134			AY253269	CCDS43437.1, CCDS43438.1, CCDS43439.1	6p21.3	2013-01-11			ENSG00000204642	ENSG00000204642		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4963	protein-coding gene	gene with protein product		143110				1688605	Standard	NM_018950		Approved		uc003nno.4	P30511	OTTHUMG00000031156	ENST00000376861.1:c.669G>A	6.37:g.29692866G>A		Somatic		WXS	Illumina HiSeq		Q5JQI8|Q5JQJ1|Q5SPT5|Q860R0|Q8MGQ1|Q8WLP5|Q95HC0|Q9TP68	Silent	SNP	ENST00000376861.1	37	CCDS43438.1	.	.	.	.	.	.	.	.	.	.	.	10.18	1.278060	0.23307	.	.	ENSG00000204642	ENST00000429294	.	.	.	1.92	1.92	0.25849	.	.	.	.	.	T	0.41673	0.1169	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.33471	-0.9867	4	.	.	.	.	7.2321	0.26049	0.0:0.0:1.0:0.0	.	.	.	.	D	102	.	.	G	+	2	0	HLA-F	29800845	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	1.835000	0.39181	1.046000	0.40249	0.436000	0.28706	GGT		0.597	HLA-F-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195083.1	NM_018950		A	29692866	G	A	29692866	2	1	592	1	0	0	0	0	0	0	0	1	7218	1252	44	2		2	HLA-F	6	29692866	Silent	SNP	G	TCGA-G7-6796-01A-11D-1961-08	6	29692866	141422201	28	35278	268	2								
DNAH8	1769	broad.mit.edu;bcgsc.ca	37	chr6	38843585	38843585	+	Frame_Shift_Del	DEL	G	G	-													0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tcaaatcaaaccatgtatgaGttttatgttactgattatgg							TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr6:38843585delG	ENST00000359357.3	+	51	7442	c.7188delG	c.(7186-7188)gagfs	p.E2396fs	DNAH8_ENST00000449981.2_Frame_Shift_Del_p.E2613fs|DNAH8_ENST00000441566.1_Frame_Shift_Del_p.E2360fs			Q96JB1	DYH8_HUMAN	dynein, axonemal, heavy chain 8	2396					cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(7)|breast(9)|central_nervous_system(4)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(3)|kidney(16)|large_intestine(44)|liver(4)|lung(101)|ovary(7)|pancreas(2)|prostate(8)|skin(28)|stomach(4)|upper_aerodigestive_tract(6)|urinary_tract(4)	260						CCATGTATGAGTTTTATGTTA	0.338																																																0													82	82	82					6																	38843585		2203	4300	6503	SO:0001589	frameshift_variant	1769			Z83806	CCDS75447.1	6p21.2	2012-04-19	2006-09-04		ENSG00000124721	ENSG00000124721		"Axonemal dyneins"	2952	protein-coding gene	gene with protein product		603337	"dynein, axonemal, heavy polypeptide 8"			9373155	Standard	NM_001206927		Approved	hdhc9	uc021yzh.1	Q96JB1	OTTHUMG00000016253	ENST00000359357.3:c.7188delG	6.37:g.38843585delG	ENSP00000352312:p.Glu2396fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00438|Q5JYI2|Q5T2M3|Q5T2M4|Q5TG00|Q9UEM4	Frame_Shift_Del	DEL	ENST00000359357.3	37																																																																																					0.338	DNAH8-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000043574.1	NM_001206927		-	38843585	G	-	38843585	7	5	592	1	0	1	0	1	0	0	0	0	4609	1020	36	0	7382	0	DNAH8	6	38843585	Frame_Shift_Del	DEL	G	TCGA-G7-6796-01A-11D-1961-08	9150719	38843585	132271482	29	35279										
KLC4	89953	broad.mit.edu;ucsc.edu	37	chr6	43042368	43042368	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tgtctgtttcaggtctcccgGggcctcagtgccagcaccat	11	14	4	0			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr6:43042368G>T	ENST00000394056.2	+	17	2313	c.1818G>T	c.(1816-1818)cgG>cgT	p.R606R	RP11-387M24.5_ENST00000606123.1_RNA|PTK7_ENST00000481273.1_5'Flank|PTK7_ENST00000345201.2_5'Flank|KLC4_ENST00000453940.2_Silent_p.R529R|PTK7_ENST00000230419.4_5'Flank|PTK7_ENST00000352931.2_5'Flank|KLC4_ENST00000347162.5_Silent_p.R606R|KLC4_ENST00000259708.3_Silent_p.R624R|KLC4_ENST00000394058.1_Silent_p.R606R|PTK7_ENST00000476760.1_5'Flank|KLC4_ENST00000479388.1_Silent_p.R606R|PTK7_ENST00000471863.1_5'Flank|PTK7_ENST00000349241.2_5'Flank			Q9NSK0	KLC4_HUMAN	kinesin light chain 4	606						cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	microtubule motor activity (GO:0003777)			endometrium(2)|large_intestine(7)|lung(5)|ovary(1)|pancreas(1)|skin(3)|urinary_tract(4)	23			all cancers(41;0.00169)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0376)|KIRC - Kidney renal clear cell carcinoma(2;0.0453)			AGGTCTCCCGGGGCCTCAGTG	0.607																																																0													117	103	108					6																	43042368		2203	4300	6503	SO:0001819	synonymous_variant	89953			AK055293	CCDS4882.1, CCDS4883.1, CCDS47429.1, CCDS75459.1	6p21.1	2013-01-10	2005-09-13	2005-09-13	ENSG00000137171	ENSG00000137171		"Tetratricopeptide (TTC) repeat domain containing"	21624	protein-coding gene	gene with protein product			"kinesin-like 8"	KNSL8			Standard	NM_001289034		Approved	bA387M24.3	uc003otw.1	Q9NSK0	OTTHUMG00000014720	ENST00000394056.2:c.1818G>T	6.37:g.43042368G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KNY4|B3KPI3|B3KSQ3|B4DME9|Q66K28|Q96EG6	Silent	SNP	ENST00000394056.2	37	CCDS4883.1																																																																																				0.607	KLC4-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040579.2	NM_138343		T	43042368	G	T	43042368	2	4	592	1	0	0	0	0	0	0	0	1	8343	1219	43	4		4	KLC4	6	43042368	Silent	SNP	G	TCGA-G7-6796-01A-11D-1961-08	4198783	43042368	128072699	30	35280										
LMBRD1	55788	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	70462182	70462182	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tagtatcatcatcatcctttTcttcataatagaagtagaca	4	8	5	2			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr6:70462182T>C	ENST00000370577.3	-	4	603	c.374A>G	c.(373-375)gAa>gGa	p.E125G	LMBRD1_ENST00000370570.1_Missense_Mutation_p.E52G	NM_018368.3	NP_060838.3	Q9NUN5	LMBD1_HUMAN	LMBR1 domain containing 1	125					cobalamin metabolic process (GO:0009235)|insulin receptor internalization (GO:0038016)|negative regulation of glucose import (GO:0046325)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of protein kinase B signaling (GO:0051898)|small molecule metabolic process (GO:0044281)|viral process (GO:0016032)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	clathrin-coated endocytic vesicle (GO:0045334)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|plasma membrane (GO:0005886)	cobalamin binding (GO:0031419)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(7)|lung(11)|ovary(2)|upper_aerodigestive_tract(1)	31						ATCATCCTTTTCTTCATAATA	0.294																																																0													54	56	56					6																	70462182		2197	4278	6475	SO:0001583	missense	55788			AF113224	CCDS4969.1	6q13	2011-05-12	2005-07-25	2005-07-25	ENSG00000168216	ENSG00000168216			23038	protein-coding gene	gene with protein product		612625	"chromosome 6 open reading frame 209"	C6orf209		19136951	Standard	NM_018368		Approved	FLJ11240, bA810I22.1, cblF	uc003pfa.3	Q9NUN5	OTTHUMG00000014985	ENST00000370577.3:c.374A>G	6.37:g.70462182T>C	ENSP00000359609:p.Glu125Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K204|E1P531|Q5VUN6|Q86Y70|Q96FW4|Q9BY56|Q9NZD6	Missense_Mutation	SNP	ENST00000370577.3	37	CCDS4969.1	.	.	.	.	.	.	.	.	.	.	T	16.36	3.102734	0.56183	.	.	ENSG00000168216	ENST00000370577;ENST00000370570	T;T	0.26067	1.76;1.76	5.33	4.15	0.48705	LMBR1-like membrane protein (1);	0.051951	0.85682	D	0.000000	T	0.19805	0.0476	M	0.85462	2.755	0.58432	D	0.999998	B	0.18968	0.032	B	0.22880	0.042	T	0.09487	-1.0672	10	0.39692	T	0.17	-12.1431	10.4775	0.44674	0.0:0.0797:0.0:0.9203	.	125	Q9NUN5	LMBD1_HUMAN	G	125;52	ENSP00000359609:E125G;ENSP00000359602:E52G	ENSP00000359602:E52G	E	-	2	0	LMBRD1	70518903	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	5.495000	0.66912	2.022000	0.59522	0.455000	0.32223	GAA		0.294	LMBRD1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041124.1	NM_018368		C	70462182	T	C	70462182	3	2	592	1	0	0	0	0	1	0	0	0	8849	1783	62	3	1300	3	LMBRD1	6	70462182	Missense_Mutation	SNP	T	TCGA-G7-6796-01A-11D-1961-08	27419814	70462182	100652885	31	35281										
SYNE1	23345	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	152673335	152673335	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	catgtgttctttccggacagTgctggtcagttccttcaact	9	11	3	0			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr6:152673335T>C	ENST00000367255.5	-	70	12008	c.11407A>G	c.(11407-11409)Act>Gct	p.T3803A	SYNE1_ENST00000341594.5_Missense_Mutation_p.T3774A|SYNE1_ENST00000265368.4_Missense_Mutation_p.T3803A|SYNE1_ENST00000423061.1_Missense_Mutation_p.T3788A|SYNE1_ENST00000448038.1_Missense_Mutation_p.T3788A	NM_182961.3	NP_892006.3	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3803					cell death (GO:0008219)|cytoskeletal anchoring at nuclear membrane (GO:0090286)|establishment of nucleus localization (GO:0040023)|Golgi organization (GO:0007030)|muscle cell differentiation (GO:0042692)|nuclear matrix anchoring at nuclear membrane (GO:0090292)|nucleus organization (GO:0006997)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|postsynaptic membrane (GO:0045211)|sarcomere (GO:0030017)|SUN-KASH complex (GO:0034993)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|lamin binding (GO:0005521)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)			NS(3)|biliary_tract(1)|breast(17)|central_nervous_system(21)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(4)|kidney(16)|large_intestine(138)|liver(1)|lung(190)|ovary(11)|pancreas(5)|prostate(12)|skin(20)|stomach(3)|upper_aerodigestive_tract(33)|urinary_tract(19)	524		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTCCGGACAGTGCTGGTCAGT	0.448										HNSCC(10;0.0054)																																						0													251	230	237					6																	152673335		2203	4300	6503	SO:0001583	missense	23345			AB018339	CCDS5235.1, CCDS5236.1, CCDS5236.2	6q24.2-q25.3	2014-09-17			ENSG00000131018	ENSG00000131018			17089	protein-coding gene	gene with protein product	"myocyte nuclear envelope protein 1", "nuclear envelope spectrin repeat-1"	608441	"chromosome 6 open reading frame 98"	C6orf98		9872452, 10878022	Standard	NM_182961		Approved	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1	uc003qou.4	Q8NF91	OTTHUMG00000015841	ENST00000367255.5:c.11407A>G	6.37:g.152673335T>C	ENSP00000356224:p.Thr3803Ala	Somatic		WXS	Illumina HiSeq	Phase_I	E7EQI5|O94890|Q5JV19|Q5JV22|Q8N9P7|Q8TCP1|Q8WWW6|Q8WWW7|Q8WXF6|Q96N17|Q9C0A7|Q9H525|Q9H526|Q9NS36|Q9NU50|Q9UJ06|Q9UJ07|Q9ULF8	Missense_Mutation	SNP	ENST00000367255.5	37	CCDS5236.2	.	.	.	.	.	.	.	.	.	.	T	9.518	1.107572	0.20714	.	.	ENSG00000131018	ENST00000367255;ENST00000423061;ENST00000265368;ENST00000448038;ENST00000341594	T;T;T;T;T	0.34072	1.45;1.45;1.45;1.45;1.38	6.04	2.28	0.28536	.	0.339507	0.25194	N	0.032438	T	0.07638	0.0192	L	0.43152	1.355	0.09310	N	0.999998	B;B;B;B	0.09022	0.002;0.002;0.002;0.001	B;B;B;B	0.06405	0.001;0.001;0.001;0.002	T	0.39603	-0.9606	10	0.08837	T	0.75	.	4.3779	0.11279	0.2094:0.2204:0.0:0.5702	.	3803;3803;3803;3788	B7ZBC3;Q8NF91;E7EQI5;Q8NF91-4	.;SYNE1_HUMAN;.;.	A	3803;3788;3803;3788;3774	ENSP00000356224:T3803A;ENSP00000396024:T3788A;ENSP00000265368:T3803A;ENSP00000390975:T3788A;ENSP00000341887:T3774A	ENSP00000265368:T3803A	T	-	1	0	SYNE1	152715028	0.076000	0.21285	0.602000	0.28890	0.876000	0.50452	0.615000	0.24329	0.155000	0.19261	0.460000	0.39030	ACT		0.448	SYNE1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000334755.2	NM_182961		C	152673335	T	C	152673335	3	2	592	1	0	0	0	0	1	0	0	0	15457	1696	59	3	15367	3	SYNE1	6	152673335	Missense_Mutation	SNP	T	TCGA-G7-6796-01A-11D-1961-08	82211153	152673335	18441732	32	35282										
C7orf42	55069	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	66410208	66410208	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tattcccgcaacgtcacccaTctgtactcaaccatcttagg	5	15	4	0			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr7:66410208T>C	ENST00000341567.4	+	3	660	c.405T>C	c.(403-405)caT>caC	p.H135H		NM_017994.4	NP_060464.1	Q9NWD8	TM248_HUMAN	transmembrane protein 248	135						integral component of membrane (GO:0016021)											ACGTCACCCATCTGTACTCAA	0.527																																																0													107	105	106					7																	66410208		2203	4300	6503	SO:0001819	synonymous_variant	55069				CCDS5536.1	7q11.21	2012-05-30	2012-05-30	2012-05-30	ENSG00000106609	ENSG00000106609			25476	protein-coding gene	gene with protein product			"chromosome 7 open reading frame 42"	C7orf42		12477932	Standard	XM_005250482		Approved	FLJ10099, FLJ13090	uc003tvk.3	Q9NWD8	OTTHUMG00000129553	ENST00000341567.4:c.405T>C	7.37:g.66410208T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q53H07|Q96FR2	Silent	SNP	ENST00000341567.4	37	CCDS5536.1																																																																																				0.527	TMEM248-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251745.2	NM_017994		C	66410208	T	C	66410208	2	2	592	1	0	0	0	0	0	0	0	1	2394	1432	50	3		3	C7orf42	7	66410208	Silent	SNP	T	TCGA-G7-6796-01A-11D-1961-08		66410208	92728455	33	35283										
DOCK4	9732	hgsc.bcm.edu	37	chr7	111387432	111387432	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ttgtctgacactgactaatcAgagtcttcagctgctgattc	8	10	4	4			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr7:111387432A>G	ENST00000437633.1	-	42	4713	c.4457T>C	c.(4456-4458)cTg>cCg	p.L1486P	DOCK4_ENST00000428084.1_Missense_Mutation_p.L1495P|DOCK4_ENST00000494651.2_Missense_Mutation_p.L369P	NM_014705.3	NP_055520.3	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1486	DHR-2.				cell chemotaxis (GO:0060326)|positive regulation of Rac GTPase activity (GO:0032855)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)|stereocilium (GO:0032420)|stereocilium bundle (GO:0032421)	guanyl-nucleotide exchange factor activity (GO:0005085)|PDZ domain binding (GO:0030165)|Rac GTPase activator activity (GO:0030675)|Rac GTPase binding (GO:0048365)|receptor tyrosine kinase binding (GO:0030971)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(13)|lung(31)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(4)	72		Acute lymphoblastic leukemia(1;0.0441)				CTGACTAATCAGAGTCTTCAG	0.388																																																0													92	90	91					7																	111387432		1929	4134	6063	SO:0001583	missense	9732				CCDS47688.1	7q31.1	2007-08-07			ENSG00000128512	ENSG00000128512			19192	protein-coding gene	gene with protein product		607679				12432077, 12628187	Standard	XM_006716188		Approved	FLJ34238, KIAA0716	uc003vfx.3	Q8N1I0	OTTHUMG00000155077	ENST00000437633.1:c.4457T>C	7.37:g.111387432A>G	ENSP00000404179:p.Leu1486Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O14584|O94824|Q8NB45	Missense_Mutation	SNP	ENST00000437633.1	37	CCDS47688.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	22.7|22.7	4.330553|4.330553	0.81690|0.81690	.|.	.|.	ENSG00000128512|ENSG00000128512	ENST00000352877;ENST00000428084;ENST00000494651;ENST00000437633;ENST00000342288|ENST00000423057;ENST00000445943	T;T;T|.	0.19669|.	2.13;2.13;2.13|.	5.27|5.27	5.27|5.27	0.74061|0.74061	.|.	0.143240|.	0.48767|.	D|.	0.000170|.	T|.	0.80597|.	0.4653|.	M|M	0.89095|0.89095	3.005|3.005	0.80722|0.80722	D|D	1|1	D;D;D;D;D|.	0.89917|.	1.0;1.0;1.0;1.0;1.0|.	D;D;D;D;D|.	0.97110|.	0.999;0.997;1.0;1.0;0.998|.	D|.	0.84237|.	0.0470|.	10|.	0.87932|.	D|.	0|.	.|.	15.3585|15.3585	0.74448|0.74448	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	393;369;1531;1486;1495|.	B7Z2K9;F5GXW1;Q149N5;Q8N1I0;Q8N1I0-2|.	.;.;.;DOCK4_HUMAN;.|.	P|R	1474;1495;369;1486;1483|947;1519	ENSP00000410746:L1495P;ENSP00000440944:L369P;ENSP00000404179:L1486P|.	ENSP00000345432:L1483P|.	L|X	-|-	2|1	0|0	DOCK4|DOCK4	111174668|111174668	1.000000|1.000000	0.71417|0.71417	0.999000|0.999000	0.59377|0.59377	0.990000|0.990000	0.78478|0.78478	9.139000|9.139000	0.94554|0.94554	2.218000|2.218000	0.71995|0.71995	0.533000|0.533000	0.62120|0.62120	CTG|TGA		0.388	DOCK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338369.4	NM_014705		G	111387432	A	G	111387432	3	3	592	1	0	0	0	0	1	0	0	0	4691	188	7	3	1487	3	DOCK4	7	111387432	Missense_Mutation	SNP	A	TCGA-G7-6796-01A-11D-1961-08	44977224	111387432	47751231	34	35284										
ING3	54556	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	120595620	120595620	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tgttttcattcaggactactAtaaagctttggaagatgcag	9	6	2	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr7:120595620A>G	ENST00000315870.5	+	4	357	c.209A>G	c.(208-210)tAt>tGt	p.Y70C	ING3_ENST00000445699.1_Missense_Mutation_p.Y70C|ING3_ENST00000339121.5_Missense_Mutation_p.Y70C|ING3_ENST00000431467.1_Missense_Mutation_p.Y55C	NM_019071.2	NP_061944.2	Q9NXR8	ING3_HUMAN	inhibitor of growth family, member 3	70					chromatin organization (GO:0006325)|histone H2A acetylation (GO:0043968)|histone H4 acetylation (GO:0043967)|positive regulation of apoptotic process (GO:0043065)|regulation of growth (GO:0040008)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|NuA4 histone acetyltransferase complex (GO:0035267)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|Piccolo NuA4 histone acetyltransferase complex (GO:0032777)|Swr1 complex (GO:0000812)	methylated histone binding (GO:0035064)|zinc ion binding (GO:0008270)			NS(1)|large_intestine(2)|lung(7)|ovary(1)|urinary_tract(1)	12	all_neural(327;0.117)					CAGGACTACTATAAAGCTTTG	0.303																																																0													78	79	78					7																	120595620		2203	4300	6503	SO:0001583	missense	54556			AF074968	CCDS5778.1, CCDS35497.1	7q31	2013-01-28			ENSG00000071243	ENSG00000071243		"Zinc fingers, PHD-type"	14587	protein-coding gene	gene with protein product		607493				12080476	Standard	NM_019071		Approved	p47ING3, FLJ20089, Eaf4, MEAF4	uc003vjn.3	Q9NXR8	OTTHUMG00000141270	ENST00000315870.5:c.209A>G	7.37:g.120595620A>G	ENSP00000320566:p.Tyr70Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K790|O60394|Q567P3|Q6GMT3|Q7Z762|Q969G0|Q96DT4|Q9HC99|Q9P081	Missense_Mutation	SNP	ENST00000315870.5	37	CCDS5778.1	.	.	.	.	.	.	.	.	.	.	A	20.4	3.990024	0.74589	.	.	ENSG00000071243	ENST00000315870;ENST00000339121;ENST00000445699;ENST00000431467	D;D	0.95518	-3.7;-3.73	5.54	5.54	0.83059	Inhibitor of growth protein, N-terminal (1);	0.059163	0.64402	D	0.000001	D	0.96765	0.8944	M	0.73598	2.24	0.80722	D	1	D;D;D;D;D	0.76494	0.999;0.975;0.988;0.999;0.999	D;P;P;D;D	0.67900	0.911;0.739;0.811;0.912;0.954	D	0.95906	0.8919	10	0.38643	T	0.18	-21.6296	10.2439	0.43330	0.852:0.0:0.0:0.148	.	70;70;70;70;70	B7ZKQ7;Q5GRH6;Q9NXR8;Q9NXR8-2;C9JUT0	.;.;ING3_HUMAN;.;.	C	70;70;70;55	ENSP00000320566:Y70C;ENSP00000388506:Y55C	ENSP00000320566:Y70C	Y	+	2	0	ING3	120382856	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	6.966000	0.76073	2.230000	0.72887	0.528000	0.53228	TAT		0.303	ING3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280453.2	NM_019071		G	120595620	A	G	120595620	3	3	592	1	0	0	0	0	1	0	0	0	7744	449	16	3	223	3	ING3	7	120595620	Missense_Mutation	SNP	A	TCGA-G7-6796-01A-11D-1961-08	9208188	120595620	38543043	35	35285										
MCPH1	79648	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	6302006	6302006	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	aaaggaagttggaaggatccAttaatgacattaaaagtgat	10	3	0	2			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr8:6302006A>T	ENST00000344683.5	+	8	839	c.763A>T	c.(763-765)Att>Ttt	p.I255F	MCPH1_ENST00000522905.1_Missense_Mutation_p.I207F|MCPH1_ENST00000519480.1_Missense_Mutation_p.I255F	NM_024596.3	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin 1	255					cerebral cortex development (GO:0021987)|mitotic cell cycle (GO:0000278)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleoplasm (GO:0005654)	identical protein binding (GO:0042802)		AGPAT5/MCPH1(2)	central_nervous_system(1)|large_intestine(4)|skin(1)	6		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		GGAAGGATCCATTAATGACAT	0.358																																					Colon(95;1448 1467 8277 34473 35819)											0													129	122	124					8																	6302006		1883	4107	5990	SO:0001583	missense	79648			AK022909	CCDS43689.1, CCDS55190.1, CCDS55191.1	8p23.1	2012-11-26	2007-11-26		ENSG00000147316	ENSG00000147316			6954	protein-coding gene	gene with protein product	"BRCT-repeat inhibitor of TERT expression 1"	607117	"microcephaly, primary autosomal recessive 1"			9683597, 17925396	Standard	NM_024596		Approved	FLJ12847, BRIT1	uc003wqi.3	Q8NEM0	OTTHUMG00000163618	ENST00000344683.5:c.763A>T	8.37:g.6302006A>T	ENSP00000342924:p.Ile255Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B4DWW2|E9PGU5|E9PH63|Q66GU1|Q9H9C7	Missense_Mutation	SNP	ENST00000344683.5	37	CCDS43689.1	.	.	.	.	.	.	.	.	.	.	A	24.9	4.579572	0.86645	.	.	ENSG00000147316	ENST00000344683;ENST00000519480;ENST00000522905	T;T;T	0.13778	2.56;2.56;2.56	5.26	-7.74	0.01241	.	1.774350	0.02525	N	0.092983	T	0.17492	0.0420	L	0.53249	1.67	0.09310	N	1	P;P;P	0.46784	0.884;0.867;0.884	P;P;P	0.52267	0.522;0.694;0.522	T	0.40289	-0.9571	10	0.32370	T	0.25	0.0924	3.4052	0.07338	0.3624:0.1106:0.4182:0.1088	.	207;255;255	E9PH63;Q8NEM0;E9PGU5	.;MCPH1_HUMAN;.	F	255;255;207	ENSP00000342924:I255F;ENSP00000430962:I255F;ENSP00000430768:I207F	ENSP00000342924:I255F	I	+	1	0	MCPH1	6289414	0.000000	0.05858	0.000000	0.03702	0.857000	0.48899	-0.113000	0.10774	-1.605000	0.01593	0.533000	0.62120	ATT		0.358	MCPH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374532.2	NM_024596		T	6302006	A	T	6302006	3	4	592	1	0	0	0	0	1	0	0	0	9405	217	8	5	793	5	MCPH1	8	6302006	Missense_Mutation	SNP	A	TCGA-G7-6796-01A-11D-1961-08		6302006	140062016	36	35286										
IKBKB	3551	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	42173753	42173753	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tggctgagcgactggagaagTggctgcaactgatgctgatg	16	7	0	4			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr8:42173753T>A	ENST00000520810.1	+	10	1012	c.826T>A	c.(826-828)Tgg>Agg	p.W276R	IKBKB_ENST00000522147.1_Intron|IKBKB_ENST00000379708.3_Missense_Mutation_p.W53R|IKBKB_ENST00000520835.1_Missense_Mutation_p.W274R|IKBKB_ENST00000416505.2_Missense_Mutation_p.W217R	NM_001556.2	NP_001547.1	O14920	IKKB_HUMAN	inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase beta	276	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				B cell homeostasis (GO:0001782)|cellular response to tumor necrosis factor (GO:0071356)|Fc-epsilon receptor signaling pathway (GO:0038095)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|I-kappaB phosphorylation (GO:0007252)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic process (GO:0043066)|neurotrophin TRK receptor signaling pathway (GO:0048011)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of cation channel activity (GO:2001259)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of sodium ion transport (GO:0010765)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of type I interferon production (GO:0032481)|protein phosphorylation (GO:0006468)|response to virus (GO:0009615)|serine phosphorylation of STAT protein (GO:0042501)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	CD40 receptor complex (GO:0035631)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|IkappaB kinase complex (GO:0008385)|nucleus (GO:0005634)	ATP binding (GO:0005524)|IkappaB kinase activity (GO:0008384)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)|scaffold protein binding (GO:0097110)			breast(4)|lung(1)|ovary(2)|skin(1)	8	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;6.21e-12)|Lung NSC(13;1.04e-10)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;1.37e-10)|Colorectal(10;0.00102)|OV - Ovarian serous cystadenocarcinoma(14;0.00168)|Lung(22;0.00467)|LUSC - Lung squamous cell carcinoma(45;0.024)|COAD - Colon adenocarcinoma(11;0.0264)		Acetylcysteine(DB06151)|Acetylsalicylic acid(DB00945)|Arsenic trioxide(DB01169)|Auranofin(DB00995)|Mesalazine(DB00244)|Sulfasalazine(DB00795)	ACTGGAGAAGTGGCTGCAACT	0.562																																																0													66	58	61					8																	42173753		2203	4300	6503	SO:0001583	missense	3551			AF029684	CCDS6128.1, CCDS55228.1, CCDS56535.1	8p11.2	2008-08-18			ENSG00000104365	ENSG00000104365			5960	protein-coding gene	gene with protein product		603258				9878263, 9763654	Standard	NM_001556		Approved	IKK2, NFKBIKB, IKK-beta, IKKB	uc003xow.2	O14920	OTTHUMG00000164092	ENST00000520810.1:c.826T>A	8.37:g.42173753T>A	ENSP00000430684:p.Trp276Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ30|B4E0U4|O75327	Missense_Mutation	SNP	ENST00000520810.1	37	CCDS6128.1	.	.	.	.	.	.	.	.	.	.	T	25.2	4.617138	0.87359	.	.	ENSG00000104365	ENST00000520810;ENST00000416505;ENST00000520835;ENST00000379708	T;T;T;T	0.64803	-0.12;-0.12;-0.12;1.78	5.27	5.27	0.74061	Serine/threonine-protein kinase-like domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.057892	0.85682	D	0.000000	T	0.78780	0.4337	M	0.75264	2.295	0.80722	D	1	P;D;P;D;D;D	0.89917	0.879;0.998;0.836;0.999;0.995;1.0	P;D;B;D;D;D	0.97110	0.745;0.987;0.425;0.987;0.988;1.0	T	0.81621	-0.0850	10	0.72032	D	0.01	.	15.1947	0.73078	0.0:0.0:0.0:1.0	.	217;274;53;227;276;276	B4E0U4;O14920-2;B3KRB7;Q59GL9;O14920;Q32ND9	.;.;.;.;IKKB_HUMAN;.	R	276;217;274;53	ENSP00000430684:W276R;ENSP00000404920:W217R;ENSP00000430868:W274R;ENSP00000369030:W53R	ENSP00000369030:W53R	W	+	1	0	IKBKB	42292910	1.000000	0.71417	1.000000	0.80357	0.939000	0.58152	6.228000	0.72288	1.994000	0.58287	0.460000	0.39030	TGG		0.562	IKBKB-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377214.1			A	42173753	T	A	42173753	3	1	592	1	0	0	0	0	1	0	0	0	7618	1696	59	5	860	5	IKBKB	8	42173753	Missense_Mutation	SNP	T	TCGA-G7-6796-01A-11D-1961-08	35871747	42173753	104190269	37	35287										
FBXL6	26233	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	145579793	145579793	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	gcagtgtatggcaccacttcTgggtcaaaaaggggctgccc	13	11	2	0			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr8:145579793T>C	ENST00000331890.5	-	8	1371	c.1307A>G	c.(1306-1308)cAg>cGg	p.Q436R	SLC52A2_ENST00000540505.1_5'Flank|TMEM249_ENST00000531225.1_5'Flank|SLC52A2_ENST00000530047.1_5'Flank|FBXL6_ENST00000526524.1_Intron|SLC52A2_ENST00000329994.2_5'Flank|SLC52A2_ENST00000532887.1_5'Flank|SLC52A2_ENST00000527078.1_5'Flank|TMEM249_ENST00000398633.3_5'Flank|SLC52A2_ENST00000402965.1_5'Flank|FBXL6_ENST00000455319.2_Missense_Mutation_p.Q430R	NM_012162.2	NP_036294.2	Q8N531	FBXL6_HUMAN	F-box and leucine-rich repeat protein 6	436					protein ubiquitination (GO:0016567)|proteolysis (GO:0006508)		ubiquitin-protein transferase activity (GO:0004842)			endometrium(1)|lung(3)|ovary(1)	5	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)			GCACCACTTCTGGGTCAAAAA	0.592																																																0													70	77	74					8																	145579793		2203	4299	6502	SO:0001583	missense	26233			AF174592	CCDS6422.1, CCDS47942.1	8q24.3	2011-06-09			ENSG00000182325	ENSG00000182325		"F-boxes / Leucine-rich repeats"	13603	protein-coding gene	gene with protein product		609076				10531035, 10531037	Standard	NM_012162		Approved	FBL6	uc003zcb.3	Q8N531	OTTHUMG00000165169	ENST00000331890.5:c.1307A>G	8.37:g.145579793T>C	ENSP00000330098:p.Gln436Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q53G43|Q9H5W9|Q9UKC7	Missense_Mutation	SNP	ENST00000331890.5	37	CCDS6422.1	.	.	.	.	.	.	.	.	.	.	T	10.23	1.292836	0.23564	.	.	ENSG00000182325	ENST00000455319;ENST00000331890	T;T	0.24538	1.85;1.85	5.13	1.23	0.21249	.	0.612082	0.16879	N	0.195799	T	0.14141	0.0342	L	0.31207	0.915	0.22803	N	0.998711	B;B	0.14438	0.006;0.01	B;B	0.11329	0.003;0.006	T	0.32955	-0.9887	10	0.12766	T	0.61	-2.0714	6.0415	0.19736	0.0:0.403:0.0:0.597	.	436;430	Q8N531;Q8N531-2	FBXL6_HUMAN;.	R	430;436	ENSP00000403873:Q430R;ENSP00000330098:Q436R	ENSP00000330098:Q436R	Q	-	2	0	FBXL6	145550601	0.622000	0.27085	0.991000	0.47740	0.810000	0.45777	0.327000	0.19663	0.240000	0.21263	0.460000	0.39030	CAG		0.592	FBXL6-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000382413.1	NM_024555		C	145579793	T	C	145579793	3	2	592	1	0	0	0	0	1	0	0	0	5730	1580	55	3	320	3	FBXL6	8	145579793	Missense_Mutation	SNP	T	TCGA-G7-6796-01A-11D-1961-08	103406040	145579793	784229	38	35288										
SVEP1	79987	broad.mit.edu	37	chr9	113198779	113198779	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ttgccccagaactaacgcacCaccacctaaggagagagaaa	8	13	0	3			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr9:113198779C>T	ENST00000401783.2	-	28	4981	c.4645G>A	c.(4645-4647)Ggt>Agt	p.G1549S	SVEP1_ENST00000374469.1_Missense_Mutation_p.G1526S	NM_153366.3	NP_699197.3	Q4LDE5	SVEP1_HUMAN	sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1	1549	Pentaxin.				cell adhesion (GO:0007155)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|membrane (GO:0016020)	calcium ion binding (GO:0005509)|chromatin binding (GO:0003682)			NS(1)|autonomic_ganglia(1)|breast(5)|central_nervous_system(1)|cervix(2)|endometrium(19)|kidney(8)|large_intestine(24)|lung(58)|ovary(7)|prostate(7)|skin(1)|stomach(4)|upper_aerodigestive_tract(5)|urinary_tract(4)	147						ACTAACGCACCACCACCTAAG	0.453																																																0													56	54	55					9																	113198779		1865	4103	5968	SO:0001583	missense	79987			AK027870		9q31-q32	2008-02-05	2005-03-15	2005-03-17	ENSG00000165124	ENSG00000165124			15985	protein-coding gene	gene with protein product		611691	"chromosome 9 open reading frame 13"	C9orf13			Standard	NM_153366		Approved	bA427L11.3, POLYDOM, FLJ13529	uc010mtz.3	Q4LDE5	OTTHUMG00000020482	ENST00000401783.2:c.4645G>A	9.37:g.113198779C>T	ENSP00000384917:p.Gly1549Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q0P675|Q5D213|Q5T938|Q5VTE4|Q5VTE5|Q7Z387|Q7Z3G3|Q8NBT9|Q96JU7|Q9H284|Q9H8J9	Missense_Mutation	SNP	ENST00000401783.2	37	CCDS48004.1	.	.	.	.	.	.	.	.	.	.	C	35	5.491525	0.96339	.	.	ENSG00000165124	ENST00000401783;ENST00000374469	T;T	0.06068	3.35;3.35	6.03	6.03	0.97812	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);	0.000000	0.85682	D	0.000000	T	0.39172	0.1068	H	0.94222	3.51	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.44787	-0.9305	10	0.46703	T	0.11	.	20.5568	0.99304	0.0:1.0:0.0:0.0	.	1549	Q4LDE5	SVEP1_HUMAN	S	1549;1526	ENSP00000384917:G1549S;ENSP00000363593:G1526S	ENSP00000363593:G1526S	G	-	1	0	SVEP1	112238600	1.000000	0.71417	1.000000	0.80357	0.904000	0.53231	7.464000	0.80887	2.861000	0.98227	0.655000	0.94253	GGT		0.453	SVEP1-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding				T	113198779	C	T	113198779	3	4	592	1	0	0	0	0	1	0	0	0	15432	594	21	2	6154	2	SVEP1	9	113198779	Missense_Mutation	SNP	C	TCGA-G7-6796-01A-11D-1961-08		113198779	28014652	39	35289										
KIN	22944	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	7825098	7825098	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ctgaagccagcaatagttgtCtctgatgagattcggacata	10	8	1	3			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr10:7825098C>G	ENST00000379562.4	-	2	202	c.155G>C	c.(154-156)aGa>aCa	p.R52T	KIN_ENST00000543003.1_Intron|KIN_ENST00000535925.1_Missense_Mutation_p.R52T	NM_012311.3	NP_036443.1			Kin17 DNA and RNA binding protein											endometrium(1)|kidney(2)|large_intestine(3)|lung(9)|ovary(1)|pancreas(1)|skin(2)	19						CAATAGTTGTCTCTGATGAGA	0.328																																																0													61	60	60					10																	7825098		2203	4298	6501	SO:0001583	missense	22944			AJ005273	CCDS7080.1	10p15-p14	2014-07-15	2014-07-15		ENSG00000151657	ENSG00000151657			6327	protein-coding gene	gene with protein product		601720	"antigenic determinant of recA protein (mouse) homolog", "KIN, antigenic determinant of recA protein homolog (mouse)"			1923796, 24140279	Standard	NM_012311		Approved	KIN17, Rts2	uc001ijt.3	O60870	OTTHUMG00000017634	ENST00000379562.4:c.155G>C	10.37:g.7825098C>G	ENSP00000368881:p.Arg52Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000379562.4	37	CCDS7080.1	.	.	.	.	.	.	.	.	.	.	C	22.3	4.266664	0.80358	.	.	ENSG00000151657	ENST00000535925;ENST00000379562	.	.	.	6.06	4.18	0.49190	DNA/RNA-binding protein Kin17, conserved domain (1);	0.132739	0.64402	D	0.000002	T	0.81331	0.4800	H	0.95114	3.625	0.80722	D	1	B;B	0.22146	0.065;0.065	B;B	0.35470	0.203;0.203	T	0.80384	-0.1405	9	0.87932	D	0	-35.5448	10.9911	0.47549	0.13:0.8027:0.0:0.0672	.	52;52	B4DX32;O60870	.;KIN17_HUMAN	T	52	.	ENSP00000368881:R52T	R	-	2	0	KIN	7865104	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	7.693000	0.84214	0.846000	0.35142	0.650000	0.86243	AGA		0.328	KIN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046683.2	NM_012311		G	7825098	C	G	7825098	3	3	592	1	0	0	0	0	1	0	0	0	8322	913	32	4	1074	4	KIN	10	7825098	Missense_Mutation	SNP	C	TCGA-G7-6796-01A-11D-1961-08		7825098	127709649	40	35290										
PLCE1	51196	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr10	95849076	95849076	+	Intron	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ctcttcccgctctctgaggtAcccaattttaccttgttaaa	5	13	2	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr10:95849076A>G	ENST00000371380.3	+	2	1441				PLCE1_ENST00000371375.1_Silent_p.V75V|PLCE1_ENST00000371385.3_Silent_p.V75V|RP11-429H9.4_ENST00000438899.1_RNA|PLCE1_ENST00000260766.3_Intron			Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1						activation of MAPK activity (GO:0000187)|calcium-mediated signaling (GO:0019722)|cell proliferation (GO:0008283)|cytoskeleton organization (GO:0007010)|diacylglycerol biosynthetic process (GO:0006651)|epidermal growth factor receptor signaling pathway (GO:0007173)|glomerulus development (GO:0032835)|heart development (GO:0007507)|inositol phosphate metabolic process (GO:0043647)|inositol phosphate-mediated signaling (GO:0048016)|lipid catabolic process (GO:0016042)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|phospholipid metabolic process (GO:0006644)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of GTPase activity (GO:0043547)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|Ras protein signal transduction (GO:0007265)|regulation of cell growth (GO:0001558)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|regulation of protein kinase activity (GO:0045859)|regulation of Ras protein signal transduction (GO:0046578)|regulation of smooth muscle contraction (GO:0006940)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|enzyme binding (GO:0019899)|guanyl-nucleotide exchange factor activity (GO:0005085)|phosphatidylinositol phospholipase C activity (GO:0004435)|phospholipase C activity (GO:0004629)|Ras GTPase binding (GO:0017016)|receptor signaling protein activity (GO:0005057)			liver(1)|ovary(2)|skin(4)|upper_aerodigestive_tract(1)	8		Colorectal(252;0.0458)				TCTCTGAGGTACCCAATTTTA	0.502																																																0													142	126	131					10																	95849076		1568	3582	5150	SO:0001627	intron_variant	51196				CCDS41552.1, CCDS53555.1	10q23	2010-02-22			ENSG00000138193	ENSG00000138193	3.1.4.11		17175	protein-coding gene	gene with protein product	"nephrosis type 3"	608414				11022047, 11022048	Standard	NM_016341		Approved	KIAA1516, PLCE, NPHS3	uc001kjk.3	Q9P212	OTTHUMG00000018789	ENST00000371380.3:c.1207-42855A>G	10.37:g.95849076A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NGW0|A6NLA1|A7MBN7|A8K1D7|B9EIJ6|Q1X6H8|Q5VWL4|Q5VWL5|Q9H9X8|Q9HBX6|Q9HC53|Q9UHV3	Silent	SNP	ENST00000371380.3	37	CCDS41552.1																																																																																				0.502	PLCE1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049469.3	NM_016341		G	95849076	A	G	95849076	1	3	592	0	1	0	0	0	0	0	0	0	12041	378	14	3		3	PLCE1	10	95849076	Intron	SNP	A	TCGA-G7-6796-01A-11D-1961-08	88023978	95849076	39685671	41	35291										
BEST1	7439	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	61730354	61730354	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	cacatggatccttattgggcCttggaaaacaggtctgtcct	10	10	1	0			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr11:61730354C>T	ENST00000378043.4	+	10	2371	c.1728C>T	c.(1726-1728)gcC>gcT	p.A576A	BEST1_ENST00000301774.9_Silent_p.A204A|BEST1_ENST00000378042.3_Silent_p.A489A|FTH1_ENST00000529191.1_Intron|FTH1_ENST00000529631.1_Intron|BEST1_ENST00000534553.1_3'UTR|BEST1_ENST00000449131.2_Silent_p.A516A	NM_004183.3	NP_004174.1	O76090	BEST1_HUMAN	bestrophin 1	576					chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|detection of light stimulus involved in visual perception (GO:0050908)|ion transmembrane transport (GO:0034220)|regulation of calcium ion transport (GO:0051924)|transepithelial chloride transport (GO:0030321)|transmembrane transport (GO:0055085)|visual perception (GO:0007601)	basolateral plasma membrane (GO:0016323)|chloride channel complex (GO:0034707)|cytosol (GO:0005829)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	chloride channel activity (GO:0005254)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(9)|prostate(1)|skin(2)|urinary_tract(2)	25						CTTATTGGGCCTTGGAAAACA	0.507																																																0													120	130	126					11																	61730354		2202	4299	6501	SO:0001819	synonymous_variant	7439			AF057170	CCDS31580.1, CCDS44623.1	11q12	2013-02-14	2006-10-18	2006-10-18	ENSG00000167995	ENSG00000167995		"Ion channels / Chloride channels : Calcium activated : Bestrophins"	12703	protein-coding gene	gene with protein product	"Best disease"	607854	"vitelliform macular dystrophy 2"	VMD2		1302019, 17003041	Standard	NM_004183		Approved	BMD, BEST, RP50	uc001nsr.2	O76090	OTTHUMG00000167469	ENST00000378043.4:c.1728C>T	11.37:g.61730354C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0W6|B7Z3J8|B7Z736|O75904|Q53YQ9|Q8IUR9|Q8IZ80	Silent	SNP	ENST00000378043.4	37	CCDS31580.1																																																																																				0.507	BEST1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394715.1	NM_004183		T	61730354	C	T	61730354	2	4	592	1	0	0	0	0	0	0	0	1	1404	668	24	2		2	BEST1	11	61730354	Silent	SNP	C	TCGA-G7-6796-01A-11D-1961-08		61730354	73276162	42	35292										
MAML2	84441	hgsc.bcm.edu	37	chr11	95825431	95825431	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tgctgttgctgctgttgctgTtgggtgtagtgtaggagaga	17	4	0	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr11:95825431T>C	ENST00000524717.1	-	2	3048	c.1764A>G	c.(1762-1764)caA>caG	p.Q588Q		NM_032427.1	NP_115803.1	Q8IZL2	MAML2_HUMAN	mastermind-like 2 (Drosophila)	588					gene expression (GO:0010467)|Notch signaling pathway (GO:0007219)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription initiation from RNA polymerase II promoter (GO:0006367)	Golgi apparatus (GO:0005794)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)		CRTC3/MAML2(26)|CRTC1/MAML2(516)	breast(2)|cervix(1)|endometrium(11)|kidney(4)|large_intestine(8)|lung(12)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	43		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				gctgttgctgTTGGGTGTAGT	0.522			T	"MECT1, CRTC3"	salivary gland mucoepidermoid																																		Dom	yes		11	11q22-q23	84441	mastermind-like 2 (Drosophila)		E	0																																										SO:0001819	synonymous_variant	84441			AB058722	CCDS44714.1	11q	2008-02-05	2001-11-28		ENSG00000184384	ENSG00000184384			16259	protein-coding gene	gene with protein product		607537	"mastermind (Drosophila)-like 2"			12370315, 12386158	Standard	NM_032427		Approved	KIAA1819, MAM3	uc001pfw.1	Q8IZL2	OTTHUMG00000167677	ENST00000524717.1:c.1764A>G	11.37:g.95825431T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A7MD26|Q6AI23|Q6Y3A3|Q8IUL3|Q96JK6	Silent	SNP	ENST00000524717.1	37	CCDS44714.1																																																																																				0.522	MAML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395540.1			C	95825431	T	C	95825431	2	2	592	1	0	0	0	0	0	0	0	1	9213	1722	60	3		3	MAML2	11	95825431	Silent	SNP	T	TCGA-G7-6796-01A-11D-1961-08	34095077	95825431	39181085	43	35293										
C12orf57	113246	broad.mit.edu;ucsc.edu	37	chr12	7055012	7055012	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	cagcctgtcaggcaagctgaAggcgctgtttctgccgccca	12	14	2	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr12:7055012A>G	ENST00000229281.5	+	3	407	c.308A>G	c.(307-309)aAg>aGg	p.K103R	C12orf57_ENST00000540506.2_Missense_Mutation_p.K68R|PTPN6_ENST00000399448.1_5'Flank|PTPN6_ENST00000447931.2_5'Flank|U47924.31_ENST00000607421.1_RNA|RNU7-1_ENST00000458811.1_RNA|C12orf57_ENST00000542222.1_3'UTR|C12orf57_ENST00000537087.1_Missense_Mutation_p.K74R	NM_138425.2	NP_612434.1	Q99622	C10_HUMAN	chromosome 12 open reading frame 57	103						cytoplasm (GO:0005737)				kidney(1)|large_intestine(1)	2						GGCAAGCTGAAGGCGCTGTTT	0.627																																																0													70	55	60					12																	7055012		2203	4300	6503	SO:0001583	missense	113246			U47924	CCDS8571.1	12p13.31	2012-05-30			ENSG00000111678	ENSG00000111678			29521	protein-coding gene	gene with protein product		615140				9445485	Standard	NM_138425		Approved	GRCC10, C10	uc009zfj.2	Q99622	OTTHUMG00000169017	ENST00000229281.5:c.308A>G	12.37:g.7055012A>G	ENSP00000229281:p.Lys103Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4Q6	Missense_Mutation	SNP	ENST00000229281.5	37	CCDS8571.1	.	.	.	.	.	.	.	.	.	.	A	10.83	1.459836	0.26248	.	.	ENSG00000111678	ENST00000545581;ENST00000537087;ENST00000229281	T;T;T	0.78364	-0.89;-1.17;-0.89	5.16	5.16	0.70880	.	0.000000	0.85682	D	0.000000	T	0.58352	0.2116	N	0.13198	0.31	0.80722	D	1	B	0.23128	0.08	B	0.19946	0.027	T	0.56372	-0.7990	10	0.02654	T	1	-18.3011	13.8505	0.63494	1.0:0.0:0.0:0.0	.	103	Q99622	C10_HUMAN	R	103;74;103	ENSP00000440602:K103R;ENSP00000440937:K74R;ENSP00000229281:K103R	ENSP00000229281:K103R	K	+	2	0	C12orf57	6925273	1.000000	0.71417	1.000000	0.80357	0.946000	0.59487	9.092000	0.94157	2.075000	0.62263	0.379000	0.24179	AAG		0.627	C12orf57-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401959.1	NM_138425		G	7055012	A	G	7055012	3	3	592	1	0	0	0	0	1	0	0	0	1703	72	3	3	318	3	C12orf57	12	7055012	Missense_Mutation	SNP	A	TCGA-G7-6796-01A-11D-1961-08		7055012	126796883	44	35294										
ABCC9	10060	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	21962862	21962862	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tcccagagtctgtcatctgtGcatttgcactctggatctaa	8	11	5	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr12:21962862G>A	ENST00000261201.4	-	35	4238	c.4239C>T	c.(4237-4239)tgC>tgT	p.C1413C	ABCC9_ENST00000261200.4_Silent_p.C1413C|ABCC9_ENST00000345162.2_Silent_p.C1377C	NM_005691.2	NP_005682.2	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 9	1413	ABC transporter 2. {ECO:0000255|PROSITE- ProRule:PRU00434}.				defense response to virus (GO:0051607)|potassium ion import (GO:0010107)|potassium ion transport (GO:0006813)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	ATP-sensitive potassium channel complex (GO:0008282)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcomere (GO:0030017)|voltage-gated potassium channel complex (GO:0008076)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|ion channel binding (GO:0044325)|potassium channel activity (GO:0005267)|potassium channel regulator activity (GO:0015459)|sulfonylurea receptor activity (GO:0008281)|transporter activity (GO:0005215)			NS(2)|breast(5)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(15)|lung(56)|ovary(4)|pancreas(1)|prostate(4)|skin(7)|upper_aerodigestive_tract(3)|urinary_tract(5)	118					Adenosine triphosphate(DB00171)|Glyburide(DB01016)	TGTCATCTGTGCATTTGCACT	0.323																																																0													83	85	84					12																	21962862		2203	4300	6503	SO:0001819	synonymous_variant	10060			AF061323	CCDS8693.1, CCDS8694.1	12p12.1	2014-09-17			ENSG00000069431	ENSG00000069431		"ATP binding cassette transporters / subfamily C"	60	protein-coding gene	gene with protein product	"sulfonylurea receptor 2"	601439				9457174, 15034580	Standard	NM_020297		Approved	SUR2, CMD1O	uc001rfh.3	O60706	OTTHUMG00000169094	ENST00000261201.4:c.4239C>T	12.37:g.21962862G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60707	Silent	SNP	ENST00000261201.4	37	CCDS8694.1																																																																																				0.323	ABCC9-002	KNOWN	not_organism_supported|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000402230.1	NM_005691		A	21962862	G	A	21962862	2	1	592	1	0	0	0	0	0	0	0	1	59	1311	46	2		2	ABCC9	12	21962862	Silent	SNP	G	TCGA-G7-6796-01A-11D-1961-08	14907850	21962862	111889033	45	35295										
KIAA0528	9847	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	22666235	22666235	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	aagtgaatcttaccctctgtTccaacgctgattgagtctgt	8	10	3	3			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr12:22666235T>C	ENST00000333957.4	-	9	1286	c.1031A>G	c.(1030-1032)gAa>gGa	p.E344G	C2CD5_ENST00000544930.1_Missense_Mutation_p.E137G|C2CD5_ENST00000536386.1_Missense_Mutation_p.E335G|C2CD5_ENST00000446597.1_Missense_Mutation_p.E344G|C2CD5_ENST00000542676.1_Missense_Mutation_p.E344G|C2CD5_ENST00000545552.1_Missense_Mutation_p.E335G|C2CD5_ENST00000396028.2_Missense_Mutation_p.E335G	NM_014802.1	NP_055617.1	Q86YS7	C2CD5_HUMAN	C2 calcium-dependent domain containing 5	344					cellular response to insulin stimulus (GO:0032869)|insulin receptor signaling pathway via phosphatidylinositol 3-kinase (GO:0038028)|intracellular protein transmembrane transport (GO:0065002)|positive regulation of glucose transport (GO:0010828)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of vesicle fusion (GO:0031340)	cell cortex (GO:0005938)|cytoplasmic vesicle membrane (GO:0030659)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)	calcium ion binding (GO:0005509)|calcium-dependent phospholipid binding (GO:0005544)										TACCCTCTGTTCCAACGCTGA	0.378																																																0													149	131	137					12																	22666235		2203	4300	6503	SO:0001583	missense	9847			AB011100	CCDS31758.1, CCDS66337.1, CCDS66338.1, CCDS66339.1, CCDS66340.1	12p12.1	2012-12-13	2012-12-13	2012-12-13	ENSG00000111731	ENSG00000111731			29062	protein-coding gene	gene with protein product	"138 kDa C2 domain-containing phosphoprotein"		"KIAA0528"	KIAA0528		21907143	Standard	XM_005253538		Approved	CDP138	uc001rfq.3	Q86YS7	OTTHUMG00000169100	ENST00000333957.4:c.1031A>G	12.37:g.22666235T>C	ENSP00000334229:p.Glu344Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DJ03|B4DRN7|B7ZLL0|F5H2A1|F5H5R1|O60280|Q17RY7|Q7Z619|Q86SU3	Missense_Mutation	SNP	ENST00000333957.4	37	CCDS31758.1	.	.	.	.	.	.	.	.	.	.	T	19.42	3.824771	0.71143	.	.	ENSG00000111731	ENST00000333957;ENST00000446597;ENST00000536386;ENST00000396028;ENST00000542676;ENST00000545552;ENST00000544930;ENST00000544281	T;T;T;T;T;T;T;T	0.55234	0.53;0.53;0.53;0.53;0.53;0.53;0.53;0.53	5.0	3.85	0.44370	.	0.062767	0.64402	N	0.000006	T	0.65144	0.2663	L	0.57536	1.79	0.49915	D	0.999836	D;D;D;D;D;D	0.89917	0.999;0.992;1.0;0.992;1.0;0.979	D;P;D;P;D;P	0.85130	0.973;0.784;0.996;0.864;0.997;0.628	T	0.64045	-0.6499	10	0.51188	T	0.08	-22.0629	9.2812	0.37729	0.0:0.0816:0.0:0.9184	.	335;344;137;335;335;344	F5H2A1;B4DRN7;F5H3N1;B7ZLL0;Q86YS7-2;Q86YS7	.;.;.;.;.;K0528_HUMAN	G	344;344;335;335;344;335;137;96	ENSP00000334229:E344G;ENSP00000388756:E344G;ENSP00000439392:E335G;ENSP00000379345:E335G;ENSP00000441951:E344G;ENSP00000443204:E335G;ENSP00000445288:E137G;ENSP00000443479:E96G	ENSP00000334229:E344G	E	-	2	0	KIAA0528	22557502	1.000000	0.71417	0.988000	0.46212	0.978000	0.69477	7.272000	0.78516	0.920000	0.36970	0.528000	0.53228	GAA		0.378	C2CD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402257.1	NM_014802		C	22666235	T	C	22666235	3	2	592	1	0	0	0	0	1	0	0	0	8189	1783	62	3	2039	3	KIAA0528	12	22666235	Missense_Mutation	SNP	T	TCGA-G7-6796-01A-11D-1961-08	703373	22666235	111185660	46	35296										
CAPRIN2	65981	hgsc.bcm.edu;bcgsc.ca	37	chr12	30886574	30886574	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	aaaactcacatgtcgttcctAccactgctttctcactacct	3	15	2	0			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr12:30886574A>G	ENST00000395805.2	-	5	1428	c.881T>C	c.(880-882)gTa>gCa	p.V294A	CAPRIN2_ENST00000538387.1_Intron|CAPRIN2_ENST00000308433.5_Intron|CAPRIN2_ENST00000251071.5_Missense_Mutation_p.V294A|CAPRIN2_ENST00000417045.1_Missense_Mutation_p.V294A|CAPRIN2_ENST00000298892.5_Missense_Mutation_p.V294A	NM_001206856.1	NP_001193785.1			caprin family member 2											breast(1)|central_nervous_system(1)|endometrium(8)|kidney(4)|large_intestine(13)|lung(16)|ovary(1)|prostate(2)|skin(1)|urinary_tract(1)	48	all_lung(12;1.13e-09)|Lung NSC(12;7.98e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					TGTCGTTCCTACCACTGCTTT	0.398																																																0													164	143	150					12																	30886574		2203	4300	6503	SO:0001583	missense	65981			AY074491	CCDS8720.1, CCDS41766.1, CCDS41766.2, CCDS55816.1	12p11	2010-08-03	2007-03-27	2007-03-27	ENSG00000110888	ENSG00000110888			21259	protein-coding gene	gene with protein product		610375	"C1q domain containing 1"	C1QDC1		11347906, 14764709	Standard	NM_001002259		Approved	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140	uc001rji.1	Q6IMN6	OTTHUMG00000169185	ENST00000395805.2:c.881T>C	12.37:g.30886574A>G	ENSP00000379150:p.Val294Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000395805.2	37	CCDS55816.1	.	.	.	.	.	.	.	.	.	.	A	12.15	1.850529	0.32699	.	.	ENSG00000110888	ENST00000433722;ENST00000298892;ENST00000395805;ENST00000251071;ENST00000417045;ENST00000438006;ENST00000537108	T;T;T;T;T;T	0.21031	2.47;2.03;2.03;2.03;2.03;2.03	4.96	4.96	0.65561	.	0.276479	0.34460	N	0.003948	T	0.09730	0.0239	N	0.11201	0.11	0.80722	D	1	B;B;B;B;B	0.28783	0.142;0.222;0.029;0.049;0.013	B;B;B;B;B	0.28011	0.043;0.085;0.006;0.013;0.008	T	0.24977	-1.0145	10	0.15066	T	0.55	-12.678	7.5105	0.27571	0.8402:0.0:0.1598:0.0	.	294;294;294;294;294	Q149P6;Q6IMN6-3;Q6IMN6;Q6IMN6-2;E4NKG2	.;.;CAPR2_HUMAN;.;.	A	40;294;294;294;294;20;213	ENSP00000415407:V40A;ENSP00000298892:V294A;ENSP00000379150:V294A;ENSP00000251071:V294A;ENSP00000391479:V294A;ENSP00000438010:V213A	ENSP00000251071:V294A	V	-	2	0	CAPRIN2	30777841	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	3.311000	0.51919	2.069000	0.61940	0.533000	0.62120	GTA		0.398	CAPRIN2-004	PUTATIVE	basic|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000403322.2	NM_023925		G	30886574	A	G	30886574	3	3	592	1	0	0	0	0	1	0	0	0	2638	391	14	3	2558	3	CAPRIN2	12	30886574	Missense_Mutation	SNP	A	TCGA-G7-6796-01A-11D-1961-08	8220339	30886574	102965321	47	35297										
KRT85	3891	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	52761009	52761009	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	agctatccggggcccgcaggAgcccaggttgcagaggctgc	16	13	0	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr12:52761009A>G	ENST00000257901.3	-	1	256	c.181T>C	c.(181-183)Tcc>Ccc	p.S61P	KRT85_ENST00000544265.1_5'Flank	NM_002283.3	NP_002274.1	P78386	KRT85_HUMAN	keratin 85	61	Head.				epidermis development (GO:0008544)	extracellular space (GO:0005615)|keratin filament (GO:0045095)	structural molecule activity (GO:0005198)			NS(1)|breast(1)|endometrium(6)|kidney(1)|large_intestine(7)|liver(1)|lung(15)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	36	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		GGCCCGCAGGAGCCCAGGTTG	0.716																																																0													18	23	21					12																	52761009		2197	4295	6492	SO:0001583	missense	3891			X99140	CCDS8824.1, CCDS73472.1	12q13.13	2013-06-20	2006-07-17	2006-07-17	ENSG00000135443	ENSG00000135443		"-", "Intermediate filaments type II, keratins (basic)"	6462	protein-coding gene	gene with protein product	"hard keratin type II"	602767	"keratin, hair, basic, 5"	KRTHB5		9084137, 16831889	Standard	NM_002283		Approved	Hb-5	uc001sag.3	P78386	OTTHUMG00000169633	ENST00000257901.3:c.181T>C	12.37:g.52761009A>G	ENSP00000257901:p.Ser61Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NSB1	Missense_Mutation	SNP	ENST00000257901.3	37	CCDS8824.1	.	.	.	.	.	.	.	.	.	.	A	5.873	0.345197	0.11126	.	.	ENSG00000135443	ENST00000257901	T	0.77877	-1.13	4.66	-2.96	0.05547	.	0.601870	0.15091	N	0.281064	T	0.51261	0.1664	N	0.12182	0.205	0.23563	N	0.997407	B	0.06786	0.001	B	0.10450	0.005	T	0.29488	-1.0010	10	0.40728	T	0.16	.	2.3992	0.04397	0.2911:0.4181:0.1687:0.1221	.	61	P78386	KRT85_HUMAN	P	61	ENSP00000257901:S61P	ENSP00000257901:S61P	S	-	1	0	KRT85	51047276	0.000000	0.05858	0.660000	0.29694	0.354000	0.29330	-0.238000	0.08977	-0.599000	0.05798	-0.366000	0.07423	TCC		0.716	KRT85-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405184.1	NM_002283		G	52761009	A	G	52761009	3	3	592	1	0	0	0	0	1	0	0	0	8506	304	11	3	1378	3	KRT85	12	52761009	Missense_Mutation	SNP	A	TCGA-G7-6796-01A-11D-1961-08	21874435	52761009	81090886	48	35298										
SYCP3	50511	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	102127436	102127436	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	cagaaactgctgagaatattCttggttaagcttctgcctgt	9	8	2	2			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr12:102127436C>G	ENST00000392927.3	-	6	501	c.370G>C	c.(370-372)Gaa>Caa	p.E124Q	SYCP3_ENST00000266743.2_Missense_Mutation_p.E124Q|SYCP3_ENST00000392924.1_Missense_Mutation_p.E124Q	NM_001177948.1|NM_001177949.1|NM_153694.4	NP_001171419.1|NP_001171420.1|NP_710161.1	Q8IZU3	SYCP3_HUMAN	synaptonemal complex protein 3	124	Gln-rich.				male meiosis I (GO:0007141)|spermatogenesis, exchange of chromosomal proteins (GO:0035093)	chromosome (GO:0005694)|nucleus (GO:0005634)	DNA binding (GO:0003677)			endometrium(2)|kidney(2)|large_intestine(1)|lung(5)|skin(1)	11						TGAGAATATTCTTGGTTAAGC	0.308																																																0													110	102	105					12																	102127436		2203	4300	6503	SO:0001583	missense	50511			AF492003, AI075991	CCDS9087.1	12q23.2	2007-02-05			ENSG00000139351	ENSG00000139351			18130	protein-coding gene	gene with protein product		604759				12213195, 10854409	Standard	NM_153694		Approved		uc001tis.3	Q8IZU3	OTTHUMG00000150132	ENST00000392927.3:c.370G>C	12.37:g.102127436C>G	ENSP00000376658:p.Glu124Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000392927.3	37	CCDS9087.1	.	.	.	.	.	.	.	.	.	.	C	13.30	2.197243	0.38806	.	.	ENSG00000139351	ENST00000266743;ENST00000392927;ENST00000392924	.	.	.	5.95	5.01	0.66863	.	0.115967	0.64402	D	0.000019	T	0.72078	0.3416	M	0.67953	2.075	0.44247	D	0.997095	D	0.54397	0.966	P	0.56343	0.796	T	0.69698	-0.5075	9	0.34782	T	0.22	1.5322	15.6276	0.76874	0.1381:0.8619:0.0:0.0	.	124	Q8IZU3	SYCP3_HUMAN	Q	124	.	ENSP00000266743:E124Q	E	-	1	0	SYCP3	100651567	1.000000	0.71417	0.797000	0.32132	0.043000	0.13939	4.291000	0.59025	2.817000	0.96982	0.563000	0.77884	GAA		0.308	SYCP3-001	KNOWN	alternative_5_UTR|upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316478.2	NM_153694		G	102127436	C	G	102127436	3	3	592	1	0	0	0	0	1	0	0	0	15446	922	32	4	356	4	SYCP3	12	102127436	Missense_Mutation	SNP	C	TCGA-G7-6796-01A-11D-1961-08	49366427	102127436	31724459	49	35299										
USPL1	10208	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	31233386	31233386	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	taaacttggagagtccgatgAagactgatattttcgatgag	11	5	0	5			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr13:31233386A>C	ENST00000255304.4	+	9	3514	c.3172A>C	c.(3172-3174)Aag>Cag	p.K1058Q		NM_005800.4	NP_005791.3	Q5W0Q7	USPL1_HUMAN	ubiquitin specific peptidase like 1	1058					Cajal body organization (GO:0030576)|cell proliferation (GO:0008283)|protein desumoylation (GO:0016926)	Cajal body (GO:0015030)|extracellular space (GO:0005615)	SUMO binding (GO:0032183)|SUMO-specific isopeptidase activity (GO:0070140)			breast(1)|endometrium(2)|kidney(1)|large_intestine(9)|lung(15)|pancreas(3)|skin(3)	34		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)		GAGTCCGATGAAGACTGATAT	0.373																																					Ovarian(60;318 1180 1554 28110 31601)											0													93	94	93					13																	31233386		2202	4300	6502	SO:0001583	missense	10208			X59131	CCDS9336.1	13q12-q14	2012-11-14	2005-11-24	2005-11-24	ENSG00000132952	ENSG00000132952			20294	protein-coding gene	gene with protein product			"chromosome 13 open reading frame 22"	C13orf22		22878415	Standard	NM_005800		Approved	bA121O19.1, D13S106E	uc001utc.2	Q5W0Q7	OTTHUMG00000016675	ENST00000255304.4:c.3172A>C	13.37:g.31233386A>C	ENSP00000255304:p.Lys1058Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q14109|Q6AI45|Q8IY30|Q8IYE8	Missense_Mutation	SNP	ENST00000255304.4	37	CCDS9336.1	.	.	.	.	.	.	.	.	.	.	A	18.68	3.675070	0.67928	.	.	ENSG00000132952	ENST00000255304	T	0.26518	1.73	5.62	5.62	0.85841	.	0.083251	0.51477	D	0.000089	T	0.46870	0.1415	M	0.64997	1.995	0.25803	N	0.984481	D	0.67145	0.996	D	0.66497	0.944	T	0.43589	-0.9382	10	0.72032	D	0.01	-19.9681	14.3888	0.66963	1.0:0.0:0.0:0.0	.	1058	Q5W0Q7	USPL1_HUMAN	Q	1058	ENSP00000255304:K1058Q	ENSP00000255304:K1058Q	K	+	1	0	USPL1	30131386	0.983000	0.35010	0.930000	0.37139	0.675000	0.39556	4.229000	0.58625	2.143000	0.66587	0.455000	0.32223	AAG		0.373	USPL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044369.1	NM_005800		C	31233386	A	C	31233386	3	2	592	1	0	0	0	0	1	0	0	0	17104	247	9	5	3202	5	USPL1	13	31233386	Missense_Mutation	SNP	A	TCGA-G7-6796-01A-11D-1961-08		31233386	83936492	50	35300										
ITM2B	9445	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	48833064	48833064	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	aaggaaacttacaaactgcaAcgcagagaaactattaaagg	8	7	0	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr13:48833064A>G	ENST00000378565.5	+	5	899	c.696A>G	c.(694-696)caA>caG	p.Q232Q	ITM2B_ENST00000378549.5_Silent_p.Q126Q	NM_021999.4	NP_068839.1	Q9Y287	ITM2B_HUMAN	integral membrane protein 2B	232					extrinsic apoptotic signaling pathway in absence of ligand (GO:0097192)|negative regulation of amyloid precursor protein biosynthetic process (GO:0042985)|nervous system development (GO:0007399)	endosome (GO:0005768)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|Golgi-associated vesicle membrane (GO:0030660)|integral component of organelle membrane (GO:0031301)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|beta-amyloid binding (GO:0001540)			endometrium(1)|large_intestine(2)|lung(3)	6		all_cancers(8;2.2e-31)|all_epithelial(8;6.77e-15)|all_lung(13;9.67e-07)|all_hematologic(8;9.72e-06)|Lung NSC(96;8.3e-05)|Breast(56;0.000141)|Acute lymphoblastic leukemia(8;0.00045)|Prostate(109;0.000669)|Myeloproliferative disorder(33;0.039)|Hepatocellular(98;0.0556)|Lung SC(185;0.102)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(144;1.97e-06)		ACAAACTGCAACGCAGAGAAA	0.338																																																0													85	78	81					13																	48833064		2203	4300	6503	SO:0001819	synonymous_variant	9445			AF092128	CCDS9409.1	13q14.2	2012-10-10			ENSG00000136156	ENSG00000136156		"BRICHOS domain containing"	6174	protein-coding gene	gene with protein product	"BRICHOS domain containing 2B"	603904				9795190	Standard	NM_021999		Approved	BRI, E25B, E3-16, BRICD2B	uc001vbz.3	Q9Y287	OTTHUMG00000016894	ENST00000378565.5:c.696A>G	13.37:g.48833064A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5W0A3|Q96B24|Q9NYH1	Silent	SNP	ENST00000378565.5	37	CCDS9409.1																																																																																				0.338	ITM2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044870.3	NM_021999		G	48833064	A	G	48833064	2	3	592	1	0	0	0	0	0	0	0	1	7920	40	2	3		3	ITM2B	13	48833064	Silent	SNP	A	TCGA-G7-6796-01A-11D-1961-08	17599678	48833064	66336814	51	35301										
RYR3	6263	ucsc.edu	37	chr15	34152846	34152846	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	gagaccagcaggaacaagtaCgagaagatatggaggtaatg	14	5	0	3			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr15:34152846C>T	ENST00000389232.4	+	101	14420	c.14350C>T	c.(14350-14352)Cga>Tga	p.R4784*	RP11-3D4.2_ENST00000560268.1_RNA|RYR3_ENST00000415757.3_Nonsense_Mutation_p.R4779*	NM_001036.3	NP_001027.3	Q15413	RYR3_HUMAN	ryanodine receptor 3	4784					calcium ion transmembrane transport (GO:0070588)|calcium ion transport (GO:0006816)|cellular response to ATP (GO:0071318)|cellular response to caffeine (GO:0071313)|cellular response to calcium ion (GO:0071277)|cellular response to magnesium ion (GO:0071286)|ion transmembrane transport (GO:0034220)|negative regulation of cytosolic calcium ion concentration (GO:0051481)|protein homotetramerization (GO:0051289)|striated muscle contraction (GO:0006941)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|junctional membrane complex (GO:0030314)|perinuclear region of cytoplasm (GO:0048471)|sarcoplasmic reticulum membrane (GO:0033017)	calcium ion binding (GO:0005509)|calcium-induced calcium release activity (GO:0048763)|calcium-release channel activity (GO:0015278)|ryanodine-sensitive calcium-release channel activity (GO:0005219)			NS(3)|breast(9)|central_nervous_system(8)|cervix(2)|endometrium(29)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(55)|lung(148)|ovary(7)|pancreas(1)|prostate(13)|skin(4)|stomach(1)|upper_aerodigestive_tract(8)|urinary_tract(3)	311		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)		GGAACAAGTACGAGAAGATAT	0.358																																																0													96	88	91					15																	34152846		1847	4094	5941	SO:0001587	stop_gained	6263				CCDS45210.1, CCDS58351.1	15q14-q15	2013-01-10				ENSG00000198838		"Ion channels / Ryanodine receptors", "EF-hand domain containing"	10485	protein-coding gene	gene with protein product		180903				8276408	Standard	NM_001036		Approved		uc001zhi.3	Q15413		ENST00000389232.4:c.14350C>T	15.37:g.34152846C>T	ENSP00000373884:p.Arg4784*	Somatic		WXS	Illumina HiSeq		O15175|Q15412	Nonsense_Mutation	SNP	ENST00000389232.4	37	CCDS45210.1	.	.	.	.	.	.	.	.	.	.	C	55	24.234413	0.99959	.	.	ENSG00000198838	ENST00000389232;ENST00000361728	.	.	.	5.2	-0.603	0.11630	.	0.061993	0.64402	D	0.000006	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.30854	T	0.27	.	16.9174	0.86155	0.7997:0.2003:0.0:0.0	.	.	.	.	X	4784;4780	.	ENSP00000354735:R4780X	R	+	1	2	RYR3	31940138	0.972000	0.33761	0.215000	0.23724	0.886000	0.51366	2.413000	0.44618	0.085000	0.17107	-0.182000	0.12963	CGA		0.358	RYR3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000417514.1			T	34152846	C	T	34152846	4	4	592	1	0	0	0	0	0	1	0	0	13783	528	19	1	14752	1	RYR3	15	34152846	Nonsense_Mutation	SNP	C	TCGA-G7-6796-01A-11D-1961-08		34152846	68378546	52	35302										
SGK269	79834	broad.mit.edu;bcgsc.ca	37	chr15	77406883	77406886	+	Frame_Shift_Del	DEL	TCCC	TCCC	-													0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	gcaggtctgctcgtgtgtatTccctctccttcagctctggg							TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	TCCC	TCCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr15:77406883_77406886delTCCC	ENST00000560626.2	-	7	5328_5331	c.4853_4856delGGGA	c.(4852-4857)agggaafs	p.RE1618fs	PEAK1_ENST00000312493.4_Frame_Shift_Del_p.RE1618fs			Q9H792	PEAK1_HUMAN	pseudopodium-enriched atypical kinase 1	1618	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cell migration (GO:0016477)|peptidyl-tyrosine phosphorylation (GO:0018108)|protein autophosphorylation (GO:0046777)|substrate adhesion-dependent cell spreading (GO:0034446)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)	ATP binding (GO:0005524)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)										TCGTGTGTATTCCCTCTCCTTCAG	0.559																																																0																																										SO:0001589	frameshift_variant	0				CCDS42062.1	15q24.3	2013-09-27			ENSG00000173517	ENSG00000173517			29431	protein-coding gene	gene with protein product		614248				16879967, 20534451	Standard	NM_024776		Approved	KIAA2002, sgk269		Q9H792	OTTHUMG00000172618	ENST00000560626.2:c.4853_4856delGGGA	15.37:g.77406883_77406886delTCCC	ENSP00000452796:p.Arg1618fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZS78|Q8NAZ4|Q8NCM3|Q8TEG7	Frame_Shift_Del	DEL	ENST00000560626.2	37	CCDS42062.1																																																																																				0.559	PEAK1-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419483.3			-	77406886	TCCC	-	77406883	7	5	592	1	0	1	0	1	0	0	0	0	14224	1783	62	0	388	0	SGK269	15	77406883	Frame_Shift_Del	DEL	TCCC	TCGA-G7-6796-01A-11D-1961-08	43254037	77406883	25124509	53	35303										
ZP2	7783	hgsc.bcm.edu	37	chr16	21213523	21213523	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	gcaggatgagtttcccacccTcagagtacccaggtcaagag	11	12	2	3			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr16:21213523T>C	ENST00000574002.1	-	12	1671	c.1189A>G	c.(1189-1191)Agg>Ggg	p.R397G	ZP2_ENST00000574091.1_Missense_Mutation_p.R397G|ZP2_ENST00000219593.4_Missense_Mutation_p.R397G|AF001550.7_ENST00000572747.1_RNA			Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 (sperm receptor)	397	ZP. {ECO:0000255|PROSITE- ProRule:PRU00375}.				binding of sperm to zona pellucida (GO:0007339)|intracellular protein transport (GO:0006886)|multicellular organism reproduction (GO:0032504)|prevention of polyspermy (GO:0060468)|signal transduction (GO:0007165)|single fertilization (GO:0007338)	endoplasmic reticulum (GO:0005783)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|multivesicular body (GO:0005771)|plasma membrane (GO:0005886)|proteinaceous extracellular matrix (GO:0005578)|secretory granule (GO:0030141)	acrosin binding (GO:0032190)|coreceptor activity (GO:0015026)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(12)|lung(16)|ovary(1)|prostate(1)|stomach(1)	41				GBM - Glioblastoma multiforme(48;0.0573)		TTTCCCACCCTCAGAGTACCC	0.542																																																0													85	79	81					16																	21213523		2200	4300	6500	SO:0001583	missense	7783			M90366	CCDS10596.1, CCDS73843.1	16p12	2014-07-04			ENSG00000103310	ENSG00000103310		"Zona pellucida glycoproteins"	13188	protein-coding gene	gene with protein product		182888				8385033	Standard	XM_005255562		Approved	ZPA	uc002dii.2	Q05996	OTTHUMG00000090681	ENST00000574002.1:c.1189A>G	16.37:g.21213523T>C	ENSP00000460971:p.Arg397Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7J2|Q4VAN9|Q4VAP0|Q4VAP1	Missense_Mutation	SNP	ENST00000574002.1	37	CCDS10596.1	.	.	.	.	.	.	.	.	.	.	T	16.47	3.133085	0.56828	.	.	ENSG00000103310	ENST00000219593	D	0.82984	-1.67	6.08	3.62	0.41486	Endoglin/CD105 antigen subgroup (1);Zona pellucida sperm-binding protein (3);	0.366291	0.29028	N	0.013373	D	0.88858	0.6551	M	0.84846	2.72	0.09310	N	1	P;P	0.49696	0.927;0.927	P;P	0.54174	0.744;0.744	T	0.82629	-0.0363	10	0.59425	D	0.04	-2.6547	13.5127	0.61522	0.0:0.0:0.2565:0.7435	.	397;397	Q4VAP1;Q05996	.;ZP2_HUMAN	G	397	ENSP00000219593:R397G	ENSP00000219593:R397G	R	-	1	2	ZP2	21121024	0.048000	0.20356	0.203000	0.23512	0.821000	0.46438	0.850000	0.27737	1.073000	0.40885	0.533000	0.62120	AGG		0.542	ZP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000207365.2			C	21213523	T	C	21213523	3	2	592	1	0	0	0	0	1	0	0	0	18228	1550	54	3	1084	3	ZP2	16	21213523	Missense_Mutation	SNP	T	TCGA-G7-6796-01A-11D-1961-08		21213523	69141230	54	35304										
EDC4	23644	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	67910484	67910484	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	gactctagcatttcaagcaaGgcccggggaagcaacaaggt	12	10	2	0			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr16:67910484G>A	ENST00000358933.5	+	3	572	c.333G>A	c.(331-333)aaG>aaA	p.K111K	EDC4_ENST00000574770.1_3'UTR|AC040162.1_ENST00000408599.1_RNA	NM_014329.4	NP_055144.3	Q6P2E9	EDC4_HUMAN	enhancer of mRNA decapping 4	111					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay (GO:0043928)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|RNA metabolic process (GO:0016070)	cytoplasm (GO:0005737)|cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)				breast(3)|central_nervous_system(2)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(4)|lung(8)|ovary(4)|skin(2)|upper_aerodigestive_tract(4)|urinary_tract(2)	41		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		TTTCAAGCAAGGCCCGGGGAA	0.537																																																0													76	65	69					16																	67910484		2198	4300	6498	SO:0001819	synonymous_variant	23644			U17474	CCDS10849.1	16q22.1	2008-02-05			ENSG00000038358	ENSG00000038358			17157	protein-coding gene	gene with protein product		606030				9067524	Standard	NM_014329		Approved	RCD-8, Ge-1, HEDLS	uc002eur.3	Q6P2E9	OTTHUMG00000137543	ENST00000358933.5:c.333G>A	16.37:g.67910484G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NGM1|A8K4T4|Q13025|Q13826|Q6ZR12|Q7Z6H7	Silent	SNP	ENST00000358933.5	37	CCDS10849.1																																																																																				0.537	EDC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268874.2	NM_014329		A	67910484	G	A	67910484	2	1	592	1	0	0	0	0	0	0	0	1	4910	991	35	2		2	EDC4	16	67910484	Silent	SNP	G	TCGA-G7-6796-01A-11D-1961-08	46696961	67910484	22444269	55	35305										
TEKT1	83659	broad.mit.edu;bcgsc.ca	37	chr17	6718552	6718553	+	Frame_Shift_Ins	INS	-	-	A													0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ttgttgagcgagaagcagatINSatcatctatggtcagggcca							TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr17:6718552_6718553insA	ENST00000338694.2	-	5	687_688	c.558_559insT	c.(556-561)gatatcfs	p.I187fs	TEKT1_ENST00000535086.1_Frame_Shift_Ins_p.I41fs	NM_053285.1	NP_444515.1	Q969V4	TEKT1_HUMAN	tektin 1	187						cilium (GO:0005929)|cytoplasm (GO:0005737)|microtubule (GO:0005874)|nucleus (GO:0005634)				NS(1)|central_nervous_system(1)|endometrium(3)|large_intestine(5)|lung(6)|ovary(1)|prostate(1)|skin(1)|stomach(1)	20		Myeloproliferative disorder(207;0.0255)				GAGAAGCAGATATCATCTATGG	0.48																																																0																																										SO:0001589	frameshift_variant	83659				CCDS11083.1	17p13.2	2011-05-23			ENSG00000167858	ENSG00000167858			15534	protein-coding gene	gene with protein product		609002				11606253	Standard	NM_053285		Approved		uc002gdt.3	Q969V4	OTTHUMG00000102063	ENST00000338694.2:c.559dupT	17.37:g.6718553_6718553dupA	ENSP00000341346:p.Ile187fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTM7	Frame_Shift_Ins	INS	ENST00000338694.2	37	CCDS11083.1																																																																																				0.48	TEKT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219867.2	NM_053285		A	6718553	-	A	6718552	7	5	592	1	0	1	1	0	0	0	0	0	15764	1406	49	0	713	0	TEKT1	17	6718552	Frame_Shift_Ins	INS	-	TCGA-G7-6796-01A-11D-1961-08		6718552	74476658	56	35306										
ALKBH5	54890	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	18111630	18111630	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tcagctctgagaactactggCgcaagtcatacgagtcctca	9	12	4	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr17:18111630C>T	ENST00000399138.4	+	4	1110	c.1105C>T	c.(1105-1107)Cgc>Tgc	p.R369C	ALKBH5_ENST00000541285.1_Missense_Mutation_p.R28C	NM_017758.3	NP_060228.3	Q6P6C2	ALKB5_HUMAN	AlkB family member 5, RNA demethylase	369					cell differentiation (GO:0030154)|mRNA export from nucleus (GO:0006406)|mRNA processing (GO:0006397)|oxidative single-stranded RNA demethylation (GO:0035553)|response to hypoxia (GO:0001666)|spermatogenesis (GO:0007283)	nuclear speck (GO:0016607)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|oxidative RNA demethylase activity (GO:0035515)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(1)|kidney(1)|large_intestine(1)|liver(2)|lung(2)|ovary(1)|skin(1)	10	all_neural(463;0.228)					GAACTACTGGCGCAAGTCATA	0.637																																					Ovarian(166;154 1953 40235 46283 46309)											0													52	59	57					17																	18111630		1995	4150	6145	SO:0001583	missense	54890			AK000315	CCDS42272.1	17p11.2	2014-07-23	2014-07-23	2006-02-09	ENSG00000091542	ENSG00000091542	1.14.11.-	"Alkylation repair homologs"	25996	protein-coding gene	gene with protein product		613303	"oxoglutarate and iron-dependent oxygenase domain containing", "alkB, alkylation repair homolog 5 (E. coli)"	OFOXD1		11997338, 24778178	Standard	NM_017758		Approved	FLJ20308	uc010cpw.3	Q6P6C2	OTTHUMG00000059397	ENST00000399138.4:c.1105C>T	17.37:g.18111630C>T	ENSP00000382091:p.Arg369Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DVJ4|D3DXC6|Q9NXD6	Missense_Mutation	SNP	ENST00000399138.4	37	CCDS42272.1	.	.	.	.	.	.	.	.	.	.	C	24.0	4.487415	0.84854	.	.	ENSG00000091542	ENST00000261650;ENST00000500385;ENST00000399138	.	.	.	5.91	5.91	0.95273	.	0.000000	0.85682	D	0.000000	T	0.72350	0.3449	L	0.29908	0.895	0.80722	D	1	D	0.89917	1.0	D	0.80764	0.994	T	0.74103	-0.3773	9	0.87932	D	0	-9.4349	20.2963	0.98556	0.0:1.0:0.0:0.0	.	369	Q6P6C2-2	.	C	369;358;369	.	ENSP00000261650:R369C	R	+	1	0	ALKBH5	18052355	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.540000	0.60664	2.813000	0.96785	0.655000	0.94253	CGC		0.637	ALKBH5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132069.3	NM_017758		T	18111630	C	T	18111630	3	4	592	1	0	0	0	0	1	0	0	0	530	768	27	1	1119	1	ALKBH5	17	18111630	Missense_Mutation	SNP	C	TCGA-G7-6796-01A-11D-1961-08	11393078	18111630	63083580	57	35307										
ADAP2	55803	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	29261209	29261209	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ccttgctgcttaaggtaaccGagaaggattcctgtggaagc	12	9	0	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr17:29261209G>A	ENST00000330889.3	+	5	739	c.404G>A	c.(403-405)cGa>cAa	p.R135Q	ADAP2_ENST00000580525.1_Missense_Mutation_p.R141Q	NM_018404.2	NP_060874.1	Q9NPF8	ADAP2_HUMAN	ArfGAP with dual PH domains 2	135	PH 1. {ECO:0000255|PROSITE- ProRule:PRU00145}.				heart development (GO:0007507)|regulation of ARF GTPase activity (GO:0032312)	cytoplasm (GO:0005737)|mitochondrial envelope (GO:0005740)|plasma membrane (GO:0005886)	ARF GTPase activator activity (GO:0008060)|inositol 1,3,4,5 tetrakisphosphate binding (GO:0043533)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|protein binding, bridging (GO:0030674)|zinc ion binding (GO:0008270)	p.?(1)		breast(1)|endometrium(1)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)|skin(1)	13						TAAGGTAACCGAGAAGGATTC	0.483																																																1	Unknown(1)	central_nervous_system(1)											96	80	85					17																	29261209		2203	4300	6503	SO:0001583	missense	55803			AJ238994	CCDS11261.1	17q11.2	2013-01-10	2008-09-22	2008-09-22	ENSG00000184060	ENSG00000184060		"ADP-ribosylation factor GTPase activating proteins", "Pleckstrin homology (PH) domain containing"	16487	protein-coding gene	gene with protein product		608635	"centaurin, alpha 2"	CENTA2			Standard	XM_005258008		Approved		uc002hfx.3	Q9NPF8	OTTHUMG00000132868	ENST00000330889.3:c.404G>A	17.37:g.29261209G>A	ENSP00000329468:p.Arg135Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N4Q6|Q96SD5	Missense_Mutation	SNP	ENST00000330889.3	37	CCDS11261.1	.	.	.	.	.	.	.	.	.	.	G	12.58	1.981099	0.34942	.	.	ENSG00000184060	ENST00000330889	T	0.23754	1.89	5.72	5.72	0.89469	Pleckstrin homology-type (1);Pleckstrin homology domain (2);	0.309320	0.36778	N	0.002418	T	0.55049	0.1896	M	0.86953	2.85	0.40187	D	0.977363	D;D;D	0.89917	1.0;0.999;1.0	D;D;D	0.71414	0.973;0.93;0.972	T	0.57464	-0.7807	10	0.36615	T	0.2	.	15.3693	0.74551	0.0:0.0:1.0:0.0	.	141;135;135	Q2V6Q1;Q9NPF8-2;Q9NPF8	.;.;ADAP2_HUMAN	Q	135	ENSP00000329468:R135Q	ENSP00000329468:R135Q	R	+	2	0	ADAP2	26285335	0.988000	0.35896	0.995000	0.50966	0.291000	0.27294	4.038000	0.57318	2.705000	0.92388	0.655000	0.94253	CGA		0.483	ADAP2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000256346.1	NM_018404		A	29261209	G	A	29261209	3	1	592	1	0	0	0	0	1	0	0	0	280	1058	37	1	422	1	ADAP2	17	29261209	Missense_Mutation	SNP	G	TCGA-G7-6796-01A-11D-1961-08	11149579	29261209	51934001	58	35308										
BRCA1	672	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	41244817	41244817	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	gatattagactcattctttcCttgattttcttccttttgtt	4	8	3	2	rs80357712|rs397509003|rs80357605|rs80357917		TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr17:41244817C>T	ENST00000357654.3	-	10	2849	c.2731G>A	c.(2731-2733)Gga>Aga	p.G911R	BRCA1_ENST00000493795.1_Missense_Mutation_p.G864R|BRCA1_ENST00000354071.3_Missense_Mutation_p.G911R|BRCA1_ENST00000491747.2_Intron|BRCA1_ENST00000346315.3_Missense_Mutation_p.G911R|BRCA1_ENST00000471181.2_Missense_Mutation_p.G911R|BRCA1_ENST00000591534.1_Intron|BRCA1_ENST00000352993.3_Intron|BRCA1_ENST00000351666.3_Intron|BRCA1_ENST00000591849.1_Intron|BRCA1_ENST00000309486.4_Missense_Mutation_p.G615R|BRCA1_ENST00000586385.1_Intron|BRCA1_ENST00000468300.1_Intron	NM_007294.3	NP_009225.1	P38398	BRCA1_HUMAN	breast cancer 1, early onset	911					androgen receptor signaling pathway (GO:0030521)|apoptotic process (GO:0006915)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to indole-3-methanol (GO:0071681)|cellular response to tumor necrosis factor (GO:0071356)|chromosome segregation (GO:0007059)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|fatty acid biosynthetic process (GO:0006633)|G2 DNA damage checkpoint (GO:0031572)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|negative regulation of centriole replication (GO:0046600)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|negative regulation of fatty acid biosynthetic process (GO:0045717)|negative regulation of histone H3-K9 methylation (GO:0051573)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of angiogenesis (GO:0045766)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of DNA repair (GO:0045739)|positive regulation of gene expression (GO:0010628)|positive regulation of histone acetylation (GO:0035066)|positive regulation of histone H3-K4 methylation (GO:0051571)|positive regulation of histone H3-K9 acetylation (GO:2000617)|positive regulation of histone H4-K16 acetylation (GO:2000620)|positive regulation of histone H4-K20 methylation (GO:0070512)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation vascular endothelial growth factor production (GO:0010575)|postreplication repair (GO:0006301)|protein autoubiquitination (GO:0051865)|protein K6-linked ubiquitination (GO:0085020)|protein ubiquitination (GO:0016567)|regulation of apoptotic process (GO:0042981)|regulation of cell proliferation (GO:0042127)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription from RNA polymerase III promoter (GO:0006359)|response to estrogen (GO:0043627)|response to ionizing radiation (GO:0010212)	BRCA1-A complex (GO:0070531)|BRCA1-BARD1 complex (GO:0031436)|chromosome (GO:0005694)|cytoplasm (GO:0005737)|gamma-tubulin ring complex (GO:0008274)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|ribonucleoprotein complex (GO:0030529)|ubiquitin ligase complex (GO:0000151)	androgen receptor binding (GO:0050681)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|ligase activity (GO:0016874)|RNA binding (GO:0003723)|transcription coactivator activity (GO:0003713)|transcription regulatory region DNA binding (GO:0044212)|tubulin binding (GO:0015631)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(30)|central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(7)|lung(28)|ovary(36)|skin(2)|stomach(4)|urinary_tract(2)	120		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TCATTCTTTCCTTGATTTTCT	0.398			"D, Mis, N, F, S"		ovarian	"breast, ovarian"		Homologous recombination	Hereditary Breast-Ovarian Cancer, BRCA1 type	TCGA Ovarian(2;0.000030)																												yes	Rec	yes	Hereditary breast/ovarian cancer	17	17q21	672	familial breast/ovarian cancer gene 1		E	0													132	130	131					17																	41244817		2203	4300	6503	SO:0001583	missense	672	Familial Cancer Database		U14680	CCDS11453.1, CCDS11454.1, CCDS11455.1, CCDS11456.1, CCDS11459.1, CCDS11455.2, CCDS11456.2, CCDS11459.2, CCDS11454.2	17q21.31	2014-09-17			ENSG00000012048	ENSG00000012048		"RING-type (C3HC4) zinc fingers", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	1100	protein-coding gene	gene with protein product	"BRCA1/BRCA2-containing complex, subunit 1", "protein phosphatase 1, regulatory subunit 53"	113705				1676470	Standard	NM_007300		Approved	RNF53, BRCC1, PPP1R53	uc002ict.3	P38398	OTTHUMG00000157426	ENST00000357654.3:c.2731G>A	17.37:g.41244817C>T	ENSP00000350283:p.Gly911Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O15129|Q1RMC1|Q3LRJ0|Q3LRJ6|Q6IN79|Q7KYU9	Missense_Mutation	SNP	ENST00000357654.3	37	CCDS11453.1	.	.	.	.	.	.	.	.	.	.	C	12.57	1.977264	0.34848	.	.	ENSG00000012048	ENST00000357654;ENST00000412061;ENST00000354071;ENST00000346315;ENST00000309486;ENST00000471181;ENST00000493795	T;T;T;T;T;T	0.80566	-1.39;-1.39;-1.39;-1.39;-1.39;-1.39	4.85	2.8	0.32819	.	0.776431	0.11349	N	0.573162	D	0.84188	0.5417	M	0.65320	2	0.09310	N	1	B;B;B;B;D;B	0.59357	0.024;0.065;0.132;0.12;0.985;0.036	B;B;B;B;P;B	0.57371	0.046;0.046;0.261;0.22;0.819;0.043	T	0.71461	-0.4586	10	0.56958	D	0.05	.	8.2084	0.31469	0.0:0.7274:0.0:0.2726	.	911;870;911;911;911;911	E7EMP0;E7ERL4;Q5YLB2;E9PFC7;P38398;P38398-2	.;.;.;.;BRCA1_HUMAN;.	R	911;911;911;911;615;911;864	ENSP00000350283:G911R;ENSP00000326002:G911R;ENSP00000246907:G911R;ENSP00000310938:G615R;ENSP00000418960:G911R;ENSP00000418775:G864R	ENSP00000310938:G615R	G	-	1	0	BRCA1	38498343	0.001000	0.12720	0.001000	0.08648	0.134000	0.20937	0.961000	0.29267	0.582000	0.29556	0.484000	0.47621	GGA		0.398	BRCA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348798.2	NM_007294		T	41244817	C	T	41244817	3	4	592	1	0	0	0	0	1	0	0	0	1500	690	24	2	2986	2	BRCA1	17	41244817	Missense_Mutation	SNP	C	TCGA-G7-6796-01A-11D-1961-08	11983608	41244817	39950393	59	35309										
NPEPPS	9520	hgsc.bcm.edu;broad.mit.edu	37	chr17	45668145	45668145	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tggattgaatatctgtgtgtAgaccactgcttcccagagta	10	8	1	3			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr17:45668145A>G	ENST00000322157.4	+	10	1395	c.1158A>G	c.(1156-1158)gtA>gtG	p.V386V	NPEPPS_ENST00000525037.1_3'UTR|NPEPPS_ENST00000544660.1_Silent_p.V306V|NPEPPS_ENST00000530173.1_Silent_p.V382V	NM_006310.3	NP_006301.3	P55786	PSA_HUMAN	aminopeptidase puromycin sensitive	386					antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular response to hypoxia (GO:0071456)|protein polyubiquitination (GO:0000209)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	aminopeptidase activity (GO:0004177)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(6)|lung(7)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	27						ATCTGTGTGTAGACCACTGCT	0.393																																																0													62	55	57					17																	45668145		1791	4055	5846	SO:0001819	synonymous_variant	9520			Y07701	CCDS45721.1	17q12-q21	2008-07-18			ENSG00000141279	ENSG00000141279	3.4.11.2		7900	protein-coding gene	gene with protein product	"puromycin-sensitive aminopeptidase", "metalloproteinase MP100"	606793				9048733, 10329370	Standard	NM_006310		Approved	PSA, MP100	uc002ilr.4	P55786	OTTHUMG00000165471	ENST00000322157.4:c.1158A>G	17.37:g.45668145A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z463|Q6P145|Q9NP16|Q9UEM2	Silent	SNP	ENST00000322157.4	37	CCDS45721.1																																																																																				0.393	NPEPPS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384269.1	NM_006310		G	45668145	A	G	45668145	2	3	592	1	0	0	0	0	0	0	0	1	10582	407	15	3		3	NPEPPS	17	45668145	Silent	SNP	A	TCGA-G7-6796-01A-11D-1961-08	4423328	45668145	35527065	60	35310										
MSI2	124540	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	55754379	55754379	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tgcaacggcctttacaaatgGataccattgagcaggtgctt	10	9	0	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr17:55754379G>A	ENST00000284073.2	+	13	1186	c.977G>A	c.(976-978)gGa>gAa	p.G326E	MSI2_ENST00000442934.2_Missense_Mutation_p.G265E|MSI2_ENST00000416426.2_Missense_Mutation_p.G322E	NM_138962.2	NP_620412.1	Q96DH6	MSI2H_HUMAN	musashi RNA-binding protein 2	326						cytoplasm (GO:0005737)|polysome (GO:0005844)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|poly(U) RNA binding (GO:0008266)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|ovary(1)|pancreas(1)|skin(1)	7	Breast(9;1.78e-08)			GBM - Glioblastoma multiforme(1;0.0025)		TTTACAAATGGATACCATTGA	0.458			T	HOXA9	CML																																		Dom	yes		17	17q23.2	124540	musashi homolog 2 (Drosophila)		L	0													234	195	208					17																	55754379		2203	4300	6503	SO:0001583	missense	124540			BC001526	CCDS11596.1, CCDS11597.1	17q23.2	2013-07-16	2012-12-13					"RNA binding motif (RRM) containing"	18585	protein-coding gene	gene with protein product		607897	"musashi homolog 2 (Drosophila)"			11588182	Standard	NM_138962		Approved		uc002iuz.1	Q96DH6		ENST00000284073.2:c.977G>A	17.37:g.55754379G>A	ENSP00000284073:p.Gly326Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z6M7|Q8N9T4	Missense_Mutation	SNP	ENST00000284073.2	37	CCDS11596.1	.	.	.	.	.	.	.	.	.	.	G	26.5	4.739690	0.89573	.	.	ENSG00000153944	ENST00000416426;ENST00000284073;ENST00000442934	D;T;T	0.89050	-2.46;0.62;1.01	4.87	4.87	0.63330	.	0.052819	0.85682	D	0.000000	D	0.93605	0.7958	M	0.64997	1.995	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.996;1.0	D	0.94391	0.7614	10	0.87932	D	0	.	18.0345	0.89296	0.0:0.0:1.0:0.0	.	322;326	B4DHE8;Q96DH6	.;MSI2H_HUMAN	E	322;326;265	ENSP00000414671:G322E;ENSP00000284073:G326E;ENSP00000392607:G265E	ENSP00000284073:G326E	G	+	2	0	MSI2	53109378	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.430000	0.97488	2.260000	0.74910	0.462000	0.41574	GGA		0.458	MSI2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441813.1			A	55754379	G	A	55754379	3	1	592	1	0	0	0	0	1	0	0	0	9883	1174	41	2	1122	2	MSI2	17	55754379	Missense_Mutation	SNP	G	TCGA-G7-6796-01A-11D-1961-08	10086234	55754379	25440831	61	35311										
NACA2	342538	ucsc.edu	37	chr17	59668146	59668146	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	gctgctagttgtgcttgctgAgataaatcttggatcttggc	12	7	2	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr17:59668146A>G	ENST00000521764.1	-	1	417	c.396T>C	c.(394-396)tcT>tcC	p.S132S		NM_199290.3	NP_954984.1	Q9H009	NACA2_HUMAN	nascent polypeptide-associated complex alpha subunit 2	132	NAC-A/B. {ECO:0000255|PROSITE- ProRule:PRU00507}.				myoblast migration (GO:0051451)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)			large_intestine(1)|lung(5)|ovary(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	12	all_epithelial(1;3.12e-14)					GTGCTTGCTGAGATAAATCTT	0.443																																																0													164	162	163					17																	59668146		2203	4300	6503	SO:0001819	synonymous_variant	342538			BC062710	CCDS11630.1	17q23.3	2014-01-28	2007-04-20	2007-04-20		ENSG00000253506			23290	protein-coding gene	gene with protein product	"alpha-NAC protein"	609274	"nascent-polypeptide-associated complex alpha polypeptide-like"	NACAL		12406326	Standard	NM_199290		Approved	MGC71999	uc002izj.2	Q9H009		ENST00000521764.1:c.396T>C	17.37:g.59668146A>G		Somatic		WXS	Illumina HiSeq		Q2VIR9	Silent	SNP	ENST00000521764.1	37	CCDS11630.1																																																																																				0.443	NACA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255437.2	NM_199290		G	59668146	A	G	59668146	2	3	592	1	0	0	0	0	0	0	0	1	10141	291	11	3		3	NACA2	17	59668146	Silent	SNP	A	TCGA-G7-6796-01A-11D-1961-08	3913767	59668146	21527064	62	35312										
EXOC7	23265	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	74081426	74081426	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ggtctggatctgctgctcaaTgtgctcccggtaggagcgct	14	11	3	0			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr17:74081426T>A	ENST00000335146.7	-	16	1887	c.1834A>T	c.(1834-1836)Att>Ttt	p.I612F	EXOC7_ENST00000467929.2_Missense_Mutation_p.I533F|EXOC7_ENST00000405575.4_Missense_Mutation_p.I584F|EXOC7_ENST00000411744.2_Missense_Mutation_p.I553F|EXOC7_ENST00000607838.1_Missense_Mutation_p.I584F|EXOC7_ENST00000589210.1_Missense_Mutation_p.I561F|EXOC7_ENST00000332065.5_Missense_Mutation_p.I530F|EXOC7_ENST00000591724.1_5'Flank			Q9UPT5	EXOC7_HUMAN	exocyst complex component 7	612					cellular protein metabolic process (GO:0044267)|exocytosis (GO:0006887)|membrane organization (GO:0061024)|protein transport (GO:0015031)	centriolar satellite (GO:0034451)|exocyst (GO:0000145)|growth cone membrane (GO:0032584)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)|plasma membrane (GO:0005886)				NS(1)|breast(2)|endometrium(1)|kidney(1)|large_intestine(4)|lung(4)|skin(1)	14			LUSC - Lung squamous cell carcinoma(166;0.187)			TGCTGCTCAATGTGCTCCCGG	0.632																																																0													57	47	50					17																	74081426		2202	4300	6502	SO:0001583	missense	23265			BC029432	CCDS11741.1, CCDS32738.1, CCDS45781.1, CCDS45782.1, CCDS45784.1, CCDS74164.1	17q25.3	2013-01-22			ENSG00000182473	ENSG00000182473			23214	protein-coding gene	gene with protein product		608163				12477932	Standard	NM_001013839		Approved	EXO70, KIAA1067, YJL085W, Exo70p	uc010wsw.2	Q9UPT5	OTTHUMG00000150720	ENST00000335146.7:c.1834A>T	17.37:g.74081426T>A	ENSP00000334100:p.Ile612Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B5MC69|B8XXP2|Q8ND93|Q8WV91|Q96FF0|Q9H8C3|Q9H9X3|Q9HA32	Missense_Mutation	SNP	ENST00000335146.7	37	CCDS45782.1	.	.	.	.	.	.	.	.	.	.	t	27.2	4.809754	0.90707	.	.	ENSG00000182473	ENST00000332065;ENST00000351709;ENST00000405575;ENST00000335146;ENST00000357231;ENST00000425372;ENST00000411744	.	.	.	4.43	4.43	0.53597	Cullin repeat-like-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.76097	0.3940	M	0.78637	2.42	0.80722	D	1	B;B;P;P;D;B;P	0.58268	0.143;0.014;0.851;0.874;0.982;0.029;0.925	B;B;P;P;D;B;P	0.66497	0.109;0.109;0.635;0.731;0.944;0.043;0.803	T	0.75204	-0.3400	9	0.27082	T	0.32	-17.3693	13.7322	0.62794	0.0:0.0:0.0:1.0	.	553;584;533;498;612;530;561	Q9UPT5-5;Q9UPT5-6;B4DJ07;F5H1P1;Q9UPT5;Q9UPT5-2;Q9UPT5-1	.;.;.;.;EXOC7_HUMAN;.;.	F	530;450;584;612;561;498;553	.	ENSP00000333806:I530F	I	-	1	0	EXOC7	71593021	1.000000	0.71417	0.998000	0.56505	0.947000	0.59692	8.037000	0.88933	1.656000	0.50722	0.392000	0.25879	ATT		0.632	EXOC7-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000319768.2	NM_015219		A	74081426	T	A	74081426	3	1	592	1	0	0	0	0	1	0	0	0	5312	1464	51	5	393	5	EXOC7	17	74081426	Missense_Mutation	SNP	T	TCGA-G7-6796-01A-11D-1961-08	14413280	74081426	7113784	63	35313										
APCDD1	147495	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	10487626	10487626	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ccccatggatgcggccacagCctcactgctcaacgtcttca	8	17	4	0			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr18:10487626C>G	ENST00000355285.5	+	5	1490	c.1136C>G	c.(1135-1137)gCc>gGc	p.A379G	APCDD1_ENST00000578882.1_Missense_Mutation_p.S175R	NM_153000.4	NP_694545.1			adenomatosis polyposis coli down-regulated 1											NS(1)|breast(1)|endometrium(3)|large_intestine(5)|lung(7)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	22				READ - Rectum adenocarcinoma(15;0.08)		GCGGCCACAGCCTCACTGCTC	0.597																																																0													75	69	71					18																	10487626		2203	4300	6503	SO:0001583	missense	147495			AB056722	CCDS11849.1	18p11.21	2006-07-07			ENSG00000154856	ENSG00000154856			15718	protein-coding gene	gene with protein product		607479				12384519	Standard	NM_153000		Approved	B7323	uc002kom.4	Q8J025	OTTHUMG00000131635	ENST00000355285.5:c.1136C>G	18.37:g.10487626C>G	ENSP00000347433:p.Ala379Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000355285.5	37	CCDS11849.1	.	.	.	.	.	.	.	.	.	.	C	13.22	2.172736	0.38413	.	.	ENSG00000154856	ENST00000355285;ENST00000423585	T	0.18502	2.21	5.06	5.06	0.68205	.	0.162880	0.56097	D	0.000037	T	0.29288	0.0729	M	0.63843	1.955	0.29806	N	0.832069	P	0.46952	0.887	P	0.47044	0.535	T	0.12656	-1.0539	10	0.87932	D	0	-34.4277	18.7893	0.91966	0.0:1.0:0.0:0.0	.	379	Q8J025	APCD1_HUMAN	G	379;430	ENSP00000347433:A379G	ENSP00000347433:A379G	A	+	2	0	APCDD1	10477626	1.000000	0.71417	0.981000	0.43875	0.968000	0.65278	5.655000	0.67981	2.496000	0.84212	0.561000	0.74099	GCC		0.597	APCDD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254529.2	NM_153000		G	10487626	C	G	10487626	3	3	592	1	0	0	0	0	1	0	0	0	765	739	26	4	1154	4	APCDD1	18	10487626	Missense_Mutation	SNP	C	TCGA-G7-6796-01A-11D-1961-08		10487626	67589622	64	35314										
VAV1	7409	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	6833546	6833546	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ccctgcatctcagaggtaccTtctatcagggctaccgctgc	9	15	3	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr19:6833546T>G	ENST00000602142.1	+	17	1700	c.1618T>G	c.(1618-1620)Ttc>Gtc	p.F540V	VAV1_ENST00000304076.2_Missense_Mutation_p.F540V|VAV1_ENST00000596764.1_Missense_Mutation_p.F508V|VAV1_ENST00000539284.1_Missense_Mutation_p.F443V|VAV1_ENST00000599806.1_Missense_Mutation_p.F485V	NM_005428.3	NP_005419.2	P15498	VAV_HUMAN	vav 1 guanine nucleotide exchange factor	540					apoptotic signaling pathway (GO:0097190)|blood coagulation (GO:0007596)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|G-protein coupled receptor signaling pathway (GO:0007186)|innate immune response (GO:0045087)|integrin-mediated signaling pathway (GO:0007229)|neurotrophin TRK receptor signaling pathway (GO:0048011)|neutrophil chemotaxis (GO:0030593)|phosphatidylinositol-mediated signaling (GO:0048015)|platelet activation (GO:0030168)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cell adhesion (GO:0045785)|reactive oxygen species metabolic process (GO:0072593)|regulation of Rac GTPase activity (GO:0032314)|regulation of small GTPase mediated signal transduction (GO:0051056)|regulation of transcription, DNA-templated (GO:0006355)|small GTPase mediated signal transduction (GO:0007264)|T cell activation (GO:0042110)|T cell costimulation (GO:0031295)	cell-cell junction (GO:0005911)|cytosol (GO:0005829)|plasma membrane (GO:0005886)	guanyl-nucleotide exchange factor activity (GO:0005085)|metal ion binding (GO:0046872)|Rac guanyl-nucleotide exchange factor activity (GO:0030676)|sequence-specific DNA binding transcription factor activity (GO:0003700)			biliary_tract(1)|breast(3)|central_nervous_system(2)|endometrium(3)|kidney(5)|large_intestine(16)|lung(18)|ovary(5)|prostate(2)|skin(5)|upper_aerodigestive_tract(2)	62						CAGAGGTACCTTCTATCAGGG	0.542																																																0													94	96	95					19																	6833546		2203	4300	6503	SO:0001583	missense	7409				CCDS12174.1, CCDS59341.1, CCDS59342.1	19p13.2	2013-02-14	2007-07-25			ENSG00000141968		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing", "SH2 domain containing"	12657	protein-coding gene	gene with protein product		164875	"vav 1 oncogene"	VAV		9438848	Standard	NM_005428		Approved		uc010xjh.2	P15498		ENST00000602142.1:c.1618T>G	19.37:g.6833546T>G	ENSP00000472929:p.Phe540Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DVK9|M0QXX6|Q15860	Missense_Mutation	SNP	ENST00000602142.1	37	CCDS12174.1	.	.	.	.	.	.	.	.	.	.	T	17.11	3.306485	0.60305	.	.	ENSG00000141968	ENST00000304076;ENST00000539284	D;D	0.92647	-3.08;-3.08	4.73	4.73	0.59995	Protein kinase C-like, phorbol ester/diacylglycerol binding (4);	0.055969	0.64402	D	0.000001	D	0.92954	0.7758	L	0.32530	0.975	0.58432	D	0.999999	D;D;D;D	0.89917	0.995;0.998;1.0;0.999	D;D;D;D	0.87578	0.94;0.982;0.998;0.996	D	0.93330	0.6700	10	0.62326	D	0.03	.	12.1658	0.54129	0.0:0.0:0.0:1.0	.	443;540;485;540	F5H5P4;B2R8B5;Q96D37;P15498	.;.;.;VAV_HUMAN	V	540;443	ENSP00000302269:F540V;ENSP00000443242:F443V	ENSP00000302269:F540V	F	+	1	0	VAV1	6784546	1.000000	0.71417	0.998000	0.56505	0.416000	0.31233	5.489000	0.66875	1.784000	0.52394	0.402000	0.26972	TTC		0.542	VAV1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458475.1			G	6833546	T	G	6833546	3	3	592	1	0	0	0	0	1	0	0	0	17143	1609	56	5	1684	5	VAV1	19	6833546	Missense_Mutation	SNP	T	TCGA-G7-6796-01A-11D-1961-08		6833546	52295437	65	35315										
RBM42	79171	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	36128157	36128157	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ccatccttccttaaggccaaGgtgatccgtgacaagcgcac	9	14	0	2			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr19:36128157G>A	ENST00000262633.4	+	9	1338	c.1233G>A	c.(1231-1233)aaG>aaA	p.K411K	RBM42_ENST00000592202.1_Silent_p.K357K|RBM42_ENST00000586618.1_Silent_p.K115K|RBM42_ENST00000360475.4_Silent_p.K382K|RBM42_ENST00000589559.1_Intron|RBM42_ENST00000589871.1_Silent_p.K389K|RBM42_ENST00000588161.1_Silent_p.K381K	NM_024321.3	NP_077297.2	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	411	Necessary for interaction with HNRNPK. {ECO:0000250}.|RRM. {ECO:0000255|PROSITE- ProRule:PRU00176}.					cytoplasm (GO:0005737)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(3)|large_intestine(7)|lung(9)|prostate(1)	21	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			TTAAGGCCAAGGTGATCCGTG	0.577																																																0													108	81	90					19																	36128157		2203	4300	6503	SO:0001819	synonymous_variant	79171			BC004204	CCDS12468.1	19q13.12	2013-02-12				ENSG00000126254		"RNA binding motif (RRM) containing"	28117	protein-coding gene	gene with protein product		613232				12477932	Standard	NM_024321		Approved	MGC10433	uc002oan.3	Q9BTD8		ENST00000262633.4:c.1233G>A	19.37:g.36128157G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O00320|Q8N5R7|Q9BU66	Silent	SNP	ENST00000262633.4	37	CCDS12468.1																																																																																				0.577	RBM42-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459057.2	NM_024321		A	36128157	G	A	36128157	2	1	592	1	0	0	0	0	0	0	0	1	13149	991	35	2		2	RBM42	19	36128157	Silent	SNP	G	TCGA-G7-6796-01A-11D-1961-08	29294611	36128157	23000826	66	35316										
HNRNPUL1	11100	bcgsc.ca	37	chr19	41807610	41807610	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	tgcggtcttagaaatgaaagGtaggaaatgagtgcttccca	12	6	1	3			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr19:41807610G>C	ENST00000392006.3	+	11	1860		c.e11+1		HNRNPUL1_ENST00000263367.3_Splice_Site|HNRNPUL1_ENST00000595018.1_Splice_Site|HNRNPUL1_ENST00000378215.4_Splice_Site|HNRNPUL1_ENST00000593587.1_Splice_Site|HNRNPUL1_ENST00000352456.3_Splice_Site|HNRNPUL1_ENST00000602130.1_Splice_Site	NM_007040.3	NP_008971.2	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1						gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|regulation of transcription, DNA-templated (GO:0006355)|response to virus (GO:0009615)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)|transcription, DNA-templated (GO:0006351)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	enzyme binding (GO:0019899)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(8)|prostate(1)|skin(1)|urinary_tract(1)	29						GAAATGAAAGGTAGGAAATGA	0.483																																																0													85	71	76					19																	41807610		2203	4300	6503	SO:0001630	splice_region_variant	11100			AJ007509	CCDS12576.1, CCDS12577.1	19q13.2	2013-06-12		2008-04-18	ENSG00000105323	ENSG00000105323			17011	protein-coding gene	gene with protein product	"E1B 55kDa associated protein 5"	605800		HNRPUL1		9733834, 12489984	Standard	XM_005258459		Approved	E1B-AP5, E1BAP5, FLJ12944	uc002oqb.4	Q9BUJ2	OTTHUMG00000182740	ENST00000392006.3:c.1687+1G>C	19.37:g.41807610G>C		Somatic		WXS	Illumina HiSeq	Phase_1	B3KMW7|O76022|Q6ZSZ0|Q7L8P4|Q8N6Z4|Q96G37|Q9HAL3|Q9UG75	Splice_Site	SNP	ENST00000392006.3	37	CCDS12576.1	.	.	.	.	.	.	.	.	.	.	G	29.0	4.968359	0.92855	.	.	ENSG00000105323	ENST00000352456;ENST00000392006;ENST00000378215;ENST00000263367	.	.	.	5.44	5.44	0.79542	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	18.1835	0.89786	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	HNRNPUL1	46499450	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.596000	0.98267	2.833000	0.97629	0.650000	0.86243	.		0.483	HNRNPUL1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463406.1	NM_144732, NM_007040	Intron	C	41807610	G	C	41807610	5	2	592	1	0	0	0	0	0	0	1	0	7281	1275	44	4	1730	4	HNRNPUL1	19	41807610	Splice_Site	SNP	G	TCGA-G7-6796-01A-11D-1961-08	5679453	41807610	17321373	67	35317										
IRGC	56269	hgsc.bcm.edu	37	chr19	44223048	44223048	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	cgtgaccctctgggacctgcCaggagccggctctccaggct	13	16	2	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr19:44223048C>G	ENST00000244314.5	+	2	537	c.338C>G	c.(337-339)cCa>cGa	p.P113R		NM_019612.3	NP_062558.1	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	113	IRG-type G.					membrane (GO:0016020)	GTP binding (GO:0005525)|hydrolase activity, acting on acid anhydrides (GO:0016817)			central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(16)|ovary(1)|prostate(1)|skin(2)	25		Prostate(69;0.0435)				TGGGACCTGCCAGGAGCCGGC	0.652																																					Colon(189;350 2037 11447 13433 38914)											0													22	21	21					19																	44223048		2194	4288	6482	SO:0001583	missense	56269			BC066939	CCDS12629.1	19q13.32	2008-02-05	2005-10-31	2005-10-31	ENSG00000124449	ENSG00000124449			28835	protein-coding gene	gene with protein product			"immunity-related GTPase family, cinema 1"	IRGC1		12477932	Standard	NM_019612		Approved	Iigp5, CINEMA	uc002oxh.3	Q6NXR0	OTTHUMG00000154587	ENST00000244314.5:c.338C>G	19.37:g.44223048C>G	ENSP00000244314:p.Pro113Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q05BR8	Missense_Mutation	SNP	ENST00000244314.5	37	CCDS12629.1	.	.	.	.	.	.	.	.	.	.	C	19.22	3.785694	0.70337	.	.	ENSG00000124449	ENST00000244314	T	0.56275	0.47	5.71	4.68	0.58851	.	0.067487	0.64402	D	0.000013	T	0.75347	0.3837	M	0.88704	2.975	0.54753	D	0.999988	D	0.89917	1.0	D	0.91635	0.999	T	0.80185	-0.1487	10	0.87932	D	0	.	12.2899	0.54812	0.0:0.9182:0.0:0.0818	.	113	Q6NXR0	IIGP5_HUMAN	R	113	ENSP00000244314:P113R	ENSP00000244314:P113R	P	+	2	0	IRGC	48914888	1.000000	0.71417	0.878000	0.34440	0.920000	0.55202	6.892000	0.75644	1.421000	0.47157	0.555000	0.69702	CCA		0.652	IRGC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336191.1	NM_019612		G	44223048	C	G	44223048	3	3	592	1	0	0	0	0	1	0	0	0	7845	594	21	4	340	4	IRGC	19	44223048	Missense_Mutation	SNP	C	TCGA-G7-6796-01A-11D-1961-08	2415438	44223048	14905935	68	35318										
ERCC1	2067	hgsc.bcm.edu	37	chr19	45926544	45926544	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ctaccactccaggagggaccTcatcctcgtcgaggggtatc	11	14	1	0			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr19:45926544T>C	ENST00000300853.3	-	2	680	c.89A>G	c.(88-90)gAg>gGg	p.E30G	ERCC1_ENST00000340192.7_Missense_Mutation_p.E30G|ERCC1_ENST00000013807.5_Missense_Mutation_p.E30G|ERCC1_ENST00000589165.1_Missense_Mutation_p.E30G|ERCC1_ENST00000423698.2_Missense_Mutation_p.E30G|ERCC1_ENST00000591636.1_Missense_Mutation_p.E30G	NM_001983.3	NP_001974.1	P07992	ERCC1_HUMAN	excision repair cross-complementation group 1	30					cell proliferation (GO:0008283)|chromosome organization (GO:0051276)|DNA catabolic process, endonucleolytic (GO:0000737)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|interstrand cross-link repair (GO:0036297)|isotype switching (GO:0045190)|male gonad development (GO:0008584)|mitotic recombination (GO:0006312)|multicellular organism growth (GO:0035264)|multicellular organismal aging (GO:0010259)|negative regulation of telomere maintenance (GO:0032205)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair, DNA damage removal (GO:0000718)|nucleotide-excision repair, DNA incision, 3'-to lesion (GO:0006295)|nucleotide-excision repair, DNA incision, 5'-to lesion (GO:0006296)|oogenesis (GO:0048477)|post-embryonic hemopoiesis (GO:0035166)|pyrimidine dimer repair by nucleotide-excision repair (GO:0000720)|replicative cell aging (GO:0001302)|response to nutrient (GO:0007584)|response to oxidative stress (GO:0006979)|response to sucrose (GO:0009744)|response to X-ray (GO:0010165)|spermatogenesis (GO:0007283)|syncytium formation (GO:0006949)|transcription-coupled nucleotide-excision repair (GO:0006283)|UV protection (GO:0009650)	cytoplasm (GO:0005737)|nuclear chromosome, telomeric region (GO:0000784)|nucleoplasm (GO:0005654)|nucleotide-excision repair complex (GO:0000109)|nucleus (GO:0005634)|transcription factor TFIID complex (GO:0005669)	damaged DNA binding (GO:0003684)|endonuclease activity (GO:0004519)|protein C-terminus binding (GO:0008022)|protein domain specific binding (GO:0019904)|single-stranded DNA binding (GO:0003697)			central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(4)|lung(2)|ovary(2)|skin(1)	15		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0247)		AGGAGGGACCTCATCCTCGTC	0.627								Nucleotide excision repair (NER)																																								0													64	57	60					19																	45926544		2203	4300	6503	SO:0001583	missense	2067				CCDS12662.1, CCDS12663.1, CCDS54279.1	19q13.32	2014-03-07	2014-03-07			ENSG00000012061			3433	protein-coding gene	gene with protein product		126380	"excision repair cross-complementing rodent repair deficiency, complementation group 1 (includes overlapping antisense sequence)"			6462228	Standard	NM_001983		Approved	RAD10	uc002pbs.2	P07992		ENST00000300853.3:c.89A>G	19.37:g.45926544T>C	ENSP00000300853:p.Glu30Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RC01|B3KRR0|Q7Z7F5|Q96S40	Missense_Mutation	SNP	ENST00000300853.3	37	CCDS12662.1	.	.	.	.	.	.	.	.	.	.	T	7.316	0.615930	0.14129	.	.	ENSG00000012061	ENST00000300853;ENST00000340192;ENST00000423698;ENST00000013807;ENST00000428893	T;T;T;T	0.50277	0.79;0.77;0.8;0.75	4.82	0.105	0.14535	.	0.649699	0.14042	N	0.345379	T	0.28566	0.0707	N	0.24115	0.695	0.09310	N	1	B;B;B;B	0.27823	0.164;0.041;0.099;0.19	B;B;B;B	0.24155	0.04;0.023;0.037;0.051	T	0.12604	-1.0541	10	0.39692	T	0.17	-19.7324	7.1713	0.25721	0.1454:0.0:0.4523:0.4023	.	30;30;30;30	Q7Z7F5;B3KRR0;Q96S40;P07992	.;.;.;ERCC1_HUMAN	G	30	ENSP00000300853:E30G;ENSP00000345203:E30G;ENSP00000394875:E30G;ENSP00000013807:E30G	ENSP00000013807:E30G	E	-	2	0	ERCC1	50618384	0.005000	0.15991	0.003000	0.11579	0.311000	0.27955	-0.194000	0.09559	-0.182000	0.10602	-0.680000	0.03767	GAG		0.627	ERCC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459542.1	NM_001983		C	45926544	T	C	45926544	3	2	592	1	0	0	0	0	1	0	0	0	5214	1551	54	3	969	3	ERCC1	19	45926544	Missense_Mutation	SNP	T	TCGA-G7-6796-01A-11D-1961-08	1703496	45926544	13202439	69	35319										
PPP2R1A	5518	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	52724382	52724382	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	catgactacgctcttctgcaTcaatgtgagccttccacctg	7	14	3	2			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr19:52724382T>C	ENST00000322088.6	+	12	1572	c.1514T>C	c.(1513-1515)aTc>aCc	p.I505T	PPP2R1A_ENST00000444322.2_Missense_Mutation_p.I450T|PPP2R1A_ENST00000462990.1_Missense_Mutation_p.I326T|CTD-2525I3.3_ENST00000593857.1_RNA	NM_014225.5	NP_055040.2	P30153	2AAA_HUMAN	protein phosphatase 2, regulatory subunit A, alpha	505	PP2A subunit C binding.				apoptotic process (GO:0006915)|ceramide metabolic process (GO:0006672)|chromosome segregation (GO:0007059)|fibroblast growth factor receptor signaling pathway (GO:0008543)|G2/M transition of mitotic cell cycle (GO:0000086)|gene expression (GO:0010467)|inactivation of MAPK activity (GO:0000188)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope reassembly (GO:0007084)|mRNA metabolic process (GO:0016071)|negative regulation of cell growth (GO:0030308)|negative regulation of tyrosine phosphorylation of Stat3 protein (GO:0042518)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|peptidyl-serine dephosphorylation (GO:0070262)|positive regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001241)|protein complex assembly (GO:0006461)|protein dephosphorylation (GO:0006470)|regulation of cell adhesion (GO:0030155)|regulation of cell differentiation (GO:0045595)|regulation of DNA replication (GO:0006275)|regulation of growth (GO:0040008)|regulation of transcription, DNA-templated (GO:0006355)|regulation of Wnt signaling pathway (GO:0030111)|response to organic substance (GO:0010033)|RNA metabolic process (GO:0016070)|RNA splicing (GO:0008380)|second-messenger-mediated signaling (GO:0019932)	chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|protein phosphatase type 2A complex (GO:0000159)	antigen binding (GO:0003823)|protein heterodimerization activity (GO:0046982)|protein phosphatase type 2A regulator activity (GO:0008601)|protein serine/threonine phosphatase activity (GO:0004722)			NS(1)|breast(4)|cervix(2)|endometrium(62)|kidney(1)|large_intestine(7)|lung(21)|ovary(32)|pancreas(1)|prostate(2)|skin(1)|urinary_tract(1)	135				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		CTCTTCTGCATCAATGTGAGC	0.597			Mis		clear cell ovarian carcinoma																																		Dom?	yes		19	19q13.41	5518	"protein phosphatase 2, regulatory subunit A, alpha"		E	0													150	125	133					19																	52724382		2203	4300	6503	SO:0001583	missense	5518				CCDS12849.1	19q13	2010-06-18	2010-04-14		ENSG00000105568	ENSG00000105568	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatase 2, regulatory subunits"	9302	protein-coding gene	gene with protein product	"protein phosphatase 2A, regulatory subunit A, alpha isoform", "protein phosphatase 2, 65kDa regulatory subunit A"	605983	"protein phosphatase 2 (formerly 2A), regulatory subunit A (PR 65), alpha isoform", "protein phosphatase 2 (formerly 2A), regulatory subunit A, alpha isoform"				Standard	NR_033500		Approved	PR65A, PP2A-Aalpha	uc002pyp.3	P30153	OTTHUMG00000137367	ENST00000322088.6:c.1514T>C	19.37:g.52724382T>C	ENSP00000324804:p.Ile505Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q13773|Q6ICQ3|Q96DH3	Missense_Mutation	SNP	ENST00000322088.6	37	CCDS12849.1	.	.	.	.	.	.	.	.	.	.	T	20.7	4.028431	0.75390	.	.	ENSG00000105568	ENST00000423369;ENST00000391791;ENST00000322088;ENST00000436460;ENST00000444322	T;T	0.37235	1.21;2.1	4.67	4.67	0.58626	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.64402	D	0.000014	T	0.66954	0.2842	M	0.92555	3.32	0.80722	D	1	D;P	0.57899	0.981;0.93	D;P	0.78314	0.991;0.88	T	0.75314	-0.3361	10	0.87932	D	0	-30.8602	12.4016	0.55416	0.0:0.0:0.0:1.0	.	450;505	F5H3X9;P30153	.;2AAA_HUMAN	T	495;425;505;72;450	ENSP00000324804:I505T;ENSP00000415067:I450T	ENSP00000324804:I505T	I	+	2	0	PPP2R1A	57416194	1.000000	0.71417	1.000000	0.80357	0.864000	0.49448	7.226000	0.78060	2.091000	0.63221	0.533000	0.62120	ATC		0.597	PPP2R1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000267967.2	NM_014225		C	52724382	T	C	52724382	3	2	592	1	0	0	0	0	1	0	0	0	12392	1435	50	3	1560	3	PPP2R1A	19	52724382	Missense_Mutation	SNP	T	TCGA-G7-6796-01A-11D-1961-08	6797838	52724382	6404601	70	35320										
ZNF132	7691	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	58945194	58945194	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ctacactcgtaaggcttttcTccagtgtgaattctccagtg	8	11	2	1			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr19:58945194T>A	ENST00000254166.3	-	3	2017	c.1617A>T	c.(1615-1617)ggA>ggT	p.G539G	CTD-2619J13.17_ENST00000594816.1_lincRNA	NM_003433.3	NP_003424.3	P52740	ZN132_HUMAN	zinc finger protein 132	539					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(2)|endometrium(2)|kidney(2)|large_intestine(6)|lung(1)|ovary(2)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)	19		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0171)|Lung(386;0.182)		AAGGCTTTTCTCCAGTGTGAA	0.478																																																0													81	83	82					19																	58945194		2203	4300	6503	SO:0001819	synonymous_variant	7691			U09411	CCDS12980.1	19q13.4	2013-01-08	2006-06-13			ENSG00000131849		"Zinc fingers, C2H2-type", "-"	12916	protein-coding gene	gene with protein product		604074	"zinc finger protein 132 (clone pHZ-12)"			7557990	Standard	NM_003433		Approved	pHZ-12	uc002qst.4	P52740		ENST00000254166.3:c.1617A>T	19.37:g.58945194T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q32MI9	Silent	SNP	ENST00000254166.3	37	CCDS12980.1																																																																																				0.478	ZNF132-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467035.1	NM_003433		A	58945194	T	A	58945194	2	1	592	1	0	0	0	0	0	0	0	1	17734	1538	54	5		5	ZNF132	19	58945194	Silent	SNP	T	TCGA-G7-6796-01A-11D-1961-08	6220812	58945194	183789	71	35321										
SEC23B	10483	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	18496315	18496315	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ttcctccagcttatggaggcAtatctgaggtgaatcaacct	9	10	2	2			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr20:18496315A>T	ENST00000336714.3	+	4	733	c.301A>T	c.(301-303)Ata>Tta	p.I101L	SEC23B_ENST00000377465.1_Missense_Mutation_p.I101L|SEC23B_ENST00000494645.1_3'UTR|SEC23B_ENST00000377475.3_Missense_Mutation_p.I101L|SEC23B_ENST00000262544.2_Missense_Mutation_p.I101L	NM_006363.4|NM_032985.4|NM_032986.3	NP_006354.2|NP_116780.1|NP_116781.1	Q15437	SC23B_HUMAN	Sec23 homolog B (S. cerevisiae)	101					ER to Golgi vesicle-mediated transport (GO:0006888)|intracellular protein transport (GO:0006886)|vesicle-mediated transport (GO:0016192)	COPII vesicle coat (GO:0030127)|endomembrane system (GO:0012505)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|perinuclear region of cytoplasm (GO:0048471)	zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(6)|liver(2)|lung(14)|ovary(1)|pancreas(1)|prostate(2)|skin(1)	32						TTATGGAGGCATATCTGAGGT	0.348																																																0													155	118	130					20																	18496315		2203	4300	6503	SO:0001583	missense	10483			X97065	CCDS13137.1	20p11.23	2010-02-09	2001-11-28		ENSG00000101310	ENSG00000101310			10702	protein-coding gene	gene with protein product		610512	"Sec23 (S. cerevisiae) homolog B", "congenital dyserythropoietic anemia, type II"	CDAN2		8898360, 10329445, 19621418	Standard	NM_032985		Approved	CDA-II, CDAII, HEMPAS	uc002wrb.2	Q15437	OTTHUMG00000031976	ENST00000336714.3:c.301A>T	20.37:g.18496315A>T	ENSP00000338844:p.Ile101Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DW33|Q503A9|Q5W183|Q9BS15|Q9BSI2|Q9H1D7	Missense_Mutation	SNP	ENST00000336714.3	37	CCDS13137.1	.	.	.	.	.	.	.	.	.	.	A	21.9	4.215314	0.79352	.	.	ENSG00000101310	ENST00000450074;ENST00000336714;ENST00000262544;ENST00000377475;ENST00000377465	D;D;D;D;D	0.82619	-1.63;-1.63;-1.63;-1.63;-1.63	5.04	5.04	0.67666	Zinc finger, Sec23/Sec24-type (1);	0.000000	0.85682	D	0.000000	D	0.86347	0.5911	M	0.81112	2.525	0.80722	D	1	P;P	0.41041	0.736;0.643	P;B	0.45577	0.486;0.271	D	0.87381	0.2357	10	0.49607	T	0.09	-22.3484	14.4009	0.67044	1.0:0.0:0.0:0.0	.	101;101	B4DJW8;Q15437	.;SC23B_HUMAN	L	101	ENSP00000403971:I101L;ENSP00000338844:I101L;ENSP00000262544:I101L;ENSP00000366695:I101L;ENSP00000366685:I101L	ENSP00000262544:I101L	I	+	1	0	SEC23B	18444315	1.000000	0.71417	1.000000	0.80357	0.931000	0.56810	8.929000	0.92859	2.241000	0.73720	0.528000	0.53228	ATA		0.348	SEC23B-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078184.5			T	18496315	A	T	18496315	3	4	592	1	0	0	0	0	1	0	0	0	14005	217	8	5	311	5	SEC23B	20	18496315	Missense_Mutation	SNP	A	TCGA-G7-6796-01A-11D-1961-08		18496315	44529205	72	35322										
RPL3	6122	ucsc.edu	37	chr22	39711372	39711372	+	Splice_Site	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	4	1	0.992897196261682	2.06853582554517	0.38785046728972	0.523809523809524	1	0	ctcaagccaccgcaaagctcAcctttgtagcctttgccctt	6	16	2	0			TCGA-G7-6796-01A-11D-1961-08	TCGA-G7-6796-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d747a9f3-e148-4273-883e-8b64db6779a2	82db6745-95f5-4b86-acd4-8aeb5ec873db	g.chr22:39711372A>C	ENST00000216146.4	-	5	862		c.e5+1		SNORD83A_ENST00000386747.1_RNA|SNORD83B_ENST00000386745.1_RNA|RPL3_ENST00000465618.1_Splice_Site|RPL3_ENST00000401609.1_Splice_Site	NM_000967.3|NM_001033853.1	NP_000958.1|NP_001029025.1	P39023	RL3_HUMAN	ribosomal protein L3						cellular protein metabolic process (GO:0044267)|cellular response to interleukin-4 (GO:0071353)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|structural constituent of ribosome (GO:0003735)			breast(1)|kidney(4)|large_intestine(2)|lung(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	12	Melanoma(58;0.04)				Homoharringtonine(DB04865)	CGCAAAGCTCACCTTTGTAGC	0.572																																																0													115	104	108					22																	39711372		2203	4300	6503	SO:0001630	splice_region_variant	6122			AB007166	CCDS13988.1	22q13	2011-04-06			ENSG00000100316	ENSG00000100316		"L ribosomal proteins"	10332	protein-coding gene	gene with protein product		604163				2891103, 9582194	Standard	NM_000967		Approved	L3	uc003axi.3	P39023	OTTHUMG00000151079	ENST00000216146.4:c.688+1T>G	22.37:g.39711372A>C		Somatic		WXS	Illumina HiSeq		B2RDV9|Q15548|Q5I0G0	Splice_Site	SNP	ENST00000216146.4	37	CCDS13988.1	.	.	.	.	.	.	.	.	.	.	A	22.1	4.240605	0.79912	.	.	ENSG00000100316	ENST00000401609;ENST00000216146;ENST00000402527;ENST00000453303	.	.	.	5.39	5.39	0.77823	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.4065	0.74884	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	RPL3	38041318	1.000000	0.71417	1.000000	0.80357	0.946000	0.59487	7.163000	0.77524	2.051000	0.60960	0.379000	0.24179	.		0.572	RPL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321196.1	NM_000967	Intron	C	39711372	A	C	39711372	5	2	592	1	0	0	0	0	0	0	1	0	13592	173	6	5	545	5	RPL3	22	39711372	Splice_Site	SNP	A	TCGA-G7-6796-01A-11D-1961-08		39711372	11593194	73	35323										
FAM132A	388581	ucsc.edu	37	chr1	1179654	1179654	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	ctgggggaccgaagagatccCgctggggggagagagaagca	19	8	0	3			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr1:1179654C>A	ENST00000330388.2	-	3	327	c.296G>T	c.(295-297)cGg>cTg	p.R99L		NM_001014980.2	NP_001014980.1	Q5T7M4	ADIPL_HUMAN	family with sequence similarity 132, member A	99					negative regulation of gluconeogenesis (GO:0045721)|negative regulation of inflammatory response (GO:0050728)|positive regulation of glucose import (GO:0046326)|positive regulation of insulin receptor signaling pathway (GO:0046628)|positive regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0035774)|positive regulation of protein kinase B signaling (GO:0051897)|regulation of glucose import (GO:0046324)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	hormone activity (GO:0005179)			haematopoietic_and_lymphoid_tissue(1)|lung(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;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;2.22e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		GAAGAGATCCCGCTGGGGGGA	0.672																																																0													27	35	32					1																	1179654		2185	4285	6470	SO:0001630	splice_region_variant	388581			BC089443	CCDS30554.1	1p36.33	2012-03-26	2007-03-27	2007-03-27	ENSG00000184163	ENSG00000184163			32308	protein-coding gene	gene with protein product	"adipolin", "adipose-derived insulin-sensitizing factor"		"C1q domain containing 2"	C1QDC2		21849507	Standard	NM_001014980		Approved	MGC105127, C1QTNF12, CTRP12	uc001adl.2	Q5T7M4	OTTHUMG00000001412	ENST00000330388.2:c.295-1G>T	1.37:g.1179654C>A		Somatic		WXS	Illumina HiSeq		Q5EBL5	Missense_Mutation	SNP	ENST00000330388.2	37	CCDS30554.1	.	.	.	.	.	.	.	.	.	.	c	15.92	2.973867	0.53720	.	.	ENSG00000184163	ENST00000330388	T	0.42900	0.96	3.76	1.7	0.24286	.	0.794942	0.10532	N	0.663663	T	0.42630	0.1211	M	0.69823	2.125	0.80722	D	1	P	0.46064	0.872	P	0.45377	0.478	T	0.32348	-0.9910	10	0.24483	T	0.36	.	5.7602	0.18196	0.0:0.7224:0.0:0.2776	.	99	Q5T7M4	F132A_HUMAN	L	99	ENSP00000329137:R99L	ENSP00000329137:R99L	R	-	2	0	FAM132A	1169517	0.002000	0.14202	0.440000	0.26846	0.002000	0.02628	0.109000	0.15417	0.333000	0.23563	-0.417000	0.06048	CGG		0.672	FAM132A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004080.4	XM_371208	Missense_Mutation	A	1179654	C	A	1179654	5	1	593	1	0	0	0	0	0	0	1	0	5446	666	23	4	636	4	FAM132A	1	1179654	Splice_Site	SNP	C	TCGA-G7-6797-01A-11D-1961-08		1179654	248070967	1	35324										
XKR8	55113	ucsc.edu	37	chr1	28290011	28290011	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	ttgtgtgtggtgcctaggtgCgtgcaggagctgcggcaggg	20	7	0	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr1:28290011C>T	ENST00000373884.5	+	2	905	c.297C>T	c.(295-297)tgC>tgT	p.C99C		NM_018053.2	NP_060523.2	Q9H6D3	XKR8_HUMAN	XK, Kell blood group complex subunit-related family, member 8	99					engulfment of apoptotic cell (GO:0043652)|phosphatidylserine exposure on apoptotic cell surface (GO:0070782)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				endometrium(1)|large_intestine(2)|lung(1)	4		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00588)|all_lung(284;0.00645)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;4.72e-24)|Colorectal(126;1.52e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00303)|BRCA - Breast invasive adenocarcinoma(304;0.00572)|READ - Rectum adenocarcinoma(331;0.0526)		TGCCTAGGTGCGTGCAGGAGC	0.607																																																0													44	43	43					1																	28290011		2203	4300	6503	SO:0001819	synonymous_variant	55113			AK091615	CCDS315.1	1p35.3	2008-02-05	2006-01-12		ENSG00000158156	ENSG00000158156			25508	protein-coding gene	gene with protein product			"X Kell blood group precursor-related family, member 8"			12477932	Standard	NM_018053		Approved	FLJ10307	uc001bph.1	Q9H6D3	OTTHUMG00000003912	ENST00000373884.5:c.297C>T	1.37:g.28290011C>T		Somatic		WXS	Illumina HiSeq			Silent	SNP	ENST00000373884.5	37	CCDS315.1																																																																																				0.607	XKR8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000011175.1	NM_018053		T	28290011	C	T	28290011	2	4	593	1	0	0	0	0	0	0	0	1	17449	776	27	1		1	XKR8	1	28290011	Silent	SNP	C	TCGA-G7-6797-01A-11D-1961-08	27110357	28290011	220960610	2	35325										
ZSCAN20	7579	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	33960785	33960785	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	agtgagcgctccaagctcatCacacaccagagagtgcacac	9	14	2	2			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr1:33960785C>T	ENST00000361328.3	+	8	2994	c.2841C>T	c.(2839-2841)atC>atT	p.I947I		NM_145238.3	NP_660281	P17040	ZSC20_HUMAN	zinc finger and SCAN domain containing 20	947					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(8)|lung(11)|ovary(2)|pancreas(1)|stomach(1)	31		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				CCAAGCTCATCACACACCAGA	0.527																																																0													82	96	91					1																	33960785		2167	4282	6449	SO:0001819	synonymous_variant	7579			X52360	CCDS41300.1	1p34.3	2013-01-08	2007-02-20	2007-02-20	ENSG00000121903	ENSG00000121903		"-", "Zinc fingers, C2H2-type"	13093	protein-coding gene	gene with protein product		611315	"zinc finger protein 31 (KOX 29)", "zinc finger protein 31"	ZNF360, ZNF31		2288909	Standard	NM_145238		Approved	KOX29	uc001bxj.4	P17040	OTTHUMG00000004173	ENST00000361328.3:c.2841C>T	1.37:g.33960785C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K2D0|B1ALI4|B1ALI5|B1ALI6|Q6ZN23|Q96FA9|Q96H84	Silent	SNP	ENST00000361328.3	37	CCDS41300.1																																																																																				0.527	ZSCAN20-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277003.2	NM_145238		T	33960785	C	T	33960785	2	4	593	1	0	0	0	0	0	0	0	1	18244	816	29	2		2	ZSCAN20	1	33960785	Silent	SNP	C	TCGA-G7-6797-01A-11D-1961-08	5670774	33960785	215289836	3	35326										
LGTN	1939	ucsc.edu	37	chr1	206785684	206785684	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	ttggacttgacccgaaaggcCttggcaaacatgtctgctgg	12	10	1	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr1:206785684C>T	ENST00000271764.2	-	1	220	c.12G>A	c.(10-12)aaG>aaA	p.K4K	EIF2D_ENST00000367114.3_Silent_p.K4K	NM_006893.2	NP_008824.2	P41214	EIF2D_HUMAN	eukaryotic translation initiation factor 2D	4					formation of translation preinitiation complex (GO:0001731)|intracellular protein transport (GO:0006886)|IRES-dependent translational initiation (GO:0002192)|ribosome disassembly (GO:0032790)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	receptor activity (GO:0004872)|translation initiation factor activity (GO:0003743)			autonomic_ganglia(1)|breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(3)|lung(6)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	23						CCCGAAAGGCCTTGGCAAACA	0.627																																																0													118	103	108					1																	206785684		2203	4300	6503	SO:0001819	synonymous_variant	1939			BC001585	CCDS1465.1, CCDS55680.1	1q32.1	2014-05-06	2011-01-19	2011-01-19	ENSG00000143486	ENSG00000143486			6583	protein-coding gene	gene with protein product		613709				20566627	Standard	NM_001201478		Approved	LGTN	uc001heh.2	P41214	OTTHUMG00000184619	ENST00000271764.2:c.12G>A	1.37:g.206785684C>T		Somatic		WXS	Illumina HiSeq		Q5SY40|Q8IXV3|Q96DG3|Q96TG7|Q9NR27|Q9NSN0|Q9NV18|Q9NZ21	Silent	SNP	ENST00000271764.2	37	CCDS1465.1																																																																																				0.627	EIF2D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088475.1	NM_006893		T	206785684	C	T	206785684	2	4	593	1	0	0	0	0	0	0	0	1	8767	680	24	2		2	LGTN	1	206785684	Silent	SNP	C	TCGA-G7-6797-01A-11D-1961-08	172824899	206785684	42464937	4	35327										
FAM71A	149647	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	212799448	212799448	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	cctgagtggacagcatggaaGggagcgaacccaggccagcg	16	11	0	1	rs149566937		TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr1:212799448G>T	ENST00000294829.3	+	1	1660	c.1229G>T	c.(1228-1230)aGg>aTg	p.R410M	RP11-338C15.5_ENST00000427949.1_RNA	NM_153606.3	NP_705834.2	Q8IYT1	FA71A_HUMAN	family with sequence similarity 71, member A	410						nucleus (GO:0005634)		p.R410K(1)		breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|large_intestine(7)|liver(1)|lung(12)|ovary(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	36				OV - Ovarian serous cystadenocarcinoma(81;0.00631)|all cancers(67;0.00981)|GBM - Glioblastoma multiforme(131;0.0715)|Epithelial(68;0.094)		CAGCATGGAAGGGAGCGAACC	0.627																																																1	Substitution - Missense(1)	skin(1)											53	59	57					1																	212799448		2203	4300	6503	SO:0001583	missense	149647				CCDS1507.1	1q32.3	2008-02-05			ENSG00000162771	ENSG00000162771			26541	protein-coding gene	gene with protein product						12477932	Standard	NM_153606		Approved	FLJ32796	uc010pth.1	Q8IYT1	OTTHUMG00000041084	ENST00000294829.3:c.1229G>T	1.37:g.212799448G>T	ENSP00000294829:p.Arg410Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VTZ1	Missense_Mutation	SNP	ENST00000294829.3	37	CCDS1507.1	.	.	.	.	.	.	.	.	.	.	G	10.19	1.283252	0.23392	.	.	ENSG00000162771	ENST00000294829;ENST00000545975	T	0.03889	3.77	4.31	-3.37	0.04898	.	.	.	.	.	T	0.02193	0.0068	N	0.08118	0	0.09310	N	1	B	0.15930	0.015	B	0.12156	0.007	T	0.43814	-0.9368	9	0.54805	T	0.06	-8.0E-4	2.7678	0.05325	0.1371:0.2773:0.445:0.1406	.	410	Q8IYT1	FA71A_HUMAN	M	410;185	ENSP00000294829:R410M	ENSP00000294829:R410M	R	+	2	0	FAM71A	210866071	0.000000	0.05858	0.000000	0.03702	0.005000	0.04900	-0.825000	0.04433	-0.780000	0.04553	-0.152000	0.13540	AGG		0.627	FAM71A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098529.1	NM_153606		T	212799448	G	T	212799448	3	4	593	1	0	0	0	0	1	0	0	0	5614	1000	35	4	1231	4	FAM71A	1	212799448	Missense_Mutation	SNP	G	TCGA-G7-6797-01A-11D-1961-08	6013764	212799448	36451173	5	35328										
URB2	9816	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	229770859	229770859	+	Missense_Mutation	SNP	G	G	C													0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	agcccgaaggagctgtggtaGcccagttgtttgaggtcatt							TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr1:229770859G>C	ENST00000258243.2	+	4	635	c.499G>C	c.(499-501)Gcc>Ccc	p.A167P		NM_014777.2	NP_055592.2	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog (S. cerevisiae)	167						aggresome (GO:0016235)|nucleolus (GO:0005730)|nucleus (GO:0005634)				breast(1)|central_nervous_system(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(12)|lung(33)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(6)	73						AGCTGTGGTAGCCCAGTTGTT	0.582																																																0													68	55	59					1																	229770859		2203	4300	6503	SO:0001583	missense	9816			D50923	CCDS31052.1	1q42.13	2009-11-06	2008-10-01	2008-10-01	ENSG00000135763	ENSG00000135763			28967	protein-coding gene	gene with protein product	"nucleolar preribosomal-associated protein 1"		"KIAA0133"	KIAA0133		8590280	Standard	NM_014777		Approved	NPA2, NET10	uc001hts.1	Q14146	OTTHUMG00000039464	ENST00000258243.2:c.499G>C	1.37:g.229770859G>C	ENSP00000258243:p.Ala167Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VYC9	Missense_Mutation	SNP	ENST00000258243.2	37	CCDS31052.1	.	.	.	.	.	.	.	.	.	.	G	3.088	-0.187511	0.06299	.	.	ENSG00000135763	ENST00000258243	T	0.10005	2.92	5.68	1.37	0.22104	.	0.578081	0.19373	N	0.115852	T	0.03783	0.0107	N	0.04043	-0.29	0.18873	N	0.999984	B	0.15930	0.015	B	0.14023	0.01	T	0.43734	-0.9373	9	.	.	.	-6.523	4.8515	0.13538	0.0761:0.3087:0.4376:0.1776	.	167	Q14146	URB2_HUMAN	P	167	ENSP00000258243:A167P	.	A	+	1	0	URB2	227837482	0.067000	0.21026	0.009000	0.14445	0.226000	0.24999	0.674000	0.25218	0.406000	0.25560	0.650000	0.86243	GCC		0.582	URB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000095232.1	NM_014777		C	229770859	G	C	229770859	3	2	593	1	0	0	0	0	1	0	0	0	17037	971	34	4	509	4	URB2	1	229770859	Missense_Mutation	SNP	G	TCGA-G7-6797-01A-11D-1961-08	16971411	229770859	19479762	6	35329	269	2								
URB2	9816	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	229770863	229770863	+	Missense_Mutation	SNP	A	A	G													0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	cgaaggagctgtggtagcccAgttgtttgaggtcattcacc							TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr1:229770863A>G	ENST00000258243.2	+	4	639	c.503A>G	c.(502-504)cAg>cGg	p.Q168R		NM_014777.2	NP_055592.2	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog (S. cerevisiae)	168						aggresome (GO:0016235)|nucleolus (GO:0005730)|nucleus (GO:0005634)				breast(1)|central_nervous_system(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(12)|lung(33)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(6)	73						GTGGTAGCCCAGTTGTTTGAG	0.582																																																0													68	55	59					1																	229770863		2203	4300	6503	SO:0001583	missense	9816			D50923	CCDS31052.1	1q42.13	2009-11-06	2008-10-01	2008-10-01	ENSG00000135763	ENSG00000135763			28967	protein-coding gene	gene with protein product	"nucleolar preribosomal-associated protein 1"		"KIAA0133"	KIAA0133		8590280	Standard	NM_014777		Approved	NPA2, NET10	uc001hts.1	Q14146	OTTHUMG00000039464	ENST00000258243.2:c.503A>G	1.37:g.229770863A>G	ENSP00000258243:p.Gln168Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VYC9	Missense_Mutation	SNP	ENST00000258243.2	37	CCDS31052.1	.	.	.	.	.	.	.	.	.	.	A	9.721	1.159761	0.21454	.	.	ENSG00000135763	ENST00000258243	T	0.09817	2.94	5.68	0.193	0.15139	.	0.485156	0.24580	N	0.037302	T	0.09512	0.0234	L	0.56769	1.78	0.22226	N	0.999273	P	0.35077	0.483	B	0.30251	0.113	T	0.20571	-1.0271	9	.	.	.	-5.5473	9.3827	0.38325	0.4958:0.3913:0.0:0.1129	.	168	Q14146	URB2_HUMAN	R	168	ENSP00000258243:Q168R	.	Q	+	2	0	URB2	227837486	0.984000	0.35163	0.009000	0.14445	0.428000	0.31595	1.413000	0.34725	0.129000	0.18514	0.528000	0.53228	CAG		0.582	URB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000095232.1	NM_014777		G	229770863	A	G	229770863	3	3	593	1	0	0	0	0	1	0	0	0	17037	188	7	3	513	3	URB2	1	229770863	Missense_Mutation	SNP	A	TCGA-G7-6797-01A-11D-1961-08	4	229770863	19479758	7	35330	269	2								
GEN1	348654	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	17955658	17955658	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gcagaaactctaatcaactaCagccaattcggtaatgtaaa	6	9	2	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr2:17955658C>T	ENST00000381254.2	+	11	1406	c.1192C>T	c.(1192-1194)Cag>Tag	p.Q398*	SMC6_ENST00000402989.1_Intron|GEN1_ENST00000317402.7_Nonsense_Mutation_p.Q398*	NM_001130009.1	NP_001123481.1	Q17RS7	GEN_HUMAN	GEN1 Holliday junction 5' flap endonuclease	398					DNA catabolic process, endonucleolytic (GO:0000737)|double-strand break repair via homologous recombination (GO:0000724)|positive regulation of mitotic cell cycle spindle assembly checkpoint (GO:0090267)|regulation of centrosome duplication (GO:0010824)|resolution of mitotic recombination intermediates (GO:0071140)|resolution of recombination intermediates (GO:0071139)	centrosome (GO:0005813)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	crossover junction endodeoxyribonuclease activity (GO:0008821)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(6)|central_nervous_system(1)|kidney(1)|large_intestine(3)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	16	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TAATCAACTACAGCCAATTCG	0.348								Homologous recombination																																								0													98	106	103					2																	17955658		2203	4300	6503	SO:0001587	stop_gained	348654			AK098188	CCDS1691.1	2p24.2	2013-06-04	2013-06-04		ENSG00000178295	ENSG00000178295			26881	protein-coding gene	gene with protein product	"Holliday junction resolvase"	612449	"Gen endonuclease homolog 1 (Drosophila)"			15576351	Standard	NM_182625		Approved	FLJ40869, Gen	uc002rct.2	Q17RS7	OTTHUMG00000121173	ENST00000381254.2:c.1192C>T	2.37:g.17955658C>T	ENSP00000370653:p.Gln398*	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RS9|Q6ZN37	Nonsense_Mutation	SNP	ENST00000381254.2	37	CCDS1691.1	.	.	.	.	.	.	.	.	.	.	C	36	5.818087	0.96982	.	.	ENSG00000178295	ENST00000317402;ENST00000381254;ENST00000528873;ENST00000536097	.	.	.	5.31	5.31	0.75309	.	0.081308	0.49916	D	0.000127	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.52906	T	0.07	-4.4681	18.5911	0.91212	0.0:1.0:0.0:0.0	.	.	.	.	X	398;398;169;35	.	ENSP00000318977:Q398X	Q	+	1	0	GEN1	17819139	1.000000	0.71417	0.999000	0.59377	0.588000	0.36517	3.562000	0.53777	2.478000	0.83669	0.650000	0.86243	CAG		0.348	GEN1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241661.2	NM_182625		T	17955658	C	T	17955658	4	4	593	1	0	0	0	0	0	1	0	0	6342	479	17	2	1230	2	GEN1	2	17955658	Nonsense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08		17955658	225243715	8	35331										
GPR113	165082	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	26532908	26532908	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	aggatctgaaggcagcaactCaccagggagatggtggagct	15	8	2	2			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr2:26532908C>A	ENST00000311519.1	-	13	3143	c.3144G>T	c.(3142-3144)gtG>gtT	p.V1048V	GPR113_ENST00000333478.6_Intron|GPR113_ENST00000541401.1_Intron|GPR113_ENST00000459892.1_Intron|GPR113_ENST00000421160.2_Intron	NM_001145168.1	NP_001138640.1	Q8IZF5	GP113_HUMAN	G protein-coupled receptor 113	1048					G-protein coupled receptor signaling pathway (GO:0007186)|neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			NS(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(5)|ovary(4)|prostate(2)|skin(1)|stomach(1)|urinary_tract(1)	24	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGCAGCAACTCACCAGGGAGA	0.572																																																0													78	77	77					2																	26532908		2203	4300	6503	SO:0001819	synonymous_variant	165082			AB083619	CCDS33159.2, CCDS46238.1, CCDS46239.1	2p24.1	2014-08-08			ENSG00000173567	ENSG00000173567		"-", "GPCR / Class B : Orphans"	18989	protein-coding gene	gene with protein product						12435584	Standard	NM_153835		Approved	hGPCR37, PGR23	uc002rhe.4	Q8IZF5	OTTHUMG00000150225	ENST00000311519.1:c.3144G>T	2.37:g.26532908C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DF15|E9PEV1|Q53TA5|Q6UXT7|Q6UXX3|Q86SL7|Q8IXD8|Q8TDT3	Silent	SNP	ENST00000311519.1	37	CCDS46239.1																																																																																				0.572	GPR113-004	PUTATIVE	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000316892.1	NM_153835		A	26532908	C	A	26532908	2	1	593	1	0	0	0	0	0	0	0	1	6637	813	29	4		4	GPR113	2	26532908	Silent	SNP	C	TCGA-G7-6797-01A-11D-1961-08	8577250	26532908	216666465	9	35332										
PSME4	23198	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	54147352	54147352	+	Frame_Shift_Del	DEL	C	C	-													0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	agacatttcaagttttccatCcccacaatgctggagtttga							TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr2:54147352delC	ENST00000404125.1	-	19	2453	c.2398delG	c.(2398-2400)gatfs	p.D800fs	PSME4_ENST00000421748.2_Intron	NM_014614.2	NP_055429.2	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator subunit 4	800					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|cellular nitrogen compound metabolic process (GO:0034641)|cellular response to DNA damage stimulus (GO:0006974)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA repair (GO:0006281)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|multicellular organismal development (GO:0007275)|negative regulation of apoptotic process (GO:0043066)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|proteasomal ubiquitin-independent protein catabolic process (GO:0010499)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|spermatogenesis, exchange of chromosomal proteins (GO:0035093)|viral process (GO:0016032)	cytosol (GO:0005829)|nucleus (GO:0005634)|spermatoproteasome complex (GO:1990111)	lysine-acetylated histone binding (GO:0070577)|peptidase activator activity (GO:0016504)			breast(5)|endometrium(8)|kidney(1)|large_intestine(11)|lung(26)|ovary(4)|pancreas(1)|prostate(1)|stomach(1)|urinary_tract(2)	60			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			AGTTTTCCATCCCCACAATGC	0.383																																																0													149	171	164					2																	54147352		2203	4300	6503	SO:0001589	frameshift_variant	23198			D38521	CCDS33197.2	2p16.1	2003-04-14			ENSG00000068878	ENSG00000068878		"Proteasome (prosome, macropain) subunits"	20635	protein-coding gene	gene with protein product		607705				7584044, 12093752	Standard	NM_014614		Approved	PA200, KIAA0077	uc002rxp.2	Q14997	OTTHUMG00000151852	ENST00000404125.1:c.2398delG	2.37:g.54147352delC	ENSP00000384211:p.Asp800fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q1XBG4|Q1XBG5|Q1XBG6|Q2M1Z0|Q6IPR2|Q86XF8	Frame_Shift_Del	DEL	ENST00000404125.1	37	CCDS33197.2																																																																																				0.383	PSME4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324163.1	XM_040158		-	54147352	C	-	54147352	7	5	593	1	0	1	0	1	0	0	0	0	12719	855	30	0	3245	0	PSME4	2	54147352	Frame_Shift_Del	DEL	C	TCGA-G7-6797-01A-11D-1961-08	27614444	54147352	189052021	10	35333										
GFPT1	2673	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	69553334	69553334	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	atattcctcactctacagtcAcagatttggcaagattccgt	6	11	3	2			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr2:69553334A>T	ENST00000357308.4	-	20	2265	c.2087T>A	c.(2086-2088)gTg>gAg	p.V696E	GFPT1_ENST00000361060.5_Missense_Mutation_p.V678E	NM_001244710.1	NP_001231639.1	Q06210	GFPT1_HUMAN	glutamine--fructose-6-phosphate transaminase 1	696					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|carbohydrate biosynthetic process (GO:0016051)|cellular protein metabolic process (GO:0044267)|cellular response to insulin stimulus (GO:0032869)|circadian regulation of gene expression (GO:0032922)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|endoplasmic reticulum unfolded protein response (GO:0030968)|energy reserve metabolic process (GO:0006112)|fructose 6-phosphate metabolic process (GO:0006002)|glucosamine biosynthetic process (GO:0006042)|glutamine metabolic process (GO:0006541)|negative regulation of glycogen biosynthetic process (GO:0045719)|post-translational protein modification (GO:0043687)|protein homotetramerization (GO:0051289)|protein N-linked glycosylation via asparagine (GO:0018279)|response to sucrose (GO:0009744)|UDP-N-acetylglucosamine biosynthetic process (GO:0006048)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	amino acid binding (GO:0016597)|carbohydrate binding (GO:0030246)|glutamine-fructose-6-phosphate transaminase (isomerizing) activity (GO:0004360)			endometrium(1)|large_intestine(3)|lung(5)|skin(3)	12						CTCTACAGTCACAGATTTGGC	0.343																																																0													89	90	90					2																	69553334		2203	4300	6503	SO:0001583	missense	2673				CCDS33216.1, CCDS58713.1	2p13	2014-09-17	2010-05-11		ENSG00000198380	ENSG00000198380	2.6.1.16		4241	protein-coding gene	gene with protein product		138292	"glutamine-fructose-6-phosphate transaminase 1"	GFPT		1460020	Standard	NM_002056		Approved	GFAT, GFA, GFAT1	uc002sfi.2	Q06210	OTTHUMG00000152666	ENST00000357308.4:c.2087T>A	2.37:g.69553334A>T	ENSP00000349860:p.Val696Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q53QE6|Q9BXF8	Missense_Mutation	SNP	ENST00000357308.4	37	CCDS58713.1	.	.	.	.	.	.	.	.	.	.	A	24.7	4.559990	0.86335	.	.	ENSG00000198380	ENST00000357308;ENST00000361060	T;T	0.77358	-1.09;-1.09	5.5	5.5	0.81552	.	0.000000	0.85682	D	0.000000	D	0.93684	0.7982	H	0.99732	4.735	0.80722	D	1	D	0.65815	0.995	D	0.85130	0.997	D	0.96269	0.9197	10	0.87932	D	0	-14.7507	14.9534	0.71091	1.0:0.0:0.0:0.0	.	678	Q06210-2	.	E	696;678	ENSP00000349860:V696E;ENSP00000354347:V678E	ENSP00000349860:V696E	V	-	2	0	GFPT1	69406838	1.000000	0.71417	1.000000	0.80357	0.872000	0.50106	9.082000	0.94059	2.302000	0.77476	0.533000	0.62120	GTG		0.343	GFPT1-201	KNOWN	basic|CCDS	protein_coding	protein_coding				T	69553334	A	T	69553334	3	4	593	1	0	0	0	0	1	0	0	0	6352	159	6	5	16	5	GFPT1	2	69553334	Missense_Mutation	SNP	A	TCGA-G7-6797-01A-11D-1961-08	15405982	69553334	173646039	11	35334										
NCKAP5	344148	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	133541732	133541732	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	tgactcttggggcactggacCcagtccctcctgctgggcat	12	14	1	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr2:133541732C>G	ENST00000409261.1	-	14	3025	c.2652G>C	c.(2650-2652)tgG>tgC	p.W884C	NCKAP5_ENST00000473859.1_5'Flank|NCKAP5_ENST00000405974.3_Intron|NCKAP5_ENST00000409213.1_Intron|NCKAP5_ENST00000317721.6_Missense_Mutation_p.W884C	NM_207363.2	NP_997246.2	O14513	NCKP5_HUMAN	NCK-associated protein 5	884										NS(4)|autonomic_ganglia(1)|breast(5)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(29)|lung(51)|prostate(5)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	118						GGCACTGGACCCAGTCCCTCC	0.577																																																0													54	56	56					2																	133541732		1979	4160	6139	SO:0001583	missense	344148			AB005217	CCDS46417.1, CCDS46418.1	2q21.2	2010-02-17			ENSG00000176771	ENSG00000176771			29847	protein-coding gene	gene with protein product	"Nck associated protein 5", "peripheral clock protein"	608789				9344857	Standard	NM_207363		Approved	NAP5, ERIH1, ERIH2	uc002ttp.3	O14513	OTTHUMG00000153573	ENST00000409261.1:c.2652G>C	2.37:g.133541732C>G	ENSP00000387128:p.Trp884Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B8ZZL0|Q29SS9|Q29ST0|Q2NL90|Q6ZVE2|Q8NAS3	Missense_Mutation	SNP	ENST00000409261.1	37	CCDS46418.1	.	.	.	.	.	.	.	.	.	.	c	11.53	1.664921	0.29604	.	.	ENSG00000176771	ENST00000409261;ENST00000317721	T;T	0.10860	2.83;2.83	5.1	4.18	0.49190	.	0.226096	0.22876	U	0.054566	T	0.20820	0.0501	L	0.32530	0.975	0.58432	D	0.999998	D	0.89917	1.0	D	0.70935	0.971	T	0.00448	-1.1733	10	0.48119	T	0.1	.	13.5162	0.61541	0.1547:0.8453:0.0:0.0	.	884	O14513	NCKP5_HUMAN	C	884	ENSP00000387128:W884C;ENSP00000380603:W884C	ENSP00000380603:W884C	W	-	3	0	NCKAP5	133258202	0.911000	0.30947	0.557000	0.28306	0.216000	0.24613	3.191000	0.50981	2.661000	0.90470	0.651000	0.88453	TGG		0.577	NCKAP5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000331663.1	NM_207481		G	133541732	C	G	133541732	3	3	593	1	0	0	0	0	1	0	0	0	10230	624	22	4	3105	4	NCKAP5	2	133541732	Missense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08	63988398	133541732	109657641	12	35335										
TANC1	85461	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	160084382	160084382	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	ccagtatgccttaagaaagtTtcctcgagaaggattcggag	11	8	0	2			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr2:160084382T>G	ENST00000263635.6	+	25	4193	c.3956T>G	c.(3955-3957)tTt>tGt	p.F1319C	TANC1_ENST00000454300.1_Missense_Mutation_p.F1213C	NM_001145909.1|NM_033394.2	NP_001139381.1|NP_203752.2	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 1	1319					dendritic spine maintenance (GO:0097062)|myoblast fusion (GO:0007520)|visual learning (GO:0008542)	axon terminus (GO:0043679)|cell junction (GO:0030054)|dendrite (GO:0030425)|neuronal cell body (GO:0043025)|postsynaptic membrane (GO:0045211)				breast(3)|central_nervous_system(4)|cervix(2)|endometrium(6)|kidney(4)|large_intestine(9)|lung(25)|ovary(7)|pancreas(1)|prostate(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(2)	77						TTAAGAAAGTTTCCTCGAGAA	0.408																																																0													82	84	83					2																	160084382		1871	4090	5961	SO:0001583	missense	85461			AB051515	CCDS42766.1	2q24.2	2013-01-11			ENSG00000115183	ENSG00000115183		"Ankyrin repeat domain containing", "Tetratricopeptide (TTC) repeat domain containing"	29364	protein-coding gene	gene with protein product	"rolling pebbles homolog B (Drosophila)"	611397				15673434	Standard	NM_033394		Approved	KIAA1728, ROLSB	uc002uag.3	Q9C0D5	OTTHUMG00000153945	ENST00000263635.6:c.3956T>G	2.37:g.160084382T>G	ENSP00000263635:p.Phe1319Cys	Somatic		WXS	Illumina HiSeq	Phase_I	C9JD88|Q49AI8	Missense_Mutation	SNP	ENST00000263635.6	37	CCDS42766.1	.	.	.	.	.	.	.	.	.	.	T	27.1	4.797780	0.90538	.	.	ENSG00000115183	ENST00000454300;ENST00000263635	T;T	0.59083	0.29;0.29	6.07	6.07	0.98685	Tetratricopeptide-like helical (1);Tetratricopeptide repeat-containing (1);	0.000000	0.85682	D	0.000000	T	0.61324	0.2338	N	0.13043	0.29	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.83275	0.979;0.964;0.996	T	0.61618	-0.7026	9	.	.	.	.	16.6288	0.85011	0.0:0.0:0.0:1.0	.	1311;1213;1319	B9EK39;Q9C0D5-2;Q9C0D5	.;.;TANC1_HUMAN	C	1213;1319	ENSP00000396339:F1213C;ENSP00000263635:F1319C	.	F	+	2	0	TANC1	159792628	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	8.040000	0.89188	2.326000	0.78906	0.533000	0.62120	TTT		0.408	TANC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333135.1			G	160084382	T	G	160084382	3	3	593	1	0	0	0	0	1	0	0	0	15556	1841	64	5	4046	5	TANC1	2	160084382	Missense_Mutation	SNP	T	TCGA-G7-6797-01A-11D-1961-08	26542650	160084382	83114991	13	35336										
ITM2C	81618	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	231741583	231741583	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	tcctgccagggtctgactgcGtaccatgatatctccctgga	10	13	2	2			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr2:231741583G>C	ENST00000326427.6	+	4	588	c.462G>C	c.(460-462)gcG>gcC	p.A154A	ITM2C_ENST00000409704.2_Silent_p.A92A|ITM2C_ENST00000335005.6_Silent_p.A107A|ITM2C_ENST00000326407.6_Intron|ITM2C_ENST00000492029.1_3'UTR	NM_030926.4	NP_112188.1	Q9NQX7	ITM2C_HUMAN	integral membrane protein 2C	154	BRICHOS. {ECO:0000255|PROSITE- ProRule:PRU00255}.				negative regulation of neuron projection development (GO:0010977)|neuron differentiation (GO:0030182)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|lysosome (GO:0005764)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|beta-amyloid binding (GO:0001540)			cervix(2)|lung(1)|ovary(1)|skin(1)	5		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;8.47e-12)|all cancers(144;3.44e-09)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)		GTCTGACTGCGTACCATGATA	0.587																																																0													147	126	133					2																	231741583		2203	4300	6503	SO:0001819	synonymous_variant	81618			AF038953	CCDS2479.1, CCDS33395.1, CCDS33396.1, CCDS74665.1	2q37	2012-10-10			ENSG00000135916	ENSG00000135916		"BRICHOS domain containing"	6175	protein-coding gene	gene with protein product	"BRICHOS domain containing 2C"	609554				9653160	Standard	NM_030926		Approved	BRI3, E25, hRPC.1050_D_4, ITM3, BRICD2C	uc002vqz.3	Q9NQX7	OTTHUMG00000133219	ENST00000326427.6:c.462G>C	2.37:g.231741583G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KPG4|Q4G0A8|Q53H84|Q6IAE7|Q86VK5|Q8N288|Q8TAW0|Q9BUP8	Silent	SNP	ENST00000326427.6	37	CCDS2479.1																																																																																				0.587	ITM2C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256954.2	NM_030926		C	231741583	G	C	231741583	2	2	593	1	0	0	0	0	0	0	0	1	7921	1132	40	4		4	ITM2C	2	231741583	Silent	SNP	G	TCGA-G7-6797-01A-11D-1961-08	71657201	231741583	11457790	14	35337										
CCR2	729230	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	46399085	46399085	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gcggtgaagaagtcaccaccTtttttgattatgattacggt	10	7	1	4			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr3:46399085T>A	ENST00000400888.2	+	1	106	c.67T>A	c.(67-69)Ttt>Att	p.F23I	CCR2_ENST00000445132.2_Missense_Mutation_p.F23I|CCR2_ENST00000292301.4_Missense_Mutation_p.F23I|CCR2_ENST00000465202.1_Intron			P41597	CCR2_HUMAN	chemokine (C-C motif) receptor 2	23					blood vessel remodeling (GO:0001974)|cellular calcium ion homeostasis (GO:0006874)|cellular defense response (GO:0006968)|cellular homeostasis (GO:0019725)|chemokine-mediated signaling pathway (GO:0070098)|chemotaxis (GO:0006935)|cytokine-mediated signaling pathway (GO:0019221)|dendritic cell chemotaxis (GO:0002407)|immune response (GO:0006955)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|JAK-STAT cascade (GO:0007259)|negative regulation of adenylate cyclase activity (GO:0007194)|negative regulation of angiogenesis (GO:0016525)|negative regulation of eosinophil degranulation (GO:0043310)|negative regulation of type 2 immune response (GO:0002829)|positive regulation of alpha-beta T cell proliferation (GO:0046641)|positive regulation of astrocyte chemotaxis (GO:2000464)|positive regulation of CD8-positive, alpha-beta T cell extravasation (GO:2000451)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of hematopoietic stem cell migration (GO:2000473)|positive regulation of immune complex clearance by monocytes and macrophages (GO:0090265)|positive regulation of inflammatory response (GO:0050729)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interleukin-2 production (GO:0032743)|positive regulation of monocyte chemotaxis (GO:0090026)|positive regulation of monocyte extravasation (GO:2000439)|positive regulation of T cell activation (GO:0050870)|positive regulation of T cell chemotaxis (GO:0010820)|positive regulation of T-helper 1 type immune response (GO:0002827)|positive regulation of tumor necrosis factor biosynthetic process (GO:0042535)|regulation of vascular endothelial growth factor production (GO:0010574)|response to wounding (GO:0009611)|T-helper 17 cell chemotaxis (GO:0035705)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|neuronal cell body (GO:0043025)|perikaryon (GO:0043204)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	C-C chemokine receptor activity (GO:0016493)|CCR2 chemokine receptor binding (GO:0031727)|chemokine receptor activity (GO:0004950)|protein homodimerization activity (GO:0042803)			breast(3)|endometrium(1)|large_intestine(1)|liver(2)|lung(7)	14				BRCA - Breast invasive adenocarcinoma(193;0.00114)|KIRC - Kidney renal clear cell carcinoma(197;0.0174)|Kidney(197;0.0206)		AGTCACCACCTTTTTTGATTA	0.478																																																0													195	172	179					3																	46399085		1568	3582	5150	SO:0001583	missense	729230				CCDS43078.1, CCDS46813.1	3p21	2012-08-08			ENSG00000121807	ENSG00000121807		"GPCR / Class A : Chemokine receptors : C-C motif", "CD molecules"	1603	protein-coding gene	gene with protein product		601267		CMKBR2		8146186	Standard	NM_001123041		Approved	CC-CKR-2, CKR2, MCP-1-R, CD192, FLJ78302	uc003cpn.4	P41597	OTTHUMG00000156466	ENST00000400888.2:c.67T>A	3.37:g.46399085T>A	ENSP00000383681:p.Phe23Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVQ3|B2RMT0|Q4VBL2	Missense_Mutation	SNP	ENST00000400888.2	37	CCDS43078.1	.	.	.	.	.	.	.	.	.	.	T	9.930	1.214490	0.22289	.	.	ENSG00000121807	ENST00000445132;ENST00000292301;ENST00000421659;ENST00000400888	T;T;T;T	0.68479	-0.33;-0.31;1.34;-0.31	4.62	-6.25	0.02039	.	6.783580	0.00397	N	0.000040	T	0.40743	0.1129	N	0.12746	0.255	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.15235	-1.0444	10	0.22109	T	0.4	.	2.8484	0.05550	0.3386:0.2093:0.3514:0.1007	.	23;23	P41597;Q4VBL2	CCR2_HUMAN;.	I	23	ENSP00000399285:F23I;ENSP00000292301:F23I;ENSP00000396736:F23I;ENSP00000383681:F23I	ENSP00000292301:F23I	F	+	1	0	CCR2	46374089	0.000000	0.05858	0.003000	0.11579	0.001000	0.01503	0.134000	0.15932	-0.799000	0.04439	-1.318000	0.01297	TTT		0.478	CCR2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000344292.1	NM_000647		A	46399085	T	A	46399085	3	1	593	1	0	0	0	0	1	0	0	0	2943	1609	56	5	69	5	CCR2	3	46399085	Missense_Mutation	SNP	T	TCGA-G7-6797-01A-11D-1961-08		46399085	151623345	15	35338										
SLC26A6	65010	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	48668741	48668741	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	tgcctgtggccccgatgagcTgtgggagaggacagagtcag	17	9	1	3			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr3:48668741T>C	ENST00000395550.2	-	8	951		c.e8-2		SLC26A6_ENST00000337000.8_Splice_Site|SLC26A6_ENST00000455886.2_Splice_Site|SLC26A6_ENST00000482282.1_5'Flank|SLC26A6_ENST00000420764.2_Splice_Site|SLC26A6_ENST00000383733.3_Splice_Site|SLC26A6_ENST00000358747.6_Splice_Site			Q9BXS9	S26A6_HUMAN	solute carrier family 26 (anion exchanger), member 6						angiotensin-activated signaling pathway (GO:0038166)|anion transport (GO:0006820)|bicarbonate transport (GO:0015701)|cellular response to cAMP (GO:0071320)|cellular response to fructose stimulus (GO:0071332)|cellular response to interferon-gamma (GO:0071346)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|epithelial fluid transport (GO:0042045)|formate transport (GO:0015724)|intestinal absorption (GO:0050892)|intracellular pH elevation (GO:0051454)|ion transport (GO:0006811)|mannitol transport (GO:0015797)|oxalate transport (GO:0019532)|oxalic acid secretion (GO:0046724)|positive regulation of dipeptide transmembrane transport (GO:2001150)|protein kinase C signaling (GO:0070528)|regulation of intracellular pH (GO:0051453)|sperm capacitation (GO:0048240)|sulfate transmembrane transport (GO:1902358)|sulfate transport (GO:0008272)|transepithelial chloride transport (GO:0030321)|transepithelial transport (GO:0070633)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|brush border membrane (GO:0031526)|chloride channel complex (GO:0034707)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|membrane-bounded vesicle (GO:0031988)|plasma membrane (GO:0005886)|sperm midpiece (GO:0097225)|vesicle membrane (GO:0012506)	anion:anion antiporter activity (GO:0015301)|bicarbonate transmembrane transporter activity (GO:0015106)|chloride channel activity (GO:0005254)|chloride transmembrane transporter activity (GO:0015108)|efflux transmembrane transporter activity (GO:0015562)|formate efflux transmembrane transporter activity (GO:0015660)|formate transmembrane transporter activity (GO:0015499)|formate uptake transmembrane transporter activity (GO:0015659)|oxalate transmembrane transporter activity (GO:0019531)|PDZ domain binding (GO:0030165)|secondary active sulfate transmembrane transporter activity (GO:0008271)|sulfate transmembrane transporter activity (GO:0015116)		SLC26A6/PRKAR2A(2)	NS(1)|breast(1)|cervix(1)|endometrium(3)|large_intestine(1)|lung(11)|ovary(1)	19				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00609)		CCCGATGAGCTGTGGGAGAGG	0.577																																					NSCLC(13;369 479 28271 30152 44026)											0													40	42	41					3																	48668741		2105	4230	6335	SO:0001630	splice_region_variant	65010			AF279265	CCDS43087.1, CCDS46824.1, CCDS46825.1, CCDS46826.1, CCDS63627.1, CCDS63628.1	3p21.31	2013-08-05	2013-07-18		ENSG00000225697	ENSG00000225697		"Solute carriers"	14472	protein-coding gene	gene with protein product	"pendrin-like protein 1", "pendrin L1", "sulfate anion transporter", "anion transporter 1"	610068	"solute carrier family 26, member 6"			11087667, 11247665	Standard	NM_022911		Approved	DKFZp586E1422		Q9BXS9	OTTHUMG00000186381	ENST00000395550.2:c.904-2A>G	3.37:g.48668741T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DMZ1|Q548A7|Q96Q90|Q9NQU1	Splice_Site	SNP	ENST00000395550.2	37	CCDS43087.1	.	.	.	.	.	.	.	.	.	.	T	19.71	3.878586	0.72294	.	.	ENSG00000225697	ENST00000420764;ENST00000395550;ENST00000383733;ENST00000337000;ENST00000447978;ENST00000358747;ENST00000455886;ENST00000421649	.	.	.	5.71	5.71	0.89125	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.9886	0.80183	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	SLC26A6	48643745	1.000000	0.71417	0.988000	0.46212	0.877000	0.50540	7.298000	0.78815	2.173000	0.68751	0.533000	0.62120	.		0.577	SLC26A6-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000345040.1	NM_022911	Intron	C	48668741	T	C	48668741	5	2	593	1	0	0	0	0	0	0	1	0	14534	1594	55	3	1469	3	SLC26A6	3	48668741	Splice_Site	SNP	T	TCGA-G7-6797-01A-11D-1961-08	2269656	48668741	149353689	16	35339										
GPX1	387	ucsc.edu	37	chr3	49394910	49394910	+	IGR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gcggctgtacctgcgtagggGcacaccgtcagggcccacca	14	15	1	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr3:49394910G>A	ENST00000418115.1	-	0	2031				GPX1_ENST00000419349.1_3'UTR|GPX1_ENST00000496791.1_5'Flank|GPX1_ENST00000419783.1_Missense_Mutation_p.P175S	NM_001664.2	NP_001655.1	P61586	RHOA_HUMAN	ras homolog family member A						actin cytoskeleton organization (GO:0030036)|androgen receptor signaling pathway (GO:0030521)|apical junction assembly (GO:0043297)|apolipoprotein A-I-mediated signaling pathway (GO:0038027)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell-matrix adhesion (GO:0007160)|cerebral cortex cell migration (GO:0021795)|cleavage furrow formation (GO:0036089)|forebrain radial glial cell differentiation (GO:0021861)|negative chemotaxis (GO:0050919)|negative regulation of axonogenesis (GO:0050771)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of intracellular steroid hormone receptor signaling pathway (GO:0033144)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of neuron differentiation (GO:0045665)|neurotrophin TRK receptor signaling pathway (GO:0048011)|ossification involved in bone maturation (GO:0043931)|phosphatidylinositol-mediated signaling (GO:0048015)|platelet activation (GO:0030168)|positive regulation of actin filament polymerization (GO:0030838)|positive regulation of axonogenesis (GO:0050772)|positive regulation of cell adhesion (GO:0045785)|positive regulation of cell growth (GO:0030307)|positive regulation of cell migration (GO:0030335)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of cytokinesis (GO:0032467)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of NF-kappaB import into nucleus (GO:0042346)|positive regulation of podosome assembly (GO:0071803)|positive regulation of smooth muscle contraction (GO:0045987)|positive regulation of stress fiber assembly (GO:0051496)|positive regulation of translation (GO:0045727)|positive regulation of vasoconstriction (GO:0045907)|regulation of axonogenesis (GO:0050770)|regulation of calcium ion transport (GO:0051924)|regulation of cell migration (GO:0030334)|regulation of dendrite development (GO:0050773)|regulation of neural precursor cell proliferation (GO:2000177)|regulation of osteoblast proliferation (GO:0033688)|regulation of small GTPase mediated signal transduction (GO:0051056)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to amino acid (GO:0043200)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to glucocorticoid (GO:0051384)|response to glucose (GO:0009749)|response to hypoxia (GO:0001666)|response to mechanical stimulus (GO:0009612)|Rho protein signal transduction (GO:0007266)|skeletal muscle tissue development (GO:0007519)|small GTPase mediated signal transduction (GO:0007264)|spindle assembly involved in mitosis (GO:0090307)|stress fiber assembly (GO:0043149)|stress-activated protein kinase signaling cascade (GO:0031098)|substantia nigra development (GO:0021762)|trabecula morphogenesis (GO:0061383)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	apical junction complex (GO:0043296)|axon (GO:0030424)|cell cortex (GO:0005938)|cell junction (GO:0030054)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)	GDP binding (GO:0019003)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|myosin binding (GO:0017022)			cervix(1)|kidney(1)|large_intestine(5)|lung(1)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	12				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		CTGCGTAGGGGCACACCGTCA	0.622																																																0													26	29	28					3																	49394910		1945	4124	6069	SO:0001628	intergenic_variant	2876			BC001360	CCDS2795.1	3p21.3	2012-02-27	2012-02-27	2004-03-23	ENSG00000067560	ENSG00000067560			667	protein-coding gene	gene with protein product		165390	"ras homolog gene family, member A"	ARH12, ARHA		9605859	Standard	NM_001664		Approved	RhoA, Rho12, RHOH12	uc003cwu.3	P61586	OTTHUMG00000156838		3.37:g.49394910G>A		Somatic		WXS	Illumina HiSeq		P06749|Q53HM4|Q5U024|Q9UDJ0|Q9UEJ4	Missense_Mutation	SNP	ENST00000418115.1	37	CCDS2795.1	.	.	.	.	.	.	.	.	.	.	G	19.54	3.847140	0.71603	.	.	ENSG00000233276	ENST00000419783	T	0.04049	3.72	5.4	5.4	0.78164	Thioredoxin-like fold (2);	0.000000	0.85682	D	0.000000	T	0.25568	0.0622	M	0.83483	2.645	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.00956	-1.1501	10	0.72032	D	0.01	.	17.761	0.88464	0.0:0.0:1.0:0.0	.	175	P07203	GPX1_HUMAN	S	175	ENSP00000407375:P175S	ENSP00000407375:P175S	P	-	1	0	GPX1	49369914	1.000000	0.71417	0.044000	0.18714	0.110000	0.19582	7.861000	0.87004	2.532000	0.85374	0.561000	0.74099	CCC		0.622	RHOA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346157.3	NM_001664		A	49394910	G	A	49394910	1	1	593	0	1	0	0	0	0	0	0	0	6746	1203	42	2		2	GPX1	3	49394910	IGR	SNP	G	TCGA-G7-6797-01A-11D-1961-08	726169	49394910	148627520	17	35340										
ZMYND10	51364	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	50379017	50379017	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	accctcacctgcagcaatacCactcattctggcatcgtgag	7	15	3	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr3:50379017C>T	ENST00000231749.3	-	11	2507	c.1235G>A	c.(1234-1236)tGg>tAg	p.W412*	RASSF1_ENST00000357043.2_5'Flank|ZMYND10-AS1_ENST00000440013.1_RNA|ZMYND10_ENST00000360165.3_Nonsense_Mutation_p.W407*|RASSF1_ENST00000488024.1_5'Flank|RASSF1_ENST00000359365.4_5'Flank|ZMYND10_ENST00000490675.1_5'UTR	NM_015896.2	NP_056980.2	O75800	ZMY10_HUMAN	zinc finger, MYND-type containing 10	412	Interaction with LRRC6.				inner dynein arm assembly (GO:0036159)|motile cilium assembly (GO:0044458)|outer dynein arm assembly (GO:0036158)	centriolar satellite (GO:0034451)|cytoplasm (GO:0005737)	metal ion binding (GO:0046872)			endometrium(3)|kidney(2)|large_intestine(1)|lung(5)|ovary(1)|urinary_tract(2)	14				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		GCAGCAATACCACTCATTCTG	0.572										TSP Lung(30;0.18)																																						0													138	129	132					3																	50379017		2203	4300	6503	SO:0001587	stop_gained	51364			U70824	CCDS2825.1	3p21.3	2014-02-03			ENSG00000004838	ENSG00000004838		"Zinc fingers, MYND-type"	19412	protein-coding gene	gene with protein product		607070				12629521, 23891469	Standard	NM_015896		Approved	BLU, CILD22	uc003dag.1	O75800	OTTHUMG00000156874	ENST00000231749.3:c.1235G>A	3.37:g.50379017C>T	ENSP00000231749:p.Trp412*	Somatic		WXS	Illumina HiSeq	Phase_I	A6NK41|B3KU54|O14570|O75801|Q53FE6|Q8N4R6|Q8NDN6	Nonsense_Mutation	SNP	ENST00000231749.3	37	CCDS2825.1	.	.	.	.	.	.	.	.	.	.	C	37	6.249939	0.97412	.	.	ENSG00000004838	ENST00000231749;ENST00000360165	.	.	.	5.4	5.4	0.78164	.	0.053779	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-4.9405	19.525	0.95201	0.0:1.0:0.0:0.0	.	.	.	.	X	412;407	.	ENSP00000231749:W412X	W	-	2	0	ZMYND10	50354021	1.000000	0.71417	1.000000	0.80357	0.717000	0.41224	7.761000	0.85260	2.699000	0.92147	0.655000	0.94253	TGG		0.572	ZMYND10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000346376.1	NM_015896		T	50379017	C	T	50379017	4	4	593	1	0	0	0	0	0	1	0	0	17717	595	21	2	95	2	ZMYND10	3	50379017	Nonsense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08	984107	50379017	147643413	18	35341										
C3orf63	23272	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	56658883	56658883	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	aaagactatgtgtcgttgctGtatgttctgagcctgaagtc	11	7	1	3			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr3:56658883G>C	ENST00000493960.2	-	22	4301	c.4291C>G	c.(4291-4293)Cag>Gag	p.Q1431E	FAM208A_ENST00000431842.2_Missense_Mutation_p.Q994E|FAM208A_ENST00000485156.1_Intron|FAM208A_ENST00000355628.5_Missense_Mutation_p.Q1370E	NM_001112736.1	NP_001106207.1	Q9UK61	F208A_HUMAN	family with sequence similarity 208, member A	1431							poly(A) RNA binding (GO:0044822)			NS(1)|breast(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(4)|lung(11)|prostate(3)|skin(1)	32						TGTCGTTGCTGTATGTTCTGA	0.383																																																0													127	125	126					3																	56658883		2203	4300	6503	SO:0001583	missense	23272			AF180425	CCDS2877.1, CCDS46853.1	3p14.3	2011-09-14	2011-09-14	2011-09-14	ENSG00000163946	ENSG00000163946			30314	protein-coding gene	gene with protein product			"chromosome 3 open reading frame 63"	C3orf63		10470851, 11149944	Standard	NM_015224		Approved	se89-1, RAP140, KIAA1105	uc003die.4	Q9UK61	OTTHUMG00000158827	ENST00000493960.2:c.4291C>G	3.37:g.56658883G>C	ENSP00000417509:p.Gln1431Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A1L3A4|B5ME28|Q9H2F7|Q9UPP7	Missense_Mutation	SNP	ENST00000493960.2	37	CCDS46853.1	.	.	.	.	.	.	.	.	.	.	G	22.4	4.279138	0.80692	.	.	ENSG00000163946	ENST00000431842;ENST00000493960;ENST00000355628	T;T;T	0.53206	0.63;0.63;0.63	5.7	5.7	0.88788	.	0.000000	0.64402	D	0.000008	T	0.52613	0.1745	L	0.38838	1.175	0.47245	D	0.999367	P;B;D;B	0.61697	0.629;0.045;0.99;0.435	B;B;P;B	0.55011	0.382;0.094;0.766;0.104	T	0.54070	-0.8348	10	0.72032	D	0.01	-0.4466	14.6453	0.68756	0.0:0.0:0.8544:0.1456	.	1431;1370;994;1431	Q9UK61-3;Q9UK61-4;Q9UK61-2;Q9UK61	.;.;.;F208A_HUMAN	E	994;1431;1370	ENSP00000399410:Q994E;ENSP00000417509:Q1431E;ENSP00000347845:Q1370E	ENSP00000347845:Q1370E	Q	-	1	0	C3orf63	56633923	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.500000	0.81588	2.685000	0.91497	0.655000	0.94253	CAG		0.383	FAM208A-004	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352352.2	NM_015224		C	56658883	G	C	56658883	3	2	593	1	0	0	0	0	1	0	0	0	2241	1386	48	4	793	4	C3orf63	3	56658883	Missense_Mutation	SNP	G	TCGA-G7-6797-01A-11D-1961-08	6279866	56658883	141363547	19	35342										
ACOX2	8309	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	58517532	58517532	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	accagggcatgggtggctgaCcgtcccactgagggcagaga	16	11	0	3			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr3:58517532C>A	ENST00000302819.5	-	6	882	c.591G>T	c.(589-591)cgG>cgT	p.R197R	ACOX2_ENST00000459701.2_Silent_p.R197R	NM_003500.3	NP_003491.1	Q99424	ACOX2_HUMAN	acyl-CoA oxidase 2, branched chain	197					bile acid biosynthetic process (GO:0006699)|bile acid metabolic process (GO:0008206)|cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)|small molecule metabolic process (GO:0044281)	peroxisomal matrix (GO:0005782)|peroxisome (GO:0005777)	3alpha,7alpha,12alpha-trihydroxy-5beta-cholestanoyl-CoA 24-hydroxylase activity (GO:0033791)|acyl-CoA dehydrogenase activity (GO:0003995)|acyl-CoA oxidase activity (GO:0003997)|flavin adenine dinucleotide binding (GO:0050660)|pristanoyl-CoA oxidase activity (GO:0016402)|receptor binding (GO:0005102)			breast(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(8)|prostate(1)|skin(3)|urinary_tract(1)	25				BRCA - Breast invasive adenocarcinoma(55;0.000194)|Kidney(10;0.00255)|KIRC - Kidney renal clear cell carcinoma(10;0.00268)|OV - Ovarian serous cystadenocarcinoma(275;0.156)		GGGTGGCTGACCGTCCCACTG	0.612																																																0													57	50	52					3																	58517532		2203	4300	6503	SO:0001819	synonymous_variant	8309			X95190	CCDS33775.1	3p14.3	2012-07-13	2010-04-30		ENSG00000168306	ENSG00000168306	1.17.99.3		120	protein-coding gene	gene with protein product	"trihydroxycoprostanoyl-CoA oxidase", "3-alpha,7-alpha,12-alpha-trihydroxy-5-beta-cholestanoyl-CoA 24-hydroxylase"	601641	"acyl-Coenzyme A oxidase 2, branched chain"			8943006, 9070889	Standard	NM_003500		Approved	BRCACOX, BRCOX, THCCox	uc003dkl.3	Q99424	OTTHUMG00000159154	ENST00000302819.5:c.591G>T	3.37:g.58517532C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NF16|B2R8U5	Silent	SNP	ENST00000302819.5	37	CCDS33775.1																																																																																				0.612	ACOX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353541.1			A	58517532	C	A	58517532	2	1	593	1	0	0	0	0	0	0	0	1	159	494	18	4		4	ACOX2	3	58517532	Silent	SNP	C	TCGA-G7-6797-01A-11D-1961-08	1858649	58517532	139504898	20	35343										
ZBTB11	27107	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	101370105	101370105	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	tccttgctgttgtgctaataCataattaaccacttgcataa	5	9	0	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr3:101370105C>T	ENST00000312938.4	-	11	3647	c.3067G>A	c.(3067-3069)Gta>Ata	p.V1023I		NM_014415.3	NP_055230.2	O95625	ZBT11_HUMAN	zinc finger and BTB domain containing 11	1023					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(6)|kidney(2)|large_intestine(7)|lung(14)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	37						TGTGCTAATACATAATTAACC	0.398																																																0													135	131	132					3																	101370105		2203	4300	6503	SO:0001583	missense	27107			U69274	CCDS2943.1	3q12.3	2013-01-09			ENSG00000066422	ENSG00000066422		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	16740	protein-coding gene	gene with protein product							Standard	NM_014415		Approved	ZNF-U69274, ZNF913	uc003dve.4	O95625	OTTHUMG00000159133	ENST00000312938.4:c.3067G>A	3.37:g.101370105C>T	ENSP00000326200:p.Val1023Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKP9	Missense_Mutation	SNP	ENST00000312938.4	37	CCDS2943.1	.	.	.	.	.	.	.	.	.	.	C	29.2	4.982094	0.93044	.	.	ENSG00000066422	ENST00000312938	T	0.12672	2.66	5.39	5.39	0.77823	.	0.000000	0.85682	D	0.000000	T	0.28300	0.0699	L	0.32530	0.975	0.80722	D	1	D	0.76494	0.999	D	0.76071	0.987	T	0.00899	-1.1522	10	0.30078	T	0.28	-12.9426	19.5182	0.95174	0.0:1.0:0.0:0.0	.	1023	O95625	ZBT11_HUMAN	I	1023	ENSP00000326200:V1023I	ENSP00000326200:V1023I	V	-	1	0	ZBTB11	102852795	1.000000	0.71417	0.987000	0.45799	0.985000	0.73830	7.445000	0.80570	2.692000	0.91855	0.555000	0.69702	GTA		0.398	ZBTB11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353441.2	NM_014415		T	101370105	C	T	101370105	3	4	593	1	0	0	0	0	1	0	0	0	17536	478	17	2	98	2	ZBTB11	3	101370105	Missense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08	42852573	101370105	96652325	21	35344										
KIAA2018	205717	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	113376409	113376409	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	aggagggatctgactgaccaTcatttgagtttggtcagaaa	12	6	3	4			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr3:113376409T>C	ENST00000478658.1	-	5	4137	c.4120A>G	c.(4120-4122)Atg>Gtg	p.M1374V	KIAA2018_ENST00000491165.1_Intron|KIAA2018_ENST00000316407.4_Missense_Mutation_p.M1374V			Q68DE3	K2018_HUMAN	KIAA2018	1374						membrane (GO:0016020)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|DNA binding (GO:0003677)|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity (GO:0004571)			NS(1)|breast(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(13)|liver(1)|lung(30)|ovary(8)|skin(5)|upper_aerodigestive_tract(4)|urinary_tract(2)	80						TGACTGACCATCATTTGAGTT	0.468																																																0													105	102	103					3																	113376409		1991	4160	6151	SO:0001583	missense	205717			AB095938	CCDS43133.1	3q13.2	2014-01-02			ENSG00000176542	ENSG00000176542			30494	protein-coding gene	gene with protein product							Standard	XM_005247208		Approved		uc003eam.3	Q68DE3	OTTHUMG00000159322	ENST00000478658.1:c.4120A>G	3.37:g.113376409T>C	ENSP00000420721:p.Met1374Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z3L9|Q8IVF3|Q9H8T4	Missense_Mutation	SNP	ENST00000478658.1	37	CCDS43133.1	.	.	.	.	.	.	.	.	.	.	T	10.68	1.417459	0.25552	.	.	ENSG00000176542	ENST00000316407;ENST00000478658	T;T	0.18338	2.22;2.22	5.68	4.46	0.54185	.	0.087940	0.85682	D	0.000000	T	0.13415	0.0325	L	0.32530	0.975	0.47862	D	0.999537	B	0.30406	0.278	B	0.30179	0.112	T	0.07404	-1.0774	10	0.37606	T	0.19	-12.1634	11.116	0.48259	0.0:0.0:0.3371:0.6629	.	1374	Q68DE3	K2018_HUMAN	V	1374	ENSP00000320794:M1374V;ENSP00000420721:M1374V	ENSP00000320794:M1374V	M	-	1	0	KIAA2018	114859099	1.000000	0.71417	1.000000	0.80357	0.752000	0.42762	2.543000	0.45752	2.169000	0.68431	0.402000	0.26972	ATG		0.468	KIAA2018-003	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000354591.1	NM_001009899		C	113376409	T	C	113376409	3	2	593	1	0	0	0	0	1	0	0	0	8275	1435	50	3	2621	3	KIAA2018	3	113376409	Missense_Mutation	SNP	T	TCGA-G7-6797-01A-11D-1961-08	12006304	113376409	84646021	22	35345										
FSTL1	11167	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	120122159	120122159	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	aagctgagtttccaatcagcAttttcatcagacagttcaat	6	9	4	2			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr3:120122159A>G	ENST00000295633.3	-	8	980	c.624T>C	c.(622-624)aaT>aaC	p.N208N	FSTL1_ENST00000424703.2_Silent_p.N173N	NM_007085.4	NP_009016.1	Q12841	FSTL1_HUMAN	follistatin-like 1	208	EF-hand 2. {ECO:0000255|PROSITE- ProRule:PRU00448}.				BMP signaling pathway (GO:0030509)|response to starvation (GO:0042594)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|heparin binding (GO:0008201)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(6)|liver(1)|lung(9)|skin(1)	20				GBM - Glioblastoma multiforme(114;0.189)		TCCAATCAGCATTTTCATCAG	0.438																																																0													106	106	106					3																	120122159		2203	4300	6503	SO:0001819	synonymous_variant	11167			U06863	CCDS2998.1	3q13.33	2013-01-10			ENSG00000163430	ENSG00000163430		"EF-hand domain containing"	3972	protein-coding gene	gene with protein product		605547				7957230, 9786430	Standard	NM_007085		Approved	FRP, FSL1	uc003eds.3	Q12841	OTTHUMG00000159440	ENST00000295633.3:c.624T>C	3.37:g.120122159A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K523|B4DTT5|D3DN90|Q549Z0	Silent	SNP	ENST00000295633.3	37	CCDS2998.1																																																																																				0.438	FSTL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355399.1	NM_007085		G	120122159	A	G	120122159	2	3	593	1	0	0	0	0	0	0	0	1	6084	214	8	3		3	FSTL1	3	120122159	Silent	SNP	A	TCGA-G7-6797-01A-11D-1961-08	6745750	120122159	77900271	23	35346										
COL6A6	131873	hgsc.bcm.edu;bcgsc.ca	37	chr3	130311918	130311918	+	Frame_Shift_Del	DEL	A	A	-													0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	ttttcagggagaagttggggAaaatggaattgacggattaa							TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr3:130311918delA	ENST00000358511.6	+	15	4416	c.4385delA	c.(4384-4386)gaafs	p.E1462fs	COL6A6_ENST00000453409.2_Frame_Shift_Del_p.E1462fs	NM_001102608.1	NP_001096078.1	A6NMZ7	CO6A6_HUMAN	collagen, type VI, alpha 6	1462	Triple-helical region.				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)				NS(2)|breast(5)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(30)|lung(57)|ovary(8)|pancreas(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	134						GAAGTTGGGGAAAATGGAATT	0.368																																																0													270	259	262					3																	130311918		1862	4097	5959	SO:0001589	frameshift_variant	131873			AL713792	CCDS46911.1	3q22.1	2013-01-16			ENSG00000206384	ENSG00000206384		"Collagens"	27023	protein-coding gene	gene with protein product							Standard	NM_001102608		Approved		uc010htl.3	A6NMZ7	OTTHUMG00000159653	ENST00000358511.6:c.4385delA	3.37:g.130311918delA	ENSP00000351310:p.Glu1462fs	Somatic		WXS	Illumina HiSeq	Phase_I	A7DZQ0|A7DZQ1|A7DZQ2|Q69YT0	Frame_Shift_Del	DEL	ENST00000358511.6	37	CCDS46911.1																																																																																				0.368	COL6A6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000356705.5	NM_001102608		-	130311918	A	-	130311918	7	5	593	1	0	1	0	1	0	0	0	0	3705	246	9	0	4443	0	COL6A6	3	130311918	Frame_Shift_Del	DEL	A	TCGA-G7-6797-01A-11D-1961-08	10189759	130311918	67710512	24	35347										
ETV5	2119	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	185766603	185766603	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	ggaaagccatggagaagaggGcatctgggtcacagacaaat	14	7	2	3			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr3:185766603G>A	ENST00000306376.5	-	13	1604	c.1358C>T	c.(1357-1359)gCc>gTc	p.A453V	ETV5_ENST00000480706.1_5'UTR|ETV5_ENST00000434744.1_Missense_Mutation_p.A453V|ETV5_ENST00000537818.1_Missense_Mutation_p.A495V	NM_004454.2	NP_004445.1	P41161	ETV5_HUMAN	ets variant 5	453					cell differentiation (GO:0030154)|cellular response to oxidative stress (GO:0034599)|locomotory behavior (GO:0007626)|male germ-line stem cell asymmetric division (GO:0048133)|neuromuscular synaptic transmission (GO:0007274)|positive regulation of glial cell proliferation (GO:0060252)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of branching involved in mammary gland duct morphogenesis (GO:0060762)|regulation of synapse organization (GO:0050807)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|skeletal muscle acetylcholine-gated channel clustering (GO:0071340)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|cervix(1)|large_intestine(7)|lung(9)|ovary(2)|prostate(1)|skin(4)|upper_aerodigestive_tract(2)	28	all_cancers(143;4.06e-12)|Ovarian(172;0.0386)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.62e-24)			GGAGAAGAGGGCATCTGGGTC	0.582			T	"TMPRSS2, SCL45A3"	Prostate																																		Dom	yes		3	3q28	2119	ets variant gene 5		E	0													70	61	64					3																	185766603		2203	4300	6503	SO:0001583	missense	2119			BC007333	CCDS33906.1	3q28	2008-09-12	2008-09-12		ENSG00000244405	ENSG00000244405			3494	protein-coding gene	gene with protein product	"ets-related molecule"	601600	"ets variant gene 5 (ets-related molecule)"			8152800	Standard	NM_004454		Approved	ERM	uc003fpz.3	P41161	OTTHUMG00000156639	ENST00000306376.5:c.1358C>T	3.37:g.185766603G>A	ENSP00000306894:p.Ala453Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NH46|B7Z7D7|Q6IBN5	Missense_Mutation	SNP	ENST00000306376.5	37	CCDS33906.1	.	.	.	.	.	.	.	.	.	.	G	29.9	5.043894	0.93685	.	.	ENSG00000244405	ENST00000306376;ENST00000434744;ENST00000537818	T;T;T	0.54866	0.55;0.55;0.55	5.85	5.85	0.93711	Winged helix-turn-helix transcription repressor DNA-binding (1);	0.000000	0.85682	D	0.000000	T	0.69548	0.3123	L	0.49513	1.565	0.58432	D	0.999999	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.996	T	0.70149	-0.4951	10	0.87932	D	0	.	18.9349	0.92582	0.0:0.0:1.0:0.0	.	453;495	P41161;B7Z7D7	ETV5_HUMAN;.	V	453;453;495	ENSP00000306894:A453V;ENSP00000413755:A453V;ENSP00000441737:A495V	ENSP00000306894:A453V	A	-	2	0	ETV5	187249297	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.869000	0.99810	2.773000	0.95371	0.655000	0.94253	GCC		0.582	ETV5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344947.1	NM_004454		A	185766603	G	A	185766603	3	1	593	1	0	0	0	0	1	0	0	0	5284	1203	42	2	178	2	ETV5	3	185766603	Missense_Mutation	SNP	G	TCGA-G7-6797-01A-11D-1961-08	55454685	185766603	12255827	25	35348										
FAT1	2195	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	187539870	187539870	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gtcggcattggagccctcatCggcatcacttgcaagaactt	10	12	2	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr4:187539870C>A	ENST00000441802.2	-	10	8079	c.7870G>T	c.(7870-7872)Gat>Tat	p.D2624Y		NM_005245.3	NP_005236.2	Q14517	FAT1_HUMAN	FAT atypical cadherin 1	2624	Cadherin 24. {ECO:0000255|PROSITE- ProRule:PRU00043}.				actin filament organization (GO:0007015)|anatomical structure morphogenesis (GO:0009653)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|cell-cell signaling (GO:0007267)|establishment or maintenance of cell polarity (GO:0007163)|homophilic cell adhesion (GO:0007156)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(38)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(33)|lung(88)|ovary(13)|pancreas(2)|prostate(16)|skin(2)|upper_aerodigestive_tract(11)|urinary_tract(4)	228						GAGCCCTCATCGGCATCACTT	0.443										HNSCC(5;0.00058)																											Colon(197;1040 2055 4143 4984 49344)											0													63	59	60					4																	187539870		1948	4127	6075	SO:0001583	missense	2195			X87241	CCDS47177.1	4q35.2	2013-05-31	2013-05-31	2008-10-30	ENSG00000083857	ENSG00000083857		"Cadherins / Cadherin-related"	3595	protein-coding gene	gene with protein product	"cadherin-related family member 8"	600976	"FAT tumor suppressor (Drosophila) homolog", "FAT tumor suppressor homolog 1 (Drosophila)"	FAT		8586420	Standard	XM_005262834		Approved	CDHF7, CDHR8	uc003izf.3	Q14517	OTTHUMG00000160320	ENST00000441802.2:c.7870G>T	4.37:g.187539870C>A	ENSP00000406229:p.Asp2624Tyr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000441802.2	37	CCDS47177.1	.	.	.	.	.	.	.	.	.	.	C	14.70	2.612696	0.46631	.	.	ENSG00000083857	ENST00000441802;ENST00000260147	T	0.74737	-0.87	5.2	5.2	0.72013	Cadherin (4);Cadherin-like (1);	0.000000	0.85682	D	0.000000	D	0.92675	0.7672	H	0.99090	4.425	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.95297	0.8400	10	0.87932	D	0	.	19.2916	0.94102	0.0:1.0:0.0:0.0	.	2624	Q14517	FAT1_HUMAN	Y	2624;2626	ENSP00000406229:D2624Y	ENSP00000260147:D2626Y	D	-	1	0	FAT1	187776864	1.000000	0.71417	0.347000	0.25668	0.077000	0.17291	7.651000	0.83577	2.861000	0.98227	0.655000	0.94253	GAT		0.443	FAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360209.3	NM_005245		A	187539870	C	A	187539870	3	1	593	1	0	0	0	0	1	0	0	0	5696	884	31	4	5968	4	FAT1	4	187539870	Missense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08		187539870	3614406	26	35349										
CLPTM1L	81037	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	1335258	1335258	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	ccttgtcgtaggacacggtgAggggcagctcggtggtggag	19	8	0	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr5:1335258A>G	ENST00000320895.5	-	6	967	c.710T>C	c.(709-711)cTc>cCc	p.L237P	CLPTM1L_ENST00000507807.1_Missense_Mutation_p.L104P|CLPTM1L_ENST00000320927.6_Missense_Mutation_p.L237P	NM_030782.3	NP_110409.2	Q96KA5	CLP1L_HUMAN	CLPTM1-like	237					apoptotic process (GO:0006915)	integral component of membrane (GO:0016021)|membrane (GO:0016020)				breast(2)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(2)|lung(6)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	24	Lung NSC(6;5.78e-14)|all_lung(6;4.47e-13)|all_epithelial(6;4.47e-09)		Epithelial(17;0.00931)|OV - Ovarian serous cystadenocarcinoma(19;0.0116)|all cancers(22;0.0181)	KIRC - Kidney renal clear cell carcinoma(5;0.177)|Kidney(13;0.208)		GGACACGGTGAGGGGCAGCTC	0.627																																																0													109	103	105					5																	1335258		2203	4300	6503	SO:0001583	missense	81037			AK027306	CCDS3862.1	5p15.33	2008-02-05			ENSG00000049656	ENSG00000049656			24308	protein-coding gene	gene with protein product	"cisplatin resistance related protein"	612585				11162647	Standard	NM_030782		Approved	FLJ14400, CRR9	uc003jch.3	Q96KA5	OTTHUMG00000131015	ENST00000320895.5:c.710T>C	5.37:g.1335258A>G	ENSP00000313854:p.Leu237Pro	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTC1|Q658W6|Q7LG29|Q96AZ0|Q9H3N4	Missense_Mutation	SNP	ENST00000320895.5	37	CCDS3862.1	.	.	.	.	.	.	.	.	.	.	A	21.4	4.137656	0.77775	.	.	ENSG00000049656	ENST00000320895;ENST00000507807;ENST00000320927	T;T;T	0.63580	0.08;0.06;-0.05	4.41	4.41	0.53225	.	0.062767	0.64402	D	0.000003	T	0.81327	0.4799	M	0.88906	2.99	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.81914	0.995;0.991	D	0.85481	0.1179	10	0.87932	D	0	-41.3822	13.952	0.64123	1.0:0.0:0.0:0.0	.	237;104	Q96KA5;G5E9Z2	CLP1L_HUMAN;.	P	237;104;237	ENSP00000313854:L237P;ENSP00000423321:L104P;ENSP00000315196:L237P	ENSP00000313854:L237P	L	-	2	0	CLPTM1L	1388258	1.000000	0.71417	0.954000	0.39281	0.935000	0.57460	8.653000	0.91088	1.735000	0.51646	0.523000	0.50628	CTC		0.627	CLPTM1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253649.2	NM_030782		G	1335258	A	G	1335258	3	3	593	1	0	0	0	0	1	0	0	0	3557	304	11	3	954	3	CLPTM1L	5	1335258	Missense_Mutation	SNP	A	TCGA-G7-6797-01A-11D-1961-08		1335258	179580002	27	35350										
RGS7BP	401190	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	63905047	63905047	+	Frame_Shift_Del	DEL	T	T	-													0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	tgagaagacggaagagaaggTtctttgggctgtgttgtctc							TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr5:63905047delT	ENST00000334025.2	+	6	1068	c.742delT	c.(742-744)ttcfs	p.F249fs		NM_001029875.1|NM_001271890.1|NM_001271891.1	NP_001025046.1|NP_001258819.1|NP_001258820.1	Q6MZT1	R7BP_HUMAN	regulator of G-protein signaling 7 binding protein	249					G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of signal transduction (GO:0009968)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(1)|large_intestine(4)|lung(3)|prostate(1)|skin(1)|stomach(1)	11		Lung NSC(810;0.000518)|Prostate(74;0.0435)|Ovarian(174;0.186)		Lung(70;0.147)		GAAGAGAAGGTTCTTTGGGCT	0.478																																																0													168	148	155					5																	63905047		2203	4300	6503	SO:0001589	frameshift_variant	401190			BX640900	CCDS34170.1	5q12.3	2008-02-05	2007-08-14		ENSG00000186479	ENSG00000186479			23271	protein-coding gene	gene with protein product		610890	"regulator of G-protein signalling 7 binding protein"			15632198	Standard	NM_001271890		Approved	R7BP	uc003jtj.4	Q6MZT1	OTTHUMG00000162293	ENST00000334025.2:c.742delT	5.37:g.63905047delT	ENSP00000334851:p.Phe249fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3X1	Frame_Shift_Del	DEL	ENST00000334025.2	37	CCDS34170.1																																																																																				0.478	RGS7BP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368464.1	NM_001029875		-	63905047	T	-	63905047	7	5	593	1	0	1	0	1	0	0	0	0	13324	1725	60	0	764	0	RGS7BP	5	63905047	Frame_Shift_Del	DEL	T	TCGA-G7-6797-01A-11D-1961-08	62569789	63905047	117010213	28	35351										
BHMT	635	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	78426827	78426828	+	Frame_Shift_Ins	INS	-	-	A													0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	aacccttcaatgtcaaagccINSagatggctggggagtgacca							TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr5:78426827_78426828insA	ENST00000274353.5	+	8	1216_1217	c.1109_1110insA	c.(1108-1113)ccagatfs	p.D371fs	BHMT_ENST00000524080.1_Frame_Shift_Ins_p.D218fs|DMGDH_ENST00000520388.1_Intron	NM_001713.2	NP_001704.2	Q93088	BHMT1_HUMAN	betaine--homocysteine S-methyltransferase	371					amino-acid betaine catabolic process (GO:0006579)|amino-acid betaine metabolic process (GO:0006577)|cellular nitrogen compound metabolic process (GO:0034641)|L-methionine salvage (GO:0071267)|protein methylation (GO:0006479)|regulation of homocysteine metabolic process (GO:0050666)|response to organonitrogen compound (GO:0010243)|small molecule metabolic process (GO:0044281)|sulfur amino acid metabolic process (GO:0000096)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|protein complex (GO:0043234)	betaine-homocysteine S-methyltransferase activity (GO:0047150)|S-adenosylmethionine-homocysteine S-methyltransferase activity (GO:0008898)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|kidney(2)|large_intestine(6)|lung(14)|ovary(1)|prostate(1)|skin(2)	29		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.88e-45)|Epithelial(54;8.07e-41)|all cancers(79;3.51e-36)	L-Methionine(DB00134)	ATGTCAAAGCCAGATGGCTGGG	0.495																																																0																																										SO:0001589	frameshift_variant	635			BC012616	CCDS4046.1	5q14.1	2012-09-20	2010-04-28		ENSG00000145692	ENSG00000145692	2.1.1.5		1047	protein-coding gene	gene with protein product	"betaine homocysteine methyltransferase"	602888				8798461, 9281325	Standard	NM_001713		Approved	BHMT1	uc003kfu.4	Q93088	OTTHUMG00000108157	ENST00000274353.5:c.1110dupA	5.37:g.78426828_78426828dupA	ENSP00000274353:p.Asp371fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UNI9	Frame_Shift_Ins	INS	ENST00000274353.5	37	CCDS4046.1																																																																																				0.495	BHMT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000226961.1	NM_001713		A	78426828	-	A	78426827	7	5	593	1	0	1	1	0	0	0	0	0	1425	594	21	0	1139	0	BHMT	5	78426827	Frame_Shift_Ins	INS	-	TCGA-G7-6797-01A-11D-1961-08	14521780	78426827	102488433	29	35352										
FBXL21	3950	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	135276238	135276238	+	5'UTR	DEL	A	A	-													0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	caaaatcattatcatcaatcAaaattgaagatacaccagtg							TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr5:135276238delA	ENST00000471827.1	-	0	523				FBXL21_ENST00000297158.9_RNA|FBXL21_ENST00000467490.1_RNA|LECT2_ENST00000522943.1_Intron			O14960	LECT2_HUMAN	leukocyte cell-derived chemotaxin 2						chemotaxis (GO:0006935)|negative regulation of Wnt signaling pathway (GO:0030178)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)	identical protein binding (GO:0042802)			large_intestine(1)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ATCATCAATCAAAATTGAAGA	0.333																																																0													74	71	72					5																	135276238		1851	4093	5944	SO:0001623	5_prime_UTR_variant	26223			AB007546	CCDS4190.1	5q31.1	2008-05-15			ENSG00000145826	ENSG00000145826			6550	protein-coding gene	gene with protein product		602882				9545637	Standard	NM_002302		Approved	chm-II, chm2	uc003lbe.1	O14960	OTTHUMG00000129146	ENST00000471827.1:c.-289T>-	5.37:g.135276238delA		Somatic		WXS	Illumina HiSeq	Phase_I	B2RA90|O14565|Q52M49	Targeted_Region	DEL	ENST00000471827.1	37																																																																																					0.333	LECT2-002	KNOWN	basic	processed_transcript	protein_coding	OTTHUMT00000342497.1	NM_002302		-	135276238	A	-	135276238	6	5	593	0	1	1	0	1	0	0	0	0	5725	131	5	0		0	FBXL21	5	135276238	5'UTR	DEL	A	TCGA-G7-6797-01A-11D-1961-08	56849411	135276238	45639022	30	35353										
HLA-G	3135	ucsc.edu	37	chr6	29797394	29797394	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	aagtgggcagctgtggtggtGccttctggagaggagcagag	19	6	1	2			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr6:29797394G>A	ENST00000360323.6	+	4	843	c.819G>A	c.(817-819)gtG>gtA	p.V273V	HLA-G_ENST00000376828.2_Silent_p.V278V|HLA-G_ENST00000428701.1_Silent_p.V273V|HLA-G_ENST00000376818.3_Silent_p.V181V|HLA-G_ENST00000376815.3_Intron			P17693	HLAG_HUMAN	major histocompatibility complex, class I, G	273	Alpha-3.|Ig-like C1-type.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular defense response (GO:0006968)|cytokine-mediated signaling pathway (GO:0019221)|immune response-inhibiting cell surface receptor signaling pathway (GO:0002767)|interferon-gamma-mediated signaling pathway (GO:0060333)|negative regulation of dendritic cell differentiation (GO:2001199)|negative regulation of T cell proliferation (GO:0042130)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of regulatory T cell differentiation (GO:0045591)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|positive regulation of T cell tolerance induction (GO:0002666)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)	early endosome membrane (GO:0031901)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|membrane (GO:0016020)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)			central_nervous_system(1)|endometrium(1)|large_intestine(5)|lung(4)|ovary(3)|pancreas(1)|prostate(5)|skin(1)	21						CTGTGGTGGTGCCTTCTGGAG	0.627																																																0													63	58	60					6																	29797394		2203	4296	6499	SO:0001819	synonymous_variant	3135				CCDS4668.1	6p21.3	2013-01-11	2007-12-12		ENSG00000204632	ENSG00000204632		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4964	protein-coding gene	gene with protein product	"b2 microglobulin"	142871	"HLA-G histocompatibility antigen, class I, G"				Standard	NM_002127		Approved		uc003nnw.2	P17693	OTTHUMG00000031157	ENST00000360323.6:c.819G>A	6.37:g.29797394G>A		Somatic		WXS	Illumina HiSeq			Silent	SNP	ENST00000360323.6	37	CCDS4668.1																																																																																				0.627	HLA-G-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076286.2	NM_002127		A	29797394	G	A	29797394	2	1	593	1	0	0	0	0	0	0	0	1	7219	1306	46	2		2	HLA-G	6	29797394	Silent	SNP	G	TCGA-G7-6797-01A-11D-1961-08		29797394	141317673	31	35354										
AKAP12	9590	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	151626981	151626981	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	taaatggccagaaaggagccCtgaacggtcaaggagcccta	12	10	1	2			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr6:151626981C>G	ENST00000253332.1	+	2	451	c.262C>G	c.(262-264)Ctg>Gtg	p.L88V	AKAP12_ENST00000402676.2_Missense_Mutation_p.L88V			Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12	88					G-protein coupled receptor signaling pathway (GO:0007186)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of protein kinase A signaling (GO:0010739)|protein targeting (GO:0006605)|regulation of protein kinase C signaling (GO:0090036)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|focal adhesion (GO:0005925)	adenylate cyclase binding (GO:0008179)|protein kinase A binding (GO:0051018)			breast(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(22)|lung(22)|ovary(2)|pancreas(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	68		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		GAAAGGAGCCCTGAACGGTCA	0.552																																					Melanoma(141;1616 1805 10049 24534 51979)											0													53	46	49					6																	151626981		2203	4300	6503	SO:0001583	missense	9590			U81607	CCDS5229.1, CCDS5230.1	6q24-q25	2011-07-01	2008-08-29		ENSG00000131016	ENSG00000131016		"A-kinase anchor proteins"	370	protein-coding gene	gene with protein product	"gravin", "Src-Suppressed C Kinase Substrate"	604698	"A kinase (PRKA) anchor protein (gravin) 12"			9000000	Standard	NM_144497		Approved	AKAP250, SSeCKS	uc011eep.2	Q02952	OTTHUMG00000015833	ENST00000253332.1:c.262C>G	6.37:g.151626981C>G	ENSP00000253332:p.Leu88Val	Somatic		WXS	Illumina HiSeq	Phase_I	O00310|O00498|Q4LE68|Q5SZ80|Q5TGN1|Q68D82|Q99970	Missense_Mutation	SNP	ENST00000253332.1	37	CCDS5229.1	.	.	.	.	.	.	.	.	.	.	C	0.285	-0.983780	0.02180	.	.	ENSG00000131016	ENST00000402676;ENST00000253332	T;T	0.08546	3.08;3.08	0.158	0.158	0.14942	.	.	.	.	.	T	0.01092	0.0036	N	0.08118	0	0.09310	N	1	B	0.06786	0.001	B	0.01281	0.0	T	0.48031	-0.9070	8	0.30854	T	0.27	.	.	.	.	.	88	Q02952	AKA12_HUMAN	V	88	ENSP00000384537:L88V;ENSP00000253332:L88V	ENSP00000253332:L88V	L	+	1	2	AKAP12	151668674	.	.	0.029000	0.17559	0.052000	0.14988	.	.	0.202000	0.20498	0.205000	0.17691	CTG		0.552	AKAP12-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042712.1			G	151626981	C	G	151626981	3	3	593	1	0	0	0	0	1	0	0	0	448	680	24	4	268	4	AKAP12	6	151626981	Missense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08	121829587	151626981	19488086	32	35355										
PGAM2	5224	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	44105125	44105125	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	catcacgaggcggtgagtggCcatggtggcagcagggacca	17	10	1	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr7:44105125C>A	ENST00000297283.3	-	1	61	c.4G>T	c.(4-6)Gcc>Tcc	p.A2S	AC017116.11_ENST00000445938.1_RNA	NM_000290.3	NP_000281.2	P15259	PGAM2_HUMAN	phosphoglycerate mutase 2 (muscle)	2					carbohydrate metabolic process (GO:0005975)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|glycolytic process (GO:0006096)|response to mercury ion (GO:0046689)|small molecule metabolic process (GO:0044281)|spermatogenesis (GO:0007283)|striated muscle contraction (GO:0006941)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	2,3-bisphosphoglycerate-dependent phosphoglycerate mutase activity (GO:0046538)|bisphosphoglycerate 2-phosphatase activity (GO:0004083)|bisphosphoglycerate mutase activity (GO:0004082)|cofactor binding (GO:0048037)|phosphoglycerate mutase activity (GO:0004619)			large_intestine(2)|lung(4)|ovary(1)|stomach(1)	8						CGGTGAGTGGCCATGGTGGCA	0.607																																																0													62	54	57					7																	44105125		2203	4300	6503	SO:0001583	missense	5224				CCDS34624.1	7p13-p12	2008-11-17			ENSG00000164708	ENSG00000164708	5.4.2.1, 3.1.3.13, 5.4.2.4		8889	protein-coding gene	gene with protein product		612931					Standard	NM_000290		Approved	PGAM-M	uc003tjs.3	P15259	OTTHUMG00000155355	ENST00000297283.3:c.4G>T	7.37:g.44105125C>A	ENSP00000297283:p.Ala2Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000297283.3	37	CCDS34624.1	.	.	.	.	.	.	.	.	.	.	C	12.85	2.060303	0.36373	.	.	ENSG00000164708	ENST00000297283	T	0.80909	-1.43	5.93	-3.63	0.04529	.	0.487586	0.24258	N	0.040105	T	0.55162	0.1903	N	0.05554	-0.025	0.29035	N	0.885422	B	0.06786	0.001	B	0.10450	0.005	T	0.40979	-0.9534	10	0.45353	T	0.12	-11.1352	6.6092	0.22741	0.115:0.5762:0.2239:0.0848	.	2	P15259	PGAM2_HUMAN	S	2	ENSP00000297283:A2S	ENSP00000297283:A2S	A	-	1	0	PGAM2	44071650	0.648000	0.27313	0.979000	0.43373	0.986000	0.74619	-0.141000	0.10327	-0.536000	0.06298	0.650000	0.86243	GCC		0.607	PGAM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000339614.1			A	44105125	C	A	44105125	3	1	593	1	0	0	0	0	1	0	0	0	11781	739	26	4	769	4	PGAM2	7	44105125	Missense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08		44105125	115033538	33	35356										
TMED4	222068	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	44621125	44621125	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	atggtcaccgggcgtgtgggAggtgaacgtgaagcggccct	18	9	1	2			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr7:44621125A>G	ENST00000457408.2	-	3	362	c.310T>C	c.(310-312)Tcc>Ccc	p.S104P	TMED4_ENST00000289577.5_Missense_Mutation_p.S104P|TMED4_ENST00000444131.2_5'UTR|TMED4_ENST00000481238.1_Missense_Mutation_p.S104P	NM_182547.2	NP_872353.2	Q7Z7H5	TMED4_HUMAN	transmembrane emp24 protein transport domain containing 4	104	GOLD. {ECO:0000255|PROSITE- ProRule:PRU00096}.				positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|protein transport (GO:0015031)|signal transduction (GO:0007165)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	signal transducer activity (GO:0004871)			breast(1)|endometrium(1)|large_intestine(2)|lung(2)	6						GGCGTGTGGGAGGTGAACGTG	0.557																																																0													89	89	89					7																	44621125		2203	4300	6503	SO:0001583	missense	222068			BC035467	CCDS5493.1	7p13	2004-12-21			ENSG00000158604	ENSG00000158604			22301	protein-coding gene	gene with protein product		612038				12761501	Standard	NM_182547		Approved	HNLF	uc003tli.3	Q7Z7H5	OTTHUMG00000129210	ENST00000457408.2:c.310T>C	7.37:g.44621125A>G	ENSP00000404042:p.Ser104Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2K8|B4DFJ4|Q56VW3|Q7Z432|Q8N2P6	Missense_Mutation	SNP	ENST00000457408.2	37	CCDS5493.1	.	.	.	.	.	.	.	.	.	.	A	34	5.340815	0.95783	.	.	ENSG00000158604	ENST00000457408;ENST00000289577;ENST00000419520;ENST00000481238	T;T;T	0.18502	2.21;2.21;2.21	5.22	5.22	0.72569	GOLD (2);	0.000000	0.85682	D	0.000000	T	0.51007	0.1649	M	0.93720	3.45	0.80722	D	1	D;D	0.76494	0.999;0.984	D;D	0.74348	0.983;0.962	T	0.63795	-0.6556	10	0.87932	D	0	-13.0927	13.1033	0.59233	1.0:0.0:0.0:0.0	.	104;104	Q7Z7H5-3;Q7Z7H5	.;TMED4_HUMAN	P	104;104;88;104	ENSP00000404042:S104P;ENSP00000289577:S104P;ENSP00000417443:S104P	ENSP00000289577:S104P	S	-	1	0	TMED4	44587650	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	8.944000	0.92980	2.191000	0.70037	0.533000	0.62120	TCC		0.557	TMED4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251290.1	NM_182547		G	44621125	A	G	44621125	3	3	593	1	0	0	0	0	1	0	0	0	16018	304	11	3	385	3	TMED4	7	44621125	Missense_Mutation	SNP	A	TCGA-G7-6797-01A-11D-1961-08	516000	44621125	114517538	34	35357										
ADAM28	10863	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	24209520	24209520	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	atgagtcagatgaagccccaTgtgtatgatctgccagtaga	11	8	2	5			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr8:24209520T>C	ENST00000265769.4	+	21	2309	c.2199T>C	c.(2197-2199)caT>caC	p.H733H	ADAM28_ENST00000397649.3_Missense_Mutation_p.C482R|RP11-624C23.1_ENST00000518988.1_RNA|RP11-624C23.1_ENST00000523578.1_RNA|RP11-624C23.1_ENST00000523700.1_RNA|RP11-624C23.1_ENST00000519689.1_RNA	NM_014265.4	NP_055080.2	Q9UKQ2	ADA28_HUMAN	ADAM metallopeptidase domain 28	733					spermatogenesis (GO:0007283)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(10)|lung(7)|prostate(1)|skin(12)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	42		Prostate(55;0.0959)		Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0434)|BRCA - Breast invasive adenocarcinoma(99;0.175)		TGAAGCCCCATGTGTATGATC	0.378																																					NSCLC(193;488 2149 22258 34798 40734)											0													117	114	115					8																	24209520		2203	4300	6503	SO:0001819	synonymous_variant	10863			AJ242015	CCDS34865.1, CCDS47830.1	8p21.2	2005-11-29	2005-08-18		ENSG00000042980	ENSG00000042980		"ADAM metallopeptidase domain containing"	206	protein-coding gene	gene with protein product		606188	"a disintegrin and metalloproteinase domain 28"				Standard	XM_005273378		Approved	eMDCII, MDC-Lm, MDC-Ls, ADAM23	uc003xdy.3	Q9UKQ2	OTTHUMG00000163780	ENST00000265769.4:c.2199T>C	8.37:g.24209520T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RMV5|Q9Y339|Q9Y3S0	Silent	SNP	ENST00000265769.4	37	CCDS34865.1	.	.	.	.	.	.	.	.	.	.	T	7.970	0.748895	0.15710	.	.	ENSG00000042980	ENST00000397649;ENST00000521629	T	0.01745	4.66	4.14	-4.67	0.03319	.	.	.	.	.	T	0.01800	0.0057	.	.	.	0.09310	N	1	.	.	.	.	.	.	T	0.42189	-0.9466	6	0.87932	D	0	.	2.3577	0.04300	0.1532:0.4266:0.1567:0.2635	.	.	.	.	R	482;366	ENSP00000380770:C482R	ENSP00000380770:C482R	C	+	1	0	ADAM28	24265465	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-2.317000	0.01122	-0.875000	0.04022	-0.347000	0.07816	TGT		0.378	ADAM28-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375441.2	NM_021778		C	24209520	T	C	24209520	2	2	593	1	0	0	0	0	0	0	0	1	246	1461	51	3		3	ADAM28	8	24209520	Silent	SNP	T	TCGA-G7-6797-01A-11D-1961-08		24209520	122154502	35	35358										
BNIP3L	665	hgsc.bcm.edu	37	chr8	26240664	26240664	+	Silent	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	acaatgtcgtcccacctagtCgagccgccgccgcccctgca	9	19	0	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr8:26240664C>G	ENST00000380629.2	+	1	251	c.18C>G	c.(16-18)gtC>gtG	p.V6V	BNIP3L_ENST00000520409.1_5'Flank|BNIP3L_ENST00000523515.1_5'Flank|SDAD1P1_ENST00000519902.1_RNA	NM_004331.2	NP_004322.1	O60238	BNI3L_HUMAN	BCL2/adenovirus E1B 19kDa interacting protein 3-like	6					defense response to virus (GO:0051607)|mitochondrial outer membrane permeabilization (GO:0097345)|mitochondrial protein catabolic process (GO:0035694)|negative regulation of apoptotic process (GO:0043066)|positive regulation of apoptotic process (GO:0043065)|viral process (GO:0016032)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|intrinsic component of membrane (GO:0031224)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|nuclear envelope (GO:0005635)	identical protein binding (GO:0042802)|lamin binding (GO:0005521)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)			large_intestine(3)|lung(1)	4		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;0.0019)|Epithelial(17;1.59e-12)|all cancers(2;3.75e-11)|OV - Ovarian serous cystadenocarcinoma(2;2.57e-08)|Colorectal(74;0.135)		CCCACCTAGTCGAGCCGCCGC	0.662																																																0													16	19	18					8																	26240664		2177	4263	6440	SO:0001819	synonymous_variant	665			AB004788	CCDS6050.1	8p21	2014-05-13	2002-08-29		ENSG00000104765	ENSG00000104765			1085	protein-coding gene	gene with protein product		605368	"BCL2/adenovirus E1B 19kD-interacting protein 3-like"			9523198, 9973195	Standard	NM_004331		Approved	Nix, BNIP3a	uc003xex.1	O60238	OTTHUMG00000099433	ENST00000380629.2:c.18C>G	8.37:g.26240664C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0AZS9|Q5JW63|Q8NF87	Silent	SNP	ENST00000380629.2	37	CCDS6050.1																																																																																				0.662	BNIP3L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216895.1	NM_004331		G	26240664	C	G	26240664	2	3	593	1	0	0	0	0	0	0	0	1	1479	871	31	4		4	BNIP3L	8	26240664	Silent	SNP	C	TCGA-G7-6797-01A-11D-1961-08	2031144	26240664	120123358	36	35359										
RAB11FIP1	80223	broad.mit.edu	37	chr8	37729419	37729419	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	tgatctattctttcatcatcCgatgcgacttcaggaatgga	8	9	5	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr8:37729419C>A	ENST00000330843.4	-	4	2913	c.2901G>T	c.(2899-2901)tcG>tcT	p.S967S	RAB11FIP1_ENST00000524118.1_Intron|RAB11FIP1_ENST00000522727.1_Intron|RAB11FIP1_ENST00000523182.1_5'UTR|RAB11FIP1_ENST00000287263.4_Intron	NM_001002814.2	NP_001002814.2	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 (class I)	967					protein transport (GO:0015031)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|endosome (GO:0005768)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)				NS(1)|breast(1)|central_nervous_system(4)|endometrium(3)|large_intestine(6)|lung(20)|ovary(3)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	49		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			TTTCATCATCCGATGCGACTT	0.453																																																0													156	128	137					8																	37729419		2203	4300	6503	SO:0001819	synonymous_variant	80223			AK092296	CCDS34881.1, CCDS34882.1	8p11.22	2005-10-04			ENSG00000156675	ENSG00000156675			30265	protein-coding gene	gene with protein product		608737				11786538, 11495908	Standard	NM_001002814		Approved	RCP, FLJ22622, FLJ22524, Rab11-FIP1	uc003xkm.2	Q6WKZ4	OTTHUMG00000164026	ENST00000330843.4:c.2901G>T	8.37:g.37729419C>A		Somatic		WXS	Illumina HiSeq	Phase_I	J3KNP0|Q307T1|Q6AZK4|Q6WKZ2|Q6WKZ6|Q86YV4|Q8TDL1|Q9H642	Silent	SNP	ENST00000330843.4	37	CCDS34882.1																																																																																				0.453	RAB11FIP1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000376816.1	NM_025151		A	37729419	C	A	37729419	2	1	593	1	0	0	0	0	0	0	0	1	12906	639	23	4		4	RAB11FIP1	8	37729419	Silent	SNP	C	TCGA-G7-6797-01A-11D-1961-08	11488755	37729419	108634603	37	35360										
XKR4	114786	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	56435874	56435874	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gcttccctcgtgtccctggcCtgggccttggcctcctacca	10	18	0	0	rs4263738		TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr8:56435874C>G	ENST00000327381.6	+	3	1141	c.1041C>G	c.(1039-1041)gcC>gcG	p.A347A	RP11-628E19.2_ENST00000522918.1_RNA	NM_052898.1	NP_443130.1	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related family, member 4	347						integral component of membrane (GO:0016021)				NS(1)|autonomic_ganglia(1)|endometrium(1)|kidney(3)|large_intestine(4)|liver(2)|lung(12)|ovary(1)|pancreas(2)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	34			Epithelial(17;0.000117)|all cancers(17;0.000836)			TGTCCCTGGCCTGGGCCTTGG	0.562																																																0													62	57	59					8																	56435874		2203	4300	6503	SO:0001819	synonymous_variant	114786			AY534241	CCDS34893.1	8q12.1	2006-01-12	2006-01-12		ENSG00000206579	ENSG00000206579			29394	protein-coding gene	gene with protein product			"X Kell blood group precursor-related family, member 4"				Standard	NM_052898		Approved	KIAA1889	uc003xsf.3	Q5GH76	OTTHUMG00000164288	ENST00000327381.6:c.1041C>G	8.37:g.56435874C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q96PZ8	Silent	SNP	ENST00000327381.6	37	CCDS34893.1																																																																																				0.562	XKR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378129.2	NM_052898		G	56435874	C	G	56435874	2	3	593	1	0	0	0	0	0	0	0	1	17445	668	24	4		4	XKR4	8	56435874	Silent	SNP	C	TCGA-G7-6797-01A-11D-1961-08	18706455	56435874	89928148	38	35361										
HNF4G	3174	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	76465335	76465335	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	cgttaagaaaattgcaagtaTtggtgatgtctgtgaatcta	10	4	2	3			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr8:76465335T>C	ENST00000354370.1	+	6	677	c.407T>C	c.(406-408)aTt>aCt	p.I136T	HNF4G_ENST00000396423.2_Missense_Mutation_p.I173T			Q14541	HNF4G_HUMAN	hepatocyte nuclear factor 4, gamma	136					endocrine pancreas development (GO:0031018)|gene expression (GO:0010467)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription initiation from RNA polymerase II promoter (GO:0006367)	nucleoplasm (GO:0005654)	ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|steroid hormone receptor activity (GO:0003707)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|lung(10)|ovary(1)|prostate(3)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	37	Breast(64;0.0448)		BRCA - Breast invasive adenocarcinoma(89;0.161)			ATTGCAAGTATTGGTGATGTC	0.358																																																0													120	109	113					8																	76465335		2203	4300	6503	SO:0001583	missense	3174				CCDS6220.2	8q21-q22	2013-01-16			ENSG00000164749	ENSG00000164749		"Nuclear hormone receptors"	5026	protein-coding gene	gene with protein product		605966				8622695, 12220494	Standard	NM_004133		Approved	NR2A2	uc003yar.3	Q14541	OTTHUMG00000149920	ENST00000354370.1:c.407T>C	8.37:g.76465335T>C	ENSP00000346339:p.Ile136Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z2V9|Q9UH81|Q9UIS6	Missense_Mutation	SNP	ENST00000354370.1	37		.	.	.	.	.	.	.	.	.	.	T	17.96	3.517111	0.64634	.	.	ENSG00000164749	ENST00000354370;ENST00000396423	D;D	0.94723	-3.5;-3.5	5.4	5.4	0.78164	Nuclear hormone receptor, ligand-binding (2);Nuclear hormone receptor, ligand-binding, core (1);	0.102401	0.64402	D	0.000003	D	0.93769	0.8008	M	0.71036	2.16	0.58432	D	0.999998	B;B	0.10296	0.001;0.003	B;B	0.21151	0.02;0.033	D	0.91547	0.5254	10	0.66056	D	0.02	.	15.5943	0.76566	0.0:0.0:0.0:1.0	.	173;136	F1D8Q4;Q14541	.;HNF4G_HUMAN	T	136;173	ENSP00000346339:I136T;ENSP00000379701:I173T	ENSP00000346339:I136T	I	+	2	0	HNF4G	76627890	1.000000	0.71417	0.985000	0.45067	0.994000	0.84299	7.450000	0.80656	2.263000	0.75096	0.533000	0.62120	ATT		0.358	HNF4G-002	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000313914.2	NM_004133		C	76465335	T	C	76465335	3	2	593	1	0	0	0	0	1	0	0	0	7261	1493	52	3	536	3	HNF4G	8	76465335	Missense_Mutation	SNP	T	TCGA-G7-6797-01A-11D-1961-08	20029461	76465335	69898687	39	35362										
PTK2	5747	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	141745382	141745382	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	ttaagttcagtaaacctgggCcgcctgctggggtcataggc	13	10	2	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr8:141745382C>T	ENST00000522684.1	-	22	2227	c.1998G>A	c.(1996-1998)cgG>cgA	p.R666R	PTK2_ENST00000538769.1_Silent_p.R334R|PTK2_ENST00000535192.1_Silent_p.R666R|PTK2_ENST00000395218.2_Silent_p.R666R|MIR151A_ENST00000521276.1_RNA|PTK2_ENST00000519419.1_Silent_p.R710R|PTK2_ENST00000517887.1_Silent_p.R710R|PTK2_ENST00000340930.3_Silent_p.R666R|PTK2_ENST00000519465.1_Silent_p.R294R|PTK2_ENST00000521059.1_Silent_p.R666R	NM_153831.3	NP_722560.1	Q05397	FAK1_HUMAN	protein tyrosine kinase 2	666	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell motility (GO:0048870)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|central nervous system neuron axonogenesis (GO:0021955)|embryo development (GO:0009790)|endothelial cell migration (GO:0043542)|ephrin receptor signaling pathway (GO:0048013)|establishment of cell polarity (GO:0030010)|establishment of nucleus localization (GO:0040023)|extracellular matrix organization (GO:0030198)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|growth hormone receptor signaling pathway (GO:0060396)|heart morphogenesis (GO:0003007)|innate immune response (GO:0045087)|integrin-mediated signaling pathway (GO:0007229)|microtubule cytoskeleton organization (GO:0000226)|negative regulation of anoikis (GO:2000811)|negative regulation of apoptotic process (GO:0043066)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of organ growth (GO:0046621)|negative regulation of synapse assembly (GO:0051964)|netrin-activated signaling pathway (GO:0038007)|neuron migration (GO:0001764)|peptidyl-tyrosine phosphorylation (GO:0018108)|placenta development (GO:0001890)|platelet activation (GO:0030168)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|protein autophosphorylation (GO:0046777)|regulation of cell adhesion mediated by integrin (GO:0033628)|regulation of cell proliferation (GO:0042127)|regulation of cell shape (GO:0008360)|regulation of cytoskeleton organization (GO:0051493)|regulation of endothelial cell migration (GO:0010594)|regulation of focal adhesion assembly (GO:0051893)|regulation of osteoblast differentiation (GO:0045667)|regulation of Rho GTPase activity (GO:0032319)|signal complex assembly (GO:0007172)|transforming growth factor beta receptor signaling pathway (GO:0007179)|vasculogenesis (GO:0001570)	apical plasma membrane (GO:0016324)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|stress fiber (GO:0001725)	actin binding (GO:0003779)|ATP binding (GO:0005524)|JUN kinase binding (GO:0008432)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|SH2 domain binding (GO:0042169)|signal transducer activity (GO:0004871)			breast(1)|central_nervous_system(1)|endometrium(8)|kidney(2)|large_intestine(6)|lung(23)|ovary(2)|prostate(1)|skin(3)|urinary_tract(1)	48	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			TAAACCTGGGCCGCCTGCTGG	0.532																																																0													61	52	55					8																	141745382		2203	4300	6503	SO:0001819	synonymous_variant	5747			L13616	CCDS6381.1, CCDS56557.1	8q24.3	2013-02-18	2013-02-18		ENSG00000169398	ENSG00000169398	2.7.10.1	"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	9611	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 71"	600758	"PTK2 protein tyrosine kinase 2"			8422239	Standard	NM_153831		Approved	FAK, FADK, FAK1, PPP1R71	uc003yvt.3	Q05397	OTTHUMG00000067438	ENST00000522684.1:c.1998G>A	8.37:g.141745382C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4E2N6|F5H4S4|Q14291|Q9UD85	Silent	SNP	ENST00000522684.1	37	CCDS6381.1	.	.	.	.	.	.	.	.	.	.	C	9.232	1.036008	0.19590	.	.	ENSG00000169398	ENST00000519654	.	.	.	5.51	3.39	0.38822	.	.	.	.	.	T	0.62171	0.2406	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.60591	-0.7233	4	.	.	.	.	11.6247	0.51138	0.0:0.7826:0.0:0.2174	.	.	.	.	T	677	.	.	A	-	1	0	PTK2	141814564	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	1.429000	0.34903	1.340000	0.45581	-0.136000	0.14681	GCC		0.532	PTK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378054.5	NM_005607		T	141745382	C	T	141745382	2	4	593	1	0	0	0	0	0	0	0	1	12773	726	26	2		2	PTK2	8	141745382	Silent	SNP	C	TCGA-G7-6797-01A-11D-1961-08	65280047	141745382	4618640	40	35363										
OPLAH	26873	broad.mit.edu	37	chr8	145113801	145113801	+	Splice_Site	DEL	T	T	-													0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	agcaggtcccccgtgcggccTtccagaaaagcccaggaggc							TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr8:145113801delT	ENST00000426825.1	-	5	545		c.e5-2		OPLAH_ENST00000534424.1_Splice_Site	NM_017570.3	NP_060040.1	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)						glutathione biosynthetic process (GO:0006750)|glutathione derivative biosynthetic process (GO:1901687)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)	5-oxoprolinase (ATP-hydrolyzing) activity (GO:0017168)|ATP binding (GO:0005524)			breast(1)|central_nervous_system(1)|endometrium(1)|lung(13)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	20	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-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;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCGTGCGGCCTTCCAGAAAAG	0.677																																																0													9	12	11					8																	145113801		1857	4034	5891	SO:0001630	splice_region_variant	26873			AF024672, AB122018	CCDS75802.1	8q24.3	2010-11-23			ENSG00000178814	ENSG00000178814	3.5.2.9		8149	protein-coding gene	gene with protein product		614243				14993790	Standard	NM_017570		Approved	OPLA, 5-Opase	uc003zar.3	O14841		ENST00000426825.1:c.464-2A>-	8.37:g.145113801delT		Somatic		WXS	Illumina HiSeq	Phase_I	A5PKY8|Q75W65|Q9Y4Q0	Splice_Site	DEL	ENST00000426825.1	37																																																																																					0.677	OPLAH-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_017570	Intron	-	145113801	T	-	145113801	8	5	593	1	0	1	0	1	0	0	1	0	10883	1623	56	0	3498	0	OPLAH	8	145113801	Splice_Site	DEL	T	TCGA-G7-6797-01A-11D-1961-08	3368419	145113801	1250221	41	35364										
C9orf123	90871	broad.mit.edu	37	chr9	7799724	7799724	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	actcaaaaggctgggacaacCgagaccccatgctctggaac	10	13	2	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr9:7799724C>G	ENST00000358227.4	-	1	343	c.11G>C	c.(10-12)cGg>cCg	p.R4P	TMEM261_ENST00000484082.1_Intron	NM_033428.1	NP_219500.1	Q96GE9	TM261_HUMAN	transmembrane protein 261	4						integral component of membrane (GO:0016021)											CTGGGACAACCGAGACCCCAT	0.642																																																0													24	23	23					9																	7799724		2203	4300	6503	SO:0001583	missense	90871			BC009510	CCDS34989.1	9p24.1	2014-02-21	2013-09-11	2013-09-11	ENSG00000137038	ENSG00000137038			30536	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 123"	C9orf123		21666724	Standard	NM_033428		Approved	MGC4730	uc003zkj.3	Q96GE9	OTTHUMG00000019539	ENST00000358227.4:c.11G>C	9.37:g.7799724C>G	ENSP00000350961:p.Arg4Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9B7|Q5T6Y9|Q9NT74	Missense_Mutation	SNP	ENST00000358227.4	37	CCDS34989.1	.	.	.	.	.	.	.	.	.	.	c	8.371	0.835299	0.16820	.	.	ENSG00000137038	ENST00000358227	T	0.44881	0.91	4.48	-8.96	0.00761	.	4.734690	0.00682	N	0.000688	T	0.19087	0.0458	N	0.08118	0	0.09310	N	1	B;B	0.26445	0.149;0.149	B;B	0.30316	0.114;0.114	T	0.12993	-1.0526	10	0.26408	T	0.33	-18.367	4.0438	0.09763	0.1403:0.0854:0.5667:0.2076	.	4;4	Q96GE9-2;Q96GE9	.;CI123_HUMAN	P	4	ENSP00000350961:R4P	ENSP00000350961:R4P	R	-	2	0	C9orf123	7789724	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-2.562000	0.00920	-2.210000	0.00738	-2.363000	0.00238	CGG		0.642	TMEM261-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051705.1	NM_033428		G	7799724	C	G	7799724	3	3	593	1	0	0	0	0	1	0	0	0	2455	652	23	4	335	4	C9orf123	9	7799724	Missense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08		7799724	133413707	42	35365										
SEC61B	10952	bcgsc.ca	37	chr9	101992685	101992685	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gtatttatgttgcacatttgGggcaagtacactcgttcgta	10	7	0	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr9:101992685G>T	ENST00000223641.4	+	4	333	c.270G>T	c.(268-270)tgG>tgT	p.W90C	SEC61B_ENST00000498603.1_Missense_Mutation_p.W36C	NM_006808.2	NP_006799.1	P60468	SC61B_HUMAN	Sec61 beta subunit	90					antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular protein metabolic process (GO:0044267)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|gene expression (GO:0010467)|protein import into nucleus, translocation (GO:0000060)|retrograde protein transport, ER to cytosol (GO:0030970)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum Sec complex (GO:0031205)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	epidermal growth factor binding (GO:0048408)|poly(A) RNA binding (GO:0044822)|ribosome binding (GO:0043022)			kidney(1)|large_intestine(1)	2		Acute lymphoblastic leukemia(62;0.0559)				TGCACATTTGGGGCAAGTACA	0.388																																																0													273	251	258					9																	101992685		2203	4299	6502	SO:0001583	missense	10952			L25085	CCDS6741.1	9q22.32-q31.3	2009-03-19			ENSG00000106803	ENSG00000106803			16993	protein-coding gene	gene with protein product		609214				8107851, 10212142	Standard	NM_006808		Approved		uc004azh.3	P60468	OTTHUMG00000020354	ENST00000223641.4:c.270G>T	9.37:g.101992685G>T	ENSP00000223641:p.Trp90Cys	Somatic		WXS	Illumina HiSeq	Phase_1	P38390|P38391|Q6IBC1	Missense_Mutation	SNP	ENST00000223641.4	37	CCDS6741.1	.	.	.	.	.	.	.	.	.	.	G	24.4	4.528131	0.85706	.	.	ENSG00000106803	ENST00000223641	.	.	.	5.83	5.83	0.93111	.	0.126644	0.56097	D	0.000021	D	0.83041	0.5168	.	.	.	0.80722	D	1	D	0.76494	0.999	D	0.80764	0.994	D	0.83390	0.0017	8	0.59425	D	0.04	.	19.7125	0.96102	0.0:0.0:1.0:0.0	.	90	P60468	SC61B_HUMAN	C	90	.	ENSP00000223641:W90C	W	+	3	0	SEC61B	101032506	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.242000	0.95408	2.767000	0.95098	0.650000	0.86243	TGG		0.388	SEC61B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053391.1	NM_006808		T	101992685	G	T	101992685	3	4	593	1	0	0	0	0	1	0	0	0	14015	1241	43	4	284	4	SEC61B	9	101992685	Missense_Mutation	SNP	G	TCGA-G7-6797-01A-11D-1961-08	94192961	101992685	39220746	43	35366										
TBC1D13	54662	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	131565636	131565636	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gtggagcggatcctgttcatCtacgccaagctcaaccctgg	11	13	3	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr9:131565636C>G	ENST00000372648.5	+	8	801	c.651C>G	c.(649-651)atC>atG	p.I217M	TBC1D13_ENST00000223865.8_Intron|TBC1D13_ENST00000539497.1_Missense_Mutation_p.I36M|TBC1D13_ENST00000466056.1_3'UTR	NM_018201.3	NP_060671.3	Q9NVG8	TBC13_HUMAN	TBC1 domain family, member 13	217	Rab-GAP TBC. {ECO:0000255|PROSITE- ProRule:PRU00163}.						Rab GTPase activator activity (GO:0005097)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)	6						TCCTGTTCATCTACGCCAAGC	0.552																																																0													151	121	131					9																	131565636		2203	4300	6503	SO:0001583	missense	54662			AK001605	CCDS6911.1, CCDS69677.1	9q34.13	2013-07-09			ENSG00000107021	ENSG00000107021			25571	protein-coding gene	gene with protein product						22762500	Standard	XM_005252060		Approved	FLJ10743	uc010myj.3	Q9NVG8	OTTHUMG00000020760	ENST00000372648.5:c.651C>G	9.37:g.131565636C>G	ENSP00000361731:p.Ile217Met	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2E7|B3KW04|B9EGJ8|Q5T270|Q5T271	Missense_Mutation	SNP	ENST00000372648.5	37	CCDS6911.1	.	.	.	.	.	.	.	.	.	.	C	19.71	3.879150	0.72294	.	.	ENSG00000107021	ENST00000372648;ENST00000539497	T;T	0.12569	2.67;2.67	5.48	4.56	0.56223	Rab-GAP/TBC domain (4);	0.111120	0.64402	N	0.000011	T	0.29976	0.0750	M	0.78223	2.4	0.80722	D	1	D	0.55605	0.972	P	0.58721	0.844	T	0.02588	-1.1137	10	0.41790	T	0.15	-25.7081	8.7782	0.34776	0.0:0.769:0.1524:0.0786	.	217	Q9NVG8	TBC13_HUMAN	M	217;36	ENSP00000361731:I217M;ENSP00000437751:I36M	ENSP00000361731:I217M	I	+	3	3	TBC1D13	130605457	1.000000	0.71417	1.000000	0.80357	0.893000	0.52053	4.786000	0.62425	1.253000	0.44018	0.655000	0.94253	ATC		0.552	TBC1D13-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054496.1	NM_018201		G	131565636	C	G	131565636	3	3	593	1	0	0	0	0	1	0	0	0	15614	903	32	4	681	4	TBC1D13	9	131565636	Missense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08	29572951	131565636	9647795	44	35367										
MCM10	55388	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	13222572	13222572	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	attgggtgacatttggggttAtattgaagaaggttacgcca	13	4	0	3			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr10:13222572A>C	ENST00000484800.2	+	7	1001	c.898A>C	c.(898-900)Ata>Cta	p.I300L	MCM10_ENST00000378714.3_Missense_Mutation_p.I299L|MCM10_ENST00000378694.1_Missense_Mutation_p.I299L			Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	300	OB-fold domain. {ECO:0000250}.				cell proliferation (GO:0008283)|DNA replication (GO:0006260)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)			central_nervous_system(1)|large_intestine(4)|ovary(2)|skin(1)|stomach(1)	9						ATTTGGGGTTATATTGAAGAA	0.423																																																0													232	230	231					10																	13222572		2203	4300	6503	SO:0001583	missense	55388			AB042719	CCDS7095.1, CCDS7096.1	10p13	2008-08-01	2007-04-04		ENSG00000065328	ENSG00000065328			18043	protein-coding gene	gene with protein product		609357	"MCM10 minichromosome maintenance deficient 10 (S. cerevisiae)"			11095689, 17699597	Standard	NM_018518		Approved	PRO2249, CNA43, DNA43	uc001ima.3	Q7L590	OTTHUMG00000017694	ENST00000484800.2:c.898A>C	10.37:g.13222572A>C	ENSP00000418268:p.Ile300Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9I6|B7ZKZ8|Q3MIR3|Q7LD55|Q96GX4|Q96NB6|Q9H0D7|Q9H3P9|Q9P177	Missense_Mutation	SNP	ENST00000484800.2	37	CCDS7096.1	.	.	.	.	.	.	.	.	.	.	A	10.70	1.422993	0.25639	.	.	ENSG00000065328	ENST00000378714;ENST00000361282;ENST00000484800;ENST00000378694	T;T;T	0.16073	2.38;2.37;2.37	5.82	5.82	0.92795	.	0.103877	0.64402	D	0.000003	T	0.16257	0.0391	N	0.26042	0.785	0.53688	D	0.999971	B;B;B	0.22683	0.037;0.073;0.008	B;B;B	0.30029	0.061;0.11;0.041	T	0.05683	-1.0870	10	0.36615	T	0.2	-11.6005	16.1814	0.81903	1.0:0.0:0.0:0.0	.	299;299;300	Q5T670;Q7L590-2;Q7L590	.;.;MCM10_HUMAN	L	299;300;300;299	ENSP00000367986:I299L;ENSP00000418268:I300L;ENSP00000367966:I299L	ENSP00000354945:I300L	I	+	1	0	MCM10	13262578	1.000000	0.71417	0.940000	0.37924	0.594000	0.36715	4.284000	0.58983	2.234000	0.73211	0.533000	0.62120	ATA		0.423	MCM10-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000356853.1	NM_182751		C	13222572	A	C	13222572	3	2	593	1	0	0	0	0	1	0	0	0	9392	449	16	5	920	5	MCM10	10	13222572	Missense_Mutation	SNP	A	TCGA-G7-6797-01A-11D-1961-08		13222572	122312175	45	35368										
PCBD1	5092	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	72643783	72643783	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	ctgaaaggccggcacactcaTgggtgctcagcgtgatgtgg	15	10	2	2			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr10:72643783T>C	ENST00000299299.3	-	4	489	c.239A>G	c.(238-240)cAt>cGt	p.H80R	PCBD1_ENST00000493228.1_5'UTR	NM_000281.2	NP_000272.1	P61457	PHS_HUMAN	pterin-4 alpha-carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha	80	Substrate binding. {ECO:0000250}.				cellular nitrogen compound metabolic process (GO:0034641)|L-phenylalanine catabolic process (GO:0006559)|positive regulation of transcription, DNA-templated (GO:0045893)|protein heterooligomerization (GO:0051291)|protein homotetramerization (GO:0051289)|regulation of protein homodimerization activity (GO:0043496)|small molecule metabolic process (GO:0044281)|tetrahydrobiopterin biosynthetic process (GO:0006729)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	4-alpha-hydroxytetrahydrobiopterin dehydratase activity (GO:0008124)|identical protein binding (GO:0042802)|phenylalanine 4-monooxygenase activity (GO:0004505)|transcription coactivator activity (GO:0003713)			breast(1)|endometrium(2)|large_intestine(1)	4						GGCACACTCATGGGTGCTCAG	0.512																																																0													94	76	82					10																	72643783		2203	4300	6503	SO:0001583	missense	5092			BC006324	CCDS31217.1	10q22	2014-04-01	2007-11-06	2005-02-11	ENSG00000166228	ENSG00000166228	4.2.1.96		8646	protein-coding gene	gene with protein product	"Pterin-4a-carbinolamine dehydratase (dimerization cofactor of hepatic nuclear factor 1-alpha)", "pterin-4-alpha carbinolamine dehydratase", "dimerizing cofactor for HNF1"	126090	"6-pyruvoyl-tetrahydropterin synthase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1)", "pterin-4 alpha-carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1)"	DCOH, PCBD		8486378	Standard	XM_005269877		Approved	PCD	uc001jrn.1	P61457	OTTHUMG00000018417	ENST00000299299.3:c.239A>G	10.37:g.72643783T>C	ENSP00000299299:p.His80Arg	Somatic		WXS	Illumina HiSeq	Phase_I	P70519|P80095|Q9D930	Missense_Mutation	SNP	ENST00000299299.3	37	CCDS31217.1	.	.	.	.	.	.	.	.	.	.	T	17.38	3.375645	0.61735	.	.	ENSG00000166228	ENST00000299299	D	0.92752	-3.1	5.69	5.69	0.88448	.	0.000000	0.85682	D	0.000000	D	0.97801	0.9278	H	0.98333	4.205	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.99478	1.0947	10	0.87932	D	0	.	15.9584	0.79906	0.0:0.0:0.0:1.0	.	80	P61457	PHS_HUMAN	R	80	ENSP00000299299:H80R	ENSP00000299299:H80R	H	-	2	0	PCBD1	72313789	1.000000	0.71417	0.978000	0.43139	0.159000	0.22180	7.474000	0.81024	2.165000	0.68154	0.528000	0.53228	CAT		0.512	PCBD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048527.1	NM_000281		C	72643783	T	C	72643783	3	2	593	1	0	0	0	0	1	0	0	0	11505	1464	51	3	79	3	PCBD1	10	72643783	Missense_Mutation	SNP	T	TCGA-G7-6797-01A-11D-1961-08	59421211	72643783	62890964	46	35369										
ADAM8	101	ucsc.edu	37	chr10	135080899	135080899	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	agacaggaactgggaagggtGggctggacacagtgaccgga	18	7	0	2			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr10:135080899G>A	ENST00000445355.3	-	21	2326	c.2276C>T	c.(2275-2277)cCa>cTa	p.P759L	ADAM8_ENST00000415217.3_Silent_p.P703P|ADAM8_ENST00000485491.2_Missense_Mutation_p.P694L	NM_001109.4	NP_001100.3	P78325	ADAM8_HUMAN	ADAM metallopeptidase domain 8	759					activation of MAPK activity involved in innate immune response (GO:0035419)|angiogenesis (GO:0001525)|cell morphogenesis (GO:0000902)|cellular response to hypoxia (GO:0071456)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|inflammatory response (GO:0006954)|leukocyte migration involved in inflammatory response (GO:0002523)|lymphocyte chemotaxis (GO:0048247)|negative regulation of neuron apoptotic process (GO:0043524)|positive regulation of acute inflammatory response (GO:0002675)|positive regulation of bone resorption (GO:0045780)|positive regulation of cell adhesion (GO:0045785)|positive regulation of eosinophil migration (GO:2000418)|positive regulation of fibronectin-dependent thymocyte migration (GO:2000415)|positive regulation of membrane protein ectodomain proteolysis (GO:0051044)|positive regulation of neutrophil extravasation (GO:2000391)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of protein processing (GO:0010954)|positive regulation of protein secretion (GO:0050714)|positive regulation of T cell differentiation in thymus (GO:0033089)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of tumor necrosis factor (ligand) superfamily member 11 production (GO:2000309)|regulation of cell-cell adhesion (GO:0022407)|single organismal cell-cell adhesion (GO:0016337)	alpha9-beta1 integrin-ADAM8 complex (GO:0071133)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|dense core granule membrane (GO:0032127)|integral component of plasma membrane (GO:0005887)|phagolysosome (GO:0032010)|plasma membrane (GO:0005886)|podosome (GO:0002102)|specific granule (GO:0042581)|tertiary granule (GO:0070820)	calcium ion binding (GO:0005509)|cell adhesion molecule binding (GO:0050839)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|protein self-association (GO:0043621)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(4)|large_intestine(3)|lung(6)|ovary(1)|prostate(2)	17		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;7.72e-06)|OV - Ovarian serous cystadenocarcinoma(35;8.23e-06)|Epithelial(32;1.02e-05)		TGGGAAGGGTGGGCTGGACAC	0.662																																																0													99	78	85					10																	135080899		2198	4298	6496	SO:0001583	missense	101			D26579	CCDS31319.2, CCDS58102.1, CCDS58103.1	10q26.3	2014-03-20	2005-08-18		ENSG00000151651	ENSG00000151651		"ADAM metallopeptidase domain containing", "CD molecules"	215	protein-coding gene	gene with protein product		602267	"a disintegrin and metalloproteinase domain 8"			9126482	Standard	NM_001109		Approved	CD156, MS2, CD156a	uc021qbe.1	P78325	OTTHUMG00000019309	ENST00000445355.3:c.2276C>T	10.37:g.135080899G>A	ENSP00000453302:p.Pro759Leu	Somatic		WXS	Illumina HiSeq		B4DVM6|H0YL36|H0YLR0|H0YN39	Missense_Mutation	SNP	ENST00000445355.3	37	CCDS31319.2																																																																																				0.662	ADAM8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051118.4	NM_001109		A	135080899	G	A	135080899	3	1	593	1	0	0	0	0	1	0	0	0	252	1348	47	2	128	2	ADAM8	10	135080899	Missense_Mutation	SNP	G	TCGA-G7-6797-01A-11D-1961-08	62437116	135080899	453848	47	35370										
OR4C13	283092	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	49974076	49974076	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gtgttttctgtcatctacatCaacgccatgataggaaatgt	8	8	4	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr11:49974076C>A	ENST00000555099.1	+	1	134	c.102C>A	c.(100-102)atC>atA	p.I34I		NM_001001955.2	NP_001001955.2	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C, member 13	34						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			autonomic_ganglia(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(24)|ovary(2)|prostate(2)|skin(6)|upper_aerodigestive_tract(1)	43						TCATCTACATCAACGCCATGA	0.413																																																0													206	190	195					11																	49974076		2201	4296	6497	SO:0001819	synonymous_variant	283092			AB065750	CCDS31495.1	11p11.12	2012-10-03			ENSG00000258817	ENSG00000258817		"GPCR / Class A : Olfactory receptors"	15169	protein-coding gene	gene with protein product							Standard	NM_001001955		Approved		uc010rhz.2	Q8NGP0	OTTHUMG00000166686	ENST00000555099.1:c.102C>A	11.37:g.49974076C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NJJ3|B9EH30|Q6IF48|Q96R68	Silent	SNP	ENST00000555099.1	37	CCDS31495.1																																																																																				0.413	OR4C13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391103.1	NM_001001955		A	49974076	C	A	49974076	2	1	593	1	0	0	0	0	0	0	0	1	11054	816	29	4		4	OR4C13	11	49974076	Silent	SNP	C	TCGA-G7-6797-01A-11D-1961-08		49974076	85032440	48	35371										
NUMA1	4926	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	71723991	71723991	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gaaccgctgcctctcctccaGgaccttgaccttggcaccct	8	18	1	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr11:71723991G>T	ENST00000393695.3	-	15	4889	c.4558C>A	c.(4558-4560)Ctg>Atg	p.L1520M	RP11-849H4.4_ENST00000502284.1_RNA|NUMA1_ENST00000358965.6_Missense_Mutation_p.L1520M|NUMA1_ENST00000351960.6_Intron	NM_006185.2	NP_006176.2			nuclear mitotic apparatus protein 1											central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(12)|lung(20)|ovary(5)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	65						CTCTCCTCCAGGACCTTGACC	0.602			T	RARA	APL																																		Dom	yes		11	11q13	4926	nuclear mitotic apparatus protein 1		L	0													108	100	102					11																	71723991		2200	4293	6493	SO:0001583	missense	4926			Z11584	CCDS31633.1, CCDS66156.1	11q13	2008-02-05				ENSG00000137497			8059	protein-coding gene	gene with protein product		164009				8406455	Standard	NM_006185		Approved		uc001orl.1	Q14980		ENST00000393695.3:c.4558C>A	11.37:g.71723991G>T	ENSP00000377298:p.Leu1520Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000393695.3	37	CCDS31633.1	.	.	.	.	.	.	.	.	.	.	G	15.32	2.799598	0.50208	.	.	ENSG00000137497	ENST00000358965;ENST00000393695;ENST00000359652;ENST00000536544	T;T	0.15139	2.45;2.48	5.0	3.1	0.35709	.	0.000000	0.41938	D	0.000795	T	0.23688	0.0573	L	0.27053	0.805	0.27491	N	0.952288	D;D;D;D	0.89917	1.0;0.997;0.999;1.0	D;D;D;D	0.78314	0.989;0.991;0.976;0.989	T	0.01545	-1.1328	10	0.72032	D	0.01	.	6.9885	0.24741	0.157:0.1418:0.7011:0.0	.	1526;1004;1520;1520	Q4LE64;Q59HB8;Q14980-2;Q14980	.;.;.;NUMA1_HUMAN	M	1520;1520;1083;489	ENSP00000351851:L1520M;ENSP00000377298:L1520M	ENSP00000351851:L1520M	L	-	1	2	NUMA1	71401639	0.819000	0.29175	1.000000	0.80357	0.991000	0.79684	1.055000	0.30467	1.336000	0.45506	0.561000	0.74099	CTG		0.602	NUMA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395769.1			T	71723991	G	T	71723991	3	4	593	1	0	0	0	0	1	0	0	0	10757	991	35	4	1841	4	NUMA1	11	71723991	Missense_Mutation	SNP	G	TCGA-G7-6797-01A-11D-1961-08	21749915	71723991	63282525	49	35372										
HEBP1	50865	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	13140120	13140120	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gatgccttcccgttcctcaaTcttaacgcttttgtcactgg	7	13	3	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr12:13140120T>C	ENST00000014930.4	-	3	522	c.364A>G	c.(364-366)Att>Gtt	p.I122V	HEBP1_ENST00000536942.1_Missense_Mutation_p.I122V|RP11-392P7.6_ENST00000499948.2_RNA	NM_015987.4	NP_057071.2	Q9NRV9	HEBP1_HUMAN	heme binding protein 1	122					circadian rhythm (GO:0007623)	cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	heme binding (GO:0020037)			breast(1)|endometrium(1)|large_intestine(3)|lung(1)|urinary_tract(1)	7		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.153)		CGTTCCTCAATCTTAACGCTT	0.483																																																0													179	158	165					12																	13140120		2203	4300	6503	SO:0001583	missense	50865			AF117615	CCDS31749.1	12p13.2	2014-01-30			ENSG00000013583	ENSG00000013583		"Endogenous ligands"	17176	protein-coding gene	gene with protein product		605826				10640688	Standard	NM_015987		Approved	HEBP, HBP	uc001rbd.3	Q9NRV9	OTTHUMG00000168771	ENST00000014930.4:c.364A>G	12.37:g.13140120T>C	ENSP00000014930:p.Ile122Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1G2|Q9Y5Z5	Missense_Mutation	SNP	ENST00000014930.4	37	CCDS31749.1	.	.	.	.	.	.	.	.	.	.	T	11.41	1.631678	0.29068	.	.	ENSG00000013583	ENST00000014930;ENST00000535636;ENST00000536942	T;T;T	0.25579	1.79;1.79;1.79	5.66	4.45	0.53987	Regulatory factor, effector, bacterial (1);	0.047188	0.85682	D	0.000000	T	0.33527	0.0866	M	0.77313	2.365	0.47737	D	0.9995	B	0.22746	0.074	B	0.32762	0.152	T	0.12192	-1.0557	10	0.27082	T	0.32	-5.125	12.5735	0.56352	0.1242:0.0:0.0:0.8758	.	122	Q9NRV9	HEBP1_HUMAN	V	122;51;122	ENSP00000014930:I122V;ENSP00000442020:I51V;ENSP00000441678:I122V	ENSP00000014930:I122V	I	-	1	0	HEBP1	13031387	1.000000	0.71417	0.882000	0.34594	0.210000	0.24377	3.727000	0.54984	2.283000	0.76528	0.533000	0.62120	ATT		0.483	HEBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401001.1			C	13140120	T	C	13140120	3	2	593	1	0	0	0	0	1	0	0	0	7043	1435	50	3	213	3	HEBP1	12	13140120	Missense_Mutation	SNP	T	TCGA-G7-6797-01A-11D-1961-08		13140120	120711775	50	35373										
PPFIBP1	8496	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	27809595	27809595	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	actagaagaaaaggaatctgAagtaaaaaggctacaagaaa	9	4	1	4	rs369414467		TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr12:27809595A>C	ENST00000318304.8	+	10	1119	c.836A>C	c.(835-837)gAa>gCa	p.E279A	PPFIBP1_ENST00000542629.1_Missense_Mutation_p.E248A|PPFIBP1_ENST00000228425.6_Missense_Mutation_p.E248A|PPFIBP1_ENST00000537927.1_Missense_Mutation_p.E126A	NM_001198916.1|NM_177444.2	NP_001185845.1|NP_803193	Q86W92	LIPB1_HUMAN	PTPRF interacting protein, binding protein 1 (liprin beta 1)	279					cell adhesion (GO:0007155)|cell-matrix adhesion (GO:0007160)|signal transduction (GO:0007165)	focal adhesion (GO:0005925)|plasma membrane (GO:0005886)|presynaptic active zone (GO:0048786)			PPFIBP1/ALK(3)	central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(6)|lung(13)|prostate(2)|skin(1)	32	Lung SC(9;0.0873)					AAGGAATCTGAAGTAAAAAGG	0.313																																																0													73	76	75					12																	27809595		2203	4299	6502	SO:0001583	missense	8496			AF034802	CCDS8713.1, CCDS55812.1, CCDS55813.1, CCDS55814.1	12p12.1	2013-01-10						"Sterile alpha motif (SAM) domain containing"	9249	protein-coding gene	gene with protein product		603141				9624153, 11836260	Standard	NM_003622		Approved	L2, hSGT2, hSgt2p, SGT2	uc001ric.2	Q86W92		ENST00000318304.8:c.836A>C	12.37:g.27809595A>C	ENSP00000314724:p.Glu279Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O75336|Q86X70|Q9NY03|Q9ULJ0	Missense_Mutation	SNP	ENST00000318304.8	37	CCDS55812.1	.	.	.	.	.	.	.	.	.	.	A	14.99	2.699998	0.48307	.	.	ENSG00000110841	ENST00000543820;ENST00000545381;ENST00000540114;ENST00000537927;ENST00000318304;ENST00000542629;ENST00000228425	T;T;T;T;T;T	0.59083	0.29;0.62;0.71;1.19;1.2;1.61	5.05	5.05	0.67936	.	0.000000	0.35151	U	0.003420	T	0.56645	0.1999	L	0.38953	1.18	0.41614	D	0.988929	P;B;P;B	0.44776	0.828;0.044;0.843;0.073	P;B;B;B	0.49477	0.612;0.027;0.384;0.06	T	0.57940	-0.7724	10	0.42905	T	0.14	-26.9289	13.3332	0.60500	1.0:0.0:0.0:0.0	.	126;279;248;248	Q86W92-3;Q86W92;Q86W92-2;Q86W92-4	.;LIPB1_HUMAN;.;.	A	250;248;107;126;279;248;248	ENSP00000445822:E248A;ENSP00000444304:E107A;ENSP00000445425:E126A;ENSP00000314724:E279A;ENSP00000443442:E248A;ENSP00000228425:E248A	ENSP00000228425:E248A	E	+	2	0	PPFIBP1	27700862	1.000000	0.71417	0.998000	0.56505	0.979000	0.70002	6.463000	0.73530	2.022000	0.59522	0.533000	0.62120	GAA		0.313	PPFIBP1-007	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000402877.1	NM_003622		C	27809595	A	C	27809595	3	2	593	1	0	0	0	0	1	0	0	0	12320	246	9	5	811	5	PPFIBP1	12	27809595	Missense_Mutation	SNP	A	TCGA-G7-6797-01A-11D-1961-08	14669475	27809595	106042300	51	35374										
GPD1	2819	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr12	50503242	50503242	+	Nonsense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gctgtgtacaaggtgtgctaCgagggccagccagtgggtga	17	8	0	1	rs116736822	byFrequency	TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr12:50503242C>G	ENST00000301149.3	+	8	1222	c.990C>G	c.(988-990)taC>taG	p.Y330*	RP4-605O3.4_ENST00000552815.1_RNA|COX14_ENST00000317943.2_5'Flank|GPD1_ENST00000548814.1_Nonsense_Mutation_p.Y307*|COX14_ENST00000550654.1_5'Flank|COX14_ENST00000550487.1_5'Flank|COX14_ENST00000548985.1_5'Flank	NM_001257199.1|NM_005276.3	NP_001244128.1|NP_005267.2	P21695	GPDA_HUMAN	glycerol-3-phosphate dehydrogenase 1 (soluble)	330					cellular lipid metabolic process (GO:0044255)|cellular response to cAMP (GO:0071320)|cellular response to tumor necrosis factor (GO:0071356)|gluconeogenesis (GO:0006094)|glycerol-3-phosphate catabolic process (GO:0046168)|glycerophosphate shuttle (GO:0006127)|glycerophospholipid biosynthetic process (GO:0046474)|NADH oxidation (GO:0006116)|phosphatidic acid biosynthetic process (GO:0006654)|phospholipid metabolic process (GO:0006644)|positive regulation of glycolytic process (GO:0045821)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|glycerol-3-phosphate dehydrogenase complex (GO:0009331)|mitochondrion (GO:0005739)	glycerol-3-phosphate dehydrogenase [NAD+] activity (GO:0004367)|glycerol-3-phosphate dehydrogenase activity (GO:0004368)|NAD binding (GO:0051287)			breast(1)|endometrium(1)|large_intestine(1)|lung(3)|prostate(1)|upper_aerodigestive_tract(1)	8						AGGTGTGCTACGAGGGCCAGC	0.577																																					NSCLC(141;1402 1905 9497 13391 44868)											0													139	108	118					12																	50503242		2203	4300	6503	SO:0001587	stop_gained	2819				CCDS8799.1, CCDS58229.1	12q13.12	2013-09-20			ENSG00000167588	ENSG00000167588	1.1.1.8		4455	protein-coding gene	gene with protein product		138420					Standard	NM_005276		Approved		uc001rvz.4	P21695	OTTHUMG00000169813	ENST00000301149.3:c.990C>G	12.37:g.50503242C>G	ENSP00000301149:p.Tyr330*	Somatic		WXS	Illumina HiSeq	Phase_I	F8W1L5|Q8N1B0	Nonsense_Mutation	SNP	ENST00000301149.3	37	CCDS8799.1	.	.	.	.	.	.	.	.	.	.	C	27.1	4.796601	0.90453	.	.	ENSG00000167588	ENST00000301149;ENST00000548814	.	.	.	4.99	-5.7	0.02421	.	0.125588	0.53938	D	0.000044	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-10.4578	14.9665	0.71198	0.0:0.6296:0.0:0.3704	.	.	.	.	X	330;307	.	ENSP00000301149:Y330X	Y	+	3	2	GPD1	48789509	0.008000	0.16893	0.884000	0.34674	0.899000	0.52679	-0.879000	0.04188	-1.358000	0.02177	-0.379000	0.06801	TAC		0.577	GPD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406018.1			G	50503242	C	G	50503242	4	3	593	1	0	0	0	0	0	1	0	0	6611	547	19	4	1020	4	GPD1	12	50503242	Nonsense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08	22693647	50503242	83348653	52	35375										
KRT76	51350	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	53170736	53170736	+	Frame_Shift_Del	DEL	T	T	-													0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	accagcccctccaaaaccacTacctactcctctgccaccac							TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr12:53170736delT	ENST00000332411.2	-	1	393	c.340delA	c.(340-342)agtfs	p.S114fs		NM_015848.4	NP_056932.2	Q01546	K22O_HUMAN	keratin 76	114	Head.				cytoskeleton organization (GO:0007010)	extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)|keratin filament (GO:0045095)|nucleus (GO:0005634)	structural molecule activity (GO:0005198)			breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(10)|prostate(1)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	27						ccaaaaccactacctactcct	0.607																																																0													268	276	273					12																	53170736		2203	4299	6502	SO:0001589	frameshift_variant	51350			M99063	CCDS8838.1	12q13.13	2013-06-25			ENSG00000185069	ENSG00000185069		"-", "Intermediate filaments type II, keratins (basic)"	24430	protein-coding gene	gene with protein product						1282112, 16831889	Standard	NM_015848		Approved	HUMCYT2A, KRT2B, KRT2P	uc001sax.3	Q01546	OTTHUMG00000169797	ENST00000332411.2:c.340delA	12.37:g.53170736delT	ENSP00000330101:p.Ser114fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRR3|Q7Z795	Frame_Shift_Del	DEL	ENST00000332411.2	37	CCDS8838.1																																																																																				0.607	KRT76-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405928.1	NM_015848		-	53170736	T	-	53170736	7	5	593	1	0	1	0	1	0	0	0	0	8496	1522	53	0	1612	0	KRT76	12	53170736	Frame_Shift_Del	DEL	T	TCGA-G7-6797-01A-11D-1961-08	2667494	53170736	80681159	53	35376										
LRIG3	121227	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	59271290	59271290	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	aaccacggctatgatcacgaCacccacagtggcccatccgt	8	16	1	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr12:59271290C>A	ENST00000320743.3	-	15	2714	c.2428G>T	c.(2428-2430)Gtc>Ttc	p.V810F	LRIG3_ENST00000379141.4_Missense_Mutation_p.V750F	NM_153377.4	NP_700356.2	Q6UXM1	LRIG3_HUMAN	leucine-rich repeats and immunoglobulin-like domains 3	810					otolith morphogenesis (GO:0032474)	cytoplasmic vesicle (GO:0031410)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)			LRIG3/ROS1(2)	breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(12)|liver(1)|lung(14)|ovary(1)|prostate(3)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	48			GBM - Glioblastoma multiforme(1;1.17e-18)			ATGATCACGACACCCACAGTG	0.562			T	ROS1	NSCLC																																		Dom	yes		12	12q14.1	121227	leucine-rich repeats and immunoglobulin-like domains 3		E	0													212	121	152					12																	59271290		2203	4300	6503	SO:0001583	missense	121227			AY505340	CCDS8960.1, CCDS44933.1	12q13.2	2013-01-11				ENSG00000139263		"Immunoglobulin superfamily / I-set domain containing"	30991	protein-coding gene	gene with protein product		608870					Standard	NM_153377		Approved	FLJ90440, KIAA3016	uc001sqr.4	Q6UXM1	OTTHUMG00000169940	ENST00000320743.3:c.2428G>T	12.37:g.59271290C>A	ENSP00000326759:p.Val810Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXL7|Q8NC72	Missense_Mutation	SNP	ENST00000320743.3	37	CCDS8960.1	.	.	.	.	.	.	.	.	.	.	C	14.91	2.675366	0.47781	.	.	ENSG00000139263	ENST00000379141;ENST00000320743	T;T	0.61040	0.18;0.14	5.59	3.74	0.42951	.	0.494270	0.15041	N	0.283853	T	0.47414	0.1444	L	0.47716	1.5	0.39938	D	0.974378	P;P	0.39665	0.682;0.624	B;B	0.37508	0.252;0.154	T	0.36212	-0.9757	9	.	.	.	.	8.2502	0.31712	0.0:0.6658:0.0:0.3342	.	750;810	Q6UXM1-2;Q6UXM1	.;LRIG3_HUMAN	F	750;810	ENSP00000368436:V750F;ENSP00000326759:V810F	.	V	-	1	0	LRIG3	57557557	1.000000	0.71417	0.987000	0.45799	0.819000	0.46315	2.549000	0.45803	0.796000	0.33947	0.655000	0.94253	GTC		0.562	LRIG3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406623.1	NM_153377		A	59271290	C	A	59271290	3	1	593	1	0	0	0	0	1	0	0	0	8953	478	17	4	951	4	LRIG3	12	59271290	Missense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08	6100554	59271290	74580605	54	35377										
ANKRD13A	88455	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	110457067	110457067	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gaagccaaaaagcagggaagTtgagcggcggctcacaagcc	14	10	1	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr12:110457067T>C	ENST00000261739.4	+	6	834	c.668T>C	c.(667-669)gTt>gCt	p.V223A	ANKRD13A_ENST00000550404.1_3'UTR	NM_033121.1	NP_149112.1	Q8IZ07	AN13A_HUMAN	ankyrin repeat domain 13A	223						endosome (GO:0005768)|plasma membrane (GO:0005886)				endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(8)|lung(3)|urinary_tract(1)	16						AGCAGGGAAGTTGAGCGGCGG	0.438																																																0													76	76	76					12																	110457067		2203	4300	6503	SO:0001583	missense	88455			AF064604	CCDS9140.1	12q24.12	2013-01-10	2006-06-30	2006-06-30		ENSG00000076513		"Ankyrin repeat domain containing"	21268	protein-coding gene	gene with protein product		615123	"ankyrin repeat domain 13"	ANKRD13		10508479	Standard	NM_033121		Approved	NY-REN-25	uc001tpx.3	Q8IZ07	OTTHUMG00000169314	ENST00000261739.4:c.668T>C	12.37:g.110457067T>C	ENSP00000261739:p.Val223Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O60736	Missense_Mutation	SNP	ENST00000261739.4	37	CCDS9140.1	.	.	.	.	.	.	.	.	.	.	T	18.08	3.543716	0.65198	.	.	ENSG00000076513	ENST00000261738;ENST00000261739	T	0.65364	-0.15	5.83	5.83	0.93111	.	0.052948	0.85682	D	0.000000	T	0.73567	0.3603	M	0.72894	2.215	0.80722	D	1	D;D;D	0.56746	0.977;0.977;0.977	P;P;P	0.55011	0.766;0.766;0.766	T	0.77107	-0.2710	10	0.72032	D	0.01	-13.8298	15.3732	0.74584	0.0:0.0:0.0:1.0	.	223;223;223	B4DYP5;Q3ZTS7;Q8IZ07	.;.;AN13A_HUMAN	A	8;223	ENSP00000261739:V223A	ENSP00000261738:V8A	V	+	2	0	ANKRD13A	108941450	1.000000	0.71417	0.945000	0.38365	0.982000	0.71751	6.241000	0.72369	2.229000	0.72834	0.482000	0.46254	GTT		0.438	ANKRD13A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403430.1	NM_033121		C	110457067	T	C	110457067	3	2	593	1	0	0	0	0	1	0	0	0	641	1725	60	3	690	3	ANKRD13A	12	110457067	Missense_Mutation	SNP	T	TCGA-G7-6797-01A-11D-1961-08	51185777	110457067	23394828	55	35378										
N4BP2L2	10443	broad.mit.edu	37	chr13	33095588	33095588	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	tgtatccttttcctatggccTacacaaaggaaaggaagaaa	8	8	0	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr13:33095588T>C	ENST00000267068.3	-	5	1638		c.e5-2		N4BP2L2_ENST00000446957.2_Splice_Site|N4BP2L2_ENST00000357505.6_Splice_Site|N4BP2L2_ENST00000504114.1_Splice_Site|N4BP2L2_ENST00000399396.3_Splice_Site	NM_014887.2	NP_055702.1	Q92802	N42L2_HUMAN	NEDD4 binding protein 2-like 2						negative regulation of hematopoietic stem cell differentiation (GO:1902037)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of hematopoietic stem cell proliferation (GO:1902035)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|transcriptional repressor complex (GO:0017053)	enzyme binding (GO:0019899)|RNA polymerase II transcription corepressor activity (GO:0001106)			kidney(4)|large_intestine(3)|liver(1)|lung(6)|skin(1)|urinary_tract(1)	16		Lung SC(185;0.0262)		all cancers(112;9.5e-07)|Epithelial(112;5.07e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00196)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.243)		TCCTATGGCCTACACAAAGGA	0.338																																																0													63	63	63					13																	33095588		2203	4299	6502	SO:0001630	splice_region_variant	10443			U50532	CCDS9346.1, CCDS45024.1, CCDS61307.1	13q13.1	2010-12-02			ENSG00000244754	ENSG00000244754			26916	protein-coding gene	gene with protein product	"phosphonoformate immuno-associated protein 5"	615788				8812419	Standard	NM_014887		Approved	CG005, PFAAP5	uc010abe.1	Q92802	OTTHUMG00000016700	ENST00000267068.3:c.1474-2A>G	13.37:g.33095588T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A3KME8	Splice_Site	SNP	ENST00000267068.3	37	CCDS9346.1	.	.	.	.	.	.	.	.	.	.	T	19.63	3.863912	0.71949	.	.	ENSG00000244754	ENST00000504114;ENST00000357505;ENST00000399396;ENST00000446957;ENST00000505213;ENST00000267068	.	.	.	5.72	5.72	0.89469	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.2988	0.82793	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	N4BP2L2	31993588	1.000000	0.71417	0.998000	0.56505	0.997000	0.91878	4.773000	0.62331	2.311000	0.77944	0.533000	0.62120	.		0.338	N4BP2L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044421.1	NM_014887	Intron	C	33095588	T	C	33095588	5	2	593	1	0	0	0	0	0	0	1	0	10119	1536	53	3	2148	3	N4BP2L2	13	33095588	Splice_Site	SNP	T	TCGA-G7-6797-01A-11D-1961-08		33095588	82074290	56	35379										
FREM2	341640	broad.mit.edu	37	chr13	39422803	39422803	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	tccataaatgactctgtctcCgattgtgagtgtttattaat	7	7	2	2	rs372745449		TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr13:39422803C>G	ENST00000280481.7	+	8	6591	c.6375C>G	c.(6373-6375)tcC>tcG	p.S2125S	FREM2_ENST00000482551.1_3'UTR	NM_207361.4	NP_997244.3	Q5SZK8	FREM2_HUMAN	FRAS1 related extracellular matrix protein 2	2125	Calx-beta 4.				cell communication (GO:0007154)|homophilic cell adhesion (GO:0007156)|inner ear development (GO:0048839)|morphogenesis of an epithelium (GO:0002009)	basement membrane (GO:0005604)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(35)|lung(39)|ovary(9)|pancreas(2)|prostate(12)|skin(11)|upper_aerodigestive_tract(7)|urinary_tract(2)	148		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		ACTCTGTCTCCGATTGTGAGT	0.358																																																0													53	51	52					13																	39422803		2203	4300	6503	SO:0001819	synonymous_variant	341640			BX538150	CCDS31960.1	13q13.3	2004-12-15			ENSG00000150893	ENSG00000150893			25396	protein-coding gene	gene with protein product		608945				15345741	Standard	NM_207361		Approved	DKFZp686J0811	uc001uwv.3	Q5SZK8	OTTHUMG00000016759	ENST00000280481.7:c.6375C>G	13.37:g.39422803C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q4QQG1|Q5H9N8|Q5T6Q1|Q6N057|Q6ZSB4|Q7Z305|Q7Z341	Silent	SNP	ENST00000280481.7	37	CCDS31960.1																																																																																				0.358	FREM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044599.2	NM_207361		G	39422803	C	G	39422803	2	3	593	1	0	0	0	0	0	0	0	1	6052	639	23	4		4	FREM2	13	39422803	Silent	SNP	C	TCGA-G7-6797-01A-11D-1961-08	6327215	39422803	75747075	57	35380										
SIX4	51804	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	61190290	61190290	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	cgaagctgtggctctcgaggAtgctgtagagctcggggtag	17	8	1	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr14:61190290A>C	ENST00000216513.4	-	1	562	c.503T>G	c.(502-504)aTc>aGc	p.I168S		NM_017420.4	NP_059116.3	Q9UIU6	SIX4_HUMAN	SIX homeobox 4	168					anatomical structure morphogenesis (GO:0009653)|embryonic cranial skeleton morphogenesis (GO:0048701)|generation of neurons (GO:0048699)|inner ear morphogenesis (GO:0042472)|metanephric mesenchyme development (GO:0072075)|myoblast migration (GO:0051451)|negative regulation of neuron apoptotic process (GO:0043524)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of ureteric bud formation (GO:0072107)|regulation of branch elongation involved in ureteric bud branching (GO:0072095)|regulation of protein localization (GO:0032880)|regulation of synaptic growth at neuromuscular junction (GO:0008582)|skeletal muscle tissue development (GO:0007519)|thymus development (GO:0048538)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(5)|endometrium(1)|large_intestine(11)|liver(1)|lung(7)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	28				OV - Ovarian serous cystadenocarcinoma(108;0.0275)		GCTCTCGAGGATGCTGTAGAG	0.692																																																0													13	14	14					14																	61190290		2190	4286	6476	SO:0001583	missense	51804			AB024687	CCDS9749.2	14q23.1	2012-10-02	2007-07-13		ENSG00000100625	ENSG00000100625		"Homeoboxes / SINE class"	10890	protein-coding gene	gene with protein product		606342	"sine oculis homeobox (Drosophila) homolog 4", "sine oculis homeobox homolog 4 (Drosophila)"			10512683, 10640827	Standard	NM_017420		Approved	AREC3	uc001xfc.3	Q9UIU6	OTTHUMG00000028996	ENST00000216513.4:c.503T>G	14.37:g.61190290A>C	ENSP00000216513:p.Ile168Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q4QQH5|Q4V764	Missense_Mutation	SNP	ENST00000216513.4	37	CCDS9749.2	.	.	.	.	.	.	.	.	.	.	A	19.26	3.793861	0.70452	.	.	ENSG00000100625	ENST00000216513;ENST00000556952	D	0.94046	-3.34	3.63	3.63	0.41609	.	0.265948	0.36591	N	0.002504	D	0.93086	0.7799	M	0.70842	2.15	0.58432	D	0.999997	P;D	0.53312	0.84;0.959	P;P	0.47346	0.537;0.544	D	0.93446	0.6798	10	0.87932	D	0	.	12.4167	0.55498	1.0:0.0:0.0:0.0	.	160;168	G3V2N2;Q9UIU6	.;SIX4_HUMAN	S	168;160	ENSP00000216513:I168S	ENSP00000216513:I168S	I	-	2	0	SIX4	60260043	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	8.828000	0.92047	1.508000	0.48769	0.528000	0.53228	ATC		0.692	SIX4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000072397.2			C	61190290	A	C	61190290	3	2	593	1	0	0	0	0	1	0	0	0	14362	333	12	5	1854	5	SIX4	14	61190290	Missense_Mutation	SNP	A	TCGA-G7-6797-01A-11D-1961-08		61190290	46159250	58	35381										
GABRG3	2567	hgsc.bcm.edu	37	chr15	27777872	27777876	+	Frame_Shift_Del	DEL	TTCTT	TTCTT	-													0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	atggcaaagactgtcagagcTtcttctgctgctatgaagaa							TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	TTCTT	TTCTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr15:27777872_27777876delTTCTT	ENST00000333743.6	+	10	1503_1507	c.1249_1253delTTCTT	c.(1249-1254)ttcttcfs	p.FF417fs	RP11-100M12.3_ENST00000556642.1_RNA	NM_033223.4	NP_150092.2	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma 3	417					gamma-aminobutyric acid signaling pathway (GO:0007214)|ion transmembrane transport (GO:0034220)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	chloride channel activity (GO:0005254)|extracellular ligand-gated ion channel activity (GO:0005230)|GABA-A receptor activity (GO:0004890)			breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(23)|skin(1)|upper_aerodigestive_tract(4)	42		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)	Acamprosate(DB00659)|Adinazolam(DB00546)|Alprazolam(DB00404)|Amoxapine(DB00543)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Chlordiazepoxide(DB00475)|Cinolazepam(DB01594)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Clotiazepam(DB01559)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Fludiazepam(DB01567)|Flumazenil(DB01205)|Flurazepam(DB00690)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Topiramate(DB00273)|Triazolam(DB00897)	CTGTCAGAGCTTCTTCTGCTGCTAT	0.463																																					NSCLC(114;800 1656 7410 37729 45293)											0																																										SO:0001589	frameshift_variant	2567				CCDS45195.1, CCDS59251.1	15q12	2012-06-22			ENSG00000182256	ENSG00000182256		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4088	protein-coding gene	gene with protein product	"GABA(G) receptor, gamma 3"	600233				7601451	Standard	NM_033223		Approved		uc001zbg.2	Q99928	OTTHUMG00000044462	ENST00000333743.6:c.1249_1253delTTCTT	15.37:g.27777872_27777876delTTCTT	ENSP00000331912:p.Phe417fs	Somatic		WXS	Illumina HiSeq	Phase_I	G3V594|Q9HD46|Q9NYT2	Frame_Shift_Del	DEL	ENST00000333743.6	37	CCDS45195.1																																																																																				0.463	GABRG3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000103584.2			-	27777876	TTCTT	-	27777872	7	5	593	1	0	1	0	1	0	0	0	0	6180	1609	56	0	1287	0	GABRG3	15	27777872	Frame_Shift_Del	DEL	TTCTT	TCGA-G7-6797-01A-11D-1961-08		27777872	74753520	59	35382										
C15orf53	400359	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	38988925	38988925	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	agcagcatctgtctccaggcGtctgtttggatggctgtaag	13	9	3	0	rs146995135	byFrequency	TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr15:38988925G>C	ENST00000318792.1	+	1	127	c.117G>C	c.(115-117)gcG>gcC	p.A39A		NM_207444.2	NP_997327.1	Q8NAA6	CO053_HUMAN	chromosome 15 open reading frame 53	39			A -> V (in dbSNP:rs11857596).							endometrium(1)|large_intestine(1)|lung(2)|skin(1)|stomach(1)	6		all_cancers(109;1.75e-13)|all_epithelial(112;1.02e-11)|Lung NSC(122;1.9e-09)|all_lung(180;4.04e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)		GBM - Glioblastoma multiforme(113;8.39e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0321)		GTCTCCAGGCGTCTGTTTGGA	0.542																																																0													96	95	95					15																	38988925		2200	4297	6497	SO:0001819	synonymous_variant	400359				CCDS10048.1	15q14	2007-11-21			ENSG00000175779	ENSG00000175779			33796	protein-coding gene	gene with protein product							Standard	NM_207444		Approved	FLJ35695	uc001zkf.1	Q8NAA6	OTTHUMG00000129841	ENST00000318792.1:c.117G>C	15.37:g.38988925G>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000318792.1	37	CCDS10048.1																																																																																				0.542	C15orf53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252081.1	NM_207444		C	38988925	G	C	38988925	2	2	593	1	0	0	0	0	0	0	0	1	1803	1132	40	4		4	C15orf53	15	38988925	Silent	SNP	G	TCGA-G7-6797-01A-11D-1961-08	11211053	38988925	63542467	60	35383										
DTWD1	56986	broad.mit.edu	37	chr15	49926740	49926740	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	ttctttgttttaggttgcacTcatttttcctggacctcagt	7	9	3	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr15:49926740T>G	ENST00000251250.6	+	5	623	c.416T>G	c.(415-417)cTc>cGc	p.L139R	DTWD1_ENST00000558653.1_Missense_Mutation_p.L139R|DTWD1_ENST00000403028.3_Missense_Mutation_p.L139R|DTWD1_ENST00000415425.1_Missense_Mutation_p.L52R|DTWD1_ENST00000559223.1_3'UTR	NM_020234.5	NP_064619.2	Q8N5C7	DTWD1_HUMAN	DTW domain containing 1	139										endometrium(1)|large_intestine(4)|lung(2)|ovary(1)|upper_aerodigestive_tract(1)	9		all_lung(180;0.0384)		all cancers(107;3.27e-08)|GBM - Glioblastoma multiforme(94;7.6e-05)		TAGGTTGCACTCATTTTTCCT	0.299																																																0													42	46	45					15																	49926740		2195	4292	6487	SO:0001583	missense	56986			BC032535	CCDS10132.1	15q21.2	2005-08-09			ENSG00000104047	ENSG00000104047			30926	protein-coding gene	gene with protein product							Standard	NM_020234		Approved	MDS009, MGC111207	uc001zxs.3	Q8N5C7	OTTHUMG00000131567	ENST00000251250.6:c.416T>G	15.37:g.49926740T>G	ENSP00000251250:p.Leu139Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q567Q3|Q8WVG9|Q9NRU6	Missense_Mutation	SNP	ENST00000251250.6	37	CCDS10132.1	.	.	.	.	.	.	.	.	.	.	T	12.49	1.952871	0.34471	.	.	ENSG00000104047	ENST00000403028;ENST00000251250;ENST00000415425	T;T	0.32988	1.43;1.43	4.95	3.83	0.44106	DTW (1);	0.183686	0.47852	D	0.000204	T	0.58566	0.2131	M	0.88775	2.98	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.77004	0.967;0.989	T	0.63341	-0.6659	9	.	.	.	-17.3922	10.7355	0.46122	0.0:0.0756:0.0:0.9244	.	52;139	Q8N5C7-2;Q8N5C7	.;DTWD1_HUMAN	R	139;139;52	ENSP00000385399:L139R;ENSP00000251250:L139R	.	L	+	2	0	DTWD1	47714032	1.000000	0.71417	0.636000	0.29352	0.001000	0.01503	6.843000	0.75384	0.843000	0.35070	-0.256000	0.11100	CTC		0.299	DTWD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254431.2	NM_020234		G	49926740	T	G	49926740	3	3	593	1	0	0	0	0	1	0	0	0	4793	1551	54	5	426	5	DTWD1	15	49926740	Missense_Mutation	SNP	T	TCGA-G7-6797-01A-11D-1961-08	10937815	49926740	52604652	61	35384										
IREB2	3658	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	78765688	78765689	+	Missense_Mutation	DNP	GT	GT	AC													0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	ctgggtcatcaaacccttttGttacatccatagatgttgtt					rs371991607		TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr15:78765688_78765689GT>AC	ENST00000258886.8	+	8	1137_1138	c.988_989GT>AC	c.(988-990)GTt>ACt	p.V330T	IREB2_ENST00000560440.1_Missense_Mutation_p.V330T	NM_004136.2	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	330					aging (GO:0007568)|cellular iron ion homeostasis (GO:0006879)|cellular response to hypoxia (GO:0071456)|erythrocyte homeostasis (GO:0034101)|intestinal absorption (GO:0050892)|iron ion transport (GO:0006826)|osteoclast differentiation (GO:0030316)|post-embryonic development (GO:0009791)|protoporphyrinogen IX biosynthetic process (GO:0006782)|response to iron(II) ion (GO:0010040)|response to retinoic acid (GO:0032526)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|mitochondrion (GO:0005739)	4 iron, 4 sulfur cluster binding (GO:0051539)|iron-responsive element binding (GO:0030350)|metal ion binding (GO:0046872)|RNA binding (GO:0003723)|translation repressor activity (GO:0030371)			central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(8)|liver(1)|lung(14)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	41				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		AAACCCTTTTGTTACATCCATA	0.371																																					NSCLC(200;764 2208 35157 49871 50830)											0																																										SO:0001583	missense	3658			M58511	CCDS10302.1	15q25.1	2013-09-20			ENSG00000136381	ENSG00000136381			6115	protein-coding gene	gene with protein product		147582				2172968	Standard	NM_004136		Approved	IRP2	uc002bdr.2	P48200	OTTHUMG00000143861	Exception_encountered	15.37:g.78765688_78765689delinsAC	ENSP00000258886:p.Val330Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAC7|E1CJT9|H0YKU0|Q13095|Q1HE21|Q59FQ7|Q8WVK6|Q9UF17	Missense_Mutation	DNP	ENST00000258886.8	37	CCDS10302.1																																																																																				0.371	IREB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000290109.3	NM_004136		AC	78765689	GT	AC	78765688	3	1	593	1	0	0	0	0	1	0	0	0	7833	1377	48	2	1018	2	IREB2	15	78765688	Missense_Mutation	DNP	GT	TCGA-G7-6797-01A-11D-1961-08	28838948	78765688	23765704	62	35385										
C16orf59	80178	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	2511752	2511752	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	cgggcttctccgacaggcacCtgctgcggctgcctgcggca	14	16	1	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr16:2511752C>T	ENST00000361837.4	+	5	675	c.610C>T	c.(610-612)Ctg>Ttg	p.L204L	C16orf59_ENST00000569496.1_Silent_p.L204L|C16orf59_ENST00000483320.1_Silent_p.L37L|C16orf59_ENST00000563531.1_Silent_p.L204L|RP11-715J22.4_ENST00000566085.1_lincRNA	NM_025108.2	NP_079384.2	Q7L2K0	CP059_HUMAN	chromosome 16 open reading frame 59	204										lung(1)|skin(1)|urinary_tract(1)	3		Ovarian(90;0.17)				CGACAGGCACCTGCTGCGGCT	0.607																																																0													50	56	54					16																	2511752		2001	4172	6173	SO:0001819	synonymous_variant	80178			AK023971	CCDS10468.2	16p13.3	2008-10-30			ENSG00000162062	ENSG00000162062			25849	protein-coding gene	gene with protein product						12477932	Standard	XM_006720955		Approved	FLJ13909	uc002cqh.3	Q7L2K0	OTTHUMG00000128859	ENST00000361837.4:c.610C>T	16.37:g.2511752C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DXD7|Q96H61|Q9H872	Silent	SNP	ENST00000361837.4	37	CCDS10468.2																																																																																				0.607	C16orf59-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250802.3	NM_025108		T	2511752	C	T	2511752	2	4	593	1	0	0	0	0	0	0	0	1	1825	680	24	2		2	C16orf59	16	2511752	Silent	SNP	C	TCGA-G7-6797-01A-11D-1961-08		2511752	87843001	63	35386										
CES3	23491	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	67000741	67000741	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	ttcctcatgggtgtcaacaaCcatgagttcagctggctcat	9	11	4	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr16:67000741C>A	ENST00000303334.4	+	8	1106	c.1035C>A	c.(1033-1035)aaC>aaA	p.N345K	CES3_ENST00000394037.1_Missense_Mutation_p.N345K|CES3_ENST00000543856.1_5'Flank	NM_024922.5	NP_079198.2	Q6UWW8	EST3_HUMAN	carboxylesterase 3	345						endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)	carboxylic ester hydrolase activity (GO:0052689)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(4)|lung(6)|ovary(3)|skin(1)	24		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0488)|Epithelial(162;0.127)		GTGTCAACAACCATGAGTTCA	0.582																																																0													134	131	132					16																	67000741		2200	4300	6500	SO:0001583	missense	23491			AK025389	CCDS10826.1, CCDS54022.1, CCDS54023.1	16q22.1	2014-05-13	2008-07-25		ENSG00000172828	ENSG00000172828		"Carboxylesterases"	1865	protein-coding gene	gene with protein product	"esterase 31", "brain carboxylesterase BR3"	605279	"carboxylesterase 3 (brain)"			10518925, 14581373, 15100172, 20931200	Standard	NM_001185176		Approved	FLJ21736, ES31	uc002eqt.3	Q6UWW8	OTTHUMG00000137525	ENST00000303334.4:c.1035C>A	16.37:g.67000741C>A	ENSP00000304782:p.Asn345Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2Z3W9|F5H242|Q7Z6J1|Q9H6X7	Missense_Mutation	SNP	ENST00000303334.4	37	CCDS10826.1	.	.	.	.	.	.	.	.	.	.	C	12.62	1.991536	0.35131	.	.	ENSG00000172828	ENST00000303334;ENST00000394037	T;T	0.65549	-0.16;-0.16	3.97	-2.89	0.05665	Carboxylesterase, type B (1);	0.000000	0.43579	D	0.000560	T	0.40862	0.1134	N	0.20610	0.595	0.80722	D	1	P	0.37207	0.587	B	0.41174	0.349	T	0.33650	-0.9860	10	0.08179	T	0.78	.	11.2659	0.49110	0.0:0.6915:0.0:0.3085	.	345	Q6UWW8	EST3_HUMAN	K	345	ENSP00000304782:N345K;ENSP00000377602:N345K	ENSP00000304782:N345K	N	+	3	2	CES3	65558242	0.304000	0.24472	0.647000	0.29507	0.123000	0.20343	-0.234000	0.09028	-0.385000	0.07833	-0.809000	0.03173	AAC		0.582	CES3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000268848.1	NM_024922		A	67000741	C	A	67000741	3	1	593	1	0	0	0	0	1	0	0	0	3273	506	18	4	1065	4	CES3	16	67000741	Missense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08	64488989	67000741	23354012	64	35387										
FAM65A	79567	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	67576026	67576026	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	tgggcatgcaccctacagtcGgactctgagccacatcagtg	11	13	2	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr16:67576026G>A	ENST00000379312.3	+	13	1470	c.1349G>A	c.(1348-1350)cGg>cAg	p.R450Q	CTD-2012K14.3_ENST00000563083.1_RNA|FAM65A_ENST00000428437.2_Missense_Mutation_p.R460Q|CTD-2012K14.2_ENST00000567122.1_RNA|FAM65A_ENST00000540839.3_Missense_Mutation_p.R466Q|CTD-2012K14.4_ENST00000564717.1_RNA|FAM65A_ENST00000422602.2_Missense_Mutation_p.R466Q|FAM65A_ENST00000042381.4_Missense_Mutation_p.R446Q	NM_001193522.1|NM_024519.3	NP_001180451.1|NP_078795.2	Q6ZS17	FA65A_HUMAN	family with sequence similarity 65, member A	450						cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)				central_nervous_system(2)|endometrium(3)|kidney(2)|large_intestine(12)|lung(12)|ovary(2)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	39		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		CCCTACAGTCGGACTCTGAGC	0.632																																																0													75	71	72					16																	67576026		2198	4300	6498	SO:0001583	missense	79567			AK127792	CCDS10840.1, CCDS54026.1, CCDS54027.1, CCDS54028.1	16q22.1	2008-02-05			ENSG00000039523	ENSG00000039523			25836	protein-coding gene	gene with protein product						11572484	Standard	NM_001193522		Approved	FLJ13725	uc010vjp.2	Q6ZS17	OTTHUMG00000137536	ENST00000379312.3:c.1349G>A	16.37:g.67576026G>A	ENSP00000368614:p.Arg450Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DEQ9|B4DIM2|E9PBS3|Q4G0A4|Q7Z5R7|Q8NDA4|Q96J39|Q96PV8|Q9H8D9	Missense_Mutation	SNP	ENST00000379312.3	37	CCDS54028.1	.	.	.	.	.	.	.	.	.	.	G	24.3	4.517558	0.85495	.	.	ENSG00000039523	ENST00000379312;ENST00000042381;ENST00000422602;ENST00000540839	T;T;T	0.32753	1.44;1.44;1.44	4.62	4.62	0.57501	.	0.467258	0.23181	N	0.051009	T	0.50137	0.1598	L	0.57536	1.79	0.54753	D	0.999984	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.87578	0.998;0.998;0.998;0.998	T	0.39187	-0.9626	10	0.14252	T	0.57	-16.318	17.523	0.87792	0.0:0.0:1.0:0.0	.	460;466;450;466	B4DIM2;E9PBS3;Q6ZS17;B4DEQ9	.;.;FA65A_HUMAN;.	Q	450;446;466;460	ENSP00000368614:R450Q;ENSP00000042381:R446Q;ENSP00000400099:R466Q	ENSP00000042381:R446Q	R	+	2	0	FAM65A	66133527	1.000000	0.71417	1.000000	0.80357	0.830000	0.47004	7.569000	0.82380	2.149000	0.67028	0.442000	0.29010	CGG		0.632	FAM65A-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000268866.3	NM_024519		A	67576026	G	A	67576026	3	1	593	1	0	0	0	0	1	0	0	0	5606	1116	39	1	1383	1	FAM65A	16	67576026	Missense_Mutation	SNP	G	TCGA-G7-6797-01A-11D-1961-08	575285	67576026	22778727	65	35388										
CHMP1A	5119	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	89717999	89717999	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	tcttcactttggcctgctccGccttggagtccttctccgcc	8	17	3	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr16:89717999G>C	ENST00000397901.3	-	3	339	c.83C>G	c.(82-84)gCg>gGg	p.A28G	CHMP1A_ENST00000550102.1_Missense_Mutation_p.A28G|CHMP1A_ENST00000547614.1_5'UTR|CHMP1A_ENST00000253475.5_Silent_p.G21G|CHMP1A_ENST00000535997.2_5'UTR	NM_002768.3	NP_002759.2	Q9HD42	CHM1A_HUMAN	charged multivesicular body protein 1A	28					cytokinesis (GO:0000910)|gene silencing (GO:0016458)|mitotic chromosome condensation (GO:0007076)|negative regulation of transcription by glucose (GO:0045014)|negative regulation of transcription, DNA-templated (GO:0045892)|protein transport (GO:0015031)|proteolysis (GO:0006508)|transcription, DNA-templated (GO:0006351)|vesicle-mediated transport (GO:0016192)	condensed nuclear chromosome (GO:0000794)|early endosome (GO:0005769)|endomembrane system (GO:0012505)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)|nuclear matrix (GO:0016363)	metallopeptidase activity (GO:0008237)|protein domain specific binding (GO:0019904)|protein homodimerization activity (GO:0042803)|zinc ion binding (GO:0008270)			endometrium(1)|large_intestine(1)|ovary(1)	3		all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.048)		GGCCTGCTCCGCCTTGGAGTC	0.572																																																0													76	85	82					16																	89717999		2034	4180	6214	SO:0001583	missense	5119			U58048	CCDS45552.1	16q24.3	2011-09-21	2011-09-21	2007-03-20	ENSG00000131165	ENSG00000131165		"Charged multivesicular body proteins"	8740	protein-coding gene	gene with protein product		164010	"procollagen (type III) N-endopeptidase", "chromatin modifying protein 1A"	PRSM1, PCOLN3		11559748, 11559747	Standard	NM_002768		Approved	KIAA0047, CHMP1, Vps46A	uc002fnu.4	Q9HD42	OTTHUMG00000169521	ENST00000397901.3:c.83C>G	16.37:g.89717999G>C	ENSP00000380998:p.Ala28Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU09|Q14468|Q15779|Q96G31	Missense_Mutation	SNP	ENST00000397901.3	37	CCDS45552.1	.	.	.	.	.	.	.	.	.	.	G	14.21	2.467907	0.43839	.	.	ENSG00000131165	ENST00000397901;ENST00000550102	T;T	0.72505	-0.66;-0.66	4.81	2.69	0.31865	.	.	.	.	.	T	0.55768	0.1941	.	.	.	0.80722	D	1	B	0.15141	0.012	B	0.23419	0.046	T	0.46233	-0.9206	7	.	.	.	-3.1301	9.7579	0.40515	0.0779:0.141:0.7812:0.0	.	28	Q9HD42	CHM1A_HUMAN	G	28	ENSP00000380998:A28G;ENSP00000449243:A28G	.	A	-	2	0	CHMP1A	88245500	1.000000	0.71417	0.633000	0.29310	0.764000	0.43329	5.816000	0.69222	1.132000	0.42129	0.655000	0.94253	GCG		0.572	CHMP1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404581.1	NM_002768		C	89717999	G	C	89717999	3	2	593	1	0	0	0	0	1	0	0	0	3354	1087	38	4	679	4	CHMP1A	16	89717999	Missense_Mutation	SNP	G	TCGA-G7-6797-01A-11D-1961-08	22141973	89717999	636754	66	35389										
FAM18B2	201158	ucsc.edu	37	chr17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	tgagcaactcacagagaagaCagacgatgattgcactgact	10	9	1	6			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr17:15457087C>T	ENST00000225576.3	-	3	247	c.152G>A	c.(151-153)tGt>tAt	p.C51Y	TVP23C_ENST00000518321.1_Missense_Mutation_p.C51Y|TVP23C_ENST00000428082.2_Missense_Mutation_p.C51Y|TVP23C-CDRT4_ENST00000522212.2_Missense_Mutation_p.C51Y|TVP23C_ENST00000584811.1_5'UTR|TVP23C_ENST00000519970.1_Intron|TVP23C_ENST00000438826.3_Missense_Mutation_p.C51Y	NM_145301.2	NP_660344.2	Q96ET8	TV23C_HUMAN	trans-golgi network vesicle protein 23 homolog C (S. cerevisiae)	51						integral component of membrane (GO:0016021)											ACAGAGAAGACAGACGATGAT	0.373																																																0													274	265	268					17																	15457087		2203	4300	6503	SO:0001583	missense	201158			BC011952	CCDS11170.1, CCDS45617.1	17p12	2012-11-29	2012-11-29	2012-11-29	ENSG00000175106	ENSG00000175106			30453	protein-coding gene	gene with protein product			"family with sequence similarity 18, member B2"	FAM18B2			Standard	NM_001135036		Approved	MGC8763	uc002goq.2	Q96ET8	OTTHUMG00000171461	ENST00000225576.3:c.152G>A	17.37:g.15457087C>T	ENSP00000225576:p.Cys51Tyr	Somatic		WXS	Illumina HiSeq		Q3LIC7	Missense_Mutation	SNP	ENST00000225576.3	37	CCDS11170.1	.	.	.	.	.	.	.	.	.	.	.	2.368	-0.344949	0.05208	.	.	ENSG00000259024;ENSG00000175106;ENSG00000175106;ENSG00000175106	ENST00000522212;ENST00000225576;ENST00000428082;ENST00000438826	T;T;T;T	0.25749	1.78;1.78;1.78;1.78	4.47	4.47	0.54385	.	0.000000	0.85682	N	0.000000	T	0.02571	0.0078	N	0.00004	-3.335	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.06405	0.0;0.0;0.002	T	0.38457	-0.9660	10	0.02654	T	1	-3.8701	9.492	0.38965	0.0:0.0877:0.0:0.9123	.	51;51;51	Q96ET8-2;Q96ET8-3;Q96ET8	.;.;F18B2_HUMAN	Y	51	ENSP00000429865:C51Y;ENSP00000225576:C51Y;ENSP00000406387:C51Y;ENSP00000413355:C51Y	ENSP00000225576:C51Y	C	-	2	0	RP11-726O12.1;FAM18B2	15397812	1.000000	0.71417	1.000000	0.80357	0.703000	0.40648	6.178000	0.71968	0.670000	0.31165	-0.442000	0.05670	TGT		0.373	TVP23C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000130705.2	NM_145301		T	15457087	C	T	15457087	3	4	593	1	0	0	0	0	1	0	0	0	5524	478	17	2	848	2	FAM18B2	17	15457087	Missense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08		15457087	65738123	67	35390										
SLC47A2	146802	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	19610045	19610045	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	agccagggagaagaaggggcCccagtcctgcaggcactggc	16	12	0	2			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr17:19610045C>G	ENST00000325411.5	-	9	915	c.865G>C	c.(865-867)Ggc>Cgc	p.G289R	SLC47A2_ENST00000350657.5_Missense_Mutation_p.G253R|SLC47A2_ENST00000463318.1_5'UTR	NM_152908.3	NP_690872.2	Q86VL8	S47A2_HUMAN	solute carrier family 47 (multidrug and toxin extrusion), member 2	289					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	antiporter activity (GO:0015297)|drug transmembrane transporter activity (GO:0015238)			endometrium(2)|kidney(3)|large_intestine(2)|lung(1)|ovary(1)	9	all_cancers(12;2.3e-05)|all_epithelial(12;0.0024)|Breast(13;0.245)				Aciclovir(DB00787)	AAGAAGGGGCCCCAGTCCTGC	0.607																																																0													82	76	78					17																	19610045		2203	4300	6503	SO:0001583	missense	146802			AB250364	CCDS11211.1, CCDS58530.1	17p11.2	2013-07-17	2013-07-17		ENSG00000180638	ENSG00000180638		"Solute carriers"	26439	protein-coding gene	gene with protein product	"multidrug and toxin extrusion 2"	609833				16996621, 16807400	Standard	NM_152908		Approved	FLJ31196, MATE2, MATE2-K	uc002gwf.4	Q86VL8	OTTHUMG00000059464	ENST00000325411.5:c.865G>C	17.37:g.19610045C>G	ENSP00000326671:p.Gly289Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A0JBX9|A0P8Z7|Q63HJ9|Q8IV44|Q96NA1	Missense_Mutation	SNP	ENST00000325411.5	37	CCDS11211.1	.	.	.	.	.	.	.	.	.	.	C	21.0	4.083522	0.76642	.	.	ENSG00000180638	ENST00000350657;ENST00000325411;ENST00000456947;ENST00000433844	T;T;T	0.44881	1.42;1.44;0.91	5.36	1.97	0.26223	.	0.287013	0.38548	N	0.001645	T	0.40423	0.1116	N	0.21545	0.675	0.42575	D	0.993199	D;D;P	0.54397	0.966;0.966;0.643	P;P;B	0.56751	0.805;0.805;0.271	T	0.29397	-1.0013	10	0.56958	D	0.05	-13.785	9.866	0.41142	0.273:0.5943:0.1327:0.0	.	253;253;289	Q86VL8-3;Q86VL8-4;Q86VL8	.;.;S47A2_HUMAN	R	253;289;204;253	ENSP00000338084:G253R;ENSP00000326671:G289R;ENSP00000391848:G253R	ENSP00000326671:G289R	G	-	1	0	SLC47A2	19550637	1.000000	0.71417	0.979000	0.43373	0.936000	0.57629	4.157000	0.58144	0.709000	0.31976	0.462000	0.41574	GGC		0.607	SLC47A2-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000132242.2	NM_152908		G	19610045	C	G	19610045	3	3	593	1	0	0	0	0	1	0	0	0	14661	623	22	4	979	4	SLC47A2	17	19610045	Missense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08	4152958	19610045	61585165	68	35391										
ZNF207	7756	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	30696350	30696350	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	agttacctaagtatcaacgtAatcttcctcggccaggacag	8	11	2	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr17:30696350A>T	ENST00000321233.6	+	10	1307	c.1153A>T	c.(1153-1155)Aat>Tat	p.N385Y	ZNF207_ENST00000394673.2_Missense_Mutation_p.N370Y|ZNF207_ENST00000577908.1_Missense_Mutation_p.N401Y|ZNF207_ENST00000394670.4_Missense_Mutation_p.N401Y|ZNF207_ENST00000341711.6_Missense_Mutation_p.N302Y|ZNF207_ENST00000342555.6_Missense_Mutation_p.N404Y	NM_003457.3	NP_003448.1	O43670	ZN207_HUMAN	zinc finger protein 207	385	GLEBS.				attachment of spindle microtubules to kinetochore (GO:0008608)|mitotic sister chromatid segregation (GO:0000070)|mitotic spindle assembly checkpoint (GO:0007094)|protein stabilization (GO:0050821)|regulation of chromosome segregation (GO:0051983)|regulation of transcription, DNA-templated (GO:0006355)	kinetochore (GO:0000776)|microtubule (GO:0005874)|nucleus (GO:0005634)	DNA binding (GO:0003677)|heparin binding (GO:0008201)|microtubule binding (GO:0008017)|poly(A) RNA binding (GO:0044822)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|kidney(2)|lung(3)|urinary_tract(2)	10		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			GTATCAACGTAATCTTCCTCG	0.502																																																0													102	101	101					17																	30696350		2203	4300	6503	SO:0001583	missense	7756			AF046001	CCDS11271.1, CCDS32614.1, CCDS42294.1	17q11.2	2008-07-10			ENSG00000010244	ENSG00000010244		"Zinc fingers, C2H2-type"	12998	protein-coding gene	gene with protein product		603428				9799612	Standard	NM_001098507		Approved		uc002hhj.4	O43670	OTTHUMG00000132810	ENST00000321233.6:c.1153A>T	17.37:g.30696350A>T	ENSP00000322777:p.Asn385Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6Y6|E1P660|E1P661|E1P662|Q53XS9|Q96HW5|Q9BUQ7	Missense_Mutation	SNP	ENST00000321233.6	37	CCDS11271.1	.	.	.	.	.	.	.	.	.	.	A	15.02	2.710294	0.48517	.	.	ENSG00000010244	ENST00000394670;ENST00000394673;ENST00000394679;ENST00000321233;ENST00000341711;ENST00000342555	T;T	0.47177	0.87;0.85	5.55	5.55	0.83447	.	0.143629	0.64402	D	0.000010	T	0.60209	0.2251	L	0.40543	1.245	0.48762	D	0.999708	D;D;D;P;D	0.76494	0.972;0.972;0.972;0.924;0.999	P;P;P;P;D	0.83275	0.6;0.6;0.6;0.461;0.996	T	0.58137	-0.7689	10	0.37606	T	0.19	.	15.7019	0.77549	1.0:0.0:0.0:0.0	.	354;404;401;370;385	A8MTG3;Q59G94;E1P660;O43670-2;O43670	.;.;.;.;ZN207_HUMAN	Y	401;354;404;370;302;385	ENSP00000378165:N401Y;ENSP00000344913:N302Y	ENSP00000322777:N370Y	N	+	1	0	ZNF207	27720463	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.566000	0.67372	2.108000	0.64289	0.477000	0.44152	AAT		0.502	ZNF207-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256251.2			T	30696350	A	T	30696350	3	4	593	1	0	0	0	0	1	0	0	0	17777	362	13	5	1243	5	ZNF207	17	30696350	Missense_Mutation	SNP	A	TCGA-G7-6797-01A-11D-1961-08	11086305	30696350	50498860	69	35392										
MPO	4353	ucsc.edu	37	chr17	56355333	56355333	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	agctggttggacatgttgcgCaggttcctggccaggggctc	16	10	0	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr17:56355333C>T	ENST00000225275.3	-	7	1235	c.1059G>A	c.(1057-1059)ctG>ctA	p.L353L	MPO_ENST00000578493.1_5'UTR|MPO_ENST00000340482.3_Silent_p.L385L	NM_000250.1	NP_000241.1	P05164	PERM_HUMAN	myeloperoxidase	353					aging (GO:0007568)|defense response (GO:0006952)|defense response to fungus (GO:0050832)|hydrogen peroxide catabolic process (GO:0042744)|hypochlorous acid biosynthetic process (GO:0002149)|low-density lipoprotein particle remodeling (GO:0034374)|negative regulation of apoptotic process (GO:0043066)|negative regulation of growth of symbiont in host (GO:0044130)|oxidation-reduction process (GO:0055114)|removal of superoxide radicals (GO:0019430)|respiratory burst involved in defense response (GO:0002679)|response to food (GO:0032094)|response to lipopolysaccharide (GO:0032496)|response to mechanical stimulus (GO:0009612)|response to oxidative stress (GO:0006979)|response to yeast (GO:0001878)	azurophil granule (GO:0042582)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|lysosome (GO:0005764)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|secretory granule (GO:0030141)	chromatin binding (GO:0003682)|heme binding (GO:0020037)|heparin binding (GO:0008201)|metal ion binding (GO:0046872)|peroxidase activity (GO:0004601)			breast(4)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(8)|liver(1)|lung(13)|ovary(2)|pancreas(1)|skin(4)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(4)	46					Aminosalicylic Acid(DB00233)|Bivalirudin(DB00006)|Calcipotriol(DB02300)|Carboplatin(DB00958)|Cefaclor(DB00833)|Cefdinir(DB00535)|Cisplatin(DB00515)|Cysteamine(DB00847)|Dapsone(DB00250)|Enoxaparin(DB01225)|Human Serum Albumin(DB00062)|L-Carnitine(DB00583)|Melatonin(DB01065)|Mesalazine(DB00244)|Nabumetone(DB00461)|Octreotide(DB00104)|Oxaliplatin(DB00526)|Propylthiouracil(DB00550)|Ticlopidine(DB00208)|Tolmetin(DB00500)	ACATGTTGCGCAGGTTCCTGG	0.637																																																0													75	67	70					17																	56355333		2203	4300	6503	SO:0001819	synonymous_variant	4353				CCDS11604.1	17q21.3-q23	2014-09-17				ENSG00000005381	1.11.1.7		7218	protein-coding gene	gene with protein product		606989					Standard	NM_000250		Approved		uc002ivu.1	P05164		ENST00000225275.3:c.1059G>A	17.37:g.56355333C>T		Somatic		WXS	Illumina HiSeq		A1L4B8|Q14862|Q4PJH5|Q9UCL7	Silent	SNP	ENST00000225275.3	37	CCDS11604.1																																																																																				0.637	MPO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443971.1			T	56355333	C	T	56355333	2	4	593	1	0	0	0	0	0	0	0	1	9739	697	25	2		2	MPO	17	56355333	Silent	SNP	C	TCGA-G7-6797-01A-11D-1961-08	25658983	56355333	24839877	70	35393										
PPM1D	8493	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	58740837	58740837	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	ctctgttaaactcaccatgcGacgcagacttaggggccaga	10	12	2	2	rs200809297		TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr17:58740837G>A	ENST00000305921.3	+	6	1974	c.1742G>A	c.(1741-1743)cGa>cAa	p.R581Q	RNU6-623P_ENST00000363143.1_RNA	NM_003620.3	NP_003611.1	O15297	PPM1D_HUMAN	protein phosphatase, Mg2+/Mn2+ dependent, 1D	581					G2/M transition of mitotic cell cycle (GO:0000086)|negative regulation of cell proliferation (GO:0008285)|peptidyl-threonine dephosphorylation (GO:0035970)|protein dephosphorylation (GO:0006470)|response to bacterium (GO:0009617)|response to radiation (GO:0009314)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|protein serine/threonine phosphatase activity (GO:0004722)			haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	15	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;6.75e-12)|all cancers(12;1.96e-10)			CTCACCATGCGACGCAGACTT	0.443											OREG0031485	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)																																				0													85	82	83					17																	58740837		2203	4300	6503	SO:0001583	missense	8493			U78305	CCDS11625.1	17q23.3	2014-09-17	2010-03-05		ENSG00000170836	ENSG00000170836		"Serine/threonine phosphatases / Protein phosphatases, Mg2+/Mn2+ dependent"	9277	protein-coding gene	gene with protein product	"wild-type p53-induced phosphatase 1", "protein phosphatase 2C, delta isoform"	605100	"protein phosphatase 1D magnesium-dependent, delta isoform"			9177166	Standard	NM_003620		Approved	Wip1, PP2C-DELTA	uc002iyt.2	O15297		ENST00000305921.3:c.1742G>A	17.37:g.58740837G>A	ENSP00000306682:p.Arg581Gln	Somatic	1033	WXS	Illumina HiSeq	Phase_I	Q53XP4|Q6P991|Q8IVR6	Missense_Mutation	SNP	ENST00000305921.3	37	CCDS11625.1	.	.	.	.	.	.	.	.	.	.	G	24.7	4.564808	0.86439	.	.	ENSG00000170836	ENST00000305921	T	0.61158	0.13	5.98	5.01	0.66863	.	0.278410	0.34268	N	0.004118	T	0.66157	0.2761	L	0.34521	1.04	0.40466	D	0.980292	D	0.89917	1.0	D	0.63957	0.92	T	0.71721	-0.4507	10	0.87932	D	0	-2.6262	17.3117	0.87212	0.0:0.1253:0.8747:0.0	.	581	O15297	PPM1D_HUMAN	Q	581	ENSP00000306682:R581Q	ENSP00000306682:R581Q	R	+	2	0	PPM1D	56095619	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.144000	0.77357	1.522000	0.49001	0.591000	0.81541	CGA		0.443	PPM1D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449474.1	NM_003620		A	58740837	G	A	58740837	3	1	593	1	0	0	0	0	1	0	0	0	12347	1058	37	1	1764	1	PPM1D	17	58740837	Missense_Mutation	SNP	G	TCGA-G7-6797-01A-11D-1961-08	2385504	58740837	22454373	71	35394										
SMAD7	4092	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	46447887	46447887	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	taaactcgtggtcattgggcCgctgcaggctgtacgccttc	12	12	1	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr18:46447887C>T	ENST00000262158.2	-	4	1422	c.1136G>A	c.(1135-1137)cGg>cAg	p.R379Q	SMAD7_ENST00000585986.1_5'UTR|SMAD7_ENST00000589634.1_Missense_Mutation_p.R378Q|SMAD7_ENST00000591805.1_Missense_Mutation_p.R164Q	NM_001190821.1|NM_005904.3	NP_001177750.1|NP_005895.1	O15105	SMAD7_HUMAN	SMAD family member 7	379	MH2. {ECO:0000255|PROSITE- ProRule:PRU00439}.				adherens junction assembly (GO:0034333)|artery morphogenesis (GO:0048844)|BMP signaling pathway (GO:0030509)|cellular protein complex localization (GO:0034629)|cellular response to transforming growth factor beta stimulus (GO:0071560)|gene expression (GO:0010467)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of cell migration (GO:0030336)|negative regulation of epithelial to mesenchymal transition (GO:0010719)|negative regulation of pathway-restricted SMAD protein phosphorylation (GO:0060394)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|negative regulation of peptidyl-threonine phosphorylation (GO:0010801)|negative regulation of protein ubiquitination (GO:0031397)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription by competitive promoter binding (GO:0010944)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|negative regulation of ubiquitin-protein transferase activity (GO:0051444)|pathway-restricted SMAD protein phosphorylation (GO:0060389)|positive regulation of cell-cell adhesion (GO:0022409)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein stabilization (GO:0050821)|regulation of activin receptor signaling pathway (GO:0032925)|regulation of cardiac muscle contraction (GO:0055117)|regulation of transforming growth factor beta receptor signaling pathway (GO:0017015)|regulation of ventricular cardiac muscle cell membrane depolarization (GO:0060373)|response to laminar fluid shear stress (GO:0034616)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|ureteric bud development (GO:0001657)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)|ventricular septum morphogenesis (GO:0060412)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|transcription factor complex (GO:0005667)	activin binding (GO:0048185)|beta-catenin binding (GO:0008013)|I-SMAD binding (GO:0070411)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)|transforming growth factor beta receptor, inhibitory cytoplasmic mediator activity (GO:0030617)|type I transforming growth factor beta receptor binding (GO:0034713)|ubiquitin protein ligase binding (GO:0031625)			breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)|prostate(1)	10	Colorectal(1;0.0518)					GTCATTGGGCCGCTGCAGGCT	0.582																																																0													90	77	81					18																	46447887		2203	4300	6503	SO:0001583	missense	4092			AF010193	CCDS11936.1, CCDS54186.1, CCDS59317.1	18q21.1	2006-11-06	2006-11-06	2004-05-26	ENSG00000101665	ENSG00000101665		"SMADs"	6773	protein-coding gene	gene with protein product		602932	"MAD, mothers against decapentaplegic homolog 7 (Drosophila)", "SMAD, mothers against DPP homolog 7 (Drosophila)"	MADH8, MADH7		9256479, 9730599	Standard	NM_005904		Approved		uc002ldg.3	O15105	OTTHUMG00000132655	ENST00000262158.2:c.1136G>A	18.37:g.46447887C>T	ENSP00000262158:p.Arg379Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z773|K7EQ10|O14740|Q6DK23	Missense_Mutation	SNP	ENST00000262158.2	37	CCDS11936.1	.	.	.	.	.	.	.	.	.	.	C	23.1	4.380052	0.82682	.	.	ENSG00000101665	ENST00000545051;ENST00000262158	D	0.98792	-5.14	5.66	5.66	0.87406	SMAD domain-like (1);SMAD/FHA domain (1);SMAD domain, Dwarfin-type (3);	0.000000	0.85682	D	0.000000	D	0.97648	0.9229	N	0.05330	-0.07	0.80722	D	1	P;D	0.71674	0.68;0.998	B;D	0.79108	0.19;0.992	D	0.97332	0.9951	10	0.23891	T	0.37	.	19.7417	0.96234	0.0:1.0:0.0:0.0	.	379;191	O15105;B3KYA8	SMAD7_HUMAN;.	Q	164;379	ENSP00000262158:R379Q	ENSP00000262158:R379Q	R	-	2	0	SMAD7	44701885	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.972000	0.63756	2.658000	0.90341	0.591000	0.81541	CGG		0.582	SMAD7-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000255906.1	NM_005904		T	46447887	C	T	46447887	3	4	593	1	0	0	0	0	1	0	0	0	14776	652	23	1	148	1	SMAD7	18	46447887	Missense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08		46447887	31629361	72	35395										
GATAD2A	54815	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	19613195	19613195	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gccccgaggtgtcctgcacaCgttcagtccgtcacccaaac	9	17	2	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr19:19613195C>T	ENST00000360315.3	+	11	1943	c.1631C>T	c.(1630-1632)aCg>aTg	p.T544M	GATAD2A_ENST00000358713.3_Missense_Mutation_p.T544M|GATAD2A_ENST00000404158.1_Missense_Mutation_p.T545M|GATAD2A_ENST00000537887.1_Missense_Mutation_p.T173M|GATAD2A_ENST00000252577.5_Missense_Mutation_p.T519M|GATAD2A_ENST00000429563.2_Missense_Mutation_p.T347M	NM_017660.3	NP_060130.3	Q86YP4	P66A_HUMAN	GATA zinc finger domain containing 2A	544					anterior neuropore closure (GO:0021506)|blood vessel development (GO:0001568)|DNA methylation (GO:0006306)|embryonic body morphogenesis (GO:0010172)|in utero embryonic development (GO:0001701)|negative regulation of transcription, DNA-templated (GO:0045892)|neural fold formation (GO:0001842)|programmed cell death (GO:0012501)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|NuRD complex (GO:0016581)	protein binding, bridging (GO:0030674)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(1)|large_intestine(2)|lung(6)|ovary(1)|urinary_tract(1)	13						GTCCTGCACACGTTCAGTCCG	0.647																																																0													76	79	78					19																	19613195		2203	4300	6503	SO:0001583	missense	54815			AL390164	CCDS12402.2	19p13.11	2013-01-25			ENSG00000167491	ENSG00000167491		"GATA zinc finger domain containing"	29989	protein-coding gene	gene with protein product	"p66 alpha"	614997				12183469	Standard	NM_017660		Approved	p66alpha	uc010xqt.2	Q86YP4	OTTHUMG00000152541	ENST00000360315.3:c.1631C>T	19.37:g.19613195C>T	ENSP00000353463:p.Thr544Met	Somatic		WXS	Illumina HiSeq	Phase_I	B5MC40|Q7L3J2|Q96F28|Q9NPU2|Q9NXS1	Missense_Mutation	SNP	ENST00000360315.3	37	CCDS12402.2	.	.	.	.	.	.	.	.	.	.	C	16.57	3.160141	0.57368	.	.	ENSG00000167491	ENST00000360315;ENST00000252577;ENST00000537887;ENST00000404158;ENST00000358713;ENST00000429563	T;T;T;T	0.45668	1.43;1.48;1.43;0.89	5.23	5.23	0.72850	.	0.357947	0.31872	N	0.006930	T	0.56202	0.1969	L	0.47716	1.5	0.38138	D	0.938352	D;D;D	0.89917	0.994;0.998;1.0	P;P;P	0.61592	0.628;0.794;0.891	T	0.62248	-0.6894	10	0.72032	D	0.01	-26.0515	17.4151	0.87497	0.0:1.0:0.0:0.0	.	347;564;544	B4DKZ7;B5MC40;Q86YP4	.;.;P66A_HUMAN	M	544;519;173;564;544;347	ENSP00000353463:T544M;ENSP00000252577:T519M;ENSP00000351552:T544M;ENSP00000388416:T347M	ENSP00000252577:T519M	T	+	2	0	GATAD2A	19474195	1.000000	0.71417	0.929000	0.37066	0.486000	0.33341	4.956000	0.63645	2.452000	0.82932	0.585000	0.79938	ACG		0.647	GATAD2A-202	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000326671.4	NM_017660		T	19613195	C	T	19613195	3	4	593	1	0	0	0	0	1	0	0	0	6267	536	19	1	1669	1	GATAD2A	19	19613195	Missense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08		19613195	39515788	73	35396										
ZNF30	90075	broad.mit.edu	37	chr19	35435141	35435141	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gcatcagaggatccatactgGggagaaaccctatgaatgta	11	8	1	3			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr19:35435141G>C	ENST00000601142.1	+	5	1508	c.1271G>C	c.(1270-1272)gGg>gCg	p.G424A	ZNF30_ENST00000439785.1_Missense_Mutation_p.G425A|ZNF30_ENST00000426813.2_Missense_Mutation_p.G343A|ZNF30_ENST00000303586.7_Missense_Mutation_p.G425A|ZNF30_ENST00000601957.1_3'UTR			P17039	ZNF30_HUMAN	zinc finger protein 30	424					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(3)|ovary(1)|prostate(2)	16	all_lung(56;8.38e-08)|Lung NSC(56;1.31e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)	GBM - Glioblastoma multiforme(1328;0.0265)		ATCCATACTGGGGAGAAACCC	0.468																																																0													57	62	60					19																	35435141		2202	4300	6502	SO:0001583	missense	90075			X52359	CCDS46044.1, CCDS46045.1	19q13.13	2013-01-08	2006-05-10			ENSG00000168661		"Zinc fingers, C2H2-type", "-"	13090	protein-coding gene	gene with protein product			"zinc finger protein 30 (KOX 28)"				Standard	NM_001099437		Approved	KOX28, DKFZp686N19164, FLJ20562	uc010edq.1	P17039		ENST00000601142.1:c.1271G>C	19.37:g.35435141G>C	ENSP00000469954:p.Gly424Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A5PLP1|A8K320|B4DIC0|Q6N068	Missense_Mutation	SNP	ENST00000601142.1	37	CCDS46045.1	.	.	.	.	.	.	.	.	.	.	g	15.92	2.976488	0.53720	.	.	ENSG00000168661	ENST00000439785;ENST00000303586;ENST00000426813;ENST00000342559	T;T	0.26373	1.74;1.74	2.29	1.22	0.21188	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.32496	0.0831	L	0.46947	1.48	0.26401	N	0.976428	D;D	0.54772	0.961;0.968	P;P	0.55667	0.673;0.781	T	0.12578	-1.0542	9	0.87932	D	0	.	6.6602	0.23011	0.1595:0.0:0.8405:0.0	.	425;424	P17039-2;P17039	.;ZNF30_HUMAN	A	425;424;343;133	ENSP00000403441:G425A;ENSP00000416457:G343A	ENSP00000303889:G424A	G	+	2	0	ZNF30	40126981	0.138000	0.22547	0.390000	0.26220	0.106000	0.19336	0.531000	0.23052	0.297000	0.22615	0.404000	0.27445	GGG		0.468	ZNF30-003	KNOWN	NAGNAG_splice_site|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000464432.1	NM_194325		C	35435141	G	C	35435141	3	2	593	1	0	0	0	0	1	0	0	0	17842	1232	43	4	1288	4	ZNF30	19	35435141	Missense_Mutation	SNP	G	TCGA-G7-6797-01A-11D-1961-08	15821946	35435141	23693842	74	35397										
ZNF573	126231	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	38230139	38230140	+	Nonsense_Mutation	DNP	CC	CC	AA													0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gctaaaggcctttccgcattCcttgcattcatagggtttct							TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr19:38230139_38230140CC>AA	ENST00000590414.2	-	4	1272_1273	c.1251_1252GG>TT	c.(1249-1254)aaGGaa>aaTTaa	p.417_418KE>N*	ZNF573_ENST00000339503.4_Nonsense_Mutation_p.359_360KE>N*|ZNF573_ENST00000357309.3_Nonsense_Mutation_p.329_330KE>N*|ZNF573_ENST00000392138.1_Nonsense_Mutation_p.330_331KE>N*|ZNF573_ENST00000536220.1_Nonsense_Mutation_p.329_330KE>N*			Q86YE8	ZN573_HUMAN	zinc finger protein 573	417					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|cervix(3)|endometrium(2)|large_intestine(8)|liver(1)|lung(5)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	25			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)|Lung(45;0.0813)|LUSC - Lung squamous cell carcinoma(53;0.146)			TTTCCGCATTCCTTGCATTCAT	0.376																																																0																																										SO:0001587	stop_gained	126231			AK074539	CCDS12508.1, CCDS54260.1, CCDS59381.1	19q13.12	2013-09-20			ENSG00000189144	ENSG00000189144		"Zinc fingers, C2H2-type", "-"	26420	protein-coding gene	gene with protein product						12477932	Standard	NM_152360		Approved	FLJ30921	uc002ohe.3	Q86YE8	OTTHUMG00000048183	ENST00000590414.2:c.1251_1252delinsAA	19.37:g.38230139_38230140delinsAA	ENSP00000465020:p.K417_E418delinsN*	Somatic		WXS	Illumina HiSeq	Phase_I	B7WPE1|K7EJ45|Q6P1P1|Q7Z7Q3|Q8N2Q1|Q96BM3|Q96NH0	Nonsense_Mutation	DNP	ENST00000590414.2	37	CCDS59381.1																																																																																				0.376	ZNF573-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459773.2	NM_152360		AA	38230140	CC	AA	38230139	4	1	593	1	0	0	0	0	0	1	0	0	18017	864	30	4	749	4	ZNF573	19	38230139	Nonsense_Mutation	DNP	CC	TCGA-G7-6797-01A-11D-1961-08	2794998	38230139	20898844	75	35398										
PRR12	57479	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	50097991	50097991	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	cccacggagctcttcatctcGggtgccctgccgggttccag	12	16	3	0	rs527711314		TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr19:50097991G>C	ENST00000418929.2	+	4	411	c.399G>C	c.(397-399)tcG>tcC	p.S133S		NM_020719.1	NP_065770.1	Q9ULL5	PRR12_HUMAN	proline rich 12	0	Pro-rich.						DNA binding (GO:0003677)			NS(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(2)|pancreas(1)|prostate(2)	11		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		TCTTCATCTCGGGTGCCCTGC	0.662																																																0													27	32	31					19																	50097991		2036	4191	6227	SO:0001819	synonymous_variant	57479			AB033031	CCDS46143.1	19q13.33	2008-07-02	2006-02-06	2006-02-06		ENSG00000126464			29217	protein-coding gene	gene with protein product			"KIAA1205"	KIAA1205		10574462	Standard	NM_020719		Approved		uc002poo.4	Q9ULL5		ENST00000418929.2:c.399G>C	19.37:g.50097991G>C		Somatic		WXS	Illumina HiSeq	Phase_I	E9PB06|Q8N4J6	Silent	SNP	ENST00000418929.2	37	CCDS46143.1																																																																																				0.662	PRR12-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465915.1	NM_020719		C	50097991	G	C	50097991	2	2	593	1	0	0	0	0	0	0	0	1	12594	1103	39	4		4	PRR12	19	50097991	Silent	SNP	G	TCGA-G7-6797-01A-11D-1961-08	11867852	50097991	9030992	76	35399										
DSN1	79980	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	35399580	35399580	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	tgatgatcatgagtcttagaCatcactggtcctttttctag	8	8	4	4			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr20:35399580C>A	ENST00000426836.1	-	3	423	c.51G>T	c.(49-51)atG>atT	p.M17I	DSN1_ENST00000373750.4_Missense_Mutation_p.M17I|DSN1_ENST00000373734.4_Intron|DSN1_ENST00000373740.3_Intron|DSN1_ENST00000373745.3_Missense_Mutation_p.M17I|DSN1_ENST00000448110.2_Start_Codon_SNP_p.M1I|DSN1_ENST00000473615.1_5'UTR	NM_001145316.1	NP_001138788.1	Q9H410	DSN1_HUMAN	DSN1, MIS12 kinetochore complex component	17					chromosome segregation (GO:0007059)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	cytosol (GO:0005829)|MIS12/MIND type complex (GO:0000444)|nucleus (GO:0005634)				endometrium(1)|kidney(1)|large_intestine(1)|lung(7)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	16		Myeloproliferative disorder(115;0.00874)				GAGTCTTAGACATCACTGGTC	0.378																																																0													110	110	110					20																	35399580		2203	4298	6501	SO:0001583	missense	79980			AK023408	CCDS13286.1, CCDS46596.1, CCDS46597.1	20q11.23	2013-07-03	2013-07-03	2006-11-07	ENSG00000149636	ENSG00000149636			16165	protein-coding gene	gene with protein product	"kinetochore null 3 homolog (C. elegans)"	609175	"chromosome 20 open reading frame 172", "DSN1, MIND kinetochore complex component, homolog (S. cerevisiae)"	C20orf172		16585270, 20819937	Standard	NM_001145315		Approved	dJ469A13.2, MIS13, KNL3, hKNL-3	uc002xfz.3	Q9H410	OTTHUMG00000032396	ENST00000426836.1:c.51G>T	20.37:g.35399580C>A	ENSP00000389810:p.Met17Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B4DWT2|E1P5U9|Q5JW55|Q5JW56|Q9H8P4	Missense_Mutation	SNP	ENST00000426836.1	37	CCDS13286.1	.	.	.	.	.	.	.	.	.	.	C	12.90	2.077408	0.36662	.	.	ENSG00000149636	ENST00000426836;ENST00000373745;ENST00000448110;ENST00000373750;ENST00000449595;ENST00000447406	.	.	.	4.97	0.0673	0.14365	.	0.921783	0.09213	N	0.833021	T	0.38639	0.1048	N	0.24115	0.695	0.80722	D	1	B	0.19331	0.035	B	0.17433	0.018	T	0.17258	-1.0375	9	0.33940	T	0.23	1.3087	5.4683	0.16656	0.1659:0.6997:0.0:0.1344	.	17	Q9H410	DSN1_HUMAN	I	17;17;1;17;1;17	.	ENSP00000362850:M17I	M	-	3	0	DSN1	34832994	0.384000	0.25164	0.863000	0.33907	0.951000	0.60555	-0.211000	0.09332	0.142000	0.18901	0.655000	0.94253	ATG		0.378	DSN1-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079043.2	NM_024918		A	35399580	C	A	35399580	3	1	593	1	0	0	0	0	1	0	0	0	4782	478	17	4	1055	4	DSN1	20	35399580	Missense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08		35399580	27625940	77	35400										
NF2	4771	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	30051666	30051666	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gagcaccgaggccgagccagGtgaggcccattcattgttgg	15	11	1	1			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chr22:30051666G>A	ENST00000338641.4	+	6	1040		c.e6+1		NF2_ENST00000361452.4_Splice_Site|NF2_ENST00000361676.4_Splice_Site|NF2_ENST00000347330.5_Intron|NF2_ENST00000403999.3_Splice_Site|NF2_ENST00000397789.3_Splice_Site|NF2_ENST00000353887.4_Splice_Site|NF2_ENST00000334961.7_Splice_Site|NF2_ENST00000413209.2_Intron|NF2_ENST00000361166.4_Splice_Site|NF2_ENST00000403435.1_Splice_Site	NM_000268.3|NM_016418.5|NM_181832.2	NP_000259.1|NP_057502.2|NP_861970.1	P35240	MERL_HUMAN	neurofibromin 2 (merlin)						actin cytoskeleton organization (GO:0030036)|cell-cell junction organization (GO:0045216)|ectoderm development (GO:0007398)|hippocampus development (GO:0021766)|lens fiber cell differentiation (GO:0070306)|mesoderm formation (GO:0001707)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of DNA replication (GO:0008156)|negative regulation of JAK-STAT cascade (GO:0046426)|negative regulation of MAPK cascade (GO:0043409)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of tyrosine phosphorylation of Stat3 protein (GO:0042518)|negative regulation of tyrosine phosphorylation of Stat5 protein (GO:0042524)|odontogenesis of dentin-containing tooth (GO:0042475)|positive regulation of cell differentiation (GO:0045597)|positive regulation of stress fiber assembly (GO:0051496)|regulation of hippo signaling (GO:0035330)|regulation of neural precursor cell proliferation (GO:2000177)|regulation of protein localization to nucleus (GO:1900180)|regulation of protein stability (GO:0031647)|Schwann cell proliferation (GO:0014010)	adherens junction (GO:0005912)|apical part of cell (GO:0045177)|cleavage furrow (GO:0032154)|cortical actin cytoskeleton (GO:0030864)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|early endosome (GO:0005769)|extrinsic component of membrane (GO:0019898)|filopodium (GO:0030175)|lamellipodium (GO:0030027)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|ruffle (GO:0001726)		p.?(5)		NS(1)|bone(2)|breast(5)|central_nervous_system(21)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(17)|large_intestine(9)|liver(1)|lung(9)|meninges(372)|ovary(2)|pituitary(1)|pleura(9)|prostate(1)|skin(7)|soft_tissue(303)|stomach(2)|thyroid(2)|upper_aerodigestive_tract(1)|urinary_tract(4)	776						GCCGAGCCAGGTGAGGCCCAT	0.408			"D, Mis, N, F, S, O"		"meningioma, acoustic neuroma, renal "	"meningioma, acoustic neuroma"			Neurofibromatosis, type 2																													yes	Rec	yes	Neurofibromatosis type 2	22	22q12.2	4771	neurofibromatosis type 2 gene		O	5	Unknown(5)	meninges(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)	GRCh37	CS951487	NF2	S							83	87	85					22																	30051666		2203	4300	6503	SO:0001630	splice_region_variant	4771	Familial Cancer Database	NF2, Central Neurofibromatosis, Bilateral Acoustic Neurofibromatosis	L11353	CCDS13861.1, CCDS13862.1, CCDS13863.1, CCDS13864.1, CCDS13865.1, CCDS54516.1	22q12.2	2014-09-17	2007-12-17		ENSG00000186575	ENSG00000186575		"A-kinase anchor proteins"	7773	protein-coding gene	gene with protein product	"moesin-ezrin-radixin like", "schwannomin"	607379	"neurofibromin 2 (bilateral acoustic neuroma)"			10591208	Standard	NM_000268		Approved	merlin	uc003age.4	P35240	OTTHUMG00000030727	ENST00000338641.4:c.599+1G>A	22.37:g.30051666G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O95683|Q8WUJ2|Q969N0|Q969Q3|Q96T30|Q96T31|Q96T32|Q96T33|Q9BTW3|Q9UNG9|Q9UNH3|Q9UNH4	Splice_Site	SNP	ENST00000338641.4	37	CCDS13861.1	.	.	.	.	.	.	.	.	.	.	G	28.8	4.954606	0.92726	.	.	ENSG00000186575	ENST00000338641;ENST00000403435;ENST00000361452;ENST00000397822;ENST00000403999;ENST00000334961;ENST00000353887;ENST00000397789;ENST00000361676;ENST00000361166	.	.	.	5.34	5.34	0.76211	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	19.036	0.92978	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	NF2	28381666	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	9.653000	0.98506	2.484000	0.83849	0.555000	0.69702	.		0.408	NF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075615.3	NM_000268	Intron	A	30051666	G	A	30051666	5	1	593	1	0	0	0	0	0	0	1	0	10364	1275	44	2	622	2	NF2	22	30051666	Splice_Site	SNP	G	TCGA-G7-6797-01A-11D-1961-08		30051666	21252900	78	35401										
NXF3	56000	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	102337711	102337711	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	aggtatgttctcttcatggaCgtccagggaggcagccatgc	13	10	2	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chrX:102337711C>T	ENST00000395065.3	-	8	858	c.757G>A	c.(757-759)Gtc>Atc	p.V253I	NXF3_ENST00000425463.2_Missense_Mutation_p.V164I|NXF3_ENST00000425644.1_5'UTR	NM_022052.1	NP_071335.1	Q9H4D5	NXF3_HUMAN	nuclear RNA export factor 3	253					mRNA export from nucleus (GO:0006406)|poly(A)+ mRNA export from nucleus (GO:0016973)	cytoplasm (GO:0005737)|nuclear RNA export factor complex (GO:0042272)|nucleus (GO:0005634)	mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)			NS(1)|central_nervous_system(1)|cervix(1)|kidney(1)|large_intestine(2)|lung(15)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	26						TCTTCATGGACGTCCAGGGAG	0.478																																																0													174	145	154					X																	102337711		2203	4300	6503	SO:0001583	missense	56000			AJ277527	CCDS14503.1	Xq22	2008-02-05			ENSG00000147206	ENSG00000147206			8073	protein-coding gene	gene with protein product		300316				11073998	Standard	NM_022052		Approved		uc004eju.3	Q9H4D5	OTTHUMG00000022088	ENST00000395065.3:c.757G>A	X.37:g.102337711C>T	ENSP00000378504:p.Val253Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYS7|Q5H9I1|Q9H1A9	Missense_Mutation	SNP	ENST00000395065.3	37	CCDS14503.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	0.019|0.019	-1.461864|-1.461864	0.01062|0.01062	.|.	.|.	ENSG00000147206|ENSG00000147206	ENST00000427570|ENST00000395065;ENST00000425463	.|T;T	.|0.33865	.|1.39;1.39	3.64|3.64	1.2|1.2	0.21068|0.21068	.|.	.|0.308479	.|0.33364	.|N	.|0.004994	T|T	0.07638|0.07638	0.0192|0.0192	N|N	0.00686|0.00686	-1.255|-1.255	0.09310|0.09310	N|N	1|1	.|B;B;B	.|0.17852	.|0.024;0.011;0.004	.|B;B;B	.|0.10450	.|0.005;0.003;0.001	T|T	0.37314|0.37314	-0.9711|-0.9711	5|10	.|0.02654	.|T	.|1	-12.7344|-12.7344	4.8575|4.8575	0.13566|0.13566	0.0:0.2749:0.0:0.7251|0.0:0.2749:0.0:0.7251	.|.	.|253;149;253	.|B4DYI1;E9PEY7;Q9H4D5	.|.;.;NXF3_HUMAN	H|I	129|253;164	.|ENSP00000378504:V253I;ENSP00000404347:V164I	.|ENSP00000378504:V253I	R|V	-|-	2|1	0|0	NXF3|NXF3	102224367|102224367	0.001000|0.001000	0.12720|0.12720	0.000000|0.000000	0.03702|0.03702	0.000000|0.000000	0.00434|0.00434	0.923000|0.923000	0.28757|0.28757	0.139000|0.139000	0.18822|0.18822	-0.881000|-0.881000	0.02953|0.02953	CGT|GTC		0.478	NXF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057684.1	NM_022052		T	102337711	C	T	102337711	3	4	593	1	0	0	0	0	1	0	0	0	10792	536	19	1	886	1	NXF3	23	102337711	Missense_Mutation	SNP	C	TCGA-G7-6797-01A-11D-1961-08		102337711	52932849	79	35402										
DOCK11	139818	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	117731503	117731503	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	tacttgaatctgaatgatgcAgaatcaagaagggtaggaaa	11	4	2	5			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chrX:117731503A>T	ENST00000276202.7	+	21	2436	c.2373A>T	c.(2371-2373)gcA>gcT	p.A791A	DOCK11_ENST00000276204.6_Silent_p.A791A	NM_144658.3	NP_653259.3	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	791	DHR-1.				blood coagulation (GO:0007596)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(4)|cervix(2)|endometrium(8)|kidney(5)|large_intestine(17)|liver(1)|lung(35)|ovary(4)|prostate(3)|skin(3)|stomach(1)|urinary_tract(1)	84						TGAATGATGCAGAATCAAGAA	0.398																																																0													92	82	85					X																	117731503		2203	4300	6503	SO:0001819	synonymous_variant	139818			AK125641	CCDS35373.1	Xq24	2013-10-25			ENSG00000147251	ENSG00000147251		"Pleckstrin homology (PH) domain containing"	23483	protein-coding gene	gene with protein product	"zizimin2"	300681				12432077, 16968698	Standard	NM_144658		Approved	FLJ32122, FLJ43653, ZIZ2, ACG	uc004eqp.2	Q5JSL3	OTTHUMG00000022256	ENST00000276202.7:c.2373A>T	X.37:g.117731503A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NMF0|Q66M66|Q6ZUJ5|Q86VU8|Q96MN3	Silent	SNP	ENST00000276202.7	37	CCDS35373.1																																																																																				0.398	DOCK11-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000356002.1	NM_144658		T	117731503	A	T	117731503	2	4	593	1	0	0	0	0	0	0	0	1	4688	175	7	5		5	DOCK11	23	117731503	Silent	SNP	A	TCGA-G7-6797-01A-11D-1961-08	15393792	117731503	37539057	80	35403										
KIAA1210	57481	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	118223094	118223094	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	cttcttgatcttctaactggAtatgagaaggattcataaac	7	7	4	2			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chrX:118223094A>G	ENST00000402510.2	-	11	2098	c.2099T>C	c.(2098-2100)aTc>aCc	p.I700T		NM_020721.1	NP_065772.1	Q9ULL0	K1210_HUMAN	KIAA1210	700										breast(3)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|lung(31)|ovary(4)|prostate(2)|skin(3)|stomach(1)|urinary_tract(1)	64						TTCTAACTGGATATGAGAAGG	0.443																																																0													46	44	45					X																	118223094		1917	4125	6042	SO:0001583	missense	57481			AB033036	CCDS48156.1	Xq24	2012-10-04			ENSG00000250423	ENSG00000250423			29218	protein-coding gene	gene with protein product						10574462	Standard	NM_020721		Approved		uc004era.4	Q9ULL0	OTTHUMG00000162980	ENST00000402510.2:c.2099T>C	X.37:g.118223094A>G	ENSP00000384670:p.Ile700Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZCI8|Q5JPN4	Missense_Mutation	SNP	ENST00000402510.2	37	CCDS48156.1	.	.	.	.	.	.	.	.	.	.	A	12.44	1.939623	0.34189	.	.	ENSG00000250423	ENST00000402510	T	0.15952	2.38	4.42	-4.42	0.03579	.	.	.	.	.	T	0.07007	0.0178	N	0.24115	0.695	0.09310	N	1	B	0.28850	0.225	B	0.29176	0.099	T	0.40021	-0.9585	9	0.12103	T	0.63	.	0.4269	0.00465	0.264:0.1592:0.2924:0.2844	.	700	Q9ULL0	K1210_HUMAN	T	700	ENSP00000384670:I700T	ENSP00000384670:I700T	I	-	2	0	RP13-347D8.6	118107122	0.000000	0.05858	0.000000	0.03702	0.365000	0.29674	-1.161000	0.03144	-1.043000	0.03258	0.350000	0.21858	ATC		0.443	KIAA1210-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371251.2	NM_020721		G	118223094	A	G	118223094	3	3	593	1	0	0	0	0	1	0	0	0	8221	333	12	3	3046	3	KIAA1210	23	118223094	Missense_Mutation	SNP	A	TCGA-G7-6797-01A-11D-1961-08	491591	118223094	37047466	81	35404										
PLXNA3	55558	ucsc.edu	37	chrX	153696321	153696321	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0246913580246914	2	1	0.399013499480789	0.478816199376947	0.342011570983534	1	1	0	gatggacaacctggagtcccGtgtggccctggagtgcaagg	16	10	0	0			TCGA-G7-6797-01A-11D-1961-08	TCGA-G7-6797-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b1bd2e14-32b6-4c57-bad1-59c0591876c2	5df531ff-b58f-4f9b-8103-b154da29a87c	g.chrX:153696321G>A	ENST00000369682.3	+	21	3972	c.3797G>A	c.(3796-3798)cGt>cAt	p.R1266H		NM_017514.3	NP_059984.3	P51805	PLXA3_HUMAN	plexin A3	1266					axon guidance (GO:0007411)|branchiomotor neuron axon guidance (GO:0021785)|facial nerve structural organization (GO:0021612)|hippocampus development (GO:0021766)|multicellular organismal development (GO:0007275)|negative chemotaxis (GO:0050919)|negative regulation of axon extension involved in axon guidance (GO:0048843)|positive regulation of cytoskeleton organization (GO:0051495)|pyramidal neuron development (GO:0021860)|semaphorin-plexin signaling pathway (GO:0071526)|semaphorin-plexin signaling pathway involved in axon guidance (GO:1902287)|trigeminal nerve structural organization (GO:0021637)	integral component of membrane (GO:0016021)|intracellular (GO:0005622)|membrane (GO:0016020)|plasma membrane (GO:0005886)|semaphorin receptor complex (GO:0002116)	semaphorin receptor activity (GO:0017154)|transmembrane signaling receptor activity (GO:0004888)			breast(2)|central_nervous_system(2)|cervix(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(26)|ovary(2)|prostate(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	48	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)					CTGGAGTCCCGTGTGGCCCTG	0.652																																																0													69	62	64					X																	153696321		2203	4300	6503	SO:0001583	missense	55558			X74609	CCDS14752.1	Xq28	2008-02-05			ENSG00000130827	ENSG00000130827		"Plexins"	9101	protein-coding gene	gene with protein product		300022		PLXN4		8248200, 8733135	Standard	NM_017514		Approved	SEX, XAP-6, 6.3, Plxn3	uc004flm.3	P51805	OTTHUMG00000033290	ENST00000369682.3:c.3797G>A	X.37:g.153696321G>A	ENSP00000358696:p.Arg1266His	Somatic		WXS	Illumina HiSeq		Q5HY36	Missense_Mutation	SNP	ENST00000369682.3	37	CCDS14752.1	.	.	.	.	.	.	.	.	.	.	G	19.36	3.812722	0.70912	.	.	ENSG00000130827	ENST00000369682	T	0.01051	5.4	4.57	4.57	0.56435	.	0.000000	0.85682	D	0.000000	T	0.06872	0.0175	M	0.79258	2.445	0.80722	D	1	D	0.89917	1.0	D	0.74348	0.983	T	0.04268	-1.0964	10	0.87932	D	0	.	15.5445	0.76086	0.0:0.0:1.0:0.0	.	1266	P51805	PLXA3_HUMAN	H	1266	ENSP00000358696:R1266H	ENSP00000358696:R1266H	R	+	2	0	PLXNA3	153349515	1.000000	0.71417	0.996000	0.52242	0.457000	0.32468	9.508000	0.98000	1.998000	0.58463	0.436000	0.28706	CGT		0.652	PLXNA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000081634.1	NM_017514		A	153696321	G	A	153696321	3	1	593	1	0	0	0	0	1	0	0	0	12128	1145	40	1	3875	1	PLXNA3	23	153696321	Missense_Mutation	SNP	G	TCGA-G7-6797-01A-11D-1961-08	35473227	153696321	1574239	82	35405										
C1orf173	127254	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	75114999	75114999	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	ctattatatgcagcaagtaaCctaaaatacaaaaataaaac	3	7	0	0			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr1:75114999C>A	ENST00000326665.5	-	2	242	c.24G>T	c.(22-24)ggG>ggT	p.G8G		NM_001002912.4	NP_001002912.4	Q5RHP9	ERIC3_HUMAN		8										NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(23)|lung(123)|ovary(3)|prostate(10)|skin(10)|stomach(1)|upper_aerodigestive_tract(5)	184						CAGCAAGTAACCTAAAATACA	0.353																																																0													71	72	72					1																	75114999		2203	4300	6503	SO:0001630	splice_region_variant	127254																														ENST00000326665.5:c.24-1G>T	1.37:g.75114999C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q68DL8|Q6GMR8|Q6ZSF9|Q8ND41	Silent	SNP	ENST00000326665.5	37	CCDS30755.1																																																																																				0.353	C1orf173-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026516.1		Silent	A	75114999	C	A	75114999	5	1	594	1	0	0	0	0	0	0	1	0	2016	521	18	4	4620	4	C1orf173	1	75114999	Splice_Site	SNP	C	TCGA-G7-7501-01A-11D-2201-08		75114999	174135622	1	35406										
INTS3	65123	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	153736638	153736638	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	tctgtccttgcttcctgcctAcaggagctcttcaaggccca	8	15	3	0			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr1:153736638A>G	ENST00000318967.2	+	18	2434	c.1866A>G	c.(1864-1866)ctA>ctG	p.L622L	INTS3_ENST00000435409.2_Silent_p.L622L|INTS3_ENST00000512605.1_Silent_p.L416L|INTS3_ENST00000456435.1_Silent_p.L416L|INTS3_ENST00000476843.1_3'UTR	NM_023015.3	NP_075391.3	Q68E01	INT3_HUMAN	integrator complex subunit 3	623					cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|mitotic cell cycle checkpoint (GO:0007093)|response to ionizing radiation (GO:0010212)|snRNA processing (GO:0016180)	integrator complex (GO:0032039)|nucleus (GO:0005634)|SOSS complex (GO:0070876)				breast(1)|cervix(4)|endometrium(10)|kidney(1)|large_intestine(6)|lung(9)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	38	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)			CTTCCTGCCTACAGGAGCTCT	0.572																																																0													131	122	125					1																	153736638		2203	4300	6503	SO:0001819	synonymous_variant	65123			BX640950	CCDS1052.1	1q21.3	2012-03-16	2006-03-15	2006-03-15	ENSG00000143624	ENSG00000143624			26153	protein-coding gene	gene with protein product	"sensor of single-strand DNA complex subunit A"	611347	"chromosome 1 open reading frame 60"	C1orf60		16239144	Standard	NM_023015		Approved	FLJ21919, INT3, SOSS-A	uc001fct.3	Q68E01	OTTHUMG00000037089	ENST00000318967.2:c.1866A>G	1.37:g.153736638A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1W0|B4DQC8|B4E3U9|D3DV57|Q4G0E5|Q5VUQ5|Q5VUQ6|Q5VUR0|Q5VUR1|Q68DJ1|Q69YR5|Q6AI57|Q6DKG7|Q6MZQ4|Q6MZZ9|Q8NC46|Q8TB23|Q9H6S9	Silent	SNP	ENST00000318967.2	37	CCDS1052.1																																																																																				0.572	INTS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090045.2	NM_023015		G	153736638	A	G	153736638	2	3	594	1	0	0	0	0	0	0	0	1	7786	378	14	3		3	INTS3	1	153736638	Silent	SNP	A	TCGA-G7-7501-01A-11D-2201-08	78621639	153736638	95513983	2	35407										
DCAF6	55827	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr1	167962583	167962583	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	aagatggtcaagagattctcGttagttactcttcagattac	8	7	4	3			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr1:167962583G>A	ENST00000312263.6	+	7	1012	c.808G>A	c.(808-810)Gtt>Att	p.V270I	DCAF6_ENST00000367840.3_Missense_Mutation_p.V270I|DCAF6_ENST00000367843.3_Missense_Mutation_p.V270I|DCAF6_ENST00000432587.2_Missense_Mutation_p.V239I	NM_001017977.2	NP_001017977.1	Q58WW2	DCAF6_HUMAN	DDB1 and CUL4 associated factor 6	270					positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein ubiquitination (GO:0016567)	Cul4-RING E3 ubiquitin ligase complex (GO:0080008)|nucleus (GO:0005634)	ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(8)|lung(10)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	36						AGAGATTCTCGTTAGTTACTC	0.408																																																0													107	102	104					1																	167962583		2203	4300	6503	SO:0001583	missense	55827			AL136738	CCDS1267.2, CCDS30933.1, CCDS55657.1, CCDS55658.1	1q23.3	2013-01-09	2009-07-17	2009-07-17	ENSG00000143164	ENSG00000143164		"WD repeat domain containing", "DDB1 and CUL4 associated factors"	30002	protein-coding gene	gene with protein product		610494	"IQ motif and WD repeats 1"	IQWD1		12032826	Standard	NM_018442		Approved	PC326	uc001gex.3	Q58WW2	OTTHUMG00000034572	ENST00000312263.6:c.808G>A	1.37:g.167962583G>A	ENSP00000311949:p.Val270Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A2A295|B4DNB8|Q7L8I0|Q8IXH3|Q8TB19	Missense_Mutation	SNP	ENST00000312263.6	37	CCDS30933.1	.	.	.	.	.	.	.	.	.	.	G	23.6	4.439538	0.83885	.	.	ENSG00000143164	ENST00000367843;ENST00000432587;ENST00000312263;ENST00000367840	D;D;D;D	0.81659	-1.52;-1.52;-1.52;-1.52	5.1	5.1	0.69264	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);	0.000000	0.85682	D	0.000000	D	0.86777	0.6014	M	0.61703	1.905	0.43164	D	0.994955	D;D;D;D	0.89917	0.999;0.999;1.0;0.999	D;D;D;D	0.80764	0.972;0.991;0.969;0.994	D	0.86770	0.1972	9	0.54805	T	0.06	.	18.9505	0.92640	0.0:0.0:1.0:0.0	.	239;270;270;270	B4DNB8;Q58WW2-3;Q58WW2;Q58WW2-2	.;.;DCAF6_HUMAN;.	I	270;239;270;270	ENSP00000356817:V270I;ENSP00000396238:V239I;ENSP00000311949:V270I;ENSP00000356814:V270I	ENSP00000311949:V270I	V	+	1	0	DCAF6	166229207	1.000000	0.71417	0.986000	0.45419	0.984000	0.73092	9.119000	0.94362	2.547000	0.85894	0.454000	0.30748	GTT		0.408	DCAF6-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000083661.2	NM_018442		A	167962583	G	A	167962583	3	1	594	1	0	0	0	0	1	0	0	0	4276	1145	40	1	834	1	DCAF6	1	167962583	Missense_Mutation	SNP	G	TCGA-G7-7501-01A-11D-2201-08	14225945	167962583	81288038	3	35408										
FAIM3	9214	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	207085119	207085119	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	tggttgtagctgggcgtctgGggcttgagcagcccctccag	16	11	1	1			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr1:207085119G>C	ENST00000367091.3	-	4	809	c.666C>G	c.(664-666)ccC>ccG	p.P222P	FAIM3_ENST00000420007.2_Silent_p.P222P|FAIM3_ENST00000528654.1_Intron|FAIM3_ENST00000442471.2_Silent_p.P110P	NM_005449.4	NP_005440.1	O60667	FAIM3_HUMAN	Fas apoptotic inhibitory molecule 3	222					cellular defense response (GO:0006968)|immune system process (GO:0002376)|negative regulation of apoptotic process (GO:0043066)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)				breast(2)|central_nervous_system(1)|endometrium(2)|large_intestine(3)|lung(5)|skin(1)|upper_aerodigestive_tract(1)	15	Breast(84;0.201)					TGGGCGTCTGGGGCTTGAGCA	0.542											OREG0014185	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													92	91	91					1																	207085119		2203	4300	6503	SO:0001819	synonymous_variant	9214			AF057557	CCDS1473.1, CCDS44304.1	1q32.1	2013-01-11			ENSG00000162894	ENSG00000162894		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	14315	protein-coding gene	gene with protein product		606015				9586636, 1563211	Standard	NM_005449		Approved	TOSO	uc001hey.3	O60667	OTTHUMG00000036457	ENST00000367091.3:c.666C>G	1.37:g.207085119G>C		Somatic	2164	WXS	Illumina HiSeq	Phase_I	A8K7J2|B7Z6Z0|D9MWM3	Silent	SNP	ENST00000367091.3	37	CCDS1473.1																																																																																				0.542	FAIM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088677.1	NM_005449		C	207085119	G	C	207085119	2	2	594	1	0	0	0	0	0	0	0	1	5381	1219	43	4		4	FAIM3	1	207085119	Silent	SNP	G	TCGA-G7-7501-01A-11D-2201-08	39122536	207085119	42165502	4	35409										
PIGR	5284	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	207105817	207105817	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	tcaccgacgttcttcctgtgCcgggctctggccacccccac	9	19	3	0			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr1:207105817C>G	ENST00000356495.4	-	8	2175	c.1992G>C	c.(1990-1992)cgG>cgC	p.R664R	PIGR_ENST00000487208.1_5'Flank	NM_002644.3	NP_002635.2	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor	664					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc receptor signaling pathway (GO:0038093)|immunoglobulin transcytosis in epithelial cells mediated by polymeric immunoglobulin receptor (GO:0002415)|receptor clustering (GO:0043113)|retina homeostasis (GO:0001895)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	polymeric immunoglobulin receptor activity (GO:0001792)			central_nervous_system(2)|endometrium(5)|kidney(3)|large_intestine(7)|lung(15)|ovary(1)|pancreas(1)|prostate(1)|skin(4)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	45						TCTTCCTGTGCCGGGCTCTGG	0.647																																																0													72	75	74					1																	207105817		2203	4300	6503	SO:0001819	synonymous_variant	5284				CCDS1474.1	1q31-q41	2013-01-11			ENSG00000162896	ENSG00000162896		"Immunoglobulin superfamily / V-set domain containing"	8968	protein-coding gene	gene with protein product		173880					Standard	NM_002644		Approved		uc001hez.3	P01833	OTTHUMG00000036581	ENST00000356495.4:c.1992G>C	1.37:g.207105817C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q68D81|Q8IZY7	Silent	SNP	ENST00000356495.4	37	CCDS1474.1																																																																																				0.647	PIGR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088975.1	NM_002644		G	207105817	C	G	207105817	2	3	594	1	0	0	0	0	0	0	0	1	11904	726	26	4		4	PIGR	1	207105817	Silent	SNP	C	TCGA-G7-7501-01A-11D-2201-08	20698	207105817	42144804	5	35410										
PLEKHB2	55041	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	131897791	131897791	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	cgtacccgccaggaactcaaGttgtctacgctgcgaatggg	12	12	2	0	rs143964327		TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr2:131897791G>C	ENST00000403716.1	+	7	1035	c.475G>C	c.(475-477)Gtt>Ctt	p.V159L	PLEKHB2_ENST00000409612.1_Missense_Mutation_p.V159L|PLEKHB2_ENST00000234115.6_Missense_Mutation_p.V158L|PLEKHB2_ENST00000404460.1_Intron|PLEKHB2_ENST00000409158.1_Missense_Mutation_p.V167L|PLEKHB2_ENST00000303908.3_Intron|PLEKHB2_ENST00000409279.1_Missense_Mutation_p.V159L|PLEKHB2_ENST00000438882.2_Intron|PLEKHB2_ENST00000439822.2_Missense_Mutation_p.K114N|PLEKHB2_ENST00000538982.1_Missense_Mutation_p.V111L	NM_001100623.1|NM_001267062.1|NM_001267063.1|NM_001267064.1|NM_001267065.1|NM_001267066.1|NM_017958.2	NP_001094093.1|NP_001253991.1|NP_001253992.1|NP_001253993.1|NP_001253994.1|NP_001253995.1|NP_060428.2	Q96CS7	PKHB2_HUMAN	pleckstrin homology domain containing, family B (evectins) member 2	159						endosome (GO:0005768)|membrane (GO:0016020)				large_intestine(1)|lung(3)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.0828)		AGGAACTCAAGTTGTCTACGC	0.512																																																0								G	LEU/VAL,LEU/VAL	1,4405	4.2+/-10.8	0,1,2202	62	57	59		475,472	3.9	1	2	dbSNP_134	59	0,8600		0,0,4300	no	missense,missense	PLEKHB2	NM_001100623.1,NM_017958.2	32,32	0,1,6502	CC,CG,GG		0.0,0.0227,0.0077	possibly-damaging,possibly-damaging	159/223,158/222	131897791	1,13005	2203	4300	6503	SO:0001583	missense	55041				CCDS2166.1, CCDS46413.1, CCDS58729.1, CCDS58730.1, CCDS74576.1, CCDS74577.1	2q22.1	2013-01-10			ENSG00000115762	ENSG00000115762		"Pleckstrin homology (PH) domain containing"	19236	protein-coding gene	gene with protein product						10200314	Standard	NM_017958		Approved	EVT2, FLJ20783	uc031rpd.1	Q96CS7	OTTHUMG00000131656	ENST00000403716.1:c.475G>C	2.37:g.131897791G>C	ENSP00000385892:p.Val159Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DF08|B4DZ66|B8ZZN1|Q53FF1|Q53TH7|Q86W37|Q9BV75|Q9NWK1	Missense_Mutation	SNP	ENST00000403716.1	37	CCDS46413.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	16.16|16.16	3.043536|3.043536	0.55003|0.55003	2.27E-4|2.27E-4	0.0|0.0	ENSG00000115762|ENSG00000115762	ENST00000439822|ENST00000409158;ENST00000403716;ENST00000234115;ENST00000538982;ENST00000409612;ENST00000409279	.|.	.|.	.|.	4.81|4.81	3.91|3.91	0.45181|0.45181	.|.	.|.	.|.	.|.	.|.	T|T	0.61236|0.61236	0.2331|0.2331	M|M	0.76328|0.76328	2.33|2.33	0.43574|0.43574	D|D	0.995904|0.995904	B|B;B;B;B	0.30482|0.21905	0.281|0.036;0.061;0.036;0.062	B|B;B;B;B	0.32624|0.26094	0.149|0.03;0.066;0.03;0.03	T|T	0.56757|0.56757	-0.7926|-0.7926	8|8	0.17369|0.25106	T|T	0.5|0.35	.|.	12.1112|12.1112	0.53840|0.53840	0.0:0.0:0.8269:0.1731|0.0:0.0:0.8269:0.1731	.|.	114|158;158;159;167	B4DZ66|Q53FF1;Q96CS7-3;Q96CS7;B8ZZN1	.|.;.;PKHB2_HUMAN;.	N|L	114|167;159;158;111;159;159	.|.	ENSP00000389629:K114N|ENSP00000234115:V158L	K|V	+|+	3|1	2|0	PLEKHB2|PLEKHB2	131614261|131614261	0.999000|0.999000	0.42202|0.42202	0.982000|0.982000	0.44146|0.44146	0.843000|0.843000	0.47879|0.47879	1.275000|1.275000	0.33144|0.33144	0.993000|0.993000	0.38866|0.38866	0.650000|0.650000	0.86243|0.86243	AAG|GTT		0.512	PLEKHB2-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000331304.2	NM_017958		C	131897791	G	C	131897791	3	2	594	1	0	0	0	0	1	0	0	0	12072	1029	36	4	497	4	PLEKHB2	2	131897791	Missense_Mutation	SNP	G	TCGA-G7-7501-01A-11D-2201-08		131897791	111301582	6	35411										
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	179567316	179567316	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	ggcatcatcaaaggacacttCacactcaaaggtggcagact	9	11	4	1			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr2:179567316C>A	ENST00000591111.1	-	105	29571	c.29347G>T	c.(29347-29349)Gaa>Taa	p.E9783*	TTN-AS1_ENST00000589830.1_RNA|TTN-AS1_ENST00000431752.1_RNA|TTN-AS1_ENST00000585451.1_RNA|TTN_ENST00000342992.6_Nonsense_Mutation_p.E8856*|TTN_ENST00000460472.2_Intron|TTN-AS1_ENST00000592630.1_RNA|TTN_ENST00000359218.5_Intron|TTN_ENST00000342175.6_Intron|TTN_ENST00000589042.1_Nonsense_Mutation_p.E10100*			Q8WZ42	TITIN_HUMAN	titin	13861	Ig-like 79.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AAGGACACTTCACACTCAAAG	0.438																																																0													177	174	175					2																	179567316		2019	4185	6204	SO:0001587	stop_gained	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.29347G>T	2.37:g.179567316C>A	ENSP00000465570:p.Glu9783*	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Nonsense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	C	60	45.686615	0.99987	.	.	ENSG00000155657	ENST00000342992	.	.	.	5.72	5.72	0.89469	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	.	19.8805	0.96895	0.0:1.0:0.0:0.0	.	.	.	.	X	8856	.	ENSP00000343764:E8856X	E	-	1	0	TTN	179275561	1.000000	0.71417	0.986000	0.45419	0.981000	0.71138	7.818000	0.86416	2.704000	0.92352	0.655000	0.94253	GAA		0.438	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		A	179567316	C	A	179567316	4	1	594	1	0	0	0	0	0	1	0	0	16747	835	29	4	74255	4	TTN	2	179567316	Nonsense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08	47669525	179567316	63632057	7	35412										
SLC40A1	30061	broad.mit.edu	37	chr2	190439935	190439935	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	gtcaccgatgatggctcccaGgaccagaacagaccctgcca	10	15	1	3			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr2:190439935G>C	ENST00000261024.2	-	3	649	c.223C>G	c.(223-225)Ctg>Gtg	p.L75V	SLC40A1_ENST00000418714.1_5'UTR	NM_014585.5	NP_055400.1	Q9NP59	S40A1_HUMAN	solute carrier family 40 (iron-regulated transporter), member 1	75					anatomical structure morphogenesis (GO:0009653)|cellular iron ion homeostasis (GO:0006879)|endothelium development (GO:0003158)|iron ion transmembrane transport (GO:0034755)|lymphocyte homeostasis (GO:0002260)|multicellular organismal iron ion homeostasis (GO:0060586)|negative regulation of apoptotic process (GO:0043066)|regulation of transcription from RNA polymerase II promoter in response to iron (GO:0034395)|spleen trabecula formation (GO:0060345)|transmembrane transport (GO:0055085)	basolateral plasma membrane (GO:0016323)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|multivesicular body (GO:0005771)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)	iron ion transmembrane transporter activity (GO:0005381)			endometrium(3)|large_intestine(1)|lung(6)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	14			OV - Ovarian serous cystadenocarcinoma(117;0.000917)|Epithelial(96;0.014)|all cancers(119;0.0491)			ATGGCTCCCAGGACCAGAACA	0.498																																																0													201	202	202					2																	190439935		2203	4300	6503	SO:0001583	missense	30061			AF215636	CCDS2299.1	2q32	2014-09-17	2003-06-04	2003-06-05	ENSG00000138449	ENSG00000138449		"Solute carriers"	10909	protein-coding gene	gene with protein product	"ferroportin 1"	604653	"solute carrier family 11 (proton-coupled divalent metal ion transporters), member 3"	SLC11A3		10828623	Standard	NM_014585		Approved	MTP1, IREG1, FPN1, HFE4	uc002uqp.4	Q9NP59	OTTHUMG00000132662	ENST00000261024.2:c.223C>G	2.37:g.190439935G>C	ENSP00000261024:p.Leu75Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FI62|Q7Z4F8|Q8IVB2|Q9NRL0	Missense_Mutation	SNP	ENST00000261024.2	37	CCDS2299.1	.	.	.	.	.	.	.	.	.	.	G	19.74	3.883544	0.72410	.	.	ENSG00000138449	ENST00000261024;ENST00000427241	T;T	0.81247	-1.47;-1.43	5.37	2.54	0.30619	Major facilitator superfamily domain, general substrate transporter (1);	0.074984	0.56097	D	0.000035	D	0.83862	0.5346	L	0.56769	1.78	0.58432	D	0.999994	D;D	0.69078	0.993;0.997	D;D	0.72625	0.951;0.978	T	0.78735	-0.2088	10	0.25751	T	0.34	-10.9426	7.7635	0.28965	0.1396:0.0:0.7272:0.1333	.	75;75	A8K7Y1;Q9NP59	.;S40A1_HUMAN	V	75	ENSP00000261024:L75V;ENSP00000390005:L75V	ENSP00000261024:L75V	L	-	1	2	SLC40A1	190148180	1.000000	0.71417	0.996000	0.52242	0.988000	0.76386	2.679000	0.46909	0.377000	0.24735	0.650000	0.86243	CTG		0.498	SLC40A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255916.2			C	190439935	G	C	190439935	3	2	594	1	0	0	0	0	1	0	0	0	14641	991	35	4	1516	4	SLC40A1	2	190439935	Missense_Mutation	SNP	G	TCGA-G7-7501-01A-11D-2201-08	10872619	190439935	52759438	8	35413										
HSPE1	3336	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr2	198365946	198365946	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	aacagtagtcgctgttggatCgggttctaaaggaaaggtaa	13	5	1	0			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr2:198365946C>G	ENST00000233893.5	+	2	595	c.152C>G	c.(151-153)tCg>tGg	p.S51W	HSPE1_ENST00000465573.1_Intron|HSPE1_ENST00000409468.1_Missense_Mutation_p.S51W|HSPD1_ENST00000345042.2_5'Flank|HSPD1_ENST00000388968.3_5'Flank|HSPD1_ENST00000544407.1_5'Flank|HSPE1-MOB4_ENST00000604458.1_Missense_Mutation_p.S51W|HSPE1_ENST00000409729.1_Intron	NM_002157.2	NP_002148.1	P61604	CH10_HUMAN	heat shock 10kDa protein 1	51					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|osteoblast differentiation (GO:0001649)|protein folding (GO:0006457)|response to unfolded protein (GO:0006986)	extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|poly(A) RNA binding (GO:0044822)|unfolded protein binding (GO:0051082)			lung(1)	1			Epithelial(96;0.225)			GCTGTTGGATCGGGTTCTAAA	0.408																																																0													53	55	54					2																	198365946		2203	4300	6503	SO:0001583	missense	3336			AF109872	CCDS2320.1	2q33.1	2013-10-17	2013-10-17		ENSG00000115541	ENSG00000115541		"Heat Shock Proteins / Chaperonins"	5269	protein-coding gene	gene with protein product	"chaperonin 10"	600141	"heat shock 10kD protein 1 (chaperonin 10)"			7914093, 7698325	Standard	NM_002157		Approved	CPN10, GROES		P61604	OTTHUMG00000132749	ENST00000233893.5:c.152C>G	2.37:g.198365946C>G	ENSP00000233893:p.Ser51Trp	Somatic		WXS	Illumina HiSeq	Phase_I	O95421|Q04984|Q53X54|Q9UDH0	Missense_Mutation	SNP	ENST00000233893.5	37	CCDS2320.1	.	.	.	.	.	.	.	.	.	.	C	18.85	3.710542	0.68730	.	.	ENSG00000115541	ENST00000233893;ENST00000409468	.	.	.	5.37	5.37	0.77165	GroES-like (1);	0.221653	0.39475	U	0.001344	T	0.80813	0.4695	M	0.89214	3.015	0.58432	D	0.999999	D	0.60575	0.988	D	0.65573	0.936	D	0.84237	0.0470	9	0.72032	D	0.01	-11.1967	14.0187	0.64541	0.1511:0.8489:0.0:0.0	.	51	P61604	CH10_HUMAN	W	51	.	ENSP00000233893:S51W	S	+	2	0	HSPE1	198074191	0.720000	0.27996	0.637000	0.29366	0.705000	0.40729	3.596000	0.54024	2.530000	0.85305	0.557000	0.71058	TCG		0.408	HSPE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256112.1	NM_002157		G	198365946	C	G	198365946	3	3	594	1	0	0	0	0	1	0	0	0	7436	893	31	4	158	4	HSPE1	2	198365946	Missense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08	7926011	198365946	44833427	9	35414										
PLCD1	5333	ucsc.edu;bcgsc.ca	37	chr3	38050062	38050062	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	cagcacgtacccacaggcccCgttgtcctggaagcggccct	11	17	0	0	rs369003040		TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr3:38050062C>A	ENST00000334661.4	-	12	2011	c.1789G>T	c.(1789-1791)Ggg>Tgg	p.G597W	PLCD1_ENST00000479619.1_5'Flank|PLCD1_ENST00000463876.1_Missense_Mutation_p.G618W	NM_006225.3	NP_006216.2	P51178	PLCD1_HUMAN	phospholipase C, delta 1	597	PI-PLC Y-box. {ECO:0000255|PROSITE- ProRule:PRU00271}.				angiogenesis (GO:0001525)|inositol phosphate metabolic process (GO:0043647)|intracellular signal transduction (GO:0035556)|labyrinthine layer blood vessel development (GO:0060716)|lipid catabolic process (GO:0016042)|phospholipid metabolic process (GO:0006644)|regulation of cell proliferation (GO:0042127)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|GTPase activating protein binding (GO:0032794)|phosphatidic acid binding (GO:0070300)|phosphatidylinositol phosphate binding (GO:1901981)|phosphatidylinositol phospholipase C activity (GO:0004435)|phosphatidylserine binding (GO:0001786)|signal transducer activity (GO:0004871)	p.G618W(1)|p.G597W(1)		breast(1)|central_nervous_system(2)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(6)|lung(6)|prostate(1)|skin(1)	24				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		CCACAGGCCCCGTTGTCCTGG	0.662																																																2	Substitution - Missense(2)	lung(2)											61	64	63					3																	38050062		2203	4300	6503	SO:0001583	missense	5333				CCDS2671.1, CCDS46793.1	3p22-p21.3	2013-01-10			ENSG00000187091	ENSG00000187091	3.1.4.11	"EF-hand domain containing"	9060	protein-coding gene	gene with protein product		602142				9345909	Standard	NM_001130964		Approved		uc003chm.3	P51178	OTTHUMG00000130813	ENST00000334661.4:c.1789G>T	3.37:g.38050062C>A	ENSP00000335600:p.Gly597Trp	Somatic		WXS	Illumina HiSeq		B3KR14|Q86VN8	Missense_Mutation	SNP	ENST00000334661.4	37	CCDS2671.1	.	.	.	.	.	.	.	.	.	.	C	27.2	4.811832	0.90707	.	.	ENSG00000187091	ENST00000463876;ENST00000334661	T;T	0.71103	-0.54;-0.54	4.71	4.71	0.59529	PLC-like phosphodiesterase, TIM beta/alpha-barrel domain (2);Phospholipase C, phosphatidylinositol-specific, Y domain (3);	0.000000	0.85682	D	0.000000	D	0.90868	0.7131	H	0.98996	4.395	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.94790	0.7961	10	0.87932	D	0	.	17.6247	0.88091	0.0:1.0:0.0:0.0	.	597;618	P51178;B3KR14	PLCD1_HUMAN;.	W	618;597	ENSP00000430344:G618W;ENSP00000335600:G597W	ENSP00000335600:G597W	G	-	1	0	PLCD1	38025066	1.000000	0.71417	0.990000	0.47175	0.980000	0.70556	7.770000	0.85390	2.358000	0.79984	0.561000	0.74099	GGG		0.662	PLCD1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000253359.2			A	38050062	C	A	38050062	3	1	594	1	0	0	0	0	1	0	0	0	12038	652	23	4	497	4	PLCD1	3	38050062	Missense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08		38050062	159972368	10	35415										
DNASE1L3	1776	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	58179114	58179114	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	tttctggaagtcaaaaacacTgtttgacttgggaacaacag	9	7	2	1			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr3:58179114T>C	ENST00000394549.2	-	7	1073	c.757A>G	c.(757-759)Agt>Ggt	p.S253G	DNASE1L3_ENST00000318316.3_Missense_Mutation_p.S253G|DNASE1L3_ENST00000486455.1_Missense_Mutation_p.S223G|DNASE1L3_ENST00000483681.1_Missense_Mutation_p.S253G	NM_004944.3	NP_004935.1	Q13609	DNSL3_HUMAN	deoxyribonuclease I-like 3	253					apoptotic DNA fragmentation (GO:0006309)|developmental programmed cell death (GO:0010623)|DNA metabolic process (GO:0006259)	nucleus (GO:0005634)	calcium ion binding (GO:0005509)|deoxyribonuclease activity (GO:0004536)|DNA binding (GO:0003677)|endodeoxyribonuclease activity, producing 5'-phosphomonoesters (GO:0016888)			breast(2)|large_intestine(4)|lung(6)	12				BRCA - Breast invasive adenocarcinoma(55;0.00021)|KIRC - Kidney renal clear cell carcinoma(284;0.0445)|Kidney(284;0.0556)|OV - Ovarian serous cystadenocarcinoma(275;0.202)		TCAAAAACACTGTTTGACTTG	0.433																																					Esophageal Squamous(96;1069 1424 4841 43466 52325)											0													111	99	103					3																	58179114		2203	4300	6503	SO:0001583	missense	1776			AF047354	CCDS2886.1, CCDS58836.1	3p14.3	2008-05-15			ENSG00000163687	ENSG00000163687			2959	protein-coding gene	gene with protein product	"DNase gamma"	602244				9205125, 9714828, 14646506	Standard	NM_004944		Approved	DNAS1L3, LSD	uc003djo.2	Q13609	OTTHUMG00000159153	ENST00000394549.2:c.757A>G	3.37:g.58179114T>C	ENSP00000378053:p.Ser253Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8B1|B7Z707|O75803	Missense_Mutation	SNP	ENST00000394549.2	37	CCDS2886.1	.	.	.	.	.	.	.	.	.	.	T	10.36	1.327576	0.24080	.	.	ENSG00000163687	ENST00000486455;ENST00000450710;ENST00000318316;ENST00000483681;ENST00000394549	T;T;T;T	0.54071	0.59;0.59;0.59;0.59	5.7	-7.58	0.01313	Endonuclease/exonuclease/phosphatase (2);	1.174290	0.05847	N	0.620530	T	0.30324	0.0761	N	0.17723	0.515	0.09310	N	1	B;B;B	0.10296	0.001;0.003;0.001	B;B;B	0.09377	0.003;0.004;0.003	T	0.17684	-1.0361	10	0.21540	T	0.41	.	8.2569	0.31763	0.0:0.3088:0.2525:0.4387	.	223;253;253	B7Z707;E9PES0;Q13609	.;.;DNSL3_HUMAN	G	223;253;253;253;253	ENSP00000419052:S223G;ENSP00000316193:S253G;ENSP00000417047:S253G;ENSP00000378053:S253G	ENSP00000316193:S253G	S	-	1	0	DNASE1L3	58154154	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.785000	0.04628	-1.315000	0.02297	-0.290000	0.09829	AGT		0.433	DNASE1L3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353533.1	NM_004944		C	58179114	T	C	58179114	3	2	594	1	0	0	0	0	1	0	0	0	4665	1580	55	3	168	3	DNASE1L3	3	58179114	Missense_Mutation	SNP	T	TCGA-G7-7501-01A-11D-2201-08	20129052	58179114	139843316	11	35416										
PHOX2B	8929	hgsc.bcm.edu	37	chr4	41748007	41748007	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	ccagctgccgccgctgccgcTgccgccgccgccgctgccgc	13	23	0	0	rs17884724|rs17879189	byFrequency	TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr4:41748007T>G	ENST00000226382.2	-	3	1121	c.762A>C	c.(760-762)gcA>gcC	p.A254A	RP11-227F19.1_ENST00000508038.1_RNA	NM_003924.3	NP_003915.2	Q99453	PHX2B_HUMAN	paired-like homeobox 2b	254	Poly-Ala.		Missing. {ECO:0000269|PubMed:14566559}.		autonomic nervous system development (GO:0048483)|brainstem development (GO:0003360)|cell differentiation in hindbrain (GO:0021533)|cellular response to BMP stimulus (GO:0071773)|dopaminergic neuron differentiation (GO:0071542)|efferent axon development in a lateral line nerve (GO:0048894)|enteric nervous system development (GO:0048484)|glial cell differentiation (GO:0010001)|hindbrain tangential cell migration (GO:0021934)|inner ear development (GO:0048839)|medullary reticular formation development (GO:0021723)|negative regulation of cell cycle arrest (GO:0071157)|negative regulation of cell proliferation (GO:0008285)|negative regulation of neuron differentiation (GO:0045665)|neural crest cell migration involved in autonomic nervous system development (GO:1901166)|neuron migration (GO:0001764)|noradrenergic neuron development (GO:0003358)|noradrenergic neuron differentiation (GO:0003357)|parasympathetic nervous system development (GO:0048486)|positive regulation of G2/M transition of mitotic cell cycle (GO:0010971)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of gene expression (GO:0010468)|regulation of respiratory gaseous exchange by neurological system process (GO:0002087)|respiratory system development (GO:0060541)|retrotrapezoid nucleus neuron differentiation (GO:0061452)|skeletal muscle cell differentiation (GO:0035914)|sympathetic ganglion development (GO:0061549)|sympathetic nervous system development (GO:0048485)|transcription, DNA-templated (GO:0006351)	nuclear chromatin (GO:0000790)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)			autonomic_ganglia(7)|central_nervous_system(1)|endometrium(2)|large_intestine(5)|lung(11)|ovary(2)|skin(1)|urinary_tract(1)	30						ccgctgccgctgccgccgccg	0.816			"Mis, F"		neuroblastoma	neuroblastoma	congenital central hypoventilation syndrome		Neuroblastoma, Familial Clustering of;Congenital Central Hypoventilation Syndrome				C|||	273	0.0545128	0.093	0.0187	5008	,	,		3561	0.0992		0.008	False		,,,				2504	0.0297					yes	Rec	yes	familial neuroblastoma	4	4p12	8929	paired-like homeobox 2b	yes	O	0													2	3	3					4																	41748007		582	1627	2209	SO:0001819	synonymous_variant	8929	Familial Cancer Database	Familial Neuroblastoma;CCHS, Ondine Curse, incl. Ondine-Hirschsprung Disease	D82344	CCDS3463.1	4p13	2014-09-17	2003-02-10	2003-02-14	ENSG00000109132	ENSG00000109132		"Homeoboxes / PRD class"	9143	protein-coding gene	gene with protein product		603851	"paired mesoderm homeobox 2b"	PMX2B		9039501, 10395798	Standard	NM_003924		Approved	Phox2b, NBPhox	uc003gwf.4	Q99453	OTTHUMG00000099379	ENST00000226382.2:c.762A>C	4.37:g.41748007T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6PJD9	Silent	SNP	ENST00000226382.2	37	CCDS3463.1																																																																																				0.816	PHOX2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216832.2			G	41748007	T	G	41748007	2	3	594	1	0	0	0	0	0	0	0	1	11866	1567	55	5		5	PHOX2B	4	41748007	Silent	SNP	T	TCGA-G7-7501-01A-11D-2201-08		41748007	149406269	12	35417										
HERC3	8916	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	89575198	89575198	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	tttaatttattctagatcgaGaatctccatgccatgtaaaa	5	7	2	2	rs35418561		TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr4:89575198G>T	ENST00000402738.1	+	7	930	c.691G>T	c.(691-693)Gaa>Taa	p.E231*	HERC3_ENST00000407637.1_Nonsense_Mutation_p.E231*|HERC3_ENST00000264345.3_Nonsense_Mutation_p.E231*	NM_001271602.1|NM_014606.1	NP_001258531.1|NP_055421.1	Q15034	HERC3_HUMAN	HECT and RLD domain containing E3 ubiquitin protein ligase 3	231					protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasmic vesicle (GO:0031410)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(10)|lung(14)|prostate(2)|skin(2)	45				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		TCTAGATCGAGAATCTCCATG	0.368																																																0													87	88	88					4																	89575198		2203	4300	6503	SO:0001587	stop_gained	8916			D25215	CCDS34028.1	4q21	2012-02-23	2012-02-23		ENSG00000138641	ENSG00000138641			4876	protein-coding gene	gene with protein product		605200	"hect domain and RLD 3"			10702688	Standard	NM_014606		Approved	KIAA0032	uc003hrw.2	Q15034	OTTHUMG00000150436	ENST00000402738.1:c.691G>T	4.37:g.89575198G>T	ENSP00000385684:p.Glu231*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1S5|Q8IXX3	Nonsense_Mutation	SNP	ENST00000402738.1	37	CCDS34028.1	.	.	.	.	.	.	.	.	.	.	G	36	5.963882	0.97151	.	.	ENSG00000138641	ENST00000402738;ENST00000407637;ENST00000264345	.	.	.	5.12	4.24	0.50183	.	0.168861	0.52532	D	0.000072	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.12103	T	0.63	.	10.4986	0.44791	0.078:0.1468:0.7752:0.0	.	.	.	.	X	231	.	ENSP00000264345:E231X	E	+	1	0	HERC3	89794221	1.000000	0.71417	1.000000	0.80357	0.879000	0.50718	5.005000	0.63972	2.664000	0.90586	0.655000	0.94253	GAA		0.368	HERC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318081.2	NM_014606		T	89575198	G	T	89575198	4	4	594	1	0	0	0	0	0	1	0	0	7066	943	33	4	709	4	HERC3	4	89575198	Nonsense_Mutation	SNP	G	TCGA-G7-7501-01A-11D-2201-08	47827191	89575198	101579078	13	35418										
C4orf27	54969	ucsc.edu	37	chr4	170658832	170658832	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	atctgtttcagggagctctcGgtacccaacatcatttttat	7	10	4	0			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr4:170658832G>T	ENST00000393381.2	-	6	790	c.715C>A	c.(715-717)Cga>Aga	p.R239R		NM_017867.2	NP_060337.2	Q9NWY4	CD027_HUMAN	chromosome 4 open reading frame 27	239						nucleus (GO:0005634)				NS(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(4)|ovary(1)|pancreas(1)	12		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.018)|LUSC - Lung squamous cell carcinoma(193;0.116)		GGGAGCTCTCGGTACCCAACA	0.353																																																0													123	122	122					4																	170658832		2203	4300	6503	SO:0001819	synonymous_variant	54969			BC010367	CCDS3813.1	4q33	2011-01-25			ENSG00000056050	ENSG00000056050			26051	protein-coding gene	gene with protein product						11230166	Standard	NM_017867		Approved	FLJ20534	uc003isl.4	Q9NWY4	OTTHUMG00000160960	ENST00000393381.2:c.715C>A	4.37:g.170658832G>T		Somatic		WXS	Illumina HiSeq			Silent	SNP	ENST00000393381.2	37	CCDS3813.1																																																																																				0.353	C4orf27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363140.1	NM_017867		T	170658832	G	T	170658832	2	4	594	1	0	0	0	0	0	0	0	1	2260	1124	39	4		4	C4orf27	4	170658832	Silent	SNP	G	TCGA-G7-7501-01A-11D-2201-08	81083634	170658832	20495444	14	35419										
MYOZ3	91977	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	150050078	150050078	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	acctgggcaagaagctgagcGtgccccaggacctgatgatg	14	11	0	4	rs370373786		TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr5:150050078G>A	ENST00000297130.4	+	3	293	c.94G>A	c.(94-96)Gtg>Atg	p.V32M	MYOZ3_ENST00000517768.1_Missense_Mutation_p.V32M|CTC-345K18.2_ENST00000511626.2_RNA|MYOZ3_ENST00000520112.1_5'Flank	NM_001122853.2|NM_133371.4	NP_001116325.1|NP_588612.2			myozenin 3											large_intestine(2)|lung(1)|skin(2)	5		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GAAGCTGAGCGTGCCCCAGGA	0.612																																																0								G	MET/VAL,MET/VAL	1,4405	2.1+/-5.4	0,1,2202	50	39	43		94,94	2.9	1	5		43	0,8600		0,0,4300	no	missense,missense	MYOZ3	NM_001122853.1,NM_133371.3	21,21	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	possibly-damaging,possibly-damaging	32/252,32/252	150050078	1,13005	2203	4300	6503	SO:0001583	missense	91977			AF480443	CCDS4309.1	5q33.2	2008-07-18			ENSG00000164591	ENSG00000164591			18565	protein-coding gene	gene with protein product	"calsarcin 3", "FATZ related protein 3"	610735				11842093	Standard	NM_001122853		Approved	CS-3, CS3, FRP3	uc003lsr.3	Q8TDC0	OTTHUMG00000130077	ENST00000297130.4:c.94G>A	5.37:g.150050078G>A	ENSP00000297130:p.Val32Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000297130.4	37	CCDS4309.1	.	.	.	.	.	.	.	.	.	.	G	15.40	2.820957	0.50633	2.27E-4	0.0	ENSG00000164591	ENST00000517768;ENST00000297130	T;T	0.70516	-0.49;-0.49	4.74	2.91	0.33838	.	0.542979	0.16126	N	0.228410	T	0.67268	0.2875	M	0.75777	2.31	0.80722	D	1	P	0.51653	0.947	B	0.41946	0.371	T	0.69771	-0.5055	10	0.72032	D	0.01	-16.886	7.231	0.26043	0.277:0.0:0.723:0.0	.	32	Q8TDC0	MYOZ3_HUMAN	M	32	ENSP00000428815:V32M;ENSP00000297130:V32M	ENSP00000297130:V32M	V	+	1	0	MYOZ3	150030271	0.186000	0.23225	0.968000	0.41197	0.985000	0.73830	0.833000	0.27504	1.116000	0.41820	0.555000	0.69702	GTG		0.612	MYOZ3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252369.1	NM_001122853		A	150050078	G	A	150050078	3	1	594	1	0	0	0	0	1	0	0	0	10104	1145	40	1	100	1	MYOZ3	5	150050078	Missense_Mutation	SNP	G	TCGA-G7-7501-01A-11D-2201-08		150050078	30865182	15	35420										
HLA-DPB1	3115	hgsc.bcm.edu;broad.mit.edu	37	chr6	33048613	33048613	+	Frame_Shift_Del	DEL	A	A	-													0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	ggcctgctgcggagtactggAacagccagaaggacatcctg					rs41550319		TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr6:33048613delA	ENST00000418931.2	+	2	381	c.265delA	c.(265-267)aacfs	p.N89fs	HLA-DPB1_ENST00000471184.1_3'UTR|HLA-DPA1_ENST00000419277.1_5'Flank|HLA-DPB1_ENST00000535465.1_Frame_Shift_Del_p.N89fs	NM_002121.5	NP_002112.3	P04440	DPB1_HUMAN	major histocompatibility complex, class II, DP beta 1	89	Beta-1.		N -> H (in allele DPB1*02:03; dbSNP:rs41550319).		antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of T cell activation (GO:0050870)|positive regulation of T cell proliferation (GO:0042102)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	cell surface (GO:0009986)|clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|endosome (GO:0005768)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)	peptide antigen binding (GO:0042605)			cervix(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(3)|ovary(1)|skin(1)	11						GGAGTACTGGAACAGCCAGAA	0.657																																																0													54	55	54					6																	33048613		1511	2709	4220	SO:0001589	frameshift_variant	3115				CCDS4765.1	6p21.3	2013-01-11			ENSG00000223865	ENSG00000223865		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4940	protein-coding gene	gene with protein product		142858		HLA-DP1B			Standard	NM_002121		Approved		uc003ocu.2	P04440	OTTHUMG00000031076	ENST00000418931.2:c.265delA	6.37:g.33048613delA	ENSP00000408146:p.Asn89fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0PFJ7|A5I886|A8YPB3|B5U8B4|B7VF80|B7VF87|B8ZX68|B8ZYT0|B9W5S8|B9W6F7|B9W6F9|C0MPP5|C0MPQ2|C0MPQ3|C0MPQ5|C0MPQ6|C0MPQ7|C4R9J5|C5IZL1|O00259|O19698|O19700|O19702|O19749|O46884|O77952|O98215|O98216|O98217|O98218|O98219|O98222|O98223|P01916|P04232|P13763|P79493|P79608|Q0P0L4|Q0ZFN3|Q14279|Q27S71|Q29682|Q29684|Q29698|Q29714|Q29775|Q29776|Q29778|Q29779|Q29781|Q29827|Q29828|Q29879|Q29880|Q29898|Q29977|Q2MGW3|Q30015|Q30031|Q30032|Q30033|Q30034|Q30050|Q30051|Q30052|Q30053|Q30054|Q30055|Q30174|Q4GY31|Q4JHD8|Q5ENE0|Q5ENE1|Q5ENW3|Q5EP46|Q5EP47|Q5EP49|Q5EP51|Q5EP52|Q5EP53|Q5EP56|Q5I4H8|Q5I4H9|Q5ISH4|Q5ISH5|Q5SQ73|Q5STP2|Q5YLA6|Q6IVX1|Q6LBX2|Q6LBX3|Q6LBX4|Q6LBX5|Q6LBX6|Q6LBX7|Q6PWX6|Q6TAS4|Q714U1|Q714U2|Q7YQ10|Q860Z7|Q8HWL7|Q8HWT5|Q8SNC4|Q95HC1|Q95IT7|Q95IT8|Q9BD13|Q9GIM2|Q9GIM4|Q9GIX6|Q9GJ41|Q9MY67|Q9TNT7|Q9TQE2|Q9XS11|Q9XS12	Frame_Shift_Del	DEL	ENST00000418931.2	37	CCDS4765.1																																																																																				0.657	HLA-DPB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076106.2	NM_002121		-	33048613	A	-	33048613	7	5	594	1	0	1	0	1	0	0	0	0	7210	246	9	0	271	0	HLA-DPB1	6	33048613	Frame_Shift_Del	DEL	A	TCGA-G7-7501-01A-11D-2201-08		33048613	138066454	16	35421										
KCNK5	8645	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	39159334	39159334	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	ggctgtgctccccttcacctGcagggccttccgggagtgtg	14	14	1	0			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr6:39159334G>A	ENST00000359534.3	-	5	1170	c.832C>T	c.(832-834)Cag>Tag	p.Q278*		NM_003740.3	NP_003731.1	O95279	KCNK5_HUMAN	potassium channel, subfamily K, member 5	278					excretion (GO:0007588)|potassium ion transport (GO:0006813)	integral component of plasma membrane (GO:0005887)	potassium channel activity (GO:0005267)|voltage-gated ion channel activity (GO:0005244)			central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(6)|lung(4)|skin(3)	19						CCCTTCACCTGCAGGGCCTTC	0.547																																																0													100	105	104					6																	39159334		2203	4300	6503	SO:0001587	stop_gained	8645			AF084830	CCDS4841.1	6p21	2012-03-07			ENSG00000164626	ENSG00000164626		"Potassium channels", "Voltage-gated ion channels / Potassium channels, Two-P"	6280	protein-coding gene	gene with protein product		603493				9812978, 16382106	Standard	XM_005249456		Approved	K2p5.1, TASK-2	uc003oon.3	O95279	OTTHUMG00000014642	ENST00000359534.3:c.832C>T	6.37:g.39159334G>A	ENSP00000352527:p.Gln278*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAQ6|B5TJL2|Q5VV76	Nonsense_Mutation	SNP	ENST00000359534.3	37	CCDS4841.1	.	.	.	.	.	.	.	.	.	.	G	35	5.470988	0.96274	.	.	ENSG00000164626	ENST00000359534	.	.	.	5.35	4.47	0.54385	.	1.406490	0.05067	N	0.481046	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.26408	T	0.33	.	15.979	0.80091	0.0:0.1351:0.8649:0.0	.	.	.	.	X	278	.	ENSP00000352527:Q278X	Q	-	1	0	KCNK5	39267312	0.997000	0.39634	0.848000	0.33437	0.146000	0.21551	4.384000	0.59607	1.233000	0.43693	0.561000	0.74099	CAG		0.547	KCNK5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040449.1	NM_003740		A	39159334	G	A	39159334	4	1	594	1	0	0	0	0	0	1	0	0	8076	1328	46	2	671	2	KCNK5	6	39159334	Nonsense_Mutation	SNP	G	TCGA-G7-7501-01A-11D-2201-08	6110721	39159334	131955733	17	35422										
C6orf150	115004	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	74135070	74135070	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	agattgaattcaggaataaaAtaattctcaagtttttctgt	6	4	3	2			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr6:74135070A>G	ENST00000370315.3	-	5	1543	c.1449T>C	c.(1447-1449)taT>taC	p.Y483Y	MB21D1_ENST00000370318.1_Intron	NM_138441.2	NP_612450.2	Q8N884	CGAS_HUMAN	Mab-21 domain containing 1	483					activation of innate immune response (GO:0002218)|cellular response to exogenous dsRNA (GO:0071360)|cyclic nucleotide biosynthetic process (GO:0009190)|defense response to virus (GO:0051607)|innate immune response (GO:0045087)|positive regulation of defense response to virus by host (GO:0002230)|positive regulation of type I interferon production (GO:0032481)	cytosol (GO:0005829)	ATP binding (GO:0005524)|cyclic-GMP-AMP synthase activity (GO:0061501)|DNA binding (GO:0003677)|GTP binding (GO:0005525)|metal ion binding (GO:0046872)			central_nervous_system(1)|large_intestine(4)|lung(1)	6						CAGGAATAAAATAATTCTCAA	0.373																																																0													54	54	54					6																	74135070		2203	4300	6503	SO:0001819	synonymous_variant	115004			BC012928	CCDS4978.1	6q13	2011-02-23	2011-02-23	2011-02-23	ENSG00000164430	ENSG00000164430			21367	protein-coding gene	gene with protein product		613973	"chromosome 6 open reading frame 150"	C6orf150			Standard	NM_138441		Approved		uc003pgx.1	Q8N884	OTTHUMG00000015034	ENST00000370315.3:c.1449T>C	6.37:g.74135070A>G		Somatic		WXS	Illumina HiSeq	Phase_I	L0L2J9|Q14CV6|Q32NC9|Q5SWL0|Q5SWL1|Q96E45	Silent	SNP	ENST00000370315.3	37	CCDS4978.1																																																																																				0.373	MB21D1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041221.5	NM_138441		G	74135070	A	G	74135070	2	3	594	1	0	0	0	0	0	0	0	1	2339	108	4	3		3	C6orf150	6	74135070	Silent	SNP	A	TCGA-G7-7501-01A-11D-2201-08	34975736	74135070	96979997	18	35423										
AIM1	202	broad.mit.edu	37	chr6	106960616	106960616	+	Frame_Shift_Del	DEL	C	C	-													0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	ctcccgccaaggagtccccaCccaagagggtgcccgatccc							TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr6:106960616delC	ENST00000369066.3	+	1	887	c.400delC	c.(400-402)cccfs	p.P134fs		NM_001624.2	NP_001615	Q9UMX9	S45A2_HUMAN	absent in melanoma 1	0					developmental pigmentation (GO:0048066)|melanin biosynthetic process (GO:0042438)|response to stimulus (GO:0050896)|visual perception (GO:0007601)	integral component of membrane (GO:0016021)				breast(8)|central_nervous_system(1)|cervix(2)|endometrium(6)|kidney(7)|large_intestine(13)|lung(20)|ovary(5)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	69	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		GGAGTCCCCACCCAAGAGGGT	0.761																																																0													4	6	5					6																	106960616		1924	3948	5872	SO:0001589	frameshift_variant	202			U83115	CCDS34506.1	6q21	2014-01-29			ENSG00000112297	ENSG00000112297			356	protein-coding gene	gene with protein product	"suppression of tumorigenicity 4", "beta-gamma crystallin domain containing 1"	601797	"suppression of tumorigenicity 4 (malignant melanoma)"	ST4		1680551, 12693952	Standard	NM_001624		Approved	CRYBG1	uc003prh.3	Q9Y4K1	OTTHUMG00000015302	ENST00000369066.3:c.400delC	6.37:g.106960616delC	ENSP00000358062:p.Pro134fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P2P0|Q9BTM3	Frame_Shift_Del	DEL	ENST00000369066.3	37	CCDS34506.1																																																																																				0.761	AIM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041669.1			-	106960616	C	-	106960616	7	5	594	1	0	1	0	1	0	0	0	0	430	507	18	0	402	0	AIM1	6	106960616	Frame_Shift_Del	DEL	C	TCGA-G7-7501-01A-11D-2201-08	32825546	106960616	64154451	19	35424										
TBP	6908	hgsc.bcm.edu;bcgsc.ca	37	chr6	170871004	170871004	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	gagcaacaaaggcagcagcaGcaacaacaacagcagcagca	10	12	0	0			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr6:170871004G>A	ENST00000392092.2	+	3	459	c.180G>A	c.(178-180)caG>caA	p.Q60Q	TBP_ENST00000230354.6_Silent_p.Q60Q|TBP_ENST00000540980.1_Silent_p.Q40Q	NM_003194.4	NP_003185.1	P20226	TBP_HUMAN	TATA box binding protein	60	Poly-Gln.				cell death (GO:0008219)|gene expression (GO:0010467)|positive regulation of transcription, DNA-templated (GO:0045893)|spermatogenesis (GO:0007283)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase I promoter (GO:0006360)|transcription from RNA polymerase II promoter (GO:0006366)|transcription from RNA polymerase III promoter (GO:0006383)|transcription initiation from RNA polymerase I promoter (GO:0006361)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	cytoplasm (GO:0005737)|female pronucleus (GO:0001939)|male pronucleus (GO:0001940)|nuclear euchromatin (GO:0005719)|nucleoplasm (GO:0005654)|transcription factor TFIIA complex (GO:0005672)|transcription factor TFIID complex (GO:0005669)	repressing transcription factor binding (GO:0070491)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(2)|lung(9)|ovary(1)|prostate(4)|urinary_tract(1)	26		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;1.07e-22)|BRCA - Breast invasive adenocarcinoma(81;5.01e-06)|GBM - Glioblastoma multiforme(31;0.00591)		Ggcagcagcagcaacaacaac	0.542																																																0													43	45	44					6																	170871004		2203	4300	6503	SO:0001819	synonymous_variant	6908			M55654	CCDS5315.1, CCDS55077.1	6q27	2014-04-02			ENSG00000112592	ENSG00000112592		"General transcription factors"	11588	protein-coding gene	gene with protein product		600075		GTF2D1, SCA17		2194289, 11448935	Standard	NM_003194		Approved	TFIID	uc003qxu.3	P20226	OTTHUMG00000016084	ENST00000392092.2:c.180G>A	6.37:g.170871004G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4E3B3|F5H869|Q16845|Q6IBM6|Q9UC02	Silent	SNP	ENST00000392092.2	37	CCDS5315.1																																																																																				0.542	TBP-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000043271.2	NM_003194		A	170871004	G	A	170871004	2	1	594	1	0	0	0	0	0	0	0	1	15656	962	34	2		2	TBP	6	170871004	Silent	SNP	G	TCGA-G7-7501-01A-11D-2201-08	63910388	170871004	244063	20	35425										
DNAH11	8701	broad.mit.edu;bcgsc.ca	37	chr7	21630624	21630624	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	tttagccatcttcaagaaaaGgaacactattttaaaggttt	6	6	2	1			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr7:21630624G>A	ENST00000409508.3	+	13	2289	c.2258G>A	c.(2257-2259)aGg>aAg	p.R753K	DNAH11_ENST00000328843.6_Missense_Mutation_p.R753K	NM_001277115.1	NP_001264044.1	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	753	Stem. {ECO:0000250}.				microtubule-based movement (GO:0007018)	cilium (GO:0005929)|cytoplasm (GO:0005737)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(1)|autonomic_ganglia(1)|breast(13)|central_nervous_system(3)|cervix(4)|endometrium(18)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(50)|lung(101)|ovary(10)|pancreas(4)|prostate(7)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	230						TTCAAGAAAAGGAACACTATT	0.264									Kartagener syndrome																																							0													38	37	38					7																	21630624		1781	4050	5831	SO:0001583	missense	8701	Familial Cancer Database	Ciliary Dyskinesia, Primary (CILD1 - CILD13), Immotile Cilia Syndrome	U83569	CCDS64602.1	7p21	2008-07-18	2006-09-04					"Axonemal dyneins"	2942	protein-coding gene	gene with protein product	"dynein, ciliary, heavy chain 11", "dynein, heavy chain beta-like"	603339	"dynein, axonemal, heavy polypeptide 11"			9256245	Standard	NM_001277115		Approved	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL	uc031swp.1	Q96DT5		ENST00000409508.3:c.2258G>A	7.37:g.21630624G>A	ENSP00000475939:p.Arg753Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UJ82	Missense_Mutation	SNP	ENST00000409508.3	37		.	.	.	.	.	.	.	.	.	.	G	5.689	0.311727	0.10789	.	.	ENSG00000105877	ENST00000328843	T	0.55588	0.51	5.7	4.81	0.61882	Dynein heavy chain, domain-1 (1);	0.507616	0.21149	N	0.079354	T	0.40546	0.1121	.	.	.	0.36491	D	0.868452	B	0.15719	0.014	B	0.16289	0.015	T	0.38178	-0.9673	9	0.19590	T	0.45	.	13.9912	0.64367	0.0747:0.0:0.9253:0.0	.	753	Q96DT5	DYH11_HUMAN	K	753	ENSP00000330671:R753K	ENSP00000330671:R753K	R	+	2	0	DNAH11	21597149	1.000000	0.71417	0.991000	0.47740	0.081000	0.17604	4.275000	0.58927	1.378000	0.46305	0.650000	0.86243	AGG		0.264	DNAH11-001	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000326582.6	NM_003777		A	21630624	G	A	21630624	3	1	594	1	0	0	0	0	1	0	0	0	4601	1000	35	2	2308	2	DNAH11	7	21630624	Missense_Mutation	SNP	G	TCGA-G7-7501-01A-11D-2201-08		21630624	137508039	21	35426										
C7orf59	389541	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	99746597	99746598	+	Start_Codon_Ins	INS	-	-	G													0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	ccagcaccgaagactgcgatINSggtgagtgaggacgcatgcg							TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr7:99746597_99746598insG	ENST00000341942.5	+	0	68_69				LAMTOR4_ENST00000441173.1_Start_Codon_Ins	NM_001008395.2	NP_001008396.1	Q0VGL1	LTOR4_HUMAN	late endosomal/lysosomal adaptor, MAPK and MTOR activator 4						cellular response to amino acid stimulus (GO:0071230)|positive regulation of GTPase activity (GO:0043547)|positive regulation of TOR signaling (GO:0032008)|protein localization to lysosome (GO:0061462)|regulation of cell size (GO:0008361)	intracellular membrane-bounded organelle (GO:0043231)|lysosome (GO:0005764)|Ragulator complex (GO:0071986)											AAGACTGCGATGGTGAGTGAGG	0.658																																																0																																										SO:0001582	initiator_codon_variant	389541				CCDS34702.1	7q22	2012-09-24	2012-09-24	2012-09-24	ENSG00000188186	ENSG00000188186			33772	protein-coding gene	gene with protein product			"chromosome 7 open reading frame 59"	C7orf59		22980980	Standard	NM_001008395		Approved		uc003utq.2	Q0VGL1	OTTHUMG00000154854	ENST00000341942.5:c.3dupG	7.37:g.99746599_99746599dupG		Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000341942.5	37	CCDS34702.1																																																																																				0.658	LAMTOR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337373.2	NM_001008395		G	99746598	-	G	99746597	7	5	594	1	0	1	1	0	0	0	0	0	2408	1478	51	0	4	0	C7orf59	7	99746597	Start_Codon_Ins	INS	-	TCGA-G7-7501-01A-11D-2201-08	78115973	99746597	59392066	22	35427										
C7orf58	79974	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	120629777	120629777	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	ctcttctaccagactctgacCctccgagggtcgaggaagct	10	14	3	2			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr7:120629777C>G	ENST00000310396.5	+	2	569	c.102C>G	c.(100-102)acC>acG	p.T34T	CPED1_ENST00000340646.5_Silent_p.T34T|CPED1_ENST00000450913.2_Silent_p.T34T|CPED1_ENST00000495036.1_3'UTR	NM_024913.4	NP_079189.4	A4D0V7	CPED1_HUMAN	cadherin-like and PC-esterase domain containing 1	34						endoplasmic reticulum (GO:0005783)											AGACTCTGACCCTCCGAGGGT	0.587																																																0													112	107	109					7																	120629777		2203	4300	6503	SO:0001819	synonymous_variant	79974				CCDS34739.1, CCDS47690.1	7q31.31	2012-06-12	2012-06-12	2012-06-12	ENSG00000106034	ENSG00000106034			26159	protein-coding gene	gene with protein product			"chromosome 7 open reading frame 58"	C7orf58		20056006	Standard	NM_024913		Approved	FLJ21986	uc003vjq.4	A4D0V7	OTTHUMG00000156982	ENST00000310396.5:c.102C>G	7.37:g.120629777C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1R3|Q6UXT1|Q86T76|Q86T84|Q8N2T5|Q96NC9	Silent	SNP	ENST00000310396.5	37	CCDS34739.1																																																																																				0.587	CPED1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346959.1	NM_024913		G	120629777	C	G	120629777	2	3	594	1	0	0	0	0	0	0	0	1	2407	610	22	4		4	C7orf58	7	120629777	Silent	SNP	C	TCGA-G7-7501-01A-11D-2201-08	20883180	120629777	38508886	23	35428										
PTPRZ1	5803	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	121679512	121679512	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	acattttcttttgcagagaaAatgtgatcagtactggcctg	9	7	2	2			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr7:121679512A>T	ENST00000393386.2	+	20	5918	c.5507A>T	c.(5506-5508)aAa>aTa	p.K1836I	PTPRZ1_ENST00000449182.1_Missense_Mutation_p.K969I	NM_001206838.1|NM_002851.2	NP_001193767.1|NP_002842.2	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type, Z polypeptide 1	1836	Tyrosine-protein phosphatase 1. {ECO:0000255|PROSITE-ProRule:PRU00160}.				axonogenesis (GO:0007409)|central nervous system development (GO:0007417)|hematopoietic progenitor cell differentiation (GO:0002244)|learning or memory (GO:0007611)|oligodendrocyte differentiation (GO:0048709)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)|regulation of oligodendrocyte progenitor proliferation (GO:0070445)	integral component of plasma membrane (GO:0005887)|perineuronal net (GO:0072534)|proteinaceous extracellular matrix (GO:0005578)	protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(1)|breast(3)|central_nervous_system(4)|cervix(1)|endometrium(4)|kidney(12)|large_intestine(17)|liver(1)|lung(42)|ovary(4)|prostate(5)|skin(8)|upper_aerodigestive_tract(2)|urinary_tract(2)	106						TTGCAGAGAAAATGTGATCAG	0.423																																																0													84	83	84					7																	121679512		2203	4300	6503	SO:0001583	missense	5803			M93426	CCDS34740.1, CCDS56505.1	7q31.3	2013-02-11			ENSG00000106278	ENSG00000106278		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Fibronectin type III domain containing"	9685	protein-coding gene	gene with protein product		176891		PTPZ, PTPRZ		7736789, 8387522	Standard	NM_001206838		Approved	PTP18, RPTPB, phosphacan	uc003vjy.3	P23471	OTTHUMG00000157057	ENST00000393386.2:c.5507A>T	7.37:g.121679512A>T	ENSP00000377047:p.Lys1836Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A4D0W5|C9JFM0|O76043|Q9UDR6	Missense_Mutation	SNP	ENST00000393386.2	37	CCDS34740.1	.	.	.	.	.	.	.	.	.	.	A	29.2	4.982726	0.93044	.	.	ENSG00000106278	ENST00000393386;ENST00000449182	T;T	0.21361	2.01;2.01	5.88	5.88	0.94601	Protein-tyrosine phosphatase, receptor/non-receptor type (3);	0.000000	0.85682	D	0.000000	T	0.61553	0.2356	H	0.96460	3.825	0.80722	D	1	D;P;P	0.76494	0.999;0.503;0.674	D;P;P	0.85130	0.997;0.843;0.802	T	0.75169	-0.3412	10	0.87932	D	0	.	16.3015	0.82820	1.0:0.0:0.0:0.0	.	975;969;1836	P23471-2;C9JFM0;P23471	.;.;PTPRZ_HUMAN	I	1836;969	ENSP00000377047:K1836I;ENSP00000410000:K969I	ENSP00000377047:K1836I	K	+	2	0	PTPRZ1	121466748	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	6.195000	0.72088	2.239000	0.73571	0.533000	0.62120	AAA		0.423	PTPRZ1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347288.1	NM_002851		T	121679512	A	T	121679512	3	4	594	1	0	0	0	0	1	0	0	0	12827	14	1	5	5585	5	PTPRZ1	7	121679512	Missense_Mutation	SNP	A	TCGA-G7-7501-01A-11D-2201-08	1049735	121679512	37459151	24	35429										
DRD4	1815	hgsc.bcm.edu	37	chr11	640253	640253	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	gacccgcaggaggcggcgtgCcaagatcaccggccgggagc	17	14	1	1	rs200996360	byFrequency	TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr11:640253C>G	ENST00000176183.5	+	3	1016	c.1004C>G	c.(1003-1005)gCc>gGc	p.A335G		NM_000797.3	NP_000788.2	P21917	DRD4_HUMAN	dopamine receptor D4	383	7 X 16 AA approximate tandem repeats of [PA]-A-P-G-L-P-[PQR]-[DG]-P-C-G-P-D-C-A- P.		Missing (in allele D4.2).		activation of MAPK activity (GO:0000187)|adenylate cyclase-inhibiting dopamine receptor signaling pathway (GO:0007195)|adult locomotory behavior (GO:0008344)|arachidonic acid secretion (GO:0050482)|behavioral fear response (GO:0001662)|behavioral response to cocaine (GO:0048148)|behavioral response to ethanol (GO:0048149)|cellular calcium ion homeostasis (GO:0006874)|circadian rhythm (GO:0007623)|dopamine metabolic process (GO:0042417)|dopamine receptor signaling pathway (GO:0007212)|fear response (GO:0042596)|negative regulation of adenylate cyclase activity (GO:0007194)|negative regulation of cAMP biosynthetic process (GO:0030818)|negative regulation of protein secretion (GO:0050709)|negative regulation of voltage-gated calcium channel activity (GO:1901386)|olfactory learning (GO:0008355)|photoperiodism (GO:0009648)|positive regulation of dopamine uptake involved in synaptic transmission (GO:0051586)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of kinase activity (GO:0033674)|positive regulation of penile erection (GO:0060406)|positive regulation of sodium:proton antiporter activity (GO:0032417)|regulation of calcium-mediated signaling (GO:0050848)|regulation of circadian rhythm (GO:0042752)|regulation of dopamine metabolic process (GO:0042053)|regulation of inhibitory postsynaptic membrane potential (GO:0060080)|regulation of neurotransmitter secretion (GO:0046928)|response to amphetamine (GO:0001975)|response to histamine (GO:0034776)|response to steroid hormone (GO:0048545)|retina development in camera-type eye (GO:0060041)|short-term memory (GO:0007614)|social behavior (GO:0035176)|synaptic transmission, dopaminergic (GO:0001963)	cell cortex (GO:0005938)|dendritic spine (GO:0043197)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|terminal bouton (GO:0043195)|vesicle membrane (GO:0012506)	dopamine binding (GO:0035240)|dopamine neurotransmitter receptor activity (GO:0004952)|dopamine neurotransmitter receptor activity, coupled via Gi/Go (GO:0001591)|drug binding (GO:0008144)|identical protein binding (GO:0042802)|potassium channel regulator activity (GO:0015459)|SH3 domain binding (GO:0017124)			NS(1)|lung(1)|skin(1)|upper_aerodigestive_tract(1)	4		all_cancers(49;1.69e-08)|all_epithelial(84;1.65e-05)|Breast(177;0.000231)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;4.36e-28)|Epithelial(43;2.59e-27)|OV - Ovarian serous cystadenocarcinoma(40;3.53e-21)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0234)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Amoxapine(DB00543)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Asenapine(DB06216)|Bromocriptine(DB01200)|Cabergoline(DB00248)|Chlorpromazine(DB00477)|Clozapine(DB00363)|Dopamine(DB00988)|Iloperidone(DB04946)|L-DOPA(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Pramipexole(DB00413)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Rotigotine(DB05271)|Ziprasidone(DB00246)	AGGCGGCGTGCCAAGATCACC	0.741													c|||	43	0.00858626	0.0318	0.0014	5008	,	,		6344	0.0		0.0	False		,,,				2504	0.0															0													4	6	5					11																	640253		1527	3345	4872	SO:0001583	missense	1815			L12398	CCDS7710.1	11p15.5	2012-08-08			ENSG00000069696	ENSG00000069696		"GPCR / Class A : Dopamine receptors"	3025	protein-coding gene	gene with protein product		126452					Standard	NM_000797		Approved		uc001lqp.2	P21917	OTTHUMG00000133312	ENST00000176183.5:c.1004C>G	11.37:g.640253C>G	ENSP00000176183:p.Ala335Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B0M0J7|Q7Z7Q5|Q8NGM5	Missense_Mutation	SNP	ENST00000176183.5	37	CCDS7710.1	24	0.01098901098901099	23	0.046747967479674794	0	0.0	1	0.0017482517482517483	0	0.0	c	15.17	2.754522	0.49362	.	.	ENSG00000069696	ENST00000176183	T	0.37752	1.18	2.76	2.76	0.32466	GPCR, rhodopsin-like superfamily (1);	0.389459	0.24594	N	0.037181	T	0.18467	0.0443	.	.	.	0.53688	D	0.999974	D	0.76494	0.999	D	0.83275	0.996	T	0.45220	-0.9276	9	0.54805	T	0.06	.	12.6971	0.57010	0.0:1.0:0.0:0.0	.	383	P21917	DRD4_HUMAN	G	335	ENSP00000176183:A335G	ENSP00000176183:A335G	A	+	2	0	DRD4	630253	1.000000	0.71417	0.963000	0.40424	0.945000	0.59286	3.113000	0.50376	1.568000	0.49683	0.457000	0.33378	GCC		0.741	DRD4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257109.1	NM_000797		G	640253	C	G	640253	3	3	594	1	0	0	0	0	1	0	0	0	4761	739	26	4	1014	4	DRD4	11	640253	Missense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08		640253	134366263	25	35430										
SF3B2	10992	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	65829382	65829382	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	aatgcccacaaggtccctccCccatggctgattgccatgca	8	16	0	1	rs559206953		TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr11:65829382C>A	ENST00000322535.6	+	16	1939	c.1890C>A	c.(1888-1890)ccC>ccA	p.P630P	SF3B2_ENST00000528302.1_Silent_p.P613P	NM_006842.2	NP_006833.2	Q13435	SF3B2_HUMAN	splicing factor 3b, subunit 2, 145kDa	630					gene expression (GO:0010467)|mRNA processing (GO:0006397)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|viral process (GO:0016032)	catalytic step 2 spliceosome (GO:0071013)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)|U12-type spliceosomal complex (GO:0005689)	poly(A) RNA binding (GO:0044822)			breast(3)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(8)|liver(2)|lung(14)|ovary(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	41						AGGTCCCTCCCCCATGGCTGA	0.562																																																0													115	109	111					11																	65829382		2201	4295	6496	SO:0001819	synonymous_variant	10992			U41371	CCDS31612.1	11q13	2010-07-21	2002-08-29		ENSG00000087365	ENSG00000087365			10769	protein-coding gene	gene with protein product		605591	"splicing factor 3b, subunit 2, 145kD"			8566756	Standard	XM_005273726		Approved	SAP145, SF3b1, Cus1, SF3b145	uc001ogy.1	Q13435	OTTHUMG00000166751	ENST00000322535.6:c.1890C>A	11.37:g.65829382C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K485|B4DT19|Q7L4T5|Q7Z627|Q969K1|Q96CM6|Q9BWD2	Silent	SNP	ENST00000322535.6	37	CCDS31612.1	.	.	.	.	.	.	.	.	.	.	C	6.177	0.400770	0.11696	.	.	ENSG00000087365	ENST00000530981	.	.	.	5.8	-0.975	0.10289	.	0.105145	0.64402	D	0.000003	T	0.53916	0.1826	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.51212	-0.8734	6	0.87932	D	0	-15.3896	2.3521	0.04286	0.1231:0.3008:0.3612:0.2149	.	.	.	.	H	51	.	ENSP00000436757:P51H	P	+	2	0	SF3B2	65585958	0.832000	0.29368	0.923000	0.36655	0.530000	0.34684	-0.126000	0.10563	-0.166000	0.10890	0.650000	0.86243	CCC		0.562	SF3B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391352.2			A	65829382	C	A	65829382	2	1	594	1	0	0	0	0	0	0	0	1	14164	610	22	4		4	SF3B2	11	65829382	Silent	SNP	C	TCGA-G7-7501-01A-11D-2201-08	65189129	65829382	69177134	26	35431										
ARAP1	116985	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	72406598	72406598	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	agccttcacctgggtcccacTggcagtgccagccacgcgca	11	17	1	0			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr11:72406598T>C	ENST00000393609.3	-	25	3698	c.3496A>G	c.(3496-3498)Agt>Ggt	p.S1166G	ARAP1_ENST00000393605.3_Missense_Mutation_p.S926G|ARAP1_ENST00000359373.5_Missense_Mutation_p.S1166G|ARAP1_ENST00000334211.8_Missense_Mutation_p.S921G|ARAP1_ENST00000495878.1_5'UTR|ARAP1_ENST00000426523.1_Missense_Mutation_p.S921G|ARAP1_ENST00000455638.2_Missense_Mutation_p.S1166G|ARAP1_ENST00000429686.1_Missense_Mutation_p.S860G|ARAP1-AS1_ENST00000542022.1_RNA	NM_001040118.2	NP_001035207.1	Q96P48	ARAP1_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	1166					actin filament reorganization involved in cell cycle (GO:0030037)|negative regulation of stress fiber assembly (GO:0051497)|positive regulation of Cdc42 GTPase activity (GO:0043089)|positive regulation of filopodium assembly (GO:0051491)|positive regulation of receptor recycling (GO:0001921)|regulation of ARF GTPase activity (GO:0032312)|regulation of cell shape (GO:0008360)|regulation of cellular component movement (GO:0051270)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)	ARF GTPase activator activity (GO:0008060)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|Rho GTPase activator activity (GO:0005100)|zinc ion binding (GO:0008270)			cervix(2)|endometrium(2)|large_intestine(10)|lung(8)|ovary(1)|skin(3)|urinary_tract(1)	27						TGGGTCCCACTGGCAGTGCCA	0.647																																					Ovarian(102;1198 1520 13195 17913 37529)											0													46	44	45					11																	72406598		2200	4293	6493	SO:0001583	missense	116985			AF411983	CCDS8217.2, CCDS41687.1, CCDS44671.1	11q13.3	2013-01-11	2008-09-22	2008-09-22	ENSG00000186635	ENSG00000186635		"ADP-ribosylation factor GTPase activating proteins", "Sterile alpha motif (SAM) domain containing", "Pleckstrin homology (PH) domain containing", "Ankyrin repeat domain containing"	16925	protein-coding gene	gene with protein product		606646	"centaurin, delta 2"	CENTD2			Standard	NM_001040118		Approved		uc001osu.3	Q96P48	OTTHUMG00000157102	ENST00000393609.3:c.3496A>G	11.37:g.72406598T>C	ENSP00000377233:p.Ser1166Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A3KLL7|B2RTS2|O94879|Q4LDD5|Q59FI7|Q6PHS3|Q8WU51|Q96HP6|Q96L71	Missense_Mutation	SNP	ENST00000393609.3	37	CCDS41687.1	.	.	.	.	.	.	.	.	.	.	T	15.48	2.846485	0.51164	.	.	ENSG00000186635	ENST00000359373;ENST00000455638;ENST00000393605;ENST00000334211;ENST00000393609;ENST00000426523;ENST00000429686	T;T;T;T;T;T;T	0.07327	3.21;3.21;3.22;3.27;3.2;3.27;3.23	4.43	4.43	0.53597	.	0.300288	0.30419	N	0.009674	T	0.07007	0.0178	N	0.08118	0	0.34771	D	0.733746	B;P;P;B;B	0.50943	0.026;0.92;0.94;0.033;0.056	B;B;P;B;B	0.47402	0.01;0.422;0.546;0.028;0.031	T	0.35251	-0.9796	10	0.62326	D	0.03	.	12.6484	0.56748	0.0:0.0:0.0:1.0	.	921;860;1166;1166;926	E7EU13;B2RTS2;Q96P48-3;Q96P48;Q96P48-1	.;.;.;ARAP1_HUMAN;.	G	1166;1166;926;921;1166;921;860	ENSP00000352332:S1166G;ENSP00000390461:S1166G;ENSP00000377230:S926G;ENSP00000335506:S921G;ENSP00000377233:S1166G;ENSP00000392264:S921G;ENSP00000403127:S860G	ENSP00000335506:S921G	S	-	1	0	ARAP1	72084246	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	5.593000	0.67550	1.875000	0.54330	0.377000	0.23210	AGT		0.647	ARAP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000347428.1	NM_001040118		C	72406598	T	C	72406598	3	2	594	1	0	0	0	0	1	0	0	0	838	1580	55	3	900	3	ARAP1	11	72406598	Missense_Mutation	SNP	T	TCGA-G7-7501-01A-11D-2201-08	6577216	72406598	62599918	27	35432										
CAPZA3	93661	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	18892035	18892035	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	gatactctctgacttgaatcTggtgatgtatcctaaattag	8	7	2	3			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr12:18892035T>A	ENST00000317658.3	+	1	991	c.833T>A	c.(832-834)cTg>cAg	p.L278Q	PLCZ1_ENST00000266505.7_5'Flank|RP11-361I14.2_ENST00000536931.1_RNA|PLCZ1_ENST00000435379.1_5'Flank|PLCZ1_ENST00000447925.2_5'Flank|PLCZ1_ENST00000539875.1_5'Flank	NM_033328.2	NP_201585.1	Q96KX2	CAZA3_HUMAN	capping protein (actin filament) muscle Z-line, alpha 3	278					actin cytoskeleton organization (GO:0030036)|actin filament capping (GO:0051693)|spermatid development (GO:0007286)	acrosomal vesicle (GO:0001669)|cortical cytoskeleton (GO:0030863)|F-actin capping protein complex (GO:0008290)|membrane (GO:0016020)|nucleus (GO:0005634)|WASH complex (GO:0071203)				breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(5)|liver(1)|lung(6)|ovary(1)|prostate(1)	19	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.0241)	Hepatocellular(102;0.194)				GACTTGAATCTGGTGATGTAT	0.393																																																0													51	53	52					12																	18892035		2200	4287	6487	SO:0001583	missense	93661			AB053259	CCDS8681.1	12p12.3	2008-02-05			ENSG00000177938	ENSG00000177938			24205	protein-coding gene	gene with protein product		608722				12029070	Standard	NM_033328		Approved	Gsg3, CAPPA3	uc001rdy.3	Q96KX2	OTTHUMG00000169001	ENST00000317658.3:c.833T>A	12.37:g.18892035T>A	ENSP00000326238:p.Leu278Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q969J0	Missense_Mutation	SNP	ENST00000317658.3	37	CCDS8681.1	.	.	.	.	.	.	.	.	.	.	T	15.41	2.824365	0.50739	.	.	ENSG00000177938	ENST00000317658	.	.	.	4.54	3.39	0.38822	.	0.000000	0.28088	U	0.016650	T	0.34395	0.0896	N	0.08118	0	0.33519	D	0.592145	P	0.49783	0.928	P	0.56612	0.802	T	0.50311	-0.8843	9	0.87932	D	0	-8.2508	7.6761	0.28486	0.0:0.0985:0.0:0.9015	.	278	Q96KX2	CAZA3_HUMAN	Q	278	.	ENSP00000326238:L278Q	L	+	2	0	CAPZA3	18783302	0.999000	0.42202	1.000000	0.80357	0.992000	0.81027	4.188000	0.58351	0.778000	0.33520	0.379000	0.24179	CTG		0.393	CAPZA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401902.1	NM_033328		A	18892035	T	A	18892035	3	1	594	1	0	0	0	0	1	0	0	0	2644	1580	55	5	835	5	CAPZA3	12	18892035	Missense_Mutation	SNP	T	TCGA-G7-7501-01A-11D-2201-08		18892035	114959860	28	35433										
KRT75	9119	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	52827640	52827640	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	tgagggtcttgatctgctcgCgctcctcggcccgcacccgc	12	17	2	2	rs201256120		TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr12:52827640C>T	ENST00000252245.5	-	1	669	c.449G>A	c.(448-450)cGc>cAc	p.R150H		NM_004693.2	NP_004684.2	O95678	K2C75_HUMAN	keratin 75	150	Coil 1A.|Rod.				hematopoietic progenitor cell differentiation (GO:0002244)	extracellular vesicular exosome (GO:0070062)|keratin filament (GO:0045095)	structural molecule activity (GO:0005198)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(13)|lung(10)|prostate(1)|skin(1)	28				BRCA - Breast invasive adenocarcinoma(357;0.192)		GATCTGCTCGCGCTCCTCGGC	0.562													C|||	1	0.000199681	0.0	0.0	5008	,	,		17797	0.001		0.0	False		,,,				2504	0.0															0													147	148	148					12																	52827640		2203	4300	6503	SO:0001583	missense	9119			Y19212	CCDS8827.1	12q13.13	2013-06-25			ENSG00000170454	ENSG00000170454		"-", "Intermediate filaments type II, keratins (basic)"	24431	protein-coding gene	gene with protein product		609025				9856802, 10692104, 16831889	Standard	NM_004693		Approved	K6HF	uc001saj.2	O95678	OTTHUMG00000169592	ENST00000252245.5:c.449G>A	12.37:g.52827640C>T	ENSP00000252245:p.Arg150His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DQU4|Q9NSA9	Missense_Mutation	SNP	ENST00000252245.5	37	CCDS8827.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	C	21.4	4.145521	0.77888	.	.	ENSG00000170454	ENST00000252245	D	0.90133	-2.62	5.74	4.72	0.59763	Filament (1);	0.164522	0.29692	N	0.011442	D	0.94785	0.8316	H	0.94808	3.585	0.30984	N	0.722149	P	0.50943	0.94	P	0.52793	0.709	D	0.94024	0.7295	10	0.87932	D	0	.	9.8904	0.41288	0.0:0.7972:0.0:0.2028	.	150	O95678	K2C75_HUMAN	H	150	ENSP00000252245:R150H	ENSP00000252245:R150H	R	-	2	0	KRT75	51113907	0.984000	0.35163	0.608000	0.28969	0.884000	0.51177	2.211000	0.42825	1.168000	0.42723	0.655000	0.94253	CGC		0.562	KRT75-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404968.1	NM_004693		T	52827640	C	T	52827640	3	4	594	1	0	0	0	0	1	0	0	0	8495	768	27	1	1242	1	KRT75	12	52827640	Missense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08	33935605	52827640	81024255	29	35434										
MLXIP	22877	hgsc.bcm.edu;broad.mit.edu	37	chr12	122616846	122616846	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	tgttgtttttcagacctcttCtcttctagccgctccatttt	5	12	4	1			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr12:122616846C>T	ENST00000319080.7	+	8	1140	c.1008C>T	c.(1006-1008)ttC>ttT	p.F336F	MLXIP_ENST00000377037.2_5'Flank|MLXIP_ENST00000538698.1_5'Flank					MLX interacting protein											NS(1)|endometrium(4)|kidney(1)|large_intestine(4)|lung(7)|ovary(3)	20	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)		CAGACCTCTTCTCTTCTAGCC	0.552																																					Esophageal Squamous(105;787 1493 16200 18566 52466)											0													135	147	143					12																	122616846		1933	4145	6078	SO:0001819	synonymous_variant	22877			AB020674	CCDS73540.1	12q21.31	2013-05-21				ENSG00000175727		"Basic helix-loop-helix proteins"	17055	protein-coding gene	gene with protein product		608090				10048485, 11073985	Standard	XM_006719290		Approved	MONDOA, KIAA0867, MIR, bHLHe36	uc001ubq.3	Q9HAP2		ENST00000319080.7:c.1008C>T	12.37:g.122616846C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000319080.7	37																																																																																					0.552	MLXIP-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000401718.2	NM_014938		T	122616846	C	T	122616846	2	4	594	1	0	0	0	0	0	0	0	1	9643	912	32	2		2	MLXIP	12	122616846	Silent	SNP	C	TCGA-G7-7501-01A-11D-2201-08	69789206	122616846	11235049	30	35435										
MTUS2	23281	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	29600351	29600351	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	gcaaagaggtcaccacatctGttgctgaaaacaggaacctt	9	10	2	2			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr13:29600351G>A	ENST00000431530.3	+	1	1604	c.1546G>A	c.(1546-1548)Gtt>Att	p.V516I		NM_001033602.2	NP_001028774.2	Q5JR59	MTUS2_HUMAN	microtubule associated tumor suppressor candidate 2	506						cytoplasm (GO:0005737)|microtubule (GO:0005874)	microtubule binding (GO:0008017)|protein homodimerization activity (GO:0042803)			NS(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(3)|prostate(1)|skin(1)	20						CACCACATCTGTTGCTGAAAA	0.507																																																0													85	89	88					13																	29600351		1967	4155	6122	SO:0001583	missense	23281			AB018317	CCDS41874.1, CCDS45022.1	13q12.3	2013-01-17	2009-10-20	2009-10-20	ENSG00000132938	ENSG00000132938			20595	protein-coding gene	gene with protein product	"+TIP of 150 kDa", "cardiac zipper protein"		"KIAA0774"	KIAA0774		19543227	Standard	NM_001033602		Approved	TIP150, CAZIP, ICIS	uc001usl.4	Q5JR59	OTTHUMG00000016657	ENST00000431530.3:c.1546G>A	13.37:g.29600351G>A	ENSP00000392057:p.Val516Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A7E292|B4DF81|O94872|Q08E97|Q5JQR3|Q8N5E2	Missense_Mutation	SNP	ENST00000431530.3	37	CCDS45022.1	.	.	.	.	.	.	.	.	.	.	g	11.63	1.695795	0.30052	.	.	ENSG00000132938	ENST00000431530	T	0.14266	2.52	5.39	1.52	0.23074	.	0.415389	0.20061	N	0.100094	T	0.10637	0.0260	L	0.51422	1.61	0.09310	N	1	B	0.23185	0.081	B	0.15484	0.013	T	0.25222	-1.0138	9	.	.	.	.	5.784	0.18322	0.2147:0.2602:0.5251:0.0	.	506	Q5JR59	MTUS2_HUMAN	I	516	ENSP00000392057:V516I	.	V	+	1	0	MTUS2	28498351	0.000000	0.05858	0.000000	0.03702	0.005000	0.04900	0.241000	0.18065	0.388000	0.25054	-0.175000	0.13238	GTT		0.507	MTUS2-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000044336.3	XM_166270		A	29600351	G	A	29600351	3	1	594	1	0	0	0	0	1	0	0	0	9973	1377	48	2	1548	2	MTUS2	13	29600351	Missense_Mutation	SNP	G	TCGA-G7-7501-01A-11D-2201-08		29600351	85569527	31	35436										
NBEA	26960	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	35733740	35733740	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	gaccttcccaatagtagtacAtcatttctctttgataaaat	4	9	2	1			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr13:35733740A>C	ENST00000400445.3	+	22	3966	c.3432A>C	c.(3430-3432)acA>acC	p.T1144T	NBEA_ENST00000379939.2_Silent_p.T1144T|NBEA_ENST00000540320.1_Silent_p.T1144T|NBEA_ENST00000310336.4_Silent_p.T1144T	NM_015678.4	NP_056493.3	Q8NFP9	NBEA_HUMAN	neurobeachin	1144					protein localization (GO:0008104)	cytosol (GO:0005829)|endomembrane system (GO:0012505)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)				NS(1)|breast(1)|endometrium(14)|kidney(4)|large_intestine(29)|lung(40)|ovary(9)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	108		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)		ATAGTAGTACATCATTTCTCT	0.333																																																0													48	44	45					13																	35733740		1841	4085	5926	SO:0001819	synonymous_variant	26960			AF467288	CCDS45026.1, CCDS55894.1	13q13	2014-09-17			ENSG00000172915	ENSG00000172915		"A-kinase anchor proteins", "WD repeat domain containing"	7648	protein-coding gene	gene with protein product		604889				10501977	Standard	NM_015678		Approved	KIAA1544, BCL8B, FLJ10197	uc021ric.1	Q8NFP9	OTTHUMG00000016724	ENST00000400445.3:c.3432A>C	13.37:g.35733740A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2H9|Q5T320|Q9HCM8|Q9NSU1|Q9NW98|Q9Y6J1	Silent	SNP	ENST00000400445.3	37	CCDS45026.1																																																																																				0.333	NBEA-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_015678		C	35733740	A	C	35733740	2	2	594	1	0	0	0	0	0	0	0	1	10194	204	8	5		5	NBEA	13	35733740	Silent	SNP	A	TCGA-G7-7501-01A-11D-2201-08	6133389	35733740	79436138	32	35437										
TXNDC16	57544	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	52907333	52907333	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	agtatttctgctttaccagtGtcaatattgcttttttatac	5	7	2	0			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr14:52907333G>C	ENST00000281741.4	-	19	2323	c.1952C>G	c.(1951-1953)aCa>aGa	p.T651R	TXNDC16_ENST00000554399.1_5'UTR	NM_001160047.1|NM_020784.2	NP_001153519.1|NP_065835.2	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16	651					cell redox homeostasis (GO:0045454)	endoplasmic reticulum lumen (GO:0005788)|extracellular vesicular exosome (GO:0070062)				breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(10)|prostate(3)|skin(1)	21	Breast(41;0.0716)					CTTTACCAGTGTCAATATTGC	0.308																																																0													81	77	78					14																	52907333		2203	4297	6500	SO:0001583	missense	57544			AB037765	CCDS32083.1	14q22.1	2007-08-16	2007-08-16	2007-08-16		ENSG00000087301			19965	protein-coding gene	gene with protein product			"KIAA1344"	KIAA1344			Standard	NM_020784		Approved		uc001wzs.3	Q9P2K2		ENST00000281741.4:c.1952C>G	14.37:g.52907333G>C	ENSP00000281741:p.Thr651Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKW9|A7E260|A7MD07|B9EH67|Q9H9W7	Missense_Mutation	SNP	ENST00000281741.4	37	CCDS32083.1	.	.	.	.	.	.	.	.	.	.	G	0.336	-0.953307	0.02285	.	.	ENSG00000087301	ENST00000281741	T	0.28666	1.6	5.29	-2.77	0.05877	.	0.845265	0.10716	N	0.642273	T	0.10121	0.0248	N	0.08118	0	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.06405	0.001;0.002	T	0.29181	-1.0020	10	0.17832	T	0.49	-16.9969	0.0038	0.00000	0.287:0.2064:0.2084:0.2982	.	646;651	B7ZME4;Q9P2K2	.;TXD16_HUMAN	R	651	ENSP00000281741:T651R	ENSP00000281741:T651R	T	-	2	0	TXNDC16	51977083	0.000000	0.05858	0.000000	0.03702	0.143000	0.21401	-1.373000	0.02568	-0.539000	0.06273	-0.216000	0.12614	ACA		0.308	TXNDC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411681.1	XM_051699		C	52907333	G	C	52907333	3	2	594	1	0	0	0	0	1	0	0	0	16807	1377	48	4	537	4	TXNDC16	14	52907333	Missense_Mutation	SNP	G	TCGA-G7-7501-01A-11D-2201-08		52907333	54442207	33	35438										
MORF4L1	10933	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	79185887	79185887	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	ttttgtcttcatagctctttTatcttcctgccaagaagaat	5	9	4	2			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr15:79185887T>C	ENST00000331268.5	+	10	868	c.664T>C	c.(664-666)Tat>Cat	p.Y222H	MORF4L1_ENST00000559345.1_Missense_Mutation_p.Y95H|MORF4L1_ENST00000379535.4_Missense_Mutation_p.Y208H|MORF4L1_ENST00000426013.2_Missense_Mutation_p.Y183H|MORF4L1_ENST00000561171.1_Intron|MORF4L1_ENST00000558746.1_Missense_Mutation_p.Y156H|MORF4L1_ENST00000558502.1_Missense_Mutation_p.Y95H	NM_206839.2	NP_996670.1	Q9UBU8	MO4L1_HUMAN	mortality factor 4 like 1	222	Interaction with RB1-1.|MRG. {ECO:0000255|PROSITE- ProRule:PRU00972}.|Sufficient for interaction with PHF12.|Sufficient for interaction with SIN3A.				cell proliferation (GO:0008283)|chromatin organization (GO:0006325)|double-strand break repair via homologous recombination (GO:0000724)|histone deacetylation (GO:0016575)|histone H2A acetylation (GO:0043968)|histone H4 acetylation (GO:0043967)|regulation of growth (GO:0040008)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	NuA4 histone acetyltransferase complex (GO:0035267)|nucleoplasm (GO:0005654)|Sin3 complex (GO:0016580)	chromatin binding (GO:0003682)|protein N-terminus binding (GO:0047485)			breast(1)|large_intestine(3)|lung(4)|prostate(1)|urinary_tract(1)	10						ATAGCTCTTTTATCTTCCTGC	0.299																																																0													67	71	70					15																	79185887		2196	4288	6484	SO:0001583	missense	10933			AF100615	CCDS10307.1, CCDS32304.1, CCDS58393.1	15q25.1	2009-07-13			ENSG00000185787	ENSG00000185787			16989	protein-coding gene	gene with protein product	"MORF-related gene on chromosome 15", "Esa1p-associated factor 3 homolog (S. cerevisiae)"	607303				8619474, 9110174	Standard	NM_006791		Approved	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3	uc002bel.4	Q9UBU8	OTTHUMG00000143865	ENST00000331268.5:c.664T>C	15.37:g.79185887T>C	ENSP00000331310:p.Tyr222His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DKN6|B7Z6R1|D3DW88|O95899|Q5QTS1|Q6NVX8|Q86YT7|Q9HBP6|Q9NSW5	Missense_Mutation	SNP	ENST00000331268.5	37	CCDS10307.1	.	.	.	.	.	.	.	.	.	.	T	8.246	0.807960	0.16467	.	.	ENSG00000185787	ENST00000379535;ENST00000426013;ENST00000331268	T;T;T	0.09163	3.01;3.01;3.01	4.72	4.72	0.59763	.	0.113729	0.64402	D	0.000011	T	0.06005	0.0156	N	0.10874	0.06	0.39713	D	0.971363	B;B	0.02656	0.0;0.0	B;B	0.06405	0.0;0.002	T	0.27706	-1.0066	10	0.44086	T	0.13	-22.6224	8.8633	0.35272	0.1672:0.0:0.0:0.8328	.	183;222	Q9UBU8-2;Q9UBU8	.;MO4L1_HUMAN	H	208;183;222	ENSP00000368850:Y208H;ENSP00000408880:Y183H;ENSP00000331310:Y222H	ENSP00000331310:Y222H	Y	+	1	0	MORF4L1	76972942	1.000000	0.71417	1.000000	0.80357	0.952000	0.60782	4.625000	0.61262	1.902000	0.55061	0.459000	0.35465	TAT		0.299	MORF4L1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000290131.4	NM_006791		C	79185887	T	C	79185887	3	2	594	1	0	0	0	0	1	0	0	0	9713	1754	61	3	702	3	MORF4L1	15	79185887	Missense_Mutation	SNP	T	TCGA-G7-7501-01A-11D-2201-08		79185887	23345505	34	35439										
ZNF598	90850	hgsc.bcm.edu	37	chr16	2059674	2059674	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	acagcacgcagctcccgcctTcccgctcaggagctgccgcc	10	20	1	0	rs71384660		TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr16:2059674T>C	ENST00000431526.1	-	2	88	c.74A>G	c.(73-75)gAa>gGa	p.E25G	ZNF598_ENST00000563630.1_5'UTR|ZNF598_ENST00000562103.1_5'UTR	NM_178167.2	NP_835461.2	Q86UK7	ZN598_HUMAN	zinc finger protein 598	25							poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|lung(7)|skin(1)|urinary_tract(1)	16						GCTCCCGCCTTCCCGCTCAGG	0.766													C|||	5008	1.0	1.0	1.0	5008	,	,		5162	1.0		1.0	False		,,,				2504	1.0															0													1	2	2					16																	2059674		1089	2314	3403	SO:0001583	missense	90850			BC029270		16p13.3	2008-05-02				ENSG00000167962		"Zinc fingers, C2H2-type"	28079	protein-coding gene	gene with protein product							Standard	NM_178167		Approved	FLJ00086	uc002cof.2	Q86UK7		ENST00000431526.1:c.74A>G	16.37:g.2059674T>C	ENSP00000411409:p.Glu25Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IW49|Q8N3D9|Q96FG3|Q9H7J3	Missense_Mutation	SNP	ENST00000431526.1	37		2168	0.9926739926739927	487	0.9898373983739838	361	0.9972375690607734	568	0.993006993006993	752	0.9920844327176781	N	1.560	-0.537056	0.04082	.	.	ENSG00000167962	ENST00000431526	T	0.77098	-1.07	3.3	3.3	0.37823	.	0.415485	0.23105	N	0.051871	T	0.00012	0.0000	.	.	.	0.48696	P	3.1000000000003247E-4	.	.	.	.	.	.	T	0.34650	-0.9820	6	0.22706	T	0.39	-7.8624	8.393	0.32540	0.0:0.8796:0.0:0.1204	.	.	.	.	G	25	ENSP00000411409:E25G	ENSP00000411409:E25G	E	-	2	0	ZNF598	1999675	1.000000	0.71417	1.000000	0.80357	0.107000	0.19398	0.911000	0.28584	0.691000	0.31592	-0.642000	0.03964	GAA		0.766	ZNF598-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_178167		C	2059674	T	C	2059674	3	2	594	1	0	0	0	0	1	0	0	0	18040	1770	62	3	2689	3	ZNF598	16	2059674	Missense_Mutation	SNP	T	TCGA-G7-7501-01A-11D-2201-08		2059674	88295079	35	35440										
FLYWCH2	114984	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	2946454	2946456	+	In_Frame_Del	DEL	CCC	CCC	-													0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	aggccctgggtcccgggatgCccctgcccgagcccagcgag							TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	CCC	CCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr16:2946454_2946456delCCC	ENST00000396958.3	+	3	384_386	c.4_6delCCC	c.(4-6)cccdel	p.P2del	FLYWCH2_ENST00000293981.6_In_Frame_Del_p.P2del|FLYWCH2_ENST00000572006.1_In_Frame_Del_p.P2del	NM_001142500.1|NM_138439.2	NP_001135972.1|NP_612448.1	Q96CP2	FWCH2_HUMAN	FLYWCH family member 2	2							poly(A) RNA binding (GO:0044822)			central_nervous_system(1)|lung(3)|ovary(1)|skin(1)	6						TCCCGGGATGCCCCTGCCCGAGC	0.67																																																0																																										SO:0001651	inframe_deletion	114984			BC014089	CCDS10482.1	16p13.3	2014-02-12	2007-06-21		ENSG00000162076	ENSG00000162076			25178	protein-coding gene	gene with protein product						12477932	Standard	NM_138439		Approved		uc010uwk.2	Q96CP2	OTTHUMG00000128962	ENST00000396958.3:c.4_6delCCC	16.37:g.2946454_2946456delCCC	ENSP00000380159:p.Pro2del	Somatic		WXS	Illumina HiSeq	Phase_I		In_Frame_Del	DEL	ENST00000396958.3	37	CCDS10482.1																																																																																				0.67	FLYWCH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250944.1	NM_138439		-	2946456	CCC	-	2946454	7	5	594	1	0	1	0	1	0	0	0	0	5955	739	26	0	6	0	FLYWCH2	16	2946454	In_Frame_Del	DEL	CCC	TCGA-G7-7501-01A-11D-2201-08	886780	2946454	87408299	36	35441	270	3								
FLYWCH2	114984	hgsc.bcm.edu;bcgsc.ca	37	chr16	2946458	2946458	+	Missense_Mutation	SNP	T	T	G													0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	cctgggtcccgggatgccccTgcccgagcccagcgagcagg							TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr16:2946458T>G	ENST00000396958.3	+	3	388	c.8T>G	c.(7-9)cTg>cGg	p.L3R	FLYWCH2_ENST00000293981.6_Missense_Mutation_p.L3R|FLYWCH2_ENST00000572006.1_Missense_Mutation_p.L3R	NM_001142500.1|NM_138439.2	NP_001135972.1|NP_612448.1	Q96CP2	FWCH2_HUMAN	FLYWCH family member 2	3							poly(A) RNA binding (GO:0044822)			central_nervous_system(1)|lung(3)|ovary(1)|skin(1)	6						GGGATGCCCCTGCCCGAGCCC	0.672																																																0													28	35	32					16																	2946458		2197	4300	6497	SO:0001583	missense	114984			BC014089	CCDS10482.1	16p13.3	2014-02-12	2007-06-21		ENSG00000162076	ENSG00000162076			25178	protein-coding gene	gene with protein product						12477932	Standard	NM_138439		Approved		uc010uwk.2	Q96CP2	OTTHUMG00000128962	ENST00000396958.3:c.8T>G	16.37:g.2946458T>G	ENSP00000380159:p.Leu3Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000396958.3	37	CCDS10482.1	.	.	.	.	.	.	.	.	.	.	T	8.600	0.886580	0.17540	.	.	ENSG00000162076	ENST00000396958;ENST00000293981	.	.	.	3.6	2.48	0.30137	.	0.351696	0.16312	N	0.219949	T	0.25121	0.0610	L	0.32530	0.975	0.24368	N	0.994842	P	0.44044	0.825	B	0.39935	0.314	T	0.11470	-1.0586	9	0.87932	D	0	.	6.3825	0.21542	0.2172:0.0:0.0:0.7828	.	3	Q96CP2	FWCH2_HUMAN	R	3	.	ENSP00000293981:L3R	L	+	2	0	FLYWCH2	2886459	0.936000	0.31750	0.877000	0.34402	0.638000	0.38207	0.665000	0.25083	0.717000	0.32145	0.334000	0.21626	CTG		0.672	FLYWCH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250944.1	NM_138439		G	2946458	T	G	2946458	3	3	594	1	0	0	0	0	1	0	0	0	5955	1580	55	5	10	5	FLYWCH2	16	2946458	Missense_Mutation	SNP	T	TCGA-G7-7501-01A-11D-2201-08	4	2946458	87408295	37	35442	270	3								
FLYWCH2	114984	hgsc.bcm.edu;bcgsc.ca	37	chr16	2946461	2946461	+	Missense_Mutation	SNP	C	C	A													0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	gggtcccgggatgcccctgcCcgagcccagcgagcaggagg							TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr16:2946461C>A	ENST00000396958.3	+	3	391	c.11C>A	c.(10-12)cCc>cAc	p.P4H	FLYWCH2_ENST00000293981.6_Missense_Mutation_p.P4H|FLYWCH2_ENST00000572006.1_Missense_Mutation_p.P4H	NM_001142500.1|NM_138439.2	NP_001135972.1|NP_612448.1	Q96CP2	FWCH2_HUMAN	FLYWCH family member 2	4							poly(A) RNA binding (GO:0044822)			central_nervous_system(1)|lung(3)|ovary(1)|skin(1)	6						ATGCCCCTGCCCGAGCCCAGC	0.672																																																0													28	36	33					16																	2946461		2197	4300	6497	SO:0001583	missense	114984			BC014089	CCDS10482.1	16p13.3	2014-02-12	2007-06-21		ENSG00000162076	ENSG00000162076			25178	protein-coding gene	gene with protein product						12477932	Standard	NM_138439		Approved		uc010uwk.2	Q96CP2	OTTHUMG00000128962	ENST00000396958.3:c.11C>A	16.37:g.2946461C>A	ENSP00000380159:p.Pro4His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000396958.3	37	CCDS10482.1	.	.	.	.	.	.	.	.	.	.	C	12.81	2.050286	0.36181	.	.	ENSG00000162076	ENST00000396958;ENST00000293981	.	.	.	3.6	3.6	0.41247	.	0.236227	0.22090	N	0.064771	T	0.45316	0.1336	L	0.34521	1.04	0.21697	N	0.999582	D	0.65815	0.995	P	0.57468	0.821	T	0.26121	-1.0112	9	0.87932	D	0	.	11.0322	0.47781	0.0:1.0:0.0:0.0	.	4	Q96CP2	FWCH2_HUMAN	H	4	.	ENSP00000293981:P4H	P	+	2	0	FLYWCH2	2886462	0.035000	0.19736	0.510000	0.27712	0.655000	0.38815	1.813000	0.38962	2.322000	0.78497	0.407000	0.27541	CCC		0.672	FLYWCH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250944.1	NM_138439		A	2946461	C	A	2946461	3	1	594	1	0	0	0	0	1	0	0	0	5955	623	22	4	13	4	FLYWCH2	16	2946461	Missense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08	3	2946461	87408292	38	35443	270	3								
RBBP6	5930	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	24582258	24582258	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	aaaaaacagatacaaagcgaActgtgattaaaacgatggaa	8	5	0	2			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr16:24582258A>C	ENST00000319715.4	+	18	4303	c.3871A>C	c.(3871-3873)Act>Cct	p.T1291P	RBBP6_ENST00000381039.3_Missense_Mutation_p.T451P|RBBP6_ENST00000348022.2_Missense_Mutation_p.T1257P	NM_006910.4	NP_008841.2	Q7Z6E9	RBBP6_HUMAN	retinoblastoma binding protein 6	1291					embryonic organ development (GO:0048568)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|somite development (GO:0061053)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)	ligase activity (GO:0016874)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(10)|lung(17)|ovary(4)|pancreas(1)|prostate(2)|urinary_tract(1)	46				GBM - Glioblastoma multiforme(48;0.0518)		TACAAAGCGAACTGTGATTAA	0.343																																																0													44	43	43					16																	24582258		2197	4300	6497	SO:0001583	missense	5930				CCDS10621.1, CCDS10622.1, CCDS45444.1	16p12.2	2008-08-04	2001-11-28		ENSG00000122257	ENSG00000122257			9889	protein-coding gene	gene with protein product	"proliferation potential-related protein"	600938	"retinoblastoma-binding protein 6"			8595913, 16396680	Standard	NM_006910		Approved	P2P-R, PACT, SNAMA	uc002dmh.3	Q7Z6E9	OTTHUMG00000096991	ENST00000319715.4:c.3871A>C	16.37:g.24582258A>C	ENSP00000317872:p.Thr1291Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q147T5|Q15290|Q6DKH4|Q6P4C2|Q6YNC9|Q7Z6E8|Q8N0V2|Q96PH3|Q9H3I8|Q9H5M5|Q9NPX4	Missense_Mutation	SNP	ENST00000319715.4	37	CCDS10621.1	.	.	.	.	.	.	.	.	.	.	A	16.89	3.248060	0.59103	.	.	ENSG00000122257	ENST00000381039;ENST00000319715;ENST00000348022	T;T;T	0.34667	1.35;1.46;1.36	5.6	5.6	0.85130	.	0.161807	0.42420	D	0.000707	T	0.49406	0.1555	L	0.32530	0.975	0.47621	D	0.999476	D;D;D	0.89917	1.0;0.999;0.998	D;D;D	0.87578	0.998;0.997;0.994	T	0.40794	-0.9544	10	0.35671	T	0.21	-16.9171	16.0786	0.80985	1.0:0.0:0.0:0.0	.	451;1257;1291	Q7Z6E9-4;Q7Z6E9-2;Q7Z6E9	.;.;RBBP6_HUMAN	P	451;1291;1257	ENSP00000370427:T451P;ENSP00000317872:T1291P;ENSP00000316291:T1257P	ENSP00000317872:T1291P	T	+	1	0	RBBP6	24489759	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.465000	0.80898	2.254000	0.74563	0.460000	0.39030	ACT		0.343	RBBP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214067.2	NM_006910		C	24582258	A	C	24582258	3	2	594	1	0	0	0	0	1	0	0	0	13116	43	2	5	3995	5	RBBP6	16	24582258	Missense_Mutation	SNP	A	TCGA-G7-7501-01A-11D-2201-08	21635797	24582258	65772495	39	35444										
FBXO31	79791	hgsc.bcm.edu	37	chr16	87377237	87377237	+	Nonsense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	tggtggggccctttgtggccGtacatgcactccactgtggc	14	12	0	0			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr16:87377237G>C	ENST00000311635.7	-	4	636	c.624C>G	c.(622-624)taC>taG	p.Y208*		NM_001282683.1|NM_024735.3	NP_001269612.1|NP_079011.3	Q5XUX0	FBX31_HUMAN	F-box protein 31	208					cellular response to DNA damage stimulus (GO:0006974)|cyclin catabolic process (GO:0008054)|mitotic G1 DNA damage checkpoint (GO:0031571)|protein ubiquitination (GO:0016567)|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146)	SCF ubiquitin ligase complex (GO:0019005)	cyclin binding (GO:0030332)			endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(5)|prostate(1)|skin(1)	17				BRCA - Breast invasive adenocarcinoma(80;0.0272)		CTTTGTGGCCGTACATGCACT	0.637																																																0													57	52	54					16																	87377237		2198	4300	6498	SO:0001587	stop_gained	79791			BC002985	CCDS32501.1, CCDS73922.1	16q24	2008-12-18	2004-05-27			ENSG00000103264		"F-boxes /  "other""	16510	protein-coding gene	gene with protein product		609102	"F-box only protein 31"				Standard	NM_024735		Approved	FBX14, FBXO14, Fbx31, MGC15419	uc002fjw.3	Q5XUX0		ENST00000311635.7:c.624C>G	16.37:g.87377237G>C	ENSP00000310841:p.Tyr208*	Somatic		WXS	Illumina HiSeq	Phase_I	Q5K680|Q8WYV1|Q96D73|Q9UFV4	Nonsense_Mutation	SNP	ENST00000311635.7	37	CCDS32501.1	.	.	.	.	.	.	.	.	.	.	G	25.5	4.648589	0.87958	.	.	ENSG00000103264	ENST00000311635	.	.	.	5.33	-5.65	0.02459	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-6.2952	15.8179	0.78618	0.859:0.0:0.141:0.0	.	.	.	.	X	208	.	ENSP00000310841:Y208X	Y	-	3	2	FBXO31	85934738	0.054000	0.20591	0.911000	0.35937	0.879000	0.50718	-0.401000	0.07232	-0.907000	0.03862	-0.794000	0.03295	TAC		0.637	FBXO31-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000430799.2	NM_024735		C	87377237	G	C	87377237	4	2	594	1	0	0	0	0	0	1	0	0	5748	1140	40	4	1019	4	FBXO31	16	87377237	Nonsense_Mutation	SNP	G	TCGA-G7-7501-01A-11D-2201-08	62794979	87377237	2977516	40	35445										
KIAA0664	23277	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	2601830	2601830	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	gttgatggccatcacgttgcCgtcaatgacggccatggcgc	13	12	2	2			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr17:2601830C>T	ENST00000570628.2	-	10	1312	c.1207G>A	c.(1207-1209)Ggc>Agc	p.G403S	CLUH_ENST00000435359.1_Missense_Mutation_p.G403S|CLUH_ENST00000538975.1_Missense_Mutation_p.G403S			O75153	CLU_HUMAN	clustered mitochondria (cluA/CLU1) homolog	403					intracellular distribution of mitochondria (GO:0048312)	cytoplasm (GO:0005737)											ATCACGTTGCCGTCAATGACG	0.622																																																0													25	27	26					17																	2601830		2122	4232	6354	SO:0001583	missense	23277			AB014564	CCDS45572.1	17p13.3	2012-12-18	2012-11-30	2012-11-30	ENSG00000132361	ENSG00000132361			29094	protein-coding gene	gene with protein product			"KIAA0664"	KIAA0664			Standard	XM_005256567		Approved	CLU1	uc002fuy.1	O75153	OTTHUMG00000177575	ENST00000570628.2:c.1207G>A	17.37:g.2601830C>T	ENSP00000458986:p.Gly403Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6AHY2|Q6P3X7|Q6ZUG8|Q8N4U7|Q9BTA3|Q9H979	Missense_Mutation	SNP	ENST00000570628.2	37	CCDS45572.1	.	.	.	.	.	.	.	.	.	.	C	33	5.280323	0.95489	.	.	ENSG00000132361	ENST00000435359;ENST00000322335;ENST00000538975	D;D	0.83075	-1.68;-1.68	5.41	5.41	0.78517	.	0.000000	0.85682	D	0.000000	D	0.92899	0.7741	M	0.89904	3.07	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.94006	0.7280	10	0.72032	D	0.01	.	18.1762	0.89762	0.0:1.0:0.0:0.0	.	403;403	O75153;C9J6D7	K0664_HUMAN;.	S	403	ENSP00000388872:G403S;ENSP00000439628:G403S	ENSP00000320468:G403S	G	-	1	0	KIAA0664	2548580	1.000000	0.71417	0.993000	0.49108	0.657000	0.38888	7.482000	0.81143	2.532000	0.85374	0.655000	0.94253	GGC		0.622	CLUH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437807.2	NM_015229		T	2601830	C	T	2601830	3	4	594	1	0	0	0	0	1	0	0	0	8196	652	23	1	2790	1	KIAA0664	17	2601830	Missense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08		2601830	78593380	41	35446										
NPTX1	4884	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	78444656	78444656	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	cgaaggtccacttggtggccCctccgtagatctcgatgtgg	13	12	1	1			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr17:78444656C>A	ENST00000306773.4	-	5	1413	c.1256G>T	c.(1255-1257)gGg>gTg	p.G419V	NPTX1_ENST00000575212.1_5'Flank	NM_002522.3	NP_002513.2	Q15818	NPTX1_HUMAN	neuronal pentraxin I	419	Pentaxin.				axonogenesis involved in innervation (GO:0060385)|cellular response to glucose stimulus (GO:0071333)|cellular response to potassium ion (GO:0035865)|central nervous system development (GO:0007417)|mitochondrial fragmentation involved in apoptotic process (GO:0043653)|mitochondrial transport (GO:0006839)|synaptic transmission (GO:0007268)|transport (GO:0006810)	cytoplasmic vesicle (GO:0031410)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)			kidney(1)|large_intestine(2)|liver(1)|lung(4)|prostate(2)|upper_aerodigestive_tract(1)	11	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0487)			CTTGGTGGCCCCTCCGTAGAT	0.657																																																0													66	60	62					17																	78444656		2203	4299	6502	SO:0001583	missense	4884			U61849	CCDS32762.1	17q25.3	2008-05-14				ENSG00000171246			7952	protein-coding gene	gene with protein product		602367				8884281	Standard	NM_002522		Approved		uc002jyp.1	Q15818		ENST00000306773.4:c.1256G>T	17.37:g.78444656C>A	ENSP00000307549:p.Gly419Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXH3|Q5FWE6	Missense_Mutation	SNP	ENST00000306773.4	37	CCDS32762.1	.	.	.	.	.	.	.	.	.	.	C	21.2	4.110877	0.77210	.	.	ENSG00000171246	ENST00000306773;ENST00000535681	T	0.61392	0.11	5.55	5.55	0.83447	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);	0.109437	0.64402	D	0.000008	D	0.82568	0.5065	M	0.92784	3.345	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.86396	0.1739	10	0.72032	D	0.01	-9.2608	19.0994	0.93268	0.0:1.0:0.0:0.0	.	419	Q15818	NPTX1_HUMAN	V	419;181	ENSP00000307549:G419V	ENSP00000307549:G419V	G	-	2	0	NPTX1	76059251	1.000000	0.71417	0.179000	0.23059	0.423000	0.31445	7.541000	0.82084	2.607000	0.88179	0.561000	0.74099	GGG		0.657	NPTX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438051.1			A	78444656	C	A	78444656	3	1	594	1	0	0	0	0	1	0	0	0	10609	623	22	4	46	4	NPTX1	17	78444656	Missense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08	75842826	78444656	2750554	42	35447										
PRKCSH	5589	hgsc.bcm.edu	37	chr19	11558370	11558370	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	gaggaggaggaggaggaggaGgaagaagaggctgaagaaga	22	1	0	5	rs77563879		TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr19:11558370G>A	ENST00000589838.1	+	10	966	c.966G>A	c.(964-966)gaG>gaA	p.E322E	PRKCSH_ENST00000412601.1_Silent_p.E322E|PRKCSH_ENST00000587327.1_Silent_p.E322E|PRKCSH_ENST00000591462.1_Silent_p.E322E|PRKCSH_ENST00000592741.1_Silent_p.E322E|PRKCSH_ENST00000252455.2_Silent_p.E322E			P14314	GLU2B_HUMAN	protein kinase C substrate 80K-H	322	Glu-rich (acidic).				cellular protein metabolic process (GO:0044267)|in utero embryonic development (GO:0001701)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|liver development (GO:0001889)|N-glycan processing (GO:0006491)|negative regulation of neuron projection development (GO:0010977)|nitrogen compound metabolic process (GO:0006807)|post-translational protein modification (GO:0043687)|protein folding (GO:0006457)|protein heterooligomerization (GO:0051291)|protein N-linked glycosylation via asparagine (GO:0018279)|renal system development (GO:0072001)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum lumen (GO:0005788)|intracellular (GO:0005622)	calcium ion binding (GO:0005509)|ion channel binding (GO:0044325)|phosphoprotein binding (GO:0051219)|protein kinase C binding (GO:0005080)|RNA binding (GO:0003723)	p.E321_E322delEE(1)		breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(7)|ovary(2)|pancreas(1)|prostate(3)	19						aggaggaggaggaagaagagg	0.632																																																1	Deletion - In frame(1)	central_nervous_system(1)											27	27	27					19																	11558370		2200	4298	6498	SO:0001819	synonymous_variant	5589				CCDS32911.1, CCDS45977.1, CCDS74286.1	19p13.2	2014-01-30			ENSG00000130175	ENSG00000130175	2.7.11.1	"EF-hand domain containing"	9411	protein-coding gene	gene with protein product		177060	"polycystic liver disease"	G19P1, PCLD, PLD1		12529853	Standard	NM_002743		Approved		uc002mrt.3	P14314	OTTHUMG00000182029	ENST00000589838.1:c.966G>A	19.37:g.11558370G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K318|Q96BU9|Q96D06|Q9P0W9	Silent	SNP	ENST00000589838.1	37	CCDS32911.1																																																																																				0.632	PRKCSH-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000458817.1			A	11558370	G	A	11558370	2	1	594	1	0	0	0	0	0	0	0	1	12526	991	35	2		2	PRKCSH	19	11558370	Silent	SNP	G	TCGA-G7-7501-01A-11D-2201-08		11558370	47570613	43	35448										
ZNF700	90592	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	12060128	12060128	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	tgggaaagccttcagatctgCctcacagcttcgagtgcacg	11	12	3	1			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr19:12060128C>T	ENST00000254321.5	+	4	1432	c.1289C>T	c.(1288-1290)gCc>gTc	p.A430V	ZNF763_ENST00000591944.1_Intron|ZNF700_ENST00000482090.1_Missense_Mutation_p.A412V|ZNF763_ENST00000590798.1_Intron|CTD-2006C1.12_ENST00000586394.1_RNA|ZNF763_ENST00000538752.1_Intron	NM_001271848.1|NM_144566.1	NP_001258777.1|NP_653167.1	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	430					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)		ZNF700/MAST1_ENST00000251472(2)	breast(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(9)|lung(13)|pancreas(1)|prostate(1)|urinary_tract(1)	33						TTCAGATCTGCCTCACAGCTT	0.473																																																0													91	82	85					19																	12060128		2203	4300	6503	SO:0001583	missense	90592			AL136732	CCDS32915.1, CCDS74289.1	19p13.2	2013-01-08			ENSG00000196757	ENSG00000196757		"Zinc fingers, C2H2-type", "-"	25292	protein-coding gene	gene with protein product							Standard	NM_144566		Approved	DKFZp434I1610	uc031rjk.1	Q9H0M5	OTTHUMG00000156421	ENST00000254321.5:c.1289C>T	19.37:g.12060128C>T	ENSP00000254321:p.Ala430Val	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGU4	Missense_Mutation	SNP	ENST00000254321.5	37	CCDS32915.1	.	.	.	.	.	.	.	.	.	.	c	4.742	0.138029	0.09083	.	.	ENSG00000196757	ENST00000254321	T	0.34072	1.38	0.606	0.606	0.17559	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.17450	0.0419	N	0.16708	0.43	0.09310	N	1	B	0.27910	0.193	B	0.21708	0.036	T	0.23868	-1.0176	9	0.17832	T	0.49	.	5.5675	0.17179	0.3178:0.6822:0.0:0.0	.	430	Q9H0M5	ZN700_HUMAN	V	430	ENSP00000254321:A430V	ENSP00000254321:A430V	A	+	2	0	ZNF700	11921128	0.000000	0.05858	0.001000	0.08648	0.090000	0.18270	-0.886000	0.04157	0.577000	0.29470	0.195000	0.17529	GCC		0.473	ZNF700-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344126.2	NM_144566		T	12060128	C	T	12060128	3	4	594	1	0	0	0	0	1	0	0	0	18116	739	26	2	1303	2	ZNF700	19	12060128	Missense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08	501758	12060128	47068855	44	35449										
PLEKHG2	64857	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	39914552	39914552	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	ccaatttgcctaagcaagacCttccgggcatccacgtttca	7	14	1	1			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr19:39914552C>G	ENST00000409794.3	+	19	3629	c.2779C>G	c.(2779-2781)Ctt>Gtt	p.L927V	PLEKHG2_ENST00000425673.1_Missense_Mutation_p.L898V|CTB-60E11.4_ENST00000601124.1_lincRNA|PLEKHG2_ENST00000458508.2_Missense_Mutation_p.L868V|PLEKHG2_ENST00000378550.1_Intron|PLEKHG2_ENST00000409797.2_Intron	NM_022835.2	NP_073746.2	Q9H7P9	PKHG2_HUMAN	pleckstrin homology domain containing, family G (with RhoGef domain) member 2	927					apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(3)|central_nervous_system(1)|endometrium(8)|kidney(2)|large_intestine(2)|liver(1)|lung(13)|pancreas(1)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	40	all_cancers(60;3.08e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;6.57e-07)|Ovarian(47;0.0569)		Epithelial(26;2.92e-26)|all cancers(26;2.01e-23)|Lung(45;0.000499)|LUSC - Lung squamous cell carcinoma(53;0.000657)			TAAGCAAGACCTTCCGGGCAT	0.577																																																0													75	73	74					19																	39914552		2203	4300	6503	SO:0001583	missense	64857			AK024429	CCDS33022.2	19q13.2	2013-01-11			ENSG00000090924	ENSG00000090924		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	29515	protein-coding gene	gene with protein product		611893				11839748, 18045877	Standard	NM_022835		Approved	CLG, FLJ00018, ARHGEF42	uc010xuz.2	Q9H7P9	OTTHUMG00000152570	ENST00000409794.3:c.2779C>G	19.37:g.39914552C>G	ENSP00000386733:p.Leu927Val	Somatic		WXS	Illumina HiSeq	Phase_I	B8ZZK6|C9J0Y4|Q6DHV6|Q96BU2|Q96D18|Q9H699	Missense_Mutation	SNP	ENST00000409794.3	37	CCDS33022.2	.	.	.	.	.	.	.	.	.	.	C	6.255	0.415175	0.11870	.	.	ENSG00000090924	ENST00000409794;ENST00000425673;ENST00000458508	T;T;T	0.69306	-0.26;-0.28;-0.39	4.94	2.56	0.30785	.	1.430940	0.04629	N	0.403390	T	0.50905	0.1643	N	0.08118	0	0.41040	D	0.985222	B;B;B	0.12630	0.003;0.002;0.006	B;B;B	0.06405	0.002;0.001;0.001	T	0.27606	-1.0069	10	0.72032	D	0.01	.	11.6779	0.51440	0.0:0.5758:0.4242:0.0	.	898;927;868	Q9H7P9-3;Q9H7P9;E7ESZ3	.;PKHG2_HUMAN;.	V	927;898;868	ENSP00000386733:L927V;ENSP00000392906:L898V;ENSP00000408857:L868V	ENSP00000386733:L927V	L	+	1	0	PLEKHG2	44606392	0.001000	0.12720	0.688000	0.30117	0.059000	0.15707	1.112000	0.31172	1.207000	0.43291	0.655000	0.94253	CTT		0.577	PLEKHG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000326802.1	NM_022835		G	39914552	C	G	39914552	3	3	594	1	0	0	0	0	1	0	0	0	12076	681	24	4	2849	4	PLEKHG2	19	39914552	Missense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08	27854424	39914552	19214431	45	35450										
ZNF45	7596	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	44418234	44418234	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	atttgaggcctggctgaagcCcttgccacactcctcacatt	8	14	1	2			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr19:44418234C>T	ENST00000269973.5	-	10	2444	c.1354G>A	c.(1354-1356)Ggc>Agc	p.G452S	RP11-15A1.2_ENST00000586247.1_RNA|ZNF45_ENST00000589703.1_Missense_Mutation_p.G452S	NM_003425.3	NP_003416.1	Q02386	ZNF45_HUMAN	zinc finger protein 45	452					gene expression (GO:0010467)|multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|transcription initiation from RNA polymerase II promoter (GO:0006367)	nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(4)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)	17						TGGCTGAAGCCCTTGCCACAC	0.483																																																0													62	63	63					19																	44418234		2203	4300	6503	SO:0001583	missense	7596			M67509	CCDS12632.1	19q13.2	2013-01-08	2005-01-11			ENSG00000124459		"Zinc fingers, C2H2-type", "-"	13111	protein-coding gene	gene with protein product		194554	"zinc finger protein 45 (a Kruppel-associated box (KRAB) domain polypeptide)", "zinc finger protein 13"	ZNF13		9067431	Standard	NM_003425		Approved		uc002oxw.2	Q02386		ENST00000269973.5:c.1354G>A	19.37:g.44418234C>T	ENSP00000269973:p.Gly452Ser	Somatic		WXS	Illumina HiSeq	Phase_I	P17016|P78472|Q9P1U9	Missense_Mutation	SNP	ENST00000269973.5	37	CCDS12632.1	.	.	.	.	.	.	.	.	.	.	C	14.96	2.692770	0.48202	.	.	ENSG00000124459	ENST00000269973	T	0.35421	1.31	3.62	3.62	0.41486	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.37178	N	0.002211	T	0.17023	0.0409	N	0.01122	-1.005	0.26498	N	0.974814	B	0.34349	0.45	B	0.42995	0.404	T	0.15464	-1.0436	10	0.44086	T	0.13	-11.8092	10.0287	0.42087	0.2022:0.7977:0.0:0.0	.	452	Q02386	ZNF45_HUMAN	S	452	ENSP00000269973:G452S	ENSP00000269973:G452S	G	-	1	0	ZNF45	49110074	0.000000	0.05858	0.984000	0.44739	0.830000	0.47004	0.090000	0.15025	2.030000	0.59900	0.462000	0.41574	GGC		0.483	ZNF45-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459919.1	NM_003425		T	44418234	C	T	44418234	3	4	594	1	0	0	0	0	1	0	0	0	17933	623	22	2	698	2	ZNF45	19	44418234	Missense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08	4503682	44418234	14710749	46	35451										
SLC8A2	6543	hgsc.bcm.edu;broad.mit.edu	37	chr19	47969527	47969527	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	ccggctggcagcggtaggacCcctggcagccccctgtgctg	15	16	0	0			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr19:47969527C>T	ENST00000236877.6	-	2	529	c.134G>A	c.(133-135)gGg>gAg	p.G45E	SLC8A2_ENST00000542837.1_Intron|SLC8A2_ENST00000539381.1_Intron	NM_015063.2	NP_055878.1	Q9UPR5	NAC2_HUMAN	solute carrier family 8 (sodium/calcium exchanger), member 2	45					blood coagulation (GO:0007596)|cell communication (GO:0007154)|ion transport (GO:0006811)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium:sodium antiporter activity (GO:0005432)			breast(1)|endometrium(4)|kidney(2)|large_intestine(4)|lung(10)|ovary(2)|prostate(2)|skin(5)|stomach(1)	31		all_cancers(25;3.05e-07)|all_lung(116;4.19e-06)|Lung NSC(112;7.16e-06)|all_epithelial(76;7.65e-06)|all_neural(266;0.0652)|Ovarian(192;0.086)|Breast(70;0.173)		OV - Ovarian serous cystadenocarcinoma(262;0.000501)|all cancers(93;0.00058)|Epithelial(262;0.0181)|GBM - Glioblastoma multiforme(486;0.0457)		GCGGTAGGACCCCTGGCAGCC	0.731																																																0													10	9	9					19																	47969527		2191	4277	6468	SO:0001583	missense	6543			AB029010	CCDS33065.1	19q13.32	2013-07-15	2008-09-02		ENSG00000118160	ENSG00000118160		"Solute carriers"	11069	protein-coding gene	gene with protein product		601901				8021246	Standard	NM_015063		Approved	NCX2, KIAA1087	uc002pgx.3	Q9UPR5	OTTHUMG00000183529	ENST00000236877.6:c.134G>A	19.37:g.47969527C>T	ENSP00000236877:p.Gly45Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYQ9	Missense_Mutation	SNP	ENST00000236877.6	37	CCDS33065.1	.	.	.	.	.	.	.	.	.	.	C	14.41	2.525726	0.44969	.	.	ENSG00000118160	ENST00000236877	T	0.30448	1.53	4.25	3.19	0.36642	.	0.402651	0.22338	N	0.061364	T	0.23611	0.0571	L	0.51914	1.62	0.21782	N	0.999548	B	0.06786	0.001	B	0.06405	0.002	T	0.25433	-1.0132	10	0.10111	T	0.7	.	9.7772	0.40626	0.0:0.7898:0.2102:0.0	.	45	Q9UPR5	NAC2_HUMAN	E	45	ENSP00000236877:G45E	ENSP00000236877:G45E	G	-	2	0	SLC8A2	52661339	0.158000	0.22850	0.999000	0.59377	0.952000	0.60782	1.497000	0.35649	0.979000	0.38497	0.462000	0.41574	GGG		0.731	SLC8A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466997.1			T	47969527	C	T	47969527	3	4	594	1	0	0	0	0	1	0	0	0	14720	623	22	2	2667	2	SLC8A2	19	47969527	Missense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08	3551293	47969527	11159456	47	35452										
ZNF606	80095	broad.mit.edu	37	chr19	58490170	58490170	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	caggattttccacatttattAcattcatagggcttaattcc	5	9	1	0			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr19:58490170A>G	ENST00000341164.4	-	7	2498	c.1878T>C	c.(1876-1878)tgT>tgC	p.C626C	ZNF606_ENST00000536132.1_Silent_p.C536C	NM_025027.3	NP_079303.2	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	626					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(2)|endometrium(4)|kidney(1)|large_intestine(5)|lung(10)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	26		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)		CACATTTATTACATTCATAGG	0.383																																																0													87	86	86					19																	58490170		2203	4300	6503	SO:0001819	synonymous_variant	80095			AB058755	CCDS12968.1	19q13.43	2013-01-08			ENSG00000166704	ENSG00000166704		"Zinc fingers, C2H2-type", "-"	25879	protein-coding gene	gene with protein product		613905		ZNF328		11347906	Standard	XM_005259276		Approved	FLJ14260, KIAA1852	uc002qqw.3	Q8WXB4	OTTHUMG00000169804	ENST00000341164.4:c.1878T>C	19.37:g.58490170A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8KAN2|Q8NE04|Q96JH5	Silent	SNP	ENST00000341164.4	37	CCDS12968.1																																																																																				0.383	ZNF606-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405961.1	NM_025027		G	58490170	A	G	58490170	2	3	594	1	0	0	0	0	0	0	0	1	18044	389	14	3		3	ZNF606	19	58490170	Silent	SNP	A	TCGA-G7-7501-01A-11D-2201-08	10520643	58490170	638813	48	35453										
NAPB	63908	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	23370612	23370612	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	gatctcaatggctttctggtActgctcaagctgggcagcat	11	10	3	0			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr20:23370612A>G	ENST00000377026.4	-	7	617	c.532T>C	c.(532-534)Tac>Cac	p.Y178H	NAPB_ENST00000432543.2_Missense_Mutation_p.Y139H|NAPB_ENST00000398425.3_Missense_Mutation_p.Y84H|NAPB_ENST00000472855.1_5'UTR	NM_001283018.1|NM_001283020.1|NM_022080.2	NP_001269947.1|NP_001269949.1|NP_071363.1	Q9H115	SNAB_HUMAN	N-ethylmaleimide-sensitive factor attachment protein, beta	178					intracellular protein transport (GO:0006886)|regulation of synaptic vesicle priming (GO:0010807)|SNARE complex disassembly (GO:0035494)|synaptic transmission, glutamatergic (GO:0035249)	extracellular vesicular exosome (GO:0070062)|synaptobrevin 2-SNAP-25-syntaxin-1a complex (GO:0070044)				endometrium(1)|kidney(2)|large_intestine(2)|lung(5)|ovary(1)|skin(1)	12	Lung NSC(19;0.0646)|Colorectal(13;0.0993)|all_lung(19;0.143)					GCTTTCTGGTACTGCTCAAGC	0.398																																																0													101	99	99					20																	23370612		2203	4300	6503	SO:0001583	missense	63908			AK022817	CCDS13152.1, CCDS63241.1, CCDS63242.1, CCDS74710.1	20p12.3-p11.21	2008-08-01			ENSG00000125814	ENSG00000125814			15751	protein-coding gene	gene with protein product		611270				8455721	Standard	NM_022080		Approved	SNAP-BETA, SNAPB	uc002wta.3	Q9H115	OTTHUMG00000032062	ENST00000377026.4:c.532T>C	20.37:g.23370612A>G	ENSP00000366225:p.Tyr178His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DK44|Q4G0M0|Q4G187|Q5JXF9|Q8N3C4	Missense_Mutation	SNP	ENST00000377026.4	37	CCDS13152.1	.	.	.	.	.	.	.	.	.	.	A	28.2	4.897519	0.91962	.	.	ENSG00000125814	ENST00000377026;ENST00000398425;ENST00000432543;ENST00000431864	T;T;T	0.48201	0.82;0.82;0.82	5.35	5.35	0.76521	Tetratricopeptide-like helical (1);	0.000000	0.85682	D	0.000000	T	0.77698	0.4169	H	0.97758	4.07	0.80722	D	1	D;D;D;D	0.65815	0.995;0.983;0.982;0.995	P;P;P;P	0.62435	0.902;0.82;0.848;0.902	D	0.86047	0.1523	10	0.87932	D	0	-17.6345	14.5087	0.67769	1.0:0.0:0.0:0.0	.	139;84;182;178	B4DK44;Q4G0M0;B4DIV0;Q9H115	.;.;.;SNAB_HUMAN	H	178;84;139;135	ENSP00000366225:Y178H;ENSP00000381459:Y84H;ENSP00000413600:Y139H	ENSP00000366225:Y178H	Y	-	1	0	NAPB	23318612	1.000000	0.71417	1.000000	0.80357	0.945000	0.59286	9.251000	0.95483	2.027000	0.59764	0.383000	0.25322	TAC		0.398	NAPB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078317.2	NM_022080		G	23370612	A	G	23370612	3	3	594	1	0	0	0	0	1	0	0	0	10169	391	14	3	384	3	NAPB	20	23370612	Missense_Mutation	SNP	A	TCGA-G7-7501-01A-11D-2201-08		23370612	39654908	49	35454										
LIPI	149998	hgsc.bcm.edu	37	chr21	15579137	15579137	+	Intron	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	tgaagttaaaagagattaccTgatctcaggcacacaactag	8	8	1	3			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr21:15579137T>C	ENST00000536861.1	-	1	46				LIPI_ENST00000344577.2_Splice_Site_p.S36S			Q6XZB0	LIPI_HUMAN	lipase, member I						lipid catabolic process (GO:0016042)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|membrane (GO:0016020)|plasma membrane (GO:0005886)	heparin binding (GO:0008201)|phospholipase activity (GO:0004620)			endometrium(1)|kidney(13)|large_intestine(9)|liver(3)|lung(24)|ovary(3)|urinary_tract(1)	54				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		agagattacctgatctcaggc	0.348																																																0													61	63	63					21																	15579137		2203	4300	6503	SO:0001627	intron_variant	149998			BC028732	CCDS13564.1	21q11.2	2012-07-31			ENSG00000188992	ENSG00000188992			18821	protein-coding gene	gene with protein product	"membrane-associated phospholipase A1 beta", "cancer/testis antigen 17"	609252				12719377	Standard	XM_005260924		Approved	PRED5, LPDL, CT17, mPA-PLA1beta, PLA1C	uc002yjm.3	Q6XZB0	OTTHUMG00000074258	ENST00000536861.1:c.46+3983A>G	21.37:g.15579137T>C		Somatic		WXS	Illumina HiSeq	Phase_I	G1JSG3|G1JSG4|G1JSG5|G1JSG6|G1JSG7|G1JSG8|G1JSG9	Silent	SNP	ENST00000536861.1	37																																																																																					0.348	LIPI-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_198996		C	15579137	T	C	15579137	1	2	594	0	1	0	0	0	0	0	0	0	8832	1594	55	3		3	LIPI	21	15579137	Intron	SNP	T	TCGA-G7-7501-01A-11D-2201-08		15579137	32550758	50	35455										
RIPK4	54101	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	43161570	43161570	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	cgtctgggcgttcacactcaCccccggctgcttggccagca	11	17	3	0			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr21:43161570C>A	ENST00000352483.2	-	9	1991	c.1927G>T	c.(1927-1929)Gtg>Ttg	p.V643L	RIPK4_ENST00000544709.1_Missense_Mutation_p.V532L|AP001615.9_ENST00000423276.1_RNA|RIPK4_ENST00000332512.3_Missense_Mutation_p.V595L|RIPK4_ENST00000542057.1_Missense_Mutation_p.V532L			P57078	RIPK4_HUMAN	receptor-interacting serine-threonine kinase 4	643					morphogenesis of an epithelium (GO:0002009)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(13)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	34						TTCACACTCACCCCCGGCTGC	0.682																																																0													55	55	55					21																	43161570		2203	4298	6501	SO:0001583	missense	54101			AJ278016	CCDS13675.1	21q22.3	2013-01-10	2004-07-06	2004-07-06	ENSG00000183421	ENSG00000183421		"Ankyrin repeat domain containing"	496	protein-coding gene	gene with protein product	"protein kinase C-associated kinase", "PKC-delta-interacting protein kinase"	605706	"ankyrin repeat domain 3"	ANKRD3		10830953	Standard	NM_020639		Approved	DIK, ANKK2, RIP4, PKK	uc002yzn.1	P57078	OTTHUMG00000086770	ENST00000352483.2:c.1927G>T	21.37:g.43161570C>A	ENSP00000330161:p.Val643Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q96KH0	Missense_Mutation	SNP	ENST00000352483.2	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	18.44|18.44	3.625278|3.625278	0.66901|0.66901	.|.	.|.	ENSG00000183421|ENSG00000183421	ENST00000330470|ENST00000332512;ENST00000352483;ENST00000544709;ENST00000542057	.|T;T;T;T	.|0.65364	.|2.4;2.4;-0.15;-0.15	4.89|4.89	3.99|3.99	0.46301|0.46301	.|.	.|0.235579	.|0.28694	.|N	.|0.014447	T|T	0.51007|0.51007	0.1649|0.1649	L|L	0.28504|0.28504	0.86|0.86	0.35928|0.35928	D|D	0.832337|0.832337	.|B	.|0.33940	.|0.433	.|B	.|0.33454	.|0.164	T|T	0.62101|0.62101	-0.6925|-0.6925	6|10	0.39692|0.62326	T|D	0.17|0.03	-26.51|-26.51	14.2846|14.2846	0.66238|0.66238	0.0:0.8502:0.1498:0.0|0.0:0.8502:0.1498:0.0	.|.	.|595	.|P57078-2	.|.	V|L	331|595;643;532;532	.|ENSP00000332454:V595L;ENSP00000330161:V643L;ENSP00000441754:V532L;ENSP00000442901:V532L	ENSP00000330975:G331V|ENSP00000332454:V595L	G|V	-|-	2|1	0|0	RIPK4|RIPK4	42034639|42034639	0.982000|0.982000	0.34865|0.34865	0.944000|0.944000	0.38274|0.38274	0.671000|0.671000	0.39405|0.39405	4.763000|4.763000	0.62257|0.62257	1.021000|1.021000	0.39600|0.39600	0.591000|0.591000	0.81541|0.81541	GGT|GTG		0.682	RIPK4-201	KNOWN	basic	protein_coding	protein_coding		NM_020639		A	43161570	C	A	43161570	3	1	594	1	0	0	0	0	1	0	0	0	13396	507	18	4	575	4	RIPK4	21	43161570	Missense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08	27582433	43161570	4968325	51	35456										
CCT8L2	150160	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	17073382	17073382	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	ctggactcctcgggctctccCttgggttcagtgccagccgc	12	16	2	0			TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chr22:17073382C>T	ENST00000359963.3	-	1	318	c.59G>A	c.(58-60)aGg>aAg	p.R20K		NM_014406.4	NP_055221.1	Q96SF2	TCPQM_HUMAN	chaperonin containing TCP1, subunit 8 (theta)-like 2	20					anion transport (GO:0006820)|cellular protein metabolic process (GO:0044267)|potassium ion transmembrane transport (GO:0071805)|transport (GO:0006810)	cytoplasm (GO:0005737)	anion channel activity (GO:0005253)|ATP binding (GO:0005524)|calcium-activated potassium channel activity (GO:0015269)			breast(3)|endometrium(7)|kidney(1)|large_intestine(8)|liver(2)|lung(37)|ovary(3)|prostate(3)|skin(2)|stomach(1)	67	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)				CGGGCTCTCCCTTGGGTTCAG	0.657																																																0													39	45	43					22																	17073382		2203	4300	6503	SO:0001583	missense	150160			AP003553	CCDS13738.1	22q11.1	2011-09-01			ENSG00000198445	ENSG00000198445			15553	protein-coding gene	gene with protein product							Standard	NM_014406		Approved	CESK1	uc002zlp.1	Q96SF2	OTTHUMG00000141302	ENST00000359963.3:c.59G>A	22.37:g.17073382C>T	ENSP00000353048:p.Arg20Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A4QPH3|Q9UJS3	Missense_Mutation	SNP	ENST00000359963.3	37	CCDS13738.1	.	.	.	.	.	.	.	.	.	.	c	0.015	-1.563933	0.00903	.	.	ENSG00000198445	ENST00000359963	T	0.55052	0.54	1.81	-1.91	0.07641	.	1.067860	0.07473	N	0.902516	T	0.23410	0.0566	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.24333	-1.0163	10	0.02654	T	1	-1.1577	5.1497	0.15004	0.0:0.3187:0.0:0.6813	.	20	Q96SF2	TCPQM_HUMAN	K	20	ENSP00000353048:R20K	ENSP00000353048:R20K	R	-	2	0	CCT8L2	15453382	0.000000	0.05858	0.000000	0.03702	0.025000	0.11179	-1.440000	0.02412	-0.377000	0.07930	0.393000	0.25936	AGG		0.657	CCT8L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280580.1			T	17073382	C	T	17073382	3	4	594	1	0	0	0	0	1	0	0	0	2963	681	24	2	1618	2	CCT8L2	22	17073382	Missense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08		17073382	34231184	52	35457										
SHROOM2	357	broad.mit.edu	37	chrX	9863548	9863548	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	cggatgcccgcgagacaggaCggtgttacccgctggacaaa	14	12	0	1	rs548293164		TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chrX:9863548C>T	ENST00000380913.3	+	4	1690	c.1600C>T	c.(1600-1602)Cgg>Tgg	p.R534W		NM_001649.2	NP_001640.1	Q13796	SHRM2_HUMAN	shroom family member 2	534					apical protein localization (GO:0045176)|brain development (GO:0007420)|camera-type eye development (GO:0043010)|camera-type eye morphogenesis (GO:0048593)|cell migration (GO:0016477)|cell-cell junction maintenance (GO:0045217)|cellular pigment accumulation (GO:0043482)|ear development (GO:0043583)|establishment of melanosome localization (GO:0032401)|eye pigment granule organization (GO:0008057)|lens morphogenesis in camera-type eye (GO:0002089)|melanosome organization (GO:0032438)|negative regulation of actin filament depolymerization (GO:0030835)|sodium ion transmembrane transport (GO:0035725)	apical plasma membrane (GO:0016324)|cell cortex (GO:0005938)|cell-cell adherens junction (GO:0005913)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|filamentous actin (GO:0031941)|microtubule (GO:0005874)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|beta-catenin binding (GO:0008013)|ligand-gated sodium channel activity (GO:0015280)			breast(4)|central_nervous_system(2)|cervix(3)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(13)|ovary(3)|prostate(3)|skin(6)|upper_aerodigestive_tract(2)	57		Hepatocellular(5;0.000888)				CGAGACAGGACGGTGTTACCC	0.692																																																0																																										SO:0001583	missense	357			X83543	CCDS14135.1	Xp22.3	2008-02-05	2006-07-20	2006-07-20	ENSG00000146950	ENSG00000146950			630	protein-coding gene	gene with protein product		300103	"apical protein, Xenopus laevis-like", "apical protein-like (Xenopus laevis)"	APXL		7795590, 16615870	Standard	NM_001649		Approved		uc004csu.1	Q13796	OTTHUMG00000021121	ENST00000380913.3:c.1600C>T	X.37:g.9863548C>T	ENSP00000370299:p.Arg534Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B9EIQ7	Missense_Mutation	SNP	ENST00000380913.3	37	CCDS14135.1	.	.	.	.	.	.	.	.	.	.	C	9.756	1.168773	0.21621	.	.	ENSG00000146950	ENST00000380913	T	0.15487	2.42	4.65	-9.3	0.00649	.	1.655670	0.03705	N	0.249200	T	0.08358	0.0208	L	0.34521	1.04	0.09310	N	1	D	0.62365	0.991	B	0.36766	0.232	T	0.33675	-0.9859	10	0.66056	D	0.02	-3.3611	1.8885	0.03243	0.3791:0.3151:0.1513:0.1545	.	534	Q13796	SHRM2_HUMAN	W	534	ENSP00000370299:R534W	ENSP00000370299:R534W	R	+	1	2	SHROOM2	9823548	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.272000	0.02826	-3.964000	0.00086	-2.129000	0.00344	CGG		0.692	SHROOM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055721.1	NM_001649		T	9863548	C	T	9863548	3	4	594	1	0	0	0	0	1	0	0	0	14307	527	19	1	1614	1	SHROOM2	23	9863548	Missense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08		9863548	145407012	53	35458										
TRPC5	7224	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	111090414	111090416	+	In_Frame_Del	DEL	TCA	TCA	-													0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	gctcatcgatagctctggttTcataatagaagtaaagctgg							TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	TCA	TCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chrX:111090414_111090416delTCA	ENST00000262839.2	-	6	2544_2546	c.1626_1628delTGA	c.(1624-1629)tatgaa>taa	p.542_543YE>*		NM_012471.2	NP_036603.1	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel, subfamily C, member 5	542					axon guidance (GO:0007411)|calcium ion transmembrane transport (GO:0070588)|calcium ion transport (GO:0006816)|ion transmembrane transport (GO:0034220)|nervous system development (GO:0007399)|transmembrane transport (GO:0055085)	calcium channel complex (GO:0034704)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium channel activity (GO:0005262)|inositol 1,4,5 trisphosphate binding (GO:0070679)|store-operated calcium channel activity (GO:0015279)			biliary_tract(1)|breast(4)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(6)|lung(38)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	62						AGCTCTGGTTTCATAATAGAAGT	0.433																																																0																																										SO:0001651	inframe_deletion	7224			AF054568	CCDS14561.1	Xq23	2014-06-13			ENSG00000072315	ENSG00000072315		"Voltage-gated ion channels / Transient receptor potential cation channels"	12337	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 159"	300334				10493832, 16382100	Standard	NM_012471		Approved	PPP1R159	uc004epl.1	Q9UL62	OTTHUMG00000022212	ENST00000262839.2:c.1626_1628delTGA	X.37:g.111090414_111090416delTCA	ENSP00000262839:p.Tyr542_Glu543delins*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP53|O75233|Q5JXY8|Q9Y514	In_Frame_Del	DEL	ENST00000262839.2	37	CCDS14561.1																																																																																				0.433	TRPC5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057945.1	NM_012471		-	111090416	TCA	-	111090414	7	5	594	1	0	1	0	1	0	0	0	0	16594	1783	62	0	1317	0	TRPC5	23	111090414	In_Frame_Del	DEL	TCA	TCGA-G7-7501-01A-11D-2201-08	101226866	111090414	44180146	54	35459										
MCF2	4168	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	138684576	138684576	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0188679245283019	1	1	0.299242424242424	0	0.486268939393939	1	1	0	ttactgtacctggaaaaatgCgcattctgaatacttcctcc	6	11	1	1	rs202133857		TCGA-G7-7501-01A-11D-2201-08	TCGA-G7-7501-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	37a54336-f21c-4e13-b4bb-c370f1e563c9	6bab150d-1510-4c7a-bb5d-ff665290e36a	g.chrX:138684576C>T	ENST00000370576.4	-	16	2034	c.1825G>A	c.(1825-1827)Gca>Aca	p.A609T	MCF2_ENST00000370573.4_Missense_Mutation_p.A609T|MCF2_ENST00000536274.1_Missense_Mutation_p.A570T|MCF2_ENST00000338585.6_Missense_Mutation_p.A625T|MCF2_ENST00000520602.1_Missense_Mutation_p.A669T|MCF2_ENST00000370578.4_Missense_Mutation_p.A754T|MCF2_ENST00000519895.1_Missense_Mutation_p.A685T|MCF2_ENST00000414978.1_Missense_Mutation_p.A669T	NM_001171879.1|NM_005369.4	NP_001165350.1|NP_005360.3	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	609	DH. {ECO:0000255|PROSITE- ProRule:PRU00062}.				apoptotic signaling pathway (GO:0097190)|dendrite development (GO:0016358)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(2)|cervix(2)|endometrium(4)|kidney(2)|large_intestine(15)|lung(34)|pancreas(1)|pleura(1)|prostate(1)	62	Acute lymphoblastic leukemia(192;0.000127)					TGGAAAAATGCGCATTCTGAA	0.294													C|||	1	0.000264901	0.0	0.0014	3775	,	,		14097	0.0		0.0	False		,,,				2504	0.0															0								C	THR/ALA,THR/ALA,THR/ALA,THR/ALA,THR/ALA,THR/ALA	4,3831		0,2,2,1630,569	142	140	141		2005,2053,1708,1825,1873,1825	4.5	1	X		141	0,6727		0,0,0,2428,1871	no	missense,missense,missense,missense,missense,missense	MCF2	NM_001099855.1,NM_001171876.1,NM_001171877.1,NM_001171878.1,NM_001171879.1,NM_005369.4	58,58,58,58,58,58	0,2,2,4058,2440	TT,TC,T,CC,C		0.0,0.1043,0.0379	benign,benign,benign,benign,benign,benign	669/986,685/1002,570/822,609/861,625/942,609/926	138684576	4,10558	2203	4299	6502	SO:0001583	missense	4168				CCDS14667.1, CCDS48175.1, CCDS55514.1, CCDS55515.1, CCDS55516.1, CCDS55517.1	Xq26.3-q27.1	2012-07-24			ENSG00000101977	ENSG00000101977		"Rho guanine nucleotide exchange factors"	6940	protein-coding gene	gene with protein product	"Oncogene MCF2 (oncogene DBL)"	311030				2577874, 1611909	Standard	NM_001099855		Approved	DBL, ARHGEF21	uc011mwo.1	P10911	OTTHUMG00000022537	ENST00000370576.4:c.1825G>A	X.37:g.138684576C>T	ENSP00000359608:p.Ala609Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3Y5|B7Z869|B7ZAV1|E9PH77|F5H091|P14919|Q5JYJ2|Q5JYJ3|Q5JYJ4|Q8IUF3|Q8IUF4|Q9UJB3	Missense_Mutation	SNP	ENST00000370576.4	37	CCDS14667.1	1|1	6.027727546714888E-4|6.027727546714888E-4	0|0	0.0|0.0	1|1	0.0027624309392265192|0.0027624309392265192	0|0	0.0|0.0	0|0	0.0|0.0	C|C	5.079|5.079	0.200151|0.200151	0.09652|0.09652	0.001043|0.001043	0.0|0.0	ENSG00000101977|ENSG00000101977	ENST00000520602;ENST00000370576;ENST00000536274;ENST00000370578;ENST00000414978;ENST00000446225;ENST00000519895;ENST00000370573;ENST00000338585|ENST00000437564	T;T;T;T;T;T;T;T;T|.	0.41758|.	0.99;0.99;0.99;0.99;0.99;0.99;0.99;0.99;0.99|.	5.35|5.35	4.48|4.48	0.54585|0.54585	Dbl homology (DH) domain (5);|.	0.395304|.	0.30940|.	N|.	0.008571|.	T|T	0.22085|0.22085	0.0532|0.0532	N|N	0.16266|0.16266	0.395|0.395	0.21147|0.21147	N|N	0.999771|0.999771	B;B;B;B;B;B;B;B|.	0.31581|.	0.209;0.175;0.282;0.329;0.282;0.329;0.085;0.04|.	B;B;B;B;B;B;B;B|.	0.29663|.	0.06;0.046;0.036;0.06;0.036;0.105;0.04;0.06|.	T|T	0.11542|0.11542	-1.0583|-1.0583	10|5	0.12430|.	T|.	0.62|.	.|.	5.6306|5.6306	0.17508|0.17508	0.1717:0.668:0.0:0.1603|0.1717:0.668:0.0:0.1603	.|.	685;754;570;609;609;754;625;609|.	E9PH77;B7Z3Z2;F5H091;B2R9S6;P10911-2;Q5JYJ7;P10911-4;P10911|.	.;.;.;.;.;.;.;MCF2_HUMAN|.	T|H	669;609;570;754;669;212;685;609;625|112	ENSP00000427745:A669T;ENSP00000359608:A609T;ENSP00000438155:A570T;ENSP00000359610:A754T;ENSP00000397055:A669T;ENSP00000405848:A212T;ENSP00000430276:A685T;ENSP00000359605:A609T;ENSP00000342204:A625T|.	ENSP00000342204:A625T|.	A|R	-|-	1|2	0|0	MCF2|MCF2	138512242|138512242	0.002000|0.002000	0.14202|0.14202	0.955000|0.955000	0.39395|0.39395	0.096000|0.096000	0.18686|0.18686	0.021000|0.021000	0.13489|0.13489	2.242000|2.242000	0.73789|0.73789	0.594000|0.594000	0.82650|0.82650	GCA|CGC		0.294	MCF2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000058560.1	NM_005369		T	138684576	C	T	138684576	3	4	594	1	0	0	0	0	1	0	0	0	9385	768	27	1	1020	1	MCF2	23	138684576	Missense_Mutation	SNP	C	TCGA-G7-7501-01A-11D-2201-08	27594162	138684576	16585984	55	35460										
PER3	8863	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	7845603	7845603	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	cgcaataaaccaagcactctAgatgccctcaactatgctct	5	14	3	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr1:7845603A>C	ENST00000361923.2	+	2	406	c.231A>C	c.(229-231)ctA>ctC	p.L77L	PER3_ENST00000377541.1_Silent_p.L77L|PER3_ENST00000377532.3_Silent_p.L77L	NM_016831.1	NP_058515.1	P56645	PER3_HUMAN	period circadian clock 3	77					circadian regulation of gene expression (GO:0032922)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of circadian sleep/wake cycle, sleep (GO:0045187)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	signal transducer activity (GO:0004871)			breast(4)|central_nervous_system(3)|cervix(2)|endometrium(2)|kidney(2)|large_intestine(9)|lung(8)|ovary(1)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	39	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		CAAGCACTCTAGATGCCCTCA	0.448																																																0													86	84	84					1																	7845603		2203	4300	6503	SO:0001819	synonymous_variant	8863			BC026102	CCDS89.1, CCDS72695.1	1p36.23	2012-12-13	2012-12-13		ENSG00000049246	ENSG00000049246			8847	protein-coding gene	gene with protein product		603427	"period (Drosophila) homolog 3", "period homolog 3 (Drosophila)"			9427249	Standard	XM_005263520		Approved		uc001aoo.3	P56645	OTTHUMG00000001216	ENST00000361923.2:c.231A>C	1.37:g.7845603A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5H8X4|Q5H8X5|Q969K6|Q96S77|Q96S78|Q9C0J3|Q9NSP9|Q9UGU8	Silent	SNP	ENST00000361923.2	37	CCDS89.1																																																																																				0.448	PER3-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000003607.1	NM_016831		C	7845603	A	C	7845603	2	2	595	1	0	0	0	0	0	0	0	1	11738	407	15	5		5	PER3	1	7845603	Silent	SNP	A	TCGA-G7-7502-01A-11D-2201-08		7845603	241405018	1	35461										
PRAMEF1	65121	broad.mit.edu	37	chr1	12855985	12855985	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tgaggagagtttgaattcctTggttcgtgtcaattgggaga	14	4	1	4			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr1:12855985T>C	ENST00000332296.7	+	4	1368	c.1265T>C	c.(1264-1266)tTg>tCg	p.L422S	PRAMEF1_ENST00000400814.3_Missense_Mutation_p.L177S	NM_023013.2	NP_075389.1	O95521	PRAM1_HUMAN	PRAME family member 1	422					negative regulation of apoptotic process (GO:0043066)|negative regulation of cell differentiation (GO:0045596)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)					cervix(1)|endometrium(2)|kidney(3)|large_intestine(6)|lung(14)|ovary(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	35	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TTGAATTCCTTGGTTCGTGTC	0.552																																																0													72	71	72					1																	12855985		2203	4296	6499	SO:0001583	missense	65121			AL049686	CCDS148.1	1p36.21	2013-01-17			ENSG00000116721	ENSG00000116721		"-"	28840	protein-coding gene	gene with protein product							Standard	NM_023013		Approved		uc001auj.2	O95521	OTTHUMG00000001928	ENST00000332296.7:c.1265T>C	1.37:g.12855985T>C	ENSP00000332134:p.Leu422Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UQP2	Missense_Mutation	SNP	ENST00000332296.7	37	CCDS148.1	.	.	.	.	.	.	.	.	.	.	.	0.161	-1.081469	0.01888	.	.	ENSG00000116721	ENST00000332296;ENST00000400814	T;T	0.01464	4.86;4.86	1.56	-3.12	0.05282	.	2.006700	0.02316	N	0.072532	T	0.01222	0.0040	N	0.12637	0.245	0.09310	N	1	P	0.35033	0.481	B	0.33454	0.164	T	0.40136	-0.9579	10	0.21540	T	0.41	.	4.7128	0.12880	0.201:0.0:0.5397:0.2593	.	422	O95521	PRAM1_HUMAN	S	422;177	ENSP00000332134:L422S;ENSP00000383616:L177S	ENSP00000332134:L422S	L	+	2	0	PRAMEF1	12778572	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-2.829000	0.00744	-2.159000	0.00787	-1.157000	0.01802	TTG		0.552	PRAMEF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005458.1	NM_023013		C	12855985	T	C	12855985	3	2	595	1	0	0	0	0	1	0	0	0	12435	1821	63	3	1275	3	PRAMEF1	1	12855985	Missense_Mutation	SNP	T	TCGA-G7-7502-01A-11D-2201-08	5010382	12855985	236394636	2	35462										
PTAFR	5724	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	28477260	28477260	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	aagaaaaggcagccagccacGttgcacaggaatttggggag	14	8	0	1	rs146920734		TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr1:28477260G>A	ENST00000373857.3	-	2	907	c.273C>T	c.(271-273)aaC>aaT	p.N91N	PTAFR_ENST00000539896.1_Silent_p.N91N|PTAFR_ENST00000305392.3_Silent_p.N91N	NM_000952.4|NM_001164722.2|NM_001164723.2	NP_000943.1|NP_001158194.1|NP_001158195.1	P25105	PTAFR_HUMAN	platelet-activating factor receptor	91					chemotaxis (GO:0006935)|cytokine production (GO:0001816)|cytokine-mediated signaling pathway (GO:0019221)|G-protein coupled receptor signaling pathway (GO:0007186)|immune response (GO:0006955)|inflammatory response (GO:0006954)|inositol trisphosphate biosynthetic process (GO:0032959)|interferon-gamma-mediated signaling pathway (GO:0060333)|phosphatidylinositol-mediated signaling (GO:0048015)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|lipopolysaccharide binding (GO:0001530)|lipopolysaccharide receptor activity (GO:0001875)|phospholipid binding (GO:0005543)|platelet activating factor receptor activity (GO:0004992)			NS(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(8)|stomach(1)	15		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00715)|all_lung(284;0.00732)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.215)|OV - Ovarian serous cystadenocarcinoma(117;6e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|STAD - Stomach adenocarcinoma(196;0.00678)|READ - Rectum adenocarcinoma(331;0.0649)		AGCCAGCCACGTTGCACAGGA	0.522																																																0								G	,,,	3,4403	8.1+/-20.4	0,3,2200	158	133	141		273,273,273,273	-1.6	0.1	1	dbSNP_134	141	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	PTAFR	NM_000952.4,NM_001164721.1,NM_001164722.2,NM_001164723.2	,,,	0,4,6499	AA,AG,GG		0.0116,0.0681,0.0308	,,,	91/343,91/343,91/343,91/343	28477260	4,13002	2203	4300	6503	SO:0001819	synonymous_variant	5724			BC063000	CCDS318.1	1p35-p34.3	2012-08-20			ENSG00000169403	ENSG00000169403		"GPCR / Class A : Platelet-activating factor receptors"	9582	protein-coding gene	gene with protein product		173393				1322356	Standard	NM_001164721		Approved		uc001bpl.3	P25105	OTTHUMG00000003953	ENST00000373857.3:c.273C>T	1.37:g.28477260G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A3KMC8|A8K2H5	Silent	SNP	ENST00000373857.3	37	CCDS318.1																																																																																				0.522	PTAFR-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000011258.1	NM_000952		A	28477260	G	A	28477260	2	1	595	1	0	0	0	0	0	0	0	1	12733	1136	40	1		1	PTAFR	1	28477260	Silent	SNP	G	TCGA-G7-7502-01A-11D-2201-08	15621275	28477260	220773361	3	35463										
MECR	51102	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	29520539	29520539	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	gctcttttgggatgatcacaTggtgagaatctgctttgaag	12	6	3	3			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr1:29520539T>A	ENST00000263702.6	-	10	1142	c.1117A>T	c.(1117-1119)Atg>Ttg	p.M373L	MECR_ENST00000373791.3_Missense_Mutation_p.M297L			Q9BV79	MECR_HUMAN	mitochondrial trans-2-enoyl-CoA reductase	373				M -> I (in Ref. 2; CAG32984). {ECO:0000305}.	fatty acid biosynthetic process (GO:0006633)|fatty acid metabolic process (GO:0006631)	mitochondrion (GO:0005739)	trans-2-enoyl-CoA reductase (NADPH) activity (GO:0019166)|zinc ion binding (GO:0008270)			NS(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(1)|ovary(2)|prostate(1)	11		Colorectal(325;0.000389)|Breast(348;0.00765)|Lung NSC(340;0.0081)|all_lung(284;0.00914)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.39e-07)|COAD - Colon adenocarcinoma(152;2.04e-05)|STAD - Stomach adenocarcinoma(196;0.0195)|BRCA - Breast invasive adenocarcinoma(304;0.053)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.137)		GATGATCACATGGTGAGAATC	0.597																																																0													87	89	88					1																	29520539		2203	4300	6503	SO:0001583	missense	51102				CCDS30659.1, CCDS30660.1	1p35.3	2012-09-20			ENSG00000116353	ENSG00000116353	1.3.1.38		19691	protein-coding gene	gene with protein product	"nuclear receptor binding factor 1", "mitochondrial 2-enoyl thioester reductase"	608205				9795230, 12654921	Standard	XM_005245885		Approved	CGI-63, NRBF1, FASN2B	uc001brq.1	Q9BV79	OTTHUMG00000059082	ENST00000263702.6:c.1117A>T	1.37:g.29520539T>A	ENSP00000263702:p.Met373Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KT72|Q5SYU0|Q5SYU1|Q5SYU2|Q6IBU9|Q9Y373	Missense_Mutation	SNP	ENST00000263702.6	37	CCDS30659.1	.	.	.	.	.	.	.	.	.	.	T	15.90	2.969746	0.53614	.	.	ENSG00000116353	ENST00000373791;ENST00000263702	T;T	0.03094	4.05;4.12	5.61	5.61	0.85477	.	0.129329	0.64402	D	0.000001	T	0.06325	0.0163	M	0.66939	2.045	0.49798	D	0.999822	B	0.12630	0.006	B	0.14578	0.011	T	0.27226	-1.0080	10	0.19147	T	0.46	.	13.7585	0.62950	0.0:0.0:0.0:1.0	.	373	Q9BV79	MECR_HUMAN	L	297;373	ENSP00000362896:M297L;ENSP00000263702:M373L	ENSP00000263702:M373L	M	-	1	0	MECR	29393126	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	1.236000	0.32683	2.143000	0.66587	0.533000	0.62120	ATG		0.597	MECR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130740.1	NM_016011		A	29520539	T	A	29520539	3	1	595	1	0	0	0	0	1	0	0	0	9431	1464	51	5	8	5	MECR	1	29520539	Missense_Mutation	SNP	T	TCGA-G7-7502-01A-11D-2201-08	1043279	29520539	219730082	4	35464										
TXLNA	200081	hgsc.bcm.edu;broad.mit.edu	37	chr1	32646099	32646099	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ggtcccggcagcagccaggcTcctcggaagccggagggtgt	17	13	0	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr1:32646099T>C	ENST00000373609.1	+	1	434	c.153T>C	c.(151-153)gcT>gcC	p.A51A	TXLNA_ENST00000373610.3_Silent_p.A51A			P40222	TXLNA_HUMAN	taxilin alpha	51					B cell activation (GO:0042113)|cell proliferation (GO:0008283)|exocytosis (GO:0006887)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|membrane (GO:0016020)	cytokine activity (GO:0005125)|high molecular weight B cell growth factor receptor binding (GO:0030372)			endometrium(1)|kidney(1)|large_intestine(4)|lung(2)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	13		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				GCAGCCAGGCTCCTCGGAAGC	0.701																																																0													10	13	12					1																	32646099		2197	4291	6488	SO:0001819	synonymous_variant	200081			AF516206	CCDS353.1	1p35	2012-02-21			ENSG00000084652	ENSG00000084652			30685	protein-coding gene	gene with protein product		608676				15184072, 14623251	Standard	NM_175852		Approved	DKFZp451J0118	uc001bui.3	P40222	OTTHUMG00000004423	ENST00000373609.1:c.153T>C	1.37:g.32646099T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DPP6|Q5TFJ6|Q66K62|Q86T54|Q86T85|Q86T86|Q86Y86|Q86YW3|Q8N2Y3	Silent	SNP	ENST00000373609.1	37	CCDS353.1																																																																																				0.701	TXLNA-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012844.1	NM_175852		C	32646099	T	C	32646099	2	2	595	1	0	0	0	0	0	0	0	1	16799	1538	54	3		3	TXLNA	1	32646099	Silent	SNP	T	TCGA-G7-7502-01A-11D-2201-08	3125560	32646099	216604522	5	35465										
CDCA8	55143	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	38174030	38174030	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tctgcagcagcatacggaccCacaaatgagacaccaaagtt	8	12	1	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr1:38174030C>T	ENST00000373055.1	+	10	1108	c.835C>T	c.(835-837)Cac>Tac	p.H279Y	CDCA8_ENST00000327331.2_Missense_Mutation_p.H279Y	NM_001256875.1|NM_018101.3	NP_001243804.1|NP_060571.1	Q53HL2	BOREA_HUMAN	cell division cycle associated 8	279					chromosome organization (GO:0051276)|mitotic cell cycle (GO:0000278)|mitotic metaphase plate congression (GO:0007080)	chromocenter (GO:0010369)|chromosome passenger complex (GO:0032133)|chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|intercellular bridge (GO:0045171)|midbody (GO:0030496)|nucleolus (GO:0005730)|nucleus (GO:0005634)|protein complex (GO:0043234)				central_nervous_system(1)|endometrium(1)|large_intestine(4)|lung(3)|skin(1)|stomach(1)	11		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CATACGGACCCACAAATGAGA	0.483																																																0													131	125	127					1																	38174030		2203	4300	6503	SO:0001583	missense	55143			BG354581	CCDS424.1	1p34.3	2013-01-17			ENSG00000134690	ENSG00000134690			14629	protein-coding gene	gene with protein product	"borealin"	609977				12188893, 15260989	Standard	NM_001256875		Approved	FLJ12042, MESRGP, BOR, DasraB	uc001cbs.4	Q53HL2	OTTHUMG00000004320	ENST00000373055.1:c.835C>T	1.37:g.38174030C>T	ENSP00000362146:p.His279Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPT4|Q53HN1|Q96AM3|Q9NVW5	Missense_Mutation	SNP	ENST00000373055.1	37	CCDS424.1	.	.	.	.	.	.	.	.	.	.	C	6.465	0.453973	0.12283	.	.	ENSG00000134690	ENST00000373055;ENST00000327331	T;T	0.46063	0.88;0.88	5.48	2.55	0.30701	.	1.036760	0.07555	N	0.916095	T	0.26159	0.0638	N	0.22421	0.69	0.25891	N	0.983472	B	0.02656	0.0	B	0.01281	0.0	T	0.27640	-1.0068	10	0.22706	T	0.39	-2.4563	3.8562	0.08976	0.1641:0.5775:0.1703:0.0881	.	279	Q53HL2	BOREA_HUMAN	Y	279	ENSP00000362146:H279Y;ENSP00000316121:H279Y	ENSP00000316121:H279Y	H	+	1	0	CDCA8	37946617	0.989000	0.36119	0.332000	0.25469	0.213000	0.24496	0.321000	0.19558	0.402000	0.25451	0.650000	0.86243	CAC		0.483	CDCA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012473.1	NM_018101		T	38174030	C	T	38174030	3	4	595	1	0	0	0	0	1	0	0	0	3094	594	21	2	873	2	CDCA8	1	38174030	Missense_Mutation	SNP	C	TCGA-G7-7502-01A-11D-2201-08	5527931	38174030	211076591	6	35466										
LRRC40	55631	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	70671136	70671136	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	cctcgctgccttcaacagccCttggggtaccgaggtaccgc	11	16	1	0	rs368762009		TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr1:70671136C>G	ENST00000370952.3	-	1	167	c.88G>C	c.(88-90)Ggg>Cgg	p.G30R	SRSF11_ENST00000454435.2_5'Flank|SRSF11_ENST00000370950.3_5'Flank|SRSF11_ENST00000370951.1_5'Flank|SRSF11_ENST00000405432.1_5'Flank	NM_017768.4	NP_060238.3	Q9H9A6	LRC40_HUMAN	leucine rich repeat containing 40	30						membrane (GO:0016020)				breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(5)|lung(10)|ovary(1)|prostate(1)|skin(2)	27						TTCAACAGCCCTTGGGGTACC	0.562																																																0													91	82	85					1																	70671136		2203	4300	6503	SO:0001583	missense	55631				CCDS646.1	1p31.1	2008-02-05			ENSG00000066557	ENSG00000066557			26004	protein-coding gene	gene with protein product						12477932	Standard	NM_017768		Approved	FLJ20331	uc001der.2	Q9H9A6	OTTHUMG00000009348	ENST00000370952.3:c.88G>C	1.37:g.70671136C>G	ENSP00000359990:p.Gly30Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BTR7|Q9NSK1|Q9NXC1	Missense_Mutation	SNP	ENST00000370952.3	37	CCDS646.1	.	.	.	.	.	.	.	.	.	.	C	19.60	3.858799	0.71834	.	.	ENSG00000066557	ENST00000370952	T	0.25085	1.82	5.21	5.21	0.72293	.	0.000000	0.85682	D	0.000000	T	0.26702	0.0653	L	0.35854	1.095	0.58432	D	0.999997	D	0.89917	1.0	D	0.76575	0.988	T	0.01679	-1.1297	10	0.17832	T	0.49	.	14.1132	0.65137	0.0:1.0:0.0:0.0	.	30	Q9H9A6	LRC40_HUMAN	R	30	ENSP00000359990:G30R	ENSP00000359990:G30R	G	-	1	0	LRRC40	70443724	1.000000	0.71417	0.998000	0.56505	0.271000	0.26615	4.265000	0.58865	2.703000	0.92315	0.563000	0.77884	GGG		0.562	LRRC40-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025914.1	NM_017768		G	70671136	C	G	70671136	3	3	595	1	0	0	0	0	1	0	0	0	9005	681	24	4	1780	4	LRRC40	1	70671136	Missense_Mutation	SNP	C	TCGA-G7-7502-01A-11D-2201-08	32497106	70671136	178579485	7	35467										
ODF2L	57489	hgsc.bcm.edu	37	chr1	86842001	86842001	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	aaactttagatgccttttttAaagctacagttttttgccta	5	7	0	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr1:86842001A>G	ENST00000359242.3	-	8	1006	c.725T>C	c.(724-726)tTa>tCa	p.L242S	ODF2L_ENST00000370567.1_Missense_Mutation_p.L242S|ODF2L_ENST00000524695.1_5'Flank|ODF2L_ENST00000317336.7_Missense_Mutation_p.L242S|ODF2L_ENST00000394731.1_Missense_Mutation_p.L111S|ODF2L_ENST00000294678.2_Missense_Mutation_p.L242S|ODF2L_ENST00000370566.3_Missense_Mutation_p.L242S	NM_001007022.2	NP_001007023.2	Q9ULJ1	ODF2L_HUMAN	outer dense fiber of sperm tails 2-like	242						centrosome (GO:0005813)				endometrium(2)|kidney(2)|large_intestine(10)|lung(6)|ovary(1)|pancreas(1)|skin(1)|stomach(1)	24				all cancers(265;0.0313)|Epithelial(280;0.0611)		TGCCTTTTTTAAAGCTACAGT	0.353																																																0													132	121	125					1																	86842001		2201	4300	6501	SO:0001583	missense	57489				CCDS30763.1, CCDS41354.1, CCDS30763.2, CCDS41354.2, CCDS53339.1	1p22.3	2008-02-05			ENSG00000122417	ENSG00000122417			29225	protein-coding gene	gene with protein product						10574462	Standard	NM_020729		Approved	KIAA1229	uc001dll.2	Q9ULJ1	OTTHUMG00000010080	ENST00000359242.3:c.725T>C	1.37:g.86842001A>G	ENSP00000359600:p.Leu242Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8MU56|B4E037|Q05C40|Q5BJG5|Q5TBX3|Q5TBX4|Q86X31	Missense_Mutation	SNP	ENST00000359242.3	37	CCDS41354.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	15.60|15.60	2.882540|2.882540	0.51908|0.51908	.|.	.|.	ENSG00000122417|ENSG00000122417	ENST00000441121;ENST00000370566;ENST00000359242;ENST00000460698;ENST00000317336;ENST00000370567;ENST00000394731;ENST00000457680;ENST00000294678;ENST00000479890|ENST00000459999	T;T;T;T;T;T;T;D|.	0.85088|.	0.96;0.91;1.08;0.97;0.98;1.09;0.95;-1.94|.	5.77|5.77	5.77|5.77	0.91146|0.91146	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|.	0.66386|.	0.2784|.	M|M	0.72894|0.72894	2.215|2.215	0.46458|0.46458	D|D	0.999054|0.999054	D;D;D;D;D;D|.	0.89917|.	1.0;1.0;1.0;1.0;1.0;1.0|.	D;D;D;D;D;D|.	0.91635|.	0.999;0.999;0.999;0.999;0.999;0.999|.	T|.	0.67654|.	-0.5615|.	10|.	0.72032|.	D|.	0.01|.	-5.523|-5.523	14.3411|14.3411	0.66627|0.66627	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	242;242;242;242;242;242|.	B4E037;B4DZ83;Q9ULJ1-2;Q9ULJ1-4;Q9ULJ1-3;Q9ULJ1|.	.;.;.;.;.;ODF2L_HUMAN|.	S|Q	242;242;242;118;242;242;111;72;242;72|91	ENSP00000359597:L242S;ENSP00000359600:L242S;ENSP00000433092:L118S;ENSP00000320165:L242S;ENSP00000359598:L242S;ENSP00000378219:L111S;ENSP00000294678:L242S;ENSP00000432834:L72S|.	ENSP00000294678:L242S|.	L|X	-|-	2|1	0|0	ODF2L|ODF2L	86614589|86614589	0.996000|0.996000	0.38824|0.38824	0.991000|0.991000	0.47740|0.47740	0.164000|0.164000	0.22412|0.22412	5.973000|5.973000	0.70456|0.70456	2.326000|2.326000	0.78906|0.78906	0.533000|0.533000	0.62120|0.62120	TTA|TAA		0.353	ODF2L-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000027873.2			G	86842001	A	G	86842001	3	3	595	1	0	0	0	0	1	0	0	0	10835	372	13	3	1405	3	ODF2L	1	86842001	Missense_Mutation	SNP	A	TCGA-G7-7502-01A-11D-2201-08	16170865	86842001	162408620	8	35468										
NTNG1	22854	hgsc.bcm.edu	37	chr1	107973392	107973392	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	attgtgaatgcttcggccacTccaatcgatgcagttatatc	8	10	0	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr1:107973392T>C	ENST00000370068.1	+	6	1954	c.1108T>C	c.(1108-1110)Tcc>Ccc	p.S370P	NTNG1_ENST00000370071.2_Intron|NTNG1_ENST00000370072.3_Missense_Mutation_p.S370P|NTNG1_ENST00000370074.4_Intron|NTNG1_ENST00000370073.2_Missense_Mutation_p.S370P|NTNG1_ENST00000370061.3_Intron|NTNG1_ENST00000370065.1_Missense_Mutation_p.S370P|NTNG1_ENST00000370070.2_Intron|NTNG1_ENST00000542803.1_Missense_Mutation_p.S370P|NTNG1_ENST00000370066.1_Intron|NTNG1_ENST00000370067.1_Intron			Q9Y2I2	NTNG1_HUMAN	netrin G1	370	Laminin EGF-like 2. {ECO:0000255|PROSITE- ProRule:PRU00460}.				axonogenesis (GO:0007409)	anchored component of plasma membrane (GO:0046658)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(8)|liver(1)|lung(15)|ovary(2)|prostate(2)|skin(3)|soft_tissue(1)|urinary_tract(1)	37		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)		CTTCGGCCACTCCAATCGATG	0.428																																																0													96	81	86					1																	107973392		1568	3582	5150	SO:0001583	missense	22854			AB023193	CCDS30785.1, CCDS44179.1, CCDS44180.1	1p13.2-p13.1	2013-03-01			ENSG00000162631	ENSG00000162631		"Netrins"	23319	protein-coding gene	gene with protein product	"netrin G1f", "Netrin-G1"	608818				10964959	Standard	NM_001113226		Approved	KIAA0976, Lmnt1	uc001dvh.4	Q9Y2I2	OTTHUMG00000010965	ENST00000370068.1:c.1108T>C	1.37:g.107973392T>C	ENSP00000359085:p.Ser370Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VU86|Q5VU87|Q5VU89|Q5VU90|Q5VU91|Q7Z2Y3|Q8N633	Missense_Mutation	SNP	ENST00000370068.1	37	CCDS44180.1	.	.	.	.	.	.	.	.	.	.	T	16.72	3.202136	0.58234	.	.	ENSG00000162631	ENST00000370073;ENST00000542803;ENST00000370072;ENST00000370064;ENST00000370068;ENST00000370065	T;T;T;T;T	0.62232	0.04;0.04;0.04;0.04;0.04	5.47	5.47	0.80525	EGF-like, laminin (3);	0.000000	0.64402	D	0.000017	T	0.81800	0.4899	H	0.95187	3.635	0.80722	D	1	D	0.76494	0.999	D	0.68483	0.958	D	0.86997	0.2114	10	0.56958	D	0.05	.	15.5448	0.76090	0.0:0.0:0.0:1.0	.	370	Q9Y2I2	NTNG1_HUMAN	P	370;370;370;173;370;370	ENSP00000359090:S370P;ENSP00000440561:S370P;ENSP00000359089:S370P;ENSP00000359085:S370P;ENSP00000359082:S370P	ENSP00000359081:S173P	S	+	1	0	NTNG1	107774915	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	8.030000	0.88816	2.069000	0.61940	0.533000	0.62120	TCC		0.428	NTNG1-006	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000030340.1	NM_014917		C	107973392	T	C	107973392	3	2	595	1	0	0	0	0	1	0	0	0	10711	1551	54	3	1260	3	NTNG1	1	107973392	Missense_Mutation	SNP	T	TCGA-G7-7502-01A-11D-2201-08	21131391	107973392	141277229	9	35469										
OR6K2	81448	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	158669896	158669896	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tgtgcaggccagacgcagcaCtgggaggaagtcacagaaga	15	9	1	3			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr1:158669896C>T	ENST00000359610.2	-	1	590	c.547G>A	c.(547-549)Gtg>Atg	p.V183M		NM_001005279.1	NP_001005279.1	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K, member 2	183						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(7)|lung(22)|ovary(1)|pancreas(1)|prostate(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	46	all_hematologic(112;0.0378)					AGACGCAGCACTGGGAGGAAG	0.478																																																0													133	112	119					1																	158669896		2203	4300	6503	SO:0001583	missense	81448			BK004196	CCDS30902.1	1q23.1	2012-08-09			ENSG00000196171	ENSG00000196171		"GPCR / Class A : Olfactory receptors"	15029	protein-coding gene	gene with protein product							Standard	NM_001005279		Approved		uc001fsu.1	Q8NGY2	OTTHUMG00000022768	ENST00000359610.2:c.547G>A	1.37:g.158669896C>T	ENSP00000352626:p.Val183Met	Somatic		WXS	Illumina HiSeq	Phase_I	B9EH33|Q6IFR6	Missense_Mutation	SNP	ENST00000359610.2	37	CCDS30902.1	.	.	.	.	.	.	.	.	.	.	C	14.28	2.489601	0.44249	.	.	ENSG00000196171	ENST00000359610	T	0.00231	8.49	5.09	3.14	0.36123	GPCR, rhodopsin-like superfamily (1);	0.438834	0.16622	N	0.206443	T	0.00109	0.0003	M	0.66939	2.045	0.09310	N	1	B	0.31893	0.345	B	0.43360	0.417	T	0.34254	-0.9836	10	0.72032	D	0.01	-4.3506	3.0153	0.06058	0.2617:0.4934:0.1539:0.091	.	183	Q8NGY2	OR6K2_HUMAN	M	183	ENSP00000352626:V183M	ENSP00000352626:V183M	V	-	1	0	OR6K2	156936520	0.000000	0.05858	0.982000	0.44146	0.993000	0.82548	-1.509000	0.02264	1.348000	0.45733	0.655000	0.94253	GTG		0.478	OR6K2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059061.1	NM_001005279		T	158669896	C	T	158669896	3	4	595	1	0	0	0	0	1	0	0	0	11209	565	20	2	431	2	OR6K2	1	158669896	Missense_Mutation	SNP	C	TCGA-G7-7502-01A-11D-2201-08	50696504	158669896	90580725	10	35470										
PAPPA2	60676	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	176740277	176740277	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	caaatatgaatgcaaaccagGgtactatgtggcagaaagtg	11	6	0	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr1:176740277G>T	ENST00000367662.3	+	17	5840	c.4676G>T	c.(4675-4677)gGg>gTg	p.G1559V		NM_020318.2	NP_064714.2	Q9BXP8	PAPP2_HUMAN	pappalysin 2	1559	Sushi 3. {ECO:0000255|PROSITE- ProRule:PRU00302}.				bone morphogenesis (GO:0060349)|cell differentiation (GO:0030154)|cellular protein metabolic process (GO:0044267)|proteolysis (GO:0006508)|regulation of cell growth (GO:0001558)	extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|membrane (GO:0016020)	metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(3)|breast(3)|central_nervous_system(7)|cervix(5)|endometrium(15)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(19)|lung(136)|ovary(7)|pancreas(1)|prostate(4)|skin(10)|upper_aerodigestive_tract(8)|urinary_tract(1)	226						TGCAAACCAGGGTACTATGTG	0.478																																																0													96	90	92					1																	176740277		2009	4181	6190	SO:0001583	missense	60676			BG354569	CCDS41438.1, CCDS41439.1	1q23-q25	2008-05-23	2004-07-07	2004-07-09	ENSG00000116183	ENSG00000116183			14615	protein-coding gene	gene with protein product			"placenta-specific 3"	PLAC3		11018262, 11264294	Standard	NM_021936		Approved	PAPPE, PAPP-A2	uc001gkz.3	Q9BXP8	OTTHUMG00000035025	ENST00000367662.3:c.4676G>T	1.37:g.176740277G>T	ENSP00000356634:p.Gly1559Val	Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1Y8|Q96PH7|Q96PH8|Q9H4C9	Missense_Mutation	SNP	ENST00000367662.3	37	CCDS41438.1	.	.	.	.	.	.	.	.	.	.	G	23.6	4.439678	0.83885	.	.	ENSG00000116183	ENST00000367662	T	0.77358	-1.09	5.53	5.53	0.82687	Complement control module (2);Sushi/SCR/CCP (3);	0.000000	0.85682	D	0.000000	D	0.88544	0.6465	M	0.77313	2.365	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.89575	0.3816	10	0.87932	D	0	-23.6151	18.0257	0.89268	0.0:0.0:1.0:0.0	.	1559	Q9BXP8	PAPP2_HUMAN	V	1559	ENSP00000356634:G1559V	ENSP00000356634:G1559V	G	+	2	0	PAPPA2	175006900	1.000000	0.71417	1.000000	0.80357	0.666000	0.39218	9.050000	0.93843	2.592000	0.87571	0.655000	0.94253	GGG		0.478	PAPPA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084763.1			T	176740277	G	T	176740277	3	4	595	1	0	0	0	0	1	0	0	0	11440	1232	43	4	4791	4	PAPPA2	1	176740277	Missense_Mutation	SNP	G	TCGA-G7-7502-01A-11D-2201-08	18070381	176740277	72510344	11	35471										
CFHR3	10878	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	196762616	196762617	+	Missense_Mutation	DNP	GA	GA	TT													0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	caagcagtgtgtcgggaaggGatagtggaataccccagatg					rs149081467	byFrequency	TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr1:196762616_196762617GA>TT	ENST00000367425.4	+	6	1058_1059	c.966_967GA>TT	c.(964-969)ggGAta>ggTTta	p.I323L	CFHR3_ENST00000391985.3_Missense_Mutation_p.I262L	NM_021023.5	NP_066303.2	Q02985	FHR3_HUMAN	complement factor H-related 3	323	Sushi 5. {ECO:0000255|PROSITE- ProRule:PRU00302}.					blood microparticle (GO:0072562)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)				breast(1)|central_nervous_system(1)|endometrium(1)|kidney(4)|lung(6)|ovary(1)|prostate(2)|skin(1)|urinary_tract(1)	18						GTCGGGAAGGGATAGTGGAATA	0.381																																																0																																										SO:0001583	missense	10878			X68679	CCDS30958.1, CCDS53453.1	1q32	2014-09-17		2006-02-28	ENSG00000116785	ENSG00000116785		"Complement system"	16980	protein-coding gene	gene with protein product	"complement factor H related 3"	605336		CFHL3		8428964, 10380701	Standard	NM_021023		Approved	FHR-3, HLF4, FHR3, DOWN16	uc001gtl.3	Q02985	OTTHUMG00000035929	Exception_encountered	1.37:g.196762616_196762617delinsTT	ENSP00000356395:p.Ile323Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DPR0|Q9UJ16	Missense_Mutation	DNP	ENST00000367425.4	37	CCDS30958.1																																																																																				0.381	CFHR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087505.2	NM_021023		TT	196762617	GA	TT	196762616	3	4	595	1	0	0	0	0	1	0	0	0	3288	1161	41	4	988	4	CFHR3	1	196762616	Missense_Mutation	DNP	GA	TCGA-G7-7502-01A-11D-2201-08	20022339	196762616	52488005	12	35472										
OTX1	5013	hgsc.bcm.edu	37	chr2	63282948	63282948	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ccatctcgccaggctcagcgCccgcgtccgtgtcggtgccg	13	18	2	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr2:63282948C>G	ENST00000282549.2	+	5	838	c.562C>G	c.(562-564)Ccc>Gcc	p.P188A	OTX1_ENST00000366671.3_Missense_Mutation_p.P188A	NM_014562.3	NP_055377.1	P32242	OTX1_HUMAN	orthodenticle homeobox 1	188					anterior/posterior pattern specification (GO:0009952)|diencephalon morphogenesis (GO:0048852)|inner ear morphogenesis (GO:0042472)|metencephalon development (GO:0022037)|midbrain development (GO:0030901)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			endometrium(1)|kidney(2)|large_intestine(6)|lung(6)|pancreas(2)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	20	Lung NSC(7;0.121)|all_lung(7;0.211)					AGGCTCAGCGCCCGCGTCCGT	0.687																																																0													13	14	14					2																	63282948		2186	4283	6469	SO:0001583	missense	5013				CCDS1873.1	2p15	2011-06-20	2007-02-15		ENSG00000115507	ENSG00000115507		"Homeoboxes / PRD class"	8521	protein-coding gene	gene with protein product		600036	"orthodenticle (Drosophila) homolog 1", "orthodenticle homolog 1 (Drosophila)"			7959790	Standard	NM_001199770		Approved		uc002scd.3	P32242	OTTHUMG00000129454	ENST00000282549.2:c.562C>G	2.37:g.63282948C>G	ENSP00000282549:p.Pro188Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHA2|B3KTJ4|Q53TG6	Missense_Mutation	SNP	ENST00000282549.2	37	CCDS1873.1	.	.	.	.	.	.	.	.	.	.	C	16.45	3.127474	0.56721	.	.	ENSG00000115507	ENST00000366671;ENST00000282549	D;D	0.90900	-2.75;-2.75	3.41	3.41	0.39046	Transcription factor Otx, C-terminal (1);	0.269321	0.29321	N	0.012488	D	0.91730	0.7385	L	0.53249	1.67	0.80722	D	1	D	0.62365	0.991	D	0.66602	0.945	D	0.88527	0.3100	10	0.10377	T	0.69	.	12.6775	0.56903	0.0:1.0:0.0:0.0	.	188	P32242	OTX1_HUMAN	A	188	ENSP00000355631:P188A;ENSP00000282549:P188A	ENSP00000282549:P188A	P	+	1	0	OTX1	63136452	0.997000	0.39634	0.968000	0.41197	0.935000	0.57460	4.214000	0.58527	1.901000	0.55032	0.462000	0.41574	CCC		0.687	OTX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251617.1			G	63282948	C	G	63282948	3	3	595	1	0	0	0	0	1	0	0	0	11327	739	26	4	572	4	OTX1	2	63282948	Missense_Mutation	SNP	C	TCGA-G7-7502-01A-11D-2201-08		63282948	179916425	13	35473										
KDM3A	55818	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	86716748	86716749	+	In_Frame_Ins	INS	-	-	GGG													0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tggcacatatatgctgcaaaINSggacacggagaagataaggg							TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr2:86716748_86716749insGGG	ENST00000409556.1	+	24	3904_3905	c.3539_3540insGGG	c.(3538-3543)aaggac>aaGGGggac	p.1180_1181KD>KGD	KDM3A_ENST00000542128.1_In_Frame_Ins_p.1128_1129KD>KGD|KDM3A_ENST00000409064.1_In_Frame_Ins_p.1180_1181KD>KGD|KDM3A_ENST00000312912.5_In_Frame_Ins_p.1180_1181KD>KGD			Q9Y4C1	KDM3A_HUMAN	lysine (K)-specific demethylase 3A	1180	JmjC. {ECO:0000255|PROSITE- ProRule:PRU00538}.				androgen receptor signaling pathway (GO:0030521)|formaldehyde biosynthetic process (GO:0046293)|histone H3-K9 demethylation (GO:0033169)|histone H3-K9 dimethylation (GO:0036123)|hormone-mediated signaling pathway (GO:0009755)|negative regulation of histone H3-K9 methylation (GO:0051573)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|spermatid nucleus elongation (GO:0007290)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|core promoter binding (GO:0001047)|dioxygenase activity (GO:0051213)|iron ion binding (GO:0005506)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region sequence-specific DNA binding (GO:0000976)			NS(1)|breast(3)|central_nervous_system(2)|endometrium(5)|kidney(5)|large_intestine(7)|liver(1)|lung(13)|ovary(1)|prostate(3)|skin(1)|stomach(3)|upper_aerodigestive_tract(2)	47						TATGCTGCAAAGGACACGGAGA	0.406																																					NSCLC(96;1150 1523 6936 46253 49736)											0																																										SO:0001652	inframe_insertion	55818			AB018285	CCDS1990.1	2p11.2	2011-07-01	2009-04-06	2009-04-06	ENSG00000115548	ENSG00000115548		"Chromatin-modifying enzymes / K-demethylases"	20815	protein-coding gene	gene with protein product	"jumonji C domain-containing histone demethylase 2A"	611512	"jumonji domain containing 1", "jumonji domain containing 1A"	JMJD1, JMJD1A		9872452	Standard	NM_018433		Approved	TSGA, KIAA0742, JHMD2A	uc010ytj.2	Q9Y4C1	OTTHUMG00000130204	Exception_encountered	2.37:g.86716748_86716749insGGG	ENSP00000386660:p.Lys1180_Asp1181insGly	Somatic		WXS	Illumina HiSeq	Phase_I	D6W5M3|Q53S72|Q68D47|Q68UT9|Q6N050|Q8IY08	In_Frame_Ins	INS	ENST00000409556.1	37	CCDS1990.1																																																																																				0.406	KDM3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252522.2	NM_018433		GGG	86716749	-	GGG	86716748	7	5	595	1	0	1	1	0	0	0	0	0	8133	72	3	0	3625	0	KDM3A	2	86716748	In_Frame_Ins	INS	-	TCGA-G7-7502-01A-11D-2201-08	23433800	86716748	156482625	14	35474										
CIR1	9541	hgsc.bcm.edu;broad.mit.edu	37	chr2	175215408	175215408	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ctgagaagtttctgtttttgTttggttgttagtgactttaa	10	3	1	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr2:175215408T>C	ENST00000342016.3	-	9	749	c.657A>G	c.(655-657)aaA>aaG	p.K219K	CIR1_ENST00000362053.5_3'UTR	NM_004882.3	NP_004873.3	Q86X95	CIR1_HUMAN	corepressor interacting with RBPJ, 1	219	Interaction with RP9. {ECO:0000250}.|Lys/Ser-rich.				mRNA processing (GO:0006397)|negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|RNA splicing (GO:0008380)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)	RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			central_nervous_system(1)|endometrium(3)|large_intestine(5)|lung(5)|skin(1)	15						TCTGTTTTTGTTTGGTTGTTA	0.303																																																0													80	76	78					2																	175215408		2203	4299	6502	SO:0001819	synonymous_variant	9541			AF098297	CCDS2256.1	2q31.1	2009-07-14			ENSG00000138433	ENSG00000138433			24217	protein-coding gene	gene with protein product	"recepin", "CBF1 interacting corepressor"	605228				15652350, 11222720, 9874765	Standard	NM_004882		Approved	CIR	uc002uim.3	Q86X95	OTTHUMG00000132338	ENST00000342016.3:c.657A>G	2.37:g.175215408T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NFI6|A8K8M4|O95367|Q12804|Q4G1B9|Q6PJI4|Q8IWI2	Silent	SNP	ENST00000342016.3	37	CCDS2256.1																																																																																				0.303	CIR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255460.1	NM_004882		C	175215408	T	C	175215408	2	2	595	1	0	0	0	0	0	0	0	1	3434	1722	60	3		3	CIR1	2	175215408	Silent	SNP	T	TCGA-G7-7502-01A-11D-2201-08	88498660	175215408	67983965	15	35475										
STK36	27148	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	219556970	219556970	+	Silent	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	caggttgtcttggatgggctCcttcatggcttgacagttcc	12	10	2	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr2:219556970C>G	ENST00000295709.3	+	15	2148	c.1869C>G	c.(1867-1869)ctC>ctG	p.L623L	STK36_ENST00000440309.1_Silent_p.L623L|STK36_ENST00000392105.3_Silent_p.L623L|STK36_ENST00000392106.2_Silent_p.L623L	NM_015690.4	NP_056505.2			serine/threonine kinase 36											biliary_tract(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(6)|lung(20)|ovary(4)|prostate(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)	52		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)		TGGATGGGCTCCTTCATGGCT	0.537																																																0													90	95	93					2																	219556970		2203	4300	6503	SO:0001819	synonymous_variant	27148			AB033104	CCDS2421.1, CCDS58750.1	2q35	2010-06-25	2010-06-25		ENSG00000163482	ENSG00000163482			17209	protein-coding gene	gene with protein product	"fused homolog (Drosophila)"	607652	"serine/threonine kinase 36 (fused homolog, Drosophila)"			10806483	Standard	NM_001243313		Approved	KIAA1278, FU	uc002viu.3	Q9NRP7	OTTHUMG00000133079	ENST00000295709.3:c.1869C>G	2.37:g.219556970C>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000295709.3	37	CCDS2421.1																																																																																				0.537	STK36-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256723.2			G	219556970	C	G	219556970	2	3	595	1	0	0	0	0	0	0	0	1	15314	842	30	4		4	STK36	2	219556970	Silent	SNP	C	TCGA-G7-7502-01A-11D-2201-08	44341562	219556970	23642403	16	35476										
ECEL1	9427	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	233350797	233350797	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	agtcgctcgatctcgcgcatGtcgaggcacgagcggaagaa	14	11	1	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr2:233350797G>A	ENST00000304546.1	-	2	777	c.567C>T	c.(565-567)gaC>gaT	p.D189D	ECEL1_ENST00000409941.1_Silent_p.D189D	NM_004826.2	NP_004817.2	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	189					neuropeptide signaling pathway (GO:0007218)|respiratory system process (GO:0003016)	integral component of plasma membrane (GO:0005887)	metal ion binding (GO:0046872)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(4)|lung(8)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	23		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;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000771)|Lung(119;0.00213)|LUSC - Lung squamous cell carcinoma(224;0.00746)		TCTCGCGCATGTCGAGGCACG	0.746																																																0																																										SO:0001819	synonymous_variant	9427			Y16187	CCDS2493.1	2q37.1	2010-09-29			ENSG00000171551	ENSG00000171551			3147	protein-coding gene	gene with protein product	"damage induced neuronal endopeptidase"	605896				9931490, 11352565	Standard	NM_004826		Approved	XCE, DINE	uc002vsv.2	O95672	OTTHUMG00000133262	ENST00000304546.1:c.567C>T	2.37:g.233350797G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q45UD9|Q53RF9|Q6UW86|Q86TH4|Q9NY95	Silent	SNP	ENST00000304546.1	37	CCDS2493.1																																																																																				0.746	ECEL1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257039.2	NM_004826		A	233350797	G	A	233350797	2	1	595	1	0	0	0	0	0	0	0	1	4893	1368	48	2		2	ECEL1	2	233350797	Silent	SNP	G	TCGA-G7-7502-01A-11D-2201-08	13793827	233350797	9848576	17	35477										
JAGN1	84522	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	9934676	9934676	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	gctgctggttgctaagatgaGcgtgggacacctgaggctct	15	9	1	3			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr3:9934676G>A	ENST00000307768.4	+	2	336	c.167G>A	c.(166-168)aGc>aAc	p.S56N		NM_032492.3	NP_115881.3			jagunal homolog 1 (Drosophila)											breast(1)|central_nervous_system(1)|endometrium(4)|lung(3)|ovary(1)	10	Medulloblastoma(99;0.227)					GCTAAGATGAGCGTGGGACAC	0.512																																																0													158	132	141					3																	9934676		2203	4300	6503	SO:0001583	missense	84522			AK074760	CCDS2588.1	3p25.2	2010-03-23			ENSG00000171135	ENSG00000171135			26926	protein-coding gene	gene with protein product						12477932	Standard	NM_032492		Approved	GL009, FLJ14602	uc003btt.4	Q8N5M9	OTTHUMG00000128523	ENST00000307768.4:c.167G>A	3.37:g.9934676G>A	ENSP00000306106:p.Ser56Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000307768.4	37	CCDS2588.1	.	.	.	.	.	.	.	.	.	.	G	10.74	1.434837	0.25813	.	.	ENSG00000171135	ENST00000307768;ENST00000543379	.	.	.	5.24	3.34	0.38264	.	0.446433	0.27754	N	0.017994	T	0.36220	0.0959	L	0.36672	1.1	0.20638	N	0.999878	B	0.17667	0.023	B	0.24541	0.054	T	0.21655	-1.0239	9	0.26408	T	0.33	-15.5227	10.1674	0.42888	0.0:0.1322:0.5948:0.2731	.	56	Q8N5M9	JAGN1_HUMAN	N	56	.	ENSP00000306106:S56N	S	+	2	0	JAGN1	9909676	0.775000	0.28604	0.992000	0.48379	0.966000	0.64601	1.530000	0.36007	0.514000	0.28300	0.313000	0.20887	AGC		0.512	JAGN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250335.1	NM_032492		A	9934676	G	A	9934676	3	1	595	1	0	0	0	0	1	0	0	0	7943	971	34	2	173	2	JAGN1	3	9934676	Missense_Mutation	SNP	G	TCGA-G7-7502-01A-11D-2201-08		9934676	188087754	18	35478										
DAG1	1605	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	49568641	49568641	+	Frame_Shift_Del	DEL	A	A	-													0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	aattagtgccggtggtgaatAacagactatttgacatgtcg							TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr3:49568641delA	ENST00000539901.1	+	3	1255	c.697delA	c.(697-699)aacfs	p.N233fs	DAG1_ENST00000308775.2_Frame_Shift_Del_p.N233fs|DAG1_ENST00000541308.1_Frame_Shift_Del_p.N233fs|DAG1_ENST00000545947.1_Frame_Shift_Del_p.N233fs|DAG1_ENST00000515359.2_Frame_Shift_Del_p.N233fs|DAG1_ENST00000538711.1_Frame_Shift_Del_p.N233fs	NM_001177644.2	NP_001171115	Q14118	DAG1_HUMAN	dystroglycan 1 (dystrophin-associated glycoprotein 1)	233	Required for laminin recognition.				basement membrane organization (GO:0071711)|branching involved in salivary gland morphogenesis (GO:0060445)|calcium-dependent cell-matrix adhesion (GO:0016340)|commissural neuron axon guidance (GO:0071679)|cytoskeletal anchoring at plasma membrane (GO:0007016)|epithelial tube branching involved in lung morphogenesis (GO:0060441)|extracellular matrix organization (GO:0030198)|membrane protein ectodomain proteolysis (GO:0006509)|microtubule anchoring (GO:0034453)|modulation by virus of host morphology or physiology (GO:0019048)|morphogenesis of an epithelial sheet (GO:0002011)|myelination in peripheral nervous system (GO:0022011)|negative regulation of cell migration (GO:0030336)|negative regulation of MAPK cascade (GO:0043409)|negative regulation of protein kinase B signaling (GO:0051898)|nerve maturation (GO:0021682)|NLS-bearing protein import into nucleus (GO:0006607)|response to peptide hormone (GO:0043434)	basement membrane (GO:0005604)|basolateral plasma membrane (GO:0016323)|cell outer membrane (GO:0009279)|cell-cell adherens junction (GO:0005913)|contractile ring (GO:0070938)|costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|dystroglycan complex (GO:0016011)|dystrophin-associated glycoprotein complex (GO:0016010)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|lamellipodium (GO:0030027)|membrane raft (GO:0045121)|node of Ranvier (GO:0033268)|nucleoplasm (GO:0005654)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)	actin binding (GO:0003779)|alpha-actinin binding (GO:0051393)|calcium ion binding (GO:0005509)|laminin-1 binding (GO:0043237)|SH2 domain binding (GO:0042169)|structural constituent of muscle (GO:0008307)|tubulin binding (GO:0015631)|vinculin binding (GO:0017166)|virus receptor activity (GO:0001618)			NS(1)|autonomic_ganglia(2)|breast(2)|endometrium(1)|large_intestine(8)|lung(5)|ovary(2)|prostate(1)|skin(1)	23				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		GGTGGTGAATAACAGACTATT	0.522																																																0													72	77	75					3																	49568641		2203	4300	6503	SO:0001589	frameshift_variant	1605			L19711	CCDS2799.1	3p21	2014-09-17			ENSG00000173402	ENSG00000173402			2666	protein-coding gene	gene with protein product	"alpha-dystroglycan", "dystrophin-associated glycoprotein-1", "beta-dystroglycan"	128239				7774920, 1741056	Standard	NM_001177643		Approved	A3a, 156DAG, AGRNR, DAG	uc021wyd.1	Q14118	OTTHUMG00000156869	ENST00000539901.1:c.697delA	3.37:g.49568641delA	ENSP00000439334:p.Asn233fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6M7|Q969J9	Frame_Shift_Del	DEL	ENST00000539901.1	37	CCDS2799.1																																																																																				0.522	DAG1-203	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346326.1			-	49568641	A	-	49568641	7	5	595	1	0	1	0	1	0	0	0	0	4227	362	13	0	703	0	DAG1	3	49568641	Frame_Shift_Del	DEL	A	TCGA-G7-7502-01A-11D-2201-08	39633965	49568641	148453789	19	35479										
APEH	327	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	49720689	49720689	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ggctcctgctctatcccaaaAgcacccacgcattatcagag	7	15	2	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr3:49720689A>G	ENST00000296456.5	+	22	2513	c.2113A>G	c.(2113-2115)Agc>Ggc	p.S705G	AC099668.5_ENST00000563780.1_RNA|APEH_ENST00000438011.1_Missense_Mutation_p.S710G	NM_001640.3	NP_001631.3	P13798	ACPH_HUMAN	acylaminoacyl-peptide hydrolase	705					beta-amyloid metabolic process (GO:0050435)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nuclear membrane (GO:0031965)	omega peptidase activity (GO:0008242)|poly(A) RNA binding (GO:0044822)|serine-type endopeptidase activity (GO:0004252)			endometrium(3)|large_intestine(1)|lung(6)|ovary(1)|skin(1)|stomach(2)|urinary_tract(1)	15				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CTATCCCAAAAGCACCCACGC	0.557																																																0													188	196	193					3																	49720689		2203	4300	6503	SO:0001583	missense	327			D38441	CCDS2801.1	3p21	2013-05-29	2013-05-29		ENSG00000164062	ENSG00000164062	3.4.19.1		586	protein-coding gene	gene with protein product	"acylaminoacyl-peptidase"	102645	"N-acylaminoacyl-peptide hydrolase"	D3F15S2, DNF15S2, D3S48E		2392324	Standard	NM_001640		Approved		uc003cxf.3	P13798	OTTHUMG00000156882	ENST00000296456.5:c.2113A>G	3.37:g.49720689A>G	ENSP00000296456:p.Ser705Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BQ33|Q9P0Y2	Missense_Mutation	SNP	ENST00000296456.5	37	CCDS2801.1	.	.	.	.	.	.	.	.	.	.	A	13.25	2.180168	0.38511	.	.	ENSG00000164062	ENST00000296456;ENST00000438011	T;T	0.32753	1.44;1.44	5.75	5.75	0.90469	Peptidase S9, prolyl oligopeptidase, catalytic domain (1);	0.129744	0.64402	D	0.000001	T	0.20129	0.0484	N	0.17278	0.47	0.37781	D	0.927029	B;B	0.10296	0.003;0.002	B;B	0.15052	0.012;0.006	T	0.08269	-1.0730	10	0.48119	T	0.1	-38.9892	10.7009	0.45926	0.9202:0.0:0.0798:0.0	.	710;705	C9JIF9;P13798	.;ACPH_HUMAN	G	705;710	ENSP00000296456:S705G;ENSP00000415862:S710G	ENSP00000296456:S705G	S	+	1	0	APEH	49695693	1.000000	0.71417	1.000000	0.80357	0.973000	0.67179	3.552000	0.53705	2.192000	0.70111	0.459000	0.35465	AGC		0.557	APEH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346415.2			G	49720689	A	G	49720689	3	3	595	1	0	0	0	0	1	0	0	0	768	72	3	3	2199	3	APEH	3	49720689	Missense_Mutation	SNP	A	TCGA-G7-7502-01A-11D-2201-08	152048	49720689	148301741	20	35480										
ACY1	95	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	52022538	52022538	+	Splice_Site	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tgccattcttcctgtccctcAgaagtggatgcacccccaag	8	15	2	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr3:52022538A>C	ENST00000404366.2	+	13	1067		c.e13-1		ACY1_ENST00000494103.1_Splice_Site|ACY1_ENST00000476854.1_Splice_Site|ACY1_ENST00000458031.2_Splice_Site|ACY1_ENST00000476351.1_Splice_Site|ABHD14A-ACY1_ENST00000463937.1_Splice_Site	NM_000666.2|NM_001198895.1	NP_000657.1|NP_001185824.1	Q03154	ACY1_HUMAN	aminoacylase 1						cellular amino acid metabolic process (GO:0006520)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	aminoacylase activity (GO:0004046)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)			breast(1)|endometrium(1)|large_intestine(3)|lung(4)|ovary(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acetylcysteine(DB06151)|L-Aspartic Acid(DB00128)	CCTGTCCCTCAGAAGTGGATG	0.562																																																0													103	86	92					3																	52022538		2203	4300	6503	SO:0001630	splice_region_variant	95			L07548	CCDS2844.1, CCDS56261.1, CCDS56262.1, CCDS56263.1	3p21.2	2006-02-02			ENSG00000243989	ENSG00000243989	3.5.1.14		177	protein-coding gene	gene with protein product		104620				1707030, 6948533	Standard	NM_000666		Approved		uc003dcq.3	Q03154	OTTHUMG00000157815	ENST00000404366.2:c.922-1A>C	3.37:g.52022538A>C		Somatic		WXS	Illumina HiSeq	Phase_I	C9J6I6|C9J9D8|C9JWD4	Splice_Site	SNP	ENST00000404366.2	37	CCDS2844.1	.	.	.	.	.	.	.	.	.	.	A	13.72	2.321906	0.41096	.	.	ENSG00000114786;ENSG00000114786;ENSG00000114786;ENSG00000243989;ENSG00000243989;ENSG00000243989;ENSG00000243989	ENST00000458031;ENST00000463937;ENST00000232907;ENST00000476854;ENST00000476351;ENST00000494103;ENST00000404366	.	.	.	5.4	5.4	0.78164	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.0907	0.72192	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	ACY1;RP11-155D18.11	51997578	1.000000	0.71417	0.993000	0.49108	0.278000	0.26855	8.943000	0.92975	2.048000	0.60808	0.459000	0.35465	.		0.562	ACY1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349657.1	NM_000666	Intron	C	52022538	A	C	52022538	5	2	595	1	0	0	0	0	0	0	1	0	226	202	7	5	966	5	ACY1	3	52022538	Splice_Site	SNP	A	TCGA-G7-7502-01A-11D-2201-08	2301849	52022538	145999892	21	35481										
STAB1	23166	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	52554291	52554291	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	acccccatctctttctcctgCagccgaacgcgggccgtgag	10	17	2	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr3:52554291C>A	ENST00000321725.6	+	52	5560	c.5484C>A	c.(5482-5484)tgC>tgA	p.C1828*		NM_015136.2	NP_055951.2	Q9NY15	STAB1_HUMAN	stabilin 1	1828	FAS1 6. {ECO:0000255|PROSITE- ProRule:PRU00082, ECO:0000305}.				cell adhesion (GO:0007155)|cell-cell signaling (GO:0007267)|defense response to bacterium (GO:0042742)|inflammatory response (GO:0006954)|negative regulation of angiogenesis (GO:0016525)|oxidation-reduction process (GO:0055114)|receptor-mediated endocytosis (GO:0006898)	endocytic vesicle membrane (GO:0030666)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	hyaluronic acid binding (GO:0005540)|low-density lipoprotein particle binding (GO:0030169)|low-density lipoprotein receptor activity (GO:0005041)|protein disulfide oxidoreductase activity (GO:0015035)|scavenger receptor activity (GO:0005044)			breast(4)|central_nervous_system(3)|endometrium(7)|kidney(2)|large_intestine(13)|liver(1)|lung(27)|ovary(1)|pancreas(1)|prostate(4)|skin(6)|upper_aerodigestive_tract(4)|urinary_tract(3)	76				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)		CTTTCTCCTGCAGCCGAACGC	0.632																																																0													82	83	83					3																	52554291		2203	4300	6503	SO:0001587	stop_gained	23166			AJ275213	CCDS33768.1	3p21.31	2008-07-18			ENSG00000010327	ENSG00000010327			18628	protein-coding gene	gene with protein product	"MS-1 antigen", "fasciclin egf-like, laminin-type egf-like, and link domain-containing scavenger receptor-1", "common lymphatic endothelial and vascular endothelial receptor-1"	608560				11829752, 12077138	Standard	XM_005264973		Approved	KIAA0246, STAB-1, FEEL-1, CLEVER-1, FELE-1, FEX1	uc003dej.3	Q9NY15	OTTHUMG00000158574	ENST00000321725.6:c.5484C>A	3.37:g.52554291C>A	ENSP00000312946:p.Cys1828*	Somatic		WXS	Illumina HiSeq	Phase_I	A7E297|Q8IUH0|Q8IUH1|Q93072	Nonsense_Mutation	SNP	ENST00000321725.6	37	CCDS33768.1	.	.	.	.	.	.	.	.	.	.	C	40	8.313466	0.98754	.	.	ENSG00000010327	ENST00000321725	.	.	.	6.07	0.741	0.18336	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	6.5698	0.22533	0.1187:0.5434:0.0:0.3378	.	.	.	.	X	1828	.	ENSP00000312946:C1828X	C	+	3	2	STAB1	52529331	0.999000	0.42202	0.997000	0.53966	0.055000	0.15305	0.493000	0.22451	0.463000	0.27118	-0.126000	0.14955	TGC		0.632	STAB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351380.2	NM_015136		A	52554291	C	A	52554291	4	1	595	1	0	0	0	0	0	1	0	0	15249	718	25	4	5690	4	STAB1	3	52554291	Nonsense_Mutation	SNP	C	TCGA-G7-7502-01A-11D-2201-08	531753	52554291	145468139	22	35482										
MYH15	22989	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	108110610	108110610	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	attacccagactcctaccctGgattctagtttctggatttg	7	11	2	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr3:108110610G>A	ENST00000273353.3	-	38	5543	c.5487C>T	c.(5485-5487)tcC>tcT	p.S1829S		NM_014981.1	NP_055796.1	Q9Y2K3	MYH15_HUMAN	myosin, heavy chain 15	1829						cytoplasm (GO:0005737)|myosin filament (GO:0032982)	ATP binding (GO:0005524)|motor activity (GO:0003774)			NS(1)|breast(3)|central_nervous_system(2)|cervix(4)|endometrium(10)|kidney(4)|large_intestine(14)|lung(47)|ovary(5)|pancreas(2)|prostate(6)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	105						CTCCTACCCTGGATTCTAGTT	0.473																																																0													183	184	183					3																	108110610		1923	4132	6055	SO:0001819	synonymous_variant	22989			AB023217	CCDS43127.1	3q13	2011-09-27	2006-09-29		ENSG00000144821	ENSG00000144821		"Myosins / Myosin superfamily : Class II"	31073	protein-coding gene	gene with protein product		609929	"myosin, heavy polypeptide 15"			15014174, 15042088	Standard	NM_014981		Approved	KIAA1000	uc003dxa.1	Q9Y2K3	OTTHUMG00000159226	ENST00000273353.3:c.5487C>T	3.37:g.108110610G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000273353.3	37	CCDS43127.1																																																																																				0.473	MYH15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353935.1	XM_036988		A	108110610	G	A	108110610	2	1	595	1	0	0	0	0	0	0	0	1	10041	1335	47	2		2	MYH15	3	108110610	Silent	SNP	G	TCGA-G7-7502-01A-11D-2201-08	55556319	108110610	89911820	23	35483										
FAM162A	26355	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	122128621	122128621	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	gagactttaacaagcttgaaCttagaaaagaaagctcgtct	8	7	1	4			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr3:122128621C>T	ENST00000477892.1	+	5	492	c.408C>T	c.(406-408)aaC>aaT	p.N136N	FAM162A_ENST00000232125.5_Silent_p.N126N	NM_014367.3	NP_055182.3	Q96A26	F162A_HUMAN	family with sequence similarity 162, member A	136					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|cellular response to hypoxia (GO:0071456)|neuron apoptotic process (GO:0051402)|positive regulation of apoptotic process (GO:0043065)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|transformed cell apoptotic process (GO:0006927)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)|nucleus (GO:0005634)				breast(1)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)	6						CAAGCTTGAACTTAGAAAAGA	0.438																																																0													108	98	101					3																	122128621		1886	4118	6004	SO:0001819	synonymous_variant	26355			AF191020	CCDS43139.1	3q21.1	2008-06-05	2008-06-05	2008-06-05	ENSG00000114023	ENSG00000114023			17865	protein-coding gene	gene with protein product		608017	"chromosome 3 open reading frame 28"	C3orf28		11085516	Standard	NM_014367		Approved	E2IG5	uc003eez.3	Q96A26	OTTHUMG00000159494	ENST00000477892.1:c.408C>T	3.37:g.122128621C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NRN6|Q9UJX8	Silent	SNP	ENST00000477892.1	37	CCDS43139.1	.	.	.	.	.	.	.	.	.	.	C	6.587	0.476718	0.12521	.	.	ENSG00000114023	ENST00000440333	.	.	.	5.44	3.65	0.41850	.	.	.	.	.	T	0.64080	0.2566	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.64732	-0.6338	5	0.72032	D	0.01	.	8.2172	0.31519	0.0:0.8217:0.0:0.1783	.	.	.	.	F	135	.	ENSP00000405770:L135F	L	+	1	0	FAM162A	123611311	0.995000	0.38212	1.000000	0.80357	0.745000	0.42441	1.364000	0.34171	0.857000	0.35407	0.655000	0.94253	CTT		0.438	FAM162A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355766.1	NM_014367		T	122128621	C	T	122128621	2	4	595	1	0	0	0	0	0	0	0	1	5478	564	20	2		2	FAM162A	3	122128621	Silent	SNP	C	TCGA-G7-7502-01A-11D-2201-08	14018011	122128621	75893809	24	35484										
PLXNA1	5361	broad.mit.edu	37	chr3	126730880	126730880	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	catcaccctggccgcacggaAcctgccacagccacagtcag	9	18	2	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr3:126730880A>C	ENST00000393409.2	+	9	2192	c.2192A>C	c.(2191-2193)aAc>aCc	p.N731T	PLXNA1_ENST00000251772.4_Missense_Mutation_p.N708T	NM_032242.3	NP_115618.3	Q9UIW2	PLXA1_HUMAN	plexin A1	731					axon guidance (GO:0007411)|dichotomous subdivision of terminal units involved in salivary gland branching (GO:0060666)|multicellular organismal development (GO:0007275)|regulation of smooth muscle cell migration (GO:0014910)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|semaphorin receptor complex (GO:0002116)	receptor activity (GO:0004872)|semaphorin receptor activity (GO:0017154)			breast(3)|central_nervous_system(5)|endometrium(10)|kidney(5)|large_intestine(4)|lung(32)|ovary(2)|pancreas(1)|prostate(2)|skin(3)	67				GBM - Glioblastoma multiforme(114;0.155)		GCCGCACGGAACCTGCCACAG	0.627																																																0													75	70	72					3																	126730880		2203	4300	6503	SO:0001583	missense	5361			X87832	CCDS33847.1, CCDS33847.2	3q21.2	2006-12-19				ENSG00000114554		"Plexins"	9099	protein-coding gene	gene with protein product		601055		PLXN1		8570614	Standard	NM_032242		Approved	NOV	uc003ejg.3	Q9UIW2		ENST00000393409.2:c.2192A>C	3.37:g.126730880A>C	ENSP00000377061:p.Asn731Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000393409.2	37	CCDS33847.2	.	.	.	.	.	.	.	.	.	.	A	16.79	3.221294	0.58560	.	.	ENSG00000114554	ENST00000393409;ENST00000251772	T;T	0.16457	2.34;2.35	3.87	3.87	0.44632	.	0.000000	0.64402	D	0.000004	T	0.45377	0.1339	M	0.87547	2.89	0.58432	D	0.999999	D	0.89917	1.0	D	0.77557	0.99	T	0.54248	-0.8322	10	0.66056	D	0.02	.	12.8542	0.57876	1.0:0.0:0.0:0.0	.	731	Q9UIW2	PLXA1_HUMAN	T	731;708	ENSP00000377061:N731T;ENSP00000251772:N708T	ENSP00000251772:N708T	N	+	2	0	PLXNA1	128213570	1.000000	0.71417	0.996000	0.52242	0.313000	0.28021	7.309000	0.78937	1.633000	0.50488	0.402000	0.26972	AAC		0.627	PLXNA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356451.1	NM_032242		C	126730880	A	C	126730880	3	2	595	1	0	0	0	0	1	0	0	0	12126	43	2	5	2226	5	PLXNA1	3	126730880	Missense_Mutation	SNP	A	TCGA-G7-7502-01A-11D-2201-08	4602259	126730880	71291550	25	35485										
ATR	545	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	142238533	142238533	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ggtatttagatgaggttctaGtatttcccgaacatgctcag	10	7	2	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr3:142238533G>A	ENST00000350721.4	-	24	4481	c.4360C>T	c.(4360-4362)Cta>Tta	p.L1454L	ATR_ENST00000383101.3_Silent_p.L1390L	NM_001184.3	NP_001175.2	Q13535	ATR_HUMAN	ATR serine/threonine kinase	1454					cell cycle (GO:0007049)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to gamma radiation (GO:0071480)|cellular response to UV (GO:0034644)|DNA damage checkpoint (GO:0000077)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|multicellular organismal development (GO:0007275)|negative regulation of DNA replication (GO:0008156)|peptidyl-serine phosphorylation (GO:0018105)|positive regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043517)|protein autophosphorylation (GO:0046777)|regulation of protein binding (GO:0043393)|replicative senescence (GO:0090399)|response to drug (GO:0042493)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)|PML body (GO:0016605)|XY body (GO:0001741)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|MutLalpha complex binding (GO:0032405)|MutSalpha complex binding (GO:0032407)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(10)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(20)|liver(2)|lung(45)|ovary(3)|skin(10)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(4)	122						TGAGGTTCTAGTATTTCCCGA	0.363								Other conserved DNA damage response genes																																								0													118	118	118					3																	142238533		2203	4300	6503	SO:0001819	synonymous_variant	545			U76308	CCDS3124.1	3q23	2014-06-17	2014-06-17		ENSG00000175054	ENSG00000175054			882	protein-coding gene	gene with protein product	"MEC1, mitosis entry checkpoint 1, homolog (S. cerevisiae)"	601215	"ataxia telangiectasia and Rad3 related"			8978690, 8610130	Standard	NM_001184		Approved	FRP1, SCKL, SCKL1, MEC1	uc003eux.4	Q13535	OTTHUMG00000159234	ENST00000350721.4:c.4360C>T	3.37:g.142238533G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q59HB2|Q7KYL3|Q93051|Q9BXK4	Silent	SNP	ENST00000350721.4	37	CCDS3124.1																																																																																				0.363	ATR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353995.2	NM_001184		A	142238533	G	A	142238533	2	1	595	1	0	0	0	0	0	0	0	1	1204	1020	36	2		2	ATR	3	142238533	Silent	SNP	G	TCGA-G7-7502-01A-11D-2201-08	15507653	142238533	55783897	26	35486										
FXR1	8087	hgsc.bcm.edu	37	chr3	180693192	180693192	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	gctaaaaacaagaaagaaatGgtaaggagaatttaacctgt	9	4	0	3			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr3:180693192G>C	ENST00000357559.4	+	16	2079	c.1695G>C	c.(1693-1695)atG>atC	p.M565I	FXR1_ENST00000305586.7_Splice_Site_p.M480I|FXR1_ENST00000468861.1_Intron|FXR1_ENST00000491062.1_Intron|FXR1_ENST00000445140.2_Intron|FXR1_ENST00000480918.1_Splice_Site_p.M552I	NM_001013438.2|NM_005087.3	NP_001013456.1|NP_005078.2	P51114	FXR1_HUMAN	fragile X mental retardation, autosomal homolog 1	565					apoptotic process (GO:0006915)|cell differentiation (GO:0030154)|muscle organ development (GO:0007517)|negative regulation of translation (GO:0017148)	costamere (GO:0043034)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleolus (GO:0005730)|polysome (GO:0005844)	G-quadruplex RNA binding (GO:0002151)|mRNA 3'-UTR binding (GO:0003730)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			breast(3)|endometrium(4)|large_intestine(5)|lung(12)|skin(2)	26	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			AGAAAGAAATGGTAAGGAGAA	0.328																																																0													25	26	26					3																	180693192		2182	4290	6472	SO:0001630	splice_region_variant	8087			M67468	CCDS3238.1, CCDS33894.1, CCDS46965.1	3q28	2014-01-28			ENSG00000114416	ENSG00000114416			4023	protein-coding gene	gene with protein product		600819				7781595, 9642279	Standard	NM_005087		Approved		uc003fkq.3	P51114	OTTHUMG00000158138	ENST00000357559.4:c.1695+1G>C	3.37:g.180693192G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K9B8|Q7Z450|Q8N6R8	Missense_Mutation	SNP	ENST00000357559.4	37	CCDS3238.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	12.11|12.11	1.840212|1.840212	0.32513|0.32513	.|.	.|.	ENSG00000114416|ENSG00000114416	ENST00000357559;ENST00000305586;ENST00000480918|ENST00000482125	T;T;T|.	0.26373|.	1.93;1.74;1.74|.	5.44|5.44	5.44|5.44	0.79542|0.79542	.|.	0.453907|.	0.26987|.	N|.	0.021492|.	T|T	0.47303|0.47303	0.1438|0.1438	N|N	0.08118|0.08118	0|0	0.58432|0.58432	D|D	0.99999|0.99999	B;B;B|.	0.02656|.	0.0;0.0;0.0|.	B;B;B|.	0.04013|.	0.001;0.001;0.001|.	T|T	0.43523|0.43523	-0.9386|-0.9386	10|5	0.14252|.	T|.	0.57|.	-25.5339|-25.5339	19.2374|19.2374	0.93866|0.93866	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	552;509;565|.	B4DXZ6;E7ERF5;P51114|.	.;.;FXR1_HUMAN|.	I|S	565;480;552|193	ENSP00000350170:M565I;ENSP00000307633:M480I;ENSP00000418097:M552I|.	ENSP00000307633:M480I|.	M|W	+|+	3|2	0|0	FXR1|FXR1	182175886|182175886	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	9.220000|9.220000	0.95180|0.95180	2.550000|2.550000	0.86006|0.86006	0.609000|0.609000	0.83330|0.83330	ATG|TGG		0.328	FXR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350265.5		Missense_Mutation	C	180693192	G	C	180693192	5	2	595	1	0	0	0	0	0	0	1	0	6122	1362	47	4	1757	4	FXR1	3	180693192	Splice_Site	SNP	G	TCGA-G7-7502-01A-11D-2201-08	38454659	180693192	17329238	27	35487										
N4BP2	55728	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	40122970	40122970	+	Frame_Shift_Del	DEL	A	A	-													0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	taaaagcacgtttgttgaagAaagtgagcttaccagtgcag							TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr4:40122970delA	ENST00000261435.6	+	9	3655	c.3239delA	c.(3238-3240)gaafs	p.E1080fs		NM_018177.4	NP_060647.2	Q86UW6	N4BP2_HUMAN	NEDD4 binding protein 2	1080					nucleic acid phosphodiester bond hydrolysis (GO:0090305)|phosphorylation (GO:0016310)	cytosol (GO:0005829)	ATP binding (GO:0005524)|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity (GO:0046404)|endonuclease activity (GO:0004519)			breast(4)|endometrium(3)|kidney(12)|large_intestine(7)|liver(2)|lung(22)|ovary(1)|pancreas(1)|prostate(2)|skin(5)|upper_aerodigestive_tract(1)	60						TTTGTTGAAGAAAGTGAGCTT	0.338																																																0													75	81	79					4																	40122970		2201	4300	6501	SO:0001589	frameshift_variant	55728			AB037834	CCDS3457.1	4p14	2008-01-18			ENSG00000078177	ENSG00000078177			29851	protein-coding gene	gene with protein product	"BCL-3 binding protein"					10718198, 11717310	Standard	NM_018177		Approved	B3BP	uc003guy.4	Q86UW6	OTTHUMG00000128599	ENST00000261435.6:c.3239delA	4.37:g.40122970delA	ENSP00000261435:p.Glu1080fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVR3|Q9NVK2|Q9P2D4	Frame_Shift_Del	DEL	ENST00000261435.6	37	CCDS3457.1																																																																																				0.338	N4BP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250458.2	NM_018177		-	40122970	A	-	40122970	7	5	595	1	0	1	0	1	0	0	0	0	10117	246	9	0	3265	0	N4BP2	4	40122970	Frame_Shift_Del	DEL	A	TCGA-G7-7502-01A-11D-2201-08		40122970	151031306	28	35488										
LNX1	84708	broad.mit.edu;bcgsc.ca	37	chr4	54362298	54362298	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ccatgtcgatatgccacaccGccatccagcacattgaagat	7	14	0	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr4:54362298G>A	ENST00000263925.7	-	6	1556	c.1242C>T	c.(1240-1242)ggC>ggT	p.G414G	LNX1-AS1_ENST00000502373.1_RNA|FIP1L1_ENST00000507166.1_Intron|LNX1_ENST00000306888.2_Silent_p.G318G	NM_001126328.2	NP_001119800.1	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1, E3 ubiquitin protein ligase	414	PDZ 2. {ECO:0000255|PROSITE- ProRule:PRU00143}.				protein homooligomerization (GO:0051260)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(1)|central_nervous_system(3)|endometrium(3)|large_intestine(11)|lung(6)|ovary(3)|urinary_tract(4)	32	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)			ATGCCACACCGCCATCCAGCA	0.502																																																0													159	135	143					4																	54362298		2203	4300	6503	SO:0001819	synonymous_variant	84708			AF237782	CCDS3492.1, CCDS47057.1	4q12	2013-01-09	2012-02-23	2005-11-04	ENSG00000072201	ENSG00000072201		"RING-type (C3HC4) zinc fingers"	6657	protein-coding gene	gene with protein product		609732	"ligand of numb-protein X", "ligand of numb-protein X 1"	LNX		11521506, 11782429	Standard	NM_032622		Approved	MPDZ, PDZRN2	uc003hag.5	Q8TBB1	OTTHUMG00000102099	ENST00000263925.7:c.1242C>T	4.37:g.54362298G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5K7|Q8N4C2|Q96MJ7|Q9BY20	Silent	SNP	ENST00000263925.7	37	CCDS47057.1																																																																																				0.502	LNX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219934.2			A	54362298	G	A	54362298	2	1	595	1	0	0	0	0	0	0	0	1	8872	1074	38	1		1	LNX1	4	54362298	Silent	SNP	G	TCGA-G7-7502-01A-11D-2201-08	14239328	54362298	136791978	29	35489										
ANP32C	55016	broad.mit.edu	37	chr4	165118517	165118517	+	Intron	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tggttacctcgcaattgaaaAggtctaagctcttgaggttt	10	7	2	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr4:165118517A>G	ENST00000503008.1	-	2	864				MARCH1_ENST00000508725.1_Intron|MARCH1_ENST00000514618.1_Intron	NM_001166373.1	NP_001159845.1	Q8TCQ1	MARH1_HUMAN	membrane-associated ring finger (C3HC4) 1, E3 ubiquitin protein ligase						antigen processing and presentation of peptide antigen via MHC class II (GO:0002495)|immune response (GO:0006955)|protein polyubiquitination (GO:0000209)	cytoplasmic vesicle (GO:0031410)|early endosome membrane (GO:0031901)|endoplasmic reticulum membrane (GO:0005789)|endosome (GO:0005768)|integral component of membrane (GO:0016021)|late endosome membrane (GO:0031902)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)	ligase activity (GO:0016874)|MHC protein binding (GO:0042287)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(3)|large_intestine(3)|lung(20)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	36	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				GCAATTGAAAAGGTCTAAGCT	0.433																																																0													160	159	159					4																	165118517		2203	4300	6503	SO:0001627	intron_variant	23520			AK000675	CCDS3806.1, CCDS54814.1	4q32.2	2013-01-09	2012-02-23			ENSG00000145416		"MARCH membrane-associated ring fingers", "RING-type (C3HC4) zinc fingers"	26077	protein-coding gene	gene with protein product		613331	"membrane-associated ring finger (C3HC4) 1"			14722266	Standard	NM_017923		Approved	FLJ20668, MARCH-I, RNF171	uc003iqs.2	Q8TCQ1		ENST00000503008.1:c.113-85703T>C	4.37:g.165118517A>G		Somatic		WXS	Illumina HiSeq	Phase_I	D3DP29|Q9NWR0	Missense_Mutation	SNP	ENST00000503008.1	37	CCDS54814.1																																																																																				0.433	MARCH1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364493.2	NM_017923		G	165118517	A	G	165118517	1	3	595	0	1	0	0	0	0	0	0	0	707	72	3	3		3	ANP32C	4	165118517	Intron	SNP	A	TCGA-G7-7502-01A-11D-2201-08	110756219	165118517	26035759	30	35490										
SLC9A3	6550	hgsc.bcm.edu	37	chr5	475016	475016	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	acatgtgtgtggactcggggAgggcggcggggggccgctcc	21	10	0	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr5:475016A>G	ENST00000264938.3	-	16	2492	c.2483T>C	c.(2482-2484)cTc>cCc	p.L828P	CTD-2228K2.5_ENST00000510604.1_5'Flank|CTD-2228K2.5_ENST00000510714.1_5'Flank|CTD-2228K2.7_ENST00000607005.1_RNA|CTD-2228K2.5_ENST00000342584.3_5'Flank|CTD-2228K2.7_ENST00000607286.1_RNA|SLC9A3_ENST00000514375.1_Missense_Mutation_p.L819P|CTD-2228K2.7_ENST00000606319.1_RNA|CTD-2228K2.7_ENST00000606288.1_RNA	NM_004174.2	NP_004165.2	P48764	SL9A3_HUMAN	solute carrier family 9, subfamily A (NHE3, cation proton antiporter 3), member 3	828					ion transport (GO:0006811)|regulation of pH (GO:0006885)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|brush border (GO:0005903)|brush border membrane (GO:0031526)|cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	PDZ domain binding (GO:0030165)|sodium:proton antiporter activity (GO:0015385)			NS(2)|biliary_tract(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(4)|liver(2)|lung(16)|prostate(3)|skin(2)|urinary_tract(1)	37			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			GGACTCGGGGAGGGCGGCGGG	0.721																																																0													7	9	8					5																	475016		2156	4230	6386	SO:0001583	missense	6550				CCDS3855.1, CCDS64116.1	5p15.3	2013-05-22	2012-03-22		ENSG00000066230	ENSG00000066230		"Solute carriers"	11073	protein-coding gene	gene with protein product		182307	"solute carrier family 9 (sodium/hydrogen exchanger), isoform 3", "solute carrier family 9 (sodium/hydrogen exchanger), member 3"	NHE3		8096830	Standard	NM_004174		Approved		uc003jbe.2	P48764	OTTHUMG00000090315	ENST00000264938.3:c.2483T>C	5.37:g.475016A>G	ENSP00000264938:p.Leu828Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKR2|E9PF67|Q3MIW3	Missense_Mutation	SNP	ENST00000264938.3	37	CCDS3855.1	.	.	.	.	.	.	.	.	.	.	A	3.598	-0.082275	0.07141	.	.	ENSG00000066230	ENST00000264938;ENST00000514375	T;T	0.73897	-0.79;-0.79	4.4	-5.74	0.02391	.	10.822200	0.00447	N	0.000092	T	0.54935	0.1889	N	0.14661	0.345	0.09310	N	0.999998	B;B	0.09022	0.001;0.002	B;B	0.06405	0.001;0.002	T	0.43909	-0.9362	10	0.28530	T	0.3	.	7.8835	0.29635	0.3532:0.0:0.5187:0.1281	.	819;828	E9PF67;P48764	.;SL9A3_HUMAN	P	828;819	ENSP00000264938:L828P;ENSP00000422983:L819P	ENSP00000264938:L828P	L	-	2	0	SLC9A3	528016	0.003000	0.15002	0.000000	0.03702	0.014000	0.08584	-0.110000	0.10824	-1.517000	0.01780	-1.542000	0.00909	CTC		0.721	SLC9A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206677.2	NM_004174		G	475016	A	G	475016	3	3	595	1	0	0	0	0	1	0	0	0	14726	304	11	3	29	3	SLC9A3	5	475016	Missense_Mutation	SNP	A	TCGA-G7-7502-01A-11D-2201-08		475016	180440244	31	35491										
NIPAL4	348938	hgsc.bcm.edu	37	chr5	156899851	156899851	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	aaaaacccacccccttctccCgccccggaacccactgttat	4	20	1	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr5:156899851C>T	ENST00000311946.7	+	6	1400	c.1284C>T	c.(1282-1284)ccC>ccT	p.P428P	ADAM19_ENST00000430702.2_Intron|NIPAL4_ENST00000435489.2_Silent_p.P409P	NM_001099287.1	NP_001092757.1	Q0D2K0	NIPA4_HUMAN	NIPA-like domain containing 4	428						integral component of membrane (GO:0016021)	magnesium ion transmembrane transporter activity (GO:0015095)			breast(3)|endometrium(3)|kidney(1)|large_intestine(1)|lung(12)|prostate(1)|skin(1)	22						CCCCTTCTCCCGCCCCGGAAC	0.512																																																0													40	39	40					5																	156899851		1923	4135	6058	SO:0001819	synonymous_variant	348938			AK026158	CCDS47328.1, CCDS54944.1	5q33.3	2009-03-24	2009-03-24		ENSG00000172548	ENSG00000172548			28018	protein-coding gene	gene with protein product	"ichthyin"	609383	"NIPA-like 4"			8619474, 9110174, 15317751	Standard	NM_001099287		Approved	ICHYN	uc003lwx.4	Q0D2K0	OTTHUMG00000163497	ENST00000311946.7:c.1284C>T	5.37:g.156899851C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8S6F1|A8S6F5|A8S6F8|B4DLF3|Q0D2J8|Q0D2J9	Silent	SNP	ENST00000311946.7	37	CCDS47328.1																																																																																				0.512	NIPAL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373789.1	NM_001099287		T	156899851	C	T	156899851	2	4	595	1	0	0	0	0	0	0	0	1	10434	639	23	1		1	NIPAL4	5	156899851	Silent	SNP	C	TCGA-G7-7502-01A-11D-2201-08	156424835	156899851	24015409	32	35492										
EHMT2	10919	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	31864742	31864742	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ttccttctccagcagcagcgCccccatctcagcgggggcct	10	18	2	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr6:31864742C>A	ENST00000375537.4	-	2	73	c.67G>T	c.(67-69)Gcg>Tcg	p.A23S	C2_ENST00000469372.1_5'Flank|EHMT2_ENST00000395728.3_Missense_Mutation_p.A80S|EHMT2_ENST00000480912.1_5'Flank|EHMT2_ENST00000375528.4_Missense_Mutation_p.A80S|EHMT2_ENST00000375530.4_Missense_Mutation_p.A23S	NM_006709.3	NP_006700.3	Q96KQ7	EHMT2_HUMAN	euchromatic histone-lysine N-methyltransferase 2	23					DNA methylation (GO:0006306)|DNA methylation on cytosine within a CG sequence (GO:0010424)|fertilization (GO:0009566)|histone methylation (GO:0016571)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|organ growth (GO:0035265)|peptidyl-lysine dimethylation (GO:0018027)|regulation of DNA replication (GO:0006275)|spermatid development (GO:0007286)|synaptonemal complex assembly (GO:0007130)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	C2H2 zinc finger domain binding (GO:0070742)|histone methyltransferase activity (H3-K27 specific) (GO:0046976)|histone methyltransferase activity (H3-K9 specific) (GO:0046974)|histone-lysine N-methyltransferase activity (GO:0018024)|p53 binding (GO:0002039)|protein-lysine N-methyltransferase activity (GO:0016279)|zinc ion binding (GO:0008270)			central_nervous_system(1)|cervix(2)|kidney(2)|large_intestine(3)|lung(6)|ovary(2)|prostate(4)|upper_aerodigestive_tract(1)	21						AGCAGCAGCGCCCCCATCTCA	0.637																																																0													129	130	130					6																	31864742		1511	2709	4220	SO:0001583	missense	10919			AF134726	CCDS4725.1, CCDS4726.1, CCDS75425.1	6p21.3	2013-01-10	2004-03-22	2005-06-09	ENSG00000204371	ENSG00000204371	2.1.1.43	"Chromatin-modifying enzymes / K-methyltransferases", "Ankyrin repeat domain containing"	14129	protein-coding gene	gene with protein product		604599	"chromosome 6 open reading frame 30", "HLA-B associated transcript 8"	C6orf30, BAT8		8457211, 11316813	Standard	XM_005274833		Approved	G9A, Em:AF134726.3, NG36/G9a, KMT1C	uc003nxz.1	Q96KQ7	OTTHUMG00000031180	ENST00000375537.4:c.67G>T	6.37:g.31864742C>A	ENSP00000364687:p.Ala23Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B0UZY2|Q14349|Q5JP83|Q5JQ92|Q5JQA1|Q5JQG3|Q6PK06|Q96MH5|Q96QD0|Q9UQL8|Q9Y331	Missense_Mutation	SNP	ENST00000375537.4	37	CCDS4725.1	.	.	.	.	.	.	.	.	.	.	C	11.55	1.673198	0.29693	.	.	ENSG00000204371	ENST00000395728;ENST00000375528;ENST00000375530;ENST00000375537	T;T;T;T	0.76968	-0.73;-1.06;-0.98;-0.68	3.79	1.93	0.25924	.	0.364320	0.20081	N	0.099658	T	0.38957	0.1060	N	0.08118	0	0.22531	N	0.999013	B;P;B;B	0.50819	0.03;0.939;0.05;0.03	B;B;B;B	0.43867	0.017;0.434;0.025;0.002	T	0.32798	-0.9893	10	0.51188	T	0.08	.	5.6198	0.17451	0.0:0.7389:0.0:0.261	.	80;23;23;23	A2ABF8;Q96KQ7-3;Q96KQ7-2;Q96KQ7	.;.;.;EHMT2_HUMAN	S	80;80;23;23	ENSP00000379078:A80S;ENSP00000364678:A80S;ENSP00000364680:A23S;ENSP00000364687:A23S	ENSP00000364678:A80S	A	-	1	0	EHMT2	31972721	1.000000	0.71417	1.000000	0.80357	0.248000	0.25809	1.196000	0.32198	0.735000	0.32537	-0.361000	0.07541	GCG		0.637	EHMT2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000076355.5	NM_006709		A	31864742	C	A	31864742	3	1	595	1	0	0	0	0	1	0	0	0	4986	739	26	4	3673	4	EHMT2	6	31864742	Missense_Mutation	SNP	C	TCGA-G7-7502-01A-11D-2201-08		31864742	139250325	33	35493										
BRD2	6046	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	32945266	32945266	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	gatgcacaggagtttgctgcTgatgtacggcttatgttctc	12	8	1	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr6:32945266T>C	ENST00000374825.4	+	8	2949	c.1248T>C	c.(1246-1248)gcT>gcC	p.A416A	BRD2_ENST00000395289.2_Silent_p.A416A|BRD2_ENST00000443797.2_Silent_p.A296A|BRD2_ENST00000395287.1_Silent_p.A416A|BRD2_ENST00000449085.2_Silent_p.A369A|BRD2_ENST00000374831.4_Silent_p.A416A	NM_005104.3	NP_005095.1	P25440	BRD2_HUMAN	bromodomain containing 2	416	Bromo 2. {ECO:0000255|PROSITE- ProRule:PRU00035}.				chromatin modification (GO:0016568)|nucleosome assembly (GO:0006334)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|lysine-acetylated histone binding (GO:0070577)			central_nervous_system(3)|stomach(2)	5						AGTTTGCTGCTGATGTACGGC	0.517																																																0													279	225	244					6																	32945266		1511	2708	4219	SO:0001819	synonymous_variant	6046			X96670	CCDS4762.1, CCDS56420.1, CCDS56421.1	6p21.3	2010-12-23	2002-01-14		ENSG00000204256	ENSG00000204256			1103	protein-coding gene	gene with protein product		601540	"bromodomain-containing 2"			1352711, 8781126	Standard	NM_005104		Approved	KIAA9001, RING3, D6S113E, NAT, FSRG1	uc021ywf.1	P25440	OTTHUMG00000031241	ENST00000374825.4:c.1248T>C	6.37:g.32945266T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2AAU0|B0S7P0|B1AZT1|O00699|O00700|Q15310|Q5STC9|Q63HQ9|Q658Y7|Q6P3U2|Q969U4	Silent	SNP	ENST00000374825.4	37	CCDS4762.1	.	.	.	.	.	.	.	.	.	.	T	9.651	1.141473	0.21205	.	.	ENSG00000204256	ENST00000449025	.	.	.	5.25	5.25	0.73442	.	.	.	.	.	T	0.55337	0.1914	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.56360	-0.7992	4	.	.	.	-14.7189	13.1555	0.59514	0.0:0.0:0.0:1.0	.	.	.	.	P	422	.	.	L	+	2	0	BRD2	33053244	0.998000	0.40836	1.000000	0.80357	0.997000	0.91878	0.370000	0.20433	2.205000	0.71048	0.523000	0.50628	CTG		0.517	BRD2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000076503.2			C	32945266	T	C	32945266	2	2	595	1	0	0	0	0	0	0	0	1	1504	1567	55	3		3	BRD2	6	32945266	Silent	SNP	T	TCGA-G7-7502-01A-11D-2201-08	1080524	32945266	138169801	34	35494										
DNAH8	1769	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	38913344	38913344	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	agctgagtaaacttccacaaTttgcagaaattatgaaccag	7	8	0	3			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr6:38913344T>C	ENST00000359357.3	+	78	11712	c.11458T>C	c.(11458-11460)Ttt>Ctt	p.F3820L	DNAH8_ENST00000449981.2_Missense_Mutation_p.F4037L|RP1-207H1.3_ENST00000416948.1_RNA|DNAH8_ENST00000441566.1_Missense_Mutation_p.F3784L			Q96JB1	DYH8_HUMAN	dynein, axonemal, heavy chain 8	3820					cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(7)|breast(9)|central_nervous_system(4)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(3)|kidney(16)|large_intestine(44)|liver(4)|lung(101)|ovary(7)|pancreas(2)|prostate(8)|skin(28)|stomach(4)|upper_aerodigestive_tract(6)|urinary_tract(4)	260						ACTTCCACAATTTGCAGAAAT	0.488																																																0													96	95	96					6																	38913344		2203	4300	6503	SO:0001583	missense	1769			Z83806	CCDS75447.1	6p21.2	2012-04-19	2006-09-04		ENSG00000124721	ENSG00000124721		"Axonemal dyneins"	2952	protein-coding gene	gene with protein product		603337	"dynein, axonemal, heavy polypeptide 8"			9373155	Standard	NM_001206927		Approved	hdhc9	uc021yzh.1	Q96JB1	OTTHUMG00000016253	ENST00000359357.3:c.11458T>C	6.37:g.38913344T>C	ENSP00000352312:p.Phe3820Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O00438|Q5JYI2|Q5T2M3|Q5T2M4|Q5TG00|Q9UEM4	Missense_Mutation	SNP	ENST00000359357.3	37		.	.	.	.	.	.	.	.	.	.	T	26.7	4.762200	0.89932	.	.	ENSG00000124721	ENST00000449981;ENST00000327475;ENST00000359357;ENST00000441566	T;T;T	0.10382	2.88;2.88;2.88	5.59	5.59	0.84812	Dynein heavy chain (1);	0.000000	0.85682	D	0.000000	T	0.30634	0.0771	M	0.87180	2.865	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.999;1.0	T	0.20706	-1.0267	10	0.62326	D	0.03	.	15.7453	0.77936	0.0:0.0:0.0:1.0	.	3784;3820	Q96JB1-2;Q96JB1	.;DYH8_HUMAN	L	4025;4025;3820;3784	ENSP00000333363:F4025L;ENSP00000352312:F3820L;ENSP00000402294:F3784L	ENSP00000333363:F4025L	F	+	1	0	DNAH8	39021322	1.000000	0.71417	0.981000	0.43875	0.962000	0.63368	7.948000	0.87774	2.129000	0.65627	0.459000	0.35465	TTT		0.488	DNAH8-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000043574.1	NM_001206927		C	38913344	T	C	38913344	3	2	595	1	0	0	0	0	1	0	0	0	4609	1493	52	3	11760	3	DNAH8	6	38913344	Missense_Mutation	SNP	T	TCGA-G7-7502-01A-11D-2201-08	5968078	38913344	132201723	35	35495										
MRPL2	51069	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	43023807	43023820	+	Splice_Site	DEL	GCCATCTCTCACCT	GCCATCTCTCACCT	-													0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tccagcccacacatctggtaGccatctctcacctgccattc							TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	GCCATCTCTCACCT	GCCATCTCTCACCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr6:43023807_43023820delGCCATCTCTCACCT	ENST00000388752.3	-	4	943_945	c.519_521delAGGTGAGAGATGGC	c.(517-522)gcaggt>gct	p.G174fs	MRPL2_ENST00000489623.1_Intron|CUL7_ENST00000265348.3_5'Flank|CUL7_ENST00000535468.1_5'Flank|MRPL2_ENST00000230413.5_Splice_Site_p.G174fs	NM_015950.3	NP_057034.2	Q5T653	RM02_HUMAN	mitochondrial ribosomal protein L2	174					translation (GO:0006412)	mitochondrion (GO:0005739)|ribosome (GO:0005840)	poly(A) RNA binding (GO:0044822)|structural constituent of ribosome (GO:0003735)			breast(1)|endometrium(2)|kidney(3)|large_intestine(1)|lung(2)	9		Ovarian(999;0.0014)	Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00708)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)	BRCA - Breast invasive adenocarcinoma(397;0.0026)		ACATCTGGTAGCCATCTCTCACCTGCCATTCGGC	0.533																																																0																																										SO:0001630	splice_region_variant	51069			AB051617	CCDS34454.1, CCDS75458.1	6p21.3	2012-09-13			ENSG00000112651	ENSG00000112651		"Mitochondrial ribosomal proteins / large subunits"	14056	protein-coding gene	gene with protein product		611822					Standard	XM_005249161		Approved	MRP-L14, RPML14, CGI-22	uc003ots.1	Q5T653	OTTHUMG00000014719	ENST00000388752.3:c.520+1AGGTGAGAGATGGC>-	6.37:g.43023807_43023820delGCCATCTCTCACCT		Somatic		WXS	Illumina HiSeq	Phase_I	B2RC56|Q8WUL1|Q96Q56|Q9Y311	Frame_Shift_Del	DEL	ENST00000388752.3	37	CCDS34454.1																																																																																				0.533	MRPL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040577.2		Frame_Shift_Del	-	43023820	GCCATCTCTCACCT	-	43023807	8	5	595	1	0	1	0	1	0	0	1	0	9792	986	34	0		0	MRPL2	6	43023807	Splice_Site	DEL	GCCATCTCTCACCT	TCGA-G7-7502-01A-11D-2201-08	4110463	43023807	128091260	36	35496										
SLC35B2	347734	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	44224125	44224125	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	gcttcagggcctgccacatcGgggtggtctctgccgcctct	13	15	3	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr6:44224125G>C	ENST00000393812.3	-	3	457	c.314C>G	c.(313-315)cCg>cGg	p.P105R	SLC35B2_ENST00000537814.1_Intron|SLC35B2_ENST00000393810.1_Intron|SLC35B2_ENST00000495706.1_5'UTR|SLC35B2_ENST00000538577.1_Intron|MIR4647_ENST00000583964.1_RNA	NM_178148.2	NP_835361.1	Q8TB61	S35B2_HUMAN	solute carrier family 35 (adenosine 3'-phospho 5'-phosphosulfate transporter), member B2	105					3'-phospho-5'-adenylyl sulfate transmembrane transport (GO:1902559)|3'-phosphoadenosine 5'-phosphosulfate biosynthetic process (GO:0050428)|3'-phosphoadenosine 5'-phosphosulfate metabolic process (GO:0050427)|3'-phosphoadenosine 5'-phosphosulfate transport (GO:0046963)|carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|xenobiotic metabolic process (GO:0006805)	Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	3'-phosphoadenosine 5'-phosphosulfate transmembrane transporter activity (GO:0046964)|signal transducer activity (GO:0004871)			breast(1)|central_nervous_system(2)|kidney(3)|large_intestine(2)|lung(4)|ovary(2)|urinary_tract(1)	15	all_cancers(18;2e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CTGCCACATCGGGGTGGTCTC	0.627																																																0													58	67	64					6																	44224125		2203	4300	6503	SO:0001583	missense	347734			AK075456	CCDS34462.1, CCDS69127.1, CCDS75462.1, CCDS75463.1	6p12.1-p11.21	2013-07-17	2013-07-17		ENSG00000157593	ENSG00000157593		"Solute carriers"	16872	protein-coding gene	gene with protein product		610788	"solute carrier family 35, member B2"				Standard	NM_001286517		Approved	UGTrel4	uc003oxd.3	Q8TB61	OTTHUMG00000014760	ENST00000393812.3:c.314C>G	6.37:g.44224125G>C	ENSP00000377401:p.Pro105Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DDU9|F5H7Y9|Q2VY06|Q53GA3|Q5T9W1|Q5T9W2|Q7Z2G3|Q8NBK6|Q96AR6	Missense_Mutation	SNP	ENST00000393812.3	37	CCDS34462.1	.	.	.	.	.	.	.	.	.	.	G	11.82	1.752871	0.31046	.	.	ENSG00000157593	ENST00000393812;ENST00000341553	T	0.30714	1.52	4.26	3.35	0.38373	.	0.419213	0.26176	N	0.025884	T	0.08935	0.0221	N	0.14661	0.345	0.80722	D	1	B	0.02656	0.0	B	0.06405	0.002	T	0.06826	-1.0805	10	0.22109	T	0.4	-29.8524	15.4721	0.75446	0.0:0.1512:0.8488:0.0	.	105	Q8TB61	S35B2_HUMAN	R	105	ENSP00000377401:P105R	ENSP00000342455:P105R	P	-	2	0	SLC35B2	44332103	1.000000	0.71417	0.889000	0.34880	0.859000	0.49053	7.270000	0.78493	2.191000	0.70037	0.561000	0.74099	CCG		0.627	SLC35B2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040724.2			C	44224125	G	C	44224125	3	2	595	1	0	0	0	0	1	0	0	0	14589	1116	39	4	992	4	SLC35B2	6	44224125	Missense_Mutation	SNP	G	TCGA-G7-7502-01A-11D-2201-08	1200318	44224125	126890942	37	35497										
MOXD1	26002	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	132694134	132694134	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	cagatcactctcacagtgctAtcctggggatcagacatggg	11	11	3	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr6:132694134A>C	ENST00000367963.3	-	3	532	c.414T>G	c.(412-414)gaT>gaG	p.D138E	MOXD1_ENST00000336749.3_Missense_Mutation_p.D70E	NM_015529.2	NP_056344.2	Q6UVY6	MOXD1_HUMAN	monooxygenase, DBH-like 1	138	DOMON. {ECO:0000255|PROSITE- ProRule:PRU00246}.					endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	copper ion binding (GO:0005507)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced ascorbate as one donor, and incorporation of one atom of oxygen (GO:0016715)			breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(15)|ovary(1)|prostate(3)|skin(1)	37	Breast(56;0.0495)			OV - Ovarian serous cystadenocarcinoma(155;0.0132)|GBM - Glioblastoma multiforme(226;0.0191)		TCACAGTGCTATCCTGGGGAT	0.458																																																0													100	89	92					6																	132694134		2203	4300	6503	SO:0001583	missense	26002			AY007239	CCDS5152.2	6q23.2	2010-09-24			ENSG00000079931	ENSG00000079931			21063	protein-coding gene	gene with protein product		609000				9751809	Standard	XM_006715456		Approved	DKFZP564G202, MOX, dJ248E1.1	uc003qdf.3	Q6UVY6	OTTHUMG00000055853	ENST00000367963.3:c.414T>G	6.37:g.132694134A>C	ENSP00000356940:p.Asp138Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5THU6|Q8NC97|Q8WV49|Q9H4M6|Q9Y4U3	Missense_Mutation	SNP	ENST00000367963.3	37	CCDS5152.2	.	.	.	.	.	.	.	.	.	.	A	4.845	0.157121	0.09236	.	.	ENSG00000079931	ENST00000367963;ENST00000336749	T;T	0.77750	-1.12;-1.12	5.3	0.0261	0.14148	DOMON domain (3);	0.440036	0.24074	N	0.041793	T	0.17195	0.0413	N	0.02129	-0.67	0.80722	D	1	B;B	0.02656	0.0;0.0	B;B	0.06405	0.002;0.001	T	0.37842	-0.9688	10	0.02654	T	1	-26.2778	1.3667	0.02202	0.1886:0.3795:0.1103:0.3217	.	138;70	Q6UVY6;Q6UVY6-2	MOXD1_HUMAN;.	E	138;70	ENSP00000356940:D138E;ENSP00000336998:D70E	ENSP00000336998:D70E	D	-	3	2	MOXD1	132735827	0.665000	0.27466	0.999000	0.59377	0.974000	0.67602	-0.336000	0.07863	0.084000	0.17077	0.528000	0.53228	GAT		0.458	MOXD1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000125837.1	NM_015529		C	132694134	A	C	132694134	3	2	595	1	0	0	0	0	1	0	0	0	9727	446	16	5	1467	5	MOXD1	6	132694134	Missense_Mutation	SNP	A	TCGA-G7-7502-01A-11D-2201-08	88470009	132694134	38420933	38	35498										
TXLNB	167838	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	139563747	139563747	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	actggcagctcctctgctgcTgctcgtgggggctgcctact	13	14	1	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr6:139563747T>C	ENST00000358430.3	-	10	2203	c.1971A>G	c.(1969-1971)gcA>gcG	p.A657A	RP1-225E12.3_ENST00000585874.1_RNA	NM_153235.3	NP_694967.3	Q8N3L3	TXLNB_HUMAN	taxilin beta	657						cytoplasm (GO:0005737)				breast(2)|cervix(2)|endometrium(3)|kidney(2)|large_intestine(5)|lung(14)|ovary(2)|prostate(4)|skin(1)|upper_aerodigestive_tract(2)	37				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		CCTCTGCTGCTGCTCGTGGGG	0.642																																																0													47	53	51					6																	139563747		2203	4300	6503	SO:0001819	synonymous_variant	167838				CCDS34545.1	6q23.3	2008-02-05	2005-07-29	2005-07-29	ENSG00000164440	ENSG00000164440			21617	protein-coding gene	gene with protein product		611438	"chromosome 6 open reading frame 198"	C6orf198		15184072	Standard	NM_153235		Approved	DKFZp451A175, MDP77, dJ522B19.2	uc021zfy.1	Q8N3L3	OTTHUMG00000015688	ENST00000358430.3:c.1971A>G	6.37:g.139563747T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VTF3|Q76L25|Q86T52|Q8N3S2	Silent	SNP	ENST00000358430.3	37	CCDS34545.1																																																																																				0.642	TXLNB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042458.1	NM_153235		C	139563747	T	C	139563747	2	2	595	1	0	0	0	0	0	0	0	1	16800	1567	55	3		3	TXLNB	6	139563747	Silent	SNP	T	TCGA-G7-7502-01A-11D-2201-08	6869613	139563747	31551320	39	35499										
PHF10	55274	ucsc.edu	37	chr6	170117955	170117955	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ttcagtaatgacatttagctCtctcaggtagagtttctcct	7	9	4	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr6:170117955C>A	ENST00000339209.4	-	4	496	c.373G>T	c.(373-375)Gag>Tag	p.E125*	PHF10_ENST00000366780.4_Nonsense_Mutation_p.E123*|PHF10_ENST00000464779.1_5'UTR	NM_018288.3|NM_133325.2	NP_060758.2|NP_579866.2	Q8WUB8	PHF10_HUMAN	PHD finger protein 10	125	Essential to induce neural progenitor proliferation. {ECO:0000250}.|SAY.				nervous system development (GO:0007399)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	npBAF complex (GO:0071564)	zinc ion binding (GO:0008270)			endometrium(2)|large_intestine(2)|liver(3)|lung(4)|prostate(2)|urinary_tract(1)	14		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.4e-21)|BRCA - Breast invasive adenocarcinoma(81;1.4e-07)|GBM - Glioblastoma multiforme(31;0.00176)		ACATTTAGCTCTCTCAGGTAG	0.333																																																0													48	44	45					6																	170117955		2202	4299	6501	SO:0001587	stop_gained	55274			AF338735	CCDS5308.2, CCDS5309.2	6q27	2014-05-13			ENSG00000130024	ENSG00000130024		"Zinc fingers, PHD-type"	18250	protein-coding gene	gene with protein product		613069				11827455	Standard	NM_018288		Approved	FLJ10975, XAP135, BAF45a	uc011egy.2	Q8WUB8	OTTHUMG00000016058	ENST00000339209.4:c.373G>T	6.37:g.170117955C>A	ENSP00000341805:p.Glu125*	Somatic		WXS	Illumina HiSeq		Q2YDA3|Q53HG8|Q9BXD2|Q9NV26	Nonsense_Mutation	SNP	ENST00000339209.4	37	CCDS5308.2	.	.	.	.	.	.	.	.	.	.	C	32	5.117991	0.94385	.	.	ENSG00000130024	ENST00000366780;ENST00000339209	.	.	.	5.77	5.77	0.91146	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	-31.5125	19.3504	0.94381	0.0:1.0:0.0:0.0	.	.	.	.	X	123;125	.	ENSP00000341805:E125X	E	-	1	0	PHF10	169859880	1.000000	0.71417	0.967000	0.41034	0.871000	0.50021	7.211000	0.77933	2.885000	0.99019	0.655000	0.94253	GAG		0.333	PHF10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000346732.1	NM_018288		A	170117955	C	A	170117955	4	1	595	1	0	0	0	0	0	1	0	0	11828	922	32	4	1159	4	PHF10	6	170117955	Nonsense_Mutation	SNP	C	TCGA-G7-7502-01A-11D-2201-08	30554208	170117955	997112	40	35500										
TWISTNB	221830	ucsc.edu	37	chr7	19738032	19738032	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tgttttcttttcttttttttCtttttatggtcactttggta	5	5	4	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr7:19738032C>T	ENST00000222567.5	-	4	994	c.924G>A	c.(922-924)aaG>aaA	p.K308K		NM_001002926.1	NP_001002926.1	Q3B726	RPA43_HUMAN	TWIST neighbor	308	Lys-rich.				transcription from RNA polymerase I promoter (GO:0006360)	DNA-directed RNA polymerase I complex (GO:0005736)|microtubule cytoskeleton (GO:0015630)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA-directed RNA polymerase activity (GO:0003899)			kidney(1)|large_intestine(3)|lung(13)|ovary(1)|prostate(2)	20						TCTTTTTTTTCTTTTTATGGT	0.378																																																0													113	126	122					7																	19738032		2200	4298	6498	SO:0001819	synonymous_variant	221830			AK090846	CCDS34606.1	7p21.1	2010-08-05			ENSG00000105849	ENSG00000105849			18027	protein-coding gene	gene with protein product		608312				12438708	Standard	NM_001002926		Approved		uc003sup.1	Q3B726	OTTHUMG00000152497	ENST00000222567.5:c.924G>A	7.37:g.19738032C>T		Somatic		WXS	Illumina HiSeq		A0PJ45|B7Z724	Silent	SNP	ENST00000222567.5	37	CCDS34606.1																																																																																				0.378	TWISTNB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000326463.1			T	19738032	C	T	19738032	2	4	595	1	0	0	0	0	0	0	0	1	16796	912	32	2		2	TWISTNB	7	19738032	Silent	SNP	C	TCGA-G7-7502-01A-11D-2201-08		19738032	139400631	41	35501										
HOXA10	3206	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	27211695	27211695	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	atattgaacagaaactccttCtccagctccagtgtctggtg	8	11	2	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr7:27211695C>T	ENST00000283921.4	-	2	1055	c.1056G>A	c.(1054-1056)gaG>gaA	p.E352E	HOXA-AS4_ENST00000519694.1_RNA|RP1-170O19.20_ENST00000470747.4_Intron|HOXA-AS4_ENST00000519935.1_RNA|HOXA10_ENST00000396344.4_Silent_p.E36E|HOXA10_ENST00000521421.1_5'UTR|MIR196B_ENST00000384852.1_RNA|HOXA-AS4_ENST00000523790.1_RNA|RP1-170O19.20_ENST00000465941.1_Intron|HOXA9_ENST00000497089.1_5'Flank	NM_018951.3	NP_061824.3	P31260	HXA10_HUMAN	homeobox A10	352					anterior/posterior pattern specification (GO:0009952)|embryonic limb morphogenesis (GO:0030326)|male gonad development (GO:0008584)|multicellular organismal development (GO:0007275)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|proximal/distal pattern formation (GO:0009954)|single fertilization (GO:0007338)|skeletal system development (GO:0001501)|spermatogenesis (GO:0007283)|uterus development (GO:0060065)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	histone deacetylase binding (GO:0042826)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			breast(1)|lung(5)|ovary(2)|upper_aerodigestive_tract(1)	9						GAAACTCCTTCTCCAGCTCCA	0.532																																																0													111	105	107					7																	27211695		2203	4300	6503	SO:0001819	synonymous_variant	3206				CCDS5410.2	7p15.2	2011-06-20	2005-12-22		ENSG00000253293	ENSG00000253293		"Homeoboxes / ANTP class : HOXL subclass"	5100	protein-coding gene	gene with protein product		142957	"homeo box A10"	HOX1H, HOX1		1973146, 1358459	Standard	NR_037939		Approved		uc011jzm.2	P31260	OTTHUMG00000023436	ENST00000283921.4:c.1056G>A	7.37:g.27211695C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O43370|O43605|Q15949|Q504T1	Silent	SNP	ENST00000283921.4	37	CCDS5410.2																																																																																				0.532	HOXA10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000358724.2			T	27211695	C	T	27211695	2	4	595	1	0	0	0	0	0	0	0	1	7296	912	32	2		2	HOXA10	7	27211695	Silent	SNP	C	TCGA-G7-7502-01A-11D-2201-08	7473663	27211695	131926968	42	35502										
PON2	5445	broad.mit.edu	37	chr7	95035516	95035516	+	Frame_Shift_Del	DEL	G	G	-													0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	cccagatgtcccccgaggaaGgatcaatagataaattatcc					rs77619496		TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr7:95035516delG	ENST00000222572.3	-	8	1067	c.821delC	c.(820-822)cctfs	p.P274fs	PON2_ENST00000536183.1_Frame_Shift_Del_p.P295fs|PON2_ENST00000483292.1_5'UTR|PON2_ENST00000433091.2_Frame_Shift_Del_p.P262fs			Q15165	PON2_HUMAN	paraoxonase 2	274					aromatic compound catabolic process (GO:0019439)|response to oxidative stress (GO:0006979)	extracellular region (GO:0005576)|lysosome (GO:0005764)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	arylesterase activity (GO:0004064)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)			breast(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(3)|prostate(1)	9	all_cancers(62;9.35e-11)|all_epithelial(64;3.37e-09)		STAD - Stomach adenocarcinoma(171;0.0151)			CCCCGAGGAAGGATCAATAGA	0.398																																					GBM(42;803 823 13649 23368 31463)											0													128	128	128					7																	95035516		2203	4300	6503	SO:0001589	frameshift_variant	5445			M63012, AF001601	CCDS5640.1, CCDS47644.1	7q21.3	2014-03-14			ENSG00000105854	ENSG00000105854	3.1.1.2	"Paraoxonases"	9205	protein-coding gene	gene with protein product	"paraoxonase nirs", "arylesterase 2"	602447				8661009, 9714608	Standard	XM_005250453		Approved		uc003unv.3	Q15165	OTTHUMG00000153948	ENST00000222572.3:c.821delC	7.37:g.95035516delG	ENSP00000222572:p.Pro274fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1H7|B2RCP9|B4DJD5|O15114|O15115|O75856|Q5FBX7|Q86YL0	Frame_Shift_Del	DEL	ENST00000222572.3	37	CCDS5640.1																																																																																				0.398	PON2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333142.1	NM_000305		-	95035516	G	-	95035516	7	5	595	1	0	1	0	1	0	0	0	0	12256	1000	35	0	251	0	PON2	7	95035516	Frame_Shift_Del	DEL	G	TCGA-G7-7502-01A-11D-2201-08	67823821	95035516	64103147	43	35503										
NRG1	3084	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	32463201	32463201	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tcaccatcgtggaatcaaacGgtaagagatacctacggtat	9	9	2	1	rs78513616		TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr8:32463201G>A	ENST00000405005.3	+	3	400	c.400G>A	c.(400-402)Gag>Aag	p.E134K	NRG1_ENST00000520407.1_Splice_Site_p.A349T|NRG1_ENST00000523079.1_Splice_Site_p.E134K|NRG1_ENST00000521670.1_Splice_Site_p.E134K|NRG1_ENST00000356819.4_Splice_Site_p.E134K|NRG1_ENST00000287845.5_Splice_Site_p.A134T|NRG1_ENST00000287842.3_Splice_Site_p.E134K|NRG1_ENST00000341377.5_Splice_Site_p.E134K|NRG1_ENST00000519301.1_Splice_Site_p.A113T|NRG1_ENST00000338921.4_Splice_Site_p.E134K			Q02297	NRG1_HUMAN	neuregulin 1	134					activation of transmembrane receptor protein tyrosine kinase activity (GO:0007171)|cardiac conduction system development (GO:0003161)|cardiac muscle cell differentiation (GO:0055007)|cardiac muscle cell myoblast differentiation (GO:0060379)|cell communication (GO:0007154)|cell migration (GO:0016477)|cell morphogenesis (GO:0000902)|cell proliferation (GO:0008283)|cellular protein complex disassembly (GO:0043624)|embryo development (GO:0009790)|endocardial cell differentiation (GO:0060956)|epidermal growth factor receptor signaling pathway (GO:0007173)|ERBB signaling pathway (GO:0038127)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|glial cell fate commitment (GO:0021781)|innate immune response (GO:0045087)|locomotory behavior (GO:0007626)|mammary gland development (GO:0030879)|MAPK cascade (GO:0000165)|negative regulation of cardiac muscle cell apoptotic process (GO:0010667)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of protein catabolic process (GO:0042177)|negative regulation of secretion (GO:0051048)|negative regulation of transcription, DNA-templated (GO:0045892)|nervous system development (GO:0007399)|neural crest cell development (GO:0014032)|neuron fate commitment (GO:0048663)|neurotransmitter receptor metabolic process (GO:0045213)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peripheral nervous system development (GO:0007422)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cardiac muscle cell proliferation (GO:0060045)|positive regulation of cell adhesion (GO:0045785)|positive regulation of cell growth (GO:0030307)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of protein tyrosine kinase activity (GO:0061098)|positive regulation of Ras protein signal transduction (GO:0046579)|positive regulation of striated muscle cell differentiation (GO:0051155)|regulation of protein heterodimerization activity (GO:0043497)|regulation of protein homodimerization activity (GO:0043496)|synapse assembly (GO:0007416)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|ventricular cardiac muscle cell differentiation (GO:0055012)|ventricular trabecula myocardium morphogenesis (GO:0003222)|wound healing (GO:0042060)	apical plasma membrane (GO:0016324)|axon (GO:0030424)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|neuromuscular junction (GO:0031594)|nucleus (GO:0005634)	cytokine activity (GO:0005125)|ErbB-3 class receptor binding (GO:0043125)|growth factor activity (GO:0008083)|protein tyrosine kinase activator activity (GO:0030296)|receptor binding (GO:0005102)|receptor tyrosine kinase binding (GO:0030971)|transcription cofactor activity (GO:0003712)|transmembrane receptor protein tyrosine kinase activator activity (GO:0030297)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(18)|ovary(1)|prostate(1)|skin(1)	39		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		GGAATCAAACGGTAAGAGATA	0.398																																																0								G	LYS/GLU,LYS/GLU,THR/ALA,LYS/GLU,LYS/GLU,THR/ALA,THR/ALA,LYS/GLU,LYS/GLU,LYS/GLU,LYS/GLU,LYS/GLU,LYS/GLU,THR/ALA,LYS/GLU	0,4406		0,0,2203	143	129	134		337,337,337,400,400,400,400,400,400,400,400,400,400,1045,400	5	1	8	dbSNP_131	134	1,8599	1.2+/-3.3	0,1,4299	no	missense-near-splice,missense-near-splice,missense-near-splice,missense-near-splice,missense-near-splice,missense-near-splice,missense-near-splice,missense-near-splice,missense-near-splice,missense-near-splice,missense-near-splice,missense-near-splice,missense-near-splice,missense-near-splice,missense-near-splice	NRG1	NM_001159995.1,NM_001159999.1,NM_001160001.1,NM_001160002.1,NM_001160004.1,NM_001160005.1,NM_001160007.1,NM_001160008.1,NM_004495.3,NM_013956.3,NM_013957.3,NM_013958.3,NM_013960.3,NM_013962.2,NM_013964.3	56,56,58,56,56,58,58,56,56,56,56,56,56,58,56	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	benign,benign,benign,benign,benign,benign,benign,benign,benign,benign,benign,benign,benign,benign,benign	113/608,113/625,113/591,134/195,134/460,134/208,134/178,134/421,134/212,134/646,134/638,134/242,134/463,349/423,134/641	32463201	1,13005	2203	4300	6503	SO:0001630	splice_region_variant	3084			L12261	CCDS6084.1, CCDS6085.1, CCDS6086.1, CCDS6087.1, CCDS47836.1, CCDS55218.1, CCDS55219.1, CCDS75727.1	8p21-p12	2014-06-23			ENSG00000157168	ENSG00000157168		"Immunoglobulin superfamily / I-set domain containing"	7997	protein-coding gene	gene with protein product		142445	"NRG1 intronic transcript 2 (non-protein coding)"	HGL, NRG1-IT2		1350381, 8095334	Standard	NM_013962		Approved	HRG, NDF, GGF	uc003xiu.2	Q02297	OTTHUMG00000163918	ENST00000405005.3:c.400+1G>A	8.37:g.32463201G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A5YAK4|A5YAK5|A8K1L2|B7Z4Z3|E9PHH4|O14667|P98202|Q02298|Q02299|Q07110|Q07111|Q12779|Q12780|Q12781|Q12782|Q12783|Q12784|Q15491|Q7RTV9|Q7RTW0|Q7RTW1|Q7RTW2|Q8NFN1|Q8NFN2|Q8NFN3|Q9UPE3	Missense_Mutation	SNP	ENST00000405005.3	37	CCDS6085.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	13.01|13.01	2.108806|2.108806	0.37242|0.37242	0.0|0.0	1.16E-4|1.16E-4	ENSG00000157168|ENSG00000157168	ENST00000519301;ENST00000520407;ENST00000287845|ENST00000518104;ENST00000523534;ENST00000523079;ENST00000338921;ENST00000356819;ENST00000287840;ENST00000341377;ENST00000287842;ENST00000405005;ENST00000521670	T;T;T|T;T;T;T;T;T;T;T;T;T	0.75260|0.39997	-0.92;-0.83;-0.49|1.05;1.05;1.05;1.05;1.05;1.05;1.05;1.05;1.05;1.05	5.03|5.03	5.03|5.03	0.67393|0.67393	.|Immunoglobulin-like fold (1);	.|0.695834	.|0.14318	.|N	.|0.327222	T|T	0.54013|0.54013	0.1832|0.1832	L|L	0.36672|0.36672	1.1|1.1	0.80722|0.80722	D|D	1|1	B;B;B|P;P;P;P;D;P;P;P;P;D	0.32071|0.59767	0.355;0.11;0.22|0.76;0.776;0.614;0.76;0.986;0.733;0.589;0.857;0.863;0.964	B;B;B|B;B;B;B;D;B;B;B;B;P	0.23852|0.68192	0.049;0.01;0.016|0.038;0.079;0.053;0.038;0.956;0.077;0.054;0.165;0.115;0.454	T|T	0.38478|0.38478	-0.9659|-0.9659	9|10	0.02654|0.24483	T|T	1|0.36	-3.1604|-3.1604	16.914|16.914	0.86147|0.86147	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	134;133;349|134;134;133;134;134;134;134;134;134;134	F8W9E3;B0FWZ3;Q02297-9|E9PHH4;Q7RTW4;B0FYA9;B7Z4Z3;Q02297-4;Q02297-7;Q02297;Q02297-6;Q02297-3;Q02297-8	.;.;.|.;.;.;.;.;.;NRG1_HUMAN;.;.;.	T|K	113;349;134|113;202;134;134;134;134;134;134;134;134	ENSP00000429582:A113T;ENSP00000434640:A349T;ENSP00000287845:A134T|ENSP00000430053:E113K;ENSP00000429067:E202K;ENSP00000430120:E134K;ENSP00000343395:E134K;ENSP00000349275:E134K;ENSP00000287840:E134K;ENSP00000340497:E134K;ENSP00000287842:E134K;ENSP00000384620:E134K;ENSP00000428828:E134K	ENSP00000287845:A134T|ENSP00000287840:E134K	A|E	+|+	1|1	0|0	NRG1|NRG1	32582743|32582743	1.000000|1.000000	0.71417|0.71417	0.953000|0.953000	0.39169|0.39169	0.154000|0.154000	0.21943|0.21943	6.210000|6.210000	0.72176|0.72176	2.485000|2.485000	0.83878|0.83878	0.650000|0.650000	0.86243|0.86243	GCT|GAG		0.398	NRG1-017	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000472504.1		Missense_Mutation	A	32463201	G	A	32463201	5	1	595	1	0	0	0	0	0	0	1	0	10654	1130	39	1	1161	1	NRG1	8	32463201	Splice_Site	SNP	G	TCGA-G7-7502-01A-11D-2201-08		32463201	113900821	44	35504										
GPR124	25960	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	37692907	37692907	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	aatgtttctctgtcgtccttCcacatcaaggtgggcgctgg	11	11	2	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr8:37692907C>G	ENST00000412232.2	+	12	1837	c.1824C>G	c.(1822-1824)ttC>ttG	p.F608L	GPR124_ENST00000315215.7_Intron	NM_032777.9	NP_116166.9	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124	608					central nervous system development (GO:0007417)|endothelial cell migration (GO:0043542)|G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of vascular endothelial growth factor signaling pathway (GO:1900747)|neuropeptide signaling pathway (GO:0007218)|positive regulation of endothelial cell migration (GO:0010595)|regulation of angiogenesis (GO:0045765)|regulation of chemotaxis (GO:0050920)|regulation of establishment of blood-brain barrier (GO:0090210)|sprouting angiogenesis (GO:0002040)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(4)|lung(16)|ovary(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	37			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			TGTCGTCCTTCCACATCAAGG	0.682																																																0													19	23	22					8																	37692907		2201	4298	6499	SO:0001583	missense	25960			AB040964	CCDS6097.2	8p11.22	2014-08-08			ENSG00000020181	ENSG00000020181		"-", "GPCR / Class B : Orphans", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	17849	protein-coding gene	gene with protein product	"tumor endothelial marker 5"	606823				11559528, 12565841	Standard	NM_032777		Approved	TEM5, DKFZp434C211, DKFZp434J0911, KIAA1531, FLJ14390	uc003xkj.3	Q96PE1	OTTHUMG00000156182	ENST00000412232.2:c.1824C>G	8.37:g.37692907C>G	ENSP00000406367:p.Phe608Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8W3|D3DSW4|Q8N3R1|Q8TEM3|Q96KB2|Q9P1Z7|Q9UFY4	Missense_Mutation	SNP	ENST00000412232.2	37	CCDS6097.2	.	.	.	.	.	.	.	.	.	.	C	7.845	0.722846	0.15439	.	.	ENSG00000020181	ENST00000416514;ENST00000412232	T	0.53857	0.6	5.29	1.44	0.22558	.	0.251562	0.38778	N	0.001564	T	0.36963	0.0986	N	0.17474	0.49	0.47698	D	0.999493	D	0.62365	0.991	P	0.51266	0.664	T	0.25745	-1.0123	10	0.06625	T	0.88	-18.4995	9.5253	0.39160	0.0:0.7051:0.0:0.2949	.	608	Q96PE1	GP124_HUMAN	L	601;608	ENSP00000406367:F608L	ENSP00000406367:F608L	F	+	3	2	GPR124	37812065	1.000000	0.71417	0.905000	0.35620	0.440000	0.31957	1.327000	0.33746	0.231000	0.21079	-0.140000	0.14226	TTC		0.682	GPR124-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000343331.2			G	37692907	C	G	37692907	3	3	595	1	0	0	0	0	1	0	0	0	6645	854	30	4	1849	4	GPR124	8	37692907	Missense_Mutation	SNP	C	TCGA-G7-7502-01A-11D-2201-08	5229706	37692907	108671115	45	35505										
GAPVD1	26130	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	128121733	128121733	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	atatccagagattgtctaaaGtagtgactgcaaatcacaga	8	7	2	3	rs374403416		TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr9:128121733G>A	ENST00000495955.1	+	26	4350	c.4060G>A	c.(4060-4062)Gta>Ata	p.V1354I	GAPVD1_ENST00000394104.2_Missense_Mutation_p.V1354I|GAPVD1_ENST00000265956.4_Missense_Mutation_p.V1328I|GAPVD1_ENST00000394105.2_Missense_Mutation_p.V1363I|GAPVD1_ENST00000394083.2_Missense_Mutation_p.V1288I|GAPVD1_ENST00000297933.6_Missense_Mutation_p.V1336I|GAPVD1_ENST00000470056.1_Missense_Mutation_p.V1309I|GAPVD1_ENST00000312123.9_Missense_Mutation_p.V1315I			Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	1354	VPS9. {ECO:0000255|PROSITE- ProRule:PRU00550}.				endocytosis (GO:0006897)|positive regulation of GTPase activity (GO:0043547)|regulation of protein transport (GO:0051223)|regulation of small GTPase mediated signal transduction (GO:0051056)|signal transduction (GO:0007165)	cytosol (GO:0005829)|endosome (GO:0005768)|membrane (GO:0016020)	GTPase activating protein binding (GO:0032794)|GTPase activator activity (GO:0005096)|guanyl-nucleotide exchange factor activity (GO:0005085)			central_nervous_system(2)|endometrium(7)|kidney(4)|large_intestine(10)|lung(11)|ovary(2)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	44						ATTGTCTAAAGTAGTGACTGC	0.358																																																0								G	ILE/VAL	0,4406		0,0,2203	140	141	141		4087	6.2	1	9		141	1,8599	1.2+/-3.3	0,1,4299	no	missense	GAPVD1	NM_015635.2	29	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	benign	1363/1488	128121733	1,13005	2203	4300	6503	SO:0001583	missense	26130				CCDS65130.1, CCDS65131.1, CCDS65132.1	9q34.11	2008-02-05			ENSG00000165219	ENSG00000165219			23375	protein-coding gene	gene with protein product		611714					Standard	XM_005251901		Approved	DKFZP434C212, KIAA1521	uc004bpr.3	Q14C86	OTTHUMG00000020678	ENST00000495955.1:c.4060G>A	9.37:g.128121733G>A	ENSP00000419063:p.Val1354Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8MYK3|B0QZ62|B0QZ63|B0QZ64|Q14C76|Q2Q1W1|Q8ND92|Q8WU86|Q96CZ4|Q9NXQ1|Q9P207|Q9Y4N0	Missense_Mutation	SNP	ENST00000495955.1	37		.	.	.	.	.	.	.	.	.	.	G	26.2	4.716877	0.89205	0.0	1.16E-4	ENSG00000165219	ENST00000470056;ENST00000394105;ENST00000394104;ENST00000265956;ENST00000394083;ENST00000495955;ENST00000297933;ENST00000312123;ENST00000438537	T;T;T;T;T;T;T;T	0.29655	1.56;1.56;1.56;1.56;1.56;1.56;1.56;1.56	6.17	6.17	0.99709	Vacuolar sorting protein 9 (1);	0.000000	0.85682	D	0.000000	T	0.33352	0.0860	N	0.22421	0.69	0.80722	D	1	B;B;B;B;B;B	0.30870	0.118;0.23;0.298;0.298;0.298;0.188	B;B;B;B;B;B	0.42692	0.113;0.082;0.225;0.395;0.225;0.277	T	0.05194	-1.0900	10	0.25106	T	0.35	.	19.8676	0.96824	0.0:0.0:1.0:0.0	.	1354;369;1309;1315;1336;1363	Q14C86;B3KTX2;Q14C86-3;Q14C86-4;Q14C86-2;Q14C86-6	GAPD1_HUMAN;.;.;.;.;.	I	1309;1363;1354;1328;1288;1354;1336;1315;47	ENSP00000419767:V1309I;ENSP00000377665:V1363I;ENSP00000377664:V1354I;ENSP00000265956:V1328I;ENSP00000377645:V1288I;ENSP00000419063:V1354I;ENSP00000297933:V1336I;ENSP00000309582:V1315I	ENSP00000265956:V1328I	V	+	1	0	GAPVD1	127161554	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.476000	0.97823	2.941000	0.99782	0.655000	0.94253	GTA		0.358	GAPVD1-014	KNOWN	alternative_5_UTR|basic	protein_coding	protein_coding	OTTHUMT00000355644.1			A	128121733	G	A	128121733	3	1	595	1	0	0	0	0	1	0	0	0	6246	1029	36	2	4181	2	GAPVD1	9	128121733	Missense_Mutation	SNP	G	TCGA-G7-7502-01A-11D-2201-08		128121733	13091698	46	35506										
OLAH	55301	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	15107661	15107661	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	attaccttatggaatttggaGgcacccccaagcattttgct	8	10	0	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr10:15107661G>A	ENST00000378228.3	+	6	735	c.481G>A	c.(481-483)Ggc>Agc	p.G161S	OLAH_ENST00000485251.1_3'UTR|OLAH_ENST00000378217.3_Missense_Mutation_p.G214S	NM_001039702.2	NP_001034791.1	Q9NV23	SAST_HUMAN	oleoyl-ACP hydrolase	161					fatty acid biosynthetic process (GO:0006633)		myristoyl-[acyl-carrier-protein] hydrolase activity (GO:0016295)|oleoyl-[acyl-carrier-protein] hydrolase activity (GO:0004320)|palmitoyl-[acyl-carrier-protein] hydrolase activity (GO:0016296)			endometrium(2)|large_intestine(1)|lung(14)|stomach(1)	18						GGAATTTGGAGGCACCCCCAA	0.408																																																0													83	77	79					10																	15107661		2203	4300	6503	SO:0001583	missense	55301			AK001844	CCDS7106.1, CCDS31152.1	10p13	2010-11-23	2006-07-07	2006-07-07	ENSG00000152463	ENSG00000152463	3.1.2.14		25625	protein-coding gene	gene with protein product			"thioesterase domain containing 1"	THEDC1			Standard	NM_018324		Approved	FLJ11106, SAST	uc001inu.2	Q9NV23	OTTHUMG00000017724	ENST00000378228.3:c.481G>A	10.37:g.15107661G>A	ENSP00000367473:p.Gly161Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUB6|Q9NUW1	Missense_Mutation	SNP	ENST00000378228.3	37	CCDS31152.1	.	.	.	.	.	.	.	.	.	.	g	16.13	3.036095	0.54896	.	.	ENSG00000152463	ENST00000429028;ENST00000378228;ENST00000378217	.	.	.	5.03	4.12	0.48240	Thioesterase (1);	0.096919	0.64402	D	0.000001	D	0.84552	0.5497	M	0.92122	3.275	0.52099	D	0.999948	D;D	0.89917	1.0;1.0	D;D	0.85130	0.997;0.99	D	0.87441	0.2395	9	0.72032	D	0.01	-5.4247	12.2837	0.54779	0.0:0.0:0.8303:0.1697	.	161;214	Q9NV23;Q9NV23-2	SAST_HUMAN;.	S	161;161;214	.	ENSP00000367462:G214S	G	+	1	0	OLAH	15147667	1.000000	0.71417	0.972000	0.41901	0.162000	0.22319	1.630000	0.37081	1.222000	0.43521	0.557000	0.71058	GGC		0.408	OLAH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046964.1	NM_018324		A	15107661	G	A	15107661	3	1	595	1	0	0	0	0	1	0	0	0	10858	1000	35	2	662	2	OLAH	10	15107661	Missense_Mutation	SNP	G	TCGA-G7-7502-01A-11D-2201-08		15107661	120427086	47	35507										
SLC5A12	159963	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	26725363	26725363	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	aatatatgtagtcgagatccAtttgttgattgctctaatac	7	6	1	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr11:26725363A>C	ENST00000396005.3	-	5	966	c.657T>G	c.(655-657)aaT>aaG	p.N219K	SLC5A12_ENST00000280467.6_Missense_Mutation_p.N219K	NM_178498.3	NP_848593.2	Q1EHB4	SC5AC_HUMAN	solute carrier family 5 (sodium/monocarboxylate cotransporter), member 12	219					sodium ion transport (GO:0006814)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	symporter activity (GO:0015293)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(16)|ovary(2)|prostate(1)|skin(2)|stomach(1)	35						GTCGAGATCCATTTGTTGATT	0.368																																																0													230	218	222					11																	26725363		2203	4299	6502	SO:0001583	missense	159963			BC049207	CCDS7860.2	11p14.2	2013-07-19	2013-07-19		ENSG00000148942	ENSG00000148942		"Solute carriers"	28750	protein-coding gene	gene with protein product		612455	"solute carrier family 5 (sodium/glucose cotransporter), member 12"			12477932	Standard	NM_178498		Approved	MGC52019, SMCT2	uc001mra.2	Q1EHB4	OTTHUMG00000150706	ENST00000396005.3:c.657T>G	11.37:g.26725363A>C	ENSP00000379326:p.Asn219Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q86UC7	Missense_Mutation	SNP	ENST00000396005.3	37	CCDS7860.2	.	.	.	.	.	.	.	.	.	.	A	7.436	0.639686	0.14386	.	.	ENSG00000148942	ENST00000396005;ENST00000280467;ENST00000533617	D;D;D	0.87256	-2.23;-2.23;-2.23	5.07	3.9	0.45041	.	0.177263	0.47852	D	0.000209	T	0.81283	0.4790	L	0.48174	1.505	0.34755	D	0.732193	B;B	0.32467	0.055;0.372	B;B	0.36030	0.037;0.216	T	0.78191	-0.2300	10	0.22109	T	0.4	.	7.1583	0.25649	0.7866:0.0:0.0757:0.1378	.	219;219	Q1EHB4-2;Q1EHB4	.;SC5AC_HUMAN	K	219;219;31	ENSP00000379326:N219K;ENSP00000280467:N219K;ENSP00000435053:N31K	ENSP00000280467:N219K	N	-	3	2	SLC5A12	26681939	1.000000	0.71417	0.997000	0.53966	0.669000	0.39330	1.028000	0.30128	0.834000	0.34852	0.397000	0.26171	AAT		0.368	SLC5A12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319681.1	NM_178498		C	26725363	A	C	26725363	3	2	595	1	0	0	0	0	1	0	0	0	14677	214	8	5	1243	5	SLC5A12	11	26725363	Missense_Mutation	SNP	A	TCGA-G7-7502-01A-11D-2201-08		26725363	108281153	48	35508										
AHNAK	79026	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	62293750	62293750	+	Frame_Shift_Del	DEL	G	G	-													0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ttgggtcctttcaggtttaaGtcaatatcaggcatggagat							TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr11:62293750delG	ENST00000378024.4	-	5	8413	c.8139delC	c.(8137-8139)gacfs	p.D2713fs	AHNAK_ENST00000257247.7_Intron|AHNAK_ENST00000530124.1_Intron	NM_001620.1	NP_001611.1	Q09666	AHNK_HUMAN	AHNAK nucleoprotein	2713					protein oligomerization (GO:0051259)|regulation of RNA splicing (GO:0043484)|regulation of voltage-gated calcium channel activity (GO:1901385)	actin cytoskeleton (GO:0015629)|cell-cell contact zone (GO:0044291)|costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|vesicle (GO:0031982)	poly(A) RNA binding (GO:0044822)|S100 protein binding (GO:0044548)|structural molecule activity conferring elasticity (GO:0097493)			NS(3)|autonomic_ganglia(1)|breast(10)|central_nervous_system(5)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(33)|large_intestine(40)|liver(1)|lung(108)|ovary(13)|pancreas(4)|prostate(5)|skin(16)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(6)	268		Melanoma(852;0.155)				TCAGGTTTAAGTCAATATCAG	0.463																																																0													195	192	193					11																	62293750		2202	4299	6501	SO:0001589	frameshift_variant	79026			M80899	CCDS31584.1, CCDS44625.1	11q12-q13	2008-02-05	2007-03-30		ENSG00000124942	ENSG00000124942			347	protein-coding gene	gene with protein product	"desmoyokin"	103390	"AHNAK nucleoprotein (desmoyokin)"			7987395, 12153988	Standard	NM_024060		Approved	MGC5395	uc001ntl.3	Q09666	OTTHUMG00000167558	ENST00000378024.4:c.8139delC	11.37:g.62293750delG	ENSP00000367263:p.Asp2713fs	Somatic		WXS	Illumina HiSeq	Phase_I	A1A586	Frame_Shift_Del	DEL	ENST00000378024.4	37	CCDS31584.1																																																																																				0.463	AHNAK-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395572.1	NM_024060		-	62293750	G	-	62293750	7	5	595	1	0	1	0	1	0	0	0	0	414	1020	36	0	9653	0	AHNAK	11	62293750	Frame_Shift_Del	DEL	G	TCGA-G7-7502-01A-11D-2201-08	35568387	62293750	72712766	49	35509										
LRFN4	78999	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	66625625	66625625	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ccagctgggccgcatcgcgcCgggagccttcgacgacttcc	13	17	0	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr11:66625625C>T	ENST00000309602.4	+	1	653	c.410C>T	c.(409-411)cCg>cTg	p.P137L	PC_ENST00000393958.2_Intron|PC_ENST00000393960.1_Intron|PC_ENST00000393955.2_Intron|LRFN4_ENST00000393952.3_Missense_Mutation_p.P137L	NM_024036.4	NP_076941.2	Q6PJG9	LRFN4_HUMAN	leucine rich repeat and fibronectin type III domain containing 4	137						integral component of membrane (GO:0016021)				breast(1)|lung(1)|prostate(1)	3						CGCATCGCGCCGGGAGCCTTC	0.692																																																0													49	54	52					11																	66625625		2200	4294	6494	SO:0001583	missense	78999			BC007718	CCDS8153.1	11q13.1	2013-02-11				ENSG00000173621		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	28456	protein-coding gene	gene with protein product	"fibronectin type III, immunoglobulin and leucine rich repeat domains 6"	612810				16495444, 16828986	Standard	NM_024036		Approved	MGC3103, SALM3., FIGLER6	uc001ojr.3	Q6PJG9		ENST00000309602.4:c.410C>T	11.37:g.66625625C>T	ENSP00000312535:p.Pro137Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VBZ3|Q59GV4|Q8N644|Q9BWJ0	Missense_Mutation	SNP	ENST00000309602.4	37	CCDS8153.1	.	.	.	.	.	.	.	.	.	.	C	6.081	0.383217	0.11524	.	.	ENSG00000173621	ENST00000393952;ENST00000309602;ENST00000525479	T;T	0.60424	0.19;0.19	4.18	3.26	0.37387	.	0.304296	0.23951	N	0.042954	T	0.51227	0.1662	M	0.69358	2.11	0.24168	N	0.99564	P;B	0.34662	0.462;0.1	B;B	0.29862	0.105;0.108	T	0.50980	-0.8763	10	0.56958	D	0.05	.	9.9013	0.41348	0.0:0.8973:0.0:0.1027	.	137;137	E9PLQ1;Q6PJG9	.;LRFN4_HUMAN	L	137	ENSP00000377524:P137L;ENSP00000312535:P137L	ENSP00000312535:P137L	P	+	2	0	LRFN4	66382201	0.000000	0.05858	0.111000	0.21465	0.012000	0.07955	0.687000	0.25407	1.107000	0.41642	0.313000	0.20887	CCG		0.692	LRFN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393127.1	NM_024036		T	66625625	C	T	66625625	3	4	595	1	0	0	0	0	1	0	0	0	8947	652	23	1	412	1	LRFN4	11	66625625	Missense_Mutation	SNP	C	TCGA-G7-7502-01A-11D-2201-08	4331875	66625625	68380891	50	35510										
LRP5	4041	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	68205929	68205929	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ggcagaaatcaccaagccgcCctcagacgacagcccggccc	10	18	2	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr11:68205929C>T	ENST00000294304.7	+	20	4233	c.4127C>T	c.(4126-4128)cCc>cTc	p.P1376L		NM_002335.2	NP_002326.2	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein 5	1376					adipose tissue development (GO:0060612)|anatomical structure regression (GO:0060033)|anterior/posterior pattern specification (GO:0009952)|apoptotic process involved in patterning of blood vessels (GO:1902262)|bone marrow development (GO:0048539)|bone morphogenesis (GO:0060349)|bone remodeling (GO:0046849)|branching involved in mammary gland duct morphogenesis (GO:0060444)|canonical Wnt signaling pathway (GO:0060070)|cell migration involved in gastrulation (GO:0042074)|cell-cell signaling involved in mammary gland development (GO:0060764)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|embryonic camera-type eye morphogenesis (GO:0048596)|embryonic digit morphogenesis (GO:0042733)|embryonic limb morphogenesis (GO:0030326)|embryonic retina morphogenesis in camera-type eye (GO:0060059)|endocytosis (GO:0006897)|extracellular matrix-cell signaling (GO:0035426)|gastrulation with mouth forming second (GO:0001702)|glucose catabolic process (GO:0006007)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of protein serine/threonine kinase activity (GO:0071901)|osteoblast development (GO:0002076)|positive regulation of cell proliferation (GO:0008284)|positive regulation of fat cell differentiation (GO:0045600)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of mitosis (GO:0045840)|positive regulation of osteoblast proliferation (GO:0033690)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of apoptotic process (GO:0042981)|regulation of blood pressure (GO:0008217)|regulation of bone remodeling (GO:0046850)|regulation of canonical Wnt signaling pathway (GO:0060828)|regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0061178)|response to peptide hormone (GO:0043434)|retina morphogenesis in camera-type eye (GO:0060042)|retinal blood vessel morphogenesis (GO:0061304)|somatic stem cell maintenance (GO:0035019)|Wnt signaling pathway (GO:0016055)|Wnt signaling pathway involved in dorsal/ventral axis specification (GO:0044332)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	coreceptor activity (GO:0015026)|Wnt-activated receptor activity (GO:0042813)|Wnt-protein binding (GO:0017147)			autonomic_ganglia(1)|breast(3)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|lung(24)|ovary(5)|pancreas(1)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	63						ACCAAGCCGCCCTCAGACGAC	0.592																																																0													95	98	97					11																	68205929		2200	4294	6494	SO:0001583	missense	4041			AF064548	CCDS8181.1	11q13.4	2014-01-28	2003-03-12		ENSG00000162337	ENSG00000162337		"Low density lipoprotein receptors"	6697	protein-coding gene	gene with protein product		603506	"osteoporosis pseudoglioma syndrome", "exudative vitreoretinopathy 1"	LRP7, OPPG, EVR1		9714764, 10049586	Standard	XM_005273994		Approved	LR3, BMND1, HBM, OPS, OPTA1, VBCH2, EVR4	uc001ont.3	O75197	OTTHUMG00000167570	ENST00000294304.7:c.4127C>T	11.37:g.68205929C>T	ENSP00000294304:p.Pro1376Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q96TD6|Q9UES7|Q9UP66	Missense_Mutation	SNP	ENST00000294304.7	37	CCDS8181.1	.	.	.	.	.	.	.	.	.	.	C	12.86	2.065810	0.36470	.	.	ENSG00000162337	ENST00000294304	D	0.94000	-3.33	4.53	4.53	0.55603	.	0.139825	0.31495	U	0.007555	D	0.90889	0.7137	L	0.45137	1.4	0.43787	D	0.996329	B;B	0.24092	0.097;0.097	B;B	0.26094	0.066;0.066	D	0.88780	0.3270	10	0.49607	T	0.09	.	17.5404	0.87845	0.0:1.0:0.0:0.0	.	1376;1376	Q9UES7;O75197	.;LRP5_HUMAN	L	1376	ENSP00000294304:P1376L	ENSP00000294304:P1376L	P	+	2	0	LRP5	67962505	0.649000	0.27322	0.025000	0.17156	0.056000	0.15407	5.269000	0.65542	2.379000	0.81126	0.585000	0.79938	CCC		0.592	LRP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395088.1	NM_002335		T	68205929	C	T	68205929	3	4	595	1	0	0	0	0	1	0	0	0	8967	623	22	2	4205	2	LRP5	11	68205929	Missense_Mutation	SNP	C	TCGA-G7-7502-01A-11D-2201-08	1580304	68205929	66800587	51	35511										
MLL2	8085	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	49433380	49433380	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tggatctgctgccgaatcagCagctctcgtagtcgctggcg	13	12	3	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr12:49433380C>G	ENST00000301067.7	-	32	8066	c.8067G>C	c.(8065-8067)ctG>ctC	p.L2689L	KMT2D_ENST00000549743.1_5'Flank	NM_003482.3	NP_003473.3	O14686	KMT2D_HUMAN	lysine (K)-specific methyltransferase 2D	2689					chromatin silencing (GO:0006342)|histone H3-K4 methylation (GO:0051568)|oocyte growth (GO:0001555)|oogenesis (GO:0048477)|positive regulation of cell proliferation (GO:0008284)|positive regulation of intracellular estrogen receptor signaling pathway (GO:0033148)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|response to estrogen (GO:0043627)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)										GCCGAATCAGCAGCTCTCGTA	0.577																																																0													19	21	20					12																	49433380		1995	4182	6177	SO:0001819	synonymous_variant	8085			AF010403	CCDS44873.1	12q13.12	2013-05-09	2013-05-09	2013-05-09	ENSG00000167548	ENSG00000167548		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	7133	protein-coding gene	gene with protein product		602113	"trinucleotide repeat containing 21", "myeloid/lymphoid or mixed-lineage leukemia 2"	TNRC21, MLL2		9247308	Standard	NM_003482		Approved	ALR, MLL4, CAGL114		O14686	OTTHUMG00000166524	ENST00000301067.7:c.8067G>C	12.37:g.49433380C>G		Somatic		WXS	Illumina HiSeq	Phase_I	O14687	Silent	SNP	ENST00000301067.7	37	CCDS44873.1																																																																																				0.577	KMT2D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390183.2			G	49433380	C	G	49433380	2	3	595	1	0	0	0	0	0	0	0	1	9628	697	25	4		4	MLL2	12	49433380	Silent	SNP	C	TCGA-G7-7502-01A-11D-2201-08		49433380	84418515	52	35512										
POLR3B	55703	broad.mit.edu	37	chr12	106889911	106889911	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tccggacatcatcatgaaccCacacggcttcccatcacgaa	6	16	3	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr12:106889911C>A	ENST00000228347.4	+	24	3014	c.2792C>A	c.(2791-2793)cCa>cAa	p.P931Q	POLR3B_ENST00000539066.1_Missense_Mutation_p.P873Q|RP11-144F15.1_ENST00000551505.1_3'UTR	NM_018082.5	NP_060552.4	Q9NW08	RPC2_HUMAN	polymerase (RNA) III (DNA directed) polypeptide B	931					defense response to virus (GO:0051607)|gene expression (GO:0010467)|innate immune response (GO:0045087)|positive regulation of innate immune response (GO:0045089)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of type I interferon production (GO:0032481)|termination of RNA polymerase III transcription (GO:0006386)|transcription elongation from RNA polymerase III promoter (GO:0006385)|transcription from RNA polymerase III promoter (GO:0006383)	cytosol (GO:0005829)|DNA-directed RNA polymerase III complex (GO:0005666)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)|metal ion binding (GO:0046872)|ribonucleoside binding (GO:0032549)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(14)|lung(22)|ovary(1)|prostate(3)|skin(3)|urinary_tract(2)	57						ATCATGAACCCACACGGCTTC	0.488																																																0													183	156	165					12																	106889911		2203	4300	6503	SO:0001583	missense	55703			AY092084	CCDS9105.1, CCDS53824.1	12q23.3	2014-08-12			ENSG00000013503	ENSG00000013503		"RNA polymerase subunits"	30348	protein-coding gene	gene with protein product		614366				12391170	Standard	NM_018082		Approved	RPC2, FLJ10388	uc001tlp.3	Q9NW08	OTTHUMG00000170077	ENST00000228347.4:c.2792C>A	12.37:g.106889911C>A	ENSP00000228347:p.Pro931Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6H0|B3KV73|F5H1E6|Q9NW59	Missense_Mutation	SNP	ENST00000228347.4	37	CCDS9105.1	.	.	.	.	.	.	.	.	.	.	C	33	5.263308	0.95399	.	.	ENSG00000013503	ENST00000228347;ENST00000539066	D;D	0.92595	-3.07;-3.07	5.4	5.4	0.78164	DNA-directed RNA polymerase, subunit 2, domain 6 (2);	0.000000	0.85682	D	0.000000	D	0.98267	0.9426	H	0.99650	4.68	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.99572	1.0971	10	0.87932	D	0	-13.2872	19.5252	0.95201	0.0:1.0:0.0:0.0	.	931	Q9NW08	RPC2_HUMAN	Q	931;873	ENSP00000228347:P931Q;ENSP00000445721:P873Q	ENSP00000228347:P931Q	P	+	2	0	POLR3B	105414041	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.720000	0.84759	2.678000	0.91216	0.655000	0.94253	CCA		0.488	POLR3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407166.1	NM_018082		A	106889911	C	A	106889911	3	1	595	1	0	0	0	0	1	0	0	0	12236	594	21	4	2886	4	POLR3B	12	106889911	Missense_Mutation	SNP	C	TCGA-G7-7502-01A-11D-2201-08	57456531	106889911	26961984	53	35513										
RPH3A	22895	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	113306301	113306301	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	aggtcctcccacagcctatgCctataaagaagaccaagccc	7	15	0	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr12:113306301C>A	ENST00000389385.4	+	8	1008	c.511C>A	c.(511-513)Cct>Act	p.P171T	RPH3A_ENST00000543106.2_Missense_Mutation_p.P171T|RPH3A_ENST00000415485.3_Missense_Mutation_p.P171T|RPH3A_ENST00000548866.1_Missense_Mutation_p.P122T|RPH3A_ENST00000447659.2_Missense_Mutation_p.P122T|RPH3A_ENST00000551052.1_Missense_Mutation_p.P167T|RPH3A_ENST00000549913.2_3'UTR|RPH3A_ENST00000420983.2_Missense_Mutation_p.P171T	NM_001143854.1|NM_014954.3	NP_001137326.1|NP_055769.2	Q9Y2J0	RP3A_HUMAN	rabphilin 3A	171	Pro-rich.				intracellular protein transport (GO:0006886)	cell junction (GO:0030054)|membrane (GO:0016020)|synaptic vesicle (GO:0008021)	calcium ion binding (GO:0005509)|calcium-dependent phospholipid binding (GO:0005544)|phosphatidylinositol phosphate binding (GO:1901981)|transporter activity (GO:0005215)			breast(1)|central_nervous_system(3)|cervix(2)|endometrium(2)|kidney(1)|large_intestine(8)|lung(16)|ovary(3)|prostate(4)|skin(6)|urinary_tract(1)	47				BRCA - Breast invasive adenocarcinoma(302;0.00453)		ACAGCCTATGCCTATAAAGAA	0.602																																																0													60	58	59					12																	113306301		2203	4300	6503	SO:0001583	missense	22895			AB023202	CCDS31904.1, CCDS44979.1	12q24.13	2014-07-02	2014-07-02		ENSG00000089169	ENSG00000089169		"Synaptotagmins"	17056	protein-coding gene	gene with protein product		612159	"rabphilin 3A homolog (mouse)"			10231032, 7822236	Standard	NM_014954		Approved	KIAA0985, rabphilin, exophilin-1	uc001ttz.3	Q9Y2J0	OTTHUMG00000169713	ENST00000389385.4:c.511C>A	12.37:g.113306301C>A	ENSP00000374036:p.Pro171Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3C3|Q96AE0	Missense_Mutation	SNP	ENST00000389385.4	37	CCDS44979.1	.	.	.	.	.	.	.	.	.	.	C	25.6	4.653855	0.88056	.	.	ENSG00000089169	ENST00000543106;ENST00000551593;ENST00000389385;ENST00000447659;ENST00000551052;ENST00000415485;ENST00000548866;ENST00000420983	T;T;T;T;T;T;T	0.64438	-0.0;-0.0;-0.1;-0.0;-0.0;-0.1;-0.0	4.77	4.77	0.60923	Zinc finger, RING/FYVE/PHD-type (1);	0.000000	0.64402	D	0.000009	T	0.73521	0.3597	L	0.49126	1.545	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.87578	0.998;0.996;0.996;0.998	T	0.70676	-0.4806	10	0.28530	T	0.3	.	16.5919	0.84767	0.0:1.0:0.0:0.0	.	122;171;171;167	F8VP47;B7Z9Z7;Q9Y2J0;Q9Y2J0-2	.;.;RP3A_HUMAN;.	T	171;171;171;122;167;171;122;171	ENSP00000440384:P171T;ENSP00000374036:P171T;ENSP00000413254:P122T;ENSP00000448297:P167T;ENSP00000405357:P171T;ENSP00000450347:P122T;ENSP00000408889:P171T	ENSP00000374036:P171T	P	+	1	0	RPH3A	111790684	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	6.916000	0.75776	2.213000	0.71641	0.655000	0.94253	CCT		0.602	RPH3A-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000405561.1	NM_014954		A	113306301	C	A	113306301	3	1	595	1	0	0	0	0	1	0	0	0	13564	739	26	4	533	4	RPH3A	12	113306301	Missense_Mutation	SNP	C	TCGA-G7-7502-01A-11D-2201-08	6416390	113306301	20545594	54	35514										
FBXW8	26259	hgsc.bcm.edu	37	chr12	117348921	117348921	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	cccaggcgccgaagaagcggCgacggcccgaggctgccgag	17	15	0	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr12:117348921C>G	ENST00000309909.5	+	1	161	c.79C>G	c.(79-81)Cga>Gga	p.R27G	FBXW8_ENST00000455858.2_Missense_Mutation_p.R27G			Q8N3Y1	FBXW8_HUMAN	F-box and WD repeat domain containing 8	27					cell proliferation (GO:0008283)|Golgi organization (GO:0007030)|labyrinthine layer blood vessel development (GO:0060716)|positive regulation of dendrite morphogenesis (GO:0050775)|protein ubiquitination (GO:0016567)|spongiotrophoblast layer development (GO:0060712)	Cul7-RING ubiquitin ligase complex (GO:0031467)|Golgi apparatus (GO:0005794)|perinuclear region of cytoplasm (GO:0048471)|SCF ubiquitin ligase complex (GO:0019005)				endometrium(2)|kidney(3)|large_intestine(4)|lung(8)|ovary(2)|pancreas(1)|skin(1)|stomach(1)	22	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0353)		GAAGAAGCGGCGACGGCCCGA	0.751																																																0													3	4	4					12																	117348921		1164	2768	3932	SO:0001583	missense	26259			AF176707	CCDS9182.1, CCDS44988.1	12q24.23	2013-01-09	2007-02-08	2003-06-13				"F-boxes / WD-40 domains", "WD repeat domain containing"	13597	protein-coding gene	gene with protein product		609073	"F-box only protein 29", "F-box and WD-40 domain protein 8"	FBXO29		10531035, 10531037	Standard	NM_012174		Approved	FBX29, FBW6, FBW8	uc001twg.1	Q8N3Y1	OTTHUMG00000169329	ENST00000309909.5:c.79C>G	12.37:g.117348921C>G	ENSP00000310686:p.Arg27Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UK95	Missense_Mutation	SNP	ENST00000309909.5	37	CCDS9182.1	.	.	.	.	.	.	.	.	.	.	C	14.26	2.482464	0.44147	.	.	ENSG00000174989	ENST00000309909;ENST00000455858;ENST00000505227	T;T	0.10477	2.91;2.87	4.11	4.11	0.48088	.	0.440966	0.21290	N	0.076982	T	0.19525	0.0469	L	0.27053	0.805	0.33657	D	0.609235	D;D	0.67145	0.993;0.996	D;D	0.76575	0.972;0.988	T	0.13072	-1.0523	10	0.72032	D	0.01	-20.9936	12.0561	0.53536	0.0:1.0:0.0:0.0	.	27;27	Q8N3Y1;Q8N3Y1-2	FBXW8_HUMAN;.	G	27	ENSP00000310686:R27G;ENSP00000389144:R27G	ENSP00000310686:R27G	R	+	1	2	FBXW8	115833304	1.000000	0.71417	0.998000	0.56505	0.087000	0.18053	1.536000	0.36072	2.273000	0.75805	0.555000	0.69702	CGA		0.751	FBXW8-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403561.1	NM_012174		G	117348921	C	G	117348921	3	3	595	1	0	0	0	0	1	0	0	0	5777	760	27	4	81	4	FBXW8	12	117348921	Missense_Mutation	SNP	C	TCGA-G7-7502-01A-11D-2201-08	4042620	117348921	16502974	55	35515										
CCDC62	84660	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	123286278	123286278	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	taattgaagccccaggccacAtgtctgacgtggagtggatg	13	9	1	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr12:123286278A>T	ENST00000253079.6	+	9	1929	c.1585A>T	c.(1585-1587)Atg>Ttg	p.M529L	CCDC62_ENST00000392441.4_Missense_Mutation_p.M529L|CCDC62_ENST00000392440.2_Missense_Mutation_p.M290L|CCDC62_ENST00000537566.1_Missense_Mutation_p.M290L	NM_201435.4	NP_958843.2	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62	529					cellular response to estradiol stimulus (GO:0071392)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	estrogen receptor binding (GO:0030331)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)			breast(1)|kidney(1)|large_intestine(4)|lung(9)|ovary(2)|pancreas(1)|skin(1)|urinary_tract(1)	20	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)		CCCAGGCCACATGTCTGACGT	0.502																																																0													138	145	143					12																	123286278		2203	4300	6503	SO:0001583	missense	84660				CCDS9238.1	12q24.31	2009-08-18			ENSG00000130783	ENSG00000130783			30723	protein-coding gene	gene with protein product	"cancer/testis antigen 109"	613481				18563714, 19126643	Standard	NM_201435		Approved	TSP-NY, FLJ40344, CT109, ERAP75	uc001udc.3	Q6P9F0	OTTHUMG00000168764	ENST00000253079.6:c.1585A>T	12.37:g.123286278A>T	ENSP00000253079:p.Met529Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8V1|B3KUP3|Q6ZVF2|Q86VJ0|Q9BYZ5	Missense_Mutation	SNP	ENST00000253079.6	37	CCDS9238.1	.	.	.	.	.	.	.	.	.	.	A	13.84	2.358511	0.41801	.	.	ENSG00000130783	ENST00000253079;ENST00000392441;ENST00000537566;ENST00000392440	T;T;T;T	0.62941	-0.01;-0.01;-0.01;-0.01	5.73	-0.599	0.11645	.	0.206543	0.35805	N	0.002975	T	0.49609	0.1567	L	0.56769	1.78	0.18873	N	0.999988	B;B;B	0.21225	0.053;0.004;0.001	B;B;B	0.15484	0.013;0.006;0.001	T	0.44298	-0.9337	10	0.56958	D	0.05	-8.7087	4.9707	0.14113	0.4874:0.1609:0.3517:0.0	.	529;290;529	Q6P9F0-2;Q6P9F0-3;Q6P9F0	.;.;CCD62_HUMAN	L	529;529;290;290	ENSP00000253079:M529L;ENSP00000376236:M529L;ENSP00000445045:M290L;ENSP00000376235:M290L	ENSP00000253079:M529L	M	+	1	0	CCDC62	121852231	0.575000	0.26692	0.748000	0.31131	0.676000	0.39594	0.351000	0.20096	0.101000	0.17610	0.482000	0.46254	ATG		0.502	CCDC62-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400930.1	NM_032573		T	123286278	A	T	123286278	3	4	595	1	0	0	0	0	1	0	0	0	2835	217	8	5	1619	5	CCDC62	12	123286278	Missense_Mutation	SNP	A	TCGA-G7-7502-01A-11D-2201-08	5937357	123286278	10565617	56	35516										
SLC15A4	121260	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	129283926	129283926	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	agcccattatggcactctgcAtggacttgggggcagctgag	14	10	1	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr12:129283926A>G	ENST00000266771.5	-	7	1490	c.1451T>C	c.(1450-1452)aTg>aCg	p.M484T	SLC15A4_ENST00000545031.1_Start_Codon_SNP_p.M1T|SLC15A4_ENST00000544112.1_Missense_Mutation_p.M147T	NM_145648.3	NP_663623.1	Q8N697	S15A4_HUMAN	solute carrier family 15 (oligopeptide transporter), member 4	484					ion transport (GO:0006811)|oligopeptide transport (GO:0006857)|protein transport (GO:0015031)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)	L-histidine transmembrane transporter activity (GO:0005290)|symporter activity (GO:0015293)			endometrium(4)|kidney(2)|large_intestine(4)|lung(11)|skin(1)	22	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.69e-06)|Epithelial(86;1.17e-05)|all cancers(50;5.07e-05)		GGCACTCTGCATGGACTTGGG	0.512																																																0													84	81	82					12																	129283926		2203	4300	6503	SO:0001583	missense	121260			AY038999	CCDS9264.1	12q24.32	2013-07-18	2013-07-18		ENSG00000139370	ENSG00000139370		"Solute carriers"	23090	protein-coding gene	gene with protein product		615806	"solute carrier family 15, member 4"			11741232	Standard	NM_145648		Approved	PHT1, PTR4	uc001uhu.2	Q8N697	OTTHUMG00000168415	ENST00000266771.5:c.1451T>C	12.37:g.129283926A>G	ENSP00000266771:p.Met484Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8Y9|B3KTK1|Q71M34|Q7Z5F8|Q8TAH0	Missense_Mutation	SNP	ENST00000266771.5	37	CCDS9264.1	.	.	.	.	.	.	.	.	.	.	A	23.0	4.361060	0.82353	.	.	ENSG00000139370	ENST00000266771;ENST00000545031;ENST00000544112	T;T	0.05382	3.45;3.45	5.15	5.15	0.70609	Major facilitator superfamily domain, general substrate transporter (1);	0.000000	0.85682	D	0.000000	T	0.28830	0.0715	M	0.85542	2.76	0.80722	D	1	D	0.76494	0.999	D	0.77557	0.99	T	0.08249	-1.0731	10	0.87932	D	0	.	14.985	0.71342	1.0:0.0:0.0:0.0	.	484	Q8N697	S15A4_HUMAN	T	484;1;147	ENSP00000266771:M484T;ENSP00000439946:M147T	ENSP00000266771:M484T	M	-	2	0	SLC15A4	127849879	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	8.574000	0.90763	1.929000	0.55896	0.533000	0.62120	ATG		0.512	SLC15A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399663.1	NM_145648		G	129283926	A	G	129283926	3	3	595	1	0	0	0	0	1	0	0	0	14414	217	8	3	290	3	SLC15A4	12	129283926	Missense_Mutation	SNP	A	TCGA-G7-7502-01A-11D-2201-08	5997648	129283926	4567969	57	35517										
SLITRK1	114798	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	84453895	84453895	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ttaacgtgggcgagatcctaGcgtacagctgagggcagatc	14	9	0	3			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr13:84453895G>A	ENST00000377084.2	-	1	2633	c.1748C>T	c.(1747-1749)gCt>gTt	p.A583V		NM_001281503.1|NM_052910.1	NP_001268432.1|NP_443142.1	Q96PX8	SLIK1_HUMAN	SLIT and NTRK-like family, member 1	583					adult behavior (GO:0030534)|axonogenesis (GO:0007409)|homeostatic process (GO:0042592)|multicellular organism growth (GO:0035264)	integral component of membrane (GO:0016021)				NS(2)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(22)|liver(1)|lung(36)|ovary(4)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	80	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		CGAGATCCTAGCGTACAGCTG	0.542																																																0													94	80	85					13																	84453895		2203	4300	6503	SO:0001583	missense	114798			AB067497	CCDS9464.1	13q31.1	2004-01-08	2004-01-08		ENSG00000178235	ENSG00000178235			20297	protein-coding gene	gene with protein product		609678	"leucine rich repeat containing 12"	LRRC12		14557068, 12975309	Standard	NM_001281503		Approved	KIAA1910	uc001vlk.3	Q96PX8	OTTHUMG00000017149	ENST00000377084.2:c.1748C>T	13.37:g.84453895G>A	ENSP00000366288:p.Ala583Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5U5I6|Q96SF9	Missense_Mutation	SNP	ENST00000377084.2	37	CCDS9464.1	.	.	.	.	.	.	.	.	.	.	G	7.865	0.726968	0.15439	.	.	ENSG00000178235	ENST00000377084	T	0.58797	0.31	5.22	4.36	0.52297	.	0.190710	0.45126	D	0.000397	T	0.58409	0.2120	M	0.76574	2.34	0.45261	D	0.998262	B	0.22541	0.071	B	0.25987	0.065	T	0.56595	-0.7953	10	0.30854	T	0.27	-10.4812	13.8324	0.63389	0.0:0.1548:0.8452:0.0	.	583	Q96PX8	SLIK1_HUMAN	V	583	ENSP00000366288:A583V	ENSP00000366288:A583V	A	-	2	0	SLITRK1	83351896	1.000000	0.71417	0.958000	0.39756	0.986000	0.74619	3.881000	0.56152	1.320000	0.45209	-0.175000	0.13238	GCT		0.542	SLITRK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045396.1	NM_052910		A	84453895	G	A	84453895	3	1	595	1	0	0	0	0	1	0	0	0	14755	971	34	2	346	2	SLITRK1	13	84453895	Missense_Mutation	SNP	G	TCGA-G7-7502-01A-11D-2201-08		84453895	30715983	58	35518										
UBAC2	337867	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	99890774	99890774	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tcactgccagaagctctttgTgtatgaccttcacgcagtca	8	12	4	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr13:99890774T>C	ENST00000403766.3	+	2	260	c.125T>C	c.(124-126)gTg>gCg	p.V42A	UBAC2_ENST00000376440.2_Missense_Mutation_p.C84R	NM_001144072.1	NP_001137544.1	Q8NBM4	UBAC2_HUMAN	UBA domain containing 2	42					protein localization to endoplasmic reticulum (GO:0070972)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)				breast(1)|kidney(1)|large_intestine(2)|lung(3)|ovary(1)|prostate(2)	10	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					AAGCTCTTTGTGTATGACCTT	0.547																																																0													222	221	222					13																	99890774		2203	4300	6503	SO:0001583	missense	337867			AK055110	CCDS9490.1, CCDS45064.1	13q32.3	2012-02-01	2007-04-20	2007-04-20	ENSG00000134882	ENSG00000134882			20486	protein-coding gene	gene with protein product			"phosphoglycerate dehydrogenase like 1"	PHGDHL1			Standard	NM_177967		Approved	FLJ30548, RP11-178C10.1	uc001voa.4	Q8NBM4	OTTHUMG00000017267	ENST00000403766.3:c.125T>C	13.37:g.99890774T>C	ENSP00000383911:p.Val42Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B3KNV7|Q0VAB5|Q5W0W6|Q5W0W9|Q6GQR2|Q6P4B0|Q8N2E8|Q96NW2	Missense_Mutation	SNP	ENST00000403766.3	37	CCDS45064.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	13.11|13.11	2.139733|2.139733	0.37728|0.37728	.|.	.|.	ENSG00000134882|ENSG00000134882	ENST00000376440|ENST00000403766;ENST00000355700;ENST00000457666	.|T;T;T	.|0.45276	.|0.9;0.9;0.9	5.72|5.72	4.52|4.52	0.55395|0.55395	.|.	.|0.610304	.|0.17766	.|N	.|0.162736	T|T	0.25865|0.25865	0.0630|0.0630	.|.	.|.	.|.	0.37528|0.37528	D|D	0.917816|0.917816	B|B	0.18968|0.13594	0.032|0.008	B|B	0.13407|0.06405	0.009|0.002	T|T	0.12268|0.12268	-1.0554|-1.0554	6|8	.|.	.|.	.|.	-4.5461|-4.5461	5.6483|5.6483	0.17602|0.17602	0.1608:0.0847:0.0:0.7545|0.1608:0.0847:0.0:0.7545	.|.	84|42	Q8NBM4-2|Q8NBM4	.|UBAC2_HUMAN	R|A	84|42;42;48	.|ENSP00000383911:V42A;ENSP00000347928:V42A;ENSP00000402249:V48A	.|.	C|V	+|+	1|2	0|0	UBAC2|UBAC2	98688775|98688775	0.007000|0.007000	0.16637|0.16637	0.998000|0.998000	0.56505|0.56505	0.983000|0.983000	0.72400|0.72400	1.311000|1.311000	0.33562|0.33562	0.960000|0.960000	0.38005|0.38005	0.482000|0.482000	0.46254|0.46254	TGT|GTG		0.547	UBAC2-002	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045588.1	NM_177967		C	99890774	T	C	99890774	3	2	595	1	0	0	0	0	1	0	0	0	16847	1696	59	3	291	3	UBAC2	13	99890774	Missense_Mutation	SNP	T	TCGA-G7-7502-01A-11D-2201-08	15436879	99890774	15279104	59	35519										
LAMP1	3916	broad.mit.edu	37	chr13	113960803	113960803	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ttccctggaattgacaggccTcatgcattgtgcgtcagcag	11	11	2	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr13:113960803T>C	ENST00000332556.4	+	2	259	c.65T>C	c.(64-66)cTc>cCc	p.L22P	LAMP1_ENST00000397181.3_Missense_Mutation_p.L22P	NM_005561.3	NP_005552.3	P11279	LAMP1_HUMAN	lysosomal-associated membrane protein 1	22				LLLLLGLMHCA -> PVAAARPHALS (in Ref. 1; AAA60382). {ECO:0000305}.	autophagic cell death (GO:0048102)|autophagy (GO:0006914)|establishment of protein localization to organelle (GO:0072594)|Golgi to lysosome transport (GO:0090160)|granzyme-mediated apoptotic signaling pathway (GO:0008626)|positive regulation of natural killer cell degranulation (GO:0043323)|positive regulation of natural killer cell mediated cytotoxicity (GO:0045954)|protein stabilization (GO:0050821)|regulation of organelle transport along microtubule (GO:1902513)	alveolar lamellar body (GO:0097208)|cytolytic granule (GO:0044194)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|lysosome (GO:0005764)|melanosome (GO:0042470)|membrane (GO:0016020)|multivesicular body (GO:0005771)|neuronal cell body (GO:0043025)|phagolysosome membrane (GO:0061474)|sarcolemma (GO:0042383)	enzyme binding (GO:0019899)			NS(1)|central_nervous_system(2)|endometrium(3)|large_intestine(4)|lung(2)|prostate(1)|skin(1)|stomach(2)	16	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)			TTGACAGGCCTCATGCATTGT	0.473																																																0													168	162	164					13																	113960803		1967	4166	6133	SO:0001583	missense	3916			J03263	CCDS41909.1	13q34	2011-11-24			ENSG00000185896	ENSG00000185896		"CD molecules"	6499	protein-coding gene	gene with protein product		153330					Standard	NM_005561		Approved	CD107a	uc001vtm.1	P11279	OTTHUMG00000017380	ENST00000332556.4:c.65T>C	13.37:g.113960803T>C	ENSP00000333298:p.Leu22Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DWL3|Q8WU33|Q96I40|Q9BRD2|Q9NP13	Missense_Mutation	SNP	ENST00000332556.4	37	CCDS41909.1	.	.	.	.	.	.	.	.	.	.	T	12.75	2.032500	0.35893	.	.	ENSG00000185896	ENST00000332556;ENST00000397181	T;T	0.34859	1.34;1.45	5.04	5.04	0.67666	.	1.537360	0.04718	N	0.418782	T	0.62877	0.2464	M	0.80028	2.48	0.53005	D	0.99996	D;D	0.71674	0.998;0.983	D;P	0.62955	0.909;0.799	T	0.41980	-0.9478	10	0.44086	T	0.13	-17.283	11.4481	0.50136	0.0:0.0:0.0:1.0	.	22;22	B4DWL3;P11279	.;LAMP1_HUMAN	P	22	ENSP00000333298:L22P;ENSP00000415354:L22P	ENSP00000333298:L22P	L	+	2	0	LAMP1	113008804	0.249000	0.23941	0.861000	0.33841	0.020000	0.10135	3.432000	0.52824	2.026000	0.59711	0.421000	0.28195	CTC		0.473	LAMP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045876.2			C	113960803	T	C	113960803	3	2	595	1	0	0	0	0	1	0	0	0	8624	1551	54	3	71	3	LAMP1	13	113960803	Missense_Mutation	SNP	T	TCGA-G7-7502-01A-11D-2201-08	14070029	113960803	1209075	60	35520										
FOXG1	2290	hgsc.bcm.edu	37	chr14	29237806	29237806	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tgagcgccagggccgcgtccTcctccacgtcgccgcaggcc	13	19	0	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr14:29237806T>C	ENST00000313071.4	+	1	1520	c.1321T>C	c.(1321-1323)Tcc>Ccc	p.S441P	FOXG1_ENST00000382535.3_Missense_Mutation_p.S441P	NM_005249.4	NP_005240.3	P55316	FOXG1_HUMAN	forkhead box G1	441					aging (GO:0007568)|axon midline choice point recognition (GO:0016199)|brain development (GO:0007420)|dorsal/ventral pattern formation (GO:0009953)|inner ear morphogenesis (GO:0042472)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of transcription, DNA-templated (GO:0045892)|neuron fate determination (GO:0048664)|positive regulation of cell cycle (GO:0045787)|positive regulation of neuroblast proliferation (GO:0002052)|pyramidal neuron migration (GO:0021852)|regulation of mitotic cell cycle (GO:0007346)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(9)|lung(23)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(2)	43			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		GGCCGCGTCCTCCTCCACGTC	0.617																																																0													66	62	63					14																	29237806		2203	4300	6503	SO:0001583	missense	2290				CCDS9636.1	14q11-q13	2007-10-05	2007-05-16	2007-05-16	ENSG00000176165	ENSG00000176165		"Forkhead boxes"	3811	protein-coding gene	gene with protein product		164874	"forkhead box G1B", "forkhead box G1C", "forkhead box G1A"	FKHL2, FOXG1B, FKHL4, FKH2, FKHL1, FOXG1C, FKHL3, FOXG1A		7959731, 17260156	Standard	NM_005249		Approved	HFK2, QIN, BF1, HFK1, HFK3, HBF-3	uc001wqe.4	P55316	OTTHUMG00000140187	ENST00000313071.4:c.1321T>C	14.37:g.29237806T>C	ENSP00000339004:p.Ser441Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFY2|P55315|Q14488|Q86XT7	Missense_Mutation	SNP	ENST00000313071.4	37	CCDS9636.1	.	.	.	.	.	.	.	.	.	.	T	9.301	1.053132	0.19907	.	.	ENSG00000176165	ENST00000382535;ENST00000313071	D;D	0.93712	-3.27;-3.27	4.14	4.14	0.48551	.	0.394510	0.21935	U	0.066968	D	0.87156	0.6107	N	0.19112	0.55	0.44117	D	0.996893	P	0.44578	0.838	B	0.41813	0.367	D	0.86285	0.1670	10	0.42905	T	0.14	.	10.3384	0.43862	0.0:0.0:0.1649:0.835	.	441	P55316	FOXG1_HUMAN	P	441	ENSP00000371975:S441P;ENSP00000339004:S441P	ENSP00000339004:S441P	S	+	1	0	FOXG1	28307557	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	3.354000	0.52254	1.633000	0.50488	0.402000	0.26972	TCC		0.617	FOXG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276559.3			C	29237806	T	C	29237806	3	2	595	1	0	0	0	0	1	0	0	0	6014	1551	54	3	1323	3	FOXG1	14	29237806	Missense_Mutation	SNP	T	TCGA-G7-7502-01A-11D-2201-08		29237806	78111734	61	35521										
CASC5	57082	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr15	40914067	40914068	+	Frame_Shift_Del	DEL	TT	TT	-													0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	gatgggaaaatgaatgtaaaTtgtaactcagttcctcatgt							TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr15:40914067_40914068delTT	ENST00000346991.5	+	11	2073_2074	c.1683_1684delTT	c.(1681-1686)aattgtfs	p.NC561fs	CASC5_ENST00000527044.1_3'UTR|CASC5_ENST00000399668.2_Frame_Shift_Del_p.NC535fs			Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5	561	Interaction with BUB1 and BUB1B.				acrosome assembly (GO:0001675)|attachment of spindle microtubules to kinetochore (GO:0008608)|CENP-A containing nucleosome assembly (GO:0034080)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of phosphatase activity (GO:0010923)|nucleosome assembly (GO:0006334)|protein localization to kinetochore (GO:0034501)|spindle assembly checkpoint (GO:0071173)	acrosomal vesicle (GO:0001669)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|kinetochore (GO:0000776)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				NS(1)|breast(7)|central_nervous_system(1)|endometrium(6)|kidney(4)|large_intestine(13)|lung(16)|skin(3)|stomach(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	57		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		TGAATGTAAATTGTAACTCAGT	0.371																																																0																																										SO:0001589	frameshift_variant	57082			AF173994	CCDS42023.1, CCDS42024.1	15q14	2013-07-03			ENSG00000137812	ENSG00000137812		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	24054	protein-coding gene	gene with protein product	"cancer/testis antigen 29", "kinetochore null 1 homolog (C. elegans)", "blinkin, bub-linking kinetochore protein", "protein phosphatase 1, regulatory subunit 55"	609173				10980622, 10780384, 18045986	Standard	NM_170589		Approved	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7	uc010bbt.1	Q8NG31	OTTHUMG00000166532	ENST00000346991.5:c.1683_1684delTT	15.37:g.40914067_40914068delTT	ENSP00000335463:p.Asn561fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHE1|Q8WXA6|Q9HCK2|Q9NR92	Frame_Shift_Del	DEL	ENST00000346991.5	37	CCDS42023.1																																																																																				0.371	CASC5-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000390224.2	NM_144508		-	40914068	TT	-	40914067	7	5	595	1	0	1	0	1	0	0	0	0	2665	1490	52	0	1721	0	CASC5	15	40914067	Frame_Shift_Del	DEL	TT	TCGA-G7-7502-01A-11D-2201-08		40914067	61617325	62	35522										
SPTBN5	51332	broad.mit.edu	37	chr15	42178141	42178141	+	Frame_Shift_Del	DEL	G	G	-													0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	atccttaaggaaactctcccGgagggctgccttgtgctgga							TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr15:42178141delG	ENST00000320955.6	-	7	1539	c.1312delC	c.(1312-1314)cggfs	p.R438fs		NM_016642.2	NP_057726.4	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	438					actin cytoskeleton organization (GO:0030036)|actin filament capping (GO:0051693)|axon guidance (GO:0007411)|Golgi organization (GO:0007030)|lysosomal transport (GO:0007041)|protein homooligomerization (GO:0051260)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|photoreceptor connecting cilium (GO:0032391)|photoreceptor disc membrane (GO:0097381)|spectrin (GO:0008091)	actin binding (GO:0003779)|dynactin binding (GO:0034452)|dynein intermediate chain binding (GO:0045505)|kinesin binding (GO:0019894)|myosin tail binding (GO:0032029)|protein self-association (GO:0043621)|spectrin binding (GO:0030507)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(6)|lung(18)|ovary(5)|prostate(8)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	62		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		AAACTCTCCCGGAGGGCTGCC	0.667																																																0													13	14	14					15																	42178141		1868	4084	5952	SO:0001589	frameshift_variant	51332			AF233523	CCDS61599.1	15q21	2010-08-17			ENSG00000137877	ENSG00000137877			15680	protein-coding gene	gene with protein product	"beta V spectrin"	605916				10764729	Standard	NM_016642		Approved	HUSPECV, BSPECV, HUBSPECV	uc001zos.4	Q9NRC6		ENST00000320955.6:c.1312delC	15.37:g.42178141delG	ENSP00000317790:p.Arg438fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000320955.6	37																																																																																					0.667	SPTBN5-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000420237.1	NM_016642		-	42178141	G	-	42178141	7	5	595	1	0	1	0	1	0	0	0	0	15134	1115	39	0	9960	0	SPTBN5	15	42178141	Frame_Shift_Del	DEL	G	TCGA-G7-7502-01A-11D-2201-08	1264074	42178141	60353251	63	35523										
NEO1	4756	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr15	73428245	73428245	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	aacacagctctgaaagattgGtattgctggcaggtggtagc	13	7	1	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr15:73428245G>T	ENST00000339362.5	+	6	1339	c.892G>T	c.(892-894)Gta>Tta	p.V298L	NEO1_ENST00000558964.1_Missense_Mutation_p.V298L|NEO1_ENST00000560262.1_Missense_Mutation_p.V298L|NEO1_ENST00000261908.6_Missense_Mutation_p.V298L			Q92859	NEO1_HUMAN	neogenin 1	298	Ig-like C2-type 3.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|iron ion homeostasis (GO:0055072)|muscle cell differentiation (GO:0042692)|myoblast fusion (GO:0007520)|positive regulation of muscle cell differentiation (GO:0051149)|regulation of transcription, DNA-templated (GO:0006355)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	receptor activity (GO:0004872)			NS(1)|breast(2)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(3)|large_intestine(9)|lung(26)|pancreas(2)|prostate(1)|skin(3)|urinary_tract(2)	57						TGAAAGATTGGTATTGCTGGC	0.338																																																0													88	84	85					15																	73428245		2197	4297	6494	SO:0001583	missense	4756			U61262	CCDS10247.1, CCDS53957.1, CCDS58378.1	15q22.3-q23	2014-06-20	2010-06-24		ENSG00000067141	ENSG00000067141		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	7754	protein-coding gene	gene with protein product	"immunoglobulin superfamily, DCC subclass, member 2"	601907	"neogenin (chicken) homolog 1"			9121761	Standard	NM_002499		Approved	NGN, HsT17534, IGDCC2, NTN1R2	uc002avm.4	Q92859	OTTHUMG00000133509	ENST00000339362.5:c.892G>T	15.37:g.73428245G>T	ENSP00000341198:p.Val298Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKM9|B7ZKN0|O00340|Q17RX1	Missense_Mutation	SNP	ENST00000339362.5	37	CCDS10247.1	.	.	.	.	.	.	.	.	.	.	G	3.964	-0.009769	0.07727	.	.	ENSG00000067141	ENST00000339362;ENST00000379842;ENST00000261908	T;T	0.66638	-0.22;-0.22	6.04	0.438	0.16560	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.602380	0.17828	N	0.160637	T	0.42877	0.1222	N	0.17872	0.535	0.09310	N	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.06405	0.002;0.0;0.002	T	0.14896	-1.0456	10	0.27785	T	0.31	-0.8513	4.3015	0.10927	0.3044:0.0:0.443:0.2526	.	298;298;298	B7ZKM9;B7ZKN0;Q92859	.;.;NEO1_HUMAN	L	298;16;298	ENSP00000341198:V298L;ENSP00000261908:V298L	ENSP00000261908:V298L	V	+	1	0	NEO1	71215298	0.026000	0.19158	0.105000	0.21289	0.246000	0.25737	0.203000	0.17315	0.170000	0.19704	-0.219000	0.12488	GTA		0.338	NEO1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257472.2	NM_002499		T	73428245	G	T	73428245	3	4	595	1	0	0	0	0	1	0	0	0	10343	1261	44	4	910	4	NEO1	15	73428245	Missense_Mutation	SNP	G	TCGA-G7-7502-01A-11D-2201-08	31250104	73428245	29103147	64	35524										
SCAMP2	10066	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	75142970	75142970	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ggagctgttgcccgagaaccAggccaggcaggcaagcaggt	16	11	0	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr15:75142970A>T	ENST00000268099.9	-	6	626	c.517T>A	c.(517-519)Tgg>Agg	p.W173R		NM_005697.3	NP_005688.2	O15127	SCAM2_HUMAN	secretory carrier membrane protein 2	173					post-Golgi vesicle-mediated transport (GO:0006892)|protein transport (GO:0015031)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)|recycling endosome membrane (GO:0055038)|trans-Golgi network membrane (GO:0032588)|transport vesicle (GO:0030133)				kidney(1)|large_intestine(1)|lung(3)|ovary(1)|pancreas(1)|prostate(1)|skin(1)	9						CCCGAGAACCAGGCCAGGCAG	0.562																																																0													123	112	115					15																	75142970		2197	4295	6492	SO:0001583	missense	10066			AF005038	CCDS10271.1	15q23-q25	2013-02-21			ENSG00000140497	ENSG00000140497		"Secretory carrier membrane proteins"	10564	protein-coding gene	gene with protein product		606912				9378760	Standard	NM_005697		Approved		uc002azb.1	O15127	OTTHUMG00000142817	ENST00000268099.9:c.517T>A	15.37:g.75142970A>T	ENSP00000268099:p.Trp173Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDF0|Q9BQE8	Missense_Mutation	SNP	ENST00000268099.9	37	CCDS10271.1	.	.	.	.	.	.	.	.	.	.	A	7.869	0.727707	0.15439	.	.	ENSG00000140497	ENST00000268099;ENST00000543345	T	0.16597	2.33	4.48	4.48	0.54585	.	0.307839	0.34802	N	0.003680	T	0.22513	0.0543	M	0.71036	2.16	0.30893	N	0.730139	B;B	0.21520	0.049;0.057	B;B	0.29267	0.035;0.1	T	0.10543	-1.0625	10	0.25751	T	0.34	.	13.2599	0.60098	1.0:0.0:0.0:0.0	.	173;142	O15127;B3KU14	SCAM2_HUMAN;.	R	173;142	ENSP00000268099:W173R	ENSP00000268099:W173R	W	-	1	0	SCAMP2	72930023	1.000000	0.71417	1.000000	0.80357	0.454000	0.32378	4.332000	0.59279	1.795000	0.52594	0.402000	0.26972	TGG		0.562	SCAMP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286403.3	NM_005697		T	75142970	A	T	75142970	3	4	595	1	0	0	0	0	1	0	0	0	13884	188	7	5	488	5	SCAMP2	15	75142970	Missense_Mutation	SNP	A	TCGA-G7-7502-01A-11D-2201-08	1714725	75142970	27388422	65	35525										
ZSCAN2	54993	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr15	85159554	85159554	+	Intron	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ttccagaaacagcttcctgcGtacatggctgccctgtgtga	10	12	0	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr15:85159554G>A	ENST00000448803.2	+	3	698				ZSCAN2_ENST00000546148.1_Intron|ZSCAN2_ENST00000538076.1_Intron|ZSCAN2_ENST00000327179.6_Intron|ZSCAN2_ENST00000358472.3_Intron|ZSCAN2_ENST00000541040.1_Intron|ZSCAN2_ENST00000379358.3_Missense_Mutation_p.V141I|ZSCAN2_ENST00000485222.2_Intron|RP11-182J1.5_ENST00000542197.1_RNA	NM_181877.3	NP_870992.2	Q7Z7L9	ZSCA2_HUMAN	zinc finger and SCAN domain containing 2						cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|kidney(2)|large_intestine(7)|liver(2)|lung(4)|ovary(1)|pancreas(1)	19				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)		agcttcctgcgtacatggctg	0.463																																																0													170	139	149					15																	85159554		2203	4299	6502	SO:0001627	intron_variant	54993			BC041620	CCDS10329.2, CCDS32315.1, CCDS32316.1	15q25.2	2013-01-08	2004-11-01	2004-11-02	ENSG00000176371	ENSG00000176371		"-", "Zinc fingers, C2H2-type"	20994	protein-coding gene	gene with protein product			"zinc finger protein 29"	ZFP29		1937051	Standard	NM_017894		Approved	FLJ20595, ZNF854	uc002bkr.3	Q7Z7L9	OTTHUMG00000074027	ENST00000448803.2:c.407-4279G>A	15.37:g.85159554G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NG83|B2RMQ9|Q6ZQY9|Q9NWU4	Missense_Mutation	SNP	ENST00000448803.2	37	CCDS10329.2	.	.	.	.	.	.	.	.	.	.	G	2.654	-0.281322	0.05642	.	.	ENSG00000176371	ENST00000379358	T	0.05855	3.38	1.85	-3.69	0.04450	.	.	.	.	.	T	0.03434	0.0099	.	.	.	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.41787	-0.9489	8	0.38643	T	0.18	.	1.9006	0.03267	0.2148:0.1858:0.4349:0.1645	.	141	Q7Z7L9-4	.	I	141	ENSP00000368663:V141I	ENSP00000368663:V141I	V	+	1	0	ZSCAN2	82960558	0.000000	0.05858	0.000000	0.03702	0.060000	0.15804	-2.727000	0.00807	-1.295000	0.02357	-0.414000	0.06135	GTA		0.463	ZSCAN2-007	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000396956.1	NM_017894		A	85159554	G	A	85159554	1	1	595	0	1	0	0	0	0	0	0	0	18243	1145	40	1		1	ZSCAN2	15	85159554	Intron	SNP	G	TCGA-G7-7502-01A-11D-2201-08	10016584	85159554	17371838	66	35526										
CHTF18	63922	hgsc.bcm.edu	37	chr16	845697	845697	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tgccccaggcccagaaccggAtgagccagatgaggaacctg	13	13	0	4			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr16:845697A>G	ENST00000262315.9	+	17	2251	c.2188A>G	c.(2188-2190)Atg>Gtg	p.M730V	CHTF18_ENST00000455171.2_Missense_Mutation_p.M758V|CHTF18_ENST00000317063.6_Missense_Mutation_p.M939V	NM_022092.2	NP_071375.1	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor 18 homolog (S. cerevisiae)	730					cell cycle (GO:0007049)|DNA replication (GO:0006260)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)			endometrium(1)|kidney(3)|liver(2)|lung(4)|prostate(1)	11		Hepatocellular(780;0.00335)				CCAGAACCGGATGAGCCAGAT	0.726																																																0													14	18	17					16																	845697		2054	4170	6224	SO:0001583	missense	63922			BC018184	CCDS45371.1	16p13.3	2010-04-21	2003-12-09		ENSG00000127586	ENSG00000127586		"ATPases / AAA-type"	18435	protein-coding gene	gene with protein product		613201	"chromosome 16 open reading frame 41"	C16orf41		12171929	Standard	NM_022092		Approved	CHL12, C321D2.4, Ctf18	uc002cke.4	Q8WVB6	OTTHUMG00000047838	ENST00000262315.9:c.2188A>G	16.37:g.845697A>G	ENSP00000262315:p.Met730Val	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBA2|D3DU68|Q7Z6Y4|Q7Z6Y6|Q9BR83|Q9BRG5|Q9H7K3	Missense_Mutation	SNP	ENST00000262315.9	37	CCDS45371.1	.	.	.	.	.	.	.	.	.	.	a	4.345	0.063383	0.08388	.	.	ENSG00000127586	ENST00000317063;ENST00000455171;ENST00000262315	T;T;T	0.09723	2.95;2.99;2.99	4.41	3.29	0.37713	.	1.148390	0.06406	N	0.719777	T	0.08358	0.0208	L	0.40543	1.245	0.09310	N	1	B;B	0.24675	0.041;0.109	B;B	0.17098	0.017;0.013	T	0.44574	-0.9319	10	0.16896	T	0.51	-0.0122	1.7224	0.02915	0.5608:0.1754:0.0948:0.1689	.	758;730	Q8WVB6-2;Q8WVB6	.;CTF18_HUMAN	V	939;758;730	ENSP00000313029:M939V;ENSP00000406252:M758V;ENSP00000262315:M730V	ENSP00000262315:M730V	M	+	1	0	CHTF18	785698	0.012000	0.17670	0.132000	0.22025	0.973000	0.67179	0.965000	0.29319	0.538000	0.28769	0.370000	0.22315	ATG		0.726	CHTF18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109061.3	NM_022092		G	845697	A	G	845697	3	3	595	1	0	0	0	0	1	0	0	0	3416	333	12	3	2254	3	CHTF18	16	845697	Missense_Mutation	SNP	A	TCGA-G7-7502-01A-11D-2201-08		845697	89509056	67	35527										
ZNF598	90850	hgsc.bcm.edu	37	chr16	2059674	2059674	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	acagcacgcagctcccgcctTcccgctcaggagctgccgcc	10	20	1	0	rs71384660		TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr16:2059674T>C	ENST00000431526.1	-	2	88	c.74A>G	c.(73-75)gAa>gGa	p.E25G	ZNF598_ENST00000562103.1_5'UTR|ZNF598_ENST00000563630.1_5'UTR	NM_178167.2	NP_835461.2	Q86UK7	ZN598_HUMAN	zinc finger protein 598	25							poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|lung(7)|skin(1)|urinary_tract(1)	16						GCTCCCGCCTTCCCGCTCAGG	0.766													C|||	5008	1.0	1.0	1.0	5008	,	,		5162	1.0		1.0	False		,,,				2504	1.0															0													1	2	2					16																	2059674		1089	2314	3403	SO:0001583	missense	90850			BC029270		16p13.3	2008-05-02				ENSG00000167962		"Zinc fingers, C2H2-type"	28079	protein-coding gene	gene with protein product							Standard	NM_178167		Approved	FLJ00086	uc002cof.2	Q86UK7		ENST00000431526.1:c.74A>G	16.37:g.2059674T>C	ENSP00000411409:p.Glu25Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IW49|Q8N3D9|Q96FG3|Q9H7J3	Missense_Mutation	SNP	ENST00000431526.1	37		2168	0.9926739926739927	487	0.9898373983739838	361	0.9972375690607734	568	0.993006993006993	752	0.9920844327176781	N	1.560	-0.537056	0.04082	.	.	ENSG00000167962	ENST00000431526	T	0.77098	-1.07	3.3	3.3	0.37823	.	0.415485	0.23105	N	0.051871	T	0.00012	0.0000	.	.	.	0.48696	P	3.1000000000003247E-4	.	.	.	.	.	.	T	0.34650	-0.9820	6	0.22706	T	0.39	-7.8624	8.393	0.32540	0.0:0.8796:0.0:0.1204	.	.	.	.	G	25	ENSP00000411409:E25G	ENSP00000411409:E25G	E	-	2	0	ZNF598	1999675	1.000000	0.71417	1.000000	0.80357	0.107000	0.19398	0.911000	0.28584	0.691000	0.31592	-0.642000	0.03964	GAA		0.766	ZNF598-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_178167		C	2059674	T	C	2059674	3	2	595	1	0	0	0	0	1	0	0	0	18040	1770	62	3	2689	3	ZNF598	16	2059674	Missense_Mutation	SNP	T	TCGA-G7-7502-01A-11D-2201-08	1213977	2059674	88295079	68	35528										
C16orf59	80178	hgsc.bcm.edu	37	chr16	2511166	2511166	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ggggcgggcctcagggaccaGcaaatggccccatccgctgc	15	15	1	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr16:2511166G>C	ENST00000361837.4	+	4	611	c.546G>C	c.(544-546)caG>caC	p.Q182H	C16orf59_ENST00000569496.1_Missense_Mutation_p.Q182H|C16orf59_ENST00000483320.1_Missense_Mutation_p.Q15H|C16orf59_ENST00000563531.1_Missense_Mutation_p.Q182H|RP11-715J22.4_ENST00000566085.1_lincRNA	NM_025108.2	NP_079384.2	Q7L2K0	CP059_HUMAN	chromosome 16 open reading frame 59	182										lung(1)|skin(1)|urinary_tract(1)	3		Ovarian(90;0.17)				TCAGGGACCAGCAAATGGCCC	0.667																																																0													10	13	12					16																	2511166		1889	4101	5990	SO:0001583	missense	80178			AK023971	CCDS10468.2	16p13.3	2008-10-30			ENSG00000162062	ENSG00000162062			25849	protein-coding gene	gene with protein product						12477932	Standard	XM_006720955		Approved	FLJ13909	uc002cqh.3	Q7L2K0	OTTHUMG00000128859	ENST00000361837.4:c.546G>C	16.37:g.2511166G>C	ENSP00000355022:p.Gln182His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DXD7|Q96H61|Q9H872	Missense_Mutation	SNP	ENST00000361837.4	37	CCDS10468.2	.	.	.	.	.	.	.	.	.	.	G	14.25	2.479988	0.44044	.	.	ENSG00000162062	ENST00000361837	T	0.49432	0.78	3.42	-0.616	0.11583	.	0.610181	0.13837	N	0.359307	T	0.54175	0.1842	M	0.62723	1.935	0.09310	N	1	D;P;P;D	0.60160	0.987;0.95;0.95;0.983	P;P;P;P	0.58391	0.838;0.712;0.712;0.785	T	0.46005	-0.9222	10	0.66056	D	0.02	-1.5097	6.6308	0.22855	0.459:0.0:0.541:0.0	.	15;182;15;15	Q7L2K0-3;Q7L2K0;D3DU95;Q7L2K0-2	.;CP059_HUMAN;.;.	H	182	ENSP00000355022:Q182H	ENSP00000355022:Q182H	Q	+	3	2	C16orf59	2451167	0.001000	0.12720	0.003000	0.11579	0.019000	0.09904	0.419000	0.21247	-0.125000	0.11703	-0.345000	0.07892	CAG		0.667	C16orf59-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250802.3	NM_025108		C	2511166	G	C	2511166	3	2	595	1	0	0	0	0	1	0	0	0	1825	962	34	4	560	4	C16orf59	16	2511166	Missense_Mutation	SNP	G	TCGA-G7-7502-01A-11D-2201-08	451492	2511166	87843587	69	35529										
ACSM2A	123876	hgsc.bcm.edu;broad.mit.edu	37	chr16	20482481	20482481	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tagtgggaccagtggtcttcCcaagatggcagaacattcct	11	10	1	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr16:20482481C>G	ENST00000573854.1	+	5	797	c.683C>G	c.(682-684)cCc>cGc	p.P228R	ACSM2A_ENST00000417235.2_Missense_Mutation_p.P149R|ACSM2A_ENST00000219054.6_Missense_Mutation_p.P228R|ACSM2A_ENST00000575558.1_3'UTR|ACSM2A_ENST00000536134.1_Intron|ACSM2A_ENST00000575690.1_Missense_Mutation_p.P228R|ACSM2A_ENST00000396104.2_Missense_Mutation_p.P228R	NM_001010845.2	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member 2A	228					fatty acid metabolic process (GO:0006631)|glucose homeostasis (GO:0042593)|medium-chain fatty-acyl-CoA metabolic process (GO:0036112)|triglyceride homeostasis (GO:0070328)	mitochondrion (GO:0005739)	ATP binding (GO:0005524)|butyrate-CoA ligase activity (GO:0047760)|metal ion binding (GO:0046872)			breast(2)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(3)|lung(34)|ovary(1)|skin(6)|stomach(1)	51						AGTGGTCTTCCCAAGATGGCA	0.507																																																0													88	81	84					16																	20482481		2202	4280	6482	SO:0001583	missense	123876			AK091878, AK096039	CCDS32401.1	16p12.3	2014-08-08	2007-06-20	2007-06-20	ENSG00000183747	ENSG00000183747		"Acyl-CoA synthetase family"	32017	protein-coding gene	gene with protein product		614358	"acyl-CoA synthetase medium-chain family member 2"	ACSM2			Standard	NM_001010845		Approved	A-923A4.1, MGC150530	uc010bwe.3	Q08AH3	OTTHUMG00000177401	ENST00000573854.1:c.683C>G	16.37:g.20482481C>G	ENSP00000459451:p.Pro228Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B3KTT9|O75202	Missense_Mutation	SNP	ENST00000573854.1	37	CCDS32401.1	.	.	.	.	.	.	.	.	.	.	C	15.93	2.977023	0.53720	.	.	ENSG00000183747	ENST00000417235;ENST00000219054;ENST00000396104	D;D;D	0.85013	-1.93;-1.93;-1.93	4.04	4.04	0.47022	AMP-dependent synthetase/ligase (1);AMP-binding, conserved site (1);	0.000000	0.46758	D	0.000276	D	0.93044	0.7786	M	0.90309	3.105	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.94275	0.7514	10	0.87932	D	0	-15.3933	13.1463	0.59463	0.0:1.0:0.0:0.0	.	149;228	B7Z8R0;Q08AH3	.;ACS2A_HUMAN	R	149;228;228	ENSP00000392169:P149R;ENSP00000219054:P228R;ENSP00000379411:P228R	ENSP00000219054:P228R	P	+	2	0	ACSM2A	20389982	0.994000	0.37717	0.968000	0.41197	0.633000	0.38033	5.357000	0.66058	1.796000	0.52611	0.298000	0.19748	CCC		0.507	ACSM2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000436764.1	NM_001010845		G	20482481	C	G	20482481	3	3	595	1	0	0	0	0	1	0	0	0	183	623	22	4	697	4	ACSM2A	16	20482481	Missense_Mutation	SNP	C	TCGA-G7-7502-01A-11D-2201-08	17971315	20482481	69872272	70	35530										
KIAA0556	23247	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	27761006	27761006	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ccctcagtgccttcgaccgcTcccaccggggacgcatctcc	9	20	2	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr16:27761006T>A	ENST00000261588.4	+	16	2744	c.2725T>A	c.(2725-2727)Tcc>Acc	p.S909T		NM_015202.2	NP_056017.2	O60303	K0556_HUMAN	KIAA0556	909						extracellular space (GO:0005615)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(4)|endometrium(7)|kidney(8)|large_intestine(17)|lung(24)|ovary(5)|prostate(3)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	76						CTTCGACCGCTCCCACCGGGG	0.637																																																0													63	60	61					16																	27761006		2197	4300	6497	SO:0001583	missense	23247			AB011128	CCDS32415.1	16p12.1-p11.2	2012-11-30			ENSG00000047578	ENSG00000047578			29068	protein-coding gene	gene with protein product						9628581	Standard	NM_015202		Approved		uc002dow.3	O60303	OTTHUMG00000176780	ENST00000261588.4:c.2725T>A	16.37:g.27761006T>A	ENSP00000261588:p.Ser909Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2C2	Missense_Mutation	SNP	ENST00000261588.4	37	CCDS32415.1	.	.	.	.	.	.	.	.	.	.	T	18.42	3.620080	0.66787	.	.	ENSG00000047578	ENST00000261588	T	0.10382	2.88	4.7	3.58	0.41010	.	0.196895	0.45606	D	0.000352	T	0.10465	0.0256	L	0.53249	1.67	0.25290	N	0.989366	P	0.47545	0.897	P	0.45639	0.488	T	0.06373	-1.0830	10	0.06365	T	0.9	-22.2078	6.7315	0.23385	0.0:0.0832:0.161:0.7558	.	909	O60303	K0556_HUMAN	T	909	ENSP00000261588:S909T	ENSP00000261588:S909T	S	+	1	0	KIAA0556	27668507	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	2.876000	0.48498	0.738000	0.32606	0.533000	0.62120	TCC		0.637	KIAA0556-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000433724.1	NM_015202		A	27761006	T	A	27761006	3	1	595	1	0	0	0	0	1	0	0	0	8190	1551	54	5	2787	5	KIAA0556	16	27761006	Missense_Mutation	SNP	T	TCGA-G7-7502-01A-11D-2201-08	7278525	27761006	62593747	71	35531										
SEZ6L2	26470	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	29884867	29884867	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ccccagactcacaggcgcatTtggggaccctatcgctccac	9	17	1	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr16:29884867T>A	ENST00000308713.5	-	13	2815	c.2288A>T	c.(2287-2289)aAa>aTa	p.K763I	SEZ6L2_ENST00000346932.5_Missense_Mutation_p.K649I|SEZ6L2_ENST00000350527.3_Missense_Mutation_p.K693I|SEZ6L2_ENST00000537485.1_Missense_Mutation_p.K719I	NM_001114099.2|NM_201575.3	NP_001107571.1|NP_963869.2	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2	763	Sushi 4. {ECO:0000255|PROSITE- ProRule:PRU00302}.				adult locomotory behavior (GO:0008344)|cerebellar Purkinje cell layer development (GO:0021680)|regulation of protein kinase C signaling (GO:0090036)|synapse maturation (GO:0060074)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)				breast(2)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(10)|lung(16)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	39						ACAGGCGCATTTGGGGACCCT	0.667																																																0													60	55	57					16																	29884867		2197	4300	6497	SO:0001583	missense	26470			AY358404	CCDS10658.1, CCDS10659.1, CCDS45458.1, CCDS58447.1, CCDS73865.1	16p12.1	2008-02-05			ENSG00000174938	ENSG00000174938			30844	protein-coding gene	gene with protein product	"type I transmembrane receptor (seizure related protein)"					12975309	Standard	NM_012410		Approved	PSK-1, FLJ90517	uc010vec.2	Q6UXD5	OTTHUMG00000132112	ENST00000308713.5:c.2288A>T	16.37:g.29884867T>A	ENSP00000312550:p.Lys763Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z1N0|F5H293|H7BXQ6|Q9BW82|Q9UJ45|Q9UJ46|Q9UJ47	Missense_Mutation	SNP	ENST00000308713.5	37	CCDS10659.1	.	.	.	.	.	.	.	.	.	.	T	21.4	4.145084	0.77888	.	.	ENSG00000174938	ENST00000350527;ENST00000308713;ENST00000346932;ENST00000537485	T;T;T;T	0.65732	-0.17;-0.17;-0.17;-0.17	4.67	4.67	0.58626	Complement control module (2);Sushi/SCR/CCP (3);	0.000000	0.49916	D	0.000135	T	0.66742	0.2820	L	0.28556	0.865	0.80722	D	1	D;D;D;D;D;D	0.89917	1.0;1.0;0.999;0.999;0.999;1.0	D;D;D;D;D;D	0.91635	0.997;0.999;0.996;0.998;0.998;0.999	T	0.63088	-0.6715	10	0.23891	T	0.37	.	13.1007	0.59218	0.0:0.0:0.0:1.0	.	719;763;649;693;763;693	F5H293;B7Z5L4;Q9BW82;Q6UXD5-2;Q6UXD5;Q6UXD5-3	.;.;.;.;SE6L2_HUMAN;.	I	693;763;649;719	ENSP00000310206:K693I;ENSP00000312550:K763I;ENSP00000319215:K649I;ENSP00000439412:K719I	ENSP00000312550:K763I	K	-	2	0	SEZ6L2	29792368	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	5.939000	0.70179	1.737000	0.51674	0.533000	0.62120	AAA		0.667	SEZ6L2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000255154.2	NM_012410		A	29884867	T	A	29884867	3	1	595	1	0	0	0	0	1	0	0	0	14157	1841	64	5	507	5	SEZ6L2	16	29884867	Missense_Mutation	SNP	T	TCGA-G7-7502-01A-11D-2201-08	2123861	29884867	60469886	72	35532										
HEATR3	55027	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	50104088	50104088	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	aatcatgatatttggttacaGtgtagtgctggactggattc	11	5	1	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr16:50104088G>A	ENST00000299192.7	+	4	590		c.e4-1		HEATR3_ENST00000285767.4_Splice_Site	NM_182922.2	NP_891552.1	Q7Z4Q2	HEAT3_HUMAN	HEAT repeat containing 3											cervix(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(9)|ovary(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(2)	28						TTTGGTTACAGTGTAGTGCTG	0.383																																																0													86	83	84					16																	50104088		2198	4300	6498	SO:0001630	splice_region_variant	55027			BC018730	CCDS10739.1	16q12.1	2008-02-05			ENSG00000155393	ENSG00000155393			26087	protein-coding gene	gene with protein product		614951				12477932	Standard	XM_005256013		Approved	FLJ20718	uc002efw.3	Q7Z4Q2	OTTHUMG00000133174	ENST00000299192.7:c.400-1G>A	16.37:g.50104088G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1N4|Q8N525|Q8WV56|Q96CC9|Q9NWN7	Splice_Site	SNP	ENST00000299192.7	37	CCDS10739.1	.	.	.	.	.	.	.	.	.	.	G	20.6	4.012741	0.75161	.	.	ENSG00000155393	ENST00000285767;ENST00000299192	.	.	.	6.03	6.03	0.97812	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	19.545	0.95291	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	HEATR3	48661589	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	6.402000	0.73260	2.861000	0.98227	0.655000	0.94253	.		0.383	HEATR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256880.2	NM_182922	Intron	A	50104088	G	A	50104088	5	1	595	1	0	0	0	0	0	0	1	0	7036	1043	36	2	413	2	HEATR3	16	50104088	Splice_Site	SNP	G	TCGA-G7-7502-01A-11D-2201-08	20219221	50104088	40250665	73	35533										
AMFR	267	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	56401438	56401438	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	caggtctgatgctatctgacCgctggaagagaaacagtacc	11	10	2	3			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr16:56401438C>A	ENST00000290649.5	-	12	1727	c.1517G>T	c.(1516-1518)cGg>cTg	p.R506L		NM_001144.5	NP_001135.3	Q9UKV5	AMFR_HUMAN	autocrine motility factor receptor, E3 ubiquitin protein ligase	506					aging (GO:0007568)|cellular component movement (GO:0006928)|endoplasmic reticulum unfolded protein response (GO:0030968)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|learning or memory (GO:0007611)|protein oligomerization (GO:0051259)|protein polyubiquitination (GO:0000209)|signal transduction (GO:0007165)|ubiquitin-dependent protein catabolic process (GO:0006511)	dendrite (GO:0030425)|endoplasmic reticulum membrane (GO:0005789)|growth cone (GO:0030426)|Hrd1p ubiquitin ligase complex (GO:0000836)|integral component of endoplasmic reticulum membrane (GO:0030176)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|protein complex (GO:0043234)	ligase activity (GO:0016874)|receptor activity (GO:0004872)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|endometrium(1)|kidney(1)|large_intestine(4)|lung(6)|skin(1)|upper_aerodigestive_tract(1)	17						GCTATCTGACCGCTGGAAGAG	0.498																																					Pancreas(2;144 323 39528)											0													248	233	238					16																	56401438		2198	4300	6498	SO:0001630	splice_region_variant	267			L35233	CCDS10758.1	16q21	2013-01-09	2012-02-23		ENSG00000159461	ENSG00000159461		"RING-type (C3HC4) zinc fingers"	463	protein-coding gene	gene with protein product		603243	"autocrine motility factor receptor"			1649192	Standard	NM_001144		Approved	RNF45, gp78	uc002eiy.4	Q9UKV5	OTTHUMG00000133239	ENST00000290649.5:c.1516-1G>T	16.37:g.56401438C>A		Somatic		WXS	Illumina HiSeq	Phase_I	P26442|Q8IZ70	Missense_Mutation	SNP	ENST00000290649.5	37	CCDS10758.1	.	.	.	.	.	.	.	.	.	.	C	14.69	2.611801	0.46631	.	.	ENSG00000159461	ENST00000290649	T	0.14391	2.51	5.8	5.8	0.92144	.	0.234971	0.44483	D	0.000455	T	0.15998	0.0385	M	0.63428	1.95	0.80722	D	1	B;P	0.37985	0.415;0.613	B;B	0.28709	0.089;0.093	T	0.02208	-1.1195	10	0.34782	T	0.22	-24.0104	18.2436	0.89977	0.0:1.0:0.0:0.0	.	506;155	Q9UKV5;Q1RN03	AMFR2_HUMAN;.	L	506	ENSP00000290649:R506L	ENSP00000290649:R506L	R	-	2	0	AMFR	54958939	1.000000	0.71417	1.000000	0.80357	0.452000	0.32318	3.487000	0.53222	2.735000	0.93741	0.655000	0.94253	CGG		0.498	AMFR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256978.2		Missense_Mutation	A	56401438	C	A	56401438	5	1	595	1	0	0	0	0	0	0	1	0	571	666	23	4	426	4	AMFR	16	56401438	Splice_Site	SNP	C	TCGA-G7-7502-01A-11D-2201-08	6297350	56401438	33953315	74	35534										
HYDIN	54768	hgsc.bcm.edu;broad.mit.edu	37	chr16	70866949	70866949	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	atggagaaatgaggctcaaaTtttttgatgtcccatttaaa	8	5	1	3			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr16:70866949T>A	ENST00000393567.2	-	80	13851	c.13701A>T	c.(13699-13701)aaA>aaT	p.K4567N		NM_001270974.1	NP_001257903.1	Q4G0P3	HYDIN_HUMAN	HYDIN, axonemal central pair apparatus protein	4567					cilium assembly (GO:0042384)|cilium movement (GO:0003341)|epithelial cell development (GO:0002064)|trachea development (GO:0060438)|ventricular system development (GO:0021591)	cell projection (GO:0042995)				breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(17)|lung(12)|ovary(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)	43		Ovarian(137;0.0654)				GAGGCTCAAATTTTTTGATGT	0.413																																																0													14	14	14					16																	70866949		1811	4061	5872	SO:0001583	missense	54768			AK074472	CCDS10897.1, CCDS56004.1, CCDS56005.1, CCDS59269.1	16q22.2	2014-02-05	2012-01-06		ENSG00000157423	ENSG00000157423		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	19368	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 31"	610812	"hydrocephalus inducing", "hydrocephalus inducing homolog (mouse)"			12719380, 23022101	Standard	NM_001198542		Approved	DKFZp434D0513, KIAA1864, PPP1R31, CILD5	uc031qwy.1	Q4G0P3	OTTHUMG00000137584	ENST00000393567.2:c.13701A>T	16.37:g.70866949T>A	ENSP00000377197:p.Lys4567Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A6NC70|A6NLZ0|B4DQY4|B4DRN4|F5H6V3|Q8N3H8|Q8N3P6|Q8TC08|Q96JG3|Q96SS4|Q9H5U3|Q9H9B8|Q9NTI0|Q9UBE5	Missense_Mutation	SNP	ENST00000393567.2	37	CCDS59269.1	.	.	.	.	.	.	.	.	.	.	T	15.28	2.787649	0.49997	.	.	ENSG00000157423	ENST00000393567;ENST00000316490	T	0.01099	5.34	4.62	-0.806	0.10875	.	0.437992	0.16234	U	0.223455	T	0.02888	0.0086	M	0.74258	2.255	0.09310	N	1	D	0.56968	0.978	P	0.61070	0.883	T	0.40515	-0.9559	10	0.23891	T	0.37	.	1.6269	0.02724	0.1205:0.2403:0.3257:0.3135	.	4566	F8WD23	.	N	4567;4566	ENSP00000377197:K4567N	ENSP00000313052:K4566N	K	-	3	2	HYDIN	69424450	0.181000	0.23161	0.011000	0.14972	0.919000	0.55068	-0.435000	0.06931	-0.520000	0.06435	-0.473000	0.04963	AAA		0.413	HYDIN-001	PUTATIVE	not_organism_supported|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000398624.3			A	70866949	T	A	70866949	3	1	595	1	0	0	0	0	1	0	0	0	7474	1490	52	5	1692	5	HYDIN	16	70866949	Missense_Mutation	SNP	T	TCGA-G7-7502-01A-11D-2201-08	14465511	70866949	19487804	75	35535										
GRB7	2886	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	37898588	37898588	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tgtctccacctcatcttagcAgctctccggaagacctttgc	7	15	4	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr17:37898588A>G	ENST00000309156.4	+	2	291	c.34A>G	c.(34-36)Agc>Ggc	p.S12G	GRB7_ENST00000578702.1_3'UTR|GRB7_ENST00000445327.2_Missense_Mutation_p.S35G|GRB7_ENST00000394211.3_Missense_Mutation_p.S12G|GRB7_ENST00000309185.3_Missense_Mutation_p.S12G|GRB7_ENST00000394204.1_Missense_Mutation_p.S12G|GRB7_ENST00000394209.2_Missense_Mutation_p.S12G	NM_005310.3	NP_005301.2	Q14451	GRB7_HUMAN	growth factor receptor-bound protein 7	12					blood coagulation (GO:0007596)|epidermal growth factor receptor signaling pathway (GO:0007173)|leukocyte migration (GO:0050900)|negative regulation of translation (GO:0017148)|positive regulation of cell migration (GO:0030335)|positive regulation of signal transduction (GO:0009967)|stress granule assembly (GO:0034063)	cell projection (GO:0042995)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|plasma membrane (GO:0005886)	identical protein binding (GO:0042802)|phosphatidylinositol binding (GO:0035091)|protein kinase binding (GO:0019901)|RNA binding (GO:0003723)|SH3/SH2 adaptor activity (GO:0005070)			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	18	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;6.86e-60)|all cancers(3;1.65e-53)|BRCA - Breast invasive adenocarcinoma(8;2.03e-43)|STAD - Stomach adenocarcinoma(3;1.43e-12)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			TCATCTTAGCAGCTCTCCGGA	0.617																																																0													154	151	152					17																	37898588		2203	4300	6503	SO:0001583	missense	2886			D43772	CCDS11345.1, CCDS56028.1	17q12	2013-02-14			ENSG00000141738	ENSG00000141738		"Pleckstrin homology (PH) domain containing", "SH2 domain containing"	4567	protein-coding gene	gene with protein product		601522					Standard	NM_005310		Approved		uc021twu.1	Q14451	OTTHUMG00000133253	ENST00000309156.4:c.34A>G	17.37:g.37898588A>G	ENSP00000310771:p.Ser12Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAV1|B3KNL0|B3KWP9|B7WP75|J3KQM4|Q53YD3|Q92568|Q96DF9|Q9Y220	Missense_Mutation	SNP	ENST00000309156.4	37	CCDS11345.1	.	.	.	.	.	.	.	.	.	.	A	7.773	0.707831	0.15239	.	.	ENSG00000141738	ENST00000309185;ENST00000309156;ENST00000394211;ENST00000394209;ENST00000445327;ENST00000394204	T;T;T;T;T;T	0.46819	0.86;0.86;0.86;0.86;0.86;0.86	4.61	4.61	0.57282	.	0.366448	0.26349	N	0.024892	T	0.38585	0.1046	L	0.47716	1.5	0.27860	N	0.940439	B;B	0.28971	0.229;0.043	B;B	0.29176	0.099;0.037	T	0.24404	-1.0161	10	0.21540	T	0.41	-25.7351	10.4148	0.44316	1.0:0.0:0.0:0.0	.	12;12	Q14451-2;Q14451	.;GRB7_HUMAN	G	12;12;12;12;35;12	ENSP00000311752:S12G;ENSP00000310771:S12G;ENSP00000377761:S12G;ENSP00000377759:S12G;ENSP00000403459:S35G;ENSP00000377754:S12G	ENSP00000310771:S12G	S	+	1	0	GRB7	35152114	1.000000	0.71417	0.981000	0.43875	0.110000	0.19582	4.739000	0.62080	1.718000	0.51419	0.459000	0.35465	AGC		0.617	GRB7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257024.2	NM_005310		G	37898588	A	G	37898588	3	3	595	1	0	0	0	0	1	0	0	0	6766	188	7	3	36	3	GRB7	17	37898588	Missense_Mutation	SNP	A	TCGA-G7-7502-01A-11D-2201-08		37898588	43296622	76	35536										
KRT13	3860	broad.mit.edu	37	chr17	39658827	39658827	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ggcactccgtctctgccaccGtgttctccagccccgctttc	8	19	2	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr17:39658827G>A	ENST00000246635.3	-	6	1089	c.1043C>T	c.(1042-1044)aCg>aTg	p.T348M	AC019349.5_ENST00000411759.1_RNA|KRT13_ENST00000587544.1_Missense_Mutation_p.T348M|KRT13_ENST00000587118.1_5'Flank|KRT13_ENST00000336861.3_Missense_Mutation_p.T348M	NM_153490.2	NP_705694	P13646	K1C13_HUMAN	keratin 13	348	Coil 2.|Rod.				cellular response to retinoic acid (GO:0071300)|cytoskeleton organization (GO:0007010)|response to radiation (GO:0009314)|tongue morphogenesis (GO:0043587)	extracellular vesicular exosome (GO:0070062)|intermediate filament cytoskeleton (GO:0045111)|keratin filament (GO:0045095)|nucleus (GO:0005634)	structural molecule activity (GO:0005198)			NS(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(10)|ovary(2)|pancreas(1)|prostate(2)|skin(4)|urinary_tract(1)	33		Breast(137;0.000286)				CTCTGCCACCGTGTTCTCCAG	0.632																																																0													85	76	79					17																	39658827		2203	4300	6503	SO:0001583	missense	3860				CCDS11396.1, CCDS11397.1	17q21.2	2013-06-20			ENSG00000171401	ENSG00000171401		"-", "Intermediate filaments type I, keratins (acidic)"	6415	protein-coding gene	gene with protein product	"keratin, type I cytoskeletal 13", "cytokeratin 13"	148065				16831889	Standard	NM_153490		Approved	K13, CK13, MGC3781, MGC161462	uc002hwu.1	P13646	OTTHUMG00000133434	ENST00000246635.3:c.1043C>T	17.37:g.39658827G>A	ENSP00000246635:p.Thr348Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q53G54|Q6AZK5|Q8N240	Missense_Mutation	SNP	ENST00000246635.3	37	CCDS11396.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	11.94|11.94	1.789143|1.789143	0.31685|0.31685	.|.	.|.	ENSG00000171401|ENSG00000171401	ENST00000157775|ENST00000246635;ENST00000336861	.|D;D	.|0.89415	.|-2.51;-2.51	4.45|4.45	4.45|4.45	0.53987|0.53987	.|Filament (1);	.|0.451868	.|0.18101	.|N	.|0.151665	.|D	.|0.93559	.|0.7944	M|M	0.77616|0.77616	2.38|2.38	0.09310|0.09310	N|N	1|1	.|D;D;D;D	.|0.89917	.|1.0;0.999;0.999;0.999	.|D;D;D;D	.|0.67900	.|0.954;0.953;0.921;0.953	.|D	.|0.87051	.|0.2147	.|10	.|0.87932	.|D	.|0	.|.	13.5215|13.5215	0.61569|0.61569	0.0:0.0:0.7766:0.2234|0.0:0.0:0.7766:0.2234	.|.	.|336;348;348;348	.|P13646-2;A1A4E9;P13646-3;P13646	.|.;.;.;K1C13_HUMAN	.|M	-1|348	.|ENSP00000246635:T348M;ENSP00000336604:T348M	.|ENSP00000246635:T348M	.|T	-|-	.|2	.|0	KRT13|KRT13	36912353|36912353	0.254000|0.254000	0.23992|0.23992	0.463000|0.463000	0.27130|0.27130	0.221000|0.221000	0.24807|0.24807	3.044000|3.044000	0.49830|0.49830	2.460000|2.460000	0.83146|0.83146	0.478000|0.478000	0.44815|0.44815	.|ACG		0.632	KRT13-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257297.1	NM_153490		A	39658827	G	A	39658827	3	1	595	1	0	0	0	0	1	0	0	0	8457	1145	40	1	345	1	KRT13	17	39658827	Missense_Mutation	SNP	G	TCGA-G7-7502-01A-11D-2201-08	1760239	39658827	41536383	77	35537										
CDC27	996	hgsc.bcm.edu	37	chr17	45234484	45234484	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	agattctaaattcaatctgtTtaattcctgaaacagaaaat	4	6	3	3	rs202100614		TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr17:45234484T>C	ENST00000066544.3	-	7	730	c.637A>G	c.(637-639)Aac>Gac	p.N213D	CDC27_ENST00000527547.1_Missense_Mutation_p.N213D|CDC27_ENST00000528748.1_5'UTR|CDC27_ENST00000446365.2_Missense_Mutation_p.N152D|CDC27_ENST00000531206.1_Missense_Mutation_p.N213D	NM_001114091.1|NM_001256.3	NP_001107563.1|NP_001247.3	P30260	CDC27_HUMAN	cell division cycle 27	213					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|cell proliferation (GO:0008283)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|mitotic cell cycle (GO:0000278)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K11-linked ubiquitination (GO:0070979)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	anaphase-promoting complex (GO:0005680)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle (GO:0005819)	protein phosphatase binding (GO:0019903)			NS(1)|breast(5)|central_nervous_system(3)|cervix(1)|endometrium(2)|kidney(17)|large_intestine(18)|lung(11)|ovary(5)|pancreas(1)|prostate(19)|skin(5)|upper_aerodigestive_tract(2)	90						TTCAATCTGTTTAATTCCTGA	0.294																																																0																																										SO:0001583	missense	996			U00001	CCDS11509.1, CCDS45720.1, CCDS74090.1	17q21.32	2013-01-17	2013-01-17		ENSG00000004897	ENSG00000004897		"Anaphase promoting complex subunits", "Tetratricopeptide (TTC) repeat domain containing"	1728	protein-coding gene	gene with protein product	"anaphase promoting complex subunit 3"	116946	"cell division cycle 27", "cell division cycle 27 homolog (S. cerevisiae)"	D0S1430E, D17S978E		8234252	Standard	XM_005257892		Approved	APC3, ANAPC3, NUC2	uc002ile.4	P30260	OTTHUMG00000166429	ENST00000066544.3:c.637A>G	17.37:g.45234484T>C	ENSP00000066544:p.Asn213Asp	Somatic		WXS	Illumina HiSeq	Phase_I	G3V1C4|Q16349|Q96F35	Missense_Mutation	SNP	ENST00000066544.3	37	CCDS11509.1	.	.	.	.	.	.	.	.	.	.	T	17.58	3.424821	0.62733	.	.	ENSG00000004897	ENST00000066544;ENST00000531206;ENST00000446365;ENST00000527547;ENST00000526866	T;T;T;T;T	0.67698	-0.24;-0.28;-0.04;-0.24;0.82	5.82	5.82	0.92795	.	0.000000	0.85682	D	0.000000	T	0.49423	0.1556	N	0.24115	0.695	0.58432	D	0.999999	B;B;B;B	0.33379	0.41;0.011;0.006;0.167	B;B;B;B	0.23275	0.045;0.004;0.006;0.045	T	0.50021	-0.8876	10	0.30078	T	0.28	-15.7847	14.1506	0.65381	0.0:0.0:0.0:1.0	.	152;213;213;213	B4DL80;G5EA36;G3V1C4;P30260	.;.;.;CDC27_HUMAN	D	213;213;152;213;213	ENSP00000066544:N213D;ENSP00000434614:N213D;ENSP00000392802:N152D;ENSP00000437339:N213D;ENSP00000432105:N213D	ENSP00000066544:N213D	N	-	1	0	CDC27	42589483	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.522000	0.81844	2.227000	0.72691	0.455000	0.32223	AAC		0.294	CDC27-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000389742.2			C	45234484	T	C	45234484	3	2	595	1	0	0	0	0	1	0	0	0	3068	1841	64	3	1907	3	CDC27	17	45234484	Missense_Mutation	SNP	T	TCGA-G7-7502-01A-11D-2201-08	5575657	45234484	35960726	78	35538										
CDK5RAP3	80279	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	46058013	46058013	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tgagtgaggaggcagatgtcCtgtctgtgagccagttccag	15	8	1	4			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr17:46058013C>T	ENST00000338399.4	+	12	1238	c.1132C>T	c.(1132-1134)Ctg>Ttg	p.L378L	RP11-6N17.10_ENST00000578239.1_RNA|CDK5RAP3_ENST00000536708.2_Silent_p.L403L|CDK5RAP3_ENST00000578663.1_3'UTR	NM_176096.1	NP_788276.1	Q96JB5	CK5P3_HUMAN	CDK5 regulatory subunit associated protein 3	378					brain development (GO:0007420)|protein ufmylation (GO:0071569)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of neuron differentiation (GO:0045664)	membrane (GO:0016020)	protein kinase binding (GO:0019901)			NS(1)|central_nervous_system(2)|cervix(3)|endometrium(3)|large_intestine(2)|lung(5)|prostate(1)|skin(1)	18						GGCAGATGTCCTGTCTGTGAG	0.527																																																0													182	184	183					17																	46058013		2092	4207	6299	SO:0001819	synonymous_variant	80279			AF110322	CCDS42356.1, CCDS62232.1	17q21.2	2008-07-18				ENSG00000108465			18673	protein-coding gene	gene with protein product	"ischemic heart CDK5 activator-binding protein C53", "LXXLL/leucine-zipper-containing ARFbinding protein"	608202				10721722	Standard	NM_176096		Approved	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP	uc010wlc.3	Q96JB5		ENST00000338399.4:c.1132C>T	17.37:g.46058013C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6N4|D3DTU1|D3DTU2|F5H3I5|Q53FA2|Q9H3F8|Q9H8G0|Q9HBR9	Silent	SNP	ENST00000338399.4	37	CCDS42356.1																																																																																				0.527	CDK5RAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000442913.1	NM_176096		T	46058013	C	T	46058013	2	4	595	1	0	0	0	0	0	0	0	1	3149	680	24	2		2	CDK5RAP3	17	46058013	Silent	SNP	C	TCGA-G7-7502-01A-11D-2201-08	823529	46058013	35137197	79	35539										
RANBP3	8498	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	5941706	5941706	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	gagggcagtaatttccatctTctctgtcagaatctacagaa	8	9	4	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr19:5941706T>C	ENST00000340578.6	-	5	389	c.332A>G	c.(331-333)gAa>gGa	p.E111G	RANBP3_ENST00000034275.8_Missense_Mutation_p.E43G|RANBP3_ENST00000591124.1_5'UTR|RANBP3_ENST00000439268.2_Missense_Mutation_p.E111G|RANBP3_ENST00000591092.1_Missense_Mutation_p.E43G|RANBP3_ENST00000541471.1_Intron	NM_003624.2|NM_007320.2|NM_007322.2	NP_003615.2|NP_015559.2|NP_015561.1	Q9H6Z4	RANB3_HUMAN	RAN binding protein 3	111					intracellular transport (GO:0046907)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	R-SMAD binding (GO:0070412)|Ran GTPase binding (GO:0008536)			breast(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(6)|ovary(3)|upper_aerodigestive_tract(1)	18						ATTTCCATCTTCTCTGTCAGA	0.423																																																0													161	152	155					19																	5941706		1912	4133	6045	SO:0001583	missense	8498			Y08698	CCDS42477.1, CCDS42478.1, CCDS45935.1, CCDS74268.1	19p13.3	2008-02-05							9850	protein-coding gene	gene with protein product		603327				9637251	Standard	NM_007322		Approved		uc002mdw.3	Q9H6Z4		ENST00000340578.6:c.332A>G	19.37:g.5941706T>C	ENSP00000341483:p.Glu111Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAT8|O60405|O75759|O75760|Q9BT47|Q9UG74	Missense_Mutation	SNP	ENST00000340578.6	37	CCDS42478.1	.	.	.	.	.	.	.	.	.	.	T	18.44	3.625162	0.66901	.	.	ENSG00000031823	ENST00000340578;ENST00000439268;ENST00000034275;ENST00000324807	T;T;T	0.38887	1.11;1.15;1.83	5.26	5.26	0.73747	.	0.096682	0.64402	D	0.000001	T	0.46171	0.1379	N	0.24115	0.695	0.80722	D	1	D;D;D;D	0.58268	0.97;0.982;0.982;0.97	P;P;P;P	0.60345	0.683;0.832;0.873;0.749	T	0.47114	-0.9142	10	0.54805	T	0.06	-17.7103	13.15	0.59484	0.0:0.0:0.0:1.0	.	43;43;111;111	B7Z7F3;Q9H6Z4-3;Q9H6Z4-2;Q9H6Z4	.;.;.;RANB3_HUMAN	G	111;111;43;42	ENSP00000341483:E111G;ENSP00000404837:E111G;ENSP00000034275:E43G	ENSP00000034275:E43G	E	-	2	0	RANBP3	5892706	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	6.699000	0.74613	1.996000	0.58369	0.533000	0.62120	GAA		0.423	RANBP3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000452304.1	NM_007322		C	5941706	T	C	5941706	3	2	595	1	0	0	0	0	1	0	0	0	13042	1783	62	3	1423	3	RANBP3	19	5941706	Missense_Mutation	SNP	T	TCGA-G7-7502-01A-11D-2201-08		5941706	53187277	80	35540										
CLEC4M	10332	hgsc.bcm.edu	37	chr19	7830937	7830937	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	agatctaccaggagctgacgGagctgaaggctgcagtgggt	16	8	1	3	rs59002457	byFrequency	TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr19:7830937G>C	ENST00000327325.5	+	4	746	c.628G>C	c.(628-630)Gag>Cag	p.E210Q	CLEC4M_ENST00000596363.1_Missense_Mutation_p.E182Q|CLEC4M_ENST00000597522.1_Intron|CLEC4M_ENST00000394122.2_Missense_Mutation_p.E198Q|CLEC4M_ENST00000595496.1_Intron|CLEC4M_ENST00000248228.4_Missense_Mutation_p.E188Q|CLEC4M_ENST00000334806.5_Missense_Mutation_p.E159Q|CLEC4M_ENST00000357361.2_Missense_Mutation_p.E210Q|CLEC4M_ENST00000596707.1_Missense_Mutation_p.E189Q|CLEC4M_ENST00000359059.5_Missense_Mutation_p.E166Q	NM_001144909.1|NM_014257.4	NP_001138381.1|NP_055072.3	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M	210	7 X approximate tandem repeats.				antigen processing and presentation (GO:0019882)|cell-cell recognition (GO:0009988)|endocytosis (GO:0006897)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|intracellular transport of virus (GO:0075733)|leukocyte cell-cell adhesion (GO:0007159)|modulation by virus of host morphology or physiology (GO:0019048)|peptide antigen transport (GO:0046968)|regulation of blood coagulation (GO:0030193)|regulation of gene expression (GO:0010468)|viral genome replication (GO:0019079)|virion attachment to host cell (GO:0019062)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	carbohydrate binding (GO:0030246)|ICAM-3 receptor activity (GO:0030369)|mannose binding (GO:0005537)|metal ion binding (GO:0046872)|peptide antigen binding (GO:0042605)|receptor activity (GO:0004872)|virion binding (GO:0046790)	p.T209>?(1)		breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(10)|pancreas(1)|prostate(1)|skin(1)	26						GGAGCTGACGGAGCTGAAGGC	0.577													C|||	107	0.0213658	0.0015	0.0605	5008	,	,		16155	0.0109		0.0368	False		,,,				2504	0.0153															1	Complex(1)	large_intestine(1)											118	96	104					19																	7830937		2192	4023	6215	SO:0001583	missense	10332			AB015629	CCDS12187.1, CCDS59346.1, CCDS59347.1, CCDS59348.1	19p13	2008-02-05	2005-02-04	2005-02-11		ENSG00000104938		"C-type lectin domain containing", "CD molecules"	13523	protein-coding gene	gene with protein product		605872	"CD299 antigen"	CD209L, CD299		10072769	Standard	NM_001144904		Approved	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2	uc010dvt.3	Q9H2X3		ENST00000327325.5:c.628G>C	19.37:g.7830937G>C	ENSP00000316228:p.Glu210Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKI4|A8K8B3|Q69F40|Q969M4|Q96QP3|Q96QP4|Q96QP5|Q96QP6|Q9BXS3|Q9H2Q9|Q9H8F0|Q9Y2A8	Missense_Mutation	SNP	ENST00000327325.5	37	CCDS12187.1	.	.	.	.	.	.	.	.	.	.	C	0.003	-2.492474	0.00159	.	.	ENSG00000104938	ENST00000327325;ENST00000394122;ENST00000248228;ENST00000334806;ENST00000359059;ENST00000357361;ENST00000358690	T;T;T;T;T;T	0.21734	4.13;1.99;1.99;4.14;2.31;4.01	0.592	0.592	0.17471	.	.	.	.	.	T	0.03263	0.0095	N	0.00142	-2.005	0.09310	N	1	B;B;B;B;B;B;B	0.06786	0.0;0.0;0.0;0.001;0.0;0.0;0.001	B;B;B;B;B;B;B	0.19666	0.001;0.004;0.001;0.001;0.0;0.002;0.026	T	0.40757	-0.9546	8	0.02654	T	1	.	.	.	.	rs59002457	159;182;210;198;187;182;154	B4E2Z5;B4DNV9;Q9H2X3;E7ENS9;Q9H2X3-8;Q9H2X3-9;Q9H2X3-10	.;.;CLC4M_HUMAN;.;.;.;.	Q	210;198;188;159;166;210;154	ENSP00000316228:E210Q;ENSP00000377680:E198Q;ENSP00000248228:E188Q;ENSP00000335228:E159Q;ENSP00000351954:E166Q;ENSP00000349924:E210Q	ENSP00000248228:E188Q	E	+	1	0	CLEC4M	7736937	0.000000	0.05858	0.011000	0.14972	0.006000	0.05464	-1.133000	0.03232	-0.203000	0.10251	-0.463000	0.05309	GAG		0.577	CLEC4M-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000461161.1	NM_014257		C	7830937	G	C	7830937	3	2	595	1	0	0	0	0	1	0	0	0	3520	1175	41	4	663	4	CLEC4M	19	7830937	Missense_Mutation	SNP	G	TCGA-G7-7502-01A-11D-2201-08	1889231	7830937	51298046	81	35541										
HNRNPM	4670	ucsc.edu	37	chr19	8527467	8527467	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	cgctgaaggaaagtcaagggTaagtgtctgagagaatttct	13	5	3	3			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr19:8527467T>G	ENST00000325495.4	+	3	377		c.e3+2		HNRNPM_ENST00000348943.3_Splice_Site	NM_005968.4	NP_005959.2	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M						alternative mRNA splicing, via spliceosome (GO:0000380)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|extracellular matrix (GO:0031012)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|paraspeckles (GO:0042382)|spliceosomal complex (GO:0005681)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein domain specific binding (GO:0019904)|RNA binding (GO:0003723)			endometrium(5)|kidney(2)|large_intestine(7)|lung(10)|ovary(1)	25						AAGTCAAGGGTAAGTGTCTGA	0.428																																																0													241	220	227					19																	8527467		2203	4300	6503	SO:0001630	splice_region_variant	4670			L03532	CCDS12203.1, CCDS12204.1	19p13.2	2013-06-12		2008-04-18	ENSG00000099783	ENSG00000099783		"RNA binding motif (RRM) containing"	5046	protein-coding gene	gene with protein product	"CEA receptor"	160994		NAGR1, HNRPM		8441656, 7558047	Standard	NM_005968		Approved	HTGR1, HNRNPM4, HNRPM4, CEAR	uc010dwe.3	P52272	OTTHUMG00000182383	ENST00000325495.4:c.336+2T>G	19.37:g.8527467T>G		Somatic		WXS	Illumina HiSeq		Q15584|Q8WZ44|Q96H56|Q9BWL9|Q9Y492	Splice_Site	SNP	ENST00000325495.4	37	CCDS12203.1	.	.	.	.	.	.	.	.	.	.	T	18.24	3.580056	0.65992	.	.	ENSG00000099783	ENST00000325495;ENST00000348943	.	.	.	5.82	5.82	0.92795	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.0018	0.71479	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	HNRNPM	8433467	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.698000	0.84413	2.225000	0.72522	0.459000	0.35465	.		0.428	HNRNPM-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000460894.1		Intron	G	8527467	T	G	8527467	5	3	595	1	0	0	0	0	0	0	1	0	7278	1652	57	5	348	5	HNRNPM	19	8527467	Splice_Site	SNP	T	TCGA-G7-7502-01A-11D-2201-08	696530	8527467	50601516	82	35542										
DNMT1	1786	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	10250732	10250732	+	Frame_Shift_Del	DEL	A	A	-													0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	acccgtttacctgaggaaggAaaccaccagagagtttttga							TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr19:10250732delA	ENST00000340748.4	-	32	3983	c.3748delT	c.(3748-3750)tccfs	p.S1250fs	DNMT1_ENST00000359526.4_Frame_Shift_Del_p.S1266fs|DNMT1_ENST00000589538.1_Intron|DNMT1_ENST00000540357.1_Frame_Shift_Del_p.S1250fs			P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1	1250	Catalytic.|Interaction with the PRC2/EED-EZH2 complex. {ECO:0000250}.|SAM-dependent MTase C5-type. {ECO:0000255|PROSITE-ProRule:PRU01016}.				cellular response to amino acid stimulus (GO:0071230)|chromatin modification (GO:0016568)|DNA methylation (GO:0006306)|gene silencing (GO:0016458)|maintenance of DNA methylation (GO:0010216)|negative regulation of histone H3-K9 methylation (GO:0051573)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of gene expression (GO:0010628)|positive regulation of histone H3-K4 methylation (GO:0051571)|regulation of cell proliferation (GO:0042127)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|pericentric heterochromatin (GO:0005721)|replication fork (GO:0005657)	chromatin binding (GO:0003682)|DNA (cytosine-5-)-methyltransferase activity (GO:0003886)|DNA binding (GO:0003677)|DNA-methyltransferase activity (GO:0009008)|methyl-CpG binding (GO:0008327)|RNA binding (GO:0003723)|zinc ion binding (GO:0008270)			breast(5)|endometrium(8)|kidney(5)|large_intestine(21)|lung(11)|ovary(2)|pancreas(1)|prostate(10)|skin(5)|stomach(1)|urinary_tract(1)	70			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Procainamide(DB01035)	CTGAGGAAGGAAACCACCAGA	0.612																																																0													39	40	40					19																	10250732		2203	4300	6503	SO:0001589	frameshift_variant	1786			X63692	CCDS12228.1, CCDS45958.1	19p13.2	2014-09-17				ENSG00000130816	2.1.1.37		2976	protein-coding gene	gene with protein product		126375		DNMT		1594447	Standard	NM_001379		Approved	MCMT, CXXC9	uc010xlc.2	P26358		ENST00000340748.4:c.3748delT	19.37:g.10250732delA	ENSP00000345739:p.Ser1250fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV63|B7ZLW6|Q9UHG5|Q9ULA2|Q9UMZ6	Frame_Shift_Del	DEL	ENST00000340748.4	37	CCDS12228.1																																																																																				0.612	DNMT1-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451166.1	NM_001379		-	10250732	A	-	10250732	7	5	595	1	0	1	0	1	0	0	0	0	4677	246	9	0	1138	0	DNMT1	19	10250732	Frame_Shift_Del	DEL	A	TCGA-G7-7502-01A-11D-2201-08	1723265	10250732	48878251	83	35543										
TMED1	11018	hgsc.bcm.edu;bcgsc.ca	37	chr19	10945675	10945675	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	agcctctgcccatccttcgaCctcctcgtcatcctggaggc	8	18	2	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr19:10945675C>G	ENST00000214869.2	-	3	498	c.400G>C	c.(400-402)Gtc>Ctc	p.V134L	TMED1_ENST00000588289.1_5'UTR|TMED1_ENST00000591695.1_Intron|C19orf38_ENST00000592854.1_5'Flank	NM_006858.2	NP_006849.1	Q13445	TMED1_HUMAN	transmembrane emp24 protein transport domain containing 1	134					cell-cell signaling (GO:0007267)|protein transport (GO:0015031)|signal transduction (GO:0007165)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	receptor binding (GO:0005102)			breast(1)|central_nervous_system(2)|lung(2)|ovary(3)|prostate(1)|skin(1)	10						CATCCTTCGACCTCCTCGTCA	0.557																																																0													160	148	152					19																	10945675		2203	4300	6503	SO:0001583	missense	11018			U41804	CCDS12249.1	19p13.2	2008-02-05	2005-08-26			ENSG00000099203			17291	protein-coding gene	gene with protein product		605395	"transmembrane emp24 domain containing 1"			11466339, 8621446	Standard	NM_006858		Approved	ST2L, MGC1270, IL1RL1LG, Il1rl1l	uc002mpy.3	Q13445		ENST00000214869.2:c.400G>C	19.37:g.10945675C>G	ENSP00000214869:p.Val134Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000214869.2	37	CCDS12249.1	.	.	.	.	.	.	.	.	.	.	C	7.304	0.613556	0.14066	.	.	ENSG00000099203	ENST00000214869	T	0.40225	1.04	5.02	2.88	0.33553	GOLD (2);	0.765986	0.12157	N	0.494351	T	0.15869	0.0382	N	0.04203	-0.255	0.24941	N	0.991855	B	0.02656	0.0	B	0.11329	0.006	T	0.29822	-0.9999	10	0.09338	T	0.73	-22.7796	2.1997	0.03920	0.156:0.5179:0.1518:0.1743	.	134	Q13445	TMED1_HUMAN	L	134	ENSP00000214869:V134L	ENSP00000214869:V134L	V	-	1	0	TMED1	10806675	0.028000	0.19301	0.524000	0.27887	0.904000	0.53231	1.864000	0.39469	0.520000	0.28426	0.462000	0.41574	GTC		0.557	TMED1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452614.1	NM_006858		G	10945675	C	G	10945675	3	3	595	1	0	0	0	0	1	0	0	0	16014	507	18	4	291	4	TMED1	19	10945675	Missense_Mutation	SNP	C	TCGA-G7-7502-01A-11D-2201-08	694943	10945675	48183308	84	35544										
ZNF101	94039	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	19789581	19789581	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	gagaatctgtaccaaaacctGgggattaagctaaggtaatc	10	7	1	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr19:19789581G>C	ENST00000592502.1	+	3	287	c.177G>C	c.(175-177)ctG>ctC	p.L59L	ZNF101_ENST00000444249.2_Missense_Mutation_p.W58S|ZNF101_ENST00000415784.2_5'UTR			Q8IZC7	ZN101_HUMAN	zinc finger protein 101	59	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|endometrium(1)|kidney(1)|large_intestine(6)|lung(4)|ovary(2)|prostate(1)	17						ACCAAAACCTGGGGATTAAGC	0.333																																																0													45	45	45					19																	19789581		2203	4300	6503	SO:0001819	synonymous_variant	94039			AK097169	CCDS32971.1	19p13.11	2013-01-08	2004-02-10		ENSG00000181896	ENSG00000181896		"Zinc fingers, C2H2-type", "-"	12881	protein-coding gene	gene with protein product		603983	"zinc finger protein 101 (Y2)"			11441184	Standard	XM_005260165		Approved	HZF12, DKFZp570I0164	uc002nni.2	Q8IZC7	OTTHUMG00000167736	ENST00000592502.1:c.177G>C	19.37:g.19789581G>C		Somatic		WXS	Illumina HiSeq	Phase_I	C9JU83|Q0VDG9	Silent	SNP	ENST00000592502.1	37	CCDS32971.1																																																																																				0.333	ZNF101-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460559.1	NM_033204		C	19789581	G	C	19789581	2	2	595	1	0	0	0	0	0	0	0	1	17726	1335	47	4		4	ZNF101	19	19789581	Silent	SNP	G	TCGA-G7-7502-01A-11D-2201-08	8843906	19789581	39339402	85	35545										
ZFP14	57677	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	36831515	36831515	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	aagctgtgagtaactactaaAggtcttccaacattccatac	6	10	1	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr19:36831515A>C	ENST00000270001.7	-	5	1328	c.1213T>G	c.(1213-1215)Ttt>Gtt	p.F405V		NM_020917.2	NP_065968.1	Q9HCL3	ZFP14_HUMAN	ZFP14 zinc finger protein	405					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(1)|endometrium(1)|kidney(2)|large_intestine(9)|lung(10)|ovary(1)|upper_aerodigestive_tract(1)	26	Esophageal squamous(110;0.162)					TAACTACTAAAGGTCTTCCAA	0.408																																																0													115	106	109					19																	36831515		2203	4300	6503	SO:0001583	missense	57677			AB046779	CCDS33002.1	19q13.13	2013-01-08	2012-11-27			ENSG00000142065		"Zinc fingers, C2H2-type", "-"	29312	protein-coding gene	gene with protein product			"zinc finger protein 14 homolog (mouse)"			10997877	Standard	NM_020917		Approved	KIAA1559, ZNF531	uc010eex.2	Q9HCL3		ENST00000270001.7:c.1213T>G	19.37:g.36831515A>C	ENSP00000270001:p.Phe405Val	Somatic		WXS	Illumina HiSeq	Phase_I	A7MD23	Missense_Mutation	SNP	ENST00000270001.7	37	CCDS33002.1	.	.	.	.	.	.	.	.	.	.	a	18.65	3.668655	0.67814	.	.	ENSG00000142065	ENST00000270001;ENST00000392172	T	0.46063	0.88	3.99	3.99	0.46301	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.46442	D	0.000284	T	0.67822	0.2934	M	0.88181	2.935	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.997	T	0.74919	-0.3500	10	0.87932	D	0	.	12.2842	0.54783	1.0:0.0:0.0:0.0	.	405;405	A8KAN8;Q9HCL3	.;ZFP14_HUMAN	V	405	ENSP00000270001:F405V	ENSP00000270001:F405V	F	-	1	0	ZFP14	41523355	1.000000	0.71417	0.998000	0.56505	0.974000	0.67602	5.755000	0.68750	1.794000	0.52575	0.523000	0.50628	TTT		0.408	ZFP14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452528.1	NM_020917		C	36831515	A	C	36831515	3	2	595	1	0	0	0	0	1	0	0	0	17651	72	3	5	392	5	ZFP14	19	36831515	Missense_Mutation	SNP	A	TCGA-G7-7502-01A-11D-2201-08	17041934	36831515	22297468	86	35546										
ZNF776	284309	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	58265245	58265245	+	Frame_Shift_Del	DEL	T	T	-													0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	aaattcactagcaaaagtaaTagttttaataatcatcaggg							TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr19:58265245delT	ENST00000317178.5	+	3	1010	c.747delT	c.(745-747)aatfs	p.N249fs		NM_173632.3	NP_775903.3	Q68DI1	ZN776_HUMAN	zinc finger protein 776	249					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			cervix(1)|endometrium(2)|kidney(13)|large_intestine(3)|lung(7)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	31		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)		GCAAAAGTAATAGTTTTAATA	0.413																																																0													63	64	64					19																	58265245		2203	4300	6503	SO:0001589	frameshift_variant	284309			AK095607	CCDS12962.2	19q13.43	2013-01-08			ENSG00000152443	ENSG00000152443		"Zinc fingers, C2H2-type", "-"	26765	protein-coding gene	gene with protein product							Standard	NM_173632		Approved	FLJ38288		Q68DI1	OTTHUMG00000156943	ENST00000317178.5:c.747delT	19.37:g.58265245delT	ENSP00000321812:p.Asn249fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZS36|Q8N968	Frame_Shift_Del	DEL	ENST00000317178.5	37	CCDS12962.2																																																																																				0.413	ZNF776-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346722.2	NM_173632		-	58265245	T	-	58265245	7	5	595	1	0	1	0	1	0	0	0	0	18161	1403	49	0	757	0	ZNF776	19	58265245	Frame_Shift_Del	DEL	T	TCGA-G7-7502-01A-11D-2201-08	21433730	58265245	863738	87	35547										
CHGB	1114	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr20	5903930	5903930	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	agacctcagagtgaggagagTtgggatgaggaggacaagag	18	4	1	6			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr20:5903930T>C	ENST00000378961.4	+	4	1344	c.1140T>C	c.(1138-1140)agT>agC	p.S380S		NM_001819.2	NP_001810.2	P05060	SCG1_HUMAN	chromogranin B (secretogranin 1)	380						extracellular region (GO:0005576)|secretory granule (GO:0030141)	hormone activity (GO:0005179)			breast(7)|kidney(2)|large_intestine(8)|lung(19)|ovary(1)|pancreas(2)|skin(5)|stomach(2)|upper_aerodigestive_tract(1)	47						GTGAGGAGAGTTGGGATGAGG	0.547																																																0													114	113	113					20																	5903930		2203	4300	6503	SO:0001819	synonymous_variant	1114				CCDS13092.1	20p12.3	2013-09-19			ENSG00000089199	ENSG00000089199			1930	protein-coding gene	gene with protein product	"secretogranin B"	118920		SCG1		3608978	Standard	NM_001819		Approved		uc002wmg.3	P05060	OTTHUMG00000031821	ENST00000378961.4:c.1140T>C	20.37:g.5903930T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K021|Q59EU9|Q6IBS6|Q9BQV6|Q9UC25|Q9UJA6	Silent	SNP	ENST00000378961.4	37	CCDS13092.1																																																																																				0.547	CHGB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077897.2	NM_001819		C	5903930	T	C	5903930	2	2	595	1	0	0	0	0	0	0	0	1	3341	1722	60	3		3	CHGB	20	5903930	Silent	SNP	T	TCGA-G7-7502-01A-11D-2201-08		5903930	57121590	88	35548										
PLUNC	51297	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	31825663	31825663	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	gagtcccacaggtcttgcagGaagcttgacaaatggtgagt	13	8	1	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr20:31825663G>A	ENST00000354297.4	+	2	217	c.146G>A	c.(145-147)gGa>gAa	p.G49E	BPIFA1_ENST00000375413.4_Missense_Mutation_p.G49E|BPIFA1_ENST00000375422.2_Missense_Mutation_p.G49E	NM_130852.2	NP_570913.1	Q9NP55	BPIA1_HUMAN	BPI fold containing family A, member 1	49					antibacterial humoral response (GO:0019731)|innate immune response (GO:0045087)|multicellular organismal water homeostasis (GO:0050891)|negative regulation of single-species biofilm formation in or on host organism (GO:1900229)|regulation of liquid surface tension (GO:0050828)|regulation of sodium ion transmembrane transport (GO:1902305)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	lipid binding (GO:0008289)										GGTCTTGCAGGAAGCTTGACA	0.557																																																0													84	78	80					20																	31825663		2203	4300	6503	SO:0001583	missense	51297			AB024937	CCDS13217.1	20q11.21	2011-08-04	2011-07-29	2011-07-29	ENSG00000198183	ENSG00000198183		"BPI fold containing"	15749	protein-coding gene	gene with protein product		607412	"palate, lung and nasal epithelium carcinoma associated", "palate, lung and nasal epithelium associated"	PLUNC		11018263, 11251963, 21787333	Standard	NM_130852		Approved	LUNX, bA49G10.5, SPLUNC1	uc002wyv.3	Q9NP55	OTTHUMG00000032243	ENST00000354297.4:c.146G>A	20.37:g.31825663G>A	ENSP00000346251:p.Gly49Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9R3|E1P5M9|Q9NZT0	Missense_Mutation	SNP	ENST00000354297.4	37	CCDS13217.1	.	.	.	.	.	.	.	.	.	.	G	9.833	1.189055	0.21954	.	.	ENSG00000198183	ENST00000375422;ENST00000354297;ENST00000375413;ENST00000544328	T;T;T	0.11385	2.78;2.78;2.78	5.11	-0.843	0.10744	.	0.563694	0.17374	N	0.176573	T	0.06826	0.0174	L	0.39245	1.2	0.09310	N	1	B	0.24882	0.113	B	0.23419	0.046	T	0.43702	-0.9375	10	0.02654	T	1	0.4054	9.72	0.40297	0.0869:0.5908:0.3223:0.0	.	49	Q9NP55	BPIA1_HUMAN	E	49;49;49;35	ENSP00000364571:G49E;ENSP00000346251:G49E;ENSP00000364562:G49E	ENSP00000346251:G49E	G	+	2	0	BPIFA1	31289324	0.316000	0.24580	0.019000	0.16419	0.005000	0.04900	0.387000	0.20718	0.087000	0.17167	0.655000	0.94253	GGA		0.557	BPIFA1-002	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078667.2	NM_130852		A	31825663	G	A	31825663	3	1	595	1	0	0	0	0	1	0	0	0	12122	1174	41	2	148	2	PLUNC	20	31825663	Missense_Mutation	SNP	G	TCGA-G7-7502-01A-11D-2201-08	25921733	31825663	31199857	89	35549										
TUBB1	81027	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	57599037	57599037	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	gtggtggagccctacaacgcGgttctgtctatccaccagct	11	13	2	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr20:57599037G>A	ENST00000217133.1	+	4	824	c.555G>A	c.(553-555)gcG>gcA	p.A185A		NM_030773.3	NP_110400.1	Q9H4B7	TBB1_HUMAN	tubulin, beta 1 class VI	185					'de novo' posttranslational protein folding (GO:0051084)|cellular protein metabolic process (GO:0044267)|protein folding (GO:0006457)|protein polymerization (GO:0051258)|spindle assembly (GO:0051225)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)	p.A185A(1)		endometrium(1)|kidney(1)|large_intestine(2)|lung(7)|ovary(1)|prostate(2)|skin(2)	16	all_lung(29;0.00711)		Colorectal(105;0.109)		Cabazitaxel(DB06772)|Colchicine(DB01394)|Docetaxel(DB01248)|Paclitaxel(DB01229)|Vindesine(DB00309)	CCTACAACGCGGTTCTGTCTA	0.517																																																1	Substitution - coding silent(1)	lung(1)											127	121	123					20																	57599037		2203	4300	6503	SO:0001819	synonymous_variant	81027			AJ292757	CCDS13475.1	20q13.32	2014-09-17	2011-10-10		ENSG00000101162	ENSG00000101162		"Tubulins"	16257	protein-coding gene	gene with protein product	"class VI beta-tubulin"	612901	"tubulin, beta 1"				Standard	NM_030773		Approved	dJ543J19.4	uc002yak.3	Q9H4B7	OTTHUMG00000032860	ENST00000217133.1:c.555G>A	20.37:g.57599037G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000217133.1	37	CCDS13475.1																																																																																				0.517	TUBB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079903.1	NM_030773		A	57599037	G	A	57599037	2	1	595	1	0	0	0	0	0	0	0	1	16765	1103	39	1		1	TUBB1	20	57599037	Silent	SNP	G	TCGA-G7-7502-01A-11D-2201-08	25773374	57599037	5426483	90	35550										
C21orf7	56911	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr21	30547133	30547133	+	Frame_Shift_Del	DEL	T	T	-													0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tgacggaggagaatcggacgTtgaggttggcccagtctcaa							TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr21:30547133delT	ENST00000399947.2	+	9	926	c.649delT	c.(649-651)ttgfs	p.L217fs	MAP3K7CL_ENST00000286791.5_3'UTR|MAP3K7CL_ENST00000339024.4_Frame_Shift_Del_p.L117fs|MAP3K7CL_ENST00000545939.1_Frame_Shift_Del_p.L111fs|MAP3K7CL_ENST00000399926.1_Frame_Shift_Del_p.L117fs|MAP3K7CL_ENST00000399928.1_Frame_Shift_Del_p.L117fs|MAP3K7CL_ENST00000399925.1_Frame_Shift_Del_p.L117fs|MAP3K7CL_ENST00000341618.4_Frame_Shift_Del_p.L217fs|MAP3K7CL_ENST00000399935.2_Frame_Shift_Del_p.L117fs|MAP3K7CL_ENST00000399934.1_Frame_Shift_Del_p.L117fs	NM_020152.2	NP_064537.1	P57077	M3KCL_HUMAN	MAP3K7 C-terminal like	217						cytosol (GO:0005829)|nucleus (GO:0005634)											GAATCGGACGTTGAGGTTGGC	0.488																																																0													115	106	109					21																	30547133		2203	4300	6503	SO:0001589	frameshift_variant	56911			AF269161	CCDS13584.1, CCDS68182.1, CCDS74775.1	21q22.3	2013-02-22	2013-02-22	2013-02-22	ENSG00000156265	ENSG00000156265			16457	protein-coding gene	gene with protein product		611110	"chromosome 21 open reading frame 7"	C21orf7			Standard	NM_020152		Approved	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4	uc002ynf.3	P57077	OTTHUMG00000078806	ENST00000399947.2:c.649delT	21.37:g.30547133delT	ENSP00000382828:p.Leu217fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSE0|Q8TCL9	Nonsense_Mutation	DEL	ENST00000399947.2	37	CCDS13584.1																																																																																				0.488	MAP3K7CL-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000171865.2	NM_020152		-	30547133	T	-	30547133	7	5	595	1	0	1	0	1	0	0	0	0	2134	1722	60	0	675	0	C21orf7	21	30547133	Frame_Shift_Del	DEL	T	TCGA-G7-7502-01A-11D-2201-08		30547133	17582762	91	35551										
COL6A1	1291	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	47423886	47423886	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	accaggccctgctccgcggtGtcttccaccagacagtctcc	9	18	2	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr21:47423886G>A	ENST00000361866.3	+	35	3160	c.3046G>A	c.(3046-3048)Gtc>Atc	p.V1016I	COL6A1_ENST00000498614.1_3'UTR	NM_001848.2	NP_001839.2	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1	1016	C-terminal globular domain.|VWFA 3. {ECO:0000255|PROSITE- ProRule:PRU00219}.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|cellular response to amino acid stimulus (GO:0071230)|collagen catabolic process (GO:0030574)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|osteoblast differentiation (GO:0001649)|protein heterotrimerization (GO:0070208)	collagen type VI trimer (GO:0005589)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|protein complex (GO:0043234)|proteinaceous extracellular matrix (GO:0005578)|sarcolemma (GO:0042383)	platelet-derived growth factor binding (GO:0048407)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(18)|ovary(1)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	33	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)		GCTCCGCGGTGTCTTCCACCA	0.662																																																0													56	58	58					21																	47423886		2203	4300	6503	SO:0001583	missense	1291			M20776	CCDS13727.1	21q22.3	2014-09-17			ENSG00000142156	ENSG00000142156		"Collagens"	2211	protein-coding gene	gene with protein product		120220					Standard	XM_006723964		Approved		uc002zhu.1	P12109	OTTHUMG00000090440	ENST00000361866.3:c.3046G>A	21.37:g.47423886G>A	ENSP00000355180:p.Val1016Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O00117|O00118|Q14040|Q14041|Q16258|Q7Z645|Q9BSA8	Missense_Mutation	SNP	ENST00000361866.3	37	CCDS13727.1	.	.	.	.	.	.	.	.	.	.	G	20.2	3.958303	0.73902	.	.	ENSG00000142156	ENST00000361866	D	0.91464	-2.85	4.83	4.83	0.62350	von Willebrand factor, type A (1);	0.000000	0.64402	D	0.000001	D	0.90376	0.6988	L	0.57536	1.79	0.58432	D	0.99999	D	0.52996	0.957	P	0.49752	0.621	D	0.88044	0.2783	10	0.08381	T	0.77	-40.0397	17.9387	0.89020	0.0:0.0:1.0:0.0	.	1016	P12109	CO6A1_HUMAN	I	1016	ENSP00000355180:V1016I	ENSP00000355180:V1016I	V	+	1	0	COL6A1	46248314	1.000000	0.71417	0.957000	0.39632	0.304000	0.27724	5.907000	0.69908	2.232000	0.73038	0.596000	0.82720	GTC		0.662	COL6A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206877.1	NM_001848		A	47423886	G	A	47423886	3	1	595	1	0	0	0	0	1	0	0	0	3701	1377	48	2	3184	2	COL6A1	21	47423886	Missense_Mutation	SNP	G	TCGA-G7-7502-01A-11D-2201-08	16876753	47423886	706009	92	35552										
ARVCF	421	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	19966432	19966432	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	gtccacacctcaggcagcccGacgtgttcttgaagacagtt	10	13	2	2	rs542020914	byFrequency	TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr22:19966432G>A	ENST00000263207.3	-	7	1859	c.1568C>T	c.(1567-1569)tCg>tTg	p.S523L	ARVCF_ENST00000487793.1_5'Flank|ARVCF_ENST00000406522.1_Missense_Mutation_p.S460L|ARVCF_ENST00000401994.1_Missense_Mutation_p.S460L|ARVCF_ENST00000406259.1_Missense_Mutation_p.S523L|ARVCF_ENST00000344269.3_Missense_Mutation_p.S460L	NM_001670.2	NP_001661.1	O00192	ARVC_HUMAN	armadillo repeat gene deleted in velocardiofacial syndrome	523					calcium-dependent cell-cell adhesion (GO:0016339)|cell adhesion (GO:0007155)|multicellular organismal development (GO:0007275)|single organismal cell-cell adhesion (GO:0016337)	cytoplasm (GO:0005737)|intracellular (GO:0005622)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				NS(1)|cervix(1)|endometrium(3)|liver(1)|lung(4)|prostate(1)|urinary_tract(2)	13	Colorectal(54;0.0993)					CAGGCAGCCCGACGTGTTCTT	0.622													G|||	2	0.000399361	0.0	0.0	5008	,	,		20460	0.0		0.0	False		,,,				2504	0.002															0													136	91	106					22																	19966432		2203	4300	6503	SO:0001583	missense	421				CCDS13771.1	22q11.21	2013-02-14	2010-04-28		ENSG00000099889	ENSG00000099889		"Armadillo repeat containing"	728	protein-coding gene	gene with protein product		602269				9126485, 15456900	Standard	NM_001670		Approved		uc002zqz.3	O00192	OTTHUMG00000030426	ENST00000263207.3:c.1568C>T	22.37:g.19966432G>A	ENSP00000263207:p.Ser523Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7WNV2	Missense_Mutation	SNP	ENST00000263207.3	37	CCDS13771.1	.	.	.	.	.	.	.	.	.	.	G	28.6	4.930425	0.92389	.	.	ENSG00000099889	ENST00000263207;ENST00000344269;ENST00000401994;ENST00000406522;ENST00000406259	T;T;T;T;T	0.38887	1.11;1.11;1.11;1.11;1.11	4.43	4.43	0.53597	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.64811	0.2632	M	0.75777	2.31	0.80722	D	1	P;D	0.89917	0.906;1.0	P;D	0.79108	0.475;0.992	T	0.66913	-0.5803	9	.	.	.	-14.4434	17.6161	0.88068	0.0:0.0:1.0:0.0	.	523;45	O00192;E7EV58	ARVC_HUMAN;.	L	523;460;460;460;523	ENSP00000263207:S523L;ENSP00000342042:S460L;ENSP00000384341:S460L;ENSP00000384732:S460L;ENSP00000385444:S523L	.	S	-	2	0	ARVCF	18346432	1.000000	0.71417	0.164000	0.22755	0.982000	0.71751	7.455000	0.80726	2.472000	0.83506	0.563000	0.77884	TCG		0.622	ARVCF-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000075314.5	NM_001670		A	19966432	G	A	19966432	3	1	595	1	0	0	0	0	1	0	0	0	1003	1059	37	1	1372	1	ARVCF	22	19966432	Missense_Mutation	SNP	G	TCGA-G7-7502-01A-11D-2201-08		19966432	31338134	93	35553										
C22orf13	83606	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	24938994	24938994	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	tcagctgtccaagtagacaaAgaggatgtcctcatctgtgc	10	10	3	2			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr22:24938994A>T	ENST00000407471.3	-	6	893	c.703T>A	c.(703-705)Ttt>Att	p.F235I	GUCD1_ENST00000435822.1_Missense_Mutation_p.F234I|GUCD1_ENST00000404664.3_Missense_Mutation_p.F290I|GUCD1_ENST00000402766.1_3'UTR|GUCD1_ENST00000490922.1_Intron|GUCD1_ENST00000447813.2_3'UTR	NM_001284251.1	NP_001271180.1	Q96NT3	GUCD1_HUMAN	guanylyl cyclase domain containing 1	235																	AAGTAGACAAAGAGGATGTCC	0.637																																																0													216	165	182					22																	24938994		2203	4300	6503	SO:0001583	missense	83606			AK054681	CCDS33621.1, CCDS63426.1, CCDS63427.1, CCDS74831.1, CCDS74832.1, CCDS74833.1	22q11.2	2012-11-13	2012-11-13	2012-11-13	ENSG00000138867	ENSG00000138867			14237	protein-coding gene	gene with protein product			"chromosome 22 open reading frame 13"	C22orf13		12477932	Standard	XM_005261761		Approved	MGC1842, LLN4	uc003aah.2	Q96NT3	OTTHUMG00000150728	ENST00000407471.3:c.703T>A	22.37:g.24938994A>T	ENSP00000386076:p.Phe235Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B5MCB8|B5MCL7|Q96Q79|Q9BU32	Missense_Mutation	SNP	ENST00000407471.3	37	CCDS33621.1	.	.	.	.	.	.	.	.	.	.	A	29.1	4.981630	0.93044	.	.	ENSG00000138867	ENST00000407471;ENST00000435822;ENST00000404664	.	.	.	5.37	5.37	0.77165	.	0.104223	0.64402	D	0.000003	T	0.70806	0.3266	M	0.69823	2.125	0.80722	D	1	P;P;P;P	0.47409	0.811;0.885;0.895;0.477	P;P;P;B	0.51324	0.489;0.666;0.629;0.327	T	0.72693	-0.4216	9	0.45353	T	0.12	-8.7496	14.5939	0.68392	1.0:0.0:0.0:0.0	.	290;298;191;235	B5MCL7;B4DH83;B4DL90;Q96NT3	.;.;.;CV013_HUMAN	I	235;234;290	.	ENSP00000381297:F234I	F	-	1	0	C22orf13	23268994	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.244000	0.78228	2.037000	0.60232	0.456000	0.33151	TTT		0.637	GUCD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000319819.1	NM_031444		T	24938994	A	T	24938994	3	4	595	1	0	0	0	0	1	0	0	0	2137	72	3	5	23	5	C22orf13	22	24938994	Missense_Mutation	SNP	A	TCGA-G7-7502-01A-11D-2201-08	4972562	24938994	26365572	94	35554										
OSM	5008	hgsc.bcm.edu	37	chr22	30660245	30660245	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	gcttctccaagtcctcgatgTtcagcccagacctctccaaa	6	16	3	1			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr22:30660245T>C	ENST00000215781.2	-	3	426	c.386A>G	c.(385-387)aAc>aGc	p.N129S	OSM_ENST00000403463.1_3'UTR|OSM_ENST00000403389.1_Missense_Mutation_p.N108S	NM_020530.4	NP_065391.1	P13725	ONCM_HUMAN	oncostatin M	129					behavioral response to pain (GO:0048266)|cell proliferation (GO:0008283)|immune response (GO:0006955)|multicellular organismal development (GO:0007275)|negative regulation of cell proliferation (GO:0008285)|negative regulation of hormone secretion (GO:0046888)|negative regulation of meiosis (GO:0045835)|peripheral nervous system development (GO:0007422)|positive regulation of acute inflammatory response (GO:0002675)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell division (GO:0051781)|positive regulation of cell proliferation (GO:0008284)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of growth (GO:0040008)|response to heat (GO:0009408)|tyrosine phosphorylation of Stat1 protein (GO:0042508)|tyrosine phosphorylation of Stat3 protein (GO:0042503)|tyrosine phosphorylation of Stat5 protein (GO:0042506)	extracellular space (GO:0005615)|oncostatin-M receptor complex (GO:0005900)	cytokine activity (GO:0005125)|growth factor activity (GO:0008083)|oncostatin-M receptor binding (GO:0005147)			breast(1)|endometrium(2)|large_intestine(2)|lung(3)|skin(3)	11			Epithelial(10;0.206)			GTCCTCGATGTTCAGCCCAGA	0.602																																																0													49	40	43					22																	30660245		2203	4300	6503	SO:0001583	missense	5008			AF129855	CCDS13873.1	22q12.2	2011-07-21			ENSG00000099985	ENSG00000099985			8506	protein-coding gene	gene with protein product		165095				1717982	Standard	NM_020530		Approved	MGC20461	uc003ahb.3	P13725	OTTHUMG00000150913	ENST00000215781.2:c.386A>G	22.37:g.30660245T>C	ENSP00000215781:p.Asn129Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FHP8|Q9UCP6	Missense_Mutation	SNP	ENST00000215781.2	37	CCDS13873.1	.	.	.	.	.	.	.	.	.	.	T	5.822	0.336000	0.11013	.	.	ENSG00000099985	ENST00000215781;ENST00000403389	T	0.50001	0.76	0.559	-0.762	0.11034	Four-helical cytokine-like, core (1);Four-helical cytokine, core (1);	.	.	.	.	T	0.25044	0.0608	L	0.29908	0.895	0.09310	N	1	P	0.36909	0.573	B	0.31442	0.13	T	0.17471	-1.0368	8	0.13108	T	0.6	.	.	.	.	.	129	P13725	ONCM_HUMAN	S	129;108	ENSP00000215781:N129S	ENSP00000215781:N129S	N	-	2	0	OSM	28990245	0.001000	0.12720	0.001000	0.08648	0.001000	0.01503	0.028000	0.13644	-0.427000	0.07350	-0.441000	0.05720	AAC		0.602	OSM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320512.1	NM_020530		C	30660245	T	C	30660245	3	2	595	1	0	0	0	0	1	0	0	0	11298	1725	60	3	376	3	OSM	22	30660245	Missense_Mutation	SNP	T	TCGA-G7-7502-01A-11D-2201-08	5721251	30660245	20644321	95	35555										
CSF2RB	1439	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	37334445	37334446	+	Missense_Mutation	DNP	GC	GC	TT													0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	aagcccccaggccaggctgtGccccaggtgcccgtcattca					rs554053520		TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chr22:37334445_37334446GC>TT	ENST00000403662.3	+	14	2817_2818	c.2595_2596GC>TT	c.(2593-2598)gtGCcc>gtTTcc	p.P866S	CSF2RB_ENST00000262825.5_Missense_Mutation_p.P872S|CSF2RB_ENST00000406230.1_Missense_Mutation_p.P872S|CSF2RB_ENST00000536485.1_Missense_Mutation_p.P813S			P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta, low-affinity (granulocyte-macrophage)	866					cellular response to interleukin-3 (GO:0036016)|interleukin-3-mediated signaling pathway (GO:0038156)|interleukin-5-mediated signaling pathway (GO:0038043)|respiratory gaseous exchange (GO:0007585)|response to lipopolysaccharide (GO:0032496)|signal transduction (GO:0007165)	granulocyte macrophage colony-stimulating factor receptor complex (GO:0030526)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cytokine receptor activity (GO:0004896)|receptor activity (GO:0004872)			breast(2)|endometrium(2)|kidney(1)|large_intestine(8)|lung(18)|ovary(3)|pancreas(1)|skin(5)|upper_aerodigestive_tract(2)	42					Sargramostim(DB00020)	GCCAGGCTGTGCCCCAGGTGCC	0.589																																																0																																										SO:0001583	missense	1439			M59941	CCDS13936.1	22q12.3	2014-09-09			ENSG00000100368	ENSG00000100368		"CD molecules", "Fibronectin type III domain containing"	2436	protein-coding gene	gene with protein product		138981		IL3RB		1833064, 1424804	Standard	NM_000395		Approved	IL5RB, CD131	uc003aqa.4	P32927	OTTHUMG00000150546	Exception_encountered	22.37:g.37334445_37334446delinsTT	ENSP00000384053:p.Pro866Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JZI1|Q6ICE0	Missense_Mutation	DNP	ENST00000403662.3	37	CCDS13936.1																																																																																				0.589	CSF2RB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318854.1	NM_000395		TT	37334446	GC	TT	37334445	3	4	595	1	0	0	0	0	1	0	0	0	3937	1306	46	4	2645	4	CSF2RB	22	37334445	Missense_Mutation	DNP	GC	TCGA-G7-7502-01A-11D-2201-08	6674200	37334445	13970121	96	35556										
KDM5D	8284	hgsc.bcm.edu	37	chrY	21901510	21901510	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206185567010309	2	1	0.374153846153846	0	0.561230769230769	0.4	1	0	ctgtggggcttgtattccttAtcttttacctcattgtcaaa	7	9	3	0			TCGA-G7-7502-01A-11D-2201-08	TCGA-G7-7502-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ea718e65-433a-4e16-82fc-4f8e5be936af	2c767e98-3e53-4915-a687-2e67bc2cedc5	g.chrY:21901510A>C	ENST00000317961.4	-	6	832	c.561T>G	c.(559-561)gaT>gaG	p.D187E	KDM5D_ENST00000541639.1_Missense_Mutation_p.D187E|KDM5D_ENST00000382806.2_Missense_Mutation_p.D130E	NM_004653.4	NP_004644.2	Q9BY66	KDM5D_HUMAN	lysine (K)-specific demethylase 5D	187					histone H3-K4 demethylation (GO:0034720)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone demethylase activity (H3-K4 specific) (GO:0032453)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706)|zinc ion binding (GO:0008270)			kidney(1)|large_intestine(9)|lung(6)|skin(1)	17					Vitamin C(DB00126)	TGTATTCCTTATCTTTTACCT	0.413																																																0													97	112	108					Y																	21901510		597	1932	2529	SO:0001583	missense	8284			U52191	CCDS14794.1, CCDS55554.1, CCDS55555.1	Yq11	2013-01-28	2009-04-06	2009-04-06	ENSG00000012817	ENSG00000012817		"Chromatin-modifying enzymes / K-demethylases", "Zinc fingers, PHD-type"	11115	protein-coding gene	gene with protein product		426000	"Jumonji, AT rich interactive domain 1D (RBP2-like)", "Smcy homolog, Y-linked (mouse)", "jumonji, AT rich interactive domain 1D"	HYA, HY, SMCY, JARID1D		795123, 8841177	Standard	NM_001146705		Approved	KIAA0234	uc011naz.2	Q9BY66	OTTHUMG00000036508	ENST00000317961.4:c.561T>G	Y.37:g.21901510A>C	ENSP00000322408:p.Asp187Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU19|A6H8V7|B7ZLX1|Q92509|Q92809|Q9HCU1	Missense_Mutation	SNP	ENST00000317961.4	37	CCDS14794.1																																																																																				0.413	KDM5D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088790.1	NM_004653		C	21901510	A	C	21901510	3	2	595	1	0	0	0	0	1	0	0	0	8143	446	16	5	4243	5	KDM5D	24	21901510	Missense_Mutation	SNP	A	TCGA-G7-7502-01A-11D-2201-08		21901510	37472056	97	35557										
PAQR7	164091	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	26189753	26189755	+	In_Frame_Del	DEL	TTG	TTG	-													0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ggcctggtttctggatgtacTtgttatagcaggagccaatg							TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr1:26189753_26189755delTTG	ENST00000374296.3	-	2	1242_1244	c.576_578delCAA	c.(574-579)aacaag>aag	p.N192del	RP1-125I3.2_ENST00000455431.1_RNA	NM_178422.5	NP_848509.1	Q86WK9	MPRA_HUMAN	progestin and adipoQ receptor family member VII	192					multicellular organismal development (GO:0007275)|oogenesis (GO:0048477)|response to steroid hormone (GO:0048545)|steroid hormone mediated signaling pathway (GO:0043401)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	steroid binding (GO:0005496)|steroid hormone receptor activity (GO:0003707)			breast(3)|endometrium(1)|large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)	9		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)		CTGGATGTACTTGTTATAGCAGG	0.581																																					Esophageal Squamous(111;1206 1556 18433 19151 38418)											0																																										SO:0001651	inframe_deletion	164091				CCDS267.1	1p35.3	2012-08-10			ENSG00000182749	ENSG00000182749			23146	protein-coding gene	gene with protein product	"membrane progestin receptor alpha"	607779					Standard	NM_178422		Approved	mSR, MPRA	uc001bkx.3	Q86WK9	OTTHUMG00000007373	ENST00000374296.3:c.576_578delCAA	1.37:g.26189753_26189755delTTG	ENSP00000363414:p.Asn192del	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2D3|Q5XKF9|Q86VE4	In_Frame_Del	DEL	ENST00000374296.3	37	CCDS267.1																																																																																				0.581	PAQR7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019312.1	NM_178422		-	26189755	TTG	-	26189753	7	5	596	1	0	1	0	1	0	0	0	0	11447	1609	56	0	466	0	PAQR7	1	26189753	In_Frame_Del	DEL	TTG	TCGA-G7-A4TM-01A-11D-A31X-10		26189753	223060868	1	35558										
WASF2	10163	hgsc.bcm.edu	37	chr1	27736340	27736340	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ggccccggaggaggaggaggAgggggaggaggaggtgctcc	24	7	0	0	rs71584884		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr1:27736340A>G	ENST00000430629.2	-	8	1400	c.1185T>C	c.(1183-1185)ccT>ccC	p.P395P	WASF2_ENST00000536657.1_Intron	NM_001201404.1|NM_006990.3	NP_001188333.1|NP_008921.1	Q9Y6W5	WASF2_HUMAN	WAS protein family, member 2	395	Poly-Pro.				actin cytoskeleton organization (GO:0030036)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|negative regulation of stress fiber assembly (GO:0051497)|positive regulation of lamellipodium assembly (GO:0010592)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|lamellipodium (GO:0030027)|SCAR complex (GO:0031209)	actin binding (GO:0003779)|protein complex binding (GO:0032403)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(2)|ovary(1)|prostate(1)|skin(3)|urinary_tract(1)	18		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0446)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.7e-08)|COAD - Colon adenocarcinoma(152;2e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00139)|KIRC - Kidney renal clear cell carcinoma(1967;0.00204)|STAD - Stomach adenocarcinoma(196;0.00325)|READ - Rectum adenocarcinoma(331;0.0481)		gaggaggaggagggggaggag	0.642																																																0													51	53	52					1																	27736340		2203	4300	6503	SO:0001819	synonymous_variant	10163			AB026542	CCDS304.1, CCDS55582.1	1p36.11	2011-05-10			ENSG00000158195	ENSG00000158195			12733	protein-coding gene	gene with protein product		605875				10381382	Standard	NM_006990		Approved	WAVE2, SCAR2	uc001bof.2	Q9Y6W5	OTTHUMG00000003393	ENST00000430629.2:c.1185T>C	1.37:g.27736340A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DZN0|O60794|Q9UDY7	Silent	SNP	ENST00000430629.2	37	CCDS304.1																																																																																				0.642	WASF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000009516.1	NM_006990		G	27736340	A	G	27736340	2	3	596	1	0	0	0	0	0	0	0	1	17265	291	11	3		3	WASF2	1	27736340	Silent	SNP	A	TCGA-G7-A4TM-01A-11D-A31X-10	1546587	27736340	221514281	2	35559										
AHDC1	27245	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	27876672	27876673	+	Frame_Shift_Del	DEL	GT	GT	-													0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ggaagtgggagatgctctggGtgtcgggggcctggtgcacc							TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr1:27876672_27876673delGT	ENST00000247087.5	-	5	2550_2551	c.1954_1955delAC	c.(1954-1956)accfs	p.T652fs	AHDC1_ENST00000374011.2_Frame_Shift_Del_p.T652fs			Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	652							DNA binding (GO:0003677)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(3)|large_intestine(8)|lung(20)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	42		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;8.48e-25)|Colorectal(126;9.17e-09)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00192)|BRCA - Breast invasive adenocarcinoma(304;0.00259)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0291)		GATGCTCTGGGTGTCGGGGGCC	0.703																																																0																																										SO:0001589	frameshift_variant	27245			AK125431	CCDS30652.1	1p36.13	2008-02-05			ENSG00000126705	ENSG00000126705			25230	protein-coding gene	gene with protein product		615790				8619474, 9110174	Standard	XM_005245848		Approved	DJ159A19.3, RP1-159A19.1	uc009vsy.3	Q5TGY3	OTTHUMG00000003398	ENST00000247087.5:c.1954_1955delAC	1.37:g.27876674_27876675delGT	ENSP00000247087:p.Thr652fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TGY4|Q6PJK1|Q6ZUQ6|Q99769|Q9NUF5	Frame_Shift_Del	DEL	ENST00000247087.5	37	CCDS30652.1																																																																																				0.703	AHDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000009523.3			-	27876673	GT	-	27876672	7	5	596	1	0	1	0	1	0	0	0	0	412	1261	44	0	2860	0	AHDC1	1	27876672	Frame_Shift_Del	DEL	GT	TCGA-G7-A4TM-01A-11D-A31X-10	140332	27876672	221373949	3	35560										
FOXJ3	22887	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	42744042	42744042	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ccaaccactgccagcctctcTataatatgggaagttatcac	6	13	2	0			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr1:42744042T>A	ENST00000372572.1	-	5	657	c.346A>T	c.(346-348)Aga>Tga	p.R116*	FOXJ3_ENST00000545068.1_Nonsense_Mutation_p.R116*|FOXJ3_ENST00000372573.1_Nonsense_Mutation_p.R116*|FOXJ3_ENST00000361346.1_Nonsense_Mutation_p.R116*|FOXJ3_ENST00000361776.1_Nonsense_Mutation_p.R116*	NM_001198851.1	NP_001185780.1	Q9UPW0	FOXJ3_HUMAN	forkhead box J3	116					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(3)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	18	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CCAGCCTCTCTATAATATGGG	0.313																																																0													70	71	70					1																	42744042		2203	4300	6503	SO:0001587	stop_gained	22887			AB028964	CCDS30689.1, CCDS55594.1	1p34.2	2008-04-10			ENSG00000198815	ENSG00000198815		"Forkhead boxes"	29178	protein-coding gene	gene with protein product							Standard	NM_014947		Approved	KIAA1041	uc001chf.3	Q9UPW0	OTTHUMG00000007026	ENST00000372572.1:c.346A>T	1.37:g.42744042T>A	ENSP00000361653:p.Arg116*	Somatic		WXS	Illumina HiSeq	Phase_I	A7MBL7|A7MD18|D3DPW2|Q9NSS7	Nonsense_Mutation	SNP	ENST00000372572.1	37	CCDS30689.1	.	.	.	.	.	.	.	.	.	.	T	40	8.346624	0.98769	.	.	ENSG00000198815	ENST00000372573;ENST00000372572;ENST00000361346;ENST00000361776;ENST00000545068;ENST00000445886;ENST00000454417	.	.	.	5.48	5.48	0.80851	.	0.066191	0.64402	D	0.000007	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	13.527	0.61601	0.0:0.0:0.0:1.0	.	.	.	.	X	116;116;116;116;116;116;73	.	ENSP00000354620:R116X	R	-	1	2	FOXJ3	42516629	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	6.242000	0.72376	2.082000	0.62665	0.374000	0.22700	AGA		0.313	FOXJ3-002	NOVEL	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000018310.1	NM_014947		A	42744042	T	A	42744042	4	1	596	1	0	0	0	0	0	1	0	0	6020	1530	53	5	1566	5	FOXJ3	1	42744042	Nonsense_Mutation	SNP	T	TCGA-G7-A4TM-01A-11D-A31X-10	14867370	42744042	206506579	4	35561										
RHOC	389	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	113244309	113244309	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ctgatccggttcgccatgtcCcggccttcctcagaccgaac	9	17	1	2			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr1:113244309C>G	ENST00000285735.2	-	6	1644	c.435G>C	c.(433-435)cgG>cgC	p.R145R	RHOC_ENST00000369633.2_Silent_p.R145R|RHOC_ENST00000369637.1_Silent_p.R145R|RHOC_ENST00000369636.2_Missense_Mutation_p.G125A|RHOC_ENST00000369638.2_Silent_p.R145R|RHOC_ENST00000369632.2_Silent_p.R145R|RHOC_ENST00000369642.3_Silent_p.R145R|RHOC_ENST00000339083.7_Silent_p.R145R|RP11-426L16.10_ENST00000471038.2_5'Flank			P08134	RHOC_HUMAN	ras homolog family member C	145					apical junction assembly (GO:0043297)|axon guidance (GO:0007411)|cytokinesis (GO:0000910)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cleavage furrow (GO:0032154)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	GTP binding (GO:0005525)|signal transducer activity (GO:0004871)			endometrium(1)|large_intestine(3)|lung(3)|ovary(1)|upper_aerodigestive_tract(1)	9	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCGCCATGTCCCGGCCTTCCT	0.572																																																0													107	95	99					1																	113244309		2203	4300	6503	SO:0001819	synonymous_variant	389			BC052808	CCDS854.1	1p13.1	2012-02-27	2012-02-27	2004-03-24	ENSG00000155366	ENSG00000155366			669	protein-coding gene	gene with protein product		165380	"ras homolog gene family, member C"	ARH9, ARHC		3283705	Standard	NM_001042678		Approved	RhoC	uc001ecp.1	P08134	OTTHUMG00000011905	ENST00000285735.2:c.435G>C	1.37:g.113244309C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KSW1|Q6ICN3	Silent	SNP	ENST00000285735.2	37	CCDS854.1	.	.	.	.	.	.	.	.	.	.	C	11.67	1.706628	0.30232	.	.	ENSG00000155366	ENST00000369636	T	0.71222	-0.55	5.13	2.24	0.28232	.	0.480686	0.15126	U	0.279101	T	0.46347	0.1388	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.37911	-0.9685	7	0.25106	T	0.35	-8.222	4.4249	0.11498	0.0:0.4765:0.1577:0.3659	.	.	.	.	A	125	ENSP00000358650:G125A	ENSP00000358650:G125A	G	-	2	0	RHOC	113045832	0.998000	0.40836	1.000000	0.80357	0.865000	0.49528	0.626000	0.24492	0.196000	0.20367	-1.254000	0.01491	GGG		0.572	RHOC-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032904.2	NM_175744		G	113244309	C	G	113244309	2	3	596	1	0	0	0	0	0	0	0	1	13349	610	22	4		4	RHOC	1	113244309	Silent	SNP	C	TCGA-G7-A4TM-01A-11D-A31X-10	70500267	113244309	136006312	5	35562										
IVL	3713	broad.mit.edu	37	chr1	152882868	152882868	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	agctggagctcccagagcagCaggaggggcagctggagctc	17	11	0	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr1:152882868C>G	ENST00000368764.3	+	2	659	c.595C>G	c.(595-597)Cag>Gag	p.Q199E	IVL_ENST00000392667.2_Missense_Mutation_p.Q53E			P07476	INVO_HUMAN	involucrin	199	39 X 10 AA approximate tandem repeats of [LP]-[EKG]-[LHVYQEK]-[PLSQE]-[EQDV]- [QHEKRGA]-Q-[EMVQLP]-[GKLE]-[QHVNLD].				isopeptide cross-linking via N6-(L-isoglutamyl)-L-lysine (GO:0018153)|keratinization (GO:0031424)|keratinocyte differentiation (GO:0030216)|peptide cross-linking (GO:0018149)|response to UV-B (GO:0010224)	cornified envelope (GO:0001533)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	protein binding, bridging (GO:0030674)|structural molecule activity (GO:0005198)			breast(1)|endometrium(6)|kidney(1)|large_intestine(5)|lung(11)|ovary(3)|skin(1)|upper_aerodigestive_tract(1)	29	Lung NSC(65;3.97e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			cccagagcagcaggaggggca	0.692																																																0													1	2	2					1																	152882868		780	1755	2535	SO:0001583	missense	3713			BC046391	CCDS1030.1	1q21	2008-02-05			ENSG00000163207	ENSG00000163207			6187	protein-coding gene	gene with protein product		147360				2873896	Standard	NM_005547		Approved		uc001fau.3	P07476	OTTHUMG00000012451	ENST00000368764.3:c.595C>G	1.37:g.152882868C>G	ENSP00000357753:p.Gln199Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T7P4	Missense_Mutation	SNP	ENST00000368764.3	37	CCDS1030.1	.	.	.	.	.	.	.	.	.	.	C	0.071	-1.202827	0.01581	.	.	ENSG00000163207	ENST00000368764;ENST00000392667	T;T	0.12255	3.0;2.7	3.41	2.47	0.30058	.	.	.	.	.	T	0.10252	0.0251	L	0.59436	1.845	0.09310	N	1	D	0.63046	0.992	P	0.60068	0.868	T	0.06215	-1.0839	9	0.07482	T	0.82	.	10.3906	0.44166	0.0:0.7838:0.2162:0.0	.	199	P07476	INVO_HUMAN	E	199;53	ENSP00000357753:Q199E;ENSP00000376435:Q53E	ENSP00000357753:Q199E	Q	+	1	0	IVL	151149492	0.000000	0.05858	0.015000	0.15790	0.021000	0.10359	0.910000	0.28571	0.766000	0.33244	0.430000	0.28490	CAG		0.692	IVL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034664.1	NM_005547		G	152882868	C	G	152882868	3	3	596	1	0	0	0	0	1	0	0	0	7936	711	25	4	597	4	IVL	1	152882868	Missense_Mutation	SNP	C	TCGA-G7-A4TM-01A-11D-A31X-10	39638559	152882868	96367753	6	35563										
CENPF	1063	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	214815619	214815619	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	atgtgaaatactgcaggctgAaaagtatgaactcgtaactg	10	6	0	3			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr1:214815619A>T	ENST00000366955.3	+	12	4106	c.3938A>T	c.(3937-3939)gAa>gTa	p.E1313V		NM_016343.3	NP_057427.3	P49454	CENPF_HUMAN	centromere protein F, 350/400kDa	0					cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|chromosome segregation (GO:0007059)|DNA replication (GO:0006260)|G2/M transition of mitotic cell cycle (GO:0000086)|kinetochore assembly (GO:0051382)|metaphase plate congression (GO:0051310)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|muscle organ development (GO:0007517)|negative regulation of transcription, DNA-templated (GO:0045892)|protein transport (GO:0015031)|regulation of cell cycle (GO:0051726)|regulation of G2/M transition of mitotic cell cycle (GO:0010389)|regulation of striated muscle tissue development (GO:0016202)|response to drug (GO:0042493)	chromosome, centromeric region (GO:0000775)|condensed chromosome outer kinetochore (GO:0000940)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinetochore (GO:0000776)|midbody (GO:0030496)|nuclear envelope (GO:0005635)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)|pronucleus (GO:0045120)|spindle (GO:0005819)|spindle pole (GO:0000922)	chromatin binding (GO:0003682)|dynein binding (GO:0045502)|protein C-terminus binding (GO:0008022)|protein homodimerization activity (GO:0042803)|transcription factor binding (GO:0008134)			NS(2)|breast(2)|central_nervous_system(4)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(37)|lung(47)|ovary(7)|prostate(3)|skin(6)|stomach(1)|urinary_tract(1)	126				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		CTGCAGGCTGAAAAGTATGAA	0.393																																					Colon(80;575 1284 11000 14801 43496)											0													76	76	76					1																	214815619		2203	4300	6503	SO:0001583	missense	1063			U30872	CCDS31023.1	1q41	2013-11-05	2013-01-17		ENSG00000117724	ENSG00000117724			1857	protein-coding gene	gene with protein product	"mitosin"	600236	"centromere protein F, 350/400kDa (mitosin)"			7904902, 7851898	Standard	NM_016343		Approved	hcp-1	uc001hkm.3	P49454	OTTHUMG00000036955	ENST00000366955.3:c.3938A>T	1.37:g.214815619A>T	ENSP00000355922:p.Glu1313Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q13171|Q13246|Q5VVM7	Missense_Mutation	SNP	ENST00000366955.3	37	CCDS31023.1	.	.	.	.	.	.	.	.	.	.	A	11.63	1.694781	0.30052	.	.	ENSG00000117724	ENST00000366955	T	0.28255	1.62	4.77	3.61	0.41365	.	0.207947	0.24020	N	0.042296	T	0.51126	0.1656	.	.	.	0.34578	D	0.714136	D	0.89917	1.0	D	0.71414	0.973	T	0.63980	-0.6514	9	0.87932	D	0	.	9.1524	0.36971	0.9148:0.0:0.0852:0.0	.	1313	P49454	CENPF_HUMAN	V	1313	ENSP00000355922:E1313V	ENSP00000355922:E1313V	E	+	2	0	CENPF	212882242	1.000000	0.71417	0.077000	0.20336	0.052000	0.14988	5.178000	0.65037	0.631000	0.30412	0.418000	0.28097	GAA		0.393	CENPF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089749.1	NM_016343		T	214815619	A	T	214815619	3	4	596	1	0	0	0	0	1	0	0	0	3233	246	9	5	3980	5	CENPF	1	214815619	Missense_Mutation	SNP	A	TCGA-G7-A4TM-01A-11D-A31X-10	61932751	214815619	34435002	7	35564										
SLC3A1	6519	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	44539791	44539791	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	agtatgtcaacgtgatgaacAtgcttcttttcacactccct	6	11	3	2			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr2:44539791A>G	ENST00000260649.6	+	8	1475	c.1399A>G	c.(1399-1401)Atg>Gtg	p.M467V	SLC3A1_ENST00000409229.3_Missense_Mutation_p.M467V|SLC3A1_ENST00000409741.1_Missense_Mutation_p.M467V|SLC3A1_ENST00000409294.1_Missense_Mutation_p.M87V|SLC3A1_ENST00000409380.1_Missense_Mutation_p.M189V|SLC3A1_ENST00000409740.3_Missense_Mutation_p.M98V|SLC3A1_ENST00000409387.1_Missense_Mutation_p.M467V	NM_000341.3	NP_000332.2	Q07837	SLC31_HUMAN	solute carrier family 3 (amino acid transporter heavy chain), member 1	467			M -> K (in CSNU). {ECO:0000269|PubMed:8054986}.|M -> T (in CSNU; loss of 80% of amino acid transport activity). {ECO:0000269|PubMed:11748844, ECO:0000269|PubMed:12234283, ECO:0000269|PubMed:8054986, ECO:0000269|PubMed:9186880}.		amino acid transmembrane transport (GO:0003333)|amino acid transport (GO:0006865)|basic amino acid transport (GO:0015802)|carbohydrate metabolic process (GO:0005975)|cellular amino acid metabolic process (GO:0006520)|ion transport (GO:0006811)|L-cystine transport (GO:0015811)|transmembrane transport (GO:0055085)	brush border membrane (GO:0031526)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|plasma membrane (GO:0005886)|vacuolar membrane (GO:0005774)	amino acid transmembrane transporter activity (GO:0015171)|basic amino acid transmembrane transporter activity (GO:0015174)|catalytic activity (GO:0003824)|cation binding (GO:0043169)|L-cystine transmembrane transporter activity (GO:0015184)			breast(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(5)|lung(11)|prostate(1)|skin(3)	26		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	CGTGATGAACATGCTTCTTTT	0.408																																																0													141	128	132					2																	44539791		2203	4300	6503	SO:0001583	missense	6519				CCDS1819.1	2p16.3	2013-07-19	2013-07-19		ENSG00000138079	ENSG00000138079		"Solute carriers"	11025	protein-coding gene	gene with protein product		104614	"solute carrier family 3 (cystine, dibasic and neutral amino acid transporters, activator of cystine, dibasic and neutral amino acid transport), member 1"			8486766, 9186880	Standard	NM_000341		Approved	CSNU1, D2H, RBAT, ATR1, NBAT	uc002ruc.4	Q07837	OTTHUMG00000128759	ENST00000260649.6:c.1399A>G	2.37:g.44539791A>G	ENSP00000260649:p.Met467Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0S1|O00658|Q15295|Q4J6B4|Q4J6B5|Q4J6B6|Q4J6B7|Q4J6B8|Q4J6B9|Q52M92|Q52M94	Missense_Mutation	SNP	ENST00000260649.6	37	CCDS1819.1	.	.	.	.	.	.	.	.	.	.	A	15.85	2.955494	0.53293	.	.	ENSG00000138079	ENST00000260649;ENST00000409387;ENST00000540334;ENST00000409741;ENST00000409229;ENST00000541289;ENST00000409380;ENST00000409294;ENST00000409740	D;D;D;D;D;D;D	0.99454	-5.92;-5.92;-5.92;-5.92;-5.92;-5.92;-5.92	5.82	4.64	0.57946	Glycoside hydrolase, subgroup, catalytic domain (1);Glycosyl hydrolase, family 13, catalytic domain (1);Glycoside hydrolase, superfamily (1);Glycosyl hydrolase, family 13, subfamily, catalytic domain (1);	0.036710	0.85682	D	0.000000	D	0.98710	0.9567	L	0.52364	1.645	0.58432	D	0.999999	B;B;P;P	0.44776	0.387;0.374;0.843;0.716	B;B;P;P	0.48815	0.194;0.194;0.591;0.511	D	0.97965	1.0340	10	0.51188	T	0.08	-23.3976	13.0393	0.58889	0.8655:0.1345:0.0:0.0	.	467;467;467;467	Q07837;B8ZZK1;Q4J6B5;Q4J6B6	SLC31_HUMAN;.;.;.	V	467;467;403;467;467;467;189;87;98	ENSP00000260649:M467V;ENSP00000387308:M467V;ENSP00000386954:M467V;ENSP00000386620:M467V;ENSP00000386709:M189V;ENSP00000386852:M87V;ENSP00000386677:M98V	ENSP00000260649:M467V	M	+	1	0	SLC3A1	44393295	1.000000	0.71417	1.000000	0.80357	0.792000	0.44763	5.273000	0.65564	0.987000	0.38709	0.477000	0.44152	ATG		0.408	SLC3A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250676.1	NM_000341		G	44539791	A	G	44539791	3	3	596	1	0	0	0	0	1	0	0	0	14639	217	8	3	1429	3	SLC3A1	2	44539791	Missense_Mutation	SNP	A	TCGA-G7-A4TM-01A-11D-A31X-10		44539791	198659582	8	35565										
DCBLD2	131566	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	98600601	98600601	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	gggcctagtacagtgtgtccAcatccatcacctttaaaaaa	7	11	1	0			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr3:98600601A>G	ENST00000326840.6	-	2	578	c.216T>C	c.(214-216)tgT>tgC	p.C72C	DCBLD2_ENST00000326857.9_Silent_p.C72C|DCBLD2_ENST00000469648.1_Intron	NM_080927.3	NP_563615.3	Q96PD2	DCBD2_HUMAN	discoidin, CUB and LCCL domain containing 2	72	CUB. {ECO:0000255|PROSITE- ProRule:PRU00059}.				cell adhesion (GO:0007155)|intracellular receptor signaling pathway (GO:0030522)|negative regulation of cell growth (GO:0030308)|wound healing (GO:0042060)	cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)				breast(1)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(3)|lung(7)|ovary(2)|prostate(1)|stomach(2)	25						CAGTGTGTCCACATCCATCAC	0.363																																																0													127	119	121					3																	98600601		1874	4109	5983	SO:0001819	synonymous_variant	131566				CCDS46878.1	3q12.2	2006-04-12			ENSG00000057019	ENSG00000057019			24627	protein-coding gene	gene with protein product		608698				11447234	Standard	NM_080927		Approved	CLCP1, ESDN	uc003dtd.3	Q96PD2	OTTHUMG00000151985	ENST00000326840.6:c.216T>C	3.37:g.98600601A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7WNL1|D3DN41|Q8N6M4|Q8TDX2	Silent	SNP	ENST00000326840.6	37	CCDS46878.1																																																																																				0.363	DCBLD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324675.2	NM_080927		G	98600601	A	G	98600601	2	3	596	1	0	0	0	0	0	0	0	1	4283	157	6	3		3	DCBLD2	3	98600601	Silent	SNP	A	TCGA-G7-A4TM-01A-11D-A31X-10		98600601	99421829	9	35566										
EXOSC9	5393	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	122722615	122722615	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ctctcaaactgcgaacgccgCttcctactccgtgccatcga	7	17	1	0	rs150604288		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr4:122722615C>T	ENST00000243498.5	+	1	144	c.36C>T	c.(34-36)cgC>cgT	p.R12R	EXOSC9_ENST00000379663.3_Silent_p.R12R|EXOSC9_ENST00000509980.1_3'UTR|EXOSC9_ENST00000512454.1_5'Flank	NM_005033.2	NP_005024.2	Q06265	EXOS9_HUMAN	exosome component 9	12	ARE binding.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay (GO:0043928)|gene expression (GO:0010467)|immune response (GO:0006955)|mRNA metabolic process (GO:0016071)|nuclear mRNA surveillance (GO:0071028)|nuclear polyadenylation-dependent rRNA catabolic process (GO:0071035)|nuclear-transcribed mRNA catabolic process (GO:0000956)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|positive regulation of cell growth (GO:0030307)|RNA metabolic process (GO:0016070)|RNA phosphodiester bond hydrolysis, exonucleolytic (GO:0090503)|rRNA processing (GO:0006364)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|exosome (RNase complex) (GO:0000178)|intermediate filament cytoskeleton (GO:0045111)|nuclear exosome (RNase complex) (GO:0000176)|nucleolus (GO:0005730)|nucleus (GO:0005634)	3'-5'-exoribonuclease activity (GO:0000175)|AU-rich element binding (GO:0017091)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			cervix(1)|endometrium(2)|kidney(2)|large_intestine(6)|lung(4)|urinary_tract(1)	16						GCGAACGCCGCTTCCTACTCC	0.582																																																0													84	82	83					4																	122722615		2203	4300	6503	SO:0001819	synonymous_variant	5393			M58460	CCDS3722.2, CCDS34057.1	4q27	2010-05-07	2004-06-16	2004-06-18	ENSG00000123737	ENSG00000123737	3.1.13.-		9137	protein-coding gene	gene with protein product	"polymyositis/scleroderma autoantigen 1 (75kD)"	606180	"polymyositis/scleroderma autoantigen 1, 75kDa"	PMSCL1			Standard	XR_427545		Approved	PM/Scl-75, Rrp45p, RRP45, p5, p6	uc003idz.3	Q06265	OTTHUMG00000128783	ENST00000243498.5:c.36C>T	4.37:g.122722615C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q12883|Q4W5P5|Q86Y41|Q86Y48	Silent	SNP	ENST00000243498.5	37	CCDS3722.2																																																																																				0.582	EXOSC9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250708.2	NM_005033		T	122722615	C	T	122722615	2	4	596	1	0	0	0	0	0	0	0	1	5323	784	28	2		2	EXOSC9	4	122722615	Silent	SNP	C	TCGA-G7-A4TM-01A-11D-A31X-10		122722615	68431661	10	35567										
RGNEF	64283	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	73207182	73207182	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	tttagtacaaatgtcatttaAcactttcaacaaactgaatc	3	8	2	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr5:73207182A>T	ENST00000426542.2	+	34	4750	c.4730A>T	c.(4729-4731)aAc>aTc	p.N1577I	ARHGEF28_ENST00000545377.1_Missense_Mutation_p.N1577I|ARHGEF28_ENST00000296794.6_Missense_Mutation_p.N1577I|ARHGEF28_ENST00000513042.2_Missense_Mutation_p.N1577I|ARHGEF28_ENST00000296799.4_Missense_Mutation_p.N1264I|ARHGEF28_ENST00000437974.1_Missense_Mutation_p.N1577I|ARHGEF28_ENST00000512883.1_Missense_Mutation_p.N497I|ARHGEF28_ENST00000287898.5_Missense_Mutation_p.N1533I			Q8N1W1	ARG28_HUMAN	Rho guanine nucleotide exchange factor (GEF) 28	1577	Interaction with microtubules. {ECO:0000250}.|Mediates cytoplasmic retention and interaction with MAPK8IP1. {ECO:0000250}.				central nervous system neuron axonogenesis (GO:0021955)|intracellular signal transduction (GO:0035556)|neurofilament cytoskeleton organization (GO:0060052)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|RNA binding (GO:0003723)										ATGTCATTTAACACTTTCAAC	0.363																																																0													76	70	72					5																	73207182		1930	4126	6056	SO:0001583	missense	64283				CCDS47231.1, CCDS47231.2, CCDS54870.1, CCDS58957.1	5q13.2	2012-08-08			ENSG00000214944	ENSG00000214944			30322	protein-coding gene	gene with protein product		612790				9199174, 11058585	Standard	NM_001177693		Approved	RGNEF, p190RhoGEF, RIP2	uc010izf.3	Q8N1W1	OTTHUMG00000162454	ENST00000426542.2:c.4730A>T	5.37:g.73207182A>T	ENSP00000412175:p.Asn1577Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RXG7|B4E3K4|B5MDA3|B7ZW32|E9PC75|Q8NCM7|Q96E37|Q9H6L3|Q9H6W0	Missense_Mutation	SNP	ENST00000426542.2	37	CCDS54870.1	.	.	.	.	.	.	.	.	.	.	A	15.30	2.793921	0.50102	.	.	ENSG00000214944	ENST00000296794;ENST00000545377;ENST00000513042;ENST00000287898;ENST00000437974;ENST00000426542;ENST00000296799;ENST00000512883	T;T;T;T;T;T;T;T	0.36157	2.92;2.93;2.88;2.62;2.93;2.88;2.72;1.27	5.3	5.3	0.74995	.	0.000000	0.35349	U	0.003279	T	0.53481	0.1799	M	0.69823	2.125	0.32983	D	0.52386	P;P;P;D;P	0.62365	0.692;0.916;0.951;0.991;0.95	B;P;P;D;P	0.64042	0.232;0.604;0.626;0.921;0.65	T	0.68356	-0.5430	10	0.87932	D	0	.	8.6768	0.34185	0.9063:0.0:0.0937:0.0	.	1264;1577;1577;497;1577	B5MDA3;Q8N1W1;E9PC75;D6RGZ3;Q8N1W1-4	.;RGNEF_HUMAN;.;.;.	I	1577;1577;1577;1533;1577;1577;1264;497	ENSP00000296794:N1577I;ENSP00000441913:N1577I;ENSP00000441436:N1577I;ENSP00000287898:N1533I;ENSP00000411459:N1577I;ENSP00000412175:N1577I;ENSP00000296799:N1264I;ENSP00000421081:N497I	ENSP00000287898:N1533I	N	+	2	0	RP11-428C6.1	73242938	0.998000	0.40836	0.986000	0.45419	0.532000	0.34746	3.430000	0.52807	2.006000	0.58801	0.443000	0.29094	AAC		0.363	ARHGEF28-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000368975.1			T	73207182	A	T	73207182	3	4	596	1	0	0	0	0	1	0	0	0	13296	43	2	5	4864	5	RGNEF	5	73207182	Missense_Mutation	SNP	A	TCGA-G7-A4TM-01A-11D-A31X-10		73207182	107708078	11	35568										
MAML1	9794	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	179201053	179201053	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ggccaacaggaccggggtgtGgctcagttccctggctccca	14	14	1	0			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr5:179201053G>A	ENST00000292599.3	+	5	2489	c.2226G>A	c.(2224-2226)gtG>gtA	p.V742V	MAML1_ENST00000503050.1_Intron	NM_014757.4	NP_055572.1			mastermind-like 1 (Drosophila)											central_nervous_system(1)|cervix(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(16)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	36	all_cancers(89;0.000197)|all_epithelial(37;6.7e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0308)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACCGGGGTGTGGCTCAGTTCC	0.592																																																0													54	55	55					5																	179201053		2203	4300	6503	SO:0001819	synonymous_variant	9794			D83785	CCDS34315.1	5q35	2008-07-18	2001-11-28			ENSG00000161021			13632	protein-coding gene	gene with protein product	"mastermind homolog"	605424	"mastermind (drosophila)-like 1"			11101851, 11390662	Standard	NM_014757		Approved	KIAA0200, Mam-1	uc003mkm.3	Q92585		ENST00000292599.3:c.2226G>A	5.37:g.179201053G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000292599.3	37	CCDS34315.1																																																																																				0.592	MAML1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372316.2	NM_014757		A	179201053	G	A	179201053	2	1	596	1	0	0	0	0	0	0	0	1	9212	1335	47	2		2	MAML1	5	179201053	Silent	SNP	G	TCGA-G7-A4TM-01A-11D-A31X-10	105993871	179201053	1714207	12	35569										
DSP	1832	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	7584156	7584156	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	gacaacctgtgaccgtcactGagctagtagattctggtata	10	9	2	3			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr6:7584156G>C	ENST00000379802.3	+	24	7002	c.6661G>C	c.(6661-6663)Gag>Cag	p.E2221Q	DSP_ENST00000418664.2_Missense_Mutation_p.E1622Q	NM_004415.2	NP_004406.2	P15924	DESP_HUMAN	desmoplakin	2221	Globular 2.				adherens junction organization (GO:0034332)|apoptotic process (GO:0006915)|bundle of His cell to Purkinje myocyte communication (GO:0086069)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|desmosome organization (GO:0002934)|epidermis development (GO:0008544)|intermediate filament organization (GO:0045109)|keratinocyte differentiation (GO:0030216)|peptide cross-linking (GO:0018149)|protein localization to adherens junction (GO:0071896)|regulation of heart rate by cardiac conduction (GO:0086091)|single organismal cell-cell adhesion (GO:0016337)|ventricular cardiac muscle cell action potential (GO:0086005)|ventricular compact myocardium morphogenesis (GO:0003223)|wound healing (GO:0042060)	basolateral plasma membrane (GO:0016323)|cornified envelope (GO:0001533)|desmosome (GO:0030057)|extracellular vesicular exosome (GO:0070062)|fascia adherens (GO:0005916)|intercalated disc (GO:0014704)|intermediate filament (GO:0005882)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	poly(A) RNA binding (GO:0044822)|protein binding, bridging (GO:0030674)|protein kinase C binding (GO:0005080)|scaffold protein binding (GO:0097110)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			biliary_tract(1)|breast(6)|central_nervous_system(7)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(16)|liver(2)|lung(27)|ovary(4)|prostate(1)|skin(8)|stomach(3)|upper_aerodigestive_tract(7)|urinary_tract(5)	101	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		GACCGTCACTGAGCTAGTAGA	0.458																																																0													119	109	112					6																	7584156		2203	4300	6503	SO:0001583	missense	1832			J05211	CCDS4501.1, CCDS47368.1	6p24.3	2014-09-17	2003-05-20		ENSG00000096696	ENSG00000096696			3052	protein-coding gene	gene with protein product		125647	"desmoplakin (DPI, DPII)"			1889810	Standard	NM_004415		Approved	KPPS2, PPKS2, DPI, DPII	uc003mxp.1	P15924	OTTHUMG00000014212	ENST00000379802.3:c.6661G>C	6.37:g.7584156G>C	ENSP00000369129:p.Glu2221Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTT2|D7RX09|O75993|Q14189|Q9UHN4	Missense_Mutation	SNP	ENST00000379802.3	37	CCDS4501.1	.	.	.	.	.	.	.	.	.	.	G	16.06	3.015584	0.54468	.	.	ENSG00000096696	ENST00000379802;ENST00000418664	T;T	0.70399	-0.48;-0.48	5.62	5.62	0.85841	.	0.098059	0.45361	D	0.000376	T	0.74114	0.3674	L	0.48877	1.53	0.36056	D	0.841104	P;D	0.76494	0.526;0.999	B;P	0.60886	0.141;0.88	T	0.72440	-0.4293	10	0.41790	T	0.15	.	20.0281	0.97530	0.0:0.0:1.0:0.0	.	1669;2221	Q4LE79;P15924	.;DESP_HUMAN	Q	2221;1622	ENSP00000369129:E2221Q;ENSP00000396591:E1622Q	ENSP00000369129:E2221Q	E	+	1	0	DSP	7529155	1.000000	0.71417	0.996000	0.52242	0.988000	0.76386	6.483000	0.73617	2.818000	0.97014	0.655000	0.94253	GAG		0.458	DSP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039786.2	NM_004415		C	7584156	G	C	7584156	3	2	596	1	0	0	0	0	1	0	0	0	4783	1291	45	4	6755	4	DSP	6	7584156	Missense_Mutation	SNP	G	TCGA-G7-A4TM-01A-11D-A31X-10		7584156	163530911	13	35570										
ZP3	7784	ucsc.edu	37	chr7	76069823	76069823	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	tggaaggctcggctgacatcTgtcaatgctgtaacaaaggt	12	8	2	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr7:76069823T>A	ENST00000394857.3	+	7	1013	c.955T>A	c.(955-957)Tgt>Agt	p.C319S	ZP3_ENST00000336517.4_Missense_Mutation_p.C268S|ZP3_ENST00000416245.1_Missense_Mutation_p.C143S|ZP3_ENST00000467555.1_3'UTR	NM_001110354.1	NP_001103824.1	P21754	ZP3_HUMAN	zona pellucida glycoprotein 3 (sperm receptor)	319					binding of sperm to zona pellucida (GO:0007339)|blastocyst formation (GO:0001825)|calcium ion transmembrane transport (GO:0070588)|egg coat formation (GO:0035803)|humoral immune response mediated by circulating immunoglobulin (GO:0002455)|intracellular protein transport (GO:0006886)|intracellular signal transduction (GO:0035556)|manganese ion transmembrane transport (GO:0071421)|manganese ion transport (GO:0006828)|multicellular organism reproduction (GO:0032504)|negative regulation of binding of sperm to zona pellucida (GO:2000360)|negative regulation of transcription, DNA-templated (GO:0045892)|oocyte development (GO:0048599)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of acrosomal vesicle exocytosis (GO:2000368)|positive regulation of acrosome reaction (GO:2000344)|positive regulation of antral ovarian follicle growth (GO:2000388)|positive regulation of calcium ion import (GO:0090280)|positive regulation of humoral immune response (GO:0002922)|positive regulation of inflammatory response (GO:0050729)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interleukin-4 production (GO:0032753)|positive regulation of leukocyte migration (GO:0002687)|positive regulation of ovarian follicle development (GO:2000386)|positive regulation of phosphatidylinositol biosynthetic process (GO:0010513)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of T cell proliferation (GO:0042102)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of type IV hypersensitivity (GO:0001809)|protein kinase C signaling (GO:0070528)|single fertilization (GO:0007338)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|multivesicular body (GO:0005771)|outer acrosomal membrane (GO:0002081)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|proteinaceous extracellular matrix (GO:0005578)|secretory granule (GO:0030141)	acrosin binding (GO:0032190)|carbohydrate binding (GO:0030246)|manganese ion transmembrane transporter activity (GO:0005384)|signal transducer activity (GO:0004871)|store-operated calcium channel activity (GO:0015279)			endometrium(1)|large_intestine(3)|lung(2)|skin(1)	7						GGCTGACATCTGTCAATGCTG	0.512																																																0													91	97	95					7																	76069823		2203	4300	6503	SO:0001583	missense	7784			M60504	CCDS5586.1, CCDS47618.1	7q11.23	2014-07-04	2002-09-17	2002-09-20	ENSG00000188372	ENSG00000188372		"Zona pellucida glycoproteins"	13189	protein-coding gene	gene with protein product		182889	"zona pellucida glycoprotein 3A (sperm receptor)"	ZP3A, ZP3B		1478648	Standard	NM_007155		Approved	ZP3-424, ZP3-372, ZPC	uc003ufd.4	P21754	OTTHUMG00000130575	ENST00000394857.3:c.955T>A	7.37:g.76069823T>A	ENSP00000378326:p.Cys319Ser	Somatic		WXS	Illumina HiSeq		Q06633|Q29RW0	Missense_Mutation	SNP	ENST00000394857.3	37	CCDS47618.1	.	.	.	.	.	.	.	.	.	.	t	15.09	2.731094	0.48939	.	.	ENSG00000188372	ENST00000336517;ENST00000394857;ENST00000544121;ENST00000416245	T;T;T	0.78924	-0.62;-0.63;-1.22	4.96	4.96	0.65561	.	0.000000	0.85682	U	0.000000	D	0.88403	0.6427	M	0.86864	2.845	0.50467	D	0.999878	D;D	0.89917	1.0;1.0	D;D	0.91635	0.997;0.999	D	0.89966	0.4090	10	0.87932	D	0	-14.8704	11.3228	0.49433	0.0:0.0:0.0:1.0	.	268;319	P21754-3;P21754	.;ZP3_HUMAN	S	268;319;319;143	ENSP00000337310:C268S;ENSP00000378326:C319S;ENSP00000411955:C143S	ENSP00000337310:C268S	C	+	1	0	ZP3	75907759	1.000000	0.71417	0.978000	0.43139	0.083000	0.17756	5.311000	0.65786	2.011000	0.59026	0.459000	0.35465	TGT		0.512	ZP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253004.1			A	76069823	T	A	76069823	3	1	596	1	0	0	0	0	1	0	0	0	18229	1580	55	5	981	5	ZP3	7	76069823	Missense_Mutation	SNP	T	TCGA-G7-A4TM-01A-11D-A31X-10		76069823	83068840	14	35571										
MLL3	58508	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	151874152	151874158	+	Frame_Shift_Del	DEL	TTTTTGG	TTTTTGG	-													0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	tttgttttcttgttccttttTttttggttcaacagatacac					rs79763944|rs78116609		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	TTTTTGG	TTTTTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr7:151874152_151874158delTTTTTGG	ENST00000262189.6	-	38	8598_8604	c.8380_8386delCCAAAAA	c.(8380-8388)ccaaaaaaafs	p.PKK2794fs	KMT2C_ENST00000355193.2_Frame_Shift_Del_p.PKK2794fs	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	2794					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)										TGTTCCTTTTTTTTTGGTTCAACAGAT	0.357																																																0																																										SO:0001589	frameshift_variant	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.8380_8386delCCAAAAA	7.37:g.151874152_151874158delTTTTTGG	ENSP00000262189:p.Pro2794fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Frame_Shift_Del	DEL	ENST00000262189.6	37	CCDS5931.1																																																																																				0.357	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			-	151874158	TTTTTGG	-	151874152	7	5	596	1	0	1	0	1	0	0	0	0	9629	1850	64	0	6437	0	MLL3	7	151874152	Frame_Shift_Del	DEL	TTTTTGG	TCGA-G7-A4TM-01A-11D-A31X-10	75804329	151874152	7264511	15	35572										
RBM33	155435	broad.mit.edu	37	chr7	155532557	155532557	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	accccagcacccaccacagcAcccgccgcagcaccagcacc	6	24	0	0			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr7:155532557A>C	ENST00000401878.3	+	12	2084	c.1886A>C	c.(1885-1887)cAc>cCc	p.H629P		NM_053043.2	NP_444271.2	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	629	His-rich.|Pro-rich.						nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(3)|cervix(1)|endometrium(8)|kidney(3)|large_intestine(4)|lung(6)|ovary(1)|upper_aerodigestive_tract(1)	27	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)		ccaccacagcacccgccgcag	0.706																																																0													12	12	12					7																	155532557		1884	3539	5423	SO:0001583	missense	155435			AL832196	CCDS5941.2	7q36.3	2013-02-12			ENSG00000184863	ENSG00000184863		"RNA binding motif (RRM) containing"	27223	protein-coding gene	gene with protein product			"proline rich 8"	PRR8			Standard	NM_053043		Approved	DKFZp686F102, MGC20460, DKFZp434D1319	uc010lqk.1	Q96EV2	OTTHUMG00000150260	ENST00000401878.3:c.1886A>C	7.37:g.155532557A>C	ENSP00000384160:p.His629Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A4D244|B5MC24|Q52LF5|Q75LN9|Q75ML5|Q9NSV0	Missense_Mutation	SNP	ENST00000401878.3	37	CCDS5941.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	7.292|7.292	0.611250|0.611250	0.14066|0.14066	.|.	.|.	ENSG00000184863|ENSG00000184863	ENST00000401878|ENST00000392761	T|.	0.45276|.	0.9|.	4.59|4.59	4.59|4.59	0.56863|0.56863	.|.	0.000000|.	0.64402|.	D|.	0.000010|.	T|T	0.33469|0.33469	0.0864|0.0864	N|N	0.08118|0.08118	0|0	0.80722|0.80722	D|D	1|1	B;B|.	0.09022|.	0.002;0.002|.	B;B|.	0.11329|.	0.006;0.006|.	T|T	0.14952|0.14952	-1.0454|-1.0454	9|5	.|.	.|.	.|.	.|.	9.2613|9.2613	0.37614|0.37614	0.8184:0.1816:0.0:0.0|0.8184:0.1816:0.0:0.0	.|.	346;629|.	B4DVQ2;Q96EV2|.	.;RBM33_HUMAN|.	P|P	629|401	ENSP00000384160:H629P|.	.|.	H|T	+|+	2|1	0|0	RBM33|RBM33	155225318|155225318	1.000000|1.000000	0.71417|0.71417	0.131000|0.131000	0.22000|0.22000	0.206000|0.206000	0.24218|0.24218	3.795000|3.795000	0.55499|0.55499	1.697000|1.697000	0.51169|0.51169	0.383000|0.383000	0.25322|0.25322	CAC|ACC		0.706	RBM33-007	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000317225.3	NM_001008408		C	155532557	A	C	155532557	3	2	596	1	0	0	0	0	1	0	0	0	13143	159	6	5	1932	5	RBM33	7	155532557	Missense_Mutation	SNP	A	TCGA-G7-A4TM-01A-11D-A31X-10	3658405	155532557	3606106	16	35573										
NAT1	9	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	18080420	18080420	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	aaacatggtgatagatttttTactatttagaataaggagta	8	2	0	3			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr8:18080420T>C	ENST00000517492.1	+	3	1502	c.864T>C	c.(862-864)ttT>ttC	p.F288F	NAT1_ENST00000518029.1_Silent_p.F288F|NAT1_ENST00000541942.1_Silent_p.F288F|NAT1_ENST00000520546.1_Silent_p.F288F|NAT1_ENST00000535084.1_Silent_p.F288F|NAT1_ENST00000545197.1_Silent_p.F350F|NAT1_ENST00000307719.4_Silent_p.F288F|NAT1_ENST00000539092.1_Silent_p.F288F			Q8IZM9	S38A6_HUMAN	N-acetyltransferase 1 (arylamine N-acetyltransferase)	0					amino acid transport (GO:0006865)|sodium ion transport (GO:0006814)	integral component of membrane (GO:0016021)				NS(1)|breast(1)|endometrium(3)|kidney(1)|lung(2)|urinary_tract(1)	9				Colorectal(111;0.0519)|COAD - Colon adenocarcinoma(73;0.208)		ATAGATTTTTTACTATTTAGA	0.343																																																0													28	30	29					8																	18080420		2185	4285	6470	SO:0001819	synonymous_variant	9			BC047666	CCDS6007.1, CCDS55205.1	8p22	2012-01-18			ENSG00000171428	ENSG00000171428	2.3.1.5		7645	protein-coding gene	gene with protein product		108345		AAC1		7773298	Standard	NM_001160174		Approved		uc003wyt.3	P18440	OTTHUMG00000097001	ENST00000517492.1:c.864T>C	8.37:g.18080420T>C		Somatic		WXS	Illumina HiSeq	Phase_I	C9JWA6|Q86SY5	Silent	SNP	ENST00000517492.1	37	CCDS6007.1																																																																																				0.343	NAT1-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374828.1	NM_000662		C	18080420	T	C	18080420	2	2	596	1	0	0	0	0	0	0	0	1	10180	1751	61	3		3	NAT1	8	18080420	Silent	SNP	T	TCGA-G7-A4TM-01A-11D-A31X-10		18080420	128283602	17	35574										
RNF139	11236	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	125487509	125487509	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	agccggttctgcatcgtgctCcagatcttcctccggctctt	9	15	3	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr8:125487509C>T	ENST00000303545.3	+	1	531	c.159C>T	c.(157-159)ctC>ctT	p.L53L	RNF139-AS1_ENST00000499418.2_lincRNA	NM_007218.3	NP_009149.2			ring finger protein 139											breast(1)|endometrium(3)|kidney(3)|large_intestine(6)|liver(1)|lung(4)|prostate(1)|skin(1)	20	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			GCATCGTGCTCCAGATCTTCC	0.647																																																0													80	83	82					8																	125487509		2203	4300	6503	SO:0001819	synonymous_variant	11236			AF064801	CCDS6350.1	8q24	2013-01-09			ENSG00000170881	ENSG00000170881		"RING-type (C3HC4) zinc fingers"	17023	protein-coding gene	gene with protein product		603046				9689122	Standard	NM_007218		Approved	TRC8, RCA1, HRCA1	uc003yrc.3	Q8WU17	OTTHUMG00000165072	ENST00000303545.3:c.159C>T	8.37:g.125487509C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000303545.3	37	CCDS6350.1																																																																																				0.647	RNF139-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000381692.1	NM_007218		T	125487509	C	T	125487509	2	4	596	1	0	0	0	0	0	0	0	1	13455	842	30	2		2	RNF139	8	125487509	Silent	SNP	C	TCGA-G7-A4TM-01A-11D-A31X-10	107407089	125487509	20876513	18	35575										
ELAVL2	1993	broad.mit.edu	37	chr9	23762097	23762097	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ctgtgtcatgttctgaggaaGgtagttgactattaagttgg	13	4	2	2			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr9:23762097G>T	ENST00000397312.2	-	2	410	c.136C>A	c.(136-138)Ctt>Att	p.L46I	ELAVL2_ENST00000380110.4_Missense_Mutation_p.L75I|ELAVL2_ENST00000380117.1_Missense_Mutation_p.L46I|ELAVL2_ENST00000462649.1_5'Flank|ELAVL2_ENST00000223951.6_Missense_Mutation_p.L46I|ELAVL2_ENST00000544538.1_Missense_Mutation_p.L46I	NM_004432.3	NP_004423.2	Q12926	ELAV2_HUMAN	ELAV like neuron-specific RNA binding protein 2	46	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				regulation of transcription, DNA-templated (GO:0006355)		mRNA 3'-UTR binding (GO:0003730)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(20)|ovary(2)|skin(1)|stomach(1)|urinary_tract(1)	39				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		TTCTGAGGAAGGTAGTTGACT	0.428																																																0													295	267	277					9																	23762097		2203	4300	6503	SO:0001583	missense	1993			BC030692	CCDS6515.1, CCDS55298.1	9p21	2013-10-03	2013-10-03		ENSG00000107105	ENSG00000107105		"RNA binding motif (RRM) containing"	3313	protein-coding gene	gene with protein product	"Hu antigen B"	601673	"ELAV (embryonic lethal, abnormal vision, Drosophila)-like 2", "ELAV (embryonic lethal, abnormal vision, Drosophila)-like 2 (Hu antigen B)"			8812435	Standard	NM_004432		Approved	HuB, HEL-N1	uc003zpu.3	Q12926	OTTHUMG00000019700	ENST00000397312.2:c.136C>A	9.37:g.23762097G>T	ENSP00000380479:p.Leu46Ile	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRK3|Q13235|Q59G15|Q8NEM4|Q9H1Q8	Missense_Mutation	SNP	ENST00000397312.2	37	CCDS6515.1	.	.	.	.	.	.	.	.	.	.	G	22.8	4.332086	0.81801	.	.	ENSG00000107105	ENST00000223951;ENST00000397312;ENST00000544538;ENST00000380110;ENST00000380117;ENST00000359598;ENST00000440102	T;D;D;D;T	0.85861	2.3;-2.04;-2.04;-2.04;2.3	5.92	5.92	0.95590	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.000000	0.85682	D	0.000000	D	0.89884	0.6844	L	0.37466	1.105	0.80722	D	1	D;D	0.76494	0.998;0.999	D;D	0.85130	0.99;0.997	D	0.90202	0.4258	10	0.87932	D	0	.	20.33	0.98713	0.0:0.0:1.0:0.0	.	46;46	Q12926;Q12926-2	ELAV2_HUMAN;.	I	46;46;46;46;46;74;46	ENSP00000223951:L46I;ENSP00000380479:L46I;ENSP00000440998:L46I;ENSP00000369460:L46I;ENSP00000412602:L46I	ENSP00000223951:L46I	L	-	1	0	ELAVL2	23752097	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	5.813000	0.69201	2.810000	0.96702	0.585000	0.79938	CTT		0.428	ELAVL2-201	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000051943.2	NM_004432		T	23762097	G	T	23762097	3	4	596	1	0	0	0	0	1	0	0	0	5052	1000	35	4	967	4	ELAVL2	9	23762097	Missense_Mutation	SNP	G	TCGA-G7-A4TM-01A-11D-A31X-10		23762097	117451334	19	35576										
CLTA	1211	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	36209297	36209297	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	gctttctacaaacaacccttCgctgacgtgattggttatgt	8	10	1	2			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr9:36209297C>T	ENST00000242285.6	+	5	639	c.519C>T	c.(517-519)ttC>ttT	p.F173F	CLTA_ENST00000538225.1_Intron|CLTA_ENST00000470744.1_Intron|CLTA_ENST00000396603.2_Silent_p.F173F|CLTA_ENST00000540080.1_Intron|CLTA_ENST00000466396.1_Silent_p.F121F|CLTA_ENST00000433436.2_Silent_p.F173F|CLTA_ENST00000345519.5_Intron			P09496	CLCA_HUMAN	clathrin, light chain A	173					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|axon guidance (GO:0007411)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|intracellular protein transport (GO:0006886)|membrane organization (GO:0061024)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|neurotrophin TRK receptor signaling pathway (GO:0048011)|post-Golgi vesicle-mediated transport (GO:0006892)	clathrin coat (GO:0030118)|clathrin coat of coated pit (GO:0030132)|clathrin coat of trans-Golgi network vesicle (GO:0030130)|clathrin complex (GO:0071439)|clathrin-coated endocytic vesicle membrane (GO:0030669)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)	clathrin heavy chain binding (GO:0032050)|peptide binding (GO:0042277)|structural molecule activity (GO:0005198)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(1)	6			STAD - Stomach adenocarcinoma(86;0.228)			AACAACCCTTCGCTGACGTGA	0.403																																																0													191	165	174					9																	36209297		2203	4300	6503	SO:0001819	synonymous_variant	1211				CCDS6600.1, CCDS6601.1, CCDS43802.1, CCDS55306.1, CCDS55307.1	9p13.3	2010-05-11	2010-05-11		ENSG00000122705	ENSG00000122705			2090	protein-coding gene	gene with protein product		118960	"clathrin, light polypeptide (Lca)"			7713494	Standard	NM_007096		Approved	Lca	uc003zzc.3	P09496	OTTHUMG00000019896	ENST00000242285.6:c.519C>T	9.37:g.36209297C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K4W3|B4DIN1|F5H6N3|Q2XPN5|Q53XZ1	Silent	SNP	ENST00000242285.6	37	CCDS6601.1																																																																																				0.403	CLTA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052405.1	NM_007096		T	36209297	C	T	36209297	2	4	596	1	0	0	0	0	0	0	0	1	3566	883	31	1		1	CLTA	9	36209297	Silent	SNP	C	TCGA-G7-A4TM-01A-11D-A31X-10	12447200	36209297	105004134	20	35577										
PRUNE2	158471	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr9	79318374	79318374	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	catttcccattcattgtcatGggtgacagcctgcaacgtaa	8	11	2	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr9:79318374G>A	ENST00000376718.3	-	9	8278	c.8155C>T	c.(8155-8157)Cat>Tat	p.H2719Y	PRUNE2_ENST00000428286.1_Missense_Mutation_p.H2360Y	NM_015225.2	NP_056040.2	Q8WUY3	PRUN2_HUMAN	prune homolog 2 (Drosophila)	2719					apoptotic process (GO:0006915)	cytoplasm (GO:0005737)	metal ion binding (GO:0046872)|pyrophosphatase activity (GO:0016462)			endometrium(1)|kidney(4)|large_intestine(3)|lung(7)|prostate(1)	16						TCATTGTCATGGGTGACAGCC	0.527																																																0													102	83	89					9																	79318374		1568	3582	5150	SO:0001583	missense	158471			BC019095	CCDS47982.1	9q21.32	2013-04-29	2006-11-24	2006-11-24	ENSG00000106772	ENSG00000106772			25209	protein-coding gene	gene with protein product	"olfaxin"	610691	"chromosome 9 open reading frame 65", "KIAA0367"	C9orf65, KIAA0367		16288218	Standard	NM_015225		Approved	BMCC1, BNIPXL, A214N16.3, bA214N16.3	uc010mpk.3	Q8WUY3	OTTHUMG00000020047	ENST00000376718.3:c.8155C>T	9.37:g.79318374G>A	ENSP00000365908:p.His2719Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KYC4|B4DQH8|O15073|Q58A63|Q5JUB6|Q5T304|Q5T476|Q6T2V6|Q6T2V7|Q8N665	Missense_Mutation	SNP	ENST00000376718.3	37	CCDS47982.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	17.75|17.75	3.465272|3.465272	0.63513|0.63513	.|.	.|.	ENSG00000106772|ENSG00000106772	ENST00000376718;ENST00000428286;ENST00000422033|ENST00000426088	T;T|.	0.49720|.	0.77;0.78|.	5.89|5.89	5.89|5.89	0.94794|0.94794	.|.	0.102782|.	0.43747|.	D|.	0.000523|.	T|T	0.71187|0.71187	0.3310|0.3310	M|M	0.64997|0.64997	1.995|1.995	0.80722|0.80722	D|D	1|1	P;P|.	0.51653|.	0.898;0.947|.	B;B|.	0.43867|.	0.434;0.335|.	T|T	0.68957|0.68957	-0.5272|-0.5272	10|5	0.72032|.	D|.	0.01|.	-6.6465|-6.6465	14.0742|14.0742	0.64880|0.64880	0.0:0.1938:0.8062:0.0|0.0:0.1938:0.8062:0.0	.|.	2719;2719|.	Q8WUY3-3;Q8WUY3|.	.;PRUN2_HUMAN|.	Y|L	2719;2360;2718|2040	ENSP00000365908:H2719Y;ENSP00000397425:H2360Y|.	ENSP00000365908:H2719Y|.	H|P	-|-	1|2	0|0	PRUNE2|PRUNE2	78508194|78508194	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.640000|0.640000	0.38277|0.38277	4.226000|4.226000	0.58606|0.58606	2.814000|2.814000	0.96858|0.96858	0.586000|0.586000	0.80456|0.80456	CAT|CCA		0.527	PRUNE2-003	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052730.2	NM_138818		A	79318374	G	A	79318374	3	1	596	1	0	0	0	0	1	0	0	0	12651	1348	47	2	1155	2	PRUNE2	9	79318374	Missense_Mutation	SNP	G	TCGA-G7-A4TM-01A-11D-A31X-10	43109077	79318374	61895057	21	35578										
WAPAL	23063	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	88227091	88227091	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	cagtttcacagagccttcggAttttttctttaattttgttc	6	8	2	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr10:88227091A>G	ENST00000298767.5	-	9	2787	c.2315T>C	c.(2314-2316)aTc>aCc	p.I772T	WAPAL_ENST00000372075.1_Missense_Mutation_p.I39T|WAPAL_ENST00000263070.7_Missense_Mutation_p.I39T	NM_015045.2	NP_055860.1	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog (Drosophila)	772	WAPL. {ECO:0000255|PROSITE- ProRule:PRU00603}.				mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of chromatin binding (GO:0035562)|negative regulation of DNA replication (GO:0008156)|negative regulation of sister chromatid cohesion (GO:0045875)|positive regulation of fibroblast proliferation (GO:0048146)|protein localization to chromatin (GO:0071168)|regulation of chromosome condensation (GO:0060623)|regulation of cohesin localization to chromatin (GO:0071922)|response to toxic substance (GO:0009636)|viral process (GO:0016032)	chromatin (GO:0000785)|chromosome (GO:0005694)|chromosome, centromeric region (GO:0000775)|cohesin complex (GO:0008278)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|microtubule cytoskeleton (GO:0015630)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|synaptonemal complex (GO:0000795)		p.I772T(1)		breast(2)|endometrium(2)|kidney(5)|large_intestine(6)|lung(13)|ovary(2)|stomach(1)	31						GAGCCTTCGGATTTTTTCTTT	0.368																																																1	Substitution - Missense(1)	lung(1)											180	167	171					10																	88227091		2203	4300	6503	SO:0001583	missense	23063			AB065003	CCDS7375.1	10q23.31	2006-12-08	2006-03-16	2006-03-16	ENSG00000062650	ENSG00000062650			23293	protein-coding gene	gene with protein product	"friend of EBNA2"	610754	"KIAA0261"	KIAA0261		9039502, 17112726	Standard	XM_006717726		Approved	FOE, WAPL	uc001kdo.3	Q7Z5K2	OTTHUMG00000018651	ENST00000298767.5:c.2315T>C	10.37:g.88227091A>G	ENSP00000298767:p.Ile772Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2B5|Q5VSK5|Q8IX10|Q92549	Missense_Mutation	SNP	ENST00000298767.5	37	CCDS7375.1	.	.	.	.	.	.	.	.	.	.	A	24.0	4.484052	0.84854	.	.	ENSG00000062650	ENST00000342368;ENST00000298767;ENST00000372076;ENST00000372075;ENST00000263070	T	0.48201	0.82	5.99	5.99	0.97316	Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.67316	0.2880	M	0.64997	1.995	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.87578	0.998;0.99;0.998;0.996	T	0.69537	-0.5119	10	0.72032	D	0.01	.	16.4943	0.84223	1.0:0.0:0.0:0.0	.	766;810;772;809	B2RTX8;E9PH12;Q7Z5K2;Q7Z5K2-2	.;.;WAPL_HUMAN;.	T	857;772;857;39;39	ENSP00000298767:I772T	ENSP00000263070:I39T	I	-	2	0	WAPAL	88217071	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.336000	0.96533	2.291000	0.77112	0.533000	0.62120	ATC		0.368	WAPAL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049151.2	NM_015045		G	88227091	A	G	88227091	3	3	596	1	0	0	0	0	1	0	0	0	17260	333	12	3	1301	3	WAPAL	10	88227091	Missense_Mutation	SNP	A	TCGA-G7-A4TM-01A-11D-A31X-10		88227091	47307656	22	35579										
MUC6	4588	bcgsc.ca	37	chr11	1016801	1016801	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	gtgggaagtgtggtctgaggGtgtgatggggttggataggt	22	1	1	2			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr11:1016801G>C	ENST00000421673.2	-	31	6050	c.6000C>G	c.(5998-6000)caC>caG	p.H2000Q		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	2000	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		TGGTCTGAGGGTGTGATGGGG	0.542																																																0													1371	1357	1362					11																	1016801		2203	4297	6500	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.6000C>G	11.37:g.1016801G>C	ENSP00000406861:p.His2000Gln	Somatic		WXS	Illumina HiSeq	Phase_1	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	6.842	0.524518	0.13066	.	.	ENSG00000184956	ENST00000421673	T	0.17528	2.27	2.76	-5.51	0.02568	.	.	.	.	.	T	0.10337	0.0253	L	0.50333	1.59	0.09310	N	1	B	0.27625	0.183	B	0.21708	0.036	T	0.29610	-1.0006	9	0.27082	T	0.32	.	1.062	0.01603	0.2629:0.2888:0.3017:0.1467	.	2000	Q6W4X9	MUC6_HUMAN	Q	2000	ENSP00000406861:H2000Q	ENSP00000406861:H2000Q	H	-	3	2	MUC6	1006801	0.000000	0.05858	0.000000	0.03702	0.011000	0.07611	-0.904000	0.04080	-1.588000	0.01627	0.306000	0.20318	CAC		0.542	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		C	1016801	G	C	1016801	3	2	596	1	0	0	0	0	1	0	0	0	9987	1252	44	4	1331	4	MUC6	11	1016801	Missense_Mutation	SNP	G	TCGA-G7-A4TM-01A-11D-A31X-10		1016801	133989715	23	35580										
AHNAK	79026	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	62301415	62301415	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	gtcacatccacagtgtaggcCgtgacccttctggtcactgt	10	13	3	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr11:62301415C>T	ENST00000378024.4	-	5	748	c.474G>A	c.(472-474)acG>acA	p.T158T	AHNAK_ENST00000257247.7_Intron|AHNAK_ENST00000530124.1_Intron	NM_001620.1	NP_001611.1	Q09666	AHNK_HUMAN	AHNAK nucleoprotein	158					protein oligomerization (GO:0051259)|regulation of RNA splicing (GO:0043484)|regulation of voltage-gated calcium channel activity (GO:1901385)	actin cytoskeleton (GO:0015629)|cell-cell contact zone (GO:0044291)|costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|vesicle (GO:0031982)	poly(A) RNA binding (GO:0044822)|S100 protein binding (GO:0044548)|structural molecule activity conferring elasticity (GO:0097493)			NS(3)|autonomic_ganglia(1)|breast(10)|central_nervous_system(5)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(33)|large_intestine(40)|liver(1)|lung(108)|ovary(13)|pancreas(4)|prostate(5)|skin(16)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(6)	268		Melanoma(852;0.155)				CAGTGTAGGCCGTGACCCTTC	0.532																																																0													136	119	124					11																	62301415		2202	4299	6501	SO:0001819	synonymous_variant	79026			M80899	CCDS31584.1, CCDS44625.1	11q12-q13	2008-02-05	2007-03-30		ENSG00000124942	ENSG00000124942			347	protein-coding gene	gene with protein product	"desmoyokin"	103390	"AHNAK nucleoprotein (desmoyokin)"			7987395, 12153988	Standard	NM_024060		Approved	MGC5395	uc001ntl.3	Q09666	OTTHUMG00000167558	ENST00000378024.4:c.474G>A	11.37:g.62301415C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A1A586	Silent	SNP	ENST00000378024.4	37	CCDS31584.1																																																																																				0.532	AHNAK-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395572.1	NM_024060		T	62301415	C	T	62301415	2	4	596	1	0	0	0	0	0	0	0	1	414	639	23	1		1	AHNAK	11	62301415	Silent	SNP	C	TCGA-G7-A4TM-01A-11D-A31X-10	61284614	62301415	72705101	24	35581										
PIWIL4	143689	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	94341805	94341805	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	aaagatgcactcagcaaggaCgtgatggttgttggatgcgt	14	6	1	2			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr11:94341805C>T	ENST00000299001.6	+	15	2107	c.1896C>T	c.(1894-1896)gaC>gaT	p.D632D	RP11-867G2.8_ENST00000537874.1_RNA|RP11-867G2.8_ENST00000536540.1_RNA	NM_152431.2	NP_689644.2	Q7Z3Z4	PIWL4_HUMAN	piwi-like RNA-mediated gene silencing 4	632	Piwi. {ECO:0000255|PROSITE- ProRule:PRU00150}.				cell differentiation (GO:0030154)|DNA methylation involved in gamete generation (GO:0043046)|gene silencing by RNA (GO:0031047)|meiotic nuclear division (GO:0007126)|multicellular organismal development (GO:0007275)|piRNA metabolic process (GO:0034587)|regulation of translation (GO:0006417)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|P granule (GO:0043186)|piP-body (GO:0071547)	piRNA binding (GO:0034584)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(9)|lung(10)|prostate(1)|skin(1)|urinary_tract(2)	30		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				TCAGCAAGGACGTGATGGTTG	0.393																																																0													269	236	247					11																	94341805		2201	4298	6499	SO:0001819	synonymous_variant	143689			AB079366	CCDS31656.1	11q12	2013-02-15	2013-02-15			ENSG00000134627		"Argonaute/PIWI family"	18444	protein-coding gene	gene with protein product		610315	"piwi-like 4 (Drosophila)"			12906857	Standard	NM_152431		Approved	FLJ36156, HIWI2, Miwi2	uc001pfa.3	Q7Z3Z4		ENST00000299001.6:c.1896C>T	11.37:g.94341805C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DEG5|Q68CZ4|Q8N8G9|Q8N9V8|Q8NEH2	Silent	SNP	ENST00000299001.6	37	CCDS31656.1																																																																																				0.393	PIWIL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396388.1	NM_152431		T	94341805	C	T	94341805	2	4	596	1	0	0	0	0	0	0	0	1	11967	535	19	1		1	PIWIL4	11	94341805	Silent	SNP	C	TCGA-G7-A4TM-01A-11D-A31X-10	32040390	94341805	40664711	25	35582										
PRB1	5542	broad.mit.edu	37	chr12	11506632	11506633	+	Intron	INS	-	-	GGA													0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	gtggtccttgtggctttcctINSggaggtgggggaccttgagg							TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr12:11506632_11506633insGGA	ENST00000500254.2	-	3	351				PRB1_ENST00000546254.1_Intron|PRB1_ENST00000545626.1_Intron	NM_005039.3|NM_199353.2	NP_005030.2|NP_955385.1	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1							extracellular region (GO:0005576)				NS(1)|central_nervous_system(1)|kidney(4)|large_intestine(1)|lung(9)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	20			OV - Ovarian serous cystadenocarcinoma(49;0.185)			GTGGCTTTCCTGGAGGTGGGGG	0.604																																																0																																										SO:0001627	intron_variant	5542				CCDS8642.1, CCDS55805.1	12p13.2	2012-10-02							9337	protein-coding gene	gene with protein product		180989				8317492	Standard	NM_199353		Approved	PM, PMF, PMS, PRB1M, PRB1L	uc001qzu.1	P04280		ENST00000500254.2:c.313+90->TCC	12.37:g.11506633_11506635dupGGA		Somatic		WXS	Illumina HiSeq	Phase_I	Q08805|Q15186|Q15187|Q15214|Q15215|Q16038	In_Frame_Ins	INS	ENST00000500254.2	37	CCDS8642.1																																																																																				0.604	PRB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000402312.1	NM_005039		GGA	11506633	-	GGA	11506632	6	5	596	0	1	1	1	0	0	0	0	0	12452	1567	55	0		0	PRB1	12	11506632	Intron	INS	-	TCGA-G7-A4TM-01A-11D-A31X-10		11506632	122345263	26	35583			1	70		3	2	24	N	T_-	3.714791e-05
PRB1	5542	broad.mit.edu	37	chr12	11506653	11506653	+	Intron	DEL	T	T	-													0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ggaggtgggggaccttgaggTctgttgcctccttgtggggg							TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr12:11506653delT	ENST00000500254.2	-	3	351				PRB1_ENST00000546254.1_Intron|PRB1_ENST00000545626.1_Intron	NM_005039.3|NM_199353.2	NP_005030.2|NP_955385.1	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1							extracellular region (GO:0005576)				NS(1)|central_nervous_system(1)|kidney(4)|large_intestine(1)|lung(9)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	20			OV - Ovarian serous cystadenocarcinoma(49;0.185)			GACCTTGAGGTCTGTTGCCTC	0.602																																																0													17	14	15					12																	11506653		1290	2283	3573	SO:0001627	intron_variant	5542				CCDS8642.1, CCDS55805.1	12p13.2	2012-10-02							9337	protein-coding gene	gene with protein product		180989				8317492	Standard	NM_199353		Approved	PM, PMF, PMS, PRB1M, PRB1L	uc001qzu.1	P04280		ENST00000500254.2:c.313+70A>-	12.37:g.11506653delT		Somatic		WXS	Illumina HiSeq	Phase_I	Q08805|Q15186|Q15187|Q15214|Q15215|Q16038	Frame_Shift_Del	DEL	ENST00000500254.2	37	CCDS8642.1																																																																																				0.602	PRB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000402312.1	NM_005039		-	11506653	T	-	11506653	6	5	596	0	1	1	0	1	0	0	0	0	12452	1664	58	0		0	PRB1	12	11506653	Intron	DEL	T	TCGA-G7-A4TM-01A-11D-A31X-10	21	11506653	122345242	27	35584	271	2	1	70		3	2	24	N	T_-	3.714791e-05
PRB1	5542	broad.mit.edu	37	chr12	11506655	11506656	+	Intron	INS	-	-	G													0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ggtgggggaccttgaggtctINSgttgcctccttgtgggggtg					rs371206768		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr12:11506655_11506656insG	ENST00000500254.2	-	3	351				PRB1_ENST00000546254.1_Intron|PRB1_ENST00000545626.1_Intron	NM_005039.3|NM_199353.2	NP_005030.2|NP_955385.1	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1							extracellular region (GO:0005576)				NS(1)|central_nervous_system(1)|kidney(4)|large_intestine(1)|lung(9)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	20			OV - Ovarian serous cystadenocarcinoma(49;0.185)			CCTTGAGGTCTGTTGCCTCCTT	0.604																																																0																																										SO:0001627	intron_variant	5542				CCDS8642.1, CCDS55805.1	12p13.2	2012-10-02							9337	protein-coding gene	gene with protein product		180989				8317492	Standard	NM_199353		Approved	PM, PMF, PMS, PRB1M, PRB1L	uc001qzu.1	P04280		ENST00000500254.2:c.313+67->C	12.37:g.11506656_11506656dupG		Somatic		WXS	Illumina HiSeq	Phase_I	Q08805|Q15186|Q15187|Q15214|Q15215|Q16038	Frame_Shift_Ins	INS	ENST00000500254.2	37	CCDS8642.1																																																																																				0.604	PRB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000402312.1	NM_005039		G	11506656	-	G	11506655	6	5	596	0	1	1	1	0	0	0	0	0	12452	1588	55	0		0	PRB1	12	11506655	Intron	INS	-	TCGA-G7-A4TM-01A-11D-A31X-10	2	11506655	122345240	28	35585	271	2	1	70		3	2	24	N	T_-	3.714791e-05
FAM60A	58516	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	31448170	31448170	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	aaagaaagatggactaacatGattccagtttttttttgatc	7	5	0	4			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr12:31448170G>A	ENST00000337682.4	-	3	594	c.226C>T	c.(226-228)Cat>Tat	p.H76Y	FAM60A_ENST00000395766.1_5'UTR|FAM60A_ENST00000542983.1_5'UTR|FAM60A_ENST00000454658.2_Missense_Mutation_p.H76Y|FAM60A_ENST00000539409.1_Intron	NM_001135812.1	NP_001129284.1	Q9NP50	FA60A_HUMAN	family with sequence similarity 60, member A	76					negative regulation of cell migration (GO:0030336)	Sin3 complex (GO:0016580)				large_intestine(1)|lung(2)	3	all_cancers(9;5.22e-13)|all_epithelial(9;4e-13)|all_lung(12;1.2e-11)|Lung NSC(12;2.17e-09)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0207)|Lung SC(12;0.0592)|Esophageal squamous(101;0.162)					GGACTAACATGATTCCAGTTT	0.373																																																0													82	74	77					12																	31448170		2203	4300	6503	SO:0001583	missense	58516			AF212220	CCDS8723.1	12p11.21	2012-11-30	2005-04-07	2005-04-07	ENSG00000139146	ENSG00000139146			30702	protein-coding gene	gene with protein product		615027	"chromosome 12 open reading frame 14"	C12orf14		11042152, 22984288, 22865885	Standard	NM_021238		Approved	TERA	uc001rke.3	Q9NP50	OTTHUMG00000168586	ENST00000337682.4:c.226C>T	12.37:g.31448170G>A	ENSP00000337477:p.His76Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUV8|Q9BSZ8	Missense_Mutation	SNP	ENST00000337682.4	37	CCDS8723.1	.	.	.	.	.	.	.	.	.	.	G	22.2	4.261331	0.80246	.	.	ENSG00000139146	ENST00000337682;ENST00000454658;ENST00000398170;ENST00000539004;ENST00000543615	T;T;T;T	0.63744	-0.06;-0.06;-0.06;-0.06	4.22	4.22	0.49857	.	0.000000	0.85682	D	0.000000	T	0.80586	0.4651	M	0.82323	2.585	0.80722	D	1	D;D	0.76494	0.989;0.999	D;D	0.76575	0.969;0.988	D	0.84590	0.0666	10	0.87932	D	0	-1.1171	17.1323	0.86729	0.0:0.0:1.0:0.0	.	76;117	Q9NP50;B7Z287	FA60A_HUMAN;.	Y	76;76;117;76;76	ENSP00000337477:H76Y;ENSP00000393279:H76Y;ENSP00000443881:H76Y;ENSP00000437363:H76Y	ENSP00000337477:H76Y	H	-	1	0	FAM60A	31339437	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	9.457000	0.97630	2.343000	0.79666	0.561000	0.74099	CAT		0.373	FAM60A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400347.1	NM_021238		A	31448170	G	A	31448170	3	1	596	1	0	0	0	0	1	0	0	0	5602	1290	45	2	455	2	FAM60A	12	31448170	Missense_Mutation	SNP	G	TCGA-G7-A4TM-01A-11D-A31X-10	19941515	31448170	102403725	29	35586										
METAP2	10988	broad.mit.edu	37	chr12	95867964	95867964	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ctctcgggcaacatggcgggTgtggaggaggtagcggcctc	18	10	1	0			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr12:95867964T>G	ENST00000323666.5	+	1	238	c.9T>G	c.(7-9)ggT>ggG	p.G3G	METAP2_ENST00000261220.9_Silent_p.G3G|METAP2_ENST00000550777.1_Silent_p.G3G|METAP2_ENST00000551840.1_Silent_p.G3G|METAP2_ENST00000546753.1_Silent_p.G3G	NM_006838.3	NP_006829.1			methionyl aminopeptidase 2											endometrium(3)|large_intestine(2)|lung(7)|prostate(1)	13						ACATGGCGGGTGTGGAGGAGG	0.652																																																0													34	42	39					12																	95867964		2203	4297	6500	SO:0001819	synonymous_variant	10988			U13261	CCDS9052.1	12q22	2014-09-04			ENSG00000111142		3.4.11.18		16672	protein-coding gene	gene with protein product	"Peptidase M"	601870				7644482, 8858118	Standard	NM_006838		Approved	MNPEP, p67, MAP2	uc001tec.3	P50579	OTTHUMG00000170280	ENST00000323666.5:c.9T>G	12.37:g.95867964T>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000323666.5	37	CCDS9052.1																																																																																				0.652	METAP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000408296.1	NM_006838		G	95867964	T	G	95867964	2	3	596	1	0	0	0	0	0	0	0	1	9494	1683	59	5		5	METAP2	12	95867964	Silent	SNP	T	TCGA-G7-A4TM-01A-11D-A31X-10	64419794	95867964	37983931	30	35587										
KCTD10	83892	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	109889450	109889450	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	gcgcttgatgtggatcctccGcacgcgctcgatccgctccc	11	17	0	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr12:109889450G>T	ENST00000228495.6	-	7	1173	c.892C>A	c.(892-894)Cgg>Agg	p.R298R	KCTD10_ENST00000538161.1_5'UTR|KCTD10_ENST00000540089.1_Silent_p.R117R|KCTD10_ENST00000424763.2_Silent_p.R117R|KCTD10_ENST00000540411.1_Silent_p.R272R	NM_031954.3	NP_114160.1	Q9H3F6	BACD3_HUMAN	potassium channel tetramerization domain containing 10	298					proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein homooligomerization (GO:0051260)|protein ubiquitination (GO:0016567)	Cul3-RING ubiquitin ligase complex (GO:0031463)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|TCTN-B9D complex (GO:0036038)				endometrium(2)|kidney(1)|large_intestine(2)|lung(4)|prostate(1)	10						TGGATCCTCCGCACGCGCTCG	0.721																																																0													53	49	50					12																	109889450		2203	4300	6503	SO:0001819	synonymous_variant	83892			BC040062	CCDS9128.1	12q24.12	2013-06-20	2013-06-20		ENSG00000110906	ENSG00000110906		"BTB/POZ domain containing"	23236	protein-coding gene	gene with protein product		613421	"potassium channel tetramerisation domain containing 10"			12477932	Standard	XM_005253946		Approved	MSTP028, BTBD28	uc001toi.1	Q9H3F6	OTTHUMG00000169253	ENST00000228495.6:c.892C>A	12.37:g.109889450G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q53HN2|Q59FV1|Q6PL47|Q96SU0	Silent	SNP	ENST00000228495.6	37	CCDS9128.1	.	.	.	.	.	.	.	.	.	.	G	9.426	1.084203	0.20309	.	.	ENSG00000110906	ENST00000538161	.	.	.	4.97	4.05	0.47172	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-17.5015	11.8876	0.52610	0.0:0.0:0.6832:0.3168	.	.	.	.	X	263	.	.	C	-	3	2	KCTD10	108373833	1.000000	0.71417	1.000000	0.80357	0.866000	0.49608	5.414000	0.66405	1.407000	0.46875	0.655000	0.94253	TGC		0.721	KCTD10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403099.1	NM_031954		T	109889450	G	T	109889450	2	4	596	1	0	0	0	0	0	0	0	1	8104	1086	38	4		4	KCTD10	12	109889450	Silent	SNP	G	TCGA-G7-A4TM-01A-11D-A31X-10	14021486	109889450	23962445	31	35588										
ELL3	80237	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	44067740	44067740	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	tacctcacttcccactgtgcCatgtgctcccttgaggatcc	7	16	1	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr15:44067740C>T	ENST00000319359.3	-	5	1193	c.552G>A	c.(550-552)atG>atA	p.M184I	SERF2_ENST00000381359.1_5'Flank|RP11-296A16.1_ENST00000417761.2_3'UTR|ELL3_ENST00000497465.1_5'Flank	NM_025165.2	NP_079441.1	Q9HB65	ELL3_HUMAN	elongation factor RNA polymerase II-like 3	184					DNA-templated transcription, elongation (GO:0006354)|negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:1902166)|positive regulation of DNA-templated transcription, elongation (GO:0032786)|positive regulation of neural precursor cell proliferation (GO:2000179)|positive regulation of neurogenesis (GO:0050769)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of epithelial to mesenchymal transition (GO:0010717)|snRNA transcription from RNA polymerase II promoter (GO:0042795)|spermatogenesis (GO:0007283)|stem cell differentiation (GO:0048863)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)	nucleolus (GO:0005730)|nucleus (GO:0005634)|transcription elongation factor complex (GO:0008023)	enhancer binding (GO:0035326)			cervix(1)|kidney(1)|large_intestine(5)|lung(4)|ovary(1)|skin(1)	13		all_cancers(109;7.57e-15)|all_epithelial(112;3.51e-12)|Lung NSC(122;4.72e-08)|all_lung(180;4.9e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;7.81e-07)		CCCACTGTGCCATGTGCTCCC	0.498											OREG0023092	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													154	133	140					15																	44067740		2198	4298	6496	SO:0001583	missense	80237			AF276512	CCDS10102.1	15q15.1	2008-02-05			ENSG00000128886	ENSG00000128886			23113	protein-coding gene	gene with protein product		609885				10882741	Standard	NM_025165		Approved	FLJ22637	uc001zsw.1	Q9HB65	OTTHUMG00000059936	ENST00000319359.3:c.552G>A	15.37:g.44067740C>T	ENSP00000320346:p.Met184Ile	Somatic	921	WXS	Illumina HiSeq	Phase_I	B3KQ66|B3KX08|Q6I9Z7|Q9H634	Missense_Mutation	SNP	ENST00000319359.3	37	CCDS10102.1	.	.	.	.	.	.	.	.	.	.	C	13.65	2.299310	0.40694	.	.	ENSG00000128886	ENST00000319359	T	0.29397	1.57	5.75	2.65	0.31530	.	0.896720	0.09670	N	0.771265	T	0.23492	0.0568	L	0.47716	1.5	0.28997	N	0.887675	B;B;B	0.06786	0.0;0.0;0.001	B;B;B	0.06405	0.001;0.001;0.002	T	0.30707	-0.9969	10	0.19147	T	0.46	-31.8363	4.8606	0.13581	0.1517:0.6198:0.1467:0.0818	.	184;184;138	B3KX08;Q9HB65;B3KQ66	.;ELL3_HUMAN;.	I	184	ENSP00000320346:M184I	ENSP00000320346:M184I	M	-	3	0	ELL3	41855032	0.017000	0.18338	0.948000	0.38648	0.979000	0.70002	-0.179000	0.09768	0.734000	0.32515	0.555000	0.69702	ATG		0.498	ELL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000133236.2	NM_025165		T	44067740	C	T	44067740	3	4	596	1	0	0	0	0	1	0	0	0	5066	594	21	2	669	2	ELL3	15	44067740	Missense_Mutation	SNP	C	TCGA-G7-A4TM-01A-11D-A31X-10		44067740	58463652	32	35589										
SGK269	79834	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	77450971	77450971	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	tgaagtgcagcccctgccatCttgcttcccaacaacagttc	7	15	1	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr15:77450971C>A	ENST00000560626.2	-	5	3680	c.3205G>T	c.(3205-3207)Gat>Tat	p.D1069Y	PEAK1_ENST00000312493.4_Missense_Mutation_p.D1069Y			Q9H792	PEAK1_HUMAN	pseudopodium-enriched atypical kinase 1	1069					cell migration (GO:0016477)|peptidyl-tyrosine phosphorylation (GO:0018108)|protein autophosphorylation (GO:0046777)|substrate adhesion-dependent cell spreading (GO:0034446)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)	ATP binding (GO:0005524)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)										CCCCTGCCATCTTGCTTCCCA	0.473																																																0													127	119	122					15																	77450971		1933	4139	6072	SO:0001583	missense	0				CCDS42062.1	15q24.3	2013-09-27			ENSG00000173517	ENSG00000173517			29431	protein-coding gene	gene with protein product		614248				16879967, 20534451	Standard	NM_024776		Approved	KIAA2002, sgk269		Q9H792	OTTHUMG00000172618	ENST00000560626.2:c.3205G>T	15.37:g.77450971C>A	ENSP00000452796:p.Asp1069Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZS78|Q8NAZ4|Q8NCM3|Q8TEG7	Missense_Mutation	SNP	ENST00000560626.2	37	CCDS42062.1	.	.	.	.	.	.	.	.	.	.	C	15.41	2.826500	0.50739	.	.	ENSG00000173517	ENST00000312493	T	0.69685	-0.42	5.4	4.49	0.54785	.	0.667769	0.14142	N	0.338611	T	0.52092	0.1713	N	0.14661	0.345	0.28725	N	0.902826	P	0.44090	0.826	B	0.41723	0.365	T	0.50717	-0.8795	10	0.59425	D	0.04	-3.0393	12.2917	0.54823	0.0:0.9219:0.0:0.0781	.	1069	Q9H792	PEAK1_HUMAN	Y	1069	ENSP00000309230:D1069Y	ENSP00000309230:D1069Y	D	-	1	0	AC087465.1	75238026	1.000000	0.71417	0.993000	0.49108	0.748000	0.42578	4.715000	0.61909	1.275000	0.44379	0.563000	0.77884	GAT		0.473	PEAK1-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419483.3			A	77450971	C	A	77450971	3	1	596	1	0	0	0	0	1	0	0	0	14224	913	32	4	2047	4	SGK269	15	77450971	Missense_Mutation	SNP	C	TCGA-G7-A4TM-01A-11D-A31X-10	33383231	77450971	25080421	33	35590										
CREBBP	1387	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	3860637	3860637	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ttggtgactgaagtattcttGatatctgtagggaaggtggg	15	3	2	3			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr16:3860637G>A	ENST00000262367.5	-	3	1751	c.942C>T	c.(940-942)atC>atT	p.I314I	CREBBP_ENST00000382070.3_Silent_p.I314I	NM_004380.2	NP_004371.2	Q92793	CBP_HUMAN	CREB binding protein	314	Interaction with SRCAP.				cellular lipid metabolic process (GO:0044255)|cellular response to hypoxia (GO:0071456)|chromatin organization (GO:0006325)|embryonic digit morphogenesis (GO:0042733)|gene expression (GO:0010467)|germ-line stem cell maintenance (GO:0030718)|histone acetylation (GO:0016573)|homeostatic process (GO:0042592)|innate immune response (GO:0045087)|N-terminal peptidyl-lysine acetylation (GO:0018076)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of type I interferon production (GO:0032481)|protein complex assembly (GO:0006461)|regulation of smoothened signaling pathway (GO:0008589)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of transcription, DNA-templated (GO:0006355)|response to hypoxia (GO:0001666)|rhythmic process (GO:0048511)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	condensed chromosome outer kinetochore (GO:0000940)|cytoplasm (GO:0005737)|histone acetyltransferase complex (GO:0000123)|nuclear body (GO:0016604)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	acetyltransferase activity (GO:0016407)|chromatin binding (GO:0003682)|core promoter proximal region sequence-specific DNA binding (GO:0000987)|histone acetyltransferase activity (GO:0004402)|MRF binding (GO:0043426)|p53 binding (GO:0002039)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II transcription coactivator activity (GO:0001105)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			NS(1)|breast(5)|central_nervous_system(4)|cervix(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(125)|kidney(5)|large_intestine(32)|lung(43)|ovary(18)|pancreas(2)|prostate(6)|skin(9)|soft_tissue(1)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(21)	295		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		AAGTATTCTTGATATCTGTAG	0.517			"T, N, F, Mis, O"	"MLL, MORF, RUNXBP2"	"ALL, AML, DLBCL, B-NHL "		Rubinstein-Taybi syndrome																																Dom/Rec	yes		16	16p13.3	1387	CREB binding protein (CBP)	yes	L	0													212	196	201					16																	3860637		2197	4300	6497	SO:0001819	synonymous_variant	1387			U85962	CCDS10509.1, CCDS45399.1	16p13.3	2011-07-01	2008-08-01		ENSG00000005339	ENSG00000005339		"Chromatin-modifying enzymes / K-acetyltransferases"	2348	protein-coding gene	gene with protein product		600140	"Rubinstein-Taybi syndrome"	RSTS		8413673	Standard	NM_001079846		Approved	RTS, CBP, KAT3A	uc002cvv.3	Q92793	OTTHUMG00000129431	ENST00000262367.5:c.942C>T	16.37:g.3860637G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DUC9|O00147|Q16376|Q4LE28	Silent	SNP	ENST00000262367.5	37	CCDS10509.1																																																																																				0.517	CREBBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251591.2	NM_004380		A	3860637	G	A	3860637	2	1	596	1	0	0	0	0	0	0	0	1	3863	1280	45	2		2	CREBBP	16	3860637	Silent	SNP	G	TCGA-G7-A4TM-01A-11D-A31X-10		3860637	86494116	34	35591										
ABCC1	4363	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	16180696	16180696	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	cccagggcgtgaacctgtctGggggccagaagcagcgcgtg	17	12	1	2			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr16:16180696G>A	ENST00000399410.3	+	18	2483	c.2308G>A	c.(2308-2310)Ggg>Agg	p.G770R	ABCC1_ENST00000351154.5_Missense_Mutation_p.G711R|ABCC1_ENST00000345148.5_Missense_Mutation_p.G770R|ABCC1_ENST00000399408.2_Missense_Mutation_p.G770R|ABCC1_ENST00000346370.5_Intron|ABCC1_ENST00000349029.5_Intron	NM_004996.3	NP_004987.2	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 1	770	ABC transporter 1. {ECO:0000255|PROSITE- ProRule:PRU00434}.				arachidonic acid metabolic process (GO:0019369)|ATP catabolic process (GO:0006200)|cobalamin metabolic process (GO:0009235)|leukotriene metabolic process (GO:0006691)|response to drug (GO:0042493)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|transport (GO:0006810)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|transporter activity (GO:0005215)			breast(3)|endometrium(9)|kidney(3)|large_intestine(12)|lung(20)|ovary(5)|prostate(1)|skin(3)	56					Abiraterone(DB05812)|Aminohippurate(DB00345)|Amprenavir(DB00701)|Atazanavir(DB01072)|Atorvastatin(DB01076)|Colchicine(DB01394)|Conjugated Estrogens(DB00286)|Cyclosporine(DB00091)|Dactinomycin(DB00970)|Daunorubicin(DB00694)|Diclofenac(DB00586)|Docetaxel(DB01248)|Doxorubicin(DB00997)|Epirubicin(DB00445)|Erythromycin(DB00199)|Etoposide(DB00773)|Fluorescein(DB00693)|Glutathione(DB00143)|Glyburide(DB01016)|Ibuprofen(DB01050)|Idarubicin(DB01177)|Indinavir(DB00224)|Indomethacin(DB00328)|Irinotecan(DB00762)|Ivermectin(DB00602)|Lamivudine(DB00709)|Methotrexate(DB00563)|Mifepristone(DB00834)|Mitoxantrone(DB01204)|Ofloxacin(DB01165)|Paclitaxel(DB01229)|Phenobarbital(DB01174)|Probenecid(DB01032)|Progesterone(DB00396)|Rifampicin(DB01045)|Ritonavir(DB00503)|Rosuvastatin(DB01098)|Saquinavir(DB01232)|Saxagliptin(DB06335)|Sulfinpyrazone(DB01138)|Vandetanib(DB05294)|Vemurafenib(DB08881)|Verapamil(DB00661)|Vinblastine(DB00570)|Vincristine(DB00541)|Zoledronate(DB00399)	GAACCTGTCTGGGGGCCAGAA	0.587																																																0													60	71	68					16																	16180696		2181	4293	6474	SO:0001583	missense	4363			L05628	CCDS42122.1	16p13.1	2012-03-14			ENSG00000103222	ENSG00000103222		"ATP binding cassette transporters / subfamily C"	51	protein-coding gene	gene with protein product		158343	"multidrug resistance associated protein 1"	MRP, MRP1		8098549, 1360704	Standard	NM_004996		Approved	GS-X	uc010bvi.3	P33527	OTTHUMG00000048267	ENST00000399410.3:c.2308G>A	16.37:g.16180696G>A	ENSP00000382342:p.Gly770Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A3RJX2|C9JPJ4|O14819|O43333|P78419|Q59GI9|Q9UQ97|Q9UQ99|Q9UQA0	Missense_Mutation	SNP	ENST00000399410.3	37	CCDS42122.1	.	.	.	.	.	.	.	.	.	.	G	33	5.195409	0.94960	.	.	ENSG00000103222	ENST00000399410;ENST00000399408;ENST00000351154;ENST00000345148;ENST00000536381	D;D;D;D	0.95205	-3.64;-3.64;-3.64;-3.64	5.38	5.38	0.77491	ABC transporter, conserved site (1);ATPase, AAA+ type, core (1);ABC transporter-like (2);	0.000000	0.85682	D	0.000000	D	0.98658	0.9550	H	0.99182	4.46	0.80722	D	1	D;D;D;D	0.89917	1.0;0.999;1.0;1.0	D;D;D;D	0.97110	0.993;0.978;1.0;1.0	D	0.99712	1.1007	10	0.87932	D	0	-31.1556	18.1249	0.89583	0.0:0.0:1.0:0.0	.	770;711;770;770	P33527-4;P33527-2;P33527;P33527-9	.;.;MRP1_HUMAN;.	R	770;770;711;770;444	ENSP00000382342:G770R;ENSP00000382340:G770R;ENSP00000263017:G711R;ENSP00000263014:G770R	ENSP00000263014:G770R	G	+	1	0	ABCC1	16088197	1.000000	0.71417	0.984000	0.44739	0.997000	0.91878	9.697000	0.98697	2.520000	0.84964	0.563000	0.77884	GGG		0.587	ABCC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109701.1	NM_004996		A	16180696	G	A	16180696	3	1	596	1	0	0	0	0	1	0	0	0	49	1348	47	2	2378	2	ABCC1	16	16180696	Missense_Mutation	SNP	G	TCGA-G7-A4TM-01A-11D-A31X-10	12320059	16180696	74174057	35	35592										
TNRC6A	27327	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	24788620	24788620	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	cagccagtcagaaagcagtgCtttaacaaatcaacagccac	7	12	2	1	rs201630200		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr16:24788620C>G	ENST00000395799.3	+	5	659	c.530C>G	c.(529-531)gCt>gGt	p.A177G	TNRC6A_ENST00000315183.7_Missense_Mutation_p.A177G	NM_014494.2	NP_055309.2	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	177	Interaction with argonaute family proteins.				cellular response to starvation (GO:0009267)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|innate immune response (GO:0045087)|negative regulation of translation involved in gene silencing by miRNA (GO:0035278)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch signaling pathway (GO:0007219)|phosphatidylinositol-mediated signaling (GO:0048015)	cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|micro-ribonucleoprotein complex (GO:0035068)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|cervix(1)|endometrium(13)|kidney(5)|large_intestine(13)|liver(1)|lung(20)|ovary(3)|skin(2)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	64				GBM - Glioblastoma multiforme(48;0.0394)		GAAAGCAGTGCTTTAACAAAT	0.433																																																0													137	141	140					16																	24788620		2064	4235	6299	SO:0001583	missense	27327			U80739	CCDS10624.2	16p11.2	2009-09-22	2004-12-17	2004-12-17	ENSG00000090905	ENSG00000090905		"Trinucleotide (CAG) repeat containing"	11969	protein-coding gene	gene with protein product		610739	"trinucleotide repeat containing 6"	TNRC6		9225980	Standard	NM_014494		Approved	CAGH26, KIAA1460, GW182	uc002dmm.3	Q8NDV7	OTTHUMG00000096999	ENST00000395799.3:c.530C>G	16.37:g.24788620C>G	ENSP00000379144:p.Ala177Gly	Somatic		WXS	Illumina HiSeq	Phase_I	C9JAR8|O15408|Q658L5|Q6NVB5|Q8NEZ0|Q8TBT8|Q8TCR0|Q9NV59|Q9P268	Missense_Mutation	SNP	ENST00000395799.3	37	CCDS10624.2	.	.	.	.	.	.	.	.	.	.	C	14.14	2.446741	0.43429	.	.	ENSG00000090905	ENST00000315183;ENST00000395799	T;T	0.12774	2.65;2.65	5.72	4.72	0.59763	.	0.361735	0.29783	N	0.011217	T	0.11110	0.0271	N	0.19112	0.55	0.80722	D	1	B	0.20261	0.043	B	0.19946	0.027	T	0.17228	-1.0376	10	0.26408	T	0.33	-7.991	18.3586	0.90367	0.0:0.8717:0.1283:0.0	.	177	Q8NDV7	TNR6A_HUMAN	G	177	ENSP00000326900:A177G;ENSP00000379144:A177G	ENSP00000326900:A177G	A	+	2	0	TNRC6A	24696121	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.054000	0.49908	2.687000	0.91594	0.591000	0.81541	GCT		0.433	TNRC6A-001	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000214081.1	NM_020847		G	24788620	C	G	24788620	3	3	596	1	0	0	0	0	1	0	0	0	16352	797	28	4	548	4	TNRC6A	16	24788620	Missense_Mutation	SNP	C	TCGA-G7-A4TM-01A-11D-A31X-10	8607924	24788620	65566133	36	35593										
COG4	25839	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	70548271	70548271	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	tcggctgagctcaatgaccgActtgtccaggcacaagtagc	11	12	1	2			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr16:70548271A>T	ENST00000323786.5	-	4	532	c.511T>A	c.(511-513)Tcg>Acg	p.S171T	COG4_ENST00000393612.4_Missense_Mutation_p.S167T|COG4_ENST00000564653.1_Missense_Mutation_p.S171T	NM_001195139.1|NM_015386.2	NP_001182068.1|NP_056201.2	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	167					Golgi organization (GO:0007030)|Golgi vesicle prefusion complex stabilization (GO:0048213)|protein transport (GO:0015031)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)	Golgi transport complex (GO:0017119)|membrane (GO:0016020)				breast(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(8)|lung(12)|pancreas(1)|prostate(2)	33		Ovarian(137;0.0694)				tcaatgaccgACTTGTCCAGG	0.468																																																0													89	75	80					16																	70548271		2198	4300	6498	SO:0001583	missense	25839			AL050101	CCDS10892.2, CCDS73909.1	16q22.1	2013-09-20			ENSG00000103051	ENSG00000103051		"Components of oligomeric golgi complex"	18620	protein-coding gene	gene with protein product		606976				11980916	Standard	NM_015386		Approved	COD1, DKFZP586E1519	uc002ezc.3	Q9H9E3	OTTHUMG00000128515	ENST00000323786.5:c.511T>A	16.37:g.70548271A>T	ENSP00000315775:p.Ser171Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DMN8|C9JS23|Q96D40|Q9BRF0|Q9BVZ2|Q9H5Y4|Q9Y3W3	Missense_Mutation	SNP	ENST00000323786.5	37	CCDS10892.2	.	.	.	.	.	.	.	.	.	.	A	22.6	4.316795	0.81469	.	.	ENSG00000103051	ENST00000323786;ENST00000338984;ENST00000393612;ENST00000534772	T;T;T	0.46819	0.86;0.86;1.12	5.51	5.51	0.81932	.	0.000000	0.85682	D	0.000000	T	0.41305	0.1153	L	0.41961	1.31	0.80722	D	1	B;B	0.24368	0.057;0.102	B;B	0.20955	0.032;0.018	T	0.20706	-1.0267	10	0.25751	T	0.34	-5.8107	15.6224	0.76816	1.0:0.0:0.0:0.0	.	166;167	Q6PIW8;Q9H9E3	.;COG4_HUMAN	T	171;167;167;94	ENSP00000315775:S171T;ENSP00000377236:S167T;ENSP00000461912:S94T	ENSP00000315775:S171T	S	-	1	0	COG4	69105772	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	8.758000	0.91663	2.093000	0.63338	0.459000	0.35465	TCG		0.468	COG4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250326.3			T	70548271	A	T	70548271	3	4	596	1	0	0	0	0	1	0	0	0	3662	275	10	5	1922	5	COG4	16	70548271	Missense_Mutation	SNP	A	TCGA-G7-A4TM-01A-11D-A31X-10	45759651	70548271	19806482	37	35594										
KIAA0100	9703	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	26943696	26943696	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ttcatcatcttccacacttcGgccaggaaagaaaaagccca	6	13	3	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr17:26943696G>C	ENST00000528896.2	-	35	6171	c.6097C>G	c.(6097-6099)Cga>Gga	p.R2033G	SGK494_ENST00000301037.5_5'Flank|SPAG5-AS1_ENST00000424210.1_RNA|SGK494_ENST00000469832.3_5'Flank|KIAA0100_ENST00000579924.2_5'UTR|SPAG5-AS1_ENST00000414744.1_RNA|KIAA0100_ENST00000389003.3_Missense_Mutation_p.R1890G|SPAG5-AS1_ENST00000554154.1_RNA|RP11-192H23.4_ENST00000577790.1_5'Flank|KIAA0100_ENST00000544884.1_Missense_Mutation_p.R1890G|RP11-192H23.4_ENST00000534850.1_5'Flank	NM_014680.3	NP_055495.2	Q14667	K0100_HUMAN	KIAA0100	2033						extracellular region (GO:0005576)				breast(3)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(13)|lung(23)|ovary(2)|prostate(2)|skin(6)|stomach(2)|urinary_tract(3)	68	Lung NSC(42;0.00431)					TCCACACTTCGGCCAGGAAAG	0.448																																																0													118	121	120					17																	26943696		2203	4300	6503	SO:0001583	missense	9703			D43947	CCDS32595.1	17q11.2	2012-11-29			ENSG00000007202	ENSG00000007202			28960	protein-coding gene	gene with protein product	"cancer/testis antigen 101", "breast cancer overexpressed gene 1"	610664				16289875	Standard	NM_014680		Approved	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX	uc002hbu.3	Q14667	OTTHUMG00000166587	ENST00000528896.2:c.6097C>G	17.37:g.26943696G>C	ENSP00000436773:p.Arg2033Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NCX3|Q3SYN5|Q49A07|Q5H9T4|Q6WG74|Q6ZP51|Q96HH8	Missense_Mutation	SNP	ENST00000528896.2	37	CCDS32595.1	.	.	.	.	.	.	.	.	.	.	G	17.82	3.483328	0.63962	.	.	ENSG00000007202	ENST00000005905;ENST00000389003;ENST00000528896;ENST00000544884	T;T	0.46819	0.86;0.86	5.87	5.87	0.94306	FMP27,  C-terminal (1);	0.000000	0.85682	D	0.000000	T	0.70605	0.3243	M	0.76170	2.325	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.67205	-0.5729	10	0.39692	T	0.17	.	20.1947	0.98239	0.0:0.0:1.0:0.0	.	2033	Q14667	K0100_HUMAN	G	2033;2003;2033;1890	ENSP00000436773:R2033G;ENSP00000446443:R1890G	ENSP00000005905:R2033G	R	-	1	2	KIAA0100	23967823	1.000000	0.71417	0.998000	0.56505	0.995000	0.86356	3.682000	0.54656	2.780000	0.95670	0.561000	0.74099	CGA		0.448	KIAA0100-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390571.3	NM_014680		C	26943696	G	C	26943696	3	2	596	1	0	0	0	0	1	0	0	0	8161	1124	39	4	630	4	KIAA0100	17	26943696	Missense_Mutation	SNP	G	TCGA-G7-A4TM-01A-11D-A31X-10		26943696	54251514	38	35595										
HOXB4	3214	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	46654346	46654346	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ggcgcgtgtaggcggtccgaGagcgcttgggctccccgccg	18	14	0	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr17:46654346G>T	ENST00000332503.5	-	2	2285	c.494C>A	c.(493-495)tCt>tAt	p.S165Y	HOXB3_ENST00000485909.2_5'Flank|HOXB3_ENST00000489475.1_Intron|HOXB3_ENST00000552000.2_Intron|MIR10A_ENST00000385043.1_RNA|HOXB3_ENST00000311626.4_5'Flank|HOXB3_ENST00000465120.3_Intron|HOXB3_ENST00000490677.1_5'Flank|HOXB3_ENST00000472863.1_Intron|HOXB3_ENST00000476342.1_Intron|HOXB3_ENST00000498678.1_Intron|HOXB3_ENST00000460160.1_Intron|HOXB-AS3_ENST00000465846.2_RNA	NM_024015.4	NP_076920.1	P17483	HXB4_HUMAN	homeobox B4	165					anterior/posterior pattern specification (GO:0009952)|bone marrow development (GO:0048539)|cell proliferation (GO:0008283)|definitive hemopoiesis (GO:0060216)|embryonic skeletal system morphogenesis (GO:0048704)|hematopoietic stem cell differentiation (GO:0060218)|morphogenesis of an epithelial sheet (GO:0002011)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of stem cell differentiation (GO:2000738)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|somatic stem cell division (GO:0048103)|spleen development (GO:0048536)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|kidney(2)|large_intestine(1)|lung(2)|ovary(1)|urinary_tract(2)	9						GGCGGTCCGAGAGCGCTTGGG	0.592																																																0													53	58	56					17																	46654346		2203	4300	6503	SO:0001583	missense	3214				CCDS11529.1	17q21.32	2011-06-20	2005-12-22		ENSG00000182742	ENSG00000182742		"Homeoboxes / ANTP class : HOXL subclass"	5115	protein-coding gene	gene with protein product		142965	"homeo box B4"	HOX2, HOX2F		1973146, 1358459	Standard	NM_024015		Approved		uc002inp.3	P17483	OTTHUMG00000159920	ENST00000332503.5:c.494C>A	17.37:g.46654346G>T	ENSP00000328928:p.Ser165Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NTA0	Missense_Mutation	SNP	ENST00000332503.5	37	CCDS11529.1	.	.	.	.	.	.	.	.	.	.	G	28.5	4.923509	0.92319	.	.	ENSG00000182742	ENST00000332503	D	0.96365	-3.99	5.27	5.27	0.74061	Homeodomain-related (1);Homeobox (3);Homeodomain-like (1);	0.000000	0.85682	D	0.000000	D	0.96836	0.8967	L	0.33710	1.025	0.80722	D	1	D	0.89917	1.0	D	0.79784	0.993	D	0.97955	1.0334	10	0.87932	D	0	.	18.4966	0.90867	0.0:0.0:1.0:0.0	.	165	P17483	HXB4_HUMAN	Y	165	ENSP00000328928:S165Y	ENSP00000328928:S165Y	S	-	2	0	HOXB4	44009345	1.000000	0.71417	0.999000	0.59377	0.995000	0.86356	9.842000	0.99487	2.456000	0.83038	0.561000	0.74099	TCT		0.592	HOXB4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358259.2			T	46654346	G	T	46654346	3	4	596	1	0	0	0	0	1	0	0	0	7310	942	33	4	265	4	HOXB4	17	46654346	Missense_Mutation	SNP	G	TCGA-G7-A4TM-01A-11D-A31X-10	19710650	46654346	34540864	39	35596										
NOG	9241	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	54672182	54672182	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	agccgtccaagtccgtgcacCtcacggtgctgcggtggcgc	14	15	1	0			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr17:54672182C>G	ENST00000332822.4	+	1	1123	c.598C>G	c.(598-600)Ctc>Gtc	p.L200V		NM_005450.4	NP_005441.1	Q13253	NOGG_HUMAN	noggin	200					axial mesoderm development (GO:0048318)|BMP signaling pathway (GO:0030509)|cartilage development (GO:0051216)|cell differentiation in hindbrain (GO:0021533)|cellular response to BMP stimulus (GO:0071773)|dorsal/ventral pattern formation (GO:0009953)|embryonic digit morphogenesis (GO:0042733)|embryonic skeletal joint morphogenesis (GO:0060272)|embryonic skeletal system development (GO:0048706)|endoderm formation (GO:0001706)|epithelial to mesenchymal transition (GO:0001837)|face morphogenesis (GO:0060325)|fibroblast growth factor receptor signaling pathway involved in neural plate anterior/posterior pattern formation (GO:0060825)|in utero embryonic development (GO:0001701)|limb development (GO:0060173)|lung morphogenesis (GO:0060425)|mesoderm formation (GO:0001707)|middle ear morphogenesis (GO:0042474)|motor neuron axon guidance (GO:0008045)|negative regulation of apoptotic signaling pathway (GO:2001234)|negative regulation of astrocyte differentiation (GO:0048712)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cardiac muscle cell proliferation (GO:0060044)|negative regulation of cartilage development (GO:0061037)|negative regulation of cell migration (GO:0030336)|negative regulation of cytokine activity (GO:0060302)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of pathway-restricted SMAD protein phosphorylation (GO:0060394)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nervous system development (GO:0007399)|neural plate morphogenesis (GO:0001839)|neural tube closure (GO:0001843)|notochord morphogenesis (GO:0048570)|osteoblast differentiation (GO:0001649)|pituitary gland development (GO:0021983)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of glomerulus development (GO:0090193)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|prostatic bud formation (GO:0060513)|regulation of fibroblast growth factor receptor signaling pathway involved in neural plate anterior/posterior pattern formation (GO:2000313)|skeletal system development (GO:0001501)|somatic stem cell maintenance (GO:0035019)|somite development (GO:0061053)|spinal cord development (GO:0021510)|ureteric bud formation (GO:0060676)|wound healing (GO:0042060)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	cytokine binding (GO:0019955)|protein homodimerization activity (GO:0042803)			ovary(1)	1	Breast(9;5.24e-08)					GTCCGTGCACCTCACGGTGCT	0.657																																																0													27	27	27					17																	54672182		2203	4298	6501	SO:0001583	missense	9241			U31202	CCDS11589.1	17q22	2006-04-25	2003-03-12		ENSG00000183691	ENSG00000183691			7866	protein-coding gene	gene with protein product		602991	"synostoses (multiple) syndrome 1", "symphalangism 1 (proximal)"	SYNS1, SYM1		7666191, 10080184, 11545688	Standard	NM_005450		Approved		uc002iup.2	Q13253	OTTHUMG00000151770	ENST00000332822.4:c.598C>G	17.37:g.54672182C>G	ENSP00000328181:p.Leu200Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000332822.4	37	CCDS11589.1	.	.	.	.	.	.	.	.	.	.	C	7.750	0.703154	0.15172	.	.	ENSG00000183691	ENST00000332822	D	0.98207	-4.79	4.85	4.85	0.62838	.	0.163070	0.39146	N	0.001455	D	0.96904	0.8989	L	0.39898	1.24	0.51012	D	0.999903	D	0.56035	0.974	P	0.59703	0.862	D	0.94063	0.7328	10	0.08179	T	0.78	-8.1502	8.5633	0.33525	0.0:0.8257:0.0:0.1743	.	200	Q13253	NOGG_HUMAN	V	200	ENSP00000328181:L200V	ENSP00000328181:L200V	L	+	1	0	NOG	52027181	0.996000	0.38824	1.000000	0.80357	0.997000	0.91878	0.537000	0.23144	2.532000	0.85374	0.561000	0.74099	CTC		0.657	NOG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323857.1	NM_005450		G	54672182	C	G	54672182	3	3	596	1	0	0	0	0	1	0	0	0	10526	681	24	4	600	4	NOG	17	54672182	Missense_Mutation	SNP	C	TCGA-G7-A4TM-01A-11D-A31X-10	8017836	54672182	26523028	40	35597										
KIAA0195	9772	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	73487468	73487468	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	tgttcttcagcgggaaggtgGagccccctcacagcagccat	12	13	3	0			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr17:73487468G>T	ENST00000314256.7	+	13	1712	c.1318G>T	c.(1318-1320)Gag>Tag	p.E440*	KIAA0195_ENST00000579208.1_Nonsense_Mutation_p.E91*|KIAA0195_ENST00000375248.5_Nonsense_Mutation_p.E450*	NM_014738.4	NP_055553.3	Q12767	K0195_HUMAN	KIAA0195	440						integral component of membrane (GO:0016021)|nucleus (GO:0005634)				breast(2)|endometrium(5)|kidney(2)|large_intestine(7)|lung(17)|ovary(5)|skin(2)|stomach(1)|urinary_tract(1)	42	all_cancers(13;3.15e-09)|all_epithelial(9;5.94e-10)|Breast(9;1.85e-09)|all_lung(278;0.246)		all cancers(21;5.01e-07)|Epithelial(20;5e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			CGGGAAGGTGGAGCCCCCTCA	0.602																																																0													102	89	93					17																	73487468		2203	4300	6503	SO:0001587	stop_gained	9772				CCDS32732.1	17q25.1	2012-03-01			ENSG00000177728	ENSG00000177728			28983	protein-coding gene	gene with protein product						8724849	Standard	NM_014738		Approved	TMEM94	uc002jnz.4	Q12767		ENST00000314256.7:c.1318G>T	17.37:g.73487468G>T	ENSP00000313885:p.Glu440*	Somatic		WXS	Illumina HiSeq	Phase_I	O75536|Q86XF1	Nonsense_Mutation	SNP	ENST00000314256.7	37	CCDS32732.1	.	.	.	.	.	.	.	.	.	.	G	31	5.089916	0.94149	.	.	ENSG00000177728	ENST00000314256;ENST00000375248	.	.	.	5.84	4.86	0.63082	.	0.100124	0.64402	D	0.000002	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.21014	T	0.42	-25.239	16.9369	0.86205	0.0:0.1279:0.8721:0.0	.	.	.	.	X	440;450	.	ENSP00000313885:E440X	E	+	1	0	KIAA0195	70999063	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.741000	0.98843	1.465000	0.48006	0.591000	0.81541	GAG		0.602	KIAA0195-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447303.1	NM_014738		T	73487468	G	T	73487468	4	4	596	1	0	0	0	0	0	1	0	0	8167	1175	41	4	1364	4	KIAA0195	17	73487468	Nonsense_Mutation	SNP	G	TCGA-G7-A4TM-01A-11D-A31X-10	18815286	73487468	7707742	41	35598										
SS18	6760	ucsc.edu	37	chr18	23658090	23658090	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	agaatctgctattgtagcaaGgtataccaagtttgtgtgca	10	6	1	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr18:23658090G>T	ENST00000415083.2	-	3	236	c.181C>A	c.(181-183)Ctt>Att	p.L61I	SS18_ENST00000542743.1_Missense_Mutation_p.L9I|SS18_ENST00000585241.1_5'UTR|SS18_ENST00000542420.2_Missense_Mutation_p.L38I|SS18_ENST00000539849.1_Intron|SS18_ENST00000269137.7_Missense_Mutation_p.L61I|SS18_ENST00000545952.1_Missense_Mutation_p.L9I	NM_001007559.1|NM_005637.2	NP_001007560.1|NP_005628.2	Q15532	SSXT_HUMAN	synovial sarcoma translocation, chromosome 18	61	Transcriptional activation.				cell morphogenesis (GO:0000902)|ephrin receptor signaling pathway (GO:0048013)|intracellular signal transduction (GO:0035556)|microtubule cytoskeleton organization (GO:0000226)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|response to drug (GO:0042493)|transcription, DNA-templated (GO:0006351)	cytoplasmic microtubule (GO:0005881)|nucleus (GO:0005634)	ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)		SS18/SSX2(706)|SS18/SSX1(1169)|SS18/SSX4(12)	endometrium(1)|kidney(2)|large_intestine(4)|lung(11)|ovary(1)	19	all_cancers(21;0.000194)|Lung NSC(5;0.000413)|all_lung(6;0.00118)|Ovarian(20;0.124)					ATTGTAGCAAGGTATACCAAG	0.303			T	"SSX1,  SSX2"	synovial sarcoma																																		Dom	yes		18	18q11.2	6760	"synovial sarcoma translocation, chromosome 18"		M	0													139	132	134					18																	23658090		2203	4298	6501	SO:0001583	missense	6760			X79201	CCDS32807.1, CCDS54183.1	18q11.2	2008-07-28				ENSG00000141380			11340	protein-coding gene	gene with protein product		600192		SSXT		8152806, 7951320, 16484776	Standard	XM_005258334		Approved	SYT	uc002kvm.3	Q15532		ENST00000415083.2:c.181C>A	18.37:g.23658090G>T	ENSP00000414516:p.Leu61Ile	Somatic		WXS	Illumina HiSeq		B0YJ95|Q16404|Q4VAX1|Q9BXC6	Missense_Mutation	SNP	ENST00000415083.2	37	CCDS32807.1	.	.	.	.	.	.	.	.	.	.	G	13.31	2.197652	0.38806	.	.	ENSG00000141380	ENST00000415083;ENST00000269138;ENST00000269137;ENST00000542420;ENST00000542743;ENST00000545952	T;T;T;T	0.76060	-0.99;-0.89;0.36;0.36	5.75	5.75	0.90469	.	0.000000	0.85682	D	0.000000	D	0.88175	0.6366	M	0.91140	3.18	0.80722	D	1	D;D;D	0.89917	0.997;0.997;1.0	D;D;D	0.91635	0.987;0.992;0.999	D	0.89906	0.4048	10	0.87932	D	0	-10.1651	12.1087	0.53827	0.0791:0.0:0.9209:0.0	.	9;61;61	B4E2J6;Q4VAX0;Q15532	.;.;SSXT_HUMAN	I	64;61;61;38;9;9	ENSP00000269137:L61I;ENSP00000438066:L38I;ENSP00000444551:L9I;ENSP00000443097:L9I	ENSP00000269137:L61I	L	-	1	0	SS18	21912088	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	3.519000	0.53458	2.716000	0.92895	0.655000	0.94253	CTT		0.303	SS18-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000446226.1			T	23658090	G	T	23658090	3	4	596	1	0	0	0	0	1	0	0	0	15187	1000	35	4	1111	4	SS18	18	23658090	Missense_Mutation	SNP	G	TCGA-G7-A4TM-01A-11D-A31X-10		23658090	54419158	42	35599										
ACER1	125981	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	6307219	6307219	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ccagaagctgcaaagcagacGgtcactgatccagctggtca	11	12	2	3			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr19:6307219G>T	ENST00000301452.4	-	5	648	c.571C>A	c.(571-573)Cgt>Agt	p.R191S		NM_133492.2	NP_597999.1	Q8TDN7	ACER1_HUMAN	alkaline ceramidase 1	191					cell differentiation (GO:0030154)|cellular response to calcium ion (GO:0071277)|ceramide catabolic process (GO:0046514)|epidermis development (GO:0008544)|keratinocyte differentiation (GO:0030216)|regulation of lipid metabolic process (GO:0019216)|response to alkaline pH (GO:0010446)|small molecule metabolic process (GO:0044281)|sphingolipid biosynthetic process (GO:0030148)|sphingolipid metabolic process (GO:0006665)|sphingosine biosynthetic process (GO:0046512)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	ceramidase activity (GO:0017040)|dihydroceramidase activity (GO:0071633)			NS(2)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(4)|pancreas(1)	15						CAAAGCAGACGGTCACTGATC	0.542																																																0													89	86	87					19																	6307219		2203	4300	6503	SO:0001583	missense	125981			AF347024	CCDS12161.1	19p13.3	2013-01-25	2008-12-19	2008-12-19	ENSG00000167769	ENSG00000167769	3.5.1.23	"Alkaline ceramidase"	18356	protein-coding gene	gene with protein product		613491	"N-acylsphingosine amidohydrolase (alkaline ceramidase) 3"	ASAH3		12783875	Standard	NM_133492		Approved		uc002mel.2	Q8TDN7		ENST00000301452.4:c.571C>A	19.37:g.6307219G>T	ENSP00000301452:p.Arg191Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000301452.4	37	CCDS12161.1	.	.	.	.	.	.	.	.	.	.	G	20.7	4.037897	0.75617	.	.	ENSG00000167769	ENST00000301452	T	0.47177	0.85	5.58	3.34	0.38264	.	0.000000	0.85682	D	0.000000	T	0.68668	0.3026	M	0.87900	2.915	0.80722	D	1	D	0.71674	0.998	D	0.63703	0.917	T	0.75932	-0.3143	10	0.87932	D	0	-21.1368	12.8258	0.57718	0.0:0.0:0.7048:0.2952	.	191	Q8TDN7	ACER1_HUMAN	S	191	ENSP00000301452:R191S	ENSP00000301452:R191S	R	-	1	0	ACER1	6258219	1.000000	0.71417	0.923000	0.36655	0.707000	0.40811	3.467000	0.53078	1.347000	0.45714	0.561000	0.74099	CGT		0.542	ACER1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452982.1	NM_133492		T	6307219	G	T	6307219	3	4	596	1	0	0	0	0	1	0	0	0	138	1116	39	4	231	4	ACER1	19	6307219	Missense_Mutation	SNP	G	TCGA-G7-A4TM-01A-11D-A31X-10		6307219	52821764	43	35600										
ZNF529	57711	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	37038841	37038841	+	Frame_Shift_Del	DEL	T	T	-													0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	ggagttatctatcccaaaggTtttccaacattgattacatt							TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr19:37038841delT	ENST00000591340.1	-	5	777	c.619delA	c.(619-621)accfs	p.T207fs	ZNF529_ENST00000334116.7_Frame_Shift_Del_p.T102fs	NM_020951.4	NP_066002.3	Q6P280	ZN529_HUMAN	zinc finger protein 529	207					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)	1	Esophageal squamous(110;0.198)					ATCCCAAAGGTTTTCCAACAT	0.313																																																0													77	71	73					19																	37038841		1844	4087	5931	SO:0001589	frameshift_variant	57711			AK025110	CCDS54256.1	19q13.13	2014-08-22			ENSG00000186020	ENSG00000186020		"Zinc fingers, C2H2-type", "-"	29328	protein-coding gene	gene with protein product						10997877	Standard	NM_020951		Approved	KIAA1615	uc002oeh.4	Q6P280	OTTHUMG00000180714	ENST00000591340.1:c.619delA	19.37:g.37038841delT	ENSP00000465578:p.Thr207fs	Somatic		WXS	Illumina HiSeq	Phase_I	K7EKE1|Q9H731|Q9HCF7	Frame_Shift_Del	DEL	ENST00000591340.1	37	CCDS54256.1																																																																																				0.313	ZNF529-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452730.1	NM_020951		-	37038841	T	-	37038841	7	5	596	1	0	1	0	1	0	0	0	0	17982	1725	60	0	1076	0	ZNF529	19	37038841	Frame_Shift_Del	DEL	T	TCGA-G7-A4TM-01A-11D-A31X-10	30731622	37038841	22090142	44	35601										
CAPN12	147968	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	39226808	39226808	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	gaagtcagcctcgtcgccggCgtgggcggtgctcggcacca	16	14	1	0			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr19:39226808C>T	ENST00000328867.4	-	12	1833	c.1525G>A	c.(1525-1527)Gcc>Acc	p.A509T	CTD-2540F13.2_ENST00000602255.1_RNA|CAPN12_ENST00000601953.1_Missense_Mutation_p.A360T	NM_144691.3	NP_653292.2	Q6ZSI9	CAN12_HUMAN	calpain 12	509	Domain III.				proteolysis (GO:0006508)	cytoplasm (GO:0005737)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)			central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(6)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	20	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			TCGTCGCCGGCGTGGGCGGTG	0.731																																																0													5	7	6					19																	39226808		1560	2860	4420	SO:0001583	missense	147968			BC014027	CCDS12519.1	19q13.2	2014-08-12			ENSG00000182472	ENSG00000182472		"EF-hand domain containing"	13249	protein-coding gene	gene with protein product		608839					Standard	NM_144691		Approved		uc002ojd.1	Q6ZSI9	OTTHUMG00000182525	ENST00000328867.4:c.1525G>A	19.37:g.39226808C>T	ENSP00000331636:p.Ala509Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000328867.4	37	CCDS12519.1	.	.	.	.	.	.	.	.	.	.	C	14.10	2.434611	0.43224	.	.	ENSG00000182472	ENST00000328867	D	0.87256	-2.23	3.72	2.48	0.30137	Peptidase C2, calpain, large subunit, domain III (2);Peptidase C2, calpain, domain III (1);	0.544531	0.18591	N	0.136731	T	0.80909	0.4714	L	0.55990	1.75	0.22266	N	0.999247	B	0.19331	0.035	B	0.12156	0.007	T	0.72204	-0.4361	10	0.87932	D	0	.	3.9299	0.09279	0.0:0.5899:0.2287:0.1814	.	509	Q6ZSI9	CAN12_HUMAN	T	509	ENSP00000331636:A509T	ENSP00000331636:A509T	A	-	1	0	CAPN12	43918648	0.987000	0.35691	0.077000	0.20336	0.396000	0.30629	2.272000	0.43373	0.658000	0.30925	0.484000	0.47621	GCC		0.731	CAPN12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462151.1			T	39226808	C	T	39226808	3	4	596	1	0	0	0	0	1	0	0	0	2627	768	27	1	674	1	CAPN12	19	39226808	Missense_Mutation	SNP	C	TCGA-G7-A4TM-01A-11D-A31X-10	2187967	39226808	19902175	45	35602										
CIC	23152	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	42795850	42795850	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	agccactgccactggtgagcCcgcccttctcagtacctgtg	10	16	1	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr19:42795850C>T	ENST00000575354.2	+	11	2879	c.2839C>T	c.(2839-2841)Ccg>Tcg	p.P947S	CIC_ENST00000572681.2_Missense_Mutation_p.P1856S|CIC_ENST00000160740.3_Missense_Mutation_p.P947S	NM_015125.3	NP_055940.3	Q96RK0	CIC_HUMAN	capicua transcriptional repressor	947	Pro-rich.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)			autonomic_ganglia(1)|breast(5)|central_nervous_system(32)|endometrium(10)|kidney(2)|large_intestine(7)|lung(9)|ovary(7)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	82		Prostate(69;0.00682)				ACTGGTGAGCCCGCCCTTCTC	0.662			"Mis, F, S"		oligodendroglioma																																		Rec	yes		19	19q13.2	23152	capicua homolog		O	0													46	52	50					19																	42795850		2048	4111	6159	SO:0001583	missense	23152			AB002304	CCDS12601.1	19q13.2	2013-03-15	2013-03-15		ENSG00000079432	ENSG00000079432			14214	protein-coding gene	gene with protein product		612082	"capicua (Drosophila) homolog", "capicua homolog (Drosophila)"			12393275, 15981098	Standard	NM_015125		Approved	KIAA0306	uc002otf.1	Q96RK0		ENST00000575354.2:c.2839C>T	19.37:g.42795850C>T	ENSP00000458663:p.Pro947Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q7LGI1|Q9UEG5|Q9Y6T1	Missense_Mutation	SNP	ENST00000575354.2	37	CCDS12601.1	.	.	.	.	.	.	.	.	.	.	C	9.524	1.109082	0.20714	.	.	ENSG00000079432	ENST00000160740	.	.	.	4.32	3.28	0.37604	.	.	.	.	.	T	0.44138	0.1279	L	0.29908	0.895	0.35299	D	0.782869	B	0.13145	0.007	B	0.12156	0.007	T	0.52200	-0.8607	8	0.87932	D	0	-7.0964	9.1066	0.36701	0.0:0.8892:0.0:0.1108	.	947	Q96RK0	CIC_HUMAN	S	947	.	ENSP00000160740:P947S	P	+	1	0	CIC	47487690	1.000000	0.71417	0.980000	0.43619	0.928000	0.56348	3.631000	0.54280	1.014000	0.39417	0.462000	0.41574	CCG		0.662	CIC-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000438532.2			T	42795850	C	T	42795850	3	4	596	1	0	0	0	0	1	0	0	0	3426	623	22	2	2881	2	CIC	19	42795850	Missense_Mutation	SNP	C	TCGA-G7-A4TM-01A-11D-A31X-10	3569042	42795850	16333133	46	35603										
TMEM145	284339	broad.mit.edu	37	chr19	42819592	42819592	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	tggccgcagcaggagtagagGgtgaggttccgtgtcccaac	16	10	0	2			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr19:42819592G>T	ENST00000301204.3	+	8	687	c.646G>T	c.(646-648)Gtc>Ttc	p.V216F	TMEM145_ENST00000598766.1_Splice_Site_p.V240F	NM_173633.2	NP_775904.2	Q8NBT3	TM145_HUMAN	transmembrane protein 145	216					G-protein coupled receptor signaling pathway (GO:0007186)|response to pheromone (GO:0019236)	integral component of membrane (GO:0016021)				breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|lung(11)|prostate(4)|skin(1)|urinary_tract(1)	27		Prostate(69;0.00682)				Aggagtagagggtgaggttcc	0.537																																																0													96	90	92					19																	42819592		2203	4300	6503	SO:0001630	splice_region_variant	284339			AK075286	CCDS12603.1	19q13.2	2008-02-05				ENSG00000167619			26912	protein-coding gene	gene with protein product							Standard	NM_173633		Approved	FLJ90805	uc002otk.1	Q8NBT3		ENST00000301204.3:c.646+1G>T	19.37:g.42819592G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000301204.3	37	CCDS12603.1	.	.	.	.	.	.	.	.	.	.	G	16.00	2.997506	0.54147	.	.	ENSG00000167619	ENST00000301204	T	0.41758	0.99	3.93	3.93	0.45458	Rhodopsin-like GPCR transmembrane domain (1);	0.000000	0.64402	D	0.000009	T	0.44030	0.1274	L	0.32530	0.975	0.80722	D	1	D	0.67145	0.996	D	0.67382	0.951	T	0.33904	-0.9850	10	0.05436	T	0.98	-29.9471	11.8194	0.52230	0.0:0.0:1.0:0.0	.	216	Q8NBT3	TM145_HUMAN	F	216	ENSP00000301204:V216F	ENSP00000301204:V216F	V	+	1	0	TMEM145	47511432	1.000000	0.71417	1.000000	0.80357	0.914000	0.54420	7.047000	0.76599	1.926000	0.55796	0.455000	0.32223	GTC		0.537	TMEM145-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463737.1	NM_173633	Missense_Mutation	T	42819592	G	T	42819592	5	4	596	1	0	0	0	0	0	0	1	0	16071	1246	43	4	676	4	TMEM145	19	42819592	Splice_Site	SNP	G	TCGA-G7-A4TM-01A-11D-A31X-10	23742	42819592	16309391	47	35604										
ZNF814	730051	bcgsc.ca	37	chr19	58385788	58385788	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	cccacattctccacattcatAaggtcttttcccagtgtgaa	5	13	3	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr19:58385788A>G	ENST00000435989.2	-	3	1204	c.970T>C	c.(970-972)Tat>Cat	p.Y324H	ZNF814_ENST00000595295.1_Intron|ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000596604.1_Intron|ZNF814_ENST00000597832.1_Intron|ZNF814_ENST00000597342.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	324					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						CCACATTCATAAGGTCTTTTC	0.358																																																0													15	12	13					19																	58385788		688	1564	2252	SO:0001583	missense	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.970T>C	19.37:g.58385788A>G	ENSP00000410545:p.Tyr324His	Somatic		WXS	Illumina HiSeq	Phase_1	A6NF35	Missense_Mutation	SNP	ENST00000435989.2	37	CCDS46212.1	.	.	.	.	.	.	.	.	.	.	.	8.644	0.896732	0.17686	.	.	ENSG00000204514	ENST00000435989	T	0.21734	1.99	2.27	-1.27	0.09347	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (2);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.13970	0.0338	L	0.33485	1.01	0.09310	N	1	B	0.27498	0.18	B	0.22386	0.039	T	0.24368	-1.0162	9	0.72032	D	0.01	.	7.1587	0.25652	0.6135:0.0:0.3865:0.0	.	324	B7Z6K7	ZN814_HUMAN	H	324	ENSP00000410545:Y324H	ENSP00000410545:Y324H	Y	-	1	0	ZNF814	63077600	0.000000	0.05858	0.008000	0.14137	0.034000	0.12701	0.130000	0.15850	-0.181000	0.10619	0.113000	0.15668	TAT		0.358	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		G	58385788	A	G	58385788	3	3	596	1	0	0	0	0	1	0	0	0	18188	362	13	3	1601	3	ZNF814	19	58385788	Missense_Mutation	SNP	A	TCGA-G7-A4TM-01A-11D-A31X-10	15566196	58385788	743195	48	35605										
ARFGEF2	10564	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	47587774	47587774	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	aatgcaatcaagcaatatctCtgtgtggccttgtccaaaaa	7	9	2	0			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr20:47587774C>G	ENST00000371917.4	+	10	1308	c.1308C>G	c.(1306-1308)ctC>ctG	p.L436L		NM_006420.2	NP_006411.2	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine nucleotide-exchange factor 2 (brefeldin A-inhibited)	436					endomembrane system organization (GO:0010256)|endosome organization (GO:0007032)|exocytosis (GO:0006887)|Golgi to plasma membrane transport (GO:0006893)|intracellular signal transduction (GO:0035556)|positive regulation of GTPase activity (GO:0043547)|positive regulation of tumor necrosis factor production (GO:0032760)|protein transport (GO:0015031)|receptor recycling (GO:0001881)|regulation of ARF protein signal transduction (GO:0032012)|vesicle-mediated transport (GO:0016192)	asymmetric synapse (GO:0032279)|axonemal microtubule (GO:0005879)|cell junction (GO:0030054)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|Golgi membrane (GO:0000139)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)|recycling endosome (GO:0055037)|symmetric synapse (GO:0032280)|trans-Golgi network (GO:0005802)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|GABA receptor binding (GO:0050811)|guanyl-nucleotide exchange factor activity (GO:0005085)|protein kinase A regulatory subunit binding (GO:0034237)			breast(7)|cervix(2)|endometrium(8)|kidney(4)|large_intestine(11)|lung(19)|ovary(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	63			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			AGCAATATCTCTGTGTGGCCT	0.458																																					Esophageal Squamous(176;1738 1974 26285 33069 35354)											0													213	185	195					20																	47587774		2203	4300	6503	SO:0001819	synonymous_variant	10564			AF084521	CCDS13411.1	20q13.13	2010-08-20			ENSG00000124198	ENSG00000124198		"A-kinase anchor proteins"	15853	protein-coding gene	gene with protein product	"Brefeldin A-inhibited guanine nucleotide-exchange protein 2"	605371				10212200	Standard	NM_006420		Approved	BIG2	uc002xtx.4	Q9Y6D5	OTTHUMG00000032687	ENST00000371917.4:c.1308C>G	20.37:g.47587774C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TFT9|Q9NTS1	Silent	SNP	ENST00000371917.4	37	CCDS13411.1																																																																																				0.458	ARFGEF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079627.1	NM_006420		G	47587774	C	G	47587774	2	3	596	1	0	0	0	0	0	0	0	1	853	900	32	4		4	ARFGEF2	20	47587774	Silent	SNP	C	TCGA-G7-A4TM-01A-11D-A31X-10		47587774	15437746	49	35606										
NCAM2	4685	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	22710734	22710734	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	cctcacataatacagcttaaAaatgaaactacatatgagaa	4	8	1	2			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chr21:22710734A>C	ENST00000400546.1	+	8	1173	c.924A>C	c.(922-924)aaA>aaC	p.K308N	NCAM2_ENST00000535285.1_Missense_Mutation_p.K333N|NCAM2_ENST00000284894.7_Missense_Mutation_p.K166N	NM_004540.3	NP_004531.2	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2	308	Ig-like C2-type 4.				axonal fasciculation (GO:0007413)|neuron cell-cell adhesion (GO:0007158)|sensory perception of smell (GO:0007608)	axon (GO:0030424)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(4)|cervix(2)|endometrium(8)|kidney(6)|large_intestine(22)|liver(4)|lung(49)|ovary(4)|prostate(4)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	108		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)		TACAGCTTAAAAATGAAACTA	0.388																																																0													59	58	59					21																	22710734		1859	4085	5944	SO:0001583	missense	4685				CCDS42910.1	21q21	2013-02-11			ENSG00000154654	ENSG00000154654		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	7657	protein-coding gene	gene with protein product		602040				9226371	Standard	NM_004540		Approved	NCAM21, MGC51008	uc002yld.2	O15394	OTTHUMG00000078121	ENST00000400546.1:c.924A>C	21.37:g.22710734A>C	ENSP00000383392:p.Lys308Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8MQ06|B7Z841|Q7Z7F2	Missense_Mutation	SNP	ENST00000400546.1	37	CCDS42910.1	.	.	.	.	.	.	.	.	.	.	A	15.79	2.936147	0.52972	.	.	ENSG00000154654	ENST00000400546;ENST00000284894;ENST00000535285	T;T;T	0.69685	-0.42;-0.42;-0.42	5.8	3.37	0.38596	Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.276736	0.45867	D	0.000323	T	0.67382	0.2887	L	0.39245	1.2	0.53688	D	0.999977	D;P;P	0.55800	0.973;0.776;0.618	P;P;B	0.56474	0.799;0.558;0.374	T	0.64761	-0.6331	10	0.49607	T	0.09	-16.2371	9.6438	0.39855	0.8549:0.0:0.1451:0.0	.	333;166;308	B7Z841;B7Z5K2;O15394	.;.;NCAM2_HUMAN	N	308;166;333	ENSP00000383392:K308N;ENSP00000284894:K166N;ENSP00000441887:K333N	ENSP00000284894:K166N	K	+	3	2	NCAM2	21632605	1.000000	0.71417	0.991000	0.47740	0.989000	0.77384	2.518000	0.45537	0.426000	0.26116	0.482000	0.46254	AAA		0.388	NCAM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000170915.1	NM_004540		C	22710734	A	C	22710734	3	2	596	1	0	0	0	0	1	0	0	0	10210	11	1	5	954	5	NCAM2	21	22710734	Missense_Mutation	SNP	A	TCGA-G7-A4TM-01A-11D-A31X-10		22710734	25419161	50	35607										
RBM3	5935	broad.mit.edu	37	chrX	48434952	48434952	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.08	4	1	1.59966287399916	2.09955752212389	1.29203539823009	1	1	0	atgacagtcgacctggagggTatggatatggatatggacgt	15	5	0	1			TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	g.chrX:48434952T>G	ENST00000376759.3	+	5	436	c.373T>G	c.(373-375)Tat>Gat	p.Y125D	RBM3_ENST00000354480.2_Silent_p.G97G|RBM3_ENST00000430348.2_Silent_p.G97G|RBM3_ENST00000466764.1_3'UTR|RBM3_ENST00000376755.1_Missense_Mutation_p.Y125D|AC115618.1_ENST00000376775.2_5'Flank	NM_006743.4	NP_006734.1	P98179	RBM3_HUMAN	RNA binding motif (RNP1, RRM) protein 3	125	Gly-rich.				positive regulation of translation (GO:0045727)|production of miRNAs involved in gene silencing by miRNA (GO:0035196)|regulation of translation (GO:0006417)|response to cold (GO:0009409)|RNA processing (GO:0006396)|translation (GO:0006412)	cytoplasm (GO:0005737)|dendrite (GO:0030425)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|ribosomal large subunit binding (GO:0043023)|RNA binding (GO:0003723)			endometrium(1)|large_intestine(1)|lung(1)|ovary(1)	4						ACCTGGAGGGTATGGATATGG	0.498																																																0													85	72	77					X																	48434952		2198	4293	6491	SO:0001583	missense	5935			BC006825	CCDS14301.1	Xp11.2	2014-05-19	2004-04-23		ENSG00000102317	ENSG00000102317		"RNA binding motif (RRM) containing"	9900	protein-coding gene	gene with protein product		300027	"RNA binding motif protein 3"			8634703	Standard	NM_006743		Approved	IS1-RNPL	uc004dkf.2	P98179	OTTHUMG00000024121	ENST00000376759.3:c.373T>G	X.37:g.48434952T>G	ENSP00000365950:p.Tyr125Asp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000376759.3	37	CCDS14301.1	.	.	.	.	.	.	.	.	.	.	T	13.35	2.209999	0.39003	.	.	ENSG00000102317	ENST00000376759;ENST00000376755	T;T	0.20598	2.06;2.06	3.86	3.86	0.44501	.	.	.	.	.	T	0.38957	0.1060	M	0.75615	2.305	0.80722	D	1	D	0.58970	0.984	P	0.62435	0.902	T	0.14117	-1.0484	9	0.30078	T	0.28	-5.6672	10.0649	0.42297	0.0:0.0:0.0:1.0	.	125	P98179	RBM3_HUMAN	D	125	ENSP00000365950:Y125D;ENSP00000365946:Y125D	ENSP00000365946:Y125D	Y	+	1	0	RBM3	48319896	1.000000	0.71417	1.000000	0.80357	0.892000	0.51952	2.002000	0.40835	1.735000	0.51646	0.486000	0.48141	TAT		0.498	RBM3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060755.1	NM_006743		G	48434952	T	G	48434952	3	3	596	1	0	0	0	0	1	0	0	0	13142	1638	57	5	387	5	RBM3	23	48434952	Missense_Mutation	SNP	T	TCGA-G7-A4TM-01A-11D-A31X-10		48434952	106835608	51	35608										
ESPN	83715	ucsc.edu	37	chr1	6512054	6512054	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gacgtggaggctctcatcccCacgcacgatgagcagggccg	14	14	1	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr1:6512054C>T	ENST00000377828.1	+	10	2391	c.2223C>T	c.(2221-2223)ccC>ccT	p.P741P	ESPN_ENST00000475228.1_3'UTR|ESPN_ENST00000416731.1_Silent_p.P175P|ESPN_ENST00000461727.1_Silent_p.P175P	NM_031475.2	NP_113663.2	B1AK53	ESPN_HUMAN	espin	741					locomotory behavior (GO:0007626)|negative regulation of cytoskeleton organization (GO:0051494)|parallel actin filament bundle assembly (GO:0030046)|positive regulation of filopodium assembly (GO:0051491)|sensory perception of sound (GO:0007605)	brush border (GO:0005903)|cytoplasm (GO:0005737)|filamentous actin (GO:0031941)|microvillus (GO:0005902)|stereocilium bundle tip (GO:0032426)	actin filament binding (GO:0051015)|SH3 domain binding (GO:0017124)			NS(1)|breast(2)|cervix(1)|kidney(1)|large_intestine(2)|lung(7)|ovary(1)|prostate(1)|skin(1)	17	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)		CTCTCATCCCCACGCACGATG	0.657																																																0													22	24	23					1																	6512054		2202	4299	6501	SO:0001819	synonymous_variant	83715			AF134401	CCDS70.1	1p36.31	2013-01-10			ENSG00000187017	ENSG00000187017		"Ankyrin repeat domain containing"	13281	protein-coding gene	gene with protein product		606351	"deafness, autosomal recessive 36"	DFNB36		10975527, 15286153	Standard	NM_031475		Approved		uc001amy.3	B1AK53	OTTHUMG00000000753	ENST00000377828.1:c.2223C>T	1.37:g.6512054C>T		Somatic		WXS	Illumina HiSeq		Q6XYB2|Q9H0A2|Q9Y329	Silent	SNP	ENST00000377828.1	37	CCDS70.1	.	.	.	.	.	.	.	.	.	.	C	9.229	1.035281	0.19590	.	.	ENSG00000187017	ENST00000434576	.	.	.	5.14	3.25	0.37280	.	.	.	.	.	T	0.55577	0.1929	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.47923	-0.9079	4	.	.	.	-29.8002	6.8679	0.24104	0.4151:0.5027:0.0:0.0823	.	.	.	.	Y	85	.	.	H	+	1	0	ESPN	6434641	0.946000	0.32159	0.974000	0.42286	0.733000	0.41908	0.080000	0.14802	0.552000	0.29026	-0.424000	0.05967	CAC		0.657	ESPN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000001887.3	NM_031475		T	6512054	C	T	6512054	2	4	597	1	0	0	0	0	0	0	0	1	5256	581	21	2		2	ESPN	1	6512054	Silent	SNP	C	TCGA-GL-6846-01A-11D-1961-08		6512054	242738567	1	35609										
AGL	178	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	100346675	100346675	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tccaagtactacaattgtttCtatggcatgttgtgctagtg	9	7	1	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr1:100346675C>G	ENST00000294724.4	+	15	2421	c.1943C>G	c.(1942-1944)tCt>tGt	p.S648C	AGL_ENST00000361522.4_Missense_Mutation_p.S631C|AGL_ENST00000361302.3_Missense_Mutation_p.S632C|AGL_ENST00000370165.3_Missense_Mutation_p.S648C|AGL_ENST00000370163.3_Missense_Mutation_p.S648C|AGL_ENST00000370161.2_Missense_Mutation_p.S632C|AGL_ENST00000361915.3_Missense_Mutation_p.S648C	NM_000028.2	NP_000019.2	P35573	GDE_HUMAN	amylo-alpha-1, 6-glucosidase, 4-alpha-glucanotransferase	648					carbohydrate metabolic process (GO:0005975)|glucose metabolic process (GO:0006006)|glycogen biosynthetic process (GO:0005978)|glycogen catabolic process (GO:0005980)|response to glucocorticoid (GO:0051384)|response to nutrient (GO:0007584)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|inclusion body (GO:0016234)|isoamylase complex (GO:0043033)|nucleus (GO:0005634)|sarcoplasmic reticulum (GO:0016529)	4-alpha-glucanotransferase activity (GO:0004134)|amylo-alpha-1,6-glucosidase activity (GO:0004135)|glycogen debranching enzyme activity (GO:0004133)|polysaccharide binding (GO:0030247)			NS(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(6)|large_intestine(9)|lung(35)|ovary(1)|prostate(4)|skin(3)|urinary_tract(1)	69		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		ACAATTGTTTCTATGGCATGT	0.368																																																0													180	165	170					1																	100346675		2203	4300	6503	SO:0001583	missense	178			BC078663	CCDS759.1, CCDS760.1, CCDS761.1	1p21	2010-04-27	2010-04-27		ENSG00000162688	ENSG00000162688	2.4.1.25, 3.2.1.33		321	protein-coding gene	gene with protein product	"glycogen debranching enzyme", "glycogen storage disease type III"	610860	"amylo-1, 6-glucosidase, 4-alpha-glucanotransferase"			1505983	Standard	NM_000028		Approved		uc001dsi.1	P35573	OTTHUMG00000010803	ENST00000294724.4:c.1943C>G	1.37:g.100346675C>G	ENSP00000294724:p.Ser648Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NCX7|A6NEK2|D3DT51|P78354|P78544|Q59H92|Q6AZ90|Q9UF08	Missense_Mutation	SNP	ENST00000294724.4	37	CCDS759.1	.	.	.	.	.	.	.	.	.	.	C	13.83	2.355191	0.41700	.	.	ENSG00000162688	ENST00000361915;ENST00000370165;ENST00000370163;ENST00000294724;ENST00000361302;ENST00000370161;ENST00000361522	D;D;D;D;D;D;D	0.84516	-1.86;-1.86;-1.86;-1.86;-1.86;-1.86;-1.86	6.01	6.01	0.97437	Glycoside hydrolase, subgroup, catalytic domain (1);Glycoside hydrolase, superfamily (1);	0.049923	0.85682	D	0.000000	D	0.89681	0.6785	M	0.62723	1.935	0.80722	D	1	D;D;D	0.76494	0.999;0.999;0.998	D;D;D	0.72625	0.978;0.978;0.95	D	0.90138	0.4211	10	0.87932	D	0	.	15.6295	0.76893	0.0:0.9327:0.0:0.0673	.	631;632;648	P35573-2;P35573-3;P35573	.;.;GDE_HUMAN	C	648;648;648;648;632;632;631	ENSP00000355106:S648C;ENSP00000359184:S648C;ENSP00000359182:S648C;ENSP00000294724:S648C;ENSP00000354971:S632C;ENSP00000359180:S632C;ENSP00000354635:S631C	ENSP00000294724:S648C	S	+	2	0	AGL	100119263	1.000000	0.71417	0.805000	0.32314	0.062000	0.15995	5.550000	0.67268	2.850000	0.98022	0.655000	0.94253	TCT		0.368	AGL-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029778.1	NM_000028		G	100346675	C	G	100346675	3	3	597	1	0	0	0	0	1	0	0	0	384	913	32	4	2066	4	AGL	1	100346675	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08	93834621	100346675	148903946	2	35610										
TMEM79	84283	broad.mit.edu	37	chr1	156256105	156256105	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ttctgcccttcggccctttgGggagccacggcgggaggtgg	17	12	1	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr1:156256105G>C	ENST00000405535.2	+	3	983	c.812G>C	c.(811-813)gGg>gCg	p.G271A	TMEM79_ENST00000495881.1_3'UTR|TMEM79_ENST00000295694.5_Missense_Mutation_p.G271A|TMEM79_ENST00000357501.2_Missense_Mutation_p.W32C	NM_032323.2	NP_115699.1	Q9BSE2	TMM79_HUMAN	transmembrane protein 79	271					cornification (GO:0070268)|cuticle development (GO:0042335)|epithelial cell maturation (GO:0002070)|establishment of skin barrier (GO:0061436)|hair follicle morphogenesis (GO:0031069)|positive regulation of epidermis development (GO:0045684)|regulated secretory pathway (GO:0045055)	integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|trans-Golgi network membrane (GO:0032588)		p.G271E(1)		breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(5)|liver(1)|lung(9)|urinary_tract(1)	21	Hepatocellular(266;0.158)					CGGCCCTTTGGGGAGCCACGG	0.577																																																1	Substitution - Missense(1)	lung(1)											105	103	104					1																	156256105		2203	4300	6503	SO:0001583	missense	84283			BC005094	CCDS1138.1	1q22	2014-04-22			ENSG00000163472	ENSG00000163472			28196	protein-coding gene	gene with protein product	"mattrin"	615531					Standard	NM_032323		Approved	MGC13102, FLJ16057, FLJ32254, MATT	uc009wrw.3	Q9BSE2	OTTHUMG00000019788	ENST00000405535.2:c.812G>C	1.37:g.156256105G>C	ENSP00000384748:p.Gly271Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE22|D3DVB8	Missense_Mutation	SNP	ENST00000405535.2	37	CCDS1138.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	5.563|5.563	0.288740|0.288740	0.10513|0.10513	.|.	.|.	ENSG00000163472|ENSG00000163472	ENST00000295694;ENST00000405535|ENST00000357501;ENST00000456810	T;T|.	0.41065|.	1.01;1.01|.	5.93|5.93	0.478|0.478	0.16789|0.16789	.|.	0.639785|.	0.17656|.	N|.	0.166517|.	T|T	0.03564|0.03564	0.0102|0.0102	N|N	0.01352|0.01352	-0.895|-0.895	0.18873|0.18873	N|N	0.999988|0.999988	B|.	0.18863|.	0.031|.	B|.	0.19666|.	0.026|.	T|T	0.35674|0.35674	-0.9779|-0.9779	10|6	0.02654|0.87932	T|D	1|0	-7.6688|-7.6688	7.3474|7.3474	0.26670|0.26670	0.149:0.3975:0.4535:0.0|0.149:0.3975:0.4535:0.0	.|.	271|.	Q9BSE2|.	TMM79_HUMAN|.	A|C	271|32	ENSP00000295694:G271A;ENSP00000384748:G271A|.	ENSP00000295694:G271A|ENSP00000350100:W32C	G|W	+|+	2|3	0|0	TMEM79|TMEM79	154522729|154522729	0.243000|0.243000	0.23878|0.23878	0.081000|0.081000	0.20488|0.20488	0.992000|0.992000	0.81027|0.81027	0.649000|0.649000	0.24843|0.24843	0.100000|0.100000	0.17581|0.17581	0.561000|0.561000	0.74099|0.74099	GGG|TGG		0.577	TMEM79-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052101.1	NM_032323		C	156256105	G	C	156256105	3	2	597	1	0	0	0	0	1	0	0	0	16215	1232	43	4	818	4	TMEM79	1	156256105	Missense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08	55909430	156256105	92994516	3	35611										
BAT2L2	23215	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	171535917	171535917	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	aggagactaaagcagtctcaGaaatgtctactgaaatagga	10	6	2	3			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr1:171535917G>A	ENST00000338920.4	+	22	6724	c.6487G>A	c.(6487-6489)Gaa>Aaa	p.E2163K	PRRC2C_ENST00000426496.2_Missense_Mutation_p.E2163K|PRRC2C_ENST00000367742.3_Missense_Mutation_p.E2165K|PRRC2C_ENST00000392078.3_Missense_Mutation_p.E2165K	NM_015172.3	NP_055987.2	Q9Y520	PRC2C_HUMAN	proline-rich coiled-coil 2C	2163					hematopoietic progenitor cell differentiation (GO:0002244)	membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)										AGCAGTCTCAGAAATGTCTAC	0.448																																																0													77	69	71					1																	171535917		2203	4300	6503	SO:0001583	missense	23215			AL096857	CCDS1296.2	1q24.3	2012-07-18	2010-12-09	2010-12-09	ENSG00000117523	ENSG00000117523			24903	protein-coding gene	gene with protein product			"BAT2 domain containing 1", "HLA-B associated transcript 2-like 2"	BAT2D1, BAT2L2		10470851, 12443540	Standard	NM_015172		Approved	KIAA1096, XTP2	uc010pmg.2	Q9Y520	OTTHUMG00000034665	ENST00000338920.4:c.6487G>A	1.37:g.171535917G>A	ENSP00000343629:p.Glu2163Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q05DM8|Q49A39|Q6PD54|Q9H2N2|Q9HA05|Q9NSM8|Q9NXL3|Q9UF29|Q9UPQ6	Missense_Mutation	SNP	ENST00000338920.4	37	CCDS1296.2	.	.	.	.	.	.	.	.	.	.	G	18.45	3.627687	0.66901	.	.	ENSG00000117523	ENST00000392078;ENST00000451306;ENST00000426496;ENST00000367742;ENST00000338920;ENST00000392080	T;T;T;T	0.03124	4.25;4.04;4.27;4.27	5.6	5.6	0.85130	.	0.000000	0.46145	D	0.000303	T	0.10551	0.0258	L	0.59436	1.845	0.58432	D	0.999995	D	0.89917	1.0	D	0.85130	0.997	T	0.12372	-1.0550	10	0.36615	T	0.2	.	19.6251	0.95674	0.0:0.0:1.0:0.0	.	2163	Q9Y520-4	.	K	2165;2117;2163;2165;2163;1920	ENSP00000375928:E2165K;ENSP00000410219:E2163K;ENSP00000356716:E2165K;ENSP00000343629:E2163K	ENSP00000343629:E2163K	E	+	1	0	PRRC2C	169802541	1.000000	0.71417	0.992000	0.48379	0.510000	0.34073	9.236000	0.95360	2.636000	0.89361	0.655000	0.94253	GAA		0.448	PRRC2C-010	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000314826.4	NM_015172		A	171535917	G	A	171535917	3	1	597	1	0	0	0	0	1	0	0	0	1321	943	33	2	6569	2	BAT2L2	1	171535917	Missense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08	15279812	171535917	77714704	4	35612										
AGT	183	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	230841797	230841797	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	caggcaggcgctctcagtgaAgggcacttgagtcaccgaga	14	11	2	3			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr1:230841797A>T	ENST00000366667.4	-	3	1220	c.1006T>A	c.(1006-1008)Ttc>Atc	p.F336I		NM_000029.3	NP_000020.1	P01019	ANGT_HUMAN	angiotensinogen (serpin peptidase inhibitor, clade A, member 8)	336					activation of NF-kappaB-inducing kinase activity (GO:0007250)|activation of phospholipase C activity (GO:0007202)|aging (GO:0007568)|angiotensin maturation (GO:0002003)|angiotensin mediated vasoconstriction involved in regulation of systemic arterial blood pressure (GO:0001998)|angiotensin-mediated drinking behavior (GO:0003051)|artery smooth muscle contraction (GO:0014824)|astrocyte activation (GO:0048143)|blood vessel development (GO:0001568)|blood vessel remodeling (GO:0001974)|branching involved in ureteric bud morphogenesis (GO:0001658)|catenin import into nucleus (GO:0035411)|cell growth involved in cardiac muscle cell development (GO:0061049)|cell-cell signaling (GO:0007267)|cell-matrix adhesion (GO:0007160)|cellular lipid metabolic process (GO:0044255)|cellular protein metabolic process (GO:0044267)|cellular response to mechanical stimulus (GO:0071260)|cellular sodium ion homeostasis (GO:0006883)|cytokine secretion (GO:0050663)|ERK1 and ERK2 cascade (GO:0070371)|establishment of blood-nerve barrier (GO:0008065)|excretion (GO:0007588)|extracellular matrix organization (GO:0030198)|fibroblast proliferation (GO:0048144)|G-protein coupled receptor signaling pathway (GO:0007186)|G-protein coupled receptor signaling pathway coupled to cGMP nucleotide second messenger (GO:0007199)|kidney development (GO:0001822)|low-density lipoprotein particle remodeling (GO:0034374)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of neurotrophin TRK receptor signaling pathway (GO:0051387)|negative regulation of sodium ion transmembrane transporter activity (GO:2000650)|negative regulation of tissue remodeling (GO:0034104)|nitric oxide mediated signal transduction (GO:0007263)|ovarian follicle rupture (GO:0001543)|peristalsis (GO:0030432)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|positive regulation of activation of JAK2 kinase activity (GO:0010535)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|positive regulation of cardiac muscle hypertrophy (GO:0010613)|positive regulation of cellular protein metabolic process (GO:0032270)|positive regulation of cholesterol esterification (GO:0010873)|positive regulation of cytokine production (GO:0001819)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of epidermal growth factor receptor signaling pathway (GO:0045742)|positive regulation of extracellular matrix constituent secretion (GO:0003331)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of fatty acid biosynthetic process (GO:0045723)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of inflammatory response (GO:0050729)|positive regulation of macrophage derived foam cell differentiation (GO:0010744)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of multicellular organism growth (GO:0040018)|positive regulation of NAD(P)H oxidase activity (GO:0033864)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of organ growth (GO:0046622)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein tyrosine kinase activity (GO:0061098)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of renal sodium excretion (GO:0035815)|positive regulation of superoxide anion generation (GO:0032930)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of blood vessel size by renin-angiotensin (GO:0002034)|regulation of blood volume by renin-angiotensin (GO:0002016)|regulation of calcium ion transport (GO:0051924)|regulation of cell growth (GO:0001558)|regulation of cell proliferation (GO:0042127)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of norepinephrine secretion (GO:0014061)|regulation of proteolysis (GO:0030162)|regulation of renal output by angiotensin (GO:0002019)|regulation of renal sodium excretion (GO:0035813)|regulation of vasoconstriction (GO:0019229)|renal response to blood flow involved in circulatory renin-angiotensin regulation of systemic arterial blood pressure (GO:0001999)|renal system process (GO:0003014)|renin-angiotensin regulation of aldosterone production (GO:0002018)|response to cold (GO:0009409)|response to muscle activity involved in regulation of muscle adaptation (GO:0014873)|response to salt stress (GO:0009651)|small molecule metabolic process (GO:0044281)|smooth muscle cell differentiation (GO:0051145)|smooth muscle cell proliferation (GO:0048659)|stress-activated MAPK cascade (GO:0051403)|uterine smooth muscle contraction (GO:0070471)|vasodilation (GO:0042311)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	growth factor activity (GO:0008083)|hormone activity (GO:0005179)|serine-type endopeptidase inhibitor activity (GO:0004867)|superoxide-generating NADPH oxidase activator activity (GO:0016176)|type 1 angiotensin receptor binding (GO:0031702)|type 2 angiotensin receptor binding (GO:0031703)			endometrium(5)|kidney(1)|large_intestine(6)|lung(7)|pancreas(1)|prostate(5)	25	Breast(184;0.0735)|Ovarian(103;0.183)	all_cancers(173;4.64e-23)|all_epithelial(177;3.61e-18)|Breast(1374;0.00093)|all_neural(198;0.0604)|Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;4.4e-06)|Colorectal(1306;5.46e-06)|COAD - Colon adenocarcinoma(196;0.000256)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		CTCTCAGTGAAGGGCACTTGA	0.562																																																0													110	104	106					1																	230841797		2203	4300	6503	SO:0001583	missense	183			K02215	CCDS1585.1	1q42.2	2014-02-18	2005-08-18	2001-06-29	ENSG00000135744	ENSG00000135744		"Serine (or cysteine) peptidase inhibitors", "Endogenous ligands"	333	protein-coding gene	gene with protein product	"alpha-1 antiproteinase, antitrypsin"	106150		SERPINA8		6089875, 24172014	Standard	NM_000029		Approved		uc001hty.4	P01019	OTTHUMG00000037757	ENST00000366667.4:c.1006T>A	1.37:g.230841797A>T	ENSP00000355627:p.Phe336Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q16358|Q16359|Q96F91	Missense_Mutation	SNP	ENST00000366667.4	37	CCDS1585.1	.	.	.	.	.	.	.	.	.	.	A	8.200	0.797970	0.16327	.	.	ENSG00000135744	ENST00000366667;ENST00000430091	D	0.84800	-1.9	5.17	-4.42	0.03579	Serpin domain (3);	0.408163	0.24752	N	0.035897	T	0.66005	0.2746	N	0.14661	0.345	0.09310	N	1	B;B;B	0.26258	0.094;0.145;0.094	B;B;B	0.25140	0.044;0.058;0.044	T	0.54556	-0.8276	10	0.34782	T	0.22	.	7.5483	0.27781	0.1397:0.142:0.6158:0.1025	.	336;336;336	B0ZBE2;B2R5S1;P01019	.;.;ANGT_HUMAN	I	336;254	ENSP00000355627:F336I	ENSP00000355627:F336I	F	-	1	0	AGT	228908420	0.002000	0.14202	0.012000	0.15200	0.007000	0.05969	-0.319000	0.08039	-0.831000	0.04256	-0.250000	0.11733	TTC		0.562	AGT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092102.1	NM_000029		T	230841797	A	T	230841797	3	4	597	1	0	0	0	0	1	0	0	0	399	72	3	5	463	5	AGT	1	230841797	Missense_Mutation	SNP	A	TCGA-GL-6846-01A-11D-1961-08	59305880	230841797	18408824	5	35613										
PUM2	23369	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	20518349	20518349	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	atcatccccaagaaatatgcCtttttgtccatcttttgttg	5	10	2	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr2:20518349C>T	ENST00000361078.2	-	2	131	c.109G>A	c.(109-111)Ggc>Agc	p.G37S	PUM2_ENST00000319801.5_Missense_Mutation_p.G37S|PUM2_ENST00000338086.5_Missense_Mutation_p.G37S|PUM2_ENST00000536417.1_Intron|PUM2_ENST00000420234.1_5'UTR|PUM2_ENST00000403432.1_Missense_Mutation_p.G37S			Q8TB72	PUM2_HUMAN	pumilio RNA-binding family member 2	37	Interaction with SNAPIN.				regulation of translation (GO:0006417)|stress granule assembly (GO:0034063)	cytoplasm (GO:0005737)|cytoplasmic stress granule (GO:0010494)|nuclear membrane (GO:0031965)|perinuclear region of cytoplasm (GO:0048471)	poly(A) RNA binding (GO:0044822)			breast(2)|central_nervous_system(1)|endometrium(6)|kidney(4)|large_intestine(7)|lung(13)|ovary(2)|prostate(4)|urinary_tract(3)	42	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGAAATATGCCTTTTTGTCCA	0.338																																																0													142	131	135					2																	20518349		2203	4300	6503	SO:0001583	missense	23369			AF315591	CCDS1698.1, CCDS74486.1, CCDS74487.1	2p22-p21	2013-09-02	2013-09-02		ENSG00000055917	ENSG00000055917			14958	protein-coding gene	gene with protein product		607205	"pumilio (Drosphila) homolog 2", "pumilio homolog 2 (Drosophila)"			9039502, 12459267, 12511597	Standard	XM_005262607		Approved	PUMH2, KIAA0235	uc002rds.1	Q8TB72	OTTHUMG00000122098	ENST00000361078.2:c.109G>A	2.37:g.20518349C>T	ENSP00000354370:p.Gly37Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KSL0|B4E2B6|D6W527|O00234|Q53TV7|Q8WY43|Q9HAN2	Missense_Mutation	SNP	ENST00000361078.2	37		.	.	.	.	.	.	.	.	.	.	C	16.75	3.210343	0.58343	.	.	ENSG00000055917	ENST00000338086;ENST00000361078;ENST00000319801;ENST00000403432;ENST00000442400	T;T;T;T	0.21031	2.03;2.31;2.21;2.03	5.74	0.167	0.15006	.	0.151206	0.64402	N	0.000016	T	0.17152	0.0412	L	0.49350	1.555	0.80722	D	1	B;B	0.20459	0.0;0.045	B;B	0.20184	0.001;0.028	T	0.05500	-1.0881	10	0.54805	T	0.06	-0.9827	7.59	0.28015	0.1096:0.6213:0.0:0.2691	.	37;37	B7ZL34;Q8TB72-3	.;.	S	37	ENSP00000338173:G37S;ENSP00000354370:G37S;ENSP00000326746:G37S;ENSP00000385992:G37S	ENSP00000326746:G37S	G	-	1	0	PUM2	20381830	1.000000	0.71417	0.999000	0.59377	0.981000	0.71138	3.338000	0.52128	0.071000	0.16664	-0.948000	0.02665	GGC		0.338	PUM2-202	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_015317		T	20518349	C	T	20518349	3	4	597	1	0	0	0	0	1	0	0	0	12839	681	24	2	3161	2	PUM2	2	20518349	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08		20518349	222681024	6	35614										
UNC50	25972	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	99232895	99232895	+	Splice_Site	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gtctgcgtctcttctggcagAtgttatcctgacagacacat	9	11	3	3			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr2:99232895A>T	ENST00000357765.2	+	5	694	c.542A>T	c.(541-543)cAt>cTt	p.H181L	UNC50_ENST00000409975.1_Splice_Site_p.H198L|UNC50_ENST00000409347.1_Splice_Site_p.H198L	NM_014044.5	NP_054763.2	Q53HI1	UNC50_HUMAN	unc-50 homolog (C. elegans)	181					cell surface receptor signaling pathway (GO:0007166)|protein transport (GO:0015031)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|nuclear inner membrane (GO:0005637)	RNA binding (GO:0003723)			breast(1)|kidney(1)|large_intestine(2)|liver(1)|lung(4)|skin(1)	10						CTTCTGGCAGATGTTATCCTG	0.373																																																0													206	198	201					2																	99232895		2203	4300	6503	SO:0001630	splice_region_variant	25972				CCDS2035.1	2q12.2	2008-02-05			ENSG00000115446	ENSG00000115446			16046	protein-coding gene	gene with protein product						10980252	Standard	NM_014044		Approved	URP, UNCL, GMH1	uc002szc.4	Q53HI1	OTTHUMG00000130562	ENST00000357765.2:c.542-1A>T	2.37:g.99232895A>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DVH4|Q53S98|Q53TD6|Q5U5U2|Q6X7B9|Q9UQF4|Q9Y4S6	Missense_Mutation	SNP	ENST00000357765.2	37	CCDS2035.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	10.47|10.47	1.358643|1.358643	0.24598|0.24598	.|.	.|.	ENSG00000115446|ENSG00000115446	ENST00000357765;ENST00000409975;ENST00000409347|ENST00000393493	.|.	.|.	.|.	5.32|5.32	5.32|5.32	0.75619|0.75619	.|.	0.251636|.	0.46145|.	D|.	0.000306|.	T|T	0.35566|0.35566	0.0936|0.0936	N|N	0.04636|0.04636	-0.2|-0.2	0.80722|0.80722	D|D	1|1	B|.	0.02656|.	0.0|.	B|.	0.08055|.	0.003|.	T|T	0.30504|0.30504	-0.9976|-0.9976	9|5	0.11182|.	T|.	0.66|.	.|.	14.6244|14.6244	0.68611|0.68611	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	181|.	Q53HI1|.	UNC50_HUMAN|.	L|L	181;198;198|48	.|.	ENSP00000350409:H181L|.	H|M	+|+	2|1	0|0	UNC50|UNC50	98599327|98599327	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.713000|0.713000	0.41058|0.41058	8.609000|8.609000	0.90898|0.90898	2.238000|2.238000	0.73509|0.73509	0.477000|0.477000	0.44152|0.44152	CAT|ATG		0.373	UNC50-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252987.1	NM_014044	Missense_Mutation	T	99232895	A	T	99232895	5	4	597	1	0	0	0	0	0	0	1	0	17002	347	12	5	556	5	UNC50	2	99232895	Splice_Site	SNP	A	TCGA-GL-6846-01A-11D-1961-08	78714546	99232895	143966478	7	35615										
TTN	7273	ucsc.edu;bcgsc.ca	37	chr2	179611166	179611166	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ctgcttctcaaattctttaaCgtctttttcacttaattcaa	2	10	5	0	rs397517817		TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr2:179611166C>T	ENST00000591111.1	-	46	10585				TTN_ENST00000359218.5_Intron|TTN_ENST00000342992.6_Intron|TTN-AS1_ENST00000590773.1_RNA|TTN_ENST00000589042.1_Intron|TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000578746.1_RNA|TTN_ENST00000360870.5_Missense_Mutation_p.V5321I|TTN_ENST00000342175.6_Intron|TTN_ENST00000460472.2_Intron			Q8WZ42	TITIN_HUMAN	titin						adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AATTCTTTAACGTCTTTTTCA	0.363																																																0													64	58	60					2																	179611166		2203	4299	6502	SO:0001627	intron_variant	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.10361-4518G>A	2.37:g.179611166C>T		Somatic		WXS	Illumina HiSeq		A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	C	16.24	3.067909	0.55539	.	.	ENSG00000155657	ENST00000360870;ENST00000306136	T	0.60040	0.22	5.88	5.88	0.94601	.	.	.	.	.	T	0.70833	0.3269	M	0.63843	1.955	0.80722	D	1	D	0.71674	0.998	D	0.83275	0.996	T	0.64364	-0.6425	9	0.16896	T	0.51	.	14.3978	0.67022	0.0:0.9299:0.0:0.0701	.	5321	Q8WZ42-6	.	I	5321;602	ENSP00000354117:V5321I	ENSP00000304714:V602I	V	-	1	0	TTN	179319411	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	6.083000	0.71326	2.782000	0.95742	0.655000	0.94253	GTT		0.363	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		T	179611166	C	T	179611166	1	4	597	0	1	0	0	0	0	0	0	0	16747	536	19	1		1	TTN	2	179611166	Intron	SNP	C	TCGA-GL-6846-01A-11D-1961-08	80378271	179611166	63588207	8	35616										
ANKRD44	91526	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	197986231	197986231	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gtccattgtagcaggcgatgTgaagcgctgtatttccatag	12	8	0	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr2:197986231T>C	ENST00000328737.2	-	8	732	c.656A>G	c.(655-657)cAc>cGc	p.H219R	ANKRD44_ENST00000282272.8_Missense_Mutation_p.H236R|ANKRD44_ENST00000450567.1_Missense_Mutation_p.H219R|ANKRD44_ENST00000539527.1_Missense_Mutation_p.H172R|ANKRD44_ENST00000337207.5_Missense_Mutation_p.H219R|ANKRD44_ENST00000409919.1_Missense_Mutation_p.H244R|ANKRD44_ENST00000409153.1_Missense_Mutation_p.H244R			Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	244										NS(1)|endometrium(3)|kidney(2)|large_intestine(9)|lung(20)|ovary(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	45			OV - Ovarian serous cystadenocarcinoma(117;0.246)			GCAGGCGATGTGAAGCGCTGT	0.433																																																0													155	117	130					2																	197986231		2203	4300	6503	SO:0001583	missense	91526			AK097086	CCDS33355.1, CCDS33355.2, CCDS74619.1	2q33.1	2013-01-10			ENSG00000065413	ENSG00000065413		"Serine/threonine phosphatases / Protein phosphatase 6, regulatory subunits", "Ankyrin repeat domain containing"	25259	protein-coding gene	gene with protein product	"protein phosphatase 6 ankyrin repeat subunit B"						Standard	NM_153697		Approved	PP6-ARS-B	uc021vuj.1	Q8N8A2	OTTHUMG00000154411	ENST00000328737.2:c.656A>G	2.37:g.197986231T>C	ENSP00000331516:p.His219Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q53SL9|Q6P480|Q86VL5|Q8IZ72|Q9UFA4	Missense_Mutation	SNP	ENST00000328737.2	37		.	.	.	.	.	.	.	.	.	.	T	22.1	4.245633	0.80024	.	.	ENSG00000065413	ENST00000424317;ENST00000282272;ENST00000328737;ENST00000450567;ENST00000337207;ENST00000409153;ENST00000539527;ENST00000409919	T;T;T;T;T;T;T;T	0.79554	-0.56;-0.56;-1.28;-1.28;-1.28;-0.56;-1.28;-1.28	5.14	5.14	0.70334	.	0.105903	0.64402	D	0.000004	D	0.90287	0.6962	M	0.85630	2.765	0.58432	D	0.999999	D;D	0.89917	1.0;0.99	D;D	0.81914	0.995;0.968	D	0.91903	0.5533	10	0.87932	D	0	.	15.4162	0.74970	0.0:0.0:0.0:1.0	.	172;244	F5H682;Q8N8A2-3	.;.	R	41;236;219;219;219;244;172;244	ENSP00000403415:H41R;ENSP00000282272:H236R;ENSP00000331516:H219R;ENSP00000402420:H219R;ENSP00000338794:H219R;ENSP00000387141:H244R;ENSP00000437825:H172R;ENSP00000387233:H244R	ENSP00000282272:H236R	H	-	2	0	ANKRD44	197694476	1.000000	0.71417	1.000000	0.80357	0.820000	0.46376	7.825000	0.86693	2.285000	0.76669	0.533000	0.62120	CAC		0.433	ANKRD44-002	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000335113.1	NM_153697		C	197986231	T	C	197986231	3	2	597	1	0	0	0	0	1	0	0	0	672	1696	59	3	2179	3	ANKRD44	2	197986231	Missense_Mutation	SNP	T	TCGA-GL-6846-01A-11D-1961-08	18375065	197986231	45213142	9	35617										
FZD5	7855	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	208632800	208632800	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	actgaaggacggctggtagcAgggtaccgcgcagttgggca	17	9	0	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr2:208632800A>G	ENST00000295417.3	-	2	1217	c.664T>C	c.(664-666)Tgc>Cgc	p.C222R		NM_003468.3	NP_003459.2	Q13467	FZD5_HUMAN	frizzled class receptor 5	222					angiogenesis (GO:0001525)|anterior/posterior axis specification, embryo (GO:0008595)|apoptotic process (GO:0006915)|apoptotic process involved in morphogenesis (GO:0060561)|axonogenesis (GO:0007409)|brain development (GO:0007420)|branching involved in labyrinthine layer morphogenesis (GO:0060670)|canonical Wnt signaling pathway (GO:0060070)|cell maturation (GO:0048469)|cellular response to molecule of bacterial origin (GO:0071219)|chorionic trophoblast cell differentiation (GO:0060718)|embryonic axis specification (GO:0000578)|embryonic camera-type eye development (GO:0031076)|gonad development (GO:0008406)|labyrinthine layer blood vessel development (GO:0060716)|negative regulation of cell proliferation (GO:0008285)|neuron differentiation (GO:0030182)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of JUN kinase activity (GO:0043507)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|post-embryonic camera-type eye development (GO:0031077)|regulation of canonical Wnt signaling pathway (GO:0060828)|regulation of chorionic trophoblast cell proliferation (GO:1901382)|regulation of tight junction assembly (GO:2000810)|Spemann organizer formation (GO:0060061)|syncytiotrophoblast cell differentiation involved in labyrinthine layer development (GO:0060715)|T cell differentiation in thymus (GO:0033077)|Wnt signaling pathway involved in dorsal/ventral axis specification (GO:0044332)	cell projection (GO:0042995)|cell surface (GO:0009986)|clathrin-coated endocytic vesicle membrane (GO:0030669)|cytoplasm (GO:0005737)|early endosome (GO:0005769)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	G-protein coupled receptor activity (GO:0004930)|PDZ domain binding (GO:0030165)|protein kinase binding (GO:0019901)|ubiquitin protein ligase binding (GO:0031625)|Wnt-activated receptor activity (GO:0042813)|Wnt-protein binding (GO:0017147)			NS(1)|kidney(1)|lung(1)|ovary(2)|prostate(1)|skin(1)	7				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.13)|Lung(261;0.134)		GGCTGGTAGCAGGGTACCGCG	0.632																																																0													54	52	52					2																	208632800		2203	4300	6503	SO:0001583	missense	7855			U43318	CCDS33366.1	2q33.3	2014-01-29	2014-01-29		ENSG00000163251	ENSG00000163251		"GPCR / Class F : Frizzled receptors"	4043	protein-coding gene	gene with protein product		601723	"frizzled (Drosophila) homolog 5", "chromosome 2 open reading frame 31", "frizzled homolog 5 (Drosophila)", "frizzled 5, seven transmembrane spanning receptor", "frizzled family receptor 5"	C2orf31		8626800, 11408929	Standard	NM_003468		Approved	HFZ5, DKFZP434E2135	uc002vcj.3	Q13467	OTTHUMG00000154790	ENST00000295417.3:c.664T>C	2.37:g.208632800A>G	ENSP00000354607:p.Cys222Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2X1|B2RCZ1|Q53R22	Missense_Mutation	SNP	ENST00000295417.3	37	CCDS33366.1	.	.	.	.	.	.	.	.	.	.	A	18.80	3.701621	0.68501	.	.	ENSG00000163251	ENST00000295417	D	0.90197	-2.63	5.05	5.05	0.67936	.	0.051032	0.85682	D	0.000000	D	0.94706	0.8292	M	0.74647	2.275	0.80722	D	1	D	0.76494	0.999	D	0.76575	0.988	D	0.95299	0.8402	10	0.87932	D	0	.	14.4703	0.67512	1.0:0.0:0.0:0.0	.	222	Q13467	FZD5_HUMAN	R	222	ENSP00000354607:C222R	ENSP00000354607:C222R	C	-	1	0	FZD5	208341045	1.000000	0.71417	1.000000	0.80357	0.964000	0.63967	9.339000	0.96797	1.908000	0.55244	0.459000	0.35465	TGC		0.632	FZD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337060.1	NM_003468		G	208632800	A	G	208632800	3	3	597	1	0	0	0	0	1	0	0	0	6140	188	7	3	1097	3	FZD5	2	208632800	Missense_Mutation	SNP	A	TCGA-GL-6846-01A-11D-1961-08	10646569	208632800	34566573	10	35618										
ZNF142	7701	ucsc.edu;bcgsc.ca	37	chr2	219503380	219503380	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tcactgtgcttgcgaaggtgGgtgcgcagcaggaagcgcgt	17	9	1	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr2:219503380G>T	ENST00000449707.1	-	10	5167	c.4746C>A	c.(4744-4746)acC>acA	p.T1582T	ZNF142_ENST00000411696.2_Silent_p.T1582T	NM_001105537.1	NP_001099007.1	P52746	ZN142_HUMAN	zinc finger protein 142	1582					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(7)|endometrium(7)|large_intestine(5)|lung(12)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	38		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		TGCGAAGGTGGGTGCGCAGCA	0.612																																					Colon(170;867 1942 8995 15834 18053)											0													55	62	60					2																	219503380		2183	4274	6457	SO:0001819	synonymous_variant	7701			U09849	CCDS42817.1	2q35	2013-01-08	2006-06-13		ENSG00000115568	ENSG00000115568		"Zinc fingers, C2H2-type"	12927	protein-coding gene	gene with protein product		604083	"zinc finger protein 142 (clone pHZ-49)"				Standard	NM_001105537		Approved	KIAA0236, pHZ-49	uc002vin.4	P52746	OTTHUMG00000154736	ENST00000449707.1:c.4746C>A	2.37:g.219503380G>T		Somatic		WXS	Illumina HiSeq		Q92510	Silent	SNP	ENST00000449707.1	37	CCDS42817.1																																																																																				0.612	ZNF142-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336833.1	NM_005081		T	219503380	G	T	219503380	2	4	597	1	0	0	0	0	0	0	0	1	17743	1219	43	4		4	ZNF142	2	219503380	Silent	SNP	G	TCGA-GL-6846-01A-11D-1961-08	10870580	219503380	23695993	11	35619										
ZNF620	253639	bcgsc.ca	37	chr3	40553892	40553892	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tgtttctttctccctgggcaGcattcccattcaccacgcct	6	16	3	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr3:40553892G>C	ENST00000314529.6	+	4	300		c.e4-1		ZNF620_ENST00000418905.1_Intron	NM_175888.3	NP_787084.1	Q6ZNG0	ZN620_HUMAN	zinc finger protein 620						regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(2)|ovary(1)|urinary_tract(1)	11				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		TCCCTGGGCAGCATTCCCATT	0.562																																																0													75	73	74					3																	40553892		2203	4300	6503	SO:0001630	splice_region_variant	253639			AK093599	CCDS33740.1, CCDS58825.1	3p21.33	2013-01-08			ENSG00000177842	ENSG00000177842		"Zinc fingers, C2H2-type", "-"	28742	protein-coding gene	gene with protein product						12477932	Standard	NM_175888		Approved	MGC50836	uc003ckk.4	Q6ZNG0	OTTHUMG00000156044	ENST00000314529.6:c.152-1G>C	3.37:g.40553892G>C		Somatic		WXS	Illumina HiSeq	Phase_1	Q8N223	Splice_Site	SNP	ENST00000314529.6	37	CCDS33740.1	.	.	.	.	.	.	.	.	.	.	G	7.158	0.585110	0.13749	.	.	ENSG00000177842	ENST00000420891;ENST00000314529	.	.	.	2.19	2.19	0.27852	.	.	.	.	.	.	.	.	.	.	.	0.09310	N	0.999995	.	.	.	.	.	.	.	.	.	.	.	.	.	.	6.8528	0.24024	0.0:0.2925:0.7075:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	ZNF620	40528896	0.039000	0.19947	0.010000	0.14722	0.112000	0.19704	1.741000	0.38238	1.517000	0.48917	0.557000	0.71058	.		0.562	ZNF620-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342824.1	XM_171060	Intron	C	40553892	G	C	40553892	5	2	597	1	0	0	0	0	0	0	1	0	18056	985	34	4	161	4	ZNF620	3	40553892	Splice_Site	SNP	G	TCGA-GL-6846-01A-11D-1961-08		40553892	157468538	12	35620										
FBXW12	285231	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	48436087	48436087	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tagggtgaggaaagtaagtgActccagcattctggtgatgt	14	5	1	3			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr3:48436087A>G	ENST00000296438.5	+	11	1544	c.1358A>G	c.(1357-1359)gAc>gGc	p.D453G	FBXW12_ENST00000445170.1_Missense_Mutation_p.D434G|FBXW12_ENST00000415155.1_Missense_Mutation_p.D383G|FBXW12_ENST00000468158.1_Intron|FBXW12_ENST00000436231.1_Missense_Mutation_p.D296G	NM_207102.2	NP_996985.2	Q6X9E4	FBW12_HUMAN	F-box and WD repeat domain containing 12	453										breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(5)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	16				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		AAAGTAAGTGACTCCAGCATT	0.358																																																0													155	144	147					3																	48436087		2203	4300	6503	SO:0001583	missense	285231			AK097594, AY247969	CCDS2764.1, CCDS54577.1, CCDS54578.1	3p21.31	2011-07-01	2007-02-08	2004-07-21	ENSG00000164049	ENSG00000164049		"F-boxes / WD-40 domains", "WD repeat domain containing"	20729	protein-coding gene	gene with protein product		609075	"F-box only protein 35", "F-box and WD-40 domain protein 12"	FBXO35		15040455	Standard	NM_207102		Approved	Fbw12	uc010hjv.3	Q6X9E4	OTTHUMG00000133530	ENST00000296438.5:c.1358A>G	3.37:g.48436087A>G	ENSP00000296438:p.Asp453Gly	Somatic		WXS	Illumina HiSeq	Phase_I	E9PG36|Q494Y9|Q494Z0	Missense_Mutation	SNP	ENST00000296438.5	37	CCDS2764.1	.	.	.	.	.	.	.	.	.	.	A	3.674	-0.066986	0.07273	.	.	ENSG00000164049	ENST00000458736;ENST00000296438;ENST00000436231;ENST00000445170;ENST00000415155	T;T;T;T	0.27256	2.11;1.69;1.68;1.71	3.33	-3.75	0.04372	.	2.083830	0.03331	N	0.193337	T	0.06690	0.0171	N	0.01874	-0.695	0.09310	N	1	B;B;B;B	0.02656	0.0;0.0;0.0;0.0	B;B;B;B	0.01281	0.0;0.0;0.0;0.0	T	0.21075	-1.0256	10	0.02654	T	1	-4.1095	1.0856	0.01652	0.2988:0.1857:0.3473:0.1683	.	352;434;383;453	E9PCA2;E9PG36;Q494Z0;Q6X9E4	.;.;.;FBW12_HUMAN	G	352;453;296;434;383	ENSP00000296438:D453G;ENSP00000413866:D296G;ENSP00000406139:D434G;ENSP00000414683:D383G	ENSP00000296438:D453G	D	+	2	0	FBXW12	48411091	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.770000	0.04705	-0.780000	0.04553	-0.468000	0.05107	GAC		0.358	FBXW12-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257505.1	NM_207102		G	48436087	A	G	48436087	3	3	597	1	0	0	0	0	1	0	0	0	5772	275	10	3	1433	3	FBXW12	3	48436087	Missense_Mutation	SNP	A	TCGA-GL-6846-01A-11D-1961-08	7882195	48436087	149586343	13	35621										
KIAA1407	57577	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	113721375	113721375	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tcagctcgttgaattgctctCtcttccatagctagaaaata	6	10	3	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr3:113721375C>A	ENST00000295878.3	-	12	2135	c.1989G>T	c.(1987-1989)gaG>gaT	p.E663D	KIAA1407_ENST00000545063.1_3'UTR	NM_020817.1	NP_065868.1	Q8NCU4	K1407_HUMAN	KIAA1407	663										endometrium(9)|large_intestine(7)|lung(19)|ovary(2)|pancreas(1)|prostate(1)|urinary_tract(1)	40						GAATTGCTCTCTCTTCCATAG	0.318																																																0													90	83	86					3																	113721375		2202	4299	6501	SO:0001583	missense	57577			AF509494	CCDS2977.1	3q13.31	2005-01-10			ENSG00000163617	ENSG00000163617			29272	protein-coding gene	gene with protein product						10718198	Standard	NM_020817		Approved		uc003eax.3	Q8NCU4	OTTHUMG00000159337	ENST00000295878.3:c.1989G>T	3.37:g.113721375C>A	ENSP00000295878:p.Glu663Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYL1|Q9P2E0	Missense_Mutation	SNP	ENST00000295878.3	37	CCDS2977.1	.	.	.	.	.	.	.	.	.	.	C	12.27	1.887102	0.33348	.	.	ENSG00000163617	ENST00000295878	T	0.35048	1.33	5.35	4.48	0.54585	.	1.585750	0.04130	N	0.317747	T	0.61299	0.2336	M	0.71581	2.175	0.80722	D	1	D	0.76494	0.999	D	0.71184	0.972	T	0.35101	-0.9802	10	0.59425	D	0.04	.	9.6228	0.39732	0.0:0.8395:0.0:0.1605	.	663	Q8NCU4	K1407_HUMAN	D	663	ENSP00000295878:E663D	ENSP00000295878:E663D	E	-	3	2	KIAA1407	115204065	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	0.489000	0.22387	1.635000	0.50512	0.655000	0.94253	GAG		0.318	KIAA1407-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354724.2	NM_020817		A	113721375	C	A	113721375	3	1	597	1	0	0	0	0	1	0	0	0	8236	912	32	4	845	4	KIAA1407	3	113721375	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08	65285288	113721375	84301055	14	35622										
POLQ	10721	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	121217327	121217327	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gagaccttgacgtttaccttTtatggatggccatttgtcga	10	8	0	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr3:121217327T>G	ENST00000264233.5	-	13	2278	c.2150A>C	c.(2149-2151)aAa>aCa	p.K717T		NM_199420.3	NP_955452.3	O75417	DPOLQ_HUMAN	polymerase (DNA directed), theta	717					ATP catabolic process (GO:0006200)|DNA repair (GO:0006281)	nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|damaged DNA binding (GO:0003684)|DNA-directed DNA polymerase activity (GO:0003887)|single-stranded DNA-dependent ATPase activity (GO:0043142)			NS(2)|breast(7)|central_nervous_system(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(16)|lung(55)|ovary(5)|prostate(3)|skin(4)|stomach(2)|upper_aerodigestive_tract(4)|urinary_tract(2)	120				GBM - Glioblastoma multiforme(114;0.0915)		CGTTTACCTTTTATGGATGGC	0.453								DNA polymerases (catalytic subunits)																													Pancreas(152;907 1925 26081 31236 36904)											0													164	147	153					3																	121217327		2203	4300	6503	SO:0001583	missense	10721			AF052573	CCDS33833.1	3q13.3	2012-05-18			ENSG00000051341	ENSG00000051341	2.7.7.7	"DNA polymerases"	9186	protein-coding gene	gene with protein product		604419				10395804	Standard	NM_199420		Approved	POLH	uc003eee.4	O75417	OTTHUMG00000159396	ENST00000264233.5:c.2150A>C	3.37:g.121217327T>G	ENSP00000264233:p.Lys717Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O95160|Q6VMB5	Missense_Mutation	SNP	ENST00000264233.5	37	CCDS33833.1	.	.	.	.	.	.	.	.	.	.	T	23.1	4.369837	0.82573	.	.	ENSG00000051341	ENST00000543272;ENST00000264233;ENST00000393672	T	0.53857	0.6	5.83	5.83	0.93111	.	0.049703	0.85682	D	0.000000	T	0.69584	0.3127	M	0.85945	2.785	0.49582	D	0.999802	D	0.57257	0.979	P	0.58130	0.833	T	0.75199	-0.3402	10	0.87932	D	0	.	10.5218	0.44922	0.0:0.072:0.0:0.928	.	717	O75417	DPOLQ_HUMAN	T	340;717;853	ENSP00000264233:K717T	ENSP00000264233:K717T	K	-	2	0	POLQ	122700017	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	5.866000	0.69590	2.212000	0.71576	0.533000	0.62120	AAA		0.453	POLQ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355097.1	NM_199420		G	121217327	T	G	121217327	3	3	597	1	0	0	0	0	1	0	0	0	12215	1841	64	5	5694	5	POLQ	3	121217327	Missense_Mutation	SNP	T	TCGA-GL-6846-01A-11D-1961-08	7495952	121217327	76805103	15	35623										
SEC62	7095	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	169706125	169706125	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ggtgcaggctgttttgtagcCagtattcttctccttgctgt	11	9	2	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr3:169706125C>T	ENST00000337002.4	+	7	766	c.708C>T	c.(706-708)gcC>gcT	p.A236A	SEC62-AS1_ENST00000479626.1_RNA|SEC62_ENST00000470355.1_3'UTR|SEC62_ENST00000480708.1_Silent_p.A236A	NM_003262.3	NP_003253.1	Q99442	SEC62_HUMAN	SEC62 homolog (S. cerevisiae)	236					cotranslational protein targeting to membrane (GO:0006613)|posttranslational protein targeting to membrane (GO:0006620)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|rough endoplasmic reticulum (GO:0005791)	protein transporter activity (GO:0008565)|receptor activity (GO:0004872)			NS(1)|endometrium(1)|large_intestine(1)|lung(4)|ovary(1)|skin(1)	9						GTTTTGTAGCCAGTATTCTTC	0.433																																																0													208	189	195					3																	169706125		2203	4300	6503	SO:0001819	synonymous_variant	7095			D87127	CCDS3210.1	3q26.2	2008-04-22	2008-04-22	2008-04-22	ENSG00000008952	ENSG00000008952			11846	protein-coding gene	gene with protein product		602173	"translocation protein 1"	TLOC1		9020021, 10799540	Standard	NM_003262		Approved	Dtrp1, HTP1	uc003fgh.3	Q99442	OTTHUMG00000158753	ENST00000337002.4:c.708C>T	3.37:g.169706125C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DNQ0|O00682|O00729	Silent	SNP	ENST00000337002.4	37	CCDS3210.1																																																																																				0.433	SEC62-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352043.1			T	169706125	C	T	169706125	2	4	597	1	0	0	0	0	0	0	0	1	14017	581	21	2		2	SEC62	3	169706125	Silent	SNP	C	TCGA-GL-6846-01A-11D-1961-08	48488798	169706125	28316305	16	35624										
ACAP2	23527	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	195006526	195006526	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ttattagtagaatattgaccTggctgtccataaagtccttc	7	8	0	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr3:195006526T>C	ENST00000326793.6	-	22	2465	c.2235A>G	c.(2233-2235)ccA>ccG	p.P745P		NM_012287.5	NP_036419.3	Q15057	ACAP2_HUMAN	ArfGAP with coiled-coil, ankyrin repeat and PH domains 2	745					cellular response to nerve growth factor stimulus (GO:1990090)|protein localization to endosome (GO:0036010)|regulation of ARF GTPase activity (GO:0032312)	endosome membrane (GO:0010008)|membrane (GO:0016020)	ARF GTPase activator activity (GO:0008060)|zinc ion binding (GO:0008270)			cervix(2)|endometrium(2)|kidney(4)|large_intestine(5)|lung(10)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(2)	27						AATATTGACCTGGCTGTCCAT	0.313																																																0													131	120	124					3																	195006526		2203	4299	6502	SO:0001630	splice_region_variant	23527				CCDS33924.1	3q29	2013-01-10	2008-09-22	2008-09-22	ENSG00000114331	ENSG00000114331		"ADP-ribosylation factor GTPase activating proteins", "Pleckstrin homology (PH) domain containing", "Ankyrin repeat domain containing"	16469	protein-coding gene	gene with protein product		607766	"centaurin, beta 2"	CENTB2		11050434, 11062263	Standard	NM_012287		Approved	KIAA0041, CNT-B2	uc003fun.4	Q15057	OTTHUMG00000155885	ENST00000326793.6:c.2236+1A>G	3.37:g.195006526T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K2V4|Q8N5Z8|Q9UQR3	Silent	SNP	ENST00000326793.6	37	CCDS33924.1																																																																																				0.313	ACAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342126.2	NM_012287	Silent	C	195006526	T	C	195006526	5	2	597	1	0	0	0	0	0	0	1	0	119	1594	55	3	109	3	ACAP2	3	195006526	Splice_Site	SNP	T	TCGA-GL-6846-01A-11D-1961-08	25300401	195006526	3015904	17	35625										
LMLN	89782	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	197687145	197687145	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	cgaatggggcggaggagtggGttactcgggctcaggcccgg	20	9	1	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr3:197687145G>A	ENST00000330198.4	+	1	75	c.53G>A	c.(52-54)gGt>gAt	p.G18D	LMLN_ENST00000420910.2_Missense_Mutation_p.G18D|IQCG_ENST00000480302.1_5'Flank|LMLN_ENST00000332636.5_Silent_p.G6G|IQCG_ENST00000265239.6_5'Flank|LMLN_ENST00000482695.1_Silent_p.G6G	NM_033029.3	NP_149018.2	Q96KR4	LMLN_HUMAN	leishmanolysin-like (metallopeptidase M8 family)	18					cell adhesion (GO:0007155)|mitotic nuclear division (GO:0007067)	cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|lipid particle (GO:0005811)|membrane (GO:0016020)	metal ion binding (GO:0046872)|metalloendopeptidase activity (GO:0004222)			endometrium(3)|kidney(2)|large_intestine(4)|lung(12)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	25	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)		GGAGGAGTGGGTTACTCGGGC	0.736																																																0													21	26	25					3																	197687145		2199	4297	6496	SO:0001583	missense	89782			AJ312398	CCDS3332.1, CCDS46988.1	3q29	2008-02-04			ENSG00000185621	ENSG00000185621	3.4.24.36		15991	protein-coding gene	gene with protein product		609380					Standard	NM_033029		Approved	Gp63, Msp	uc010iar.3	Q96KR4	OTTHUMG00000155375	ENST00000330198.4:c.53G>A	3.37:g.197687145G>A	ENSP00000328829:p.Gly18Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B3LDG9|B3LDH0|C9J796|F8WB28|Q96KR5	Missense_Mutation	SNP	ENST00000330198.4	37	CCDS3332.1	.	.	.	.	.	.	.	.	.	.	G	10.43	1.349097	0.24426	.	.	ENSG00000185621	ENST00000330198;ENST00000420910	T;T	0.45276	0.92;0.9	3.66	0.764	0.18465	.	0.675595	0.12533	N	0.460640	T	0.22044	0.0531	N	0.19112	0.55	0.09310	N	0.999994	B;B	0.02656	0.0;0.0	B;B	0.04013	0.0;0.001	T	0.16012	-1.0417	10	0.36615	T	0.2	-0.6469	2.1617	0.03827	0.1124:0.1977:0.4859:0.204	.	18;18	Q96KR4;F8WB28	LMLN_HUMAN;.	D	18	ENSP00000328829:G18D;ENSP00000410926:G18D	ENSP00000328829:G18D	G	+	2	0	LMLN	199171542	0.000000	0.05858	0.000000	0.03702	0.207000	0.24258	0.016000	0.13377	0.154000	0.19237	0.456000	0.33151	GGT		0.736	LMLN-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000339701.1	NM_033029		A	197687145	G	A	197687145	3	1	597	1	0	0	0	0	1	0	0	0	8854	1261	44	2	55	2	LMLN	3	197687145	Missense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08	2680619	197687145	335285	18	35626										
FRYL	285527	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	48598002	48598003	+	Frame_Shift_Del	DEL	TT	TT	-													0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ttccagtgcaactcgagacaTtttcggatctttattctgtt							TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr4:48598002_48598003delTT	ENST00000503238.1	-	11	1049_1050	c.1050_1051delAA	c.(1048-1053)aaaatgfs	p.KM350fs	FRYL_ENST00000507711.1_Frame_Shift_Del_p.KM350fs|FRYL_ENST00000264319.7_5'UTR|FRYL_ENST00000358350.4_Frame_Shift_Del_p.KM350fs|FRYL_ENST00000537810.1_Frame_Shift_Del_p.KM350fs|FRYL_ENST00000506685.1_Frame_Shift_Del_p.KM56fs			O94915	FRYL_HUMAN	FRY-like	350					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)					breast(2)|central_nervous_system(2)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(21)|lung(38)|ovary(1)|pancreas(1)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	91						ACTCGAGACATTTTCGGATCTT	0.302																																																0																																										SO:0001589	frameshift_variant	285527			AL833170	CCDS43227.1	4p12	2011-08-03	2006-11-17	2005-11-24	ENSG00000075539	ENSG00000075539			29127	protein-coding gene	gene with protein product			"KIAA0826", "furry homolog-like (Drosophila)"	KIAA0826		10048485	Standard	NM_015030		Approved	DKFZp686E205	uc003gyh.1	O94915	OTTHUMG00000160608	ENST00000503238.1:c.1050_1051delAA	4.37:g.48598004_48598005delTT	ENSP00000426064:p.Lys350fs	Somatic		WXS	Illumina HiSeq	Phase_I	O95640|Q8WTZ5|Q9NT40	Frame_Shift_Del	DEL	ENST00000503238.1	37	CCDS43227.1																																																																																				0.302	FRYL-011	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000369265.2			-	48598003	TT	-	48598002	7	5	597	1	0	1	0	1	0	0	0	0	6071	1493	52	0	8194	0	FRYL	4	48598002	Frame_Shift_Del	DEL	TT	TCGA-GL-6846-01A-11D-1961-08		48598002	142556274	19	35627										
CWH43	80157	broad.mit.edu	37	chr4	49040168	49040168	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	cacctggctccagagattatCtacagctcactgaacatggc	8	13	2	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr4:49040168C>G	ENST00000226432.4	+	13	1957	c.1774C>G	c.(1774-1776)Cta>Gta	p.L592V	CWH43_ENST00000513409.1_Missense_Mutation_p.L565V	NM_025087.2	NP_079363.2	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog (S. cerevisiae)	592					GPI anchor biosynthetic process (GO:0006506)	integral component of membrane (GO:0016021)				cervix(1)|endometrium(4)|kidney(1)|large_intestine(4)|lung(26)|ovary(1)|prostate(1)|skin(4)|urinary_tract(1)	43						CAGAGATTATCTACAGCTCAC	0.323																																																0													127	136	133					4																	49040168		2203	4300	6503	SO:0001583	missense	80157				CCDS3486.1, CCDS68697.1	4p12-p11	2010-09-21			ENSG00000109182	ENSG00000109182			26133	protein-coding gene	gene with protein product						17714445, 17761529	Standard	NM_025087		Approved	FLJ21511, CWH43-C	uc003gyv.3	Q9H720	OTTHUMG00000128627	ENST00000226432.4:c.1774C>G	4.37:g.49040168C>G	ENSP00000226432:p.Leu592Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPD7	Missense_Mutation	SNP	ENST00000226432.4	37	CCDS3486.1	.	.	.	.	.	.	.	.	.	.	C	0.021	-1.426451	0.01117	.	.	ENSG00000109182	ENST00000226432;ENST00000513409	T;T	0.29655	1.56;1.56	3.99	1.18	0.20946	Endonuclease/exonuclease/phosphatase (1);	1.583370	0.03606	N	0.234129	T	0.19327	0.0464	N	0.14661	0.345	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.20638	-1.0269	9	.	.	.	.	7.7558	0.28923	0.5584:0.3029:0.1388:0.0	.	592	Q9H720	PG2IP_HUMAN	V	592;565	ENSP00000226432:L592V;ENSP00000422802:L565V	.	L	+	1	2	CWH43	48734925	0.002000	0.14202	0.038000	0.18304	0.945000	0.59286	0.220000	0.17660	0.222000	0.20900	0.555000	0.69702	CTA		0.323	CWH43-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250496.2	NM_025087		G	49040168	C	G	49040168	3	3	597	1	0	0	0	0	1	0	0	0	4075	912	32	4	1824	4	CWH43	4	49040168	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08	442166	49040168	142114108	20	35628										
TET2	54790	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	106157461	106157461	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tggaagaatgttttcatggtGaaaatcagtattcaaaatca	8	4	4	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr4:106157461G>T	ENST00000540549.1	+	3	3222	c.2362G>T	c.(2362-2364)Gaa>Taa	p.E788*	TET2_ENST00000413648.2_Nonsense_Mutation_p.E788*|TET2_ENST00000394764.1_Nonsense_Mutation_p.E788*|TET2_ENST00000305737.2_Nonsense_Mutation_p.E788*|TET2_ENST00000380013.4_Nonsense_Mutation_p.E788*|TET2_ENST00000513237.1_Nonsense_Mutation_p.E809*|TET2_ENST00000545826.1_Nonsense_Mutation_p.E788*			Q6N021	TET2_HUMAN	tet methylcytosine dioxygenase 2	788	Gln-rich.				5-methylcytosine catabolic process (GO:0006211)|cell cycle (GO:0007049)|DNA demethylation (GO:0080111)|histone H3-K4 trimethylation (GO:0080182)|kidney development (GO:0001822)|myeloid cell differentiation (GO:0030099)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|post-embryonic development (GO:0009791)|protein O-linked glycosylation (GO:0006493)		DNA binding (GO:0003677)|ferrous iron binding (GO:0008198)|methylcytosine dioxygenase activity (GO:0070579)|zinc ion binding (GO:0008270)	p.E788K(1)|p.E788*(1)		NS(1)|breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1272)|kidney(3)|large_intestine(11)|lung(10)|ovary(1)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	1314		Myeloproliferative disorder(5;0.0393)		OV - Ovarian serous cystadenocarcinoma(123;7.18e-08)		TTTTCATGGTGAAAATCAGTA	0.393			"Mis N, F"		MDS																																		Rec	yes		4	4q24	54790	tet oncogene family member 2		L	2	Substitution - Nonsense(1)|Substitution - Missense(1)	haematopoietic_and_lymphoid_tissue(2)											57	60	59					4																	106157461		2203	4300	6503	SO:0001587	stop_gained	54790			AB046766	CCDS3666.1, CCDS47120.1	4q24	2014-09-17	2011-09-30	2008-03-12	ENSG00000168769	ENSG00000168769			25941	protein-coding gene	gene with protein product		612839	"KIAA1546", "tet oncogene family member 2"	KIAA1546		10997877, 12646957	Standard	NM_017628		Approved	FLJ20032	uc003hxk.3	Q6N021	OTTHUMG00000131213	ENST00000540549.1:c.2362G>T	4.37:g.106157461G>T	ENSP00000442788:p.Glu788*	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDU0|Q2TB88|Q3LIB8|Q96JX5|Q9HCM6|Q9NXW0	Nonsense_Mutation	SNP	ENST00000540549.1	37	CCDS47120.1	.	.	.	.	.	.	.	.	.	.	G	42	9.661685	0.99231	.	.	ENSG00000168769	ENST00000305737;ENST00000540549;ENST00000545826;ENST00000513237;ENST00000380013;ENST00000394764;ENST00000413648	.	.	.	5.91	5.91	0.95273	.	16.416400	0.00166	N	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.41790	T	0.15	.	20.2985	0.98592	0.0:0.0:1.0:0.0	.	.	.	.	X	788;788;788;809;788;788;788	.	ENSP00000265149:E788X	E	+	1	0	TET2	106376910	1.000000	0.71417	0.997000	0.53966	0.985000	0.73830	4.534000	0.60622	2.793000	0.96121	0.655000	0.94253	GAA		0.393	TET2-202	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000253952.2	NM_017628		T	106157461	G	T	106157461	4	4	597	1	0	0	0	0	0	1	0	0	15782	1291	45	4	2364	4	TET2	4	106157461	Nonsense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08	57117293	106157461	84996815	21	35629										
TRPC3	7222	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	122853525	122853525	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gacaatgagaggtaagccggGctggccagccccttgtaggc	15	11	0	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr4:122853525G>A	ENST00000379645.3	-	2	961	c.888C>T	c.(886-888)agC>agT	p.S296S	TRPC3_ENST00000513531.1_Silent_p.S223S|TRPC3_ENST00000264811.5_Silent_p.S223S	NM_001130698.1	NP_001124170.1	Q13507	TRPC3_HUMAN	transient receptor potential cation channel, subfamily C, member 3	211					axon guidance (GO:0007411)|blood coagulation (GO:0007596)|calcium ion transmembrane transport (GO:0070588)|calcium ion transport (GO:0006816)|ion transmembrane transport (GO:0034220)|phototransduction (GO:0007602)|platelet activation (GO:0030168)|positive regulation of calcium ion transport into cytosol (GO:0010524)|positive regulation of cardiac muscle hypertrophy in response to stress (GO:1903244)|response to ATP (GO:0033198)|response to calcium ion (GO:0051592)|transmembrane transport (GO:0055085)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium channel activity (GO:0005262)|inositol 1,4,5 trisphosphate binding (GO:0070679)|store-operated calcium channel activity (GO:0015279)			NS(1)|breast(5)|central_nervous_system(3)|cervix(1)|endometrium(9)|kidney(1)|large_intestine(12)|lung(13)|ovary(2)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	51						GGTAAGCCGGGCTGGCCAGCC	0.587																																																0													45	41	42					4																	122853525		2203	4300	6503	SO:0001819	synonymous_variant	7222			Y13758	CCDS3725.1, CCDS47130.1	4q27	2011-12-14			ENSG00000138741	ENSG00000138741		"Voltage-gated ion channels / Transient receptor potential cation channels"	12335	protein-coding gene	gene with protein product		602345				8646775, 16382100	Standard	NM_003305		Approved		uc003ieg.2	Q13507	OTTHUMG00000133069	ENST00000379645.3:c.888C>T	4.37:g.122853525G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A7VJS1|E9PCJ9|O00593|Q15660|Q52M35|Q5G1L5	Silent	SNP	ENST00000379645.3	37	CCDS47130.1																																																																																				0.587	TRPC3-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000364252.1	NM_003305		A	122853525	G	A	122853525	2	1	597	1	0	0	0	0	0	0	0	1	16591	1194	42	2		2	TRPC3	4	122853525	Silent	SNP	G	TCGA-GL-6846-01A-11D-1961-08	16696064	122853525	68300751	22	35630										
CPE	1363	bcgsc.ca	37	chr4	166385584	166385584	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tgggaatatgcatgggaatgAggctgttggacgagaactgc	16	5	0	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr4:166385584A>G	ENST00000402744.4	+	2	630	c.350A>G	c.(349-351)gAg>gGg	p.E117G		NM_001873.2	NP_001864.1	P16870	CBPE_HUMAN	carboxypeptidase E	117					cardiac left ventricle morphogenesis (GO:0003214)|cellular protein metabolic process (GO:0044267)|cellular protein modification process (GO:0006464)|insulin processing (GO:0030070)|metabolic process (GO:0008152)|neuropeptide signaling pathway (GO:0007218)|protein localization to membrane (GO:0072657)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|secretory granule membrane (GO:0030667)	carboxypeptidase activity (GO:0004180)|cell adhesion molecule binding (GO:0050839)|metallocarboxypeptidase activity (GO:0004181)|neurexin family protein binding (GO:0042043)|zinc ion binding (GO:0008270)			endometrium(2)|large_intestine(10)|lung(9)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	26	all_hematologic(180;0.221)	Prostate(90;0.0962)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.137)	"""Insulin(DB00071)|Insulin Regular(DB00030)"	CATGGGAATGAGGCTGTTGGA	0.418											OREG0016390	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													171	152	158					4																	166385584		2203	4300	6503	SO:0001583	missense	1363			X51405	CCDS3810.1	4q32.3	2012-02-10			ENSG00000109472	ENSG00000109472	3.4.17.10		2303	protein-coding gene	gene with protein product	"carboxypeptidase H", "enkephalin convertase", "insulin granule-associated carboxypeptidase", "cobalt-stimulated chromaffin granule carboxypeptidase"	114855				2334405	Standard	NM_001873		Approved		uc003irg.4	P16870	OTTHUMG00000150252	ENST00000402744.4:c.350A>G	4.37:g.166385584A>G	ENSP00000386104:p.Glu117Gly	Somatic	1854	WXS	Illumina HiSeq	Phase_1	A8K4N1|B3KR42|B4DFN4|D3DP33|Q9UIU9	Missense_Mutation	SNP	ENST00000402744.4	37	CCDS3810.1	.	.	.	.	.	.	.	.	.	.	A	25.5	4.648987	0.87958	.	.	ENSG00000109472	ENST00000513982;ENST00000402744;ENST00000261510;ENST00000431967;ENST00000511992	T;T;T;T	0.55234	0.53;0.53;0.53;0.53	5.3	5.3	0.74995	Peptidase M14, carboxypeptidase A (3);	0.000000	0.85682	D	0.000000	T	0.78233	0.4251	M	0.91768	3.24	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.83881	0.0279	10	0.87932	D	0	-24.5917	15.2255	0.73348	1.0:0.0:0.0:0.0	.	117	P16870	CBPE_HUMAN	G	5;117;81;5;5	ENSP00000424830:E5G;ENSP00000386104:E117G;ENSP00000416601:E5G;ENSP00000423699:E5G	ENSP00000261510:E81G	E	+	2	0	CPE	166605034	1.000000	0.71417	1.000000	0.80357	0.937000	0.57800	9.253000	0.95501	2.009000	0.58944	0.477000	0.44152	GAG		0.418	CPE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317094.2	NM_001873		G	166385584	A	G	166385584	3	3	597	1	0	0	0	0	1	0	0	0	3801	304	11	3	356	3	CPE	4	166385584	Missense_Mutation	SNP	A	TCGA-GL-6846-01A-11D-1961-08	43532059	166385584	24768692	23	35631										
FAT1	2195	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	187530418	187530418	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gagcttccttggttgccatcTataattgagtagtggatgtg	12	6	1	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr4:187530418T>A	ENST00000441802.2	-	16	10334	c.10125A>T	c.(10123-10125)atA>atT	p.I3375I		NM_005245.3	NP_005236.2	Q14517	FAT1_HUMAN	FAT atypical cadherin 1	3375	Cadherin 31. {ECO:0000255|PROSITE- ProRule:PRU00043}.				actin filament organization (GO:0007015)|anatomical structure morphogenesis (GO:0009653)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|cell-cell signaling (GO:0007267)|establishment or maintenance of cell polarity (GO:0007163)|homophilic cell adhesion (GO:0007156)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(38)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(33)|lung(88)|ovary(13)|pancreas(2)|prostate(16)|skin(2)|upper_aerodigestive_tract(11)|urinary_tract(4)	228						GGTTGCCATCTATAATTGAGT	0.478										HNSCC(5;0.00058)																											Colon(197;1040 2055 4143 4984 49344)											0													126	121	123					4																	187530418		1933	4136	6069	SO:0001819	synonymous_variant	2195			X87241	CCDS47177.1	4q35.2	2013-05-31	2013-05-31	2008-10-30	ENSG00000083857	ENSG00000083857		"Cadherins / Cadherin-related"	3595	protein-coding gene	gene with protein product	"cadherin-related family member 8"	600976	"FAT tumor suppressor (Drosophila) homolog", "FAT tumor suppressor homolog 1 (Drosophila)"	FAT		8586420	Standard	XM_005262834		Approved	CDHF7, CDHR8	uc003izf.3	Q14517	OTTHUMG00000160320	ENST00000441802.2:c.10125A>T	4.37:g.187530418T>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000441802.2	37	CCDS47177.1																																																																																				0.478	FAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360209.3	NM_005245		A	187530418	T	A	187530418	2	1	597	1	0	0	0	0	0	0	0	1	5696	1512	53	5		5	FAT1	4	187530418	Silent	SNP	T	TCGA-GL-6846-01A-11D-1961-08	21144834	187530418	3623858	24	35632										
AGGF1	55109	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	76344781	76344781	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	agaaaaggatatggaacataCtctccgaatccctgaagttg	9	8	1	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr5:76344781C>A	ENST00000312916.7	+	8	1716	c.1334C>A	c.(1333-1335)aCt>aAt	p.T445N		NM_018046.4	NP_060516.2	Q8N302	AGGF1_HUMAN	angiogenic factor with G patch and FHA domains 1	445	FHA. {ECO:0000255|PROSITE- ProRule:PRU00086}.				angiogenesis (GO:0001525)|cell adhesion (GO:0007155)|positive regulation of angiogenesis (GO:0045766)|positive regulation of endothelial cell proliferation (GO:0001938)|RNA processing (GO:0006396)|vasculogenesis (GO:0001570)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|perinuclear region of cytoplasm (GO:0048471)	nucleic acid binding (GO:0003676)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(2)|liver(2)|lung(4)|ovary(1)|prostate(1)|skin(2)	20		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;4.51e-51)|Epithelial(54;2.2e-45)|all cancers(79;6.68e-41)		ATGGAACATACTCTCCGAATC	0.294																																																0													97	106	103					5																	76344781		2203	4295	6498	SO:0001583	missense	55109			AK001145	CCDS4035.1	5q13.3	2013-10-11			ENSG00000164252	ENSG00000164252		"G patch domain containing"	24684	protein-coding gene	gene with protein product		608464				18564129, 17103452	Standard	NM_018046		Approved	VG5Q, HSU84971, FLJ10283, GPATC7, GPATCH7	uc003ket.3	Q8N302	OTTHUMG00000102132	ENST00000312916.7:c.1334C>A	5.37:g.76344781C>A	ENSP00000316109:p.Thr445Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O00581|Q53YS3|Q9BU84|Q9NW66	Missense_Mutation	SNP	ENST00000312916.7	37	CCDS4035.1	.	.	.	.	.	.	.	.	.	.	C	16.10	3.028459	0.54790	.	.	ENSG00000164252	ENST00000312916	T	0.39592	1.07	4.64	4.64	0.57946	Forkhead-associated (FHA) domain (4);SMAD/FHA domain (1);	0.105294	0.64402	D	0.000003	T	0.41627	0.1167	N	0.17723	0.515	0.80722	D	1	P	0.51653	0.947	P	0.52424	0.698	T	0.36286	-0.9754	10	0.44086	T	0.13	-4.4424	16.8258	0.85930	0.0:1.0:0.0:0.0	.	445	Q8N302	AGGF1_HUMAN	N	445	ENSP00000316109:T445N	ENSP00000316109:T445N	T	+	2	0	AGGF1	76380537	1.000000	0.71417	0.987000	0.45799	0.743000	0.42351	7.194000	0.77789	2.285000	0.76669	0.305000	0.20034	ACT		0.294	AGGF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219971.2	NM_018046		A	76344781	C	A	76344781	3	1	597	1	0	0	0	0	1	0	0	0	382	565	20	4	1364	4	AGGF1	5	76344781	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08		76344781	104570479	25	35633										
NME5	8382	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	137474383	137474383	+	Frame_Shift_Del	DEL	C	C	-													0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ctaagaataatatcttgtatCtcctcctctttgtcaacaat							TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr5:137474383delC	ENST00000265191.2	-	2	136	c.87delG	c.(85-87)gagfs	p.E29fs		NM_003551.2	NP_003542.1	P56597	NDK5_HUMAN	NME/NM23 family member 5	29					cilium assembly (GO:0042384)|CTP biosynthetic process (GO:0006241)|epithelial cilium movement (GO:0003351)|GTP biosynthetic process (GO:0006183)|negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902176)|nucleoside metabolic process (GO:0009116)|spermatid development (GO:0007286)|spermatogenesis (GO:0007283)|UTP biosynthetic process (GO:0006228)|ventricular system development (GO:0021591)	sperm flagellum (GO:0036126)	ATP binding (GO:0005524)|nucleoside diphosphate kinase activity (GO:0004550)			kidney(1)|large_intestine(1)|lung(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TATCTTGTATCTCCTCCTCTT	0.368																																																0													140	128	132					5																	137474383		2203	4300	6503	SO:0001589	frameshift_variant	8382			Y14992	CCDS4197.1	5q31.2	2012-05-18	2012-05-18		ENSG00000112981	ENSG00000112981			7853	protein-coding gene	gene with protein product	"radial spoke 23 homolog (Chlamydomonas)"	603575	"non-metastatic cells 5, protein expressed in (nucleoside-diphosphate kinase)"			9742940, 19852809	Standard	NM_003551		Approved	nm23-H5, RSPH23	uc003lce.3	P56597	OTTHUMG00000129207	ENST00000265191.2:c.87delG	5.37:g.137474383delC	ENSP00000265191:p.Glu29fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5G7	Frame_Shift_Del	DEL	ENST00000265191.2	37	CCDS4197.1																																																																																				0.368	NME5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251286.1	NM_003551		-	137474383	C	-	137474383	7	5	597	1	0	1	0	1	0	0	0	0	10501	912	32	0	571	0	NME5	5	137474383	Frame_Shift_Del	DEL	C	TCGA-GL-6846-01A-11D-1961-08	61129602	137474383	43440877	26	35634	272	2								
NME5	8382	hgsc.bcm.edu	37	chr5	137474385	137474386	+	Nonsense_Mutation	DNP	CC	CC	AG													0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	aagaataatatcttgtatctCctcctctttgtcaacaatat							TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr5:137474385_137474386CC>AG	ENST00000265191.2	-	2	133_134	c.84_85GG>CT	c.(82-87)gaGGag>gaCTag	p.28_29EE>D*		NM_003551.2	NP_003542.1	P56597	NDK5_HUMAN	NME/NM23 family member 5	28					cilium assembly (GO:0042384)|CTP biosynthetic process (GO:0006241)|epithelial cilium movement (GO:0003351)|GTP biosynthetic process (GO:0006183)|negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902176)|nucleoside metabolic process (GO:0009116)|spermatid development (GO:0007286)|spermatogenesis (GO:0007283)|UTP biosynthetic process (GO:0006228)|ventricular system development (GO:0021591)	sperm flagellum (GO:0036126)	ATP binding (GO:0005524)|nucleoside diphosphate kinase activity (GO:0004550)			kidney(1)|large_intestine(1)|lung(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TCTTGTATCTCCTCCTCTTTGT	0.371																																																0																																										SO:0001587	stop_gained	8382			Y14992	CCDS4197.1	5q31.2	2012-05-18	2012-05-18		ENSG00000112981	ENSG00000112981			7853	protein-coding gene	gene with protein product	"radial spoke 23 homolog (Chlamydomonas)"	603575	"non-metastatic cells 5, protein expressed in (nucleoside-diphosphate kinase)"			9742940, 19852809	Standard	NM_003551		Approved	nm23-H5, RSPH23	uc003lce.3	P56597	OTTHUMG00000129207	ENST00000265191.2:c.84_85delinsAG	5.37:g.137474385_137474386delinsAG	ENSP00000265191:p.E28_E29delinsD*	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5G7	Nonsense_Mutation	DNP	ENST00000265191.2	37	CCDS4197.1																																																																																				0.371	NME5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251286.1	NM_003551		AG	137474386	CC	AG	137474385	4	1	597	1	0	0	0	0	0	1	0	0	10501	864	30	4	573	4	NME5	5	137474385	Nonsense_Mutation	DNP	CC	TCGA-GL-6846-01A-11D-1961-08	2	137474385	43440875	27	35635	272	2								
PCDH12	51294	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	141336615	141336615	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gccttggtcagggtctgtggCggtcagttttatgagaagcg	16	7	3	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr5:141336615C>T	ENST00000231484.3	-	1	2012	c.802G>A	c.(802-804)Gcc>Acc	p.A268T	PCDH12_ENST00000512221.1_5'Flank	NM_016580.2	NP_057664.1	Q9NPG4	PCD12_HUMAN	protocadherin 12	268	Cadherin 3. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|glycogen metabolic process (GO:0005977)|homophilic cell adhesion (GO:0007156)|labyrinthine layer development (GO:0060711)|neuron recognition (GO:0008038)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)	p.A268T(1)		breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(13)|lung(14)|ovary(3)|prostate(2)|skin(1)	38		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGTCTGTGGCGGTCAGTTTT	0.527																																																1	Substitution - Missense(1)	large_intestine(1)											97	95	96					5																	141336615		2203	4300	6503	SO:0001583	missense	51294			AF231025	CCDS4269.1	5q31.3	2010-01-26			ENSG00000113555	ENSG00000113555		"Cadherins / Protocadherins : Non-clustered"	8657	protein-coding gene	gene with protein product		605622				10716726, 10380929	Standard	NM_016580		Approved	VE-cadherin-2	uc003llx.3	Q9NPG4	OTTHUMG00000129658	ENST00000231484.3:c.802G>A	5.37:g.141336615C>T	ENSP00000231484:p.Ala268Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXB6|Q96KB8|Q9H7Y6|Q9H8E0	Missense_Mutation	SNP	ENST00000231484.3	37	CCDS4269.1	.	.	.	.	.	.	.	.	.	.	C	26.3	4.727645	0.89390	.	.	ENSG00000113555	ENST00000231484	T	0.61392	0.11	5.32	5.32	0.75619	Cadherin (5);Cadherin-like (1);	0.000000	0.85682	D	0.000000	T	0.82190	0.4983	M	0.93283	3.4	0.58432	D	0.999999	D	0.89917	1.0	D	0.91635	0.999	D	0.86437	0.1764	10	0.87932	D	0	.	16.5409	0.84384	0.0:1.0:0.0:0.0	.	268	Q9NPG4	PCD12_HUMAN	T	268	ENSP00000231484:A268T	ENSP00000231484:A268T	A	-	1	0	PCDH12	141316799	1.000000	0.71417	0.991000	0.47740	0.932000	0.56968	7.651000	0.83577	2.767000	0.95098	0.655000	0.94253	GCC		0.527	PCDH12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251858.1	NM_016580		T	141336615	C	T	141336615	3	4	597	1	0	0	0	0	1	0	0	0	11517	768	27	1	2768	1	PCDH12	5	141336615	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08	3862230	141336615	39578645	28	35636										
AGXT2L2	85007	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	177642285	177642285	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ccagagcctcacctgacatcCccgacgatgggatgtttgat	10	13	1	3			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr5:177642285C>T	ENST00000308158.5	-	9	1308	c.1074G>A	c.(1072-1074)ggG>ggA	p.G358G	PHYKPL_ENST00000481811.1_5'UTR	NM_153373.2	NP_699204.1	Q8IUZ5	AT2L2_HUMAN	5-phosphohydroxy-L-lysine phospho-lyase	358						mitochondrion (GO:0005739)	lyase activity (GO:0016829)|pyridoxal phosphate binding (GO:0030170)|transaminase activity (GO:0008483)									L-Alanine(DB00160)	ACCTGACATCCCCGACGATGG	0.567																																																0													42	39	40					5																	177642285		2203	4300	6503	SO:0001819	synonymous_variant	85007			BC037567	CCDS4434.1	5q35.3	2013-06-12	2013-06-12	2013-06-12	ENSG00000175309	ENSG00000175309	4.2.3.134		28249	protein-coding gene	gene with protein product	"5-phosphonooxy-L-lysine phospho-lyase"	614683	"alanine-glyoxylate aminotransferase 2-like 2"	AGXT2L2		22241472	Standard	NM_153373		Approved	MGC15875	uc003miz.3	Q8IUZ5	OTTHUMG00000130892	ENST00000308158.5:c.1074G>A	5.37:g.177642285C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7P6|B3KN36|D3DWP9|Q8WYS6|Q96HW8	Silent	SNP	ENST00000308158.5	37	CCDS4434.1																																																																																				0.567	PHYKPL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253477.1	NM_032921		T	177642285	C	T	177642285	2	4	597	1	0	0	0	0	0	0	0	1	407	610	22	2		2	AGXT2L2	5	177642285	Silent	SNP	C	TCGA-GL-6846-01A-11D-1961-08	36305670	177642285	3272975	29	35637										
OR2Y1	134083	broad.mit.edu;bcgsc.ca	37	chr5	180166694	180166694	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gacgacagacagcagcatagCggtcaaaggccatcaccacc	10	14	2	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr5:180166694C>T	ENST00000307832.2	-	1	405	c.365G>A	c.(364-366)cGc>cAc	p.R122H		NM_001001657.1	NP_001001657.1	Q8NGV0	OR2Y1_HUMAN	olfactory receptor, family 2, subfamily Y, member 1	122						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(9)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	20	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)			AGCAGCATAGCGGTCAAAGGC	0.607																																																0													77	64	68					5																	180166694		2203	4300	6503	SO:0001583	missense	134083			AB065676	CCDS34323.1	5q35	2012-08-09			ENSG00000174339	ENSG00000174339		"GPCR / Class A : Olfactory receptors"	14837	protein-coding gene	gene with protein product							Standard	NM_001001657		Approved		uc003mmf.1	Q8NGV0	OTTHUMG00000162237	ENST00000307832.2:c.365G>A	5.37:g.180166694C>T	ENSP00000312403:p.Arg122His	Somatic		WXS	Illumina HiSeq	Phase_I	B9EIP1|Q6IFB1|Q96R16	Missense_Mutation	SNP	ENST00000307832.2	37	CCDS34323.1	.	.	.	.	.	.	.	.	.	.	c	12.25	1.880972	0.33255	.	.	ENSG00000174339	ENST00000307832	T	0.77489	-1.1	4.41	3.54	0.40534	GPCR, rhodopsin-like superfamily (1);	0.128292	0.36134	N	0.002767	T	0.78755	0.4333	M	0.91249	3.19	0.32000	N	0.603464	P	0.35551	0.509	B	0.28553	0.091	D	0.83720	0.0192	10	0.87932	D	0	.	10.5089	0.44849	0.0:0.903:0.0:0.097	.	122	Q8NGV0	OR2Y1_HUMAN	H	122	ENSP00000312403:R122H	ENSP00000312403:R122H	R	-	2	0	OR2Y1	180099300	1.000000	0.71417	0.997000	0.53966	0.025000	0.11179	3.930000	0.56522	1.197000	0.43143	0.511000	0.50034	CGC		0.607	OR2Y1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368059.2	XM_068682		T	180166694	C	T	180166694	3	4	597	1	0	0	0	0	1	0	0	0	11042	768	27	1	574	1	OR2Y1	5	180166694	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08	2524409	180166694	748566	30	35638										
MRS2	57380	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	24418322	24418322	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ttaattgaagtgaaaagagcAgtgctgggattgaccatgca	12	5	0	4			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr6:24418322A>T	ENST00000378386.3	+	8	940	c.847A>T	c.(847-849)Agt>Tgt	p.S283C	MRS2_ENST00000483634.1_3'UTR|MRS2_ENST00000378353.1_Missense_Mutation_p.S283C|MRS2_ENST00000274747.7_3'UTR|MRS2_ENST00000443868.2_Missense_Mutation_p.S286C|MRS2_ENST00000543597.1_5'UTR|MRS2_ENST00000535061.1_Missense_Mutation_p.S233C	NM_020662.2	NP_065713.1	Q9HD23	MRS2_HUMAN	MRS2 magnesium transporter	283						integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)	magnesium ion transmembrane transporter activity (GO:0015095)			breast(1)|endometrium(2)|large_intestine(2)|lung(5)|skin(1)|stomach(1)	12						TGAAAAGAGCAGTGCTGGGAT	0.388																																																0													121	112	115					6																	24418322		2203	4300	6503	SO:0001583	missense	57380			AF288288	CCDS4552.1, CCDS69055.1, CCDS69056.1, CCDS75408.1	6p22.3-p22.1	2013-05-03	2013-05-03	2008-01-18	ENSG00000124532	ENSG00000124532			13785	protein-coding gene	gene with protein product			"MRS2-like, magnesium homeostasis factor (S. cerevisiae)", "MRS2 magnesium homeostasis factor homolog (S. cerevisiae)"	MRS2L			Standard	XM_005249242		Approved		uc003neb.3	Q9HD23	OTTHUMG00000014355	ENST00000378386.3:c.847A>T	6.37:g.24418322A>T	ENSP00000367637:p.Ser283Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4U3|B3KNN2|B4DQL2|Q5T3Y1|Q6NTG4|Q96KF8|Q9BVP1	Missense_Mutation	SNP	ENST00000378386.3	37	CCDS4552.1	.	.	.	.	.	.	.	.	.	.	A	17.44	3.390435	0.62066	.	.	ENSG00000124532	ENST00000535061;ENST00000378386;ENST00000378353;ENST00000443868	T;T;T;T	0.50548	1.34;1.32;0.74;1.31	6.06	4.92	0.64577	.	0.084750	0.85682	D	0.000000	T	0.52853	0.1760	M	0.63843	1.955	0.80722	D	1	D;D;P;D	0.89917	1.0;1.0;0.481;0.997	D;D;B;P	0.68353	0.934;0.957;0.164;0.846	T	0.57124	-0.7865	10	0.56958	D	0.05	-22.8995	9.6962	0.40158	0.8692:0.0:0.1308:0.0	.	233;286;283;283	F5GWH3;B4DQL2;Q9HD23;Q9HD23-2	.;.;MRS2_HUMAN;.	C	233;283;283;286	ENSP00000441839:S233C;ENSP00000367637:S283C;ENSP00000367604:S283C;ENSP00000399585:S286C	ENSP00000367604:S283C	S	+	1	0	MRS2	24526301	1.000000	0.71417	0.998000	0.56505	0.937000	0.57800	3.503000	0.53340	2.326000	0.78906	0.472000	0.43445	AGT		0.388	MRS2-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040002.1			T	24418322	A	T	24418322	3	4	597	1	0	0	0	0	1	0	0	0	9858	188	7	5	877	5	MRS2	6	24418322	Missense_Mutation	SNP	A	TCGA-GL-6846-01A-11D-1961-08		24418322	146696745	31	35639										
KCTD20	222658	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	36454734	36454734	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tcatctataattatgtacaaCgccccttcatccagatgtca	4	12	4	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr6:36454734C>T	ENST00000373731.2	+	8	1433	c.1042C>T	c.(1042-1044)Cgc>Tgc	p.R348C	KCTD20_ENST00000474988.1_3'UTR|KCTD20_ENST00000449081.2_Missense_Mutation_p.R182C|KCTD20_ENST00000536244.1_Missense_Mutation_p.R203C|KCTD20_ENST00000544295.1_Missense_Mutation_p.R102C	NM_173562.3	NP_775833.2	Q7Z5Y7	KCD20_HUMAN	potassium channel tetramerization domain containing 20	348					protein homooligomerization (GO:0051260)					central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(5)|ovary(2)|skin(1)	15						TTATGTACAACGCCCCTTCAT	0.463																																																0													90	96	94					6																	36454734		2203	4300	6503	SO:0001583	missense	222658			BC023525	CCDS4821.1, CCDS69096.1, CCDS69097.1	6p21.31	2013-06-20	2013-06-20	2006-06-26	ENSG00000112078	ENSG00000112078			21052	protein-coding gene	gene with protein product		615932	"chromosome 6 open reading frame 69", "potassium channel tetramerisation domain containing 20"	C6orf69			Standard	NM_001286580		Approved	dJ108K11.3, MGC14254	uc003ome.3	Q7Z5Y7	OTTHUMG00000014597	ENST00000373731.2:c.1042C>T	6.37:g.36454734C>T	ENSP00000362836:p.Arg348Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZD3|B4E2Q3|F5H3T3|Q5W105|Q69YQ7|Q8IZ55	Missense_Mutation	SNP	ENST00000373731.2	37	CCDS4821.1	.	.	.	.	.	.	.	.	.	.	C	26.1	4.701883	0.88924	.	.	ENSG00000112078	ENST00000373731;ENST00000544295;ENST00000449081;ENST00000536244	D;D;D;D	0.81996	-1.56;-1.56;-1.56;-1.56	6.03	6.03	0.97812	.	0.061169	0.64402	N	0.000003	D	0.87148	0.6105	L	0.53561	1.675	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.996	D	0.87043	0.2142	10	0.56958	D	0.05	-18.2215	15.2928	0.73879	0.14:0.86:0.0:0.0	.	182;348	Q7Z5Y7-2;Q7Z5Y7	.;KCD20_HUMAN	C	348;102;182;203	ENSP00000362836:R348C;ENSP00000440150:R102C;ENSP00000412205:R182C;ENSP00000439118:R203C	ENSP00000362836:R348C	R	+	1	0	KCTD20	36562712	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	1.971000	0.40530	2.861000	0.98227	0.655000	0.94253	CGC		0.463	KCTD20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040345.2	NM_173562		T	36454734	C	T	36454734	3	4	597	1	0	0	0	0	1	0	0	0	8115	536	19	1	1068	1	KCTD20	6	36454734	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08	12036412	36454734	134660333	32	35640										
ULBP1	80329	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	150289835	150289835	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	aaggcctggtggatgaaaggCcttttcttcactatgactgt	11	8	2	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr6:150289835C>A	ENST00000229708.3	+	2	221	c.178C>A	c.(178-180)Cct>Act	p.P60T		NM_025218.2	NP_079494.1	Q9BZM6	N2DL1_HUMAN	UL16 binding protein 1	60	MHC class I alpha-1 like.				antigen processing and presentation (GO:0019882)|natural killer cell activation (GO:0030101)|natural killer cell mediated cytotoxicity (GO:0042267)|regulation of immune response (GO:0050776)	anchored component of plasma membrane (GO:0046658)|endoplasmic reticulum (GO:0005783)|plasma membrane (GO:0005886)	natural killer cell lectin-like receptor binding (GO:0046703)			large_intestine(3)|lung(5)|pancreas(1)|skin(1)	10		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.14e-11)		GGATGAAAGGCCTTTTCTTCA	0.453																																																0													133	133	133					6																	150289835		2203	4300	6503	SO:0001583	missense	80329			AF304377	CCDS5223.1	6q25	2003-04-29			ENSG00000111981	ENSG00000111981			14893	protein-coding gene	gene with protein product		605697				11239445, 11827464	Standard	XM_005267151		Approved	RAET1I	uc003qnp.3	Q9BZM6	OTTHUMG00000015810	ENST00000229708.3:c.178C>A	6.37:g.150289835C>A	ENSP00000229708:p.Pro60Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VY81|Q8IZW3|Q8IZX6	Missense_Mutation	SNP	ENST00000229708.3	37	CCDS5223.1	.	.	.	.	.	.	.	.	.	.	c	0.006	-2.109641	0.00353	.	.	ENSG00000111981	ENST00000367345;ENST00000229708	T;T	0.00682	5.86;5.86	2.2	-4.39	0.03611	MHC class I, alpha chain, alpha1/alpha2 (1);MHC classes I/II-like antigen recognition protein (1);MHC class I-like antigen recognition (1);	.	.	.	.	T	0.00144	0.0004	N	0.11927	0.2	0.09310	N	1	B	0.10296	0.003	B	0.17098	0.017	T	0.45101	-0.9284	9	0.72032	D	0.01	.	1.2925	0.02063	0.2296:0.3696:0.2522:0.1487	.	60	Q9BZM6	N2DL1_HUMAN	T	60	ENSP00000356314:P60T;ENSP00000229708:P60T	ENSP00000229708:P60T	P	+	1	0	ULBP1	150331528	0.000000	0.05858	0.000000	0.03702	0.026000	0.11368	-4.865000	0.00176	-2.597000	0.00453	-0.834000	0.03071	CCT		0.453	ULBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042677.2			A	150289835	C	A	150289835	3	1	597	1	0	0	0	0	1	0	0	0	16984	739	26	4	184	4	ULBP1	6	150289835	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08	113835101	150289835	20825232	33	35641										
MLLT4	4301	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	168344092	168344092	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	atttgcctaggatggacgtcTagctgcaggtgatcagctcc	12	10	2	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr6:168344092T>A	ENST00000447894.2	+	24	3155	c.3155T>A	c.(3154-3156)cTa>cAa	p.L1052Q	MLLT4_ENST00000392112.1_Missense_Mutation_p.L1035Q|MLLT4_ENST00000392108.3_Missense_Mutation_p.L1052Q|MLLT4_ENST00000507679.1_3'UTR|MLLT4_ENST00000344191.4_Missense_Mutation_p.L1052Q|MLLT4_ENST00000400822.3_Missense_Mutation_p.L1051Q|MLLT4_ENST00000366806.2_Missense_Mutation_p.L1052Q|MLLT4_ENST00000351017.4_Missense_Mutation_p.L1059Q			P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 4	1052	PDZ. {ECO:0000255|PROSITE- ProRule:PRU00143}.				adherens junction organization (GO:0034332)|cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|cell-cell signaling (GO:0007267)|signal transduction (GO:0007165)	apical part of cell (GO:0045177)|cell junction (GO:0030054)|cell-cell adherens junction (GO:0005913)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	protein C-terminus binding (GO:0008022)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(13)|large_intestine(10)|lung(19)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	65		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)		GATGGACGTCTAGCTGCAGGT	0.458			T	MLL	AL																																		Dom	yes		6	6q27	4301	"myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 4 (AF6)"		L	0													244	221	229					6																	168344092		2203	4300	6503	SO:0001583	missense	4301			AB011399	CCDS47517.1, CCDS75553.1	6q27	2008-02-05	2001-11-28		ENSG00000130396	ENSG00000130396			7137	protein-coding gene	gene with protein product		159559	"myeloid/lymphoid or mixed-lineage leukemia (trithorax (Drosophila) homolog); translocated to, 4"			8242616	Standard	NM_001040000		Approved	AF-6, AF6	uc021zij.1	P55196	OTTHUMG00000016031	ENST00000447894.2:c.3155T>A	6.37:g.168344092T>A	ENSP00000404595:p.Leu1052Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O75087|O75088|O75089|Q59FP0|Q5TIG6|Q5TIG7|Q9NSN7|Q9NU92	Missense_Mutation	SNP	ENST00000447894.2	37		.	.	.	.	.	.	.	.	.	.	T	23.7	4.441746	0.83993	.	.	ENSG00000130396	ENST00000344191;ENST00000351017;ENST00000392108;ENST00000366806;ENST00000392112;ENST00000341575;ENST00000400822;ENST00000447894	T;T;T;T;T;T;T	0.50548	0.74;0.74;0.74;0.74;0.74;0.74;0.74	5.18	5.18	0.71444	PDZ/DHR/GLGF (4);	0.000000	0.64402	D	0.000010	T	0.76751	0.4031	H	0.97983	4.12	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	0.999;1.0;0.998;0.997	D	0.86288	0.1672	10	0.87932	D	0	-11.2076	15.0548	0.71904	0.0:0.0:0.0:1.0	.	1052;1051;1052;1036	P55196;P55196-5;P55196-6;P55196-2	AFAD_HUMAN;.;.;.	Q	1052;1059;1052;1052;1035;1052;1051;1052	ENSP00000341118:L1052Q;ENSP00000252692:L1059Q;ENSP00000375956:L1052Q;ENSP00000355771:L1052Q;ENSP00000375960:L1035Q;ENSP00000383623:L1051Q;ENSP00000404595:L1052Q	ENSP00000345834:L1052Q	L	+	2	0	MLLT4	168086941	1.000000	0.71417	0.015000	0.15790	0.985000	0.73830	7.440000	0.80464	1.954000	0.56735	0.528000	0.53228	CTA		0.458	MLLT4-013	PUTATIVE	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000372077.1	NM_005936		A	168344092	T	A	168344092	3	1	597	1	0	0	0	0	1	0	0	0	9636	1522	53	5	3249	5	MLLT4	6	168344092	Missense_Mutation	SNP	T	TCGA-GL-6846-01A-11D-1961-08	18054257	168344092	2770975	34	35642										
TNRC18	84629	hgsc.bcm.edu	37	chr7	5401235	5401235	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ccagccttactttccgctacTgtggccgctcttccctctct	6	18	2	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr7:5401235T>G	ENST00000430969.1	-	14	4999	c.4651A>C	c.(4651-4653)Agt>Cgt	p.S1551R	TNRC18_ENST00000399537.4_Missense_Mutation_p.S1551R	NM_001080495.2	NP_001073964.2	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	1551							chromatin binding (GO:0003682)			central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(8)	11		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		TTTCCGCTACTGTGGCCGCTC	0.716																																																0													13	15	14					7																	5401235		1511	3484	4995	SO:0001583	missense	84629			U80753	CCDS47534.1	7p22.1	2012-04-17			ENSG00000182095	ENSG00000182095		"Trinucleotide (CAG) repeat containing"	11962	protein-coding gene	gene with protein product						9225980	Standard	NM_001080495		Approved	CAGL79, TNRC18A, KIAA1856	uc003soi.4	O15417	OTTHUMG00000151831	ENST00000430969.1:c.4651A>C	7.37:g.5401235T>G	ENSP00000395538:p.Ser1551Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8MX41|Q96JH1|Q96K91	Missense_Mutation	SNP	ENST00000430969.1	37	CCDS47534.1	.	.	.	.	.	.	.	.	.	.	T	12.54	1.968807	0.34754	.	.	ENSG00000182095	ENST00000399537;ENST00000430969;ENST00000399544	T;T	0.12361	2.69;2.69	4.84	2.36	0.29203	.	0.381607	0.19384	N	0.115570	T	0.07908	0.0198	L	0.27053	0.805	0.29152	N	0.878318	B	0.02656	0.0	B	0.01281	0.0	T	0.39603	-0.9606	10	0.10902	T	0.67	.	7.6555	0.28373	0.0:0.0756:0.1472:0.7771	.	1551	O15417	TNC18_HUMAN	R	1551;1551;606	ENSP00000382452:S1551R;ENSP00000395538:S1551R	ENSP00000382452:S1551R	S	-	1	0	TNRC18	5367761	1.000000	0.71417	0.998000	0.56505	0.991000	0.79684	1.920000	0.40025	0.188000	0.20168	0.459000	0.35465	AGT		0.716	TNRC18-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding				G	5401235	T	G	5401235	3	3	597	1	0	0	0	0	1	0	0	0	16351	1580	55	5	4323	5	TNRC18	7	5401235	Missense_Mutation	SNP	T	TCGA-GL-6846-01A-11D-1961-08		5401235	153737428	35	35643										
ACTB	60	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	5568236	5568236	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gtagatgggcacagtgtgggTgaccccgtcaccggagtcca	15	11	1	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr7:5568236T>C	ENST00000331789.5	-	4	669	c.478A>G	c.(478-480)Acc>Gcc	p.T160A	ACTB_ENST00000464611.1_5'Flank|AC006483.1_ENST00000579427.1_RNA	NM_001101.3	NP_001092.1	P63261	ACTG_HUMAN	actin, beta	160			T -> I (in dbSNP:rs11549206).		adherens junction organization (GO:0034332)|axon guidance (GO:0007411)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|cellular component movement (GO:0006928)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|membrane organization (GO:0061024)|platelet aggregation (GO:0070527)|retina homeostasis (GO:0001895)|sarcomere organization (GO:0045214)	blood microparticle (GO:0072562)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|filamentous actin (GO:0031941)|membrane (GO:0016020)|myofibril (GO:0030016)|nucleus (GO:0005634)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|central_nervous_system(1)|large_intestine(2)|lung(2)|prostate(2)	8		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		ACAGTGTGGGTGACCCCGTCA	0.607																																																0													76	76	76					7																	5568236		2203	4300	6503	SO:0001583	missense	60			M28424	CCDS5341.1	7p22	2014-09-17			ENSG00000075624	ENSG00000075624			132	protein-coding gene	gene with protein product		102630				1505215	Standard	NM_001101		Approved		uc003sot.4	P60709	OTTHUMG00000023268	ENST00000331789.5:c.478A>G	7.37:g.5568236T>C	ENSP00000349960:p.Thr160Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7C2|P02571|P14104|P99022|Q5U032|Q96E67	Missense_Mutation	SNP	ENST00000331789.5	37	CCDS5341.1	.	.	.	.	.	.	.	.	.	.	T	14.69	2.609394	0.46527	.	.	ENSG00000075624	ENST00000331789;ENST00000400179;ENST00000320713;ENST00000432588	D;D	0.98296	-4.85;-3.8	5.31	5.31	0.75309	.	0.000000	0.64402	D	0.000011	D	0.98040	0.9354	M	0.93016	3.37	0.42954	D	0.994384	B	0.02656	0.0	B	0.11329	0.006	D	0.97321	0.9944	10	0.87932	D	0	.	13.2628	0.60115	0.0:0.0:0.0:1.0	.	160	P60709	ACTB_HUMAN	A	160;132;79;160	ENSP00000349960:T160A;ENSP00000407473:T160A	ENSP00000440549:T79A	T	-	1	0	ACTB	5534762	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	5.862000	0.69560	2.022000	0.59522	0.529000	0.55759	ACC		0.607	ACTB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059589.4	NM_001101		C	5568236	T	C	5568236	3	2	597	1	0	0	0	0	1	0	0	0	193	1696	59	3	661	3	ACTB	7	5568236	Missense_Mutation	SNP	T	TCGA-GL-6846-01A-11D-1961-08	167001	5568236	153570427	36	35644										
C7orf26	79034	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	6639834	6639834	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ggcgcctggggctgatcctcTtcgaccacatggtcccgctg	13	15	1	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr7:6639834T>G	ENST00000344417.5	+	4	1222	c.955T>G	c.(955-957)Ttc>Gtc	p.F319V	C7orf26_ENST00000472693.1_3'UTR|C7orf26_ENST00000359073.5_Missense_Mutation_p.F222V	NM_024067.2	NP_076972.2	Q96N11	CG026_HUMAN	chromosome 7 open reading frame 26	319										endometrium(2)|large_intestine(2)|lung(5)|ovary(1)|skin(1)	11		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)		GCTGATCCTCTTCGACCACAT	0.582																																																0													59	52	54					7																	6639834		2203	4300	6503	SO:0001583	missense	79034			BC005121	CCDS5353.1	7p22.1	2011-11-24			ENSG00000146576	ENSG00000146576			21702	protein-coding gene	gene with protein product							Standard	NM_024067		Approved	MGC2718	uc003sqo.1	Q96N11	OTTHUMG00000125517	ENST00000344417.5:c.955T>G	7.37:g.6639834T>G	ENSP00000340220:p.Phe319Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BQ43	Missense_Mutation	SNP	ENST00000344417.5	37	CCDS5353.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	10.95|10.95	1.496091|1.496091	0.26774|0.26774	.|.	.|.	ENSG00000146576|ENSG00000146576	ENST00000344417;ENST00000359073|ENST00000445375	T;T|T	0.39997|0.40756	1.05;1.05|1.02	5.2|5.2	5.2|5.2	0.72013|0.72013	.|.	0.213127|.	0.53938|.	D|.	0.000054|.	T|T	0.30103|0.30103	0.0754|0.0754	N|N	0.19112|0.19112	0.55|0.55	0.29914|0.29914	N|N	0.823337|0.823337	B;B|.	0.17038|.	0.02;0.02|.	B;B|.	0.14023|.	0.004;0.01|.	T|T	0.12344|0.12344	-1.0551|-1.0551	10|7	0.14656|0.09084	T|T	0.56|0.74	-26.1927|-26.1927	13.6493|13.6493	0.62301|0.62301	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	222;319|.	Q96N11-2;Q96N11|.	.;CG026_HUMAN|.	V|R	319;222|56	ENSP00000340220:F319V;ENSP00000351974:F222V|ENSP00000390166:L56R	ENSP00000340220:F319V|ENSP00000390166:L56R	F|L	+|+	1|2	0|0	C7orf26|C7orf26	6606359|6606359	1.000000|1.000000	0.71417|0.71417	0.466000|0.466000	0.27168|0.27168	0.709000|0.709000	0.40893|0.40893	3.987000|3.987000	0.56944|0.56944	2.268000|2.268000	0.75426|0.75426	0.454000|0.454000	0.30748|0.30748	TTC|CTT		0.582	C7orf26-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000246844.2	NM_024067		G	6639834	T	G	6639834	3	3	597	1	0	0	0	0	1	0	0	0	2383	1609	56	5	969	5	C7orf26	7	6639834	Missense_Mutation	SNP	T	TCGA-GL-6846-01A-11D-1961-08	1071598	6639834	152498829	37	35645										
ASB4	51666	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	95125264	95125264	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	attgtgttaagatcctctgtGatcgtggggcaaagctcaat	11	7	2	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr7:95125264G>A	ENST00000325885.5	+	2	453	c.382G>A	c.(382-384)Gat>Aat	p.D128N	ASB4_ENST00000428113.1_Missense_Mutation_p.D128N|ASB4_ENST00000257621.4_3'UTR	NM_016116.2	NP_057200.1	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box containing 4	128					intracellular signal transduction (GO:0035556)|positive regulation of vasculogenesis (GO:2001214)|protein autoubiquitination (GO:0051865)	Cul2-RING ubiquitin ligase complex (GO:0031462)|Cul5-RING ubiquitin ligase complex (GO:0031466)	ubiquitin-protein transferase activity (GO:0004842)			central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(8)|pancreas(1)|prostate(1)|skin(2)	20	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)			GATCCTCTGTGATCGTGGGGC	0.458																																																0													210	156	175					7																	95125264		2203	4300	6503	SO:0001583	missense	51666			AF156779	CCDS5641.1, CCDS5642.1	7q21-q22	2013-01-10	2011-01-25		ENSG00000005981	ENSG00000005981		"Ankyrin repeat domain containing"	16009	protein-coding gene	gene with protein product		605761	"ankyrin repeat and SOCS box-containing 4"				Standard	NM_145872		Approved	ASB-4	uc011kij.2	Q9Y574	OTTHUMG00000153960	ENST00000325885.5:c.382G>A	7.37:g.95125264G>A	ENSP00000321388:p.Asp128Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1H6|O14586|Q14D68|Q8TBT2	Missense_Mutation	SNP	ENST00000325885.5	37	CCDS5641.1	.	.	.	.	.	.	.	.	.	.	G	11.62	1.692526	0.30052	.	.	ENSG00000005981	ENST00000325885;ENST00000428113	T;T	0.65364	-0.15;-0.15	5.35	5.35	0.76521	Ankyrin repeat-containing domain (3);	0.260422	0.44688	D	0.000432	T	0.48822	0.1521	L	0.38531	1.155	0.33932	D	0.642157	B;B	0.15141	0.009;0.012	B;B	0.15052	0.012;0.011	T	0.56062	-0.8041	10	0.45353	T	0.12	-7.733	7.2877	0.26348	0.2046:0.0:0.7954:0.0	.	128;128	Q9Y574;Q14D68	ASB4_HUMAN;.	N	128	ENSP00000321388:D128N;ENSP00000397070:D128N	ENSP00000321388:D128N	D	+	1	0	ASB4	94963200	1.000000	0.71417	1.000000	0.80357	0.292000	0.27327	3.865000	0.56033	2.680000	0.91292	0.655000	0.94253	GAT		0.458	ASB4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333225.2	NM_016116		A	95125264	G	A	95125264	3	1	597	1	0	0	0	0	1	0	0	0	1025	1290	45	2	388	2	ASB4	7	95125264	Missense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08	88485430	95125264	64013399	38	35646										
NRCAM	4897	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	107808822	107808822	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gcagctgcagcagtaagattGctgatcctgggatttactgc	12	9	0	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr7:107808822G>A	ENST00000425651.2	-	26	3212	c.3213C>T	c.(3211-3213)agC>agT	p.S1071S	NRCAM_ENST00000379022.4_Silent_p.S1071S|NRCAM_ENST00000413765.2_Intron|NRCAM_ENST00000351718.4_Intron|NRCAM_ENST00000379028.3_Silent_p.S1071S|NRCAM_ENST00000379024.4_Intron	NM_001037132.2	NP_001032209.1	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule	1071	Fibronectin type-III 5. {ECO:0000255|PROSITE-ProRule:PRU00316}.				angiogenesis (GO:0001525)|axon guidance (GO:0007411)|axonal fasciculation (GO:0007413)|axonogenesis (GO:0007409)|central nervous system development (GO:0007417)|clustering of voltage-gated sodium channels (GO:0045162)|heterotypic cell-cell adhesion (GO:0034113)|neuron migration (GO:0001764)|neuronal action potential propagation (GO:0019227)|positive regulation of neuron differentiation (GO:0045666)|protein localization (GO:0008104)|regulation of axon extension (GO:0030516)|retinal ganglion cell axon guidance (GO:0031290)|single organismal cell-cell adhesion (GO:0016337)|synapse assembly (GO:0007416)	axon initial segment (GO:0043194)|external side of plasma membrane (GO:0009897)|integral component of plasma membrane (GO:0005887)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)|synapse (GO:0045202)	ankyrin binding (GO:0030506)			breast(4)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(8)|liver(1)|lung(36)|ovary(3)|prostate(2)|skin(3)|upper_aerodigestive_tract(4)	65						CAGTAAGATTGCTGATCCTGG	0.363																																																0													71	68	69					7																	107808822		1891	4119	6010	SO:0001819	synonymous_variant	4897				CCDS5751.1, CCDS47686.1, CCDS55153.1, CCDS75652.1	7q31	2013-02-11			ENSG00000091129	ENSG00000091129		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	7994	protein-coding gene	gene with protein product	"NgCAM-related cell adhesion molecule"	601581				8812479	Standard	NM_001037132		Approved	KIAA0343, Bravo	uc022aka.1	Q92823	OTTHUMG00000154973	ENST00000425651.2:c.3213C>T	7.37:g.107808822G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D0S3|E9PDA4|O15051|O15179|Q14BM2|Q9UHI3|Q9UHI4	Silent	SNP	ENST00000425651.2	37	CCDS47686.1	.	.	.	.	.	.	.	.	.	.	G	9.798	1.179809	0.21787	.	.	ENSG00000091129	ENST00000445634	.	.	.	5.75	1.63	0.23807	.	.	.	.	.	T	0.55433	0.1920	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.49624	-0.8920	4	.	.	.	.	7.8556	0.29480	0.0:0.3328:0.2964:0.3708	.	.	.	.	V	21	.	.	A	-	2	0	NRCAM	107596058	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	1.272000	0.33109	0.762000	0.33152	0.650000	0.86243	GCA		0.363	NRCAM-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337942.2	NM_001037132		A	107808822	G	A	107808822	2	1	597	1	0	0	0	0	0	0	0	1	10651	1310	46	2		2	NRCAM	7	107808822	Silent	SNP	G	TCGA-GL-6846-01A-11D-1961-08	12683558	107808822	51329841	39	35647										
CHD7	55636	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	61654762	61654762	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	cactcggtgcagcagttccaTcaccacccctctactgctct	6	18	3	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr8:61654762T>C	ENST00000423902.2	+	2	1250	c.771T>C	c.(769-771)caT>caC	p.H257H	CHD7_ENST00000524602.1_Silent_p.H257H|CHD7_ENST00000525508.1_Silent_p.H257H	NM_017780.3	NP_060250.2	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	257					adult heart development (GO:0007512)|adult walking behavior (GO:0007628)|artery morphogenesis (GO:0048844)|blood circulation (GO:0008015)|central nervous system development (GO:0007417)|chromatin modification (GO:0016568)|cognition (GO:0050890)|cranial nerve development (GO:0021545)|embryonic hindlimb morphogenesis (GO:0035116)|epithelium development (GO:0060429)|face development (GO:0060324)|female genitalia development (GO:0030540)|genitalia development (GO:0048806)|heart morphogenesis (GO:0003007)|in utero embryonic development (GO:0001701)|inner ear morphogenesis (GO:0042472)|limb development (GO:0060173)|nose development (GO:0043584)|olfactory behavior (GO:0042048)|olfactory bulb development (GO:0021772)|olfactory nerve development (GO:0021553)|palate development (GO:0060021)|positive regulation of multicellular organism growth (GO:0040018)|regulation of growth hormone secretion (GO:0060123)|regulation of neurogenesis (GO:0050767)|regulation of transcription, DNA-templated (GO:0006355)|retina development in camera-type eye (GO:0060041)|rRNA processing (GO:0006364)|semicircular canal morphogenesis (GO:0048752)|sensory perception of sound (GO:0007605)|skeletal system development (GO:0001501)|T cell differentiation (GO:0030217)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|helicase activity (GO:0004386)			NS(1)|breast(6)|central_nervous_system(8)|cervix(2)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(16)|lung(49)|ovary(4)|pancreas(2)|prostate(4)|skin(2)|urinary_tract(3)	123		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			AGCAGTTCCATCACCACCCCT	0.582																																																0													119	122	121					8																	61654762		2099	4221	6320	SO:0001819	synonymous_variant	55636			AB037837	CCDS47865.1	8q12.2	2014-09-17				ENSG00000171316			20626	protein-coding gene	gene with protein product		608892	"CHARGE association"	CRG		15300250, 18834967	Standard	NM_017780		Approved	KIAA1416, FLJ20357, FLJ20361	uc003xue.3	Q9P2D1		ENST00000423902.2:c.771T>C	8.37:g.61654762T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D0VBA5|E9PNZ2|Q05DI5|Q2TAN4|Q66K35|Q7Z6C0|Q7Z7Q2|Q9NXA0|Q9NXA3	Silent	SNP	ENST00000423902.2	37	CCDS47865.1																																																																																				0.582	CHD7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383468.2	XM_098762		C	61654762	T	C	61654762	2	2	597	1	0	0	0	0	0	0	0	1	3332	1432	50	3		3	CHD7	8	61654762	Silent	SNP	T	TCGA-GL-6846-01A-11D-1961-08		61654762	84709260	40	35648										
PTPRD	5789	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	8460558	8460558	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	cggggtcggagtaagggctgGttgcatacatcttctgagga	16	7	2	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr9:8460558G>T	ENST00000381196.4	-	30	4271	c.3728C>A	c.(3727-3729)aCc>aAc	p.T1243N	PTPRD_ENST00000397617.3_Missense_Mutation_p.T822N|PTPRD_ENST00000540109.1_Missense_Mutation_p.T1243N|PTPRD_ENST00000356435.5_Missense_Mutation_p.T1243N|PTPRD_ENST00000397606.3_Missense_Mutation_p.T822N|PTPRD_ENST00000537002.1_Missense_Mutation_p.T829N|PTPRD_ENST00000360074.4_Missense_Mutation_p.T1230N|PTPRD_ENST00000358503.5_Missense_Mutation_p.T1221N|PTPRD_ENST00000355233.5_Missense_Mutation_p.T832N|PTPRD_ENST00000486161.1_Missense_Mutation_p.T832N|PTPRD_ENST00000397611.3_Missense_Mutation_p.T829N	NM_002839.3	NP_002830.1	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1243					heterophilic cell-cell adhesion (GO:0007157)|neuron differentiation (GO:0030182)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphate-containing compound metabolic process (GO:0006796)|positive regulation of dendrite morphogenesis (GO:0050775)|presynaptic membrane assembly (GO:0097105)|protein dephosphorylation (GO:0006470)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	cell adhesion molecule binding (GO:0050839)|receptor binding (GO:0005102)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(1)|breast(7)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(22)|liver(1)|lung(83)|ovary(4)|pancreas(1)|prostate(7)|skin(19)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	168		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)		GTAAGGGCTGGTTGCATACAT	0.433										TSP Lung(15;0.13)																																						0													107	100	102					9																	8460558		2203	4300	6503	SO:0001583	missense	5789			X54133	CCDS6472.1, CCDS43786.1, CCDS6472.2, CCDS55288.1, CCDS55289.1, CCDS55290.1, CCDS75813.1	9p24.1-p23	2013-02-11			ENSG00000153707	ENSG00000153707		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	9668	protein-coding gene	gene with protein product		601598				7896816, 8355697	Standard	NM_002839		Approved	PTPD, HPTP	uc003zkk.3	P23468	OTTHUMG00000021005	ENST00000381196.4:c.3728C>A	9.37:g.8460558G>T	ENSP00000370593:p.Thr1243Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALA0|F5GWT7|Q3KPJ0|Q3KPJ1|Q3KPJ2	Missense_Mutation	SNP	ENST00000381196.4	37	CCDS43786.1	.	.	.	.	.	.	.	.	.	.	G	16.64	3.179248	0.57800	.	.	ENSG00000153707	ENST00000381196;ENST00000356435;ENST00000360074;ENST00000358503;ENST00000355233;ENST00000397617;ENST00000397611;ENST00000537002;ENST00000346816;ENST00000540109;ENST00000486161;ENST00000397606	T;T;T;T;T;T;T;T;T;T;T	0.53640	0.61;0.61;0.61;0.61;0.61;0.61;0.61;0.61;0.61;0.61;0.61	5.89	4.04	0.47022	.	0.255483	0.44483	D	0.000442	T	0.52289	0.1725	L	0.54323	1.7	0.43879	D	0.996492	B;B;B;B;B;P;B;D;B	0.56521	0.244;0.38;0.38;0.38;0.159;0.514;0.213;0.976;0.187	B;B;B;B;B;B;B;P;B	0.53146	0.026;0.137;0.137;0.137;0.358;0.267;0.093;0.719;0.093	T	0.48340	-0.9044	9	.	.	.	.	10.7731	0.46334	0.0681:0.0:0.7999:0.1319	.	822;827;832;832;829;829;1230;1243;1243	Q3KPJ2;Q3KPI9;Q3KPJ0;Q3KPJ1;F5GWT7;F5GWY7;G3XAE2;Q2HXI4;P23468	.;.;.;.;.;.;.;.;PTPRD_HUMAN	N	1243;1243;1230;1221;832;822;829;829;714;1243;832;822	ENSP00000370593:T1243N;ENSP00000348812:T1243N;ENSP00000353187:T1230N;ENSP00000351293:T1221N;ENSP00000347373:T832N;ENSP00000380741:T822N;ENSP00000380735:T829N;ENSP00000440515:T829N;ENSP00000438164:T1243N;ENSP00000417093:T832N;ENSP00000380731:T822N	.	T	-	2	0	PTPRD	8450558	1.000000	0.71417	0.999000	0.59377	0.612000	0.37316	9.444000	0.97578	0.812000	0.34326	-0.259000	0.10710	ACC		0.433	PTPRD-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055395.3			T	8460558	G	T	8460558	3	4	597	1	0	0	0	0	1	0	0	0	12812	1261	44	4	2131	4	PTPRD	9	8460558	Missense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08		8460558	132752873	41	35649										
BNC2	54796	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	16552614	16552615	+	In_Frame_Ins	INS	-	-	GAA													0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tcctcttgcttcaggacgctINSgaagagacggtccagcagga							TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr9:16552614_16552615insGAA	ENST00000380672.4	-	5	639_640	c.582_583insTTC	c.(580-585)ttcagc>ttcTTCagc	p.194_195insF	BNC2_ENST00000545497.1_In_Frame_Ins_p.99_100insF|BNC2_ENST00000380667.2_In_Frame_Ins_p.127_128insF|BNC2_ENST00000380666.2_In_Frame_Ins_p.194_195insF	NM_017637.5	NP_060107.3			basonuclin 2											NS(2)|breast(3)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(16)|liver(1)|lung(22)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	60				GBM - Glioblastoma multiforme(50;9.01e-08)		TTCAGGACGCTGAAGAGACGGT	0.55																																																0																																										SO:0001652	inframe_insertion	54796			AK092247	CCDS6482.2	9p22.2	2013-05-20			ENSG00000173068	ENSG00000173068		"Zinc fingers, C2H2-type"	30988	protein-coding gene	gene with protein product		608669				14702039	Standard	XM_006716784		Approved	BSN2, FLJ20043	uc003zml.3	Q6ZN30	OTTHUMG00000019593	ENST00000380672.4:c.580_582dupTTC	9.37:g.16552615_16552617dupGAA	ENSP00000370047:p.Phe194_Phe194dup	Somatic		WXS	Illumina HiSeq	Phase_I		In_Frame_Ins	INS	ENST00000380672.4	37	CCDS6482.2																																																																																				0.55	BNC2-008	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000216901.5	NM_017637		GAA	16552615	-	GAA	16552614	7	5	597	1	0	1	1	0	0	0	0	0	1475	1580	55	0	2728	0	BNC2	9	16552614	In_Frame_Ins	INS	-	TCGA-GL-6846-01A-11D-1961-08	8092056	16552614	124660817	42	35650										
GTF3C5	9328	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	135917679	135917680	+	Missense_Mutation	DNP	TT	TT	AA													0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ccttggcatcatctccaccaTttacaaatttcagggtaact							TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr9:135917679_135917680TT>AA	ENST00000372097.5	+	2	682_683	c.359_360TT>AA	c.(358-360)aTT>aAA	p.I120K	GTF3C5_ENST00000485692.1_Intron|GTF3C5_ENST00000372099.6_Missense_Mutation_p.I111K|GTF3C5_ENST00000372108.5_Missense_Mutation_p.I120K|GTF3C5_ENST00000372095.5_Intron|GTF3C5_ENST00000342018.8_Missense_Mutation_p.I120K	NM_012087.3	NP_036219.2	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5, 63kDa	120					5S class rRNA transcription from RNA polymerase III type 1 promoter (GO:0042791)|gene expression (GO:0010467)|skeletal muscle cell differentiation (GO:0035914)|transcription from RNA polymerase III promoter (GO:0006383)|transcription, DNA-templated (GO:0006351)|tRNA transcription from RNA polymerase III promoter (GO:0042797)	nucleoplasm (GO:0005654)|transcription factor TFIIIC complex (GO:0000127)	DNA binding (GO:0003677)			endometrium(5)|kidney(1)|large_intestine(7)|lung(6)|pancreas(1)|prostate(1)	21				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		ATCTCCACCATTTACAAATTTC	0.535																																																0																																										SO:0001583	missense	9328			AF133124	CCDS6958.1, CCDS48050.1, CCDS75927.1	9q34.13	2010-03-23	2002-08-29		ENSG00000148308	ENSG00000148308		"General transcription factors"	4668	protein-coding gene	gene with protein product	"transcription factor IIIC, 63 kD"	604890	"general transcription factor IIIC, polypeptide 5 (63kD)"			10373544	Standard	NM_012087		Approved	TFiiiC2-63, TFIIIC63, TFIIICepsilon	uc004ccj.4	Q9Y5Q8	OTTHUMG00000020856	Exception_encountered	9.37:g.135917679_135917680delinsAA	ENSP00000361169:p.Ile120Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NI44|A6NJB9|Q5T7U2|Q5T7U3|Q8N2U7|Q8N857|Q96GD9|Q9H4P2	Missense_Mutation	DNP	ENST00000372097.5	37	CCDS6958.1																																																																																				0.535	GTF3C5-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054826.1	NM_001122823		AA	135917680	TT	AA	135917679	3	1	597	1	0	0	0	0	1	0	0	0	6883	1493	52	5	365	5	GTF3C5	9	135917679	Missense_Mutation	DNP	TT	TCGA-GL-6846-01A-11D-1961-08	119365065	135917679	5295752	43	35651										
CEL	1056	broad.mit.edu	37	chr9	135941956	135941956	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tcagcacatggccattgcttGggtgaagaggaatatcgcgg	14	8	1	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr9:135941956G>T	ENST00000372080.4	+	5	603	c.587G>T	c.(586-588)tGg>tTg	p.W196L	CEL_ENST00000351304.7_Missense_Mutation_p.W193L	NM_001807.3	NP_001798.2	P19835	CEL_HUMAN	carboxyl ester lipase	193					cholesterol catabolic process (GO:0006707)|fatty acid catabolic process (GO:0009062)|intestinal cholesterol absorption (GO:0030299)|intestinal lipid catabolic process (GO:0044258)|lipid digestion (GO:0044241)|lipid metabolic process (GO:0006629)|pancreatic juice secretion (GO:0030157)|protein esterification (GO:0018350)|small molecule metabolic process (GO:0044281)|triglyceride metabolic process (GO:0006641)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	acylglycerol lipase activity (GO:0047372)|catalytic activity (GO:0003824)|heparin binding (GO:0008201)|hydrolase activity (GO:0016787)|sterol esterase activity (GO:0004771)|triglyceride lipase activity (GO:0004806)			NS(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(9)|pancreas(2)|skin(1)	20				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)		GCCATTGCTTGGGTGAAGAGG	0.642																																																0													95	105	102					9																	135941956		1959	4145	6104	SO:0001583	missense	1056			M54994	CCDS43896.1	9q34.3	2013-03-13	2013-03-13		ENSG00000170835	ENSG00000170835	3.1.1.3, 3.1.1.13		1848	protein-coding gene	gene with protein product	"bile salt-stimulated lipase"	114840				1676983	Standard	NM_001807		Approved	BSSL, MODY8	uc010naa.2	P19835	OTTHUMG00000020855	ENST00000372080.4:c.587G>T	9.37:g.135941956G>T	ENSP00000361151:p.Trp196Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q16398|Q5T7U7|Q9UCH1|Q9UP41	Missense_Mutation	SNP	ENST00000372080.4	37	CCDS43896.1	.	.	.	.	.	.	.	.	.	.	G	29.9	5.046582	0.93740	.	.	ENSG00000170835	ENST00000372080;ENST00000351304;ENST00000303626	D;D	0.84730	-1.89;-1.89	5.31	5.31	0.75309	Carboxylesterase, type B (1);	0.055507	0.85682	D	0.000000	D	0.95733	0.8612	H	0.98682	4.3	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.97548	1.0090	10	0.87932	D	0	.	17.5643	0.87914	0.0:0.0:1.0:0.0	.	193	P19835	CEL_HUMAN	L	196;193;196	ENSP00000361151:W196L;ENSP00000342217:W193L	ENSP00000304021:W196L	W	+	2	0	CEL	134931777	1.000000	0.71417	0.998000	0.56505	0.987000	0.75469	9.317000	0.96327	2.479000	0.83701	0.561000	0.74099	TGG		0.642	CEL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054823.1			T	135941956	G	T	135941956	3	4	597	1	0	0	0	0	1	0	0	0	3211	1357	47	4	605	4	CEL	9	135941956	Missense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08	24277	135941956	5271475	44	35652										
LCN12	286256	broad.mit.edu	37	chr9	139846817	139846819	+	In_Frame_Del	DEL	TGC	TGC	-													0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	cctgtggctgtggctctcctTgctgaaagtcctgcaggccc							TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	TGC	TGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr9:139846817_139846819delTGC	ENST00000371633.3	+	1	38_40	c.38_40delTGC	c.(37-42)ttgctg>ttg	p.13_14LL>L		NM_178536.3	NP_848631.2	Q6JVE5	LCN12_HUMAN	lipocalin 12	13					lipid metabolic process (GO:0006629)	extracellular region (GO:0005576)	retinoic acid binding (GO:0001972)|transporter activity (GO:0005215)			endometrium(1)|kidney(1)|lung(1)|prostate(2)	5	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.19)	OV - Ovarian serous cystadenocarcinoma(145;7.8e-06)|Epithelial(140;0.000106)		TGGCTCTCCTTGCTGAAAGTCCT	0.626																																																0																																										SO:0001651	inframe_deletion	286256			BC041168	CCDS7018.2	9q34	2011-10-24	2007-12-18		ENSG00000184925	ENSG00000184925		"Lipocalins"	28733	protein-coding gene	gene with protein product		612905				15363845	Standard	XM_005266068		Approved	MGC48935	uc004ckb.3	Q6JVE5	OTTHUMG00000020968	ENST00000371633.3:c.38_40delTGC	9.37:g.139846817_139846819delTGC	ENSP00000360696:p.Leu14del	Somatic		WXS	Illumina HiSeq	Phase_I	A2AMJ7	In_Frame_Del	DEL	ENST00000371633.3	37	CCDS7018.2																																																																																				0.626	LCN12-015	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257990.1	NM_178536		-	139846819	TGC	-	139846817	7	5	597	1	0	1	0	1	0	0	0	0	8689	1821	63	0	40	0	LCN12	9	139846817	In_Frame_Del	DEL	TGC	TCGA-GL-6846-01A-11D-1961-08	3904861	139846817	1366614	45	35653										
CACNA1B	774	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	140943670	140943670	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ctccctcctagatgatcgacTtgggactgctgcttcaccct	8	15	1	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr9:140943670T>C	ENST00000371372.1	+	24	3758	c.3613T>C	c.(3613-3615)Ttg>Ctg	p.L1205L	CACNA1B_ENST00000371355.4_Silent_p.L1206L|CACNA1B_ENST00000277549.5_Silent_p.L397L|CACNA1B_ENST00000545473.1_3'UTR|CACNA1B_ENST00000277551.2_Silent_p.L1205L|CACNA1B_ENST00000371363.1_Silent_p.L1205L|CACNA1B_ENST00000371357.1_Silent_p.L1206L	NM_000718.3|NM_001243812.1	NP_000709.1|NP_001230741.1	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type, alpha 1B subunit	1205					calcium ion import (GO:0070509)|locomotory behavior (GO:0007626)|membrane depolarization (GO:0051899)|membrane depolarization during action potential (GO:0086010)|neurotransmitter secretion (GO:0007269)|regulation of blood pressure (GO:0008217)|regulation of calcium ion transport (GO:0051924)|regulation of heart contraction (GO:0008016)|response to pain (GO:0048265)|synaptic transmission (GO:0007268)|transport (GO:0006810)	dendrite (GO:0030425)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|high voltage-gated calcium channel activity (GO:0008331)|protein C-terminus binding (GO:0008022)|voltage-gated calcium channel activity (GO:0005245)			NS(3)|autonomic_ganglia(1)|breast(7)|central_nervous_system(1)|endometrium(10)|kidney(2)|large_intestine(17)|lung(31)|ovary(1)|prostate(1)|skin(2)|stomach(2)|urinary_tract(2)	80	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)|Levetiracetam(DB01202)|Spironolactone(DB00421)|Verapamil(DB00661)	GATGATCGACTTGGGACTGCT	0.527																																																0													177	173	174					9																	140943670		2047	4198	6245	SO:0001819	synonymous_variant	774			AB209467	CCDS59522.1, CCDS59523.1	9q34	2013-01-10	2007-02-16		ENSG00000148408	ENSG00000148408		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels", "EF-hand domain containing"	1389	protein-coding gene	gene with protein product		601012		CACNL1A5		8825650, 16382099	Standard	NM_000718		Approved	Cav2.2, CACNN	uc004cog.3	Q00975	OTTHUMG00000021002	ENST00000371372.1:c.3613T>C	9.37:g.140943670T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B1AQK5	Silent	SNP	ENST00000371372.1	37	CCDS59522.1																																																																																				0.527	CACNA1B-001	KNOWN	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000055380.1	NM_000718		C	140943670	T	C	140943670	2	2	597	1	0	0	0	0	0	0	0	1	2541	1606	56	3		3	CACNA1B	9	140943670	Silent	SNP	T	TCGA-GL-6846-01A-11D-1961-08	1096853	140943670	269761	46	35654										
DIP2C	22982	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	375449	375449	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	aggagcaaaacgtgtctcggActttgtactgactcacggca	11	10	2	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr10:375449A>T	ENST00000280886.6	-	30	3764	c.3677T>A	c.(3676-3678)gTc>gAc	p.V1226D		NM_014974.2	NP_055789.1	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C (Drosophila)	1226						nucleus (GO:0005634)	catalytic activity (GO:0003824)			breast(8)|endometrium(6)|kidney(10)|large_intestine(13)|lung(26)|ovary(3)|prostate(6)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(4)	81		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		CGTGTCTCGGACTTTGTACTG	0.577																																																0													64	55	58					10																	375449		2203	4300	6503	SO:0001583	missense	22982			BC035216	CCDS7054.1	10p15.3	2006-01-13	2006-01-13	2006-01-13	ENSG00000151240	ENSG00000151240			29150	protein-coding gene	gene with protein product		611380	"KIAA0934"	KIAA0934			Standard	NM_014974		Approved		uc001ifp.3	Q9Y2E4	OTTHUMG00000017532	ENST00000280886.6:c.3677T>A	10.37:g.375449A>T	ENSP00000280886:p.Val1226Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DPI5|Q5SS78	Missense_Mutation	SNP	ENST00000280886.6	37	CCDS7054.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	34|34	5.376544|5.376544	0.95945|0.95945	.|.	.|.	ENSG00000151240|ENSG00000151240	ENST00000434695|ENST00000280886;ENST00000535541;ENST00000381503	.|T	.|0.51574	.|0.7	5.84|5.84	5.84|5.84	0.93424|0.93424	.|AMP-dependent synthetase/ligase (1);	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.67211|0.67211	0.2869|0.2869	M|M	0.67397|0.67397	2.05|2.05	0.80722|0.80722	D|D	1|1	.|D	.|0.60575	.|0.988	.|D	.|0.71656	.|0.974	T|T	0.69749|0.69749	-0.5061|-0.5061	5|10	.|0.66056	.|D	.|0.02	-39.2182|-39.2182	16.2141|16.2141	0.82191|0.82191	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	.|1226	.|Q9Y2E4	.|DIP2C_HUMAN	R|D	31|1226;151;75	.|ENSP00000280886:V1226D	.|ENSP00000280886:V1226D	S|V	-|-	3|2	2|0	DIP2C|DIP2C	365449|365449	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.841000|0.841000	0.47740|0.47740	9.339000|9.339000	0.96797|0.96797	2.230000|2.230000	0.72887|0.72887	0.528000|0.528000	0.53228|0.53228	AGT|GTC		0.577	DIP2C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046389.1	NM_014974		T	375449	A	T	375449	3	4	597	1	0	0	0	0	1	0	0	0	4531	275	10	5	1025	5	DIP2C	10	375449	Missense_Mutation	SNP	A	TCGA-GL-6846-01A-11D-1961-08		375449	135159298	47	35655										
ZEB1	6935	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	31812949	31812949	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	accgcccaaaaagaaaatgcGgaagacagaaaatggaatgt	10	7	0	3	rs35653460		TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr10:31812949G>T	ENST00000320985.10	+	8	2800	c.2690G>T	c.(2689-2691)cGg>cTg	p.R897L	ZEB1_ENST00000361642.5_Missense_Mutation_p.R898L|ZEB1_ENST00000560721.2_Missense_Mutation_p.R877L|ZEB1_ENST00000446923.2_Missense_Mutation_p.R881L|ZEB1_ENST00000542815.3_Missense_Mutation_p.R830L			P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1	897					cartilage development (GO:0051216)|cell proliferation (GO:0008283)|cellular response to amino acid stimulus (GO:0071230)|cellular response to transforming growth factor beta stimulus (GO:0071560)|cochlea morphogenesis (GO:0090103)|embryonic camera-type eye morphogenesis (GO:0048596)|embryonic skeletal system morphogenesis (GO:0048704)|forebrain development (GO:0030900)|immune response (GO:0006955)|negative regulation of cell proliferation (GO:0008285)|negative regulation of epithelial cell differentiation (GO:0030857)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|pattern specification process (GO:0007389)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of mesenchymal cell proliferation (GO:0010464)|regulation of smooth muscle cell differentiation (GO:0051150)|regulation of T cell differentiation in thymus (GO:0033081)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transforming growth factor beta receptor signaling pathway (GO:0017015)|response to activity (GO:0014823)|response to nutrient levels (GO:0031667)|semicircular canal morphogenesis (GO:0048752)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|double-stranded DNA binding (GO:0003690)|E-box binding (GO:0070888)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)	p.R897Q(1)		NS(2)|breast(4)|central_nervous_system(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(14)|lung(38)|ovary(3)|skin(6)|upper_aerodigestive_tract(4)	77		Prostate(175;0.0156)				AAGAAAATGCGGAAGACAGAA	0.373																																					Ovarian(40;423 959 14296 36701 49589)											1	Substitution - Missense(1)	large_intestine(1)											111	111	111					10																	31812949		2203	4300	6503	SO:0001583	missense	6935			AK091478	CCDS7169.1, CCDS44370.1, CCDS53505.1, CCDS53506.1, CCDS53507.1	10p11.22	2014-02-14	2007-02-15	2007-02-15	ENSG00000148516	ENSG00000148516		"Zinc fingers, C2H2-type", "Homeoboxes / ZF class"	11642	protein-coding gene	gene with protein product		189909	"transcription factor 8 (represses interleukin 2 expression)", "posterior polymorphous corneal dystrophy 3"	TCF8, PPCD3		1427828, 1840704, 15384081, 16252232	Standard	NM_001128128		Approved	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a, FECD6	uc001ivu.4	P37275	OTTHUMG00000017907	ENST00000320985.10:c.2690G>T	10.37:g.31812949G>T	ENSP00000319248:p.Arg897Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DJV0|B4DUW9|E9PCM7|F5H4I8|Q12924|Q13800|Q2KJ05|Q5T968|Q5VZ84|Q8NB68	Missense_Mutation	SNP	ENST00000320985.10	37	CCDS7169.1	.	.	.	.	.	.	.	.	.	.	G	19.18	3.777667	0.70107	.	.	ENSG00000148516	ENST00000542879;ENST00000537225;ENST00000361642;ENST00000546250;ENST00000542815;ENST00000320985;ENST00000437844;ENST00000543514;ENST00000446923	T;T;T;T;T	0.07327	3.2;3.2;3.2;3.2;3.2	5.72	4.8	0.61643	.	0.369405	0.21055	N	0.080939	T	0.15435	0.0372	L	0.27053	0.805	0.41478	D	0.988147	D;P;B;P;P	0.69078	0.997;0.826;0.208;0.826;0.826	D;B;B;B;B	0.69824	0.966;0.334;0.09;0.334;0.177	T	0.02901	-1.1096	10	0.52906	T	0.07	-12.9237	10.1047	0.42526	0.071:0.1383:0.7907:0.0	.	830;881;877;898;897	F5H4I8;E9PCM7;Q5VZ84;Q2KJ05;P37275	.;.;.;.;ZEB1_HUMAN	L	679;897;898;892;830;897;877;788;881	ENSP00000444282:R679L;ENSP00000354487:R898L;ENSP00000444891:R830L;ENSP00000319248:R897L;ENSP00000391612:R881L	ENSP00000319248:R897L	R	+	2	0	ZEB1	31852955	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.665000	0.68052	1.410000	0.46936	0.585000	0.79938	CGG		0.373	ZEB1-018	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000419083.2	NM_030751		T	31812949	G	T	31812949	3	4	597	1	0	0	0	0	1	0	0	0	17635	1116	39	4	2734	4	ZEB1	10	31812949	Missense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08	31437500	31812949	103721798	48	35656										
SLK	9748	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	105763115	105763115	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gagaaaataaagaagaaataGgttctttatcaaaaactgaa	7	3	2	4			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr10:105763115G>A	ENST00000369755.3	+	9	2724	c.2179G>A	c.(2179-2181)Ggt>Agt	p.G727S	SLK_ENST00000335753.4_Missense_Mutation_p.G727S	NM_014720.2	NP_055535.2	Q9H2G2	SLK_HUMAN	STE20-like kinase	727					apoptotic process (GO:0006915)|protein autophosphorylation (GO:0046777)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|protein homodimerization activity (GO:0042803)|protein serine/threonine kinase activity (GO:0004674)			kidney(1)|lung(1)|ovary(2)|skin(2)|stomach(2)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		AGAAGAAATAGGTTCTTTATC	0.393																																					NSCLC(111;540 1651 1927 4474 17706)											0													47	50	49					10																	105763115		2203	4299	6502	SO:0001583	missense	9748				CCDS7553.1	10q25.1	2010-06-25	2010-06-25		ENSG00000065613	ENSG00000065613			11088	protein-coding gene	gene with protein product			"SNF1 (sucrose nonfermenting, yeast, homolog)-like kinase, SNF1 sucrose nonfermenting like kinase (yeast)", "STE20-like kinase (yeast)"			3526554	Standard	NM_014720		Approved	STK2, se20-9, KIAA0204	uc001kxo.1	Q9H2G2	OTTHUMG00000018999	ENST00000369755.3:c.2179G>A	10.37:g.105763115G>A	ENSP00000358770:p.Gly727Ser	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRA0|D3DRA1|O00211|Q6P1Z4|Q86WU7|Q86WW1|Q92603|Q9NQL0|Q9NQL1	Missense_Mutation	SNP	ENST00000369755.3	37	CCDS7553.1	.	.	.	.	.	.	.	.	.	.	G	6.141	0.394210	0.11638	.	.	ENSG00000065613	ENST00000335753;ENST00000369755	T;T	0.70749	-0.5;-0.51	5.71	2.88	0.33553	Protein kinase-like domain (1);	0.453038	0.24499	N	0.037999	T	0.53094	0.1775	L	0.48642	1.525	0.09310	N	1	P;B	0.35872	0.525;0.39	B;B	0.34418	0.182;0.089	T	0.44726	-0.9309	10	0.05833	T	0.94	.	6.1926	0.20532	0.2151:0.1347:0.6502:0.0	.	727;727	Q9H2G2-2;Q9H2G2	.;SLK_HUMAN	S	727	ENSP00000336824:G727S;ENSP00000358770:G727S	ENSP00000336824:G727S	G	+	1	0	SLK	105753105	0.842000	0.29525	0.931000	0.37212	0.035000	0.12851	2.556000	0.45862	0.781000	0.33589	0.555000	0.69702	GGT		0.393	SLK-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050188.1	NM_014720		A	105763115	G	A	105763115	3	1	597	1	0	0	0	0	1	0	0	0	14761	1000	35	2	2213	2	SLK	10	105763115	Missense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08	73950166	105763115	29771632	49	35657										
SEC23IP	11196	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	121692658	121692658	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	taatgaataccttttcgctcTtcagagtcacttatgctatt	5	9	3	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr10:121692658T>C	ENST00000369075.3	+	17	2972	c.2900T>C	c.(2899-2901)cTt>cCt	p.L967P	SEC23IP_ENST00000543134.1_Missense_Mutation_p.L756P|SEC23IP_ENST00000475542.1_3'UTR	NM_007190.3	NP_009121.1	Q9Y6Y8	S23IP_HUMAN	SEC23 interacting protein	967	DDHD. {ECO:0000255|PROSITE- ProRule:PRU00378}.				acrosome assembly (GO:0001675)|Golgi organization (GO:0007030)|intracellular protein transport (GO:0006886)|single fertilization (GO:0007338)	cis-Golgi network (GO:0005801)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum exit site (GO:0070971)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|perinuclear endoplasmic reticulum (GO:0097038)	metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			NS(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(12)|ovary(3)|prostate(1)|stomach(3)|urinary_tract(1)	36		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		CTTTTCGCTCTTCAGAGTCAC	0.383																																																0													128	125	126					10																	121692658		2203	4300	6503	SO:0001583	missense	11196			AB019435	CCDS7618.1	10q26.11-q26.12	2013-01-10			ENSG00000107651	ENSG00000107651		"Sterile alpha motif (SAM) domain containing"	17018	protein-coding gene	gene with protein product						10400679	Standard	NM_007190		Approved	p125	uc001leu.2	Q9Y6Y8	OTTHUMG00000019161	ENST00000369075.3:c.2900T>C	10.37:g.121692658T>C	ENSP00000358071:p.Leu967Pro	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRD2|Q8IXH5|Q9BUK5	Missense_Mutation	SNP	ENST00000369075.3	37	CCDS7618.1	.	.	.	.	.	.	.	.	.	.	T	18.64	3.667691	0.67814	.	.	ENSG00000107651	ENST00000369075;ENST00000543134	T;T	0.39406	1.08;1.12	5.28	4.14	0.48551	DDHD (2);	0.000000	0.85682	D	0.000000	T	0.65831	0.2729	M	0.86268	2.805	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.991;0.998	T	0.69254	-0.5193	10	0.62326	D	0.03	-23.9312	11.2264	0.48886	0.0:0.0726:0.0:0.9274	.	756;967	F5H0L8;Q9Y6Y8	.;S23IP_HUMAN	P	967;756	ENSP00000358071:L967P;ENSP00000438773:L756P	ENSP00000358071:L967P	L	+	2	0	SEC23IP	121682648	1.000000	0.71417	1.000000	0.80357	0.885000	0.51271	7.655000	0.83696	0.950000	0.37743	-0.256000	0.11100	CTT		0.383	SEC23IP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050688.1			C	121692658	T	C	121692658	3	2	597	1	0	0	0	0	1	0	0	0	14006	1609	56	3	2966	3	SEC23IP	10	121692658	Missense_Mutation	SNP	T	TCGA-GL-6846-01A-11D-1961-08	15929543	121692658	13842089	50	35658										
ADAM12	8038	broad.mit.edu;ucsc.edu	37	chr10	127789653	127789653	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ctccctacctgacaagctgcGcattgtcatgggatttgcga	10	12	1	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr10:127789653G>A	ENST00000368679.4	-	9	1217	c.908C>T	c.(907-909)gCg>gTg	p.A303V	ADAM12_ENST00000368676.4_Missense_Mutation_p.A303V	NM_003474.4	NP_003465.3	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12	303	Peptidase M12B. {ECO:0000255|PROSITE- ProRule:PRU00276}.				cell adhesion (GO:0007155)|epidermal growth factor receptor signaling pathway (GO:0007173)|myoblast fusion (GO:0007520)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|SH3 domain binding (GO:0017124)|zinc ion binding (GO:0008270)	p.A303V(3)		biliary_tract(1)|breast(7)|central_nervous_system(4)|endometrium(5)|kidney(3)|large_intestine(11)|liver(1)|lung(24)|ovary(2)|prostate(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	69		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		GACAAGCTGCGCATTGTCATG	0.507																																																3	Substitution - Missense(3)	central_nervous_system(3)											88	77	81					10																	127789653		2203	4300	6503	SO:0001583	missense	8038			AF023476	CCDS7653.1, CCDS7654.1	10q26	2008-07-29	2008-07-29		ENSG00000148848	ENSG00000148848		"ADAM metallopeptidase domain containing"	190	protein-coding gene	gene with protein product	"meltrin alpha"	602714	"a disintegrin and metalloproteinase domain 12 (meltrin alpha)"			9417060, 18342566	Standard	NM_003474		Approved	MCMPMltna, MLTN	uc001ljk.2	O43184	OTTHUMG00000019243	ENST00000368679.4:c.908C>T	10.37:g.127789653G>A	ENSP00000357668:p.Ala303Val	Somatic		WXS	Illumina HiSeq	Phase_I	O60470|Q5JRP0|Q5JRP1|Q6P9E3|Q6UWB0	Missense_Mutation	SNP	ENST00000368679.4	37	CCDS7653.1	.	.	.	.	.	.	.	.	.	.	G	23.3	4.394450	0.83011	.	.	ENSG00000148848	ENST00000368679;ENST00000368676	T;T	0.69040	-0.37;-0.37	5.32	5.32	0.75619	Metallopeptidase, catalytic domain (1);Peptidase M12B, ADAM/reprolysin (2);	0.000000	0.85682	D	0.000000	T	0.79862	0.4519	L	0.56280	1.765	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.97110	0.999;0.999;0.999;0.999;1.0	T	0.80834	-0.1205	10	0.87932	D	0	.	19.1925	0.93672	0.0:0.0:1.0:0.0	.	300;300;303;300;303	A8K6G4;O43184-3;O43184-2;O43184-4;O43184	.;.;.;.;ADA12_HUMAN	V	303	ENSP00000357668:A303V;ENSP00000357665:A303V	ENSP00000357665:A303V	A	-	2	0	ADAM12	127779643	1.000000	0.71417	0.205000	0.23548	0.253000	0.25986	7.692000	0.84203	2.767000	0.95098	0.655000	0.94253	GCG		0.507	ADAM12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050961.1			A	127789653	G	A	127789653	3	1	597	1	0	0	0	0	1	0	0	0	236	1087	38	1	1989	1	ADAM12	10	127789653	Missense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08	6096995	127789653	7745094	51	35659										
DOCK1	1793	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	128788791	128788791	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ttgaatggcgatcacaaattCtttctggaactctgcctcag	8	10	5	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr10:128788791C>G	ENST00000280333.6	+	6	506	c.397C>G	c.(397-399)Ctt>Gtt	p.L133V		NM_001380.3	NP_001371.1	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	133					apoptotic process (GO:0006915)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell migration (GO:0016477)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|hematopoietic progenitor cell differentiation (GO:0002244)|innate immune response (GO:0045087)|integrin-mediated signaling pathway (GO:0007229)|phagocytosis, engulfment (GO:0006911)|positive regulation of GTPase activity (GO:0043547)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)	GTPase activator activity (GO:0005096)|guanyl-nucleotide exchange factor activity (GO:0005085)			NS(2)|breast(1)|central_nervous_system(7)|endometrium(13)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(10)|lung(15)|ovary(4)|prostate(3)|stomach(2)|upper_aerodigestive_tract(5)|urinary_tract(1)	72		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		ATCACAAATTCTTTCTGGAAC	0.393																																																0													109	103	105					10																	128788791		1909	4134	6043	SO:0001583	missense	1793			D50857	CCDS73222.1	10q26.13-q26.3	2009-10-28			ENSG00000150760	ENSG00000150760			2987	protein-coding gene	gene with protein product	"DOwnstream of CrK"	601403	"dedicator of cyto-kinesis 1"			8657152, 8661160	Standard	XM_006717681		Approved	DOCK180, ced5	uc001ljt.3	Q14185	OTTHUMG00000019249	ENST00000280333.6:c.397C>G	10.37:g.128788791C>G	ENSP00000280333:p.Leu133Val	Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1Z5	Missense_Mutation	SNP	ENST00000280333.6	37		.	.	.	.	.	.	.	.	.	.	C	14.43	2.532331	0.45073	.	.	ENSG00000150760	ENST00000280333	T	0.47177	0.85	4.5	4.5	0.54988	.	0.000000	0.64402	D	0.000001	T	0.47911	0.1471	L	0.61218	1.895	0.53688	D	0.999978	B;B	0.28850	0.122;0.225	B;B	0.26202	0.067;0.061	T	0.52366	-0.8585	10	0.51188	T	0.08	.	17.7282	0.88370	0.0:1.0:0.0:0.0	.	133;133	B2RUU3;Q14185	.;DOCK1_HUMAN	V	133	ENSP00000280333:L133V	ENSP00000280333:L133V	L	+	1	0	DOCK1	128678781	1.000000	0.71417	0.998000	0.56505	0.967000	0.64934	4.454000	0.60068	2.510000	0.84645	0.555000	0.69702	CTT		0.393	DOCK1-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000050979.2	NM_001380		G	128788791	C	G	128788791	3	3	597	1	0	0	0	0	1	0	0	0	4686	913	32	4	419	4	DOCK1	10	128788791	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08	999138	128788791	6745956	52	35660										
OR56A1	120796	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	6048449	6048449	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	aggataggaatgggtgcagtAagaagcgcattccgcaccac	13	9	0	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr11:6048449A>G	ENST00000316650.5	-	1	522	c.486T>C	c.(484-486)ctT>ctC	p.L162L		NM_001001917.2	NP_001001917.2	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A, member 1	162						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(6)|lung(22)|ovary(2)	33		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)		TGGGTGCAGTAAGAAGCGCAT	0.498																																																0													142	125	131					11																	6048449		2201	4296	6497	SO:0001819	synonymous_variant	120796			AB065821	CCDS31405.1	11p15.4	2012-08-09			ENSG00000180934	ENSG00000180934		"GPCR / Class A : Olfactory receptors"	14781	protein-coding gene	gene with protein product							Standard	NM_001001917		Approved		uc010qzw.2	Q8NGH5	OTTHUMG00000165377	ENST00000316650.5:c.486T>C	11.37:g.6048449A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RNI2|Q6IFL0	Silent	SNP	ENST00000316650.5	37	CCDS31405.1																																																																																				0.498	OR56A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383757.1	NM_001001917		G	6048449	A	G	6048449	2	3	597	1	0	0	0	0	0	0	0	1	11140	349	13	3		3	OR56A1	11	6048449	Silent	SNP	A	TCGA-GL-6846-01A-11D-1961-08		6048449	128958067	53	35661										
KIAA1826	84437	broad.mit.edu	37	chr11	105881299	105881299	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	atttgcatcatttcggaatcCaatcttttcatctatctctt	3	10	5	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr11:105881299C>G	ENST00000301919.4	-	2	1761	c.346G>C	c.(346-348)Gga>Cga	p.G116R	MSANTD4_ENST00000529805.1_5'Flank	NM_032424.1	NP_115800.1	Q8NCY6	MSD4_HUMAN	Myb/SANT-like DNA-binding domain containing 4 with coiled-coils	116						nucleus (GO:0005634)											TTTCGGAATCCAATCTTTTCA	0.443																																																0													141	143	142					11																	105881299		2201	4299	6500	SO:0001583	missense	84437			AB058729	CCDS31663.1	11q22	2012-03-13	2012-03-13	2012-03-13	ENSG00000170903	ENSG00000170903			29383	protein-coding gene	gene with protein product			"KIAA1826"	KIAA1826			Standard	XM_005271697		Approved		uc001piz.3	Q8NCY6	OTTHUMG00000166240	ENST00000301919.4:c.346G>C	11.37:g.105881299C>G	ENSP00000304713:p.Gly116Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q96JK1|Q96JZ3|Q9H2N4	Missense_Mutation	SNP	ENST00000301919.4	37	CCDS31663.1	.	.	.	.	.	.	.	.	.	.	C	15.47	2.844408	0.51164	.	.	ENSG00000170903	ENST00000301919;ENST00000530788	.	.	.	5.88	4.94	0.65067	.	0.222920	0.45867	D	0.000336	T	0.45856	0.1363	L	0.36672	1.1	0.33135	D	0.543563	B	0.31290	0.318	B	0.33196	0.159	T	0.56938	-0.7896	9	0.37606	T	0.19	-8.0691	16.459	0.84030	0.1316:0.8683:0.0:0.0	.	116	Q8NCY6	K1826_HUMAN	R	116	.	ENSP00000304713:G116R	G	-	1	0	KIAA1826	105386509	1.000000	0.71417	0.998000	0.56505	0.962000	0.63368	3.643000	0.54374	2.782000	0.95742	0.561000	0.74099	GGA		0.443	MSANTD4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388619.1	NM_032424		G	105881299	C	G	105881299	3	3	597	1	0	0	0	0	1	0	0	0	8267	603	21	4	699	4	KIAA1826	11	105881299	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08	99832850	105881299	29125217	54	35662										
KIAA0528	9847	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	22623804	22623804	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gtttttgtggtttgtaaagcCtgatttttgtcaaaagtgat	10	3	1	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr12:22623804C>T	ENST00000333957.4	-	21	2655	c.2400G>A	c.(2398-2400)caG>caA	p.Q800Q	C2CD5_ENST00000446597.1_Silent_p.Q800Q|C2CD5_ENST00000542676.1_Silent_p.Q800Q|C2CD5_ENST00000396028.2_Silent_p.Q791Q|C2CD5_ENST00000536386.1_Silent_p.Q802Q|C2CD5_ENST00000544930.1_Silent_p.Q615Q|C2CD5_ENST00000545552.1_Silent_p.Q813Q	NM_014802.1	NP_055617.1	Q86YS7	C2CD5_HUMAN	C2 calcium-dependent domain containing 5	800					cellular response to insulin stimulus (GO:0032869)|insulin receptor signaling pathway via phosphatidylinositol 3-kinase (GO:0038028)|intracellular protein transmembrane transport (GO:0065002)|positive regulation of glucose transport (GO:0010828)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of vesicle fusion (GO:0031340)	cell cortex (GO:0005938)|cytoplasmic vesicle membrane (GO:0030659)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)	calcium ion binding (GO:0005509)|calcium-dependent phospholipid binding (GO:0005544)										TTTGTAAAGCCTGATTTTTGT	0.343																																																0													159	149	152					12																	22623804		2203	4299	6502	SO:0001819	synonymous_variant	9847			AB011100	CCDS31758.1, CCDS66337.1, CCDS66338.1, CCDS66339.1, CCDS66340.1	12p12.1	2012-12-13	2012-12-13	2012-12-13	ENSG00000111731	ENSG00000111731			29062	protein-coding gene	gene with protein product	"138 kDa C2 domain-containing phosphoprotein"		"KIAA0528"	KIAA0528		21907143	Standard	XM_005253538		Approved	CDP138	uc001rfq.3	Q86YS7	OTTHUMG00000169100	ENST00000333957.4:c.2400G>A	12.37:g.22623804C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DJ03|B4DRN7|B7ZLL0|F5H2A1|F5H5R1|O60280|Q17RY7|Q7Z619|Q86SU3	Silent	SNP	ENST00000333957.4	37	CCDS31758.1	.	.	.	.	.	.	.	.	.	.	C	8.519	0.868292	0.17250	.	.	ENSG00000111731	ENST00000539615	.	.	.	4.99	3.02	0.34903	.	.	.	.	.	T	0.47691	0.1459	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.39881	-0.9592	4	.	.	.	-10.4578	4.4442	0.11589	0.0:0.6458:0.0:0.3542	.	.	.	.	K	84	.	.	R	-	2	0	KIAA0528	22515071	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	1.959000	0.40412	1.338000	0.45544	0.591000	0.81541	AGG		0.343	C2CD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402257.1	NM_014802		T	22623804	C	T	22623804	2	4	597	1	0	0	0	0	0	0	0	1	8189	680	24	2		2	KIAA0528	12	22623804	Silent	SNP	C	TCGA-GL-6846-01A-11D-1961-08		22623804	111228091	55	35663										
ITGB7	3695	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	53586547	53586547	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	catagtagccgtccaagcacTggcagcggttgcatttgcag	12	11	0	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr12:53586547T>C	ENST00000267082.5	-	13	2105	c.1874A>G	c.(1873-1875)cAg>cGg	p.Q625R	ITGB7_ENST00000338737.4_Intron|ITGB7_ENST00000422257.3_Missense_Mutation_p.Q625R|ITGB7_ENST00000550743.2_Intron	NM_000889.1	NP_000880.1	P26010	ITB7_HUMAN	integrin, beta 7	625	Cysteine-rich tandem repeats.				cell adhesion (GO:0007155)|cell-matrix adhesion (GO:0007160)|cell-matrix adhesion involved in ameboidal cell migration (GO:0003366)|extracellular matrix organization (GO:0030198)|heterotypic cell-cell adhesion (GO:0034113)|integrin-mediated signaling pathway (GO:0007229)|leukocyte tethering or rolling (GO:0050901)|multicellular organismal development (GO:0007275)|receptor clustering (GO:0043113)|regulation of immune response (GO:0050776)|substrate adhesion-dependent cell spreading (GO:0034446)|T cell migration (GO:0072678)	cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integrin alpha4-beta7 complex (GO:0034669)|integrin complex (GO:0008305)|membrane (GO:0016020)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	cell adhesion molecule binding (GO:0050839)|metal ion binding (GO:0046872)|virus receptor activity (GO:0001618)			NS(2)|breast(1)|kidney(2)|large_intestine(6)|lung(5)|ovary(3)|prostate(2)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	30						GTCCAAGCACTGGCAGCGGTT	0.597																																																0													117	95	102					12																	53586547		2203	4300	6503	SO:0001583	missense	3695				CCDS8849.1	12q13.1	2010-03-23				ENSG00000139626		"Integrins"	6162	protein-coding gene	gene with protein product		147559				2040616	Standard	XM_005268851		Approved		uc001scc.3	P26010		ENST00000267082.5:c.1874A>G	12.37:g.53586547T>C	ENSP00000267082:p.Gln625Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UCP7|Q9UCS7	Missense_Mutation	SNP	ENST00000267082.5	37	CCDS8849.1	.	.	.	.	.	.	.	.	.	.	T	13.89	2.372998	0.42105	.	.	ENSG00000139626	ENST00000422257;ENST00000267082	D;D	0.94046	-3.34;-3.34	5.13	5.13	0.70059	EGF, extracellular (1);	0.000000	0.40385	N	0.001119	D	0.87533	0.6201	N	0.20685	0.6	0.80722	D	1	P	0.40515	0.719	B	0.39258	0.295	D	0.86926	0.2070	10	0.30078	T	0.28	.	14.3146	0.66440	0.0:0.0:0.0:1.0	.	625	P26010	ITB7_HUMAN	R	625	ENSP00000408741:Q625R;ENSP00000267082:Q625R	ENSP00000267082:Q625R	Q	-	2	0	ITGB7	51872814	1.000000	0.71417	1.000000	0.80357	0.880000	0.50808	1.901000	0.39838	2.087000	0.62958	0.454000	0.30748	CAG		0.597	ITGB7-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405821.2			C	53586547	T	C	53586547	3	2	597	1	0	0	0	0	1	0	0	0	7907	1580	55	3	538	3	ITGB7	12	53586547	Missense_Mutation	SNP	T	TCGA-GL-6846-01A-11D-1961-08	30962743	53586547	80265348	56	35664										
TDG	6996	hgsc.bcm.edu	37	chr12	104378526	104378526	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tataaaatgttgtgattctaGctctgctatgttatgccatc	7	7	2	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr12:104378526G>T	ENST00000392872.3	+	8	1026		c.e8-1		TDG_ENST00000544861.1_Splice_Site|TDG_ENST00000266775.9_Splice_Site|AC078819.1_ENST00000401157.1_RNA|TDG_ENST00000542036.1_Splice_Site	NM_003211.4	NP_003202.3	Q13569	TDG_HUMAN	thymine-DNA glycosylase						base-excision repair (GO:0006284)|base-excision repair, AP site formation (GO:0006285)|chromatin modification (GO:0016568)|depyrimidination (GO:0045008)|DNA demethylation (GO:0080111)|DNA repair (GO:0006281)|embryo development (GO:0009790)|mismatch repair (GO:0006298)|negative regulation of chromatin binding (GO:0035562)|negative regulation of protein binding (GO:0032091)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of gene expression, epigenetic (GO:0040029)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|PML body (GO:0016605)	damaged DNA binding (GO:0003684)|DNA N-glycosylase activity (GO:0019104)|double-stranded DNA binding (GO:0003690)|mismatched DNA binding (GO:0030983)|protein homodimerization activity (GO:0042803)|pyrimidine-specific mismatch base pair DNA N-glycosylase activity (GO:0008263)|RNA polymerase II transcription cofactor activity (GO:0001104)|structure-specific DNA binding (GO:0043566)			large_intestine(2)|lung(14)|ovary(4)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)	24				BRCA - Breast invasive adenocarcinoma(302;0.00114)		TGTGATTCTAGCTCTGCTATG	0.323								Base excision repair (BER), DNA glycosylases																																								0													45	42	43					12																	104378526		2203	4300	6503	SO:0001630	splice_region_variant	6996			U51166	CCDS9095.1	12q24.1	2014-05-14			ENSG00000139372	ENSG00000139372	3.2.2.29		11700	protein-coding gene	gene with protein product	"G/T mismatch-specific thymine DNA glycosylase"	601423				8662714, 9299239	Standard	NM_003211		Approved		uc001tkg.3	Q13569	OTTHUMG00000168418	ENST00000392872.3:c.793-1G>T	12.37:g.104378526G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUZ6|Q8IZM3	Splice_Site	SNP	ENST00000392872.3	37	CCDS9095.1	.	.	.	.	.	.	.	.	.	.	G	21.1	4.099218	0.76983	.	.	ENSG00000139372	ENST00000392872;ENST00000266775;ENST00000544861;ENST00000542036	.	.	.	5.99	5.99	0.97316	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	20.4777	0.99188	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	TDG	102902656	1.000000	0.71417	1.000000	0.80357	0.785000	0.44390	9.869000	0.99810	2.840000	0.97914	0.655000	0.94253	.		0.323	TDG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399673.2		Intron	T	104378526	G	T	104378526	5	4	597	1	0	0	0	0	0	0	1	0	15737	985	34	4	822	4	TDG	12	104378526	Splice_Site	SNP	G	TCGA-GL-6846-01A-11D-1961-08	50791979	104378526	29473369	57	35665										
MTIF3	219402	ucsc.edu	37	chr13	28014392	28014392	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tattcttttttgtcttttttCcttcattctgggtgtcttca	5	8	6	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr13:28014392C>T	ENST00000381116.1	-	5	428	c.194G>A	c.(193-195)gGa>gAa	p.G65E	MTIF3_ENST00000431572.2_Missense_Mutation_p.G65E|MTIF3_ENST00000461838.1_5'UTR|MTIF3_ENST00000405591.2_Missense_Mutation_p.G65E|MTIF3_ENST00000381120.3_Missense_Mutation_p.G65E			Q9H2K0	IF3M_HUMAN	mitochondrial translational initiation factor 3	65					formation of translation initiation complex (GO:0001732)|regulation of translational initiation (GO:0006446)|ribosome disassembly (GO:0032790)	mitochondrion (GO:0005739)	ribosomal small subunit binding (GO:0043024)|translation factor activity, nucleic acid binding (GO:0008135)|translation initiation factor activity (GO:0003743)			endometrium(1)|large_intestine(1)|lung(2)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	7		Lung SC(185;0.0161)	Colorectal(13;0.00042)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.108)|OV - Ovarian serous cystadenocarcinoma(117;0.157)		TGTCTTTTTTCCTTCATTCTG	0.403																																																0													106	109	108					13																	28014392		2203	4300	6503	SO:0001583	missense	219402			BC046166	CCDS9322.1	13q12.2	2007-05-03			ENSG00000122033	ENSG00000122033			29788	protein-coding gene	gene with protein product						12095986	Standard	NM_152912		Approved	IF-3mt, IF3(mt)	uc001uri.3	Q9H2K0	OTTHUMG00000016633	ENST00000381116.1:c.194G>A	13.37:g.28014392C>T	ENSP00000370508:p.Gly65Glu	Somatic		WXS	Illumina HiSeq		Q05BL8|Q5W0V0|Q86X68	Missense_Mutation	SNP	ENST00000381116.1	37	CCDS9322.1	.	.	.	.	.	.	.	.	.	.	C	3.884	-0.025346	0.07589	.	.	ENSG00000122033	ENST00000431572;ENST00000405591;ENST00000381116;ENST00000381120	T;T;T;T	0.29917	1.55;1.55;1.55;1.55	5.82	-0.823	0.10815	.	0.504141	0.21766	N	0.069438	T	0.15912	0.0383	L	0.36672	1.1	0.09310	N	1	B	0.23806	0.091	B	0.19148	0.024	T	0.09357	-1.0678	10	0.32370	T	0.25	-6.0618	0.9703	0.01414	0.2413:0.3473:0.1435:0.2679	.	65	Q9H2K0	IF3M_HUMAN	E	65	ENSP00000400084:G65E;ENSP00000384659:G65E;ENSP00000370508:G65E;ENSP00000370512:G65E	ENSP00000370508:G65E	G	-	2	0	MTIF3	26912392	0.000000	0.05858	0.000000	0.03702	0.034000	0.12701	-2.094000	0.01351	0.048000	0.15891	0.655000	0.94253	GGA		0.403	MTIF3-010	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044300.1	NM_152912		T	28014392	C	T	28014392	3	4	597	1	0	0	0	0	1	0	0	0	9942	855	30	2	654	2	MTIF3	13	28014392	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08		28014392	87155486	58	35666										
FSCB	84075	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	44975261	44975261	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tgaactttaacagaattctcCgcaactgcagtggctgcctc	8	12	1	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr14:44975261C>T	ENST00000340446.4	-	1	1221	c.930G>A	c.(928-930)gcG>gcA	p.A310A	RP11-163M18.1_ENST00000555433.1_RNA|RP11-163M18.1_ENST00000557465.1_RNA|RP11-163M18.1_ENST00000556228.1_RNA	NM_032135.3	NP_115511.3	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	310						sperm fibrous sheath (GO:0035686)|sperm principal piece (GO:0097228)	calcium ion binding (GO:0005509)			breast(4)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(10)|lung(47)|ovary(2)|pancreas(1)|prostate(5)|skin(5)|stomach(2)|upper_aerodigestive_tract(4)|urinary_tract(1)	89				GBM - Glioblastoma multiforme(112;0.128)		CAGAATTCTCCGCAACTGCAG	0.527																																																0													48	51	50					14																	44975261		2203	4300	6503	SO:0001819	synonymous_variant	84075			AK124110	CCDS9679.1	14q21.3	2007-11-22	2007-11-22	2007-11-22	ENSG00000189139	ENSG00000189139			20494	protein-coding gene	gene with protein product		611779	"chromosome 14 open reading frame 155"	C14orf155		17855365	Standard	NM_032135		Approved	DKFZP434F1017	uc001wvn.3	Q5H9T9	OTTHUMG00000140262	ENST00000340446.4:c.930G>A	14.37:g.44975261C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5H9U7|Q86YI2|Q9H0J3	Silent	SNP	ENST00000340446.4	37	CCDS9679.1																																																																																				0.527	FSCB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276788.1	NM_032135		T	44975261	C	T	44975261	2	4	597	1	0	0	0	0	0	0	0	1	6073	639	23	1		1	FSCB	14	44975261	Silent	SNP	C	TCGA-GL-6846-01A-11D-1961-08		44975261	62374279	59	35667										
TDP1	55775	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	90429932	90429932	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	caggacatttgggacatgctGgataaagggaaccccttcca	11	10	0	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr14:90429932G>A	ENST00000335725.4	+	3	724	c.474G>A	c.(472-474)ctG>ctA	p.L158L	TDP1_ENST00000357382.3_5'UTR|TDP1_ENST00000555565.1_Intron|TDP1_ENST00000555880.1_Silent_p.L158L|TDP1_ENST00000393452.3_Silent_p.L158L|TDP1_ENST00000393454.2_Silent_p.L158L	NM_018319.3	NP_060789.2	Q9NUW8	TYDP1_HUMAN	tyrosyl-DNA phosphodiesterase 1	158					cell death (GO:0008219)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|single strand break repair (GO:0000012)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	3'-tyrosyl-DNA phosphodiesterase activity (GO:0017005)|double-stranded DNA binding (GO:0003690)|exonuclease activity (GO:0004527)|single-stranded DNA binding (GO:0003697)			NS(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(10)|ovary(3)|prostate(1)|urinary_tract(1)	25		all_cancers(154;0.185)		COAD - Colon adenocarcinoma(157;0.23)		GGGACATGCTGGATAAAGGGA	0.512								Repair of DNA-protein crosslinks																																								0													63	59	60					14																	90429932		2203	4300	6503	SO:0001819	synonymous_variant	55775			AF182002	CCDS9888.1	14q32.11	2008-08-11				ENSG00000042088			18884	protein-coding gene	gene with protein product		607198				11839309, 12244316	Standard	XM_005267847		Approved	FLJ11090, SCAN1	uc001xxz.3	Q9NUW8		ENST00000335725.4:c.474G>A	14.37:g.90429932G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2HXX4|Q86TV8|Q96BK7|Q9NZM7|Q9NZM8	Silent	SNP	ENST00000335725.4	37	CCDS9888.1																																																																																				0.512	TDP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411239.1	NM_018319		A	90429932	G	A	90429932	2	1	597	1	0	0	0	0	0	0	0	1	15740	1335	47	2		2	TDP1	14	90429932	Silent	SNP	G	TCGA-GL-6846-01A-11D-1961-08	45454671	90429932	16919608	60	35668										
LRRC49	54839	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	71341787	71341787	+	Missense_Mutation	SNP	G	G	A													0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	aattctgtaaaacatatataGaagaccttgtgaaggaagcc							TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr15:71341787G>A	ENST00000260382.5	+	16	2157	c.1897G>A	c.(1897-1899)Gaa>Aaa	p.E633K	LRRC49_ENST00000560158.2_Missense_Mutation_p.E321K|LRRC49_ENST00000560691.1_Missense_Mutation_p.E339K|LRRC49_ENST00000560369.1_Missense_Mutation_p.E638K|LRRC49_ENST00000443425.2_Missense_Mutation_p.E589K|LRRC49_ENST00000544974.2_Missense_Mutation_p.E623K|LRRC49_ENST00000436542.2_3'UTR	NM_001199017.1|NM_017691.3	NP_001185946.1|NP_060161.2	Q8IUZ0	LRC49_HUMAN	leucine rich repeat containing 49	633						cytoplasm (GO:0005737)|microtubule (GO:0005874)				breast(1)|central_nervous_system(1)|endometrium(4)|large_intestine(6)|lung(14)|ovary(2)|prostate(3)|skin(3)	34						AACATATATAGAAGACCTTGT	0.333																																																0													64	69	67					15																	71341787		2199	4297	6496	SO:0001583	missense	54839				CCDS32282.1, CCDS55971.1, CCDS58376.1, CCDS61694.1	15q23	2005-08-09				ENSG00000137821			25965	protein-coding gene	gene with protein product						12477932	Standard	NM_001199017		Approved	FLJ20156	uc010ukf.2	Q8IUZ0		ENST00000260382.5:c.1897G>A	15.37:g.71341787G>A	ENSP00000260382:p.Glu633Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVX1|B7Z366|F5H1J4|G5E9T5|H0YLN4|Q9NXM6	Missense_Mutation	SNP	ENST00000260382.5	37	CCDS32282.1	.	.	.	.	.	.	.	.	.	.	g	6.828	0.521874	0.13005	.	.	ENSG00000137821	ENST00000544974;ENST00000260382;ENST00000443425;ENST00000436542	T;T;T	0.32753	1.45;1.45;1.44	5.11	3.15	0.36227	.	0.337573	0.31381	N	0.007756	T	0.10637	0.0260	N	0.03608	-0.345	0.29353	N	0.865232	B;B;B;B;B	0.13145	0.0;0.001;0.001;0.0;0.007	B;B;B;B;B	0.15484	0.001;0.003;0.003;0.001;0.013	T	0.26780	-1.0093	10	0.08179	T	0.78	-16.1443	6.9842	0.24719	0.0981:0.2677:0.6342:0.0	.	638;605;589;633;623	B7Z366;G5E9Q1;G5E9T5;Q8IUZ0;F5H1J4	.;.;.;LRC49_HUMAN;.	K	623;633;589;605	ENSP00000439600:E623K;ENSP00000260382:E633K;ENSP00000414065:E589K	ENSP00000260382:E633K	E	+	1	0	LRRC49	69128841	0.993000	0.37304	0.824000	0.32777	0.939000	0.58152	2.570000	0.45981	1.386000	0.46466	0.655000	0.94253	GAA		0.333	LRRC49-006	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000417209.3	NM_017691		A	71341787	G	A	71341787	3	1	597	1	0	0	0	0	1	0	0	0	9013	943	33	2	1959	2	LRRC49	15	71341787	Missense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08		71341787	31189605	61	35669	273	2								
LRRC49	54839	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	71341790	71341790	+	Missense_Mutation	SNP	G	G	A													0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tctgtaaaacatatatagaaGaccttgtgaaggaagccaca							TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr15:71341790G>A	ENST00000260382.5	+	16	2160	c.1900G>A	c.(1900-1902)Gac>Aac	p.D634N	LRRC49_ENST00000560158.2_Missense_Mutation_p.D322N|LRRC49_ENST00000560691.1_Missense_Mutation_p.D340N|LRRC49_ENST00000560369.1_Missense_Mutation_p.D639N|LRRC49_ENST00000443425.2_Missense_Mutation_p.D590N|LRRC49_ENST00000544974.2_Missense_Mutation_p.D624N|LRRC49_ENST00000436542.2_3'UTR	NM_001199017.1|NM_017691.3	NP_001185946.1|NP_060161.2	Q8IUZ0	LRC49_HUMAN	leucine rich repeat containing 49	634						cytoplasm (GO:0005737)|microtubule (GO:0005874)				breast(1)|central_nervous_system(1)|endometrium(4)|large_intestine(6)|lung(14)|ovary(2)|prostate(3)|skin(3)	34						ATATATAGAAGACCTTGTGAA	0.333																																																0													68	73	72					15																	71341790		2199	4297	6496	SO:0001583	missense	54839				CCDS32282.1, CCDS55971.1, CCDS58376.1, CCDS61694.1	15q23	2005-08-09				ENSG00000137821			25965	protein-coding gene	gene with protein product						12477932	Standard	NM_001199017		Approved	FLJ20156	uc010ukf.2	Q8IUZ0		ENST00000260382.5:c.1900G>A	15.37:g.71341790G>A	ENSP00000260382:p.Asp634Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVX1|B7Z366|F5H1J4|G5E9T5|H0YLN4|Q9NXM6	Missense_Mutation	SNP	ENST00000260382.5	37	CCDS32282.1	.	.	.	.	.	.	.	.	.	.	g	12.82	2.053304	0.36181	.	.	ENSG00000137821	ENST00000544974;ENST00000260382;ENST00000443425;ENST00000436542	T;T;T	0.32753	1.44;1.45;1.44	5.11	5.11	0.69529	.	0.112225	0.64402	D	0.000019	T	0.33556	0.0867	N	0.17474	0.49	0.46149	D	0.998895	B;B;B;B;D	0.60575	0.036;0.061;0.061;0.036;0.988	B;B;B;B;P	0.60236	0.01;0.033;0.033;0.015;0.871	T	0.03463	-1.1034	10	0.16420	T	0.52	-22.4388	16.0724	0.80943	0.0:0.0:1.0:0.0	.	639;606;590;634;624	B7Z366;G5E9Q1;G5E9T5;Q8IUZ0;F5H1J4	.;.;.;LRC49_HUMAN;.	N	624;634;590;606	ENSP00000439600:D624N;ENSP00000260382:D634N;ENSP00000414065:D590N	ENSP00000260382:D634N	D	+	1	0	LRRC49	69128844	1.000000	0.71417	0.996000	0.52242	0.959000	0.62525	3.689000	0.54706	2.657000	0.90304	0.655000	0.94253	GAC		0.333	LRRC49-006	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000417209.3	NM_017691		A	71341790	G	A	71341790	3	1	597	1	0	0	0	0	1	0	0	0	9013	942	33	2	1962	2	LRRC49	15	71341790	Missense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08	3	71341790	31189602	62	35670	273	2								
SRRM2	23524	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	2814253	2814253	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	atgaagagttaatggaggtgGtagagaagtctgaagaaccc	14	4	1	5			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr16:2814253G>A	ENST00000301740.8	+	11	4273	c.3724G>A	c.(3724-3726)Gta>Ata	p.V1242I		NM_016333.3	NP_057417.3	Q9UQ35	SRRM2_HUMAN	serine/arginine repetitive matrix 2	1242	Ser-rich.				mRNA splicing, via spliceosome (GO:0000398)	Cajal body (GO:0015030)|catalytic step 2 spliceosome (GO:0071013)|nuclear speck (GO:0016607)|nucleus (GO:0005634)	C2H2 zinc finger domain binding (GO:0070742)|poly(A) RNA binding (GO:0044822)|protein N-terminus binding (GO:0047485)			breast(3)|central_nervous_system(1)|cervix(3)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(20)|lung(34)|ovary(6)|pancreas(3)|prostate(2)|skin(6)|upper_aerodigestive_tract(3)|urinary_tract(7)	105						AATGGAGGTGGTAGAGAAGTC	0.443																																																0													106	113	111					16																	2814253		2198	4300	6498	SO:0001583	missense	23524			AF201422	CCDS32373.1	16p13.3	2012-07-02			ENSG00000167978	ENSG00000167978			16639	protein-coding gene	gene with protein product		606032				10668804, 11004489	Standard	NM_016333		Approved	SRm300, SRL300, KIAA0324, Cwc21	uc002crk.3	Q9UQ35	OTTHUMG00000177358	ENST00000301740.8:c.3724G>A	16.37:g.2814253G>A	ENSP00000301740:p.Val1242Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB9|D3DU97|O15038|O94803|Q6NSL3|Q6PIM3|Q6PK40|Q8IW17|Q96GY7|Q9P0G1|Q9UHA8|Q9UQ36|Q9UQ37|Q9UQ38|Q9UQ40	Missense_Mutation	SNP	ENST00000301740.8	37	CCDS32373.1	.	.	.	.	.	.	.	.	.	.	G	3.875	-0.027037	0.07589	.	.	ENSG00000167978	ENST00000301740;ENST00000382301;ENST00000544933	T	0.24350	1.86	6.17	2.02	0.26589	.	0.793322	0.11547	N	0.553197	T	0.13713	0.0332	N	0.16478	0.41	0.09310	N	0.999996	B	0.06786	0.001	B	0.06405	0.002	T	0.33292	-0.9874	10	0.20519	T	0.43	0.1551	6.7948	0.23719	0.375:0.0:0.625:0.0	.	1242	Q9UQ35	SRRM2_HUMAN	I	1242;1242;494	ENSP00000301740:V1242I	ENSP00000301740:V1242I	V	+	1	0	SRRM2	2754254	0.001000	0.12720	0.868000	0.34077	0.982000	0.71751	-0.011000	0.12721	0.445000	0.26639	0.655000	0.94253	GTA		0.443	SRRM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000436411.1			A	2814253	G	A	2814253	3	1	597	1	0	0	0	0	1	0	0	0	15181	1261	44	2	3762	2	SRRM2	16	2814253	Missense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08		2814253	87540500	63	35671										
SRCAP	10847	broad.mit.edu	37	chr16	30735227	30735227	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	cctggacctccctccttggcAccatctggtgcttccccgtc	8	19	1	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr16:30735227A>C	ENST00000262518.4	+	25	4867	c.4482A>C	c.(4480-4482)gcA>gcC	p.A1494A	SRCAP_ENST00000395059.2_Silent_p.A1432A|SRCAP_ENST00000344771.4_Silent_p.A1336A	NM_006662.2	NP_006653.2	Q6ZRS2	SRCAP_HUMAN	Snf2-related CREBBP activator protein	1494	Pro-rich.			A -> Q (in Ref. 6; AAD39760). {ECO:0000305}.	histone acetylation (GO:0016573)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|protein complex (GO:0043234)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|histone acetyltransferase activity (GO:0004402)|transcription coactivator activity (GO:0003713)			NS(1)|breast(3)|cervix(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(22)|liver(3)|lung(62)|ovary(6)|pancreas(1)|prostate(4)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(5)	136			Colorectal(24;0.198)			CCTCCTTGGCACCATCTGGTG	0.587																																																0													113	102	106					16																	30735227		2197	4300	6497	SO:0001819	synonymous_variant	10847			AB002307	CCDS10689.2	16p11.2	2009-08-06			ENSG00000080603	ENSG00000080603			16974	protein-coding gene	gene with protein product	"Swi2/Snf2-related ATPase homolog (S. cerevisiae)", "domino homolog 1 (Drosophila)"	611421				10347196, 9205841	Standard	NM_006662		Approved	KIAA0309, EAF1, SWR1, DOMO1	uc002dze.1	Q6ZRS2	OTTHUMG00000132393	ENST00000262518.4:c.4482A>C	16.37:g.30735227A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B0JZA6|O15026|Q7Z744|Q9Y5L9	Silent	SNP	ENST00000262518.4	37	CCDS10689.2																																																																																				0.587	SRCAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255523.1	NM_006662		C	30735227	A	C	30735227	2	2	597	1	0	0	0	0	0	0	0	1	15147	146	6	5		5	SRCAP	16	30735227	Silent	SNP	A	TCGA-GL-6846-01A-11D-1961-08	27920974	30735227	59619526	64	35672										
C16orf86	388284	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	67702137	67702137	+	Nonsense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ctgcggccgctgtaccagtaCgtcaactattgcaaccctga	9	14	1	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr16:67702137C>G	ENST00000403458.4	+	4	743	c.588C>G	c.(586-588)taC>taG	p.Y196*	ENKD1_ENST00000602409.1_5'Flank|ENKD1_ENST00000602644.1_5'Flank|ENKD1_ENST00000243878.4_5'Flank	NM_001012984.2	NP_001013002.2	Q6ZW13	CP086_HUMAN	chromosome 16 open reading frame 86	196										endometrium(2)|lung(4)	6		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		TGTACCAGTACGTCAACTATT	0.667											OREG0023886	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													15	16	16					16																	67702137		2190	4293	6483	SO:0001587	stop_gained	388284				CCDS32468.2	16q22.1	2008-10-30			ENSG00000159761	ENSG00000159761			33755	protein-coding gene	gene with protein product							Standard	NM_001012984		Approved	FLJ41802	uc002ety.3	Q6ZW13	OTTHUMG00000150527	ENST00000403458.4:c.588C>G	16.37:g.67702137C>G	ENSP00000384117:p.Tyr196*	Somatic	1101	WXS	Illumina HiSeq	Phase_I	B5MCW6	Nonsense_Mutation	SNP	ENST00000403458.4	37	CCDS32468.2	.	.	.	.	.	.	.	.	.	.	C	32	5.154005	0.94645	.	.	ENSG00000159761	ENST00000403458	.	.	.	5.95	2.97	0.34412	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-6.8901	9.6968	0.40163	0.0:0.7838:0.0:0.2162	.	.	.	.	X	196	.	ENSP00000384117:Y196X	Y	+	3	2	C16orf86	66259638	0.998000	0.40836	1.000000	0.80357	0.972000	0.66771	0.259000	0.18405	0.426000	0.26116	0.563000	0.77884	TAC		0.667	C16orf86-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318767.2	NM_001012984		G	67702137	C	G	67702137	4	3	597	1	0	0	0	0	0	1	0	0	1841	547	19	4	602	4	C16orf86	16	67702137	Nonsense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08	36966910	67702137	22652616	65	35673										
CPNE7	27132	broad.mit.edu	37	chr16	89662976	89662976	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	acagccacagaggcctgcccCcgagaagcctgggtgtccct	12	16	0	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr16:89662976C>A	ENST00000268720.5	+	17	1979	c.1849C>A	c.(1849-1851)Ccg>Acg	p.P617T	CPNE7_ENST00000319518.8_Missense_Mutation_p.P542T|CPNE7_ENST00000566398.1_3'UTR	NM_014427.4	NP_055242.1	Q9UBL6	CPNE7_HUMAN	copine VII	617					lipid metabolic process (GO:0006629)|transport (GO:0006810)	extracellular vesicular exosome (GO:0070062)	transporter activity (GO:0005215)			breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(8)|ovary(2)	17		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)		AGGCCTGCCCCCGAGAAGCCT	0.667																																																0													53	54	53					16																	89662976		2197	4299	6496	SO:0001583	missense	27132			AJ133798	CCDS10980.1, CCDS10981.1	16q24.3	2008-07-03			ENSG00000178773	ENSG00000178773			2320	protein-coding gene	gene with protein product		605689					Standard	NM_014427		Approved		uc002fnq.3	Q9UBL6	OTTHUMG00000138051	ENST00000268720.5:c.1849C>A	16.37:g.89662976C>A	ENSP00000268720:p.Pro617Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000268720.5	37	CCDS10980.1	.	.	.	.	.	.	.	.	.	.	C	20.1	3.939497	0.73557	.	.	ENSG00000178773	ENST00000319518;ENST00000268720	T;T	0.33438	1.48;1.41	3.79	3.79	0.43588	.	0.000000	0.85682	D	0.000000	T	0.63200	0.2491	M	0.92026	3.265	0.58432	D	0.999999	D;D	0.89917	0.999;1.0	D;D	0.81914	0.983;0.995	T	0.75102	-0.3436	10	0.87932	D	0	-20.9241	15.6095	0.76704	0.0:1.0:0.0:0.0	.	542;617	Q9UBL6-2;Q9UBL6	.;CPNE7_HUMAN	T	542;617	ENSP00000317374:P542T;ENSP00000268720:P617T	ENSP00000268720:P617T	P	+	1	0	CPNE7	88190477	0.997000	0.39634	0.007000	0.13788	0.005000	0.04900	7.006000	0.76329	1.821000	0.53095	0.561000	0.74099	CCG		0.667	CPNE7-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000269929.2			A	89662976	C	A	89662976	3	1	597	1	0	0	0	0	1	0	0	0	3819	623	22	4	1915	4	CPNE7	16	89662976	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08	21960839	89662976	691777	66	35674										
C16orf7	9605	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	89775318	89775318	+	Frame_Shift_Del	DEL	G	G	-													0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tggggtgtggcctctggggtGgggcagtagtcttccgcaca							TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr16:89775318delG	ENST00000389386.3	-	13	1768	c.1644delC	c.(1642-1644)cccfs	p.P548fs	VPS9D1-AS1_ENST00000562866.1_RNA|VPS9D1_ENST00000565452.1_5'Flank|VPS9D1_ENST00000561976.1_Frame_Shift_Del_p.P478fs	NM_004913.2	NP_004904.2	Q9Y2B5	VP9D1_HUMAN	VPS9 domain containing 1	548	VPS9. {ECO:0000255|PROSITE- ProRule:PRU00550}.				ATP synthesis coupled proton transport (GO:0015986)		GTPase activator activity (GO:0005096)|transporter activity (GO:0005215)										CCTCTGGGGTGGGGCAGTAGT	0.682																																																0													13	16	15					16																	89775318		1928	4125	6053	SO:0001589	frameshift_variant	9605			AB018551	CCDS42220.1	16q24.3	2012-10-09	2012-10-09	2012-10-09	ENSG00000075399	ENSG00000075399			13526	protein-coding gene	gene with protein product			"chromosome 16 open reading frame 7"	C16orf7		10231027	Standard	NM_004913		Approved	ATP-BL	uc002fom.1	Q9Y2B5	OTTHUMG00000173219	ENST00000389386.3:c.1644delC	16.37:g.89775318delG	ENSP00000374037:p.Pro548fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000389386.3	37	CCDS42220.1																																																																																				0.682	VPS9D1-002	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000422508.1	NM_004913		-	89775318	G	-	89775318	7	5	597	1	0	1	0	1	0	0	0	0	1830	1335	47	0	263	0	C16orf7	16	89775318	Frame_Shift_Del	DEL	G	TCGA-GL-6846-01A-11D-1961-08	112342	89775318	579435	67	35675										
SCARF1	8578	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	1538231	1538231	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ccggaccgcttcctctggtcTgactgccataggccctgtgg	12	15	2	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr17:1538231T>C	ENST00000263071.4	-	11	2363	c.2314A>G	c.(2314-2316)Aga>Gga	p.R772G	SCARF1_ENST00000348987.3_Missense_Mutation_p.R686G|SCARF1_ENST00000571272.1_3'UTR	NM_003693.2|NM_145350.1	NP_003684.2|NP_663325.1	Q14162	SREC_HUMAN	scavenger receptor class F, member 1	772	Gly-rich.				cell adhesion (GO:0007155)|cholesterol catabolic process (GO:0006707)|dendrite development (GO:0016358)|neuron remodeling (GO:0016322)|positive regulation of axon regeneration (GO:0048680)|positive regulation of neuron projection development (GO:0010976)|receptor-mediated endocytosis (GO:0006898)|signal transduction (GO:0007165)	endocytic vesicle membrane (GO:0030666)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	low-density lipoprotein particle binding (GO:0030169)|scavenger receptor activity (GO:0005044)|transmembrane signaling receptor activity (GO:0004888)			cervix(1)|endometrium(3)|kidney(2)|lung(9)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	20				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		TCCTCTGGTCTGACTGCCATA	0.657																																																0													34	39	37					17																	1538231		2203	4298	6501	SO:0001583	missense	8578			D63483	CCDS11007.1, CCDS45564.1	17p13.3	2008-07-18			ENSG00000074660	ENSG00000074660			16820	protein-coding gene	gene with protein product	"scavenger receptor expressed by endothelial cells", "acetyl LDL receptor"	607873				9395444, 8590280	Standard	NM_003693		Approved	SREC, KIAA0149	uc002fsz.2	Q14162	OTTHUMG00000090555	ENST00000263071.4:c.2314A>G	17.37:g.1538231T>C	ENSP00000263071:p.Arg772Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MQ05|O43701|Q8NHD2|Q8NHD3|Q8NHD4|Q8NHD5	Missense_Mutation	SNP	ENST00000263071.4	37	CCDS11007.1	.	.	.	.	.	.	.	.	.	.	t	9.073	0.997418	0.19043	.	.	ENSG00000074660	ENST00000263071;ENST00000348987	T;T	0.20463	2.07;2.77	4.68	-1.08	0.09936	.	0.960477	0.08537	N	0.931174	T	0.08980	0.0222	N	0.03608	-0.345	0.09310	N	1	B;B	0.06786	0.001;0.0	B;B	0.06405	0.002;0.001	T	0.38993	-0.9635	10	0.24483	T	0.36	-2.2932	9.7539	0.40492	0.0:0.3094:0.0:0.6906	.	686;772	Q14162-2;Q14162	.;SREC_HUMAN	G	772;686	ENSP00000263071:R772G;ENSP00000323964:R686G	ENSP00000263071:R772G	R	-	1	2	SCARF1	1484981	0.000000	0.05858	0.004000	0.12327	0.092000	0.18411	-0.431000	0.06965	-0.332000	0.08489	0.450000	0.29827	AGA		0.657	SCARF1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000207081.4	NM_003693		C	1538231	T	C	1538231	3	2	597	1	0	0	0	0	1	0	0	0	13896	1588	55	3	182	3	SCARF1	17	1538231	Missense_Mutation	SNP	T	TCGA-GL-6846-01A-11D-1961-08		1538231	79656979	68	35676										
CAMKK1	84254	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	3788622	3788622	+	Splice_Site	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	cctcgttctgccccaccaacCtctgcatctgagatggccac	7	18	3	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr17:3788622C>G	ENST00000348335.2	-	2	508	c.360G>C	c.(358-360)gaG>gaC	p.E120D	CAMKK1_ENST00000158166.5_Splice_Site_p.E120D|CAMKK1_ENST00000381771.2_Splice_Site_p.E120D|CAMKK1_ENST00000381769.2_Splice_Site_p.E147D	NM_032294.2	NP_115670.1	Q8N5S9	KKCC1_HUMAN	calcium/calmodulin-dependent protein kinase kinase 1, alpha	120					synaptic transmission (GO:0007268)	cytosol (GO:0005829)|nucleus (GO:0005634)	ATP binding (GO:0005524)|calmodulin-dependent protein kinase activity (GO:0004683)			NS(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(4)|ovary(1)	11				LUAD - Lung adenocarcinoma(2;2.11e-05)|Lung(3;0.0176)		CCCCACCAACCTCTGCATCTG	0.622																																																0													12	15	14					17																	3788622		2182	4265	6447	SO:0001630	splice_region_variant	84254			AL136576	CCDS11038.1, CCDS11039.1	17p13.3	2004-02-18			ENSG00000004660	ENSG00000004660			1469	protein-coding gene	gene with protein product		611411				11230166	Standard	NM_172207		Approved	DKFZp761M0423, CAMKKA, MGC34095	uc002fwt.3	Q8N5S9	OTTHUMG00000090725	ENST00000348335.2:c.360+1G>C	17.37:g.3788622C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BQH3	Missense_Mutation	SNP	ENST00000348335.2	37	CCDS11038.1	.	.	.	.	.	.	.	.	.	.	C	11.57	1.677258	0.29783	.	.	ENSG00000004660	ENST00000381769;ENST00000348335;ENST00000381771;ENST00000158166	T;T;T;T	0.50548	0.74;0.74;0.74;0.74	5.57	5.57	0.84162	Protein kinase-like domain (1);	0.246503	0.41938	D	0.000799	T	0.31513	0.0799	N	0.19112	0.55	0.44316	D	0.997194	B;B	0.13145	0.007;0.002	B;B	0.14578	0.011;0.005	T	0.11494	-1.0585	9	.	.	.	-39.5364	12.0428	0.53462	0.1724:0.8276:0.0:0.0	.	120;120	F8W9H1;Q8N5S9	.;KKCC1_HUMAN	D	147;120;120;120	ENSP00000371188:E147D;ENSP00000323118:E120D;ENSP00000371190:E120D;ENSP00000158166:E120D	.	E	-	3	2	CAMKK1	3735371	1.000000	0.71417	1.000000	0.80357	0.832000	0.47134	2.413000	0.44618	2.632000	0.89209	0.491000	0.48974	GAG		0.622	CAMKK1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207456.1	NM_032294, NM_172206, NM_172207	Missense_Mutation	G	3788622	C	G	3788622	5	3	597	1	0	0	0	0	0	0	1	0	2608	695	24	4	1339	4	CAMKK1	17	3788622	Splice_Site	SNP	C	TCGA-GL-6846-01A-11D-1961-08	2250391	3788622	77406588	69	35677										
ZNF232	7775	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	5009512	5009512	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tggacaacaagatgtgagttAtaaatgaaggttttaccaca	9	5	0	3			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr17:5009512A>G	ENST00000250076.3	-	5	1596	c.942T>C	c.(940-942)taT>taC	p.Y314Y	ZNF232_ENST00000575538.1_5'Flank|ZNF232_ENST00000416429.2_3'UTR|ZNF232_ENST00000575898.1_Silent_p.Y305Y	NM_014519.2	NP_055334.2	Q9UNY5	ZN232_HUMAN	zinc finger protein 232	287					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			kidney(1)|large_intestine(2)|liver(1)|lung(4)|ovary(1)|prostate(2)	11						GATGTGAGTTATAAATGAAGG	0.428																																																0													111	110	111					17																	5009512		2203	4300	6503	SO:0001819	synonymous_variant	7775			AF080169	CCDS11068.1	17p13.2	2013-01-09			ENSG00000167840	ENSG00000167840		"-", "Zinc fingers, C2H2-type"	13026	protein-coding gene	gene with protein product						11311944	Standard	NM_014519		Approved	ZSCAN11	uc002gat.3	Q9UNY5	OTTHUMG00000099450	ENST00000250076.3:c.942T>C	17.37:g.5009512A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000250076.3	37	CCDS11068.1																																																																																				0.428	ZNF232-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216915.1	NM_014519		G	5009512	A	G	5009512	2	3	597	1	0	0	0	0	0	0	0	1	17797	456	16	3		3	ZNF232	17	5009512	Silent	SNP	A	TCGA-GL-6846-01A-11D-1961-08	1220890	5009512	76185698	70	35678										
POLDIP2	147007	broad.mit.edu	37	chr17	26684350	26684351	+	5'Flank	DNP	GC	GC	AT													0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tccgcgtcgtcgtggtcgacGctggcgagaaggctccagct							TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr17:26684350_26684351GC>AT	ENST00000292114.3	+	0	0				POLDIP2_ENST00000540200.1_Missense_Mutation_p.A41M|CTB-96E2.3_ENST00000591482.1_RNA|TMEM199_ENST00000395404.3_5'Flank|POLDIP2_ENST00000003607.4_5'UTR|TMEM199_ENST00000509083.1_5'Flank	NM_152464.1	NP_689677.1	Q8N511	TM199_HUMAN	transmembrane protein 199							integral component of membrane (GO:0016021)				endometrium(1)|kidney(2)|large_intestine(1)|lung(2)	6	all_lung(13;0.000354)|Lung NSC(42;0.00115)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		CGTGGTCGACGCTGGCGAGAAG	0.738																																																0																																										SO:0001631	upstream_gene_variant	26073			AY074907	CCDS11228.1	17q11.2	2007-12-17	2007-12-17	2007-12-17	ENSG00000244045	ENSG00000244045			18085	protein-coding gene	gene with protein product			"chromosome 17 open reading frame 32"	C17orf32			Standard	NM_152464		Approved	MGC45714	uc002hba.3	Q8N511	OTTHUMG00000132498	Exception_encountered	17.37:g.26684350_26684351delinsAT	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	DNP	ENST00000292114.3	37	CCDS11228.1																																																																																				0.738	TMEM199-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255676.2	NM_152464		AT	26684351	GC	AT	26684350	1	1	597	0	1	0	0	0	0	0	0	0	12201	1087	38	1		1	POLDIP2	17	26684350	5'Flank	DNP	GC	TCGA-GL-6846-01A-11D-1961-08	21674838	26684350	54510860	71	35679										
SLC13A2	9058	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	26818545	26818545	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ccacctcacccagtgcatgaGcctgtgcgtgtgctactccg	10	16	1	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr17:26818545G>A	ENST00000314669.5	+	5	1085	c.665G>A	c.(664-666)aGc>aAc	p.S222N	SLC13A2_ENST00000537681.1_Missense_Mutation_p.S151N|SLC13A2_ENST00000444914.3_Missense_Mutation_p.S271N|SLC13A2_ENST00000545060.1_Missense_Mutation_p.S179N	NM_003984.3	NP_003975.1	Q13183	S13A2_HUMAN	solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2	222					dicarboxylic acid transport (GO:0006835)|transmembrane transport (GO:0055085)|transport (GO:0006810)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	low-affinity sodium:dicarboxylate symporter activity (GO:0015361)			breast(2)|endometrium(2)|kidney(1)|large_intestine(8)|lung(10)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	26	all_lung(13;0.000871)|Lung NSC(42;0.0027)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)	Succinic acid(DB00139)	CAGTGCATGAGCCTGTGCGTG	0.617																																																0													69	64	66					17																	26818545		2203	4300	6503	SO:0001583	missense	9058			U26209	CCDS11231.1, CCDS54098.1	17p13.2	2013-05-22			ENSG00000007216	ENSG00000007216		"Solute carriers"	10917	protein-coding gene	gene with protein product		604148				8967342, 10343111	Standard	NM_001145975		Approved	NaDC-1	uc010wan.2	Q13183	OTTHUMG00000132523	ENST00000314669.5:c.665G>A	17.37:g.26818545G>A	ENSP00000316202:p.Ser222Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBI9|B4DPL1|E7ETH5|Q4VAR7	Missense_Mutation	SNP	ENST00000314669.5	37	CCDS11231.1	.	.	.	.	.	.	.	.	.	.	G	13.53	2.265898	0.40095	.	.	ENSG00000007216	ENST00000314669;ENST00000444914;ENST00000545060;ENST00000541739;ENST00000537681	T;T;T;T	0.03124	4.04;4.04;4.04;4.04	5.62	4.63	0.57726	.	0.200462	0.64402	D	0.000010	T	0.14227	0.0344	M	0.81341	2.54	0.42186	D	0.991709	D;B;B;B;B	0.65815	0.995;0.007;0.041;0.138;0.041	P;B;B;B;B	0.62560	0.904;0.098;0.081;0.073;0.081	T	0.01621	-1.1310	10	0.35671	T	0.21	-13.5366	9.6615	0.39958	0.0762:0.413:0.5108:0.0	.	179;271;178;151;222	F5GWV6;E7ETH5;B4E1M6;G3V1L2;Q13183	.;.;.;.;S13A2_HUMAN	N	222;271;179;178;151	ENSP00000316202:S222N;ENSP00000392411:S271N;ENSP00000441935:S179N;ENSP00000440802:S151N	ENSP00000316202:S222N	S	+	2	0	SLC13A2	23842672	1.000000	0.71417	1.000000	0.80357	0.705000	0.40729	2.293000	0.43558	1.346000	0.45694	0.557000	0.71058	AGC		0.617	SLC13A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255722.1	NM_003984		A	26818545	G	A	26818545	3	1	597	1	0	0	0	0	1	0	0	0	14405	971	34	2	830	2	SLC13A2	17	26818545	Missense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08	134195	26818545	54376665	72	35680										
SPAG5	10615	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	26919846	26919846	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	caaatatcatgtcttgttgcTgccccagtggagatggtaca	10	9	2	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr17:26919846T>C	ENST00000321765.5	-	3	748	c.416A>G	c.(415-417)cAg>cGg	p.Q139R		NM_006461.3	NP_006452.3	Q96R06	SPAG5_HUMAN	sperm associated antigen 5	139					chromosome segregation (GO:0007059)|mitotic sister chromatid segregation (GO:0000070)|regulation of attachment of spindle microtubules to kinetochore (GO:0051988)|spindle organization (GO:0007051)	cytoplasm (GO:0005737)|kinetochore (GO:0000776)|microtubule plus-end (GO:0035371)|mitotic spindle (GO:0072686)				NS(1)|breast(3)|central_nervous_system(1)|endometrium(5)|kidney(4)|large_intestine(8)|lung(17)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	43	Lung NSC(42;0.00431)					GTCTTGTTGCTGCCCCAGTGG	0.453																																																0													190	176	180					17																	26919846		2203	4300	6503	SO:0001583	missense	10615			AF063308	CCDS32594.1	17q11.2	2008-07-18			ENSG00000076382	ENSG00000076382			13452	protein-coding gene	gene with protein product	"mitotic spindle coiled-coil related protein", "astrin", "mitotic spindle associated protein p126"	615562				11549262	Standard	NM_006461		Approved	DEEPEST, MAP126, hMAP126	uc002hbq.3	Q96R06	OTTHUMG00000166586	ENST00000321765.5:c.416A>G	17.37:g.26919846T>C	ENSP00000323300:p.Gln139Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O95213|Q9BWE8|Q9NT17|Q9UFE6	Missense_Mutation	SNP	ENST00000321765.5	37	CCDS32594.1	.	.	.	.	.	.	.	.	.	.	T	6.118	0.390021	0.11581	.	.	ENSG00000076382	ENST00000321765	T	0.25912	1.77	5.94	2.35	0.29111	.	0.760636	0.11855	N	0.522906	T	0.23210	0.0561	M	0.67953	2.075	0.25392	N	0.988515	P	0.49090	0.919	B	0.39738	0.308	T	0.32322	-0.9911	10	0.87932	D	0	-0.1373	3.1967	0.06635	0.1858:0.187:0.0:0.6271	.	139	Q96R06	SPAG5_HUMAN	R	139	ENSP00000323300:Q139R	ENSP00000323300:Q139R	Q	-	2	0	SPAG5	23943973	0.917000	0.31117	0.981000	0.43875	0.152000	0.21847	0.898000	0.28404	1.069000	0.40788	0.533000	0.62120	CAG		0.453	SPAG5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390564.2	NM_006461		C	26919846	T	C	26919846	3	2	597	1	0	0	0	0	1	0	0	0	14994	1580	55	3	3253	3	SPAG5	17	26919846	Missense_Mutation	SNP	T	TCGA-GL-6846-01A-11D-1961-08	101301	26919846	54275364	73	35681										
FAM20A	54757	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	66538845	66538846	+	Frame_Shift_Del	DEL	AA	AA	-													0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	agtactctacctggagagacAaagaaaacactctgcaggat							TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr17:66538845_66538846delAA	ENST00000592554.1	-	6	1639_1640	c.917_918delTT	c.(916-918)tttfs	p.F306fs	AC079210.1_ENST00000600820.1_5'Flank|PRKAR1A_ENST00000588188.2_Intron|FAM20A_ENST00000226094.5_5'UTR	NM_001243746.1|NM_017565.3	NP_001230675.1|NP_060035.2	Q96MK3	FA20A_HUMAN	family with sequence similarity 20, member A	306					calcium ion homeostasis (GO:0055074)|enamel mineralization (GO:0070166)|tooth eruption (GO:0044691)	cell (GO:0005623)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)				cervix(1)|endometrium(1)|large_intestine(3)|lung(2)|prostate(1)|stomach(1)	9	Breast(10;1.64e-13)					CTGGAGAGACAAAGAAAACACT	0.525																																																0																																										SO:0001589	frameshift_variant	54757			AK056789	CCDS11679.1	17q24.2	2014-02-07			ENSG00000108950	ENSG00000108950			23015	protein-coding gene	gene with protein product		611062					Standard	NM_017565		Approved	DKFZp434F2322	uc002jho.3	Q96MK3	OTTHUMG00000180152	ENST00000592554.1:c.917_918delTT	17.37:g.66538845_66538846delAA	ENSP00000468308:p.Phe306fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN47|B2RN49|Q9UF95	Frame_Shift_Del	DEL	ENST00000592554.1	37	CCDS11679.1																																																																																				0.525	FAM20A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450029.2	NM_017565		-	66538846	AA	-	66538845	7	5	597	1	0	1	0	1	0	0	0	0	5541	127	5	0	731	0	FAM20A	17	66538845	Frame_Shift_Del	DEL	AA	TCGA-GL-6846-01A-11D-1961-08	39618999	66538845	14656365	74	35682										
UNC13D	201294	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	73831766	73831766	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	cgcagctggcagagctccttGaggctgatgtagagctggaa	15	9	0	4			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr17:73831766G>T	ENST00000207549.4	-	19	2068	c.1689C>A	c.(1687-1689)ctC>ctA	p.L563L	UNC13D_ENST00000412096.2_Silent_p.L563L	NM_199242.2	NP_954712.1	Q70J99	UN13D_HUMAN	unc-13 homolog D (C. elegans)	563	MHD1. {ECO:0000255|PROSITE- ProRule:PRU00587}.				defense response to virus (GO:0051607)|germinal center formation (GO:0002467)|granuloma formation (GO:0002432)|natural killer cell degranulation (GO:0043320)|phagocytosis (GO:0006909)|positive regulation of exocytosis (GO:0045921)|regulation of mast cell degranulation (GO:0043304)	endosome (GO:0005768)|exocytic vesicle (GO:0070382)|lysosome (GO:0005764)|membrane (GO:0016020)				central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(9)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29			all cancers(21;2.11e-06)|Epithelial(20;2.32e-06)|BRCA - Breast invasive adenocarcinoma(9;0.000618)|LUSC - Lung squamous cell carcinoma(166;0.154)			AGAGCTCCTTGAGGCTGATGT	0.637									Familial Hemophagocytic Lymphohistiocytosis																																							0													41	38	39					17																	73831766		2203	4300	6503	SO:0001819	synonymous_variant	201294	Familial Cancer Database	FHLH, FHL, Familial Hemophagocytic Reticulosis, FHR	AK024474	CCDS11730.1	17q25.3	2014-09-17				ENSG00000092929			23147	protein-coding gene	gene with protein product		608897					Standard	NM_199242		Approved	Munc13-4	uc002jpp.3	Q70J99		ENST00000207549.4:c.1689C>A	17.37:g.73831766G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DWG9|Q9H7K5	Silent	SNP	ENST00000207549.4	37	CCDS11730.1																																																																																				0.637	UNC13D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000448847.2	XM_113950		T	73831766	G	T	73831766	2	4	597	1	0	0	0	0	0	0	0	1	16999	1277	45	4		4	UNC13D	17	73831766	Silent	SNP	G	TCGA-GL-6846-01A-11D-1961-08	7292921	73831766	7363444	75	35683										
CTAGE1	64693	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	19997258	19997258	+	5'Flank	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ttgtatttctatctccaaccGttcttcattcgcttgaaatc	4	11	4	1	rs372127240		TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr18:19997258G>A	ENST00000525417.1	-	0	0				CTAGE1_ENST00000391403.2_Missense_Mutation_p.R173W			Q9HC47	CTGE1_HUMAN	cutaneous T-cell lymphoma-associated antigen 1							integral component of membrane (GO:0016021)				cervix(1)|endometrium(2)|kidney(3)|large_intestine(1)|lung(19)|ovary(1)	27	all_cancers(21;0.000361)|all_epithelial(16;9.61e-06)|Colorectal(14;0.0533)|Lung NSC(20;0.0605)|Ovarian(2;0.116)|all_lung(20;0.135)					ATCTCCAACCGTTCTTCATTC	0.388																																																0								G	TRP/ARG	0,4314		0,0,2157	95	100	99		517	0.9	0	18		99	2,8574		0,2,4286	no	missense	CTAGE1	NM_172241.2	101	0,2,6443	AA,AG,GG		0.0233,0.0,0.0155	probably-damaging	173/746	19997258	2,12888	2157	4288	6445	SO:0001631	upstream_gene_variant	64693			AF177229	CCDS45837.1	18q11.2	2010-05-26			ENSG00000212710	ENSG00000212710			24346	protein-coding gene	gene with protein product	"cutaneous T-cell lymphoma-associated antigen 1", "cutaneous T-cell lymphoma-associated antigen 2", "cancer/testis antigen family 21, member 1", "cancer/testis antigen family 21, member 2"	608856				11149944, 12839582	Standard	NM_172241		Approved	cTAGE-1, cTAGE-2, CTAGE, CT21.1, CT21.2	uc002ktv.1	Q96RT6			18.37:g.19997258G>A	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	B0YIZ3	Missense_Mutation	SNP	ENST00000525417.1	37		.	.	.	.	.	.	.	.	.	.	G	12.14	1.849249	0.32699	0.0	2.33E-4	ENSG00000212710	ENST00000391403	T	0.29655	1.56	0.909	0.909	0.19332	.	.	.	.	.	T	0.47581	0.1453	M	0.78637	2.42	0.09310	N	1	D	0.76494	0.999	D	0.64321	0.924	T	0.22941	-1.0202	8	.	.	.	.	5.2011	0.15264	0.0:0.0:1.0:0.0	.	173	Q96RT6	CTGE2_HUMAN	W	173	ENSP00000375220:R173W	.	R	-	1	2	CTAGE1	18251256	0.980000	0.34600	0.003000	0.11579	0.004000	0.04260	0.579000	0.23788	0.776000	0.33473	0.449000	0.29647	CGG		0.388	CTAGE1-002	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000386767.1	NM_022663, NM_172241		A	19997258	G	A	19997258	1	1	597	0	1	0	0	0	0	0	0	0	3994	1144	40	1		1	CTAGE1	18	19997258	5'Flank	SNP	G	TCGA-GL-6846-01A-11D-1961-08		19997258	58079990	76	35684										
HNRNPM	4670	ucsc.edu	37	chr19	8527467	8527467	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	cgctgaaggaaagtcaagggTaagtgtctgagagaatttct	13	5	3	3			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr19:8527467T>G	ENST00000325495.4	+	3	377		c.e3+2		HNRNPM_ENST00000348943.3_Splice_Site	NM_005968.4	NP_005959.2	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M						alternative mRNA splicing, via spliceosome (GO:0000380)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|extracellular matrix (GO:0031012)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|paraspeckles (GO:0042382)|spliceosomal complex (GO:0005681)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein domain specific binding (GO:0019904)|RNA binding (GO:0003723)			endometrium(5)|kidney(2)|large_intestine(7)|lung(10)|ovary(1)	25						AAGTCAAGGGTAAGTGTCTGA	0.428																																																0													241	220	227					19																	8527467		2203	4300	6503	SO:0001630	splice_region_variant	4670			L03532	CCDS12203.1, CCDS12204.1	19p13.2	2013-06-12		2008-04-18	ENSG00000099783	ENSG00000099783		"RNA binding motif (RRM) containing"	5046	protein-coding gene	gene with protein product	"CEA receptor"	160994		NAGR1, HNRPM		8441656, 7558047	Standard	NM_005968		Approved	HTGR1, HNRNPM4, HNRPM4, CEAR	uc010dwe.3	P52272	OTTHUMG00000182383	ENST00000325495.4:c.336+2T>G	19.37:g.8527467T>G		Somatic		WXS	Illumina HiSeq		Q15584|Q8WZ44|Q96H56|Q9BWL9|Q9Y492	Splice_Site	SNP	ENST00000325495.4	37	CCDS12203.1	.	.	.	.	.	.	.	.	.	.	T	18.24	3.580056	0.65992	.	.	ENSG00000099783	ENST00000325495;ENST00000348943	.	.	.	5.82	5.82	0.92795	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.0018	0.71479	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	HNRNPM	8433467	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.698000	0.84413	2.225000	0.72522	0.459000	0.35465	.		0.428	HNRNPM-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000460894.1		Intron	G	8527467	T	G	8527467	5	3	597	1	0	0	0	0	0	0	1	0	7278	1652	57	5	348	5	HNRNPM	19	8527467	Splice_Site	SNP	T	TCGA-GL-6846-01A-11D-1961-08		8527467	50601516	77	35685										
ZNF20	7568	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	12246707	12246707	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	cacatcctcaaaggccactgAatcctgaaacatctcacata	4	14	2	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr19:12246707A>C	ENST00000334213.5	-	2	240	c.16T>G	c.(16-18)Tca>Gca	p.S6A	ZNF20_ENST00000600335.1_Missense_Mutation_p.S3A|ZNF625-ZNF20_ENST00000430024.1_3'UTR|ZNF20_ENST00000485451.1_5'UTR	NM_001203250.1|NM_021143.3	NP_001190179.1|NP_066966.2	P17024	ZNF20_HUMAN	zinc finger protein 20	6					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|kidney(1)|lung(6)	8						AAGGCCACTGAATCCTGAAAC	0.468																																																0													58	59	59					19																	12246707		2201	4300	6501	SO:0001583	missense	7568			X52344	CCDS45986.1	19p13.2	2013-01-08	2006-05-10		ENSG00000132010	ENSG00000132010		"Zinc fingers, C2H2-type", "-"	12992	protein-coding gene	gene with protein product		194557	"zinc finger protein 20 (KOX 13)"				Standard	NM_021143		Approved	KOX13	uc002mtf.2	P17024	OTTHUMG00000156409	ENST00000334213.5:c.16T>G	19.37:g.12246707A>C	ENSP00000335437:p.Ser6Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N457|Q9UG41	Missense_Mutation	SNP	ENST00000334213.5	37	CCDS45986.1	.	.	.	.	.	.	.	.	.	.	A	7.853	0.724490	0.15439	.	.	ENSG00000132010	ENST00000334213;ENST00000292241;ENST00000418866	T;T	0.00840	5.63;5.63	0.94	-0.185	0.13276	Krueppel-associated box (1);	.	.	.	.	T	0.01092	0.0036	M	0.76328	2.33	0.09310	N	0.999999	P	0.41080	0.737	B	0.33846	0.171	T	0.44636	-0.9315	9	0.23302	T	0.38	.	2.9313	0.05800	0.6786:0.0:0.3214:0.0	.	6	P17024	ZNF20_HUMAN	A	6;6;3	ENSP00000335437:S6A;ENSP00000390115:S3A	ENSP00000292241:S6A	S	-	1	0	ZNF20	12107707	0.000000	0.05858	0.171000	0.22900	0.055000	0.15305	-1.356000	0.02609	-0.137000	0.11455	0.260000	0.18958	TCA		0.468	ZNF20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344101.1	NM_021143		C	12246707	A	C	12246707	3	2	597	1	0	0	0	0	1	0	0	0	17773	246	9	5	1594	5	ZNF20	19	12246707	Missense_Mutation	SNP	A	TCGA-GL-6846-01A-11D-1961-08	3719240	12246707	46882276	78	35686										
LGI4	163175	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	35617247	35617247	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ggaagtggcgtgtggcatagAcatcctcggcctcggggatg	17	9	0	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr19:35617247A>G	ENST00000310123.3	-	8	1745	c.1226T>C	c.(1225-1227)gTc>gCc	p.V409A	LGI4_ENST00000392225.3_Missense_Mutation_p.S435P|LGI4_ENST00000493050.1_5'UTR	NM_139284.2	NP_644813.1	Q8N135	LGI4_HUMAN	leucine-rich repeat LGI family, member 4	409					adult locomotory behavior (GO:0008344)|glial cell proliferation (GO:0014009)|myelination in peripheral nervous system (GO:0022011)|neuron maturation (GO:0042551)	extracellular space (GO:0005615)				endometrium(1)|large_intestine(1)|lung(4)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	10	all_lung(56;7.56e-09)|Lung NSC(56;1.1e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.54e-20)|OV - Ovarian serous cystadenocarcinoma(14;1.33e-18)|all cancers(14;4.27e-17)|LUSC - Lung squamous cell carcinoma(66;0.0849)			TGTGGCATAGACATCCTCGGC	0.682																																																0													35	32	33					19																	35617247		2203	4300	6503	SO:0001583	missense	163175			AJ487519	CCDS12444.1	19q13.13	2008-07-03			ENSG00000153902	ENSG00000153902			18712	protein-coding gene	gene with protein product		608303				12023020	Standard	NM_139284		Approved		uc002nxx.2	Q8N135	OTTHUMG00000044558	ENST00000310123.3:c.1226T>C	19.37:g.35617247A>G	ENSP00000312273:p.Val409Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN53|B9EGS7|Q5M8T1	Missense_Mutation	SNP	ENST00000310123.3	37	CCDS12444.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	21.1|21.1	4.097418|4.097418	0.76870|0.76870	.|.	.|.	ENSG00000153902|ENSG00000153902	ENST00000392225|ENST00000310123;ENST00000437421	T|T	0.68331|0.78595	-0.32|-1.19	4.66|4.66	4.66|4.66	0.58398|0.58398	.|.	.|0.000000	.|0.52532	.|D	.|0.000079	D|D	0.84261|0.84261	0.5433|0.5433	L|L	0.58583|0.58583	1.82|1.82	0.80722|0.80722	D|D	1|1	.|D;D	.|0.76494	.|0.999;0.999	.|D;D	.|0.85130	.|0.997;0.997	T|T	0.83349|0.83349	-0.0004|-0.0004	7|10	0.87932|0.37606	D|T	0|0.19	.|.	12.0653|12.0653	0.53583|0.53583	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	.|320;409	.|Q658V8;Q8N135	.|.;LGI4_HUMAN	P|A	435|409	ENSP00000376059:S435P|ENSP00000312273:V409A	ENSP00000376059:S435P|ENSP00000312273:V409A	S|V	-|-	1|2	0|0	LGI4|LGI4	40309087|40309087	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.996000|0.996000	0.88848|0.88848	7.386000|7.386000	0.79775|0.79775	1.745000|1.745000	0.51790|0.51790	0.477000|0.477000	0.44152|0.44152	TCT|GTC		0.682	LGI4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000103963.1			G	35617247	A	G	35617247	3	3	597	1	0	0	0	0	1	0	0	0	8761	275	10	3	395	3	LGI4	19	35617247	Missense_Mutation	SNP	A	TCGA-GL-6846-01A-11D-1961-08	23370540	35617247	23511736	79	35687										
ZNF546	339327	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	40520846	40520846	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	agaaaccctatgaatgtaagGaatgtgggaaggcttttatt	11	4	0	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr19:40520846G>A	ENST00000347077.4	+	7	1885	c.1669G>A	c.(1669-1671)Gaa>Aaa	p.E557K	ZNF546_ENST00000596894.1_Intron|ZNF546_ENST00000600094.1_Missense_Mutation_p.E531K	NM_178544.3	NP_848639.2	Q86UE3	ZN546_HUMAN	zinc finger protein 546	557					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(15)|lung(6)|ovary(3)|skin(2)|upper_aerodigestive_tract(3)	34	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					TGAATGTAAGGAATGTGGGAA	0.388																																																0													61	59	59					19																	40520846		2203	4300	6503	SO:0001583	missense	339327			BC045649	CCDS12548.1	19q13.2	2013-01-08				ENSG00000187187		"Zinc fingers, C2H2-type", "-"	28671	protein-coding gene	gene with protein product				ZNF49		12477932	Standard	XM_005258853		Approved	MGC43537	uc002oms.2	Q86UE3		ENST00000347077.4:c.1669G>A	19.37:g.40520846G>A	ENSP00000339823:p.Glu557Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K913	Missense_Mutation	SNP	ENST00000347077.4	37	CCDS12548.1	.	.	.	.	.	.	.	.	.	.	g	15.69	2.907182	0.52333	.	.	ENSG00000187187	ENST00000347077;ENST00000392042	T	0.07327	3.2	3.0	-0.424	0.12321	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.06781	0.0173	L	0.41415	1.275	0.09310	N	0.999998	B	0.06786	0.001	B	0.06405	0.002	T	0.35624	-0.9781	9	0.56958	D	0.05	.	4.6522	0.12601	0.23:0.1839:0.5862:0.0	.	557	Q86UE3	ZN546_HUMAN	K	557;166	ENSP00000339823:E557K	ENSP00000339823:E557K	E	+	1	0	ZNF546	45212686	0.001000	0.12720	0.990000	0.47175	0.997000	0.91878	0.499000	0.22546	-0.002000	0.14469	0.655000	0.94253	GAA		0.388	ZNF546-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462495.2	NM_178544		A	40520846	G	A	40520846	3	1	597	1	0	0	0	0	1	0	0	0	17990	1175	41	2	1687	2	ZNF546	19	40520846	Missense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08	4903599	40520846	18608137	80	35688										
EGLN2	112398	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	41306603	41306603	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gtggagagttacctgccctgTcccctgctcccctcctacca	8	18	0	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr19:41306603T>A	ENST00000593726.1	+	1	1154	c.126T>A	c.(124-126)tgT>tgA	p.C42*	EGLN2_ENST00000594140.1_5'Flank|RAB4B-EGLN2_ENST00000594136.1_3'UTR|EGLN2_ENST00000406058.2_Nonsense_Mutation_p.C42*|EGLN2_ENST00000303961.4_Nonsense_Mutation_p.C42*|CTC-490E21.12_ENST00000601627.1_5'Flank			Q96KS0	EGLN2_HUMAN	egl-9 family hypoxia-inducible factor 2	42					cell redox homeostasis (GO:0045454)|cellular response to hypoxia (GO:0071456)|intracellular estrogen receptor signaling pathway (GO:0030520)|peptidyl-proline hydroxylation to 4-hydroxy-L-proline (GO:0018401)|positive regulation of protein catabolic process (GO:0045732)|regulation of cell growth (GO:0001558)|regulation of neuron apoptotic process (GO:0043523)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|response to hypoxia (GO:0001666)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ferrous iron binding (GO:0008198)|L-ascorbic acid binding (GO:0031418)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706)|oxygen sensor activity (GO:0019826)|peptidyl-proline 4-dioxygenase activity (GO:0031545)			breast(2)|endometrium(1)|large_intestine(2)|lung(3)|ovary(2)	10			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Vitamin C(DB00126)	ACCTGCCCTGTCCCCTGCTCC	0.652																																																0													55	47	50					19																	41306603		2203	4300	6503	SO:0001587	stop_gained	112398			AJ310544	CCDS12567.1	19q13.2	2013-08-21	2013-08-21		ENSG00000269858	ENSG00000269858			14660	protein-coding gene	gene with protein product	"HIF prolyl hydroxylase 1"	606424	"EGL nine (C.elegans) homolog 2", "egl nine homolog 2 (C. elegans)"				Standard	NM_080732		Approved	PHD1, HIFPH1	uc002oph.3	Q96KS0		ENST00000593726.1:c.126T>A	19.37:g.41306603T>A	ENSP00000469686:p.Cys42*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5S0|Q8WWY4|Q9BV14	Nonsense_Mutation	SNP	ENST00000593726.1	37	CCDS12567.1	.	.	.	.	.	.	.	.	.	.	T	38	6.815813	0.97861	.	.	ENSG00000171570	ENST00000303961;ENST00000406058	.	.	.	4.15	1.91	0.25777	.	0.092299	0.46758	D	0.000268	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-3.0525	7.5512	0.27798	0.0:0.1918:0.0:0.8082	.	.	.	.	X	42	.	ENSP00000307080:C42X	C	+	3	2	EGLN2	45998443	0.372000	0.25064	0.976000	0.42696	0.984000	0.73092	0.337000	0.19841	0.198000	0.20407	0.402000	0.26972	TGT		0.652	EGLN2-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463218.1			A	41306603	T	A	41306603	4	1	597	1	0	0	0	0	0	1	0	0	4971	1673	58	5	128	5	EGLN2	19	41306603	Nonsense_Mutation	SNP	T	TCGA-GL-6846-01A-11D-1961-08	785757	41306603	17822380	81	35689										
C19orf41	126123	ucsc.edu;bcgsc.ca	37	chr19	50666348	50666348	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tggggatgagggcggagcgcAggtgacccagggcctccagc	19	11	0	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr19:50666348A>G	ENST00000293405.3	-	1	104	c.104T>C	c.(103-105)cTg>cCg	p.L35P		NM_152358.2	NP_689571.2	Q6UXV1	IZUM2_HUMAN	IZUMO family member 2	35						integral component of membrane (GO:0016021)				cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|prostate(1)	7						GGCGGAGCGCAGGTGACCCAG	0.701																																																0													19	23	22					19																	50666348		1973	4159	6132	SO:0001583	missense	126123			AY358196	CCDS12792.2	19q13.33	2014-02-17	2010-07-29	2010-07-29	ENSG00000161652	ENSG00000161652		"-"	28518	protein-coding gene	gene with protein product			"chromosome 19 open reading frame 41"	C19orf41		19658160, 22957301	Standard	XM_006723007		Approved	MGC33947, SCRL	uc002prp.1	Q6UXV1	OTTHUMG00000074063	ENST00000293405.3:c.104T>C	19.37:g.50666348A>G	ENSP00000293405:p.Leu35Pro	Somatic		WXS	Illumina HiSeq		Q5GRG3|Q5GRG4|Q6ZNM5|Q8NHR8	Missense_Mutation	SNP	ENST00000293405.3	37	CCDS12792.2	.	.	.	.	.	.	.	.	.	.	A	15.79	2.936048	0.52972	.	.	ENSG00000161652	ENST00000293405;ENST00000377000	T	0.38077	1.16	3.39	3.39	0.38822	.	0.727782	0.10719	N	0.641964	T	0.46983	0.1421	L	0.34521	1.04	0.45852	D	0.998715	D	0.89917	1.0	D	0.87578	0.998	T	0.41875	-0.9484	10	0.87932	D	0	.	8.5137	0.33233	1.0:0.0:0.0:0.0	.	35	Q6UXV1	IZUM2_HUMAN	P	35	ENSP00000293405:L35P	ENSP00000293405:L35P	L	-	2	0	IZUMO2	55358160	0.996000	0.38824	0.521000	0.27850	0.005000	0.04900	3.883000	0.56168	1.774000	0.52232	0.533000	0.62120	CTG		0.701	IZUMO2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157232.1	NM_152358		G	50666348	A	G	50666348	3	3	597	1	0	0	0	0	1	0	0	0	1926	188	7	3	589	3	C19orf41	19	50666348	Missense_Mutation	SNP	A	TCGA-GL-6846-01A-11D-1961-08	9359745	50666348	8462635	82	35690										
SLC24A3	57419	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	19665982	19665982	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	cgaggatgatgatgaaggacCgtacacaccattcgacaccc	10	12	0	3			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr20:19665982C>T	ENST00000328041.6	+	12	1498	c.1301C>T	c.(1300-1302)cCg>cTg	p.P434L		NM_020689.3	NP_065740.2	Q9HC58	NCKX3_HUMAN	solute carrier family 24 (sodium/potassium/calcium exchanger), member 3	434					ion transport (GO:0006811)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium, potassium:sodium antiporter activity (GO:0008273)|symporter activity (GO:0015293)			breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(10)|liver(1)|lung(10)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	39						gatgaagGACCGTACACACCA	0.488																																																0													166	142	150					20																	19665982		2203	4300	6503	SO:0001583	missense	57419			AF169257	CCDS13140.1	20p13	2013-05-22			ENSG00000185052	ENSG00000185052		"Solute carriers"	10977	protein-coding gene	gene with protein product		609839					Standard	NM_020689		Approved		uc002wrl.3	Q9HC58	OTTHUMG00000031993	ENST00000328041.6:c.1301C>T	20.37:g.19665982C>T	ENSP00000333519:p.Pro434Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B1AKV7|Q9BQJ9|Q9BQL7|Q9BQY3|Q9H519	Missense_Mutation	SNP	ENST00000328041.6	37	CCDS13140.1	.	.	.	.	.	.	.	.	.	.	C	13.61	2.287750	0.40494	.	.	ENSG00000185052	ENST00000328041	T	0.62498	0.02	5.67	5.67	0.87782	.	0.000000	0.64402	D	0.000001	T	0.62036	0.2395	M	0.61703	1.905	0.80722	D	1	B	0.17667	0.023	B	0.12837	0.008	T	0.56486	-0.7971	9	.	.	.	.	19.3646	0.94456	0.0:1.0:0.0:0.0	.	434	Q9HC58	NCKX3_HUMAN	L	434	ENSP00000333519:P434L	.	P	+	2	0	SLC24A3	19613982	1.000000	0.71417	0.833000	0.33012	0.408000	0.30992	7.465000	0.80898	2.668000	0.90789	0.563000	0.77884	CCG		0.488	SLC24A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078207.4	NM_020689		T	19665982	C	T	19665982	3	4	597	1	0	0	0	0	1	0	0	0	14480	652	23	1	1347	1	SLC24A3	20	19665982	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08		19665982	43359538	83	35691										
PCIF1	63935	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	44574469	44574469	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tggagaacaacgtggtctgcAtccggtataagggagagatg	15	6	1	2			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr20:44574469A>C	ENST00000372409.3	+	12	1652	c.1288A>C	c.(1288-1290)Atc>Ctc	p.I430L	PCIF1_ENST00000479348.1_3'UTR	NM_022104.3	NP_071387.1	Q9H4Z3	PCIF1_HUMAN	PDX1 C-terminal inhibiting factor 1	430					negative regulation of phosphatase activity (GO:0010923)	intercellular bridge (GO:0045171)|microtubule cytoskeleton (GO:0015630)|nucleus (GO:0005634)				central_nervous_system(1)|endometrium(3)|large_intestine(5)|lung(4)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	20						CGTGGTCTGCATCCGGTATAA	0.602																																																0													105	97	100					20																	44574469		2203	4300	6503	SO:0001583	missense	63935			AB050014	CCDS13388.1	20q13.12	2014-06-13	2008-04-29	2008-04-29	ENSG00000100982	ENSG00000100982			16200	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 121"		"chromosome 20 open reading frame 67"	C20orf67		12565871, 15121856	Standard	NM_022104		Approved	bA465L10.1, PPP1R121	uc002xqs.3	Q9H4Z3	OTTHUMG00000032635	ENST00000372409.3:c.1288A>C	20.37:g.44574469A>C	ENSP00000361486:p.Ile430Leu	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5P1|Q54AB9|Q9NT85	Missense_Mutation	SNP	ENST00000372409.3	37	CCDS13388.1	.	.	.	.	.	.	.	.	.	.	A	3.545	-0.092801	0.07053	.	.	ENSG00000100982	ENST00000372409;ENST00000443130	.	.	.	5.01	-1.64	0.08318	.	0.378783	0.26944	N	0.021710	T	0.05914	0.0154	N	0.00823	-1.155	0.28559	N	0.91125	B	0.02656	0.0	B	0.01281	0.0	T	0.37478	-0.9704	9	0.02654	T	1	-2.4041	5.0684	0.14594	0.262:0.3498:0.3882:0.0	.	430	Q9H4Z3	PCIF1_HUMAN	L	430	.	ENSP00000361486:I430L	I	+	1	0	PCIF1	44007876	1.000000	0.71417	0.994000	0.49952	0.897000	0.52465	1.872000	0.39549	-0.182000	0.10602	-0.379000	0.06801	ATC		0.602	PCIF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079550.1	NM_022104		C	44574469	A	C	44574469	3	2	597	1	0	0	0	0	1	0	0	0	11587	217	8	5	1326	5	PCIF1	20	44574469	Missense_Mutation	SNP	A	TCGA-GL-6846-01A-11D-1961-08	24908487	44574469	18451051	84	35692										
ARFGEF2	10564	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	47641990	47641990	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	aaggccttcaactccaattaCgagcagcggactgtcctgtg	10	12	1	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr20:47641990C>T	ENST00000371917.4	+	36	4896	c.4896C>T	c.(4894-4896)taC>taT	p.Y1632Y		NM_006420.2	NP_006411.2	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine nucleotide-exchange factor 2 (brefeldin A-inhibited)	1632					endomembrane system organization (GO:0010256)|endosome organization (GO:0007032)|exocytosis (GO:0006887)|Golgi to plasma membrane transport (GO:0006893)|intracellular signal transduction (GO:0035556)|positive regulation of GTPase activity (GO:0043547)|positive regulation of tumor necrosis factor production (GO:0032760)|protein transport (GO:0015031)|receptor recycling (GO:0001881)|regulation of ARF protein signal transduction (GO:0032012)|vesicle-mediated transport (GO:0016192)	asymmetric synapse (GO:0032279)|axonemal microtubule (GO:0005879)|cell junction (GO:0030054)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|Golgi membrane (GO:0000139)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)|recycling endosome (GO:0055037)|symmetric synapse (GO:0032280)|trans-Golgi network (GO:0005802)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|GABA receptor binding (GO:0050811)|guanyl-nucleotide exchange factor activity (GO:0005085)|protein kinase A regulatory subunit binding (GO:0034237)			breast(7)|cervix(2)|endometrium(8)|kidney(4)|large_intestine(11)|lung(19)|ovary(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	63			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			ACTCCAATTACGAGCAGCGGA	0.473																																					Esophageal Squamous(176;1738 1974 26285 33069 35354)											0													97	80	85					20																	47641990		2203	4300	6503	SO:0001819	synonymous_variant	10564			AF084521	CCDS13411.1	20q13.13	2010-08-20			ENSG00000124198	ENSG00000124198		"A-kinase anchor proteins"	15853	protein-coding gene	gene with protein product	"Brefeldin A-inhibited guanine nucleotide-exchange protein 2"	605371				10212200	Standard	NM_006420		Approved	BIG2	uc002xtx.4	Q9Y6D5	OTTHUMG00000032687	ENST00000371917.4:c.4896C>T	20.37:g.47641990C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TFT9|Q9NTS1	Silent	SNP	ENST00000371917.4	37	CCDS13411.1																																																																																				0.473	ARFGEF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079627.1	NM_006420		T	47641990	C	T	47641990	2	4	597	1	0	0	0	0	0	0	0	1	853	547	19	1		1	ARFGEF2	20	47641990	Silent	SNP	C	TCGA-GL-6846-01A-11D-1961-08	3067521	47641990	15383530	85	35693										
SNAI1	6615	ucsc.edu	37	chr20	48600833	48600833	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ccctgcgtctgcggaacctgCgggaaggccttctctaggcc	13	15	2	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr20:48600833C>T	ENST00000244050.2	+	2	616	c.555C>T	c.(553-555)tgC>tgT	p.C185C		NM_005985.3	NP_005976.2	O95863	SNAI1_HUMAN	snail family zinc finger 1	185	Required for nuclear localization and interaction with KPNB1, NOTCH1 and PARP1.				cartilage morphogenesis (GO:0060536)|cell migration (GO:0016477)|epithelial to mesenchymal transition (GO:0001837)|hair follicle morphogenesis (GO:0031069)|left/right pattern formation (GO:0060972)|mesoderm formation (GO:0001707)|negative regulation of cell differentiation involved in embryonic placenta development (GO:0060806)|negative regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043518)|negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage (GO:1902230)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of vitamin D biosynthetic process (GO:0010957)|Notch signaling involved in heart development (GO:0061314)|osteoblast differentiation (GO:0001649)|palate development (GO:0060021)|positive regulation of cell migration (GO:0030335)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of tight junction assembly (GO:2000810)|trophoblast giant cell differentiation (GO:0060707)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	kinase binding (GO:0019900)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)	p.C185*(1)		breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(10)|ovary(2)	17			BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			GCGGAACCTGCGGGAAGGCCT	0.622																																																1	Substitution - Nonsense(1)	lung(1)											27	26	26					20																	48600833		2203	4300	6503	SO:0001819	synonymous_variant	6615			AF125377	CCDS13423.1	20q13.2	2013-05-23	2013-05-23		ENSG00000124216	ENSG00000124216		"Snail homologs", "Zinc fingers, C2H2-type"	11128	protein-coding gene	gene with protein product		604238	"snail 1 (drosophila homolog), zinc finger protein", "snail homolog 1 (Drosophila)"			10585766	Standard	NM_005985		Approved	SNA, SLUGH2, SNAH, SNAIL1, SNAIL	uc002xuz.3	O95863	OTTHUMG00000033048	ENST00000244050.2:c.555C>T	20.37:g.48600833C>T		Somatic		WXS	Illumina HiSeq		B2R842|Q9P113|Q9UBP7|Q9UHH7	Silent	SNP	ENST00000244050.2	37	CCDS13423.1																																																																																				0.622	SNAI1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080350.1			T	48600833	C	T	48600833	2	4	597	1	0	0	0	0	0	0	0	1	14839	776	27	1		1	SNAI1	20	48600833	Silent	SNP	C	TCGA-GL-6846-01A-11D-1961-08	958843	48600833	14424687	86	35694										
LAMA5	3911	ucsc.edu	37	chr20	60891785	60891785	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	tctagtgcagtgctgttggcCaggagctgctgggctcggtc	16	10	1	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr20:60891785C>T	ENST00000252999.3	-	57	7764	c.7698G>A	c.(7696-7698)ctG>ctA	p.L2566L		NM_005560.3	NP_005551.3	O15230	LAMA5_HUMAN	laminin, alpha 5	2566	Domain II and I.				angiogenesis (GO:0001525)|branching involved in salivary gland morphogenesis (GO:0060445)|branching involved in ureteric bud morphogenesis (GO:0001658)|cell differentiation (GO:0030154)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|cell recognition (GO:0008037)|cilium assembly (GO:0042384)|cytoskeleton organization (GO:0007010)|embryo development (GO:0009790)|endothelial cell differentiation (GO:0045446)|establishment of protein localization to plasma membrane (GO:0090002)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|focal adhesion assembly (GO:0048041)|hair follicle development (GO:0001942)|integrin-mediated signaling pathway (GO:0007229)|lung development (GO:0030324)|morphogenesis of a polarized epithelium (GO:0001738)|morphogenesis of embryonic epithelium (GO:0016331)|muscle organ development (GO:0007517)|neural crest cell migration (GO:0001755)|odontogenesis of dentin-containing tooth (GO:0042475)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of cell proliferation (GO:0042127)|regulation of embryonic development (GO:0045995)|substrate adhesion-dependent cell spreading (GO:0034446)	basal lamina (GO:0005605)|basement membrane (GO:0005604)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)|laminin-10 complex (GO:0043259)|laminin-11 complex (GO:0043260)|laminin-5 complex (GO:0005610)|nucleus (GO:0005634)	integrin binding (GO:0005178)|structural molecule activity (GO:0005198)			breast(2)|central_nervous_system(3)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|lung(40)|ovary(1)|pancreas(1)|prostate(3)|skin(6)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	81	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			TGCTGTTGGCCAGGAGCTGCT	0.687																																																0													26	21	22					20																	60891785		2181	4279	6460	SO:0001819	synonymous_variant	3911			AF443072	CCDS33502.1	20q13.2-q13.3	2013-03-01			ENSG00000130702	ENSG00000130702		"Laminins"	6485	protein-coding gene	gene with protein product		601033				9271224	Standard	NM_005560		Approved		uc002ycq.3	O15230	OTTHUMG00000032908	ENST00000252999.3:c.7698G>A	20.37:g.60891785C>T		Somatic		WXS	Illumina HiSeq		Q8TDF8|Q8WZA7|Q9H1P1	Silent	SNP	ENST00000252999.3	37	CCDS33502.1																																																																																				0.687	LAMA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080014.2	NM_005560		T	60891785	C	T	60891785	2	4	597	1	0	0	0	0	0	0	0	1	8616	581	21	2		2	LAMA5	20	60891785	Silent	SNP	C	TCGA-GL-6846-01A-11D-1961-08	12290952	60891785	2133735	87	35695										
KRTAP10-3	386682	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	45978008	45978008	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gagcacgtggggcggcagagGagggacacgcaggaggccgg	22	9	0	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr21:45978008G>A	ENST00000391620.1	-	1	635	c.591C>T	c.(589-591)ctC>ctT	p.L197L	TSPEAR_ENST00000323084.4_Intron|TSPEAR_ENST00000397916.1_Intron	NM_198696.2	NP_941969.2	P60369	KR103_HUMAN	keratin associated protein 10-3	197	18 X 5 AA repeats of C-C-X(3).					keratin filament (GO:0045095)				kidney(1)|lung(4)|prostate(1)|skin(1)	7						GGCGGCAGAGGAGGGACACGC	0.701																																																0													29	35	33					21																	45978008		2199	4295	6494	SO:0001819	synonymous_variant	386682			AJ566383	CCDS42956.1	21q22.3	2007-10-05			ENSG00000212935	ENSG00000212935		"Keratin associated proteins"	22968	protein-coding gene	gene with protein product				KRTAP18-3			Standard	NM_198696		Approved	KAP10.3, KAP18.3	uc002zfj.1	P60369	OTTHUMG00000057628	ENST00000391620.1:c.591C>T	21.37:g.45978008G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A3KN67|Q70LJ4	Silent	SNP	ENST00000391620.1	37	CCDS42956.1																																																																																				0.701	KRTAP10-3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128031.1			A	45978008	G	A	45978008	2	1	597	1	0	0	0	0	0	0	0	1	8517	1161	41	2		2	KRTAP10-3	21	45978008	Silent	SNP	G	TCGA-GL-6846-01A-11D-1961-08		45978008	2151887	88	35696										
SMARCB1	6598	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	24175838	24175839	+	Frame_Shift_Ins	INS	-	-	T													0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gtgcccactgctggagactcINStgacagacgctgagatggag							TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr22:24175838_24175839insT	ENST00000263121.7	+	8	1262_1263	c.1066_1067insT	c.(1066-1068)ctgfs	p.L356fs	SMARCB1_ENST00000407082.3_Frame_Shift_Ins_p.L310fs|DERL3_ENST00000464023.1_5'Flank|SMARCB1_ENST00000344921.6_Frame_Shift_Ins_p.L365fs|SMARCB1_ENST00000407422.3_Frame_Shift_Ins_p.L347fs	NM_003073.3	NP_003064.2	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1	356					ATP-dependent chromatin remodeling (GO:0043044)|blastocyst hatching (GO:0001835)|cell differentiation (GO:0030154)|chromatin remodeling (GO:0006338)|DNA integration (GO:0015074)|DNA repair (GO:0006281)|mitotic cell cycle phase transition (GO:0044772)|negative regulation of cell proliferation (GO:0008285)|nervous system development (GO:0007399)|nucleosome disassembly (GO:0006337)|positive regulation by host of viral transcription (GO:0043923)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|single stranded viral RNA replication via double stranded DNA intermediate (GO:0039692)|transcription, DNA-templated (GO:0006351)	nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|protein complex (GO:0043234)|SWI/SNF complex (GO:0016514)|XY body (GO:0001741)	p53 binding (GO:0002039)|Tat protein binding (GO:0030957)|transcription coactivator activity (GO:0003713)	p.?(2)|p.L266_*386del(1)		bone(4)|central_nervous_system(198)|endometrium(4)|haematopoietic_and_lymphoid_tissue(25)|kidney(3)|large_intestine(5)|liver(2)|lung(5)|meninges(5)|ovary(4)|pancreas(1)|prostate(2)|skin(6)|soft_tissue(194)	458		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				GCTGGAGACTCTGACAGACGCT	0.629			"D, N, F, S"		malignant rhabdoid	malignant rhabdoid																																yes	Rec	yes	Rhabdoid predisposition syndrome	22	22q11	6598	"SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1"		M	3	Unknown(2)|Deletion - In frame(1)	central_nervous_system(3)																																								SO:0001589	frameshift_variant	6598			U04847	CCDS13817.1, CCDS46671.1	22q11.23	2014-09-17			ENSG00000099956	ENSG00000099956			11103	protein-coding gene	gene with protein product	"sucrose nonfermenting, yeast, homolog-like 1", "integrase interactor 1", "malignant rhabdoid tumor suppressor", "protein phosphatase 1, regulatory subunit 144"	601607		SNF5L1		7801128, 10319872, 10365963	Standard	NM_003073		Approved	BAF47, Ini1, Snr1, hSNFS, Sfh1p, RDT, PPP1R144	uc002zyb.3	Q12824	OTTHUMG00000150737	ENST00000263121.7:c.1067dupT	22.37:g.24175839_24175839dupT	ENSP00000263121:p.Leu356fs	Somatic		WXS	Illumina HiSeq	Phase_I	O75784|O95474|Q17S11|Q38GA1|Q76N08|Q9UBH2	Frame_Shift_Ins	INS	ENST00000263121.7	37	CCDS13817.1																																																																																				0.629	SMARCB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000319872.1	NM_003073		T	24175839	-	T	24175838	7	5	597	1	0	1	1	0	0	0	0	0	14787	912	32	0	1096	0	SMARCB1	22	24175838	Frame_Shift_Ins	INS	-	TCGA-GL-6846-01A-11D-1961-08		24175838	27128728	89	35697										
GSTT1	2952	broad.mit.edu;bcgsc.ca	37	chr22	24376512	24376512	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	cttggccttcagaatgacctCatgggcctcctggaagaggt	12	11	2	3			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr22:24376512C>T	ENST00000248935.5	-	5	686	c.634G>A	c.(634-636)Gag>Aag	p.E212K	GSTT1_ENST00000439996.2_Missense_Mutation_p.E94K|KB-226F1.1_ENST00000608619.1_RNA	NM_000853.2	NP_000844.2	P30711	GSTT1_HUMAN		212	GST C-terminal.				glutathione derivative biosynthetic process (GO:1901687)|glutathione metabolic process (GO:0006749)|oxidation-reduction process (GO:0055114)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	glutathione peroxidase activity (GO:0004602)|glutathione transferase activity (GO:0004364)			cervix(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|ovary(1)|prostate(1)|skin(1)	6					Carboplatin(DB00958)|Cisplatin(DB00515)|Etoposide(DB00773)|Glutathione(DB00143)|Oxaliplatin(DB00526)	AGAATGACCTCATGGGCCTCC	0.632									Myelodysplasia and Acute Myeloid Leukemia (AML), Familial																																							0													39	44	42					22																	24376512		1679	3587	5266	SO:0001583	missense	2952	Familial Cancer Database	incl.: Familial Myelodysplastic syndrome (late-onset), Familial AML, Familial Monocytic Leukemia, Familial Monosomy 7 and AML																												ENST00000248935.5:c.634G>A	22.37:g.24376512C>T	ENSP00000248935:p.Glu212Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O00226|Q5TZY2|Q6IC69|Q969K8|Q96IY3	Missense_Mutation	SNP	ENST00000248935.5	37	CCDS13822.1	.	.	.	.	.	.	.	.	.	.	.	14.79	2.640100	0.47153	.	.	ENSG00000184674	ENST00000436103;ENST00000248935;ENST00000382792;ENST00000439996	T;T;T	0.46451	0.87;2.28;2.28	4.75	4.75	0.60458	Glutathione S-transferase, C-terminal-like (2);Glutathione S-transferase/chloride channel, C-terminal (1);	0.059936	0.64402	D	0.000004	T	0.30792	0.0776	L	0.42529	1.33	0.80722	D	1	B	0.06786	0.001	B	0.09377	0.004	T	0.08207	-1.0733	10	0.14656	T	0.56	-33.6007	9.1406	0.36901	0.0:0.9024:0.0:0.0976	.	212	P30711	GSTT1_HUMAN	K	80;212;133;94	ENSP00000389481:E80K;ENSP00000248935:E212K;ENSP00000401632:E94K	ENSP00000248935:E212K	E	-	1	0	GSTT1	22706512	0.751000	0.28327	0.997000	0.53966	0.804000	0.45430	0.450000	0.21762	2.648000	0.89879	0.650000	0.86243	GAG		0.632	GSTT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320184.2			T	24376512	C	T	24376512	3	4	597	1	0	0	0	0	1	0	0	0	6852	835	29	2	92	2	GSTT1	22	24376512	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08	200674	24376512	26928054	90	35698										
SEPT3	55964	hgsc.bcm.edu	37	chr22	42373072	42373072	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	gagacaaaggaggattcatgTccaaaggtagggcggccggc	16	8	1	1			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chr22:42373072T>G	ENST00000396426.3	+	1	259	c.4T>G	c.(4-6)Tcc>Gcc	p.S2A	SEPT3_ENST00000396425.3_Missense_Mutation_p.S2A|SEPT3_ENST00000406029.1_Missense_Mutation_p.S2A|SEPT3_ENST00000291236.11_Missense_Mutation_p.S2A|SEPT3_ENST00000328414.8_Missense_Mutation_p.S2A	NM_145733.2	NP_663786.2	Q9UH03	SEPT3_HUMAN	septin 3	2					cell cycle (GO:0007049)|cell division (GO:0051301)	cell junction (GO:0030054)|septin complex (GO:0031105)|synapse (GO:0045202)	GTP binding (GO:0005525)			breast(1)|kidney(3)|large_intestine(5)|lung(6)|prostate(1)|skin(1)	17						AGGATTCATGTCCAAAGGTAG	0.751																																																0													16	20	18					22																	42373072		1864	4070	5934	SO:0001583	missense	55964			AF285107	CCDS14026.2, CCDS14027.2	22q13.2	2013-01-21			ENSG00000100167	ENSG00000100167		"Septins"	10750	protein-coding gene	gene with protein product		608314		SEP3			Standard	NM_019106		Approved		uc003bbr.4	Q9UH03	OTTHUMG00000030494	ENST00000396426.3:c.4T>G	22.37:g.42373072T>G	ENSP00000379704:p.Ser2Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B1AHR0|Q2NKJ7|Q59GF7|Q6IBZ6|Q8N3P3|Q9HD35	Missense_Mutation	SNP	ENST00000396426.3	37	CCDS14026.2	.	.	.	.	.	.	.	.	.	.	T	12.30	1.895922	0.33442	.	.	ENSG00000100167	ENST00000396426;ENST00000406029;ENST00000328414;ENST00000396425;ENST00000291236	T;T;T;T	0.50813	0.73;0.8;0.74;0.8	3.43	2.36	0.29203	.	1.353170	0.05787	U	0.609675	T	0.30510	0.0767	N	0.08118	0	0.19945	N	0.999949	B;B;B;B	0.06786	0.0;0.001;0.0;0.001	B;B;B;B	0.10450	0.0;0.005;0.001;0.001	T	0.30736	-0.9968	10	0.87932	D	0	.	7.9052	0.29757	0.0:0.0:0.2102:0.7898	.	2;2;2;2	B7Z686;B1AHR1;Q9UH03-2;Q9UH03	.;.;.;SEPT3_HUMAN	A	2	ENSP00000379704:S2A;ENSP00000383956:S2A;ENSP00000379703:S2A;ENSP00000291236:S2A	ENSP00000291236:S2A	S	+	1	0	SEPT3	40703018	1.000000	0.71417	1.000000	0.80357	0.877000	0.50540	3.884000	0.56175	0.464000	0.27142	0.165000	0.16767	TCC		0.751	SEPT3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322051.1	NM_145734		G	42373072	T	G	42373072	3	3	597	1	0	0	0	0	1	0	0	0	14078	1667	58	5	6	5	SEPT3	22	42373072	Missense_Mutation	SNP	T	TCGA-GL-6846-01A-11D-1961-08	17996560	42373072	8931494	91	35699										
CASK	8573	hgsc.bcm.edu	37	chrX	41448782	41448782	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	acttacctctttggctctctGtactgcatcgcttggaggat	9	11	2	0			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chrX:41448782G>C	ENST00000378163.1	-	13	1693	c.1219C>G	c.(1219-1221)Cag>Gag	p.Q407E	CASK_ENST00000421587.2_Missense_Mutation_p.Q401E|CASK_ENST00000378158.1_Missense_Mutation_p.Q407E|CASK_ENST00000378154.1_Missense_Mutation_p.Q407E|CASK_ENST00000442742.2_Missense_Mutation_p.Q407E|CASK_ENST00000361962.4_Missense_Mutation_p.Q407E|CASK_ENST00000378166.4_Missense_Mutation_p.Q407E|CASK_ENST00000318588.9_Missense_Mutation_p.Q407E			O14936	CSKP_HUMAN	calcium/calmodulin-dependent serine protein kinase (MAGUK family)	407	L27 2. {ECO:0000255|PROSITE- ProRule:PRU00365}.				calcium ion import (GO:0070509)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of cellular response to growth factor stimulus (GO:0090288)|negative regulation of keratinocyte proliferation (GO:0010839)|negative regulation of wound healing (GO:0061045)|nucleotide phosphorylation (GO:0046939)|positive regulation of calcium ion import (GO:0090280)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	actin cytoskeleton (GO:0015629)|basement membrane (GO:0005604)|basolateral plasma membrane (GO:0016323)|cell-cell junction (GO:0005911)|ciliary membrane (GO:0060170)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|nuclear lamina (GO:0005652)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)|presynaptic membrane (GO:0042734)	ATP binding (GO:0005524)|guanylate kinase activity (GO:0004385)|protein serine/threonine kinase activity (GO:0004674)			breast(3)|endometrium(5)|kidney(1)|large_intestine(6)|liver(1)|lung(11)|ovary(3)|prostate(1)|stomach(1)	32						TTGGCTCTCTGTACTGCATCG	0.363																																					NSCLC(42;104 1086 3090 27189 35040)											0													159	135	143					X																	41448782		2203	4300	6503	SO:0001583	missense	8573			AF035582	CCDS14257.1, CCDS48094.1, CCDS48095.1	Xp11.4	2010-02-09			ENSG00000147044	ENSG00000147044			1497	protein-coding gene	gene with protein product		300172	"trinucleotide repeat containing 8"	TNRC8		9722958	Standard	NM_003688		Approved	LIN2, CAGH39, FGS4	uc004dfl.4	O14936	OTTHUMG00000021378	ENST00000378163.1:c.1219C>G	X.37:g.41448782G>C	ENSP00000367405:p.Gln407Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NES1|B7ZKY0|O43215|Q17RI4|Q59HA0|Q5VT16|Q5VT17|Q5VT18|Q5VT19|Q66T42|Q9BYH6|Q9NYB2|Q9NYB3	Missense_Mutation	SNP	ENST00000378163.1	37		.	.	.	.	.	.	.	.	.	.	G	11.87	1.769092	0.31320	.	.	ENSG00000147044	ENST00000421587;ENST00000318588;ENST00000361962;ENST00000378163;ENST00000378179;ENST00000378158;ENST00000378166;ENST00000442742;ENST00000378154	T;T;T;T;T;T;T;T;T	0.67523	-0.25;-0.26;-0.27;-0.26;3.44;-0.26;-0.26;-0.25;-0.26	5.61	5.61	0.85477	L27, C-terminal (1);L27 (2);	0.000000	0.49305	D	0.000146	T	0.60025	0.2237	N	0.19112	0.55	0.80722	D	1	B;B;B;B	0.29805	0.009;0.257;0.02;0.097	B;B;B;B	0.40782	0.008;0.34;0.012;0.028	T	0.55042	-0.8202	10	0.15499	T	0.54	.	18.2422	0.89971	0.0:0.0:1.0:0.0	.	401;407;407;407	O14936-3;O14936-4;O14936-2;O14936	.;.;.;CSKP_HUMAN	E	401;407;407;407;22;407;407;407;407	ENSP00000400526:Q401E;ENSP00000322727:Q407E;ENSP00000354641:Q407E;ENSP00000367405:Q407E;ENSP00000367421:Q22E;ENSP00000367400:Q407E;ENSP00000367408:Q407E;ENSP00000398007:Q407E;ENSP00000367396:Q407E	ENSP00000322727:Q407E	Q	-	1	0	CASK	41333726	1.000000	0.71417	1.000000	0.80357	0.930000	0.56654	9.200000	0.95010	2.346000	0.79739	0.415000	0.27848	CAG		0.363	CASK-007	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000056285.1	NM_003688		C	41448782	G	C	41448782	3	2	597	1	0	0	0	0	1	0	0	0	2667	1386	48	4	1621	4	CASK	23	41448782	Missense_Mutation	SNP	G	TCGA-GL-6846-01A-11D-1961-08		41448782	113821778	92	35700										
MAGT1	84061	ucsc.edu;bcgsc.ca	37	chrX	77150838	77150838	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0659340659340659	6	1	1.11973684210526	2.36388888888889	0.733620689655172	1	1	0	ttgggcagaggctgagggaaCgtcgcaaacgatgagcagcg	17	8	0	3			TCGA-GL-6846-01A-11D-1961-08	TCGA-GL-6846-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	98a51f37-1d5f-4db0-b785-b751168bf46e	631ce65b-a92f-4c3c-b0eb-c2e13249edd7	g.chrX:77150838C>A	ENST00000373336.3	-	1	99	c.70G>T	c.(70-72)Gtt>Ttt	p.V24F	MAGT1_ENST00000358075.6_Missense_Mutation_p.V56F			Q9H0U3	MAGT1_HUMAN	magnesium transporter 1	24					cellular protein metabolic process (GO:0044267)|cognition (GO:0050890)|magnesium ion transport (GO:0015693)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation (GO:0006487)|protein N-linked glycosylation via asparagine (GO:0018279)	endoplasmic reticulum membrane (GO:0005789)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|oligosaccharyltransferase complex (GO:0008250)	magnesium ion transmembrane transporter activity (GO:0015095)			cervix(1)|kidney(2)|large_intestine(3)|lung(9)|prostate(1)|upper_aerodigestive_tract(1)	17						GCTGAGGGAACGTCGCAAACG	0.552																																																0													133	91	105					X																	77150838		2203	4296	6499	SO:0001583	missense	84061				CCDS14436.2	Xq21.1	2014-09-17			ENSG00000102158	ENSG00000102158			28880	protein-coding gene	gene with protein product	"oligosaccharyltransferase 3 homolog B (S. cerevisiae)"	300715				15804357	Standard	NM_032121		Approved	DKFZp564K142, IAP, OST3B, MRX95	uc004fof.3	Q9H0U3	OTTHUMG00000021882	ENST00000373336.3:c.70G>T	X.37:g.77150838C>A	ENSP00000362433:p.Val24Phe	Somatic		WXS	Illumina HiSeq		B2RAR4|D3DTE3|Q53G00|Q6P577|Q8NBN6	Missense_Mutation	SNP	ENST00000373336.3	37		.	.	.	.	.	.	.	.	.	.	C	6.758	0.508646	0.12883	.	.	ENSG00000102158	ENST00000358075;ENST00000373336	T;T	0.48201	0.82;0.84	4.41	3.47	0.39725	.	0.429903	0.21885	N	0.067680	T	0.24122	0.0584	N	0.04508	-0.205	0.09310	N	1	B;B	0.14805	0.001;0.011	B;B	0.12156	0.003;0.007	T	0.12811	-1.0533	10	0.36615	T	0.2	-16.1902	10.134	0.42695	0.1987:0.8013:0.0:0.0	.	24;56	Q9H0U3;B4DH58	MAGT1_HUMAN;.	F	56;24	ENSP00000354649:V56F;ENSP00000362433:V24F	ENSP00000354649:V56F	V	-	1	0	MAGT1	77037494	0.559000	0.26562	0.837000	0.33122	0.237000	0.25408	0.684000	0.25364	2.165000	0.68154	0.544000	0.68410	GTT		0.552	MAGT1-002	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000057302.2	NM_032121		A	77150838	C	A	77150838	3	1	597	1	0	0	0	0	1	0	0	0	9203	536	19	4	977	4	MAGT1	23	77150838	Missense_Mutation	SNP	C	TCGA-GL-6846-01A-11D-1961-08	35702056	77150838	78119722	93	35701										
NOC2L	26155	bcgsc.ca	37	chr1	887486	887486	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ccacaggaagaggcagtgcaCatactgccagttgtacacag	11	11	0	1	rs144707752		TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:887486C>G	ENST00000327044.6	-	11	1274	c.1225G>C	c.(1225-1227)Gtg>Ctg	p.V409L	NOC2L_ENST00000487214.1_5'Flank	NM_015658.3	NP_056473	Q9Y3T9	NOC2L_HUMAN	nucleolar complex associated 2 homolog (S. cerevisiae)	409					apoptotic process (GO:0006915)|cellular response to UV (GO:0034644)|chromatin assembly (GO:0031497)|negative regulation of B cell apoptotic process (GO:0002903)|negative regulation of histone acetylation (GO:0035067)|negative regulation of intrinsic apoptotic signaling pathway (GO:2001243)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nucleolus to nucleoplasm transport (GO:0032066)|transcription, DNA-templated (GO:0006351)	nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|histone binding (GO:0042393)|nucleosome binding (GO:0031491)|poly(A) RNA binding (GO:0044822)|repressing transcription factor binding (GO:0070491)|transcription corepressor activity (GO:0003714)			endometrium(2)|kidney(1)|large_intestine(2)|lung(6)|ovary(2)|skin(2)|urinary_tract(1)	16	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)		AGGCAGTGCACATACTGCCAG	0.592													C|||	1	0.000199681	0.0008	0.0	5008	,	,		20190	0.0		0.0	False		,,,				2504	0.0															0								C	LEU/VAL	2,4404	4.2+/-10.8	0,2,2201	72	67	69		1225	0.3	0.4	1	dbSNP_134	69	0,8600		0,0,4300	no	missense	NOC2L	NM_015658.3	32	0,2,6501	GG,GC,CC		0.0,0.0454,0.0154	benign	409/750	887486	2,13004	2203	4300	6503	SO:0001583	missense	26155			AL050019	CCDS3.1	1p36.33	2014-06-12			ENSG00000188976	ENSG00000188976			24517	protein-coding gene	gene with protein product	"novel INHAT repressor", "protein phosphatase 1, regulatory subunit 12"	610770					Standard	NM_015658		Approved	DKFZP564C186, NET7, NET15, NIR, PPP1R112	uc001abz.4	Q9Y3T9	OTTHUMG00000040720	ENST00000327044.6:c.1225G>C	1.37:g.887486C>G	ENSP00000317992:p.Val409Leu	Somatic		WXS	Illumina HiSeq	Phase_1	Q5SVA3|Q9BTN6	Missense_Mutation	SNP	ENST00000327044.6	37	CCDS3.1	.	.	.	.	.	.	.	.	.	.	C	14.60	2.584490	0.46110	4.54E-4	0.0	ENSG00000188976	ENST00000327044	T	0.47528	0.84	4.3	0.294	0.15747	Armadillo-type fold (1);	0.432444	0.22891	N	0.054389	T	0.48447	0.1500	L	0.52364	1.645	0.39810	D	0.972687	P;P;P	0.44044	0.825;0.825;0.825	P;P;P	0.51079	0.544;0.544;0.658	T	0.50021	-0.8876	10	0.72032	D	0.01	-16.483	8.3399	0.32237	0.0:0.476:0.0:0.524	.	409;409;176	B3KNC3;Q9Y3T9;Q9H9J5	.;NOC2L_HUMAN;.	L	409	ENSP00000317992:V409L	ENSP00000317992:V409L	V	-	1	0	NOC2L	877349	0.018000	0.18449	0.441000	0.26858	0.903000	0.53119	0.138000	0.16016	0.165000	0.19558	0.563000	0.77884	GTG		0.592	NOC2L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097869.1	NM_015658		G	887486	C	G	887486	3	3	598	1	0	0	0	0	1	0	0	0	10520	478	17	4	1060	4	NOC2L	1	887486	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08		887486	248363135	1	35702										
MEGF6	1953	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	3511980	3511980	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ggtccgggcctccgtggtatAcacctgcctgtagcccatgt	12	14	0	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:3511980A>G	ENST00000356575.4	-	3	524	c.298T>C	c.(298-300)Tat>Cat	p.Y100H		NM_001409.3	NP_001400.3	O75095	MEGF6_HUMAN	multiple EGF-like-domains 6	100	EMI. {ECO:0000255|PROSITE- ProRule:PRU00384}.					extracellular region (GO:0005576)	calcium ion binding (GO:0005509)			cervix(2)|endometrium(3)|large_intestine(3)|lung(8)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	19	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)		TCCGTGGTATACACCTGCCTG	0.632																																					Ovarian(73;978 3658)											0													36	44	41					1																	3511980		2027	4179	6206	SO:0001583	missense	1953			AB011539	CCDS41237.1	1p36.3	2008-02-05	2006-03-31	2006-03-31	ENSG00000162591	ENSG00000162591			3232	protein-coding gene	gene with protein product		604266	"EGF-like-domain, multiple 3"	EGFL3		9693030	Standard	NM_001409		Approved		uc001akl.3	O75095	OTTHUMG00000000611	ENST00000356575.4:c.298T>C	1.37:g.3511980A>G	ENSP00000348982:p.Tyr100His	Somatic		WXS	Illumina HiSeq	Phase_I	Q4AC86|Q5VV39	Missense_Mutation	SNP	ENST00000356575.4	37	CCDS41237.1	.	.	.	.	.	.	.	.	.	.	a	15.35	2.806840	0.50421	.	.	ENSG00000162591	ENST00000356575	D	0.85258	-1.96	3.92	3.92	0.45320	EMI domain (1);	0.000000	0.64402	U	0.000003	D	0.84991	0.5595	M	0.76574	2.34	0.39571	D	0.969271	D	0.53312	0.959	P	0.46076	0.503	D	0.86605	0.1869	10	0.59425	D	0.04	-38.3019	9.703	0.40198	1.0:0.0:0.0:0.0	.	100	O75095	MEGF6_HUMAN	H	100	ENSP00000348982:Y100H	ENSP00000348982:Y100H	Y	-	1	0	MEGF6	3501840	1.000000	0.71417	0.906000	0.35671	0.306000	0.27790	6.186000	0.72026	1.726000	0.51525	0.398000	0.26397	TAT		0.632	MEGF6-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354866.1	NM_001409		G	3511980	A	G	3511980	3	3	598	1	0	0	0	0	1	0	0	0	9469	391	14	3	4467	3	MEGF6	1	3511980	Missense_Mutation	SNP	A	TCGA-GL-7773-01A-11D-2136-08	2624494	3511980	245738641	2	35703										
TCEB3	6924	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	24080614	24080614	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ctcttcaccccaggaagaagAagaagctggatttactgggc	11	10	2	3			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:24080614A>C	ENST00000418390.2	+	6	1911	c.1640A>C	c.(1639-1641)gAa>gCa	p.E547A	TCEB3_ENST00000609199.1_Missense_Mutation_p.E521A	NM_003198.2	NP_003189.2	Q14241	ELOA1_HUMAN	transcription elongation factor B (SIII), polypeptide 3 (110kDa, elongin A)	547					gene expression (GO:0010467)|positive regulation of viral transcription (GO:0050434)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|viral process (GO:0016032)	extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)			breast(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(5)|ovary(2)|pancreas(1)|prostate(2)|skin(1)	19		Colorectal(325;3.46e-05)|Lung NSC(340;0.000112)|all_lung(284;0.00016)|Renal(390;0.000219)|Breast(348;0.0044)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;2.42e-24)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;4.74e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000973)|KIRC - Kidney renal clear cell carcinoma(1967;0.00334)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		CAGGAAGAAGAAGAAGCTGGA	0.473																																																0													107	99	102					1																	24080614		2203	4300	6503	SO:0001583	missense	6924			L47345	CCDS239.2	1p36.1	2010-06-22	2002-08-29		ENSG00000011007	ENSG00000011007			11620	protein-coding gene	gene with protein product		600786	"transcription elongation factor B (SIII), polypeptide 3 (110kD, elongin A)"			8586449, 7660129	Standard	NM_003198		Approved	SIII, TCEB3A	uc001bho.3	Q14241	OTTHUMG00000002957	ENST00000418390.2:c.1640A>C	1.37:g.24080614A>C	ENSP00000395574:p.Glu547Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7Q8|Q8IXH1	Missense_Mutation	SNP	ENST00000418390.2	37	CCDS239.2	.	.	.	.	.	.	.	.	.	.	A	23.4	4.405738	0.83230	.	.	ENSG00000011007	ENST00000418390	T	0.10382	2.88	5.71	5.71	0.89125	.	0.243724	0.31936	N	0.006831	T	0.15435	0.0372	M	0.70275	2.135	0.58432	D	0.999995	D	0.54397	0.966	B	0.42462	0.388	T	0.01269	-1.1400	10	0.72032	D	0.01	-23.7872	10.6424	0.45600	0.9197:0.0:0.0803:0.0	.	547	Q14241	ELOA1_HUMAN	A	547	ENSP00000395574:E547A	ENSP00000395574:E547A	E	+	2	0	TCEB3	23953201	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	5.929000	0.70096	2.179000	0.69175	0.379000	0.24179	GAA		0.473	TCEB3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000008230.2	NM_003198		C	24080614	A	C	24080614	3	2	598	1	0	0	0	0	1	0	0	0	15693	246	9	5	1662	5	TCEB3	1	24080614	Missense_Mutation	SNP	A	TCGA-GL-7773-01A-11D-2136-08	20568634	24080614	225170007	3	35704										
PUM1	9698	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	31479871	31479871	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ccaggcactgtctcgccattGatcacccaggaatattcctt	7	14	2	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:31479871G>C	ENST00000257075.5	-	4	604	c.511C>G	c.(511-513)Caa>Gaa	p.Q171E	PUM1_ENST00000440538.2_Missense_Mutation_p.Q171E|PUM1_ENST00000373747.3_Missense_Mutation_p.Q171E|PUM1_ENST00000423018.2_Intron|PUM1_ENST00000424085.2_Intron|PUM1_ENST00000373741.4_Missense_Mutation_p.Q207E|PUM1_ENST00000426105.2_Missense_Mutation_p.Q171E|PUM1_ENST00000373742.2_Intron	NM_014676.2	NP_055491.1	Q14671	PUM1_HUMAN	pumilio RNA-binding family member 1	171					membrane organization (GO:0061024)|post-Golgi vesicle-mediated transport (GO:0006892)|regulation of translation (GO:0006417)	cytosol (GO:0005829)	poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(2)|endometrium(8)|kidney(4)|large_intestine(8)|lung(17)|ovary(2)|pancreas(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	48		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)		TCTCGCCATTGATCACCCAGG	0.418																																																0													301	283	289					1																	31479871		2203	4300	6503	SO:0001583	missense	9698			AF315592	CCDS338.1, CCDS44099.1	1p35.2	2013-09-02	2013-09-02		ENSG00000134644	ENSG00000134644			14957	protein-coding gene	gene with protein product		607204	"pumilio (Drosophila) homolog 1", "pumilio homolog 1 (Drosophila)"				Standard	NM_001020658		Approved	PUMH1, KIAA0099	uc001bsh.1	Q14671	OTTHUMG00000003795	ENST00000257075.5:c.511C>G	1.37:g.31479871G>C	ENSP00000257075:p.Gln171Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6W4|B4DG92|D3DPN3|E9PCJ0|Q53HH5|Q5VXY7|Q9HAN1	Missense_Mutation	SNP	ENST00000257075.5	37	CCDS338.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	3.154|3.154	-0.173618|-0.173618	0.06421|0.06421	.|.	.|.	ENSG00000134644|ENSG00000134644	ENST00000257075;ENST00000373747;ENST00000426105;ENST00000440538;ENST00000373741;ENST00000543952|ENST00000525843	T;T;T;T;T|.	0.17691|.	2.26;2.53;2.54;2.54;2.53|.	5.26|5.26	5.26|5.26	0.73747|0.73747	.|.	0.000000|.	0.64402|.	D|.	0.000004|.	T|.	0.55800|.	0.1943|.	N|N	0.24115|0.24115	0.695|0.695	0.80722|0.80722	D|D	1|1	B;B;B;B|.	0.15473|.	0.002;0.013;0.001;0.001|.	B;B;B;B|.	0.12156|.	0.002;0.007;0.001;0.001|.	T|.	0.49513|.	-0.8932|.	10|.	0.05620|.	T|.	0.96|.	-4.9673|-4.9673	19.0513|19.0513	0.93046|0.93046	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	207;171;171;171|.	Q5T1Z8;Q14671-2;Q14671;E9PCJ0|.	.;.;PUM1_HUMAN;.|.	E|X	171;171;171;171;207;171|187	ENSP00000257075:Q171E;ENSP00000362852:Q171E;ENSP00000391723:Q171E;ENSP00000401777:Q171E;ENSP00000362846:Q207E|.	ENSP00000257075:Q171E|.	Q|S	-|-	1|2	0|0	PUM1|PUM1	31252458|31252458	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	4.482000|4.482000	0.60257|0.60257	2.736000|2.736000	0.93811|0.93811	0.557000|0.557000	0.71058|0.71058	CAA|TCA		0.418	PUM1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000010671.1			C	31479871	G	C	31479871	3	2	598	1	0	0	0	0	1	0	0	0	12838	1299	45	4	3131	4	PUM1	1	31479871	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	7399257	31479871	217770750	4	35705										
SLC2A1	6513	hgsc.bcm.edu	37	chr1	43393458	43393458	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gatggccacgatgctcagatAggacatccagggtagctgct	13	10	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:43393458A>G	ENST00000426263.3	-	9	1274	c.1096T>C	c.(1096-1098)Tat>Cat	p.Y366H	SLC2A1_ENST00000475162.1_Intron	NM_006516.2	NP_006507.2	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose transporter), member 1	366					carbohydrate metabolic process (GO:0005975)|cellular response to glucose starvation (GO:0042149)|energy reserve metabolic process (GO:0006112)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|L-ascorbic acid metabolic process (GO:0019852)|protein complex assembly (GO:0006461)|regulation of insulin secretion (GO:0050796)|response to osmotic stress (GO:0006970)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	basolateral plasma membrane (GO:0016323)|blood microparticle (GO:0072562)|caveola (GO:0005901)|cell-cell junction (GO:0005911)|cortical actin cytoskeleton (GO:0030864)|extracellular vesicular exosome (GO:0070062)|female pronucleus (GO:0001939)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|midbody (GO:0030496)|plasma membrane (GO:0005886)	D-glucose transmembrane transporter activity (GO:0055056)|dehydroascorbic acid transporter activity (GO:0033300)|glucose transmembrane transporter activity (GO:0005355)|identical protein binding (GO:0042802)|protein self-association (GO:0043621)|xenobiotic transporter activity (GO:0042910)			autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|endometrium(2)|large_intestine(1)|lung(2)|ovary(1)|pancreas(2)	13	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)	ATGCTCAGATAGGACATCCAG	0.552																																																0													56	54	54					1																	43393458		2203	4300	6503	SO:0001583	missense	6513			K03195	CCDS477.1	1p34.2	2013-05-22			ENSG00000117394	ENSG00000117394		"Solute carriers"	11005	protein-coding gene	gene with protein product		138140	"human T-cell leukemia virus (I and II) receptor"	GLUT1, GLUT, HTLVR		8839927, 14622599, 18451999	Standard	NM_006516		Approved	DYT18	uc001cik.2	P11166	OTTHUMG00000007657	ENST00000426263.3:c.1096T>C	1.37:g.43393458A>G	ENSP00000416293:p.Tyr366His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9S6|B2R620|D3DPX0|O75535|Q147X2	Missense_Mutation	SNP	ENST00000426263.3	37	CCDS477.1	.	.	.	.	.	.	.	.	.	.	A	19.49	3.838141	0.71373	.	.	ENSG00000117394	ENST00000426263;ENST00000372501;ENST00000397019	T	0.81247	-1.47	5.31	5.31	0.75309	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.000000	0.85682	D	0.000000	D	0.90755	0.7098	H	0.94808	3.585	0.80722	D	1	D	0.59357	0.985	P	0.58391	0.838	D	0.93044	0.6460	10	0.87932	D	0	.	13.1968	0.59743	1.0:0.0:0.0:0.0	.	366	P11166	GTR1_HUMAN	H	366;366;308	ENSP00000416293:Y366H	ENSP00000361579:Y366H	Y	-	1	0	SLC2A1	43166045	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.141000	0.77330	2.004000	0.58718	0.533000	0.62120	TAT		0.552	SLC2A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000020358.2	NM_006516		G	43393458	A	G	43393458	3	3	598	1	0	0	0	0	1	0	0	0	14551	420	15	3	390	3	SLC2A1	1	43393458	Missense_Mutation	SNP	A	TCGA-GL-7773-01A-11D-2136-08	11913587	43393458	205857163	5	35706										
CDC20	991	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	43828621	43828621	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tactgttctcatttgctccaGgtcacacatcccgggtcctg	8	14	2	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:43828621G>A	ENST00000372462.1	+	10	1524		c.e10-1		ELOVL1_ENST00000470769.1_5'Flank|CDC20_ENST00000310955.6_Splice_Site			Q12834	CDC20_HUMAN	cell division cycle 20						activation of anaphase-promoting complex activity (GO:0051488)|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|cell cycle (GO:0007049)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of cell proliferation (GO:0008284)|positive regulation of synapse maturation (GO:0090129)|positive regulation of synaptic plasticity (GO:0031915)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein ubiquitination (GO:0016567)|regulation of dendrite development (GO:0050773)|regulation of meiosis (GO:0040020)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|protein complex (GO:0043234)|spindle (GO:0005819)	enzyme binding (GO:0019899)|protein C-terminus binding (GO:0008022)			endometrium(2)|kidney(1)|large_intestine(3)|lung(7)|ovary(1)|prostate(1)	15	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				ATTTGCTCCAGGTCACACATC	0.532																																					Esophageal Squamous(137;1154 1759 10362 10401 46925)											0													72	70	70					1																	43828621		2203	4300	6503	SO:0001630	splice_region_variant	991			U05340	CCDS484.1	1p34.1	2013-01-17	2013-01-17		ENSG00000117399	ENSG00000117399		"WD repeat domain containing"	1723	protein-coding gene	gene with protein product		603618	"CDC20 (cell division cycle 20, S. cerevisiae, homolog)", "CDC20 cell division cycle 20 homolog (S. cerevisiae)", "cell division cycle 20 homolog (S. cerevisiae)"			7513050, 9353311	Standard	NM_001255		Approved	p55CDC, CDC20A	uc001cix.3	Q12834	OTTHUMG00000007420	ENST00000372462.1:c.1322-1G>A	1.37:g.43828621G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R6Z6|D3DPJ1|Q5JUY4|Q9BW56|Q9UQI9	Splice_Site	SNP	ENST00000372462.1	37	CCDS484.1	.	.	.	.	.	.	.	.	.	.	G	20.3	3.972600	0.74246	.	.	ENSG00000117399	ENST00000437896;ENST00000310955;ENST00000372462	.	.	.	5.76	4.85	0.62838	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.7097	0.69222	0.0697:0.0:0.9303:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	CDC20	43601208	1.000000	0.71417	0.994000	0.49952	0.916000	0.54674	9.338000	0.96553	1.431000	0.47355	0.561000	0.74099	.		0.532	CDC20-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019488.1	NM_001255	Intron	A	43828621	G	A	43828621	5	1	598	1	0	0	0	0	0	0	1	0	3061	1014	35	2	1359	2	CDC20	1	43828621	Splice_Site	SNP	G	TCGA-GL-7773-01A-11D-2136-08	435163	43828621	205422000	6	35707										
STIL	6491	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	47717027	47717027	+	Frame_Shift_Del	DEL	T	T	-													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	aggttctttactaagaaagcTggcttttcagtcaactgctg							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:47717027delT	ENST00000360380.3	-	18	4008	c.3645delA	c.(3643-3645)ccafs	p.P1215fs	STIL_ENST00000396221.2_Frame_Shift_Del_p.P1198fs|STIL_ENST00000371877.3_Frame_Shift_Del_p.P1216fs|STIL_ENST00000337817.5_Frame_Shift_Del_p.P1215fs|STIL_ENST00000243182.6_Frame_Shift_Del_p.P1215fs	NM_001282936.1	NP_001269865.1	Q15468	STIL_HUMAN	SCL/TAL1 interrupting locus	1215					cell proliferation (GO:0008283)|determination of left/right symmetry (GO:0007368)|embryonic axis specification (GO:0000578)|floor plate development (GO:0033504)|forebrain development (GO:0030900)|heart looping (GO:0001947)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|negative regulation of apoptotic process (GO:0043066)|neural tube closure (GO:0001843)|neural tube development (GO:0021915)|notochord development (GO:0030903)|smoothened signaling pathway (GO:0007224)	centrosome (GO:0005813)|cytoplasm (GO:0005737)				central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(9)|lung(14)|pancreas(1)|skin(1)|upper_aerodigestive_tract(3)	36		Acute lymphoblastic leukemia(5;0.00116)|all_hematologic(5;0.00444)				CTAAGAAAGCTGGCTTTTCAG	0.423																																																0													120	121	121					1																	47717027		2203	4300	6503	SO:0001589	frameshift_variant	6491			M74558	CCDS548.1, CCDS41329.1, CCDS72785.1, CCDS72786.1	1p32	2010-02-09	2005-11-29	2005-11-29	ENSG00000123473	ENSG00000123473			10879	protein-coding gene	gene with protein product		181590	"TAL1 (SCL) interrupting locus"	SIL		2209547	Standard	NM_003035		Approved	MCPH7	uc001crd.1	Q15468	OTTHUMG00000007851	ENST00000360380.3:c.3645delA	1.37:g.47717027delT	ENSP00000353544:p.Pro1215fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T0C5|Q68CN9	Frame_Shift_Del	DEL	ENST00000360380.3	37	CCDS548.1																																																																																				0.423	STIL-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000021649.2	NM_003035		-	47717027	T	-	47717027	7	5	598	1	0	1	0	1	0	0	0	0	15294	1567	55	0	222	0	STIL	1	47717027	Frame_Shift_Del	DEL	T	TCGA-GL-7773-01A-11D-2136-08	3888406	47717027	201533594	7	35708										
PRPF38A	84950	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	52881045	52881046	+	In_Frame_Ins	INS	-	-	AGT													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cagacacaggagccactcaaINSagtctcccgaaaggtaatga							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:52881045_52881046insAGT	ENST00000257181.9	+	9	1069_1070	c.883_884insAGT	c.(883-885)aag>aAGTag	p.295_296ins*	PRPF38A_ENST00000474048.1_3'UTR	NM_032864.3	NP_116253.2	Q8NAV1	PR38A_HUMAN	pre-mRNA processing factor 38A	295					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	spliceosomal complex (GO:0005681)	poly(A) RNA binding (GO:0044822)			cervix(2)|kidney(1)|large_intestine(2)|liver(1)|lung(2)|stomach(1)	9						GAGCCACTCAAAGTCTCCCGAA	0.401																																																0																																										SO:0001652	inframe_insertion	84950			AK092038	CCDS567.1	1p32.3	2013-10-03	2013-10-03		ENSG00000134748	ENSG00000134748			25930	protein-coding gene	gene with protein product			"PRP38 pre-mRNA processing factor 38 (yeast) domain containing A"			12477932	Standard	NM_032864		Approved	FLJ14936, Prp38	uc001ctw.4	Q8NAV1	OTTHUMG00000008199	ENST00000257181.9:c.884_886dupAGT	1.37:g.52881046_52881048dupAGT	ENSP00000257181:p.Ser296*	Somatic		WXS	Illumina HiSeq	Phase_I	Q96JW1|Q9BVZ8	Nonsense_Mutation	INS	ENST00000257181.9	37	CCDS567.1																																																																																				0.401	PRPF38A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000022459.2	NM_032864		AGT	52881046	-	AGT	52881045	7	5	598	1	0	1	1	0	0	0	0	0	12577	15	1	0	917	0	PRPF38A	1	52881045	In_Frame_Ins	INS	-	TCGA-GL-7773-01A-11D-2136-08	5164018	52881045	196369576	8	35709										
TTLL7	79739	hgsc.bcm.edu	37	chr1	84383373	84383373	+	Splice_Site	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	aagatccaaaatatcttcttCcttcaaaaaatattctaatt	1	8	4	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:84383373C>G	ENST00000260505.8	-	14	1878	c.1501G>C	c.(1501-1503)Gaa>Caa	p.E501Q	TTLL7_ENST00000477524.1_5'UTR	NM_024686.4	NP_078962.4	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	501					cell differentiation (GO:0030154)|nervous system development (GO:0007399)|protein polyglutamylation (GO:0018095)	cilium (GO:0005929)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)	ligase activity (GO:0016874)			kidney(1)|large_intestine(8)|lung(15)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	29				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		ATATCTTCTTCCTTCAAAAAA	0.343																																																0													73	71	72					1																	84383373		2202	4300	6502	SO:0001630	splice_region_variant	79739			AY170843	CCDS690.2	1p31.1	2013-02-14			ENSG00000137941	ENSG00000137941		"Tubulin tyrosine ligase-like family"	26242	protein-coding gene	gene with protein product						15890843	Standard	XM_005271208		Approved	FLJ23033	uc001djc.3	Q6ZT98	OTTHUMG00000009932	ENST00000260505.8:c.1501-1G>C	1.37:g.84383373C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TAX8|Q5TAX9|Q6P990|Q86YS1|Q9H5U4	Missense_Mutation	SNP	ENST00000260505.8	37	CCDS690.2	.	.	.	.	.	.	.	.	.	.	C	27.6	4.842043	0.91197	.	.	ENSG00000137941	ENST00000260505;ENST00000370704;ENST00000370703	T	0.05786	3.39	5.82	5.82	0.92795	.	0.000000	0.85682	D	0.000000	T	0.17238	0.0414	M	0.66939	2.045	0.80722	D	1	D	0.89917	1.0	D	0.74023	0.982	T	0.00160	-1.1973	10	0.52906	T	0.07	.	18.2891	0.90123	0.0:1.0:0.0:0.0	.	501	Q6ZT98	TTLL7_HUMAN	Q	501;278;501	ENSP00000260505:E501Q	ENSP00000260505:E501Q	E	-	1	0	TTLL7	84155961	1.000000	0.71417	1.000000	0.80357	0.961000	0.63080	7.272000	0.78516	2.756000	0.94617	0.563000	0.77884	GAA		0.343	TTLL7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000027498.1	NM_024686	Missense_Mutation	G	84383373	C	G	84383373	5	3	598	1	0	0	0	0	0	0	1	0	16744	869	30	4	1194	4	TTLL7	1	84383373	Splice_Site	SNP	C	TCGA-GL-7773-01A-11D-2136-08	31502328	84383373	164867248	9	35710										
DBT	1629	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	100680458	100680458	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ctcggagcttaaccagttcaGtaaggtcaatctcatcacaa	7	11	4	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:100680458G>T	ENST00000370132.4	-	7	867	c.854C>A	c.(853-855)aCt>aAt	p.T285N	DBT_ENST00000370131.3_Missense_Mutation_p.T285N	NM_001918.3	NP_001909.3	P11182	ODB2_HUMAN	dihydrolipoamide branched chain transacylase E2	285					branched-chain amino acid catabolic process (GO:0009083)|cellular nitrogen compound metabolic process (GO:0034641)|small molecule metabolic process (GO:0044281)	mitochondrial alpha-ketoglutarate dehydrogenase complex (GO:0005947)|mitochondrial matrix (GO:0005759)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)	dihydrolipoyllysine-residue (2-methylpropanoyl)transferase activity (GO:0043754)			NS(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(11)|pancreas(1)|prostate(1)|skin(1)	19		all_epithelial(167;5.4e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.0739)|all cancers(265;0.123)|COAD - Colon adenocarcinoma(174;0.154)|Lung(183;0.199)		AACCAGTTCAGTAAGGTCAAT	0.373																																																0													77	73	75					1																	100680458		2203	4300	6503	SO:0001583	missense	1629			BC016675	CCDS767.1	1p31	2008-02-05	2004-11-15		ENSG00000137992	ENSG00000137992			2698	protein-coding gene	gene with protein product		248610	"dihydrolipoamide branched chain transacylase (E2 component of branched chain keto acid dehydrogenase complex; maple syrup urine disease)"			1420314, 1429740	Standard	NM_001918		Approved		uc001dta.3	P11182	OTTHUMG00000010921	ENST00000370132.4:c.854C>A	1.37:g.100680458G>T	ENSP00000359151:p.Thr285Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2R811|Q5VVL8	Missense_Mutation	SNP	ENST00000370132.4	37	CCDS767.1	.	.	.	.	.	.	.	.	.	.	G	13.57	2.275507	0.40294	.	.	ENSG00000137992	ENST00000543138;ENST00000370132;ENST00000370131	T;T	0.51325	0.71;0.71	5.44	4.53	0.55603	2-oxoacid dehydrogenase acyltransferase, catalytic domain (1);Chloramphenicol acetyltransferase-like domain (1);	0.199950	0.51477	D	0.000096	T	0.38427	0.1040	M	0.81112	2.525	0.45634	D	0.99856	B;B	0.18310	0.002;0.027	B;B	0.24701	0.011;0.055	T	0.41875	-0.9484	10	0.42905	T	0.14	-14.8131	14.2831	0.66226	0.0716:0.0:0.9284:0.0	.	104;285	F5H1F9;P11182	.;ODB2_HUMAN	N	104;285;285	ENSP00000359151:T285N;ENSP00000359150:T285N	ENSP00000359150:T285N	T	-	2	0	DBT	100453046	1.000000	0.71417	0.998000	0.56505	0.945000	0.59286	3.303000	0.51858	1.299000	0.44798	0.655000	0.94253	ACT		0.373	DBT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030101.2	NM_001918		T	100680458	G	T	100680458	3	4	598	1	0	0	0	0	1	0	0	0	4260	1029	36	4	614	4	DBT	1	100680458	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	16297085	100680458	148570163	10	35711										
CELSR2	1952	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	109807126	109807126	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gttaacagcctggatcccagCcatggggagagcatcaacgt	12	11	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:109807126C>A	ENST00000271332.3	+	11	5401	c.5340C>A	c.(5338-5340)agC>agA	p.S1780R		NM_001408.2	NP_001399.1	Q9HCU4	CELR2_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 2	1780	Laminin G-like 2. {ECO:0000255|PROSITE- ProRule:PRU00122}.				cerebrospinal fluid secretion (GO:0033326)|cilium assembly (GO:0042384)|cilium movement (GO:0003341)|dendrite morphogenesis (GO:0048813)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|neural plate anterior/posterior regionalization (GO:0021999)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|regulation of cell-cell adhesion (GO:0022407)|regulation of protein localization (GO:0032880)|regulation of transcription, DNA-templated (GO:0006355)|ventricular system development (GO:0021591)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|cervix(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(14)|lung(27)|ovary(5)|prostate(1)|skin(3)|urinary_tract(2)	82		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)		TGGATCCCAGCCATGGGGAGA	0.617																																					NSCLC(158;1285 2011 34800 34852 42084)											0													162	141	148					1																	109807126		2203	4300	6503	SO:0001583	missense	1952			D87469	CCDS796.1	1p13.3	2014-08-08	2013-02-18		ENSG00000143126	ENSG00000143126		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	3231	protein-coding gene	gene with protein product		604265	"cadherin, EGF LAG seven-pass G-type receptor 2, flamingo (Drosophila) homolog"	EGFL2		9693030, 10907856	Standard	NM_001408		Approved	KIAA0279, MEGF3, Flamingo1, CDHF10	uc001dxa.4	Q9HCU4	OTTHUMG00000012003	ENST00000271332.3:c.5340C>A	1.37:g.109807126C>A	ENSP00000271332:p.Ser1780Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T2Y7|Q92566	Missense_Mutation	SNP	ENST00000271332.3	37	CCDS796.1	.	.	.	.	.	.	.	.	.	.	C	11.57	1.677071	0.29783	.	.	ENSG00000143126	ENST00000271332	T	0.69435	-0.4	4.79	3.85	0.44370	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (1);	.	.	.	.	T	0.34366	0.0895	L	0.36672	1.1	0.41718	D	0.989496	B	0.14438	0.01	B	0.09377	0.004	T	0.17776	-1.0358	9	0.15952	T	0.53	.	10.7084	0.45969	0.1481:0.709:0.1429:0.0	.	1780	Q9HCU4	CELR2_HUMAN	R	1780	ENSP00000271332:S1780R	ENSP00000271332:S1780R	S	+	3	2	CELSR2	109608649	0.905000	0.30787	0.998000	0.56505	0.796000	0.44982	1.567000	0.36407	1.193000	0.43086	0.561000	0.74099	AGC		0.617	CELSR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033200.1	NM_001408		A	109807126	C	A	109807126	3	1	598	1	0	0	0	0	1	0	0	0	3224	738	26	4	5382	4	CELSR2	1	109807126	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	9126668	109807126	139443495	11	35712										
CHIA	27159	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	111862962	111862962	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ttctgtgctgtcagagccaaCggcctctaccccgtggcaaa	10	14	3	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:111862962C>T	ENST00000369740.1	+	12	1408	c.1305C>T	c.(1303-1305)aaC>aaT	p.N435N	CHIA_ENST00000483391.1_Silent_p.N274N|CHIA_ENST00000430615.1_Silent_p.N327N|RP5-1125M8.2_ENST00000426321.1_RNA|CHIA_ENST00000343320.6_Silent_p.N435N|CHIA_ENST00000451398.2_Silent_p.N274N|CHIA_ENST00000353665.6_Silent_p.N274N	NM_001258001.1|NM_201653.3	NP_001244930.1|NP_970615.2	Q9BZP6	CHIA_HUMAN	chitinase, acidic	435	Chitin-binding type-2. {ECO:0000255|PROSITE-ProRule:PRU00144}.				apoptotic process (GO:0006915)|cell wall chitin metabolic process (GO:0006037)|chitin catabolic process (GO:0006032)|chitin metabolic process (GO:0006030)|digestion (GO:0007586)|immune response (GO:0006955)|polysaccharide catabolic process (GO:0000272)|positive regulation of chemokine secretion (GO:0090197)|production of molecular mediator involved in inflammatory response (GO:0002532)|response to fungus (GO:0009620)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)	carbohydrate binding (GO:0030246)|chitin binding (GO:0008061)|chitinase activity (GO:0004568)|kinase binding (GO:0019900)|lysozyme activity (GO:0003796)			central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(3)|lung(9)|ovary(1)|skin(1)	23		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)		TCAGAGCCAACGGCCTCTACC	0.597																																																0													68	62	64					1																	111862962		2203	4300	6503	SO:0001819	synonymous_variant	27159			AF290004	CCDS832.1, CCDS41368.1, CCDS58017.1	1p13.2	2008-05-14			ENSG00000134216	ENSG00000134216			17432	protein-coding gene	gene with protein product		606080				11085997	Standard	NM_021797		Approved	AMCase, TSA1902, CHIT2	uc001eas.4	Q9BZP6	OTTHUMG00000011165	ENST00000369740.1:c.1305C>T	1.37:g.111862962C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q32W79|Q32W80|Q3B866|Q5U5Z5|Q5VUV4|Q86UD8|Q9ULY3|Q9ULY4	Silent	SNP	ENST00000369740.1	37	CCDS41368.1																																																																																				0.597	CHIA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030710.1			T	111862962	C	T	111862962	2	4	598	1	0	0	0	0	0	0	0	1	3344	535	19	1		1	CHIA	1	111862962	Silent	SNP	C	TCGA-GL-7773-01A-11D-2136-08	2055836	111862962	137387659	12	35713										
RSBN1	54665	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	114308975	114308975	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	actgatgaatgacatttctaGggatgaagtagatatcattg	10	4	2	5			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:114308975G>C	ENST00000261441.5	-	7	2099	c.2036C>G	c.(2035-2037)cCt>cGt	p.P679R	RSBN1_ENST00000369581.2_5'UTR	NM_018364.3	NP_060834.2	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	679						nucleus (GO:0005634)				breast(1)|endometrium(2)|large_intestine(4)|lung(16)|ovary(1)|prostate(3)|urinary_tract(2)	29	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GACATTTCTAGGGATGAAGTA	0.443																																																0													102	94	97					1																	114308975		2203	4300	6503	SO:0001583	missense	54665			AK002082	CCDS862.1	1p13.1	2008-02-05			ENSG00000081019	ENSG00000081019			25642	protein-coding gene	gene with protein product		615858				12477932	Standard	NM_018364		Approved	FLJ11220, ROSBIN	uc001edq.3	Q5VWQ0	OTTHUMG00000011938	ENST00000261441.5:c.2036C>G	1.37:g.114308975G>C	ENSP00000261441:p.Pro679Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K937|Q6AI21|Q8TC33|Q9HA80|Q9NUP6	Missense_Mutation	SNP	ENST00000261441.5	37	CCDS862.1	.	.	.	.	.	.	.	.	.	.	G	20.7	4.042164	0.75732	.	.	ENSG00000081019	ENST00000261441	.	.	.	5.56	5.56	0.83823	.	0.000000	0.85682	D	0.000000	T	0.81088	0.4750	M	0.77616	2.38	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	T	0.82230	-0.0560	9	0.87932	D	0	-8.3576	19.8965	0.96963	0.0:0.0:1.0:0.0	.	679	Q5VWQ0	RSBN1_HUMAN	R	679	.	ENSP00000261441:P679R	P	-	2	0	RSBN1	114110498	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.813000	0.99286	2.771000	0.95319	0.563000	0.77884	CCT		0.443	RSBN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033022.2	NM_018364		C	114308975	G	C	114308975	3	2	598	1	0	0	0	0	1	0	0	0	13709	1000	35	4	376	4	RSBN1	1	114308975	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	2446013	114308975	134941646	13	35714										
NBPF10	100132406	broad.mit.edu	37	chr1	145323659	145323659	+	Frame_Shift_Del	DEL	A	A	-													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ctgaatgtattgcaggaattAaaaaggacgaagaagaggaa							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:145323659delA	ENST00000342960.5	+	27	3531	c.3496delA	c.(3496-3498)aaafs	p.K1167fs	NBPF10_ENST00000369339.3_Intron|NBPF10_ENST00000369338.1_Intron	NM_001039703.4	NP_001034792.4	Q6P3W6	NBPFA_HUMAN	neuroblastoma breakpoint family, member 10	754						cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(3)|breast(1)|central_nervous_system(3)|endometrium(12)|kidney(23)|lung(15)|ovary(1)|prostate(7)|skin(6)|urinary_tract(2)	73	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		TGCAGGAATTAAAAAGGACGA	0.473																																																0																																										SO:0001589	frameshift_variant	100132406			BC021111		1q21.1	2013-01-17			ENSG00000163386	ENSG00000271425		"neuroblastoma breakpoint family"	31992	protein-coding gene	gene with protein product		614000				16079250	Standard	NM_001039703		Approved	AG1		Q6P3W6	OTTHUMG00000013757	ENST00000342960.5:c.3496delA	1.37:g.145323659delA	ENSP00000345684:p.Lys1167fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5RHC0|Q9NWN6	Frame_Shift_Del	DEL	ENST00000342960.5	37	CCDS53355.1																																																																																				0.473	NBPF10-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001039703		-	145323659	A	-	145323659	7	5	598	1	0	1	0	1	0	0	0	0	10200	363	13	0	3602	0	NBPF10	1	145323659	Frame_Shift_Del	DEL	A	TCGA-GL-7773-01A-11D-2136-08	31014684	145323659	103926962	14	35715										
FLG	2312	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	152276023	152276023	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gggaccctgagtgtccagacCtatctaccgattgctcgtgg	12	12	1	2	rs367989347		TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:152276023C>G	ENST00000368799.1	-	3	11374	c.11339G>C	c.(11338-11340)aGg>aCg	p.R3780T	FLG-AS1_ENST00000420707.1_RNA|FLG-AS1_ENST00000593011.1_RNA	NM_002016.1	NP_002007.1	P20930	FILA_HUMAN	filaggrin	3780	Ser-rich.				establishment of skin barrier (GO:0061436)|keratinocyte differentiation (GO:0030216)|multicellular organismal development (GO:0007275)	cytoplasmic membrane-bounded vesicle (GO:0016023)|intermediate filament (GO:0005882)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|structural molecule activity (GO:0005198)			autonomic_ganglia(1)|breast(13)|central_nervous_system(5)|cervix(2)|endometrium(38)|haematopoietic_and_lymphoid_tissue(1)|kidney(16)|large_intestine(57)|lung(211)|ovary(13)|pancreas(1)|prostate(15)|skin(24)|stomach(5)|upper_aerodigestive_tract(10)|urinary_tract(12)	424	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTGTCCAGACCTATCTACCGA	0.577									Ichthyosis																																							0													359	347	351					1																	152276023		2203	4300	6503	SO:0001583	missense	2312	Familial Cancer Database	X-linked Ichthyosis, Steroid Sulfatase Deficiency, Ichthyosis Vulgaris	XM_048104	CCDS30860.1	1q21.3	2013-01-10			ENSG00000143631	ENSG00000143631		"EF-hand domain containing"	3748	protein-coding gene	gene with protein product		135940				2740331, 2248957, 16444271	Standard	NM_002016		Approved		uc001ezu.1	P20930	OTTHUMG00000012202	ENST00000368799.1:c.11339G>C	1.37:g.152276023C>G	ENSP00000357789:p.Arg3780Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q01720|Q5T583|Q9UC71	Missense_Mutation	SNP	ENST00000368799.1	37	CCDS30860.1	.	.	.	.	.	.	.	.	.	.	C	3.380	-0.126622	0.06795	.	.	ENSG00000143631	ENST00000368799	T	0.01599	4.74	2.62	1.67	0.24075	.	.	.	.	.	T	0.00637	0.0021	L	0.52364	1.645	0.09310	N	1	B	0.18013	0.025	B	0.10450	0.005	T	0.44802	-0.9304	9	0.14656	T	0.56	-2.2716	7.2143	0.25951	0.0:0.6727:0.3273:0.0	.	3780	P20930	FILA_HUMAN	T	3780	ENSP00000357789:R3780T	ENSP00000357789:R3780T	R	-	2	0	FLG	150542647	0.000000	0.05858	0.007000	0.13788	0.002000	0.02628	-0.617000	0.05584	0.644000	0.30656	0.552000	0.68991	AGG		0.577	FLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033742.1	NM_002016		G	152276023	C	G	152276023	3	3	598	1	0	0	0	0	1	0	0	0	5929	681	24	4	850	4	FLG	1	152276023	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	6952364	152276023	96974598	15	35716										
PBX1	5087	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	164781319	164781320	+	Frame_Shift_Ins	INS	-	-	GTATA													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tttatgctgccaaaacagctINSgtcactgctaccaatgtgtc							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:164781319_164781320insGTATA	ENST00000420696.2	+	6	1118_1119	c.930_931insGTATA	c.(931-933)gtcfs	p.-311fs	PBX1_ENST00000367897.1_Frame_Shift_Ins_p.-311fs|PBX1_ENST00000540236.1_Frame_Shift_Ins_p.-311fs|PBX1_ENST00000401534.1_Frame_Shift_Ins_p.-311fs|PBX1_ENST00000560641.1_Frame_Shift_Ins_p.-206fs|PBX1_ENST00000559240.1_Intron|PBX1_ENST00000540246.1_Frame_Shift_Ins_p.-206fs	NM_001204961.1|NM_001204963.1|NM_002585.3	NP_001191890.1|NP_001191892.1|NP_002576.1	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1						adrenal gland development (GO:0030325)|anterior/posterior pattern specification (GO:0009952)|branching involved in ureteric bud morphogenesis (GO:0001658)|embryonic hemopoiesis (GO:0035162)|embryonic limb morphogenesis (GO:0030326)|embryonic skeletal system development (GO:0048706)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|organ morphogenesis (GO:0009887)|positive regulation of cell proliferation (GO:0008284)|positive regulation of G2/M transition of mitotic cell cycle (GO:0010971)|proximal/distal pattern formation (GO:0009954)|regulation of ossification (GO:0030278)|sex differentiation (GO:0007548)|spleen development (GO:0048536)|steroid biosynthetic process (GO:0006694)|thymus development (GO:0048538)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)		EWSR1/PBX1(3)	large_intestine(1)|lung(1)|skin(1)|upper_aerodigestive_tract(1)	4						CCAAAACAGCTGTCACTGCTAC	0.455			T	"TCF3, EWSR1"	"pre B-ALL, myoepithelioma"																																		Dom	yes		1	1q23	5087	pre-B-cell leukemia transcription factor 1		"L, M"	0																																										SO:0001589	frameshift_variant	5087			M86546	CCDS1246.1, CCDS55654.1	1q23.3	2011-06-20	2007-01-30		ENSG00000185630	ENSG00000185630		"Homeoboxes / TALE class"	8632	protein-coding gene	gene with protein product		176310	"pre-B-cell leukemia transcription factor 1"				Standard	NM_002585		Approved		uc001gct.3	P40424	OTTHUMG00000034307	Exception_encountered	1.37:g.164781319_164781320insGTATA	ENSP00000405890:p.Val311fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DSC1|F5H4U9|Q5T488	Frame_Shift_Ins	INS	ENST00000420696.2	37	CCDS1246.1																																																																																				0.455	PBX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000082864.4	NM_002585		GTATA	164781320	-	GTATA	164781319	7	5	598	1	0	1	1	0	0	0	0	0	11499	1567	55	0	952	0	PBX1	1	164781319	Frame_Shift_Ins	INS	-	TCGA-GL-7773-01A-11D-2136-08	12505296	164781319	84469302	16	35717										
BAT2L2	23215	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	171527271	171527271	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	accagctgtgctgaatgataTctctaagaaatgtaagttgc	9	7	1	3			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:171527271T>C	ENST00000338920.4	+	19	6251	c.6014T>C	c.(6013-6015)aTc>aCc	p.I2005T	PRRC2C_ENST00000367742.3_Missense_Mutation_p.I2007T|PRRC2C_ENST00000392078.3_Missense_Mutation_p.I2007T|PRRC2C_ENST00000426496.2_Missense_Mutation_p.I2005T	NM_015172.3	NP_055987.2	Q9Y520	PRC2C_HUMAN	proline-rich coiled-coil 2C	2005					hematopoietic progenitor cell differentiation (GO:0002244)	membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)										CTGAATGATATCTCTAAGAAA	0.423																																																0													63	62	62					1																	171527271		2203	4300	6503	SO:0001583	missense	23215			AL096857	CCDS1296.2	1q24.3	2012-07-18	2010-12-09	2010-12-09	ENSG00000117523	ENSG00000117523			24903	protein-coding gene	gene with protein product			"BAT2 domain containing 1", "HLA-B associated transcript 2-like 2"	BAT2D1, BAT2L2		10470851, 12443540	Standard	NM_015172		Approved	KIAA1096, XTP2	uc010pmg.2	Q9Y520	OTTHUMG00000034665	ENST00000338920.4:c.6014T>C	1.37:g.171527271T>C	ENSP00000343629:p.Ile2005Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q05DM8|Q49A39|Q6PD54|Q9H2N2|Q9HA05|Q9NSM8|Q9NXL3|Q9UF29|Q9UPQ6	Missense_Mutation	SNP	ENST00000338920.4	37	CCDS1296.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	16.38|16.38	3.105838|3.105838	0.56291|0.56291	.|.	.|.	ENSG00000117523|ENSG00000117523	ENST00000392078;ENST00000451306;ENST00000426496;ENST00000367742;ENST00000338920;ENST00000392080|ENST00000495585	T;T;T;T|.	0.03035|.	4.11;4.07;4.12;4.12|.	5.32|5.32	5.32|5.32	0.75619|0.75619	.|.	0.154856|.	0.29253|.	U|.	0.012694|.	T|T	0.58163|0.58163	0.2103|0.2103	L|L	0.51422|0.51422	1.61|1.61	0.45427|0.45427	D|D	0.998403|0.998403	B|.	0.30361|.	0.277|.	B|.	0.35470|.	0.203|.	T|T	0.58589|0.58589	-0.7610|-0.7610	10|5	0.66056|.	D|.	0.02|.	.|.	15.3486|15.3486	0.74363|0.74363	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	2005|.	Q9Y520-4|.	.|.	T|P	2007;1959;2005;2007;2005;1762|553	ENSP00000375928:I2007T;ENSP00000410219:I2005T;ENSP00000356716:I2007T;ENSP00000343629:I2005T|.	ENSP00000343629:I2005T|.	I|S	+|+	2|1	0|0	PRRC2C|PRRC2C	169793895|169793895	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.878000|0.878000	0.50629|0.50629	6.663000|6.663000	0.74431|0.74431	2.013000|2.013000	0.59113|0.59113	0.451000|0.451000	0.29950|0.29950	ATC|TCT		0.423	PRRC2C-010	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000314826.4	NM_015172		C	171527271	T	C	171527271	3	2	598	1	0	0	0	0	1	0	0	0	1321	1435	50	3	6084	3	BAT2L2	1	171527271	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	6745952	171527271	77723350	17	35718										
MRPS14	63931	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	174987712	174987712	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tgaagctgatgaaggaaccaTctgaaagacagagacaaggg	13	6	1	6			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:174987712T>C	ENST00000476371.1	-	2	62	c.46A>G	c.(46-48)Atg>Gtg	p.M16V		NM_022100.2	NP_071383.1			mitochondrial ribosomal protein S14											large_intestine(2)|lung(5)|pancreas(1)|prostate(2)	10						GAAGGAACCATCTGAAAGACA	0.448																																																0													98	85	89					1																	174987712		2203	4300	6503	SO:0001630	splice_region_variant	63931			AB051350	CCDS1316.1	1q25.1	2012-09-13			ENSG00000120333	ENSG00000120333		"Mitochondrial ribosomal proteins / small subunits"	14049	protein-coding gene	gene with protein product		611978					Standard	NR_037606		Approved	HSMRPS14	uc001gkk.3	O60783	OTTHUMG00000034878	ENST00000476371.1:c.46-1A>G	1.37:g.174987712T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000476371.1	37	CCDS1316.1	.	.	.	.	.	.	.	.	.	.	T	0.064	-1.217425	0.01542	.	.	ENSG00000120333	ENST00000476371	.	.	.	5.67	-1.6	0.08426	.	0.671809	0.15704	N	0.248788	T	0.11707	0.0285	N	0.04043	-0.29	0.22745	N	0.998783	B	0.02656	0.0	B	0.01281	0.0	T	0.34601	-0.9822	9	0.02654	T	1	-0.3997	7.7061	0.28650	0.2345:0.5387:0.0:0.2267	.	16	O60783	RT14_HUMAN	V	16	.	ENSP00000420714:M16V	M	-	1	0	MRPS14	173254335	0.995000	0.38212	0.560000	0.28344	0.318000	0.28184	0.132000	0.15891	-0.280000	0.09154	-0.256000	0.11100	ATG		0.448	MRPS14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084416.2	NM_022100	Missense_Mutation	C	174987712	T	C	174987712	5	2	598	1	0	0	0	0	0	0	1	0	9831	1449	50	3	348	3	MRPS14	1	174987712	Splice_Site	SNP	T	TCGA-GL-7773-01A-11D-2136-08	3460441	174987712	74262909	18	35719										
TNR	7143	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	175355248	175355248	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	acacctcgtatcgggagccaGgccgcagggcctgcactgag	14	14	0	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:175355248G>C	ENST00000367674.2	-	8	2405	c.1697C>G	c.(1696-1698)cCt>cGt	p.P566R	TNR_ENST00000263525.2_Missense_Mutation_p.P566R			Q92752	TENR_HUMAN	tenascin R	566	Fibronectin type-III 3. {ECO:0000255|PROSITE-ProRule:PRU00316}.				associative learning (GO:0008306)|axon guidance (GO:0007411)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|locomotory exploration behavior (GO:0035641)|long-term synaptic potentiation (GO:0060291)|negative regulation of axon extension involved in regeneration (GO:0048692)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of synaptic transmission (GO:0050805)|neuromuscular process controlling balance (GO:0050885)|neuron cell-cell adhesion (GO:0007158)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|positive regulation of transmission of nerve impulse (GO:0051971)|synapse organization (GO:0050808)|telencephalon cell migration (GO:0022029)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|membrane raft (GO:0045121)|nucleus (GO:0005634)|perineuronal net (GO:0072534)|proteinaceous extracellular matrix (GO:0005578)				NS(3)|breast(7)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(29)|lung(98)|ovary(4)|pancreas(5)|prostate(4)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(1)	177	Renal(580;0.146)					TCGGGAGCCAGGCCGCAGGGC	0.612																																																0													63	60	61					1																	175355248		2203	4300	6503	SO:0001583	missense	7143			X98085	CCDS1318.1	1q24	2013-02-11	2012-07-12		ENSG00000116147	ENSG00000116147		"Fibrinogen C domain containing", "Fibronectin type III domain containing"	11953	protein-coding gene	gene with protein product	"restrictin", "janusin"	601995				8626505, 8940128	Standard	NM_003285		Approved		uc009wwu.1	Q92752	OTTHUMG00000034876	ENST00000367674.2:c.1697C>G	1.37:g.175355248G>C	ENSP00000356646:p.Pro566Arg	Somatic		WXS	Illumina HiSeq	Phase_I	C9J563|Q15568|Q5R3G0	Missense_Mutation	SNP	ENST00000367674.2	37	CCDS1318.1	.	.	.	.	.	.	.	.	.	.	G	18.84	3.710158	0.68730	.	.	ENSG00000116147	ENST00000367674;ENST00000263525;ENST00000367673	T;T	0.68903	-0.36;-0.36	5.58	5.58	0.84498	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	D	0.84964	0.5589	M	0.86502	2.82	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.86989	0.2109	10	0.72032	D	0.01	.	19.1714	0.93580	0.0:0.0:1.0:0.0	.	566	Q92752	TENR_HUMAN	R	566	ENSP00000356646:P566R;ENSP00000263525:P566R	ENSP00000263525:P566R	P	-	2	0	TNR	173621871	1.000000	0.71417	0.953000	0.39169	0.256000	0.26092	8.911000	0.92721	2.613000	0.88420	0.650000	0.86243	CCT		0.612	TNR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084414.4	NM_003285		C	175355248	G	C	175355248	3	2	598	1	0	0	0	0	1	0	0	0	16350	1000	35	4	2443	4	TNR	1	175355248	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	367536	175355248	73895373	19	35720										
DHX9	1660	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	182856426	182856426	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gctatagaggagtttcccgaGgtggctttagaggcaactct	13	8	1	2	rs571363823		TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:182856426G>C	ENST00000367549.3	+	28	3780	c.3670G>C	c.(3670-3672)Ggt>Cgt	p.G1224R	DHX9_ENST00000485081.1_3'UTR	NM_001357.4	NP_001348.2	Q08211	DHX9_HUMAN	DEAH (Asp-Glu-Ala-His) box helicase 9	1224	NTD.				ATP catabolic process (GO:0006200)|cellular response to heat (GO:0034605)|circadian rhythm (GO:0007623)|CRD-mediated mRNA stabilization (GO:0070934)|DNA duplex unwinding (GO:0032508)|gene expression (GO:0010467)|innate immune response (GO:0045087)|mRNA splicing, via spliceosome (GO:0000398)|osteoblast differentiation (GO:0001649)|positive regulation of type I interferon production (GO:0032481)|RNA splicing (GO:0008380)	centrosome (GO:0005813)|CRD-mediated mRNA stability complex (GO:0070937)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|ATP-dependent RNA helicase activity (GO:0004004)|DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)|RNA helicase activity (GO:0003724)|RNA polymerase II transcription factor binding (GO:0001085)			NS(1)|autonomic_ganglia(1)|central_nervous_system(1)|endometrium(10)|kidney(3)|large_intestine(7)|liver(1)|lung(19)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	49						AGTTTCCCGAGGTGGCTTTAG	0.592																																					Colon(69;210 1162 3697 13559 39565)											0													77	83	81					1																	182856426		1903	4120	6023	SO:0001583	missense	1660			L13848	CCDS41444.1	1q25	2013-05-13	2013-05-13	2003-06-20	ENSG00000135829	ENSG00000135829		"DEAH-boxes"	2750	protein-coding gene	gene with protein product	"NDH II", "RNA helicase A"	603115	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 9 (RNA helicase A, nuclear DNA helicase II; leukophysin)", "DEAH (Asp-Glu-Ala-His) box polypeptide 9"	LKP, DDX9		8344961, 9111062	Standard	NM_001357		Approved	RHA	uc001gpr.3	Q08211	OTTHUMG00000035337	ENST00000367549.3:c.3670G>C	1.37:g.182856426G>C	ENSP00000356520:p.Gly1224Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNV4|Q05CI5|Q12803|Q32Q22|Q5VY62|Q6PD69|Q99556	Missense_Mutation	SNP	ENST00000367549.3	37	CCDS41444.1	.	.	.	.	.	.	.	.	.	.	G	11.36	1.615017	0.28712	.	.	ENSG00000135829	ENST00000367549	D	0.98329	-4.87	3.88	2.96	0.34315	.	0.241496	0.34725	N	0.003731	D	0.94748	0.8305	L	0.27053	0.805	0.58432	D	0.999996	P;P	0.47106	0.89;0.83	P;P	0.44946	0.465;0.465	D	0.91260	0.5036	10	0.13470	T	0.59	.	9.1231	0.36799	0.1132:0.0:0.8868:0.0	.	503;1224	B3KU66;Q08211	.;DHX9_HUMAN	R	1224	ENSP00000356520:G1224R	ENSP00000356520:G1224R	G	+	1	0	DHX9	181123049	1.000000	0.71417	0.182000	0.23118	0.556000	0.35491	6.067000	0.71193	0.619000	0.30197	0.561000	0.74099	GGT		0.592	DHX9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085522.2	NM_030588		C	182856426	G	C	182856426	3	2	598	1	0	0	0	0	1	0	0	0	4518	1000	35	4	3776	4	DHX9	1	182856426	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	7501178	182856426	66394195	20	35721										
RGS18	64407	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	192128419	192128419	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tttcatgaagacacccgctcCagtagatctgggcacttggc	10	12	2	3			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:192128419C>T	ENST00000367460.3	+	2	370	c.189C>T	c.(187-189)tcC>tcT	p.S63S	RGS18_ENST00000481707.1_3'UTR	NM_130782.2	NP_570138.1	Q9NS28	RGS18_HUMAN	regulator of G-protein signaling 18	63					G-protein coupled receptor signaling pathway (GO:0007186)|termination of G-protein coupled receptor signaling pathway (GO:0038032)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	GTPase activator activity (GO:0005096)			kidney(1)|large_intestine(2)|lung(15)|ovary(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	24						ACACCCGCTCCAGTAGATCTG	0.363																																																0													46	50	48					1																	192128419		2203	4300	6503	SO:0001819	synonymous_variant	64407			AF268036	CCDS1374.1	1q31.2	2008-02-05	2007-08-14		ENSG00000150681	ENSG00000150681		"Regulators of G-protein signaling"	14261	protein-coding gene	gene with protein product		607192	"regulator of G-protein signalling 18"			11042171	Standard	NM_130782		Approved	RGS13	uc001gsg.3	Q9NS28	OTTHUMG00000035592	ENST00000367460.3:c.189C>T	1.37:g.192128419C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RD23	Silent	SNP	ENST00000367460.3	37	CCDS1374.1																																																																																				0.363	RGS18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086382.1	NM_130782		T	192128419	C	T	192128419	2	4	598	1	0	0	0	0	0	0	0	1	13313	581	21	2		2	RGS18	1	192128419	Silent	SNP	C	TCGA-GL-7773-01A-11D-2136-08	9271993	192128419	57122202	21	35722										
SIPA1L2	57568	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	232649814	232649814	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gagttggctcgagagagcgcAatccgcctgtcgccttcccc	12	15	0	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:232649814A>T	ENST00000366630.1	-	2	1630	c.1272T>A	c.(1270-1272)atT>atA	p.I424I	SIPA1L2_ENST00000262861.4_Silent_p.I424I			Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like 2	424					regulation of small GTPase mediated signal transduction (GO:0051056)		GTPase activator activity (GO:0005096)			NS(1)|breast(5)|central_nervous_system(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(13)|lung(49)|ovary(2)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	103		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GAGAGAGCGCAATCCGCCTGT	0.517																																																0													138	137	138					1																	232649814		1984	4161	6145	SO:0001819	synonymous_variant	57568			AB037810	CCDS41474.1	1q42.2	2008-02-05			ENSG00000116991	ENSG00000116991			23800	protein-coding gene	gene with protein product		611609					Standard	NM_020808		Approved	KIAA1389	uc001hvg.3	Q9P2F8	OTTHUMG00000037820	ENST00000366630.1:c.1272T>A	1.37:g.232649814A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2TV88|Q5VXR7|Q5VXR8|Q641Q4|Q8NA38|Q96DZ3|Q9H9F6	Silent	SNP	ENST00000366630.1	37	CCDS41474.1																																																																																				0.517	SIPA1L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092318.1	XM_045839		T	232649814	A	T	232649814	2	4	598	1	0	0	0	0	0	0	0	1	14343	126	5	5		5	SIPA1L2	1	232649814	Silent	SNP	A	TCGA-GL-7773-01A-11D-2136-08	40521395	232649814	16600807	22	35723										
LGALS8	3964	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	236702385	236702385	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tatggtgctgaaggacaaatTccaggtaggttttggagagg	15	4	0	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr1:236702385T>A	ENST00000366584.4	+	4	907	c.341T>A	c.(340-342)tTc>tAc	p.F114Y	LGALS8_ENST00000416919.2_Missense_Mutation_p.F114Y|LGALS8_ENST00000450372.2_Missense_Mutation_p.F114Y|LGALS8_ENST00000341872.6_Missense_Mutation_p.F114Y|LGALS8_ENST00000526634.1_Missense_Mutation_p.F114Y|LGALS8_ENST00000525042.1_Missense_Mutation_p.F114Y|RP11-385F5.4_ENST00000433131.1_RNA|LGALS8_ENST00000352231.2_Missense_Mutation_p.F114Y|LGALS8_ENST00000323938.6_Missense_Mutation_p.F87Y|LGALS8_ENST00000527974.1_Missense_Mutation_p.F114Y|RP11-385F5.5_ENST00000608547.1_RNA|LGALS8_ENST00000526589.1_Missense_Mutation_p.F114Y	NM_201544.2	NP_963838.1	O00214	LEG8_HUMAN	lectin, galactoside-binding, soluble, 8	114	Galectin 1. {ECO:0000255|PROSITE- ProRule:PRU00639}.				plasma cell differentiation (GO:0002317)|T cell costimulation (GO:0031295)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	carbohydrate binding (GO:0030246)			kidney(1)|large_intestine(5)|lung(6)|ovary(1)|prostate(1)|skin(1)|stomach(5)	20	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.0253)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			AAGGACAAATTCCAGGTAGGT	0.443																																																0													72	69	70					1																	236702385		2203	4300	6503	SO:0001583	missense	3964			X91790	CCDS1611.1, CCDS1612.1	1q43	2011-08-04	2008-07-25		ENSG00000116977	ENSG00000116977		"Lectins, galactoside-binding"	6569	protein-coding gene	gene with protein product	"galectin 8"	606099				7852431, 8692978	Standard	NM_201545		Approved	PCTA-1	uc001hxy.2	O00214	OTTHUMG00000039953	ENST00000366584.4:c.341T>A	1.37:g.236702385T>A	ENSP00000355543:p.Phe114Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	O15215|Q5T3P5|Q5T3Q4|Q8TEV1|Q96B92|Q9BXC8|Q9H584|Q9H585|Q9UEZ6|Q9UP32|Q9UP33|Q9UP34	Missense_Mutation	SNP	ENST00000366584.4	37	CCDS1612.1	.	.	.	.	.	.	.	.	.	.	T	16.34	3.095567	0.56075	.	.	ENSG00000116977	ENST00000454943;ENST00000527974;ENST00000430527;ENST00000352231;ENST00000406509;ENST00000526589;ENST00000341872;ENST00000450372;ENST00000366584;ENST00000238181;ENST00000356238;ENST00000416919;ENST00000323938;ENST00000526634;ENST00000525042	T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.06528	3.29;3.29;3.29;3.29;3.29;3.29;3.29;3.29;3.29;3.29;3.29;3.29;3.29;3.29	4.77	4.77	0.60923	Concanavalin A-like lectin/glucanase (1);Galectin, carbohydrate recognition domain (4);Concanavalin A-like lectin/glucanase, subgroup (1);	0.159738	0.56097	D	0.000029	T	0.18383	0.0441	L	0.54863	1.705	0.58432	D	0.999999	D;D;P	0.61697	0.99;0.976;0.847	D;D;P	0.64687	0.914;0.928;0.68	T	0.00498	-1.1704	10	0.44086	T	0.13	.	14.4487	0.67370	0.0:0.0:0.0:1.0	.	114;114;114	F6V2D4;O00214;O00214-2	.;LEG8_HUMAN;.	Y	114;114;114;114;114;114;114;114;114;114;114;114;87;114;114	ENSP00000405504:F114Y;ENSP00000431398:F114Y;ENSP00000398630:F114Y;ENSP00000309576:F114Y;ENSP00000385999:F114Y;ENSP00000435460:F114Y;ENSP00000342139:F114Y;ENSP00000408657:F114Y;ENSP00000355543:F114Y;ENSP00000238181:F114Y;ENSP00000410843:F114Y;ENSP00000434860:F87Y;ENSP00000437040:F114Y;ENSP00000431884:F114Y	ENSP00000238181:F114Y	F	+	2	0	LGALS8	234769008	1.000000	0.71417	1.000000	0.80357	0.426000	0.31534	4.655000	0.61476	2.010000	0.58986	0.533000	0.62120	TTC		0.443	LGALS8-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000096365.2	NM_006499		A	236702385	T	A	236702385	3	1	598	1	0	0	0	0	1	0	0	0	8754	1783	62	5	351	5	LGALS8	1	236702385	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	4052571	236702385	12548236	23	35724										
RASGRP3	25780	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	33768640	33768640	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ttcccaagaggactttgaaaGtatagctgccaattttccct	7	10	0	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr2:33768640G>C	ENST00000403687.3	+	13	2080	c.1340G>C	c.(1339-1341)aGt>aCt	p.S447T	RASGRP3_ENST00000402538.3_Missense_Mutation_p.S447T|RASGRP3_ENST00000407811.1_Missense_Mutation_p.S446T|RASGRP3_ENST00000482731.1_3'UTR	NM_001139488.1	NP_001132960.1	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and DAG-regulated)	447	EF-hand 1. {ECO:0000255|PROSITE- ProRule:PRU00448}.				MAPK cascade (GO:0000165)|positive regulation of GTPase activity (GO:0043547)|positive regulation of Rap GTPase activity (GO:0032854)|Ras protein signal transduction (GO:0007265)|small GTPase mediated signal transduction (GO:0007264)	guanyl-nucleotide exchange factor complex (GO:0032045)|integral component of plasma membrane (GO:0005887)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|diacylglycerol binding (GO:0019992)|guanyl-nucleotide exchange factor activity (GO:0005085)|Rap GTPase activator activity (GO:0046582)|Ras guanyl-nucleotide exchange factor activity (GO:0005088)|signal transducer activity (GO:0004871)			large_intestine(3)|lung(3)|ovary(2)|pancreas(1)|stomach(2)	11	all_hematologic(175;0.115)					GACTTTGAAAGTATAGCTGCC	0.338																																																0													100	93	95					2																	33768640		1824	4085	5909	SO:0001583	missense	25780			AB020653	CCDS46256.1, CCDS54346.1	2p25.1-p24.1	2013-01-10			ENSG00000152689	ENSG00000152689		"EF-hand domain containing"	14545	protein-coding gene	gene with protein product		609531				10048485, 10934204	Standard	NM_170672		Approved	KIAA0846, GRP3	uc002roy.3	Q8IV61	OTTHUMG00000152124	ENST00000403687.3:c.1340G>C	2.37:g.33768640G>C	ENSP00000384192:p.Ser447Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D6W583|O94931|Q53SD7	Missense_Mutation	SNP	ENST00000403687.3	37	CCDS46256.1	.	.	.	.	.	.	.	.	.	.	G	16.90	3.250031	0.59212	.	.	ENSG00000152689	ENST00000402538;ENST00000403687;ENST00000407811	T;T;T	0.69175	-0.38;-0.38;-0.38	5.54	5.54	0.83059	EF-hand-like domain (1);	0.096408	0.64402	D	0.000002	T	0.66626	0.2808	N	0.14661	0.345	0.38135	D	0.938277	P;P	0.51240	0.943;0.885	P;P	0.59288	0.855;0.599	T	0.65961	-0.6041	10	0.23302	T	0.38	-3.5489	19.4767	0.94992	0.0:0.0:1.0:0.0	.	446;447	D6W583;Q8IV61	.;GRP3_HUMAN	T	447;447;446	ENSP00000385886:S447T;ENSP00000384192:S447T;ENSP00000383917:S446T	ENSP00000385886:S447T	S	+	2	0	RASGRP3	33622144	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.384000	0.52478	2.601000	0.87937	0.563000	0.77884	AGT		0.338	RASGRP3-006	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000325462.2	NM_015376		C	33768640	G	C	33768640	3	2	598	1	0	0	0	0	1	0	0	0	13089	1029	36	4	1382	4	RASGRP3	2	33768640	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08		33768640	209430733	24	35725										
STRN	6801	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	37129786	37129786	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tttacaactgagtcctgattTttgtcatcttccctgtccgt	6	11	2	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr2:37129786T>G	ENST00000263918.4	-	5	608	c.600A>C	c.(598-600)aaA>aaC	p.K200N	STRN_ENST00000379213.2_Missense_Mutation_p.K188N	NM_003162.3	NP_003153.2	O43815	STRN_HUMAN	striatin, calmodulin binding protein	200					dendrite development (GO:0016358)|locomotory behavior (GO:0007626)|negative regulation of cell proliferation (GO:0008285)|tight junction assembly (GO:0070830)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|dendritic spine (GO:0043197)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)|tight junction (GO:0005923)	armadillo repeat domain binding (GO:0070016)|calmodulin binding (GO:0005516)|estrogen receptor binding (GO:0030331)|protein complex binding (GO:0032403)|protein phosphatase 2A binding (GO:0051721)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(16)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	33		Ovarian(717;0.0129)|all_hematologic(82;0.21)				AGTCCTGATTTTTGTCATCTT	0.393																																																0													204	187	193					2																	37129786		2203	4300	6503	SO:0001583	missense	6801			AJ223814	CCDS1784.1	2p22.2	2013-01-10	2001-11-28		ENSG00000115808	ENSG00000115808		"WD repeat domain containing"	11424	protein-coding gene	gene with protein product		614765	"striatin, calmodulin-binding protein"			9693043, 8769426	Standard	NM_003162		Approved	SG2NA	uc002rpn.3	O43815	OTTHUMG00000100959	ENST00000263918.4:c.600A>C	2.37:g.37129786T>G	ENSP00000263918:p.Lys200Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q3KP65|Q53TQ8|Q9NP38	Missense_Mutation	SNP	ENST00000263918.4	37	CCDS1784.1	.	.	.	.	.	.	.	.	.	.	T	14.10	2.434771	0.43224	.	.	ENSG00000115808	ENST00000263918;ENST00000538092;ENST00000379213	T;T	0.65732	-0.17;-0.17	5.25	4.1	0.47936	.	0.260012	0.36101	N	0.002786	T	0.52821	0.1758	L	0.47190	1.495	0.36799	D	0.885272	B;B	0.14012	0.009;0.001	B;B	0.12837	0.008;0.004	T	0.52682	-0.8543	10	0.32370	T	0.25	-7.8697	10.7081	0.45966	0.0:0.0746:0.0:0.9254	.	188;200	O43815-2;O43815	.;STRN_HUMAN	N	200;175;188	ENSP00000263918:K200N;ENSP00000368513:K188N	ENSP00000263918:K200N	K	-	3	2	STRN	36983290	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	2.314000	0.43743	0.848000	0.35191	0.533000	0.62120	AAA		0.393	STRN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000218568.1			G	37129786	T	G	37129786	3	3	598	1	0	0	0	0	1	0	0	0	15341	1838	64	5	1798	5	STRN	2	37129786	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	3361146	37129786	206069587	25	35726										
CNNM4	26504	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	97428005	97428005	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	aatattgtagatattctctaCgtcaaagacttggcctttgt	7	7	2	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr2:97428005C>A	ENST00000377075.2	+	1	1367	c.1269C>A	c.(1267-1269)taC>taA	p.Y423*		NM_020184.3	NP_064569.3	Q6P4Q7	CNNM4_HUMAN	cyclin and CBS domain divalent metal cation transport mediator 4	423	CBS 1. {ECO:0000255|PROSITE- ProRule:PRU00703}.				biomineral tissue development (GO:0031214)|ion transport (GO:0006811)|response to stimulus (GO:0050896)|visual perception (GO:0007601)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	adenyl nucleotide binding (GO:0030554)			breast(2)|endometrium(4)|kidney(1)|large_intestine(1)|lung(9)|ovary(1)|prostate(2)	20						ATATTCTCTACGTCAAAGACT	0.502																																																0													149	146	147					2																	97428005		2203	4300	6503	SO:0001587	stop_gained	26504			AB046812	CCDS2024.2	2q11.2	2014-08-08	2014-08-07		ENSG00000158158	ENSG00000158158			105	protein-coding gene	gene with protein product		607805	"cyclin M4"	ACDP4		21393841, 24194943	Standard	XM_005263914		Approved	KIAA1592	uc002swx.3	Q6P4Q7	OTTHUMG00000130532	ENST00000377075.2:c.1269C>A	2.37:g.97428005C>A	ENSP00000366275:p.Tyr423*	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z1U0|C7SQM3|C7SQM4|C7SQM5|Q53RE5|Q9H9G3|Q9HCI0|Q9NRN1	Nonsense_Mutation	SNP	ENST00000377075.2	37	CCDS2024.2	.	.	.	.	.	.	.	.	.	.	C	35	5.425731	0.96131	.	.	ENSG00000158158	ENST00000377075	.	.	.	5.05	-5.28	0.02755	.	0.140382	0.49305	D	0.000151	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.05721	T	0.95	.	9.3317	0.38025	0.1152:0.5507:0.0:0.3341	.	.	.	.	X	423	.	ENSP00000366275:Y423X	Y	+	3	2	CNNM4	96791732	0.008000	0.16893	0.908000	0.35775	0.975000	0.68041	-0.996000	0.03709	-1.113000	0.02981	-0.302000	0.09304	TAC		0.502	CNNM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252954.1	NM_020184		A	97428005	C	A	97428005	4	1	598	1	0	0	0	0	0	1	0	0	3617	547	19	4	1271	4	CNNM4	2	97428005	Nonsense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	60298219	97428005	145771368	26	35727										
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	179599140	179599140	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tcaccaacatctgcactattAaacgaaaagatctccagaca	4	12	3	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr2:179599140A>G	ENST00000591111.1	-	50	14684	c.14460T>C	c.(14458-14460)ttT>ttC	p.F4820F	TTN-AS1_ENST00000582847.1_RNA|TTN-AS1_ENST00000585451.1_RNA|TTN_ENST00000589042.1_Silent_p.F5137F|TTN_ENST00000342992.6_Silent_p.F3893F|TTN_ENST00000460472.2_Intron|TTN_ENST00000359218.5_Intron|TTN_ENST00000342175.6_Intron			Q8WZ42	TITIN_HUMAN	titin	12201	Ig-like 28.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGCACTATTAAACGAAAAGA	0.373																																																0													170	159	162					2																	179599140		1893	4123	6016	SO:0001819	synonymous_variant	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.14460T>C	2.37:g.179599140A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Silent	SNP	ENST00000591111.1	37																																																																																					0.373	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		G	179599140	A	G	179599140	2	3	598	1	0	0	0	0	0	0	0	1	16747	359	13	3		3	TTN	2	179599140	Silent	SNP	A	TCGA-GL-7773-01A-11D-2136-08	82171135	179599140	63600233	27	35728										
NEUROD1	4760	broad.mit.edu	37	chr2	182543429	182543429	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tcctcctctcccccgttcctCagtgagtcctcctctgcgtt	6	19	3	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr2:182543429C>A	ENST00000295108.3	-	2	616	c.159G>T	c.(157-159)ctG>ctT	p.L53L	CERKL_ENST00000479558.1_Intron|NEUROD1_ENST00000496876.1_Intron	NM_002500.4	NP_002491.2	Q13562	NDF1_HUMAN	neuronal differentiation 1	53					amacrine cell differentiation (GO:0035881)|anterior/posterior pattern specification (GO:0009952)|cellular response to glucose stimulus (GO:0071333)|cerebellum development (GO:0021549)|dentate gyrus development (GO:0021542)|embryonic organ morphogenesis (GO:0048562)|endocrine pancreas development (GO:0031018)|enteroendocrine cell differentiation (GO:0035883)|glucose homeostasis (GO:0042593)|inner ear development (GO:0048839)|insulin secretion (GO:0030073)|negative regulation of JAK-STAT cascade (GO:0046426)|negative regulation of type B pancreatic cell apoptotic process (GO:2000675)|neurogenesis (GO:0022008)|nitric oxide mediated signal transduction (GO:0007263)|nucleocytoplasmic transport (GO:0006913)|pancreatic A cell fate commitment (GO:0003326)|pancreatic PP cell fate commitment (GO:0003329)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cell differentiation (GO:0045597)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription regulatory region DNA binding (GO:2000679)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cell cycle arrest (GO:0071156)|regulation of insulin secretion (GO:0050796)|regulation of intestinal epithelial structure maintenance (GO:0060730)|response to drug (GO:0042493)|response to glucose (GO:0009749)|signal transduction involved in regulation of gene expression (GO:0023019)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|double-stranded DNA binding (GO:0003690)|E-box binding (GO:0070888)|protein heterodimerization activity (GO:0046982)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II transcription coactivator activity (GO:0001105)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)			endometrium(3)|kidney(1)|large_intestine(6)|lung(9)|ovary(3)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	25			OV - Ovarian serous cystadenocarcinoma(117;0.088)			CCCCGTTCCTCAGTGAGTCCT	0.572																																																0													127	99	109					2																	182543429		2203	4300	6503	SO:0001819	synonymous_variant	4760			U50823	CCDS2283.1	2q32	2013-05-21	2012-02-22		ENSG00000162992	ENSG00000162992		"Basic helix-loop-helix proteins"	7762	protein-coding gene	gene with protein product	"beta-cell E-box transactivator 2", "neurogenic helix-loop-helix protein NEUROD"	601724	"neurogenic differentiation 1"	NEUROD		7754368, 8786144	Standard	NM_002500		Approved	BETA2, BHF-1, NeuroD, bHLHa3, MODY6	uc002uof.4	Q13562	OTTHUMG00000132583	ENST00000295108.3:c.159G>T	2.37:g.182543429C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9I8|F1T0E1|O00343|Q13340|Q5U095|Q96TH0|Q99455|Q9UEC8	Silent	SNP	ENST00000295108.3	37	CCDS2283.1																																																																																				0.572	NEUROD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255792.2	NM_002500		A	182543429	C	A	182543429	2	1	598	1	0	0	0	0	0	0	0	1	10355	813	29	4		4	NEUROD1	2	182543429	Silent	SNP	C	TCGA-GL-7773-01A-11D-2136-08	2944289	182543429	60655944	28	35729										
ANKRD44	91526	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	197889959	197889959	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ttagtagcaccagaatctgaTtcttcaaatccactgtttgt	6	9	3	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr2:197889959T>C	ENST00000328737.2	-	17	1684	c.1608A>G	c.(1606-1608)gaA>gaG	p.E536E	ANKRD44_ENST00000450567.1_Silent_p.E536E|ANKRD44_ENST00000282272.8_Silent_p.E553E|ANKRD44_ENST00000337207.5_Silent_p.E536E			Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	561										NS(1)|endometrium(3)|kidney(2)|large_intestine(9)|lung(20)|ovary(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	45			OV - Ovarian serous cystadenocarcinoma(117;0.246)			CAGAATCTGATTCTTCAAATC	0.388																																																0													133	118	123					2																	197889959		2203	4300	6503	SO:0001819	synonymous_variant	91526			AK097086	CCDS33355.1, CCDS33355.2, CCDS74619.1	2q33.1	2013-01-10			ENSG00000065413	ENSG00000065413		"Serine/threonine phosphatases / Protein phosphatase 6, regulatory subunits", "Ankyrin repeat domain containing"	25259	protein-coding gene	gene with protein product	"protein phosphatase 6 ankyrin repeat subunit B"						Standard	NM_153697		Approved	PP6-ARS-B	uc021vuj.1	Q8N8A2	OTTHUMG00000154411	ENST00000328737.2:c.1608A>G	2.37:g.197889959T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q53SL9|Q6P480|Q86VL5|Q8IZ72|Q9UFA4	Silent	SNP	ENST00000328737.2	37																																																																																					0.388	ANKRD44-002	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000335113.1	NM_153697		C	197889959	T	C	197889959	2	2	598	1	0	0	0	0	0	0	0	1	672	1490	52	3		3	ANKRD44	2	197889959	Silent	SNP	T	TCGA-GL-7773-01A-11D-2136-08	15346530	197889959	45309414	29	35730										
ALS2CR8	79800	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	203848266	203848266	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	agtaccatttctgtgagccaAgttaaacaagaacccaaaga	7	9	1	3			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr2:203848266A>G	ENST00000402905.3	+	16	2418	c.2097A>G	c.(2095-2097)caA>caG	p.Q699Q	CARF_ENST00000320443.8_Silent_p.Q699Q|CARF_ENST00000545262.1_Silent_p.Q623Q|CARF_ENST00000414439.1_Silent_p.Q597Q|CARF_ENST00000438828.2_Silent_p.Q699Q|CARF_ENST00000545253.1_Silent_p.Q611Q|WDR12_ENST00000477723.1_Intron|CARF_ENST00000428585.1_Silent_p.Q623Q	NM_001104586.1|NM_001282910.1|NM_001282911.1|NM_001282912.1	NP_001098056.1|NP_001269839.1|NP_001269840.1|NP_001269841.1	Q8N187	CARTF_HUMAN	calcium responsive transcription factor	699					cellular response to calcium ion (GO:0071277)|cellular response to potassium ion (GO:0035865)|positive regulation of transcription from RNA polymerase II promoter in response to calcium ion (GO:0061400)	nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)										CTGTGAGCCAAGTTAAACAAG	0.328																																																0													81	78	79					2																	203848266		1801	4076	5877	SO:0001819	synonymous_variant	79800			AB053309	CCDS42801.1, CCDS63091.1	2q33.3	2013-06-12	2013-06-12	2013-06-12	ENSG00000138380	ENSG00000138380			14435	protein-coding gene	gene with protein product	"calcium-response factor"	607586	"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 8"	ALS2CR8		11586298, 11832226	Standard	XM_005246858		Approved	FLJ21579, CaRF, NYD-SP24	uc002uzo.2	Q8N187	OTTHUMG00000154528	ENST00000402905.3:c.2097A>G	2.37:g.203848266A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4E1W7|G3V1K7|Q8ND29|Q8WXC0|Q96J78|Q96Q38|Q96Q39|Q9H712	Silent	SNP	ENST00000402905.3	37	CCDS42801.1																																																																																				0.328	CARF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335768.5	NM_001104586		G	203848266	A	G	203848266	2	3	598	1	0	0	0	0	0	0	0	1	555	69	3	3		3	ALS2CR8	2	203848266	Silent	SNP	A	TCGA-GL-7773-01A-11D-2136-08	5958307	203848266	39351107	30	35731										
CHL1	10752	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	407694	407695	+	Frame_Shift_Ins	INS	-	-	T													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ccaaattgcatatgcttgaaINSttacattgtgaaagcaaatg							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr3:407694_407695insT	ENST00000256509.2	+	15	2289_2290	c.1647_1648insT	c.(1648-1650)ttafs	p.L550fs	CHL1-AS1_ENST00000417612.1_RNA|CHL1_ENST00000397491.2_Frame_Shift_Ins_p.L534fs|CHL1-AS1_ENST00000608098.1_RNA	NM_001253387.1|NM_001253388.1|NM_006614.3	NP_001240316.1|NP_001240317.1|NP_006605.2	Q96FC9	DDX11_HUMAN	cell adhesion molecule L1-like	0					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|ATP catabolic process (GO:0006200)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|sister chromatid cohesion (GO:0007062)|viral process (GO:0016032)	midbody (GO:0030496)|nuclear chromatin (GO:0000790)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle pole (GO:0000922)	4 iron, 4 sulfur cluster binding (GO:0051539)|ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA-dependent ATPase activity (GO:0008094)|double-stranded DNA binding (GO:0003690)|helicase activity (GO:0004386)|metal ion binding (GO:0046872)|RNA binding (GO:0003723)|single-stranded DNA binding (GO:0003697)			NS(1)|central_nervous_system(5)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(25)|lung(31)|ovary(1)|prostate(4)|skin(10)|stomach(1)	93		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)		ATATGCTTGAATTACATTGTGA	0.361																																																0																																										SO:0001589	frameshift_variant	10752			AF002246	CCDS2556.1, CCDS58812.1, CCDS74887.1	3p26	2013-05-01	2013-05-01		ENSG00000134121	ENSG00000134121		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	1939	protein-coding gene	gene with protein product	"neural cell adhesion molecule", "close homolog of L1"	607416	"cell adhesion molecule with homology to L1CAM (close homologue of L1)", "cell adhesion molecule with homology to L1CAM (close homolog of L1)"			9799093	Standard	NM_006614		Approved	CALL, L1CAM2, FLJ44930, MGC132578	uc003bot.3	O00533	OTTHUMG00000090601	ENST00000256509.2:c.1649dupT	3.37:g.407696_407696dupT	ENSP00000256509:p.Leu550fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q13333|Q86VQ4|Q86W62|Q92498|Q92770|Q92998|Q92999	Frame_Shift_Ins	INS	ENST00000256509.2	37	CCDS2556.1																																																																																				0.361	CHL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207155.2	NM_006614		T	407695	-	T	407694	7	5	598	1	0	1	1	0	0	0	0	0	3351	98	4	0	1697	0	CHL1	3	407694	Frame_Shift_Ins	INS	-	TCGA-GL-7773-01A-11D-2136-08		407694	197614736	31	35732										
SLC22A13	9390	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	38316610	38316610	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tggaggctccttcagatcacCggcactgcgcctggcttact	11	14	2	1	rs200811458		TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr3:38316610C>A	ENST00000311856.4	+	4	817	c.768C>A	c.(766-768)acC>acA	p.T256T	SLC22A13_ENST00000450935.2_Silent_p.R164R	NM_004256.3	NP_004247.2	Q9Y226	S22AD_HUMAN	solute carrier family 22 (organic anion/urate transporter), member 13	256					nicotinate transport (GO:2001142)|organic cation transport (GO:0015695)|urate transport (GO:0015747)	apical plasma membrane (GO:0016324)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	nicotinate transporter activity (GO:0090416)|organic cation transmembrane transporter activity (GO:0015101)			cervix(1)|endometrium(5)|kidney(1)|large_intestine(4)|lung(7)|skin(1)|urinary_tract(1)	20				KIRC - Kidney renal clear cell carcinoma(284;0.0533)|Kidney(284;0.067)		TTCAGATCACCGGCACTGCGC	0.597																																																0													128	126	127					3																	38316610		2203	4300	6503	SO:0001819	synonymous_variant	9390			AB010438	CCDS2676.1	3p22.2	2013-07-18	2013-07-18	2003-10-15	ENSG00000172940	ENSG00000172940		"Solute carriers"	8494	protein-coding gene	gene with protein product		604047	"organic cationic transporter-like 3", "solute carrier family 22 (organic anion transporter), member 13"	ORCTL3		10072596, 18411268	Standard	NM_004256		Approved	OCTL1, OCTL3, OAT10	uc003chz.3	Q9Y226	OTTHUMG00000131086	ENST00000311856.4:c.768C>A	3.37:g.38316610C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RCV9|Q8IYG1	Silent	SNP	ENST00000311856.4	37	CCDS2676.1																																																																																				0.597	SLC22A13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253746.2	NM_004256		A	38316610	C	A	38316610	2	1	598	1	0	0	0	0	0	0	0	1	14457	639	23	4		4	SLC22A13	3	38316610	Silent	SNP	C	TCGA-GL-7773-01A-11D-2136-08	37908916	38316610	159705820	32	35733										
CAMP	820	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	48266893	48266893	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	aaggattttttgcggaatctTgtacccaggacagagtccta	10	8	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr3:48266893T>C	ENST00000576243.1	+	4	632	c.492T>C	c.(490-492)ctT>ctC	p.L164L	CAMP_ENST00000296435.2_Silent_p.L167L			P49913	CAMP_HUMAN	cathelicidin antimicrobial peptide	164					antibacterial humoral response (GO:0019731)|cellular response to interleukin-1 (GO:0071347)|cellular response to interleukin-6 (GO:0071354)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to peptidoglycan (GO:0071224)|cellular response to tumor necrosis factor (GO:0071356)|defense response to bacterium (GO:0042742)|defense response to Gram-negative bacterium (GO:0050829)|defense response to Gram-positive bacterium (GO:0050830)|innate immune response in mucosa (GO:0002227)|interaction with host (GO:0051701)|killing by host of symbiont cells (GO:0051873)|negative regulation of growth of symbiont in host (GO:0044130)|negative regulation of growth of symbiont on or near host surface (GO:0044140)|phagosome maturation (GO:0090382)|positive regulation of angiogenesis (GO:0045766)|positive regulation of cell proliferation (GO:0008284)|positive regulation of protein phosphorylation (GO:0001934)	cell projection (GO:0042995)|cell wall (GO:0005618)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|specific granule (GO:0042581)				endometrium(2)|large_intestine(1)|lung(1)|skin(1)|upper_aerodigestive_tract(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.000614)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		TGCGGAATCTTGTACCCAGGA	0.453																																																0													103	113	109					3																	48266893		2203	4300	6503	SO:0001819	synonymous_variant	820			BC055089	CCDS2762.1, CCDS2762.2	3p21.3	2014-01-30			ENSG00000164047	ENSG00000164047		"Endogenous ligands"	1472	protein-coding gene	gene with protein product		600474				7624374	Standard	NM_004345		Approved	CAP18, FALL39, FALL-39, LL37	uc003csj.3	P49913	OTTHUMG00000133526	ENST00000576243.1:c.492T>C	3.37:g.48266893T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q71SN9	Silent	SNP	ENST00000576243.1	37																																																																																					0.453	CAMP-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_004345		C	48266893	T	C	48266893	2	2	598	1	0	0	0	0	0	0	0	1	2612	1799	63	3		3	CAMP	3	48266893	Silent	SNP	T	TCGA-GL-7773-01A-11D-2136-08	9950283	48266893	149755537	33	35734										
IQCF2	389123	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	51897303	51897303	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gccactggcaatgccacaacTgccagacctgcgctctcctc	8	18	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr3:51897303T>C	ENST00000333127.3	+	3	441	c.412T>C	c.(412-414)Tgc>Cgc	p.C138R	IQCF2_ENST00000429548.1_3'UTR	NM_203424.1	NP_982248.1	Q8IXL9	IQCF2_HUMAN	IQ motif containing F2	138										endometrium(1)|kidney(2)|large_intestine(2)|lung(3)|prostate(1)|upper_aerodigestive_tract(1)	10				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		ATGCCACAACTGCCAGACCTG	0.577																																																0													120	113	116					3																	51897303		2203	4300	6503	SO:0001583	missense	389123			AK128883	CCDS2835.1	3p21.31	2008-02-05			ENSG00000184345	ENSG00000184345			31815	protein-coding gene	gene with protein product							Standard	NM_203424		Approved		uc003dbt.1	Q8IXL9	OTTHUMG00000156914	ENST00000333127.3:c.412T>C	3.37:g.51897303T>C	ENSP00000329904:p.Cys138Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000333127.3	37	CCDS2835.1	.	.	.	.	.	.	.	.	.	.	T	19.99	3.928595	0.73327	.	.	ENSG00000184345	ENST00000333127	T	0.34859	1.34	5.22	5.22	0.72569	.	0.202993	0.36101	N	0.002800	T	0.52125	0.1715	L	0.58810	1.83	0.48696	D	0.999697	D	0.71674	0.998	D	0.64144	0.922	T	0.54761	-0.8245	10	0.87932	D	0	-16.5932	11.6771	0.51436	0.0:0.0:0.0:1.0	.	138	Q8IXL9	IQCF2_HUMAN	R	138	ENSP00000329904:C138R	ENSP00000329904:C138R	C	+	1	0	IQCF2	51872343	0.999000	0.42202	1.000000	0.80357	0.986000	0.74619	3.496000	0.53288	2.311000	0.77944	0.528000	0.53228	TGC		0.577	IQCF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346594.1	NM_203424		C	51897303	T	C	51897303	3	2	598	1	0	0	0	0	1	0	0	0	7815	1580	55	3	422	3	IQCF2	3	51897303	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	3630410	51897303	146125127	34	35735										
LRTM1	57408	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	54952818	54952823	+	In_Frame_Del	DEL	CAGGAA	CAGGAA	-													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cgaggacactggatcaggagCaggaagagggcagggctggt							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	CAGGAA	CAGGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr3:54952818_54952823delCAGGAA	ENST00000273286.5	-	3	863_868	c.701_706delTTCCTG	c.(700-708)cttcctgct>cct	p.234_236LPA>P	CACNA2D3_ENST00000474759.1_Intron|CACNA2D3_ENST00000415676.2_Intron|CACNA2D3_ENST00000490478.1_Intron|CACNA2D3_ENST00000288197.5_Intron|LRTM1_ENST00000493075.1_In_Frame_Del_p.158_160LPA>P	NM_020678.2	NP_065729.1	Q9HBL6	LRTM1_HUMAN	leucine-rich repeats and transmembrane domains 1	234	LRRCT.					integral component of membrane (GO:0016021)				breast(1)|endometrium(2)|large_intestine(7)|lung(6)|prostate(1)|skin(4)	21				KIRC - Kidney renal clear cell carcinoma(284;0.00975)|Kidney(284;0.0112)|OV - Ovarian serous cystadenocarcinoma(275;0.0502)		GGATCAGGAGCAGGAAGAGGGCAGGG	0.597																																																0																																										SO:0001651	inframe_deletion	57408			AF225421	CCDS2876.1	3p14.3	2006-01-02			ENSG00000144771	ENSG00000144771			25023	protein-coding gene	gene with protein product						12477932	Standard	NM_020678		Approved	HT017	uc003dhl.3	Q9HBL6	OTTHUMG00000158578	ENST00000273286.5:c.701_706delTTCCTG	3.37:g.54952818_54952823delCAGGAA	ENSP00000273286:p.Leu234_Ala236delinsPro	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUU2	In_Frame_Del	DEL	ENST00000273286.5	37	CCDS2876.1																																																																																				0.597	LRTM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351399.1	NM_020678		-	54952823	CAGGAA	-	54952818	7	5	598	1	0	1	0	1	0	0	0	0	9051	710	25	0	335	0	LRTM1	3	54952818	In_Frame_Del	DEL	CAGGAA	TCGA-GL-7773-01A-11D-2136-08	3055515	54952818	143069612	35	35736										
ARHGEF3	50650	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	56779418	56779418	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ctggactcggtgatcttgctTtttgtggtccagcagagctt	12	9	1	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr3:56779418T>G	ENST00000296315.3	-	7	853	c.685A>C	c.(685-687)Aag>Cag	p.K229Q	ARHGEF3_ENST00000496106.1_Missense_Mutation_p.K235Q|ARHGEF3_ENST00000338458.4_Missense_Mutation_p.K261Q|ARHGEF3_ENST00000413728.2_Missense_Mutation_p.K235Q|ARHGEF3_ENST00000495373.1_Missense_Mutation_p.K229Q|ARHGEF3_ENST00000497267.1_Missense_Mutation_p.K200Q	NM_019555.2	NP_062455.1	Q9NR81	ARHG3_HUMAN	Rho guanine nucleotide exchange factor (GEF) 3	229	DH. {ECO:0000255|PROSITE- ProRule:PRU00062}.				apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of Rho GTPase activity (GO:0032321)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|intracellular (GO:0005622)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			cervix(1)|endometrium(3)|kidney(3)|large_intestine(4)|lung(11)|ovary(1)|prostate(1)|urinary_tract(1)	25				KIRC - Kidney renal clear cell carcinoma(284;0.0161)|Kidney(284;0.019)|OV - Ovarian serous cystadenocarcinoma(275;0.193)		TGATCTTGCTTTTTGTGGTCC	0.478																																																0													161	169	166					3																	56779418		2203	4300	6503	SO:0001583	missense	50650			AB209661	CCDS2878.1, CCDS46854.1, CCDS46855.1, CCDS74948.1	3p14.3	2012-09-20			ENSG00000163947	ENSG00000163947		"Rho guanine nucleotide exchange factors"	683	protein-coding gene	gene with protein product	"exchange factor found in platelets and leukemic and neuronal tissues, XPLN", "RhoGEF protein"	612115				10873612	Standard	NM_019555		Approved	STA3, XPLN, GEF3, DKFZP434F2429	uc003dih.2	Q9NR81	OTTHUMG00000158857	ENST00000296315.3:c.685A>C	3.37:g.56779418T>G	ENSP00000296315:p.Lys229Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5U7|Q4FZB6|Q4QQI5|Q4QQQ0|Q59F00|Q6NUN3|Q7Z4U2|Q7Z5T2|Q9H7T4	Missense_Mutation	SNP	ENST00000296315.3	37	CCDS2878.1	.	.	.	.	.	.	.	.	.	.	T	28.7	4.943519	0.92593	.	.	ENSG00000163947	ENST00000296315;ENST00000338458;ENST00000413728;ENST00000496106;ENST00000497267;ENST00000495373	T;T;T;T;T;T	0.32272	1.46;1.46;1.46;1.46;1.46;1.46	5.85	5.85	0.93711	Dbl homology (DH) domain (5);	0.000000	0.85682	D	0.000000	T	0.61813	0.2377	M	0.89601	3.045	0.80722	D	1	D;D;D;D;D;D;D	0.69078	0.966;0.968;0.992;0.984;0.98;0.997;0.98	P;P;P;P;P;D;P	0.63192	0.712;0.571;0.591;0.713;0.665;0.912;0.665	T	0.70669	-0.4808	10	0.87932	D	0	-14.323	16.5479	0.84454	0.0:0.0:0.0:1.0	.	235;200;27;229;261;229;235	E9PG37;E7EU49;Q9NR81-4;C9J586;Q9NR81-2;Q9NR81;Q9NR81-3	.;.;.;.;.;ARHG3_HUMAN;.	Q	229;261;235;235;200;229	ENSP00000296315:K229Q;ENSP00000341071:K261Q;ENSP00000410922:K235Q;ENSP00000420420:K235Q;ENSP00000418826:K200Q;ENSP00000417986:K229Q	ENSP00000296315:K229Q	K	-	1	0	ARHGEF3	56754458	1.000000	0.71417	0.996000	0.52242	0.983000	0.72400	8.040000	0.89188	2.371000	0.80710	0.533000	0.62120	AAG		0.478	ARHGEF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352431.2	NM_019555		G	56779418	T	G	56779418	3	3	598	1	0	0	0	0	1	0	0	0	904	1850	64	5	911	5	ARHGEF3	3	56779418	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	1826600	56779418	141243012	36	35737										
C3orf14	57415	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	62317065	62317065	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cttccacggcctgaggtggtTtctcttgaggtgagcatctt	12	10	2	3			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr3:62317065T>A	ENST00000494481.1	+	5	557	c.243T>A	c.(241-243)gtT>gtA	p.V81V	PTPRG-AS1_ENST00000490916.1_RNA|PTPRG-AS1_ENST00000495542.1_RNA|C3orf14_ENST00000462069.1_Silent_p.V81V|C3orf14_ENST00000542214.1_Silent_p.V81V|C3orf14_ENST00000232519.5_Silent_p.V81V			Q9HBI5	CC014_HUMAN	chromosome 3 open reading frame 14	81										central_nervous_system(1)|large_intestine(1)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(55;0.00023)|KIRC - Kidney renal clear cell carcinoma(15;0.00877)|Kidney(15;0.0101)		CTGAGGTGGTTTCTCTTGAGG	0.393																																																0													102	101	102					3																	62317065		2203	4300	6503	SO:0001819	synonymous_variant	57415			AF236158	CCDS2896.1	3p14.2	2011-11-29			ENSG00000114405	ENSG00000114405			25024	protein-coding gene	gene with protein product						12477932	Standard	XM_005265338		Approved	HT021	uc003dlg.3	Q9HBI5	OTTHUMG00000158704	ENST00000494481.1:c.243T>A	3.37:g.62317065T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9U0	Silent	SNP	ENST00000494481.1	37	CCDS2896.1																																																																																				0.393	C3orf14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351807.1	NM_020685		A	62317065	T	A	62317065	2	1	598	1	0	0	0	0	0	0	0	1	2210	1828	64	5		5	C3orf14	3	62317065	Silent	SNP	T	TCGA-GL-7773-01A-11D-2136-08	5537647	62317065	135705365	37	35738										
CPOX	1371	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr3	98309567	98309567	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ataacagagctcacgcccatAgcacaaaatggcaatttacc	6	12	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr3:98309567A>T	ENST00000264193.2	-	3	938	c.720T>A	c.(718-720)gcT>gcA	p.A240A		NM_000097.5	NP_000088.3	P36551	HEM6_HUMAN	coproporphyrinogen oxidase	240					heme biosynthetic process (GO:0006783)|porphyrin-containing compound metabolic process (GO:0006778)|protoporphyrinogen IX biosynthetic process (GO:0006782)|response to arsenic-containing substance (GO:0046685)|response to insecticide (GO:0017085)|response to iron ion (GO:0010039)|response to lead ion (GO:0010288)|response to methylmercury (GO:0051597)|small molecule metabolic process (GO:0044281)	mitochondrial inner membrane (GO:0005743)|mitochondrial intermembrane space (GO:0005758)|mitochondrion (GO:0005739)	coproporphyrinogen oxidase activity (GO:0004109)|protein homodimerization activity (GO:0042803)|structural constituent of eye lens (GO:0005212)			endometrium(1)|large_intestine(3)|lung(8)|ovary(1)|prostate(1)|skin(1)|stomach(1)	16						TCACGCCCATAGCACAAAATG	0.388																																					Esophageal Squamous(75;7 1223 22300 43648 48951)											0													82	78	79					3																	98309567		2203	4300	6503	SO:0001819	synonymous_variant	1371			BC017210	CCDS2932.1	3q12	2012-10-02		2004-01-30		ENSG00000080819	1.3.3.3		2321	protein-coding gene	gene with protein product	"coproporphyria"	612732	"coproporphyrinogen oxidase (coproporphyria, harderoporphyria)"	CPO		7757079, 8407975	Standard	NM_000097		Approved	CPX, HCP	uc003dsx.3	P36551		ENST00000264193.2:c.720T>A	3.37:g.98309567A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K275|B4DSD5|Q14060|Q53F08|Q8IZ45|Q96AF3	Silent	SNP	ENST00000264193.2	37	CCDS2932.1																																																																																				0.388	CPOX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358900.1	NM_000097		T	98309567	A	T	98309567	2	4	598	1	0	0	0	0	0	0	0	1	3823	407	15	5		5	CPOX	3	98309567	Silent	SNP	A	TCGA-GL-7773-01A-11D-2136-08	35992502	98309567	99712863	38	35739										
ZBTB20	26137	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	114057877	114057878	+	Frame_Shift_Del	DEL	AT	AT	-													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cgtcagacacatgcatcctcAtgtggtcgttgaactgctcg							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr3:114057877_114057878delAT	ENST00000474710.1	-	5	2378_2379	c.2200_2201delAT	c.(2200-2202)atgfs	p.M734fs	ZBTB20_ENST00000464560.1_Frame_Shift_Del_p.M661fs|ZBTB20_ENST00000393785.2_Frame_Shift_Del_p.M661fs|ZBTB20_ENST00000471418.1_Frame_Shift_Del_p.M661fs|ZBTB20_ENST00000462705.1_Frame_Shift_Del_p.M661fs|ZBTB20_ENST00000357258.3_Frame_Shift_Del_p.M661fs|ZBTB20_ENST00000481632.1_Frame_Shift_Del_p.M661fs	NM_001164342.1	NP_001157814.1	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20	734						nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)			breast(1)|central_nervous_system(1)|endometrium(10)|kidney(2)|large_intestine(8)|lung(15)|ovary(4)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	48				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		ATGCATCCTCATGTGGTCGTTG	0.48																																					NSCLC(69;748 1344 9802 11203 30933)											0																																										SO:0001589	frameshift_variant	26137			AF139460	CCDS2981.1, CCDS54626.1	3q13.2	2013-01-08	2004-07-16	2004-07-16	ENSG00000181722	ENSG00000181722		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	13503	protein-coding gene	gene with protein product		606025	"zinc finger protein 288"	ZNF288		10965110, 11352661	Standard	XM_005247339		Approved	ODA-8S, DKFZp566F123, DPZF	uc003ebi.3	Q9HC78	OTTHUMG00000159366	ENST00000474710.1:c.2200_2201delAT	3.37:g.114057877_114057878delAT	ENSP00000419153:p.Met734fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q63HP6|Q8N6R5|Q9Y410	Frame_Shift_Del	DEL	ENST00000474710.1	37	CCDS54626.1																																																																																				0.48	ZBTB20-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000354951.1	NM_015642		-	114057878	AT	-	114057877	7	5	598	1	0	1	0	1	0	0	0	0	17541	217	8	0	28	0	ZBTB20	3	114057877	Frame_Shift_Del	DEL	AT	TCGA-GL-7773-01A-11D-2136-08	15748310	114057877	83964553	39	35740										
MCM2	4171	bcgsc.ca	37	chr3	127340566	127340566	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	acagtgagctcttcaggatgAacaagttcagccacgacctg	10	11	3	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr3:127340566A>G	ENST00000265056.7	+	16	2909	c.2665A>G	c.(2665-2667)Aac>Gac	p.N889D	MCM2_ENST00000468414.1_3'UTR	NM_004526.2	NP_004517.2	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	889					cell cycle (GO:0007049)|cellular response to interleukin-4 (GO:0071353)|DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA strand elongation involved in DNA replication (GO:0006271)|DNA unwinding involved in DNA replication (GO:0006268)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|nucleosome assembly (GO:0006334)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|MCM complex (GO:0042555)|microtubule cytoskeleton (GO:0015630)|nuclear origin of replication recognition complex (GO:0005664)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)|DNA replication origin binding (GO:0003688)|metal ion binding (GO:0046872)			ovary(3)|skin(2)|stomach(1)	6						CTTCAGGATGAACAAGTTCAG	0.498																																																0													100	95	96					3																	127340566		2203	4300	6503	SO:0001583	missense	4171			X67334	CCDS3043.1	3q21	2007-04-04	2007-04-04		ENSG00000073111	ENSG00000073111			6944	protein-coding gene	gene with protein product	"mitotin"	116945	"minichromosome maintenance deficient (S. cerevisiae) 2 (mitotin)", "MCM2 minichromosome maintenance deficient 2, mitotin (S. cerevisiae)"	CCNL1, CDCL1		1710453, 8258304	Standard	NM_004526		Approved	D3S3194, KIAA0030, BM28, cdc19	uc003ejp.4	P49736	OTTHUMG00000159637	ENST00000265056.7:c.2665A>G	3.37:g.127340566A>G	ENSP00000265056:p.Asn889Asp	Somatic		WXS	Illumina HiSeq	Phase_1	Q14577|Q15023|Q8N2V1|Q969W7|Q96AE1|Q9BRM7	Missense_Mutation	SNP	ENST00000265056.7	37	CCDS3043.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	19.42|19.42	3.824506|3.824506	0.71143|0.71143	.|.	.|.	ENSG00000073111|ENSG00000073111	ENST00000265056;ENST00000539922;ENST00000543142|ENST00000491422	T|.	0.02421|.	4.3|.	5.38|5.38	4.22|4.22	0.49857|0.49857	.|.	0.132166|.	0.64402|.	D|.	0.000002|.	T|.	0.74261|.	0.3693|.	M|M	0.81239|0.81239	2.535|2.535	0.80722|0.80722	D|D	1|1	P;P;B|.	0.38788|.	0.51;0.647;0.419|.	B;P;P|.	0.50896|.	0.282;0.653;0.455|.	T|.	0.74717|.	-0.3571|.	10|.	0.51188|.	T|.	0.08|.	-40.2853|-40.2853	12.3561|12.3561	0.55176|0.55176	0.8518:0.1482:0.0:0.0|0.8518:0.1482:0.0:0.0	.|.	939;759;889|.	F5H1E9;B4DSV5;P49736|.	.;.;MCM2_HUMAN|.	D|W	889;793;939|820	ENSP00000265056:N889D|.	ENSP00000265056:N889D|.	N|X	+|+	1|3	0|0	MCM2|MCM2	128823256|128823256	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.487000|0.487000	0.33371|0.33371	5.837000|5.837000	0.69381|0.69381	0.882000|0.882000	0.36016|0.36016	0.260000|0.260000	0.18958|0.18958	AAC|TGA		0.498	MCM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356612.1			G	127340566	A	G	127340566	3	3	598	1	0	0	0	0	1	0	0	0	9393	246	9	3	2727	3	MCM2	3	127340566	Missense_Mutation	SNP	A	TCGA-GL-7773-01A-11D-2136-08	13282689	127340566	70681864	40	35741										
PLSCR2	57047	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	146167110	146167110	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cttaaaaacccagaccagtgCttagaaatcctgccaaccac	5	14	0	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr3:146167110C>T	ENST00000497985.1	-	8	1186	c.747G>A	c.(745-747)aaG>aaA	p.K249K	PLSCR2_ENST00000336685.2_Silent_p.K176K	NM_001199978.1	NP_001186907.1	Q9NRY7	PLS2_HUMAN	phospholipid scramblase 2	249					phospholipid scrambling (GO:0017121)	integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|phospholipid scramblase activity (GO:0017128)			endometrium(2)|large_intestine(5)|lung(7)|stomach(1)	15						CAGACCAGTGCTTAGAAATCC	0.328																																																0													128	130	130					3																	146167110		2203	4300	6503	SO:0001819	synonymous_variant	57047				CCDS56284.1, CCDS3134.1, CCDS75029.1	3q24	2008-07-18			ENSG00000163746	ENSG00000163746			16494	protein-coding gene	gene with protein product		607610				10930526	Standard	NM_001199978		Approved		uc003evw.2	Q9NRY7	OTTHUMG00000159429	ENST00000497985.1:c.747G>A	3.37:g.146167110C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DXC3|J3KR76|Q0VAQ1|Q6NSW9|Q7Z4L7	Silent	SNP	ENST00000497985.1	37	CCDS56284.1																																																																																				0.328	PLSCR2-002	PUTATIVE	basic|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000355264.1	NM_020359		T	146167110	C	T	146167110	2	4	598	1	0	0	0	0	0	0	0	1	12117	796	28	2		2	PLSCR2	3	146167110	Silent	SNP	C	TCGA-GL-7773-01A-11D-2136-08	18826544	146167110	51855320	41	35742										
MCCC1	56922	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	182789038	182789038	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cggctttaatcatgacaggaTagccaattctcctggcgtgt	10	10	2	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr3:182789038T>C	ENST00000265594.4	-	6	745	c.599A>G	c.(598-600)tAt>tGt	p.Y200C	MCCC1_ENST00000492597.1_Missense_Mutation_p.Y91C|MCCC1_ENST00000539926.1_Missense_Mutation_p.Y65C	NM_020166.3	NP_064551.3	Q96RQ3	MCCA_HUMAN	methylcrotonoyl-CoA carboxylase 1 (alpha)	200	ATP-grasp. {ECO:0000255|PROSITE- ProRule:PRU00409}.|Biotin carboxylation.				biotin metabolic process (GO:0006768)|branched-chain amino acid catabolic process (GO:0009083)|cellular nitrogen compound metabolic process (GO:0034641)|leucine catabolic process (GO:0006552)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|biotin binding (GO:0009374)|biotin carboxylase activity (GO:0004075)|metal ion binding (GO:0046872)|methylcrotonoyl-CoA carboxylase activity (GO:0004485)			central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(9)|liver(1)|lung(17)|ovary(1)|pancreas(2)|prostate(1)|skin(2)	40	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)	CATGACAGGATAGCCAATTCT	0.463																																																0													100	101	101					3																	182789038		2203	4300	6503	SO:0001583	missense	56922			AF310972	CCDS3241.1	3q27.1	2010-04-30	2010-04-30		ENSG00000078070	ENSG00000078070	6.4.1.4		6936	protein-coding gene	gene with protein product		609010	"methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)"			11170888	Standard	XR_241502		Approved	MCCA	uc003fle.3	Q96RQ3	OTTHUMG00000158355	ENST00000265594.4:c.599A>G	3.37:g.182789038T>C	ENSP00000265594:p.Tyr200Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q59ES4|Q9H959|Q9NS97	Missense_Mutation	SNP	ENST00000265594.4	37	CCDS3241.1	.	.	.	.	.	.	.	.	.	.	T	21.0	4.081996	0.76528	.	.	ENSG00000078070	ENST00000265594;ENST00000492597;ENST00000392616;ENST00000539926;ENST00000476176;ENST00000448585;ENST00000541636	D;D;D;D	0.98400	-4.91;-4.91;-4.91;-4.91	5.9	5.9	0.94986	ATP-grasp fold (1);ATP-grasp fold, subdomain 1 (1);Carbamoyl-phosphate synthetase, large subunit, ATP-binding (1);Biotin carboxylation domain (1);	0.053830	0.85682	D	0.000000	D	0.99242	0.9736	H	0.94698	3.57	0.80722	D	1	D;D;D	0.76494	0.999;0.999;0.999	D;D;D	0.73708	0.975;0.975;0.981	D	0.99032	1.0821	10	0.87932	D	0	.	16.3322	0.83039	0.0:0.0:0.0:1.0	.	153;91;200	E9PG35;E9PHF7;Q96RQ3	.;.;MCCA_HUMAN	C	200;91;50;65;153;153;91	ENSP00000265594:Y200C;ENSP00000419898:Y91C;ENSP00000441253:Y65C;ENSP00000420433:Y153C	ENSP00000265594:Y200C	Y	-	2	0	MCCC1	184271732	1.000000	0.71417	0.605000	0.28930	0.929000	0.56500	5.693000	0.68264	2.251000	0.74343	0.528000	0.53228	TAT		0.463	MCCC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350775.1	NM_020166		C	182789038	T	C	182789038	3	2	598	1	0	0	0	0	1	0	0	0	9381	1406	49	3	1634	3	MCCC1	3	182789038	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	36621928	182789038	15233392	42	35743										
IDUA	3425	hgsc.bcm.edu	37	chr4	980971	980971	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gaggccccgcacctggtgcaTgtggacgcggcccgcgcgct	16	16	0	0	rs10794537	byFrequency	TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr4:980971T>G	ENST00000247933.4	+	1	187	c.99T>G	c.(97-99)caT>caG	p.H33Q	SLC26A1_ENST00000398520.2_Intron|IDUA_ENST00000453894.1_Missense_Mutation_p.H33Q	NM_000203.3	NP_000194.2	P35475	IDUA_HUMAN	iduronidase, alpha-L-	33			H -> Q (in dbSNP:rs10794537). {ECO:0000269|PubMed:1362562, ECO:0000269|PubMed:1505961, ECO:0000269|PubMed:1946389, ECO:0000269|PubMed:21394825}.		carbohydrate metabolic process (GO:0005975)|cell morphogenesis (GO:0000902)|chemical homeostasis (GO:0048878)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate catabolic process (GO:0030209)|disaccharide metabolic process (GO:0005984)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|limb morphogenesis (GO:0035108)|lysosome organization (GO:0007040)|skeletal system morphogenesis (GO:0048705)|small molecule metabolic process (GO:0044281)	coated vesicle (GO:0030135)|extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)	L-iduronidase activity (GO:0003940)			breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(5)|upper_aerodigestive_tract(1)	12			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			ACCTGGTGCATGTGGACGCGG	0.801													G|||	4467	0.891973	0.9826	0.8386	5008	,	,		8604	0.8472		0.8042	False		,,,				2504	0.9438															0													1	1	1					4																	980971		552	1375	1927	SO:0001583	missense	3425			M74715	CCDS3343.1	4p16.3	2012-10-02			ENSG00000127415	ENSG00000127415	3.2.1.76		5391	protein-coding gene	gene with protein product		252800				1832239	Standard	NM_000203		Approved	MPS1	uc003gby.3	P35475	OTTHUMG00000088901	ENST00000247933.4:c.99T>G	4.37:g.980971T>G	ENSP00000247933:p.His33Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWK6	Missense_Mutation	SNP	ENST00000247933.4	37	CCDS3343.1	1801|1801	0.8246336996336996|0.8246336996336996	464|464	0.943089430894309|0.943089430894309	294|294	0.8121546961325967|0.8121546961325967	448|448	0.7832167832167832|0.7832167832167832	595|595	0.7849604221635884|0.7849604221635884	G|G	3.726|3.726	-0.056533|-0.056533	0.07362|0.07362	.|.	.|.	ENSG00000127415|ENSG00000127415	ENST00000504568|ENST00000247933;ENST00000453894;ENST00000502910	.|D;D;D	.|0.93247	.|-3.18;-3.19;-3.03	3.62|3.62	-0.897|-0.897	0.10553|0.10553	.|.	.|0.728933	.|0.12190	.|N	.|0.491278	T|T	0.00012|0.00012	0.0000|0.0000	N|N	0.08118|0.08118	0|0	0.80722|0.80722	P|P	0.0|0.0	.|B;B	.|0.02656	.|0.0;0.0	.|B;B	.|0.01281	.|0.0;0.0	T|T	0.36817|0.36817	-0.9732|-0.9732	4|9	.|0.10111	.|T	.|0.7	.|.	1.2904|1.2904	0.02059|0.02059	0.1461:0.2669:0.3485:0.2385|0.1461:0.2669:0.3485:0.2385	rs10794537|rs10794537	.|33;33	.|B3KWK6;P35475	.|.;IDUA_HUMAN	G|Q	33|33	.|ENSP00000247933:H33Q;ENSP00000396458:H33Q;ENSP00000422952:H33Q	.|ENSP00000247933:H33Q	C|H	+|+	1|3	0|2	IDUA|IDUA	970971|970971	0.000000|0.000000	0.05858|0.05858	0.992000|0.992000	0.48379|0.48379	0.012000|0.012000	0.07955|0.07955	-2.547000|-2.547000	0.00931|0.00931	-0.253000|-0.253000	0.09514|0.09514	-1.482000|-1.482000	0.00985|0.00985	TGT|CAT		0.801	IDUA-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000201812.1	NM_000203		G	980971	T	G	980971	3	3	598	1	0	0	0	0	1	0	0	0	7511	1461	51	5	101	5	IDUA	4	980971	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08		980971	190173305	43	35744										
CPZ	8532	hgsc.bcm.edu	37	chr4	8621334	8621334	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ccacaggccacgctggctgcTcaagtactagccccggcccc	10	19	1	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr4:8621334T>C	ENST00000360986.4	+	11	2123	c.1949T>C	c.(1948-1950)cTc>cCc	p.L650P	CPZ_ENST00000315782.6_Missense_Mutation_p.L639P|CPZ_ENST00000429646.2_Missense_Mutation_p.L258P|CPZ_ENST00000382480.2_Missense_Mutation_p.L513P	NM_001014447.2	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z	650					proteolysis (GO:0006508)|Wnt signaling pathway (GO:0016055)	extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)	metallocarboxypeptidase activity (GO:0004181)|zinc ion binding (GO:0008270)			cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(23)|ovary(3)|pancreas(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	46						CGCTGGCTGCTCAAGTACTAG	0.667																																																0													16	15	15					4																	8621334		2198	4295	6493	SO:0001583	missense	8532			U83411	CCDS3404.1, CCDS33953.1, CCDS43212.1	4p16.1	2012-02-10			ENSG00000109625	ENSG00000109625			2333	protein-coding gene	gene with protein product	"metallocarboxypeptidase Z"	603105				9099699	Standard	NM_001014447		Approved		uc003glm.3	Q66K79	OTTHUMG00000090513	ENST00000360986.4:c.1949T>C	4.37:g.8621334T>C	ENSP00000354255:p.Leu650Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O00520|Q96MX2	Missense_Mutation	SNP	ENST00000360986.4	37	CCDS33953.1	.	.	.	.	.	.	.	.	.	.	T	18.24	3.581338	0.65992	.	.	ENSG00000109625	ENST00000360986;ENST00000382480;ENST00000315782;ENST00000429646	T;T;T;T	0.64085	0.22;1.58;-0.08;1.39	4.82	4.82	0.62117	.	0.000000	0.64402	D	0.000013	T	0.77025	0.4070	M	0.71581	2.175	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.998	T	0.79981	-0.1574	10	0.87932	D	0	-47.5465	12.9665	0.58488	0.0:0.0:0.0:1.0	.	639;650	Q66K79-2;Q66K79	.;CBPZ_HUMAN	P	650;513;639;258	ENSP00000354255:L650P;ENSP00000371920:L513P;ENSP00000315074:L639P;ENSP00000403981:L258P	ENSP00000315074:L639P	L	+	2	0	CPZ	8672234	1.000000	0.71417	1.000000	0.80357	0.437000	0.31866	6.992000	0.76238	1.800000	0.52685	0.379000	0.24179	CTC		0.667	CPZ-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000207001.4	NM_003652		C	8621334	T	C	8621334	3	2	598	1	0	0	0	0	1	0	0	0	3841	1551	54	3	1991	3	CPZ	4	8621334	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	7640363	8621334	182532942	44	35745										
CDKL2	8999	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	76529105	76529105	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tccagcaaacacaggattttTattaaaaagctcctgatgcc	6	10	0	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr4:76529105T>A	ENST00000429927.2	-	6	1394	c.691A>T	c.(691-693)Aaa>Taa	p.K231*	CDKL2_ENST00000307465.4_Nonsense_Mutation_p.K231*	NM_003948.3	NP_003939.1	Q92772	CDKL2_HUMAN	cyclin-dependent kinase-like 2 (CDC2-related kinase)	231	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				sex differentiation (GO:0007548)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|cyclin-dependent protein serine/threonine kinase activity (GO:0004693)|protein kinase activity (GO:0004672)			breast(3)|endometrium(1)|large_intestine(4)|lung(6)|ovary(2)|prostate(2)|skin(2)|stomach(2)	22			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			ACAGGATTTTTATTAAAAAGC	0.388																																																0													86	89	88					4																	76529105		2203	4300	6503	SO:0001587	stop_gained	8999			U35146	CCDS3570.1	4q21.21	2011-11-04			ENSG00000138769	ENSG00000138769		"Cyclin-dependent kinases"	1782	protein-coding gene	gene with protein product		603442				9000130	Standard	NM_003948		Approved	P56, KKIAMRE	uc003hiq.3	Q92772	OTTHUMG00000130103	ENST00000429927.2:c.691A>T	4.37:g.76529105T>A	ENSP00000412365:p.Lys231*	Somatic		WXS	Illumina HiSeq	Phase_I	B2R695	Nonsense_Mutation	SNP	ENST00000429927.2	37	CCDS3570.1	.	.	.	.	.	.	.	.	.	.	T	42	9.693897	0.99240	.	.	ENSG00000138769	ENST00000429927;ENST00000307465	.	.	.	5.14	3.9	0.45041	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-24.029	11.3921	0.49820	0.0:0.0:0.1508:0.8492	.	.	.	.	X	231	.	ENSP00000306340:K231X	K	-	1	0	CDKL2	76748129	1.000000	0.71417	1.000000	0.80357	0.919000	0.55068	4.829000	0.62737	2.164000	0.68074	0.460000	0.39030	AAA		0.388	CDKL2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000252409.2	NM_003948		A	76529105	T	A	76529105	4	1	598	1	0	0	0	0	0	1	0	0	3156	1763	61	5	814	5	CDKL2	4	76529105	Nonsense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	67907771	76529105	114625171	45	35746										
USO1	8615	broad.mit.edu	37	chr4	76721515	76721515	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	agatttcagcttacaggacaAattgcagaaaatcttggaga	9	6	2	3			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr4:76721515A>T	ENST00000538159.1	+	16	1602	c.1602A>T	c.(1600-1602)caA>caT	p.Q534H	USO1_ENST00000514213.2_Missense_Mutation_p.Q510H			O60763	USO1_HUMAN	USO1 vesicle transport factor	525	Globular head.				ER to Golgi vesicle-mediated transport (GO:0006888)|Golgi vesicle docking (GO:0048211)|intracellular protein transport (GO:0006886)|membrane fusion (GO:0061025)|mitotic cell cycle (GO:0000278)|transcytosis (GO:0045056)|vesicle fusion with Golgi apparatus (GO:0048280)	endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi stack (GO:0005795)|membrane (GO:0016020)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)|protein transporter activity (GO:0008565)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(7)|ovary(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	24			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TTACAGGACAAATTGCAGAAA	0.348																																																0													78	68	71					4																	76721515		1831	4094	5925	SO:0001583	missense	8615			AL832010	CCDS75144.1	4q21.1	2012-12-10	2012-12-10		ENSG00000138768	ENSG00000138768			30904	protein-coding gene	gene with protein product	"vesicle docking protein", "transcytosis associated protein"	603344	"USO1 homolog, vesicle docking protein (yeast)", "USO1 vesicle docking protein homolog (yeast)"			9478999, 9150144, 12077354, 15979508, 14736916	Standard	XM_006714395		Approved	TAP, VDP, p115	uc003hiu.3	O60763	OTTHUMG00000160952	ENST00000538159.1:c.1602A>T	4.37:g.76721515A>T	ENSP00000440586:p.Gln534His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAQ0|Q6PK63|Q86TB8|Q8N592	Missense_Mutation	SNP	ENST00000538159.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	18.94|18.94	3.730371|3.730371	0.69074|0.69074	.|.	.|.	ENSG00000138768|ENSG00000138768	ENST00000441296|ENST00000508939;ENST00000538159;ENST00000514213;ENST00000264904	.|T;T	.|0.66638	.|-0.22;-0.22	5.83|5.83	1.81|1.81	0.25067|0.25067	.|Vesicle tethering protein Uso1/P115-like , head domain (1);Armadillo-type fold (1);	.|0.053134	.|0.85682	.|D	.|0.000000	T|T	0.63450|0.63450	0.2512|0.2512	L|L	0.48174|0.48174	1.505|1.505	0.58432|0.58432	D|D	0.999992|0.999992	.|B;P	.|0.42483	.|0.059;0.781	.|B;P	.|0.51135	.|0.061;0.66	T|T	0.55289|0.55289	-0.8164|-0.8164	5|10	.|0.13853	.|T	.|0.58	.|.	9.114|9.114	0.36746|0.36746	0.4915:0.0:0.5085:0.0|0.4915:0.0:0.5085:0.0	.|.	.|534;525	.|F5GYR8;O60763	.|.;USO1_HUMAN	I|H	201|360;534;510;453	.|ENSP00000440586:Q534H;ENSP00000444850:Q510H	.|ENSP00000264904:Q453H	K|Q	+|+	2|3	0|2	USO1|USO1	76940539|76940539	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.992000|0.992000	0.81027|0.81027	1.775000|1.775000	0.38584|0.38584	0.356000|0.356000	0.24157|0.24157	0.460000|0.460000	0.39030|0.39030	AAA|CAA		0.348	USO1-202	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_003715		T	76721515	A	T	76721515	3	4	598	1	0	0	0	0	1	0	0	0	17051	11	1	5	1474	5	USO1	4	76721515	Missense_Mutation	SNP	A	TCGA-GL-7773-01A-11D-2136-08	192410	76721515	114432761	46	35747										
KIAA1109	84162	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	123202841	123202841	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gttcttaaattcagtgccatGttagatggtatagccattgg	10	6	2	1	rs115036597		TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr4:123202841G>C	ENST00000264501.4	+	52	9322	c.8949G>C	c.(8947-8949)atG>atC	p.M2983I	KIAA1109_ENST00000388738.3_Missense_Mutation_p.M2983I|KIAA1109_ENST00000455637.1_Missense_Mutation_p.M2983I			Q2LD37	K1109_HUMAN	KIAA1109	2983					regulation of cell growth (GO:0001558)|regulation of epithelial cell differentiation (GO:0030856)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)				breast(7)|central_nervous_system(1)|cervix(1)|endometrium(16)|kidney(6)|large_intestine(33)|liver(4)|lung(74)|ovary(9)|pancreas(1)|prostate(5)|skin(6)|upper_aerodigestive_tract(6)|urinary_tract(3)	172						TCAGTGCCATGTTAGATGGTA	0.383																																																0													121	113	116					4																	123202841		1831	4099	5930	SO:0001583	missense	84162			AL137384	CCDS43267.1	4q28.1	2012-07-09			ENSG00000138688	ENSG00000138688			26953	protein-coding gene	gene with protein product	"fragile site-associated"	611565				16386706	Standard	NM_015312		Approved	FLJ21404, FSA, KIAA1371, Tweek	uc003ieh.3	Q2LD37	OTTHUMG00000150116	ENST00000264501.4:c.8949G>C	4.37:g.123202841G>C	ENSP00000264501:p.Met2983Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W598|Q5CZA9|Q6ZS70|Q6ZV75|Q86XA5|Q8WVD8|Q9H742|Q9NT48|Q9NTC3|Q9NTI4|Q9P2H6|Q9UPP3	Missense_Mutation	SNP	ENST00000264501.4	37	CCDS43267.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	5.047|5.047	0.194277|0.194277	0.09599|0.09599	.|.	.|.	ENSG00000138688|ENSG00000138688	ENST00000264501;ENST00000388738;ENST00000455637|ENST00000419325	T;T;T|.	0.20069|.	2.69;2.69;2.1|.	5.46|5.46	5.46|5.46	0.80206|0.80206	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.33990|0.33990	0.0882|0.0882	N|N	0.04090|0.04090	-0.28|-0.28	0.43073|0.43073	D|D	0.994713|0.994713	B;B|.	0.02656|.	0.0;0.0|.	B;B|.	0.08055|.	0.003;0.001|.	T|T	0.28138|0.28138	-1.0053|-1.0053	10|5	0.05436|.	T|.	0.98|.	.|.	12.6377|12.6377	0.56692|0.56692	0.0759:0.0:0.9241:0.0|0.0759:0.0:0.9241:0.0	.|.	2983;2983|.	Q2LD37-6;Q2LD37|.	.;K1109_HUMAN|.	I|L	2983|941	ENSP00000264501:M2983I;ENSP00000373390:M2983I;ENSP00000389925:M2983I|.	ENSP00000264501:M2983I|.	M|V	+|+	3|1	0|0	KIAA1109|KIAA1109	123422291|123422291	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.985000|0.985000	0.73830|0.73830	6.528000|6.528000	0.73807|0.73807	2.572000|2.572000	0.86782|0.86782	0.591000|0.591000	0.81541|0.81541	ATG|GTT		0.383	KIAA1109-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316415.1	NM_020797		C	123202841	G	C	123202841	3	2	598	1	0	0	0	0	1	0	0	0	8215	1377	48	4	9147	4	KIAA1109	4	123202841	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	46481326	123202841	67951435	47	35748										
FNIP2	57600	hgsc.bcm.edu	37	chr4	159816929	159816929	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tgcatcttgaagatagactaCaggagatgtaccttaaaagt	9	6	1	4			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr4:159816929C>G	ENST00000264433.6	+	16	3253	c.3178C>G	c.(3178-3180)Cag>Gag	p.Q1060E	C4orf45_ENST00000434826.2_Intron|C4orf45_ENST00000508011.1_Intron|FNIP2_ENST00000379346.3_Missense_Mutation_p.Q1083E	NM_020840.1	NP_065891.1	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	1060					intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|protein phosphorylation (GO:0006468)|regulation of protein phosphorylation (GO:0001932)	cytoplasm (GO:0005737)|microtubule organizing center (GO:0005815)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(3)|prostate(1)	9	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		AGATAGACTACAGGAGATGTA	0.408																																																0													119	118	119					4																	159816929		1905	4126	6031	SO:0001583	missense	57600			AB040883	CCDS47155.1	4q32.1	2012-10-31			ENSG00000052795	ENSG00000052795			29280	protein-coding gene	gene with protein product	"O6-methylguanine-induced apoptosis 1"	612768				18403135	Standard	NM_020840		Approved	KIAA1450, FNIPL, MAPO1	uc003iqe.4	Q9P278	OTTHUMG00000161983	ENST00000264433.6:c.3178C>G	4.37:g.159816929C>G	ENSP00000264433:p.Gln1060Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q05DC3|Q96I31|Q9H994	Missense_Mutation	SNP	ENST00000264433.6	37	CCDS47155.1	.	.	.	.	.	.	.	.	.	.	C	31	5.082398	0.94050	.	.	ENSG00000052795	ENST00000264433;ENST00000379346	T;T	0.28069	1.63;1.63	5.49	5.49	0.81192	.	0.000000	0.85682	D	0.000000	T	0.60741	0.2292	M	0.85542	2.76	0.80722	D	1	D	0.69078	0.997	D	0.66602	0.945	T	0.64609	-0.6367	9	.	.	.	.	19.3536	0.94401	0.0:1.0:0.0:0.0	.	1060	Q9P278	FNIP2_HUMAN	E	1060;1083	ENSP00000264433:Q1060E;ENSP00000368651:Q1083E	.	Q	+	1	0	FNIP2	160036379	1.000000	0.71417	0.910000	0.35882	0.996000	0.88848	7.770000	0.85390	2.597000	0.87782	0.591000	0.81541	CAG		0.408	FNIP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366602.1	NM_020840		G	159816929	C	G	159816929	3	3	598	1	0	0	0	0	1	0	0	0	5983	479	17	4	3240	4	FNIP2	4	159816929	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	36614088	159816929	31337347	48	35749										
MTRR	4552	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	7878202	7878202	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ggacagaccttgtgaagtcaGagctgctacacattgaatct	10	9	2	4			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr5:7878202G>T	ENST00000264668.2	+	5	658	c.628G>T	c.(628-630)Gag>Tag	p.E210*	MTRR_ENST00000341013.6_3'UTR|MTRR_ENST00000440940.2_Nonsense_Mutation_p.E183*	NM_002454.2|NM_024010.2	NP_002445.2|NP_076915.2	Q9UBK8	MTRR_HUMAN	5-methyltetrahydrofolate-homocysteine methyltransferase reductase	210	Hinge.				cellular nitrogen compound metabolic process (GO:0034641)|cobalamin metabolic process (GO:0009235)|DNA methylation (GO:0006306)|folic acid metabolic process (GO:0046655)|methionine biosynthetic process (GO:0009086)|methionine metabolic process (GO:0006555)|methylation (GO:0032259)|oxidation-reduction process (GO:0055114)|small molecule metabolic process (GO:0044281)|sulfur amino acid metabolic process (GO:0000096)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intermediate filament cytoskeleton (GO:0045111)|nucleus (GO:0005634)	[methionine synthase] reductase activity (GO:0030586)|flavin adenine dinucleotide binding (GO:0050660)|FMN binding (GO:0010181)|iron ion binding (GO:0005506)|NADP binding (GO:0050661)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen (GO:0016709)|oxidoreductase activity, oxidizing metal ions, NAD or NADP as acceptor (GO:0016723)			NS(1)|breast(3)|endometrium(2)|kidney(1)|large_intestine(4)|liver(1)|lung(14)|ovary(1)|prostate(3)|stomach(1)	31					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	TGTGAAGTCAGAGCTGCTACA	0.478																																																0													82	77	78					5																	7878202		2203	4300	6503	SO:0001587	stop_gained	4552			AF025794	CCDS3874.1, CCDS47190.1	5p15.31	2011-05-12			ENSG00000124275	ENSG00000124275	1.16.1.8		7473	protein-coding gene	gene with protein product		602568				9501215	Standard	NM_024010		Approved	cblE	uc003jed.3	Q9UBK8	OTTHUMG00000090477	ENST00000264668.2:c.628G>T	5.37:g.7878202G>T	ENSP00000264668:p.Glu210*	Somatic		WXS	Illumina HiSeq	Phase_I	O60471|Q32MA9|Q7Z4M8	Nonsense_Mutation	SNP	ENST00000264668.2	37	CCDS3874.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	11.92|11.92	1.783157|1.783157	0.31593|0.31593	.|.	.|.	ENSG00000124275|ENSG00000124275	ENST00000264668;ENST00000440940|ENST00000514220	.|.	.|.	.|.	5.91|5.91	3.14|3.14	0.36123|0.36123	.|.	1.215660|.	0.05458|.	N|.	0.550635|.	.|T	.|0.49898	.|0.1584	.|.	.|.	.|.	0.18873|0.18873	N|N	0.999986|0.999986	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.38394	.|-0.9663	.|4	0.18276|.	T|.	0.48|.	-19.4083|-19.4083	15.3298|15.3298	0.74200|0.74200	0.0:0.4006:0.5994:0.0|0.0:0.4006:0.5994:0.0	.|.	.|.	.|.	.|.	X|I	210;183|111	.|.	ENSP00000264668:E210X|.	E|R	+|+	1|2	0|0	MTRR|MTRR	7931202|7931202	0.022000|0.022000	0.18835|0.18835	0.000000|0.000000	0.03702|0.03702	0.014000|0.014000	0.08584|0.08584	1.921000|1.921000	0.40035|0.40035	0.387000|0.387000	0.25024|0.25024	-0.127000|-0.127000	0.14921|0.14921	GAG|AGA		0.478	MTRR-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000206931.1			T	7878202	G	T	7878202	4	4	598	1	0	0	0	0	0	1	0	0	9968	943	33	4	646	4	MTRR	5	7878202	Nonsense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08		7878202	173037058	49	35750										
RNASEN	29102	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	31515239	31515239	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tccttgattgaggtatagttCttgtctttgccagaactctg	9	8	3	3			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr5:31515239C>G	ENST00000511367.2	-	7	1390	c.1146G>C	c.(1144-1146)aaG>aaC	p.K382N	DROSHA_ENST00000442743.1_Missense_Mutation_p.K345N|DROSHA_ENST00000513349.1_Missense_Mutation_p.K345N|DROSHA_ENST00000344624.3_Missense_Mutation_p.K382N	NM_013235.4	NP_037367.3	Q9NRR4	RNC_HUMAN	drosha, ribonuclease type III	382					defense response to Gram-negative bacterium (GO:0050829)|defense response to Gram-positive bacterium (GO:0050830)|gene expression (GO:0010467)|miRNA metabolic process (GO:0010586)|pre-miRNA processing (GO:0031054)|primary miRNA processing (GO:0031053)|ribosome biogenesis (GO:0042254)|RNA phosphodiester bond hydrolysis (GO:0090501)|RNA phosphodiester bond hydrolysis, endonucleolytic (GO:0090502)|rRNA catabolic process (GO:0016075)	nucleoplasm (GO:0005654)	lipopolysaccharide binding (GO:0001530)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|ribonuclease III activity (GO:0004525)			breast(4)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(19)|lung(33)|ovary(2)|skin(1)	66						AGGTATAGTTCTTGTCTTTGC	0.478																																																0													160	152	154					5																	31515239		1868	4097	5965	SO:0001583	missense	29102			AF116910	CCDS47194.1, CCDS47195.1	5q11.2	2010-11-17	2010-10-28	2010-10-28	ENSG00000113360	ENSG00000113360	3.1.26.3		17904	protein-coding gene	gene with protein product	"drosha, ribonuclease type III", "drosha, double-stranded RNA-specific endoribonuclease"	608828	"ribonuclease type III, nuclear"	RNASEN		10713462, 10948199	Standard	NM_013235		Approved	RNASE3L, Etohi2, HSA242976, RN3	uc003jhg.2	Q9NRR4	OTTHUMG00000161976	ENST00000511367.2:c.1146G>C	5.37:g.31515239C>G	ENSP00000425979:p.Lys382Asn	Somatic		WXS	Illumina HiSeq	Phase_I	E7EMP9|Q7Z5V2|Q86YH0|Q9NW73|Q9Y2V9|Q9Y4Y0	Missense_Mutation	SNP	ENST00000511367.2	37	CCDS47195.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	16.68|16.68	3.189775|3.189775	0.57909|0.57909	.|.	.|.	ENSG00000113360|ENSG00000113360	ENST00000512076|ENST00000511367;ENST00000344624;ENST00000442743;ENST00000513349;ENST00000265075;ENST00000382188;ENST00000512302	.|T;T;T;T;T	.|0.59083	.|0.29;0.29;0.29;0.29;0.29	5.64|5.64	4.78|4.78	0.61160|0.61160	.|.	.|0.048766	.|0.85682	.|D	.|0.000000	T|T	0.54303|0.54303	0.1850|0.1850	N|N	0.19112|0.19112	0.55|0.55	0.44098|0.44098	D|D	0.996864|0.996864	.|D;B;B	.|0.54964	.|0.969;0.421;0.421	.|P;B;B	.|0.55824	.|0.785;0.154;0.154	T|T	0.55560|0.55560	-0.8122|-0.8122	5|10	.|0.44086	.|T	.|0.13	-27.3211|-27.3211	11.1936|11.1936	0.48700|0.48700	0.0:0.8412:0.0:0.1588|0.0:0.8412:0.0:0.1588	.|.	.|314;345;382	.|Q9NRR4-2;E7EMP9;Q9NRR4	.|.;.;RNC_HUMAN	Q|N	144|382;382;345;345;307;338;149	.|ENSP00000425979:K382N;ENSP00000339845:K382N;ENSP00000409335:K345N;ENSP00000424161:K345N;ENSP00000428782:K149N	.|ENSP00000265075:K307N	E|K	-|-	1|3	0|2	DROSHA|DROSHA	31550996|31550996	0.980000|0.980000	0.34600|0.34600	0.968000|0.968000	0.41197|0.41197	0.798000|0.798000	0.45092|0.45092	0.552000|0.552000	0.23376|0.23376	1.395000|1.395000	0.46643|0.46643	0.561000|0.561000	0.74099|0.74099	GAA|AAG		0.478	DROSHA-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366561.3	NM_013235		G	31515239	C	G	31515239	3	3	598	1	0	0	0	0	1	0	0	0	13430	912	32	4	3094	4	RNASEN	5	31515239	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	23637037	31515239	149400021	50	35751										
HEATR7B2	133558	hgsc.bcm.edu	37	chr5	41017998	41017998	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gagctagcagccgcctgacgGatggtgggcagggtatcaca	16	10	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr5:41017998G>C	ENST00000399564.4	-	28	3288	c.2838C>G	c.(2836-2838)atC>atG	p.I946M	MROH2B_ENST00000506092.2_Missense_Mutation_p.I501M	NM_173489.4	NP_775760.3	Q7Z745	MRO2B_HUMAN	maestro heat-like repeat family member 2B	946																	CCGCCTGACGGATGGTGGGCA	0.463																																																0													41	41	41					5																	41017998		1919	4127	6046	SO:0001583	missense	133558				CCDS47202.1	5p13.1	2012-12-19	2012-12-19	2012-12-19	ENSG00000171495	ENSG00000171495		"maestro heat-like repeat containing"	26857	protein-coding gene	gene with protein product			"HEAT repeat family member 7B2"	HEATR7B2		12477932	Standard	NM_173489		Approved	DKFZp781F0822, FLJ40243	uc003jmj.4	Q7Z745	OTTHUMG00000162151	ENST00000399564.4:c.2838C>G	5.37:g.41017998G>C	ENSP00000382476:p.Ile946Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DM1|Q7Z4U4|Q8N7X3	Missense_Mutation	SNP	ENST00000399564.4	37	CCDS47202.1	.	.	.	.	.	.	.	.	.	.	G	13.27	2.186565	0.38609	.	.	ENSG00000171495	ENST00000506092;ENST00000296803;ENST00000399564	T;T	0.68903	-0.36;-0.36	5.86	4.02	0.46733	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.56097	D	0.000027	T	0.74935	0.3782	L	0.54323	1.7	0.32409	N	0.550956	D	0.76494	0.999	D	0.83275	0.996	T	0.78523	-0.2171	10	0.72032	D	0.01	.	8.1374	0.31063	0.1947:0.0:0.8053:0.0	.	946	Q7Z745	HTRB2_HUMAN	M	501;651;946	ENSP00000441504:I501M;ENSP00000382476:I946M	ENSP00000296803:I651M	I	-	3	3	HEATR7B2	41053755	1.000000	0.71417	1.000000	0.80357	0.279000	0.26890	3.156000	0.50708	0.751000	0.32900	0.591000	0.81541	ATC		0.463	MROH2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367558.2	NM_173489		C	41017998	G	C	41017998	3	2	598	1	0	0	0	0	1	0	0	0	7042	1164	41	4	1979	4	HEATR7B2	5	41017998	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	9502759	41017998	139897262	51	35752										
CHD1	1105	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	98192299	98192299	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	acttgaccggtggtctgaatGtaaccgatgatctgagtgag	13	7	2	5			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr5:98192299G>A	ENST00000284049.3	-	35	5067	c.4918C>T	c.(4918-4920)Cat>Tat	p.H1640Y		NM_001270.2	NP_001261.2	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	1640	3 X 5 AA repeats of H-S-D-H-R.				chromatin modification (GO:0016568)|DNA duplex unwinding (GO:0032508)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA binding (GO:0003677)|methylated histone binding (GO:0035064)			NS(1)|breast(4)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(12)|ovary(2)|pancreas(1)|prostate(7)|skin(3)|urinary_tract(2)	49		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	TGGTCTGAATGTAACCGATGA	0.428																																																0													136	128	131					5																	98192299		2203	4299	6502	SO:0001583	missense	1105			AF006513	CCDS34204.1	5q15-q21	2008-07-18			ENSG00000153922	ENSG00000153922			1915	protein-coding gene	gene with protein product		602118				8460153, 9326634	Standard	XM_005271866		Approved		uc003knf.3	O14646	OTTHUMG00000162744	ENST00000284049.3:c.4918C>T	5.37:g.98192299G>A	ENSP00000284049:p.His1640Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RZ3	Missense_Mutation	SNP	ENST00000284049.3	37	CCDS34204.1	.	.	.	.	.	.	.	.	.	.	G	4.283	0.051605	0.08291	.	.	ENSG00000153922	ENST00000422663;ENST00000284049	D	0.89875	-2.58	5.21	5.21	0.72293	.	0.000000	0.34386	U	0.004006	D	0.86079	0.5847	M	0.65498	2.005	0.38271	D	0.942164	B	0.27882	0.192	B	0.22880	0.042	T	0.82969	-0.0193	10	0.02654	T	1	.	18.7493	0.91807	0.0:0.0:1.0:0.0	.	1640	O14646	CHD1_HUMAN	Y	230;1640	ENSP00000284049:H1640Y	ENSP00000284049:H1640Y	H	-	1	0	CHD1	98220199	1.000000	0.71417	0.970000	0.41538	0.993000	0.82548	2.914000	0.48797	2.407000	0.81776	0.655000	0.94253	CAT		0.428	CHD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370295.1	NM_001270		A	98192299	G	A	98192299	3	1	598	1	0	0	0	0	1	0	0	0	3325	1377	48	2	218	2	CHD1	5	98192299	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	57174301	98192299	82722961	52	35753										
PCDHGB2	56103	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	140741729	140741729	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	agaggtattgccagacctcaGcgaccgccgggagccctctg	13	14	2	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr5:140741729G>A	ENST00000522605.1	+	1	2027	c.2027G>A	c.(2026-2028)aGc>aAc	p.S676N	PCDHGA5_ENST00000518069.1_5'Flank|PCDHGA3_ENST00000253812.6_Intron|PCDHGA2_ENST00000394576.2_Intron|PCDHGB1_ENST00000523390.1_Intron|PCDHGA4_ENST00000571252.1_Intron|PCDHGA1_ENST00000517417.1_Intron	NM_018923.2|NM_032096.1	NP_061746.1|NP_115267.1	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2	676					homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			endometrium(1)|kidney(1)|large_intestine(5)|lung(3)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	14			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAGACCTCAGCGACCGCCGG	0.602																																																0													54	59	57					5																	140741729		2031	4196	6227	SO:0001583	missense	56103			AF152331	CCDS54924.1, CCDS75332.1	5q31	2010-01-26				ENSG00000253910		"Cadherins / Protocadherins : Clustered"	8709	other	protocadherin		606300				10380929	Standard	NM_018923		Approved	PCDH-GAMMA-B2		Q9Y5G2		ENST00000522605.1:c.2027G>A	5.37:g.140741729G>A	ENSP00000429018:p.Ser676Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MIJ3|Q9UN65	Missense_Mutation	SNP	ENST00000522605.1	37	CCDS54924.1	.	.	.	.	.	.	.	.	.	.	.	9.065	0.995573	0.19043	.	.	ENSG00000253910	ENST00000522605	T	0.51071	0.72	4.95	3.13	0.36017	.	.	.	.	.	T	0.39937	0.1097	L	0.53617	1.68	0.09310	N	1	B;B	0.24618	0.005;0.107	B;B	0.22601	0.021;0.04	T	0.22977	-1.0201	9	0.21014	T	0.42	.	9.109	0.36716	0.242:0.0:0.758:0.0	.	676;676	Q9Y5G2-2;Q9Y5G2	.;PCDGE_HUMAN	N	676	ENSP00000429018:S676N	ENSP00000429018:S676N	S	+	2	0	PCDHGB2	140721913	0.000000	0.05858	0.045000	0.18777	0.027000	0.11550	0.655000	0.24933	1.220000	0.43490	0.454000	0.30748	AGC		0.602	PCDHGB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374741.1	NM_018923		A	140741729	G	A	140741729	3	1	598	1	0	0	0	0	1	0	0	0	11570	971	34	2	2029	2	PCDHGB2	5	140741729	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	42549430	140741729	40173531	53	35754										
DIAPH1	1729	broad.mit.edu	37	chr5	140953588	140953589	+	In_Frame_Ins	INS	-	-	GAT													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	aggaggaggaggaggaggagINSgaggaggagtggtactatcc							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr5:140953588_140953589insGAT	ENST00000398557.4	-	16	1968_1969	c.1828_1829insATC	c.(1828-1830)cct>cATCct	p.609_610insH	DIAPH1_ENST00000398566.3_In_Frame_Ins_p.600_601insH|DIAPH1_ENST00000389057.5_In_Frame_Ins_p.600_601insH|DIAPH1_ENST00000518047.1_In_Frame_Ins_p.600_601insH|DIAPH1_ENST00000389054.3_In_Frame_Ins_p.609_610insH|DIAPH1_ENST00000520569.1_In_Frame_Ins_p.555_556insH|DIAPH1_ENST00000253811.6_In_Frame_Ins_p.609_610insH|DIAPH1_ENST00000398562.2_In_Frame_Ins_p.600_601insH	NM_005219.4	NP_005210.3	O60610	DIAP1_HUMAN	diaphanous-related formin 1	609	FH1.			Missing (in Ref. 4; AAI17258). {ECO:0000305}.	actin filament polymerization (GO:0030041)|cellular response to histamine (GO:0071420)|cytoskeleton organization (GO:0007010)|positive regulation of cell migration (GO:0030335)|protein localization to microtubule (GO:0035372)|regulation of cell shape (GO:0008360)|regulation of microtubule-based process (GO:0032886)|regulation of release of sequestered calcium ion into cytosol (GO:0051279)|sensory perception of sound (GO:0007605)	cytoplasm (GO:0005737)|mitotic spindle (GO:0072686)|ruffle membrane (GO:0032587)	ion channel binding (GO:0044325)|poly(A) RNA binding (GO:0044822)|receptor binding (GO:0005102)			breast(1)|endometrium(2)|kidney(2)|large_intestine(1)|lung(12)|pancreas(1)|skin(2)|stomach(2)	23			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			aggaggaggaggaggaggagTG	0.584																																																0																																										SO:0001652	inframe_insertion	1729			BC007411		5q31	2013-05-24	2013-05-24		ENSG00000131504	ENSG00000131504			2876	protein-coding gene	gene with protein product		602121	"diaphanous (Drosophila, homolog) 1", "diaphanous homolog 1 (Drosophila)"	DFNA1		9360932, 1350680	Standard	NM_005219		Approved	hDIA1, LFHL1	uc003llb.4	O60610	OTTHUMG00000149893	ENST00000398557.4:c.1828_1829insATC	5.37:g.140953588_140953589insGAT	ENSP00000381565:p.Pro609_Pro610insHis	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF18|B7ZKW2|E9PEZ2|Q17RN4|Q59FH8|Q9UC76	In_Frame_Ins	INS	ENST00000398557.4	37	CCDS43374.1																																																																																				0.584	DIAPH1-203	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding		NM_005219		GAT	140953589	-	GAT	140953588	7	5	598	1	0	1	1	0	0	0	0	0	4520	1000	35	0	2041	0	DIAPH1	5	140953588	In_Frame_Ins	INS	-	TCGA-GL-7773-01A-11D-2136-08	211859	140953588	39961672	54	35755										
F12	2161	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	176829362	176829363	+	Frame_Shift_Del	DEL	GC	GC	-													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gtgtagacgcctggcttgttGcggtcaccacagcccgatcc					rs375101670		TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr5:176829362_176829363delGC	ENST00000253496.3	-	14	1826_1827	c.1778_1779delGC	c.(1777-1779)cgcfs	p.R593fs	F12_ENST00000514943.1_5'Flank|PFN3_ENST00000358571.2_5'Flank	NM_000505.3	NP_000496.2	P00748	FA12_HUMAN	coagulation factor XII (Hageman factor)	593	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|Factor XII activation (GO:0002542)|fibrinolysis (GO:0042730)|innate immune response (GO:0045087)|plasma kallikrein-kinin cascade (GO:0002353)|positive regulation of blood coagulation (GO:0030194)|positive regulation of fibrinolysis (GO:0051919)|positive regulation of plasminogen activation (GO:0010756)|protein autoprocessing (GO:0016540)|protein processing (GO:0016485)|response to misfolded protein (GO:0051788)|zymogen activation (GO:0031638)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	misfolded protein binding (GO:0051787)|serine-type aminopeptidase activity (GO:0070009)|serine-type endopeptidase activity (GO:0004252)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(5)|skin(1)|urinary_tract(1)	12	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)		Ethanolamine Oleate(DB06689)	CTGGCTTGTTGCGGTCACCACA	0.619									Hereditary Angioedema																																							0																																										SO:0001589	frameshift_variant	2161	Familial Cancer Database	HAE, type I-III, Hereditary Angioneurotic Edema, HANE,	M31315	CCDS34302.1	5q35.3	2014-09-17			ENSG00000131187	ENSG00000131187	3.4.21.38		3530	protein-coding gene	gene with protein product		610619					Standard	NM_000505		Approved		uc003mgo.4	P00748	OTTHUMG00000163403	ENST00000253496.3:c.1778_1779delGC	5.37:g.176829362_176829363delGC	ENSP00000253496:p.Arg593fs	Somatic		WXS	Illumina HiSeq	Phase_I	P78339	Frame_Shift_Del	DEL	ENST00000253496.3	37	CCDS34302.1																																																																																				0.619	F12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373217.1			-	176829363	GC	-	176829362	7	5	598	1	0	1	0	1	0	0	0	0	5341	1306	46	0	72	0	F12	5	176829362	Frame_Shift_Del	DEL	GC	TCGA-GL-7773-01A-11D-2136-08	35875774	176829362	4085898	55	35756										
FLT4	2324	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	180030377	180030377	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ggtcacagccacattctggcCaggtcctttacagctgccaa	9	14	2	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr5:180030377C>T	ENST00000261937.6	-	30	3985	c.3907G>A	c.(3907-3909)Ggc>Agc	p.G1303S		NM_182925.4	NP_891555.2	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4	1303					blood vessel morphogenesis (GO:0048514)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|lymph vessel development (GO:0001945)|lymphangiogenesis (GO:0001946)|negative regulation of apoptotic process (GO:0043066)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of cell proliferation (GO:0008284)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of JNK cascade (GO:0046330)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of protein kinase C signaling (GO:0090037)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation vascular endothelial growth factor production (GO:0010575)|protein autophosphorylation (GO:0046777)|regulation of blood vessel remodeling (GO:0060312)|sprouting angiogenesis (GO:0002040)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)|vascular endothelial growth factor signaling pathway (GO:0038084)|vasculature development (GO:0001944)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|growth factor binding (GO:0019838)|protein phosphatase binding (GO:0019903)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)|vascular endothelial growth factor-activated receptor activity (GO:0005021)			NS(1)|breast(3)|central_nervous_system(2)|endometrium(1)|kidney(6)|large_intestine(5)|liver(2)|lung(37)|ovary(6)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	71	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)	Axitinib(DB06626)|Pazopanib(DB06589)|Regorafenib(DB08896)|Sorafenib(DB00398)|Sunitinib(DB01268)	ACATTCTGGCCAGGTCCTTTA	0.617																																					Colon(97;1075 1466 27033 27547 35871)											0													24	26	25					5																	180030377		2203	4300	6503	SO:0001583	missense	2324			X68203	CCDS4457.1, CCDS43412.1	5q34-q35	2013-01-29			ENSG00000037280	ENSG00000037280	2.7.10.1	"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	3767	protein-coding gene	gene with protein product		136352				1319394	Standard	NM_002020		Approved	VEGFR3, PCL	uc003mlz.4	P35916	OTTHUMG00000130931	ENST00000261937.6:c.3907G>A	5.37:g.180030377C>T	ENSP00000261937:p.Gly1303Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6L4|B5A926|Q16067|Q86W07|Q86W08	Missense_Mutation	SNP	ENST00000261937.6	37	CCDS4457.1	.	.	.	.	.	.	.	.	.	.	C	9.313	1.056047	0.19907	.	.	ENSG00000037280	ENST00000261937	T	0.75050	-0.9	4.62	2.77	0.32553	.	.	.	.	.	T	0.50292	0.1607	L	0.27053	0.805	0.09310	N	1	B	0.11235	0.004	B	0.08055	0.003	T	0.42015	-0.9476	9	0.02654	T	1	.	1.1998	0.01882	0.2134:0.4115:0.2083:0.1668	.	1303	P35916	VGFR3_HUMAN	S	1303	ENSP00000261937:G1303S	ENSP00000261937:G1303S	G	-	1	0	FLT4	179962983	0.001000	0.12720	0.010000	0.14722	0.901000	0.52897	0.037000	0.13840	1.051000	0.40369	0.471000	0.43371	GGC		0.617	FLT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253527.4			T	180030377	C	T	180030377	3	4	598	1	0	0	0	0	1	0	0	0	5951	594	21	2	188	2	FLT4	5	180030377	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	3201015	180030377	884883	56	35757										
CDKAL1	54901	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	20548882	20548882	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ggggttgttctcataataatTcagatggagaatatatggct	11	4	2	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr6:20548882T>G	ENST00000378610.1	+	2	242	c.232T>G	c.(232-234)Tca>Gca	p.S78A	CDKAL1_ENST00000378624.4_Intron|CDKAL1_ENST00000274695.4_Missense_Mutation_p.S78A			Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein 1-like 1	78	MTTase N-terminal. {ECO:0000255|PROSITE- ProRule:PRU00780}.				maintenance of translational fidelity (GO:1990145)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|rough endoplasmic reticulum (GO:0005791)	4 iron, 4 sulfur cluster binding (GO:0051539)|metal ion binding (GO:0046872)|N6-threonylcarbomyladenosine methylthiotransferase activity (GO:0035598)			breast(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(14)|ovary(2)|stomach(1)	29	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)			TCATAATAATTCAGATGGAGA	0.294																																																0													80	85	83					6																	20548882		2203	4300	6503	SO:0001583	missense	54901			AK000349	CCDS4546.1	6p22.2	2008-02-05			ENSG00000145996	ENSG00000145996			21050	protein-coding gene	gene with protein product		611259					Standard	NM_017774		Approved	FLJ20342	uc003ndd.2	Q5VV42	OTTHUMG00000014340	ENST00000378610.1:c.232T>G	6.37:g.20548882T>G	ENSP00000367873:p.Ser78Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6S0|Q6P385|Q6ZR27|Q9NXB3	Missense_Mutation	SNP	ENST00000378610.1	37	CCDS4546.1	.	.	.	.	.	.	.	.	.	.	T	24.3	4.515717	0.85389	.	.	ENSG00000145996	ENST00000274695;ENST00000378610	T;T	0.43688	0.94;0.94	5.81	5.81	0.92471	Methylthiotransferase, N-terminal (2);	0.000000	0.85682	D	0.000000	T	0.49372	0.1553	L	0.52823	1.66	0.80722	D	1	D;D	0.89917	0.998;1.0	D;D	0.83275	0.951;0.996	T	0.39313	-0.9620	10	0.24483	T	0.36	.	16.1708	0.81812	0.0:0.0:0.0:1.0	.	78;78	Q5VV42;Q5VV42-3	CDKAL_HUMAN;.	A	78	ENSP00000274695:S78A;ENSP00000367873:S78A	ENSP00000274695:S78A	S	+	1	0	CDKAL1	20656861	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.400000	0.79949	2.225000	0.72522	0.533000	0.62120	TCA		0.294	CDKAL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039986.1	NM_017774		G	20548882	T	G	20548882	3	3	598	1	0	0	0	0	1	0	0	0	3154	1783	62	5	238	5	CDKAL1	6	20548882	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08		20548882	150566185	57	35758										
HLA-G	3135	ucsc.edu	37	chr6	29797253	29797253	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gactatgaggccaccctgagGtgctgggccctgggcttcta	14	12	1	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr6:29797253G>A	ENST00000360323.6	+	4	702	c.678G>A	c.(676-678)agG>agA	p.R226R	HLA-G_ENST00000376828.2_Silent_p.R231R|HLA-G_ENST00000376818.3_Silent_p.R134R|HLA-G_ENST00000428701.1_Silent_p.R226R|HLA-G_ENST00000376815.3_Intron			P17693	HLAG_HUMAN	major histocompatibility complex, class I, G	226	Alpha-3.|Ig-like C1-type.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular defense response (GO:0006968)|cytokine-mediated signaling pathway (GO:0019221)|immune response-inhibiting cell surface receptor signaling pathway (GO:0002767)|interferon-gamma-mediated signaling pathway (GO:0060333)|negative regulation of dendritic cell differentiation (GO:2001199)|negative regulation of T cell proliferation (GO:0042130)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of regulatory T cell differentiation (GO:0045591)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|positive regulation of T cell tolerance induction (GO:0002666)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)	early endosome membrane (GO:0031901)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|membrane (GO:0016020)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)	p.R226S(1)		central_nervous_system(1)|endometrium(1)|large_intestine(5)|lung(4)|ovary(3)|pancreas(1)|prostate(5)|skin(1)	21						CCACCCTGAGGTGCTGGGCCC	0.592																																																1	Substitution - Missense(1)	lung(1)											92	96	94					6																	29797253		2203	4300	6503	SO:0001819	synonymous_variant	3135				CCDS4668.1	6p21.3	2013-01-11	2007-12-12		ENSG00000204632	ENSG00000204632		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4964	protein-coding gene	gene with protein product	"b2 microglobulin"	142871	"HLA-G histocompatibility antigen, class I, G"				Standard	NM_002127		Approved		uc003nnw.2	P17693	OTTHUMG00000031157	ENST00000360323.6:c.678G>A	6.37:g.29797253G>A		Somatic		WXS	Illumina HiSeq			Silent	SNP	ENST00000360323.6	37	CCDS4668.1																																																																																				0.592	HLA-G-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076286.2	NM_002127		A	29797253	G	A	29797253	2	1	598	1	0	0	0	0	0	0	0	1	7219	1252	44	2		2	HLA-G	6	29797253	Silent	SNP	G	TCGA-GL-7773-01A-11D-2136-08	9248371	29797253	141317814	58	35759										
COL11A2	1302	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	33156195	33156195	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gatgatcactccatgggtgtCcaatactggacgagcacttc	10	11	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr6:33156195C>A	ENST00000374708.4	-	4	808	c.550G>T	c.(550-552)Gac>Tac	p.D184Y	COL11A2_ENST00000395194.1_Missense_Mutation_p.D184Y|COL11A2_ENST00000361917.1_Missense_Mutation_p.D184Y|COL11A2_ENST00000341947.2_Missense_Mutation_p.D184Y|COL11A2_ENST00000374713.1_Missense_Mutation_p.D184Y|COL11A2_ENST00000395197.1_Missense_Mutation_p.D184Y|COL11A2_ENST00000374714.1_Missense_Mutation_p.D184Y|COL11A2_ENST00000374712.1_Missense_Mutation_p.D184Y|COL11A2_ENST00000357486.1_Missense_Mutation_p.D184Y	NM_080681.2	NP_542412.2	P13942	COBA2_HUMAN	collagen, type XI, alpha 2	184	Laminin G-like.				cartilage development (GO:0051216)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|palate development (GO:0060021)|sensory perception of sound (GO:0007605)|skeletal system development (GO:0001501)|soft palate development (GO:0060023)	collagen type XI trimer (GO:0005592)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	extracellular matrix structural constituent conferring tensile strength (GO:0030020)|metal ion binding (GO:0046872)|protein binding, bridging (GO:0030674)			biliary_tract(1)|breast(1)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(13)|liver(1)|lung(27)|ovary(5)|prostate(5)|skin(6)	68						CCATGGGTGTCCAATACTGGA	0.542																																					Melanoma(1;90 116 3946 5341 17093)											0													116	122	120					6																	33156195		1511	2709	4220	SO:0001583	missense	1302			U32169	CCDS43452.1, CCDS54992.1	6p21.3	2013-01-16			ENSG00000204248	ENSG00000204248		"Collagens"	2187	protein-coding gene	gene with protein product		120290		DFNA13, DFNB53		7559422, 10581026	Standard	NM_080679		Approved	HKE5	uc003ocx.1	P13942	OTTHUMG00000031036	ENST00000374708.4:c.550G>T	6.37:g.33156195C>A	ENSP00000363840:p.Asp184Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLX2|E7ER90|Q07751|Q13271|Q13272|Q13273|Q5JP94|Q5SUI8|Q7Z6C3|Q99866|Q9UIP9	Missense_Mutation	SNP	ENST00000374708.4	37	CCDS43452.1	.	.	.	.	.	.	.	.	.	.	C	18.11	3.551447	0.65311	.	.	ENSG00000204248	ENST00000374708;ENST00000341947;ENST00000357486;ENST00000374714;ENST00000374713;ENST00000395197;ENST00000374712;ENST00000361917;ENST00000457788;ENST00000395194	T;T;T;T;T;T;T;T;T;T	0.79454	-1.27;-1.27;-1.27;-1.27;-1.27;-1.27;-1.27;-1.27;-1.27;-1.27	3.72	3.72	0.42706	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (1);Laminin G, thrombospondin-type, N-terminal (1);Laminin G, subdomain 2 (1);	0.000000	0.64402	U	0.000001	D	0.85168	0.5635	M	0.81497	2.545	0.50313	D	0.999863	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.91635	0.999;0.997;0.997;0.998	D	0.87424	0.2384	10	0.87932	D	0	.	13.3778	0.60750	0.0:1.0:0.0:0.0	.	184;184;184;184	Q7Z6C3;P13942-8;P13942-6;P13942	.;.;.;COBA2_HUMAN	Y	184	ENSP00000363840:D184Y;ENSP00000339915:D184Y;ENSP00000350079:D184Y;ENSP00000363846:D184Y;ENSP00000363845:D184Y;ENSP00000378623:D184Y;ENSP00000363844:D184Y;ENSP00000355123:D184Y;ENSP00000405520:D184Y;ENSP00000378620:D184Y	ENSP00000339915:D184Y	D	-	1	0	COL11A2	33264173	1.000000	0.71417	0.996000	0.52242	0.652000	0.38707	2.947000	0.49058	2.070000	0.61991	0.453000	0.30009	GAC		0.542	COL11A2-001	KNOWN	not_organism_supported|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000076032.2			A	33156195	C	A	33156195	3	1	598	1	0	0	0	0	1	0	0	0	3670	855	30	4	4987	4	COL11A2	6	33156195	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	3358942	33156195	137958872	59	35760										
COL9A1	1297	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	71003975	71003975	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	aaagattcaatcctgttgcaGtcaacaaaaagagtagcact	7	8	2	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr6:71003975G>A	ENST00000357250.6	-	5	749	c.591C>T	c.(589-591)gaC>gaT	p.D197D	COL9A1_ENST00000370496.3_Silent_p.D197D	NM_001851.4	NP_001842.3	P20849	CO9A1_HUMAN	collagen, type IX, alpha 1	197	Laminin G-like.|Nonhelical region (NC4).				axon guidance (GO:0007411)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|growth plate cartilage development (GO:0003417)|organ morphogenesis (GO:0009887)|tissue homeostasis (GO:0001894)	collagen type IX trimer (GO:0005594)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	extracellular matrix structural constituent conferring tensile strength (GO:0030020)|metal ion binding (GO:0046872)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(10)|lung(44)|ovary(5)|prostate(2)|skin(6)|stomach(1)|upper_aerodigestive_tract(4)	80						TCCTGTTGCAGTCAACAAAAA	0.433																																																0													128	124	125					6																	71003975		2203	4300	6503	SO:0001819	synonymous_variant	1297				CCDS4971.1, CCDS47447.1	6q13	2013-05-07			ENSG00000112280	ENSG00000112280		"Proteoglycans / Extracellular Matrix : Collagen proteoglycans", "Collagens"	2217	protein-coding gene	gene with protein product		120210				1429648	Standard	NM_001851		Approved		uc003pfg.4	P20849	OTTHUMG00000014988	ENST00000357250.6:c.591C>T	6.37:g.71003975G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q13699|Q13700|Q5TF52|Q6P467|Q96BM8|Q99225|Q9H151|Q9H152|Q9Y6P2|Q9Y6P3	Silent	SNP	ENST00000357250.6	37	CCDS4971.1																																																																																				0.433	COL9A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041131.2			A	71003975	G	A	71003975	2	1	598	1	0	0	0	0	0	0	0	1	3709	1020	36	2		2	COL9A1	6	71003975	Silent	SNP	G	TCGA-GL-7773-01A-11D-2136-08	37847780	71003975	100111092	60	35761										
FAM46A	55603	hgsc.bcm.edu	37	chr6	82461790	82461790	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ccgccgccgaagtcgccgccTagggggatgtaggggctgca	17	13	0	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr6:82461790T>G	ENST00000320172.6	-	2	383	c.69A>C	c.(67-69)ctA>ctC	p.L23L	FAM46A_ENST00000369756.3_Silent_p.L104L|FAM46A_ENST00000369754.3_Silent_p.L42L	NM_017633.2	NP_060103.2	Q96IP4	FA46A_HUMAN	family with sequence similarity 46, member A	23					regulation of blood coagulation (GO:0030193)|regulation of gene expression (GO:0010468)		poly(A) RNA binding (GO:0044822)			endometrium(2)|large_intestine(3)|lung(5)|skin(1)|urinary_tract(1)	12		all_cancers(76;6.74e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000282)|all_epithelial(107;0.0104)		BRCA - Breast invasive adenocarcinoma(397;0.0428)		agtcgccgccTAGGGGGATGT	0.692																																																0													4	5	4					6																	82461790		1435	3404	4839	SO:0001819	synonymous_variant	55603			AF350451	CCDS34489.1	6q14	2008-07-03	2004-08-19	2004-08-26	ENSG00000112773	ENSG00000112773			18345	protein-coding gene	gene with protein product		611357	"chromosome 6 open reading frame 37"	C6orf37		12054608, 17803723	Standard	NM_017633		Approved	FLJ20037	uc003pjg.3	Q96IP4	OTTHUMG00000015097	ENST00000320172.6:c.69A>C	6.37:g.82461790T>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7U4|Q5TF86|Q8NFZ9|Q9BW32|Q9NXV5	Silent	SNP	ENST00000320172.6	37	CCDS34489.1																																																																																				0.692	FAM46A-004	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000041331.1			G	82461790	T	G	82461790	2	3	598	1	0	0	0	0	0	0	0	1	5572	1509	53	5		5	FAM46A	6	82461790	Silent	SNP	T	TCGA-GL-7773-01A-11D-2136-08	11457815	82461790	88653277	61	35762										
BACH2	60468	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	90660214	90660214	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tcacagagagggaggctgcaGggtgagcccccgctcccgtc	15	14	1	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr6:90660214G>A	ENST00000257749.4	-	7	2318	c.1611C>T	c.(1609-1611)ccC>ccT	p.P537P	RP3-512E2.2_ENST00000413986.1_RNA|BACH2_ENST00000343122.3_Silent_p.P537P|BACH2_ENST00000537989.1_Silent_p.P537P|RP3-512E2.2_ENST00000445838.1_RNA	NM_021813.2	NP_068585.1	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper transcription factor 2	537						cytoplasm (GO:0005737)|nucleus (GO:0005634)	RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001206)			central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(18)|ovary(5)|pancreas(1)|prostate(1)|skin(3)|urinary_tract(1)	45		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)		GGAGGCTGCAGGGTGAGCCCC	0.612																																																0													69	68	68					6																	90660214		2203	4300	6503	SO:0001819	synonymous_variant	60468			AL121787	CCDS5026.1	6q15	2013-01-10			ENSG00000112182	ENSG00000112182		"BTB/POZ domain containing", "basic leucine zipper proteins"	14078	protein-coding gene	gene with protein product		605394				10949928, 12829606	Standard	NM_001170794		Approved	BTBD25	uc003pnw.3	Q9BYV9	OTTHUMG00000015216	ENST00000257749.4:c.1611C>T	6.37:g.90660214G>A		Somatic		WXS	Illumina HiSeq	Phase_I	E1P518|Q59H70|Q5T793|Q9NTS5	Silent	SNP	ENST00000257749.4	37	CCDS5026.1																																																																																				0.612	BACH2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041522.2	NM_021813		A	90660214	G	A	90660214	2	1	598	1	0	0	0	0	0	0	0	1	1284	987	35	2		2	BACH2	6	90660214	Silent	SNP	G	TCGA-GL-7773-01A-11D-2136-08	8198424	90660214	80454853	62	35763										
PREP	5550	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	105776878	105776878	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gtagcataagaccaagaagtTggacctgacacaagctatcc	9	10	0	3			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr6:105776878T>A	ENST00000369110.3	-	9	1231	c.1039A>T	c.(1039-1041)Aac>Tac	p.N347Y		NM_002726.4	NP_002717.3	P48147	PPCE_HUMAN	prolyl endopeptidase	347					proteolysis (GO:0006508)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	serine-type endopeptidase activity (GO:0004252)|serine-type exopeptidase activity (GO:0070008)|serine-type peptidase activity (GO:0008236)			breast(1)|endometrium(2)|large_intestine(7)|lung(12)|ovary(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	29		all_cancers(87;0.000128)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0344)|Lung NSC(302;0.191)|Colorectal(196;0.202)			Oxytocin(DB00107)	ACCAAGAAGTTGGACCTGACA	0.413																																																0													71	73	73					6																	105776878		2203	4300	6503	SO:0001583	missense	5550				CCDS5053.1	6q22	2008-02-05			ENSG00000085377	ENSG00000085377	3.4.21.26		9358	protein-coding gene	gene with protein product		600400				7959018	Standard	NM_002726		Approved		uc003prc.3	P48147	OTTHUMG00000015297	ENST00000369110.3:c.1039A>T	6.37:g.105776878T>A	ENSP00000358106:p.Asn347Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N6D4	Missense_Mutation	SNP	ENST00000369110.3	37	CCDS5053.1	.	.	.	.	.	.	.	.	.	.	T	25.3	4.627037	0.87560	.	.	ENSG00000085377	ENST00000369110	T	0.47528	0.84	5.48	5.48	0.80851	Peptidase S9A, oligopeptidase, N-terminal (1);Peptidase S9A/B/C, oligopeptidase, N-terminal beta-propeller (2);	0.123452	0.85682	D	0.000000	T	0.60143	0.2246	M	0.83223	2.63	0.58432	D	0.999996	D	0.54047	0.964	P	0.57009	0.811	T	0.67860	-0.5561	10	0.72032	D	0.01	-30.1871	15.8535	0.78956	0.0:0.0:0.0:1.0	.	347	P48147	PPCE_HUMAN	Y	347	ENSP00000358106:N347Y	ENSP00000358106:N347Y	N	-	1	0	PREP	105883571	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.655000	0.83696	2.207000	0.71202	0.459000	0.35465	AAC		0.413	PREP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041658.1			A	105776878	T	A	105776878	3	1	598	1	0	0	0	0	1	0	0	0	12484	1812	63	5	1121	5	PREP	6	105776878	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	15116664	105776878	65338189	63	35764										
CLIP2	7461	broad.mit.edu;bcgsc.ca	37	chr7	73790824	73790824	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ggcccaggaggagctggctgGgctgcagcggcactggcggg	21	11	0	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr7:73790824G>T	ENST00000395060.1	+	9	2093	c.2093G>T	c.(2092-2094)gGg>gTg	p.G698V	CLIP2_ENST00000223398.6_Missense_Mutation_p.G698V|CLIP2_ENST00000361545.5_Missense_Mutation_p.G663V			Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	698						cytoplasmic microtubule (GO:0005881)|microtubule associated complex (GO:0005875)|microtubule plus-end (GO:0035371)				breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(13)|pancreas(1)|prostate(2)|skin(3)	30						GAGCTGGCTGGGCTGCAGCGG	0.687																																																0													18	23	21					7																	73790824		2200	4297	6497	SO:0001583	missense	7461			AB006629	CCDS5569.1, CCDS5570.1	7q11.23	2008-06-12	2007-01-04	2007-01-04	ENSG00000106665	ENSG00000106665			2586	protein-coding gene	gene with protein product		603432	"cytoplasmic linker 2", "Williams-Beuren syndrome chromosome region 3"	WBSCR4, CYLN2, WBSCR3		8812460, 9799601	Standard	NM_003388		Approved	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3	uc003uam.3	Q9UDT6	OTTHUMG00000022980	ENST00000395060.1:c.2093G>T	7.37:g.73790824G>T	ENSP00000378500:p.Gly698Val	Somatic		WXS	Illumina HiSeq	Phase_I	O14527|O43611	Missense_Mutation	SNP	ENST00000395060.1	37	CCDS5569.1	.	.	.	.	.	.	.	.	.	.	G	8.562	0.878099	0.17395	.	.	ENSG00000106665	ENST00000539676;ENST00000223398;ENST00000361545;ENST00000395060	T;T;T	0.58506	0.33;0.33;0.33	5.05	0.538	0.17150	.	0.607950	0.18064	N	0.152849	T	0.35653	0.0939	N	0.24115	0.695	0.09310	N	0.999993	B;P;P	0.42409	0.047;0.779;0.501	B;B;B	0.38616	0.055;0.277;0.143	T	0.17501	-1.0367	10	0.27785	T	0.31	-40.8641	6.4364	0.21825	0.3109:0.1377:0.5514:0.0	.	663;663;698	A7E2F7;Q9UDT6-2;Q9UDT6	.;.;CLIP2_HUMAN	V	698;698;663;698	ENSP00000223398:G698V;ENSP00000355151:G663V;ENSP00000378500:G698V	ENSP00000223398:G698V	G	+	2	0	CLIP2	73428760	0.999000	0.42202	0.372000	0.25991	0.978000	0.69477	2.600000	0.46240	0.174000	0.19809	0.449000	0.29647	GGG		0.687	CLIP2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252556.1	NM_003388		T	73790824	G	T	73790824	3	4	598	1	0	0	0	0	1	0	0	0	3535	1232	43	4	2127	4	CLIP2	7	73790824	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08		73790824	85347839	64	35765										
SEMA3A	10371	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	83631283	83631283	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gcactcacccgaaaaactgtCatttcttccagcagaacctc	5	15	3	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr7:83631283C>A	ENST00000265362.4	-	12	1754	c.1440G>T	c.(1438-1440)atG>atT	p.M480I	SEMA3A_ENST00000436949.1_Missense_Mutation_p.M480I	NM_006080.2	NP_006071.1	Q14563	SEM3A_HUMAN	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3A	480	Sema. {ECO:0000255|PROSITE- ProRule:PRU00352}.				apoptotic process (GO:0006915)|axon extension involved in axon guidance (GO:0048846)|axon guidance (GO:0007411)|axonal fasciculation (GO:0007413)|axonogenesis involved in innervation (GO:0060385)|branchiomotor neuron axon guidance (GO:0021785)|dendrite morphogenesis (GO:0048813)|dichotomous subdivision of terminal units involved in salivary gland branching (GO:0060666)|facial nerve structural organization (GO:0021612)|gonadotrophin-releasing hormone neuronal migration to the hypothalamus (GO:0021828)|negative regulation of axon extension involved in axon guidance (GO:0048843)|negative regulation of epithelial cell migration (GO:0010633)|nerve development (GO:0021675)|neural crest cell migration involved in autonomic nervous system development (GO:1901166)|neural crest cell migration involved in sympathetic nervous system development (GO:1903045)|neuron migration (GO:0001764)|olfactory bulb development (GO:0021772)|positive regulation of male gonad development (GO:2000020)|positive regulation of neuron migration (GO:2001224)|regulation of axon extension involved in axon guidance (GO:0048841)|regulation of heart rate (GO:0002027)|semaphorin-plexin signaling pathway (GO:0071526)|semaphorin-plexin signaling pathway involved in axon guidance (GO:1902287)|semaphorin-plexin signaling pathway involved in neuron projection guidance (GO:1902285)|sensory system development (GO:0048880)|sympathetic ganglion development (GO:0061549)|sympathetic nervous system development (GO:0048485)|sympathetic neuron projection extension (GO:0097490)|sympathetic neuron projection guidance (GO:0097491)|trigeminal nerve structural organization (GO:0021637)	axon (GO:0030424)|dendrite (GO:0030425)|extracellular region (GO:0005576)|membrane (GO:0016020)	chemorepellent activity (GO:0045499)|neuropilin binding (GO:0038191)|receptor activity (GO:0004872)			breast(3)|cervix(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(12)|liver(1)|lung(22)|ovary(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	53						GAAAAACTGTCATTTCTTCCA	0.428																																																0													130	118	122					7																	83631283		2203	4300	6503	SO:0001583	missense	10371			L26081	CCDS5599.1	7p12.1	2013-01-11			ENSG00000075213	ENSG00000075213		"Semaphorins", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	10723	protein-coding gene	gene with protein product	"sema III"	603961		SEMAD		8269517, 7748561	Standard	NM_006080		Approved	SEMA1, SemD, coll-1, Hsema-I	uc003uhz.3	Q14563	OTTHUMG00000023443	ENST00000265362.4:c.1440G>T	7.37:g.83631283C>A	ENSP00000265362:p.Met480Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000265362.4	37	CCDS5599.1	.	.	.	.	.	.	.	.	.	.	C	25.7	4.665855	0.88251	.	.	ENSG00000075213	ENST00000265362;ENST00000436949	T;T	0.09073	3.02;3.02	5.36	5.36	0.76844	WD40/YVTN repeat-like-containing domain (1);Semaphorin/CD100 antigen (4);	0.000000	0.85682	D	0.000000	T	0.09113	0.0225	N	0.10809	0.05	0.80722	D	1	P	0.42039	0.769	P	0.47162	0.54	T	0.46303	-0.9201	10	0.28530	T	0.3	.	19.4559	0.94889	0.0:1.0:0.0:0.0	.	480	Q14563	SEM3A_HUMAN	I	480	ENSP00000265362:M480I;ENSP00000415260:M480I	ENSP00000265362:M480I	M	-	3	0	SEMA3A	83469219	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.722000	0.84778	2.669000	0.90835	0.591000	0.81541	ATG		0.428	SEMA3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253355.2	NM_006080		A	83631283	C	A	83631283	3	1	598	1	0	0	0	0	1	0	0	0	14037	826	29	4	899	4	SEMA3A	7	83631283	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	9840459	83631283	75507380	65	35766										
SLC25A13	10165	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	95818645	95818645	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	aagttaaagggcagagttccCtcttccagaggagcaatccg	11	10	1	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr7:95818645C>T	ENST00000265631.5	-	9	1030	c.894G>A	c.(892-894)gaG>gaA	p.E298E	SLC25A13_ENST00000542654.1_Silent_p.E190E|SLC25A13_ENST00000416240.2_Silent_p.E298E			Q9UJS0	CMC2_HUMAN	solute carrier family 25 (aspartate/glutamate carrier), member 13	298					aspartate transport (GO:0015810)|ATP biosynthetic process (GO:0006754)|carbohydrate metabolic process (GO:0005975)|cellular respiration (GO:0045333)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|L-glutamate transport (GO:0015813)|malate-aspartate shuttle (GO:0043490)|response to calcium ion (GO:0051592)|small molecule metabolic process (GO:0044281)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	calcium ion binding (GO:0005509)|L-aspartate transmembrane transporter activity (GO:0015183)|L-glutamate transmembrane transporter activity (GO:0005313)|transporter activity (GO:0005215)			breast(4)|central_nervous_system(3)|endometrium(4)|kidney(2)|large_intestine(8)|liver(2)|lung(14)|prostate(1)|skin(4)	42	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	GCAGAGTTCCCTCTTCCAGAG	0.458																																																0													93	91	91					7																	95818645		2203	4300	6503	SO:0001819	synonymous_variant	10165			AF118838	CCDS5645.1, CCDS55130.1	7q21.3	2013-05-22	2012-03-29		ENSG00000004864	ENSG00000004864		"Solute carriers", "EF-hand domain containing"	10983	protein-coding gene	gene with protein product	"mitochondrial aspartate glutamate carrier 2"	603859	"solute carrier family 25, member 13 (citrin)"	CTLN2		10369257	Standard	NM_014251		Approved	CITRIN, ARALAR2	uc003uog.4	Q9UJS0	OTTHUMG00000023074	ENST00000265631.5:c.894G>A	7.37:g.95818645C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O14566|O14575|Q546F9|Q9NZW1|Q9UNI7	Silent	SNP	ENST00000265631.5	37	CCDS5645.1																																																																																				0.458	SLC25A13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059395.2	NM_014251		T	95818645	C	T	95818645	2	4	598	1	0	0	0	0	0	0	0	1	14488	680	24	2		2	SLC25A13	7	95818645	Silent	SNP	C	TCGA-GL-7773-01A-11D-2136-08	12187362	95818645	63320018	66	35767										
RP1L1	94137	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	10466983	10466983	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cctgcaggccccagcgtgctCggagctcagccaccgcactg	12	18	1	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr8:10466983C>A	ENST00000382483.3	-	4	4848	c.4625G>T	c.(4624-4626)cGa>cTa	p.R1542L		NM_178857.5	NP_849188.4	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1622					cell projection organization (GO:0030030)|intracellular signal transduction (GO:0035556)|photoreceptor cell development (GO:0042461)|photoreceptor cell maintenance (GO:0045494)|visual perception (GO:0007601)	axoneme (GO:0005930)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|photoreceptor connecting cilium (GO:0032391)|photoreceptor outer segment (GO:0001750)				breast(5)|central_nervous_system(2)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(4)|kidney(5)|large_intestine(16)|lung(82)|ovary(8)|prostate(5)|skin(6)|upper_aerodigestive_tract(4)|urinary_tract(3)	148				COAD - Colon adenocarcinoma(149;0.0811)		CCAGCGTGCTCGGAGCTCAGC	0.647																																																0													22	26	25					8																	10466983		2119	4242	6361	SO:0001583	missense	94137			AY168346	CCDS43708.1	8p23.1	2011-12-06			ENSG00000183638	ENSG00000183638			15946	protein-coding gene	gene with protein product		608581				12634863	Standard	NM_178857		Approved	DCDC4B	uc003wtc.3	Q8IWN7	OTTHUMG00000163806	ENST00000382483.3:c.4625G>T	8.37:g.10466983C>A	ENSP00000371923:p.Arg1542Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q86SQ1|Q8IWN8|Q8IWN9|Q8IWP0|Q8IWP1|Q8IWP2	Missense_Mutation	SNP	ENST00000382483.3	37	CCDS43708.1	.	.	.	.	.	.	.	.	.	.	C	9.421	1.083074	0.20309	.	.	ENSG00000183638	ENST00000382483	T	0.07327	3.2	5.32	-0.24	0.13047	.	0.320649	0.17484	U	0.172610	T	0.03959	0.0111	L	0.29908	0.895	0.09310	N	1	P	0.44309	0.832	B	0.31442	0.13	T	0.40365	-0.9567	10	0.66056	D	0.02	-2.2884	3.8382	0.08903	0.175:0.3157:0.0:0.5092	.	1542	A6NKC6	.	L	1542	ENSP00000371923:R1542L	ENSP00000371923:R1542L	R	-	2	0	RP1L1	10504393	0.988000	0.35896	0.001000	0.08648	0.017000	0.09413	2.285000	0.43487	0.252000	0.21531	0.491000	0.48974	CGA		0.647	RP1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375673.1			A	10466983	C	A	10466983	3	1	598	1	0	0	0	0	1	0	0	0	13546	884	31	4	2581	4	RP1L1	8	10466983	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08		10466983	135897039	67	35768										
CA13	377677	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	86180770	86180770	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	catcctgggactactggacaTatcctggttctcttacagtt	8	11	1	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr8:86180770T>G	ENST00000321764.3	+	6	885	c.583T>G	c.(583-585)Tat>Gat	p.Y195D	CA13_ENST00000517298.1_3'UTR	NM_198584.2	NP_940986.1	Q8N1Q1	CAH13_HUMAN	carbonic anhydrase XIII	195					bicarbonate transport (GO:0015701)|one-carbon metabolic process (GO:0006730)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|myelin sheath (GO:0043209)	carbonate dehydratase activity (GO:0004089)|zinc ion binding (GO:0008270)			large_intestine(1)|lung(6)	7					Zonisamide(DB00909)	CTACTGGACATATCCTGGTTC	0.398																																																0													180	163	169					8																	86180770		2203	4300	6503	SO:0001583	missense	377677			BC052602	CCDS6236.1	8q21	2004-05-10				ENSG00000185015		"Carbonic anhydrases"	14914	protein-coding gene	gene with protein product		611436				14600151	Standard	NM_198584		Approved	CAXIII, FLJ37995, MGC59868	uc003ydg.2	Q8N1Q1		ENST00000321764.3:c.583T>G	8.37:g.86180770T>G	ENSP00000318912:p.Tyr195Asp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000321764.3	37	CCDS6236.1	.	.	.	.	.	.	.	.	.	.	T	24.9	4.582688	0.86748	.	.	ENSG00000185015	ENST00000321764	D	0.83914	-1.78	5.5	5.5	0.81552	Carbonic anhydrase, alpha-class, catalytic domain (4);	0.000000	0.85682	D	0.000000	D	0.95401	0.8507	H	0.99689	4.705	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.97404	0.9998	10	0.87932	D	0	-19.1625	14.5856	0.68322	0.0:0.0:0.0:1.0	.	195	Q8N1Q1	CAH13_HUMAN	D	195	ENSP00000318912:Y195D	ENSP00000318912:Y195D	Y	+	1	0	CA13	86368022	1.000000	0.71417	0.995000	0.50966	0.992000	0.81027	7.311000	0.78958	2.104000	0.64026	0.383000	0.25322	TAT		0.398	CA13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381066.1	NM_198584		G	86180770	T	G	86180770	3	3	598	1	0	0	0	0	1	0	0	0	2516	1406	49	5	605	5	CA13	8	86180770	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	75713787	86180770	60183252	68	35769										
EFR3A	23167	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	132982859	132982859	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tccaaagacaatgatgagaaGattgtgcagaatgctatcat	9	6	1	5			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr8:132982859G>T	ENST00000254624.5	+	10	1353	c.1128G>T	c.(1126-1128)aaG>aaT	p.K376N	EFR3A_ENST00000334503.4_Missense_Mutation_p.K376N|EFR3A_ENST00000519656.1_Missense_Mutation_p.K340N	NM_015137.4	NP_055952.2	Q14156	EFR3A_HUMAN	EFR3 homolog A (S. cerevisiae)	376						extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|plasma membrane (GO:0005886)				breast(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(6)|lung(14)|ovary(3)|skin(1)|stomach(2)	35	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			ATGATGAGAAGATTGTGCAGA	0.378																																																0													124	124	124					8																	132982859		2203	4300	6503	SO:0001583	missense	23167			D63477	CCDS34942.2	8q24.22	2008-10-23			ENSG00000132294	ENSG00000132294			28970	protein-coding gene	gene with protein product		611798				15363888	Standard	NM_015137		Approved	KIAA0143	uc003yte.3	Q14156	OTTHUMG00000150552	ENST00000254624.5:c.1128G>T	8.37:g.132982859G>T	ENSP00000254624:p.Lys376Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A7MD19|Q2VPK2|Q63HL7|Q68DX1|Q6IQ18	Missense_Mutation	SNP	ENST00000254624.5	37	CCDS34942.2	.	.	.	.	.	.	.	.	.	.	G	14.63	2.592563	0.46214	.	.	ENSG00000132294	ENST00000254624;ENST00000377917;ENST00000334503;ENST00000519656	T;T;T	0.67345	3.52;3.52;-0.26	5.56	4.68	0.58851	Armadillo-like helical (1);Armadillo-type fold (1);	0.045081	0.85682	D	0.000000	T	0.58764	0.2145	L	0.47190	1.495	0.38491	D	0.947988	B	0.28512	0.214	B	0.30782	0.12	T	0.59563	-0.7431	10	0.39692	T	0.17	-19.1717	10.108	0.42546	0.073:0.0:0.789:0.138	.	376	Q14156	EFR3A_HUMAN	N	376;376;376;340	ENSP00000254624:K376N;ENSP00000334769:K376N;ENSP00000428086:K340N	ENSP00000254624:K376N	K	+	3	2	EFR3A	133052041	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.792000	0.47837	1.342000	0.45619	0.585000	0.79938	AAG		0.378	EFR3A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318886.1	NM_015137		T	132982859	G	T	132982859	3	4	598	1	0	0	0	0	1	0	0	0	4960	933	33	4	1166	4	EFR3A	8	132982859	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	46802089	132982859	13381163	69	35770										
KIAA0020	9933	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	2810352	2810352	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ttcatagcctaccttctctcCcattttctttcatcttttta	1	13	5	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr9:2810352C>G	ENST00000397885.2	-	16	1921	c.1715G>C	c.(1714-1716)gGg>gCg	p.G572A		NM_014878.4	NP_055693.4	Q15397	K0020_HUMAN	KIAA0020	572						endoplasmic reticulum (GO:0005783)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)			NS(1)|breast(2)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(7)|lung(4)|ovary(1)	21				GBM - Glioblastoma multiforme(50;0.0319)		ACCTTCTCTCCCATTTTCTTT	0.393																																																0													225	188	201					9																	2810352		2203	4300	6503	SO:0001583	missense	9933			AL832239	CCDS6448.2	9p24.2	2012-11-29			ENSG00000080608	ENSG00000080608			29676	protein-coding gene	gene with protein product	"penguin homolog (Drosophila)", "minor histocompatibility antigen HA-8"	609960				7584026, 7584028, 21266351	Standard	NM_014878		Approved	XTP5, PEN, PUF6, hPUF-A, HA-8	uc003zhp.1	Q15397	OTTHUMG00000019450	ENST00000397885.2:c.1715G>C	9.37:g.2810352C>G	ENSP00000380982:p.Gly572Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K804|Q547G7|Q5SZY9|Q6IB47|Q96B27|Q96L78|Q96L79|Q96L80	Missense_Mutation	SNP	ENST00000397885.2	37	CCDS6448.2	.	.	.	.	.	.	.	.	.	.	C	11.75	1.731430	0.30684	.	.	ENSG00000080608	ENST00000397885	T	0.50548	0.74	5.95	5.05	0.67936	CPL (1);Armadillo-like helical (1);Armadillo-type fold (1);	0.046170	0.85682	D	0.000000	T	0.48607	0.1509	M	0.73962	2.25	0.45528	D	0.998487	B;B	0.12013	0.005;0.001	B;B	0.15870	0.014;0.006	T	0.44682	-0.9312	10	0.21014	T	0.42	-18.5072	14.8914	0.70611	0.0:0.7295:0.2705:0.0	.	432;572	B2RDG4;Q15397	.;K0020_HUMAN	A	572	ENSP00000380982:G572A	ENSP00000380982:G572A	G	-	2	0	KIAA0020	2800352	1.000000	0.71417	0.326000	0.25389	0.569000	0.35902	2.906000	0.48735	1.521000	0.48983	0.650000	0.86243	GGG		0.393	KIAA0020-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051529.3	NM_014878		G	2810352	C	G	2810352	3	3	598	1	0	0	0	0	1	0	0	0	8159	623	22	4	243	4	KIAA0020	9	2810352	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08		2810352	138403079	70	35771										
PRSS3	5646	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	33798069	33798069	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ctccggctggggcaacactcTgagctttggtggtgagtggg	17	9	1	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr9:33798069T>C	ENST00000361005.5	+	3	614	c.614T>C	c.(613-615)cTg>cCg	p.L205P	PRSS3_ENST00000429677.3_Missense_Mutation_p.L141P|PRSS3_ENST00000342836.4_Missense_Mutation_p.L162P|PRSS3_ENST00000379405.3_Missense_Mutation_p.L148P|RP11-133O22.6_ENST00000454429.2_RNA	NM_007343.3	NP_031369	P35030	TRY3_HUMAN	protease, serine, 3	205	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|endothelial cell migration (GO:0043542)|innate immune response (GO:0045087)|proteolysis (GO:0006508)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)|zymogen activation (GO:0031638)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			large_intestine(3)|lung(4)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	13			LUSC - Lung squamous cell carcinoma(29;0.0176)			GGCAACACTCTGAGCTTTGGT	0.572																																																0													130	111	117					9																	33798069		2203	4300	6503	SO:0001583	missense	5646				CCDS6545.1, CCDS47958.1, CCDS56570.1, CCDS56571.1	9p13	2010-05-07	2008-03-11		ENSG00000010438	ENSG00000010438	3.4.21.4	"Serine peptidases / Serine peptidases"	9486	protein-coding gene	gene with protein product	"mesotrypsin"	613578	"protease, serine, 4 (trypsin 4, brain)", "protease, serine, 3 (mesotrypsin)"	PRSS4		2326201, 8294000	Standard	NM_002771		Approved	TRY3, TRY4	uc003ztj.4	P35030	OTTHUMG00000019798	ENST00000361005.5:c.614T>C	9.37:g.33798069T>C	ENSP00000354280:p.Leu205Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8CED1|A8CED3|A9Z1Y4|E7ES07|F8W7P3|P15951|Q15665|Q5VXV0|Q6ISJ4|Q9UQV3	Missense_Mutation	SNP	ENST00000361005.5	37	CCDS47958.1	.	.	.	.	.	.	.	.	.	.	T	10.01	1.233504	0.22626	.	.	ENSG00000010438	ENST00000361005;ENST00000457896;ENST00000342836;ENST00000429677;ENST00000379405	D;D;D;D;D	0.88664	-2.41;-2.41;-2.41;-2.41;-2.41	3.61	-1.02	0.10135	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	0.210916	0.40908	D	0.000985	D	0.83248	0.5213	L	0.27053	0.805	0.58432	D	0.999996	P;P;P	0.52170	0.477;0.951;0.649	P;P;P	0.55785	0.589;0.784;0.485	T	0.76798	-0.2826	10	0.45353	T	0.12	.	2.3719	0.04332	0.3669:0.2296:0.0:0.4035	.	148;205;162	P35030-3;P35030;P35030-4	.;TRY3_HUMAN;.	P	205;160;162;141;148	ENSP00000354280:L205P;ENSP00000401249:L160P;ENSP00000340889:L162P;ENSP00000401828:L141P;ENSP00000368715:L148P	ENSP00000340889:L162P	L	+	2	0	PRSS3	33788069	0.949000	0.32298	0.976000	0.42696	0.018000	0.09664	1.089000	0.30890	-0.026000	0.13895	-0.753000	0.03488	CTG		0.572	PRSS3-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000052121.1	NM_002771		C	33798069	T	C	33798069	3	2	598	1	0	0	0	0	1	0	0	0	12632	1580	55	3	668	3	PRSS3	9	33798069	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	30987717	33798069	107415362	71	35772										
SEMA4D	10507	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	92007357	92007357	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ccgttcagccaagggattgcAtattctgtcctcagaggact	10	11	3	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr9:92007357A>T	ENST00000450295.1	-	8	1379	c.603T>A	c.(601-603)taT>taA	p.Y201*	SEMA4D_ENST00000356444.2_Nonsense_Mutation_p.Y201*|SEMA4D_ENST00000339861.4_Nonsense_Mutation_p.Y201*|SEMA4D_ENST00000343780.4_Nonsense_Mutation_p.Y201*|SEMA4D_ENST00000422704.2_Nonsense_Mutation_p.Y201*|SEMA4D_ENST00000438547.2_Nonsense_Mutation_p.Y201*|SEMA4D_ENST00000420987.1_Nonsense_Mutation_p.Y201*|SEMA4D_ENST00000455551.2_Nonsense_Mutation_p.Y201*			Q92854	SEM4D_HUMAN	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D	201	Sema. {ECO:0000255|PROSITE- ProRule:PRU00352}.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|immune response (GO:0006955)|leukocyte aggregation (GO:0070486)|negative regulation of alkaline phosphatase activity (GO:0010693)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell adhesion (GO:0007162)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of peptidyl-tyrosine phosphorylation (GO:0050732)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|ossification involved in bone maturation (GO:0043931)|positive regulation of cell migration (GO:0030335)|positive regulation of collateral sprouting (GO:0048672)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of Rho GTPase activity (GO:0032321)|regulation of cell projection organization (GO:0031344)|regulation of cell shape (GO:0008360)|regulation of dendrite morphogenesis (GO:0048814)|semaphorin-plexin signaling pathway (GO:0071526)|semaphorin-plexin signaling pathway involved in bone trabecula morphogenesis (GO:1900220)	extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	receptor activity (GO:0004872)|receptor binding (GO:0005102)|semaphorin receptor binding (GO:0030215)|transmembrane signaling receptor activity (GO:0004888)			NS(1)|endometrium(3)|kidney(2)|large_intestine(13)|lung(8)|ovary(1)|pancreas(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	34						AAGGGATTGCATATTCTGTCC	0.488																																																0													125	112	117					9																	92007357		2203	4300	6503	SO:0001587	stop_gained	10507			U60800	CCDS6685.1, CCDS47991.1	9q22-q31	2013-01-11			ENSG00000187764	ENSG00000187764		"Semaphorins", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	10732	protein-coding gene	gene with protein product	"M-sema G"	601866	"chromosome 9 open reading frame 164"	SEMAJ, C9orf164		8876214, 8969198	Standard	NM_006378		Approved	CD100, coll-4, FLJ39737	uc004aqo.1	Q92854	OTTHUMG00000020185	ENST00000450295.1:c.603T>A	9.37:g.92007357A>T	ENSP00000416523:p.Tyr201*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPM6|Q7Z5S4|Q8N8B0	Nonsense_Mutation	SNP	ENST00000450295.1	37	CCDS6685.1	.	.	.	.	.	.	.	.	.	.	G	38	6.945547	0.97956	.	.	ENSG00000187764	ENST00000339861;ENST00000420987;ENST00000455551;ENST00000343780;ENST00000450295;ENST00000438547;ENST00000356444;ENST00000422704	.	.	.	5.92	-9.64	0.00541	.	0.057514	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	23.1558	0.99980	0.8226:0.0:0.1774:0.0	.	.	.	.	X	201	.	ENSP00000344923:Y201X	Y	-	3	2	SEMA4D	91197177	0.023000	0.18921	0.008000	0.14137	0.015000	0.08874	-0.722000	0.04958	-2.623000	0.00438	-1.874000	0.00550	TAT		0.488	SEMA4D-018	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342411.1	NM_006378		T	92007357	A	T	92007357	4	4	598	1	0	0	0	0	0	1	0	0	14047	224	8	5	2591	5	SEMA4D	9	92007357	Nonsense_Mutation	SNP	A	TCGA-GL-7773-01A-11D-2136-08	58209288	92007357	49206074	72	35773										
STX17	55014	broad.mit.edu;bcgsc.ca	37	chr9	102730748	102730748	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	aagctggcagctctgcctgtGgcaggtgcactcatcggggg	16	11	2	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr9:102730748G>A	ENST00000259400.6	+	8	838	c.702G>A	c.(700-702)gtG>gtA	p.V234V	STX17_ENST00000525640.1_Silent_p.V234V|STX17_ENST00000525847.1_3'UTR|STX17_ENST00000534052.1_Silent_p.V234V	NM_017919.2	NP_060389.2	P56962	STX17_HUMAN	syntaxin 17	234	Necessary and sufficient for localization to autophagosome.				autophagic vacuole fusion (GO:0000046)|endoplasmic reticulum-Golgi intermediate compartment organization (GO:0097111)|ER to Golgi vesicle-mediated transport (GO:0006888)|exocytosis (GO:0006887)|Golgi organization (GO:0007030)|intracellular protein transport (GO:0006886)|protein localization to pre-autophagosomal structure (GO:0034497)	autophagic vacuole membrane (GO:0000421)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|ER to Golgi transport vesicle (GO:0030134)|ER-mitochondrion membrane contact site (GO:0044233)|integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)|smooth endoplasmic reticulum membrane (GO:0030868)|SNARE complex (GO:0031201)	protein phosphatase binding (GO:0019903)|SNAP receptor activity (GO:0005484)|SNARE binding (GO:0000149)			endometrium(2)|large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)	7		Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				CTCTGCCTGTGGCAGGTGCAC	0.488																																																0													26	30	29					9																	102730748		2175	4250	6425	SO:0001819	synonymous_variant	55014			AL834371	CCDS6745.1	9q31.1	2008-02-05			ENSG00000136874	ENSG00000136874			11432	protein-coding gene	gene with protein product		604204				9852078	Standard	NM_017919		Approved	FLJ20651	uc004bal.4	P56962	OTTHUMG00000020359	ENST00000259400.6:c.702G>A	9.37:g.102730748G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q4VXC2	Silent	SNP	ENST00000259400.6	37	CCDS6745.1																																																																																				0.488	STX17-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000053398.3	NM_017919		A	102730748	G	A	102730748	2	1	598	1	0	0	0	0	0	0	0	1	15352	1335	47	2		2	STX17	9	102730748	Silent	SNP	G	TCGA-GL-7773-01A-11D-2136-08	10723391	102730748	38482683	73	35774										
ABL1	25	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr9	133759486	133759486	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	accaacttgttcagcgccttGatcaagaagaagaagaagac	9	9	2	6			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr9:133759486G>A	ENST00000318560.5	+	11	2190	c.1809G>A	c.(1807-1809)ttG>ttA	p.L603L		NM_005157.4	NP_005148.2	P00519	ABL1_HUMAN	ABL proto-oncogene 1, non-receptor tyrosine kinase	603					actin cytoskeleton organization (GO:0030036)|autophagy (GO:0006914)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cellular protein modification process (GO:0006464)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to dopamine (GO:1903351)|cellular response to oxidative stress (GO:0034599)|DNA damage induced protein phosphorylation (GO:0006975)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|mismatch repair (GO:0006298)|mitochondrial depolarization (GO:0051882)|mitotic nuclear division (GO:0007067)|muscle cell differentiation (GO:0042692)|negative regulation of phospholipase C activity (GO:1900275)|negative regulation of protein serine/threonine kinase activity (GO:0071901)|negative regulation of ubiquitin-protein transferase activity (GO:0051444)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of oxidoreductase activity (GO:0051353)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|regulation of actin cytoskeleton reorganization (GO:2000249)|regulation of autophagy (GO:0010506)|regulation of cell adhesion (GO:0030155)|regulation of cell motility (GO:2000145)|regulation of endocytosis (GO:0030100)|regulation of response to DNA damage stimulus (GO:2001020)|regulation of transcription, DNA-templated (GO:0006355)|response to oxidative stress (GO:0006979)|signal transduction in response to DNA damage (GO:0042770)	actin cytoskeleton (GO:0015629)|cell leading edge (GO:0031252)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	actin monomer binding (GO:0003785)|ATP binding (GO:0005524)|DNA binding (GO:0003677)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|mitogen-activated protein kinase binding (GO:0051019)|nicotinate-nucleotide adenylyltransferase activity (GO:0004515)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|proline-rich region binding (GO:0070064)|protein C-terminus binding (GO:0008022)|protein kinase activity (GO:0004672)|protein tyrosine kinase activity (GO:0004713)|SH3 domain binding (GO:0017124)|syntaxin binding (GO:0019905)			breast(3)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1149)|kidney(3)|large_intestine(7)|lung(15)|ovary(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	1195		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Bosutinib(DB06616)|Dasatinib(DB01254)|Imatinib(DB00619)|Nilotinib(DB04868)|Ponatinib(DB08901)|Regorafenib(DB08896)	TCAGCGCCTTGATCAAGAAGA	0.602			"T, Mis"	"BCR, ETV6, NUP214"	"CML, ALL, T-ALL"																																		Dom	yes		9	9q34.1	25	v-abl Abelson murine leukemia viral oncogene homolog 1		L	0													80	91	87					9																	133759486		2203	4300	6503	SO:0001819	synonymous_variant	25			M14752	CCDS35165.1, CCDS35166.1	9q34.1	2014-09-17	2014-06-26		ENSG00000097007	ENSG00000097007		"SH2 domain containing"	76	protein-coding gene	gene with protein product		189980	"v-abl Abelson murine leukemia viral oncogene homolog 1", "c-abl oncogene 1, receptor tyrosine kinase", "c-abl oncogene 1, non-receptor tyrosine kinase"	ABL		1857987, 12626632	Standard	NM_007313		Approved	JTK7, c-ABL, p150	uc004bzv.3	P00519	OTTHUMG00000020813	ENST00000318560.5:c.1809G>A	9.37:g.133759486G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A3KFJ3|Q13869|Q13870|Q16133|Q17R61|Q45F09	Silent	SNP	ENST00000318560.5	37	CCDS35166.1																																																																																				0.602	ABL1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000054684.1	NM_007313		A	133759486	G	A	133759486	2	1	598	1	0	0	0	0	0	0	0	1	92	1281	45	2		2	ABL1	9	133759486	Silent	SNP	G	TCGA-GL-7773-01A-11D-2136-08	31028738	133759486	7453945	74	35775										
NUP214	8021	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	134019822	134019822	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gagcccccactgtgttctccTttggttcttcatctttgaag	8	12	4	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr9:134019822T>A	ENST00000359428.5	+	12	1594	c.1450T>A	c.(1450-1452)Ttt>Att	p.F484I	RP11-544A12.4_ENST00000587264.1_RNA|RP11-544A12.4_ENST00000586290.1_RNA|RP11-544A12.4_ENST00000589540.1_RNA|RP11-544A12.4_ENST00000415391.2_RNA|RP11-544A12.4_ENST00000587408.1_RNA|NUP214_ENST00000411637.2_Missense_Mutation_p.F484I|RP11-544A12.4_ENST00000588378.1_RNA|RP11-544A12.4_ENST00000590461.1_RNA|RP11-544A12.4_ENST00000589667.1_RNA|NUP214_ENST00000451030.1_Missense_Mutation_p.F484I			P35658	NU214_HUMAN	nucleoporin 214kDa	484	11 X 5 AA approximate repeats.				carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|gene expression (GO:0010467)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA export from nucleus (GO:0006406)|mRNA metabolic process (GO:0016071)|protein export from nucleus (GO:0006611)|protein import into nucleus (GO:0006606)|regulation of cell cycle (GO:0051726)|regulation of glucose transport (GO:0010827)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytosol (GO:0005829)|focal adhesion (GO:0005925)|intracellular membrane-bounded organelle (GO:0043231)|nuclear pore (GO:0005643)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleocytoplasmic transporter activity (GO:0005487)|transporter activity (GO:0005215)			NS(1)|breast(9)|central_nervous_system(3)|endometrium(13)|kidney(2)|large_intestine(9)|liver(2)|lung(29)|ovary(2)|prostate(3)|skin(7)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	86	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		TGTGTTCTCCTTTGGTTCTTC	0.582			T	"DEK, SET, ABL1"	"AML, T-ALL"																																Pancreas(4;24 48 25510 30394 32571)		Dom	yes		9	9q34.1	8021	nucleoporin 214kDa (CAN)		L	0													222	224	223					9																	134019822		2203	4300	6503	SO:0001583	missense	8021			X64228	CCDS6940.1	9q34	2008-07-21	2002-08-29		ENSG00000126883	ENSG00000126883			8064	protein-coding gene	gene with protein product	"nuclear pore complex protein Nup214", "CAN protein, putative oncogene"	114350	"nucleoporin 214kD (CAIN)"			8108440, 2370860	Standard	NM_005085		Approved	CAIN, CAN, D9S46E, N214	uc004cag.3	P35658	OTTHUMG00000020816	ENST00000359428.5:c.1450T>A	9.37:g.134019822T>A	ENSP00000352400:p.Phe484Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFQ0|Q15010|Q3KQZ0|Q5JUP7|Q75R47|Q86XD3	Missense_Mutation	SNP	ENST00000359428.5	37	CCDS6940.1	.	.	.	.	.	.	.	.	.	.	T	23.5	4.429164	0.83776	.	.	ENSG00000126883	ENST00000359428;ENST00000411637;ENST00000451030;ENST00000541375;ENST00000540899	T;T;T	0.79653	-1.29;-1.29;-1.29	5.79	5.79	0.91817	.	0.000000	0.42053	D	0.000772	T	0.72867	0.3514	N	0.08118	0	0.45554	D	0.998503	D;D	0.56287	0.975;0.975	P;P	0.51516	0.591;0.672	T	0.77928	-0.2404	10	0.52906	T	0.07	-18.8096	13.8602	0.63554	0.0:0.0:0.0:1.0	.	484;484	P35658-4;P35658	.;NU214_HUMAN	I	484;484;484;484;77	ENSP00000352400:F484I;ENSP00000396576:F484I;ENSP00000405014:F484I	ENSP00000352400:F484I	F	+	1	0	NUP214	133009643	1.000000	0.71417	1.000000	0.80357	0.959000	0.62525	3.193000	0.50997	2.201000	0.70794	0.533000	0.62120	TTT		0.582	NUP214-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000054694.2	NM_005085		A	134019822	T	A	134019822	3	1	598	1	0	0	0	0	1	0	0	0	10769	1609	56	5	1496	5	NUP214	9	134019822	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	260336	134019822	7193609	75	35776										
PFKFB3	5209	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr10	6258717	6258717	+	Missense_Mutation	SNP	C	C	A													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	agaggagacacatgatccttCattttgccaaagaaaatgac							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr10:6258717C>A	ENST00000379775.4	+	5	745	c.415C>A	c.(415-417)Cat>Aat	p.H139N	PFKFB3_ENST00000317350.4_Missense_Mutation_p.H139N|PFKFB3_ENST00000379782.3_Missense_Mutation_p.H139N|PFKFB3_ENST00000540253.1_Missense_Mutation_p.H153N|PFKFB3_ENST00000379789.4_Missense_Mutation_p.H119N|PFKFB3_ENST00000360521.2_Missense_Mutation_p.H139N|PFKFB3_ENST00000536985.1_Missense_Mutation_p.H119N|PFKFB3_ENST00000379785.1_Missense_Mutation_p.H139N	NM_004566.3	NP_004557.1	Q16875	F263_HUMAN	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	139	6-phosphofructo-2-kinase.				carbohydrate metabolic process (GO:0005975)|carbohydrate phosphorylation (GO:0046835)|fructose 2,6-bisphosphate metabolic process (GO:0006003)|fructose metabolic process (GO:0006000)|glucose metabolic process (GO:0006006)|glycolytic process (GO:0006096)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|nucleus (GO:0005634)	6-phosphofructo-2-kinase activity (GO:0003873)|ATP binding (GO:0005524)|fructose-2,6-bisphosphate 2-phosphatase activity (GO:0004331)			central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(1)|liver(2)|lung(10)|ovary(3)|upper_aerodigestive_tract(1)	22						CATGATCCTTCATTTTGCCAA	0.463																																																0													215	210	211					10																	6258717		2203	4300	6503	SO:0001583	missense	5209				CCDS7078.1, CCDS44353.1, CCDS60479.1	10p15.1	2008-05-14			ENSG00000170525	ENSG00000170525			8874	protein-coding gene	gene with protein product		605319				9146922, 10072580	Standard	NM_004566		Approved		uc001ije.3	Q16875	OTTHUMG00000017621	ENST00000379775.4:c.415C>A	10.37:g.6258717C>A	ENSP00000369100:p.His139Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z955|O43622|O75902|Q5VX15|Q5VX18|Q5VX19	Missense_Mutation	SNP	ENST00000379775.4	37	CCDS7078.1	.	.	.	.	.	.	.	.	.	.	C	5.826	0.336691	0.11013	.	.	ENSG00000170525	ENST00000536985;ENST00000379789;ENST00000540253;ENST00000317350;ENST00000379785;ENST00000379782;ENST00000360521;ENST00000379775;ENST00000358499	.	.	.	5.71	1.54	0.23209	6-phosphofructo-2-kinase (1);	0.496023	0.24935	N	0.034432	T	0.06554	0.0168	N	0.00408	-1.53	0.20403	N	0.999904	B;B;B;B	0.02656	0.0;0.0;0.0;0.0	B;B;B;B	0.04013	0.001;0.0;0.0;0.0	T	0.40905	-0.9538	9	0.05620	T	0.96	-18.1641	9.3897	0.38365	0.3959:0.419:0.1851:0.0	.	153;139;139;119	B7Z955;Q16875-2;Q16875;Q5VX15	.;.;F263_HUMAN;.	N	119;119;153;139;139;139;139;139;139	.	ENSP00000369105:H139N	H	+	1	0	PFKFB3	6298723	0.021000	0.18746	0.983000	0.44433	0.868000	0.49771	0.284000	0.18864	0.716000	0.32124	0.591000	0.81541	CAT		0.463	PFKFB3-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000046647.1			A	6258717	C	A	6258717	3	1	598	1	0	0	0	0	1	0	0	0	11769	826	29	4	453	4	PFKFB3	10	6258717	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08		6258717	129276030	76	35777	274	2								
PFKFB3	5209	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr10	6258718	6258719	+	Missense_Mutation	DNP	AT	AT	TA													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gaggagacacatgatccttcAttttgccaaagaaaatgact							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr10:6258718_6258719AT>TA	ENST00000379775.4	+	5	746_747	c.416_417AT>TA	c.(415-417)cAT>cTA	p.H139L	PFKFB3_ENST00000317350.4_Missense_Mutation_p.H139L|PFKFB3_ENST00000379782.3_Missense_Mutation_p.H139L|PFKFB3_ENST00000540253.1_Missense_Mutation_p.H153L|PFKFB3_ENST00000379789.4_Missense_Mutation_p.H119L|PFKFB3_ENST00000360521.2_Missense_Mutation_p.H139L|PFKFB3_ENST00000536985.1_Missense_Mutation_p.H119L|PFKFB3_ENST00000379785.1_Missense_Mutation_p.H139L	NM_004566.3	NP_004557.1	Q16875	F263_HUMAN	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	139	6-phosphofructo-2-kinase.				carbohydrate metabolic process (GO:0005975)|carbohydrate phosphorylation (GO:0046835)|fructose 2,6-bisphosphate metabolic process (GO:0006003)|fructose metabolic process (GO:0006000)|glucose metabolic process (GO:0006006)|glycolytic process (GO:0006096)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|nucleus (GO:0005634)	6-phosphofructo-2-kinase activity (GO:0003873)|ATP binding (GO:0005524)|fructose-2,6-bisphosphate 2-phosphatase activity (GO:0004331)			central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(1)|liver(2)|lung(10)|ovary(3)|upper_aerodigestive_tract(1)	22						ATGATCCTTCATTTTGCCAAAG	0.47																																																0																																										SO:0001583	missense	5209				CCDS7078.1, CCDS44353.1, CCDS60479.1	10p15.1	2008-05-14			ENSG00000170525	ENSG00000170525			8874	protein-coding gene	gene with protein product		605319				9146922, 10072580	Standard	NM_004566		Approved		uc001ije.3	Q16875	OTTHUMG00000017621	Exception_encountered	10.37:g.6258718_6258719delinsTA	ENSP00000369100:p.His139Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z955|O43622|O75902|Q5VX15|Q5VX18|Q5VX19	Missense_Mutation	DNP	ENST00000379775.4	37	CCDS7078.1																																																																																				0.47	PFKFB3-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000046647.1			TA	6258719	AT	TA	6258718	3	4	598	1	0	0	0	0	1	0	0	0	11769	217	8	5	454	5	PFKFB3	10	6258718	Missense_Mutation	DNP	AT	TCGA-GL-7773-01A-11D-2136-08	1	6258718	129276029	77	35778	274	2								
PRPF18	8559	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	13653627	13653627	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ttcttcaggcgcttggagagTccttagggaaaggcgatgat	14	7	2	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr10:13653627T>A	ENST00000378572.3	+	6	683	c.523T>A	c.(523-525)Tcc>Acc	p.S175T		NM_003675.3	NP_003666.1	Q99633	PRP18_HUMAN	pre-mRNA processing factor 18	175					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)|spliceosomal complex (GO:0005681)	potassium channel inhibitor activity (GO:0019870)			central_nervous_system(1)|endometrium(5)|large_intestine(5)|lung(5)|prostate(1)	17						GCTTGGAGAGTCCTTAGGGAA	0.423																																																0													128	119	122					10																	13653627		2203	4300	6503	SO:0001583	missense	8559			U51990	CCDS7100.1	10p12.33	2013-06-10	2013-06-10		ENSG00000165630	ENSG00000165630			17351	protein-coding gene	gene with protein product		604993	"PRP18 pre-mRNA processing factor 18 homolog (yeast)", "PRP18 pre-mRNA processing factor 18 homolog (S. cerevisiae)"			9000057	Standard	XM_005252634		Approved	hPrp18	uc001imp.3	Q99633	OTTHUMG00000017702	ENST00000378572.3:c.523T>A	10.37:g.13653627T>A	ENSP00000367835:p.Ser175Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T9P9|Q9BUI9	Missense_Mutation	SNP	ENST00000378572.3	37	CCDS7100.1	.	.	.	.	.	.	.	.	.	.	T	12.27	1.886622	0.33348	.	.	ENSG00000165630	ENST00000378572;ENST00000417658;ENST00000320054;ENST00000378544	.	.	.	5.59	5.59	0.84812	Prp18 (2);	0.105608	0.64402	D	0.000003	T	0.41419	0.1158	N	0.16478	0.41	0.45295	D	0.998291	B	0.06786	0.001	B	0.04013	0.001	T	0.28681	-1.0036	9	0.15499	T	0.54	-14.6828	15.7693	0.78152	0.0:0.0:0.0:1.0	.	175	Q99633	PRP18_HUMAN	T	175;169;160;169	.	ENSP00000367824:S160T	S	+	1	0	PRPF18	13693633	1.000000	0.71417	1.000000	0.80357	0.919000	0.55068	4.281000	0.58965	2.125000	0.65367	0.459000	0.35465	TCC		0.423	PRPF18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046879.1			A	13653627	T	A	13653627	3	1	598	1	0	0	0	0	1	0	0	0	12573	1667	58	5	545	5	PRPF18	10	13653627	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	7394909	13653627	121881120	78	35779										
CUBN	8029	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	16941136	16941136	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ggaaaattctgaggccagtgAggggatctgattgtaccatt	13	6	2	3			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr10:16941136A>G	ENST00000377833.4	-	54	8522	c.8457T>C	c.(8455-8457)ccT>ccC	p.P2819P		NM_001081.3	NP_001072.2	O60494	CUBN_HUMAN	cubilin (intrinsic factor-cobalamin receptor)	2819	CUB 21. {ECO:0000255|PROSITE- ProRule:PRU00059}.				cholesterol metabolic process (GO:0008203)|cobalamin metabolic process (GO:0009235)|cobalamin transport (GO:0015889)|lipoprotein metabolic process (GO:0042157)|lipoprotein transport (GO:0042953)|receptor-mediated endocytosis (GO:0006898)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|tissue homeostasis (GO:0001894)|vitamin D metabolic process (GO:0042359)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|coated pit (GO:0005905)|cytosol (GO:0005829)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|extrinsic component of external side of plasma membrane (GO:0031232)|Golgi apparatus (GO:0005794)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|cobalamin binding (GO:0031419)|protein homodimerization activity (GO:0042803)|receptor activity (GO:0004872)|transporter activity (GO:0005215)			breast(8)|central_nervous_system(4)|cervix(1)|endometrium(18)|haematopoietic_and_lymphoid_tissue(3)|kidney(12)|large_intestine(42)|liver(1)|lung(107)|ovary(9)|pancreas(2)|prostate(3)|skin(9)|stomach(3)|upper_aerodigestive_tract(11)|urinary_tract(8)	241					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GAGGCCAGTGAGGGGATCTGA	0.398																																																0													129	121	124					10																	16941136		2203	4300	6503	SO:0001819	synonymous_variant	8029			AF034611	CCDS7113.1	10p12	2014-09-17			ENSG00000107611	ENSG00000107611			2548	protein-coding gene	gene with protein product		602997		MGA1		9572993, 9478979	Standard	NM_001081		Approved	IFCR, gp280	uc001ioo.3	O60494	OTTHUMG00000017741	ENST00000377833.4:c.8457T>C	10.37:g.16941136A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0YIZ4|Q5VTA6|Q96RU9	Silent	SNP	ENST00000377833.4	37	CCDS7113.1																																																																																				0.398	CUBN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047009.1	NM_001081		G	16941136	A	G	16941136	2	3	598	1	0	0	0	0	0	0	0	1	4053	291	11	3		3	CUBN	10	16941136	Silent	SNP	A	TCGA-GL-7773-01A-11D-2136-08	3287509	16941136	118593611	79	35780										
FBXW4	6468	hgsc.bcm.edu	37	chr10	103454329	103454329	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cgccagagcgcaggccccgcGgccgggcgggcagccgactc	17	18	0	1	rs61761937	byFrequency	TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr10:103454329G>C	ENST00000331272.7	-	1	687	c.69C>G	c.(67-69)gcC>gcG	p.A23A		NM_022039.3	NP_071322.1	P57775	FBXW4_HUMAN	F-box and WD repeat domain containing 4	23					cartilage development (GO:0051216)|embryonic digit morphogenesis (GO:0042733)|embryonic limb morphogenesis (GO:0030326)|positive regulation of mesenchymal cell proliferation (GO:0002053)|ubiquitin-dependent protein catabolic process (GO:0006511)|Wnt signaling pathway (GO:0016055)	ubiquitin ligase complex (GO:0000151)				breast(3)|endometrium(2)|large_intestine(4)|lung(4)|skin(1)|stomach(1)	15		Colorectal(252;0.123)		Epithelial(162;4.35e-08)|all cancers(201;1.92e-06)		CAGGCCCCGCGGCCGGGCGGG	0.766													G|||	214	0.0427316	0.0182	0.0648	5008	,	,		9341	0.0853		0.0388	False		,,,				2504	0.0204															0													2	2	2					10																	103454329		1212	2761	3973	SO:0001819	synonymous_variant	6468			AF281859	CCDS31271.1	10q24	2013-01-09	2007-02-08	2005-03-12	ENSG00000107829	ENSG00000107829		"F-boxes / WD-40 domains", "WD repeat domain containing"	10847	protein-coding gene	gene with protein product		608071	"split hand/foot malformation (ectrodactyly) type 3", "F-box and WD-40 domain protein 4"	SHFM3		8723077, 7912888	Standard	XM_005270053		Approved	Fbw4, dactylin	uc001kto.3	P57775	OTTHUMG00000018938	ENST00000331272.7:c.69C>G	10.37:g.103454329G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SVS1|Q96IM6	Silent	SNP	ENST00000331272.7	37	CCDS31271.1																																																																																				0.766	FBXW4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049979.2	NM_022039		C	103454329	G	C	103454329	2	2	598	1	0	0	0	0	0	0	0	1	5774	1103	39	4		4	FBXW4	10	103454329	Silent	SNP	G	TCGA-GL-7773-01A-11D-2136-08	86513193	103454329	32080418	80	35781										
NRAP	4892	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	115365937	115365938	+	Splice_Site	DNP	GT	GT	TA													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	taagtaacaaaagggcttacGtcactcaggttggctgcatt							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr10:115365937_115365938GT>TA	ENST00000359988.3	-	33	4050_4051	c.3806_3807AC>TA	c.(3805-3807)gAC>gTA	p.D1269V	NRAP_ENST00000360478.3_Splice_Site_p.D1234V|NRAP_ENST00000369360.3_Splice_Site_p.D1242V|NRAP_ENST00000369358.4_Splice_Site_p.D1277V	NM_001261463.1|NM_198060.3	NP_001248392.1|NP_932326.2			nebulin-related anchoring protein											autonomic_ganglia(1)|breast(2)|central_nervous_system(4)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(18)|lung(39)|ovary(6)|prostate(3)|skin(1)|stomach(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	95		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		AAGGGCTTACGTCACTCAGGTT	0.475																																																0																																										SO:0001630	splice_region_variant	4892				CCDS7578.1, CCDS7579.1, CCDS73199.1	10q24-q26	2008-08-01			ENSG00000197893	ENSG00000197893			7988	protein-coding gene	gene with protein product		602873				12789664, 10320340	Standard	NM_006175		Approved		uc001lal.4	Q86VF7	OTTHUMG00000019072	ENST00000359988.3:c.3806_3807delinsTA	10.37:g.115365937_115365938delinsTA		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	DNP	ENST00000359988.3	37	CCDS7579.1																																																																																				0.475	NRAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050425.2	NM_006175	Missense_Mutation	TA	115365938	GT	TA	115365937	5	4	598	1	0	0	0	0	0	0	1	0	10645	1159	40	4	1425	4	NRAP	10	115365937	Splice_Site	DNP	GT	TCGA-GL-7773-01A-11D-2136-08	11911608	115365937	20168810	81	35782	275	2								
NRAP	4892	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	115365939	115365939	+	Missense_Mutation	SNP	C	C	A													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	agtaacaaaagggcttacgtCactcaggttggctgcattcg							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr10:115365939C>A	ENST00000359988.3	-	33	4049	c.3805G>T	c.(3805-3807)Gac>Tac	p.D1269Y	NRAP_ENST00000360478.3_Missense_Mutation_p.D1234Y|NRAP_ENST00000369360.3_Missense_Mutation_p.D1242Y|NRAP_ENST00000369358.4_Missense_Mutation_p.D1277Y	NM_001261463.1|NM_198060.3	NP_001248392.1|NP_932326.2			nebulin-related anchoring protein											autonomic_ganglia(1)|breast(2)|central_nervous_system(4)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(18)|lung(39)|ovary(6)|prostate(3)|skin(1)|stomach(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	95		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		GGGCTTACGTCACTCAGGTTG	0.473																																																0													166	157	160					10																	115365939		2203	4300	6503	SO:0001583	missense	4892				CCDS7578.1, CCDS7579.1, CCDS73199.1	10q24-q26	2008-08-01			ENSG00000197893	ENSG00000197893			7988	protein-coding gene	gene with protein product		602873				12789664, 10320340	Standard	NM_006175		Approved		uc001lal.4	Q86VF7	OTTHUMG00000019072	ENST00000359988.3:c.3805G>T	10.37:g.115365939C>A	ENSP00000353078:p.Asp1269Tyr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000359988.3	37	CCDS7579.1	.	.	.	.	.	.	.	.	.	.	C	17.53	3.412753	0.62511	.	.	ENSG00000197893	ENST00000369358;ENST00000369360;ENST00000359988;ENST00000360478	T;T;T;T	0.59224	0.28;0.28;0.28;0.28	5.64	5.64	0.86602	.	0.155393	0.56097	D	0.000026	T	0.77698	0.4169	M	0.80183	2.485	0.41367	D	0.987468	P;P;P	0.52061	0.95;0.938;0.95	D;D;D	0.67900	0.954;0.923;0.954	T	0.80344	-0.1422	10	0.87932	D	0	.	17.896	0.88888	0.0:1.0:0.0:0.0	.	1269;1234;1269	A0AVL2;Q86VF7-4;Q86VF7	.;.;NRAP_HUMAN	Y	1277;1242;1269;1234	ENSP00000358365:D1277Y;ENSP00000358367:D1242Y;ENSP00000353078:D1269Y;ENSP00000353666:D1234Y	ENSP00000353078:D1269Y	D	-	1	0	NRAP	115355929	1.000000	0.71417	0.998000	0.56505	0.764000	0.43329	2.427000	0.44740	2.664000	0.90586	0.655000	0.94253	GAC		0.473	NRAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050425.2	NM_006175		A	115365939	C	A	115365939	3	1	598	1	0	0	0	0	1	0	0	0	10645	826	29	4	1427	4	NRAP	10	115365939	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	2	115365939	20168808	82	35783	275	2								
KRTAP5-4	387267	bcgsc.ca	37	chr11	1643279	1643279	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ccacagccggagccacagccCccacagccggagccacagcc	10	21	0	0	rs551852315	byFrequency	TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr11:1643279C>T	ENST00000399682.1	-	1	89	c.45G>A	c.(43-45)ggG>ggA	p.G15G		NM_001012709.1	NP_001012727	Q6L8H1	KRA54_HUMAN	keratin associated protein 5-4	0						keratin filament (GO:0045095)				NS(1)|endometrium(9)|kidney(2)|lung(2)|pancreas(1)|prostate(3)|skin(2)	20		all_epithelial(84;0.00819)|Breast(177;0.00832)|Ovarian(85;0.0256)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		agccacagcccccacagccgg	0.682																																																0																																										SO:0001819	synonymous_variant	387267			AB126073		11p15.5	2012-04-19			ENSG00000241598	ENSG00000241598		"Keratin associated proteins"	23599	protein-coding gene	gene with protein product						15144888	Standard	NM_001012709		Approved	KRTAP5.4	uc009ycy.1	Q6L8H1	OTTHUMG00000057553	ENST00000399682.1:c.45G>A	11.37:g.1643279C>T		Somatic		WXS	Illumina HiSeq	Phase_1		Silent	SNP	ENST00000399682.1	37																																																																																					0.682	KRTAP5-4-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000127918.1	NM_001012709		T	1643279	C	T	1643279	2	4	598	1	0	0	0	0	0	0	0	1	8570	610	22	2		2	KRTAP5-4	11	1643279	Silent	SNP	C	TCGA-GL-7773-01A-11D-2136-08		1643279	133363237	83	35784										
MPEG1	219972	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	58978386	58978386	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gctgcagcccctcctgacagAccaccaccatccccatggat	7	19	0	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr11:58978386A>T	ENST00000361050.3	-	1	2038	c.1953T>A	c.(1951-1953)ggT>ggA	p.G651G		NM_001039396.1	NP_001034485.1	Q2M385	MPEG1_HUMAN	macrophage expressed 1	651						integral component of membrane (GO:0016021)				NS(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(21)|ovary(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	39		all_epithelial(135;0.125)				CTCCTGACAGACCACCACCAT	0.577																																																0													100	108	105					11																	58978386		2014	4161	6175	SO:0001819	synonymous_variant	219972			AK097211	CCDS41650.1	11q12.1	2013-07-31				ENSG00000197629			29619	protein-coding gene	gene with protein product	"macrophage expressed gene 1"	610390				7888681, 23257510	Standard	NM_001039396		Approved	MPG1	uc001nnu.4	Q2M385		ENST00000361050.3:c.1953T>A	11.37:g.58978386A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M1T6|Q8TEF8	Silent	SNP	ENST00000361050.3	37	CCDS41650.1																																																																																				0.577	MPEG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370027.1	NM_001039396		T	58978386	A	T	58978386	2	4	598	1	0	0	0	0	0	0	0	1	9730	262	10	5		5	MPEG1	11	58978386	Silent	SNP	A	TCGA-GL-7773-01A-11D-2136-08	57335107	58978386	76028130	84	35785										
FLRT1	28992	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	63885635	63885635	+	Intron	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ccgtaccgcgccaaagaagaGtacgtggtccacactatctt	9	13	1	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr11:63885635G>A	ENST00000255681.6	-	3	584				RP11-21A7A.3_ENST00000543817.1_RNA|FLRT1_ENST00000246841.3_Silent_p.E632E	NM_014067.3	NP_054786.2	Q9BQ69	MACD1_HUMAN	MACRO domain containing 1						cellular response to DNA damage stimulus (GO:0006974)|protein de-ADP-ribosylation (GO:0051725)|purine nucleoside metabolic process (GO:0042278)	mitochondrion (GO:0005739)|nucleus (GO:0005634)	deacetylase activity (GO:0019213)|hydrolase activity, acting on glycosyl bonds (GO:0016798)			breast(1)|large_intestine(3)|lung(6)|skin(1)	11						CCAAAGAAGAGTACGTGGTCC	0.607																																																0													79	69	72					11																	63885635		2201	4297	6498	SO:0001627	intron_variant	23769			AF202922	CCDS8056.1	11q13.1	2007-07-24	2007-06-11		ENSG00000133315	ENSG00000133315			29598	protein-coding gene	gene with protein product		610400				15691879	Standard	NM_014067		Approved	LRP16	uc001nyh.3	Q9BQ69	OTTHUMG00000167843	ENST00000255681.6:c.517+33075C>T	11.37:g.63885635G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UH96	Silent	SNP	ENST00000255681.6	37	CCDS8056.1																																																																																				0.607	MACROD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396570.1	NM_014067		A	63885635	G	A	63885635	1	1	598	0	1	0	0	0	0	0	0	0	5945	1020	36	2		2	FLRT1	11	63885635	Intron	SNP	G	TCGA-GL-7773-01A-11D-2136-08	4907249	63885635	71120881	85	35786										
PC	5091	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	66617172	66617172	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gtggcagtgaagtccttgaaGtgggcaaacacatcggggta	15	7	0	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr11:66617172G>C	ENST00000393958.2	-	20	3150	c.3057C>G	c.(3055-3057)caC>caG	p.H1019Q	PC_ENST00000528224.1_5'UTR|PC_ENST00000393955.2_Missense_Mutation_p.H1019Q|PC_ENST00000529047.1_Missense_Mutation_p.H139Q|PC_ENST00000393960.1_Missense_Mutation_p.H1019Q	NM_000920.3	NP_000911.2	P11498	PYC_HUMAN	pyruvate carboxylase	1019					biotin metabolic process (GO:0006768)|carbohydrate metabolic process (GO:0005975)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|lipid metabolic process (GO:0006629)|oxaloacetate metabolic process (GO:0006107)|pyruvate metabolic process (GO:0006090)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|biotin binding (GO:0009374)|biotin carboxylase activity (GO:0004075)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)|pyruvate carboxylase activity (GO:0004736)			cervix(1)|endometrium(3)|kidney(3)|large_intestine(9)|lung(12)|ovary(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	32		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	AGTCCTTGAAGTGGGCAAACA	0.577																																																0													107	86	93					11																	66617172		2200	4295	6495	SO:0001583	missense	5091			U04641	CCDS8152.1	11q13.4-q13.5	2012-07-11			ENSG00000173599	ENSG00000173599	6.4.1.1		8636	protein-coding gene	gene with protein product		608786				6548474	Standard	NM_022172		Approved	PCB	uc001ojn.1	P11498	OTTHUMG00000167099	ENST00000393958.2:c.3057C>G	11.37:g.66617172G>C	ENSP00000377530:p.His1019Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DN00|Q16705	Missense_Mutation	SNP	ENST00000393958.2	37	CCDS8152.1	.	.	.	.	.	.	.	.	.	.	G	10.71	1.427583	0.25726	.	.	ENSG00000173599	ENST00000529047;ENST00000393955;ENST00000393958;ENST00000393960	D;D;D;D	0.95377	-1.52;-3.69;-3.69;-3.69	4.89	-4.28	0.03732	Carboxylase, conserved domain (1);	0.231260	0.33515	N	0.004840	T	0.79505	0.4457	N	0.00859	-1.14	0.80722	D	1	B	0.02656	0.0	B	0.06405	0.002	T	0.59568	-0.7430	10	0.34782	T	0.22	-8.0574	7.3499	0.26684	0.0864:0.6092:0.163:0.1415	.	1019	P11498	PYC_HUMAN	Q	139;1019;1019;1019	ENSP00000435905:H139Q;ENSP00000377527:H1019Q;ENSP00000377530:H1019Q;ENSP00000377532:H1019Q	ENSP00000377527:H1019Q	H	-	3	2	PC	66373748	0.988000	0.35896	0.454000	0.27019	0.803000	0.45373	0.243000	0.18106	-0.607000	0.05738	0.462000	0.41574	CAC		0.577	PC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393115.1	NM_001040716		C	66617172	G	C	66617172	3	2	598	1	0	0	0	0	1	0	0	0	11504	1020	36	4	491	4	PC	11	66617172	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	2731537	66617172	68389344	86	35787										
FUT4	2526	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	94278647	94278649	+	In_Frame_Del	DEL	TTT	TTT	-													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	accgtgccaactacgagcgcTttgtgccccgcggcgccttc							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	TTT	TTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr11:94278647_94278649delTTT	ENST00000358752.2	+	1	1631_1633	c.1348_1350delTTT	c.(1348-1350)tttdel	p.F450del	RP11-867G2.8_ENST00000536540.1_RNA|RP11-867G2.8_ENST00000537874.1_RNA	NM_002033.3	NP_002024.1	P22083	FUT4_HUMAN	fucosyltransferase 4 (alpha (1,3) fucosyltransferase, myeloid-specific)	450					carbohydrate metabolic process (GO:0005975)|fucosylation (GO:0036065)|L-fucose catabolic process (GO:0042355)|protein glycosylation (GO:0006486)	cell periphery (GO:0071944)|cell surface (GO:0009986)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	alpha-(1->3)-fucosyltransferase activity (GO:0046920)|fucosyltransferase activity (GO:0008417)			central_nervous_system(2)|endometrium(2)|lung(1)|skin(2)|upper_aerodigestive_tract(1)	8		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CTACGAGCGCTTTGTGCCCCGCG	0.655																																																0																																										SO:0001651	inframe_deletion	2526				CCDS8301.1	11q21	2013-02-26			ENSG00000196371	ENSG00000196371		"CD molecules", "Fucosyltransferases"	4015	protein-coding gene	gene with protein product	"ELAM ligand fucosyltransferase", "galactoside 3-L-fucosyltransferase"	104230		CD15, FCT3A, ELFT		1702034	Standard	NM_002033		Approved	FUC-TIV	uc001pez.3	P22083	OTTHUMG00000167795	ENST00000358752.2:c.1348_1350delTTT	11.37:g.94278647_94278649delTTT	ENSP00000351602:p.Phe450del	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMS0	In_Frame_Del	DEL	ENST00000358752.2	37	CCDS8301.1																																																																																				0.655	FUT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396327.2	NM_002033		-	94278649	TTT	-	94278647	7	5	598	1	0	1	0	1	0	0	0	0	6113	1609	56	0	1350	0	FUT4	11	94278647	In_Frame_Del	DEL	TTT	TCGA-GL-7773-01A-11D-2136-08	27661475	94278647	40727869	87	35788										
DRD2	1813	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	113288847	113288847	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tgaatcctgctgaatttccaCtcacctaccacctggggaca	7	14	1	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr11:113288847C>T	ENST00000362072.3	-	3	641	c.297G>A	c.(295-297)gaG>gaA	p.E99E	DRD2_ENST00000544518.1_Silent_p.E98E|DRD2_ENST00000346454.3_Silent_p.E99E|DRD2_ENST00000535984.1_5'UTR|DRD2_ENST00000542968.1_Silent_p.E99E|DRD2_ENST00000355319.2_Silent_p.E99E|DRD2_ENST00000538967.1_Silent_p.E99E	NM_000795.3	NP_000786.1	P14416	DRD2_HUMAN	dopamine receptor D2	99					activation of protein kinase activity (GO:0032147)|adenohypophysis development (GO:0021984)|adenylate cyclase-inhibiting dopamine receptor signaling pathway (GO:0007195)|adult walking behavior (GO:0007628)|arachidonic acid secretion (GO:0050482)|associative learning (GO:0008306)|auditory behavior (GO:0031223)|axonogenesis (GO:0007409)|behavioral response to cocaine (GO:0048148)|behavioral response to ethanol (GO:0048149)|branching morphogenesis of a nerve (GO:0048755)|cellular calcium ion homeostasis (GO:0006874)|cerebral cortex GABAergic interneuron migration (GO:0021853)|circadian regulation of gene expression (GO:0032922)|dopamine metabolic process (GO:0042417)|feeding behavior (GO:0007631)|G-protein coupled receptor internalization (GO:0002031)|grooming behavior (GO:0007625)|intracellular signal transduction (GO:0035556)|locomotory behavior (GO:0007626)|long-term memory (GO:0007616)|negative regulation of adenylate cyclase activity (GO:0007194)|negative regulation of blood pressure (GO:0045776)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of circadian sleep/wake cycle, sleep (GO:0042321)|negative regulation of cytosolic calcium ion concentration (GO:0051481)|negative regulation of dopamine receptor signaling pathway (GO:0060160)|negative regulation of dopamine secretion (GO:0033602)|negative regulation of insulin secretion (GO:0046676)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein secretion (GO:0050709)|negative regulation of synaptic transmission, glutamatergic (GO:0051967)|negative regulation of voltage-gated calcium channel activity (GO:1901386)|neurological system process involved in regulation of systemic arterial blood pressure (GO:0001976)|neuron-neuron synaptic transmission (GO:0007270)|orbitofrontal cortex development (GO:0021769)|peristalsis (GO:0030432)|phosphatidylinositol metabolic process (GO:0046488)|phospholipase C-activating dopamine receptor signaling pathway (GO:0060158)|pigmentation (GO:0043473)|positive regulation of cytokinesis (GO:0032467)|positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G-protein coupled signaling pathway (GO:0051482)|positive regulation of dopamine uptake involved in synaptic transmission (GO:0051586)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of G-protein coupled receptor protein signaling pathway (GO:0045745)|positive regulation of growth hormone secretion (GO:0060124)|positive regulation of long-term synaptic potentiation (GO:1900273)|positive regulation of multicellular organism growth (GO:0040018)|positive regulation of neuroblast proliferation (GO:0002052)|positive regulation of receptor internalization (GO:0002092)|positive regulation of renal sodium excretion (GO:0035815)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of urine volume (GO:0035810)|prepulse inhibition (GO:0060134)|protein localization (GO:0008104)|regulation of cAMP metabolic process (GO:0030814)|regulation of dopamine uptake involved in synaptic transmission (GO:0051584)|regulation of heart rate (GO:0002027)|regulation of locomotion involved in locomotory behavior (GO:0090325)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of phosphoprotein phosphatase activity (GO:0043666)|regulation of potassium ion transport (GO:0043266)|regulation of sodium ion transport (GO:0002028)|regulation of synapse structural plasticity (GO:0051823)|regulation of synaptic transmission, GABAergic (GO:0032228)|release of sequestered calcium ion into cytosol (GO:0051209)|response to amphetamine (GO:0001975)|response to axon injury (GO:0048678)|response to cocaine (GO:0042220)|response to drug (GO:0042493)|response to histamine (GO:0034776)|response to hypoxia (GO:0001666)|response to inactivity (GO:0014854)|response to iron ion (GO:0010039)|response to light stimulus (GO:0009416)|response to morphine (GO:0043278)|response to nicotine (GO:0035094)|response to toxic substance (GO:0009636)|sensory perception of smell (GO:0007608)|striatum development (GO:0021756)|synapse assembly (GO:0007416)|synaptic transmission, dopaminergic (GO:0001963)|temperature homeostasis (GO:0001659)|visual learning (GO:0008542)|Wnt signaling pathway (GO:0016055)	acrosomal vesicle (GO:0001669)|axon (GO:0030424)|axon terminus (GO:0043679)|dendrite (GO:0030425)|dendritic spine (GO:0043197)|endocytic vesicle (GO:0030139)|integral component of plasma membrane (GO:0005887)|lateral plasma membrane (GO:0016328)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|sperm flagellum (GO:0036126)|synaptic vesicle membrane (GO:0030672)	dopamine binding (GO:0035240)|dopamine neurotransmitter receptor activity, coupled via Gi/Go (GO:0001591)|drug binding (GO:0008144)|identical protein binding (GO:0042802)|potassium channel regulator activity (GO:0015459)			endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(5)|lung(18)|pancreas(1)|prostate(3)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	39		all_cancers(61;3.91e-16)|all_epithelial(67;2.95e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000977)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0494)		BRCA - Breast invasive adenocarcinoma(274;5.77e-06)|Epithelial(105;6.66e-05)|all cancers(92;0.000307)|OV - Ovarian serous cystadenocarcinoma(223;0.216)	Acepromazine(DB01614)|Acetophenazine(DB01063)|Alizapride(DB01425)|Amantadine(DB00915)|Amisulpride(DB06288)|Amoxapine(DB00543)|Amphetamine(DB00182)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Asenapine(DB06216)|Bromocriptine(DB01200)|Buspirone(DB00490)|Cabergoline(DB00248)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Desipramine(DB01151)|Domperidone(DB01184)|Dopamine(DB00988)|Doxepin(DB01142)|Droperidol(DB00450)|Ergoloid mesylate(DB01049)|Ergotamine(DB00696)|Flupentixol(DB00875)|Fluphenazine(DB00623)|Fluspirilene(DB04842)|Haloperidol(DB00502)|Iloperidone(DB04946)|Imipramine(DB00458)|Ketamine(DB01221)|L-DOPA(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Lurasidone(DB08815)|Maprotiline(DB00934)|Memantine(DB01043)|Mesoridazine(DB00933)|Methotrimeprazine(DB01403)|Metoclopramide(DB01233)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Molindone(DB01618)|Nortriptyline(DB00540)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Perphenazine(DB00850)|Pimozide(DB01100)|Pipotiazine(DB01621)|Pramipexole(DB00413)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Rotigotine(DB05271)|Sertindole(DB06144)|Sulpiride(DB00391)|Tetrabenazine(DB04844)|Thioproperazine(DB01622)|Thioridazine(DB00679)|Thiothixene(DB01623)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Trimipramine(DB00726)|Yohimbine(DB01392)|Ziprasidone(DB00246)	TGAATTTCCACTCACCTACCA	0.532																																																0													171	121	138					11																	113288847		2201	4296	6497	SO:0001819	synonymous_variant	1813			M29066	CCDS8361.1, CCDS8362.1	11q22-q23	2012-08-08						"GPCR / Class A : Dopamine receptors"	3023	protein-coding gene	gene with protein product		126450					Standard	NM_000795		Approved		uc001poa.4	P14416		ENST00000362072.3:c.297G>A	11.37:g.113288847C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NZR3|Q9UPA9	Silent	SNP	ENST00000362072.3	37	CCDS8361.1																																																																																				0.532	DRD2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395834.1	NM_000795		T	113288847	C	T	113288847	2	4	598	1	0	0	0	0	0	0	0	1	4759	564	20	2		2	DRD2	11	113288847	Silent	SNP	C	TCGA-GL-7773-01A-11D-2136-08	19010200	113288847	21717669	88	35789										
HINFP	25988	broad.mit.edu;bcgsc.ca	37	chr11	119001504	119001504	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cagttctgctgacctcatccGccatgtctacttccactgct	6	16	3	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr11:119001504G>T	ENST00000350777.2	+	3	314	c.251G>T	c.(250-252)cGc>cTc	p.R84L	HINFP_ENST00000527354.1_3'UTR|HINFP_ENST00000527410.1_Missense_Mutation_p.R84L	NM_001243259.1|NM_015517.4|NM_198971.2	NP_001230188.1|NP_056332.2|NP_945322.1	Q9BQA5	HINFP_HUMAN	histone H4 transcription factor	84					DNA damage checkpoint (GO:0000077)|DNA repair (GO:0006281)|establishment of protein localization (GO:0045184)|G1/S transition of mitotic cell cycle (GO:0000082)|in utero embryonic development (GO:0001701)|myoblast differentiation (GO:0045445)|negative regulation of gene expression (GO:0010629)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of gene expression (GO:0010628)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of gene expression (GO:0010468)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	Cajal body (GO:0015030)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone binding (GO:0042393)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription regulatory region DNA binding (GO:0044212)			endometrium(2)|kidney(1)|large_intestine(4)|lung(7)|ovary(1)|pancreas(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	23						GACCTCATCCGCCATGTCTAC	0.532																																																0													140	126	131					11																	119001504		2200	4295	6495	SO:0001583	missense	25988			AL080201	CCDS8414.1, CCDS58188.1	11q23.3	2013-01-08	2009-01-22	2009-01-22	ENSG00000172273	ENSG00000172273		"Zinc fingers, C2H2-type"	17850	protein-coding gene	gene with protein product	"histone nuclear factor P"	607099	"MBD2-interacting zinc finger 1", "MBD2-interacting zinc finger"	MIZF		11553631	Standard	NM_015517		Approved	DKFZP434F162, HiNF-P, ZNF743	uc001pvq.3	Q9BQA5	OTTHUMG00000166168	ENST00000350777.2:c.251G>T	11.37:g.119001504G>T	ENSP00000318085:p.Arg84Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPH6|B4DWB4|E9PQF4|Q96E65|Q9Y4M7	Missense_Mutation	SNP	ENST00000350777.2	37	CCDS8414.1	.	.	.	.	.	.	.	.	.	.	G	24.2	4.500731	0.85176	.	.	ENSG00000172273	ENST00000350777;ENST00000529988;ENST00000527410;ENST00000532312	T;T;T;T	0.38722	1.12;1.12;1.12;1.12	5.93	5.93	0.95920	Zinc finger, C2H2-like (1);	0.000000	0.85682	D	0.000000	T	0.64216	0.2578	M	0.66506	2.035	0.80722	D	1	D;D	0.89917	0.999;1.0	D;D	0.81914	0.979;0.995	T	0.54984	-0.8211	10	0.25751	T	0.34	-38.4882	20.3539	0.98825	0.0:0.0:1.0:0.0	.	84;84	B4DTN3;Q9BQA5	.;HINFP_HUMAN	L	84	ENSP00000318085:R84L;ENSP00000431468:R84L;ENSP00000436815:R84L;ENSP00000434574:R84L	ENSP00000318085:R84L	R	+	2	0	HINFP	118506714	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.444000	0.97578	2.826000	0.97356	0.655000	0.94253	CGC		0.532	HINFP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388201.2	NM_015517		T	119001504	G	T	119001504	3	4	598	1	0	0	0	0	1	0	0	0	7117	1087	38	4	257	4	HINFP	11	119001504	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	5712657	119001504	16005012	89	35790										
IGSF9B	22997	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	133816079	133816079	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tcccgtcactgggtggatcaCgtcgcatcgcaggaccacgc	12	15	2	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr11:133816079C>T	ENST00000321016.8	-	2	369	c.139G>A	c.(139-141)Gtg>Atg	p.V47M	IGSF9B_ENST00000533871.2_Missense_Mutation_p.V47M			Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	47	Ig-like 1.				homophilic cell adhesion (GO:0007156)|positive regulation of inhibitory postsynaptic membrane potential (GO:0097151)	dendrite (GO:0030425)|inhibitory synapse (GO:0060077)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)				breast(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(18)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	44	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)		GGGTGGATCACGTCGCATCGC	0.627																																																0													50	57	54					11																	133816079		2145	4233	6378	SO:0001583	missense	22997			AK097578	CCDS61010.1	11q25	2013-02-11	2005-10-12	2005-11-20				"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	32326	protein-coding gene	gene with protein product		613773					Standard	NM_001277285		Approved	KIAA1030	uc031qfh.1	Q9UPX0		ENST00000321016.8:c.139G>A	11.37:g.133816079C>T	ENSP00000317980:p.Val47Met	Somatic		WXS	Illumina HiSeq	Phase_I	G5EA26	Missense_Mutation	SNP	ENST00000321016.8	37		.	.	.	.	.	.	.	.	.	.	C	32	5.124674	0.94429	.	.	ENSG00000080854	ENST00000321016;ENST00000527648;ENST00000533160;ENST00000526663	T;T;T;T	0.66815	-0.23;-0.23;-0.23;-0.23	5.41	5.41	0.78517	Immunoglobulin subtype (1);Immunoglobulin V-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.56097	D	0.000025	T	0.82144	0.4973	M	0.75884	2.315	0.58432	D	0.999999	D	0.89917	1.0	D	0.74023	0.982	D	0.84066	0.0377	10	0.87932	D	0	.	18.8177	0.92084	0.0:1.0:0.0:0.0	.	47	Q9UPX0	TUTLB_HUMAN	M	47;47;37;94	ENSP00000317980:V47M;ENSP00000436576:V47M;ENSP00000434026:V37M;ENSP00000435989:V94M	ENSP00000317980:V47M	V	-	1	0	IGSF9B	133321289	1.000000	0.71417	1.000000	0.80357	0.883000	0.51084	7.684000	0.84104	2.544000	0.85801	0.655000	0.94253	GTG		0.627	IGSF9B-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		XM_290502		T	133816079	C	T	133816079	3	4	598	1	0	0	0	0	1	0	0	0	7613	536	19	1	3982	1	IGSF9B	11	133816079	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	14814575	133816079	1190437	90	35791										
CLEC1B	51266	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	10145838	10145838	+	Frame_Shift_Del	DEL	A	A	-													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gggtgcattttcccattatgAaaataagcacaattcatatt							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr12:10145838delA	ENST00000298527.6	-	6	773	c.594delT	c.(592-594)tttfs	p.F198fs	CLEC1B_ENST00000428126.2_Frame_Shift_Del_p.F165fs|CLEC1B_ENST00000348658.4_Frame_Shift_Del_p.F165fs	NM_016509.3	NP_057593.3	Q9P126	CLC1B_HUMAN	C-type lectin domain family 1, member B	198	C-type lectin. {ECO:0000255|PROSITE- ProRule:PRU00040}.				cell surface receptor signaling pathway (GO:0007166)|defense response (GO:0006952)|platelet formation (GO:0030220)	integral component of plasma membrane (GO:0005887)	carbohydrate binding (GO:0030246)|transmembrane signaling receptor activity (GO:0004888)			NS(1)|breast(1)|central_nervous_system(1)|large_intestine(2)|lung(12)|stomach(1)|urinary_tract(1)	19						TCCCATTATGAAAATAAGCAC	0.373																																																0													136	123	127					12																	10145838		1852	4085	5937	SO:0001589	frameshift_variant	51266			AF124841	CCDS41751.1, CCDS41752.1	12p13.31	2006-04-12				ENSG00000165682		"C-type lectin domain containing"	24356	protein-coding gene	gene with protein product		606783				10671229, 11745369	Standard	NM_016509		Approved	CLEC2	uc001qwu.3	Q9P126		ENST00000298527.6:c.594delT	12.37:g.10145838delA	ENSP00000298527:p.Phe198fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UWX7|Q8NHR6	Frame_Shift_Del	DEL	ENST00000298527.6	37	CCDS41752.1																																																																																				0.373	CLEC1B-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399922.1	NM_016509		-	10145838	A	-	10145838	7	5	598	1	0	1	0	1	0	0	0	0	3508	243	9	0	99	0	CLEC1B	12	10145838	Frame_Shift_Del	DEL	A	TCGA-GL-7773-01A-11D-2136-08		10145838	123706057	91	35792										
KLRK1	22914	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	10541382	10541382	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	aaacataccccagctgtgtcGagacctccgaccacgaatcc	7	16	0	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr12:10541382G>A	ENST00000240618.6	-	2	168	c.28C>T	c.(28-30)Cga>Tga	p.R10*	RP11-277P12.20_ENST00000500682.1_RNA|KLRC4-KLRK1_ENST00000539300.1_3'UTR|KLRK1_ENST00000540818.1_Nonsense_Mutation_p.R10*	NM_001199805.1|NM_007360.3	NP_001186734.1|NP_031386.2	P26718	NKG2D_HUMAN	killer cell lectin-like receptor subfamily K, member 1	10					cell differentiation (GO:0030154)|innate immune response (GO:0045087)|natural killer cell activation (GO:0030101)|positive regulation of natural killer cell mediated cytotoxicity (GO:0045954)|regulation of immune response (GO:0050776)|signal transduction (GO:0007165)|T cell costimulation (GO:0031295)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)|receptor activity (GO:0004872)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(3)|skin(1)	9						CAGCTGTGTCGAGACCTCCGA	0.388																																																0													101	92	95					12																	10541382		2203	4300	6503	SO:0001587	stop_gained	0			AJ001687	CCDS8623.1	12p13.2-p12.3	2010-02-17	2003-02-19		ENSG00000213809	ENSG00000213809		"Killer cell lectin-like receptors", "CD molecules"	18788	protein-coding gene	gene with protein product		611817	"DNA segment on chromosome 12 (unique) 2489 expressed sequence"	D12S2489E		9683661, 2007850	Standard	NM_007360		Approved	NKG2D, KLR, NKG2-D, CD314	uc009zhj.3	P26718	OTTHUMG00000168574	ENST00000240618.6:c.28C>T	12.37:g.10541382G>A	ENSP00000240618:p.Arg10*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7K5|A8K7P4|Q9NR41	Nonsense_Mutation	SNP	ENST00000240618.6	37	CCDS8623.1	.	.	.	.	.	.	.	.	.	.	G	25.1	4.601701	0.87055	.	.	ENSG00000213809	ENST00000240618;ENST00000540818	.	.	.	3.92	2.04	0.26737	.	1.508560	0.03947	N	0.287889	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.09338	T	0.73	.	4.7229	0.12927	0.1127:0.0:0.657:0.2303	.	.	.	.	X	10	.	ENSP00000240618:R10X	R	-	1	2	KLRK1	10432649	0.000000	0.05858	0.002000	0.10522	0.003000	0.03518	-0.084000	0.11268	0.589000	0.29677	0.637000	0.83480	CGA		0.388	KLRK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400269.1	NM_007360		A	10541382	G	A	10541382	4	1	598	1	0	0	0	0	0	1	0	0	8430	1066	37	1	650	1	KLRK1	12	10541382	Nonsense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	395544	10541382	123310513	92	35793										
PRB3	5544	broad.mit.edu	37	chr12	11420475	11420475	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ggacgaggtgggggaccttgAggtttgttgcctccttgtgg	18	7	0	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr12:11420475A>G	ENST00000279573.7	-	3	843	c.708T>C	c.(706-708)ccT>ccC	p.P236P	PRB3_ENST00000440870.3_Intron|PRB3_ENST00000538488.1_Intron|PRB3_ENST00000381842.3_Intron			Q04118	PRB3_HUMAN	proline-rich protein BstNI subfamily 3	165	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.				defense response to Gram-negative bacterium (GO:0050829)	extracellular region (GO:0005576)				breast(2)|endometrium(1)|kidney(2)|large_intestine(1)|lung(13)|ovary(1)|skin(5)	25			OV - Ovarian serous cystadenocarcinoma(49;0.201)			GGGGACCTTGAGGTTTGTTGC	0.617																																																0													10	4	6					12																	11420475		655	1159	1814	SO:0001819	synonymous_variant	5544					12p13.2	2012-10-02				ENSG00000197870			9339	protein-coding gene	gene with protein product		168840				1894623	Standard	NM_006249		Approved	PRG	uc001qzs.3	Q04118		ENST00000279573.7:c.708T>C	12.37:g.11420475A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q15188|Q4VAY3|Q4VAY4|Q7M4M9|Q9UCT9	Silent	SNP	ENST00000279573.7	37																																																																																					0.617	PRB3-001	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000402119.5	NM_006249		G	11420475	A	G	11420475	2	3	598	1	0	0	0	0	0	0	0	1	12454	291	11	3		3	PRB3	12	11420475	Silent	SNP	A	TCGA-GL-7773-01A-11D-2136-08	879093	11420475	122431420	93	35794										
LRP6	4040	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	12318144	12318144	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gccagtcagtccagtaaacaTagtcacccaacaaagtaaat	6	11	2	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr12:12318144T>A	ENST00000261349.4	-	8	1707	c.1631A>T	c.(1630-1632)tAt>tTt	p.Y544F	LRP6_ENST00000543091.1_Missense_Mutation_p.Y544F	NM_002336.2	NP_002327.2	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein 6	544	Beta-propeller 2.				anterior/posterior pattern specification (GO:0009952)|axis elongation involved in somitogenesis (GO:0090245)|bone morphogenesis (GO:0060349)|bone remodeling (GO:0046849)|branching involved in mammary gland duct morphogenesis (GO:0060444)|canonical Wnt signaling pathway (GO:0060070)|canonical Wnt signaling pathway involved in cardiac neural crest cell differentiation involved in heart development (GO:0061310)|canonical Wnt signaling pathway involved in neural crest cell differentiation (GO:0044335)|canonical Wnt signaling pathway involved in positive regulation of cardiac outflow tract cell proliferation (GO:0061324)|canonical Wnt signaling pathway involved in regulation of cell proliferation (GO:0044340)|cell migration involved in gastrulation (GO:0042074)|cellular response to cholesterol (GO:0071397)|cerebellum morphogenesis (GO:0021587)|cerebral cortex cell migration (GO:0021795)|cerebral cortex development (GO:0021987)|convergent extension (GO:0060026)|dopaminergic neuron differentiation (GO:0071542)|embryonic camera-type eye morphogenesis (GO:0048596)|embryonic digit morphogenesis (GO:0042733)|embryonic forelimb morphogenesis (GO:0035115)|embryonic hindlimb morphogenesis (GO:0035116)|embryonic limb morphogenesis (GO:0030326)|embryonic pattern specification (GO:0009880)|embryonic retina morphogenesis in camera-type eye (GO:0060059)|external genitalia morphogenesis (GO:0035261)|face morphogenesis (GO:0060325)|forebrain radial glial cell differentiation (GO:0021861)|formation of radial glial scaffolds (GO:0021943)|gastrulation with mouth forming second (GO:0001702)|heart looping (GO:0001947)|mammary placode formation (GO:0060596)|midbrain development (GO:0030901)|midbrain-hindbrain boundary development (GO:0030917)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of planar cell polarity pathway involved in cardiac muscle tissue morphogenesis (GO:2000151)|negative regulation of planar cell polarity pathway involved in cardiac right atrium morphogenesis (GO:2000162)|negative regulation of planar cell polarity pathway involved in neural tube closure (GO:2000168)|negative regulation of planar cell polarity pathway involved in outflow tract morphogenesis (GO:2000164)|negative regulation of planar cell polarity pathway involved in pericardium morphogenesis (GO:2000166)|negative regulation of planar cell polarity pathway involved in ventricular septum morphogenesis (GO:2000149)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of protein serine/threonine kinase activity (GO:0071901)|negative regulation of smooth muscle cell apoptotic process (GO:0034392)|neural crest cell differentiation (GO:0014033)|neural crest formation (GO:0014029)|neural tube closure (GO:0001843)|odontogenesis of dentin-containing tooth (GO:0042475)|palate development (GO:0060021)|pericardium morphogenesis (GO:0003344)|positive regulation of apoptotic process (GO:0043065)|positive regulation of bone resorption (GO:0045780)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cell cycle (GO:0045787)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of ossification (GO:0045778)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of Wnt signaling pathway involved in dorsal/ventral axis specification (GO:2000055)|post-anal tail morphogenesis (GO:0036342)|primitive streak formation (GO:0090009)|receptor-mediated endocytosis of low-density lipoprotein particle involved in cholesterol transport (GO:0090118)|regulation of cell development (GO:0060284)|regulation of fat cell differentiation (GO:0045598)|regulation of ossification (GO:0030278)|response to folic acid (GO:0051593)|response to peptide hormone (GO:0043434)|single organismal cell-cell adhesion (GO:0016337)|synaptic transmission (GO:0007268)|thalamus development (GO:0021794)|toxin transport (GO:1901998)|trachea cartilage morphogenesis (GO:0060535)|Wnt signaling pathway (GO:0016055)|Wnt signaling pathway involved in dorsal/ventral axis specification (GO:0044332)|Wnt signaling pathway involved in forebrain neuroblast division (GO:0021874)|Wnt signaling pathway involved in somitogenesis (GO:0090244)	cell surface (GO:0009986)|cytoplasmic vesicle (GO:0031410)|early endosome (GO:0005769)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|synapse (GO:0045202)	apolipoprotein binding (GO:0034185)|coreceptor activity involved in Wnt signaling pathway (GO:0071936)|frizzled binding (GO:0005109)|identical protein binding (GO:0042802)|kinase inhibitor activity (GO:0019210)|low-density lipoprotein receptor activity (GO:0005041)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)|toxin transporter activity (GO:0019534)|Wnt-activated receptor activity (GO:0042813)|Wnt-protein binding (GO:0017147)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(19)|lung(28)|ovary(3)|prostate(2)|skin(7)|upper_aerodigestive_tract(5)|urinary_tract(1)	85		Prostate(47;0.0865)				CCAGTAAACATAGTCACCCAA	0.433																																																0													149	150	150					12																	12318144		2203	4300	6503	SO:0001583	missense	4040			AF074264	CCDS8647.1	12p13.2	2013-05-29			ENSG00000070018	ENSG00000070018		"Low density lipoprotein receptors"	6698	protein-coding gene	gene with protein product		603507				9704021	Standard	NM_002336		Approved	ADCAD2	uc001rah.4	O75581	OTTHUMG00000168540	ENST00000261349.4:c.1631A>T	12.37:g.12318144T>A	ENSP00000261349:p.Tyr544Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RZ2	Missense_Mutation	SNP	ENST00000261349.4	37	CCDS8647.1	.	.	.	.	.	.	.	.	.	.	T	9.879	1.200963	0.22121	.	.	ENSG00000070018	ENST00000261349;ENST00000543091	D;D	0.91295	-2.82;-2.82	4.98	3.81	0.43845	Six-bladed beta-propeller, TolB-like (1);	0.000000	0.56097	D	0.000032	T	0.81767	0.4892	N	0.21583	0.68	0.51767	D	0.999935	B;B	0.06786	0.001;0.001	B;B	0.10450	0.001;0.005	T	0.71820	-0.4477	10	0.11794	T	0.64	.	11.3882	0.49798	0.1355:0.0:0.0:0.8645	.	544;544	F5H7J9;O75581	.;LRP6_HUMAN	F	544	ENSP00000261349:Y544F;ENSP00000442472:Y544F	ENSP00000261349:Y544F	Y	-	2	0	LRP6	12209411	1.000000	0.71417	1.000000	0.80357	0.803000	0.45373	1.571000	0.36450	0.834000	0.34852	0.377000	0.23210	TAT		0.433	LRP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400137.1			A	12318144	T	A	12318144	3	1	598	1	0	0	0	0	1	0	0	0	8969	1406	49	5	3274	5	LRP6	12	12318144	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	897669	12318144	121533751	94	35795										
FAR2	55711	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	29469910	29469910	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cgggcccctgccattatctaTgactgctatctgcggctcac	9	15	3	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr12:29469910T>A	ENST00000536681.3	+	9	1338	c.1092T>A	c.(1090-1092)taT>taA	p.Y364*	FAR2_ENST00000547116.1_Nonsense_Mutation_p.Y267*|FAR2_ENST00000182377.4_Nonsense_Mutation_p.Y364*|RP11-996F15.2_ENST00000553105.1_RNA	NM_001271783.1|NM_001271784.1	NP_001258712.1|NP_001258713.1	Q96K12	FACR2_HUMAN	fatty acyl CoA reductase 2	364					cellular lipid metabolic process (GO:0044255)|ether lipid biosynthetic process (GO:0008611)|long-chain fatty-acyl-CoA metabolic process (GO:0035336)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|peroxisomal matrix (GO:0005782)|peroxisome (GO:0005777)	fatty-acyl-CoA reductase (alcohol-forming) activity (GO:0080019)|long-chain-fatty-acyl-CoA reductase activity (GO:0050062)			central_nervous_system(1)|endometrium(3)|large_intestine(6)|liver(2)|lung(15)|prostate(1)|stomach(1)	29						CCATTATCTATGACTGCTATC	0.502																																																0													133	136	135					12																	29469910		2203	4300	6503	SO:0001587	stop_gained	55711			AL136843	CCDS8717.1, CCDS61084.1	12p11.23	2013-07-30	2008-06-06	2008-06-06	ENSG00000064763	ENSG00000064763	1.2.1.-	"Short chain dehydrogenase/reductase superfamily / Atypical members"	25531	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 10E, member 2"		"male sterility domain containing 1"	MLSTD1		15220348, 15220349, 19027726	Standard	NM_001271783		Approved	FLJ10462, SDR10E2	uc001ris.5	Q96K12	OTTHUMG00000169320	ENST00000536681.3:c.1092T>A	12.37:g.29469910T>A	ENSP00000443291:p.Tyr364*	Somatic		WXS	Illumina HiSeq	Phase_I	F8VV73|Q9H0D5|Q9NVW8	Nonsense_Mutation	SNP	ENST00000536681.3	37	CCDS8717.1	.	.	.	.	.	.	.	.	.	.	T	38	7.075542	0.98048	.	.	ENSG00000064763	ENST00000536681;ENST00000182377;ENST00000547116	.	.	.	4.44	-3.57	0.04612	.	0.075218	0.56097	D	0.000033	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.10636	T	0.68	-5.8079	11.3024	0.49314	0.0:0.5138:0.0:0.4862	.	.	.	.	X	364;364;267	.	ENSP00000182377:Y364X	Y	+	3	2	FAR2	29361177	0.039000	0.19947	0.980000	0.43619	0.940000	0.58332	-0.830000	0.04410	-0.596000	0.05821	0.383000	0.25322	TAT		0.502	FAR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403479.2	NM_018099		A	29469910	T	A	29469910	4	1	598	1	0	0	0	0	0	1	0	0	5682	1471	51	5	1122	5	FAR2	12	29469910	Nonsense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	17151766	29469910	104381985	95	35796										
LRRK2	120892	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	40758851	40758851	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gtcatgatgacagcacagctAggcaagtttctttcctttag	9	9	2	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr12:40758851A>G	ENST00000298910.7	+	49	7447	c.7389A>G	c.(7387-7389)ctA>ctG	p.L2463L		NM_198578.3	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2463					activation of MAPK activity (GO:0000187)|activation of MAPKK activity (GO:0000186)|autophagy (GO:0006914)|cellular protein localization (GO:0034613)|cellular response to dopamine (GO:1903351)|cellular response to manganese ion (GO:0071287)|cellular response to oxidative stress (GO:0034599)|determination of adult lifespan (GO:0008340)|endocytosis (GO:0006897)|exploration behavior (GO:0035640)|GTP catabolic process (GO:0006184)|intracellular distribution of mitochondria (GO:0048312)|intracellular signal transduction (GO:0035556)|locomotory exploration behavior (GO:0035641)|MAPK cascade (GO:0000165)|negative regulation of GTPase activity (GO:0034260)|negative regulation of hydrogen peroxide-induced cell death (GO:1903206)|negative regulation of late endosome to lysosome transport (GO:1902823)|negative regulation of peroxidase activity (GO:2000469)|negative regulation of protein binding (GO:0032091)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of protein processing (GO:0010955)|negative regulation of protein processing involved in protein targeting to mitochondrion (GO:1903217)|negative regulation of protein targeting to mitochondrion (GO:1903215)|negative regulation of thioredoxin peroxidase activity by peptidyl-threonine phosphorylation (GO:1903125)|neuromuscular junction development (GO:0007528)|neuron death (GO:0070997)|neuron projection morphogenesis (GO:0048812)|olfactory bulb development (GO:0021772)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|positive regulation of autophagy (GO:0010508)|positive regulation of dopamine receptor signaling pathway (GO:0060161)|positive regulation of GTPase activity (GO:0043547)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of programmed cell death (GO:0043068)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein autoubiquitination (GO:1902499)|positive regulation of protein binding (GO:0032092)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein ubiquitination (GO:0031398)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|reactive oxygen species metabolic process (GO:0072593)|regulation of branching morphogenesis of a nerve (GO:2000172)|regulation of dendritic spine morphogenesis (GO:0061001)|regulation of dopamine receptor signaling pathway (GO:0060159)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of kidney size (GO:0035564)|regulation of locomotion (GO:0040012)|regulation of membrane potential (GO:0042391)|regulation of mitochondrial depolarization (GO:0051900)|regulation of neuroblast proliferation (GO:1902692)|regulation of neuron death (GO:1901214)|regulation of neuron maturation (GO:0014041)|regulation of protein kinase A signaling (GO:0010738)|regulation of synaptic transmission, glutamatergic (GO:0051966)|regulation of synaptic vesicle exocytosis (GO:2000300)|regulation of synaptic vesicle transport (GO:1902803)|response to oxidative stress (GO:0006979)|small GTPase mediated signal transduction (GO:0007264)|tangential migration from the subventricular zone to the olfactory bulb (GO:0022028)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytoplasmic side of mitochondrial outer membrane (GO:0032473)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|dendrite (GO:0030425)|dendrite cytoplasm (GO:0032839)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|inclusion body (GO:0016234)|lysosome (GO:0005764)|membrane raft (GO:0045121)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrial membrane (GO:0031966)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)|terminal bouton (GO:0043195)|trans-Golgi network (GO:0005802)	actin binding (GO:0003779)|ATP binding (GO:0005524)|clathrin binding (GO:0030276)|glycoprotein binding (GO:0001948)|GTP binding (GO:0005525)|GTP-dependent protein kinase activity (GO:0034211)|GTPase activator activity (GO:0005096)|GTPase activity (GO:0003924)|identical protein binding (GO:0042802)|ion channel binding (GO:0044325)|kinase activity (GO:0016301)|MAP kinase kinase activity (GO:0004708)|peroxidase inhibitor activity (GO:0036479)|protein homodimerization activity (GO:0042803)|protein kinase A binding (GO:0051018)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|Rho GTPase binding (GO:0017048)|SNARE binding (GO:0000149)|syntaxin-1 binding (GO:0017075)|tubulin binding (GO:0015631)			NS(3)|biliary_tract(1)|breast(6)|central_nervous_system(2)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(23)|large_intestine(31)|lung(55)|ovary(15)|pancreas(2)|prostate(4)|skin(4)|stomach(9)|upper_aerodigestive_tract(7)|urinary_tract(2)	181	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CAGCACAGCTAGGCAAGTTTC	0.343																																																0													66	63	64					12																	40758851		2203	4298	6501	SO:0001630	splice_region_variant	120892			AK026776	CCDS31774.1	12q12	2011-07-21			ENSG00000188906	ENSG00000188906		"Parkinson disease"	18618	protein-coding gene	gene with protein product		609007	"Parkinson disease (autosomal dominant) 8"	PARK8		15541308	Standard	NM_198578		Approved	ROCO2, DKFZp434H2111, FLJ45829, RIPK7	uc001rmg.4	Q5S007	OTTHUMG00000059742	ENST00000298910.7:c.7390+1A>G	12.37:g.40758851A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NJU2|Q6ZS50|Q8NCX9	Silent	SNP	ENST00000298910.7	37	CCDS31774.1																																																																																				0.343	LRRK2-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277179.1	XM_058513	Silent	G	40758851	A	G	40758851	5	3	598	1	0	0	0	0	0	0	1	0	9040	434	15	3	7583	3	LRRK2	12	40758851	Splice_Site	SNP	A	TCGA-GL-7773-01A-11D-2136-08	11288941	40758851	93093044	96	35797										
ANO6	196527	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	45803213	45803213	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	taaccccacgatgggaacagGactaccatctgcagcctatg	9	13	1	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr12:45803213G>T	ENST00000320560.8	+	16	2156	c.1954G>T	c.(1954-1956)Gac>Tac	p.D652Y	ANO6_ENST00000441606.2_Missense_Mutation_p.D634Y|ANO6_ENST00000423947.3_Missense_Mutation_p.D673Y|ANO6_ENST00000425752.2_Missense_Mutation_p.D652Y|ANO6_ENST00000426898.2_3'UTR|ANO6_ENST00000435642.1_Missense_Mutation_p.D652Y	NM_001025356.2	NP_001020527.2	Q4KMQ2	ANO6_HUMAN	anoctamin 6	652					activation of blood coagulation via clotting cascade (GO:0002543)|blood coagulation (GO:0007596)|bone mineralization involved in bone maturation (GO:0035630)|calcium activated galactosylceramide scrambling (GO:0061591)|calcium activated phosphatidylcholine scrambling (GO:0061590)|calcium activated phosphatidylserine scrambling (GO:0061589)|cation transmembrane transport (GO:0098655)|cation transport (GO:0006812)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|dendritic cell chemotaxis (GO:0002407)|ion transmembrane transport (GO:0034220)|phosphatidylserine exposure on blood platelet (GO:0097045)|phospholipid scrambling (GO:0017121)|positive regulation of endothelial cell apoptotic process (GO:2000353)|regulation of anion transport (GO:0044070)|transmembrane transport (GO:0055085)	cell surface (GO:0009986)|chloride channel complex (GO:0034707)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium activated cation channel activity (GO:0005227)|intracellular calcium activated chloride channel activity (GO:0005229)|phospholipid scramblase activity (GO:0017128)|voltage-gated chloride channel activity (GO:0005247)|voltage-gated ion channel activity (GO:0005244)			central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(8)|lung(23)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	46						ATGGGAACAGGACTACCATCT	0.353																																																0													124	124	124					12																	45803213		2203	4300	6503	SO:0001583	missense	196527			AL832340	CCDS31782.1, CCDS44865.1, CCDS44866.1, CCDS55819.1	12q12-q13.11	2014-09-17	2008-08-28	2008-08-28				"Ion channels / Chloride channels : Calcium activated : Anoctamins"	25240	protein-coding gene	gene with protein product		608663	"transmembrane protein 16F"	TMEM16F		15067359, 24692353	Standard	NM_001025356		Approved	DKFZp313M0720	uc010slf.2	Q4KMQ2	OTTHUMG00000169564	ENST00000320560.8:c.1954G>T	12.37:g.45803213G>T	ENSP00000320087:p.Asp652Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNM6|B9EGG0|E7ENK4|E9PB30|E9PCT2|Q8N3Q2	Missense_Mutation	SNP	ENST00000320560.8	37	CCDS31782.1	.	.	.	.	.	.	.	.	.	.	G	26.6	4.754633	0.89843	.	.	ENSG00000177119	ENST00000425752;ENST00000423947;ENST00000435642;ENST00000320560;ENST00000441606	T;T;T;T;T	0.65732	-0.17;-0.17;-0.17;-0.17;-0.17	4.9	4.9	0.64082	.	0.000000	0.85682	D	0.000000	D	0.83991	0.5374	M	0.91872	3.25	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;0.999	D;D;D;D	0.97110	1.0;0.999;1.0;0.995	D	0.87659	0.2533	10	0.87932	D	0	.	19.0047	0.92846	0.0:0.0:1.0:0.0	.	634;673;652;652	E9PB30;B9EGG0;E9PCT2;Q4KMQ2	.;.;.;ANO6_HUMAN	Y	652;673;652;652;634	ENSP00000391417:D652Y;ENSP00000409126:D673Y;ENSP00000413840:D652Y;ENSP00000320087:D652Y;ENSP00000413137:D634Y	ENSP00000320087:D652Y	D	+	1	0	ANO6	44089480	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	9.813000	0.99286	2.652000	0.90054	0.655000	0.94253	GAC		0.353	ANO6-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000404822.1	XM_113743		T	45803213	G	T	45803213	3	4	598	1	0	0	0	0	1	0	0	0	701	1174	41	4	2036	4	ANO6	12	45803213	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	5044362	45803213	88048682	97	35798										
KRT4	3851	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	53203234	53203234	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ccaccttggcctccaactccAccttgttcaggtaggcagca	8	16	1	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr12:53203234A>T	ENST00000551956.1	-	4	1259	c.767T>A	c.(766-768)gTg>gAg	p.V256E	KRT4_ENST00000458244.2_Missense_Mutation_p.V236E|KRT4_ENST00000293774.4_Missense_Mutation_p.V330E			P19013	K2C4_HUMAN	keratin 4	270	Coil 1B.|Rod.				cytoskeleton organization (GO:0007010)|epithelial cell differentiation (GO:0030855)|negative regulation of epithelial cell proliferation (GO:0050680)	cell surface (GO:0009986)|intermediate filament (GO:0005882)|intermediate filament cytoskeleton (GO:0045111)|keratin filament (GO:0045095)|nucleus (GO:0005634)	structural molecule activity (GO:0005198)			endometrium(3)|kidney(4)|large_intestine(6)|lung(8)|ovary(4)|prostate(2)|skin(2)	29						CTCCAACTCCACCTTGTTCAG	0.537																																					Pancreas(190;284 2995 41444 45903)											0													110	116	114					12																	53203234		2191	4299	6490	SO:0001583	missense	3851				CCDS41787.1, CCDS41787.2	12q13.13	2013-01-16			ENSG00000170477	ENSG00000170477		"-", "Intermediate filaments type II, keratins (basic)"	6441	protein-coding gene	gene with protein product	"cytokeratin 4", "keratin, type II cytoskeletal 4"	123940		CYK4		16831889	Standard	NM_002272		Approved	CK4, K4	uc031qhk.1	P19013		ENST00000551956.1:c.767T>A	12.37:g.53203234A>T	ENSP00000448220:p.Val256Glu	Somatic		WXS	Illumina HiSeq	Phase_I	F8VS64|Q6GTR8|Q96LA7|Q9BTL1	Missense_Mutation	SNP	ENST00000551956.1	37	CCDS41787.2	.	.	.	.	.	.	.	.	.	.	A	22.6	4.312086	0.81358	.	.	ENSG00000170477	ENST00000551956;ENST00000293774;ENST00000458244	D;D;D	0.90563	-2.69;-2.69;-2.69	5.7	4.55	0.56014	Filament (1);	0.000000	0.43260	D	0.000591	D	0.95987	0.8693	H	0.98918	4.37	0.48571	D	0.999672	P	0.46706	0.883	P	0.51297	0.665	D	0.95929	0.8937	10	0.72032	D	0.01	.	11.1001	0.48168	0.9266:0.0:0.0734:0.0	.	270	P19013	K2C4_HUMAN	E	256;330;236	ENSP00000448220:V256E;ENSP00000293774:V330E;ENSP00000387904:V236E	ENSP00000293774:V330E	V	-	2	0	KRT4	51489501	1.000000	0.71417	1.000000	0.80357	0.973000	0.67179	2.371000	0.44248	1.094000	0.41399	0.533000	0.62120	GTG		0.537	KRT4-001	KNOWN	upstream_ATG|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000405931.1	NM_002272		T	53203234	A	T	53203234	3	4	598	1	0	0	0	0	1	0	0	0	8484	159	6	5	819	5	KRT4	12	53203234	Missense_Mutation	SNP	A	TCGA-GL-7773-01A-11D-2136-08	7400021	53203234	80648661	98	35799										
ATXN2	6311	hgsc.bcm.edu	37	chr12	112036797	112036797	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tgctgttgctgctgctgctgCtgctgctgctgctgctgctg	14	12	0	0	rs4098854	byFrequency	TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr12:112036797C>T	ENST00000377617.3	-	1	683	c.522G>A	c.(520-522)caG>caA	p.Q174Q	RP11-686G8.2_ENST00000547021.1_RNA|ATXN2_ENST00000535949.1_Intron|ATXN2_ENST00000550104.1_Silent_p.Q174Q|ATXN2_ENST00000549455.1_5'UTR|ATXN2_ENST00000608853.1_Silent_p.Q14Q|ATXN2_ENST00000389153.4_5'Flank|ATXN2_ENST00000542287.2_Intron	NM_002973.3	NP_002964.3	Q99700	ATX2_HUMAN	ataxin 2	174	Poly-Gln.				cell death (GO:0008219)|cerebellar Purkinje cell differentiation (GO:0021702)|cytoplasmic mRNA processing body assembly (GO:0033962)|homeostasis of number of cells (GO:0048872)|negative regulation of multicellular organism growth (GO:0040015)|negative regulation of receptor internalization (GO:0002091)|neuromuscular process (GO:0050905)|neuron projection morphogenesis (GO:0048812)|regulation of translation (GO:0006417)|RNA metabolic process (GO:0016070)|RNA transport (GO:0050658)|stress granule assembly (GO:0034063)	cytoplasm (GO:0005737)|cytoplasmic stress granule (GO:0010494)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|polysome (GO:0005844)|ribonucleoprotein complex (GO:0030529)|trans-Golgi network (GO:0005802)	epidermal growth factor receptor binding (GO:0005154)|poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)|RNA binding (GO:0003723)			NS(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(6)|kidney(5)|large_intestine(8)|lung(6)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	37						gctgctgctgctgctgctgct	0.731													C|||	3289	0.656749	0.5734	0.6787	5008	,	,		4944	0.622		0.7167	False		,,,				2504	0.728															0													1	1	1					12																	112036797		720	1770	2490	SO:0001819	synonymous_variant	6311			U80749	CCDS31902.1	12q23-q24.1	2014-09-17	2004-08-12	2004-08-13	ENSG00000204842	ENSG00000204842		"Ataxins"	10555	protein-coding gene	gene with protein product	"trinucleotide repeat containing 13"	601517	"spinocerebellar ataxia 2 (olivopontocerebellar ataxia 2, autosomal dominant, ataxin 2)"	SCA2, TNRC13		8358438, 9225980	Standard	NM_002973		Approved	ATX2	uc001tsj.3	Q99700	OTTHUMG00000133475	ENST00000377617.3:c.522G>A	12.37:g.112036797C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NLD4|Q6ZQZ7|Q99493	Silent	SNP	ENST00000377617.3	37	CCDS31902.1																																																																																				0.731	ATXN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257351.3	NM_002973		T	112036797	C	T	112036797	2	4	598	1	0	0	0	0	0	0	0	1	1211	796	28	2		2	ATXN2	12	112036797	Silent	SNP	C	TCGA-GL-7773-01A-11D-2136-08	58833563	112036797	21815098	99	35800										
ZC3H13	23091	hgsc.bcm.edu	37	chr13	46549817	46549817	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gttcacgttccctctctctcTcccgctccctgtctcgttct	5	19	5	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr13:46549817T>C	ENST00000242848.4	-	12	2417	c.2069A>G	c.(2068-2070)gAg>gGg	p.E690G	ZC3H13_ENST00000282007.3_Missense_Mutation_p.E690G			Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	690	Arg/Glu-rich.						metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(27)|lung(25)|ovary(2)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	79		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)		cctctctctctcccgctccct	0.493																																					Esophageal Squamous(187;747 2077 11056 31291 44172)											0													205	120	149					13																	46549817		2203	4300	6503	SO:0001583	missense	23091			AB020660	CCDS9400.1	13q14.11	2012-07-05	2006-05-15	2006-05-15	ENSG00000123200	ENSG00000123200		"Zinc fingers, CCCH-type domain containing"	20368	protein-coding gene	gene with protein product			"KIAA0853"	KIAA0853		10048485	Standard	XM_005266301		Approved	DKFZp434D1812	uc001vas.1	Q5T200	OTTHUMG00000016863	ENST00000242848.4:c.2069A>G	13.37:g.46549817T>C	ENSP00000242848:p.Glu690Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A2A323|O94936|Q5T1Z9|Q7Z7J3|Q8NDT6|Q9H0L6	Missense_Mutation	SNP	ENST00000242848.4	37		.	.	.	.	.	.	.	.	.	.	T	12.25	1.881313	0.33255	.	.	ENSG00000123200	ENST00000242848;ENST00000282007	T;T	0.37752	2.15;1.18	4.59	4.59	0.56863	.	0.000000	0.56097	D	0.000029	T	0.54208	0.1844	.	.	.	0.80722	D	1	D;D	0.76494	0.998;0.999	D;D	0.78314	0.979;0.991	T	0.50303	-0.8844	9	0.22706	T	0.39	.	14.2792	0.66200	0.0:0.0:0.0:1.0	.	690;690	Q5T200;Q5T200-2	ZC3HD_HUMAN;.	G	690	ENSP00000242848:E690G;ENSP00000282007:E690G	ENSP00000242848:E690G	E	-	2	0	ZC3H13	45447818	1.000000	0.71417	0.901000	0.35422	0.932000	0.56968	6.245000	0.72398	1.822000	0.53115	0.455000	0.32223	GAG		0.493	ZC3H13-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000044789.1	NM_015070		C	46549817	T	C	46549817	3	2	598	1	0	0	0	0	1	0	0	0	17577	1551	54	3	2649	3	ZC3H13	13	46549817	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08		46549817	68620061	100	35801										
ATP7B	540	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	52548876	52548876	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ttccggaccttgccttcaatGgagctgacacaggactggca	11	12	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr13:52548876G>A	ENST00000242839.4	-	2	636	c.480C>T	c.(478-480)tcC>tcT	p.S160S	ATP7B_ENST00000344297.5_Silent_p.S160S|ATP7B_ENST00000482841.1_5'UTR|ATP7B_ENST00000400366.3_Silent_p.S160S|ATP7B_ENST00000448424.2_Silent_p.S160S|ATP7B_ENST00000542656.1_Silent_p.S128S|ATP7B_ENST00000400370.3_Silent_p.S160S|ATP7B_ENST00000418097.2_Silent_p.S160S	NM_000053.3	NP_000044.2	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	160	HMA 2. {ECO:0000255|PROSITE- ProRule:PRU00280}.				cellular copper ion homeostasis (GO:0006878)|cellular zinc ion homeostasis (GO:0006882)|copper ion import (GO:0015677)|copper ion transport (GO:0006825)|intracellular copper ion transport (GO:0015680)|ion transmembrane transport (GO:0034220)|lactation (GO:0007595)|response to copper ion (GO:0046688)|sequestering of calcium ion (GO:0051208)|transmembrane transport (GO:0055085)	Golgi membrane (GO:0000139)|integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|membrane (GO:0016020)|mitochondrion (GO:0005739)|trans-Golgi network (GO:0005802)	ATP binding (GO:0005524)|copper ion binding (GO:0005507)|copper-exporting ATPase activity (GO:0004008)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(5)|kidney(4)|large_intestine(7)|lung(23)|ovary(1)|prostate(3)|skin(4)|stomach(2)	55		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)	Carboplatin(DB00958)|Cisplatin(DB00515)|Oxaliplatin(DB00526)	TGCCTTCAATGGAGCTGACAC	0.562									Wilson disease																																							0													47	49	48					13																	52548876		2045	4186	6231	SO:0001819	synonymous_variant	540	Familial Cancer Database		U11700	CCDS41892.1, CCDS45049.1, CCDS58293.1	13q14.3	2012-10-22	2005-11-29		ENSG00000123191	ENSG00000123191	3.6.3.4	"ATPases / P-type"	870	protein-coding gene	gene with protein product	"Wilson disease", "copper pump 2", "copper-transporting ATPase 2"	606882	"ATPase, Cu++ transporting, beta polypeptide (Wilson disease)"	WND		8298641, 8298639	Standard	NM_000053		Approved		uc001vfw.2	P35670	OTTHUMG00000017406	ENST00000242839.4:c.480C>T	13.37:g.52548876G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q16318|Q16319|Q4U3V3|Q59FJ9|Q5T7X7	Silent	SNP	ENST00000242839.4	37	CCDS41892.1																																																																																				0.562	ATP7B-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045981.1	NM_000053		A	52548876	G	A	52548876	2	1	598	1	0	0	0	0	0	0	0	1	1191	1335	47	2		2	ATP7B	13	52548876	Silent	SNP	G	TCGA-GL-7773-01A-11D-2136-08	5999059	52548876	62621002	101	35802										
CDC16	8881	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	115022697	115022697	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gtcggcgtggttgcatttcaGaatggagagtaagtactgga	15	5	1	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr13:115022697G>T	ENST00000356221.3	+	13	1350	c.1242G>T	c.(1240-1242)caG>caT	p.Q414H	CDC16_ENST00000252457.5_Missense_Mutation_p.Q413H|CDC16_ENST00000375310.1_Missense_Mutation_p.Q320H|CDC16_ENST00000375312.3_Intron|CDC16_ENST00000252458.6_Intron|CDC16_ENST00000360383.3_Missense_Mutation_p.Q414H|CDC16_ENST00000375308.1_Missense_Mutation_p.Q320H			Q13042	CDC16_HUMAN	cell division cycle 16	414					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|cell proliferation (GO:0008283)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K11-linked ubiquitination (GO:0070979)|regulation of mitosis (GO:0007088)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	anaphase-promoting complex (GO:0005680)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|spindle (GO:0005819)				endometrium(3)|kidney(2)|large_intestine(5)|liver(2)|lung(6)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	22	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)			TTGCATTTCAGAATGGAGAGT	0.438																																																0													121	114	116					13																	115022697		2203	4300	6503	SO:0001583	missense	8881			U18291	CCDS9542.2	13q34	2013-01-17	2013-01-17		ENSG00000130177	ENSG00000130177		"Anaphase promoting complex subunits", "Tetratricopeptide (TTC) repeat domain containing"	1720	protein-coding gene	gene with protein product	"anaphase-promoting complex, subunit 6"	603461	"CDC16 (cell division cycle 16, S. cerevisiae, homolog)", "CDC16 cell division cycle 16 homolog (S. cerevisiae)", "cell division cycle 16 homolog (S. cerevisiae)"			7736578	Standard	NM_001078645		Approved	APC6, ANAPC6, CUT9	uc001vul.1	Q13042	OTTHUMG00000017402	ENST00000356221.3:c.1242G>T	13.37:g.115022697G>T	ENSP00000348554:p.Gln414His	Somatic		WXS	Illumina HiSeq	Phase_I	A2A365|Q5T8C8|Q96AE6|Q9Y564	Missense_Mutation	SNP	ENST00000356221.3	37	CCDS9542.2	.	.	.	.	.	.	.	.	.	.	G	12.89	2.074396	0.36566	.	.	ENSG00000130177	ENST00000360383;ENST00000356221;ENST00000375310;ENST00000252457;ENST00000375308	T;T;T;T;T	0.55413	0.52;0.52;0.52;0.52;0.52	5.94	-2.27	0.06846	Tetratricopeptide-like helical (1);Tetratricopeptide repeat-containing (1);	0.064378	0.64402	D	0.000003	T	0.27866	0.0686	N	0.12182	0.205	0.80722	D	1	B;B	0.23540	0.018;0.087	B;B	0.11329	0.006;0.006	T	0.07328	-1.0778	9	.	.	.	-19.2092	13.2551	0.60074	0.6016:0.0:0.3984:0.0	.	413;414	Q13042-2;Q13042	.;CDC16_HUMAN	H	414;414;320;413;320	ENSP00000353549:Q414H;ENSP00000348554:Q414H;ENSP00000364459:Q320H;ENSP00000252457:Q413H;ENSP00000364457:Q320H	.	Q	+	3	2	CDC16	114040799	1.000000	0.71417	0.983000	0.44433	0.942000	0.58702	0.794000	0.26958	-0.384000	0.07845	-0.142000	0.14014	CAG		0.438	CDC16-009	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000276737.1	NM_003903		T	115022697	G	T	115022697	3	4	598	1	0	0	0	0	1	0	0	0	3060	933	33	4	1292	4	CDC16	13	115022697	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	62473821	115022697	147181	102	35803										
PSME2	5721	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	24612672	24612672	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ttgacaattttctccaggttGctgctgatgatatgataaag	9	6	1	4			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr14:24612672G>T	ENST00000216802.5	-	11	1305	c.666C>A	c.(664-666)agC>agA	p.S222R	PSME2_ENST00000471700.2_5'UTR|EMC9_ENST00000419198.2_5'Flank|EMC9_ENST00000558200.1_5'Flank|PSME2_ENST00000560410.1_Missense_Mutation_p.S211R|EMC9_ENST00000560403.1_5'Flank|EMC9_ENST00000216799.4_5'Flank	NM_002818.2	NP_002809.2	Q9UL46	PSME2_HUMAN	proteasome (prosome, macropain) activator subunit 2 (PA28 beta)	222					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|cellular nitrogen compound metabolic process (GO:0034641)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|negative regulation of apoptotic process (GO:0043066)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|viral process (GO:0016032)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|proteasome activator complex (GO:0008537)|proteasome complex (GO:0000502)				endometrium(1)|lung(3)|prostate(2)	6				GBM - Glioblastoma multiforme(265;0.00839)		TCTCCAGGTTGCTGCTGATGA	0.478																																																0													104	99	101					14																	24612672		2203	4300	6503	SO:0001583	missense	5721				CCDS9614.1	14q11.2	2010-03-10			ENSG00000100911	ENSG00000100911		"Proteasome (prosome, macropain) subunits"	9569	protein-coding gene	gene with protein product		602161				7789512	Standard	NM_002818		Approved	PA28beta	uc001wmj.3	Q9UL46	OTTHUMG00000028797	ENST00000216802.5:c.666C>A	14.37:g.24612672G>T	ENSP00000216802:p.Ser222Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q15129	Missense_Mutation	SNP	ENST00000216802.5	37	CCDS9614.1	.	.	.	.	.	.	.	.	.	.	G	14.93	2.681098	0.47886	.	.	ENSG00000100911	ENST00000216802	T	0.40476	1.03	5.15	5.15	0.70609	Proteasome activator pa28, REG beta subunit (2);	0.142096	0.64402	D	0.000004	T	0.38746	0.1052	L	0.36672	1.1	0.36888	D	0.889745	B	0.19073	0.033	B	0.30105	0.111	T	0.45190	-0.9278	10	0.72032	D	0.01	0.0398	14.4828	0.67594	0.0:0.0:1.0:0.0	.	222	Q9UL46	PSME2_HUMAN	R	222	ENSP00000216802:S222R	ENSP00000216802:S222R	S	-	3	2	PSME2	23682512	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	2.328000	0.43867	2.570000	0.86706	0.561000	0.74099	AGC		0.478	PSME2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071918.3	NM_002818		T	24612672	G	T	24612672	3	4	598	1	0	0	0	0	1	0	0	0	12717	1310	46	4	57	4	PSME2	14	24612672	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08		24612672	82736868	103	35804										
TINF2	26277	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	24709984	24709984	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ggaagatgtgtgccaggcttGgcttttggcaggggattgtg	18	5	0	1	rs201135568		TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr14:24709984G>C	ENST00000267415.7	-	6	1043	c.702C>G	c.(700-702)gcC>gcG	p.A234A	TINF2_ENST00000558566.1_3'UTR|TINF2_ENST00000399423.4_Silent_p.A234A|TINF2_ENST00000538777.1_Silent_p.A20A|TINF2_ENST00000540705.1_Silent_p.A199A|TINF2_ENST00000559019.1_3'UTR|TINF2_ENST00000558510.1_5'Flank	NM_001099274.1	NP_001092744.1	Q9BSI4	TINF2_HUMAN	TERF1 (TRF1)-interacting nuclear factor 2	234					negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of protein ADP-ribosylation (GO:0010836)|negative regulation of telomere maintenance via telomerase (GO:0032211)|positive regulation of telomere maintenance (GO:0032206)|protein localization to chromosome (GO:0034502)|protein localization to chromosome, telomeric region (GO:0070198)|telomere assembly (GO:0032202)|telomere maintenance (GO:0000723)|telomere maintenance via telomere lengthening (GO:0010833)	chromosome, telomeric region (GO:0000781)|nuclear telomere cap complex (GO:0000783)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perinucleolar chromocenter (GO:0010370)	telomeric DNA binding (GO:0042162)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|prostate(1)|urinary_tract(1)	7				GBM - Glioblastoma multiforme(265;0.0185)		TGCCAGGCTTGGCTTTTGGCA	0.552									Congenital Dyskeratosis;Ataxia Pancytopenia syndrome																																							0													149	144	146					14																	24709984		1996	4158	6154	SO:0001819	synonymous_variant	26277	Familial Cancer Database	Zinsser-Engman-Cole syndrome, Dyskeratosis Congenita;Myelocerebellar disorder	AF195512	CCDS41936.1, CCDS41937.1	14q12	2008-07-29				ENSG00000092330			11824	protein-coding gene	gene with protein product		604319				10581025, 18252230	Standard	NM_012461		Approved	TIN2	uc001woa.4	Q9BSI4		ENST00000267415.7:c.702C>G	14.37:g.24709984G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3W5Q7|Q9H904|Q9UHC2	Silent	SNP	ENST00000267415.7	37	CCDS41936.1																																																																																				0.552	TINF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415406.2			C	24709984	G	C	24709984	2	2	598	1	0	0	0	0	0	0	0	1	15935	1335	47	4		4	TINF2	14	24709984	Silent	SNP	G	TCGA-GL-7773-01A-11D-2136-08	97312	24709984	82639556	104	35805										
HSPA2	3306	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	65008125	65008125	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gcggccatcgcctacggcctGgacaagaagggctgcgcggg	17	13	0	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr14:65008125G>A	ENST00000394709.1	+	2	634	c.558G>A	c.(556-558)ctG>ctA	p.L186L	HSPA2_ENST00000554883.1_3'UTR|HSPA2_ENST00000247207.6_Silent_p.L186L|RP11-973N13.4_ENST00000554918.1_RNA			P54652	HSP72_HUMAN	heat shock 70kDa protein 2	186					male meiosis (GO:0007140)|male meiosis I (GO:0007141)|negative regulation of inclusion body assembly (GO:0090084)|positive regulation of cyclin-dependent protein serine/threonine kinase activity involved in G2/M transition of mitotic cell cycle (GO:0031662)|protein refolding (GO:0042026)|response to unfolded protein (GO:0006986)|spermatid development (GO:0007286)|synaptonemal complex disassembly (GO:0070194)	blood microparticle (GO:0072562)|CatSper complex (GO:0036128)|cell surface (GO:0009986)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|male germ cell nucleus (GO:0001673)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|synaptonemal complex (GO:0000795)	ATP binding (GO:0005524)|enzyme binding (GO:0019899)|glycolipid binding (GO:0051861)|unfolded protein binding (GO:0051082)			breast(1)|endometrium(4)|large_intestine(3)|lung(7)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	22				all cancers(60;0.00515)|OV - Ovarian serous cystadenocarcinoma(108;0.00584)|BRCA - Breast invasive adenocarcinoma(234;0.045)		CCTACGGCCTGGACAAGAAGG	0.642																																					Pancreas(136;1211 1835 24894 31984 38227)											0													67	75	72					14																	65008125		2203	4300	6503	SO:0001819	synonymous_variant	3306			L26336, BC001752	CCDS9766.1	14q23	2012-10-02	2002-08-29		ENSG00000126803	ENSG00000126803		"Heat shock proteins / HSP70"	5235	protein-coding gene	gene with protein product		140560	"heat shock 70kD protein 2"				Standard	NM_021979		Approved		uc001xhk.4	P54652	OTTHUMG00000141311	ENST00000394709.1:c.558G>A	14.37:g.65008125G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q15508|Q53XM3|Q9UE78	Silent	SNP	ENST00000394709.1	37	CCDS9766.1																																																																																				0.642	HSPA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280651.1			A	65008125	G	A	65008125	2	1	598	1	0	0	0	0	0	0	0	1	7418	1335	47	2		2	HSPA2	14	65008125	Silent	SNP	G	TCGA-GL-7773-01A-11D-2136-08	40298141	65008125	42341415	105	35806										
HSPA2	3306	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	65008173	65008173	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	aagaacgtgctcatctttgaCctgggcggtggcactttcga	12	10	2	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr14:65008173C>A	ENST00000394709.1	+	2	682	c.606C>A	c.(604-606)gaC>gaA	p.D202E	HSPA2_ENST00000554883.1_3'UTR|HSPA2_ENST00000247207.6_Missense_Mutation_p.D202E|RP11-973N13.4_ENST00000554918.1_RNA			P54652	HSP72_HUMAN	heat shock 70kDa protein 2	202					male meiosis (GO:0007140)|male meiosis I (GO:0007141)|negative regulation of inclusion body assembly (GO:0090084)|positive regulation of cyclin-dependent protein serine/threonine kinase activity involved in G2/M transition of mitotic cell cycle (GO:0031662)|protein refolding (GO:0042026)|response to unfolded protein (GO:0006986)|spermatid development (GO:0007286)|synaptonemal complex disassembly (GO:0070194)	blood microparticle (GO:0072562)|CatSper complex (GO:0036128)|cell surface (GO:0009986)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|male germ cell nucleus (GO:0001673)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|synaptonemal complex (GO:0000795)	ATP binding (GO:0005524)|enzyme binding (GO:0019899)|glycolipid binding (GO:0051861)|unfolded protein binding (GO:0051082)			breast(1)|endometrium(4)|large_intestine(3)|lung(7)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	22				all cancers(60;0.00515)|OV - Ovarian serous cystadenocarcinoma(108;0.00584)|BRCA - Breast invasive adenocarcinoma(234;0.045)		TCATCTTTGACCTGGGCGGTG	0.642																																					Pancreas(136;1211 1835 24894 31984 38227)											0													98	106	103					14																	65008173		2203	4300	6503	SO:0001583	missense	3306			L26336, BC001752	CCDS9766.1	14q23	2012-10-02	2002-08-29		ENSG00000126803	ENSG00000126803		"Heat shock proteins / HSP70"	5235	protein-coding gene	gene with protein product		140560	"heat shock 70kD protein 2"				Standard	NM_021979		Approved		uc001xhk.4	P54652	OTTHUMG00000141311	ENST00000394709.1:c.606C>A	14.37:g.65008173C>A	ENSP00000378199:p.Asp202Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q15508|Q53XM3|Q9UE78	Missense_Mutation	SNP	ENST00000394709.1	37	CCDS9766.1	.	.	.	.	.	.	.	.	.	.	C	19.26	3.793970	0.70452	.	.	ENSG00000126803	ENST00000394709;ENST00000247207	T;T	0.49720	0.77;0.77	5.22	5.22	0.72569	Heat shock protein 70, conserved site (1);	0.000000	0.56097	U	0.000034	D	0.87026	0.6075	H	0.99998	5.51	0.44736	D	0.997733	D	0.89917	1.0	D	0.91635	0.999	D	0.94368	0.7593	10	0.87932	D	0	-12.6764	18.774	0.91902	0.0:1.0:0.0:0.0	.	202	P54652	HSP72_HUMAN	E	202	ENSP00000378199:D202E;ENSP00000247207:D202E	ENSP00000247207:D202E	D	+	3	2	HSPA2	64077926	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	3.963000	0.56773	2.422000	0.82143	0.563000	0.77884	GAC		0.642	HSPA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280651.1			A	65008173	C	A	65008173	3	1	598	1	0	0	0	0	1	0	0	0	7418	506	18	4	608	4	HSPA2	14	65008173	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	48	65008173	42341367	106	35807										
ADAM20	8748	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	70991146	70991146	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cctccacataaccatggtagTagcagtcatcctggatgaag	9	11	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr14:70991146T>C	ENST00000256389.3	-	2	723	c.479A>G	c.(478-480)tAc>tGc	p.Y160C	RP11-486O13.4_ENST00000556646.1_lincRNA	NM_003814.4	NP_003805.3	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20	110					binding of sperm to zona pellucida (GO:0007339)|multicellular organism reproduction (GO:0032504)|single fertilization (GO:0007338)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(2)|endometrium(2)|kidney(1)|large_intestine(3)|lung(15)|prostate(1)|skin(2)	27			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		ACCATGGTAGTAGCAGTCATC	0.498																																																0													145	102	117					14																	70991146		2203	4300	6503	SO:0001583	missense	8748			AF029899	CCDS32111.1	14q24.2	2012-04-30	2005-08-18		ENSG00000134007	ENSG00000134007		"ADAM metallopeptidase domain containing"	199	protein-coding gene	gene with protein product		603712	"a disintegrin and metalloproteinase domain 20"			9469942	Standard	NM_003814		Approved		uc001xme.3	O43506	OTTHUMG00000167548	ENST00000256389.3:c.479A>G	14.37:g.70991146T>C	ENSP00000256389:p.Tyr160Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GTZ1|Q9UKJ9	Missense_Mutation	SNP	ENST00000256389.3	37	CCDS32111.1	.	.	.	.	.	.	.	.	.	.	T	10.77	1.444114	0.25987	.	.	ENSG00000134007	ENST00000256389	T	0.07444	3.19	4.14	1.61	0.23674	Peptidase M12B, propeptide (1);	0.000000	0.35555	N	0.003123	T	0.39600	0.1084	H	0.98133	4.155	0.26202	N	0.979437	D	0.89917	1.0	D	0.79108	0.992	T	0.41179	-0.9523	10	0.87932	D	0	.	9.3882	0.38356	0.4926:0.0:0.0:0.5074	.	110	O43506	ADA20_HUMAN	C	160	ENSP00000256389:Y160C	ENSP00000256389:Y160C	Y	-	2	0	ADAM20	70060899	1.000000	0.71417	0.998000	0.56505	0.115000	0.19883	1.990000	0.40717	0.202000	0.20498	-0.336000	0.08194	TAC		0.498	ADAM20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395004.2			C	70991146	T	C	70991146	3	2	598	1	0	0	0	0	1	0	0	0	242	1638	57	3	1855	3	ADAM20	14	70991146	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	5982973	70991146	36358394	107	35808										
NPC2	10577	broad.mit.edu;bcgsc.ca	37	chr14	74959964	74959964	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ccaggagcaggaatgtagctGccaggaaacgcatcgcggat	14	10	0	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr14:74959964G>A	ENST00000555619.1	-	1	251	c.14C>T	c.(13-15)gCa>gTa	p.A5V	NPC2_ENST00000238633.2_Missense_Mutation_p.A5V|ISCA2_ENST00000556816.1_5'Flank|ISCA2_ENST00000554924.1_5'Flank|NPC2_ENST00000557510.1_Missense_Mutation_p.A5V|ISCA2_ENST00000298818.8_5'Flank|NPC2_ENST00000434013.2_Missense_Mutation_p.A5V|NPC2_ENST00000541064.1_Missense_Mutation_p.A5V	NM_006432.3	NP_006423.1	P61916	NPC2_HUMAN	Niemann-Pick disease, type C2	5					cholesterol efflux (GO:0033344)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|cholesterol transport (GO:0030301)|glycolipid transport (GO:0046836)|intracellular cholesterol transport (GO:0032367)|intracellular sterol transport (GO:0032366)|phospholipid transport (GO:0015914)|regulation of isoprenoid metabolic process (GO:0019747)|response to virus (GO:0009615)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|lysosome (GO:0005764)	cholesterol binding (GO:0015485)|enzyme binding (GO:0019899)			breast(1)|endometrium(2)|large_intestine(1)|lung(1)|upper_aerodigestive_tract(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.00149)		GAATGTAGCTGCCAGGAAACG	0.672																																					Pancreas(93;260 1497 8575 30964 48133)											0													32	36	35					14																	74959964		2201	4300	6501	SO:0001583	missense	10577			X67698	CCDS32121.1	14q24.3	2009-09-12				ENSG00000119655			14537	protein-coding gene	gene with protein product	"epididymal protein 1"	601015				8418812, 11125141	Standard	NM_006432		Approved	HE1, NP-C2, EDDM1	uc001xpy.3	P61916		ENST00000555619.1:c.14C>T	14.37:g.74959964G>A	ENSP00000451112:p.Ala5Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DQV7|Q15668|Q29413	Missense_Mutation	SNP	ENST00000555619.1	37	CCDS32121.1	.	.	.	.	.	.	.	.	.	.	G	6.444	0.449993	0.12223	.	.	ENSG00000119655	ENST00000434013;ENST00000541064;ENST00000555619;ENST00000238633;ENST00000553490;ENST00000557510;ENST00000555592	D;D;D;D;D;D;D	0.89123	-2.45;-2.35;-2.37;-2.38;-2.47;-2.4;-2.35	4.54	-2.02	0.07388	.	1.274000	0.04901	N	0.451378	T	0.75657	0.3879	N	0.19112	0.55	0.09310	N	1	B;B	0.09022	0.002;0.002	B;B	0.06405	0.001;0.002	T	0.58532	-0.7620	10	0.15499	T	0.54	-0.5237	1.0393	0.01556	0.1654:0.2592:0.2807:0.2947	.	5;5	B4DQV7;P61916	.;NPC2_HUMAN	V	5	ENSP00000412103:A5V;ENSP00000442488:A5V;ENSP00000451112:A5V;ENSP00000238633:A5V;ENSP00000451180:A5V;ENSP00000451206:A5V;ENSP00000450887:A5V	ENSP00000238633:A5V	A	-	2	0	NPC2	74029717	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	0.135000	0.15952	-0.374000	0.07967	-0.274000	0.10170	GCA		0.672	NPC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412346.1	NM_006432		A	74959964	G	A	74959964	3	1	598	1	0	0	0	0	1	0	0	0	10579	1319	46	2	461	2	NPC2	14	74959964	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	3968818	74959964	32389576	108	35809										
C14orf174	161394	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	77844646	77844646	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ccagaggagatgcaaagaaaGgcaactgaggagaaagggac	15	6	0	5			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr14:77844646G>A	ENST00000216471.4	+	1	1171	c.885G>A	c.(883-885)aaG>aaA	p.K295K	TMED8_ENST00000216468.7_5'Flank|SAMD15_ENST00000533095.2_Intron	NM_001010860.1	NP_001010860.1	Q9P1V8	SAM15_HUMAN	sterile alpha motif domain containing 15	295										breast(2)|endometrium(3)|kidney(2)|large_intestine(4)|lung(10)|pancreas(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	28						TGCAAAGAAAGGCAACTGAGG	0.493																																																0													81	83	82					14																	77844646		2203	4300	6503	SO:0001819	synonymous_variant	161394			AK093282	CCDS32126.1	14q24.3	2013-01-10	2010-10-20	2010-10-20	ENSG00000100583	ENSG00000100583		"Sterile alpha motif (SAM) domain containing"	18631	protein-coding gene	gene with protein product			"family with sequence similarity 15, member A", "chromosome 14 open reading frame 174"	FAM15A, C14orf174			Standard	XM_006720069		Approved	FLJ35963	uc001xtq.1	Q9P1V8		ENST00000216471.4:c.885G>A	14.37:g.77844646G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3P3	Silent	SNP	ENST00000216471.4	37	CCDS32126.1																																																																																				0.493	SAMD15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394587.2	NM_001010860		A	77844646	G	A	77844646	2	1	598	1	0	0	0	0	0	0	0	1	1761	991	35	2		2	C14orf174	14	77844646	Silent	SNP	G	TCGA-GL-7773-01A-11D-2136-08	2884682	77844646	29504894	109	35810										
NRXN3	9369	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	79423648	79423648	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	caacgagtggcacaccgttcGggtggtgcggagaggaaaaa	16	8	0	1	rs367857290		TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr14:79423648G>A	ENST00000554719.1	+	8	1711	c.1220G>A	c.(1219-1221)cGg>cAg	p.R407Q	NRXN3_ENST00000335750.5_Missense_Mutation_p.R407Q	NM_004796.4	NP_004787.2	Q9HDB5	NRX3B_HUMAN	neurexin 3	177					adult behavior (GO:0030534)|angiogenesis (GO:0001525)|learning (GO:0007612)|neuron cell-cell adhesion (GO:0007158)|neurotransmitter secretion (GO:0007269)|positive regulation of synapse assembly (GO:0051965)|positive regulation of synapse maturation (GO:0090129)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|vocalization behavior (GO:0071625)	integral component of membrane (GO:0016021)	cell adhesion molecule binding (GO:0050839)|neuroligin family protein binding (GO:0097109)	p.R407P(1)		NS(1)|breast(4)|central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(23)|lung(40)|ovary(3)|pancreas(2)|prostate(5)|skin(7)|upper_aerodigestive_tract(9)|urinary_tract(1)	104		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		CACACCGTTCGGGTGGTGCGG	0.473																																																1	Substitution - Missense(1)	lung(1)						G	GLN/ARG	1,4405	2.1+/-5.4	0,1,2202	276	241	253		1220	3.8	1	14		253	0,8600		0,0,4300	no	missense	NRXN3	NM_004796.4	43	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	probably-damaging	407/1062	79423648	1,13005	2203	4300	6503	SO:0001583	missense	9369			AB018286	CCDS9870.1, CCDS9871.1, CCDS45145.1, CCDS61515.1	14q31	2010-01-19				ENSG00000021645			8010	protein-coding gene	gene with protein product		600567	"chromosome 14 open reading frame 60"	C14orf60		11944992, 12379233	Standard	NM_004796		Approved	KIAA0743	uc001xun.4	Q9HDB5		ENST00000554719.1:c.1220G>A	14.37:g.79423648G>A	ENSP00000451648:p.Arg407Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKW8|A8MPU5|B3KPM7|Q6NUR0|Q8IUD8	Missense_Mutation	SNP	ENST00000554719.1	37	CCDS9870.1	.	.	.	.	.	.	.	.	.	.	G	26.8	4.774869	0.90108	2.27E-4	0.0	ENSG00000021645	ENST00000330071;ENST00000332068;ENST00000554719;ENST00000335750	T;T	0.77877	-1.13;-1.13	5.64	3.82	0.43975	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (2);Laminin G, subdomain 2 (1);	0.206569	0.42821	N	0.000657	D	0.86772	0.6013	.	.	.	0.54753	D	0.999982	D;D	0.89917	1.0;0.974	D;B	0.87578	0.998;0.406	D	0.86484	0.1793	8	.	.	.	.	12.5919	0.56447	0.135:0.0:0.865:0.0	.	780;407	Q9Y4C0;Q9Y4C0-3	NRX3A_HUMAN;.	Q	780;769;407;407	ENSP00000451648:R407Q;ENSP00000338349:R407Q	.	R	+	2	0	NRXN3	78493401	1.000000	0.71417	0.985000	0.45067	0.985000	0.73830	4.901000	0.63259	0.860000	0.35481	0.650000	0.86243	CGG		0.473	NRXN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413787.1	NM_001105250		A	79423648	G	A	79423648	3	1	598	1	0	0	0	0	1	0	0	0	10674	1116	39	1	1242	1	NRXN3	14	79423648	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	1579002	79423648	27925892	110	35811										
C14orf49	161176	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	95903278	95903278	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	agttcctcaggagctgggagAaatcttcatggctcccttct	10	11	4	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr14:95903278A>G	ENST00000334258.5	-	14	2431	c.2417T>C	c.(2416-2418)tTc>tCc	p.F806S	SYNE3_ENST00000554873.1_Missense_Mutation_p.F563S|SYNE3_ENST00000557275.1_Missense_Mutation_p.F801S	NM_152592.3	NP_689805.3	Q6ZMZ3	SYNE3_HUMAN	spectrin repeat containing, nuclear envelope family member 3	806					cytoskeletal anchoring at nuclear membrane (GO:0090286)|cytoskeleton organization (GO:0007010)|establishment of protein localization to membrane (GO:0090150)|regulation of cell shape (GO:0008360)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nuclear envelope (GO:0005635)|nuclear outer membrane (GO:0005640)|SUN-KASH complex (GO:0034993)	actin filament binding (GO:0051015)			breast(1)|endometrium(2)|lung(25)	28						GAGCTGGGAGAAATCTTCATG	0.517																																																0													100	96	97					14																	95903278		2203	4300	6503	SO:0001583	missense	161176			AK098471	CCDS9935.1	14q32.13	2012-05-31	2012-05-31	2012-05-31	ENSG00000176438	ENSG00000176438			19861	protein-coding gene	gene with protein product		610861	"chromosome 14 open reading frame 49"	C14orf49			Standard	NM_152592		Approved	FLJ25605, NET53, Nesprin-3, Nesp3	uc001yei.4	Q6ZMZ3	OTTHUMG00000171632	ENST00000334258.5:c.2417T>C	14.37:g.95903278A>G	ENSP00000334308:p.Phe806Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8H3|Q86SX5|Q8N7G8	Missense_Mutation	SNP	ENST00000334258.5	37	CCDS9935.1	.	.	.	.	.	.	.	.	.	.	A	12.57	1.978684	0.34942	.	.	ENSG00000176438	ENST00000334258;ENST00000554873;ENST00000557275	T;T;T	0.15372	3.48;2.43;3.5	5.13	-6.79	0.01715	.	1.951040	0.02897	N	0.134895	T	0.13157	0.0319	M	0.62723	1.935	0.09310	N	1	B;B	0.22211	0.066;0.04	B;B	0.17979	0.02;0.01	T	0.23226	-1.0194	10	0.23891	T	0.37	-0.2886	0.1537	0.00096	0.2263:0.2228:0.217:0.3339	.	801;806	Q6ZMZ3-2;Q6ZMZ3	.;SYNE3_HUMAN	S	806;563;801	ENSP00000334308:F806S;ENSP00000452154:F563S;ENSP00000450562:F801S	ENSP00000334308:F806S	F	-	2	0	C14orf49	94973031	0.011000	0.17503	0.000000	0.03702	0.134000	0.20937	0.178000	0.16820	-1.516000	0.01782	0.459000	0.35465	TTC		0.517	SYNE3-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000420529.2	NM_152592		G	95903278	A	G	95903278	3	3	598	1	0	0	0	0	1	0	0	0	1778	246	9	3	526	3	C14orf49	14	95903278	Missense_Mutation	SNP	A	TCGA-GL-7773-01A-11D-2136-08	16479630	95903278	11446262	111	35812										
BEGAIN	57596	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	101012903	101012903	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cgcagctcgatctccaggtaGtggcgcgtggagtcgaactc	14	12	1	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr14:101012903G>A	ENST00000355173.2	-	3	182	c.111C>T	c.(109-111)caC>caT	p.H37H	BEGAIN_ENST00000556751.1_5'UTR|BEGAIN_ENST00000443071.2_Silent_p.H37H|BEGAIN_ENST00000554747.1_5'UTR	NM_020836.3	NP_065887.1	Q9BUH8	BEGIN_HUMAN	brain-enriched guanylate kinase-associated	37						cytoplasm (GO:0005737)|dendrite (GO:0030425)|membrane (GO:0016020)|neuronal cell body (GO:0043025)				cervix(1)|endometrium(4)|large_intestine(2)|lung(3)|prostate(1)|skin(2)|stomach(1)	14		Melanoma(154;0.212)				TCTCCAGGTAGTGGCGCGTGG	0.692																																					NSCLC(159;1889 2010 9965 27479 40101)											0													74	69	71					14																	101012903		2203	4300	6503	SO:0001819	synonymous_variant	57596			BC002607	CCDS9962.1	14q32.2	2012-12-07	2012-12-07			ENSG00000183092			24163	protein-coding gene	gene with protein product			"brain-enriched guanylate kinase-associated homolog (rat)"			10819331	Standard	NM_020836		Approved	KIAA1446	uc010txa.2	Q9BUH8		ENST00000355173.2:c.111C>T	14.37:g.101012903G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NPU3|Q9P282	Silent	SNP	ENST00000355173.2	37	CCDS9962.1																																																																																				0.692	BEGAIN-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000414329.1	NM_020836		A	101012903	G	A	101012903	2	1	598	1	0	0	0	0	0	0	0	1	1397	1020	36	2		2	BEGAIN	14	101012903	Silent	SNP	G	TCGA-GL-7773-01A-11D-2136-08	5109625	101012903	6336637	112	35813										
AHNAK2	113146	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	105408067	105408067	+	Frame_Shift_Del	DEL	T	T	-													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ctgcctttgggcctttcaggTccagcttggggcccttgacg							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr14:105408067delT	ENST00000333244.5	-	7	13840	c.13721delA	c.(13720-13722)gacfs	p.D4574fs	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4574						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			GCCTTTCAGGTCCAGCTTGGG	0.627																																																0													124	134	131					14																	105408067		1916	4122	6038	SO:0001589	frameshift_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.13721delA	14.37:g.105408067delT	ENSP00000353114:p.Asp4574fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Frame_Shift_Del	DEL	ENST00000333244.5	37	CCDS45177.1																																																																																				0.627	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		-	105408067	T	-	105408067	7	5	598	1	0	1	0	1	0	0	0	0	415	1667	58	0	3670	0	AHNAK2	14	105408067	Frame_Shift_Del	DEL	T	TCGA-GL-7773-01A-11D-2136-08	4395164	105408067	1941473	113	35814										
HERC2	8924	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	28431846	28431846	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tgagaccatggattttacaaTcgattcctgagctcctgcac	8	11	0	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr15:28431846T>A	ENST00000261609.7	-	56	8810	c.8702A>T	c.(8701-8703)gAt>gTt	p.D2901V		NM_004667.5	NP_004658.3			HECT and RLD domain containing E3 ubiquitin protein ligase 2											NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(3)|cervix(3)|endometrium(20)|kidney(11)|large_intestine(33)|lung(95)|ovary(7)|prostate(8)|skin(7)|upper_aerodigestive_tract(8)|urinary_tract(4)	204		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)		GATTTTACAATCGATTCCTGA	0.423																																																0													84	74	77					15																	28431846		2203	4300	6503	SO:0001583	missense	8924			AF071172	CCDS10021.1	15q13	2012-02-23	2012-02-23		ENSG00000128731	ENSG00000128731			4868	protein-coding gene	gene with protein product		605837	"hect domain and RLD 2"			9949213	Standard	NM_004667		Approved	jdf2, p528, D15F37S1	uc001zbj.4	O95714	OTTHUMG00000129251	ENST00000261609.7:c.8702A>T	15.37:g.28431846T>A	ENSP00000261609:p.Asp2901Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000261609.7	37	CCDS10021.1	.	.	.	.	.	.	.	.	.	.	T	22.6	4.315805	0.81469	.	.	ENSG00000128731	ENST00000261609	T	0.70164	-0.46	5.0	5.0	0.66597	Anaphase-promoting complex, subunit 10/DOC domain (1);Galactose-binding domain-like (1);	0.000000	0.85682	D	0.000000	T	0.81721	0.4882	M	0.77103	2.36	0.80722	D	1	D	0.76494	0.999	D	0.87578	0.998	D	0.84597	0.0670	10	0.87932	D	0	.	15.0231	0.71647	0.0:0.0:0.0:1.0	.	2901	O95714	HERC2_HUMAN	V	2901	ENSP00000261609:D2901V	ENSP00000261609:D2901V	D	-	2	0	HERC2	26105441	1.000000	0.71417	0.496000	0.27539	0.859000	0.49053	7.997000	0.88414	2.000000	0.58554	0.528000	0.53228	GAT		0.423	HERC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251358.2	NM_004667		A	28431846	T	A	28431846	3	1	598	1	0	0	0	0	1	0	0	0	7065	1435	50	5	5954	5	HERC2	15	28431846	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08		28431846	74099546	114	35815										
ZNF770	54989	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	35274327	35274327	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	acagattgacaagtctttctTattcactgaattatcaatgc	5	8	4	3			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr15:35274327T>C	ENST00000356321.4	-	3	1653	c.1309A>G	c.(1309-1311)Aag>Gag	p.K437E		NM_014106.3	NP_054825.2	Q6IQ21	ZN770_HUMAN	zinc finger protein 770	437					regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(7)|lung(11)|ovary(1)	29		Lung NSC(122;4.59e-10)|all_lung(180;8.78e-09)		all cancers(64;1.97e-18)|GBM - Glioblastoma multiforme(113;2.11e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0643)		AAGTCTTTCTTATTCACTGAA	0.348																																																0													82	84	83					15																	35274327		2201	4297	6498	SO:0001583	missense	54989			BC071603	CCDS10042.1	15q14	2013-01-08			ENSG00000198146	ENSG00000198146		"Zinc fingers, C2H2-type"	26061	protein-coding gene	gene with protein product							Standard	NM_014106		Approved	FLJ20582, PRO1914	uc001ziw.3	Q6IQ21	OTTHUMG00000129689	ENST00000356321.4:c.1309A>G	15.37:g.35274327T>C	ENSP00000348673:p.Lys437Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZMZ6|Q9NWV2	Missense_Mutation	SNP	ENST00000356321.4	37	CCDS10042.1	.	.	.	.	.	.	.	.	.	.	T	4.829	0.154043	0.09185	.	.	ENSG00000198146	ENST00000356321	T	0.09073	3.02	5.49	5.49	0.81192	.	0.394233	0.25414	N	0.030860	T	0.07052	0.0179	N	0.14661	0.345	0.22996	N	0.998451	B	0.23937	0.094	B	0.22386	0.039	T	0.31194	-0.9952	10	0.87932	D	0	-3.5887	15.7623	0.78096	0.0:0.0:0.0:1.0	.	437	Q6IQ21	ZN770_HUMAN	E	437	ENSP00000348673:K437E	ENSP00000348673:K437E	K	-	1	0	ZNF770	33061619	1.000000	0.71417	0.997000	0.53966	0.123000	0.20343	3.570000	0.53834	2.311000	0.77944	0.533000	0.62120	AAG		0.348	ZNF770-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251896.2	NM_014106		C	35274327	T	C	35274327	3	2	598	1	0	0	0	0	1	0	0	0	18155	1763	61	3	770	3	ZNF770	15	35274327	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	6842481	35274327	67257065	115	35816										
BAHD1	22893	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	40758294	40758294	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tttgccgccatgtctatgacTtccgccacgggcgcatcctt	9	15	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr15:40758294T>C	ENST00000416165.1	+	7	2379	c.2308T>C	c.(2308-2310)Ttc>Ctc	p.F770L	BAHD1_ENST00000561234.1_Missense_Mutation_p.F769L|RP11-64K12.8_ENST00000559730.1_RNA|BAHD1_ENST00000560846.1_Missense_Mutation_p.F767L	NM_014952.3	NP_055767.3	Q8TBE0	BAHD1_HUMAN	bromo adjacent homology domain containing 1	770	BAH. {ECO:0000255|PROSITE- ProRule:PRU00370}.				heterochromatin assembly (GO:0031507)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	chromatin silencing complex (GO:0005677)|chromosome (GO:0005694)	chromatin binding (GO:0003682)			NS(1)|endometrium(6)|kidney(3)|large_intestine(3)|lung(10)|pancreas(1)|prostate(2)|skin(1)|urinary_tract(1)	28		all_cancers(109;8.28e-19)|all_epithelial(112;2.64e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.46e-06)|BRCA - Breast invasive adenocarcinoma(123;0.08)		TGTCTATGACTTCCGCCACGG	0.632																																																0													98	101	100					15																	40758294		2203	4300	6503	SO:0001583	missense	22893			AL833923	CCDS10058.1, CCDS73705.1	15q14	2005-11-10			ENSG00000140320	ENSG00000140320			29153	protein-coding gene	gene with protein product		613880				10231032	Standard	XM_005254229		Approved	KIAA0945	uc001zlu.2	Q8TBE0	OTTHUMG00000129982	ENST00000416165.1:c.2308T>C	15.37:g.40758294T>C	ENSP00000396976:p.Phe770Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NDF7|Q9Y2F4	Missense_Mutation	SNP	ENST00000416165.1	37	CCDS10058.1	.	.	.	.	.	.	.	.	.	.	T	29.4	5.000543	0.93227	.	.	ENSG00000140320	ENST00000416165	D	0.85339	-1.97	5.6	5.6	0.85130	Bromo adjacent homology (BAH) domain (3);	0.000000	0.85682	D	0.000000	D	0.91965	0.7455	M	0.76328	2.33	0.80722	D	1	D;D;D	0.89917	0.996;1.0;1.0	D;D;D	0.87578	0.917;0.998;0.997	D	0.92808	0.6262	10	0.72032	D	0.01	-16.7549	15.7888	0.78332	0.0:0.0:0.0:1.0	.	767;770;769	Q8TBE0-3;Q8TBE0;Q8TBE0-2	.;BAHD1_HUMAN;.	L	770	ENSP00000396976:F770L	ENSP00000396976:F770L	F	+	1	0	BAHD1	38545586	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	8.040000	0.89188	2.144000	0.66660	0.460000	0.39030	TTC		0.632	BAHD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252248.1	NM_014952		C	40758294	T	C	40758294	3	2	598	1	0	0	0	0	1	0	0	0	1297	1609	56	3	2330	3	BAHD1	15	40758294	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	5483967	40758294	61773098	116	35817										
DMXL2	23312	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	51790750	51790750	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ttttagcgagaatatttaccTgagcaactcttatctctgct	6	9	2	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr15:51790750T>G	ENST00000251076.5	-	18	4958	c.4671A>C	c.(4669-4671)tcA>tcC	p.S1557S	RP11-707P17.1_ENST00000561007.1_RNA|DMXL2_ENST00000449909.3_Intron|DMXL2_ENST00000543779.2_Splice_Site_p.S1557S	NM_001174116.1|NM_015263.3	NP_001167587.1|NP_056078.2	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	1557						cell junction (GO:0030054)|extracellular space (GO:0005615)|membrane (GO:0016020)|synaptic vesicle (GO:0008021)	Rab GTPase binding (GO:0017137)			breast(4)|central_nervous_system(1)|cervix(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(26)|liver(1)|lung(28)|ovary(7)|prostate(7)|skin(4)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	101				all cancers(107;0.00494)		AATATTTACCTGAGCAACTCT	0.368																																																0													47	47	47					15																	51790750		2194	4293	6487	SO:0001630	splice_region_variant	23312			AB020663	CCDS10141.1, CCDS53945.1, CCDS53946.1	15q21.2	2013-01-10			ENSG00000104093	ENSG00000104093		"WD repeat domain containing"	2938	protein-coding gene	gene with protein product	"rabconnectin 3"	612186					Standard	NM_001174116		Approved	RC3, KIAA0856	uc010ufy.2	Q8TDJ6	OTTHUMG00000131749	ENST00000251076.5:c.4672+1A>C	15.37:g.51790750T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RTR3|B7ZMH3|F5GWF1|O94938	Silent	SNP	ENST00000251076.5	37	CCDS10141.1																																																																																				0.368	DMXL2-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000254671.2	NM_015263	Silent	G	51790750	T	G	51790750	5	3	598	1	0	0	0	0	0	0	1	0	4597	1594	55	5	4546	5	DMXL2	15	51790750	Splice_Site	SNP	T	TCGA-GL-7773-01A-11D-2136-08	11032456	51790750	50740642	117	35818										
MYO5C	55930	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	52498142	52498142	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gcaattcttattctgctgtgGactattatgcttcatgaatt	7	7	3	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr15:52498142G>T	ENST00000261839.7	-	37	4569	c.4408C>A	c.(4408-4410)Cca>Aca	p.P1470T	RP11-430B1.2_ENST00000560518.1_lincRNA	NM_018728.3	NP_061198.2	Q9NQX4	MYO5C_HUMAN	myosin VC	1470	Dilute. {ECO:0000255|PROSITE- ProRule:PRU00503}.					extracellular vesicular exosome (GO:0070062)|myosin complex (GO:0016459)	ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(8)|kidney(7)|large_intestine(15)|lung(12)|ovary(7)|prostate(3)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	66				all cancers(107;0.0137)		TTCTGCTGTGGACTATTATGC	0.269																																																0													57	49	52					15																	52498142		1789	4055	5844	SO:0001583	missense	55930			AF272390	CCDS42036.1	15q21	2011-09-27				ENSG00000128833		"Myosins / Myosin superfamily : Class V"	7604	protein-coding gene	gene with protein product	"myosin 5C"	610022				11870218	Standard	NM_018728		Approved	MGC74969	uc010bff.3	Q9NQX4		ENST00000261839.7:c.4408C>A	15.37:g.52498142G>T	ENSP00000261839:p.Pro1470Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P1W8	Missense_Mutation	SNP	ENST00000261839.7	37	CCDS42036.1	.	.	.	.	.	.	.	.	.	.	G	17.87	3.494477	0.64186	.	.	ENSG00000128833	ENST00000261839	T	0.16897	2.31	5.21	4.27	0.50696	Dilute (1);	0.061993	0.64402	D	0.000004	T	0.32010	0.0815	M	0.72118	2.19	0.80722	D	1	D	0.56035	0.974	P	0.52957	0.714	T	0.09228	-1.0684	10	0.33940	T	0.23	.	15.7715	0.78173	0.0:0.1365:0.8635:0.0	.	1470	Q9NQX4	MYO5C_HUMAN	T	1470	ENSP00000261839:P1470T	ENSP00000261839:P1470T	P	-	1	0	MYO5C	50285434	1.000000	0.71417	0.959000	0.39883	0.903000	0.53119	3.298000	0.51818	1.376000	0.46267	0.555000	0.69702	CCA		0.269	MYO5C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419562.1	NM_018728		T	52498142	G	T	52498142	3	4	598	1	0	0	0	0	1	0	0	0	10087	1174	41	4	840	4	MYO5C	15	52498142	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	707392	52498142	50033250	118	35819										
C15orf60	283677	hgsc.bcm.edu	37	chr15	73843452	73843452	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cccagggcaactgaaagtcaAgggaaggattctgcaaagag	13	8	2	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr15:73843452A>G	ENST00000331090.6	+	4	535	c.507A>G	c.(505-507)caA>caG	p.Q169Q	C15orf60_ENST00000560581.1_Silent_p.Q141Q	NM_001042367.1	NP_001035826.1	Q7Z4M0	RE114_HUMAN		169					DNA recombination (GO:0006310)|meiotic nuclear division (GO:0007126)					endometrium(1)|kidney(2)|large_intestine(4)|lung(7)|pancreas(1)|prostate(2)	17						CTGAAAGTCAAGGGAAGGATT	0.512																																																0													43	44	44					15																	73843452		1952	4165	6117	SO:0001819	synonymous_variant	283677																														ENST00000331090.6:c.507A>G	15.37:g.73843452A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000331090.6	37	CCDS45296.1																																																																																				0.512	C15orf60-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419069.1			G	73843452	A	G	73843452	2	3	598	1	0	0	0	0	0	0	0	1	1810	69	3	3		3	C15orf60	15	73843452	Silent	SNP	A	TCGA-GL-7773-01A-11D-2136-08	21345310	73843452	28687940	119	35820										
PML	5371	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr15	74327953	74327953	+	Intron	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	catcctgcccagctgcaaagGggcatcagcccaccccaccg	9	19	1	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr15:74327953G>A	ENST00000268058.3	+	7	1806				PML_ENST00000435786.2_3'UTR|PML_ENST00000354026.6_Silent_p.R669R|PML_ENST00000359928.4_Intron|PML_ENST00000436891.3_3'UTR|PML_ENST00000569965.1_Intron|PML_ENST00000395132.2_Intron|PML_ENST00000395135.3_Intron|PML_ENST00000563500.1_3'UTR|PML_ENST00000564428.1_Intron|PML_ENST00000268059.6_Silent_p.R717R|PML_ENST00000565898.1_Intron	NM_033238.2	NP_150241.2	P29590	PML_HUMAN	promyelocytic leukemia						activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic process (GO:0006915)|branching involved in mammary gland duct morphogenesis (GO:0060444)|cell cycle arrest (GO:0007050)|cell fate commitment (GO:0045165)|cellular response to interleukin-4 (GO:0071353)|cellular senescence (GO:0090398)|circadian regulation of gene expression (GO:0032922)|common-partner SMAD protein phosphorylation (GO:0007182)|cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|endoplasmic reticulum calcium ion homeostasis (GO:0032469)|entrainment of circadian clock by photoperiod (GO:0043153)|extrinsic apoptotic signaling pathway (GO:0097191)|innate immune response (GO:0045087)|interferon-gamma-mediated signaling pathway (GO:0060333)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress (GO:0070059)|intrinsic apoptotic signaling pathway in response to oxidative stress (GO:0008631)|maintenance of protein location in nucleus (GO:0051457)|myeloid cell differentiation (GO:0030099)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of mitotic cell cycle (GO:0045930)|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000059)|negative regulation of telomerase activity (GO:0051974)|negative regulation of telomere maintenance via telomerase (GO:0032211)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of translation in response to oxidative stress (GO:0032938)|negative regulation of viral release from host cell (GO:1902187)|PML body organization (GO:0030578)|positive regulation of apoptotic process involved in mammary gland involution (GO:0060058)|positive regulation of defense response to virus by host (GO:0002230)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of histone deacetylation (GO:0031065)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein complex assembly (GO:0006461)|protein stabilization (GO:0050821)|protein targeting (GO:0006605)|regulation of calcium ion transport into cytosol (GO:0010522)|regulation of circadian rhythm (GO:0042752)|regulation of double-strand break repair (GO:2000779)|regulation of MHC class I biosynthetic process (GO:0045343)|regulation of protein phosphorylation (GO:0001932)|regulation of transcription, DNA-templated (GO:0006355)|response to cytokine (GO:0034097)|response to gamma radiation (GO:0010332)|response to hypoxia (GO:0001666)|response to UV (GO:0009411)|retinoic acid receptor signaling pathway (GO:0048384)|SMAD protein import into nucleus (GO:0007184)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome (GO:0005768)|extrinsic component of endoplasmic reticulum membrane (GO:0042406)|nuclear matrix (GO:0016363)|nuclear membrane (GO:0031965)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)	cobalt ion binding (GO:0050897)|DNA binding (GO:0003677)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|SUMO binding (GO:0032183)|transcription coactivator activity (GO:0003713)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(2)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(6)|lung(8)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	31						AGCTGCAAAGGGGCATCAGCC	0.622			T	"RARA, PAX5"	"APL, ALL"																																		Dom	yes		15	15q22	5371	promyelocytic leukemia		L	0													64	63	64					15																	74327953		2198	4297	6495	SO:0001627	intron_variant	5371			AB208950	CCDS10255.1, CCDS10256.1, CCDS10257.1, CCDS10258.1, CCDS45297.1, CCDS45298.1, CCDS45299.1, CCDS45300.1, CCDS58386.1	15q24.1	2011-04-21			ENSG00000140464	ENSG00000140464		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	9113	protein-coding gene	gene with protein product		102578					Standard	NM_033244		Approved	MYL, TRIM19, RNF71	uc002awv.3	P29590	OTTHUMG00000137607	ENST00000268058.3:c.1710+1082G>A	15.37:g.74327953G>A		Somatic		WXS	Illumina HiSeq	Phase_I	E9PBR7|P29591|P29592|P29593|Q00755|Q15959|Q59FP9|Q8WUA0|Q96S41|Q9BPW2|Q9BWP7|Q9BZX6|Q9BZX7|Q9BZX8|Q9BZX9|Q9BZY0|Q9BZY2|Q9BZY3	Silent	SNP	ENST00000268058.3	37	CCDS10255.1																																																																																				0.622	PML-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269021.3	NM_002675		A	74327953	G	A	74327953	1	1	598	0	1	0	0	0	0	0	0	0	12142	1223	43	2		2	PML	15	74327953	Intron	SNP	G	TCGA-GL-7773-01A-11D-2136-08	484501	74327953	28203439	120	35821										
AXIN1	8312	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	338194	338194	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	acggcctcgtcctctcgaacCtcctcaaacaccaccccaca	4	21	2	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr16:338194C>A	ENST00000262320.3	-	11	2888	c.2517G>T	c.(2515-2517)gaG>gaT	p.E839D	AXIN1_ENST00000354866.3_Missense_Mutation_p.E803D	NM_003502.3	NP_003493.1	O15169	AXIN1_HUMAN	axin 1	839	DIX. {ECO:0000255|PROSITE- ProRule:PRU00069}.				activation of JUN kinase activity (GO:0007257)|activation of protein kinase activity (GO:0032147)|apoptotic process (GO:0006915)|axial mesoderm formation (GO:0048320)|canonical Wnt signaling pathway (GO:0060070)|canonical Wnt signaling pathway involved in neural plate anterior/posterior pattern formation (GO:0060823)|cell death (GO:0008219)|cellular protein complex assembly (GO:0043623)|cellular response to organic cyclic compound (GO:0071407)|cytoplasmic microtubule organization (GO:0031122)|determination of left/right symmetry (GO:0007368)|dorsal/ventral axis specification (GO:0009950)|embryonic eye morphogenesis (GO:0048048)|embryonic skeletal joint morphogenesis (GO:0060272)|forebrain anterior/posterior pattern specification (GO:0021797)|genetic imprinting (GO:0071514)|in utero embryonic development (GO:0001701)|muscle cell development (GO:0055001)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of protein metabolic process (GO:0051248)|negative regulation of transcription elongation from RNA polymerase II promoter (GO:0034244)|negative regulation of Wnt signaling pathway (GO:0030178)|nucleocytoplasmic transport (GO:0006913)|olfactory placode formation (GO:0030910)|optic placode formation (GO:0001743)|positive regulation of GTPase activity (GO:0043547)|positive regulation of JNK cascade (GO:0046330)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|positive regulation of ubiquitin-protein transferase activity (GO:0051443)|post-anal tail morphogenesis (GO:0036342)|protein catabolic process (GO:0030163)|protein homooligomerization (GO:0051260)|protein polyubiquitination (GO:0000209)|regulation of catenin import into nucleus (GO:0035412)|sensory perception of sound (GO:0007605)|termination of G-protein coupled receptor signaling pathway (GO:0038032)|Wnt signaling pathway involved in somitogenesis (GO:0090244)|Wnt-activated signaling pathway involved in forebrain neuron fate commitment (GO:0021881)	beta-catenin destruction complex (GO:0030877)|cell cortex (GO:0005938)|cell periphery (GO:0071944)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytoplasmic microtubule (GO:0005881)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|lateral plasma membrane (GO:0016328)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|postsynaptic density (GO:0014069)	armadillo repeat domain binding (GO:0070016)|beta-catenin binding (GO:0008013)|enzyme binding (GO:0019899)|GTPase activator activity (GO:0005096)|I-SMAD binding (GO:0070411)|identical protein binding (GO:0042802)|protein complex scaffold (GO:0032947)|protein homodimerization activity (GO:0042803)|protein kinase binding (GO:0019901)|signal transducer activity (GO:0004871)|SMAD binding (GO:0046332)|ubiquitin protein ligase binding (GO:0031625)			biliary_tract(27)|breast(4)|central_nervous_system(6)|cervix(1)|endometrium(5)|kidney(4)|large_intestine(20)|liver(81)|lung(5)|ovary(2)|prostate(3)|salivary_gland(7)|skin(5)|stomach(4)|thyroid(41)|upper_aerodigestive_tract(4)|urinary_tract(2)	221		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				CCTCTCGAACCTCCTCAAACA	0.587																																																0													233	174	194					16																	338194		2203	4300	6503	SO:0001583	missense	8312			AF009674	CCDS10405.1, CCDS10406.1	16p13.3	2012-04-17			ENSG00000103126	ENSG00000103126		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	903	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 49"	603816				9230313	Standard	NM_003502		Approved	PPP1R49	uc002cgp.2	O15169	OTTHUMG00000064930	ENST00000262320.3:c.2517G>T	16.37:g.338194C>A	ENSP00000262320:p.Glu839Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q4TT26|Q4TT27|Q86YA7|Q8WVW6|Q96S28	Missense_Mutation	SNP	ENST00000262320.3	37	CCDS10405.1	.	.	.	.	.	.	.	.	.	.	c	14.73	2.621324	0.46736	.	.	ENSG00000103126	ENST00000262320;ENST00000354866	T;T	0.61274	0.12;0.12	4.62	-0.702	0.11265	DIX (3);	0.000000	0.85682	D	0.000000	T	0.73528	0.3598	M	0.89534	3.04	0.50171	D	0.999859	D;D	0.89917	0.999;1.0	D;D	0.91635	0.998;0.999	T	0.70432	-0.4873	10	0.72032	D	0.01	-11.9016	5.4595	0.16610	0.1225:0.5288:0.0:0.3487	.	803;839	O15169-2;O15169	.;AXIN1_HUMAN	D	839;803	ENSP00000262320:E839D;ENSP00000346935:E803D	ENSP00000262320:E839D	E	-	3	2	AXIN1	278195	0.998000	0.40836	0.424000	0.26647	0.122000	0.20287	0.667000	0.25112	-0.105000	0.12132	-0.224000	0.12420	GAG		0.587	AXIN1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000139441.3			A	338194	C	A	338194	3	1	598	1	0	0	0	0	1	0	0	0	1236	680	24	4	75	4	AXIN1	16	338194	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08		338194	90016559	121	35822										
GLYR1	84656	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	4864623	4864623	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cgggggttcttcccagacggGccccctcctggatgaacaaa	12	14	1	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr16:4864623G>C	ENST00000321919.9	-	11	1008	c.932C>G	c.(931-933)gCc>gGc	p.A311G	GLYR1_ENST00000591451.1_Missense_Mutation_p.A305G|GLYR1_ENST00000436648.5_Missense_Mutation_p.A230G|GLYR1_ENST00000381983.3_Missense_Mutation_p.A294G	NM_032569.3	NP_115958	Q49A26	GLYR1_HUMAN	glyoxylate reductase 1 homolog (Arabidopsis)	311					pentose-phosphate shunt (GO:0006098)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)	DNA binding (GO:0003677)|methylated histone binding (GO:0035064)|NAD binding (GO:0051287)|phosphogluconate dehydrogenase (decarboxylating) activity (GO:0004616)			endometrium(1)|kidney(1)|large_intestine(7)|lung(6)|prostate(2)|skin(1)|urinary_tract(1)	19						TCCCAGACGGGCCCCCTCCTG	0.577																																																0													42	41	41					16																	4864623		2197	4300	6497	SO:0001583	missense	84656			AF244907	CCDS10524.1	16p13.3	2010-02-17			ENSG00000140632	ENSG00000140632			24434	protein-coding gene	gene with protein product	"nuclear protein 60kDa"	610660				16352664	Standard	NM_032569		Approved	BM045, HIBDL, NP60, N-PAC	uc002cxx.4	Q49A26	OTTHUMG00000129530	ENST00000321919.9:c.932C>G	16.37:g.4864623G>C	ENSP00000322716:p.Ala311Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DL47|C9JJ40|C9JJ60|Q5U632|Q6P1Q2|Q6V3W7|Q9BTI1|Q9BXK2	Missense_Mutation	SNP	ENST00000321919.9	37	CCDS10524.1	.	.	.	.	.	.	.	.	.	.	G	32	5.124490	0.94429	.	.	ENSG00000140632	ENST00000321919;ENST00000381983;ENST00000436648	T;T;T	0.73789	-0.49;-0.48;-0.78	5.33	5.33	0.75918	6-phosphogluconate dehydrogenase, NADP-binding (1);NAD(P)-binding domain (1);	0.000000	0.85682	D	0.000000	D	0.86887	0.6041	M	0.79926	2.475	0.80722	D	1	B;P;B;D	0.58620	0.262;0.512;0.173;0.983	B;P;B;D	0.79784	0.418;0.548;0.341;0.993	D	0.86708	0.1934	10	0.46703	T	0.11	-16.0047	18.1572	0.89696	0.0:0.0:1.0:0.0	.	230;305;294;311	Q49A26-5;Q49A26-3;Q49A26-2;Q49A26	.;.;.;GLYR1_HUMAN	G	311;294;230	ENSP00000322716:A311G;ENSP00000371413:A294G;ENSP00000390276:A230G	ENSP00000322716:A311G	A	-	2	0	GLYR1	4804624	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.422000	0.97458	2.654000	0.90174	0.561000	0.74099	GCC		0.577	GLYR1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251717.2	NM_032569		C	4864623	G	C	4864623	3	2	598	1	0	0	0	0	1	0	0	0	6490	1203	42	4	753	4	GLYR1	16	4864623	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	4526429	4864623	85490130	122	35823										
NTAN1	123803	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	15133833	15133833	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	atttgaaactcactggtcctCctgctaaagttcgcgcagca	8	12	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr16:15133833C>G	ENST00000287706.3	-	8	724	c.632G>C	c.(631-633)gGa>gCa	p.G211A	PDXDC1_ENST00000535621.2_Intron	NM_001270766.1|NM_173474.3	NP_001257695.1|NP_775745.1	Q96AB6	NTAN1_HUMAN	N-terminal asparagine amidase	211					adult locomotory behavior (GO:0008344)|memory (GO:0007613)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	protein-N-terminal asparagine amidohydrolase activity (GO:0008418)			endometrium(1)|large_intestine(4)|lung(3)	8						CACTGGTCCTCCTGCTAAAGT	0.433																																																0													112	122	119					16																	15133833		2197	4300	6497	SO:0001583	missense	123803			AF092440	CCDS10558.1, CCDS73832.1	16p13	2008-02-05			ENSG00000157045	ENSG00000157045			29909	protein-coding gene	gene with protein product		615367				8910481	Standard	NM_173474		Approved		uc002ddd.4	Q96AB6	OTTHUMG00000129849	ENST00000287706.3:c.632G>C	16.37:g.15133833C>G	ENSP00000287706:p.Gly211Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z4Z0	Missense_Mutation	SNP	ENST00000287706.3	37	CCDS10558.1	.	.	.	.	.	.	.	.	.	.	C	22.9	4.344058	0.82022	.	.	ENSG00000157045	ENST00000287706	T	0.29655	1.56	5.59	5.59	0.84812	.	0.000000	0.85682	D	0.000000	T	0.62417	0.2426	M	0.85041	2.73	0.58432	D	0.999999	D	0.89917	1.0	D	0.91635	0.999	T	0.67369	-0.5688	10	0.72032	D	0.01	-20.0269	18.5814	0.91172	0.0:1.0:0.0:0.0	.	211	Q96AB6	NTAN1_HUMAN	A	211	ENSP00000287706:G211A	ENSP00000287706:G211A	G	-	2	0	NTAN1	15041334	1.000000	0.71417	0.987000	0.45799	0.810000	0.45777	5.601000	0.67606	2.630000	0.89119	0.650000	0.86243	GGA		0.433	NTAN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252089.1	NM_173474		G	15133833	C	G	15133833	3	3	598	1	0	0	0	0	1	0	0	0	10702	855	30	4	312	4	NTAN1	16	15133833	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	10269210	15133833	75220920	123	35824										
SH2B1	25970	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	28880661	28880661	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gagagtctacccagccaggaCctgctgcttggacccagcga	12	14	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr16:28880661C>A	ENST00000322610.8	+	7	1705	c.1266C>A	c.(1264-1266)gaC>gaA	p.D422E	SH2B1_ENST00000337120.5_Missense_Mutation_p.D422E|SH2B1_ENST00000538342.1_Missense_Mutation_p.D86E|SH2B1_ENST00000395532.4_Missense_Mutation_p.D422E|SH2B1_ENST00000359285.5_Missense_Mutation_p.D422E|SH2B1_ENST00000563674.1_Intron|SH2B1_ENST00000545570.1_Missense_Mutation_p.D112E			Q9NRF2	SH2B1_HUMAN	SH2B adaptor protein 1	422	Interaction with JAK2 (low-affinity binding; independent of JAK2 phosphorylation). {ECO:0000250}.				blood coagulation (GO:0007596)|cellular component movement (GO:0006928)|intracellular signal transduction (GO:0035556)|lamellipodium assembly (GO:0030032)|positive regulation of mitosis (GO:0045840)|regulation of DNA biosynthetic process (GO:2000278)	cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)	signal transducer activity (GO:0004871)			endometrium(2)|kidney(1)|large_intestine(2)|lung(12)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	25						CCAGCCAGGACCTGCTGCTTG	0.632																																																0													50	48	48					16																	28880661		2197	4300	6497	SO:0001583	missense	25970			AK055104	CCDS32424.1, CCDS53996.1, CCDS53997.1	16p11.2	2013-02-14						"Pleckstrin homology (PH) domain containing", "SH2 domain containing"	30417	protein-coding gene	gene with protein product	"SH2-B homolog"	608937				11827956, 10594240	Standard	NM_001145812		Approved	FLJ30542, SH2B	uc002drl.3	Q9NRF2		ENST00000322610.8:c.1266C>A	16.37:g.28880661C>A	ENSP00000321221:p.Asp422Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2R7|Q96FK3|Q96SX3|Q9NRF1|Q9NRF3|Q9P2P7|Q9Y3Y3	Missense_Mutation	SNP	ENST00000322610.8	37	CCDS53996.1	.	.	.	.	.	.	.	.	.	.	C	10.69	1.420802	0.25639	.	.	ENSG00000178188	ENST00000322610;ENST00000545570;ENST00000359285;ENST00000538342;ENST00000395532;ENST00000337120	T;T;T;T;T;T	0.42131	0.98;1.71;1.01;1.6;1.0;1.0	5.17	-9.53	0.00575	.	0.393219	0.23983	N	0.042660	T	0.11836	0.0288	N	0.03608	-0.345	0.22112	N	0.999357	B;B;B;B;B	0.06786	0.0;0.0;0.0;0.001;0.0	B;B;B;B;B	0.06405	0.0;0.001;0.001;0.002;0.001	T	0.09207	-1.0685	10	0.27082	T	0.32	-14.1712	6.2599	0.20893	0.0853:0.4877:0.1844:0.2426	.	86;112;422;422;422	B4DLN5;F5GXU7;Q9NRF2-2;Q9NRF2-3;Q9NRF2	.;.;.;.;SH2B1_HUMAN	E	422;112;422;86;422;422	ENSP00000321221:D422E;ENSP00000440354:D112E;ENSP00000352232:D422E;ENSP00000438784:D86E;ENSP00000378903:D422E;ENSP00000337163:D422E	ENSP00000321221:D422E	D	+	3	2	SH2B1	28788162	0.011000	0.17503	0.821000	0.32701	0.889000	0.51656	-2.120000	0.01323	-1.453000	0.01928	-0.373000	0.07131	GAC		0.632	SH2B1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000432666.1	NM_015503		A	28880661	C	A	28880661	3	1	598	1	0	0	0	0	1	0	0	0	14240	506	18	4	1280	4	SH2B1	16	28880661	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	13746828	28880661	61474092	124	35825										
RABEP2	79874	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	28925762	28925762	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	aggaggagatggaggcgctgTcatcgcagttgtgagcgaag	18	6	1	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr16:28925762T>A	ENST00000358201.4	-	5	1277	c.689A>T	c.(688-690)gAc>gTc	p.D230V	RABEP2_ENST00000357573.6_Missense_Mutation_p.D230V|RABEP2_ENST00000544477.1_Missense_Mutation_p.D159V|RABEP2_ENST00000561803.1_5'Flank	NM_024816.2	NP_079092.2	Q9H5N1	RABE2_HUMAN	rabaptin, RAB GTPase binding effector protein 2	230					endocytosis (GO:0006897)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|endosome (GO:0005768)|nucleus (GO:0005634)	GTPase activator activity (GO:0005096)			breast(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(6)|ovary(1)|skin(1)	16						GGAGGCGCTGTCATCGCAGTT	0.682																																					Pancreas(66;639 1284 10093 31061 49099)											0													24	30	28					16																	28925762		2041	4205	6246	SO:0001583	missense	79874			AK026935	CCDS42140.1	16p11.2	2014-09-11			ENSG00000177548	ENSG00000177548			24817	protein-coding gene	gene with protein product		611869				12477932	Standard	NM_024816		Approved	FRA, FLJ23282	uc002drq.3	Q9H5N1	OTTHUMG00000176593	ENST00000358201.4:c.689A>T	16.37:g.28925762T>A	ENSP00000350934:p.Asp230Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000358201.4	37	CCDS42140.1	.	.	.	.	.	.	.	.	.	.	T	19.65	3.867523	0.72065	.	.	ENSG00000177548	ENST00000358201;ENST00000357573;ENST00000544477	T;T;T	0.70516	-0.33;-0.49;-0.27	5.13	5.13	0.70059	.	0.000000	0.85682	D	0.000000	T	0.74906	0.3778	L	0.29908	0.895	0.53005	D	0.999965	D;D;D;D	0.89917	0.999;1.0;0.998;0.999	D;D;D;D	0.87578	0.996;0.998;0.994;0.996	T	0.77653	-0.2507	10	0.87932	D	0	-35.9958	11.3244	0.49440	0.0:0.0:0.0:1.0	.	159;230;230;230	B4DHR0;Q9H5N1-2;Q49AT6;Q9H5N1	.;.;.;RABE2_HUMAN	V	230;230;159	ENSP00000350934:D230V;ENSP00000350186:D230V;ENSP00000442798:D159V	ENSP00000350186:D230V	D	-	2	0	RABEP2	28833263	1.000000	0.71417	0.997000	0.53966	0.848000	0.48234	5.481000	0.66826	1.933000	0.56026	0.379000	0.24179	GAC		0.682	RABEP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000432691.1	NM_024816		A	28925762	T	A	28925762	3	1	598	1	0	0	0	0	1	0	0	0	12975	1667	58	5	1056	5	RABEP2	16	28925762	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	45101	28925762	61428991	125	35826										
RNF40	9810	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	30775599	30775599	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tgaggaggtggagctggagcTgcaaggccgaatggagttct	18	6	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr16:30775599T>C	ENST00000324685.6	+	5	977	c.542T>C	c.(541-543)cTg>cCg	p.L181P	RNF40_ENST00000563683.1_Missense_Mutation_p.L181P|RNF40_ENST00000357890.5_Missense_Mutation_p.L181P|C16orf93_ENST00000541260.1_5'Flank|C16orf93_ENST00000545825.1_5'Flank|RNF40_ENST00000402121.3_Intron|C16orf93_ENST00000543610.1_5'Flank	NM_001207033.1|NM_014771.3	NP_001193962.1|NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40, E3 ubiquitin protein ligase	181					histone H2B ubiquitination (GO:0033523)|histone monoubiquitination (GO:0010390)|ubiquitin-dependent protein catabolic process (GO:0006511)	HULC complex (GO:0033503)|membrane (GO:0016020)|neuron projection (GO:0043005)|nucleus (GO:0005634)|ubiquitin ligase complex (GO:0000151)	ligase activity (GO:0016874)|protein homodimerization activity (GO:0042803)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			central_nervous_system(2)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(6)|lung(10)|prostate(2)	30			Colorectal(24;0.198)			GAGCTGGAGCTGCAAGGCCGA	0.632																																																0													69	56	60					16																	30775599		2197	4300	6497	SO:0001583	missense	9810			AB014561	CCDS10691.1, CCDS55994.1	16p11.2-p11.1	2012-02-23	2012-02-23		ENSG00000103549	ENSG00000103549		"RING-type (C3HC4) zinc fingers"	16867	protein-coding gene	gene with protein product	"BRE1 E3 ubiquitin ligase homolog B (S. cerevisiae)"	607700	"ring finger protein 40"			9734811, 10944455, 12121982	Standard	NM_014771		Approved	KIAA0661, RBP95, BRE1B, STARING	uc002dzq.3	O75150	OTTHUMG00000132394	ENST00000324685.6:c.542T>C	16.37:g.30775599T>C	ENSP00000325677:p.Leu181Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q6AHZ6|Q6N005|Q7L3T6|Q8N615|Q96T18|Q9BSV9|Q9HC82	Missense_Mutation	SNP	ENST00000324685.6	37	CCDS10691.1	.	.	.	.	.	.	.	.	.	.	T	17.57	3.423101	0.62733	.	.	ENSG00000103549	ENST00000324685;ENST00000357890;ENST00000452273	T;T	0.60920	0.76;0.15	6.07	6.07	0.98685	.	0.000000	0.64402	D	0.000001	T	0.78349	0.4269	M	0.82323	2.585	0.80722	D	1	D;B;B	0.76494	0.999;0.09;0.024	D;B;B	0.85130	0.997;0.06;0.038	T	0.81540	-0.0886	10	0.87932	D	0	-13.9353	15.6114	0.76721	0.0:0.0:0.0:1.0	.	181;181;181	O75150-4;A8K6K1;O75150	.;.;BRE1B_HUMAN	P	181;181;30	ENSP00000325677:L181P;ENSP00000350563:L181P	ENSP00000325677:L181P	L	+	2	0	RNF40	30683100	1.000000	0.71417	1.000000	0.80357	0.822000	0.46500	6.959000	0.76031	2.326000	0.78906	0.533000	0.62120	CTG		0.632	RNF40-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255524.2	NM_014771		C	30775599	T	C	30775599	3	2	598	1	0	0	0	0	1	0	0	0	13506	1580	55	3	556	3	RNF40	16	30775599	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	1849837	30775599	59579154	126	35827										
ITGAM	3684	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	31340556	31340556	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tttctcccttcagccatgggGtctccactaaatatctcaac	5	14	4	0	rs199790913		TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr16:31340556G>T	ENST00000287497.8	+	24	2875	c.2800G>T	c.(2800-2802)Gtc>Ttc	p.V934F	ITGAM_ENST00000544665.3_Missense_Mutation_p.V935F			P11215	ITAM_HUMAN	integrin, alpha M (complement component 3 receptor 3 subunit)	934					activated T cell proliferation (GO:0050798)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cellular extravasation (GO:0045123)|ectodermal cell differentiation (GO:0010668)|extracellular matrix organization (GO:0030198)|innate immune response (GO:0045087)|integrin-mediated signaling pathway (GO:0007229)|leukocyte cell-cell adhesion (GO:0007159)|leukocyte migration (GO:0050900)|leukocyte migration involved in inflammatory response (GO:0002523)|microglia development (GO:0014005)|neutrophil chemotaxis (GO:0030593)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor signaling pathway (GO:0002224)	cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integrin complex (GO:0008305)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	glycoprotein binding (GO:0001948)|heparin binding (GO:0008201)|metal ion binding (GO:0046872)			endometrium(7)|kidney(1)|large_intestine(10)|lung(32)|ovary(1)|prostate(4)|skin(1)	56						CAGCCATGGGGTCTCCACTAA	0.542																																																0								G	PHE/VAL,PHE/VAL	0,3888		0,0,1944	71	70	70		2803,2800	-6.6	0	16		70	1,8303		0,1,4151	yes	missense,missense	ITGAM	NM_001145808.1,NM_000632.3	50,50	0,1,6095	TT,TG,GG		0.012,0.0,0.0082	benign,benign	935/1154,934/1153	31340556	1,12191	1944	4152	6096	SO:0001583	missense	3684			J03925	CCDS45470.1, CCDS54004.1	16p11.2	2010-03-23	2006-02-10			ENSG00000169896		"CD molecules", "Complement system", "Integrins"	6149	protein-coding gene	gene with protein product		120980	"integrin, alpha M (complement component receptor 3, alpha; also known as CD11b (p170), macrophage antigen alpha polypeptide)"	CR3A, CD11B			Standard	NM_001145808		Approved	MAC-1, CD11b	uc002ebr.3	P11215		ENST00000287497.8:c.2800G>T	16.37:g.31340556G>T	ENSP00000287497:p.Val934Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VAK0|Q4VAK1|Q4VAK2	Missense_Mutation	SNP	ENST00000287497.8	37	CCDS45470.1	.	.	.	.	.	.	.	.	.	.	G	14.20	2.464821	0.43839	0.0	1.2E-4	ENSG00000169896	ENST00000544665;ENST00000287497	T;T	0.44083	0.93;0.93	4.87	-6.59	0.01830	Integrin alpha-2 (1);	.	.	.	.	T	0.31513	0.0799	L	0.44542	1.39	0.09310	N	1	B;B	0.34181	0.44;0.44	B;B	0.41619	0.361;0.361	T	0.41574	-0.9501	9	0.59425	D	0.04	.	1.9836	0.03432	0.3427:0.3574:0.1793:0.1206	.	934;934	Q4VAK1;P11215	.;ITAM_HUMAN	F	935;934	ENSP00000441691:V935F;ENSP00000287497:V934F	ENSP00000287497:V934F	V	+	1	0	ITGAM	31248057	0.000000	0.05858	0.000000	0.03702	0.074000	0.17049	-0.727000	0.04931	-1.560000	0.01686	-0.903000	0.02851	GTC		0.542	ITGAM-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000432816.1	NM_000632		T	31340556	G	T	31340556	3	4	598	1	0	0	0	0	1	0	0	0	7894	1261	44	4	2897	4	ITGAM	16	31340556	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	564957	31340556	59014197	127	35828										
PHKB	5257	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	47684490	47684490	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	attaaacaatattggaaaatGcatggacgtccacttttcct	6	8	0	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr16:47684490G>T	ENST00000323584.5	+	19	1857	c.1833G>T	c.(1831-1833)atG>atT	p.M611I	PHKB_ENST00000299167.8_Missense_Mutation_p.M611I|PHKB_ENST00000455779.1_Missense_Mutation_p.M604I|PHKB_ENST00000566044.1_Missense_Mutation_p.M604I	NM_000293.2	NP_000284.1	Q93100	KPBB_HUMAN	phosphorylase kinase, beta	611					carbohydrate metabolic process (GO:0005975)|generation of precursor metabolites and energy (GO:0006091)|glucose metabolic process (GO:0006006)|glycogen catabolic process (GO:0005980)|glycogen metabolic process (GO:0005977)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|phosphorylase kinase complex (GO:0005964)|plasma membrane (GO:0005886)	hydrolase activity, hydrolyzing O-glycosyl compounds (GO:0004553)|phosphorylase kinase activity (GO:0004689)			breast(2)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(10)|liver(1)|lung(18)|ovary(1)|skin(1)	41		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)				ATTGGAAAATGCATGGACGTC	0.408																																																0													137	120	126					16																	47684490		2201	4300	6501	SO:0001583	missense	5257				CCDS10729.1, CCDS42161.1	16q12-q13	2009-07-10			ENSG00000102893	ENSG00000102893	2.7.11.19		8927	protein-coding gene	gene with protein product		172490					Standard	NM_000293		Approved		uc002eev.4	Q93100	OTTHUMG00000133102	ENST00000323584.5:c.1833G>T	16.37:g.47684490G>T	ENSP00000313504:p.Met611Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N4T5	Missense_Mutation	SNP	ENST00000323584.5	37	CCDS10729.1	.	.	.	.	.	.	.	.	.	.	G	20.5	4.004653	0.74932	.	.	ENSG00000102893	ENST00000299167;ENST00000455779;ENST00000323584	D;D	0.90900	-2.75;-2.75	5.86	5.86	0.93980	Glycoside hydrolase 15-related (1);	0.036486	0.85682	D	0.000000	D	0.91432	0.7296	M	0.73598	2.24	0.80722	D	1	B;B	0.26902	0.036;0.163	B;B	0.29862	0.098;0.108	D	0.88208	0.2888	10	0.44086	T	0.13	-27.2635	20.1813	0.98205	0.0:0.0:1.0:0.0	.	611;604	Q93100;Q93100-4	KPBB_HUMAN;.	I	604;604;611	ENSP00000414345:M604I;ENSP00000313504:M611I	ENSP00000299167:M604I	M	+	3	0	PHKB	46241991	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	9.172000	0.94808	2.777000	0.95525	0.591000	0.81541	ATG		0.408	PHKB-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000430413.1			T	47684490	G	T	47684490	3	4	598	1	0	0	0	0	1	0	0	0	11852	1319	46	4	1966	4	PHKB	16	47684490	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	16343934	47684490	42670263	128	35829										
TMCO7	79613	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	68953020	68953020	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gtagcagcaacattgcagagAgcctgtgcaagcctggccca	12	12	0	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr16:68953020A>T	ENST00000261778.1	+	12	2037	c.2025A>T	c.(2023-2025)agA>agT	p.R675S		NM_024562.1	NP_078838.1	Q9C0B7	TNG6_HUMAN	transport and golgi organization 6 homolog (Drosophila)	675						integral component of membrane (GO:0016021)											CATTGCAGAGAGCCTGTGCAA	0.483																																																0													85	81	82					16																	68953020		2110	4223	6333	SO:0001583	missense	79613				CCDS45516.1	16q22.1	2012-12-13	2012-12-13	2012-12-13	ENSG00000103047	ENSG00000103047			25749	protein-coding gene	gene with protein product			"transmembrane and coiled-coil domains 7"	TMCO7		11214970	Standard	NM_024562		Approved	FLJ12688, KIAA1746	uc002ewi.4	Q9C0B7	OTTHUMG00000176743	ENST00000261778.1:c.2025A>T	16.37:g.68953020A>T	ENSP00000261778:p.Arg675Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q569F9|Q9H9K1	Missense_Mutation	SNP	ENST00000261778.1	37	CCDS45516.1	.	.	.	.	.	.	.	.	.	.	A	22.3	4.273473	0.80580	.	.	ENSG00000103047	ENST00000261778	.	.	.	5.36	5.36	0.76844	Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.65842	0.2730	M	0.72894	2.215	0.52099	D	0.999946	D	0.76494	0.999	D	0.80764	0.994	T	0.68044	-0.5513	9	0.09843	T	0.71	-14.1136	3.9662	0.09433	0.7035:0.0:0.1218:0.1747	.	675	Q9C0B7	TMCO7_HUMAN	S	675	.	ENSP00000261778:R675S	R	+	3	2	TMCO7	67510521	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	1.365000	0.34182	2.028000	0.59812	0.533000	0.62120	AGA		0.483	TANGO6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000433471.2	XM_928235.2		T	68953020	A	T	68953020	3	4	598	1	0	0	0	0	1	0	0	0	16013	301	11	5	2071	5	TMCO7	16	68953020	Missense_Mutation	SNP	A	TCGA-GL-7773-01A-11D-2136-08	21268530	68953020	21401733	129	35830										
DHX33	56919	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	5353590	5353590	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tcatgtgatccccctcgctgGatatgaacttcttgcggacc	9	13	2	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr17:5353590G>T	ENST00000225296.3	-	10	1861	c.1661C>A	c.(1660-1662)tCc>tAc	p.S554Y	DHX33_ENST00000433302.3_Missense_Mutation_p.S330Y	NM_001199699.1|NM_020162.3	NP_001186628.1|NP_064547.2	Q9H6R0	DHX33_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 33	554					positive regulation of transcription from RNA polymerase I promoter (GO:0045943)	nucleolus (GO:0005730)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|poly(A) RNA binding (GO:0044822)|rDNA binding (GO:0000182)			breast(1)|cervix(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(2)|lung(2)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	17						CCCCTCGCTGGATATGAACTT	0.542																																																0													153	154	153					17																	5353590		2203	4300	6503	SO:0001583	missense	56919			AL359945	CCDS11072.1	17p13	2003-06-13	2003-06-13	2003-06-13	ENSG00000005100	ENSG00000005100		"DEAH-boxes"	16718	protein-coding gene	gene with protein product		614405	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 33"	DDX33			Standard	NM_020162		Approved	FLJ21972, DKFZp762F2011	uc002gca.3	Q9H6R0	OTTHUMG00000102041	ENST00000225296.3:c.1661C>A	17.37:g.5353590G>T	ENSP00000225296:p.Ser554Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DHF9|Q4G149|Q5CZ73|Q9H5M9	Missense_Mutation	SNP	ENST00000225296.3	37	CCDS11072.1	.	.	.	.	.	.	.	.	.	.	G	19.38	3.816626	0.70912	.	.	ENSG00000005100	ENST00000225296;ENST00000433302	T;T	0.32272	1.46;1.46	5.69	5.69	0.88448	Helicase-associated domain (2);	0.102611	0.64402	D	0.000001	T	0.58466	0.2124	M	0.84433	2.695	0.80722	D	1	D;D	0.89917	1.0;0.998	D;D	0.79108	0.992;0.985	T	0.56408	-0.7984	10	0.10902	T	0.67	.	18.8064	0.92038	0.0:0.0:1.0:0.0	.	330;554	Q05BE5;Q9H6R0	.;DHX33_HUMAN	Y	554;330	ENSP00000225296:S554Y;ENSP00000413779:S330Y	ENSP00000225296:S554Y	S	-	2	0	DHX33	5294314	1.000000	0.71417	0.995000	0.50966	0.276000	0.26787	9.333000	0.96459	2.700000	0.92200	0.561000	0.74099	TCC		0.542	DHX33-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219826.2	NM_020162		T	5353590	G	T	5353590	3	4	598	1	0	0	0	0	1	0	0	0	4508	1174	41	4	474	4	DHX33	17	5353590	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08		5353590	75841620	130	35831										
FLII	2314	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	18150014	18150014	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cctgccagaagtacacgatgCactggaagtcctcctctggc	10	14	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr17:18150014C>T	ENST00000327031.4	-	23	3170	c.2945G>A	c.(2944-2946)tGc>tAc	p.C982Y	FLII_ENST00000545457.2_Missense_Mutation_p.C927Y|FLII_ENST00000579294.1_Missense_Mutation_p.C971Y|FLII_ENST00000578558.1_Intron|FLII_ENST00000379450.4_Missense_Mutation_p.C896Y	NM_002018.3	NP_002009.1	Q13045	FLII_HUMAN	flightless I homolog (Drosophila)	982					multicellular organismal development (GO:0007275)|muscle contraction (GO:0006936)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|microtubule organizing center (GO:0005815)|nucleus (GO:0005634)	actin binding (GO:0003779)			central_nervous_system(2)|endometrium(5)|kidney(1)|large_intestine(6)|lung(11)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	32	all_neural(463;0.228)					GTACACGATGCACTGGAAGtc	0.567																																																0													124	90	101					17																	18150014		2203	4300	6503	SO:0001583	missense	2314			U01184	CCDS11192.1, CCDS58521.1, CCDS58522.1	17p11.2	2008-07-18	2001-11-28		ENSG00000177731	ENSG00000177731			3750	protein-coding gene	gene with protein product		600362	"flightless I (Drosophila) homolog"			7825574	Standard	NM_002018		Approved	FLI, FLIL, Fli1, MGC39265	uc002gsr.2	Q13045	OTTHUMG00000059389	ENST00000327031.4:c.2945G>A	17.37:g.18150014C>T	ENSP00000324573:p.Cys982Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DIL0|F5H407|J3QLG3	Missense_Mutation	SNP	ENST00000327031.4	37	CCDS11192.1	.	.	.	.	.	.	.	.	.	.	C	18.37	3.608402	0.66558	.	.	ENSG00000177731	ENST00000327031;ENST00000545457;ENST00000379450	T;T	0.15718	2.4;2.4	5.53	5.53	0.82687	.	0.000000	0.85682	D	0.000000	T	0.44329	0.1288	M	0.74389	2.26	0.80722	D	1	B;B;D;B;P	0.64830	0.003;0.003;0.994;0.007;0.771	B;B;D;B;B	0.72625	0.007;0.007;0.978;0.035;0.424	T	0.16188	-1.0411	10	0.39692	T	0.17	-29.2534	19.4482	0.94857	0.0:1.0:0.0:0.0	.	896;896;861;982;951	E7EPM0;B4DIL0;F5H407;Q13045;B4DIX0	.;.;.;FLII_HUMAN;.	Y	982;861;896	ENSP00000324573:C982Y;ENSP00000368763:C896Y	ENSP00000324573:C982Y	C	-	2	0	FLII	18090739	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.125000	0.77193	2.601000	0.87937	0.655000	0.94253	TGC		0.567	FLII-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132032.2	NM_002018		T	18150014	C	T	18150014	3	4	598	1	0	0	0	0	1	0	0	0	5932	710	25	2	896	2	FLII	17	18150014	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	12796424	18150014	63045196	131	35832										
C17orf53	78995	hgsc.bcm.edu	37	chr17	42228328	42228328	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tctccttccctcccctcttaGcagagtgggagaagtctgga	10	13	3	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr17:42228328G>C	ENST00000319977.4	+	4	1461		c.e4-1		C17orf53_ENST00000245382.6_Intron|C17orf53_ENST00000585683.1_Splice_Site	NM_001171251.1|NM_024032.3	NP_001164722.1|NP_076937.2	Q8N3J3	CQ053_HUMAN	chromosome 17 open reading frame 53											NS(1)|breast(3)|cervix(1)|kidney(3)|large_intestine(3)|lung(8)|ovary(1)|skin(1)|urinary_tract(1)	22		Breast(137;0.0364)|Prostate(33;0.0376)		BRCA - Breast invasive adenocarcinoma(366;0.114)		TCCCCTCTTAGCAGAGTGGGA	0.458																																																0													57	46	50					17																	42228328		2203	4300	6503	SO:0001630	splice_region_variant	78995			AK021656	CCDS11477.1, CCDS59293.1	17q21.31	2012-10-11			ENSG00000125319	ENSG00000125319			28460	protein-coding gene	gene with protein product							Standard	NM_001171251		Approved	MGC3130	uc002ifi.2	Q8N3J3	OTTHUMG00000181808	ENST00000319977.4:c.1225-1G>C	17.37:g.42228328G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7A9|Q9BWM9|Q9HAI1	Splice_Site	SNP	ENST00000319977.4	37	CCDS11477.1	.	.	.	.	.	.	.	.	.	.	G	14.58	2.578088	0.45902	.	.	ENSG00000125319	ENST00000319977	.	.	.	5.94	5.94	0.96194	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	19.1347	0.93422	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	C17orf53	39583854	1.000000	0.71417	0.634000	0.29324	0.261000	0.26267	8.091000	0.89528	2.826000	0.97356	0.561000	0.74099	.		0.458	C17orf53-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000457697.1	NM_024032	Intron	C	42228328	G	C	42228328	5	2	598	1	0	0	0	0	0	0	1	0	1864	985	34	4	1238	4	C17orf53	17	42228328	Splice_Site	SNP	G	TCGA-GL-7773-01A-11D-2136-08	24078314	42228328	38966882	132	35833										
SKAP1	8631	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	46423341	46423341	+	Frame_Shift_Del	DEL	T	T	-													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gagtcccgctgtgattatcaTcagagctgtcctgtccaatg							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr17:46423341delT	ENST00000336915.6	-	4	275	c.206delA	c.(205-207)gatfs	p.D70fs	SKAP1_ENST00000584924.1_Frame_Shift_Del_p.D70fs	NM_001075099.1|NM_003726.3	NP_001068567.1|NP_003717.3	Q86WV1	SKAP1_HUMAN	src kinase associated phosphoprotein 1	70					positive regulation of signal transduction (GO:0009967)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|T cell receptor signaling pathway (GO:0050852)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	protein kinase binding (GO:0019901)|protein phosphatase binding (GO:0019903)|SH2 domain binding (GO:0042169)|SH3 domain binding (GO:0017124)|SH3/SH2 adaptor activity (GO:0005070)			large_intestine(1)|lung(10)|prostate(2)|skin(4)|urinary_tract(1)	18						GTGATTATCATCAGAGCTGTC	0.438																																																0													80	70	73					17																	46423341		2203	4300	6503	SO:0001589	frameshift_variant	8631			Y11215	CCDS32674.1	17q21.32	2013-01-10	2006-09-28	2006-09-28		ENSG00000141293		"Pleckstrin homology (PH) domain containing"	15605	protein-coding gene	gene with protein product		604969	"src family associated phosphoprotein 1"	SCAP1		9195899	Standard	NM_003726		Approved	SKAP55	uc002ini.1	Q86WV1		ENST00000336915.6:c.206delA	17.37:g.46423341delT	ENSP00000338171:p.Asp70fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTV1|O15268	Frame_Shift_Del	DEL	ENST00000336915.6	37	CCDS32674.1																																																																																				0.438	SKAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443432.1	NM_003726		-	46423341	T	-	46423341	7	5	598	1	0	1	0	1	0	0	0	0	14368	1435	50	0	909	0	SKAP1	17	46423341	Frame_Shift_Del	DEL	T	TCGA-GL-7773-01A-11D-2136-08	4195013	46423341	34771869	133	35834										
HOXB7	3217	broad.mit.edu	37	chr17	46688052	46688052	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	actcggctcgagcccatagcCggccgcgtagacgccggccg	14	17	0	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr17:46688052C>T	ENST00000239165.7	-	1	327	c.229G>A	c.(229-231)Ggc>Agc	p.G77S	HOXB7_ENST00000567101.2_Intron	NM_004502.3	NP_004493.3	P09629	HXB7_HUMAN	homeobox B7	77					anterior/posterior pattern specification (GO:0009952)|embryonic skeletal system morphogenesis (GO:0048704)|multicellular organismal development (GO:0007275)|myeloid cell differentiation (GO:0030099)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|large_intestine(2)|lung(4)|upper_aerodigestive_tract(1)	8						AGCCCATAGCCGGCCGCGTAG	0.726																																																0													6	5	5					17																	46688052		1962	3910	5872	SO:0001583	missense	3217				CCDS11532.1	17q21.32	2013-05-22	2005-12-22					"Homeoboxes / ANTP class : HOXL subclass"	5118	protein-coding gene	gene with protein product		142962	"homeo box B7"	HOX2, HOX2C		1973146, 1358459	Standard	NM_004502		Approved		uc002inv.3	P09629	OTTHUMG00000170231	ENST00000239165.7:c.229G>A	17.37:g.46688052C>T	ENSP00000239165:p.Gly77Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3N8|Q15957|Q53FN3|Q96BQ6	Missense_Mutation	SNP	ENST00000239165.7	37	CCDS11532.1	.	.	.	.	.	.	.	.	.	.	C	25.2	4.613350	0.87359	.	.	ENSG00000120087	ENST00000239165	T	0.32272	1.46	4.27	4.27	0.50696	.	0.070609	0.56097	D	0.000039	T	0.27384	0.0672	L	0.46157	1.445	0.45648	D	0.998577	B	0.31503	0.326	B	0.18561	0.022	T	0.16070	-1.0415	10	0.56958	D	0.05	.	16.4843	0.84180	0.0:1.0:0.0:0.0	.	77	P09629	HXB7_HUMAN	S	77	ENSP00000239165:G77S	ENSP00000239165:G77S	G	-	1	0	HOXB7	44043051	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.205000	0.42770	2.212000	0.71576	0.561000	0.74099	GGC		0.726	HOXB7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358097.3			T	46688052	C	T	46688052	3	4	598	1	0	0	0	0	1	0	0	0	7313	652	23	1	432	1	HOXB7	17	46688052	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	264711	46688052	34507158	134	35835										
HELZ	9931	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	65134124	65134125	+	Missense_Mutation	DNP	TG	TG	GA													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cagcacgtattctaaacactTgatcagcatatggagtcacc							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr17:65134124_65134125TG>GA	ENST00000358691.5	-	22	3041_3042	c.2875_2876CA>TC	c.(2875-2877)CAa>TCa	p.Q959S	HELZ_ENST00000580168.1_Missense_Mutation_p.Q960S	NM_014877.3	NP_055692	P42694	HELZ_HUMAN	helicase with zinc finger	959						membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(5)|endometrium(9)|kidney(3)|large_intestine(11)|liver(1)|lung(24)|ovary(1)|pancreas(1)|prostate(1)|skin(8)|upper_aerodigestive_tract(2)|urinary_tract(2)	69	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					TCTAAACACTTGATCAGCATAT	0.401																																																0																																										SO:0001583	missense	9931			D29677	CCDS42374.1	17q24.2	2013-01-18			ENSG00000198265	ENSG00000198265		"Zinc fingers, CCCH-type domain containing"	16878	protein-coding gene	gene with protein product	"down-regulated in human cancers"	606699				10471385, 12691822	Standard	NM_014877		Approved	KIAA0054, HUMORF5, DHRC	uc002jfx.4	P42694	OTTHUMG00000179555	ENST00000358691.5:c.2875_2876delinsGA	17.37:g.65134124_65134125delinsGA	ENSP00000351524:p.Gln959Ser	Somatic		WXS	Illumina HiSeq	Phase_I	I6L9H4	Missense_Mutation	DNP	ENST00000358691.5	37	CCDS42374.1																																																																																				0.401	HELZ-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000447068.1	NM_014877		GA	65134125	TG	GA	65134124	3	3	598	1	0	0	0	0	1	0	0	0	7056	1812	63	5	3000	5	HELZ	17	65134124	Missense_Mutation	DNP	TG	TCGA-GL-7773-01A-11D-2136-08	18446072	65134124	16061086	135	35836										
COG1	9382	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	71197359	71197359	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	actccccttcaaataagcacAtccactttgagtacaacatg	4	13	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr17:71197359A>G	ENST00000299886.4	+	7	1473	c.1393A>G	c.(1393-1395)Atc>Gtc	p.I465V		NM_018714.2	NP_061184.1	Q8WTW3	COG1_HUMAN	component of oligomeric golgi complex 1	465					Golgi organization (GO:0007030)|intra-Golgi vesicle-mediated transport (GO:0006891)|protein transport (GO:0015031)	Golgi apparatus (GO:0005794)|Golgi transport complex (GO:0017119)|membrane (GO:0016020)				breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(3)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	18			LUSC - Lung squamous cell carcinoma(166;0.197)			AAATAAGCACATCCACTTTGA	0.522																																																0													161	147	152					17																	71197359		2203	4300	6503	SO:0001583	missense	9382				CCDS11692.1	17q25.1	2008-05-14	2002-05-28	2002-05-31		ENSG00000166685		"Components of oligomeric golgi complex"	6545	protein-coding gene	gene with protein product		606973	"low density lipoprotein receptor defect B complementing"	LDLB		9927668	Standard	NM_018714		Approved	KIAA1381	uc002jjg.3	Q8WTW3		ENST00000299886.4:c.1393A>G	17.37:g.71197359A>G	ENSP00000299886:p.Ile465Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NPV9|Q9P2G6	Missense_Mutation	SNP	ENST00000299886.4	37	CCDS11692.1	.	.	.	.	.	.	.	.	.	.	A	6.539	0.467704	0.12402	.	.	ENSG00000166685	ENST00000438720;ENST00000299886	T;T	0.19938	2.11;2.11	5.28	-4.74	0.03249	.	0.662686	0.16490	N	0.212142	T	0.08714	0.0216	N	0.17674	0.51	0.09310	N	0.999994	B;B;B	0.06786	0.001;0.0;0.001	B;B;B	0.04013	0.001;0.001;0.001	T	0.40924	-0.9537	10	0.07990	T	0.79	-9.3358	8.8132	0.34981	0.3346:0.2123:0.4531:0.0	.	465;465;465	E9PBL8;Q8WTW3;Q4G0L8	.;COG1_HUMAN;.	V	465	ENSP00000400111:I465V;ENSP00000299886:I465V	ENSP00000299886:I465V	I	+	1	0	COG1	68708954	0.000000	0.05858	0.363000	0.25875	0.372000	0.29890	-0.711000	0.05019	-0.776000	0.04578	-0.250000	0.11733	ATC		0.522	COG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441638.1			G	71197359	A	G	71197359	3	3	598	1	0	0	0	0	1	0	0	0	3659	217	8	3	1419	3	COG1	17	71197359	Missense_Mutation	SNP	A	TCGA-GL-7773-01A-11D-2136-08	6063235	71197359	9997851	136	35837										
QRICH2	84074	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	74277019	74277019	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	gatggcactctgcacacggcCcagcagctcctcgtcctgcg	11	17	1	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr17:74277019C>A	ENST00000262765.5	-	9	3960	c.3781G>T	c.(3781-3783)Ggc>Tgc	p.G1261C		NM_032134.1	NP_115510.1	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	1261										breast(3)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(6)|lung(17)|ovary(4)|pancreas(2)|prostate(3)|skin(2)|stomach(4)	62						TGCACACGGCCCAGCAGCTCC	0.617																																																0													67	54	58					17																	74277019		2203	4300	6503	SO:0001583	missense	84074			AK058102	CCDS32741.1	17q25.1	2009-03-19			ENSG00000129646	ENSG00000129646			25326	protein-coding gene	gene with protein product							Standard	NM_032134		Approved	DKFZP434P0316	uc002jrd.1	Q9H0J4	OTTHUMG00000167578	ENST00000262765.5:c.3781G>T	17.37:g.74277019C>A	ENSP00000262765:p.Gly1261Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRE1|Q96LM3	Missense_Mutation	SNP	ENST00000262765.5	37	CCDS32741.1	.	.	.	.	.	.	.	.	.	.	C	15.35	2.808802	0.50421	.	.	ENSG00000129646	ENST00000262765;ENST00000447564;ENST00000301613	T;T	0.47528	2.99;0.84	5.1	5.1	0.69264	.	.	.	.	.	T	0.56499	0.1989	L	0.32530	0.975	0.27664	N	0.946994	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.996	T	0.50110	-0.8866	9	0.72032	D	0.01	-19.5057	10.1929	0.43037	0.0:0.8714:0.0:0.1286	.	1261;1261	B5MD94;Q9H0J4	.;QRIC2_HUMAN	C	1261;269;1261	ENSP00000262765:G1261C;ENSP00000394461:G269C	ENSP00000262765:G1261C	G	-	1	0	QRICH2	71788614	0.555000	0.26530	1.000000	0.80357	0.396000	0.30629	1.806000	0.38892	2.388000	0.81334	0.655000	0.94253	GGC		0.617	QRICH2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395140.1	NM_032134		A	74277019	C	A	74277019	3	1	598	1	0	0	0	0	1	0	0	0	12893	623	22	4	1254	4	QRICH2	17	74277019	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	3079660	74277019	6918191	137	35838										
KIAA0802	23255	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr18	8813134	8813135	+	Frame_Shift_Ins	INS	-	-	T													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	atccatcacagcgagaagaaINSctggaaccgggagaaggtgg							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr18:8813134_8813135insT	ENST00000306329.11	+	10	3719_3720	c.3719_3720insT	c.(3718-3723)aactggfs	p.W1241fs	SOGA2_ENST00000517570.1_Frame_Shift_Ins_p.W881fs|SOGA2_ENST00000306285.7_Frame_Shift_Ins_p.W275fs|SOGA2_ENST00000518815.1_Frame_Shift_Ins_p.W275fs|SOGA2_ENST00000359865.3_Frame_Shift_Ins_p.W922fs|SOGA2_ENST00000400050.3_Frame_Shift_Ins_p.W881fs																							AGCGAGAAGAACTGGAACCGGG	0.574																																																0																																										SO:0001589	frameshift_variant	23255																														Exception_encountered	18.37:g.8813134_8813135insT	ENSP00000305027:p.Trp1241fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000306329.11	37																																																																																					0.574	SOGA2-015	PUTATIVE	basic|appris_candidate_longest|exp_conf	protein_coding	protein_coding	OTTHUMT00000444141.1			T	8813135	-	T	8813134	7	5	598	1	0	1	1	0	0	0	0	0	8201	43	2	0	2800	0	KIAA0802	18	8813134	Frame_Shift_Ins	INS	-	TCGA-GL-7773-01A-11D-2136-08		8813134	69264114	138	35839	276	2								
KIAA0802	23255	hgsc.bcm.edu;bcgsc.ca	37	chr18	8813135	8813135	+	Silent	SNP	C	C	T													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	atccatcacagcgagaagaaCtggaaccgggagaaggtgga							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr18:8813135C>T	ENST00000306329.11	+	10	3720	c.3720C>T	c.(3718-3720)aaC>aaT	p.N1240N	SOGA2_ENST00000517570.1_Silent_p.N880N|SOGA2_ENST00000306285.7_Silent_p.N274N|SOGA2_ENST00000518815.1_Silent_p.N274N|SOGA2_ENST00000359865.3_Silent_p.N921N|SOGA2_ENST00000400050.3_Silent_p.N880N																							GCGAGAAGAACTGGAACCGGG	0.572																																																0													45	44	44					18																	8813135		2203	4300	6503	SO:0001819	synonymous_variant	23255																														ENST00000306329.11:c.3720C>T	18.37:g.8813135C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000306329.11	37																																																																																					0.572	SOGA2-015	PUTATIVE	basic|appris_candidate_longest|exp_conf	protein_coding	protein_coding	OTTHUMT00000444141.1			T	8813135	C	T	8813135	2	4	598	1	0	0	0	0	0	0	0	1	8201	564	20	2		2	KIAA0802	18	8813135	Silent	SNP	C	TCGA-GL-7773-01A-11D-2136-08	1	8813135	69264113	139	35840	276	2								
ZNF358	140467	hgsc.bcm.edu;broad.mit.edu	37	chr19	7585576	7585576	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	caaacccctccccggctccaGatccacccccagccctactc	4	24	0	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr19:7585576G>C	ENST00000597229.1	+	2	1618	c.1448G>C	c.(1447-1449)aGa>aCa	p.R483T	ZNF358_ENST00000394341.2_Missense_Mutation_p.R483T|MCOLN1_ENST00000264079.6_5'Flank|CTD-2207O23.11_ENST00000602083.1_RNA	NM_018083.4	NP_060553.4	Q9NW07	ZN358_HUMAN	zinc finger protein 358	483					embryonic forelimb morphogenesis (GO:0035115)|neural tube development (GO:0021915)|regulation of transcription, DNA-templated (GO:0006355)|stem cell maintenance (GO:0019827)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|kidney(1)|lung(1)|skin(2)	8						cccggctccagatccaccccc	0.672																																																0													41	41	41					19																	7585576		2203	4300	6503	SO:0001583	missense	140467			AK001252	CCDS32890.2	19p13.2	2013-01-08			ENSG00000198816	ENSG00000198816		"Zinc fingers, C2H2-type"	16838	protein-coding gene	gene with protein product							Standard	NM_018083		Approved	FLJ10390, ZFEND	uc002mgn.2	Q9NW07		ENST00000597229.1:c.1448G>C	19.37:g.7585576G>C	ENSP00000472305:p.Arg483Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BTM7	Missense_Mutation	SNP	ENST00000597229.1	37	CCDS32890.2	.	.	.	.	.	.	.	.	.	.	G	10.44	1.350618	0.24512	.	.	ENSG00000198816	ENST00000361576;ENST00000394341	T	0.42131	0.98	2.86	-2.54	0.06307	.	.	.	.	.	T	0.18676	0.0448	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.16600	-1.0397	9	0.56958	D	0.05	.	3.8533	0.08965	0.2783:0.3607:0.361:0.0	.	483	Q9NW07	ZN358_HUMAN	T	483	ENSP00000377873:R483T	ENSP00000354703:R483T	R	+	2	0	ZNF358	7491576	0.000000	0.05858	0.013000	0.15412	0.546000	0.35178	-0.441000	0.06879	-0.411000	0.07530	0.462000	0.41574	AGA		0.672	ZNF358-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316747.1			C	7585576	G	C	7585576	3	2	598	1	0	0	0	0	1	0	0	0	17879	942	33	4	1450	4	ZNF358	19	7585576	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08		7585576	51543407	140	35841										
FARSA	2193	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	13039366	13039366	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	caccccatctccaggaagatCtgtcggaactgggagcggac	12	13	2	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr19:13039366C>A	ENST00000314606.4	-	6	726	c.708G>T	c.(706-708)caG>caT	p.Q236H	CTC-425F1.2_ENST00000592636.1_RNA|FARSA_ENST00000588025.1_Missense_Mutation_p.Q276H|FARSA_ENST00000423140.2_Missense_Mutation_p.Q205H	NM_004461.2	NP_004452.1	Q9Y285	SYFA_HUMAN	phenylalanyl-tRNA synthetase, alpha subunit	236					gene expression (GO:0010467)|phenylalanyl-tRNA aminoacylation (GO:0006432)|tRNA aminoacylation for protein translation (GO:0006418)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)	ATP binding (GO:0005524)|phenylalanine-tRNA ligase activity (GO:0004826)|poly(A) RNA binding (GO:0044822)|tRNA binding (GO:0000049)			NS(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(9)|ovary(3)|upper_aerodigestive_tract(1)	20					L-Phenylalanine(DB00120)	CCAGGAAGATCTGTCGGAACT	0.652																																																0													44	43	43					19																	13039366		2203	4300	6503	SO:0001583	missense	2193			U07424	CCDS12287.1	19p13.2	2014-05-06	2007-02-23	2007-02-23	ENSG00000179115	ENSG00000179115	6.1.1.20	"Aminoacyl tRNA synthetases / Class II"	3592	protein-coding gene	gene with protein product	"phenylalanine tRNA ligase 1, alpha, cytoplasmic"	602918	"phenylalanine-tRNA synthetase-like", "phenylalanyl-tRNA synthetase-like, alpha subunit"	FARSL, FARSLA		9177188	Standard	NM_004461		Approved	CML33	uc002mvs.2	Q9Y285	OTTHUMG00000180569	ENST00000314606.4:c.708G>T	19.37:g.13039366C>A	ENSP00000320309:p.Gln236His	Somatic		WXS	Illumina HiSeq	Phase_I	B4E363|Q9NSD8|Q9Y4W8	Missense_Mutation	SNP	ENST00000314606.4	37	CCDS12287.1	.	.	.	.	.	.	.	.	.	.	C	15.24	2.775233	0.49786	.	.	ENSG00000179115	ENST00000314606;ENST00000423140	T;T	0.64085	-0.08;-0.08	4.79	3.76	0.43208	Aminoacyl-tRNA synthetase, class II (1);Phenylalanyl-tRNA synthetase (1);	0.000000	0.85682	D	0.000000	T	0.76040	0.3932	M	0.81942	2.565	0.80722	D	1	D;D;D	0.89917	1.0;0.999;0.999	D;D;D	0.74023	0.982;0.963;0.963	T	0.77335	-0.2626	10	0.87932	D	0	-16.1128	7.8931	0.29691	0.0:0.8058:0.0:0.1942	.	205;236;236	B4E363;Q6IBR2;Q9Y285	.;.;SYFA_HUMAN	H	236;205	ENSP00000320309:Q236H;ENSP00000396548:Q205H	ENSP00000320309:Q236H	Q	-	3	2	FARSA	12900366	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	2.849000	0.48286	1.217000	0.43442	0.563000	0.77884	CAG		0.652	FARSA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451935.1	NM_004461		A	13039366	C	A	13039366	3	1	598	1	0	0	0	0	1	0	0	0	5686	912	32	4	850	4	FARSA	19	13039366	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	5453790	13039366	46089617	141	35842										
CILP2	148113	hgsc.bcm.edu	37	chr19	19656391	19656391	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	acaggacgctggtgaccattAtgccccagggcagctgccgg	14	13	0	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr19:19656391A>G	ENST00000291495.5	+	8	3122	c.3037A>G	c.(3037-3039)Atg>Gtg	p.M1013V	CILP2_ENST00000586018.1_Missense_Mutation_p.M1019V	NM_153221.2	NP_694953.2	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	1013						extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)				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						GGTGACCATTATGCCCCAGGG	0.692																																																0													14	16	15					19																	19656391		2201	4298	6499	SO:0001583	missense	148113			AF542080	CCDS12405.1	19p13.11	2013-01-14				ENSG00000160161		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	24213	protein-coding gene	gene with protein product		612419				12477932	Standard	NM_153221		Approved	MGC45771	uc002nmv.4	Q8IUL8		ENST00000291495.5:c.3037A>G	19.37:g.19656391A>G	ENSP00000291495:p.Met1013Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NV88|Q8N4A6|Q8WV21	Missense_Mutation	SNP	ENST00000291495.5	37	CCDS12405.1	.	.	.	.	.	.	.	.	.	.	A	4.204	0.036578	0.08148	.	.	ENSG00000160161	ENST00000291495	T	0.08458	3.09	5.57	3.45	0.39498	.	0.845319	0.10704	N	0.643671	T	0.02767	0.0083	N	0.01576	-0.805	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.0;0.001	T	0.44877	-0.9299	10	0.09590	T	0.72	-10.9758	7.2651	0.26226	0.7759:0.1452:0.0789:0.0	.	1013;1013	B2RAJ0;Q8IUL8	.;CILP2_HUMAN	V	1013	ENSP00000291495:M1013V	ENSP00000291495:M1013V	M	+	1	0	CILP2	19517391	0.000000	0.05858	0.240000	0.24138	0.972000	0.66771	0.481000	0.22260	0.937000	0.37394	-0.501000	0.04562	ATG		0.692	CILP2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000459738.3	NM_153221		G	19656391	A	G	19656391	3	3	598	1	0	0	0	0	1	0	0	0	3432	449	16	3	3067	3	CILP2	19	19656391	Missense_Mutation	SNP	A	TCGA-GL-7773-01A-11D-2136-08	6617025	19656391	39472592	142	35843										
ZNF599	148103	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	35250173	35250173	+	Missense_Mutation	SNP	T	T	A													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tgggtaaaagcctttccacaTtctctacaaacatagggctt					rs375598988		TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr19:35250173T>A	ENST00000329285.8	-	4	1906	c.1533A>T	c.(1531-1533)gaA>gaT	p.E511D		NM_001007248.2	NP_001007249.1	Q96NL3	ZN599_HUMAN	zinc finger protein 599	511					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(3)|large_intestine(10)|lung(8)|ovary(1)|pancreas(1)|skin(1)	24	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)			CCTTTCCACATTCTCTACAAA	0.418																																																0													116	117	116					19																	35250173		2203	4300	6503	SO:0001583	missense	148103			AK055225	CCDS32991.1	19q13.13	2013-01-08				ENSG00000153896		"Zinc fingers, C2H2-type", "-"	26408	protein-coding gene	gene with protein product							Standard	NM_001007248		Approved	FLJ30663	uc010edn.1	Q96NL3		ENST00000329285.8:c.1533A>T	19.37:g.35250173T>A	ENSP00000333802:p.Glu511Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q569K0|Q5PRG1	Missense_Mutation	SNP	ENST00000329285.8	37	CCDS32991.1	.	.	.	.	.	.	.	.	.	.	T	4.110	0.018610	0.07959	.	.	ENSG00000153896	ENST00000392231;ENST00000329285;ENST00000392229	T	0.07444	3.19	2.52	1.45	0.22620	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.07143	0.0181	L	0.50993	1.605	0.58432	D	0.999999	B	0.06786	0.001	B	0.11329	0.006	T	0.24905	-1.0147	9	0.45353	T	0.12	.	2.0678	0.03606	0.2607:0.1492:0.0:0.5901	.	511	Q96NL3	ZN599_HUMAN	D	510;511;285	ENSP00000333802:E511D	ENSP00000333802:E511D	E	-	3	2	ZNF599	39942013	0.000000	0.05858	0.906000	0.35671	0.133000	0.20885	-1.206000	0.03011	0.357000	0.24183	0.482000	0.46254	GAA		0.418	ZNF599-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460648.2	XM_086046		A	35250173	T	A	35250173	3	1	598	1	0	0	0	0	1	0	0	0	18041	1490	52	5	237	5	ZNF599	19	35250173	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	15593782	35250173	23878810	143	35844	277	2								
ZNF599	148103	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	35250175	35250175	+	Nonsense_Mutation	SNP	C	C	A													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ggtaaaagcctttccacattCtctacaaacatagggcttct							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr19:35250175C>A	ENST00000329285.8	-	4	1904	c.1531G>T	c.(1531-1533)Gaa>Taa	p.E511*		NM_001007248.2	NP_001007249.1	Q96NL3	ZN599_HUMAN	zinc finger protein 599	511					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(3)|large_intestine(10)|lung(8)|ovary(1)|pancreas(1)|skin(1)	24	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)			TTTCCACATTCTCTACAAACA	0.418																																																0													115	117	116					19																	35250175		2203	4300	6503	SO:0001587	stop_gained	148103			AK055225	CCDS32991.1	19q13.13	2013-01-08				ENSG00000153896		"Zinc fingers, C2H2-type", "-"	26408	protein-coding gene	gene with protein product							Standard	NM_001007248		Approved	FLJ30663	uc010edn.1	Q96NL3		ENST00000329285.8:c.1531G>T	19.37:g.35250175C>A	ENSP00000333802:p.Glu511*	Somatic		WXS	Illumina HiSeq	Phase_I	Q569K0|Q5PRG1	Nonsense_Mutation	SNP	ENST00000329285.8	37	CCDS32991.1	.	.	.	.	.	.	.	.	.	.	C	24.6	4.544924	0.86022	.	.	ENSG00000153896	ENST00000392231;ENST00000329285;ENST00000392229	.	.	.	2.52	2.52	0.30459	.	.	.	.	.	.	.	.	.	.	.	0.19300	N	0.999974	.	.	.	.	.	.	.	.	.	.	0.52906	T	0.07	.	11.1742	0.48590	0.0:1.0:0.0:0.0	.	.	.	.	X	510;511;285	.	ENSP00000333802:E511X	E	-	1	0	ZNF599	39942015	0.000000	0.05858	0.726000	0.30738	0.087000	0.18053	0.077000	0.14738	1.711000	0.51337	0.591000	0.81541	GAA		0.418	ZNF599-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460648.2	XM_086046		A	35250175	C	A	35250175	4	1	598	1	0	0	0	0	0	1	0	0	18041	922	32	4	239	4	ZNF599	19	35250175	Nonsense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	2	35250175	23878808	144	35845	277	2								
NLRP4	147945	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	56370219	56370219	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	acaggaattgctagttgccaAttttgaaaaagcaaggagag	11	5	0	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr19:56370219A>G	ENST00000301295.6	+	3	1882	c.1460A>G	c.(1459-1461)aAt>aGt	p.N487S	NLRP4_ENST00000587891.1_Missense_Mutation_p.N412S|NLRP4_ENST00000346986.5_Missense_Mutation_p.N487S	NM_134444.4	NP_604393.2	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	487					inflammatory response (GO:0006954)|innate immune response (GO:0045087)|positive regulation of type I interferon production (GO:0032481)|regulation of type I interferon production (GO:0032479)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)			breast(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(14)|lung(3)|ovary(6)|pancreas(1)|skin(5)|stomach(1)|upper_aerodigestive_tract(8)	42		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		CTAGTTGCCAATTTTGAAAAA	0.418																																																0													134	137	136					19																	56370219		2203	4300	6503	SO:0001583	missense	147945			AF479747	CCDS12936.1	19q13.43	2009-03-27	2006-12-08	2006-12-08				"Nucleotide-binding domain and leucine rich repeat containing"	22943	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 4", "cancer/testis antigen 58"	609645	"NACHT, leucine rich repeat and PYD containing 4"	NALP4		12563287, 12019269	Standard	NM_134444		Approved	PYPAF4, FLJ32126, PAN2, RNH2, CLR19.5, CT58	uc002qmd.4	Q96MN2		ENST00000301295.6:c.1460A>G	19.37:g.56370219A>G	ENSP00000301295:p.Asn487Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q86W87|Q96AY6	Missense_Mutation	SNP	ENST00000301295.6	37	CCDS12936.1	.	.	.	.	.	.	.	.	.	.	A	5.585	0.292659	0.10567	.	.	ENSG00000160505	ENST00000301295;ENST00000346986	D;D	0.83250	-1.7;-1.7	4.24	-8.48	0.00935	.	.	.	.	.	T	0.52821	0.1758	N	0.04768	-0.165	0.09310	N	1	B;P;P	0.40515	0.005;0.719;0.597	B;B;B	0.38985	0.03;0.287;0.138	T	0.57130	-0.7864	9	0.09843	T	0.71	.	2.0751	0.03623	0.1469:0.1067:0.2674:0.479	.	487;412;487	Q96MN2-2;Q96MN2-3;Q96MN2	.;.;NALP4_HUMAN	S	487	ENSP00000301295:N487S;ENSP00000344787:N487S	ENSP00000301295:N487S	N	+	2	0	NLRP4	61062031	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.165000	0.09968	-1.965000	0.01010	-0.313000	0.08912	AAT		0.418	NLRP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457367.2	NM_134444		G	56370219	A	G	56370219	3	3	598	1	0	0	0	0	1	0	0	0	10486	101	4	3	1466	3	NLRP4	19	56370219	Missense_Mutation	SNP	A	TCGA-GL-7773-01A-11D-2136-08	21120044	56370219	2758764	145	35846										
SALL4	57167	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	50407897	50407897	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tgcttgtagagggccgcctcGtctttgggtttgacatccac	12	11	1	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr20:50407897G>C	ENST00000217086.4	-	2	1236	c.1125C>G	c.(1123-1125)gaC>gaG	p.D375E	SALL4_ENST00000483130.1_5'Flank|SALL4_ENST00000371539.3_Intron|SALL4_ENST00000395997.3_Missense_Mutation_p.D375E	NM_020436.3	NP_065169.1	Q9UJQ4	SALL4_HUMAN	spalt-like transcription factor 4	375					embryonic limb morphogenesis (GO:0030326)|inner cell mass cell proliferation (GO:0001833)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neural tube closure (GO:0001843)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|stem cell maintenance (GO:0019827)|transcription, DNA-templated (GO:0006351)|ventricular septum development (GO:0003281)	cytoplasm (GO:0005737)|heterochromatin (GO:0000792)|nucleus (GO:0005634)|protein complex (GO:0043234)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(27)|ovary(5)|prostate(2)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	63						GGGCCGCCTCGTCTTTGGGTT	0.547																																																0													78	76	77					20																	50407897		2203	4300	6503	SO:0001583	missense	57167			AK001666	CCDS13438.1	20q13.2	2014-09-17	2013-10-17		ENSG00000101115	ENSG00000101115		"Zinc fingers, C2H2-type"	15924	protein-coding gene	gene with protein product		607343	"sal (Drosophila)-like 4", "sal-like 4 (Drosophila)"				Standard	NM_020436		Approved	dJ1112F19.1, ZNF797	uc002xwh.4	Q9UJQ4	OTTHUMG00000032752	ENST00000217086.4:c.1125C>G	20.37:g.50407897G>C	ENSP00000217086:p.Asp375Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2D8|Q540H3|Q6Y8G6	Missense_Mutation	SNP	ENST00000217086.4	37	CCDS13438.1	.	.	.	.	.	.	.	.	.	.	G	4.854	0.158821	0.09236	.	.	ENSG00000101115	ENST00000217086;ENST00000395997	T;T	0.08807	3.05;3.34	5.29	-5.33	0.02713	.	0.000000	0.47852	D	0.000204	T	0.08044	0.0201	L	0.29908	0.895	0.80722	D	1	B;D	0.69078	0.028;0.997	B;D	0.76575	0.006;0.988	T	0.49781	-0.8903	10	0.02654	T	1	-53.0902	4.1442	0.10209	0.5133:0.168:0.2268:0.0919	.	375;375	A2A2D8;Q9UJQ4	.;SALL4_HUMAN	E	375	ENSP00000217086:D375E;ENSP00000379319:D375E	ENSP00000217086:D375E	D	-	3	2	SALL4	49841304	0.000000	0.05858	0.608000	0.28969	0.091000	0.18340	-1.867000	0.01646	-0.896000	0.03915	-1.581000	0.00855	GAC		0.547	SALL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079738.3			C	50407897	G	C	50407897	3	2	598	1	0	0	0	0	1	0	0	0	13826	1136	40	4	2048	4	SALL4	20	50407897	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08		50407897	12617623	146	35847										
RGL4	266747	hgsc.bcm.edu;bcgsc.ca	37	chr22	24034222	24034222	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cagatctggagctttgatgaGgaagctgctcacaaatctgc	11	9	3	3			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr22:24034222G>A	ENST00000290691.5	+	1	1175	c.5G>A	c.(4-6)aGg>aAg	p.R2K	KB-1572G7.2_ENST00000421064.1_RNA|AP000347.2_ENST00000417194.1_RNA|GUSBP11_ENST00000455485.1_RNA|RGL4_ENST00000401461.1_Intron	NM_153615.1	NP_705843.1	Q8IZJ4	RGDSR_HUMAN	ral guanine nucleotide dissociation stimulator-like 4	2					small GTPase mediated signal transduction (GO:0007264)	cytoplasmic vesicle (GO:0031410)	guanyl-nucleotide exchange factor activity (GO:0005085)			endometrium(1)|kidney(1)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)|skin(3)	15						GCTTTGATGAGGAAGCTGCTC	0.607																																																0													59	58	58					22																	24034222		2203	4300	6503	SO:0001583	missense	266747				CCDS13811.1	22q11.23	2008-02-22			ENSG00000159496	ENSG00000159496			31911	protein-coding gene	gene with protein product	"RalGDS related oncogene"	612214				9178890, 10851075	Standard	NM_153615		Approved	Rgr	uc002zxn.3	Q8IZJ4	OTTHUMG00000150711	ENST00000290691.5:c.5G>A	22.37:g.24034222G>A	ENSP00000290691:p.Arg2Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q495L8	Missense_Mutation	SNP	ENST00000290691.5	37	CCDS13811.1	.	.	.	.	.	.	.	.	.	.	g	8.750	0.921142	0.17982	.	.	ENSG00000159496	ENST00000290691;ENST00000382833;ENST00000423392	T;T	0.32023	1.47;1.47	1.77	-2.54	0.06307	.	7.772780	0.01150	U	0.006397	T	0.18215	0.0437	N	0.14661	0.345	0.09310	N	1	B;B	0.09022	0.002;0.0	B;B	0.08055	0.003;0.0	T	0.27536	-1.0071	10	0.87932	D	0	.	4.1084	0.10047	0.1754:0.4809:0.3436:0.0	.	2;2	E9PH87;Q8IZJ4	.;RGDSR_HUMAN	K	2	ENSP00000290691:R2K;ENSP00000402142:R2K	ENSP00000290691:R2K	R	+	2	0	RGL4	22364222	0.139000	0.22563	0.000000	0.03702	0.001000	0.01503	-0.102000	0.10956	-0.558000	0.06118	-0.386000	0.06593	AGG		0.607	RGL4-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000319711.1	NM_153615		A	24034222	G	A	24034222	3	1	598	1	0	0	0	0	1	0	0	0	13292	1000	35	2	7	2	RGL4	22	24034222	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08		24034222	27270344	147	35848										
UQCR10	29796	hgsc.bcm.edu	37	chr22	30163538	30163539	+	Splice_Site	DNP	GT	GT	AA													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	acgaccacatcaacgaggggGtgagggcctgtgccatccct							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr22:30163538_30163539GT>AA	ENST00000330029.6	+	1	180		c.e1+1		ZMAT5_ENST00000397781.3_5'Flank|ZMAT5_ENST00000344318.3_5'Flank|UQCR10_ENST00000401406.3_Missense_Mutation_p.V51K	NM_001003684.1|NM_013387.3	NP_001003684.1|NP_037519.2	Q9UDW1	QCR9_HUMAN	ubiquinol-cytochrome c reductase, complex III subunit X						cellular metabolic process (GO:0044237)|hydrogen ion transmembrane transport (GO:1902600)|mitochondrial electron transport, ubiquinol to cytochrome c (GO:0006122)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain complex III (GO:0005750)	ubiquinol-cytochrome-c reductase activity (GO:0008121)			breast(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)	5						CAACGAGGGGGTGAGGGCCTGT	0.599																																																0																																										SO:0001630	splice_region_variant	29796			AB028598	CCDS46680.1, CCDS46681.1	22q12.2	2011-07-04			ENSG00000184076	ENSG00000184076		"Mitochondrial respiratory chain complex / Complex III"	30863	protein-coding gene	gene with protein product	"ubiquinol-cytochrome c reductase, complex III subunit X, 7.2kDa", "complex III subunit 9"	610843				11042152	Standard	NM_013387		Approved	HSPC051, UCRC, QCR9, UCCR7.2	uc003agq.1	Q9UDW1	OTTHUMG00000151283	Exception_encountered	22.37:g.30163538_30163539delinsAA		Somatic		WXS	Illumina HiSeq	Phase_I	B5MCM5|Q9T2V6	Missense_Mutation	DNP	ENST00000330029.6	37	CCDS46680.1																																																																																				0.599	UQCR10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322081.1	NM_013387	Intron	AA	30163539	GT	AA	30163538	5	1	598	1	0	0	0	0	0	0	1	0	17028	1275	44	2	153	2	UQCR10	22	30163538	Splice_Site	DNP	GT	TCGA-GL-7773-01A-11D-2136-08	6129316	30163538	21141028	148	35849										
MICALL1	85377	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	38328888	38328888	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	tgcggcgagagtccgagctcAtctatgtgtgagtccccccg	13	13	2	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr22:38328888A>G	ENST00000215957.6	+	12	2353	c.2227A>G	c.(2227-2229)Atc>Gtc	p.I743V	MICALL1_ENST00000402631.1_3'UTR	NM_033386.3	NP_203744.1	Q8N3F8	MILK1_HUMAN	MICAL-like 1	743	Necessary and sufficient to associate with tubular recycling endosome membranes, mediate phosphatidic acid- binding and membrane tubulation.|RAB-binding domain (RBD); mediates the interaction with RAB13 and RAB35 and intramolecular interaction with the CH domain.				endocytosis (GO:0006897)|membrane tubulation (GO:0097320)|neuron projection development (GO:0031175)|protein localization to endosome (GO:0036010)|protein targeting to membrane (GO:0006612)|receptor-mediated endocytosis (GO:0006898)|retrograde transport, endosome to plasma membrane (GO:1990126)|slow endocytic recycling (GO:0032458)	extrinsic component of membrane (GO:0019898)|late endosome (GO:0005770)|recycling endosome membrane (GO:0055038)	identical protein binding (GO:0042802)|phosphatidic acid binding (GO:0070300)|Rab GTPase binding (GO:0017137)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(8)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	24	Melanoma(58;0.045)					GTCCGAGCTCATCTATGTGTG	0.582																																																0													68	63	65					22																	38328888		2203	4300	6503	SO:0001583	missense	85377			BK000466	CCDS13961.1	22q13.1	2006-11-24			ENSG00000100139	ENSG00000100139			29804	protein-coding gene	gene with protein product	"molecule interacting with Rab13"					11258795, 12110185	Standard	NM_033386		Approved	MIRAB13, KIAA1668, MICAL-L1	uc003aui.3	Q8N3F8	OTTHUMG00000150670	ENST00000215957.6:c.2227A>G	22.37:g.38328888A>G	ENSP00000215957:p.Ile743Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TI16|Q7RTP5|Q8N3N8|Q9BVL9|Q9BY92|Q9UH43|Q9UH44|Q9UH45	Missense_Mutation	SNP	ENST00000215957.6	37	CCDS13961.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	13.26|13.26	2.184944|2.184944	0.38609|0.38609	.|.	.|.	ENSG00000100139|ENSG00000100139	ENST00000454685|ENST00000215957;ENST00000402631;ENST00000424008	.|T;T;T	.|0.39406	.|1.08;1.08;1.08	5.47|5.47	4.37|4.37	0.52481|0.52481	.|Domain of unknown function DUF3585 (1);	.|0.102897	.|0.43919	.|D	.|0.000508	T|T	0.16854|0.16854	0.0405|0.0405	N|N	0.02960|0.02960	-0.455|-0.455	0.40194|0.40194	D|D	0.97743|0.97743	.|B	.|0.34329	.|0.449	.|B	.|0.34873	.|0.191	T|T	0.09796|0.09796	-1.0658|-1.0658	5|10	.|0.19147	.|T	.|0.46	.|.	6.8248|6.8248	0.23876|0.23876	0.7709:0.1531:0.076:0.0|0.7709:0.1531:0.076:0.0	.|.	.|743	.|Q8N3F8	.|MILK1_HUMAN	R|V	318|743;170;57	.|ENSP00000215957:I743V;ENSP00000384608:I170V;ENSP00000416766:I57V	.|ENSP00000215957:I743V	H|I	+|+	2|1	0|0	MICALL1|MICALL1	36658834|36658834	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.993000|0.993000	0.82548|0.82548	5.031000|5.031000	0.64134|0.64134	2.070000|2.070000	0.61991|0.61991	0.482000|0.482000	0.46254|0.46254	CAT|ATC		0.582	MICALL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319545.4	NM_033386		G	38328888	A	G	38328888	3	3	598	1	0	0	0	0	1	0	0	0	9580	217	8	3	2273	3	MICALL1	22	38328888	Missense_Mutation	SNP	A	TCGA-GL-7773-01A-11D-2136-08	8165350	38328888	12975678	149	35850										
MKL1	57591	hgsc.bcm.edu;bcgsc.ca	37	chr22	40816901	40816901	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ttgtggtgctgctgctgctgCtggttgaggatctgcagctg	16	8	1	1			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chr22:40816901C>G	ENST00000355630.3	-	10	1421	c.831G>C	c.(829-831)caG>caC	p.Q277H	MKL1_ENST00000396617.3_Missense_Mutation_p.Q277H|MKL1_ENST00000407029.1_Missense_Mutation_p.Q277H|MKL1_ENST00000402042.1_Missense_Mutation_p.Q227H	NM_020831.3	NP_065882.1	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia (translocation) 1	277	Gln-rich.				negative regulation of apoptotic signaling pathway (GO:2001234)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription via serum response element binding (GO:0010735)|smooth muscle cell differentiation (GO:0051145)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	actin binding (GO:0003779)|actin monomer binding (GO:0003785)|leucine zipper domain binding (GO:0043522)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription regulatory region sequence-specific DNA binding (GO:0000976)			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(3)|lung(13)|ovary(4)|skin(1)|stomach(1)|urinary_tract(1)	30						GCTGCTGCTGCTGGTTGAGGA	0.657			T	RBM15	acute megakaryocytic leukemia																																		Dom	yes		22	22q13	57591	megakaryoblastic leukemia (translocation) 1		L	0													62	63	62					22																	40816901		2203	4300	6503	SO:0001583	missense	57591			AB037859	CCDS14003.1, CCDS74865.1, CCDS74866.1	22q13	2008-06-12			ENSG00000196588	ENSG00000196588			14334	protein-coding gene	gene with protein product	"megakaryocytic acute leukemia", "myocardin-related transcription factor A", "basic, SAP and coiled-coil domain"	606078				11431691, 12019265, 14970199	Standard	XM_005261692		Approved	KIAA1438, MAL, MRTF-A, BSAC	uc003ayw.1	Q969V6	OTTHUMG00000151146	ENST00000355630.3:c.831G>C	22.37:g.40816901C>G	ENSP00000347847:p.Gln277His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TCL1|Q96SC5|Q96SC6|Q9P2B0	Missense_Mutation	SNP	ENST00000355630.3	37	CCDS14003.1	.	.	.	.	.	.	.	.	.	.	C	19.12	3.766193	0.69878	.	.	ENSG00000196588	ENST00000355630;ENST00000396617;ENST00000402042;ENST00000407029	T;T;T;T	0.61859	0.16;0.11;0.07;0.16	5.26	4.24	0.50183	.	0.000000	0.85682	D	0.000000	T	0.73353	0.3576	M	0.77616	2.38	0.48696	D	0.999692	P;D;P	0.67145	0.787;0.996;0.787	B;D;B	0.75484	0.294;0.986;0.294	T	0.75385	-0.3336	10	0.66056	D	0.02	-15.2355	9.9937	0.41887	0.0:0.8449:0.0:0.1551	.	227;277;277	B0QY83;E7ER32;Q969V6	.;.;MKL1_HUMAN	H	277;277;227;277	ENSP00000347847:Q277H;ENSP00000379861:Q277H;ENSP00000385584:Q227H;ENSP00000385835:Q277H	ENSP00000347847:Q277H	Q	-	3	2	MKL1	39146847	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	3.270000	0.51600	1.210000	0.43336	0.462000	0.41574	CAG		0.657	MKL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321522.1	NM_020831		G	40816901	C	G	40816901	3	3	598	1	0	0	0	0	1	0	0	0	9608	796	28	4	1988	4	MKL1	22	40816901	Missense_Mutation	SNP	C	TCGA-GL-7773-01A-11D-2136-08	2488013	40816901	10487665	150	35851										
ARMCX1	51309	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	100808732	100808733	+	Frame_Shift_Ins	INS	-	-	T													0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cttacaatgcccttaataacINSttgagtgtgaacgcagaaaa							TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chrX:100808732_100808733insT	ENST00000372829.3	+	4	1190_1191	c.819_820insT	c.(820-822)ttgfs	p.L274fs		NM_016608.1	NP_057692.1	Q9P291	ARMX1_HUMAN	armadillo repeat containing, X-linked 1	274						integral component of membrane (GO:0016021)				NS(1)|breast(2)|central_nervous_system(1)|endometrium(1)|large_intestine(7)|lung(2)|ovary(3)|pancreas(1)|urinary_tract(1)	19						CCCTTAATAACTTGAGTGTGAA	0.426																																																0																																										SO:0001589	frameshift_variant	51309			AB039670	CCDS14487.1	Xq21.33-q22.2	2014-03-21			ENSG00000126947	ENSG00000126947		"Armadillo repeat containing"	18073	protein-coding gene	gene with protein product		300362				11162520, 16221301, 22569362	Standard	NM_016608		Approved	ALEX1, GASP7	uc004ehv.3	Q9P291	OTTHUMG00000022033	ENST00000372829.3:c.821dupT	X.37:g.100808734_100808734dupT	ENSP00000361917:p.Leu274fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q53HK2|Q9H2Q0	Frame_Shift_Ins	INS	ENST00000372829.3	37	CCDS14487.1																																																																																				0.426	ARMCX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057561.1	NM_016608		T	100808733	-	T	100808732	7	5	598	1	0	1	1	0	0	0	0	0	959	564	20	0	821	0	ARMCX1	23	100808732	Frame_Shift_Ins	INS	-	TCGA-GL-7773-01A-11D-2136-08		100808732	54461828	151	35852										
PLS3	5358	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	114883786	114883786	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ctagaagaatcggagccagaGtgtatgctctccctgaagac	11	10	1	5			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chrX:114883786G>C	ENST00000420625.2	+	16	1932	c.1798G>C	c.(1798-1800)Gtg>Ctg	p.V600L	PLS3_ENST00000537301.1_Missense_Mutation_p.V587L|PLS3_ENST00000539310.1_Missense_Mutation_p.V555L|PLS3_ENST00000543070.1_Missense_Mutation_p.V194L|PLS3_ENST00000355899.3_Missense_Mutation_p.V600L|PLS3_ENST00000289290.3_Missense_Mutation_p.V564L	NM_001136025.3|NM_001172335.1|NM_001282338.1	NP_001129497.1|NP_001165806.1|NP_001269267.1	P13797	PLST_HUMAN	plastin 3	600	Actin-binding 2.|CH 4. {ECO:0000255|PROSITE- ProRule:PRU00044}.				bone development (GO:0060348)	cytoplasm (GO:0005737)	calcium ion binding (GO:0005509)			NS(2)|breast(4)|endometrium(2)|kidney(4)|large_intestine(3)|lung(11)	26						CGGAGCCAGAGTGTATGCTCT	0.433																																					Colon(160;1047 1864 8490 12969 29601)											0													161	136	145					X																	114883786		2203	4300	6503	SO:0001583	missense	5358			L05491	CCDS14568.1, CCDS65312.1	Xq23	2013-01-10	2010-02-10		ENSG00000102024	ENSG00000102024		"EF-hand domain containing"	9091	protein-coding gene	gene with protein product		300131	"plastin 3 (T isoform)"			8428952	Standard	NM_005032		Approved	T-plastin	uc004eqe.3	P13797	OTTHUMG00000022237	ENST00000420625.2:c.1798G>C	X.37:g.114883786G>C	ENSP00000398945:p.Val600Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K579|B1AQ09|B4DGB4|B7Z6M1|Q86YI6	Missense_Mutation	SNP	ENST00000420625.2	37	CCDS14568.1	.	.	.	.	.	.	.	.	.	.	G	12.11	1.840800	0.32513	.	.	ENSG00000102024	ENST00000355899;ENST00000537301;ENST00000289290;ENST00000420625;ENST00000539310;ENST00000543070	D;D;D;D;D;D	0.95001	-3.58;-3.58;-3.58;-3.58;-3.58;-3.58	5.59	5.59	0.84812	Calponin homology domain (5);	0.053518	0.85682	D	0.000000	D	0.95367	0.8496	M	0.81942	2.565	0.80722	D	1	B;B;B	0.21606	0.02;0.058;0.009	B;B;B	0.39771	0.309;0.306;0.215	D	0.93807	0.7106	10	0.87932	D	0	-7.9383	10.9343	0.47237	0.0886:0.0:0.9114:0.0	.	573;587;600	B4DPW9;B4DGB4;P13797	.;.;PLST_HUMAN	L	600;587;564;600;555;194	ENSP00000348163:V600L;ENSP00000445105:V587L;ENSP00000289290:V564L;ENSP00000398945:V600L;ENSP00000445339:V555L;ENSP00000439260:V194L	ENSP00000289290:V564L	V	+	1	0	PLS3	114790042	1.000000	0.71417	0.983000	0.44433	0.191000	0.23601	7.881000	0.87252	2.494000	0.84150	0.594000	0.82650	GTG		0.433	PLS3-201	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000057976.2			C	114883786	G	C	114883786	3	2	598	1	0	0	0	0	1	0	0	0	12115	1029	36	4	1856	4	PLS3	23	114883786	Missense_Mutation	SNP	G	TCGA-GL-7773-01A-11D-2136-08	14075054	114883786	40386774	152	35853										
WDR44	54521	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	117526750	117526750	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	cccggactgttagccatagaTcaagtactaccggaagaatc	9	11	1	2			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chrX:117526750T>G	ENST00000254029.3	+	4	737	c.342T>G	c.(340-342)gaT>gaG	p.D114E	WDR44_ENST00000371822.5_Missense_Mutation_p.D89E|WDR44_ENST00000371825.3_Missense_Mutation_p.D114E|WDR44_ENST00000493448.1_3'UTR	NM_019045.4	NP_061918.3	Q5JSH3	WDR44_HUMAN	WD repeat domain 44	114	Binding activity.					endosome (GO:0005768)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)				breast(4)|endometrium(2)|kidney(1)|large_intestine(4)|lung(16)|ovary(1)|pancreas(1)|prostate(1)|stomach(2)|upper_aerodigestive_tract(1)	33						TAGCCATAGATCAAGTACTAC	0.403																																																0													88	83	85					X																	117526750		2203	4300	6503	SO:0001583	missense	54521			AK001978	CCDS14572.1, CCDS55482.1, CCDS55483.1	Xq24	2013-01-09			ENSG00000131725	ENSG00000131725		"WD repeat domain containing"	30512	protein-coding gene	gene with protein product						12477932	Standard	NM_019045		Approved	DKFZp686L20145, RPH11, RAB11BP	uc004eqn.3	Q5JSH3	OTTHUMG00000022254	ENST00000254029.3:c.342T>G	X.37:g.117526750T>G	ENSP00000254029:p.Asp114Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DSE9|F8W913|Q0JS52|Q0JTF3|Q5JSH2|Q6ZSC1|Q7Z365|Q7Z3P6|Q8NAU8|Q8NHU5|Q9NUV4	Missense_Mutation	SNP	ENST00000254029.3	37	CCDS14572.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	0.058|0.058	-1.232190|-1.232190	0.01505|0.01505	.|.	.|.	ENSG00000131725|ENSG00000131725	ENST00000371822;ENST00000254029;ENST00000371825|ENST00000371848	T;T;T|.	0.71579|.	-0.58;0.02;0.15|.	5.68|5.68	0.195|0.195	0.15151|0.15151	.|.	0.637812|.	0.17319|.	N|.	0.178592|.	T|T	0.09949|0.09949	0.0244|0.0244	N|N	0.04508|0.04508	-0.205|-0.205	0.09310|0.09310	N|N	1|1	B;B;B|.	0.02656|.	0.0;0.0;0.0|.	B;B;B|.	0.04013|.	0.001;0.001;0.0|.	T|T	0.26326|0.26326	-1.0106|-1.0106	10|5	0.08179|.	T|.	0.78|.	-1.0257|-1.0257	1.5608|1.5608	0.02594|0.02594	0.3214:0.0908:0.3459:0.2419|0.3214:0.0908:0.3459:0.2419	.|.	89;114;114|.	F8W913;Q5JSH3-2;Q5JSH3|.	.;.;WDR44_HUMAN|.	E|A	89;114;114|14	ENSP00000360887:D89E;ENSP00000254029:D114E;ENSP00000360890:D114E|.	ENSP00000254029:D114E|.	D|S	+|+	3|1	2|0	WDR44|WDR44	117410778|117410778	0.397000|0.397000	0.25270|0.25270	0.074000|0.074000	0.20217|0.20217	0.110000|0.110000	0.19582|0.19582	0.688000|0.688000	0.25422|0.25422	-0.017000|-0.017000	0.14103|0.14103	0.486000|0.486000	0.48141|0.48141	GAT|TCA		0.403	WDR44-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058001.1	NM_019045		G	117526750	T	G	117526750	3	3	598	1	0	0	0	0	1	0	0	0	17308	1432	50	5	356	5	WDR44	23	117526750	Missense_Mutation	SNP	T	TCGA-GL-7773-01A-11D-2136-08	2642964	117526750	37743810	153	35854										
THOC2	57187	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	122801090	122801090	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	ttgccaatcaccaatctttaAtaaggcttccaacaagccaa	4	12	2	0			TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chrX:122801090A>G	ENST00000245838.8	-	11	1088	c.1057T>C	c.(1057-1059)Tta>Cta	p.L353L	THOC2_ENST00000491737.1_Silent_p.L238L|THOC2_ENST00000355725.4_Silent_p.L353L	NM_001081550.1	NP_001075019.1	Q8NI27	THOC2_HUMAN	THO complex 2	353					mRNA export from nucleus (GO:0006406)|mRNA processing (GO:0006397)|poly(A)+ mRNA export from nucleus (GO:0016973)|RNA splicing (GO:0008380)|viral mRNA export from host cell nucleus (GO:0046784)	THO complex (GO:0000347)|THO complex part of transcription export complex (GO:0000445)|transcription export complex (GO:0000346)	RNA binding (GO:0003723)			breast(2)|endometrium(13)|kidney(4)|large_intestine(11)|lung(26)|ovary(3)|skin(1)|upper_aerodigestive_tract(3)	63						CCAATCTTTAATAAGGCTTCC	0.378																																																0													138	121	127					X																	122801090		1869	4097	5966	SO:0001819	synonymous_variant	57187			AF441770	CCDS43988.1	Xq25-q26.3	2013-02-11	2004-08-09		ENSG00000125676	ENSG00000125676		"THO complex subunits"	19073	protein-coding gene	gene with protein product		300395	"chromosome X open reading frame 3"	CXorf3		11979277	Standard	NM_001081550		Approved	THO2, dJ506G2.1	uc004etu.3	Q8NI27	OTTHUMG00000022334	ENST00000245838.8:c.1057T>C	X.37:g.122801090A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NM50|Q5JZ12|Q6IN92|Q9H8I6	Silent	SNP	ENST00000245838.8	37	CCDS43988.1																																																																																				0.378	THOC2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058153.3			G	122801090	A	G	122801090	2	3	598	1	0	0	0	0	0	0	0	1	15877	98	4	3		3	THOC2	23	122801090	Silent	SNP	A	TCGA-GL-7773-01A-11D-2136-08	5274340	122801090	32469470	154	35855										
ATP2B3	492	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	152826336	152826336	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0264900662251656	4	1	0.557239221820315	0.963054742059022	0.246113989637306	0.582043343653251	1	0	accatcgttttgggcactttCgggattcaggtaggaggggc	15	8	1	0	rs181539158		TCGA-GL-7773-01A-11D-2136-08	TCGA-GL-7773-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	10a0f4f1-391f-4eff-9dc9-023a2993549c	06b70c78-6523-4956-a2b4-dd78e80cad60	g.chrX:152826336C>T	ENST00000349466.2	+	18	3368	c.3042C>T	c.(3040-3042)ttC>ttT	p.F1014F	ATP2B3_ENST00000263519.4_Silent_p.F1014F|ATP2B3_ENST00000370186.1_Silent_p.F1000F|ATP2B3_ENST00000393842.1_Silent_p.F1000F|ATP2B3_ENST00000370181.2_Silent_p.F1000F|ATP2B3_ENST00000359149.3_Silent_p.F1014F			Q16720	AT2B3_HUMAN	ATPase, Ca++ transporting, plasma membrane 3	1014					blood coagulation (GO:0007596)|cell death (GO:0008219)|ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)|transport (GO:0006810)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	ATP binding (GO:0005524)|calcium-transporting ATPase activity (GO:0005388)|metal ion binding (GO:0046872)	p.F1014F(5)|p.F1014L(3)|p.F1000F(2)|p.F1000L(1)		NS(2)|breast(5)|endometrium(7)|large_intestine(8)|lung(23)|ovary(1)|pancreas(1)|skin(3)	50	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TGGGCACTTTCGGGATTCAGG	0.572													C|||	1	0.000264901	0.0008	0.0	3775	,	,		13946	0.0		0.0	False		,,,				2504	0.0															11	Substitution - coding silent(7)|Substitution - Missense(4)	lung(4)|breast(4)|large_intestine(3)											194	141	159					X																	152826336		2203	4300	6503	SO:0001819	synonymous_variant	492			U60414	CCDS14722.1, CCDS35440.1	Xq28	2014-07-18			ENSG00000067842	ENSG00000067842	3.6.3.8	"ATPases / P-type"	816	protein-coding gene	gene with protein product	"plasma membrane calcium-transporting ATPase 3", "cilia and flagella associated protein 39"	300014	"spinocerebellar ataxia, X-linked 1", "cerebellar ataxia 2 (X-linked)"	SCAX1, CLA2		8187550, 22912398	Standard	NM_021949		Approved	PMCA3, CFAP39	uc004fht.1	Q16720	OTTHUMG00000024202	ENST00000349466.2:c.3042C>T	X.37:g.152826336C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7WNR8|B7WNY5|Q12995|Q16858	Silent	SNP	ENST00000349466.2	37	CCDS35440.1																																																																																				0.572	ATP2B3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060957.1	NM_021949		T	152826336	C	T	152826336	2	4	598	1	0	0	0	0	0	0	0	1	1141	883	31	1		1	ATP2B3	23	152826336	Silent	SNP	C	TCGA-GL-7773-01A-11D-2136-08	30025246	152826336	2444224	155	35856										
PRAMEF2	65122	hgsc.bcm.edu	37	chr1	12919095	12919095	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	aagacgcttcatctggagccAttgaaagcattgctggaagg	12	8	2	2	rs116865587	byFrequency	TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr1:12919095A>C	ENST00000240189.2	+	2	318	c.231A>C	c.(229-231)ccA>ccC	p.P77P		NM_023014.1	NP_075390.1	O60811	PRAM2_HUMAN	PRAME family member 2	77					negative regulation of apoptotic process (GO:0043066)|negative regulation of cell differentiation (GO:0045596)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)					breast(2)|endometrium(1)|kidney(2)|large_intestine(2)|lung(22)|prostate(6)|skin(3)|upper_aerodigestive_tract(4)	42	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		ATCTGGAGCCATTGAAAGCAT	0.557																																																0													165	177	173					1																	12919095		2201	4296	6497	SO:0001819	synonymous_variant	65122				CCDS149.1	1p36.21	2013-01-17			ENSG00000120952	ENSG00000120952		"-"	28841	protein-coding gene	gene with protein product							Standard	NM_023014		Approved	FLJ43580	uc001aum.1	O60811	OTTHUMG00000001986	ENST00000240189.2:c.231A>C	1.37:g.12919095A>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000240189.2	37	CCDS149.1																																																																																				0.557	PRAMEF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005517.1	NM_023014		C	12919095	A	C	12919095	2	2	599	1	0	0	0	0	0	0	0	1	12445	204	8	5		5	PRAMEF2	1	12919095	Silent	SNP	A	TCGA-GL-7966-01A-11D-2201-08		12919095	236331526	1	35857										
HFM1	164045	hgsc.bcm.edu	37	chr1	91844675	91844675	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	caaatagatcatccattactGtatctccagtaagttcttta	4	9	3	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr1:91844675G>C	ENST00000370425.3	-	9	1201	c.1103C>G	c.(1102-1104)aCa>aGa	p.T368R	HFM1_ENST00000294696.5_5'UTR|HFM1_ENST00000370424.3_Missense_Mutation_p.T47R	NM_001017975.3	NP_001017975.3	A2PYH4	HFM1_HUMAN	HFM1, ATP-dependent DNA helicase homolog (S. cerevisiae)	368	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				resolution of meiotic recombination intermediates (GO:0000712)		ATP binding (GO:0005524)|helicase activity (GO:0004386)|nucleic acid binding (GO:0003676)			breast(4)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(17)|lung(33)|ovary(1)|prostate(3)|skin(2)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	75		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)		ATCCATTACTGTATCTCCAGT	0.333																																																0													85	82	83					1																	91844675		2203	4299	6502	SO:0001583	missense	164045			AB204867	CCDS30769.2	1p22.2	2008-03-26			ENSG00000162669	ENSG00000162669			20193	protein-coding gene	gene with protein product		615684	"SEC63 domain containing 1"	SEC63D1		14702039, 17286053	Standard	XM_006710395		Approved	MER3, FLJ39011, FLJ36760	uc001doa.4	A2PYH4	OTTHUMG00000010093	ENST00000370425.3:c.1103C>G	1.37:g.91844675G>C	ENSP00000359454:p.Thr368Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B1B0B6|Q8N9Q0	Missense_Mutation	SNP	ENST00000370425.3	37	CCDS30769.2	.	.	.	.	.	.	.	.	.	.	G	26.5	4.747630	0.89663	.	.	ENSG00000162669	ENST00000370425;ENST00000370424;ENST00000370421;ENST00000541820	T;T	0.37235	2.43;1.21	5.42	5.42	0.78866	DEAD-like helicase (2);DNA/RNA helicase, DEAD/DEAH box type, N-terminal (1);	0.000000	0.40385	U	0.001107	T	0.48352	0.1495	L	0.58669	1.825	0.80722	D	1	D;D;D	0.89917	0.998;1.0;0.999	P;D;D	0.79784	0.899;0.993;0.981	T	0.21621	-1.0240	10	0.26408	T	0.33	.	19.2139	0.93768	0.0:0.0:1.0:0.0	.	47;368;368	A6NGI5;B7ZM16;A2PYH4	.;.;HFM1_HUMAN	R	368;47;52;401	ENSP00000359454:T368R;ENSP00000359453:T47R	ENSP00000359450:T52R	T	-	2	0	HFM1	91617263	1.000000	0.71417	1.000000	0.80357	0.973000	0.67179	9.476000	0.97823	2.534000	0.85438	0.563000	0.77884	ACA		0.333	HFM1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316716.2	NM_001017975		C	91844675	G	C	91844675	3	2	599	1	0	0	0	0	1	0	0	0	7090	1377	48	4	3328	4	HFM1	1	91844675	Missense_Mutation	SNP	G	TCGA-GL-7966-01A-11D-2201-08	78925580	91844675	157405946	2	35858										
EVI5	7813	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	93160869	93160869	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	gtctgcccattagcttacctCagacataaagatatcaaata	5	10	3	2			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr1:93160869C>G	ENST00000370331.1	-	7	1048	c.1039G>C	c.(1039-1041)Gag>Cag	p.E347Q	EVI5_ENST00000543509.1_Missense_Mutation_p.E347Q|EVI5_ENST00000540033.1_Missense_Mutation_p.E347Q	NM_005665.4	NP_005656.4	O60447	EVI5_HUMAN	ecotropic viral integration site 5	347	Dimerization.|Interaction with alpha-tubulin, gamma- tubulin, BIRC5 and FBXO5.|Rab-GAP TBC. {ECO:0000255|PROSITE- ProRule:PRU00163}.				cell cycle (GO:0007049)|cell division (GO:0051301)|cell proliferation (GO:0008283)|multicellular organismal development (GO:0007275)|positive regulation of GTP catabolic process (GO:0033126)|positive regulation of Rab GTPase activity (GO:0032851)|retrograde transport, endosome to Golgi (GO:0042147)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	Rab GTPase activator activity (GO:0005097)|Rab GTPase binding (GO:0017137)			breast(1)|endometrium(6)|kidney(2)|large_intestine(8)|lung(18)|ovary(1)|prostate(1)|skin(1)	38		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)		TAGCTTACCTCAGACATAAAG	0.423																																																0													107	109	108					1																	93160869		2203	4300	6503	SO:0001583	missense	7813			AF008915	CCDS30774.1	1p22	2013-07-09			ENSG00000067208	ENSG00000067208			3501	protein-coding gene	gene with protein product	"neuroblastoma stage 4S gene"	602942				9618176	Standard	XM_005271180		Approved	NB4S	uc001dox.3	O60447	OTTHUMG00000010895	ENST00000370331.1:c.1039G>C	1.37:g.93160869C>G	ENSP00000359356:p.Glu347Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKX8|B9A6J0|Q9H1Y9	Missense_Mutation	SNP	ENST00000370331.1	37	CCDS30774.1	.	.	.	.	.	.	.	.	.	.	C	31	5.084339	0.94100	.	.	ENSG00000067208	ENST00000370331;ENST00000540033;ENST00000543509	T;T;T	0.14766	2.48;2.48;2.48	5.94	5.94	0.96194	Rab-GAP/TBC domain (4);	0.045268	0.85682	D	0.000000	T	0.34424	0.0897	M	0.83223	2.63	0.80722	D	1	D;D	0.60575	0.986;0.988	P;P	0.62560	0.844;0.904	T	0.13282	-1.0515	10	0.87932	D	0	-17.0097	20.3552	0.98837	0.0:1.0:0.0:0.0	.	347;347	F5H4R0;O60447	.;EVI5_HUMAN	Q	347	ENSP00000359356:E347Q;ENSP00000440826:E347Q;ENSP00000445019:E347Q	ENSP00000359356:E347Q	E	-	1	0	EVI5	92933457	1.000000	0.71417	1.000000	0.80357	0.974000	0.67602	7.760000	0.85248	2.812000	0.96745	0.557000	0.71058	GAG		0.423	EVI5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030047.1	NM_005665		G	93160869	C	G	93160869	3	3	599	1	0	0	0	0	1	0	0	0	5291	835	29	4	1441	4	EVI5	1	93160869	Missense_Mutation	SNP	C	TCGA-GL-7966-01A-11D-2201-08	1316194	93160869	156089752	3	35859										
ASH1L	55870	broad.mit.edu	37	chr1	155451419	155451419	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	gcatctttactgatcagaccTgccaaaggacaactcattag	7	11	3	2			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr1:155451419T>C	ENST00000368346.3	-	3	1881	c.1242A>G	c.(1240-1242)gcA>gcG	p.A414A	ASH1L_ENST00000548830.1_3'UTR|ASH1L_ENST00000392403.3_Silent_p.A414A			Q9NR48	ASH1L_HUMAN	ash1 (absent, small, or homeotic)-like (Drosophila)	414					cell-cell signaling (GO:0007267)|DNA packaging (GO:0006323)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|tight junction (GO:0005923)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(4)|central_nervous_system(1)|endometrium(12)|kidney(13)|large_intestine(28)|lung(39)|ovary(2)|pancreas(1)|prostate(6)|skin(11)|upper_aerodigestive_tract(2)|urinary_tract(4)	124	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)			TGATCAGACCTGCCAAAGGAC	0.438																																																0													98	95	96					1																	155451419		2203	4299	6502	SO:0001819	synonymous_variant	55870			AB037841	CCDS1113.2	1q22	2013-01-28			ENSG00000116539	ENSG00000116539		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	19088	protein-coding gene	gene with protein product		607999				10860993, 16545939	Standard	NM_018489		Approved	huASH1, ASH1, ASH1L1, KMT2H	uc001fkt.3	Q9NR48	OTTHUMG00000014011	ENST00000368346.3:c.1242A>G	1.37:g.155451419T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q59GP1|Q5T714|Q5T715|Q9P2C7	Silent	SNP	ENST00000368346.3	37																																																																																					0.438	ASH1L-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000039400.1	NM_018489		C	155451419	T	C	155451419	2	2	599	1	0	0	0	0	0	0	0	1	1041	1567	55	3		3	ASH1L	1	155451419	Silent	SNP	T	TCGA-GL-7966-01A-11D-2201-08	62290550	155451419	93799202	4	35860										
OR6Y1	391112	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	158517503	158517503	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	gggtagcgtagtggattacaAatggctacatagcggtcaaa	13	6	1	0			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr1:158517503A>T	ENST00000302617.3	-	1	392	c.393T>A	c.(391-393)atT>atA	p.I131I		NM_001005189.1	NP_001005189.1	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y, member 1	131						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|kidney(1)|large_intestine(5)|lung(16)|ovary(1)|prostate(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	30	all_hematologic(112;0.0378)					GTGGATTACAAATGGCTACAT	0.473																																																0													100	85	90					1																	158517503		2202	4300	6502	SO:0001819	synonymous_variant	391112			BK004192	CCDS30899.1	1q23.1	2012-08-09			ENSG00000197532	ENSG00000197532		"GPCR / Class A : Olfactory receptors"	14823	protein-coding gene	gene with protein product				OR6Y2			Standard	NM_001005189		Approved		uc010pil.2	Q8NGX8	OTTHUMG00000019629	ENST00000302617.3:c.393T>A	1.37:g.158517503A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFS0	Silent	SNP	ENST00000302617.3	37	CCDS30899.1																																																																																				0.473	OR6Y1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051844.1	NM_001005189		T	158517503	A	T	158517503	2	4	599	1	0	0	0	0	0	0	0	1	11220	10	1	5		5	OR6Y1	1	158517503	Silent	SNP	A	TCGA-GL-7966-01A-11D-2201-08	3066084	158517503	90733118	5	35861										
NUAK2	81788	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	205274389	205274389	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	gtttcactaggatcttatggTcatgcccatcaaagggcatg	10	9	4	0			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr1:205274389T>C	ENST00000367157.3	-	6	887	c.761A>G	c.(760-762)gAc>gGc	p.D254G		NM_030952.1	NP_112214.1			NUAK family, SNF1-like kinase, 2											breast(3)|kidney(3)|large_intestine(4)|lung(4)|ovary(3)|prostate(3)|skin(1)|stomach(1)|urinary_tract(1)	23	Breast(84;0.186)		BRCA - Breast invasive adenocarcinoma(75;0.117)			GATCTTATGGTCATGCCCATC	0.572																																																0													98	83	88					1																	205274389		2203	4300	6503	SO:0001583	missense	81788			AK074830	CCDS1453.1	1q32.1	2008-02-05			ENSG00000163545	ENSG00000163545			29558	protein-coding gene	gene with protein product	"SNF1/AMP activated protein kinase"	608131				11230166	Standard	NM_030952		Approved	SNARK, FLJ90349	uc001hce.3	Q9H093	OTTHUMG00000037196	ENST00000367157.3:c.761A>G	1.37:g.205274389T>C	ENSP00000356125:p.Asp254Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000367157.3	37	CCDS1453.1	.	.	.	.	.	.	.	.	.	.	T	28.2	4.895395	0.91962	.	.	ENSG00000163545	ENST00000367157	T	0.26373	1.74	5.73	5.73	0.89815	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.47093	D	0.000245	T	0.38983	0.1061	L	0.41124	1.26	0.80722	D	1	D	0.63046	0.992	P	0.59056	0.851	T	0.13710	-1.0499	10	0.62326	D	0.03	.	15.683	0.77388	0.0:0.0:0.0:1.0	.	254	Q9H093	NUAK2_HUMAN	G	254	ENSP00000356125:D254G	ENSP00000356125:D254G	D	-	2	0	NUAK2	203541012	1.000000	0.71417	1.000000	0.80357	0.803000	0.45373	8.040000	0.89188	2.188000	0.69820	0.459000	0.35465	GAC		0.572	NUAK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090390.1	NM_030952		C	205274389	T	C	205274389	3	2	599	1	0	0	0	0	1	0	0	0	10720	1667	58	3	1133	3	NUAK2	1	205274389	Missense_Mutation	SNP	T	TCGA-GL-7966-01A-11D-2201-08	46756886	205274389	43976232	6	35862										
USH2A	7399	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	216138718	216138718	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	gtgttaagagtccattagggCgaaaaggtgcttcccacctc	11	10	0	1	rs201386640		TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr1:216138718C>T	ENST00000307340.3	-	37	7447	c.7061G>A	c.(7060-7062)cGc>cAc	p.R2354H	USH2A_ENST00000366943.2_Missense_Mutation_p.R2354H	NM_206933.2	NP_996816	O75445	USH2A_HUMAN	Usher syndrome 2A (autosomal recessive, mild)	2354	Fibronectin type-III 10. {ECO:0000255|PROSITE-ProRule:PRU00316}.		R -> H (in USH2A). {ECO:0000269|PubMed:17085681}.		hair cell differentiation (GO:0035315)|inner ear receptor cell differentiation (GO:0060113)|maintenance of organ identity (GO:0048496)|photoreceptor cell maintenance (GO:0045494)|response to stimulus (GO:0050896)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	apical plasma membrane (GO:0016324)|basement membrane (GO:0005604)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|stereocilia ankle link complex (GO:0002142)|stereocilium bundle (GO:0032421)|stereocilium membrane (GO:0060171)	collagen binding (GO:0005518)|myosin binding (GO:0017022)	p.R2354H(1)		NS(7)|breast(20)|central_nervous_system(3)|cervix(2)|endometrium(32)|haematopoietic_and_lymphoid_tissue(4)|kidney(13)|large_intestine(71)|liver(2)|lung(282)|ovary(25)|pancreas(2)|prostate(12)|skin(22)|stomach(7)|upper_aerodigestive_tract(20)|urinary_tract(3)	527				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TCCATTAGGGCGAAAAGGTGC	0.403										HNSCC(13;0.011)			C|||	1	0.000199681	0.0	0.0	5008	,	,		16044	0.0		0.001	False		,,,				2504	0.0															1	Substitution - Missense(1)	large_intestine(1)	GRCh37	CM065510	USH2A	M							151	149	150					1																	216138718		2203	4300	6503	SO:0001583	missense	7399			AF055580	CCDS1516.1, CCDS31025.1	1q41	2013-02-11			ENSG00000042781	ENSG00000042781		"Fibronectin type III domain containing"	12601	protein-coding gene	gene with protein product	"usherin"	608400		USH2		9624053, 10729113	Standard	NM_007123		Approved	RP39	uc001hku.1	O75445	OTTHUMG00000037079	ENST00000307340.3:c.7061G>A	1.37:g.216138718C>T	ENSP00000305941:p.Arg2354His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VVM9|Q6S362|Q9NS27	Missense_Mutation	SNP	ENST00000307340.3	37	CCDS31025.1	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	C	9.917	1.211142	0.22289	.	.	ENSG00000042781	ENST00000307340;ENST00000366943	T;T	0.53640	0.61;0.61	5.56	-5.71	0.02413	Fibronectin, type III (3);Immunoglobulin-like fold (1);	1.141870	0.06669	N	0.765866	T	0.13072	0.0317	N	0.00621	-1.32	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.21655	-1.0239	10	0.18276	T	0.48	.	5.5397	0.17031	0.0751:0.2583:0.1031:0.5634	.	2354	O75445	USH2A_HUMAN	H	2354	ENSP00000305941:R2354H;ENSP00000355910:R2354H	ENSP00000305941:R2354H	R	-	2	0	USH2A	214205341	0.095000	0.21747	0.000000	0.03702	0.490000	0.33462	0.145000	0.16157	-0.801000	0.04427	-0.136000	0.14681	CGC		0.403	USH2A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128138.1	NM_007123		T	216138718	C	T	216138718	3	4	599	1	0	0	0	0	1	0	0	0	17048	768	27	1	8691	1	USH2A	1	216138718	Missense_Mutation	SNP	C	TCGA-GL-7966-01A-11D-2201-08	10864329	216138718	33111903	7	35863										
C1orf55	163859	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	226180666	226180666	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	tctcgattggttgtcttctcAatctgagcaccaagtgctcg	9	11	4	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr1:226180666A>C	ENST00000272091.7	-	3	294	c.276T>G	c.(274-276)atT>atG	p.I92M		NM_152608.3	NP_689821.3	Q6IQ49	SDE2_HUMAN	SDE2 telomere maintenance homolog (S. pombe)	92																	TTGTCTTCTCAATCTGAGCAC	0.428																																																0													85	76	79					1																	226180666		1868	4101	5969	SO:0001583	missense	163859			BC071563	CCDS41473.1	1q42.12	2012-06-26	2012-06-26	2012-06-26	ENSG00000143751	ENSG00000143751			26643	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 55"	C1orf55		21333630	Standard	NM_152608		Approved	FLJ35382	uc001hpu.4	Q6IQ49	OTTHUMG00000037504	ENST00000272091.7:c.276T>G	1.37:g.226180666A>C	ENSP00000272091:p.Ile92Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4P3|Q5TD36|Q6ZS26|Q8NAG7	Missense_Mutation	SNP	ENST00000272091.7	37	CCDS41473.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	20.5|20.5	3.994098|3.994098	0.74703|0.74703	.|.	.|.	ENSG00000143751|ENSG00000143751	ENST00000272091;ENST00000366818|ENST00000366817	T|T	0.42131|0.49139	0.98|0.79	5.86|5.86	2.21|2.21	0.28008|0.28008	.|.	0.046995|.	0.85682|.	D|.	0.000000|.	T|T	0.41488|0.41488	0.1161|0.1161	L|L	0.41356|0.41356	1.27|1.27	0.29942|0.29942	N|N	0.82101|0.82101	D;D|.	0.89917|.	1.0;0.998|.	D;D|.	0.91635|.	0.999;0.978|.	T|T	0.45071|0.45071	-0.9286|-0.9286	10|7	0.15066|0.87932	T|D	0.55|0	-11.6814|-11.6814	4.9973|4.9973	0.14245|0.14245	0.6408:0.0:0.1288:0.2305|0.6408:0.0:0.1288:0.2305	.|.	80;92|.	Q6IQ49-2;Q6IQ49|.	.;CA055_HUMAN|.	M|W	92;80|41	ENSP00000272091:I92M|ENSP00000355782:L41W	ENSP00000272091:I92M|ENSP00000355782:L41W	I|L	-|-	3|2	3|0	C1orf55|C1orf55	224247289|224247289	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.995000|0.995000	0.86356|0.86356	1.520000|1.520000	0.35899|0.35899	0.119000|0.119000	0.18210|0.18210	0.529000|0.529000	0.55759|0.55759	ATT|TTG		0.428	SDE2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091310.1	NM_152608		C	226180666	A	C	226180666	3	2	599	1	0	0	0	0	1	0	0	0	2049	126	5	5	1099	5	C1orf55	1	226180666	Missense_Mutation	SNP	A	TCGA-GL-7966-01A-11D-2201-08	10041948	226180666	23069955	8	35864										
FH	2271	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	241663812	241663812	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	gatcctttctgtattggcctGgattcccaccacgcagtttt	8	12	1	0			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr1:241663812G>A	ENST00000366560.3	-	9	1353	c.1315C>T	c.(1315-1317)Cag>Tag	p.Q439*		NM_000143.3	NP_000134.2	P07954	FUMH_HUMAN	fumarate hydratase	439					cellular metabolic process (GO:0044237)|fumarate metabolic process (GO:0006106)|homeostasis of number of cells within a tissue (GO:0048873)|small molecule metabolic process (GO:0044281)|tricarboxylic acid cycle (GO:0006099)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|tricarboxylic acid cycle enzyme complex (GO:0045239)	fumarate hydratase activity (GO:0004333)			biliary_tract(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(11)|ovary(1)|skin(2)	26	Ovarian(103;0.103)	all_cancers(173;2.37e-314)|all_epithelial(177;5.17e-286)|Breast(1374;1.06e-10)|Acute lymphoblastic leukemia(190;4.93e-10)|all_neural(198;0.00118)	OV - Ovarian serous cystadenocarcinoma(106;0.0214)	Colorectal(1306;2.33e-53)|COAD - Colon adenocarcinoma(196;1.05e-44)|KIRC - Kidney renal clear cell carcinoma(1967;0.000109)		GTATTGGCCTGGATTCCCACC	0.413			"Mis, N, F"			"lieomyomatosis, renal"			Hereditary Leiomyomatosis and Renal Cell Cancer																												Melanoma(148;1573 2486 7381 46575)	yes	Rec		hereditary leiomyomatosis and renal cell cancer	1	1q42.1	2271	fumarate hydratase		"E, M"	0													149	143	145					1																	241663812		2203	4298	6501	SO:0001587	stop_gained	2271	Familial Cancer Database	HLRCC, Reed syndrome, Hereditary Multiple Leiomyomata of Skin and Uterus	BC003108	CCDS1617.1	1q42.1	2014-09-17			ENSG00000091483	ENSG00000091483	4.2.1.2		3700	protein-coding gene	gene with protein product		136850					Standard	NM_000143		Approved	fumarase	uc001hyx.3	P07954	OTTHUMG00000039597	ENST00000366560.3:c.1315C>T	1.37:g.241663812G>A	ENSP00000355518:p.Gln439*	Somatic		WXS	Illumina HiSeq	Phase_I	B1ANK7	Nonsense_Mutation	SNP	ENST00000366560.3	37	CCDS1617.1	.	.	.	.	.	.	.	.	.	.	G	36	5.942978	0.97128	.	.	ENSG00000091483	ENST00000366560	.	.	.	5.71	5.71	0.89125	.	0.221640	0.47093	D	0.000245	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.33141	T	0.24	-13.6944	17.3485	0.87316	0.0:0.0:1.0:0.0	.	.	.	.	X	439	.	ENSP00000355518:Q439X	Q	-	1	0	FH	239730435	1.000000	0.71417	1.000000	0.80357	0.972000	0.66771	3.437000	0.52863	2.697000	0.92050	0.655000	0.94253	CAG		0.413	FH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000095490.1	NM_000143		A	241663812	G	A	241663812	4	1	599	1	0	0	0	0	0	1	0	0	5882	1357	47	2	225	2	FH	1	241663812	Nonsense_Mutation	SNP	G	TCGA-GL-7966-01A-11D-2201-08	15483146	241663812	7586809	9	35865										
TAF1B	9014	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	10059757	10059763	+	Frame_Shift_Del	DEL	GCACACT	GCACACT	-													0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	gaatctacagaaacaatttaGcacactggtcgagtcaacag					rs59159809		TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	GCACACT	GCACACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr2:10059757_10059763delGCACACT	ENST00000263663.5	+	14	1561_1567	c.1373_1379delGCACACT	c.(1372-1380)agcacactgfs	p.STL458fs	TAF1B_ENST00000396242.3_Frame_Shift_Del_p.STL203fs	NM_005680.2	NP_005671	Q53T94	TAF1B_HUMAN	TATA box binding protein (TBP)-associated factor, RNA polymerase I, B, 63kDa	458					gene expression (GO:0010467)|RNA polymerase I transcriptional preinitiation complex assembly at the promoter for the nuclear large rRNA transcript (GO:0001189)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription from RNA polymerase I promoter (GO:0006360)|transcription initiation from RNA polymerase I promoter (GO:0006361)|transcription, DNA-templated (GO:0006351)	extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|RNA polymerase I core factor complex (GO:0070860)	metal ion binding (GO:0046872)|RNA polymerase I CORE element sequence-specific DNA binding (GO:0001164)|RNA polymerase I CORE element sequence-specific DNA binding transcription factor recruiting transcription factor activity (GO:0001187)|sequence-specific DNA binding transcription factor activity (GO:0003700)|TBP-class protein binding (GO:0017025)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(1)|lung(4)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	14	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					AAACAATTTAGCACACTGGTCGAGTCA	0.391																																																0																																										SO:0001589	frameshift_variant	9014			L39061	CCDS33143.1	2p25	2008-06-02	2002-08-29		ENSG00000115750	ENSG00000115750			11533	protein-coding gene	gene with protein product		604904	"TATA box binding protein (TBP)-associated factor, RNA polymerase I, B, 63kD"			7801123	Standard	NM_005680		Approved	TAFI63, SL1, RAF1B, RAFI63	uc002qzz.3	Q53T94	OTTHUMG00000151673	ENST00000263663.5:c.1373_1379delGCACACT	2.37:g.10059757_10059763delGCACACT	ENSP00000263663:p.Ser458fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DI42|F8WD72|Q15574|Q8WVC3	Frame_Shift_Del	DEL	ENST00000263663.5	37	CCDS33143.1																																																																																				0.391	TAF1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323426.2	NM_005680		-	10059763	GCACACT	-	10059757	7	5	599	1	0	1	0	1	0	0	0	0	15532	971	34	0	1427	0	TAF1B	2	10059757	Frame_Shift_Del	DEL	GCACACT	TCGA-GL-7966-01A-11D-2201-08		10059757	233139616	10	35866										
BIRC6	57448	hgsc.bcm.edu	37	chr2	32639897	32639897	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	tataacagcactcagcattcTccaacagccagaaaaacttc	4	13	2	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr2:32639897T>C	ENST00000421745.2	+	10	1672	c.1538T>C	c.(1537-1539)cTc>cCc	p.L513P		NM_016252.3	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat containing 6	513					apoptotic process (GO:0006915)|labyrinthine layer development (GO:0060711)|mitotic nuclear division (GO:0007067)|negative regulation of apoptotic process (GO:0043066)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|positive regulation of cell proliferation (GO:0008284)|protein phosphorylation (GO:0006468)|protein ubiquitination (GO:0016567)|regulation of cell proliferation (GO:0042127)|regulation of cytokinesis (GO:0032465)|spongiotrophoblast layer development (GO:0060712)	endosome (GO:0005768)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)|midbody (GO:0030496)|spindle pole (GO:0000922)|trans-Golgi network (GO:0005802)	acid-amino acid ligase activity (GO:0016881)|cysteine-type endopeptidase inhibitor activity (GO:0004869)|ubiquitin-protein transferase activity (GO:0004842)			NS(4)|breast(8)|central_nervous_system(3)|endometrium(21)|haematopoietic_and_lymphoid_tissue(1)|kidney(15)|large_intestine(31)|lung(65)|ovary(7)|pancreas(1)|prostate(5)|skin(5)|stomach(1)|urinary_tract(5)	172	Acute lymphoblastic leukemia(172;0.155)					CTCAGCATTCTCCAACAGCCA	0.383																																					Pancreas(94;175 1509 16028 18060 45422)											0													57	55	56					2																	32639897		2203	4300	6503	SO:0001583	missense	57448			AF265555	CCDS33175.2	2p22.3	2011-01-25	2011-01-25		ENSG00000115760	ENSG00000115760		"Baculoviral IAP repeat containing", "Ubiquitin-conjugating enzymes E2"	13516	protein-coding gene	gene with protein product	"apollon"	605638	"baculoviral IAP repeat-containing 6"			10544019	Standard	NM_016252		Approved	BRUCE	uc010ezu.3	Q9NR09	OTTHUMG00000150528	ENST00000421745.2:c.1538T>C	2.37:g.32639897T>C	ENSP00000393596:p.Leu513Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q9ULD1	Missense_Mutation	SNP	ENST00000421745.2	37	CCDS33175.2	.	.	.	.	.	.	.	.	.	.	T	16.00	2.998429	0.54147	.	.	ENSG00000115760	ENST00000421745	T	0.81078	-1.45	5.07	5.07	0.68467	.	0.000000	0.85682	D	0.000000	D	0.85699	0.5757	L	0.44542	1.39	0.80722	D	1	D	0.71674	0.998	D	0.81914	0.995	D	0.86691	0.1923	10	0.56958	D	0.05	.	15.1339	0.72549	0.0:0.0:0.0:1.0	.	513	Q9NR09	BIRC6_HUMAN	P	513	ENSP00000393596:L513P	ENSP00000393596:L513P	L	+	2	0	BIRC6	32493401	1.000000	0.71417	1.000000	0.80357	0.845000	0.48019	7.948000	0.87774	2.045000	0.60652	0.528000	0.53228	CTC		0.383	BIRC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318769.3	NM_016252		C	32639897	T	C	32639897	3	2	599	1	0	0	0	0	1	0	0	0	1438	1551	54	3	1576	3	BIRC6	2	32639897	Missense_Mutation	SNP	T	TCGA-GL-7966-01A-11D-2201-08	22580140	32639897	210559476	11	35867										
EIF2AK3	9451	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	88890366	88890366	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	cattccagatgtcctcccttCttactgaatgccataacttt	4	13	1	2			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr2:88890366C>T	ENST00000303236.3	-	5	1273	c.972G>A	c.(970-972)aaG>aaA	p.K324K	EIF2AK3_ENST00000419748.1_Silent_p.K173K	NM_004836.5	NP_004827.4	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha kinase 3	324					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|activation of signaling protein activity involved in unfolded protein response (GO:0006987)|bone mineralization (GO:0030282)|calcium-mediated signaling (GO:0019722)|cellular protein metabolic process (GO:0044267)|chondrocyte development (GO:0002063)|endocrine pancreas development (GO:0031018)|endoplasmic reticulum organization (GO:0007029)|endoplasmic reticulum unfolded protein response (GO:0030968)|ER overload response (GO:0006983)|fat cell differentiation (GO:0045444)|insulin secretion (GO:0030073)|insulin-like growth factor receptor signaling pathway (GO:0048009)|intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress (GO:0070059)|lactation (GO:0007595)|negative regulation of apoptotic process (GO:0043066)|negative regulation of gene expression (GO:0010629)|negative regulation of myelination (GO:0031642)|negative regulation of translation (GO:0017148)|negative regulation of translational initiation in response to stress (GO:0032057)|ossification (GO:0001503)|positive regulation of protein binding (GO:0032092)|positive regulation of signal transduction (GO:0009967)|protein autophosphorylation (GO:0046777)|protein homooligomerization (GO:0051260)|protein phosphorylation (GO:0006468)|regulation of fatty acid metabolic process (GO:0019217)|response to endoplasmic reticulum stress (GO:0034976)|skeletal system development (GO:0001501)|SREBP signaling pathway (GO:0032933)|translation (GO:0006412)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	ATP binding (GO:0005524)|enzyme binding (GO:0019899)|eukaryotic translation initiation factor 2alpha kinase activity (GO:0004694)|identical protein binding (GO:0042802)|protein kinase activity (GO:0004672)|protein phosphatase binding (GO:0019903)|protein serine/threonine kinase activity (GO:0004674)			ovary(3)	3						GTCCTCCCTTCTTACTGAATG	0.423																																					GBM(138;671 1851 16235 39058 45249)											0													168	156	160					2																	88890366		2203	4300	6503	SO:0001819	synonymous_variant	9451			AF110146	CCDS33241.1	2p12	2008-05-21			ENSG00000172071	ENSG00000172071			3255	protein-coding gene	gene with protein product		604032				10026192, 10575235	Standard	NM_004836		Approved	PEK, PERK	uc002stc.4	Q9NZJ5	OTTHUMG00000155046	ENST00000303236.3:c.972G>A	2.37:g.88890366C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0AVH1|A0AVH2|B2RCU9|O95846|Q53QY0|Q53SB1	Silent	SNP	ENST00000303236.3	37	CCDS33241.1																																																																																				0.423	EIF2AK3-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000338233.2	NM_004836		T	88890366	C	T	88890366	2	4	599	1	0	0	0	0	0	0	0	1	5000	912	32	2		2	EIF2AK3	2	88890366	Silent	SNP	C	TCGA-GL-7966-01A-11D-2201-08	56250469	88890366	154309007	12	35868										
SCN2A	6326	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	166201262	166201262	+	Silent	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	atttccaatgattgtgaactCccacgctggcacatgcatga	8	11	0	3			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr2:166201262C>G	ENST00000375437.2	+	16	3050	c.2760C>G	c.(2758-2760)ctC>ctG	p.L920L	SCN2A_ENST00000283256.6_Silent_p.L920L|SCN2A_ENST00000357398.3_Silent_p.L920L|SCN2A_ENST00000375427.2_Silent_p.L920L	NM_001040142.1	NP_001035232.1	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha subunit	920					intrinsic apoptotic signaling pathway in response to osmotic stress (GO:0008627)|membrane depolarization during action potential (GO:0086010)|myelination (GO:0042552)|neuron apoptotic process (GO:0051402)|neuronal action potential (GO:0019228)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	axon (GO:0030424)|integral component of plasma membrane (GO:0005887)|intercalated disc (GO:0014704)|intrinsic component of plasma membrane (GO:0031226)|node of Ranvier (GO:0033268)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)|sodium channel complex (GO:0034706)|T-tubule (GO:0030315)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)			NS(1)|breast(7)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(27)|liver(2)|lung(49)|ovary(6)|pancreas(1)|prostate(2)|skin(8)|upper_aerodigestive_tract(1)|urinary_tract(2)	118					Lamotrigine(DB00555)|Propofol(DB00818)|Valproic Acid(DB00313)|Zonisamide(DB00909)	ATTGTGAACTCCCACGCTGGC	0.488																																																0													231	208	216					2																	166201262		2203	4300	6503	SO:0001819	synonymous_variant	6326			AB208888	CCDS33313.1, CCDS33314.1	2q24.3	2012-02-26	2007-01-23	2007-01-23	ENSG00000136531	ENSG00000136531		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10588	protein-coding gene	gene with protein product		182390	"sodium channel, voltage-gated, type II, alpha 2 polypeptide", "sodium channel, voltage-gated, type II, alpha 1 polypeptide"	SCN2A1, SCN2A2		1317301, 16382098	Standard	XM_005246753		Approved	Nav1.2, HBSCII, HBSCI	uc002ude.3	Q99250	OTTHUMG00000044172	ENST00000375437.2:c.2760C>G	2.37:g.166201262C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NC14|A6NIQ5|Q14472|Q53T77|Q9BZC9|Q9BZD0	Silent	SNP	ENST00000375437.2	37	CCDS33314.1																																																																																				0.488	SCN2A-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000102659.2	NM_021007		G	166201262	C	G	166201262	2	3	599	1	0	0	0	0	0	0	0	1	13929	842	30	4		4	SCN2A	2	166201262	Silent	SNP	C	TCGA-GL-7966-01A-11D-2201-08	77310896	166201262	76998111	13	35869										
XIRP2	129446	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	168105759	168105759	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	ggctctcaaagtaatgctcgGatactaggagtgtgttctga	12	7	2	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr2:168105759G>A	ENST00000409195.1	+	9	7946	c.7857G>A	c.(7855-7857)cgG>cgA	p.R2619R	XIRP2_ENST00000420519.1_Intron|XIRP2_ENST00000409605.1_Intron|XIRP2_ENST00000295237.9_Silent_p.R2619R|XIRP2_ENST00000409756.2_Intron|XIRP2_ENST00000409273.1_Silent_p.R2397R|XIRP2_ENST00000409043.1_Intron|XIRP2_ENST00000409728.1_Intron	NM_152381.5	NP_689594.4	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2	2444					actin cytoskeleton organization (GO:0030036)|cardiac muscle tissue morphogenesis (GO:0055008)|cell-cell junction organization (GO:0045216)|ventricular septum development (GO:0003281)	cell junction (GO:0030054)|Z disc (GO:0030018)				NS(3)|biliary_tract(2)|breast(5)|cervix(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(51)|lung(160)|ovary(7)|pancreas(3)|prostate(11)|skin(14)|stomach(5)|upper_aerodigestive_tract(8)|urinary_tract(7)	315						GTAATGCTCGGATACTAGGAG	0.458																																																0													88	85	86					2																	168105759		1909	4120	6029	SO:0001819	synonymous_variant	129446			AK056582	CCDS42768.1, CCDS42769.1, CCDS56143.1, CCDS56144.1, CCDS56145.1	2q31.1	2013-10-25	2007-06-27	2007-06-27	ENSG00000163092	ENSG00000163092			14303	protein-coding gene	gene with protein product	"myomaxin"	609778	"cardiomyopathy associated 3"	CMYA3		17046827, 12203715, 15454575	Standard	NM_001079810		Approved		uc002udx.3	A4UGR9	OTTHUMG00000154027	ENST00000409195.1:c.7857G>A	2.37:g.168105759G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJ94|B2BBS0|B2BBS1|B2BBS4|B3KVH0|J3KNB1|Q53R52|Q5MJ67|Q702N7|Q86T36|Q86T38|Q86T46|Q86T51|Q86T53|Q86T55|Q86T79|Q86TB6|Q8N1M9|Q8N3R5|Q8TBV6	Silent	SNP	ENST00000409195.1	37	CCDS42769.1																																																																																				0.458	XIRP2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000333547.1	NM_152381		A	168105759	G	A	168105759	2	1	599	1	0	0	0	0	0	0	0	1	17442	1161	41	2		2	XIRP2	2	168105759	Silent	SNP	G	TCGA-GL-7966-01A-11D-2201-08	1904497	168105759	75093614	14	35870										
TTN	7273	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	179598482	179598482	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	aaagctcattttgatttttcCgtcttctctgatgacctctt	5	10	4	3	rs377754692		TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr2:179598482C>A	ENST00000591111.1	-	51	14907	c.14683G>T	c.(14683-14685)Gga>Tga	p.G4895*	TTN-AS1_ENST00000585451.1_RNA|TTN_ENST00000342992.6_Nonsense_Mutation_p.G3968*|TTN-AS1_ENST00000582847.1_RNA|TTN_ENST00000589042.1_Nonsense_Mutation_p.G5212*|TTN_ENST00000342175.6_Intron|TTN_ENST00000359218.5_Intron|TTN_ENST00000460472.2_Intron			Q8WZ42	TITIN_HUMAN	titin	12287	Ig-like 29.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTGATTTTTCCGTCTTCTCTG	0.453																																																0													199	188	191					2																	179598482		1906	4138	6044	SO:0001587	stop_gained	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.14683G>T	2.37:g.179598482C>A	ENSP00000465570:p.Gly4895*	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Nonsense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	C	54	22.899424	0.99951	.	.	ENSG00000155657	ENST00000342992	.	.	.	5.79	5.79	0.91817	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	.	11.0214	0.47720	0.0:0.8884:0.0:0.1116	.	.	.	.	X	3968	.	ENSP00000343764:G3968X	G	-	1	0	TTN	179306727	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	3.981000	0.56902	2.734000	0.93682	0.655000	0.94253	GGA		0.453	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		A	179598482	C	A	179598482	4	1	599	1	0	0	0	0	0	1	0	0	16747	661	23	4	89135	4	TTN	2	179598482	Nonsense_Mutation	SNP	C	TCGA-GL-7966-01A-11D-2201-08	11492723	179598482	63600891	15	35871										
SESTD1	91404	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	179986590	179986590	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	catcctttccataggcccagGatgcctgattggagatctga	10	11	1	3			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr2:179986590G>A	ENST00000428443.3	-	13	1665	c.1349C>T	c.(1348-1350)tCc>tTc	p.S450F		NM_178123.4	NP_835224.3	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	450							phosphatidic acid binding (GO:0070300)|phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)|phosphatidylinositol-3,5-bisphosphate binding (GO:0080025)|phosphatidylinositol-3-phosphate binding (GO:0032266)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|phosphatidylinositol-4-phosphate binding (GO:0070273)|phosphatidylinositol-5-phosphate binding (GO:0010314)			breast(2)|endometrium(4)|kidney(1)|large_intestine(9)|lung(10)|ovary(1)|skin(3)	30			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			ATAGGCCCAGGATGCCTGATT	0.393																																																0													109	106	107					2																	179986590		2203	4300	6503	SO:0001583	missense	91404			AK096232	CCDS33338.1	2q31.3	2014-01-28			ENSG00000187231	ENSG00000187231			18379	protein-coding gene	gene with protein product						12837271	Standard	NM_178123		Approved	DKFZp434O0515, Solo	uc002uni.4	Q86VW0	OTTHUMG00000154554	ENST00000428443.3:c.1349C>T	2.37:g.179986590G>A	ENSP00000415332:p.Ser450Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q53R38|Q53SP3|Q5GM69|Q8N6M1|Q96LQ2	Missense_Mutation	SNP	ENST00000428443.3	37	CCDS33338.1	.	.	.	.	.	.	.	.	.	.	G	24.6	4.547863	0.86022	.	.	ENSG00000187231	ENST00000428443	T	0.06371	3.31	5.18	5.18	0.71444	.	0.102206	0.64402	D	0.000001	T	0.06280	0.0162	N	0.24115	0.695	0.80722	D	1	P	0.50943	0.94	B	0.41571	0.36	T	0.50268	-0.8848	9	.	.	.	-0.0059	18.0499	0.89344	0.0:0.0:1.0:0.0	.	450	Q86VW0	SESD1_HUMAN	F	450	ENSP00000415332:S450F	.	S	-	2	0	SESTD1	179694835	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.023000	0.93683	2.584000	0.87258	0.467000	0.42956	TCC		0.393	SESTD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335916.2	NM_178123		A	179986590	G	A	179986590	3	1	599	1	0	0	0	0	1	0	0	0	14140	1174	41	2	765	2	SESTD1	2	179986590	Missense_Mutation	SNP	G	TCGA-GL-7966-01A-11D-2201-08	388108	179986590	63212783	16	35872										
ICA1L	130026	broad.mit.edu	37	chr2	203693626	203693626	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	ccaagtgctcatcctcttttTttcctgttgctttgataaag	6	10	2	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr2:203693626T>G	ENST00000392237.2	-	3	264	c.107A>C	c.(106-108)aAa>aCa	p.K36T	ICA1L_ENST00000425178.1_Missense_Mutation_p.K36T|ICA1L_ENST00000418208.1_Missense_Mutation_p.K36T|ICA1L_ENST00000358299.2_Missense_Mutation_p.K36T	NM_138468.4	NP_612477.3	Q8NDH6	ICA1L_HUMAN	islet cell autoantigen 1,69kDa-like	36										breast(1)|endometrium(1)|large_intestine(7)|lung(7)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	22						ATCCTCTTTTTTTCCTGTTGC	0.388																																																0													189	175	180					2																	203693626		2203	4300	6503	SO:0001583	missense	130026			AB053317	CCDS2354.1, CCDS74632.1	2q33	2008-02-05	2006-05-26	2006-05-26	ENSG00000163596	ENSG00000163596			14442	protein-coding gene	gene with protein product			"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 15", "amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 14"	ALS2CR15, ALS2CR14		11586298	Standard	NM_138468		Approved		uc002uzh.1	Q8NDH6	OTTHUMG00000132856	ENST00000392237.2:c.107A>C	2.37:g.203693626T>G	ENSP00000376070:p.Lys36Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRW6|Q53P45|Q53QZ4|Q53T97|Q96N47|Q96Q32|Q9BVQ2	Missense_Mutation	SNP	ENST00000392237.2	37	CCDS2354.1	.	.	.	.	.	.	.	.	.	.	T	17.10	3.302954	0.60195	.	.	ENSG00000163596	ENST00000392237;ENST00000358299;ENST00000420558;ENST00000425178;ENST00000418208;ENST00000450143;ENST00000435143;ENST00000419460;ENST00000441547;ENST00000412210;ENST00000457524;ENST00000432273;ENST00000416760;ENST00000454326;ENST00000411681;ENST00000421334	T;T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.78816	-1.21;-1.21;-1.21;-1.21;-1.21;-1.21;-1.21;-1.21;-1.21;-1.21;-1.21;-1.21;-1.21;-1.21;-1.21	6.02	4.84	0.62591	Arfaptin-like (1);	0.046952	0.85682	D	0.000000	D	0.84893	0.5573	M	0.66378	2.025	0.53688	D	0.999973	D;D	0.71674	0.979;0.998	D;D	0.75484	0.925;0.986	D	0.83552	0.0102	10	0.40728	T	0.16	.	10.553	0.45101	0.0:0.0766:0.0:0.9234	.	36;36	Q96Q33;Q8NDH6	.;ICA1L_HUMAN	T	36	ENSP00000376070:K36T;ENSP00000351047:K36T;ENSP00000400249:K36T;ENSP00000404189:K36T;ENSP00000412158:K36T;ENSP00000410747:K36T;ENSP00000405592:K36T;ENSP00000410135:K36T;ENSP00000404618:K36T;ENSP00000387382:K36T;ENSP00000404707:K36T;ENSP00000397827:K36T;ENSP00000392609:K36T;ENSP00000416726:K36T;ENSP00000409741:K36T	ENSP00000351047:K36T	K	-	2	0	ICA1L	203401871	1.000000	0.71417	0.998000	0.56505	0.998000	0.95712	6.187000	0.72039	1.064000	0.40671	0.528000	0.53228	AAA		0.388	ICA1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256330.1	NM_138468		G	203693626	T	G	203693626	3	3	599	1	0	0	0	0	1	0	0	0	7485	1841	64	5	1403	5	ICA1L	2	203693626	Missense_Mutation	SNP	T	TCGA-GL-7966-01A-11D-2201-08	23707036	203693626	39505747	17	35873										
ABCB6	10058	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	220074990	220074990	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	cagccatccttgatgacgagGatctggtcagcattgaccac	10	12	2	3			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr2:220074990G>A	ENST00000265316.3	-	18	2698	c.2382C>T	c.(2380-2382)atC>atT	p.I794I	ABCB6_ENST00000439002.2_Silent_p.I748I	NM_005689.2	NP_005680.1	Q9NP58	ABCB6_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP), member 6 (Langereis blood group)	794	ABC transporter. {ECO:0000255|PROSITE- ProRule:PRU00434}.				brain development (GO:0007420)|cellular iron ion homeostasis (GO:0006879)|heme transport (GO:0015886)|porphyrin-containing compound biosynthetic process (GO:0006779)|skin development (GO:0043588)|transmembrane transport (GO:0055085)|transport (GO:0006810)	ATP-binding cassette (ABC) transporter complex (GO:0043190)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of mitochondrial outer membrane (GO:0031307)|mitochondrial envelope (GO:0005740)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|efflux transmembrane transporter activity (GO:0015562)|heme binding (GO:0020037)|heme transporter activity (GO:0015232)|heme-transporting ATPase activity (GO:0015439)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(2)|large_intestine(9)|lung(9)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)	34		Renal(207;0.0474)		Epithelial(149;1.22e-06)|all cancers(144;0.000201)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGATGACGAGGATCTGGTCAG	0.562																																																0													102	97	99					2																	220074990		2203	4300	6503	SO:0001819	synonymous_variant	10058			AF070598	CCDS2436.1	2q36	2014-08-27	2014-08-27		ENSG00000115657	ENSG00000115657		"ATP binding cassette transporters / subfamily B"	47	protein-coding gene	gene with protein product	"ATP-binding cassette half-transporter"	605452	"ATP-binding cassette, sub-family B (MDR/TAP), member 6"			8894702, 9110174	Standard	NM_005689		Approved	EST45597, umat, MTABC3	uc002vkc.2	Q9NP58	OTTHUMG00000133131	ENST00000265316.3:c.2382C>T	2.37:g.220074990G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O75542|Q49A66|Q59GQ5|Q6ZME6|Q96ME8|Q9HAQ6|Q9HAQ7	Silent	SNP	ENST00000265316.3	37	CCDS2436.1	.	.	.	.	.	.	.	.	.	.	G	9.909	1.208939	0.22205	.	.	ENSG00000115657	ENST00000295750	.	.	.	4.83	0.378	0.16204	.	.	.	.	.	T	0.56062	0.1960	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.49579	-0.8925	4	.	.	.	-23.7644	9.3287	0.38008	0.3743:0.0:0.6257:0.0	.	.	.	.	F	642	.	.	S	-	2	0	ABCB6	219783234	1.000000	0.71417	0.992000	0.48379	0.984000	0.73092	0.893000	0.28336	0.171000	0.19730	-0.145000	0.13849	TCC		0.562	ABCB6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256820.2	NM_005689		A	220074990	G	A	220074990	2	1	599	1	0	0	0	0	0	0	0	1	45	1164	41	2		2	ABCB6	2	220074990	Silent	SNP	G	TCGA-GL-7966-01A-11D-2201-08	16381364	220074990	23124383	18	35874										
CNOT10	25904	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	32766999	32766999	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	ttgcatccattttgccatgaGcaagcacaatttgggaatat	8	8	0	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr3:32766999G>A	ENST00000328834.5	+	9	1236	c.920G>A	c.(919-921)aGc>aAc	p.S307N	CNOT10_ENST00000331889.6_Missense_Mutation_p.S307N|CNOT10_ENST00000463697.1_3'UTR|CNOT10_ENST00000454516.2_Missense_Mutation_p.S367N|CNOT10_ENST00000538368.1_Missense_Mutation_p.S79N	NM_015442.2	NP_056257.1	Q9H9A5	CNO10_HUMAN	CCR4-NOT transcription complex, subunit 10	307					gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|regulation of transcription, DNA-templated (GO:0006355)|regulation of translation (GO:0006417)|RNA metabolic process (GO:0016070)|transcription, DNA-templated (GO:0006351)	CCR4-NOT complex (GO:0030014)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)				breast(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(5)|prostate(1)|skin(3)	23						TTTGCCATGAGCAAGCACAAT	0.393																																																0													148	145	146					3																	32766999		2203	4300	6503	SO:0001583	missense	25904			BC002928	CCDS2655.1, CCDS58821.1, CCDS58822.1	3p23	2013-01-10			ENSG00000182973	ENSG00000182973		"Tetratricopeptide (TTC) repeat domain containing"	23817	protein-coding gene	gene with protein product							Standard	NR_046352		Approved	FLJ12890, FLJ13165	uc011axj.2	Q9H9A5	OTTHUMG00000130748	ENST00000328834.5:c.920G>A	3.37:g.32766999G>A	ENSP00000330060:p.Ser307Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7L1|F8WAF2|Q9BU30|Q9H5J7|Q9H8X1|Q9H9W0|Q9HAH3|Q9UFJ2	Missense_Mutation	SNP	ENST00000328834.5	37	CCDS2655.1	.	.	.	.	.	.	.	.	.	.	G	18.74	3.689299	0.68271	.	.	ENSG00000182973	ENST00000331889;ENST00000328834;ENST00000540405;ENST00000538368;ENST00000454516	T;T;T;T	0.61859	0.07;0.07;0.07;0.07	5.52	5.52	0.82312	Tetratricopeptide-like helical (1);	0.043732	0.85682	D	0.000000	T	0.39279	0.1072	N	0.03608	-0.345	0.47037	D	0.999297	B;B;B;B	0.17465	0.022;0.011;0.019;0.014	B;B;B;B	0.19946	0.027;0.012;0.019;0.02	T	0.23013	-1.0200	10	0.39692	T	0.17	-16.0206	19.4425	0.94827	0.0:0.0:1.0:0.0	.	367;307;306;307	F8WAF2;Q9H9A5-3;Q9H9A5-2;Q9H9A5	.;.;.;CNOTA_HUMAN	N	307;307;207;79;367	ENSP00000329376:S307N;ENSP00000330060:S307N;ENSP00000442552:S79N;ENSP00000399862:S367N	ENSP00000330060:S307N	S	+	2	0	CNOT10	32742003	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.348000	0.97062	2.594000	0.87642	0.655000	0.94253	AGC		0.393	CNOT10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253248.2	NM_015442		A	32766999	G	A	32766999	3	1	599	1	0	0	0	0	1	0	0	0	3620	971	34	2	954	2	CNOT10	3	32766999	Missense_Mutation	SNP	G	TCGA-GL-7966-01A-11D-2201-08		32766999	165255431	19	35875										
RAD54L2	23132	hgsc.bcm.edu;bcgsc.ca	37	chr3	51664392	51664392	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	gtggcagtgaggatgaaaaaAgcagtcgagatggtaagatc	15	4	0	4	rs562443962	byFrequency	TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr3:51664392A>G	ENST00000409535.2	+	5	711	c.586A>G	c.(586-588)Agc>Ggc	p.S196G	RAD54L2_ENST00000296477.3_Intron	NM_015106.2	NP_055921.2	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2 (S. cerevisiae)	196						nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|transcription cofactor activity (GO:0003712)			NS(2)|breast(1)|cervix(2)|endometrium(4)|large_intestine(5)|liver(2)|lung(9)|ovary(4)|skin(2)	31				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		GGATGAAAAAAGCAGTCGAGA	0.502																																																0													126	114	118					3																	51664392		2203	4300	6503	SO:0001583	missense	23132			AB018352	CCDS33765.2	3p21.2	2006-01-17			ENSG00000164080	ENSG00000164080			29123	protein-coding gene	gene with protein product						9872452	Standard	NM_015106		Approved	KIAA0809, SRISNF2L	uc011bdt.2	Q9Y4B4	OTTHUMG00000152936	ENST00000409535.2:c.586A>G	3.37:g.51664392A>G	ENSP00000386520:p.Ser196Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TB57|Q9BV54	Missense_Mutation	SNP	ENST00000409535.2	37	CCDS33765.2	.	.	.	.	.	.	.	.	.	.	A	13.31	2.197689	0.38806	.	.	ENSG00000164080	ENST00000409535	T	0.22539	1.95	5.92	4.77	0.60923	.	0.400829	0.31347	N	0.007812	T	0.07458	0.0188	N	0.01352	-0.895	0.80722	D	1	B	0.02656	0.0	B	0.01281	0.0	T	0.21586	-1.0241	10	0.22109	T	0.4	-10.2268	11.1025	0.48184	0.9282:0.0:0.0718:0.0	.	196	Q9Y4B4	ARIP4_HUMAN	G	196	ENSP00000386520:S196G	ENSP00000386520:S196G	S	+	1	0	RAD54L2	51639432	1.000000	0.71417	0.997000	0.53966	0.921000	0.55340	3.547000	0.53663	1.069000	0.40788	0.533000	0.62120	AGC		0.502	RAD54L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328700.2	NM_015106		G	51664392	A	G	51664392	3	3	599	1	0	0	0	0	1	0	0	0	13007	72	3	3	600	3	RAD54L2	3	51664392	Missense_Mutation	SNP	A	TCGA-GL-7966-01A-11D-2201-08	18897393	51664392	146358038	20	35876										
CHIC2	26511	hgsc.bcm.edu	37	chr4	54876297	54876297	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	aatcggtgtctttggtaaaaAttctatgaggatgacctgta	10	5	2	2			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr4:54876297A>C	ENST00000263921.3	-	6	852	c.463T>G	c.(463-465)Ttt>Gtt	p.F155V	FIP1L1_ENST00000507166.1_Intron|CHIC2_ENST00000512964.1_Missense_Mutation_p.F136V	NM_012110.3	NP_036242.1	Q9UKJ5	CHIC2_HUMAN	cysteine-rich hydrophobic domain 2	155						Golgi-associated vesicle (GO:0005798)|plasma membrane (GO:0005886)				breast(1)|central_nervous_system(1)|large_intestine(1)|lung(1)	4	all_cancers(7;0.0193)|all_neural(26;0.0209)|Lung NSC(11;0.0281)|Glioma(25;0.08)		LUSC - Lung squamous cell carcinoma(32;0.00216)			TTTGGTAAAAATTCTATGAGG	0.299			T	ETV6	AML																																		Dom	yes		4	4q11-q12	26511	cysteine-rich hydrophobic domain 2		L	0													49	51	51					4																	54876297		2203	4299	6502	SO:0001583	missense	26511			AF159423	CCDS3493.1	4q12	2013-09-04			ENSG00000109220	ENSG00000109220			1935	protein-coding gene	gene with protein product		604332				10477709	Standard	NM_012110		Approved	BTL	uc003haj.2	Q9UKJ5	OTTHUMG00000102101	ENST00000263921.3:c.463T>G	4.37:g.54876297A>C	ENSP00000263921:p.Phe155Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R639	Missense_Mutation	SNP	ENST00000263921.3	37	CCDS3493.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	15.06|15.06	2.720392|2.720392	0.48728|0.48728	.|.	.|.	ENSG00000109220|ENSG00000109220	ENST00000263921;ENST00000512964|ENST00000510894	.|.	.|.	.|.	5.75|5.75	5.75|5.75	0.90469|0.90469	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.72985|0.72985	0.3529|0.3529	M|M	0.65498|0.65498	2.005|2.005	0.80722|0.80722	D|D	1|1	B|.	0.14012|.	0.009|.	B|.	0.19391|.	0.025|.	T|T	0.72283|0.72283	-0.4339|-0.4339	9|5	0.45353|.	T|.	0.12|.	.|.	16.0516|16.0516	0.80765|0.80765	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	155|.	Q9UKJ5|.	CHIC2_HUMAN|.	V|S	155;136|126	.|.	ENSP00000263921:F155V|.	F|I	-|-	1|2	0|0	CHIC2|CHIC2	54571054|54571054	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	8.509000|8.509000	0.90529|0.90529	2.181000|2.181000	0.69327|0.69327	0.455000|0.455000	0.32223|0.32223	TTT|ATT		0.299	CHIC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219937.2			C	54876297	A	C	54876297	3	2	599	1	0	0	0	0	1	0	0	0	3346	101	4	5	38	5	CHIC2	4	54876297	Missense_Mutation	SNP	A	TCGA-GL-7966-01A-11D-2201-08		54876297	136277979	21	35877										
FHDC1	85462	bcgsc.ca	37	chr4	153886112	153886112	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	ttcagaaaaattgcatcatgTtcagaagactgctaggtgag	10	6	3	4			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr4:153886112T>C	ENST00000511601.1	+	9	1273	c.1085T>C	c.(1084-1086)gTt>gCt	p.V362A	FHDC1_ENST00000260008.3_Missense_Mutation_p.V362A			Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	362	FH2. {ECO:0000255|PROSITE- ProRule:PRU00774}.								ARFIP1/FHDC1(2)	NS(2)|breast(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(7)|liver(2)|lung(14)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	43	all_hematologic(180;0.093)					TTGCATCATGTTCAGAAGACT	0.313																																																0													72	78	76					4																	153886112		2203	4298	6501	SO:0001583	missense	85462			AB051514	CCDS34081.1	4q31.3	2014-02-12	2007-11-29		ENSG00000137460	ENSG00000137460			29363	protein-coding gene	gene with protein product						15138637	Standard	NM_033393		Approved	KIAA1727	uc003inf.2	Q9C0D6	OTTHUMG00000161452	ENST00000511601.1:c.1085T>C	4.37:g.153886112T>C	ENSP00000427567:p.Val362Ala	Somatic		WXS	Illumina HiSeq	Phase_1		Missense_Mutation	SNP	ENST00000511601.1	37	CCDS34081.1	.	.	.	.	.	.	.	.	.	.	T	17.11	3.305972	0.60305	.	.	ENSG00000137460	ENST00000511601;ENST00000260008	T;T	0.63744	-0.06;-0.06	5.49	5.49	0.81192	Actin-binding FH2/DRF autoregulatory (1);Actin-binding FH2 (3);	0.349721	0.28431	N	0.015377	D	0.82282	0.5003	M	0.88570	2.965	0.58432	D	0.999997	D	0.89917	1.0	D	0.79784	0.993	D	0.85958	0.1468	10	0.87932	D	0	.	15.8895	0.79286	0.0:0.0:0.0:1.0	.	362	Q9C0D6	FHDC1_HUMAN	A	362	ENSP00000427567:V362A;ENSP00000260008:V362A	ENSP00000260008:V362A	V	+	2	0	FHDC1	154105562	1.000000	0.71417	0.969000	0.41365	0.621000	0.37620	7.317000	0.79018	2.207000	0.71202	0.533000	0.62120	GTT		0.313	FHDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364981.2	NM_033393		C	153886112	T	C	153886112	3	2	599	1	0	0	0	0	1	0	0	0	5883	1725	60	3	1115	3	FHDC1	4	153886112	Missense_Mutation	SNP	T	TCGA-GL-7966-01A-11D-2201-08	99009815	153886112	37268164	22	35878										
TAS2R1	50834	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	9629374	9629374	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	aggatgaagaacagaaagatGaaccttctgatgtgaaactt	10	5	1	7			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr5:9629374G>A	ENST00000382492.2	-	1	1089	c.771C>T	c.(769-771)ttC>ttT	p.F257F	CTD-2001E22.1_ENST00000504182.2_RNA	NM_019599.2	NP_062545.1	Q9NYW7	TA2R1_HUMAN	taste receptor, type 2, member 1	257					chemosensory behavior (GO:0007635)|detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)|G-protein coupled receptor signaling pathway (GO:0007186)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)|taste receptor activity (GO:0008527)			breast(5)|central_nervous_system(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(19)|ovary(3)|prostate(1)|skin(1)|stomach(1)	39						ACAGAAAGATGAACCTTCTGA	0.378																																																0													97	101	100					5																	9629374		2203	4300	6503	SO:0001819	synonymous_variant	50834			AF227129	CCDS3876.1	5p15	2012-08-22			ENSG00000169777	ENSG00000169777		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	14909	protein-coding gene	gene with protein product		604796				10761934, 10766242	Standard	NM_019599		Approved	T2R1, TRB7	uc003jem.1	Q9NYW7	OTTHUMG00000090500	ENST00000382492.2:c.771C>T	5.37:g.9629374G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q646G8	Silent	SNP	ENST00000382492.2	37	CCDS3876.1																																																																																				0.378	TAS2R1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206988.2			A	9629374	G	A	9629374	2	1	599	1	0	0	0	0	0	0	0	1	15577	1281	45	2		2	TAS2R1	5	9629374	Silent	SNP	G	TCGA-GL-7966-01A-11D-2201-08		9629374	171285886	23	35879										
HCN1	348980	ucsc.edu	37	chr5	45461992	45461992	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	gcaatctggtgggaagtcctGcagtagtggtactaagaact	13	7	1	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr5:45461992G>A	ENST00000303230.4	-	3	1024	c.967C>T	c.(967-969)Cag>Tag	p.Q323*		NM_021072.3	NP_066550.2	O60741	HCN1_HUMAN	hyperpolarization activated cyclic nucleotide-gated potassium channel 1	323					apical protein localization (GO:0045176)|cellular response to cAMP (GO:0071320)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|regulation of membrane potential (GO:0042391)|retinal cone cell development (GO:0046549)|sodium ion transmembrane transport (GO:0035725)|synaptic transmission (GO:0007268)	axon (GO:0030424)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cAMP binding (GO:0030552)|intracellular cAMP activated cation channel activity (GO:0005222)|potassium channel activity (GO:0005267)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated sodium channel activity (GO:0005248)			NS(3)|breast(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(21)|liver(1)|lung(98)|ovary(1)|prostate(7)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(5)	156						GGGAAGTCCTGCAGTAGTGGT	0.428																																																0													75	74	74					5																	45461992		2203	4300	6503	SO:0001587	stop_gained	348980			AF064876	CCDS3952.1	5p12	2011-07-05			ENSG00000164588	ENSG00000164588		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	4845	protein-coding gene	gene with protein product		602780		BCNG1		9405696, 9630217, 16382102	Standard	NM_021072		Approved	BCNG-1, HAC-2	uc003jok.3	O60741	OTTHUMG00000131155	ENST00000303230.4:c.967C>T	5.37:g.45461992G>A	ENSP00000307342:p.Gln323*	Somatic		WXS	Illumina HiSeq			Nonsense_Mutation	SNP	ENST00000303230.4	37	CCDS3952.1	.	.	.	.	.	.	.	.	.	.	G	38	6.874056	0.97901	.	.	ENSG00000164588	ENST00000303230	.	.	.	5.73	5.73	0.89815	.	0.000000	0.64402	D	0.000009	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.72032	D	0.01	.	19.8983	0.96975	0.0:0.0:1.0:0.0	.	.	.	.	X	323	.	ENSP00000307342:Q323X	Q	-	1	0	HCN1	45497749	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	9.857000	0.99534	2.718000	0.92993	0.650000	0.86243	CAG		0.428	HCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253847.1	NM_021072		A	45461992	G	A	45461992	4	1	599	1	0	0	0	0	0	1	0	0	7003	1328	46	2	1729	2	HCN1	5	45461992	Nonsense_Mutation	SNP	G	TCGA-GL-7966-01A-11D-2201-08	35832618	45461992	135453268	24	35880										
SHROOM1	134549	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	132161119	132161119	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	tcacccaggcattcccgcgcCggcccaccgccccgacccac	8	24	1	0			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr5:132161119C>T	ENST00000378679.3	-	4	1518	c.714G>A	c.(712-714)ccG>ccA	p.P238P	SHROOM1_ENST00000378676.1_Silent_p.P238P|SHROOM1_ENST00000319854.3_Silent_p.P238P|SHROOM1_ENST00000488072.1_5'Flank	NM_001172700.1	NP_001166171.1	Q2M3G4	SHRM1_HUMAN	shroom family member 1	238					actin filament bundle assembly (GO:0051017)|cell morphogenesis (GO:0000902)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|myosin II complex (GO:0016460)	actin filament binding (GO:0051015)			endometrium(1)|kidney(4)|large_intestine(2)|lung(4)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	17			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ATTCCCGCGCCGGCCCACCGC	0.682																																																0																																										SO:0001819	synonymous_variant	134549			AF314142	CCDS4161.1, CCDS54902.1	5q31.1	2007-05-03			ENSG00000164403	ENSG00000164403			24084	protein-coding gene	gene with protein product		611179				11853319, 16615870	Standard	NM_133456		Approved	APXL2, KIAA1960	uc003kxy.2	Q2M3G4	OTTHUMG00000059835	ENST00000378679.3:c.714G>A	5.37:g.132161119C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7WP40|B7ZL01|Q8TDP0|Q8TF41	Silent	SNP	ENST00000378679.3	37	CCDS54902.1																																																																																				0.682	SHROOM1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000133033.1	NM_133456		T	132161119	C	T	132161119	2	4	599	1	0	0	0	0	0	0	0	1	14306	639	23	1		1	SHROOM1	5	132161119	Silent	SNP	C	TCGA-GL-7966-01A-11D-2201-08	86699127	132161119	48754141	25	35881										
PCDHGA2	56113	broad.mit.edu	37	chr5	140720783	140720783	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	gcgtggacggggttcgggctTtcctgcagacctattcccac	13	13	0	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr5:140720783T>G	ENST00000394576.2	+	1	2245	c.2245T>G	c.(2245-2247)Ttc>Gtc	p.F749V	PCDHGA1_ENST00000517417.1_Intron|PCDHGA3_ENST00000253812.6_5'Flank	NM_018915.2	NP_061738.1	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2	749					homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(20)|lung(32)|ovary(1)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	77			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTTCGGGCTTTCCTGCAGAC	0.627																																																0													72	76	75					5																	140720783		2203	4300	6503	SO:0001583	missense	56113			AF152508	CCDS47289.1	5q31	2011-03-28			ENSG00000081853	ENSG00000081853		"Cadherins / Protocadherins : Clustered"	8700	other	protocadherin		606289				10380929	Standard	NM_018915		Approved	PCDH-GAMMA-A2		Q9Y5H1	OTTHUMG00000163679	ENST00000394576.2:c.2245T>G	5.37:g.140720783T>G	ENSP00000378077:p.Phe749Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LL6|Q9Y5D5	Missense_Mutation	SNP	ENST00000394576.2	37	CCDS47289.1	.	.	.	.	.	.	.	.	.	.	.	14.19	2.460361	0.43736	.	.	ENSG00000081853	ENST00000394576	T	0.44482	0.92	5.39	5.39	0.77823	.	0.000000	0.43579	U	0.000547	T	0.70011	0.3175	H	0.94542	3.55	0.25255	N	0.989647	D;D	0.62365	0.989;0.991	D;P	0.66847	0.947;0.852	T	0.69457	-0.5140	10	0.66056	D	0.02	.	9.5959	0.39573	0.0:0.0792:0.0:0.9208	.	749;749	Q9Y5H1-2;Q9Y5H1	.;PCDG2_HUMAN	V	749	ENSP00000378077:F749V	ENSP00000378077:F749V	F	+	1	0	PCDHGA2	140700967	0.001000	0.12720	0.914000	0.36105	0.053000	0.15095	0.253000	0.18296	2.051000	0.60960	0.402000	0.26972	TTC		0.627	PCDHGA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374738.1	NM_018915		G	140720783	T	G	140720783	3	3	599	1	0	0	0	0	1	0	0	0	11561	1841	64	5	2247	5	PCDHGA2	5	140720783	Missense_Mutation	SNP	T	TCGA-GL-7966-01A-11D-2201-08	8559664	140720783	40194477	26	35882										
RUNX2	860	hgsc.bcm.edu	37	chr6	45390482	45390482	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	agcaacagcagcagcagcagCaggaggcggcggcggcggct	18	12	0	0			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr6:45390482C>G	ENST00000371438.1	+	2	569	c.211C>G	c.(211-213)Cag>Gag	p.Q71E	RUNX2_ENST00000371436.6_Missense_Mutation_p.Q71E|RUNX2_ENST00000541979.1_Missense_Mutation_p.Q139E|RUNX2_ENST00000576263.1_Missense_Mutation_p.Q71E|RUNX2_ENST00000371432.3_Missense_Mutation_p.Q57E|RP1-244F24.1_ENST00000606796.1_RNA|RUNX2_ENST00000352853.5_Missense_Mutation_p.Q139E|RUNX2_ENST00000465038.2_Missense_Mutation_p.Q71E|RUNX2_ENST00000359524.5_Missense_Mutation_p.Q57E	NM_001024630.3	NP_001019801.3	Q13950	RUNX2_HUMAN	runt-related transcription factor 2	71	Poly-Gln.				BMP signaling pathway (GO:0030509)|cell maturation (GO:0048469)|cellular response to BMP stimulus (GO:0071773)|chondrocyte development (GO:0002063)|embryonic cranial skeleton morphogenesis (GO:0048701)|embryonic forelimb morphogenesis (GO:0035115)|endochondral ossification (GO:0001958)|gene expression (GO:0010467)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription, DNA-templated (GO:0045892)|odontogenesis of dentin-containing tooth (GO:0042475)|ossification (GO:0001503)|osteoblast development (GO:0002076)|osteoblast differentiation (GO:0001649)|osteoblast fate commitment (GO:0002051)|positive regulation of cell proliferation (GO:0008284)|positive regulation of chondrocyte differentiation (GO:0032332)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus (GO:1901522)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of fibroblast growth factor receptor signaling pathway (GO:0040036)|regulation of odontogenesis of dentin-containing tooth (GO:0042487)|stem cell differentiation (GO:0048863)|T cell differentiation (GO:0030217)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|endometrium(2)|kidney(1)|large_intestine(5)|liver(1)|lung(18)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	34						gcagcagcagcaggaggcggc	0.716																																																0													6	10	9					6																	45390482		1279	2789	4068	SO:0001583	missense	860			AF001450	CCDS43467.1, CCDS43468.1, CCDS43467.2, CCDS43468.2	6p21	2010-08-20			ENSG00000124813	ENSG00000124813			10472	protein-coding gene	gene with protein product		600211		CCD, CBFA1, CCD1		7835892	Standard	NM_001024630		Approved	AML3, PEBP2A1, PEBP2aA1	uc011dvx.2	Q13950	OTTHUMG00000014774	ENST00000371438.1:c.211C>G	6.37:g.45390482C>G	ENSP00000360493:p.Gln71Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O14614|O14615|O95181	Missense_Mutation	SNP	ENST00000371438.1	37	CCDS43467.2	.	.	.	.	.	.	.	.	.	.	C	12.60	1.985548	0.35036	.	.	ENSG00000124813	ENST00000465038;ENST00000352853;ENST00000541979;ENST00000371438;ENST00000371436;ENST00000359524;ENST00000371432	T;T;T;T;T;T;T	0.61742	0.08;0.08;0.08;0.08;0.08;0.08;0.08	3.45	3.45	0.39498	.	1.972660	0.03402	N	0.203449	T	0.19248	0.0462	N	0.14661	0.345	0.27094	N	0.962779	B;B;B	0.23806	0.033;0.055;0.091	B;B;B	0.20384	0.029;0.013;0.029	T	0.13818	-1.0495	10	0.02654	T	1	.	14.8379	0.70197	0.0:1.0:0.0:0.0	.	139;71;57	F6RGB9;Q13950;Q13950-2	.;RUNX2_HUMAN;.	E	71;139;139;71;71;57;57	ENSP00000420707:Q71E;ENSP00000319087:Q139E;ENSP00000446290:Q139E;ENSP00000360493:Q71E;ENSP00000360491:Q71E;ENSP00000352514:Q57E;ENSP00000360486:Q57E	ENSP00000319087:Q139E	Q	+	1	0	RUNX2	45498460	1.000000	0.71417	1.000000	0.80357	0.966000	0.64601	1.268000	0.33062	1.622000	0.50330	0.407000	0.27541	CAG		0.716	RUNX2-003	KNOWN	not_organism_supported|upstream_ATG|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040755.2	NM_004348		G	45390482	C	G	45390482	3	3	599	1	0	0	0	0	1	0	0	0	13761	711	25	4	233	4	RUNX2	6	45390482	Missense_Mutation	SNP	C	TCGA-GL-7966-01A-11D-2201-08		45390482	125724585	27	35883										
MTHFD1L	25902	hgsc.bcm.edu	37	chr6	151358132	151358132	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	tttgcccatctgcatggcaaAgacccacctttctctatctc	5	15	3	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr6:151358132A>G	ENST00000367321.3	+	26	3000	c.2726A>G	c.(2725-2727)aAg>aGg	p.K909R	AL133260.1_ENST00000408542.1_RNA	NM_001242767.1|NM_001242768.1|NM_015440.4	NP_001229696.1|NP_001229697.1|NP_056255.2	Q6UB35	C1TM_HUMAN	methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 1-like	909	Formyltetrahydrofolate synthetase.				folic acid-containing compound biosynthetic process (GO:0009396)|folic acid-containing compound metabolic process (GO:0006760)|formate metabolic process (GO:0015942)|one-carbon metabolic process (GO:0006730)|oxidation-reduction process (GO:0055114)|tetrahydrofolate interconversion (GO:0035999)|tetrahydrofolate metabolic process (GO:0046653)	membrane (GO:0016020)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|formate-tetrahydrofolate ligase activity (GO:0004329)|protein homodimerization activity (GO:0042803)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(12)|lung(8)|ovary(3)|prostate(1)|upper_aerodigestive_tract(2)	29		Ovarian(120;0.128)		OV - Ovarian serous cystadenocarcinoma(155;8.7e-12)		TGCATGGCAAAGACCCACCTT	0.463																																																0													85	79	81					6																	151358132		2203	4300	6503	SO:0001583	missense	25902			BC017477	CCDS5228.1, CCDS56457.1, CCDS75535.1, CCDS75536.1	6q25.1	2010-07-19	2004-12-13	2004-12-14	ENSG00000120254	ENSG00000120254	6.3.4.3		21055	protein-coding gene	gene with protein product	"10-formyl-THF synthetase", "mitochondrial C1-tetrahydrofolate synthase", "monofunctional C1-tetrahydrofolate synthase, mitochondrial"	611427	"formyltetrahydrofolate synthetase domain containing 1"	FTHFSDC1		18804703	Standard	NM_015440		Approved	DKFZP586G1517, FLJ21145	uc021zgs.1	Q6UB35	OTTHUMG00000015828	ENST00000367321.3:c.2726A>G	6.37:g.151358132A>G	ENSP00000356290:p.Lys909Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q2TBF3|Q8WVW0|Q96HG8|Q9H789|Q9UFU8	Missense_Mutation	SNP	ENST00000367321.3	37	CCDS5228.1	.	.	.	.	.	.	.	.	.	.	A	28.8	4.951688	0.92660	.	.	ENSG00000120254	ENST00000367321;ENST00000453602;ENST00000450635	T;T;T	0.39787	1.06;1.06;1.06	5.27	5.27	0.74061	.	0.000000	0.85682	D	0.000000	T	0.73297	0.3569	H	0.97918	4.105	0.80722	D	1	D;D;D	0.89917	1.0;0.994;1.0	D;D;D	0.91635	0.999;0.914;0.999	D	0.84465	0.0596	10	0.72032	D	0.01	.	15.1893	0.73032	1.0:0.0:0.0:0.0	.	910;664;909	B7ZM99;B2RD24;Q6UB35	.;.;C1TM_HUMAN	R	909;34;8	ENSP00000356290:K909R;ENSP00000391022:K34R;ENSP00000399804:K8R	ENSP00000356290:K909R	K	+	2	0	MTHFD1L	151399825	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.339000	0.96797	1.974000	0.57490	0.533000	0.62120	AAG		0.463	MTHFD1L-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042699.1	NM_015440		G	151358132	A	G	151358132	3	3	599	1	0	0	0	0	1	0	0	0	9935	72	3	3	2828	3	MTHFD1L	6	151358132	Missense_Mutation	SNP	A	TCGA-GL-7966-01A-11D-2201-08	105967650	151358132	19756935	28	35884										
EPHB6	2051	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	142561393	142561393	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	tcttatttctgggcagaggtAttgctggacaccaccggaga	12	9	2	2			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr7:142561393A>T	ENST00000392957.2	+	6	892	c.105A>T	c.(103-105)gtA>gtT	p.V35V	EPHB6_ENST00000411471.2_Intron|EPHB6_ENST00000442129.1_Silent_p.V35V	NM_004445.3	NP_004436.3	O15197	EPHB6_HUMAN	EPH receptor B6	35	Eph LBD. {ECO:0000255|PROSITE- ProRule:PRU00883}.					extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)	ATP binding (GO:0005524)|ephrin receptor activity (GO:0005003)|receptor activity (GO:0004872)			NS(1)|breast(1)|central_nervous_system(4)|cervix(1)|endometrium(5)|kidney(4)|large_intestine(9)|lung(46)|ovary(2)|pancreas(2)|prostate(1)|skin(9)|stomach(1)|upper_aerodigestive_tract(1)	87	Melanoma(164;0.059)					GGGCAGAGGTATTGCTGGACA	0.582																																																0													79	75	76					7																	142561393		2203	4300	6503	SO:0001819	synonymous_variant	2051			D83492	CCDS5873.2, CCDS75672.1	7q33-q35	2013-02-11	2004-10-28		ENSG00000106123	ENSG00000106123		"EPH receptors", "Sterile alpha motif (SAM) domain containing", "Fibronectin type III domain containing"	3396	protein-coding gene	gene with protein product		602757	"EphB6"				Standard	XM_006715881		Approved	HEP	uc011kst.2	O15197	OTTHUMG00000155707	ENST00000392957.2:c.105A>T	7.37:g.142561393A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4D2I7|A8CDT5|D3DXD3|Q2TB23|Q2TB24	Silent	SNP	ENST00000392957.2	37	CCDS5873.2																																																																																				0.582	EPHB6-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341329.1			T	142561393	A	T	142561393	2	4	599	1	0	0	0	0	0	0	0	1	5180	436	16	5		5	EPHB6	7	142561393	Silent	SNP	A	TCGA-GL-7966-01A-11D-2201-08		142561393	16577270	29	35885										
COL22A1	169044	broad.mit.edu	37	chr8	139767734	139767734	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	gtgcctcttacctgttccccTttcaagccctcttgctgcac	6	17	3	0			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr8:139767734T>C	ENST00000303045.6	-	20	2414	c.1968A>G	c.(1966-1968)aaA>aaG	p.K656K	COL22A1_ENST00000435777.1_Silent_p.K656K	NM_152888.1	NP_690848.1	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	656	Gly-rich.|Pro-rich.				extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)				breast(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(14)|large_intestine(29)|lung(107)|ovary(13)|pancreas(1)|prostate(3)|skin(12)|upper_aerodigestive_tract(15)|urinary_tract(4)	211	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)			CCTGTTCCCCTTTCAAGCCCT	0.507										HNSCC(7;0.00092)																																						0													327	284	299					8																	139767734		2203	4300	6503	SO:0001819	synonymous_variant	169044			AF406780	CCDS6376.1	8q24.3	2013-01-16			ENSG00000169436	ENSG00000169436		"Collagens"	22989	protein-coding gene	gene with protein product		610026					Standard	NM_152888		Approved		uc003yvd.3	Q8NFW1	OTTHUMG00000150035	ENST00000303045.6:c.1968A>G	8.37:g.139767734T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZMH0|C9K0G4|Q8IVT9	Silent	SNP	ENST00000303045.6	37	CCDS6376.1																																																																																				0.507	COL22A1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000315905.2	XM_291257		C	139767734	T	C	139767734	2	2	599	1	0	0	0	0	0	0	0	1	3683	1606	56	3		3	COL22A1	8	139767734	Silent	SNP	T	TCGA-GL-7966-01A-11D-2201-08		139767734	6596288	30	35886										
KIAA1984	84960	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	139694856	139694856	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	cccagatcatccgccagctgGagaacaacatcgagaagaca	9	13	1	4	rs544497218	byFrequency	TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr9:139694856G>A	ENST00000338005.6	+	5	489	c.454G>A	c.(454-456)Gag>Aag	p.E152K	KIAA1984_ENST00000371682.3_3'UTR|RP11-216L13.19_ENST00000415992.1_RNA|RP11-216L13.17_ENST00000456614.2_Missense_Mutation_p.E182K|RP11-216L13.18_ENST00000471502.1_RNA	NM_001039374.4	NP_001034463.4	Q5T5S1	CC183_HUMAN		152										biliary_tract(1)|breast(1)|endometrium(1)|kidney(2)|lung(4)|ovary(1)|pancreas(1)|prostate(1)|urinary_tract(1)	13	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;9.33e-06)|Epithelial(140;0.000124)		CCGCCAGCTGGAGAACAACAT	0.602													G|||	3	0.000599042	0.0	0.0	5008	,	,		10479	0.0		0.0	False		,,,				2504	0.0031															0																																										SO:0001583	missense	84960																														ENST00000338005.6:c.454G>A	9.37:g.139694856G>A	ENSP00000338013:p.Glu152Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP89|C9JD38|Q6P2D9|Q8NAI4|Q8TF18	Missense_Mutation	SNP	ENST00000338005.6	37	CCDS43906.1	.	.	.	.	.	.	.	.	.	.	G	31	5.059818	0.93846	.	.	ENSG00000213213	ENST00000423962;ENST00000338005	T	0.31510	1.49	4.19	4.19	0.49359	.	0.000000	0.41823	U	0.000810	T	0.50086	0.1595	M	0.61703	1.905	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	T	0.49360	-0.8948	10	0.48119	T	0.1	-24.9723	12.0196	0.53336	0.0:0.0:1.0:0.0	.	152	Q5T5S1	K1984_HUMAN	K	152	ENSP00000338013:E152K	ENSP00000338013:E152K	E	+	1	0	KIAA1984	138814677	1.000000	0.71417	1.000000	0.80357	0.898000	0.52572	3.494000	0.53273	1.873000	0.54277	0.305000	0.20034	GAG		0.602	KIAA1984-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354899.1			A	139694856	G	A	139694856	3	1	599	1	0	0	0	0	1	0	0	0	8273	1175	41	2	472	2	KIAA1984	9	139694856	Missense_Mutation	SNP	G	TCGA-GL-7966-01A-11D-2201-08		139694856	1518575	31	35887										
C11orf80	79703	hgsc.bcm.edu;broad.mit.edu	37	chr11	66555634	66555634	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	catttcttctcacacagaaaTacagtccatactgcccggaa	5	13	2	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr11:66555634T>C	ENST00000360962.4	+	5	534	c.527T>C	c.(526-528)aTa>aCa	p.I176T	C11orf80_ENST00000527634.1_Intron|C11orf80_ENST00000532565.2_5'UTR|C11orf80_ENST00000540737.1_Missense_Mutation_p.I10T|C11orf80_ENST00000525449.2_Missense_Mutation_p.I21T|C11orf80_ENST00000346672.4_Missense_Mutation_p.I21T|C11orf80_ENST00000527368.1_3'UTR	NM_024650.3	NP_078926.3	Q8N6T0	CK080_HUMAN	chromosome 11 open reading frame 80	176										autonomic_ganglia(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(4)|ovary(1)|skin(1)|urinary_tract(1)	14						CACACAGAAATACAGTCCATA	0.433																																																0													78	72	74					11																	66555634		1872	4107	5979	SO:0001583	missense	79703					11q13.2	2012-05-30			ENSG00000173715	ENSG00000173715			26197	protein-coding gene	gene with protein product						18160775	Standard	NM_024650		Approved	FLJ22531	uc021qmd.1	Q8N6T0	OTTHUMG00000167164	ENST00000360962.4:c.527T>C	11.37:g.66555634T>C	ENSP00000354227:p.Ile176Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H677	Missense_Mutation	SNP	ENST00000360962.4	37	CCDS53664.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	12.06|12.06	1.823474|1.823474	0.32237|0.32237	.|.	.|.	ENSG00000173715|ENSG00000173715	ENST00000525908;ENST00000360962;ENST00000346672;ENST00000528340;ENST00000540737;ENST00000525449|ENST00000532089	T;T|.	0.38560|.	1.13;1.14|.	5.38|5.38	4.26|4.26	0.50523|0.50523	.|.	0.346678|.	0.24542|.	N|.	0.037636|.	T|T	0.31513|0.31513	0.0799|0.0799	L|L	0.27053|0.27053	0.805|0.805	0.25537|0.25537	N|N	0.987218|0.987218	P|.	0.46512|.	0.879|.	P|.	0.48677|.	0.586|.	T|T	0.19614|0.19614	-1.0300|-1.0300	10|5	0.72032|.	D|.	0.01|.	.|.	7.6859|7.6859	0.28540|0.28540	0.0:0.0949:0.0:0.9051|0.0:0.0949:0.0:0.9051	.|.	10|.	E9PKZ8|.	.|.	T|H	127;176;21;10;10;21|2	ENSP00000432039:I127T;ENSP00000354227:I176T|.	ENSP00000317408:I21T|.	I|Y	+|+	2|1	0|0	C11orf80|C11orf80	66312210|66312210	0.770000|0.770000	0.28543|0.28543	0.546000|0.546000	0.28166|0.28166	0.821000|0.821000	0.46438|0.46438	2.127000|2.127000	0.42035|0.42035	0.910000|0.910000	0.36722|0.36722	0.533000|0.533000	0.62120|0.62120	ATA|TAC		0.433	C11orf80-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_024650		C	66555634	T	C	66555634	3	2	599	1	0	0	0	0	1	0	0	0	1666	1406	49	3	545	3	C11orf80	11	66555634	Missense_Mutation	SNP	T	TCGA-GL-7966-01A-11D-2201-08		66555634	68450882	32	35888										
KLHL35	283212	broad.mit.edu	37	chr11	75140917	75140917	+	Frame_Shift_Del	DEL	A	A	-													0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	cgtccgcctccaccttctccAggaagtaagcgggcgccagt							TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr11:75140917delA	ENST00000539798.1	-	1	757	c.758delT	c.(757-759)ctgfs	p.L253fs	KLHL35_ENST00000376292.4_Frame_Shift_Del_p.L33fs	NM_001039548.2	NP_001034637.2	Q6PF15	KLH35_HUMAN	kelch-like family member 35	253										lung(2)|stomach(1)	3						CACCTTCTCCAGGAAGTAAGC	0.751																																					Colon(77;683 1691 18820 23811)											0													3	4	4					11																	75140917		1441	3421	4862	SO:0001589	frameshift_variant	283212				CCDS44685.1, CCDS44685.2	11q13.4	2013-02-22	2013-02-22		ENSG00000149243	ENSG00000149243		"Kelch-like", "BTB/POZ domain containing"	26597	protein-coding gene	gene with protein product			"kelch-like 35 (Drosophila)"				Standard	NM_001039548		Approved	FLJ33790	uc001owm.2	Q6PF15	OTTHUMG00000133573	ENST00000539798.1:c.758delT	11.37:g.75140917delA	ENSP00000438526:p.Leu253fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU06|F5H412|Q86XM7|Q8NBB1	Frame_Shift_Del	DEL	ENST00000539798.1	37	CCDS44685.2																																																																																				0.751	KLHL35-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_173583		-	75140917	A	-	75140917	7	5	599	1	0	1	0	1	0	0	0	0	8395	188	7	0	1017	0	KLHL35	11	75140917	Frame_Shift_Del	DEL	A	TCGA-GL-7966-01A-11D-2201-08	8585283	75140917	59865599	33	35889										
PUS3	83480	broad.mit.edu	37	chr11	125766029	125766029	+	Frame_Shift_Del	DEL	T	T	-													0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	gaaatcaaatgcacgcttagTttttccagctcctgctgaat							TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr11:125766029delT	ENST00000530811.1	-	1	196	c.151delA	c.(151-153)actfs	p.T51fs	HYLS1_ENST00000425380.2_Intron|HYLS1_ENST00000526028.1_Intron|HYLS1_ENST00000356438.3_Intron|PUS3_ENST00000227474.3_Frame_Shift_Del_p.T51fs			Q9BZE2	PUS3_HUMAN	pseudouridylate synthase 3	51					tRNA pseudouridine synthesis (GO:0031119)	nucleus (GO:0005634)	pseudouridine synthase activity (GO:0009982)|RNA binding (GO:0003723)			NS(1)|large_intestine(3)|lung(4)|ovary(1)|prostate(1)	10	all_hematologic(175;0.177)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.131)|all_lung(97;0.139)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.043)		GCACGCTTAGTTTTTCCAGCT	0.448																																																0													230	226	227					11																	125766029		2201	4299	6500	SO:0001589	frameshift_variant	83480			BC004822	CCDS8466.1, CCDS73411.1	11q24.2	2008-02-05							25461	protein-coding gene	gene with protein product						12477932	Standard	NM_031307		Approved	FKSG32	uc001qcy.2	Q9BZE2		ENST00000530811.1:c.151delA	11.37:g.125766029delT	ENSP00000432386:p.Thr51fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAM0|Q96D17|Q96J23|Q96NB4	Frame_Shift_Del	DEL	ENST00000530811.1	37	CCDS8466.1																																																																																				0.448	PUS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386783.1	NM_031307		-	125766029	T	-	125766029	7	5	599	1	0	1	0	1	0	0	0	0	12845	1725	60	0	1306	0	PUS3	11	125766029	Frame_Shift_Del	DEL	T	TCGA-GL-7966-01A-11D-2201-08	50625112	125766029	9240487	34	35890										
GLB1L2	89944	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	134241359	134241359	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	ggattcttggactacaagacAacgaagattgctgtccccct	9	11	1	2			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr11:134241359A>G	ENST00000535456.2	+	14	1589	c.1401A>G	c.(1399-1401)acA>acG	p.T467T	GLB1L2_ENST00000529077.1_3'UTR|GLB1L2_ENST00000339772.7_Silent_p.T467T|GLB1L2_ENST00000389881.3_Silent_p.T467T	NM_138342.3	NP_612351.2	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2	467					carbohydrate metabolic process (GO:0005975)	extracellular region (GO:0005576)	beta-galactosidase activity (GO:0004565)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(6)|liver(1)|lung(20)|ovary(1)|pancreas(1)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	41	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)		ACTACAAGACAACGAAGATTG	0.542																																																0													161	159	160					11																	134241359		2201	4297	6498	SO:0001819	synonymous_variant	89944				CCDS31724.1	11q25	2008-01-29			ENSG00000149328	ENSG00000149328			25129	protein-coding gene	gene with protein product						12975309	Standard	NM_138342		Approved		uc001qhp.3	Q8IW92	OTTHUMG00000167179	ENST00000535456.2:c.1401A>G	11.37:g.134241359A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NCE6|Q6UX60|Q8NC62|Q8NCB3|Q8NCJ1|Q96HP3	Silent	SNP	ENST00000535456.2	37	CCDS31724.1	.	.	.	.	.	.	.	.	.	.	A	4.458	0.084834	0.08583	.	.	ENSG00000149328	ENST00000525089	.	.	.	4.72	-9.38	0.00623	.	.	.	.	.	T	0.13457	0.0326	.	.	.	0.09310	N	1	.	.	.	.	.	.	T	0.17961	-1.0352	4	.	.	.	-3.4454	0.6104	0.00760	0.3795:0.1978:0.2259:0.1968	.	.	.	.	D	406	.	.	N	+	1	0	GLB1L2	133746569	0.000000	0.05858	0.000000	0.03702	0.009000	0.06853	-3.622000	0.00412	-1.622000	0.01560	-1.291000	0.01355	AAC		0.542	GLB1L2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393629.2	NM_138342		G	134241359	A	G	134241359	2	3	599	1	0	0	0	0	0	0	0	1	6436	117	5	3		3	GLB1L2	11	134241359	Silent	SNP	A	TCGA-GL-7966-01A-11D-2201-08	8475330	134241359	765157	35	35891										
IPO8	10526	hgsc.bcm.edu;broad.mit.edu	37	chr12	30787080	30787080	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	gtcaaggtcaagtggagtacTgaacccctcaagcgcggttt	12	10	3	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr12:30787080T>C	ENST00000256079.4	-	23	3174	c.2836A>G	c.(2836-2838)Agt>Ggt	p.S946G	IPO8_ENST00000544829.1_Missense_Mutation_p.S741G	NM_006390.3	NP_006381.2	O15397	IPO8_HUMAN	importin 8	946					intracellular protein transport (GO:0006886)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	Ran GTPase binding (GO:0008536)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(16)|liver(1)|lung(22)|prostate(2)|skin(2)|urinary_tract(2)	52	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)					AGTGGAGTACTGAACCCCTCA	0.403																																																0													222	173	190					12																	30787080		2203	4300	6503	SO:0001583	missense	10526			U77494	CCDS8719.1, CCDS53773.1	12p11.21	2011-05-23	2003-03-11	2003-03-14	ENSG00000133704	ENSG00000133704		"Importins"	9853	protein-coding gene	gene with protein product		605600	"RAN binding protein 8"	RANBP8		9214382	Standard	NM_006390		Approved	IMP8	uc001rjd.3	O15397	OTTHUMG00000169172	ENST00000256079.4:c.2836A>G	12.37:g.30787080T>C	ENSP00000256079:p.Ser946Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7M3	Missense_Mutation	SNP	ENST00000256079.4	37	CCDS8719.1	.	.	.	.	.	.	.	.	.	.	T	16.35	3.098449	0.56183	.	.	ENSG00000133704	ENST00000256079;ENST00000545286;ENST00000544829	T;T	0.65732	-0.17;-0.17	5.22	5.22	0.72569	Armadillo-type fold (1);	0.037226	0.85682	D	0.000000	T	0.62073	0.2398	M	0.64997	1.995	0.58432	D	0.999998	P;P;P	0.46395	0.791;0.877;0.749	B;B;B	0.43194	0.219;0.411;0.194	T	0.62714	-0.6796	10	0.30854	T	0.27	-16.0242	15.3733	0.74584	0.0:0.0:0.0:1.0	.	741;422;946	B7Z7M3;Q59F59;O15397	.;.;IPO8_HUMAN	G	946;422;741	ENSP00000256079:S946G;ENSP00000444520:S741G	ENSP00000256079:S946G	S	-	1	0	IPO8	30678347	1.000000	0.71417	1.000000	0.80357	0.695000	0.40330	4.133000	0.57983	2.081000	0.62600	0.533000	0.62120	AGT		0.403	IPO8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402700.2	NM_006390		C	30787080	T	C	30787080	3	2	599	1	0	0	0	0	1	0	0	0	7805	1580	55	3	289	3	IPO8	12	30787080	Missense_Mutation	SNP	T	TCGA-GL-7966-01A-11D-2201-08		30787080	103064815	36	35892										
C12orf41	54934	broad.mit.edu	37	chr12	49062988	49062988	+	Frame_Shift_Del	DEL	T	T	-													0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	tggcggtatcgtcgcagacaTtttaatcgctttaagttctc							TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr12:49062988delT	ENST00000420613.2	-	6	824	c.777delA	c.(775-777)aaafs	p.K259fs	KANSL2_ENST00000357861.3_Frame_Shift_Del_p.K64fs|KANSL2_ENST00000553086.1_Frame_Shift_Del_p.K259fs|SNORA2B_ENST00000384583.1_RNA|KANSL2_ENST00000550347.1_Frame_Shift_Del_p.K442fs	NM_017822.3	NP_060292.3	Q9H9L4	KANL2_HUMAN	KAT8 regulatory NSL complex subunit 2	259					chromatin organization (GO:0006325)|histone H4-K16 acetylation (GO:0043984)|histone H4-K5 acetylation (GO:0043981)|histone H4-K8 acetylation (GO:0043982)	histone acetyltransferase complex (GO:0000123)|nucleoplasm (GO:0005654)											GTCGCAGACATTTTAATCGCT	0.502																																																0													75	68	70					12																	49062988		1932	4130	6062	SO:0001589	frameshift_variant	54934			AK094528	CCDS44869.1	12q13.11	2011-10-31	2011-10-31	2011-10-31	ENSG00000139620	ENSG00000139620			26024	protein-coding gene	gene with protein product		615488	"chromosome 12 open reading frame 41"	C12orf41		12477932	Standard	NM_017822		Approved	FLJ20436, NSL2	uc001rrz.2	Q9H9L4	OTTHUMG00000170392	ENST00000420613.2:c.777delA	12.37:g.49062988delT	ENSP00000415436:p.Lys259fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3B5|Q96CV0|Q9NX51	Frame_Shift_Del	DEL	ENST00000420613.2	37	CCDS44869.1																																																																																				0.502	KANSL2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408841.1	NM_017822		-	49062988	T	-	49062988	7	5	599	1	0	1	0	1	0	0	0	0	1689	1490	52	0	721	0	C12orf41	12	49062988	Frame_Shift_Del	DEL	T	TCGA-GL-7966-01A-11D-2201-08	18275908	49062988	84788907	37	35893										
ULK1	8408	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	132395297	132395297	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	tcgtacccaagctcggggtcCggcagcagctccagcagcag	13	15	0	0	rs571147302		TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr12:132395297C>T	ENST00000321867.4	+	12	1251	c.900C>T	c.(898-900)tcC>tcT	p.S300S		NM_003565.2	NP_003556	O75385	ULK1_HUMAN	unc-51 like autophagy activating kinase 1	300	Interaction with GABARAP and GABARAPL2.|Poly-Ser.				autophagic vacuole assembly (GO:0000045)|axon extension (GO:0048675)|cellular response to nutrient levels (GO:0031669)|cerebellar granule cell differentiation (GO:0021707)|negative regulation of collateral sprouting (GO:0048671)|neuron projection development (GO:0031175)|neuron projection regeneration (GO:0031102)|positive regulation of autophagy (GO:0010508)|positive regulation of macroautophagy (GO:0016239)|protein autophosphorylation (GO:0046777)|protein localization (GO:0008104)|protein phosphorylation (GO:0006468)|radial glia guided migration of cerebellar granule cell (GO:0021933)|Ras protein signal transduction (GO:0007265)|receptor internalization (GO:0031623)|regulation of autophagy (GO:0010506)|regulation of neurotrophin TRK receptor signaling pathway (GO:0051386)|response to starvation (GO:0042594)	ATG1/UKL1 signaling complex (GO:0034273)|autophagic vacuole (GO:0005776)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|extrinsic component of autophagic vacuole membrane (GO:0097635)|extrinsic component of omegasome membrane (GO:0097629)|extrinsic component of pre-autophagosomal structure membrane (GO:0097632)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|pre-autophagosomal structure membrane (GO:0034045)|ULK1-ATG13-FIP200 complex (GO:0070969)	ATP binding (GO:0005524)|protein complex binding (GO:0032403)|protein serine/threonine kinase activity (GO:0004674)|Rab GTPase binding (GO:0017137)			breast(1)|central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(11)|ovary(1)|prostate(2)|skin(2)|urinary_tract(2)	29	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		GCTCGGGGTCCGGCAGCAGCT	0.662													T|||	1	0.000199681	0.0008	0.0	5008	,	,		14232	0.0		0.0	False		,,,				2504	0.0															0													76	67	70					12																	132395297		2203	4299	6502	SO:0001819	synonymous_variant	8408			AF045458	CCDS9274.1	12q24.3	2014-02-12	2013-07-02		ENSG00000177169	ENSG00000177169			12558	protein-coding gene	gene with protein product	"ATG1 autophagy related 1 homolog (S. cerevisiae)"	603168	"unc-51 (C. elegans)-like kinase 1", "unc-51-like kinase 1 (C. elegans)"			9693035	Standard	NM_003565		Approved	ATG1, ATG1A	uc001uje.3	O75385	OTTHUMG00000168052	ENST00000321867.4:c.900C>T	12.37:g.132395297C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UQ28	Silent	SNP	ENST00000321867.4	37	CCDS9274.1																																																																																				0.662	ULK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397769.3			T	132395297	C	T	132395297	2	4	599	1	0	0	0	0	0	0	0	1	16987	639	23	1		1	ULK1	12	132395297	Silent	SNP	C	TCGA-GL-7966-01A-11D-2201-08	83332309	132395297	1456598	38	35894										
DOCK9	23348	hgsc.bcm.edu	37	chr13	99536093	99536093	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	atacactgtagaaaccagatGagtggaaattttcagcagtg	10	6	1	3			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr13:99536093G>C	ENST00000376460.1	-	22	2523	c.2443C>G	c.(2443-2445)Cat>Gat	p.H815D	DOCK9_ENST00000448493.2_Missense_Mutation_p.H827D|DOCK9_ENST00000442173.1_Missense_Mutation_p.H815D|DOCK9_ENST00000339416.2_Missense_Mutation_p.H816D	NM_001130048.1|NM_015296.2	NP_001123520.1|NP_056111.1	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9	816	DHR-1.				blood coagulation (GO:0007596)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(3)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(12)|lung(18)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	59	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					GAAACCAGATGAGTGGAAATT	0.383																																																0													72	71	71					13																	99536093		1852	4090	5942	SO:0001583	missense	23348			AF527605	CCDS45062.1	13q32.3	2013-01-10			ENSG00000088387	ENSG00000088387		"Pleckstrin homology (PH) domain containing"	14132	protein-coding gene	gene with protein product	"zizimin1"	607325				12172552, 12432077	Standard	NM_015296		Approved	KIAA1058, ZIZ1	uc001vnt.2	Q9BZ29	OTTHUMG00000017260	ENST00000376460.1:c.2443C>G	13.37:g.99536093G>C	ENSP00000365643:p.His815Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B3KX25|E9PFM9|Q5JUD4|Q5JUD6|Q5T2Q1|Q5TAN8|Q9BZ25|Q9BZ26|Q9BZ27|Q9BZ28|Q9UPU4	Missense_Mutation	SNP	ENST00000376460.1	37	CCDS45062.1	.	.	.	.	.	.	.	.	.	.	G	23.5	4.429336	0.83776	.	.	ENSG00000088387	ENST00000376460;ENST00000357329;ENST00000376455;ENST00000400235;ENST00000428223;ENST00000339416;ENST00000448493;ENST00000442173	T;T;T;T	0.12984	2.63;2.63;2.63;2.63	5.26	5.26	0.73747	.	0.000000	0.85682	D	0.000000	T	0.32315	0.0825	L	0.43152	1.355	0.80722	D	1	P;D;P;B;D	0.89917	0.888;1.0;0.888;0.104;0.996	P;D;P;B;D	0.81914	0.824;0.995;0.579;0.054;0.969	T	0.01508	-1.1337	10	0.62326	D	0.03	.	19.2291	0.93831	0.0:0.0:1.0:0.0	.	816;815;815;815;816	A6H8Z6;E9PFM9;B3KX25;Q9BZ29-5;Q9BZ29	.;.;.;.;DOCK9_HUMAN	D	815;816;816;816;815;816;827;815	ENSP00000365643:H815D;ENSP00000341086:H816D;ENSP00000401958:H827D;ENSP00000406883:H815D	ENSP00000341086:H816D	H	-	1	0	DOCK9	98334094	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.420000	0.97426	2.614000	0.88457	0.655000	0.94253	CAT		0.383	DOCK9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045566.1	NM_015296		C	99536093	G	C	99536093	3	2	599	1	0	0	0	0	1	0	0	0	4696	1290	45	4	3964	4	DOCK9	13	99536093	Missense_Mutation	SNP	G	TCGA-GL-7966-01A-11D-2201-08		99536093	15633785	39	35895										
JKAMP	51528	hgsc.bcm.edu	37	chr14	59965598	59965598	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	ttcttcccaattttaaccgtGcttcaggcagttggtggagg	11	9	2	0			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr14:59965598G>C	ENST00000261247.9	+	5	759	c.612G>C	c.(610-612)gtG>gtC	p.V204V	JKAMP_ENST00000425728.2_Silent_p.V198V|JKAMP_ENST00000356057.5_Silent_p.V212V|RP11-701B16.2_ENST00000554253.1_RNA|JKAMP_ENST00000554271.1_Silent_p.V218V	NM_001098625.1|NM_001284203.1|NM_016475.3	NP_001092095.1|NP_001271132.1|NP_057559.2	Q9P055	JKAMP_HUMAN	JNK1/MAPK8-associated membrane protein	219					ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|response to unfolded protein (GO:0006986)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	ubiquitin protein ligase binding (GO:0031625)			breast(1)|endometrium(1)|kidney(1)|lung(3)	6						TTTTAACCGTGCTTCAGGCAG	0.348																																																0													102	91	95					14																	59965598		1830	4092	5922	SO:0001819	synonymous_variant	51528			AF212245	CCDS45116.1, CCDS45117.1, CCDS61462.1, CCDS61463.1	14q22.3	2014-02-14	2009-08-13	2009-08-13	ENSG00000050130	ENSG00000050130			20184	protein-coding gene	gene with protein product	"Jun N-terminal kinase 1-associated membrane protein"	611176	"chromosome 14 open reading frame 100"	C14orf100		16166642, 19269966	Standard	NM_001284202		Approved	HSPC213, JAMP, HSPC327, CDA06	uc001xef.4	Q9P055	OTTHUMG00000171054	ENST00000261247.9:c.612G>C	14.37:g.59965598G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DP67|Q6FIB6|Q6IAJ2|Q7Z5D4|Q86SY6|Q9H0Q6|Q9H2W0|Q9HAH5|Q9P0R3	Silent	SNP	ENST00000261247.9	37	CCDS45116.1																																																																																				0.348	JKAMP-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411430.1	NM_001098625		C	59965598	G	C	59965598	2	2	599	1	0	0	0	0	0	0	0	1	7956	1306	46	4		4	JKAMP	14	59965598	Silent	SNP	G	TCGA-GL-7966-01A-11D-2201-08		59965598	47383942	40	35896										
SNURF	8926	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr15	25207297	25207297	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	agacgaactacagaacagcaCgtaccagaggtggaagtcca	11	10	0	3			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr15:25207297C>T	ENST00000577949.1	+	2	114	c.51C>T	c.(49-51)caC>caT	p.H17H	SNURF_ENST00000338094.6_Silent_p.H17H|SNRPN_ENST00000390687.4_5'UTR|SNURF_ENST00000551312.2_Silent_p.H17H|SNRPN_ENST00000400100.1_5'UTR|SNRPN_ENST00000400098.1_5'UTR|SNRPN_ENST00000553597.1_3'UTR|SNRPN_ENST00000400097.1_5'UTR|SNRPN_ENST00000577565.1_5'UTR|SNRPN_ENST00000554227.2_5'UTR|SNURF_ENST00000338327.4_Silent_p.H17H|SNRPN_ENST00000346403.6_5'UTR			Q9Y675	SNURF_HUMAN	SNRPN upstream reading frame	17						nucleus (GO:0005634)				breast(2)|large_intestine(2)|lung(1)	5		all_cancers(20;1.4e-21)|Breast(32;0.000625)		all cancers(64;3.48e-07)|Epithelial(43;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0142)		CAGAACAGCACGTACCAGAGG	0.448																																																0													154	124	134					15																	25207297		2203	4300	6503	SO:0001819	synonymous_variant	8926				CCDS10016.1	15q11.2	2013-08-27			ENSG00000214265	ENSG00000214265			11171	protein-coding gene	gene with protein product						10318933	Standard	NM_022804		Approved		uc001ywu.3	Q9Y675	OTTHUMG00000129181	ENST00000577949.1:c.51C>T	15.37:g.25207297C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NCW2	Silent	SNP	ENST00000577949.1	37	CCDS10016.1																																																																																				0.448	SNURF-005	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000446300.1	NM_005678		T	25207297	C	T	25207297	2	4	599	1	0	0	0	0	0	0	0	1	14891	535	19	1		1	SNURF	15	25207297	Silent	SNP	C	TCGA-GL-7966-01A-11D-2201-08		25207297	77324095	41	35897										
B2M	567	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr15	45003781	45003782	+	Frame_Shift_Del	DEL	CT	CT	-													0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	ccttagctgtgctcgcgctaCtctctctttctggcctggag							TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr15:45003781_45003782delCT	ENST00000558401.1	+	1	107_108	c.37_38delCT	c.(37-39)ctcfs	p.L13fs	B2M_ENST00000559916.1_Frame_Shift_Del_p.L13fs|B2M_ENST00000544417.1_Frame_Shift_Del_p.L13fs|PATL2_ENST00000558573.1_5'Flank	NM_004048.2	NP_004039.1	P61769	B2MG_HUMAN	beta-2-microglobulin	13					antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent (GO:0002481)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|innate immune response (GO:0045087)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|protein refolding (GO:0042026)|regulation of defense response to virus by virus (GO:0050690)|regulation of immune response (GO:0050776)|response to cadmium ion (GO:0046686)|response to drug (GO:0042493)|response to molecule of bacterial origin (GO:0002237)|retina homeostasis (GO:0001895)|T cell differentiation in thymus (GO:0033077)|viral process (GO:0016032)	cytoplasm (GO:0005737)|early endosome lumen (GO:0031905)|early endosome membrane (GO:0031901)|endoplasmic reticulum lumen (GO:0005788)|ER to Golgi transport vesicle membrane (GO:0012507)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|membrane (GO:0016020)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	identical protein binding (GO:0042802)	p.L15fs*41(4)|p.A11fs*42(1)|p.L13F(1)		breast(2)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(30)|kidney(8)|large_intestine(6)|lung(6)|ovary(2)|skin(2)|urinary_tract(1)	59		all_cancers(109;1.88e-13)|all_epithelial(112;2.13e-11)|Lung NSC(122;2.22e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;4.16e-21)|GBM - Glioblastoma multiforme(94;8.97e-07)|COAD - Colon adenocarcinoma(120;0.0357)|Colorectal(105;0.0377)|Lung(196;0.0903)|LUSC - Lung squamous cell carcinoma(244;0.192)		GCTCGCGCTACTCTCTCTTTCT	0.614																																																6	Deletion - Frameshift(5)|Substitution - Missense(1)	large_intestine(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|skin(1)																																								SO:0001589	frameshift_variant	567			AB021288	CCDS10113.1	15q21-q22.2	2013-01-11			ENSG00000166710	ENSG00000166710		"Immunoglobulin superfamily / C1-set domain containing"	914	protein-coding gene	gene with protein product		109700					Standard	NM_004048		Approved		uc001zuc.3	P61769	OTTHUMG00000131247	ENST00000558401.1:c.37_38delCT	15.37:g.45003787_45003788delCT	ENSP00000452780:p.Leu13fs	Somatic		WXS	Illumina HiSeq	Phase_I	P01884|Q540F8|Q6IAT8|Q9UCK0|Q9UD48|Q9UDF4	Frame_Shift_Del	DEL	ENST00000558401.1	37	CCDS10113.1																																																																																				0.614	B2M-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000254007.2	NM_004048		-	45003782	CT	-	45003781	7	5	599	1	0	1	0	1	0	0	0	0	1244	565	20	0	39	0	B2M	15	45003781	Frame_Shift_Del	DEL	CT	TCGA-GL-7966-01A-11D-2201-08	19796484	45003781	57527611	42	35898										
B2M	567	broad.mit.edu	37	chr15	45007645	45007646	+	Frame_Shift_Ins	INS	-	-	A													0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	ccaaagattcaggtttactcINSacgtcatccagcagagaatg							TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr15:45007645_45007646insA	ENST00000558401.1	+	2	162_163	c.92_93insA	c.(91-96)tcacgtfs	p.R32fs	B2M_ENST00000559916.1_Frame_Shift_Ins_p.R32fs|B2M_ENST00000544417.1_Frame_Shift_Ins_p.R32fs|B2M_ENST00000559220.1_Intron	NM_004048.2	NP_004039.1	P61769	B2MG_HUMAN	beta-2-microglobulin	32	Ig-like C1-type.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent (GO:0002481)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|innate immune response (GO:0045087)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|protein refolding (GO:0042026)|regulation of defense response to virus by virus (GO:0050690)|regulation of immune response (GO:0050776)|response to cadmium ion (GO:0046686)|response to drug (GO:0042493)|response to molecule of bacterial origin (GO:0002237)|retina homeostasis (GO:0001895)|T cell differentiation in thymus (GO:0033077)|viral process (GO:0016032)	cytoplasm (GO:0005737)|early endosome lumen (GO:0031905)|early endosome membrane (GO:0031901)|endoplasmic reticulum lumen (GO:0005788)|ER to Golgi transport vesicle membrane (GO:0012507)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|membrane (GO:0016020)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	identical protein binding (GO:0042802)			breast(2)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(30)|kidney(8)|large_intestine(6)|lung(6)|ovary(2)|skin(2)|urinary_tract(1)	59		all_cancers(109;1.88e-13)|all_epithelial(112;2.13e-11)|Lung NSC(122;2.22e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;4.16e-21)|GBM - Glioblastoma multiforme(94;8.97e-07)|COAD - Colon adenocarcinoma(120;0.0357)|Colorectal(105;0.0377)|Lung(196;0.0903)|LUSC - Lung squamous cell carcinoma(244;0.192)		CAGGTTTACTCACGTCATCCAG	0.411																																																0																																										SO:0001589	frameshift_variant	567			AB021288	CCDS10113.1	15q21-q22.2	2013-01-11			ENSG00000166710	ENSG00000166710		"Immunoglobulin superfamily / C1-set domain containing"	914	protein-coding gene	gene with protein product		109700					Standard	NM_004048		Approved		uc001zuc.3	P61769	OTTHUMG00000131247	ENST00000558401.1:c.93dupA	15.37:g.45007646_45007646dupA	ENSP00000452780:p.Arg32fs	Somatic		WXS	Illumina HiSeq	Phase_I	P01884|Q540F8|Q6IAT8|Q9UCK0|Q9UD48|Q9UDF4	Frame_Shift_Ins	INS	ENST00000558401.1	37	CCDS10113.1																																																																																				0.411	B2M-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000254007.2	NM_004048		A	45007646	-	A	45007645	7	5	599	1	0	1	1	0	0	0	0	0	1244	838	29	0	98	0	B2M	15	45007645	Frame_Shift_Ins	INS	-	TCGA-GL-7966-01A-11D-2201-08	3864	45007645	57523747	43	35899										
UACA	55075	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	70987423	70987423	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	ttcaaacactcaagattcccCtttgaggtcacaacatggaa	6	11	3	2			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr15:70987423C>T	ENST00000322954.6	-	3	419	c.234G>A	c.(232-234)aaG>aaA	p.K78K	UACA_ENST00000379983.2_Silent_p.K65K|UACA_ENST00000560441.1_Silent_p.K65K|UACA_ENST00000539319.1_Silent_p.K78K	NM_018003.2	NP_060473.2	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and ankyrin repeats	78					intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|intrinsic apoptotic signaling pathway in response to oxidative stress (GO:0008631)|negative regulation of inflammatory response (GO:0050728)|negative regulation of NF-kappaB import into nucleus (GO:0042347)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of protein import into nucleus (GO:0042307)|response to UV (GO:0009411)	apoptosome (GO:0043293)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nuclear envelope (GO:0005635)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)				breast(2)|endometrium(7)|kidney(4)|large_intestine(13)|lung(17)|ovary(2)|pancreas(1)|prostate(2)|skin(2)	50						CAAGATTCCCCTTTGAGGTCA	0.353																																																0													91	83	86					15																	70987423		2199	4297	6496	SO:0001819	synonymous_variant	55075			AF322916	CCDS10235.1, CCDS32280.1	15q22-q24	2013-01-10			ENSG00000137831	ENSG00000137831		"Ankyrin repeat domain containing"	15947	protein-coding gene	gene with protein product		612516				11162650, 10997877	Standard	NM_001008224		Approved	FLJ10128, KIAA1561	uc002asr.3	Q9BZF9	OTTHUMG00000133363	ENST00000322954.6:c.234G>A	15.37:g.70987423C>T		Somatic		WXS	Illumina HiSeq	Phase_I	G3XAG2|Q14DD3|Q8N3B8|Q96NH6|Q9HCL1|Q9NWC6	Silent	SNP	ENST00000322954.6	37	CCDS10235.1																																																																																				0.353	UACA-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257199.2			T	70987423	C	T	70987423	2	4	599	1	0	0	0	0	0	0	0	1	16836	680	24	2		2	UACA	15	70987423	Silent	SNP	C	TCGA-GL-7966-01A-11D-2201-08	25979778	70987423	31543969	44	35900										
HCN4	10021	hgsc.bcm.edu	37	chr15	73660576	73660576	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	acctgctgcgggaggctgtaGagccgcttgcgcatggacgg	17	11	0	1	rs201193660	byFrequency	TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr15:73660576G>C	ENST00000261917.3	-	1	1029	c.36C>G	c.(34-36)ctC>ctG	p.L12L		NM_005477.2	NP_005468.1	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic nucleotide-gated potassium channel 4	12					blood circulation (GO:0008015)|cation transport (GO:0006812)|cellular response to cAMP (GO:0071320)|cellular response to cGMP (GO:0071321)|in utero embryonic development (GO:0001701)|muscle contraction (GO:0006936)|potassium ion transmembrane transport (GO:0071805)|regulation of heart rate (GO:0002027)|regulation of membrane potential (GO:0042391)|sodium ion transmembrane transport (GO:0035725)|synaptic transmission (GO:0007268)	integral component of plasma membrane (GO:0005887)|intrinsic component of plasma membrane (GO:0031226)|plasma membrane (GO:0005886)|terminal bouton (GO:0043195)	cAMP binding (GO:0030552)|cation channel activity (GO:0005261)|identical protein binding (GO:0042802)|intracellular cAMP activated cation channel activity (GO:0005222)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated sodium channel activity (GO:0005248)			NS(2)|biliary_tract(1)|breast(1)|endometrium(4)|kidney(1)|large_intestine(13)|liver(1)|lung(18)|ovary(6)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	55				COAD - Colon adenocarcinoma(1;0.142)		GGAGGCTGTAGAGCCGCTTGC	0.761													G|||	18	0.00359425	0.0	0.0101	5008	,	,		8058	0.0		0.0109	False		,,,				2504	0.0															0								G		5,3709		0,5,1852	3	4	3		36	1.2	1	15		3	36,7592		0,36,3778	no	coding-synonymous	HCN4	NM_005477.2		0,41,5630	CC,CG,GG		0.4719,0.1346,0.3615		12/1204	73660576	41,11301	1857	3814	5671	SO:0001819	synonymous_variant	10021			AJ132429	CCDS10248.1	15q24.1	2011-07-05			ENSG00000138622	ENSG00000138622		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	16882	protein-coding gene	gene with protein product		605206				10228147, 10430953, 16382102	Standard	NM_005477		Approved		uc002avp.3	Q9Y3Q4	OTTHUMG00000137563	ENST00000261917.3:c.36C>G	15.37:g.73660576G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UMQ7	Silent	SNP	ENST00000261917.3	37	CCDS10248.1																																																																																				0.761	HCN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268900.2	NM_005477		C	73660576	G	C	73660576	2	2	599	1	0	0	0	0	0	0	0	1	7006	929	33	4		4	HCN4	15	73660576	Silent	SNP	G	TCGA-GL-7966-01A-11D-2201-08	2673153	73660576	28870816	45	35901										
KIAA0753	9851	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	6531560	6531560	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	acctatcctgggatgaggctGaagtcccggatcatgggtgg	15	9	1	2			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr17:6531560G>A	ENST00000361413.3	-	3	953	c.595C>T	c.(595-597)Cag>Tag	p.Q199*	KIAA0753_ENST00000542606.1_5'UTR|KIAA0753_ENST00000572370.1_5'UTR	NM_014804.2	NP_055619.2	Q2KHM9	K0753_HUMAN	KIAA0753	199						centrosome (GO:0005813)|cytoplasm (GO:0005737)				endometrium(4)|large_intestine(11)|lung(5)|prostate(4)	24				COAD - Colon adenocarcinoma(228;0.157)		GGATGAGGCTGAAGTCCCGGA	0.483																																																0													129	131	131					17																	6531560		2023	4175	6198	SO:0001587	stop_gained	9851				CCDS42247.1	17p13.1	2014-04-04			ENSG00000198920	ENSG00000198920			29110	protein-coding gene	gene with protein product						24613305	Standard	NM_014804		Approved		uc002gde.4	Q2KHM9	OTTHUMG00000177928	ENST00000361413.3:c.595C>T	17.37:g.6531560G>A	ENSP00000355250:p.Gln199*	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA11|B7Z479|O94853|Q05D97|Q2KHN0|Q9UG45	Nonsense_Mutation	SNP	ENST00000361413.3	37	CCDS42247.1	.	.	.	.	.	.	.	.	.	.	G	32	5.129961	0.94473	.	.	ENSG00000198920	ENST00000361413	.	.	.	5.34	-0.77	0.11005	.	0.864801	0.09963	N	0.733125	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	0.52906	T	0.07	-2.5116	10.7147	0.46005	0.0:0.5544:0.3039:0.1417	.	.	.	.	X	199	.	ENSP00000355250:Q199X	Q	-	1	0	KIAA0753	6472284	0.004000	0.15560	0.007000	0.13788	0.294000	0.27393	0.211000	0.17474	0.282000	0.22254	0.655000	0.94253	CAG		0.483	KIAA0753-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000439769.3	NM_014804		A	6531560	G	A	6531560	4	1	599	1	0	0	0	0	0	1	0	0	8198	1299	45	2	2376	2	KIAA0753	17	6531560	Nonsense_Mutation	SNP	G	TCGA-GL-7966-01A-11D-2201-08		6531560	74663650	46	35902										
TRPV2	51393	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	16340169	16340169	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	ggatggtgcctctgaggaaaActatgtgcccgtccagctcc	12	12	1	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr17:16340169A>G	ENST00000338560.7	+	15	2660	c.2261A>G	c.(2260-2262)aAc>aGc	p.N754S	C17orf76-AS1_ENST00000582911.1_RNA|C17orf76-AS1_ENST00000478103.2_RNA|C17orf76-AS1_ENST00000365172.1_RNA|C17orf76-AS1_ENST00000484836.1_RNA|C17orf76-AS1_ENST00000477249.2_RNA|TRPV2_ENST00000577397.1_Missense_Mutation_p.N324S|C17orf76-AS1_ENST00000475947.2_RNA|C17orf76-AS1_ENST00000581718.1_RNA|C17orf76-AS1_ENST00000584926.1_RNA|C17orf76-AS1_ENST00000578380.2_RNA|C17orf76-AS1_ENST00000472367.1_RNA|C17orf76-AS1_ENST00000483140.1_RNA|C17orf76-AS1_ENST00000481027.1_RNA|C17orf76-AS1_ENST00000475953.1_RNA|C17orf76-AS1_ENST00000487066.1_RNA|C17orf76-AS1_ENST00000480811.1_RNA|C17orf76-AS1_ENST00000580180.1_RNA|C17orf76-AS1_ENST00000492250.1_RNA|C17orf76-AS1_ENST00000584141.1_RNA|C17orf76-AS1_ENST00000460249.1_RNA|C17orf76-AS1_ENST00000580770.1_RNA|C17orf76-AS1_ENST00000584177.1_RNA|C17orf76-AS1_ENST00000579473.1_RNA|C17orf76-AS1_ENST00000470491.2_RNA|C17orf76-AS1_ENST00000491009.1_RNA|C17orf76-AS1_ENST00000583400.2_RNA|C17orf76-AS1_ENST00000481898.1_RNA|C17orf76-AS1_ENST00000581913.1_RNA	NM_016113.4	NP_057197.2	Q9Y5S1	TRPV2_HUMAN	transient receptor potential cation channel, subfamily V, member 2	754					calcium ion transmembrane transport (GO:0070588)|ion transmembrane transport (GO:0034220)|positive regulation of axon extension (GO:0045773)|positive regulation of calcium ion import (GO:0090280)|response to heat (GO:0009408)|response to temperature stimulus (GO:0009266)|sensory perception (GO:0007600)|transmembrane transport (GO:0055085)|transport (GO:0006810)	axonal growth cone (GO:0044295)|cell body (GO:0044297)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|endomembrane system (GO:0012505)|growth cone membrane (GO:0032584)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium channel activity (GO:0005262)|cation channel activity (GO:0005261)|ion channel activity (GO:0005216)|ion transmembrane transporter activity (GO:0015075)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(7)|lung(9)|ovary(1)|pancreas(1)|prostate(2)|stomach(3)	28				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		TCTGAGGAAAACTATGTGCCC	0.562																																																0													154	134	141					17																	16340169		2203	4300	6503	SO:0001583	missense	51393			AF129112	CCDS32576.1	17p11.2	2013-01-10			ENSG00000187688	ENSG00000187688		"Voltage-gated ion channels / Transient receptor potential cation channels", "Ankyrin repeat domain containing"	18082	protein-coding gene	gene with protein product		606676				10201375, 16382100	Standard	NM_016113		Approved	VRL, VRL-1, VRL1	uc002gpy.3	Q9Y5S1	OTTHUMG00000058989	ENST00000338560.7:c.2261A>G	17.37:g.16340169A>G	ENSP00000342222:p.Asn754Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NML2|A8K0Z0|Q9Y670	Missense_Mutation	SNP	ENST00000338560.7	37	CCDS32576.1	.	.	.	.	.	.	.	.	.	.	A	5.819	0.335390	0.11013	.	.	ENSG00000187688	ENST00000338560	D	0.87334	-2.24	3.83	3.83	0.44106	.	0.576086	0.16403	N	0.215935	T	0.72740	0.3498	N	0.08118	0	0.19775	N	0.999956	B	0.09022	0.002	B	0.09377	0.004	T	0.61093	-0.7132	10	0.34782	T	0.22	-56.024	9.2873	0.37764	1.0:0.0:0.0:0.0	.	754	Q9Y5S1	TRPV2_HUMAN	S	754	ENSP00000342222:N754S	ENSP00000342222:N754S	N	+	2	0	TRPV2	16280894	0.920000	0.31207	0.964000	0.40570	0.094000	0.18550	2.141000	0.42168	1.972000	0.57404	0.459000	0.35465	AAC		0.562	TRPV2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130464.2	NM_016113		G	16340169	A	G	16340169	3	3	599	1	0	0	0	0	1	0	0	0	16608	43	2	3	2315	3	TRPV2	17	16340169	Missense_Mutation	SNP	A	TCGA-GL-7966-01A-11D-2201-08	9808609	16340169	64855041	47	35903										
STARD3	10948	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	37809843	37809854	+	In_Frame_Del	DEL	CCTCCCTGGGCT	CCTCCCTGGGCT	-													0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	gcgcagcctgcctgccgtggCctccctgggctcctcactgt					rs371019835		TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	CCTCCCTGGGCT	CCTCCCTGGGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr17:37809843_37809854delCCTCCCTGGGCT	ENST00000336308.5	+	2	277_288	c.59_70delCCTCCCTGGGCT	c.(58-72)gcctccctgggctcc>gcc	p.SLGS21del	STARD3_ENST00000578232.1_Intron|STARD3_ENST00000544210.2_In_Frame_Del_p.SLGS21del|STARD3_ENST00000580611.1_In_Frame_Del_p.SLGS21del|STARD3_ENST00000394250.4_In_Frame_Del_p.SLGS21del	NM_001165937.1|NM_006804.3	NP_001159409.1|NP_006795.3	Q14849	STAR3_HUMAN	StAR-related lipid transfer (START) domain containing 3	21					cholesterol metabolic process (GO:0008203)|lipid metabolic process (GO:0006629)|lipid transport (GO:0006869)|mitochondrial transport (GO:0006839)|progesterone biosynthetic process (GO:0006701)|steroid metabolic process (GO:0008202)	cytoplasm (GO:0005737)|endosome (GO:0005768)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|mitochondrion (GO:0005739)	cholesterol binding (GO:0015485)			endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|pancreas(1)|prostate(2)|stomach(1)	14	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)			CCTGCCGTGGCCTCCCTGGGCTCCTCACTGTC	0.684											OREG0024381	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0																																										SO:0001651	inframe_deletion	10948				CCDS11341.1, CCDS54117.1, CCDS54118.1	17q11-q12	2011-09-12	2007-08-16		ENSG00000131748	ENSG00000131748		"StAR-related lipid transfer (START) domain containing"	17579	protein-coding gene	gene with protein product		607048	"START domain containing 3"				Standard	NM_006804		Approved	es64, MLN64	uc002hsd.3	Q14849	OTTHUMG00000133213	ENST00000336308.5:c.59_70delCCTCCCTGGGCT	17.37:g.37809843_37809854delCCTCCCTGGGCT	ENSP00000337446:p.Ser21_Ser24del	Somatic	873	WXS	Illumina HiSeq	Phase_I	A8MXA4|B4DUY1|F5H0G2|Q53Y53|Q96HM9	In_Frame_Del	DEL	ENST00000336308.5	37	CCDS11341.1																																																																																				0.684	STARD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256933.1			-	37809854	CCTCCCTGGGCT	-	37809843	7	5	599	1	0	1	0	1	0	0	0	0	15269	739	26	0	61	0	STARD3	17	37809843	In_Frame_Del	DEL	CCTCCCTGGGCT	TCGA-GL-7966-01A-11D-2201-08	21469674	37809843	43385367	48	35904										
TTC25	83538	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	40101470	40101470	+	RNA	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	tgggaaattccagcaagccaTtgacacgtgagtgaccaaga	11	9	0	4			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr17:40101470T>C	ENST00000591658.1	+	0	1207							Q96NG3	TTC25_HUMAN	tetratricopeptide repeat domain 25							cytoplasm (GO:0005737)				endometrium(2)|large_intestine(3)|lung(5)|ovary(1)|urinary_tract(1)	12		all_cancers(22;8.16e-06)|Breast(137;0.000143)|all_epithelial(22;0.000236)				CAGCAAGCCATTGACACGTGA	0.458																																																0													44	39	41					17																	40101470		1882	4110	5992			83538			AK055498	CCDS74063.1	17q21.2	2014-08-12			ENSG00000204815	ENSG00000204815		"Tetratricopeptide (TTC) repeat domain containing"	25280	protein-coding gene	gene with protein product							Standard	XM_006722129		Approved	DKFZP434H0115	uc002hyj.4	Q96NG3	OTTHUMG00000175837		17.37:g.40101470T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6NX40|Q6PJ04|Q9H0K5	Missense_Mutation	SNP	ENST00000591658.1	37																																																																																					0.458	TTC25-001	KNOWN	basic	processed_transcript	processed_transcript	OTTHUMT00000449237.1	NM_031421		C	40101470	T	C	40101470	1	2	599	0	1	0	0	0	0	0	0	0	16705	1493	52	3		3	TTC25	17	40101470	RNA	SNP	T	TCGA-GL-7966-01A-11D-2201-08	2291627	40101470	41093740	49	35905										
MYCBPAP	55040	ucsc.edu	37	chr17	48608775	48608775	+	5'Flank	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	agaatgtcgaggaggctttgCgcctctgcaggtgactctcg	14	10	2	2			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr17:48608775C>T	ENST00000268933.3	+	0	0				MYCBPAP_ENST00000323776.5_Missense_Mutation_p.R981C|MYCBPAP_ENST00000436259.2_3'UTR|EPN3_ENST00000541226.1_5'Flank|EPN3_ENST00000537145.1_5'Flank	NM_017957.2	NP_060427.2	Q9H201	EPN3_HUMAN	epsin 3							clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|extracellular vesicular exosome (GO:0070062)|extrinsic component of plasma membrane (GO:0019897)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	lipid binding (GO:0008289)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(3)|lung(1)|ovary(1)|prostate(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	14	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;2.88e-09)			GGAGGCTTTGCGCCTCTGCAG	0.522																																																0													70	59	63					17																	48608775		2203	4300	6503	SO:0001631	upstream_gene_variant	84073			AF324241	CCDS11570.1	17q21.33	2008-07-18				ENSG00000049283			18235	protein-coding gene	gene with protein product		607264				10951261, 11359770	Standard	NM_017957		Approved	FLJ20778, MGC129899	uc002ira.4	Q9H201			17.37:g.48608775C>T	Exception_encountered	Somatic		WXS	Illumina HiSeq		A8K6J3|A8KAB2|Q9BVN6|Q9NWK2	Missense_Mutation	SNP	ENST00000268933.3	37	CCDS11570.1	.	.	.	.	.	.	.	.	.	.	C	9.729	1.161778	0.21538	.	.	ENSG00000136449	ENST00000323776	T	0.26810	1.71	5.1	1.66	0.24008	.	0.990904	0.08203	N	0.981944	T	0.24353	0.0590	L	0.57536	1.79	0.09310	N	1	B	0.17465	0.022	B	0.08055	0.003	T	0.31779	-0.9931	10	0.72032	D	0.01	0.4844	4.9734	0.14127	0.0:0.6024:0.1803:0.2173	.	944	Q8TBZ2	MYBPP_HUMAN	C	981	ENSP00000323184:R981C	ENSP00000323184:R981C	R	+	1	0	MYCBPAP	45963774	0.000000	0.05858	0.001000	0.08648	0.011000	0.07611	-0.063000	0.11655	1.040000	0.40099	0.549000	0.68633	CGC		0.522	EPN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367573.1	NM_017957		T	48608775	C	T	48608775	1	4	599	0	1	0	0	0	0	0	0	0	10026	768	27	1		1	MYCBPAP	17	48608775	5'Flank	SNP	C	TCGA-GL-7966-01A-11D-2201-08	8507305	48608775	32586435	50	35906										
ENPP7	339221	broad.mit.edu	37	chr17	77710872	77710872	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	cagttcaacaatggggagcaCggctttgacaacaaggacat	11	9	1	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr17:77710872C>T	ENST00000328313.5	+	4	1280	c.1059C>T	c.(1057-1059)caC>caT	p.H353H		NM_178543.3	NP_848638.3			ectonucleotide pyrophosphatase/phosphodiesterase 7											breast(1)|central_nervous_system(2)|endometrium(3)|kidney(2)|large_intestine(3)|lung(12)|ovary(2)|prostate(6)|skin(3)	34			OV - Ovarian serous cystadenocarcinoma(97;0.016)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			ATGGGGAGCACGGCTTTGACA	0.607																																																0													98	81	87					17																	77710872		2203	4300	6503	SO:0001819	synonymous_variant	339221			AY230663	CCDS11763.1	17q25.3	2014-04-09			ENSG00000182156	ENSG00000182156			23764	protein-coding gene	gene with protein product	"alkaline sphingomyelinase"					12885774	Standard	NM_178543		Approved	alk-SMase, NPP7	uc002jxa.3	Q6UWV6	OTTHUMG00000177462	ENST00000328313.5:c.1059C>T	17.37:g.77710872C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000328313.5	37	CCDS11763.1																																																																																				0.607	ENPP7-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437038.1	NM_178543		T	77710872	C	T	77710872	2	4	599	1	0	0	0	0	0	0	0	1	5137	535	19	1		1	ENPP7	17	77710872	Silent	SNP	C	TCGA-GL-7966-01A-11D-2201-08	29102097	77710872	3484338	51	35907										
SYT4	6860	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	40853736	40853736	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	atagaatgtaaaggtctcatCaaaagctggatccaaggttt	9	6	2	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr18:40853736C>G	ENST00000255224.3	-	2	1026	c.658G>C	c.(658-660)Gat>Cat	p.D220H	SYT4_ENST00000590752.1_Missense_Mutation_p.D202H|SYT4_ENST00000586678.1_Intron	NM_020783.3	NP_065834.1	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	220	C2 1. {ECO:0000255|PROSITE- ProRule:PRU00041}.|Phospholipid binding. {ECO:0000305}.				exocytosis (GO:0006887)|negative regulation of calcium ion-dependent exocytosis (GO:0045955)|negative regulation of vesicle fusion (GO:0031339)|neurotransmitter secretion (GO:0007269)	cell junction (GO:0030054)|dense core granule (GO:0031045)|integral component of membrane (GO:0016021)|neuron projection (GO:0043005)|perinuclear region of cytoplasm (GO:0048471)|synaptic vesicle (GO:0008021)	calcium ion binding (GO:0005509)|phosphatidylserine binding (GO:0001786)|transporter activity (GO:0005215)			breast(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(25)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)	44						AAGGTCTCATCAAAAGCTGGA	0.403																																					NSCLC(85;81 1419 2855 22820 35912)											0													111	108	109					18																	40853736		2203	4300	6503	SO:0001583	missense	6860			BC036538	CCDS11922.1	18q12.3	2013-01-21			ENSG00000132872	ENSG00000132872		"Synaptotagmins"	11512	protein-coding gene	gene with protein product		600103				8058779	Standard	NM_020783		Approved	KIAA1342, HsT1192	uc002law.3	Q9H2B2	OTTHUMG00000132610	ENST00000255224.3:c.658G>C	18.37:g.40853736C>G	ENSP00000255224:p.Asp220His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DEU3|Q9P2K4	Missense_Mutation	SNP	ENST00000255224.3	37	CCDS11922.1	.	.	.	.	.	.	.	.	.	.	C	22.7	4.319387	0.81469	.	.	ENSG00000132872	ENST00000255224;ENST00000442661	T	0.09163	3.01	5.87	5.87	0.94306	C2 membrane targeting protein (1);C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);	0.043597	0.85682	D	0.000000	T	0.33265	0.0857	M	0.64260	1.97	0.80722	D	1	D;D	0.67145	0.996;0.996	D;D	0.69142	0.962;0.962	T	0.00357	-1.1792	10	0.87932	D	0	.	20.5827	0.99408	0.0:1.0:0.0:0.0	.	202;220	B4DEU3;Q9H2B2	.;SYT4_HUMAN	H	220;25	ENSP00000255224:D220H	ENSP00000255224:D220H	D	-	1	0	SYT4	39107734	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.729000	0.84864	2.941000	0.99782	0.655000	0.94253	GAT		0.403	SYT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255851.2	NM_020783		G	40853736	C	G	40853736	3	3	599	1	0	0	0	0	1	0	0	0	15488	826	29	4	631	4	SYT4	18	40853736	Missense_Mutation	SNP	C	TCGA-GL-7966-01A-11D-2201-08		40853736	37223512	52	35908										
SERPINB10	5273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	61585305	61585305	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	acttaaaacagccaatgcgaTatatggagagaaaacgtatg	9	6	0	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr18:61585305T>A	ENST00000238508.3	+	4	400	c.341T>A	c.(340-342)aTa>aAa	p.I114K		NM_005024.1	NP_005015.1	P48595	SPB10_HUMAN	serpin peptidase inhibitor, clade B (ovalbumin), member 10	114					negative regulation of endopeptidase activity (GO:0010951)|regulation of proteolysis (GO:0030162)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|nucleus (GO:0005634)	serine-type endopeptidase inhibitor activity (GO:0004867)			breast(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(6)|prostate(1)|skin(3)|stomach(2)	24		Esophageal squamous(42;0.131)				GCCAATGCGATATATGGAGAG	0.363																																																0													103	94	97					18																	61585305		2203	4300	6503	SO:0001583	missense	5273			U35459	CCDS11990.1	18q21.3	2014-02-18	2005-08-18		ENSG00000242550	ENSG00000242550		"Serine (or cysteine) peptidase inhibitors"	8942	protein-coding gene	gene with protein product	"protease inhibitor 10 (ovalbumin type, bomapin)"	602058	"serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 10"	PI10		9268635, 10871600, 24172014	Standard	NM_005024		Approved	bomapin		P48595	OTTHUMG00000060594	ENST00000238508.3:c.341T>A	18.37:g.61585305T>A	ENSP00000238508:p.Ile114Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VAX4|Q4VAX7	Missense_Mutation	SNP	ENST00000238508.3	37	CCDS11990.1	.	.	.	.	.	.	.	.	.	.	T	9.136	1.012671	0.19277	.	.	ENSG00000242550	ENST00000238508	D	0.84370	-1.84	5.83	3.43	0.39272	Serpin domain (3);	0.694589	0.14087	N	0.342276	D	0.88555	0.6468	H	0.94771	3.58	0.09310	N	1	B	0.27316	0.175	B	0.28465	0.09	T	0.83166	-0.0096	10	0.87932	D	0	.	9.1438	0.36919	0.0:0.1534:0.0:0.8466	.	114	P48595	SPB10_HUMAN	K	114	ENSP00000238508:I114K	ENSP00000238508:I114K	I	+	2	0	SERPINB10	59736285	0.002000	0.14202	0.004000	0.12327	0.109000	0.19521	1.191000	0.32138	1.037000	0.40024	-0.274000	0.10170	ATA		0.363	SERPINB10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000134012.3	NM_005024		A	61585305	T	A	61585305	3	1	599	1	0	0	0	0	1	0	0	0	14110	1406	49	5	351	5	SERPINB10	18	61585305	Missense_Mutation	SNP	T	TCGA-GL-7966-01A-11D-2201-08	20731569	61585305	16491943	53	35909										
ZSWIM4	65249	broad.mit.edu	37	chr19	13941242	13941242	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	cctgtgcgagaagaaccactCggccttcgaggcggcctacc	12	15	0	2			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr19:13941242C>T	ENST00000254323.2	+	13	2537	c.2348C>T	c.(2347-2349)tCg>tTg	p.S783L	ZSWIM4_ENST00000440752.2_Missense_Mutation_p.S617L	NM_023072.2	NP_075560.2	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4	783							zinc ion binding (GO:0008270)			central_nervous_system(3)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(11)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	27			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			AAGAACCACTCGGCCTTCGAG	0.697																																																0													78	80	80					19																	13941242		2203	4300	6503	SO:0001583	missense	65249			AK022283	CCDS32924.1	19p13.13	2012-02-23			ENSG00000132003	ENSG00000132003		"Zinc fingers, SWIM-type"	25704	protein-coding gene	gene with protein product							Standard	NM_023072		Approved	FLJ12221	uc002mxh.1	Q9H7M6		ENST00000254323.2:c.2348C>T	19.37:g.13941242C>T	ENSP00000254323:p.Ser783Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000254323.2	37	CCDS32924.1	.	.	.	.	.	.	.	.	.	.	C	2.142	-0.396521	0.04899	.	.	ENSG00000132003	ENST00000254323;ENST00000440752	T;T	0.41065	1.01;1.01	4.14	4.14	0.48551	.	0.205124	0.32640	N	0.005825	T	0.21761	0.0524	N	0.08118	0	0.23791	N	0.996832	B;B	0.15719	0.014;0.002	B;B	0.09377	0.003;0.004	T	0.08994	-1.0695	10	0.11485	T	0.65	-2.7245	13.8964	0.63775	0.0:1.0:0.0:0.0	.	617;783	E7ERX2;Q9H7M6	.;ZSWM4_HUMAN	L	783;617	ENSP00000254323:S783L;ENSP00000405278:S617L	ENSP00000254323:S783L	S	+	2	0	ZSWIM4	13802242	0.980000	0.34600	0.110000	0.21437	0.293000	0.27360	2.803000	0.47924	1.849000	0.53698	0.484000	0.47621	TCG		0.697	ZSWIM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457457.1	XM_031342		T	13941242	C	T	13941242	3	4	599	1	0	0	0	0	1	0	0	0	18255	893	31	1	2398	1	ZSWIM4	19	13941242	Missense_Mutation	SNP	C	TCGA-GL-7966-01A-11D-2201-08		13941242	45187741	54	35910										
C19orf50	79036	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	18679377	18679377	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	cgaggacctgtcccatgtccAgcctggctccccagccatca	9	18	1	0			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr19:18679377A>T	ENST00000602094.1	+	5	1927	c.467A>T	c.(466-468)cAg>cTg	p.Q156L	KXD1_ENST00000539106.1_Missense_Mutation_p.Q156L|KXD1_ENST00000601630.1_Missense_Mutation_p.Q175L|KXD1_ENST00000599319.1_Missense_Mutation_p.Q156L|KXD1_ENST00000595073.1_Missense_Mutation_p.Q156L|AC005253.4_ENST00000593791.1_RNA|KXD1_ENST00000222307.4_Missense_Mutation_p.Q156L|KXD1_ENST00000540691.1_Missense_Mutation_p.Q156L			Q9BQD3	KXDL1_HUMAN	KxDL motif containing 1	156					vesicle-mediated transport (GO:0016192)	BLOC-1 complex (GO:0031083)											TCCCATGTCCAGCCTGGCTCC	0.657																																																0													96	89	92					19																	18679377		2203	4300	6503	SO:0001583	missense	79036			AK098346	CCDS12381.1	19p13.11	2011-11-24	2011-11-24	2011-11-24	ENSG00000105700	ENSG00000105700			28420	protein-coding gene	gene with protein product		615178	"chromosome 19 open reading frame 50"	C19orf50		21159114	Standard	NM_001171948		Approved	FLJ25480, MGC2749, KXDL	uc002njo.3	Q9BQD3		ENST00000602094.1:c.467A>T	19.37:g.18679377A>T	ENSP00000472836:p.Gln156Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O76098	Missense_Mutation	SNP	ENST00000602094.1	37	CCDS12381.1	.	.	.	.	.	.	.	.	.	.	A	12.86	2.064988	0.36470	.	.	ENSG00000105700	ENST00000540691;ENST00000539106;ENST00000222307	T;T;T	0.45276	0.9;0.9;0.9	4.59	-4.19	0.03835	.	0.517276	0.21501	N	0.073525	T	0.21590	0.0520	N	0.22421	0.69	0.09310	N	1	B	0.11235	0.004	B	0.09377	0.004	T	0.05699	-1.0869	10	0.59425	D	0.04	-5.0797	6.0241	0.19646	0.4521:0.2352:0.3127:0.0	.	156	Q9BQD3	CS050_HUMAN	L	156	ENSP00000443549:Q156L;ENSP00000438903:Q156L;ENSP00000222307:Q156L	ENSP00000222307:Q156L	Q	+	2	0	C19orf50	18540377	0.002000	0.14202	0.000000	0.03702	0.040000	0.13550	0.014000	0.13333	-0.954000	0.03640	-0.345000	0.07892	CAG		0.657	KXD1-003	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000465107.1	NM_024069		T	18679377	A	T	18679377	3	4	599	1	0	0	0	0	1	0	0	0	1934	188	7	5	481	5	C19orf50	19	18679377	Missense_Mutation	SNP	A	TCGA-GL-7966-01A-11D-2201-08	4738135	18679377	40449606	55	35911										
NKPD1	284353	broad.mit.edu	37	chr19	45656458	45656458	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	cttttcacgcgacaccagccGctcgatcttcttgcgctggc	9	16	3	0			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr19:45656458G>A	ENST00000438936.2	-	3	782	c.571C>T	c.(571-573)Cgg>Tgg	p.R191W	NKPD1_ENST00000589776.1_Missense_Mutation_p.R191W|AC005757.7_ENST00000589594.1_lincRNA|NKPD1_ENST00000317951.4_Missense_Mutation_p.R413W|NKPD1_ENST00000429338.1_Missense_Mutation_p.R191W			Q17RQ9	NKPD1_HUMAN	NTPase, KAP family P-loop domain containing 1	191	KAP NTPase.					integral component of membrane (GO:0016021)				endometrium(1)|lung(4)|prostate(2)|urinary_tract(1)	8		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00863)|GBM - Glioblastoma multiforme(486;0.231)		GACACCAGCCGCTCGATCTTC	0.617																																																0													11	14	13					19																	45656458		2064	4212	6276	SO:0001583	missense	284353			AK090919		19q13.32	2012-07-02		2012-07-02	ENSG00000179846	ENSG00000179846			24739	protein-coding gene	gene with protein product						14702039	Standard	NM_198478		Approved	FLJ33600	uc010xxi.2	Q17RQ9	OTTHUMG00000160521	ENST00000438936.2:c.571C>T	19.37:g.45656458G>A	ENSP00000401739:p.Arg191Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLG6|D6RH15|Q8N2A2	Missense_Mutation	SNP	ENST00000438936.2	37		.	.	.	.	.	.	.	.	.	.	G	16.16	3.043458	0.55003	.	.	ENSG00000179846	ENST00000317951;ENST00000438936;ENST00000429338	T;T;T	0.51574	0.7;0.7;0.72	4.66	3.57	0.40892	KAP P-loop (1);	0.070935	0.53938	D	0.000059	T	0.62925	0.2468	M	0.61703	1.905	0.34967	D	0.752799	D	0.89917	1.0	D	0.75484	0.986	T	0.74019	-0.3799	10	0.72032	D	0.01	-35.867	11.9149	0.52759	0.0:0.0:0.8259:0.1741	.	191	Q17RQ9	NKPD1_HUMAN	W	413;191;191	ENSP00000321976:R413W;ENSP00000401739:R191W;ENSP00000404706:R191W	ENSP00000321976:R413W	R	-	1	2	NKPD1	50348298	0.999000	0.42202	1.000000	0.80357	0.948000	0.59901	1.046000	0.30354	2.121000	0.65114	0.313000	0.20887	CGG		0.617	NKPD1-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000360950.2	NM_198478		A	45656458	G	A	45656458	3	1	599	1	0	0	0	0	1	0	0	0	10453	1086	38	1	1265	1	NKPD1	19	45656458	Missense_Mutation	SNP	G	TCGA-GL-7966-01A-11D-2201-08	26977081	45656458	13472525	56	35912										
MYBPC2	4606	broad.mit.edu	37	chr19	50939282	50939282	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	catgtagggaaggacgcagtGgtcgtggccaaggtgaacgg	18	7	0	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr19:50939282G>T	ENST00000357701.5	+	4	261	c.210G>T	c.(208-210)gtG>gtT	p.V70V		NM_004533.3	NP_004524.3	Q14324	MYPC2_HUMAN	myosin binding protein C, fast type	70	Ig-like C2-type 1.				cell adhesion (GO:0007155)|muscle filament sliding (GO:0030049)	cytosol (GO:0005829)|myosin filament (GO:0032982)	structural constituent of muscle (GO:0008307)			breast(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.0079)|GBM - Glioblastoma multiforme(134;0.0144)		AGGACGCAGTGGTCGTGGCCA	0.607																																																0													33	38	36					19																	50939282		2082	4200	6282	SO:0001819	synonymous_variant	4606				CCDS46152.1	19q13.33	2013-02-11	2001-11-28		ENSG00000086967	ENSG00000086967		"Myosin binding proteins", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	7550	protein-coding gene	gene with protein product	"fast-type muscle myosin-binding-protein C"	160793	"myosin-binding protein C, fast-type"			8375400	Standard	NM_004533		Approved	MYBPCF, MYBPC, MGC163408	uc002psf.2	Q14324		ENST00000357701.5:c.210G>T	19.37:g.50939282G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A1L4G9	Silent	SNP	ENST00000357701.5	37	CCDS46152.1																																																																																				0.607	MYBPC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464751.1	NM_004533		T	50939282	G	T	50939282	2	4	599	1	0	0	0	0	0	0	0	1	10019	1335	47	4		4	MYBPC2	19	50939282	Silent	SNP	G	TCGA-GL-7966-01A-11D-2201-08	5282824	50939282	8189701	57	35913										
TCFL5	10732	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	61490803	61490806	+	Frame_Shift_Del	DEL	AGAA	AGAA	-													0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	ttcaatttcttgctgataacAgaaagaaaatgctctaggca							TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	AGAA	AGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr20:61490803_61490806delAGAA	ENST00000335351.3	-	3	996_999	c.904_907delTTCT	c.(904-909)ttctgtfs	p.FC302fs	TCFL5_ENST00000217162.5_Frame_Shift_Del_p.FC254fs	NM_006602.2	NP_006593.2	Q9UL49	TCFL5_HUMAN	transcription factor-like 5 (basic helix-loop-helix)	302					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|regulation of cell differentiation (GO:0045595)|regulation of cell proliferation (GO:0042127)|regulation of transcription, DNA-templated (GO:0006355)|spermatogenesis (GO:0007283)|transcription from RNA polymerase II promoter (GO:0006366)	male germ cell nucleus (GO:0001673)|nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(1)|large_intestine(5)|lung(1)|urinary_tract(1)	9	Breast(26;5.68e-08)					TGCTGATAACAGAAAGAAAATGCT	0.387																																																0																																										SO:0001589	frameshift_variant	10732			AB012124	CCDS13506.1	20q13.33	2013-09-19			ENSG00000101190	ENSG00000101190		"Basic helix-loop-helix proteins"	11646	protein-coding gene	gene with protein product	"HPV-16 E2 binding protein 1"	604745				9763657	Standard	XM_005260185		Approved	Figlb, E2BP-1, CHA, bHLHe82	uc002ydp.3	Q9UL49	OTTHUMG00000032939	ENST00000335351.3:c.904_907delTTCT	20.37:g.61490807_61490810delAGAA	ENSP00000334294:p.Phe302fs	Somatic		WXS	Illumina HiSeq	Phase_I	O94771|Q9BYW0	Frame_Shift_Del	DEL	ENST00000335351.3	37	CCDS13506.1																																																																																				0.387	TCFL5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000080079.2	NM_006602		-	61490806	AGAA	-	61490803	7	5	599	1	0	1	0	1	0	0	0	0	15711	188	7	0	611	0	TCFL5	20	61490803	Frame_Shift_Del	DEL	AGAA	TCGA-GL-7966-01A-11D-2201-08		61490803	1534717	58	35914										
LSS	4047	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	47615617	47615617	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	ggtaggtctgccccatacagGcgaaggcctccaggccaaac	12	14	1	0			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr21:47615617G>A	ENST00000397728.3	-	19	1868	c.1790C>T	c.(1789-1791)gCc>gTc	p.A597V	AP001468.1_ENST00000594486.1_5'Flank|LSS_ENST00000522411.1_Missense_Mutation_p.A586V|LSS_ENST00000356396.4_Missense_Mutation_p.A597V|LSS_ENST00000457828.2_Missense_Mutation_p.A517V	NM_001145436.1|NM_002340.5	NP_001138908.1|NP_002331.3	P48449	ERG7_HUMAN	lanosterol synthase (2,3-oxidosqualene-lanosterol cyclase)	597					cholesterol biosynthetic process (GO:0006695)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)	endoplasmic reticulum membrane (GO:0005789)|lipid particle (GO:0005811)|membrane (GO:0016020)	lanosterol synthase activity (GO:0000250)	p.A597V(1)		cervix(1)|endometrium(6)|kidney(1)|large_intestine(3)|liver(1)|lung(7)|skin(1)|urinary_tract(1)	21	Breast(49;0.214)					CCCCATACAGGCGAAGGCCTC	0.582																																					Pancreas(114;955 2313 34923 50507)											1	Substitution - Missense(1)	skin(1)											127	109	115					21																	47615617		2203	4300	6503	SO:0001583	missense	4047			U22526	CCDS13733.1, CCDS46654.1, CCDS54489.1	21q22.3	1998-05-07			ENSG00000160285	ENSG00000160285	5.4.99.7		6708	protein-coding gene	gene with protein product		600909				7639730, 8655142	Standard	NM_001001438		Approved	OSC	uc002zij.3	P48449	OTTHUMG00000090633	ENST00000397728.3:c.1790C>T	21.37:g.47615617G>A	ENSP00000380837:p.Ala597Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DJZ9|D3DSN0|E9PEI9|G5E9Q9|Q8IYL6|Q9UEZ1	Missense_Mutation	SNP	ENST00000397728.3	37	CCDS13733.1	.	.	.	.	.	.	.	.	.	.	G	18.98	3.738473	0.69304	.	.	ENSG00000160285	ENST00000356396;ENST00000457828;ENST00000397728;ENST00000522411	T;T;T;T	0.25749	1.78;1.78;1.78;1.78	5.61	5.61	0.85477	Terpenoid cylases/protein prenyltransferase alpha-alpha toroid (1);	0.098347	0.64402	D	0.000001	T	0.31670	0.0804	L	0.39692	1.235	0.80722	D	1	D;D	0.62365	0.979;0.991	B;P	0.49922	0.393;0.626	T	0.01205	-1.1419	10	0.19590	T	0.45	.	19.224	0.93810	0.0:0.0:1.0:0.0	.	586;597	E9PEI9;P48449	.;ERG7_HUMAN	V	597;517;597;586	ENSP00000348762:A597V;ENSP00000409191:A517V;ENSP00000380837:A597V;ENSP00000429133:A586V	ENSP00000348762:A597V	A	-	2	0	LSS	46440045	1.000000	0.71417	1.000000	0.80357	0.709000	0.40893	9.232000	0.95325	2.633000	0.89246	0.655000	0.94253	GCC		0.582	LSS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207274.2			A	47615617	G	A	47615617	3	1	599	1	0	0	0	0	1	0	0	0	9072	1203	42	2	424	2	LSS	21	47615617	Missense_Mutation	SNP	G	TCGA-GL-7966-01A-11D-2201-08		47615617	514278	59	35915										
PRMT2	3275	bcgsc.ca	37	chr21	48083430	48083430	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	atgtctgtggctctgagctgGgctgtcacttccagacaaga	12	10	3	3			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr21:48083430G>A	ENST00000397637.1	+	10	2187	c.1233G>A	c.(1231-1233)tgG>tgA	p.W411*	PRMT2_ENST00000451211.2_Intron|PRMT2_ENST00000397638.2_Nonsense_Mutation_p.W411*|PRMT2_ENST00000291705.6_Intron|PRMT2_ENST00000458387.2_Missense_Mutation_p.G264S|PRMT2_ENST00000355680.3_Nonsense_Mutation_p.W411*|PRMT2_ENST00000440086.1_Nonsense_Mutation_p.W309*			P55345	ANM2_HUMAN	protein arginine methyltransferase 2	411	SAM-dependent MTase PRMT-type. {ECO:0000255|PROSITE-ProRule:PRU01015}.				developmental cell growth (GO:0048588)|histone arginine methylation (GO:0034969)|histone methylation (GO:0016571)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of transcription, DNA-templated (GO:0045892)|peptidyl-arginine methylation, to asymmetrical-dimethyl arginine (GO:0019919)|positive regulation of apoptotic process (GO:0043065)|positive regulation of transcription, DNA-templated (GO:0045893)|protein methylation (GO:0006479)|regulation of androgen receptor signaling pathway (GO:0060765)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|estrogen receptor binding (GO:0030331)|histone methyltransferase activity (GO:0042054)|histone-arginine N-methyltransferase activity (GO:0008469)|peroxisome proliferator activated receptor binding (GO:0042975)|progesterone receptor binding (GO:0033142)|protein homodimerization activity (GO:0042803)|protein-arginine N-methyltransferase activity (GO:0016274)|protein-arginine omega-N asymmetric methyltransferase activity (GO:0035242)|retinoic acid receptor binding (GO:0042974)|signal transducer activity (GO:0004871)|thyroid hormone receptor binding (GO:0046966)|transcription coactivator activity (GO:0003713)			NS(1)|breast(3)|endometrium(2)|large_intestine(2)|lung(5)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	16	Breast(49;0.247)	Lung NSC(3;0.245)		Epithelial(3;1.03e-07)|OV - Ovarian serous cystadenocarcinoma(3;4.68e-07)|all cancers(3;7.48e-07)|Colorectal(79;0.167)|Lung(125;0.203)|LUSC - Lung squamous cell carcinoma(216;0.23)|READ - Rectum adenocarcinoma(84;0.248)		CTCTGAGCTGGGCTGTCACTT	0.542																																																0													136	120	125					21																	48083430		2203	4300	6503	SO:0001587	stop_gained	3275			U80213	CCDS13737.1, CCDS56219.1, CCDS56220.1, CCDS68230.1, CCDS68231.1, CCDS74806.1	21q22.3	2014-06-12	2006-02-16	2006-02-16	ENSG00000160310	ENSG00000160310	2.1.1.125	"Protein arginine methyltransferases"	5186	protein-coding gene	gene with protein product		601961	"HMT1 (hnRNP methyltransferase, S. cerevisiae)-like 1", "HMT1 hnRNP methyltransferase-like 1 (S. cerevisiae)"	HRMT1L1		9545638	Standard	XM_005261111		Approved	MGC111373	uc002zjy.3	P55345	OTTHUMG00000048806	ENST00000397637.1:c.1233G>A	21.37:g.48083430G>A	ENSP00000380759:p.Trp411*	Somatic		WXS	Illumina HiSeq	Phase_1	B7U630|B7U631|B7U632|P78350|Q498Y5|Q5U7D4|Q6FHF0|Q99781|Q9BW15|Q9UMC2	Nonsense_Mutation	SNP	ENST00000397637.1	37	CCDS13737.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	46|46	12.763896|12.763896	0.99694|0.99694	.|.	.|.	ENSG00000160310|ENSG00000160310	ENST00000458387|ENST00000355680;ENST00000397638;ENST00000397637;ENST00000440086	T|.	0.75938|.	-0.98|.	5.15|5.15	5.15|5.15	0.70609|0.70609	.|.	.|0.195548	.|0.48767	.|D	.|0.000171	T|.	0.72104|.	0.3419|.	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	P|.	0.35433|.	0.501|.	B|.	0.22386|.	0.039|.	T|.	0.70722|.	-0.4794|.	7|.	.|.	.|.	.|.	-16.0416|-16.0416	16.504|16.504	0.84264|0.84264	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	264|.	B7U631|.	.|.	S|X	264|411;411;411;309	ENSP00000407463:G264S|.	.|.	G|W	+|+	1|3	0|0	PRMT2|PRMT2	46907858|46907858	1.000000|1.000000	0.71417|0.71417	0.962000|0.962000	0.40283|0.40283	0.939000|0.939000	0.58152|0.58152	6.436000|6.436000	0.73417|0.73417	2.583000|2.583000	0.87209|0.87209	0.561000|0.561000	0.74099|0.74099	GGC|TGG		0.542	PRMT2-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207401.1	NM_001535		A	48083430	G	A	48083430	4	1	599	1	0	0	0	0	0	1	0	0	12547	1241	43	2	1267	2	PRMT2	21	48083430	Nonsense_Mutation	SNP	G	TCGA-GL-7966-01A-11D-2201-08	467813	48083430	46465	60	35916										
NF2	4771	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	30061052	30061052	+	Splice_Site	DEL	T	T	-													0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	aaagcttcgtgttaataagcTggtaagttgagatcctggtt							TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr22:30061052delT	ENST00000338641.4	+	9	1325	c.884delT	c.(883-885)ctg>cg	p.L295fs	NF2_ENST00000403435.1_Splice_Site_p.L295fs|NF2_ENST00000403999.3_Splice_Site_p.L295fs|NF2_ENST00000334961.7_Splice_Site_p.L212fs|NF2_ENST00000347330.5_Splice_Site_p.L136fs|NF2_ENST00000397789.3_Splice_Site_p.L295fs|NF2_ENST00000361452.4_Splice_Site_p.L254fs|NF2_ENST00000361166.4_Splice_Site_p.L295fs|NF2_ENST00000353887.4_Splice_Site_p.L212fs|NF2_ENST00000361676.4_Splice_Site_p.L253fs|NF2_ENST00000413209.2_Intron	NM_000268.3|NM_016418.5|NM_181832.2	NP_000259.1|NP_057502.2|NP_861970.1	P35240	MERL_HUMAN	neurofibromin 2 (merlin)	295	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.				actin cytoskeleton organization (GO:0030036)|cell-cell junction organization (GO:0045216)|ectoderm development (GO:0007398)|hippocampus development (GO:0021766)|lens fiber cell differentiation (GO:0070306)|mesoderm formation (GO:0001707)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of DNA replication (GO:0008156)|negative regulation of JAK-STAT cascade (GO:0046426)|negative regulation of MAPK cascade (GO:0043409)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of tyrosine phosphorylation of Stat3 protein (GO:0042518)|negative regulation of tyrosine phosphorylation of Stat5 protein (GO:0042524)|odontogenesis of dentin-containing tooth (GO:0042475)|positive regulation of cell differentiation (GO:0045597)|positive regulation of stress fiber assembly (GO:0051496)|regulation of hippo signaling (GO:0035330)|regulation of neural precursor cell proliferation (GO:2000177)|regulation of protein localization to nucleus (GO:1900180)|regulation of protein stability (GO:0031647)|Schwann cell proliferation (GO:0014010)	adherens junction (GO:0005912)|apical part of cell (GO:0045177)|cleavage furrow (GO:0032154)|cortical actin cytoskeleton (GO:0030864)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|early endosome (GO:0005769)|extrinsic component of membrane (GO:0019898)|filopodium (GO:0030175)|lamellipodium (GO:0030027)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|ruffle (GO:0001726)		p.?(3)|p.F271_L295del(1)		NS(1)|bone(2)|breast(5)|central_nervous_system(21)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(17)|large_intestine(9)|liver(1)|lung(9)|meninges(372)|ovary(2)|pituitary(1)|pleura(9)|prostate(1)|skin(7)|soft_tissue(303)|stomach(2)|thyroid(2)|upper_aerodigestive_tract(1)|urinary_tract(4)	776						GTTAATAAGCTGGTAAGTTGA	0.333			"D, Mis, N, F, S, O"		"meningioma, acoustic neuroma, renal "	"meningioma, acoustic neuroma"			Neurofibromatosis, type 2																													yes	Rec	yes	Neurofibromatosis type 2	22	22q12.2	4771	neurofibromatosis type 2 gene		O	4	Unknown(3)|Deletion - In frame(1)	central_nervous_system(2)|large_intestine(1)|stomach(1)	GRCh37	CD070492	NF2	D							111	103	106					22																	30061052		2202	4300	6502	SO:0001630	splice_region_variant	4771	Familial Cancer Database	NF2, Central Neurofibromatosis, Bilateral Acoustic Neurofibromatosis	L11353	CCDS13861.1, CCDS13862.1, CCDS13863.1, CCDS13864.1, CCDS13865.1, CCDS54516.1	22q12.2	2014-09-17	2007-12-17		ENSG00000186575	ENSG00000186575		"A-kinase anchor proteins"	7773	protein-coding gene	gene with protein product	"moesin-ezrin-radixin like", "schwannomin"	607379	"neurofibromin 2 (bilateral acoustic neuroma)"			10591208	Standard	NM_000268		Approved	merlin	uc003age.4	P35240	OTTHUMG00000030727	ENST00000338641.4:c.885+1T>-	22.37:g.30061052delT		Somatic		WXS	Illumina HiSeq	Phase_I	O95683|Q8WUJ2|Q969N0|Q969Q3|Q96T30|Q96T31|Q96T32|Q96T33|Q9BTW3|Q9UNG9|Q9UNH3|Q9UNH4	Frame_Shift_Del	DEL	ENST00000338641.4	37	CCDS13861.1																																																																																				0.333	NF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075615.3	NM_000268	Frame_Shift_Del	-	30061052	T	-	30061052	8	5	599	1	0	1	0	1	0	0	1	0	10364	1594	55	0	918	0	NF2	22	30061052	Splice_Site	DEL	T	TCGA-GL-7966-01A-11D-2201-08		30061052	21243514	61	35917										
APOL3	80833	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr22	36556768	36556768	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	agatccagctgttctgagctGtgtggatcccacctccagcc	10	14	1	2	rs11089781	byFrequency	TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr22:36556768G>T	ENST00000349314.2	-	1	209	c.172C>A	c.(172-174)Cag>Aag	p.Q58K	APOL3_ENST00000424878.2_5'UTR|APOL3_ENST00000397287.2_5'UTR|APOL3_ENST00000361710.2_5'UTR|APOL3_ENST00000397293.2_5'UTR	NM_145640.2	NP_663615.1	O95236	APOL3_HUMAN	apolipoprotein L, 3	58					inflammatory response (GO:0006954)|lipoprotein metabolic process (GO:0042157)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|membrane (GO:0016020)	lipid binding (GO:0008289)|lipid transporter activity (GO:0005319)|signal transducer activity (GO:0004871)			endometrium(2)|large_intestine(1)|lung(1)|stomach(1)	5						GTTCTGAGCTGTGTGGATCCC	0.512																																																0													149	122	131					22																	36556768		2203	4300	6503	SO:0001583	missense	80833			AF305227	CCDS13922.1, CCDS13924.1	22q13.1	2013-01-24			ENSG00000128284	ENSG00000128284		"Apolipoproteins"	14868	protein-coding gene	gene with protein product		607253				11374903	Standard	NM_145640		Approved	CG12-1, APOLIII	uc003aot.3	O95236	OTTHUMG00000150632	ENST00000349314.2:c.172C>A	22.37:g.36556768G>T	ENSP00000344577:p.Gln58Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B1AHI4|B1AHI5|Q5U5N4|Q9BQ82|Q9BQA3	Missense_Mutation	SNP	ENST00000349314.2	37	CCDS13922.1	.	.	.	.	.	.	.	.	.	.	G	5.735	0.320098	0.10845	.	.	ENSG00000128284	ENST00000349314;ENST00000531095	T;T	0.60672	3.74;0.17	2.76	1.71	0.24356	.	680.984000	0.00751	U	0.001072	T	0.34890	0.0913	N	0.08118	0	0.23879	N	0.99658	P	0.43477	0.808	B	0.33799	0.17	T	0.40040	-0.9584	10	0.51188	T	0.08	.	6.0512	0.19787	0.1475:0.0:0.8525:0.0	.	58	O95236	APOL3_HUMAN	K	58;22	ENSP00000344577:Q58K;ENSP00000432271:Q22K	ENSP00000344577:Q58K	Q	-	1	0	APOL3	34886714	0.000000	0.05858	0.006000	0.13384	0.005000	0.04900	-0.640000	0.05440	0.726000	0.32339	0.603000	0.83216	CAG		0.512	APOL3-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000319268.1	NM_145641		T	36556768	G	T	36556768	3	4	599	1	0	0	0	0	1	0	0	0	807	1386	48	4	1048	4	APOL3	22	36556768	Missense_Mutation	SNP	G	TCGA-GL-7966-01A-11D-2201-08	6495716	36556768	14747798	62	35918										
CACNG2	10369	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	37098492	37098492	+	Frame_Shift_Del	DEL	T	T	-													0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	ggtttcattctcactgacacTtttggtcttgcaaacccctc							TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chr22:37098492delT	ENST00000300105.6	-	1	1111	c.130delA	c.(130-132)agtfs	p.S44fs	RP1-293L6.1_ENST00000430281.1_RNA	NM_006078.3	NP_006069.1	Q9Y698	CCG2_HUMAN	calcium channel, voltage-dependent, gamma subunit 2	44					membrane depolarization (GO:0051899)|membrane hyperpolarization (GO:0060081)|neuromuscular junction development (GO:0007528)|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:2000311)|synaptic transmission (GO:0007268)|transmission of nerve impulse (GO:0019226)|transport (GO:0006810)	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex (GO:0032281)|endocytic vesicle membrane (GO:0030666)|plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	voltage-gated calcium channel activity (GO:0005245)			breast(1)|endometrium(2)|kidney(1)|large_intestine(7)|lung(4)|prostate(1)|skin(1)|urinary_tract(1)	18						TCACTGACACTTTTGGTCTTG	0.488																																																0													266	225	239					22																	37098492		2203	4300	6503	SO:0001589	frameshift_variant	10369			AF096322	CCDS13931.1	22q13.1	2006-08-01			ENSG00000166862	ENSG00000166862		"Calcium channel subunits"	1406	protein-coding gene	gene with protein product		602911					Standard	NM_006078		Approved	stargazin, MGC138502, MGC138504	uc003aps.2	Q9Y698	OTTHUMG00000030612	ENST00000300105.6:c.130delA	22.37:g.37098492delT	ENSP00000300105:p.Ser44fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M1M1|Q5TGT3|Q9UGZ7	Frame_Shift_Del	DEL	ENST00000300105.6	37	CCDS13931.1																																																																																				0.488	CACNG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075500.2			-	37098492	T	-	37098492	7	5	599	1	0	1	0	1	0	0	0	0	2559	1609	56	0	857	0	CACNG2	22	37098492	Frame_Shift_Del	DEL	T	TCGA-GL-7966-01A-11D-2201-08	541724	37098492	14206074	63	35919										
ATP2B3	492	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	152823737	152823737	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.109375	7	1	1.55277777777778	3.32738095238095	0.907467532467532	1	1	0	gtggtggctgtgatcgtggcCttcacaggtgcctgcattac	14	10	1	1			TCGA-GL-7966-01A-11D-2201-08	TCGA-GL-7966-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	458fa5d9-d07d-4869-8e72-52b7318d7810	b720a727-863a-4225-99b2-bb5cd03e11bd	g.chrX:152823737C>T	ENST00000349466.2	+	16	2927	c.2601C>T	c.(2599-2601)gcC>gcT	p.A867A	ATP2B3_ENST00000359149.3_Silent_p.A867A|ATP2B3_ENST00000263519.4_Silent_p.A867A|ATP2B3_ENST00000370186.1_Silent_p.A853A|ATP2B3_ENST00000370181.2_Silent_p.A853A|ATP2B3_ENST00000393842.1_Silent_p.A853A|ATP2B3_ENST00000460549.1_3'UTR			Q16720	AT2B3_HUMAN	ATPase, Ca++ transporting, plasma membrane 3	867					blood coagulation (GO:0007596)|cell death (GO:0008219)|ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)|transport (GO:0006810)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	ATP binding (GO:0005524)|calcium-transporting ATPase activity (GO:0005388)|metal ion binding (GO:0046872)			NS(2)|breast(5)|endometrium(7)|large_intestine(8)|lung(23)|ovary(1)|pancreas(1)|skin(3)	50	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TGATCGTGGCCTTCACAGGTG	0.582																																																0													181	128	146					X																	152823737		2203	4300	6503	SO:0001819	synonymous_variant	492			U60414	CCDS14722.1, CCDS35440.1	Xq28	2014-07-18			ENSG00000067842	ENSG00000067842	3.6.3.8	"ATPases / P-type"	816	protein-coding gene	gene with protein product	"plasma membrane calcium-transporting ATPase 3", "cilia and flagella associated protein 39"	300014	"spinocerebellar ataxia, X-linked 1", "cerebellar ataxia 2 (X-linked)"	SCAX1, CLA2		8187550, 22912398	Standard	NM_021949		Approved	PMCA3, CFAP39	uc004fht.1	Q16720	OTTHUMG00000024202	ENST00000349466.2:c.2601C>T	X.37:g.152823737C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7WNR8|B7WNY5|Q12995|Q16858	Silent	SNP	ENST00000349466.2	37	CCDS35440.1																																																																																				0.582	ATP2B3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060957.1	NM_021949		T	152823737	C	T	152823737	2	4	599	1	0	0	0	0	0	0	0	1	1141	668	24	2		2	ATP2B3	23	152823737	Silent	SNP	C	TCGA-GL-7966-01A-11D-2201-08		152823737	2446823	64	35920										
PRAMEF17	391004	hgsc.bcm.edu	37	chr1	13718601	13718601	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tgctactctcgagatcctcaCgttaaaggactgtcagatcc	8	12	3	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr1:13718601C>T	ENST00000376098.4	+	3	1090	c.1064C>T	c.(1063-1065)aCg>aTg	p.T355M		NM_001099851.1	NP_001093321.1	Q5VTA0	PRA17_HUMAN	PRAME family member 17	355					negative regulation of apoptotic process (GO:0043066)|negative regulation of cell differentiation (GO:0045596)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)					kidney(1)|lung(2)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;9.86e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|COAD - Colon adenocarcinoma(227;0.000502)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GAGATCCTCACGTTAAAGGAC	0.537																																																0													9	22	19					1																	13718601		831	2388	3219	SO:0001583	missense	391004				CCDS41264.1	1p36.21	2013-01-17			ENSG00000204479	ENSG00000204479		"-"	29485	protein-coding gene	gene with protein product							Standard	NM_001099851		Approved	OTTHUMG00000007909	uc009vnz.1	Q5VTA0	OTTHUMG00000007909	ENST00000376098.4:c.1064C>T	1.37:g.13718601C>T	ENSP00000365266:p.Thr355Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2RUU4	Missense_Mutation	SNP	ENST00000376098.4	37	CCDS41264.1	.	.	.	.	.	.	.	.	.	.	C	0.396	-0.920692	0.02396	.	.	ENSG00000204479	ENST00000376098	T	0.11821	2.74	1.03	-2.05	0.07321	.	1.024390	0.07732	N	0.945353	T	0.06962	0.0177	N	0.14661	0.345	0.09310	N	1	B	0.14012	0.009	B	0.12837	0.008	T	0.37731	-0.9693	10	0.66056	D	0.02	.	1.9565	0.03377	0.4378:0.2899:0.0:0.2723	.	355	Q5VTA0	PRA17_HUMAN	M	355	ENSP00000365266:T355M	ENSP00000365266:T355M	T	+	2	0	PRAMEF17	13591188	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.801000	0.04550	-1.158000	0.02811	-0.507000	0.04495	ACG		0.537	PRAMEF17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000021780.2	NM_001099851		T	13718601	C	T	13718601	3	4	600	1	0	0	0	0	1	0	0	0	12442	536	19	1	1074	1	PRAMEF17	1	13718601	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08		13718601	235532020	1	35921										
FAM46B	115572	hgsc.bcm.edu	37	chr1	27332864	27332864	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	aagccccgcaccaggaggtgGcagtacttgaggaggccacc	14	13	0	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr1:27332864G>A	ENST00000289166.5	-	2	1014	c.849C>T	c.(847-849)tgC>tgT	p.C283C		NM_052943.3	NP_443175.2	Q96A09	FA46B_HUMAN	family with sequence similarity 46, member B	283										breast(1)|central_nervous_system(1)|large_intestine(3)|lung(4)|upper_aerodigestive_tract(1)	10		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;7.71e-51)|OV - Ovarian serous cystadenocarcinoma(117;1.11e-29)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000272)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|STAD - Stomach adenocarcinoma(196;0.00114)|READ - Rectum adenocarcinoma(331;0.0419)		CCAGGAGGTGGCAGTACTTGA	0.672																																																0													19	22	21					1																	27332864		2202	4295	6497	SO:0001819	synonymous_variant	115572			AK122816	CCDS294.2	1p35.3	2008-02-05			ENSG00000158246	ENSG00000158246			28273	protein-coding gene	gene with protein product						12477932	Standard	NM_052943		Approved	MGC16491	uc010ofj.2	Q96A09	OTTHUMG00000004278	ENST00000289166.5:c.849C>T	1.37:g.27332864G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000289166.5	37	CCDS294.2																																																																																				0.672	FAM46B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012347.2	NM_052943		A	27332864	G	A	27332864	2	1	600	1	0	0	0	0	0	0	0	1	5573	1195	42	2		2	FAM46B	1	27332864	Silent	SNP	G	TCGA-GL-8500-01A-11D-2396-08	13614263	27332864	221917757	2	35922										
IPO13	9670	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	44423086	44423086	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ttccccagcacacagaggccCtcctctacggcttccaatcc	6	19	1	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr1:44423086C>A	ENST00000372343.3	+	7	2067	c.1405C>A	c.(1405-1407)Ctc>Atc	p.L469I	IPO13_ENST00000492152.1_3'UTR	NM_014652.3	NP_055467.3	O94829	IPO13_HUMAN	importin 13	469					protein import into nucleus (GO:0006606)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				NS(1)|breast(1)|central_nervous_system(1)|cervix(2)|endometrium(6)|kidney(4)|large_intestine(6)|lung(13)|ovary(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	40	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				CACAGAGGCCCTCCTCTACGG	0.572																																																0													109	99	103					1																	44423086		2203	4300	6503	SO:0001583	missense	9670			AB018267	CCDS503.1	1p34.1	2008-02-05			ENSG00000117408	ENSG00000117408		"Importins"	16853	protein-coding gene	gene with protein product		610411				9872452, 11447110	Standard	NM_014652		Approved	IMP13, KIAA0724, RANBP13	uc001ckx.3	O94829	OTTHUMG00000008297	ENST00000372343.3:c.1405C>A	1.37:g.44423086C>A	ENSP00000361418:p.Leu469Ile	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPY4|Q5T4X3|Q7LC04|Q96HS3|Q9H8N3|Q9UFR1	Missense_Mutation	SNP	ENST00000372343.3	37	CCDS503.1	.	.	.	.	.	.	.	.	.	.	C	15.39	2.818926	0.50633	.	.	ENSG00000117408	ENST00000372343	T	0.66995	-0.24	5.69	4.78	0.61160	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.64402	D	0.000002	T	0.53351	0.1791	L	0.47716	1.5	0.80722	D	1	P	0.37663	0.604	B	0.35550	0.205	T	0.49312	-0.8953	10	0.22109	T	0.4	16.3773	7.0228	0.24924	0.0:0.7119:0.0:0.2881	.	469	O94829	IPO13_HUMAN	I	469	ENSP00000361418:L469I	ENSP00000361418:L469I	L	+	1	0	IPO13	44195673	0.942000	0.31987	1.000000	0.80357	0.991000	0.79684	1.613000	0.36900	1.420000	0.47138	0.561000	0.74099	CTC		0.572	IPO13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000022846.1	NM_014652		A	44423086	C	A	44423086	3	1	600	1	0	0	0	0	1	0	0	0	7801	681	24	4	1431	4	IPO13	1	44423086	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	17090222	44423086	204827535	3	35923										
CSDE1	7812	hgsc.bcm.edu	37	chr1	115280131	115280131	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	acactccctgttggactctgAcccggggcagctggagattt	12	12	1	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr1:115280131A>G	ENST00000358528.4	-	5	789	c.363T>C	c.(361-363)ggT>ggC	p.G121G	CSDE1_ENST00000530886.1_Intron|CSDE1_ENST00000534699.1_Silent_p.G121G|CSDE1_ENST00000261443.5_Intron|CSDE1_ENST00000438362.2_Silent_p.G167G|CSDE1_ENST00000339438.6_Intron|CSDE1_ENST00000369530.1_Intron	NM_001007553.2	NP_001007554.1	O75534	CSDE1_HUMAN	cold shock domain containing E1, RNA-binding	121					male gonad development (GO:0008584)|nuclear-transcribed mRNA catabolic process, no-go decay (GO:0070966)|regulation of transcription, DNA-templated (GO:0006355)	CRD-mediated mRNA stability complex (GO:0070937)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(4)|endometrium(11)|kidney(2)|large_intestine(12)|lung(17)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	51	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;2.21e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTGGACTCTGACCCGGGGCAG	0.423																																																0													78	68	71					1																	115280131		2203	4300	6503	SO:0001819	synonymous_variant	7812				CCDS30811.1, CCDS30812.1, CCDS44197.1, CCDS55626.1	1p13.2	2011-11-02			ENSG00000009307	ENSG00000009307			29905	protein-coding gene	gene with protein product	"upstream of NRAS"	191510				2204029, 10048485	Standard	NM_007158		Approved	D1S155E, UNR	uc001efi.3	O75534	OTTHUMG00000012060	ENST00000358528.4:c.363T>C	1.37:g.115280131A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K281|E9PGZ0|G5E9Q2|O94961|Q5TF04|Q5TF05|Q68DF1|Q68DI9|Q9Y2S4	Silent	SNP	ENST00000358528.4	37	CCDS30812.1																																																																																				0.423	CSDE1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033397.1	NM_007158		G	115280131	A	G	115280131	2	3	600	1	0	0	0	0	0	0	0	1	3931	262	10	3		3	CSDE1	1	115280131	Silent	SNP	A	TCGA-GL-8500-01A-11D-2396-08	70857045	115280131	133970490	4	35924										
C1orf112	55732	hgsc.bcm.edu	37	chr1	169775219	169775219	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ttcatgccaatacttggaagTttataattaagtaagtttgt	7	4	1	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr1:169775219T>C	ENST00000286031.6	+	7	1253	c.553T>C	c.(553-555)Ttt>Ctt	p.F185L	C1orf112_ENST00000413811.2_Missense_Mutation_p.F156L|C1orf112_ENST00000498289.1_3'UTR|C1orf112_ENST00000456684.1_Missense_Mutation_p.F243L|C1orf112_ENST00000359326.4_Missense_Mutation_p.F185L	NM_018186.2	NP_060656.2	Q9NSG2	CA112_HUMAN	chromosome 1 open reading frame 112	185										breast(1)|cervix(1)|endometrium(8)|kidney(4)|large_intestine(8)|lung(9)|ovary(1)|skin(1)|stomach(1)	34	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TACTTGGAAGTTTATAATTAA	0.269																																																0													80	76	77					1																	169775219		2203	4294	6497	SO:0001583	missense	55732			AL354614	CCDS1285.1	1q24.2	2012-06-26			ENSG00000000460	ENSG00000000460			25565	protein-coding gene	gene with protein product						12477932	Standard	NM_018186		Approved	FLJ10706	uc001ggq.3	Q9NSG2	OTTHUMG00000035821	ENST00000286031.6:c.553T>C	1.37:g.169775219T>C	ENSP00000286031:p.Phe185Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFP1|B3KU42|Q3KNQ1|Q9H8L5|Q9NVJ0	Missense_Mutation	SNP	ENST00000286031.6	37	CCDS1285.1	.	.	.	.	.	.	.	.	.	.	T	27.6	4.849916	0.91277	.	.	ENSG00000000460	ENST00000413811;ENST00000359326;ENST00000456684;ENST00000286031	T;T;T;T	0.49139	0.79;0.79;0.79;0.79	5.15	5.15	0.70609	.	0.000000	0.85682	D	0.000000	T	0.62551	0.2437	M	0.78637	2.42	0.53005	D	0.999963	D;D;D	0.89917	0.998;1.0;1.0	D;D;D	0.87578	0.987;0.998;0.998	T	0.69105	-0.5233	10	0.87932	D	0	-24.8356	14.1068	0.65096	0.0:0.0:0.0:1.0	.	156;127;185	B4E0A9;B4DGF2;Q9NSG2	.;.;CA112_HUMAN	L	156;185;243;185	ENSP00000389257:F156L;ENSP00000352276:F185L;ENSP00000415583:F243L;ENSP00000286031:F185L	ENSP00000286031:F185L	F	+	1	0	C1orf112	168041843	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.055000	0.76656	2.067000	0.61834	0.533000	0.62120	TTT		0.269	C1orf112-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087126.3	NM_018186		C	169775219	T	C	169775219	3	2	600	1	0	0	0	0	1	0	0	0	1987	1725	60	3	571	3	C1orf112	1	169775219	Missense_Mutation	SNP	T	TCGA-GL-8500-01A-11D-2396-08	54495088	169775219	79475402	5	35925										
SLC30A1	7779	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	211749303	211749308	+	In_Frame_Del	DEL	ATCTAA	ATCTAA	-													0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	attacaacacaaagagttggAtctaaatatagcacccagca							TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	ATCTAA	ATCTAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr1:211749303_211749308delATCTAA	ENST00000367001.4	-	2	1075_1080	c.946_951delTTAGAT	c.(946-951)ttagatdel	p.LD316del		NM_021194.2	NP_067017.2	Q9Y6M5	ZNT1_HUMAN	solute carrier family 30 (zinc transporter), member 1	316					cadmium ion transmembrane transport (GO:0070574)|calcium ion import (GO:0070509)|cellular calcium ion homeostasis (GO:0006874)|cellular zinc ion homeostasis (GO:0006882)|detoxification of cadmium ion (GO:0071585)|in utero embryonic development (GO:0001701)|negative regulation of calcium ion import (GO:0090281)|negative regulation of neurotransmitter secretion (GO:0046929)|negative regulation of zinc ion transmembrane import (GO:0071584)|transmembrane transport (GO:0055085)|zinc ion transport (GO:0006829)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nuclear membrane (GO:0031965)|plasma membrane (GO:0005886)|T-tubule (GO:0030315)	calcium channel inhibitor activity (GO:0019855)|zinc ion transmembrane transporter activity (GO:0005385)	p.D317Y(1)		central_nervous_system(1)|endometrium(1)|large_intestine(3)|liver(1)|lung(1)|ovary(3)|prostate(1)	11				OV - Ovarian serous cystadenocarcinoma(81;0.00535)|GBM - Glioblastoma multiforme(131;0.051)|all cancers(67;0.0604)|Epithelial(68;0.0978)		AAAGAGTTGGATCTAAATATAGCACC	0.364																																																1	Substitution - Missense(1)	large_intestine(1)																																								SO:0001651	inframe_deletion	7779			AF323590	CCDS1499.1	1q32.3	2013-05-22			ENSG00000170385	ENSG00000170385		"Solute carriers"	11012	protein-coding gene	gene with protein product		609521		ZNT1			Standard	NM_021194		Approved	ZRC1	uc001hio.1	Q9Y6M5	OTTHUMG00000036995	ENST00000367001.4:c.946_951delTTAGAT	1.37:g.211749303_211749308delATCTAA	ENSP00000355968:p.Leu316_Asp317del	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAK9|Q9BZF6	In_Frame_Del	DEL	ENST00000367001.4	37	CCDS1499.1																																																																																				0.364	SLC30A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000104738.2			-	211749308	ATCTAA	-	211749303	7	5	600	1	0	1	0	1	0	0	0	0	14566	330	12	0	576	0	SLC30A1	1	211749303	In_Frame_Del	DEL	ATCTAA	TCGA-GL-8500-01A-11D-2396-08	41974084	211749303	37501318	6	35926										
RRP15	51018	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	218480910	218480910	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gaaagatttcatcagtgtttTgagagggatggatggaagta	14	2	2	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr1:218480910T>G	ENST00000366932.3	+	4	671	c.641T>G	c.(640-642)tTg>tGg	p.L214W		NM_016052.3	NP_057136.2	Q9Y3B9	RRP15_HUMAN	ribosomal RNA processing 15 homolog (S. cerevisiae)	214						mitochondrion (GO:0005739)|nucleolus (GO:0005730)|nucleus (GO:0005634)			ACBD6/RRP15(2)	NS(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(7)|ovary(1)|upper_aerodigestive_tract(1)	14				all cancers(67;0.0315)|OV - Ovarian serous cystadenocarcinoma(81;0.0411)|GBM - Glioblastoma multiforme(131;0.06)|Epithelial(68;0.248)		ATCAGTGTTTTGAGAGGGATG	0.373																																																0													109	106	107					1																	218480910		2203	4300	6503	SO:0001583	missense	51018				CCDS1520.2	1q41	2008-02-05			ENSG00000067533	ENSG00000067533			24255	protein-coding gene	gene with protein product		611193	"KIAA0507"	KIAA0507		15769876	Standard	NM_016052		Approved	CGI-115	uc001hlj.3	Q9Y3B9	OTTHUMG00000039494	ENST00000366932.3:c.641T>G	1.37:g.218480910T>G	ENSP00000355899:p.Leu214Trp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000366932.3	37	CCDS1520.2	.	.	.	.	.	.	.	.	.	.	T	28.0	4.883907	0.91814	.	.	ENSG00000067533	ENST00000366932	T	0.56275	0.47	5.87	5.87	0.94306	.	0.000000	0.85682	D	0.000000	T	0.78329	0.4266	M	0.90759	3.145	0.58432	D	0.999998	D	0.89917	1.0	D	0.97110	1.0	T	0.83015	-0.0170	10	0.87932	D	0	.	16.5764	0.84681	0.0:0.0:0.0:1.0	.	214	Q9Y3B9	RRP15_HUMAN	W	214	ENSP00000355899:L214W	ENSP00000355899:L214W	L	+	2	0	RRP15	216547533	1.000000	0.71417	0.940000	0.37924	0.987000	0.75469	7.935000	0.87658	2.371000	0.80710	0.533000	0.62120	TTG		0.373	RRP15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000095284.1	NM_016052		G	218480910	T	G	218480910	3	3	600	1	0	0	0	0	1	0	0	0	13700	1821	63	5	655	5	RRP15	1	218480910	Missense_Mutation	SNP	T	TCGA-GL-8500-01A-11D-2396-08	6731607	218480910	30769711	7	35927										
GALNT2	2590	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	230385000	230385000	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	agaaggtcccggcaggggaaCccagtcgcccctataaagta	12	12	0	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr1:230385000C>A	ENST00000366672.4	+	9	960	c.888C>A	c.(886-888)aaC>aaA	p.N296K	GALNT2_ENST00000541865.1_Missense_Mutation_p.N206K|GALNT2_ENST00000543760.1_Missense_Mutation_p.N258K	NM_004481.3	NP_004472.1	Q10471	GALT2_HUMAN	polypeptide N-acetylgalactosaminyltransferase 2	296					cellular protein metabolic process (GO:0044267)|immunoglobulin biosynthetic process (GO:0002378)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein O-linked glycosylation (GO:0006493)|protein O-linked glycosylation via serine (GO:0018242)|protein O-linked glycosylation via threonine (GO:0018243)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi stack (GO:0005795)|integral component of Golgi membrane (GO:0030173)|membrane (GO:0016020)|perinuclear region of cytoplasm (GO:0048471)	carbohydrate binding (GO:0030246)|manganese ion binding (GO:0030145)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(10)|ovary(2)|prostate(5)|skin(2)	32	Breast(184;0.193)|Ovarian(103;0.249)	all_cancers(173;0.156)|Prostate(94;0.179)				GGCAGGGGAACCCAGTCGCCC	0.567																																																0													68	73	71					1																	230385000		2203	4300	6503	SO:0001583	missense	2590			BC041120	CCDS1582.1	1q41-q42	2014-03-13	2014-03-13		ENSG00000143641	ENSG00000143641	2.4.1.41	"Glycosyltransferase family 2 domain containing"	4124	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 2"	602274	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 2 (GalNAc-T2)"			9592121, 7592619	Standard	NM_004481		Approved	GalNAc-T2	uc010pwa.1	Q10471	OTTHUMG00000037771	ENST00000366672.4:c.888C>A	1.37:g.230385000C>A	ENSP00000355632:p.Asn296Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1Y3|B7Z8V8|C5HU00|Q9NPY4	Missense_Mutation	SNP	ENST00000366672.4	37	CCDS1582.1	.	.	.	.	.	.	.	.	.	.	C	12.77	2.038196	0.35989	.	.	ENSG00000143641	ENST00000543760;ENST00000366672;ENST00000543291;ENST00000541865	T;T;T	0.59638	0.25;0.25;0.25	4.99	0.378	0.16204	Glycosyl transferase, family 2 (1);	0.000000	0.85682	D	0.000000	T	0.39118	0.1066	L	0.28649	0.875	0.80722	D	1	B;B	0.27882	0.192;0.063	B;B	0.20577	0.03;0.018	T	0.21690	-1.0238	10	0.66056	D	0.02	.	8.1747	0.31275	0.0:0.5081:0.0:0.4919	.	296;258	Q10471;G3V1S6	GALT2_HUMAN;.	K	258;296;177;206	ENSP00000445017:N258K;ENSP00000355632:N296K;ENSP00000444346:N206K	ENSP00000355632:N296K	N	+	3	2	GALNT2	228451623	0.998000	0.40836	0.988000	0.46212	0.888000	0.51559	0.520000	0.22878	0.244000	0.21351	-0.373000	0.07131	AAC		0.567	GALNT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092158.1	NM_004481		A	230385000	C	A	230385000	3	1	600	1	0	0	0	0	1	0	0	0	6220	506	18	4	922	4	GALNT2	1	230385000	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	11904090	230385000	18865621	8	35928										
RGS7	6000	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	241094065	241094065	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	atttgatggccaaaaataggGggtctgcggaatgaaaagaa	13	4	1	3			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr1:241094065G>C	ENST00000407727.1	-	5	336	c.337C>G	c.(337-339)Ccc>Gcc	p.P113A	RGS7_ENST00000331110.7_Missense_Mutation_p.P87A|RGS7_ENST00000366565.1_Missense_Mutation_p.P113A|RGS7_ENST00000446183.2_Missense_Mutation_p.P29A|RGS7_ENST00000348120.2_Intron|RGS7_ENST00000401882.1_Intron|RGS7_ENST00000366562.4_Missense_Mutation_p.P113A|RGS7_ENST00000366564.1_Missense_Mutation_p.P113A|RGS7_ENST00000366563.1_Missense_Mutation_p.P113A			P49802	RGS7_HUMAN	regulator of G-protein signaling 7	113					G-protein coupled receptor signaling pathway (GO:0007186)|intracellular signal transduction (GO:0035556)|positive regulation of GTPase activity (GO:0043547)|termination of G-protein coupled receptor signaling pathway (GO:0038032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite terminus (GO:0044292)|heterotrimeric G-protein complex (GO:0005834)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	G-protein beta-subunit binding (GO:0031681)|GTPase activator activity (GO:0005096)|signal transducer activity (GO:0004871)			breast(1)|endometrium(2)|kidney(4)|large_intestine(6)|lung(51)|ovary(4)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	76		all_cancers(173;0.0131)	OV - Ovarian serous cystadenocarcinoma(106;0.027)			CAAAAATAGGGGGTCTGCGGA	0.383																																																0													102	114	110					1																	241094065		2203	4300	6503	SO:0001583	missense	6000			BC022009	CCDS31071.1, CCDS60457.1, CCDS60458.1, CCDS60459.1	1q43	2008-02-05	2007-08-14		ENSG00000182901	ENSG00000182901		"Regulators of G-protein signaling"	10003	protein-coding gene	gene with protein product		602517	"regulator of G-protein signalling 7"			8548815	Standard	XM_005273218		Approved		uc001hyv.2	P49802	OTTHUMG00000040107	ENST00000407727.1:c.337C>G	1.37:g.241094065G>C	ENSP00000384428:p.Pro113Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3H4|Q8TD66|Q8TD67|Q8WW09|Q9UNU7|Q9Y6B9	Missense_Mutation	SNP	ENST00000407727.1	37		.	.	.	.	.	.	.	.	.	.	G	25.7	4.660563	0.88154	.	.	ENSG00000182901	ENST00000331110;ENST00000366565;ENST00000366564;ENST00000366563;ENST00000446183;ENST00000366562;ENST00000407727	T;T;T;T;T;T;T	0.47177	1.16;1.1;1.14;1.13;0.85;1.14;1.11	5.83	5.83	0.93111	.	0.000000	0.85682	D	0.000000	T	0.74604	0.3738	M	0.88640	2.97	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.91635	0.987;0.998;0.994;0.999;0.996	T	0.78907	-0.2019	10	0.87932	D	0	-3.1678	17.2744	0.87111	0.0:0.0:1.0:0.0	.	29;87;113;113;113	B7Z223;B7Z257;P49802-2;P49802-5;P49802-3	.;.;.;.;.	A	87;113;113;113;29;113;113	ENSP00000331485:P87A;ENSP00000355523:P113A;ENSP00000355522:P113A;ENSP00000355521:P113A;ENSP00000390138:P29A;ENSP00000355520:P113A;ENSP00000384428:P113A	ENSP00000331485:P87A	P	-	1	0	RGS7	239160688	1.000000	0.71417	1.000000	0.80357	0.918000	0.54935	9.000000	0.93564	2.769000	0.95229	0.655000	0.94253	CCC		0.383	RGS7-204	KNOWN	basic	protein_coding	protein_coding		NM_002924		C	241094065	G	C	241094065	3	2	600	1	0	0	0	0	1	0	0	0	13323	1232	43	4	1178	4	RGS7	1	241094065	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08	10709065	241094065	8156556	9	35929										
PSME4	23198	broad.mit.edu;ucsc.edu	37	chr2	54176408	54176408	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ttgctaaattttctcccataAagtcgaatatatctgcaaga	5	8	2	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr2:54176408A>G	ENST00000404125.1	-	2	310	c.255T>C	c.(253-255)ctT>ctC	p.L85L	PSME4_ENST00000421748.2_5'Flank	NM_014614.2	NP_055429.2	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator subunit 4	85					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|cellular nitrogen compound metabolic process (GO:0034641)|cellular response to DNA damage stimulus (GO:0006974)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA repair (GO:0006281)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|multicellular organismal development (GO:0007275)|negative regulation of apoptotic process (GO:0043066)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|proteasomal ubiquitin-independent protein catabolic process (GO:0010499)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|spermatogenesis, exchange of chromosomal proteins (GO:0035093)|viral process (GO:0016032)	cytosol (GO:0005829)|nucleus (GO:0005634)|spermatoproteasome complex (GO:1990111)	lysine-acetylated histone binding (GO:0070577)|peptidase activator activity (GO:0016504)			breast(5)|endometrium(8)|kidney(1)|large_intestine(11)|lung(26)|ovary(4)|pancreas(1)|prostate(1)|stomach(1)|urinary_tract(2)	60			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TTCTCCCATAAAGTCGAatat	0.333																																																0													78	64	68					2																	54176408		692	1591	2283	SO:0001819	synonymous_variant	23198			D38521	CCDS33197.2	2p16.1	2003-04-14			ENSG00000068878	ENSG00000068878		"Proteasome (prosome, macropain) subunits"	20635	protein-coding gene	gene with protein product		607705				7584044, 12093752	Standard	NM_014614		Approved	PA200, KIAA0077	uc002rxp.2	Q14997	OTTHUMG00000151852	ENST00000404125.1:c.255T>C	2.37:g.54176408A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q1XBG4|Q1XBG5|Q1XBG6|Q2M1Z0|Q6IPR2|Q86XF8	Silent	SNP	ENST00000404125.1	37	CCDS33197.2																																																																																				0.333	PSME4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324163.1	XM_040158		G	54176408	A	G	54176408	2	3	600	1	0	0	0	0	0	0	0	1	12719	1	1	3		3	PSME4	2	54176408	Silent	SNP	A	TCGA-GL-8500-01A-11D-2396-08		54176408	189022965	10	35930										
VPS24	51652	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	86790455	86790455	+	Frame_Shift_Del	DEL	T	T	-													0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tgggcggcttctcctgggtcTttccaaacagccccatgacg							TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr2:86790455delT	ENST00000263856.4	-	1	145	c.17delA	c.(16-18)aagfs	p.K6fs	CHMP3_ENST00000409727.1_Frame_Shift_Del_p.K6fs|CHMP3_ENST00000439940.2_Intron|AC015971.2_ENST00000439077.1_RNA|RNF103-CHMP3_ENST00000604011.1_Intron|AC015971.2_ENST00000597638.1_RNA|CHMP3_ENST00000409225.2_5'UTR	NM_001193517.1|NM_016079.3	NP_001180446.1|NP_057163.1	Q9Y3E7	CHMP3_HUMAN	charged multivesicular body protein 3	6	Intramolecular interaction with C- terminus.				apoptotic process (GO:0006915)|cell cycle (GO:0007049)|cell division (GO:0051301)|endosomal transport (GO:0016197)|membrane organization (GO:0061024)|positive regulation of viral release from host cell (GO:1902188)|protein transport (GO:0015031)|regulation of viral process (GO:0050792)|viral life cycle (GO:0019058)|viral process (GO:0016032)	cytosol (GO:0005829)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)											CTCCTGGGTCTTTCCAAACAG	0.632																																																0													120	123	122					2																	86790455		2203	4300	6503	SO:0001589	frameshift_variant	51652			AF219226	CCDS33236.1, CCDS42707.1, CCDS54375.1	2p11.2	2011-09-21	2011-09-21	2011-09-21	ENSG00000115561	ENSG00000115561		"Charged multivesicular body proteins"	29865	protein-coding gene	gene with protein product		610052	"vacuolar protein sorting 24 (yeast)", "vacuolar protein sorting 24 homolog (S. cerevisiae)"	VPS24		11549700, 12878588	Standard	NM_016079		Approved	NEDF, CGI-149		Q9Y3E7	OTTHUMG00000153189	ENST00000263856.4:c.17delA	2.37:g.86790455delT	ENSP00000263856:p.Lys6fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3W0|B4DG34|B8ZZM0|B8ZZX5|Q3ZTS9|Q53S71|Q53SU5|Q9NZ51	Frame_Shift_Del	DEL	ENST00000263856.4	37	CCDS33236.1																																																																																				0.632	CHMP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000330015.2	NM_016079		-	86790455	T	-	86790455	7	5	600	1	0	1	0	1	0	0	0	0	17207	1609	56	0	675	0	VPS24	2	86790455	Frame_Shift_Del	DEL	T	TCGA-GL-8500-01A-11D-2396-08	32614047	86790455	156408918	11	35931										
CHRNA1	1134	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	175624262	175624262	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ggcccacggtgacctccacgAcctggcggtggtcttccact	12	16	1	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr2:175624262A>T	ENST00000261007.5	-	2	209	c.143T>A	c.(142-144)gTc>gAc	p.V48D	CHRNA1_ENST00000409219.1_Missense_Mutation_p.V48D|CHRNA1_ENST00000348749.5_Missense_Mutation_p.V48D|AC018890.6_ENST00000442996.1_RNA|CHRNA1_ENST00000409542.1_Missense_Mutation_p.V48D|CHRNA1_ENST00000409323.1_Missense_Mutation_p.V48D	NM_001039523.2	NP_001034612.1	P02708	ACHA_HUMAN	cholinergic receptor, nicotinic, alpha 1 (muscle)	48					cation transmembrane transport (GO:0098655)|cation transport (GO:0006812)|ion transmembrane transport (GO:0034220)|muscle cell cellular homeostasis (GO:0046716)|musculoskeletal movement (GO:0050881)|neuromuscular junction development (GO:0007528)|neuromuscular process (GO:0050905)|neuromuscular synaptic transmission (GO:0007274)|neuron cellular homeostasis (GO:0070050)|neuronal action potential (GO:0019228)|regulation of membrane potential (GO:0042391)|signal transduction (GO:0007165)|skeletal muscle contraction (GO:0003009)|skeletal muscle tissue growth (GO:0048630)|synaptic transmission (GO:0007268)|transport (GO:0006810)	acetylcholine-gated channel complex (GO:0005892)|cell junction (GO:0030054)|cell surface (GO:0009986)|neuromuscular junction (GO:0031594)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	acetylcholine binding (GO:0042166)|acetylcholine receptor activity (GO:0015464)|acetylcholine-activated cation-selective channel activity (GO:0004889)|ion channel activity (GO:0005216)			breast(3)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(15)|ovary(3)|prostate(3)|skin(4)	37					Galantamine(DB00674)	GACCTCCACGACCTGGCGGTG	0.617																																																0													132	130	130					2																	175624262		2203	4300	6503	SO:0001583	missense	1134			Y00762	CCDS2261.1, CCDS33331.1	2q31.1	2012-02-11	2006-02-01		ENSG00000138435	ENSG00000138435		"Cholinergic receptors", "Ligand-gated ion channels / Acetylcholine receptors, nicotinic"	1955	protein-coding gene	gene with protein product	"acetylcholine receptor, nicotinic, alpha 1 (muscle)"	100690	"cholinergic receptor, nicotinic, alpha polypeptide 1 (muscle)"	CHRNA			Standard	NM_001039523		Approved		uc002uje.2	P02708	OTTHUMG00000132357	ENST00000261007.5:c.143T>A	2.37:g.175624262A>T	ENSP00000261007:p.Val48Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRV6|D3DPE8	Missense_Mutation	SNP	ENST00000261007.5	37	CCDS33331.1	.	.	.	.	.	.	.	.	.	.	A	19.63	3.863276	0.71949	.	.	ENSG00000138435	ENST00000348749;ENST00000261007;ENST00000409542;ENST00000409219;ENST00000409323	T;T;T;T;T	0.78595	-1.19;-1.19;-1.19;-1.19;-1.19	5.91	-8.16	0.01061	Neurotransmitter-gated ion-channel ligand-binding (3);	0.620936	0.18070	N	0.152675	T	0.67021	0.2849	L	0.61036	1.89	0.09310	N	1	B;B;B	0.24043	0.06;0.074;0.096	B;B;B	0.28305	0.066;0.068;0.088	T	0.50717	-0.8795	10	0.22109	T	0.4	.	11.3745	0.49719	0.6712:0.0:0.2368:0.092	.	48;48;48	G5E9G9;Q53SH4;P02708	.;.;ACHA_HUMAN	D	48	ENSP00000261008:V48D;ENSP00000261007:V48D;ENSP00000387026:V48D;ENSP00000386611:V48D;ENSP00000386684:V48D	ENSP00000261007:V48D	V	-	2	0	CHRNA1	175332508	0.000000	0.05858	0.000000	0.03702	0.860000	0.49131	0.097000	0.15168	-1.811000	0.01229	0.379000	0.24179	GTC		0.617	CHRNA1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000334116.1			T	175624262	A	T	175624262	3	4	600	1	0	0	0	0	1	0	0	0	3383	275	10	5	1341	5	CHRNA1	2	175624262	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	88833807	175624262	67575111	12	35932										
SLC40A1	30061	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	190428363	190428363	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gactgacagagattatgggcAcagattcaggacttgtctcc	11	9	2	3			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr2:190428363A>T	ENST00000261024.2	-	7	1775	c.1349T>A	c.(1348-1350)gTg>gAg	p.V450E		NM_014585.5	NP_055400.1	Q9NP59	S40A1_HUMAN	solute carrier family 40 (iron-regulated transporter), member 1	450					anatomical structure morphogenesis (GO:0009653)|cellular iron ion homeostasis (GO:0006879)|endothelium development (GO:0003158)|iron ion transmembrane transport (GO:0034755)|lymphocyte homeostasis (GO:0002260)|multicellular organismal iron ion homeostasis (GO:0060586)|negative regulation of apoptotic process (GO:0043066)|regulation of transcription from RNA polymerase II promoter in response to iron (GO:0034395)|spleen trabecula formation (GO:0060345)|transmembrane transport (GO:0055085)	basolateral plasma membrane (GO:0016323)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|multivesicular body (GO:0005771)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)	iron ion transmembrane transporter activity (GO:0005381)			endometrium(3)|large_intestine(1)|lung(6)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	14			OV - Ovarian serous cystadenocarcinoma(117;0.000917)|Epithelial(96;0.014)|all cancers(119;0.0491)			GATTATGGGCACAGATTCAGG	0.368																																																0													78	80	80					2																	190428363		2203	4300	6503	SO:0001583	missense	30061			AF215636	CCDS2299.1	2q32	2014-09-17	2003-06-04	2003-06-05	ENSG00000138449	ENSG00000138449		"Solute carriers"	10909	protein-coding gene	gene with protein product	"ferroportin 1"	604653	"solute carrier family 11 (proton-coupled divalent metal ion transporters), member 3"	SLC11A3		10828623	Standard	NM_014585		Approved	MTP1, IREG1, FPN1, HFE4	uc002uqp.4	Q9NP59	OTTHUMG00000132662	ENST00000261024.2:c.1349T>A	2.37:g.190428363A>T	ENSP00000261024:p.Val450Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FI62|Q7Z4F8|Q8IVB2|Q9NRL0	Missense_Mutation	SNP	ENST00000261024.2	37	CCDS2299.1	.	.	.	.	.	.	.	.	.	.	A	13.30	2.195338	0.38806	.	.	ENSG00000138449	ENST00000261024	D	0.92397	-3.03	6.02	0.296	0.15757	Major facilitator superfamily domain, general substrate transporter (1);	0.667620	0.15785	N	0.244735	T	0.81245	0.4782	N	0.16368	0.405	0.22827	N	0.998683	B	0.02656	0.0	B	0.06405	0.002	T	0.61237	-0.7103	10	0.02654	T	1	-0.1187	12.0936	0.53742	0.5205:0.0:0.0:0.4795	.	450	Q9NP59	S40A1_HUMAN	E	450	ENSP00000261024:V450E	ENSP00000261024:V450E	V	-	2	0	SLC40A1	190136608	0.973000	0.33851	0.001000	0.08648	0.433000	0.31745	1.091000	0.30915	-0.201000	0.10284	0.528000	0.53228	GTG		0.368	SLC40A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255916.2			T	190428363	A	T	190428363	3	4	600	1	0	0	0	0	1	0	0	0	14641	159	6	5	374	5	SLC40A1	2	190428363	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	14804101	190428363	52771010	13	35933										
HECW2	57520	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	197187250	197187250	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ggactggaatggttagtttcCccagaaaacgcttgatgatg	12	7	0	3			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr2:197187250C>T	ENST00000260983.3	-	7	1018	c.836G>A	c.(835-837)gGg>gAg	p.G279E	HECW2_ENST00000409111.1_5'UTR	NM_020760.1	NP_065811.1	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin protein ligase 2	279	C2. {ECO:0000255|PROSITE- ProRule:PRU00041}.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			biliary_tract(1)|breast(3)|central_nervous_system(4)|cervix(2)|endometrium(7)|kidney(4)|large_intestine(24)|lung(45)|ovary(5)|pancreas(2)|prostate(2)|skin(10)|upper_aerodigestive_tract(2)|urinary_tract(2)	113						GGTTAGTTTCCCCAGAAAACG	0.413																																																0													123	126	125					2																	197187250		2203	4300	6503	SO:0001583	missense	57520			AL390186	CCDS33354.1	2q32.3	2004-12-13			ENSG00000138411	ENSG00000138411			29853	protein-coding gene	gene with protein product						10718198, 12890487	Standard	NM_020760		Approved	KIAA1301, NEDL2	uc002utm.1	Q9P2P5	OTTHUMG00000154435	ENST00000260983.3:c.836G>A	2.37:g.197187250C>T	ENSP00000260983:p.Gly279Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B8ZZB4|Q17RT5|Q68DF8|Q9NPS9	Missense_Mutation	SNP	ENST00000260983.3	37	CCDS33354.1	.	.	.	.	.	.	.	.	.	.	C	33	5.280284	0.95489	.	.	ENSG00000138411	ENST00000260983	T	0.77489	-1.1	5.49	5.49	0.81192	C2 membrane targeting protein (1);C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);	0.221358	0.47093	D	0.000253	D	0.88496	0.6452	M	0.75447	2.3	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.88816	0.3295	10	0.87932	D	0	.	19.6359	0.95733	0.0:1.0:0.0:0.0	.	279	Q9P2P5	HECW2_HUMAN	E	279	ENSP00000260983:G279E	ENSP00000260983:G279E	G	-	2	0	HECW2	196895495	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.635000	0.83286	2.878000	0.98634	0.650000	0.86243	GGG		0.413	HECW2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335199.3	NM_020760		T	197187250	C	T	197187250	3	4	600	1	0	0	0	0	1	0	0	0	7050	623	22	2	3974	2	HECW2	2	197187250	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	6758887	197187250	46012123	14	35934										
ABCB6	10058	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	220075814	220075814	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	caactccaatgtgagaccggAgagaggcctgggtcacctag	13	11	1	2	rs387906909		TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr2:220075814A>G	ENST00000265316.3	-	15	2301	c.1985T>C	c.(1984-1986)cTc>cCc	p.L662P	ABCB6_ENST00000439002.2_Missense_Mutation_p.L616P	NM_005689.2	NP_005680.1	Q9NP58	ABCB6_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP), member 6 (Langereis blood group)	662	ABC transporter. {ECO:0000255|PROSITE- ProRule:PRU00434}.				brain development (GO:0007420)|cellular iron ion homeostasis (GO:0006879)|heme transport (GO:0015886)|porphyrin-containing compound biosynthetic process (GO:0006779)|skin development (GO:0043588)|transmembrane transport (GO:0055085)|transport (GO:0006810)	ATP-binding cassette (ABC) transporter complex (GO:0043190)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of mitochondrial outer membrane (GO:0031307)|mitochondrial envelope (GO:0005740)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|efflux transmembrane transporter activity (GO:0015562)|heme binding (GO:0020037)|heme transporter activity (GO:0015232)|heme-transporting ATPase activity (GO:0015439)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(2)|large_intestine(9)|lung(9)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)	34		Renal(207;0.0474)		Epithelial(149;1.22e-06)|all cancers(144;0.000201)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GTGAGACCGGAGAGAGGCCTG	0.582																																																0													108	106	106					2																	220075814		2203	4300	6503	SO:0001583	missense	10058			AF070598	CCDS2436.1	2q36	2014-08-27	2014-08-27		ENSG00000115657	ENSG00000115657		"ATP binding cassette transporters / subfamily B"	47	protein-coding gene	gene with protein product	"ATP-binding cassette half-transporter"	605452	"ATP-binding cassette, sub-family B (MDR/TAP), member 6"			8894702, 9110174	Standard	NM_005689		Approved	EST45597, umat, MTABC3	uc002vkc.2	Q9NP58	OTTHUMG00000133131	ENST00000265316.3:c.1985T>C	2.37:g.220075814A>G	ENSP00000265316:p.Leu662Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O75542|Q49A66|Q59GQ5|Q6ZME6|Q96ME8|Q9HAQ6|Q9HAQ7	Missense_Mutation	SNP	ENST00000265316.3	37	CCDS2436.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	20.9|20.9	4.065625|4.065625	0.76187|0.76187	.|.	.|.	ENSG00000115657|ENSG00000115657	ENST00000265316;ENST00000439002|ENST00000295750	D;D|.	0.92299|.	-3.01;-3.01|.	4.7|4.7	4.7|4.7	0.59300|0.59300	ATPase, AAA+ type, core (1);ABC transporter-like (2);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.79885|0.79885	0.4523|0.4523	M|M	0.89478|0.89478	3.035|3.035	0.80722|0.80722	D|D	1|1	D;D|.	0.89917|.	1.0;1.0|.	D;D|.	0.83275|.	0.994;0.996|.	D|D	0.83833|0.83833	0.0253|0.0253	10|5	0.87932|.	D|.	0|.	-18.3339|-18.3339	14.286|14.286	0.66247|0.66247	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	616;662|.	Q9NP58-4;Q9NP58|.	.;ABCB6_HUMAN|.	P|P	662;616|510	ENSP00000265316:L662P;ENSP00000394333:L616P|.	ENSP00000265316:L662P|.	L|S	-|-	2|1	0|0	ABCB6|ABCB6	219784058|219784058	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.828000|0.828000	0.46876|0.46876	8.912000|8.912000	0.92726|0.92726	2.084000|2.084000	0.62774|0.62774	0.528000|0.528000	0.53228|0.53228	CTC|TCC		0.582	ABCB6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256820.2	NM_005689		G	220075814	A	G	220075814	3	3	600	1	0	0	0	0	1	0	0	0	45	304	11	3	563	3	ABCB6	2	220075814	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	22888564	220075814	23123559	15	35935										
SEC13	6396	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	10342967	10342967	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	actgctcgttctgctggcccTctgtcactgatgctgatacg	10	13	3	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr3:10342967T>C	ENST00000350697.3	-	9	1072	c.947A>G	c.(946-948)gAg>gGg	p.E316G	SEC13_ENST00000397109.3_Missense_Mutation_p.E302G|SEC13_ENST00000337354.4_Missense_Mutation_p.E319G|SEC13_ENST00000383801.2_Missense_Mutation_p.E362G|SEC13_ENST00000492602.1_Intron|SEC13_ENST00000397117.1_Intron	NM_183352.1	NP_899195.1	P55735	SEC13_HUMAN	SEC13 homolog (S. cerevisiae)	316					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular protein metabolic process (GO:0044267)|COPII vesicle coating (GO:0048208)|ER to Golgi vesicle-mediated transport (GO:0006888)|intracellular protein transport (GO:0006886)|membrane organization (GO:0061024)|mitotic cell cycle (GO:0000278)|mRNA transport (GO:0051028)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)	cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|ER to Golgi transport vesicle membrane (GO:0012507)|extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|nuclear envelope (GO:0005635)|nuclear pore outer ring (GO:0031080)				NS(1)|breast(2)|endometrium(3)|kidney(1)|large_intestine(3)|lung(5)|ovary(1)|skin(1)	17						CTGCTGGCCCTCTGTCACTGA	0.612																																																0													120	96	104					3																	10342967		2203	4300	6503	SO:0001583	missense	6396				CCDS2599.1, CCDS46751.1, CCDS63540.1	3p25-p24	2013-01-10	2006-11-07	2006-11-07	ENSG00000157020	ENSG00000157020		"WD repeat domain containing"	10697	protein-coding gene	gene with protein product		600152	"SEC13 (S. cerevisiae)-like 1", "SEC13-like 1 (S. cerevisiae)"	D3S1231E, SEC13L1		7987303	Standard	NM_183352		Approved	SEC13R, npp-20	uc003bvn.3	P55735	OTTHUMG00000128671	ENST00000350697.3:c.947A>G	3.37:g.10342967T>C	ENSP00000312122:p.Glu316Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MV37|B4DXJ1|Q5BJF0|Q9BRM6|Q9BUG7	Missense_Mutation	SNP	ENST00000350697.3	37	CCDS2599.1	.	.	.	.	.	.	.	.	.	.	T	17.66	3.444051	0.63067	.	.	ENSG00000157020	ENST00000397109;ENST00000337354;ENST00000350697;ENST00000383801	T;T;T;T	0.69806	0.84;-0.3;-0.43;-0.37	5.23	5.23	0.72850	.	0.288120	0.41001	D	0.000976	T	0.53706	0.1813	L	0.36672	1.1	0.54753	D	0.999984	P;B	0.34522	0.455;0.0	B;B	0.30105	0.111;0.0	T	0.53229	-0.8468	10	0.27785	T	0.31	.	13.0995	0.59212	0.0:0.0:0.0:1.0	.	362;316	B4DXJ1;P55735	.;SEC13_HUMAN	G	302;319;316;362	ENSP00000380298:E302G;ENSP00000336566:E319G;ENSP00000312122:E316G;ENSP00000373312:E362G	ENSP00000336566:E319G	E	-	2	0	SEC13	10317967	1.000000	0.71417	1.000000	0.80357	0.859000	0.49053	7.914000	0.87478	1.971000	0.57363	0.533000	0.62120	GAG		0.612	SEC13-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000250563.3			C	10342967	T	C	10342967	3	2	600	1	0	0	0	0	1	0	0	0	13993	1551	54	3	25	3	SEC13	3	10342967	Missense_Mutation	SNP	T	TCGA-GL-8500-01A-11D-2396-08		10342967	187679463	16	35936										
MLH1	4292	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	37042512	37042512	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tgcagtcctttgaggatttaGccagtatttctacctatggc	9	9	1	1	rs63750133		TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr3:37042512G>A	ENST00000231790.2	+	3	490	c.274G>A	c.(274-276)Gcc>Acc	p.A92T	MLH1_ENST00000435176.1_5'UTR|MLH1_ENST00000536378.1_5'UTR|MLH1_ENST00000458205.2_5'UTR|MLH1_ENST00000539477.1_5'UTR|MLH1_ENST00000492474.1_3'UTR|MLH1_ENST00000455445.2_5'UTR	NM_000249.3|NM_001258273.1	NP_000240.1|NP_001245202.1	P40692	MLH1_HUMAN	mutL homolog 1	92					ATP catabolic process (GO:0006200)|double-strand break repair via nonhomologous end joining (GO:0006303)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|isotype switching (GO:0045190)|male meiosis chromosome segregation (GO:0007060)|meiotic metaphase I plate congression (GO:0043060)|mismatch repair (GO:0006298)|negative regulation of mitotic recombination (GO:0045950)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|oogenesis (GO:0048477)|resolution of meiotic recombination intermediates (GO:0000712)|somatic hypermutation of immunoglobulin genes (GO:0016446)|spermatogenesis (GO:0007283)|spindle midzone assembly involved in meiosis (GO:0051257)|synapsis (GO:0007129)	chiasma (GO:0005712)|male germ cell nucleus (GO:0001673)|membrane (GO:0016020)|MutLalpha complex (GO:0032389)|nucleus (GO:0005634)|synaptonemal complex (GO:0000795)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|guanine/thymine mispair binding (GO:0032137)			NS(1)|breast(4)|central_nervous_system(3)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(12)|kidney(2)|large_intestine(54)|lung(13)|oesophagus(7)|ovary(6)|pancreas(5)|prostate(5)|skin(2)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	127						TGAGGATTTAGCCAGTATTTC	0.348		1	"D, Mis, N, F, S"		"colorectal, endometrial, ovarian, CNS"	"colorectal, endometrial, ovarian, CNS"		Mismatch excision repair (MMR)	Turcot syndrome;Muir-Torre syndrome;Lynch syndrome;Constitutional Mismatch Repair Deficiency Syndrome																													yes	Rec	yes	"Hereditary non-polyposis colorectal cancer, Turcot syndrome"	3	3p21.3	4292	E.coli MutL homolog gene		"E, O"	0													152	151	152					3																	37042512		2203	4300	6503	SO:0001583	missense	4292	Familial Cancer Database	Brain tumor-colorectal polyp(osis) syndrome; ;Hereditary Non-Polyposis Colorectal Cancer, HNPCC, Lynch syndromes 1 and 2 (= Cancer Family Syndrome), Hereditary Mismatch Repair Deficiency syndrome, HMRDS;Mismatch Repair Cancer syndrome, MMRCS, Childhood Cancer Syndrome, CCS, Biallelic Mismatch Repair Gene Mutations Associated Early Onset Cancer, Lynch syndrome type III	U07418	CCDS2663.1, CCDS54562.1, CCDS54563.1	3p22.3	2014-09-17	2013-09-12		ENSG00000076242	ENSG00000076242			7127	protein-coding gene	gene with protein product		120436	"mutL (E. coli) homolog 1 (colon cancer, nonpolyposis type 2)", "mutL homolog 1, colon cancer, nonpolyposis type 2 (E. coli)"	COCA2		7903889	Standard	NM_000249		Approved	HNPCC, FCC2, HNPCC2	uc003cgl.3	P40692	OTTHUMG00000130797	ENST00000231790.2:c.274G>A	3.37:g.37042512G>A	ENSP00000231790:p.Ala92Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DI13|B4DQ11|E9PCU2	Missense_Mutation	SNP	ENST00000231790.2	37	CCDS2663.1	.	.	.	.	.	.	.	.	.	.	G	13.30	2.195561	0.38806	.	.	ENSG00000076242	ENST00000231790;ENST00000436867;ENST00000537937	D	0.94537	-3.45	5.91	4.11	0.48088	DNA mismatch repair protein, N-terminal (1);ATPase-like, ATP-binding domain (4);	0.269957	0.37669	N	0.001984	D	0.84683	0.5526	N	0.04018	-0.295	0.80722	D	1	B;B	0.16166	0.016;0.009	B;B	0.25405	0.06;0.038	T	0.75434	-0.3319	10	0.20046	T	0.44	-6.4566	8.0469	0.30555	0.0732:0.0:0.6432:0.2836	.	92;92	Q53GX1;P40692	.;MLH1_HUMAN	T	92;58;58	ENSP00000231790:A92T	ENSP00000231790:A92T	A	+	1	0	MLH1	37017516	1.000000	0.71417	0.962000	0.40283	0.992000	0.81027	1.745000	0.38278	0.829000	0.34733	-0.169000	0.13324	GCC		0.348	MLH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253337.2	NM_000249		A	37042512	G	A	37042512	3	1	600	1	0	0	0	0	1	0	0	0	9624	971	34	2	284	2	MLH1	3	37042512	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08	26699545	37042512	160979918	17	35937										
XYLB	9942	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	38404484	38404484	+	Silent	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ggcttcgacttctctcaagtCctagccttgtccggggcggg	13	13	2	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr3:38404484C>G	ENST00000207870.3	+	4	357	c.267C>G	c.(265-267)gtC>gtG	p.V89V	XYLB_ENST00000542835.1_Intron	NM_005108.3	NP_005099.2	O75191	XYLB_HUMAN	xylulokinase homolog (H. influenzae)	89					carbohydrate metabolic process (GO:0005975)|carbohydrate phosphorylation (GO:0046835)|D-xylose metabolic process (GO:0042732)|generation of precursor metabolites and energy (GO:0006091)|xylulose catabolic process (GO:0005998)|xylulose metabolic process (GO:0005997)	extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|xylulokinase activity (GO:0004856)			endometrium(3)|kidney(3)|large_intestine(3)|liver(1)|lung(12)|ovary(1)|prostate(1)	24				KIRC - Kidney renal clear cell carcinoma(284;0.00372)|Kidney(284;0.00405)		TCTCTCAAGTCCTAGCCTTGT	0.532																																																0													108	108	108					3																	38404484		2203	4300	6503	SO:0001819	synonymous_variant	9942			AB015046	CCDS2678.1	3p22-p21.3	2006-12-18	2001-12-04		ENSG00000093217	ENSG00000093217			12839	protein-coding gene	gene with protein product		604049	"xylulokinase (H. influenzae) homolog"			9763671	Standard	NM_005108		Approved	FLJ10343, FLJ12539	uc003cic.2	O75191	OTTHUMG00000131294	ENST00000207870.3:c.267C>G	3.37:g.38404484C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RAW4|B4DDT2|B9EH64	Silent	SNP	ENST00000207870.3	37	CCDS2678.1																																																																																				0.532	XYLB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254062.2	NM_005108		G	38404484	C	G	38404484	2	3	600	1	0	0	0	0	0	0	0	1	17474	842	30	4		4	XYLB	3	38404484	Silent	SNP	C	TCGA-GL-8500-01A-11D-2396-08	1361972	38404484	159617946	18	35938										
SLC38A3	10991	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr3	50257565	50257565	+	RNA	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tgagcttgagcttcatcatcAttgactgggcctcagggacc	11	11	4	3			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr3:50257565A>G	ENST00000420502.1	+	0	1624									solute carrier family 38, member 3											breast(1)|cervix(1)|endometrium(1)|lung(3)	6				BRCA - Breast invasive adenocarcinoma(193;0.000275)|KIRC - Kidney renal clear cell carcinoma(197;0.00548)|Kidney(197;0.00615)		CTTCATCATCATTGACTGGGC	0.557																																																0													93	88	89					3																	50257565		2026	4180	6206			10991			U49082	CCDS74940.1	3p21.3	2013-05-22			ENSG00000188338	ENSG00000188338		"Solute carriers"	18044	protein-coding gene	gene with protein product		604437				10619430, 10823827	Standard	XM_006712954		Approved	G17, SN1	uc003cyn.4	Q99624	OTTHUMG00000156764		3.37:g.50257565A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000420502.1	37																																																																																					0.557	SLC38A3-001	KNOWN	sequence_error|basic	processed_transcript	processed_transcript	OTTHUMT00000345635.2	NM_006841		G	50257565	A	G	50257565	1	3	600	0	1	0	0	0	0	0	0	0	14618	217	8	3		3	SLC38A3	3	50257565	RNA	SNP	A	TCGA-GL-8500-01A-11D-2396-08	11853081	50257565	147764865	19	35939										
ABHD10	55347	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	111700691	111700691	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	agaccttccaaacctggcttAtaagaagctaaaaggcaaaa	7	9	0	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr3:111700691A>G	ENST00000273359.3	+	2	230	c.203A>G	c.(202-204)tAt>tGt	p.Y68C	ABHD10_ENST00000494817.1_Missense_Mutation_p.Y68C|ABHD10_ENST00000534857.1_Intron	NM_018394.2	NP_060864.1	Q9NUJ1	ABHDA_HUMAN	abhydrolase domain containing 10	68					glucuronoside catabolic process (GO:0019391)	cytosol (GO:0005829)|mitochondrion (GO:0005739)	hydrolase activity, hydrolyzing O-glycosyl compounds (GO:0004553)			large_intestine(2)|lung(7)|skin(1)	10						AACCTGGCTTATAAGAAGCTA	0.378																																																0													126	123	124					3																	111700691		2203	4300	6503	SO:0001583	missense	55347			AL713726	CCDS2963.1, CCDS63718.1	3q13.2	2012-03-26			ENSG00000144827	ENSG00000144827		"Abhydrolase domain containing"	25656	protein-coding gene	gene with protein product						22294686	Standard	NM_018394		Approved	FLJ11342	uc003dyk.5	Q9NUJ1	OTTHUMG00000159280	ENST00000273359.3:c.203A>G	3.37:g.111700691A>G	ENSP00000273359:p.Tyr68Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6A8|C9IZX5|D3DN63|Q8TCF9	Missense_Mutation	SNP	ENST00000273359.3	37	CCDS2963.1	.	.	.	.	.	.	.	.	.	.	A	21.7	4.190688	0.78789	.	.	ENSG00000144827	ENST00000273359;ENST00000494817	T	0.48836	0.8	5.57	5.57	0.84162	.	0.000000	0.85682	D	0.000000	T	0.69115	0.3075	M	0.77820	2.39	0.80722	D	1	D	0.89917	1.0	D	0.80764	0.994	T	0.72962	-0.4132	10	0.62326	D	0.03	-30.1278	14.7236	0.69326	1.0:0.0:0.0:0.0	.	68	Q9NUJ1	ABHDA_HUMAN	C	68	ENSP00000273359:Y68C	ENSP00000273359:Y68C	Y	+	2	0	ABHD10	113183381	1.000000	0.71417	0.953000	0.39169	0.988000	0.76386	8.935000	0.92923	2.117000	0.64856	0.459000	0.35465	TAT		0.378	ABHD10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354326.1	NM_018394		G	111700691	A	G	111700691	3	3	600	1	0	0	0	0	1	0	0	0	74	449	16	3	209	3	ABHD10	3	111700691	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	61443126	111700691	86321739	20	35940										
EEFSEC	60678	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	127981023	127981023	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ccaagccggggggaccagagGcccccgaaactgaagctcca	13	15	0	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr3:127981023G>C	ENST00000254730.6	+	3	631	c.577G>C	c.(577-579)Gcc>Ccc	p.A193P	EEFSEC_ENST00000483457.1_Missense_Mutation_p.A193P	NM_021937.3	NP_068756.2	P57772	SELB_HUMAN	eukaryotic elongation factor, selenocysteine-tRNA-specific	193	tr-type G. {ECO:0000255|PROSITE- ProRule:PRU01059}.				selenocysteine incorporation (GO:0001514)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|ribonucleoprotein complex binding (GO:0043021)|selenocysteine insertion sequence binding (GO:0035368)|translation elongation factor activity (GO:0003746)|tRNA binding (GO:0000049)			NS(1)|endometrium(3)|kidney(4)|large_intestine(6)|lung(10)|ovary(1)	25						GGGACCAGAGGCCCCCGAAAC	0.562																																																0													90	104	100					3																	127981023		2203	4300	6503	SO:0001583	missense	60678				CCDS33849.1	3q21.3	2007-05-25			ENSG00000132394	ENSG00000132394			24614	protein-coding gene	gene with protein product	"elongation factor for selenoprotein translation"	607695				10970870, 15229221	Standard	XM_005247696		Approved	SELB, EFSEC	uc003eki.3	P57772	OTTHUMG00000159659	ENST00000254730.6:c.577G>C	3.37:g.127981023G>C	ENSP00000254730:p.Ala193Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q96HZ6	Missense_Mutation	SNP	ENST00000254730.6	37	CCDS33849.1	.	.	.	.	.	.	.	.	.	.	G	19.11	3.764626	0.69878	.	.	ENSG00000132394	ENST00000254730;ENST00000483457	T;T	0.56941	0.82;0.43	5.45	5.45	0.79879	Protein synthesis factor, GTP-binding (1);	0.000000	0.85682	D	0.000000	T	0.67439	0.2893	L	0.52905	1.665	0.58432	D	0.999998	D;D	0.71674	0.998;0.997	D;D	0.71184	0.972;0.939	T	0.63134	-0.6705	10	0.31617	T	0.26	2.1892	17.4767	0.87661	0.0:0.0:1.0:0.0	.	193;193	C9J8T0;P57772	.;SELB_HUMAN	P	193	ENSP00000254730:A193P;ENSP00000417660:A193P	ENSP00000254730:A193P	A	+	1	0	EEFSEC	129463713	1.000000	0.71417	1.000000	0.80357	0.124000	0.20399	9.064000	0.93933	2.546000	0.85860	0.650000	0.86243	GCC		0.562	EEFSEC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356738.2	NM_021937		C	127981023	G	C	127981023	3	2	600	1	0	0	0	0	1	0	0	0	4933	1203	42	4	587	4	EEFSEC	3	127981023	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08	16280332	127981023	70041407	21	35941										
ZMAT3	64393	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	178785387	178785387	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ctcccctcccttcgataactCttcttcccctgcaagaggca	5	18	2	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr3:178785387C>A	ENST00000311417.2	-	2	895	c.154G>T	c.(154-156)Gag>Tag	p.E52*	ZMAT3_ENST00000432729.1_Nonsense_Mutation_p.E52*	NM_022470.3	NP_071915.1			zinc finger, matrin-type 3											breast(1)|endometrium(1)|large_intestine(6)|lung(2)|ovary(2)|prostate(1)|skin(1)	14	all_cancers(143;3.31e-18)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;6.74e-27)|GBM - Glioblastoma multiforme(14;0.00448)|BRCA - Breast invasive adenocarcinoma(182;0.0527)			TTCGATAACTCTTCTTCCCCT	0.552																																																0													123	116	119					3																	178785387		2203	4300	6503	SO:0001587	stop_gained	64393			AK122768	CCDS3224.1, CCDS46962.1	3q26.32	2012-10-05	2010-09-15		ENSG00000172667	ENSG00000172667		"Zinc fingers, matrin-type"	29983	protein-coding gene	gene with protein product		606452				9400996, 11689294	Standard	NM_022470		Approved	WIG1, MGC10613, FLJ12296, WIG-1, PAG608	uc003fjg.3	Q9HA38	OTTHUMG00000157290	ENST00000311417.2:c.154G>T	3.37:g.178785387C>A	ENSP00000311221:p.Glu52*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000311417.2	37	CCDS3224.1	.	.	.	.	.	.	.	.	.	.	C	44	11.170319	0.99525	.	.	ENSG00000172667	ENST00000311417;ENST00000432729;ENST00000414084	.	.	.	5.86	5.86	0.93980	.	0.278038	0.40554	N	0.001064	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.07030	T	0.85	-15.196	20.1931	0.98233	0.0:1.0:0.0:0.0	.	.	.	.	X	52	.	ENSP00000311221:E52X	E	-	1	0	ZMAT3	180268081	1.000000	0.71417	0.999000	0.59377	0.928000	0.56348	5.278000	0.65592	2.771000	0.95319	0.563000	0.77884	GAG		0.552	ZMAT3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000348336.2	NM_152240		A	178785387	C	A	178785387	4	1	600	1	0	0	0	0	0	1	0	0	17705	922	32	4	735	4	ZMAT3	3	178785387	Nonsense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	50804364	178785387	19237043	22	35942										
PDS5A	23244	ucsc.edu	37	chr4	39911931	39911931	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gcaaatttcacactttctaaTctcacaggaacatgaatatc	4	10	3	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr4:39911931T>G	ENST00000303538.8	-	10	1559	c.1020A>C	c.(1018-1020)agA>agC	p.R340S	PDS5A_ENST00000503396.1_Missense_Mutation_p.R340S	NM_001100399.1	NP_001093869.1			PDS5, regulator of cohesion maintenance, homolog A (S. cerevisiae)											breast(2)|cervix(1)|endometrium(4)|kidney(4)|large_intestine(9)|lung(14)|prostate(3)|skin(1)|urinary_tract(1)	39						CACTTTCTAATCTCACAGGAA	0.323																																																0													70	65	67					4																	39911931		1839	4102	5941	SO:0001583	missense	23244			AF294791	CCDS47045.1, CCDS54759.1	4p14	2007-06-20			ENSG00000121892	ENSG00000121892			29088	protein-coding gene	gene with protein product		613200				11076961, 15855230	Standard	NM_001100399		Approved	KIAA0648, PIG54, SCC-112	uc003guv.4	Q29RF7	OTTHUMG00000160582	ENST00000303538.8:c.1020A>C	4.37:g.39911931T>G	ENSP00000303427:p.Arg340Ser	Somatic		WXS	Illumina HiSeq			Missense_Mutation	SNP	ENST00000303538.8	37	CCDS47045.1	.	.	.	.	.	.	.	.	.	.	T	19.61	3.860782	0.71834	.	.	ENSG00000121892	ENST00000303538;ENST00000503396	T;T	0.72394	-0.65;-0.64	5.06	1.03	0.20045	Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.80059	0.4554	M	0.81942	2.565	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.97110	1.0;0.999	T	0.76561	-0.2914	9	.	.	.	-15.7137	5.7433	0.18106	0.0:0.1556:0.1419:0.7025	.	340;340	Q29RF7-3;Q29RF7	.;PDS5A_HUMAN	S	340	ENSP00000303427:R340S;ENSP00000426749:R340S	.	R	-	3	2	PDS5A	39588326	0.996000	0.38824	1.000000	0.80357	0.952000	0.60782	0.297000	0.19101	0.366000	0.24427	-0.263000	0.10527	AGA		0.323	PDS5A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361287.1	NM_015200		G	39911931	T	G	39911931	3	3	600	1	0	0	0	0	1	0	0	0	11698	1432	50	5	3122	5	PDS5A	4	39911931	Missense_Mutation	SNP	T	TCGA-GL-8500-01A-11D-2396-08		39911931	151242345	23	35943										
KIAA1109	84162	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	123229112	123229112	+	Frame_Shift_Del	DEL	T	T	-													0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	aattatcaaaagctgtgctgTtttggctgaattataaggcc							TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr4:123229112delT	ENST00000264501.4	+	58	10223	c.9850delT	c.(9850-9852)tttfs	p.F3284fs	KIAA1109_ENST00000455637.1_Frame_Shift_Del_p.F3284fs|KIAA1109_ENST00000388738.3_Frame_Shift_Del_p.F3284fs			Q2LD37	K1109_HUMAN	KIAA1109	3284					regulation of cell growth (GO:0001558)|regulation of epithelial cell differentiation (GO:0030856)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)				breast(7)|central_nervous_system(1)|cervix(1)|endometrium(16)|kidney(6)|large_intestine(33)|liver(4)|lung(74)|ovary(9)|pancreas(1)|prostate(5)|skin(6)|upper_aerodigestive_tract(6)|urinary_tract(3)	172						AGCTGTGCTGTTTTGGCTGAA	0.343																																																0													132	129	130					4																	123229112		1827	4092	5919	SO:0001589	frameshift_variant	84162			AL137384	CCDS43267.1	4q28.1	2012-07-09			ENSG00000138688	ENSG00000138688			26953	protein-coding gene	gene with protein product	"fragile site-associated"	611565				16386706	Standard	NM_015312		Approved	FLJ21404, FSA, KIAA1371, Tweek	uc003ieh.3	Q2LD37	OTTHUMG00000150116	ENST00000264501.4:c.9850delT	4.37:g.123229112delT	ENSP00000264501:p.Phe3284fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W598|Q5CZA9|Q6ZS70|Q6ZV75|Q86XA5|Q8WVD8|Q9H742|Q9NT48|Q9NTC3|Q9NTI4|Q9P2H6|Q9UPP3	Frame_Shift_Del	DEL	ENST00000264501.4	37	CCDS43267.1																																																																																				0.343	KIAA1109-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316415.1	NM_020797		-	123229112	T	-	123229112	7	5	600	1	0	1	0	1	0	0	0	0	8215	1725	60	0	10072	0	KIAA1109	4	123229112	Frame_Shift_Del	DEL	T	TCGA-GL-8500-01A-11D-2396-08	83317181	123229112	67925164	24	35944										
SPOCK3	50859	hgsc.bcm.edu;bcgsc.ca	37	chr4	167713322	167713322	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tcaaatttagaaatcttactGcttctctcaggcctcagcaa	5	11	5	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr4:167713322G>T	ENST00000357154.3	-	8	854	c.717C>A	c.(715-717)agC>agA	p.S239R	SPOCK3_ENST00000511531.1_Splice_Site_p.S239R|SPOCK3_ENST00000507137.1_5'UTR|SPOCK3_ENST00000512681.1_Splice_Site_p.S141R|SPOCK3_ENST00000541637.1_Splice_Site_p.S141R|SPOCK3_ENST00000511269.1_Splice_Site_p.S236R|SPOCK3_ENST00000502330.1_Splice_Site_p.S239R|SPOCK3_ENST00000541354.1_Splice_Site_p.S119R|SPOCK3_ENST00000512648.1_Splice_Site_p.S236R|SPOCK3_ENST00000421836.2_Splice_Site_p.S188R|SPOCK3_ENST00000535728.1_Intron|SPOCK3_ENST00000506886.1_Splice_Site_p.S239R|SPOCK3_ENST00000510741.1_Intron|SPOCK3_ENST00000504953.1_Splice_Site_p.S236R|SPOCK3_ENST00000534949.1_Splice_Site_p.S143R|SPOCK3_ENST00000357545.4_Splice_Site_p.S236R	NM_016950.2	NP_058646.2	Q9BQ16	TICN3_HUMAN	sparc/osteonectin, cwcv and kazal-like domains proteoglycan (testican) 3	239					negative regulation of endopeptidase activity (GO:0010951)|peptide cross-linking via chondroitin 4-sulfate glycosaminoglycan (GO:0019800)|signal transduction (GO:0007165)	extracellular matrix (GO:0031012)|extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|glycosaminoglycan binding (GO:0005539)|metalloendopeptidase inhibitor activity (GO:0008191)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(9)|lung(13)|ovary(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	38	all_hematologic(180;0.221)	Prostate(90;0.0181)|Renal(120;0.0184)|Melanoma(52;0.0198)		GBM - Glioblastoma multiforme(119;0.02)		AAATCTTACTGCTTCTCTCAG	0.373																																																0													101	84	90					4																	167713322		2203	4300	6503	SO:0001630	splice_region_variant	50859			AJ001454	CCDS34095.1, CCDS54817.1, CCDS56343.1, CCDS56344.1, CCDS56346.1, CCDS56347.1, CCDS58931.1, CCDS75207.1	4q32.3	2011-10-10			ENSG00000196104	ENSG00000196104			13565	protein-coding gene	gene with protein product		607989				11751414	Standard	NM_001204352		Approved	testican-3	uc003iri.1	Q9BQ16	OTTHUMG00000161190	ENST00000357154.3:c.718+1C>A	4.37:g.167713322G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R7M7|B3KR67|B4DGK5|B4DHB4|B4DHV3|B4DI46|B4DJY3|E7EP61|F5H099|O75705|Q6UW53|Q96Q26	Missense_Mutation	SNP	ENST00000357154.3	37	CCDS54817.1	.	.	.	.	.	.	.	.	.	.	G	14.33	2.504073	0.44558	.	.	ENSG00000196104	ENST00000357154;ENST00000357545;ENST00000504953;ENST00000506886;ENST00000511531;ENST00000502330;ENST00000541354;ENST00000512681;ENST00000511269;ENST00000421836;ENST00000541637;ENST00000534949;ENST00000512648;ENST00000510403	T;T;T;T;T;T;T;T;T;T;T;T;T;D	0.87412	1.48;1.49;1.49;1.48;1.48;1.48;1.4;0.92;1.49;1.29;0.92;1.18;2.2;-2.25	5.33	4.47	0.54385	SPARC/Testican, calcium-binding domain (1);EF-hand-like domain (1);	0.410761	0.26800	N	0.022422	D	0.89350	0.6690	L	0.59436	1.845	0.37036	D	0.896894	D;D;D;D;D;D;D	0.64830	0.959;0.967;0.958;0.994;0.967;0.98;0.984	P;P;P;D;P;P;P	0.63192	0.629;0.664;0.821;0.912;0.587;0.711;0.81	D	0.87800	0.2624	10	0.27082	T	0.32	-13.9637	9.7077	0.40225	0.2078:0.0:0.7921:0.0	.	141;143;188;248;239;236;239	B4DGK5;F5H099;B4DHB4;B4DFW5;Q9BQ16-2;Q9BQ16-1;Q9BQ16	.;.;.;.;.;.;TICN3_HUMAN	R	239;236;236;239;239;239;119;141;236;188;141;143;236;118	ENSP00000349677:S239R;ENSP00000350153:S236R;ENSP00000425570:S236R;ENSP00000420920:S239R;ENSP00000423421:S239R;ENSP00000423606:S239R;ENSP00000444789:S119R;ENSP00000426318:S141R;ENSP00000425502:S236R;ENSP00000411344:S188R;ENSP00000445430:S141R;ENSP00000438142:S143R;ENSP00000426177:S236R;ENSP00000423176:S118R	ENSP00000349677:S239R	S	-	3	2	SPOCK3	167949897	1.000000	0.71417	1.000000	0.80357	0.565000	0.35776	2.196000	0.42686	2.650000	0.89964	0.563000	0.77884	AGC		0.373	SPOCK3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000364091.1		Missense_Mutation	T	167713322	G	T	167713322	5	4	600	1	0	0	0	0	0	0	1	0	15093	1333	46	4	613	4	SPOCK3	4	167713322	Splice_Site	SNP	G	TCGA-GL-8500-01A-11D-2396-08	44484210	167713322	23440954	25	35945										
CLPTM1L	81037	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	1324927	1324927	+	Splice_Site	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	cagattcgctgtaagtgccaAactgttgtgaaattcaacac	8	9	1	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr5:1324927A>T	ENST00000320895.5	-	11	1405	c.1148T>A	c.(1147-1149)tTt>tAt	p.F383Y	CLPTM1L_ENST00000507807.1_Splice_Site_p.F214Y|CLPTM1L_ENST00000506641.1_5'UTR|CLPTM1L_ENST00000320927.6_Splice_Site_p.F347Y	NM_030782.3	NP_110409.2	Q96KA5	CLP1L_HUMAN	CLPTM1-like	383					apoptotic process (GO:0006915)	integral component of membrane (GO:0016021)|membrane (GO:0016020)				breast(2)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(2)|lung(6)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	24	Lung NSC(6;5.78e-14)|all_lung(6;4.47e-13)|all_epithelial(6;4.47e-09)		Epithelial(17;0.00931)|OV - Ovarian serous cystadenocarcinoma(19;0.0116)|all cancers(22;0.0181)	KIRC - Kidney renal clear cell carcinoma(5;0.177)|Kidney(13;0.208)		GTAAGTGCCAAACTGTTGTGA	0.488																																																0													241	182	202					5																	1324927		2203	4300	6503	SO:0001630	splice_region_variant	81037			AK027306	CCDS3862.1	5p15.33	2008-02-05			ENSG00000049656	ENSG00000049656			24308	protein-coding gene	gene with protein product	"cisplatin resistance related protein"	612585				11162647	Standard	NM_030782		Approved	FLJ14400, CRR9	uc003jch.3	Q96KA5	OTTHUMG00000131015	ENST00000320895.5:c.1147-1T>A	5.37:g.1324927A>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DTC1|Q658W6|Q7LG29|Q96AZ0|Q9H3N4	Missense_Mutation	SNP	ENST00000320895.5	37	CCDS3862.1	.	.	.	.	.	.	.	.	.	.	A	8.846	0.943427	0.18281	.	.	ENSG00000049656	ENST00000320895;ENST00000507807;ENST00000320927	T;T;T	0.50277	0.75;0.83;0.81	5.15	3.94	0.45596	.	0.280237	0.41097	D	0.000945	T	0.49983	0.1589	M	0.74389	2.26	0.53005	D	0.999963	B;B	0.23990	0.095;0.06	B;B	0.33568	0.166;0.032	T	0.42085	-0.9472	10	0.26408	T	0.33	-15.2716	11.2025	0.48749	0.8456:0.1544:0.0:0.0	.	383;214	Q96KA5;G5E9Z2	CLP1L_HUMAN;.	Y	383;214;347	ENSP00000313854:F383Y;ENSP00000423321:F214Y;ENSP00000315196:F347Y	ENSP00000313854:F383Y	F	-	2	0	CLPTM1L	1377927	1.000000	0.71417	1.000000	0.80357	0.579000	0.36224	5.991000	0.70602	0.856000	0.35383	0.459000	0.35465	TTT		0.488	CLPTM1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253649.2	NM_030782	Missense_Mutation	T	1324927	A	T	1324927	5	4	600	1	0	0	0	0	0	0	1	0	3557	28	1	5	496	5	CLPTM1L	5	1324927	Splice_Site	SNP	A	TCGA-GL-8500-01A-11D-2396-08		1324927	179590333	26	35946										
ITGA2	3673	hgsc.bcm.edu	37	chr5	52368456	52368456	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ttcgtagattcctttccacaAagactgtggtgaggacggac	11	9	0	3			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr5:52368456A>C	ENST00000296585.5	+	19	2503	c.2360A>C	c.(2359-2361)aAa>aCa	p.K787T		NM_002203.3	NP_002194.2	P17301	ITA2_HUMAN	integrin, alpha 2 (CD49B, alpha 2 subunit of VLA-2 receptor)	787					axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell adhesion mediated by integrin (GO:0033627)|cell proliferation (GO:0008283)|cell-matrix adhesion (GO:0007160)|cell-substrate adhesion (GO:0031589)|cellular response to hormone stimulus (GO:0032870)|collagen-activated signaling pathway (GO:0038065)|detection of mechanical stimulus involved in sensory perception of pain (GO:0050966)|establishment of protein localization (GO:0045184)|extracellular matrix organization (GO:0030198)|hepatocyte differentiation (GO:0070365)|hypotonic response (GO:0006971)|integrin-mediated signaling pathway (GO:0007229)|mammary gland development (GO:0030879)|mesodermal cell differentiation (GO:0048333)|organ morphogenesis (GO:0009887)|positive regulation of alkaline phosphatase activity (GO:0010694)|positive regulation of cell adhesion (GO:0045785)|positive regulation of cell projection organization (GO:0031346)|positive regulation of collagen binding (GO:0033343)|positive regulation of collagen biosynthetic process (GO:0032967)|positive regulation of DNA binding (GO:0043388)|positive regulation of epithelial cell migration (GO:0010634)|positive regulation of inflammatory response (GO:0050729)|positive regulation of leukocyte migration (GO:0002687)|positive regulation of phagocytosis, engulfment (GO:0060100)|positive regulation of positive chemotaxis (GO:0050927)|positive regulation of smooth muscle cell migration (GO:0014911)|positive regulation of smooth muscle cell proliferation (GO:0048661)|positive regulation of smooth muscle contraction (GO:0045987)|positive regulation of translation (GO:0045727)|positive regulation of transmission of nerve impulse (GO:0051971)|response to amine (GO:0014075)|response to drug (GO:0042493)|response to hypoxia (GO:0001666)|response to L-ascorbic acid (GO:0033591)|response to muscle activity (GO:0014850)|response to organic cyclic compound (GO:0014070)|skin morphogenesis (GO:0043589)|substrate-dependent cell migration (GO:0006929)|tissue homeostasis (GO:0001894)|viral process (GO:0016032)	axon terminus (GO:0043679)|basal part of cell (GO:0045178)|cell outer membrane (GO:0009279)|cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|focal adhesion (GO:0005925)|integrin alpha2-beta1 complex (GO:0034666)|integrin complex (GO:0008305)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	collagen binding (GO:0005518)|collagen binding involved in cell-matrix adhesion (GO:0098639)|collagen receptor activity (GO:0038064)|metal ion binding (GO:0046872)|virus receptor activity (GO:0001618)			breast(3)|central_nervous_system(2)|endometrium(5)|kidney(3)|large_intestine(8)|liver(1)|lung(18)|pancreas(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	47		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				CCTTTCCACAAAGACTGTGGT	0.343																																																0													82	73	76					5																	52368456		2202	4300	6502	SO:0001583	missense	3673				CCDS3957.1	5q11.2	2010-03-23			ENSG00000164171	ENSG00000164171		"CD molecules", "Integrins"	6137	protein-coding gene	gene with protein product		192974		CD49B			Standard	NM_002203		Approved	CD49b	uc003joy.3	P17301	OTTHUMG00000131165	ENST00000296585.5:c.2360A>C	5.37:g.52368456A>C	ENSP00000296585:p.Lys787Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q14595	Missense_Mutation	SNP	ENST00000296585.5	37	CCDS3957.1	.	.	.	.	.	.	.	.	.	.	A	14.98	2.696313	0.48202	.	.	ENSG00000164171	ENST00000296585	T	0.54675	0.56	5.66	4.5	0.54988	Integrin alpha-2 (1);	0.048740	0.85682	D	0.000000	T	0.57140	0.2033	M	0.69358	2.11	0.54753	D	0.999985	B;P	0.36354	0.314;0.549	B;B	0.43360	0.417;0.364	T	0.58487	-0.7628	10	0.56958	D	0.05	.	11.5138	0.50509	0.93:0.0:0.07:0.0	.	787;787	E7ESP4;P17301	.;ITA2_HUMAN	T	787	ENSP00000296585:K787T	ENSP00000296585:K787T	K	+	2	0	ITGA2	52404213	1.000000	0.71417	0.928000	0.36995	0.683000	0.39861	8.098000	0.89540	0.979000	0.38497	0.460000	0.39030	AAA		0.343	ITGA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253857.2	NM_002203		C	52368456	A	C	52368456	3	2	600	1	0	0	0	0	1	0	0	0	7882	14	1	5	2434	5	ITGA2	5	52368456	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	51043529	52368456	128546804	27	35947										
MOCS2	4338	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	52397195	52397196	+	Frame_Shift_Ins	INS	-	-	T													0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	aaggaaatcatacccaagtcINStatggaacactgctatgtgt							TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr5:52397195_52397196insT	ENST00000396954.3	-	5	1047_1048	c.370_371insA	c.(370-372)agafs	p.R124fs	MOCS2_ENST00000510818.2_3'UTR|MOCS2_ENST00000508922.1_3'UTR|MOCS2_ENST00000361377.4_Intron|MOCS2_ENST00000584946.1_3'UTR|MOCS2_ENST00000450852.3_3'UTR|MOCS2_ENST00000582677.1_Intron|MOCS2_ENST00000527216.1_3'UTR	NM_004531.3	NP_004522.1			molybdenum cofactor synthesis 2											endometrium(1)|lung(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	5		Lung NSC(810;3.08e-05)|Breast(144;0.0848)				ATACCCAAGTCTATGGAACACT	0.342																																																0																																										SO:0001589	frameshift_variant	4338			AF117815	CCDS3958.1, CCDS47205.1	5q11	2008-02-05			ENSG00000164172	ENSG00000164172			7193	protein-coding gene	gene with protein product		603708				10053004, 9889283	Standard	NM_004531		Approved	MOCO1	uc003joz.3	O96007	OTTHUMG00000096981	ENST00000396954.3:c.371dupA	5.37:g.52397196_52397196dupT	ENSP00000380157:p.Arg124fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000396954.3	37	CCDS3958.1																																																																																				0.342	MOCS2-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000214053.3	NM_183418		T	52397196	-	T	52397195	7	5	600	1	0	1	1	0	0	0	0	0	9698	913	32	0	207	0	MOCS2	5	52397195	Frame_Shift_Ins	INS	-	TCGA-GL-8500-01A-11D-2396-08	28739	52397195	128518065	28	35948										
MAST4	375449	hgsc.bcm.edu	37	chr5	66440576	66440576	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ggacaaaaccaaaagcaccaCcttgccatccacagaaacac	5	15	0	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr5:66440576C>G	ENST00000403625.2	+	22	3105	c.2810C>G	c.(2809-2811)aCc>aGc	p.T937S	MAST4_ENST00000403666.1_Missense_Mutation_p.T748S|MAST4_ENST00000405643.1_Missense_Mutation_p.T758S|MAST4_ENST00000261569.7_Missense_Mutation_p.T743S|MAST4_ENST00000404260.3_Missense_Mutation_p.T940S	NM_001164664.1	NP_001158136.1	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase family member 4	940						cytoplasm (GO:0005737)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|central_nervous_system(1)|kidney(2)|lung(6)|ovary(2)	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)		AAAAGCACCACCTTGCCATCC	0.408																																																0													65	70	69					5																	66440576		1870	4117	5987	SO:0001583	missense	375449			AY830839	CCDS47224.1, CCDS47225.1, CCDS54861.1, CCDS75254.1	5q12.3	2007-06-20			ENSG00000069020	ENSG00000069020			19037	protein-coding gene	gene with protein product						9205841	Standard	NM_198828		Approved	KIAA0303	uc021xzk.1	O15021	OTTHUMG00000152471	ENST00000403625.2:c.2810C>G	5.37:g.66440576C>G	ENSP00000385727:p.Thr937Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NL49|B5ME48|Q05EE6|Q6ZN07|Q8N4X4|Q96LY3	Missense_Mutation	SNP	ENST00000403625.2	37	CCDS54861.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	11.57|11.57	1.677412|1.677412	0.29783|0.29783	.|.	.|.	ENSG00000069020|ENSG00000069020	ENST00000443808|ENST00000404260;ENST00000403625;ENST00000403666;ENST00000405643;ENST00000380908;ENST00000261569;ENST00000432399	.|T;T;T;T;T	.|0.64803	.|-0.09;-0.09;-0.12;-0.11;-0.09	5.69|5.69	4.82|4.82	0.62117|0.62117	.|.	.|0.745634	.|0.13293	.|N	.|0.398827	T|T	0.39733|0.39733	0.1089|0.1089	N|N	0.12569|0.12569	0.235|0.235	0.09310|0.09310	N|N	1|1	.|B;B;B;B	.|0.18310	.|0.027;0.004;0.006;0.007	.|B;B;B;B	.|0.16289	.|0.011;0.007;0.015;0.007	T|T	0.18147|0.18147	-1.0346|-1.0346	5|10	.|0.07175	.|T	.|0.84	-0.0745|-0.0745	10.3504|10.3504	0.43931|0.43931	0.0:0.7952:0.1342:0.0706|0.0:0.7952:0.1342:0.0706	.|.	.|758;940;743;748	.|E7EWQ5;O15021;O15021-2;O15021-3	.|.;MAST4_HUMAN;.;.	Q|S	60|940;937;748;758;758;743;743	.|ENSP00000385048:T940S;ENSP00000385727:T937S;ENSP00000384313:T748S;ENSP00000384099:T758S;ENSP00000261569:T743S	.|ENSP00000261569:T743S	H|T	+|+	3|2	2|0	MAST4|MAST4	66476332|66476332	0.016000|0.016000	0.18221|0.18221	0.082000|0.082000	0.20525|0.20525	0.950000|0.950000	0.60333|0.60333	2.374000|2.374000	0.44274|0.44274	1.422000|1.422000	0.47177|0.47177	0.591000|0.591000	0.81541|0.81541	CAC|ACC		0.408	MAST4-001	NOVEL	not_organism_supported|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000326324.2			G	66440576	C	G	66440576	3	3	600	1	0	0	0	0	1	0	0	0	9334	507	18	4	3026	4	MAST4	5	66440576	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	14043381	66440576	114474684	29	35949										
RGNEF	64283	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	73205322	73205322	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	cctgtctctcggccactctaTcctccgaggcggccccttgc	9	19	2	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr5:73205322T>A	ENST00000426542.2	+	33	4267	c.4247T>A	c.(4246-4248)aTc>aAc	p.I1416N	ARHGEF28_ENST00000296794.6_Missense_Mutation_p.I1416N|ARHGEF28_ENST00000545377.1_Missense_Mutation_p.I1416N|ARHGEF28_ENST00000513042.2_Missense_Mutation_p.I1416N|ARHGEF28_ENST00000437974.1_Missense_Mutation_p.I1416N|ARHGEF28_ENST00000296799.4_Missense_Mutation_p.I1103N|ARHGEF28_ENST00000287898.5_Missense_Mutation_p.I1372N|ARHGEF28_ENST00000512883.1_Missense_Mutation_p.I336N			Q8N1W1	ARG28_HUMAN	Rho guanine nucleotide exchange factor (GEF) 28	1416					central nervous system neuron axonogenesis (GO:0021955)|intracellular signal transduction (GO:0035556)|neurofilament cytoskeleton organization (GO:0060052)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|RNA binding (GO:0003723)										GGCCACTCTATCCTCCGAGGC	0.622																																																0													21	25	24					5																	73205322		2019	4181	6200	SO:0001583	missense	64283				CCDS47231.1, CCDS47231.2, CCDS54870.1, CCDS58957.1	5q13.2	2012-08-08			ENSG00000214944	ENSG00000214944			30322	protein-coding gene	gene with protein product		612790				9199174, 11058585	Standard	NM_001177693		Approved	RGNEF, p190RhoGEF, RIP2	uc010izf.3	Q8N1W1	OTTHUMG00000162454	ENST00000426542.2:c.4247T>A	5.37:g.73205322T>A	ENSP00000412175:p.Ile1416Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2RXG7|B4E3K4|B5MDA3|B7ZW32|E9PC75|Q8NCM7|Q96E37|Q9H6L3|Q9H6W0	Missense_Mutation	SNP	ENST00000426542.2	37	CCDS54870.1	.	.	.	.	.	.	.	.	.	.	T	0.004	-2.374983	0.00207	.	.	ENSG00000214944	ENST00000296794;ENST00000545377;ENST00000513042;ENST00000287898;ENST00000437974;ENST00000426542;ENST00000296799;ENST00000512883	T;T;T;T;T;T;T;T	0.23348	1.91;1.91;1.91;1.91;1.91;1.91;1.91;1.91	0.55	0.55	0.17219	.	.	.	.	.	T	0.11324	0.0276	N	0.08118	0	0.09310	N	1	B;B;B;B;B	0.23990	0.002;0.023;0.04;0.004;0.095	B;B;B;B;B	0.23018	0.0;0.014;0.021;0.006;0.043	T	0.32481	-0.9905	8	0.27082	T	0.32	.	.	.	.	.	1103;1416;1416;336;1416	B5MDA3;Q8N1W1;E9PC75;D6RGZ3;Q8N1W1-4	.;RGNEF_HUMAN;.;.;.	N	1416;1416;1416;1372;1416;1416;1103;336	ENSP00000296794:I1416N;ENSP00000441913:I1416N;ENSP00000441436:I1416N;ENSP00000287898:I1372N;ENSP00000411459:I1416N;ENSP00000412175:I1416N;ENSP00000296799:I1103N;ENSP00000421081:I336N	ENSP00000287898:I1372N	I	+	2	0	RP11-428C6.1	73241078	0.000000	0.05858	0.009000	0.14445	0.029000	0.11900	0.015000	0.13355	0.464000	0.27142	0.454000	0.30748	ATC		0.622	ARHGEF28-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000368975.1			A	73205322	T	A	73205322	3	1	600	1	0	0	0	0	1	0	0	0	13296	1435	50	5	4377	5	RGNEF	5	73205322	Missense_Mutation	SNP	T	TCGA-GL-8500-01A-11D-2396-08	6764746	73205322	107709938	30	35950										
SEMA6A	57556	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	115822558	115822558	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tgagagtctccaggaactgaGcagttcaagcgcgccttcag	12	11	3	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr5:115822558G>A	ENST00000343348.6	-	10	1636	c.849C>T	c.(847-849)tgC>tgT	p.C283C	SEMA6A_ENST00000257414.8_Silent_p.C283C|CTB-118N6.3_ENST00000508640.1_RNA|SEMA6A_ENST00000510263.1_Silent_p.C283C|CTB-118N6.3_ENST00000514214.1_RNA|CTB-118N6.3_ENST00000510682.1_RNA|SEMA6A_ENST00000503962.1_5'Flank	NM_020796.3	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A	283	Sema. {ECO:0000255|PROSITE- ProRule:PRU00352}.				apoptotic process (GO:0006915)|axon guidance (GO:0007411)|cell surface receptor signaling pathway (GO:0007166)|centrosome localization (GO:0051642)|cytoskeleton organization (GO:0007010)|nervous system development (GO:0007399)|neuron migration (GO:0001764)|organ morphogenesis (GO:0009887)|positive regulation of neuron migration (GO:2001224)|semaphorin-plexin signaling pathway (GO:0071526)	axon (GO:0030424)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)	transmembrane signaling receptor activity (GO:0004888)			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(15)|ovary(2)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	31		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)		CAGGAACTGAGCAGTTCAAGC	0.463																																																0													110	110	110					5																	115822558		2009	4214	6223	SO:0001819	synonymous_variant	57556			AB037789	CCDS47256.1, CCDS75288.1	5q23.1	2014-07-29			ENSG00000092421			"Semaphorins"	10738	protein-coding gene	gene with protein product	"sema VIa"	605885		SEMAQ		9204478, 10993894	Standard	XM_006714663		Approved	KIAA1368, SEMA6A1, SEMA, HT018	uc010jck.3	Q9H2E6	OTTHUMG00000162987	ENST00000343348.6:c.849C>T	5.37:g.115822558G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9P2H9	Silent	SNP	ENST00000343348.6	37	CCDS47256.1																																																																																				0.463	SEMA6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371270.1	NM_020796		A	115822558	G	A	115822558	2	1	600	1	0	0	0	0	0	0	0	1	14052	963	34	2		2	SEMA6A	5	115822558	Silent	SNP	G	TCGA-GL-8500-01A-11D-2396-08	42617236	115822558	65092702	31	35951										
LOC153328	153328	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	135178132	135178132	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	cagtgtcatcgttggccaccCtctggacacagtcaaggtac	10	13	3	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr5:135178132C>A	ENST00000420621.1	+	2	246	c.74C>A	c.(73-75)cCt>cAt	p.P25H	SLC25A48_ENST00000274513.5_Missense_Mutation_p.P25H|SLC25A48_ENST00000425402.1_Missense_Mutation_p.P25H|SLC25A48_ENST00000433282.2_5'UTR|SLC25A48_ENST00000412661.2_Missense_Mutation_p.P25H			Q6ZT89	S2548_HUMAN	solute carrier family 25, member 48	25					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)				NS(1)|breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(2)|lung(3)|skin(1)	10						GTTGGCCACCCTCTGGACACA	0.507																																																0													141	154	150					5																	135178132		2131	4257	6388	SO:0001583	missense	153328				CCDS43366.2	5q31.1	2013-05-22			ENSG00000145832	ENSG00000145832		"Solute carriers"	30451	protein-coding gene	gene with protein product	"HCC-down-regulated mitochondrial carrier protein"					15322095, 19303656	Standard	NM_145282		Approved	FLJ44862, HDMCP	uc003lba.3	Q6ZT89	OTTHUMG00000157007	ENST00000420621.1:c.74C>A	5.37:g.135178132C>A	ENSP00000407973:p.Pro25His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TAV9	Missense_Mutation	SNP	ENST00000420621.1	37		.	.	.	.	.	.	.	.	.	.	C	18.21	3.574438	0.65878	.	.	ENSG00000145832	ENST00000425402;ENST00000274513;ENST00000420621;ENST00000412661	D;D;D;D	0.96885	-4.16;-4.16;-4.16;-4.16	4.46	4.46	0.54185	.	0.000000	0.85682	D	0.000000	D	0.98912	0.9631	H	0.98918	4.37	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	D	0.98808	1.0742	10	0.87932	D	0	-31.2085	14.3274	0.66530	0.0:1.0:0.0:0.0	.	25;25	Q6ZT89-3;Q6ZT89-2	.;.	H	25	ENSP00000408750:P25H;ENSP00000274513:P25H;ENSP00000407973:P25H;ENSP00000413049:P25H	ENSP00000274513:P25H	P	+	2	0	SLC25A48	135206031	1.000000	0.71417	1.000000	0.80357	0.910000	0.53928	4.217000	0.58547	2.480000	0.83734	0.563000	0.77884	CCT		0.507	SLC25A48-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_145282		A	135178132	C	A	135178132	3	1	600	1	0	0	0	0	1	0	0	0	8878	681	24	4	80	4	LOC153328	5	135178132	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	19355574	135178132	45737128	32	35952										
HSPA9	3313	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	137904733	137904733	+	Frame_Shift_Del	DEL	T	T	-													0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ggacaattttaaagggaacaTttttactgtaagacacaaaa							TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr5:137904733delT	ENST00000297185.3	-	5	541	c.416delA	c.(415-417)aatfs	p.N139fs	HSPA9_ENST00000501917.2_5'Flank	NM_004134.6	NP_004125.3	P38646	GRP75_HUMAN	heat shock 70kDa protein 9 (mortalin)	139					cellular protein metabolic process (GO:0044267)|negative regulation of apoptotic process (GO:0043066)|protein export from nucleus (GO:0006611)|protein folding (GO:0006457)|protein targeting to mitochondrion (GO:0006626)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|unfolded protein binding (GO:0051082)			breast(2)|endometrium(1)|kidney(4)|large_intestine(8)|lung(12)|upper_aerodigestive_tract(1)	28			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			AAAGGGAACATTTTTACTGTA	0.403																																																0													61	61	61					5																	137904733		2203	4300	6503	SO:0001589	frameshift_variant	3313			L11066	CCDS4208.1	5q31.1	2011-09-02	2006-10-31	2006-10-31	ENSG00000113013	ENSG00000113013		"Heat shock proteins / HSP70"	5244	protein-coding gene	gene with protein product		600548	"heat shock 70kDa protein 9B (mortalin-2)"	HSPA9B		7684501	Standard	NM_004134		Approved	GRP75, PBP74, mot-2, mthsp75	uc003ldf.3	P38646	OTTHUMG00000129206	ENST00000297185.3:c.416delA	5.37:g.137904733delT	ENSP00000297185:p.Asn139fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCM1|P30036|P31932|Q1HB43|Q53H23|Q6GU03|Q9BWB7|Q9UC56	Frame_Shift_Del	DEL	ENST00000297185.3	37	CCDS4208.1																																																																																				0.403	HSPA9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251285.1	NM_004134		-	137904733	T	-	137904733	7	5	600	1	0	1	0	1	0	0	0	0	7424	1493	52	0	1675	0	HSPA9	5	137904733	Frame_Shift_Del	DEL	T	TCGA-GL-8500-01A-11D-2396-08	2726601	137904733	43010527	33	35953										
RANBP17	64901	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	170323085	170323085	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	acactgcataataggagtaaTaatcctttctgaattgactc	6	8	1	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr5:170323085T>A	ENST00000523189.1	+	5	619	c.455T>A	c.(454-456)aTa>aAa	p.I152K		NM_022897.3	NP_075048.1	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	152					mRNA transport (GO:0051028)|protein import into nucleus (GO:0006606)	cytoplasm (GO:0005737)|nuclear pore (GO:0005643)	GTP binding (GO:0005525)			breast(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(8)|lung(25)|ovary(3)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)	50	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)			ATAGGAGTAATAATCCTTTCT	0.388			T	TRD@	ALL																																		Dom	yes		5	5q34	64901	RAN binding protein 17		L	0													116	109	111					5																	170323085		2203	4300	6503	SO:0001583	missense	64901			AF222747	CCDS34287.1	5q34	2009-01-12			ENSG00000204764	ENSG00000204764			14428	protein-coding gene	gene with protein product		606141				11024021	Standard	NM_022897		Approved		uc003mba.3	Q9H2T7	OTTHUMG00000163203	ENST00000523189.1:c.455T>A	5.37:g.170323085T>A	ENSP00000427975:p.Ile152Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IU74	Missense_Mutation	SNP	ENST00000523189.1	37	CCDS34287.1	.	.	.	.	.	.	.	.	.	.	.	4.832	0.154664	0.09236	.	.	ENSG00000204764	ENST00000523189	T	0.65916	-0.18	5.14	5.14	0.70334	Armadillo-type fold (1);	0.271232	0.32343	N	0.006225	T	0.29620	0.0739	N	0.02181	-0.65	0.49213	D	0.999766	B;B	0.19583	0.004;0.037	B;B	0.13407	0.007;0.009	T	0.35201	-0.9798	10	0.02654	T	1	-4.1259	11.0057	0.47633	0.0:0.0:0.156:0.844	.	152;202	Q9H2T7;B4DQG2	RBP17_HUMAN;.	K	152	ENSP00000427975:I152K	ENSP00000373770:I152K	I	+	2	0	RANBP17	170255663	0.998000	0.40836	0.997000	0.53966	0.968000	0.65278	3.161000	0.50747	2.072000	0.62099	0.460000	0.39030	ATA		0.388	RANBP17-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000372036.1	NM_022897		A	170323085	T	A	170323085	3	1	600	1	0	0	0	0	1	0	0	0	13040	1406	49	5	473	5	RANBP17	5	170323085	Missense_Mutation	SNP	T	TCGA-GL-8500-01A-11D-2396-08	32418352	170323085	10592175	34	35954										
RNF44	22838	hgsc.bcm.edu	37	chr5	175957116	175957116	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ggaagctggggtagtagggtGgtgggggtgggggtgggggc	28	2	0	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr5:175957116G>T	ENST00000274811.4	-	7	1417	c.893C>A	c.(892-894)cCa>cAa	p.P298Q	RNF44_ENST00000509404.1_5'Flank|RNF44_ENST00000537487.1_Missense_Mutation_p.P217Q	NM_014901.4	NP_055716.1	Q7L0R7	RNF44_HUMAN	ring finger protein 44	298	Pro-rich.						zinc ion binding (GO:0008270)			endometrium(2)|lung(3)|prostate(1)|skin(1)|stomach(1)	8	all_cancers(89;0.0029)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GTAGTAGGGTggtgggggtgg	0.622																																																0													8	8	8					5																	175957116		2165	4263	6428	SO:0001583	missense	22838			AB029023	CCDS4404.1	5q35.3	2013-01-09			ENSG00000146083	ENSG00000146083		"RING-type (C3HC4) zinc fingers"	19180	protein-coding gene	gene with protein product						10470851	Standard	NM_014901		Approved	KIAA1100	uc003mek.1	Q7L0R7	OTTHUMG00000130664	ENST00000274811.4:c.893C>A	5.37:g.175957116G>T	ENSP00000274811:p.Pro298Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYE0|Q8ND05|Q9UPQ2	Missense_Mutation	SNP	ENST00000274811.4	37	CCDS4404.1	.	.	.	.	.	.	.	.	.	.	G	16.60	3.169154	0.57584	.	.	ENSG00000146083	ENST00000274811;ENST00000537487	D;D	0.86230	-2.09;-2.09	4.21	3.34	0.38264	.	0.516697	0.16329	N	0.219220	D	0.89128	0.6627	M	0.63843	1.955	0.33426	D	0.580514	D	0.53462	0.96	P	0.55871	0.786	D	0.88730	0.3236	10	0.26408	T	0.33	-9.7863	11.602	0.51008	0.0881:0.0:0.9119:0.0	.	298	Q7L0R7	RNF44_HUMAN	Q	298;217	ENSP00000274811:P298Q;ENSP00000440352:P217Q	ENSP00000274811:P298Q	P	-	2	0	RNF44	175889722	1.000000	0.71417	0.069000	0.20011	0.518000	0.34316	8.688000	0.91260	0.995000	0.38917	0.549000	0.68633	CCA		0.622	RNF44-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253156.2			T	175957116	G	T	175957116	3	4	600	1	0	0	0	0	1	0	0	0	13509	1348	47	4	425	4	RNF44	5	175957116	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08	5634031	175957116	4958144	35	35955										
RANBP9	10048	broad.mit.edu	37	chr6	13711709	13711709	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gctgctgttgctgctgctgcGgcggcggcggcggcggctgc	20	13	0	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr6:13711709G>T	ENST00000011619.3	-	1	87	c.29C>A	c.(28-30)cCg>cAg	p.P10Q		NM_005493.2	NP_005484.2	Q96S59	RANB9_HUMAN	RAN binding protein 9	10	Poly-Pro.				axon guidance (GO:0007411)|microtubule nucleation (GO:0007020)|protein complex assembly (GO:0006461)	cytosol (GO:0005829)|microtubule associated complex (GO:0005875)|nucleus (GO:0005634)	enzyme binding (GO:0019899)|Ran GTPase binding (GO:0008536)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(8)|skin(1)	16	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.223)			ctgctgctgcggcggcggcgg	0.761																																																0													4	5	5					6																	13711709		764	1870	2634	SO:0001583	missense	10048			AB008515	CCDS4529.1	6p23	2010-05-25			ENSG00000010017	ENSG00000010017			13727	protein-coding gene	gene with protein product	"Ran Binding Protein in the Microtubule organizing center"	603854				9817760	Standard	NM_005493		Approved	RanBPM	uc003nbb.3	Q96S59	OTTHUMG00000015642	ENST00000011619.3:c.29C>A	6.37:g.13711709G>T	ENSP00000011619:p.Pro10Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJA2|B2R8E1|O94764|Q6P3T7|Q7LBR2|Q7Z7F9	Missense_Mutation	SNP	ENST00000011619.3	37	CCDS4529.1	.	.	.	.	.	.	.	.	.	.	g	8.018	0.759040	0.15846	.	.	ENSG00000010017	ENST00000011619;ENST00000283152	T	0.78003	-1.14	1.59	-3.18	0.05186	.	.	.	.	.	T	0.30198	0.0757	N	0.08118	0	0.21416	N	0.999694	B	0.18968	0.032	B	0.10450	0.005	T	0.18555	-1.0333	9	0.30854	T	0.27	.	5.1241	0.14875	0.0:0.0:0.4149:0.5851	.	10	Q96S59	RANB9_HUMAN	Q	10	ENSP00000011619:P10Q	ENSP00000011619:P10Q	P	-	2	0	RANBP9	13819688	0.000000	0.05858	0.967000	0.41034	0.688000	0.40055	-1.054000	0.03496	-0.053000	0.13289	0.154000	0.16183	CCG		0.761	RANBP9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042373.1			T	13711709	G	T	13711709	3	4	600	1	0	0	0	0	1	0	0	0	13045	1116	39	4	2216	4	RANBP9	6	13711709	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08		13711709	157403358	36	35956										
SLC17A4	10050	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	25773825	25773825	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ttttagtctcttatttctgtGaatactggcttttttatacc	5	7	2	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr6:25773825G>A	ENST00000377905.4	+	8	1029	c.910G>A	c.(910-912)Gaa>Aaa	p.E304K	SLC17A4_ENST00000397076.2_Missense_Mutation_p.E74K|SLC17A4_ENST00000439485.2_Intron	NM_005495.2	NP_005486.1	Q9Y2C5	S17A4_HUMAN	solute carrier family 17, member 4	304					phosphate ion transmembrane transport (GO:0035435)|phosphate-containing compound metabolic process (GO:0006796)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	sodium:phosphate symporter activity (GO:0005436)			breast(4)|endometrium(1)|kidney(4)|large_intestine(3)|lung(21)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	39						TTATTTCTGTGAATACTGGCT	0.443																																																0													163	144	150					6																	25773825		2203	4300	6503	SO:0001583	missense	10050			AB020527	CCDS4564.1, CCDS75411.1	6p22.2	2013-07-18	2013-07-18		ENSG00000146039	ENSG00000146039		"Solute carriers"	10932	protein-coding gene	gene with protein product		604216	"solute carrier family 17 (sodium phosphate), member 4"			10319585	Standard	NM_005495		Approved	KIAA2138	uc003nfe.3	Q9Y2C5	OTTHUMG00000014410	ENST00000377905.4:c.910G>A	6.37:g.25773825G>A	ENSP00000367137:p.Glu304Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DDV9|E7EPE8|E7EU17|Q32MB7|Q32MB8	Missense_Mutation	SNP	ENST00000377905.4	37	CCDS4564.1	.	.	.	.	.	.	.	.	.	.	G	17.76	3.468242	0.63625	.	.	ENSG00000146039	ENST00000377905;ENST00000397076	T;T	0.58797	0.41;0.31	5.34	0.672	0.17935	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.890844	0.09592	N	0.781378	T	0.40645	0.1125	M	0.73598	2.24	0.09310	N	1	P;B	0.38048	0.616;0.082	B;B	0.40901	0.343;0.158	T	0.40365	-0.9567	10	0.54805	T	0.06	.	7.4701	0.27344	0.1347:0.4004:0.4649:0.0	.	74;304	E7EU17;Q9Y2C5	.;S17A4_HUMAN	K	304;74	ENSP00000367137:E304K;ENSP00000380266:E74K	ENSP00000367137:E304K	E	+	1	0	SLC17A4	25881804	0.000000	0.05858	0.079000	0.20413	0.976000	0.68499	-0.078000	0.11375	0.167000	0.19631	0.655000	0.94253	GAA		0.443	SLC17A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040068.1			A	25773825	G	A	25773825	3	1	600	1	0	0	0	0	1	0	0	0	14432	1291	45	2	936	2	SLC17A4	6	25773825	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08	12062116	25773825	145341242	37	35957										
HLA-G	3135	ucsc.edu	37	chr6	29797247	29797247	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gtctttgactatgaggccacCctgaggtgctgggccctggg	15	11	1	3			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr6:29797247C>T	ENST00000360323.6	+	4	696	c.672C>T	c.(670-672)acC>acT	p.T224T	HLA-G_ENST00000376818.3_Silent_p.T132T|HLA-G_ENST00000376815.3_Intron|HLA-G_ENST00000428701.1_Silent_p.T224T|HLA-G_ENST00000376828.2_Silent_p.T229T			P17693	HLAG_HUMAN	major histocompatibility complex, class I, G	224	Alpha-3.|Ig-like C1-type.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular defense response (GO:0006968)|cytokine-mediated signaling pathway (GO:0019221)|immune response-inhibiting cell surface receptor signaling pathway (GO:0002767)|interferon-gamma-mediated signaling pathway (GO:0060333)|negative regulation of dendritic cell differentiation (GO:2001199)|negative regulation of T cell proliferation (GO:0042130)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of regulatory T cell differentiation (GO:0045591)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|positive regulation of T cell tolerance induction (GO:0002666)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)	early endosome membrane (GO:0031901)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|membrane (GO:0016020)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)			central_nervous_system(1)|endometrium(1)|large_intestine(5)|lung(4)|ovary(3)|pancreas(1)|prostate(5)|skin(1)	21						ATGAGGCCACCCTGAGGTGCT	0.582																																																0													95	99	98					6																	29797247		2203	4300	6503	SO:0001819	synonymous_variant	3135				CCDS4668.1	6p21.3	2013-01-11	2007-12-12		ENSG00000204632	ENSG00000204632		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4964	protein-coding gene	gene with protein product	"b2 microglobulin"	142871	"HLA-G histocompatibility antigen, class I, G"				Standard	NM_002127		Approved		uc003nnw.2	P17693	OTTHUMG00000031157	ENST00000360323.6:c.672C>T	6.37:g.29797247C>T		Somatic		WXS	Illumina HiSeq			Silent	SNP	ENST00000360323.6	37	CCDS4668.1																																																																																				0.582	HLA-G-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076286.2	NM_002127		T	29797247	C	T	29797247	2	4	600	1	0	0	0	0	0	0	0	1	7219	610	22	2		2	HLA-G	6	29797247	Silent	SNP	C	TCGA-GL-8500-01A-11D-2396-08	4023422	29797247	141317820	38	35958										
MUC21	394263	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	30955264	30955264	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gggccaacacagccaccaacTctgggtccagtgtgacctct	10	15	2	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr6:30955264T>A	ENST00000376296.3	+	2	1553	c.1312T>A	c.(1312-1314)Tct>Act	p.S438T	MUC21_ENST00000486149.2_De_novo_Start_OutOfFrame	NM_001010909.2	NP_001010909.2	Q5SSG8	MUC21_HUMAN	mucin 21, cell surface associated	438	Ser-rich.				cellular protein metabolic process (GO:0044267)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-substrate adhesion (GO:0010812)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(4)|breast(1)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(3)|prostate(4)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	42						AGCCACCAACTCTGGGTCCAG	0.577																																																0													124	120	122					6																	30955264		2203	4300	6503	SO:0001583	missense	394263			AK056612	CCDS34388.1	6p21.33	2008-05-14	2008-05-14	2008-05-14	ENSG00000204544	ENSG00000204544		"Mucins"	21661	protein-coding gene	gene with protein product	"epiglycanin"		"chromosome 6 open reading frame 205"	C6orf205		17977904	Standard	NM_001010909		Approved	bCX31G15.2	uc003nsh.2	Q5SSG8	OTTHUMG00000031216	ENST00000376296.3:c.1312T>A	6.37:g.30955264T>A	ENSP00000365473:p.Ser438Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B0UZT7|B4DQ55|C9JMK2|D9N007|Q0VGF1|Q3B7T2|Q5SS94|Q6UXC5	Missense_Mutation	SNP	ENST00000376296.3	37	CCDS34388.1	.	.	.	.	.	.	.	.	.	.	t	7.419	0.636395	0.14386	.	.	ENSG00000204544	ENST00000450707;ENST00000376296	T	0.02015	4.5	3.96	-1.72	0.08107	.	.	.	.	.	T	0.00328	0.0010	N	0.12746	0.255	0.09310	N	1	B	0.15473	0.013	B	0.17722	0.019	T	0.42275	-0.9461	9	0.07325	T	0.83	0.2489	4.0719	0.09885	0.5071:0.2625:0.0:0.2303	.	438	Q5SSG8	MUC21_HUMAN	T	288;438	ENSP00000365473:S438T	ENSP00000365473:S438T	S	+	1	0	MUC21	31063243	0.002000	0.14202	0.000000	0.03702	0.004000	0.04260	0.031000	0.13710	-0.390000	0.07774	-0.468000	0.05107	TCT		0.577	MUC21-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000128579.3	NM_001010909		A	30955264	T	A	30955264	3	1	600	1	0	0	0	0	1	0	0	0	9984	1551	54	5	1318	5	MUC21	6	30955264	Missense_Mutation	SNP	T	TCGA-GL-8500-01A-11D-2396-08	1158017	30955264	140159803	39	35959										
MCM3	4172	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	52141973	52141973	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	aagcacataccgcagaagctGagacttggcaacggatgggt	13	9	0	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr6:52141973G>C	ENST00000229854.7	-	8	1133	c.1057C>G	c.(1057-1059)Cag>Gag	p.Q353E	MCM3_ENST00000476448.1_5'UTR|MCM3_ENST00000596288.1_Missense_Mutation_p.Q398E|MCM3_ENST00000419835.2_Missense_Mutation_p.Q307E			P25205	MCM3_HUMAN	minichromosome maintenance complex component 3	353	MCM.				DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA strand elongation involved in DNA replication (GO:0006271)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)	alpha DNA polymerase:primase complex (GO:0005658)|centrosome (GO:0005813)|intracellular membrane-bounded organelle (GO:0043231)|MCM complex (GO:0042555)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)	p.Q353K(1)		endometrium(4)|kidney(1)|large_intestine(3)|lung(6)|ovary(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	20	Lung NSC(77;0.0931)					CGCAGAAGCTGAGACTTGGCA	0.597																																																1	Substitution - Missense(1)	upper_aerodigestive_tract(1)											60	58	59					6																	52141973		2203	4300	6503	SO:0001583	missense	4172			X62153	CCDS4940.1, CCDS4940.2, CCDS75468.1	6p12	2008-02-05	2007-04-04		ENSG00000112118	ENSG00000112118			6945	protein-coding gene	gene with protein product		602693	"minichromosome maintenance deficient (S. cerevisiae) 3", "MCM3 minichromosome maintenance deficient 3 (S. cerevisiae)"			1549468	Standard	NM_002388		Approved		uc011dwu.2	P25205	OTTHUMG00000014844	ENST00000229854.7:c.1057C>G	6.37:g.52141973G>C	ENSP00000229854:p.Gln353Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DWW4|Q92660|Q9BTR3|Q9NUE7	Missense_Mutation	SNP	ENST00000229854.7	37		.	.	.	.	.	.	.	.	.	.	G	32	5.114750	0.94339	.	.	ENSG00000112118	ENST00000229854;ENST00000419835	T;T	0.10960	2.82;2.82	5.36	5.36	0.76844	ATPase, AAA+ type, core (1);	0.000000	0.85682	D	0.000000	T	0.44726	0.1307	H	0.97131	3.945	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.996	T	0.63510	-0.6621	10	0.87932	D	0	-17.9504	19.2924	0.94105	0.0:0.0:1.0:0.0	.	307;353	B4DUQ9;P25205	.;MCM3_HUMAN	E	353;307	ENSP00000229854:Q353E;ENSP00000388647:Q307E	ENSP00000229854:Q353E	Q	-	1	0	MCM3	52249932	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.657000	0.98554	2.783000	0.95769	0.655000	0.94253	CAG		0.597	MCM3-006	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000470784.1			C	52141973	G	C	52141973	3	2	600	1	0	0	0	0	1	0	0	0	9394	1299	45	4	1409	4	MCM3	6	52141973	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08	21186709	52141973	118973094	40	35960										
COL19A1	1310	broad.mit.edu	37	chr6	70866589	70866589	+	Frame_Shift_Del	DEL	G	G	-													0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	aaggagagcggggctaccctGggatacctggggagaaaggc							TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr6:70866589delG	ENST00000322773.4	+	34	2368	c.2266delG	c.(2266-2268)gggfs	p.G756fs	COL19A1_ENST00000393344.1_Frame_Shift_Del_p.G378fs	NM_001858.4	NP_001849.2	Q14993	COJA1_HUMAN	collagen, type XIX, alpha 1	756	Collagen-like 7.|Triple-helical region 4 (COL4).				cell adhesion (GO:0007155)|cell differentiation (GO:0030154)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|single organismal cell-cell adhesion (GO:0016337)|skeletal muscle tissue development (GO:0007519)|skeletal system development (GO:0001501)	collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	extracellular matrix structural constituent (GO:0005201)|protein binding, bridging (GO:0030674)			breast(4)|central_nervous_system(3)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(5)|kidney(4)|large_intestine(8)|lung(54)|ovary(3)|prostate(2)|skin(10)|upper_aerodigestive_tract(4)|urinary_tract(2)	109						GGGCTACCCTGGGATACCTGG	0.378																																																0													78	81	80					6																	70866589		2203	4300	6503	SO:0001589	frameshift_variant	1310				CCDS4970.1	6q12-q13	2013-01-16			ENSG00000082293	ENSG00000082293		"Collagens"	2196	protein-coding gene	gene with protein product		120165				7916703, 9143499	Standard	NM_001858		Approved		uc003pfc.1	Q14993	OTTHUMG00000014987	ENST00000322773.4:c.2266delG	6.37:g.70866589delG	ENSP00000316030:p.Gly756fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q00559|Q05850|Q12885|Q13676|Q14DH1|Q5JUF0|Q5T424|Q9H572|Q9NPZ2|Q9NQP2	Frame_Shift_Del	DEL	ENST00000322773.4	37	CCDS4970.1																																																																																				0.378	COL19A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041127.1			-	70866589	G	-	70866589	7	5	600	1	0	1	0	1	0	0	0	0	3678	1348	47	0	2396	0	COL19A1	6	70866589	Frame_Shift_Del	DEL	G	TCGA-GL-8500-01A-11D-2396-08	18724616	70866589	100248478	41	35961										
FERD3L	222894	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	19184646	19184646	+	Frame_Shift_Del	DEL	T	T	-													0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ggcctcgttgaggttgaacaTccgcttcctttcgcggatgt							TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr7:19184646delT	ENST00000275461.3	-	1	398	c.340delA	c.(340-342)atgfs	p.M114fs	AC003986.5_ENST00000452700.1_RNA	NM_152898.2	NP_690862.1	Q96RJ6	FER3L_HUMAN	Fer3-like bHLH transcription factor	114	bHLH. {ECO:0000255|PROSITE- ProRule:PRU00981}.				cell development (GO:0048468)|floor plate development (GO:0033504)|negative regulation of transcription, DNA-templated (GO:0045892)|regulation of neurogenesis (GO:0050767)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|endometrium(4)|large_intestine(8)|lung(16)|ovary(1)|prostate(2)|skin(1)|urinary_tract(2)	35						AGGTTGAACATCCGCTTCCTT	0.612																																																0													103	83	90					7																	19184646		2203	4300	6503	SO:0001589	frameshift_variant	222894			AF369897	CCDS5368.1	7p21.3	2013-10-17	2013-10-17		ENSG00000146618	ENSG00000146618		"Basic helix-loop-helix proteins"	16660	protein-coding gene	gene with protein product			"Fer3-like (Drosophila)"			11472856, 12217327	Standard	NM_152898		Approved	NATO3, N-TWIST, bHLHa31	uc003suo.1	Q96RJ6	OTTHUMG00000090823	ENST00000275461.3:c.340delA	7.37:g.19184646delT	ENSP00000275461:p.Met114fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q495K0	Frame_Shift_Del	DEL	ENST00000275461.3	37	CCDS5368.1																																																																																				0.612	FERD3L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207627.1			-	19184646	T	-	19184646	7	5	600	1	0	1	0	1	0	0	0	0	5823	1435	50	0	164	0	FERD3L	7	19184646	Frame_Shift_Del	DEL	T	TCGA-GL-8500-01A-11D-2396-08		19184646	139954017	42	35962										
SEMA3D	223117	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	84636164	84636164	+	Frame_Shift_Del	DEL	G	G	-													0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tctggatataccatttaataGttgcttgttgggatttaggt							TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr7:84636164delG	ENST00000284136.6	-	16	1905	c.1862delC	c.(1861-1863)actfs	p.T621fs	SEMA3D_ENST00000484038.1_5'UTR	NM_152754.2	NP_689967.2	O95025	SEM3D_HUMAN	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D	621	Ig-like C2-type.				cell differentiation (GO:0030154)|nervous system development (GO:0007399)	extracellular region (GO:0005576)|membrane (GO:0016020)	receptor activity (GO:0004872)			NS(1)|breast(2)|cervix(1)|endometrium(9)|kidney(2)|large_intestine(19)|lung(29)|ovary(3)|pancreas(1)|prostate(4)|skin(2)	73						CCATTTAATAGTTGCTTGTTG	0.388																																					Ovarian(63;442 1191 17318 29975 31528)											0													214	198	203					7																	84636164		2203	4300	6503	SO:0001589	frameshift_variant	223117			BC029590	CCDS34676.1	7q21.11	2013-01-11			ENSG00000153993	ENSG00000153993		"Semaphorins", "Immunoglobulin superfamily / V-set domain containing"	10726	protein-coding gene	gene with protein product		609907					Standard	NM_152754		Approved	coll-2, Sema-Z2	uc003uic.3	O95025	OTTHUMG00000154569	ENST00000284136.6:c.1862delC	7.37:g.84636164delG	ENSP00000284136:p.Thr621fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NK46|Q6UW77|Q8NCQ1	Frame_Shift_Del	DEL	ENST00000284136.6	37	CCDS34676.1																																																																																				0.388	SEMA3D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336084.2	NM_152754		-	84636164	G	-	84636164	7	5	600	1	0	1	0	1	0	0	0	0	14040	1029	36	0	479	0	SEMA3D	7	84636164	Frame_Shift_Del	DEL	G	TCGA-GL-8500-01A-11D-2396-08	65451518	84636164	74502499	43	35963										
KIAA1549	57670	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	138597164	138597164	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gaatcctcagtacttctttgAttgctgtaatgatgtactcc	7	9	2	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr7:138597164A>C	ENST00000422774.1	-	3	2969	c.2921T>G	c.(2920-2922)aTc>aGc	p.I974S	KIAA1549_ENST00000242365.4_Missense_Mutation_p.I924S|KIAA1549_ENST00000440172.1_Missense_Mutation_p.I974S			Q9HCM3	K1549_HUMAN	KIAA1549	974						integral component of membrane (GO:0016021)			KIAA1549/BRAF(703)	large_intestine(4)|pancreas(1)|upper_aerodigestive_tract(2)	7						TACTTCTTTGATTGCTGTAAT	0.463			O	BRAF	pilocytic astrocytoma																																NSCLC(119;1534 1718 44213 46230 50068)		Dom	yes		7	7q34	57670	KIAA1549		O	0													149	145	146					7																	138597164		2032	4201	6233	SO:0001583	missense	57670				CCDS47723.1, CCDS47723.2, CCDS56513.1	7q34	2009-10-09			ENSG00000122778	ENSG00000122778			22219	protein-coding gene	gene with protein product		613344					Standard	NM_020910		Approved		uc011kql.2	Q9HCM3	OTTHUMG00000157214	ENST00000422774.1:c.2921T>G	7.37:g.138597164A>C	ENSP00000416040:p.Ile974Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B6HY55|B6HY56|B6HY58|B6HY60|B6HY61|B6HY62|B6HY63|B6HY64|B6HY65|B6HY66|Q5BJD6|Q8IY15|Q9H0M3	Missense_Mutation	SNP	ENST00000422774.1	37	CCDS56513.1	.	.	.	.	.	.	.	.	.	.	A	22.4	4.284165	0.80803	.	.	ENSG00000122778	ENST00000440172;ENST00000242365;ENST00000422774	T;T;T	0.32515	1.45;1.46;1.46	5.38	5.38	0.77491	.	0.071830	0.56097	D	0.000028	T	0.45994	0.1370	L	0.36672	1.1	0.51482	D	0.999929	D;D	0.89917	1.0;1.0	D;D	0.77004	0.975;0.989	T	0.44544	-0.9321	10	0.87932	D	0	.	14.7359	0.69414	1.0:0.0:0.0:0.0	.	974;974	Q9HCM3;Q9HCM3-2	K1549_HUMAN;.	S	974;924;974	ENSP00000406661:I974S;ENSP00000242365:I924S;ENSP00000416040:I974S	ENSP00000242365:I924S	I	-	2	0	KIAA1549	138247704	1.000000	0.71417	0.998000	0.56505	0.977000	0.68977	7.162000	0.77515	2.254000	0.74563	0.533000	0.62120	ATC		0.463	KIAA1549-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000348092.1			C	138597164	A	C	138597164	3	2	600	1	0	0	0	0	1	0	0	0	8251	333	12	5	3003	5	KIAA1549	7	138597164	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	53961000	138597164	20541499	44	35964										
ATP6V0E2	155066	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	149576654	149576654	+	3'UTR	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ggatgtcctgctccaataccCgcactgctctggagtttgcc	10	14	1	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr7:149576654C>G	ENST00000425642.2	+	0	519				ATP6V0E2-AS1_ENST00000464939.1_RNA|ATP6V0E2_ENST00000421974.2_Missense_Mutation_p.P177R|ATP6V0E2_ENST00000479613.1_Missense_Mutation_p.P151R|ATP6V0E2_ENST00000456496.2_3'UTR|ATP6V0E2_ENST00000606024.1_Missense_Mutation_p.P128R|RP11-445N20.3_ENST00000608912.1_lincRNA			Q8NHE4	VA0E2_HUMAN	ATPase, H+ transporting V0 subunit e2						ATP hydrolysis coupled proton transport (GO:0015991)|cell growth (GO:0016049)|cellular iron ion homeostasis (GO:0006879)|insulin receptor signaling pathway (GO:0008286)|interaction with host (GO:0051701)|phagosome maturation (GO:0090382)|transferrin transport (GO:0033572)|transmembrane transport (GO:0055085)|vacuolar acidification (GO:0007035)	endosome membrane (GO:0010008)|integral component of membrane (GO:0016021)|phagocytic vesicle membrane (GO:0030670)|proton-transporting V-type ATPase, V0 domain (GO:0033179)	ATPase activity, coupled to transmembrane movement of ions (GO:0042625)|hydrogen ion transmembrane transporter activity (GO:0015078)			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00256)			CTCCAATACCCGCACTGCTCT	0.637																																																0													61	69	66					7																	149576654		1987	4159	6146	SO:0001624	3_prime_UTR_variant	155066			AK057700	CCDS47742.1, CCDS55181.1	7q36.1	2010-04-21	2006-10-12	2006-10-12	ENSG00000171130	ENSG00000171130		"ATPases / V-type"	21723	protein-coding gene	gene with protein product		611019	"chromosome 7 open reading frame 32", "ATPase, H+ transporting V0 subunit E isoform 2-like (rat)"	C7orf32, ATP6V0E2L			Standard	XM_005249958		Approved		uc003wgs.3	Q8NHE4	OTTHUMG00000158094	ENST00000425642.2:c.*250C>G	7.37:g.149576654C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A2T863|A2T8L7|B5MDP5|J3KQW7|Q6MZW1|Q75L47|Q7Z4R7|Q8N7I8	Missense_Mutation	SNP	ENST00000425642.2	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	12.45|12.45	1.941217|1.941217	0.34283|0.34283	.|.	.|.	ENSG00000171130|ENSG00000171130	ENST00000421974;ENST00000425642;ENST00000479613|ENST00000307445	.|.	.|.	.|.	2.78|2.78	1.89|1.89	0.25635|0.25635	.|.	.|.	.|.	.|.	.|.	T|T	0.19725|0.19725	0.0474|0.0474	N|N	0.08118|0.08118	0|0	0.09310|0.09310	N|N	1|1	P;P|.	0.44090|.	0.826;0.742|.	B;B|.	0.37422|.	0.249;0.238|.	T|T	0.19160|0.19160	-1.0314|-1.0314	8|6	0.72032|0.87932	D|D	0.01|0	.|.	5.6822|5.6822	0.17782|0.17782	0.0:0.8483:0.0:0.1517|0.0:0.8483:0.0:0.1517	.|.	177;151|.	E9PAS2;Q8NHE4-3|.	.;.|.	R|G	177;128;151|96	.|.	ENSP00000411672:P177R|ENSP00000304519:R96G	P|R	+|+	2|1	0|0	ATP6V0E2|ATP6V0E2	149207587|149207587	0.000000|0.000000	0.05858|0.05858	0.003000|0.003000	0.11579|0.11579	0.005000|0.005000	0.04900|0.04900	0.044000|0.044000	0.13992|0.13992	0.750000|0.750000	0.32877|0.32877	0.467000|0.467000	0.42956|0.42956	CCG|CGC		0.637	ATP6V0E2-010	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000470874.1	NM_145230		G	149576654	C	G	149576654	1	3	600	0	1	0	0	0	0	0	0	0	1176	652	23	4		4	ATP6V0E2	7	149576654	3'UTR	SNP	C	TCGA-GL-8500-01A-11D-2396-08	10979490	149576654	9562009	45	35965										
NEIL2	252969	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	11637150	11637150	+	Frame_Shift_Del	DEL	A	A	-													0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tagatttgatctagatgaagAaatggggccccctggcagca							TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr8:11637150delA	ENST00000284503.6	+	3	781	c.182delA	c.(181-183)gaafs	p.E61fs	NEIL2_ENST00000436750.3_Frame_Shift_Del_p.E61fs|NEIL2_ENST00000403422.3_5'UTR|NEIL2_ENST00000528323.1_Intron|NEIL2_ENST00000455213.2_Frame_Shift_Del_p.E61fs	NM_145043.2	NP_659480.1	Q969S2	NEIL2_HUMAN	nei endonuclease VIII-like 2 (E. coli)	61					base-excision repair (GO:0006284)|nucleotide-excision repair (GO:0006289)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|spindle microtubule (GO:0005876)	damaged DNA binding (GO:0003684)|DNA-(apurinic or apyrimidinic site) lyase activity (GO:0003906)|hydrolase activity, hydrolyzing N-glycosyl compounds (GO:0016799)|zinc ion binding (GO:0008270)			endometrium(1)|kidney(1)|large_intestine(3)|lung(4)|upper_aerodigestive_tract(1)	10	all_epithelial(15;0.103)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.166)		CTAGATGAAGAAATGGGGCCC	0.527								Base excision repair (BER), DNA glycosylases																																								0													59	75	70					8																	11637150		2203	4300	6503	SO:0001589	frameshift_variant	252969			AK056206	CCDS5984.1, CCDS47802.1, CCDS47803.1	8p23.1	2010-04-27	2010-04-27		ENSG00000154328	ENSG00000154328			18956	protein-coding gene	gene with protein product		608933	"nei like 2 (E. coli)"			12097317, 17686777	Standard	NM_145043		Approved	NEH2, FLJ31644, MGC2832, MGC4505	uc003wue.2	Q969S2	OTTHUMG00000090753	ENST00000284503.6:c.182delA	8.37:g.11637150delA	ENSP00000284503:p.Glu61fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFR7|Q7Z3Q7|Q8N842|Q8NG52	Frame_Shift_Del	DEL	ENST00000284503.6	37	CCDS5984.1																																																																																				0.527	NEIL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207583.3	NM_145043		-	11637150	A	-	11637150	7	5	600	1	0	1	0	1	0	0	0	0	10326	246	9	0	193	0	NEIL2	8	11637150	Frame_Shift_Del	DEL	A	TCGA-GL-8500-01A-11D-2396-08		11637150	134726872	46	35966										
GOT1L1	137362	hgsc.bcm.edu	37	chr8	37797478	37797478	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	cgggtaatcatcttgtttgtAggtctttaacaagctgccct	9	9	3	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr8:37797478A>G	ENST00000307599.4	-	1	169	c.70T>C	c.(70-72)Tac>Cac	p.Y24H		NM_152413.2	NP_689626.2	Q8NHS2	AATC2_HUMAN	glutamic-oxaloacetic transaminase 1-like 1	24					biosynthetic process (GO:0009058)|cellular amino acid metabolic process (GO:0006520)	cytoplasm (GO:0005737)	pyridoxal phosphate binding (GO:0030170)|transaminase activity (GO:0008483)			central_nervous_system(1)|endometrium(3)|lung(8)|ovary(1)|prostate(1)	14	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;1.37e-11)			TCTTGTTTGTAGGTCTTTAAC	0.448																																																0													135	123	127					8																	37797478		1941	4123	6064	SO:0001583	missense	137362			BC029504	CCDS47839.1	8p12	2005-09-22			ENSG00000169154	ENSG00000169154			28487	protein-coding gene	gene with protein product						12477932	Standard	NM_152413		Approved	MGC33309	uc011lbj.1	Q8NHS2	OTTHUMG00000164027	ENST00000307599.4:c.70T>C	8.37:g.37797478A>G	ENSP00000303077:p.Tyr24His	Somatic		WXS	Illumina HiSeq	Phase_I	A8MWL4	Missense_Mutation	SNP	ENST00000307599.4	37	CCDS47839.1	.	.	.	.	.	.	.	.	.	.	A	15.50	2.852246	0.51270	.	.	ENSG00000169154	ENST00000307599;ENST00000524298	T	0.23950	1.88	5.47	5.47	0.80525	Pyridoxal phosphate-dependent transferase, major domain (1);	0.177963	0.36519	N	0.002544	T	0.52869	0.1761	M	0.86097	2.795	0.80722	D	1	D	0.76494	0.999	D	0.68192	0.956	T	0.60198	-0.7310	10	0.87932	D	0	-8.5012	11.9993	0.53222	1.0:0.0:0.0:0.0	.	24	Q8NHS2	AATC2_HUMAN	H	24;17	ENSP00000303077:Y24H	ENSP00000303077:Y24H	Y	-	1	0	GOT1L1	37916635	1.000000	0.71417	0.965000	0.40720	0.173000	0.22820	4.187000	0.58344	2.094000	0.63399	0.454000	0.30748	TAC		0.448	GOT1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376823.1	NM_152413		G	37797478	A	G	37797478	3	3	600	1	0	0	0	0	1	0	0	0	6587	420	15	3	1076	3	GOT1L1	8	37797478	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	26160328	37797478	108566544	47	35967										
LYN	4067	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	56922610	56922610	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gaccaacgtttgactacttaCagagcgtcctggatgatttc	9	10	0	3			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr8:56922610C>A	ENST00000519728.1	+	13	1776	c.1480C>A	c.(1480-1482)Cag>Aag	p.Q494K	LYN_ENST00000520220.2_Missense_Mutation_p.Q473K	NM_002350.3	NP_002341.1	P07948	LYN_HUMAN	LYN proto-oncogene, Src family tyrosine kinase	494	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				B cell homeostasis (GO:0001782)|B cell receptor signaling pathway (GO:0050853)|blood coagulation (GO:0007596)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to extracellular stimulus (GO:0031668)|cellular response to heat (GO:0034605)|cellular response to retinoic acid (GO:0071300)|cytokine secretion (GO:0050663)|dendritic cell differentiation (GO:0097028)|erythrocyte differentiation (GO:0030218)|Fc receptor mediated inhibitory signaling pathway (GO:0002774)|Fc receptor mediated stimulatory signaling pathway (GO:0002431)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|histamine secretion by mast cell (GO:0002553)|immune response-regulating cell surface receptor signaling pathway (GO:0002768)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|leukocyte migration (GO:0050900)|lipopolysaccharide-mediated signaling pathway (GO:0031663)|negative regulation of B cell proliferation (GO:0030889)|negative regulation of cell proliferation (GO:0008285)|negative regulation of ERK1 and ERK2 cascade (GO:0070373)|negative regulation of immune response (GO:0050777)|negative regulation of intracellular signal transduction (GO:1902532)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of mast cell proliferation (GO:0070667)|negative regulation of myeloid leukocyte differentiation (GO:0002762)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of toll-like receptor 2 signaling pathway (GO:0034136)|negative regulation of toll-like receptor 4 signaling pathway (GO:0034144)|neuron projection development (GO:0031175)|oligodendrocyte development (GO:0014003)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of B cell receptor signaling pathway (GO:0050861)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cellular component movement (GO:0051272)|positive regulation of dendritic cell apoptotic process (GO:2000670)|positive regulation of Fc receptor mediated stimulatory signaling pathway (GO:0060369)|positive regulation of glial cell proliferation (GO:0060252)|positive regulation of mast cell proliferation (GO:0070668)|positive regulation of neuron projection development (GO:0010976)|positive regulation of oligodendrocyte progenitor proliferation (GO:0070447)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of stress-activated protein kinase signaling cascade (GO:0070304)|positive regulation of tyrosine phosphorylation of STAT protein (GO:0042531)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of B cell apoptotic process (GO:0002902)|regulation of B cell receptor signaling pathway (GO:0050855)|regulation of cell adhesion mediated by integrin (GO:0033628)|regulation of cytokine production (GO:0001817)|regulation of cytokine secretion (GO:0050707)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of erythrocyte differentiation (GO:0045646)|regulation of inflammatory response (GO:0050727)|regulation of mast cell activation (GO:0033003)|regulation of mast cell degranulation (GO:0043304)|regulation of monocyte chemotaxis (GO:0090025)|regulation of platelet aggregation (GO:0090330)|regulation of protein phosphorylation (GO:0001932)|regulation of release of sequestered calcium ion into cytosol (GO:0051279)|response to amino acid (GO:0043200)|response to axon injury (GO:0048678)|response to carbohydrate (GO:0009743)|response to drug (GO:0042493)|response to hormone (GO:0009725)|response to insulin (GO:0032868)|response to organic cyclic compound (GO:0014070)|response to sterol depletion (GO:0006991)|response to toxic substance (GO:0009636)|signal transduction (GO:0007165)|signal transduction by phosphorylation (GO:0023014)|T cell costimulation (GO:0031295)|tolerance induction to self antigen (GO:0002513)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integrin alpha2-beta1 complex (GO:0034666)|mast cell granule (GO:0042629)|membrane raft (GO:0045121)|mitochondrial crista (GO:0030061)|mitochondrial intermembrane space (GO:0005758)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)	ATP binding (GO:0005524)|enzyme binding (GO:0019899)|glycosphingolipid binding (GO:0043208)|ion channel binding (GO:0044325)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein tyrosine kinase activity (GO:0004713)|receptor signaling protein tyrosine kinase activity (GO:0004716)			breast(4)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(8)|ovary(1)|upper_aerodigestive_tract(1)	22		all_lung(136;0.0555)|Lung NSC(129;0.0726)|all_epithelial(80;0.0772)	Epithelial(17;0.000834)|all cancers(17;0.00598)		Bosutinib(DB06616)|Ponatinib(DB08901)	TGACTACTTACAGAGCGTCCT	0.527																																																0													102	94	96					8																	56922610		2203	4300	6503	SO:0001583	missense	4067			M16038	CCDS6162.1, CCDS47859.1	8q13	2014-06-25	2014-06-25		ENSG00000254087	ENSG00000254087		"SH2 domain containing"	6735	protein-coding gene	gene with protein product		165120	"v-yes-1 Yamaguchi sarcoma viral related oncogene homolog"			3561390	Standard	NM_002350		Approved	JTK8	uc003xsk.4	P07948	OTTHUMG00000044345	ENST00000519728.1:c.1480C>A	8.37:g.56922610C>A	ENSP00000428924:p.Gln494Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVQ5	Missense_Mutation	SNP	ENST00000519728.1	37	CCDS6162.1	.	.	.	.	.	.	.	.	.	.	C	25.8	4.672813	0.88445	.	.	ENSG00000254087	ENST00000519728;ENST00000520220	T;T	0.10573	2.86;2.86	5.95	5.95	0.96441	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.13500	0.0327	N	0.12422	0.21	0.80722	D	1	P;P	0.41265	0.744;0.59	P;B	0.48189	0.57;0.415	T	0.08106	-1.0738	10	0.54805	T	0.06	.	20.3932	0.98965	0.0:1.0:0.0:0.0	.	564;494	Q6NUK7;P07948	.;LYN_HUMAN	K	494;473	ENSP00000428924:Q494K;ENSP00000428424:Q473K	ENSP00000428924:Q494K	Q	+	1	0	LYN	57085164	1.000000	0.71417	0.967000	0.41034	0.879000	0.50718	7.818000	0.86416	2.824000	0.97209	0.655000	0.94253	CAG		0.527	LYN-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378155.1	NM_002350		A	56922610	C	A	56922610	3	1	600	1	0	0	0	0	1	0	0	0	9114	479	17	4	1526	4	LYN	8	56922610	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	19125132	56922610	89441412	48	35968										
GEM	2669	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	95262646	95262646	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	cgcctggctttcctgggcatGctctccttccttttctggta	9	14	2	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr8:95262646G>A	ENST00000297596.2	-	5	1047	c.783C>T	c.(781-783)agC>agT	p.S261S	GEM_ENST00000396194.2_Silent_p.S261S	NM_005261.3	NP_005252.1	P55040	GEM_HUMAN	GTP binding protein overexpressed in skeletal muscle	261					cell surface receptor signaling pathway (GO:0007166)|chromosome organization (GO:0051276)|immune response (GO:0006955)|metaphase plate congression (GO:0051310)|mitotic nuclear division (GO:0007067)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	cytoplasmic side of plasma membrane (GO:0009898)|midbody (GO:0030496)|mitotic spindle (GO:0072686)|nucleus (GO:0005634)|spindle midzone (GO:0051233)	GDP binding (GO:0019003)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|magnesium ion binding (GO:0000287)			endometrium(3)|kidney(1)|large_intestine(7)|lung(9)|prostate(1)|upper_aerodigestive_tract(1)	22	Breast(36;4.65e-06)	Myeloproliferative disorder(644;0.204)	BRCA - Breast invasive adenocarcinoma(8;0.00691)			TCCTGGGCATGCTCTCCTTCC	0.552																																					GBM(125;80 1653 28655 32188 47338)|Esophageal Squamous(19;97 579 13602 49091 51766)											0													96	87	90					8																	95262646		2203	4300	6503	SO:0001819	synonymous_variant	2669				CCDS6261.1	8q13-q21	2014-05-09	2001-11-28		ENSG00000164949	ENSG00000164949			4234	protein-coding gene	gene with protein product	"kinase-inducible Ras-like protein"	600164	"GTP-binding protein overexpressed in skeletal muscle"			7912851, 11956230	Standard	NM_005261		Approved	KIR	uc003ygj.3	P55040	OTTHUMG00000164392	ENST00000297596.2:c.783C>T	8.37:g.95262646G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RA31	Silent	SNP	ENST00000297596.2	37	CCDS6261.1																																																																																				0.552	GEM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378566.1	NM_181702		A	95262646	G	A	95262646	2	1	600	1	0	0	0	0	0	0	0	1	6336	1310	46	2		2	GEM	8	95262646	Silent	SNP	G	TCGA-GL-8500-01A-11D-2396-08	38340036	95262646	51101376	49	35969										
RAD54B	25788	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	95419720	95419720	+	Frame_Shift_Del	DEL	T	T	-													0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tttggaaatcattctgtctaTtttcctttgaacttggttta							TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr8:95419720delT	ENST00000336148.5	-	5	852	c.728delA	c.(727-729)aatfs	p.N243fs		NM_012415.3	NP_036547.1	Q9Y620	RA54B_HUMAN	RAD54 homolog B (S. cerevisiae)	243					ATP catabolic process (GO:0006200)|DNA duplex unwinding (GO:0032508)|double-strand break repair via homologous recombination (GO:0000724)|mitotic recombination (GO:0006312)|reciprocal meiotic recombination (GO:0007131)	nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)|DNA translocase activity (GO:0015616)|RNA helicase activity (GO:0003724)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(4)|large_intestine(10)|lung(15)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	39	Breast(36;4.5e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00217)			ATTCTGTCTATTTTCCTTTGA	0.353								Direct reversal of damage;Homologous recombination																																								0													79	78	79					8																	95419720		2203	4300	6503	SO:0001589	frameshift_variant	25788			AF112481	CCDS6262.1, CCDS56546.1, CCDS75768.1	8q22.1	2014-08-08			ENSG00000197275	ENSG00000197275			17228	protein-coding gene	gene with protein product		604289				10362364, 10851248	Standard	NM_012415		Approved	RDH54	uc003ygk.3	Q9Y620	OTTHUMG00000133658	ENST00000336148.5:c.728delA	8.37:g.95419720delT	ENSP00000336606:p.Asn243fs	Somatic		WXS	Illumina HiSeq	Phase_I	F6WBS8	Frame_Shift_Del	DEL	ENST00000336148.5	37	CCDS6262.1																																																																																				0.353	RAD54B-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257806.3	NM_012415		-	95419720	T	-	95419720	7	5	600	1	0	1	0	1	0	0	0	0	13005	1493	52	0	2048	0	RAD54B	8	95419720	Frame_Shift_Del	DEL	T	TCGA-GL-8500-01A-11D-2396-08	157074	95419720	50944302	50	35970										
C8orf38	137682	hgsc.bcm.edu	37	chr8	96037319	96037319	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ctgccgccggccgcctctggGtctgtacgcgcgcatgcggc	15	17	2	0	rs201223057	byFrequency	TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr8:96037319G>C	ENST00000396124.4	+	1	106	c.83G>C	c.(82-84)gGt>gCt	p.G28A	NDUFAF6_ENST00000286687.4_5'UTR|NDUFAF6_ENST00000542894.1_Intron|NDUFAF6_ENST00000396111.2_Intron|NDUFAF6_ENST00000396113.1_Intron	NM_152416.3	NP_689629.2	Q330K2	NDUF6_HUMAN	NADH dehydrogenase (ubiquinone) complex I, assembly factor 6	28					biosynthetic process (GO:0009058)|mitochondrial respiratory chain complex I assembly (GO:0032981)	cytoplasm (GO:0005737)|mitochondrial inner membrane (GO:0005743)|nucleus (GO:0005634)	transferase activity (GO:0016740)										CCGCCTCTGGGTCTGTACGCG	0.766													G|||	3	0.000599042	0.0008	0.0	5008	,	,		10023	0.0		0.001	False		,,,				2504	0.001															0													2	3	3					8																	96037319		1152	2673	3825	SO:0001583	missense	137682			BC028166	CCDS6266.2	8q22.1	2013-10-21	2012-05-08	2012-05-08	ENSG00000156170	ENSG00000156170		"Mitochondrial respiratory chain complex assembly factors"	28625	protein-coding gene	gene with protein product		612392	"chromosome 8 open reading frame 38"	C8orf38		22019594, 23509070	Standard	NM_152416		Approved	MGC40214	uc003yhj.3	Q330K2	OTTHUMG00000150173	ENST00000396124.4:c.83G>C	8.37:g.96037319G>C	ENSP00000379430:p.Gly28Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8MT28|A8MWF0|B4DQ45|Q8N6U6	Missense_Mutation	SNP	ENST00000396124.4	37	CCDS6266.2	.	.	.	.	.	.	.	.	.	.	G	14.63	2.593484	0.46214	.	.	ENSG00000156170	ENST00000396124	D	0.82344	-1.6	4.69	-0.395	0.12431	.	4.915100	0.02393	U	0.079907	T	0.66446	0.2790	N	0.19112	0.55	0.29426	N	0.860208	B	0.23591	0.088	B	0.21360	0.034	T	0.57974	-0.7718	10	0.05620	T	0.96	-0.9879	3.6626	0.08244	0.3757:0.0:0.4557:0.1686	.	28	Q330K2	CH038_HUMAN	A	28	ENSP00000379430:G28A	ENSP00000379430:G28A	G	+	2	0	C8orf38	96106495	0.000000	0.05858	0.000000	0.03702	0.416000	0.31233	0.481000	0.22260	-0.303000	0.08856	0.655000	0.94253	GGT		0.766	NDUFAF6-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316700.2	NM_152416		C	96037319	G	C	96037319	3	2	600	1	0	0	0	0	1	0	0	0	2426	1261	44	4	85	4	C8orf38	8	96037319	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08	617599	96037319	50326703	51	35971										
PTK2	5747	hgsc.bcm.edu	37	chr8	141684434	141684434	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	agctgtcagcagggctgctgAggctggcaaggcttcccaga	15	11	1	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr8:141684434A>G	ENST00000522684.1	-	29	2901	c.2672T>C	c.(2671-2673)cTc>cCc	p.L891P	PTK2_ENST00000430260.2_Missense_Mutation_p.L201P|PTK2_ENST00000340930.3_Missense_Mutation_p.L901P|PTK2_ENST00000521059.1_Missense_Mutation_p.L891P|PTK2_ENST00000538769.1_Missense_Mutation_p.L559P|PTK2_ENST00000535192.1_Missense_Mutation_p.L845P|PTK2_ENST00000395218.2_Missense_Mutation_p.L901P|PTK2_ENST00000517887.1_Missense_Mutation_p.L935P|PTK2_ENST00000519419.1_Missense_Mutation_p.L935P|PTK2_ENST00000519465.1_Missense_Mutation_p.L519P	NM_153831.3	NP_722560.1	Q05397	FAK1_HUMAN	protein tyrosine kinase 2	891	Interaction with TGFB1I1.|Pro-rich.				angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell motility (GO:0048870)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|central nervous system neuron axonogenesis (GO:0021955)|embryo development (GO:0009790)|endothelial cell migration (GO:0043542)|ephrin receptor signaling pathway (GO:0048013)|establishment of cell polarity (GO:0030010)|establishment of nucleus localization (GO:0040023)|extracellular matrix organization (GO:0030198)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|growth hormone receptor signaling pathway (GO:0060396)|heart morphogenesis (GO:0003007)|innate immune response (GO:0045087)|integrin-mediated signaling pathway (GO:0007229)|microtubule cytoskeleton organization (GO:0000226)|negative regulation of anoikis (GO:2000811)|negative regulation of apoptotic process (GO:0043066)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of organ growth (GO:0046621)|negative regulation of synapse assembly (GO:0051964)|netrin-activated signaling pathway (GO:0038007)|neuron migration (GO:0001764)|peptidyl-tyrosine phosphorylation (GO:0018108)|placenta development (GO:0001890)|platelet activation (GO:0030168)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|protein autophosphorylation (GO:0046777)|regulation of cell adhesion mediated by integrin (GO:0033628)|regulation of cell proliferation (GO:0042127)|regulation of cell shape (GO:0008360)|regulation of cytoskeleton organization (GO:0051493)|regulation of endothelial cell migration (GO:0010594)|regulation of focal adhesion assembly (GO:0051893)|regulation of osteoblast differentiation (GO:0045667)|regulation of Rho GTPase activity (GO:0032319)|signal complex assembly (GO:0007172)|transforming growth factor beta receptor signaling pathway (GO:0007179)|vasculogenesis (GO:0001570)	apical plasma membrane (GO:0016324)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|stress fiber (GO:0001725)	actin binding (GO:0003779)|ATP binding (GO:0005524)|JUN kinase binding (GO:0008432)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|SH2 domain binding (GO:0042169)|signal transducer activity (GO:0004871)			breast(1)|central_nervous_system(1)|endometrium(8)|kidney(2)|large_intestine(6)|lung(23)|ovary(2)|prostate(1)|skin(3)|urinary_tract(1)	48	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			AGGGCTGCTGAGGCTGGCAAG	0.567																																																0													49	41	43					8																	141684434		2203	4300	6503	SO:0001583	missense	5747			L13616	CCDS6381.1, CCDS56557.1	8q24.3	2013-02-18	2013-02-18		ENSG00000169398	ENSG00000169398	2.7.10.1	"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	9611	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 71"	600758	"PTK2 protein tyrosine kinase 2"			8422239	Standard	NM_153831		Approved	FAK, FADK, FAK1, PPP1R71	uc003yvt.3	Q05397	OTTHUMG00000067438	ENST00000522684.1:c.2672T>C	8.37:g.141684434A>G	ENSP00000429911:p.Leu891Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2N6|F5H4S4|Q14291|Q9UD85	Missense_Mutation	SNP	ENST00000522684.1	37	CCDS6381.1	.	.	.	.	.	.	.	.	.	.	A	16.49	3.137373	0.56936	.	.	ENSG00000169398	ENST00000522684;ENST00000535192;ENST00000519465;ENST00000517887;ENST00000521059;ENST00000395214;ENST00000395218;ENST00000354438;ENST00000395221;ENST00000523539;ENST00000340930;ENST00000538769;ENST00000519419;ENST00000430260;ENST00000521986	T;T;T;T;T;T;T;T;T;T;T;T	0.77098	-1.02;-1.05;-1.02;-1.04;-1.02;-1.07;-1.01;-1.04;-1.0;-1.04;1.37;-1.04	5.96	5.96	0.96718	.	0.148388	0.45606	D	0.000349	T	0.66177	0.2763	N	0.19112	0.55	0.80722	D	1	P;P;B;B;B;B;B;B;B;P	0.43662	0.814;0.574;0.238;0.303;0.357;0.303;0.375;0.075;0.0;0.736	B;B;B;B;B;B;B;B;B;B	0.43052	0.229;0.406;0.167;0.121;0.167;0.121;0.397;0.265;0.002;0.248	T	0.65586	-0.6132	10	0.27785	T	0.31	.	11.5164	0.50524	0.8663:0.0:0.0:0.1337	.	901;586;811;891;913;845;843;718;559;519	B4E2N6;B4DH13;Q59GN8;Q05397;Q658W2;Q8IYN9;Q59GM6;Q05397-2;Q8N9D7;E9PEI4	.;.;.;FAK1_HUMAN;.;.;.;.;.;.	P	891;845;519;935;891;843;901;812;586;563;901;559;935;201;589	ENSP00000429911:L891P;ENSP00000438009:L845P;ENSP00000429170:L519P;ENSP00000429082:L935P;ENSP00000429474:L891P;ENSP00000378644:L901P;ENSP00000428492:L563P;ENSP00000341189:L901P;ENSP00000445742:L559P;ENSP00000429129:L935P;ENSP00000403416:L201P;ENSP00000430603:L589P	ENSP00000341189:L901P	L	-	2	0	PTK2	141753616	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	5.777000	0.68931	2.284000	0.76573	0.528000	0.53228	CTC		0.567	PTK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378054.5	NM_005607		G	141684434	A	G	141684434	3	3	600	1	0	0	0	0	1	0	0	0	12773	304	11	3	502	3	PTK2	8	141684434	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	45647115	141684434	4679588	52	35972										
PLEC	5339	hgsc.bcm.edu	37	chr8	144997533	144997533	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	agctgcagccgcagtgttgtCagctcctgctccacctgcgc	11	16	1	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr8:144997533C>G	ENST00000322810.4	-	31	7144	c.6975G>C	c.(6973-6975)ctG>ctC	p.L2325L	PLEC_ENST00000354958.2_Silent_p.L2166L|PLEC_ENST00000354589.3_Silent_p.L2188L|PLEC_ENST00000345136.3_Silent_p.L2188L|PLEC_ENST00000527096.1_Silent_p.L2211L|PLEC_ENST00000398774.2_Silent_p.L2156L|PLEC_ENST00000436759.2_Silent_p.L2215L|PLEC_ENST00000356346.3_Silent_p.L2174L|PLEC_ENST00000357649.2_Silent_p.L2192L	NM_201380.2	NP_958782.1	Q15149	PLEC_HUMAN	plectin	2325	Central fibrous rod domain.				apoptotic process (GO:0006915)|cell junction assembly (GO:0034329)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)	costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|intermediate filament cytoskeleton (GO:0045111)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcoplasm (GO:0016528)	ankyrin binding (GO:0030506)|poly(A) RNA binding (GO:0044822)|structural constituent of muscle (GO:0008307)			NS(1)|breast(3)|central_nervous_system(4)|cervix(7)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(8)|lung(57)|ovary(4)|pancreas(2)|prostate(11)|skin(9)|stomach(2)|upper_aerodigestive_tract(10)	137						GCAGTGTTGTCAGCTCCTGCT	0.662																																																0													11	13	12					8																	144997533		2137	4243	6380	SO:0001819	synonymous_variant	5339			U53204	CCDS43769.1, CCDS43770.1, CCDS43771.1, CCDS43772.1, CCDS43773.1, CCDS43774.1, CCDS43775.1, CCDS47936.1	8q24	2010-02-04	2010-02-04	2010-02-04	ENSG00000178209	ENSG00000178209			9069	protein-coding gene	gene with protein product		601282	"plectin 1, intermediate filament binding protein, 500kD", "epidermolysis bullosa simplex 1 (Ogna)", "plectin 1, intermediate filament binding protein 500kDa"	EBS1, PLEC1		8633055, 8696340	Standard	XM_005250976		Approved	PCN, PLTN	uc003zaf.1	Q15149	OTTHUMG00000165291	ENST00000322810.4:c.6975G>C	8.37:g.144997533C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q15148|Q16640|Q6S376|Q6S377|Q6S378|Q6S379|Q6S380|Q6S381|Q6S382|Q6S383	Silent	SNP	ENST00000322810.4	37	CCDS43772.1																																																																																				0.662	PLEC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383281.1	NM_000445		G	144997533	C	G	144997533	2	3	600	1	0	0	0	0	0	0	0	1	12059	813	29	4		4	PLEC	8	144997533	Silent	SNP	C	TCGA-GL-8500-01A-11D-2396-08	3313099	144997533	1366489	53	35973										
GRINA	2907	hgsc.bcm.edu	37	chr8	145066937	145066937	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gaagagtatgtgtttgctgcGctgaacctgtacacagacat	11	8	0	3	rs184930535		TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr8:145066937G>A	ENST00000313269.5	+	7	1322	c.1044G>A	c.(1042-1044)gcG>gcA	p.A348A	GRINA_ENST00000395068.4_Silent_p.A348A	NM_000837.1	NP_000828.1	Q7Z429	LFG1_HUMAN	glutamate receptor, ionotropic, N-methyl D-aspartate-associated protein 1 (glutamate binding)	348						integral component of membrane (GO:0016021)				central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|skin(1)|stomach(1)	9	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TGTTTGCTGCGCTGAACCTGT	0.572													G|||	1	0.000199681	0.0	0.0	5008	,	,		22289	0.0		0.001	False		,,,				2504	0.0															0													199	124	149					8																	145066937		2203	4299	6502	SO:0001819	synonymous_variant	2907			NM_001009184	CCDS34961.1	8q24.3	2010-03-18	2008-04-01						4589	protein-coding gene	gene with protein product	"transmembrane BAX inhibitor motif containing 3"	138251		NMDARA1		1719427, 8406459	Standard	XM_005250899		Approved	HNRGW, TMBIM3, LFG1	uc003zao.1	Q7Z429		ENST00000313269.5:c.1044G>A	8.37:g.145066937G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KXM7|O43836|Q8IVW7	Silent	SNP	ENST00000313269.5	37	CCDS34961.1	1|1	4.578754578754579E-4|4.578754578754579E-4	0|0	0.0|0.0	0|0	0.0|0.0	0|0	0.0|0.0	1|1	0.0013192612137203166|0.0013192612137203166	G|G	9.946|9.946	1.218930|1.218930	0.22373|0.22373	.|.	.|.	ENSG00000178719|ENSG00000178719	ENST00000533044;ENST00000527194|ENST00000534791	T;T|.	0.59083|.	0.29;0.29|.	4.75|4.75	-9.49|-9.49	0.00587|0.00587	.|.	0.125575|.	0.52532|.	D|.	0.000061|.	T|T	0.42449|0.42449	0.1203|0.1203	.|.	.|.	.|.	0.58432|0.58432	D|D	0.999996|0.999996	.|.	.|.	.|.	.|.	.|.	.|.	T|T	0.49072|0.49072	-0.8977|-0.8977	7|4	0.46703|.	T|.	0.11|.	-22.2342|-22.2342	5.2211|5.2211	0.15370|0.15370	0.3542:0.4442:0.1201:0.0815|0.3542:0.4442:0.1201:0.0815	.|.	.|.	.|.	.|.	T|H	171;161|327	ENSP00000432095:A171T;ENSP00000431217:A161T|.	ENSP00000431217:A161T|.	A|R	+|+	1|2	0|0	GRINA|GRINA	145138925|145138925	0.000000|0.000000	0.05858|0.05858	0.016000|0.016000	0.15963|0.15963	0.842000|0.842000	0.47809|0.47809	-5.389000|-5.389000	0.00126|0.00126	-2.455000|-2.455000	0.00540|0.00540	-1.354000|-1.354000	0.01226|0.01226	GCT|CGC		0.572	GRINA-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384048.1	NM_001009184		A	145066937	G	A	145066937	2	1	600	1	0	0	0	0	0	0	0	1	6792	1074	38	1		1	GRINA	8	145066937	Silent	SNP	G	TCGA-GL-8500-01A-11D-2396-08	69404	145066937	1297085	54	35974										
OR13J1	392309	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	35869823	35869823	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	aggaagtcttcgctgaccgaCgtgttgccgcatgccagctt	12	12	1	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr9:35869823C>T	ENST00000377981.2	-	1	638	c.576G>A	c.(574-576)acG>acA	p.T192T		NM_001004487.1	NP_001004487.1	Q8NGT2	O13J1_HUMAN	olfactory receptor, family 13, subfamily J, member 1	192						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			central_nervous_system(1)|large_intestine(1)|lung(3)|skin(1)	6	all_epithelial(49;0.169)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00494)|STAD - Stomach adenocarcinoma(86;0.194)			CGCTGACCGACGTGTTGCCGC	0.597																																																0													69	57	61					9																	35869823		2203	4300	6503	SO:0001819	synonymous_variant	392309				CCDS35011.1	9p13.3	2013-09-24			ENSG00000168828	ENSG00000168828		"GPCR / Class A : Olfactory receptors"	15108	protein-coding gene	gene with protein product							Standard	NM_001004487		Approved		uc011lph.2	Q8NGT2	OTTHUMG00000019879	ENST00000377981.2:c.576G>A	9.37:g.35869823C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RN66|Q6IF20|Q96R40	Silent	SNP	ENST00000377981.2	37	CCDS35011.1																																																																																				0.597	OR13J1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052381.1			T	35869823	C	T	35869823	2	4	600	1	0	0	0	0	0	0	0	1	10951	523	19	1		1	OR13J1	9	35869823	Silent	SNP	C	TCGA-GL-8500-01A-11D-2396-08		35869823	105343608	55	35975										
SECISBP2	79048	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	91965762	91965762	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	caactgtgagaagatacagtCaaaaggtaaaggcacagtgt	11	6	1	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr9:91965762C>T	ENST00000375807.3	+	14	2179	c.2108C>T	c.(2107-2109)tCa>tTa	p.S703L	SECISBP2_ENST00000534113.2_Missense_Mutation_p.S635L|SECISBP2_ENST00000339901.4_Missense_Mutation_p.S630L	NM_001282688.1|NM_001282690.1|NM_024077.3	NP_001269617.1|NP_001269619.1|NP_076982.3	Q96T21	SEBP2_HUMAN	SECIS binding protein 2	703					translation (GO:0006412)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	mRNA 3'-UTR binding (GO:0003730)|poly(A) RNA binding (GO:0044822)|ribonucleoprotein complex binding (GO:0043021)|selenocysteine insertion sequence binding (GO:0035368)			breast(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|liver(2)|lung(11)|ovary(3)|skin(2)	32						AAGATACAGTCAAAAGGTAAA	0.498																																																0													68	69	69					9																	91965762		2203	4300	6503	SO:0001583	missense	79048			AF380995	CCDS6683.1, CCDS65076.1, CCDS65077.1	9q22	2008-02-05			ENSG00000187742	ENSG00000187742			30972	protein-coding gene	gene with protein product		607693				11230166	Standard	XM_005252193		Approved		uc004aqj.1	Q96T21	OTTHUMG00000020182	ENST00000375807.3:c.2108C>T	9.37:g.91965762C>T	ENSP00000364965:p.Ser703Leu	Somatic		WXS	Illumina HiSeq	Phase_I	F8W892|Q5HYY1|Q8IYC0|Q9H0A1	Missense_Mutation	SNP	ENST00000375807.3	37	CCDS6683.1	.	.	.	.	.	.	.	.	.	.	C	22.5	4.299315	0.81136	.	.	ENSG00000187742	ENST00000375807;ENST00000395669;ENST00000339901;ENST00000534113	T;T;T	0.57273	0.41;0.41;0.41	4.84	4.84	0.62591	Ribosomal protein L7Ae/L30e/S12e/Gadd45 (1);	0.000000	0.85682	D	0.000000	T	0.69342	0.3100	L	0.52905	1.665	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.998;0.997;0.998	T	0.70695	-0.4801	10	0.59425	D	0.04	-12.0495	18.4955	0.90864	0.0:1.0:0.0:0.0	.	710;630;703	Q59H19;Q96T21-2;Q96T21	.;.;SEBP2_HUMAN	L	703;709;630;635	ENSP00000364965:S703L;ENSP00000364959:S630L;ENSP00000436650:S635L	ENSP00000364959:S630L	S	+	2	0	SECISBP2	91155582	1.000000	0.71417	0.991000	0.47740	0.546000	0.35178	7.314000	0.78988	2.686000	0.91538	0.561000	0.74099	TCA		0.498	SECISBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052990.3	NM_024077		T	91965762	C	T	91965762	3	4	600	1	0	0	0	0	1	0	0	0	14019	838	29	2	2162	2	SECISBP2	9	91965762	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	56095939	91965762	49247669	56	35976										
RAD23B	5887	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	110091836	110091836	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tcttccagttaaaggcattaGgatttcctgaaggacttgtg	10	7	1	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr9:110091836G>A	ENST00000358015.3	+	10	1480	c.1129G>A	c.(1129-1131)Gga>Aga	p.G377R	RAD23B_ENST00000416373.2_Missense_Mutation_p.G305R	NM_001244713.1|NM_002874.4	NP_001231642.1|NP_002865.1	P54727	RD23B_HUMAN	RAD23 homolog B (S. cerevisiae)	377	UBA 2. {ECO:0000255|PROSITE- ProRule:PRU00212}.				DNA repair (GO:0006281)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair, DNA damage recognition (GO:0000715)|nucleotide-excision repair, DNA damage removal (GO:0000718)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032434)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|proteasome complex (GO:0000502)|XPC complex (GO:0071942)	damaged DNA binding (GO:0003684)|polyubiquitin binding (GO:0031593)|single-stranded DNA binding (GO:0003697)			breast(3)|cervix(1)|endometrium(1)|large_intestine(3)|lung(2)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	14						AAAGGCATTAGGATTTCCTGA	0.328								Direct reversal of damage;Nucleotide excision repair (NER)																																								0													71	73	72					9																	110091836		2203	4300	6503	SO:0001583	missense	5887				CCDS6769.1, CCDS59138.1	9q31.2	2008-07-21	2001-11-28		ENSG00000119318	ENSG00000119318			9813	protein-coding gene	gene with protein product	"XP-C repair complementing protein", "XP-C repair complementing complex 58 kDa"	600062	"RAD23 (S. cerevisiae) homolog B"			7851894, 8168482	Standard	NM_002874		Approved	HHR23B, P58, HR23B	uc004bde.3	P54727	OTTHUMG00000020446	ENST00000358015.3:c.1129G>A	9.37:g.110091836G>A	ENSP00000350708:p.Gly377Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWK8|G5E9P0|Q7Z5K8|Q8WUB0	Missense_Mutation	SNP	ENST00000358015.3	37	CCDS6769.1	.	.	.	.	.	.	.	.	.	.	G	21.0	4.086513	0.76642	.	.	ENSG00000119318	ENST00000358015;ENST00000416373	D;D	0.93019	-3.15;-3.15	5.27	5.27	0.74061	Ubiquitin-associated/translation elongation factor EF1B, N-terminal, eukaryote (2);Ubiquitin-associated/translation elongation factor EF1B, N-terminal (1);UBA-like (1);	0.000000	0.85682	D	0.000000	D	0.97804	0.9279	H	0.94503	3.545	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.994	D	0.98693	1.0697	10	0.87932	D	0	-3.6232	19.2454	0.93901	0.0:0.0:1.0:0.0	.	356;377	B7Z4W4;P54727	.;RD23B_HUMAN	R	377;305	ENSP00000350708:G377R;ENSP00000405623:G305R	ENSP00000350708:G377R	G	+	1	0	RAD23B	109131657	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.439000	0.97543	2.623000	0.88846	0.563000	0.77884	GGA		0.328	RAD23B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053548.1	NM_002874		A	110091836	G	A	110091836	3	1	600	1	0	0	0	0	1	0	0	0	12996	1001	35	2	1167	2	RAD23B	9	110091836	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08	18126074	110091836	31121595	57	35977										
RABGAP1	23637	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	125751642	125751642	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tacaaaatcctcttctgtgtCagagggcatgatggaactcc	9	10	3	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr9:125751642C>T	ENST00000373647.4	+	5	791	c.657C>T	c.(655-657)gtC>gtT	p.V219V		NM_012197.3	NP_036329.3	Q9Y3P9	RBGP1_HUMAN	RAB GTPase activating protein 1	219	PID. {ECO:0000255|PROSITE- ProRule:PRU00148}.				cell cycle (GO:0007049)|positive regulation of GTPase activity (GO:0043547)|regulation of GTP catabolic process (GO:0033124)	centrosome (GO:0005813)|cytosol (GO:0005829)|microtubule associated complex (GO:0005875)	DNA binding (GO:0003677)|GTPase activator activity (GO:0005096)|Rab GTPase activator activity (GO:0005097)|Rab GTPase binding (GO:0017137)|tubulin binding (GO:0015631)			breast(3)|endometrium(3)|kidney(5)|large_intestine(8)|lung(11)|ovary(3)|prostate(4)|stomach(3)|upper_aerodigestive_tract(1)	41						TCTTCTGTGTCAGAGGGCATG	0.413																																																0													117	115	116					9																	125751642		2203	4300	6503	SO:0001819	synonymous_variant	23637			AJ011679	CCDS6848.2	9q34.11	2013-07-09			ENSG00000011454	ENSG00000011454			17155	protein-coding gene	gene with protein product	"rab6 GTPase activating protein (GAP and centrosome-associated)", "TBC1 domain family, member 11"	615882				10202141	Standard	NM_012197		Approved	GAPCenA, TBC1D11	uc011lzh.2	Q9Y3P9	OTTHUMG00000020633	ENST00000373647.4:c.657C>T	9.37:g.125751642C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B9A6L2|Q05CW2|Q6ZMY1|Q9HA28|Q9P0E2|Q9UG67	Silent	SNP	ENST00000373647.4	37	CCDS6848.2																																																																																				0.413	RABGAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053976.3	NM_012197		T	125751642	C	T	125751642	2	4	600	1	0	0	0	0	0	0	0	1	12977	813	29	2		2	RABGAP1	9	125751642	Silent	SNP	C	TCGA-GL-8500-01A-11D-2396-08	15659806	125751642	15461789	58	35978										
MLLT10	8028	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	22022934	22022934	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	accaactggcaattaatggcAttgtaggagctttaaatggg	11	6	0	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr10:22022934A>T	ENST00000307729.7	+	20	2912	c.2734A>T	c.(2734-2736)Att>Ttt	p.I912F	MLLT10_ENST00000377059.3_Missense_Mutation_p.I912F|MLLT10_ENST00000377072.3_Missense_Mutation_p.I928F|MLLT10_ENST00000446906.2_Missense_Mutation_p.I912F			P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 10	912					positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			NS(1)|large_intestine(2)|lung(1)|skin(1)|upper_aerodigestive_tract(1)	6						AATTAATGGCATTGTAGGAGC	0.498			T	"MLL, PICALM, CDK6"	AL																																		Dom	yes		10	10p12	8028	"myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 10 (AF10)"		L	0													105	92	96					10																	22022934		2203	4300	6503	SO:0001583	missense	8028			U13948	CCDS7135.1, CCDS55706.1, CCDS55707.1, CCDS55708.1	10p12	2013-01-28	2001-11-28		ENSG00000078403	ENSG00000078403		"Zinc fingers, PHD-type"	16063	protein-coding gene	gene with protein product		602409	"myeloid/lymphoid or mixed-lineage leukemia (trithorax (Drosophila) homolog); translocated to, 10"			7888665	Standard	NM_004641		Approved	AF10	uc021pny.1	P55197	OTTHUMG00000017799	ENST00000307729.7:c.2734A>T	10.37:g.22022934A>T	ENSP00000307411:p.Ile912Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B1ANA8|Q5JT37|Q5VX90|Q66K63	Missense_Mutation	SNP	ENST00000307729.7	37	CCDS55708.1	.	.	.	.	.	.	.	.	.	.	A	17.10	3.302680	0.60195	.	.	ENSG00000078403	ENST00000377072;ENST00000446906;ENST00000307729;ENST00000396529;ENST00000377059	T;T;T;T	0.19938	2.21;2.22;2.11;2.22	4.55	4.55	0.56014	.	0.178156	0.48767	D	0.000174	T	0.33731	0.0873	L	0.55481	1.735	0.58432	D	0.999998	D;P;D;P	0.65815	0.96;0.745;0.995;0.883	P;B;P;B	0.56163	0.59;0.169;0.793;0.231	T	0.06954	-1.0798	10	0.56958	D	0.05	.	12.4706	0.55785	1.0:0.0:0.0:0.0	.	607;912;912;928	Q5HYC6;E9PBP4;Q5VX90;P55197	.;.;.;AF10_HUMAN	F	928;912;912;747;912	ENSP00000366272:I928F;ENSP00000401406:I912F;ENSP00000307411:I912F;ENSP00000366258:I912F	ENSP00000307411:I912F	I	+	1	0	MLLT10	22062940	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.644000	0.67902	1.686000	0.51046	0.455000	0.32223	ATT		0.498	MLLT10-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000047136.1			T	22022934	A	T	22022934	3	4	600	1	0	0	0	0	1	0	0	0	9633	217	8	5	2860	5	MLLT10	10	22022934	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08		22022934	113511813	59	35979										
ANXA11	311	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	81927005	81927005	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	agcctttcatggccttccgcAggacctcggcatctcgcagg	11	15	2	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr10:81927005A>C	ENST00000438331.1	-	7	1108	c.626T>G	c.(625-627)cTg>cGg	p.L209R	ANXA11_ENST00000537102.1_Missense_Mutation_p.L176R|ANXA11_ENST00000360615.4_Missense_Mutation_p.L209R|ANXA11_ENST00000535999.1_Missense_Mutation_p.L209R|ANXA11_ENST00000372231.3_Missense_Mutation_p.L209R|ANXA11_ENST00000265447.4_Missense_Mutation_p.L209R|ANXA11_ENST00000422982.3_Missense_Mutation_p.L209R	NM_145869.1	NP_665876.1	P50995	ANX11_HUMAN	annexin A11	209					cytokinesis, completion of separation (GO:0007109)|phagocytosis (GO:0006909)|response to calcium ion (GO:0051592)	azurophil granule (GO:0042582)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|midbody (GO:0030496)|nuclear envelope (GO:0005635)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|phagocytic vesicle (GO:0045335)|specific granule (GO:0042581)|spindle (GO:0005819)	calcium ion binding (GO:0005509)|calcium-dependent phospholipid binding (GO:0005544)|calcium-dependent protein binding (GO:0048306)|MHC class II protein complex binding (GO:0023026)|phosphatidylethanolamine binding (GO:0008429)|poly(A) RNA binding (GO:0044822)|S100 protein binding (GO:0044548)			endometrium(1)|large_intestine(5)|lung(6)|ovary(2)|prostate(2)|urinary_tract(1)	17	Prostate(51;0.00985)|all_epithelial(25;0.0951)		Colorectal(32;0.109)			GGCCTTCCGCAGGACCTCGGC	0.577																																																0													66	61	63					10																	81927005		2203	4300	6503	SO:0001583	missense	311			L19605	CCDS7364.1, CCDS60576.1	10q22.3	2005-11-09			ENSG00000122359	ENSG00000122359		"Annexins"	535	protein-coding gene	gene with protein product		602572		ANX11		7508441, 9503022	Standard	NM_001157		Approved		uc001kbt.1	P50995	OTTHUMG00000018604	ENST00000438331.1:c.626T>G	10.37:g.81927005A>C	ENSP00000398610:p.Leu209Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DVE7	Missense_Mutation	SNP	ENST00000438331.1	37	CCDS7364.1	.	.	.	.	.	.	.	.	.	.	.	26.1	4.707456	0.89018	.	.	ENSG00000122359	ENST00000372231;ENST00000422982;ENST00000438331;ENST00000372234;ENST00000360615;ENST00000265447;ENST00000535999;ENST00000424188;ENST00000537102	T;T;T;T;T;T;T	0.18338	2.22;2.22;2.22;2.22;2.22;2.22;2.22	5.31	5.31	0.75309	.	0.000000	0.64402	D	0.000001	T	0.61924	0.2386	H	0.99498	4.595	0.58432	D	0.999999	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.998;0.995;0.995	T	0.78922	-0.2013	10	0.87932	D	0	.	13.5153	0.61537	1.0:0.0:0.0:0.0	.	309;209;209	B7Z6L0;Q5T0G8;P50995	.;.;ANX11_HUMAN	R	209;209;209;209;209;209;209;116;176	ENSP00000361305:L209R;ENSP00000404412:L209R;ENSP00000398610:L209R;ENSP00000353827:L209R;ENSP00000265447:L209R;ENSP00000441748:L209R;ENSP00000441400:L176R	ENSP00000265447:L209R	L	-	2	0	ANXA11	81916985	1.000000	0.71417	1.000000	0.80357	0.892000	0.51952	8.792000	0.91856	2.151000	0.67156	0.459000	0.35465	CTG		0.577	ANXA11-003	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049044.1	NM_145869		C	81927005	A	C	81927005	3	2	600	1	0	0	0	0	1	0	0	0	716	188	7	5	935	5	ANXA11	10	81927005	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	59904071	81927005	53607742	60	35980										
PSTK	118672	hgsc.bcm.edu;broad.mit.edu	37	chr10	124740205	124740205	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ctcgccggggcaagagcgcgAccggcggtcagcacggaggg	19	13	1	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr10:124740205A>G	ENST00000368887.3	+	1	650	c.210A>G	c.(208-210)cgA>cgG	p.R70R	PSTK_ENST00000405485.1_Silent_p.R70R	NM_153336.2	NP_699167.2	Q8IV42	PSTK_HUMAN	phosphoseryl-tRNA kinase	70					selenocysteine incorporation (GO:0001514)|selenocysteinyl-tRNA(Sec) biosynthetic process (GO:0097056)	mitochondrion (GO:0005739)	ATP binding (GO:0005524)|kinase activity (GO:0016301)|tRNA binding (GO:0000049)			endometrium(1)|kidney(1)|large_intestine(2)|liver(1)|lung(5)|skin(1)|stomach(2)	13		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0725)		CAAGAGCGCGACCGGCGGTCA	0.756											OREG0020597	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													8	7	8					10																	124740205		1998	3971	5969	SO:0001819	synonymous_variant	118672			AK127173	CCDS7633.1	10q26.13	2007-04-17	2007-04-17	2007-04-17	ENSG00000179988	ENSG00000179988			28578	protein-coding gene	gene with protein product		611310	"chromosome 10 open reading frame 89"	C10orf89		15317934	Standard	NM_153336		Approved	MGC35392	uc001lgy.1	Q8IV42	OTTHUMG00000019191	ENST00000368887.3:c.210A>G	10.37:g.124740205A>G		Somatic	1536	WXS	Illumina HiSeq	Phase_I	Q6ZSS9	Silent	SNP	ENST00000368887.3	37	CCDS7633.1	.	.	.	.	.	.	.	.	.	.	A	9.597	1.127752	0.20959	.	.	ENSG00000179988	ENST00000406217	.	.	.	4.31	-1.6	0.08426	.	.	.	.	.	T	0.18800	0.0451	.	.	.	0.19300	N	0.999975	.	.	.	.	.	.	T	0.24261	-1.0165	4	.	.	.	0.6253	1.3993	0.02267	0.2116:0.3347:0.3029:0.1508	.	.	.	.	G	71	.	.	D	+	2	0	PSTK	124730195	0.000000	0.05858	0.001000	0.08648	0.002000	0.02628	-0.142000	0.10311	-0.157000	0.11059	-0.242000	0.12053	GAC		0.756	PSTK-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000050811.1	NM_153336		G	124740205	A	G	124740205	2	3	600	1	0	0	0	0	0	0	0	1	12730	262	10	3		3	PSTK	10	124740205	Silent	SNP	A	TCGA-GL-8500-01A-11D-2396-08	42813200	124740205	10794542	61	35981										
MUC5B	727897	hgsc.bcm.edu	37	chr11	1253368	1253368	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	aggaacagctttgaggacccCtgctccctcagtgtggagaa	12	11	1	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr11:1253368C>A	ENST00000529681.1	+	15	1879	c.1821C>A	c.(1819-1821)ccC>ccA	p.P607P	MUC5B_ENST00000447027.1_Silent_p.P610P	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	607	VWFD 2. {ECO:0000255|PROSITE- ProRule:PRU00580}.				cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		TTGAGGACCCCTGCTCCCTCA	0.682																																																0													48	57	54					11																	1253368		2100	4195	6295	SO:0001819	synonymous_variant	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.1821C>A	11.37:g.1253368C>A		Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Silent	SNP	ENST00000529681.1	37	CCDS44515.2																																																																																				0.682	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		A	1253368	C	A	1253368	2	1	600	1	0	0	0	0	0	0	0	1	9986	668	24	4		4	MUC5B	11	1253368	Silent	SNP	C	TCGA-GL-8500-01A-11D-2396-08		1253368	133753148	62	35982										
INCENP	3619	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	61912744	61912744	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	agcagaagtttgctcagatcGacgagaagactgagaaggtg	14	6	1	5			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr11:61912744G>A	ENST00000394818.3	+	13	2021	c.1819G>A	c.(1819-1821)Gac>Aac	p.D607N	INCENP_ENST00000278849.4_Missense_Mutation_p.D603N	NM_001040694.1	NP_001035784.1	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	607					chromosome segregation (GO:0007059)|cytokinesis (GO:0000910)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	central element (GO:0000801)|chromocenter (GO:0010369)|chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|kinetochore (GO:0000776)|lateral element (GO:0000800)|microtubule (GO:0005874)|midbody (GO:0030496)|pericentric heterochromatin (GO:0005721)|protein complex (GO:0043234)|spindle (GO:0005819)				breast(1)|endometrium(1)|kidney(6)|large_intestine(2)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	19						TGCTCAGATCGACGAGAAGAC	0.582																																																0													103	107	105					11																	61912744		2202	4299	6501	SO:0001583	missense	3619			AF282265	CCDS31582.1, CCDS44624.1	11q12.3	2013-01-17	2002-08-29		ENSG00000149503	ENSG00000149503			6058	protein-coding gene	gene with protein product		604411	"inner centromere protein antigens (135kD, 155kD)"			1860899, 11453556	Standard	NM_001040694		Approved	FLJ31633	uc001nsw.1	Q9NQS7	OTTHUMG00000167470	ENST00000394818.3:c.1819G>A	11.37:g.61912744G>A	ENSP00000378295:p.Asp607Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8MQD2|Q5Y192	Missense_Mutation	SNP	ENST00000394818.3	37	CCDS44624.1	.	.	.	.	.	.	.	.	.	.	G	16.50	3.141344	0.57044	.	.	ENSG00000149503	ENST00000394818;ENST00000278849	T;T	0.16457	2.36;2.34	4.7	3.78	0.43462	.	0.232274	0.29916	N	0.010874	T	0.12433	0.0302	L	0.46157	1.445	0.38861	D	0.956484	B;P;B	0.36249	0.436;0.545;0.41	B;B;B	0.23716	0.027;0.048;0.022	T	0.07404	-1.0774	10	0.42905	T	0.14	.	10.2229	0.43207	0.098:0.0:0.902:0.0	.	603;603;607	B3KPD3;Q9NQS7-2;Q9NQS7	.;.;INCE_HUMAN	N	607;603	ENSP00000378295:D607N;ENSP00000278849:D603N	ENSP00000278849:D603N	D	+	1	0	INCENP	61669320	1.000000	0.71417	0.303000	0.25071	0.969000	0.65631	5.818000	0.69236	2.522000	0.85027	0.561000	0.74099	GAC		0.582	INCENP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000394723.2	NM_020238		A	61912744	G	A	61912744	3	1	600	1	0	0	0	0	1	0	0	0	7740	1058	37	1	1865	1	INCENP	11	61912744	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08	60659376	61912744	73093772	63	35983										
DKFZp761E198	91056	hgsc.bcm.edu	37	chr11	65547487	65547487	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	cccagcagcccgggcttgcaGctctctagctctcgcaggca	11	17	2	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr11:65547487G>A	ENST00000532090.2	-	2	687	c.477C>T	c.(475-477)agC>agT	p.S159S		NM_138368.4	NP_612377.4	Q2VPB7	AP5B1_HUMAN	adaptor-related protein complex 5, beta 1 subunit	159	Leu-rich.				endosomal transport (GO:0016197)|protein transport (GO:0015031)	AP-type membrane coat adaptor complex (GO:0030119)|lysosomal membrane (GO:0005765)				lung(1)	1						CGGGCTTGCAGCTCTCTAGCT	0.716																																																0													3	5	4					11																	65547487		1695	3877	5572	SO:0001819	synonymous_variant	91056			JQ313135	CCDS58146.1	11q13.1	2012-02-29			ENSG00000254470	ENSG00000254470			25104	protein-coding gene	gene with protein product		614367				22022230	Standard	NM_138368		Approved	PP1030, AP-5, DKFZp761E198	uc031qbm.1	Q2VPB7	OTTHUMG00000166593	ENST00000532090.2:c.477C>T	11.37:g.65547487G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A1L0S6|H6WUK2|Q0D2Q2|Q8N3J7|Q8WYH6	Silent	SNP	ENST00000532090.2	37	CCDS58146.1																																																																																				0.716	AP5B1-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390636.2	NM_138368		A	65547487	G	A	65547487	2	1	600	1	0	0	0	0	0	0	0	1	4545	962	34	2		2	DKFZp761E198	11	65547487	Silent	SNP	G	TCGA-GL-8500-01A-11D-2396-08	3634743	65547487	69459029	64	35984										
EED	8726	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	85956385	85956385	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gacctctctggagacgagaaTgtaagtgcagcttctggcag	13	9	2	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr11:85956385T>A	ENST00000263360.6	+	1	800	c.114T>A	c.(112-114)aaT>aaA	p.N38K	EED_ENST00000528180.1_Splice_Site_p.N38K|EED_ENST00000327320.4_Splice_Site_p.N38K|EED_ENST00000351625.6_Splice_Site_p.N38K	NM_003797.3	NP_003788.2	O75530	EED_HUMAN	embryonic ectoderm development	38					negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of histone H3-K27 methylation (GO:0061087)|regulation of gene expression by genetic imprinting (GO:0006349)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|ESC/E(Z) complex (GO:0035098)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|pronucleus (GO:0045120)|sex chromatin (GO:0001739)	chromatin binding (GO:0003682)|histone methyltransferase activity (GO:0042054)|identical protein binding (GO:0042802)			haematopoietic_and_lymphoid_tissue(4)|kidney(2)|large_intestine(2)|lung(7)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|stomach(1)	21		Acute lymphoblastic leukemia(157;7.24e-07)|all_hematologic(158;0.00092)				GAGACGAGAATGTAAGTGCAG	0.572																																																0													52	42	46					11																	85956385		2203	4299	6502	SO:0001630	splice_region_variant	8726			AF078933	CCDS8273.1, CCDS8274.1	11q14.2-q22.3	2013-01-10			ENSG00000074266	ENSG00000074266		"WD repeat domain containing"	3188	protein-coding gene	gene with protein product	"WD protein associating with integrin cytoplasmic tails 1"	605984				9765275, 9806832	Standard	NM_003797		Approved	WAIT-1, HEED	uc001pbp.3	O75530	OTTHUMG00000167209	ENST00000263360.6:c.114+1T>A	11.37:g.85956385T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7V5|O00149|Q6NTH2|Q7LDA5|Q7LDG8|Q86VV2|Q9UNY7	Missense_Mutation	SNP	ENST00000263360.6	37	CCDS8273.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	15.68|15.68	2.906014|2.906014	0.52333|0.52333	.|.	.|.	ENSG00000074266|ENSG00000074266	ENST00000534595|ENST00000263360;ENST00000528180;ENST00000351625;ENST00000327320;ENST00000537092	.|T;T;T;T	.|0.79653	.|-0.79;-1.29;-0.71;-0.72	4.73|4.73	2.47|2.47	0.30058|0.30058	.|.	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.80347|0.80347	0.4606|0.4606	L|L	0.36672|0.36672	1.1|1.1	0.80722|0.80722	D|D	1|1	.|B;D;B;B	.|0.57899	.|0.144;0.981;0.022;0.183	.|B;D;B;B	.|0.67900	.|0.055;0.954;0.008;0.028	T|T	0.76203|0.76203	-0.3045|-0.3045	5|9	.|.	.|.	.|.	-22.0933|-22.0933	6.2948|6.2948	0.21079|0.21079	0.0:0.3337:0.0:0.6663|0.0:0.3337:0.0:0.6663	.|.	.|38;38;38;38	.|O75530-3;E9PJK2;O75530-2;O75530	.|.;.;.;EED_HUMAN	N|K	37|38	.|ENSP00000263360:N38K;ENSP00000431778:N38K;ENSP00000338186:N38K;ENSP00000315587:N38K	.|.	I|N	+|+	2|3	0|2	EED|EED	85634033|85634033	0.966000|0.966000	0.33281|0.33281	1.000000|1.000000	0.80357|0.80357	0.966000|0.966000	0.64601|0.64601	0.057000|0.057000	0.14279|0.14279	0.949000|0.949000	0.37715|0.37715	0.533000|0.533000	0.62120|0.62120	ATT|AAT		0.572	EED-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393733.1	NM_003797	Missense_Mutation	A	85956385	T	A	85956385	5	1	600	1	0	0	0	0	0	0	1	0	4924	1478	51	5	116	5	EED	11	85956385	Splice_Site	SNP	T	TCGA-GL-8500-01A-11D-2396-08	20408898	85956385	49050131	65	35985										
SLC35F2	54733	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	107677532	107677532	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ccacggcgatgaagtggatcActctgtatcttgcatgaaga	11	9	3	3			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr11:107677532A>C	ENST00000525815.1	-	4	905	c.485T>G	c.(484-486)gTg>gGg	p.V162G	SLC35F2_ENST00000429869.1_Missense_Mutation_p.V162G|SLC35F2_ENST00000375682.4_Missense_Mutation_p.V115G|SLC35F2_ENST00000265836.7_Missense_Mutation_p.V14G|SLC35F2_ENST00000525071.1_Missense_Mutation_p.V162G	NM_017515.4	NP_059985.2	Q8IXU6	S35F2_HUMAN	solute carrier family 35, member F2	162					transport (GO:0006810)	integral component of membrane (GO:0016021)				breast(1)|central_nervous_system(1)|endometrium(1)|lung(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	8		all_cancers(61;9.46e-06)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;0.000111)|all_hematologic(158;0.000315)|all_epithelial(67;0.00197)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)|Epithelial(105;0.000105)|all cancers(92;0.00217)		GAAGTGGATCACTCTGTATCT	0.463																																																0													137	136	136					11																	107677532		1983	4179	6162	SO:0001583	missense	54733				CCDS41709.1	11q22.3	2013-05-22			ENSG00000110660	ENSG00000110660		"Solute carriers"	23615	protein-coding gene	gene with protein product						9119394	Standard	NM_017515		Approved	FLJ13018	uc001pjq.3	Q8IXU6	OTTHUMG00000166366	ENST00000525815.1:c.485T>G	11.37:g.107677532A>C	ENSP00000436785:p.Val162Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q14963|Q5JPA8|Q6ZRQ3|Q9H947	Missense_Mutation	SNP	ENST00000525815.1	37	CCDS41709.1	.	.	.	.	.	.	.	.	.	.	A	16.47	3.133031	0.56828	.	.	ENSG00000110660	ENST00000525815;ENST00000525071;ENST00000265836;ENST00000375682;ENST00000429869	T;T;T;T	0.70986	-0.53;-0.53;-0.53;-0.53	4.86	4.86	0.63082	.	0.341161	0.28140	N	0.016457	T	0.72211	0.3432	L	0.53249	1.67	0.50467	D	0.999875	P;P	0.42296	0.605;0.775	B;P	0.46208	0.405;0.507	T	0.75836	-0.3177	10	0.66056	D	0.02	.	14.4886	0.67634	1.0:0.0:0.0:0.0	.	162;162	E9PJD1;Q8IXU6	.;S35F2_HUMAN	G	162;162;14;115;162	ENSP00000436785:V162G;ENSP00000434307:V162G;ENSP00000364834:V115G;ENSP00000393571:V162G	ENSP00000265836:V14G	V	-	2	0	SLC35F2	107182742	1.000000	0.71417	1.000000	0.80357	0.534000	0.34807	3.837000	0.55820	1.824000	0.53156	0.533000	0.62120	GTG		0.463	SLC35F2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389417.1	NM_017515		C	107677532	A	C	107677532	3	2	600	1	0	0	0	0	1	0	0	0	14602	159	6	5	659	5	SLC35F2	11	107677532	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	21721147	107677532	27328984	66	35986										
SIDT2	51092	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	117058116	117058118	+	In_Frame_Del	DEL	TTC	TTC	-													0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	caccctcgagtcctggctgaTtcttttcctggcagttcccc							TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	TTC	TTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr11:117058116_117058118delTTC	ENST00000324225.4	+	11	1569_1571	c.1038_1040delTTC	c.(1036-1041)gattct>gat	p.S347del	SIDT2_ENST00000431081.2_In_Frame_Del_p.S351del	NM_001040455.1	NP_001035545.1	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2	347					cell morphogenesis (GO:0000902)|dsRNA transport (GO:0033227)|glucose homeostasis (GO:0042593)|regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0061178)|response to glucose (GO:0009749)|type B pancreatic cell development (GO:0003323)|type B pancreatic cell proliferation (GO:0044342)	integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)	RNA transmembrane transporter activity (GO:0051033)			NS(1)|breast(2)|endometrium(4)|kidney(1)|large_intestine(9)|lung(11)|ovary(1)|prostate(4)|skin(1)|upper_aerodigestive_tract(2)	36	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		TCCTGGCTGATTCTTTTCCTGGC	0.517																																																0																																										SO:0001651	inframe_deletion	51092			AF151799	CCDS31682.1	11q23.3	2008-02-05			ENSG00000149577	ENSG00000149577			24272	protein-coding gene	gene with protein product						10810093, 12975309	Standard	NM_001040455		Approved	CGI-40	uc001pqh.1	Q8NBJ9	OTTHUMG00000167065	ENST00000324225.4:c.1038_1040delTTC	11.37:g.117058116_117058118delTTC	ENSP00000314023:p.Ser347del	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NBY7|Q9Y357	In_Frame_Del	DEL	ENST00000324225.4	37	CCDS31682.1																																																																																				0.517	SIDT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392836.1	NM_015996		-	117058118	TTC	-	117058116	7	5	600	1	0	1	0	1	0	0	0	0	14316	1490	52	0	1080	0	SIDT2	11	117058116	In_Frame_Del	DEL	TTC	TCGA-GL-8500-01A-11D-2396-08	9380584	117058116	17948400	67	35987										
SLC6A12	6539	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	308019	308019	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gtagtagatgatgccctggtAggctccgggaagggtgacac	16	8	0	3			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr12:308019A>T	ENST00000428720.1	-	8	1533	c.790T>A	c.(790-792)Tac>Aac	p.Y264N	SLC6A12_ENST00000424061.2_Missense_Mutation_p.Y264N|SLC6A12_ENST00000359674.4_Missense_Mutation_p.Y264N|SLC6A12_ENST00000538272.1_5'UTR|SLC6A12_ENST00000397296.2_Missense_Mutation_p.Y264N|SLC6A12_ENST00000536824.1_Missense_Mutation_p.Y264N	NM_001122848.2	NP_001116320.1	P48065	S6A12_HUMAN	solute carrier family 6 (neurotransmitter transporter), member 12	264					amino acid transport (GO:0006865)|cellular hyperosmotic response (GO:0071474)|cellular water homeostasis (GO:0009992)|ion transport (GO:0006811)|neurotransmitter secretion (GO:0007269)|response to organic substance (GO:0010033)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	gamma-aminobutyric acid:sodium symporter activity (GO:0005332)|neurotransmitter:sodium symporter activity (GO:0005328)			central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(6)|lung(8)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)	26	all_cancers(10;0.0172)|all_epithelial(11;0.0283)|all_lung(10;0.0392)|Lung NSC(10;0.0567)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00227)			ATGCCCTGGTAGGCTCCGGGA	0.562																																																0													143	119	127					12																	308019		2203	4300	6503	SO:0001583	missense	6539			L42300	CCDS8501.1	12p13	2013-07-19	2013-07-19		ENSG00000111181	ENSG00000111181		"Solute carriers"	11045	protein-coding gene	gene with protein product	"betaine/GABA transporter-1"	603080	"solute carrier family 6 (neurotransmitter transporter, betaine/GABA), member 12"			7589472	Standard	NM_003044		Approved	BGT-1	uc009zdh.2	P48065	OTTHUMG00000090309	ENST00000428720.1:c.790T>A	12.37:g.308019A>T	ENSP00000388184:p.Tyr264Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV52|B2R992|D3DUN8	Missense_Mutation	SNP	ENST00000428720.1	37	CCDS8501.1	.	.	.	.	.	.	.	.	.	.	A	8.181	0.793882	0.16327	.	.	ENSG00000111181	ENST00000359674;ENST00000397296;ENST00000428720;ENST00000424061;ENST00000536824	T;T;T;T;T	0.74315	-0.83;-0.83;-0.83;-0.83;-0.83	4.44	3.19	0.36642	.	0.450623	0.22962	N	0.053522	T	0.74245	0.3691	L	0.52905	1.665	0.09310	N	1	P	0.34800	0.469	P	0.48901	0.594	T	0.62163	-0.6912	10	0.28530	T	0.3	.	6.6378	0.22893	0.6374:0.2349:0.0:0.1277	.	264	P48065	S6A12_HUMAN	N	264	ENSP00000352702:Y264N;ENSP00000380464:Y264N;ENSP00000388184:Y264N;ENSP00000399136:Y264N;ENSP00000444268:Y264N	ENSP00000352702:Y264N	Y	-	1	0	SLC6A12	178280	0.021000	0.18746	0.919000	0.36401	0.166000	0.22503	0.594000	0.24014	1.762000	0.52044	0.533000	0.62120	TAC		0.562	SLC6A12-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206671.2	NM_003044		T	308019	A	T	308019	3	4	600	1	0	0	0	0	1	0	0	0	14688	420	15	5	1090	5	SLC6A12	12	308019	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08		308019	133543876	68	35988										
KDM5A	5927	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	401948	401948	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gtccttgcagggcctttggcAgttctgtgctgcgcacacag	13	12	1	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr12:401948A>G	ENST00000399788.2	-	27	5205	c.4843T>C	c.(4843-4845)Tgc>Cgc	p.C1615R	KDM5A_ENST00000540838.1_5'UTR|KDM5A_ENST00000382815.4_Missense_Mutation_p.C1615R	NM_001042603.1	NP_001036068.1	P29375	KDM5A_HUMAN	lysine (K)-specific demethylase 5A	1615					chromatin modification (GO:0016568)|circadian regulation of gene expression (GO:0032922)|multicellular organismal development (GO:0007275)|negative regulation of histone deacetylase activity (GO:1901726)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)			NS(2)|breast(4)|central_nervous_system(2)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(14)|lung(29)|ovary(1)|prostate(5)|skin(6)|stomach(1)|urinary_tract(2)	77						GGCCTTTGGCAGTTCTGTGCT	0.468			T	NUP98	AML																																		Dom	yes		12	12p11	5927	"lysine (K)-specific demethylase 5A, JARID1A"		L	0													118	119	119					12																	401948		2033	4195	6228	SO:0001583	missense	5927				CCDS41736.1	12p13.33	2013-01-28	2009-04-06	2009-04-06	ENSG00000073614	ENSG00000073614		"Chromatin-modifying enzymes / K-demethylases", "Zinc fingers, PHD-type"	9886	protein-coding gene	gene with protein product		180202	"retinoblastoma-binding protein 2", "Jumonji, AT rich interactive domain 1A (RBBP2-like)", "jumonji, AT rich interactive domain 1A"	RBBP2, JARID1A		1857421	Standard	NM_001042603		Approved		uc001qif.1	P29375	OTTHUMG00000168055	ENST00000399788.2:c.4843T>C	12.37:g.401948A>G	ENSP00000382688:p.Cys1615Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8MV76|Q4LE72|Q86XZ1	Missense_Mutation	SNP	ENST00000399788.2	37	CCDS41736.1	.	.	.	.	.	.	.	.	.	.	A	21.9	4.219116	0.79464	.	.	ENSG00000073614	ENST00000399788;ENST00000382815	D;D	0.99667	-6.34;-3.28	5.48	5.48	0.80851	Zinc finger, PHD-finger (1);Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, PHD-type (1);Zinc finger, FYVE/PHD-type (1);	0.150326	0.64402	D	0.000005	D	0.99354	0.9773	L	0.59436	1.845	0.80722	D	1	D;D	0.64830	0.99;0.994	P;P	0.60682	0.758;0.878	D	0.98834	1.0752	10	0.87932	D	0	-9.1245	15.575	0.76368	1.0:0.0:0.0:0.0	.	1615;1615	P29375;P29375-2	KDM5A_HUMAN;.	R	1615	ENSP00000382688:C1615R;ENSP00000372265:C1615R	ENSP00000372265:C1615R	C	-	1	0	KDM5A	272209	1.000000	0.71417	1.000000	0.80357	0.974000	0.67602	9.313000	0.96297	2.080000	0.62538	0.528000	0.53228	TGC		0.468	KDM5A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397812.1	NM_005056		G	401948	A	G	401948	3	3	600	1	0	0	0	0	1	0	0	0	8140	188	7	3	237	3	KDM5A	12	401948	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	93929	401948	133449947	69	35989										
C12orf5	57103	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	4461705	4461705	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	agtgttccttaccagccactCtgagcagatctgaacttatg	8	11	2	3			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr12:4461705C>G	ENST00000179259.4	+	6	728	c.661C>G	c.(661-663)Ctg>Gtg	p.L221V		NM_020375.2	NP_065108.1	Q9NQ88	TIGAR_HUMAN	chromosome 12 open reading frame 5	221					intestinal epithelial cell development (GO:0060576)|negative regulation of macromitophagy (GO:1901525)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|response to gamma radiation (GO:0010332)|response to xenobiotic stimulus (GO:0009410)	intracellular (GO:0005622)	fructose-2,6-bisphosphate 2-phosphatase activity (GO:0004331)			endometrium(1)|large_intestine(1)|lung(5)|skin(3)	10			all cancers(3;1.15e-07)|Colorectal(7;0.00165)|OV - Ovarian serous cystadenocarcinoma(31;0.00596)|COAD - Colon adenocarcinoma(12;0.0229)|GBM - Glioblastoma multiforme(3;0.0266)|STAD - Stomach adenocarcinoma(119;0.206)			ACCAGCCACTCTGAGCAGATC	0.423																																					Colon(1;100 192 35375 49454 52532)											0													100	89	93					12																	4461705		2203	4300	6503	SO:0001583	missense	57103			AJ272206	CCDS8525.1	12p13.32	2014-05-29	2009-11-24	2009-11-24	ENSG00000078237	ENSG00000078237	3.1.3.46		1185	protein-coding gene	gene with protein product	"TP53-induced glycolysis and apoptosis regulator"	610775				16140933, 16839880, 18945750, 19713938	Standard	NM_020375		Approved	TIGAR	uc001qmp.3	Q9NQ88		ENST00000179259.4:c.661C>G	12.37:g.4461705C>G	ENSP00000179259:p.Leu221Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R840	Missense_Mutation	SNP	ENST00000179259.4	37	CCDS8525.1	.	.	.	.	.	.	.	.	.	.	C	3.030	-0.199744	0.06219	.	.	ENSG00000078237	ENST00000179259	T	0.80738	-1.41	5.86	-2.23	0.06930	.	0.842330	0.10652	N	0.649789	T	0.68659	0.3025	L	0.43152	1.355	0.09310	N	1	B	0.09022	0.002	B	0.08055	0.003	T	0.54609	-0.8268	10	0.40728	T	0.16	-13.6183	6.2439	0.20805	0.0912:0.2965:0.4592:0.1531	.	221	Q9NQ88	TIGAR_HUMAN	V	221	ENSP00000179259:L221V	ENSP00000179259:L221V	L	+	1	2	C12orf5	4331966	0.005000	0.15991	0.000000	0.03702	0.066000	0.16364	-0.080000	0.11339	-0.333000	0.08476	-0.219000	0.12488	CTG		0.423	C12orf5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398290.1	NM_020375		G	4461705	C	G	4461705	3	3	600	1	0	0	0	0	1	0	0	0	1696	912	32	4	683	4	C12orf5	12	4461705	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	4059757	4461705	129390190	70	35990										
GPR162	27239	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	6933600	6933600	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ctccaagatcggcctcggctTtggcgtttgcttcagcctct	10	14	2	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr12:6933600T>C	ENST00000311268.3	+	2	1323	c.536T>C	c.(535-537)tTt>tCt	p.F179S	GPR162_ENST00000382315.3_Intron|GPR162_ENST00000428545.2_Intron	NM_019858.1	NP_062832.1	Q16538	GP162_HUMAN	G protein-coupled receptor 162	179						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			NS(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(5)|ovary(2)|pancreas(2)|skin(1)	18						GGCCTCGGCTTTGGCGTTTGC	0.597																																																0													86	82	84					12																	6933600		2203	4300	6503	SO:0001583	missense	27239			U47928, U47929, U47924, U47925	CCDS8563.1, CCDS44819.1	12p13	2012-08-21						"GPCR / Class A : Orphans"	16693	protein-coding gene	gene with protein product						15777626	Standard	NM_014449		Approved	A-2, GRCA	uc001qqw.1	Q16538		ENST00000311268.3:c.536T>C	12.37:g.6933600T>C	ENSP00000311528:p.Phe179Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q16664|Q59EH5|Q66K56	Missense_Mutation	SNP	ENST00000311268.3	37	CCDS8563.1	.	.	.	.	.	.	.	.	.	.	T	19.89	3.910599	0.72983	.	.	ENSG00000250510	ENST00000311268	T	0.72051	-0.62	4.33	3.19	0.36642	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.59321	0.2185	L	0.34521	1.04	0.80722	D	1	P;B	0.41624	0.757;0.156	B;B	0.40602	0.334;0.053	T	0.60234	-0.7303	9	0.87932	D	0	.	9.5237	0.39152	0.0:0.0841:0.0:0.9159	.	179;179	B7Z3U3;Q16538	.;GP162_HUMAN	S	179	ENSP00000311528:F179S	ENSP00000311528:F179S	F	+	2	0	GPR162	6803861	1.000000	0.71417	0.747000	0.31113	0.888000	0.51559	7.858000	0.86971	0.722000	0.32252	0.402000	0.26972	TTT		0.597	GPR162-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399478.1	NM_019858		C	6933600	T	C	6933600	3	2	600	1	0	0	0	0	1	0	0	0	6673	1841	64	3	557	3	GPR162	12	6933600	Missense_Mutation	SNP	T	TCGA-GL-8500-01A-11D-2396-08	2471895	6933600	126918295	71	35991										
ITPR2	3709	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	26809443	26809443	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ggtttatggccagatactggCgatccaagcacatccttgca	10	11	0	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr12:26809443C>G	ENST00000381340.3	-	19	2647	c.2231G>C	c.(2230-2232)cGc>cCc	p.R744P		NM_002223.2	NP_002214.2	Q14571	ITPR2_HUMAN	inositol 1,4,5-trisphosphate receptor, type 2	744					activation of phospholipase C activity (GO:0007202)|blood coagulation (GO:0007596)|cellular response to cAMP (GO:0071320)|cellular response to ethanol (GO:0071361)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|inositol phosphate-mediated signaling (GO:0048016)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet activation (GO:0030168)|regulation of insulin secretion (GO:0050796)|response to hypoxia (GO:0001666)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|transport (GO:0006810)	cell cortex (GO:0005938)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|platelet dense tubular network membrane (GO:0031095)|receptor complex (GO:0043235)|sarcoplasmic reticulum membrane (GO:0033017)	calcium ion transmembrane transporter activity (GO:0015085)|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0005220)|phosphatidylinositol binding (GO:0035091)		ETV6/ITPR2(2)	biliary_tract(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(16)|large_intestine(20)|liver(1)|lung(51)|ovary(5)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(5)|urinary_tract(3)	125	Colorectal(261;0.0847)				Caffeine(DB00201)	CAGATACTGGCGATCCAAGCA	0.453																																																0													68	70	69					12																	26809443		2001	4179	6180	SO:0001583	missense	3709			D26350	CCDS41764.1	12p11.23	2014-07-18	2011-04-28		ENSG00000123104	ENSG00000123104		"Ion channels / Inositol triphosphate receptors"	6181	protein-coding gene	gene with protein product	"cilia and flagella associated protein 48"	600144	"inositol 1,4,5-triphosphate receptor, type 2"			8081734	Standard	XM_006719064		Approved	IP3R2, CFAP48	uc001rhg.3	Q14571	OTTHUMG00000169181	ENST00000381340.3:c.2231G>C	12.37:g.26809443C>G	ENSP00000370744:p.Arg744Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O94773	Missense_Mutation	SNP	ENST00000381340.3	37	CCDS41764.1	.	.	.	.	.	.	.	.	.	.	C	26.7	4.758328	0.89843	.	.	ENSG00000123104	ENST00000381340	D	0.95656	-3.77	4.62	4.62	0.57501	.	0.000000	0.85682	D	0.000000	D	0.97949	0.9325	M	0.87381	2.88	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.98818	1.0746	10	0.87932	D	0	.	18.0329	0.89290	0.0:1.0:0.0:0.0	.	744	Q14571	ITPR2_HUMAN	P	744	ENSP00000370744:R744P	ENSP00000370744:R744P	R	-	2	0	ITPR2	26700710	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.596000	0.82721	2.546000	0.85860	0.655000	0.94253	CGC		0.453	ITPR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402732.1	NM_002223		G	26809443	C	G	26809443	3	3	600	1	0	0	0	0	1	0	0	0	7928	768	27	4	6030	4	ITPR2	12	26809443	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	19875843	26809443	107042452	72	35992										
DIP2B	57609	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	51092173	51092173	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ctcaatgaatggattgagctAtggggtaatacgggtcaata	12	5	2	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr12:51092173A>G	ENST00000301180.5	+	18	2145	c.2111A>G	c.(2110-2112)tAt>tGt	p.Y704C		NM_173602.2	NP_775873.2	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B (Drosophila)	704						cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	catalytic activity (GO:0003824)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(4)|large_intestine(15)|lung(18)|ovary(4)|pancreas(1)|prostate(1)|skin(6)|urinary_tract(2)	60						GGATTGAGCTATGGGGTAATA	0.463																																																0													108	101	103					12																	51092173		2203	4300	6503	SO:0001583	missense	57609			AB040896	CCDS31799.1	12q13.12	2012-10-02	2006-01-13		ENSG00000066084	ENSG00000066084			29284	protein-coding gene	gene with protein product		611379					Standard	XM_005269044		Approved	KIAA1463, FLJ34278	uc001rwv.3	Q9P265	OTTHUMG00000169475	ENST00000301180.5:c.2111A>G	12.37:g.51092173A>G	ENSP00000301180:p.Tyr704Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6B011|Q8N1L5|Q8NB38	Missense_Mutation	SNP	ENST00000301180.5	37	CCDS31799.1	.	.	.	.	.	.	.	.	.	.	A	19.81	3.896459	0.72639	.	.	ENSG00000066084	ENST00000301180	T	0.23552	1.9	5.2	5.2	0.72013	AMP-dependent synthetase/ligase (1);	0.113362	0.64402	D	0.000011	T	0.45498	0.1345	M	0.71581	2.175	0.42957	D	0.994399	D	0.63880	0.993	D	0.64687	0.928	T	0.38714	-0.9648	10	0.40728	T	0.16	-14.3821	11.1177	0.48270	0.8536:0.0:0.0:0.1464	.	704	Q9P265	DIP2B_HUMAN	C	704	ENSP00000301180:Y704C	ENSP00000301180:Y704C	Y	+	2	0	DIP2B	49378440	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.169000	0.77578	2.184000	0.69523	0.482000	0.46254	TAT		0.463	DIP2B-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404243.1	NM_173602		G	51092173	A	G	51092173	3	3	600	1	0	0	0	0	1	0	0	0	4530	449	16	3	2181	3	DIP2B	12	51092173	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	24282730	51092173	82759722	73	35993										
ESPL1	9700	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	53680427	53680427	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	caccattaataaaaagtgtcCctggctcagagccctctaag	7	12	2	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr12:53680427C>A	ENST00000257934.4	+	18	3998	c.3907C>A	c.(3907-3909)Cct>Act	p.P1303T	ESPL1_ENST00000552462.1_Missense_Mutation_p.P1303T	NM_012291.4	NP_036423.4	Q14674	ESPL1_HUMAN	extra spindle pole bodies homolog 1 (S. cerevisiae)	1303					apoptotic process (GO:0006915)|cytokinesis (GO:0000910)|establishment of mitotic spindle localization (GO:0040001)|homologous chromosome segregation (GO:0045143)|meiotic spindle organization (GO:0000212)|mitotic cell cycle (GO:0000278)|mitotic sister chromatid segregation (GO:0000070)|negative regulation of sister chromatid cohesion (GO:0045875)|positive regulation of mitotic metaphase/anaphase transition (GO:0045842)	centrosome (GO:0005813)|cytosol (GO:0005829)|nucleus (GO:0005634)	catalytic activity (GO:0003824)|cysteine-type peptidase activity (GO:0008234)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(10)|large_intestine(12)|lung(21)|ovary(2)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(8)	70						AAAAAGTGTCCCTGGCTCAGA	0.527																																					Colon(53;1069 1201 2587 5382)											0													42	44	44					12																	53680427		2203	4300	6503	SO:0001583	missense	9700			D79987	CCDS8852.1	12q13.13	2014-08-04	2013-05-03		ENSG00000135476	ENSG00000135476	3.4.22.49		16856	protein-coding gene	gene with protein product	"separin", "separase", "separin, cysteine protease"	604143	"extra spindle poles like 1 (S. cerevisiae)"			8724849, 16258266	Standard	NM_012291		Approved	KIAA0165, ESP1, SEPA	uc001sck.2	Q14674	OTTHUMG00000169674	ENST00000257934.4:c.3907C>A	12.37:g.53680427C>A	ENSP00000257934:p.Pro1303Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000257934.4	37	CCDS8852.1	.	.	.	.	.	.	.	.	.	.	C	0.020	-1.435949	0.01108	.	.	ENSG00000135476	ENST00000257934;ENST00000552671;ENST00000552462	T;T	0.11385	2.78;2.78	5.26	1.4	0.22301	.	0.405202	0.29501	N	0.011979	T	0.05273	0.0140	N	0.21583	0.68	0.09310	N	1	B	0.06786	0.001	B	0.06405	0.002	T	0.42050	-0.9474	10	0.14252	T	0.57	.	3.9836	0.09506	0.1566:0.4565:0.3028:0.0841	.	1303	Q14674	ESPL1_HUMAN	T	1303;978;1303	ENSP00000257934:P1303T;ENSP00000449831:P1303T	ENSP00000257934:P1303T	P	+	1	0	ESPL1	51966694	0.000000	0.05858	0.000000	0.03702	0.056000	0.15407	-0.007000	0.12810	0.093000	0.17368	0.561000	0.74099	CCT		0.527	ESPL1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406899.2	NM_012291		A	53680427	C	A	53680427	3	1	600	1	0	0	0	0	1	0	0	0	5255	623	22	4	3973	4	ESPL1	12	53680427	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	2588254	53680427	80171468	74	35994										
RDH5	5959	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	56115258	56115258	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gcaggcagccaagtgggtggAgatgcacgttaaggaagcag	17	7	0	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr12:56115258A>G	ENST00000257895.5	+	2	442	c.290A>G	c.(289-291)gAg>gGg	p.E97G	RP11-644F5.10_ENST00000549424.1_Intron|RDH5_ENST00000547072.1_5'UTR|RDH5_ENST00000553160.1_Intron|RP11-644F5.10_ENST00000550412.1_Intron|RDH5_ENST00000548082.1_Missense_Mutation_p.E97G	NM_001199771.1|NM_002905.3	NP_001186700.1|NP_002896.2	Q92781	RDH1_HUMAN	retinol dehydrogenase 5 (11-cis/9-cis)	97					phototransduction, visible light (GO:0007603)|retinoid metabolic process (GO:0001523)|retinol metabolic process (GO:0042572)|visual perception (GO:0007601)	cell body (GO:0044297)|endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum membrane (GO:0005789)	retinol dehydrogenase activity (GO:0004745)			breast(2)|endometrium(1)|kidney(2)|large_intestine(2)|lung(2)|ovary(1)|pancreas(1)|skin(1)	12					Vitamin A(DB00162)	AAGTGGGTGGAGATGCACGTT	0.612																																																0													65	55	58					12																	56115258		2203	4300	6503	SO:0001583	missense	5959			U89717	CCDS31829.1	12q13-q14	2013-06-03	2006-05-09			ENSG00000135437	1.1.1.105	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 2"	9940	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 9C, member 5"	601617	"retinol dehydrogenase 5 (11-cis and 9-cis)"	RDH1		9115228, 8884265, 19027726	Standard	NM_002905		Approved	HSD17B9, SDR9C5	uc001shl.3	Q92781	OTTHUMG00000170126	ENST00000257895.5:c.290A>G	12.37:g.56115258A>G	ENSP00000257895:p.Glu97Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O00179|Q8TAI2	Missense_Mutation	SNP	ENST00000257895.5	37	CCDS31829.1	.	.	.	.	.	.	.	.	.	.	A	10.33	1.320462	0.23994	.	.	ENSG00000135437	ENST00000257895;ENST00000548082	D;D	0.87650	-2.28;-2.28	5.21	4.04	0.47022	NAD(P)-binding domain (1);	0.327481	0.34700	N	0.003750	T	0.77572	0.4150	N	0.25031	0.7	0.24743	N	0.993021	B	0.06786	0.001	B	0.08055	0.003	T	0.69060	-0.5245	10	0.56958	D	0.05	.	9.7426	0.40427	0.9125:0.0:0.0875:0.0	.	97	Q92781	RDH1_HUMAN	G	97	ENSP00000257895:E97G;ENSP00000447128:E97G	ENSP00000257895:E97G	E	+	2	0	RDH5	54401525	0.003000	0.15002	0.300000	0.25030	0.102000	0.19082	1.965000	0.40471	2.107000	0.64212	0.533000	0.62120	GAG		0.612	RDH5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407493.1	NM_002905		G	56115258	A	G	56115258	3	3	600	1	0	0	0	0	1	0	0	0	13208	304	11	3	292	3	RDH5	12	56115258	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	2434831	56115258	77736637	75	35995										
PTPRB	5787	hgsc.bcm.edu	37	chr12	70964842	70964842	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gaaggctgactgctgtacatCcccgctaatcgtcaagacaa	9	12	1	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr12:70964842C>A	ENST00000261266.5	-	11	2709	c.2680G>T	c.(2680-2682)Gat>Tat	p.D894Y	PTPRB_ENST00000451516.2_Missense_Mutation_p.D804Y|PTPRB_ENST00000538708.1_Missense_Mutation_p.D894Y|PTPRB_ENST00000334414.6_Missense_Mutation_p.D1112Y|PTPRB_ENST00000550358.1_Missense_Mutation_p.D1024Y|PTPRB_ENST00000550857.1_Missense_Mutation_p.D804Y|PTPRB_ENST00000551525.1_Missense_Mutation_p.D1111Y	NM_002837.4	NP_002828.3	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	894	Fibronectin type-III 10. {ECO:0000255|PROSITE-ProRule:PRU00316}.				angiogenesis (GO:0001525)|dephosphorylation (GO:0016311)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphate-containing compound metabolic process (GO:0006796)|protein dephosphorylation (GO:0006470)	integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)	transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			breast(4)|central_nervous_system(2)|endometrium(13)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(8)|lung(46)|prostate(4)|skin(18)|upper_aerodigestive_tract(1)|urinary_tract(3)	107	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)			TGCTGTACATCCCCGCTAATC	0.433																																																0													76	72	74					12																	70964842		1930	4139	6069	SO:0001583	missense	5787			X54131	CCDS44943.1, CCDS44944.1, CCDS55845.1, CCDS55846.1	12q15-q21	2013-02-11						"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Fibronectin type III domain containing"	9665	protein-coding gene	gene with protein product		176882		PTPB		2169617	Standard	NM_001109754		Approved		uc001swc.4	P23467	OTTHUMG00000169499	ENST00000261266.5:c.2680G>T	12.37:g.70964842C>A	ENSP00000261266:p.Asp894Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKS8|B7ZKT0|C9JX87|F5H3G6|Q14D85|Q3MIV7	Missense_Mutation	SNP	ENST00000261266.5	37	CCDS44944.1	.	.	.	.	.	.	.	.	.	.	C	18.59	3.656809	0.67586	.	.	ENSG00000127329	ENST00000334414;ENST00000451516;ENST00000550358;ENST00000538708;ENST00000550857;ENST00000261266;ENST00000551525;ENST00000548122	T;T;T;T;T;T;T;T	0.57907	0.37;0.37;0.37;0.37;0.37;0.37;0.37;0.37	5.9	5.9	0.94986	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.265469	0.44483	D	0.000448	T	0.61311	0.2337	L	0.38838	1.175	0.44523	D	0.997474	P;P;D;B;P;P;D	0.57571	0.937;0.878;0.97;0.25;0.855;0.88;0.98	P;P;P;B;P;P;P	0.62649	0.785;0.785;0.905;0.225;0.69;0.793;0.891	T	0.61686	-0.7012	10	0.62326	D	0.03	.	14.4259	0.67215	0.0:0.9302:0.0:0.0698	.	804;894;991;1111;1112;894;1024	P23467-2;F5H3G6;Q6ZR19;F8VSD5;P23467-3;P23467;F8VU56	.;.;.;.;.;PTPRB_HUMAN;.	Y	1112;804;1024;894;804;894;1111;991	ENSP00000334928:D1112Y;ENSP00000393028:D804Y;ENSP00000448058:D1024Y;ENSP00000438927:D894Y;ENSP00000447302:D804Y;ENSP00000261266:D894Y;ENSP00000448349:D1111Y;ENSP00000446982:D991Y	ENSP00000261266:D894Y	D	-	1	0	PTPRB	69251109	0.997000	0.39634	0.993000	0.49108	0.894000	0.52154	2.145000	0.42207	2.788000	0.95919	0.650000	0.86243	GAT		0.433	PTPRB-007	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000404439.1			A	70964842	C	A	70964842	3	1	600	1	0	0	0	0	1	0	0	0	12809	855	30	4	3401	4	PTPRB	12	70964842	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	14849584	70964842	62887053	76	35996										
GLIPR1L2	144321	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	75785104	75785104	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	agctgcggggcgacgtcattCcccgagggtctaacttgcgc	14	13	2	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr12:75785104C>A	ENST00000550916.1	+	1	255	c.208C>A	c.(208-210)Ccc>Acc	p.P70T	GLIPR1L2_ENST00000320460.4_Missense_Mutation_p.P70T|GLIPR1L2_ENST00000435775.1_Missense_Mutation_p.P70T|GLIPR1L2_ENST00000378692.3_5'UTR|GLIPR1L2_ENST00000441218.1_5'Flank|CAPS2_ENST00000442339.2_5'Flank|GLIPR1L2_ENST00000547164.1_Missense_Mutation_p.P70T|GLIPR1L2_ENST00000378689.2_Missense_Mutation_p.P70T	NM_001270396.1	NP_001257325.1	Q4G1C9	GRPL2_HUMAN	GLI pathogenesis-related 1 like 2	70	SCP.					integral component of membrane (GO:0016021)				kidney(1)|large_intestine(3)|lung(8)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	16						CGACGTCATTCCCCGAGGGTC	0.567											OREG0021999	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													104	80	88					12																	75785104		2203	4300	6503	SO:0001583	missense	144321			BC029557	CCDS9010.1, CCDS58258.1	12q21.1	2014-06-03				ENSG00000180481			28592	protein-coding gene	gene with protein product		610394				12477932	Standard	NM_001270396		Approved	MGC39497	uc001sxr.2	Q4G1C9	OTTHUMG00000169756	ENST00000550916.1:c.208C>A	12.37:g.75785104C>A	ENSP00000448248:p.Pro70Thr	Somatic	1163	WXS	Illumina HiSeq	Phase_I	Q6MZS1|Q8N6N0|Q8NA43	Missense_Mutation	SNP	ENST00000550916.1	37	CCDS58258.1	.	.	.	.	.	.	.	.	.	.	C	12.33	1.906693	0.33628	.	.	ENSG00000180481	ENST00000550916;ENST00000435775;ENST00000378689;ENST00000320460;ENST00000547164	T;T;T;T;T	0.14516	2.5;2.5;2.5;2.5;2.5	3.68	3.68	0.42216	CAP domain (3);	0.000000	0.85682	D	0.000000	T	0.41880	0.1178	M	0.90425	3.115	0.48288	D	0.999624	D;D	0.89917	0.997;1.0	P;D	0.87578	0.897;0.998	T	0.49062	-0.8978	10	0.87932	D	0	.	11.1954	0.48709	0.0:1.0:0.0:0.0	.	70;70	Q4G1C9;Q4G1C9-2	GRPL2_HUMAN;.	T	70	ENSP00000448248:P70T;ENSP00000398328:P70T;ENSP00000367960:P70T;ENSP00000317385:P70T;ENSP00000447980:P70T	ENSP00000317385:P70T	P	+	1	0	GLIPR1L2	74071371	0.067000	0.21026	0.025000	0.17156	0.007000	0.05969	2.883000	0.48554	2.352000	0.79861	0.585000	0.79938	CCC		0.567	GLIPR1L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405718.1	NM_152436		A	75785104	C	A	75785104	3	1	600	1	0	0	0	0	1	0	0	0	6450	855	30	4	210	4	GLIPR1L2	12	75785104	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	4820262	75785104	58066791	77	35997										
CUL4A	8451	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	113915023	113915023	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	agatgagaaagactcttggtCataatcttctagtttctgaa	8	6	5	4			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr13:113915023C>G	ENST00000375440.4	+	19	2218	c.2134C>G	c.(2134-2136)Cat>Gat	p.H712D	CUL4A_ENST00000326335.4_Missense_Mutation_p.H612D|CUL4A_ENST00000451881.1_Missense_Mutation_p.H612D|CUL4A_ENST00000375441.3_Missense_Mutation_p.H612D	NM_001008895.1	NP_001008895.1	Q13619	CUL4A_HUMAN	cullin 4A	712					cell cycle arrest (GO:0007050)|DNA repair (GO:0006281)|G1/S transition of mitotic cell cycle (GO:0000082)|hemopoiesis (GO:0030097)|intrinsic apoptotic signaling pathway (GO:0097193)|negative regulation of cell proliferation (GO:0008285)|negative regulation of granulocyte differentiation (GO:0030853)|positive regulation of cell proliferation (GO:0008284)|positive regulation of G1/S transition of mitotic cell cycle (GO:1900087)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein ubiquitination (GO:0016567)|regulation of DNA damage checkpoint (GO:2000001)|regulation of nucleotide-excision repair (GO:2000819)|regulation of protein metabolic process (GO:0051246)|somatic stem cell maintenance (GO:0035019)|viral process (GO:0016032)	Cul4-RING E3 ubiquitin ligase complex (GO:0080008)|Cul4A-RING E3 ubiquitin ligase complex (GO:0031464)				NS(1)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(1)|large_intestine(5)|lung(5)|skin(1)	17	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.112)			GACTCTTGGTCATAATCTTCT	0.328																																																0													75	74	74					13																	113915023		2203	4300	6503	SO:0001583	missense	8451			U58090	CCDS9533.1, CCDS41908.1, CCDS73604.1	13q34	2011-05-24			ENSG00000139842	ENSG00000139842			2554	protein-coding gene	gene with protein product		603137				8681378	Standard	NM_001008895		Approved		uc021rmv.1	Q13619	OTTHUMG00000017384	ENST00000375440.4:c.2134C>G	13.37:g.113915023C>G	ENSP00000364589:p.His712Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2W2|O75834|Q589T6|Q5TC62|Q6UP08|Q9UP17	Missense_Mutation	SNP	ENST00000375440.4	37	CCDS41908.1	.	.	.	.	.	.	.	.	.	.	C	22.8	4.332500	0.81801	.	.	ENSG00000139842	ENST00000375441;ENST00000451881;ENST00000326335;ENST00000375440	T;T;T;T	0.79454	-1.27;-1.27;-1.27;-1.18	5.52	5.52	0.82312	Cullin protein, neddylation domain (2);Winged helix-turn-helix transcription repressor DNA-binding (1);	0.000000	0.85682	D	0.000000	D	0.93588	0.7953	H	0.99011	4.4	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.83275	0.996;0.996	D	0.95979	0.8976	10	0.87932	D	0	-35.2623	19.4327	0.94778	0.0:1.0:0.0:0.0	.	712;712	Q13619;A8MSH7	CUL4A_HUMAN;.	D	612;612;612;712	ENSP00000364590:H612D;ENSP00000389118:H612D;ENSP00000322132:H612D;ENSP00000364589:H712D	ENSP00000322132:H612D	H	+	1	0	CUL4A	112963024	1.000000	0.71417	0.165000	0.22776	0.878000	0.50629	5.612000	0.67681	2.594000	0.87642	0.561000	0.74099	CAT		0.328	CUL4A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045888.3	NM_003589		G	113915023	C	G	113915023	3	3	600	1	0	0	0	0	1	0	0	0	4059	826	29	4	2208	4	CUL4A	13	113915023	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08		113915023	1254855	78	35998										
LAMP1	3916	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	113963979	113963979	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	acatgacctttgacctgccaTcagatgccacagtggtgctc	9	13	1	3			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr13:113963979T>C	ENST00000332556.4	+	3	399	c.205T>C	c.(205-207)Tca>Cca	p.S69P	LAMP1_ENST00000397181.3_Missense_Mutation_p.S69P	NM_005561.3	NP_005552.3	P11279	LAMP1_HUMAN	lysosomal-associated membrane protein 1	69	First lumenal domain.				autophagic cell death (GO:0048102)|autophagy (GO:0006914)|establishment of protein localization to organelle (GO:0072594)|Golgi to lysosome transport (GO:0090160)|granzyme-mediated apoptotic signaling pathway (GO:0008626)|positive regulation of natural killer cell degranulation (GO:0043323)|positive regulation of natural killer cell mediated cytotoxicity (GO:0045954)|protein stabilization (GO:0050821)|regulation of organelle transport along microtubule (GO:1902513)	alveolar lamellar body (GO:0097208)|cytolytic granule (GO:0044194)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|lysosome (GO:0005764)|melanosome (GO:0042470)|membrane (GO:0016020)|multivesicular body (GO:0005771)|neuronal cell body (GO:0043025)|phagolysosome membrane (GO:0061474)|sarcolemma (GO:0042383)	enzyme binding (GO:0019899)			NS(1)|central_nervous_system(2)|endometrium(3)|large_intestine(4)|lung(2)|prostate(1)|skin(1)|stomach(2)	16	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)			TGACCTGCCATCAGATGCCAC	0.423																																																0													89	92	91					13																	113963979		1960	4142	6102	SO:0001583	missense	3916			J03263	CCDS41909.1	13q34	2011-11-24			ENSG00000185896	ENSG00000185896		"CD molecules"	6499	protein-coding gene	gene with protein product		153330					Standard	NM_005561		Approved	CD107a	uc001vtm.1	P11279	OTTHUMG00000017380	ENST00000332556.4:c.205T>C	13.37:g.113963979T>C	ENSP00000333298:p.Ser69Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DWL3|Q8WU33|Q96I40|Q9BRD2|Q9NP13	Missense_Mutation	SNP	ENST00000332556.4	37	CCDS41909.1	.	.	.	.	.	.	.	.	.	.	T	10.74	1.434683	0.25813	.	.	ENSG00000185896	ENST00000332556;ENST00000397181	T;T	0.32023	1.47;1.88	5.15	-10.3	0.00346	.	1.186920	0.05805	N	0.612961	T	0.19366	0.0465	L	0.51914	1.62	0.09310	N	1	B;B	0.15141	0.012;0.004	B;B	0.14578	0.011;0.004	T	0.10064	-1.0646	10	0.26408	T	0.33	-1.3993	4.2226	0.10565	0.0888:0.4046:0.2957:0.2108	.	69;69	B4DWL3;P11279	.;LAMP1_HUMAN	P	69	ENSP00000333298:S69P;ENSP00000415354:S69P	ENSP00000333298:S69P	S	+	1	0	LAMP1	113011980	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-2.754000	0.00790	-2.251000	0.00700	-0.479000	0.04858	TCA		0.423	LAMP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045876.2			C	113963979	T	C	113963979	3	2	600	1	0	0	0	0	1	0	0	0	8624	1435	50	3	215	3	LAMP1	13	113963979	Missense_Mutation	SNP	T	TCGA-GL-8500-01A-11D-2396-08	48956	113963979	1205899	79	35999										
C14orf126	112487	hgsc.bcm.edu	37	chr14	31926584	31926584	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	cgcccgggcctgaggaatccGgctaccctcagccatggctt	12	16	1	1	rs17097904	byFrequency	TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr14:31926584G>A	ENST00000310850.4	-	1	132	c.16C>T	c.(16-18)Cgg>Tgg	p.R6W	RP11-176H8.1_ENST00000547378.1_Missense_Mutation_p.R6W|DTD2_ENST00000356180.4_Missense_Mutation_p.R6W	NM_080664.2	NP_542395.1	Q96FN9	DTD2_HUMAN	D-tyrosyl-tRNA deacylase 2 (putative)	6			R -> W (in dbSNP:rs17097904).		D-amino acid catabolic process (GO:0019478)	cytoplasm (GO:0005737)	hydrolase activity, acting on ester bonds (GO:0016788)	p.R6W(1)									TGAGGAATCCGGCTACCCTCA	0.697																																																1	Substitution - Missense(1)	skin(1)											12	12	12					14																	31926584		2183	4278	6461	SO:0001583	missense	112487			BC010618	CCDS9643.1	14q12	2012-09-25	2012-09-25	2012-09-25	ENSG00000129480	ENSG00000129480			20277	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 126"	C14orf126			Standard	NM_080664		Approved	MGC9912	uc001wrj.3	Q96FN9	OTTHUMG00000140205	ENST00000310850.4:c.16C>T	14.37:g.31926584G>A	ENSP00000312224:p.Arg6Trp	Somatic		WXS	Illumina HiSeq	Phase_I	D3DS87	Missense_Mutation	SNP	ENST00000310850.4	37	CCDS9643.1	.	.	.	.	.	.	.	.	.	.	G	19.08	3.758136	0.69763	.	.	ENSG00000203546;ENSG00000129480;ENSG00000129480	ENST00000547378;ENST00000310850;ENST00000356180	T;T;T	0.55052	0.54;0.71;0.71	4.84	2.97	0.34412	D-Tyr tRNAtyr deacylase-like domain (1);	0.302778	0.30901	N	0.008651	T	0.52419	0.1733	M	0.69823	2.125	0.36855	D	0.888115	D	0.67145	0.996	B	0.43623	0.425	T	0.65220	-0.6221	10	0.87932	D	0	.	11.9711	0.53063	0.0:0.0:0.5428:0.4572	rs17097904	6	Q96FN9	DTD2_HUMAN	W	6	ENSP00000447056:R6W;ENSP00000312224:R6W;ENSP00000348503:R6W	ENSP00000312224:R6W	R	-	1	2	C14orf126;RP11-176H8.1	30996335	0.001000	0.12720	0.005000	0.12908	0.004000	0.04260	0.080000	0.14802	0.618000	0.30179	0.561000	0.74099	CGG		0.697	DTD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276614.2	NM_080664		A	31926584	G	A	31926584	3	1	600	1	0	0	0	0	1	0	0	0	1745	1115	39	1	502	1	C14orf126	14	31926584	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08		31926584	75422956	80	36000										
BAZ1A	11177	hgsc.bcm.edu	37	chr14	35295323	35295323	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ccattagcaaaaccattttgAtgtgatggagggaggacttc	11	7	0	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr14:35295323A>G	ENST00000382422.2	-	3	759	c.432T>C	c.(430-432)caT>caC	p.H144H	BAZ1A_ENST00000360310.1_Silent_p.H144H|BAZ1A_ENST00000553853.1_5'Flank|BAZ1A_ENST00000358716.4_Silent_p.H144H			Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	144					chromatin remodeling (GO:0006338)|DNA-dependent DNA replication (GO:0006261)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	ACF complex (GO:0016590)|CHRAC (GO:0008623)|nuclear chromosome (GO:0000228)	zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(2)|cervix(2)|endometrium(6)|kidney(2)|large_intestine(7)|lung(19)|ovary(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	48	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)		AACCATTTTGATGTGATGGAG	0.338																																																0													105	87	93					14																	35295323		2203	4300	6503	SO:0001819	synonymous_variant	11177			AB032252	CCDS9651.1, CCDS41943.1	14q13.2	2013-01-28			ENSG00000198604	ENSG00000198604		"Zinc fingers, PHD-type"	960	protein-coding gene	gene with protein product		605680				10662543	Standard	NM_013448		Approved	hACF1, ACF1, WALp1, WCRF180	uc001wsk.3	Q9NRL2	OTTHUMG00000140216	ENST00000382422.2:c.432T>C	14.37:g.35295323A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NZ15|Q9P065|Q9UIG1|Q9Y3V3	Silent	SNP	ENST00000382422.2	37	CCDS9651.1																																																																																				0.338	BAZ1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276646.1			G	35295323	A	G	35295323	2	3	600	1	0	0	0	0	0	0	0	1	1329	330	12	3		3	BAZ1A	14	35295323	Silent	SNP	A	TCGA-GL-8500-01A-11D-2396-08	3368739	35295323	72054217	81	36001										
SDCCAG1	9147	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	50292672	50292672	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tcttttctgctgacttgaatGcctatttatagaaaagagtt	7	6	2	4	rs370101877		TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr14:50292672G>A	ENST00000298310.5	-	16	1939	c.1490C>T	c.(1489-1491)gCa>gTa	p.A497V	NEMF_ENST00000556925.1_5'UTR|NEMF_ENST00000546046.1_Splice_Site_p.A497V|NEMF_ENST00000545773.1_Splice_Site_p.A455V|AL627171.2_ENST00000595378.1_3'UTR			O60524	NEMF_HUMAN	nuclear export mediator factor	497					nuclear export (GO:0051168)	nucleus (GO:0005634)				breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(13)|liver(1)|lung(9)|prostate(1)|skin(1)|urinary_tract(1)	36						TGACTTGAATGCCTATTTATA	0.269																																																0								G	VAL/ALA	0,4400		0,0,2200	96	91	93		1490	5.3	1	14		93	1,8591	1.2+/-3.3	0,1,4295	no	missense-near-splice	NEMF	NM_004713.3	64	0,1,6495	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	497/1077	50292672	1,12991	2200	4296	6496	SO:0001630	splice_region_variant	9147			AF039687	CCDS9694.1	14q21.3	2012-11-19	2011-01-31	2011-01-31	ENSG00000165525	ENSG00000165525			10663	protein-coding gene	gene with protein product		608378	"serologically defined colon cancer antigen 1"	SDCCAG1		9610721, 10575219	Standard	XR_429334		Approved	NY-CO-1, FLJ10051	uc001wxc.3	O60524	OTTHUMG00000170857	ENST00000298310.5:c.1489-1C>T	14.37:g.50292672G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0JLQ3|B3KSK1|B4DDL3|B4DHA9|B4E3F3|Q32Q66|Q8WW70|Q9NWG1	Missense_Mutation	SNP	ENST00000298310.5	37	CCDS9694.1	.	.	.	.	.	.	.	.	.	.	G	29.2	4.985467	0.93044	0.0	1.16E-4	ENSG00000165525	ENST00000298310;ENST00000545773;ENST00000546046;ENST00000534912;ENST00000555970	T;T;T;T	0.47528	0.84;0.84;0.84;0.84	5.34	5.34	0.76211	Fibronectin-binding A, N-terminal (1);	0.000000	0.85682	D	0.000000	T	0.73892	0.3645	M	0.86864	2.845	0.80722	D	1	D;D;D;D;D	0.69078	0.997;0.994;0.985;0.997;0.995	D;D;D;D;D	0.73380	0.966;0.966;0.943;0.966;0.98	T	0.77086	-0.2718	10	0.54805	T	0.06	-18.6685	19.4564	0.94892	0.0:0.0:1.0:0.0	.	497;268;472;455;497	O60524-3;F5H639;O60524-5;O60524-4;O60524	.;.;.;.;NEMF_HUMAN	V	497;455;497;268;455	ENSP00000298310:A497V;ENSP00000438309:A455V;ENSP00000441016:A497V;ENSP00000452540:A455V	ENSP00000298310:A497V	A	-	2	0	NEMF	49362422	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	8.484000	0.90445	2.684000	0.91462	0.644000	0.83932	GCA		0.269	NEMF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410798.1	NM_004713	Missense_Mutation	A	50292672	G	A	50292672	5	1	600	1	0	0	0	0	0	0	1	0	13970	1333	46	2	1812	2	SDCCAG1	14	50292672	Splice_Site	SNP	G	TCGA-GL-8500-01A-11D-2396-08	14997349	50292672	57056868	82	36002										
DLGAP5	9787	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	55655750	55655751	+	Frame_Shift_Ins	INS	-	-	AT													0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tccaaggttggaatgtttacINSatctttcaaaccaaagtgtc							TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr14:55655750_55655751insAT	ENST00000247191.2	-	2	363_364	c.147_148insAT	c.(145-150)gatgtafs	p.V50fs	DLGAP5_ENST00000395425.2_Frame_Shift_Ins_p.V50fs	NM_014750.4	NP_055565.3	Q15398	DLGP5_HUMAN	discs, large (Drosophila) homolog-associated protein 5	50					cell proliferation (GO:0008283)|cell-cell signaling (GO:0007267)|dephosphorylation (GO:0016311)|mitotic chromosome movement towards spindle pole (GO:0007079)|positive regulation of mitotic metaphase/anaphase transition (GO:0045842)	cytoplasm (GO:0005737)|microtubule organizing center (GO:0005815)|nucleus (GO:0005634)|spindle pole centrosome (GO:0031616)	phosphoprotein phosphatase activity (GO:0004721)			biliary_tract(1)|breast(2)|cervix(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(8)|lung(10)|ovary(2)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	44						GGAATGTTTACATCTTTCAAAC	0.347																																																0																																										SO:0001589	frameshift_variant	9787			D13633	CCDS9723.1, CCDS53897.1	14q22.3	2008-05-30	2008-05-30	2008-05-30	ENSG00000126787	ENSG00000126787			16864	protein-coding gene	gene with protein product			"discs, large homolog 7 (Drosophila)"	DLG7		7584026, 7584028	Standard	NM_014750		Approved	KIAA0008, DLG1, HURP	uc001xbs.3	Q15398	OTTHUMG00000140310	ENST00000247191.2:c.146_147dupAT	14.37:g.55655751_55655752dupAT	ENSP00000247191:p.Val50fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8MTM6|B4DRM8|Q86T11|Q8NG58	Frame_Shift_Ins	INS	ENST00000247191.2	37	CCDS9723.1																																																																																				0.347	DLGAP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276908.2	NM_014750		AT	55655751	-	AT	55655750	7	5	600	1	0	1	1	0	0	0	0	0	4565	478	17	0	2559	0	DLGAP5	14	55655750	Frame_Shift_Ins	INS	-	TCGA-GL-8500-01A-11D-2396-08	5363078	55655750	51693790	83	36003										
PPM1A	5494	hgsc.bcm.edu;broad.mit.edu	37	chr14	60712638	60712638	+	5'UTR	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	taatgaaaagagagaaaagaAgaatggggaagagaagggca	15	1	0	6			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr14:60712638A>G	ENST00000529574.1	+	0	164				PPM1A_ENST00000325642.3_Missense_Mutation_p.R25G|CTD-2184C24.2_ENST00000529171.1_RNA|CTD-2184C24.2_ENST00000553269.1_RNA|CTD-2184C24.2_ENST00000532515.1_RNA|CTD-2184C24.2_ENST00000553775.1_RNA			P35813	PPM1A_HUMAN	protein phosphatase, Mg2+/Mn2+ dependent, 1A						cell cycle arrest (GO:0007050)|dephosphorylation (GO:0016311)|gene expression (GO:0010467)|insulin receptor signaling pathway (GO:0008286)|N-terminal protein myristoylation (GO:0006499)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of NF-kappaB import into nucleus (GO:0042347)|negative regulation of SMAD protein complex assembly (GO:0010991)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|peptidyl-threonine dephosphorylation (GO:0035970)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of Wnt signaling pathway (GO:0030177)|protein dephosphorylation (GO:0006470)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|Wnt signaling pathway (GO:0016055)	cytosol (GO:0005829)|membrane (GO:0016020)|neuron projection (GO:0043005)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|voltage-gated calcium channel complex (GO:0005891)	calmodulin-dependent protein phosphatase activity (GO:0033192)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|protein serine/threonine phosphatase activity (GO:0004722)|R-SMAD binding (GO:0070412)|signal transducer activity (GO:0004871)			cervix(1)|endometrium(1)|large_intestine(8)|lung(2)|skin(1)|upper_aerodigestive_tract(1)	14				OV - Ovarian serous cystadenocarcinoma(108;0.046)		agagaaaagaagaatggggaa	0.408																																																0													79	77	78					14																	60712638		1568	3578	5146	SO:0001623	5_prime_UTR_variant	5494			S87759	CCDS9744.1, CCDS9745.1, CCDS45120.1	14q23.1	2013-01-24	2010-03-05		ENSG00000100614	ENSG00000100614	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatases, Mg2+/Mn2+ dependent"	9275	protein-coding gene	gene with protein product	"phosphatase 2C alpha", "protein phosphatase 2C, alpha isoform"	606108	"protein phosphatase 1A (formerly 2C), magnesium-dependent, alpha isoform"			1311954	Standard	NM_177952		Approved	MGC9201, PP2Calpha, PP2CA	uc001xew.4	P35813	OTTHUMG00000140333	ENST00000529574.1:c.-234A>G	14.37:g.60712638A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B5BU11|J3KNM0|O75551	Missense_Mutation	SNP	ENST00000529574.1	37	CCDS9744.1	.	.	.	.	.	.	.	.	.	.	A	10.67	1.415786	0.25552	.	.	ENSG00000100614	ENST00000325642	T	0.33438	1.41	3.86	0.196	0.15159	.	.	.	.	.	T	0.14141	0.0342	N	0.08118	0	0.09310	N	0.999997	.	.	.	.	.	.	T	0.23297	-1.0192	7	0.87932	D	0	.	2.3945	0.04386	0.5595:0.0:0.2316:0.2089	.	.	.	.	G	25	ENSP00000327255:R25G	ENSP00000327255:R25G	R	+	1	2	PPM1A	59782391	0.006000	0.16342	0.001000	0.08648	0.216000	0.24613	-0.020000	0.12525	0.023000	0.15187	0.172000	0.16884	AGA		0.408	PPM1A-201	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding		NM_021003		G	60712638	A	G	60712638	1	3	600	0	1	0	0	0	0	0	0	0	12345	64	3	3		3	PPM1A	14	60712638	5'UTR	SNP	A	TCGA-GL-8500-01A-11D-2396-08	5056888	60712638	46636902	84	36004										
GPHB5	122876	broad.mit.edu	37	chr14	63779788	63779788	+	RNA	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ggtctcgttgtaggtacagaCtcgatgatgggcttcaatat	12	7	2	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr14:63779788C>A	ENST00000539258.1	-	0	302							Q86YW7	GPHB5_HUMAN	glycoprotein hormone beta 5						regulation of thyroid hormone mediated signaling pathway (GO:0002155)	extracellular region (GO:0005576)				breast(1)|endometrium(1)|lung(4)|urinary_tract(1)	7				OV - Ovarian serous cystadenocarcinoma(108;0.00372)|all cancers(60;0.0226)|BRCA - Breast invasive adenocarcinoma(234;0.0978)		TAGGTACAGACTCGATGATGG	0.488																																																0													85	92	90					14																	63779788		1960	4148	6108			122876			AF467770	CCDS73643.1	14q23.3	2006-09-25				ENSG00000179600			18055	protein-coding gene	gene with protein product		609652					Standard	NM_145171		Approved	ZLUT1, GPB5	uc021rud.1	Q86YW7			14.37:g.63779788C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6NTD0|Q8NFW2	Missense_Mutation	SNP	ENST00000539258.1	37																																																																																					0.488	GPHB5-001	KNOWN	basic	processed_transcript	processed_transcript	OTTHUMT00000400582.1	NM_145171		A	63779788	C	A	63779788	1	1	600	0	1	0	0	0	0	0	0	0	6616	564	20	4		4	GPHB5	14	63779788	RNA	SNP	C	TCGA-GL-8500-01A-11D-2396-08	3067150	63779788	43569752	85	36005										
DISP2	85455	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr15	40661086	40661086	+	Frame_Shift_Del	DEL	A	A	-													0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	accagacccagctcttctacAatgaggtcagccactggctg							TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr15:40661086delA	ENST00000267889.3	+	8	2860	c.2773delA	c.(2773-2775)aatfs	p.N925fs	RP11-64K12.4_ENST00000558421.1_RNA|LINC00594_ENST00000561261.1_lincRNA	NM_033510.1	NP_277045.1	A7MBM2	DISP2_HUMAN	dispatched homolog 2 (Drosophila)	925					smoothened signaling pathway (GO:0007224)	integral component of membrane (GO:0016021)				breast(1)|endometrium(4)|kidney(2)|large_intestine(7)|lung(12)|ovary(4)	30		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		GCTCTTCTACAATGAGGTCAG	0.602																																																0													53	58	56					15																	40661086		2203	4300	6503	SO:0001589	frameshift_variant	85455			AB051529	CCDS10056.1	15q14	2004-01-15			ENSG00000140323	ENSG00000140323			19712	protein-coding gene	gene with protein product		607503				11214970, 10619433	Standard	NM_033510		Approved	DISPB, KIAA1742, HsT16908	uc001zlk.1	A7MBM2	OTTHUMG00000129983	ENST00000267889.3:c.2773delA	15.37:g.40661086delA	ENSP00000267889:p.Asn925fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6AHW3|Q9C0C1	Frame_Shift_Del	DEL	ENST00000267889.3	37	CCDS10056.1																																																																																				0.602	DISP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252249.1	NM_033510		-	40661086	A	-	40661086	7	5	600	1	0	1	0	1	0	0	0	0	4542	130	5	0	2803	0	DISP2	15	40661086	Frame_Shift_Del	DEL	A	TCGA-GL-8500-01A-11D-2396-08		40661086	61870306	86	36006										
MYO5A	4644	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	52606371	52606371	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ctttcttcaaactcattaacTggagtatacaaattcaacac	3	10	4	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr15:52606371T>C	ENST00000399231.3	-	40	5607	c.5364A>G	c.(5362-5364)ccA>ccG	p.P1788P	MYO5A_ENST00000399233.2_Silent_p.P1785P|MYO5A_ENST00000358212.6_Silent_p.P1813P|MYO5A_ENST00000553916.1_Silent_p.P1786P|MYO5A_ENST00000356338.6_Silent_p.P1761P	NM_000259.3	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA (heavy chain 12, myoxin)	1788	Dilute. {ECO:0000255|PROSITE- ProRule:PRU00503}.				actin filament-based movement (GO:0030048)|anagen (GO:0042640)|cellular protein metabolic process (GO:0044267)|cellular response to insulin stimulus (GO:0032869)|endoplasmic reticulum localization (GO:0051643)|exocytosis (GO:0006887)|insulin secretion (GO:0030073)|locomotion involved in locomotory behavior (GO:0031987)|long-chain fatty acid biosynthetic process (GO:0042759)|melanin biosynthetic process (GO:0042438)|melanocyte differentiation (GO:0030318)|melanosome transport (GO:0032402)|membrane organization (GO:0061024)|myelination (GO:0042552)|odontogenesis (GO:0042476)|post-Golgi vesicle-mediated transport (GO:0006892)|protein localization to plasma membrane (GO:0072659)|protein transport (GO:0015031)|regulation of inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0031585)|secretory granule localization (GO:0032252)|synapse organization (GO:0050808)|synaptic transmission (GO:0007268)|transport (GO:0006810)|vesicle transport along actin filament (GO:0030050)|vesicle-mediated transport (GO:0016192)|visual perception (GO:0007601)	actomyosin (GO:0042641)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|filopodium tip (GO:0032433)|Golgi apparatus (GO:0005794)|growth cone (GO:0030426)|insulin-responsive compartment (GO:0032593)|intermediate filament (GO:0005882)|melanosome (GO:0042470)|membrane (GO:0016020)|microtubule plus-end (GO:0035371)|myosin complex (GO:0016459)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|photoreceptor outer segment (GO:0001750)|ruffle (GO:0001726)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|microfilament motor activity (GO:0000146)|poly(A) RNA binding (GO:0044822)|Rab GTPase binding (GO:0017137)			breast(4)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(7)|large_intestine(12)|lung(19)|ovary(3)|skin(3)|stomach(1)	57				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		ACTCATTAACTGGAGTATACA	0.348																																																0													88	81	83					15																	52606371		1810	4082	5892	SO:0001819	synonymous_variant	4644				CCDS42037.1, CCDS45262.1	15q21	2014-09-17	2006-09-29		ENSG00000197535	ENSG00000197535		"Myosins / Myosin superfamily : Class V"	7602	protein-coding gene	gene with protein product	"myosin, heavy polypeptide kinase", "myosin heavy chain 12", "myoxin", "myosin V"	160777	"myosin VA (heavy polypeptide 12, myoxin)"	MYH12		8188282, 8022818	Standard	NM_000259		Approved	MYO5, GS1, MYR12	uc002aby.2	Q9Y4I1	OTTHUMG00000137383	ENST00000399231.3:c.5364A>G	15.37:g.52606371T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8MZC5|O60653|Q07902|Q16249|Q9UE30|Q9UE31	Silent	SNP	ENST00000399231.3	37	CCDS42037.1																																																																																				0.348	MYO5A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000268102.1	NM_000259		C	52606371	T	C	52606371	2	2	600	1	0	0	0	0	0	0	0	1	10085	1567	55	3		3	MYO5A	15	52606371	Silent	SNP	T	TCGA-GL-8500-01A-11D-2396-08	11945285	52606371	49925021	87	36007										
SRRM2	23524	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	2812806	2812806	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	cgcatttcttcaaggcggagCaggtctctctcttcaccacg	9	14	5	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr16:2812806C>G	ENST00000301740.8	+	11	2826	c.2277C>G	c.(2275-2277)agC>agG	p.S759R		NM_016333.3	NP_057417.3	Q9UQ35	SRRM2_HUMAN	serine/arginine repetitive matrix 2	759	Arg-rich.|Ser-rich.				mRNA splicing, via spliceosome (GO:0000398)	Cajal body (GO:0015030)|catalytic step 2 spliceosome (GO:0071013)|nuclear speck (GO:0016607)|nucleus (GO:0005634)	C2H2 zinc finger domain binding (GO:0070742)|poly(A) RNA binding (GO:0044822)|protein N-terminus binding (GO:0047485)			breast(3)|central_nervous_system(1)|cervix(3)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(20)|lung(34)|ovary(6)|pancreas(3)|prostate(2)|skin(6)|upper_aerodigestive_tract(3)|urinary_tract(7)	105						CAAGGCGGAGCAGGTCTCTCT	0.473																																																0													119	123	122					16																	2812806		2198	4300	6498	SO:0001583	missense	23524			AF201422	CCDS32373.1	16p13.3	2012-07-02			ENSG00000167978	ENSG00000167978			16639	protein-coding gene	gene with protein product		606032				10668804, 11004489	Standard	NM_016333		Approved	SRm300, SRL300, KIAA0324, Cwc21	uc002crk.3	Q9UQ35	OTTHUMG00000177358	ENST00000301740.8:c.2277C>G	16.37:g.2812806C>G	ENSP00000301740:p.Ser759Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB9|D3DU97|O15038|O94803|Q6NSL3|Q6PIM3|Q6PK40|Q8IW17|Q96GY7|Q9P0G1|Q9UHA8|Q9UQ36|Q9UQ37|Q9UQ38|Q9UQ40	Missense_Mutation	SNP	ENST00000301740.8	37	CCDS32373.1	.	.	.	.	.	.	.	.	.	.	C	8.634	0.894431	0.17613	.	.	ENSG00000167978	ENST00000301740;ENST00000382301;ENST00000544933;ENST00000426305	T	0.26373	1.74	5.62	4.67	0.58626	.	0.000000	0.85682	D	0.000000	T	0.32526	0.0832	L	0.27053	0.805	0.33222	D	0.554776	D	0.65815	0.995	P	0.59115	0.852	T	0.48747	-0.9008	10	0.87932	D	0	-13.5853	12.4668	0.55764	0.0:0.9183:0.0:0.0817	.	759	Q9UQ35	SRRM2_HUMAN	R	759;759;11;724	ENSP00000301740:S759R	ENSP00000301740:S759R	S	+	3	2	SRRM2	2752807	0.982000	0.34865	1.000000	0.80357	0.796000	0.44982	0.846000	0.27682	1.367000	0.46095	0.655000	0.94253	AGC		0.473	SRRM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000436411.1			G	2812806	C	G	2812806	3	3	600	1	0	0	0	0	1	0	0	0	15181	709	25	4	2315	4	SRRM2	16	2812806	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08		2812806	87541947	88	36008										
PRKCB	5579	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	23848699	23848699	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tccttctgcttttgcaggggCttcgggaagcagggattcca	13	10	1	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr16:23848699C>T	ENST00000321728.7	+	2	352	c.177C>T	c.(175-177)ggC>ggT	p.G59G	PRKCB_ENST00000498058.1_Intron|PRKCB_ENST00000303531.7_Silent_p.G59G	NM_212535.2	NP_997700.1	P05771	KPCB_HUMAN	protein kinase C, beta	59					apoptotic process (GO:0006915)|B cell activation (GO:0042113)|B cell receptor signaling pathway (GO:0050853)|blood coagulation (GO:0007596)|calcium ion transport (GO:0006816)|cellular calcium ion homeostasis (GO:0006874)|cellular response to carbohydrate stimulus (GO:0071322)|histone H3-T6 phosphorylation (GO:0035408)|intracellular signal transduction (GO:0035556)|lipoprotein transport (GO:0042953)|negative regulation of glucose transport (GO:0010829)|negative regulation of insulin receptor signaling pathway (GO:0046627)|platelet activation (GO:0030168)|positive regulation of angiogenesis (GO:0045766)|positive regulation of B cell receptor signaling pathway (GO:0050861)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030949)|protein phosphorylation (GO:0006468)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	androgen receptor binding (GO:0050681)|ATP binding (GO:0005524)|calcium channel regulator activity (GO:0005246)|chromatin binding (GO:0003682)|histone binding (GO:0042393)|histone kinase activity (H3-T6 specific) (GO:0035403)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|protein kinase C activity (GO:0004697)|protein kinase C binding (GO:0005080)|protein serine/threonine kinase activity (GO:0004674)|zinc ion binding (GO:0008270)			central_nervous_system(3)|large_intestine(1)|lung(2)|ovary(3)	9					Tamoxifen(DB00675)|Vitamin E(DB00163)	TTTGCAGGGGCTTCGGGAAGC	0.552																																																0													113	123	120					16																	23848699		2197	4300	6497	SO:0001819	synonymous_variant	5579			M13975	CCDS10618.1, CCDS10619.1	16p12	2009-07-10	2008-08-18	2008-08-18	ENSG00000166501	ENSG00000166501	2.7.11.1		9395	protein-coding gene	gene with protein product		176970	"protein kinase C, beta 1"	PRKCB2, PKCB, PRKCB1		3658678	Standard	NM_002738		Approved		uc002dme.3	P05771	OTTHUMG00000131615	ENST00000321728.7:c.177C>T	16.37:g.23848699C>T		Somatic		WXS	Illumina HiSeq	Phase_I	C5IFJ8|D3DWF5|O43744|P05127|Q15138|Q93060|Q9UE49|Q9UE50|Q9UEH8|Q9UJ30|Q9UJ33	Silent	SNP	ENST00000321728.7	37	CCDS10618.1																																																																																				0.552	PRKCB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254504.2	NM_212535		T	23848699	C	T	23848699	2	4	600	1	0	0	0	0	0	0	0	1	12518	784	28	2		2	PRKCB	16	23848699	Silent	SNP	C	TCGA-GL-8500-01A-11D-2396-08	21035893	23848699	66506054	89	36009										
ZNF48	197407	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	30408740	30408740	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ggttcaaggaagaagatttgGctccagatcatgaagtagga	13	5	2	4			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr16:30408740G>C	ENST00000320159.2	+	2	545	c.169G>C	c.(169-171)Gct>Cct	p.A57P	SEPT1_ENST00000570039.1_5'Flank	NM_001214906.1|NM_001214907.1|NM_001214909.1|NM_152652.2	NP_001201835.1|NP_001201836.1|NP_001201838.1|NP_689865.2	Q96MX3	ZNF48_HUMAN	zinc finger protein 48	57					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(11)|ovary(2)|pancreas(1)|skin(1)	21						AGAAGATTTGGCTCCAGATCA	0.488																																																0													117	119	119					16																	30408740		2197	4300	6497	SO:0001583	missense	197407			M88358, AK056313	CCDS10679.1, CCDS73868.1	16p11.2	2013-01-08			ENSG00000180035	ENSG00000180035		"Zinc fingers, C2H2-type"	13114	protein-coding gene	gene with protein product			"zinc finger protein 553"	ZNF553		1505991	Standard	NM_152652		Approved	DKFZp762K013, FLJ31751, MGC43952	uc021tgi.1	Q96MX3	OTTHUMG00000048195	ENST00000320159.2:c.169G>C	16.37:g.30408740G>C	ENSP00000324056:p.Ala57Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q15920|Q4G0R3|Q69YP3|Q96IL9	Missense_Mutation	SNP	ENST00000320159.2	37	CCDS10679.1	.	.	.	.	.	.	.	.	.	.	G	9.037	0.988666	0.18966	.	.	ENSG00000180035	ENST00000495929;ENST00000528032;ENST00000524644;ENST00000320159	T;T;T	0.08193	3.42;3.35;3.12	4.61	0.489	0.16854	.	2.071660	0.02505	N	0.090916	T	0.07188	0.0182	N	0.19112	0.55	0.09310	N	1	B	0.22604	0.072	B	0.17433	0.018	T	0.39165	-0.9627	10	0.72032	D	0.01	-5.4461	7.1767	0.25749	0.4784:0.0:0.5216:0.0	.	57	Q96MX3	ZNF48_HUMAN	P	182;57;57;57	ENSP00000435674:A57P;ENSP00000432548:A57P;ENSP00000324056:A57P	ENSP00000324056:A57P	A	+	1	0	ZNF48	30316241	0.815000	0.29118	0.000000	0.03702	0.905000	0.53344	0.926000	0.28804	0.031000	0.15407	-0.251000	0.11542	GCT		0.488	ZNF48-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255549.2	NM_152652		C	30408740	G	C	30408740	3	2	600	1	0	0	0	0	1	0	0	0	17946	1203	42	4	175	4	ZNF48	16	30408740	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08	6560041	30408740	59946013	90	36010										
ZC3H18	124245	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	88653085	88653085	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	cgtcccacctgccggttcttCatgaaaggtaattgtctgcg	10	12	3	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr16:88653085C>T	ENST00000301011.5	+	3	881	c.681C>T	c.(679-681)ttC>ttT	p.F227F	ZC3H18_ENST00000452588.2_Silent_p.F227F	NM_144604.3	NP_653205.3	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	227						nucleus (GO:0005634)	metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(9)|lung(16)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	42				BRCA - Breast invasive adenocarcinoma(80;0.0542)		GCCGGTTCTTCATGAAAGGTA	0.587																																					Ovarian(121;375 2276 20373 38669)											0													112	88	96					16																	88653085		2198	4300	6498	SO:0001819	synonymous_variant	124245			BC001584	CCDS10967.1, CCDS73924.1	16q24.2-q24.3	2012-07-05			ENSG00000158545	ENSG00000158545		"Zinc fingers, CCCH-type domain containing"	25091	protein-coding gene	gene with protein product						17579712	Standard	NM_144604		Approved	NHN1	uc002fky.3	Q86VM9	OTTHUMG00000137679	ENST00000301011.5:c.681C>T	16.37:g.88653085C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q96DG4|Q96MP7	Silent	SNP	ENST00000301011.5	37	CCDS10967.1																																																																																				0.587	ZC3H18-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000269168.1	NM_144604		T	88653085	C	T	88653085	2	4	600	1	0	0	0	0	0	0	0	1	17580	825	29	2		2	ZC3H18	16	88653085	Silent	SNP	C	TCGA-GL-8500-01A-11D-2396-08	58244345	88653085	1701668	91	36011										
SAT2	112483	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	7530935	7530935	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gtctccctccttggcctctcGgatccgcacggaagccatcc	9	18	2	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr17:7530935G>A	ENST00000269298.5	-	1	238	c.19C>T	c.(19-21)Cga>Tga	p.R7*	SHBG_ENST00000576478.1_Intron|SHBG_ENST00000576728.1_Intron|SHBG_ENST00000572182.1_Intron|SHBG_ENST00000575314.1_Intron|SHBG_ENST00000572262.1_Intron|SHBG_ENST00000340624.5_5'Flank|SHBG_ENST00000416273.3_5'Flank|SAT2_ENST00000573566.1_Nonsense_Mutation_p.R7*|SAT2_ENST00000380466.2_5'UTR|SHBG_ENST00000575903.1_5'Flank|SHBG_ENST00000441599.2_5'Flank|SHBG_ENST00000380450.4_5'Flank|SHBG_ENST00000570547.1_Intron|SHBG_ENST00000574539.1_Intron	NM_133491.3	NP_597998.1	Q96F10	SAT2_HUMAN	spermidine/spermine N1-acetyltransferase family member 2	7	N-acetyltransferase. {ECO:0000255|PROSITE-ProRule:PRU00532}.				nor-spermidine metabolic process (GO:0046204)|putrescine acetylation (GO:0032920)|putrescine catabolic process (GO:0009447)|spermidine acetylation (GO:0032918)|spermine acetylation (GO:0032919)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	diamine N-acetyltransferase activity (GO:0004145)	p.?(1)		kidney(1)|large_intestine(2)	3				READ - Rectum adenocarcinoma(115;0.166)	Spermine(DB00127)	TTGGCCTCTCGGATCCGCACG	0.632																																																1	Unknown(1)	haematopoietic_and_lymphoid_tissue(1)											50	45	47					17																	7530935		2203	4300	6503	SO:0001587	stop_gained	112483			AF348524	CCDS11116.1	17p13.2	2011-11-16	2008-01-07		ENSG00000141504	ENSG00000141504	2.3.1.57		23160	protein-coding gene	gene with protein product	"diamine N-acetyltransferase 2"	611463	"spermidine/spermine N1-acetyltransferase 2"			15283699, 17558023	Standard	NM_133491		Approved	SSAT2	uc002gic.2	Q96F10	OTTHUMG00000108152	ENST00000269298.5:c.19C>T	17.37:g.7530935G>A	ENSP00000269298:p.Arg7*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000269298.5	37	CCDS11116.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	37|37	6.441041|6.441041	0.97568|0.97568	.|.	.|.	ENSG00000141504|ENSG00000141504	ENST00000380466|ENST00000269298	.|.	.|.	.|.	4.71|4.71	4.71|4.71	0.59529|0.59529	.|.	0.000000|.	0.31963|.	U|.	0.006786|.	T|.	0.34658|.	0.0905|.	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	T|.	0.15752|.	-1.0426|.	6|.	0.72032|0.02654	D|T	0.01|1	-13.2823|-13.2823	13.0369|13.0369	0.58877|0.58877	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|.	.|.	.|.	L|X	80|7	.|.	ENSP00000369833:P80L|ENSP00000269298:R7X	P|R	-|-	2|1	0|2	SAT2|SAT2	7471660|7471660	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.852000|0.852000	0.48524|0.48524	3.025000|3.025000	0.49681|0.49681	2.453000|2.453000	0.82957|0.82957	0.655000|0.655000	0.94253|0.94253	CCG|CGA		0.632	SAT2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440078.1	NM_133491		A	7530935	G	A	7530935	4	1	600	1	0	0	0	0	0	1	0	0	13865	1124	39	1	517	1	SAT2	17	7530935	Nonsense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08		7530935	73664275	92	36012										
KDM6B	23135	hgsc.bcm.edu	37	chr17	7750183	7750183	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gcctccaccaccattaccacCaccaccaccaccaccaccac	1	25	0	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr17:7750183C>T	ENST00000448097.2	+	9	1089	c.758C>T	c.(757-759)cCa>cTa	p.P253L	KDM6B_ENST00000254846.5_Missense_Mutation_p.P253L			O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	253	Pro-rich.			Missing (in Ref. 1; BAA21572 and 3; AAH09994). {ECO:0000305}.	cardiac muscle cell differentiation (GO:0055007)|cellular response to hydrogen peroxide (GO:0070301)|endothelial cell differentiation (GO:0045446)|inflammatory response (GO:0006954)|mesodermal cell differentiation (GO:0048333)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)	dioxygenase activity (GO:0051213)|histone demethylase activity (H3-K27 specific) (GO:0071558)|metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)			central_nervous_system(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(3)|lung(18)|ovary(1)|pancreas(1)|skin(5)	37						ccattaccaccaccaccacca	0.607																																																0													26	24	25					17																	7750183		2194	4283	6477	SO:0001583	missense	23135			AB002344	CCDS32552.1	17p13.1	2011-07-01	2009-04-17	2009-04-17		ENSG00000132510		"Chromatin-modifying enzymes / K-demethylases"	29012	protein-coding gene	gene with protein product		611577	"jumonji domain containing 3", "jumonji domain containing 3, histone lysine demethylase"	JMJD3		10662545, 9205841	Standard	NM_001080424		Approved	KIAA0346	uc002giw.1	O15054		ENST00000448097.2:c.758C>T	17.37:g.7750183C>T	ENSP00000412513:p.Pro253Leu	Somatic		WXS	Illumina HiSeq	Phase_I	C9IZ40|Q96G33	Missense_Mutation	SNP	ENST00000448097.2	37		.	.	.	.	.	.	.	.	.	.	C	5.495	0.276381	0.10403	.	.	ENSG00000132510	ENST00000254846;ENST00000448097	T;T	0.29397	1.57;1.58	0.584	0.584	0.17422	.	0.532596	0.13901	U	0.354930	T	0.27967	0.0689	N	0.08118	0	0.36960	D	0.893296	P	0.51449	0.945	P	0.59056	0.851	T	0.38542	-0.9656	9	0.62326	D	0.03	.	.	.	.	.	253	O15054-1	.	L	253	ENSP00000254846:P253L;ENSP00000412513:P253L	ENSP00000254846:P253L	P	+	2	0	KDM6B	7690908	0.624000	0.27102	0.831000	0.32960	0.645000	0.38454	0.207000	0.17395	0.612000	0.30071	0.089000	0.15464	CCA		0.607	KDM6B-002	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000440248.1	XM_043272		T	7750183	C	T	7750183	3	4	600	1	0	0	0	0	1	0	0	0	8145	594	21	2	780	2	KDM6B	17	7750183	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	219248	7750183	73445027	93	36013										
KDM6B	23135	hgsc.bcm.edu	37	chr17	7750211	7750211	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ccaccaccaccaccaccaccAccacccctgcctggcctggc	5	25	0	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr17:7750211A>C	ENST00000448097.2	+	9	1117	c.786A>C	c.(784-786)ccA>ccC	p.P262P	KDM6B_ENST00000254846.5_Silent_p.P262P			O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	262	Pro-rich.				cardiac muscle cell differentiation (GO:0055007)|cellular response to hydrogen peroxide (GO:0070301)|endothelial cell differentiation (GO:0045446)|inflammatory response (GO:0006954)|mesodermal cell differentiation (GO:0048333)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)	dioxygenase activity (GO:0051213)|histone demethylase activity (H3-K27 specific) (GO:0071558)|metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)			central_nervous_system(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(3)|lung(18)|ovary(1)|pancreas(1)|skin(5)	37						caccaccaccaccaccCCTGC	0.632																																																0													13	14	13					17																	7750211		2187	4288	6475	SO:0001819	synonymous_variant	23135			AB002344	CCDS32552.1	17p13.1	2011-07-01	2009-04-17	2009-04-17		ENSG00000132510		"Chromatin-modifying enzymes / K-demethylases"	29012	protein-coding gene	gene with protein product		611577	"jumonji domain containing 3", "jumonji domain containing 3, histone lysine demethylase"	JMJD3		10662545, 9205841	Standard	NM_001080424		Approved	KIAA0346	uc002giw.1	O15054		ENST00000448097.2:c.786A>C	17.37:g.7750211A>C		Somatic		WXS	Illumina HiSeq	Phase_I	C9IZ40|Q96G33	Silent	SNP	ENST00000448097.2	37																																																																																					0.632	KDM6B-002	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000440248.1	XM_043272		C	7750211	A	C	7750211	2	2	600	1	0	0	0	0	0	0	0	1	8145	146	6	5		5	KDM6B	17	7750211	Silent	SNP	A	TCGA-GL-8500-01A-11D-2396-08	28	7750211	73444999	94	36014										
TOP3A	7156	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	18181411	18181411	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tgctttcaccagcagccgtgGgtggtgggagggtctgggcc	18	10	2	0	rs201017469		TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr17:18181411G>A	ENST00000321105.5	-	18	2619	c.2405C>T	c.(2404-2406)cCc>cTc	p.P802L	TOP3A_ENST00000540524.1_Missense_Mutation_p.P332L|TOP3A_ENST00000542570.1_Missense_Mutation_p.P707L	NM_004618.3	NP_004609.1	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	802					DNA topological change (GO:0006265)|meiotic nuclear division (GO:0007126)	chromosome (GO:0005694)|nucleus (GO:0005634)|PML body (GO:0016605)	DNA binding (GO:0003677)|DNA topoisomerase type I activity (GO:0003917)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|kidney(1)|large_intestine(7)|lung(15)|ovary(1)|skin(6)|stomach(2)|urinary_tract(1)	36						AGCAGCCGTGGGTGGTGGGAG	0.627													G|||	1	0.000199681	0.0	0.0	5008	,	,		16717	0.001		0.0	False		,,,				2504	0.0															0													57	61	60					17																	18181411		2203	4300	6503	SO:0001583	missense	7156			U43431	CCDS11194.1	17p12-p11.2	2014-02-18			ENSG00000177302	ENSG00000177302			11992	protein-coding gene	gene with protein product	"zinc finger, GRF-type containing 7"	601243		TOP3		9450867	Standard	NM_004618		Approved	ZGRF7	uc002gsx.1	Q13472	OTTHUMG00000059391	ENST00000321105.5:c.2405C>T	17.37:g.18181411G>A	ENSP00000321636:p.Pro802Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA61|B4DK80|D3DXC7|Q13473	Missense_Mutation	SNP	ENST00000321105.5	37	CCDS11194.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	G	4.844	0.156908	0.09236	.	.	ENSG00000177302	ENST00000321105;ENST00000540524;ENST00000542570	T;T;T	0.12039	3.12;2.72;3.12	5.55	4.55	0.56014	.	0.389850	0.31404	N	0.007707	T	0.12902	0.0313	L	0.40543	1.245	0.18873	N	0.999988	B;B	0.25441	0.014;0.126	B;B	0.15484	0.005;0.013	T	0.11792	-1.0573	10	0.40728	T	0.16	-15.0687	15.7664	0.78128	0.0:0.0:0.863:0.1369	.	707;802	B4DK80;Q13472	.;TOP3A_HUMAN	L	802;332;707	ENSP00000321636:P802L;ENSP00000446425:P332L;ENSP00000442336:P707L	ENSP00000321636:P802L	P	-	2	0	TOP3A	18122136	0.030000	0.19436	0.015000	0.15790	0.233000	0.25261	2.238000	0.43070	2.621000	0.88768	0.549000	0.68633	CCC		0.627	TOP3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132052.2			A	18181411	G	A	18181411	3	1	600	1	0	0	0	0	1	0	0	0	16379	1232	43	2	608	2	TOP3A	17	18181411	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08	10431200	18181411	63013799	95	36015										
GPS1	2873	hgsc.bcm.edu	37	chr17	80011903	80011903	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	acatgtacgaggagatccacCgcaagctctcagaggccacc	10	14	1	2	rs199969665		TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr17:80011903C>A	ENST00000306823.6	+	3	309	c.286C>A	c.(286-288)Cgc>Agc	p.R96S	GPS1_ENST00000355130.2_Missense_Mutation_p.R136S|RFNG_ENST00000310496.4_5'Flank|GPS1_ENST00000578552.1_Missense_Mutation_p.R96S|GPS1_ENST00000320548.4_Missense_Mutation_p.R80S|RFNG_ENST00000429557.3_5'Flank|GPS1_ENST00000392358.2_Missense_Mutation_p.R136S			Q13098	CSN1_HUMAN	G protein pathway suppressor 1	96					cell cycle (GO:0007049)|cullin deneddylation (GO:0010388)|inactivation of MAPK activity (GO:0000188)|JNK cascade (GO:0007254)	COP9 signalosome (GO:0008180)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	GTPase inhibitor activity (GO:0005095)			breast(1)|central_nervous_system(1)|endometrium(3)|liver(1)|lung(4)|prostate(1)|skin(2)	13	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			GGAGATCCACCGCAAGCTCTC	0.632																																																0													46	36	40					17																	80011903		2200	4295	6495	SO:0001583	missense	2873				CCDS11800.1, CCDS32774.1	17q25.3	2013-03-14				ENSG00000169727			4549	protein-coding gene	gene with protein product	"COP9 signalosome subunit 1"	601934				9535219	Standard	NM_212492		Approved	COPS1, CSN1	uc002kdl.1	Q13098		ENST00000306823.6:c.286C>A	17.37:g.80011903C>A	ENSP00000302873:p.Arg96Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NA10|Q9BWL1	Missense_Mutation	SNP	ENST00000306823.6	37	CCDS32774.1	.	.	.	.	.	.	.	.	.	.	C	13.71	2.318714	0.41096	.	.	ENSG00000169727	ENST00000392358;ENST00000306823;ENST00000355130	.	.	.	4.61	3.63	0.41609	.	.	.	.	.	T	0.40546	0.1121	N	0.19112	0.55	0.58432	D	0.999996	B;P;B;P;P	0.49358	0.005;0.874;0.009;0.577;0.923	B;B;B;B;P	0.45276	0.014;0.283;0.031;0.137;0.475	T	0.18209	-1.0344	8	0.31617	T	0.26	.	12.9552	0.58424	0.3093:0.6907:0.0:0.0	.	88;136;96;96;136	B4DND6;A8K070;Q13098-5;Q13098;Q13098-7	.;.;.;CSN1_HUMAN;.	S	136;96;136	.	ENSP00000302873:R96S	R	+	1	0	GPS1	77605192	1.000000	0.71417	0.997000	0.53966	0.904000	0.53231	4.408000	0.59761	1.126000	0.42016	0.563000	0.77884	CGC		0.632	GPS1-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000442176.1	NM_212492		A	80011903	C	A	80011903	3	1	600	1	0	0	0	0	1	0	0	0	6739	652	23	4	453	4	GPS1	17	80011903	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	61830492	80011903	1183307	96	36016										
MRO	83876	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	48331527	48331527	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ttttctgatttacttacgtcAtctaataaagtcctggtctg	6	8	4	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr18:48331527A>G	ENST00000428869.2	-	6	684	c.426T>C	c.(424-426)gaT>gaC	p.D142D	MRO_ENST00000431965.2_Silent_p.D156D|MRO_ENST00000588444.1_Silent_p.D142D|MRO_ENST00000587291.1_5'UTR|MRO_ENST00000256425.2_Silent_p.D142D|MRO_ENST00000436348.2_Silent_p.D156D|MRO_ENST00000398439.3_Silent_p.D142D			Q9BYG7	MSTRO_HUMAN	maestro	142						nucleolus (GO:0005730)				breast(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|prostate(2)|skin(2)	10		Colorectal(6;0.0596)		Colorectal(21;0.082)		TACTTACGTCATCTAATAAAG	0.448																																																0													85	81	82					18																	48331527		2203	4300	6503	SO:0001819	synonymous_variant	83876			AK054702	CCDS11947.1, CCDS45867.1, CCDS45868.1, CCDS45869.1	18q21	2012-12-19	2004-06-15		ENSG00000134042	ENSG00000134042		"maestro heat-like repeat containing"	24121	protein-coding gene	gene with protein product	"B29 protein", "beside the Ma29 deletion"	608080	"chromosome 18 open reading frame 3"	C18orf3		11401430	Standard	NM_031939		Approved	B29, FLJ30140	uc010dpa.3	Q9BYG7	OTTHUMG00000132692	ENST00000428869.2:c.426T>C	18.37:g.48331527A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2I5|B7Z3B2|E9PAT5|E9PBI3|K7EKJ8|Q8N6K5	Silent	SNP	ENST00000428869.2	37	CCDS11947.1																																																																																				0.448	MRO-003	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449478.2	NM_031939		G	48331527	A	G	48331527	2	3	600	1	0	0	0	0	0	0	0	1	9779	214	8	3		3	MRO	18	48331527	Silent	SNP	A	TCGA-GL-8500-01A-11D-2396-08		48331527	29745721	97	36017										
NEDD4L	23327	hgsc.bcm.edu	37	chr18	56056373	56056373	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gactggagacagcattctatTtacaagaacggctactgccc	9	11	1	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr18:56056373T>C	ENST00000400345.3	+	28	2887	c.2604T>C	c.(2602-2604)atT>atC	p.I868I	NEDD4L_ENST00000586263.1_Silent_p.I840I|NEDD4L_ENST00000256830.9_Silent_p.I764I|NEDD4L_ENST00000356462.6_Silent_p.I804I|NEDD4L_ENST00000256832.7_Silent_p.I728I|NEDD4L_ENST00000435432.2_Silent_p.I727I|NEDD4L_ENST00000589054.1_Intron|NEDD4L_ENST00000456986.1_Silent_p.I747I|NEDD4L_ENST00000456173.2_Silent_p.I727I|NEDD4L_ENST00000357895.5_Silent_p.I860I|NEDD4L_ENST00000431212.2_Silent_p.I747I|NEDD4L_ENST00000382850.4_Silent_p.I848I	NM_001144967.2	NP_001138439.1	Q96PU5	NED4L_HUMAN	neural precursor cell expressed, developmentally down-regulated 4-like, E3 ubiquitin protein ligase	868	HECT. {ECO:0000255|PROSITE- ProRule:PRU00104}.				cellular sodium ion homeostasis (GO:0006883)|excretion (GO:0007588)|gene expression (GO:0010467)|ion transmembrane transport (GO:0034220)|negative regulation of potassium ion transmembrane transport (GO:1901380)|negative regulation of potassium ion transmembrane transporter activity (GO:1901017)|negative regulation of protein localization to cell surface (GO:2000009)|negative regulation of sodium ion transmembrane transport (GO:1902306)|negative regulation of sodium ion transmembrane transporter activity (GO:2000650)|negative regulation of systemic arterial blood pressure (GO:0003085)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|positive regulation of cation channel activity (GO:2001259)|positive regulation of caveolin-mediated endocytosis (GO:2001288)|positive regulation of endocytosis (GO:0045807)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of sodium ion transport (GO:0010765)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein K48-linked ubiquitination (GO:0070936)|protein monoubiquitination (GO:0006513)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|regulation of ion transmembrane transport (GO:0034765)|regulation of membrane depolarization (GO:0003254)|regulation of membrane potential (GO:0042391)|regulation of membrane repolarization (GO:0060306)|regulation of potassium ion transmembrane transporter activity (GO:1901016)|regulation of protein catabolic process (GO:0042176)|regulation of tight junction assembly (GO:2000810)|response to metal ion (GO:0010038)|response to salt stress (GO:0009651)|sodium ion transport (GO:0006814)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|transmembrane transport (GO:0055085)|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway (GO:0043162)|ventricular cardiac muscle cell action potential (GO:0086005)|viral life cycle (GO:0019058)|viral process (GO:0016032)|water homeostasis (GO:0030104)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ion channel binding (GO:0044325)|ligase activity (GO:0016874)|potassium channel inhibitor activity (GO:0019870)|potassium channel regulator activity (GO:0015459)|sodium channel inhibitor activity (GO:0019871)|sodium channel regulator activity (GO:0017080)|ubiquitin-protein transferase activity (GO:0004842)			breast(1)|endometrium(7)|kidney(3)|large_intestine(10)|lung(11)|ovary(1)|prostate(4)	37						AGCATTCTATTTACAAGAACG	0.522																																																0													89	89	89					18																	56056373		1976	4155	6131	SO:0001819	synonymous_variant	23327			AF210730	CCDS45872.1, CCDS45873.1, CCDS45874.1, CCDS45875.1, CCDS45876.1, CCDS58632.1, CCDS59323.1	18q21.31	2014-08-12	2012-02-23		ENSG00000049759				7728	protein-coding gene	gene with protein product		606384	"neural precursor cell expressed, developmentally down-regulated 4-like"			10594025, 11244092, 18322022	Standard	NM_001144965		Approved	KIAA0439, RSP5, NEDD4-2	uc002lgy.3	Q96PU5	OTTHUMG00000179875	ENST00000400345.3:c.2604T>C	18.37:g.56056373T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O43165|Q3LSM7|Q7Z5F1|Q7Z5F2|Q7Z5N3|Q8N5A7|Q8WUU9|Q9BW58|Q9H2W4|Q9NT88	Silent	SNP	ENST00000400345.3	37	CCDS45872.1																																																																																				0.522	NEDD4L-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000448749.1			C	56056373	T	C	56056373	2	2	600	1	0	0	0	0	0	0	0	1	10318	1829	64	3		3	NEDD4L	18	56056373	Silent	SNP	T	TCGA-GL-8500-01A-11D-2396-08	7724846	56056373	22020875	98	36018										
LINGO3	645191	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	2290213	2290213	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	aggatggtggtgaggtcgagCggcgcgcgcagggccgccag	21	10	0	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr19:2290213C>T	ENST00000585527.1	-	1	1810	c.1563G>A	c.(1561-1563)ccG>ccA	p.P521P	LINGO3_ENST00000404279.1_Silent_p.P521P			P0C6S8	LIGO3_HUMAN	leucine rich repeat and Ig domain containing 3	521						integral component of membrane (GO:0016021)				lung(1)|urinary_tract(1)	2						TGAGGTCGAGCGGCGCGCGCA	0.706																																																0													20	25	24					19																	2290213		2039	4177	6216	SO:0001819	synonymous_variant	645191			AK091795	CCDS45905.1	19p13.3	2013-01-11	2007-02-01	2007-02-01		ENSG00000220008		"Immunoglobulin superfamily / I-set domain containing"	21206	protein-coding gene	gene with protein product		609792	"leucine rich repeat neuronal 6B"	LRRN6B		14686891	Standard	NM_001101391		Approved	LERN2	uc010dsx.1	P0C6S8		ENST00000585527.1:c.1563G>A	19.37:g.2290213C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000585527.1	37	CCDS45905.1																																																																																				0.706	LINGO3-001	KNOWN	upstream_ATG|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000451291.2	NM_001101391		T	2290213	C	T	2290213	2	4	600	1	0	0	0	0	0	0	0	1	8823	755	27	1		1	LINGO3	19	2290213	Silent	SNP	C	TCGA-GL-8500-01A-11D-2396-08		2290213	56838770	99	36019										
ZNF557	79230	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	7075688	7075688	+	Splice_Site	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ctgtcttccctgttcccagcCtctcagcgagaaggacacac	8	16	2	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr19:7075688C>G	ENST00000439035.2	+	4	273	c.33C>G	c.(31-33)gcC>gcG	p.A11A	ZNF557_ENST00000252840.6_Silent_p.A18A|ZNF557_ENST00000414706.1_Silent_p.A18A			Q8N988	ZN557_HUMAN	zinc finger protein 557	11					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(6)|large_intestine(1)|lung(5)|ovary(1)|pancreas(1)|skin(1)|stomach(1)|urinary_tract(1)	17				Lung(535;0.179)		TGTTCCCAGCCTCTCAGCGAG	0.532																																																0													132	139	136					19																	7075688		2203	4300	6503	SO:0001630	splice_region_variant	79230			AK095524	CCDS42485.1, CCDS45945.1	19p13.2	2013-09-20			ENSG00000130544	ENSG00000130544		"Zinc fingers, C2H2-type", "-"	28632	protein-coding gene	gene with protein product						12477932	Standard	NM_024341		Approved	MGC4054	uc002mgc.3	Q8N988	OTTHUMG00000181977	ENST00000439035.2:c.32-1C>G	19.37:g.7075688C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6PEJ3|Q9BTZ1	Silent	SNP	ENST00000439035.2	37	CCDS45945.1																																																																																				0.532	ZNF557-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000458502.1	NM_024341	Silent	G	7075688	C	G	7075688	5	3	600	1	0	0	0	0	0	0	1	0	18000	695	24	4	60	4	ZNF557	19	7075688	Splice_Site	SNP	C	TCGA-GL-8500-01A-11D-2396-08	4785475	7075688	52053295	100	36020										
CTXN1	404217	hgsc.bcm.edu	37	chr19	7990272	7990272	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tgtaggggtcgagcaggatgCgcacgcagcgcaccatcaac	14	12	1	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr19:7990272C>T	ENST00000318978.4	-	2	371	c.152G>A	c.(151-153)cGc>cAc	p.R51H	CTD-3193O13.8_ENST00000594308.1_RNA|TIMM44_ENST00000598968.1_5'Flank	NM_206833.3	NP_996664.1	P60606	CTXN1_HUMAN	cortexin 1	51						integral component of membrane (GO:0016021)				ovary(1)	1						GAGCAGGATGCGCACGCAGCG	0.701																																																0													21	22	22					19																	7990272		2178	4290	6468	SO:0001583	missense	404217			AK098834	CCDS12191.1	19p13.2	2012-10-02			ENSG00000178531	ENSG00000178531			31108	protein-coding gene	gene with protein product		600135					Standard	NM_206833		Approved	FLJ25968	uc002miy.4	P60606		ENST00000318978.4:c.152G>A	19.37:g.7990272C>T	ENSP00000313226:p.Arg51His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000318978.4	37	CCDS12191.1	.	.	.	.	.	.	.	.	.	.	C	35	5.551234	0.96501	.	.	ENSG00000178531	ENST00000318978	T	0.39592	1.07	4.36	4.36	0.52297	.	0.000000	0.85682	D	0.000000	T	0.64789	0.2630	.	.	.	0.80722	D	1	D	0.76494	0.999	D	0.79784	0.993	T	0.70722	-0.4794	9	0.87932	D	0	-4.8528	14.8225	0.70085	0.0:1.0:0.0:0.0	.	51	P60606	CTXN1_HUMAN	H	51	ENSP00000313226:R51H	ENSP00000313226:R51H	R	-	2	0	CTXN1	7896272	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.412000	0.80091	2.167000	0.68274	0.442000	0.29010	CGC		0.701	CTXN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000461614.1			T	7990272	C	T	7990272	3	4	600	1	0	0	0	0	1	0	0	0	4051	768	27	1	100	1	CTXN1	19	7990272	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	914584	7990272	51138711	101	36021										
CACNA1A	773	hgsc.bcm.edu	37	chr19	13318726	13318726	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ctgctgcgggggccccgagcCgccggccttacggatcacag	15	16	1	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr19:13318726C>T	ENST00000360228.5	-	47	6921	c.6922G>A	c.(6922-6924)Ggc>Agc	p.G2308S	CACNA1A_ENST00000573710.2_3'UTR	NM_000068.3|NM_001127222.1|NM_001174080.1|NM_023035.2	NP_000059.3|NP_001120694.1|NP_001167551.1|NP_075461.2	O00555	CAC1A_HUMAN	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	2309					adult walking behavior (GO:0007628)|behavioral response to pain (GO:0048266)|calcium ion import (GO:0070509)|calcium ion-dependent exocytosis (GO:0017156)|calcium ion-dependent exocytosis of neurotransmitter (GO:0048791)|cell death (GO:0008219)|cell growth (GO:0016049)|cellular chloride ion homeostasis (GO:0030644)|cerebellar molecular layer development (GO:0021679)|cerebellar Purkinje cell differentiation (GO:0021702)|cerebellum maturation (GO:0021590)|dendrite morphogenesis (GO:0048813)|energy reserve metabolic process (GO:0006112)|gamma-aminobutyric acid secretion (GO:0014051)|gamma-aminobutyric acid signaling pathway (GO:0007214)|glucose metabolic process (GO:0006006)|hormone metabolic process (GO:0042445)|membrane depolarization (GO:0051899)|membrane depolarization during action potential (GO:0086010)|musculoskeletal movement, spinal reflex action (GO:0050883)|negative regulation of hormone biosynthetic process (GO:0032353)|negative regulation of neuron apoptotic process (GO:0043524)|neuromuscular process controlling balance (GO:0050885)|neuromuscular synaptic transmission (GO:0007274)|neurotransmitter metabolic process (GO:0042133)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|receptor clustering (GO:0043113)|regulation of acetylcholine secretion, neurotransmission (GO:0014056)|regulation of axonogenesis (GO:0050770)|regulation of calcium ion-dependent exocytosis (GO:0017158)|regulation of insulin secretion (GO:0050796)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|spinal cord motor neuron differentiation (GO:0021522)|sulfur amino acid metabolic process (GO:0000096)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transmission of nerve impulse (GO:0019226)|vestibular nucleus development (GO:0021750)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|syntaxin binding (GO:0019905)|voltage-gated calcium channel activity (GO:0005245)			breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(25)|prostate(2)|urinary_tract(1)	42			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Loperamide(DB00836)|Pregabalin(DB00230)|Spironolactone(DB00421)|Verapamil(DB00661)	GGCCCCGAGCCGCCGGCCTTA	0.756																																																0													1	1	1					19																	13318726		584	1526	2110	SO:0001583	missense	773			U79666	CCDS45998.1, CCDS45999.1	19p13	2014-09-17			ENSG00000141837	ENSG00000141837		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1388	protein-coding gene	gene with protein product		601011		CACNL1A4, SCA6, MHP1, MHP		8825650, 16382099, 23827678	Standard	NM_000068		Approved	Cav2.1, EA2, APCA, HPCA, FHM	uc010xne.2	O00555	OTTHUMG00000044590	ENST00000360228.5:c.6922G>A	19.37:g.13318726C>T	ENSP00000353362:p.Gly2308Ser	Somatic		WXS	Illumina HiSeq	Phase_I	J3KP41|P78510|P78511|Q16290|Q92690|Q99790|Q99791|Q99792|Q99793|Q9NS88|Q9UDC4	Missense_Mutation	SNP	ENST00000360228.5	37	CCDS45998.1	.	.	.	.	.	.	.	.	.	.	c	6.449	0.451029	0.12223	.	.	ENSG00000141837	ENST00000360228;ENST00000418012;ENST00000357018	D	0.95238	-3.65	3.04	-1.56	0.08532	.	0.773330	0.09942	U	0.735832	T	0.78868	0.4351	N	0.01352	-0.895	0.09310	N	1	B;B;B	0.06786	0.001;0.0;0.001	B;B;B	0.06405	0.002;0.0;0.001	T	0.70296	-0.4911	10	0.19590	T	0.45	.	4.3532	0.11165	0.1658:0.4876:0.0:0.3466	.	2314;2308;2297	E9PD31;Q9NS88;E7EVF2	.;.;.	S	2308;2314;2297	ENSP00000353362:G2308S	ENSP00000349520:G2297S	G	-	1	0	CACNA1A	13179726	.	.	0.014000	0.15608	0.880000	0.50808	.	.	-0.118000	0.11851	0.281000	0.19383	GGC		0.756	CACNA1A-001	KNOWN	non_canonical_U12|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000104062.2	NM_000068		T	13318726	C	T	13318726	3	4	600	1	0	0	0	0	1	0	0	0	2540	652	23	1	602	1	CACNA1A	19	13318726	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	5328454	13318726	45810257	102	36022										
CACNA1A	773	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	13346025	13346025	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	tagggacacgacactcacctGcatcccaatgatggcataga	9	12	1	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr19:13346025G>A	ENST00000360228.5	-	33	5130	c.5131C>T	c.(5131-5133)Cag>Tag	p.Q1711*	CACNA1A_ENST00000574822.1_5'UTR|CACNA1A_ENST00000573710.2_Nonsense_Mutation_p.Q1712*	NM_000068.3|NM_001127222.1|NM_001174080.1|NM_023035.2	NP_000059.3|NP_001120694.1|NP_001167551.1|NP_075461.2	O00555	CAC1A_HUMAN	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	1712					adult walking behavior (GO:0007628)|behavioral response to pain (GO:0048266)|calcium ion import (GO:0070509)|calcium ion-dependent exocytosis (GO:0017156)|calcium ion-dependent exocytosis of neurotransmitter (GO:0048791)|cell death (GO:0008219)|cell growth (GO:0016049)|cellular chloride ion homeostasis (GO:0030644)|cerebellar molecular layer development (GO:0021679)|cerebellar Purkinje cell differentiation (GO:0021702)|cerebellum maturation (GO:0021590)|dendrite morphogenesis (GO:0048813)|energy reserve metabolic process (GO:0006112)|gamma-aminobutyric acid secretion (GO:0014051)|gamma-aminobutyric acid signaling pathway (GO:0007214)|glucose metabolic process (GO:0006006)|hormone metabolic process (GO:0042445)|membrane depolarization (GO:0051899)|membrane depolarization during action potential (GO:0086010)|musculoskeletal movement, spinal reflex action (GO:0050883)|negative regulation of hormone biosynthetic process (GO:0032353)|negative regulation of neuron apoptotic process (GO:0043524)|neuromuscular process controlling balance (GO:0050885)|neuromuscular synaptic transmission (GO:0007274)|neurotransmitter metabolic process (GO:0042133)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|receptor clustering (GO:0043113)|regulation of acetylcholine secretion, neurotransmission (GO:0014056)|regulation of axonogenesis (GO:0050770)|regulation of calcium ion-dependent exocytosis (GO:0017158)|regulation of insulin secretion (GO:0050796)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|spinal cord motor neuron differentiation (GO:0021522)|sulfur amino acid metabolic process (GO:0000096)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transmission of nerve impulse (GO:0019226)|vestibular nucleus development (GO:0021750)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|syntaxin binding (GO:0019905)|voltage-gated calcium channel activity (GO:0005245)			breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(25)|prostate(2)|urinary_tract(1)	42			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Loperamide(DB00836)|Pregabalin(DB00230)|Spironolactone(DB00421)|Verapamil(DB00661)	ACACTCACCTGCATCCCAATG	0.557											OREG0025293	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													44	48	47					19																	13346025		2021	4185	6206	SO:0001587	stop_gained	773			U79666	CCDS45998.1, CCDS45999.1	19p13	2014-09-17			ENSG00000141837	ENSG00000141837		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1388	protein-coding gene	gene with protein product		601011		CACNL1A4, SCA6, MHP1, MHP		8825650, 16382099, 23827678	Standard	NM_000068		Approved	Cav2.1, EA2, APCA, HPCA, FHM	uc010xne.2	O00555	OTTHUMG00000044590	ENST00000360228.5:c.5131C>T	19.37:g.13346025G>A	ENSP00000353362:p.Gln1711*	Somatic	686	WXS	Illumina HiSeq	Phase_I	J3KP41|P78510|P78511|Q16290|Q92690|Q99790|Q99791|Q99792|Q99793|Q9NS88|Q9UDC4	Nonsense_Mutation	SNP	ENST00000360228.5	37	CCDS45998.1	.	.	.	.	.	.	.	.	.	.	G	48	14.471052	0.99797	.	.	ENSG00000141837	ENST00000360228;ENST00000418012;ENST00000357018;ENST00000325084	.	.	.	5.17	5.17	0.71159	.	0.140928	0.48767	D	0.000167	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	.	17.4899	0.87700	0.0:0.0:1.0:0.0	.	.	.	.	X	1711;1717;1712;1712	.	ENSP00000317661:Q1712X	Q	-	1	0	CACNA1A	13207025	1.000000	0.71417	1.000000	0.80357	0.974000	0.67602	9.808000	0.99193	2.411000	0.81874	0.644000	0.83932	CAG		0.557	CACNA1A-001	KNOWN	non_canonical_U12|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000104062.2	NM_000068		A	13346025	G	A	13346025	4	1	600	1	0	0	0	0	0	1	0	0	2540	1328	46	2	2550	2	CACNA1A	19	13346025	Nonsense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08	27299	13346025	45782958	103	36023										
SLC1A6	6511	hgsc.bcm.edu	37	chr19	15067322	15067322	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	catagcggtgatgagggcttGtagcatgcccccaatgaagg	14	9	0	3			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr19:15067322G>T	ENST00000221742.3	-	6	1142	c.1135C>A	c.(1135-1137)Caa>Aaa	p.Q379K	SLC1A6_ENST00000430939.2_Missense_Mutation_p.Q315K|SLC1A6_ENST00000600144.1_Intron	NM_005071.1	NP_005062.1	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity aspartate/glutamate transporter), member 6	379					aspartate transport (GO:0015810)|ion transport (GO:0006811)|L-glutamate transport (GO:0015813)|regulation of membrane potential (GO:0042391)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	L-aspartate transmembrane transporter activity (GO:0015183)|L-glutamate transmembrane transporter activity (GO:0005313)|sodium:dicarboxylate symporter activity (GO:0017153)			breast(1)|central_nervous_system(2)|endometrium(6)|large_intestine(8)|liver(1)|lung(12)|ovary(3)|pancreas(3)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	42						ATGAGGGCTTGTAGCATGCCC	0.582																																																0													162	123	136					19																	15067322		2203	4300	6503	SO:0001583	missense	6511				CCDS12321.1, CCDS62578.1	19p13.12	2013-07-15			ENSG00000105143	ENSG00000105143		"Solute carriers"	10944	protein-coding gene	gene with protein product		600637				7791878	Standard	NM_005071		Approved	EAAT4	uc002naa.2	P48664	OTTHUMG00000183351	ENST00000221742.3:c.1135C>A	19.37:g.15067322G>T	ENSP00000221742:p.Gln379Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N753	Missense_Mutation	SNP	ENST00000221742.3	37	CCDS12321.1	.	.	.	.	.	.	.	.	.	.	g	19.15	3.770991	0.69992	.	.	ENSG00000105143	ENST00000430939;ENST00000221742	T;T	0.58506	0.33;0.34	3.96	3.96	0.45880	.	0.195990	0.47852	D	0.000202	T	0.68531	0.3011	M	0.64676	1.99	0.80722	D	1	D;P	0.56968	0.978;0.88	P;P	0.59012	0.85;0.598	T	0.73347	-0.4011	10	0.87932	D	0	-11.7811	13.8869	0.63714	0.0:0.0:1.0:0.0	.	315;379	E7EV13;P48664	.;EAA4_HUMAN	K	315;379	ENSP00000409386:Q315K;ENSP00000221742:Q379K	ENSP00000221742:Q379K	Q	-	1	0	SLC1A6	14928322	1.000000	0.71417	0.997000	0.53966	0.923000	0.55619	7.423000	0.80229	2.225000	0.72522	0.591000	0.81541	CAA		0.582	SLC1A6-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466283.1	NM_005071		T	15067322	G	T	15067322	3	4	600	1	0	0	0	0	1	0	0	0	14449	1386	48	4	575	4	SLC1A6	19	15067322	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08	1721297	15067322	44061661	104	36024										
GDF15	9518	hgsc.bcm.edu	37	chr19	18499142	18499142	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	cacctgcgtatctctcgggcCgcccttcccgaggggctccc	11	19	1	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr19:18499142C>A	ENST00000252809.3	+	2	356	c.324C>A	c.(322-324)gcC>gcA	p.A108A	MIR3189_ENST00000578735.1_RNA	NM_004864.2	NP_004855.2	Q99988	GDF15_HUMAN	growth differentiation factor 15	108					cell-cell signaling (GO:0007267)|signal transduction (GO:0007165)|transforming growth factor beta receptor signaling pathway (GO:0007179)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	cytokine activity (GO:0005125)			kidney(2)|large_intestine(1)|liver(1)|lung(5)|prostate(2)|skin(1)	12						TCTCTCGGGCCGCCCTTCCCG	0.687											OREG0025363	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													18	21	20					19																	18499142		2174	4281	6455	SO:0001819	synonymous_variant	9518			BC008962	CCDS12376.1	19p13.11	2008-05-14				ENSG00000130513			30142	protein-coding gene	gene with protein product	"prostate differentiation factor"	605312				11895857, 9593718	Standard	NM_004864		Approved	PLAB, MIC-1, PDF, MIC1, NAG-1, PTGFB	uc002niv.2	Q99988		ENST00000252809.3:c.324C>A	19.37:g.18499142C>A		Somatic	726	WXS	Illumina HiSeq	Phase_I	O14629|P78360|Q9BWA0|Q9NRT0	Silent	SNP	ENST00000252809.3	37	CCDS12376.1																																																																																				0.687	GDF15-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466340.2	NM_004864		A	18499142	C	A	18499142	2	1	600	1	0	0	0	0	0	0	0	1	6320	639	23	4		4	GDF15	19	18499142	Silent	SNP	C	TCGA-GL-8500-01A-11D-2396-08	3431820	18499142	40629841	105	36025										
ZNF461	92283	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	37147417	37147417	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ttcccttgctccaatgaggaGattacggctggcttagaaac	10	10	0	3			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr19:37147417G>C	ENST00000588268.1	-	4	392	c.165C>G	c.(163-165)atC>atG	p.I55M	ZNF461_ENST00000360357.4_Missense_Mutation_p.I55M	NM_153257.2	NP_694989.2	Q8TAF7	ZN461_HUMAN	zinc finger protein 461	55	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(4)|kidney(1)|large_intestine(4)|lung(17)|prostate(1)|urinary_tract(2)	29	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			CCAATGAGGAGATTACGGCTG	0.443																																																0													72	74	73					19																	37147417		2068	4232	6300	SO:0001583	missense	92283			BX649031	CCDS54257.1, CCDS74348.1	19q13.13	2013-01-08				ENSG00000197808		"Zinc fingers, C2H2-type", "-"	21629	protein-coding gene	gene with protein product		608640				11579202, 15004467	Standard	XM_005259402		Approved	GIOT-1, MGC33911	uc002oem.3	Q8TAF7		ENST00000588268.1:c.165C>G	19.37:g.37147417G>C	ENSP00000467931:p.Ile55Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9W9|Q6VSF7|Q9ULZ8	Missense_Mutation	SNP	ENST00000588268.1	37	CCDS54257.1	.	.	.	.	.	.	.	.	.	.	G	13.67	2.306002	0.40795	.	.	ENSG00000197808	ENST00000396893;ENST00000360357	T	0.00912	5.55	3.27	-0.373	0.12516	Krueppel-associated box (3);	.	.	.	.	T	0.05090	0.0136	M	0.88704	2.975	0.09310	N	1	D;D	0.64830	0.994;0.994	D;D	0.76071	0.987;0.987	T	0.14364	-1.0475	9	0.87932	D	0	.	5.9972	0.19501	0.3696:0.0:0.6304:0.0	.	55;55	B4DRP8;Q8TAF7	.;ZN461_HUMAN	M	55	ENSP00000353515:I55M	ENSP00000353515:I55M	I	-	3	3	ZNF461	41839257	0.882000	0.30256	0.011000	0.14972	0.955000	0.61496	0.417000	0.21214	-0.071000	0.12886	0.585000	0.79938	ATC		0.443	ZNF461-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000453202.1	NM_153257		C	37147417	G	C	37147417	3	2	600	1	0	0	0	0	1	0	0	0	17937	932	33	4	1538	4	ZNF461	19	37147417	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08	18648275	37147417	21981566	106	36026										
RYR1	6261	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	39058443	39058443	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ggggagaaggaagaagttccCgagcccacaccagagccccc	13	14	0	3			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr19:39058443C>T	ENST00000359596.3	+	93	13545	c.13545C>T	c.(13543-13545)ccC>ccT	p.P4515P	RYR1_ENST00000355481.4_Silent_p.P4510P|RYR1_ENST00000360985.3_Silent_p.P4510P			P21817	RYR1_HUMAN	ryanodine receptor 1 (skeletal)	4515	Pro-rich.				calcium ion transport (GO:0006816)|cellular response to caffeine (GO:0071313)|cytosolic calcium ion homeostasis (GO:0051480)|ion transmembrane transport (GO:0034220)|muscle contraction (GO:0006936)|ossification involved in bone maturation (GO:0043931)|outflow tract morphogenesis (GO:0003151)|release of sequestered calcium ion into cytosol (GO:0051209)|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0014808)|response to caffeine (GO:0031000)|response to hypoxia (GO:0001666)|skeletal muscle fiber development (GO:0048741)|skin development (GO:0043588)|transmembrane transport (GO:0055085)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|I band (GO:0031674)|integral component of plasma membrane (GO:0005887)|junctional membrane complex (GO:0030314)|junctional sarcoplasmic reticulum membrane (GO:0014701)|plasma membrane (GO:0005886)|sarcoplasmic reticulum (GO:0016529)|sarcoplasmic reticulum membrane (GO:0033017)|smooth endoplasmic reticulum (GO:0005790)|T-tubule (GO:0030315)|terminal cisterna (GO:0014802)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)|calcium-release channel activity (GO:0015278)|calmodulin binding (GO:0005516)|ryanodine-sensitive calcium-release channel activity (GO:0005219)|voltage-gated calcium channel activity (GO:0005245)			NS(4)|autonomic_ganglia(2)|breast(3)|central_nervous_system(5)|endometrium(26)|haematopoietic_and_lymphoid_tissue(3)|kidney(34)|large_intestine(42)|liver(1)|lung(106)|ovary(11)|pancreas(5)|prostate(9)|skin(12)|stomach(11)|upper_aerodigestive_tract(4)|urinary_tract(7)	285	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Caffeine(DB00201)|Dantrolene(DB01219)|Suramin(DB04786)	AAGAAGTTCCCGAGCCCACAC	0.577																																																0													88	94	92					19																	39058443		2203	4300	6503	SO:0001819	synonymous_variant	6261			J05200	CCDS33011.1, CCDS42563.1	19q13.1	2014-09-17				ENSG00000196218		"Ion channels / Ryanodine receptors"	10483	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 137"	180901	"central core disease of muscle"	MHS, MHS1, CCO		1862346, 16621918	Standard	NM_000540		Approved	RYR, PPP1R137	uc002oit.3	P21817		ENST00000359596.3:c.13545C>T	19.37:g.39058443C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q16314|Q16368|Q9NPK1|Q9P1U4	Silent	SNP	ENST00000359596.3	37	CCDS33011.1																																																																																				0.577	RYR1-010	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000462137.1			T	39058443	C	T	39058443	2	4	600	1	0	0	0	0	0	0	0	1	13781	639	23	1		1	RYR1	19	39058443	Silent	SNP	C	TCGA-GL-8500-01A-11D-2396-08	1911026	39058443	20070540	107	36027										
ERCC2	2068	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	45868315	45868315	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gtaacctcatagaatcggcaGtggggcaggctggtgtcatg	15	8	2	1	rs139263710		TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr19:45868315G>A	ENST00000391945.4	-	6	539	c.462C>T	c.(460-462)caC>caT	p.H154H	ERCC2_ENST00000221481.6_Intron|ERCC2_ENST00000391944.3_Intron|ERCC2_ENST00000485403.2_Silent_p.H130H|ERCC2_ENST00000391940.4_Silent_p.H130H	NM_000400.3	NP_000391.1	P18074	ERCC2_HUMAN	excision repair cross-complementation group 2	154	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				7-methylguanosine mRNA capping (GO:0006370)|aging (GO:0007568)|apoptotic process (GO:0006915)|ATP catabolic process (GO:0006200)|bone mineralization (GO:0030282)|cell proliferation (GO:0008283)|central nervous system myelin formation (GO:0032289)|chromosome segregation (GO:0007059)|DNA duplex unwinding (GO:0032508)|DNA repair (GO:0006281)|embryonic cleavage (GO:0040016)|erythrocyte maturation (GO:0043249)|extracellular matrix organization (GO:0030198)|gene expression (GO:0010467)|hair cell differentiation (GO:0035315)|hair follicle maturation (GO:0048820)|hematopoietic stem cell differentiation (GO:0060218)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair, DNA damage removal (GO:0000718)|nucleotide-excision repair, DNA incision (GO:0033683)|positive regulation of DNA binding (GO:0043388)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of viral transcription (GO:0050434)|post-embryonic development (GO:0009791)|protein phosphorylation (GO:0006468)|regulation of mitotic cell cycle phase transition (GO:1901990)|response to hypoxia (GO:0001666)|response to oxidative stress (GO:0006979)|small molecule metabolic process (GO:0044281)|spinal cord development (GO:0021510)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase I promoter (GO:0006360)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase I promoter (GO:0006361)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription-coupled nucleotide-excision repair (GO:0006283)|UV protection (GO:0009650)|viral process (GO:0016032)	cytoplasm (GO:0005737)|holo TFIIH complex (GO:0005675)|MMXD complex (GO:0071817)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle (GO:0005819)	4 iron, 4 sulfur cluster binding (GO:0051539)|5'-3' DNA helicase activity (GO:0043139)|ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA binding (GO:0003677)|DNA-dependent ATPase activity (GO:0008094)|metal ion binding (GO:0046872)|protein C-terminus binding (GO:0008022)|protein N-terminus binding (GO:0047485)			large_intestine(4)|lung(2)|ovary(1)|pancreas(1)|stomach(1)	9		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)		AGAATCGGCAGTGGGGCAGGC	0.637			"Mis, N, F, S"			"skin basal cell, skin squamous cell, melanoma"		Nucleotide excision repair (NER)	Xeroderma Pigmentosum																													yes	Rec		Xeroderma pigmentosum (D)	19	19q13.2-q13.3	2068	"excision repair cross-complementing rodent repair deficiency, complementation group 2 (xeroderma pigmentosum D)"		E	0													61	55	57					19																	45868315		2203	4300	6503	SO:0001819	synonymous_variant	2068	Familial Cancer Database	incl. XPA, XPB, XPC, XPD, XPE, XPF, XPG, XP Variant, XPV		CCDS33049.1, CCDS46112.1	19q13.3	2014-09-17	2014-03-07		ENSG00000104884	ENSG00000104884	3.6.4.12	"General transcription factor IIH complex subunits"	3434	protein-coding gene	gene with protein product	"excision repair cross-complementing rodent repair deficiency, complementation group 2 protein", "TFIIH basal transcription factor complex helicase XPB subunit"	126340	"xeroderma pigmentosum complementary group D", "excision repair cross-complementing rodent repair deficiency, complementation group 2"	XPD		8413672, 2184031	Standard	NM_000400		Approved	MAG, EM9, MGC102762, MGC126218, MGC126219, TFIIH	uc002pbj.2	P18074	OTTHUMG00000048190	ENST00000391945.4:c.462C>T	19.37:g.45868315G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2TB78|Q2YDY2|Q7KZU6|Q8N721	Silent	SNP	ENST00000391945.4	37	CCDS33049.1																																																																																				0.637	ERCC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109626.2	NM_000400		A	45868315	G	A	45868315	2	1	600	1	0	0	0	0	0	0	0	1	5215	1020	36	2		2	ERCC2	19	45868315	Silent	SNP	G	TCGA-GL-8500-01A-11D-2396-08	6809872	45868315	13260668	108	36028										
BAX	581	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr19	49464330	49464330	+	Intron	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	agatcatcagatgtggtctaTaatgcgttttccttacgtgt	9	7	3	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr19:49464330T>C	ENST00000345358.7	+	5	526				BAX_ENST00000354470.3_Intron|CTD-2639E6.9_ENST00000599784.1_lincRNA|BAX_ENST00000539787.1_Intron|BAX_ENST00000391871.3_Intron|BAX_ENST00000415969.2_Intron|BAX_ENST00000293288.8_Silent_p.Y211Y	NM_138761.3|NM_138764.4	NP_620116.1|NP_620119.2	Q07812	BAX_HUMAN	BCL2-associated X protein						activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|activation of cysteine-type endopeptidase activity involved in apoptotic process by cytochrome c (GO:0008635)|activation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway (GO:0097296)|apoptotic mitochondrial changes (GO:0008637)|apoptotic process (GO:0006915)|apoptotic process involved in embryonic digit morphogenesis (GO:1902263)|apoptotic process involved in patterning of blood vessels (GO:1902262)|apoptotic signaling pathway (GO:0097190)|B cell apoptotic process (GO:0001783)|B cell homeostasis (GO:0001782)|B cell homeostatic proliferation (GO:0002358)|B cell negative selection (GO:0002352)|B cell receptor apoptotic signaling pathway (GO:1990117)|blood vessel remodeling (GO:0001974)|cellular response to organic substance (GO:0071310)|cellular response to UV (GO:0034644)|cerebral cortex development (GO:0021987)|development of secondary sexual characteristics (GO:0045136)|ectopic germ cell programmed cell death (GO:0035234)|endoplasmic reticulum calcium ion homeostasis (GO:0032469)|establishment or maintenance of transmembrane electrochemical gradient (GO:0010248)|extrinsic apoptotic signaling pathway (GO:0097191)|extrinsic apoptotic signaling pathway in absence of ligand (GO:0097192)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|fertilization (GO:0009566)|germ cell development (GO:0007281)|glycosphingolipid metabolic process (GO:0006687)|homeostasis of number of cells within a tissue (GO:0048873)|hypothalamus development (GO:0021854)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress (GO:0070059)|kidney development (GO:0001822)|mitochondrial fragmentation involved in apoptotic process (GO:0043653)|mitochondrial fusion (GO:0008053)|mitochondrion morphogenesis (GO:0070584)|myeloid cell homeostasis (GO:0002262)|negative regulation of apoptotic signaling pathway (GO:2001234)|negative regulation of endoplasmic reticulum calcium ion concentration (GO:0032471)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|negative regulation of protein binding (GO:0032091)|neuron apoptotic process (GO:0051402)|neuron migration (GO:0001764)|odontogenesis of dentin-containing tooth (GO:0042475)|ovarian follicle development (GO:0001541)|positive regulation of apoptotic DNA fragmentation (GO:1902512)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic process involved in mammary gland involution (GO:0060058)|positive regulation of B cell apoptotic process (GO:0002904)|positive regulation of developmental pigmentation (GO:0048087)|positive regulation of endoplasmic reticulum unfolded protein response (GO:1900103)|positive regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001241)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial outer membrane permeabilization involved in apoptotic signaling pathway (GO:1901030)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of release of sequestered calcium ion into cytosol (GO:0051281)|post-embryonic camera-type eye morphogenesis (GO:0048597)|protein homooligomerization (GO:0051260)|protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:0001844)|protein oligomerization (GO:0051259)|regulation of cell cycle (GO:0051726)|regulation of mammary gland epithelial cell proliferation (GO:0033599)|regulation of mitochondrial membrane permeability involved in programmed necrotic cell death (GO:1902445)|regulation of mitochondrial membrane potential (GO:0051881)|regulation of nitrogen utilization (GO:0006808)|regulation of protein heterodimerization activity (GO:0043497)|regulation of protein homodimerization activity (GO:0043496)|release of cytochrome c from mitochondria (GO:0001836)|release of matrix enzymes from mitochondria (GO:0032976)|response to axon injury (GO:0048678)|response to gamma radiation (GO:0010332)|response to salt stress (GO:0009651)|response to toxic substance (GO:0009636)|retina development in camera-type eye (GO:0060041)|retinal cell apoptotic process (GO:1990009)|retinal cell programmed cell death (GO:0046666)|Sertoli cell proliferation (GO:0060011)|spermatid differentiation (GO:0048515)|T cell homeostatic proliferation (GO:0001777)|thymocyte apoptotic process (GO:0070242)|transformed cell apoptotic process (GO:0006927)|vagina development (GO:0060068)|viral process (GO:0016032)	BAX complex (GO:0097144)|Bcl-2 family protein complex (GO:0097136)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|mitochondrial outer membrane (GO:0005741)|mitochondrial permeability transition pore complex (GO:0005757)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|pore complex (GO:0046930)	BH3 domain binding (GO:0051434)|channel activity (GO:0015267)|identical protein binding (GO:0042802)|lipid binding (GO:0008289)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)			central_nervous_system(1)|endometrium(2)|large_intestine(1)|lung(7)|skin(2)|urinary_tract(4)	17		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;0.000159)|all cancers(93;0.00047)|GBM - Glioblastoma multiforme(486;0.018)|Epithelial(262;0.0279)		ATGTGGTCTATAATGCGTTTT	0.567																																																0													89	63	72					19																	49464330		2176	4278	6454	SO:0001627	intron_variant	581				CCDS12742.1, CCDS12743.1, CCDS12744.1, CCDS12745.1, CCDS12745.2	19q13.3-q13.4	2014-03-07			ENSG00000087088	ENSG00000087088			959	protein-coding gene	gene with protein product		600040				8358790	Standard	NM_138761		Approved	BCL2L4	uc002plf.1	Q07812	OTTHUMG00000160476	ENST00000345358.7:c.474+159T>C	19.37:g.49464330T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K4W1|P55269|Q07814|Q07815|Q8WZ49|Q9NR76|Q9NYG7|Q9UCZ6|Q9UCZ7|Q9UQD6	Silent	SNP	ENST00000345358.7	37	CCDS12742.1																																																																																				0.567	BAX-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360767.1	NM_138763		C	49464330	T	C	49464330	1	2	600	0	1	0	0	0	0	0	0	0	1328	1413	49	3		3	BAX	19	49464330	Intron	SNP	T	TCGA-GL-8500-01A-11D-2396-08	3596015	49464330	9664653	109	36029										
ZNF321	399669	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	53432286	53432286	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	aagaaattctttgggatgtcAaaattaaggaggcattgatg	11	3	2	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr19:53432286A>G	ENST00000391777.3	-	4	693	c.572T>C	c.(571-573)tTg>tCg	p.L191S	ZNF816_ENST00000434371.2_Missense_Mutation_p.L191S|ZNF816-ZNF321P_ENST00000313956.4_RNA|ZNF816_ENST00000549216.1_Missense_Mutation_p.L122S			Q8N8H1	ZN321_HUMAN	zinc finger protein 321, pseudogene	122										endometrium(1)|large_intestine(1)|lung(1)|ovary(1)	4						TTGGGATGTCAAAATTAAGGA	0.373																																																0													94	100	98					19																	53432286		2185	4293	6478	SO:0001583	missense	100529240			AK096828		19q13.4	2013-01-08	2011-04-19	2011-04-19	ENSG00000221874	ENSG00000221874			13827	pseudogene	pseudogene			"zinc finger protein 321"	ZNF321			Standard	NR_037805		Approved	MGC35402		Q8N8H1	OTTHUMG00000167760	ENST00000391777.3:c.572T>C	19.37:g.53432286A>G	ENSP00000375656:p.Leu191Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZB38|Q68DZ0|Q86SS5	Missense_Mutation	SNP	ENST00000391777.3	37	CCDS56101.1	.	.	.	.	.	.	.	.	.	.	g	0.886	-0.727124	0.03158	.	.	ENSG00000180257;ENSG00000180257;ENSG00000221874	ENST00000549216;ENST00000434371;ENST00000391777	T;T;T	0.01252	5.1;5.95;5.95	1.78	-0.553	0.11815	.	.	.	.	.	T	0.00412	0.0013	N	0.00337	-1.62	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.46512	-0.9186	9	0.02654	T	1	.	4.0322	0.09714	0.4322:0.0:0.5678:0.0	.	122	Q8N8H1	ZN321_HUMAN	S	122;191;191	ENSP00000449832:L122S;ENSP00000438519:L191S;ENSP00000375656:L191S	ENSP00000375656:L191S	L	-	2	0	ZNF321P;ZNF816	58124098	0.000000	0.05858	0.002000	0.10522	0.003000	0.03518	0.088000	0.14979	0.107000	0.17824	-1.981000	0.00455	TTG		0.373	ZNF321P-001	KNOWN	basic|appris_principal|readthrough_transcript|CCDS	protein_coding	protein_coding	OTTHUMT00000396130.1	NR_037805		G	53432286	A	G	53432286	3	3	600	1	0	0	0	0	1	0	0	0	17852	131	5	3	133	3	ZNF321	19	53432286	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	3967956	53432286	5696697	110	36030										
NLRP9	338321	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	56244868	56244868	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gacaggtttccttctcccatAtgagttgaaatgtttccttc	7	10	1	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr19:56244868A>T	ENST00000332836.2	-	2	356	c.329T>A	c.(328-330)aTa>aAa	p.I110K		NM_176820.2	NP_789790.2	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	110						cytoplasm (GO:0005737)	ATP binding (GO:0005524)			NS(2)|breast(5)|cervix(1)|endometrium(7)|kidney(8)|large_intestine(15)|lung(21)|ovary(2)|prostate(3)|skin(7)|urinary_tract(3)	74		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		CTTCTCCCATATGAGTTGAAA	0.363																																																0													122	122	122					19																	56244868		2203	4300	6503	SO:0001583	missense	338321			AY154464	CCDS12934.1	19q13.43	2006-12-08	2006-12-08	2006-12-08				"Nucleotide-binding domain and leucine rich repeat containing"	22941	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 9"	609663	"NACHT, leucine rich repeat and PYD containing 9"	NALP9		12563287	Standard	NM_176820		Approved	NOD6, PAN12, CLR19.1	uc002qly.3	Q7RTR0		ENST00000332836.2:c.329T>A	19.37:g.56244868A>T	ENSP00000331857:p.Ile110Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN12|Q86W27	Missense_Mutation	SNP	ENST00000332836.2	37	CCDS12934.1	.	.	.	.	.	.	.	.	.	.	A	14.52	2.559517	0.45590	.	.	ENSG00000185792	ENST00000332836;ENST00000333452	T	0.73897	-0.79	3.4	3.4	0.38934	.	.	.	.	.	T	0.60996	0.2312	L	0.39898	1.24	0.18873	N	0.999985	P	0.42827	0.791	B	0.36719	0.231	T	0.49925	-0.8887	9	0.29301	T	0.29	.	8.4613	0.32929	1.0:0.0:0.0:0.0	.	110	Q7RTR0	NALP9_HUMAN	K	110	ENSP00000331857:I110K	ENSP00000331857:I110K	I	-	2	0	NLRP9	60936680	0.004000	0.15560	0.004000	0.12327	0.074000	0.17049	1.274000	0.33132	1.588000	0.49971	0.524000	0.50904	ATA		0.363	NLRP9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453653.1	NM_176820		T	56244868	A	T	56244868	3	4	600	1	0	0	0	0	1	0	0	0	10491	449	16	5	2678	5	NLRP9	19	56244868	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	2812582	56244868	2884115	111	36031										
ZNF749	388567	hgsc.bcm.edu	37	chr19	57954667	57954667	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ctgttcttacaggttgttggCatggagccaaggatgaggag	15	6	1	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr19:57954667C>G	ENST00000334181.4	+	3	401	c.151C>G	c.(151-153)Cat>Gat	p.H51D	AC004076.9_ENST00000596831.1_Intron	NM_001023561.2	NP_001018855.2	O43361	ZN749_HUMAN	zinc finger protein 749	51	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(6)|kidney(2)|lung(3)|prostate(1)	13		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;0.0264)|Lung(386;0.177)		AGGTTGTTGGCATGGAGCCAA	0.507																																																0													67	64	65					19																	57954667		2203	4300	6503	SO:0001583	missense	388567			AK122740	CCDS33132.2	19q13.43	2013-01-08			ENSG00000186230	ENSG00000186230		"Zinc fingers, C2H2-type", "-"	32783	protein-coding gene	gene with protein product							Standard	NM_001023561		Approved	FLJ16360	uc002qoq.2	O43361	OTTHUMG00000150372	ENST00000334181.4:c.151C>G	19.37:g.57954667C>G	ENSP00000333980:p.His51Asp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000334181.4	37	CCDS33132.2	.	.	.	.	.	.	.	.	.	.	C	12.76	2.033661	0.35893	.	.	ENSG00000186230	ENST00000334181	T	0.00801	5.68	2.07	-0.28	0.12886	Krueppel-associated box (3);	.	.	.	.	T	0.00815	0.0027	L	0.34521	1.04	0.09310	N	1	P	0.47409	0.895	B	0.38156	0.266	T	0.53683	-0.8404	9	0.35671	T	0.21	.	6.3111	0.21164	0.0:0.7049:0.0:0.2951	.	51	O43361	ZN749_HUMAN	D	51	ENSP00000333980:H51D	ENSP00000333980:H51D	H	+	1	0	ZNF749	62646479	0.000000	0.05858	0.014000	0.15608	0.316000	0.28119	-1.407000	0.02488	0.007000	0.14760	0.313000	0.20887	CAT		0.507	ZNF749-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317879.1	NM_001023561		G	57954667	C	G	57954667	3	3	600	1	0	0	0	0	1	0	0	0	18143	710	25	4	161	4	ZNF749	19	57954667	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	1709799	57954667	1174316	112	36032										
MZF1	7593	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr19	59073766	59073766	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	cccaggccgcactcaccgcaGtggtagggcttttcgccggt	13	15	1	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr19:59073766G>T	ENST00000215057.2	-	6	2438	c.1878C>A	c.(1876-1878)caC>caA	p.H626Q	AC016629.8_ENST00000600534.1_RNA|AC016629.8_ENST00000593642.1_RNA|MZF1_ENST00000599369.1_Missense_Mutation_p.H626Q|AC016629.8_ENST00000600726.1_RNA|MZF1_ENST00000594234.1_3'UTR	NM_001267033.1|NM_198055.1	NP_001253962.1|NP_932172.1	P28698	MZF1_HUMAN	myeloid zinc finger 1	626					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(2)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0443)|all cancers(4;7.92e-14)|Epithelial(4;5.57e-11)|OV - Ovarian serous cystadenocarcinoma(4;1.13e-09)|GBM - Glioblastoma multiforme(193;0.0108)|Lung(386;0.182)		ACTCACCGCAGTGGTAGGGCT	0.682																																																0													33	25	28					19																	59073766		2201	4300	6501	SO:0001583	missense	7593			M58297	CCDS12988.1, CCDS59427.1	19q13.43	2014-08-22	2006-06-15	2006-06-15	ENSG00000099326	ENSG00000099326		"-", "Zinc fingers, C2H2-type"	13108	protein-coding gene	gene with protein product		194550	"zinc finger protein 42 (myeloid-specific retinoic acid-responsive)"	ZNF42		1860835	Standard	NM_198055		Approved	ZSCAN6, MZF1B, MZF-1, Zfp98	uc002qtn.3	P28698	OTTHUMG00000183550	ENST00000215057.2:c.1878C>A	19.37:g.59073766G>T	ENSP00000215057:p.His626Gln	Somatic		WXS	Illumina HiSeq	Phase_I	M0QXU0|Q7Z729|Q96I71|Q9NRY0|Q9UBW2	Missense_Mutation	SNP	ENST00000215057.2	37	CCDS12988.1	.	.	.	.	.	.	.	.	.	.	G	8.359	0.832673	0.16820	.	.	ENSG00000099326	ENST00000215057	T	0.16073	2.37	3.21	2.17	0.27698	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (2);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.732947	0.11236	N	0.585150	T	0.04272	0.0118	N	0.00315	-1.66	0.25952	N	0.982731	B	0.27286	0.174	B	0.34722	0.188	T	0.43540	-0.9385	10	0.15499	T	0.54	-9.8517	4.7075	0.12856	0.1258:0.2248:0.6494:0.0	.	626	P28698	MZF1_HUMAN	Q	626	ENSP00000215057:H626Q	ENSP00000215057:H626Q	H	-	3	2	MZF1	63765578	0.000000	0.05858	0.908000	0.35775	0.900000	0.52787	-0.753000	0.04792	0.925000	0.37094	-0.379000	0.06801	CAC		0.682	MZF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467112.1	NM_198055		T	59073766	G	T	59073766	3	4	600	1	0	0	0	0	1	0	0	0	10115	1020	36	4	330	4	MZF1	19	59073766	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08	1119099	59073766	55217	113	36033										
SIRPA	140885	hgsc.bcm.edu	37	chr20	1895835	1895835	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	agccactctgcgctgcactgCgacctctctgatccctgtgg	10	16	2	1	rs17855612	byFrequency	TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr20:1895835C>T	ENST00000358771.4	+	2	322	c.170C>T	c.(169-171)gCg>gTg	p.A57V	SIRPA_ENST00000356025.3_Missense_Mutation_p.A57V|SIRPA_ENST00000400068.3_Missense_Mutation_p.A57V	NM_001040023.1	NP_001035112.1	P78324	SHPS1_HUMAN	signal-regulatory protein alpha	57	Ig-like V-type.		A -> V (in dbSNP:rs17855612). {ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:9062191, ECO:0000269|PubMed:9070220}.		blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|leukocyte migration (GO:0050900)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)				cervix(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(13)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	21				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		CGCTGCACTGCGACCTCTCTG	0.582													C|||	1319	0.263379	0.1445	0.304	5008	,	,		11273	0.4474		0.1849	False		,,,				2504	0.2863				GBM(155;1668 1920 5945 42733 48121)											0								C	VAL/ALA,VAL/ALA,VAL/ALA	91,4161		1,89,2036	54	48	50		170,170,170	0.1	0	20	dbSNP_123	50	318,7874		0,318,3778	yes	missense,missense,missense	SIRPA	NM_001040022.1,NM_001040023.1,NM_080792.2	64,64,64	1,407,5814	TT,TC,CC		3.8818,2.1402,3.2867	benign,benign,benign	57/505,57/505,57/505	1895835	409,12035	2126	4096	6222	SO:0001583	missense	140885			D86043	CCDS13022.1	20p13	2013-01-11	2006-03-29	2006-03-29	ENSG00000198053	ENSG00000198053		"Signal-regulatory proteins", "CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C1-set domain containing"	9662	protein-coding gene	gene with protein product		602461	"protein tyrosine phosphatase, non-receptor type substrate 1"	PTPNS1		9070220, 9062191, 16339511	Standard	XM_005260669		Approved	SHPS1, SIRP, MYD-1, BIT, P84, SHPS-1, SIRPalpha, CD172a, SIRPalpha2, MFR, SIRP-ALPHA-1	uc002wfr.3	P78324	OTTHUMG00000031682	ENST00000358771.4:c.170C>T	20.37:g.1895835C>T	ENSP00000351621:p.Ala57Val	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2E1|A8K411|B2R6C3|O00683|O43799|Q8N517|Q8TAL8|Q9H0Z2|Q9UDX2|Q9UIJ6|Q9Y4U9	Missense_Mutation	SNP	ENST00000358771.4	37	CCDS13022.1	706	0.3232600732600733	88	0.17886178861788618	117	0.32320441988950277	308	0.5384615384615384	193	0.2546174142480211	C	0.148	-1.095121	0.01858	0.021402	0.038818	ENSG00000198053	ENST00000400068;ENST00000356025;ENST00000358771	T;T;T	0.63913	-0.07;-0.07;-0.07	5.11	0.0951	0.14484	Immunoglobulin subtype (1);Immunoglobulin V-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	1.016370	0.07877	N	0.968974	T	0.00012	0.0000	N	0.01576	-0.805	0.80722	P	0.0	B;B;B	0.06786	0.0;0.001;0.001	B;B;B	0.04013	0.001;0.001;0.001	T	0.42344	-0.9457	9	0.02654	T	1	.	8.9342	0.35688	0.0:0.2455:0.0:0.7545	rs17855612	37;57;57	B4DP97;P78324-2;P78324	.;.;SHPS1_HUMAN	V	57	ENSP00000382941:A57V;ENSP00000348307:A57V;ENSP00000351621:A57V	ENSP00000348307:A57V	A	+	2	0	SIRPA	1843835	0.000000	0.05858	0.001000	0.08648	0.000000	0.00434	-0.221000	0.09202	0.089000	0.17243	-2.077000	0.00380	GCG		0.582	SIRPA-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000077568.2	NM_080792		T	1895835	C	T	1895835	3	4	600	1	0	0	0	0	1	0	0	0	14345	768	27	1	176	1	SIRPA	20	1895835	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08		1895835	61129685	114	36034										
CPXM1	56265	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	2776796	2776796	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	cggccctcggcccagcccacCagctctgaaccctgccgggc	11	21	1	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr20:2776796C>G	ENST00000380605.2	-	10	1318	c.1254G>C	c.(1252-1254)ctG>ctC	p.L418L		NM_001184699.1|NM_019609.4	NP_001171628.1|NP_062555.1	Q96SM3	CPXM1_HUMAN	carboxypeptidase X (M14 family), member 1	418					cell adhesion (GO:0007155)	extracellular space (GO:0005615)	metallocarboxypeptidase activity (GO:0004181)|zinc ion binding (GO:0008270)			endometrium(5)|kidney(5)|large_intestine(8)|lung(17)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	43						CCCAGCCCACCAGCTCTGAAC	0.602																																																0													56	59	58					20																	2776796		2203	4300	6503	SO:0001819	synonymous_variant	56265			AL035460	CCDS13033.1	20p13	2012-02-10	2006-08-24	2006-08-24	ENSG00000088882	ENSG00000088882			15771	protein-coding gene	gene with protein product	"carboxypeptidase-like protein X1"	609555	"carboxypeptidase X (M14 family)"	CPXM		14702039	Standard	NM_019609		Approved	CPX-1, CPX1	uc002wgu.3	Q96SM3	OTTHUMG00000031706	ENST00000380605.2:c.1254G>C	20.37:g.2776796C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6P4G8|Q6UW65|Q9NUB5	Silent	SNP	ENST00000380605.2	37	CCDS13033.1																																																																																				0.602	CPXM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077643.2	NM_019609		G	2776796	C	G	2776796	2	3	600	1	0	0	0	0	0	0	0	1	3839	581	21	4		4	CPXM1	20	2776796	Silent	SNP	C	TCGA-GL-8500-01A-11D-2396-08	880961	2776796	60248724	115	36035										
MACROD2	140733	hgsc.bcm.edu	37	chr20	14066372	14066372	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ggtagatgctatagtcaatgCcggtgagtagttgattttcc	12	6	1	3			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr20:14066372C>T	ENST00000310348.4	+	3	269	c.269C>T	c.(268-270)gCc>gTc	p.A90V	MACROD2_ENST00000217246.4_Missense_Mutation_p.A90V			A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2	90	Macro. {ECO:0000255|PROSITE- ProRule:PRU00490}.|Substrate binding.				brain development (GO:0007420)|cellular response to DNA damage stimulus (GO:0006974)|protein de-ADP-ribosylation (GO:0051725)|purine nucleoside metabolic process (GO:0042278)	nucleus (GO:0005634)	deacetylase activity (GO:0019213)|hydrolase activity, acting on glycosyl bonds (GO:0016798)			breast(2)|kidney(4)|large_intestine(5)|lung(8)|skin(1)	20		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				ATAGTCAATGCCGGTGAGTAG	0.308																																																0													86	80	81					20																	14066372		1830	4077	5907	SO:0001583	missense	140733			BC101218	CCDS13120.2, CCDS33443.1	20p12.1	2011-04-28	2007-07-24	2007-07-24	ENSG00000172264	ENSG00000172264			16126	protein-coding gene	gene with protein product		611567	"chromosome 20 open reading frame 133"	C20orf133			Standard	NM_080676		Approved	dJ631M13.5	uc002wot.3	A1Z1Q3	OTTHUMG00000031919	ENST00000310348.4:c.269C>T	20.37:g.14066372C>T	ENSP00000309809:p.Ala90Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFF7|B0QZ39|B3KWV0|Q0P6D5|Q495E0|Q5W199|Q6ZN71	Missense_Mutation	SNP	ENST00000310348.4	37	CCDS13120.2	.	.	.	.	.	.	.	.	.	.	C	25.6	4.650091	0.87958	.	.	ENSG00000172264	ENST00000217246;ENST00000310348	T;T	0.44083	0.93;0.93	5.97	5.97	0.96955	Appr-1-p processing (3);	0.064305	0.64402	D	0.000009	T	0.79488	0.4454	H	0.98559	4.265	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.83275	0.993;0.996	D	0.86855	0.2026	10	0.87932	D	0	-7.7929	17.9263	0.88985	0.0:1.0:0.0:0.0	.	90;90	A1Z1Q3;A1Z1Q3-2	MACD2_HUMAN;.	V	90	ENSP00000217246:A90V;ENSP00000309809:A90V	ENSP00000217246:A90V	A	+	2	0	MACROD2	14014372	1.000000	0.71417	0.992000	0.48379	0.876000	0.50452	5.209000	0.65208	2.833000	0.97629	0.585000	0.79938	GCC		0.308	MACROD2-201	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_080676		T	14066372	C	T	14066372	3	4	600	1	0	0	0	0	1	0	0	0	9153	739	26	2	279	2	MACROD2	20	14066372	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	11289576	14066372	48959148	116	36036										
HUNK	30811	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	33371363	33371363	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ctatgatgggcatcggacagAtgttaaggaagcgccatcag	13	8	1	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr21:33371363A>C	ENST00000270112.2	+	11	2371	c.2011A>C	c.(2011-2013)Atg>Ctg	p.M671L		NM_014586.1	NP_055401.1	P57058	HUNK_HUMAN	hormonally up-regulated Neu-associated kinase	671					multicellular organismal development (GO:0007275)|signal transduction (GO:0007165)		ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|endometrium(3)|kidney(1)|large_intestine(6)|lung(15)|ovary(1)|skin(2)|stomach(1)	30						CATCGGACAGATGTTAAGGAA	0.617																																																0													54	60	58					21																	33371363		2203	4300	6503	SO:0001583	missense	30811			AJ271722	CCDS13610.1	21q22.1	2008-06-05	2008-06-05		ENSG00000142149	ENSG00000142149			13326	protein-coding gene	gene with protein product		606532	"hormonally upregulated Neu-associated kinase"			10662544, 10830953	Standard	NM_014586		Approved		uc002yph.3	P57058	OTTHUMG00000085019	ENST00000270112.2:c.2011A>C	21.37:g.33371363A>C	ENSP00000270112:p.Met671Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000270112.2	37	CCDS13610.1	.	.	.	.	.	.	.	.	.	.	A	15.78	2.935668	0.52972	.	.	ENSG00000142149	ENST00000270112	T	0.68181	-0.31	4.21	4.21	0.49690	.	0.165227	0.51477	D	0.000092	T	0.64148	0.2572	L	0.29908	0.895	0.45354	D	0.998345	P	0.40970	0.734	P	0.50825	0.651	T	0.60727	-0.7206	10	0.25751	T	0.34	-32.4647	13.4793	0.61326	1.0:0.0:0.0:0.0	.	671	P57058	HUNK_HUMAN	L	671	ENSP00000270112:M671L	ENSP00000270112:M671L	M	+	1	0	HUNK	32293234	1.000000	0.71417	0.997000	0.53966	0.204000	0.24138	5.843000	0.69424	1.767000	0.52121	0.482000	0.46254	ATG		0.617	HUNK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000192782.1	NM_014586		C	33371363	A	C	33371363	3	2	600	1	0	0	0	0	1	0	0	0	7465	333	12	5	2053	5	HUNK	21	33371363	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08		33371363	14758532	117	36037										
TTC3	7267	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr21	38568034	38568035	+	Frame_Shift_Ins	INS	-	-	T													0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ggccaagggcttgtgacttcINStgcaagcgacgtgactggaa							TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr21:38568034_38568035insT	ENST00000399017.2	+	42	8023_8024	c.5276_5277insT	c.(5275-5280)tctgcafs	p.A1760fs	TTC3_ENST00000479930.1_3'UTR|TTC3-AS1_ENST00000424733.1_RNA|TTC3_ENST00000355666.1_Frame_Shift_Ins_p.A1760fs|TTC3_ENST00000354749.2_Frame_Shift_Ins_p.A1760fs	NM_003316.3	NP_003307.3	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	1760					negative regulation of cell morphogenesis involved in differentiation (GO:0010771)|negative regulation of neuron differentiation (GO:0045665)|protein K48-linked ubiquitination (GO:0070936)|ubiquitin-dependent protein catabolic process (GO:0006511)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|vacuole (GO:0005773)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(5)|endometrium(7)|kidney(5)|large_intestine(17)|liver(1)|lung(18)|ovary(4)|prostate(2)|skin(9)|upper_aerodigestive_tract(2)|urinary_tract(5)	75		Myeloproliferative disorder(46;0.0412)				CTTGTGACTTCTGCAAGCGACG	0.569																																					Ovarian(38;194 1649 35661)											0																																										SO:0001589	frameshift_variant	7267			D84296	CCDS13651.1	21q22.2	2013-01-11			ENSG00000182670	ENSG00000182670		"RING-type (C3HC4) zinc fingers", "Tetratricopeptide (TTC) repeat domain containing"	12393	protein-coding gene	gene with protein product		602259				8947847	Standard	NM_003316		Approved	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105	uc002yvz.3	P53804	OTTHUMG00000086654	ENST00000399017.2:c.5277dupT	21.37:g.38568035_38568035dupT	ENSP00000381981:p.Ala1760fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7H7|B2RPA7|D3DSG9|D3DSH2|D3DSH3|O60767|P78476|P78477|Q569I2|Q6P578|Q9UEK4	Frame_Shift_Ins	INS	ENST00000399017.2	37	CCDS13651.1																																																																																				0.569	TTC3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000194776.1			T	38568035	-	T	38568034	7	5	600	1	0	1	1	0	0	0	0	0	16709	913	32	0	5438	0	TTC3	21	38568034	Frame_Shift_Ins	INS	-	TCGA-GL-8500-01A-11D-2396-08	5196671	38568034	9561861	118	36038										
MICAL3	57553	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	18293513	18293513	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ctcctcctgcttggcctgtcTccgagctgccttttgcacac	8	17	1	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr22:18293513T>C	ENST00000441493.2	-	28	5864	c.5512A>G	c.(5512-5514)Aga>Gga	p.R1838G	XXbac-B461K10.4_ENST00000476405.1_RNA|MICAL3_ENST00000580469.1_5'UTR	NM_015241.2	NP_056056.2	Q7RTP6	MICA3_HUMAN	microtubule associated monooxygenase, calponin and LIM domain containing 3	1838					actin filament depolymerization (GO:0030042)|cytoskeleton organization (GO:0007010)|exocytosis (GO:0006887)|oxidation-reduction process (GO:0055114)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)	actin binding (GO:0003779)|FAD binding (GO:0071949)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen (GO:0016709)|zinc ion binding (GO:0008270)			large_intestine(1)|lung(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	4		all_epithelial(15;0.198)		Lung(27;0.0427)		TTGGCCTGTCTCCGAGCTGCC	0.572																																																0													92	98	96					22																	18293513		2184	4283	6467	SO:0001583	missense	57553			AB037785	CCDS46659.1, CCDS46660.1, CCDS46661.1	22q11.21	2013-03-26	2013-03-26		ENSG00000243156	ENSG00000243156			24694	protein-coding gene	gene with protein product		608882				12110185	Standard	NM_015241		Approved	KIAA0819	uc002zng.4	Q7RTP6	OTTHUMG00000150067	ENST00000441493.2:c.5512A>G	22.37:g.18293513T>C	ENSP00000416015:p.Arg1838Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RXJ5|E9PEF0|O94909|Q5U4P4|Q6ICK4|Q96DF2|Q9P2I3	Missense_Mutation	SNP	ENST00000441493.2	37	CCDS46659.1	.	.	.	.	.	.	.	.	.	.	T	16.19	3.051801	0.55218	.	.	ENSG00000093100	ENST00000441493	T	0.68025	-0.3	4.81	4.81	0.61882	.	0.102956	0.64402	D	0.000009	T	0.70631	0.3246	L	0.34521	1.04	0.80722	D	1	D	0.63880	0.993	D	0.72338	0.977	T	0.69146	-0.5222	9	.	.	.	.	11.1121	0.48239	0.0:0.0:0.1547:0.8453	.	1838	Q7RTP6	MICA3_HUMAN	G	1838	ENSP00000416015:R1838G	.	R	-	1	2	XXbac-B461K10.4	16673513	0.999000	0.42202	1.000000	0.80357	0.995000	0.86356	2.991000	0.49409	1.799000	0.52666	0.379000	0.24179	AGA		0.572	MICAL3-010	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447351.1			C	18293513	T	C	18293513	3	2	600	1	0	0	0	0	1	0	0	0	9578	1559	54	3	516	3	MICAL3	22	18293513	Missense_Mutation	SNP	T	TCGA-GL-8500-01A-11D-2396-08		18293513	33011053	119	36039										
MTMR3	8897	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	30413918	30413918	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	gtcctcccccctcctcaggtGctgtaccctgtgtgccatgt	9	17	1	0			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr22:30413918G>T	ENST00000401950.2	+	16	2019	c.1677G>T	c.(1675-1677)gtG>gtT	p.V559V	MTMR3_ENST00000333027.3_Silent_p.V559V|MTMR3_ENST00000351488.3_Silent_p.V559V|CTA-85E5.10_ENST00000453743.2_RNA|MTMR3_ENST00000323630.5_Silent_p.V423V|MTMR3_ENST00000406629.1_Silent_p.V559V|CTA-85E5.10_ENST00000429350.1_RNA	NM_021090.3	NP_066576.1	Q13615	MTMR3_HUMAN	myotubularin related protein 3	559	Myotubularin phosphatase. {ECO:0000255|PROSITE-ProRule:PRU00669}.				peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phospholipid metabolic process (GO:0006644)|protein dephosphorylation (GO:0006470)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extrinsic component of membrane (GO:0019898)|membrane (GO:0016020)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity (GO:0052629)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)			breast(3)|large_intestine(3)|ovary(2)|skin(8)|upper_aerodigestive_tract(1)	17			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			CTCCTCAGGTGCTGTACCCTG	0.552																																																0													194	153	167					22																	30413918		2203	4300	6503	SO:0001819	synonymous_variant	8897			U58034	CCDS13870.1, CCDS13871.1, CCDS46682.1	22q12.2	2011-06-09			ENSG00000100330	ENSG00000100330		"Zinc fingers, FYVE domain containing", "Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	7451	protein-coding gene	gene with protein product		603558				8640223, 9736772	Standard	NM_153050		Approved	KIAA0371, ZFYVE10, FYVE-DSP1	uc003agv.4	Q13615	OTTHUMG00000151278	ENST00000401950.2:c.1677G>T	22.37:g.30413918G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A5PL26|A7MD32|Q9NYN5|Q9NYN6|Q9UDX6|Q9UEG3	Silent	SNP	ENST00000401950.2	37	CCDS13870.1																																																																																				0.552	MTMR3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000322066.1	NM_021090		T	30413918	G	T	30413918	2	4	600	1	0	0	0	0	0	0	0	1	9952	1306	46	4		4	MTMR3	22	30413918	Silent	SNP	G	TCGA-GL-8500-01A-11D-2396-08	12120405	30413918	20890648	120	36040										
POLR2F	5435	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	38355418	38355418	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	caggccaaccagaagcgaatCaccacaccatacatgaccaa	6	15	1	2			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr22:38355418C>G	ENST00000442738.2	+	3	281	c.156C>G	c.(154-156)atC>atG	p.I52M	POLR2F_ENST00000407936.1_Missense_Mutation_p.I52M|POLR2F_ENST00000405557.1_Missense_Mutation_p.I52M|POLR2F_ENST00000488684.1_Nonsense_Mutation_p.S72*|POLR2F_ENST00000606538.1_Missense_Mutation_p.I52M|POLR2F_ENST00000460648.1_Intron|POLR2F_ENST00000470701.1_Missense_Mutation_p.I47M	NM_021974.3	NP_068809.1	P61218	RPAB2_HUMAN	polymerase (RNA) II (DNA directed) polypeptide F	52					7-methylguanosine mRNA capping (GO:0006370)|DNA repair (GO:0006281)|gene expression (GO:0010467)|innate immune response (GO:0045087)|mRNA splicing, via spliceosome (GO:0000398)|nucleotide-excision repair (GO:0006289)|positive regulation of type I interferon production (GO:0032481)|positive regulation of viral transcription (GO:0050434)|RNA splicing (GO:0008380)|termination of RNA polymerase III transcription (GO:0006386)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription elongation from RNA polymerase III promoter (GO:0006385)|transcription from RNA polymerase I promoter (GO:0006360)|transcription from RNA polymerase II promoter (GO:0006366)|transcription from RNA polymerase III promoter (GO:0006383)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription-coupled nucleotide-excision repair (GO:0006283)|viral process (GO:0016032)	cytosol (GO:0005829)|DNA-directed RNA polymerase I complex (GO:0005736)|DNA-directed RNA polymerase II, core complex (GO:0005665)|DNA-directed RNA polymerase III complex (GO:0005666)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)			breast(1)|urinary_tract(2)	3	Melanoma(58;0.045)					AGAAGCGAATCACCACACCAT	0.577																																																0													187	170	176					22																	38355418		2203	4300	6503	SO:0001583	missense	5435				CCDS13963.1	22q13.1	2013-01-21			ENSG00000100142	ENSG00000100142		"RNA polymerase subunits"	9193	protein-coding gene	gene with protein product	"DNA directed RNA polymerase II 14.4 kda polypeptide"	604414				8786150	Standard	XR_112241		Approved	RPB6, HRBP14.4	uc010gxi.3	P61218	OTTHUMG00000151160	ENST00000442738.2:c.156C>G	22.37:g.38355418C>G	ENSP00000403852:p.Ile52Met	Somatic		WXS	Illumina HiSeq	Phase_I	P41584|Q6IAY3	Missense_Mutation	SNP	ENST00000442738.2	37	CCDS13963.1	.	.	.	.	.	.	.	.	.	.	C	22.1	4.242366	0.79912	.	.	ENSG00000100142	ENST00000442738;ENST00000407936;ENST00000405557	.	.	.	4.98	4.98	0.66077	RNA polymerase subunit, RPB6/omega (1);	0.000000	0.85682	D	0.000000	T	0.67353	0.2884	L	0.60455	1.87	0.80722	D	1	B	0.11235	0.004	B	0.25140	0.058	T	0.65656	-0.6115	9	0.54805	T	0.06	.	18.6213	0.91322	0.0:1.0:0.0:0.0	.	52	P61218	RPAB2_HUMAN	M	52	.	ENSP00000384112:I52M	I	+	3	3	POLR2F	36685364	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	3.564000	0.53791	2.467000	0.83353	0.655000	0.94253	ATC		0.577	POLR2F-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321570.1	NM_021974		G	38355418	C	G	38355418	3	3	600	1	0	0	0	0	1	0	0	0	12226	816	29	4	166	4	POLR2F	22	38355418	Missense_Mutation	SNP	C	TCGA-GL-8500-01A-11D-2396-08	7941500	38355418	12949148	121	36041										
KDELR3	11015	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	38875733	38875733	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ttggcctttccttccttgaaAactacagtttcactctgctg	6	12	2	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chr22:38875733A>G	ENST00000216014.4	+	3	500	c.328A>G	c.(328-330)Aac>Gac	p.N110D	KDELR3_ENST00000409006.3_Missense_Mutation_p.N110D|KDELR3_ENST00000471268.1_3'UTR	NM_006855.2	NP_006846.1	O43731	ERD23_HUMAN	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 3	110					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|protein retention in ER lumen (GO:0006621)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	ER retention sequence binding (GO:0046923)			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(5)|ovary(2)|prostate(1)	13	Melanoma(58;0.0286)					CTTCCTTGAAAACTACAGTTT	0.473																																					Ovarian(11;103 529 24120 28493 32980)											0													226	234	231					22																	38875733		2203	4300	6503	SO:0001583	missense	11015			AL035081	CCDS13972.1, CCDS46705.1	22q13	2008-05-02			ENSG00000100196	ENSG00000100196			6306	protein-coding gene	gene with protein product							Standard	NM_006855		Approved		uc003avu.3	O43731	OTTHUMG00000153520	ENST00000216014.4:c.328A>G	22.37:g.38875733A>G	ENSP00000216014:p.Asn110Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7T7|B8ZZ26|O95557|Q4V750|Q4V767|Q53FP4|Q53GK1	Missense_Mutation	SNP	ENST00000216014.4	37	CCDS13972.1	.	.	.	.	.	.	.	.	.	.	A	27.4	4.824209	0.90955	.	.	ENSG00000100196	ENST00000216014;ENST00000409006	T;T	0.29142	1.58;1.58	4.39	4.39	0.52855	.	0.000000	0.85682	D	0.000000	T	0.58750	0.2144	M	0.89287	3.02	0.80722	D	1	D;D	0.58970	0.984;0.98	D;P	0.64410	0.925;0.823	T	0.66937	-0.5797	10	0.54805	T	0.06	.	13.8085	0.63248	1.0:0.0:0.0:0.0	.	110;110	O43731;O43731-2	ERD23_HUMAN;.	D	110	ENSP00000216014:N110D;ENSP00000386918:N110D	ENSP00000216014:N110D	N	+	1	0	KDELR3	37205679	1.000000	0.71417	0.998000	0.56505	0.990000	0.78478	8.916000	0.92745	1.854000	0.53819	0.533000	0.62120	AAC		0.473	KDELR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331474.1			G	38875733	A	G	38875733	3	3	600	1	0	0	0	0	1	0	0	0	8128	14	1	3	338	3	KDELR3	22	38875733	Missense_Mutation	SNP	A	TCGA-GL-8500-01A-11D-2396-08	520315	38875733	12428833	122	36042										
ZXDB	158586	hgsc.bcm.edu	37	chrX	57619097	57619097	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813008130081301	10	1	1.56245937865592	2.552016985138	0.987877542634066	0.66992140985949	1	0	ccgctcctgcccagcagcccGggtgtctgatcgccccgcaa	11	19	1	1			TCGA-GL-8500-01A-11D-2396-08	TCGA-GL-8500-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	41177191-296c-48e7-945d-6b382e01efef	c4639d70-5aff-4a23-b1bd-33ce71bff272	g.chrX:57619097G>A	ENST00000374888.1	+	1	829	c.616G>A	c.(616-618)Ggg>Agg	p.G206R		NM_007157.3	NP_009088.1	P98169	ZXDB_HUMAN	zinc finger, X-linked, duplicated B	206					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)	p.G206R(2)		NS(1)|central_nervous_system(2)|endometrium(5)|kidney(1)|large_intestine(1)|lung(7)|ovary(2)|prostate(2)|skin(6)	27						CCAGCAGCCCGGGTGTCTGAT	0.711																																																2	Substitution - Missense(2)	lung(1)|prostate(1)											12	14	13					X																	57619097		2186	4257	6443	SO:0001583	missense	158586			L14788	CCDS35313.1	Xp11.1	2013-01-08			ENSG00000198455	ENSG00000198455		"Zinc fingers, C2H2-type"	13199	protein-coding gene	gene with protein product		300236				8268913	Standard	NM_007157		Approved	ZNF905	uc004dvd.3	P98169	OTTHUMG00000021685	ENST00000374888.1:c.616G>A	X.37:g.57619097G>A	ENSP00000364023:p.Gly206Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K151|Q9UBB3	Missense_Mutation	SNP	ENST00000374888.1	37	CCDS35313.1	.	.	.	.	.	.	.	.	.	.	.	0	-2.654782	0.00108	.	.	ENSG00000198455	ENST00000374888	T	0.11063	2.81	2.65	1.78	0.24846	.	0.160870	0.29602	N	0.011697	T	0.04452	0.0122	N	0.12182	0.205	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.41787	-0.9489	10	0.15952	T	0.53	.	4.3042	0.10938	0.3435:0.0:0.6565:0.0	.	206	P98169	ZXDB_HUMAN	R	206	ENSP00000364023:G206R	ENSP00000364023:G206R	G	+	1	0	ZXDB	57635822	0.000000	0.05858	0.002000	0.10522	0.045000	0.14185	-0.287000	0.08388	0.520000	0.28426	0.556000	0.70494	GGG		0.711	ZXDB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056922.1	NM_007157		A	57619097	G	A	57619097	3	1	600	1	0	0	0	0	1	0	0	0	18263	1116	39	1	618	1	ZXDB	23	57619097	Missense_Mutation	SNP	G	TCGA-GL-8500-01A-11D-2396-08		57619097	97651463	123	36043										
MTOR	2475	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	11270889	11270889	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	accttgacaattctgcagatGagcacatcatagcgctgatg	9	10	2	4			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr1:11270889G>A	ENST00000361445.4	-	24	3712	c.3636C>T	c.(3634-3636)ctC>ctT	p.L1212L		NM_004958.3	NP_004949.1	P42345	MTOR_HUMAN	mechanistic target of rapamycin (serine/threonine kinase)	1212					cell growth (GO:0016049)|cellular response to hypoxia (GO:0071456)|cellular response to nutrient levels (GO:0031669)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|germ cell development (GO:0007281)|growth (GO:0040007)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|negative regulation of autophagy (GO:0010507)|negative regulation of cell size (GO:0045792)|negative regulation of macroautophagy (GO:0016242)|negative regulation of NFAT protein import into nucleus (GO:0051534)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|phosphatidylinositol-mediated signaling (GO:0048015)|phosphorylation (GO:0016310)|positive regulation of actin filament polymerization (GO:0030838)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of gene expression (GO:0010628)|positive regulation of lamellipodium assembly (GO:0010592)|positive regulation of lipid biosynthetic process (GO:0046889)|positive regulation of myotube differentiation (GO:0010831)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of stress fiber assembly (GO:0051496)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|positive regulation of translation (GO:0045727)|protein autophosphorylation (GO:0046777)|protein catabolic process (GO:0030163)|protein phosphorylation (GO:0006468)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of carbohydrate utilization (GO:0043610)|regulation of fatty acid beta-oxidation (GO:0031998)|regulation of glycogen biosynthetic process (GO:0005979)|regulation of protein kinase activity (GO:0045859)|regulation of Rac GTPase activity (GO:0032314)|regulation of response to food (GO:0032095)|response to amino acid (GO:0043200)|response to nutrient (GO:0007584)|response to stress (GO:0006950)|ruffle organization (GO:0031529)|signal transduction (GO:0007165)|T cell costimulation (GO:0031295)|TOR signaling (GO:0031929)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endomembrane system (GO:0012505)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|membrane (GO:0016020)|mitochondrial outer membrane (GO:0005741)|phosphatidylinositol 3-kinase complex (GO:0005942)|PML body (GO:0016605)|TORC1 complex (GO:0031931)|TORC2 complex (GO:0031932)	ATP binding (GO:0005524)|drug binding (GO:0008144)|kinase activity (GO:0016301)|phosphoprotein binding (GO:0051219)|protein serine/threonine kinase activity (GO:0004674)|ribosome binding (GO:0043022)|RNA polymerase III type 1 promoter DNA binding (GO:0001030)|RNA polymerase III type 2 promoter DNA binding (GO:0001031)|RNA polymerase III type 3 promoter DNA binding (GO:0001032)|TFIIIC-class transcription factor binding (GO:0001156)			breast(5)|central_nervous_system(7)|endometrium(20)|kidney(34)|large_intestine(21)|lung(43)|ovary(9)|prostate(3)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	149					Everolimus(DB01590)|Pimecrolimus(DB00337)|Sirolimus(DB00877)|Temsirolimus(DB06287)	TTCTGCAGATGAGCACATCAT	0.403																																																0													105	94	98					1																	11270889		2203	4300	6503	SO:0001819	synonymous_variant	2475			L34075	CCDS127.1	1p36	2014-09-17	2009-05-29	2009-05-29	ENSG00000198793	ENSG00000198793			3942	protein-coding gene	gene with protein product	"FK506 binding protein 12-rapamycin associated protein 2", "rapamycin target protein", "FKBP12-rapamycin complex-associated protein 1", "FKBP-rapamycin associated protein", "rapamycin associated protein FRAP2", "dJ576K7.1 (FK506 binding protein 12-rapamycin associated protein 1)", "rapamycin and FKBP12 target 1", "mammalian target of rapamycin"	601231	"FK506 binding protein 12-rapamycin associated protein 1"	FRAP, FRAP2, FRAP1		8008069, 8660990	Standard	NM_004958		Approved	RAFT1, RAPT1, FLJ44809	uc001asd.3	P42345	OTTHUMG00000002001	ENST00000361445.4:c.3636C>T	1.37:g.11270889G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q4LE76|Q5TER1|Q6LE87|Q96QG3|Q9Y4I3	Silent	SNP	ENST00000361445.4	37	CCDS127.1																																																																																				0.403	MTOR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005558.1	NM_004958		A	11270889	G	A	11270889	2	1	601	1	0	0	0	0	0	0	0	1	9961	1277	45	2		2	MTOR	1	11270889	Silent	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10		11270889	237979732	1	36044										
MTF1	4520	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	38288352	38288352	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	atggcggaacatcactgactGactctgcatcaccattaaaa	7	11	3	2			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr1:38288352G>T	ENST00000373036.4	-	9	1348	c.1208C>A	c.(1207-1209)tCa>tAa	p.S403*		NM_005955.2	NP_005946.2	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1	403					positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to cadmium ion (GO:0046686)|response to metal ion (GO:0010038)|response to oxidative stress (GO:0006979)	nucleus (GO:0005634)	core promoter binding (GO:0001047)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)			endometrium(3)|kidney(5)|large_intestine(6)|liver(1)|lung(12)|ovary(2)|pancreas(1)|prostate(1)	31	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				ATCACTGACTGACTCTGCATC	0.438																																																0													59	66	64					1																	38288352		2203	4300	6503	SO:0001587	stop_gained	4520			BC014454	CCDS30676.1	1p33	2008-02-05			ENSG00000188786	ENSG00000188786			7428	protein-coding gene	gene with protein product		600172				8065932	Standard	NM_005955		Approved		uc001cce.1	Q14872	OTTHUMG00000004439	ENST00000373036.4:c.1208C>A	1.37:g.38288352G>T	ENSP00000362127:p.Ser403*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAK6|Q96CB1	Nonsense_Mutation	SNP	ENST00000373036.4	37	CCDS30676.1	.	.	.	.	.	.	.	.	.	.	G	37	6.559377	0.97663	.	.	ENSG00000188786	ENST00000373036	.	.	.	6.11	6.11	0.99139	.	0.399758	0.26776	N	0.022551	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.08599	T	0.76	.	18.9147	0.92501	0.0:0.0:1.0:0.0	.	.	.	.	X	403	.	ENSP00000362127:S403X	S	-	2	0	MTF1	38060939	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.613000	0.67688	2.906000	0.99361	0.655000	0.94253	TCA		0.438	MTF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012984.2	NM_005955		T	38288352	G	T	38288352	4	4	601	1	0	0	0	0	0	1	0	0	9929	1294	45	4	1065	4	MTF1	1	38288352	Nonsense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	27017463	38288352	210962269	2	36045										
RIMS3	9783	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	41107442	41107442	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	aggcccacgatggccaccatCttggcacccaggctgctccg	11	17	1	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr1:41107442C>T	ENST00000372684.3	-	3	625	c.156G>A	c.(154-156)aaG>aaA	p.K52K	RIMS3_ENST00000372683.1_Silent_p.K52K	NM_014747.2	NP_055562.2	Q9UJD0	RIMS3_HUMAN	regulating synaptic membrane exocytosis 3	52					calcium ion-dependent exocytosis (GO:0017156)|neurotransmitter transport (GO:0006836)|regulation of membrane potential (GO:0042391)	cell junction (GO:0030054)|presynaptic active zone (GO:0048786)				NS(2)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	23	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.47e-17)			TGGCCACCATCTTGGCACCCA	0.662																																																0													50	46	47					1																	41107442		2203	4300	6503	SO:0001819	synonymous_variant	9783			BC003103	CCDS30687.1	1p34.2	2013-09-19			ENSG00000117016	ENSG00000117016			21292	protein-coding gene	gene with protein product		611600				12620390, 10748113	Standard	NM_014747		Approved	RIM3, NIM3	uc001cfu.1	Q9UJD0	OTTHUMG00000007453	ENST00000372684.3:c.156G>A	1.37:g.41107442C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DPV8|Q92511|X5D7U7	Silent	SNP	ENST00000372684.3	37	CCDS30687.1																																																																																				0.662	RIMS3-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019585.1	NM_014747		T	41107442	C	T	41107442	2	4	601	1	0	0	0	0	0	0	0	1	13382	912	32	2		2	RIMS3	1	41107442	Silent	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	2819090	41107442	208143179	3	36046										
LRRC42	115353	broad.mit.edu;bcgsc.ca	37	chr1	54417869	54417876	+	Frame_Shift_Del	DEL	AAGAGAAG	AAGAGAAG	-													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ggaagacgacactgcacggaAagagaagactgatcatttca							TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	AAGAGAAG	AAGAGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr1:54417869_54417876delAAGAGAAG	ENST00000371370.3	+	3	718_725	c.197_204delAAGAGAAG	c.(196-204)aaagagaagfs	p.KEK66fs	LRRC42_ENST00000319223.4_Frame_Shift_Del_p.KEK66fs	NM_001256409.1	NP_001243338.1	Q9Y546	LRC42_HUMAN	leucine rich repeat containing 42	66										breast(2)|kidney(1)|large_intestine(1)|lung(5)	9						ACTGCACGGAAAGAGAAGACTGATCATT	0.514																																																0																																										SO:0001589	frameshift_variant	115353			AK075201	CCDS585.1	1p33-p32.1	2014-02-12			ENSG00000116212	ENSG00000116212			28792	protein-coding gene	gene with protein product						12477932	Standard	NM_001256409		Approved	MGC8974	uc001cwj.2	Q9Y546	OTTHUMG00000008436	ENST00000371370.3:c.197_204delAAGAGAAG	1.37:g.54417869_54417876delAAGAGAAG	ENSP00000360421:p.Lys66fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQ46|Q8N2Q8	Frame_Shift_Del	DEL	ENST00000371370.3	37	CCDS585.1																																																																																				0.514	LRRC42-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023250.1	NM_052940		-	54417876	AAGAGAAG	-	54417869	7	5	601	1	0	1	0	1	0	0	0	0	9007	14	1	0	199	0	LRRC42	1	54417869	Frame_Shift_Del	DEL	AAGAGAAG	TCGA-GL-A4EM-01A-11D-A25F-10	13310427	54417869	194832752	4	36047										
MCL1	4170	broad.mit.edu	37	chr1	150551617	150551617	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	cgcttcccgagaggctccggCtcgtacccgtccagctcctc	10	19	0	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr1:150551617C>T	ENST00000369026.2	-	1	449	c.390G>A	c.(388-390)gaG>gaA	p.E130E	MCL1_ENST00000464132.1_5'Flank|MCL1_ENST00000307940.3_Silent_p.E130E	NM_001197320.1|NM_021960.4	NP_001184249.1|NP_068779.1	Q07820	MCL1_HUMAN	myeloid cell leukemia 1	130	PEST-like.				apoptotic mitochondrial changes (GO:0008637)|cell fate determination (GO:0001709)|cellular homeostasis (GO:0019725)|extrinsic apoptotic signaling pathway in absence of ligand (GO:0097192)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|multicellular organismal development (GO:0007275)|negative regulation of anoikis (GO:2000811)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of intrinsic apoptotic signaling pathway (GO:2001243)|positive regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway (GO:1903378)|protein transmembrane transport (GO:0071806)|regulation of response to DNA damage stimulus (GO:2001020)|response to cytokine (GO:0034097)	Bcl-2 family protein complex (GO:0097136)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|mitochondrial matrix (GO:0005759)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	BH3 domain binding (GO:0051434)|protein channel activity (GO:0015266)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)			endometrium(2)|large_intestine(1)|lung(4)|prostate(1)	8	all_cancers(9;1.69e-53)|all_epithelial(9;1.95e-43)|all_lung(15;1.09e-34)|Lung NSC(24;4.04e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			GAGGCTCCGGCTCGTACCCGT	0.672																																																0													20	24	23					1																	150551617		2167	4235	6402	SO:0001819	synonymous_variant	4170			BC017197	CCDS956.1, CCDS957.1, CCDS72909.1	1q21	2014-03-07	2014-03-07		ENSG00000143384	ENSG00000143384			6943	protein-coding gene	gene with protein product		159552	"myeloid cell leukemia sequence 1 (BCL2-related)"			7682708, 7835896	Standard	NM_021960		Approved	BCL2L3, Mcl-1	uc001euz.3	Q07820	OTTHUMG00000034867	ENST00000369026.2:c.390G>A	1.37:g.150551617C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R6B2|D3DV03|D3DV04|Q9HD91|Q9NRQ3|Q9NRQ4|Q9UHR7|Q9UHR8|Q9UHR9|Q9UNJ1	Silent	SNP	ENST00000369026.2	37	CCDS957.1																																																																																				0.672	MCL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084402.1	NM_021960		T	150551617	C	T	150551617	2	4	601	1	0	0	0	0	0	0	0	1	9391	796	28	2		2	MCL1	1	150551617	Silent	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	96133748	150551617	98699004	5	36048										
PSMB4	5692	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	151372469	151372469	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ctctttaggaaccccatggtGaccgggacctcagtcctcgg	11	14	2	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr1:151372469G>A	ENST00000290541.6	+	2	207	c.153G>A	c.(151-153)gtG>gtA	p.V51V		NM_002796.2	NP_002787.2	P28070	PSB4_HUMAN	proteasome (prosome, macropain) subunit, beta type, 4	51					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|cellular nitrogen compound metabolic process (GO:0034641)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|negative regulation of apoptotic process (GO:0043066)|negative regulation of inflammatory response to antigenic stimulus (GO:0002862)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|viral process (GO:0016032)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|proteasome complex (GO:0000502)|proteasome core complex (GO:0005839)	lipopolysaccharide binding (GO:0001530)|threonine-type endopeptidase activity (GO:0004298)			endometrium(1)|lung(9)|ovary(2)|prostate(1)|skin(1)	14	Lung SC(34;0.00471)|Ovarian(49;0.00871)|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)			ACCCCATGGTGACCGGGACCT	0.577																																																0													73	76	75					1																	151372469		2203	4300	6503	SO:0001819	synonymous_variant	5692			D26600	CCDS996.1	1q21	2008-02-05			ENSG00000159377	ENSG00000159377		"Proteasome (prosome, macropain) subunits"	9541	protein-coding gene	gene with protein product		602177				7918633	Standard	NM_002796		Approved	HN3, PROS26	uc001eyc.1	P28070	OTTHUMG00000012494	ENST00000290541.6:c.153G>A	1.37:g.151372469G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9L3|P31148|Q5SZS5|Q6IBI4|Q969L6	Silent	SNP	ENST00000290541.6	37	CCDS996.1																																																																																				0.577	PSMB4-001	KNOWN	mRNA_start_NF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034885.1	NM_002796		A	151372469	G	A	151372469	2	1	601	1	0	0	0	0	0	0	0	1	12689	1277	45	2		2	PSMB4	1	151372469	Silent	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	820852	151372469	97878152	6	36049										
SLC25A44	9673	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	156169658	156169658	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	catggaggacaaacgcaacaTccagatcatcgagtgggaac	11	10	1	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr1:156169658T>C	ENST00000359511.4	+	2	192	c.20T>C	c.(19-21)aTc>aCc	p.I7T	SLC25A44_ENST00000423538.2_Missense_Mutation_p.I7T|SLC25A44_ENST00000469537.1_3'UTR	NM_014655.2	NP_055470.1	Q96H78	S2544_HUMAN	solute carrier family 25, member 44	7					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)				breast(3)|kidney(2)|large_intestine(2)|lung(1)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	14	Hepatocellular(266;0.158)					AAACGCAACATCCAGATCATC	0.507																																																0													153	142	146					1																	156169658		2203	4300	6503	SO:0001583	missense	9673			AB007915	CCDS1133.1, CCDS72943.1	1q22	2013-05-22			ENSG00000160785	ENSG00000160785		"Solute carriers"	29036	protein-coding gene	gene with protein product		610824				16949250	Standard	NM_001286184		Approved	FLJ90431, KIAA0446	uc001fnp.3	Q96H78	OTTHUMG00000014816	ENST00000359511.4:c.20T>C	1.37:g.156169658T>C	ENSP00000352497:p.Ile7Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O75034	Missense_Mutation	SNP	ENST00000359511.4	37	CCDS1133.1	.	.	.	.	.	.	.	.	.	.	T	23.0	4.365339	0.82463	.	.	ENSG00000160785	ENST00000359511;ENST00000423538;ENST00000412949	T;T	0.80824	-1.42;-1.34	5.52	5.52	0.82312	.	0.000000	0.85682	D	0.000000	D	0.85517	0.5715	M	0.79123	2.44	0.80722	D	1	D;D;D	0.63046	0.992;0.986;0.986	P;P;P	0.61477	0.858;0.889;0.889	D	0.87847	0.2655	10	0.72032	D	0.01	-27.8219	13.6089	0.62063	0.0:0.0:0.0:1.0	.	7;7;7	E9PGQ0;B4DGC4;Q96H78	.;.;S2544_HUMAN	T	7	ENSP00000352497:I7T;ENSP00000407560:I7T	ENSP00000352497:I7T	I	+	2	0	SLC25A44	154436282	1.000000	0.71417	1.000000	0.80357	0.950000	0.60333	7.778000	0.85637	2.108000	0.64289	0.528000	0.53228	ATC		0.507	SLC25A44-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040856.1	NM_014655		C	156169658	T	C	156169658	3	2	601	1	0	0	0	0	1	0	0	0	14522	1435	50	3	22	3	SLC25A44	1	156169658	Missense_Mutation	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10	4797189	156169658	93080963	7	36050										
OR6K6	128371	broad.mit.edu;bcgsc.ca	37	chr1	158724869	158724869	+	Frame_Shift_Del	DEL	T	T	-													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gccctgcacacccctttgtaTttctttatcagtgtcctctc							TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr1:158724869delT	ENST00000368144.2	+	1	360	c.264delT	c.(262-264)tatfs	p.Y88fs		NM_001005184.1	NP_001005184.1	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K, member 6	88						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(1)|large_intestine(5)|lung(17)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29	all_hematologic(112;0.0378)					CCCCTTTGTATTTCTTTATCA	0.463																																																0													156	157	157					1																	158724869		2203	4300	6503	SO:0001589	frameshift_variant	128371			BK004198	CCDS30904.1	1q23.1	2012-08-09			ENSG00000180433	ENSG00000180433		"GPCR / Class A : Olfactory receptors"	15033	protein-coding gene	gene with protein product							Standard	NM_001005184		Approved		uc001fsw.1	Q8NGW6	OTTHUMG00000022772	ENST00000368144.2:c.264delT	1.37:g.158724869delT	ENSP00000357126:p.Tyr88fs	Somatic		WXS	Illumina HiSeq	Phase_I	B9EIM8|Q5VUU9|Q6IFR4	Frame_Shift_Del	DEL	ENST00000368144.2	37	CCDS30904.1																																																																																				0.463	OR6K6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059065.2	NM_001005184		-	158724869	T	-	158724869	7	5	601	1	0	1	0	1	0	0	0	0	11211	1500	52	0	266	0	OR6K6	1	158724869	Frame_Shift_Del	DEL	T	TCGA-GL-A4EM-01A-11D-A25F-10	2555211	158724869	90525752	8	36051										
HMCN1	83872	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	186024754	186024754	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	acaggccgttatgtgtgtgtTgctgtgaatgtagcaggaat	14	5	0	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr1:186024754T>A	ENST00000271588.4	+	45	7321	c.7092T>A	c.(7090-7092)gtT>gtA	p.V2364V	HMCN1_ENST00000367492.2_Silent_p.V2364V	NM_031935.2	NP_114141.2	Q96RW7	HMCN1_HUMAN	hemicentin 1	2364	Ig-like C2-type 21.				response to stimulus (GO:0050896)|visual perception (GO:0007601)	basement membrane (GO:0005604)|cell cortex (GO:0005938)|cell junction (GO:0030054)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)			NS(2)|autonomic_ganglia(1)|breast(10)|central_nervous_system(2)|cervix(1)|endometrium(28)|haematopoietic_and_lymphoid_tissue(4)|kidney(13)|large_intestine(58)|liver(3)|lung(101)|ovary(23)|pancreas(4)|prostate(20)|skin(8)|stomach(1)|upper_aerodigestive_tract(11)|urinary_tract(18)	308						ATGTGTGTGTTGCTGTGAATG	0.418																																																0													152	137	142					1																	186024754		2203	4300	6503	SO:0001819	synonymous_variant	83872			AF156100	CCDS30956.1	1q25.3-q31.1	2013-01-11			ENSG00000143341	ENSG00000143341		"Fibulins", "Immunoglobulin superfamily / I-set domain containing"	19194	protein-coding gene	gene with protein product	"fibulin 6"	608548	"age-related macular degeneration 1 (senile macular degeneration)"	ARMD1		11222143	Standard	NM_031935		Approved	FBLN6, FIBL6, FIBL-6	uc001grq.1	Q96RW7	OTTHUMG00000059337	ENST00000271588.4:c.7092T>A	1.37:g.186024754T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NGE3|Q5TYR7|Q96DN3|Q96DN8|Q96SC3	Silent	SNP	ENST00000271588.4	37	CCDS30956.1																																																																																				0.418	HMCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131848.1	NM_031935		A	186024754	T	A	186024754	2	1	601	1	0	0	0	0	0	0	0	1	7227	1799	63	5		5	HMCN1	1	186024754	Silent	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10	27299885	186024754	63225867	9	36052										
PPP1R15B	84919	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	204379087	204379089	+	In_Frame_Del	DEL	CTA	CTA	-													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gttctggggattataaggatCtacactgcagaaagagttcc					rs200631983		TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	CTA	CTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr1:204379087_204379089delCTA	ENST00000367188.4	-	1	1830_1832	c.1451_1453delTAG	c.(1450-1455)gtagat>gat	p.V484del	RP11-739N20.2_ENST00000443515.1_RNA	NM_032833.3	NP_116222.3	Q5SWA1	PR15B_HUMAN	protein phosphatase 1, regulatory subunit 15B	484					ER overload response (GO:0006983)|regulation of translation (GO:0006417)|response to hydrogen peroxide (GO:0042542)	protein phosphatase type 1 complex (GO:0000164)	protein serine/threonine phosphatase activity (GO:0004722)			breast(3)|cervix(1)|kidney(4)|large_intestine(3)|lung(16)|ovary(1)|pancreas(2)|skin(1)|urinary_tract(3)	34	all_cancers(21;0.0032)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.179)|all_epithelial(62;0.193)|Prostate(682;0.227)		all cancers(3;1.14e-29)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.139)			TTATAAGGATCTACACTGCAGAA	0.448																																																0																																										SO:0001651	inframe_deletion	84919			AK027650	CCDS1445.1	1q32.1	2012-04-17	2011-10-04		ENSG00000158615	ENSG00000158615		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	14951	protein-coding gene	gene with protein product		613257	"protein phosphatase 1, regulatory (inhibitor) subunit 15B"			11948623	Standard	XM_005245551		Approved	FLJ14744	uc001hav.4	Q5SWA1	OTTHUMG00000036105	ENST00000367188.4:c.1451_1453delTAG	1.37:g.204379087_204379089delCTA	ENSP00000356156:p.Val484del	Somatic		WXS	Illumina HiSeq	Phase_I	Q53GQ4|Q658M2|Q6P156|Q96SN1	In_Frame_Del	DEL	ENST00000367188.4	37	CCDS1445.1																																																																																				0.448	PPP1R15B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087974.1	NM_032833		-	204379089	CTA	-	204379087	7	5	601	1	0	1	0	1	0	0	0	0	12374	913	32	0	696	0	PPP1R15B	1	204379087	In_Frame_Del	DEL	CTA	TCGA-GL-A4EM-01A-11D-A25F-10	18354333	204379087	44871534	10	36053										
USH2A	7399	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	215820886	215820886	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tctttttgggtggtgaaactGatccactcggaagccgtact	11	9	1	2			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr1:215820886G>T	ENST00000307340.3	-	67	15155	c.14769C>A	c.(14767-14769)atC>atA	p.I4923I	USH2A_ENST00000366943.2_Silent_p.I4923I	NM_206933.2	NP_996816	O75445	USH2A_HUMAN	Usher syndrome 2A (autosomal recessive, mild)	4923	Fibronectin type-III 34. {ECO:0000255|PROSITE-ProRule:PRU00316}.				hair cell differentiation (GO:0035315)|inner ear receptor cell differentiation (GO:0060113)|maintenance of organ identity (GO:0048496)|photoreceptor cell maintenance (GO:0045494)|response to stimulus (GO:0050896)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	apical plasma membrane (GO:0016324)|basement membrane (GO:0005604)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|stereocilia ankle link complex (GO:0002142)|stereocilium bundle (GO:0032421)|stereocilium membrane (GO:0060171)	collagen binding (GO:0005518)|myosin binding (GO:0017022)			NS(7)|breast(20)|central_nervous_system(3)|cervix(2)|endometrium(32)|haematopoietic_and_lymphoid_tissue(4)|kidney(13)|large_intestine(71)|liver(2)|lung(282)|ovary(25)|pancreas(2)|prostate(12)|skin(22)|stomach(7)|upper_aerodigestive_tract(20)|urinary_tract(3)	527				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TGGTGAAACTGATCCACTCGG	0.532										HNSCC(13;0.011)																																						0													93	76	81					1																	215820886		2203	4300	6503	SO:0001819	synonymous_variant	7399			AF055580	CCDS1516.1, CCDS31025.1	1q41	2013-02-11			ENSG00000042781	ENSG00000042781		"Fibronectin type III domain containing"	12601	protein-coding gene	gene with protein product	"usherin"	608400		USH2		9624053, 10729113	Standard	NM_007123		Approved	RP39	uc001hku.1	O75445	OTTHUMG00000037079	ENST00000307340.3:c.14769C>A	1.37:g.215820886G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VVM9|Q6S362|Q9NS27	Silent	SNP	ENST00000307340.3	37	CCDS31025.1																																																																																				0.532	USH2A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128138.1	NM_007123		T	215820886	G	T	215820886	2	4	601	1	0	0	0	0	0	0	0	1	17048	1280	45	4		4	USH2A	1	215820886	Silent	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	11441799	215820886	33429735	11	36054										
OBSCN	84033	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	228462497	228462497	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	aggacgcgggccagatcaccGtggaggctgagggcgcctca	17	12	2	2			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr1:228462497G>C	ENST00000422127.1	+	20	5952	c.5908G>C	c.(5908-5910)Gtg>Ctg	p.V1970L	RP5-1139B12.3_ENST00000602529.1_RNA|OBSCN_ENST00000366709.4_5'UTR|OBSCN_ENST00000570156.2_Missense_Mutation_p.V2345L|RP5-1139B12.3_ENST00000602947.1_RNA|OBSCN_ENST00000366707.4_5'UTR|RP5-1139B12.2_ENST00000602517.1_RNA|OBSCN_ENST00000284548.11_Missense_Mutation_p.V1970L|OBSCN_ENST00000359599.6_Missense_Mutation_p.V817L	NM_001098623.2	NP_001092093.2	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF	1970	Ig-like 19.				apoptotic signaling pathway (GO:0097190)|multicellular organismal development (GO:0007275)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|protein localization to M-band (GO:0036309)|regulation of small GTPase mediated signal transduction (GO:0051056)|sarcomere organization (GO:0045214)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|M band (GO:0031430)|myofibril (GO:0030016)|Z disc (GO:0030018)	ankyrin binding (GO:0030506)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			NS(2)|breast(7)|central_nervous_system(5)|cervix(2)|endometrium(30)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(37)|lung(89)|ovary(8)|pancreas(3)|prostate(13)|skin(6)|stomach(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	223		Prostate(94;0.0405)				CCAGATCACCGTGGAGGCTGA	0.652																																																0													27	33	31					1																	228462497		2133	4237	6370	SO:0001583	missense	84033			AJ002535	CCDS1570.2, CCDS58065.1, CCDS59204.1	1q42	2014-09-17			ENSG00000154358	ENSG00000154358		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	15719	protein-coding gene	gene with protein product		608616				11448995, 11814696	Standard	NM_001098623		Approved	KIAA1556, UNC89, KIAA1639, ARHGEF30	uc001hsq.2	Q5VST9	OTTHUMG00000039772	ENST00000422127.1:c.5908G>C	1.37:g.228462497G>C	ENSP00000409493:p.Val1970Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q2A664|Q5T7G8|Q5T7G9|Q5VSU2|Q86YC7|Q8NHN0|Q8NHN1|Q8NHN2|Q8NHN3|Q8NHN4|Q8NHN5|Q8NHN6|Q8NHN7|Q8NHN8|Q8NHN9|Q96AA2|Q9HCD3|Q9HCL6	Missense_Mutation	SNP	ENST00000422127.1	37	CCDS58065.1	.	.	.	.	.	.	.	.	.	.	G	10.37	1.331260	0.24167	.	.	ENSG00000154358	ENST00000284548;ENST00000422127;ENST00000359599	T;T;T	0.76448	1.01;1.01;-1.02	5.49	3.61	0.41365	Immunoglobulin subtype (1);Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.425981	0.22964	N	0.053513	T	0.73393	0.3581	L	0.51914	1.62	0.48571	D	0.999671	B;P	0.44816	0.002;0.844	B;B	0.44085	0.005;0.44	T	0.69339	-0.5171	10	0.36615	T	0.2	.	11.1091	0.48221	0.0696:0.129:0.8014:0.0	.	1970;1970	Q5VST9;Q5VST9-3	OBSCN_HUMAN;.	L	1970;1970;817	ENSP00000284548:V1970L;ENSP00000409493:V1970L;ENSP00000352613:V817L	ENSP00000284548:V1970L	V	+	1	0	OBSCN	226529120	0.981000	0.34729	0.000000	0.03702	0.005000	0.04900	6.186000	0.72026	0.679000	0.31345	0.555000	0.69702	GTG		0.652	OBSCN-204	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_052843		C	228462497	G	C	228462497	3	2	601	1	0	0	0	0	1	0	0	0	10819	1145	40	4	5982	4	OBSCN	1	228462497	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	12641611	228462497	20788124	12	36055										
PKDCC	91461	broad.mit.edu;bcgsc.ca	37	chr2	42281437	42281445	+	In_Frame_Del	DEL	AATGCCTAC	AATGCCTAC	-													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	acgagaagcggaacctctatAatgcctacaggtgacctcca					rs55733961|rs371967754	byFrequency	TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	AATGCCTAC	AATGCCTAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr2:42281437_42281445delAATGCCTAC	ENST00000294964.5	+	3	1204_1212	c.1024_1032delAATGCCTAC	c.(1024-1032)aatgcctacdel	p.NAY342del		NM_138370.2	NP_612379.2			protein kinase domain containing, cytoplasmic											breast(2)|kidney(1)|lung(5)	8						GAACCTCTATAATGCCTACAGGTGACCTC	0.617																																																0																																										SO:0001651	inframe_deletion	91461				CCDS33186.2	2p21	2014-01-28	2012-12-07		ENSG00000162878	ENSG00000162878			25123	protein-coding gene	gene with protein product	"vertebrate lonesome kinase"	614150	"protein kinase domain containing, cytoplasmic homolog (mouse)"			19097194, 19465597	Standard	NM_138370		Approved	SgK493, Vlk	uc002rsg.3	Q504Y2	OTTHUMG00000152303	ENST00000294964.5:c.1024_1032delAATGCCTAC	2.37:g.42281437_42281445delAATGCCTAC	ENSP00000294964:p.Asn342_Tyr344del	Somatic		WXS	Illumina HiSeq	Phase_I		In_Frame_Del	DEL	ENST00000294964.5	37	CCDS33186.2																																																																																				0.617	PKDCC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000325745.3			-	42281445	AATGCCTAC	-	42281437	7	5	601	1	0	1	0	1	0	0	0	0	11976	362	13	0	1034	0	PKDCC	2	42281437	In_Frame_Del	DEL	AATGCCTAC	TCGA-GL-A4EM-01A-11D-A25F-10		42281437	200917936	13	36056										
MSH6	2956	broad.mit.edu;bcgsc.ca	37	chr2	48025884	48025885	+	Frame_Shift_Ins	INS	-	-	G													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gaagggtcatatcagattctINSgagagtgacattggtggctc					rs267608072		TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr2:48025884_48025885insG	ENST00000234420.5	+	4	914_915	c.762_763insG	c.(763-765)gagfs	p.E255fs	FBXO11_ENST00000405808.1_Intron|MSH6_ENST00000538136.1_5'UTR|MSH6_ENST00000540021.1_Frame_Shift_Ins_p.E125fs	NM_000179.2	NP_000170.1	P52701	MSH6_HUMAN	mutS homolog 6	255					ATP catabolic process (GO:0006200)|determination of adult lifespan (GO:0008340)|DNA repair (GO:0006281)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|isotype switching (GO:0045190)|meiotic mismatch repair (GO:0000710)|mismatch repair (GO:0006298)|negative regulation of DNA recombination (GO:0045910)|positive regulation of helicase activity (GO:0051096)|reciprocal meiotic recombination (GO:0007131)|response to UV (GO:0009411)|somatic hypermutation of immunoglobulin genes (GO:0016446)|somatic recombination of immunoglobulin gene segments (GO:0016447)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|MutSalpha complex (GO:0032301)|nuclear chromatin (GO:0000790)|nuclear chromosome (GO:0000228)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|damaged DNA binding (GO:0003684)|DNA-dependent ATPase activity (GO:0008094)|guanine/thymine mispair binding (GO:0032137)|methylated histone binding (GO:0035064)|mismatched DNA binding (GO:0030983)	p.0?(2)		breast(8)|central_nervous_system(29)|cervix(1)|endometrium(32)|haematopoietic_and_lymphoid_tissue(12)|kidney(2)|large_intestine(75)|lung(25)|ovary(3)|prostate(3)|skin(10)|stomach(22)|thyroid(1)|upper_aerodigestive_tract(1)|urinary_tract(5)	229		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TATCAGATTCTGAGAGTGACAT	0.436			"Mis, N, F, S"		colorectal	"colorectal, endometrial, ovarian"		Mismatch excision repair (MMR)	Turcot syndrome;Muir-Torre syndrome;Lynch syndrome;Constitutional Mismatch Repair Deficiency Syndrome																													yes	Rec	yes	Hereditary non-polyposis colorectal cancer	2	2p16	2956	mutS homolog 6 (E. coli)		E	2	Whole gene deletion(2)	haematopoietic_and_lymphoid_tissue(2)																																								SO:0001589	frameshift_variant	2956	Familial Cancer Database	Brain tumor-colorectal polyp(osis) syndrome; ;Hereditary Non-Polyposis Colorectal Cancer, HNPCC, Lynch syndromes 1 and 2 (= Cancer Family Syndrome), Hereditary Mismatch Repair Deficiency syndrome, HMRDS;Mismatch Repair Cancer syndrome, MMRCS, Childhood Cancer Syndrome, CCS, Biallelic Mismatch Repair Gene Mutations Associated Early Onset Cancer, Lynch syndrome type III	U54777	CCDS1836.1, CCDS62906.1, CCDS62907.1	2p16	2014-09-17	2013-09-12		ENSG00000116062	ENSG00000116062			7329	protein-coding gene	gene with protein product		600678	"mutS (E. coli) homolog 6", "mutS homolog 6 (E. coli)"	GTBP		7604266	Standard	NM_000179		Approved		uc002rwd.4	P52701	OTTHUMG00000129129	ENST00000234420.5:c.763dupG	2.37:g.48025885_48025885dupG	ENSP00000234420:p.Glu255fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DF41|B4E3I4|F5H2F9|O43706|O43917|Q8TCX4|Q9BTB5	Frame_Shift_Ins	INS	ENST00000234420.5	37	CCDS1836.1																																																																																				0.436	MSH6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251180.4	NM_000179		G	48025885	-	G	48025884	7	5	601	1	0	1	1	0	0	0	0	0	9881	1567	55	0	776	0	MSH6	2	48025884	Frame_Shift_Ins	INS	-	TCGA-GL-A4EM-01A-11D-A25F-10	5744447	48025884	195173489	14	36057										
MFSD9	84804	broad.mit.edu	37	chr2	103343361	103343361	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ggtggctgctccgagaaggaGatagcccagagcactgagta	15	9	0	4			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr2:103343361G>A	ENST00000258436.5	-	4	413	c.370C>T	c.(370-372)Ctc>Ttc	p.L124F		NM_032718.3	NP_116107.3	Q8NBP5	MFSD9_HUMAN	major facilitator superfamily domain containing 9	124					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			breast(3)|large_intestine(7)|liver(1)|lung(6)|ovary(2)|skin(1)	20						CCGAGAAGGAGATAGCCCAGA	0.488																																																0													81	79	80					2																	103343361		2203	4300	6503	SO:0001583	missense	84804				CCDS2063.1	2q12.1	2007-01-12			ENSG00000135953	ENSG00000135953			28158	protein-coding gene	gene with protein product							Standard	NM_032718		Approved	MGC11332	uc002tcb.2	Q8NBP5	OTTHUMG00000130781	ENST00000258436.5:c.370C>T	2.37:g.103343361G>A	ENSP00000258436:p.Leu124Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZG89|Q53TU0|Q96GQ4|Q9BRI8	Missense_Mutation	SNP	ENST00000258436.5	37	CCDS2063.1	.	.	.	.	.	.	.	.	.	.	G	16.13	3.035350	0.54896	.	.	ENSG00000135953	ENST00000258436	T	0.61627	0.09	5.34	4.45	0.53987	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.326073	0.30704	N	0.009046	T	0.48732	0.1516	M	0.69248	2.105	0.27141	N	0.96166	B	0.16802	0.019	B	0.19391	0.025	T	0.27773	-1.0064	10	0.22706	T	0.39	-21.7696	4.4903	0.11810	0.1674:0.2193:0.6133:0.0	.	124	Q8NBP5	MFSD9_HUMAN	F	124	ENSP00000258436:L124F	ENSP00000258436:L124F	L	-	1	0	MFSD9	102709793	1.000000	0.71417	0.495000	0.27527	0.664000	0.39144	4.031000	0.57267	2.663000	0.90544	0.655000	0.94253	CTC		0.488	MFSD9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253295.2	NM_032718		A	103343361	G	A	103343361	3	1	601	1	0	0	0	0	1	0	0	0	9546	942	33	2	1066	2	MFSD9	2	103343361	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	55317477	103343361	139856012	15	36058										
ZEB2	9839	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	145157390	145157390	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tttgtacctcacttaaattaCtattcatggtgggaaaccca	6	9	2	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr2:145157390C>T	ENST00000558170.2	-	8	2548	c.1364G>A	c.(1363-1365)aGt>aAt	p.S455N	ZEB2_ENST00000409487.3_Missense_Mutation_p.S455N|ZEB2_ENST00000303660.4_Missense_Mutation_p.S455N|ZEB2_ENST00000539609.3_Missense_Mutation_p.S431N	NM_014795.3	NP_055610.1	O60315	ZEB2_HUMAN	zinc finger E-box binding homeobox 2	455	SMAD-MH2 binding domain. {ECO:0000250}.				cell proliferation in forebrain (GO:0021846)|developmental pigmentation (GO:0048066)|hippocampus development (GO:0021766)|melanocyte migration (GO:0097324)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nervous system development (GO:0007399)|neural crest cell migration (GO:0001755)|neural tube closure (GO:0001843)|positive regulation of JUN kinase activity (GO:0043507)|positive regulation of melanin biosynthetic process (GO:0048023)|positive regulation of melanocyte differentiation (GO:0045636)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of Wnt signaling pathway (GO:0030177)|regulation of melanosome organization (GO:1903056)|somitogenesis (GO:0001756)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|phosphatase regulator activity (GO:0019208)			breast(3)|central_nervous_system(1)|cervix(2)|endometrium(7)|kidney(6)|large_intestine(23)|lung(45)|ovary(5)|pancreas(2)|prostate(6)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(3)	107				BRCA - Breast invasive adenocarcinoma(221;0.112)		ACTTAAATTACTATTCATGGT	0.438																																					Melanoma(33;1235 1264 5755 16332)											0													75	78	77					2																	145157390		2203	4300	6503	SO:0001583	missense	9839			AB011141	CCDS2186.1, CCDS54403.1	2q22.3	2013-01-08	2007-02-15	2007-02-15	ENSG00000169554	ENSG00000169554		"Zinc fingers, C2H2-type", "Homeoboxes / ZF class"	14881	protein-coding gene	gene with protein product	"SMAD interacting protein 1"	605802	"zinc finger homeobox 1b"	ZFHX1B			Standard	NM_014795		Approved	KIAA0569, SIP-1, SIP1	uc002tvu.3	O60315	OTTHUMG00000131834	ENST00000558170.2:c.1364G>A	2.37:g.145157390C>T	ENSP00000454157:p.Ser455Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A0JP09|B7Z2P2|F5H814|Q9UED1	Missense_Mutation	SNP	ENST00000558170.2	37	CCDS2186.1	.	.	.	.	.	.	.	.	.	.	C	0.218	-1.030702	0.02045	.	.	ENSG00000169554	ENST00000539609;ENST00000303660;ENST00000409487;ENST00000427902	T;T;T;T	0.11495	2.79;2.77;2.77;2.88	5.53	5.53	0.82687	.	0.037192	0.85682	D	0.000000	T	0.06962	0.0177	N	0.11927	0.2	0.48135	D	0.999594	B;B;B;B	0.06786	0.0;0.0;0.0;0.001	B;B;B;B	0.10450	0.005;0.001;0.001;0.005	T	0.14254	-1.0479	10	0.02654	T	1	-8.897	19.4645	0.94932	0.0:1.0:0.0:0.0	.	431;320;454;455	F5H814;Q53TD9;A0JP08;O60315	.;.;.;ZEB2_HUMAN	N	431;455;455;455	ENSP00000443792:S431N;ENSP00000302501:S455N;ENSP00000386854:S455N;ENSP00000395496:S455N	ENSP00000302501:S455N	S	-	2	0	ZEB2	144873860	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	4.709000	0.61867	2.587000	0.87381	0.655000	0.94253	AGT		0.438	ZEB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254778.5	NM_014795		T	145157390	C	T	145157390	3	4	601	1	0	0	0	0	1	0	0	0	17636	565	20	2	2292	2	ZEB2	2	145157390	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	41814029	145157390	98041983	16	36059										
IKZF2	22807	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	213872808	213872808	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tgaatcgcatgagcttttccCctggaagggagtgggaggtg	16	7	0	2			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr2:213872808C>A	ENST00000434687.1	-	9	1166	c.857G>T	c.(856-858)gGg>gTg	p.G286V	IKZF2_ENST00000421754.2_Splice_Site_p.G212V|IKZF2_ENST00000457361.1_Splice_Site_p.G286V|IKZF2_ENST00000342002.2_Splice_Site_p.G292V|IKZF2_ENST00000374327.4_Splice_Site_p.G141V|IKZF2_ENST00000451136.2_Splice_Site_p.G214V|AC079610.1_ENST00000415387.1_RNA|IKZF2_ENST00000374319.4_Splice_Site_p.G260V|IKZF2_ENST00000413091.3_3'UTR			Q9UKS7	IKZF2_HUMAN	IKAROS family zinc finger 2 (Helios)	286					positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(1)|cervix(1)|endometrium(1)|large_intestine(7)|lung(7)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	23		Esophageal squamous(248;0.0559)|Renal(323;0.218)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;2.97e-07)|all cancers(144;1.53e-05)|LUSC - Lung squamous cell carcinoma(224;0.00599)|Lung(261;0.00792)		GAGCTTTTCCCCTGGAAGGGA	0.373																																																0													35	35	35					2																	213872808		2203	4300	6503	SO:0001630	splice_region_variant	22807			AF130863	CCDS2395.1, CCDS46507.1	2q13.1	2013-01-08	2006-08-25	2006-08-25	ENSG00000030419	ENSG00000030419		"Zinc fingers, C2H2-type", "IKAROS zinc fingers"	13177	protein-coding gene	gene with protein product		606234	"zinc finger protein, subfamily 1A, 2 (Helios)"	ZNFN1A2		9512513, 9560339	Standard	NM_001079526		Approved	Helios	uc002vem.3	Q9UKS7	OTTHUMG00000133005	ENST00000434687.1:c.857-1G>T	2.37:g.213872808C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q53YJ5|Q6PQC5|Q6PQC6|Q6PQC7|Q6PQC8|Q6PQD0|Q6PQD1|Q8N6S1	Missense_Mutation	SNP	ENST00000434687.1	37	CCDS2395.1	.	.	.	.	.	.	.	.	.	.	C	16.55	3.154388	0.57259	.	.	ENSG00000030419	ENST00000457361;ENST00000342002;ENST00000434687;ENST00000374319;ENST00000451136;ENST00000421754;ENST00000374327	T;T;T;T;T;T;T	0.24350	2.74;2.71;2.74;2.88;2.86;3.06;1.86	5.83	5.83	0.93111	.	0.072285	0.64402	D	0.000018	T	0.60090	0.2242	M	0.88979	2.995	0.80722	D	1	D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D	0.97110	1.0;1.0;1.0;0.998;0.999;0.999	T	0.66248	-0.5971	10	0.87932	D	0	.	18.2957	0.90145	0.0:1.0:0.0:0.0	.	214;212;141;260;286;64	C9JCG7;C9JTM9;F5H8M1;Q9UKS7-2;Q9UKS7;Q96LD7	.;.;.;.;IKZF2_HUMAN;.	V	286;292;286;260;214;212;141	ENSP00000410447:G286V;ENSP00000342876:G292V;ENSP00000412869:G286V;ENSP00000363439:G260V;ENSP00000395203:G214V;ENSP00000399574:G212V;ENSP00000363447:G141V	ENSP00000342876:G292V	G	-	2	0	IKZF2	213581053	1.000000	0.71417	1.000000	0.80357	0.898000	0.52572	5.731000	0.68554	2.750000	0.94351	0.655000	0.94253	GGG		0.373	IKZF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256593.3	NM_016260	Missense_Mutation	A	213872808	C	A	213872808	5	1	601	1	0	0	0	0	0	0	1	0	7622	637	22	4	727	4	IKZF2	2	213872808	Splice_Site	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	68715418	213872808	29326565	17	36060										
PER2	8864	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	239162231	239162231	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gacacgggccccccagatccGgtgctctcagatgagtctcg	12	15	2	3	rs566281173	byFrequency	TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr2:239162231G>A	ENST00000254657.3	-	19	2712	c.2433C>T	c.(2431-2433)acC>acT	p.T811T	PER2_ENST00000254658.3_3'UTR|AC096574.4_ENST00000456601.1_RNA	NM_022817.2	NP_073728.1	O15055	PER2_HUMAN	period circadian clock 2	811					circadian regulation of gene expression (GO:0032922)|circadian regulation of translation (GO:0097167)|circadian rhythm (GO:0007623)|fatty acid metabolic process (GO:0006631)|gluconeogenesis (GO:0006094)|glycogen biosynthetic process (GO:0005978)|histone H3 deacetylation (GO:0070932)|lactate biosynthetic process (GO:0019249)|negative regulation of circadian rhythm (GO:0042754)|negative regulation of DNA-templated transcription, termination (GO:0060567)|negative regulation of fat cell proliferation (GO:0070345)|negative regulation of protein ubiquitination (GO:0031397)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription regulatory region DNA binding (GO:2000678)|negative regulation of transcription, DNA-templated (GO:0045892)|regulation of cell cycle (GO:0051726)|regulation of circadian rhythm (GO:0042752)|regulation of glutamate uptake involved in transmission of nerve impulse (GO:0051946)|regulation of insulin secretion (GO:0050796)|regulation of neurogenesis (GO:0050767)|regulation of vasoconstriction (GO:0019229)|response to ischemia (GO:0002931)|transcription, DNA-templated (GO:0006351)|white fat cell differentiation (GO:0050872)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	pre-mRNA binding (GO:0036002)|signal transducer activity (GO:0004871)|transcription coactivator activity (GO:0003713)|transcription factor binding transcription factor activity (GO:0000989)|transcription regulatory region sequence-specific DNA binding (GO:0000976)|ubiquitin binding (GO:0043130)			NS(1)|breast(5)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(3)|lung(16)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	37		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)		CCCCAGATCCGGTGCTCTCAG	0.572													g|||	2	0.000399361	0.0	0.0	5008	,	,		14310	0.0		0.0	False		,,,				2504	0.002															0													12	15	14					2																	239162231		2199	4298	6497	SO:0001819	synonymous_variant	8864			AB002345	CCDS2528.1	2q37.3	2012-12-13	2012-12-13		ENSG00000132326	ENSG00000132326			8846	protein-coding gene	gene with protein product		603426	"period (Drosophila) homolog 2", "period homolog 2 (Drosophila)"			9427249, 17218255	Standard	NM_022817		Approved	KIAA0347	uc002vyc.3	O15055	OTTHUMG00000152884	ENST00000254657.3:c.2433C>T	2.37:g.239162231G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2I2P7|Q4ZG49|Q6DT41|Q9UQ45	Silent	SNP	ENST00000254657.3	37	CCDS2528.1																																																																																				0.572	PER2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257167.1	NM_022817		A	239162231	G	A	239162231	2	1	601	1	0	0	0	0	0	0	0	1	11737	1103	39	1		1	PER2	2	239162231	Silent	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	25289423	239162231	4037142	18	36061										
DNAH1	25981	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	52429465	52429465	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ccaaaaagctctctgccatcTccctgggccaggggcaggtc	11	15	2	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr3:52429465T>A	ENST00000420323.2	+	69	11371	c.11110T>A	c.(11110-11112)Tcc>Acc	p.S3704T		NM_015512.4	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	3769					cilium movement (GO:0003341)|cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|response to mechanical stimulus (GO:0009612)	axonemal dynein complex (GO:0005858)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			cervix(2)|endometrium(18)|kidney(6)|large_intestine(3)|lung(31)|prostate(1)|urinary_tract(1)	62				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)		CTCTGCCATCTCCCTGGGCCA	0.627																																																0													36	38	37					3																	52429465		1924	4124	6048	SO:0001583	missense	25981			U61738	CCDS46842.1	3p21-p14	2008-02-05	2006-09-04		ENSG00000114841	ENSG00000114841		"Axonemal dyneins"	2940	protein-coding gene	gene with protein product		603332	"dynein, axonemal, heavy polypeptide 1"			8812413, 9256245	Standard	NM_015512		Approved	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11	uc011bef.2	Q9P2D7	OTTHUMG00000158378	ENST00000420323.2:c.11110T>A	3.37:g.52429465T>A	ENSP00000401514:p.Ser3704Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1R6|O00436|O15435|O95491|Q6ZU48|Q86YK7|Q8TEJ4|Q92863|Q9H8E6|Q9UFW6|Q9Y4Z7	Missense_Mutation	SNP	ENST00000420323.2	37	CCDS46842.1	.	.	.	.	.	.	.	.	.	.	T	19.51	3.840907	0.71488	.	.	ENSG00000114841	ENST00000420323;ENST00000273600	T	0.14022	2.54	4.38	4.38	0.52667	.	0.000000	0.64402	D	0.000005	T	0.57110	0.2031	H	0.99435	4.565	0.45366	D	0.998355	D;D	0.89917	1.0;0.99	D;D	0.85130	0.997;0.979	T	0.76963	-0.2764	10	0.87932	D	0	.	13.7712	0.63026	0.0:0.0:0.0:1.0	.	3704;3769	C9JXH6;Q9P2D7-2	.;.	T	3704;457	ENSP00000401514:S3704T	ENSP00000273600:S457T	S	+	1	0	DNAH1	52404505	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.531000	0.81973	1.837000	0.53436	0.533000	0.62120	TCC		0.627	DNAH1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350816.1	NM_015512		A	52429465	T	A	52429465	3	1	601	1	0	0	0	0	1	0	0	0	4599	1551	54	5	11380	5	DNAH1	3	52429465	Missense_Mutation	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10		52429465	145592965	19	36062										
LRIG1	26018	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	66436541	66436541	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tactccatcacttccccgtcCtgcgcgtggacgtggacaaa	9	15	1	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr3:66436541C>G	ENST00000273261.3	-	13	2177	c.1653G>C	c.(1651-1653)caG>caC	p.Q551H	SLC25A26_ENST00000536651.1_Intron|LRIG1_ENST00000383703.3_Missense_Mutation_p.Q575H|LRIG1_ENST00000496559.2_5'UTR	NM_015541.2	NP_056356.2	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like domains 1	551	Ig-like C2-type 1.				innervation (GO:0060384)|otolith morphogenesis (GO:0032474)|sensory perception of sound (GO:0007605)	integral component of membrane (GO:0016021)				NS(2)|breast(2)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(7)|lung(12)|ovary(3)|prostate(1)|skin(4)|stomach(4)|urinary_tract(1)	42		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		CTTCCCCGTCCTGCGCGTGGA	0.567																																																0													230	196	207					3																	66436541		2203	4300	6503	SO:0001583	missense	26018			AB050468	CCDS33783.1	3p14	2013-01-14			ENSG00000144749	ENSG00000144749		"Immunoglobulin superfamily / I-set domain containing"	17360	protein-coding gene	gene with protein product	"ortholog of mouse integral membrane glycoprotein LIG-1", "leucine-rich repeat protein LRIG1"	608868				11414704, 12234026	Standard	NM_015541		Approved	LIG-1, DKFZP586O1624, LIG1	uc003dmx.3	Q96JA1	OTTHUMG00000158727	ENST00000273261.3:c.1653G>C	3.37:g.66436541C>G	ENSP00000273261:p.Gln551His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IQ51|Q96CF9|Q9BYB8|Q9UFI4	Missense_Mutation	SNP	ENST00000273261.3	37	CCDS33783.1	.	.	.	.	.	.	.	.	.	.	C	11.80	1.748197	0.30955	.	.	ENSG00000144749	ENST00000273261;ENST00000383703;ENST00000383702	T;T	0.39229	1.09;1.09	6.17	6.17	0.99709	Immunoglobulin subtype (1);Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.293434	0.33075	N	0.005306	T	0.32675	0.0837	L	0.39898	1.24	0.45995	D	0.998806	B;P;B	0.38148	0.095;0.62;0.116	B;B;B	0.33568	0.045;0.166;0.044	T	0.15178	-1.0446	10	0.62326	D	0.03	.	10.391	0.44168	0.0:0.7956:0.1354:0.0689	.	575;551;551	Q96JA1-2;Q5XWD3;Q96JA1	.;.;LRIG1_HUMAN	H	551;575;454	ENSP00000273261:Q551H;ENSP00000373208:Q575H	ENSP00000273261:Q551H	Q	-	3	2	LRIG1	66519231	0.970000	0.33590	1.000000	0.80357	0.068000	0.16541	0.512000	0.22755	2.941000	0.99782	0.655000	0.94253	CAG		0.567	LRIG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351930.1	NM_015541		G	66436541	C	G	66436541	3	3	601	1	0	0	0	0	1	0	0	0	8951	680	24	4	1656	4	LRIG1	3	66436541	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	14007076	66436541	131585889	20	36063										
EPHA3	2042	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	89478285	89478285	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ttatgattgtcacagaatacAtggagaatggttccttggat	10	5	1	3			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr3:89478285A>C	ENST00000336596.2	+	12	2329	c.2104A>C	c.(2104-2106)Atg>Ctg	p.M702L	EPHA3_ENST00000494014.1_Missense_Mutation_p.M702L	NM_005233.5	NP_005224.2	P29320	EPHA3_HUMAN	EPH receptor A3	702	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cell adhesion (GO:0007155)|cell migration (GO:0016477)|cellular response to retinoic acid (GO:0071300)|ephrin receptor signaling pathway (GO:0048013)|fasciculation of motor neuron axon (GO:0097156)|fasciculation of sensory neuron axon (GO:0097155)|positive regulation of neuron projection development (GO:0010976)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of epithelial to mesenchymal transition (GO:0010717)|regulation of focal adhesion assembly (GO:0051893)|regulation of microtubule cytoskeleton organization (GO:0070507)|regulation of Rho GTPase activity (GO:0032319)	early endosome (GO:0005769)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)	ATP binding (GO:0005524)|GPI-linked ephrin receptor activity (GO:0005004)			NS(1)|breast(4)|central_nervous_system(4)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(26)|liver(3)|lung(67)|ovary(7)|pancreas(1)|prostate(4)|skin(8)|stomach(1)|upper_aerodigestive_tract(5)	139	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)		CACAGAATACATGGAGAATGG	0.299										TSP Lung(6;0.00050)																																						0													111	116	114					3																	89478285		2203	4299	6502	SO:0001583	missense	2042			M83941	CCDS2922.1, CCDS46875.1	3p11.2	2013-02-11	2004-10-28		ENSG00000044524	ENSG00000044524	2.7.10.1	"EPH receptors", "Sterile alpha motif (SAM) domain containing", "Fibronectin type III domain containing"	3387	protein-coding gene	gene with protein product		179611	"EphA3"	ETK, ETK1, TYRO4		1737782, 1311845	Standard	NM_005233		Approved	HEK, HEK4	uc003dqy.3	P29320	OTTHUMG00000159040	ENST00000336596.2:c.2104A>C	3.37:g.89478285A>C	ENSP00000337451:p.Met702Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H2V3|Q9H2V4	Missense_Mutation	SNP	ENST00000336596.2	37	CCDS2922.1	.	.	.	.	.	.	.	.	.	.	A	26.9	4.781520	0.90282	.	.	ENSG00000044524	ENST00000336596;ENST00000494014	T;T	0.62639	0.01;0.01	5.68	5.68	0.88126	Serine-threonine/tyrosine-protein kinase (2);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.70228	0.3200	L	0.39020	1.185	0.80722	D	1	P	0.50710	0.938	D	0.65773	0.938	T	0.67964	-0.5534	9	.	.	.	.	16.2237	0.82280	1.0:0.0:0.0:0.0	.	702	P29320	EPHA3_HUMAN	L	702	ENSP00000337451:M702L;ENSP00000419190:M702L	.	M	+	1	0	EPHA3	89560975	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	9.287000	0.95975	2.289000	0.77006	0.482000	0.46254	ATG		0.299	EPHA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352995.1	NM_005233		C	89478285	A	C	89478285	3	2	601	1	0	0	0	0	1	0	0	0	5170	217	8	5	2176	5	EPHA3	3	89478285	Missense_Mutation	SNP	A	TCGA-GL-A4EM-01A-11D-A25F-10	23041744	89478285	108544145	21	36064										
ATR	545	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	142279142	142279142	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	agaacaatgaacagtacacaGagcagtcagttgtaagacaa	9	7	1	4			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr3:142279142G>T	ENST00000350721.4	-	6	1625	c.1504C>A	c.(1504-1506)Ctg>Atg	p.L502M	ATR_ENST00000383101.3_Intron	NM_001184.3	NP_001175.2	Q13535	ATR_HUMAN	ATR serine/threonine kinase	502					cell cycle (GO:0007049)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to gamma radiation (GO:0071480)|cellular response to UV (GO:0034644)|DNA damage checkpoint (GO:0000077)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|multicellular organismal development (GO:0007275)|negative regulation of DNA replication (GO:0008156)|peptidyl-serine phosphorylation (GO:0018105)|positive regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043517)|protein autophosphorylation (GO:0046777)|regulation of protein binding (GO:0043393)|replicative senescence (GO:0090399)|response to drug (GO:0042493)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)|PML body (GO:0016605)|XY body (GO:0001741)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|MutLalpha complex binding (GO:0032405)|MutSalpha complex binding (GO:0032407)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(10)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(20)|liver(2)|lung(45)|ovary(3)|skin(10)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(4)	122						ACAGTACACAGAGCAGTCAGT	0.378								Other conserved DNA damage response genes																																								0													141	138	139					3																	142279142		2203	4300	6503	SO:0001583	missense	545			U76308	CCDS3124.1	3q23	2014-06-17	2014-06-17		ENSG00000175054	ENSG00000175054			882	protein-coding gene	gene with protein product	"MEC1, mitosis entry checkpoint 1, homolog (S. cerevisiae)"	601215	"ataxia telangiectasia and Rad3 related"			8978690, 8610130	Standard	NM_001184		Approved	FRP1, SCKL, SCKL1, MEC1	uc003eux.4	Q13535	OTTHUMG00000159234	ENST00000350721.4:c.1504C>A	3.37:g.142279142G>T	ENSP00000343741:p.Leu502Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q59HB2|Q7KYL3|Q93051|Q9BXK4	Missense_Mutation	SNP	ENST00000350721.4	37	CCDS3124.1	.	.	.	.	.	.	.	.	.	.	G	17.87	3.493824	0.64186	.	.	ENSG00000175054	ENST00000350721	T	0.03982	3.74	5.71	2.98	0.34508	Armadillo-type fold (1);	0.445732	0.20701	N	0.087280	T	0.10680	0.0261	L	0.34521	1.04	0.80722	D	1	D	0.76494	0.999	D	0.65233	0.933	T	0.02625	-1.1132	10	0.59425	D	0.04	-8.5525	10.5221	0.44924	0.2672:0.0:0.7328:0.0	.	502	Q13535	ATR_HUMAN	M	502	ENSP00000343741:L502M	ENSP00000343741:L502M	L	-	1	2	ATR	143761832	0.999000	0.42202	0.998000	0.56505	0.979000	0.70002	0.525000	0.22956	0.358000	0.24211	0.585000	0.79938	CTG		0.378	ATR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353995.2	NM_001184		T	142279142	G	T	142279142	3	4	601	1	0	0	0	0	1	0	0	0	1204	933	33	4	6598	4	ATR	3	142279142	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	52800857	142279142	55743288	22	36065										
CP	1356	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	148924070	148924070	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	aacatgcttcccacggatatTatcctttgatgaagacttgt	7	9	0	3			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr3:148924070T>G	ENST00000264613.6	-	6	1355	c.1093A>C	c.(1093-1095)Aat>Cat	p.N365H		NM_000096.3	NP_000087	P00450	CERU_HUMAN	ceruloplasmin (ferroxidase)	365					cellular iron ion homeostasis (GO:0006879)|copper ion transport (GO:0006825)|transmembrane transport (GO:0055085)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|lysosomal membrane (GO:0005765)	chaperone binding (GO:0051087)|copper ion binding (GO:0005507)|ferroxidase activity (GO:0004322)			breast(6)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(9)|lung(14)|ovary(1)|prostate(1)|soft_tissue(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	44		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	CCACGGATATTATCCTTTGAT	0.408																																																0													140	137	138					3																	148924070		2203	4300	6503	SO:0001583	missense	1356			M13536	CCDS3141.1	3q23-q25	2010-07-01			ENSG00000047457	ENSG00000047457	1.16.3.1		2295	protein-coding gene	gene with protein product		117700					Standard	NM_000096		Approved		uc003ewy.4	P00450	OTTHUMG00000159563	ENST00000264613.6:c.1093A>C	3.37:g.148924070T>G	ENSP00000264613:p.Asn365His	Somatic		WXS	Illumina HiSeq	Phase_I	Q14063|Q2PP18|Q9UKS4	Missense_Mutation	SNP	ENST00000264613.6	37	CCDS3141.1	.	.	.	.	.	.	.	.	.	.	T	11.00	1.511691	0.27036	.	.	ENSG00000047457	ENST00000264613;ENST00000494544	D;D	0.99239	-5.04;-5.61	5.81	-5.54	0.02544	.	1.443030	0.03609	N	0.234542	D	0.97785	0.9273	L	0.53249	1.67	0.09310	N	1	B;B;B;B	0.28128	0.0;0.201;0.0;0.0	B;B;B;B	0.24848	0.0;0.056;0.0;0.0	D	0.94485	0.7696	10	0.39692	T	0.17	0.0553	13.1324	0.59391	0.0:0.1357:0.1004:0.7639	.	365;365;365;365	A5PL27;A8K5A4;P00450;Q1L857	.;.;CERU_HUMAN;.	H	365;148	ENSP00000264613:N365H;ENSP00000420545:N148H	ENSP00000264613:N365H	N	-	1	0	CP	150406760	0.000000	0.05858	0.000000	0.03702	0.017000	0.09413	-0.776000	0.04674	-1.021000	0.03350	-0.242000	0.12053	AAT		0.408	CP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317498.1	NM_000096		G	148924070	T	G	148924070	3	3	601	1	0	0	0	0	1	0	0	0	3789	1754	61	5	2160	5	CP	3	148924070	Missense_Mutation	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10	6644928	148924070	49098360	23	36066										
NDUFB5	4711	broad.mit.edu	37	chr3	179322628	179322629	+	Frame_Shift_Ins	INS	-	-	G													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ggccatgagtttgttgcggcINSgggtttcggttactgcggtg					rs144873631|rs11539673		TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr3:179322628_179322629insG	ENST00000259037.3	+	1	139_140	c.25_26insG	c.(25-27)cggfs	p.R9fs	MRPL47_ENST00000476781.1_5'Flank|NDUFB5_ENST00000472629.1_Frame_Shift_Ins_p.R9fs|MRPL47_ENST00000259038.2_5'Flank|NDUFB5_ENST00000493866.1_Frame_Shift_Ins_p.R9fs|MRPL47_ENST00000392659.2_5'Flank	NM_002492.3	NP_002483.1	O43674	NDUB5_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 5, 16kDa	9					cellular metabolic process (GO:0044237)|mitochondrial electron transport, NADH to ubiquinone (GO:0006120)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain complex I (GO:0005747)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	NADH dehydrogenase (ubiquinone) activity (GO:0008137)	p.R9P(1)		endometrium(1)|lung(6)|skin(1)	8	all_cancers(143;9.62e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.18)			TTTGTTGCGGCGGGTTTCGGTT	0.609																																																1	Substitution - Missense(1)	lung(1)																																								SO:0001589	frameshift_variant	4711			AF047181	CCDS3234.1, CCDS56297.1, CCDS75054.1	3q27.1	2011-07-04	2002-08-29		ENSG00000136521	ENSG00000136521		"Mitochondrial respiratory chain complex / Complex I"	7700	protein-coding gene	gene with protein product	"complex I SGDH subunit"	603841	"NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 5 (16kD, SGDH)"			9425316	Standard	NM_002492		Approved	SGDH, CI-SGDH, MGC12314	uc003fkc.3	O43674	OTTHUMG00000157480	ENST00000259037.3:c.28dupG	3.37:g.179322631_179322631dupG	ENSP00000259037:p.Arg9fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q561V6	Frame_Shift_Ins	INS	ENST00000259037.3	37	CCDS3234.1																																																																																				0.609	NDUFB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348937.2	NM_002492		G	179322629	-	G	179322628	7	5	601	1	0	1	1	0	0	0	0	0	10291	759	27	0	27	0	NDUFB5	3	179322628	Frame_Shift_Ins	INS	-	TCGA-GL-A4EM-01A-11D-A25F-10	30398558	179322628	18699802	24	36067										
ABCC5	10057	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	183732125	183732125	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tgctggttctctccctcacaCttctatacccaggactgggg	9	14	3	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr3:183732125C>G	ENST00000334444.6	-	2	296	c.56G>C	c.(55-57)aGt>aCt	p.S19T	ABCC5_ENST00000446941.2_Missense_Mutation_p.S19T|ABCC5_ENST00000427120.2_Missense_Mutation_p.S19T|ABCC5_ENST00000392579.2_Missense_Mutation_p.S19T|ABCC5_ENST00000382494.2_Missense_Mutation_p.S19T|ABCC5_ENST00000265586.6_Missense_Mutation_p.S19T|ABCC5-AS1_ENST00000422946.1_RNA	NM_005688.2	NP_005679.2	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 5	19					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|hyaluronan biosynthetic process (GO:0030213)|hyaluronan metabolic process (GO:0030212)|organic anion transport (GO:0015711)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|organic anion transmembrane transporter activity (GO:0008514)			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(9)|lung(32)|ovary(3)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	62	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)		Adefovir Dipivoxil(DB00718)|Alprostadil(DB00770)|Atorvastatin(DB01076)|Cisplatin(DB00515)|Dinoprostone(DB00917)|Dipyridamole(DB00975)|Fluorouracil(DB00544)|Glutathione(DB00143)|Mercaptopurine(DB01033)|Probenecid(DB01032)|Rifampicin(DB01045)|Sildenafil(DB00203)|Sulfinpyrazone(DB01138)|Zidovudine(DB00495)	CTCCCTCACACTTCTATACCC	0.483																																																0													141	126	131					3																	183732125		2203	4300	6503	SO:0001583	missense	10057			AF104942	CCDS33898.1, CCDS43176.1	3q27	2012-03-14			ENSG00000114770	ENSG00000114770		"ATP binding cassette transporters / subfamily C"	56	protein-coding gene	gene with protein product		605251				8894702, 9827529	Standard	XM_005247058		Approved	MRP5, SMRP, EST277145, MOAT-C	uc003fmg.3	O15440	OTTHUMG00000156871	ENST00000334444.6:c.56G>C	3.37:g.183732125C>G	ENSP00000333926:p.Ser19Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B9EIQ2|O14517|Q29ZA9|Q29ZB1|Q86UX3|Q86W30|Q9UN85|Q9UNP5|Q9UQC3	Missense_Mutation	SNP	ENST00000334444.6	37	CCDS43176.1	.	.	.	.	.	.	.	.	.	.	C	6.516	0.463419	0.12402	.	.	ENSG00000114770	ENST00000334444;ENST00000265586;ENST00000427120;ENST00000392579;ENST00000382494;ENST00000437341;ENST00000446941	D;D;T;T;T	0.91577	-2.66;-2.87;1.37;1.38;1.41	5.28	2.0	0.26442	.	0.201917	0.34133	N	0.004231	T	0.81422	0.4819	L	0.36672	1.1	0.09310	N	1	B;B;B;B;B	0.31817	0.341;0.287;0.002;0.021;0.016	B;B;B;B;B	0.28011	0.059;0.085;0.008;0.033;0.011	T	0.66376	-0.5939	10	0.21014	T	0.42	-4.7806	6.1229	0.20164	0.0:0.3249:0.0:0.6751	.	19;19;19;19;19	A5PKY6;Q29ZA9;Q86UX3;Q86W30;O15440	.;.;.;.;MRP5_HUMAN	T	19	ENSP00000333926:S19T;ENSP00000265586:S19T;ENSP00000404809:S19T;ENSP00000376358:S19T;ENSP00000371934:S19T	ENSP00000265586:S19T	S	-	2	0	ABCC5	185214819	0.254000	0.23992	0.002000	0.10522	0.091000	0.18340	0.507000	0.22675	0.190000	0.20209	-0.136000	0.14681	AGT		0.483	ABCC5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346350.1	NM_005688		G	183732125	C	G	183732125	3	3	601	1	0	0	0	0	1	0	0	0	56	565	20	4	4413	4	ABCC5	3	183732125	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	4409497	183732125	14290305	25	36068										
CPZ	8532	hgsc.bcm.edu	37	chr4	8621250	8621250	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gcccgacccgctccgggcgcGcaggcagccctcggccgacg	15	20	0	0	rs144042196		TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr4:8621250G>A	ENST00000360986.4	+	11	2039	c.1865G>A	c.(1864-1866)cGc>cAc	p.R622H	CPZ_ENST00000315782.6_Missense_Mutation_p.R611H|CPZ_ENST00000382480.2_Missense_Mutation_p.R485H|CPZ_ENST00000429646.2_Missense_Mutation_p.R230H	NM_001014447.2	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z	622					proteolysis (GO:0006508)|Wnt signaling pathway (GO:0016055)	extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)	metallocarboxypeptidase activity (GO:0004181)|zinc ion binding (GO:0008270)			cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(23)|ovary(3)|pancreas(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	46						CTCCGGGCGCGCAGGCAGCCC	0.672																																																0								G	HIS/ARG,HIS/ARG,HIS/ARG	0,4402		0,0,2201	28	31	30		1865,1454,1832	2.1	0.1	4	dbSNP_134	30	1,8595	1.2+/-3.3	0,1,4297	yes	missense,missense,missense	CPZ	NM_001014447.2,NM_001014448.2,NM_003652.3	29,29,29	0,1,6498	AA,AG,GG		0.0116,0.0,0.0077	benign,benign,benign	622/653,485/516,611/642	8621250	1,12997	2201	4298	6499	SO:0001583	missense	8532			U83411	CCDS3404.1, CCDS33953.1, CCDS43212.1	4p16.1	2012-02-10			ENSG00000109625	ENSG00000109625			2333	protein-coding gene	gene with protein product	"metallocarboxypeptidase Z"	603105				9099699	Standard	NM_001014447		Approved		uc003glm.3	Q66K79	OTTHUMG00000090513	ENST00000360986.4:c.1865G>A	4.37:g.8621250G>A	ENSP00000354255:p.Arg622His	Somatic		WXS	Illumina HiSeq	Phase_I	O00520|Q96MX2	Missense_Mutation	SNP	ENST00000360986.4	37	CCDS33953.1	.	.	.	.	.	.	.	.	.	.	G	14.91	2.677115	0.47886	0.0	1.16E-4	ENSG00000109625	ENST00000360986;ENST00000382480;ENST00000315782;ENST00000429646	T;T;T;T	0.58940	0.62;1.98;0.3;1.86	4.82	2.09	0.27110	.	0.624251	0.13588	U	0.376803	T	0.51873	0.1700	M	0.62723	1.935	0.09310	N	0.999999	B;B	0.18013	0.025;0.006	B;B	0.10450	0.005;0.001	T	0.46610	-0.9179	10	0.46703	T	0.11	-25.7306	8.9438	0.35747	0.2406:0.0:0.7594:0.0	.	611;622	Q66K79-2;Q66K79	.;CBPZ_HUMAN	H	622;485;611;230	ENSP00000354255:R622H;ENSP00000371920:R485H;ENSP00000315074:R611H;ENSP00000403981:R230H	ENSP00000315074:R611H	R	+	2	0	CPZ	8672150	0.003000	0.15002	0.094000	0.20943	0.121000	0.20230	0.793000	0.26944	0.448000	0.26722	0.462000	0.41574	CGC		0.672	CPZ-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000207001.4	NM_003652		A	8621250	G	A	8621250	3	1	601	1	0	0	0	0	1	0	0	0	3841	1087	38	1	1907	1	CPZ	4	8621250	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10		8621250	182533026	26	36069										
GBA3	57733	broad.mit.edu	37	chr4	22737642	22737642	+	RNA	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gaaaaggcccttgtgtctggGacacatttactcatcaggga	11	9	3	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr4:22737642G>T	ENST00000503442.1	+	0	188				GBA3_ENST00000508166.1_RNA|GBA3_ENST00000511446.2_RNA	NM_001128432.2	NP_001121904.1	Q9H227	GBA3_HUMAN	glucosidase, beta, acid 3 (gene/pseudogene)						carbohydrate metabolic process (GO:0005975)|glycoside catabolic process (GO:0016139)|glycosphingolipid metabolic process (GO:0006687)|glycosylceramide catabolic process (GO:0046477)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	cytosol (GO:0005829)	beta-galactosidase activity (GO:0004565)|beta-glucosidase activity (GO:0008422)|glycosylceramidase activity (GO:0017042)			breast(1)|kidney(2)|large_intestine(4)|lung(20)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	33						TTGTGTCTGGGACACATTTAC	0.448																																																0													112	115	114					4																	22737642		1931	4143	6074			57733			AB017913		4p15.2	2013-05-09	2013-05-09		ENSG00000249948	ENSG00000249948	3.2.1.21		19069	protein-coding gene	gene with protein product	"klotho-related protein"	606619	"glucosidase, beta, acid 3 (cytosolic)"			11389701	Standard	NM_020973		Approved	GLUC, KLrP	uc031sdv.1	Q9H227	OTTHUMG00000160448		4.37:g.22737642G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q32LY7|Q3MIH4|Q53GG8|Q6NSF4|Q8NHT8|Q9H3T4|Q9H4C6	Missense_Mutation	SNP	ENST00000503442.1	37																																																																																					0.448	GBA3-003	KNOWN	basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000360620.2			T	22737642	G	T	22737642	1	4	601	0	1	0	0	0	0	0	0	0	6275	1174	41	4		4	GBA3	4	22737642	RNA	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	14116392	22737642	168416634	27	36070										
SEC31A	22872	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	83769958	83769958	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tctggaccatatcactcacaTggggataatattgttgagtt	9	7	3	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr4:83769958T>G	ENST00000395310.2	-	20	2683	c.2501A>C	c.(2500-2502)cAt>cCt	p.H834P	SEC31A_ENST00000500777.2_Splice_Site_p.H795P|SEC31A_ENST00000508479.1_Splice_Site_p.H834P|SEC31A_ENST00000505984.1_Splice_Site_p.H795P|SEC31A_ENST00000509142.1_Splice_Site_p.H834P|SEC31A_ENST00000508502.1_Splice_Site_p.H834P|SEC31A_ENST00000311785.7_Splice_Site_p.H834P|SEC31A_ENST00000513858.1_Splice_Site_p.H795P|SEC31A_ENST00000505472.1_Splice_Site_p.H834P|SEC31A_ENST00000355196.2_Splice_Site_p.H834P|SEC31A_ENST00000348405.4_Splice_Site_p.H795P|SEC31A_ENST00000326950.5_Splice_Site_p.H795P|SEC31A_ENST00000443462.2_Splice_Site_p.H829P|SEC31A_ENST00000432794.1_Splice_Site_p.H834P|SEC31A_ENST00000448323.1_Splice_Site_p.H834P|SEC31A_ENST00000264405.5_Splice_Site_p.H567P	NM_001077207.2|NM_001077208.2|NM_014933.3	NP_001070675.1|NP_001070676.1|NP_055748.2	O94979	SC31A_HUMAN	SEC31 homolog A (S. cerevisiae)	834	Interaction with PDCD6.|Pro-rich.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular protein metabolic process (GO:0044267)|COPII vesicle coating (GO:0048208)|endoplasmic reticulum unfolded protein response (GO:0030968)|ER to Golgi vesicle-mediated transport (GO:0006888)|membrane organization (GO:0061024)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)|protein transport (GO:0015031)|response to calcium ion (GO:0051592)	COPII vesicle coat (GO:0030127)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum exit site (GO:0070971)|endoplasmic reticulum membrane (GO:0005789)|ER to Golgi transport vesicle (GO:0030134)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|intracellular membrane-bounded organelle (GO:0043231)|perinuclear region of cytoplasm (GO:0048471)|vesicle coat (GO:0030120)	calcium-dependent protein binding (GO:0048306)		SEC31A/ALK(3)|SEC31A/JAK2(4)	breast(1)	1		Hepatocellular(203;0.114)				ATCACTCACATGGGGATAATA	0.448																																																0													84	81	82					4																	83769958		2203	4300	6503	SO:0001630	splice_region_variant	22872			AB018358	CCDS3596.1, CCDS3597.1, CCDS43244.1, CCDS47088.1, CCDS54773.1, CCDS75155.1, CCDS75156.1	4q21.3	2013-01-10	2006-10-05	2006-09-07	ENSG00000138674	ENSG00000138674		"WD repeat domain containing"	17052	protein-coding gene	gene with protein product		610257	"SEC31-like 1 (S. cerevisiae)", "Sec31 homolog A (S. cerevisiae)"	SEC31L1		10048485, 10788476	Standard	NM_001077206		Approved	KIAA0905, ABP125, ABP130	uc003hnh.3	O94979	OTTHUMG00000130297	ENST00000395310.2:c.2502+1A>C	4.37:g.83769958T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DIW6|B7ZKZ7|B7ZL00|H7C2W3|Q17RR5|Q5H9P6|Q5XG74|Q659G7|Q6ZU90|Q7LCX9|Q86TJ0|Q8IZH4|Q9P048|Q9P0A6|Q9UM05|Q9UM06	Missense_Mutation	SNP	ENST00000395310.2	37	CCDS3596.1	.	.	.	.	.	.	.	.	.	.	T	15.96	2.985948	0.53934	.	.	ENSG00000138674	ENST00000348405;ENST00000513858;ENST00000395310;ENST00000443462;ENST00000509142;ENST00000432794;ENST00000448323;ENST00000326950;ENST00000311785;ENST00000505472;ENST00000500777;ENST00000508502;ENST00000355196;ENST00000264405;ENST00000505984;ENST00000508479	T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.36520	1.43;1.25;2.49;2.45;1.3;2.39;2.49;1.43;1.3;1.27;1.25;2.46;2.49;3.37;2.42;2.36	5.72	5.72	0.89469	.	0.270404	0.40640	N	0.001049	T	0.31482	0.0798	N	0.12182	0.205	0.45118	D	0.998132	B;B;B;B;B;B;P;B;P	0.37038	0.357;0.167;0.357;0.0;0.0;0.0;0.49;0.238;0.579	B;B;B;B;B;B;B;B;P	0.46975	0.232;0.123;0.232;0.001;0.002;0.001;0.409;0.125;0.533	T	0.17806	-1.0357	10	0.30078	T	0.28	-7.7203	14.2292	0.65879	0.0:0.0:0.0:1.0	.	829;795;834;795;795;834;834;834;567	B4DIW6;B7ZL00;D6RHZ5;O94979-6;O94979-4;O94979-3;O94979-2;O94979;O94979-7	.;.;.;.;.;.;.;SC31A_HUMAN;.	P	795;795;834;829;834;834;834;795;834;834;795;834;834;567;795;834	ENSP00000337602:H795P;ENSP00000426886:H795P;ENSP00000378721:H834P;ENSP00000408027:H829P;ENSP00000426569:H834P;ENSP00000407944:H834P;ENSP00000400926:H834P;ENSP00000325087:H795P;ENSP00000309070:H834P;ENSP00000421633:H834P;ENSP00000421464:H795P;ENSP00000424635:H834P;ENSP00000347329:H834P;ENSP00000264405:H567P;ENSP00000424451:H795P;ENSP00000425999:H834P	ENSP00000264405:H567P	H	-	2	0	SEC31A	83988982	1.000000	0.71417	1.000000	0.80357	0.300000	0.27592	5.132000	0.64758	2.184000	0.69523	0.383000	0.25322	CAT		0.448	SEC31A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252640.1	NM_016211	Missense_Mutation	G	83769958	T	G	83769958	5	3	601	1	0	0	0	0	0	0	1	0	14011	1478	51	5	1193	5	SEC31A	4	83769958	Splice_Site	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10	61032316	83769958	107384318	28	36071										
GRID2	2895	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	94690404	94690404	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gtgacatggacatcctgaagCacaaatggtggcctaagaat	11	8	0	3			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr4:94690404C>T	ENST00000282020.4	+	15	2662	c.2404C>T	c.(2404-2406)Cac>Tac	p.H802Y	GRID2_ENST00000510992.1_Missense_Mutation_p.H707Y	NM_001510.2	NP_001501.2	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	802					cellular protein localization (GO:0034613)|cerebellar granule cell differentiation (GO:0021707)|glutamate receptor signaling pathway (GO:0007215)|heterophilic cell-cell adhesion (GO:0007157)|ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|prepulse inhibition (GO:0060134)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of neuron apoptotic process (GO:0043523)|regulation of neuron projection development (GO:0010975)|synaptic transmission, glutamatergic (GO:0035249)|transport (GO:0006810)	cell junction (GO:0030054)|dendrite (GO:0030425)|dendritic spine (GO:0043197)|integral component of plasma membrane (GO:0005887)|ionotropic glutamate receptor complex (GO:0008328)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|synapse (GO:0045202)	extracellular-glutamate-gated ion channel activity (GO:0005234)|glutamate receptor activity (GO:0008066)|ionotropic glutamate receptor activity (GO:0004970)|PDZ domain binding (GO:0030165)|scaffold protein binding (GO:0097110)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(6)|kidney(4)|large_intestine(18)|lung(45)|ovary(3)|prostate(6)|skin(9)|upper_aerodigestive_tract(3)|urinary_tract(1)	100		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)		CATCCTGAAGCACAAATGGTG	0.483																																																0													124	117	119					4																	94690404		2203	4300	6503	SO:0001583	missense	2895			AF009014	CCDS3637.1, CCDS68758.1	4q22	2012-08-29			ENSG00000152208	ENSG00000152208		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4576	protein-coding gene	gene with protein product		602368				9465309	Standard	NM_001510		Approved	GluD2, GluR-delta-2	uc011cdt.2	O43424	OTTHUMG00000130975	ENST00000282020.4:c.2404C>T	4.37:g.94690404C>T	ENSP00000282020:p.His802Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	E9PH24|Q4KKU8|Q4KKU9|Q4KKV0|Q59FZ1	Missense_Mutation	SNP	ENST00000282020.4	37	CCDS3637.1	.	.	.	.	.	.	.	.	.	.	C	19.45	3.829280	0.71258	.	.	ENSG00000152208	ENST00000282020;ENST00000510992	T;T	0.26957	1.7;1.7	5.17	5.17	0.71159	Extracellular solute-binding protein, family 3 (1);Ionotropic glutamate receptor (2);	0.054536	0.64402	D	0.000001	T	0.16514	0.0397	N	0.08118	0	0.58432	D	0.999992	B;B	0.30584	0.286;0.286	B;B	0.26693	0.072;0.072	T	0.11324	-1.0592	10	0.87932	D	0	.	18.7052	0.91635	0.0:1.0:0.0:0.0	.	707;802	E9PH24;O43424	.;GRID2_HUMAN	Y	802;707	ENSP00000282020:H802Y;ENSP00000421257:H707Y	ENSP00000282020:H802Y	H	+	1	0	GRID2	94909427	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	3.713000	0.54882	2.415000	0.81967	0.650000	0.86243	CAC		0.483	GRID2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253588.2			T	94690404	C	T	94690404	3	4	601	1	0	0	0	0	1	0	0	0	6779	710	25	2	2462	2	GRID2	4	94690404	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	10920446	94690404	96463872	29	36072										
ZCCHC10	54819	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	132342536	132342536	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gggcctatgtaggtattttcTttttcctgtgcattcataag	9	7	2	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr5:132342536T>G	ENST00000509437.1	-	3	191	c.184A>C	c.(184-186)Aga>Cga	p.R62R	ZCCHC10_ENST00000508080.1_5'UTR|ZCCHC10_ENST00000509008.1_Silent_p.R40R|ZCCHC10_ENST00000513848.1_Silent_p.R40R|ZCCHC10_ENST00000355372.2_Silent_p.R62R|ZCCHC10_ENST00000513541.1_Silent_p.R62R|ZCCHC10_ENST00000324170.3_Silent_p.R40R			Q8TBK6	ZCH10_HUMAN	zinc finger, CCHC domain containing 10	62							nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AGGTATTTTCTTTTTCCTGTG	0.338																																																0													91	83	85					5																	132342536		2201	4298	6499	SO:0001819	synonymous_variant	54819			BC005211	CCDS4165.1, CCDS75300.1, CCDS75301.1, CCDS75302.1	5q31.1	2008-05-02			ENSG00000155329	ENSG00000155329		"Zinc fingers, CCHC domain containing"	25954	protein-coding gene	gene with protein product						12477932	Standard	XM_005272024		Approved	FLJ20094	uc003kyg.3	Q8TBK6	OTTHUMG00000129013	ENST00000509437.1:c.184A>C	5.37:g.132342536T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NXR4	Silent	SNP	ENST00000509437.1	37																																																																																					0.338	ZCCHC10-004	NOVEL	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000370163.1	NM_017665		G	132342536	T	G	132342536	2	3	601	1	0	0	0	0	0	0	0	1	17591	1617	56	5		5	ZCCHC10	5	132342536	Silent	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10		132342536	48572724	30	36073										
DDX41	51428	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	176943931	176943931	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ctctcctaccttccgttcggGttccgactcctccattcttt	5	17	2	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr5:176943931G>T	ENST00000507955.1	-	1	539	c.16C>A	c.(16-18)Ccc>Acc	p.P6T	DDX41_ENST00000506965.1_5'UTR	NM_016222.2	NP_057306.2	Q9UJV9	DDX41_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 41	6					apoptotic process (GO:0006915)|cellular response to interferon-beta (GO:0035458)|defense response to virus (GO:0051607)|innate immune response (GO:0045087)|mRNA splicing, via spliceosome (GO:0000398)|multicellular organismal development (GO:0007275)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of type I interferon production (GO:0032481)|regulation of type I interferon production (GO:0032479)|RNA processing (GO:0006396)	catalytic step 2 spliceosome (GO:0071013)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)					all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			TTCCGTTCGGGTTCCGACTCC	0.657																																																0													73	61	65					5																	176943931		2202	4300	6502	SO:0001583	missense	51428			AF195417	CCDS4427.1	5q35.3	2008-02-05			ENSG00000183258	ENSG00000183258		"DEAD-boxes"	18674	protein-coding gene	gene with protein product		608170				10607561	Standard	NM_016222		Approved	ABS, MGC8828	uc003mho.3	Q9UJV9	OTTHUMG00000130858	ENST00000507955.1:c.16C>A	5.37:g.176943931G>T	ENSP00000422753:p.Pro6Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDC8|Q96BK6|Q96K05|Q9NT96|Q9NW04	Missense_Mutation	SNP	ENST00000507955.1	37	CCDS4427.1	.	.	.	.	.	.	.	.	.	.	G	14.48	2.547551	0.45383	.	.	ENSG00000183258	ENST00000507955	T	0.26518	1.73	4.65	3.71	0.42584	.	1.216860	0.06063	N	0.658641	T	0.20333	0.0489	N	0.22421	0.69	0.34597	D	0.716069	B	0.25904	0.137	B	0.23018	0.043	T	0.05289	-1.0894	10	0.30854	T	0.27	-19.3593	12.3624	0.55211	0.0:0.1709:0.8291:0.0	.	6	Q9UJV9	DDX41_HUMAN	T	6	ENSP00000422753:P6T	ENSP00000422753:P6T	P	-	1	0	DDX41	176876537	1.000000	0.71417	1.000000	0.80357	0.941000	0.58515	1.870000	0.39529	2.571000	0.86741	0.591000	0.81541	CCC		0.657	DDX41-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253432.2	NM_016222		T	176943931	G	T	176943931	3	4	601	1	0	0	0	0	1	0	0	0	4363	1261	44	4	1920	4	DDX41	5	176943931	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	44601395	176943931	3971329	31	36074										
COL12A1	1303	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	75860944	75860944	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	atctgccacattgtatgcatGggtatcatcaggatcagttg	10	8	4	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr6:75860944G>T	ENST00000322507.8	-	21	4369	c.4060C>A	c.(4060-4062)Cat>Aat	p.H1354N	COL12A1_ENST00000483888.2_Missense_Mutation_p.H1354N|COL12A1_ENST00000416123.2_Missense_Mutation_p.H1354N|COL12A1_ENST00000345356.6_Missense_Mutation_p.H190N	NM_004370.5	NP_004361.3	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1	1354	VWFA 3. {ECO:0000255|PROSITE- ProRule:PRU00219}.				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|skeletal system development (GO:0001501)	collagen type XII trimer (GO:0005595)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|vesicle (GO:0031982)	extracellular matrix structural constituent conferring tensile strength (GO:0030020)			breast(7)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(5)|kidney(5)|large_intestine(44)|liver(1)|lung(77)|ovary(7)|prostate(3)|skin(4)|stomach(2)|upper_aerodigestive_tract(4)|urinary_tract(2)	169						TTGTATGCATGGGTATCATCA	0.368																																																0													171	170	170					6																	75860944		1901	4128	6029	SO:0001583	missense	1303			U73779	CCDS43481.1, CCDS43482.1	6q12-q13	2013-02-11	2003-07-24		ENSG00000111799	ENSG00000111799		"Proteoglycans / Extracellular Matrix : Collagen proteoglycans", "Collagens", "Fibronectin type III domain containing"	2188	protein-coding gene	gene with protein product	"collagen type XII proteoglycan"	120320	"collagen, type XII, alpha 1-like"	COL12A1L		9143499	Standard	XM_006715334		Approved		uc003phs.3	Q99715	OTTHUMG00000015051	ENST00000322507.8:c.4060C>A	6.37:g.75860944G>T	ENSP00000325146:p.His1354Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O43853|Q15955|Q5VYK1|Q5VYK2|Q71UR3|Q99716	Missense_Mutation	SNP	ENST00000322507.8	37	CCDS43482.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	18.98|18.98	3.738638|3.738638	0.69304|0.69304	.|.	.|.	ENSG00000111799|ENSG00000111799	ENST00000322507;ENST00000432784;ENST00000345356;ENST00000416123;ENST00000483888|ENST00000419671	D;D;D;D|.	0.84516|.	-1.86;-1.86;-1.86;-1.86|.	5.6|5.6	5.6|5.6	0.85130|0.85130	von Willebrand factor, type A (3);|.	0.072196|.	0.64402|.	D|.	0.000020|.	T|T	0.57548|0.57548	0.2061|0.2061	M|M	0.63169|0.63169	1.94|1.94	0.49915|0.49915	D|D	0.999831|0.999831	B;D|.	0.60575|.	0.345;0.988|.	B;D|.	0.64237|.	0.199;0.923|.	T|T	0.57289|0.57289	-0.7837|-0.7837	10|5	0.66056|.	D|.	0.02|.	.|.	12.886|12.886	0.58045|0.58045	0.0744:0.0:0.9256:0.0|0.0744:0.0:0.9256:0.0	.|.	190;1354|.	Q99715-2;Q99715|.	.;COCA1_HUMAN|.	N|Q	1354;1354;190;1354;1354|95	ENSP00000325146:H1354N;ENSP00000305147:H190N;ENSP00000412864:H1354N;ENSP00000421216:H1354N|.	ENSP00000325146:H1354N|.	H|P	-|-	1|2	0|0	COL12A1|COL12A1	75917664|75917664	1.000000|1.000000	0.71417|0.71417	0.509000|0.509000	0.27700|0.27700	0.925000|0.925000	0.55904|0.55904	7.690000|7.690000	0.84178|0.84178	2.631000|2.631000	0.89168|0.89168	0.655000|0.655000	0.94253|0.94253	CAT|CCA		0.368	COL12A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041249.3	NM_004370		T	75860944	G	T	75860944	3	4	601	1	0	0	0	0	1	0	0	0	3671	1348	47	4	5315	4	COL12A1	6	75860944	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10		75860944	95254123	32	36075										
MYO6	4646	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	76602272	76602272	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	agtggaggcacagctggcccGacagaaggaggaggaatccc	16	10	0	1	rs529167250		TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr6:76602272G>C	ENST00000369977.3	+	28	3111	c.2972G>C	c.(2971-2973)cGa>cCa	p.R991P	MYO6_ENST00000369975.1_Missense_Mutation_p.R991P|MYO6_ENST00000369981.3_Missense_Mutation_p.R991P|MYO6_ENST00000369985.4_Missense_Mutation_p.R991P	NM_004999.3	NP_004990.3	Q9UM54	MYO6_HUMAN	myosin VI	991	Glu-rich.				actin filament-based movement (GO:0030048)|auditory receptor cell differentiation (GO:0042491)|cellular response to electrical stimulus (GO:0071257)|dendrite development (GO:0016358)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|endocytosis (GO:0006897)|glutamate secretion (GO:0014047)|inner ear morphogenesis (GO:0042472)|intracellular protein transport (GO:0006886)|locomotory behavior (GO:0007626)|membrane organization (GO:0061024)|metabolic process (GO:0008152)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein targeting (GO:0006605)|regulation of secretion (GO:0051046)|regulation of synaptic plasticity (GO:0048167)|response to drug (GO:0042493)|sensory perception of sound (GO:0007605)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	apical part of cell (GO:0045177)|axon (GO:0030424)|cell cortex (GO:0005938)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|DNA-directed RNA polymerase II, holoenzyme (GO:0016591)|endocytic vesicle (GO:0030139)|extracellular vesicular exosome (GO:0070062)|filamentous actin (GO:0031941)|Golgi apparatus (GO:0005794)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|microvillus (GO:0005902)|neuronal cell body (GO:0043025)|nuclear membrane (GO:0031965)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|ruffle (GO:0001726)|ruffle membrane (GO:0032587)|unconventional myosin complex (GO:0016461)|vesicle membrane (GO:0012506)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|calmodulin binding (GO:0005516)|minus-end directed microfilament motor activity (GO:0060001)|motor activity (GO:0003774)			breast(2)|central_nervous_system(1)|endometrium(7)|kidney(5)|large_intestine(16)|lung(19)|ovary(1)|pancreas(1)|prostate(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	58		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		CAGCTGGCCCGACAGAAGGAG	0.532																																																0													100	109	106					6																	76602272		2203	4300	6503	SO:0001583	missense	4646			U90236, AB002387	CCDS34487.1, CCDS75481.1	6q14.1	2014-09-17	2004-05-19		ENSG00000196586	ENSG00000196586		"Myosins / Myosin superfamily : Class VI"	7605	protein-coding gene	gene with protein product		600970	"deafness, autosomal recessive 37"	DFNA22, DFNB37		9259267, 11468689	Standard	XM_005248719		Approved	KIAA0389	uc003pih.1	Q9UM54	OTTHUMG00000015061	ENST00000369977.3:c.2972G>C	6.37:g.76602272G>C	ENSP00000358994:p.Arg991Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8V4|E1P540|Q5TEM5|Q5TEM6|Q5TEM7|Q9BZZ7|Q9UEG2	Missense_Mutation	SNP	ENST00000369977.3	37	CCDS34487.1	.	.	.	.	.	.	.	.	.	.	G	9.868	1.198055	0.22037	.	.	ENSG00000196586	ENST00000428345;ENST00000369981;ENST00000369985;ENST00000369977;ENST00000369975;ENST00000430435	T;T;T;T;T	0.58060	2.07;2.59;2.59;2.07;0.36	5.75	3.97	0.46021	.	0.350255	0.33477	N	0.004873	T	0.55210	0.1906	L	0.61218	1.895	0.09310	N	1	B;D	0.62365	0.086;0.991	B;D	0.67548	0.049;0.952	T	0.50939	-0.8768	10	0.72032	D	0.01	.	11.8787	0.52562	0.1401:0.0:0.8599:0.0	.	991;991	Q9UM54-2;Q9UM54-1	.;.	P	991;991;991;991;991;54	ENSP00000358998:R991P;ENSP00000359002:R991P;ENSP00000358994:R991P;ENSP00000358992:R991P;ENSP00000399406:R54P	ENSP00000358992:R991P	R	+	2	0	MYO6	76658992	0.031000	0.19500	0.018000	0.16275	0.286000	0.27126	0.655000	0.24933	1.448000	0.47680	0.491000	0.48974	CGA		0.532	MYO6-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041279.2	NM_004999		C	76602272	G	C	76602272	3	2	601	1	0	0	0	0	1	0	0	0	10088	1058	37	4	3078	4	MYO6	6	76602272	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	741328	76602272	94512795	33	36076										
C6orf167	253714	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	97629854	97629854	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tcatcccaaccaaaaagttgAataattgatataactggctg	6	8	1	2			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr6:97629854A>T	ENST00000275053.4	-	16	2575	c.2310T>A	c.(2308-2310)atT>atA	p.I770I	MMS22L_ENST00000369251.2_Silent_p.I730I	NM_198468.2	NP_940870.2	Q6ZRQ5	MMS22_HUMAN	MMS22-like, DNA repair protein	770					double-strand break repair via homologous recombination (GO:0000724)|replication fork processing (GO:0031297)	nuclear replication fork (GO:0043596)				breast(1)|endometrium(9)|kidney(2)|large_intestine(12)|lung(20)|ovary(2)|skin(3)|upper_aerodigestive_tract(1)	50						CAAAAAGTTGAATAATTGATA	0.373																																																0													174	169	171					6																	97629854		2203	4300	6503	SO:0001819	synonymous_variant	253714				CCDS5039.1	6q16.3	2010-11-11	2010-11-11	2010-11-11	ENSG00000146263	ENSG00000146263			21475	protein-coding gene	gene with protein product		615614	"chromosome 6 open reading frame 167"	C6orf167		21055983, 21055984	Standard	NM_198468		Approved	dJ39B17.2	uc003ppb.3	Q6ZRQ5	OTTHUMG00000015248	ENST00000275053.4:c.2310T>A	6.37:g.97629854A>T		Somatic		WXS	Illumina HiSeq	Phase_I	D6R9Y8|D6RBQ4|E1P529|Q5THT2|Q68CQ6|Q68D32	Silent	SNP	ENST00000275053.4	37	CCDS5039.1																																																																																				0.373	MMS22L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041573.3	NM_198468		T	97629854	A	T	97629854	2	4	601	1	0	0	0	0	0	0	0	1	2344	242	9	5		5	C6orf167	6	97629854	Silent	SNP	A	TCGA-GL-A4EM-01A-11D-A25F-10	21027582	97629854	73485213	34	36077										
SERINC1	57515	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	122777747	122777747	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tacagctttatagccaaccaAaatgttacaagggacaacac	6	10	0	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr6:122777747A>G	ENST00000339697.4	-	3	334	c.250T>C	c.(250-252)Ttg>Ctg	p.L84L		NM_020755.2	NP_065806.1	Q9NRX5	SERC1_HUMAN	serine incorporator 1	84					L-serine transport (GO:0015825)|phosphatidylserine metabolic process (GO:0006658)|phospholipid biosynthetic process (GO:0008654)|positive regulation of transferase activity (GO:0051347)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	L-serine transmembrane transporter activity (GO:0015194)			endometrium(2)|kidney(2)|large_intestine(4)|liver(1)|lung(2)|ovary(1)|skin(1)	13				GBM - Glioblastoma multiforme(226;0.126)		TAGCCAACCAAAATGTTACAA	0.333																																																0													125	110	115					6																	122777747		2203	4300	6503	SO:0001819	synonymous_variant	57515			AF087902	CCDS5125.1	6q22.32	2006-02-09	2005-10-14	2005-10-14	ENSG00000111897	ENSG00000111897			13464	protein-coding gene	gene with protein product		614548	"tumor differentially expressed 2"	TDE2		10637174	Standard	NM_020755		Approved	TMS-2, TDE1L, KIAA1253	uc003pyy.1	Q9NRX5	OTTHUMG00000015487	ENST00000339697.4:c.250T>C	6.37:g.122777747A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KY69|E1P565|O75655|Q7Z2F5|Q8TAG1|Q9NTH8|Q9ULG7	Silent	SNP	ENST00000339697.4	37	CCDS5125.1																																																																																				0.333	SERINC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042031.2	NM_020755		G	122777747	A	G	122777747	2	3	601	1	0	0	0	0	0	0	0	1	14092	11	1	3		3	SERINC1	6	122777747	Silent	SNP	A	TCGA-GL-A4EM-01A-11D-A25F-10	25147893	122777747	48337320	35	36078										
SP4	6671	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	21469335	21469335	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	caaattcaaatcaatccaacTagtagttcatctctacagga	4	10	4	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr7:21469335T>C	ENST00000222584.3	+	3	770	c.552T>C	c.(550-552)acT>acC	p.T184T		NM_003112.3	NP_003103.2	Q02446	SP4_HUMAN	Sp4 transcription factor	184					regulation of heart contraction (GO:0008016)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(6)|lung(11)|ovary(3)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	35						TCAATCCAACTAGTAGTTCAT	0.398																																																0													77	74	75					7																	21469335		2203	4300	6503	SO:0001819	synonymous_variant	6671				CCDS5373.1	7p15	2013-01-08			ENSG00000105866	ENSG00000105866		"Specificity protein transcription factors", "Zinc fingers, C2H2-type"	11209	protein-coding gene	gene with protein product		600540				1454515	Standard	XM_005249828		Approved	SPR-1, HF1B, MGC130008, MGC130009	uc003sva.3	Q02446	OTTHUMG00000094801	ENST00000222584.3:c.552T>C	7.37:g.21469335T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O60402|Q32M52	Silent	SNP	ENST00000222584.3	37	CCDS5373.1																																																																																				0.398	SP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000211617.2	NM_003112		C	21469335	T	C	21469335	2	2	601	1	0	0	0	0	0	0	0	1	14979	1509	53	3		3	SP4	7	21469335	Silent	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10		21469335	137669328	36	36079										
MYO1G	64005	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr7	45010552	45010552	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	agcggagcacgaggtcccggGgtgtggccgtcagctcagcc	17	13	2	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr7:45010552G>T	ENST00000258787.7	-	8	1089	c.953C>A	c.(952-954)cCc>cAc	p.P318H		NM_033054.2	NP_149043.2	B0I1T2	MYO1G_HUMAN	myosin IG	318	Myosin motor.					extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|myosin complex (GO:0016459)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(11)|ovary(2)|pancreas(1)|skin(4)	28						GAGGTCCCGGGGTGTGGCCGT	0.657																																																0													57	47	50					7																	45010552		2202	4300	6502	SO:0001583	missense	64005			AF380932	CCDS34629.1	7p13-p11.2	2011-09-27			ENSG00000136286	ENSG00000136286		"Myosins / Myosin superfamily : Class I"	13880	protein-coding gene	gene with protein product	"minor histocompatibility antigen HA-2"	600642					Standard	NM_033054		Approved	HA-2	uc003tmh.2	B0I1T2	OTTHUMG00000155821	ENST00000258787.7:c.953C>A	7.37:g.45010552G>T	ENSP00000258787:p.Pro318His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TEI9|Q8TES2|Q96BE2|Q96RI5|Q96RI6	Missense_Mutation	SNP	ENST00000258787.7	37	CCDS34629.1	.	.	.	.	.	.	.	.	.	.	G	16.27	3.075212	0.55646	.	.	ENSG00000136286	ENST00000258787	D	0.87029	-2.2	5.3	4.36	0.52297	Myosin head, motor domain (2);	0.183757	0.26598	N	0.023498	D	0.86871	0.6037	L	0.42744	1.35	0.09310	N	1	P;P	0.50528	0.936;0.848	P;P	0.53401	0.725;0.722	T	0.79472	-0.1789	10	0.46703	T	0.11	.	11.939	0.52890	0.0:0.2921:0.7079:0.0	.	318;318	B0I1T2-4;B0I1T2	.;MYO1G_HUMAN	H	318	ENSP00000258787:P318H	ENSP00000258787:P318H	P	-	2	0	MYO1G	44977077	0.000000	0.05858	0.428000	0.26697	0.808000	0.45660	0.514000	0.22786	2.649000	0.89929	0.655000	0.94253	CCC		0.657	MYO1G-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341832.2			T	45010552	G	T	45010552	3	4	601	1	0	0	0	0	1	0	0	0	10081	1232	43	4	2163	4	MYO1G	7	45010552	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	23541217	45010552	114128111	37	36080										
NUP205	23165	broad.mit.edu	37	chr7	135269748	135269748	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	agatttccttgcacttatgcCaatgaaggtaagtgtaataa	8	6	0	2			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr7:135269748C>A	ENST00000285968.6	+	8	1237	c.1211C>A	c.(1210-1212)cCa>cAa	p.P404Q	NUP205_ENST00000440390.2_Missense_Mutation_p.P198Q	NM_015135.2	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	404					carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|nuclear pore complex assembly (GO:0051292)|nucleocytoplasmic transport (GO:0006913)|protein import into nucleus, docking (GO:0000059)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	membrane (GO:0016020)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nuclear periphery (GO:0034399)|nuclear pore (GO:0005643)	structural constituent of nuclear pore (GO:0017056)			breast(4)|central_nervous_system(2)|endometrium(9)|kidney(7)|large_intestine(17)|liver(4)|lung(36)|ovary(5)|prostate(1)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(3)	93						GCACTTATGCCAATGAAGGTA	0.299																																																0													42	41	41					7																	135269748		2203	4300	6503	SO:0001583	missense	23165			D86978	CCDS34759.1	7q31.32	2007-03-26	2004-01-06	2004-01-07	ENSG00000155561	ENSG00000155561			18658	protein-coding gene	gene with protein product		614352	"chromosome 7 open reading frame 14"	C7orf14		9039502, 9348540	Standard	NM_015135		Approved	KIAA0225	uc003vsw.3	Q92621	OTTHUMG00000155497	ENST00000285968.6:c.1211C>A	7.37:g.135269748C>A	ENSP00000285968:p.Pro404Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8X3|Q86YC1	Missense_Mutation	SNP	ENST00000285968.6	37	CCDS34759.1	.	.	.	.	.	.	.	.	.	.	C	26.1	4.700331	0.88924	.	.	ENSG00000155561	ENST00000285968;ENST00000440390	T;T	0.33438	1.41;1.41	5.53	5.53	0.82687	.	0.000000	0.85682	D	0.000000	T	0.56920	0.2018	M	0.68593	2.085	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	T	0.57441	-0.7811	10	0.62326	D	0.03	-2.9094	19.44	0.94815	0.0:1.0:0.0:0.0	.	404	Q92621	NU205_HUMAN	Q	404;198	ENSP00000285968:P404Q;ENSP00000401983:P198Q	ENSP00000285968:P404Q	P	+	2	0	NUP205	134920288	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.818000	0.86416	2.586000	0.87340	0.591000	0.81541	CCA		0.299	NUP205-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340358.1			A	135269748	C	A	135269748	3	1	601	1	0	0	0	0	1	0	0	0	10766	594	21	4	1241	4	NUP205	7	135269748	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	90259196	135269748	23868915	38	36081										
ARMC1	55156	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	66534565	66534565	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	catcttttctctgtttgcacGgcattctgccaagtatcgaa	7	11	3	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr8:66534565G>C	ENST00000276569.3	-	3	452	c.208C>G	c.(208-210)Cgt>Ggt	p.R70G	ARMC1_ENST00000523384.1_Intron|ARMC1_ENST00000458464.2_Missense_Mutation_p.P31R	NM_018120.4	NP_060590.1	Q9NVT9	ARMC1_HUMAN	armadillo repeat containing 1	70					metal ion transport (GO:0030001)	mitochondrion (GO:0005739)	metal ion binding (GO:0046872)			cervix(1)|endometrium(3)|large_intestine(1)|lung(8)|skin(1)	14			Epithelial(68;0.103)|OV - Ovarian serous cystadenocarcinoma(28;0.235)			CTGTTTGCACGGCATTCTGCC	0.348																																																0													151	144	146					8																	66534565		2203	4300	6503	SO:0001583	missense	55156			BC011607	CCDS6181.1, CCDS69490.1	8q12.3	2013-02-14			ENSG00000104442	ENSG00000104442		"Armadillo repeat containing"	17684	protein-coding gene	gene with protein product							Standard	XM_005251264		Approved	FLJ10511, Arcp	uc003xvl.3	Q9NVT9	OTTHUMG00000164374	ENST00000276569.3:c.208C>G	8.37:g.66534565G>C	ENSP00000276569:p.Arg70Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2W7|Q9H018|Q9H820	Missense_Mutation	SNP	ENST00000276569.3	37	CCDS6181.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	16.91|16.91	3.252602|3.252602	0.59212|0.59212	.|.	.|.	ENSG00000104442|ENSG00000104442	ENST00000458464|ENST00000276569;ENST00000518908;ENST00000519352	.|T;T;T	.|0.50277	.|0.75;0.75;0.75	4.97|4.97	4.97|4.97	0.65823|0.65823	.|Armadillo-like helical (1);Armadillo-type fold (1);	.|0.054393	.|0.85682	.|D	.|0.000000	T|T	0.45875|0.45875	0.1364|0.1364	L|L	0.57536|0.57536	1.79|1.79	0.37913|0.37913	D|D	0.931434|0.931434	D|B	0.55385|0.02656	0.971|0.0	P|B	0.54629|0.04013	0.757|0.001	T|T	0.46190|0.46190	-0.9209|-0.9209	8|10	0.54805|0.17369	T|T	0.06|0.5	-15.0047|-15.0047	18.5949|18.5949	0.91226|0.91226	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	31|70	B4E2W7|Q9NVT9	.|ARMC1_HUMAN	R|G	31|70	.|ENSP00000276569:R70G;ENSP00000429191:R70G;ENSP00000429715:R70G	ENSP00000388572:P31R|ENSP00000276569:R70G	P|R	-|-	2|1	0|0	ARMC1|ARMC1	66697119|66697119	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.994000|0.994000	0.84299|0.84299	9.383000|9.383000	0.97214|0.97214	2.478000|2.478000	0.83669|0.83669	0.467000|0.467000	0.42956|0.42956	CCG|CGT		0.348	ARMC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378480.1	NM_018120		C	66534565	G	C	66534565	3	2	601	1	0	0	0	0	1	0	0	0	949	1116	39	4	660	4	ARMC1	8	66534565	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10		66534565	79829457	39	36082										
TMC1	117531	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	75355127	75355127	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	taagatgatgatggccaaggTaggtatttttatagttgtct	11	3	1	3			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr9:75355127T>C	ENST00000297784.5	+	9	993		c.e9+2		TMC1_ENST00000340019.3_Splice_Site|TMC1_ENST00000396237.3_Splice_Site	NM_138691.2	NP_619636.2	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1						auditory receptor cell development (GO:0060117)|detection of mechanical stimulus involved in sensory perception of sound (GO:0050910)|vestibular reflex (GO:0060005)	external side of plasma membrane (GO:0009897)|integral component of membrane (GO:0016021)|stereocilium bundle tip (GO:0032426)	voltage-gated calcium channel activity (GO:0005245)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(4)|lung(21)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	36						ATGGCCAAGGTAGGTATTTTT	0.358																																					Pancreas(75;173 1345 14232 34245 43413)											0													105	108	107					9																	75355127		2203	4300	6503	SO:0001630	splice_region_variant	117531			AF417578	CCDS6643.1	9q21	2014-01-28			ENSG00000165091	ENSG00000165091			16513	protein-coding gene	gene with protein product		606706	"transmembrane, cochlear expressed, 1"	DFNA36, DFNB7, DFNB11		11850618, 11850623	Standard	NM_138691		Approved		uc004aiz.1	Q8TDI8	OTTHUMG00000020014	ENST00000297784.5:c.453+2T>C	9.37:g.75355127T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8MVZ2|B1AM91	Splice_Site	SNP	ENST00000297784.5	37	CCDS6643.1	.	.	.	.	.	.	.	.	.	.	T	13.49	2.251532	0.39797	.	.	ENSG00000165091	ENST00000297784;ENST00000340019;ENST00000396235;ENST00000537917;ENST00000538054;ENST00000542143;ENST00000396237	.	.	.	5.62	5.62	0.85841	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	12.2221	0.54439	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	TMC1	74544947	1.000000	0.71417	0.998000	0.56505	0.532000	0.34746	3.240000	0.51368	2.133000	0.65898	0.533000	0.62120	.		0.358	TMC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052655.1		Intron	C	75355127	T	C	75355127	5	2	601	1	0	0	0	0	0	0	1	0	15996	1652	57	3	473	3	TMC1	9	75355127	Splice_Site	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10		75355127	65858304	40	36083										
NOTCH1	4851	broad.mit.edu	37	chr9	139391937	139391937	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gatccgtgatgtcccggttgGcaaagtggtccagcagcacc	13	12	0	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr9:139391937G>A	ENST00000277541.6	-	34	6329	c.6254C>T	c.(6253-6255)gCc>gTc	p.A2085V		NM_017617.3	NP_060087.3	P46531	NOTC1_HUMAN	notch 1	2085					anagen (GO:0042640)|aortic valve morphogenesis (GO:0003180)|apoptotic process involved in embryonic digit morphogenesis (GO:1902263)|arterial endothelial cell differentiation (GO:0060842)|atrioventricular node development (GO:0003162)|atrioventricular valve morphogenesis (GO:0003181)|auditory receptor cell fate commitment (GO:0009912)|axonogenesis (GO:0007409)|branching morphogenesis of an epithelial tube (GO:0048754)|cardiac atrium morphogenesis (GO:0003209)|cardiac chamber formation (GO:0003207)|cardiac epithelial to mesenchymal transition (GO:0060317)|cardiac left ventricle morphogenesis (GO:0003214)|cardiac muscle cell proliferation (GO:0060038)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac right atrium morphogenesis (GO:0003213)|cardiac right ventricle formation (GO:0003219)|cardiac septum morphogenesis (GO:0060411)|cardiac vascular smooth muscle cell development (GO:0060948)|cardiac ventricle morphogenesis (GO:0003208)|cell fate specification (GO:0001708)|cell migration involved in endocardial cushion formation (GO:0003273)|cellular response to follicle-stimulating hormone stimulus (GO:0071372)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|cilium morphogenesis (GO:0060271)|collecting duct development (GO:0072044)|compartment pattern specification (GO:0007386)|coronary artery morphogenesis (GO:0060982)|coronary vein morphogenesis (GO:0003169)|determination of left/right symmetry (GO:0007368)|distal tubule development (GO:0072017)|embryonic hindlimb morphogenesis (GO:0035116)|endocardial cell differentiation (GO:0060956)|endocardial cushion morphogenesis (GO:0003203)|endocardium development (GO:0003157)|endocardium morphogenesis (GO:0003160)|endoderm development (GO:0007492)|epithelial to mesenchymal transition (GO:0001837)|epithelial to mesenchymal transition involved in endocardial cushion formation (GO:0003198)|forebrain development (GO:0030900)|foregut morphogenesis (GO:0007440)|gene expression (GO:0010467)|glial cell differentiation (GO:0010001)|glomerular mesangial cell development (GO:0072144)|growth involved in heart morphogenesis (GO:0003241)|hair follicle morphogenesis (GO:0031069)|heart development (GO:0007507)|heart looping (GO:0001947)|heart trabecula morphogenesis (GO:0061384)|humoral immune response (GO:0006959)|immune response (GO:0006955)|in utero embryonic development (GO:0001701)|inflammatory response to antigenic stimulus (GO:0002437)|interleukin-4 secretion (GO:0072602)|keratinocyte differentiation (GO:0030216)|left/right axis specification (GO:0070986)|liver development (GO:0001889)|lung development (GO:0030324)|mesenchymal cell development (GO:0014031)|mitral valve formation (GO:0003192)|negative regulation of anoikis (GO:2000811)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of calcium ion-dependent exocytosis (GO:0045955)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of catalytic activity (GO:0043086)|negative regulation of cell migration involved in sprouting angiogenesis (GO:0090051)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell-substrate adhesion (GO:0010812)|negative regulation of endothelial cell chemotaxis (GO:2001027)|negative regulation of glial cell proliferation (GO:0060253)|negative regulation of myoblast differentiation (GO:0045662)|negative regulation of myotube differentiation (GO:0010832)|negative regulation of neurogenesis (GO:0050768)|negative regulation of oligodendrocyte differentiation (GO:0048715)|negative regulation of ossification (GO:0030279)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of photoreceptor cell differentiation (GO:0046533)|negative regulation of pro-B cell differentiation (GO:2000974)|negative regulation of stem cell differentiation (GO:2000737)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neural tube development (GO:0021915)|neuronal stem cell maintenance (GO:0097150)|Notch receptor processing (GO:0007220)|Notch signaling involved in heart development (GO:0061314)|Notch signaling pathway (GO:0007219)|Notch signaling pathway involved in regulation of secondary heart field cardioblast proliferation (GO:0003270)|pericardium morphogenesis (GO:0003344)|positive regulation of apoptotic process (GO:0043065)|positive regulation of astrocyte differentiation (GO:0048711)|positive regulation of BMP signaling pathway (GO:0030513)|positive regulation of cardiac muscle cell proliferation (GO:0060045)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of JAK-STAT cascade (GO:0046427)|positive regulation of keratinocyte differentiation (GO:0045618)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061419)|positive regulation of transcription of Notch receptor target (GO:0007221)|positive regulation of transcription, DNA-templated (GO:0045893)|prostate gland epithelium morphogenesis (GO:0060740)|pulmonary valve morphogenesis (GO:0003184)|regulation of epithelial cell proliferation involved in prostate gland development (GO:0060768)|regulation of extracellular matrix assembly (GO:1901201)|regulation of somitogenesis (GO:0014807)|regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation (GO:0003256)|regulation of transcription, DNA-templated (GO:0006355)|response to muramyl dipeptide (GO:0032495)|secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development (GO:0060528)|skeletal muscle cell differentiation (GO:0035914)|somatic stem cell division (GO:0048103)|sprouting angiogenesis (GO:0002040)|transcription initiation from RNA polymerase II promoter (GO:0006367)|tube formation (GO:0035148)|vasculogenesis involved in coronary vascular morphogenesis (GO:0060979)|venous endothelial cell differentiation (GO:0060843)|ventricular septum morphogenesis (GO:0060412)|ventricular trabecula myocardium morphogenesis (GO:0003222)	cell surface (GO:0009986)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|MAML1-RBP-Jkappa- ICN1 complex (GO:0002193)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)|chromatin DNA binding (GO:0031490)|core promoter binding (GO:0001047)|enzyme binding (GO:0019899)|enzyme inhibitor activity (GO:0004857)|receptor activity (GO:0004872)|RNA polymerase II transcription factor binding transcription factor activity involved in positive regulation of transcription (GO:0001190)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(16)|central_nervous_system(17)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1183)|kidney(4)|large_intestine(1)|lung(57)|oesophagus(2)|ovary(3)|pancreas(1)|prostate(3)|skin(21)|upper_aerodigestive_tract(39)|urinary_tract(3)	1359	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GTCCCGGTTGGCAAAGTGGTC	0.652			"T, Mis, O"	TRB@	T-ALL					HNSCC(8;0.001)																													Dom	yes		9	9q34.3	4851	"Notch homolog 1, translocation-associated (Drosophila) (TAN1)"		L	0													30	32	32					9																	139391937		2185	4275	6460	SO:0001583	missense	4851			AF308602	CCDS43905.1	9q34.3	2013-01-10	2010-06-24		ENSG00000148400	ENSG00000148400		"Ankyrin repeat domain containing"	7881	protein-coding gene	gene with protein product		190198	"Notch (Drosophila) homolog 1 (translocation-associated)", "Notch homolog 1, translocation-associated (Drosophila)"	TAN1		1831692	Standard	NM_017617		Approved		uc004chz.3	P46531	OTTHUMG00000020935	ENST00000277541.6:c.6254C>T	9.37:g.139391937G>A	ENSP00000277541:p.Ala2085Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q59ED8|Q5SXM3	Missense_Mutation	SNP	ENST00000277541.6	37	CCDS43905.1	.	.	.	.	.	.	.	.	.	.	G	27.4	4.824283	0.90955	.	.	ENSG00000148400	ENST00000277541	T	0.61510	0.1	5.42	5.42	0.78866	Ankyrin repeat-containing domain (4);	0.115232	0.64402	D	0.000017	T	0.78329	0.4266	M	0.83692	2.655	0.80722	D	1	D	0.89917	1.0	D	0.68483	0.958	T	0.81241	-0.1022	10	0.87932	D	0	.	18.5525	0.91071	0.0:0.0:1.0:0.0	.	2085	P46531	NOTC1_HUMAN	V	2085	ENSP00000277541:A2085V	ENSP00000277541:A2085V	A	-	2	0	NOTCH1	138511758	1.000000	0.71417	1.000000	0.80357	0.815000	0.46073	9.598000	0.98277	2.703000	0.92315	0.561000	0.74099	GCC		0.652	NOTCH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055087.1	NM_017617		A	139391937	G	A	139391937	3	1	601	1	0	0	0	0	1	0	0	0	10554	1203	42	2	1417	2	NOTCH1	9	139391937	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	64036810	139391937	1821494	41	36084										
COBRA1	25920	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	140158762	140158762	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	agcaagagggcgcgggagctGcaggggtttctcgatggcgt	19	8	1	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr9:140158762G>A	ENST00000343053.4	+	6	1186	c.849G>A	c.(847-849)ctG>ctA	p.L283L		NM_015456.3	NP_056271.2	Q8WX92	NELFB_HUMAN	negative elongation factor complex member B	283					gene expression (GO:0010467)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of viral transcription (GO:0050434)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|viral process (GO:0016032)	cytoplasm (GO:0005737)|NELF complex (GO:0032021)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)											CGCGGGAGCTGCAGGGGTTTC	0.672																																																0													63	61	62					9																	140158762		2201	4299	6500	SO:0001819	synonymous_variant	25920			AF464935	CCDS7040.1	9q34	2013-01-31	2013-01-31	2013-01-31	ENSG00000188986	ENSG00000188986			24324	protein-coding gene	gene with protein product		611180	"cofactor of BRCA1"	COBRA1		11230166, 10574461, 17910036, 17659869	Standard	NM_015456		Approved	KIAA1182, NELF-B	uc004cmm.4	Q8WX92	OTTHUMG00000131778	ENST00000343053.4:c.849G>A	9.37:g.140158762G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2BFA3|Q96EW5|Q9H9R4|Q9ULN8|Q9Y3W0	Silent	SNP	ENST00000343053.4	37	CCDS7040.1																																																																																				0.672	NELFB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254710.1	NM_015456		A	140158762	G	A	140158762	2	1	601	1	0	0	0	0	0	0	0	1	3657	1306	46	2		2	COBRA1	9	140158762	Silent	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	766825	140158762	1054669	42	36085										
C10orf18	54906	hgsc.bcm.edu;broad.mit.edu	37	chr10	5781661	5781661	+	Nonsense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ggattagcataaatagtgttCaaccagaaaataccacagcg	8	8	1	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr10:5781661C>T	ENST00000328090.5	+	13	2153	c.1528C>T	c.(1528-1530)Caa>Taa	p.Q510*	RP11-336A10.2_ENST00000411512.2_RNA	NM_017782.4	NP_060252	Q5VWN6	F208B_HUMAN	family with sequence similarity 208, member B	510																	AAATAGTGTTCAACCAGAAAA	0.383																																																0													99	93	95					10																	5781661		1895	4126	6021	SO:0001587	stop_gained	54906			BX649177	CCDS41485.1	10p15.1	2011-09-14	2011-09-14	2011-09-14	ENSG00000108021	ENSG00000108021			23484	protein-coding gene	gene with protein product			"chromosome 10 open reading frame 18"	C10orf18		12477932	Standard	NM_017782		Approved	FLJ20360, bA318E3.2, KIAA2006	uc001iij.3	Q5VWN6	OTTHUMG00000017605	ENST00000328090.5:c.1528C>T	10.37:g.5781661C>T	ENSP00000328426:p.Gln510*	Somatic		WXS	Illumina HiSeq	Phase_I	Q2YD91|Q5VWN5|Q6ZRQ8|Q8IVG4|Q9BUZ7|Q9H5J9|Q9H7A4|Q9H996|Q9NXA1	Nonsense_Mutation	SNP	ENST00000328090.5	37	CCDS41485.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	37|37	6.453755|6.453755	0.97581|0.97581	.|.	.|.	ENSG00000108021|ENSG00000108021	ENST00000328090|ENST00000380270	.|.	.|.	.|.	5.72|5.72	3.81|3.81	0.43845|0.43845	.|.	0.212671|.	0.33144|.	N|.	0.005222|.	.|T	.|0.63920	.|0.2552	.|.	.|.	.|.	0.80722|0.80722	A|A	1|1	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.69379	.|-0.5161	.|3	0.25106|.	T|.	0.35|.	.|.	13.9222|13.9222	0.63940|0.63940	0.0:0.556:0.444:0.0|0.0:0.556:0.444:0.0	.|.	.|.	.|.	.|.	X|L	510|208	.|.	ENSP00000328426:Q510X|.	Q|S	+|+	1|2	0|0	C10orf18|C10orf18	5821667|5821667	0.722000|0.722000	0.28017|0.28017	0.029000|0.029000	0.17559|0.17559	0.010000|0.010000	0.07245|0.07245	1.851000|1.851000	0.39338|0.39338	0.699000|0.699000	0.31761|0.31761	-0.274000|-0.274000	0.10170|0.10170	CAA|TCA		0.383	FAM208B-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046571.2	NM_017782		T	5781661	C	T	5781661	4	4	601	1	0	0	0	0	0	1	0	0	1598	827	29	2	1566	2	C10orf18	10	5781661	Nonsense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10		5781661	129753086	43	36086										
EPC1	80314	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	32573863	32573863	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	agatttgtccgaggtatttgTttctgaggtattggcaaact	11	5	1	2			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr10:32573863T>A	ENST00000263062.8	-	10	1776	c.1507A>T	c.(1507-1509)Aca>Tca	p.T503S	EPC1_ENST00000319778.6_Missense_Mutation_p.T503S|EPC1_ENST00000375110.2_Missense_Mutation_p.T453S|RP11-166N17.3_ENST00000419441.1_RNA	NM_025209.2	NP_079485.1	Q9H2F5	EPC1_HUMAN	enhancer of polycomb homolog 1 (Drosophila)	503					chromatin organization (GO:0006325)|histone H2A acetylation (GO:0043968)|histone H4 acetylation (GO:0043967)|negative regulation of gene expression, epigenetic (GO:0045814)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of growth (GO:0040008)|transcription, DNA-templated (GO:0006351)	NuA4 histone acetyltransferase complex (GO:0035267)|nuclear membrane (GO:0031965)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|Piccolo NuA4 histone acetyltransferase complex (GO:0032777)				breast(2)|central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(3)|lung(8)|ovary(5)|urinary_tract(1)	24		Prostate(175;0.0199)				GAGGTATTTGTTTCTGAGGTA	0.423																																																0													145	139	141					10																	32573863		2203	4300	6503	SO:0001583	missense	80314			AF277374	CCDS7172.1, CCDS60511.1, CCDS73083.1	10p11	2005-12-12			ENSG00000120616	ENSG00000120616			19876	protein-coding gene	gene with protein product		610999				10976108	Standard	NM_025209		Approved	Epl1	uc001iwg.2	Q9H2F5	OTTHUMG00000017925	ENST00000263062.8:c.1507A>T	10.37:g.32573863T>A	ENSP00000263062:p.Thr503Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DSC3|D3DRX7|Q5VW54|Q5VW56|Q5VW58|Q8NAQ4|Q8NE21|Q96LF4|Q96RR6|Q9H7T7	Missense_Mutation	SNP	ENST00000263062.8	37	CCDS7172.1	.	.	.	.	.	.	.	.	.	.	T	16.87	3.240893	0.58995	.	.	ENSG00000120616	ENST00000375110;ENST00000319778;ENST00000263062	T;T;T	0.16743	2.32;2.32;2.32	6.07	4.93	0.64822	.	0.132659	0.64402	D	0.000002	T	0.19485	0.0468	L	0.56769	1.78	0.37213	D	0.904872	B;B;B	0.26512	0.019;0.003;0.151	B;B;B	0.27796	0.031;0.027;0.083	T	0.06391	-1.0829	10	0.25106	T	0.35	-3.2229	13.751	0.62908	0.0:0.0:0.1278:0.8721	.	453;503;503	Q9H2F5-3;Q9H2F5-2;Q9H2F5	.;.;EPC1_HUMAN	S	453;503;503	ENSP00000364251:T453S;ENSP00000318559:T503S;ENSP00000263062:T503S	ENSP00000263062:T503S	T	-	1	0	EPC1	32613869	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.783000	0.68982	1.080000	0.41073	0.533000	0.62120	ACA		0.423	EPC1-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000047484.1			A	32573863	T	A	32573863	3	1	601	1	0	0	0	0	1	0	0	0	5162	1725	60	5	1027	5	EPC1	10	32573863	Missense_Mutation	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10	26792202	32573863	102960884	44	36087										
MBL2	4153	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	54527970	54527970	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tccactggccatttttcagtAgcaatacacaatcttcatca	4	12	4	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr10:54527970A>G	ENST00000373968.3	-	4	738	c.674T>C	c.(673-675)cTa>cCa	p.L225P		NM_000242.2	NP_000233.1	P11226	MBL2_HUMAN	mannose-binding lectin (protein C) 2, soluble	225	C-type lectin. {ECO:0000255|PROSITE- ProRule:PRU00040}.				acute-phase response (GO:0006953)|complement activation (GO:0006956)|complement activation, classical pathway (GO:0006958)|complement activation, lectin pathway (GO:0001867)|defense response to bacterium (GO:0042742)|defense response to Gram-positive bacterium (GO:0050830)|innate immune response (GO:0045087)|killing by host of symbiont cells (GO:0051873)|negative regulation of growth of symbiont in host (GO:0044130)|negative regulation of viral process (GO:0048525)|opsonization (GO:0008228)|positive regulation of phagocytosis (GO:0050766)|response to oxidative stress (GO:0006979)	cell surface (GO:0009986)|collagen trimer (GO:0005581)|extracellular region (GO:0005576)|extracellular space (GO:0005615)	calcium-dependent protein binding (GO:0048306)|mannose binding (GO:0005537)|receptor binding (GO:0005102)			breast(1)|endometrium(2)|lung(12)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	21						ATTTTTCAGTAGCAATACACA	0.502																																																0													379	337	351					10																	54527970		2202	4300	6502	SO:0001583	missense	4153			AF360991	CCDS7247.1	10q11.2	2014-09-17	2011-02-02		ENSG00000165471	ENSG00000165471		"Collectins"	6922	protein-coding gene	gene with protein product		154545	"mannose-binding lectin (protein C) 2, soluble (opsonic defect)"	MBL		1675710, 1672848	Standard	NM_000242		Approved	COLEC1	uc001jjt.3	P11226	OTTHUMG00000150270	ENST00000373968.3:c.674T>C	10.37:g.54527970A>G	ENSP00000363079:p.Leu225Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VB12|Q4VB13|Q4VB14|Q5SQS3|Q86SI4|Q96KE4|Q96TF7|Q96TF8|Q96TF9	Missense_Mutation	SNP	ENST00000373968.3	37	CCDS7247.1	.	.	.	.	.	.	.	.	.	.	A	17.66	3.444961	0.63178	.	.	ENSG00000165471	ENST00000373968	T	0.24350	1.86	5.13	5.13	0.70059	C-type lectin fold (1);C-type lectin, conserved site (1);C-type lectin-like (1);C-type lectin (3);	1.028080	0.07735	N	0.945891	T	0.66137	0.2759	H	0.95611	3.695	0.22811	N	0.99871	D	0.89917	1.0	D	0.85130	0.997	T	0.56805	-0.7918	10	0.87932	D	0	-1.5247	13.1902	0.59706	1.0:0.0:0.0:0.0	.	225	P11226	MBL2_HUMAN	P	225	ENSP00000363079:L225P	ENSP00000363079:L225P	L	-	2	0	MBL2	54197976	0.066000	0.20996	0.003000	0.11579	0.002000	0.02628	4.043000	0.57354	2.048000	0.60808	0.482000	0.46254	CTA		0.502	MBL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048115.1	NM_000242		G	54527970	A	G	54527970	3	3	601	1	0	0	0	0	1	0	0	0	9357	420	15	3	76	3	MBL2	10	54527970	Missense_Mutation	SNP	A	TCGA-GL-A4EM-01A-11D-A25F-10	21954107	54527970	81006777	45	36088										
HHEX	3087	broad.mit.edu	37	chr10	94450034	94450038	+	Frame_Shift_Del	DEL	GGGCC	GGGCC	-													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tacggacccggcggcttcggGggccctctgtaccccttccc							TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	GGGCC	GGGCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr10:94450034_94450038delGGGCC	ENST00000282728.5	+	1	2090_2094	c.291_295delGGGCC	c.(289-297)gggggccctfs	p.GP98fs	HHEX_ENST00000472590.2_5'Flank|HHEX_ENST00000492654.2_5'Flank	NM_002729.4	NP_002720.1	Q03014	HHEX_HUMAN	hematopoietically expressed homeobox	98	Pro-rich.				anterior/posterior pattern specification (GO:0009952)|B cell differentiation (GO:0030183)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|DNA conformation change (GO:0071103)|embryonic heart tube development (GO:0035050)|endoderm development (GO:0007492)|forebrain morphogenesis (GO:0048853)|gall bladder development (GO:0061010)|hepatic duct development (GO:0061011)|hepatoblast differentiation (GO:0061017)|hepatocyte differentiation (GO:0070365)|in utero embryonic development (GO:0001701)|interkinetic nuclear migration (GO:0022027)|mRNA export from nucleus (GO:0006406)|multicellular organism growth (GO:0035264)|myeloid leukocyte differentiation (GO:0002573)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045736)|negative regulation of transcription by competitive promoter binding (GO:0010944)|negative regulation of transcription by transcription factor localization (GO:0010621)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030948)|pancreas development (GO:0031016)|poly(A)+ mRNA export from nucleus (GO:0016973)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of Wnt signaling pathway (GO:0030177)|primary lung bud formation (GO:0060431)|primitive streak formation (GO:0090009)|protein localization to nucleus (GO:0034504)|regulation of cell proliferation (GO:0042127)|response to peptide hormone (GO:0043434)|response to wounding (GO:0009611)|thyroid gland development (GO:0030878)|transcription, DNA-templated (GO:0006351)|vasculogenesis (GO:0001570)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|protein-DNA complex (GO:0032993)	chromatin binding (GO:0003682)|DNA binding, bending (GO:0008301)|eukaryotic initiation factor 4E binding (GO:0008190)|protein homodimerization activity (GO:0042803)|repressing transcription factor binding (GO:0070491)|sequence-specific DNA binding (GO:0043565)|TBP-class protein binding (GO:0017025)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			kidney(2)|large_intestine(2)|lung(5)|ovary(1)	10						GCGGCTTCGGGGGCCCTCTGTACCC	0.737																																																0																																										SO:0001589	frameshift_variant	3087			Z21533	CCDS7423.1	10q23.33	2011-06-20	2007-02-15		ENSG00000152804	ENSG00000152804		"Homeoboxes / ANTP class : NKL subclass"	4901	protein-coding gene	gene with protein product		604420		PRHX		8096636, 8103988	Standard	NM_002729		Approved	HEX, HOX11L-PEN	uc001kid.3	Q03014	OTTHUMG00000018762	ENST00000282728.5:c.291_295delGGGCC	10.37:g.94450034_94450038delGGGCC	ENSP00000282728:p.Gly98fs	Somatic		WXS	Illumina HiSeq	Phase_I	B1AQ17|Q96CE9	Frame_Shift_Del	DEL	ENST00000282728.5	37	CCDS7423.1																																																																																				0.737	HHEX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049402.2			-	94450038	GGGCC	-	94450034	7	5	601	1	0	1	0	1	0	0	0	0	7098	1219	43	0	293	0	HHEX	10	94450034	Frame_Shift_Del	DEL	GGGCC	TCGA-GL-A4EM-01A-11D-A25F-10	39922064	94450034	41084713	46	36089										
MUC6	4588	broad.mit.edu	37	chr11	1019461	1019462	+	Frame_Shift_Ins	INS	-	-	T													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ggaggcagccctgatgtggcINSttgtggggtgacggccgtgg							TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr11:1019461_1019462insT	ENST00000421673.2	-	30	3893_3894	c.3843_3844insA	c.(3841-3846)caagccfs	p.A1282fs		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1282	Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		CCTGATGTGGCTTGTGGGGTGA	0.639																																																0																																										SO:0001589	frameshift_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.3844dupA	11.37:g.1019463_1019463dupT	ENSP00000406861:p.Ala1282fs	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Frame_Shift_Ins	INS	ENST00000421673.2	37	CCDS44513.1																																																																																				0.639	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		T	1019462	-	T	1019461	7	5	601	1	0	1	1	0	0	0	0	0	9987	797	28	0	3491	0	MUC6	11	1019461	Frame_Shift_Ins	INS	-	TCGA-GL-A4EM-01A-11D-A25F-10		1019461	133987055	47	36090										
MUC2	4583	broad.mit.edu	37	chr11	1092953	1092953	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	acccatcaccaccaccactaCggtgaccccaaccccaacac	3	22	1	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr11:1092953C>T	ENST00000441003.2	+	30	4799	c.4772C>T	c.(4771-4773)aCg>aTg	p.T1591M	MUC2_ENST00000359061.5_Splice_Site_p.T1592M|MUC2_ENST00000333592.6_5'Flank|MUC2_ENST00000361558.6_Intron	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)		p.T1592M(1)|p.T1591M(1)		NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	accaccactacggtgacccca	0.627																																																2	Substitution - Missense(2)	endometrium(2)											54	86	74					11																	1092953		1812	3313	5125	SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4772C>T	11.37:g.1092953C>T	ENSP00000415183:p.Thr1591Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	C	3.179	-0.168424	0.06461	.	.	ENSG00000198788	ENST00000441003;ENST00000359061	T;T	0.16743	2.32;2.56	1.75	-0.619	0.11572	.	6.725620	0.00827	U	0.001636	T	0.08846	0.0219	.	.	.	0.09310	N	1	D	0.60575	0.988	B	0.34489	0.184	T	0.24548	-1.0157	9	0.32370	T	0.25	.	3.3423	0.07123	0.2481:0.5888:0.0:0.163	.	1591	E7EUV1	.	M	1591;1592	ENSP00000415183:T1591M;ENSP00000351956:T1592M	ENSP00000351956:T1592M	T	+	2	0	MUC2	1082953	0.064000	0.20934	0.000000	0.03702	0.189000	0.23516	1.615000	0.36922	-0.313000	0.08728	0.121000	0.15741	ACG		0.627	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		T	1092953	C	T	1092953	3	4	601	1	0	0	0	0	1	0	0	0	9982	536	19	1	4890	1	MUC2	11	1092953	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	73492	1092953	133913563	48	36091										
CCDC86	79080	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	60609627	60609627	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ccgttaaggcgcagccgacgGctgggaggcctaaggcccga	16	13	0	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr11:60609627G>T	ENST00000227520.5	+	1	84	c.30G>T	c.(28-30)cgG>cgT	p.R10R	RP11-804A23.4_ENST00000538705.1_RNA|RP11-804A23.2_ENST00000539897.1_RNA	NM_024098.3	NP_077003.1	Q9H6F5	CCD86_HUMAN	coiled-coil domain containing 86	10					viral process (GO:0016032)	nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			endometrium(1)|large_intestine(2)|liver(2)|lung(2)|urinary_tract(3)	10						GCAGCCGACGGCTGGGAGGCC	0.642																																																0													15	16	15					11																	60609627		2187	4274	6461	SO:0001819	synonymous_variant	79080			AK025974	CCDS7993.1	11q12.2	2006-03-16			ENSG00000110104	ENSG00000110104			28359	protein-coding gene	gene with protein product		611293					Standard	NM_024098		Approved	MGC2574	uc001nqa.2	Q9H6F5	OTTHUMG00000167706	ENST00000227520.5:c.30G>T	11.37:g.60609627G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DY99	Silent	SNP	ENST00000227520.5	37	CCDS7993.1																																																																																				0.642	CCDC86-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395743.1	NM_024098		T	60609627	G	T	60609627	2	4	601	1	0	0	0	0	0	0	0	1	2863	1190	42	4		4	CCDC86	11	60609627	Silent	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	59516674	60609627	74396889	49	36092										
FERMT3	83706	broad.mit.edu	37	chr11	63978789	63978789	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ggggatgccagctcacttctCggacagcgcccagactgagg	14	13	2	2			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr11:63978789C>T	ENST00000279227.5	+	5	652	c.557C>T	c.(556-558)tCg>tTg	p.S186L	FERMT3_ENST00000345728.5_Missense_Mutation_p.S186L	NM_178443.2	NP_848537.1	Q86UX7	URP2_HUMAN	fermitin family member 3	186					integrin activation (GO:0033622)|integrin-mediated signaling pathway (GO:0007229)|leukocyte cell-cell adhesion (GO:0007159)|platelet aggregation (GO:0070527)|regulation of cell-cell adhesion mediated by integrin (GO:0033632)|substrate adhesion-dependent cell spreading (GO:0034446)	cell junction (GO:0030054)|cell projection (GO:0042995)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|podosome (GO:0002102)	integrin binding (GO:0005178)			breast(1)|cervix(1)|endometrium(4)|large_intestine(2)|lung(6)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	18						GCTCACTTCTCGGACAGCGCC	0.701																																																0													32	28	29					11																	63978789		2199	4296	6495	SO:0001583	missense	83706			L25343	CCDS8059.1, CCDS8060.1	11q13.1	2014-09-17	2010-06-24		ENSG00000149781	ENSG00000149781		"Fermitins", "Pleckstrin homology (PH) domain containing"	23151	protein-coding gene	gene with protein product	"kindlin-3"	607901	"fermitin family homolog 3 (Drosophila)"				Standard	NM_178443		Approved	URP2, KIND3, MIG2B, MGC10966, MIG-2, UNC112C	uc001nym.2	Q86UX7	OTTHUMG00000167790	ENST00000279227.5:c.557C>T	11.37:g.63978789C>T	ENSP00000279227:p.Ser186Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUA1|Q8N207|Q9BT48	Missense_Mutation	SNP	ENST00000279227.5	37	CCDS8060.1	.	.	.	.	.	.	.	.	.	.	C	10.16	1.272987	0.23221	.	.	ENSG00000149781	ENST00000544997;ENST00000345728;ENST00000279227;ENST00000541252	T;T;T;T	0.48836	1.46;0.87;0.88;0.8	3.37	3.37	0.38596	Band 4.1 domain (1);	0.235735	0.34750	N	0.003715	T	0.25457	0.0619	N	0.11427	0.14	0.39553	D	0.969006	B;B	0.19706	0.012;0.038	B;B	0.10450	0.005;0.005	T	0.10042	-1.0647	10	0.39692	T	0.17	-11.0265	8.147	0.31117	0.0:0.8833:0.0:0.1167	.	186;186	Q86UX7-2;Q86UX7	.;URP2_HUMAN	L	186;186;186;6	ENSP00000445778:S186L;ENSP00000339950:S186L;ENSP00000279227:S186L;ENSP00000438885:S6L	ENSP00000279227:S186L	S	+	2	0	FERMT3	63735365	0.997000	0.39634	0.998000	0.56505	0.122000	0.20287	3.722000	0.54948	1.915000	0.55452	0.561000	0.74099	TCG		0.701	FERMT3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000396297.1	NM_031471		T	63978789	C	T	63978789	3	4	601	1	0	0	0	0	1	0	0	0	5826	893	31	1	571	1	FERMT3	11	63978789	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	3369162	63978789	71027727	50	36093										
RNASEH2C	84153	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	65487867	65487867	+	Frame_Shift_Del	DEL	C	C	-													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	cctctccccgtagacagcggCcccgaaacgacacttcgagt					rs554234154		TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr11:65487867delC	ENST00000308418.4	-	2	382	c.194delG	c.(193-195)ggcfs	p.G65fs	RNASEH2C_ENST00000528220.1_5'UTR|RNASEH2C_ENST00000527610.1_Frame_Shift_Del_p.G65fs	NM_032193.3	NP_115569.2	Q8TDP1	RNH2C_HUMAN	ribonuclease H2, subunit C	65					RNA catabolic process (GO:0006401)	nucleus (GO:0005634)|ribonuclease H2 complex (GO:0032299)				cervix(1)	1						TAGACAGCGGCCCCGAAACGA	0.677																																																0													41	48	46					11																	65487867		2201	4296	6497	SO:0001589	frameshift_variant	84153			AF312034	CCDS8111.1	11q13.1	2014-09-17							24116	protein-coding gene	gene with protein product	"Aicardi-Goutieres syndrome 3"	610330				8244390, 16845400	Standard	NM_032193		Approved	AYP1, AGS3	uc001ofn.3	Q8TDP1		ENST00000308418.4:c.194delG	11.37:g.65487867delC	ENSP00000308193:p.Gly65fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H7F5	Frame_Shift_Del	DEL	ENST00000308418.4	37	CCDS8111.1																																																																																				0.677	RNASEH2C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390693.2	NM_032193		-	65487867	C	-	65487867	7	5	601	1	0	1	0	1	0	0	0	0	13427	739	26	0	312	0	RNASEH2C	11	65487867	Frame_Shift_Del	DEL	C	TCGA-GL-A4EM-01A-11D-A25F-10	1509078	65487867	69518649	51	36094										
PANX1	24145	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	93911576	93911576	+	Nonsense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ctctttgcgatcctcctgtaCctgcccccgctgttctggcg	9	17	2	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr11:93911576C>G	ENST00000227638.3	+	3	748	c.363C>G	c.(361-363)taC>taG	p.Y121*	PANX1_ENST00000436171.2_Nonsense_Mutation_p.Y121*	NM_015368.3	NP_056183.2	Q96RD7	PANX1_HUMAN	pannexin 1	121					calcium ion transport (GO:0006816)|cation transport (GO:0006812)|innate immune response (GO:0045087)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|positive regulation of interleukin-1 alpha secretion (GO:0050717)|positive regulation of interleukin-1 beta secretion (GO:0050718)|protein hexamerization (GO:0034214)|response to ATP (GO:0033198)|response to ischemia (GO:0002931)|synaptic transmission (GO:0007268)	bleb (GO:0032059)|endoplasmic reticulum (GO:0005783)|gap junction (GO:0005921)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	calcium channel activity (GO:0005262)|gap junction hemi-channel activity (GO:0055077)|leak channel activity (GO:0022840)|receptor binding (GO:0005102)			endometrium(2)|large_intestine(2)|lung(13)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	20		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Probenecid(DB01032)	TCCTCCTGTACCTGCCCCCGC	0.463																																																0													167	127	141					11																	93911576		2201	4298	6499	SO:0001587	stop_gained	24145			AF093239	CCDS8296.1	11q14-q21	2011-12-02			ENSG00000110218	ENSG00000110218		"Ion channels / Pannexins"	8599	protein-coding gene	gene with protein product	"innexin"	608420				14597722	Standard	NM_015368		Approved	MRS1, UNQ2529, PX1	uc001per.3	Q96RD7	OTTHUMG00000167757	ENST00000227638.3:c.363C>G	11.37:g.93911576C>G	ENSP00000227638:p.Tyr121*	Somatic		WXS	Illumina HiSeq	Phase_I	O75968|Q543A0|Q6UW26|Q96AM9|Q96L77|Q96RS5	Nonsense_Mutation	SNP	ENST00000227638.3	37	CCDS8296.1	.	.	.	.	.	.	.	.	.	.	C	38	6.963806	0.97967	.	.	ENSG00000110218	ENST00000227638;ENST00000436171	.	.	.	5.17	5.17	0.71159	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-27.6852	13.9642	0.64199	0.0:0.9245:0.0:0.0755	.	.	.	.	X	121	.	ENSP00000227638:Y121X	Y	+	3	2	PANX1	93551224	1.000000	0.71417	1.000000	0.80357	0.682000	0.39822	0.922000	0.28734	2.402000	0.81655	0.563000	0.77884	TAC		0.463	PANX1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000396121.1	NM_015368		G	93911576	C	G	93911576	4	3	601	1	0	0	0	0	0	1	0	0	11427	518	18	4	373	4	PANX1	11	93911576	Nonsense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	28423709	93911576	41094940	52	36095										
LPCAT3	10162	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	7125633	7125633	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tctgacgcgcccagggacgtCgccaacttgttaaggctcag	12	13	2	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr12:7125633C>T	ENST00000261407.4	-	1	181	c.96G>A	c.(94-96)gcG>gcA	p.A32A	C1S_ENST00000406697.1_Intron	NM_005768.5	NP_005759.4	Q6P1A2	MBOA5_HUMAN	lysophosphatidylcholine acyltransferase 3	32					glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylcholine acyl-chain remodeling (GO:0036151)|phosphatidylethanolamine acyl-chain remodeling (GO:0036152)|phosphatidylserine acyl-chain remodeling (GO:0036150)|phospholipid metabolic process (GO:0006644)|regulation of plasma lipoprotein particle levels (GO:0097006)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	1-acylglycerophosphocholine O-acyltransferase activity (GO:0047184)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(2)|lung(4)|ovary(1)|skin(2)	17						CCAGGGACGTCGCCAACTTGT	0.662																																																0													49	48	49					12																	7125633		2202	4299	6501	SO:0001819	synonymous_variant	10162			U72515	CCDS8572.1	12p13.31	2010-05-12	2008-06-24	2008-06-24	ENSG00000111684	ENSG00000111684			30244	protein-coding gene	gene with protein product		611950	"O-acyltransferase (membrane bound) domain containing 5", "membrane bound O-acyltransferase domain containing 5"	OACT5, MBOAT5		8723724, 9074930, 18195019	Standard	NM_005768		Approved	C3F, nessy	uc001qsi.3	Q6P1A2	OTTHUMG00000168970	ENST00000261407.4:c.96G>A	12.37:g.7125633C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RDH0|B7Z3N3|Q7KZS1|Q92980|Q9BW40	Silent	SNP	ENST00000261407.4	37	CCDS8572.1																																																																																				0.662	LPCAT3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401812.1	NM_005768		T	7125633	C	T	7125633	2	4	601	1	0	0	0	0	0	0	0	1	8919	871	31	1		1	LPCAT3	12	7125633	Silent	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10		7125633	126726262	53	36096										
SCN8A	6334	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	52188171	52188171	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ccagaacaaaatccaaggaaTcgtctttgattttgtcactc	6	10	2	2			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr12:52188171T>A	ENST00000354534.6	+	26	4719	c.4541T>A	c.(4540-4542)aTc>aAc	p.I1514N	SCN8A_ENST00000545061.1_Missense_Mutation_p.I1473N	NM_001177984.2|NM_014191.3	NP_001171455.1|NP_055006.1	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha subunit	1514					adult walking behavior (GO:0007628)|axon guidance (GO:0007411)|membrane depolarization during action potential (GO:0086010)|muscle organ development (GO:0007517)|myelination (GO:0042552)|nervous system development (GO:0007399)|neuromuscular process (GO:0050905)|neuronal action potential (GO:0019228)|peripheral nervous system development (GO:0007422)|response to toxic substance (GO:0009636)|sensory perception of sound (GO:0007605)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	axon initial segment (GO:0043194)|cytoplasmic vesicle (GO:0031410)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|node of Ranvier (GO:0033268)|plasma membrane (GO:0005886)|voltage-gated sodium channel complex (GO:0001518)|Z disc (GO:0030018)	ATP binding (GO:0005524)|voltage-gated sodium channel activity (GO:0005248)			breast(2)|central_nervous_system(1)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(19)|ovary(8)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	55				BRCA - Breast invasive adenocarcinoma(357;0.181)	Valproic Acid(DB00313)	ATCCAAGGAATCGTCTTTGAT	0.428																																																0													132	127	129					12																	52188171		1982	4186	6168	SO:0001583	missense	6334			AB027567	CCDS44891.1, CCDS53794.1	12q13.1	2012-02-26	2007-01-23			ENSG00000196876		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10596	protein-coding gene	gene with protein product		600702	"sodium channel, voltage gated, type VIII, alpha polypeptide"	MED		7670495, 9828131, 16382098	Standard	NM_014191		Approved	Nav1.6, NaCh6, PN4, CerIII	uc001ryw.4	Q9UQD0		ENST00000354534.6:c.4541T>A	12.37:g.52188171T>A	ENSP00000346534:p.Ile1514Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B9VWG8|O95788|Q9NYX2|Q9UPB2	Missense_Mutation	SNP	ENST00000354534.6	37	CCDS44891.1	.	.	.	.	.	.	.	.	.	.	t	11.59	1.684148	0.29872	.	.	ENSG00000196876	ENST00000354534;ENST00000545061;ENST00000355133	D;D;D	0.96073	-3.9;-3.87;-3.75	4.96	4.96	0.65561	.	0.387189	0.31821	N	0.007009	D	0.92051	0.7481	L	0.60455	1.87	0.23050	N	0.998375	B	0.06786	0.001	B	0.01281	0.0	D	0.83764	0.0216	10	0.66056	D	0.02	.	3.8457	0.08934	0.0:0.1628:0.1988:0.6384	.	1514	Q9UQD0	SCN8A_HUMAN	N	1514;1473;1473	ENSP00000346534:I1514N;ENSP00000440360:I1473N;ENSP00000347255:I1473N	ENSP00000346534:I1514N	I	+	2	0	SCN8A	50474438	0.009000	0.17119	0.680000	0.29994	0.997000	0.91878	1.516000	0.35856	2.228000	0.72767	0.524000	0.50904	ATC		0.428	SCN8A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404372.3	NM_014191		A	52188171	T	A	52188171	3	1	601	1	0	0	0	0	1	0	0	0	13937	1435	50	5	4639	5	SCN8A	12	52188171	Missense_Mutation	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10	45062538	52188171	81663724	54	36097										
KRT84	3890	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	52779218	52779218	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	aggtgatgacactccgactaCcaaagctgccaaggccccgg	11	14	0	2	rs148258545		TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr12:52779218C>G	ENST00000257951.3	-	1	218	c.152G>C	c.(151-153)gGt>gCt	p.G51A	RP3-416H24.4_ENST00000547174.1_RNA	NM_033045.3	NP_149034.2	Q9NSB2	KRT84_HUMAN	keratin 84	51	Head.				hair follicle development (GO:0001942)|nail development (GO:0035878)|regulation of keratinocyte differentiation (GO:0045616)	extracellular vesicular exosome (GO:0070062)|keratin filament (GO:0045095)	structural constituent of cytoskeleton (GO:0005200)|structural constituent of epidermis (GO:0030280)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|liver(1)|lung(10)|skin(3)	27	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		ACTCCGACTACCAAAGCTGCC	0.582																																																0													75	80	78					12																	52779218		2203	4300	6503	SO:0001583	missense	3890			Y19209	CCDS8825.1	12q13	2013-06-25	2006-07-17	2006-07-17	ENSG00000161849	ENSG00000161849		"-", "Intermediate filaments type II, keratins (basic)"	6461	protein-coding gene	gene with protein product	"hard keratin type II 4"	602766	"keratin, hair, basic, 4"	KRTHB4		2431943, 16831889	Standard	NM_033045		Approved	Hb-4	uc001sah.1	Q9NSB2	OTTHUMG00000169634	ENST00000257951.3:c.152G>C	12.37:g.52779218C>G	ENSP00000257951:p.Gly51Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RA43|Q6ISB0|Q701L6	Missense_Mutation	SNP	ENST00000257951.3	37	CCDS8825.1	.	.	.	.	.	.	.	.	.	.	C	13.89	2.370922	0.42003	.	.	ENSG00000161849	ENST00000257951	D	0.84944	-1.92	5.06	4.15	0.48705	.	0.143814	0.32563	N	0.005926	D	0.87269	0.6135	M	0.86420	2.815	0.34114	D	0.663369	B	0.15141	0.012	B	0.12156	0.007	D	0.89533	0.3787	10	0.66056	D	0.02	.	15.849	0.78912	0.0:0.864:0.136:0.0	.	51	Q9NSB2	KRT84_HUMAN	A	51	ENSP00000257951:G51A	ENSP00000257951:G51A	G	-	2	0	KRT84	51065485	0.946000	0.32159	0.968000	0.41197	0.853000	0.48598	2.037000	0.41174	1.466000	0.48025	0.543000	0.68304	GGT		0.582	KRT84-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405187.1	NM_033045		G	52779218	C	G	52779218	3	3	601	1	0	0	0	0	1	0	0	0	8505	507	18	4	1686	4	KRT84	12	52779218	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	591047	52779218	81072677	55	36098										
C12orf29	91298	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	88442035	88442035	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	atcgccatcatcttggcttaTgctggccaattccagatact	7	12	2	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr12:88442035T>A	ENST00000356891.3	+	7	1017	c.814T>A	c.(814-816)Tgc>Agc	p.C272S		NM_001009894.2	NP_001009894.2	Q8N999	CL029_HUMAN	chromosome 12 open reading frame 29	272					hematopoietic progenitor cell differentiation (GO:0002244)					large_intestine(3)|lung(1)|ovary(1)	5						TCTTGGCTTATGCTGGCCAAT	0.363																																																0													126	108	114					12																	88442035		2203	4300	6503	SO:0001583	missense	91298			AL137488	CCDS31866.1	12q21.32	2012-05-30			ENSG00000133641	ENSG00000133641			25322	protein-coding gene	gene with protein product						14702039	Standard	NM_001009894		Approved	DKFZp434N2030	uc001tao.3	Q8N999	OTTHUMG00000169870	ENST00000356891.3:c.814T>A	12.37:g.88442035T>A	ENSP00000349358:p.Cys272Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q569K5|Q6AWA8|Q6PEK5|Q8IYQ5|Q9NT75	Missense_Mutation	SNP	ENST00000356891.3	37	CCDS31866.1	.	.	.	.	.	.	.	.	.	.	.	3.780	-0.045871	0.07452	.	.	ENSG00000133641	ENST00000356891	T	0.50001	0.76	5.41	1.98	0.26296	.	0.784752	0.12584	N	0.456148	T	0.27278	0.0669	L	0.34521	1.04	0.26278	N	0.978315	B	0.02656	0.0	B	0.04013	0.001	T	0.32851	-0.9891	10	0.02654	T	1	0.2767	4.1297	0.10143	0.1564:0.353:0.0:0.4906	.	272	Q8N999	CL029_HUMAN	S	272	ENSP00000349358:C272S	ENSP00000349358:C272S	C	+	1	0	C12orf29	86966166	0.225000	0.23685	0.998000	0.56505	0.994000	0.84299	0.223000	0.17719	0.109000	0.17891	0.533000	0.62120	TGC		0.363	C12orf29-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406335.1	NM_001009894		A	88442035	T	A	88442035	3	1	601	1	0	0	0	0	1	0	0	0	1682	1464	51	5	840	5	C12orf29	12	88442035	Missense_Mutation	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10	35662817	88442035	45409860	56	36099										
RPH3A	22895	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	113333603	113333603	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	agtttttctatgacatcaaaCacagtgacctggcaaagaag	8	8	2	3			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr12:113333603C>A	ENST00000389385.4	+	21	2376	c.1879C>A	c.(1879-1881)Cac>Aac	p.H627N	RPH3A_ENST00000549913.2_3'UTR|RPH3A_ENST00000420983.2_Missense_Mutation_p.H627N|RPH3A_ENST00000551052.1_Missense_Mutation_p.H623N|RPH3A_ENST00000415485.3_Missense_Mutation_p.H627N|RPH3A_ENST00000548866.1_Missense_Mutation_p.H578N|RPH3A_ENST00000447659.2_Missense_Mutation_p.H578N|RPH3A_ENST00000543106.2_Missense_Mutation_p.H627N	NM_001143854.1|NM_014954.3	NP_001137326.1|NP_055769.2	Q9Y2J0	RP3A_HUMAN	rabphilin 3A	627	C2 2. {ECO:0000255|PROSITE- ProRule:PRU00041}.				intracellular protein transport (GO:0006886)	cell junction (GO:0030054)|membrane (GO:0016020)|synaptic vesicle (GO:0008021)	calcium ion binding (GO:0005509)|calcium-dependent phospholipid binding (GO:0005544)|phosphatidylinositol phosphate binding (GO:1901981)|transporter activity (GO:0005215)			breast(1)|central_nervous_system(3)|cervix(2)|endometrium(2)|kidney(1)|large_intestine(8)|lung(16)|ovary(3)|prostate(4)|skin(6)|urinary_tract(1)	47				BRCA - Breast invasive adenocarcinoma(302;0.00453)		TGACATCAAACACAGTGACCT	0.473																																																0													97	78	84					12																	113333603		2203	4300	6503	SO:0001583	missense	22895			AB023202	CCDS31904.1, CCDS44979.1	12q24.13	2014-07-02	2014-07-02		ENSG00000089169	ENSG00000089169		"Synaptotagmins"	17056	protein-coding gene	gene with protein product		612159	"rabphilin 3A homolog (mouse)"			10231032, 7822236	Standard	NM_014954		Approved	KIAA0985, rabphilin, exophilin-1	uc001ttz.3	Q9Y2J0	OTTHUMG00000169713	ENST00000389385.4:c.1879C>A	12.37:g.113333603C>A	ENSP00000374036:p.His627Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3C3|Q96AE0	Missense_Mutation	SNP	ENST00000389385.4	37	CCDS44979.1	.	.	.	.	.	.	.	.	.	.	C	25.1	4.599097	0.87055	.	.	ENSG00000089169	ENST00000543106;ENST00000389385;ENST00000447659;ENST00000551052;ENST00000415485;ENST00000548866;ENST00000420983;ENST00000549913	T;T;T;T;T;T;T	0.68624	-0.34;-0.34;-0.34;-0.34;-0.34;-0.34;-0.34	5.42	5.42	0.78866	C2 membrane targeting protein (1);C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);Synaptotagmin (1);	0.000000	0.64402	D	0.000007	T	0.70684	0.3252	N	0.19112	0.55	0.80722	D	1	D;D;D	0.89917	1.0;0.995;0.997	D;D;D	0.77004	0.989;0.972;0.977	T	0.68637	-0.5356	10	0.27785	T	0.31	.	18.006	0.89209	0.0:1.0:0.0:0.0	.	578;627;623	F8VP47;Q9Y2J0;Q9Y2J0-2	.;RP3A_HUMAN;.	N	627;627;578;623;627;578;627;279	ENSP00000440384:H627N;ENSP00000374036:H627N;ENSP00000413254:H578N;ENSP00000448297:H623N;ENSP00000405357:H627N;ENSP00000450347:H578N;ENSP00000408889:H627N	ENSP00000374036:H627N	H	+	1	0	RPH3A	111817986	1.000000	0.71417	0.998000	0.56505	0.997000	0.91878	5.703000	0.68340	2.550000	0.86006	0.655000	0.94253	CAC		0.473	RPH3A-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000405561.1	NM_014954		A	113333603	C	A	113333603	3	1	601	1	0	0	0	0	1	0	0	0	13564	478	17	4	1953	4	RPH3A	12	113333603	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	24891568	113333603	20518292	57	36100										
FREM2	341640	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	39262352	39262352	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tggagctgcgttcacgagggGctcctgtgggcagccctgct	16	12	1	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr13:39262352G>C	ENST00000280481.7	+	1	1087	c.871G>C	c.(871-873)Gct>Cct	p.A291P		NM_207361.4	NP_997244.3	Q5SZK8	FREM2_HUMAN	FRAS1 related extracellular matrix protein 2	291					cell communication (GO:0007154)|homophilic cell adhesion (GO:0007156)|inner ear development (GO:0048839)|morphogenesis of an epithelium (GO:0002009)	basement membrane (GO:0005604)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(35)|lung(39)|ovary(9)|pancreas(2)|prostate(12)|skin(11)|upper_aerodigestive_tract(7)|urinary_tract(2)	148		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TTCACGAGGGGCTCCTGTGGG	0.617																																																0													57	56	56					13																	39262352		2203	4300	6503	SO:0001583	missense	341640			BX538150	CCDS31960.1	13q13.3	2004-12-15			ENSG00000150893	ENSG00000150893			25396	protein-coding gene	gene with protein product		608945				15345741	Standard	NM_207361		Approved	DKFZp686J0811	uc001uwv.3	Q5SZK8	OTTHUMG00000016759	ENST00000280481.7:c.871G>C	13.37:g.39262352G>C	ENSP00000280481:p.Ala291Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q4QQG1|Q5H9N8|Q5T6Q1|Q6N057|Q6ZSB4|Q7Z305|Q7Z341	Missense_Mutation	SNP	ENST00000280481.7	37	CCDS31960.1	.	.	.	.	.	.	.	.	.	.	G	12.34	1.909632	0.33721	.	.	ENSG00000150893	ENST00000280481	T	0.19532	2.14	5.93	0.756	0.18421	.	0.690381	0.13204	N	0.405691	T	0.16685	0.0401	L	0.39898	1.24	0.22675	N	0.998866	B	0.10296	0.003	B	0.10450	0.005	T	0.21655	-1.0239	10	0.62326	D	0.03	.	8.0541	0.30596	0.138:0.0:0.6112:0.2508	.	291	Q5SZK8	FREM2_HUMAN	P	291	ENSP00000280481:A291P	ENSP00000280481:A291P	A	+	1	0	FREM2	38160352	0.752000	0.28338	0.027000	0.17364	0.945000	0.59286	1.457000	0.35212	-0.207000	0.10187	0.555000	0.69702	GCT		0.617	FREM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044599.2	NM_207361		C	39262352	G	C	39262352	3	2	601	1	0	0	0	0	1	0	0	0	6052	1203	42	4	873	4	FREM2	13	39262352	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10		39262352	75907526	58	36101										
RAB15	376267	broad.mit.edu;bcgsc.ca	37	chr14	65418357	65418362	+	In_Frame_Del	DEL	GTATCT	GTATCT	-													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tactgctttgtgatggtctgGtatctctcctgccctgcagt							TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	GTATCT	GTATCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr14:65418357_65418362delGTATCT	ENST00000533601.2	-	3	542_547	c.205_210delAGATAC	c.(205-210)agatacdel	p.RY69del	FNTB_ENST00000542227.1_Intron|RAB15_ENST00000426039.3_In_Frame_Del_p.RY23del|CHURC1-FNTB_ENST00000549987.1_Intron|RAB15_ENST00000436278.2_In_Frame_Del_p.RY23del|FNTB_ENST00000447296.2_Intron|RAB15_ENST00000267512.5_In_Frame_Del_p.RY69del			P59190	RAB15_HUMAN	RAB15, member RAS oncogene family	69					protein transport (GO:0015031)|small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|primary cilium (GO:0072372)	GTP binding (GO:0005525)			endometrium(1)|large_intestine(2)|lung(4)|ovary(1)	8				all cancers(60;0.00136)|OV - Ovarian serous cystadenocarcinoma(108;0.00593)|BRCA - Breast invasive adenocarcinoma(234;0.0102)		TGATGGTCTGGTATCTCTCCTGCCCT	0.592																																																0																																										SO:0001651	inframe_deletion	376267			BC014511	CCDS9768.1	14q23.2	2012-02-28	2012-02-28		ENSG00000139998	ENSG00000139998		"RAB, member RAS oncogene"	20150	protein-coding gene	gene with protein product						11697911	Standard	NM_198686		Approved		uc001xhz.2	P59190	OTTHUMG00000142810	ENST00000533601.2:c.205_210delAGATAC	14.37:g.65418357_65418362delGTATCT	ENSP00000434103:p.Arg69_Tyr70del	Somatic		WXS	Illumina HiSeq	Phase_I	G5EMR7|Q86TX7|Q8IW89	In_Frame_Del	DEL	ENST00000533601.2	37																																																																																					0.592	RAB15-003	KNOWN	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000390443.2	NM_198686		-	65418362	GTATCT	-	65418357	7	5	601	1	0	1	0	1	0	0	0	0	12914	1256	44	0	436	0	RAB15	14	65418357	In_Frame_Del	DEL	GTATCT	TCGA-GL-A4EM-01A-11D-A25F-10		65418357	41931183	59	36102										
PLEKHH1	57475	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	68038953	68038953	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	agcctgagcacaaactgcagCgcacctcatcctactccacc	6	18	1	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr14:68038953C>A	ENST00000329153.5	+	11	1819	c.1687C>A	c.(1687-1689)Cgc>Agc	p.R563S		NM_020715.2	NP_065766.1	Q9ULM0	PKHH1_HUMAN	pleckstrin homology domain containing, family H (with MyTH4 domain) member 1	563						cytoskeleton (GO:0005856)				endometrium(2)|kidney(4)|lung(12)|urinary_tract(1)	19				all cancers(60;0.000771)|OV - Ovarian serous cystadenocarcinoma(108;0.00502)|BRCA - Breast invasive adenocarcinoma(234;0.011)		CAAACTGCAGCGCACCTCATC	0.662																																																0													29	32	31					14																	68038953		2079	4209	6288	SO:0001583	missense	57475			AB033026	CCDS45128.1	14q24.1	2013-01-10				ENSG00000054690		"Pleckstrin homology (PH) domain containing"	17733	protein-coding gene	gene with protein product						10574462	Standard	NM_020715		Approved	KIAA1200	uc001xjl.1	Q9ULM0		ENST00000329153.5:c.1687C>A	14.37:g.68038953C>A	ENSP00000330278:p.Arg563Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8X6|Q6PJL4|Q6ZWC7	Missense_Mutation	SNP	ENST00000329153.5	37	CCDS45128.1	.	.	.	.	.	.	.	.	.	.	C	20.3	3.966478	0.74131	.	.	ENSG00000054690	ENST00000329153	T	0.73789	-0.78	4.61	3.68	0.42216	.	0.000000	0.85682	D	0.000000	T	0.79650	0.4482	M	0.64997	1.995	0.80722	D	1	P;D	0.61080	0.911;0.989	P;P	0.60012	0.486;0.867	T	0.76963	-0.2764	10	0.30854	T	0.27	.	11.6328	0.51185	0.2994:0.7006:0.0:0.0	.	78;563	Q9ULM0-2;Q9ULM0	.;PKHH1_HUMAN	S	563	ENSP00000330278:R563S	ENSP00000330278:R563S	R	+	1	0	PLEKHH1	67108706	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.483000	0.45233	2.387000	0.81309	0.555000	0.69702	CGC		0.662	PLEKHH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412730.3	XM_031054		A	68038953	C	A	68038953	3	1	601	1	0	0	0	0	1	0	0	0	12083	768	27	4	1725	4	PLEKHH1	14	68038953	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	2620596	68038953	39310587	60	36103										
EML5	161436	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	89105224	89105224	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tgaggcacagaatatcatcaTtatgttcctgataaaaactc	6	8	2	3			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr14:89105224T>G	ENST00000380664.5	-	30	4240	c.4241A>C	c.(4240-4242)aAt>aCt	p.N1414T	EML5_ENST00000554922.1_Missense_Mutation_p.N1422T|EML5_ENST00000352093.5_Missense_Mutation_p.N1376T			Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like 5	1414						cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)	catalytic activity (GO:0003824)			breast(1)|endometrium(3)|kidney(4)|large_intestine(17)|lung(14)|ovary(3)|pancreas(1)|prostate(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	50						AATATCATCATTATGTTCCTG	0.333																																																0													81	71	74					14																	89105224		1809	4079	5888	SO:0001583	missense	161436			AY357725	CCDS45148.1	14q31.3	2013-01-10				ENSG00000165521		"WD repeat domain containing"	18197	protein-coding gene	gene with protein product							Standard	NM_183387		Approved	HuEMAP-2, EMAP-2	uc021ryf.1	Q05BV3		ENST00000380664.5:c.4241A>C	14.37:g.89105224T>G	ENSP00000370039:p.Asn1414Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B9EK59|Q5H9N6|Q6UYC9|Q6ZRP3|Q6ZT03	Missense_Mutation	SNP	ENST00000380664.5	37	CCDS45148.1	.	.	.	.	.	.	.	.	.	.	T	2.398	-0.338242	0.05278	.	.	ENSG00000165521	ENST00000554922;ENST00000352093;ENST00000380664	T;T;T	0.04234	3.67;3.67;3.67	5.38	3.04	0.35103	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);	0.114168	0.64402	D	0.000016	T	0.01029	0.0034	N	0.00332	-1.63	0.31575	N	0.655785	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.001	T	0.38112	-0.9676	10	0.02654	T	1	-24.3174	5.3744	0.16156	0.0:0.1523:0.1491:0.6985	.	1422;1414	Q05BV3-5;Q05BV3	.;EMAL5_HUMAN	T	1422;1376;1414	ENSP00000451998:N1422T;ENSP00000298315:N1376T;ENSP00000370039:N1414T	ENSP00000298315:N1376T	N	-	2	0	EML5	88174977	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.975000	0.40569	0.884000	0.36064	0.482000	0.46254	AAT		0.333	EML5-010	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000410491.1			G	89105224	T	G	89105224	3	3	601	1	0	0	0	0	1	0	0	0	5102	1493	52	5	1720	5	EML5	14	89105224	Missense_Mutation	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10	21066271	89105224	18244316	61	36104										
WDR20	91833	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	102689211	102689211	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gccagttctccaggtggaacTgtagtgtagcgacctcactg	12	11	2	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr14:102689211T>A	ENST00000335263.5	+	4	1817	c.1737T>A	c.(1735-1737)acT>acA	p.T579T	WDR20_ENST00000556807.1_Silent_p.T518T	NM_181291.2	NP_851808.1	Q8TBZ3	WDR20_HUMAN	WD repeat domain 20	0										breast(1)|large_intestine(2)|lung(4)|prostate(1)	8						CAGGTGGAACTGTAGTGTAGC	0.602																																																0													148	116	126					14																	102689211		2203	4300	6503	SO:0001819	synonymous_variant	91833			BC028387	CCDS9968.1, CCDS9969.1, CCDS9970.1, CCDS55942.1, CCDS55943.1, CCDS55944.1, CCDS55945.1	14q32.31	2013-01-09				ENSG00000140153		"WD repeat domain containing"	19667	protein-coding gene	gene with protein product							Standard	NM_181291		Approved	DMR, MGC33177, FLJ33659	uc010txu.2	Q8TBZ3		ENST00000335263.5:c.1737T>A	14.37:g.102689211T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DN18|E7EUY8|F8W9S4|G3V2F8|G3V5R0|H0YJJ1|Q86TU2|Q8NCN7|Q8WXX2|Q9UF86	Silent	SNP	ENST00000335263.5	37	CCDS9968.1																																																																																				0.602	WDR20-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000414960.1	NM_181291		A	102689211	T	A	102689211	2	1	601	1	0	0	0	0	0	0	0	1	17292	1567	55	5		5	WDR20	14	102689211	Silent	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10	13583987	102689211	4660329	62	36105										
EIF2AK4	440275	ucsc.edu	37	chr15	40284411	40284411	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gacgatcagacaggagacttGattaagtcagacccttcagg	11	9	3	4			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr15:40284411G>A	ENST00000263791.5	+	17	2710	c.2667G>A	c.(2665-2667)ttG>ttA	p.L889L	EIF2AK4_ENST00000382727.2_Silent_p.L861L	NM_001013703.2	NP_001013725.2	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha kinase 4	889	Protein kinase 2. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cellular response to starvation (GO:0009267)|endoplasmic reticulum unfolded protein response (GO:0030968)|negative regulation of translation (GO:0017148)|protein phosphorylation (GO:0006468)|regulation of translational initiation (GO:0006446)|regulation of translational initiation in response to stress (GO:0043558)	cytosolic ribosome (GO:0022626)	ATP binding (GO:0005524)|eukaryotic translation initiation factor 2alpha kinase activity (GO:0004694)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(2)|endometrium(1)|kidney(3)|large_intestine(8)|lung(18)|ovary(1)|prostate(3)|skin(2)|stomach(1)	40		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)		CAGGAGACTTGATTAAGTCAG	0.353																																																0													109	103	105					15																	40284411		1813	4073	5886	SO:0001819	synonymous_variant	440275			AB037759	CCDS42016.1	15q13.3	2008-08-18				ENSG00000128829			19687	protein-coding gene	gene with protein product		609280				10504407	Standard	XM_005254392		Approved	GCN2, KIAA1338	uc001zkm.1	Q9P2K8		ENST00000263791.5:c.2667G>A	15.37:g.40284411G>A		Somatic		WXS	Illumina HiSeq		C9JEC4|Q69YL7|Q6DC97|Q96GN6|Q9H5K1|Q9NSQ3|Q9NSZ5|Q9UJ56	Silent	SNP	ENST00000263791.5	37	CCDS42016.1																																																																																				0.353	EIF2AK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418395.1			A	40284411	G	A	40284411	2	1	601	1	0	0	0	0	0	0	0	1	5001	1281	45	2		2	EIF2AK4	15	40284411	Silent	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10		40284411	62246981	63	36106										
BAHD1	22893	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	40751142	40751142	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	cagccgtgaccgtgatcgtgCtactgggggctggtcctcct	14	13	0	2			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr15:40751142C>A	ENST00000416165.1	+	2	550	c.479C>A	c.(478-480)gCt>gAt	p.A160D	BAHD1_ENST00000561234.1_Missense_Mutation_p.A160D|BAHD1_ENST00000560846.1_Missense_Mutation_p.A160D	NM_014952.3	NP_055767.3	Q8TBE0	BAHD1_HUMAN	bromo adjacent homology domain containing 1	160					heterochromatin assembly (GO:0031507)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	chromatin silencing complex (GO:0005677)|chromosome (GO:0005694)	chromatin binding (GO:0003682)			NS(1)|endometrium(6)|kidney(3)|large_intestine(3)|lung(10)|pancreas(1)|prostate(2)|skin(1)|urinary_tract(1)	28		all_cancers(109;8.28e-19)|all_epithelial(112;2.64e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.46e-06)|BRCA - Breast invasive adenocarcinoma(123;0.08)		CGTGATCGTGCTACTGGGGGC	0.672																																																0													22	29	26					15																	40751142		2197	4296	6493	SO:0001583	missense	22893			AL833923	CCDS10058.1, CCDS73705.1	15q14	2005-11-10			ENSG00000140320	ENSG00000140320			29153	protein-coding gene	gene with protein product		613880				10231032	Standard	XM_005254229		Approved	KIAA0945	uc001zlu.2	Q8TBE0	OTTHUMG00000129982	ENST00000416165.1:c.479C>A	15.37:g.40751142C>A	ENSP00000396976:p.Ala160Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NDF7|Q9Y2F4	Missense_Mutation	SNP	ENST00000416165.1	37	CCDS10058.1	.	.	.	.	.	.	.	.	.	.	C	9.014	0.983230	0.18889	.	.	ENSG00000140320	ENST00000416165	T	0.18338	2.22	5.11	0.82	0.18793	.	0.394096	0.23881	N	0.043645	T	0.09291	0.0229	N	0.08118	0	0.09310	N	1	P;B;P	0.36909	0.573;0.437;0.573	B;B;B	0.41894	0.369;0.203;0.369	T	0.26121	-1.0112	10	0.36615	T	0.2	-3.895	7.9432	0.29971	0.0:0.6539:0.1214:0.2247	.	160;160;160	Q8TBE0-3;Q8TBE0;Q8TBE0-2	.;BAHD1_HUMAN;.	D	160	ENSP00000396976:A160D	ENSP00000396976:A160D	A	+	2	0	BAHD1	38538434	0.840000	0.29493	0.037000	0.18230	0.004000	0.04260	1.548000	0.36201	0.311000	0.23014	-0.182000	0.12963	GCT		0.672	BAHD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252248.1	NM_014952		A	40751142	C	A	40751142	3	1	601	1	0	0	0	0	1	0	0	0	1297	797	28	4	481	4	BAHD1	15	40751142	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	466731	40751142	61780250	64	36107										
UBR1	197131	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	43378432	43378432	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ataaaaatcaacttgctgatCccaccactaaaagaaaagaa	4	9	1	3			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr15:43378432C>T	ENST00000290650.4	-	2	166	c.88G>A	c.(88-90)Gat>Aat	p.D30N	UBR1_ENST00000382177.2_Missense_Mutation_p.D30N	NM_174916.2	NP_777576.1	Q8IWV7	UBR1_HUMAN	ubiquitin protein ligase E3 component n-recognin 1	30					cellular response to leucine (GO:0071233)|negative regulation of TOR signaling (GO:0032007)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|proteasome complex (GO:0000502)|ubiquitin ligase complex (GO:0000151)	leucine binding (GO:0070728)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(2)|endometrium(2)|kidney(7)|large_intestine(12)|lung(25)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	58		all_cancers(109;4.32e-15)|all_epithelial(112;4.05e-13)|Lung NSC(122;1.75e-08)|all_lung(180;2e-07)|Melanoma(134;0.0179)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.08e-07)|COAD - Colon adenocarcinoma(120;0.185)|Colorectal(105;0.214)		ACTTGCTGATCCCACCACTAA	0.358																																																0													47	50	49					15																	43378432		2203	4299	6502	SO:0001583	missense	197131				CCDS10091.1	15q13	2008-06-23			ENSG00000159459	ENSG00000159459		"Ubiquitin protein ligase E3 component n-recognins"	16808	protein-coding gene	gene with protein product		605981				9653112	Standard	NM_174916		Approved		uc001zqq.3	Q8IWV7	OTTHUMG00000130702	ENST00000290650.4:c.88G>A	15.37:g.43378432C>T	ENSP00000290650:p.Asp30Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O60708|O75492|Q14D45|Q68DN9|Q8IWY6|Q96JY4	Missense_Mutation	SNP	ENST00000290650.4	37	CCDS10091.1	.	.	.	.	.	.	.	.	.	.	C	10.76	1.442186	0.25987	.	.	ENSG00000159459	ENST00000290650;ENST00000382177;ENST00000546274	T;T	0.70045	0.39;-0.45	5.41	3.39	0.38822	.	0.425163	0.24730	N	0.036070	T	0.42539	0.1207	N	0.08118	0	0.32678	N	0.515941	B;P	0.35433	0.147;0.501	B;B	0.25140	0.045;0.058	T	0.48958	-0.8988	10	0.17832	T	0.49	-13.2485	17.5354	0.87829	0.0:0.7515:0.2485:0.0	.	30;30	B4DYL2;Q8IWV7	.;UBR1_HUMAN	N	30	ENSP00000290650:D30N;ENSP00000371612:D30N	ENSP00000290650:D30N	D	-	1	0	UBR1	41165724	1.000000	0.71417	1.000000	0.80357	0.964000	0.63967	1.711000	0.37930	1.277000	0.44412	0.561000	0.74099	GAT		0.358	UBR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253202.1	NM_174916		T	43378432	C	T	43378432	3	4	601	1	0	0	0	0	1	0	0	0	16913	855	30	2	5345	2	UBR1	15	43378432	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	2627290	43378432	59152960	65	36108										
SLC24A5	283652	broad.mit.edu	37	chr15	48431306	48431306	+	Frame_Shift_Del	DEL	T	T	-													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	aaaactactttgtgataaccTttttcatgtctgcaatatgg							TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr15:48431306delT	ENST00000341459.3	+	7	1085	c.1012delT	c.(1012-1014)tttfs	p.F339fs	SLC24A5_ENST00000449382.2_Frame_Shift_Del_p.F279fs	NM_205850.2	NP_995322.1	Q71RS6	NCKX5_HUMAN	solute carrier family 24 (sodium/potassium/calcium exchanger), member 5	339					ion transmembrane transport (GO:0034220)|ion transport (GO:0006811)|negative regulation of melanin biosynthetic process (GO:0048022)|response to stimulus (GO:0050896)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)	calcium, potassium:sodium antiporter activity (GO:0008273)|symporter activity (GO:0015293)			cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(17)|skin(1)|upper_aerodigestive_tract(1)	27		all_lung(180;0.00217)		all cancers(107;3.29e-10)|GBM - Glioblastoma multiforme(94;7.32e-07)		TGTGATAACCTTTTTCATGTC	0.308																																																0													101	99	100					15																	48431306		2198	4287	6485	SO:0001589	frameshift_variant	283652			AF348468	CCDS10128.1	15q21.1	2014-01-28	2013-07-18		ENSG00000188467	ENSG00000188467		"Solute carriers"	20611	protein-coding gene	gene with protein product	"oculocutaneous albinism 6 (autosomal recessive)"	609802	"solute carrier family 24, member 5"			23364476	Standard	XM_005254308		Approved	JSX, OCA6	uc001zwe.3	Q71RS6	OTTHUMG00000131494	ENST00000341459.3:c.1012delT	15.37:g.48431306delT	ENSP00000341550:p.Phe339fs	Somatic		WXS	Illumina HiSeq	Phase_I	A5X8Z8|A5X8Z9|Q14CT4|Q6DKH3	Frame_Shift_Del	DEL	ENST00000341459.3	37	CCDS10128.1																																																																																				0.308	SLC24A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254340.2	NM_205850		-	48431306	T	-	48431306	7	5	601	1	0	1	0	1	0	0	0	0	14482	1609	56	0	1038	0	SLC24A5	15	48431306	Frame_Shift_Del	DEL	T	TCGA-GL-A4EM-01A-11D-A25F-10	5052874	48431306	54100086	66	36109										
C15orf60	283677	broad.mit.edu	37	chr15	73735652	73735652	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gacccacctgggccatgcctGgaagctgggacagccccctg	13	16	0	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr15:73735652G>T	ENST00000331090.6	+	1	154	c.126G>T	c.(124-126)ctG>ctT	p.L42L	C15orf60_ENST00000560581.1_Silent_p.L42L	NM_001042367.1	NP_001035826.1	Q7Z4M0	RE114_HUMAN		42					DNA recombination (GO:0006310)|meiotic nuclear division (GO:0007126)					endometrium(1)|kidney(2)|large_intestine(4)|lung(7)|pancreas(1)|prostate(2)	17						GGCCATGCCTGGAAGCTGGGA	0.652																																																0													17	23	21					15																	73735652		1995	4151	6146	SO:0001819	synonymous_variant	283677																														ENST00000331090.6:c.126G>T	15.37:g.73735652G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000331090.6	37	CCDS45296.1																																																																																				0.652	C15orf60-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419069.1			T	73735652	G	T	73735652	2	4	601	1	0	0	0	0	0	0	0	1	1810	1335	47	4		4	C15orf60	15	73735652	Silent	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	25304346	73735652	28795740	67	36110										
POLG	5428	broad.mit.edu;bcgsc.ca	37	chr15	89872222	89872222	+	Frame_Shift_Del	DEL	G	G	-													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gacttctggccttgctttgtGgggggctggaccttgtgttt					rs551973680		TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr15:89872222delG	ENST00000268124.5	-	4	1308	c.975delC	c.(973-975)cccfs	p.P325fs	POLG_ENST00000442287.2_Frame_Shift_Del_p.P325fs	NM_001126131.1|NM_002693.2	NP_001119603.1|NP_002684.1	P54098	DPOG1_HUMAN	polymerase (DNA directed), gamma	325					aging (GO:0007568)|base-excision repair, gap-filling (GO:0006287)|cell death (GO:0008219)|DNA metabolic process (GO:0006259)|DNA-dependent DNA replication (GO:0006261)|mitochondrial DNA replication (GO:0006264)	extracellular vesicular exosome (GO:0070062)|gamma DNA polymerase complex (GO:0005760)|mitochondrial inner membrane (GO:0005743)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|DNA-directed DNA polymerase activity (GO:0003887)|exonuclease activity (GO:0004527)|protease binding (GO:0002020)			breast(2)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(9)|lung(12)|ovary(1)|prostate(3)|urinary_tract(2)	33	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			CTTGCTTTGTGGGGGGCTGGA	0.602								DNA polymerases (catalytic subunits)																													Colon(73;648 1203 11348 18386 27782)											0													91	80	83					15																	89872222		2200	4299	6499	SO:0001589	frameshift_variant	5428			X98093	CCDS10350.1	15q24	2014-09-17			ENSG00000140521	ENSG00000140521		"DNA polymerases"	9179	protein-coding gene	gene with protein product		174763				9465903	Standard	NM_002693		Approved	POLG1, POLGA	uc002bnr.4	P54098	OTTHUMG00000149646	ENST00000268124.5:c.975delC	15.37:g.89872222delG	ENSP00000268124:p.Pro325fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NFM2|Q92515	Frame_Shift_Del	DEL	ENST00000268124.5	37	CCDS10350.1																																																																																				0.602	POLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000312854.2	NM_002693		-	89872222	G	-	89872222	7	5	601	1	0	1	0	1	0	0	0	0	12207	1335	47	0	2824	0	POLG	15	89872222	Frame_Shift_Del	DEL	G	TCGA-GL-A4EM-01A-11D-A25F-10	16136570	89872222	12659170	68	36111										
MMP25	64386	hgsc.bcm.edu	37	chr16	3100091	3100091	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ggcggggctggtcaggcggcGtcgccggtacgctctgagcg	20	12	2	1	rs146181243		TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr16:3100091G>A	ENST00000336577.4	+	3	551	c.314G>A	c.(313-315)cGt>cAt	p.R105H	MMP25_ENST00000570755.1_3'UTR|RP11-473M20.7_ENST00000576250.1_RNA	NM_022468.4	NP_071913.1	Q9H239	MMP28_HUMAN	matrix metallopeptidase 25	120					negative regulation of macrophage chemotaxis (GO:0010760)	cytoplasm (GO:0005737)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			endometrium(1)|kidney(2)|large_intestine(2)|lung(7)|prostate(1)|skin(1)	14					Marimastat(DB00786)	GTCAGGCGGCGTCGCCGGTAC	0.701																																					NSCLC(147;665 1067 3888 6863 19894 30469 40247 45633 51336)											0								G	HIS/ARG	1,4393	2.1+/-5.4	0,1,2196	54	59	57		314	5.1	0.1	16	dbSNP_134	57	0,8596		0,0,4298	no	missense	MMP25	NM_022468.4	29	0,1,6494	AA,AG,GG		0.0,0.0228,0.0077	probably-damaging	105/563	3100091	1,12989	2197	4298	6495	SO:0001583	missense	64386			AF145442	CCDS10492.1	16p13.3	2008-02-05	2005-08-08			ENSG00000008516			14246	protein-coding gene	gene with protein product		608482	"matrix metalloproteinase 25", "matrix metallopeptidase-like 1"	MMPL1, MMP20		10628838, 10706098	Standard	NM_022468		Approved	MT6-MMP	uc002cth.3	Q9NPA2		ENST00000336577.4:c.314G>A	16.37:g.3100091G>A	ENSP00000337816:p.Arg105His	Somatic		WXS	Illumina HiSeq	Phase_I	Q96F04|Q96TE2	Missense_Mutation	SNP	ENST00000336577.4	37	CCDS10492.1	.	.	.	.	.	.	.	.	.	.	G	12.93	2.085309	0.36758	2.28E-4	0.0	ENSG00000008516	ENST00000336577;ENST00000325800	T	0.19105	2.17	5.06	5.06	0.68205	Metallopeptidase, catalytic domain (1);	0.000000	0.34802	U	0.003670	T	0.19725	0.0474	M	0.62088	1.915	0.09310	N	0.999994	P;D	0.57571	0.796;0.98	B;B	0.37833	0.124;0.259	T	0.39820	-0.9595	10	0.72032	D	0.01	.	9.5362	0.39224	0.0975:0.0:0.9025:0.0	.	29;105	O43923;Q9NPA2	.;MMP25_HUMAN	H	105;32	ENSP00000337816:R105H	ENSP00000324953:R32H	R	+	2	0	MMP25	3040092	0.997000	0.39634	0.093000	0.20910	0.166000	0.22503	5.754000	0.68743	2.356000	0.79943	0.655000	0.94253	CGT		0.701	MMP25-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437116.1	NM_022468		A	3100091	G	A	3100091	3	1	601	1	0	0	0	0	1	0	0	0	9669	1145	40	1	324	1	MMP25	16	3100091	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10		3100091	87254662	69	36112										
ANKS4B	257629	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	21245180	21245180	+	Frame_Shift_Del	DEL	A	A	-													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tcctactctcttggcagcctAccatgggaacttggaagccc							TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr16:21245180delA	ENST00000311620.5	+	1	195	c.122delA	c.(121-123)tacfs	p.Y41fs		NM_145865.2	NP_665872.2	Q8N8V4	ANS4B_HUMAN	ankyrin repeat and sterile alpha motif domain containing 4B	41					response to endoplasmic reticulum stress (GO:0034976)	endoplasmic reticulum membrane (GO:0005789)|plasma membrane (GO:0005886)				NS(1)|central_nervous_system(2)|endometrium(2)|kidney(2)|lung(11)|ovary(2)	20				GBM - Glioblastoma multiforme(48;0.0565)		TTGGCAGCCTACCATGGGAAC	0.463																																																0													128	125	126					16																	21245180		1902	4118	6020	SO:0001589	frameshift_variant	257629			AK096138	CCDS42130.1	16p12.2	2013-01-10				ENSG00000175311		"Sterile alpha motif (SAM) domain containing", "Ankyrin repeat domain containing"	26795	protein-coding gene	gene with protein product		609901					Standard	NM_145865		Approved	FLJ38819, HARP	uc010bwp.1	Q8N8V4		ENST00000311620.5:c.122delA	16.37:g.21245180delA	ENSP00000308772:p.Tyr41fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000311620.5	37	CCDS42130.1																																																																																				0.463	ANKS4B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000436535.1	NM_145865		-	21245180	A	-	21245180	7	5	601	1	0	1	0	1	0	0	0	0	691	391	14	0	124	0	ANKS4B	16	21245180	Frame_Shift_Del	DEL	A	TCGA-GL-A4EM-01A-11D-A25F-10	18145089	21245180	69109573	70	36113										
COG8	84342	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	69368509	69368509	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gcagatcattgaaggcaaccAgaatattgttgagaaagcag	11	6	1	4			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr16:69368509A>T	ENST00000306875.4	-	3	1442	c.1328T>A	c.(1327-1329)cTg>cAg	p.L443Q	RP11-343C2.12_ENST00000562949.1_Missense_Mutation_p.L89Q|COG8_ENST00000562081.1_Missense_Mutation_p.L443Q	NM_032382.4	NP_115758.3	Q96MW5	COG8_HUMAN	component of oligomeric golgi complex 8	443					protein transport (GO:0015031)	Golgi transport complex (GO:0017119)|membrane (GO:0016020)				breast(3)|kidney(1)|large_intestine(2)|ovary(2)|skin(1)	9						GAAGGCAACCAGAATATTGTT	0.597																																																0													68	65	66					16																	69368509		2198	4300	6498	SO:0001583	missense	84342			AK025968	CCDS10876.1	16q22.1	2011-05-31			ENSG00000213380	ENSG00000213380		"Components of oligomeric golgi complex"	18623	protein-coding gene	gene with protein product		606979				11980916	Standard	NM_032382		Approved	FLJ22315, DOR1	uc002ewy.2	Q96MW5	OTTHUMG00000154277	ENST00000306875.4:c.1328T>A	16.37:g.69368509A>T	ENSP00000305459:p.Leu443Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAK2|Q8WVV6|Q9H6F8	Missense_Mutation	SNP	ENST00000306875.4	37	CCDS10876.1	.	.	.	.	.	.	.	.	.	.	A	24.7	4.556094	0.86231	.	.	ENSG00000213380	ENST00000306875	T	0.61859	0.07	5.86	5.86	0.93980	.	0.085303	0.56097	D	0.000029	T	0.73860	0.3641	M	0.74881	2.28	0.80722	D	1	D;D	0.61080	0.989;0.989	P;P	0.61328	0.887;0.887	T	0.76305	-0.3008	10	0.56958	D	0.05	-1.8093	16.2605	0.82541	1.0:0.0:0.0:0.0	.	470;443	B4DYU2;Q96MW5	.;COG8_HUMAN	Q	443	ENSP00000305459:L443Q	ENSP00000305459:L443Q	L	-	2	0	COG8	67926010	1.000000	0.71417	1.000000	0.80357	0.947000	0.59692	8.903000	0.92573	2.237000	0.73441	0.460000	0.39030	CTG		0.597	COG8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268948.2	NM_032382		T	69368509	A	T	69368509	3	4	601	1	0	0	0	0	1	0	0	0	3666	188	7	5	522	5	COG8	16	69368509	Missense_Mutation	SNP	A	TCGA-GL-A4EM-01A-11D-A25F-10	48123329	69368509	20986244	71	36114										
GPR172B	55065	ucsc.edu;bcgsc.ca	37	chr17	4937403	4937403	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ggcaggaaagtgacattagaGgtacaacaggccattgccaa	12	8	0	2			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr17:4937403G>T	ENST00000424747.1	-	3	1093	c.381C>A	c.(379-381)acC>acA	p.T127T	SLC52A1_ENST00000512825.2_Silent_p.T127T|SLC52A1_ENST00000254853.5_Silent_p.T127T	NM_001104577.1	NP_001098047.1	Q9NWF4	S52A1_HUMAN	solute carrier family 52 (riboflavin transporter), member 1	127					riboflavin transport (GO:0032218)	integral component of plasma membrane (GO:0005887)	riboflavin transporter activity (GO:0032217)|virus receptor activity (GO:0001618)										TGACATTAGAGGTACAACAGG	0.597																																																0													145	143	144					17																	4937403		2203	4300	6503	SO:0001819	synonymous_variant	55065			AY070775	CCDS11066.1	17p13.3	2013-07-17	2013-07-17	2012-02-29	ENSG00000132517	ENSG00000132517		"Solute carriers"	30225	protein-coding gene	gene with protein product	"riboflavin transporter 1"	607883	"G protein-coupled receptor 172B"	GPR172B		12740431, 18632736	Standard	NM_001104577		Approved	FLJ10060, GPCR42, PAR2, hRFT1, RFVT1	uc002gao.4	Q9NWF4	OTTHUMG00000099448	ENST00000424747.1:c.381C>A	17.37:g.4937403G>T		Somatic		WXS	Illumina HiSeq		B5MEV1|B5MEV2|Q6P9E0|Q86UT0	Silent	SNP	ENST00000424747.1	37	CCDS11066.1																																																																																				0.597	SLC52A1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216913.1	NM_017986		T	4937403	G	T	4937403	2	4	601	1	0	0	0	0	0	0	0	1	6677	987	35	4		4	GPR172B	17	4937403	Silent	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10		4937403	76257807	72	36115										
CHRNB1	1140	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	7350850	7350850	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	cttccccttcgactggcagaAttgcactatggtgttcagct	9	12	1	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr17:7350850A>T	ENST00000306071.2	+	6	558	c.491A>T	c.(490-492)aAt>aTt	p.N164I	CHRNB1_ENST00000536404.2_Missense_Mutation_p.N92I|RP11-104H15.10_ENST00000575331.1_RNA|CHRNB1_ENST00000576360.1_Missense_Mutation_p.N92I	NM_000747.2	NP_000738.2	P11230	ACHB_HUMAN	cholinergic receptor, nicotinic, beta 1 (muscle)	164					behavioral response to nicotine (GO:0035095)|cation transmembrane transport (GO:0098655)|cation transport (GO:0006812)|ion transmembrane transport (GO:0034220)|muscle contraction (GO:0006936)|muscle fiber development (GO:0048747)|neurological system process (GO:0050877)|neuromuscular synaptic transmission (GO:0007274)|postsynaptic membrane organization (GO:0001941)|regulation of membrane potential (GO:0042391)|signal transduction (GO:0007165)|synaptic transmission, cholinergic (GO:0007271)|transmembrane transport (GO:0055085)	acetylcholine-gated channel complex (GO:0005892)|cell junction (GO:0030054)|integral component of plasma membrane (GO:0005887)|postsynaptic membrane (GO:0045211)|synapse (GO:0045202)	acetylcholine binding (GO:0042166)|acetylcholine-activated cation-selective channel activity (GO:0004889)|channel activity (GO:0015267)|ligand-gated ion channel activity (GO:0015276)			NS(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(7)|ovary(3)	23		Prostate(122;0.157)			Galantamine(DB00674)	GACTGGCAGAATTGCACTATG	0.567																																																0													126	112	117					17																	7350850		2203	4300	6503	SO:0001583	missense	1140			X14830	CCDS11106.1	17p13.1	2012-02-11	2006-02-01		ENSG00000170175	ENSG00000170175		"Cholinergic receptors", "Ligand-gated ion channels / Acetylcholine receptors, nicotinic"	1961	protein-coding gene	gene with protein product	"acetylcholine receptor, nicotinic, beta 1 (muscle)"	100710	"cholinergic receptor, nicotinic, beta polypeptide 1 (muscle)"	CHRNB			Standard	NM_000747		Approved		uc002ghb.3	P11230	OTTHUMG00000108139	ENST00000306071.2:c.491A>T	17.37:g.7350850A>T	ENSP00000304290:p.Asn164Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z5H1|Q8IZ46|Q96FB8	Missense_Mutation	SNP	ENST00000306071.2	37	CCDS11106.1	.	.	.	.	.	.	.	.	.	.	A	22.8	4.331856	0.81801	.	.	ENSG00000170175	ENST00000306071;ENST00000536404	T;T	0.80480	-1.38;-1.38	4.96	4.96	0.65561	Neurotransmitter-gated ion-channel ligand-binding (3);Neurotransmitter-gated ion-channel, conserved site (1);	0.000000	0.85682	D	0.000000	D	0.86335	0.5908	M	0.69248	2.105	0.80722	D	1	D	0.89917	1.0	D	0.81914	0.995	D	0.86860	0.2029	10	0.87932	D	0	.	7.3997	0.26956	0.9015:0.0:0.0985:0.0	.	164	P11230	ACHB_HUMAN	I	164;92	ENSP00000304290:N164I;ENSP00000439209:N92I	ENSP00000304290:N164I	N	+	2	0	CHRNB1	7291574	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	8.939000	0.92951	1.863000	0.54032	0.459000	0.35465	AAT		0.567	CHRNB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000226942.3			T	7350850	A	T	7350850	3	4	601	1	0	0	0	0	1	0	0	0	3392	101	4	5	513	5	CHRNB1	17	7350850	Missense_Mutation	SNP	A	TCGA-GL-A4EM-01A-11D-A25F-10	2413447	7350850	73844360	73	36116										
AMAC1L3	643664	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	7386013	7386013	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gctgctgggctctgtgccagGcctctttgtgctgcagcccc	13	15	2	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr17:7386013G>C	ENST00000412468.2	+	2	825	c.710G>C	c.(709-711)gGc>gCc	p.G237A	POLR2A_ENST00000572844.1_5'Flank|POLR2A_ENST00000322644.6_5'Flank|ZBTB4_ENST00000311403.4_Intron	NM_001102614.1	NP_001096084.1	P0C7Q6	S35G6_HUMAN	solute carrier family 35, member G6	237						integral component of membrane (GO:0016021)											TCTGTGCCAGGCCTCTTTGTG	0.612																																																0													52	52	52					17																	7386013		2203	4297	6500	SO:0001583	missense	643664				CCDS45603.1	17p13.1	2013-05-22	2011-08-03	2011-08-03		ENSG00000259224		"Solute carriers"	31351	protein-coding gene	gene with protein product			"transmembrane protein 21B", "acyl-malonyl condensing enzyme 1-like 3"	TMEM21B, AMAC1L3			Standard	NM_001102614		Approved		uc010cmj.1	P0C7Q6		ENST00000412468.2:c.710G>C	17.37:g.7386013G>C	ENSP00000396523:p.Gly237Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000412468.2	37	CCDS45603.1	.	.	.	.	.	.	.	.	.	.	G	3.103	-0.184272	0.06340	.	.	ENSG00000181222	ENST00000412468	T	0.49720	0.77	4.06	3.07	0.35406	.	.	.	.	.	T	0.21631	0.0521	N	0.08118	0	0.25938	N	0.982908	B	0.09022	0.002	B	0.14578	0.011	T	0.27468	-1.0073	9	0.02654	T	1	-1.8186	7.3041	0.26436	0.0:0.1871:0.6199:0.193	.	237	P0C7Q6	S35G6_HUMAN	A	237	ENSP00000396523:G237A	ENSP00000396523:G237A	G	+	2	0	SLC35G6	7326737	0.975000	0.34042	0.271000	0.24616	0.720000	0.41350	2.298000	0.43602	0.827000	0.34685	0.467000	0.42956	GGC		0.612	SLC35G6-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001102614		C	7386013	G	C	7386013	3	2	601	1	0	0	0	0	1	0	0	0	561	1203	42	4	716	4	AMAC1L3	17	7386013	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	35163	7386013	73809197	74	36117										
FAM18B2	201158	ucsc.edu	37	chr17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tgagcaactcacagagaagaCagacgatgattgcactgact	10	9	1	6			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr17:15457087C>T	ENST00000225576.3	-	3	247	c.152G>A	c.(151-153)tGt>tAt	p.C51Y	TVP23C_ENST00000584811.1_5'UTR|TVP23C_ENST00000428082.2_Missense_Mutation_p.C51Y|TVP23C_ENST00000519970.1_Intron|TVP23C_ENST00000438826.3_Missense_Mutation_p.C51Y|TVP23C_ENST00000518321.1_Missense_Mutation_p.C51Y|TVP23C-CDRT4_ENST00000522212.2_Missense_Mutation_p.C51Y	NM_145301.2	NP_660344.2	Q96ET8	TV23C_HUMAN	trans-golgi network vesicle protein 23 homolog C (S. cerevisiae)	51						integral component of membrane (GO:0016021)											ACAGAGAAGACAGACGATGAT	0.373																																																0													274	265	268					17																	15457087		2203	4300	6503	SO:0001583	missense	201158			BC011952	CCDS11170.1, CCDS45617.1	17p12	2012-11-29	2012-11-29	2012-11-29	ENSG00000175106	ENSG00000175106			30453	protein-coding gene	gene with protein product			"family with sequence similarity 18, member B2"	FAM18B2			Standard	NM_001135036		Approved	MGC8763	uc002goq.2	Q96ET8	OTTHUMG00000171461	ENST00000225576.3:c.152G>A	17.37:g.15457087C>T	ENSP00000225576:p.Cys51Tyr	Somatic		WXS	Illumina HiSeq		Q3LIC7	Missense_Mutation	SNP	ENST00000225576.3	37	CCDS11170.1	.	.	.	.	.	.	.	.	.	.	.	2.368	-0.344949	0.05208	.	.	ENSG00000259024;ENSG00000175106;ENSG00000175106;ENSG00000175106	ENST00000522212;ENST00000225576;ENST00000428082;ENST00000438826	T;T;T;T	0.25749	1.78;1.78;1.78;1.78	4.47	4.47	0.54385	.	0.000000	0.85682	N	0.000000	T	0.02571	0.0078	N	0.00004	-3.335	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.06405	0.0;0.0;0.002	T	0.38457	-0.9660	10	0.02654	T	1	-3.8701	9.492	0.38965	0.0:0.0877:0.0:0.9123	.	51;51;51	Q96ET8-2;Q96ET8-3;Q96ET8	.;.;F18B2_HUMAN	Y	51	ENSP00000429865:C51Y;ENSP00000225576:C51Y;ENSP00000406387:C51Y;ENSP00000413355:C51Y	ENSP00000225576:C51Y	C	-	2	0	RP11-726O12.1;FAM18B2	15397812	1.000000	0.71417	1.000000	0.80357	0.703000	0.40648	6.178000	0.71968	0.670000	0.31165	-0.442000	0.05670	TGT		0.373	TVP23C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000130705.2	NM_145301		T	15457087	C	T	15457087	3	4	601	1	0	0	0	0	1	0	0	0	5524	478	17	2	848	2	FAM18B2	17	15457087	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	8071074	15457087	65738123	75	36118										
UTP6	55813	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	30219812	30219812	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	agagccaaagttgaacatcgTcctgcaagaaaagcaatgta	9	8	0	3			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr17:30219812T>C	ENST00000261708.4	-	5	451	c.314A>G	c.(313-315)gAc>gGc	p.D105G	UTP6_ENST00000490218.2_5'UTR	NM_018428.2	NP_060898.2	Q9NYH9	UTP6_HUMAN	UTP6, small subunit (SSU) processome component, homolog (yeast)	105					rRNA processing (GO:0006364)	nucleolus (GO:0005730)				breast(1)|endometrium(3)|kidney(1)|large_intestine(6)|lung(8)|ovary(1)|skin(1)	21		all_hematologic(16;0.0149)|Ovarian(249;0.021)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|Breast(31;0.231)				TTGAACATCGTCCTGCAAGAA	0.378																																																0													116	93	101					17																	30219812		2203	4300	6503	SO:0001630	splice_region_variant	55813			AF116631	CCDS11269.1	17q11.2	2010-06-24	2006-05-16	2006-05-16	ENSG00000108651	ENSG00000108651			18279	protein-coding gene	gene with protein product	"hepatocellular carcinoma associated antigen 66"		"chromosome 17 open reading frame 40"	C17orf40		10843809, 16138909	Standard	NM_018428		Approved	HCA66	uc002hgr.3	Q9NYH9	OTTHUMG00000132815	ENST00000261708.4:c.313-1A>G	17.37:g.30219812T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IX96|Q96BL2|Q9NQ91	Missense_Mutation	SNP	ENST00000261708.4	37	CCDS11269.1	.	.	.	.	.	.	.	.	.	.	T	13.02	2.111575	0.37242	.	.	ENSG00000108651	ENST00000261708	T	0.36699	1.24	5.44	5.44	0.79542	.	0.233979	0.51477	D	0.000100	T	0.24084	0.0583	N	0.21617	0.685	0.54753	D	0.999983	B;B	0.29766	0.129;0.256	B;B	0.24155	0.021;0.051	T	0.06698	-1.0812	10	0.15952	T	0.53	-22.7625	15.1464	0.72657	0.0:0.0:0.0:1.0	.	105;105	B4DSL9;Q9NYH9	.;UTP6_HUMAN	G	105	ENSP00000261708:D105G	ENSP00000261708:D105G	D	-	2	0	UTP6	27243925	1.000000	0.71417	1.000000	0.80357	0.874000	0.50279	3.602000	0.54066	2.057000	0.61298	0.454000	0.30748	GAC		0.378	UTP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256265.2	NM_018428	Missense_Mutation	C	30219812	T	C	30219812	5	2	601	1	0	0	0	0	0	0	1	0	17114	1681	58	3	1539	3	UTP6	17	30219812	Splice_Site	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10	14762725	30219812	50975398	76	36119										
CLTC	1213	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	57760151	57760152	+	Frame_Shift_Del	DEL	AG	AG	-													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	aacagtactcgaacatggaaAgaggtaatctaaacccaagt					rs111452880		TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr17:57760151_57760152delAG	ENST00000269122.3	+	23	4036_4037	c.3762_3763delAG	c.(3760-3765)aaagagfs	p.E1255fs	CLTC_ENST00000579456.1_Frame_Shift_Del_p.E192fs|CLTC_ENST00000393043.1_Frame_Shift_Del_p.E1255fs	NM_004859.3	NP_004850.1	Q00610	CLH1_HUMAN	clathrin, heavy chain (Hc)	1255	Heavy chain arm.|Involved in binding clathrin light chain. {ECO:0000250}.|Proximal segment.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|intracellular protein transport (GO:0006886)|membrane organization (GO:0061024)|mitotic nuclear division (GO:0007067)|negative regulation of hyaluronan biosynthetic process (GO:1900126)|negative regulation of protein localization to plasma membrane (GO:1903077)|osteoblast differentiation (GO:0001649)|post-Golgi vesicle-mediated transport (GO:0006892)|receptor internalization (GO:0031623)|receptor-mediated endocytosis (GO:0006898)|transferrin transport (GO:0033572)	clathrin coat (GO:0030118)|clathrin coat of coated pit (GO:0030132)|clathrin coat of trans-Golgi network vesicle (GO:0030130)|clathrin complex (GO:0071439)|clathrin-coated endocytic vesicle membrane (GO:0030669)|clathrin-coated vesicle (GO:0030136)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|spindle (GO:0005819)|trans-Golgi network membrane (GO:0032588)|vesicle (GO:0031982)	clathrin light chain binding (GO:0032051)|double-stranded RNA binding (GO:0003725)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)|structural molecule activity (GO:0005198)		CLTC/ALK(44)|CLTC/TFE3(2)	breast(2)|large_intestine(6)|ovary(1)	9	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					GAACATGGAAAGAGGTAATCTA	0.386			T	"ALK, TFE3"	"ALCL, renal "																																		Dom	yes		17	17q11-qter	1213	"clathrin, heavy polypeptide (Hc)"		L	0																																										SO:0001589	frameshift_variant	1213			X55878	CCDS32696.1, CCDS74115.1	17q23.1	2013-09-19	2006-09-29		ENSG00000141367	ENSG00000141367			2092	protein-coding gene	gene with protein product		118955	"clathrin, heavy polypeptide (Hc)", "clathrin, heavy chain", "clathrin, heavy polypeptide-like 2"	CLTCL2		1765375, 7584026	Standard	NM_004859		Approved	Hc	uc002ixq.1	Q00610	OTTHUMG00000134279	ENST00000269122.3:c.3762_3763delAG	17.37:g.57760153_57760154delAG	ENSP00000269122:p.Glu1255fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DU00|Q6N0A0|Q86TF2	Frame_Shift_Del	DEL	ENST00000269122.3	37	CCDS32696.1																																																																																				0.386	CLTC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258859.1	NM_004859		-	57760152	AG	-	57760151	7	5	601	1	0	1	0	1	0	0	0	0	3568	69	3	0	3852	0	CLTC	17	57760151	Frame_Shift_Del	DEL	AG	TCGA-GL-A4EM-01A-11D-A25F-10	27540339	57760151	23435059	77	36120										
SLC25A19	60386	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	73273550	73273550	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	agctccactgccacaaagcaGgttttggaggttctctgaac	10	11	1	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr17:73273550G>C	ENST00000402418.3	-	5	1567	c.658C>G	c.(658-660)Ctg>Gtg	p.L220V	SLC25A19_ENST00000375261.4_Missense_Mutation_p.L163V|SLC25A19_ENST00000416858.2_Missense_Mutation_p.L220V|SLC25A19_ENST00000442286.2_Missense_Mutation_p.L220V|SLC25A19_ENST00000580994.1_Missense_Mutation_p.L220V|SLC25A19_ENST00000320362.3_Missense_Mutation_p.L220V			Q9HC21	TPC_HUMAN	solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19	220					deoxynucleotide transport (GO:0030302)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|nucleus (GO:0005634)	deoxynucleotide transmembrane transporter activity (GO:0030233)			breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(1)|ovary(1)|skin(1)	9	all_cancers(13;5.98e-08)|all_epithelial(9;1.16e-08)|Breast(9;3.1e-08)		all cancers(21;6.82e-07)|Epithelial(20;6.86e-06)			CCACAAAGCAGGTTTTGGAGG	0.512																																																0													83	75	78					17																	73273550		2203	4300	6503	SO:0001583	missense	60386				CCDS11720.1	17q25.1	2013-05-22	2007-03-08		ENSG00000125454	ENSG00000125454		"Solute carriers"	14409	protein-coding gene	gene with protein product		606521	"solute carrier family 25 (mitochondrial deoxynucleotide carrier), member 19", "microcephaly, Amish"	MCPHA		11474176, 11226231, 19798730	Standard	NM_021734		Approved	DNC, MUP1, TPC	uc002jnw.4	Q9HC21		ENST00000402418.3:c.658C>G	17.37:g.73273550G>C	ENSP00000385312:p.Leu220Val	Somatic		WXS	Illumina HiSeq	Phase_I	E9PF74|Q6V9R7	Missense_Mutation	SNP	ENST00000402418.3	37	CCDS11720.1	.	.	.	.	.	.	.	.	.	.	G	16.12	3.031943	0.54790	.	.	ENSG00000125454	ENST00000416858;ENST00000442286;ENST00000320362;ENST00000402418;ENST00000375261	D;D;D;D;D	0.81499	-1.5;-1.5;-1.5;-1.5;-1.5	5.35	2.3	0.28687	Mitochondrial carrier domain (2);	0.067029	0.64402	D	0.000011	D	0.82435	0.5036	L	0.45581	1.43	0.45930	D	0.998765	D;P	0.61697	0.99;0.935	P;P	0.62014	0.897;0.513	T	0.81187	-0.1047	10	0.62326	D	0.03	-13.3282	9.0336	0.36273	0.3003:0.0:0.6997:0.0	.	163;220	E9PF74;Q9HC21	.;TPC_HUMAN	V	220;220;220;220;163	ENSP00000397818:L220V;ENSP00000402202:L220V;ENSP00000319574:L220V;ENSP00000385312:L220V;ENSP00000364410:L163V	ENSP00000319574:L220V	L	-	1	2	SLC25A19	70785145	1.000000	0.71417	1.000000	0.80357	0.959000	0.62525	4.657000	0.61490	0.648000	0.30732	-0.157000	0.13467	CTG		0.512	SLC25A19-005	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447282.1	NM_021734		C	73273550	G	C	73273550	3	2	601	1	0	0	0	0	1	0	0	0	14494	991	35	4	312	4	SLC25A19	17	73273550	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	15513399	73273550	7921660	78	36121										
RNF213	57674	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	78321624	78321624	+	Frame_Shift_Del	DEL	C	C	-													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gtgtacaaacactttcccatCcccctcattaaccggctgga							TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr17:78321624delC	ENST00000582970.1	+	29	9632	c.9489delC	c.(9487-9489)atcfs	p.I3163fs	RNF213_ENST00000336301.6_Frame_Shift_Del_p.I1236fs|RNF213_ENST00000508628.2_Frame_Shift_Del_p.I3212fs	NM_001256071.1	NP_001243000.1	Q63HN8	RN213_HUMAN	ring finger protein 213	3163					ATP catabolic process (GO:0006200)|protein autoubiquitination (GO:0051865)|protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)|membrane (GO:0016020)	ATPase activity (GO:0016887)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(7)|central_nervous_system(1)|cervix(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(23)|lung(36)|ovary(11)|pancreas(2)|prostate(4)|skin(3)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	130	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			ACTTTCCCATCCCCCTCATTA	0.542																																																0													67	62	63					17																	78321624		2203	4300	6503	SO:0001589	frameshift_variant	57674			AK074030	CCDS58606.1	17q25.3	2013-01-09	2007-02-08	2007-02-08		ENSG00000173821		"RING-type (C3HC4) zinc fingers"	14539	protein-coding gene	gene with protein product		613768	"chromosome 17 open reading frame 27", "KIAA1618", "moyamoya disease 2", "Moyamoya disease 2"	C17orf27, KIAA1618, MYMY2		10997877, 21048783, 21799892	Standard	NM_020954		Approved	KIAA1554, NET57	uc021uen.2	Q63HN8		ENST00000582970.1:c.9489delC	17.37:g.78321624delC	ENSP00000464087:p.Ile3163fs	Somatic		WXS	Illumina HiSeq	Phase_I	C9JCP4|D6RI12|F8WKS1|Q658P6|Q69YK7|Q6MZR1|Q8IWF4|Q8IZX1|Q8IZX2|Q8N406|Q8TEU0|Q9H6C9|Q9H6H9|Q9H6P3|Q9H8A9|Q9HCF4|Q9HCL8	Frame_Shift_Del	DEL	ENST00000582970.1	37	CCDS58606.1																																																																																				0.542	RNF213-020	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000443298.1	NM_020914		-	78321624	C	-	78321624	7	5	601	1	0	1	0	1	0	0	0	0	13490	845	30	0	9918	0	RNF213	17	78321624	Frame_Shift_Del	DEL	C	TCGA-GL-A4EM-01A-11D-A25F-10	5048074	78321624	2873586	79	36122										
PIGN	23556	bcgsc.ca	37	chr18	59807700	59807700	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	aataagggaagtcatcaatgGtgcaatatcagcctacaaat	8	7	3	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr18:59807700G>A	ENST00000357637.5	-	12	1391	c.976C>T	c.(976-978)Cca>Tca	p.P326S	PIGN_ENST00000400334.3_Missense_Mutation_p.P326S	NM_176787.4	NP_789744.1	O95427	PIGN_HUMAN	phosphatidylinositol glycan anchor biosynthesis, class N	326					C-terminal protein lipidation (GO:0006501)|cellular protein metabolic process (GO:0044267)|post-translational protein modification (GO:0043687)|preassembly of GPI anchor in ER membrane (GO:0016254)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	transferase activity (GO:0016740)			breast(3)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(2)|large_intestine(2)|lung(7)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	22		Colorectal(73;0.187)				GTCATCAATGGTGCAATATCA	0.303																																																0													57	51	53					18																	59807700		1828	4080	5908	SO:0001583	missense	23556			AF109219	CCDS45879.1	18q21.33	2013-02-26	2006-06-28		ENSG00000197563	ENSG00000197563		"Phosphatidylinositol glycan anchor biosynthesis"	8967	protein-coding gene	gene with protein product		606097	"phosphatidylinositol glycan, class N"			10069808, 10574991	Standard	NM_012327		Approved	MDC4, PIG-N	uc021ulb.1	O95427	OTTHUMG00000180098	ENST00000357637.5:c.976C>T	18.37:g.59807700G>A	ENSP00000350263:p.Pro326Ser	Somatic		WXS	Illumina HiSeq	Phase_1	Q7L8F8|Q8TC01|Q9NT05	Missense_Mutation	SNP	ENST00000357637.5	37	CCDS45879.1	.	.	.	.	.	.	.	.	.	.	G	24.8	4.569012	0.86439	.	.	ENSG00000197563	ENST00000357637;ENST00000400334	T;T	0.46063	0.88;0.88	5.72	5.72	0.89469	Alkaline phosphatase-like, alpha/beta/alpha (1);Alkaline-phosphatase-like, core domain (1);	0.054258	0.85682	D	0.000000	T	0.62060	0.2397	L	0.58583	1.82	0.80722	D	1	D;D	0.67145	0.996;0.996	D;D	0.69479	0.946;0.964	T	0.56141	-0.8028	9	.	.	.	-11.9738	19.8454	0.96706	0.0:0.0:1.0:0.0	.	326;326	B2RCI8;O95427	.;PIGN_HUMAN	S	326	ENSP00000350263:P326S;ENSP00000383188:P326S	.	P	-	1	0	PIGN	57958680	1.000000	0.71417	1.000000	0.80357	0.974000	0.67602	5.060000	0.64312	2.850000	0.98022	0.650000	0.86243	CCA		0.303	PIGN-001	KNOWN	non_canonical_genome_sequence_error|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449757.2	NM_176787		A	59807700	G	A	59807700	3	1	601	1	0	0	0	0	1	0	0	0	11900	1261	44	2	1899	2	PIGN	18	59807700	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10		59807700	18269548	80	36123										
CC2D1A	54862	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	14028999	14028999	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ctgccgctagacacttccgcGtggctaaggtgcgtccagcc	12	15	0	1	rs368763604		TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr19:14028999G>T	ENST00000318003.7	+	7	1106	c.865G>T	c.(865-867)Gtg>Ttg	p.V289L	CC2D1A_ENST00000589606.1_Missense_Mutation_p.V289L	NM_017721.4	NP_060191.3	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A	289	Pro-rich.				positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|signal transducer activity (GO:0004871)			NS(1)|breast(2)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(12)|prostate(2)|skin(2)	27			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			ACACTTCCGCGTGGCTAAGGT	0.632																																																0													9	11	10					19																	14028999		2035	4174	6209	SO:0001583	missense	54862			AF536205	CCDS42512.1	19p13.12	2007-01-08				ENSG00000132024			30237	protein-coding gene	gene with protein product	"mental retardation, nonsyndromic, autosomal recessive, 3"	610055				12761501, 16033914	Standard	NM_017721		Approved	FLJ20241, MRT3	uc002mxo.2	Q6P1N0		ENST00000318003.7:c.865G>T	19.37:g.14028999G>T	ENSP00000313601:p.Val289Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z435|Q86XV0|Q8NF89|Q9H603|Q9NXI1	Missense_Mutation	SNP	ENST00000318003.7	37	CCDS42512.1	.	.	.	.	.	.	.	.	.	.	G	11.85	1.760509	0.31137	.	.	ENSG00000132024	ENST00000318003;ENST00000397486	T	0.23147	1.92	5.38	4.32	0.51571	Domain of unknown function DM14 (1);	0.244121	0.35291	N	0.003314	T	0.20007	0.0481	L	0.47716	1.5	0.34644	D	0.72099	P;B;P	0.43909	0.543;0.33;0.821	B;B;B	0.36719	0.198;0.126;0.231	T	0.30679	-0.9970	10	0.30854	T	0.27	-20.8199	10.4966	0.44780	0.0918:0.0:0.9082:0.0	.	289;289;43	Q6P1N0-2;Q6P1N0;C9J1T8	.;C2D1A_HUMAN;.	L	289;43	ENSP00000313601:V289L	ENSP00000313601:V289L	V	+	1	0	CC2D1A	13889999	0.936000	0.31750	0.936000	0.37596	0.192000	0.23643	1.812000	0.38952	1.235000	0.43724	0.655000	0.94253	GTG		0.632	CC2D1A-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000457954.1	NM_017721		T	14028999	G	T	14028999	3	4	601	1	0	0	0	0	1	0	0	0	2728	1145	40	4	891	4	CC2D1A	19	14028999	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10		14028999	45099984	81	36124										
GRAMD1A	57655	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	35505160	35505160	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ctccagccagacagtgacccCggtggctgaacccccgagca	11	17	0	3			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr19:35505160C>G	ENST00000317991.5	+	10	1130	c.938C>G	c.(937-939)cCg>cGg	p.P313R	CTD-2527I21.14_ENST00000605640.1_RNA|GRAMD1A_ENST00000411896.2_Missense_Mutation_p.P306R|GRAMD1A_ENST00000504615.2_Missense_Mutation_p.P79R|GRAMD1A_ENST00000599564.1_Missense_Mutation_p.P400R	NM_020895.3	NP_065946.2	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A	313						integral component of membrane (GO:0016021)				NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(10)|prostate(1)|upper_aerodigestive_tract(1)	19	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			ACAGTGACCCCGGTGGCTGAA	0.652																																																0													48	61	57					19																	35505160		2097	4240	6337	SO:0001583	missense	57655			AK074864	CCDS42546.1, CCDS46046.1	19q13.13	2008-02-05	2005-11-02	2005-11-02		ENSG00000089351			29305	protein-coding gene	gene with protein product			"KIAA1533"	KIAA1533		10819331	Standard	NM_020895		Approved	FLJ90346	uc010xse.1	Q96CP6		ENST00000317991.5:c.938C>G	19.37:g.35505160C>G	ENSP00000441032:p.Pro313Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKY7|Q8NC77|Q9P1Z5	Missense_Mutation	SNP	ENST00000317991.5	37	CCDS42546.1	.	.	.	.	.	.	.	.	.	.	C	18.05	3.536733	0.65085	.	.	ENSG00000089351	ENST00000453966;ENST00000504615;ENST00000317991;ENST00000411896	T;T;T	0.47177	0.85;1.89;1.9	4.44	4.44	0.53790	.	0.367080	0.24580	N	0.037308	T	0.54647	0.1871	L	0.34521	1.04	0.50039	D	0.999843	P;D;D;D;D	0.76494	0.484;0.997;0.999;0.964;0.997	B;P;D;P;D	0.75484	0.215;0.901;0.986;0.694;0.963	T	0.44174	-0.9345	10	0.18276	T	0.48	.	14.5907	0.68362	0.0:1.0:0.0:0.0	.	313;313;79;306;400	Q96CP6-3;Q96CP6;B3KQF7;Q96CP6-2;F5GZ02	.;GRM1A_HUMAN;.;.;.	R	400;79;313;306	ENSP00000423728:P79R;ENSP00000441032:P313R;ENSP00000439267:P306R	ENSP00000441032:P313R	P	+	2	0	GRAMD1A	40197000	0.272000	0.24172	0.963000	0.40424	0.951000	0.60555	1.956000	0.40382	2.309000	0.77851	0.491000	0.48974	CCG		0.652	GRAMD1A-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000461557.1	NM_020895		G	35505160	C	G	35505160	3	3	601	1	0	0	0	0	1	0	0	0	6754	652	23	4	976	4	GRAMD1A	19	35505160	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	21476161	35505160	23623823	82	36125										
FCGBP	8857	bcgsc.ca	37	chr19	40374023	40374023	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gctgtgttcctggcacaccaCgactttacccacatggcacg	9	15	0	0	rs561293450	byFrequency	TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr19:40374023C>T	ENST00000221347.6	-	26	12062	c.12055G>A	c.(12055-12057)Gtg>Atg	p.V4019M	FCGBP_ENST00000595713.1_5'Flank	NM_003890.2	NP_003881.2	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein	4019	Cys-rich.					extracellular vesicular exosome (GO:0070062)				NS(3)|autonomic_ganglia(1)|breast(7)|central_nervous_system(5)|endometrium(13)|kidney(9)|large_intestine(27)|lung(49)|ovary(8)|pancreas(3)|prostate(13)|skin(9)|stomach(9)|upper_aerodigestive_tract(6)|urinary_tract(3)	165	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)			TGGCACACCACGACTTTACCC	0.642													C|||	36	0.0071885	0.0121	0.0029	5008	,	,		23567	0.004		0.0119	False		,,,				2504	0.002															0													13	14	13					19																	40374023		2141	4205	6346	SO:0001583	missense	8857			D84239		19q13.2	2013-09-20			ENSG00000090920	ENSG00000275395			13572	protein-coding gene	gene with protein product	"IgG Fc binding protein", "Human Fc gamma BP"					9182547	Standard	NM_003890		Approved	FC(GAMMA)BP	uc002omp.4	Q9Y6R7	OTTHUMG00000182580	ENST00000221347.6:c.12055G>A	19.37:g.40374023C>T	ENSP00000221347:p.Val4019Met	Somatic		WXS	Illumina HiSeq	Phase_1	O95784	Missense_Mutation	SNP	ENST00000221347.6	37	CCDS12546.1	.	.	.	.	.	.	.	.	.	.	C	6.436	0.448534	0.12223	.	.	ENSG00000090920	ENST00000221347	T	0.06608	3.28	2.99	-5.98	0.02220	von Willebrand factor, type C (1);	.	.	.	.	T	0.03520	0.0101	L	0.31476	0.935	0.09310	N	1	B	0.29766	0.256	B	0.14578	0.011	T	0.30060	-0.9991	9	0.34782	T	0.22	.	6.2908	0.21059	0.0:0.3427:0.2739:0.3834	.	4019	Q9Y6R7	FCGBP_HUMAN	M	4019	ENSP00000221347:V4019M	ENSP00000221347:V4019M	V	-	1	0	FCGBP	45065863	0.000000	0.05858	0.010000	0.14722	0.077000	0.17291	-1.245000	0.02899	-1.918000	0.01072	-0.680000	0.03767	GTG		0.642	FCGBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462507.1	NM_003890		T	40374023	C	T	40374023	3	4	601	1	0	0	0	0	1	0	0	0	5785	536	19	1	4206	1	FCGBP	19	40374023	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	4868863	40374023	18754960	83	36126										
CYP2A6	1548	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	41350548	41350548	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tctcttaccgatggaaaaggGcacaaaagcatcactcttct	7	11	4	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr19:41350548G>T	ENST00000301141.5	-	8	1311	c.1291C>A	c.(1291-1293)Ccc>Acc	p.P431T	CTC-490E21.12_ENST00000601627.1_Intron	NM_000762.5	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A, polypeptide 6	431					coumarin catabolic process (GO:0046226)|coumarin metabolic process (GO:0009804)|drug metabolic process (GO:0017144)|exogenous drug catabolic process (GO:0042738)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|xenobiotic metabolic process (GO:0006805)	cytoplasmic microtubule (GO:0005881)|endoplasmic reticulum membrane (GO:0005789)	coumarin 7-hydroxylase activity (GO:0008389)|enzyme binding (GO:0019899)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen (GO:0016712)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(7)|lung(9)|ovary(3)|prostate(5)|skin(2)|upper_aerodigestive_tract(2)	37			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Acetaminophen(DB00316)|Amiodarone(DB01118)|Amlodipine(DB00381)|Amobarbital(DB01351)|Amphetamine(DB00182)|Antipyrine(DB01435)|Arformoterol(DB01274)|Azelastine(DB00972)|Azithromycin(DB00207)|Buprenorphine(DB00921)|Bupropion(DB01156)|Chlorzoxazone(DB00356)|Cinnarizine(DB00568)|Cisapride(DB00604)|Clofibrate(DB00636)|Clomifene(DB00882)|Clotrimazole(DB00257)|Clozapine(DB00363)|Cyclophosphamide(DB00531)|Dapagliflozin(DB06292)|Desipramine(DB01151)|Dexamethasone(DB01234)|Dexfenfluramine(DB01191)|Diethylstilbestrol(DB00255)|Dronabinol(DB00470)|Eletriptan(DB00216)|Ezogabine(DB04953)|Flunarizine(DB04841)|Flunitrazepam(DB01544)|Fluorouracil(DB00544)|Flurazepam(DB00690)|Fomepizole(DB01213)|Formoterol(DB00983)|Halothane(DB01159)|Ifosfamide(DB01181)|Isoniazid(DB00951)|Ketoconazole(DB01026)|Letrozole(DB01006)|Lidocaine(DB00281)|Lorcaserin(DB04871)|Memantine(DB01043)|Menadione(DB00170)|Methimazole(DB00763)|Methoxsalen(DB00553)|Methoxyflurane(DB01028)|Metyrapone(DB01011)|Miconazole(DB01110)|Montelukast(DB00471)|Nevirapine(DB00238)|Nicotine(DB00184)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Norfloxacin(DB01059)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Pilocarpine(DB01085)|Prednisolone(DB00860)|Progesterone(DB00396)|Propofol(DB00818)|Rifampicin(DB01045)|Rosiglitazone(DB00412)|Selegiline(DB01037)|Sevoflurane(DB01236)|Sulfaphenazole(DB06729)|Tamoxifen(DB00675)|Tranylcypromine(DB00752)|Tretinoin(DB00755)|Troleandomycin(DB01361)|Valproic Acid(DB00313)|Zidovudine(DB00495)	ATGGAAAAGGGCACAAAAGCA	0.567																																																0													160	150	153					19																	41350548		2203	4300	6503	SO:0001583	missense	1548			AF182275	CCDS12568.1	19q13.2	2013-11-11	2003-01-14		ENSG00000255974	ENSG00000255974		"Cytochrome P450s"	2610	protein-coding gene	gene with protein product		122720	"cytochrome P450, subfamily IIA (phenobarbital-inducible), polypeptide 6"	CYP2A3		7668294, 2748347	Standard	NM_000762		Approved	CPA6, CYP2A	uc002opl.4	P11509	OTTHUMG00000182713	ENST00000301141.5:c.1291C>A	19.37:g.41350548G>T	ENSP00000301141:p.Pro431Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A7YAE5|B2R7F6|P00190|P10890|Q16803|Q4VAT9|Q4VAU0|Q4VAU1|Q9H1Z7|Q9UCU0|Q9UK48	Missense_Mutation	SNP	ENST00000301141.5	37	CCDS12568.1	.	.	.	.	.	.	.	.	.	.	-	13.72	2.322377	0.41096	.	.	ENSG00000255974	ENST00000301141	D	0.83591	-1.74	3.16	1.88	0.25563	.	0.000000	0.85682	U	0.000000	D	0.88343	0.6411	M	0.70595	2.14	0.26111	N	0.980682	D	0.89917	1.0	D	0.81914	0.995	T	0.79165	-0.1916	10	0.72032	D	0.01	.	10.5837	0.45269	0.0:0.3621:0.6378:0.0	.	431	P11509	CP2A6_HUMAN	T	431	ENSP00000301141:P431T	ENSP00000301141:P431T	P	-	1	0	CYP2A6	46042388	1.000000	0.71417	0.646000	0.29493	0.731000	0.41821	3.222000	0.51223	1.487000	0.48415	0.379000	0.24179	CCC		0.567	CYP2A6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463259.1	NM_000762		T	41350548	G	T	41350548	3	4	601	1	0	0	0	0	1	0	0	0	4164	1203	42	4	201	4	CYP2A6	19	41350548	Missense_Mutation	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	976525	41350548	17778435	84	36127										
ZNF235	9310	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	44792844	44792844	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ctacgctgggtaagaggtgaTacctttagggtatctttacc	11	8	1	2			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr19:44792844T>C	ENST00000291182.4	-	5	846	c.744A>G	c.(742-744)gtA>gtG	p.V248V	ZNF235_ENST00000589799.1_Intron|ZNF235_ENST00000589248.1_Intron	NM_004234.4	NP_004225.3	Q14590	ZN235_HUMAN	zinc finger protein 235	248					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(15)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	29		Prostate(69;0.0352)|all_neural(266;0.116)				TAAGAGGTGATACCTTTAGGG	0.378																																																0													107	107	107					19																	44792844		2203	4300	6503	SO:0001819	synonymous_variant	9310			X78929	CCDS33048.1	19q13.2	2013-01-08	2002-11-04	2002-11-08	ENSG00000159917	ENSG00000159917		"Zinc fingers, C2H2-type", "-"	12866	protein-coding gene	gene with protein product		604749	"zinc finger protein homologous to Zfp93 in mouse"	ZNF270, ZFP93		7865130, 9570955	Standard	NM_004234		Approved	HZF6, ANF270	uc002oza.4	Q14590		ENST00000291182.4:c.744A>G	19.37:g.44792844T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DTQ7|O14898|O14899|Q17RR8	Silent	SNP	ENST00000291182.4	37	CCDS33048.1																																																																																				0.378	ZNF235-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460732.1			C	44792844	T	C	44792844	2	2	601	1	0	0	0	0	0	0	0	1	17800	1393	49	3		3	ZNF235	19	44792844	Silent	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10	3442296	44792844	14336139	85	36128										
ZNF154	7710	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	58213806	58213806	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	attgagactgtagcttttgcTaaaggatttcccacattcac	7	9	1	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr19:58213806T>C	ENST00000512439.2	-	3	707	c.511A>G	c.(511-513)Agc>Ggc	p.S171G	ZNF154_ENST00000426889.1_Missense_Mutation_p.S171G|ZNF551_ENST00000596085.1_Intron|AC003006.7_ENST00000599221.1_Intron|AC003006.7_ENST00000594684.1_Intron			Q13106	ZN154_HUMAN	zinc finger protein 154	171					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(1)|kidney(1)|large_intestine(7)|lung(3)	12		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		TAGCTTTTGCTAAAGGATTTC	0.433																																																0													215	215	215					19																	58213806		2165	4285	6450	SO:0001583	missense	7710			U20648	CCDS42639.1	19q13.4	2013-01-08	2006-08-22		ENSG00000179909	ENSG00000179909		"Zinc fingers, C2H2-type", "-"	12939	protein-coding gene	gene with protein product		604085	"zinc finger protein 154 (pHZ-92)"			7557990	Standard	XR_243957		Approved	pHZ-92	uc010euf.3	Q13106	OTTHUMG00000140375	ENST00000512439.2:c.511A>G	19.37:g.58213806T>C	ENSP00000421258:p.Ser171Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A7MCY3|Q8IVG7|Q8NAR0	Missense_Mutation	SNP	ENST00000512439.2	37	CCDS42639.1	.	.	.	.	.	.	.	.	.	.	T	15.85	2.953447	0.53293	.	.	ENSG00000179909	ENST00000512439;ENST00000426889;ENST00000396157	T;T	0.07688	3.17;3.17	3.03	2.0	0.26442	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.08044	0.0201	L	0.55834	1.745	0.09310	N	1	B	0.15141	0.012	B	0.04013	0.001	T	0.34825	-0.9813	9	0.52906	T	0.07	.	2.5259	0.04691	0.2336:0.1338:0.0:0.6326	.	171	Q13106	ZN154_HUMAN	G	171;171;42	ENSP00000421258:S171G;ENSP00000442370:S171G	ENSP00000440907:S42G	S	-	1	0	ZNF154	62905618	0.001000	0.12720	0.015000	0.15790	0.941000	0.58515	0.218000	0.17622	0.559000	0.29153	0.459000	0.35465	AGC		0.433	ZNF154-002	KNOWN	NMD_exception|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277102.2			C	58213806	T	C	58213806	3	2	601	1	0	0	0	0	1	0	0	0	17747	1522	53	3	806	3	ZNF154	19	58213806	Missense_Mutation	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10	13420962	58213806	915177	86	36129										
ZNF814	730051	hgsc.bcm.edu	37	chr19	58385793	58385793	+	Missense_Mutation	SNP	C	C	T													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	attctccacattcataaggtCttttcccagtgtgaactctc					rs113623532		TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr19:58385793C>T	ENST00000435989.2	-	3	1199	c.965G>A	c.(964-966)aGa>aAa	p.R322K	ZNF814_ENST00000596604.1_Intron|ZNF814_ENST00000597342.1_Intron|ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000597832.1_Intron|ZNF814_ENST00000595295.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	322					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						TTCATAAGGTCTTTTCCCAGT	0.358																																																0													15	12	13					19																	58385793		687	1562	2249	SO:0001583	missense	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.965G>A	19.37:g.58385793C>T	ENSP00000410545:p.Arg322Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF35	Missense_Mutation	SNP	ENST00000435989.2	37	CCDS46212.1	.	.	.	.	.	.	.	.	.	.	.	0.023	-1.395361	0.01175	.	.	ENSG00000204514	ENST00000435989	T	0.12361	2.69	2.27	9.47E-4	0.14044	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.03608	0.0103	N	0.02225	-0.63	0.09310	N	0.999999	B	0.29301	0.241	B	0.28916	0.096	T	0.40534	-0.9558	9	0.02654	T	1	.	4.6969	0.12808	0.0:0.4166:0.0:0.5834	.	322	B7Z6K7	ZN814_HUMAN	K	322	ENSP00000410545:R322K	ENSP00000410545:R322K	R	-	2	0	ZNF814	63077605	0.000000	0.05858	0.024000	0.17045	0.009000	0.06853	-1.883000	0.01623	0.331000	0.23511	-1.381000	0.01174	AGA		0.358	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		T	58385793	C	T	58385793	3	4	601	1	0	0	0	0	1	0	0	0	18188	913	32	2	1606	2	ZNF814	19	58385793	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	171987	58385793	743190	87	36130	278	2								
ZNF814	730051	hgsc.bcm.edu	37	chr19	58385799	58385799	+	Missense_Mutation	SNP	C	C	T													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	cacattcataaggtcttttcCcagtgtgaactctctgatga							TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr19:58385799C>T	ENST00000435989.2	-	3	1193	c.959G>A	c.(958-960)gGg>gAg	p.G320E	ZNF814_ENST00000596604.1_Intron|ZNF814_ENST00000597342.1_Intron|ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000597832.1_Intron|ZNF814_ENST00000595295.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	320					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.G320E(1)		NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						AGGTCTTTTCCCAGTGTGAAC	0.358																																																1	Substitution - Missense(1)	central_nervous_system(1)											14	11	12					19																	58385799		687	1560	2247	SO:0001583	missense	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.959G>A	19.37:g.58385799C>T	ENSP00000410545:p.Gly320Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF35	Missense_Mutation	SNP	ENST00000435989.2	37	CCDS46212.1	.	.	.	.	.	.	.	.	.	.	.	7.488	0.650166	0.14516	.	.	ENSG00000204514	ENST00000435989	T	0.25749	1.78	2.37	-4.23	0.03789	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.29389	0.0732	L	0.41824	1.3	0.09310	N	0.999992	D	0.76494	0.999	D	0.65573	0.936	T	0.23261	-1.0193	9	0.66056	D	0.02	.	2.112	0.03705	0.1507:0.4859:0.1487:0.2147	.	320	B7Z6K7	ZN814_HUMAN	E	320	ENSP00000410545:G320E	ENSP00000410545:G320E	G	-	2	0	ZNF814	63077611	0.000000	0.05858	0.000000	0.03702	0.006000	0.05464	-0.267000	0.08619	-0.341000	0.08376	-3.844000	0.00018	GGG		0.358	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		T	58385799	C	T	58385799	3	4	601	1	0	0	0	0	1	0	0	0	18188	623	22	2	1612	2	ZNF814	19	58385799	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	6	58385799	743184	88	36131	278	2								
IDH3B	3420	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	2639397	2639398	+	Nonstop_Mutation	DNP	CT	CT	TA													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gttggaagaaataaagggctCtagctccctttagtctgcag							TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr20:2639397_2639398CT>TA	ENST00000380843.4	-	12	1187_1188	c.1157_1158AG>TA	c.(1156-1158)tAG>tTA	p.*386L	SNORD86_ENST00000391196.1_RNA|IDH3B_ENST00000380851.5_Intron|SNORD56_ENST00000413522.1_RNA|IDH3B_ENST00000488299.1_5'UTR|SNORD57_ENST00000448188.1_RNA	NM_006899.3	NP_008830.2	O43837	IDH3B_HUMAN	isocitrate dehydrogenase 3 (NAD+) beta	0					2-oxoglutarate metabolic process (GO:0006103)|cellular metabolic process (GO:0044237)|isocitrate metabolic process (GO:0006102)|NADH metabolic process (GO:0006734)|small molecule metabolic process (GO:0044281)|tricarboxylic acid cycle (GO:0006099)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	electron carrier activity (GO:0009055)|isocitrate dehydrogenase (NAD+) activity (GO:0004449)|magnesium ion binding (GO:0000287)|NAD binding (GO:0051287)			breast(1)|endometrium(3)|kidney(2)|lung(7)|prostate(1)	14						ATAAAGGGCTCTAGCTCCCTTT	0.55																																																0																																										SO:0001578	stop_lost	3420				CCDS13031.1, CCDS13032.1, CCDS74696.1	20p13	2013-02-14			ENSG00000101365	ENSG00000101365	1.1.1.41		5385	protein-coding gene	gene with protein product		604526				10575215	Standard	NM_006899		Approved	RP46	uc002wgp.4	O43837	OTTHUMG00000031699	ENST00000380843.4:c.1156_1156delinsTA	20.37:g.2639397_2639398delinsTA	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDR1|D3DVX2|D3DVX3|O95106|Q5JXS8|Q9NQ06|Q9NQ07|Q9NUZ0|Q9UEX0|Q9UG99	Missense_Mutation	DNP	ENST00000380843.4	37	CCDS13032.1																																																																																				0.55	IDH3B-011	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000077613.1			TA	2639398	CT	TA	2639397	4	4	601	1	0	0	0	0	0	0	0	0	7504	924	32	2	88	2	IDH3B	20	2639397	Nonstop_Mutation	DNP	CT	TCGA-GL-A4EM-01A-11D-A25F-10		2639397	60386123	89	36132	279	2								
IDH3B	3420	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	2639399	2639399	+	Nonstop_Mutation	SNP	A	A	C													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tggaagaaataaagggctctAgctccctttagtctgcaggt							TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr20:2639399A>C	ENST00000380843.4	-	12	1186	c.1156T>G	c.(1156-1158)Tag>Gag	p.*386E	SNORD86_ENST00000391196.1_RNA|IDH3B_ENST00000380851.5_Intron|SNORD56_ENST00000413522.1_RNA|IDH3B_ENST00000488299.1_5'UTR|SNORD57_ENST00000448188.1_RNA	NM_006899.3	NP_008830.2	O43837	IDH3B_HUMAN	isocitrate dehydrogenase 3 (NAD+) beta	0					2-oxoglutarate metabolic process (GO:0006103)|cellular metabolic process (GO:0044237)|isocitrate metabolic process (GO:0006102)|NADH metabolic process (GO:0006734)|small molecule metabolic process (GO:0044281)|tricarboxylic acid cycle (GO:0006099)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	electron carrier activity (GO:0009055)|isocitrate dehydrogenase (NAD+) activity (GO:0004449)|magnesium ion binding (GO:0000287)|NAD binding (GO:0051287)			breast(1)|endometrium(3)|kidney(2)|lung(7)|prostate(1)	14						AAAGGGCTCTAGCTCCCTTTA	0.552																																																0													177	154	162					20																	2639399		2203	4300	6503	SO:0001578	stop_lost	3420				CCDS13031.1, CCDS13032.1, CCDS74696.1	20p13	2013-02-14			ENSG00000101365	ENSG00000101365	1.1.1.41		5385	protein-coding gene	gene with protein product		604526				10575215	Standard	NM_006899		Approved	RP46	uc002wgp.4	O43837	OTTHUMG00000031699	ENST00000380843.4:c.1156T>G	20.37:g.2639399A>C	ENSP00000370223:p.*386Glnext*29	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDR1|D3DVX2|D3DVX3|O95106|Q5JXS8|Q9NQ06|Q9NQ07|Q9NUZ0|Q9UEX0|Q9UG99	Missense_Mutation	SNP	ENST00000380843.4	37	CCDS13032.1	.	.	.	.	.	.	.	.	.	.	A	15.71	2.913714	0.52439	.	.	ENSG00000101365	ENST00000380843;ENST00000435594	.	.	.	5.69	4.59	0.56863	.	.	.	.	.	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	8.5939	0.33703	0.9128:0.0:0.0872:0.0	.	.	.	.	E	386;234	.	.	X	-	1	0	IDH3B	2587399	1.000000	0.71417	1.000000	0.80357	0.880000	0.50808	4.484000	0.60271	0.979000	0.38497	0.477000	0.44152	TAG		0.552	IDH3B-011	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000077613.1			C	2639399	A	C	2639399	4	2	601	1	0	0	0	0	0	0	0	0	7504	433	15	5	90	5	IDH3B	20	2639399	Nonstop_Mutation	SNP	A	TCGA-GL-A4EM-01A-11D-A25F-10	2	2639399	60386121	90	36133	279	2								
C20orf117	140710	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	35443624	35443624	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tgagaaggactcctgctgttCcttgacagagcacccgagga	12	11	0	3			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr20:35443624C>T	ENST00000357779.3	-	5	1833	c.1507G>A	c.(1507-1509)Gaa>Aaa	p.E503K	SOGA1_ENST00000237536.4_Missense_Mutation_p.E741K|SOGA1_ENST00000456801.2_Missense_Mutation_p.E344K|SOGA1_ENST00000279034.6_Missense_Mutation_p.E503K			O94964	SOGA1_HUMAN	suppressor of glucose, autophagy associated 1	503					insulin receptor signaling pathway (GO:0008286)|negative regulation of gluconeogenesis (GO:0045721)|regulation of autophagy (GO:0010506)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)				endometrium(5)|kidney(1)|lung(21)|urinary_tract(1)	28						TCCTGCTGTTCCTTGACAGAG	0.577																																																0													84	95	91					20																	35443624		2173	4275	6448	SO:0001583	missense	140710			AK126630	CCDS46598.1, CCDS54459.1	20q11.23	2012-03-01	2012-02-27	2012-02-27	ENSG00000149639	ENSG00000149639			16111	protein-coding gene	gene with protein product	"suppressor of glucose by autophagy", "suppressor of glucose from autophagy"		"chromosome 20 open reading frame 117", "KIAA0889"	C20orf117, KIAA0889		20813965	Standard	NM_080627		Approved	dJ132F21.1, FLJ44670, SOGA	uc021wcx.1	O94964	OTTHUMG00000032395	ENST00000357779.3:c.1507G>A	20.37:g.35443624C>T	ENSP00000350424:p.Glu503Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NK10|Q14DB2|Q5JW51|Q6ZTG8	Missense_Mutation	SNP	ENST00000357779.3	37		.	.	.	.	.	.	.	.	.	.	C	18.14	3.556991	0.65425	.	.	ENSG00000149639	ENST00000237536;ENST00000279034;ENST00000456801;ENST00000357779	T;T;T;T	0.22743	1.99;1.94;1.98;1.98	5.72	5.72	0.89469	.	0.594212	0.17064	N	0.188438	T	0.45677	0.1354	M	0.63843	1.955	0.52501	D	0.999954	D	0.89917	1.0	D	0.87578	0.998	T	0.04991	-1.0913	10	0.27082	T	0.32	-37.714	18.6578	0.91460	0.0:1.0:0.0:0.0	.	503	O94964-4	.	K	741;503;344;503	ENSP00000237536:E741K;ENSP00000279034:E503K;ENSP00000413886:E344K;ENSP00000350424:E503K	ENSP00000237536:E741K	E	-	1	0	KIAA0889	34877038	1.000000	0.71417	0.999000	0.59377	0.042000	0.13812	3.774000	0.55341	2.706000	0.92434	0.561000	0.74099	GAA		0.577	SOGA1-201	KNOWN	basic	protein_coding	protein_coding		NM_199181		T	35443624	C	T	35443624	3	4	601	1	0	0	0	0	1	0	0	0	2085	864	30	2	2870	2	C20orf117	20	35443624	Missense_Mutation	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	32804225	35443624	27581896	91	36134										
ZSWIM3	140831	bcgsc.ca	37	chr20	44486494	44486501	+	Frame_Shift_Del	DEL	TGAGGACT	TGAGGACT	-													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	ggcagctgcttcaagacctaTgaggacttcaaggagtgctt					rs199725190		TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	TGAGGACT	TGAGGACT	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chr20:44486494_44486501delTGAGGACT	ENST00000255152.2	+	1	239_246	c.30_37delTGAGGACT	c.(28-39)tatgaggacttcfs	p.EDF11fs	ACOT8_ENST00000217455.4_5'Flank|ZSWIM3_ENST00000454862.2_5'UTR	NM_080752.3	NP_542790.2	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM-type containing 3	11							zinc ion binding (GO:0008270)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(15)|ovary(2)|skin(1)|upper_aerodigestive_tract(2)	35		Myeloproliferative disorder(115;0.0122)				TCAAGACCTATGAGGACTTCAAGGAGTG	0.601																																																0																																										SO:0001589	frameshift_variant	140831			AL008726	CCDS13381.1	20q13.12	2014-06-13	2003-12-17	2003-12-19	ENSG00000132801	ENSG00000132801		"Zinc fingers, SWIM-type"	16157	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 174"		"chromosome 20 open reading frame 164"	C20orf164			Standard	NM_080752		Approved	dJ337O18.7, PPP1R174	uc002xqd.3	Q96MP5	OTTHUMG00000032627	ENST00000255152.2:c.30_37delTGAGGACT	20.37:g.44486494_44486501delTGAGGACT	ENSP00000255152:p.Glu11fs	Somatic		WXS	Illumina HiSeq	Phase_1	Q9BR13	Frame_Shift_Del	DEL	ENST00000255152.2	37	CCDS13381.1																																																																																				0.601	ZSWIM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079540.1	NM_080752		-	44486501	TGAGGACT	-	44486494	7	5	601	1	0	1	0	1	0	0	0	0	18254	1471	51	0	32	0	ZSWIM3	20	44486494	Frame_Shift_Del	DEL	TGAGGACT	TCGA-GL-A4EM-01A-11D-A25F-10	9042870	44486494	18539026	92	36135										
RPS6KA3	6197	broad.mit.edu	37	chrX	20222171	20222171	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gccttcttcaataccttcatGgcataaagctgcctagcatc	6	13	3	0			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chrX:20222171G>A	ENST00000379565.3	-	4	501	c.294C>T	c.(292-294)gcC>gcT	p.A98A	RPS6KA3_ENST00000540702.1_Silent_p.A70A|RPS6KA3_ENST00000544447.1_Silent_p.A70A|RPS6KA3_ENST00000379548.4_Silent_p.A69A	NM_004586.2	NP_004577.1	P51812	KS6A3_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide 3	98	Protein kinase 1. {ECO:0000255|PROSITE- ProRule:PRU00159}.				axon guidance (GO:0007411)|cell cycle (GO:0007049)|central nervous system development (GO:0007417)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of cell differentiation (GO:0045597)|positive regulation of cell growth (GO:0030307)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of DNA-templated transcription in response to stress (GO:0043620)|regulation of translation in response to stress (GO:0043555)|response to lipopolysaccharide (GO:0032496)|signal transduction (GO:0007165)|skeletal system development (GO:0001501)|stress-activated MAPK cascade (GO:0051403)|synaptic transmission (GO:0007268)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|cysteine-type endopeptidase inhibitor activity involved in apoptotic process (GO:0043027)|magnesium ion binding (GO:0000287)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			breast(4)|central_nervous_system(4)|endometrium(3)|kidney(2)|large_intestine(5)|liver(14)|lung(7)|ovary(1)|stomach(1)	41					Acetylsalicylic acid(DB00945)	ATACCTTCATGGCATAAAGCT	0.338																																																0													139	126	130					X																	20222171		2203	4300	6503	SO:0001819	synonymous_variant	6197			U08316	CCDS14197.1	Xp22.2-p22.1	2013-06-03	2002-08-29		ENSG00000177189	ENSG00000177189			10432	protein-coding gene	gene with protein product		300075	"ribosomal protein S6 kinase, 90kD, polypeptide 3", "mental retardation, X-linked 19", "Coffin-Lowry syndrome"	MRX19, CLS		8141249, 11896450, 16879200	Standard	XM_005274573		Approved	RSK, RSK2, HU-3	uc004czu.3	P51812	OTTHUMG00000021231	ENST00000379565.3:c.294C>T	X.37:g.20222171G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9V4|Q4VAP3|Q59H26|Q5JPK8|Q7Z3Z7	Silent	SNP	ENST00000379565.3	37	CCDS14197.1																																																																																				0.338	RPS6KA3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000056011.3	NM_004586		A	20222171	G	A	20222171	2	1	601	1	0	0	0	0	0	0	0	1	13665	1335	47	2		2	RPS6KA3	23	20222171	Silent	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10		20222171	135048389	93	36136										
FOXO4	4303	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	70316474	70316474	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	agccgtccccgctcctgcacCtggccccttccccgaccaga	8	22	0	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chrX:70316474C>T	ENST00000374259.3	+	1	428	c.96C>T	c.(94-96)acC>acT	p.T32T	FOXO4_ENST00000466874.1_3'UTR|FOXO4_ENST00000341558.3_Silent_p.T32T	NM_001170931.1|NM_005938.3	NP_001164402.1|NP_005929.2	P98177	FOXO4_HUMAN	forkhead box O4	32				QSRPRSCTWP -> RAVPLLHLA (in Ref. 1; CAA72156). {ECO:0000305}.	cell cycle arrest (GO:0007050)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|mitotic G2 DNA damage checkpoint (GO:0007095)|muscle organ development (GO:0007517)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cell proliferation (GO:0008285)|negative regulation of G0 to G1 transition (GO:0070317)|negative regulation of smooth muscle cell differentiation (GO:0051151)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription, DNA-templated (GO:0006355)|stem cell differentiation (GO:0048863)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|enzyme binding (GO:0019899)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)			breast(1)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(4)|lung(8)|prostate(1)	18	Renal(35;0.156)					GCTCCTGCACCTGGCCCCTTC	0.637																																																0													24	27	26					X																	70316474		1951	4125	6076	SO:0001819	synonymous_variant	4303				CCDS43969.1, CCDS55440.1	Xq13.1	2008-02-05	2007-05-02	2007-05-02	ENSG00000184481	ENSG00000184481		"Forkhead boxes"	7139	protein-coding gene	gene with protein product		300033	"myeloid/lymphoid or mixed-lineage leukemia (trithorax (Drosophila) homolog); translocated to, 7", "myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 7"	MLLT7		7529552	Standard	NM_005938		Approved	AFX1	uc004dys.2	P98177	OTTHUMG00000021789	ENST00000374259.3:c.96C>T	X.37:g.70316474C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7WPJ7|O43821|Q13720|Q3KPF1|Q8TDK9	Silent	SNP	ENST00000374259.3	37	CCDS43969.1																																																																																				0.637	FOXO4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057115.1	NM_005938		T	70316474	C	T	70316474	2	4	601	1	0	0	0	0	0	0	0	1	6032	668	24	2		2	FOXO4	23	70316474	Silent	SNP	C	TCGA-GL-A4EM-01A-11D-A25F-10	50094303	70316474	84954086	94	36137										
ALG13	79868	ucsc.edu	37	chrX	110987897	110987897	+	Splice_Site	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	tgttttgtttctttgttagtGattgcctcaccatcctatcc	6	10	2	1			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chrX:110987897G>T	ENST00000394780.3	+	24	2709	c.2697G>T	c.(2695-2697)gtG>gtT	p.V899V	ALG13_ENST00000251943.4_Intron|ALG13_ENST00000470971.1_3'UTR	NM_001099922.2|NM_001257231.1	NP_001093392.1|NP_001244160.1	Q9NP73	ALG13_HUMAN	ALG13, UDP-N-acetylglucosaminyltransferase subunit	899	Pro-rich.				cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|lipid glycosylation (GO:0030259)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)	endoplasmic reticulum membrane (GO:0005789)	carbohydrate binding (GO:0030246)|cysteine-type peptidase activity (GO:0008234)|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity (GO:0004577)|poly(A) RNA binding (GO:0044822)			endometrium(2)|lung(10)|skin(1)	13						CTTTGTTAGTGATTGCCTCAC	0.458																																																0													89	61	70					X																	110987897		1567	3574	5141	SO:0001630	splice_region_variant	79868			AF220051	CCDS14559.1, CCDS55477.1, CCDS59173.1, CCDS76011.1, CCDS76012.1, CCDS76013.1	Xq23	2014-02-24	2013-02-21	2006-11-07	ENSG00000101901	ENSG00000101901	2.4.1.141	"Tudor domain containing", "OTU domain containing"	30881	protein-coding gene	gene with protein product	"tudor domain containing 13", "N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase"	300776	"glycosyltransferase 28 domain containing 1", "chromosome X open reading frame 45", "asparagine-linked glycosylation 13 homolog (S. cerevisiae)"	GLT28D1, CXorf45		12477932	Standard	NM_018466		Approved	MDS031, YGL047W, FLJ23018, TDRD13	uc011msy.2	Q9NP73	OTTHUMG00000022209	ENST00000394780.3:c.2696-1G>T	X.37:g.110987897G>T		Somatic		WXS	Illumina HiSeq		B1AKD6|B1AKM1|B2R5L5|B7Z6J0|B7Z804|B7Z847|B7Z9A8|B7ZAJ1|B7ZB57|Q17RC3|Q5JXY9|Q9H5U8	Silent	SNP	ENST00000394780.3	37	CCDS55477.1																																																																																				0.458	ALG13-011	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000272895.1	NM_018466	Silent	T	110987897	G	T	110987897	5	4	601	1	0	0	0	0	0	0	1	0	515	1304	45	4	2933	4	ALG13	23	110987897	Splice_Site	SNP	G	TCGA-GL-A4EM-01A-11D-A25F-10	40671423	110987897	44282663	95	36138										
STAG2	10735	broad.mit.edu	37	chrX	123190070	123190070	+	Frame_Shift_Del	DEL	A	A	-													0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	agtagcagtagcagctggagAatttctctacaaaaagtaaa							TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chrX:123190070delA	ENST00000371160.1	+	14	1579	c.1289delA	c.(1288-1290)gaafs	p.E430fs	STAG2_ENST00000371157.3_Frame_Shift_Del_p.E430fs|STAG2_ENST00000371144.3_Frame_Shift_Del_p.E430fs|STAG2_ENST00000371145.3_Frame_Shift_Del_p.E430fs|STAG2_ENST00000354548.5_Frame_Shift_Del_p.E361fs|STAG2_ENST00000469481.1_Intron|STAG2_ENST00000218089.9_Frame_Shift_Del_p.E430fs	NM_001282418.1	NP_001269347.1	Q8N3U4	STAG2_HUMAN	stromal antigen 2	430					meiotic nuclear division (GO:0007126)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of DNA endoreduplication (GO:0032876)|sister chromatid cohesion (GO:0007062)|stem cell maintenance (GO:0019827)	actin cytoskeleton (GO:0015629)|chromatin (GO:0000785)|chromosome (GO:0005694)|chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|intermediate filament cytoskeleton (GO:0045111)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	chromatin binding (GO:0003682)			breast(5)|central_nervous_system(4)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(5)|kidney(8)|large_intestine(9)|lung(21)|ovary(5)|prostate(2)|skin(5)|urinary_tract(4)	78						GCAGCTGGAGAATTTCTCTAC	0.333																																																0													71	69	70					X																	123190070		2203	4300	6503	SO:0001589	frameshift_variant	10735			Z75331	CCDS14607.1, CCDS43990.1	Xq25	2014-09-17			ENSG00000101972	ENSG00000101972			11355	protein-coding gene	gene with protein product		300826				9305759	Standard	NM_001042750		Approved	SA-2, SCC3B	uc004eua.3	Q8N3U4	OTTHUMG00000022725	ENST00000371160.1:c.1289delA	X.37:g.123190070delA	ENSP00000360202:p.Glu430fs	Somatic		WXS	Illumina HiSeq	Phase_I	B1AMT5|D3DTF5|O00540|Q5JTI6|Q68DE9|Q9H1N8	Frame_Shift_Del	DEL	ENST00000371160.1	37	CCDS14607.1																																																																																				0.333	STAG2-018	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000156159.2	NM_006603		-	123190070	A	-	123190070	7	5	601	1	0	1	0	1	0	0	0	0	15255	246	9	0	1335	0	STAG2	23	123190070	Frame_Shift_Del	DEL	A	TCGA-GL-A4EM-01A-11D-A25F-10	12202173	123190070	32080490	96	36139										
OCRL	4952	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	128678970	128678970	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0631578947368421	6	1	1.32244897959184	0	1.92857142857143	0.0108359133126935	0.591750841750844	0	gcatgagaaggaacagcatgTtcaagatatcattcctataa	8	7	2	2			TCGA-GL-A4EM-01A-11D-A25F-10	TCGA-GL-A4EM-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7815397b-aa39-4b79-bcaa-6859a3f115f8	4bc53b4e-8334-46ff-aaab-4e5a0f30177b	g.chrX:128678970T>G	ENST00000371113.4	+	3	320	c.155T>G	c.(154-156)gTt>gGt	p.V52G	OCRL_ENST00000486673.1_3'UTR|OCRL_ENST00000357121.5_Missense_Mutation_p.V52G	NM_000276.3	NP_000267.2	Q01968	OCRL_HUMAN	oculocerebrorenal syndrome of Lowe	52	PH.				cilium assembly (GO:0042384)|in utero embryonic development (GO:0001701)|inositol phosphate metabolic process (GO:0043647)|lipid metabolic process (GO:0006629)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phospholipid metabolic process (GO:0006644)|positive regulation of Rac GTPase activity (GO:0032855)|regulation of Rac GTPase activity (GO:0032314)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|small molecule metabolic process (GO:0044281)	clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|early endosome (GO:0005769)|extracellular vesicular exosome (GO:0070062)|Golgi stack (GO:0005795)|Golgi-associated vesicle (GO:0005798)|nucleus (GO:0005634)|photoreceptor outer segment (GO:0001750)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)	inositol phosphate phosphatase activity (GO:0052745)|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity (GO:0004439)|Rac GTPase activator activity (GO:0030675)|Rac GTPase binding (GO:0048365)			breast(1)|endometrium(3)|kidney(4)|large_intestine(11)|lung(24)|ovary(2)|upper_aerodigestive_tract(3)	48						GAACAGCATGTTCAAGATATC	0.348																																																0													178	153	162					X																	128678970		2203	4300	6503	SO:0001583	missense	4952			U57627	CCDS35393.1, CCDS35394.1	Xq25	2014-06-18			ENSG00000122126	ENSG00000122126			8108	protein-coding gene	gene with protein product		300535					Standard	NM_001587		Approved	OCRL1	uc004euq.3	Q01968	OTTHUMG00000022706	ENST00000371113.4:c.155T>G	X.37:g.128678970T>G	ENSP00000360154:p.Val52Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKI1|A8KAP2|B7ZLX2|O60800|Q15684|Q15774|Q4VY09|Q4VY10|Q5JQF1|Q5JQF2|Q9UJG5|Q9UMA5	Missense_Mutation	SNP	ENST00000371113.4	37	CCDS35393.1	.	.	.	.	.	.	.	.	.	.	T	12.47	1.946658	0.34377	.	.	ENSG00000122126	ENST00000371113;ENST00000357121	D;D	0.94376	-3.41;-3.41	5.36	3.03	0.35002	.	0.751295	0.12380	N	0.473987	D	0.84938	0.5583	N	0.14661	0.345	0.47341	D	0.999398	B;B	0.19200	0.034;0.02	B;B	0.19946	0.027;0.019	T	0.80174	-0.1492	10	0.42905	T	0.14	.	5.7638	0.18215	0.0:0.1888:0.0:0.8112	.	52;52	Q01968-2;Q01968	.;OCRL_HUMAN	G	52	ENSP00000360154:V52G;ENSP00000349635:V52G	ENSP00000349635:V52G	V	+	2	0	OCRL	128506651	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	0.736000	0.26130	1.780000	0.52325	0.417000	0.27973	GTT		0.348	OCRL-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058917.1	NM_000276		G	128678970	T	G	128678970	3	3	601	1	0	0	0	0	1	0	0	0	10830	1725	60	5	165	5	OCRL	23	128678970	Missense_Mutation	SNP	T	TCGA-GL-A4EM-01A-11D-A25F-10	5488900	128678970	26591590	97	36140										
GRIK3	2899	broad.mit.edu	37	chr1	37271815	37271815	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tggtggactccatgagcagcGcgtagtcggccgtcagggcc	16	12	1	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr1:37271815G>A	ENST00000373091.3	-	14	2220	c.2204C>T	c.(2203-2205)gCg>gTg	p.A735V	GRIK3_ENST00000373093.4_Missense_Mutation_p.A735V	NM_000831.3	NP_000822.2	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	735					adenylate cyclase-inhibiting G-protein coupled glutamate receptor signaling pathway (GO:0007196)|G-protein coupled glutamate receptor signaling pathway (GO:0007216)|glutamate receptor signaling pathway (GO:0007215)|ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|negative regulation of synaptic transmission, glutamatergic (GO:0051967)|regulation of membrane potential (GO:0042391)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)	axon (GO:0030424)|cell junction (GO:0030054)|dendrite (GO:0030425)|dendrite cytoplasm (GO:0032839)|integral component of plasma membrane (GO:0005887)|kainate selective glutamate receptor complex (GO:0032983)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|presynaptic membrane (GO:0042734)|terminal bouton (GO:0043195)	adenylate cyclase inhibiting G-protein coupled glutamate receptor activity (GO:0001640)|extracellular-glutamate-gated ion channel activity (GO:0005234)|glutamate receptor activity (GO:0008066)|ionotropic glutamate receptor activity (GO:0004970)|kainate selective glutamate receptor activity (GO:0015277)			breast(4)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(27)|lung(35)|ovary(5)|prostate(3)|skin(5)|stomach(1)|urinary_tract(1)	89		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)				CATGAGCAGCGCGTAGTCGGC	0.612																																																0													170	131	144					1																	37271815		2203	4300	6503	SO:0001583	missense	2899			U16127	CCDS416.1	1p34.3	2012-08-29			ENSG00000163873	ENSG00000163873		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4581	protein-coding gene	gene with protein product		138243				8128318	Standard	NM_000831		Approved	GluK3, GLUR7	uc001caz.2	Q13003	OTTHUMG00000004189	ENST00000373091.3:c.2204C>T	1.37:g.37271815G>A	ENSP00000362183:p.Ala735Val	Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1Z8|B1AMS6|Q13004|Q16136	Missense_Mutation	SNP	ENST00000373091.3	37	CCDS416.1	.	.	.	.	.	.	.	.	.	.	G	32	5.189769	0.94923	.	.	ENSG00000163873	ENST00000373091;ENST00000373093	T;T	0.18810	2.19;2.19	5.48	5.48	0.80851	Ionotropic glutamate receptor (2);	0.000000	0.85682	D	0.000000	T	0.49029	0.1533	M	0.72894	2.215	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.48692	-0.9013	10	0.72032	D	0.01	.	19.3336	0.94306	0.0:0.0:1.0:0.0	.	735;735	A9Z1Z8;Q13003	.;GRIK3_HUMAN	V	735	ENSP00000362183:A735V;ENSP00000362185:A735V	ENSP00000362183:A735V	A	-	2	0	GRIK3	37044402	1.000000	0.71417	0.953000	0.39169	0.785000	0.44390	9.790000	0.99075	2.566000	0.86566	0.549000	0.68633	GCG		0.612	GRIK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012053.1	NM_000831		A	37271815	G	A	37271815	3	1	602	1	0	0	0	0	1	0	0	0	6782	1087	38	1	567	1	GRIK3	1	37271815	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10		37271815	211978806	1	36141										
TTC4	7268	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	55183223	55183223	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tttaaagaaaaagactacaaGaaagctgtaatttcatacac	5	6	1	3			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr1:55183223G>C	ENST00000371281.3	+	3	375	c.288G>C	c.(286-288)aaG>aaC	p.K96N	MROH7-TTC4_ENST00000414150.2_Missense_Mutation_p.R1332T|TTC4_ENST00000371284.5_3'UTR	NM_004623.4	NP_004614.3	O95801	TTC4_HUMAN	tetratricopeptide repeat domain 4	96										breast(2)|endometrium(3)|kidney(1)|lung(2)|stomach(1)	9						AAGACTACAAGAAAGCTGTAA	0.368																																																0													64	63	64					1																	55183223		2203	4300	6503	SO:0001583	missense	7268				CCDS596.1	1p32	2013-01-11			ENSG00000243725	ENSG00000243725		"Tetratricopeptide (TTC) repeat domain containing"	12394	protein-coding gene	gene with protein product		606753				9933562	Standard	NM_004623		Approved	MGC5097, FLJ41930	uc001cxx.4	O95801	OTTHUMG00000009914	ENST00000371281.3:c.288G>C	1.37:g.55183223G>C	ENSP00000360329:p.Lys96Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q53Y95|Q5TA96|Q9H3I2	Missense_Mutation	SNP	ENST00000371281.3	37	CCDS596.1	.	.	.	.	.	.	.	.	.	.	G	14.07	2.424330	0.43020	.	.	ENSG00000243725	ENST00000371281;ENST00000371284	T	0.61040	0.14	3.97	1.82	0.25136	Elongated TPR repeat-containing domain (1);Tetratricopeptide repeat-containing (1);	.	.	.	.	T	0.42877	0.1222	L	0.38838	1.175	0.46185	D	0.998919	B;P	0.34977	0.058;0.478	B;B	0.34824	0.056;0.19	T	0.19549	-1.0302	9	0.45353	T	0.12	-17.6511	6.6318	0.22861	0.303:0.0:0.697:0.0	.	96;107	O95801;Q5TA95	TTC4_HUMAN;.	N	96;107	ENSP00000360329:K96N	ENSP00000360329:K96N	K	+	3	2	TTC4	54955811	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	2.484000	0.45242	0.311000	0.23014	0.563000	0.77884	AAG		0.368	TTC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000027432.1	NM_004623		C	55183223	G	C	55183223	3	2	602	1	0	0	0	0	1	0	0	0	16722	933	33	4	298	4	TTC4	1	55183223	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	17911408	55183223	194067398	2	36142										
ALG6	29929	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	63868011	63868011	+	Frame_Shift_Del	DEL	A	A	-													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tcatagtctcctatgtgcatAtgtgtaagtttttctttctt							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr1:63868011delA	ENST00000371108.4	+	4	559	c.254delA	c.(253-255)tatfs	p.Y85fs	ALG6_ENST00000263440.4_Frame_Shift_Del_p.Y85fs	NM_013339.3	NP_037471.2	Q9Y672	ALG6_HUMAN	ALG6, alpha-1,3-glucosyltransferase	85					cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation (GO:0006487)|protein N-linked glycosylation via asparagine (GO:0018279)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	glucosyltransferase activity (GO:0046527)			endometrium(1)|large_intestine(4)|lung(5)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	13						CTATGTGCATATGTGTAAGTT	0.353																																																0													118	114	116					1																	63868011		2202	4300	6502	SO:0001589	frameshift_variant	29929			AF063604	CCDS30735.1	1p31.3	2013-03-01	2013-03-01		ENSG00000088035	ENSG00000088035	2.4.1.267		23157	protein-coding gene	gene with protein product	"dolichyl-P-Glc:Man(9)GlcNAc(2)-PP-dolichol alpha- 1->3-glucosyltransferase"	604566	"asparagine-linked glycosylation 6 homolog (yeast, alpha-1,3-glucosyltransferase)", "asparagine-linked glycosylation 6, alpha-1,3-glucosyltransferase homolog (S. cerevisiae)"			10359825, 11875054	Standard	NM_013339		Approved		uc021oof.1	Q9Y672	OTTHUMG00000009140	ENST00000371108.4:c.254delA	1.37:g.63868011delA	ENSP00000360149:p.Tyr85fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KMU2|Q5SXR9|Q9H3I0	Frame_Shift_Del	DEL	ENST00000371108.4	37	CCDS30735.1																																																																																				0.353	ALG6-001	KNOWN	non_canonical_conserved|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000025330.2	NM_013339		-	63868011	A	-	63868011	7	5	602	1	0	1	0	1	0	0	0	0	522	449	16	0	264	0	ALG6	1	63868011	Frame_Shift_Del	DEL	A	TCGA-GL-A59R-01A-11D-A26P-10	8684788	63868011	185382610	3	36143										
CHD1L	9557	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	146747123	146747123	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gccagggctcatcgcattggCcaaaacaagtaagtgatttt	10	9	1	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr1:146747123C>A	ENST00000369258.4	+	13	1397	c.1377C>A	c.(1375-1377)ggC>ggA	p.G459G	CHD1L_ENST00000467213.1_3'UTR|CHD1L_ENST00000369259.3_Silent_p.G255G|CHD1L_ENST00000431239.1_Silent_p.G365G|CHD1L_ENST00000361293.5_Silent_p.G178G	NM_001256336.1|NM_004284.4|NM_024568.2	NP_001243265.1|NP_004275.4|NP_078844.2	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein 1-like	459	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				ATP catabolic process (GO:0006200)|cellular response to DNA damage stimulus (GO:0006974)|chromatin remodeling (GO:0006338)|DNA duplex unwinding (GO:0032508)|DNA repair (GO:0006281)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|ATPase activity (GO:0016887)|DNA binding (GO:0003677)|nucleotide binding (GO:0000166)			breast(2)|endometrium(4)|kidney(1)|large_intestine(4)|lung(15)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	33	all_hematologic(923;0.0487)					ATCGCATTGGCCAAAACAAGT	0.443																																																0													122	119	120					1																	146747123		2203	4300	6503	SO:0001819	synonymous_variant	9557			AF054177	CCDS927.1, CCDS58021.1, CCDS58022.1, CCDS72882.1	1q21.1	2008-02-05			ENSG00000131778	ENSG00000131778			1916	protein-coding gene	gene with protein product		613039				9653160	Standard	NM_004284		Approved	ALC1	uc001epm.5	Q86WJ1	OTTHUMG00000150271	ENST00000369258.4:c.1377C>A	1.37:g.146747123C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A5YM64|B4DDE1|B5MDZ7|Q53EZ3|Q5VXX7|Q6DD94|Q6PK83|Q86XH3|Q96HF7|Q96SP3|Q9BVJ1|Q9NVV8	Silent	SNP	ENST00000369258.4	37	CCDS927.1																																																																																				0.443	CHD1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040377.1	NM_004284		A	146747123	C	A	146747123	2	1	602	1	0	0	0	0	0	0	0	1	3326	726	26	4		4	CHD1L	1	146747123	Silent	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	82879112	146747123	102503498	4	36144										
ASH1L	55870	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	155313421	155313421	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ttcttccaaagcttctcaatGcgaaagatgtcaagtttatc	6	9	3	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr1:155313421G>A	ENST00000368346.3	-	23	8748	c.8109C>T	c.(8107-8109)cgC>cgT	p.R2703R	MIR555_ENST00000384987.1_RNA|ASH1L_ENST00000392403.3_Silent_p.R2698R			Q9NR48	ASH1L_HUMAN	ash1 (absent, small, or homeotic)-like (Drosophila)	2703	BAH. {ECO:0000255|PROSITE- ProRule:PRU00370}.				cell-cell signaling (GO:0007267)|DNA packaging (GO:0006323)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|tight junction (GO:0005923)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(4)|central_nervous_system(1)|endometrium(12)|kidney(13)|large_intestine(28)|lung(39)|ovary(2)|pancreas(1)|prostate(6)|skin(11)|upper_aerodigestive_tract(2)|urinary_tract(4)	124	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)			GCTTCTCAATGCGAAAGATGT	0.493																																																0													114	109	110					1																	155313421		2203	4300	6503	SO:0001819	synonymous_variant	55870			AB037841	CCDS1113.2	1q22	2013-01-28			ENSG00000116539	ENSG00000116539		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	19088	protein-coding gene	gene with protein product		607999				10860993, 16545939	Standard	NM_018489		Approved	huASH1, ASH1, ASH1L1, KMT2H	uc001fkt.3	Q9NR48	OTTHUMG00000014011	ENST00000368346.3:c.8109C>T	1.37:g.155313421G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q59GP1|Q5T714|Q5T715|Q9P2C7	Silent	SNP	ENST00000368346.3	37																																																																																					0.493	ASH1L-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000039400.1	NM_018489		A	155313421	G	A	155313421	2	1	602	1	0	0	0	0	0	0	0	1	1041	1306	46	2		2	ASH1L	1	155313421	Silent	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	8566298	155313421	93937200	5	36145										
LMNA	4000	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	156107474	156107474	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	atgcgcaagctggtgcgctcAgtgactgtggttgaggacga	16	8	1	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr1:156107474A>C	ENST00000368300.4	+	10	1850	c.1638A>C	c.(1636-1638)tcA>tcC	p.S546S	LMNA_ENST00000361308.4_Silent_p.S546S|LMNA_ENST00000496738.1_3'UTR|LMNA_ENST00000473598.2_Silent_p.S447S|LMNA_ENST00000347559.2_Intron|LMNA_ENST00000368299.3_Silent_p.S546S|LMNA_ENST00000392353.3_Silent_p.S465S|LMNA_ENST00000368297.1_Silent_p.S465S|LMNA_ENST00000368301.2_Silent_p.S546S|LMNA_ENST00000448611.2_Silent_p.S434S	NM_170707.3	NP_733821.1	P02545	LMNA_HUMAN	lamin A/C	546	Tail.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|apoptotic process (GO:0006915)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular protein metabolic process (GO:0044267)|cellular response to hypoxia (GO:0071456)|endoplasmic reticulum unfolded protein response (GO:0030968)|establishment or maintenance of microtubule cytoskeleton polarity (GO:0030951)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mitotic nuclear envelope reassembly (GO:0007084)|muscle organ development (GO:0007517)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of release of cytochrome c from mitochondria (GO:0090201)|positive regulation of cell aging (GO:0090343)|protein localization to nucleus (GO:0034504)|regulation of cell migration (GO:0030334)|regulation of protein localization to nucleus (GO:1900180)|sterol regulatory element binding protein import into nucleus (GO:0035105)|ventricular cardiac muscle cell development (GO:0055015)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intermediate filament (GO:0005882)|lamin filament (GO:0005638)|nuclear envelope (GO:0005635)|nuclear lamina (GO:0005652)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	structural molecule activity (GO:0005198)			NS(1)|endometrium(1)|kidney(1)|lung(3)|ovary(4)	10	Hepatocellular(266;0.158)					TGGTGCGCTCAGTGACTGTGG	0.622									Werner syndrome;Hutchinson-Gilford Progeria Syndrome																																							0													64	45	51					1																	156107474		2174	4254	6428	SO:0001819	synonymous_variant	4000	Familial Cancer Database	WS, Adult Progeria;HGPS, Progeria	BC014507	CCDS1129.1, CCDS1131.1, CCDS58038.1, CCDS72941.1, CCDS72942.1	1q22	2014-09-17			ENSG00000160789	ENSG00000160789		"Intermediate filaments type V, lamins"	6636	protein-coding gene	gene with protein product		150330	"cardiomyopathy, dilated 1A (autosomal dominant)", "limb girdle muscular dystrophy 1B (autosomal dominant)", "progeria 1 (Hutchinson-Gilford type)", "lamin A/C-like 1"	LMN1, CMD1A, LGMD1B, PRO1, LMNL1		8511676, 8838815, 12702809	Standard	NM_005572		Approved	HGPS	uc001fni.3	P02545	OTTHUMG00000013961	ENST00000368300.4:c.1638A>C	1.37:g.156107474A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DI32|D3DVB0|D6RAQ3|E7EUI9|P02546|Q5I6Y4|Q5I6Y6|Q5TCJ2|Q5TCJ3|Q6UYC3|Q969I8|Q96JA2	Silent	SNP	ENST00000368300.4	37	CCDS1129.1																																																																																				0.622	LMNA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039200.2	NM_170707		C	156107474	A	C	156107474	2	2	602	1	0	0	0	0	0	0	0	1	8855	175	7	5		5	LMNA	1	156107474	Silent	SNP	A	TCGA-GL-A59R-01A-11D-A26P-10	794053	156107474	93143147	6	36146										
C1orf125	126859	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	179339155	179339155	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	atgtctggcatcaccctgttCgaaggaataaattcaaatac	7	9	3	0	rs577148644		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr1:179339155C>G	ENST00000367618.3	+	4	703	c.316C>G	c.(316-318)Cga>Gga	p.R106G	AXDND1_ENST00000461179.2_3'UTR|AXDND1_ENST00000457238.2_Missense_Mutation_p.R106G	NM_144696.4	NP_653297.3	Q5T1B0	AXDN1_HUMAN	axonemal dynein light chain domain containing 1	106										NS(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(27)|ovary(1)|pancreas(1)|prostate(1)|skin(8)|stomach(2)|upper_aerodigestive_tract(2)	59						TCACCCTGTTCGAAGGAATAA	0.438																																																0													80	72	75					1																	179339155		2203	4300	6503	SO:0001583	missense	126859			BX647935	CCDS30948.1	1q25.2	2011-02-18	2011-02-18	2011-02-18	ENSG00000162779	ENSG00000162779			26564	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 125"	C1orf125		14702039	Standard	NM_144696		Approved	FLJ32940	uc001gmo.3	Q5T1B0	OTTHUMG00000035266	ENST00000367618.3:c.316C>G	1.37:g.179339155C>G	ENSP00000356590:p.Arg106Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q6AWB2|Q96LJ3|Q96M01	Missense_Mutation	SNP	ENST00000367618.3	37	CCDS30948.1	.	.	.	.	.	.	.	.	.	.	C	11.71	1.720207	0.30503	.	.	ENSG00000162779	ENST00000509175;ENST00000367618;ENST00000360322;ENST00000507383;ENST00000457238;ENST00000508285;ENST00000511889;ENST00000434088	T;T;T	0.52057	1.9;0.68;2.02	5.39	3.47	0.39725	.	0.176693	0.38605	N	0.001628	T	0.45256	0.1333	L	0.41710	1.295	0.19775	N	0.99996	D;D	0.53619	0.961;0.961	P;P	0.51453	0.67;0.67	T	0.34279	-0.9835	10	0.87932	D	0	0.9492	6.752	0.23491	0.1744:0.7348:0.0:0.0909	.	64;106	E9PCJ4;Q5T1B0	.;AXDN1_HUMAN	G	64;106;64;64;106;106;64;40	ENSP00000356590:R106G;ENSP00000416712:R106G;ENSP00000391716:R40G	ENSP00000353471:R64G	R	+	1	2	AXDND1	177605778	0.879000	0.30193	0.432000	0.26747	0.923000	0.55619	1.441000	0.35035	0.605000	0.29947	0.453000	0.30009	CGA		0.438	AXDND1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085312.1	NM_144696		G	179339155	C	G	179339155	3	3	602	1	0	0	0	0	1	0	0	0	1995	876	31	4	326	4	C1orf125	1	179339155	Missense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	23231681	179339155	69911466	7	36147										
NFASC	23114	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	204948503	204948504	+	Missense_Mutation	DNP	GT	GT	AG													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	cactcagactacgtcgtccaGtttgaagaagaccagttcca							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr1:204948503_204948504GT>AG	ENST00000401399.1	+	18	2191_2192	c.1992_1993GT>AG	c.(1990-1995)caGTtt>caAGtt	p.F665V	NFASC_ENST00000360049.4_Missense_Mutation_p.F661V|NFASC_ENST00000339876.6_Missense_Mutation_p.F665V|NFASC_ENST00000367169.4_Missense_Mutation_p.F665V|NFASC_ENST00000539706.1_Missense_Mutation_p.F661V|NFASC_ENST00000338586.6_Missense_Mutation_p.F665V|NFASC_ENST00000404907.1_Missense_Mutation_p.F661V|NFASC_ENST00000338515.6_Missense_Mutation_p.F665V|NFASC_ENST00000404076.1_Missense_Mutation_p.F644V|NFASC_ENST00000513543.1_Missense_Mutation_p.F661V|NFASC_ENST00000367172.4_Missense_Mutation_p.F665V|NFASC_ENST00000367171.4_Missense_Mutation_p.F650V|NFASC_ENST00000367170.4_Missense_Mutation_p.F665V			O94856	NFASC_HUMAN	neurofascin	665	Fibronectin type-III 1. {ECO:0000255|PROSITE-ProRule:PRU00316}.				axon guidance (GO:0007411)|clustering of voltage-gated sodium channels (GO:0045162)|heterotypic cell-cell adhesion (GO:0034113)|myelination (GO:0042552)|paranodal junction assembly (GO:0030913)|peripheral nervous system development (GO:0007422)|protein localization to juxtaparanode region of axon (GO:0071205)|protein localization to paranode region of axon (GO:0002175)|synapse organization (GO:0050808)|transmission of nerve impulse (GO:0019226)	axon initial segment (GO:0043194)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|intracellular (GO:0005622)|node of Ranvier (GO:0033268)|paranodal junction (GO:0033010)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)				NS(1)|breast(4)|central_nervous_system(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(22)|liver(1)|lung(24)|ovary(3)|pancreas(1)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)	81	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			ACGTCGTCCAGTTTGAAGAAGA	0.52																																																0																																										SO:0001583	missense	23114			AK027553	CCDS30982.1, CCDS53460.1, CCDS53461.1, CCDS53462.1	1q32.1	2013-02-11	2010-06-24		ENSG00000163531	ENSG00000163531		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	29866	protein-coding gene	gene with protein product		609145	"neurofascin homolog (chicken)"			1377696, 8672144	Standard	NM_015090		Approved	NRCAML, KIAA0756, FLJ46866, NF	uc001hbj.3	O94856	OTTHUMG00000151697	Exception_encountered	1.37:g.204948503_204948504delinsAG	ENSP00000385637:p.Phe665Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNN8|B3KQZ1|B5MDP6|B5MDR6|B7ZMD8|Q149P5|Q5T2F0|Q5T2F1|Q5T2F2|Q5T2F3|Q5T2F4|Q5T2F5|Q5T2F6|Q5T2F7|Q5T2F9|Q5T2G0|Q5W9F8|Q68DH3|Q6ZQV6|Q7Z3K1|Q96HT1|Q96K50	Missense_Mutation	DNP	ENST00000401399.1	37	CCDS53460.1																																																																																				0.52	NFASC-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000131237.1	NM_001005388		AG	204948504	GT	AG	204948503	3	1	602	1	0	0	0	0	1	0	0	0	10366	1020	36	2	2142	2	NFASC	1	204948503	Missense_Mutation	DNP	GT	TCGA-GL-A59R-01A-11D-A26P-10	25609348	204948503	44302118	8	36148										
CAPN13	92291	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	30987162	30987162	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	atagtgcagatcggaataggAtccgagcagcctgggaggga	16	7	0	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr2:30987162A>G	ENST00000295055.8	-	6	711	c.535T>C	c.(535-537)Tcc>Ccc	p.S179P	CAPN13_ENST00000534090.2_Missense_Mutation_p.S179P|CAPN13_ENST00000465960.2_5'UTR	NM_144575.2	NP_653176.2	Q6MZZ7	CAN13_HUMAN	calpain 13	179	Calpain catalytic. {ECO:0000255|PROSITE- ProRule:PRU00239}.				proteolysis (GO:0006508)	cytoplasm (GO:0005737)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(5)|large_intestine(5)|lung(11)|ovary(1)|prostate(1)|stomach(2)|urinary_tract(1)	30	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.155)					TCGGAATAGGATCCGAGCAGC	0.577																																																0													50	51	51					2																	30987162		2104	4217	6321	SO:0001583	missense	92291				CCDS46252.1	2p22-p21	2008-02-05			ENSG00000162949	ENSG00000162949			16663	protein-coding gene	gene with protein product		610228				11675017	Standard	NM_144575		Approved	FLJ23523	uc021vfm.1	Q6MZZ7	OTTHUMG00000152053	ENST00000295055.8:c.535T>C	2.37:g.30987162A>G	ENSP00000295055:p.Ser179Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RF0|Q580X1|Q8TE80	Missense_Mutation	SNP	ENST00000295055.8	37	CCDS46252.1	.	.	.	.	.	.	.	.	.	.	A	18.41	3.618329	0.66787	.	.	ENSG00000162949	ENST00000295055;ENST00000534090	D;D	0.89552	-2.53;-2.53	5.22	5.22	0.72569	Peptidase C2, calpain, catalytic domain (3);	0.000000	0.85682	D	0.000000	D	0.96439	0.8838	H	0.97265	3.97	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	D	0.97655	1.0157	10	0.72032	D	0.01	.	14.0703	0.64856	1.0:0.0:0.0:0.0	.	179	Q6MZZ7	CAN13_HUMAN	P	179	ENSP00000295055:S179P;ENSP00000431298:S179P	ENSP00000295055:S179P	S	-	1	0	CAPN13	30840666	1.000000	0.71417	0.951000	0.38953	0.450000	0.32258	4.956000	0.63645	1.970000	0.57323	0.379000	0.24179	TCC		0.577	CAPN13-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000325101.2	NM_144575		G	30987162	A	G	30987162	3	3	602	1	0	0	0	0	1	0	0	0	2628	333	12	3	1542	3	CAPN13	2	30987162	Missense_Mutation	SNP	A	TCGA-GL-A59R-01A-11D-A26P-10		30987162	212212211	9	36149										
MAP4K3	8491	ucsc.edu;bcgsc.ca	37	chr2	39553361	39553361	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gtgattcccactgcccagagAtcacagagttgattgtaacc	9	11	1	4			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr2:39553361A>T	ENST00000263881.3	-	9	912	c.588T>A	c.(586-588)gaT>gaA	p.D196E	MAP4K3_ENST00000341681.5_Missense_Mutation_p.D196E|RP11-449G16.1_ENST00000609671.1_RNA|MAP4K3_ENST00000536018.1_5'Flank|MAP4K3_ENST00000437545.1_Missense_Mutation_p.D133E	NM_003618.3	NP_003609.2	Q8IVH8	M4K3_HUMAN	mitogen-activated protein kinase kinase kinase kinase 3	196	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				intracellular signal transduction (GO:0035556)|JNK cascade (GO:0007254)|protein phosphorylation (GO:0006468)|response to tumor necrosis factor (GO:0034612)|response to UV (GO:0009411)		ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|small GTPase regulator activity (GO:0005083)			NS(1)|endometrium(4)|kidney(2)|large_intestine(8)|lung(17)|ovary(4)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	44		all_hematologic(82;0.211)				CTGCCCAGAGATCACAGAGTT	0.423																																																0													121	123	122					2																	39553361		2203	4300	6503	SO:0001583	missense	8491			AF000145	CCDS1803.1, CCDS58707.1	2p22.3	2011-06-09			ENSG00000011566	ENSG00000011566		"Mitogen-activated protein kinase cascade / Kinase kinase kinase kinases"	6865	protein-coding gene	gene with protein product		604921		RAB8IPL1		9275185	Standard	NM_003618		Approved	GLK, MAPKKKK3	uc002rro.4	Q8IVH8	OTTHUMG00000102127	ENST00000263881.3:c.588T>A	2.37:g.39553361A>T	ENSP00000263881:p.Asp196Glu	Somatic		WXS	Illumina HiSeq		Q6IQ39|Q8IVH7|Q9UDM5|Q9Y6R5	Missense_Mutation	SNP	ENST00000263881.3	37	CCDS1803.1	.	.	.	.	.	.	.	.	.	.	A	28.4	4.917943	0.92249	.	.	ENSG00000011566	ENST00000263881;ENST00000437545;ENST00000341681	T;T;T	0.75367	-0.93;0.71;-0.93	5.68	-6.03	0.02185	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	D	0.90511	0.7027	H	0.99312	4.51	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.97110	1.0;0.999	D	0.91678	0.5356	9	.	.	.	.	18.1275	0.89590	0.3452:0.0:0.6548:0.0	.	196;196	Q8IVH8-3;Q8IVH8	.;M4K3_HUMAN	E	196;133;196	ENSP00000263881:D196E;ENSP00000416958:D133E;ENSP00000345434:D196E	.	D	-	3	2	MAP4K3	39406865	0.999000	0.42202	0.906000	0.35671	0.966000	0.64601	0.619000	0.24388	-1.116000	0.02969	0.477000	0.44152	GAT		0.423	MAP4K3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219966.2	NM_003618		T	39553361	A	T	39553361	3	4	602	1	0	0	0	0	1	0	0	0	9268	330	12	5	2200	5	MAP4K3	2	39553361	Missense_Mutation	SNP	A	TCGA-GL-A59R-01A-11D-A26P-10	8566199	39553361	203646012	10	36150										
XPO1	7514	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	61705989	61705989	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	cttctggaatctcatgtggaTtaaagatgccagggacagac	11	8	2	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr2:61705989T>C	ENST00000401558.2	-	25	3909	c.3182A>G	c.(3181-3183)aAt>aGt	p.N1061S	XPO1_ENST00000404992.2_Missense_Mutation_p.N1061S|XPO1_ENST00000406957.1_Missense_Mutation_p.N1061S|RP11-355B11.2_ENST00000603652.1_RNA|RP11-355B11.2_ENST00000603028.1_RNA|RP11-355B11.2_ENST00000578974.2_RNA|RP11-355B11.2_ENST00000603199.1_RNA	NM_003400.3	NP_003391.1	O14980	XPO1_HUMAN	exportin 1	1061					gene expression (GO:0010467)|intracellular transport of virus (GO:0075733)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|mRNA transport (GO:0051028)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|protein export from nucleus (GO:0006611)|protein localization to nucleus (GO:0034504)|regulation of centrosome duplication (GO:0010824)|regulation of protein catabolic process (GO:0042176)|regulation of protein export from nucleus (GO:0046825)|response to drug (GO:0042493)|ribosomal large subunit export from nucleus (GO:0000055)|ribosomal small subunit export from nucleus (GO:0000056)|RNA metabolic process (GO:0016070)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral life cycle (GO:0019058)|viral process (GO:0016032)	annulate lamellae (GO:0005642)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|kinetochore (GO:0000776)|membrane (GO:0016020)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleocytoplasmic transporter activity (GO:0005487)|protein transporter activity (GO:0008565)|RNA binding (GO:0003723)|transporter activity (GO:0005215)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|kidney(5)|large_intestine(5)|lung(5)|ovary(1)|prostate(4)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	39			LUSC - Lung squamous cell carcinoma(7;5.71e-05)|Epithelial(17;0.0662)|all cancers(80;0.226)			CTCATGTGGATTAAAGATGCC	0.393			Mis		CLL																																	-'	Dom	yes		2	2p15	7514	"exportin 1 (CRM1 homolog, yeast)"		L	0													137	137	137					2																	61705989		2203	4300	6503	SO:0001583	missense	7514			Y08614	CCDS33205.1	2p15	2014-02-19	2014-02-19		ENSG00000082898	ENSG00000082898		"Exportins"	12825	protein-coding gene	gene with protein product	"chromosome region maintenance 1 homolog (yeast)"	602559	"exportin 1 (CRM1, yeast, homolog)", "exportin 1 (CRM1 homolog, yeast)"			9205132, 9368044	Standard	XM_005264544		Approved	CRM1, emb	uc002sbj.3	O14980	OTTHUMG00000152316	ENST00000401558.2:c.3182A>G	2.37:g.61705989T>C	ENSP00000384863:p.Asn1061Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NL14|A8K1K5|D6W5E2|Q63HP8|Q68CP3|Q99433	Missense_Mutation	SNP	ENST00000401558.2	37	CCDS33205.1	.	.	.	.	.	.	.	.	.	.	T	21.2	4.120462	0.77323	.	.	ENSG00000082898	ENST00000401558;ENST00000404992;ENST00000406957	.	.	.	5.72	5.72	0.89469	.	0.000000	0.85682	D	0.000000	T	0.78007	0.4216	M	0.79258	2.445	0.58432	D	0.999996	D;D	0.76494	0.994;0.999	P;D	0.69307	0.888;0.963	T	0.76534	-0.2924	9	0.28530	T	0.3	-21.4772	15.9952	0.80234	0.0:0.0:0.0:1.0	.	708;1061	B3KWD0;O14980	.;XPO1_HUMAN	S	1061	.	ENSP00000384863:N1061S	N	-	2	0	XPO1	61559493	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	8.005000	0.88553	2.172000	0.68678	0.533000	0.62120	AAT		0.393	XPO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000325872.3	NM_003400		C	61705989	T	C	61705989	3	2	602	1	0	0	0	0	1	0	0	0	17457	1493	52	3	37	3	XPO1	2	61705989	Missense_Mutation	SNP	T	TCGA-GL-A59R-01A-11D-A26P-10	22152628	61705989	181493384	11	36151										
FAM161A	84140	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	62067237	62067237	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ttctccgttcttctttttgcTtgactaaatcatggtaaagg	7	8	4	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr2:62067237T>C	ENST00000405894.3	-	3	1003	c.902A>G	c.(901-903)aAg>aGg	p.K301R	FAM161A_ENST00000404929.1_Missense_Mutation_p.K301R	NM_032180.2	NP_115556.2	Q3B820	F161A_HUMAN	family with sequence similarity 161, member A	301					cilium assembly (GO:0042384)|response to stimulus (GO:0050896)|visual perception (GO:0007601)	centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|photoreceptor connecting cilium (GO:0032391)				breast(1)|endometrium(5)|large_intestine(8)|lung(4)|ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	25						TTCTTTTTGCTTGACTAAATC	0.418																																																0													166	149	154					2																	62067237		1847	4095	5942	SO:0001583	missense	84140				CCDS42687.2, CCDS56120.1	2p15	2011-03-15			ENSG00000170264	ENSG00000170264			25808	protein-coding gene	gene with protein product		613596	"retinitis pigmentosa 28 (autosomal recessive)"	RP28		10507729, 20705278, 20705279	Standard	NM_032180		Approved	FLJ13305	uc002sbm.4	Q3B820	OTTHUMG00000152165	ENST00000405894.3:c.902A>G	2.37:g.62067237T>C	ENSP00000385893:p.Lys301Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DJV7|Q9H8R2	Missense_Mutation	SNP	ENST00000405894.3	37	CCDS42687.2	.	.	.	.	.	.	.	.	.	.	T	13.72	2.322375	0.41096	.	.	ENSG00000170264	ENST00000404929;ENST00000405894	T;T	0.22336	1.96;1.96	5.41	4.26	0.50523	.	0.176973	0.44902	D	0.000408	T	0.22205	0.0535	L	0.52573	1.65	0.29380	N	0.863369	B;B	0.30563	0.285;0.074	B;B	0.34931	0.192;0.064	T	0.10314	-1.0635	10	0.44086	T	0.13	-18.3941	10.8689	0.46872	0.0:0.0746:0.0:0.9254	.	301;301	Q3B820;Q3B820-3	F161A_HUMAN;.	R	301	ENSP00000385158:K301R;ENSP00000385893:K301R	ENSP00000385158:K301R	K	-	2	0	FAM161A	61920741	1.000000	0.71417	0.997000	0.53966	0.900000	0.52787	2.205000	0.42770	0.884000	0.36064	0.533000	0.62120	AAG		0.418	FAM161A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000325537.2	NM_032180		C	62067237	T	C	62067237	3	2	602	1	0	0	0	0	1	0	0	0	5476	1609	56	3	1096	3	FAM161A	2	62067237	Missense_Mutation	SNP	T	TCGA-GL-A59R-01A-11D-A26P-10	361248	62067237	181132136	12	36152										
RTKN	6242	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	74656034	74656034	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	cttgcactgctgccagggtgAgtgtggtgtgagccaagagg	17	8	0	3			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr2:74656034A>G	ENST00000233330.6	-	7	958	c.641T>C	c.(640-642)cTc>cCc	p.L214P	RTKN_ENST00000305557.5_Missense_Mutation_p.L251P|RTKN_ENST00000272430.5_Missense_Mutation_p.L264P	NM_001015056.1	NP_001015056.1			rhotekin											endometrium(3)|large_intestine(5)|lung(5)|skin(2)|upper_aerodigestive_tract(1)	16						TGCCAGGGTGAGTGTGGTGTG	0.552																																																0													192	128	150					2																	74656034		2203	4300	6503	SO:0001583	missense	6242			AF049227	CCDS1941.1, CCDS33226.1, CCDS42699.1	2p13.1	2013-01-10			ENSG00000114993	ENSG00000114993		"Pleckstrin homology (PH) domain containing"	10466	protein-coding gene	gene with protein product		602288				9073523, 10940294	Standard	XM_005264478		Approved	B5	uc002sle.3	Q9BST9	OTTHUMG00000129955	ENST00000233330.6:c.641T>C	2.37:g.74656034A>G	ENSP00000233330:p.Leu214Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000233330.6	37	CCDS42699.1	.	.	.	.	.	.	.	.	.	.	A	24.6	4.545730	0.86022	.	.	ENSG00000114993	ENST00000305557;ENST00000272430;ENST00000233330	T;T;T	0.65178	-0.14;-0.14;-0.14	5.55	5.55	0.83447	.	0.000000	0.85682	D	0.000000	T	0.78291	0.4260	M	0.76170	2.325	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.999	T	0.81055	-0.1106	10	0.87932	D	0	.	13.6415	0.62253	1.0:0.0:0.0:0.0	.	264;251	Q9BST9;Q9BST9-2	RTKN_HUMAN;.	P	251;264;214	ENSP00000305298:L251P;ENSP00000272430:L264P;ENSP00000233330:L214P	ENSP00000233330:L214P	L	-	2	0	RTKN	74509542	1.000000	0.71417	0.991000	0.47740	0.971000	0.66376	8.673000	0.91186	2.128000	0.65567	0.459000	0.35465	CTC		0.552	RTKN-004	NOVEL	basic|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000328236.3	NM_001015055		G	74656034	A	G	74656034	3	3	602	1	0	0	0	0	1	0	0	0	13735	304	11	3	924	3	RTKN	2	74656034	Missense_Mutation	SNP	A	TCGA-GL-A59R-01A-11D-A26P-10	12588797	74656034	168543339	13	36153										
DNAH6	1768	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	84846836	84846836	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ttcttgtcaaatgatgaactTctggagattttggcccagac	9	8	3	4			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr2:84846836T>G	ENST00000237449.6	+	23	3608	c.3600T>G	c.(3598-3600)ctT>ctG	p.L1200L	DNAH6_ENST00000398278.2_Silent_p.L1200L|DNAH6_ENST00000389394.3_Silent_p.L1200L			Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy chain 6	1200	Stem. {ECO:0000250}.				cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(2)|breast(9)|central_nervous_system(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(3)|lung(14)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	57						ATGATGAACTTCTGGAGATTT	0.383																																																0													138	114	121					2																	84846836		692	1591	2283	SO:0001819	synonymous_variant	1768			U61736	CCDS46348.1	2p11.2	2011-05-24	2006-09-04		ENSG00000115423	ENSG00000115423		"Axonemal dyneins"	2951	protein-coding gene	gene with protein product		603336	"dynein, axonemal, heavy polypeptide 6", "dynein heavy chain-like 1"	DNHL1		8812413	Standard	NM_001370		Approved	Dnahc6, HL-2, FLJ37357	uc010fgb.3	Q9C0G6	OTTHUMG00000128957	ENST00000237449.6:c.3600T>G	2.37:g.84846836T>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJN9|B5MEE0|B7ZL99|O95493|Q53QZ1|Q53TE5|Q8N1W6|Q92861|Q96BL6|Q9H030|Q9H5E1	Silent	SNP	ENST00000237449.6	37	CCDS46348.1																																																																																				0.383	DNAH6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328537.2	NM_001370		G	84846836	T	G	84846836	2	3	602	1	0	0	0	0	0	0	0	1	4607	1770	62	5		5	DNAH6	2	84846836	Silent	SNP	T	TCGA-GL-A59R-01A-11D-A26P-10	10190802	84846836	158352537	14	36154										
DNAH6	1768	broad.mit.edu	37	chr2	84896615	84896615	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gcattccgtgttgtttactgGaataactggagtgggcaagg	14	6	0	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr2:84896615G>A	ENST00000237449.6	+	37	6295	c.6287G>A	c.(6286-6288)gGa>gAa	p.G2096E	DNAH6_ENST00000602588.1_Missense_Mutation_p.G117E|DNAH6_ENST00000398278.2_Missense_Mutation_p.G2096E|DNAH6_ENST00000389394.3_Missense_Mutation_p.G2096E			Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy chain 6	2096	AAA 3. {ECO:0000250}.				cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(2)|breast(9)|central_nervous_system(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(3)|lung(14)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	57						TTGTTTACTGGAATAACTGGA	0.428																																																0													101	87	91					2																	84896615		692	1591	2283	SO:0001583	missense	1768			U61736	CCDS46348.1	2p11.2	2011-05-24	2006-09-04		ENSG00000115423	ENSG00000115423		"Axonemal dyneins"	2951	protein-coding gene	gene with protein product		603336	"dynein, axonemal, heavy polypeptide 6", "dynein heavy chain-like 1"	DNHL1		8812413	Standard	NM_001370		Approved	Dnahc6, HL-2, FLJ37357	uc010fgb.3	Q9C0G6	OTTHUMG00000128957	ENST00000237449.6:c.6287G>A	2.37:g.84896615G>A	ENSP00000237449:p.Gly2096Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJN9|B5MEE0|B7ZL99|O95493|Q53QZ1|Q53TE5|Q8N1W6|Q92861|Q96BL6|Q9H030|Q9H5E1	Missense_Mutation	SNP	ENST00000237449.6	37	CCDS46348.1	.	.	.	.	.	.	.	.	.	.	G	22.7	4.321420	0.81580	.	.	ENSG00000115423	ENST00000389394;ENST00000398278;ENST00000237449	D;D;D	0.93604	-3.25;-3.25;-3.25	5.16	5.16	0.70880	ATPase, AAA+ type, core (1);	.	.	.	.	D	0.98485	0.9495	H	0.99609	4.655	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.99719	1.1009	9	0.87932	D	0	.	17.7668	0.88481	0.0:0.0:1.0:0.0	.	2096;2096	Q9C0G6;Q9C0G6-4	DYH6_HUMAN;.	E	2096	ENSP00000374045:G2096E;ENSP00000381326:G2096E;ENSP00000237449:G2096E	ENSP00000237449:G2096E	G	+	2	0	DNAH6	84750126	1.000000	0.71417	0.900000	0.35374	0.881000	0.50899	7.775000	0.85489	2.548000	0.85928	0.579000	0.79373	GGA		0.428	DNAH6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328537.2	NM_001370		A	84896615	G	A	84896615	3	1	602	1	0	0	0	0	1	0	0	0	4607	1174	41	2	6433	2	DNAH6	2	84896615	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	49779	84896615	158302758	15	36155										
NEB	4703	hgsc.bcm.edu;bcgsc.ca	37	chr2	152390040	152390040	+	Intron	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ccatgttgcagaaacatcttGgcactagatttatattttct	6	8	2	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr2:152390040G>T	ENST00000172853.10	-	115	16462				NEB_ENST00000603639.1_Silent_p.A7111A|NEB_ENST00000427231.2_Intron|NEB_ENST00000604864.1_Intron|NEB_ENST00000397345.3_Silent_p.A7111A|NEB_ENST00000409198.1_Intron			P20929	NEBU_HUMAN	nebulin						muscle filament sliding (GO:0030049)|muscle organ development (GO:0007517)|regulation of actin filament length (GO:0030832)|somatic muscle development (GO:0007525)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|Z disc (GO:0030018)	structural constituent of muscle (GO:0008307)			NS(5)|autonomic_ganglia(3)|breast(9)|central_nervous_system(5)|cervix(3)|endometrium(35)|kidney(16)|large_intestine(77)|liver(1)|lung(99)|ovary(9)|pancreas(3)|prostate(13)|skin(7)|stomach(8)|upper_aerodigestive_tract(6)|urinary_tract(2)	301				BRCA - Breast invasive adenocarcinoma(221;0.219)		GAAACATCTTGGCACTAGATT	0.413																																																0													182	146	157					2																	152390040		692	1591	2283	SO:0001627	intron_variant	4703			X83957	CCDS46424.1, CCDS54407.1, CCDS54408.1, CCDS74588.1	2q22	2014-09-17			ENSG00000183091	ENSG00000183091			7720	protein-coding gene	gene with protein product	"nemaline myopathy type 2"	161650		NEM2		10051637, 9359044	Standard	NM_001164507		Approved	NEB177D	uc010fnx.3	P20929	OTTHUMG00000153784	ENST00000172853.10:c.16314+688C>A	2.37:g.152390040G>T		Somatic		WXS	Illumina HiSeq	Phase_I	F8WCL5|F8WCP0|Q15346|Q53QQ2|Q53TG8	Silent	SNP	ENST00000172853.10	37																																																																																					0.413	NEB-201	KNOWN	basic	protein_coding	protein_coding		NM_004543		T	152390040	G	T	152390040	1	4	602	0	1	0	0	0	0	0	0	0	10309	1335	47	4		4	NEB	2	152390040	Intron	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	67493425	152390040	90809333	16	36156										
NEB	4703	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	152536245	152536245	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ctggacttacgtcactcgccGcctgcctggcagctttggca	11	15	1	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr2:152536245G>C	ENST00000172853.10	-	32	3392	c.3245C>G	c.(3244-3246)gCg>gGg	p.A1082G	NEB_ENST00000603639.1_Missense_Mutation_p.A1082G|NEB_ENST00000427231.2_Missense_Mutation_p.A1082G|NEB_ENST00000604864.1_Missense_Mutation_p.A1082G|NEB_ENST00000397345.3_Missense_Mutation_p.A1082G|NEB_ENST00000409198.1_Missense_Mutation_p.A1082G			P20929	NEBU_HUMAN	nebulin	1082					muscle filament sliding (GO:0030049)|muscle organ development (GO:0007517)|regulation of actin filament length (GO:0030832)|somatic muscle development (GO:0007525)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|Z disc (GO:0030018)	structural constituent of muscle (GO:0008307)			NS(5)|autonomic_ganglia(3)|breast(9)|central_nervous_system(5)|cervix(3)|endometrium(35)|kidney(16)|large_intestine(77)|liver(1)|lung(99)|ovary(9)|pancreas(3)|prostate(13)|skin(7)|stomach(8)|upper_aerodigestive_tract(6)|urinary_tract(2)	301				BRCA - Breast invasive adenocarcinoma(221;0.219)		GTCACTCGCCGCCTGCCTGGC	0.512																																																0													80	76	77					2																	152536245		1927	4134	6061	SO:0001583	missense	4703			X83957	CCDS46424.1, CCDS54407.1, CCDS54408.1, CCDS74588.1	2q22	2014-09-17			ENSG00000183091	ENSG00000183091			7720	protein-coding gene	gene with protein product	"nemaline myopathy type 2"	161650		NEM2		10051637, 9359044	Standard	NM_001164507		Approved	NEB177D	uc010fnx.3	P20929	OTTHUMG00000153784	ENST00000172853.10:c.3245C>G	2.37:g.152536245G>C	ENSP00000172853:p.Ala1082Gly	Somatic		WXS	Illumina HiSeq	Phase_I	F8WCL5|F8WCP0|Q15346|Q53QQ2|Q53TG8	Missense_Mutation	SNP	ENST00000172853.10	37		.	.	.	.	.	.	.	.	.	.	G	17.50	3.405701	0.62288	.	.	ENSG00000183091	ENST00000409198;ENST00000397345;ENST00000427231;ENST00000172853	T;T;T;T	0.46819	0.86;0.86;0.86;0.86	5.74	5.74	0.90152	.	0.120440	0.56097	D	0.000033	T	0.64962	0.2646	L	0.51422	1.61	0.80722	D	1	D	0.64830	0.994	D	0.71414	0.973	T	0.65224	-0.6220	10	0.72032	D	0.01	.	18.7041	0.91631	0.0:0.0:1.0:0.0	.	1082	P20929	NEBU_HUMAN	G	1082	ENSP00000386259:A1082G;ENSP00000380505:A1082G;ENSP00000416578:A1082G;ENSP00000172853:A1082G	ENSP00000172853:A1082G	A	-	2	0	NEB	152244491	0.029000	0.19370	0.964000	0.40570	0.434000	0.31775	1.739000	0.38217	2.720000	0.93068	0.650000	0.86243	GCG		0.512	NEB-201	KNOWN	basic	protein_coding	protein_coding		NM_004543		C	152536245	G	C	152536245	3	2	602	1	0	0	0	0	1	0	0	0	10309	1087	38	4	23045	4	NEB	2	152536245	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	146205	152536245	90663128	17	36157										
AGPS	8540	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	178257747	178257747	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gcccacggccactcccgccgCgcaggagtcgggcaccatcc	12	20	0	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr2:178257747C>T	ENST00000264167.4	+	1	376	c.230C>T	c.(229-231)gCg>gTg	p.A77V	AC074286.1_ENST00000397057.2_RNA|NFE2L2_ENST00000464747.1_5'Flank|AGPS_ENST00000409888.1_Missense_Mutation_p.A77V	NM_003659.3	NP_003650.1	O00116	ADAS_HUMAN	alkylglycerone phosphate synthase	77					cellular lipid metabolic process (GO:0044255)|ether lipid biosynthetic process (GO:0008611)|lipid biosynthetic process (GO:0008610)|small molecule metabolic process (GO:0044281)	intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|peroxisomal matrix (GO:0005782)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	alkylglycerone-phosphate synthase activity (GO:0008609)|FAD binding (GO:0071949)|UDP-N-acetylmuramate dehydrogenase activity (GO:0008762)			breast(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(8)|lung(12)|ovary(2)|skin(1)	32			OV - Ovarian serous cystadenocarcinoma(117;0.0018)|Epithelial(96;0.00919)|all cancers(119;0.0358)			ACTCCCGCCGCGCAGGAGTCG	0.692																																																0													2	2	2					2																	178257747		1370	2704	4074	SO:0001583	missense	8540			Y09443	CCDS2275.1	2q	2008-02-05			ENSG00000018510	ENSG00000018510	2.5.1.26		327	protein-coding gene	gene with protein product		603051				9187299, 9553082	Standard	NM_003659		Approved	ADHAPS, ADAS, ALDHPSY, ADPS, ADAP-S	uc002ull.2	O00116	OTTHUMG00000132530	ENST00000264167.4:c.230C>T	2.37:g.178257747C>T	ENSP00000264167:p.Ala77Val	Somatic		WXS	Illumina HiSeq	Phase_I	A5D8U9|Q2TU35	Missense_Mutation	SNP	ENST00000264167.4	37	CCDS2275.1	.	.	.	.	.	.	.	.	.	.	C	18.28	3.589519	0.66105	.	.	ENSG00000018510	ENST00000264167;ENST00000409888	D	0.97328	-4.34	4.57	3.7	0.42460	.	0.000000	0.45126	D	0.000391	D	0.91543	0.7329	L	0.38531	1.155	0.23751	N	0.996949	P	0.38745	0.645	B	0.22386	0.039	D	0.84254	0.0479	10	0.29301	T	0.29	.	9.702	0.40192	0.0:0.902:0.0:0.098	.	77	O00116	ADAS_HUMAN	V	77	ENSP00000264167:A77V	ENSP00000264167:A77V	A	+	2	0	AGPS	177965993	0.089000	0.21612	0.781000	0.31783	0.978000	0.69477	0.687000	0.25407	1.138000	0.42230	0.655000	0.94253	GCG		0.692	AGPS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255730.2			T	178257747	C	T	178257747	3	4	602	1	0	0	0	0	1	0	0	0	394	768	27	1	232	1	AGPS	2	178257747	Missense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	25721502	178257747	64941626	18	36158										
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	179598544	179598545	+	Missense_Mutation	DNP	AC	AC	CA													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	aaatgggctctgaccctctcAcagcagcttgcagggtaacg							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr2:179598544_179598545AC>CA	ENST00000591111.1	-	51	14844_14845	c.14620_14621GT>TG	c.(14620-14622)GTg>TGg	p.V4874W	TTN_ENST00000460472.2_Intron|TTN_ENST00000342992.6_Missense_Mutation_p.V3947W|TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000582847.1_RNA|TTN_ENST00000342175.6_Intron|TTN_ENST00000589042.1_Missense_Mutation_p.V5191W|TTN_ENST00000359218.5_Intron			Q8WZ42	TITIN_HUMAN	titin	12256	Ig-like 29.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGACCCTCTCACAGCAGCTTGC	0.426																																																0																																										SO:0001583	missense	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.14620_14621delinsCA	2.37:g.179598544_179598545delinsCA	ENSP00000465570:p.Val4874Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	DNP	ENST00000591111.1	37																																																																																					0.426	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		CA	179598545	AC	CA	179598544	3	2	602	1	0	0	0	0	1	0	0	0	16747	159	6	5	89197	5	TTN	2	179598544	Missense_Mutation	DNP	AC	TCGA-GL-A59R-01A-11D-A26P-10	1340797	179598544	63600829	19	36159										
FSIP2	401024	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	186672719	186672719	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	atttatctccaaaagtaagaTtaaacttgtaccacccacca	3	11	1	1	rs377239551		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr2:186672719T>C	ENST00000424728.1	+	17	18686	c.18686T>C	c.(18685-18687)aTt>aCt	p.I6229T	FSIP2_ENST00000343098.5_Missense_Mutation_p.I6318T			Q5CZC0	FSIP2_HUMAN	fibrous sheath interacting protein 2	6229										NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(4)|kidney(1)|large_intestine(11)|lung(46)|pancreas(1)|urinary_tract(2)	69						AAAAGTAAGATTAAACTTGTA	0.308																																																0								T	THR/ILE	0,3640		0,0,1820	32	29	30		18953	5.1	1	2		30	1,8109		0,1,4054	no	missense	FSIP2	NM_173651.2	89	0,1,5874	CC,CT,TT		0.0123,0.0,0.0085	probably-damaging	6318/6997	186672719	1,11749	1820	4055	5875	SO:0001583	missense	401024			AK092099	CCDS54426.1	2q32.1	2010-06-18			ENSG00000188738	ENSG00000188738			21675	protein-coding gene	gene with protein product		615796				14702039	Standard	NM_173651		Approved	FLJ34780	uc002upl.3	Q5CZC0	OTTHUMG00000153874	ENST00000424728.1:c.18686T>C	2.37:g.186672719T>C	ENSP00000401306:p.Ile6229Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q53TL3|Q53TN5|Q5HYH2|Q6ZTZ5|Q6ZU14|Q6ZU21	Missense_Mutation	SNP	ENST00000424728.1	37		.	.	.	.	.	.	.	.	.	.	T	15.95	2.984130	0.53827	0.0	1.23E-4	ENSG00000188738	ENST00000343098;ENST00000424728	T;T	0.60797	0.16;0.16	5.07	5.07	0.68467	.	0.235594	0.29737	N	0.011328	T	0.61825	0.2378	L	0.52011	1.625	0.34264	D	0.680189	.	.	.	.	.	.	T	0.74544	-0.3630	8	0.72032	D	0.01	.	11.132	0.48351	0.0:0.0:0.0:1.0	.	.	.	.	T	6318;6229	ENSP00000344403:I6318T;ENSP00000401306:I6229T	ENSP00000344403:I6318T	I	+	2	0	FSIP2	186380964	1.000000	0.71417	0.983000	0.44433	0.928000	0.56348	3.872000	0.56085	2.130000	0.65690	0.397000	0.26171	ATT		0.308	FSIP2-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000332778.3	NM_173651		C	186672719	T	C	186672719	3	2	602	1	0	0	0	0	1	0	0	0	6082	1493	52	3	19019	3	FSIP2	2	186672719	Missense_Mutation	SNP	T	TCGA-GL-A59R-01A-11D-A26P-10	7074175	186672719	56526654	20	36160										
SF3B1	23451	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	198265131	198265131	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gccaagagcattaaccactgTgccaaagccgttcaacatta	7	12	1	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr2:198265131T>C	ENST00000335508.6	-	19	2837	c.2746A>G	c.(2746-2748)Aca>Gca	p.T916A	SF3B1_ENST00000462613.1_5'Flank	NM_012433.2	NP_036565.2	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1, 155kDa	916					anterior/posterior pattern specification (GO:0009952)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)	catalytic step 2 spliceosome (GO:0071013)|intracellular membrane-bounded organelle (GO:0043231)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)|U12-type spliceosomal complex (GO:0005689)	chromatin binding (GO:0003682)|poly(A) RNA binding (GO:0044822)			NS(35)|breast(10)|central_nervous_system(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(524)|kidney(4)|large_intestine(10)|lung(19)|ovary(1)|pancreas(4)|prostate(6)|salivary_gland(1)|skin(4)|testis(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	633			OV - Ovarian serous cystadenocarcinoma(117;0.246)			TTAACCACTGTGCCAAAGCCG	0.358			Mis		myelodysplastic syndrome																																		Dom	yes		2	2q33.1	23451	"splicing factor 3b, subunit 1, 155kDa"		L	0													97	95	95					2																	198265131		2203	4300	6503	SO:0001583	missense	23451			AF054284	CCDS33356.1, CCDS46479.1	2q33.1	2014-09-17	2002-08-29		ENSG00000115524	ENSG00000115524			10768	protein-coding gene	gene with protein product		605590	"splicing factor 3b, subunit 1, 155kD"			9585501	Standard	XM_005246428		Approved	SAP155, SF3b155, PRPF10, Prp10, Hsh155	uc002uue.3	O75533	OTTHUMG00000154447	ENST00000335508.6:c.2746A>G	2.37:g.198265131T>C	ENSP00000335321:p.Thr916Ala	Somatic		WXS	Illumina HiSeq	Phase_I	E9PCH3	Missense_Mutation	SNP	ENST00000335508.6	37	CCDS33356.1	.	.	.	.	.	.	.	.	.	.	T	15.50	2.851230	0.51270	.	.	ENSG00000115524	ENST00000335508	.	.	.	5.87	5.87	0.94306	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.57695	0.2071	L	0.48174	1.505	0.80722	D	1	B	0.14012	0.009	B	0.21360	0.034	T	0.51903	-0.8646	9	0.29301	T	0.29	.	16.5764	0.84681	0.0:0.0:0.0:1.0	.	916	O75533	SF3B1_HUMAN	A	916	.	ENSP00000335321:T916A	T	-	1	0	SF3B1	197973376	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.910000	0.87451	2.371000	0.80710	0.533000	0.62120	ACA		0.358	SF3B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335245.2			C	198265131	T	C	198265131	3	2	602	1	0	0	0	0	1	0	0	0	14162	1696	59	3	1196	3	SF3B1	2	198265131	Missense_Mutation	SNP	T	TCGA-GL-A59R-01A-11D-A26P-10	11592412	198265131	44934242	21	36161										
RAF1	5894	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	12653543	12653543	+	Frame_Shift_Del	DEL	T	T	-													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	aaggcagtcatgcaagctcaTtccatttcgcacattgacct							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr3:12653543delT	ENST00000251849.4	-	3	665	c.226delA	c.(226-228)atgfs	p.M76fs	RAF1_ENST00000534997.1_5'Flank|RAF1_ENST00000442415.2_Frame_Shift_Del_p.M76fs|RAF1_ENST00000542177.1_Intron	NM_002880.3	NP_002871.1	P04049	RAF1_HUMAN	Raf-1 proto-oncogene, serine/threonine kinase	76	RBD. {ECO:0000255|PROSITE- ProRule:PRU00262}.				activation of adenylate cyclase activity (GO:0007190)|activation of MAPKK activity (GO:0000186)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell proliferation (GO:0008283)|death-inducing signaling complex assembly (GO:0071550)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|intermediate filament cytoskeleton organization (GO:0045104)|ion transmembrane transport (GO:0034220)|MAPK cascade (GO:0000165)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|negative regulation of protein complex assembly (GO:0031333)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet activation (GO:0030168)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|protein phosphorylation (GO:0006468)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of cell differentiation (GO:0045595)|regulation of cell motility (GO:2000145)|regulation of Rho protein signal transduction (GO:0035023)|response to hypoxia (GO:0001666)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)|somatic stem cell maintenance (GO:0035019)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|wound healing (GO:0042060)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|mitochondrial outer membrane (GO:0005741)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|pseudopodium (GO:0031143)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|MAP kinase kinase kinase activity (GO:0004709)|metal ion binding (GO:0046872)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)		ESRP1/RAF1(4)|RAF1/DAZL(2)|SRGAP3/RAF1(6)	biliary_tract(1)|endometrium(4)|kidney(3)|large_intestine(9)|liver(1)|lung(7)|ovary(1)|pancreas(1)|prostate(2)|stomach(2)|upper_aerodigestive_tract(1)	32					Dabrafenib(DB08912)|Regorafenib(DB08896)|Sorafenib(DB00398)	TGCAAGCTCATTCCATTTCGC	0.498			T	SRGAP3	pilocytic astrocytoma				Noonan syndrome																														Dom	yes		3	3p25	5894	v-raf-1 murine leukemia viral oncogene homolog 1		M	0													154	137	143					3																	12653543		2203	4300	6503	SO:0001589	frameshift_variant	5894	Familial Cancer Database	Male Turner syndrome, Pterygium Colli syndrome, incl. Noonan-like/Multiple Giant Cell Lesion syndrome; Noonan s. with multiple lentigines/LEOPARD syndrome	X03484	CCDS2612.1	3p25	2014-09-17	2014-06-26		ENSG00000132155	ENSG00000132155			9829	protein-coding gene	gene with protein product	"C-Raf proto-oncogene, serine/threonine kinase"	164760	"v-raf-1 murine leukemia viral oncogene homolog 1"			1611909	Standard	NM_002880		Approved	Raf-1, c-Raf, CRAF	uc003bxf.4	P04049	OTTHUMG00000129789	ENST00000251849.4:c.226delA	3.37:g.12653543delT	ENSP00000251849:p.Met76fs	Somatic		WXS	Illumina HiSeq	Phase_I	B0LPH8|B2R5N3|Q15278|Q9UC20	Nonsense_Mutation	DEL	ENST00000251849.4	37	CCDS2612.1																																																																																				0.498	RAF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252015.2	NM_002880		-	12653543	T	-	12653543	7	5	602	1	0	1	0	1	0	0	0	0	13015	1493	52	0	1780	0	RAF1	3	12653543	Frame_Shift_Del	DEL	T	TCGA-GL-A59R-01A-11D-A26P-10		12653543	185368887	22	36162										
GRIP2	80852	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	14559362	14559362	+	RNA	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gggctgtggcaggagggcacGcaggggtcccagcggtgcag	21	10	0	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr3:14559362G>A	ENST00000273083.3	-	0	1138							Q9C0E4	GRIP2_HUMAN	glutamate receptor interacting protein 2						synaptic transmission (GO:0007268)	cytosol (GO:0005829)|plasma membrane (GO:0005886)				endometrium(5)|large_intestine(4)|lung(8)|ovary(1)|pancreas(1)|prostate(5)|skin(1)	25						AGGAGGGCACGCAGGGGTCCC	0.652																																																0																																												80852			AB051506		3p24-p23	2012-02-08			ENSG00000144596	ENSG00000144596			23841	protein-coding gene	gene with protein product							Standard	NM_001080423		Approved	KIAA1719	uc021wtn.1	Q9C0E4	OTTHUMG00000155544		3.37:g.14559362G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TEH9|Q9H7H3	Silent	SNP	ENST00000273083.3	37																																																																																					0.652	GRIP2-001	KNOWN	basic	processed_transcript	processed_transcript	OTTHUMT00000340582.2	NM_001080423		A	14559362	G	A	14559362	1	1	602	0	1	0	0	0	0	0	0	0	6795	1079	38	1		1	GRIP2	3	14559362	RNA	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	1905819	14559362	183463068	23	36163										
SCN11A	11280	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	38966961	38966961	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	acacggaaggtacgcaggggCaatagtttgatggtgattcc	14	7	0	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr3:38966961C>G	ENST00000302328.3	-	5	855	c.657G>C	c.(655-657)ttG>ttC	p.L219F	SCN11A_ENST00000456224.3_Missense_Mutation_p.L219F|SCN11A_ENST00000444237.2_Missense_Mutation_p.L219F|SCN11A_ENST00000450244.1_Missense_Mutation_p.L219F	NM_014139.2	NP_054858.2	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha subunit	219					cell death (GO:0008219)|membrane depolarization during action potential (GO:0086010)|neuronal action potential (GO:0019228)|regulation of sensory perception of pain (GO:0051930)|response to drug (GO:0042493)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	C-fiber (GO:0044299)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)			NS(3)|biliary_tract(1)|breast(4)|cervix(2)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(29)|lung(29)|ovary(3)|pancreas(2)|prostate(12)|skin(14)|upper_aerodigestive_tract(5)|urinary_tract(3)	119				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)|Valproic Acid(DB00313)|Zonisamide(DB00909)	TACGCAGGGGCAATAGTTTGA	0.463																																																0													162	136	145					3																	38966961		2203	4300	6503	SO:0001583	missense	11280			AF126739	CCDS33737.1	3p22.2	2012-02-26	2007-01-23		ENSG00000168356	ENSG00000168356		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10583	protein-coding gene	gene with protein product		604385	"sodium channel, voltage-gated, type XI, alpha polypeptide", "sodium channel, voltage-gated, type XII, alpha"	SCN12A		10444332, 16382098	Standard	NM_014139		Approved	Nav1.9, NaN, SNS-2	uc021wvy.1	Q9UI33	OTTHUMG00000048246	ENST00000302328.3:c.657G>C	3.37:g.38966961C>G	ENSP00000307599:p.Leu219Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A6NN05|C9JD48|C9JR31|Q68K15|Q8NDX3|Q9UHE0|Q9UHM0	Missense_Mutation	SNP	ENST00000302328.3	37	CCDS33737.1	.	.	.	.	.	.	.	.	.	.	C	15.35	2.808991	0.50421	.	.	ENSG00000168356	ENST00000302328;ENST00000450244;ENST00000456224;ENST00000444237	D;D;D;D	0.97404	-4.37;-4.37;-4.37;-4.37	4.79	-4.0	0.04057	Ion transport (1);	0.225617	0.39210	N	0.001423	D	0.94515	0.8234	L	0.55481	1.735	0.09310	N	1	P	0.50819	0.939	P	0.49192	0.602	D	0.89878	0.4028	10	0.87932	D	0	.	5.7293	0.18030	0.0:0.2152:0.3973:0.3874	.	219	Q9UI33	SCNBA_HUMAN	F	219	ENSP00000307599:L219F;ENSP00000400945:L219F;ENSP00000416757:L219F;ENSP00000408028:L219F	ENSP00000307599:L219F	L	-	3	2	SCN11A	38941965	0.002000	0.14202	0.003000	0.11579	0.008000	0.06430	-1.047000	0.03521	-0.513000	0.06496	0.467000	0.42956	TTG		0.463	SCN11A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109746.4	NM_014139		G	38966961	C	G	38966961	3	3	602	1	0	0	0	0	1	0	0	0	13926	709	25	4	4806	4	SCN11A	3	38966961	Missense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	24407599	38966961	159055469	24	36164										
NME6	10201	ucsc.edu	37	chr3	48338260	48338260	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tggcaatcttcctttctccaCagtagttctctcattcgtac	5	13	4	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr3:48338260C>T	ENST00000452211.1	-	4	387	c.150G>A	c.(148-150)ctG>ctA	p.L50L	NME6_ENST00000421967.1_Silent_p.L58L|NME6_ENST00000447314.1_Silent_p.L5L|ZNF589_ENST00000412564.1_Intron|NME6_ENST00000415644.1_Silent_p.L50L|NME6_ENST00000451657.1_Silent_p.L50L|NME6_ENST00000415053.1_Silent_p.L50L|NME6_ENST00000426689.2_Silent_p.L50L|NME6_ENST00000444069.1_Intron|NME6_ENST00000442597.1_Silent_p.L50L|NME6_ENST00000426723.1_Silent_p.L50L|NME6_ENST00000450160.1_Silent_p.L50L|NME6_ENST00000435684.1_Silent_p.L50L			O75414	NDK6_HUMAN	NME/NM23 nucleoside diphosphate kinase 6	50					apoptotic process (GO:0006915)|CTP biosynthetic process (GO:0006241)|GTP biosynthetic process (GO:0006183)|negative regulation of cell growth (GO:0030308)|negative regulation of mitosis (GO:0045839)|UTP biosynthetic process (GO:0006228)	mitochondrion (GO:0005739)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|nucleoside diphosphate kinase activity (GO:0004550)			breast(1)|large_intestine(5)	6				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00609)		CCTTTCTCCACAGTAGTTCTC	0.433																																																0													170	150	157					3																	48338260		2203	4300	6503	SO:0001819	synonymous_variant	10201			AF051941	CCDS2763.1	3p21.31	2012-05-18	2012-05-18		ENSG00000172113	ENSG00000172113			20567	protein-coding gene	gene with protein product		608294	"non-metastatic cells 6, protein expressed in (nucleoside-diphosphate kinase)"			10453732, 19852809	Standard	NM_005793		Approved	NM23-H6, IPIA-ALPHA	uc003cso.3	O75414	OTTHUMG00000133531	ENST00000452211.1:c.150G>A	3.37:g.48338260C>T		Somatic		WXS	Illumina HiSeq		B4DGW7|B4DM99|Q53HM5|Q96E73|Q9BQ63	Silent	SNP	ENST00000452211.1	37																																																																																					0.433	NME6-005	NOVEL	alternative_5_UTR|not_organism_supported|basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000346107.1	NM_005793		T	48338260	C	T	48338260	2	4	602	1	0	0	0	0	0	0	0	1	10502	465	17	2		2	NME6	3	48338260	Silent	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	9371299	48338260	149684170	25	36165										
PLXNB1	5364	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	48465285	48465285	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	acacactcgagatacataggCacgaaaagctctagactgag	9	10	1	3			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr3:48465285C>T	ENST00000358536.4	-	3	1005	c.736G>A	c.(736-738)Gcc>Acc	p.A246T	PLXNB1_ENST00000448774.2_Intron|PLXNB1_ENST00000358459.4_Missense_Mutation_p.A246T|PLXNB1_ENST00000456774.1_Missense_Mutation_p.A246T|PLXNB1_ENST00000296440.6_Missense_Mutation_p.A246T	NM_002673.4	NP_002664.2	O43157	PLXB1_HUMAN	plexin B1	246	Sema. {ECO:0000255|PROSITE- ProRule:PRU00352}.				axon guidance (GO:0007411)|cell migration (GO:0016477)|intracellular signal transduction (GO:0035556)|negative regulation of cell adhesion (GO:0007162)|negative regulation of osteoblast proliferation (GO:0033689)|neuron projection morphogenesis (GO:0048812)|ossification involved in bone maturation (GO:0043931)|positive regulation of axonogenesis (GO:0050772)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of Rho GTPase activity (GO:0032321)|regulation of cell shape (GO:0008360)|regulation of cytoskeleton organization (GO:0051493)|semaphorin-plexin signaling pathway (GO:0071526)|semaphorin-plexin signaling pathway involved in bone trabecula morphogenesis (GO:1900220)|signal transduction (GO:0007165)	extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|semaphorin receptor complex (GO:0002116)	GTPase activating protein binding (GO:0032794)|receptor activity (GO:0004872)|semaphorin receptor activity (GO:0017154)|semaphorin receptor binding (GO:0030215)|transmembrane signaling receptor activity (GO:0004888)			NS(1)|breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(6)|lung(10)|ovary(3)|pancreas(2)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	47				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GATACATAGGCACGAAAAGCT	0.607																																																0													62	58	59					3																	48465285		2202	4300	6502	SO:0001583	missense	5364			X87904	CCDS2765.1	3p21.31	2008-07-18			ENSG00000164050	ENSG00000164050		"Plexins"	9103	protein-coding gene	gene with protein product		601053		PLXN5		8570614, 11035813	Standard	XM_005265234		Approved	SEP, KIAA0407	uc003csw.2	O43157	OTTHUMG00000133527	ENST00000358536.4:c.736G>A	3.37:g.48465285C>T	ENSP00000351338:p.Ala246Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8Y2|Q6NY20|Q9UIV7|Q9UJ92|Q9UJ93	Missense_Mutation	SNP	ENST00000358536.4	37	CCDS2765.1	.	.	.	.	.	.	.	.	.	.	C	0.009	-1.836487	0.00579	.	.	ENSG00000164050	ENST00000296440;ENST00000358459;ENST00000358536;ENST00000456774	T;T;T;T	0.02944	4.1;4.1;4.1;4.1	4.41	2.58	0.30949	WD40/YVTN repeat-like-containing domain (1);Semaphorin/CD100 antigen (4);	0.176749	0.38436	N	0.001699	T	0.00666	0.0022	N	0.00201	-1.865	0.80722	D	1	B;B	0.12013	0.001;0.005	B;B	0.10450	0.005;0.004	T	0.41324	-0.9515	10	0.07325	T	0.83	.	4.5893	0.12299	0.0:0.2937:0.3661:0.3403	.	246;246	O43157;O43157-2	PLXB1_HUMAN;.	T	246	ENSP00000296440:A246T;ENSP00000351242:A246T;ENSP00000351338:A246T;ENSP00000414199:A246T	ENSP00000296440:A246T	A	-	1	0	PLXNB1	48440289	0.995000	0.38212	0.188000	0.23233	0.006000	0.05464	2.590000	0.46154	0.308000	0.22923	-0.229000	0.12294	GCC		0.607	PLXNB1-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344454.1	NM_002673		T	48465285	C	T	48465285	3	4	602	1	0	0	0	0	1	0	0	0	12130	710	25	2	5815	2	PLXNB1	3	48465285	Missense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	127025	48465285	149557145	26	36166										
CACNA2D2	9254	broad.mit.edu;bcgsc.ca	37	chr3	50513567	50513567	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	acctcacggagctgctggacGcctccaaaaatccgcatcac	8	16	2	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr3:50513567G>T	ENST00000479441.1	-	2	269	c.270C>A	c.(268-270)ggC>ggA	p.G90G	CACNA2D2_ENST00000435965.1_Silent_p.G90G|CACNA2D2_ENST00000424201.2_Silent_p.G90G|CACNA2D2_ENST00000395083.1_Silent_p.G90G|CACNA2D2_ENST00000487413.1_5'UTR|CACNA2D2_ENST00000423994.2_Silent_p.G90G|CACNA2D2_ENST00000429770.1_Silent_p.G90G|CACNA2D2_ENST00000266039.3_Silent_p.G90G|CACNA2D2_ENST00000360963.3_Silent_p.G21G			Q9NY47	CA2D2_HUMAN	calcium channel, voltage-dependent, alpha 2/delta subunit 2	90					energy reserve metabolic process (GO:0006112)|muscle fiber development (GO:0048747)|neuromuscular junction development (GO:0007528)|positive regulation of organ growth (GO:0046622)|regulation of insulin secretion (GO:0050796)|regulation of multicellular organism growth (GO:0040014)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)	plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)			breast(3)|cervix(1)|endometrium(4)|large_intestine(4)|lung(8)|ovary(2)|prostate(4)|skin(4)|urinary_tract(1)	31				BRCA - Breast invasive adenocarcinoma(193;0.000365)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)	Amiodarone(DB01118)|Bepridil(DB01244)|Felodipine(DB01023)|Gabapentin(DB00996)|Isradipine(DB00270)|Nitrendipine(DB01054)|Spironolactone(DB00421)	GCTGCTGGACGCCTCCAAAAA	0.597																																																0													61	57	58					3																	50513567		2201	4299	6500	SO:0001819	synonymous_variant	9254			AF040709	CCDS33763.1, CCDS54588.1, CCDS63647.1	3p21.3	2004-02-27			ENSG00000007402	ENSG00000007402		"Calcium channel subunits"	1400	protein-coding gene	gene with protein product	"gene 26"	607082					Standard	XM_005265581		Approved	KIAA0558	uc003daq.3	Q9NY47	OTTHUMG00000156887	ENST00000479441.1:c.270C>A	3.37:g.50513567G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7MD15|Q9NY48|Q9UEW0|Q9Y268	Silent	SNP	ENST00000479441.1	37	CCDS54588.1																																																																																				0.597	CACNA2D2-005	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000346457.1	NM_006030		T	50513567	G	T	50513567	2	4	602	1	0	0	0	0	0	0	0	1	2551	1074	38	4		4	CACNA2D2	3	50513567	Silent	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	2048282	50513567	147508863	27	36167										
NISCH	11188	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	52505969	52505969	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ctcgggcacatcctggacttCacctgtcgccttaagtacct	8	15	1	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr3:52505969C>T	ENST00000479054.1	+	6	621	c.549C>T	c.(547-549)ttC>ttT	p.F183F	NISCH_ENST00000488380.1_Silent_p.F183F|NISCH_ENST00000420808.2_Silent_p.F183F|NISCH_ENST00000345716.4_Silent_p.F183F			Q9Y2I1	NISCH_HUMAN	nischarin	183	Necessary for homooligomerization and targeting to endosomes.				actin cytoskeleton organization (GO:0030036)|apoptotic process (GO:0006915)|glucose metabolic process (GO:0006006)|negative regulation of cell migration (GO:0030336)|norepinephrine secretion (GO:0048243)|Rac protein signal transduction (GO:0016601)|regulation of blood pressure (GO:0008217)|regulation of synaptic transmission, GABAergic (GO:0032228)	cytosol (GO:0005829)|endosome (GO:0005768)|membrane (GO:0016020)|plasma membrane (GO:0005886)	G-protein coupled amine receptor activity (GO:0008227)|identical protein binding (GO:0042802)|phosphatidylinositol binding (GO:0035091)			NS(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(9)|ovary(4)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(4)	33				BRCA - Breast invasive adenocarcinoma(193;1.93e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)|OV - Ovarian serous cystadenocarcinoma(275;0.0577)	Tizanidine(DB00697)	TCCTGGACTTCACCTGTCGCC	0.632											OREG0015615	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													59	60	60					3																	52505969		2203	4300	6503	SO:0001819	synonymous_variant	11188			AF082516	CCDS33767.1, CCDS63651.1, CCDS63652.1	3p21.1	2008-07-18			ENSG00000010322	ENSG00000010322			18006	protein-coding gene	gene with protein product	"imidazoline receptor candidate", "I-1 receptor candidate protein", "imidazoline receptor antisera selected"	615507				11912194, 10882231	Standard	NM_007184		Approved	KIAA0975, I-1, IRAS	uc003ded.4	Q9Y2I1	OTTHUMG00000158571	ENST00000479054.1:c.549C>T	3.37:g.52505969C>T		Somatic	985	WXS	Illumina HiSeq	Phase_I	C9J245|Q6PGP3|Q6PIB4|Q7L8M3|Q7Z2X6|Q9UES6|Q9UEU4|Q9UFW3	Silent	SNP	ENST00000479054.1	37	CCDS33767.1																																																																																				0.632	NISCH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351357.1	NM_007184		T	52505969	C	T	52505969	2	4	602	1	0	0	0	0	0	0	0	1	10439	825	29	2		2	NISCH	3	52505969	Silent	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	1992402	52505969	145516461	28	36168										
DNAJC13	23317	bcgsc.ca	37	chr3	132196969	132196969	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	acagataccagatatatcatTggaatgttagagagggtaag	11	4	1	3			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr3:132196969T>C	ENST00000260818.6	+	24	2942	c.2694T>C	c.(2692-2694)atT>atC	p.I898I		NM_015268.3	NP_056083.3	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	898					osteoblast differentiation (GO:0001649)	extracellular vesicular exosome (GO:0070062)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)				breast(4)|endometrium(2)|kidney(2)|large_intestine(5)|lung(15)|ovary(1)|pancreas(2)|prostate(2)|urinary_tract(1)	34						GATATATCATTGGAATGTTAG	0.303																																																0													78	82	81					3																	132196969		2203	4300	6503	SO:0001819	synonymous_variant	23317			AB014578	CCDS33857.1	3q22.1	2011-09-02			ENSG00000138246	ENSG00000138246		"Heat shock proteins / DNAJ (HSP40)"	30343	protein-coding gene	gene with protein product		614334				12438707	Standard	NM_015268		Approved	RME8, KIAA0678	uc003eor.3	O75165	OTTHUMG00000159674	ENST00000260818.6:c.2694T>C	3.37:g.132196969T>C		Somatic		WXS	Illumina HiSeq	Phase_1	Q3L0T1|Q6PI82|Q6UJ77|Q6ZSW1|Q6ZUT5|Q86XG3|Q96DC1|Q9BWK9	Silent	SNP	ENST00000260818.6	37	CCDS33857.1																																																																																				0.303	DNAJC13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356807.2	NM_015268		C	132196969	T	C	132196969	2	2	602	1	0	0	0	0	0	0	0	1	4634	1800	63	3		3	DNAJC13	3	132196969	Silent	SNP	T	TCGA-GL-A59R-01A-11D-A26P-10	79691000	132196969	65825461	29	36169										
SKIL	6498	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	170078913	170078913	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tggcagtgcctttgaagtggAgcatgaatgcctaggcaaat	13	7	0	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr3:170078913A>T	ENST00000458537.3	+	1	1503	c.794A>T	c.(793-795)gAg>gTg	p.E265V	SKIL_ENST00000259119.4_Missense_Mutation_p.E265V|SKIL_ENST00000426052.2_Missense_Mutation_p.E245V|SKIL_ENST00000413427.2_Missense_Mutation_p.E265V	NM_001145097.2|NM_001248008.1|NM_005414.4	NP_001138569.1|NP_001234937.1|NP_005405.2	P12757	SKIL_HUMAN	SKI-like proto-oncogene	265					blastocyst formation (GO:0001825)|cell cycle arrest (GO:0007050)|gene expression (GO:0010467)|lens fiber cell differentiation (GO:0070306)|lymphocyte homeostasis (GO:0002260)|negative regulation of cell differentiation (GO:0045596)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|positive regulation of axonogenesis (GO:0050772)|positive regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902043)|positive regulation of intrinsic apoptotic signaling pathway in response to DNA damage (GO:1902231)|protein heterotrimerization (GO:0070208)|protein homotrimerization (GO:0070207)|regulation of apoptotic process (GO:0042981)|response to antibiotic (GO:0046677)|response to cytokine (GO:0034097)|response to growth factor (GO:0070848)|skeletal muscle tissue development (GO:0007519)|spermatogenesis (GO:0007283)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	acrosomal vesicle (GO:0001669)|cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)	chromatin binding (GO:0003682)|protein complex binding (GO:0032403)|protein domain specific binding (GO:0019904)|SMAD binding (GO:0046332)|transcription corepressor activity (GO:0003714)			cervix(1)|endometrium(2)|kidney(2)|large_intestine(1)|lung(12)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	25	all_cancers(22;7.13e-23)|all_epithelial(15;9.95e-28)|all_lung(20;1.23e-16)|Lung NSC(18;5.15e-16)|Ovarian(172;0.000337)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			TTTGAAGTGGAGCATGAATGC	0.453																																																0													147	129	135					3																	170078913		2203	4300	6503	SO:0001583	missense	6498			X15217	CCDS33890.1, CCDS46953.1, CCDS46954.1	3q26	2014-06-25	2014-06-25		ENSG00000136603	ENSG00000136603		"SKI transcriptional corepressors"	10897	protein-coding gene	gene with protein product		165340	"SKI-like oncogene"			2762147	Standard	NM_005414		Approved	SNO, SnoN, SnoA	uc003fgw.3	P12757	OTTHUMG00000158831	ENST00000458537.3:c.794A>T	3.37:g.170078913A>T	ENSP00000415243:p.Glu265Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGT1|B4DT50|O00464|P12756|Q07501	Missense_Mutation	SNP	ENST00000458537.3	37	CCDS33890.1	.	.	.	.	.	.	.	.	.	.	A	17.14	3.312956	0.60414	.	.	ENSG00000136603	ENST00000259119;ENST00000426052;ENST00000413427;ENST00000458537	D;D;D;D	0.91464	-2.85;-2.85;-2.83;-2.85	5.51	5.51	0.81932	SAND domain-like (2);c-SKI Smad4-binding (1);	0.221987	0.48286	D	0.000184	D	0.92038	0.7477	L	0.33485	1.01	0.52099	D	0.999943	D;D	0.89917	0.998;1.0	D;D	0.97110	0.969;1.0	D	0.90522	0.4489	10	0.25751	T	0.34	-22.9066	15.6712	0.77279	1.0:0.0:0.0:0.0	.	265;265	P12757-3;P12757	.;SKIL_HUMAN	V	265;245;265;265	ENSP00000259119:E265V;ENSP00000406520:E245V;ENSP00000400193:E265V;ENSP00000415243:E265V	ENSP00000259119:E265V	E	+	2	0	SKIL	171561607	1.000000	0.71417	1.000000	0.80357	0.454000	0.32378	8.962000	0.93254	2.111000	0.64477	0.524000	0.50904	GAG		0.453	SKIL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352351.4	NM_005414		T	170078913	A	T	170078913	3	4	602	1	0	0	0	0	1	0	0	0	14371	304	11	5	796	5	SKIL	3	170078913	Missense_Mutation	SNP	A	TCGA-GL-A59R-01A-11D-A26P-10	37881944	170078913	27943517	30	36170										
LRPAP1	4043	broad.mit.edu;bcgsc.ca	37	chr4	3534063	3534077	+	In_Frame_Del	DEL	CAGGGCCCGAGGAAG	CAGGGCCCGAGGAAG	-													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	cgccgtggctcgcagcgggcCagggcccgaggaagagcagc					rs541409658|rs572340534	byFrequency	TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	CAGGGCCCGAGGAAG	CAGGGCCCGAGGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr4:3534063_3534077delCAGGGCCCGAGGAAG	ENST00000500728.2	-	1	209_223	c.63_77delCTTCCTCGGGCCCTG	c.(61-78)ctcttcctcgggccctgg>ctg	p.FLGPW22del	LRPAP1_ENST00000296325.5_5'Flank	NM_002337.3	NP_002328.1	P30533	AMRP_HUMAN	low density lipoprotein receptor-related protein associated protein 1	22					extracellular negative regulation of signal transduction (GO:1900116)|negative regulation of beta-amyloid clearance (GO:1900222)|negative regulation of protein binding (GO:0032091)|negative regulation of very-low-density lipoprotein particle clearance (GO:0010916)|protein folding (GO:0006457)|receptor-mediated endocytosis (GO:0006898)|vesicle-mediated transport (GO:0016192)	endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|rough endoplasmic reticulum lumen (GO:0048237)|vesicle (GO:0031982)	asialoglycoprotein receptor activity (GO:0004873)|heparin binding (GO:0008201)|low-density lipoprotein particle receptor binding (GO:0050750)|receptor antagonist activity (GO:0048019)|unfolded protein binding (GO:0051082)|very-low-density lipoprotein particle receptor binding (GO:0070326)			breast(1)|endometrium(2)|large_intestine(2)|lung(5)|ovary(1)|prostate(1)|skin(2)	14				UCEC - Uterine corpus endometrioid carcinoma (64;0.165)		CGCAGCGGGCCAGGGCCCGAGGAAGAGCAGCAGCA	0.674																																																0																																										SO:0001651	inframe_deletion	4043				CCDS3371.1	4p16.3	2008-05-02	2003-03-17		ENSG00000163956	ENSG00000163956			6701	protein-coding gene	gene with protein product		104225	"low density lipoprotein-related protein-associated protein 1 (alpha-2-macroglobulin receptor-associated protein 1)"	A2MRAP		1712782	Standard	NM_002337		Approved	HBP44	uc003ghh.4	P30533	OTTHUMG00000090299	ENST00000500728.2:c.63_77delCTTCCTCGGGCCCTG	4.37:g.3534063_3534077delCAGGGCCCGAGGAAG	ENSP00000421922:p.Phe22_Trp26del	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVR9|Q2M310|Q53HQ3|Q53HS6	In_Frame_Del	DEL	ENST00000500728.2	37	CCDS3371.1																																																																																				0.674	LRPAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206659.4			-	3534077	CAGGGCCCGAGGAAG	-	3534063	7	5	602	1	0	1	0	1	0	0	0	0	8971	595	21	0	1028	0	LRPAP1	4	3534063	In_Frame_Del	DEL	CAGGGCCCGAGGAAG	TCGA-GL-A59R-01A-11D-A26P-10		3534063	187620213	31	36171										
RUFY3	22902	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	71629308	71629308	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	acaaaataaatccttctgggGgcctctagaactggtagaaa	9	8	2	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr4:71629308G>A	ENST00000226328.4	+	3	955	c.392G>A	c.(391-393)gGg>gAg	p.G131E	RUFY3_ENST00000381006.3_Missense_Mutation_p.G131E|RUFY3_ENST00000502653.1_Missense_Mutation_p.G78E|RUFY3_ENST00000417478.2_Missense_Mutation_p.G191E|RUFY3_ENST00000536664.1_Missense_Mutation_p.G115E	NM_014961.3	NP_055776.1	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3	131	RUN. {ECO:0000255|PROSITE- ProRule:PRU00178}.				negative regulation of axonogenesis (GO:0050771)	filopodium (GO:0030175)|growth cone (GO:0030426)				endometrium(1)|kidney(3)|large_intestine(4)|lung(6)|prostate(1)|stomach(1)	16		all_hematologic(202;0.248)	Lung(101;0.235)			TCCTTCTGGGGGCCTCTAGAA	0.368																																																0													37	41	40					4																	71629308		2195	4298	6493	SO:0001583	missense	22902			AF112221	CCDS3547.1, CCDS34001.1, CCDS47068.1, CCDS75138.1	4q13.3	2009-05-29			ENSG00000018189	ENSG00000018189		"Zinc fingers, FYVE domain containing"	30285	protein-coding gene	gene with protein product	"single axon-related 1"	611194				17439943	Standard	NM_001130709		Approved	RIPx, KIAA0871, Singar1	uc003hfr.3	Q7L099	OTTHUMG00000129910	ENST00000226328.4:c.392G>A	4.37:g.71629308G>A	ENSP00000226328:p.Gly131Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KM25|B4DYW7|D9N163|O94948|Q9UI00	Missense_Mutation	SNP	ENST00000226328.4	37	CCDS3547.1	.	.	.	.	.	.	.	.	.	.	G	28.3	4.907015	0.92107	.	.	ENSG00000018189	ENST00000503876;ENST00000417478;ENST00000381006;ENST00000226328;ENST00000536664;ENST00000513597;ENST00000502653	T;T;T;T;T;T;T	0.11712	2.75;2.75;2.75;2.75;2.75;2.75;2.75	5.13	5.13	0.70059	RUN (2);	0.000000	0.85682	D	0.000000	T	0.32823	0.0842	M	0.64997	1.995	0.80722	D	1	D;P;B;P	0.59767	0.986;0.498;0.397;0.956	D;P;P;D	0.76071	0.987;0.744;0.679;0.95	T	0.02093	-1.1215	10	0.72032	D	0.01	-9.749	18.944	0.92615	0.0:0.0:1.0:0.0	.	115;131;131;191	B4DKC2;Q7L099-3;Q7L099;Q7L099-2	.;.;RUFY3_HUMAN;.	E	67;191;131;131;115;67;78	ENSP00000426734:G67E;ENSP00000399771:G191E;ENSP00000370394:G131E;ENSP00000226328:G131E;ENSP00000443652:G115E;ENSP00000425574:G67E;ENSP00000425400:G78E	ENSP00000226328:G131E	G	+	2	0	RUFY3	71848172	1.000000	0.71417	0.979000	0.43373	0.957000	0.61999	9.744000	0.98853	2.569000	0.86673	0.591000	0.81541	GGG		0.368	RUFY3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000252161.2	NM_014961		A	71629308	G	A	71629308	3	1	602	1	0	0	0	0	1	0	0	0	13753	1232	43	2	764	2	RUFY3	4	71629308	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	68095245	71629308	119524968	32	36172										
DSPP	1834	bcgsc.ca	37	chr4	88536953	88536953	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gcgatagcagtgacagcagcGatagcagtgacagcagtgac	14	9	0	3	rs200486992		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr4:88536953G>A	ENST00000282478.7	+	4	3172	c.3139G>A	c.(3139-3141)Gat>Aat	p.D1047N	DSPP_ENST00000399271.1_Missense_Mutation_p.D1047N|RP11-742B18.1_ENST00000506480.1_RNA			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	1047	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		tgacagcagcgatagcagtga	0.527																																																0													46	57	53					4																	88536953		1537	2773	4310	SO:0001583	missense	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.3139G>A	4.37:g.88536953G>A	ENSP00000282478:p.Asp1047Asn	Somatic		WXS	Illumina HiSeq	Phase_1	A8MUI0|O95815	Missense_Mutation	SNP	ENST00000282478.7	37	CCDS43248.1	.	.	.	.	.	.	.	.	.	.	g	3.566	-0.088574	0.07097	.	.	ENSG00000152591	ENST00000399271;ENST00000282478	D;D	0.88201	-2.35;-2.35	1.51	-1.84	0.07809	.	.	.	.	.	T	0.78355	0.4270	L	0.34521	1.04	0.09310	N	1	B	0.26708	0.157	B	0.08055	0.003	T	0.61637	-0.7022	9	0.38643	T	0.18	.	5.2365	0.15448	0.5606:0.0:0.4394:0.0	.	1047	Q9NZW4	DSPP_HUMAN	N	1047	ENSP00000382213:D1047N;ENSP00000282478:D1047N	ENSP00000282478:D1047N	D	+	1	0	DSPP	88755977	0.032000	0.19561	0.079000	0.20413	0.006000	0.05464	0.451000	0.21779	-0.607000	0.05738	-0.791000	0.03333	GAT		0.527	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		A	88536953	G	A	88536953	3	1	602	1	0	0	0	0	1	0	0	0	4784	1058	37	1	3153	1	DSPP	4	88536953	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	16907645	88536953	102617323	33	36173										
NSUN2	54888	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	6600168	6600168	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	acgtcattgtctggctgtccGgtgctggctgcactctcatt	11	12	3	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr5:6600168G>A	ENST00000264670.6	-	19	2486	c.2175C>T	c.(2173-2175)acC>acT	p.T725T	NSUN2_ENST00000506139.1_Silent_p.T690T|NSUN2_ENST00000539938.1_Silent_p.T489T	NM_017755.5	NP_060225.4	Q08J23	NSUN2_HUMAN	NOP2/Sun RNA methyltransferase family, member 2	725					mitotic nuclear division (GO:0007067)|tRNA methylation (GO:0030488)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|tRNA (cytosine-5-)-methyltransferase activity (GO:0016428)|tRNA binding (GO:0000049)			breast(1)|endometrium(6)|kidney(2)|large_intestine(5)|lung(23)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	41						CTGGCTGTCCGGTGCTGGCTG	0.537																																																0													182	148	160					5																	6600168		2203	4300	6503	SO:0001819	synonymous_variant	54888			AK000310	CCDS3869.1, CCDS54832.1	5p15.32	2014-01-31	2012-06-12		ENSG00000037474	ENSG00000037474		"NOP2/Sun domain containing"	25994	protein-coding gene	gene with protein product	"tRNA methyltransferase 4 homolog (S. cerevisiae)", "Myc-induced SUN-domain-containing protein"	610916	"NOL1/NOP2/Sun domain family, member 2", "NOP2/Sun domain family, member 2", "mental retardation, non-syndromic, autosomal recessive, 5"	MRT5		17071714, 22541559	Standard	NM_017755		Approved	FLJ20303, TRM4, Misu	uc003jdu.3	Q08J23	OTTHUMG00000090455	ENST00000264670.6:c.2175C>T	5.37:g.6600168G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K529|B2RNR4|B3KP09|B4DQW2|G3V1R4|Q9BVN4|Q9H858|Q9NXD9	Silent	SNP	ENST00000264670.6	37	CCDS3869.1																																																																																				0.537	NSUN2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000206902.1	NM_017755		A	6600168	G	A	6600168	2	1	602	1	0	0	0	0	0	0	0	1	10685	1103	39	1		1	NSUN2	5	6600168	Silent	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10		6600168	174315092	34	36174										
FASTKD3	79072	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	7867451	7867451	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tatcctccggggtaaatgttTccaatttttcaccttgaagt	7	9	1	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr5:7867451T>C	ENST00000264669.5	-	2	882	c.746A>G	c.(745-747)gAa>gGa	p.E249G	MTRR_ENST00000341013.6_5'Flank|MTRR_ENST00000440940.2_5'Flank|FASTKD3_ENST00000513658.1_Intron|MTRR_ENST00000502509.1_Intron|MTRR_ENST00000264668.2_5'Flank	NM_024091.3	NP_076996.2	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3	249					cellular respiration (GO:0045333)	mitochondrion (GO:0005739)	poly(A) RNA binding (GO:0044822)|protein kinase activity (GO:0004672)			breast(4)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|liver(2)|lung(11)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	39						GGTAAATGTTTCCAATTTTTC	0.368																																																0													80	85	83					5																	7867451		2203	4300	6503	SO:0001583	missense	79072			AK026927	CCDS3873.1	5p15.31	2008-02-05			ENSG00000124279	ENSG00000124279			28758	protein-coding gene	gene with protein product						12477932	Standard	NM_024091		Approved	MGC5297, FLJ23274	uc003jeb.3	Q14CZ7	OTTHUMG00000131029	ENST00000264669.5:c.746A>G	5.37:g.7867451T>C	ENSP00000264669:p.Glu249Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BVD3	Missense_Mutation	SNP	ENST00000264669.5	37	CCDS3873.1	.	.	.	.	.	.	.	.	.	.	T	17.00	3.275390	0.59649	.	.	ENSG00000124279	ENST00000264669	T	0.29142	1.58	4.85	3.65	0.41850	.	0.369914	0.32055	N	0.006643	T	0.31327	0.0793	M	0.72118	2.19	0.23421	N	0.997719	P	0.40144	0.704	B	0.36719	0.231	T	0.14531	-1.0469	10	0.38643	T	0.18	-20.1472	11.6008	0.51001	0.0:0.0:0.1494:0.8506	.	249	Q14CZ7	FAKD3_HUMAN	G	249	ENSP00000264669:E249G	ENSP00000264669:E249G	E	-	2	0	FASTKD3	7920451	0.203000	0.23435	0.094000	0.20943	0.730000	0.41778	2.603000	0.46266	0.835000	0.34877	0.528000	0.53228	GAA		0.368	FASTKD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253673.1	NM_024091		C	7867451	T	C	7867451	3	2	602	1	0	0	0	0	1	0	0	0	5694	1783	62	3	1266	3	FASTKD3	5	7867451	Missense_Mutation	SNP	T	TCGA-GL-A59R-01A-11D-A26P-10	1267283	7867451	173047809	35	36175										
DNAH5	1767	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	13814812	13814812	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	attgtcaatgttatgaggctCgaaaatgatcttgcagtttg	10	5	2	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr5:13814812C>A	ENST00000265104.4	-	43	7236	c.7132G>T	c.(7132-7134)Gag>Tag	p.E2378*		NM_001369.2	NP_001360.1	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2378	AAA 2. {ECO:0000250}.				cilium movement (GO:0003341)|lateral ventricle development (GO:0021670)|left/right axis specification (GO:0070986)	axonemal dynein complex (GO:0005858)|axoneme (GO:0005930)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(6)|breast(14)|central_nervous_system(4)|cervix(2)|endometrium(23)|haematopoietic_and_lymphoid_tissue(8)|kidney(11)|large_intestine(85)|liver(1)|lung(129)|ovary(16)|pancreas(2)|prostate(5)|skin(48)|stomach(5)|upper_aerodigestive_tract(11)|urinary_tract(8)	378	Lung NSC(4;0.00476)					TTATGAGGCTCGAAAATGATC	0.418									Kartagener syndrome																																							0													102	87	92					5																	13814812		2203	4300	6503	SO:0001587	stop_gained	1767	Familial Cancer Database	Ciliary Dyskinesia, Primary (CILD1 - CILD13), Immotile Cilia Syndrome	AJ132090	CCDS3882.1	5p15.2	2008-07-18	2006-09-04		ENSG00000039139	ENSG00000039139		"Axonemal dyneins"	2950	protein-coding gene	gene with protein product	"dynein heavy chain 5"	603335	"dynein, axonemal, heavy polypeptide 5"			9256245, 11788826	Standard	NM_001369		Approved	Dnahc5, HL1, PCD, CILD3, KTGNR	uc003jfd.2	Q8TE73	OTTHUMG00000090533	ENST00000265104.4:c.7132G>T	5.37:g.13814812C>A	ENSP00000265104:p.Glu2378*	Somatic		WXS	Illumina HiSeq	Phase_I	Q92860|Q96L74|Q9H5S7|Q9HCG9	Nonsense_Mutation	SNP	ENST00000265104.4	37	CCDS3882.1	.	.	.	.	.	.	.	.	.	.	C	49	15.754211	0.99844	.	.	ENSG00000039139	ENST00000265104	.	.	.	5.28	5.28	0.74379	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	.	18.9238	0.92537	0.0:1.0:0.0:0.0	.	.	.	.	X	2378	.	ENSP00000265104:E2378X	E	-	1	0	DNAH5	13867812	1.000000	0.71417	0.972000	0.41901	0.830000	0.47004	7.770000	0.85390	2.468000	0.83385	0.650000	0.86243	GAG		0.418	DNAH5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207057.2	NM_001369		A	13814812	C	A	13814812	4	1	602	1	0	0	0	0	0	1	0	0	4606	893	31	4	6890	4	DNAH5	5	13814812	Nonsense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	5947361	13814812	167100448	36	36176										
ANKHD1	54882	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	139906526	139906526	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ttcttagacttgaaggtgaaGtgactcctaattccttgtca	8	8	2	4			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr5:139906526G>A	ENST00000360839.2	+	27	5108	c.4954G>A	c.(4954-4956)Gtg>Atg	p.V1652M	ANKHD1-EIF4EBP3_ENST00000532219.1_Missense_Mutation_p.V1652M|SNORD45_ENST00000363181.1_RNA|ANKHD1_ENST00000544120.1_Missense_Mutation_p.V35M|ANKHD1_ENST00000297183.6_Missense_Mutation_p.V1652M	NM_017747.2	NP_060217.1	Q8IWZ3	ANKH1_HUMAN	ankyrin repeat and KH domain containing 1	1652						cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			breast(2)|endometrium(8)|kidney(6)|large_intestine(14)|lung(18)|ovary(5)|prostate(2)|skin(3)|urinary_tract(2)	60			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAAGGTGAAGTGACTCCTAA	0.383																																																0													109	103	105					5																	139906526		2203	4300	6503	SO:0001583	missense	54882			AF521882	CCDS4225.1, CCDS43371.1, CCDS43372.1, CCDS75319.1	5q31.3	2013-01-10			ENSG00000131503	ENSG00000131503		"Ankyrin repeat domain containing"	24714	protein-coding gene	gene with protein product		610500				10470851, 11230166, 16098192	Standard	NM_017747		Approved	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085		Q8IWZ3	OTTHUMG00000161610	ENST00000360839.2:c.4954G>A	5.37:g.139906526G>A	ENSP00000354085:p.Val1652Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NH85|Q149P2|Q8IWZ2|Q8WY90|Q96G77|Q96GK0|Q9H2U0|Q9HA95|Q9NWG4|Q9UPR7	Missense_Mutation	SNP	ENST00000360839.2	37	CCDS4225.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	14.27|14.27	2.486213|2.486213	0.44147|0.44147	.|.	.|.	ENSG00000131503|ENSG00000131503;ENSG00000131503;ENSG00000131503;ENSG00000131503;ENSG00000131503;ENSG00000131503;ENSG00000131503;ENSG00000254996	ENST00000435794;ENST00000432301|ENST00000360839;ENST00000297183;ENST00000253810;ENST00000431508;ENST00000536646;ENST00000433049;ENST00000544120;ENST00000532219	.|T;T;T;T;T;T	.|0.24350	.|1.86;1.86;1.86;1.86;1.86;1.86	5.67|5.67	1.83|1.83	0.25207|0.25207	.|.	.|0.707951	.|0.14055	.|N	.|0.344496	T|T	0.14356|0.14356	0.0347|0.0347	N|N	0.22421|0.22421	0.69|0.69	0.20196|0.20196	N|N	0.999927|0.999927	.|B;B;B;B;B	.|0.28026	.|0.198;0.001;0.001;0.004;0.001	.|B;B;B;B;B	.|0.25614	.|0.062;0.001;0.002;0.004;0.002	T|T	0.21381|0.21381	-1.0247|-1.0247	5|10	.|0.38643	.|T	.|0.18	.|.	5.067|5.067	0.14587|0.14587	0.2909:0.0:0.5765:0.1325|0.2909:0.0:0.5765:0.1325	.|.	.|35;82;1652;1652;1652	.|Q8IWG5;Q9H059;E9PF56;Q8IWZ2;Q8IWZ3	.|.;.;.;.;ANKH1_HUMAN	N|M	142;102|1652;1652;1652;308;87;174;35;1652	.|ENSP00000354085:V1652M;ENSP00000297183:V1652M;ENSP00000393204:V308M;ENSP00000390034:V174M;ENSP00000437687:V35M;ENSP00000432016:V1652M	.|ENSP00000432016:V1652M	S|V	+|+	2|1	0|0	ANKHD1|ANKHD1-EIF4EBP3;ANKHD1	139886710|139886710	0.881000|0.881000	0.30235|0.30235	0.462000|0.462000	0.27118|0.27118	0.979000|0.979000	0.70002|0.70002	0.839000|0.839000	0.27586|0.27586	0.057000|0.057000	0.16193|0.16193	-0.145000|-0.145000	0.13849|0.13849	AGT|GTG		0.383	ANKHD1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000251672.1	NM_017747		A	139906526	G	A	139906526	3	1	602	1	0	0	0	0	1	0	0	0	628	1029	36	2	5166	2	ANKHD1	5	139906526	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	126091714	139906526	41008734	37	36177										
PCDHB10	56126	bcgsc.ca	37	chr5	140573408	140573411	+	Frame_Shift_Del	DEL	CACC	CACC	-													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	caccgtcactgacttggggaCacccaggctgaaaaccgagc							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	CACC	CACC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr5:140573408_140573411delCACC	ENST00000239446.4	+	1	1467_1470	c.1283_1286delCACC	c.(1282-1287)acacccfs	p.TP428fs		NM_018930.3	NP_061753.1	Q9UN67	PCDBA_HUMAN	protocadherin beta 10	428	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(14)|lung(30)|ovary(4)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	76			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GACTTGGGGACACCCAGGCTGAAA	0.539																																																0																																										SO:0001589	frameshift_variant	56126			AF152489	CCDS4252.1	5q31.3	2010-06-15			ENSG00000120324	ENSG00000120324		"Cadherins / Protocadherins : Clustered"	8681	other	protocadherin		606336				10380929	Standard	NM_018930		Approved		uc003lix.3	Q9UN67	OTTHUMG00000129626	ENST00000239446.4:c.1283_1286delCACC	5.37:g.140573408_140573411delCACC	ENSP00000239446:p.Thr428fs	Somatic		WXS	Illumina HiSeq	Phase_1	Q96T99	Frame_Shift_Del	DEL	ENST00000239446.4	37	CCDS4252.1																																																																																				0.539	PCDHB10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251821.1	NM_018930		-	140573411	CACC	-	140573408	7	5	602	1	0	1	0	1	0	0	0	0	11542	478	17	0	1285	0	PCDHB10	5	140573408	Frame_Shift_Del	DEL	CACC	TCGA-GL-A59R-01A-11D-A26P-10	666882	140573408	40341852	38	36178	280	3								
PCDHB10	56126	hgsc.bcm.edu	37	chr5	140573409	140573413	+	Frame_Shift_Del	DEL	ACCCA	ACCCA	-													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	accgtcactgacttggggacAcccaggctgaaaaccgagca							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	ACCCA	ACCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr5:140573409_140573413delACCCA	ENST00000239446.4	+	1	1468_1472	c.1284_1288delACCCA	c.(1282-1290)acacccaggfs	p.PR429fs		NM_018930.3	NP_061753.1	Q9UN67	PCDBA_HUMAN	protocadherin beta 10	429	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(14)|lung(30)|ovary(4)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	76			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACTTGGGGACACCCAGGCTGAAAAC	0.532																																																0																																										SO:0001589	frameshift_variant	56126			AF152489	CCDS4252.1	5q31.3	2010-06-15			ENSG00000120324	ENSG00000120324		"Cadherins / Protocadherins : Clustered"	8681	other	protocadherin		606336				10380929	Standard	NM_018930		Approved		uc003lix.3	Q9UN67	OTTHUMG00000129626	ENST00000239446.4:c.1284_1288delACCCA	5.37:g.140573409_140573413delACCCA	ENSP00000239446:p.Pro429fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q96T99	Frame_Shift_Del	DEL	ENST00000239446.4	37	CCDS4252.1																																																																																				0.532	PCDHB10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251821.1	NM_018930		-	140573413	ACCCA	-	140573409	7	5	602	1	0	1	0	1	0	0	0	0	11542	146	6	0	1286	0	PCDHB10	5	140573409	Frame_Shift_Del	DEL	ACCCA	TCGA-GL-A59R-01A-11D-A26P-10	1	140573409	40341851	39	36179	280	3								
PCDHB10	56126	bcgsc.ca	37	chr5	140573413	140573413	+	Missense_Mutation	SNP	A	A	T													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tcactgacttggggacacccAggctgaaaaccgagcacaac							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr5:140573413A>T	ENST00000239446.4	+	1	1472	c.1288A>T	c.(1288-1290)Agg>Tgg	p.R430W		NM_018930.3	NP_061753.1	Q9UN67	PCDBA_HUMAN	protocadherin beta 10	430	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(14)|lung(30)|ovary(4)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	76			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGGGACACCCAGGCTGAAAAC	0.532																																																0													94	91	92					5																	140573413		2203	4300	6503	SO:0001583	missense	56126			AF152489	CCDS4252.1	5q31.3	2010-06-15			ENSG00000120324	ENSG00000120324		"Cadherins / Protocadherins : Clustered"	8681	other	protocadherin		606336				10380929	Standard	NM_018930		Approved		uc003lix.3	Q9UN67	OTTHUMG00000129626	ENST00000239446.4:c.1288A>T	5.37:g.140573413A>T	ENSP00000239446:p.Arg430Trp	Somatic		WXS	Illumina HiSeq	Phase_1	Q96T99	Missense_Mutation	SNP	ENST00000239446.4	37	CCDS4252.1	.	.	.	.	.	.	.	.	.	.	A	14.59	2.581987	0.46006	.	.	ENSG00000120324	ENST00000239446	T	0.53206	0.63	3.22	3.22	0.36961	Cadherin (4);Cadherin-like (1);	.	.	.	.	T	0.76212	0.3956	H	0.96833	3.89	0.20489	N	0.999896	D	0.89917	1.0	D	0.87578	0.998	T	0.65952	-0.6043	9	0.72032	D	0.01	.	8.63	0.33913	0.6649:0.3351:0.0:0.0	.	430	Q9UN67	PCDBA_HUMAN	W	430	ENSP00000239446:R430W	ENSP00000239446:R430W	R	+	1	2	PCDHB10	140553597	0.014000	0.17966	0.985000	0.45067	0.725000	0.41563	1.685000	0.37659	1.485000	0.48380	0.449000	0.29647	AGG		0.532	PCDHB10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251821.1	NM_018930		T	140573413	A	T	140573413	3	4	602	1	0	0	0	0	1	0	0	0	11542	179	7	5	1290	5	PCDHB10	5	140573413	Missense_Mutation	SNP	A	TCGA-GL-A59R-01A-11D-A26P-10	4	140573413	40341847	40	36180	280	3								
PHACTR1	221692	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	13230366	13230366	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gaagaaaagaacatccttccCaggcagacggatgaggagcg	13	9	0	4			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr6:13230366C>A	ENST00000379350.1	+	9	1461	c.1332C>A	c.(1330-1332)ccC>ccA	p.P444P	PHACTR1_ENST00000457702.2_Silent_p.P299P|PHACTR1_ENST00000332995.7_Silent_p.P444P|PHACTR1_ENST00000379345.2_Intron			Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	444					actin cytoskeleton reorganization (GO:0031532)|actomyosin structure organization (GO:0031032)|cell motility (GO:0048870)|stress fiber assembly (GO:0043149)	cell junction (GO:0030054)|cytosol (GO:0005829)|nucleus (GO:0005634)|synapse (GO:0045202)	actin binding (GO:0003779)|protein phosphatase inhibitor activity (GO:0004864)			breast(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(10)|ovary(1)|skin(2)|upper_aerodigestive_tract(3)	26	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			ACATCCTTCCCAGGCAGACGG	0.597																																																0													34	35	35					6																	13230366		2041	4189	6230	SO:0001819	synonymous_variant	221692			AB051520	CCDS75401.1	6p23	2013-01-24	2004-05-20	2004-05-21	ENSG00000112137	ENSG00000112137		"Phosphatase and actin regulators"	20990	protein-coding gene	gene with protein product		608723	"RPEL repeat containing 1"	RPEL1		11214970, 15107502	Standard	NM_030948		Approved	KIAA1733, dJ257A7.2	uc010jpc.3	Q9C0D0	OTTHUMG00000014270	ENST00000379350.1:c.1332C>A	6.37:g.13230366C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1V2|Q3MJ93|Q5JSJ2	Silent	SNP	ENST00000379350.1	37		.	.	.	.	.	.	.	.	.	.	C	9.674	1.147561	0.21288	.	.	ENSG00000112137	ENST00000415087	T	0.35421	1.31	5.47	0.497	0.16902	.	0.000000	0.85682	D	0.000000	T	0.26738	0.0654	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.07121	-1.0789	7	0.49607	T	0.09	-19.1306	8.3007	0.32012	0.0:0.5638:0.2478:0.1885	.	.	.	.	Q	279	ENSP00000395948:P279Q	ENSP00000395948:P279Q	P	+	2	0	PHACTR1	13338345	0.809000	0.29036	0.788000	0.31933	0.996000	0.88848	0.088000	0.14979	-0.127000	0.11661	0.557000	0.71058	CCA		0.597	PHACTR1-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000039876.1	XM_166420		A	13230366	C	A	13230366	2	1	602	1	0	0	0	0	0	0	0	1	11816	581	21	4		4	PHACTR1	6	13230366	Silent	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10		13230366	157884701	41	36181										
DPCR1	135656	ucsc.edu;bcgsc.ca	37	chr6	30917934	30917934	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	agcctacagaaaatggagacAggactcctttggccaatgag	11	9	0	3			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr6:30917934A>G	ENST00000462446.1	+	2	1721	c.1693A>G	c.(1693-1695)Agg>Ggg	p.R565G	DPCR1_ENST00000304311.2_5'UTR|HCG21_ENST00000419481.1_RNA			Q3MIW9	DPCR1_HUMAN	diffuse panbronchiolitis critical region 1	117						integral component of membrane (GO:0016021)				endometrium(1)|kidney(2)|large_intestine(3)|lung(3)|pancreas(1)	10						AAATGGAGACAGGACTCCTTT	0.502																																																0													78	76	77					6																	30917934		692	1591	2283	SO:0001583	missense	135656			AB064272	CCDS4692.1, CCDS4692.2	6p21.32	2008-02-05			ENSG00000168631	ENSG00000168631			21666	protein-coding gene	gene with protein product		613928				12185533, 10677310	Standard	NM_080870		Approved	PBLT, bCX105N19.6	uc003nsg.2	Q3MIW9	OTTHUMG00000031104	ENST00000462446.1:c.1693A>G	6.37:g.30917934A>G	ENSP00000417182:p.Arg565Gly	Somatic		WXS	Illumina HiSeq		C9IZC0|Q658M7|Q8WYN2	Missense_Mutation	SNP	ENST00000462446.1	37	CCDS4692.2	.	.	.	.	.	.	.	.	.	.	-	7.360	0.624745	0.14193	.	.	ENSG00000168631	ENST00000462446	T	0.47869	0.83	1.97	-3.94	0.04130	.	.	.	.	.	T	0.15003	0.0362	L	0.47716	1.5	0.09310	N	0.999999	B	0.06786	0.001	B	0.10450	0.005	T	0.31280	-0.9949	9	0.23891	T	0.37	.	8.1341	0.31043	0.5066:0.0:0.4934:0.0	.	565	E9PEI6	.	G	565	ENSP00000417182:R565G	ENSP00000417182:R565G	R	+	1	2	DPCR1	31025913	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.739000	0.04866	-0.979000	0.03529	0.000000	0.15137	AGG		0.502	DPCR1-001	NOVEL	not_organism_supported|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000076173.3	NM_080870		G	30917934	A	G	30917934	3	3	602	1	0	0	0	0	1	0	0	0	4714	179	7	3	1699	3	DPCR1	6	30917934	Missense_Mutation	SNP	A	TCGA-GL-A59R-01A-11D-A26P-10	17687568	30917934	140197133	42	36182										
MUC21	394263	bcgsc.ca	37	chr6	30954603	30954603	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	accaactctgagtccagaacGacctccaatggggctggcac	10	14	1	2	rs532108366	byFrequency	TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr6:30954603G>A	ENST00000376296.3	+	2	892	c.651G>A	c.(649-651)acG>acA	p.T217T	MUC21_ENST00000486149.2_5'UTR	NM_001010909.2	NP_001010909.2	Q5SSG8	MUC21_HUMAN	mucin 21, cell surface associated	217	28 X 15 AA approximate tandem repeats.|Ser-rich.				cellular protein metabolic process (GO:0044267)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-substrate adhesion (GO:0010812)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(4)|breast(1)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(3)|prostate(4)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	42						AGTCCAGAACGACCTCCAATG	0.617													G|||	17	0.00339457	0.0023	0.0101	5008	,	,		21494	0.003		0.003	False		,,,				2504	0.001															0													153	151	152					6																	30954603		2203	4300	6503	SO:0001819	synonymous_variant	394263			AK056612	CCDS34388.1	6p21.33	2008-05-14	2008-05-14	2008-05-14	ENSG00000204544	ENSG00000204544		"Mucins"	21661	protein-coding gene	gene with protein product	"epiglycanin"		"chromosome 6 open reading frame 205"	C6orf205		17977904	Standard	NM_001010909		Approved	bCX31G15.2	uc003nsh.2	Q5SSG8	OTTHUMG00000031216	ENST00000376296.3:c.651G>A	6.37:g.30954603G>A		Somatic		WXS	Illumina HiSeq	Phase_1	B0UZT7|B4DQ55|C9JMK2|D9N007|Q0VGF1|Q3B7T2|Q5SS94|Q6UXC5	Silent	SNP	ENST00000376296.3	37	CCDS34388.1																																																																																				0.617	MUC21-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000128579.3	NM_001010909		A	30954603	G	A	30954603	2	1	602	1	0	0	0	0	0	0	0	1	9984	1045	37	1		1	MUC21	6	30954603	Silent	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	36669	30954603	140160464	43	36183										
DOM3Z	1797	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	31938842	31938842	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ggctgccagctgccagccctCctgccgctcatacggtgtcg	12	17	1	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr6:31938842C>T	ENST00000375349.3	-	3	850	c.439G>A	c.(439-441)Gag>Aag	p.E147K	DXO_ENST00000478221.1_5'UTR|STK19_ENST00000375333.2_5'Flank|DXO_ENST00000337523.5_Missense_Mutation_p.E147K|STK19_ENST00000375331.2_5'Flank|DXO_ENST00000375356.3_Missense_Mutation_p.E147K			O77932	DXO_HUMAN	decapping exoribonuclease	147					metabolic process (GO:0008152)|mRNA catabolic process (GO:0006402)|nuclear mRNA surveillance (GO:0071028)|nucleic acid phosphodiester bond hydrolysis (GO:0090305)|RNA destabilization (GO:0050779)	nucleus (GO:0005634)	5'-3' exonuclease activity (GO:0008409)|magnesium ion binding (GO:0000287)|mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|RNA pyrophosphohydrolase activity (GO:0034353)										TGCCAGCCCTCCTGCCGCTCA	0.642																																																0													81	91	88					6																	31938842		1508	2708	4216	SO:0001583	missense	1797			AF059252	CCDS4732.1	6p21.3	2013-09-11	2013-09-11	2013-09-11	ENSG00000204348	ENSG00000204348			2992	protein-coding gene	gene with protein product		605996	"DOM-3 (C. elegans) homolog Z", "dom-3 homolog Z (C. elegans)"	DOM3Z		9799600, 23523372	Standard	NM_005510		Approved		uc003nyp.1	O77932	OTTHUMG00000031272	ENST00000375349.3:c.439G>A	6.37:g.31938842C>T	ENSP00000364498:p.Glu147Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A2CER3|B0UZ80|O15004|O78127|O78128|Q5ST60|Q6IPZ2|Q9NPK4	Missense_Mutation	SNP	ENST00000375349.3	37	CCDS4732.1	.	.	.	.	.	.	.	.	.	.	C	24.8	4.568158	0.86439	.	.	ENSG00000204348	ENST00000337523;ENST00000375349;ENST00000375356	T;T;T	0.19532	2.14;2.14;2.14	4.91	4.03	0.46877	.	0.054459	0.64402	D	0.000001	T	0.24547	0.0595	L	0.53249	1.67	0.49483	D	0.999795	P;D	0.76494	0.951;0.999	P;P	0.62298	0.487;0.9	T	0.01591	-1.1317	10	0.29301	T	0.29	-10.6299	14.2192	0.65815	0.0:0.849:0.151:0.0	.	147;147	F8WC68;O77932	.;DOM3Z_HUMAN	K	147	ENSP00000337759:E147K;ENSP00000364498:E147K;ENSP00000364505:E147K	ENSP00000337759:E147K	E	-	1	0	DOM3Z	32046821	1.000000	0.71417	0.983000	0.44433	0.793000	0.44817	7.160000	0.77495	1.266000	0.44231	-0.305000	0.09177	GAG		0.642	DXO-006	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076592.3			T	31938842	C	T	31938842	3	4	602	1	0	0	0	0	1	0	0	0	4707	864	30	2	771	2	DOM3Z	6	31938842	Missense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	984239	31938842	139176225	44	36184										
PGK2	5232	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	49753793	49753793	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	agtgtctccaccccctataaCagtgatgcagcccttggaag	9	13	1	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr6:49753793C>G	ENST00000304801.3	-	1	1260	c.1108G>C	c.(1108-1110)Gtt>Ctt	p.V370L		NM_138733.4	NP_620061.2	P07205	PGK2_HUMAN	phosphoglycerate kinase 2	370					glycolytic process (GO:0006096)|phosphorylation (GO:0016310)|sperm motility (GO:0030317)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|sperm fibrous sheath (GO:0035686)	ATP binding (GO:0005524)|phosphoglycerate kinase activity (GO:0004618)			autonomic_ganglia(1)|endometrium(3)|large_intestine(12)|lung(25)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	47	Lung NSC(77;0.0402)					CCCCCTATAACAGTGATGCAG	0.498																																																0													155	152	153					6																	49753793		2203	4300	6503	SO:0001583	missense	5232			K03019	CCDS4930.1	6p12.3	2012-09-20		2002-04-19	ENSG00000170950	ENSG00000170950			8898	protein-coding gene	gene with protein product		172270				3839763, 3453121	Standard	NM_138733		Approved	PGKPS, PGK-2	uc003ozu.3	P07205	OTTHUMG00000014824	ENST00000304801.3:c.1108G>C	6.37:g.49753793C>G	ENSP00000305995:p.Val370Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6Y8|Q9H107	Missense_Mutation	SNP	ENST00000304801.3	37	CCDS4930.1	.	.	.	.	.	.	.	.	.	.	C	13.46	2.243598	0.39697	.	.	ENSG00000170950	ENST00000304801	D	0.93712	-3.27	4.81	2.39	0.29439	Phosphoglycerate kinase, C-terminal (1);	0.100392	0.64402	D	0.000003	D	0.84347	0.5452	L	0.56199	1.76	0.22719	N	0.998819	B	0.14805	0.011	B	0.28553	0.091	T	0.79105	-0.1940	10	0.87932	D	0	-12.902	7.2513	0.26150	0.0:0.2024:0.0:0.7976	.	370	P07205	PGK2_HUMAN	L	370	ENSP00000305995:V370L	ENSP00000305995:V370L	V	-	1	0	PGK2	49861752	1.000000	0.71417	0.998000	0.56505	0.921000	0.55340	3.605000	0.54088	0.407000	0.25591	-0.295000	0.09555	GTT		0.498	PGK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040872.1			G	49753793	C	G	49753793	3	3	602	1	0	0	0	0	1	0	0	0	11798	478	17	4	149	4	PGK2	6	49753793	Missense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	17814951	49753793	121361274	45	36185										
MDN1	23195	broad.mit.edu	37	chr6	90466095	90466095	+	Frame_Shift_Del	DEL	T	T	-													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tgctttctaattcttctacaTaaagttctgtgaacctgtaa							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr6:90466095delT	ENST00000369393.3	-	20	2832	c.2717delA	c.(2716-2718)tatfs	p.Y906fs	MDN1_ENST00000428876.1_Frame_Shift_Del_p.Y906fs			Q9NU22	MDN1_HUMAN	MDN1, midasin homolog (yeast)	906					ATP catabolic process (GO:0006200)|protein complex assembly (GO:0006461)	cytoplasm (GO:0005737)|intermediate filament cytoskeleton (GO:0045111)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|unfolded protein binding (GO:0051082)			NS(1)|breast(13)|central_nervous_system(2)|cervix(3)|endometrium(22)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(52)|liver(1)|lung(83)|ovary(10)|pancreas(1)|prostate(10)|skin(6)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	218		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)		TTCTTCTACATAAAGTTCTGT	0.299																																																0													137	136	136					6																	90466095		2203	4296	6499	SO:0001589	frameshift_variant	23195			AF503925	CCDS5024.1	6q15	2014-01-28			ENSG00000112159	ENSG00000112159			18302	protein-coding gene	gene with protein product						9205841, 12102729	Standard	XM_005248699		Approved	KIAA0301	uc003pnn.1	Q9NU22	OTTHUMG00000015213	ENST00000369393.3:c.2717delA	6.37:g.90466095delT	ENSP00000358400:p.Tyr906fs	Somatic		WXS	Illumina HiSeq	Phase_I	O15019|Q5T794	Frame_Shift_Del	DEL	ENST00000369393.3	37	CCDS5024.1																																																																																				0.299	MDN1-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041514.2			-	90466095	T	-	90466095	7	5	602	1	0	1	0	1	0	0	0	0	9422	1406	49	0	14405	0	MDN1	6	90466095	Frame_Shift_Del	DEL	T	TCGA-GL-A59R-01A-11D-A26P-10	40712302	90466095	80648972	46	36186										
TRAF3IP2	10758	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	111912891	111912891	+	Frame_Shift_Del	DEL	A	A	-													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	cattgattacgtttttccatAaatgaaaactgatgctctgc							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr6:111912891delA	ENST00000340026.6	-	3	1020	c.426delT	c.(424-426)tttfs	p.F142fs	TRAF3IP2_ENST00000359831.4_Frame_Shift_Del_p.F133fs|TRAF3IP2-AS1_ENST00000532353.1_RNA|TRAF3IP2_ENST00000368761.5_Frame_Shift_Del_p.F133fs|TRAF3IP2_ENST00000392556.4_5'UTR			O43734	CIKS_HUMAN	TRAF3 interacting protein 2	142	Mediates interaction with TRAF6.				B cell apoptotic process (GO:0001783)|humoral immune response (GO:0006959)|immunoglobulin secretion (GO:0048305)|intracellular signal transduction (GO:0035556)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)					central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(3)|lung(5)|ovary(2)|prostate(1)|urinary_tract(1)	18		all_cancers(87;7.87e-06)|Acute lymphoblastic leukemia(125;3.61e-09)|all_hematologic(75;2.63e-07)|all_epithelial(87;0.0024)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.033)|all cancers(137;0.0412)|Epithelial(106;0.0732)		GTTTTTCCATAAATGAAAACT	0.512																																																0													51	50	50					6																	111912891		2203	4300	6503	SO:0001589	frameshift_variant	10758			AF136405	CCDS5093.1, CCDS55049.1, CCDS55050.1	6q21	2008-09-05	2002-06-20	2005-04-13	ENSG00000056972	ENSG00000056972			1343	protein-coding gene	gene with protein product		607043	"chromosome 6 open reading frame 5", "chromosome 6 open reading frame 2"	C6orf4, C6orf5, C6orf6, C6orf2		10962033, 10962024	Standard	NR_028338		Approved	DKFZP586G0522, ACT1, CIKS	uc003pvf.4	O43734	OTTHUMG00000015379	ENST00000340026.6:c.426delT	6.37:g.111912891delA	ENSP00000345984:p.Phe142fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAY9|E1P555|Q5R3A3|Q7Z6Q1|Q7Z6Q2|Q7Z6Q3|Q9H5W2|Q9H6Y3|Q9NS14|Q9UG72	Frame_Shift_Del	DEL	ENST00000340026.6	37																																																																																					0.512	TRAF3IP2-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000041841.2			-	111912891	A	-	111912891	7	5	602	1	0	1	0	1	0	0	0	0	16453	359	13	0	1330	0	TRAF3IP2	6	111912891	Frame_Shift_Del	DEL	A	TCGA-GL-A59R-01A-11D-A26P-10	21446796	111912891	59202176	47	36187										
ABCA13	154664	bcgsc.ca	37	chr7	48685099	48685099	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	agtcaccacacacatcacttGcccatctgagcactaaagaa	5	14	3	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr7:48685099G>T	ENST00000435803.1	+	62	15192	c.15168G>T	c.(15166-15168)ttG>ttT	p.L5056F	ABCA13_ENST00000544596.1_Missense_Mutation_p.L786F	NM_152701.3	NP_689914.2	Q86UQ4	ABCAD_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 13	5056					transport (GO:0006810)	integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)			breast(13)|central_nervous_system(8)|endometrium(25)|haematopoietic_and_lymphoid_tissue(4)|kidney(20)|large_intestine(51)|lung(100)|ovary(5)|pancreas(2)|prostate(22)|skin(10)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(4)	270						CACATCACTTGCCCATCTGAG	0.393																																																0													59	58	58					7																	48685099		2040	4209	6249	SO:0001583	missense	154664			AY204751	CCDS47584.1	7p12.3	2012-03-14			ENSG00000179869	ENSG00000179869		"ATP binding cassette transporters / subfamily A"	14638	protein-coding gene	gene with protein product		607807				12697998	Standard	NM_152701		Approved	FLJ33876, FLJ33951	uc003toq.2	Q86UQ4	OTTHUMG00000155840	ENST00000435803.1:c.15168G>T	7.37:g.48685099G>T	ENSP00000411096:p.Leu5056Phe	Somatic		WXS	Illumina HiSeq	Phase_1	K9LC76|K9LC79|K9LCX7|K9LDK8|K9LDY4|Q6ZTT7|Q86WI2|Q8N248	Missense_Mutation	SNP	ENST00000435803.1	37	CCDS47584.1	.	.	.	.	.	.	.	.	.	.	G	15.14	2.745617	0.49151	.	.	ENSG00000179869	ENST00000435803;ENST00000411975;ENST00000544596	D;D;D	0.88201	-2.27;-2.35;-2.31	5.43	2.0	0.26442	.	1.053260	0.07599	N	0.923389	D	0.85575	0.5728	N	0.22421	0.69	0.09310	N	1	P;D;D	0.59767	0.835;0.96;0.986	P;P;P	0.53649	0.499;0.731;0.708	T	0.74112	-0.3770	10	0.45353	T	0.12	.	5.0829	0.14666	0.2265:0.1633:0.6102:0.0	.	786;2758;5056	F5H7B7;Q86UQ4-3;Q86UQ4	.;.;ABCAD_HUMAN	F	5056;829;786	ENSP00000411096:L5056F;ENSP00000391042:L829F;ENSP00000442634:L786F	ENSP00000391042:L829F	L	+	3	2	ABCA13	48655645	0.774000	0.28592	0.024000	0.17045	0.012000	0.07955	0.619000	0.24388	0.490000	0.27771	0.655000	0.94253	TTG		0.393	ABCA13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341964.2	NM_152701		T	48685099	G	T	48685099	3	4	602	1	0	0	0	0	1	0	0	0	31	1310	46	4	15243	4	ABCA13	7	48685099	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10		48685099	110453564	48	36188										
GIGYF1	64599	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	100279805	100279805	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	caggcaggaacggatataatCgtggacatcatagggggatt	14	6	1	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr7:100279805C>T	ENST00000275732.5	-	22	4024	c.2815G>A	c.(2815-2817)Gat>Aat	p.D939N	GIGYF1_ENST00000471340.2_5'Flank	NM_022574.4	NP_072096.2	O75420	PERQ1_HUMAN	GRB10 interacting GYF protein 1	939					insulin-like growth factor receptor signaling pathway (GO:0048009)					central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(6)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	23	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					CGGATATAATCGTGGACATCA	0.597																																																0													74	79	77					7																	100279805		2203	4300	6503	SO:0001583	missense	64599			AF053356	CCDS34708.1	7q22	2008-02-11	2008-02-11	2008-02-11	ENSG00000146830	ENSG00000146830			9126	protein-coding gene	gene with protein product	"GYF domain containing 1"	612064	"PERQ amino acid rich, with GYF domain 1"	PERQ1		9799793, 12771153	Standard	NM_022574		Approved	GYF1	uc003uwg.1	O75420	OTTHUMG00000157036	ENST00000275732.5:c.2815G>A	7.37:g.100279805C>T	ENSP00000275732:p.Asp939Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q6Y7W7|Q8WZ38	Missense_Mutation	SNP	ENST00000275732.5	37	CCDS34708.1	.	.	.	.	.	.	.	.	.	.	.	17.25	3.341351	0.60963	.	.	ENSG00000146830	ENST00000539430;ENST00000275732	D	0.84223	-1.82	5.14	5.14	0.70334	.	0.053328	0.64402	D	0.000001	T	0.78748	0.4332	L	0.59912	1.85	0.51482	D	0.999924	P	0.47409	0.895	B	0.25506	0.061	D	0.83414	0.0029	10	0.59425	D	0.04	-21.0708	16.146	0.81569	0.0:1.0:0.0:0.0	.	939	O75420	PERQ1_HUMAN	N	658;939	ENSP00000275732:D939N	ENSP00000275732:D939N	D	-	1	0	GIGYF1	100117741	1.000000	0.71417	1.000000	0.80357	0.932000	0.56968	4.780000	0.62382	2.672000	0.90937	0.555000	0.69702	GAT		0.597	GIGYF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347205.2	NM_022574		T	100279805	C	T	100279805	3	4	602	1	0	0	0	0	1	0	0	0	6384	884	31	1	304	1	GIGYF1	7	100279805	Missense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	51594706	100279805	58858858	49	36189										
FOXP2	93986	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	114302186	114302186	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tagaaaatgttaaaggagcaGtatggactgtggatgaagta	13	2	0	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr7:114302186G>A	ENST00000393494.2	+	14	1993	c.1714G>A	c.(1714-1716)Gta>Ata	p.V572I	FOXP2_ENST00000393491.3_Missense_Mutation_p.V387I|FOXP2_ENST00000350908.4_Missense_Mutation_p.V572I|FOXP2_ENST00000393489.3_Missense_Mutation_p.V480I|FOXP2_ENST00000393500.3_3'UTR|FOXP2_ENST00000403559.4_Missense_Mutation_p.V589I|FOXP2_ENST00000393498.2_Missense_Mutation_p.V551I|FOXP2_ENST00000408937.3_Missense_Mutation_p.V597I			O15409	FOXP2_HUMAN	forkhead box P2	572					camera-type eye development (GO:0043010)|caudate nucleus development (GO:0021757)|cerebellum development (GO:0021549)|cerebral cortex development (GO:0021987)|growth (GO:0040007)|lung alveolus development (GO:0048286)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of epithelial cell proliferation involved in lung morphogenesis (GO:0060501)|positive regulation of mesenchymal cell proliferation (GO:0002053)|post-embryonic development (GO:0009791)|putamen development (GO:0021758)|righting reflex (GO:0060013)|skeletal muscle tissue development (GO:0007519)|smooth muscle tissue development (GO:0048745)|vocal learning (GO:0042297)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(3)|endometrium(7)|kidney(4)|large_intestine(7)|lung(22)|ovary(4)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	52						TAAAGGAGCAGTATGGACTGT	0.393																																																0													139	129	133					7																	114302186		2203	4300	6503	SO:0001583	missense	93986			U80741	CCDS5760.1, CCDS5761.1, CCDS43635.1, CCDS5761.2, CCDS55154.1	7q31	2008-07-18			ENSG00000128573	ENSG00000128573		"Forkhead boxes"	13875	protein-coding gene	gene with protein product	"trinucleotide repeat containing 10", "forkhead/winged-helix transcription factor", "speech and language disorder 1", "CAG repeat protein 44"	605317		TNRC10, SPCH1		11586359, 9225980	Standard	NM_014491		Approved	CAGH44	uc003vgz.3	O15409	OTTHUMG00000023131	ENST00000393494.2:c.1714G>A	7.37:g.114302186G>A	ENSP00000377132:p.Val572Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A0AUV6|A4D0U8|A6NNW4|B4DLD9|Q6ZND1|Q75MJ3|Q8IZE0|Q8N0W2|Q8N6B7|Q8N6B8|Q8NFQ1|Q8NFQ2|Q8NFQ3|Q8NFQ4|Q8TD74	Missense_Mutation	SNP	ENST00000393494.2	37	CCDS5760.1	.	.	.	.	.	.	.	.	.	.	G	20.3	3.967741	0.74131	.	.	ENSG00000128573	ENST00000393494;ENST00000408937;ENST00000403559;ENST00000350908;ENST00000393498;ENST00000393489;ENST00000393491	D;D;D;D;D;D	0.95447	-3.71;-3.71;-3.71;-3.71;-3.71;-3.71	5.65	5.65	0.86999	Winged helix-turn-helix transcription repressor DNA-binding (1);Transcription factor, fork head (3);	0.000000	0.85682	D	0.000000	D	0.97692	0.9243	M	0.76838	2.35	0.80722	D	1	P;P;D;P;P	0.67145	0.92;0.92;0.996;0.92;0.902	D;D;D;D;D	0.70227	0.935;0.956;0.968;0.935;0.927	D	0.97929	1.0319	10	0.87932	D	0	.	20.0965	0.97849	0.0:0.0:1.0:0.0	.	571;589;387;572;597	B7ZLK5;B4DLD9;Q0PRL4;O15409;O15409-4	.;.;.;FOXP2_HUMAN;.	I	572;597;589;572;549;480;387	ENSP00000377132:V572I;ENSP00000386200:V597I;ENSP00000385069:V589I;ENSP00000265436:V572I;ENSP00000377129:V480I;ENSP00000377130:V387I	ENSP00000265436:V572I	V	+	1	0	FOXP2	114089422	1.000000	0.71417	0.998000	0.56505	0.998000	0.95712	9.813000	0.99286	2.824000	0.97209	0.655000	0.94253	GTA		0.393	FOXP2-014	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317366.1	NM_014491		A	114302186	G	A	114302186	3	1	602	1	0	0	0	0	1	0	0	0	6034	1029	36	2	1931	2	FOXP2	7	114302186	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	14022381	114302186	44836477	50	36190										
MET	4233	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	116415114	116415115	+	Missense_Mutation	DNP	GT	GT	AG													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tccaggcagtgcagcatgtaGtgattgggcccagtagcctg							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr7:116415114_116415115GT>AG	ENST00000318493.6	+	15	3449_3450	c.3262_3263GT>AG	c.(3262-3264)GTg>AGg	p.V1088R	MET_ENST00000539704.1_5'Flank|MET_ENST00000397752.3_Missense_Mutation_p.V1070R			Q9NWH9	SLTM_HUMAN	MET proto-oncogene, receptor tyrosine kinase	0					apoptotic process (GO:0006915)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)	p.V1088E(1)		NS(10)|breast(4)|central_nervous_system(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|kidney(25)|large_intestine(8)|liver(3)|lung(70)|ovary(10)|pleura(2)|prostate(4)|skin(5)|stomach(6)|testis(1)|thyroid(4)|upper_aerodigestive_tract(64)|urinary_tract(3)	233	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			GCAGCATGTAGTGATTGGGCCC	0.431			Mis		"papillary renal, head-neck squamous cell "	papillary renal			Hereditary Papillary Renal Carcinoma (type 1)																														Dom	yes	Familial Papillary Renal Cancer	7	7q31	4233	met proto-oncogene (hepatocyte growth factor receptor)		E	1	Substitution - Missense(1)	kidney(1)																																								SO:0001583	missense	4233	Familial Cancer Database	HPRC, Hereditary Papillary Renal Cell Cancer	M35073	CCDS43636.1, CCDS47689.1	7q31	2014-09-17	2014-06-26		ENSG00000105976	ENSG00000105976	2.7.10.1		7029	protein-coding gene	gene with protein product	"hepatocyte growth factor receptor"	164860	"met proto-oncogene"			1846706, 1611909	Standard	NM_001127500		Approved	HGFR, RCCP2	uc010lkh.3	P08581	OTTHUMG00000023299	Exception_encountered	7.37:g.116415114_116415115delinsAG	ENSP00000317272:p.Val1088Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5V8|B2RTX3|Q2VPK7|Q52MB3|Q658J7|Q6ZNF2|Q86TK6|Q9H7C3|Q9H8U9	Missense_Mutation	DNP	ENST00000318493.6	37	CCDS47689.1																																																																																				0.431	MET-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059620.3			AG	116415115	GT	AG	116415114	3	1	602	1	0	0	0	0	1	0	0	0	9492	1029	36	2	3316	2	MET	7	116415114	Missense_Mutation	DNP	GT	TCGA-GL-A59R-01A-11D-A26P-10	2112928	116415114	42723549	51	36191										
AASS	10157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	121717970	121717971	+	Missense_Mutation	DNP	CA	CA	AG													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tgaaaagccattgatgtcccCataagccacaagatcaatcg							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr7:121717970_121717971CA>AG	ENST00000393376.1	-	22	2678_2679	c.2583_2584TG>CT	c.(2581-2586)taTGgg>taCTgg	p.G862W	AASS_ENST00000473553.1_5'UTR|AASS_ENST00000417368.2_Missense_Mutation_p.G862W			Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase	862	Saccharopine dehydrogenase.				cellular nitrogen compound metabolic process (GO:0034641)|L-lysine catabolic process to acetyl-CoA via saccharopine (GO:0033512)|lysine catabolic process (GO:0006554)|protein tetramerization (GO:0051262)|small molecule metabolic process (GO:0044281)	intracellular membrane-bounded organelle (GO:0043231)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity (GO:0047131)|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity (GO:0047130)			autonomic_ganglia(1)|breast(2)|endometrium(3)|kidney(6)|large_intestine(12)|lung(27)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	54						TTGATGTCCCCATAAGCCACAA	0.436																																																0																																										SO:0001583	missense	10157			AF229180	CCDS5783.1	7q31.3	2010-12-14			ENSG00000008311	ENSG00000008311			17366	protein-coding gene	gene with protein product		605113				10775527	Standard	NM_005763		Approved	LORSDH, LKRSDH	uc003vkb.3	Q9UDR5	OTTHUMG00000157058	ENST00000393376.1:c.2583_2584delinsAG	7.37:g.121717970_121717971delinsAG	ENSP00000377040:p.Gly862Trp	Somatic		WXS	Illumina HiSeq	Phase_I	O95462	Missense_Mutation	DNP	ENST00000393376.1	37	CCDS5783.1																																																																																				0.436	AASS-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347300.1	NM_005763		AG	121717971	CA	AG	121717970	3	1	602	1	0	0	0	0	1	0	0	0	24	594	21	4	204	4	AASS	7	121717970	Missense_Mutation	DNP	CA	TCGA-GL-A59R-01A-11D-A26P-10	5302856	121717970	37420693	52	36192										
KIAA1549	57670	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	138566237	138566237	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	cttcagaggtcctggcagtgGcgctggctcatgaataatca	12	10	3	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr7:138566237G>T	ENST00000422774.1	-	11	4174	c.4126C>A	c.(4126-4128)Cca>Aca	p.P1376T	KIAA1549_ENST00000242365.4_Missense_Mutation_p.P1326T|KIAA1549_ENST00000440172.1_Missense_Mutation_p.P1376T			Q9HCM3	K1549_HUMAN	KIAA1549	1376						integral component of membrane (GO:0016021)			KIAA1549/BRAF(703)	large_intestine(4)|pancreas(1)|upper_aerodigestive_tract(2)	7						CCTGGCAGTGGCGCTGGCTCA	0.512			O	BRAF	pilocytic astrocytoma																																NSCLC(119;1534 1718 44213 46230 50068)		Dom	yes		7	7q34	57670	KIAA1549		O	0													115	121	119					7																	138566237		2083	4214	6297	SO:0001583	missense	57670				CCDS47723.1, CCDS47723.2, CCDS56513.1	7q34	2009-10-09			ENSG00000122778	ENSG00000122778			22219	protein-coding gene	gene with protein product		613344					Standard	NM_020910		Approved		uc011kql.2	Q9HCM3	OTTHUMG00000157214	ENST00000422774.1:c.4126C>A	7.37:g.138566237G>T	ENSP00000416040:p.Pro1376Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B6HY55|B6HY56|B6HY58|B6HY60|B6HY61|B6HY62|B6HY63|B6HY64|B6HY65|B6HY66|Q5BJD6|Q8IY15|Q9H0M3	Missense_Mutation	SNP	ENST00000422774.1	37	CCDS56513.1	.	.	.	.	.	.	.	.	.	.	G	21.1	4.101871	0.76983	.	.	ENSG00000122778	ENST00000440172;ENST00000242365;ENST00000422774	T;T;T	0.25912	1.77;1.77;1.79	5.75	5.75	0.90469	.	0.000000	0.85682	D	0.000000	T	0.51227	0.1662	M	0.65975	2.015	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	1.0;0.999;1.0;0.999	T	0.38067	-0.9678	10	0.41790	T	0.15	.	18.5236	0.90963	0.0:0.0:1.0:0.0	.	1376;160;1376;160	Q9HCM3;Q9HCM3-4;Q9HCM3-2;Q9HCM3-3	K1549_HUMAN;.;.;.	T	1376;1326;1376	ENSP00000406661:P1376T;ENSP00000242365:P1326T;ENSP00000416040:P1376T	ENSP00000242365:P1326T	P	-	1	0	KIAA1549	138216777	1.000000	0.71417	0.686000	0.30086	0.849000	0.48306	7.124000	0.77185	2.716000	0.92895	0.655000	0.94253	CCA		0.512	KIAA1549-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000348092.1			T	138566237	G	T	138566237	3	4	602	1	0	0	0	0	1	0	0	0	8251	1203	42	4	1766	4	KIAA1549	7	138566237	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	16848267	138566237	20572426	53	36193										
ANK1	286	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	41547822	41547822	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gtacttcatcgccttgcgcaGaaacgacagggaccctcccg	10	15	1	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr8:41547822G>A	ENST00000347528.4	-	33	4110	c.4027C>T	c.(4027-4029)Ctg>Ttg	p.L1343L	ANK1_ENST00000396942.1_Silent_p.L1343L|ANK1_ENST00000379758.2_Silent_p.L1343L|ANK1_ENST00000289734.7_Silent_p.L1343L|ANK1_ENST00000352337.4_Silent_p.L1343L|ANK1_ENST00000265709.8_Silent_p.L1384L|ANK1_ENST00000396945.1_Silent_p.L1343L	NM_020475.2|NM_020476.2|NM_020477.2	NP_065208.2|NP_065209.2|NP_065210.2	P16157	ANK1_HUMAN	ankyrin 1, erythrocytic	1343	UPA domain. {ECO:0000250}.				axon guidance (GO:0007411)|cytoskeleton organization (GO:0007010)|ER to Golgi vesicle-mediated transport (GO:0006888)|erythrocyte development (GO:0048821)|exocytosis (GO:0006887)|maintenance of epithelial cell apical/basal polarity (GO:0045199)|monovalent inorganic cation transport (GO:0015672)|porphyrin-containing compound biosynthetic process (GO:0006779)|positive regulation of organelle organization (GO:0010638)|protein targeting to plasma membrane (GO:0072661)|signal transduction (GO:0007165)	axolemma (GO:0030673)|basolateral plasma membrane (GO:0016323)|cortical cytoskeleton (GO:0030863)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|M band (GO:0031430)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|sarcoplasmic reticulum (GO:0016529)|spectrin-associated cytoskeleton (GO:0014731)|Z disc (GO:0030018)	ATPase binding (GO:0051117)|cytoskeletal adaptor activity (GO:0008093)|enzyme binding (GO:0019899)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			breast(5)|central_nervous_system(4)|endometrium(9)|kidney(1)|large_intestine(26)|lung(62)|ovary(3)|prostate(5)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	122	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)			GCCTTGCGCAGAAACGACAGG	0.597																																																0													133	112	119					8																	41547822		2203	4300	6503	SO:0001819	synonymous_variant	286			M28880	CCDS6119.1, CCDS6121.1, CCDS6122.1, CCDS47849.1, CCDS55227.1	8p11.21	2013-01-10			ENSG00000029534	ENSG00000029534		"Ankyrin repeat domain containing"	492	protein-coding gene	gene with protein product		612641		ANK		1689849	Standard	NM_001142445		Approved	SPH1	uc003xom.3	P16157	OTTHUMG00000150281	ENST00000347528.4:c.4027C>T	8.37:g.41547822G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJN8|A6NJ23|E5RFL7|O43400|Q13768|Q53ER1|Q59FP2|Q8N604|Q99407	Silent	SNP	ENST00000347528.4	37	CCDS6119.1	.	.	.	.	.	.	.	.	.	.	G	8.890	0.953747	0.18431	.	.	ENSG00000029534	ENST00000520299	.	.	.	5.08	4.2	0.49525	.	.	.	.	.	T	0.55210	0.1906	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.52734	-0.8536	4	.	.	.	.	6.0089	0.19562	0.1621:0.0:0.6843:0.1536	.	.	.	.	F	664	.	.	S	-	2	0	ANK1	41666979	1.000000	0.71417	0.884000	0.34674	0.838000	0.47535	1.678000	0.37586	1.352000	0.45808	0.563000	0.77884	TCT		0.597	ANK1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000317297.1	NM_020475		A	41547822	G	A	41547822	2	1	602	1	0	0	0	0	0	0	0	1	620	933	33	2		2	ANK1	8	41547822	Silent	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10		41547822	104816200	54	36194										
ZBTB10	65986	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	81412103	81412103	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gccagctatcttcaaatgagTgaagttgttcaaacttgccg	9	9	3	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr8:81412103T>C	ENST00000430430.1	+	3	2126	c.1347T>C	c.(1345-1347)agT>agC	p.S449S	ZBTB10_ENST00000426744.2_Silent_p.S449S|ZBTB10_ENST00000455036.3_Silent_p.S449S|ZBTB10_ENST00000379091.4_Silent_p.S157S	NM_001277145.1	NP_001264074.1	Q96DT7	ZBT10_HUMAN	zinc finger and BTB domain containing 10	449					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(7)|ovary(1)|upper_aerodigestive_tract(4)	20	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)			TTCAAATGAGTGAAGTTGTTC	0.373																																																0													88	81	83					8																	81412103		1826	4092	5918	SO:0001819	synonymous_variant	65986			AK022814	CCDS47880.1, CCDS64920.1	8q13-q21.1	2013-01-09			ENSG00000205189	ENSG00000205189		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	30953	protein-coding gene	gene with protein product						12477932	Standard	NM_001105539		Approved	RINZF, FLJ12752	uc003ybx.5	Q96DT7	OTTHUMG00000155016	ENST00000430430.1:c.1347T>C	8.37:g.81412103T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A4FVD0|Q86W96|Q8IXI9|Q96MH9	Silent	SNP	ENST00000430430.1	37	CCDS47880.1																																																																																				0.373	ZBTB10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000338055.2	NM_023929		C	81412103	T	C	81412103	2	2	602	1	0	0	0	0	0	0	0	1	17535	1693	59	3		3	ZBTB10	8	81412103	Silent	SNP	T	TCGA-GL-A59R-01A-11D-A26P-10	39864281	81412103	64951919	55	36195										
WWP1	11059	broad.mit.edu;bcgsc.ca	37	chr8	87447714	87447715	+	Frame_Shift_Ins	INS	-	-	AATTTTT													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	cacaaattgcttatgaacgcINSggctttaggtggaagcttgc					rs139712565		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr8:87447714_87447715insAATTTTT	ENST00000517970.1	+	15	1942_1943	c.1635_1636insAATTTTT	c.(1636-1638)ggcfs	p.G546fs	WWP1_ENST00000341922.2_Frame_Shift_Ins_p.G416fs|WWP1_ENST00000349423.2_Frame_Shift_Ins_p.G328fs|WWP1_ENST00000265428.4_Frame_Shift_Ins_p.G546fs	NM_007013.3	NP_008944.1	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase 1	546					central nervous system development (GO:0007417)|ion transmembrane transport (GO:0034220)|negative regulation of transcription, DNA-templated (GO:0045892)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|signal transduction (GO:0007165)|transmembrane transport (GO:0055085)|viral entry into host cell (GO:0046718)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ubiquitin ligase complex (GO:0000151)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			endometrium(3)|kidney(2)|large_intestine(9)|liver(4)|lung(10)|prostate(2)|urinary_tract(1)	31						CTTATGAACGCGGCTTTAGGTG	0.302																																																0																																										SO:0001589	frameshift_variant	11059			AY043361	CCDS6242.1	8q21.3	2013-07-22			ENSG00000123124	ENSG00000123124			17004	protein-coding gene	gene with protein product		602307				9169421, 9647693	Standard	NM_007013		Approved	AIP5, DKFZP434D2111	uc003ydt.3	Q9H0M0	OTTHUMG00000163690	Exception_encountered	8.37:g.87447714_87447715insAATTTTT	ENSP00000427793:p.Gly546fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00307|Q5YLC1|Q96BP4	Frame_Shift_Ins	INS	ENST00000517970.1	37	CCDS6242.1																																																																																				0.302	WWP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374755.1	NM_007013		AATTTTT	87447715	-	AATTTTT	87447714	7	5	602	1	0	1	1	0	0	0	0	0	17427	755	27	0	1685	0	WWP1	8	87447714	Frame_Shift_Ins	INS	-	TCGA-GL-A59R-01A-11D-A26P-10	6035611	87447714	58916308	56	36196	281	2								
WWP1	11059	bcgsc.ca	37	chr8	87447715	87447715	+	Missense_Mutation	SNP	G	G	T													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	cacaaattgcttatgaacgcGgctttaggtggaagcttgct							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr8:87447715G>T	ENST00000517970.1	+	15	1943	c.1636G>T	c.(1636-1638)Ggc>Tgc	p.G546C	WWP1_ENST00000341922.2_Missense_Mutation_p.G416C|WWP1_ENST00000349423.2_Missense_Mutation_p.G328C|WWP1_ENST00000265428.4_Missense_Mutation_p.G546C	NM_007013.3	NP_008944.1	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase 1	546					central nervous system development (GO:0007417)|ion transmembrane transport (GO:0034220)|negative regulation of transcription, DNA-templated (GO:0045892)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|signal transduction (GO:0007165)|transmembrane transport (GO:0055085)|viral entry into host cell (GO:0046718)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ubiquitin ligase complex (GO:0000151)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			endometrium(3)|kidney(2)|large_intestine(9)|liver(4)|lung(10)|prostate(2)|urinary_tract(1)	31						TTATGAACGCGGCTTTAGGTG	0.303																																																0													90	91	91					8																	87447715		2203	4300	6503	SO:0001583	missense	11059			AY043361	CCDS6242.1	8q21.3	2013-07-22			ENSG00000123124	ENSG00000123124			17004	protein-coding gene	gene with protein product		602307				9169421, 9647693	Standard	NM_007013		Approved	AIP5, DKFZP434D2111	uc003ydt.3	Q9H0M0	OTTHUMG00000163690	ENST00000517970.1:c.1636G>T	8.37:g.87447715G>T	ENSP00000427793:p.Gly546Cys	Somatic		WXS	Illumina HiSeq	Phase_1	O00307|Q5YLC1|Q96BP4	Missense_Mutation	SNP	ENST00000517970.1	37	CCDS6242.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	14.88|14.88	2.667429|2.667429	0.47677|0.47677	.|.	.|.	ENSG00000123124|ENSG00000123124	ENST00000517970;ENST00000265428;ENST00000341922;ENST00000349423|ENST00000520453	T;T;T;T|T	0.43688|0.59502	0.94;0.94;0.95;0.94|0.26	5.58|5.58	4.42|4.42	0.53409|0.53409	HECT (1);|.	0.131459|.	0.64402|.	D|.	0.000002|.	T|T	0.36193|0.36193	0.0958|0.0958	N|N	0.02011|0.02011	-0.69|-0.69	0.34971|0.34971	D|D	0.753122|0.753122	B;B|.	0.06786|.	0.001;0.0|.	B;B|.	0.10450|.	0.005;0.0|.	T|T	0.55256|0.55256	-0.8169|-0.8169	10|7	0.66056|0.87932	D|D	0.02|0	.|.	11.6939|11.6939	0.51532|0.51532	0.9304:0.0:0.0696:0.0|0.9304:0.0:0.0696:0.0	.|.	328;546|.	Q9H0M0-6;Q9H0M0|.	.;WWP1_HUMAN|.	C|L	546;546;416;328|10	ENSP00000427793:G546C;ENSP00000265428:G546C;ENSP00000340564:G416C;ENSP00000342665:G328C|ENSP00000429076:R10L	ENSP00000265428:G546C|ENSP00000429076:R10L	G|R	+|+	1|2	0|0	WWP1|WWP1	87516831|87516831	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.972000|0.972000	0.66771|0.66771	5.936000|5.936000	0.70153|0.70153	0.931000|0.931000	0.37242|0.37242	-0.417000|-0.417000	0.06048|0.06048	GGC|CGG		0.303	WWP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374755.1	NM_007013		T	87447715	G	T	87447715	3	4	602	1	0	0	0	0	1	0	0	0	17427	1116	39	4	1686	4	WWP1	8	87447715	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	1	87447715	58916307	57	36197	281	2								
JAK2	3717	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	5078361	5078361	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	caaaaatattctgcttatcaGagaagaagacaggaagacag	9	6	2	4			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr9:5078361G>T	ENST00000381652.3	+	16	2542	c.2048G>T	c.(2047-2049)aGa>aTa	p.R683I	JAK2_ENST00000544510.1_Missense_Mutation_p.R534I|JAK2_ENST00000539801.1_Missense_Mutation_p.R683I|AL161450.1_ENST00000601793.1_Intron	NM_004972.3	NP_004963.1	O60674	JAK2_HUMAN	Janus kinase 2	683	Protein kinase 1. {ECO:0000255|PROSITE- ProRule:PRU00159}.				actin filament polymerization (GO:0030041)|activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|activation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway (GO:0097296)|activation of JAK2 kinase activity (GO:0042977)|activation of MAPKK activity (GO:0000186)|apoptotic process (GO:0006915)|axon regeneration (GO:0031103)|blood coagulation (GO:0007596)|cell differentiation (GO:0030154)|cellular component movement (GO:0006928)|cytokine-mediated signaling pathway (GO:0019221)|enzyme linked receptor protein signaling pathway (GO:0007167)|erythrocyte differentiation (GO:0030218)|extrinsic apoptotic signaling pathway (GO:0097191)|G-protein coupled receptor signaling pathway (GO:0007186)|growth hormone receptor signaling pathway (GO:0060396)|histone H3-Y41 phosphorylation (GO:0035409)|hormone-mediated signaling pathway (GO:0009755)|host programmed cell death induced by symbiont (GO:0034050)|interferon-gamma-mediated signaling pathway (GO:0060333)|interleukin-12-mediated signaling pathway (GO:0035722)|intracellular signal transduction (GO:0035556)|intrinsic apoptotic signaling pathway in response to oxidative stress (GO:0008631)|JAK-STAT cascade (GO:0007259)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|mammary gland epithelium development (GO:0061180)|mesoderm development (GO:0007498)|mineralocorticoid receptor signaling pathway (GO:0031959)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of DNA binding (GO:0043392)|negative regulation of heart contraction (GO:0045822)|negative regulation of neuron apoptotic process (GO:0043524)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell activation (GO:0050867)|positive regulation of cell differentiation (GO:0045597)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of DNA binding (GO:0043388)|positive regulation of growth hormone receptor signaling pathway (GO:0060399)|positive regulation of inflammatory response (GO:0050729)|positive regulation of insulin secretion (GO:0032024)|positive regulation of interleukin-1 beta production (GO:0032731)|positive regulation of nitric oxide biosynthetic process (GO:0045429)|positive regulation of nitric-oxide synthase biosynthetic process (GO:0051770)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of phosphoprotein phosphatase activity (GO:0032516)|positive regulation of protein import into nucleus, translocation (GO:0033160)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of tumor necrosis factor production (GO:0032760)|positive regulation of tyrosine phosphorylation of Stat3 protein (GO:0042517)|positive regulation of tyrosine phosphorylation of Stat5 protein (GO:0042523)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of inflammatory response (GO:0050727)|regulation of interferon-gamma-mediated signaling pathway (GO:0060334)|response to antibiotic (GO:0046677)|response to hydroperoxide (GO:0033194)|response to interleukin-12 (GO:0070671)|response to lipopolysaccharide (GO:0032496)|response to tumor necrosis factor (GO:0034612)|signal transduction (GO:0007165)|STAT protein import into nucleus (GO:0007262)|tumor necrosis factor-mediated signaling pathway (GO:0033209)|tyrosine phosphorylation of STAT protein (GO:0007260)|tyrosine phosphorylation of Stat1 protein (GO:0042508)|tyrosine phosphorylation of Stat3 protein (GO:0042503)|tyrosine phosphorylation of Stat5 protein (GO:0042506)	caveola (GO:0005901)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|endosome lumen (GO:0031904)|membrane raft (GO:0045121)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)	ATP binding (GO:0005524)|growth hormone receptor binding (GO:0005131)|heme binding (GO:0020037)|histone binding (GO:0042393)|histone kinase activity (H3-Y41 specific) (GO:0035401)|interleukin-12 receptor binding (GO:0005143)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|protein tyrosine kinase activity (GO:0004713)|receptor binding (GO:0005102)|SH2 domain binding (GO:0042169)	p.R683T(2)|p.I682_R683insTG(1)|p.R683K(1)|p.I682_D686>(1)	BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)|ETV6/JAK2(11)|PCM1/JAK2(30)|PAX5/JAK2(18)	breast(5)|endometrium(4)|haematopoietic_and_lymphoid_tissue(32944)|kidney(4)|large_intestine(10)|liver(1)|lung(20)|ovary(3)|prostate(4)|skin(2)|urinary_tract(1)	32998	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)	Ruxolitinib(DB08877)|Tofacitinib(DB08895)	CTGCTTATCAGAGAAGAAGAC	0.363		1	"T, Mis, O"	"ETV6, PCM1, BCR"	"ALL, AML, MPD,  CML"				Polycythemia Vera, Familial																														Dom	yes		9	9p24	3717	Janus kinase 2		L	5	Substitution - Missense(3)|Insertion - In frame(1)|Deletion - In frame(1)	haematopoietic_and_lymphoid_tissue(5)											149	163	158					9																	5078361		2203	4300	6503	SO:0001583	missense	3717	Familial Cancer Database			CCDS6457.1	9p24	2014-09-17	2009-04-23		ENSG00000096968	ENSG00000096968	2.7.10.1	"SH2 domain containing"	6192	protein-coding gene	gene with protein product		147796				1848670	Standard	NM_004972		Approved	JTK10	uc003ziw.3	O60674	OTTHUMG00000019490	ENST00000381652.3:c.2048G>T	9.37:g.5078361G>T	ENSP00000371067:p.Arg683Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O14636|O75297	Missense_Mutation	SNP	ENST00000381652.3	37	CCDS6457.1	.	.	.	.	.	.	.	.	.	.	G	32	5.158488	0.94686	.	.	ENSG00000096968	ENST00000539801;ENST00000381652;ENST00000544510	D;D;D	0.83163	-1.69;-1.69;-1.69	5.55	5.55	0.83447	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	D	0.92381	0.7582	M	0.84683	2.71	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.92930	0.6363	10	0.87932	D	0	-24.9121	19.4912	0.95050	0.0:0.0:1.0:0.0	.	683	O60674	JAK2_HUMAN	I	683;683;534	ENSP00000440387:R683I;ENSP00000371067:R683I;ENSP00000443103:R534I	ENSP00000371067:R683I	R	+	2	0	JAK2	5068361	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.371000	0.97162	2.771000	0.95319	0.561000	0.74099	AGA		0.363	JAK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051609.1			T	5078361	G	T	5078361	3	4	602	1	0	0	0	0	1	0	0	0	7945	942	33	4	2102	4	JAK2	9	5078361	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10		5078361	136135070	58	36198										
DDX58	23586	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	32459420	32459420	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gccaaggctttgcactttctGcagagcagttttttattttc	8	9	1	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr9:32459420G>T	ENST00000379883.2	-	17	2587	c.2430C>A	c.(2428-2430)tgC>tgA	p.C810*	DDX58_ENST00000379868.1_Nonsense_Mutation_p.C607*|DDX58_ENST00000379882.1_Nonsense_Mutation_p.C765*|DDX58_ENST00000542096.1_Nonsense_Mutation_p.C739*	NM_014314.3	NP_055129.2	O95786	DDX58_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 58	810	Interaction with ZC3HAV1.|Repressor domain.				cytoplasmic pattern recognition receptor signaling pathway in response to virus (GO:0039528)|detection of virus (GO:0009597)|innate immune response (GO:0045087)|negative regulation of type I interferon production (GO:0032480)|positive regulation of defense response to virus by host (GO:0002230)|positive regulation of interferon-alpha production (GO:0032727)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription factor import into nucleus (GO:0042993)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of cell migration (GO:0030334)|regulation of type III interferon production (GO:0034344)|response to exogenous dsRNA (GO:0043330)|response to virus (GO:0009615)|RIG-I signaling pathway (GO:0039529)|viral process (GO:0016032)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|ruffle membrane (GO:0032587)|tight junction (GO:0005923)	ATP binding (GO:0005524)|double-stranded DNA binding (GO:0003690)|double-stranded RNA binding (GO:0003725)|helicase activity (GO:0004386)|identical protein binding (GO:0042802)|single-stranded RNA binding (GO:0003727)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|liver(1)|lung(9)|ovary(2)|pancreas(1)|prostate(1)	27			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;0.00056)		TGCACTTTCTGCAGAGCAGTT	0.388																																																0													184	166	172					9																	32459420		2203	4300	6503	SO:0001587	stop_gained	23586			AF038963	CCDS6526.1	9p12	2011-08-05			ENSG00000107201	ENSG00000107201		"DEAD-boxes"	19102	protein-coding gene	gene with protein product	"RNA helicase RIG-I", "retinoic acid inducible gene I"	609631				21690088	Standard	NM_014314		Approved	RIG-I, FLJ13599, DKFZp434J1111	uc003zra.3	O95786	OTTHUMG00000019746	ENST00000379883.2:c.2430C>A	9.37:g.32459420G>T	ENSP00000369213:p.Cys810*	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU81|Q5HYE1|Q5VYT1|Q9NT04	Nonsense_Mutation	SNP	ENST00000379883.2	37	CCDS6526.1	.	.	.	.	.	.	.	.	.	.	G	38	7.254024	0.98168	.	.	ENSG00000107201	ENST00000379882;ENST00000379883;ENST00000379868;ENST00000542096	.	.	.	4.79	-0.4	0.12411	.	0.000000	0.64402	D	0.000002	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-8.0038	9.3509	0.38138	0.719:0.0:0.281:0.0	.	.	.	.	X	765;810;607;739	.	ENSP00000369197:C607X	C	-	3	2	DDX58	32449420	0.540000	0.26410	0.928000	0.36995	0.005000	0.04900	0.443000	0.21644	0.069000	0.16605	0.655000	0.94253	TGC		0.388	DDX58-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052011.1	NM_014314		T	32459420	G	T	32459420	4	4	602	1	0	0	0	0	0	1	0	0	4377	1311	46	4	355	4	DDX58	9	32459420	Nonsense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	27381059	32459420	108754011	59	36199										
VPS13A	23230	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	79820297	79820297	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ttgaagccgtattggaagaaAtttatttacttatagtgcct	8	5	0	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr9:79820297A>G	ENST00000360280.3	+	4	516	c.256A>G	c.(256-258)Att>Gtt	p.I86V	VPS13A_ENST00000357409.5_Missense_Mutation_p.I86V|VPS13A_ENST00000376636.3_Missense_Mutation_p.I86V|VPS13A_ENST00000376634.4_Missense_Mutation_p.I86V	NM_033305.2	NP_150648.2	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13 homolog A (S. cerevisiae)	86					cell death (GO:0008219)|Golgi to endosome transport (GO:0006895)|locomotory behavior (GO:0007626)|nervous system development (GO:0007399)|protein localization (GO:0008104)|protein transport (GO:0015031)|social behavior (GO:0035176)	dense core granule (GO:0031045)|intracellular (GO:0005622)				breast(4)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(28)|liver(1)|lung(42)|ovary(3)|pancreas(3)|prostate(3)|skin(9)|upper_aerodigestive_tract(1)|urinary_tract(1)	104						ATTGGAAGAAATTTATTTACT	0.229																																																0													38	44	42					9																	79820297		2194	4279	6473	SO:0001583	missense	23230			AB023203	CCDS6655.1, CCDS6656.1, CCDS47983.1, CCDS55321.1	9q21	2014-01-30	2006-04-04	2004-02-11	ENSG00000197969	ENSG00000197969			1908	protein-coding gene	gene with protein product	"chorein"	605978	"chorea acanthocytosis", "vacuolar protein sorting 13A (yeast)"	CHAC		9382101, 11381253	Standard	NM_001018038		Approved	KIAA0986	uc004akr.3	Q96RL7	OTTHUMG00000020055	ENST00000360280.3:c.256A>G	9.37:g.79820297A>G	ENSP00000353422:p.Ile86Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JSX9|Q5JSY0|Q5VYR5|Q702P4|Q709D0|Q86YF8|Q96S61|Q9H995|Q9Y2J1	Missense_Mutation	SNP	ENST00000360280.3	37	CCDS6655.1	.	.	.	.	.	.	.	.	.	.	A	8.130	0.782854	0.16189	.	.	ENSG00000197969	ENST00000376634;ENST00000376636;ENST00000360280;ENST00000357409	T;T;T;T	0.80304	-1.36;-1.36;-1.36;-1.36	5.62	4.48	0.54585	.	0.063343	0.64402	D	0.000008	T	0.55593	0.1930	N	0.04880	-0.145	0.80722	D	1	B;B;B;B	0.24882	0.012;0.113;0.046;0.046	B;B;B;B	0.25614	0.018;0.062;0.027;0.027	T	0.51980	-0.8636	10	0.02654	T	1	.	7.951	0.30014	0.7743:0.0:0.2257:0.0	.	86;86;86;86	Q96RL7-3;Q96RL7;Q96RL7-2;Q96RL7-4	.;VP13A_HUMAN;.;.	V	86	ENSP00000365821:I86V;ENSP00000365823:I86V;ENSP00000353422:I86V;ENSP00000349985:I86V	ENSP00000349985:I86V	I	+	1	0	VPS13A	79010117	1.000000	0.71417	0.998000	0.56505	0.998000	0.95712	4.485000	0.60279	0.952000	0.37798	0.477000	0.44152	ATT		0.229	VPS13A-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000052753.2	NM_015186		G	79820297	A	G	79820297	3	3	602	1	0	0	0	0	1	0	0	0	17201	101	4	3	270	3	VPS13A	9	79820297	Missense_Mutation	SNP	A	TCGA-GL-A59R-01A-11D-A26P-10	47360877	79820297	61393134	60	36200										
CTSL2	1515	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	99799669	99799669	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	caacccatcatctgcctgaaTtcttcattggtcttcaagga	6	12	6	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr9:99799669T>G	ENST00000259470.5	-	4	510	c.261A>C	c.(259-261)gaA>gaC	p.E87D	CTSV_ENST00000538255.1_Missense_Mutation_p.E87D|CTSV_ENST00000479932.1_5'UTR	NM_001333.3	NP_001324.2	O60911	CATL2_HUMAN	cathepsin V	87					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|autophagic cell death (GO:0048102)|catagen (GO:0042637)|cellular response to starvation (GO:0009267)|decidualization (GO:0046697)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|hair follicle morphogenesis (GO:0031069)|multicellular organismal aging (GO:0010259)|negative regulation of keratinocyte proliferation (GO:0010839)|nerve development (GO:0021675)|protein autoprocessing (GO:0016540)|regulation of actin cytoskeleton reorganization (GO:2000249)|response to glucocorticoid (GO:0051384)|response to glucose (GO:0009749)|response to gonadotropin (GO:0034698)|Sertoli cell differentiation (GO:0060008)|spermatogenesis (GO:0007283)	cytoplasmic vesicle (GO:0031410)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)|microvillus (GO:0005902)|neuron projection (GO:0043005)|nucleolus (GO:0005730)|perikaryon (GO:0043204)	aminopeptidase activity (GO:0004177)|cysteine-type carboxypeptidase activity (GO:0016807)|cysteine-type endopeptidase activity (GO:0004197)|cysteine-type peptidase activity (GO:0008234)|peptide binding (GO:0042277)										TCTGCCTGAATTCTTCATTGG	0.418																																																0													100	100	100					9																	99799669		2203	4300	6503	SO:0001583	missense	1515			Y14734	CCDS6723.1	9q22.33	2013-06-27	2013-06-27	2013-06-27	ENSG00000136943	ENSG00000136943		"Cathepsins"	2538	protein-coding gene	gene with protein product		603308	"cathepsin L2"	CTSL2		9563472, 10029531	Standard	NM_001201575		Approved	CTSU	uc004awt.3	O60911	OTTHUMG00000020314	ENST00000259470.5:c.261A>C	9.37:g.99799669T>G	ENSP00000259470:p.Glu87Asp	Somatic		WXS	Illumina HiSeq	Phase_I	O60233|Q2TB86|Q5T1U0	Missense_Mutation	SNP	ENST00000259470.5	37	CCDS6723.1	.	.	.	.	.	.	.	.	.	.	T	19.18	3.776996	0.70107	.	.	ENSG00000136943	ENST00000259470;ENST00000538255	D;D	0.94092	-3.35;-3.35	3.81	2.68	0.31781	Proteinase inhibitor I29, cathepsin propeptide (2);	0.000000	0.85682	D	0.000000	D	0.97356	0.9135	H	0.97365	3.99	0.58432	D	0.999999	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.96055	0.9034	9	.	.	.	.	7.4637	0.27310	0.0:0.1067:0.0:0.8933	.	87;87	B2R717;O60911	.;CATL2_HUMAN	D	87	ENSP00000259470:E87D;ENSP00000445052:E87D	.	E	-	3	2	CTSL2	98839490	1.000000	0.71417	1.000000	0.80357	0.896000	0.52359	0.938000	0.28965	0.848000	0.35191	0.459000	0.35465	GAA		0.418	CTSV-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053301.2	NM_001333		G	99799669	T	G	99799669	3	3	602	1	0	0	0	0	1	0	0	0	4041	1490	52	5	763	5	CTSL2	9	99799669	Missense_Mutation	SNP	T	TCGA-GL-A59R-01A-11D-A26P-10	19979372	99799669	41413762	61	36201										
DHTKD1	55526	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	12162862	12162863	+	Frame_Shift_Ins	INS	-	-	T													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	cacttgcaccagcatgaagaINStatcctcgccaagaccttcg							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr10:12162862_12162863insT	ENST00000263035.4	+	17	2797_2798	c.2735_2736insT	c.(2734-2739)gatatcfs	p.I913fs		NM_018706.5	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain containing 1	913					cell death (GO:0008219)|generation of precursor metabolites and energy (GO:0006091)|glycolytic process (GO:0006096)|hematopoietic progenitor cell differentiation (GO:0002244)|tricarboxylic acid cycle (GO:0006099)	mitochondrion (GO:0005739)	oxoglutarate dehydrogenase (succinyl-transferring) activity (GO:0004591)|thiamine pyrophosphate binding (GO:0030976)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(11)|liver(2)|lung(14)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|soft_tissue(1)|stomach(3)|upper_aerodigestive_tract(1)	44		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			CAGCATGAAGATATCCTCGCCA	0.5																																																0																																										SO:0001589	frameshift_variant	55526			BC002477	CCDS7087.1	10p14	2003-11-24			ENSG00000181192	ENSG00000181192			23537	protein-coding gene	gene with protein product		614984				10997877	Standard	NM_018706		Approved	KIAA1630, MGC3090, DKFZP762M115	uc001ild.5	Q96HY7	OTTHUMG00000017677	ENST00000263035.4:c.2736dupT	10.37:g.12162863_12162863dupT	ENSP00000263035:p.Ile913fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q68CU5|Q9BUM8|Q9HCE2	Frame_Shift_Ins	INS	ENST00000263035.4	37	CCDS7087.1																																																																																				0.5	DHTKD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046777.1	NM_018706		T	12162863	-	T	12162862	7	5	602	1	0	1	1	0	0	0	0	0	4502	333	12	0	2801	0	DHTKD1	10	12162862	Frame_Shift_Ins	INS	-	TCGA-GL-A59R-01A-11D-A26P-10		12162862	123371885	62	36202										
JMJD1C	221037	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	64968540	64968540	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	acagaccgtaatggttccatAaaagcttttctttctaattc	5	9	2	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr10:64968540A>G	ENST00000399262.2	-	10	3107	c.2889T>C	c.(2887-2889)ttT>ttC	p.F963F	JMJD1C_ENST00000402544.1_Silent_p.F744F|JMJD1C_ENST00000542921.1_Silent_p.F781F|JMJD1C_ENST00000399251.1_Silent_p.F744F	NM_032776.1	NP_116165.1	Q15652	JHD2C_HUMAN	jumonji domain containing 1C	963					blood coagulation (GO:0007596)|chromatin modification (GO:0016568)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	intracellular (GO:0005622)|nucleoplasm (GO:0005654)	dioxygenase activity (GO:0051213)|metal ion binding (GO:0046872)|thyroid hormone receptor binding (GO:0046966)			breast(2)|central_nervous_system(2)|cervix(1)|endometrium(8)|kidney(8)|large_intestine(9)|lung(27)|ovary(6)|prostate(4)|skin(4)|stomach(3)|upper_aerodigestive_tract(3)	77	Prostate(12;0.0119)|all_hematologic(501;0.191)					ATGGTTCCATAAAAGCTTTTC	0.348																																																0													49	45	46					10																	64968540		1815	4081	5896	SO:0001819	synonymous_variant	221037			L40411	CCDS41532.1, CCDS60538.1	10q22.1	2011-05-25	2004-03-31	2004-04-01	ENSG00000171988	ENSG00000171988			12313	protein-coding gene	gene with protein product		604503	"thyroid hormone receptor interactor 8"	TRIP8		7776974	Standard	XM_005269624		Approved	DKFZp761F0118, KIAA1380, FLJ14374	uc001jmn.3	Q15652	OTTHUMG00000018311	ENST00000399262.2:c.2889T>C	10.37:g.64968540A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0T124|Q5SQZ8|Q5SQZ9|Q5SR00|Q7Z3E7|Q8N3U0|Q96KB9|Q9P2G7	Silent	SNP	ENST00000399262.2	37	CCDS41532.1																																																																																				0.348	JMJD1C-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048249.2	NM_004241		G	64968540	A	G	64968540	2	3	602	1	0	0	0	0	0	0	0	1	7957	359	13	3		3	JMJD1C	10	64968540	Silent	SNP	A	TCGA-GL-A59R-01A-11D-A26P-10	52805678	64968540	70566207	63	36203										
P4HA1	5033	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	74810906	74810906	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tttctttggtgtagttttctGatcagattggtcatctgaag	10	5	5	3			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr10:74810906G>A	ENST00000307116.2	-	7	921	c.805C>T	c.(805-807)Cag>Tag	p.Q269*	P4HA1_ENST00000412021.2_Nonsense_Mutation_p.Q269*|P4HA1_ENST00000394890.2_Nonsense_Mutation_p.Q269*|P4HA1_ENST00000440381.1_Nonsense_Mutation_p.Q269*|P4HA1_ENST00000373008.2_Nonsense_Mutation_p.Q269*|P4HA1_ENST00000263556.3_Nonsense_Mutation_p.Q269*			P13674	P4HA1_HUMAN	prolyl 4-hydroxylase, alpha polypeptide I	269					collagen fibril organization (GO:0030199)|peptidyl-proline hydroxylation to 4-hydroxy-L-proline (GO:0018401)	endoplasmic reticulum (GO:0005783)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|mitochondrion (GO:0005739)|procollagen-proline 4-dioxygenase complex (GO:0016222)	iron ion binding (GO:0005506)|L-ascorbic acid binding (GO:0031418)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen (GO:0016702)|procollagen-proline 4-dioxygenase activity (GO:0004656)			breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(8)|ovary(1)	15	Prostate(51;0.0198)				Hydralazine(DB01275)|L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	GTAGTTTTCTGATCAGATTGG	0.388																																					Colon(147;367 2405 2662 52127)											0													217	213	214					10																	74810906		2203	4300	6503	SO:0001587	stop_gained	5033				CCDS7320.1, CCDS41537.1, CCDS44432.1	10q21.3-q23.1	2008-12-09	2008-12-09		ENSG00000122884	ENSG00000122884	1.14.11.2		8546	protein-coding gene	gene with protein product	"collagen prolyl 4-hydroxylase alpha(I)"	176710	"procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha polypeptide I"	P4HA		2556027	Standard	NM_001017962		Approved	C-P4Halpha(I)	uc001jtg.3	P13674	OTTHUMG00000018449	ENST00000307116.2:c.805C>T	10.37:g.74810906G>A	ENSP00000307318:p.Gln269*	Somatic		WXS	Illumina HiSeq	Phase_I	C9JL12|Q15082|Q15083|Q5VSQ5	Nonsense_Mutation	SNP	ENST00000307116.2	37		.	.	.	.	.	.	.	.	.	.	G	38	6.748289	0.97809	.	.	ENSG00000122884	ENST00000307116;ENST00000373008;ENST00000412021;ENST00000394890;ENST00000263556;ENST00000440381	.	.	.	5.67	4.75	0.60458	.	0.628969	0.17058	N	0.188667	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.06099	T	0.92	-9.1782	14.0861	0.64957	0.0:0.0:0.6736:0.3264	.	.	.	.	X	269	.	ENSP00000263556:Q269X	Q	-	1	0	P4HA1	74480912	0.668000	0.27493	1.000000	0.80357	0.995000	0.86356	0.893000	0.28336	1.363000	0.46019	0.557000	0.71058	CAG		0.388	P4HA1-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000048601.1	NM_000917		A	74810906	G	A	74810906	4	1	602	1	0	0	0	0	0	1	0	0	11363	1299	45	2	910	2	P4HA1	10	74810906	Nonsense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	9842366	74810906	60723841	64	36204										
FAM35A	54537	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	88911776	88911776	+	Nonsense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ctcgaacgcagtagataagtCaaggtctgaagcagcagtta	11	8	2	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr10:88911776C>G	ENST00000298784.1	+	3	779	c.665C>G	c.(664-666)tCa>tGa	p.S222*	RN7SL733P_ENST00000582253.1_RNA|FAM35A_ENST00000298786.4_Nonsense_Mutation_p.S222*	NM_019054.2	NP_061927.2	Q86V20	FA35A_HUMAN	family with sequence similarity 35, member A	222										endometrium(2)|kidney(2)|large_intestine(5)|lung(1)|ovary(2)|prostate(2)|skin(2)	16						GTAGATAAGTCAAGGTCTGAA	0.398																																					Ovarian(175;703 2004 25460 32514 43441)											0													34	35	35					10																	88911776		2197	4290	6487	SO:0001587	stop_gained	54537			BC051863	CCDS7383.1	10q23.2	2010-06-02			ENSG00000122376	ENSG00000122376			28773	protein-coding gene	gene with protein product						8619474, 9110174	Standard	NM_019054		Approved	MGC5560, bA163M19.1, FAM35A1	uc001kei.4	Q86V20	OTTHUMG00000018669	ENST00000298784.1:c.665C>G	10.37:g.88911776C>G	ENSP00000298784:p.Ser222*	Somatic		WXS	Illumina HiSeq	Phase_I	O95885|Q9H991	Nonsense_Mutation	SNP	ENST00000298784.1	37	CCDS7383.1	.	.	.	.	.	.	.	.	.	.	c	26.2	4.712906	0.89112	.	.	ENSG00000122376	ENST00000298786;ENST00000298784;ENST00000358313	.	.	.	4.09	4.09	0.47781	.	0.374206	0.21967	N	0.066511	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.72032	D	0.01	-1.042	14.7247	0.69336	0.0:1.0:0.0:0.0	.	.	.	.	X	222	.	ENSP00000298784:S222X	S	+	2	0	FAM35A	88901756	0.031000	0.19500	0.008000	0.14137	0.139000	0.21198	3.315000	0.51951	2.134000	0.65973	0.537000	0.68136	TCA		0.398	FAM35A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049196.2	NM_019054		G	88911776	C	G	88911776	4	3	602	1	0	0	0	0	0	1	0	0	5560	838	29	4	667	4	FAM35A	10	88911776	Nonsense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	14100870	88911776	46622971	65	36205										
TDRD1	56165	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	115947630	115947635	+	In_Frame_Del	DEL	AATTTG	AATTTG	-													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ttaatgtgatgtcaagaaatAatttggaagcacctccttgt							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	AATTTG	AATTTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr10:115947630_115947635delAATTTG	ENST00000369280.1	+	2	500_505	c.40_45delAATTTG	c.(40-45)aatttgdel	p.NL14del	TDRD1_ENST00000369281.2_In_Frame_Del_p.NL14del|TDRD1_ENST00000369282.1_In_Frame_Del_p.NL14del|TDRD1_ENST00000422662.1_5'UTR|TDRD1_ENST00000251864.2_In_Frame_Del_p.NL14del			Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	14					DNA methylation involved in gamete generation (GO:0043046)|gene silencing by RNA (GO:0031047)|germ cell development (GO:0007281)|meiotic nuclear division (GO:0007126)|multicellular organismal development (GO:0007275)|piRNA metabolic process (GO:0034587)|spermatogenesis (GO:0007283)	chromatoid body (GO:0033391)|cytoplasm (GO:0005737)|P granule (GO:0043186)|pi-body (GO:0071546)	metal ion binding (GO:0046872)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(15)|ovary(1)|prostate(2)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(5)	48		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		GTCAAGAAATAATTTGGAAGCACCTC	0.345																																																0																																										SO:0001651	inframe_deletion	56165			AF285606	CCDS7588.1	10q26.11	2013-01-23			ENSG00000095627	ENSG00000095627		"Tudor domain containing"	11712	protein-coding gene	gene with protein product	"cancer/testis antigen 41.1"	605796				11279525	Standard	NM_198795		Approved	CT41.1	uc001lbg.1	Q9BXT4	OTTHUMG00000019083	ENST00000369280.1:c.40_45delAATTTG	10.37:g.115947630_115947635delAATTTG	ENSP00000358286:p.Asn14_Leu15del	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEN3|A6NMN2|B3KVI4|B4E2L5|D3DRC2|Q4G0Y8|Q6P518|Q9H7B3	In_Frame_Del	DEL	ENST00000369280.1	37																																																																																					0.345	TDRD1-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000050457.2			-	115947635	AATTTG	-	115947630	7	5	602	1	0	1	0	1	0	0	0	0	15742	362	13	0	42	0	TDRD1	10	115947630	In_Frame_Del	DEL	AATTTG	TCGA-GL-A59R-01A-11D-A26P-10	27035854	115947630	19587117	66	36206										
ACCSL	390110	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	44079985	44079985	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	cacaaccgcagctctggcctCtatgtctggatcaacttgaa	8	13	4	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr11:44079985C>T	ENST00000378832.1	+	12	1502	c.1446C>T	c.(1444-1446)ctC>ctT	p.L482L		NM_001031854.2	NP_001027025.2	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase homolog (Arabidopsis)(non-functional)-like	482					biosynthetic process (GO:0009058)		catalytic activity (GO:0003824)|pyridoxal phosphate binding (GO:0030170)			central_nervous_system(1)|endometrium(6)|large_intestine(5)|lung(14)|ovary(5)|pancreas(1)|skin(2)	34						GCTCTGGCCTCTATGTCTGGA	0.532																																																0													134	136	135					11																	44079985		1985	4152	6137	SO:0001819	synonymous_variant	390110				CCDS41636.1	11p11.2	2008-11-26			ENSG00000205126	ENSG00000205126			34391	protein-coding gene	gene with protein product							Standard	NM_001031854		Approved		uc001mxw.1	Q4AC99	OTTHUMG00000166426	ENST00000378832.1:c.1446C>T	11.37:g.44079985C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000378832.1	37	CCDS41636.1																																																																																				0.532	ACCSL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389717.1	NM_001031854		T	44079985	C	T	44079985	2	4	602	1	0	0	0	0	0	0	0	1	134	900	32	2		2	ACCSL	11	44079985	Silent	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10		44079985	90926531	67	36207										
CNTF	1270	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	58391968	58391968	+	Frame_Shift_Del	DEL	T	T	-													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	atcccagcacgtgggagccaTtatattgctaacaacaagaa							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr11:58391968delT	ENST00000361987.4	+	2	656	c.576delT	c.(574-576)catfs	p.H192fs	ZFP91-CNTF_ENST00000389919.4_3'UTR	NM_000614.3	NP_000605.1	P26441	CNTF_HUMAN	ciliary neurotrophic factor	192					ciliary neurotrophic factor-mediated signaling pathway (GO:0070120)|growth (GO:0040007)|muscle organ morphogenesis (GO:0048644)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of photoreceptor cell differentiation (GO:0046533)|neuron development (GO:0048666)|positive regulation of cell proliferation (GO:0008284)|positive regulation of tyrosine phosphorylation of Stat3 protein (GO:0042517)|regulation of retinal cell programmed cell death (GO:0046668)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)	ciliary neurotrophic factor receptor binding (GO:0005127)|growth factor activity (GO:0008083)|interleukin-6 receptor binding (GO:0005138)			NS(1)|breast(1)|kidney(2)|large_intestine(4)|lung(1)|ovary(1)	10		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				GTGGGAGCCATTATATTGCTA	0.468																																																0													84	88	86					11																	58391968		2201	4295	6496	SO:0001589	frameshift_variant	1270			BC068030	CCDS31554.1	11q12	2011-07-21			ENSG00000242689	ENSG00000242689			2169	protein-coding gene	gene with protein product		118945				1840538, 1714745	Standard	NM_000614		Approved	HCNTF	uc001nna.4	P26441	OTTHUMG00000137476	ENST00000361987.4:c.576delT	11.37:g.58391968delT	ENSP00000355370:p.His192fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAB2	Frame_Shift_Del	DEL	ENST00000361987.4	37	CCDS31554.1																																																																																				0.468	CNTF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268673.1	NM_000614		-	58391968	T	-	58391968	7	5	602	1	0	1	0	1	0	0	0	0	3639	1490	52	0	582	0	CNTF	11	58391968	Frame_Shift_Del	DEL	T	TCGA-GL-A59R-01A-11D-A26P-10	14311983	58391968	76614548	68	36208										
RELA	5970	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	65425828	65425840	+	Frame_Shift_Del	DEL	GGAGACACGCACA	GGAGACACGCACA	-													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gaaggccgccgcagctgcatGgagacacgcacaggagcctg					rs375033007		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	GGAGACACGCACA	GGAGACACGCACA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr11:65425828_65425840delGGAGACACGCACA	ENST00000406246.3	-	8	1056_1068	c.795_807delTGTGCGTGTCTCC	c.(793-807)cctgtgcgtgtctccfs	p.PVRVS265fs	RELA_ENST00000308639.9_Frame_Shift_Del_p.PVRVS262fs|RELA_ENST00000525693.1_Frame_Shift_Del_p.PVRVS265fs	NM_001243984.1|NM_001243985.1|NM_021975.3	NP_001230913.1|NP_001230914.1|NP_068810.3	Q04206	TF65_HUMAN	v-rel avian reticuloendotheliosis viral oncogene homolog A	265	RHD. {ECO:0000255|PROSITE- ProRule:PRU00265}.				acetaldehyde metabolic process (GO:0006117)|aging (GO:0007568)|cellular defense response (GO:0006968)|cellular response to hydrogen peroxide (GO:0070301)|cellular response to interleukin-1 (GO:0071347)|cellular response to interleukin-6 (GO:0071354)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to nicotine (GO:0071316)|cellular response to peptide hormone stimulus (GO:0071375)|cellular response to tumor necrosis factor (GO:0071356)|cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|Fc-epsilon receptor signaling pathway (GO:0038095)|hair follicle development (GO:0001942)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|liver development (GO:0001889)|membrane protein intracellular domain proteolysis (GO:0031293)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic process (GO:0043066)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of protein catabolic process (GO:0042177)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neurotrophin TRK receptor signaling pathway (GO:0048011)|nucleotide-binding oligomerization domain containing 2 signaling pathway (GO:0070431)|organ morphogenesis (GO:0009887)|positive regulation of cell proliferation (GO:0008284)|positive regulation of chondrocyte differentiation (GO:0032332)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interleukin-12 biosynthetic process (GO:0045084)|positive regulation of miRNA metabolic process (GO:2000630)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of Schwann cell differentiation (GO:0014040)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of type I interferon production (GO:0032481)|regulation of inflammatory response (GO:0050727)|response to amino acid (GO:0043200)|response to cAMP (GO:0051591)|response to cobalamin (GO:0033590)|response to drug (GO:0042493)|response to insulin (GO:0032868)|response to interleukin-1 (GO:0070555)|response to mechanical stimulus (GO:0009612)|response to morphine (GO:0043278)|response to muramyl dipeptide (GO:0032495)|response to organic substance (GO:0010033)|response to progesterone (GO:0032570)|response to UV-B (GO:0010224)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	activating transcription factor binding (GO:0033613)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|identical protein binding (GO:0042802)|NF-kappaB binding (GO:0051059)|phosphate ion binding (GO:0042301)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|repressing transcription factor binding (GO:0070491)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001205)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)			central_nervous_system(1)|endometrium(1)|large_intestine(4)|lung(11)|ovary(1)|urinary_tract(1)	19						GCAGCTGCATGGAGACACGCACAGGAGCCTGCA	0.634																																																0																																										SO:0001589	frameshift_variant	5970			Z22951	CCDS31609.1, CCDS44651.1, CCDS73322.1	11q13	2013-07-09	2013-07-09		ENSG00000173039	ENSG00000173039			9955	protein-coding gene	gene with protein product		164014	"nuclear factor of kappa light polypeptide gene enhancer in B-cells 3"	NFKB3		2001591	Standard	NM_021975		Approved	p65	uc001ofg.3	Q04206	OTTHUMG00000166566	ENST00000406246.3:c.795_807delTGTGCGTGTCTCC	11.37:g.65425828_65425840delGGAGACACGCACA	ENSP00000384273:p.Pro265fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GTV1|Q6SLK1	Frame_Shift_Del	DEL	ENST00000406246.3	37	CCDS31609.1																																																																																				0.634	RELA-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000390457.2	NM_021975		-	65425840	GGAGACACGCACA	-	65425828	7	5	602	1	0	1	0	1	0	0	0	0	13229	1335	47	0	864	0	RELA	11	65425828	Frame_Shift_Del	DEL	GGAGACACGCACA	TCGA-GL-A59R-01A-11D-A26P-10	7033860	65425828	69580688	69	36209										
TSKU	25987	broad.mit.edu;bcgsc.ca	37	chr11	76507649	76507654	+	In_Frame_Del	DEL	GCTCCA	GCTCCA	-													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	cacctacccccggaggcctgGctccagccccaaggtggccc							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	GCTCCA	GCTCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr11:76507649_76507654delGCTCCA	ENST00000527881.1	+	2	2015_2020	c.989_994delGCTCCA	c.(988-996)ggctccagc>ggc	p.SS331del	TSKU_ENST00000333090.4_In_Frame_Del_p.SS331del			Q8WUA8	TSK_HUMAN	tsukushi, small leucine rich proteoglycan	331					anterior commissure morphogenesis (GO:0021960)|ciliary body morphogenesis (GO:0061073)|corpus callosum morphogenesis (GO:0021540)|lateral ventricle development (GO:0021670)|negative regulation of Wnt signaling pathway (GO:0030178)|regulation of gene expression (GO:0010468)	extracellular space (GO:0005615)				NS(1)|large_intestine(4)|lung(6)|urinary_tract(1)	12	Ovarian(111;0.112)					CGGAGGCCTGGCTCCAGCCCCAAGGT	0.689																																																0																																										SO:0001651	inframe_deletion	25987			AK075476	CCDS8246.1	11q13.5	2012-12-05	2012-12-05	2006-11-21	ENSG00000182704	ENSG00000182704			28850	protein-coding gene	gene with protein product		608015	"leucine rich repeat containing 54", "tsukushin", "tsukushi small leucine rich proteoglycan homolog (Xenopus laevis)"	LRRC54		11085516, 19710929, 22880013	Standard	NM_001258210		Approved	E2IG4, TSK	uc031qcw.1	Q8WUA8		ENST00000527881.1:c.989_994delGCTCCA	11.37:g.76507649_76507654delGCTCCA	ENSP00000434847:p.Ser331_Ser332del	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQT7|Q6UXK1|Q9UG10|Q9UJX9	In_Frame_Del	DEL	ENST00000527881.1	37	CCDS8246.1																																																																																				0.689	TSKU-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382871.1	NM_015516		-	76507654	GCTCCA	-	76507649	7	5	602	1	0	1	0	1	0	0	0	0	16639	1203	42	0	991	0	TSKU	11	76507649	In_Frame_Del	DEL	GCTCCA	TCGA-GL-A59R-01A-11D-A26P-10	11081821	76507649	58498867	70	36210										
EXPH5	23086	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	108381026	108381026	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gcttccctgaggctggtgaaTgtgatgggtgatggggctcc	17	8	0	4			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr11:108381026T>G	ENST00000265843.4	-	6	5318	c.5208A>C	c.(5206-5208)acA>acC	p.T1736T	EXPH5_ENST00000443411.1_Silent_p.T1548T|EXPH5_ENST00000428840.1_Silent_p.T1660T|EXPH5_ENST00000525344.1_Silent_p.T1729T	NM_015065.2	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5	1736					intracellular protein transport (GO:0006886)|keratinocyte development (GO:0003334)|multivesicular body sorting pathway (GO:0071985)|positive regulation of exocytosis (GO:0045921)|positive regulation of protein secretion (GO:0050714)	endosome (GO:0005768)	Rab GTPase binding (GO:0017137)			breast(3)|central_nervous_system(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(13)|liver(1)|lung(34)|ovary(3)|pancreas(2)|prostate(2)|skin(11)|stomach(3)|upper_aerodigestive_tract(1)	91		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)		GGCTGGTGAATGTGATGGGTG	0.468																																																0													85	91	89					11																	108381026		2201	4298	6499	SO:0001819	synonymous_variant	23086				CCDS8341.1	11q22.3	2008-02-05			ENSG00000110723	ENSG00000110723			30578	protein-coding gene	gene with protein product	"synaptotagmin-like homologue lacking C2 domains b"	612878				9734811, 11773082	Standard	NM_015065		Approved	SLAC2-B	uc001pkk.3	Q8NEV8	OTTHUMG00000166536	ENST00000265843.4:c.5208A>C	11.37:g.108381026T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q2KHM1|Q9Y4D6	Silent	SNP	ENST00000265843.4	37	CCDS8341.1																																																																																				0.468	EXPH5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390279.1	NM_015065		G	108381026	T	G	108381026	2	3	602	1	0	0	0	0	0	0	0	1	5324	1451	51	5		5	EXPH5	11	108381026	Silent	SNP	T	TCGA-GL-A59R-01A-11D-A26P-10	31873377	108381026	26625490	71	36211										
MCAM	4162	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	119182661	119182661	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tttccagcacctggcctgtcTgggatgagagatgggtcaga	14	9	2	3			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr11:119182661T>A	ENST00000264036.4	-	10	1158		c.e10-2		MCAM_ENST00000530144.2_5'Flank|MCAM_ENST00000392814.1_Splice_Site	NM_006500.2	NP_006491.2	P43121	MUC18_HUMAN	melanoma cell adhesion molecule						anatomical structure morphogenesis (GO:0009653)|cell adhesion (GO:0007155)|glomerular filtration (GO:0003094)|vascular wound healing (GO:0061042)	external side of plasma membrane (GO:0009897)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(2)|central_nervous_system(2)|endometrium(2)|large_intestine(4)|lung(6)|ovary(2)|prostate(3)|skin(1)	22		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.78e-05)		CTGGCCTGTCTGGGATGAGAG	0.632																																																0													90	93	92					11																	119182661		2199	4295	6494	SO:0001630	splice_region_variant	4162			X68264	CCDS31690.1	11q23.3	2013-01-29				ENSG00000076706		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6934	protein-coding gene	gene with protein product	"Gicerin"	155735				2602381, 10702685	Standard	XM_005271552		Approved	MUC18, CD146	uc001pwf.3	P43121		ENST00000264036.4:c.1144-2A>T	11.37:g.119182661T>A		Somatic		WXS	Illumina HiSeq	Phase_I	O95812|Q59E86|Q6PHR3|Q6ZTR2	Splice_Site	SNP	ENST00000264036.4	37	CCDS31690.1	.	.	.	.	.	.	.	.	.	.	T	15.24	2.776310	0.49786	.	.	ENSG00000076706	ENST00000264036;ENST00000392814	.	.	.	4.73	4.73	0.59995	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	8.4953	0.33125	0.0:0.0:0.1965:0.8035	.	.	.	.	.	-1	.	.	.	-	.	.	MCAM	118687871	1.000000	0.71417	0.979000	0.43373	0.886000	0.51366	4.238000	0.58688	1.973000	0.57446	0.379000	0.24179	.		0.632	MCAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388332.2		Intron	A	119182661	T	A	119182661	5	1	602	1	0	0	0	0	0	0	1	0	9375	1594	55	5	826	5	MCAM	11	119182661	Splice_Site	SNP	T	TCGA-GL-A59R-01A-11D-A26P-10	10801635	119182661	15823855	72	36212										
SLC2A14	144195	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	7984344	7984344	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tgtccgtcaaagttttattgAtaaattcctttatgatctgc	6	7	2	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr12:7984344A>T	ENST00000543909.1	-	9	956	c.197T>A	c.(196-198)aTc>aAc	p.I66N	SLC2A14_ENST00000542505.1_Intron|SLC2A14_ENST00000542546.1_Intron|SLC2A14_ENST00000396589.2_Missense_Mutation_p.I66N|SLC2A14_ENST00000431042.2_Missense_Mutation_p.I43N|SLC2A14_ENST00000340749.5_Missense_Mutation_p.I43N|SLC2A14_ENST00000535295.1_Intron|SLC2A14_ENST00000539924.1_Missense_Mutation_p.I81N			Q8TDB8	GTR14_HUMAN	solute carrier family 2 (facilitated glucose transporter), member 14	66					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)|nucleus (GO:0005634)	glucose transmembrane transporter activity (GO:0005355)			central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(9)|lung(12)|ovary(2)|prostate(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(1)	38				Kidney(36;0.0883)		AGTTTTATTGATAAATTCCTT	0.458											OREG0021654	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													89	86	87					12																	7984344		2203	4300	6503	SO:0001583	missense	144195			AF481878	CCDS8585.1, CCDS66300.1, CCDS66301.1, CCDS66302.1	12p13.31	2013-07-15			ENSG00000173262	ENSG00000173262		"Solute carriers"	18301	protein-coding gene	gene with protein product		611039	"solute carrier family 2 (facilitated glucose transporter), member 3 pseudogene 3"	SLC2A3P3		12504846	Standard	NM_001286234		Approved	GLUT14	uc001qtn.3	Q8TDB8	OTTHUMG00000168463	ENST00000543909.1:c.197T>A	12.37:g.7984344A>T	ENSP00000440480:p.Ile66Asn	Somatic	645	WXS	Illumina HiSeq	Phase_I	B3KVB5|B3KWW7|B7Z844|B7ZAC3|Q6UY84|Q8TDB9	Missense_Mutation	SNP	ENST00000543909.1	37	CCDS8585.1	.	.	.	.	.	.	.	.	.	.	A	13.77	2.337198	0.41398	.	.	ENSG00000173262	ENST00000340749;ENST00000543909;ENST00000431042;ENST00000396589;ENST00000539924;ENST00000546234;ENST00000542782;ENST00000535344;ENST00000537557;ENST00000535266;ENST00000542916;ENST00000535383	T;T;T;T;T;T;T;T;T;T;T;T	0.81163	-1.46;-1.46;-1.46;-1.46;-1.46;-1.46;-1.46;-1.46;-1.46;-1.46;-0.83;-0.83	3.6	3.6	0.41247	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.322524	0.33496	N	0.004853	D	0.84325	0.5447	M	0.70595	2.14	0.31524	N	0.662021	P;P;B	0.45428	0.858;0.81;0.093	P;P;B	0.57009	0.811;0.575;0.102	D	0.84462	0.0594	10	0.72032	D	0.01	.	6.4066	0.21668	0.781:0.0:0.0:0.219	.	81;43;66	B7ZAC3;Q8TDB8-2;Q8TDB8	.;.;GTR14_HUMAN	N	43;66;43;66;81;43;43;43;66;66;43;43	ENSP00000340450:I43N;ENSP00000440480:I66N;ENSP00000407287:I43N;ENSP00000379834:I66N;ENSP00000445929:I81N;ENSP00000440043:I43N;ENSP00000438312:I43N;ENSP00000443217:I43N;ENSP00000440044:I66N;ENSP00000437653:I66N;ENSP00000442402:I43N;ENSP00000443076:I43N	ENSP00000340450:I43N	I	-	2	0	SLC2A14	7875611	0.995000	0.38212	0.015000	0.15790	0.012000	0.07955	1.901000	0.39838	1.391000	0.46566	0.477000	0.44152	ATC		0.458	SLC2A14-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000399836.2	NM_153449		T	7984344	A	T	7984344	3	4	602	1	0	0	0	0	1	0	0	0	14556	333	12	5	1397	5	SLC2A14	12	7984344	Missense_Mutation	SNP	A	TCGA-GL-A59R-01A-11D-A26P-10		7984344	125867551	73	36213										
BCL2L14	79370	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	12247627	12247628	+	Frame_Shift_Del	DEL	CT	CT	-													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gataaggctttgatgggccaCttccaggatgggctgtccta							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr12:12247627_12247628delCT	ENST00000308721.5	+	5	914_915	c.708_709delCT	c.(706-711)cacttcfs	p.F237fs	BCL2L14_ENST00000586576.1_Frame_Shift_Del_p.F270fs|BCL2L14_ENST00000396369.1_Intron|BCL2L14_ENST00000266434.4_3'UTR|BCL2L14_ENST00000396367.1_Frame_Shift_Del_p.F237fs|BCL2L14_ENST00000589718.1_Frame_Shift_Del_p.F237fs	NM_138723.1	NP_620049.1	Q9BZR8	B2L14_HUMAN	BCL2-like 14 (apoptosis facilitator)	237					apoptotic process (GO:0006915)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|regulation of apoptotic process (GO:0042981)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intracellular organelle (GO:0043229)|membrane (GO:0016020)	protein kinase binding (GO:0019901)			large_intestine(1)|lung(2)|skin(3)	6		Prostate(47;0.0872)		BRCA - Breast invasive adenocarcinoma(232;0.154)		TGATGGGCCACTTCCAGGATGG	0.49																																																0																																										SO:0001589	frameshift_variant	79370			AF281254	CCDS8645.1, CCDS8646.1	12p13-p12	2014-03-07			ENSG00000121380	ENSG00000121380			16657	protein-coding gene	gene with protein product		606126				11054413	Standard	NM_030766		Approved	BCLG, BCL-G	uc001rac.3	Q9BZR8	OTTHUMG00000159528	ENST00000308721.5:c.708_709delCT	12.37:g.12247627_12247628delCT	ENSP00000309132:p.Phe237fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAD0|Q96QR5|Q9BZR7	Frame_Shift_Del	DEL	ENST00000308721.5	37	CCDS8645.1																																																																																				0.49	BCL2L14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355994.3	NM_030766		-	12247628	CT	-	12247627	7	5	602	1	0	1	0	1	0	0	0	0	1372	564	20	0	807	0	BCL2L14	12	12247627	Frame_Shift_Del	DEL	CT	TCGA-GL-A59R-01A-11D-A26P-10	4263283	12247627	121604268	74	36214										
LRP6	4040	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	12274330	12274330	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ggtgtggtggggggtgcaaaGtgccggtagctatatggcct	19	6	0	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr12:12274330G>C	ENST00000261349.4	-	23	4648	c.4572C>G	c.(4570-4572)caC>caG	p.H1524Q	BCL2L14_ENST00000396369.1_Intron|LRP6_ENST00000543091.1_Missense_Mutation_p.H1479Q	NM_002336.2	NP_002327.2	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein 6	1524					anterior/posterior pattern specification (GO:0009952)|axis elongation involved in somitogenesis (GO:0090245)|bone morphogenesis (GO:0060349)|bone remodeling (GO:0046849)|branching involved in mammary gland duct morphogenesis (GO:0060444)|canonical Wnt signaling pathway (GO:0060070)|canonical Wnt signaling pathway involved in cardiac neural crest cell differentiation involved in heart development (GO:0061310)|canonical Wnt signaling pathway involved in neural crest cell differentiation (GO:0044335)|canonical Wnt signaling pathway involved in positive regulation of cardiac outflow tract cell proliferation (GO:0061324)|canonical Wnt signaling pathway involved in regulation of cell proliferation (GO:0044340)|cell migration involved in gastrulation (GO:0042074)|cellular response to cholesterol (GO:0071397)|cerebellum morphogenesis (GO:0021587)|cerebral cortex cell migration (GO:0021795)|cerebral cortex development (GO:0021987)|convergent extension (GO:0060026)|dopaminergic neuron differentiation (GO:0071542)|embryonic camera-type eye morphogenesis (GO:0048596)|embryonic digit morphogenesis (GO:0042733)|embryonic forelimb morphogenesis (GO:0035115)|embryonic hindlimb morphogenesis (GO:0035116)|embryonic limb morphogenesis (GO:0030326)|embryonic pattern specification (GO:0009880)|embryonic retina morphogenesis in camera-type eye (GO:0060059)|external genitalia morphogenesis (GO:0035261)|face morphogenesis (GO:0060325)|forebrain radial glial cell differentiation (GO:0021861)|formation of radial glial scaffolds (GO:0021943)|gastrulation with mouth forming second (GO:0001702)|heart looping (GO:0001947)|mammary placode formation (GO:0060596)|midbrain development (GO:0030901)|midbrain-hindbrain boundary development (GO:0030917)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of planar cell polarity pathway involved in cardiac muscle tissue morphogenesis (GO:2000151)|negative regulation of planar cell polarity pathway involved in cardiac right atrium morphogenesis (GO:2000162)|negative regulation of planar cell polarity pathway involved in neural tube closure (GO:2000168)|negative regulation of planar cell polarity pathway involved in outflow tract morphogenesis (GO:2000164)|negative regulation of planar cell polarity pathway involved in pericardium morphogenesis (GO:2000166)|negative regulation of planar cell polarity pathway involved in ventricular septum morphogenesis (GO:2000149)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of protein serine/threonine kinase activity (GO:0071901)|negative regulation of smooth muscle cell apoptotic process (GO:0034392)|neural crest cell differentiation (GO:0014033)|neural crest formation (GO:0014029)|neural tube closure (GO:0001843)|odontogenesis of dentin-containing tooth (GO:0042475)|palate development (GO:0060021)|pericardium morphogenesis (GO:0003344)|positive regulation of apoptotic process (GO:0043065)|positive regulation of bone resorption (GO:0045780)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cell cycle (GO:0045787)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of ossification (GO:0045778)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of Wnt signaling pathway involved in dorsal/ventral axis specification (GO:2000055)|post-anal tail morphogenesis (GO:0036342)|primitive streak formation (GO:0090009)|receptor-mediated endocytosis of low-density lipoprotein particle involved in cholesterol transport (GO:0090118)|regulation of cell development (GO:0060284)|regulation of fat cell differentiation (GO:0045598)|regulation of ossification (GO:0030278)|response to folic acid (GO:0051593)|response to peptide hormone (GO:0043434)|single organismal cell-cell adhesion (GO:0016337)|synaptic transmission (GO:0007268)|thalamus development (GO:0021794)|toxin transport (GO:1901998)|trachea cartilage morphogenesis (GO:0060535)|Wnt signaling pathway (GO:0016055)|Wnt signaling pathway involved in dorsal/ventral axis specification (GO:0044332)|Wnt signaling pathway involved in forebrain neuroblast division (GO:0021874)|Wnt signaling pathway involved in somitogenesis (GO:0090244)	cell surface (GO:0009986)|cytoplasmic vesicle (GO:0031410)|early endosome (GO:0005769)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|synapse (GO:0045202)	apolipoprotein binding (GO:0034185)|coreceptor activity involved in Wnt signaling pathway (GO:0071936)|frizzled binding (GO:0005109)|identical protein binding (GO:0042802)|kinase inhibitor activity (GO:0019210)|low-density lipoprotein receptor activity (GO:0005041)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)|toxin transporter activity (GO:0019534)|Wnt-activated receptor activity (GO:0042813)|Wnt-protein binding (GO:0017147)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(19)|lung(28)|ovary(3)|prostate(2)|skin(7)|upper_aerodigestive_tract(5)|urinary_tract(1)	85		Prostate(47;0.0865)				GGGGTGCAAAGTGCCGGTAGC	0.463																																																0													99	103	101					12																	12274330		2203	4300	6503	SO:0001583	missense	4040			AF074264	CCDS8647.1	12p13.2	2013-05-29			ENSG00000070018	ENSG00000070018		"Low density lipoprotein receptors"	6698	protein-coding gene	gene with protein product		603507				9704021	Standard	NM_002336		Approved	ADCAD2	uc001rah.4	O75581	OTTHUMG00000168540	ENST00000261349.4:c.4572C>G	12.37:g.12274330G>C	ENSP00000261349:p.His1524Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RZ2	Missense_Mutation	SNP	ENST00000261349.4	37	CCDS8647.1	.	.	.	.	.	.	.	.	.	.	G	12.94	2.088550	0.36855	.	.	ENSG00000070018	ENST00000261349;ENST00000543091	D;D	0.92911	-3.07;-3.13	5.86	4.96	0.65561	.	0.000000	0.64402	D	0.000004	D	0.89663	0.6780	L	0.43152	1.355	0.54753	D	0.999989	D;P	0.54207	0.965;0.607	P;B	0.47981	0.563;0.177	D	0.88842	0.3313	10	0.52906	T	0.07	.	9.8375	0.40977	0.2372:0.0:0.7628:0.0	.	1479;1524	F5H7J9;O75581	.;LRP6_HUMAN	Q	1524;1479	ENSP00000261349:H1524Q;ENSP00000442472:H1479Q	ENSP00000261349:H1524Q	H	-	3	2	LRP6	12165597	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	1.704000	0.37857	2.780000	0.95670	0.643000	0.83706	CAC		0.463	LRP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400137.1			C	12274330	G	C	12274330	3	2	602	1	0	0	0	0	1	0	0	0	8969	1020	36	4	273	4	LRP6	12	12274330	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	26703	12274330	121577565	75	36215										
ARID2	196528	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	46244883	46244883	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ctgccatgtcgtcgtcctctAcccctcaatcacagggacca	7	17	3	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr12:46244883A>T	ENST00000334344.6	+	15	3149	c.2977A>T	c.(2977-2979)Acc>Tcc	p.T993S	ARID2_ENST00000479608.1_3'UTR|ARID2_ENST00000444670.1_Missense_Mutation_p.T603S|ARID2_ENST00000422737.1_Missense_Mutation_p.T844S|ARID2_ENST00000457135.1_5'Flank	NM_152641.2	NP_689854.2	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	993	Gln-rich.				chromatin modification (GO:0016568)|nucleosome disassembly (GO:0006337)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|autonomic_ganglia(1)|breast(7)|central_nervous_system(3)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(21)|liver(20)|lung(34)|ovary(7)|pancreas(1)|prostate(2)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	116	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)		GTCGTCCTCTACCCCTCAATC	0.498			"N, S, F"		hepatocellular carcinoma																																		Rec	yes		12	12q12	196528	AT rich interactive domain 2		E	0													246	213	224					12																	46244883		2203	4300	6503	SO:0001583	missense	196528				CCDS31783.1	12q13.11	2013-02-07			ENSG00000189079	ENSG00000189079		"-"	18037	protein-coding gene	gene with protein product		609539					Standard	NM_152641		Approved	KIAA1557, DKFZp686G052, FLJ30619, BAF200	uc001ros.1	Q68CP9	OTTHUMG00000150487	ENST00000334344.6:c.2977A>T	12.37:g.46244883A>T	ENSP00000335044:p.Thr993Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q15KG9|Q5EB51|Q645I3|Q6ZRY5|Q7Z3I5|Q86T28|Q96SJ6|Q9HCL5	Missense_Mutation	SNP	ENST00000334344.6	37	CCDS31783.1	.	.	.	.	.	.	.	.	.	.	A	5.023	0.189957	0.09547	.	.	ENSG00000189079	ENST00000334344;ENST00000549153;ENST00000338636;ENST00000422737;ENST00000444670	T	0.33438	1.41	5.66	2.06	0.26882	.	0.394387	0.30593	N	0.009288	T	0.17746	0.0426	N	0.19112	0.55	0.80722	D	1	B;B;B	0.26147	0.143;0.143;0.104	B;B;B	0.30572	0.117;0.075;0.039	T	0.06041	-1.0849	10	0.31617	T	0.26	-1.4259	6.2264	0.20710	0.6727:0.124:0.2032:0.0	.	993;603;993	Q68CP9-3;F8W108;Q68CP9	.;.;ARID2_HUMAN	S	993;110;110;844;603	ENSP00000335044:T993S	ENSP00000335044:T993S	T	+	1	0	ARID2	44531150	0.976000	0.34144	0.996000	0.52242	0.380000	0.30137	1.302000	0.33459	0.425000	0.26087	0.379000	0.24179	ACC		0.498	ARID2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318380.2	XM_350875		T	46244883	A	T	46244883	3	4	602	1	0	0	0	0	1	0	0	0	915	391	14	5	3035	5	ARID2	12	46244883	Missense_Mutation	SNP	A	TCGA-GL-A59R-01A-11D-A26P-10	33970553	46244883	87607012	76	36216										
KRT6B	3854	broad.mit.edu;bcgsc.ca	37	chr12	52845508	52845508	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	agggcccccaaagccaccagCaaggccggctccaccaccca	9	20	0	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr12:52845508C>G	ENST00000252252.3	-	1	402	c.355G>C	c.(355-357)Gct>Cct	p.A119P		NM_005555.3	NP_005546.2	P04259	K2C6B_HUMAN	keratin 6B	119	Head.			AGG -> LC (in Ref. 2; AAA59466). {ECO:0000305}.	ectoderm development (GO:0007398)	extracellular vesicular exosome (GO:0070062)|keratin filament (GO:0045095)	structural constituent of cytoskeleton (GO:0005200)			NS(1)|breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(19)|ovary(4)|prostate(2)	40				BRCA - Breast invasive adenocarcinoma(357;0.083)		AAGCCACCAGCAAGGCCGGCT	0.627																																																0													18	29	25					12																	52845508		2173	4289	6462	SO:0001583	missense	3854			BC034535	CCDS8828.1	12q13.13	2013-01-16	2004-08-11		ENSG00000185479	ENSG00000185479		"-", "Intermediate filaments type II, keratins (basic)"	6444	protein-coding gene	gene with protein product		148042	"keratin-like 1 (a type II keratin sequence)"	KRTL1		1713141, 16831889	Standard	NM_005555		Approved		uc001sak.3	P04259	OTTHUMG00000169593	ENST00000252252.3:c.355G>C	12.37:g.52845508C>G	ENSP00000252252:p.Ala119Pro	Somatic		WXS	Illumina HiSeq	Phase_I	P48669	Missense_Mutation	SNP	ENST00000252252.3	37	CCDS8828.1	.	.	.	.	.	.	.	.	.	.	C	15.09	2.729920	0.48833	.	.	ENSG00000185479	ENST00000252252;ENST00000544607	D	0.91740	-2.9	3.19	3.19	0.36642	.	0.434509	0.19735	N	0.107247	D	0.86506	0.5949	L	0.39898	1.24	0.27998	N	0.935415	B	0.27882	0.192	B	0.20384	0.029	T	0.78001	-0.2375	10	0.29301	T	0.29	.	12.7094	0.57082	0.0:1.0:0.0:0.0	.	119	P04259	K2C6B_HUMAN	P	119	ENSP00000252252:A119P	ENSP00000252252:A119P	A	-	1	0	KRT6B	51131775	0.651000	0.27340	0.984000	0.44739	0.868000	0.49771	5.122000	0.64697	2.107000	0.64212	0.298000	0.19748	GCT		0.627	KRT6B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404969.1	NM_005555		G	52845508	C	G	52845508	3	3	602	1	0	0	0	0	1	0	0	0	8488	710	25	4	1375	4	KRT6B	12	52845508	Missense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	6600625	52845508	81006387	77	36217										
SRGAP1	57522	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	64521384	64521384	+	Nonsense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	cttcagggatgatacgttttCagacactctgagccaaaaag	9	9	3	3			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr12:64521384C>G	ENST00000355086.3	+	20	2944	c.2420C>G	c.(2419-2421)tCa>tGa	p.S807*	SRGAP1_ENST00000357825.3_Nonsense_Mutation_p.S784*|SRGAP1_ENST00000543397.1_Nonsense_Mutation_p.S744*	NM_020762.2	NP_065813.1	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	807					axon guidance (GO:0007411)|cell migration (GO:0016477)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	Rho GTPase activator activity (GO:0005100)			breast(4)|central_nervous_system(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(26)|ovary(2)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	65			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		GATACGTTTTCAGACACTCTG	0.438																																																0													69	60	63					12																	64521384		2203	4300	6503	SO:0001587	stop_gained	57522			AB037725	CCDS8967.1	12q13.13	2011-07-04			ENSG00000196935	ENSG00000196935		"Rho GTPase activating proteins"	17382	protein-coding gene	gene with protein product		606523				11672528	Standard	NM_020762		Approved	KIAA1304, ARHGAP13	uc010ssp.1	Q7Z6B7	OTTHUMG00000168750	ENST00000355086.3:c.2420C>G	12.37:g.64521384C>G	ENSP00000347198:p.Ser807*	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H8A3|Q9P2P2	Nonsense_Mutation	SNP	ENST00000355086.3	37	CCDS8967.1	.	.	.	.	.	.	.	.	.	.	C	51	18.575766	0.99907	.	.	ENSG00000196935	ENST00000355086;ENST00000357825;ENST00000543397	.	.	.	5.46	5.46	0.80206	.	0.000000	0.30890	U	0.008668	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	19.6651	0.95890	0.0:1.0:0.0:0.0	.	.	.	.	X	807;784;744	.	.	S	+	2	0	SRGAP1	62807651	1.000000	0.71417	1.000000	0.80357	0.417000	0.31264	7.525000	0.81892	2.722000	0.93159	0.650000	0.86243	TCA		0.438	SRGAP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000400896.1			G	64521384	C	G	64521384	4	3	602	1	0	0	0	0	0	1	0	0	15157	838	29	4	2498	4	SRGAP1	12	64521384	Nonsense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	11675876	64521384	69330511	78	36218										
NAV3	89795	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	78591182	78591182	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	aattgtaaatacaacaaatgGtatgcttatcaaatattctg	5	5	2	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr12:78591182G>C	ENST00000397909.2	+	35	6619		c.e35+1		NAV3_ENST00000266692.7_Splice_Site|NAV3_ENST00000541270.1_5'Flank|NAV3_ENST00000228327.6_Splice_Site|NAV3_ENST00000536525.2_Splice_Site			Q8IVL0	NAV3_HUMAN	neuron navigator 3							membrane (GO:0016020)|nuclear envelope (GO:0005635)				NS(2)|breast(5)|central_nervous_system(2)|cervix(1)|endometrium(13)|kidney(16)|large_intestine(39)|liver(2)|lung(126)|ovary(5)|pancreas(3)|prostate(6)|skin(5)|stomach(2)|upper_aerodigestive_tract(8)|urinary_tract(1)	236						ACAACAAATGGTATGCTTATC	0.284										HNSCC(70;0.22)																																						0													83	73	76					12																	78591182		1798	4068	5866	SO:0001630	splice_region_variant	89795			AB023155	CCDS41815.1, CCDS66432.1	12q14.3	2008-08-05				ENSG00000067798			15998	protein-coding gene	gene with protein product	"pore membrane and/or filament interacting like protein 1", "steerin 3"	611629				12079279, 12062803	Standard	XM_005269215		Approved	KIAA0938, POMFIL1	uc001syo.3	Q8IVL0	OTTHUMG00000170001	ENST00000397909.2:c.6446+1G>C	12.37:g.78591182G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NFW7|Q9Y2E7	Splice_Site	SNP	ENST00000397909.2	37		.	.	.	.	.	.	.	.	.	.	G	25.5	4.648927	0.87958	.	.	ENSG00000067798	ENST00000536525;ENST00000397909;ENST00000228327;ENST00000266692;ENST00000378640;ENST00000552895;ENST00000550788	.	.	.	5.54	5.54	0.83059	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	19.8339	0.96646	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	NAV3	77115313	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	9.813000	0.99286	2.751000	0.94390	0.655000	0.94253	.		0.284	NAV3-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000406812.1	NM_001024383	Intron	C	78591182	G	C	78591182	5	2	602	1	0	0	0	0	0	0	1	0	10192	1275	44	4	6515	4	NAV3	12	78591182	Splice_Site	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	14069798	78591182	55260713	79	36219										
UBE2N	7334	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	93804921	93804921	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ctttaggggctgccattgggTattcttctggaaggaatagt	13	6	2	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr12:93804921T>A	ENST00000318066.2	-	2	562	c.185A>T	c.(184-186)tAc>tTc	p.Y62F	UBE2N_ENST00000550657.1_Missense_Mutation_p.Y62F|UBE2N_ENST00000549833.1_5'UTR|UBE2N_ENST00000552442.1_Missense_Mutation_p.Y62F	NM_003348.3	NP_003339.1	P61088	UBE2N_HUMAN	ubiquitin-conjugating enzyme E2N	62					cellular protein modification process (GO:0006464)|cytokine-mediated signaling pathway (GO:0019221)|DNA double-strand break processing (GO:0000729)|double-strand break repair via homologous recombination (GO:0000724)|Fc-epsilon receptor signaling pathway (GO:0038095)|histone ubiquitination (GO:0016574)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of DNA repair (GO:0045739)|positive regulation of histone modification (GO:0031058)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of ubiquitin-protein transferase activity (GO:0051443)|postreplication repair (GO:0006301)|protein K63-linked ubiquitination (GO:0070534)|protein ubiquitination (GO:0016567)|proteolysis (GO:0006508)|regulation of DNA repair (GO:0006282)|regulation of histone ubiquitination (GO:0033182)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|protein complex (GO:0043234)|UBC13-MMS2 complex (GO:0031372)|UBC13-UEV1A complex (GO:0035370)|ubiquitin ligase complex (GO:0000151)	acid-amino acid ligase activity (GO:0016881)|ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|ubiquitin binding (GO:0043130)|ubiquitin-protein transferase activity (GO:0004842)			endometrium(3)|liver(2)|lung(5)	10						TGCCATTGGGTATTCTTCTGG	0.413								Direct reversal of damage;Rad6 pathway																													Pancreas(197;738 2228 30225 32034 33454)											0													93	93	93					12																	93804921		2203	4300	6503	SO:0001583	missense	7334			D83004	CCDS31875.1	12q22	2011-05-19	2011-05-19			ENSG00000177889		"Ubiquitin-conjugating enzymes E2"	12492	protein-coding gene	gene with protein product		603679	"ubiquitin-conjugating enzyme E2N (homologous to yeast UBC13)", "ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast)"			8902611	Standard	NM_003348		Approved	UbcH-ben, UBC13, MGC8489	uc001tcp.3	P61088	OTTHUMG00000170156	ENST00000318066.2:c.185A>T	12.37:g.93804921T>A	ENSP00000316176:p.Tyr62Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q16781|Q53Y81	Missense_Mutation	SNP	ENST00000318066.2	37	CCDS31875.1	.	.	.	.	.	.	.	.	.	.	T	26.3	4.722514	0.89298	.	.	ENSG00000177889	ENST00000318066;ENST00000550657;ENST00000552442	D;D;D	0.85861	-2.04;-2.04;-2.04	5.94	5.94	0.96194	Ubiquitin-conjugating enzyme, E2 (2);Ubiquitin-conjugating enzyme/RWD-like (2);	0.000000	0.41194	U	0.000927	D	0.92567	0.7639	M	0.80028	2.48	0.80722	D	1	D	0.89917	1.0	D	0.81914	0.995	D	0.93404	0.6763	10	0.87932	D	0	.	16.4075	0.83691	0.0:0.0:0.0:1.0	.	62	P61088	UBE2N_HUMAN	F	62	ENSP00000316176:Y62F;ENSP00000449352:Y62F;ENSP00000448352:Y62F	ENSP00000316176:Y62F	Y	-	2	0	UBE2N	92329052	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.153000	0.71819	2.275000	0.75901	0.528000	0.53228	TAC		0.413	UBE2N-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407710.1	NM_003348		A	93804921	T	A	93804921	3	1	602	1	0	0	0	0	1	0	0	0	16878	1638	57	5	285	5	UBE2N	12	93804921	Missense_Mutation	SNP	T	TCGA-GL-A59R-01A-11D-A26P-10	15213739	93804921	40046974	80	36220										
ATXN2	6311	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	111926345	111926345	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	catgctgggctggaagtctgAaccccttgggaagtgacctc	13	11	1	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr12:111926345A>G	ENST00000377617.3	-	15	2816	c.2655T>C	c.(2653-2655)gtT>gtC	p.V885V	ATXN2_ENST00000550104.1_Silent_p.V885V|ATXN2_ENST00000608853.1_Silent_p.V725V|ATXN2_ENST00000389153.4_Silent_p.V620V|ATXN2_ENST00000535949.1_Silent_p.V596V|ATXN2_ENST00000542287.2_Silent_p.V620V|AC002395.1_ENST00000581907.1_RNA	NM_002973.3	NP_002964.3	Q99700	ATX2_HUMAN	ataxin 2	885					cell death (GO:0008219)|cerebellar Purkinje cell differentiation (GO:0021702)|cytoplasmic mRNA processing body assembly (GO:0033962)|homeostasis of number of cells (GO:0048872)|negative regulation of multicellular organism growth (GO:0040015)|negative regulation of receptor internalization (GO:0002091)|neuromuscular process (GO:0050905)|neuron projection morphogenesis (GO:0048812)|regulation of translation (GO:0006417)|RNA metabolic process (GO:0016070)|RNA transport (GO:0050658)|stress granule assembly (GO:0034063)	cytoplasm (GO:0005737)|cytoplasmic stress granule (GO:0010494)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|polysome (GO:0005844)|ribonucleoprotein complex (GO:0030529)|trans-Golgi network (GO:0005802)	epidermal growth factor receptor binding (GO:0005154)|poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)|RNA binding (GO:0003723)			NS(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(6)|kidney(5)|large_intestine(8)|lung(6)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	37						TGGAAGTCTGAACCCCTTGGG	0.498																																																0													122	117	119					12																	111926345		2203	4300	6503	SO:0001819	synonymous_variant	6311			U80749	CCDS31902.1	12q23-q24.1	2014-09-17	2004-08-12	2004-08-13	ENSG00000204842	ENSG00000204842		"Ataxins"	10555	protein-coding gene	gene with protein product	"trinucleotide repeat containing 13"	601517	"spinocerebellar ataxia 2 (olivopontocerebellar ataxia 2, autosomal dominant, ataxin 2)"	SCA2, TNRC13		8358438, 9225980	Standard	NM_002973		Approved	ATX2	uc001tsj.3	Q99700	OTTHUMG00000133475	ENST00000377617.3:c.2655T>C	12.37:g.111926345A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NLD4|Q6ZQZ7|Q99493	Silent	SNP	ENST00000377617.3	37	CCDS31902.1																																																																																				0.498	ATXN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257351.3	NM_002973		G	111926345	A	G	111926345	2	3	602	1	0	0	0	0	0	0	0	1	1211	233	9	3		3	ATXN2	12	111926345	Silent	SNP	A	TCGA-GL-A59R-01A-11D-A26P-10	18121424	111926345	21925550	81	36221										
CIT	11113	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	120158284	120158284	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ttcaaacactttgactcaccTttttctttttagcaggttgg	6	9	3	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr12:120158284T>C	ENST00000261833.7	-	29	3765	c.3713A>G	c.(3712-3714)aAg>aGg	p.K1238R	CIT_ENST00000537607.1_5'UTR|CIT_ENST00000392521.2_Splice_Site_p.K1280R	NM_007174.2	NP_009105.1	O14578	CTRO_HUMAN	citron rho-interacting serine/threonine kinase	1238	Interaction with Rho/Rac.				cytokinesis (GO:0000910)|dendrite development (GO:0016358)|G2/M transition of mitotic cell cycle (GO:0000086)|generation of neurons (GO:0048699)|Golgi organization (GO:0007030)|intracellular signal transduction (GO:0035556)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|mitotic nuclear division (GO:0007067)|mitotic sister chromatid segregation (GO:0000070)|negative regulation of dendrite morphogenesis (GO:0050774)|regulation of actin polymerization or depolymerization (GO:0008064)|spermatogenesis (GO:0007283)	actin cytoskeleton (GO:0015629)|Golgi cisterna (GO:0031985)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|ruffle (GO:0001726)|vacuole (GO:0005773)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|PDZ domain binding (GO:0030165)|protein serine/threonine kinase activity (GO:0004674)|small GTPase regulator activity (GO:0005083)			breast(6)|endometrium(9)|kidney(4)|large_intestine(15)|liver(1)|lung(29)|ovary(7)|prostate(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(6)	86	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		TTGACTCACCTTTTTCTTTTT	0.373																																																0													136	130	132					12																	120158284		2203	4299	6502	SO:0001630	splice_region_variant	11113			AB023166	CCDS9192.1, CCDS55891.1	12q24.23	2014-04-23	2014-04-23		ENSG00000122966	ENSG00000122966			1985	protein-coding gene	gene with protein product	"serine/threonine kinase 21"	605629	"citron (rho-interacting, serine/threonine kinase 21)"			9792683	Standard	NM_001206999		Approved	KIAA0949, STK21, CRIK	uc001txj.2	O14578	OTTHUMG00000134325	ENST00000261833.7:c.3714+1A>G	12.37:g.120158284T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M5E1|Q6XUH8|Q86UQ9|Q9UPZ7	Missense_Mutation	SNP	ENST00000261833.7	37	CCDS9192.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	18.70|18.70	3.680696|3.680696	0.68042|0.68042	.|.	.|.	ENSG00000122966|ENSG00000122966	ENST00000392521;ENST00000261833|ENST00000392520	T;T|.	0.69806|.	-0.42;-0.43|.	5.78|5.78	5.78|5.78	0.91487|0.91487	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.72070|0.72070	0.3415|0.3415	M|M	0.62723|0.62723	1.935|1.935	0.80722|0.80722	D|D	1|1	B;D;P|.	0.69078|.	0.355;0.997;0.734|.	B;D;B|.	0.73380|.	0.1;0.98;0.203|.	T|T	0.70880|0.70880	-0.4752|-0.4752	10|5	0.24483|.	T|.	0.36|.	.|.	16.1193|16.1193	0.81336|0.81336	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	1280;1238;771|.	Q2M5E1;O14578;O14578-3|.	.;CTRO_HUMAN;.|.	R|G	1280;1238|866	ENSP00000376306:K1280R;ENSP00000261833:K1238R|.	ENSP00000261833:K1238R|.	K|R	-|-	2|1	0|2	CIT|CIT	118642667|118642667	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	8.040000|8.040000	0.89188|0.89188	2.204000|2.204000	0.70986|0.70986	0.528000|0.528000	0.53228|0.53228	AAG|AGG		0.373	CIT-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000259410.4	NM_007174	Missense_Mutation	C	120158284	T	C	120158284	5	2	602	1	0	0	0	0	0	0	1	0	3440	1623	56	3	2446	3	CIT	12	120158284	Splice_Site	SNP	T	TCGA-GL-A59R-01A-11D-A26P-10	8231939	120158284	13693611	82	36222										
KIAA0564	23078	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	42440068	42440068	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	attaaacatatatctttaacCatgtgagactgcatcatttc	4	8	2	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr13:42440068C>T	ENST00000379310.3	-	11	1385	c.1317G>A	c.(1315-1317)atG>atA	p.M439I	VWA8_ENST00000281496.6_Missense_Mutation_p.M439I	NM_015058.1	NP_055873.1	A3KMH1	VWA8_HUMAN	von Willebrand factor A domain containing 8	439						extracellular region (GO:0005576)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)										TATCTTTAACCATGTGAGACT	0.418																																																0													146	148	147					13																	42440068		2203	4300	6503	SO:0001583	missense	23078			AB011136	CCDS31963.1, CCDS41881.1	13q14.11	2013-11-18	2012-08-02	2012-08-02	ENSG00000102763	ENSG00000102763			29071	protein-coding gene	gene with protein product			"KIAA0564"	KIAA0564		9628581	Standard	NM_015058		Approved		uc001uyj.3	A3KMH1	OTTHUMG00000016799	ENST00000379310.3:c.1317G>A	13.37:g.42440068C>T	ENSP00000368612:p.Met439Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O60310|Q5JTP6|Q5VW08|Q7Z6I9|Q86YC9|Q8N3E4	Missense_Mutation	SNP	ENST00000379310.3	37	CCDS41881.1	.	.	.	.	.	.	.	.	.	.	C	12.78	2.040196	0.35989	.	.	ENSG00000102763	ENST00000251030;ENST00000379310;ENST00000281496;ENST00000398857	T;T	0.38401	1.14;1.14	5.3	5.3	0.74995	ATPase, AAA+ type, core (1);	0.109015	0.64402	D	0.000017	T	0.33381	0.0861	L	0.46157	1.445	0.43467	D	0.995671	B	0.02656	0.0	B	0.09377	0.004	T	0.17471	-1.0368	10	0.11182	T	0.66	.	19.3149	0.94208	0.0:1.0:0.0:0.0	.	439	A3KMH1	K0564_HUMAN	I	343;439;439;439	ENSP00000368612:M439I;ENSP00000281496:M439I	ENSP00000251030:M343I	M	-	3	0	KIAA0564	41338068	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	3.386000	0.52492	2.631000	0.89168	0.563000	0.77884	ATG		0.418	VWA8-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354828.2	NM_015058		T	42440068	C	T	42440068	3	4	602	1	0	0	0	0	1	0	0	0	8192	594	21	2	4544	2	KIAA0564	13	42440068	Missense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10		42440068	72729810	83	36223										
TDRD3	81550	broad.mit.edu	37	chr13	61060035	61060035	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	caaatgataatgatgaatttGaaaagcaaaggacggctgct	10	5	0	4			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr13:61060035G>A	ENST00000196169.3	+	7	1179	c.391G>A	c.(391-393)Gaa>Aaa	p.E131K	TDRD3_ENST00000377881.2_Missense_Mutation_p.E131K|TDRD3_ENST00000535286.1_Missense_Mutation_p.E224K|TDRD3_ENST00000377894.2_Missense_Mutation_p.E131K	NM_001146071.1|NM_030794.2	NP_001139543.1|NP_110421.1	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3	131					chromatin modification (GO:0016568)|regulation of RNA biosynthetic process (GO:2001141)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|methylated histone binding (GO:0035064)|poly(A) RNA binding (GO:0044822)|transcription coactivator activity (GO:0003713)			breast(1)|endometrium(3)|kidney(2)|large_intestine(10)|liver(1)|lung(16)|skin(2)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	40		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		TGATGAATTTGAAAAGCAAAG	0.348																																					Colon(36;164 906 35820 50723)											0													94	88	90					13																	61060035		2203	4300	6503	SO:0001583	missense	81550			AK023578	CCDS9441.1, CCDS53872.1	13q14.3	2013-01-23			ENSG00000083544	ENSG00000083544		"Tudor domain containing"	20612	protein-coding gene	gene with protein product		614392					Standard	NM_030794		Approved	FLJ21007	uc010aeg.3	Q9H7E2	OTTHUMG00000017007	ENST00000196169.3:c.391G>A	13.37:g.61060035G>A	ENSP00000196169:p.Glu131Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2MWP9|Q53XA6|Q6P992	Missense_Mutation	SNP	ENST00000196169.3	37	CCDS9441.1	.	.	.	.	.	.	.	.	.	.	G	21.4	4.142203	0.77775	.	.	ENSG00000083544	ENST00000196169;ENST00000377881;ENST00000377894;ENST00000535286	D;D;D;D	0.94650	-3.48;-3.48;-3.48;-3.47	5.54	3.83	0.44106	.	0.099836	0.64402	D	0.000002	D	0.95452	0.8523	M	0.70275	2.135	0.54753	D	0.999989	P;P;P	0.51653	0.947;0.734;0.911	P;B;B	0.55508	0.777;0.301;0.376	D	0.94368	0.7593	10	0.54805	T	0.06	-12.0039	11.7911	0.52070	0.141:0.0:0.859:0.0	.	224;130;131	Q9H7E2-3;Q9H7E2-2;Q9H7E2	.;.;TDRD3_HUMAN	K	131;131;131;224	ENSP00000196169:E131K;ENSP00000367113:E131K;ENSP00000367126:E131K;ENSP00000440190:E224K	ENSP00000196169:E131K	E	+	1	0	TDRD3	59958036	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.581000	0.82535	0.719000	0.32188	0.655000	0.94253	GAA		0.348	TDRD3-201	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000045175.2	NM_030794		A	61060035	G	A	61060035	3	1	602	1	0	0	0	0	1	0	0	0	15744	1291	45	2	696	2	TDRD3	13	61060035	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	18619967	61060035	54109843	84	36224										
AP1G2	8906	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	24030557	24030557	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	aggtgtaccagggcacctccTggggaggggtccagatgggg	19	9	0	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr14:24030557T>C	ENST00000308724.5	-	18	2696	c.1941A>G	c.(1939-1941)ccA>ccG	p.P647P	RP11-66N24.4_ENST00000553985.1_RNA|RP11-66N24.3_ENST00000555968.1_RNA|RP11-66N24.4_ENST00000555446.1_RNA|AP1G2_ENST00000397120.3_Silent_p.P647P|RP11-66N24.4_ENST00000556354.1_RNA	NM_003917.2	NP_003908.1	O75843	AP1G2_HUMAN	adaptor-related protein complex 1, gamma 2 subunit	647					intracellular protein transport (GO:0006886)|vesicle-mediated transport (GO:0016192)|viral process (GO:0016032)	AP-1 adaptor complex (GO:0030121)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|Golgi-associated vesicle (GO:0005798)|membrane (GO:0016020)|transport vesicle (GO:0030133)	protein transporter activity (GO:0008565)			breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(10)|lung(4)|ovary(1)|pancreas(1)|stomach(1)	28	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00672)		GGGCACCTCCTGGGGAGGGGT	0.577																																																0													58	57	57					14																	24030557		2203	4299	6502	SO:0001819	synonymous_variant	8906			AB015318	CCDS9602.1	14q11.2	2008-07-03			ENSG00000213983	ENSG00000213983			556	protein-coding gene	gene with protein product		603534				9733768, 9762922	Standard	XM_005268167		Approved	G2AD	uc001wkl.2	O75843	OTTHUMG00000028760	ENST00000308724.5:c.1941A>G	14.37:g.24030557T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DS51|O75504	Silent	SNP	ENST00000308724.5	37	CCDS9602.1																																																																																				0.577	AP1G2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071812.4	NM_003917		C	24030557	T	C	24030557	2	2	602	1	0	0	0	0	0	0	0	1	733	1567	55	3		3	AP1G2	14	24030557	Silent	SNP	T	TCGA-GL-A59R-01A-11D-A26P-10		24030557	83318983	85	36225										
SIX4	51804	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	61186919	61186919	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	aactccactgggtccctgaaTaaaagaatttccattaagga	7	9	0	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr14:61186919T>A	ENST00000216513.4	-	2	1167	c.1108A>T	c.(1108-1110)Att>Ttt	p.I370F		NM_017420.4	NP_059116.3	Q9UIU6	SIX4_HUMAN	SIX homeobox 4	370					anatomical structure morphogenesis (GO:0009653)|embryonic cranial skeleton morphogenesis (GO:0048701)|generation of neurons (GO:0048699)|inner ear morphogenesis (GO:0042472)|metanephric mesenchyme development (GO:0072075)|myoblast migration (GO:0051451)|negative regulation of neuron apoptotic process (GO:0043524)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of ureteric bud formation (GO:0072107)|regulation of branch elongation involved in ureteric bud branching (GO:0072095)|regulation of protein localization (GO:0032880)|regulation of synaptic growth at neuromuscular junction (GO:0008582)|skeletal muscle tissue development (GO:0007519)|thymus development (GO:0048538)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(5)|endometrium(1)|large_intestine(11)|liver(1)|lung(7)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	28				OV - Ovarian serous cystadenocarcinoma(108;0.0275)		GGTCCCTGAATAAAAGAATTT	0.398																																																0													79	76	77					14																	61186919		2203	4300	6503	SO:0001583	missense	51804			AB024687	CCDS9749.2	14q23.1	2012-10-02	2007-07-13		ENSG00000100625	ENSG00000100625		"Homeoboxes / SINE class"	10890	protein-coding gene	gene with protein product		606342	"sine oculis homeobox (Drosophila) homolog 4", "sine oculis homeobox homolog 4 (Drosophila)"			10512683, 10640827	Standard	NM_017420		Approved	AREC3	uc001xfc.3	Q9UIU6	OTTHUMG00000028996	ENST00000216513.4:c.1108A>T	14.37:g.61186919T>A	ENSP00000216513:p.Ile370Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q4QQH5|Q4V764	Missense_Mutation	SNP	ENST00000216513.4	37	CCDS9749.2	.	.	.	.	.	.	.	.	.	.	T	13.45	2.239521	0.39598	.	.	ENSG00000100625	ENST00000216513;ENST00000554079;ENST00000556952	D;T	0.91792	-2.91;0.56	5.72	5.72	0.89469	.	0.297103	0.34178	N	0.004182	D	0.86464	0.5939	N	0.19112	0.55	0.47698	D	0.999492	P;P	0.49090	0.919;0.454	B;B	0.43575	0.424;0.153	D	0.86816	0.2001	10	0.41790	T	0.15	.	12.7402	0.57249	0.0:0.0:0.146:0.854	.	362;370	G3V2N2;Q9UIU6	.;SIX4_HUMAN	F	370;43;362	ENSP00000216513:I370F;ENSP00000451537:I43F	ENSP00000216513:I370F	I	-	1	0	SIX4	60256672	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.761000	0.55242	2.194000	0.70268	0.533000	0.62120	ATT		0.398	SIX4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000072397.2			A	61186919	T	A	61186919	3	1	602	1	0	0	0	0	1	0	0	0	14362	1406	49	5	1245	5	SIX4	14	61186919	Missense_Mutation	SNP	T	TCGA-GL-A59R-01A-11D-A26P-10	37156362	61186919	46162621	86	36226										
GPHN	10243	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	67647539	67647539	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	aggtaatcaaatgagcagccGtctgatgagcatgcgcagtg	13	8	2	3			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr14:67647539G>A	ENST00000315266.5	+	22	3217	c.2096G>A	c.(2095-2097)cGt>cAt	p.R699H	GPHN_ENST00000544752.2_3'UTR|GPHN_ENST00000543237.1_Missense_Mutation_p.R745H|GPHN_ENST00000478722.1_Missense_Mutation_p.R732H|GPHN_ENST00000305960.9_Missense_Mutation_p.R668H	NM_001024218.1	NP_001019389.1	Q9NQX3	GEPH_HUMAN	gephyrin	699	MPT adenylyltransferase.				establishment of synaptic specificity at neuromuscular junction (GO:0007529)|glycine receptor clustering (GO:0072579)|Mo-molybdopterin cofactor biosynthetic process (GO:0006777)|molybdopterin cofactor biosynthetic process (GO:0032324)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|inhibitory synapse (GO:0060077)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|molybdopterin adenylyltransferase activity (GO:0061598)|molybdopterin molybdotransferase activity (GO:0061599)|transferase activity (GO:0016740)			large_intestine(8)|liver(1)|ovary(2)|stomach(1)	12		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		ATGAGCAGCCGTCTGATGAGC	0.458			T	MLL	AL																																		Dom	yes		14	14q24	10243	gephyrin (GPH)		L	0													128	105	113					14																	67647539		2203	4300	6503	SO:0001583	missense	10243			AB037806	CCDS9777.1, CCDS32103.1	14q23.3	2008-04-22			ENSG00000171723	ENSG00000171723			15465	protein-coding gene	gene with protein product		603930				1319186, 10325225, 18403029	Standard	XM_005267250		Approved	KIAA1385	uc001xix.3	Q9NQX3	OTTHUMG00000029785	ENST00000315266.5:c.2096G>A	14.37:g.67647539G>A	ENSP00000312771:p.Arg699His	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H4E9|Q9P2G2	Missense_Mutation	SNP	ENST00000315266.5	37	CCDS32103.1	.	.	.	.	.	.	.	.	.	.	G	20.1	3.934351	0.73442	.	.	ENSG00000171723	ENST00000315266;ENST00000478722;ENST00000543237;ENST00000305960	.	.	.	5.83	4.93	0.64822	MoeA, C-terminal, domain IV (3);	0.102725	0.64402	D	0.000004	T	0.79476	0.4452	M	0.81112	2.525	0.80722	D	1	P;D;D;D	0.89917	0.953;1.0;0.978;1.0	B;D;P;D	0.87578	0.379;0.998;0.75;0.998	T	0.80308	-0.1437	9	0.51188	T	0.08	-7.1864	15.3438	0.74317	0.0681:0.0:0.9319:0.0	.	668;745;699;732	F8W7D6;F5H039;Q9NQX3;Q9NQX3-2	.;.;GEPH_HUMAN;.	H	699;732;745;668	.	ENSP00000303019:R668H	R	+	2	0	GPHN	66717292	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.843000	0.86859	2.768000	0.95171	0.467000	0.42956	CGT		0.458	GPHN-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000074299.2	NM_020806		A	67647539	G	A	67647539	3	1	602	1	0	0	0	0	1	0	0	0	6617	1145	40	1	2285	1	GPHN	14	67647539	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	6460620	67647539	39702001	87	36227										
EML5	161436	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	89171882	89171883	+	Frame_Shift_Ins	INS	-	-	T													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tcagaatccagttctggaacINSatcagacagatctgaatctg							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr14:89171882_89171883insT	ENST00000380664.5	-	12	1874_1875	c.1875_1876insA	c.(1873-1878)gatgttfs	p.V626fs	EML5_ENST00000352093.5_Frame_Shift_Ins_p.V626fs|EML5_ENST00000554922.1_Frame_Shift_Ins_p.V626fs			Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like 5	626						cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)	catalytic activity (GO:0003824)			breast(1)|endometrium(3)|kidney(4)|large_intestine(17)|lung(14)|ovary(3)|pancreas(1)|prostate(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	50						AGTTCTGGAACATCAGACAGAT	0.337																																																0																																										SO:0001589	frameshift_variant	161436			AY357725	CCDS45148.1	14q31.3	2013-01-10				ENSG00000165521		"WD repeat domain containing"	18197	protein-coding gene	gene with protein product							Standard	NM_183387		Approved	HuEMAP-2, EMAP-2	uc021ryf.1	Q05BV3		ENST00000380664.5:c.1875_1876insA	14.37:g.89171882_89171883insT	ENSP00000370039:p.Val626fs	Somatic		WXS	Illumina HiSeq	Phase_I	B9EK59|Q5H9N6|Q6UYC9|Q6ZRP3|Q6ZT03	Frame_Shift_Ins	INS	ENST00000380664.5	37	CCDS45148.1																																																																																				0.337	EML5-010	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000410491.1			T	89171883	-	T	89171882	7	5	602	1	0	1	1	0	0	0	0	0	5102	478	17	0	4185	0	EML5	14	89171882	Frame_Shift_Ins	INS	-	TCGA-GL-A59R-01A-11D-A26P-10	21524343	89171882	18177658	88	36228										
RYR3	6263	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr15	34130027	34130027	+	Frame_Shift_Del	DEL	A	A	-													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	agaattccagaaggccatggAagggcaaaaacagtacacgc							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr15:34130027delA	ENST00000389232.4	+	89	11916	c.11846delA	c.(11845-11847)gaafs	p.E3949fs	RYR3_ENST00000415757.3_Frame_Shift_Del_p.E3944fs	NM_001036.3	NP_001027.3	Q15413	RYR3_HUMAN	ryanodine receptor 3	3949					calcium ion transmembrane transport (GO:0070588)|calcium ion transport (GO:0006816)|cellular response to ATP (GO:0071318)|cellular response to caffeine (GO:0071313)|cellular response to calcium ion (GO:0071277)|cellular response to magnesium ion (GO:0071286)|ion transmembrane transport (GO:0034220)|negative regulation of cytosolic calcium ion concentration (GO:0051481)|protein homotetramerization (GO:0051289)|striated muscle contraction (GO:0006941)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|junctional membrane complex (GO:0030314)|perinuclear region of cytoplasm (GO:0048471)|sarcoplasmic reticulum membrane (GO:0033017)	calcium ion binding (GO:0005509)|calcium-induced calcium release activity (GO:0048763)|calcium-release channel activity (GO:0015278)|ryanodine-sensitive calcium-release channel activity (GO:0005219)			NS(3)|breast(9)|central_nervous_system(8)|cervix(2)|endometrium(29)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(55)|lung(148)|ovary(7)|pancreas(1)|prostate(13)|skin(4)|stomach(1)|upper_aerodigestive_tract(8)|urinary_tract(3)	311		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)		AAGGCCATGGAAGGGCAAAAA	0.403																																																0													108	103	104					15																	34130027		1895	4111	6006	SO:0001589	frameshift_variant	6263				CCDS45210.1, CCDS58351.1	15q14-q15	2013-01-10				ENSG00000198838		"Ion channels / Ryanodine receptors", "EF-hand domain containing"	10485	protein-coding gene	gene with protein product		180903				8276408	Standard	NM_001036		Approved		uc001zhi.3	Q15413		ENST00000389232.4:c.11846delA	15.37:g.34130027delA	ENSP00000373884:p.Glu3949fs	Somatic		WXS	Illumina HiSeq	Phase_I	O15175|Q15412	Frame_Shift_Del	DEL	ENST00000389232.4	37	CCDS45210.1																																																																																				0.403	RYR3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000417514.1			-	34130027	A	-	34130027	7	5	602	1	0	1	0	1	0	0	0	0	13783	246	9	0	12200	0	RYR3	15	34130027	Frame_Shift_Del	DEL	A	TCGA-GL-A59R-01A-11D-A26P-10		34130027	68401365	89	36229										
CASKIN1	57524	hgsc.bcm.edu;bcgsc.ca	37	chr16	2239295	2239295	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	cgtcttccccgagttgtccaCcatgcacgggttagactggt	11	13	1	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr16:2239295C>A	ENST00000343516.6	-	5	522	c.430G>T	c.(430-432)Gtg>Ttg	p.V144L		NM_020764.3	NP_065815.1	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	144					signal transduction (GO:0007165)	cytoplasm (GO:0005737)				breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|liver(1)|lung(7)|ovary(4)|prostate(5)|skin(3)	28						GAGTTGTCCACCATGCACGGG	0.697																																																0													39	52	47					16																	2239295		2114	4208	6322	SO:0001583	missense	57524			AF451977	CCDS42103.1	16p13.3	2013-01-10				ENSG00000167971		"Sterile alpha motif (SAM) domain containing", "Ankyrin repeat domain containing"	20879	protein-coding gene	gene with protein product		612184				12040031	Standard	NM_020764		Approved	KIAA1306, ANKS5A	uc010bsg.1	Q8WXD9		ENST00000343516.6:c.430G>T	16.37:g.2239295C>A	ENSP00000345436:p.Val144Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9P2P0	Missense_Mutation	SNP	ENST00000343516.6	37	CCDS42103.1	.	.	.	.	.	.	.	.	.	.	C	16.12	3.032936	0.54790	.	.	ENSG00000167971	ENST00000343516	T	0.64438	-0.1	3.46	3.46	0.39613	Ankyrin repeat-containing domain (3);	.	.	.	.	T	0.42291	0.1196	N	0.13327	0.33	0.42422	D	0.992647	B	0.25105	0.118	B	0.29353	0.101	T	0.44190	-0.9344	9	0.56958	D	0.05	-19.1703	5.5157	0.16906	0.0:0.7694:0.0:0.2306	.	144	Q8WXD9	CSKI1_HUMAN	L	144	ENSP00000345436:V144L	ENSP00000345436:V144L	V	-	1	0	CASKIN1	2179296	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	1.807000	0.38902	1.954000	0.56735	0.561000	0.74099	GTG		0.697	CASKIN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000435055.1	NM_020764		A	2239295	C	A	2239295	3	1	602	1	0	0	0	0	1	0	0	0	2668	507	18	4	3929	4	CASKIN1	16	2239295	Missense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10		2239295	88115458	90	36230										
ACSM1	116285	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	20681301	20681301	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	agatgtcttcaggctccgtaAtttcctactaactccaaaat	5	11	2	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr16:20681301A>T	ENST00000307493.4	-	5	827	c.760T>A	c.(760-762)Tta>Ata	p.L254I	ACSM1_ENST00000219151.4_5'UTR|ACSM1_ENST00000520010.1_Missense_Mutation_p.L254I	NM_052956.2	NP_443188.2	Q08AH1	ACSM1_HUMAN	acyl-CoA synthetase medium-chain family member 1	254					benzoate metabolic process (GO:0018874)|butyrate metabolic process (GO:0019605)|cholesterol homeostasis (GO:0042632)|energy derivation by oxidation of organic compounds (GO:0015980)|fatty acid biosynthetic process (GO:0006633)|fatty acid oxidation (GO:0019395)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	blood microparticle (GO:0072562)|extracellular vesicular exosome (GO:0070062)|mitochondrial matrix (GO:0005759)	acyl-CoA ligase activity (GO:0003996)|ATP binding (GO:0005524)|butyrate-CoA ligase activity (GO:0047760)|fatty acid ligase activity (GO:0015645)|GTP binding (GO:0005525)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(6)|lung(23)|skin(3)|upper_aerodigestive_tract(2)	42						AGGCTCCGTAATTTCCTACTA	0.512																																																0													112	102	106					16																	20681301		2201	4300	6501	SO:0001583	missense	116285			AB059429	CCDS10587.1	16p12.3	2008-02-05	2005-09-08	2005-09-08	ENSG00000166743	ENSG00000166743	6.2.1.2	"Acyl-CoA synthetase family"	18049	protein-coding gene	gene with protein product		614357	"butyryl Coenzyme A synthetase 1"	BUCS1		11470804, 12654705	Standard	NM_052956		Approved	MACS1	uc002dhm.1	Q08AH1	OTTHUMG00000131550	ENST00000307493.4:c.760T>A	16.37:g.20681301A>T	ENSP00000301956:p.Leu254Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q08AH2|Q96A20	Missense_Mutation	SNP	ENST00000307493.4	37	CCDS10587.1	.	.	.	.	.	.	.	.	.	.	A	3.836	-0.034884	0.07543	.	.	ENSG00000166743	ENST00000307493;ENST00000520010	T;T	0.49432	0.78;0.78	5.05	-5.32	0.02722	AMP-dependent synthetase/ligase (1);	2.926740	0.01433	N	0.014801	T	0.37758	0.1015	L	0.42581	1.335	0.35230	D	0.776841	B	0.06786	0.001	B	0.12837	0.008	T	0.14090	-1.0485	10	0.72032	D	0.01	-11.3632	5.3284	0.15918	0.4297:0.4004:0.0762:0.0937	.	254	Q08AH1	ACSM1_HUMAN	I	254	ENSP00000301956:L254I;ENSP00000428047:L254I	ENSP00000301956:L254I	L	-	1	2	ACSM1	20588802	0.000000	0.05858	0.004000	0.12327	0.027000	0.11550	-0.352000	0.07701	-1.132000	0.02907	-2.194000	0.00310	TTA		0.512	ACSM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254412.1	NM_052956		T	20681301	A	T	20681301	3	4	602	1	0	0	0	0	1	0	0	0	182	98	4	5	1009	5	ACSM1	16	20681301	Missense_Mutation	SNP	A	TCGA-GL-A59R-01A-11D-A26P-10	18442006	20681301	69673452	91	36231										
TMEM159	57146	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	21185458	21185458	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tccagcctcatcagctgctgGttttctcccaggtaaataca	7	13	3	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr16:21185458G>C	ENST00000233047.4	+	4	861	c.393G>C	c.(391-393)tgG>tgC	p.W131C	TMEM159_ENST00000261388.3_Missense_Mutation_p.W131C|TMEM159_ENST00000451578.2_Missense_Mutation_p.W155C|TMEM159_ENST00000572599.1_Missense_Mutation_p.W131C|TMEM159_ENST00000572258.1_Intron			Q96B96	TM159_HUMAN	transmembrane protein 159	131						integral component of membrane (GO:0016021)				large_intestine(3)|lung(2)|ovary(1)	6				GBM - Glioblastoma multiforme(48;0.0972)		TCAGCTGCTGGTTTTCTCCCA	0.428																																																0													121	98	106					16																	21185458		2200	4300	6500	SO:0001583	missense	57146			AF070596	CCDS10595.1	16p12.2	2008-02-05			ENSG00000011638	ENSG00000011638			30136	protein-coding gene	gene with protein product		611304				8619474, 9110174, 15589683	Standard	NM_020422		Approved	promethin	uc002dif.4	Q96B96	OTTHUMG00000131559	ENST00000233047.4:c.393G>C	16.37:g.21185458G>C	ENSP00000233047:p.Trp131Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMA9|B4DEC1|O00323	Missense_Mutation	SNP	ENST00000233047.4	37	CCDS10595.1	.	.	.	.	.	.	.	.	.	.	G	12.84	2.059590	0.36373	.	.	ENSG00000011638	ENST00000233047;ENST00000261388;ENST00000451578	T;T;T	0.25579	1.8;1.8;1.79	6.07	6.07	0.98685	.	0.371511	0.26467	N	0.024208	T	0.49338	0.1551	M	0.64997	1.995	0.58432	D	0.999993	D;D	0.76494	0.999;0.999	D;D	0.65874	0.939;0.912	T	0.38950	-0.9637	10	0.72032	D	0.01	-19.3257	18.139	0.89633	0.0:0.0:1.0:0.0	.	155;131	B4DEC1;Q96B96	.;TM159_HUMAN	C	131;131;155	ENSP00000233047:W131C;ENSP00000261388:W131C;ENSP00000409879:W155C	ENSP00000233047:W131C	W	+	3	0	TMEM159	21092959	1.000000	0.71417	1.000000	0.80357	0.655000	0.38815	3.746000	0.55127	2.885000	0.99019	0.650000	0.86243	TGG		0.428	TMEM159-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254421.1	NM_020422		C	21185458	G	C	21185458	3	2	602	1	0	0	0	0	1	0	0	0	16086	1270	44	4	403	4	TMEM159	16	21185458	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	504157	21185458	69169295	92	36232										
ZP2	7783	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	21214557	21214557	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	taagtagaactgatggagtaGgcatttttcagataactgaa	10	4	1	4			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr16:21214557G>T	ENST00000574002.1	-	11	1470	c.988C>A	c.(988-990)Cta>Ata	p.L330I	ZP2_ENST00000219593.4_Missense_Mutation_p.L330I|ZP2_ENST00000574091.1_Missense_Mutation_p.L330I|AF001550.7_ENST00000572747.1_RNA			Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 (sperm receptor)	330					binding of sperm to zona pellucida (GO:0007339)|intracellular protein transport (GO:0006886)|multicellular organism reproduction (GO:0032504)|prevention of polyspermy (GO:0060468)|signal transduction (GO:0007165)|single fertilization (GO:0007338)	endoplasmic reticulum (GO:0005783)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|multivesicular body (GO:0005771)|plasma membrane (GO:0005886)|proteinaceous extracellular matrix (GO:0005578)|secretory granule (GO:0030141)	acrosin binding (GO:0032190)|coreceptor activity (GO:0015026)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(12)|lung(16)|ovary(1)|prostate(1)|stomach(1)	41				GBM - Glioblastoma multiforme(48;0.0573)		TGATGGAGTAGGCATTTTTCA	0.483																																																0													107	102	103					16																	21214557		2200	4300	6500	SO:0001583	missense	7783			M90366	CCDS10596.1, CCDS73843.1	16p12	2014-07-04			ENSG00000103310	ENSG00000103310		"Zona pellucida glycoproteins"	13188	protein-coding gene	gene with protein product		182888				8385033	Standard	XM_005255562		Approved	ZPA	uc002dii.2	Q05996	OTTHUMG00000090681	ENST00000574002.1:c.988C>A	16.37:g.21214557G>T	ENSP00000460971:p.Leu330Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7J2|Q4VAN9|Q4VAP0|Q4VAP1	Missense_Mutation	SNP	ENST00000574002.1	37	CCDS10596.1	.	.	.	.	.	.	.	.	.	.	G	14.40	2.523709	0.44866	.	.	ENSG00000103310	ENST00000219593	T	0.76316	-1.01	5.97	2.76	0.32466	.	0.485326	0.18994	N	0.125524	T	0.77267	0.4105	M	0.75447	2.3	0.19575	N	0.999964	P;P	0.51351	0.944;0.944	P;P	0.47981	0.563;0.563	T	0.66685	-0.5861	10	0.32370	T	0.25	-6.6445	7.7511	0.28898	0.1328:0.292:0.5752:0.0	.	330;330	Q4VAP1;Q05996	.;ZP2_HUMAN	I	330	ENSP00000219593:L330I	ENSP00000219593:L330I	L	-	1	2	ZP2	21122058	0.879000	0.30193	0.975000	0.42487	0.291000	0.27294	0.880000	0.28159	1.513000	0.48852	0.655000	0.94253	CTA		0.483	ZP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000207365.2			T	21214557	G	T	21214557	3	4	602	1	0	0	0	0	1	0	0	0	18228	991	35	4	1289	4	ZP2	16	21214557	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	29099	21214557	69140196	93	36233										
SETD1A	9739	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	30976286	30976286	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	agctgagcgcttcccaccttCttacacctcctacctgcccc	5	20	1	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr16:30976286C>A	ENST00000262519.8	+	7	1909	c.1223C>A	c.(1222-1224)tCt>tAt	p.S408Y		NM_014712.1	NP_055527.1	O15047	SET1A_HUMAN	SET domain containing 1A	408	Pro-rich. {ECO:0000255}.				histone H3-K4 methylation (GO:0051568)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)|Set1C/COMPASS complex (GO:0048188)	histone methyltransferase activity (H3-K4 specific) (GO:0042800)|nucleotide binding (GO:0000166)|RNA binding (GO:0003723)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(9)|lung(21)|ovary(3)|prostate(2)|skin(4)|upper_aerodigestive_tract(4)|urinary_tract(1)	59						TTCCCACCTTCTTACACCTCC	0.662																																																0													57	66	63					16																	30976286		2197	4300	6497	SO:0001583	missense	9739			AB002337	CCDS32435.1	16p11.2	2013-02-12			ENSG00000099381	ENSG00000099381		"Chromatin-modifying enzymes / K-methyltransferases", "RNA binding motif (RRM) containing"	29010	protein-coding gene	gene with protein product		611052				9205841, 12670868	Standard	XM_005255723		Approved	KIAA0339, Set1, KMT2F	uc002ead.1	O15047	OTTHUMG00000150474	ENST00000262519.8:c.1223C>A	16.37:g.30976286C>A	ENSP00000262519:p.Ser408Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NP62|Q6PIF3|Q8TAJ6	Missense_Mutation	SNP	ENST00000262519.8	37	CCDS32435.1	.	.	.	.	.	.	.	.	.	.	C	13.26	2.182646	0.38511	.	.	ENSG00000099381	ENST00000262519	D	0.94497	-3.44	5.64	5.64	0.86602	.	0.197187	0.45361	D	0.000366	D	0.93979	0.8072	L	0.36672	1.1	0.26055	N	0.981439	D	0.67145	0.996	P	0.56700	0.804	D	0.89234	0.3579	10	0.72032	D	0.01	.	12.5755	0.56362	0.0:0.92:0.0:0.08	.	408	O15047	SET1A_HUMAN	Y	408	ENSP00000262519:S408Y	ENSP00000262519:S408Y	S	+	2	0	SETD1A	30883787	1.000000	0.71417	1.000000	0.80357	0.548000	0.35241	3.742000	0.55097	2.648000	0.89879	0.561000	0.74099	TCT		0.662	SETD1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318244.2	NM_014712		A	30976286	C	A	30976286	3	1	602	1	0	0	0	0	1	0	0	0	14143	913	32	4	1245	4	SETD1A	16	30976286	Missense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	9761729	30976286	59378467	94	36234										
ATP6V0D1	9114	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	67487539	67487539	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ttctccttgagccggtcatcGatgactgacaccgtcagagg	11	12	3	4			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr16:67487539G>A	ENST00000290949.3	-	2	360	c.210C>T	c.(208-210)atC>atT	p.I70I	ATP6V0D1_ENST00000602876.1_5'UTR|ATP6V0D1_ENST00000540149.1_Silent_p.I70I	NM_004691.4	NP_004682.2	P61421	VA0D1_HUMAN	ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d1	70					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|ATP hydrolysis coupled proton transport (GO:0015991)|brain development (GO:0007420)|cellular iron ion homeostasis (GO:0006879)|cellular protein metabolic process (GO:0044267)|cilium assembly (GO:0042384)|endoplasmic reticulum unfolded protein response (GO:0030968)|insulin receptor signaling pathway (GO:0008286)|interaction with host (GO:0051701)|phagosome maturation (GO:0090382)|proton transport (GO:0015992)|transferrin transport (GO:0033572)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|axon terminus (GO:0043679)|early endosome (GO:0005769)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|phagocytic vesicle membrane (GO:0030670)|proton-transporting V-type ATPase, V0 domain (GO:0033179)|synaptic vesicle (GO:0008021)|vacuolar proton-transporting V-type ATPase complex (GO:0016471)	hydrogen-exporting ATPase activity, phosphorylative mechanism (GO:0008553)			large_intestine(3)|lung(3)|urinary_tract(2)	8		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0439)|Epithelial(162;0.101)		GCCGGTCATCGATGACTGACA	0.532																																																0													176	135	149					16																	67487539		2198	4300	6498	SO:0001819	synonymous_variant	9114			X71490	CCDS10838.1	16q22	2010-04-21	2006-01-20	2002-05-10	ENSG00000159720	ENSG00000159720		"ATPases / V-type"	13724	protein-coding gene	gene with protein product		607028	"ATPase, H+ transporting, lysosomal (vacuolar proton pump), member D", "ATPase, H+ transporting, lysosomal 38kDa, V0 subunit d isoform 1", "ATPase, H+ transporting, lysosomal 38kDa, V0 subunit D1"	ATP6D		8250920	Standard	NM_004691		Approved	ATP6DV, VATX, VPATPD, P39, Vma6	uc002ete.1	P61421	OTTHUMG00000137515	ENST00000290949.3:c.210C>T	16.37:g.67487539G>A		Somatic		WXS	Illumina HiSeq	Phase_I	P12953|Q02547	Silent	SNP	ENST00000290949.3	37	CCDS10838.1																																																																																				0.532	ATP6V0D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268835.1	NM_004691		A	67487539	G	A	67487539	2	1	602	1	0	0	0	0	0	0	0	1	1173	1048	37	1		1	ATP6V0D1	16	67487539	Silent	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	36511253	67487539	22867214	95	36235										
THAP11	57215	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	67876718	67876718	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ccgctgcgcggcgtcaatgaGcgcaaagtagcgcgcagacc	14	14	1	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr16:67876718G>T	ENST00000303596.1	+	1	506	c.261G>T	c.(259-261)gaG>gaT	p.E87D	CENPT_ENST00000562787.1_Intron	NM_020457.2	NP_065190.2	Q96EK4	THA11_HUMAN	THAP domain containing 11	87					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|intercellular bridge (GO:0045171)|nucleus (GO:0005634)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			cervix(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(2)|urinary_tract(1)	8		Acute lymphoblastic leukemia(13;0.000299)|all_hematologic(13;0.0184)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00412)|Epithelial(162;0.018)|all cancers(182;0.118)		GCGTCAATGAGCGCAAAGTAG	0.687																																																0													18	19	18					16																	67876718		2197	4296	6493	SO:0001583	missense	57215			AB015338	CCDS10847.1	16q22.1	2013-01-25			ENSG00000168286	ENSG00000168286		"THAP (C2CH-type zinc finger) domain containing"	23194	protein-coding gene	gene with protein product		609119				12575992, 8325628	Standard	NM_020457		Approved	HRIHFB2206, CTG-B45d, CTG-B43a	uc002euo.3	Q96EK4	OTTHUMG00000137546	ENST00000303596.1:c.261G>T	16.37:g.67876718G>T	ENSP00000304689:p.Glu87Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A4UCT5|A8K002|O94795	Missense_Mutation	SNP	ENST00000303596.1	37	CCDS10847.1	.	.	.	.	.	.	.	.	.	.	G	17.35	3.368381	0.61513	.	.	ENSG00000168286	ENST00000303596	T	0.33216	1.42	5.4	4.31	0.51392	.	0.000000	0.85682	D	0.000000	T	0.41880	0.1178	L	0.32530	0.975	0.51767	D	0.999939	D	0.63880	0.993	D	0.70016	0.967	T	0.26121	-1.0112	10	0.54805	T	0.06	-16.1311	11.7789	0.52001	0.1059:0.0:0.8941:0.0	.	87	Q96EK4	THA11_HUMAN	D	87	ENSP00000304689:E87D	ENSP00000304689:E87D	E	+	3	2	THAP11	66434219	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.044000	0.57361	1.155000	0.42497	0.563000	0.77884	GAG		0.687	THAP11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268879.1	NM_020457		T	67876718	G	T	67876718	3	4	602	1	0	0	0	0	1	0	0	0	15855	962	34	4	263	4	THAP11	16	67876718	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	389179	67876718	22478035	96	36236										
TBC1D26	353149	broad.mit.edu	37	chr17	15641610	15641610	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gtagctgtctcaaagagtatAcaaagtcattcccctggcgg	10	10	2	1	rs202131240		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr17:15641610A>G	ENST00000437605.2	+	7	546	c.296A>G	c.(295-297)tAc>tGc	p.Y99C	TBC1D26_ENST00000579428.1_Missense_Mutation_p.Y99C|AC005324.6_ENST00000580194.1_RNA|AC005324.6_ENST00000434017.1_RNA|AC005324.6_ENST00000433873.1_RNA|ZNF286A_ENST00000413242.2_3'UTR	NM_178571.4	NP_848666	Q86UD7	TBC26_HUMAN	TBC1 domain family, member 26	99							Rab GTPase activator activity (GO:0005097)			endometrium(1)|large_intestine(1)|lung(4)|skin(1)	7				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(1115;0.0222)|BRCA - Breast invasive adenocarcinoma(8;0.078)		CAAAGAGTATACAAAGTCATT	0.527																																																0													94	90	91					17																	15641610		1953	4139	6092	SO:0001583	missense	353149				CCDS42265.1	17p11.2	2008-11-04			ENSG00000214946	ENSG00000214946			28745	protein-coding gene	gene with protein product						11347906	Standard	NM_178571		Approved	MGC51025	uc010cov.3	Q86UD7	OTTHUMG00000059071	ENST00000437605.2:c.296A>G	17.37:g.15641610A>G	ENSP00000410111:p.Tyr99Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K929|Q4G172	Missense_Mutation	SNP	ENST00000437605.2	37	CCDS42265.1	.	.	.	.	.	.	.	.	.	.	a	6.884	0.532498	0.13127	.	.	ENSG00000214946	ENST00000437605	T	0.40756	1.02	1.44	-0.0271	0.13927	Rab-GAP/TBC domain (2);	0.436109	0.22940	U	0.053784	T	0.48943	0.1528	L	0.58583	1.82	0.19945	N	0.999948	D;D	0.76494	0.999;0.981	D;D	0.67231	0.95;0.914	T	0.36601	-0.9741	10	0.52906	T	0.07	.	3.1782	0.06576	0.6204:0.0:0.0:0.3796	.	99;99	Q86UD7;Q86UD7-2	TBC26_HUMAN;.	C	99	ENSP00000410111:Y99C	ENSP00000410111:Y99C	Y	+	2	0	TBC1D26	15582335	0.952000	0.32445	0.008000	0.14137	0.029000	0.11900	1.676000	0.37565	-0.258000	0.09446	0.338000	0.21704	TAC		0.527	TBC1D26-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_178571		G	15641610	A	G	15641610	3	3	602	1	0	0	0	0	1	0	0	0	15628	391	14	3	314	3	TBC1D26	17	15641610	Missense_Mutation	SNP	A	TCGA-GL-A59R-01A-11D-A26P-10		15641610	65553600	97	36237										
LGALS9	3965	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	25967635	25967635	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	agactggcttcagtggaaatGacattgccttccacttcaac	8	11	2	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr17:25967635G>A	ENST00000395473.2	+	3	1637	c.169G>A	c.(169-171)Gac>Aac	p.D57N	LGALS9_ENST00000313648.6_Missense_Mutation_p.D57N|AC015688.3_ENST00000584605.1_3'UTR|LGALS9_ENST00000310394.5_Missense_Mutation_p.D57N|LGALS9_ENST00000302228.5_Missense_Mutation_p.D57N|LGALS9_ENST00000448970.2_3'UTR|LGALS9_ENST00000413914.2_Intron	NM_009587.2	NP_033665.1	O00182	LEG9_HUMAN	lectin, galactoside-binding, soluble, 9	57	Galectin 1. {ECO:0000255|PROSITE- ProRule:PRU00639}.				positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	carbohydrate binding (GO:0030246)|galactose binding (GO:0005534)|signal transducer activity (GO:0004871)			endometrium(3)|large_intestine(2)|lung(12)|skin(1)	18	Lung NSC(42;0.0103)		BRCA - Breast invasive adenocarcinoma(3;0.0141)	UCEC - Uterine corpus endometrioid carcinoma (53;0.155)		CAGTGGAAATGACATTGCCTT	0.527																																					Melanoma(106;677 1527 28724 29571 46552)|Ovarian(193;263 2088 2118 29005 43023)											0													124	118	120					17																	25967635		2203	4300	6503	SO:0001583	missense	3965			AB006782	CCDS11222.1, CCDS32592.1	17q11.2	2013-03-28	2008-07-25		ENSG00000168961	ENSG00000168961		"Lectins, galactoside-binding"	6570	protein-coding gene	gene with protein product	"galectin 9"	601879				9045665	Standard	NM_009587		Approved	LGALS9A	uc002gzp.3	O00182	OTTHUMG00000179831	ENST00000395473.2:c.169G>A	17.37:g.25967635G>A	ENSP00000378856:p.Asp57Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A7VJG6|O14532|O75028|Q3B8N1|Q53FQ0|Q9NQ58	Missense_Mutation	SNP	ENST00000395473.2	37	CCDS11222.1	.	.	.	.	.	.	.	.	.	.	G	9.418	1.082274	0.20309	.	.	ENSG00000168961	ENST00000395473;ENST00000302228;ENST00000310394;ENST00000313648;ENST00000448970	T;T;T;T	0.14022	2.54;2.54;2.54;2.54	3.94	0.839	0.18907	Concanavalin A-like lectin/glucanase (1);Galectin, carbohydrate recognition domain (4);Concanavalin A-like lectin/glucanase, subgroup (1);	0.459334	0.24325	N	0.039518	T	0.12774	0.0310	L	0.50993	1.605	0.58432	D	0.999995	B;P;P	0.42871	0.1;0.792;0.624	B;B;B	0.42319	0.084;0.383;0.203	T	0.06570	-1.0819	10	0.42905	T	0.14	.	7.4254	0.27096	0.3157:0.0:0.6843:0.0	.	57;57;57	F8W9W4;Q3B8N1;O00182	.;.;LEG9_HUMAN	N	57	ENSP00000378856:D57N;ENSP00000306228:D57N;ENSP00000312259:D57N;ENSP00000318214:D57N	ENSP00000306228:D57N	D	+	1	0	LGALS9	22991762	0.637000	0.27216	0.459000	0.27081	0.622000	0.37654	0.741000	0.26202	0.460000	0.27045	0.586000	0.80456	GAC		0.527	LGALS9-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000255583.1	NM_009587		A	25967635	G	A	25967635	3	1	602	1	0	0	0	0	1	0	0	0	8755	1290	45	2	179	2	LGALS9	17	25967635	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	10326025	25967635	55227575	98	36238										
SMARCD2	6603	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	61910338	61910338	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gcacctgttccagttcctgcCttcgctgctgcacctggaga	10	15	0	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr17:61910338C>A	ENST00000448276.2	-	13	1821	c.1556G>T	c.(1555-1557)aGg>aTg	p.R519M	SMARCD2_ENST00000323347.10_Missense_Mutation_p.R471M|FTSJ3_ENST00000580295.1_5'Flank|SMARCD2_ENST00000225742.9_Missense_Mutation_p.R444M	NM_001098426.1	NP_001091896.1	Q92925	SMRD2_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2	519					ATP-dependent chromatin remodeling (GO:0043044)|chromatin remodeling (GO:0006338)|nucleosome disassembly (GO:0006337)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|protein complex (GO:0043234)|SWI/SNF complex (GO:0016514)	transcription coactivator activity (GO:0003713)			central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(1)|lung(1)	8						CAGTTCCTGCCTTCGCTGCTG	0.587																																																0													40	47	45					17																	61910338		1971	4165	6136	SO:0001583	missense	6603			U66618	CCDS45756.1	17q23.3	2014-07-16			ENSG00000108604	ENSG00000108604			11107	protein-coding gene	gene with protein product	"mammalian chromatin remodeling complex BRG1-associated factor 60B", "Swp73-like protein", "chromatin remodeling complex BAF60B subunit", "SWI/SNF complex 60 kDa subunit B"	601736				8804307, 9693044	Standard	NM_001098426		Approved	BAF60B, Rsc6p, CRACD2, PRO2451	uc010deb.1	Q92925	OTTHUMG00000179045	ENST00000448276.2:c.1556G>T	17.37:g.61910338C>A	ENSP00000392617:p.Arg519Met	Somatic		WXS	Illumina HiSeq	Phase_I	A5PLL5|A6NNQ7|B4DV56|B4E1R6|Q7L2I6|Q9UHZ1	Missense_Mutation	SNP	ENST00000448276.2	37	CCDS45756.1	.	.	.	.	.	.	.	.	.	.	.	13.60	2.284333	0.40394	.	.	ENSG00000108604	ENST00000448276;ENST00000225742;ENST00000450364;ENST00000323347	T;T	0.57107	0.42;0.53	5.87	5.87	0.94306	.	0.044796	0.85682	D	0.000000	T	0.79919	0.4529	M	0.92122	3.275	0.80722	D	1	D;D;D	0.89917	0.999;1.0;1.0	D;D;D	0.85130	0.993;0.997;0.997	D	0.84078	0.0383	10	0.87932	D	0	-10.7028	17.6998	0.88291	0.0:1.0:0.0:0.0	.	471;482;519	Q92925-3;B9EGA3;Q92925	.;.;SMRD2_HUMAN	M	519;461;482;471	ENSP00000392617:R519M;ENSP00000318451:R471M	ENSP00000225742:R461M	R	-	2	0	SMARCD2	59264070	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.968000	0.56809	2.785000	0.95823	0.655000	0.94253	AGG		0.587	SMARCD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444544.1	NM_001098426		A	61910338	C	A	61910338	3	1	602	1	0	0	0	0	1	0	0	0	14791	681	24	4	43	4	SMARCD2	17	61910338	Missense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	35942703	61910338	19284872	99	36239										
WIPI1	55062	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	66440668	66440668	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ggaatatccaggagggtcttCaacagcttcatgtctttaat	9	8	4	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr17:66440668C>T	ENST00000262139.5	-	4	395	c.396G>A	c.(394-396)ttG>ttA	p.L132L	WIPI1_ENST00000589459.1_5'UTR|WIPI1_ENST00000546360.1_Silent_p.L50L	NM_017983.5	NP_060453.3	Q5MNZ9	WIPI1_HUMAN	WD repeat domain, phosphoinositide interacting 1	132					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|autophagy (GO:0006914)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|vesicle targeting, trans-Golgi to endosome (GO:0048203)	autophagic vacuole membrane (GO:0000421)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytoskeleton (GO:0005856)|endosome membrane (GO:0010008)|Golgi membrane (GO:0000139)|pre-autophagosomal structure (GO:0000407)|pre-autophagosomal structure membrane (GO:0034045)|trans-Golgi network (GO:0005802)	androgen receptor binding (GO:0050681)|estrogen receptor binding (GO:0030331)|phosphatidylinositol-3,5-bisphosphate binding (GO:0080025)|phosphatidylinositol-3-phosphate binding (GO:0032266)|receptor binding (GO:0005102)			breast(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(6)|skin(2)|upper_aerodigestive_tract(1)	18						GGAGGGTCTTCAACAGCTTCA	0.433																																																0													150	137	142					17																	66440668		2203	4300	6503	SO:0001819	synonymous_variant	55062				CCDS11677.1	17q24.2	2014-02-12				ENSG00000070540		"WD repeat domain containing"	25471	protein-coding gene	gene with protein product		609224				15020712, 15602573	Standard	NM_017983		Approved	FLJ10055, WIPI49, Atg18, ATG18A	uc010dey.3	Q5MNZ9		ENST00000262139.5:c.396G>A	17.37:g.66440668C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IXM5|Q9NWF8	Silent	SNP	ENST00000262139.5	37	CCDS11677.1																																																																																				0.433	WIPI1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000448739.1	NM_017983		T	66440668	C	T	66440668	2	4	602	1	0	0	0	0	0	0	0	1	17382	825	29	2		2	WIPI1	17	66440668	Silent	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	4530330	66440668	14754542	100	36240										
RBBP8	5932	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	20562277	20562277	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	tcattttctggcgttaaccgGctacgaagaaaggagaaccc	10	10	2	2			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr18:20562277G>A	ENST00000399722.2	+	7	876	c.525G>A	c.(523-525)cgG>cgA	p.R175R	RBBP8_ENST00000360790.5_Silent_p.R175R|RBBP8_ENST00000399725.2_Silent_p.R175R|RBBP8_ENST00000327155.5_Silent_p.R175R	NM_203291.1	NP_976036.1	Q99708	COM1_HUMAN	retinoblastoma binding protein 8	175					blastocyst hatching (GO:0001835)|cell cycle checkpoint (GO:0000075)|DNA catabolic process, endonucleolytic (GO:0000737)|DNA double-strand break processing involved in repair via single-strand annealing (GO:0010792)|DNA repair (GO:0006281)|double-strand break repair via homologous recombination (GO:0000724)|G1/S transition of mitotic cell cycle (GO:0000082)|G2 DNA damage checkpoint (GO:0031572)|meiotic nuclear division (GO:0007126)|mitotic nuclear division (GO:0007067)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of transcription from RNA polymerase II promoter (GO:0006357)	nucleolus (GO:0005730)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	damaged DNA binding (GO:0003684)|RNA polymerase II repressing transcription factor binding (GO:0001103)|RNA polymerase II transcription corepressor activity (GO:0001106)|single-stranded DNA endodeoxyribonuclease activity (GO:0000014)			central_nervous_system(1)|cervix(2)|endometrium(5)|large_intestine(2)|lung(9)|ovary(3)|prostate(1)|skin(1)	24	all_cancers(21;4.34e-05)|all_epithelial(16;8.3e-07)|Lung NSC(20;0.0107)|Colorectal(14;0.0202)|all_lung(20;0.0291)|Ovarian(20;0.19)		OV - Ovarian serous cystadenocarcinoma(1;0.00196)			GCGTTAACCGGCTACGAAGAA	0.433								Homologous recombination																																								0													174	154	161					18																	20562277		2203	4300	6503	SO:0001819	synonymous_variant	5932			AF043431	CCDS11874.1, CCDS11875.1	18q11.2	2012-11-05	2001-11-28		ENSG00000101773	ENSG00000101773			9891	protein-coding gene	gene with protein product	"CTBP-interacting protein"	604124	"retinoblastoma-binding protein 8", "Seckel syndrome 2"	SCKL2		9721205, 17965729, 21998596	Standard	NM_002894		Approved	CtIP, RIM, COM1	uc002ktw.3	Q99708	OTTHUMG00000131769	ENST00000399722.2:c.525G>A	18.37:g.20562277G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKN2|A8K8W6|E7ETY1|O75371|Q8NHQ3	Silent	SNP	ENST00000399722.2	37	CCDS11875.1																																																																																				0.433	RBBP8-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000446387.1	NM_203291		A	20562277	G	A	20562277	2	1	602	1	0	0	0	0	0	0	0	1	13118	1190	42	2		2	RBBP8	18	20562277	Silent	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10		20562277	57514971	101	36241										
REXO1	57455	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	1817252	1817252	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gggcgtagatccccgggtggGtgtctcctgagagctctttc	15	11	2	2	rs200984356		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr19:1817252G>C	ENST00000170168.4	-	12	3261	c.3167C>G	c.(3166-3168)aCc>aGc	p.T1056S	MIR1909_ENST00000411312.1_RNA|CTB-31O20.3_ENST00000586259.1_RNA	NM_020695.3	NP_065746.3	Q8N1G1	REXO1_HUMAN	REX1, RNA exonuclease 1 homolog (S. cerevisiae)	1056						nucleus (GO:0005634)	exonuclease activity (GO:0004527)|nucleic acid binding (GO:0003676)	p.T1056I(1)		breast(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(5)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	16		Ovarian(11;1.78e-06)|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)		CCCCGGGTGGGTGTCTCCTGA	0.642													.|||	1	0.000199681	0.0	0.0014	5008	,	,		14977	0.0		0.0	False		,,,				2504	0.0															1	Substitution - Missense(1)	upper_aerodigestive_tract(1)											71	66	67					19																	1817252		2202	4300	6502	SO:0001583	missense	57455			AB032964	CCDS32866.1	19p13.3	2014-05-28	2005-08-22	2005-08-22	ENSG00000079313	ENSG00000079313			24616	protein-coding gene	gene with protein product	"elongin A binding protein 1"	609614	"transcription elongation factor B polypeptide 3 binding protein 1"	TCEB3BP1		10574461	Standard	NM_020695		Approved	EloA-BP1, KIAA1138	uc002lua.4	Q8N1G1	OTTHUMG00000179991	ENST00000170168.4:c.3167C>G	19.37:g.1817252G>C	ENSP00000170168:p.Thr1056Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q9ULT2	Missense_Mutation	SNP	ENST00000170168.4	37	CCDS32866.1	0	0.0	0	0.0	0	0.0	0	0.0	0	0.0	.	3.519	-0.098262	0.07010	.	.	ENSG00000079313	ENST00000170168;ENST00000543452	T	0.11063	2.81	3.94	1.53	0.23141	.	0.450432	0.22206	N	0.063169	T	0.04407	0.0121	N	0.03608	-0.345	0.09310	N	1	B;B;B	0.15141	0.012;0.001;0.001	B;B;B	0.15870	0.014;0.002;0.002	T	0.43245	-0.9403	10	0.16896	T	0.51	-7.696	11.7661	0.51930	0.0:0.5977:0.4023:0.0	.	42;365;1056	B4DVD3;B4DWY3;Q8N1G1	.;.;REXO1_HUMAN	S	1056;328	ENSP00000170168:T1056S	ENSP00000170168:T1056S	T	-	2	0	REXO1	1768252	0.323000	0.24643	0.001000	0.08648	0.001000	0.01503	4.178000	0.58284	0.819000	0.34492	0.561000	0.74099	ACC		0.642	REXO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449200.1	NM_020695		C	1817252	G	C	1817252	3	2	602	1	0	0	0	0	1	0	0	0	13254	1261	44	4	518	4	REXO1	19	1817252	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10		1817252	57311731	102	36242										
LIPE	3991	broad.mit.edu;bcgsc.ca	37	chr19	42911843	42911843	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gtgggggtgagatggtgaccGtgagcgtggggtcggcagtc	22	6	0	3	rs377288315		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr19:42911843G>T	ENST00000244289.4	-	5	2033	c.1757C>A	c.(1756-1758)aCg>aAg	p.T586K	LIPE-AS1_ENST00000597203.1_RNA|LIPE-AS1_ENST00000593491.2_RNA|LIPE-AS1_ENST00000599276.1_RNA|LIPE_ENST00000602000.1_5'UTR|LIPE-AS1_ENST00000594624.2_RNA	NM_005357.2	NP_005348.2	Q05469	LIPS_HUMAN	lipase, hormone-sensitive	586					cholesterol metabolic process (GO:0008203)|diacylglycerol catabolic process (GO:0046340)|lipid catabolic process (GO:0016042)|long-chain fatty acid catabolic process (GO:0042758)|protein phosphorylation (GO:0006468)|small molecule metabolic process (GO:0044281)|triglyceride catabolic process (GO:0019433)	cytosol (GO:0005829)|lipid particle (GO:0005811)|plasma membrane (GO:0005886)	hormone-sensitive lipase activity (GO:0033878)|triglyceride lipase activity (GO:0004806)			breast(2)|endometrium(4)|kidney(7)|large_intestine(6)|lung(8)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	32		Prostate(69;0.00682)				GATGGTGACCGTGAGCGTGGG	0.642																																																0													82	71	75					19																	42911843		2203	4300	6503	SO:0001583	missense	3991			L11706	CCDS12607.1	19q13.1-q13.2	2014-03-14			ENSG00000079435	ENSG00000079435	3.1.1.3		6621	protein-coding gene	gene with protein product		151750				8506334	Standard	NM_005357		Approved	HSL	uc002otr.3	Q05469	OTTHUMG00000182814	ENST00000244289.4:c.1757C>A	19.37:g.42911843G>T	ENSP00000244289:p.Thr586Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q3LRT2|Q6NSL7	Missense_Mutation	SNP	ENST00000244289.4	37	CCDS12607.1	.	.	.	.	.	.	.	.	.	.	G	12.00	1.806842	0.31961	.	.	ENSG00000079435	ENST00000244289	T	0.30714	1.52	3.67	2.6	0.31112	Hormone-sensitive lipase, N-terminal (1);	0.404770	0.23048	N	0.052531	T	0.42630	0.1211	L	0.50333	1.59	0.38251	D	0.941615	D	0.89917	1.0	D	0.91635	0.999	T	0.35276	-0.9795	10	0.11182	T	0.66	-5.0497	11.0161	0.47689	0.0995:0.0:0.9005:0.0	.	586	Q05469	LIPS_HUMAN	K	586	ENSP00000244289:T586K	ENSP00000244289:T586K	T	-	2	0	LIPE	47603683	0.847000	0.29606	0.608000	0.28969	0.006000	0.05464	1.042000	0.30303	0.839000	0.34971	0.561000	0.74099	ACG		0.642	LIPE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463861.1	NM_005357		T	42911843	G	T	42911843	3	4	602	1	0	0	0	0	1	0	0	0	8828	1145	40	4	1497	4	LIPE	19	42911843	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	41094591	42911843	16217140	103	36243										
TRPM4	54795	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	49714007	49714007	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gccgagcggaagctgctaacGtgggaatcggtgcataagga	16	8	0	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr19:49714007G>T	ENST00000252826.5	+	22	3495	c.3369G>T	c.(3367-3369)acG>acT	p.T1123T	TRPM4_ENST00000355712.5_Silent_p.T769T|TRPM4_ENST00000427978.2_Silent_p.T978T	NM_017636.3	NP_060106.2	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel, subfamily M, member 4	1123	Calmodulin-binding.				calcium ion transmembrane transport (GO:0070588)|cardiac conduction (GO:0061337)|dendritic cell chemotaxis (GO:0002407)|ion transmembrane transport (GO:0034220)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cell proliferation (GO:0008284)|protein sumoylation (GO:0016925)|regulation of membrane potential (GO:0042391)|regulation of T cell cytokine production (GO:0002724)|transmembrane transport (GO:0055085)|vasoconstriction (GO:0042310)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|calcium activated cation channel activity (GO:0005227)|calcium channel activity (GO:0005262)			breast(2)|central_nervous_system(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(2)|lung(18)|ovary(2)|prostate(4)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(2)	49		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)		AGCTGCTAACGTGGGAATCGG	0.622																																																0													38	44	42					19																	49714007		2203	4300	6503	SO:0001819	synonymous_variant	54795			AK000048	CCDS33073.1, CCDS56098.1	19q13.3	2011-12-14				ENSG00000130529		"Voltage-gated ion channels / Transient receptor potential cation channels"	17993	protein-coding gene	gene with protein product		606936				11535825, 16382100	Standard	NM_017636		Approved	FLJ20041	uc002pmw.3	Q8TD43		ENST00000252826.5:c.3369G>T	19.37:g.49714007G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2RU25|Q7Z5D9|Q96L84|Q9NXV1	Silent	SNP	ENST00000252826.5	37	CCDS33073.1																																																																																				0.622	TRPM4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000465543.2	NM_017636		T	49714007	G	T	49714007	2	4	602	1	0	0	0	0	0	0	0	1	16600	1132	40	4		4	TRPM4	19	49714007	Silent	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	6802164	49714007	9414976	104	36244										
SIGLEC10	89790	broad.mit.edu;bcgsc.ca	37	chr19	51918318	51918318	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ggagcagctgcagtgcagacCctcagcctcccaggagcagg	14	14	1	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr19:51918318C>G	ENST00000339313.5	-	8	1491	c.1375G>C	c.(1375-1377)Ggt>Cgt	p.G459R	SIGLEC10_ENST00000439889.2_Missense_Mutation_p.G401R|CTD-2616J11.2_ENST00000532688.1_RNA|SIGLEC10_ENST00000441969.3_Intron|CTD-2616J11.2_ENST00000526996.1_RNA|SIGLEC10_ENST00000356298.5_Missense_Mutation_p.G459R|SIGLEC10_ENST00000442846.3_Intron|SIGLEC10_ENST00000436984.2_Intron|CTD-2616J11.3_ENST00000532473.1_RNA|SIGLEC10_ENST00000525998.1_Intron|SIGLEC10_ENST00000432469.2_Intron|SIGLEC10_ENST00000353836.5_Intron			Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10	459					cell adhesion (GO:0007155)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(10)|lung(27)|ovary(1)|prostate(1)|skin(5)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	58		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		CAGTGCAGACCCTCAGCCTCC	0.692																																																0													11	14	13					19																	51918318		2193	4272	6465	SO:0001583	missense	89790			AF310233	CCDS12832.1, CCDS54301.1, CCDS54302.1, CCDS54303.1, CCDS54304.1, CCDS54305.1	19q13.3	2013-01-29			ENSG00000142512	ENSG00000142512		"Sialic acid binding Ig-like lectins", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	15620	protein-coding gene	gene with protein product	"sialic acid binding Ig-like lectin 10 Ig-like lectin 7", "siglec-like gene 2"	606091				11284738	Standard	NM_033130		Approved	SIGLEC-10, SLG2, PRO940, MGC126774	uc002pwo.3	Q96LC7	OTTHUMG00000165521	ENST00000339313.5:c.1375G>C	19.37:g.51918318C>G	ENSP00000345243:p.Gly459Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1I5|A8K3C7|C9JJ33|C9JM10|F8W917|Q3MIR5|Q6UXI8|Q96G54|Q96LC8	Missense_Mutation	SNP	ENST00000339313.5	37	CCDS12832.1	.	.	.	.	.	.	.	.	.	.	.	12.97	2.096586	0.36952	.	.	ENSG00000142512	ENST00000356298;ENST00000439889;ENST00000339313	D;D;D	0.86030	-2.06;-2.06;-2.06	4.83	3.8	0.43715	.	0.448137	0.21198	N	0.078518	D	0.91153	0.7214	M	0.85099	2.735	0.09310	N	0.999998	D;P	0.67145	0.996;0.925	D;P	0.65233	0.933;0.85	D	0.83608	0.0132	10	0.72032	D	0.01	.	9.2804	0.37725	0.0:0.8986:0.0:0.1014	.	401;459	Q96LC7-3;Q96LC7	.;SIG10_HUMAN	R	459;401;459	ENSP00000348646:G459R;ENSP00000389132:G401R;ENSP00000345243:G459R	ENSP00000345243:G459R	G	-	1	0	SIGLEC10	56610130	0.188000	0.23250	0.078000	0.20375	0.354000	0.29330	1.416000	0.34759	1.036000	0.39998	-0.254000	0.11334	GGT		0.692	SIGLEC10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000384620.2	NM_033130		G	51918318	C	G	51918318	3	3	602	1	0	0	0	0	1	0	0	0	14319	623	22	4	734	4	SIGLEC10	19	51918318	Missense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	2204311	51918318	7210665	105	36245										
TMC4	147798	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	54669261	54669261	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ctgtagctggtcagagcctcGgactccgccagcagtgtctg	13	13	2	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr19:54669261G>T	ENST00000376591.4	-	6	986	c.855C>A	c.(853-855)tcC>tcA	p.S285S	TMC4_ENST00000476013.2_Intron|TMC4_ENST00000301187.4_Silent_p.S279S|TMC4_ENST00000416963.1_5'Flank	NM_001145303.1|NM_144686.2	NP_001138775|NP_653287.2	Q7Z404	TMC4_HUMAN	transmembrane channel-like 4	285					ion transport (GO:0006811)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				breast(2)|endometrium(7)|large_intestine(4)|lung(6)|pancreas(1)|skin(1)|urinary_tract(1)	22	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					TCAGAGCCTCGGACTCCGCCA	0.652																																																0													32	30	31					19																	54669261		2202	4299	6501	SO:0001819	synonymous_variant	147798			AY236492	CCDS12882.1, CCDS46174.1	19q13.42	2008-02-05			ENSG00000167608	ENSG00000167608			22998	protein-coding gene	gene with protein product						12812529, 12906855	Standard	XM_005277069		Approved		uc010erf.3	Q7Z404	OTTHUMG00000066485	ENST00000376591.4:c.855C>A	19.37:g.54669261G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z5M3|Q8N5E4|Q8TBS7	Silent	SNP	ENST00000376591.4	37	CCDS46174.1																																																																																				0.652	TMC4-011	NOVEL	basic|appris_candidate_longest|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000156164.2			T	54669261	G	T	54669261	2	4	602	1	0	0	0	0	0	0	0	1	15999	1103	39	4		4	TMC4	19	54669261	Silent	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	2750943	54669261	4459722	106	36246										
CSE1L	1434	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	47705894	47705895	+	Frame_Shift_Ins	INS	-	-	TT													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	taaattttgaggaggctttgINStttttggtgtttactgaaat							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr20:47705894_47705895insTT	ENST00000262982.2	+	18	2055_2056	c.1932_1933insTT	c.(1933-1935)tttfs	p.F645fs	CSE1L_ENST00000396192.3_Frame_Shift_Ins_p.F589fs|CSE1L_ENST00000542325.1_Frame_Shift_Ins_p.F428fs	NM_001256135.1|NM_001316.3	NP_001243064.1|NP_001307.2	P55060	XPO2_HUMAN	CSE1 chromosome segregation 1-like (yeast)	645					apoptotic process (GO:0006915)|cell proliferation (GO:0008283)|protein export from nucleus (GO:0006611)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	importin-alpha export receptor activity (GO:0008262)			breast(2)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(8)|lung(11)|ovary(1)|prostate(3)|skin(2)|urinary_tract(2)	35			BRCA - Breast invasive adenocarcinoma(12;0.000491)|Colorectal(8;0.198)			AGGAGGCTTTGTTTTTGGTGTT	0.312																																																0																																										SO:0001589	frameshift_variant	1434			U33286	CCDS13412.1, CCDS58773.1	20q13	2013-05-01	2001-11-28		ENSG00000124207	ENSG00000124207		"Exportins"	2431	protein-coding gene	gene with protein product	"cellular apoptosis susceptibility"	601342	"chromosome segregation 1 (yeast homolog)-like"			8963895, 7479798	Standard	NM_001316		Approved	CAS, XPO2, CSE1	uc002xty.4	P55060	OTTHUMG00000033046	ENST00000262982.2:c.1935_1936dupTT	20.37:g.47705897_47705898dupTT	ENSP00000262982:p.Phe645fs	Somatic		WXS	Illumina HiSeq	Phase_I	A3RLL6|B2R5T4|E1P5Y0|F8W904|O75432|Q32M40|Q9H5B7|Q9NTS0|Q9UP98|Q9UP99|Q9UPA0	Frame_Shift_Ins	INS	ENST00000262982.2	37	CCDS13412.1																																																																																				0.312	CSE1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080345.2	NM_001316		TT	47705895	-	TT	47705894	7	5	602	1	0	1	1	0	0	0	0	0	3932	1368	48	0	1998	0	CSE1L	20	47705894	Frame_Shift_Ins	INS	-	TCGA-GL-A59R-01A-11D-A26P-10		47705894	15319626	107	36247										
CASS4	57091	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	55033659	55033659	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	atcctccgtggcagcagtcaCctctgcagcctgctcaagga	10	15	3	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr20:55033659C>A	ENST00000360314.3	+	7	2442	c.2217C>A	c.(2215-2217)caC>caA	p.H739Q	CASS4_ENST00000371336.3_Missense_Mutation_p.H739Q|CASS4_ENST00000434344.1_Missense_Mutation_p.H302Q|AL121914.1_ENST00000390795.2_RNA	NM_001164116.1	NP_001157588.1	Q9NQ75	CASS4_HUMAN	Cas scaffolding protein family member 4	739					cell adhesion (GO:0007155)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|membrane (GO:0016020)	phosphorelay sensor kinase activity (GO:0000155)			breast(1)|endometrium(5)|kidney(1)|large_intestine(7)|lung(26)|ovary(4)|prostate(3)|skin(5)|stomach(1)|urinary_tract(1)	54						GCAGCAGTCACCTCTGCAGCC	0.642																																																0													61	50	53					20																	55033659		2203	4300	6503	SO:0001583	missense	57091			AJ276678	CCDS33492.1, CCDS54475.1	20q13.31	2011-04-13	2008-04-14	2008-04-15	ENSG00000087589	ENSG00000087589		"Cas scaffolding proteins"	15878	protein-coding gene	gene with protein product	"HEF-like protein", "HEF1-Efs-p130Cas-like"		"chromosome 20 open reading frame 32"	C20orf32			Standard	NM_020356		Approved	HEFL, HEPL	uc002xxr.2	Q9NQ75	OTTHUMG00000032788	ENST00000360314.3:c.2217C>A	20.37:g.55033659C>A	ENSP00000353462:p.His739Gln	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5Z8|Q5QPD6|Q96K09|Q9BYL5	Missense_Mutation	SNP	ENST00000360314.3	37	CCDS33492.1	.	.	.	.	.	.	.	.	.	.	C	11.41	1.631149	0.28978	.	.	ENSG00000087589	ENST00000360314;ENST00000371336;ENST00000434344	T;T;T	0.22336	1.96;1.96;1.96	5.91	1.54	0.23209	CAS family, DUF3513 (1);	0.511945	0.22918	N	0.054044	T	0.15305	0.0369	L	0.32530	0.975	0.32062	N	0.595525	B;B;B	0.22983	0.078;0.023;0.065	B;B;B	0.23275	0.045;0.013;0.033	T	0.18650	-1.0330	10	0.12430	T	0.62	-9.0912	15.118	0.72419	0.0882:0.3522:0.5595:0.0	.	685;302;739	B4DII4;Q9NQ75-3;Q9NQ75	.;.;CASS4_HUMAN	Q	739;739;302	ENSP00000353462:H739Q;ENSP00000360387:H739Q;ENSP00000410027:H302Q	ENSP00000353462:H739Q	H	+	3	2	CASS4	54467066	1.000000	0.71417	0.288000	0.24862	0.859000	0.49053	1.083000	0.30815	0.372000	0.24591	0.655000	0.94253	CAC		0.642	CASS4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079789.2	NM_020356		A	55033659	C	A	55033659	3	1	602	1	0	0	0	0	1	0	0	0	2685	506	18	4	2239	4	CASS4	20	55033659	Missense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	7327765	55033659	7991861	108	36248										
SLCO4A1	28231	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	61300283	61300283	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	agtgggcttctctccgcaggGggcatcccggggcccatcgc	15	15	1	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr20:61300283G>A	ENST00000370507.1	+	10	1974	c.1878G>A	c.(1876-1878)ggG>ggA	p.G626G	RP11-93B14.5_ENST00000433126.1_RNA|RP11-93B14.5_ENST00000411824.1_RNA|SLCO4A1_ENST00000217159.1_Splice_Site_p.G626G|SLCO4A1_ENST00000470412.1_3'UTR|RP11-93B14.5_ENST00000451648.1_RNA			Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family, member 4A1	626					sodium-independent organic anion transport (GO:0043252)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			endometrium(6)|kidney(2)|large_intestine(1)|lung(7)|ovary(3)|prostate(2)	21	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)		Benzylpenicillin(DB01053)|Conjugated Estrogens(DB00286)|Dextrothyroxine(DB00509)|Digoxin(DB00390)|Dinoprostone(DB00917)|Estradiol(DB00783)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Liotrix(DB01583)	TCTCCGCAGGGGGCATCCCGG	0.662											OREG0026115	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																									Pancreas(168;741 2006 10379 40139 45334)											0													29	32	31					20																	61300283		2202	4299	6501	SO:0001630	splice_region_variant	28231			AB031051	CCDS13501.1	20q13.1	2013-05-22	2003-11-25	2003-11-26	ENSG00000101187	ENSG00000101187		"Solute carriers"	10953	protein-coding gene	gene with protein product		612436	"solute carrier family 21 (organic anion transporter), member 12"	SLC21A12		10873595	Standard	NM_016354		Approved	OATP-E, OATP4A1	uc002ydb.1	Q96BD0	OTTHUMG00000032923	ENST00000370507.1:c.1877-1G>A	20.37:g.61300283G>A		Somatic	1052	WXS	Illumina HiSeq	Phase_I	Q9H4T7|Q9H4T8|Q9H8P2|Q9NWX8|Q9UI35|Q9UIG7	Silent	SNP	ENST00000370507.1	37	CCDS13501.1																																																																																				0.662	SLCO4A1-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080048.2	NM_016354	Silent	A	61300283	G	A	61300283	5	1	602	1	0	0	0	0	0	0	1	0	14742	1246	43	2	1916	2	SLCO4A1	20	61300283	Splice_Site	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	6266624	61300283	1725237	109	36249										
KRTAP19-7	337974	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr21	31933587	31933587	+	Frame_Shift_Del	DEL	A	A	-													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	gccgtagcctaggcctccatAgtagctgccggagtagctca					rs149420565		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr21:31933587delA	ENST00000334849.2	-	1	46	c.22delT	c.(22-24)tatfs	p.Y8fs		NM_181614.1	NP_853645.1	Q3SYF9	KR197_HUMAN	keratin associated protein 19-7	8						intermediate filament (GO:0005882)				endometrium(1)|large_intestine(1)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	11						AGGCCTCCATAGTAGCTGCCG	0.522																																																0													123	106	111					21																	31933587		2203	4300	6503	SO:0001589	frameshift_variant	337974			AP001708	CCDS13599.1	21q22.1	2006-03-13			ENSG00000244362	ENSG00000244362		"Keratin associated proteins"	18942	protein-coding gene	gene with protein product						12359730	Standard	NM_181614		Approved	KAP19.7	uc011adb.2	Q3SYF9	OTTHUMG00000057785	ENST00000334849.2:c.22delT	21.37:g.31933587delA	ENSP00000334696:p.Tyr8fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q08EP7	Frame_Shift_Del	DEL	ENST00000334849.2	37	CCDS13599.1																																																																																				0.522	KRTAP19-7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128237.2			-	31933587	A	-	31933587	7	5	602	1	0	1	0	1	0	0	0	0	8541	420	15	0	172	0	KRTAP19-7	21	31933587	Frame_Shift_Del	DEL	A	TCGA-GL-A59R-01A-11D-A26P-10		31933587	16196308	110	36250										
UMODL1	89766	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	43547904	43547904	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ctacctgcactgcaaactccGcgtctgcatggaatcccccg	8	17	1	0			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr21:43547904G>T	ENST00000408910.2	+	20	3653	c.3653G>T	c.(3652-3654)cGc>cTc	p.R1218L	UMODL1_ENST00000400423.2_3'UTR|UMODL1_ENST00000400427.1_Missense_Mutation_p.R1274L|UMODL1_ENST00000400424.2_Missense_Mutation_p.R1146L|UMODL1_ENST00000408989.2_Missense_Mutation_p.R1346L	NM_001004416.2	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1	1218	ZP. {ECO:0000255|PROSITE- ProRule:PRU00375}.				adipose tissue development (GO:0060612)|cellular response to gonadotropin-releasing hormone (GO:0097211)|multicellular organismal reproductive process (GO:0048609)|regulation of apoptotic process (GO:0042981)|regulation of gene expression (GO:0010468)|regulation of ovarian follicle development (GO:2000354)|single fertilization (GO:0007338)	cytoplasm (GO:0005737)|external side of plasma membrane (GO:0009897)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)|peptidase inhibitor activity (GO:0030414)			breast(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(5)|lung(22)|ovary(2)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	47						TGCAAACTCCGCGTCTGCATG	0.468																																					Pancreas(122;680 807 13940 14411 22888 25505 31742 36028 36332 38435)											0													121	118	119					21																	43547904		1990	4169	6159	SO:0001583	missense	89766				CCDS42935.1, CCDS42936.1, CCDS56214.1, CCDS56215.1	21q22.3	2008-07-04			ENSG00000177398	ENSG00000177398			12560	protein-coding gene	gene with protein product	"olfactorin"	613859				16026467	Standard	NM_173568		Approved		uc002zag.1	Q5DID0	OTTHUMG00000086788	ENST00000408910.2:c.3653G>T	21.37:g.43547904G>T	ENSP00000386147:p.Arg1218Leu	Somatic		WXS	Illumina HiSeq	Phase_I	C9JCE6|Q5DIC9|Q6LA40|Q6LA41|Q8N216	Missense_Mutation	SNP	ENST00000408910.2	37	CCDS42936.1	.	.	.	.	.	.	.	.	.	.	G	12.38	1.920955	0.33908	.	.	ENSG00000177398	ENST00000400427;ENST00000400424;ENST00000408989;ENST00000408910;ENST00000434156	D;D;D;D	0.83250	-1.7;-1.7;-1.7;-1.7	3.56	3.56	0.40772	Endoglin/CD105 antigen subgroup (1);Zona pellucida sperm-binding protein (3);	0.157726	0.27052	N	0.021161	D	0.88514	0.6457	M	0.74881	2.28	0.09310	N	1	D;D	0.71674	0.996;0.998	P;D	0.69824	0.891;0.966	T	0.79004	-0.1980	9	.	.	.	-25.27	9.3757	0.38281	0.1022:0.0:0.8978:0.0	.	1346;1218	Q5DID0-2;Q5DID0	.;UROL1_HUMAN	L	1274;1146;1346;1218;103	ENSP00000383279:R1274L;ENSP00000383276:R1146L;ENSP00000386126:R1346L;ENSP00000386147:R1218L	.	R	+	2	0	UMODL1	42420973	0.756000	0.28383	0.009000	0.14445	0.228000	0.25075	3.036000	0.49767	2.290000	0.77057	0.561000	0.74099	CGC		0.468	UMODL1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195292.2			T	43547904	G	T	43547904	3	4	602	1	0	0	0	0	1	0	0	0	16992	1087	38	4	4111	4	UMODL1	21	43547904	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10	11614317	43547904	4581991	111	36251										
COL18A1	80781	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	46875643	46875643	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	ccaccacacacgtgacccccCggaatggttccacagagcca	8	18	0	2	rs375087150		TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr21:46875643C>G	ENST00000359759.4	+	1	220	c.199C>G	c.(199-201)Cgg>Ggg	p.R67G	COL18A1_ENST00000355480.5_Missense_Mutation_p.R67G|COL18A1_ENST00000400337.2_Intron			P39060	COIA1_HUMAN	collagen, type XVIII, alpha 1	67					angiogenesis (GO:0001525)|cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|endothelial cell morphogenesis (GO:0001886)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|negative regulation of cell proliferation (GO:0008285)|organ morphogenesis (GO:0009887)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of endothelial cell apoptotic process (GO:2000353)|response to drug (GO:0042493)|response to hydrostatic pressure (GO:0051599)|visual perception (GO:0007601)	basement membrane (GO:0005604)|collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|structural molecule activity (GO:0005198)			breast(1)|central_nervous_system(2)|endometrium(4)|kidney(2)|large_intestine(4)|lung(8)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	25				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		CGTGACCCCCCGGAATGGTTC	0.647																																																0													53	68	63					21																	46875643		2077	4200	6277	SO:0001583	missense	80781				CCDS42971.1, CCDS42972.1	21q22.3	2013-01-16			ENSG00000182871	ENSG00000182871		"Collagens"	2195	protein-coding gene	gene with protein product	"endostatin"	120328	"Knobloch syndrome, type 1"	KNO		8188291, 8776601, 10942434, 17546652	Standard	NM_130445		Approved	KS, KNO1	uc002zhi.3	P39060	OTTHUMG00000090407	ENST00000359759.4:c.199C>G	21.37:g.46875643C>G	ENSP00000352798:p.Arg67Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MVI4|Q58EX6|Q6RZ39|Q6RZ40|Q6RZ41|Q8N4S4|Q8WXI5|Q96T70|Q9UK38|Q9Y6Q7|Q9Y6Q8	Missense_Mutation	SNP	ENST00000359759.4	37		.	.	.	.	.	.	.	.	.	.	C	10.16	1.275053	0.23307	.	.	ENSG00000182871	ENST00000355480;ENST00000359759;ENST00000539645	T;T	0.38077	1.16;1.16	3.61	0.181	0.15073	Domain of unknown function DUF959, collagen XVIII, N-terminal (1);	1.949970	0.03091	N	0.159750	T	0.22627	0.0546	N	0.14661	0.345	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.06405	0.001;0.002	T	0.28522	-1.0041	10	0.72032	D	0.01	.	4.007	0.09605	0.0:0.3657:0.3946:0.2397	.	67;67	P39060;P39060-1	COIA1_HUMAN;.	G	67	ENSP00000347665:R67G;ENSP00000352798:R67G	ENSP00000347665:R67G	R	+	1	2	COL18A1	45700071	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	0.084000	0.14891	0.253000	0.21552	-0.339000	0.08088	CGG		0.647	COL18A1-201	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000206827.1			G	46875643	C	G	46875643	3	3	602	1	0	0	0	0	1	0	0	0	3677	643	23	4	315	4	COL18A1	21	46875643	Missense_Mutation	SNP	C	TCGA-GL-A59R-01A-11D-A26P-10	3327739	46875643	1254252	112	36252										
GAB4	128954	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	17488934	17488934	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	cggggccacttccgggccacGaagacaaaggcgcaaatgcc	13	14	0	1			TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr22:17488934G>A	ENST00000400588.1	-	1	178	c.71C>T	c.(70-72)tCg>tTg	p.S24L	GAB4_ENST00000523144.1_5'Flank	NM_001037814.1	NP_001032903.1	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member 4	24										breast(2)|endometrium(2)|kidney(2)|large_intestine(6)|lung(24)|ovary(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	44		all_epithelial(15;0.112)|Lung NSC(13;0.248)				TCCGGGCCACGAAGACAAAGG	0.682																																																0													16	19	18					22																	17488934		2097	4219	6316	SO:0001583	missense	128954			AK057252	CCDS42976.1	22q11.2	2013-01-10			ENSG00000215568	ENSG00000215568		"Pleckstrin homology (PH) domain containing"	18325	protein-coding gene	gene with protein product							Standard	NM_001037814		Approved		uc002zlw.3	Q2WGN9	OTTHUMG00000149992	ENST00000400588.1:c.71C>T	22.37:g.17488934G>A	ENSP00000383431:p.Ser24Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000400588.1	37	CCDS42976.1	.	.	.	.	.	.	.	.	.	.	G	10.22	1.290327	0.23478	.	.	ENSG00000215568	ENST00000400588	T	0.10288	2.89	0.637	0.637	0.17735	.	.	.	.	.	T	0.04634	0.0126	N	0.08118	0	0.09310	N	1	P	0.44241	0.829	B	0.40134	0.32	T	0.37244	-0.9714	8	0.14656	T	0.56	.	.	.	.	.	24	Q2WGN9	GAB4_HUMAN	L	24	ENSP00000383431:S24L	ENSP00000383431:S24L	S	-	2	0	GAB4	15868934	0.001000	0.12720	0.007000	0.13788	0.022000	0.10575	-0.092000	0.11129	0.591000	0.29711	0.313000	0.20887	TCG		0.682	GAB4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000315426.1	XM_372882		A	17488934	G	A	17488934	3	1	602	1	0	0	0	0	1	0	0	0	6158	1059	37	1	1693	1	GAB4	22	17488934	Missense_Mutation	SNP	G	TCGA-GL-A59R-01A-11D-A26P-10		17488934	33815632	113	36253										
EP300	2033	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	41558757	41558757	+	Frame_Shift_Del	DEL	A	A	-													0.0900900900900901	10	1	1.60976890756303	1.44879201680672	1.69025735294118	0.213756898640463	1	0	aaagaacaattttccaagagAaaaaatgacacactggatcc							TCGA-GL-A59R-01A-11D-A26P-10	TCGA-GL-A59R-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c504d5a9-29b0-4b7e-ac7b-5e543449a0f4	b95ff063-202c-47ad-a9fa-d2f922585ae7	g.chr22:41558757delA	ENST00000263253.7	+	21	4921	c.3702delA	c.(3700-3702)agafs	p.R1234fs		NM_001429.3	NP_001420.2	Q09472	EP300_HUMAN	E1A binding protein p300	1234					apoptotic process (GO:0006915)|cellular response to hypoxia (GO:0071456)|chromatin organization (GO:0006325)|circadian rhythm (GO:0007623)|G2/M transition of mitotic cell cycle (GO:0000086)|heart development (GO:0007507)|histone H2B acetylation (GO:0043969)|histone H4 acetylation (GO:0043967)|innate immune response (GO:0045087)|internal peptidyl-lysine acetylation (GO:0018393)|internal protein amino acid acetylation (GO:0006475)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|lung development (GO:0030324)|mitotic cell cycle (GO:0000278)|N-terminal peptidyl-lysine acetylation (GO:0018076)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nervous system development (GO:0007399)|Notch signaling pathway (GO:0007219)|organ morphogenesis (GO:0009887)|positive regulation by host of viral transcription (GO:0043923)|positive regulation of protein binding (GO:0032092)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of type I interferon production (GO:0032481)|regulation of androgen receptor signaling pathway (GO:0060765)|regulation of cell cycle (GO:0051726)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of transcription, DNA-templated (GO:0006355)|regulation of tubulin deacetylation (GO:0090043)|response to estrogen (GO:0043627)|response to hypoxia (GO:0001666)|skeletal muscle tissue development (GO:0007519)|somitogenesis (GO:0001756)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	cytoplasm (GO:0005737)|histone acetyltransferase complex (GO:0000123)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	acetyltransferase activity (GO:0016407)|activating transcription factor binding (GO:0033613)|androgen receptor binding (GO:0050681)|beta-catenin binding (GO:0008013)|chromatin binding (GO:0003682)|chromatin DNA binding (GO:0031490)|core promoter binding (GO:0001047)|DNA binding (GO:0003677)|histone acetyltransferase activity (GO:0004402)|lysine N-acetyltransferase activity, acting on acetyl phosphate as donor (GO:0004468)|nuclear hormone receptor binding (GO:0035257)|pre-mRNA intronic binding (GO:0097157)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|transferase activity, transferring acyl groups (GO:0016746)|zinc ion binding (GO:0008270)	p.Y1198_L1243del(1)		NS(2)|breast(11)|central_nervous_system(7)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(31)|kidney(5)|large_intestine(31)|liver(2)|lung(33)|ovary(2)|pancreas(4)|prostate(1)|skin(6)|stomach(1)|upper_aerodigestive_tract(8)|urinary_tract(16)	171						TTTCCAAGAGAAAAAATGACA	0.368			"T,  N, F, Mis, O"	"MLL, RUNXBP2"	"colorectal, breast, pancreatic, AML, ALL, DLBCL"				Rubinstein-Taybi syndrome																														Rec	yes		22	22q13	2033	300 kd E1A-Binding protein gene		"L, E"	1	Deletion - In frame(1)	breast(1)											120	114	116					22																	41558757		2203	4300	6503	SO:0001589	frameshift_variant	2033	Familial Cancer Database	Broad Thumb-Hallux syndrome	U01877	CCDS14010.1	22q13.2	2011-07-01			ENSG00000100393	ENSG00000100393		"Chromatin-modifying enzymes / K-acetyltransferases"	3373	protein-coding gene	gene with protein product	"histone acetyltransferase p300"	602700				7523245	Standard	NM_001429		Approved	p300, KAT3B	uc003azl.4	Q09472	OTTHUMG00000150937	ENST00000263253.7:c.3702delA	22.37:g.41558757delA	ENSP00000263253:p.Arg1234fs	Somatic		WXS	Illumina HiSeq	Phase_I	B1AKC2	Frame_Shift_Del	DEL	ENST00000263253.7	37	CCDS14010.1																																																																																				0.368	EP300-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320600.1	NM_001429		-	41558757	A	-	41558757	7	5	602	1	0	1	0	1	0	0	0	0	5150	243	9	0	3784	0	EP300	22	41558757	Frame_Shift_Del	DEL	A	TCGA-GL-A59R-01A-11D-A26P-10	24069823	41558757	9745809	114	36254										
PADI4	23569	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	17674521	17674521	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	aaggaacagaggcctgaaggAgtttcccatcaaacgcgtga	12	9	1	3			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr1:17674521A>T	ENST00000375448.4	+	10	1159	c.1133A>T	c.(1132-1134)gAg>gTg	p.E378V	AC004824.2_ENST00000602074.1_Intron|PADI4_ENST00000487048.1_3'UTR	NM_012387.2	NP_036519.2	Q9UM07	PADI4_HUMAN	peptidyl arginine deiminase, type IV	378					cellular protein modification process (GO:0006464)|chromatin modification (GO:0016568)|chromatin remodeling (GO:0006338)|histone citrullination (GO:0036414)|histone H3-R26 citrullination (GO:0036413)|innate immune response (GO:0045087)|nucleosome assembly (GO:0006334)|protein citrullination (GO:0018101)|regulation of transcription, DNA-templated (GO:0006355)|stem cell maintenance (GO:0019827)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	arginine deiminase activity (GO:0016990)|calcium ion binding (GO:0005509)|protein-arginine deiminase activity (GO:0004668)			autonomic_ganglia(1)|breast(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(13)|ovary(2)|skin(2)|urinary_tract(3)	26		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000338)|Lung NSC(340;0.00042)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00537)|BRCA - Breast invasive adenocarcinoma(304;8.54e-06)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(64;0.000223)|KIRC - Kidney renal clear cell carcinoma(64;0.00313)|STAD - Stomach adenocarcinoma(196;0.00707)|READ - Rectum adenocarcinoma(331;0.0689)|Lung(427;0.199)	L-Citrulline(DB00155)	GGCCTGAAGGAGTTTCCCATC	0.567																																																0													99	89	92					1																	17674521		2203	4300	6503	SO:0001583	missense	23569			AB017919	CCDS180.1	1p36.13	2014-06-06	2003-02-12		ENSG00000159339	ENSG00000159339	3.5.3.15	"Peptidyl arginine deiminases"	18368	protein-coding gene	gene with protein product		605347	"peptidyl arginine deiminase, type V"	PADI5		10488123	Standard	NM_012387		Approved	PAD, PDI5, PDI4	uc001baj.2	Q9UM07	OTTHUMG00000002371	ENST00000375448.4:c.1133A>T	1.37:g.17674521A>T	ENSP00000364597:p.Glu378Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K392|B2RBW0|Q5VTZ8|Q70SX4	Missense_Mutation	SNP	ENST00000375448.4	37	CCDS180.1	.	.	.	.	.	.	.	.	.	.	-	15.98	2.991445	0.54041	.	.	ENSG00000159339	ENST00000375448	T	0.25414	1.8	4.85	4.85	0.62838	Protein-arginine deiminase, C-terminal (1);	0.357378	0.28883	N	0.013830	T	0.23649	0.0572	N	0.13235	0.315	0.39431	D	0.967088	B;P	0.47191	0.04;0.891	B;P	0.51550	0.091;0.673	T	0.05920	-1.0856	10	0.41790	T	0.15	-11.7468	11.9518	0.52959	1.0:0.0:0.0:0.0	.	378;378	A8K392;Q9UM07	.;PADI4_HUMAN	V	378	ENSP00000364597:E378V	ENSP00000364597:E378V	E	+	2	0	PADI4	17547108	1.000000	0.71417	0.970000	0.41538	0.890000	0.51754	6.131000	0.71670	2.042000	0.60477	0.423000	0.28283	GAG		0.567	PADI4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006799.1	NM_012387		T	17674521	A	T	17674521	3	4	603	1	0	0	0	0	1	0	0	0	11387	304	11	5	1171	5	PADI4	1	17674521	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10		17674521	231576100	1	36255										
ORC1L	4998	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	52849239	52849239	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ttgtgagtccacagaaggtcGagctgccagggcaaaggaga	15	8	0	3	rs201622141		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr1:52849239G>A	ENST00000371568.3	-	13	2084	c.1866C>T	c.(1864-1866)ctC>ctT	p.L622L	ORC1_ENST00000371566.1_Silent_p.L622L	NM_001190818.1|NM_001190819.1|NM_004153.3	NP_001177747.1|NP_001177748.1|NP_004144.2	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	622	Necessary and sufficient for ORC complex assembly.				DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear origin of replication recognition complex (GO:0005664)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|origin recognition complex (GO:0000808)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)			breast(1)|cervix(2)|endometrium(4)|kidney(4)|large_intestine(9)|lung(9)|ovary(1)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	37						ACAGAAGGTCGAGCTGCCAGG	0.493													G|||	1	0.000199681	0.0	0.0	5008	,	,		19901	0.001		0.0	False		,,,				2504	0.0															0													63	60	61					1																	52849239		2203	4300	6503	SO:0001819	synonymous_variant	4998				CCDS566.1	1p32	2010-10-12	2010-10-12	2010-10-12	ENSG00000085840	ENSG00000085840		"ATPases / AAA-type"	8487	protein-coding gene	gene with protein product	"origin recognition complex, subunit 1, S. cerevisiae, homolog-like", "origin recognition complex 1", "replication control protein 1"	601902	"origin recognition complex, subunit 1 (yeast homolog)-like", "origin recognition complex, subunit 1-like (yeast)", "origin recognition complex, subunit 1 homolog (S. cerevisiae)"	ORC1L		8884289	Standard	NM_004153		Approved	HSORC1, PARC1	uc001ctu.3	Q13415	OTTHUMG00000008104	ENST00000371568.3:c.1866C>T	1.37:g.52849239G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DQ34|Q13471|Q5T0F5	Silent	SNP	ENST00000371568.3	37	CCDS566.1																																																																																				0.493	ORC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000022202.1	NM_004153		A	52849239	G	A	52849239	2	1	603	1	0	0	0	0	0	0	0	1	11268	1045	37	1		1	ORC1L	1	52849239	Silent	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	35174718	52849239	196401382	2	36256										
RWDD3	25950	ucsc.edu;bcgsc.ca	37	chr1	95710051	95710051	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	aaccagaaactggcagtggcAgtgaaaagtgtactttttca	10	7	1	2	rs138509057		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr1:95710051A>T	ENST00000370202.4	+	2	446	c.370A>T	c.(370-372)Agt>Tgt	p.S124C	RP11-57H12.5_ENST00000444665.1_RNA|RP11-57H12.6_ENST00000604534.1_3'UTR|RWDD3_ENST00000429514.2_Missense_Mutation_p.S109C|RWDD3_ENST00000263893.6_Missense_Mutation_p.S124C|RWDD3_ENST00000495272.1_3'UTR	NM_001199682.1|NM_015485.4	NP_001186611.1|NP_056300	Q9Y3V2	RWDD3_HUMAN	RWD domain containing 3	124					negative regulation of NF-kappaB transcription factor activity (GO:0032088)|positive regulation of hypoxia-inducible factor-1alpha signaling pathway (GO:1902073)|positive regulation of protein sumoylation (GO:0033235)	cytoplasm (GO:0005737)|nucleus (GO:0005634)		p.S124R(1)		kidney(1)|large_intestine(2)|lung(6)|ovary(1)	10		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)		TGGCAGTGGCAGTGAAAAGTG	0.438																																																1	Substitution - Missense(1)	large_intestine(1)											107	102	104					1																	95710051		1947	4130	6077	SO:0001583	missense	25950			BC010936	CCDS41357.1, CCDS44177.1	1p22.1	2012-12-07			ENSG00000122481	ENSG00000122481			21393	protein-coding gene	gene with protein product		615875				11230166	Standard	NM_015485		Approved	DKFZP566K023	uc009wdu.3	Q9Y3V2	OTTHUMG00000010910	ENST00000370202.4:c.370A>T	1.37:g.95710051A>T	ENSP00000359221:p.Ser124Cys	Somatic		WXS	Illumina HiSeq		A6NP44|A8K9F0|C9J9L7|C9JI45|Q08AJ7|Q6FID3|Q9BX35	Missense_Mutation	SNP	ENST00000370202.4	37	CCDS41357.1	.	.	.	.	.	.	.	.	.	.	A	3.798	-0.042270	0.07452	.	.	ENSG00000122481	ENST00000370202;ENST00000429514;ENST00000263893	T;T;T	0.34859	1.34;1.38;1.35	5.38	-5.53	0.02552	.	1.677590	0.02325	N	0.073392	T	0.09202	0.0227	L	0.40543	1.245	0.09310	N	1	B;B;B;B;B	0.11235	0.001;0.001;0.0;0.004;0.0	B;B;B;B;B	0.09377	0.001;0.001;0.0;0.004;0.001	T	0.27191	-1.0081	10	0.52906	T	0.07	0.4062	0.9194	0.01311	0.2608:0.2714:0.1228:0.345	.	109;124;124;109;124	E7ES73;Q9Y3V2;D3DT49;Q9Y3V2-3;Q9Y3V2-2	.;RWDD3_HUMAN;.;.;.	C	124;109;124	ENSP00000359221:S124C;ENSP00000397398:S109C;ENSP00000263893:S124C	ENSP00000263893:S124C	S	+	1	0	RWDD3	95482639	0.000000	0.05858	0.000000	0.03702	0.010000	0.07245	-0.566000	0.05922	-0.478000	0.06823	-0.274000	0.10170	AGT		0.438	RWDD3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030078.1	NM_015485		T	95710051	A	T	95710051	3	4	603	1	0	0	0	0	1	0	0	0	13770	188	7	5	376	5	RWDD3	1	95710051	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	42860812	95710051	153540570	3	36257										
LPPR4	9890	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	99764611	99764611	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gtgttcatgtatttggattaTgctctacagctctcattaca	7	8	3	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr1:99764611T>C	ENST00000370185.3	+	4	1056	c.559T>C	c.(559-561)Tgc>Cgc	p.C187R	LPPR4_ENST00000457765.1_Missense_Mutation_p.C187R|LPPR4_ENST00000370184.1_Missense_Mutation_p.C29R	NM_014839.4	NP_055654.2	Q7Z2D5	LPPR4_HUMAN		187					axonogenesis (GO:0007409)|inner ear development (GO:0048839)|phospholipid dephosphorylation (GO:0046839)	integral component of plasma membrane (GO:0005887)	lipid phosphatase activity (GO:0042577)|phosphatidate phosphatase activity (GO:0008195)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(17)|lung(39)|ovary(3)|prostate(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	72		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)		ATTTGGATTATGCTCTACAGC	0.363																																																0													150	133	138					1																	99764611		2203	4300	6503	SO:0001583	missense	0																														ENST00000370185.3:c.559T>C	1.37:g.99764611T>C	ENSP00000359204:p.Cys187Arg	Somatic		WXS	Illumina HiSeq	Phase_I	E7EPS1|O75043|Q5T9R9|Q86XQ5|Q8N3F1|Q96MP0	Missense_Mutation	SNP	ENST00000370185.3	37	CCDS757.1	.	.	.	.	.	.	.	.	.	.	T	20.6	4.012287	0.75046	.	.	ENSG00000117600	ENST00000370185;ENST00000457765;ENST00000263178;ENST00000370184	T;T;T	0.52057	0.68;0.68;0.68	5.41	5.41	0.78517	Phosphatidic acid phosphatase/chloroperoxidase, N-terminal (1);	0.000000	0.85682	D	0.000000	T	0.63920	0.2552	M	0.78637	2.42	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.997	T	0.69636	-0.5092	10	0.72032	D	0.01	-30.56	15.7585	0.78058	0.0:0.0:0.0:1.0	.	187;187	E7EPS1;Q7Z2D5	.;LPPR4_HUMAN	R	187;187;187;29	ENSP00000359204:C187R;ENSP00000394913:C187R;ENSP00000359203:C29R	ENSP00000263178:C187R	C	+	1	0	RP4-788L13.1	99537199	1.000000	0.71417	0.955000	0.39395	0.578000	0.36192	6.235000	0.72332	2.191000	0.70037	0.528000	0.53228	TGC		0.363	LPPR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029670.2			C	99764611	T	C	99764611	3	2	603	1	0	0	0	0	1	0	0	0	8934	1464	51	3	573	3	LPPR4	1	99764611	Missense_Mutation	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10	4054560	99764611	149486010	4	36258										
NUP210L	91181	bcgsc.ca	37	chr1	154033034	154033034	+	Silent	SNP	T	T	C													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	acctcaacagagctttctgcTtccatgtaagtgatggtgac							TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr1:154033034T>C	ENST00000368559.3	-	20	2903	c.2832A>G	c.(2830-2832)gaA>gaG	p.E944E	NUP210L_ENST00000271854.3_Silent_p.E944E	NM_207308.2	NP_997191.2	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like	944					Sertoli cell development (GO:0060009)|spermatid development (GO:0007286)	integral component of membrane (GO:0016021)				NS(1)|breast(6)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(12)|lung(34)|ovary(4)|pancreas(1)|prostate(2)|skin(6)|urinary_tract(2)	80	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			AGCTTTCTGCTTCCATGTAAG	0.433																																																0													120	111	114					1																	154033034		1909	4135	6044	SO:0001819	synonymous_variant	91181			AK125924	CCDS41399.1, CCDS53370.1	1q21.3	2008-02-05			ENSG00000143552	ENSG00000143552			29915	protein-coding gene	gene with protein product							Standard	NM_207308		Approved		uc001fdw.3	Q5VU65	OTTHUMG00000035852	ENST00000368559.3:c.2832A>G	1.37:g.154033034T>C		Somatic		WXS	Illumina HiSeq	Phase_1	E7EP56|Q5T4L7|Q6ZRN1|Q6ZRT4|Q6ZU81|Q8NDI6|Q9UF31	Silent	SNP	ENST00000368559.3	37	CCDS41399.1																																																																																				0.433	NUP210L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087270.3	NM_207308		C	154033034	T	C	154033034	2	2	603	1	0	0	0	0	0	0	0	1	10768	1606	56	3		3	NUP210L	1	154033034	Silent	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10	54268423	154033034	95217587	5	36259	282	2								
NUP210L	91181	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	154033038	154033049	+	In_Frame_Del	DEL	ATGTAAGTGATG	ATGTAAGTGATG	-													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	caacagagctttctgcttccAtgtaagtgatggtgacaaca					rs368673993		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	ATGTAAGTGATG	ATGTAAGTGATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr1:154033038_154033049delATGTAAGTGATG	ENST00000368559.3	-	20	2888_2899	c.2817_2828delCATCACTTACAT	c.(2815-2829)accatcacttacatg>acg	p.ITYM940del	NUP210L_ENST00000271854.3_In_Frame_Del_p.ITYM940del	NM_207308.2	NP_997191.2	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like	940					Sertoli cell development (GO:0060009)|spermatid development (GO:0007286)	integral component of membrane (GO:0016021)				NS(1)|breast(6)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(12)|lung(34)|ovary(4)|pancreas(1)|prostate(2)|skin(6)|urinary_tract(2)	80	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			TTCTGCTTCCATGTAAGTGATGGTGACAACAC	0.415																																																0																																										SO:0001651	inframe_deletion	91181			AK125924	CCDS41399.1, CCDS53370.1	1q21.3	2008-02-05			ENSG00000143552	ENSG00000143552			29915	protein-coding gene	gene with protein product							Standard	NM_207308		Approved		uc001fdw.3	Q5VU65	OTTHUMG00000035852	ENST00000368559.3:c.2817_2828delCATCACTTACAT	1.37:g.154033038_154033049delATGTAAGTGATG	ENSP00000357547:p.Ile940_Met943del	Somatic		WXS	Illumina HiSeq	Phase_I	E7EP56|Q5T4L7|Q6ZRN1|Q6ZRT4|Q6ZU81|Q8NDI6|Q9UF31	In_Frame_Del	DEL	ENST00000368559.3	37	CCDS41399.1																																																																																				0.415	NUP210L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087270.3	NM_207308		-	154033049	ATGTAAGTGATG	-	154033038	7	5	603	1	0	1	0	1	0	0	0	0	10768	217	8	0	2922	0	NUP210L	1	154033038	In_Frame_Del	DEL	ATGTAAGTGATG	TCGA-GL-A59T-01A-21D-A28G-10	4	154033038	95217583	6	36260	282	2								
KCNN3	3782	hgsc.bcm.edu	37	chr1	154842253	154842253	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gctgctgctgaagctgcggaGgctgaggctgcagcgagggt	19	9	0	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr1:154842253G>T	ENST00000271915.4	-	1	503	c.188C>A	c.(187-189)cCt>cAt	p.P63H	KCNN3_ENST00000358505.2_5'Flank	NM_001204087.1|NM_002249.5	NP_001191016.1|NP_002240.3	Q9UGI6	KCNN3_HUMAN	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 3	63	Gln-rich.|Pro-rich.				potassium ion transmembrane transport (GO:0071805)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	calmodulin binding (GO:0005516)|small conductance calcium-activated potassium channel activity (GO:0016286)			cervix(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(11)|prostate(4)|skin(1)	28	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)		Miconazole(DB01110)|Procaine(DB00721)	aagctgcggaggctgaggctg	0.697																																																0													6	4	5					1																	154842253		1984	3925	5909	SO:0001583	missense	3782			AF031815	CCDS1072.1, CCDS30880.1, CCDS72928.1	1q21.3	2012-07-05			ENSG00000143603	ENSG00000143603		"Potassium channels", "Voltage-gated ion channels / Potassium channels, calcium-activated"	6292	protein-coding gene	gene with protein product		602983				9491810, 16382103	Standard	NM_002249		Approved	KCa2.3, hSK3, SKCA3	uc021pah.1	Q9UGI6	OTTHUMG00000037260	ENST00000271915.4:c.188C>A	1.37:g.154842253G>T	ENSP00000271915:p.Pro63His	Somatic		WXS	Illumina HiSeq	Phase_I	B1ANX0|O43517|Q86VF9|Q8WXG7	Missense_Mutation	SNP	ENST00000271915.4	37	CCDS30880.1	.	.	.	.	.	.	.	.	.	.	g	11.14	1.552427	0.27739	.	.	ENSG00000143603	ENST00000271915;ENST00000539103	T	0.56275	0.47	5.07	3.18	0.36537	.	1.727610	0.03258	N	0.182822	T	0.18551	0.0445	N	0.08118	0	0.80722	D	1	.	.	.	.	.	.	T	0.11372	-1.0590	8	0.33141	T	0.24	-4.1487	6.4327	0.21807	0.0918:0.0:0.7284:0.1798	.	.	.	.	H	63;158	ENSP00000271915:P63H	ENSP00000271915:P63H	P	-	2	0	KCNN3	153108877	0.863000	0.29885	1.000000	0.80357	0.998000	0.95712	1.873000	0.39558	0.823000	0.34589	0.563000	0.77884	CCT		0.697	KCNN3-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090688.3	NM_002249		T	154842253	G	T	154842253	3	4	603	1	0	0	0	0	1	0	0	0	8087	1000	35	4	2061	4	KCNN3	1	154842253	Missense_Mutation	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	809215	154842253	94408368	7	36261										
THBS3	7059	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	155172114	155172114	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ctgtgtgcccttgtaccctcGaggacaggcctcacagtgga	12	13	1	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr1:155172114G>A	ENST00000368378.3	-	9	1056	c.1036C>T	c.(1036-1038)Cga>Tga	p.R346*	THBS3_ENST00000457183.2_Nonsense_Mutation_p.R226*|RP11-263K19.4_ENST00000430312.1_RNA|RP11-263K19.4_ENST00000436772.1_RNA|RP11-263K19.4_ENST00000422665.1_RNA|THBS3_ENST00000541990.1_5'UTR|THBS3_ENST00000541576.1_5'Flank|RP11-263K19.4_ENST00000454348.1_RNA|RP11-263K19.4_ENST00000447623.1_RNA|THBS3_ENST00000486260.1_5'UTR|RP11-263K19.4_ENST00000453136.1_RNA	NM_001252607.1|NM_007112.4	NP_001239536.1|NP_009043.1	P49746	TSP3_HUMAN	thrombospondin 3	346	EGF-like 1; calcium-binding. {ECO:0000255|PROSITE-ProRule:PRU00076}.				bone trabecula formation (GO:0060346)|cell-matrix adhesion (GO:0007160)|growth plate cartilage development (GO:0003417)|ossification involved in bone maturation (GO:0043931)	extracellular region (GO:0005576)|perinuclear region of cytoplasm (GO:0048471)	calcium ion binding (GO:0005509)|heparin binding (GO:0008201)			breast(6)|endometrium(4)|kidney(4)|large_intestine(6)|lung(14)|ovary(3)|prostate(2)|skin(2)|upper_aerodigestive_tract(4)|urinary_tract(3)	48	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)			TTGTACCCTCGAGGACAGGCC	0.602																																																0													96	90	92					1																	155172114		2203	4300	6503	SO:0001587	stop_gained	7059			L38969	CCDS1099.1, CCDS58034.1, CCDS72937.1	1q21	2008-02-05			ENSG00000169231	ENSG00000169231			11787	protein-coding gene	gene with protein product		188062				1601886	Standard	NM_007112		Approved		uc001fix.3	P49746	OTTHUMG00000035710	ENST00000368378.3:c.1036C>T	1.37:g.155172114G>A	ENSP00000357362:p.Arg346*	Somatic		WXS	Illumina HiSeq	Phase_I	B1AVR8|B4DQ20|Q8WV34	Nonsense_Mutation	SNP	ENST00000368378.3	37	CCDS1099.1	.	.	.	.	.	.	.	.	.	.	G	34	5.316567	0.95655	.	.	ENSG00000169231	ENST00000368378;ENST00000457183;ENST00000428962	.	.	.	5.44	5.44	0.79542	.	0.674441	0.14773	N	0.299266	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.12766	T	0.61	3.2614	16.8112	0.85720	0.0:0.0:1.0:0.0	.	.	.	.	X	346;226;196	.	ENSP00000357362:R346X	R	-	1	2	THBS3	153438738	0.461000	0.25783	0.082000	0.20525	0.937000	0.57800	3.403000	0.52615	2.837000	0.97791	0.655000	0.94253	CGA		0.602	THBS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086856.1	NM_007112		A	155172114	G	A	155172114	4	1	603	1	0	0	0	0	0	1	0	0	15867	1066	37	1	1894	1	THBS3	1	155172114	Nonsense_Mutation	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	329861	155172114	94078507	8	36262										
NIT1	4817	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	161089159	161089159	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tgggtgggaaacttttggaaGaatacacccagcttgccagg	13	8	0	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr1:161089159G>A	ENST00000368009.2	+	3	410	c.334G>A	c.(334-336)Gaa>Aaa	p.E112K	PFDN2_ENST00000368010.3_5'Flank|NIT1_ENST00000496861.1_3'UTR|NIT1_ENST00000368007.4_Missense_Mutation_p.E97K|PFDN2_ENST00000468311.1_5'Flank|DEDD_ENST00000489249.1_5'Flank|NIT1_ENST00000392190.5_Missense_Mutation_p.E76K|NIT1_ENST00000368008.1_Missense_Mutation_p.E112K	NM_005600.2	NP_005591.1	Q86X76	NIT1_HUMAN	nitrilase 1	112	CN hydrolase. {ECO:0000255|PROSITE- ProRule:PRU00054}.				nitrogen compound metabolic process (GO:0006807)	extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	nitrilase activity (GO:0000257)			NS(1)|breast(2)|endometrium(2)|large_intestine(3)|lung(3)|prostate(1)	12	all_cancers(52;3.39e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			ACTTTTGGAAGAATACACCCA	0.532											OREG0013937	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													49	51	50					1																	161089159		2203	4300	6503	SO:0001583	missense	4817			AF069984	CCDS1218.1, CCDS53401.1, CCDS53402.1, CCDS53403.1	1q21-q22	2008-05-14			ENSG00000158793	ENSG00000158793			7828	protein-coding gene	gene with protein product		604618				9671749	Standard	NM_005600		Approved		uc001fxv.2	Q86X76	OTTHUMG00000031473	ENST00000368009.2:c.334G>A	1.37:g.161089159G>A	ENSP00000356988:p.Glu112Lys	Somatic	1814	WXS	Illumina HiSeq	Phase_I	B1AQP3|D3DVF4|O76091	Missense_Mutation	SNP	ENST00000368009.2	37	CCDS1218.1	.	.	.	.	.	.	.	.	.	.	G	8.049	0.765654	0.15983	.	.	ENSG00000158793	ENST00000368009;ENST00000368007;ENST00000368008;ENST00000392190	D;D;D;D	0.87256	-2.23;-2.23;-2.23;-2.23	5.11	1.87	0.25490	Nitrilase/cyanide hydratase and apolipoprotein N-acyltransferase (4);	0.588133	0.17579	N	0.169205	T	0.48732	0.1516	N	0.11845	0.185	0.20196	N	0.999928	B;B;B	0.06786	0.001;0.001;0.0	B;B;B	0.12156	0.004;0.007;0.004	T	0.47381	-0.9122	10	0.05833	T	0.94	-0.6996	8.6096	0.33795	0.0961:0.5513:0.3526:0.0	.	97;112;112	Q86X76-4;B1AQP4;Q86X76	.;.;NIT1_HUMAN	K	112;97;112;76	ENSP00000356988:E112K;ENSP00000356986:E97K;ENSP00000356987:E112K;ENSP00000376028:E76K	ENSP00000356986:E97K	E	+	1	0	NIT1	159355783	0.124000	0.22315	0.998000	0.56505	0.944000	0.59088	0.460000	0.21924	0.629000	0.30376	0.655000	0.94253	GAA		0.532	NIT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077060.1			A	161089159	G	A	161089159	3	1	603	1	0	0	0	0	1	0	0	0	10440	943	33	2	401	2	NIT1	1	161089159	Missense_Mutation	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	5917045	161089159	88161462	9	36263										
PAPPA2	60676	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	176525851	176525851	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ccggctgccccatgggtaggGgatagtcctattgggcaatc	14	11	0	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr1:176525851G>A	ENST00000367662.3	+	2	1557	c.393G>A	c.(391-393)ggG>ggA	p.G131G	PAPPA2_ENST00000367661.3_Silent_p.G131G	NM_020318.2	NP_064714.2	Q9BXP8	PAPP2_HUMAN	pappalysin 2	131					bone morphogenesis (GO:0060349)|cell differentiation (GO:0030154)|cellular protein metabolic process (GO:0044267)|proteolysis (GO:0006508)|regulation of cell growth (GO:0001558)	extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|membrane (GO:0016020)	metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(3)|breast(3)|central_nervous_system(7)|cervix(5)|endometrium(15)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(19)|lung(136)|ovary(7)|pancreas(1)|prostate(4)|skin(10)|upper_aerodigestive_tract(8)|urinary_tract(1)	226						CATGGGTAGGGGATAGTCCTA	0.537																																																0													114	115	114					1																	176525851		2073	4228	6301	SO:0001819	synonymous_variant	60676			BG354569	CCDS41438.1, CCDS41439.1	1q23-q25	2008-05-23	2004-07-07	2004-07-09	ENSG00000116183	ENSG00000116183			14615	protein-coding gene	gene with protein product			"placenta-specific 3"	PLAC3		11018262, 11264294	Standard	NM_021936		Approved	PAPPE, PAPP-A2	uc001gkz.3	Q9BXP8	OTTHUMG00000035025	ENST00000367662.3:c.393G>A	1.37:g.176525851G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1Y8|Q96PH7|Q96PH8|Q9H4C9	Silent	SNP	ENST00000367662.3	37	CCDS41438.1																																																																																				0.537	PAPPA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084763.1			A	176525851	G	A	176525851	2	1	603	1	0	0	0	0	0	0	0	1	11440	1219	43	2		2	PAPPA2	1	176525851	Silent	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	15436692	176525851	72724770	10	36264										
SYT2	127833	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	202566051	202566052	+	Frame_Shift_Del	DEL	AG	AG	-													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ctatggcttcgttcttgcccAgcttgtcatagtccagcacg							TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr1:202566051_202566052delAG	ENST00000367267.1	-	9	1285_1286	c.1093_1094delCT	c.(1093-1095)ctgfs	p.L365fs	SYT2_ENST00000367268.4_Frame_Shift_Del_p.L365fs	NM_001136504.1	NP_001129976.1	Q8N9I0	SYT2_HUMAN	synaptotagmin II	365	C2 2. {ECO:0000255|PROSITE- ProRule:PRU00041}.|Phospholipid binding. {ECO:0000250}.				neurotransmitter secretion (GO:0007269)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|endocytic vesicle membrane (GO:0030666)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)	calcium ion binding (GO:0005509)|calcium-dependent phospholipid binding (GO:0005544)|transporter activity (GO:0005215)			NS(1)|breast(4)|endometrium(3)|kidney(1)|large_intestine(5)|liver(1)|lung(9)|ovary(2)|skin(2)|urinary_tract(1)	29			BRCA - Breast invasive adenocarcinoma(75;0.169)		Botulinum Toxin Type B(DB00042)	GTTCTTGCCCAGCTTGTCATAG	0.584																																																0																																										SO:0001589	frameshift_variant	127833			AK090672	CCDS1427.1	1q32.1	2013-01-21			ENSG00000143858	ENSG00000143858		"Synaptotagmins"	11510	protein-coding gene	gene with protein product		600104				7749232	Standard	NM_177402		Approved		uc010pqb.2	Q8N9I0	OTTHUMG00000041388	ENST00000367267.1:c.1093_1094delCT	1.37:g.202566051_202566052delAG	ENSP00000356236:p.Leu365fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q496K5|Q8NBE5	Frame_Shift_Del	DEL	ENST00000367267.1	37	CCDS1427.1																																																																																				0.584	SYT2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000099157.1	NM_177402		-	202566052	AG	-	202566051	7	5	603	1	0	1	0	1	0	0	0	0	15486	188	7	0	169	0	SYT2	1	202566051	Frame_Shift_Del	DEL	AG	TCGA-GL-A59T-01A-21D-A28G-10	26040200	202566051	46684570	11	36265										
AHCTF1	25909	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	247053281	247053281	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	actataccttgataaacgctCaaacttctgtcgacgactgg	7	11	2	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr1:247053281C>T	ENST00000391829.2	-	17	2254	c.2131G>A	c.(2131-2133)Gag>Aag	p.E711K	AHCTF1_ENST00000326225.3_Missense_Mutation_p.E720K|AHCTF1_ENST00000470300.1_5'UTR|AHCTF1_ENST00000366508.1_Missense_Mutation_p.E746K			Q8WYP5	ELYS_HUMAN	AT hook containing transcription factor 1	711	Necessary for cytoplasmic localization. {ECO:0000250}.				cytokinesis (GO:0000910)|mitotic cell cycle (GO:0000278)|mRNA transport (GO:0051028)|nuclear pore complex assembly (GO:0051292)|protein transport (GO:0015031)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|kinetochore (GO:0000776)|nuclear matrix (GO:0016363)|nuclear membrane (GO:0031965)|nuclear pore (GO:0005643)|nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.E711Q(1)		NS(1)|breast(6)|cervix(3)|endometrium(8)|kidney(6)|large_intestine(12)|liver(2)|lung(21)|ovary(5)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(2)	74	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			GATAAACGCTCAAACTTCTGT	0.338																																					Colon(145;197 1800 4745 15099 26333)											1	Substitution - Missense(1)	urinary_tract(1)											114	120	118					1																	247053281		2203	4300	6503	SO:0001583	missense	25909				CCDS1629.1, CCDS1629.2	1q44	2008-09-09			ENSG00000153207	ENSG00000153207			24618	protein-coding gene	gene with protein product	"ELYS transcription factor like protein TMBS62"	610853				11952839	Standard	NM_015446		Approved	ELYS	uc001ibv.2	Q8WYP5	OTTHUMG00000040706	ENST00000391829.2:c.2131G>A	1.37:g.247053281C>T	ENSP00000375705:p.Glu711Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGM0|A8MSG9|A8MZ86|Q7Z4E3|Q8IZA4|Q96EH9|Q9Y4Q6	Missense_Mutation	SNP	ENST00000391829.2	37		.	.	.	.	.	.	.	.	.	.	C	10.35	1.327003	0.24080	.	.	ENSG00000153207	ENST00000366508;ENST00000326225;ENST00000391829	T;T;T	0.33438	1.41;1.41;1.41	5.61	3.62	0.41486	.	0.132552	0.52532	D	0.000063	T	0.33323	0.0859	M	0.63428	1.95	0.40661	D	0.982126	P;P	0.48503	0.911;0.605	B;B	0.43867	0.434;0.121	T	0.21211	-1.0252	10	0.34782	T	0.22	-9.9643	12.8931	0.58082	0.0:0.8042:0.1258:0.07	.	746;711	Q8WYP5-2;Q8WYP5	.;ELYS_HUMAN	K	746;720;711	ENSP00000355464:E746K;ENSP00000355465:E720K;ENSP00000375705:E711K	ENSP00000355465:E720K	E	-	1	0	AHCTF1	245119904	1.000000	0.71417	0.890000	0.34922	0.002000	0.02628	3.403000	0.52615	1.379000	0.46325	0.579000	0.79373	GAG		0.338	AHCTF1-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_015446		T	247053281	C	T	247053281	3	4	603	1	0	0	0	0	1	0	0	0	408	835	29	2	4749	2	AHCTF1	1	247053281	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	44487230	247053281	2197340	12	36266										
TTC15	51112	ucsc.edu;bcgsc.ca	37	chr2	3392363	3392363	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	cgtggagtcctgcgggccgtGgccacccagcagcgcggcgc	17	16	0	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr2:3392363G>C	ENST00000324266.5	+	2	1164	c.969G>C	c.(967-969)gtG>gtC	p.V323V	TRAPPC12_ENST00000382110.2_Silent_p.V323V	NM_016030.5	NP_057114.5	Q8WVT3	TPC12_HUMAN	trafficking protein particle complex 12	323					vesicle-mediated transport (GO:0016192)												TGCGGGCCGTGGCCACCCAGC	0.682																																																0													26	24	25					2																	3392363		2200	4294	6494	SO:0001819	synonymous_variant	51112			BC017475	CCDS1652.1	2p25.3	2013-01-10	2011-12-12	2011-12-12	ENSG00000171853	ENSG00000171853		"Trafficking protein particle complex", "Tetratricopeptide (TTC) repeat domain containing"	24284	protein-coding gene	gene with protein product		614139	"tetratricopeptide repeat domain 15"	TTC15		10810093, 21525244, 20562859	Standard	NM_016030		Approved	CGI-87, TTC-15	uc002qxm.1	Q8WVT3	OTTHUMG00000090328	ENST00000324266.5:c.969G>C	2.37:g.3392363G>C		Somatic		WXS	Illumina HiSeq		B3KV01|D6W4Y2|Q8WVW1|Q9Y395	Silent	SNP	ENST00000324266.5	37	CCDS1652.1																																																																																				0.682	TRAPPC12-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206693.2	NM_016030		C	3392363	G	C	3392363	2	2	603	1	0	0	0	0	0	0	0	1	16694	1335	47	4		4	TTC15	2	3392363	Silent	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10		3392363	239807010	13	36267										
DNMT3A	1788	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	25505312	25505312	+	Frame_Shift_Del	DEL	G	G	-													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ctggtgctgaggactcacccGcttctgcaggggctcctcgg							TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr2:25505312delG	ENST00000264709.3	-	4	783	c.446delC	c.(445-447)gcgfs	p.A149fs	DNMT3A_ENST00000406659.3_Frame_Shift_Del_p.A149fs|DNMT3A_ENST00000321117.5_Frame_Shift_Del_p.A149fs	NM_175629.2	NP_783328.1	Q9Y6K1	DNM3A_HUMAN	DNA (cytosine-5-)-methyltransferase 3 alpha	149					C-5 methylation of cytosine (GO:0090116)|cellular response to amino acid stimulus (GO:0071230)|DNA methylation (GO:0006306)|DNA methylation involved in embryo development (GO:0043045)|DNA methylation involved in gamete generation (GO:0043046)|DNA methylation on cytosine within a CG sequence (GO:0010424)|hypermethylation of CpG island (GO:0044027)|methylation-dependent chromatin silencing (GO:0006346)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of gene expression by genetic imprinting (GO:0006349)|S-adenosylhomocysteine metabolic process (GO:0046498)|S-adenosylmethioninamine metabolic process (GO:0046499)|spermatogenesis (GO:0007283)	chromosome, centromeric region (GO:0000775)|cytoplasm (GO:0005737)|euchromatin (GO:0000791)|nuclear heterochromatin (GO:0005720)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA (cytosine-5-)-methyltransferase activity (GO:0003886)|DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates (GO:0051718)|DNA binding (GO:0003677)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|unmethylated CpG binding (GO:0045322)			breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(964)|kidney(3)|large_intestine(10)|lung(29)|ovary(3)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)	1021	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGACTCACCCGCTTCTGCAGG	0.637			"Mis, F, N, S"		AML																																		Rec	yes		2	2p23	1788	DNA (cytosine-5-)-methyltransferase 3 alpha		L	0													14	17	16					2																	25505312		2202	4299	6501	SO:0001589	frameshift_variant	1788				CCDS1718.2, CCDS33157.1, CCDS46232.1	2p23	2014-09-17			ENSG00000119772	ENSG00000119772			2978	protein-coding gene	gene with protein product		602769				9662389, 10433969	Standard	NM_175630		Approved		uc002rgc.4	Q9Y6K1	OTTHUMG00000094777	ENST00000264709.3:c.446delC	2.37:g.25505312delG	ENSP00000264709:p.Ala149fs	Somatic		WXS	Illumina HiSeq	Phase_I	E9PEB8|Q86TE8|Q86XF5|Q8IZV0|Q8WXU9	Frame_Shift_Del	DEL	ENST00000264709.3	37	CCDS33157.1																																																																																				0.637	DNMT3A-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000211587.1	NM_022552		-	25505312	G	-	25505312	7	5	603	1	0	1	0	1	0	0	0	0	4678	1087	38	0	2505	0	DNMT3A	2	25505312	Frame_Shift_Del	DEL	G	TCGA-GL-A59T-01A-21D-A28G-10	22112949	25505312	217694061	14	36268										
ZC3H6	376940	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	113089251	113089251	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tagattatggaatacaaaaaGtgatcttcatcaaaatacag	6	5	3	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr2:113089251G>C	ENST00000409871.1	+	12	3157	c.2756G>C	c.(2755-2757)aGt>aCt	p.S919T	AC115115.2_ENST00000607612.1_RNA|ZC3H6_ENST00000343936.4_Missense_Mutation_p.S919T	NM_198581.2	NP_940983.2	P61129	ZC3H6_HUMAN	zinc finger CCCH-type containing 6	919							metal ion binding (GO:0046872)			central_nervous_system(2)|endometrium(3)|kidney(3)|large_intestine(9)|lung(12)|ovary(4)|prostate(2)	35						AATACAAAAAGTGATCTTCAT	0.388																																																0													65	59	61					2																	113089251		1855	4101	5956	SO:0001583	missense	376940			AK123404	CCDS46393.1	2q13	2012-07-05	2005-06-02	2005-06-02	ENSG00000188177	ENSG00000188177		"Zinc fingers, CCCH-type domain containing"	24762	protein-coding gene	gene with protein product			"zinc finger CCCH-type domain containing 6"	ZC3HDC6			Standard	NM_198581		Approved	FLJ41410, FLJ45877, KIAA2035	uc002thq.1	P61129	OTTHUMG00000153286	ENST00000409871.1:c.2756G>C	2.37:g.113089251G>C	ENSP00000386764:p.Ser919Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A9JR71|Q6ZW96	Missense_Mutation	SNP	ENST00000409871.1	37	CCDS46393.1	.	.	.	.	.	.	.	.	.	.	G	9.984	1.229069	0.22542	.	.	ENSG00000188177	ENST00000409871;ENST00000343936	T;T	0.15487	2.42;2.42	5.94	5.06	0.68205	.	0.469384	0.26776	N	0.022560	T	0.14485	0.0350	L	0.54323	1.7	0.22389	N	0.999144	P	0.35433	0.501	B	0.26770	0.073	T	0.19679	-1.0298	10	0.39692	T	0.17	-2.4342	9.1318	0.36850	0.2286:0.0:0.7714:0.0	.	919	P61129	ZC3H6_HUMAN	T	919	ENSP00000386764:S919T;ENSP00000340298:S919T	ENSP00000340298:S919T	S	+	2	0	ZC3H6	112805722	0.931000	0.31567	0.994000	0.49952	0.985000	0.73830	1.552000	0.36244	1.512000	0.48834	0.591000	0.81541	AGT		0.388	ZC3H6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000330551.1	NM_198581		C	113089251	G	C	113089251	3	2	603	1	0	0	0	0	1	0	0	0	17583	1029	36	4	2802	4	ZC3H6	2	113089251	Missense_Mutation	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	87583939	113089251	130110122	15	36269										
FAP	2191	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	163046173	163046173	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	taaaagatcttactaatttcAtctacttcaagtttcttaat	2	7	5	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr2:163046173A>G	ENST00000188790.4	-	18	1749	c.1542T>C	c.(1540-1542)gaT>gaC	p.D514D	FAP_ENST00000443424.1_Silent_p.D489D	NM_004460.2	NP_004451.2			fibroblast activation protein, alpha											NS(2)|breast(1)|central_nervous_system(2)|endometrium(5)|kidney(1)|large_intestine(5)|lung(34)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(4)	63						TACTAATTTCATCTACTTCAA	0.284																																																0													58	59	58					2																	163046173		2190	4274	6464	SO:0001819	synonymous_variant	2191			U09278	CCDS33311.1	2q23	2008-02-05			ENSG00000078098	ENSG00000078098			3590	protein-coding gene	gene with protein product	"seprase"	600403				9247085, 14707457	Standard	NM_004460		Approved	DPPIV	uc002ucd.3	Q12884	OTTHUMG00000153890	ENST00000188790.4:c.1542T>C	2.37:g.163046173A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000188790.4	37	CCDS33311.1																																																																																				0.284	FAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000332852.2			G	163046173	A	G	163046173	2	3	603	1	0	0	0	0	0	0	0	1	5680	214	8	3		3	FAP	2	163046173	Silent	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	49956922	163046173	80153200	16	36270										
LRP2	4036	broad.mit.edu	37	chr2	170096143	170096143	+	Frame_Shift_Del	DEL	A	A	-													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tgctggctacaagagcctagAatatcacattcatctatgtc							TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr2:170096143delA	ENST00000263816.3	-	26	4473	c.4188delT	c.(4186-4188)attfs	p.I1396fs		NM_004525.2	NP_004516.2	P98164	LRP2_HUMAN	low density lipoprotein receptor-related protein 2	1396	EGF-like 6; calcium-binding. {ECO:0000255|PROSITE-ProRule:PRU00076}.				cell proliferation (GO:0008283)|endocytosis (GO:0006897)|forebrain development (GO:0030900)|lipid metabolic process (GO:0006629)|phototransduction, visible light (GO:0007603)|protein glycosylation (GO:0006486)|receptor-mediated endocytosis (GO:0006898)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|vitamin D metabolic process (GO:0042359)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|coated pit (GO:0005905)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)			biliary_tract(1)|breast(16)|central_nervous_system(6)|cervix(2)|endometrium(24)|haematopoietic_and_lymphoid_tissue(2)|kidney(17)|large_intestine(70)|liver(1)|lung(117)|ovary(19)|pancreas(1)|prostate(2)|skin(17)|upper_aerodigestive_tract(7)|urinary_tract(13)	315				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	"""Insulin(DB00071)|Gentamicin(DB00798)|Insulin Regular(DB00030)|Urokinase(DB00013)"	AAGAGCCTAGAATATCACATT	0.438																																																0													145	138	141					2																	170096143		2203	4300	6503	SO:0001589	frameshift_variant	4036				CCDS2232.1	2q31.1	2013-05-28	2010-01-26		ENSG00000081479	ENSG00000081479		"Low density lipoprotein receptors"	6694	protein-coding gene	gene with protein product	"megalin"	600073				7959795	Standard	NM_004525		Approved	gp330, DBS	uc002ues.3	P98164	OTTHUMG00000132179	ENST00000263816.3:c.4188delT	2.37:g.170096143delA	ENSP00000263816:p.Ile1396fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00711|Q16215	Frame_Shift_Del	DEL	ENST00000263816.3	37	CCDS2232.1																																																																																				0.438	LRP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255231.2	NM_004525		-	170096143	A	-	170096143	7	5	603	1	0	1	0	1	0	0	0	0	8963	242	9	0	9995	0	LRP2	2	170096143	Frame_Shift_Del	DEL	A	TCGA-GL-A59T-01A-21D-A28G-10	7049970	170096143	73103230	17	36271										
FN1	2335	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	216232592	216232592	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	aagcaactactcactagatgAatcacatctgaaatgaccac	5	11	3	4			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr2:216232592A>G	ENST00000359671.1	-	41	7004	c.6739T>C	c.(6739-6741)Tca>Cca	p.S2247P	FN1_ENST00000357867.4_Missense_Mutation_p.S2037P|FN1_ENST00000356005.4_Missense_Mutation_p.S2157P|FN1_ENST00000443816.1_Missense_Mutation_p.S2126P|FN1_ENST00000323926.6_Missense_Mutation_p.S2307P|FN1_ENST00000354785.4_Missense_Mutation_p.S2338P|FN1_ENST00000336916.4_Missense_Mutation_p.S2216P|FN1_ENST00000432072.2_Missense_Mutation_p.S2128P|FN1_ENST00000346544.3_Intron|FN1_ENST00000357009.2_3'UTR|FN1_ENST00000421182.1_Missense_Mutation_p.S2101P|FN1_ENST00000345488.5_Missense_Mutation_p.S2045P|FN1_ENST00000446046.1_Missense_Mutation_p.S2191P			P02751	FINC_HUMAN	fibronectin 1	2247	Fibrin-binding 2.|Fibronectin type-I 10. {ECO:0000255|PROSITE-ProRule:PRU00478}.				acute-phase response (GO:0006953)|angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|calcium-independent cell-matrix adhesion (GO:0007161)|cell adhesion (GO:0007155)|cell-substrate junction assembly (GO:0007044)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|integrin activation (GO:0033622)|leukocyte migration (GO:0050900)|peptide cross-linking (GO:0018149)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of axon extension (GO:0045773)|regulation of cell shape (GO:0008360)|response to wounding (GO:0009611)|substrate adhesion-dependent cell spreading (GO:0034446)	apical plasma membrane (GO:0016324)|basal lamina (GO:0005605)|blood microparticle (GO:0072562)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|fibrinogen complex (GO:0005577)|platelet alpha granule lumen (GO:0031093)	collagen binding (GO:0005518)|heparin binding (GO:0008201)|integrin binding (GO:0005178)|peptidase activator activity (GO:0016504)|protease binding (GO:0002020)		FN1/ALK(2)	NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(7)|endometrium(9)|kidney(8)|large_intestine(33)|lung(38)|ovary(1)|pancreas(1)|prostate(3)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)	109		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)	Ocriplasmin(DB08888)	TCACTAGATGAATCACATCTG	0.458																																																0													115	90	98					2																	216232592		2203	4300	6503	SO:0001583	missense	2335				CCDS2399.1, CCDS2400.1, CCDS42813.1, CCDS42814.1, CCDS46510.1, CCDS46512.1	2q34	2014-01-30			ENSG00000115414	ENSG00000115414		"Fibronectin type III domain containing", "Endogenous ligands"	3778	protein-coding gene	gene with protein product	"migration-stimulating factor", "cold-insoluble globulin"	135600				2992939, 3003095	Standard	NM_054034		Approved	MSF, CIG, LETS, GFND2, FINC	uc002vfa.3	P02751	OTTHUMG00000133054	ENST00000359671.1:c.6739T>C	2.37:g.216232592A>G	ENSP00000352696:p.Ser2247Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLF0|E9PE77|E9PG29|O95609|O95610|Q14312|Q14325|Q14326|Q17RV7|Q564H7|Q585T2|Q59EH1|Q60FE4|Q68DP8|Q68DP9|Q68DT4|Q6LDP6|Q6MZS0|Q6MZU5|Q6N025|Q6N0A6|Q7Z391|Q86T27|Q8IVI8|Q96KP7|Q96KP8|Q96KP9|Q9H1B8|Q9HAP3|Q9UMK2	Missense_Mutation	SNP	ENST00000359671.1	37		.	.	.	.	.	.	.	.	.	.	A	20.4	3.977481	0.74360	.	.	ENSG00000115414	ENST00000421182;ENST00000323926;ENST00000336916;ENST00000357867;ENST00000354785;ENST00000265313;ENST00000359671;ENST00000345488;ENST00000446046;ENST00000443816;ENST00000432072;ENST00000356005;ENST00000456923	T;T;T;T;T;T;T;T;T;T;T;T	0.66638	-0.22;1.16;1.37;-0.05;1.65;1.31;1.1;1.08;0.57;-0.11;0.61;0.54	5.67	5.67	0.87782	Fibronectin, type I (2);Complement control module (1);	0.000000	0.56097	D	0.000034	T	0.79811	0.4510	L	0.61218	1.895	0.80722	D	1	D;D;D;D;D;D;D;D;D;D;D	0.89917	1.0;1.0;1.0;0.995;0.992;1.0;0.992;0.995;0.995;0.999;0.999	D;D;D;D;D;D;D;D;D;D;D	0.91635	0.998;0.989;0.998;0.993;0.985;0.999;0.985;0.993;0.993;0.998;0.995	T	0.80269	-0.1453	10	0.49607	T	0.09	.	15.8986	0.79356	1.0:0.0:0.0:0.0	.	2128;2307;2037;2157;2191;2216;2248;2101;2126;2338;2247	P02751-13;P02751-7;P02751-10;P02751-8;E9PE77;P02751-3;E7ERA1;P02751-9;P02751-14;P02751-15;P02751	.;.;.;.;.;.;.;.;.;.;FINC_HUMAN	P	2101;2307;2216;2037;2338;2248;2247;2045;2191;2126;2128;2157;964	ENSP00000394423:S2101P;ENSP00000323534:S2307P;ENSP00000338200:S2216P;ENSP00000350534:S2037P;ENSP00000346839:S2338P;ENSP00000352696:S2247P;ENSP00000273049:S2045P;ENSP00000410422:S2191P;ENSP00000415018:S2126P;ENSP00000399538:S2128P;ENSP00000348285:S2157P;ENSP00000416139:S964P	ENSP00000265313:S2248P	S	-	1	0	FN1	215940837	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.339000	0.96797	2.156000	0.67533	0.477000	0.44152	TCA		0.458	FN1-204	KNOWN	basic	protein_coding	protein_coding		NM_212476		G	216232592	A	G	216232592	3	3	603	1	0	0	0	0	1	0	0	0	5969	246	9	3	441	3	FN1	2	216232592	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	46136449	216232592	26966781	18	36272										
CHPF	79586	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	220406754	220406754	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tgccatgccaggtggggcccGgcggccccgtgcgcccgtca	16	17	1	0	rs571316585		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr2:220406754G>A	ENST00000243776.6	-	2	720	c.472C>T	c.(472-474)Cgg>Tgg	p.R158W	CHPF_ENST00000535926.1_5'UTR|TMEM198_ENST00000344458.2_5'Flank|TMEM198_ENST00000373883.3_5'Flank|CHPF_ENST00000373891.2_Missense_Mutation_p.R158W	NM_024536.5	NP_078812	Q8IZ52	CHSS2_HUMAN	chondroitin polymerizing factor	158					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|glycosaminoglycan metabolic process (GO:0030203)|small molecule metabolic process (GO:0044281)	Golgi cisterna membrane (GO:0032580)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity (GO:0047238)|metal ion binding (GO:0046872)|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity (GO:0050510)			central_nervous_system(1)|cervix(1)|endometrium(4)|large_intestine(3)|lung(10)|ovary(1)|prostate(1)	21		Renal(207;0.0183)		Epithelial(149;3.02e-08)|all cancers(144;3.41e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		GGTGGGGCCCGGCGGCCCCGT	0.721											OREG0015229	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													12	12	12					2																	220406754		2186	4288	6474	SO:0001583	missense	79586			BC008878	CCDS2443.1, CCDS56169.1	2q35	2014-02-12			ENSG00000123989	ENSG00000123989	2.4.1.175, 2.4.1.226	"Beta 3-glycosyltransferases", "Beta 4-glycosyltransferases"	24291	protein-coding gene	gene with protein product	"chondroitin sulfate synthase 2"	610405				11230166, 12716890	Standard	NM_024536		Approved	CSS2, CHSY2	uc002vmc.4	Q8IZ52	OTTHUMG00000058929	ENST00000243776.6:c.472C>T	2.37:g.220406754G>A	ENSP00000243776:p.Arg158Trp	Somatic	2266	WXS	Illumina HiSeq	Phase_I	B4DXU0|Q6UXD6|Q7L4G1|Q9H0F8|Q9H618	Missense_Mutation	SNP	ENST00000243776.6	37	CCDS2443.1	.	.	.	.	.	.	.	.	.	.	G	22.8	4.332252	0.81801	.	.	ENSG00000123989	ENST00000243776;ENST00000373891	T	0.12672	2.66	4.28	2.28	0.28536	.	0.155094	0.42294	D	0.000738	T	0.16128	0.0388	N	0.12182	0.205	0.80722	D	1	D;D	0.76494	0.999;0.999	D;P	0.63488	0.915;0.908	T	0.07139	-1.0788	10	0.66056	D	0.02	-28.0341	10.855	0.46794	0.0:0.0:0.4172:0.5828	.	158;158	F8W6H2;Q8IZ52	.;CHSS2_HUMAN	W	158	ENSP00000243776:R158W	ENSP00000243776:R158W	R	-	1	2	CHPF	220114998	1.000000	0.71417	0.993000	0.49108	0.976000	0.68499	3.858000	0.55979	1.135000	0.42183	0.448000	0.29417	CGG		0.721	CHPF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130268.1	NM_024536		A	220406754	G	A	220406754	3	1	603	1	0	0	0	0	1	0	0	0	3370	1115	39	1	1867	1	CHPF	2	220406754	Missense_Mutation	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	4174162	220406754	22792619	19	36273										
EFHD1	80303	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	233498655	233498656	+	Frame_Shift_Ins	INS	-	-	AC													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ctgcagggtcttcaacccctINSacacggagttcccggagttc							TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr2:233498655_233498656insAC	ENST00000264059.3	+	1	718_719	c.241_242insAC	c.(241-243)tacfs	p.Y81fs	EFHD1_ENST00000409613.1_Intron	NM_025202.3	NP_079478.1	Q9BUP0	EFHD1_HUMAN	EF-hand domain family, member D1	81					neuron projection development (GO:0031175)	extracellular vesicular exosome (GO:0070062)|mitochondrial inner membrane (GO:0005743)	calcium ion binding (GO:0005509)			NS(1)|breast(1)|large_intestine(2)|lung(3)	7		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Breast(86;0.0199)|Renal(207;0.025)		Epithelial(121;2.08e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00825)|Lung(119;0.0101)		CTTCAACCCCTACACGGAGTTC	0.708																																																0																																										SO:0001589	frameshift_variant	80303				CCDS2497.1, CCDS58755.1	2q37.1	2014-07-01	2005-01-25		ENSG00000115468	ENSG00000115468		"EF-hand domain containing"	29556	protein-coding gene	gene with protein product	"swiprosin-2"	611617	"EF hand domain containing 1"			21244694	Standard	NM_025202		Approved	FLJ13612	uc002vtc.3	Q9BUP0	OTTHUMG00000133263	ENST00000264059.3:c.244_245dupAC	2.37:g.233498658_233498659dupAC	ENSP00000264059:p.Tyr81fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RD83|E9PFH3|Q9BTF8|Q9H8I2|Q9HBQ0	Frame_Shift_Ins	INS	ENST00000264059.3	37	CCDS2497.1																																																																																				0.708	EFHD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257040.2	NM_025202		AC	233498656	-	AC	233498655	7	5	603	1	0	1	1	0	0	0	0	0	4950	1522	53	0	243	0	EFHD1	2	233498655	Frame_Shift_Ins	INS	-	TCGA-GL-A59T-01A-21D-A28G-10	13091901	233498655	9700718	20	36274										
HJURP	55355	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	234749356	234749356	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gaattgccctggcgtccggaGccctggggttctgatagcct	14	12	1	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr2:234749356G>C	ENST00000411486.2	-	8	2135	c.2070C>G	c.(2068-2070)ggC>ggG	p.G690G	HJURP_ENST00000441687.1_Silent_p.G605G|HJURP_ENST00000432087.1_Silent_p.G636G|HJURP_ENST00000434039.1_5'Flank	NM_018410.3	NP_060880.3	Q8NCD3	HJURP_HUMAN	Holliday junction recognition protein	690					cell cycle (GO:0007049)|CENP-A containing nucleosome assembly (GO:0034080)|chromosome segregation (GO:0007059)|nucleosome assembly (GO:0006334)|regulation of DNA binding (GO:0051101)|regulation of protein complex assembly (GO:0043254)	chromosome, centromeric region (GO:0000775)|condensed chromosome kinetochore (GO:0000777)|cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone binding (GO:0042393)|identical protein binding (GO:0042802)			NS(2)|breast(2)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(3)|lung(11)|ovary(2)|prostate(3)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	38		Breast(86;0.00204)|all_lung(227;0.00433)|Renal(207;0.00685)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0719)|Lung SC(224;0.128)		Epithelial(121;2.01e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000186)|Lung(119;0.00521)|LUSC - Lung squamous cell carcinoma(224;0.00829)		GGCGTCCGGAGCCCTGGGGTT	0.592																																																0													83	86	85					2																	234749356		2203	4300	6503	SO:0001819	synonymous_variant	55355				CCDS33406.1, CCDS63166.1, CCDS63167.1	2q37.1	2007-12-06			ENSG00000123485	ENSG00000123485			25444	protein-coding gene	gene with protein product		612667				17823411	Standard	NM_001282962		Approved	DKFZp762E1312, URLC9, hFLEG1, FAKTS	uc002vvg.3	Q8NCD3	OTTHUMG00000059125	ENST00000411486.2:c.2070C>G	2.37:g.234749356G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8IRH5|B4DWR0|B4DZV4|Q9BUT2|Q9NSL8	Silent	SNP	ENST00000411486.2	37	CCDS33406.1																																																																																				0.592	HJURP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000130996.6	NM_018410		C	234749356	G	C	234749356	2	2	603	1	0	0	0	0	0	0	0	1	7196	958	34	4		4	HJURP	2	234749356	Silent	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	1250701	234749356	8450017	21	36275										
CNTN4	152330	broad.mit.edu	37	chr3	3080674	3080675	+	Frame_Shift_Ins	INS	-	-	TA													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ggcagcaaatctgaactggtINStataacctgggaggtaaatg							TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr3:3080674_3080675insTA	ENST00000397461.1	+	18	2534_2535	c.2150_2151insTA	c.(2149-2154)gttatafs	p.VI717fs	CNTN4_ENST00000427331.1_Frame_Shift_Ins_p.VI717fs|CNTN4-AS1_ENST00000442749.2_RNA|CNTN4_ENST00000448906.2_Frame_Shift_Ins_p.VI389fs|CNTN4_ENST00000397459.2_Frame_Shift_Ins_p.VI389fs|CNTN4_ENST00000418658.1_Frame_Shift_Ins_p.VI717fs|CNTN4_ENST00000358480.3_Frame_Shift_Ins_p.VI498fs	NM_001206955.1	NP_001193884.1	Q8IWV2	CNTN4_HUMAN	contactin 4	717	Fibronectin type-III 2. {ECO:0000255|PROSITE-ProRule:PRU00316}.				axon guidance (GO:0007411)|axonal fasciculation (GO:0007413)|axonogenesis (GO:0007409)|brain development (GO:0007420)|negative regulation of neuron differentiation (GO:0045665)|nervous system development (GO:0007399)|neuron cell-cell adhesion (GO:0007158)|neuron projection development (GO:0031175)|regulation of synaptic plasticity (GO:0048167)	anchored component of membrane (GO:0031225)|axon (GO:0030424)|extracellular region (GO:0005576)|plasma membrane (GO:0005886)				NS(1)|breast(4)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(14)|lung(19)|ovary(2)|pancreas(4)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(1)	61		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		TCTGAACTGGTTATAACCTGGG	0.45																																																0																																										SO:0001589	frameshift_variant	152330			AW665944	CCDS2558.1, CCDS43041.1	3p26.3	2013-02-11			ENSG00000144619	ENSG00000144619		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	2174	protein-coding gene	gene with protein product		607280				8586965, 12202991	Standard	NM_175607		Approved	BIG-2	uc003bpc.3	Q8IWV2	OTTHUMG00000119031	ENST00000397461.1:c.2153_2154dupTA	3.37:g.3080677_3080678dupTA	ENSP00000380602:p.Val717fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAX3|Q8IX14|Q8TC35	Frame_Shift_Ins	INS	ENST00000397461.1	37	CCDS43041.1																																																																																				0.45	CNTN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239236.2			TA	3080675	-	TA	3080674	7	5	603	1	0	1	1	0	0	0	0	0	3645	1725	60	0	2212	0	CNTN4	3	3080674	Frame_Shift_Ins	INS	-	TCGA-GL-A59T-01A-21D-A28G-10		3080674	194941756	22	36276										
FBXL2	25827	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	33415410	33415410	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	agcctcaacttgcagtcctgCtcagtaagtagcgtgccttt	9	12	2	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr3:33415410C>T	ENST00000484457.1	+	9	745	c.654C>T	c.(652-654)tgC>tgT	p.C218C	FBXL2_ENST00000283627.6_3'UTR|FBXL2_ENST00000538892.1_Silent_p.C150C|FBXL2_ENST00000446237.3_5'UTR|FBXL2_ENST00000507198.1_Silent_p.C150C|FBXL2_ENST00000542085.1_5'UTR|FBXL2_ENST00000538181.1_Silent_p.C134C	NM_012157.3	NP_036289.3			F-box and leucine-rich repeat protein 2											endometrium(2)|kidney(1)|large_intestine(7)|lung(3)|prostate(1)|urinary_tract(1)	15						TGCAGTCCTGCTCAGTAAGTA	0.498																																																0													152	145	147					3																	33415410		2203	4300	6503	SO:0001819	synonymous_variant	25827			AF174589	CCDS2658.1, CCDS54560.1	3p22.3	2011-06-09			ENSG00000153558	ENSG00000153558		"F-boxes / Leucine-rich repeats"	13598	protein-coding gene	gene with protein product		605652				10508920, 10531035	Standard	NM_012157		Approved	FBL2, FBL3	uc003cfp.3	Q9UKC9	OTTHUMG00000130745	ENST00000484457.1:c.654C>T	3.37:g.33415410C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000484457.1	37	CCDS2658.1																																																																																				0.498	FBXL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253245.2	NM_012157		T	33415410	C	T	33415410	2	4	603	1	0	0	0	0	0	0	0	1	5723	805	28	2		2	FBXL2	3	33415410	Silent	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	30334736	33415410	164607020	23	36277										
CCDC66	285331	broad.mit.edu	37	chr3	56649978	56649978	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	atacaaatggaatataatgcAtctaacatttcaaattcaag	4	6	3	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr3:56649978A>C	ENST00000394672.3	+	13	1810	c.1740A>C	c.(1738-1740)gcA>gcC	p.A580A	CCDC66_ENST00000436465.2_Silent_p.A580A|CCDC66_ENST00000326595.7_Silent_p.A546A	NM_001012506.4|NM_001141947.1	NP_001012524.4|NP_001135419.1	A2RUB6	CCD66_HUMAN	coiled-coil domain containing 66	580					post-embryonic retina morphogenesis in camera-type eye (GO:0060060)|retinal rod cell development (GO:0046548)					breast(1)|kidney(1)|large_intestine(2)|liver(1)|lung(4)|skin(2)|urinary_tract(1)	12				KIRC - Kidney renal clear cell carcinoma(284;0.0478)|Kidney(284;0.0597)|OV - Ovarian serous cystadenocarcinoma(275;0.233)		AATATAATGCATCTAACATTT	0.294																																																0													73	78	76					3																	56649978		2203	4294	6497	SO:0001819	synonymous_variant	285331			AL832692	CCDS33770.2, CCDS46852.1	3p14.3	2006-03-27			ENSG00000180376	ENSG00000180376			27709	protein-coding gene	gene with protein product						14702039	Standard	NR_024460		Approved	DKFZp686C0433	uc003dhz.3	A2RUB6	OTTHUMG00000155748	ENST00000394672.3:c.1740A>C	3.37:g.56649978A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KWL8|Q4VC34|Q8N949	Silent	SNP	ENST00000394672.3	37	CCDS46852.1																																																																																				0.294	CCDC66-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000341473.1	NM_001012506		C	56649978	A	C	56649978	2	2	603	1	0	0	0	0	0	0	0	1	2840	204	8	5		5	CCDC66	3	56649978	Silent	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	23234568	56649978	141372452	24	36278										
QTRTD1	79691	broad.mit.edu	37	chr3	113795754	113795754	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gctagactacgcttgctgtcAtcagtcactgcagagctgcc	10	13	3	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr3:113795754A>G	ENST00000493014.1	+	3	461	c.393A>G	c.(391-393)tcA>tcG	p.S131S	QTRTD1_ENST00000479882.1_Silent_p.S114S|QTRTD1_ENST00000485050.1_Silent_p.S249S|QTRTD1_ENST00000281273.4_Silent_p.S237S	NM_001256836.1	NP_001243765.1			queuine tRNA-ribosyltransferase domain containing 1											central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(5)|skin(2)	10						GCTTGCTGTCATCAGTCACTG	0.577																																																0													68	55	59					3																	113795754		2203	4300	6503	SO:0001819	synonymous_variant	79691			AK023022	CCDS33828.1, CCDS58846.1, CCDS58845.1, CCDS58844.1	3q13.31	2010-11-16			ENSG00000151576	ENSG00000151576			25771	protein-coding gene	gene with protein product						12477932	Standard	NM_024638		Approved	FLJ12960	uc003eaz.4	Q9H974	OTTHUMG00000159336	ENST00000493014.1:c.393A>G	3.37:g.113795754A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000493014.1	37	CCDS58845.1																																																																																				0.577	QTRTD1-004	PUTATIVE	basic|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000354711.1	NM_024638		G	113795754	A	G	113795754	2	3	603	1	0	0	0	0	0	0	0	1	12899	204	8	3		3	QTRTD1	3	113795754	Silent	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	57145776	113795754	84226676	25	36279										
PARP14	54625	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	122437696	122437696	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	aggagagaaaagaaaaaaacAgttgatgtcaaaattaatca	8	3	2	3	rs377210300		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr3:122437696A>G	ENST00000474629.2	+	14	4964	c.4698A>G	c.(4696-4698)acA>acG	p.T1566T	PARP14_ENST00000475640.1_3'UTR	NM_017554.2	NP_060024.2	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	1566	WWE. {ECO:0000255|PROSITE- ProRule:PRU00248}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	NAD+ ADP-ribosyltransferase activity (GO:0003950)			NS(2)|breast(5)|cervix(2)|endometrium(7)|kidney(5)|large_intestine(8)|lung(14)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|urinary_tract(1)	50				GBM - Glioblastoma multiforme(114;0.0531)		AGAAAAAAACAGTTGATGTCA	0.373																																																0								A		0,3790		0,0,1895	88	87	87		4698	-5.7	0	3		87	1,8247		0,1,4123	no	coding-synonymous	PARP14	NM_017554.2		0,1,6018	GG,GA,AA		0.0121,0.0,0.0083		1566/1802	122437696	1,12037	1895	4124	6019	SO:0001819	synonymous_variant	54625			AB033094	CCDS46894.1	3q21	2010-02-16			ENSG00000173193	ENSG00000173193		"Poly (ADP-ribose) polymerases"	29232	protein-coding gene	gene with protein product		610028				15273990	Standard	NM_017554		Approved	KIAA1268, pART8	uc003efq.4	Q460N5	OTTHUMG00000159552	ENST00000474629.2:c.4698A>G	3.37:g.122437696A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4E2H0|Q460N4|Q8J027|Q9H9X9|Q9NV60|Q9ULF2	Silent	SNP	ENST00000474629.2	37	CCDS46894.1																																																																																				0.373	PARP14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356173.2	NM_017554		G	122437696	A	G	122437696	2	3	603	1	0	0	0	0	0	0	0	1	11465	175	7	3		3	PARP14	3	122437696	Silent	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	8641942	122437696	75584734	26	36280										
UBA5	79876	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	132379518	132379518	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	catcgagaagatgagctcagAggtggtggattcgaatccct	13	8	1	4			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr3:132379518A>T	ENST00000356232.4	+	1	1209	c.137A>T	c.(136-138)gAg>gTg	p.E46V	UBA5_ENST00000473651.1_Missense_Mutation_p.E46V|ACAD11_ENST00000355458.3_5'Flank|UBA5_ENST00000493720.2_Missense_Mutation_p.E46V|ACAD11_ENST00000481970.2_5'Flank|UBA5_ENST00000480955.1_3'UTR|ACAD11_ENST00000489991.1_5'Flank|UBA5_ENST00000494238.2_De_novo_Start_OutOfFrame|ACAD11_ENST00000545291.1_5'Flank|ACAD11_ENST00000264990.6_5'UTR|UBA5_ENST00000264991.4_Intron	NM_024818.3	NP_079094.1	Q9GZZ9	UBA5_HUMAN	ubiquitin-like modifier activating enzyme 5	46					protein ufmylation (GO:0071569)|response to endoplasmic reticulum stress (GO:0034976)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|UFM1 activating enzyme activity (GO:0071566)			breast(2)|endometrium(4)|kidney(4)|large_intestine(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	16						ATGAGCTCAGAGGTGGTGGAT	0.672																																																0													35	36	36					3																	132379518		2177	4271	6448	SO:0001583	missense	79876			AY253672	CCDS3076.1, CCDS3077.1	3q22	2007-11-30	2007-11-30	2007-11-30	ENSG00000081307	ENSG00000081307		"Ubiquitin-like modifier activating enzymes"	23230	protein-coding gene	gene with protein product	"UBA5, ubiquitin-activating enzyme E1 homolog (yeast)"	610552	"ubiquitin-activating enzyme E1-domain containing 1"	UBE1DC1		11230166, 15071506	Standard	NM_198329		Approved	FLJ23251	uc003epa.4	Q9GZZ9	OTTHUMG00000159759	ENST00000356232.4:c.137A>T	3.37:g.132379518A>T	ENSP00000348565:p.Glu46Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJL3|D3DNC8|Q96ST1	Missense_Mutation	SNP	ENST00000356232.4	37	CCDS3076.1	.	.	.	.	.	.	.	.	.	.	A	32	5.173474	0.94807	.	.	ENSG00000081307	ENST00000356232;ENST00000493720;ENST00000473651	D;D;D	0.85171	-1.95;-1.93;-1.89	4.83	4.83	0.62350	Molybdenum cofactor biosynthesis, MoeB (1);NAD(P)-binding domain (1);	0.000000	0.85682	D	0.000000	D	0.82453	0.5040	M	0.67700	2.07	0.80722	D	1	B;P	0.38922	0.196;0.651	B;B	0.35039	0.141;0.194	D	0.84018	0.0352	10	0.52906	T	0.07	-8.3735	13.1245	0.59346	1.0:0.0:0.0:0.0	.	46;46	E7EWE1;Q9GZZ9	.;UBA5_HUMAN	V	46	ENSP00000348565:E46V;ENSP00000417879:E46V;ENSP00000424984:E46V	ENSP00000348565:E46V	E	+	2	0	UBA5	133862208	1.000000	0.71417	0.998000	0.56505	0.918000	0.54935	7.126000	0.77201	2.029000	0.59856	0.459000	0.35465	GAG		0.672	UBA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357187.2	NM_024818		T	132379518	A	T	132379518	3	4	603	1	0	0	0	0	1	0	0	0	16842	304	11	5	139	5	UBA5	3	132379518	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	9941822	132379518	65642912	27	36281										
STAG1	10274	broad.mit.edu	37	chr3	136183765	136183765	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ctgccacagcaacagggcgaTgtgccgagtacaccaagtgg	13	12	0	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr3:136183765T>C	ENST00000383202.2	-	13	1527	c.1271A>G	c.(1270-1272)cAt>cGt	p.H424R	STAG1_ENST00000236698.5_Missense_Mutation_p.H424R|STAG1_ENST00000536929.1_Intron|STAG1_ENST00000434713.2_Missense_Mutation_p.H198R	NM_005862.2	NP_005853.2	Q8WVM7	STAG1_HUMAN	stromal antigen 1	424					chromosome segregation (GO:0007059)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	cell junction (GO:0030054)|chromatin (GO:0000785)|chromosome (GO:0005694)|chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)			NS(2)|breast(4)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(16)|lung(16)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	58						AACAGGGCGATGTGCCGAGTA	0.393																																																0													75	69	71					3																	136183765		2203	4300	6503	SO:0001583	missense	10274			Z75330	CCDS3090.1	3q22.2-q22.3	2011-08-12			ENSG00000118007	ENSG00000118007			11354	protein-coding gene	gene with protein product		604358				9305759	Standard	XM_006713471		Approved	SA-1, SCC3A	uc003era.1	Q8WVM7	OTTHUMG00000159798	ENST00000383202.2:c.1271A>G	3.37:g.136183765T>C	ENSP00000372689:p.His424Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O00539|Q6P275	Missense_Mutation	SNP	ENST00000383202.2	37	CCDS3090.1	.	.	.	.	.	.	.	.	.	.	T	19.96	3.922940	0.73213	.	.	ENSG00000118007	ENST00000383202;ENST00000236698;ENST00000434713	T;T;T	0.32753	1.44;1.44;1.44	5.51	5.51	0.81932	Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.47358	0.1441	M	0.70903	2.155	0.80722	D	1	B;D;B	0.52996	0.386;0.957;0.386	B;P;B	0.54499	0.175;0.754;0.175	T	0.40459	-0.9562	10	0.32370	T	0.25	.	15.615	0.76760	0.0:0.0:0.0:1.0	.	441;424;424	Q4LE48;Q6P275;Q8WVM7	.;.;STAG1_HUMAN	R	424;424;198	ENSP00000372689:H424R;ENSP00000236698:H424R;ENSP00000404396:H198R	ENSP00000236698:H424R	H	-	2	0	STAG1	137666455	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	8.036000	0.88901	2.091000	0.63221	0.477000	0.44152	CAT		0.393	STAG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357366.1	NM_005862		C	136183765	T	C	136183765	3	2	603	1	0	0	0	0	1	0	0	0	15254	1464	51	3	2593	3	STAG1	3	136183765	Missense_Mutation	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10	3804247	136183765	61838665	28	36282										
SMC4	10051	bcgsc.ca	37	chr3	160119803	160119803	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	accaatgaagctggagctccTcggcttatgataactcatat	8	10	1	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr3:160119803T>C	ENST00000357388.3	+	3	691	c.240T>C	c.(238-240)ccT>ccC	p.P80P	SMC4_ENST00000469762.1_Silent_p.P55P|MIR16-2_ENST00000362117.1_RNA|SMC4_ENST00000344722.5_Silent_p.P80P|IFT80_ENST00000477495.1_5'Flank|SMC4_ENST00000462787.1_Silent_p.P80P|IFT80_ENST00000496589.1_5'Flank|IFT80_ENST00000326448.7_5'Flank|RP11-432B6.3_ENST00000483754.1_Intron|SMC4_ENST00000360111.2_Silent_p.P80P|MIR15B_ENST00000385045.1_RNA	NM_001002800.1	NP_001002800.1	Q9NTJ3	SMC4_HUMAN	structural maintenance of chromosomes 4	80					kinetochore organization (GO:0051383)|meiotic chromosome condensation (GO:0010032)|meiotic chromosome segregation (GO:0045132)|mitotic cell cycle (GO:0000278)|mitotic chromosome condensation (GO:0007076)|mitotic sister chromatid segregation (GO:0000070)	condensin complex (GO:0000796)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|protein heterodimerization activity (GO:0046982)			breast(2)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(15)|lung(20)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	48			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			CTGGAGCTCCTCGGCTTATGA	0.413																																																0													70	79	76					3																	160119803		2203	4300	6503	SO:0001819	synonymous_variant	10051			AF092564	CCDS3189.1, CCDS75046.1	3q26.1	2006-07-06	2006-07-06	2006-07-06	ENSG00000113810	ENSG00000113810		"Structural maintenance of chromosomes proteins"	14013	protein-coding gene	gene with protein product		605575	"SMC4 (structural maintenance of chromosomes 4, yeast)-like 1", "SMC4 structural maintenance of chromosomes 4-like 1 (yeast)"	SMC4L1		9789013, 10319587	Standard	NM_005496		Approved	hCAP-C, CAP-C	uc003fdh.3	Q9NTJ3	OTTHUMG00000159006	ENST00000357388.3:c.240T>C	3.37:g.160119803T>C		Somatic		WXS	Illumina HiSeq	Phase_1	A6NLT9|D3DNL8|O95752|Q8NDL4|Q9UNT9	Silent	SNP	ENST00000357388.3	37	CCDS3189.1																																																																																				0.413	SMC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352862.1			C	160119803	T	C	160119803	2	2	603	1	0	0	0	0	0	0	0	1	14798	1538	54	3		3	SMC4	3	160119803	Silent	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10	23936038	160119803	37902627	29	36283										
NDUFB5	4711	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	179322636	179322636	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	agtttgttgcggcgggtttcGgttactgcggtggcagctct	16	8	1	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr3:179322636G>A	ENST00000259037.3	+	1	147	c.33G>A	c.(31-33)tcG>tcA	p.S11S	NDUFB5_ENST00000493866.1_Silent_p.S11S|NDUFB5_ENST00000472629.1_Silent_p.S11S|MRPL47_ENST00000392659.2_5'Flank|MRPL47_ENST00000476781.1_5'Flank|MRPL47_ENST00000259038.2_5'Flank	NM_002492.3	NP_002483.1	O43674	NDUB5_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 5, 16kDa	11					cellular metabolic process (GO:0044237)|mitochondrial electron transport, NADH to ubiquinone (GO:0006120)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain complex I (GO:0005747)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	NADH dehydrogenase (ubiquinone) activity (GO:0008137)			endometrium(1)|lung(6)|skin(1)	8	all_cancers(143;9.62e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.18)			GGCGGGTTTCGGTTACTGCGG	0.617																																																0													36	36	36					3																	179322636		2203	4300	6503	SO:0001819	synonymous_variant	4711			AF047181	CCDS3234.1, CCDS56297.1, CCDS75054.1	3q27.1	2011-07-04	2002-08-29		ENSG00000136521	ENSG00000136521		"Mitochondrial respiratory chain complex / Complex I"	7700	protein-coding gene	gene with protein product	"complex I SGDH subunit"	603841	"NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 5 (16kD, SGDH)"			9425316	Standard	NM_002492		Approved	SGDH, CI-SGDH, MGC12314	uc003fkc.3	O43674	OTTHUMG00000157480	ENST00000259037.3:c.33G>A	3.37:g.179322636G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q561V6	Silent	SNP	ENST00000259037.3	37	CCDS3234.1	.	.	.	.	.	.	.	.	.	.	G	15.68	2.903796	0.52333	.	.	ENSG00000136521	ENST00000482604	.	.	.	5.75	1.95	0.26073	.	.	.	.	.	T	0.56093	0.1962	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.48340	-0.9044	5	0.40728	T	0.16	-3.1698	6.2744	0.20973	0.2212:0.1325:0.6463:0.0	.	.	.	.	Q	8	.	ENSP00000419099:R3Q	R	+	2	0	NDUFB5	180805330	0.998000	0.40836	0.993000	0.49108	0.016000	0.09150	0.145000	0.16157	0.148000	0.19059	-0.133000	0.14855	CGG		0.617	NDUFB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348937.2	NM_002492		A	179322636	G	A	179322636	2	1	603	1	0	0	0	0	0	0	0	1	10291	1103	39	1		1	NDUFB5	3	179322636	Silent	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	19202833	179322636	18699794	30	36284										
KLHL6	89857	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	183226047	183226047	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gacccagctcatcacggtctCaaacacctgagcctcctcgg	8	17	3	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr3:183226047C>T	ENST00000341319.3	-	3	744	c.709G>A	c.(709-711)Gag>Aag	p.E237K		NM_130446.2	NP_569713.2	Q8WZ60	KLHL6_HUMAN	kelch-like family member 6	237	BACK.				B cell receptor signaling pathway (GO:0050853)|germinal center formation (GO:0002467)					breast(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(7)|kidney(1)|large_intestine(6)|liver(1)|lung(16)|ovary(2)|prostate(1)|skin(2)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	44	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)			ATCACGGTCTCAAACACCTGa	0.547																																																0													135	114	121					3																	183226047		2203	4300	6503	SO:0001583	missense	89857			AF441792	CCDS3245.2	3q27.3	2013-01-30	2013-01-30		ENSG00000172578	ENSG00000172578		"Kelch-like", "BTB/POZ domain containing"	18653	protein-coding gene	gene with protein product	"kelch-like protein KLHL6"	614214	"kelch-like 6 (Drosophila)"			11214971, 12617994	Standard	NM_130446		Approved	FLJ00029	uc003flr.3	Q8WZ60	OTTHUMG00000148673	ENST00000341319.3:c.709G>A	3.37:g.183226047C>T	ENSP00000341342:p.Glu237Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RB31|D3DNS8|Q8N5I1|Q8N892	Missense_Mutation	SNP	ENST00000341319.3	37	CCDS3245.2	.	.	.	.	.	.	.	.	.	.	C	36	5.904004	0.97087	.	.	ENSG00000172578	ENST00000341319	T	0.69685	-0.42	5.87	5.87	0.94306	BTB/Kelch-associated (2);	0.043908	0.85682	D	0.000000	D	0.83083	0.5177	M	0.79343	2.45	0.80722	D	1	D	0.76494	0.999	D	0.73380	0.98	T	0.82400	-0.0476	10	0.54805	T	0.06	.	20.5827	0.99408	0.0:1.0:0.0:0.0	.	237	Q8WZ60	KLHL6_HUMAN	K	237	ENSP00000341342:E237K	ENSP00000341342:E237K	E	-	1	0	KLHL6	184708741	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.445000	0.80570	2.941000	0.99782	0.655000	0.94253	GAG		0.547	KLHL6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000309024.1	NM_130446		T	183226047	C	T	183226047	3	4	603	1	0	0	0	0	1	0	0	0	8400	835	29	2	1176	2	KLHL6	3	183226047	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	3903411	183226047	14796383	31	36285										
TMPRSS11F	389208	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	68930403	68930403	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	attaggttgaaactgctcacCatcatctacaatggatccaa	6	10	3	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr4:68930403C>A	ENST00000356291.2	-	8	1074	c.1015G>T	c.(1015-1017)Gga>Tga	p.G339*	RP11-35D5.1_ENST00000600441.1_RNA|UBA6-AS1_ENST00000511571.1_RNA|UBA6-AS1_ENST00000500538.2_RNA|UBA6-AS1_ENST00000499180.2_RNA	NM_207407.2	NP_997290.2	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	339	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.					extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)	serine-type endopeptidase activity (GO:0004252)			NS(1)|breast(1)|endometrium(2)|kidney(2)|large_intestine(7)|liver(1)|lung(18)|ovary(1)|pancreas(1)|prostate(1)|urinary_tract(4)	39						AACTGCTCACCATCATCTACA	0.363																																																0													68	68	68					4																	68930403		2203	4300	6503	SO:0001630	splice_region_variant	389208			AK122625	CCDS3520.1	4q13.2	2010-04-13			ENSG00000198092	ENSG00000198092		"Serine peptidases / Transmembrane"	29994	protein-coding gene	gene with protein product							Standard	NM_207407		Approved	FLJ16046	uc003hdt.1	Q6ZWK6	OTTHUMG00000129307	ENST00000356291.2:c.1015+1G>T	4.37:g.68930403C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MXX2	Nonsense_Mutation	SNP	ENST00000356291.2	37	CCDS3520.1	.	.	.	.	.	.	.	.	.	.	C	37	6.372005	0.97515	.	.	ENSG00000198092	ENST00000356291	.	.	.	5.92	5.92	0.95590	.	0.000000	0.53938	D	0.000048	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.8344	0.78787	0.0:1.0:0.0:0.0	.	.	.	.	X	339	.	.	G	-	1	0	TMPRSS11F	68612998	1.000000	0.71417	1.000000	0.80357	0.731000	0.41821	4.819000	0.62664	2.822000	0.97130	0.650000	0.86243	GGA		0.363	TMPRSS11F-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251439.1	NM_207407	Nonsense_Mutation	A	68930403	C	A	68930403	5	1	603	1	0	0	0	0	0	0	1	0	16255	608	21	4	313	4	TMPRSS11F	4	68930403	Splice_Site	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10		68930403	122223873	32	36286										
WWC2	80014	broad.mit.edu;bcgsc.ca	37	chr4	184129218	184129218	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	cggacacagaaggaactgtaCcatgtgaaggagcagaggct	14	8	0	3			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr4:184129218C>T	ENST00000403733.3	+	3	553	c.354C>T	c.(352-354)taC>taT	p.Y118Y	WWC2_ENST00000378925.3_Silent_p.Y20Y|WWC2_ENST00000448232.2_Silent_p.Y118Y|WWC2_ENST00000513834.1_Silent_p.Y118Y|WWC2_ENST00000504005.1_5'Flank	NM_024949.5	NP_079225.5	Q6AWC2	WWC2_HUMAN	WW and C2 domain containing 2	118					negative regulation of hippo signaling (GO:0035331)|negative regulation of organ growth (GO:0046621)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)	cytosol (GO:0005829)	kinase binding (GO:0019900)|protein complex scaffold (GO:0032947)			NS(1)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(15)|ovary(2)|prostate(1)|stomach(1)|urinary_tract(3)	32		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)		AGGAACTGTACCATGTGAAGG	0.493																																																0													65	71	69					4																	184129218		2090	4229	6319	SO:0001819	synonymous_variant	80014			BC017957	CCDS34109.2	4q35.1	2010-08-05	2006-11-09		ENSG00000151718	ENSG00000151718		"WW, C2 and coiled-coil domain containing"	24148	protein-coding gene	gene with protein product			"WW, C2 and coiled-coil domain containing 2"			12477932	Standard	NM_024949		Approved	BOMB, FLJ22029	uc010irx.3	Q6AWC2	OTTHUMG00000150685	ENST00000403733.3:c.354C>T	4.37:g.184129218C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q32Q84|Q69YQ1|Q6AWB8|Q6ZSY9|Q6ZU09|Q7Z620|Q8TEB8|Q9H6P0	Silent	SNP	ENST00000403733.3	37	CCDS34109.2																																																																																				0.493	WWC2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319608.1	NM_024949		T	184129218	C	T	184129218	2	4	603	1	0	0	0	0	0	0	0	1	17424	518	18	2		2	WWC2	4	184129218	Silent	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	115198815	184129218	7025058	33	36287										
CASP3	836	broad.mit.edu	37	chr4	185552222	185552222	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gagtatgcatacaagaagtcGgcctccactggtattttatg	10	8	0	1	rs200014759	byFrequency	TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr4:185552222G>T	ENST00000308394.4	-	7	835	c.573C>A	c.(571-573)gcC>gcA	p.A191A	CASP3_ENST00000517513.1_Intron|CASP3_ENST00000393588.4_Intron|CASP3_ENST00000393585.2_Intron|CASP3_ENST00000523916.1_Silent_p.A191A	NM_004346.3	NP_004337.2	P42574	CASP3_HUMAN	caspase 3, apoptosis-related cysteine peptidase	191					activation of cysteine-type endopeptidase activity involved in apoptotic process by cytochrome c (GO:0008635)|apoptotic DNA fragmentation (GO:0006309)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|B cell homeostasis (GO:0001782)|cell fate commitment (GO:0045165)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular response to DNA damage stimulus (GO:0006974)|erythrocyte differentiation (GO:0030218)|execution phase of apoptosis (GO:0097194)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|extrinsic apoptotic signaling pathway in absence of ligand (GO:0097192)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|glial cell apoptotic process (GO:0034349)|heart development (GO:0007507)|hippo signaling (GO:0035329)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway in response to oxidative stress (GO:0008631)|keratinocyte differentiation (GO:0030216)|negative regulation of activated T cell proliferation (GO:0046007)|negative regulation of apoptotic process (GO:0043066)|negative regulation of B cell proliferation (GO:0030889)|negative regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045736)|neuron apoptotic process (GO:0051402)|neuron differentiation (GO:0030182)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet formation (GO:0030220)|positive regulation of apoptotic process (GO:0043065)|positive regulation of neuron apoptotic process (GO:0043525)|proteolysis (GO:0006508)|regulation of apoptotic DNA fragmentation (GO:1902510)|regulation of apoptotic process (GO:0042981)|regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043281)|release of cytochrome c from mitochondria (GO:0001836)|response to tumor necrosis factor (GO:0034612)|response to UV (GO:0009411)|response to wounding (GO:0009611)|sensory perception of sound (GO:0007605)|T cell homeostasis (GO:0043029)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	aspartic-type endopeptidase activity (GO:0004190)|cyclin-dependent protein serine/threonine kinase inhibitor activity (GO:0004861)|cysteine-type endopeptidase activity (GO:0004197)|cysteine-type endopeptidase activity involved in apoptotic process (GO:0097153)|cysteine-type endopeptidase activity involved in execution phase of apoptosis (GO:0097200)|peptidase activity (GO:0008233)			endometrium(1)|kidney(1)|large_intestine(3)|lung(5)|prostate(1)|skin(1)	12		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Colorectal(36;0.00139)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.057)|all_hematologic(60;0.0592)		all cancers(43;2.05e-27)|Epithelial(43;4.27e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.04e-11)|Colorectal(24;2e-05)|STAD - Stomach adenocarcinoma(60;2.35e-05)|GBM - Glioblastoma multiforme(59;4.94e-05)|COAD - Colon adenocarcinoma(29;0.00017)|BRCA - Breast invasive adenocarcinoma(30;0.000218)|LUSC - Lung squamous cell carcinoma(40;0.00904)|READ - Rectum adenocarcinoma(43;0.161)	Minocycline(DB01017)	ACAAGAAGTCGGCCTCCACTG	0.443																																																0													119	100	107					4																	185552222		2203	4300	6503	SO:0001819	synonymous_variant	836			BC016926	CCDS3836.1	4q34	2008-02-05	2005-08-17		ENSG00000164305	ENSG00000164305		"Caspases"	1504	protein-coding gene	gene with protein product		600636	"caspase 3, apoptosis-related cysteine protease"			8780721	Standard	NM_004346		Approved	CPP32, CPP32B, Yama, apopain	uc003iwi.3	P42574	OTTHUMG00000133681	ENST00000308394.4:c.573C>A	4.37:g.185552222G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5M2|D3DP53|Q96AN1|Q96KP2	Silent	SNP	ENST00000308394.4	37	CCDS3836.1																																																																																				0.443	CASP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257885.2	NM_004346		T	185552222	G	T	185552222	2	4	603	1	0	0	0	0	0	0	0	1	2674	1103	39	4		4	CASP3	4	185552222	Silent	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	1423004	185552222	5602054	34	36288										
FAT1	2195	bcgsc.ca	37	chr4	187628814	187628818	+	Frame_Shift_Del	DEL	CCAGT	CCAGT	-													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ggttttcctttacctgaataCcagtcggaagagtgcttcta							TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	CCAGT	CCAGT	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr4:187628814_187628818delCCAGT	ENST00000441802.2	-	2	2373_2377	c.2164_2168delACTGG	c.(2164-2169)actggtfs	p.TG722fs		NM_005245.3	NP_005236.2	Q14517	FAT1_HUMAN	FAT atypical cadherin 1	722	Cadherin 6. {ECO:0000255|PROSITE- ProRule:PRU00043}.				actin filament organization (GO:0007015)|anatomical structure morphogenesis (GO:0009653)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|cell-cell signaling (GO:0007267)|establishment or maintenance of cell polarity (GO:0007163)|homophilic cell adhesion (GO:0007156)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(38)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(33)|lung(88)|ovary(13)|pancreas(2)|prostate(16)|skin(2)|upper_aerodigestive_tract(11)|urinary_tract(4)	228						TACCTGAATACCAGTCGGAAGAGTG	0.444										HNSCC(5;0.00058)																											Colon(197;1040 2055 4143 4984 49344)											0																																										SO:0001589	frameshift_variant	2195			X87241	CCDS47177.1	4q35.2	2013-05-31	2013-05-31	2008-10-30	ENSG00000083857	ENSG00000083857		"Cadherins / Cadherin-related"	3595	protein-coding gene	gene with protein product	"cadherin-related family member 8"	600976	"FAT tumor suppressor (Drosophila) homolog", "FAT tumor suppressor homolog 1 (Drosophila)"	FAT		8586420	Standard	XM_005262834		Approved	CDHF7, CDHR8	uc003izf.3	Q14517	OTTHUMG00000160320	ENST00000441802.2:c.2164_2168delACTGG	4.37:g.187628814_187628818delCCAGT	ENSP00000406229:p.Thr722fs	Somatic		WXS	Illumina HiSeq	Phase_1		Frame_Shift_Del	DEL	ENST00000441802.2	37	CCDS47177.1																																																																																				0.444	FAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360209.3	NM_005245		-	187628818	CCAGT	-	187628814	7	5	603	1	0	1	0	1	0	0	0	0	5696	507	18	0	11702	0	FAT1	4	187628814	Frame_Shift_Del	DEL	CCAGT	TCGA-GL-A59T-01A-21D-A28G-10	2076592	187628814	3525462	35	36289										
SLC12A7	10723	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	1093744	1093744	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	agcttgttgagcagcgaggaCaccatggggttactgtccat	13	9	0	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr5:1093744C>A	ENST00000264930.5	-	3	289	c.246G>T	c.(244-246)gtG>gtT	p.V82V		NM_006598.2	NP_006589.2	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride transporter), member 7	82					cell volume homeostasis (GO:0006884)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|ion transport (GO:0006811)|potassium ion transport (GO:0006813)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	potassium:chloride symporter activity (GO:0015379)|protein kinase binding (GO:0019901)			breast(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(14)|ovary(2)|prostate(1)|skin(4)|urinary_tract(2)	32	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)	GCAGCGAGGACACCATGGGGT	0.682																																																0													111	75	87					5																	1093744		2202	4299	6501	SO:0001819	synonymous_variant	10723			AF105365	CCDS34129.1	5p15	2013-07-18	2013-07-18		ENSG00000113504	ENSG00000113504		"Solute carriers"	10915	protein-coding gene	gene with protein product		604879				10347194	Standard	NM_006598		Approved	KCC4, DKFZP434F076	uc003jbu.3	Q9Y666	OTTHUMG00000161931	ENST00000264930.5:c.246G>T	5.37:g.1093744C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NDS8|Q4G0F3|Q96I81|Q9H7I3|Q9H7I7|Q9UFW2	Silent	SNP	ENST00000264930.5	37	CCDS34129.1																																																																																				0.682	SLC12A7-001	KNOWN	non_canonical_TEC|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366446.2	NM_006598		A	1093744	C	A	1093744	2	1	603	1	0	0	0	0	0	0	0	1	14401	465	17	4		4	SLC12A7	5	1093744	Silent	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10		1093744	179821516	36	36290										
LOX	4015	broad.mit.edu	37	chr5	121412648	121412648	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	acatggacatcttctgcacgTacgtggacgcctggatgtag	12	10	2	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr5:121412648T>C	ENST00000231004.4	-	2	979	c.680A>G	c.(679-681)tAc>tGc	p.Y227C	LOX_ENST00000513319.1_Intron	NM_001178102.1|NM_002317.5	NP_001171573.1|NP_002308.2	P28300	LYOX_HUMAN	lysyl oxidase	227	Lysyl-oxidase like.				blood vessel development (GO:0001568)|cellular protein modification process (GO:0006464)|collagen fibril organization (GO:0030199)|elastic fiber assembly (GO:0048251)|extracellular matrix organization (GO:0030198)|lung development (GO:0030324)|response to drug (GO:0042493)|response to steroid hormone (GO:0048545)|wound healing (GO:0042060)	collagen trimer (GO:0005581)|extracellular region (GO:0005576)|nucleus (GO:0005634)|proteinaceous extracellular matrix (GO:0005578)	copper ion binding (GO:0005507)|protein-lysine 6-oxidase activity (GO:0004720)			endometrium(1)|lung(6)|prostate(1)	8		all_cancers(142;0.0124)|Prostate(80;0.0322)|Ovarian(225;0.0814)|Breast(839;0.143)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;2.14e-11)|OV - Ovarian serous cystadenocarcinoma(64;7.87e-10)|all cancers(49;2.49e-09)|COAD - Colon adenocarcinoma(49;0.02)		CTTCTGCACGTACGTGGACGC	0.632											OREG0016741	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													103	98	100					5																	121412648		2203	4300	6503	SO:0001583	missense	4015				CCDS4129.1	5q23.3-q31.2	2008-02-05			ENSG00000113083	ENSG00000113083	1.4.3.13		6664	protein-coding gene	gene with protein product		153455				1685472	Standard	NM_002317		Approved		uc003ksu.3	P28300	OTTHUMG00000128914	ENST00000231004.4:c.680A>G	5.37:g.121412648T>C	ENSP00000231004:p.Tyr227Cys	Somatic	1511	WXS	Illumina HiSeq	Phase_I	B2R5Q3|Q5FWF0	Missense_Mutation	SNP	ENST00000231004.4	37	CCDS4129.1	.	.	.	.	.	.	.	.	.	.	T	21.4	4.139164	0.77775	.	.	ENSG00000113083	ENST00000231004;ENST00000543620	T	0.45276	0.9	5.32	5.32	0.75619	.	0.000000	0.85682	D	0.000000	T	0.70753	0.3260	M	0.90542	3.125	0.58432	D	0.999999	D	0.89917	1.0	D	0.91635	0.999	T	0.78173	-0.2307	10	0.87932	D	0	.	14.9742	0.71257	0.0:0.0:0.0:1.0	.	227	P28300	LYOX_HUMAN	C	227;187	ENSP00000231004:Y227C	ENSP00000231004:Y227C	Y	-	2	0	LOX	121440547	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.993000	0.88291	2.014000	0.59158	0.374000	0.22700	TAC		0.632	LOX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250887.2			C	121412648	T	C	121412648	3	2	603	1	0	0	0	0	1	0	0	0	8905	1638	57	3	597	3	LOX	5	121412648	Missense_Mutation	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10	120318904	121412648	59502612	37	36291										
RBM27	54439	broad.mit.edu;bcgsc.ca	37	chr5	145638017	145638017	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ttttttttccaacagctgctAacattgtgatccagactgaa	6	9	0	3			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr5:145638017A>G	ENST00000265271.5	+	11	1766	c.1600A>G	c.(1600-1602)Aac>Gac	p.N534D	RBM27_ENST00000506502.1_Missense_Mutation_p.N479D	NM_018989.1	NP_061862.1	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	534					mRNA processing (GO:0006397)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(3)|endometrium(4)|kidney(5)|large_intestine(7)|liver(2)|lung(10)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)	39			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AACAGCTGCTAACATTGTGAT	0.343																																																0													103	91	94					5																	145638017		1568	3582	5150	SO:0001583	missense	54439			AL833706	CCDS43378.1	5q32	2013-01-09				ENSG00000091009		"Zinc fingers, CCCH-type domain containing", "RNA binding motif (RRM) containing"	29243	protein-coding gene	gene with protein product	"acidic rich RS domain containing 1"					10718198, 15741184	Standard	NM_018989		Approved	KIAA1311, ARRS1, Psc1, ZC3H18	uc003lnz.4	Q9P2N5		ENST00000265271.5:c.1600A>G	5.37:g.145638017A>G	ENSP00000265271:p.Asn534Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYW9	Missense_Mutation	SNP	ENST00000265271.5	37	CCDS43378.1	.	.	.	.	.	.	.	.	.	.	A	24.6	4.549076	0.86127	.	.	ENSG00000091009	ENST00000265271	T	0.47177	0.85	5.66	5.66	0.87406	.	0.000000	0.85682	D	0.000000	T	0.50616	0.1626	N	0.19112	0.55	0.43874	D	0.996481	D;D	0.63880	0.993;0.993	D;D	0.68192	0.956;0.956	T	0.41893	-0.9483	10	0.12103	T	0.63	-15.369	15.8844	0.79232	1.0:0.0:0.0:0.0	.	534;479	Q9P2N5;B3KY61	RBM27_HUMAN;.	D	534	ENSP00000265271:N534D	ENSP00000265271:N534D	N	+	1	0	RBM27	145618210	1.000000	0.71417	1.000000	0.80357	0.948000	0.59901	8.413000	0.90235	2.147000	0.66899	0.402000	0.26972	AAC		0.343	RBM27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373420.1	XM_291128		G	145638017	A	G	145638017	3	3	603	1	0	0	0	0	1	0	0	0	13140	362	13	3	1642	3	RBM27	5	145638017	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	24225369	145638017	35277243	38	36292										
NSD1	64324	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	176562915	176562915	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	acattacaatagaagagcaaTtaaactcaataaatttatct	3	6	2	2	rs374083142		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr5:176562915T>G	ENST00000439151.2	+	2	856	c.811T>G	c.(811-813)Tta>Gta	p.L271V	NSD1_ENST00000361032.4_Missense_Mutation_p.L271V|NSD1_ENST00000347982.4_Intron|NSD1_ENST00000511258.1_Intron|NSD1_ENST00000354179.4_Intron	NM_022455.4	NP_071900.2	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	271					gastrulation with mouth forming second (GO:0001702)|histone H3-K36 methylation (GO:0010452)|histone H4-K20 methylation (GO:0034770)|histone methylation (GO:0016571)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|chromatin binding (GO:0003682)|estrogen receptor binding (GO:0030331)|histone methyltransferase activity (H3-K36 specific) (GO:0046975)|histone methyltransferase activity (H4-K20 specific) (GO:0042799)|retinoic acid receptor binding (GO:0042974)|retinoid X receptor binding (GO:0046965)|thyroid hormone receptor binding (GO:0046966)|transcription cofactor activity (GO:0003712)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(2)|kidney(13)|large_intestine(18)|lung(24)|ovary(2)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(7)|urinary_tract(3)	96	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)		AGAAGAGCAATTAAACTCAAT	0.383			T	NUP98	AML		Sotos Syndrome		Weaver syndrome;Sotos syndrome;Beckwith-Wiedemann syndrome	HNSCC(47;0.14)																													Dom	yes		5	5q35	64324	nuclear receptor binding SET domain protein 1	yes	L	0													66	67	67					5																	176562915		2203	4300	6503	SO:0001583	missense	64324	Familial Cancer Database	Weaver-Smith syndrome;Cerebral Gigantism;BWS, Exomphalos-Macroglossia-Gigantism (EMG) syndrome, Wiedemann-Beckwith syndrome, WBS	AK026066	CCDS4412.1, CCDS4413.1	5q35	2014-09-17	2003-03-12		ENSG00000165671	ENSG00000165671		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	14234	protein-coding gene	gene with protein product		606681	"Sotos syndrome"	STO		9628876, 11896389	Standard	NM_022455		Approved	ARA267, FLJ22263, KMT3B	uc003mfr.4	Q96L73	OTTHUMG00000130846	ENST00000439151.2:c.811T>G	5.37:g.176562915T>G	ENSP00000395929:p.Leu271Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q96PD8|Q96RN7	Missense_Mutation	SNP	ENST00000439151.2	37	CCDS4412.1	.	.	.	.	.	.	.	.	.	.	T	12.12	1.841288	0.32513	.	.	ENSG00000165671	ENST00000439151;ENST00000361032	D;D	0.94576	-3.23;-3.46	5.19	5.19	0.71726	.	0.186195	0.26485	N	0.024119	D	0.88633	0.6489	N	0.14661	0.345	0.80722	D	1	B;B;B	0.30634	0.288;0.19;0.137	B;B;B	0.30572	0.117;0.055;0.051	D	0.88112	0.2826	10	0.72032	D	0.01	.	12.6728	0.56876	0.0:0.0:0.0:1.0	.	271;271;271	Q96L73-3;Q96L73;Q6PJ64	.;NSD1_HUMAN;.	V	271	ENSP00000395929:L271V;ENSP00000354310:L271V	ENSP00000354310:L271V	L	+	1	2	NSD1	176495521	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	4.025000	0.57225	2.189000	0.69895	0.533000	0.62120	TTA		0.383	NSD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253412.2	NM_172349		G	176562915	T	G	176562915	3	3	603	1	0	0	0	0	1	0	0	0	10676	1490	52	5	813	5	NSD1	5	176562915	Missense_Mutation	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10	30924898	176562915	4352345	39	36293										
KIF6	221458	broad.mit.edu	37	chr6	39607523	39607523	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	aaagatggtaccattgtaacCtgccaggacactgcaataaa	8	9	0	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr6:39607523C>T	ENST00000287152.7	-	4	356	c.262G>A	c.(262-264)Ggt>Agt	p.G88S	KIF6_ENST00000373215.3_Missense_Mutation_p.G88S|KIF6_ENST00000538893.1_Missense_Mutation_p.G88S|KIF6_ENST00000373216.3_Missense_Mutation_p.G88S	NM_145027.4	NP_659464.3	Q6ZMV9	KIF6_HUMAN	kinesin family member 6	88	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				ATP catabolic process (GO:0006200)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|male germ cell nucleus (GO:0001673)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(16)|large_intestine(8)|lung(15)|ovary(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	52						CCATTGTAACCTGCCAGGACA	0.408																																																0													139	107	118					6																	39607523		2203	4300	6503	SO:0001583	missense	221458			AL832634	CCDS4844.1, CCDS75449.1	6p21.2	2010-03-30			ENSG00000164627	ENSG00000164627		"Kinesins"	21202	protein-coding gene	gene with protein product		613919	"chromosome 6 open reading frame 102"	C6orf102			Standard	NM_145027		Approved	dJ1043E3.1, MGC33317, dJ137F1.4, dJ188D3.1, DKFZp451I2418	uc003oot.2	Q6ZMV9	OTTHUMG00000014648	ENST00000287152.7:c.262G>A	6.37:g.39607523C>T	ENSP00000287152:p.Gly88Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q2MDE3|Q2MDE4|Q5T8J6|Q6ZWE3|Q86T87|Q8WTV4	Missense_Mutation	SNP	ENST00000287152.7	37	CCDS4844.1	.	.	.	.	.	.	.	.	.	.	C	35	5.542203	0.96474	.	.	ENSG00000164627	ENST00000287152;ENST00000373216;ENST00000373215;ENST00000538893	D;D;D;D	0.84873	-1.91;-1.91;-1.91;-1.91	5.82	5.82	0.92795	Kinesin, motor domain (5);	.	.	.	.	D	0.96494	0.8856	H	0.99758	4.755	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.98057	1.0391	9	0.87932	D	0	.	19.6904	0.95998	0.0:1.0:0.0:0.0	.	88;88;88	E7EUN7;F6VGH2;Q6ZMV9	.;.;KIF6_HUMAN	S	88	ENSP00000287152:G88S;ENSP00000362312:G88S;ENSP00000362311:G88S;ENSP00000441435:G88S	ENSP00000287152:G88S	G	-	1	0	KIF6	39715501	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	7.696000	0.84270	2.767000	0.95098	0.655000	0.94253	GGT		0.408	KIF6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040455.2	NM_145027		T	39607523	C	T	39607523	3	4	603	1	0	0	0	0	1	0	0	0	8315	681	24	2	2262	2	KIF6	6	39607523	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10		39607523	131507544	40	36294										
MRPS10	55173	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	42176601	42176601	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	aaattcaagctatacctttgTtacttccatggcaacccctt	4	12	1	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr6:42176601T>A	ENST00000053468.3	-	6	532	c.517A>T	c.(517-519)Aca>Tca	p.T173S		NM_018141.3	NP_060611.2	P82664	RT10_HUMAN	mitochondrial ribosomal protein S10	173						mitochondrion (GO:0005739)|ribosome (GO:0005840)				endometrium(1)|lung(1)	2	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|Epithelial(12;0.00528)			TATACCTTTGTTACTTCCATG	0.443																																																0													103	98	100					6																	42176601		2203	4300	6503	SO:0001583	missense	55173				CCDS4866.1	6p21.1	2012-09-13			ENSG00000048544	ENSG00000048544		"Mitochondrial ribosomal proteins / small subunits"	14502	protein-coding gene	gene with protein product		611976				11279123	Standard	NM_018141		Approved	FLJ10567	uc003osa.4	P82664	OTTHUMG00000014694	ENST00000053468.3:c.517A>T	6.37:g.42176601T>A	ENSP00000053468:p.Thr173Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE89|Q9H3E5|Q9NVR3	Missense_Mutation	SNP	ENST00000053468.3	37	CCDS4866.1	.	.	.	.	.	.	.	.	.	.	T	19.87	3.906883	0.72868	.	.	ENSG00000048544	ENST00000053468	.	.	.	5.78	5.78	0.91487	.	0.094475	0.64402	D	0.000001	T	0.49047	0.1534	L	0.41415	1.275	0.46901	D	0.999243	D	0.53462	0.96	P	0.52454	0.699	T	0.46456	-0.9190	9	0.32370	T	0.25	-7.8115	15.0972	0.72244	0.0:0.0:0.0:1.0	.	173	P82664	RT10_HUMAN	S	173	.	ENSP00000053468:T173S	T	-	1	0	MRPS10	42284579	1.000000	0.71417	1.000000	0.80357	0.909000	0.53808	7.043000	0.76572	2.200000	0.70718	0.460000	0.39030	ACA		0.443	MRPS10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040547.1			A	42176601	T	A	42176601	3	1	603	1	0	0	0	0	1	0	0	0	9828	1725	60	5	96	5	MRPS10	6	42176601	Missense_Mutation	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10	2569078	42176601	128938466	41	36295										
SLC29A1	2030	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	44197513	44197513	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gttattcacctacctcaactCcttcctgcatcagaggtgag	7	13	3	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr6:44197513C>A	ENST00000393841.1	+	5	790	c.299C>A	c.(298-300)tCc>tAc	p.S100Y	SLC29A1_ENST00000371724.1_Missense_Mutation_p.S100Y|SLC29A1_ENST00000371731.1_Missense_Mutation_p.S100Y|SLC29A1_ENST00000371713.1_Missense_Mutation_p.S100Y|SLC29A1_ENST00000427851.2_Missense_Mutation_p.S100Y|SLC29A1_ENST00000313248.7_Missense_Mutation_p.S179Y|SLC29A1_ENST00000371755.3_Missense_Mutation_p.S100Y|SLC29A1_ENST00000472176.1_3'UTR|SLC29A1_ENST00000371740.5_Missense_Mutation_p.S100Y|SLC29A1_ENST00000393844.1_Missense_Mutation_p.S100Y|SLC29A1_ENST00000371708.1_Missense_Mutation_p.S100Y	NM_001078177.1	NP_001071645.1	Q99808	S29A1_HUMAN	solute carrier family 29 (equilibrative nucleoside transporter), member 1	100					cellular response to glucose stimulus (GO:0071333)|cellular response to hypoxia (GO:0071456)|lactation (GO:0007595)|nucleobase-containing compound metabolic process (GO:0006139)|nucleoside transmembrane transport (GO:1901642)|nucleoside transport (GO:0015858)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|sleep (GO:0030431)|transmembrane transport (GO:0055085)|uridine transport (GO:0015862)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	nucleoside transmembrane transporter activity (GO:0005337)			endometrium(3)|kidney(2)|large_intestine(4)|lung(5)|ovary(1)|skin(2)	17	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)		Cytarabine(DB00987)|Didanosine(DB00900)|Fludarabine(DB01073)|Fluorouracil(DB00544)|Gemcitabine(DB00441)|Mercaptopurine(DB01033)|Pemetrexed(DB00642)|Ribavirin(DB00811)|Zalcitabine(DB00943)	TACCTCAACTCCTTCCTGCAT	0.597																																																0													130	119	123					6																	44197513		2203	4300	6503	SO:0001583	missense	2030			U81375	CCDS4908.1	6p21.1	2013-07-17	2013-07-17		ENSG00000112759	ENSG00000112759		"Solute carriers"	11003	protein-coding gene	gene with protein product		602193	"solute carrier family 29 (nucleoside transporters), member 1"	ENT1		8986748, 9344680	Standard	NM_004955		Approved		uc003owy.2	Q99808	OTTHUMG00000014759	ENST00000393841.1:c.299C>A	6.37:g.44197513C>A	ENSP00000377424:p.Ser100Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQV7|B3KQY5|Q5T9W9|Q9UJY2	Missense_Mutation	SNP	ENST00000393841.1	37	CCDS4908.1	.	.	.	.	.	.	.	.	.	.	C	17.49	3.403214	0.62288	.	.	ENSG00000112759	ENST00000544345;ENST00000393844;ENST00000313248;ENST00000427851;ENST00000371755;ENST00000371740;ENST00000371731;ENST00000393841;ENST00000371724;ENST00000371713;ENST00000371708	T;T;T;T;T;T;T;T;T;T	0.81415	-1.49;-1.49;-1.49;-1.49;-1.49;-1.49;-1.49;-1.49;-1.49;-1.49	5.1	4.22	0.49857	.	0.000000	0.85682	D	0.000000	D	0.83769	0.5326	M	0.86420	2.815	0.54753	D	0.999988	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.83275	0.996;0.991;0.987;0.982	D	0.87111	0.2185	10	0.02654	T	1	-14.8574	13.9988	0.64419	0.0:0.8486:0.1514:0.0	.	100;119;179;100	B7Z1J8;B7Z914;B3KQV7;Q99808	.;.;.;S29A1_HUMAN	Y	119;100;179;100;100;100;100;100;100;100;100	ENSP00000377427:S100Y;ENSP00000319152:S179Y;ENSP00000392668:S100Y;ENSP00000360820:S100Y;ENSP00000360805:S100Y;ENSP00000360796:S100Y;ENSP00000377424:S100Y;ENSP00000360789:S100Y;ENSP00000360778:S100Y;ENSP00000360773:S100Y	ENSP00000319152:S179Y	S	+	2	0	SLC29A1	44305491	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	7.007000	0.76335	1.360000	0.45960	0.563000	0.77884	TCC		0.597	SLC29A1-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040721.1			A	44197513	C	A	44197513	3	1	603	1	0	0	0	0	1	0	0	0	14547	855	30	4	309	4	SLC29A1	6	44197513	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	2020912	44197513	126917554	42	36296										
EEF1A1	1915	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	74227601	74227601	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tccagcagccttcttgtccaCtgctttgatgacacccaccg	7	16	1	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr6:74227601C>T	ENST00000316292.9	-	7	2312	c.1321G>A	c.(1321-1323)Gtg>Atg	p.V441M	EEF1A1_ENST00000331523.2_Missense_Mutation_p.V441M|EEF1A1_ENST00000491404.1_Intron|EEF1A1_ENST00000309268.6_Missense_Mutation_p.V441M	NM_001402.5	NP_001393.1	P68104	EF1A1_HUMAN	eukaryotic translation elongation factor 1 alpha 1	441					cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|gene expression (GO:0010467)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)|translation (GO:0006412)|translational elongation (GO:0006414)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|eukaryotic translation elongation factor 1 complex (GO:0005853)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)|translation elongation factor activity (GO:0003746)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(2)|lung(6)|prostate(2)|skin(3)	18						TTCTTGTCCACTGCTTTGATG	0.443											OREG0003893	type=REGULATORY REGION|Gene=BC038897|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay																																				0													29	30	30					6																	74227601		2203	4296	6499	SO:0001583	missense	1915			BC019669	CCDS4980.1	6q14.1	2010-06-30	2004-11-19		ENSG00000156508	ENSG00000156508			3189	protein-coding gene	gene with protein product		130590	"leukocyte receptor cluster (LRC) member 7"	EF1A, EEF1A, LENG7		8812466, 10941842	Standard	NM_001402		Approved	EE1A1	uc003phj.3	P68104	OTTHUMG00000015031	ENST00000316292.9:c.1321G>A	6.37:g.74227601C>T	ENSP00000339063:p.Val441Met	Somatic	1151	WXS	Illumina HiSeq	Phase_I	P04719|P04720|Q6IQ15	Missense_Mutation	SNP	ENST00000316292.9	37	CCDS4980.1	.	.	.	.	.	.	.	.	.	.	C	22.9	4.352587	0.82132	.	.	ENSG00000156508	ENST00000316292;ENST00000309268;ENST00000331523;ENST00000391977	T;T;T	0.52526	0.66;0.66;0.66	4.81	4.81	0.61882	Translation elongation factor EF1A/initiation factor IF2gamma, C-terminal (2);Translation elongation factor EFTu/EF1A, C-terminal (2);	0.072938	0.53938	U	0.000048	T	0.68229	0.2978	H	0.94462	3.54	0.80722	D	1	D;D;D	0.55172	0.97;0.97;0.97	P;P;P	0.54590	0.756;0.756;0.756	T	0.79850	-0.1629	10	0.87932	D	0	.	18.3119	0.90203	0.0:1.0:0.0:0.0	.	441;441;441	P68104;Q6IPS9;Q5VTE0	EF1A1_HUMAN;.;EF1A3_HUMAN	M	441;441;441;420	ENSP00000339063:V441M;ENSP00000339053:V441M;ENSP00000330054:V441M	ENSP00000339053:V441M	V	-	1	0	EEF1A1	74284322	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.405000	0.80007	2.381000	0.81170	0.556000	0.70494	GTG		0.443	EEF1A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041210.2	NM_001402		T	74227601	C	T	74227601	3	4	603	1	0	0	0	0	1	0	0	0	4925	565	20	2	71	2	EEF1A1	6	74227601	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	30030088	74227601	96887466	43	36297										
RIPPLY2	134701	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	84563845	84563845	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ggccctggaatgaccgcagcCtcaggaaagctttaccaatt	10	12	1	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr6:84563845C>T	ENST00000369689.1	+	3	355	c.204C>T	c.(202-204)gcC>gcT	p.A68A	RIPPLY2_ENST00000369687.1_Silent_p.A10A	NM_001009994.1	NP_001009994.1	Q5TAB7	RIPP2_HUMAN	ripply transcriptional repressor 2	68					bone morphogenesis (GO:0060349)|determination of left/right symmetry (GO:0007368)|Notch signaling pathway (GO:0007219)|ossification (GO:0001503)|post-anal tail morphogenesis (GO:0036342)|regulation of gene expression (GO:0010468)|somite rostral/caudal axis specification (GO:0032525)|somitogenesis (GO:0001756)	nucleus (GO:0005634)				large_intestine(2)|lung(4)|urinary_tract(1)	7						TGACCGCAGCCTCAGGAAAGC	0.592																																																0													102	96	98					6																	84563845		2203	4300	6503	SO:0001819	synonymous_variant	134701			BC130460	CCDS34493.1	6q14.2	2013-07-23	2013-07-23	2008-05-07	ENSG00000203877	ENSG00000203877			21390	protein-coding gene	gene with protein product		609891	"chromosome 6 open reading frame 159", "ripply2 homolog (zebrafish)"	C6orf159			Standard	NM_001009994		Approved	dJ237I15.1	uc003pke.3	Q5TAB7	OTTHUMG00000015117	ENST00000369689.1:c.204C>T	6.37:g.84563845C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TAB6	Silent	SNP	ENST00000369689.1	37	CCDS34493.1																																																																																				0.592	RIPPLY2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041360.1	NM_001009994		T	84563845	C	T	84563845	2	4	603	1	0	0	0	0	0	0	0	1	13398	668	24	2		2	RIPPLY2	6	84563845	Silent	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	10336244	84563845	86551222	44	36298										
IGF2R	3482	hgsc.bcm.edu;bcgsc.ca	37	chr6	160494272	160494272	+	Frame_Shift_Del	DEL	G	G	-													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ctttggacagaccaggattaGcgtgggcaaggccaacaaga							TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr6:160494272delG	ENST00000356956.1	+	34	4866	c.4718delG	c.(4717-4719)agcfs	p.S1573fs		NM_000876.2	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor	1573					insulin-like growth factor receptor signaling pathway (GO:0048009)|liver development (GO:0001889)|organ regeneration (GO:0031100)|positive regulation of apoptotic process (GO:0043065)|post-embryonic development (GO:0009791)|receptor-mediated endocytosis (GO:0006898)|response to retinoic acid (GO:0032526)|signal transduction (GO:0007165)|spermatogenesis (GO:0007283)	cell surface (GO:0009986)|clathrin coat (GO:0030118)|endocytic vesicle (GO:0030139)|endosome (GO:0005768)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|lysosome (GO:0005764)|membrane (GO:0016020)|nuclear envelope lumen (GO:0005641)|perinuclear region of cytoplasm (GO:0048471)|trans-Golgi network transport vesicle (GO:0030140)	G-protein coupled receptor activity (GO:0004930)|glycoprotein binding (GO:0001948)|identical protein binding (GO:0042802)|insulin-like growth factor-activated receptor activity (GO:0005010)|mannose binding (GO:0005537)|phosphoprotein binding (GO:0051219)|receptor activity (GO:0004872)|retinoic acid binding (GO:0001972)|transporter activity (GO:0005215)			breast(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(27)|lung(31)|ovary(3)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	95		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)	Mecasermin(DB01277)	ACCAGGATTAGCGTGGGCAAG	0.547																																																0													146	128	134					6																	160494272		2203	4300	6503	SO:0001589	frameshift_variant	3482			J03528	CCDS5273.1	6q25.3	2014-09-16			ENSG00000197081	ENSG00000197081		"CD molecules"	5467	protein-coding gene	gene with protein product	"cation-independent mannose-6 phosphate receptor"	147280					Standard	NM_000876		Approved	CD222, MPRI, MPR1, CIMPR, M6P-R	uc003qta.3	P11717	OTTHUMG00000015945	ENST00000356956.1:c.4718delG	6.37:g.160494272delG	ENSP00000349437:p.Ser1573fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z7G9|Q96PT5	Frame_Shift_Del	DEL	ENST00000356956.1	37	CCDS5273.1																																																																																				0.547	IGF2R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042931.1	NM_000876		-	160494272	G	-	160494272	7	5	603	1	0	1	0	1	0	0	0	0	7583	971	34	0	4852	0	IGF2R	6	160494272	Frame_Shift_Del	DEL	G	TCGA-GL-A59T-01A-21D-A28G-10	75930427	160494272	10620795	45	36299										
ACTB	60	broad.mit.edu	37	chr7	5568199	5568199	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ccagacgcaggatggcatggGggagggcatacccctcgtag	16	11	0	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr7:5568199G>C	ENST00000331789.5	-	4	706	c.515C>G	c.(514-516)cCc>cGc	p.P172R	AC006483.1_ENST00000579427.1_RNA|ACTB_ENST00000464611.1_5'Flank	NM_001101.3	NP_001092.1	P63261	ACTG_HUMAN	actin, beta	172					adherens junction organization (GO:0034332)|axon guidance (GO:0007411)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|cellular component movement (GO:0006928)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|membrane organization (GO:0061024)|platelet aggregation (GO:0070527)|retina homeostasis (GO:0001895)|sarcomere organization (GO:0045214)	blood microparticle (GO:0072562)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|filamentous actin (GO:0031941)|membrane (GO:0016020)|myofibril (GO:0030016)|nucleus (GO:0005634)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|central_nervous_system(1)|large_intestine(2)|lung(2)|prostate(2)	8		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		GATGGCATGGGGGAGGGCATA	0.637																																																0													62	62	62					7																	5568199		2203	4300	6503	SO:0001583	missense	60			M28424	CCDS5341.1	7p22	2014-09-17			ENSG00000075624	ENSG00000075624			132	protein-coding gene	gene with protein product		102630				1505215	Standard	NM_001101		Approved		uc003sot.4	P60709	OTTHUMG00000023268	ENST00000331789.5:c.515C>G	7.37:g.5568199G>C	ENSP00000349960:p.Pro172Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7C2|P02571|P14104|P99022|Q5U032|Q96E67	Missense_Mutation	SNP	ENST00000331789.5	37	CCDS5341.1	.	.	.	.	.	.	.	.	.	.	G	15.93	2.978194	0.53720	.	.	ENSG00000075624	ENST00000331789;ENST00000400179;ENST00000320713	D	0.94138	-3.36	5.37	4.47	0.54385	.	0.000000	0.56097	U	0.000026	D	0.96586	0.8886	M	0.84773	2.715	0.51233	D	0.999913	P	0.38729	0.644	P	0.60886	0.88	D	0.96792	0.9583	10	0.87932	D	0	.	12.3856	0.55330	0.0848:0.0:0.9152:0.0	.	172	P60709	ACTB_HUMAN	R	172;144;91	ENSP00000349960:P172R	ENSP00000440549:P91R	P	-	2	0	ACTB	5534725	1.000000	0.71417	0.929000	0.37066	0.984000	0.73092	7.659000	0.83766	2.514000	0.84764	0.650000	0.86243	CCC		0.637	ACTB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059589.4	NM_001101		C	5568199	G	C	5568199	3	2	603	1	0	0	0	0	1	0	0	0	193	1232	43	4	624	4	ACTB	7	5568199	Missense_Mutation	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10		5568199	153570464	46	36300										
C7orf65	401335	broad.mit.edu;bcgsc.ca	37	chr7	47698325	47698325	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tcagagaagttaagcaacttGcccaggccacacagctattc	8	12	1	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr7:47698325G>A	ENST00000408988.2	+	2	140	c.105G>A	c.(103-105)ttG>ttA	p.L35L		NM_001123065.1	NP_001116537.1	Q6ZTY9	CG065_HUMAN	chromosome 7 open reading frame 65	35										endometrium(1)|lung(2)	3						taagcaacttgcccaggccac	0.423																																																0													55	52	53					7																	47698325		1568	3582	5150	SO:0001819	synonymous_variant	401335				CCDS43580.1	7p12.3	2009-02-11			ENSG00000221845	ENSG00000221845			34432	protein-coding gene	gene with protein product							Standard	NM_001123065		Approved	FLJ44108	uc010kyp.1	Q6ZTY9	OTTHUMG00000155550	ENST00000408988.2:c.105G>A	7.37:g.47698325G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D2F8	Silent	SNP	ENST00000408988.2	37	CCDS43580.1																																																																																				0.423	C7orf65-001	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340616.1	NM_001123065		A	47698325	G	A	47698325	2	1	603	1	0	0	0	0	0	0	0	1	2413	1310	46	2		2	C7orf65	7	47698325	Silent	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	42130126	47698325	111440338	47	36301										
GATAD1	57798	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	92083893	92083893	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ccctactatgctcaaatcagAggttttatccaggaccagta	7	11	2	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr7:92083893A>G	ENST00000287957.3	+	4	790	c.513A>G	c.(511-513)agA>agG	p.R171R	AC007566.10_ENST00000427458.1_RNA	NM_021167.4	NP_066990.3	Q8WUU5	GATD1_HUMAN	GATA zinc finger domain containing 1	171						nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			endometrium(1)|kidney(2)|lung(3)	6	all_cancers(62;1.63e-10)|all_epithelial(64;8.33e-10)|Breast(17;0.00311)|all_lung(186;0.0498)|Lung NSC(181;0.0676)		STAD - Stomach adenocarcinoma(171;4.51e-05)|GBM - Glioblastoma multiforme(5;8.83e-05)|all cancers(6;0.000136)|Lung(22;0.123)|Epithelial(20;0.179)|LUSC - Lung squamous cell carcinoma(200;0.225)			CTCAAATCAGAGGTTTTATCC	0.458																																																0													193	183	186					7																	92083893		2203	4300	6503	SO:0001819	synonymous_variant	57798				CCDS5625.1	7q21-q22	2014-09-17			ENSG00000157259	ENSG00000157259		"GATA zinc finger domain containing"	29941	protein-coding gene	gene with protein product	"ocular development associated gene"	614518				12062807	Standard	NM_021167		Approved	ODAG, RG083M05.2, FLJ22489	uc003ulx.2	Q8WUU5	OTTHUMG00000131201	ENST00000287957.3:c.513A>G	7.37:g.92083893A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RE37|D6W5Q5|Q8N5Y5|Q99995|Q9H689	Silent	SNP	ENST00000287957.3	37	CCDS5625.1																																																																																				0.458	GATAD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253929.2	NM_021167		G	92083893	A	G	92083893	2	3	603	1	0	0	0	0	0	0	0	1	6266	301	11	3		3	GATAD1	7	92083893	Silent	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	44385568	92083893	67054770	48	36302										
LRCH4	4034	broad.mit.edu;bcgsc.ca	37	chr7	100176068	100176068	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	aggggccaggtcccccagggCcgacccacgctgcccggcct	14	19	0	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr7:100176068C>A	ENST00000310300.6	-	6	854	c.802G>T	c.(802-804)Gcc>Tcc	p.A268S	LRCH4_ENST00000497245.1_5'UTR	NM_002319.3	NP_002310.2	O75427	LRCH4_HUMAN	leucine-rich repeats and calponin homology (CH) domain containing 4	268					nervous system development (GO:0007399)	PML body (GO:0016605)				NS(1)|large_intestine(5)|lung(13)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	23	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TCCCCCAGGGCCGACCCACGC	0.632																																																0													32	41	38					7																	100176068		2202	4298	6500	SO:0001583	missense	4034			AF053356	CCDS34706.1	7q22	2008-05-20	2004-05-27	2004-05-28	ENSG00000077454	ENSG00000077454			6691	protein-coding gene	gene with protein product				LRN, LRRN1		9799793	Standard	XM_005250346		Approved		uc003uvj.3	O75427	OTTHUMG00000159544	ENST00000310300.6:c.802G>T	7.37:g.100176068C>A	ENSP00000309689:p.Ala268Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2D5|Q8WV85|Q96ID0	Missense_Mutation	SNP	ENST00000310300.6	37	CCDS34706.1	.	.	.	.	.	.	.	.	.	.	c	0.115	-1.133361	0.01756	.	.	ENSG00000077454	ENST00000310300	T	0.29917	1.55	5.19	3.32	0.38043	.	0.339915	0.30762	N	0.008934	T	0.16342	0.0393	N	0.24115	0.695	0.20638	N	0.999871	B	0.20164	0.042	B	0.19946	0.027	T	0.31280	-0.9949	10	0.07813	T	0.8	-4.3266	7.8558	0.29480	0.161:0.7528:0.0:0.0862	.	268	O75427	LRCH4_HUMAN	S	268	ENSP00000309689:A268S	ENSP00000309689:A268S	A	-	1	0	LRCH4	100014004	0.257000	0.24022	0.083000	0.20561	0.265000	0.26407	2.031000	0.41117	0.547000	0.28938	0.538000	0.68166	GCC		0.632	LRCH4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356110.1	NM_002319		A	100176068	C	A	100176068	3	1	603	1	0	0	0	0	1	0	0	0	8942	739	26	4	1301	4	LRCH4	7	100176068	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	8092175	100176068	58962595	49	36303										
DOCK5	80005	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	25224425	25224425	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	atttggcagttgcatttctcAcccatgagtcccttcagctt	7	12	2	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr8:25224425A>G	ENST00000276440.7	+	31	3207	c.3163A>G	c.(3163-3165)Acc>Gcc	p.T1055A		NM_024940.6	NP_079216.4	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1055					positive regulation of GTPase activity (GO:0043547)|small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)	guanyl-nucleotide exchange factor activity (GO:0005085)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(12)|kidney(9)|large_intestine(13)|lung(20)|ovary(3)|prostate(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	72		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)		TGCATTTCTCACCCATGAGTC	0.383																																					Pancreas(145;34 1887 3271 10937 30165)											0													99	91	94					8																	25224425		2203	4300	6503	SO:0001583	missense	80005				CCDS6047.1	8p21.2	2009-04-17			ENSG00000147459	ENSG00000147459			23476	protein-coding gene	gene with protein product						12432077	Standard	NM_024940		Approved	FLJ21034	uc003xeg.3	Q9H7D0	OTTHUMG00000131991	ENST00000276440.7:c.3163A>G	8.37:g.25224425A>G	ENSP00000276440:p.Thr1055Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNY0|Q5XKD5|Q6AI11|Q6PJS6|Q6ZTS6	Missense_Mutation	SNP	ENST00000276440.7	37	CCDS6047.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	18.59|18.59	3.657437|3.657437	0.67586|0.67586	.|.	.|.	ENSG00000147459|ENSG00000147459	ENST00000444569|ENST00000276440	.|T	.|0.25749	.|1.78	5.95|5.95	4.79|4.79	0.61399|0.61399	.|.	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.35451|0.35451	0.0932|0.0932	M|M	0.73430|0.73430	2.235|2.235	0.58432|0.58432	D|D	0.999999|0.999999	.|B;B;B	.|0.28082	.|0.2;0.2;0.2	.|B;B;B	.|0.36030	.|0.167;0.216;0.167	T|T	0.18618|0.18618	-1.0331|-1.0331	5|10	.|0.72032	.|D	.|0.01	.|.	12.0589|12.0589	0.53550|0.53550	0.933:0.0:0.067:0.0|0.933:0.0:0.067:0.0	.|.	.|1045;830;1055	.|D3DSS6;Q68DL4;Q9H7D0	.|.;.;DOCK5_HUMAN	R|A	826|1055	.|ENSP00000276440:T1055A	.|ENSP00000276440:T1055A	H|T	+|+	2|1	0|0	DOCK5|DOCK5	25280342|25280342	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.981000|0.981000	0.71138|0.71138	7.442000|7.442000	0.80503|0.80503	1.075000|1.075000	0.40932|0.40932	0.533000|0.533000	0.62120|0.62120	CAC|ACC		0.383	DOCK5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254955.2	NM_024940		G	25224425	A	G	25224425	3	3	603	1	0	0	0	0	1	0	0	0	4692	159	6	3	3285	3	DOCK5	8	25224425	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10		25224425	121139597	50	36304										
KIF13B	23303	broad.mit.edu;bcgsc.ca	37	chr8	28984648	28984650	+	In_Frame_Del	DEL	CTC	CTC	-													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tagaaacttacatggaaggtCtcatgtgttctgggggctct							TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr8:28984648_28984650delCTC	ENST00000524189.1	-	25	3249_3251	c.3211_3213delGAG	c.(3211-3213)gagdel	p.E1071del	CTD-2647L4.1_ENST00000523661.1_RNA	NM_015254.3	NP_056069.2	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	1071					metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|protein targeting (GO:0006605)|regulation of axonogenesis (GO:0050770)|signal transduction (GO:0007165)|T cell activation (GO:0042110)	axon (GO:0030424)|cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	14-3-3 protein binding (GO:0071889)|ATP binding (GO:0005524)|microtubule motor activity (GO:0003777)|protein kinase binding (GO:0019901)			endometrium(6)|kidney(1)|lung(20)|urinary_tract(1)	28		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		CATGGAAGGTCTCATGTGTTCTG	0.424																																																0																																										SO:0001651	inframe_deletion	23303			AB014539	CCDS55217.1	8p21	2008-07-30				ENSG00000197892		"Kinesins"	14405	protein-coding gene	gene with protein product		607350				9734811, 10859302, 16864656	Standard	NM_015254		Approved	GAKIN, KIAA0639	uc003xhh.4	Q9NQT8		ENST00000524189.1:c.3211_3213delGAG	8.37:g.28984648_28984650delCTC	ENSP00000427900:p.Glu1071del	Somatic		WXS	Illumina HiSeq	Phase_I	B4DGY5|B5MC45|F8VPJ2|O75134|Q9BYJ6	In_Frame_Del	DEL	ENST00000524189.1	37	CCDS55217.1																																																																																				0.424	KIF13B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376878.1			-	28984650	CTC	-	28984648	7	5	603	1	0	1	0	1	0	0	0	0	8282	912	32	0	2331	0	KIF13B	8	28984648	In_Frame_Del	DEL	CTC	TCGA-GL-A59T-01A-21D-A28G-10	3760223	28984648	117379374	51	36305	283	2								
KIF13B	23303	broad.mit.edu;bcgsc.ca	37	chr8	28984652	28984654	+	In_Frame_Del	DEL	TGT	TGT	-													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	aacttacatggaaggtctcaTgtgttctgggggctctgagc					rs536929811		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	TGT	TGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr8:28984652_28984654delTGT	ENST00000524189.1	-	25	3245_3247	c.3207_3209delACA	c.(3205-3210)acacat>act	p.H1070del	CTD-2647L4.1_ENST00000523661.1_RNA	NM_015254.3	NP_056069.2	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	1070					metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|protein targeting (GO:0006605)|regulation of axonogenesis (GO:0050770)|signal transduction (GO:0007165)|T cell activation (GO:0042110)	axon (GO:0030424)|cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	14-3-3 protein binding (GO:0071889)|ATP binding (GO:0005524)|microtubule motor activity (GO:0003777)|protein kinase binding (GO:0019901)			endometrium(6)|kidney(1)|lung(20)|urinary_tract(1)	28		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		GAAGGTCTCATGTGTTCTGGGGG	0.429																																																0																																										SO:0001651	inframe_deletion	23303			AB014539	CCDS55217.1	8p21	2008-07-30				ENSG00000197892		"Kinesins"	14405	protein-coding gene	gene with protein product		607350				9734811, 10859302, 16864656	Standard	NM_015254		Approved	GAKIN, KIAA0639	uc003xhh.4	Q9NQT8		ENST00000524189.1:c.3207_3209delACA	8.37:g.28984652_28984654delTGT	ENSP00000427900:p.His1070del	Somatic		WXS	Illumina HiSeq	Phase_I	B4DGY5|B5MC45|F8VPJ2|O75134|Q9BYJ6	In_Frame_Del	DEL	ENST00000524189.1	37	CCDS55217.1																																																																																				0.429	KIF13B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376878.1			-	28984654	TGT	-	28984652	7	5	603	1	0	1	0	1	0	0	0	0	8282	1464	51	0	2335	0	KIF13B	8	28984652	In_Frame_Del	DEL	TGT	TCGA-GL-A59T-01A-21D-A28G-10	4	28984652	117379370	52	36306	283	2								
WHSC1L1	54904	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr8	38175506	38175506	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ttcctcaatcgctgcggagaCggagctgtcactgaatctga	11	11	3	3			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr8:38175506C>T	ENST00000317025.8	-	9	2373				WHSC1L1_ENST00000525081.1_5'UTR|WHSC1L1_ENST00000527502.1_Intron|WHSC1L1_ENST00000316985.3_Missense_Mutation_p.V636I|WHSC1L1_ENST00000433384.2_Intron	NM_023034.1	NP_075447.1	Q9BZ95	NSD3_HUMAN	Wolf-Hirschhorn syndrome candidate 1-like 1						histone lysine methylation (GO:0034968)|histone methylation (GO:0016571)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|nucleus (GO:0005634)	histone-lysine N-methyltransferase activity (GO:0018024)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|endometrium(3)|kidney(3)|large_intestine(2)|lung(10)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	24	Colorectal(12;0.000442)|Esophageal squamous(3;0.0725)	all_lung(54;0.00787)|Lung NSC(58;0.0295)|Hepatocellular(245;0.065)	Epithelial(3;3.12e-43)|all cancers(3;1.72e-38)|BRCA - Breast invasive adenocarcinoma(5;2.84e-27)|LUSC - Lung squamous cell carcinoma(2;2.79e-25)|Lung(2;5.03e-23)|COAD - Colon adenocarcinoma(9;0.0511)			GCTGCGGAGACGGAGCTGTCA	0.537			T	NUP98	AML																																		Dom	yes		8	8p12	54904	Wolf-Hirschhorn syndrome candidate 1-like 1 (NSD3)		L	0													90	82	85					8																	38175506		2203	4300	6503	SO:0001627	intron_variant	54904			AF332469	CCDS6105.1, CCDS43729.1	8p11.2	2013-05-20			ENSG00000147548	ENSG00000147548			12767	protein-coding gene	gene with protein product		607083				10802047, 23269674	Standard	NM_023034		Approved	FLJ20353, NSD3	uc003xli.3	Q9BZ95		ENST00000317025.8:c.1855+906G>A	8.37:g.38175506C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZL11|D3DSX1|Q1RMD3|Q3B796|Q6ZSA5|Q9BYU8|Q9BYU9|Q9H2M8|Q9H9W9|Q9NXA6	Missense_Mutation	SNP	ENST00000317025.8	37	CCDS43729.1	.	.	.	.	.	.	.	.	.	.	C	15.44	2.835251	0.50951	.	.	ENSG00000147548	ENST00000316985	T	0.64438	-0.1	6.17	5.29	0.74685	.	.	.	.	.	T	0.50752	0.1634	.	.	.	0.21499	N	0.999666	B	0.14805	0.011	B	0.10450	0.005	T	0.33033	-0.9884	8	0.40728	T	0.16	.	11.9912	0.53176	0.0:0.9189:0.0:0.0811	.	636	Q9BZ95-3	.	I	636	ENSP00000313410:V636I	ENSP00000313410:V636I	V	-	1	0	WHSC1L1	38294663	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	2.355000	0.44107	2.941000	0.99782	0.655000	0.94253	GTC		0.537	WHSC1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381924.3	NM_023034		T	38175506	C	T	38175506	1	4	603	0	1	0	0	0	0	0	0	0	17375	536	19	1		1	WHSC1L1	8	38175506	Intron	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	9190854	38175506	108188516	53	36307										
INTS8	55656	ucsc.edu	37	chr8	95884142	95884142	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gtggactttgaagctgtggcAatcacagtgaaagagctagt	13	6	1	3			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr8:95884142A>G	ENST00000523731.1	+	21	2578	c.2445A>G	c.(2443-2445)gcA>gcG	p.A815A	INTS8_ENST00000447247.1_Silent_p.A815A	NM_017864.2	NP_060334.2	Q75QN2	INT8_HUMAN	integrator complex subunit 8	815					snRNA processing (GO:0016180)	integrator complex (GO:0032039)				breast(3)|endometrium(3)|kidney(1)|large_intestine(9)|liver(1)|lung(9)|prostate(1)|upper_aerodigestive_tract(1)	28	Breast(36;1.05e-06)					AAGCTGTGGCAATCACAGTGA	0.343																																																0													112	106	108					8																	95884142		2203	4300	6503	SO:0001819	synonymous_variant	55656			AK091278	CCDS34925.1	8q22.1	2007-05-03	2006-03-15	2006-03-15	ENSG00000164941	ENSG00000164941			26048	protein-coding gene	gene with protein product		611351	"chromosome 8 open reading frame 52"	C8orf52		16239144	Standard	NM_017864		Approved	FLJ20530, INT8, MGC131633	uc003yhb.4	Q75QN2	OTTHUMG00000164695	ENST00000523731.1:c.2445A>G	8.37:g.95884142A>G		Somatic		WXS	Illumina HiSeq		B2RN92|Q5RKZ3|Q6P1R5|Q7Z314|Q9NVS6|Q9NWY7	Silent	SNP	ENST00000523731.1	37	CCDS34925.1	.	.	.	.	.	.	.	.	.	.	A	10.56	1.384319	0.25031	.	.	ENSG00000164941	ENST00000520526	.	.	.	5.57	-5.85	0.02311	.	.	.	.	.	T	0.35799	0.0944	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.44605	-0.9317	4	.	.	.	-16.3704	1.5279	0.02529	0.1785:0.3688:0.1616:0.2912	.	.	.	.	R	637	.	.	Q	+	2	0	INTS8	95953318	0.394000	0.25246	0.989000	0.46669	0.989000	0.77384	-0.262000	0.08682	-0.448000	0.07128	-0.435000	0.05868	CAA		0.343	INTS8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379794.1	NM_017864		G	95884142	A	G	95884142	2	3	603	1	0	0	0	0	0	0	0	1	7791	117	5	3		3	INTS8	8	95884142	Silent	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	57708636	95884142	50479880	54	36308										
JAK2	3717	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	5126752	5126752	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ccctcctttagggatctagcTcttcgagtggatcaaataag	9	10	3	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr9:5126752T>C	ENST00000381652.3	+	25	3854	c.3360T>C	c.(3358-3360)gcT>gcC	p.A1120A	JAK2_ENST00000539801.1_Silent_p.A1120A|JAK2_ENST00000544510.1_Silent_p.A971A|JAK2_ENST00000487310.1_3'UTR	NM_004972.3	NP_004963.1	O60674	JAK2_HUMAN	Janus kinase 2	1120	Protein kinase 2. {ECO:0000255|PROSITE- ProRule:PRU00159}.				actin filament polymerization (GO:0030041)|activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|activation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway (GO:0097296)|activation of JAK2 kinase activity (GO:0042977)|activation of MAPKK activity (GO:0000186)|apoptotic process (GO:0006915)|axon regeneration (GO:0031103)|blood coagulation (GO:0007596)|cell differentiation (GO:0030154)|cellular component movement (GO:0006928)|cytokine-mediated signaling pathway (GO:0019221)|enzyme linked receptor protein signaling pathway (GO:0007167)|erythrocyte differentiation (GO:0030218)|extrinsic apoptotic signaling pathway (GO:0097191)|G-protein coupled receptor signaling pathway (GO:0007186)|growth hormone receptor signaling pathway (GO:0060396)|histone H3-Y41 phosphorylation (GO:0035409)|hormone-mediated signaling pathway (GO:0009755)|host programmed cell death induced by symbiont (GO:0034050)|interferon-gamma-mediated signaling pathway (GO:0060333)|interleukin-12-mediated signaling pathway (GO:0035722)|intracellular signal transduction (GO:0035556)|intrinsic apoptotic signaling pathway in response to oxidative stress (GO:0008631)|JAK-STAT cascade (GO:0007259)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|mammary gland epithelium development (GO:0061180)|mesoderm development (GO:0007498)|mineralocorticoid receptor signaling pathway (GO:0031959)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of DNA binding (GO:0043392)|negative regulation of heart contraction (GO:0045822)|negative regulation of neuron apoptotic process (GO:0043524)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell activation (GO:0050867)|positive regulation of cell differentiation (GO:0045597)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of DNA binding (GO:0043388)|positive regulation of growth hormone receptor signaling pathway (GO:0060399)|positive regulation of inflammatory response (GO:0050729)|positive regulation of insulin secretion (GO:0032024)|positive regulation of interleukin-1 beta production (GO:0032731)|positive regulation of nitric oxide biosynthetic process (GO:0045429)|positive regulation of nitric-oxide synthase biosynthetic process (GO:0051770)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of phosphoprotein phosphatase activity (GO:0032516)|positive regulation of protein import into nucleus, translocation (GO:0033160)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of tumor necrosis factor production (GO:0032760)|positive regulation of tyrosine phosphorylation of Stat3 protein (GO:0042517)|positive regulation of tyrosine phosphorylation of Stat5 protein (GO:0042523)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of inflammatory response (GO:0050727)|regulation of interferon-gamma-mediated signaling pathway (GO:0060334)|response to antibiotic (GO:0046677)|response to hydroperoxide (GO:0033194)|response to interleukin-12 (GO:0070671)|response to lipopolysaccharide (GO:0032496)|response to tumor necrosis factor (GO:0034612)|signal transduction (GO:0007165)|STAT protein import into nucleus (GO:0007262)|tumor necrosis factor-mediated signaling pathway (GO:0033209)|tyrosine phosphorylation of STAT protein (GO:0007260)|tyrosine phosphorylation of Stat1 protein (GO:0042508)|tyrosine phosphorylation of Stat3 protein (GO:0042503)|tyrosine phosphorylation of Stat5 protein (GO:0042506)	caveola (GO:0005901)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|endosome lumen (GO:0031904)|membrane raft (GO:0045121)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)	ATP binding (GO:0005524)|growth hormone receptor binding (GO:0005131)|heme binding (GO:0020037)|histone binding (GO:0042393)|histone kinase activity (H3-Y41 specific) (GO:0035401)|interleukin-12 receptor binding (GO:0005143)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|protein tyrosine kinase activity (GO:0004713)|receptor binding (GO:0005102)|SH2 domain binding (GO:0042169)		BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)|ETV6/JAK2(11)|PCM1/JAK2(30)|PAX5/JAK2(18)	breast(5)|endometrium(4)|haematopoietic_and_lymphoid_tissue(32944)|kidney(4)|large_intestine(10)|liver(1)|lung(20)|ovary(3)|prostate(4)|skin(2)|urinary_tract(1)	32998	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)	Ruxolitinib(DB08877)|Tofacitinib(DB08895)	GGGATCTAGCTCTTCGAGTGG	0.348		1	"T, Mis, O"	"ETV6, PCM1, BCR"	"ALL, AML, MPD,  CML"				Polycythemia Vera, Familial																														Dom	yes		9	9p24	3717	Janus kinase 2		L	0													79	74	76					9																	5126752		2203	4299	6502	SO:0001819	synonymous_variant	3717	Familial Cancer Database			CCDS6457.1	9p24	2014-09-17	2009-04-23		ENSG00000096968	ENSG00000096968	2.7.10.1	"SH2 domain containing"	6192	protein-coding gene	gene with protein product		147796				1848670	Standard	NM_004972		Approved	JTK10	uc003ziw.3	O60674	OTTHUMG00000019490	ENST00000381652.3:c.3360T>C	9.37:g.5126752T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O14636|O75297	Silent	SNP	ENST00000381652.3	37	CCDS6457.1																																																																																				0.348	JAK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051609.1			C	5126752	T	C	5126752	2	2	603	1	0	0	0	0	0	0	0	1	7945	1538	54	3		3	JAK2	9	5126752	Silent	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10		5126752	136086679	55	36309										
IFT74	80173	ucsc.edu	37	chr9	27055739	27055739	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gatatataatgatttgccagCtttaaaatcatcaggtgaag	8	5	2	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr9:27055739C>T	ENST00000443698.1	+	17	1637	c.1466C>T	c.(1465-1467)gCt>gTt	p.A489V	IFT74_ENST00000380062.5_Missense_Mutation_p.A489V|IFT74_ENST00000433700.1_Missense_Mutation_p.A489V	NM_001099222.1	NP_001092692.1	Q96LB3	IFT74_HUMAN	intraflagellar transport 74	489					cilium assembly (GO:0042384)|intraciliary transport involved in cilium morphogenesis (GO:0035735)|keratinocyte development (GO:0003334)|negative regulation of epithelial cell proliferation (GO:0050680)|Notch signaling pathway (GO:0007219)|positive regulation of cell adhesion mediated by integrin (GO:0033630)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	centrosome (GO:0005813)|cilium (GO:0005929)|cytoplasmic vesicle (GO:0031410)|intraciliary transport particle B (GO:0030992)|motile cilium (GO:0031514)|nucleus (GO:0005634)	beta-tubulin binding (GO:0048487)|chromatin binding (GO:0003682)			endometrium(1)|large_intestine(1)|lung(2)|prostate(1)|skin(1)	6		all_neural(11;2.36e-10)		Lung(218;1.4e-05)|LUSC - Lung squamous cell carcinoma(38;0.000114)		GATTTGCCAGCTTTAAAATCA	0.294																																																0													64	61	62					9																	27055739		1803	4063	5866	SO:0001583	missense	80173			AK023707	CCDS43793.1, CCDS47955.1	9p21.1	2014-07-03	2014-07-03	2005-11-02	ENSG00000096872	ENSG00000096872		"Intraflagellar transport homologs"	21424	protein-coding gene	gene with protein product	"capillary morphogenesis protein 1"	608040	"coiled-coil domain containing 2", "intraflagellar transport 74 homolog (Chlamydomonas)"	CCDC2		11683410	Standard	NM_001099223		Approved	CMG1, CMG-1, FLJ22621	uc003zqg.4	Q96LB3	OTTHUMG00000021028	ENST00000443698.1:c.1466C>T	9.37:g.27055739C>T	ENSP00000404122:p.Ala489Val	Somatic		WXS	Illumina HiSeq		Q3B789|Q5VY34|Q6PGQ8|Q9H643|Q9H8G7	Missense_Mutation	SNP	ENST00000443698.1	37	CCDS43793.1	.	.	.	.	.	.	.	.	.	.	C	16.41	3.115265	0.56505	.	.	ENSG00000096872	ENST00000433700;ENST00000443698;ENST00000380062;ENST00000544022	T;T;T	0.12672	2.66;2.66;2.66	5.24	4.32	0.51571	.	0.182103	0.45361	D	0.000363	T	0.19087	0.0458	M	0.62723	1.935	0.47123	D	0.999325	B	0.31548	0.328	B	0.36134	0.218	T	0.02059	-1.1221	10	0.30078	T	0.28	-3.3595	15.0187	0.71609	0.1437:0.8563:0.0:0.0	.	489	Q96LB3	IFT74_HUMAN	V	489	ENSP00000389224:A489V;ENSP00000404122:A489V;ENSP00000369402:A489V	ENSP00000369402:A489V	A	+	2	0	IFT74	27045739	1.000000	0.71417	0.842000	0.33263	0.948000	0.59901	4.045000	0.57368	1.152000	0.42452	0.563000	0.77884	GCT		0.294	IFT74-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055476.2	NM_025103		T	27055739	C	T	27055739	3	4	603	1	0	0	0	0	1	0	0	0	7570	797	28	2	1597	2	IFT74	9	27055739	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	21928987	27055739	114157692	56	36310										
DAPK1	1612	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	90321821	90321821	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tgggggggtacaaggaaagcTtcagcagcatcatgtgcttc	14	8	2	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr9:90321821T>G	ENST00000408954.3	+	26	4170	c.3835T>G	c.(3835-3837)Ttc>Gtc	p.F1279V	DAPK1_ENST00000469640.2_Missense_Mutation_p.F1304V|DAPK1_ENST00000472284.1_Missense_Mutation_p.F1279V|DAPK1_ENST00000358077.5_Missense_Mutation_p.F1279V|DAPK1_ENST00000491893.1_Missense_Mutation_p.F1213V	NM_004938.2	NP_004929.2	P53355	DAPK1_HUMAN	death-associated protein kinase 1	1279					apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|cellular response to interferon-gamma (GO:0071346)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|intracellular signal transduction (GO:0035556)|negative regulation of apoptotic process (GO:0043066)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|negative regulation of translation (GO:0017148)|positive regulation of apoptotic process (GO:0043065)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of apoptotic process (GO:0042981)|regulation of autophagy (GO:0010506)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)	ATP binding (GO:0005524)|calmodulin binding (GO:0005516)|calmodulin-dependent protein kinase activity (GO:0004683)|identical protein binding (GO:0042802)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			breast(5)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(27)|liver(2)|lung(17)|ovary(1)|prostate(2)|skin(3)|stomach(1)	72						CAAGGAAAGCTTCAGCAGCAT	0.567									Chronic Lymphocytic Leukemia, Familial Clustering of																																							0													54	62	60					9																	90321821		2131	4237	6368	SO:0001583	missense	1612	Familial Cancer Database	Familial CLL	X76104	CCDS43842.1	9q34.1	2013-01-10			ENSG00000196730	ENSG00000196730		"Ankyrin repeat domain containing"	2674	protein-coding gene	gene with protein product		600831				8530096	Standard	XM_005251757		Approved	DAPK	uc004apd.3	P53355	OTTHUMG00000020150	ENST00000408954.3:c.3835T>G	9.37:g.90321821T>G	ENSP00000386135:p.Phe1279Val	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLD2|B7ZLE7|Q14CQ7|Q1W5W0|Q68CP8|Q6ZRZ3|Q9BTL8	Missense_Mutation	SNP	ENST00000408954.3	37	CCDS43842.1	.	.	.	.	.	.	.	.	.	.	T	18.91	3.723375	0.68959	.	.	ENSG00000196730	ENST00000358077;ENST00000472284;ENST00000469640;ENST00000408954;ENST00000491893	T;T;T;T;T	0.63255	0.05;0.05;0.03;0.05;-0.03	5.66	5.66	0.87406	.	0.000000	0.56097	D	0.000040	T	0.77552	0.4147	M	0.66939	2.045	0.80722	D	1	D;D;D	0.76494	0.998;0.999;0.998	D;D;D	0.83275	0.987;0.996;0.987	T	0.77534	-0.2552	10	0.45353	T	0.12	.	16.2026	0.82095	0.0:0.0:0.0:1.0	.	1213;1279;1279	B7ZLE7;P53355-3;P53355	.;.;DAPK1_HUMAN	V	1279;1279;1304;1279;1213	ENSP00000350785:F1279V;ENSP00000417076:F1279V;ENSP00000418885:F1304V;ENSP00000386135:F1279V;ENSP00000419026:F1213V	ENSP00000350785:F1279V	F	+	1	0	DAPK1	89511641	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	7.997000	0.88414	2.285000	0.76669	0.533000	0.62120	TTC		0.567	DAPK1-010	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356843.1	NM_004938		G	90321821	T	G	90321821	3	3	603	1	0	0	0	0	1	0	0	0	4237	1609	56	5	3933	5	DAPK1	9	90321821	Missense_Mutation	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10	63266082	90321821	50891610	57	36311										
SPTAN1	6709	broad.mit.edu	37	chr9	131370209	131370209	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gacagcagctgttggctcacGgacactatgccagccctgag	12	13	1	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr9:131370209G>T	ENST00000372731.4	+	33	4335	c.4225G>T	c.(4225-4227)Gga>Tga	p.G1409*	SPTAN1_ENST00000372739.3_Nonsense_Mutation_p.G1409*|SPTAN1_ENST00000358161.5_Nonsense_Mutation_p.G1409*	NM_001195532.1|NM_003127.3	NP_001182461.1|NP_003118.2	Q13813	SPTN1_HUMAN	spectrin, alpha, non-erythrocytic 1	1409					actin filament capping (GO:0051693)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)	cuticular plate (GO:0032437)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|fascia adherens (GO:0005916)|intracellular membrane-bounded organelle (GO:0043231)|lateral plasma membrane (GO:0016328)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|spectrin (GO:0008091)|vesicle (GO:0031982)|Z disc (GO:0030018)	actin binding (GO:0003779)|calcium ion binding (GO:0005509)|structural constituent of cytoskeleton (GO:0005200)	p.G1409R(1)		NS(2)|breast(8)|cervix(2)|endometrium(6)|kidney(4)|large_intestine(21)|liver(1)|lung(25)|ovary(5)|pancreas(1)|prostate(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	87						GTTGGCTCACGGACACTATGC	0.547																																					NSCLC(120;833 1744 2558 35612 37579)											1	Substitution - Missense(1)	large_intestine(1)											78	74	75					9																	131370209		2203	4300	6503	SO:0001587	stop_gained	6709			M19725	CCDS6905.1, CCDS48036.1, CCDS75914.1	9q34.11	2013-01-10	2012-06-15		ENSG00000197694	ENSG00000197694		"EF-hand domain containing"	11273	protein-coding gene	gene with protein product	"alpha-fodrin"	182810				3336352	Standard	NM_003127		Approved		uc004bvm.4	Q13813	OTTHUMG00000020754	ENST00000372731.4:c.4225G>T	9.37:g.131370209G>T	ENSP00000361816:p.Gly1409*	Somatic		WXS	Illumina HiSeq	Phase_I	Q13186|Q15324|Q16606|Q59EF1|Q5VXV5|Q5VXV6|Q7Z6M5|Q9P0V0	Nonsense_Mutation	SNP	ENST00000372731.4	37	CCDS6905.1	.	.	.	.	.	.	.	.	.	.	G	42	9.687602	0.99238	.	.	ENSG00000197694	ENST00000358161;ENST00000372731;ENST00000372739;ENST00000372719	.	.	.	5.54	4.65	0.58169	.	0.048617	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.66056	D	0.02	.	14.7251	0.69339	0.0699:0.0:0.9301:0.0	.	.	.	.	X	1409;1409;1409;1389	.	ENSP00000350882:G1409X	G	+	1	0	SPTAN1	130410030	1.000000	0.71417	0.996000	0.52242	0.938000	0.57974	6.594000	0.74104	1.488000	0.48433	0.591000	0.81541	GGA		0.547	SPTAN1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054472.1	NM_003127		T	131370209	G	T	131370209	4	4	603	1	0	0	0	0	0	1	0	0	15129	1117	39	4	4351	4	SPTAN1	9	131370209	Nonsense_Mutation	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	41048388	131370209	9843222	58	36312										
ABL1	25	ucsc.edu;bcgsc.ca	37	chr9	133738297	133738297	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	atggtgtgtcccccaactacGacaagtgggagatggaacgc	13	10	0	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr9:133738297G>A	ENST00000318560.5	+	4	1078	c.697G>A	c.(697-699)Gac>Aac	p.D233N		NM_005157.4	NP_005148.2	P00519	ABL1_HUMAN	ABL proto-oncogene 1, non-receptor tyrosine kinase	233					actin cytoskeleton organization (GO:0030036)|autophagy (GO:0006914)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cellular protein modification process (GO:0006464)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to dopamine (GO:1903351)|cellular response to oxidative stress (GO:0034599)|DNA damage induced protein phosphorylation (GO:0006975)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|mismatch repair (GO:0006298)|mitochondrial depolarization (GO:0051882)|mitotic nuclear division (GO:0007067)|muscle cell differentiation (GO:0042692)|negative regulation of phospholipase C activity (GO:1900275)|negative regulation of protein serine/threonine kinase activity (GO:0071901)|negative regulation of ubiquitin-protein transferase activity (GO:0051444)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of oxidoreductase activity (GO:0051353)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|regulation of actin cytoskeleton reorganization (GO:2000249)|regulation of autophagy (GO:0010506)|regulation of cell adhesion (GO:0030155)|regulation of cell motility (GO:2000145)|regulation of endocytosis (GO:0030100)|regulation of response to DNA damage stimulus (GO:2001020)|regulation of transcription, DNA-templated (GO:0006355)|response to oxidative stress (GO:0006979)|signal transduction in response to DNA damage (GO:0042770)	actin cytoskeleton (GO:0015629)|cell leading edge (GO:0031252)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	actin monomer binding (GO:0003785)|ATP binding (GO:0005524)|DNA binding (GO:0003677)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|mitogen-activated protein kinase binding (GO:0051019)|nicotinate-nucleotide adenylyltransferase activity (GO:0004515)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|proline-rich region binding (GO:0070064)|protein C-terminus binding (GO:0008022)|protein kinase activity (GO:0004672)|protein tyrosine kinase activity (GO:0004713)|SH3 domain binding (GO:0017124)|syntaxin binding (GO:0019905)			breast(3)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1149)|kidney(3)|large_intestine(7)|lung(15)|ovary(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	1195		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Bosutinib(DB06616)|Dasatinib(DB01254)|Imatinib(DB00619)|Nilotinib(DB04868)|Ponatinib(DB08901)|Regorafenib(DB08896)	CCCCAACTACGACAAGTGGGA	0.577			"T, Mis"	"BCR, ETV6, NUP214"	"CML, ALL, T-ALL"																																		Dom	yes		9	9q34.1	25	v-abl Abelson murine leukemia viral oncogene homolog 1		L	0													131	104	113					9																	133738297		2203	4300	6503	SO:0001583	missense	25			M14752	CCDS35165.1, CCDS35166.1	9q34.1	2014-09-17	2014-06-26		ENSG00000097007	ENSG00000097007		"SH2 domain containing"	76	protein-coding gene	gene with protein product		189980	"v-abl Abelson murine leukemia viral oncogene homolog 1", "c-abl oncogene 1, receptor tyrosine kinase", "c-abl oncogene 1, non-receptor tyrosine kinase"	ABL		1857987, 12626632	Standard	NM_007313		Approved	JTK7, c-ABL, p150	uc004bzv.3	P00519	OTTHUMG00000020813	ENST00000318560.5:c.697G>A	9.37:g.133738297G>A	ENSP00000323315:p.Asp233Asn	Somatic		WXS	Illumina HiSeq		A3KFJ3|Q13869|Q13870|Q16133|Q17R61|Q45F09	Missense_Mutation	SNP	ENST00000318560.5	37	CCDS35166.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	37|37	5.978409|5.978409	0.97168|0.97168	.|.	.|.	ENSG00000097007|ENSG00000097007	ENST00000372348;ENST00000318560|ENST00000444970	T;T|.	0.62232|.	0.04;0.04|.	6.03|6.03	6.03|6.03	0.97812|0.97812	Protein kinase-like domain (1);SH2 motif (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	D|D	0.85952|0.85952	0.5817|0.5817	M|M	0.90309|0.90309	3.105|3.105	0.80722|0.80722	D|D	1|1	D;D|.	0.89917|.	1.0;1.0|.	D;D|.	0.75484|.	0.986;0.986|.	D|D	0.87424|0.87424	0.2384|0.2384	10|6	0.87932|0.72032	D|D	0|0.01	.|.	19.6124|19.6124	0.95613|0.95613	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	233;270|.	P00519;Q59FK4|.	ABL1_HUMAN;.|.	N|Q	252;233|49	ENSP00000361423:D252N;ENSP00000323315:D233N|.	ENSP00000323315:D233N|ENSP00000400412:R49Q	D|R	+|+	1|2	0|0	ABL1|ABL1	132728118|132728118	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	9.812000|9.812000	0.99227|0.99227	2.880000|2.880000	0.98712|0.98712	0.650000|0.650000	0.86243|0.86243	GAC|CGA		0.577	ABL1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000054684.1	NM_007313		A	133738297	G	A	133738297	3	1	603	1	0	0	0	0	1	0	0	0	92	1058	37	1	851	1	ABL1	9	133738297	Missense_Mutation	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	2368088	133738297	7475134	59	36313										
RAPGEF1	2889	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	134505712	134505712	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	atggtgagcctgaccagctcCtacccccacaagaaaaaggc	9	14	0	3			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr9:134505712C>T	ENST00000372189.3	-	6	724		c.e6-1		RAPGEF1_ENST00000372195.1_Splice_Site|RAPGEF1_ENST00000481260.1_Intron|RAPGEF1_ENST00000372190.3_Splice_Site	NM_005312.2	NP_005303.2	Q13905	RPGF1_HUMAN	Rap guanine nucleotide exchange factor (GEF) 1						activation of MAPKK activity (GO:0000186)|blood vessel development (GO:0001568)|cellular response to cAMP (GO:0071320)|cellular response to nerve growth factor stimulus (GO:1990090)|establishment of endothelial barrier (GO:0061028)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of ERK1 and ERK2 cascade (GO:0070373)|negative regulation of neural precursor cell proliferation (GO:2000178)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of Ras protein signal transduction (GO:0046580)|nerve growth factor signaling pathway (GO:0038180)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of neuron projection development (GO:0010976)|positive regulation of Rap GTPase activity (GO:0032854)|Rap protein signal transduction (GO:0032486)|regulation of cell junction assembly (GO:1901888)|signal transduction (GO:0007165)|single organismal cell-cell adhesion (GO:0016337)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cytosol (GO:0005829)|early endosome (GO:0005769)|endosome (GO:0005768)	Rap guanyl-nucleotide exchange factor activity (GO:0017034)			NS(2)|breast(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|large_intestine(8)|lung(9)|ovary(2)|prostate(4)|skin(1)|urinary_tract(1)	39		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		TGACCAGCTCCTACCCCCACA	0.592																																																0													57	65	62					9																	134505712		2074	4208	6282	SO:0001630	splice_region_variant	2889			BC041710	CCDS48047.1	9q34.3	2008-02-05	2004-03-01	2004-03-02	ENSG00000107263	ENSG00000107263			4568	protein-coding gene	gene with protein product		600303	"guanine nucleotide-releasing factor 2 (specific for crk proto-oncogene)"	GRF2		7959692, 7512734	Standard	NM_005312		Approved	C3G	uc022bos.1	Q13905	OTTHUMG00000020829	ENST00000372189.3:c.601-1G>A	9.37:g.134505712C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JUE4|Q8IV73	Splice_Site	SNP	ENST00000372189.3	37	CCDS48047.1	.	.	.	.	.	.	.	.	.	.	C	20.5	4.006457	0.74932	.	.	ENSG00000107263	ENST00000266110;ENST00000372195;ENST00000429421;ENST00000372189;ENST00000372190;ENST00000411834;ENST00000337036;ENST00000357686	.	.	.	5.45	5.45	0.79879	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.0057	0.80362	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	RAPGEF1	133495533	1.000000	0.71417	0.996000	0.52242	0.758000	0.43043	6.814000	0.75236	2.549000	0.85964	0.655000	0.94253	.		0.592	RAPGEF1-001	KNOWN	non_canonical_U12|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000054759.2	NM_005312	Intron	T	134505712	C	T	134505712	5	4	603	1	0	0	0	0	0	0	1	0	13056	695	24	2	2709	2	RAPGEF1	9	134505712	Splice_Site	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	767415	134505712	6707719	60	36314										
KIN	22944	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	7811178	7811178	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	cacgcaatccataaactgtaCctccatgatttcatccagtg	5	13	1	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr10:7811178C>T	ENST00000379562.4	-	8	846		c.e8+1		KIN_ENST00000535925.1_Splice_Site|KIN_ENST00000463666.1_5'Flank|KIN_ENST00000543003.1_Splice_Site	NM_012311.3	NP_036443.1			Kin17 DNA and RNA binding protein											endometrium(1)|kidney(2)|large_intestine(3)|lung(9)|ovary(1)|pancreas(1)|skin(2)	19						ATAAACTGTACCTCCATGATT	0.343																																																0													99	99	99					10																	7811178		2203	4300	6503	SO:0001630	splice_region_variant	22944			AJ005273	CCDS7080.1	10p15-p14	2014-07-15	2014-07-15		ENSG00000151657	ENSG00000151657			6327	protein-coding gene	gene with protein product		601720	"antigenic determinant of recA protein (mouse) homolog", "KIN, antigenic determinant of recA protein homolog (mouse)"			1923796, 24140279	Standard	NM_012311		Approved	KIN17, Rts2	uc001ijt.3	O60870	OTTHUMG00000017634	ENST00000379562.4:c.798+1G>A	10.37:g.7811178C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Splice_Site	SNP	ENST00000379562.4	37	CCDS7080.1	.	.	.	.	.	.	.	.	.	.	C	20.2	3.955761	0.73902	.	.	ENSG00000151657	ENST00000535925;ENST00000379562;ENST00000543003	.	.	.	5.12	5.12	0.69794	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.75	0.85483	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	KIN	7851184	1.000000	0.71417	0.995000	0.50966	0.891000	0.51852	5.846000	0.69444	2.363000	0.80096	0.650000	0.86243	.		0.343	KIN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046683.2	NM_012311	Intron	T	7811178	C	T	7811178	5	4	603	1	0	0	0	0	0	0	1	0	8322	521	18	2	406	2	KIN	10	7811178	Splice_Site	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10		7811178	127723569	61	36315										
KIAA1217	56243	broad.mit.edu;bcgsc.ca	37	chr10	24834831	24834831	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tacctgcttctaagattccaGccctttctcccagctctggg	7	15	3	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr10:24834831G>A	ENST00000376454.3	+	21	5440	c.5410G>A	c.(5410-5412)Gcc>Acc	p.A1804T	KIAA1217_ENST00000376451.2_3'UTR|KIAA1217_ENST00000376452.3_Missense_Mutation_p.A1235T|KIAA1217_ENST00000396445.1_3'UTR|KIAA1217_ENST00000376462.1_Missense_Mutation_p.A1125T|KIAA1217_ENST00000458595.1_Missense_Mutation_p.A1210T	NM_019590.3	NP_062536.2	Q5T5P2	SKT_HUMAN	KIAA1217	1804	Ser-rich. {ECO:0000255}.				embryonic skeletal system development (GO:0048706)	cytoplasm (GO:0005737)				breast(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(19)|lung(19)|ovary(5)|prostate(3)|skin(3)|urinary_tract(1)	70						TAAGATTCCAGCCCTTTCTCC	0.493																																																0													147	146	147					10																	24834831		2203	4300	6503	SO:0001583	missense	56243			BX640796	CCDS31165.1, CCDS41496.1, CCDS60501.1, CCDS60502.1, CCDS60504.1, CCDS60505.1	10p12.31	2009-09-16			ENSG00000120549	ENSG00000120549			25428	protein-coding gene	gene with protein product	"sickle tail"					10574462	Standard	XM_005252500		Approved	DKFZP761L0424, SKT	uc001iru.4	Q5T5P2	OTTHUMG00000017824	ENST00000376454.3:c.5410G>A	10.37:g.24834831G>A	ENSP00000365637:p.Ala1804Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A5LHW9|A6NLF3|A6PVQ5|A6PVQ6|A6PVQ7|B9EGK4|Q4KMG4|Q5T5P3|Q5T7H3|Q6MZZ6|Q6ZUI4|Q8WV45|Q9NSR2|Q9ULK3	Missense_Mutation	SNP	ENST00000376454.3	37	CCDS31165.1	.	.	.	.	.	.	.	.	.	.	G	25.8	4.675129	0.88445	.	.	ENSG00000120549	ENST00000376462;ENST00000458595;ENST00000376454;ENST00000376452;ENST00000450158	T;T;T;T	0.53640	0.89;0.61;1.05;0.71	5.67	5.67	0.87782	.	0.060496	0.64402	D	0.000004	T	0.66655	0.2811	M	0.63843	1.955	0.33399	D	0.57704	D;D;D;D	0.89917	0.999;0.999;1.0;0.999	D;D;D;D	0.77004	0.952;0.989;0.984;0.952	T	0.67573	-0.5636	10	0.24483	T	0.36	.	19.7685	0.96352	0.0:0.0:1.0:0.0	.	1210;1235;1804;1205	Q5T5P2-7;A6NLF3;Q5T5P2;Q5T5P2-2	.;.;SKT_HUMAN;.	T	1125;1210;1804;1235;1393	ENSP00000365645:A1125T;ENSP00000392625:A1210T;ENSP00000365637:A1804T;ENSP00000365635:A1235T	ENSP00000365635:A1235T	A	+	1	0	KIAA1217	24874837	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.503000	0.81632	2.679000	0.91253	0.650000	0.86243	GCC		0.493	KIAA1217-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000047223.2	NM_019590		A	24834831	G	A	24834831	3	1	603	1	0	0	0	0	1	0	0	0	8223	971	34	2	5492	2	KIAA1217	10	24834831	Missense_Mutation	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	17023653	24834831	110699916	62	36316										
PLCE1	51196	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	96005839	96005839	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tcccttggtacgtgctgtccAtccaagccgatgtgcaccag	10	14	0	0	rs200483837	byFrequency	TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr10:96005839A>G	ENST00000371380.3	+	7	2792	c.2557A>G	c.(2557-2559)Atc>Gtc	p.I853V	PLCE1_ENST00000371375.1_Missense_Mutation_p.I545V|PLCE1_ENST00000260766.3_Missense_Mutation_p.I853V|PLCE1_ENST00000371385.3_Missense_Mutation_p.I545V			Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1	853					activation of MAPK activity (GO:0000187)|calcium-mediated signaling (GO:0019722)|cell proliferation (GO:0008283)|cytoskeleton organization (GO:0007010)|diacylglycerol biosynthetic process (GO:0006651)|epidermal growth factor receptor signaling pathway (GO:0007173)|glomerulus development (GO:0032835)|heart development (GO:0007507)|inositol phosphate metabolic process (GO:0043647)|inositol phosphate-mediated signaling (GO:0048016)|lipid catabolic process (GO:0016042)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|phospholipid metabolic process (GO:0006644)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of GTPase activity (GO:0043547)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|Ras protein signal transduction (GO:0007265)|regulation of cell growth (GO:0001558)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|regulation of protein kinase activity (GO:0045859)|regulation of Ras protein signal transduction (GO:0046578)|regulation of smooth muscle contraction (GO:0006940)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|enzyme binding (GO:0019899)|guanyl-nucleotide exchange factor activity (GO:0005085)|phosphatidylinositol phospholipase C activity (GO:0004435)|phospholipase C activity (GO:0004629)|Ras GTPase binding (GO:0017016)|receptor signaling protein activity (GO:0005057)			liver(1)|ovary(2)|skin(4)|upper_aerodigestive_tract(1)	8		Colorectal(252;0.0458)				CGTGCTGTCCATCCAAGCCGA	0.572																																																0													64	70	68					10																	96005839		2152	4256	6408	SO:0001583	missense	51196				CCDS41552.1, CCDS53555.1	10q23	2010-02-22			ENSG00000138193	ENSG00000138193	3.1.4.11		17175	protein-coding gene	gene with protein product	"nephrosis type 3"	608414				11022047, 11022048	Standard	NM_016341		Approved	KIAA1516, PLCE, NPHS3	uc001kjk.3	Q9P212	OTTHUMG00000018789	ENST00000371380.3:c.2557A>G	10.37:g.96005839A>G	ENSP00000360431:p.Ile853Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGW0|A6NLA1|A7MBN7|A8K1D7|B9EIJ6|Q1X6H8|Q5VWL4|Q5VWL5|Q9H9X8|Q9HBX6|Q9HC53|Q9UHV3	Missense_Mutation	SNP	ENST00000371380.3	37	CCDS41552.1	.	.	.	.	.	.	.	.	.	.	A	13.50	2.254909	0.39896	.	.	ENSG00000138193	ENST00000260766;ENST00000371380;ENST00000371385;ENST00000371375	T;T;T;T	0.35789	1.29;1.29;1.29;1.29	6.04	3.71	0.42584	Ras guanine nucleotide exchange factor, domain (1);	0.297710	0.33712	N	0.004639	T	0.21022	0.0506	N	0.19112	0.55	0.24609	N	0.99373	B;B;B	0.27380	0.177;0.008;0.036	B;B;B	0.24394	0.053;0.023;0.03	T	0.12630	-1.0540	10	0.39692	T	0.17	.	7.7436	0.28856	0.8078:0.0:0.0667:0.1255	.	853;545;853	B7ZM61;Q9P212-2;Q9P212	.;.;PLCE1_HUMAN	V	853;853;545;545	ENSP00000260766:I853V;ENSP00000360431:I853V;ENSP00000360438:I545V;ENSP00000360426:I545V	ENSP00000260766:I853V	I	+	1	0	PLCE1	95995829	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	4.444000	0.60001	1.085000	0.41206	0.477000	0.44152	ATC		0.572	PLCE1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049469.3	NM_016341		G	96005839	A	G	96005839	3	3	603	1	0	0	0	0	1	0	0	0	12041	217	8	3	2869	3	PLCE1	10	96005839	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	71171008	96005839	39528908	63	36317										
HPS1	3257	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	100177417	100177417	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gggatgacagacaggtgcagGgccagcagctcgtagcacct	15	11	0	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr10:100177417G>A	ENST00000325103.6	-	20	2240	c.2007C>T	c.(2005-2007)gcC>gcT	p.A669A	PYROXD2_ENST00000370575.4_5'Flank|HPS1_ENST00000467246.1_5'UTR|HPS1_ENST00000361490.4_Silent_p.A669A	NM_000195.3	NP_000186.2	Q92902	HPS1_HUMAN	Hermansky-Pudlak syndrome 1	669					blood coagulation (GO:0007596)|eye pigmentation (GO:0048069)|lysosome organization (GO:0007040)|melanocyte differentiation (GO:0030318)|positive regulation of natural killer cell activation (GO:0032816)|retina development in camera-type eye (GO:0060041)|secretion of lysosomal enzymes (GO:0033299)|visual perception (GO:0007601)	BLOC-3 complex (GO:0031085)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|integral component of plasma membrane (GO:0005887)|lysosome (GO:0005764)	protein dimerization activity (GO:0046983)			breast(1)|endometrium(1)|kidney(1)|large_intestine(5)|liver(1)|lung(9)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	23		Colorectal(252;0.234)		Epithelial(162;3.87e-12)|all cancers(201;5.63e-10)		ACAGGTGCAGGGCCAGCAGCT	0.662									Hermansky-Pudlak syndrome																																							0													69	62	65					10																	100177417		2203	4300	6503	SO:0001819	synonymous_variant	3257	Familial Cancer Database	HPS, HPS1-8	U79136	CCDS7475.1, CCDS7476.1	10q23.1-q23.3	2014-06-18		2002-05-01	ENSG00000107521	ENSG00000107521			5163	protein-coding gene	gene with protein product		604982	"Hermansky-Pudlak syndrome"	HPS		8541858, 7573033	Standard	NM_182639		Approved		uc021pwv.1	Q92902	OTTHUMG00000018876	ENST00000325103.6:c.2007C>T	10.37:g.100177417G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MRT2|O15402|O15502|Q5TAA3|Q8WXE5	Silent	SNP	ENST00000325103.6	37	CCDS7475.1																																																																																				0.662	HPS1-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049776.1	NM_000195, NM_182637, NM_182638, NM_182639		A	100177417	G	A	100177417	2	1	603	1	0	0	0	0	0	0	0	1	7346	1219	43	2		2	HPS1	10	100177417	Silent	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	4171578	100177417	35357330	64	36318										
ABCC2	1244	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	101559080	101559080	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ctcctgaaatcattcctactGaagctagtgaatgacatctt	6	10	2	4	rs181542662		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr10:101559080G>A	ENST00000370449.4	+	8	1097	c.984G>A	c.(982-984)ctG>ctA	p.L328L		NM_000392.3	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 2	328	ABC transmembrane type-1 1. {ECO:0000255|PROSITE-ProRule:PRU00441}.				cellular chloride ion homeostasis (GO:0030644)|drug transmembrane transport (GO:0006855)|prostaglandin transport (GO:0015732)|response to arsenic-containing substance (GO:0046685)|response to estrogen (GO:0043627)|response to heat (GO:0009408)|response to methotrexate (GO:0031427)|response to oxidative stress (GO:0006979)|thyroid hormone transport (GO:0070327)|transmembrane transport (GO:0055085)|transport (GO:0006810)	apical plasma membrane (GO:0016324)|cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|intercellular canaliculus (GO:0046581)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|organic anion transmembrane transporter activity (GO:0008514)			NS(1)|breast(5)|endometrium(9)|kidney(2)|large_intestine(20)|liver(1)|lung(20)|ovary(2)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	67		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Aminohippurate(DB00345)|Arsenic trioxide(DB01169)|Atorvastatin(DB01076)|Canagliflozin(DB08907)|Carbamazepine(DB00564)|Carboplatin(DB00958)|Cisplatin(DB00515)|Clotrimazole(DB00257)|Conjugated Estrogens(DB00286)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dexamethasone(DB01234)|Docetaxel(DB01248)|Doxorubicin(DB00997)|Eprosartan(DB00876)|Ethinyl Estradiol(DB00977)|Etoposide(DB00773)|Ezetimibe(DB00973)|Furosemide(DB00695)|Fusidic Acid(DB02703)|Gadoxetate(DB08884)|Glutathione(DB00143)|Glyburide(DB01016)|Indinavir(DB00224)|Indomethacin(DB00328)|Irinotecan(DB00762)|Ivermectin(DB00602)|Lamivudine(DB00709)|Leucovorin(DB00650)|Levetiracetam(DB01202)|Lomefloxacin(DB00978)|Lovastatin(DB00227)|Methotrexate(DB00563)|Mycophenolate mofetil(DB00688)|Nifedipine(DB01115)|Norgestimate(DB00957)|Ofloxacin(DB01165)|Olmesartan(DB00275)|Oxaliplatin(DB00526)|Paclitaxel(DB01229)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Pitavastatin(DB08860)|Pranlukast(DB01411)|Pravastatin(DB00175)|Probenecid(DB01032)|Quinidine(DB00908)|Reserpine(DB00206)|Rifampicin(DB01045)|Ritonavir(DB00503)|Saquinavir(DB01232)|Simvastatin(DB00641)|Sorafenib(DB00398)|Sparfloxacin(DB01208)|Spironolactone(DB00421)|Sulfasalazine(DB00795)|Sulfinpyrazone(DB01138)|Sunitinib(DB01268)|Tamoxifen(DB00675)|Telmisartan(DB00966)|Tenofovir(DB00300)|Tetrahydrofolic acid(DB00116)|Ursodeoxycholic acid(DB01586)|Vasopressin(DB00067)|Verapamil(DB00661)|Vinblastine(DB00570)|Vincristine(DB00541)	CATTCCTACTGAAGCTAGTGA	0.463													G|||	1	0.000199681	0.0008	0.0	5008	,	,		18381	0.0		0.0	False		,,,				2504	0.0															0													292	300	297					10																	101559080		2203	4300	6503	SO:0001819	synonymous_variant	1244			U63970	CCDS7484.1	10q24	2012-03-14			ENSG00000023839	ENSG00000023839		"ATP binding cassette transporters / subfamily C"	53	protein-coding gene	gene with protein product		601107	"canalicular multispecific organic anion transporter 1"	CMOAT		8797578, 9284939	Standard	XM_006717630		Approved	DJS, MRP2, cMRP	uc001kqf.2	Q92887	OTTHUMG00000018895	ENST00000370449.4:c.984G>A	10.37:g.101559080G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RMT8|Q14022|Q5T2B1|Q92500|Q92798|Q99663|Q9UMS2	Silent	SNP	ENST00000370449.4	37	CCDS7484.1																																																																																				0.463	ABCC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049825.1	NM_000392		A	101559080	G	A	101559080	2	1	603	1	0	0	0	0	0	0	0	1	53	1277	45	2		2	ABCC2	10	101559080	Silent	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	1381663	101559080	33975667	65	36319										
OAT	4942	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	126100644	126100644	+	Frame_Shift_Del	DEL	T	T	-													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ggttggagggccttggactgTttttttagttgcaacagatg							TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr10:126100644delT	ENST00000368845.5	-	2	189	c.97delA	c.(97-99)acafs	p.T33fs	OAT_ENST00000539214.1_Intron	NM_000274.3	NP_000265.1	P04181	OAT_HUMAN	ornithine aminotransferase	33					cellular amino acid biosynthetic process (GO:0008652)|cellular nitrogen compound metabolic process (GO:0034641)|L-proline biosynthetic process (GO:0055129)|protein hexamerization (GO:0034214)|small molecule metabolic process (GO:0044281)|visual perception (GO:0007601)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	ornithine-oxo-acid transaminase activity (GO:0004587)|pyridoxal phosphate binding (GO:0030170)			endometrium(2)|large_intestine(1)|lung(2)	5		all_lung(145;0.0271)|Lung NSC(174;0.0436)|Colorectal(57;0.102)|all_neural(114;0.116)			L-Ornithine(DB00129)	CCTTGGACTGTTTTTTTAGTT	0.433																																																0													88	81	83					10																	126100644		2203	4300	6503	SO:0001589	frameshift_variant	4942			BC016928	CCDS7639.1, CCDS53586.1	10q26	2014-09-17	2010-01-20		ENSG00000065154	ENSG00000065154	2.6.1.13		8091	protein-coding gene	gene with protein product	"Ornithine aminotransferase", "ornithine aminotransferase precursor", "gyrate atrophy"	613349				1682785	Standard	NM_000274		Approved	HOGA	uc001lhp.3	P04181	OTTHUMG00000019213	ENST00000368845.5:c.97delA	10.37:g.126100644delT	ENSP00000357838:p.Thr33fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRF0|Q16068|Q16069|Q68CS0|Q6IAV9|Q9UD03	Frame_Shift_Del	DEL	ENST00000368845.5	37	CCDS7639.1																																																																																				0.433	OAT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050863.1	NM_000274		-	126100644	T	-	126100644	7	5	603	1	0	1	0	1	0	0	0	0	10810	1725	60	0	1258	0	OAT	10	126100644	Frame_Shift_Del	DEL	T	TCGA-GL-A59T-01A-21D-A28G-10	24541564	126100644	9434103	66	36320										
AP2A2	161	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	985477	985477	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gactgagtgcctggagaccaTcctgaacaaagcccaagaac	10	12	0	4			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr11:985477T>C	ENST00000448903.2	+	8	998	c.857T>C	c.(856-858)aTc>aCc	p.I286T	AP2A2_ENST00000534328.1_Missense_Mutation_p.I286T|AP2A2_ENST00000332231.5_Missense_Mutation_p.I287T	NM_001242837.1|NM_012305.3	NP_001229766.1|NP_036437.1	O94973	AP2A2_HUMAN	adaptor-related protein complex 2, alpha 2 subunit	286					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|axon guidance (GO:0007411)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|intracellular protein transport (GO:0006886)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of defense response to virus by virus (GO:0050690)|synaptic transmission (GO:0007268)|viral process (GO:0016032)	clathrin adaptor complex (GO:0030131)|clathrin-coated endocytic vesicle membrane (GO:0030669)|coated pit (GO:0005905)|cytosol (GO:0005829)|endocytic vesicle membrane (GO:0030666)|plasma membrane (GO:0005886)	lipid binding (GO:0008289)|protein kinase binding (GO:0019901)|protein transporter activity (GO:0008565)			breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(6)|ovary(2)	21		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.75e-24)|BRCA - Breast invasive adenocarcinoma(625;5.73e-05)|Lung(200;0.0696)|LUSC - Lung squamous cell carcinoma(625;0.082)		CTGGAGACCATCCTGAACAAA	0.592																																																0													102	108	106					11																	985477		2101	4232	6333	SO:0001583	missense	161			AB020706	CCDS44512.1, CCDS73234.1	11p15.5	2008-07-18			ENSG00000183020	ENSG00000183020			562	protein-coding gene	gene with protein product	"alpha-adaptin C; Huntingtin interacting protein J", "adaptin, alpha B", "clathrin-associated/assembly/adaptor protein, large, alpha 2"	607242		CLAPA2, ADTAB		9700202, 2564002	Standard	NM_012305		Approved	DKFZP564D1864, HYPJ, KIAA0899, HIP9	uc001lst.2	O94973	OTTHUMG00000165627	ENST00000448903.2:c.857T>C	11.37:g.985477T>C	ENSP00000413234:p.Ile286Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O75403|Q53ET1|Q96SI8	Missense_Mutation	SNP	ENST00000448903.2	37	CCDS44512.1	.	.	.	.	.	.	.	.	.	.	T	23.5	4.425714	0.83667	.	.	ENSG00000183020	ENST00000534328;ENST00000417081;ENST00000448903;ENST00000332231;ENST00000448757;ENST00000329626	T;T;T	0.31510	1.49;1.49;1.49	3.89	3.89	0.44902	Clathrin/coatomer adaptor, adaptin-like, N-terminal (1);Armadillo-like helical (1);Armadillo-type fold (1);	0.062577	0.64402	D	0.000008	T	0.53012	0.1770	M	0.73753	2.245	0.80722	D	1	D;D	0.64830	0.991;0.994	P;D	0.69142	0.874;0.962	T	0.59096	-0.7518	10	0.72032	D	0.01	-38.971	13.0543	0.58971	0.0:0.0:0.0:1.0	.	287;286	O94973-2;O94973	.;AP2A2_HUMAN	T	286;286;286;287;287;159	ENSP00000436059:I286T;ENSP00000413234:I286T;ENSP00000327694:I287T	ENSP00000328024:I159T	I	+	2	0	AP2A2	975477	1.000000	0.71417	0.998000	0.56505	0.980000	0.70556	7.863000	0.87023	1.552000	0.49463	0.533000	0.62120	ATC		0.592	AP2A2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000385431.2	NM_012305		C	985477	T	C	985477	3	2	603	1	0	0	0	0	1	0	0	0	740	1435	50	3	887	3	AP2A2	11	985477	Missense_Mutation	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10		985477	134021039	67	36321										
MUC2	4583	hgsc.bcm.edu;broad.mit.edu	37	chr11	1093292	1093292	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	atcgacacccatcaccaccaCcactacggtgaccccaaccc	4	21	1	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr11:1093292C>T	ENST00000441003.2	+	30	5138	c.5111C>T	c.(5110-5112)aCc>aTc	p.T1704I	MUC2_ENST00000333592.6_5'Flank|MUC2_ENST00000359061.5_Missense_Mutation_p.T1671I|MUC2_ENST00000361558.6_Intron	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	atcaccaccaccactacggtg	0.637																																																0													107	156	138					11																	1093292		1878	3453	5331	SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.5111C>T	11.37:g.1093292C>T	ENSP00000415183:p.Thr1704Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	C	2.150	-0.394632	0.04899	.	.	ENSG00000198788	ENST00000441003;ENST00000359061	T;T	0.11063	2.81;2.84	1.6	-2.66	0.06077	.	2.760050	0.04005	U	0.297091	T	0.06416	0.0165	.	.	.	0.09310	N	1	B	0.09022	0.002	B	0.01281	0.0	T	0.36286	-0.9754	9	0.36615	T	0.2	.	2.477	0.04578	0.4942:0.3128:0.0:0.1931	.	1704	E7EUV1	.	I	1704;1671	ENSP00000415183:T1704I;ENSP00000351956:T1671I	ENSP00000351956:T1671I	T	+	2	0	MUC2	1083292	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	0.330000	0.19715	-0.514000	0.06488	0.184000	0.17185	ACC		0.637	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		T	1093292	C	T	1093292	3	4	603	1	0	0	0	0	1	0	0	0	9982	507	18	2	5229	2	MUC2	11	1093292	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	107815	1093292	133913224	68	36322										
MPEG1	219972	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	58978564	58978564	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gccgggtgaaaggtgggagcCtggcagggggcagggaccct	21	9	0	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr11:58978564C>T	ENST00000361050.3	-	1	1860	c.1775G>A	c.(1774-1776)aGg>aAg	p.R592K		NM_001039396.1	NP_001034485.1	Q2M385	MPEG1_HUMAN	macrophage expressed 1	592						integral component of membrane (GO:0016021)				NS(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(21)|ovary(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	39		all_epithelial(135;0.125)				AGGTGGGAGCCTGGCAGGGGG	0.582																																																0													87	97	93					11																	58978564		1945	4123	6068	SO:0001583	missense	219972			AK097211	CCDS41650.1	11q12.1	2013-07-31				ENSG00000197629			29619	protein-coding gene	gene with protein product	"macrophage expressed gene 1"	610390				7888681, 23257510	Standard	NM_001039396		Approved	MPG1	uc001nnu.4	Q2M385		ENST00000361050.3:c.1775G>A	11.37:g.58978564C>T	ENSP00000354335:p.Arg592Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M1T6|Q8TEF8	Missense_Mutation	SNP	ENST00000361050.3	37	CCDS41650.1	.	.	.	.	.	.	.	.	.	.	C	14.82	2.648686	0.47258	.	.	ENSG00000197629	ENST00000361050	T	0.23147	1.92	5.69	5.69	0.88448	.	0.109255	0.64402	D	0.000015	T	0.42154	0.1190	L	0.61387	1.9	0.34323	D	0.686779	D	0.60575	0.988	P	0.54759	0.76	T	0.52601	-0.8554	10	0.44086	T	0.13	-27.9243	16.7224	0.85413	0.0:1.0:0.0:0.0	.	592	Q2M385	MPEG1_HUMAN	K	592	ENSP00000354335:R592K	ENSP00000354335:R592K	R	-	2	0	MPEG1	58735140	0.678000	0.27586	1.000000	0.80357	0.942000	0.58702	0.292000	0.19011	2.682000	0.91365	0.655000	0.94253	AGG		0.582	MPEG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370027.1	NM_001039396		T	58978564	C	T	58978564	3	4	603	1	0	0	0	0	1	0	0	0	9730	681	24	2	379	2	MPEG1	11	58978564	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	57885272	58978564	76027952	69	36323										
PYGM	5837	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	64517951	64517951	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	cacattggccccgtccatggTgccaatggtcagagccccgt	11	15	1	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr11:64517951T>A	ENST00000164139.3	-	17	2472	c.2074A>T	c.(2074-2076)Acc>Tcc	p.T692S	PYGM_ENST00000377432.3_Missense_Mutation_p.T604S|PYGM_ENST00000462303.1_5'Flank	NM_005609.2	NP_005600.1	P11217	PYGM_HUMAN	phosphorylase, glycogen, muscle	692					carbohydrate metabolic process (GO:0005975)|glucose metabolic process (GO:0006006)|glycogen catabolic process (GO:0005980)|glycogen metabolic process (GO:0005977)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	glycogen phosphorylase activity (GO:0008184)|nucleotide binding (GO:0000166)|pyridoxal phosphate binding (GO:0030170)			cervix(1)|endometrium(2)|kidney(3)|large_intestine(4)|lung(21)|ovary(3)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	38						CCGTCCATGGTGCCAATGGTC	0.567																																																0													167	151	157					11																	64517951		2201	4297	6498	SO:0001583	missense	5837				CCDS8079.1, CCDS53659.1	11q12-q13.2	2013-03-01	2008-07-31		ENSG00000068976	ENSG00000068976	2.4.1.1	"Glycogen phosphorylases"	9726	protein-coding gene	gene with protein product	"McArdle syndrome", "glycogen storage disease type V", "glycogen phosphorylase, muscle form"	608455	"phosphorylase, glycogen; muscle"				Standard	NM_005609		Approved		uc001oax.4	P11217	OTTHUMG00000066835	ENST00000164139.3:c.2074A>T	11.37:g.64517951T>A	ENSP00000164139:p.Thr692Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVK1|A6NDY6	Missense_Mutation	SNP	ENST00000164139.3	37	CCDS8079.1	.	.	.	.	.	.	.	.	.	.	T	28.2	4.903517	0.92035	.	.	ENSG00000068976	ENST00000377432;ENST00000164139;ENST00000540450	D;D	0.95342	-3.68;-3.68	4.91	4.91	0.64330	.	0.000000	0.52532	D	0.000074	D	0.96895	0.8986	M	0.93854	3.465	0.80722	D	1	P;P	0.48407	0.91;0.91	P;P	0.52386	0.697;0.697	D	0.97609	1.0128	10	0.87932	D	0	-39.6172	12.5412	0.56172	0.0:0.0:0.0:1.0	.	604;692	A6NDY6;P11217	.;PYGM_HUMAN	S	604;692;673	ENSP00000366650:T604S;ENSP00000164139:T692S	ENSP00000164139:T692S	T	-	1	0	PYGM	64274527	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.832000	0.86757	2.073000	0.62155	0.454000	0.30748	ACC		0.567	PYGM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000143254.2	NM_005609		A	64517951	T	A	64517951	3	1	603	1	0	0	0	0	1	0	0	0	12875	1696	59	5	470	5	PYGM	11	64517951	Missense_Mutation	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10	5539387	64517951	70488565	70	36324										
NUMA1	4926	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	71733436	71733436	+	Frame_Shift_Del	DEL	G	G	-													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ctgggacttttggagctcatGgtagagtggtataagagcag							TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr11:71733436delG	ENST00000393695.3	-	7	652	c.321delC	c.(319-321)accfs	p.T107fs	NUMA1_ENST00000351960.6_Frame_Shift_Del_p.T107fs|NUMA1_ENST00000358965.6_Frame_Shift_Del_p.T107fs|RP11-849H4.4_ENST00000502284.1_RNA	NM_006185.2	NP_006176.2			nuclear mitotic apparatus protein 1											central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(12)|lung(20)|ovary(5)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	65						TGGAGCTCATGGTAGAGTGGT	0.517			T	RARA	APL																																		Dom	yes		11	11q13	4926	nuclear mitotic apparatus protein 1		L	0													155	158	157					11																	71733436		2200	4293	6493	SO:0001589	frameshift_variant	4926			Z11584	CCDS31633.1, CCDS66156.1	11q13	2008-02-05				ENSG00000137497			8059	protein-coding gene	gene with protein product		164009				8406455	Standard	NM_006185		Approved		uc001orl.1	Q14980		ENST00000393695.3:c.321delC	11.37:g.71733436delG	ENSP00000377298:p.Thr107fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000393695.3	37	CCDS31633.1																																																																																				0.517	NUMA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395769.1			-	71733436	G	-	71733436	7	5	603	1	0	1	0	1	0	0	0	0	10757	1335	47	0	6110	0	NUMA1	11	71733436	Frame_Shift_Del	DEL	G	TCGA-GL-A59T-01A-21D-A28G-10	7215485	71733436	63273080	71	36325										
CHCHD8	51287	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	73584202	73584202	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tcttgcctcctctgcagctcCtcttgccgcctcgcctgctg	8	19	3	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr11:73584202C>A	ENST00000355693.4	-	2	469	c.222G>T	c.(220-222)gaG>gaT	p.E74D	COA4_ENST00000545127.1_Missense_Mutation_p.E74D|COA4_ENST00000541455.1_Missense_Mutation_p.E83D|COA4_ENST00000537581.1_5'Flank|COA4_ENST00000537289.1_Missense_Mutation_p.E74D	NM_016565.2	NP_057649.2	Q9NYJ1	COA4_HUMAN	cytochrome c oxidase assembly factor 4 homolog (S. cerevisiae)	74						mitochondrion (GO:0005739)											TCTGCAGCTCCTCTTGCCGCC	0.612																																																0													108	81	90					11																	73584202		2200	4293	6493	SO:0001583	missense	51287			AF242180	CCDS8225.1	11q13.4	2013-10-18	2012-10-15	2012-10-15		ENSG00000181924		"Coiled-coil-helix-coiled-coil-helix domain containing", "Mitochondrial respiratory chain complex assembly factors"	24604	protein-coding gene	gene with protein product		608016	"coiled-coil-helix-coiled-coil-helix domain containing 8"	CHCHD8		11085516, 20624914	Standard	NM_016565		Approved	E2IG2, CMC3	uc001ouj.3	Q9NYJ1		ENST00000355693.4:c.222G>T	11.37:g.73584202C>A	ENSP00000347919:p.Glu74Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAA0|Q69YU4	Missense_Mutation	SNP	ENST00000355693.4	37	CCDS8225.1	.	.	.	.	.	.	.	.	.	.	C	16.99	3.273202	0.59649	.	.	ENSG00000181924	ENST00000355693;ENST00000545127;ENST00000541455;ENST00000537289	.	.	.	6.02	2.73	0.32206	.	0.000000	0.85682	D	0.000000	T	0.34048	0.0884	.	.	.	0.33160	D	0.546821	P	0.39665	0.682	B	0.34038	0.174	T	0.50890	-0.8774	8	0.59425	D	0.04	-24.9482	8.1718	0.31260	0.0:0.6617:0.0:0.3383	.	74	Q9NYJ1	CHCH8_HUMAN	D	74;74;83;74	.	ENSP00000347919:E74D	E	-	3	2	CHCHD8	73261850	0.857000	0.29778	0.996000	0.52242	0.388000	0.30384	0.299000	0.19138	0.879000	0.35944	0.655000	0.94253	GAG		0.612	COA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397878.1	NM_016565		A	73584202	C	A	73584202	3	1	603	1	0	0	0	0	1	0	0	0	3324	680	24	4	45	4	CHCHD8	11	73584202	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	1850766	73584202	61422314	72	36326										
PRCP	5547	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	82560214	82560214	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tggatgtcctgagaagttaaTgggctgcataagtgaagggc	15	5	0	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr11:82560214T>C	ENST00000313010.3	-	6	992	c.798A>G	c.(796-798)ccA>ccG	p.P266P	PRCP_ENST00000393399.2_Silent_p.P287P|PRCP_ENST00000535099.1_Silent_p.P161P	NM_005040.2	NP_005031.1	P42785	PCP_HUMAN	prolylcarboxypeptidase (angiotensinase C)	266	SKS domain.				angiogenesis involved in wound healing (GO:0060055)|blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|energy homeostasis (GO:0097009)|glucose homeostasis (GO:0042593)|negative regulation of systemic arterial blood pressure (GO:0003085)|plasma kallikrein-kinin cascade (GO:0002353)|regulation of blood vessel endothelial cell migration (GO:0043535)|regulation of reactive oxygen species metabolic process (GO:2000377)|regulation of thyroid hormone mediated signaling pathway (GO:0002155)	basal part of cell (GO:0045178)|extracellular vesicular exosome (GO:0070062)|lysosome (GO:0005764)|plasma membrane (GO:0005886)	serine-type carboxypeptidase activity (GO:0004185)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(7)|prostate(1)|skin(2)|urinary_tract(1)	17						GAGAAGTTAATGGGCTGCATA	0.443																																																0													115	108	110					11																	82560214		2203	4300	6503	SO:0001819	synonymous_variant	5547			BC001500, BI827978, L13977	CCDS8262.1, CCDS41695.1	11q14	2005-10-04				ENSG00000137509			9344	protein-coding gene	gene with protein product		176785				8344943	Standard	NM_199418		Approved	PCP, HUMPCP	uc001ozr.3	P42785		ENST00000313010.3:c.798A>G	11.37:g.82560214T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8MU24|B2R7B7|B3KRK5|B5BU34	Silent	SNP	ENST00000313010.3	37	CCDS8262.1																																																																																				0.443	PRCP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391792.1	NM_005040		C	82560214	T	C	82560214	2	2	603	1	0	0	0	0	0	0	0	1	12459	1451	51	3		3	PRCP	11	82560214	Silent	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10	8976012	82560214	52446302	73	36327										
DDX10	1662	hgsc.bcm.edu	37	chr11	108559718	108559718	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gtgagctgcagcaaaaaataAgtgtgctgtattcctttttg	10	6	0	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr11:108559718A>G	ENST00000322536.3	+	7	1033	c.904A>G	c.(904-906)Agt>Ggt	p.S302G	DDX10_ENST00000526794.1_Missense_Mutation_p.S302G	NM_004398.2	NP_004389.2	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	302	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				metabolic process (GO:0008152)		ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|poly(A) RNA binding (GO:0044822)|RNA helicase activity (GO:0003724)			breast(2)|endometrium(5)|kidney(2)|large_intestine(4)|lung(11)|pancreas(1)|prostate(2)	27		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		GCAAAAAATAAGTGTGCTGTA	0.373			T	NUP98	AML*																																		Dom	yes		11	11q22-q23	1662	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10		L	0													194	193	193					11																	108559718		2201	4298	6499	SO:0001583	missense	1662			U28042	CCDS8342.1	11q22-q23	2005-10-11	2003-06-13		ENSG00000178105	ENSG00000178105		"DEAD-boxes"	2735	protein-coding gene	gene with protein product		601235	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 10 (RNA helicase)"			8660968	Standard	NM_004398		Approved	HRH-J8	uc001pkm.3	Q13206	OTTHUMG00000166540	ENST00000322536.3:c.904A>G	11.37:g.108559718A>G	ENSP00000314348:p.Ser302Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCQ3|Q5BJD8	Missense_Mutation	SNP	ENST00000322536.3	37	CCDS8342.1	.	.	.	.	.	.	.	.	.	.	A	8.380	0.837213	0.16891	.	.	ENSG00000178105	ENST00000322536;ENST00000456020;ENST00000526794	T;T	0.04809	3.55;3.55	5.61	5.61	0.85477	Helicase, C-terminal (1);	0.171976	0.64402	D	0.000008	T	0.04092	0.0114	N	0.16130	0.375	0.30844	N	0.735378	B;B	0.20887	0.049;0.049	B;B	0.16722	0.016;0.016	T	0.20505	-1.0273	10	0.27082	T	0.32	-11.3262	15.8096	0.78547	1.0:0.0:0.0:0.0	.	302;302	Q13206;E9PIF2	DDX10_HUMAN;.	G	302;208;302	ENSP00000314348:S302G;ENSP00000432032:S302G	ENSP00000314348:S302G	S	+	1	0	DDX10	108064928	1.000000	0.71417	1.000000	0.80357	0.015000	0.08874	6.272000	0.72575	2.132000	0.65825	0.533000	0.62120	AGT		0.373	DDX10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390343.1	NM_004398		G	108559718	A	G	108559718	3	3	603	1	0	0	0	0	1	0	0	0	4344	72	3	3	930	3	DDX10	11	108559718	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	25999504	108559718	26446798	74	36328										
SLC37A4	51399	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	118895661	118895661	+	IGR	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tcggcccatcttggtgcggaTgtttcgtaggaggaagaagg	16	7	1	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr11:118895661T>C	ENST00000533632.1	+	0	1759				SLC37A4_ENST00000525102.1_5'UTR|SLC37A4_ENST00000330775.7_Missense_Mutation_p.I438V|SLC37A4_ENST00000538950.1_Missense_Mutation_p.I344V|SLC37A4_ENST00000357590.5_Missense_Mutation_p.I439V|SLC37A4_ENST00000545985.1_Missense_Mutation_p.I417V|TRAPPC4_ENST00000533058.1_Missense_Mutation_p.C226R	NM_016146.4	NP_057230.1	Q9Y296	TPPC4_HUMAN	trafficking protein particle complex 4						dendrite development (GO:0016358)|ER to Golgi vesicle-mediated transport (GO:0006888)|extracellular matrix organization (GO:0030198)	cis-Golgi network (GO:0005801)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi stack (GO:0005795)|synapse (GO:0045202)|synaptic vesicle (GO:0008021)|TRAPP complex (GO:0030008)				NS(1)|endometrium(1)|large_intestine(2)|lung(1)	5	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_neural(223;0.224)|all_hematologic(192;0.243)		BRCA - Breast invasive adenocarcinoma(274;7.58e-05)		TTGGTGCGGATGTTTCGTAGG	0.597																																																0													43	51	48					11																	118895661		2020	4175	6195	SO:0001628	intergenic_variant	2542			AF078862	CCDS8407.1	11q23.3	2011-10-10				ENSG00000196655		"Trafficking protein particle complex"	19943	protein-coding gene	gene with protein product		610971				10810093	Standard	NM_016146		Approved	TRS23, SBDN, PTD009	uc010ryo.2	Q9Y296			11.37:g.118895661T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K3A5|B4DME1	Missense_Mutation	SNP	ENST00000533632.1	37	CCDS8407.1	.	.	.	.	.	.	.	.	.	.	T	14.52	2.560807	0.45590	.	.	ENSG00000196655	ENST00000533058	T	0.50001	0.76	5.27	5.27	0.74061	.	.	.	.	.	T	0.52370	0.1730	L	0.36672	1.1	0.50171	D	0.999855	.	.	.	.	.	.	T	0.56147	-0.8027	7	0.87932	D	0	-22.4876	15.3661	0.74523	0.0:0.0:0.0:1.0	.	.	.	.	R	226	ENSP00000432920:C226R	ENSP00000432920:C226R	C	+	1	0	TRAPPC4	118400871	1.000000	0.71417	1.000000	0.80357	0.906000	0.53458	7.309000	0.78937	2.226000	0.72624	0.459000	0.35465	TGT		0.597	TRAPPC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389332.1	NM_016146		C	118895661	T	C	118895661	1	2	603	0	1	0	0	0	0	0	0	0	14613	1464	51	3		3	SLC37A4	11	118895661	IGR	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10	10335943	118895661	16110855	75	36329										
NCAPD2	9918	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	6637492	6637492	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tggactcctcatctgtatgcTcggtaagagacccctcacaa	8	13	3	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr12:6637492T>C	ENST00000315579.5	+	25	4096	c.3297T>C	c.(3295-3297)gcT>gcC	p.A1099A	NCAPD2_ENST00000545962.1_Silent_p.A1054A	NM_014865.3	NP_055680.3	Q15021	CND1_HUMAN	non-SMC condensin I complex, subunit D2	1099					mitotic cell cycle (GO:0000278)|mitotic chromosome condensation (GO:0007076)	condensed chromosome (GO:0000793)|condensin complex (GO:0000796)|condensin core heterodimer (GO:0000797)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)|pronucleus (GO:0045120)	histone binding (GO:0042393)			NS(1)|breast(4)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(5)|large_intestine(7)|lung(15)|ovary(2)|skin(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	48						ATCTGTATGCTCGGTAAGAGA	0.577																																																0													139	143	142					12																	6637492		2203	4300	6503	SO:0001819	synonymous_variant	9918			D63880	CCDS8548.1	12p13.31	2008-02-04			ENSG00000010292	ENSG00000010292			24305	protein-coding gene	gene with protein product	"chromosome condensation related SMC associated protein 1"	615638				8590280, 10958694	Standard	NM_014865		Approved	CNAP1, hCAP-D2, CAP-D2, KIAA0159	uc001qoo.2	Q15021	OTTHUMG00000168513	ENST00000315579.5:c.3297T>C	12.37:g.6637492T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DUR4|Q8N6U3	Silent	SNP	ENST00000315579.5	37	CCDS8548.1																																																																																				0.577	NCAPD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399964.1	NM_014865		C	6637492	T	C	6637492	2	2	603	1	0	0	0	0	0	0	0	1	10212	1538	54	3		3	NCAPD2	12	6637492	Silent	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10		6637492	127214403	76	36330										
LARP4	113251	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	50847398	50847398	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	caccaacagtactcggtctaTagtattgtgcctcagtcttg	8	11	3	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr12:50847398T>C	ENST00000398473.2	+	9	1072	c.960T>C	c.(958-960)taT>taC	p.Y320Y	LARP4_ENST00000518444.1_Silent_p.Y319Y|LARP4_ENST00000347328.5_Intron|LARP4_ENST00000518561.1_Silent_p.Y250Y|LARP4_ENST00000429001.3_Silent_p.Y326Y|LARP4_ENST00000522085.1_Silent_p.Y320Y|LARP4_ENST00000293618.8_Silent_p.Y320Y	NM_052879.4|NM_199188.2	NP_443111.4|NP_954658.2	Q71RC2	LARP4_HUMAN	La ribonucleoprotein domain family, member 4	320					cytoskeleton organization (GO:0007010)|regulation of cell morphogenesis (GO:0022604)	membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)			breast(3)|endometrium(3)|kidney(2)|large_intestine(2)|liver(2)|lung(7)|ovary(1)|skin(2)|urinary_tract(1)	23						ACTCGGTCTATAGTATTGTGC	0.373																																																0													208	181	190					12																	50847398		1906	4126	6032	SO:0001819	synonymous_variant	113251			AY004310	CCDS41782.1, CCDS44879.1, CCDS44880.1, CCDS44879.2, CCDS53789.1, CCDS53790.1	12q13.12	2005-08-09			ENSG00000161813	ENSG00000161813		"La ribonucleoprotein domain containing"	24320	protein-coding gene	gene with protein product						12477932	Standard	NM_052879		Approved	PP13296	uc001rwp.2	Q71RC2	OTTHUMG00000163724	ENST00000398473.2:c.960T>C	12.37:g.50847398T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6T1|E9PDG5|G3XAA8|G5E976|Q5CZ97|Q6ZV14|Q96NF9	Silent	SNP	ENST00000398473.2	37	CCDS41782.1																																																																																				0.373	LARP4-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000374981.1	NM_052879		C	50847398	T	C	50847398	2	2	603	1	0	0	0	0	0	0	0	1	8637	1413	49	3		3	LARP4	12	50847398	Silent	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10	44209906	50847398	83004497	77	36331										
NPFF	8620	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	53900627	53900627	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	aattcagcccctctccagccCggggactcagccattcattc	7	17	4	0	rs199569723		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr12:53900627C>T	ENST00000267017.3	-	3	438	c.275G>A	c.(274-276)cGg>cAg	p.R92Q	RP11-793H13.10_ENST00000591834.1_3'UTR|NPFF_ENST00000609999.1_Missense_Mutation_p.R95Q	NM_003717.2	NP_003708.1	O15130	NPFF_HUMAN	neuropeptide FF-amide peptide precursor	92					acute inflammatory response to antigenic stimulus (GO:0002438)|maternal process involved in female pregnancy (GO:0060135)|negative regulation of appetite (GO:0032099)|negative regulation of heart rate (GO:0010459)|negative regulation of insulin secretion (GO:0046676)|neuropeptide signaling pathway (GO:0007218)|positive regulation of blood pressure (GO:0045777)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of membrane depolarization (GO:0003254)|regulation of sensory perception of pain (GO:0051930)|response to drug (GO:0042493)|response to morphine (GO:0043278)|somatostatin secretion (GO:0070253)|spinal cord development (GO:0021510)|synaptic transmission (GO:0007268)|vasopressin secretion (GO:0030103)	axon terminus (GO:0043679)|dendrite (GO:0030425)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|perikaryon (GO:0043204)|vesicle (GO:0031982)	receptor binding (GO:0005102)			haematopoietic_and_lymphoid_tissue(1)|prostate(1)|urinary_tract(1)	3						CTCTCCAGCCCGGGGACTCAG	0.552																																																0													111	114	113					12																	53900627		2203	4300	6503	SO:0001583	missense	8620			AF005271	CCDS8862.1	12q13.13	2013-02-26			ENSG00000139574	ENSG00000139574		"Endogenous ligands"	7901	protein-coding gene	gene with protein product		604643				9224703	Standard	NM_003717		Approved	FMRFAL	uc001sdw.1	O15130	OTTHUMG00000169856	ENST00000267017.3:c.275G>A	12.37:g.53900627C>T	ENSP00000267017:p.Arg92Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q3SXL4	Missense_Mutation	SNP	ENST00000267017.3	37	CCDS8862.1	.	.	.	.	.	.	.	.	.	.	C	10.28	1.306772	0.23821	.	.	ENSG00000139574	ENST00000267017	T	0.54279	0.58	4.52	-1.46	0.08800	.	0.173981	0.36555	N	0.002528	T	0.36441	0.0967	L	0.49126	1.545	0.09310	N	1	B	0.23490	0.086	B	0.17722	0.019	T	0.13737	-1.0498	10	0.38643	T	0.18	-7.5784	3.979	0.09487	0.3493:0.371:0.0:0.2797	.	92	O15130	NPFF_HUMAN	Q	92	ENSP00000267017:R92Q	ENSP00000267017:R92Q	R	-	2	0	NPFF	52186894	0.048000	0.20356	0.008000	0.14137	0.980000	0.70556	0.139000	0.16036	-0.071000	0.12886	0.491000	0.48974	CGG		0.552	NPFF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406301.1	NM_003717		T	53900627	C	T	53900627	3	4	603	1	0	0	0	0	1	0	0	0	10583	652	23	1	70	1	NPFF	12	53900627	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	3053229	53900627	79951268	78	36332										
CEP290	80184	broad.mit.edu;bcgsc.ca	37	chr12	88474150	88474150	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	cgcttttacttttttcacttCatcttcatggttttcttgaa	4	9	5	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr12:88474150C>T	ENST00000552810.1	-	38	5378	c.5035G>A	c.(5035-5037)Gaa>Aaa	p.E1679K	CEP290_ENST00000397838.3_Missense_Mutation_p.E739K|CEP290_ENST00000547691.2_Missense_Mutation_p.E739K|CEP290_ENST00000309041.7_Missense_Mutation_p.E1681K	NM_025114.3	NP_079390.3	O15078	CE290_HUMAN	centrosomal protein 290kDa	1679					cilium assembly (GO:0042384)|cilium morphogenesis (GO:0060271)|establishment or maintenance of cell polarity (GO:0007163)|eye photoreceptor cell development (GO:0042462)|G2/M transition of mitotic cell cycle (GO:0000086)|hindbrain development (GO:0030902)|mitotic cell cycle (GO:0000278)|otic vesicle formation (GO:0030916)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of transcription, DNA-templated (GO:0045893)|pronephros development (GO:0048793)|protein transport (GO:0015031)|regulation of cAMP metabolic process (GO:0030814)|regulation of establishment of protein localization (GO:0070201)|retina development in camera-type eye (GO:0060041)	centriolar satellite (GO:0034451)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)|photoreceptor connecting cilium (GO:0032391)|protein complex (GO:0043234)|TCTN-B9D complex (GO:0036038)				breast(4)|central_nervous_system(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(20)|liver(1)|lung(18)|ovary(5)|pancreas(1)|prostate(2)|stomach(1)|upper_aerodigestive_tract(1)	73						TTTTTCACTTCATCTTCATGG	0.348																																																0													125	111	115					12																	88474150		1818	4077	5895	SO:0001583	missense	80184			AB002371	CCDS55858.1	12q21.33	2014-09-17				ENSG00000198707			29021	protein-coding gene	gene with protein product	"Joubert syndrome 5", "nephrocystin-6", "cancer/testis antigen 87", "POC3 centriolar protein homolog (Chlamydomonas)", "Meckel syndrome, type 4"	610142				15474516, 16682973, 16632484	Standard	NM_025114		Approved	KIAA0373, FLJ13615, 3H11Ag, rd16, NPHP6, JBTS5, SLSN6, LCA10, MKS4, BBS14, CT87, POC3	uc001tar.3	O15078		ENST00000552810.1:c.5035G>A	12.37:g.88474150C>T	ENSP00000448012:p.Glu1679Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q1PSK5|Q66GS8|Q9H2G6|Q9H6Q7|Q9H8I0	Missense_Mutation	SNP	ENST00000552810.1	37	CCDS55858.1	.	.	.	.	.	.	.	.	.	.	C	13.45	2.241191	0.39598	.	.	ENSG00000198707	ENST00000547691;ENST00000552810;ENST00000309041;ENST00000397838	D;D;D;D	0.91894	-2.93;-2.93;-2.93;-2.93	4.53	4.53	0.55603	.	0.238715	0.41938	D	0.000800	D	0.88058	0.6335	L	0.29908	0.895	0.44635	D	0.997619	B	0.34399	0.452	B	0.36567	0.228	D	0.86549	0.1833	10	0.30078	T	0.28	.	17.6111	0.88053	0.0:1.0:0.0:0.0	.	1679	O15078	CE290_HUMAN	K	739;1679;1681;739	ENSP00000446905:E739K;ENSP00000448012:E1679K;ENSP00000308021:E1681K;ENSP00000380938:E739K	ENSP00000308021:E1681K	E	-	1	0	CEP290	86998281	1.000000	0.71417	0.921000	0.36526	0.187000	0.23431	5.327000	0.65881	2.226000	0.72624	0.460000	0.39030	GAA		0.348	CEP290-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000406344.1	NM_025114		T	88474150	C	T	88474150	3	4	603	1	0	0	0	0	1	0	0	0	3255	835	29	2	2472	2	CEP290	12	88474150	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	34573523	88474150	45377745	79	36333										
CEP290	80184	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr12	88514780	88514780	+	Nonsense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ataaaaatacataccgattcAtaatcttttaacctcttcag	2	9	4	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr12:88514780A>C	ENST00000552810.1	-	14	1696	c.1353T>G	c.(1351-1353)taT>taG	p.Y451*	CEP290_ENST00000397838.3_5'UTR|CEP290_ENST00000309041.7_Nonsense_Mutation_p.Y451*	NM_025114.3	NP_079390.3	O15078	CE290_HUMAN	centrosomal protein 290kDa	451					cilium assembly (GO:0042384)|cilium morphogenesis (GO:0060271)|establishment or maintenance of cell polarity (GO:0007163)|eye photoreceptor cell development (GO:0042462)|G2/M transition of mitotic cell cycle (GO:0000086)|hindbrain development (GO:0030902)|mitotic cell cycle (GO:0000278)|otic vesicle formation (GO:0030916)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of transcription, DNA-templated (GO:0045893)|pronephros development (GO:0048793)|protein transport (GO:0015031)|regulation of cAMP metabolic process (GO:0030814)|regulation of establishment of protein localization (GO:0070201)|retina development in camera-type eye (GO:0060041)	centriolar satellite (GO:0034451)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)|photoreceptor connecting cilium (GO:0032391)|protein complex (GO:0043234)|TCTN-B9D complex (GO:0036038)				breast(4)|central_nervous_system(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(20)|liver(1)|lung(18)|ovary(5)|pancreas(1)|prostate(2)|stomach(1)|upper_aerodigestive_tract(1)	73						ATACCGATTCATAATCTTTTA	0.363																																																0													89	86	87					12																	88514780		1837	4077	5914	SO:0001587	stop_gained	80184			AB002371	CCDS55858.1	12q21.33	2014-09-17				ENSG00000198707			29021	protein-coding gene	gene with protein product	"Joubert syndrome 5", "nephrocystin-6", "cancer/testis antigen 87", "POC3 centriolar protein homolog (Chlamydomonas)", "Meckel syndrome, type 4"	610142				15474516, 16682973, 16632484	Standard	NM_025114		Approved	KIAA0373, FLJ13615, 3H11Ag, rd16, NPHP6, JBTS5, SLSN6, LCA10, MKS4, BBS14, CT87, POC3	uc001tar.3	O15078		ENST00000552810.1:c.1353T>G	12.37:g.88514780A>C	ENSP00000448012:p.Tyr451*	Somatic		WXS	Illumina HiSeq	Phase_I	Q1PSK5|Q66GS8|Q9H2G6|Q9H6Q7|Q9H8I0	Nonsense_Mutation	SNP	ENST00000552810.1	37	CCDS55858.1	.	.	.	.	.	.	.	.	.	.	A	41	8.542306	0.98857	.	.	ENSG00000198707	ENST00000552810;ENST00000309041;ENST00000536998;ENST00000545139	.	.	.	5.61	4.42	0.53409	.	0.147782	0.46758	D	0.000264	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.06625	T	0.88	.	5.4776	0.16704	0.7324:0.0:0.1371:0.1305	.	.	.	.	X	451;451;451;353	.	ENSP00000308021:Y451X	Y	-	3	2	CEP290	87038911	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.199000	0.58426	2.137000	0.66172	0.482000	0.46254	TAT		0.363	CEP290-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000406344.1	NM_025114		C	88514780	A	C	88514780	4	2	603	1	0	0	0	0	0	1	0	0	3255	224	8	5	6250	5	CEP290	12	88514780	Nonsense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	40630	88514780	45337115	80	36334										
ANKS1B	56899	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	99640158	99640158	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	actcttgatgttttctcattGgaaggataggcaatgagatc	10	6	2	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr12:99640158G>A	ENST00000547776.2	-	13	2240	c.2241C>T	c.(2239-2241)tcC>tcT	p.S747S	ANKS1B_ENST00000329257.7_Silent_p.S747S|ANKS1B_ENST00000547010.1_Silent_p.S327S|ANKS1B_ENST00000550833.1_5'Flank	NM_152788.4	NP_690001.3	Q7Z6G8	ANS1B_HUMAN	ankyrin repeat and sterile alpha motif domain containing 1B	747						cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|postsynaptic membrane (GO:0045211)	ephrin receptor binding (GO:0046875)			NS(1)|breast(1)|cervix(1)|endometrium(4)|kidney(6)|large_intestine(15)|lung(38)|pancreas(1)|prostate(2)|skin(1)	70		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)		TTTTCTCATTGGAAGGATAGG	0.413																																																0													92	87	89					12																	99640158		1912	4102	6014	SO:0001819	synonymous_variant	56899			AF145204	CCDS55864.1, CCDS55865.1, CCDS55866.1, CCDS55867.1, CCDS55868.1, CCDS55869.1, CCDS55870.1, CCDS55871.1, CCDS55872.1	12q23.1	2013-01-10						"Sterile alpha motif (SAM) domain containing", "Ankyrin repeat domain containing"	24600	protein-coding gene	gene with protein product		607815				10490826, 12415113	Standard	NM_020140		Approved	EB-1, AIDA-1, cajalin-2, ANKS2	uc001tge.2	Q7Z6G8		ENST00000547776.2:c.2241C>T	12.37:g.99640158G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A5PKY5|A7E259|A8K153|A8MSN4|B4DFP6|B4DH98|F8VPM3|F8VZR9|F8WC27|Q5XLJ0|Q6IVB5|Q6NUS4|Q7Z6G6|Q7Z6G7|Q8TAP3|Q9NRX7|Q9Y5K9	Silent	SNP	ENST00000547776.2	37	CCDS55872.1	.	.	.	.	.	.	.	.	.	.	G	7.433	0.639208	0.14386	.	.	ENSG00000185046	ENST00000550778	.	.	.	5.21	-7.15	0.01521	.	.	.	.	.	T	0.38401	0.1039	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.45977	-0.9224	4	.	.	.	-6.1946	3.8547	0.08970	0.0906:0.3375:0.3258:0.2461	.	.	.	.	L	19	.	.	P	-	2	0	ANKS1B	98164289	0.194000	0.23325	0.127000	0.21898	0.969000	0.65631	-1.051000	0.03507	-0.833000	0.04245	0.462000	0.41574	CCA		0.413	ANKS1B-003	KNOWN	basic|appris_candidate_longest|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000408421.3	NM_020140		A	99640158	G	A	99640158	2	1	603	1	0	0	0	0	0	0	0	1	689	1335	47	2		2	ANKS1B	12	99640158	Silent	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	11125378	99640158	34211737	81	36335										
CCDC64	92558	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	120428098	120428098	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	aaggagctgacagacaagctCgaggtgaggacctccctcca	12	12	0	3			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr12:120428098C>T	ENST00000397558.2	+	1	426	c.426C>T	c.(424-426)ctC>ctT	p.L142L		NM_207311.2	NP_997194.2	Q6ZP65	BICR1_HUMAN	coiled-coil domain containing 64	142					Golgi to secretory granule transport (GO:0055107)|neuron projection development (GO:0031175)	centrosome (GO:0005813)|cytoplasm (GO:0005737)	dynactin binding (GO:0034452)|Rab GTPase binding (GO:0017137)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|liver(2)|lung(4)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	22	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CAGACAAGCTCGAGGTGAGGA	0.657																																																0													8	9	9					12																	120428098		2031	4193	6224	SO:0001819	synonymous_variant	92558			U88834, AK129960	CCDS41845.1	12q24.23	2006-01-24				ENSG00000135127			28095	protein-coding gene	gene with protein product							Standard	NM_207311		Approved	FLJ26450	uc001txl.1	Q6ZP65	OTTHUMG00000169311	ENST00000397558.2:c.426C>T	12.37:g.120428098C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MUC8|B4DWL0|B5MDJ0|O95000	Silent	SNP	ENST00000397558.2	37	CCDS41845.1																																																																																				0.657	CCDC64-001	NOVEL	not_organism_supported|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000403390.2	NM_207311		T	120428098	C	T	120428098	2	4	603	1	0	0	0	0	0	0	0	1	2837	871	31	1		1	CCDC64	12	120428098	Silent	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	20787940	120428098	13423797	82	36336										
GPC6	10082	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	94938687	94938687	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gatagatgtcaagatttctgAagccattatgaacatgcaag	9	6	2	4			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr13:94938687A>C	ENST00000377047.4	+	5	1577	c.962A>C	c.(961-963)gAa>gCa	p.E321A		NM_005708.3	NP_005699.1	Q9Y625	GPC6_HUMAN	glypican 6	321					carbohydrate metabolic process (GO:0005975)|cell migration (GO:0016477)|chondroitin sulfate metabolic process (GO:0030204)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|phototransduction, visible light (GO:0007603)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)	anchored component of membrane (GO:0031225)|Golgi lumen (GO:0005796)|integral component of plasma membrane (GO:0005887)|lysosomal lumen (GO:0043202)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|proteinaceous extracellular matrix (GO:0005578)				NS(1)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(13)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	38	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				AAGATTTCTGAAGCCATTATG	0.423																																																0													100	91	94					13																	94938687		2203	4300	6503	SO:0001583	missense	10082			AF111178	CCDS9469.1	13q32	2008-02-05			ENSG00000183098	ENSG00000183098		"Proteoglycans / Cell Surface : Glypicans"	4454	protein-coding gene	gene with protein product	"glypican proteoglycan 6"	604404				10329016	Standard	NM_005708		Approved		uc001vlt.3	Q9Y625	OTTHUMG00000017205	ENST00000377047.4:c.962A>C	13.37:g.94938687A>C	ENSP00000366246:p.Glu321Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K279|Q96SG5|Q96SG8|Q9H1P4	Missense_Mutation	SNP	ENST00000377047.4	37	CCDS9469.1	.	.	.	.	.	.	.	.	.	.	A	25.9	4.684752	0.88639	.	.	ENSG00000183098	ENST00000377047	T	0.58506	0.33	5.64	5.64	0.86602	.	0.063315	0.64402	D	0.000008	T	0.78502	0.4293	M	0.85710	2.77	0.58432	D	0.999997	P;D	0.71674	0.74;0.998	P;D	0.77557	0.641;0.99	T	0.81402	-0.0949	10	0.54805	T	0.06	.	15.8646	0.79055	1.0:0.0:0.0:0.0	.	321;321	B4E2M1;Q9Y625	.;GPC6_HUMAN	A	321	ENSP00000366246:E321A	ENSP00000366246:E321A	E	+	2	0	GPC6	93736688	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.950000	0.93019	2.149000	0.67028	0.477000	0.44152	GAA		0.423	GPC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045460.4	NM_005708		C	94938687	A	C	94938687	3	2	603	1	0	0	0	0	1	0	0	0	6609	246	9	5	980	5	GPC6	13	94938687	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10		94938687	20231191	83	36337										
FAM161B	145483	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	74409353	74409353	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	actagaggaggcgataggggAagaggccatctggagcatgt	17	6	1	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr14:74409353A>T	ENST00000534936.1	-	4	1096	c.991T>A	c.(991-993)Tcc>Acc	p.S331T	FAM161B_ENST00000286544.3_Missense_Mutation_p.S394T			Q96MY7	F161B_HUMAN	family with sequence similarity 161, member B	331										breast(3)|central_nervous_system(2)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(5)|ovary(1)|prostate(2)|skin(2)	21						GCGATAGGGGAAGAGGCCATC	0.532																																																0													88	96	94					14																	74409353		2203	4300	6503	SO:0001583	missense	145483			AA356453	CCDS9822.1, CCDS9822.2	14q24.2	2008-06-05	2008-06-05	2008-06-05		ENSG00000156050			19854	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 44"	C14orf44			Standard	NM_152445		Approved	FLJ31697	uc001xpd.3	Q96MY7		ENST00000534936.1:c.991T>A	14.37:g.74409353A>T	ENSP00000445326:p.Ser331Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z882|J3KNA2	Missense_Mutation	SNP	ENST00000534936.1	37		.	.	.	.	.	.	.	.	.	.	A	16.34	3.096005	0.56075	.	.	ENSG00000156050	ENST00000286544;ENST00000534936	T;T	0.21361	2.01;2.01	5.5	4.34	0.51931	.	0.392302	0.25786	N	0.028306	T	0.38719	0.1051	M	0.79475	2.455	0.29528	N	0.852984	D	0.61697	0.99	P	0.61722	0.893	T	0.35475	-0.9787	10	0.09843	T	0.71	-10.2675	12.0316	0.53401	0.5426:0.4574:0.0:0.0	.	331	Q96MY7	F161B_HUMAN	T	394;331	ENSP00000286544:S394T;ENSP00000445326:S331T	ENSP00000286544:S394T	S	-	1	0	FAM161B	73479106	0.652000	0.27349	1.000000	0.80357	0.874000	0.50279	1.334000	0.33827	1.081000	0.41110	0.533000	0.62120	TCC		0.532	FAM161B-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_152445		T	74409353	A	T	74409353	3	4	603	1	0	0	0	0	1	0	0	0	5477	246	9	5	976	5	FAM161B	14	74409353	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10		74409353	32940187	84	36338										
C14orf49	161176	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	95906070	95906070	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	catcaccagccagccctgcgCttccaccagggacagctggg	11	17	1	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr14:95906070C>T	ENST00000334258.5	-	12	2139	c.2125G>A	c.(2125-2127)Gcg>Acg	p.A709T	SYNE3_ENST00000557275.1_Missense_Mutation_p.A709T|SYNE3_ENST00000554873.1_Missense_Mutation_p.A466T	NM_152592.3	NP_689805.3	Q6ZMZ3	SYNE3_HUMAN	spectrin repeat containing, nuclear envelope family member 3	709					cytoskeletal anchoring at nuclear membrane (GO:0090286)|cytoskeleton organization (GO:0007010)|establishment of protein localization to membrane (GO:0090150)|regulation of cell shape (GO:0008360)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nuclear envelope (GO:0005635)|nuclear outer membrane (GO:0005640)|SUN-KASH complex (GO:0034993)	actin filament binding (GO:0051015)			breast(1)|endometrium(2)|lung(25)	28						CAGCCCTGCGCTTCCACCAGG	0.637																																																0													44	47	46					14																	95906070		2203	4300	6503	SO:0001583	missense	161176			AK098471	CCDS9935.1	14q32.13	2012-05-31	2012-05-31	2012-05-31	ENSG00000176438	ENSG00000176438			19861	protein-coding gene	gene with protein product		610861	"chromosome 14 open reading frame 49"	C14orf49			Standard	NM_152592		Approved	FLJ25605, NET53, Nesprin-3, Nesp3	uc001yei.4	Q6ZMZ3	OTTHUMG00000171632	ENST00000334258.5:c.2125G>A	14.37:g.95906070C>T	ENSP00000334308:p.Ala709Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8H3|Q86SX5|Q8N7G8	Missense_Mutation	SNP	ENST00000334258.5	37	CCDS9935.1	.	.	.	.	.	.	.	.	.	.	C	14.87	2.663059	0.47572	.	.	ENSG00000176438	ENST00000334258;ENST00000554873;ENST00000557275	T;T;T	0.52295	0.67;0.67;0.67	5.34	5.34	0.76211	.	0.171047	0.27932	N	0.017272	T	0.46034	0.1372	L	0.50333	1.59	0.80722	D	1	P;P	0.50369	0.919;0.934	P;P	0.48598	0.447;0.583	T	0.26573	-1.0099	10	0.12430	T	0.62	-23.2732	11.6332	0.51187	0.1774:0.8226:0.0:0.0	.	709;709	Q6ZMZ3-2;Q6ZMZ3	.;SYNE3_HUMAN	T	709;466;709	ENSP00000334308:A709T;ENSP00000452154:A466T;ENSP00000450562:A709T	ENSP00000334308:A709T	A	-	1	0	C14orf49	94975823	0.218000	0.23608	0.039000	0.18376	0.023000	0.10783	1.454000	0.35178	2.507000	0.84556	0.561000	0.74099	GCG		0.637	SYNE3-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000420529.2	NM_152592		T	95906070	C	T	95906070	3	4	603	1	0	0	0	0	1	0	0	0	1778	797	28	2	826	2	C14orf49	14	95906070	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	21496717	95906070	11443470	85	36339										
RAB26	25837	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	2201715	2201715	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gatgtgggacacagctggtcAggagcggttccgcagtgtta	16	8	1	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr16:2201715A>G	ENST00000210187.6	+	4	528	c.368A>G	c.(367-369)cAg>cGg	p.Q123R	RAB26_ENST00000541451.1_Missense_Mutation_p.Q57R	NM_014353.4	NP_055168.2	Q9ULW5	RAB26_HUMAN	RAB26, member RAS oncogene family	123					exocrine system development (GO:0035272)|Golgi to plasma membrane protein transport (GO:0043001)|regulated secretory pathway (GO:0045055)|regulation of exocytosis (GO:0017157)|small GTPase mediated signal transduction (GO:0007264)	Golgi membrane (GO:0000139)|intrinsic component of plasma membrane (GO:0031226)|secretory granule membrane (GO:0030667)	GMP binding (GO:0019002)|GTP binding (GO:0005525)			kidney(1)|large_intestine(1)|lung(3)	5						ACAGCTGGTCAGGAGCGGTTC	0.642																																																0													104	87	93					16																	2201715		2197	4300	6497	SO:0001583	missense	25837			AB027137	CCDS10460.1	16p13.3	2008-07-28			ENSG00000167964	ENSG00000167964		"RAB, member RAS oncogene"	14259	protein-coding gene	gene with protein product		605455				11043516	Standard	NM_014353		Approved		uc002cou.3	Q9ULW5	OTTHUMG00000128829	ENST00000210187.6:c.368A>G	16.37:g.2201715A>G	ENSP00000210187:p.Gln123Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAA6|Q3L6K5|Q6NXS7	Missense_Mutation	SNP	ENST00000210187.6	37	CCDS10460.1	.	.	.	.	.	.	.	.	.	.	A	17.01	3.279466	0.59758	.	.	ENSG00000167964	ENST00000541451;ENST00000210187	D;D	0.83673	-1.75;-1.75	3.93	3.93	0.45458	Small GTP-binding protein domain (1);	0.000000	0.64402	D	0.000003	D	0.92616	0.7654	H	0.95539	3.685	0.80722	D	1	P	0.50943	0.94	D	0.64410	0.925	D	0.94013	0.7286	10	0.87932	D	0	.	11.7693	0.51949	1.0:0.0:0.0:0.0	.	123	Q9ULW5	RAB26_HUMAN	R	57;123	ENSP00000441580:Q57R;ENSP00000210187:Q123R	ENSP00000210187:Q123R	Q	+	2	0	RAB26	2141716	1.000000	0.71417	1.000000	0.80357	0.362000	0.29581	8.398000	0.90195	1.657000	0.50732	0.254000	0.18369	CAG		0.642	RAB26-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250767.2			G	2201715	A	G	2201715	3	3	603	1	0	0	0	0	1	0	0	0	12926	188	7	3	382	3	RAB26	16	2201715	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10		2201715	88153038	86	36340										
TBC1D24	57465	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	2550436	2550436	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gccgctcgccacttcaacctGccctccaagaccgagtccat	7	19	1	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr16:2550436G>T	ENST00000293970.5	+	7	1603	c.1470G>T	c.(1468-1470)ctG>ctT	p.L490L	TBC1D24_ENST00000567020.1_Silent_p.L484L|TBC1D24_ENST00000434757.2_Silent_p.L490L|RP11-20I23.1_ENST00000564543.1_Intron	NM_001199107.1	NP_001186036.1	Q9ULP9	TBC24_HUMAN	TBC1 domain family, member 24	490	TLD.				neuron projection development (GO:0031175)	cytoplasm (GO:0005737)|neuromuscular junction (GO:0031594)|terminal bouton (GO:0043195)	Rab GTPase activator activity (GO:0005097)			endometrium(2)|kidney(4)|large_intestine(3)|lung(4)	13						ACTTCAACCTGCCCTCCAAGA	0.692																																																0													12	17	15					16																	2550436		2057	4196	6253	SO:0001819	synonymous_variant	57465			AB032997	CCDS42107.1, CCDS55980.1	16p13.3	2014-05-07				ENSG00000162065			29203	protein-coding gene	gene with protein product	"TBC/LysM-associated domain containing 6"	613577	"deafness, autosomal recessive 86"	DFNB86		10574461, 24387994, 24729539	Standard	NM_001199107		Approved	KIAA1171, TLDC6, DFNA65	uc002cql.3	Q9ULP9		ENST00000293970.5:c.1470G>T	16.37:g.2550436G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0JNW3|B9A6M6|Q2KJ08	Silent	SNP	ENST00000293970.5	37	CCDS55980.1																																																																																				0.692	TBC1D24-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000435637.1	NM_020705		T	2550436	G	T	2550436	2	4	603	1	0	0	0	0	0	0	0	1	15626	1306	46	4		4	TBC1D24	16	2550436	Silent	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	348721	2550436	87804317	87	36341										
CHD9	80205	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	53288491	53288491	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	aagctgtgttacagagcatgAgtggaagagaaagtaatgtt	13	3	0	3			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr16:53288491A>G	ENST00000398510.3	+	17	4090	c.4003A>G	c.(4003-4005)Agt>Ggt	p.S1335G	CHD9_ENST00000447540.1_Missense_Mutation_p.S1335G|CHD9_ENST00000564845.1_Missense_Mutation_p.S1335G|CHD9_ENST00000566029.1_Missense_Mutation_p.S1335G			Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	1335	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				cellular lipid metabolic process (GO:0044255)|chromatin modification (GO:0016568)|regulation of transcription, DNA-templated (GO:0006355)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(5)|kidney(6)|large_intestine(21)|lung(32)|ovary(2)|prostate(2)|skin(2)|stomach(1)|urinary_tract(1)	78		all_cancers(37;0.0212)				ACAGAGCATGAGTGGAAGAGA	0.378																																																0													258	254	255					16																	53288491		1881	4105	5986	SO:0001583	missense	80205			AK022240	CCDS45485.1	16q12.2	2006-04-12				ENSG00000177200			25701	protein-coding gene	gene with protein product						9205841	Standard	XM_005256168		Approved	FLJ12178, KIAA0308, BC022889	uc002egy.3	Q3L8U1		ENST00000398510.3:c.4003A>G	16.37:g.53288491A>G	ENSP00000381522:p.Ser1335Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTU2|B9ZVQ0|O15025|Q1WF12|Q6DTK9|Q9H9V7|Q9UHM2	Missense_Mutation	SNP	ENST00000398510.3	37		.	.	.	.	.	.	.	.	.	.	A	21.2	4.107119	0.77096	.	.	ENSG00000177200	ENST00000447540;ENST00000398510;ENST00000219084	D;D	0.86865	-2.1;-2.18	5.39	5.39	0.77823	Helicase, C-terminal (1);	0.000000	0.64402	D	0.000002	D	0.90535	0.7034	L	0.42581	1.335	0.80722	D	1	B;P;P;D	0.56035	0.417;0.923;0.956;0.974	B;P;D;D	0.70487	0.206;0.79;0.931;0.969	D	0.90634	0.4569	10	0.48119	T	0.1	-16.5693	15.4021	0.74849	1.0:0.0:0.0:0.0	.	861;1335;1335;1335	B4DR07;Q3L8U1-3;Q3L8U1;Q3L8U1-2	.;.;CHD9_HUMAN;.	G	1335;1335;861	ENSP00000396345:S1335G;ENSP00000381522:S1335G	ENSP00000219084:S861G	S	+	1	0	CHD9	51845992	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.281000	0.95811	2.049000	0.60858	0.477000	0.44152	AGT		0.378	CHD9-020	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000422345.1	NM_025134		G	53288491	A	G	53288491	3	3	603	1	0	0	0	0	1	0	0	0	3334	304	11	3	4069	3	CHD9	16	53288491	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	50738055	53288491	37066262	88	36342										
SDR42E1	93517	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	82033252	82033252	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	aaactcaaccaggctcctggGgtccccgtagacaaacttga	9	13	1	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr16:82033252G>T	ENST00000328945.5	-	3	773	c.646C>A	c.(646-648)Ccc>Acc	p.P216T	SDR42E1_ENST00000534209.1_5'Flank	NM_145168.2	NP_660151.2	Q8WUS8	D42E1_HUMAN	short chain dehydrogenase/reductase family 42E, member 1	216					steroid biosynthetic process (GO:0006694)	integral component of membrane (GO:0016021)	3-beta-hydroxy-delta5-steroid dehydrogenase activity (GO:0003854)			NS(2)|endometrium(1)|lung(4)|skin(3)	10						AGGCTCCTGGGGTCCCCGTAG	0.547																																																0													108	110	109					16																	82033252		1902	4115	6017	SO:0001583	missense	93517			AF161368	CCDS42205.1	16q23.3	2011-09-14				ENSG00000184860	1.1.1.-	"Short chain dehydrogenase/reductase superfamily / Extended SDR fold"	29834	protein-coding gene	gene with protein product						19027726	Standard	NM_145168		Approved	HSPC105	uc002fgu.3	Q8WUS8		ENST00000328945.5:c.646C>A	16.37:g.82033252G>T	ENSP00000332407:p.Pro216Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDS1|Q9P0D1	Missense_Mutation	SNP	ENST00000328945.5	37	CCDS42205.1	.	.	.	.	.	.	.	.	.	.	G	19.67	3.870740	0.72065	.	.	ENSG00000184860	ENST00000328945	D	0.88664	-2.41	5.58	4.6	0.57074	3-beta hydroxysteroid dehydrogenase/isomerase (1);NAD(P)-binding domain (1);	0.153104	0.64402	N	0.000011	D	0.91922	0.7442	M	0.75447	2.3	0.54753	D	0.999988	P	0.51240	0.943	P	0.57204	0.815	D	0.90190	0.4249	10	0.27082	T	0.32	-14.8805	13.0466	0.58931	0.0:0.0:0.8391:0.1609	.	216	Q8WUS8	D42E1_HUMAN	T	216	ENSP00000332407:P216T	ENSP00000332407:P216T	P	-	1	0	SDR42E1	80590753	1.000000	0.71417	0.742000	0.31022	0.950000	0.60333	6.302000	0.72788	1.301000	0.44836	0.655000	0.94253	CCC		0.547	SDR42E1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388081.2	NM_145168		T	82033252	G	T	82033252	3	4	603	1	0	0	0	0	1	0	0	0	13986	1232	43	4	539	4	SDR42E1	16	82033252	Missense_Mutation	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	28744761	82033252	8321501	89	36343										
FBXW10	10517	bcgsc.ca	37	chr17	18653384	18653384	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	agccagcactgggccgccatGgctcaacaggtcaagatgga	13	12	2	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr17:18653384G>T	ENST00000395665.4	+	4	1154	c.933G>T	c.(931-933)atG>atT	p.M311I	FBXW10_ENST00000301938.4_Missense_Mutation_p.M311I|FBXW10_ENST00000395667.1_Missense_Mutation_p.M311I|FBXW10_ENST00000308799.4_Missense_Mutation_p.M340I			Q5XX13	FBW10_HUMAN	F-box and WD repeat domain containing 10	311	F-box.									NS(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(13)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|urinary_tract(1)	42						GGGCCGCCATGGCTCAACAGG	0.517																																																0													16	18	17					17																	18653384		2040	4094	6134	SO:0001583	missense	10517			BC028364	CCDS11199.2, CCDS11199.3, CCDS58524.1	17p11	2013-01-09	2007-02-08	2004-07-21	ENSG00000171931	ENSG00000171931		"F-boxes / WD-40 domains", "WD repeat domain containing"	1211	protein-coding gene	gene with protein product		611679	"chromosome 17 open reading frame 1A", "F-box and WD-40 domain protein 10"	C17orf1, C17orf1A		9787083, 7586531	Standard	NM_001267585		Approved	SM2SH2, HREP, Fbw10	uc002guk.3	Q5XX13	OTTHUMG00000059048	ENST00000395665.4:c.933G>T	17.37:g.18653384G>T	ENSP00000379025:p.Met311Ile	Somatic		WXS	Illumina HiSeq	Phase_1	C9JRY8|C9JZD7|Q8TC00|Q9H0F0	Missense_Mutation	SNP	ENST00000395665.4	37	CCDS11199.3	.	.	.	.	.	.	.	.	.	.	G	3.163	-0.171623	0.06421	.	.	ENSG00000171931	ENST00000395667;ENST00000308799;ENST00000301938;ENST00000395665	T;T;T;T	0.27256	2.15;1.68;2.15;2.15	2.49	0.244	0.15507	F-box domain, Skp2-like (1);	0.296938	0.17883	U	0.158818	T	0.11665	0.0284	N	0.14661	0.345	0.09310	N	1	B;B;B;B	0.19706	0.038;0.015;0.022;0.017	B;B;B;B	0.13407	0.009;0.009;0.004;0.009	T	0.16335	-1.0406	10	0.51188	T	0.08	.	3.6229	0.08103	0.1637:0.2623:0.574:0.0	.	311;340;311;311	Q5XX13-3;Q5XX13-2;Q5XX13;Q5XX13-4	.;.;FBW10_HUMAN;.	I	311;340;311;311	ENSP00000379026:M311I;ENSP00000310382:M340I;ENSP00000306937:M311I;ENSP00000379025:M311I	ENSP00000306937:M311I	M	+	3	0	FBXW10	18594109	0.159000	0.22864	0.083000	0.20561	0.238000	0.25445	0.459000	0.21908	-0.034000	0.13713	0.405000	0.27470	ATG		0.517	FBXW10-003	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000313531.2	NM_031456		T	18653384	G	T	18653384	3	4	603	1	0	0	0	0	1	0	0	0	5770	1348	47	4	947	4	FBXW10	17	18653384	Missense_Mutation	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10		18653384	62541826	90	36344										
TCAP	8557	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	37821723	37821723	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tccacacggcccgaggagggGtgagtgtgggtctgctagag	18	9	1	2	rs113187448		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr17:37821723G>A	ENST00000309889.2	+	1	1283		c.e1+1		TCAP_ENST00000578283.1_Splice_Site|PNMT_ENST00000269582.2_5'Flank|PNMT_ENST00000394246.1_5'Flank|PNMT_ENST00000581428.1_5'Flank			O15273	TELT_HUMAN	titin-cap						adult heart development (GO:0007512)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle hypertrophy in response to stress (GO:0014898)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of mechanical stimulus (GO:0050982)|detection of muscle stretch (GO:0035995)|muscle filament sliding (GO:0030049)|otic vesicle formation (GO:0030916)|protein complex assembly (GO:0006461)|response to muscle stretch (GO:0035994)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle contraction (GO:0003009)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)	cytosol (GO:0005829)|I band (GO:0031674)|Z disc (GO:0030018)	FATZ binding (GO:0051373)|ion channel binding (GO:0044325)|protein binding, bridging (GO:0030674)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)|titin Z domain binding (GO:0070080)			kidney(1)|lung(1)	2	all_cancers(6;6.59e-85)|all_epithelial(6;2.89e-103)|Breast(7;1.05e-86)|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;3.87e-45)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CCGAGGAGGGGTGAGTGTGGG	0.627																																																0													67	64	65					17																	37821723		2203	4300	6503	SO:0001630	splice_region_variant	8557			AJ000491	CCDS11342.1	17q12	2014-09-17	2012-09-20		ENSG00000173991	ENSG00000173991			11610	protein-coding gene	gene with protein product	"19 kDa sarcomeric protein"	604488	"limb girdle muscular dystrophy 2G (autosomal recessive)", "titin-cap (telethonin)"	LGMD2G		9350988, 9817758	Standard	NM_003673		Approved	T-cap, TELE, telethonin, CMD1N	uc002hsh.3	O15273	OTTHUMG00000133215	ENST00000309889.2:c.110+1G>A	17.37:g.37821723G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q96L27	Splice_Site	SNP	ENST00000309889.2	37	CCDS11342.1	.	.	.	.	.	.	.	.	.	.	G	13.30	2.194985	0.38806	.	.	ENSG00000173991	ENST00000309889	.	.	.	5.74	5.74	0.90152	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	19.5082	0.95130	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	TCAP	35075249	1.000000	0.71417	1.000000	0.80357	0.117000	0.20001	7.443000	0.80521	2.710000	0.92621	0.563000	0.77884	.		0.627	TCAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256942.1	NM_003673	Intron	A	37821723	G	A	37821723	5	1	603	1	0	0	0	0	0	0	1	0	15678	1275	44	2	113	2	TCAP	17	37821723	Splice_Site	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	19168339	37821723	43373487	91	36345										
KRT10	3858	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	38978229	38978229	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	acctgatttttaaggtcatcGatggttttgtagtatttgct	9	5	1	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr17:38978229G>A	ENST00000269576.5	-	1	618	c.609C>T	c.(607-609)atC>atT	p.I203I	TMEM99_ENST00000301665.3_Intron|TMEM99_ENST00000496847.1_Intron	NM_000421.3	NP_000412	P13645	K1C10_HUMAN	keratin 10	203	Coil 1B.|Gly-rich.|Rod.				cellular response to calcium ion (GO:0071277)|keratinocyte differentiation (GO:0030216)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)|keratin filament (GO:0045095)|membrane (GO:0016020)|nucleus (GO:0005634)	structural constituent of epidermis (GO:0030280)			NS(2)|kidney(1)|large_intestine(3)|lung(4)|prostate(1)	11		Breast(137;0.000301)				TAAGGTCATCGATGGTTTTGT	0.393																																																0													170	155	160					17																	38978229		2203	4300	6503	SO:0001819	synonymous_variant	3858			J04029	CCDS11377.1	17q21.2	2013-06-20	2008-08-01		ENSG00000186395	ENSG00000186395		"-", "Intermediate filaments type I, keratins (acidic)"	6413	protein-coding gene	gene with protein product	"cytokeratin 10", "epidermolytic hyperkeratosis"	148080	"keratosis palmaris et plantaris"	KPP		2461420, 16831889	Standard	NM_000421		Approved	K10, CK10	uc002hvi.3	P13645	OTTHUMG00000133368	ENST00000269576.5:c.609C>T	17.37:g.38978229G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q14664|Q8N175	Silent	SNP	ENST00000269576.5	37	CCDS11377.1																																																																																				0.393	KRT10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257875.1	NM_000421		A	38978229	G	A	38978229	2	1	603	1	0	0	0	0	0	0	0	1	8455	1048	37	1		1	KRT10	17	38978229	Silent	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	1156506	38978229	42216981	92	36346										
EME1	146956	bcgsc.ca	37	chr17	48457701	48457701	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gagatgaaactaccttctccTtctgtctggagagtgactgg	11	9	3	4			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr17:48457701T>C	ENST00000338165.4	+	8	1457	c.1375T>C	c.(1375-1377)Ttc>Ctc	p.F459L	EME1_ENST00000393271.2_Missense_Mutation_p.F472L|EME1_ENST00000511648.2_Missense_Mutation_p.F472L	NM_152463.2	NP_689676.2	Q96AY2	EME1_HUMAN	essential meiotic structure-specific endonuclease 1	459					DNA recombination (GO:0006310)|DNA repair (GO:0006281)|response to intra-S DNA damage checkpoint signaling (GO:0072429)	cytoplasm (GO:0005737)|nuclear heterochromatin (GO:0005720)|nucleus (GO:0005634)	DNA binding (GO:0003677)|endonuclease activity (GO:0004519)|metal ion binding (GO:0046872)			endometrium(4)|kidney(2)|large_intestine(4)|lung(5)|ovary(1)|stomach(2)|upper_aerodigestive_tract(1)	19	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;2.43e-08)			TACCTTCTCCTTCTGTCTGGA	0.542								Direct reversal of damage;Homologous recombination																																								0													74	58	63					17																	48457701		2203	4300	6503	SO:0001583	missense	146956			BC016470	CCDS11565.1, CCDS54141.1	17q21.33	2013-07-03	2013-07-03			ENSG00000154920			24965	protein-coding gene	gene with protein product	"SLX2 structure-specific endonuclease subunit homolog A (S. cerevisiae)"	610885	"essential meiotic endonuclease 1 homolog 1 (S. pombe)"			12721304	Standard	NM_001166131		Approved	FLJ31364, MMS4L, SLX2A	uc010dbp.2	Q96AY2		ENST00000338165.4:c.1375T>C	17.37:g.48457701T>C	ENSP00000339897:p.Phe459Leu	Somatic		WXS	Illumina HiSeq	Phase_1	Q96N62	Missense_Mutation	SNP	ENST00000338165.4	37	CCDS11565.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	33|33	5.264539|5.264539	0.95399|0.95399	.|.	.|.	ENSG00000154920|ENSG00000154920	ENST00000338165;ENST00000393271;ENST00000511648|ENST00000510246	T;T;T|.	0.47869|.	0.83;0.83;0.83|.	5.72|5.72	5.72|5.72	0.89469|0.89469	ERCC4 domain (2);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.80149|0.80149	0.4570|0.4570	M|M	0.86420|0.86420	2.815|2.815	0.80722|0.80722	D|D	1|1	D;D|.	0.89917|.	1.0;1.0|.	D;D|.	0.91635|.	0.998;0.999|.	T|T	0.82859|0.82859	-0.0249|-0.0249	10|5	0.87932|.	D|.	0|.	-15.4409|-15.4409	16.0037|16.0037	0.80327|0.80327	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	472;459|.	Q96AY2-2;Q96AY2|.	.;EME1_HUMAN|.	L|P	459;472;472|270	ENSP00000339897:F459L;ENSP00000376952:F472L;ENSP00000421700:F472L|.	ENSP00000339897:F459L|.	F|L	+|+	1|2	0|0	EME1|EME1	45812700|45812700	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.911000|0.911000	0.54048|0.54048	7.536000|7.536000	0.82023|0.82023	2.184000|2.184000	0.69523|0.69523	0.533000|0.533000	0.62120|0.62120	TTC|CTT		0.542	EME1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367118.3	NM_152463		C	48457701	T	C	48457701	3	2	603	1	0	0	0	0	1	0	0	0	5090	1609	56	3	1440	3	EME1	17	48457701	Missense_Mutation	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10	9479472	48457701	32737509	93	36347										
RPTOR	57521	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	78811724	78811724	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	cctctgttctctccgcaggcAagcctgggacctggctgttg	12	14	2	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr17:78811724A>C	ENST00000306801.3	+	10	1501	c.1139A>C	c.(1138-1140)cAa>cCa	p.Q380P	RPTOR_ENST00000544334.2_Missense_Mutation_p.Q380P|RPTOR_ENST00000537330.1_Missense_Mutation_p.Q195P|RPTOR_ENST00000575542.1_3'UTR	NM_020761.2	NP_065812.1	Q8N122	RPTOR_HUMAN	regulatory associated protein of MTOR, complex 1	380					cell cycle arrest (GO:0007050)|cell growth (GO:0016049)|cellular response to amino acid stimulus (GO:0071230)|cellular response to nutrient levels (GO:0031669)|insulin receptor signaling pathway (GO:0008286)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of protein serine/threonine kinase activity (GO:0071902)|positive regulation of TOR signaling (GO:0032008)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|regulation of cell size (GO:0008361)|TOR signaling (GO:0031929)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|TORC1 complex (GO:0031931)	14-3-3 protein binding (GO:0071889)|protein complex binding (GO:0032403)|protein kinase binding (GO:0019901)|RNA polymerase III type 1 promoter DNA binding (GO:0001030)|RNA polymerase III type 2 promoter DNA binding (GO:0001031)|RNA polymerase III type 3 promoter DNA binding (GO:0001032)|TFIIIC-class transcription factor binding (GO:0001156)			breast(1)|endometrium(4)|kidney(1)|large_intestine(12)|lung(17)|ovary(3)|prostate(1)|skin(1)|stomach(1)|urinary_tract(3)	44						CTCCGCAGGCAAGCCTGGGAC	0.612																																																0													111	77	89					17																	78811724		2203	4300	6503	SO:0001583	missense	57521				CCDS11773.1, CCDS54175.1	17q25.3	2013-01-10				ENSG00000141564		"WD repeat domain containing"	30287	protein-coding gene	gene with protein product	"regulatory associated protein of mTOR"	607130				10718198, 12150926	Standard	NM_001163034		Approved	KOG1, Mip1, KIAA1303, raptor	uc002jyt.1	Q8N122		ENST00000306801.3:c.1139A>C	17.37:g.78811724A>C	ENSP00000307272:p.Gln380Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN36|C6KEF2|F5H7J5|Q8N4V9|Q8TB32|Q9P2P3	Missense_Mutation	SNP	ENST00000306801.3	37	CCDS11773.1	.	.	.	.	.	.	.	.	.	.	A	16.94	3.260139	0.59321	.	.	ENSG00000141564	ENST00000537330;ENST00000306801;ENST00000544334	T;T	0.46819	0.86;0.86	5.27	5.27	0.74061	.	0.000000	0.85682	D	0.000000	T	0.66218	0.2767	M	0.79475	2.455	0.80722	D	1	D;B;D	0.56521	0.96;0.168;0.976	D;B;B	0.64237	0.923;0.086;0.438	T	0.68526	-0.5385	10	0.46703	T	0.11	.	13.1464	0.59463	1.0:0.0:0.0:0.0	.	380;195;380	F5H7J5;F5GXV9;Q8N122	.;.;RPTOR_HUMAN	P	195;380;380	ENSP00000307272:Q380P;ENSP00000442479:Q380P	ENSP00000307272:Q380P	Q	+	2	0	RPTOR	76426319	1.000000	0.71417	1.000000	0.80357	0.877000	0.50540	8.087000	0.89521	1.990000	0.58119	0.455000	0.32223	CAA		0.612	RPTOR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438125.1	NM_020761		C	78811724	A	C	78811724	3	2	603	1	0	0	0	0	1	0	0	0	13678	130	5	5	1177	5	RPTOR	17	78811724	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	30354023	78811724	2383486	94	36348										
ACTG1	71	ucsc.edu	37	chr17	79478136	79478136	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	atgccgcaagattccataccTaggggacagagccctccctt	9	14	0	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr17:79478136T>C	ENST00000575842.1	-	4	1229		c.e4-2		ACTG1_ENST00000573283.1_Splice_Site|RP13-766D20.2_ENST00000430912.1_RNA|ACTG1_ENST00000575087.1_Splice_Site|ACTG1_ENST00000331925.2_Splice_Site|AC139149.1_ENST00000584254.1_RNA			P63261	ACTG_HUMAN	actin, gamma 1						adherens junction organization (GO:0034332)|axon guidance (GO:0007411)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|cellular component movement (GO:0006928)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|membrane organization (GO:0061024)|platelet aggregation (GO:0070527)|retina homeostasis (GO:0001895)|sarcomere organization (GO:0045214)	blood microparticle (GO:0072562)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|filamentous actin (GO:0031941)|membrane (GO:0016020)|myofibril (GO:0030016)|nucleus (GO:0005634)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|structural constituent of cytoskeleton (GO:0005200)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|lung(8)|ovary(2)|prostate(5)|urinary_tract(1)	29	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0547)			ATTCCATACCTAGGGGACAGA	0.537																																																0													86	76	80					17																	79478136		2203	4300	6503	SO:0001630	splice_region_variant	71				CCDS11782.1	17q25	2010-04-23	2004-05-19		ENSG00000184009	ENSG00000184009			144	protein-coding gene	gene with protein product		102560	"deafness, autosomal dominant 20; deafness, autosomal dominant 26"	ACTG, DFNA20, DFNA26		14684684	Standard	NM_001614		Approved		uc002kal.2	P63261		ENST00000575842.1:c.803-2A>G	17.37:g.79478136T>C		Somatic		WXS	Illumina HiSeq		A8K7C2|P02571|P14104|P99022|Q5U032|Q96E67	Splice_Site	SNP	ENST00000575842.1	37	CCDS11782.1	.	.	.	.	.	.	.	.	.	.	t	3.884	-0.025353	0.07589	.	.	ENSG00000184009	ENST00000331925;ENST00000447294	.	.	.	3.61	2.53	0.30540	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	7.8977	0.29717	0.0:0.1028:0.0:0.8972	.	.	.	.	.	-1	.	.	.	-	.	.	ACTG1	77092731	1.000000	0.71417	0.355000	0.25773	0.171000	0.22731	7.434000	0.80377	0.501000	0.28013	0.450000	0.29827	.		0.537	ACTG1-012	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000439935.2	NM_001614	Intron	C	79478136	T	C	79478136	5	2	603	1	0	0	0	0	0	0	1	0	196	1536	53	3	334	3	ACTG1	17	79478136	Splice_Site	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10	666412	79478136	1717074	95	36349										
IMPACT	55364	broad.mit.edu	37	chr18	22020564	22020564	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ttaaagcattggattttgatAtcagtgaaactcggacaggt	10	5	1	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr18:22020564A>G	ENST00000284202.4	+	6	613	c.472A>G	c.(472-474)Atc>Gtc	p.I158V	RP11-178F10.1_ENST00000579049.1_RNA	NM_018439.3	NP_060909	Q9P2X3	IMPCT_HUMAN	impact RWD domain protein	158					negative regulation of protein phosphorylation (GO:0001933)|regulation of translational initiation (GO:0006446)	cytoplasm (GO:0005737)				endometrium(1)|large_intestine(3)|lung(9)|skin(1)|upper_aerodigestive_tract(2)	16	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)					GGATTTTGATATCAGTGAAAC	0.343																																																0													154	149	151					18																	22020564		2203	4300	6503	SO:0001583	missense	55364			AB026264	CCDS11886.1	18q11.2-q12.1	2012-12-07	2012-12-07		ENSG00000154059	ENSG00000154059			20387	protein-coding gene	gene with protein product	"RWD domain containing 5"	615319	"Impact homolog (mouse)"			11116084	Standard	NM_018439		Approved	RWDD5	uc002kvh.4	Q9P2X3	OTTHUMG00000131943	ENST00000284202.4:c.472A>G	18.37:g.22020564A>G	ENSP00000284202:p.Ile158Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8MXG0|Q49AM0|Q9H2X4	Missense_Mutation	SNP	ENST00000284202.4	37	CCDS11886.1	.	.	.	.	.	.	.	.	.	.	A	1.262	-0.615672	0.03663	.	.	ENSG00000154059	ENST00000284202	T	0.28454	1.61	5.29	-3.87	0.04218	.	1.325790	0.04559	N	0.391367	T	0.19046	0.0457	L	0.28556	0.865	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.21075	-1.0256	10	0.20519	T	0.43	.	6.1062	0.20075	0.4272:0.0:0.4388:0.134	.	158	Q9P2X3	IMPCT_HUMAN	V	158	ENSP00000284202:I158V	ENSP00000284202:I158V	I	+	1	0	IMPACT	20274562	0.000000	0.05858	0.000000	0.03702	0.068000	0.16541	-0.200000	0.09478	-0.630000	0.05567	-0.371000	0.07208	ATC		0.343	IMPACT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254901.1	NM_018439		G	22020564	A	G	22020564	3	3	603	1	0	0	0	0	1	0	0	0	7731	449	16	3	494	3	IMPACT	18	22020564	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10		22020564	56056684	96	36350										
MUC16	94025	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	9048182	9048182	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tgaccagagaggtcaccattCctggtacctcaggtgaaaca	10	11	2	3			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr19:9048182C>T	ENST00000397910.4	-	5	33652	c.33449G>A	c.(33448-33450)gGa>gAa	p.G11150E		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	11152	Thr-rich.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						GGTCACCATTCCTGGTACCTC	0.468																																																0													88	80	83					19																	9048182		1909	4131	6040	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.33449G>A	19.37:g.9048182C>T	ENSP00000381008:p.Gly11150Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	c	5.752	0.323183	0.10900	.	.	ENSG00000181143	ENST00000397910	T	0.03553	3.89	3.11	-6.22	0.02058	.	.	.	.	.	T	0.03095	0.0091	L	0.45581	1.43	.	.	.	P	0.37101	0.582	B	0.32583	0.148	T	0.18967	-1.0320	8	0.87932	D	0	.	5.7136	0.17948	0.152:0.2213:0.0:0.6267	.	11150	B5ME49	.	E	11150	ENSP00000381008:G11150E	ENSP00000381008:G11150E	G	-	2	0	MUC16	8909182	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-4.020000	0.00312	-1.359000	0.02174	-1.173000	0.01734	GGA		0.468	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		T	9048182	C	T	9048182	3	4	603	1	0	0	0	0	1	0	0	0	9980	855	30	2	10394	2	MUC16	19	9048182	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10		9048182	50080801	97	36351										
PRKCSH	5589	hgsc.bcm.edu	37	chr19	11558370	11558370	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gaggaggaggaggaggaggaGgaagaagaggctgaagaaga	22	1	0	5	rs77563879		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr19:11558370G>A	ENST00000589838.1	+	10	966	c.966G>A	c.(964-966)gaG>gaA	p.E322E	PRKCSH_ENST00000412601.1_Silent_p.E322E|PRKCSH_ENST00000587327.1_Silent_p.E322E|PRKCSH_ENST00000252455.2_Silent_p.E322E|PRKCSH_ENST00000591462.1_Silent_p.E322E|PRKCSH_ENST00000592741.1_Silent_p.E322E			P14314	GLU2B_HUMAN	protein kinase C substrate 80K-H	322	Glu-rich (acidic).				cellular protein metabolic process (GO:0044267)|in utero embryonic development (GO:0001701)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|liver development (GO:0001889)|N-glycan processing (GO:0006491)|negative regulation of neuron projection development (GO:0010977)|nitrogen compound metabolic process (GO:0006807)|post-translational protein modification (GO:0043687)|protein folding (GO:0006457)|protein heterooligomerization (GO:0051291)|protein N-linked glycosylation via asparagine (GO:0018279)|renal system development (GO:0072001)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum lumen (GO:0005788)|intracellular (GO:0005622)	calcium ion binding (GO:0005509)|ion channel binding (GO:0044325)|phosphoprotein binding (GO:0051219)|protein kinase C binding (GO:0005080)|RNA binding (GO:0003723)	p.E321_E322delEE(1)		breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(7)|ovary(2)|pancreas(1)|prostate(3)	19						aggaggaggaggaagaagagg	0.632																																																1	Deletion - In frame(1)	central_nervous_system(1)											27	27	27					19																	11558370		2200	4298	6498	SO:0001819	synonymous_variant	5589				CCDS32911.1, CCDS45977.1, CCDS74286.1	19p13.2	2014-01-30			ENSG00000130175	ENSG00000130175	2.7.11.1	"EF-hand domain containing"	9411	protein-coding gene	gene with protein product		177060	"polycystic liver disease"	G19P1, PCLD, PLD1		12529853	Standard	NM_002743		Approved		uc002mrt.3	P14314	OTTHUMG00000182029	ENST00000589838.1:c.966G>A	19.37:g.11558370G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K318|Q96BU9|Q96D06|Q9P0W9	Silent	SNP	ENST00000589838.1	37	CCDS32911.1																																																																																				0.632	PRKCSH-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000458817.1			A	11558370	G	A	11558370	2	1	603	1	0	0	0	0	0	0	0	1	12526	991	35	2		2	PRKCSH	19	11558370	Silent	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	2510188	11558370	47570613	98	36352										
GIPC1	10755	broad.mit.edu	37	chr19	14591257	14591257	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	cgatcatgtcgcccacgctgAtgaggtggatgtggtcgatc	14	10	1	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr19:14591257A>T	ENST00000393033.4	-	6	784	c.515T>A	c.(514-516)aTc>aAc	p.I172N	GIPC1_ENST00000345425.2_Missense_Mutation_p.I172N|GIPC1_ENST00000586027.1_Missense_Mutation_p.I172N|GIPC1_ENST00000393029.3_Missense_Mutation_p.I75N|GIPC1_ENST00000591349.1_Missense_Mutation_p.I75N|GIPC1_ENST00000393028.1_Missense_Mutation_p.I75N	NM_005716.3	NP_005707.1	O14908	GIPC1_HUMAN	GIPC PDZ domain containing family, member 1	172	PDZ. {ECO:0000255|PROSITE- ProRule:PRU00143}.				endothelial cell migration (GO:0043542)|G-protein coupled receptor signaling pathway (GO:0007186)|glutamate secretion (GO:0014047)|negative regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032435)|positive regulation of cytokinesis (GO:0032467)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|protein targeting (GO:0006605)|regulation of protein stability (GO:0031647)|regulation of synaptic plasticity (GO:0048167)|synaptic transmission (GO:0007268)	brush border (GO:0005903)|cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|dendritic shaft (GO:0043198)|dendritic spine (GO:0043197)|endocytic vesicle (GO:0030139)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|synaptic vesicle (GO:0008021)|vesicle membrane (GO:0012506)	actin binding (GO:0003779)|myosin binding (GO:0017022)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)			endometrium(1)|lung(4)|upper_aerodigestive_tract(1)	6						GCCCACGCTGATGAGGTGGAT	0.677											OREG0025316	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																									Pancreas(33;78 923 2910 41023 52850)											0													81	81	81					19																	14591257		2203	4300	6503	SO:0001583	missense	10755			AF089816	CCDS12310.1, CCDS12311.1	19p13.1	2009-09-22	2005-06-28	2005-06-28					1226	protein-coding gene	gene with protein product		605072	"chromosome 19 open reading frame 3", "regulator of G-protein signalling 19 interacting protein 1"	C19orf3, RGS19IP1		9770488, 9482110	Standard	NM_005716		Approved	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP	uc002myx.4	O14908		ENST00000393033.4:c.515T>A	19.37:g.14591257A>T	ENSP00000376753:p.Ile172Asn	Somatic	696	WXS	Illumina HiSeq	Phase_I	A8K4I3|A8MZG3|Q9BTC9	Missense_Mutation	SNP	ENST00000393033.4	37	CCDS12310.1	.	.	.	.	.	.	.	.	.	.	A	26.9	4.778354	0.90195	.	.	ENSG00000123159	ENST00000393033;ENST00000345425;ENST00000393029;ENST00000393028;ENST00000351277	T;T;T;T	0.40476	1.03;1.03;1.03;1.03	4.96	4.96	0.65561	PDZ/DHR/GLGF (4);	0.105541	0.64402	D	0.000006	T	0.68293	0.2985	M	0.88241	2.94	0.80722	D	1	D	0.76494	0.999	D	0.77557	0.99	T	0.75172	-0.3411	10	0.87932	D	0	-6.4705	12.5539	0.56242	1.0:0.0:0.0:0.0	.	172	O14908	GIPC1_HUMAN	N	172;172;75;75;172	ENSP00000376753:I172N;ENSP00000340698:I172N;ENSP00000376749:I75N;ENSP00000376748:I75N	ENSP00000340698:I172N	I	-	2	0	GIPC1	14452257	1.000000	0.71417	1.000000	0.80357	0.967000	0.64934	6.736000	0.74811	1.871000	0.54225	0.459000	0.35465	ATC		0.677	GIPC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460239.2			T	14591257	A	T	14591257	3	4	603	1	0	0	0	0	1	0	0	0	6399	333	12	5	502	5	GIPC1	19	14591257	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	3032887	14591257	44537726	99	36353										
GRWD1	83743	hgsc.bcm.edu	37	chr19	48953775	48953775	+	Frame_Shift_Del	DEL	G	G	-													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tgcccttgactggtccccccGggtgaccggtgagtccctgg							TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr19:48953775delG	ENST00000253237.5	+	4	907	c.674delG	c.(673-675)cggfs	p.R225fs		NM_031485.3	NP_113673.3	Q9BQ67	GRWD1_HUMAN	glutamate-rich WD repeat containing 1	225						cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(3)|lung(10)|ovary(1)|stomach(1)	19		all_lung(116;0.000147)|Lung NSC(112;0.000251)|all_epithelial(76;0.000326)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000206)|all cancers(93;0.000207)|Epithelial(262;0.0125)|GBM - Glioblastoma multiforme(486;0.0222)		TGGTCCCCCCGGGTGACCGGT	0.667																																																0													34	37	36					19																	48953775		2203	4300	6503	SO:0001589	frameshift_variant	83743			AF337808	CCDS12720.1	19q13.33	2013-05-21				ENSG00000105447		"WD repeat domain containing"	21270	protein-coding gene	gene with protein product	regulator of ribosome biogenesis 1 homolog (S. cerevisiae)	610597				15885502	Standard	NM_031485		Approved	WDR28, GRWD, RRB1	uc002pjd.2	Q9BQ67		ENST00000253237.5:c.674delG	19.37:g.48953775delG	ENSP00000253237:p.Arg225fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TF59	Frame_Shift_Del	DEL	ENST00000253237.5	37	CCDS12720.1																																																																																				0.667	GRWD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466122.1	NM_031485		-	48953775	G	-	48953775	7	5	603	1	0	1	0	1	0	0	0	0	6818	1116	39	0	688	0	GRWD1	19	48953775	Frame_Shift_Del	DEL	G	TCGA-GL-A59T-01A-21D-A28G-10	34362518	48953775	10175208	100	36354										
FAM71E1	112703	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	50970983	50970983	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gtctcgggtcttgagtggggCccgcagctgcaagtagaagg	17	9	2	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr19:50970983C>T	ENST00000600100.1	-	4	1007	c.643G>A	c.(643-645)Gcc>Acc	p.A215T	FAM71E1_ENST00000595790.1_Missense_Mutation_p.A199T			Q6IPT2	F71E1_HUMAN	family with sequence similarity 71, member E1	215										breast(1)|kidney(1)|large_intestine(1)|lung(4)|prostate(1)	8		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.0077)|GBM - Glioblastoma multiforme(134;0.026)		TTGAGTGGGGCCCGCAGCTGC	0.602																																																0													32	31	31					19																	50970983		2203	4299	6502	SO:0001583	missense	112703				CCDS33081.1	19q13.33	2007-11-20				ENSG00000142530			25107	protein-coding gene	gene with protein product							Standard	XM_005258472		Approved		uc002psg.3	Q6IPT2		ENST00000600100.1:c.643G>A	19.37:g.50970983C>T	ENSP00000472421:p.Ala215Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q96EJ5|Q9BSM9	Missense_Mutation	SNP	ENST00000600100.1	37		.	.	.	.	.	.	.	.	.	.	C	7.100	0.573879	0.13623	.	.	ENSG00000142530	ENST00000391816;ENST00000270620	T;T	0.18810	2.19;2.19	4.0	0.357	0.16079	.	0.572956	0.13647	N	0.372543	T	0.17066	0.0410	M	0.61703	1.905	0.09310	N	1	P;B	0.39094	0.659;0.22	B;B	0.38921	0.285;0.101	T	0.13575	-1.0504	10	0.28530	T	0.3	-4.065	1.7219	0.02913	0.1668:0.4764:0.1626:0.1943	.	215;199	Q6IPT2;Q6IPT2-2	F71E1_HUMAN;.	T	215;199	ENSP00000375692:A215T;ENSP00000270620:A199T	ENSP00000270620:A199T	A	-	1	0	FAM71E1	55662795	0.005000	0.15991	0.001000	0.08648	0.017000	0.09413	0.570000	0.23653	0.060000	0.16281	0.462000	0.41574	GCC		0.602	FAM71E1-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000464754.2			T	50970983	C	T	50970983	3	4	603	1	0	0	0	0	1	0	0	0	5618	739	26	2	104	2	FAM71E1	19	50970983	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	2017208	50970983	8158000	101	36355										
ZNF615	284370	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	52496371	52496372	+	Missense_Mutation	DNP	GC	GC	AT													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	attttccacattcagtacatGcaaaggaagtctttcctgtg							TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr19:52496371_52496372GC>AT	ENST00000602063.1	-	6	2306_2307	c.1957_1958GC>AT	c.(1957-1959)GCa>ATa	p.A653I	ZNF615_ENST00000594083.1_Missense_Mutation_p.A664I|ZNF615_ENST00000598071.1_Missense_Mutation_p.A664I|ZNF615_ENST00000376716.5_Missense_Mutation_p.A653I|ZNF615_ENST00000391795.3_Missense_Mutation_p.A658I			Q8N8J6	ZN615_HUMAN	zinc finger protein 615	653					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(12)|ovary(5)|prostate(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(2)	42		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		TTCAGTACATGCAAAGGAAGTC	0.406																																																0																																										SO:0001583	missense	284370			AK096691	CCDS12846.1, CCDS59418.1	19q13.41	2013-01-08						"Zinc fingers, C2H2-type", "-"	24740	protein-coding gene	gene with protein product						12477932	Standard	NM_001199324		Approved	FLJ33710	uc002pyf.2	Q8N8J6		ENST00000602063.1:c.1957_1958delinsAT	19.37:g.52496371_52496372delinsAT	ENSP00000473089:p.Ala653Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKW9|Q2M2Y6|Q5CZB0|Q6ZMT7|Q6ZRB3	Missense_Mutation	DNP	ENST00000602063.1	37	CCDS12846.1																																																																																				0.406	ZNF615-009	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462391.1	NM_198480		AT	52496372	GC	AT	52496371	3	1	603	1	0	0	0	0	1	0	0	0	18052	1319	46	2	241	2	ZNF615	19	52496371	Missense_Mutation	DNP	GC	TCGA-GL-A59T-01A-21D-A28G-10	1525388	52496371	6632612	102	36356										
ZNF160	90338	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	53572249	53572249	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	cactgaaggctttcccacacTcattacacttgtaaggtttc	6	12	1	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr19:53572249T>C	ENST00000429604.1	-	7	1953	c.1538A>G	c.(1537-1539)gAg>gGg	p.E513G	ZNF160_ENST00000601421.1_Missense_Mutation_p.E477G|ZNF160_ENST00000418871.1_Missense_Mutation_p.E513G|ZNF160_ENST00000599056.1_Missense_Mutation_p.E513G	NM_001102603.1|NM_198893.2	NP_001096073.1|NP_942596.1	Q9HCG1	ZN160_HUMAN	zinc finger protein 160	513					hemopoiesis (GO:0030097)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(8)|lung(10)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	35				GBM - Glioblastoma multiforme(134;0.02)		TTTCCCACACTCATTACACTT	0.403																																																0													103	103	103					19																	53572249		2203	4300	6503	SO:0001583	missense	90338			X78928	CCDS12859.1	19q13.42	2013-01-08				ENSG00000170949		"Zinc fingers, C2H2-type", "-"	12948	protein-coding gene	gene with protein product		600398				7774943, 7865130	Standard	NM_198893		Approved	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611	uc002qar.4	Q9HCG1		ENST00000429604.1:c.1538A>G	19.37:g.53572249T>C	ENSP00000406201:p.Glu513Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q14589|Q504Q8|Q96JC5|Q9BVY9|Q9H7N6	Missense_Mutation	SNP	ENST00000429604.1	37	CCDS12859.1	.	.	.	.	.	.	.	.	.	.	T	11.15	1.552720	0.27739	.	.	ENSG00000170949	ENST00000429604;ENST00000418871	T;T	0.07444	3.19;3.19	2.47	0.0174	0.14112	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.20780	0.0500	M	0.64080	1.96	0.09310	N	1	D	0.89917	1.0	D	0.76575	0.988	T	0.07908	-1.0748	9	0.87932	D	0	.	6.7782	0.23630	0.363:0.0:0.0:0.637	.	513	Q9HCG1	ZN160_HUMAN	G	513	ENSP00000406201:E513G;ENSP00000409597:E513G	ENSP00000409597:E513G	E	-	2	0	ZNF160	58264061	0.000000	0.05858	0.002000	0.10522	0.354000	0.29330	0.114000	0.15520	-0.237000	0.09739	0.459000	0.35465	GAG		0.403	ZNF160-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463994.2	NM_033288		C	53572249	T	C	53572249	3	2	603	1	0	0	0	0	1	0	0	0	17751	1551	54	3	922	3	ZNF160	19	53572249	Missense_Mutation	SNP	T	TCGA-GL-A59T-01A-21D-A28G-10	1075878	53572249	5556734	103	36357										
ZNF416	55659	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	58084873	58084873	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tggtcctggtgaaagaccgcAcatgccccagtcaagtatag	11	11	1	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr19:58084873A>T	ENST00000196489.3	-	4	621	c.399T>A	c.(397-399)tgT>tgA	p.C133*		NM_017879.1	NP_060349.1	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	133					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(3)|large_intestine(5)|lung(12)|prostate(1)	22		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)		GAAAGACCGCACATGCCCCAG	0.507																																																0													108	87	94					19																	58084873		2203	4300	6503	SO:0001587	stop_gained	55659			BC000130	CCDS12954.1	19q13.4	2013-01-08				ENSG00000083817		"Zinc fingers, C2H2-type", "-"	20645	protein-coding gene	gene with protein product							Standard	NM_017879		Approved	FLJ20557	uc002qpf.3	Q9BWM5		ENST00000196489.3:c.399T>A	19.37:g.58084873A>T	ENSP00000196489:p.Cys133*	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NWW8	Nonsense_Mutation	SNP	ENST00000196489.3	37	CCDS12954.1	.	.	.	.	.	.	.	.	.	.	A	19.65	3.866781	0.72065	.	.	ENSG00000083817	ENST00000196489;ENST00000359489;ENST00000428052	.	.	.	3.34	2.32	0.28847	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	5.1875	0.15191	0.8617:0.0:0.1383:0.0	.	.	.	.	X	133;119;113	.	ENSP00000196489:C133X	C	-	3	2	ZNF416	62776685	0.001000	0.12720	0.001000	0.08648	0.004000	0.04260	0.535000	0.23114	0.501000	0.28013	0.496000	0.49642	TGT		0.507	ZNF416-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466787.1	NM_017879		T	58084873	A	T	58084873	4	4	603	1	0	0	0	0	0	1	0	0	17905	157	6	5	1389	5	ZNF416	19	58084873	Nonsense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	4512624	58084873	1044110	104	36358										
TBC1D20	128637	broad.mit.edu	37	chr20	422661	422661	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gtcaatcagttcttcctggaGcccttctctctgttcctctg	7	14	6	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr20:422661G>T	ENST00000354200.4	-	4	511	c.364C>A	c.(364-366)Ctc>Atc	p.L122I	TBC1D20_ENST00000461188.1_5'Flank	NM_144628.2	NP_653229.1	Q96BZ9	TBC20_HUMAN	TBC1 domain family, member 20	122	Rab-GAP TBC. {ECO:0000255|PROSITE- ProRule:PRU00163}.				acrosome assembly (GO:0001675)|cargo loading into COPII-coated vesicle (GO:0090110)|ER to Golgi vesicle-mediated transport (GO:0006888)|Golgi organization (GO:0007030)|lens fiber cell morphogenesis (GO:0070309)|lipid particle organization (GO:0034389)|positive regulation of ER to Golgi vesicle-mediated transport (GO:1902953)|positive regulation of GTP catabolic process (GO:0033126)|positive regulation of Rab GTPase activity (GO:0032851)|seminiferous tubule development (GO:0072520)|virion assembly (GO:0019068)	endoplasmic reticulum membrane (GO:0005789)|integral component of Golgi membrane (GO:0030173)|nuclear membrane (GO:0031965)	Rab GTPase activator activity (GO:0005097)|Rab GTPase binding (GO:0017137)			central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(2)|skin(1)|upper_aerodigestive_tract(1)	12		all_epithelial(17;0.228)|Breast(17;0.231)				TCTTCCTGGAGCCCTTCTCTC	0.517																																																0													93	91	92					20																	422661		2203	4300	6503	SO:0001583	missense	128637			AK055573	CCDS13002.1	20p13	2013-07-10	2005-01-05	2005-01-05	ENSG00000125875	ENSG00000125875			16133	protein-coding gene	gene with protein product		611663	"chromosome 20 open reading frame 140"	C20orf140		17901050	Standard	XM_005260661		Approved	dJ852M4.2	uc002wds.3	Q96BZ9	OTTHUMG00000031637	ENST00000354200.4:c.364C>A	20.37:g.422661G>T	ENSP00000346139:p.Leu122Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6I3|B9A6M1|Q5JWQ7|Q6ZSY8|Q96NE1|Q9BYM7|Q9H140	Missense_Mutation	SNP	ENST00000354200.4	37	CCDS13002.1	.	.	.	.	.	.	.	.	.	.	G	22.6	4.310040	0.81247	.	.	ENSG00000125875	ENST00000354200;ENST00000246077	T	0.04275	3.66	6.03	6.03	0.97812	Rab-GAP/TBC domain (4);	0.000000	0.85682	D	0.000000	T	0.22437	0.0541	M	0.86097	2.795	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.00137	-1.2004	10	0.46703	T	0.11	-10.3698	10.8765	0.46915	0.1422:0.0:0.8578:0.0	.	122	Q96BZ9	TBC20_HUMAN	I	122;147	ENSP00000346139:L122I	ENSP00000246077:L147I	L	-	1	0	TBC1D20	370661	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	4.393000	0.59665	2.854000	0.98071	0.655000	0.94253	CTC		0.517	TBC1D20-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251397.2	NM_144628		T	422661	G	T	422661	3	4	603	1	0	0	0	0	1	0	0	0	15621	971	34	4	867	4	TBC1D20	20	422661	Missense_Mutation	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10		422661	62602859	105	36359										
SRXN1	140809	broad.mit.edu	37	chr20	633661	633661	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ctgcaccttggcggggtccaAcacggacggcagcggccgga	16	14	0	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr20:633661A>G	ENST00000381962.3	-	1	353	c.169T>C	c.(169-171)Ttg>Ctg	p.L57L	RP5-850E9.3_ENST00000488788.2_Intron	NM_080725.1	NP_542763.1	Q9BYN0	SRXN1_HUMAN	sulfiredoxin 1	57					response to oxidative stress (GO:0006979)	cytosol (GO:0005829)	ATP binding (GO:0005524)|oxidoreductase activity, acting on a sulfur group of donors (GO:0016667)|sulfiredoxin activity (GO:0032542)			large_intestine(1)|lung(2)|ovary(1)|prostate(1)	5						GCGGGGTCCAACACGGACGGC	0.731																																																0													12	12	12					20																	633661		2174	4259	6433	SO:0001819	synonymous_variant	140809			AF075053	CCDS13005.1	20p13	2013-05-22	2010-06-24	2005-05-10	ENSG00000271303	ENSG00000271303			16132	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 139", "sulfiredoxin 1 homolog (S. cerevisiae)"	C20orf139			Standard	NM_080725		Approved	Npn3, SRX1, YKL086W, dJ850E9.2	uc002wea.4	Q9BYN0	OTTHUMG00000031644	ENST00000381962.3:c.169T>C	20.37:g.633661A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R543|Q8NDM3|Q96AK6	Silent	SNP	ENST00000381962.3	37	CCDS13005.1																																																																																				0.731	SRXN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077479.2	NM_080725		G	633661	A	G	633661	2	3	603	1	0	0	0	0	0	0	0	1	15185	40	2	3		3	SRXN1	20	633661	Silent	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	211000	633661	62391859	106	36360										
C20orf30	29058	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	5086868	5086868	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	agcctgacagcaggagggagCctataataatgagaaaggcg	14	7	0	2			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr20:5086868C>T	ENST00000379286.2	-	4	608	c.188G>A	c.(187-189)gGc>gAc	p.G63D	TMEM230_ENST00000202834.7_Missense_Mutation_p.G63D|TMEM230_ENST00000342308.5_Missense_Mutation_p.G126D|TMEM230_ENST00000379283.2_Missense_Mutation_p.G63D|TMEM230_ENST00000379277.2_Missense_Mutation_p.G63D|TMEM230_ENST00000379279.2_Missense_Mutation_p.G63D|TMEM230_ENST00000492419.1_5'UTR	NM_001009924.1	NP_001009924.1	Q96A57	TM230_HUMAN	transmembrane protein 230	63						integral component of membrane (GO:0016021)											CAGGAGGGAGCCTATAATAAT	0.453																																																0													66	66	66					20																	5086868		2203	4300	6503	SO:0001583	missense	29058			AF161392	CCDS13086.1, CCDS33438.1	20p13	2012-03-16	2012-03-16	2012-03-16	ENSG00000089063	ENSG00000089063			15876	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 30"	C20orf30			Standard	XM_005260713		Approved	HSPC274	uc002wlk.3	Q96A57	OTTHUMG00000031796	ENST00000379286.2:c.188G>A	20.37:g.5086868C>T	ENSP00000368588:p.Gly63Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDM8|D3DVZ9|Q0VGC8|Q5TDS5|Q96ES2|Q9P0A7	Missense_Mutation	SNP	ENST00000379286.2	37	CCDS13086.1	.	.	.	.	.	.	.	.	.	.	C	23.2	4.392086	0.83011	.	.	ENSG00000089063	ENST00000379283;ENST00000342308;ENST00000379299;ENST00000202834;ENST00000379286;ENST00000379279;ENST00000379277;ENST00000379276	T	0.60299	0.2	5.2	5.2	0.72013	.	0.000000	0.85682	D	0.000000	T	0.80879	0.4708	M	0.90145	3.09	0.80722	D	1	D;D;D	0.89917	0.999;1.0;1.0	D;D;D	0.81914	0.964;0.995;0.993	D	0.84375	0.0546	10	0.87932	D	0	-27.0491	17.8394	0.88711	0.0:1.0:0.0:0.0	.	63;63;126	Q5JWB9;Q96A57;Q96A57-2	.;CT030_HUMAN;.	D	63;126;63;63;63;63;63;63	ENSP00000341364:G126D	ENSP00000202834:G63D	G	-	2	0	C20orf30	5034868	1.000000	0.71417	1.000000	0.80357	0.471000	0.32888	7.104000	0.77024	2.854000	0.98071	0.655000	0.94253	GGC		0.453	TMEM230-007	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077846.1			T	5086868	C	T	5086868	3	4	603	1	0	0	0	0	1	0	0	0	2112	739	26	2	182	2	C20orf30	20	5086868	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10	4453207	5086868	57938652	107	36361										
PLCB4	5332	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	9440354	9440354	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	cccacagtgctgaggagcaaGaaatccgagacctgcacctc	10	14	0	3			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr20:9440354G>A	ENST00000378493.1	+	31	3124	c.3109G>A	c.(3109-3111)Gaa>Aaa	p.E1037K	PLCB4_ENST00000378473.3_Missense_Mutation_p.E1049K|PLCB4_ENST00000414679.2_Missense_Mutation_p.E1049K|PLCB4_ENST00000492632.1_Intron|PLCB4_ENST00000378501.2_Missense_Mutation_p.E1037K|PLCB4_ENST00000278655.4_Missense_Mutation_p.E1037K|PLCB4_ENST00000334005.3_Missense_Mutation_p.E1037K			Q15147	PLCB4_HUMAN	phospholipase C, beta 4	1037					inositol phosphate metabolic process (GO:0043647)|intracellular signal transduction (GO:0035556)|lipid catabolic process (GO:0016042)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|dendrite (GO:0030425)|nucleus (GO:0005634)|postsynaptic density (GO:0014069)|smooth endoplasmic reticulum (GO:0005790)	calcium ion binding (GO:0005509)|phosphatidylinositol phospholipase C activity (GO:0004435)|phospholipase C activity (GO:0004629)|signal transducer activity (GO:0004871)			NS(2)|breast(4)|cervix(1)|endometrium(2)|kidney(4)|large_intestine(11)|liver(4)|lung(34)|ovary(3)|pancreas(1)|prostate(1)|skin(19)|upper_aerodigestive_tract(1)	87						TGAGGAGCAAGAAATCCGAGA	0.502																																																0													64	53	57					20																	9440354		2203	4300	6503	SO:0001583	missense	5332				CCDS13104.1, CCDS13105.1, CCDS54447.1	20p12	2008-03-18			ENSG00000101333	ENSG00000101333	3.1.4.11		9059	protein-coding gene	gene with protein product		600810				8530101	Standard	NM_000933		Approved		uc021wam.1	Q15147	OTTHUMG00000031853	ENST00000378493.1:c.3109G>A	20.37:g.9440354G>A	ENSP00000367754:p.Glu1037Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLK6|E2QRH8|Q17R56|Q5JYS8|Q5JYS9|Q5JYT0|Q5JYT3|Q5JYT4|Q9BQW5|Q9BQW6|Q9BQW8|Q9UJQ2	Missense_Mutation	SNP	ENST00000378493.1	37	CCDS13105.1	.	.	.	.	.	.	.	.	.	.	G	18.17	3.565149	0.65651	.	.	ENSG00000101333	ENST00000334005;ENST00000378473;ENST00000278655;ENST00000378493;ENST00000378501;ENST00000414679	T;T;T;T;T;T	0.42900	0.96;0.96;0.96;0.96;0.96;0.96	5.51	5.51	0.81932	.	0.055638	0.64402	D	0.000001	T	0.44829	0.1312	L	0.50333	1.59	0.53688	D	0.999974	B;B;B;P	0.37824	0.042;0.021;0.083;0.609	B;B;B;P	0.44860	0.013;0.014;0.011;0.462	T	0.29027	-1.0025	10	0.35671	T	0.21	.	12.7258	0.57170	0.0753:0.0:0.9247:0.0	.	1049;884;1037;1037	E2QRH8;Q15147-2;Q15147;Q15147-4	.;.;PLCB4_HUMAN;.	K	1037;1049;1037;1037;1037;885	ENSP00000334105:E1037K;ENSP00000367734:E1049K;ENSP00000278655:E1037K;ENSP00000367754:E1037K;ENSP00000367762:E1037K;ENSP00000390616:E885K	ENSP00000278655:E1037K	E	+	1	0	PLCB4	9388354	1.000000	0.71417	0.997000	0.53966	0.965000	0.64279	7.421000	0.80204	2.578000	0.87016	0.561000	0.74099	GAA		0.502	PLCB4-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000077948.2			A	9440354	G	A	9440354	3	1	603	1	0	0	0	0	1	0	0	0	12037	943	33	2	3271	2	PLCB4	20	9440354	Missense_Mutation	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	4353486	9440354	53585166	108	36362										
MYH7B	57644	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	33567508	33567512	+	Frame_Shift_Del	DEL	TCGCT	TCGCT	-													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ctgcagcccatgaacccgccTcgcttcgacttactggagga					rs539864476|rs572570454	byFrequency	TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	TCGCT	TCGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr20:33567508_33567512delTCGCT	ENST00000262873.7	+	5	461_465	c.369_373delTCGCT	c.(367-375)cctcgcttcfs	p.RF124fs		NM_020884.3	NP_065935.2	A7E2Y1	MYH7B_HUMAN	myosin, heavy chain 7B, cardiac muscle, beta	82	Myosin motor.					membrane (GO:0016020)|myosin filament (GO:0032982)	ATP binding (GO:0005524)|motor activity (GO:0003774)			NS(2)|breast(5)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(8)|lung(19)|ovary(5)|prostate(3)|upper_aerodigestive_tract(2)|urinary_tract(3)	54			BRCA - Breast invasive adenocarcinoma(18;0.00691)			TGAACCCGCCTCGCTTCGACTTACT	0.629																																																0																																										SO:0001589	frameshift_variant	57644			AB040945	CCDS42869.1	20q11	2011-09-27	2006-09-29		ENSG00000078814	ENSG00000078814		"Myosins / Myosin superfamily : Class II"	15906	protein-coding gene	gene with protein product		609928	"myosin, heavy polypeptide 7B, cardiac muscle, beta"			11919279, 15014174	Standard	XM_006723839		Approved	KIAA1512, dJ756N5.1, MYH14, MHC14	uc002xbi.2	A7E2Y1	OTTHUMG00000032320	ENST00000262873.7:c.369_373delTCGCT	20.37:g.33567508_33567512delTCGCT	ENSP00000262873:p.Arg124fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JVW7|Q6NT44|Q6NT57|Q6WG75|Q96I57|Q9NWE2|Q9P216	Frame_Shift_Del	DEL	ENST00000262873.7	37	CCDS42869.1																																																																																				0.629	MYH7B-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000078833.2	NM_020884		-	33567512	TCGCT	-	33567508	7	5	603	1	0	1	0	1	0	0	0	0	10047	1538	54	0	387	0	MYH7B	20	33567508	Frame_Shift_Del	DEL	TCGCT	TCGA-GL-A59T-01A-21D-A28G-10	24127154	33567508	29458012	109	36363										
APP	351	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	27328004	27328004	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	acatgctcgaaatgctttagGgtgtgctgtctgtccttctg	11	9	2	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr21:27328004G>C	ENST00000346798.3	-	12	1557	c.1524C>G	c.(1522-1524)acC>acG	p.T508T	APP_ENST00000359726.3_Silent_p.T452T|APP_ENST00000440126.3_Silent_p.T484T|APP_ENST00000439274.2_Silent_p.T452T|APP_ENST00000358918.3_Silent_p.T508T|APP_ENST00000448388.2_Silent_p.T398T|APP_ENST00000357903.3_Silent_p.T489T|APP_ENST00000354192.3_Silent_p.T377T|APP_ENST00000348990.5_Silent_p.T433T	NM_000484.3	NP_000475.1	P05067	A4_HUMAN	amyloid beta (A4) precursor protein	508	Heparin-binding.				adult locomotory behavior (GO:0008344)|axon cargo transport (GO:0008088)|axon midline choice point recognition (GO:0016199)|axonogenesis (GO:0007409)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cellular copper ion homeostasis (GO:0006878)|cholesterol metabolic process (GO:0008203)|collateral sprouting in absence of injury (GO:0048669)|dendrite development (GO:0016358)|endocytosis (GO:0006897)|extracellular matrix organization (GO:0030198)|forebrain development (GO:0030900)|innate immune response (GO:0045087)|ionotropic glutamate receptor signaling pathway (GO:0035235)|locomotory behavior (GO:0007626)|mating behavior (GO:0007617)|mRNA polyadenylation (GO:0006378)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of neuron differentiation (GO:0045665)|neuromuscular process controlling balance (GO:0050885)|neuron apoptotic process (GO:0051402)|neuron projection development (GO:0031175)|neuron remodeling (GO:0016322)|Notch signaling pathway (GO:0007219)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of G2/M transition of mitotic cell cycle (GO:0010971)|positive regulation of mitotic cell cycle (GO:0045931)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein phosphorylation (GO:0006468)|regulation of epidermal growth factor-activated receptor activity (GO:0007176)|regulation of multicellular organism growth (GO:0040014)|regulation of protein binding (GO:0043393)|regulation of synapse structure and activity (GO:0050803)|regulation of translation (GO:0006417)|response to oxidative stress (GO:0006979)|smooth endoplasmic reticulum calcium ion homeostasis (GO:0051563)|suckling behavior (GO:0001967)|synaptic growth at neuromuscular junction (GO:0051124)|visual learning (GO:0008542)	apical part of cell (GO:0045177)|axon (GO:0030424)|cell surface (GO:0009986)|cell-cell junction (GO:0005911)|ciliary rootlet (GO:0035253)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendritic shaft (GO:0043198)|dendritic spine (GO:0043197)|endosome (GO:0005768)|ER to Golgi transport vesicle (GO:0030134)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|intracellular membrane-bounded organelle (GO:0043231)|membrane raft (GO:0045121)|neuromuscular junction (GO:0031594)|nuclear envelope lumen (GO:0005641)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|platelet alpha granule lumen (GO:0031093)|receptor complex (GO:0043235)|spindle midzone (GO:0051233)|synapse (GO:0045202)	acetylcholine receptor binding (GO:0033130)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|heparin binding (GO:0008201)|identical protein binding (GO:0042802)|peptidase activator activity (GO:0016504)|PTB domain binding (GO:0051425)|receptor binding (GO:0005102)|serine-type endopeptidase inhibitor activity (GO:0004867)|transition metal ion binding (GO:0046914)			endometrium(5)|large_intestine(3)|lung(11)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	22		Breast(209;0.00295)				AATGCTTTAGGGTGTGCTGTC	0.483																																																0													229	180	196					21																	27328004		2203	4300	6503	SO:0001819	synonymous_variant	351			M15533	CCDS13576.1, CCDS13577.1, CCDS33523.1, CCDS46638.1, CCDS46639.1, CCDS56211.1, CCDS56212.1, CCDS56213.1	21q21.2	2014-01-30	2008-07-31		ENSG00000142192	ENSG00000142192		"Endogenous ligands"	620	protein-coding gene	gene with protein product	"peptidase nexin-II"	104760	"Alzheimer disease"	AD1		1679289	Standard	NM_001136130		Approved		uc002ylz.3	P05067	OTTHUMG00000078438	ENST00000346798.3:c.1524C>G	21.37:g.27328004G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R5V1|B4DII8|D3DSD1|D3DSD2|D3DSD3|P09000|P78438|Q13764|Q13778|Q13793|Q16011|Q16014|Q16019|Q16020|Q6GSC0|Q8WZ99|Q9BT38|Q9UC33|Q9UCA9|Q9UCB6|Q9UCC8|Q9UCD1|Q9UQ58	Silent	SNP	ENST00000346798.3	37	CCDS13576.1	.	.	.	.	.	.	.	.	.	.	G	8.763	0.923954	0.18056	.	.	ENSG00000142192	ENST00000448850	.	.	.	5.45	3.65	0.41850	.	.	.	.	.	T	0.55970	0.1954	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.50816	-0.8783	4	.	.	.	-24.9633	7.0758	0.25203	0.3229:0.0:0.6771:0.0	.	.	.	.	A	411	.	.	P	-	1	0	APP	26249875	0.782000	0.28689	0.975000	0.42487	0.811000	0.45836	-0.105000	0.10907	0.869000	0.35703	0.655000	0.94253	CCT		0.483	APP-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000171340.1	NM_000484		C	27328004	G	C	27328004	2	2	603	1	0	0	0	0	0	0	0	1	815	1219	43	4		4	APP	21	27328004	Silent	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10		27328004	20801891	110	36364										
BRWD1	54014	bcgsc.ca	37	chr21	40646393	40646393	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ttccatctctgctaccacttAggaaccttaaaacattcaga	4	12	2	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr21:40646393A>G	ENST00000333229.2	-	13	1478	c.1151T>C	c.(1150-1152)cTa>cCa	p.L384P	BRWD1_ENST00000380800.3_Missense_Mutation_p.L384P|BRWD1_ENST00000342449.3_Missense_Mutation_p.L384P	NM_018963.4	NP_061836.2	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	384					cytoskeleton organization (GO:0007010)|regulation of cell shape (GO:0008360)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				cervix(2)|endometrium(6)|kidney(8)|large_intestine(14)|liver(2)|lung(13)|ovary(1)|pancreas(1)|prostate(2)|skin(7)|urinary_tract(2)	58		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				GCTACCACTTAGGAACCTTAA	0.378																																					Melanoma(170;988 1986 4794 16843 39731)											0													174	144	154					21																	40646393		2203	4300	6503	SO:0001583	missense	54014			AJ002572	CCDS13662.1, CCDS13663.1, CCDS33557.1	21q22.2	2013-05-21	2005-05-13	2005-05-13	ENSG00000185658	ENSG00000185658		"WD repeat domain containing"	12760	protein-coding gene	gene with protein product			"chromosome 21 open reading frame 107", "WD repeat domain 9"	C21orf107, WDR9			Standard	NM_033656		Approved	FLJ11315, N143	uc002yxk.2	Q9NSI6	OTTHUMG00000066030	ENST00000333229.2:c.1151T>C	21.37:g.40646393A>G	ENSP00000330753:p.Leu384Pro	Somatic		WXS	Illumina HiSeq	Phase_1	C9JK25|O43721|Q5R2V0|Q5R2V1|Q6P2D1|Q8TCV3|Q96QG9|Q96QH0|Q9NUK1	Missense_Mutation	SNP	ENST00000333229.2	37	CCDS13662.1	.	.	.	.	.	.	.	.	.	.	A	23.2	4.382783	0.82792	.	.	ENSG00000185658	ENST00000333229;ENST00000342449;ENST00000380800	T;T;T	0.62232	0.04;0.04;0.04	5.35	5.35	0.76521	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.229595	0.29660	N	0.011536	D	0.82430	0.5035	M	0.89904	3.07	0.80722	D	1	D;D;D	0.76494	0.989;0.997;0.999	P;D;D	0.72075	0.883;0.976;0.972	D	0.86479	0.1790	10	0.87932	D	0	-5.2723	15.3221	0.74129	1.0:0.0:0.0:0.0	.	95;384;384	Q5R2U6;Q9NSI6-2;Q9NSI6	.;.;BRWD1_HUMAN	P	384	ENSP00000330753:L384P;ENSP00000344333:L384P;ENSP00000370178:L384P	ENSP00000330753:L384P	L	-	2	0	BRWD1	39568263	1.000000	0.71417	1.000000	0.80357	0.966000	0.64601	8.798000	0.91888	2.031000	0.59945	0.397000	0.26171	CTA		0.378	BRWD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000141398.3	NM_033656		G	40646393	A	G	40646393	3	3	603	1	0	0	0	0	1	0	0	0	1527	420	15	3	6170	3	BRWD1	21	40646393	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	13318389	40646393	7483502	111	36365										
DIP2A	23181	hgsc.bcm.edu;bcgsc.ca	37	chr21	47985760	47985761	+	Frame_Shift_Del	DEL	TG	TG	-													0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tgggcaaggaccggctacctTggcttccttcggcgaacaga							TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr21:47985760_47985761delTG	ENST00000417564.2	+	36	4320_4321	c.4299_4300delTG	c.(4297-4302)cttggcfs	p.G1434fs	DIP2A_ENST00000318711.7_Frame_Shift_Del_p.G1435fs|DIP2A_ENST00000479654.1_3'UTR|DIP2A_ENST00000400274.1_Frame_Shift_Del_p.G1430fs			Q14689	DIP2A_HUMAN	DIP2 disco-interacting protein 2 homolog A (Drosophila)	1434					multicellular organismal development (GO:0007275)|negative regulation of gene expression (GO:0010629)|regulation of apoptotic process (GO:0042981)	cell surface (GO:0009986)|nucleus (GO:0005634)	catalytic activity (GO:0003824)			cervix(1)|endometrium(7)|kidney(2)|large_intestine(6)|lung(22)|ovary(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	43	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		CCGGCTACCTTGGCTTCCTTCG	0.614																																																0																																										SO:0001589	frameshift_variant	23181			AF490768	CCDS46655.1, CCDS46656.1, CCDS46657.1, CCDS54490.1, CCDS54491.1	21q22.3	2010-08-20	2006-01-13	2006-01-13	ENSG00000160305	ENSG00000160305			17217	protein-coding gene	gene with protein product		607711	"chromosome 21 open reading frame 106"	C21orf106			Standard	NM_015151		Approved	Dip2, KIAA0184	uc002zjo.2	Q14689	OTTHUMG00000090717	ENST00000417564.2:c.4299_4300delTG	21.37:g.47985760_47985761delTG	ENSP00000392066:p.Gly1434fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6P4T3|B4E0F0|E7EMA5|Q8IVA3|Q8N4S2|Q8TD89|Q96ML9	Frame_Shift_Del	DEL	ENST00000417564.2	37	CCDS46655.1																																																																																				0.614	DIP2A-012	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000376736.1	NM_015151		-	47985761	TG	-	47985760	7	5	603	1	0	1	0	1	0	0	0	0	4529	1799	63	0	4554	0	DIP2A	21	47985760	Frame_Shift_Del	DEL	TG	TCGA-GL-A59T-01A-21D-A28G-10	7339367	47985760	144135	112	36366										
ARVCF	421	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	19967613	19967613	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	cccgccagcgcggctccttgCgggcgctatccactgagggc	14	17	0	1	rs376884775		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr22:19967613C>A	ENST00000263207.3	-	6	1340	c.1049G>T	c.(1048-1050)cGc>cTc	p.R350L	ARVCF_ENST00000406259.1_Missense_Mutation_p.R350L|ARVCF_ENST00000401994.1_Missense_Mutation_p.R287L|ARVCF_ENST00000406522.1_Missense_Mutation_p.R287L|ARVCF_ENST00000344269.3_Missense_Mutation_p.R287L|ARVCF_ENST00000487793.1_5'Flank	NM_001670.2	NP_001661.1	O00192	ARVC_HUMAN	armadillo repeat gene deleted in velocardiofacial syndrome	350					calcium-dependent cell-cell adhesion (GO:0016339)|cell adhesion (GO:0007155)|multicellular organismal development (GO:0007275)|single organismal cell-cell adhesion (GO:0016337)	cytoplasm (GO:0005737)|intracellular (GO:0005622)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				NS(1)|cervix(1)|endometrium(3)|liver(1)|lung(4)|prostate(1)|urinary_tract(2)	13	Colorectal(54;0.0993)					CGGCTCCTTGCGGGCGCTATC	0.726																																																0													5	7	6					22																	19967613		2043	3993	6036	SO:0001583	missense	421				CCDS13771.1	22q11.21	2013-02-14	2010-04-28		ENSG00000099889	ENSG00000099889		"Armadillo repeat containing"	728	protein-coding gene	gene with protein product		602269				9126485, 15456900	Standard	NM_001670		Approved		uc002zqz.3	O00192	OTTHUMG00000030426	ENST00000263207.3:c.1049G>T	22.37:g.19967613C>A	ENSP00000263207:p.Arg350Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7WNV2	Missense_Mutation	SNP	ENST00000263207.3	37	CCDS13771.1	.	.	.	.	.	.	.	.	.	.	C	32	5.120544	0.94385	.	.	ENSG00000099889	ENST00000263207;ENST00000344269;ENST00000401994;ENST00000406522;ENST00000406259	T;T;T;T;T	0.69435	-0.4;-0.34;-0.34;-0.34;-0.4	5.35	4.33	0.51752	Armadillo-like helical (1);	0.049736	0.85682	D	0.000000	T	0.61788	0.2375	L	0.38838	1.175	0.80722	D	1	P	0.49090	0.919	P	0.46850	0.529	T	0.60747	-0.7202	9	.	.	.	-18.2472	14.2537	0.66038	0.0:0.9281:0.0:0.0719	.	350	O00192	ARVC_HUMAN	L	350;287;287;287;350	ENSP00000263207:R350L;ENSP00000342042:R287L;ENSP00000384341:R287L;ENSP00000384732:R287L;ENSP00000385444:R350L	.	R	-	2	0	ARVCF	18347613	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	5.598000	0.67585	1.406000	0.46857	0.655000	0.94253	CGC		0.726	ARVCF-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000075314.5	NM_001670		A	19967613	C	A	19967613	3	1	603	1	0	0	0	0	1	0	0	0	1003	768	27	4	1895	4	ARVCF	22	19967613	Missense_Mutation	SNP	C	TCGA-GL-A59T-01A-21D-A28G-10		19967613	31336953	113	36367										
NEFH	4744	hgsc.bcm.edu	37	chr22	29885562	29885562	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ccaagtctccaacgaaggagGaagcaaagtcccctgagaag	11	11	1	1	rs370929798		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr22:29885562G>A	ENST00000310624.6	+	4	1966	c.1933G>A	c.(1933-1935)Gaa>Aaa	p.E645K		NM_021076.3	NP_066554.2	P12036	NFH_HUMAN	neurofilament, heavy polypeptide	645	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.				axon development (GO:0061564)|axonogenesis (GO:0007409)|cell death (GO:0008219)|cell projection assembly (GO:0030031)|microtubule cytoskeleton organization (GO:0000226)|neurofilament bundle assembly (GO:0033693)|peripheral nervous system neuron axonogenesis (GO:0048936)|regulation of organelle transport along microtubule (GO:1902513)	axon (GO:0030424)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|neurofibrillary tangle (GO:0097418)|neurofilament (GO:0005883)	dynein binding (GO:0045502)|kinesin binding (GO:0019894)|microtubule binding (GO:0008017)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(12)|ovary(2)|skin(3)	30						AACGAAGGAGGAAGCAAAGTC	0.562																																																0													82	88	86					22																	29885562		2203	4300	6503	SO:0001583	missense	4744				CCDS13858.1	22q12.2	2013-01-16	2008-09-19		ENSG00000100285	ENSG00000100285		"Intermediate filaments type IV"	7737	protein-coding gene	gene with protein product		162230	"neurofilament, heavy polypeptide 200kDa"				Standard	NM_021076		Approved		uc003afo.3	P12036	OTTHUMG00000151155	ENST00000310624.6:c.1933G>A	22.37:g.29885562G>A	ENSP00000311997:p.Glu645Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYY4|Q96HF8|Q9UJS7|Q9UQ14	Missense_Mutation	SNP	ENST00000310624.6	37	CCDS13858.1	.	.	.	.	.	.	.	.	.	.	G	9.212	1.031217	0.19590	.	.	ENSG00000100285	ENST00000328842;ENST00000310624	D	0.83914	-1.78	4.97	4.97	0.65823	.	0.115504	0.38778	N	0.001569	D	0.87783	0.6264	L	0.61218	1.895	0.29104	N	0.881289	P	0.36712	0.566	P	0.52267	0.694	D	0.83526	0.0088	10	0.44086	T	0.13	.	16.1111	0.81263	0.0:0.0:1.0:0.0	.	645	P12036	NFH_HUMAN	K	645	ENSP00000311997:E645K	ENSP00000311997:E645K	E	+	1	0	NEFH	28215562	0.001000	0.12720	0.367000	0.25926	0.091000	0.18340	0.923000	0.28757	2.745000	0.94114	0.491000	0.48974	GAA		0.562	NEFH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321553.2	NM_021076		A	29885562	G	A	29885562	3	1	603	1	0	0	0	0	1	0	0	0	10321	1175	41	2	1947	2	NEFH	22	29885562	Missense_Mutation	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	9917949	29885562	21419004	114	36368										
CACNA1I	8911	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	40055466	40055466	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	ggatgcatatttttggctgcAagttcagcctccgcacggac	11	11	1	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr22:40055466A>G	ENST00000402142.3	+	13	2359	c.2359A>G	c.(2359-2361)Aag>Gag	p.K787E	CACNA1I_ENST00000404898.1_Missense_Mutation_p.K752E|CACNA1I_ENST00000336649.4_Missense_Mutation_p.K793E|CACNA1I_ENST00000401624.1_Missense_Mutation_p.K787E|CACNA1I_ENST00000407673.1_Missense_Mutation_p.K752E|CACNA1I_ENST00000400164.3_Missense_Mutation_p.K752E	NM_021096.3	NP_066919.2	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type, alpha 1I subunit	787					axon guidance (GO:0007411)|calcium ion import (GO:0070509)|membrane depolarization during action potential (GO:0086010)|neuronal action potential (GO:0019228)|signal transduction (GO:0007165)|sleep (GO:0030431)|transport (GO:0006810)	plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	voltage-gated calcium channel activity (GO:0005245)			breast(2)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|liver(2)|lung(27)|ovary(1)|pancreas(2)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	60	Melanoma(58;0.0749)				Cinnarizine(DB00568)|Flunarizine(DB04841)|Paramethadione(DB00617)|Spironolactone(DB00421)|Verapamil(DB00661)|Zonisamide(DB00909)	TTTTGGCTGCAAGTTCAGCCT	0.552																																																0													51	52	52					22																	40055466		2095	4208	6303	SO:0001583	missense	8911			AF129133	CCDS46710.1, CCDS46711.1	22q13.1	2012-03-07	2007-02-16		ENSG00000100346	ENSG00000100346		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1396	protein-coding gene	gene with protein product		608230				10454147, 16382099	Standard	NM_021096		Approved	Cav3.3	uc003ayd.3	Q9P0X4	OTTHUMG00000151096	ENST00000402142.3:c.2359A>G	22.37:g.40055466A>G	ENSP00000385019:p.Lys787Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B0QY12|B0QY13|B0QY14|O95504|Q5JZ88|Q7Z6S9|Q8NFX6|Q9NZC8|Q9UH15|Q9UH30|Q9ULU9|Q9UNE6	Missense_Mutation	SNP	ENST00000402142.3	37	CCDS46710.1	.	.	.	.	.	.	.	.	.	.	A	27.2	4.813895	0.90790	.	.	ENSG00000100346	ENST00000402142;ENST00000404898;ENST00000401624;ENST00000407673;ENST00000336649;ENST00000400164	D;D;D;D;D;D	0.98400	-4.91;-4.91;-4.91;-4.91;-4.91;-4.91	4.3	4.3	0.51218	Ion transport (1);	0.048588	0.85682	D	0.000000	D	0.98544	0.9514	M	0.69185	2.1	0.58432	D	0.999994	D;D;D;D	0.76494	0.999;0.998;0.999;0.999	D;D;D;D	0.85130	0.995;0.948;0.997;0.996	D	0.99593	1.0976	10	0.87932	D	0	.	13.8843	0.63699	1.0:0.0:0.0:0.0	.	752;787;752;787	Q9P0X4-3;Q9P0X4-2;Q9P0X4-4;Q9P0X4	.;.;.;CAC1I_HUMAN	E	787;752;787;752;793;752	ENSP00000385019:K787E;ENSP00000384093:K752E;ENSP00000383887:K787E;ENSP00000385680:K752E;ENSP00000337829:K793E;ENSP00000383028:K752E	ENSP00000337829:K793E	K	+	1	0	CACNA1I	38385412	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	8.849000	0.92178	1.920000	0.55613	0.459000	0.35465	AAG		0.552	CACNA1I-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000321290.1	NM_001003406		G	40055466	A	G	40055466	3	3	603	1	0	0	0	0	1	0	0	0	2548	131	5	3	2409	3	CACNA1I	22	40055466	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	10169904	40055466	11249100	115	36369										
PKDREJ	10343	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	46654194	46654194	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gcctcggattcggacgatctGgtcatgtatcctctgcattt	10	11	3	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr22:46654194G>A	ENST00000253255.5	-	1	5025	c.5026C>T	c.(5026-5028)Cag>Tag	p.Q1676*		NM_006071.1	NP_006062.1	Q9NTG1	PKDRE_HUMAN	polycystin (PKD) family receptor for egg jelly	1676					acrosome reaction (GO:0007340)|calcium ion transmembrane transport (GO:0070588)|detection of mechanical stimulus (GO:0050982)|neuropeptide signaling pathway (GO:0007218)|regulation of acrosome reaction (GO:0060046)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)			NS(2)|breast(7)|central_nervous_system(1)|cervix(3)|endometrium(4)|kidney(5)|large_intestine(21)|lung(16)|ovary(2)|prostate(6)|skin(4)|upper_aerodigestive_tract(2)	73		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		CGGACGATCTGGTCATGTATC	0.418																																																0													200	166	178					22																	46654194		2203	4300	6503	SO:0001587	stop_gained	10343			AF116458	CCDS14073.1	22q13.31	2013-07-31	2013-07-31		ENSG00000130943	ENSG00000130943			9015	protein-coding gene	gene with protein product		604670	"polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly, sea urchin homolog)-like", "polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly homolog, sea urchin)-like", "polycystic kidney disease (polycystin) and REJ homolog (sperm receptor for egg jelly homolog, sea urchin)"			9949214, 10591208	Standard	NM_006071		Approved		uc003bhh.3	Q9NTG1	OTTHUMG00000150493	ENST00000253255.5:c.5026C>T	22.37:g.46654194G>A	ENSP00000253255:p.Gln1676*	Somatic		WXS	Illumina HiSeq	Phase_I	B1AJY3|O95850	Nonsense_Mutation	SNP	ENST00000253255.5	37	CCDS14073.1	.	.	.	.	.	.	.	.	.	.	g	42	9.331670	0.99138	.	.	ENSG00000130943	ENST00000253255	.	.	.	4.95	-3.76	0.04359	.	1.756340	0.02965	N	0.143633	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.11794	T	0.64	-0.9396	3.1764	0.06570	0.1516:0.388:0.2844:0.1761	.	.	.	.	X	1676	.	ENSP00000253255:Q1676X	Q	-	1	0	PKDREJ	45032858	0.000000	0.05858	0.000000	0.03702	0.449000	0.32228	0.053000	0.14184	-0.308000	0.08792	0.298000	0.19748	CAG		0.418	PKDREJ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318466.1	NM_006071		A	46654194	G	A	46654194	4	1	603	1	0	0	0	0	0	1	0	0	11977	1357	47	2	1739	2	PKDREJ	22	46654194	Nonsense_Mutation	SNP	G	TCGA-GL-A59T-01A-21D-A28G-10	6598728	46654194	4650372	116	36370										
TTC38	55020	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	46677589	46677589	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	tcaaggatgggttggaattcAtgcagcactcagagaccttc	11	9	3	1			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chr22:46677589A>G	ENST00000381031.3	+	7	785	c.709A>G	c.(709-711)Atg>Gtg	p.M237V	TTC38_ENST00000445282.2_Missense_Mutation_p.M179V	NM_017931.2	NP_060401	Q5R3I4	TTC38_HUMAN	tetratricopeptide repeat domain 38	237						extracellular vesicular exosome (GO:0070062)				endometrium(4)|large_intestine(3)|lung(4)|ovary(1)	12						GTTGGAATTCATGCAGCACTC	0.512																																																0													125	128	127					22																	46677589		2092	4220	6312	SO:0001583	missense	55020				CCDS43030.1	22q13	2013-01-11			ENSG00000075234	ENSG00000075234		"Tetratricopeptide (TTC) repeat domain containing"	26082	protein-coding gene	gene with protein product							Standard	NM_017931		Approved	FLJ20699	uc003bhi.3	Q5R3I4	OTTHUMG00000150494	ENST00000381031.3:c.709A>G	22.37:g.46677589A>G	ENSP00000370419:p.Met237Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WV27|Q9NWP8	Missense_Mutation	SNP	ENST00000381031.3	37	CCDS43030.1	.	.	.	.	.	.	.	.	.	.	A	21.0	4.079821	0.76528	.	.	ENSG00000075234	ENST00000381031;ENST00000445282	T;T	0.75704	1.62;-0.96	5.79	5.79	0.91817	Tetratricopeptide-like helical (1);	0.072520	0.85682	D	0.000000	D	0.84320	0.5446	M	0.79693	2.465	0.58432	D	0.999992	D;D	0.62365	0.991;0.962	P;P	0.59171	0.853;0.523	D	0.84956	0.0874	10	0.42905	T	0.14	-12.5636	15.3166	0.74085	1.0:0.0:0.0:0.0	.	179;237	E7ES35;Q5R3I4	.;TTC38_HUMAN	V	237;179	ENSP00000370419:M237V;ENSP00000393960:M179V	ENSP00000370419:M237V	M	+	1	0	TTC38	45056253	1.000000	0.71417	1.000000	0.80357	0.785000	0.44390	4.319000	0.59197	2.207000	0.71202	0.533000	0.62120	ATG		0.512	TTC38-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000318469.1	NM_017931		G	46677589	A	G	46677589	3	3	603	1	0	0	0	0	1	0	0	0	16718	217	8	3	735	3	TTC38	22	46677589	Missense_Mutation	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	23395	46677589	4626977	117	36371										
WWC3	55841	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	10062249	10062249	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gtggacttccctcaccatgtAggcgtgcctggcgatgctgg	14	12	1	0			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chrX:10062249A>T	ENST00000380861.4	+	7	976	c.585A>T	c.(583-585)gtA>gtT	p.V195V	WWC3_ENST00000454666.1_Silent_p.V195V	NM_015691.3	NP_056506.2	Q9ULE0	WWC3_HUMAN	WWC family member 3	195					negative regulation of hippo signaling (GO:0035331)|negative regulation of organ growth (GO:0046621)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)	cytosol (GO:0005829)	kinase binding (GO:0019900)|protein complex scaffold (GO:0032947)			NS(1)|breast(3)|endometrium(10)|kidney(1)|large_intestine(11)|lung(17)|ovary(5)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	52						CTCACCATGTAGGCGTGCCTG	0.577																																																0													144	125	132					X																	10062249		2203	4300	6503	SO:0001819	synonymous_variant	55841			AK091936	CCDS14136.1	Xp22.32	2008-02-05			ENSG00000047644	ENSG00000047644		"WW, C2 and coiled-coil domain containing"	29237	protein-coding gene	gene with protein product						10574462	Standard	NM_015691		Approved	KIAA1280, BM042	uc004csx.4	Q9ULE0	OTTHUMG00000021123	ENST00000380861.4:c.585A>T	X.37:g.10062249A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8KA96|Q659C1|Q9BTQ1	Silent	SNP	ENST00000380861.4	37	CCDS14136.1																																																																																				0.577	WWC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055725.1	NM_015691		T	10062249	A	T	10062249	2	4	603	1	0	0	0	0	0	0	0	1	17425	407	15	5		5	WWC3	23	10062249	Silent	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10		10062249	145208311	118	36372										
HUWE1	10075	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	53584383	53584383	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0512820512820513	6	1	1.0482132728304	0	1.18613607188703	0.00216450216450216	0.253607503607503	0	gagtcatttgacttagatgcAgtacactgcaaaaagaaggg	11	6	1	3			TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	g.chrX:53584383A>G	ENST00000342160.3	-	59	8623	c.8166T>C	c.(8164-8166)acT>acC	p.T2722T	MIR98_ENST00000606724.1_RNA|MIRLET7F2_ENST00000385277.1_RNA|HUWE1_ENST00000262854.6_Silent_p.T2722T			Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1, E3 ubiquitin protein ligase	2722					base-excision repair (GO:0006284)|cell differentiation (GO:0030154)|histone ubiquitination (GO:0016574)|protein monoubiquitination (GO:0006513)|protein polyubiquitination (GO:0000209)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	DNA binding (GO:0003677)|ligase activity (GO:0016874)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)			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						ACTTAGATGCAGTACACTGCA	0.428																																																0													137	122	127					X																	53584383		2203	4300	6503	SO:0001819	synonymous_variant	10075			AB071605	CCDS35301.1	Xp11.22	2014-06-09	2012-02-23		ENSG00000086758	ENSG00000086758			30892	protein-coding gene	gene with protein product		300697	"HECT, UBA and WWE domain containing 1"			9205841, 10998601	Standard	NM_031407		Approved	Ib772, KIAA0312, UREB1	uc004dsp.4	Q7Z6Z7	OTTHUMG00000021617	ENST00000342160.3:c.8166T>C	X.37:g.53584383A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O15029|Q4G2Z2|Q5H961|Q6P4D0|Q8NG67|Q9BUI0|Q9HCJ4|Q9NSL6|Q9P0A9	Silent	SNP	ENST00000342160.3	37	CCDS35301.1	.	.	.	.	.	.	.	.	.	.	A	8.337	0.827732	0.16749	.	.	ENSG00000086758	ENST00000427052	.	.	.	5.64	0.708	0.18144	.	.	.	.	.	T	0.22126	0.0533	.	.	.	0.09310	N	1	.	.	.	.	.	.	T	0.22695	-1.0209	4	.	.	.	.	3.0889	0.06286	0.3857:0.0:0.3048:0.3095	.	.	.	.	R	1756	.	.	C	-	1	0	HUWE1	53601108	0.001000	0.12720	0.177000	0.23020	0.915000	0.54546	0.717000	0.25851	0.266000	0.21894	0.486000	0.48141	TGC		0.428	HUWE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056766.1	XM_497119		G	53584383	A	G	53584383	2	3	603	1	0	0	0	0	0	0	0	1	7468	175	7	3		3	HUWE1	23	53584383	Silent	SNP	A	TCGA-GL-A59T-01A-21D-A28G-10	43522134	53584383	101686177	119	36373										
DDI2	84301	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	15956850	15956850	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	aatagatttcagtagtatagCtgtgcctggcacatcaagtc	9	8	2	1			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr1:15956850C>A	ENST00000480945.1	+	3	470	c.299C>A	c.(298-300)gCt>gAt	p.A100D		NM_032341.4	NP_115717.3	Q5TDH0	DDI2_HUMAN	DNA-damage inducible 1 homolog 2 (S. cerevisiae)	100							aspartic-type endopeptidase activity (GO:0004190)			breast(1)|central_nervous_system(2)|endometrium(2)|large_intestine(2)|lung(7)|pancreas(1)|prostate(1)|stomach(1)	17		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00327)|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;9.03e-07)|COAD - Colon adenocarcinoma(227;4.48e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00773)|READ - Rectum adenocarcinoma(331;0.0656)		AGTAGTATAGCTGTGCCTGGC	0.473																																																0													86	88	87					1																	15956850		2203	4300	6503	SO:0001583	missense	84301				CCDS30607.1	1p36.13	2010-05-04	2010-05-04		ENSG00000197312	ENSG00000197312			24578	protein-coding gene	gene with protein product			"DDI1, DNA-damage inducible 1, homolog 2 (S. cerevisiae)"				Standard	NM_032341		Approved	MGC14844	uc001awx.2	Q5TDH0	OTTHUMG00000002381	ENST00000480945.1:c.299C>A	1.37:g.15956850C>A	ENSP00000417748:p.Ala100Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAE1|Q7RTZ0|Q9BRT1	Missense_Mutation	SNP	ENST00000480945.1	37	CCDS30607.1	.	.	.	.	.	.	.	.	.	.	C	21.7	4.182624	0.78677	.	.	ENSG00000197312	ENST00000480945	T	0.23552	1.9	5.9	5.9	0.94986	.	0.130770	0.51477	U	0.000091	T	0.34774	0.0909	M	0.71036	2.16	0.80722	D	1	P	0.44946	0.846	B	0.40101	0.319	T	0.19321	-1.0309	10	0.56958	D	0.05	-28.9484	19.873	0.96856	0.0:1.0:0.0:0.0	.	100	Q5TDH0	DDI2_HUMAN	D	100	ENSP00000417748:A100D	ENSP00000417748:A100D	A	+	2	0	DDI2	15829437	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.971000	0.76105	2.802000	0.96397	0.650000	0.86243	GCT		0.473	DDI2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006826.1	NM_032341		A	15956850	C	A	15956850	3	1	604	1	0	0	0	0	1	0	0	0	4331	797	28	4	309	4	DDI2	1	15956850	Missense_Mutation	SNP	C	TCGA-HE-7128-01A-11D-1961-08		15956850	233293771	1	36374										
NRXN1	9378	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	50149203	50149203	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	agttactgatgtagtttcgaCtctcgtccacatggtatgag	10	8	1	2			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr2:50149203C>G	ENST00000406316.2	-	22	5789	c.4313G>C	c.(4312-4314)aGt>aCt	p.S1438T	NRXN1_ENST00000406859.3_Missense_Mutation_p.S1438T|NRXN1_ENST00000401710.1_Missense_Mutation_p.S456T|NRXN1_ENST00000405472.3_Missense_Mutation_p.S1460T|NRXN1_ENST00000401669.2_Missense_Mutation_p.S1468T|NRXN1_ENST00000402717.3_Missense_Mutation_p.S1460T|NRXN1_ENST00000342183.5_Missense_Mutation_p.S403T|NRXN1_ENST00000404971.1_Missense_Mutation_p.S1508T	NM_004801.4	NP_004792.1	Q9ULB1	NRX1A_HUMAN	neurexin 1	1438					adult behavior (GO:0030534)|axon guidance (GO:0007411)|calcium-dependent cell-cell adhesion (GO:0016339)|cerebellar granule cell differentiation (GO:0021707)|establishment of protein localization (GO:0045184)|extracellular matrix organization (GO:0030198)|gamma-aminobutyric acid receptor clustering (GO:0097112)|gephyrin clustering (GO:0097116)|guanylate kinase-associated protein clustering (GO:0097117)|heterophilic cell-cell adhesion (GO:0007157)|learning (GO:0007612)|N-methyl-D-aspartate receptor clustering (GO:0097114)|negative regulation of filopodium assembly (GO:0051490)|neuroligin clustering (GO:0097118)|neuromuscular process controlling balance (GO:0050885)|neuron cell-cell adhesion (GO:0007158)|neuron maturation (GO:0042551)|neurotransmitter secretion (GO:0007269)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of synapse assembly (GO:0051965)|positive regulation of synapse maturation (GO:0090129)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|postsynaptic density protein 95 clustering (GO:0097119)|postsynaptic membrane assembly (GO:0097104)|presynaptic membrane assembly (GO:0097105)|receptor localization to synapse (GO:0097120)|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:2000311)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)|synaptic vesicle clustering (GO:0097091)|vocal learning (GO:0042297)|vocalization behavior (GO:0071625)	axonal growth cone (GO:0044295)|cell junction (GO:0030054)|cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|presynaptic membrane (GO:0042734)	acetylcholine receptor binding (GO:0033130)|calcium channel regulator activity (GO:0005246)|calcium ion binding (GO:0005509)|cell adhesion molecule binding (GO:0050839)|neuroligin family protein binding (GO:0097109)|receptor activity (GO:0004872)			breast(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(33)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	58		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GTAGTTTCGACTCTCGTCCAC	0.478																																																0													230	185	200					2																	50149203		2203	4300	6503	SO:0001583	missense	9378			AB011150	CCDS1845.1, CCDS46282.1, CCDS54360.1	2p16.3	2008-05-15			ENSG00000179915	ENSG00000179915			8008	protein-coding gene	gene with protein product		600565					Standard	NM_001135659		Approved	KIAA0578, Hs.22998	uc021vhj.1	P58400	OTTHUMG00000129263	ENST00000406316.2:c.4313G>C	2.37:g.50149203C>G	ENSP00000384311:p.Ser1438Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A7KRL9|O60323|Q53TJ9|Q53TQ1|Q9C079|Q9C080|Q9C081|Q9H3M2|Q9UDM6	Missense_Mutation	SNP	ENST00000406316.2	37	CCDS54360.1	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	C|C|C	12.73|12.73|12.73	2.026044|2.026044|2.026044	0.35701|0.35701|0.35701	.|.|.	.|.|.	ENSG00000179915|ENSG00000179915|ENSG00000179915	ENST00000378262|ENST00000342183;ENST00000536347;ENST00000401710;ENST00000404971;ENST00000406316;ENST00000405472;ENST00000401669;ENST00000536085;ENST00000402717;ENST00000406859|ENST00000412315	T|T;T;T;T;T;T;T;T|.	0.70869|0.72615|.	-0.52|0.82;2.08;0.04;0.05;-0.67;-0.56;-0.27;-0.09|.	5.44|5.44|5.44	5.44|5.44|5.44	0.79542|0.79542|0.79542	.|Neurexin/syndecan/glycophorin C (1);|.	.|0.000000|.	.|0.64402|.	.|U|.	.|0.000011|.	T|T|T	0.60457|0.60457|0.60457	0.2270|0.2270|0.2270	L|L|L	0.33245|0.33245|0.33245	0.995|0.995|0.995	0.51012|0.51012|0.51012	D|D|D	0.999905|0.999905|0.999905	.|P;B;B;D;P;B|.	.|0.61697|.	.|0.877;0.296;0.172;0.99;0.946;0.452|.	.|D;B;B;D;P;P|.	.|0.72982|.	.|0.916;0.101;0.145;0.979;0.77;0.762|.	T|T|T	0.52779|0.52779|0.52779	-0.8530|-0.8530|-0.8530	7|10|5	0.72032|0.29301|.	D|T|.	0.01|0.29|.	.|.|.	19.4587|19.4587|19.4587	0.94906|0.94906|0.94906	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.|.	.|103;1508;403;1438;1457;100|.	.|B4DIT5;Q9ULB1-3;P58400;F8WB18;A7E294;Q5HYI0|.	.|.;.;NRX1B_HUMAN;.;.;.|.	D|T|L	104|403;357;456;1508;1438;1460;1468;1509;1460;1438|171	ENSP00000367510:E104D|ENSP00000341184:S403T;ENSP00000385580:S456T;ENSP00000385142:S1508T;ENSP00000384311:S1438T;ENSP00000434015:S1460T;ENSP00000385017:S1468T;ENSP00000385434:S1460T;ENSP00000385681:S1438T|.	ENSP00000367510:E104D|ENSP00000341184:S403T|.	E|S|V	-|-|-	3|2|1	2|0|0	NRXN1|NRXN1|NRXN1	50002707|50002707|50002707	1.000000|1.000000|1.000000	0.71417|0.71417|0.71417	1.000000|1.000000|1.000000	0.80357|0.80357|0.80357	0.999000|0.999000|0.999000	0.98932|0.98932|0.98932	7.651000|7.651000|7.651000	0.83577|0.83577|0.83577	2.828000|2.828000|2.828000	0.97474|0.97474|0.97474	0.655000|0.655000|0.655000	0.94253|0.94253|0.94253	GAG|AGT|GTC		0.478	NRXN1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000325291.2			G	50149203	C	G	50149203	3	3	604	1	0	0	0	0	1	0	0	0	10672	565	20	4	124	4	NRXN1	2	50149203	Missense_Mutation	SNP	C	TCGA-HE-7128-01A-11D-1961-08		50149203	193050170	2	36375										
CCDC88A	55704	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	55523606	55523606	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	ctcatggtcatgaagcaggcTaaattctccactgctgtggc	10	11	3	1			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr2:55523606T>C	ENST00000436346.1	-	30	5720	c.4879A>G	c.(4879-4881)Agc>Ggc	p.S1627G	CCDC88A_ENST00000422883.2_Missense_Mutation_p.S128G|CCDC88A_ENST00000263630.8_Missense_Mutation_p.S1599G|CCDC88A_ENST00000413716.2_Missense_Mutation_p.S1626G|CCDC88A_ENST00000336838.6_Missense_Mutation_p.S1626G	NM_001135597.1|NM_001254943.1	NP_001129069.1|NP_001241872.1	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A	1627					activation of protein kinase B activity (GO:0032148)|cell migration (GO:0016477)|DNA replication (GO:0006260)|lamellipodium assembly (GO:0030032)|membrane organization (GO:0061024)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of cell proliferation (GO:0042127)|regulation of DNA replication (GO:0006275)|regulation of neuron projection development (GO:0010975)|regulation of protein phosphorylation (GO:0001932)|TOR signaling (GO:0031929)	cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|lamellipodium (GO:0030027)|membrane (GO:0016020)|plasma membrane (GO:0005886)	actin binding (GO:0003779)|microtubule binding (GO:0008017)|phosphatidylinositol binding (GO:0035091)|protein homodimerization activity (GO:0042803)|protein kinase B binding (GO:0043422)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(22)|lung(23)|ovary(3)|pancreas(1)|prostate(3)|skin(4)|stomach(1)|urinary_tract(1)	69						TGAAGCAGGCTAAATTCTCCA	0.453																																																0													119	105	110					2																	55523606		2203	4300	6503	SO:0001583	missense	55704			AB033038, AF112218	CCDS33203.1, CCDS46288.1, CCDS58710.1	2p16.3	2013-03-13	2007-05-31	2007-05-31	ENSG00000115355	ENSG00000115355			25523	protein-coding gene	gene with protein product	"Galpha-interacting vesicle-associated protein", "Akt-phosphorylation enhancer", "girdin", "girders of actin filaments"	609736	"KIAA1212"	KIAA1212		15749703, 15753085	Standard	NM_001135597		Approved	FLJ10392, APE, GIV, HkRP1, GRDN	uc002ryv.2	Q3V6T2	OTTHUMG00000151915	ENST00000436346.1:c.4879A>G	2.37:g.55523606T>C	ENSP00000410608:p.Ser1627Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A1IGE7|B7ZM78|C9JG83|Q53SF1|Q581G3|Q5HYD0|Q7Z339|Q7Z3C5	Missense_Mutation	SNP	ENST00000436346.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	14.68|14.68	2.606920|2.606920	0.46527|0.46527	.|.	.|.	ENSG00000115355|ENSG00000115355	ENST00000336838;ENST00000263630;ENST00000436346;ENST00000422883;ENST00000412148;ENST00000413716;ENST00000426576|ENST00000456975	T;T;T;T;T;T|.	0.52295|.	2.4;2.38;2.62;0.67;2.4;1.32|.	5.39|5.39	5.39|5.39	0.77823|0.77823	.|.	0.000000|.	0.56097|.	U|.	0.000024|.	T|.	0.69024|.	0.3065|.	L|L	0.54323|0.54323	1.7|1.7	0.58432|0.58432	D|D	0.999998|0.999998	B;D;D;D;B;D;D|.	0.63046|.	0.005;0.99;0.982;0.982;0.05;0.992;0.99|.	B;D;D;D;B;D;D|.	0.74674|.	0.012;0.979;0.952;0.961;0.019;0.984;0.979|.	T|.	0.67436|.	-0.5671|.	10|.	0.27082|.	T|.	0.32|.	-9.3716|-9.3716	15.4218|15.4218	0.75018|0.75018	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	1626;1599;1544;128;1627;1626;1598|.	B7ZM78;Q3V6T2-2;D6W5D1;B3KW94;Q3V6T2;Q3V6T2-3;Q3V6T2-4|.	.;.;.;.;GRDN_HUMAN;.;.|.	G|W	1626;1599;1627;128;644;1626;802|579	ENSP00000338728:S1626G;ENSP00000263630:S1599G;ENSP00000410608:S1627G;ENSP00000390012:S644G;ENSP00000404431:S1626G;ENSP00000405080:S802G|.	ENSP00000263630:S1599G|.	S|X	-|-	1|2	0|0	CCDC88A|CCDC88A	55377110|55377110	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.995000|0.995000	0.86356|0.86356	7.274000|7.274000	0.78538|0.78538	2.051000|2.051000	0.60960|0.60960	0.383000|0.383000	0.25322|0.25322	AGC|TAG		0.453	CCDC88A-203	KNOWN	basic	protein_coding	protein_coding		NM_017571		C	55523606	T	C	55523606	3	2	604	1	0	0	0	0	1	0	0	0	2865	1522	53	3	748	3	CCDC88A	2	55523606	Missense_Mutation	SNP	T	TCGA-HE-7128-01A-11D-1961-08	5374403	55523606	187675767	3	36376										
FAM161A	84140	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	62067675	62067675	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	caggctctgaaaatgatgtcAttaatgagacagggtgatag	12	5	2	4			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr2:62067675A>T	ENST00000405894.3	-	3	565	c.464T>A	c.(463-465)aTg>aAg	p.M155K	FAM161A_ENST00000404929.1_Missense_Mutation_p.M155K	NM_032180.2	NP_115556.2	Q3B820	F161A_HUMAN	family with sequence similarity 161, member A	155					cilium assembly (GO:0042384)|response to stimulus (GO:0050896)|visual perception (GO:0007601)	centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|photoreceptor connecting cilium (GO:0032391)				breast(1)|endometrium(5)|large_intestine(8)|lung(4)|ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	25						AAATGATGTCATTAATGAGAC	0.363																																																0													104	91	95					2																	62067675		1846	4096	5942	SO:0001583	missense	84140				CCDS42687.2, CCDS56120.1	2p15	2011-03-15			ENSG00000170264	ENSG00000170264			25808	protein-coding gene	gene with protein product		613596	"retinitis pigmentosa 28 (autosomal recessive)"	RP28		10507729, 20705278, 20705279	Standard	NM_032180		Approved	FLJ13305	uc002sbm.4	Q3B820	OTTHUMG00000152165	ENST00000405894.3:c.464T>A	2.37:g.62067675A>T	ENSP00000385893:p.Met155Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DJV7|Q9H8R2	Missense_Mutation	SNP	ENST00000405894.3	37	CCDS42687.2	.	.	.	.	.	.	.	.	.	.	A	12.65	2.002006	0.35320	.	.	ENSG00000170264	ENST00000404929;ENST00000405894	T;T	0.20598	2.87;2.06	5.3	-0.661	0.11417	.	1.199220	0.05573	N	0.571416	T	0.17323	0.0416	L	0.51422	1.61	0.09310	N	1	B;B	0.28233	0.204;0.018	B;B	0.21708	0.036;0.013	T	0.29119	-1.0022	9	.	.	.	-6.764	4.6748	0.12706	0.4925:0.0:0.1664:0.3411	.	155;155	Q3B820;Q3B820-3	F161A_HUMAN;.	K	155	ENSP00000385158:M155K;ENSP00000385893:M155K	.	M	-	2	0	FAM161A	61921179	0.001000	0.12720	0.000000	0.03702	0.743000	0.42351	0.901000	0.28445	-0.003000	0.14444	-0.490000	0.04691	ATG		0.363	FAM161A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000325537.2	NM_032180		T	62067675	A	T	62067675	3	4	604	1	0	0	0	0	1	0	0	0	5476	217	8	5	1534	5	FAM161A	2	62067675	Missense_Mutation	SNP	A	TCGA-HE-7128-01A-11D-1961-08	6544069	62067675	181131698	4	36377										
WDR92	116143	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	68368907	68368907	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	aggatcatctttttgccttgGgtcccacaccttcacagttc	7	13	3	0			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr2:68368907G>T	ENST00000295121.6	-	4	552	c.436C>A	c.(436-438)Cca>Aca	p.P146T	WDR92_ENST00000492039.2_5'UTR|WDR92_ENST00000406245.2_Missense_Mutation_p.P45T|RP11-474G23.1_ENST00000406334.3_3'UTR|WDR92_ENST00000409164.1_Missense_Mutation_p.P146T	NM_138458.3	NP_612467.1	Q96MX6	WDR92_HUMAN	WD repeat domain 92	146					apoptotic process (GO:0006915)|histone lysine methylation (GO:0034968)		methylated histone binding (GO:0035064)			endometrium(1)|kidney(3)|large_intestine(4)|lung(3)|stomach(1)	12						TTTTGCCTTGGGTCCCACACC	0.373																																																0													196	186	189					2																	68368907		2203	4300	6503	SO:0001583	missense	116143			AK056303	CCDS1884.1, CCDS58712.1	2p14	2013-01-09			ENSG00000243667	ENSG00000243667		"WD repeat domain containing"	25176	protein-coding gene	gene with protein product		610729				16487927	Standard	NM_138458		Approved	FLJ31741, Monad	uc002see.2	Q96MX6	OTTHUMG00000152561	ENST00000295121.6:c.436C>A	2.37:g.68368907G>T	ENSP00000295121:p.Pro146Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q96CR6	Missense_Mutation	SNP	ENST00000295121.6	37	CCDS1884.1	.	.	.	.	.	.	.	.	.	.	G	13.37	2.216136	0.39201	.	.	ENSG00000243667	ENST00000295121;ENST00000406245;ENST00000409164	T;T;T	0.64991	1.64;1.64;-0.13	5.71	5.71	0.89125	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.000000	0.64402	D	0.000002	T	0.55114	0.1900	L	0.38953	1.18	0.80722	D	1	B	0.12013	0.005	B	0.08055	0.003	T	0.45991	-0.9223	10	0.22706	T	0.39	.	20.2245	0.98337	0.0:0.0:1.0:0.0	.	146	Q96MX6	WDR92_HUMAN	T	146;45;146	ENSP00000295121:P146T;ENSP00000384518:P45T;ENSP00000386746:P146T	ENSP00000295121:P146T	P	-	1	0	WDR92	68222411	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.656000	0.74396	2.861000	0.98227	0.650000	0.86243	CCA		0.373	WDR92-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251754.2	NM_138458		T	68368907	G	T	68368907	3	4	604	1	0	0	0	0	1	0	0	0	17351	1232	43	4	657	4	WDR92	2	68368907	Missense_Mutation	SNP	G	TCGA-HE-7128-01A-11D-1961-08	6301232	68368907	174830466	5	36378										
MAT2A	4144	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	85770091	85770091	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	ccattatggtacctctcagaAgagtgagagagagctattag	11	7	1	4			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr2:85770091A>T	ENST00000306434.3	+	8	1142	c.1019A>T	c.(1018-1020)aAg>aTg	p.K340M	MAT2A_ENST00000409017.1_Missense_Mutation_p.K277M	NM_005911.5	NP_005902.1	P31153	METK2_HUMAN	methionine adenosyltransferase II, alpha	340					cellular nitrogen compound metabolic process (GO:0034641)|methylation (GO:0032259)|one-carbon metabolic process (GO:0006730)|S-adenosylmethionine biosynthetic process (GO:0006556)|small molecule metabolic process (GO:0044281)|sulfur amino acid metabolic process (GO:0000096)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)|methionine adenosyltransferase complex (GO:0048269)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|methionine adenosyltransferase activity (GO:0004478)			breast(1)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	9					L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	ACCTCTCAGAAGAGTGAGAGA	0.398																																																0													153	156	155					2																	85770091		2203	4300	6503	SO:0001583	missense	4144				CCDS1977.1	2p11.2	2008-06-03			ENSG00000168906	ENSG00000168906			6904	protein-coding gene	gene with protein product		601468				1426236, 9703951	Standard	NM_005911		Approved	SAMS2, MATA2, MATII	uc002spr.3	P31153	OTTHUMG00000130174	ENST00000306434.3:c.1019A>T	2.37:g.85770091A>T	ENSP00000303147:p.Lys340Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K511|B4DN45|D6W5L1|Q53SP5	Missense_Mutation	SNP	ENST00000306434.3	37	CCDS1977.1	.	.	.	.	.	.	.	.	.	.	A	13.85	2.358960	0.41801	.	.	ENSG00000168906	ENST00000306434;ENST00000424323;ENST00000409017	D;D	0.97688	-4.49;-4.49	5.8	5.8	0.92144	S-adenosylmethionine synthetase, C-terminal (1);S-adenosylmethionine synthetase superfamily (1);	0.000000	0.85682	D	0.000000	D	0.95230	0.8453	L	0.39692	1.235	0.58432	D	0.999993	B;B	0.16802	0.019;0.019	B;B	0.18263	0.021;0.021	D	0.92657	0.6138	10	0.31617	T	0.26	-9.6104	14.0949	0.65013	1.0:0.0:0.0:0.0	.	340;340	B4DEX8;P31153	.;METK2_HUMAN	M	340;121;277	ENSP00000303147:K340M;ENSP00000386353:K277M	ENSP00000303147:K340M	K	+	2	0	MAT2A	85623602	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.899000	0.69846	2.209000	0.71365	0.460000	0.39030	AAG		0.398	MAT2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252491.2	NM_005911		T	85770091	A	T	85770091	3	4	604	1	0	0	0	0	1	0	0	0	9337	72	3	5	1049	5	MAT2A	2	85770091	Missense_Mutation	SNP	A	TCGA-HE-7128-01A-11D-1961-08	17401184	85770091	157429282	6	36379										
PHOSPHO2	493911	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr2	170557930	170557930	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	ttgcaatagatgcccaaagaAtctttgcaaaaaggtagttt	8	6	1	2			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr2:170557930A>G	ENST00000359744.3	+	4	837	c.449A>G	c.(448-450)aAt>aGt	p.N150S	KLHL23_ENST00000602521.1_Intron|KLHL23_ENST00000272797.4_Intron	NM_001008489.3|NM_001199285.1|NM_001199286.1|NM_001199288.1	NP_001008489.1|NP_001186214.1|NP_001186215.1|NP_001186217.1	Q8TCD6	PHOP2_HUMAN	phosphatase, orphan 2	150							metal ion binding (GO:0046872)|pyridoxal phosphatase activity (GO:0033883)			breast(1)|large_intestine(1)|lung(6)|skin(2)	10						TGCCCAAAGAATCTTTGCAAA	0.308																																																0													64	65	64					2																	170557930		2203	4299	6502	SO:0001583	missense	493911			BC022324	CCDS33319.1	2q31.1	2008-02-05			ENSG00000144362	ENSG00000144362			28316	protein-coding gene	gene with protein product						16054448	Standard	NM_001199285		Approved	MGC22679	uc021vsh.1	Q8TCD6	OTTHUMG00000153981	ENST00000359744.3:c.449A>G	2.37:g.170557930A>G	ENSP00000352782:p.Asn150Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RC30|D3DPC7	Missense_Mutation	SNP	ENST00000359744.3	37	CCDS33319.1	.	.	.	.	.	.	.	.	.	.	A	21.0	4.082674	0.76528	.	.	ENSG00000144362	ENST00000359744	T	0.61980	0.06	5.96	5.96	0.96718	HAD-like domain (2);	0.000000	0.85682	U	0.000000	D	0.82508	0.5052	M	0.89353	3.025	0.58432	D	0.999999	D	0.89917	1.0	D	0.91635	0.999	D	0.84925	0.0856	10	0.52906	T	0.07	.	16.4219	0.83766	1.0:0.0:0.0:0.0	.	150	Q8TCD6	PHOP2_HUMAN	S	150	ENSP00000352782:N150S	ENSP00000352782:N150S	N	+	2	0	PHOSPHO2	170266176	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	8.155000	0.89643	2.282000	0.76494	0.533000	0.62120	AAT		0.308	PHOSPHO2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333304.1	NM_001008489		G	170557930	A	G	170557930	3	3	604	1	0	0	0	0	1	0	0	0	11864	101	4	3	451	3	PHOSPHO2	2	170557930	Missense_Mutation	SNP	A	TCGA-HE-7128-01A-11D-1961-08	84787839	170557930	72641443	7	36380										
PSMD1	5707	broad.mit.edu;bcgsc.ca	37	chr2	231943417	231943417	+	Frame_Shift_Del	DEL	A	A	-													0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	catactgcaaccgttatagcAaactcttttatgcactgtgg							TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr2:231943417delA	ENST00000308696.6	+	10	1278	c.1116delA	c.(1114-1116)gcafs	p.A372fs	PSMD1_ENST00000373635.4_Frame_Shift_Del_p.A372fs|PSMD1_ENST00000409643.1_Frame_Shift_Del_p.A372fs	NM_002807.3	NP_002798.2	Q99460	PSMD1_HUMAN	proteasome (prosome, macropain) 26S subunit, non-ATPase, 1	372					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|cellular nitrogen compound metabolic process (GO:0034641)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|negative regulation of apoptotic process (GO:0043066)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of protein catabolic process (GO:0042176)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|viral process (GO:0016032)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|proteasome accessory complex (GO:0022624)|proteasome complex (GO:0000502)|proteasome regulatory particle (GO:0005838)	enzyme regulator activity (GO:0030234)			breast(1)|endometrium(2)|kidney(2)|large_intestine(10)|lung(10)|ovary(1)|prostate(1)|skin(4)	31		Ovarian(221;0.000626)|Medulloblastoma(418;0.0109)|Renal(207;0.0112)|Lung NSC(271;0.0538)|all_lung(227;0.0713)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;4e-26)|LUSC - Lung squamous cell carcinoma(224;0.0138)|Lung(119;0.0168)	Bortezomib(DB00188)	CCGTTATAGCAAACTCTTTTA	0.343																																																0													126	120	122					2																	231943417		2203	4300	6503	SO:0001589	frameshift_variant	5707			D44466	CCDS2482.1, CCDS54436.1	2q37.1	2008-05-22			ENSG00000173692	ENSG00000173692		"Proteasome (prosome, macropain) subunits"	9554	protein-coding gene	gene with protein product						8816993	Standard	NM_002807		Approved	S1, P112, Rpn2	uc002vrn.2	Q99460	OTTHUMG00000133223	ENST00000308696.6:c.1116delA	2.37:g.231943417delA	ENSP00000309474:p.Ala372fs	Somatic		WXS	Illumina HiSeq	Phase_I	B8ZZH9|Q24JU0|Q53TI2|Q6GMU5|Q6P2P4|Q6PJM7|Q6PKG9|Q86VU1|Q8IV79	Frame_Shift_Del	DEL	ENST00000308696.6	37	CCDS2482.1																																																																																				0.343	PSMD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256958.2			-	231943417	A	-	231943417	7	5	604	1	0	1	0	1	0	0	0	0	12702	117	5	0	1154	0	PSMD1	2	231943417	Frame_Shift_Del	DEL	A	TCGA-HE-7128-01A-11D-1961-08	61385487	231943417	11255956	8	36381										
OR6B2	389090	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	240969643	240969643	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	gacacgtaccagatctccagGaaagacatggagctcagaaa	10	10	2	3			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr2:240969643G>C	ENST00000402971.2	-	1	263	c.204C>G	c.(202-204)ttC>ttG	p.F68L		NM_001005853.1	NP_001005853.1	Q6IFH4	OR6B2_HUMAN	olfactory receptor, family 6, subfamily B, member 2	68						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(1)|large_intestine(4)|lung(9)|prostate(1)	15		all_epithelial(40;1.64e-11)|Breast(86;0.000327)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.4e-29)|all cancers(36;2.08e-27)|OV - Ovarian serous cystadenocarcinoma(60;4.63e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.56e-05)|Lung(119;0.00344)|LUSC - Lung squamous cell carcinoma(224;0.0148)		AGATCTCCAGGAAAGACATGG	0.557																																																0													117	127	124					2																	240969643		2117	4242	6359	SO:0001583	missense	389090				CCDS46559.1	2q37.3	2012-08-09	2004-10-07	2004-10-07	ENSG00000182083	ENSG00000182083		"GPCR / Class A : Olfactory receptors"	15041	protein-coding gene	gene with protein product			"olfactory receptor, family 6, subfamily B, member 2 pseudogene"	OR6B2P			Standard	XM_005247004		Approved		uc010zoc.2	Q6IFH4	OTTHUMG00000152400	ENST00000402971.2:c.204C>G	2.37:g.240969643G>C	ENSP00000384563:p.Phe68Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPR3|Q8NGW0	Missense_Mutation	SNP	ENST00000402971.2	37	CCDS46559.1	.	.	.	.	.	.	.	.	.	.	N	4.356	0.065626	0.08388	.	.	ENSG00000182083	ENST00000402971	T	0.00966	5.49	4.35	0.501	0.16925	GPCR, rhodopsin-like superfamily (1);	0.813827	0.10478	N	0.669897	T	0.00967	0.0032	L	0.29908	0.895	0.09310	N	1	B	0.19583	0.037	B	0.22601	0.04	T	0.45818	-0.9235	10	0.38643	T	0.18	.	8.2409	0.31660	0.3395:0.0:0.6605:0.0	.	68	Q6IFH4	OR6B2_HUMAN	L	68	ENSP00000384563:F68L	ENSP00000384563:F68L	F	-	3	2	OR6B2	240618316	0.000000	0.05858	0.000000	0.03702	0.024000	0.10985	-0.228000	0.09114	-0.029000	0.13827	-0.237000	0.12165	TTC		0.557	OR6B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000326079.1	NM_001005853		C	240969643	G	C	240969643	3	2	604	1	0	0	0	0	1	0	0	0	11195	1165	41	4	736	4	OR6B2	2	240969643	Missense_Mutation	SNP	G	TCGA-HE-7128-01A-11D-1961-08	9026226	240969643	2229730	9	36382										
RPL14	9045	hgsc.bcm.edu	37	chr3	40503557	40503557	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	tgctgctgctgctgctaaagTtccagcaaaaaagatcaccg	9	11	1	1			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr3:40503557T>C	ENST00000396203.2	+	6	614	c.482T>C	c.(481-483)gTt>gCt	p.V161A	RPL14_ENST00000338970.6_Missense_Mutation_p.V161A|RPL14_ENST00000416518.1_3'UTR	NM_001034996.2	NP_001030168.1	P50914	RL14_HUMAN	ribosomal protein L14	161					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|ribosomal large subunit biogenesis (GO:0042273)|RNA metabolic process (GO:0016070)|rRNA processing (GO:0006364)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|structural constituent of ribosome (GO:0003735)								KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		gctgctAAAGTTCCAGCAAAA	0.532																																																0													12	12	12					3																	40503557		2196	4288	6484	SO:0001583	missense	9045			D87735	CCDS33739.1, CCDS43070.1	3p22-p21.2	2008-07-18			ENSG00000188846	ENSG00000188846		"L ribosomal proteins"	10305	protein-coding gene	gene with protein product	"CAG-ISL 7", "60S ribosomal protein L14"					9480843	Standard	NM_003973		Approved	L14, hRL14, RL14, CTG-B33	uc003ckg.4	P50914	OTTHUMG00000156046	ENST00000396203.2:c.482T>C	3.37:g.40503557T>C	ENSP00000379506:p.Val161Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q45RF0|Q53G20|Q8TBD5|Q8WUT0|Q92579|Q96GR0|Q9BSB8|Q9BW65|Q9BYF6	Missense_Mutation	SNP	ENST00000396203.2	37	CCDS43070.1	.	.	.	.	.	.	.	.	.	.	T	7.353	0.623248	0.14193	.	.	ENSG00000188846	ENST00000338970;ENST00000396203	T;T	0.42513	0.97;0.97	4.43	0.773	0.18516	.	1.064700	0.07443	N	0.897726	T	0.23806	0.0576	N	0.17082	0.46	0.80722	D	1	B	0.02656	0.0	B	0.01281	0.0	T	0.16541	-1.0399	10	0.16896	T	0.51	.	5.9465	0.19221	0.0:0.3206:0.0:0.6794	.	161	P50914	RL14_HUMAN	A	161	ENSP00000345156:V161A;ENSP00000379506:V161A	ENSP00000345156:V161A	V	+	2	0	RPL14	40478561	0.562000	0.26586	0.855000	0.33649	0.302000	0.27658	0.600000	0.24104	0.211000	0.20683	0.519000	0.50382	GTT		0.532	RPL14-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342889.2	NM_003973		C	40503557	T	C	40503557	3	2	604	1	0	0	0	0	1	0	0	0	13574	1725	60	3	511	3	RPL14	3	40503557	Missense_Mutation	SNP	T	TCGA-HE-7128-01A-11D-1961-08		40503557	157518873	10	36383										
DZIP3	9666	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	108324275	108324275	+	Frame_Shift_Del	DEL	T	T	-													0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	tggattctctaccagatgaaTtttttgtgaggtaaggccac							TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr3:108324275delT	ENST00000361582.3	+	2	252	c.22delT	c.(22-24)tttfs	p.F9fs	DZIP3_ENST00000463306.1_Frame_Shift_Del_p.F9fs	NM_014648.3	NP_055463.1	Q86Y13	DZIP3_HUMAN	DAZ interacting zinc finger protein 3	9					protein polyubiquitination (GO:0000209)	cytoplasm (GO:0005737)	ligase activity (GO:0016874)|phosphatase binding (GO:0019902)|poly(A) RNA binding (GO:0044822)|polyubiquitin binding (GO:0031593)|RNA binding (GO:0003723)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(3)|central_nervous_system(1)|endometrium(3)|large_intestine(9)|lung(21)|ovary(1)|pancreas(1)|prostate(5)|skin(1)	45						ACCAGATGAATTTTTTGTGAG	0.443																																																0													111	116	114					3																	108324275		2203	4300	6503	SO:0001589	frameshift_variant	9666			AF279370	CCDS2952.1	3q13.13	2013-05-22	2013-05-22		ENSG00000198919	ENSG00000198919		"RING-type (C3HC4) zinc fingers", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	30938	protein-coding gene	gene with protein product	"human RNA-binding ubiquitin ligase of 138 kDa", "protein phosphatase 1, regulatory subunit 66"	608672	"DAZ interacting protein 3, zinc finger"			9734811, 12538761	Standard	NM_014648		Approved	hRUL138, PPP1R66	uc003dxd.3	Q86Y13	OTTHUMG00000159232	ENST00000361582.3:c.22delT	3.37:g.108324275delT	ENSP00000355028:p.Phe9fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KN01|O75162|Q6P3R9|Q6PH82|Q86Y14|Q86Y15|Q86Y16|Q8IWI0|Q96RS9	Frame_Shift_Del	DEL	ENST00000361582.3	37	CCDS2952.1																																																																																				0.443	DZIP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353968.1	NM_014648		-	108324275	T	-	108324275	7	5	604	1	0	1	0	1	0	0	0	0	4867	1493	52	0	24	0	DZIP3	3	108324275	Frame_Shift_Del	DEL	T	TCGA-HE-7128-01A-11D-1961-08	67820718	108324275	89698155	11	36384										
LIPH	200879	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	185241864	185241865	+	Frame_Shift_Del	DEL	AA	AA	-													0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	aatataaaggcttacctcccAatattgttttggggcagcca							TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr3:185241864_185241865delAA	ENST00000296252.4	-	5	853_854	c.712_713delTT	c.(712-714)ttgfs	p.L238fs	LIPH_ENST00000424591.2_Frame_Shift_Del_p.L204fs	NM_139248.2	NP_640341.1	Q8WWY8	LIPH_HUMAN	lipase, member H	238					lipid catabolic process (GO:0016042)	extracellular space (GO:0005615)|plasma membrane (GO:0005886)	heparin binding (GO:0008201)|phospholipase activity (GO:0004620)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(7)|ovary(1)|pancreas(1)|skin(2)	20	all_cancers(143;8.87e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)			CTTACCTCCCAATATTGTTTTG	0.436																																																0																																										SO:0001589	frameshift_variant	200879			AY093498	CCDS3272.1	3q27	2012-07-31			ENSG00000163898	ENSG00000163898			18483	protein-coding gene	gene with protein product		607365				12213196, 12063250	Standard	XM_006713529		Approved	mPA-PLA1, PLA1B, mPA-PLA1alpha, LPDLR	uc003fpm.3	Q8WWY8	OTTHUMG00000156657	ENST00000296252.4:c.712_713delTT	3.37:g.185241864_185241865delAA	ENSP00000296252:p.Leu238fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2IBA7|Q8TEC7	Frame_Shift_Del	DEL	ENST00000296252.4	37	CCDS3272.1																																																																																				0.436	LIPH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345153.1			-	185241865	AA	-	185241864	7	5	604	1	0	1	0	1	0	0	0	0	8831	131	5	0	666	0	LIPH	3	185241864	Frame_Shift_Del	DEL	AA	TCGA-HE-7128-01A-11D-1961-08	76917589	185241864	12780566	12	36385										
THAP9	79725	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	83839493	83839493	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	aggcattactagacctgtcaGatcataggcgaaatctcatc	8	10	3	2			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr4:83839493G>A	ENST00000302236.5	+	5	2179	c.2128G>A	c.(2128-2130)Gat>Aat	p.D710N	LIN54_ENST00000505905.1_Intron	NM_024672.4	NP_078948.3	Q9H5L6	THAP9_HUMAN	THAP domain containing 9	710					DNA integration (GO:0015074)|DNA recombination (GO:0006310)|transposition, DNA-mediated (GO:0006313)		metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)|transferase activity (GO:0016740)|transposase activity (GO:0004803)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(13)|lung(5)|ovary(2)|pancreas(2)|prostate(1)|upper_aerodigestive_tract(3)	33		Hepatocellular(203;0.114)				AGACCTGTCAGATCATAGGCG	0.423																																																0													117	101	106					4																	83839493		2203	4300	6503	SO:0001583	missense	79725			AK091412	CCDS3598.1	4q21.3	2013-01-25			ENSG00000168152	ENSG00000168152		"THAP (C2CH-type zinc finger) domain containing"	23192	protein-coding gene	gene with protein product		612537				12575992	Standard	NM_024672		Approved	FLJ34093	uc003hnt.2	Q9H5L6	OTTHUMG00000130291	ENST00000302236.5:c.2128G>A	4.37:g.83839493G>A	ENSP00000305533:p.Asp710Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRE2|Q59AC9	Missense_Mutation	SNP	ENST00000302236.5	37	CCDS3598.1	.	.	.	.	.	.	.	.	.	.	G	3.185	-0.167102	0.06461	.	.	ENSG00000168152	ENST00000302236;ENST00000536314	D	0.90069	-2.61	3.87	3.02	0.34903	.	0.462748	0.18401	N	0.142355	T	0.77805	0.4185	N	0.22421	0.69	0.09310	N	0.999994	B	0.23058	0.079	B	0.21546	0.035	T	0.62124	-0.6920	10	0.22706	T	0.39	-12.7397	5.7567	0.18176	0.1093:0.218:0.6727:0.0	.	710	Q9H5L6	THAP9_HUMAN	N	710	ENSP00000305533:D710N	ENSP00000305533:D710N	D	+	1	0	THAP9	84058517	0.016000	0.18221	0.085000	0.20634	0.025000	0.11179	1.445000	0.35079	1.203000	0.43233	0.655000	0.94253	GAT		0.423	THAP9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252633.1	NM_024672		A	83839493	G	A	83839493	3	1	604	1	0	0	0	0	1	0	0	0	15863	942	33	2	2146	2	THAP9	4	83839493	Missense_Mutation	SNP	G	TCGA-HE-7128-01A-11D-1961-08		83839493	107314783	13	36386										
NR3C2	4306	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	149075914	149075914	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	gaaccagtgctgtgttgaccGagggttcttttgcaggagcg	15	8	1	1			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr4:149075914G>C	ENST00000358102.3	-	5	2515	c.2153C>G	c.(2152-2154)tCg>tGg	p.S718W	NR3C2_ENST00000355292.3_Missense_Mutation_p.S722W|NR3C2_ENST00000511528.1_Missense_Mutation_p.S722W|NR3C2_ENST00000344721.4_Missense_Mutation_p.S718W|NR3C2_ENST00000503313.1_5'UTR|RP11-76G10.1_ENST00000514843.1_RNA|NR3C2_ENST00000512865.1_Intron	NM_000901.4|NM_001166104.1	NP_000892.2|NP_001159576.1	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	718	Hinge.				gene expression (GO:0010467)|signal transduction (GO:0007165)|transcription initiation from RNA polymerase II promoter (GO:0006367)	endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|receptor complex (GO:0043235)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|steroid binding (GO:0005496)|steroid hormone receptor activity (GO:0003707)|zinc ion binding (GO:0008270)	p.S718L(1)		breast(1)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(14)|liver(1)|lung(11)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	41	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Drospirenone(DB01395)|Eplerenone(DB00700)|Felodipine(DB01023)|Fludrocortisone(DB00687)|Fluticasone Propionate(DB00588)|Nimodipine(DB00393)|Progesterone(DB00396)|Spironolactone(DB00421)	TGTGTTGACCGAGGGTTCTTT	0.567																																					Melanoma(27;428 957 40335 51025 51111)											1	Substitution - Missense(1)	large_intestine(1)											192	172	179					4																	149075914		2203	4300	6503	SO:0001583	missense	4306			M16801	CCDS3772.1, CCDS54811.1	4q31	2013-01-16			ENSG00000151623	ENSG00000151623		"Nuclear hormone receptors"	7979	protein-coding gene	gene with protein product		600983		MLR		2558856	Standard	NM_000901		Approved	MR	uc003ilj.4	P08235	OTTHUMG00000161455	ENST00000358102.3:c.2153C>G	4.37:g.149075914G>C	ENSP00000350815:p.Ser718Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B0ZBF5|B0ZBF7|Q2NKL1|Q96KQ8|Q96KQ9	Missense_Mutation	SNP	ENST00000358102.3	37	CCDS3772.1	.	.	.	.	.	.	.	.	.	.	G	15.76	2.928892	0.52759	.	.	ENSG00000151623	ENST00000344721;ENST00000355292;ENST00000358102;ENST00000511528	D;D;D;D	0.90676	-2.71;-2.71;-2.71;-2.71	5.57	5.57	0.84162	.	0.406531	0.27932	N	0.017264	D	0.94318	0.8174	M	0.77313	2.365	0.52501	D	0.99995	D	0.63880	0.993	P	0.56514	0.8	D	0.93801	0.7101	9	.	.	.	.	19.5581	0.95361	0.0:0.0:1.0:0.0	.	718	B0ZBF6	.	W	718;722;718;722	ENSP00000341390:S718W;ENSP00000347441:S722W;ENSP00000350815:S718W;ENSP00000421481:S722W	.	S	-	2	0	NR3C2	149295364	0.985000	0.35326	0.611000	0.29010	0.430000	0.31655	3.814000	0.55643	2.614000	0.88457	0.655000	0.94253	TCG		0.567	NR3C2-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364986.1			C	149075914	G	C	149075914	3	2	604	1	0	0	0	0	1	0	0	0	10638	1059	37	4	821	4	NR3C2	4	149075914	Missense_Mutation	SNP	G	TCGA-HE-7128-01A-11D-1961-08	65236421	149075914	42078362	14	36387										
SFRS12	140890	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	65466769	65466769	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	atcgcgaagatctcgtagttCcagcaggtttgataatgctt	10	8	1	2			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr5:65466769C>T	ENST00000380918.3	+	10	1790	c.1130C>T	c.(1129-1131)tCc>tTc	p.S377F	SREK1_ENST00000334121.6_Missense_Mutation_p.S493F|SREK1_ENST00000284041.3_3'UTR	NM_139168.3	NP_631907.1	Q8WXA9	SREK1_HUMAN	splicing regulatory glutamine/lysine-rich protein 1	377	Arg/Glu/Lys/Ser-rich.				mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	intracellular membrane-bounded organelle (GO:0043231)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|kidney(3)|large_intestine(2)|lung(1)|pancreas(1)|prostate(1)	9						TCTCGTAGTTCCAGCAGGTTT	0.368																																					GBM(10;31 347 27684 38976 41583)											0													60	66	64					5																	65466769		2200	4297	6497	SO:0001583	missense	140890			AF459094	CCDS3991.1, CCDS43323.1, CCDS75253.1	5q11.2-q12.1	2013-02-12	2010-09-08	2010-09-08	ENSG00000153914	ENSG00000153914		"RNA binding motif (RRM) containing"	17882	protein-coding gene	gene with protein product	"serine-arginine-rich splicing regulatory protein 508"	609268	"splicing factor, arginine/serine-rich 12"	SFRS12		12043562	Standard	NM_001077199		Approved	DKFZp564B176, SRrp86, SRrp508	uc003jun.4	Q8WXA9	OTTHUMG00000097809	ENST00000380918.3:c.1130C>T	5.37:g.65466769C>T	ENSP00000370305:p.Ser377Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A4FTW3|Q2M1J0|Q86X37	Missense_Mutation	SNP	ENST00000380918.3	37	CCDS3991.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	16.67|16.67	3.186680|3.186680	0.57909|0.57909	.|.	.|.	ENSG00000153914|ENSG00000153914	ENST00000537482|ENST00000334121;ENST00000380918	.|T;T	.|0.11821	.|2.74;2.74	5.15|5.15	5.15|5.15	0.70609|0.70609	.|.	.|0.330683	.|0.31167	.|N	.|0.008136	T|T	0.11580|0.11580	0.0282|0.0282	N|N	0.19112|0.19112	0.55|0.55	0.31022|0.31022	N|N	0.718059|0.718059	.|P;P	.|0.40794	.|0.61;0.729	.|B;B	.|0.38056	.|0.135;0.264	T|T	0.02269|0.02269	-1.1185|-1.1185	6|10	0.44086|0.56958	T|D	0.13|0.05	.|.	18.2481|18.2481	0.89993|0.89993	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|377;493	.|Q8WXA9;Q8WXA9-2	.|SREK1_HUMAN;.	S|F	493|493;377	.|ENSP00000334538:S493F;ENSP00000370305:S377F	ENSP00000445557:P493S|ENSP00000334538:S493F	P|S	+|+	1|2	0|0	SREK1|SREK1	65502525|65502525	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.996000|0.996000	0.88848|0.88848	4.322000|4.322000	0.59215|0.59215	2.409000|2.409000	0.81822|0.81822	0.650000|0.650000	0.86243|0.86243	CCA|TCC		0.368	SREK1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000381118.1	NM_001077199		T	65466769	C	T	65466769	3	4	604	1	0	0	0	0	1	0	0	0	14180	855	30	2	1512	2	SFRS12	5	65466769	Missense_Mutation	SNP	C	TCGA-HE-7128-01A-11D-1961-08		65466769	115448491	15	36388										
PTK7	5754	broad.mit.edu	37	chr6	43112987	43112987	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	gcaaaggctcagggcttggaGgagggagtggcagagaccct	18	8	1	1			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr6:43112987G>A	ENST00000230419.4	+	16	2678	c.2457G>A	c.(2455-2457)gaG>gaA	p.E819E	PTK7_ENST00000349241.2_Silent_p.E689E|PTK7_ENST00000352931.2_Silent_p.E763E|PTK7_ENST00000345201.2_Silent_p.E779E|PTK7_ENST00000481273.1_Silent_p.E827E	NM_002821.4	NP_002812.2	Q13308	PTK7_HUMAN	protein tyrosine kinase 7	819	Interaction with CTNNB1.|Protein kinase; inactive. {ECO:0000255|PROSITE-ProRule:PRU00159}.				actin cytoskeleton reorganization (GO:0031532)|axis elongation (GO:0003401)|canonical Wnt signaling pathway (GO:0060070)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|cellular response to retinoic acid (GO:0071300)|cochlea morphogenesis (GO:0090103)|convergent extension (GO:0060026)|establishment of epithelial cell apical/basal polarity (GO:0045198)|establishment of planar polarity (GO:0001736)|lung-associated mesenchyme development (GO:0060484)|neural tube closure (GO:0001843)|peptidyl-tyrosine phosphorylation (GO:0018108)|planar cell polarity pathway involved in neural tube closure (GO:0090179)|positive regulation of neuron projection development (GO:0010976)|signal transduction (GO:0007165)|wound healing (GO:0042060)	cell-cell junction (GO:0005911)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)	ATP binding (GO:0005524)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(12)|lung(12)|ovary(2)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	46			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00784)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			AGGGCTTGGAGGAGGGAGTGG	0.597																																																0													87	85	86					6																	43112987		2203	4300	6503	SO:0001819	synonymous_variant	5754			AF447176	CCDS4884.1, CCDS4885.1, CCDS4886.1, CCDS4887.1, CCDS59021.1	6p21.1-p12.2	2013-02-18	2013-02-18		ENSG00000112655	ENSG00000112655	2.7.10.1	"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9618	protein-coding gene	gene with protein product		601890	"PTK7 protein tyrosine kinase 7"			7478540	Standard	NM_002821		Approved	CCK4	uc011dve.2	Q13308	OTTHUMG00000014721	ENST00000230419.4:c.2457G>A	6.37:g.43112987G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K974|B7Z477|E9PFZ5|Q13417|Q5T650|Q6IQ54|Q8NFA5|Q8NFA6|Q8NFA7|Q8NFA8	Silent	SNP	ENST00000230419.4	37	CCDS4884.1	.	.	.	.	.	.	.	.	.	.	G	8.784	0.929057	0.18131	.	.	ENSG00000112655	ENST00000489707	.	.	.	5.71	2.47	0.30058	.	.	.	.	.	T	0.39489	0.1080	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.28267	-1.0049	4	.	.	.	.	5.8526	0.18701	0.3389:0.0:0.5272:0.1338	.	.	.	.	K	114	.	.	R	+	2	0	PTK7	43220965	1.000000	0.71417	1.000000	0.80357	0.966000	0.64601	0.999000	0.29757	0.737000	0.32582	0.655000	0.94253	AGG		0.597	PTK7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040580.2			A	43112987	G	A	43112987	2	1	604	1	0	0	0	0	0	0	0	1	12776	991	35	2		2	PTK7	6	43112987	Silent	SNP	G	TCGA-HE-7128-01A-11D-1961-08		43112987	128002080	16	36389										
SLC22A7	10864	ucsc.edu	37	chr6	43270500	43270500	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	agttgtaccctacggtgctcAggtgaggaagcctgcaactg	13	10	1	1			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr6:43270500A>G	ENST00000372585.5	+	9	1479	c.1384A>G	c.(1384-1386)Aga>Gga	p.R462G	SLC22A7_ENST00000372589.3_Splice_Site_p.R460G|SLC22A7_ENST00000372574.3_Splice_Site_p.R460G	NM_153320.2	NP_696961.2	Q9Y694	S22A7_HUMAN	solute carrier family 22 (organic anion transporter), member 7	462					organic anion transport (GO:0015711)|response to stilbenoid (GO:0035634)|transmembrane transport (GO:0055085)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	sodium-independent organic anion transmembrane transporter activity (GO:0015347)			NS(2)|endometrium(1)|kidney(1)|large_intestine(8)|lung(10)|prostate(1)|skin(3)	26			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00998)|OV - Ovarian serous cystadenocarcinoma(102;0.0305)		Acetylsalicylic acid(DB00945)|Allopurinol(DB00437)|Aminohippurate(DB00345)|Bumetanide(DB00887)|Cefalotin(DB00456)|Cefamandole(DB01326)|Cefoperazone(DB01329)|Cefotaxime(DB00493)|Cimetidine(DB00501)|Clarithromycin(DB01211)|Dinoprost Tromethamine(DB01160)|Dinoprostone(DB00917)|Docetaxel(DB01248)|Enalapril(DB00584)|Erythromycin(DB00199)|Fluorouracil(DB00544)|Ganciclovir(DB01004)|Glyburide(DB01016)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Methotrexate(DB00563)|Minocycline(DB01017)|Oxtriphylline(DB01303)|Oxytetracycline(DB00595)|Pravastatin(DB00175)|Probenecid(DB01032)|Rifampicin(DB01045)|Salicylic acid(DB00936)|Testosterone(DB00624)|Tetracycline(DB00759)|Theophylline(DB00277)|Valproic Acid(DB00313)|Zalcitabine(DB00943)|Zidovudine(DB00495)	TACGGTGCTCAGGTGAGGAAG	0.527																																																0													57	47	50					6																	43270500		2203	4300	6503	SO:0001630	splice_region_variant	10864			AF097518	CCDS4892.1, CCDS4893.2	6p21.1	2013-05-22			ENSG00000137204	ENSG00000137204		"Solute carriers"	10971	protein-coding gene	gene with protein product		604995				9650585, 10773670	Standard	XM_006714970		Approved	NLT, OAT2	uc003out.3	Q9Y694	OTTHUMG00000014726	ENST00000372585.5:c.1385+1A>G	6.37:g.43270500A>G		Somatic		WXS	Illumina HiSeq		B2CZX6|Q5T046|Q5T048|Q5T050|Q9H2W5	Missense_Mutation	SNP	ENST00000372585.5	37	CCDS4893.2	.	.	.	.	.	.	.	.	.	.	A	15.13	2.741588	0.49151	.	.	ENSG00000137204	ENST00000372589;ENST00000372585;ENST00000372574;ENST00000436107	T;T;T;D	0.87650	-0.09;-0.09;-0.09;-2.28	5.17	5.17	0.71159	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.000000	0.85682	D	0.000000	D	0.95172	0.8435	H	0.97659	4.05	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.96489	0.9362	10	0.87932	D	0	.	12.8168	0.57669	1.0:0.0:0.0:0.0	.	462;460;460	Q9Y694;Q9Y694-2;Q9Y694-3	S22A7_HUMAN;.;.	G	460;462;460;155	ENSP00000361670:R460G;ENSP00000361666:R462G;ENSP00000361655:R460G;ENSP00000393836:R155G	ENSP00000361655:R460G	R	+	1	2	SLC22A7	43378478	1.000000	0.71417	1.000000	0.80357	0.125000	0.20455	3.882000	0.56160	2.089000	0.63090	0.379000	0.24179	AGA		0.527	SLC22A7-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000040588.1		Missense_Mutation	G	43270500	A	G	43270500	5	3	604	1	0	0	0	0	0	0	1	0	14472	202	7	3	1414	3	SLC22A7	6	43270500	Splice_Site	SNP	A	TCGA-HE-7128-01A-11D-1961-08	157513	43270500	127844567	17	36390										
NT5DC1	221294	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	116429548	116429548	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	tgcaaaggtttggcattggaTctagaagatgggaacttcct	12	6	1	2			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr6:116429548T>A	ENST00000319550.4	+	3	289	c.207T>A	c.(205-207)gaT>gaA	p.D69E		NM_152729.2	NP_689942.2	Q5TFE4	NT5D1_HUMAN	5'-nucleotidase domain containing 1	69							hydrolase activity (GO:0016787)|metal ion binding (GO:0046872)			large_intestine(2)|lung(2)|prostate(2)|skin(1)|stomach(1)	8		all_cancers(87;0.00367)|all_epithelial(87;0.00449)|Colorectal(196;0.0469)		all cancers(137;0.0327)|OV - Ovarian serous cystadenocarcinoma(136;0.0445)|GBM - Glioblastoma multiforme(226;0.0719)|Epithelial(106;0.112)		TGGCATTGGATCTAGAAGATG	0.323																																					Colon(128;1440 1664 38087 41475 42869)											0													104	104	104					6																	116429548		2203	4299	6502	SO:0001583	missense	221294			BC015138	CCDS5104.1	6q22.31	2008-02-05	2006-01-27	2006-01-27	ENSG00000178425	ENSG00000178425			21556	protein-coding gene	gene with protein product			"5'-nucleotidase, cytosolic II-like 1"	NT5C2L1			Standard	NM_152729		Approved	dJ486I3.1, MGC24302	uc003pwj.3	Q5TFE4	OTTHUMG00000015428	ENST00000319550.4:c.207T>A	6.37:g.116429548T>A	ENSP00000326858:p.Asp69Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RND9|B3KR35|Q6XYD5	Missense_Mutation	SNP	ENST00000319550.4	37	CCDS5104.1	.	.	.	.	.	.	.	.	.	.	T	18.64	3.666737	0.67814	.	.	ENSG00000178425	ENST00000368618;ENST00000319550;ENST00000419791	T;T	0.53206	0.63;0.63	5.15	2.74	0.32292	HAD-like domain (1);	0.097795	0.64402	D	0.000002	T	0.58552	0.2130	M	0.85041	2.73	0.46131	D	0.998888	D;D	0.89917	0.998;1.0	D;D	0.97110	0.994;1.0	T	0.62964	-0.6742	10	0.66056	D	0.02	-14.0759	8.9428	0.35740	0.0:0.1569:0.0:0.8431	.	69;69	A8K2Z3;Q5TFE4	.;NT5D1_HUMAN	E	69	ENSP00000326858:D69E;ENSP00000393578:D69E	ENSP00000326858:D69E	D	+	3	2	NT5DC1	116536241	1.000000	0.71417	1.000000	0.80357	0.758000	0.43043	0.994000	0.29693	0.383000	0.24910	-0.256000	0.11100	GAT		0.323	NT5DC1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041931.3	NM_152729		A	116429548	T	A	116429548	3	1	604	1	0	0	0	0	1	0	0	0	10697	1432	50	5	217	5	NT5DC1	6	116429548	Missense_Mutation	SNP	T	TCGA-HE-7128-01A-11D-1961-08	73159048	116429548	54685519	18	36391										
SGK1	6446	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	134495704	134495704	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	aataaagtcgttcagacccaTcctcctctgcttcatgaaag	6	12	3	2			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr6:134495704T>C	ENST00000237305.7	-	2	185	c.97A>G	c.(97-99)Atg>Gtg	p.M33V	SGK1_ENST00000475719.2_Missense_Mutation_p.M33V|SGK1_ENST00000413996.3_Missense_Mutation_p.M47V|SGK1_ENST00000367858.5_Missense_Mutation_p.M128V|SGK1_ENST00000528577.1_Missense_Mutation_p.M61V|SGK1_ENST00000367857.5_Missense_Mutation_p.M23V|SGK1_ENST00000489458.2_5'Flank	NM_005627.3	NP_005618.2	O00141	SGK1_HUMAN	serum/glucocorticoid regulated kinase 1	33	Necessary for localization to the mitochondria.				apoptotic process (GO:0006915)|cellular response to DNA damage stimulus (GO:0006974)|ion transmembrane transport (GO:0034220)|long-term memory (GO:0007616)|positive regulation of transporter activity (GO:0032411)|protein phosphorylation (GO:0006468)|regulation of apoptotic process (GO:0042981)|regulation of blood pressure (GO:0008217)|regulation of catalytic activity (GO:0050790)|regulation of cell growth (GO:0001558)|regulation of cell migration (GO:0030334)|regulation of cell proliferation (GO:0042127)|regulation of gastric acid secretion (GO:0060453)|regulation of sequence-specific DNA binding transcription factor activity (GO:0051090)|renal sodium ion absorption (GO:0070294)|response to stress (GO:0006950)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|calcium channel regulator activity (GO:0005246)|chloride channel regulator activity (GO:0017081)|potassium channel regulator activity (GO:0015459)|protein serine/threonine kinase activity (GO:0004674)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|sodium channel regulator activity (GO:0017080)			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(21)|kidney(3)|large_intestine(3)|lung(10)|ovary(1)|skin(4)|stomach(1)	46	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00317)|GBM - Glioblastoma multiforme(68;0.00847)		TTCAGACCCATCCTCCTCTGC	0.423											OREG0017675	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													81	81	81					6																	134495704		2203	4300	6503	SO:0001583	missense	6446			AJ000512	CCDS5170.1, CCDS47476.1, CCDS47477.1, CCDS47478.1	6q23	2008-02-05	2007-12-05	2007-12-05	ENSG00000118515	ENSG00000118515			10810	protein-coding gene	gene with protein product		602958	"serum/glucocorticoid regulated kinase"	SGK		9114008, 9722955	Standard	NM_005627		Approved		uc003qeo.4	O00141	OTTHUMG00000015613	ENST00000237305.7:c.97A>G	6.37:g.134495704T>C	ENSP00000237305:p.Met33Val	Somatic	1611	WXS	Illumina HiSeq	Phase_I	B7UUP7|B7UUP8|B7UUP9|B7Z5B2|E1P583|Q5TCN2|Q5TCN3|Q5TCN4|Q5VY65|Q9UN56	Missense_Mutation	SNP	ENST00000237305.7	37	CCDS5170.1	.	.	.	.	.	.	.	.	.	.	T	16.43	3.121060	0.56613	.	.	ENSG00000118515	ENST00000367858;ENST00000413996;ENST00000237305;ENST00000367857;ENST00000528577;ENST00000475719;ENST00000461976	T;T;T;T;T;T;T	0.38401	1.66;1.66;1.66;1.66;1.66;1.66;1.14	5.89	5.89	0.94794	.	0.000000	0.85682	D	0.000000	T	0.47488	0.1448	M	0.62723	1.935	0.80722	D	1	B;P;B;B;B;B	0.48911	0.01;0.917;0.004;0.001;0.019;0.002	B;D;B;B;B;B	0.63488	0.018;0.915;0.008;0.01;0.032;0.008	T	0.38628	-0.9652	10	0.41790	T	0.15	.	16.3127	0.82898	0.0:0.0:0.0:1.0	.	61;47;33;23;128;33	O00141-5;O00141-3;E9PR89;O00141-4;O00141-2;O00141	.;.;.;.;.;SGK1_HUMAN	V	128;47;33;23;61;33;97	ENSP00000356832:M128V;ENSP00000396242:M47V;ENSP00000237305:M33V;ENSP00000356831:M23V;ENSP00000434450:M61V;ENSP00000434302:M33V;ENSP00000435577:M97V	ENSP00000237305:M33V	M	-	1	0	SGK1	134537397	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	8.040000	0.89188	2.246000	0.74042	0.533000	0.62120	ATG		0.423	SGK1-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042312.2			C	134495704	T	C	134495704	3	2	604	1	0	0	0	0	1	0	0	0	14220	1435	50	3	1242	3	SGK1	6	134495704	Missense_Mutation	SNP	T	TCGA-HE-7128-01A-11D-1961-08	18066156	134495704	36619363	19	36392										
SLC35D3	340146	hgsc.bcm.edu	37	chr6	137245094	137245094	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	cggtgctggtgcacgctgccTacctggtgctcatccagaag	13	13	1	1			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr6:137245094T>C	ENST00000331858.4	+	2	676	c.511T>C	c.(511-513)Tac>Cac	p.Y171H		NM_001008783.1	NP_001008783.1	Q5M8T2	S35D3_HUMAN	solute carrier family 35, member D3	171					carbohydrate transport (GO:0008643)	integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(6)|ovary(1)	13	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000136)|OV - Ovarian serous cystadenocarcinoma(155;0.00365)		GCACGCTGCCTACCTGGTGCT	0.706																																																0													17	15	15					6																	137245094		2183	4273	6456	SO:0001583	missense	340146				CCDS34544.1	6q23.2	2013-05-22			ENSG00000182747	ENSG00000182747		"Solute carriers"	15621	protein-coding gene	gene with protein product		612519		FRCL1			Standard	NM_001008783		Approved		uc003qhe.3	Q5M8T2	OTTHUMG00000015651	ENST00000331858.4:c.511T>C	6.37:g.137245094T>C	ENSP00000333591:p.Tyr171His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DI58|Q5QNZ6|Q6NX71	Missense_Mutation	SNP	ENST00000331858.4	37	CCDS34544.1	.	.	.	.	.	.	.	.	.	.	T	25.5	4.644042	0.87859	.	.	ENSG00000182747	ENST00000331858	T	0.63096	-0.02	5.67	5.67	0.87782	Domain of unknown function DUF250 (1);	0.000000	0.85682	D	0.000000	T	0.71584	0.3357	L	0.61218	1.895	0.58432	D	0.999999	D	0.89917	1.0	D	0.77557	0.99	T	0.74791	-0.3545	10	0.59425	D	0.04	-16.1043	15.9193	0.79547	0.0:0.0:0.0:1.0	.	171	Q5M8T2	S35D3_HUMAN	H	171	ENSP00000333591:Y171H	ENSP00000333591:Y171H	Y	+	1	0	SLC35D3	137286787	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.900000	0.87376	2.176000	0.68965	0.454000	0.30748	TAC		0.706	SLC35D3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042389.2	XM_294017		C	137245094	T	C	137245094	3	2	604	1	0	0	0	0	1	0	0	0	14596	1522	53	3	517	3	SLC35D3	6	137245094	Missense_Mutation	SNP	T	TCGA-HE-7128-01A-11D-1961-08	2749390	137245094	33869973	20	36393										
MLL5	55904	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	104748161	104748161	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	agtgaactccaacttgagggAcctgacaccctcgcatcagt	9	13	1	3			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr7:104748161A>T	ENST00000311117.3	+	22	3802	c.3257A>T	c.(3256-3258)gAc>gTc	p.D1086V	CTB-152G17.6_ENST00000607968.1_RNA|KMT2E_ENST00000334914.7_Missense_Mutation_p.D141V|SRPK2_ENST00000493638.1_5'Flank|KMT2E_ENST00000334877.4_Missense_Mutation_p.D1086V|KMT2E_ENST00000257745.4_Missense_Mutation_p.D1086V	NM_182931.2	NP_891847.1	Q8IZD2	KMT2E_HUMAN	lysine (K)-specific methyltransferase 2E	1086					cell cycle arrest (GO:0007050)|cellular response to retinoic acid (GO:0071300)|DNA methylation (GO:0006306)|erythrocyte differentiation (GO:0030218)|histone H3-K4 methylation (GO:0051568)|neutrophil activation (GO:0042119)|neutrophil mediated immunity (GO:0002446)|positive regulation of granulocyte differentiation (GO:0030854)|positive regulation of transcription, DNA-templated (GO:0045893)|retinoic acid receptor signaling pathway (GO:0048384)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|MLL5-L complex (GO:0070688)|plasma membrane (GO:0005886)	enzyme binding (GO:0019899)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)										AACTTGAGGGACCTGACACCC	0.498																																																0													83	82	82					7																	104748161		2203	4300	6503	SO:0001583	missense	55904			AF067804	CCDS34723.1	7q22.1	2013-05-09	2013-05-09	2013-05-09	ENSG00000005483	ENSG00000005483		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	18541	protein-coding gene	gene with protein product		608444	"myeloid/lymphoid or mixed-lineage leukemia 5 (trithorax homolog, Drosophila)"	MLL5		9218106, 7672722	Standard	XM_005250493		Approved	HDCMC04P		Q8IZD2	OTTHUMG00000157403	ENST00000311117.3:c.3257A>T	7.37:g.104748161A>T	ENSP00000312379:p.Asp1086Val	Somatic		WXS	Illumina HiSeq	Phase_I	B6ZDE4|B6ZDM3|M4K8J3|Q6P5Y2|Q6PKG4|Q6T316|Q86TI3|Q86W12|Q86WG0|Q86WL2|Q8IV78|Q8IWR5|Q8NFF8|Q9NWE7	Missense_Mutation	SNP	ENST00000311117.3	37	CCDS34723.1	.	.	.	.	.	.	.	.	.	.	A	26.1	4.704341	0.88924	.	.	ENSG00000005483	ENST00000311117;ENST00000393656;ENST00000334877;ENST00000351043;ENST00000257745;ENST00000334914	D;D;D;T	0.96136	-3.92;-3.2;-3.92;-0.21	6.03	6.03	0.97812	.	0.000000	0.85682	D	0.000000	D	0.96222	0.8768	L	0.34521	1.04	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	D	0.97101	0.9797	10	0.87932	D	0	.	16.5655	0.84588	1.0:0.0:0.0:0.0	.	1086	Q8IZD2	MLL5_HUMAN	V	1086;1086;1086;1006;1086;141	ENSP00000312379:D1086V;ENSP00000335599:D1086V;ENSP00000257745:D1086V;ENSP00000333986:D141V	ENSP00000257745:D1086V	D	+	2	0	MLL5	104535397	1.000000	0.71417	0.995000	0.50966	0.997000	0.91878	8.690000	0.91272	2.302000	0.77476	0.533000	0.62120	GAC		0.498	KMT2E-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348697.1			T	104748161	A	T	104748161	3	4	604	1	0	0	0	0	1	0	0	0	9631	275	10	5	3335	5	MLL5	7	104748161	Missense_Mutation	SNP	A	TCGA-HE-7128-01A-11D-1961-08		104748161	54390502	21	36394										
TTC26	79989	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	138822639	138822639	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	agaggatactaatttgtggaTtggatattgtgcctttcacc	10	6	1	1			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr7:138822639T>C	ENST00000464848.1	+	3	268	c.188T>C	c.(187-189)aTt>aCt	p.I63T	TTC26_ENST00000474035.2_Missense_Mutation_p.I63T|TTC26_ENST00000478836.2_Missense_Mutation_p.I63T|TTC26_ENST00000481482.1_3'UTR|TTC26_ENST00000495038.1_Missense_Mutation_p.I63T|TTC26_ENST00000343187.4_Intron|TTC26_ENST00000430935.1_Missense_Mutation_p.I63T			A0AVF1	TTC26_HUMAN	tetratricopeptide repeat domain 26	63					cilium assembly (GO:0042384)	centrosome (GO:0005813)|ciliary basal body (GO:0036064)|intraciliary transport particle B (GO:0030992)|primary cilium (GO:0072372)				breast(1)|endometrium(5)|kidney(2)|large_intestine(3)|lung(7)|ovary(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	24						AATTTGTGGATTGGATATTGT	0.323																																																0													154	153	153					7																	138822639		2203	4300	6503	SO:0001583	missense	79989			AK022633	CCDS5852.1, CCDS55172.1, CCDS55173.1, CCDS75665.1	7q34	2013-01-11			ENSG00000105948	ENSG00000105948		"Intraflagellar transport homologs", "Tetratricopeptide (TTC) repeat domain containing"	21882	protein-coding gene	gene with protein product							Standard	NM_001144920		Approved	FLJ12571, dyf-13, DYF13	uc003vus.2	A0AVF1	OTTHUMG00000157472	ENST00000464848.1:c.188T>C	7.37:g.138822639T>C	ENSP00000419279:p.Ile63Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1S3|B7Z5M0|C9J2N7|F8W724|Q9H9S8|Q9NTC0	Missense_Mutation	SNP	ENST00000464848.1	37	CCDS5852.1	.	.	.	.	.	.	.	.	.	.	T	15.05	2.717383	0.48622	.	.	ENSG00000105948	ENST00000430935;ENST00000495038;ENST00000474035;ENST00000478836;ENST00000464848	T;T;T;T;T	0.77229	-1.08;1.52;-1.08;1.15;-1.08	6.05	6.05	0.98169	Tetratricopeptide-like helical (1);Tetratricopeptide repeat-containing (1);	0.287285	0.37761	N	0.001947	T	0.76550	0.4003	L	0.39245	1.2	0.58432	D	0.999996	P;B;P;B;B	0.41188	0.605;0.012;0.741;0.004;0.137	P;B;P;B;B	0.45660	0.489;0.018;0.489;0.012;0.062	T	0.77720	-0.2482	10	0.52906	T	0.07	.	15.5826	0.76455	0.0:0.0:0.0:1.0	.	63;63;63;63;63	B7Z2T3;C9J2N7;B7Z6R6;A0AVF1;Q96CU4	.;.;.;TTC26_HUMAN;.	T	63	ENSP00000410655:I63T;ENSP00000418788:I63T;ENSP00000443253:I63T;ENSP00000419178:I63T;ENSP00000419279:I63T	ENSP00000410655:I63T	I	+	2	0	TTC26	138473179	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	4.353000	0.59411	2.323000	0.78572	0.533000	0.62120	ATT		0.323	TTC26-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348919.2	NM_024926		C	138822639	T	C	138822639	3	2	604	1	0	0	0	0	1	0	0	0	16706	1493	52	3	198	3	TTC26	7	138822639	Missense_Mutation	SNP	T	TCGA-HE-7128-01A-11D-1961-08	34074478	138822639	20316024	22	36395										
AGPAT6	137964	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	41467379	41467379	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	gagtcctggaacctgctgagCagaaccaattataacttcca	8	11	0	2			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr8:41467379C>T	ENST00000396987.3	+	4	1368	c.441C>T	c.(439-441)agC>agT	p.S147S	RP11-360L9.8_ENST00000581909.1_RNA	NM_178819.3	NP_848934.1	Q86UL3	GPAT4_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 6	147					acyl-CoA metabolic process (GO:0006637)|CDP-diacylglycerol biosynthetic process (GO:0016024)|cellular lipid metabolic process (GO:0044255)|diacylglycerol metabolic process (GO:0046339)|fatty acid metabolic process (GO:0006631)|glandular epithelial cell maturation (GO:0002071)|glycerophospholipid biosynthetic process (GO:0046474)|lactation (GO:0007595)|lipid biosynthetic process (GO:0008610)|phosphatidic acid biosynthetic process (GO:0006654)|phosphatidylcholine biosynthetic process (GO:0006656)|phospholipid metabolic process (GO:0006644)|regulation of multicellular organism growth (GO:0040014)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	glycerol-3-phosphate O-acyltransferase activity (GO:0004366)			endometrium(3)|kidney(2)|large_intestine(3)|lung(6)	14	Ovarian(28;0.00769)|Colorectal(14;0.0202)|Lung SC(25;0.211)	all_lung(54;0.0131)|Lung NSC(58;0.0363)|Hepatocellular(245;0.0462)|Esophageal squamous(32;0.0844)	OV - Ovarian serous cystadenocarcinoma(14;0.00126)|Colorectal(10;0.0014)|Lung(22;0.00177)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0147)			ACCTGCTGAGCAGAACCAATT	0.493																																																0													98	96	97					8																	41467379		2203	4300	6503	SO:0001819	synonymous_variant	137964			AF406612	CCDS6117.1	8p11.21	2013-02-05	2013-02-05			ENSG00000158669	2.3.1.15	"1-acylglycerol-3-phosphate O-acyltransferases"	20880	protein-coding gene	gene with protein product	"lysophosphatidic acid acyltransferase, zeta"	608143	"1-acylglycerol-3-phosphate O-acyltransferase 6 (lysophosphatidic acid acyltransferase, zeta)"			12938015	Standard	NM_178819		Approved	DKFZp586M1819, LPAAT-zeta	uc003xnz.2	Q86UL3		ENST00000396987.3:c.441C>T	8.37:g.41467379C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q86V89	Silent	SNP	ENST00000396987.3	37	CCDS6117.1																																																																																				0.493	AGPAT6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377158.1	NM_178819		T	41467379	C	T	41467379	2	4	604	1	0	0	0	0	0	0	0	1	391	709	25	2		2	AGPAT6	8	41467379	Silent	SNP	C	TCGA-HE-7128-01A-11D-1961-08		41467379	104896643	23	36396										
CDC37L1	55664	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	4706079	4706079	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	aactcggtggtacataaagaAgatgatgaacccaaaatgat	9	6	0	5	rs200977934		TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr9:4706079A>G	ENST00000381854.3	+	7	1183	c.981A>G	c.(979-981)gaA>gaG	p.E327E		NM_017913.2	NP_060383.2	Q7L3B6	CD37L_HUMAN	cell division cycle 37-like 1	327	Interaction with Hsp70.|Required for interaction with STIP1.					cytoplasm (GO:0005737)				breast(1)|kidney(1)|lung(2)	4	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.0318)		TACATAAAGAAGATGATGAAC	0.393																																																0													130	112	118					9																	4706079		2203	4300	6503	SO:0001819	synonymous_variant	55664			AK000497	CCDS6454.1	9p24.1	2013-01-17	2013-01-17		ENSG00000106993	ENSG00000106993			17179	protein-coding gene	gene with protein product		610346	"CDC37 cell division cycle 37 homolog (S. cerevisiae)-like 1", "cell division cycle 37 homolog (S. cerevisiae)-like 1"				Standard	NM_017913		Approved	HARC, FLJ20639, CDC37B	uc003zio.3	Q7L3B6	OTTHUMG00000019465	ENST00000381854.3:c.981A>G	9.37:g.4706079A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B1AL70|Q9NWS3|Q9NX16	Silent	SNP	ENST00000381854.3	37	CCDS6454.1																																																																																				0.393	CDC37L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051564.1	NM_017913		G	4706079	A	G	4706079	2	3	604	1	0	0	0	0	0	0	0	1	3071	69	3	3		3	CDC37L1	9	4706079	Silent	SNP	A	TCGA-HE-7128-01A-11D-1961-08		4706079	136507352	24	36397										
OGN	4969	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	95148550	95148550	+	Frame_Shift_Del	DEL	A	A	-													0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	attccagggcattatggtccAagtagaggaaggtgaggtta							TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr9:95148550delA	ENST00000262551.4	-	6	1079	c.659delT	c.(658-660)ttgfs	p.L220fs	CENPP_ENST00000375587.3_Intron|OGN_ENST00000375561.5_Frame_Shift_Del_p.L220fs	NM_033014.2	NP_148935.1	P20774	MIME_HUMAN	osteoglycin	220					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate catabolic process (GO:0042340)|keratan sulfate metabolic process (GO:0042339)|negative regulation of smooth muscle cell proliferation (GO:0048662)|small molecule metabolic process (GO:0044281)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|lysosomal lumen (GO:0043202)|proteinaceous extracellular matrix (GO:0005578)|vesicle (GO:0031982)				central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(3)|prostate(1)|urinary_tract(1)	13						ATTATGGTCCAAGTAGAGGAA	0.368																																																0													195	188	190					9																	95148550		2203	4300	6503	SO:0001589	frameshift_variant	4969			AI424992	CCDS6695.1	9q22	2008-02-05	2007-02-16		ENSG00000106809	ENSG00000106809		"Proteoglycans / Extracellular Matrix : Small leucine-rich repeats"	8126	protein-coding gene	gene with protein product	"mimecan proteoglycan"	602383	"osteoglycin (osteoinductive factor)"			2372374	Standard	NM_033014		Approved	mimecan, OIF, SLRR3A	uc004asa.3	P20774	OTTHUMG00000020224	ENST00000262551.4:c.659delT	9.37:g.95148550delA	ENSP00000262551:p.Leu220fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FIB0|Q9UF90|Q9UNK5	Frame_Shift_Del	DEL	ENST00000262551.4	37	CCDS6695.1																																																																																				0.368	OGN-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053087.1	NM_024416		-	95148550	A	-	95148550	7	5	604	1	0	1	0	1	0	0	0	0	10853	131	5	0	245	0	OGN	9	95148550	Frame_Shift_Del	DEL	A	TCGA-HE-7128-01A-11D-1961-08	90442471	95148550	46064881	25	36398										
TOR2A	27433	ucsc.edu	37	chr9	130494938	130494938	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	ggctgcgccacgcctccaatGccacctggttgatctgcttg	11	15	1	1			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr9:130494938G>A	ENST00000373284.5	-	4	672	c.626C>T	c.(625-627)gCa>gTa	p.A209V	TOR2A_ENST00000336067.6_Intron|TOR2A_ENST00000458505.3_3'UTR|TOR2A_ENST00000373281.5_3'UTR|TOR2A_ENST00000472723.1_5'UTR	NM_001085347.2	NP_001078816	Q5JU69	TOR2A_HUMAN	torsin family 2, member A	209					chaperone mediated protein folding requiring cofactor (GO:0051085)|protein homooligomerization (GO:0051260)	endoplasmic reticulum lumen (GO:0005788)	ATP binding (GO:0005524)			NS(1)|endometrium(2)	3						CGCCTCCAATGCCACCTGGTT	0.657																																																0													14	19	17					9																	130494938		2115	4225	6340	SO:0001583	missense	27433			AA873275	CCDS6876.1, CCDS43879.1, CCDS48024.1	9q34.11	2010-08-20			ENSG00000160404	ENSG00000160404			11996	protein-coding gene	gene with protein product		608052				10644435	Standard	NM_001085347		Approved	FLJ14771, TORP1	uc004brs.4	Q5JU69	OTTHUMG00000020706	ENST00000373284.5:c.626C>T	9.37:g.130494938G>A	ENSP00000362381:p.Ala209Val	Somatic		WXS	Illumina HiSeq		A4FU12|A4FU13|Q3ZCN9|Q3ZCP0|Q5JU68|Q66K87|Q6UXW6|Q8NAN5|Q96SL7	Missense_Mutation	SNP	ENST00000373284.5	37	CCDS43879.1	.	.	.	.	.	.	.	.	.	.	G	14.61	2.585931	0.46110	.	.	ENSG00000160404	ENST00000373284	T	0.29397	1.57	5.72	-3.4	0.04853	ATPase, AAA+ type, core (1);	0.302598	0.39687	N	0.001290	T	0.16428	0.0395	L	0.27053	0.805	0.54753	D	0.999988	B	0.12630	0.006	B	0.12156	0.007	T	0.28459	-1.0043	10	0.10111	T	0.7	-1.6228	13.502	0.61462	0.236:0.0:0.764:0.0	.	209	Q5JU69	TOR2A_HUMAN	V	209	ENSP00000362381:A209V	ENSP00000362381:A209V	A	-	2	0	TOR2A	129534759	0.011000	0.17503	0.012000	0.15200	0.862000	0.49288	0.317000	0.19487	-0.535000	0.06307	-1.036000	0.02392	GCA		0.657	TOR2A-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054205.1	NM_130459		A	130494938	G	A	130494938	3	1	604	1	0	0	0	0	1	0	0	0	16387	1319	46	2	347	2	TOR2A	9	130494938	Missense_Mutation	SNP	G	TCGA-HE-7128-01A-11D-1961-08	35346388	130494938	10718493	26	36399										
C9orf7	11094	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	136333115	136333115	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	aacgccatcgcctttgctacGggggtgctgtacggactctc	12	13	1	0	rs150411088		TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr9:136333115G>A	ENST00000316948.4	+	4	473	c.393G>A	c.(391-393)acG>acA	p.T131T	CACFD1_ENST00000542192.1_Silent_p.T89T|CACFD1_ENST00000291722.7_Silent_p.T89T|CACFD1_ENST00000540581.1_Silent_p.T131T	NM_017586.3	NP_060056.1	Q9UGQ2	FLOWR_HUMAN	calcium channel flower domain containing 1	131					synaptic vesicle endocytosis (GO:0048488)	integral component of synaptic vesicle membrane (GO:0030285)	calcium channel activity (GO:0005262)										CCTTTGCTACGGGGGTGCTGT	0.657																																																0								G	,,,	1,4405	2.1+/-5.4	0,1,2202	76	68	70		267,393,267,393	-10.8	0.2	9	dbSNP_134	70	0,8600		0,0,4300	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	C9orf7	NM_001135775.2,NM_001242369.1,NM_001242370.1,NM_017586.3	,,,	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	,,,	89/131,131/234,89/192,131/173	136333115	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	11094				CCDS6974.1, CCDS48051.1, CCDS56591.1, CCDS56592.1	9q34	2012-03-06	2012-03-06	2012-03-06	ENSG00000160325	ENSG00000160325			1365	protein-coding gene	gene with protein product		613104	"chromosome 9 open reading frame 7"	C9orf7		19737521	Standard	NM_001242370		Approved	D9S2135, flower	uc011mdh.1	Q9UGQ2	OTTHUMG00000020875	ENST00000316948.4:c.393G>A	9.37:g.136333115G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3T8|B7Z5E1|F5GXX4|Q5SXD4|Q8NBM6	Silent	SNP	ENST00000316948.4	37	CCDS6974.1																																																																																				0.657	CACFD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054915.1	NM_017586		A	136333115	G	A	136333115	2	1	604	1	0	0	0	0	0	0	0	1	2495	1103	39	1		1	C9orf7	9	136333115	Silent	SNP	G	TCGA-HE-7128-01A-11D-1961-08	5838177	136333115	4880316	27	36400										
SLC16A12	387700	bcgsc.ca	37	chr10	91203549	91203549	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	acaatctacaatggaatggaTccatgccgtttgtgcgtaat	9	8	1	0			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr10:91203549T>C	ENST00000341233.4	-	4	568	c.178A>G	c.(178-180)Atc>Gtc	p.I60V	SLC16A12_ENST00000371790.4_Missense_Mutation_p.I90V	NM_213606.3	NP_998771.3	Q6ZSM3	MOT12_HUMAN	solute carrier family 16, member 12	60						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	symporter activity (GO:0015293)			central_nervous_system(1)|endometrium(1)|large_intestine(6)|lung(4)|skin(1)|stomach(1)	14						ATGGAATGGATCCATGCCGTT	0.378																																																0													124	108	114					10																	91203549		2203	4300	6503	SO:0001583	missense	387700				CCDS7404.1, CCDS7404.2	10q23.32	2013-07-18	2013-07-18		ENSG00000152779	ENSG00000152779		"Solute carriers"	23094	protein-coding gene	gene with protein product	"monocarboxylic acid transporter 12"	611910	"solute carrier family 16 (monocarboxylic acid transporters), member 12", "solute carrier family 16, member 12 (monocarboxylic acid transporter 12)"				Standard	NM_213606		Approved	MCT12	uc001kgm.3	Q6ZSM3	OTTHUMG00000018714	ENST00000341233.4:c.178A>G	10.37:g.91203549T>C	ENSP00000343022:p.Ile60Val	Somatic		WXS	Illumina HiSeq	Phase_1	Q5M9M9|Q5T7J2|Q6ZV76	Missense_Mutation	SNP	ENST00000341233.4	37		.	.	.	.	.	.	.	.	.	.	T	18.13	3.554819	0.65425	.	.	ENSG00000152779	ENST00000341233;ENST00000371790	T;T	0.55413	0.52;0.52	5.47	5.47	0.80525	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.098147	0.64402	D	0.000002	T	0.46658	0.1404	L	0.37850	1.14	0.80722	D	1	P	0.37612	0.602	B	0.42214	0.38	T	0.33163	-0.9879	10	0.14252	T	0.57	.	14.7418	0.69461	0.0:0.0:0.0:1.0	.	60	Q6ZSM3	MOT12_HUMAN	V	60;90	ENSP00000343022:I60V;ENSP00000360855:I90V	ENSP00000343022:I60V	I	-	1	0	SLC16A12	91193529	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	6.223000	0.72257	2.087000	0.62958	0.482000	0.46254	ATC		0.378	SLC16A12-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_213606		C	91203549	T	C	91203549	3	2	604	1	0	0	0	0	1	0	0	0	14418	1435	50	3	1302	3	SLC16A12	10	91203549	Missense_Mutation	SNP	T	TCGA-HE-7128-01A-11D-1961-08		91203549	44331198	28	36401										
OR51A7	119687	broad.mit.edu;bcgsc.ca	37	chr11	4928976	4928976	+	Frame_Shift_Del	DEL	T	T	-													0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	tttggaccgctttcttgccaTtcacaatcccttaagataca							TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr11:4928976delT	ENST00000359350.4	+	1	377	c.377delT	c.(376-378)attfs	p.I126fs	MMP26_ENST00000380390.1_Intron|MMP26_ENST00000477339.1_Intron	NM_001004749.1	NP_001004749.1	Q8NH64	O51A7_HUMAN	olfactory receptor, family 51, subfamily A, member 7	126						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(1)|large_intestine(7)|lung(13)|ovary(1)|skin(4)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	33		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTTCTTGCCATTCACAATCCC	0.393																																																0													102	98	99					11																	4928976		2201	4298	6499	SO:0001589	frameshift_variant	119687			AB065525	CCDS31364.1	11p15.4	2012-08-09			ENSG00000176895	ENSG00000176895		"GPCR / Class A : Olfactory receptors"	15188	protein-coding gene	gene with protein product							Standard	NM_001004749		Approved		uc010qyq.2	Q8NH64	OTTHUMG00000066502	ENST00000359350.4:c.377delT	11.37:g.4928976delT	ENSP00000352305:p.Ile126fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFH8	Frame_Shift_Del	DEL	ENST00000359350.4	37	CCDS31364.1																																																																																				0.393	OR51A7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000142175.1	NM_001004749		-	4928976	T	-	4928976	7	5	604	1	0	1	0	1	0	0	0	0	11095	1493	52	0	379	0	OR51A7	11	4928976	Frame_Shift_Del	DEL	T	TCGA-HE-7128-01A-11D-1961-08		4928976	130077540	29	36402										
NDUFS3	4722	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	47604000	47604000	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	atcctttccggaaagactttCctctatctggctatgttgag	8	10	2	2			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr11:47604000C>T	ENST00000263774.4	+	6	689	c.607C>T	c.(607-609)Cct>Tct	p.P203S	NDUFS3_ENST00000533507.1_3'UTR	NM_004551.2	NP_004542.1	O75489	NDUS3_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 3, 30kDa (NADH-coenzyme Q reductase)	203					cellular metabolic process (GO:0044237)|mitochondrial electron transport, NADH to ubiquinone (GO:0006120)|negative regulation of cell growth (GO:0030308)|negative regulation of intrinsic apoptotic signaling pathway (GO:2001243)|reactive oxygen species metabolic process (GO:0072593)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)|substantia nigra development (GO:0021762)	mitochondrial inner membrane (GO:0005743)|mitochondrial membrane (GO:0031966)|mitochondrial respiratory chain complex I (GO:0005747)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	electron carrier activity (GO:0009055)|NADH dehydrogenase (ubiquinone) activity (GO:0008137)|NADH dehydrogenase activity (GO:0003954)			breast(1)|endometrium(1)|kidney(2)|large_intestine(3)|lung(2)	9					Doxorubicin(DB00997)	GAAAGACTTTCCTCTATCTGG	0.512																																					Pancreas(15;551 601 22438 23457 52512)											0													261	270	267					11																	47604000		2201	4298	6499	SO:0001583	missense	4722			AF067139	CCDS7941.1	11p11.11	2011-08-03	2002-08-29		ENSG00000213619	ENSG00000213619	1.6.5.3	"Mitochondrial respiratory chain complex / Complex I"	7710	protein-coding gene	gene with protein product	"complex I 30kDa subunit", "NADH dehydrogenase [ubiquinone] iron-sulfur protein 3, mitochondrial"	603846	"NADH dehydrogenase (ubiquinone) Fe-S protein 3 (30kD) (NADH-coenzyme Q reductase)"			9763677	Standard	NM_004551		Approved	CI-30	uc001nga.2	O75489	OTTHUMG00000166893	ENST00000263774.4:c.607C>T	11.37:g.47604000C>T	ENSP00000263774:p.Pro203Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9J1|B4DFM8|Q9UNQ8	Missense_Mutation	SNP	ENST00000263774.4	37	CCDS7941.1	.	.	.	.	.	.	.	.	.	.	C	33	5.261674	0.95368	.	.	ENSG00000213619	ENST00000263774	D	0.88124	-2.34	5.87	5.87	0.94306	.	0.000000	0.85682	D	0.000000	D	0.95544	0.8552	M	0.93507	3.425	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.72982	0.972;0.979	D	0.95909	0.8921	10	0.87932	D	0	-17.4651	20.206	0.98277	0.0:1.0:0.0:0.0	.	203;129	O75489;Q9UF24	NDUS3_HUMAN;.	S	203	ENSP00000263774:P203S	ENSP00000263774:P203S	P	+	1	0	NDUFS3	47560576	1.000000	0.71417	0.999000	0.59377	0.932000	0.56968	7.474000	0.81024	2.785000	0.95823	0.655000	0.94253	CCT		0.512	NDUFS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391749.1	NM_004551		T	47604000	C	T	47604000	3	4	604	1	0	0	0	0	1	0	0	0	10300	855	30	2	629	2	NDUFS3	11	47604000	Missense_Mutation	SNP	C	TCGA-HE-7128-01A-11D-1961-08	42675024	47604000	87402516	30	36403										
ARHGEF17	9828	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	73020521	73020521	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	actcctcgggcagtgacgacGaccgagacggtgagggcggc	17	12	0	3			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr11:73020521G>T	ENST00000263674.3	+	1	1188	c.838G>T	c.(838-840)Gac>Tac	p.D280Y	RP11-800A3.7_ENST00000546324.1_RNA	NM_014786.3	NP_055601.2	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	280					actin cytoskeleton organization (GO:0030036)|apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	guanyl-nucleotide exchange factor activity (GO:0005085)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(15)|ovary(2)|skin(2)	32						CAGTGACGACGACCGAGACGG	0.697																																																0													16	21	20					11																	73020521		2151	4242	6393	SO:0001583	missense	9828			AF378754	CCDS8221.1	11q13.3	2011-11-16			ENSG00000110237	ENSG00000110237		"Rho guanine nucleotide exchange factors"	21726	protein-coding gene	gene with protein product	"Rho-specific guanine-nucleotide exchange factor 164 kDa", "tumor endothelial marker 4"					11559528, 12071859	Standard	NM_014786		Approved	TEM4, KIAA0337, p164-RhoGEF	uc001otu.3	Q96PE2	OTTHUMG00000167971	ENST00000263674.3:c.838G>T	11.37:g.73020521G>T	ENSP00000263674:p.Asp280Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP20|Q86XU2|Q8N2S0|Q9Y4G3	Missense_Mutation	SNP	ENST00000263674.3	37	CCDS8221.1	.	.	.	.	.	.	.	.	.	.	G	14.91	2.677629	0.47886	.	.	ENSG00000110237	ENST00000263674	T	0.68181	-0.31	4.72	4.72	0.59763	.	0.000000	0.40554	N	0.001072	T	0.60495	0.2273	L	0.27053	0.805	0.09310	N	0.999994	P	0.49447	0.924	P	0.46419	0.516	T	0.60239	-0.7302	10	0.87932	D	0	-17.9023	15.1972	0.73100	0.0:0.0:1.0:0.0	.	280	Q96PE2	ARHGH_HUMAN	Y	280	ENSP00000263674:D280Y	ENSP00000263674:D280Y	D	+	1	0	ARHGEF17	72698169	1.000000	0.71417	1.000000	0.80357	0.835000	0.47333	4.087000	0.57671	2.179000	0.69175	0.313000	0.20887	GAC		0.697	ARHGEF17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397365.1	NM_014786		T	73020521	G	T	73020521	3	4	604	1	0	0	0	0	1	0	0	0	900	1058	37	4	840	4	ARHGEF17	11	73020521	Missense_Mutation	SNP	G	TCGA-HE-7128-01A-11D-1961-08	25416521	73020521	61985995	31	36404										
MLL2	8085	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	49446075	49446075	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	gtggtggtgacaggcgtgatGcctcaggtggtggggacgtg	21	6	1	2			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr12:49446075G>A	ENST00000301067.7	-	10	1390	c.1391C>T	c.(1390-1392)gCa>gTa	p.A464V		NM_003482.3	NP_003473.3	O14686	KMT2D_HUMAN	lysine (K)-specific methyltransferase 2D	464	15 X 5 AA repeats of S/P-P-P-E/P-E/A.|Pro-rich.				chromatin silencing (GO:0006342)|histone H3-K4 methylation (GO:0051568)|oocyte growth (GO:0001555)|oogenesis (GO:0048477)|positive regulation of cell proliferation (GO:0008284)|positive regulation of intracellular estrogen receptor signaling pathway (GO:0033148)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|response to estrogen (GO:0043627)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)										CAGGCGTGATGCCTCAGGTGG	0.657																																																0													88	98	94					12																	49446075		2162	4235	6397	SO:0001583	missense	8085			AF010403	CCDS44873.1	12q13.12	2013-05-09	2013-05-09	2013-05-09	ENSG00000167548	ENSG00000167548		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	7133	protein-coding gene	gene with protein product		602113	"trinucleotide repeat containing 21", "myeloid/lymphoid or mixed-lineage leukemia 2"	TNRC21, MLL2		9247308	Standard	NM_003482		Approved	ALR, MLL4, CAGL114		O14686	OTTHUMG00000166524	ENST00000301067.7:c.1391C>T	12.37:g.49446075G>A	ENSP00000301067:p.Ala464Val	Somatic		WXS	Illumina HiSeq	Phase_I	O14687	Missense_Mutation	SNP	ENST00000301067.7	37	CCDS44873.1	.	.	.	.	.	.	.	.	.	.	G	7.479	0.648310	0.14516	.	.	ENSG00000167548	ENST00000301067	T	0.80393	-1.37	3.73	2.82	0.32997	.	.	.	.	.	T	0.58807	0.2148	N	0.08118	0	0.21841	N	0.999512	P	0.38395	0.629	B	0.29440	0.102	T	0.53844	-0.8381	9	0.87932	D	0	.	8.8235	0.35041	0.0:0.0:0.5915:0.4085	.	464	O14686	MLL2_HUMAN	V	464	ENSP00000301067:A464V	ENSP00000301067:A464V	A	-	2	0	MLL2	47732342	0.989000	0.36119	0.999000	0.59377	0.673000	0.39480	0.945000	0.29056	1.130000	0.42092	0.313000	0.20887	GCA		0.657	KMT2D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390183.2			A	49446075	G	A	49446075	3	1	604	1	0	0	0	0	1	0	0	0	9628	1319	46	2	15402	2	MLL2	12	49446075	Missense_Mutation	SNP	G	TCGA-HE-7128-01A-11D-1961-08		49446075	84405820	32	36405										
UTP20	27340	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	101684601	101684601	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	ttggagaaacactcaaaaacAtggtcaaatccactgtatcc	6	10	2	1			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr12:101684601A>G	ENST00000261637.4	+	8	1000	c.826A>G	c.(826-828)Atg>Gtg	p.M276V		NM_014503.2	NP_055318.2	O75691	UTP20_HUMAN	UTP20, small subunit (SSU) processome component, homolog (yeast)	276					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000480)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000447)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000472)|negative regulation of cell proliferation (GO:0008285)|rRNA processing (GO:0006364)	90S preribosome (GO:0030686)|cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|preribosome, small subunit precursor (GO:0030688)|small-subunit processome (GO:0032040)	poly(A) RNA binding (GO:0044822)			NS(3)|biliary_tract(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(9)|kidney(2)|large_intestine(26)|lung(30)|ovary(2)|prostate(3)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	88						ACTCAAAAACATGGTCAAATC	0.373																																																0													165	146	153					12																	101684601		2203	4300	6503	SO:0001583	missense	27340			AJ006778	CCDS9081.1	12q23	2006-02-11				ENSG00000120800			17897	protein-coding gene	gene with protein product	"down regulated in metastasis"	612822				9673349, 15590835, 12837249	Standard	NM_014503		Approved	DRIM	uc001tia.1	O75691	OTTHUMG00000170270	ENST00000261637.4:c.826A>G	12.37:g.101684601A>G	ENSP00000261637:p.Met276Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H3H4	Missense_Mutation	SNP	ENST00000261637.4	37	CCDS9081.1	.	.	.	.	.	.	.	.	.	.	a	11.01	1.513057	0.27123	.	.	ENSG00000120800	ENST00000261637	T	0.63096	-0.02	5.36	5.36	0.76844	Armadillo-type fold (1);	0.044796	0.85682	D	0.000000	T	0.53449	0.1797	M	0.65975	2.015	0.41134	D	0.9859	B	0.13145	0.007	B	0.08055	0.003	T	0.49523	-0.8931	10	0.02654	T	1	-27.2237	10.5826	0.45265	0.8563:0.0:0.0:0.1437	.	276	O75691	UTP20_HUMAN	V	276	ENSP00000261637:M276V	ENSP00000261637:M276V	M	+	1	0	UTP20	100208732	1.000000	0.71417	0.999000	0.59377	0.862000	0.49288	5.005000	0.63972	2.031000	0.59945	0.528000	0.53228	ATG		0.373	UTP20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408242.1	NM_014503		G	101684601	A	G	101684601	3	3	604	1	0	0	0	0	1	0	0	0	17111	217	8	3	856	3	UTP20	12	101684601	Missense_Mutation	SNP	A	TCGA-HE-7128-01A-11D-1961-08	52238526	101684601	32167294	33	36406										
PTPN11	5781	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	112892482	112892482	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	gtacagtactacaactcaagCaggtgagcagattggaaagc	11	8	1	2			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr12:112892482C>A	ENST00000351677.2	+	5	838	c.640C>A	c.(640-642)Cag>Aag	p.Q214K	PTPN11_ENST00000392597.1_Missense_Mutation_p.Q214K	NM_002834.3	NP_002825.3	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type 11	214	SH2 2. {ECO:0000255|PROSITE- ProRule:PRU00191}.				abortive mitotic cell cycle (GO:0033277)|activation of MAPK activity (GO:0000187)|atrioventricular canal development (GO:0036302)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|brain development (GO:0007420)|cytokine-mediated signaling pathway (GO:0019221)|DNA damage checkpoint (GO:0000077)|ephrin receptor signaling pathway (GO:0048013)|epidermal growth factor receptor signaling pathway (GO:0007173)|ERBB signaling pathway (GO:0038127)|face morphogenesis (GO:0060325)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|genitalia development (GO:0048806)|glucose homeostasis (GO:0042593)|heart development (GO:0007507)|hormone metabolic process (GO:0042445)|hormone-mediated signaling pathway (GO:0009755)|innate immune response (GO:0045087)|inner ear development (GO:0048839)|insulin receptor signaling pathway (GO:0008286)|integrin-mediated signaling pathway (GO:0007229)|interferon-gamma-mediated signaling pathway (GO:0060333)|leukocyte migration (GO:0050900)|megakaryocyte development (GO:0035855)|multicellular organismal reproductive process (GO:0048609)|negative regulation of cell adhesion mediated by integrin (GO:0033629)|negative regulation of cortisol secretion (GO:0051463)|negative regulation of growth hormone secretion (GO:0060125)|negative regulation of insulin secretion (GO:0046676)|neurotrophin TRK receptor signaling pathway (GO:0048011)|organ growth (GO:0035265)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol-mediated signaling (GO:0048015)|platelet formation (GO:0030220)|positive regulation of glucose import in response to insulin stimulus (GO:2001275)|positive regulation of hormone secretion (GO:0046887)|regulation of cell adhesion mediated by integrin (GO:0033628)|regulation of interferon-gamma-mediated signaling pathway (GO:0060334)|regulation of multicellular organism growth (GO:0040014)|regulation of protein export from nucleus (GO:0046825)|regulation of type I interferon-mediated signaling pathway (GO:0060338)|T cell costimulation (GO:0031295)|triglyceride metabolic process (GO:0006641)|type I interferon signaling pathway (GO:0060337)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|protein complex (GO:0043234)	insulin receptor binding (GO:0005158)|non-membrane spanning protein tyrosine phosphatase activity (GO:0004726)|phosphoprotein phosphatase activity (GO:0004721)|protein tyrosine phosphatase activity (GO:0004725)|SH3/SH2 adaptor activity (GO:0005070)			NS(1)|autonomic_ganglia(2)|breast(1)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(406)|kidney(2)|large_intestine(6)|lung(16)|ovary(1)|skin(1)|soft_tissue(3)|stomach(3)	451						ACAACTCAAGCAGGTGAGCAG	0.378			Mis		"JMML, AML, MDS"		Noonan Syndrome		Noonan syndrome																														Dom	yes		12	12q24.1	5781	"protein tyrosine phosphatase, non-receptor type 11"	yes	L	0													72	67	69					12																	112892482		2203	4300	6503	SO:0001583	missense	5781	Familial Cancer Database	Male Turner syndrome, Pterygium Colli syndrome, incl. Noonan-like/Multiple Giant Cell Lesion syndrome; Noonan s. with multiple lentigines/LEOPARD syndrome	D13540	CCDS9163.1, CCDS58280.1	12q24.1	2014-09-17	2008-07-31		ENSG00000179295	ENSG00000179295		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Non-receptor", "SH2 domain containing"	9644	protein-coding gene	gene with protein product		176876	"Noonan syndrome 1"	NS1		7894486, 1280823	Standard	NM_080601		Approved	BPTP3, SH-PTP2, SHP-2, PTP2C, SHP2	uc001ttx.3	Q06124	OTTHUMG00000134334	ENST00000351677.2:c.640C>A	12.37:g.112892482C>A	ENSP00000340944:p.Gln214Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1D9|Q96HD7	Missense_Mutation	SNP	ENST00000351677.2	37	CCDS9163.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	17.04|17.04	3.287636|3.287636	0.59976|0.59976	.|.	.|.	ENSG00000179295|ENSG00000179295	ENST00000392597;ENST00000351677;ENST00000392596|ENST00000530818	T;T|.	0.75938|.	-0.98;-0.98|.	5.65|5.65	5.65|5.65	0.86999|0.86999	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.68531|0.68531	0.3011|0.3011	L|L	0.42744|0.42744	1.35|1.35	0.80722|0.80722	D|D	1|1	B;B|.	0.19583|.	0.016;0.037|.	B;B|.	0.23150|.	0.036;0.044|.	T|T	0.63296|0.63296	-0.6669|-0.6669	10|5	0.40728|.	T|.	0.16|.	.|.	19.717|19.717	0.96124|0.96124	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	214;214|.	Q06124-2;Q06124-3|.	.;.|.	K|R	214|58	ENSP00000376376:Q214K;ENSP00000340944:Q214K|.	ENSP00000340944:Q214K|.	Q|S	+|+	1|3	0|2	PTPN11|PTPN11	111376865|111376865	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.431000|0.431000	0.31685|0.31685	7.468000|7.468000	0.80943|0.80943	2.654000|2.654000	0.90174|0.90174	0.484000|0.484000	0.47621|0.47621	CAG|AGC		0.378	PTPN11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000259496.2			A	112892482	C	A	112892482	3	1	604	1	0	0	0	0	1	0	0	0	12791	711	25	4	658	4	PTPN11	12	112892482	Missense_Mutation	SNP	C	TCGA-HE-7128-01A-11D-1961-08	11207881	112892482	20959413	34	36407										
ABCB9	23457	broad.mit.edu	37	chr12	123444428	123444428	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	aatgtacgtccacacgaacaGggcccaaaaccaggggtccc	10	14	0	0			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr12:123444428G>T	ENST00000542678.1	-	2	3193	c.355C>A	c.(355-357)Ctg>Atg	p.L119M	ABCB9_ENST00000344275.7_Missense_Mutation_p.L119M|ABCB9_ENST00000392439.3_Missense_Mutation_p.L119M|ABCB9_ENST00000280560.8_Missense_Mutation_p.L119M|ABCB9_ENST00000540285.1_Missense_Mutation_p.L119M|ABCB9_ENST00000442028.2_Missense_Mutation_p.L119M|ABCB9_ENST00000442833.2_Missense_Mutation_p.L119M|ABCB9_ENST00000346530.5_Missense_Mutation_p.L119M			Q9NP78	ABCB9_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP), member 9	119					peptide transport (GO:0015833)|protein transport (GO:0015031)|transmembrane transport (GO:0055085)	integral component of endoplasmic reticulum membrane (GO:0030176)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)	ATP binding (GO:0005524)|peptide-transporting ATPase activity (GO:0015440)|protein homodimerization activity (GO:0042803)|substrate-specific transmembrane transporter activity (GO:0022891)			central_nervous_system(1)|endometrium(2)|large_intestine(2)|lung(9)|ovary(2)|prostate(1)|skin(1)	18	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.84e-05)|Epithelial(86;0.000152)|BRCA - Breast invasive adenocarcinoma(302;0.111)		CACACGAACAGGGCCCAAAAC	0.647																																					Ovarian(49;786 1333 9175 38236)											0													35	38	37					12																	123444428		2203	4300	6503	SO:0001583	missense	23457			U66676	CCDS9241.1, CCDS58286.1, CCDS58287.1, CCDS58288.1	12q24	2012-03-14			ENSG00000150967	ENSG00000150967		"ATP binding cassette transporters / subfamily B"	50	protein-coding gene	gene with protein product		605453				8894702	Standard	NM_019625		Approved	EST122234	uc001udm.4	Q9NP78		ENST00000542678.1:c.355C>A	12.37:g.123444428G>T	ENSP00000440288:p.Leu119Met	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2J0|Q5W9G7|Q769F3|Q769F4|Q96AB1|Q9P208	Missense_Mutation	SNP	ENST00000542678.1	37	CCDS9241.1	.	.	.	.	.	.	.	.	.	.	G	15.02	2.707845	0.48412	.	.	ENSG00000150967	ENST00000280560;ENST00000540285;ENST00000346530;ENST00000392439;ENST00000542678;ENST00000442028;ENST00000539502	D;D;D;D;D;D	0.90732	-2.41;-2.72;-2.6;-2.41;-2.41;-2.39	5.53	3.63	0.41609	.	0.159060	0.42053	D	0.000776	D	0.92570	0.7640	L	0.55481	1.735	0.45777	D	0.998666	P;D;D;D;D	0.89917	0.822;1.0;1.0;0.961;1.0	P;D;D;P;D	0.91635	0.54;0.999;0.991;0.774;0.987	D	0.90410	0.4409	10	0.44086	T	0.13	-30.2529	8.7879	0.34832	0.07:0.0:0.6597:0.2704	.	119;119;119;119;119	B4E2J0;F5GX63;Q9NP78-3;Q9NP78-2;Q9NP78	.;.;.;.;ABCB9_HUMAN	M	119	ENSP00000280560:L119M;ENSP00000441734:L119M;ENSP00000280559:L119M;ENSP00000376234:L119M;ENSP00000440288:L119M;ENSP00000394898:L119M	ENSP00000280560:L119M	L	-	1	2	ABCB9	122010381	0.994000	0.37717	0.991000	0.47740	0.938000	0.57974	1.935000	0.40173	0.642000	0.30620	0.561000	0.74099	CTG		0.647	ABCB9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400956.1	NM_019624		T	123444428	G	T	123444428	3	4	604	1	0	0	0	0	1	0	0	0	48	991	35	4	1989	4	ABCB9	12	123444428	Missense_Mutation	SNP	G	TCGA-HE-7128-01A-11D-1961-08	10551946	123444428	10407467	35	36408										
OGFOD2	79676	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	123463804	123463804	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	gcctctgtcccatgtgctgcCgtgagcccgacctggtggac	13	15	1	1			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr12:123463804C>G	ENST00000228922.7	+	7	996	c.964C>G	c.(964-966)Cgt>Ggt	p.R322G	ARL6IP4_ENST00000315580.5_5'Flank|ARL6IP4_ENST00000439686.2_5'Flank|RP11-197N18.2_ENST00000540866.2_RNA|ARL6IP4_ENST00000357866.4_5'Flank|ARL6IP4_ENST00000426960.2_5'Flank|ARL6IP4_ENST00000453766.2_5'Flank|OGFOD2_ENST00000454694.2_Missense_Mutation_p.R158G|ABCB9_ENST00000542678.1_5'UTR|ARL6IP4_ENST00000392435.2_5'Flank|OGFOD2_ENST00000545612.1_Missense_Mutation_p.R158G|OGFOD2_ENST00000397389.2_Missense_Mutation_p.R262G|OGFOD2_ENST00000538755.1_Missense_Mutation_p.R158G|OGFOD2_ENST00000536150.1_Missense_Mutation_p.R158G|ARL6IP4_ENST00000543566.1_5'Flank|ARL6IP4_ENST00000412505.2_5'Flank|OGFOD2_ENST00000538628.1_Missense_Mutation_p.R158G|ARL6IP4_ENST00000454885.2_5'Flank|OGFOD2_ENST00000545317.1_Missense_Mutation_p.R158G			Q6N063	OGFD2_HUMAN	2-oxoglutarate and iron-dependent oxygenase domain containing 2	322							iron ion binding (GO:0005506)|L-ascorbic acid binding (GO:0031418)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706)			breast(1)|endometrium(2)|lung(4)|pancreas(1)	8	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.11e-05)|Epithelial(86;0.000127)|BRCA - Breast invasive adenocarcinoma(302;0.107)	Vitamin C(DB00126)	CATGTGCTGCCGTGAGCCCGA	0.647																																																0													42	49	47					12																	123463804		2166	4249	6415	SO:0001583	missense	79676			AK094820	CCDS41855.1	12q24.31	2010-11-23			ENSG00000111325	ENSG00000111325			25823	protein-coding gene	gene with protein product						12477932	Standard	NM_024623		Approved	FLJ13491, FLJ37501	uc001udz.1	Q6N063		ENST00000228922.7:c.964C>G	12.37:g.123463804C>G	ENSP00000228922:p.Arg322Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KT24|Q4KN13|Q6N023|Q9H8K6	Missense_Mutation	SNP	ENST00000228922.7	37		.	.	.	.	.	.	.	.	.	.	C	2.311	-0.357912	0.05138	.	.	ENSG00000111325	ENST00000397389;ENST00000538755;ENST00000536150;ENST00000545056;ENST00000545612;ENST00000538628;ENST00000545317;ENST00000454694;ENST00000228922;ENST00000536439	D;D	0.86432	-2.12;-2.12	5.07	2.15	0.27550	.	0.765042	0.12924	N	0.427954	D	0.83691	0.5309	M	0.62723	1.935	0.09310	N	1	B;B	0.13594	0.008;0.003	B;B	0.10450	0.005;0.005	T	0.74976	-0.3480	10	0.62326	D	0.03	-12.262	8.1428	0.31093	0.2533:0.6406:0.0:0.1061	.	322;262	Q6N063;Q6N063-2	OGFD2_HUMAN;.	G	262;158;158;158;158;158;158;158;322;158	ENSP00000380544:R262G;ENSP00000228922:R322G	ENSP00000228922:R322G	R	+	1	0	OGFOD2	122029757	0.007000	0.16637	0.378000	0.26068	0.008000	0.06430	0.512000	0.22755	0.560000	0.29169	-0.954000	0.02651	CGT		0.647	OGFOD2-006	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000400984.1	NM_024623		G	123463804	C	G	123463804	3	3	604	1	0	0	0	0	1	0	0	0	10849	652	23	4	806	4	OGFOD2	12	123463804	Missense_Mutation	SNP	C	TCGA-HE-7128-01A-11D-1961-08	19376	123463804	10388091	36	36409										
FARP1	10160	ucsc.edu	37	chr13	98865556	98865556	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	ctgggggccccggaaaattcGgggatcagtaccttggaacg	15	10	1	0			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr13:98865556G>A	ENST00000319562.6	+	2	325	c.60G>A	c.(58-60)tcG>tcA	p.S20S	FARP1_ENST00000376586.2_Silent_p.S20S|FARP1_ENST00000376581.5_Silent_p.S20S|FARP1_ENST00000595437.1_Silent_p.S20S	NM_005766.2	NP_005757.1	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF (ARHGEF) and pleckstrin domain protein 1 (chondrocyte-derived)	20					dendrite morphogenesis (GO:0048813)|negative regulation of phosphatase activity (GO:0010923)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of Rho GTPase activity (GO:0032321)|synapse assembly (GO:0007416)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|dendrite (GO:0030425)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)|synapse (GO:0045202)	Rac guanyl-nucleotide exchange factor activity (GO:0030676)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)	p.S20S(6)		breast(3)|endometrium(6)|kidney(6)|large_intestine(13)|lung(16)|ovary(1)|skin(3)|urinary_tract(1)	49	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			CGGAAAATTCGGGGATCAGTA	0.542																																																6	Substitution - coding silent(6)	lung(3)|endometrium(3)											109	126	120					13																	98865556		2203	4300	6503	SO:0001819	synonymous_variant	10160			AB008430	CCDS9487.1, CCDS32000.1, CCDS66572.1	13q32.2	2013-01-10			ENSG00000152767	ENSG00000152767		"Rho guanine nucleotide exchange factors", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits", "Pleckstrin homology (PH) domain containing"	3591	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 75"	602654				9425278	Standard	NM_005766		Approved	CDEP, PLEKHC2, MGC87400, PPP1R75	uc001vnj.3	Q9Y4F1	OTTHUMG00000017248	ENST00000319562.6:c.60G>A	13.37:g.98865556G>A		Somatic		WXS	Illumina HiSeq		Q5JVI9|Q6IQ29	Silent	SNP	ENST00000319562.6	37	CCDS9487.1																																																																																				0.542	FARP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045541.3	NM_005766		A	98865556	G	A	98865556	2	1	604	1	0	0	0	0	0	0	0	1	5683	1103	39	1		1	FARP1	13	98865556	Silent	SNP	G	TCGA-HE-7128-01A-11D-1961-08		98865556	16304322	37	36410										
BTBD7	55727	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	93730186	93730186	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	ggtctttgctgagttcataaAaaacatccgaagtcatgacc	8	9	3	2			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr14:93730186A>C	ENST00000334746.5	-	4	1623	c.1316T>G	c.(1315-1317)tTt>tGt	p.F439C	BTBD7_ENST00000393170.2_Intron|BTBD7_ENST00000554565.1_Missense_Mutation_p.F88C	NM_001002860.2	NP_001002860.2	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7	439	BACK.				multicellular organismal development (GO:0007275)|regulation of branching involved in salivary gland morphogenesis (GO:0060693)	nucleus (GO:0005634)				breast(1)|endometrium(3)|kidney(3)|large_intestine(9)|lung(8)|ovary(1)|pancreas(1)|skin(8)|upper_aerodigestive_tract(1)	35		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		GAGTTCATAAAAAACATCCGA	0.428																																																0													121	113	116					14																	93730186		2203	4300	6503	SO:0001583	missense	55727			AB040958	CCDS32146.1, CCDS32147.1, CCDS73684.1	14q32.13	2013-01-08			ENSG00000011114	ENSG00000011114		"BTB/POZ domain containing"	18269	protein-coding gene	gene with protein product		610386				10819331, 11527404	Standard	NM_001289133		Approved	FLJ10648, FUP1	uc001ybo.3	Q9P203	OTTHUMG00000171269	ENST00000334746.5:c.1316T>G	14.37:g.93730186A>C	ENSP00000335615:p.Phe439Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5V7|Q69Z05|Q7Z308|Q86TS0|Q9HAA4|Q9NVM0	Missense_Mutation	SNP	ENST00000334746.5	37	CCDS32146.1	.	.	.	.	.	.	.	.	.	.	A	23.8	4.453818	0.84209	.	.	ENSG00000011114	ENST00000334746;ENST00000554565	D;D	0.82526	-1.62;-1.62	4.99	4.99	0.66335	BTB/Kelch-associated (2);	0.049285	0.85682	D	0.000000	D	0.90758	0.7099	M	0.82823	2.61	0.80722	D	1	D;D	0.76494	0.999;0.992	D;P	0.65443	0.935;0.819	D	0.92297	0.5846	10	0.87932	D	0	.	14.7279	0.69357	1.0:0.0:0.0:0.0	.	88;439	Q9P203-5;Q9P203	.;BTBD7_HUMAN	C	439;88	ENSP00000335615:F439C;ENSP00000451010:F88C	ENSP00000335615:F439C	F	-	2	0	BTBD7	92799939	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.339000	0.96797	1.904000	0.55121	0.456000	0.33151	TTT		0.428	BTBD7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412701.1	NM_001002860		C	93730186	A	C	93730186	3	2	604	1	0	0	0	0	1	0	0	0	1548	14	1	5	2114	5	BTBD7	14	93730186	Missense_Mutation	SNP	A	TCGA-HE-7128-01A-11D-1961-08		93730186	13619354	38	36411										
SLC27A2	11001	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	50528292	50528292	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	tgctaaaaccctgaaactctGaatattcccaggaggataac	7	10	1	2			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr15:50528292G>A	ENST00000267842.5	+	10	2094	c.1862G>A	c.(1861-1863)tGa>tAa	p.*621*	SLC27A2_ENST00000380902.4_Silent_p.*568*|SLC27A2_ENST00000544960.1_Silent_p.*386*	NM_003645.3	NP_003636.2	O14975	S27A2_HUMAN	solute carrier family 27 (fatty acid transporter), member 2	0					bile acid biosynthetic process (GO:0006699)|bile acid metabolic process (GO:0008206)|cellular lipid metabolic process (GO:0044255)|fatty acid alpha-oxidation (GO:0001561)|fatty acid beta-oxidation (GO:0006635)|long-chain fatty acid import (GO:0044539)|long-chain fatty acid metabolic process (GO:0001676)|methyl-branched fatty acid metabolic process (GO:0097089)|small molecule metabolic process (GO:0044281)|very long-chain fatty acid catabolic process (GO:0042760)	endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|integral component of endoplasmic reticulum membrane (GO:0030176)|integral component of peroxisomal membrane (GO:0005779)|mitochondrion (GO:0005739)|peroxisomal membrane (GO:0005778)	ATP binding (GO:0005524)|enzyme binding (GO:0019899)|fatty acid transporter activity (GO:0015245)|long-chain fatty acid-CoA ligase activity (GO:0004467)|phytanate-CoA ligase activity (GO:0050197)|pristanate-CoA ligase activity (GO:0070251)|receptor binding (GO:0005102)|very long-chain fatty acid-CoA ligase activity (GO:0031957)			NS(1)|breast(2)|endometrium(3)|large_intestine(4)|lung(9)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	25		all_lung(180;0.00177)		all cancers(107;1.16e-06)|GBM - Glioblastoma multiforme(94;0.000113)		CTGAAACTCTGAATATTCCCA	0.363																																																0													104	100	102					15																	50528292		2196	4295	6491	SO:0001819	synonymous_variant	11001			D88308	CCDS10133.1, CCDS53943.1	15q21.2	2013-05-22			ENSG00000140284	ENSG00000140284		"Acyl-CoA synthetase family", "Solute carriers"	10996	protein-coding gene	gene with protein product		603247		FACVL1		9730624	Standard	NM_003645		Approved	FATP2, hFACVL1, VLACS, VLCS, HsT17226, ACSVL1	uc001zxw.3	O14975	OTTHUMG00000131643	ENST00000267842.5:c.1862G>A	15.37:g.50528292G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K2J7|Q53FY6|Q6PF09	Silent	SNP	ENST00000267842.5	37	CCDS10133.1																																																																																				0.363	SLC27A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254539.2	NM_003645		A	50528292	G	A	50528292	2	1	604	1	0	0	0	0	0	0	0	1	14539	1285	45	2		2	SLC27A2	15	50528292	Silent	SNP	G	TCGA-HE-7128-01A-11D-1961-08		50528292	52003100	39	36412										
CDH16	1014	ucsc.edu	37	chr16	66949283	66949283	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	aggaagaggaaggggatgccTggttcacggtgggagggcaa	20	5	1	1			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr16:66949283T>A	ENST00000299752.4	-	6	618		c.e6-2		CDH16_ENST00000394055.3_Splice_Site|CDH16_ENST00000570262.1_Splice_Site|CDH16_ENST00000565796.1_Splice_Site|CDH16_ENST00000568632.1_Intron	NM_001204744.1|NM_001204745.1|NM_004062.3	NP_001191673.1|NP_001191674.1|NP_004053.1	O75309	CAD16_HUMAN	cadherin 16, KSP-cadherin						calcium-dependent cell-cell adhesion (GO:0016339)|cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)	basolateral plasma membrane (GO:0016323)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)			endometrium(1)|kidney(3)|large_intestine(10)|lung(15)|ovary(2)|prostate(2)|skin(5)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	41		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		AGGGGATGCCTGGTTCACGGT	0.562																																																0													54	55	55					16																	66949283		2200	4300	6500	SO:0001630	splice_region_variant	1014			AF016272	CCDS10823.1, CCDS56002.1, CCDS58471.1, CCDS58472.1	16q22.1	2010-01-26			ENSG00000166589	ENSG00000166589		"Cadherins / Major cadherins"	1755	protein-coding gene	gene with protein product		603118				9721215, 7615566	Standard	NM_004062		Approved		uc002eql.3	O75309	OTTHUMG00000137518	ENST00000299752.4:c.425-2A>T	16.37:g.66949283T>A		Somatic		WXS	Illumina HiSeq		B4DPA8|H3BPD3|Q6UW93	Splice_Site	SNP	ENST00000299752.4	37	CCDS10823.1	.	.	.	.	.	.	.	.	.	.	T	21.1	4.094037	0.76870	.	.	ENSG00000166589	ENST00000394055;ENST00000299752;ENST00000544875	.	.	.	4.82	4.82	0.62117	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	11.0694	0.47995	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	CDH16	65506784	1.000000	0.71417	0.850000	0.33497	0.589000	0.36550	5.069000	0.64370	1.930000	0.55929	0.460000	0.39030	.		0.562	CDH16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268839.2	NM_004062	Intron	A	66949283	T	A	66949283	5	1	604	1	0	0	0	0	0	0	1	0	3103	1594	55	5	2118	5	CDH16	16	66949283	Splice_Site	SNP	T	TCGA-HE-7128-01A-11D-1961-08		66949283	23405470	40	36413										
PIK3R6	146850	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	8731475	8731475	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	agagctgcaggctgagtctgGgagtgaggcagaacttctgg	17	7	2	4			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr17:8731475G>A	ENST00000311434.9	-	12	1585	c.1346C>T	c.(1345-1347)cCc>cTc	p.P449L	PIK3R6_ENST00000434064.2_5'UTR	NM_001010855.2	NP_001010855.1	Q5UE93	PI3R6_HUMAN	phosphoinositide-3-kinase, regulatory subunit 6	449					angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|G-protein coupled receptor signaling pathway (GO:0007186)|phosphatidylinositol biosynthetic process (GO:0006661)|phospholipid metabolic process (GO:0006644)|platelet activation (GO:0030168)|positive regulation of angiogenesis (GO:0045766)|positive regulation of MAP kinase activity (GO:0043406)|regulation of phosphatidylinositol 3-kinase activity (GO:0043551)|small molecule metabolic process (GO:0044281)	1-phosphatidylinositol-4-phosphate 3-kinase, class IB complex (GO:0005944)|cytosol (GO:0005829)|membrane (GO:0016020)	1-phosphatidylinositol-3-kinase regulator activity (GO:0046935)|phosphatidylinositol-4,5-bisphosphate 3-kinase activity (GO:0046934)										GCTGAGTCTGGGAGTGAGGCA	0.642																																																0													94	98	96					17																	8731475		1991	4163	6154	SO:0001583	missense	146850			AK091819	CCDS73985.1	17p13.1	2013-01-31	2008-02-04	2008-02-04	ENSG00000174083	ENSG00000276231			27101	protein-coding gene	gene with protein product		611462	"chromosome 17 open reading frame 38"	C17orf38		16476736	Standard	NM_001010855		Approved	FLJ34500, HsT41028, p87PIKAP	uc002glq.1	Q5UE93	OTTHUMG00000132861	ENST00000311434.9:c.1346C>T	17.37:g.8731475G>A	ENSP00000475670:p.Pro449Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q658R3	Missense_Mutation	SNP	ENST00000311434.9	37																																																																																					0.642	PIK3R6-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_001010855		A	8731475	G	A	8731475	3	1	604	1	0	0	0	0	1	0	0	0	11930	1232	43	2	953	2	PIK3R6	17	8731475	Missense_Mutation	SNP	G	TCGA-HE-7128-01A-11D-1961-08		8731475	72463735	41	36414										
NOL11	25926	broad.mit.edu	37	chr17	65732103	65732103	+	Frame_Shift_Del	DEL	G	G	-													0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	gtgaagtgtcatcattagcaGgtgctcttggaaaactcaag							TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr17:65732103delG	ENST00000253247.4	+	9	1133	c.1018delG	c.(1018-1020)ggtfs	p.G340fs	NOL11_ENST00000535137.1_Frame_Shift_Del_p.G158fs	NM_015462.3	NP_056277.2	Q9H8H0	NOL11_HUMAN	nucleolar protein 11	340					maturation of SSU-rRNA (GO:0030490)|positive regulation of transcription of nuclear large rRNA transcript from RNA polymerase I promoter (GO:1901838)|transcription, DNA-templated (GO:0006351)	nucleolus (GO:0005730)|t-UTP complex (GO:0034455)	poly(A) RNA binding (GO:0044822)			haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|lung(3)|upper_aerodigestive_tract(1)	11	all_cancers(12;1.54e-10)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0518)|COAD - Colon adenocarcinoma(4;0.0977)|LUSC - Lung squamous cell carcinoma(166;0.24)			ATCATTAGCAGGTGCTCTTGG	0.338																																																0													115	105	108					17																	65732103		2203	4300	6503	SO:0001589	frameshift_variant	25926			AK023702	CCDS11671.1	17q24.2	2005-08-08							24557	protein-coding gene	gene with protein product		615366				12477932	Standard	NM_015462		Approved	DKFZP586L0724	uc002jgd.1	Q9H8H0		ENST00000253247.4:c.1018delG	17.37:g.65732103delG	ENSP00000253247:p.Gly340fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z5V9|Q7L5S1|Q9UG18	Frame_Shift_Del	DEL	ENST00000253247.4	37	CCDS11671.1																																																																																				0.338	NOL11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000448074.1	NM_015462		-	65732103	G	-	65732103	7	5	604	1	0	1	0	1	0	0	0	0	10528	1000	35	0	1052	0	NOL11	17	65732103	Frame_Shift_Del	DEL	G	TCGA-HE-7128-01A-11D-1961-08	57000628	65732103	15463107	42	36415										
ASXL3	80816	hgsc.bcm.edu	37	chr18	31318454	31318454	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	ttctaatttctgtacaggctGggcatgtcaagagaggaatc	11	7	3	1			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr18:31318454G>C	ENST00000269197.5	+	11	1086	c.1086G>C	c.(1084-1086)ctG>ctC	p.L362L		NM_030632.1	NP_085135.1	Q9C0F0	ASXL3_HUMAN	additional sex combs like transcriptional regulator 3	362					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(3)|endometrium(3)|kidney(3)|large_intestine(6)|lung(22)|ovary(2)|pancreas(1)|skin(2)|urinary_tract(1)	43						TGTACAGGCTGGGCATGTCAA	0.408																																																0													50	48	49					18																	31318454		1880	4118	5998	SO:0001819	synonymous_variant	80816			AB051500	CCDS45847.1	18q11	2014-06-17	2014-06-17	2007-02-01		ENSG00000141431			29357	protein-coding gene	gene with protein product		615115	"KIAA1713", "additional sex combs like 3 (Drosophila)"	KIAA1713		11214970	Standard	NM_030632		Approved		uc010dmg.1	Q9C0F0		ENST00000269197.5:c.1086G>C	18.37:g.31318454G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZMX6|Q96MU3|Q9UFC5	Silent	SNP	ENST00000269197.5	37	CCDS45847.1																																																																																				0.408	ASXL3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441865.2			C	31318454	G	C	31318454	2	2	604	1	0	0	0	0	0	0	0	1	1068	1335	47	4		4	ASXL3	18	31318454	Silent	SNP	G	TCGA-HE-7128-01A-11D-1961-08		31318454	46758794	43	36416										
KIAA1632	57724	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	43440155	43440155	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	tctggcaggctgctgttaaaAggggcagcaccaccagccca	12	13	1	0			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr18:43440155A>G	ENST00000282041.5	-	40	6957	c.6923T>C	c.(6922-6924)cTt>cCt	p.L2308P	EPG5_ENST00000585906.1_5'UTR	NM_020964.2	NP_066015.2	Q9HCE0	EPG5_HUMAN	ectopic P-granules autophagy protein 5 homolog (C. elegans)	2308					autophagic vacuole maturation (GO:0097352)|autophagy (GO:0006914)|endocytic recycling (GO:0032456)					NS(1)|breast(9)|central_nervous_system(3)|cervix(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(22)|lung(35)|ovary(2)|pancreas(1)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	95						TGCTGTTAAAAGGGGCAGCAC	0.537																																																0													76	79	78					18																	43440155		1977	4156	6133	SO:0001583	missense	57724			AK023817	CCDS11926.2	18q12.3	2011-03-02	2011-03-02	2011-03-02	ENSG00000152223	ENSG00000152223			29331	protein-coding gene	gene with protein product		615068	"KIAA1632"	KIAA1632		10997877, 20550938	Standard	XM_005258323		Approved	hEPG5	uc002lbm.3	Q9HCE0	OTTHUMG00000132626	ENST00000282041.5:c.6923T>C	18.37:g.43440155A>G	ENSP00000282041:p.Leu2308Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A2BDF3|Q9H8C8	Missense_Mutation	SNP	ENST00000282041.5	37	CCDS11926.2	.	.	.	.	.	.	.	.	.	.	A	16.85	3.237609	0.58886	.	.	ENSG00000152223	ENST00000282041;ENST00000540322;ENST00000308403	T	0.12672	2.66	5.59	5.59	0.84812	.	.	.	.	.	T	0.36082	0.0954	M	0.61703	1.905	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.08106	-1.0738	9	0.87932	D	0	-10.9784	15.7665	0.78131	1.0:0.0:0.0:0.0	.	2308	Q9HCE0	EPG5_HUMAN	P	2308;236;1183	ENSP00000282041:L2308P	ENSP00000282041:L2308P	L	-	2	0	EPG5	41694153	1.000000	0.71417	0.897000	0.35233	0.053000	0.15095	9.225000	0.95219	2.108000	0.64289	0.533000	0.62120	CTT		0.537	EPG5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445081.1	NM_020964		G	43440155	A	G	43440155	3	3	604	1	0	0	0	0	1	0	0	0	8256	72	3	3	836	3	KIAA1632	18	43440155	Missense_Mutation	SNP	A	TCGA-HE-7128-01A-11D-1961-08	12121701	43440155	34637093	44	36417										
ZNF532	55205	ucsc.edu	37	chr18	56586955	56586955	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	caacaccacggtgaaagccaCggtcatatctgctgcctctg	9	14	3	1			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr18:56586955C>T	ENST00000336078.4	+	4	2212	c.1436C>T	c.(1435-1437)aCg>aTg	p.T479M	ZNF532_ENST00000589288.1_Missense_Mutation_p.T479M|ZNF532_ENST00000591808.1_Missense_Mutation_p.T479M|ZNF532_ENST00000591230.1_Missense_Mutation_p.T479M|ZNF532_ENST00000591083.1_Missense_Mutation_p.T479M	NM_018181.4	NP_060651.2	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	479					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(5)|central_nervous_system(1)|cervix(2)|endometrium(14)|kidney(1)|large_intestine(9)|lung(14)|prostate(1)|skin(4)|urinary_tract(1)	52						GTGAAAGCCACGGTCATATCT	0.552																																																0													33	29	30					18																	56586955		2203	4300	6503	SO:0001583	missense	55205			AB046849	CCDS11969.1	18q21.32	2005-08-22			ENSG00000074657	ENSG00000074657		"Zinc fingers, C2H2-type"	30940	protein-coding gene	gene with protein product						10997877	Standard	XM_005266723		Approved	FLJ10697	uc002lho.3	Q9HCE3	OTTHUMG00000132759	ENST00000336078.4:c.1436C>T	18.37:g.56586955C>T	ENSP00000338217:p.Thr479Met	Somatic		WXS	Illumina HiSeq		Q4G0V6|Q7L7Z7|Q96QR7|Q9NVJ6	Missense_Mutation	SNP	ENST00000336078.4	37	CCDS11969.1	.	.	.	.	.	.	.	.	.	.	c	15.70	2.909737	0.52439	.	.	ENSG00000074657	ENST00000336078	T	0.01787	4.64	5.6	5.6	0.85130	.	0.104215	0.64402	D	0.000004	T	0.08670	0.0215	L	0.58101	1.795	0.48395	D	0.999646	D	0.89917	1.0	D	0.63957	0.92	T	0.01114	-1.1447	10	0.72032	D	0.01	-4.1959	19.3114	0.94188	0.0:1.0:0.0:0.0	.	479	Q9HCE3	ZN532_HUMAN	M	479	ENSP00000338217:T479M	ENSP00000338217:T479M	T	+	2	0	ZNF532	54737935	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	4.840000	0.62817	2.663000	0.90544	0.544000	0.68410	ACG		0.552	ZNF532-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256130.1	NM_018181		T	56586955	C	T	56586955	3	4	604	1	0	0	0	0	1	0	0	0	17984	536	19	1	1438	1	ZNF532	18	56586955	Missense_Mutation	SNP	C	TCGA-HE-7128-01A-11D-1961-08	13146800	56586955	21490293	45	36418										
MIDN	90007	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	1257046	1257048	+	In_Frame_Del	DEL	GCT	GCT	-													0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	acgcgctgcaaggtggaacgGctgcagctgcttctgcagca							TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	GCT	GCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr19:1257046_1257048delGCT	ENST00000591446.2	+	7	1591_1593	c.1182_1184delGCT	c.(1180-1185)cggctg>cgg	p.L395del	CIRBP_ENST00000588030.1_5'Flank|MIDN_ENST00000300952.2_In_Frame_Del_p.L395del			Q504T8	MIDN_HUMAN	midnolin	395						cytosol (GO:0005829)|nucleolus (GO:0005730)				NS(1)|endometrium(3)|kidney(1)|lung(6)|prostate(1)|upper_aerodigestive_tract(1)	13		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|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)		AGGTGGAACGGCTGCAGCTGCTT	0.67																																																0																																										SO:0001651	inframe_deletion	90007			AC004221	CCDS32864.1	19p13.3	2013-09-20			ENSG00000167470	ENSG00000167470			16298	protein-coding gene	gene with protein product		606700				10974535	Standard	XM_005259671		Approved		uc002lrp.3	Q504T8	OTTHUMG00000180144	ENST00000591446.2:c.1182_1184delGCT	19.37:g.1257046_1257048delGCT	ENSP00000467679:p.Leu395del	Somatic		WXS	Illumina HiSeq	Phase_I	Q96BW8	In_Frame_Del	DEL	ENST00000591446.2	37	CCDS32864.1																																																																																				0.67	MIDN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449965.2			-	1257048	GCT	-	1257046	7	5	604	1	0	1	0	1	0	0	0	0	9586	1190	42	0	1208	0	MIDN	19	1257046	In_Frame_Del	DEL	GCT	TCGA-HE-7128-01A-11D-1961-08		1257046	57871937	46	36419										
LPHN1	22859	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	14263148	14263148	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	gttgaagacagggggcgaggAgggattgaagcccactgact	17	7	0	4			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr19:14263148A>G	ENST00000340736.6	-	22	3934	c.3637T>C	c.(3637-3639)Tcc>Ccc	p.S1213P	CTB-55O6.12_ENST00000592086.1_RNA|CTB-55O6.12_ENST00000588658.1_RNA|CTB-55O6.12_ENST00000588387.1_RNA|LPHN1_ENST00000361434.3_Missense_Mutation_p.S1208P	NM_001008701.2	NP_001008701.1	O94910	LPHN1_HUMAN	latrophilin 1	1213					calcium-mediated signaling using intracellular calcium source (GO:0035584)|G-protein coupled receptor signaling pathway (GO:0007186)|heterophilic cell-cell adhesion (GO:0007157)|neuropeptide signaling pathway (GO:0007218)|positive regulation of synapse maturation (GO:0090129)	axon (GO:0030424)|cell junction (GO:0030054)|growth cone (GO:0030426)|integral component of membrane (GO:0016021)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)|presynaptic membrane (GO:0042734)|synapse (GO:0045202)	carbohydrate binding (GO:0030246)|cell adhesion molecule binding (GO:0050839)|G-protein coupled receptor activity (GO:0004930)|latrotoxin receptor activity (GO:0016524)			central_nervous_system(1)|cervix(2)|endometrium(6)|kidney(1)|large_intestine(3)|liver(1)|lung(10)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	32						GGGGGCGAGGAGGGATTGAAG	0.617																																																0													96	103	101					19																	14263148		2203	4300	6503	SO:0001583	missense	22859			AB020628	CCDS12307.1, CCDS32928.1	19p13.2	2014-08-08				ENSG00000072071		"-", "GPCR / Class B : Orphans"	20973	protein-coding gene	gene with protein product						10994649	Standard	NM_014921		Approved	KIAA0821, CIRL1, LEC2	uc010xnn.2	O94910		ENST00000340736.6:c.3637T>C	19.37:g.14263148A>G	ENSP00000340688:p.Ser1213Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q96IE7|Q9BU07|Q9HAR3	Missense_Mutation	SNP	ENST00000340736.6	37	CCDS32928.1	.	.	.	.	.	.	.	.	.	.	A	5.267	0.234643	0.09969	.	.	ENSG00000072071	ENST00000340736;ENST00000361434	T;T	0.66099	-0.19;-0.19	4.99	4.99	0.66335	GPCR, family 2, latrophilin, C-terminal (1);	0.061997	0.64402	D	0.000003	T	0.28797	0.0714	N	0.01235	-0.94	0.45747	D	0.998642	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.001	T	0.36672	-0.9738	10	0.02654	T	1	.	12.6626	0.56822	1.0:0.0:0.0:0.0	.	1208;1213	O94910-2;O94910	.;LPHN1_HUMAN	P	1213;1208	ENSP00000340688:S1213P;ENSP00000355328:S1208P	ENSP00000340688:S1213P	S	-	1	0	LPHN1	14124148	0.998000	0.40836	1.000000	0.80357	0.928000	0.56348	0.694000	0.25512	1.881000	0.54492	0.459000	0.35465	TCC		0.617	LPHN1-001	KNOWN	overlapping_uORF|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000459696.1	NM_014921		G	14263148	A	G	14263148	3	3	604	1	0	0	0	0	1	0	0	0	8922	304	11	3	799	3	LPHN1	19	14263148	Missense_Mutation	SNP	A	TCGA-HE-7128-01A-11D-1961-08	13006102	14263148	44865835	47	36420										
EMR2	30817	ucsc.edu	37	chr19	14884819	14884819	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	ccctggattgcagcgacaggCggtggcattgacacacgagg	15	11	0	1			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr19:14884819C>T	ENST00000315576.3	-	4	581	c.130G>A	c.(130-132)Gcc>Acc	p.A44T	EMR2_ENST00000353876.1_Missense_Mutation_p.A44T|EMR2_ENST00000594294.1_Missense_Mutation_p.A44T|EMR2_ENST00000346057.1_Missense_Mutation_p.A44T|EMR2_ENST00000392964.3_5'Flank|EMR2_ENST00000353005.1_Missense_Mutation_p.A44T|EMR2_ENST00000392967.2_Missense_Mutation_p.A44T|EMR2_ENST00000595839.1_Missense_Mutation_p.A44T|EMR2_ENST00000596991.2_Missense_Mutation_p.A44T|EMR2_ENST00000601345.1_Missense_Mutation_p.A44T|EMR2_ENST00000599423.1_5'UTR|EMR2_ENST00000392965.3_Missense_Mutation_p.A44T|EMR2_ENST00000594076.1_Missense_Mutation_p.A44T	NM_013447.3	NP_038475.2	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone receptor-like 2	44	EGF-like 1. {ECO:0000255|PROSITE- ProRule:PRU00076}.				cell adhesion (GO:0007155)|cell migration (GO:0016477)|G-protein coupled receptor signaling pathway (GO:0007186)|granulocyte chemotaxis (GO:0071621)|inflammatory response (GO:0006954)|neuropeptide signaling pathway (GO:0007218)	cell projection (GO:0042995)|integral component of membrane (GO:0016021)|leading edge membrane (GO:0031256)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|chondroitin sulfate binding (GO:0035374)|G-protein coupled receptor activity (GO:0004930)			breast(1)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(8)|lung(19)|ovary(1)|prostate(2)|skin(6)|upper_aerodigestive_tract(1)	48						CAGCGACAGGCGGTGGCATTG	0.582																																																0													128	117	120					19																	14884819		2203	4300	6503	SO:0001583	missense	30817			AF114491	CCDS32935.1, CCDS59361.1	19p13.1	2014-08-08	2003-11-26			ENSG00000127507		"CD molecules", "-", "GPCR / Class B : Orphans"	3337	protein-coding gene	gene with protein product		606100	"egf-like module containing, mucin-like, hormone receptor-like sequence 2"				Standard	NM_013447		Approved	CD312	uc002mzp.2	Q9UHX3		ENST00000315576.3:c.130G>A	19.37:g.14884819C>T	ENSP00000319883:p.Ala44Thr	Somatic		WXS	Illumina HiSeq		B4DQ96|E7ESD7|E9PBR1|E9PEL6|E9PFQ5|E9PG91|Q8NG96|Q9Y4B1	Missense_Mutation	SNP	ENST00000315576.3	37	CCDS32935.1	.	.	.	.	.	.	.	.	.	.	C	12.07	1.827492	0.32329	.	.	ENSG00000127507	ENST00000315576;ENST00000392967;ENST00000346057;ENST00000353876;ENST00000353005;ENST00000360222;ENST00000392965;ENST00000392962	T;T;T;T;T;T;D	0.86694	-0.93;-1.05;-0.43;0.39;1.13;-1.22;-2.16	3.87	-7.75	0.01236	.	.	.	.	.	T	0.70456	0.3226	L	0.43554	1.36	0.09310	N	1	P;B;P;B;B;B;P	0.43477	0.808;0.278;0.466;0.001;0.037;0.341;0.668	B;B;B;B;B;B;B	0.32022	0.139;0.032;0.016;0.0;0.021;0.035;0.112	T	0.63633	-0.6593	9	0.17369	T	0.5	.	4.0651	0.09856	0.439:0.1847:0.0:0.3763	.	44;44;44;44;44;44;44	E7ESD7;Q9UHX3-4;A0JNV7;Q9UHX3-5;Q9UHX3-3;Q9UHX3;Q9UHX3-2	.;.;.;.;.;EMR2_HUMAN;.	T	44	ENSP00000319883:A44T;ENSP00000376694:A44T;ENSP00000263380:A44T;ENSP00000319454:A44T;ENSP00000319838:A44T;ENSP00000376692:A44T;ENSP00000376689:A44T	ENSP00000319883:A44T	A	-	1	0	EMR2	14745819	0.000000	0.05858	0.004000	0.12327	0.275000	0.26752	-3.623000	0.00411	-1.229000	0.02564	-0.507000	0.04495	GCC		0.582	EMR2-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000466502.2			T	14884819	C	T	14884819	3	4	604	1	0	0	0	0	1	0	0	0	5107	768	27	1	2413	1	EMR2	19	14884819	Missense_Mutation	SNP	C	TCGA-HE-7128-01A-11D-1961-08	621671	14884819	44244164	48	36421										
CYP4F2	8529	broad.mit.edu;bcgsc.ca	37	chr19	16003152	16003153	+	Frame_Shift_Ins	INS	-	-	ATAT													0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	cactctcattgaaaatcttcINSatatagggcttcaggatgtt							TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr19:16003152_16003153insATAT	ENST00000221700.6	-	5	586_587	c.491_492insATAT	c.(490-492)atgfs	p.M164fs	CYP4F2_ENST00000011989.7_Frame_Shift_Ins_p.M15fs	NM_001082.3	NP_001073.3			cytochrome P450, family 4, subfamily F, polypeptide 2											NS(2)|breast(1)|endometrium(6)|kidney(2)|large_intestine(9)|liver(1)|lung(18)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	46						TGAAAATCTTCATATAGGGCTT	0.52																																																0																																										SO:0001589	frameshift_variant	8529			U02388	CCDS12336.1	19p13.12	2013-11-11	2003-01-14		ENSG00000186115	ENSG00000186115		"Cytochrome P450s"	2645	protein-coding gene	gene with protein product		604426	"cytochrome P450, subfamily IVF, polypeptide 2"			8424651, 8026587	Standard	NM_001082		Approved		uc002nbs.1	P78329	OTTHUMG00000185995	ENST00000221700.6:c.488_491dupATAT	19.37:g.16003153_16003156dupATAT	ENSP00000221700:p.Met164fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000221700.6	37	CCDS12336.1																																																																																				0.52	CYP4F2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460372.3	NM_001082		ATAT	16003153	-	ATAT	16003152	7	5	604	1	0	1	1	0	0	0	0	0	4190	826	29	0	1106	0	CYP4F2	19	16003152	Frame_Shift_Ins	INS	-	TCGA-HE-7128-01A-11D-1961-08	1118333	16003152	43125831	49	36422										
LPAR2	9170	broad.mit.edu	37	chr19	19735163	19735163	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	tgtatagtggacagactcgcGggtggactggcggaggcacg	18	8	0	1	rs144007983		TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr19:19735163G>A	ENST00000542587.1	-	6	1860	c.958C>T	c.(958-960)Cgc>Tgc	p.R320C	LPAR2_ENST00000586703.1_Missense_Mutation_p.R320C|LPAR2_ENST00000407877.3_Missense_Mutation_p.R320C			Q9HBW0	LPAR2_HUMAN	lysophosphatidic acid receptor 2	320					activation of MAPK activity (GO:0000187)|activation of phospholipase C activity (GO:0007202)|G-protein coupled receptor signaling pathway (GO:0007186)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of Rho protein signal transduction (GO:0035025)	cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|lipid binding (GO:0008289)|lysophosphatidic acid receptor activity (GO:0070915)			breast(1)|endometrium(2)|large_intestine(2)|lung(2)|ovary(1)|prostate(1)|urinary_tract(1)	10						ACAGACTCGCGGGTGGACTGG	0.617																																																0								G	CYS/ARG	0,4406		0,0,2203	102	93	96		958	3.9	0	19	dbSNP_134	96	1,8599	1.2+/-3.3	0,1,4299	no	missense	LPAR2	NM_004720.5	180	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	benign	320/352	19735163	1,13005	2203	4300	6503	SO:0001583	missense	9170			AF011466	CCDS12407.1	19p12	2012-08-08	2008-04-11	2008-04-11		ENSG00000064547		"GPCR / Class A : Lysophospholipid receptors : Lysophosphatidic acid"	3168	protein-coding gene	gene with protein product		605110	"endothelial differentiation, lysophosphatidic acid G-protein-coupled receptor, 4"	EDG4		9525886, 9804623	Standard	NM_004720		Approved	EDG-4, LPA2	uc002nnb.4	Q9HBW0		ENST00000542587.1:c.958C>T	19.37:g.19735163G>A	ENSP00000443256:p.Arg320Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O00543|O43431	Missense_Mutation	SNP	ENST00000542587.1	37	CCDS12407.1	.	.	.	.	.	.	.	.	.	.	G	12.30	1.896393	0.33442	0.0	1.16E-4	ENSG00000064547	ENST00000407877;ENST00000542587	T;T	0.38887	1.11;1.11	3.92	3.92	0.45320	.	1.007880	0.07969	N	0.983676	T	0.25644	0.0624	N	0.08118	0	0.09310	N	1	B	0.09022	0.002	B	0.06405	0.002	T	0.04976	-1.0914	10	0.59425	D	0.04	.	9.1791	0.37129	0.0:0.0:0.7833:0.2167	.	320	Q9HBW0	LPAR2_HUMAN	C	320	ENSP00000384665:R320C;ENSP00000443256:R320C	ENSP00000384665:R320C	R	-	1	0	LPAR2	19596163	0.032000	0.19561	0.013000	0.15412	0.023000	0.10783	1.904000	0.39868	2.480000	0.83734	0.561000	0.74099	CGC		0.617	LPAR2-003	KNOWN	alternative_5_UTR|non_canonical_TEC|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460544.1	NM_004720		A	19735163	G	A	19735163	3	1	604	1	0	0	0	0	1	0	0	0	8912	1116	39	1	101	1	LPAR2	19	19735163	Missense_Mutation	SNP	G	TCGA-HE-7128-01A-11D-1961-08	3732011	19735163	39393820	50	36423										
MIA	8190	ucsc.edu	37	chr19	41282923	41282924	+	Missense_Mutation	DNP	CC	CC	AA													0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	tgctcgcctgggctatttccCcagtagcattgtccgagagg							TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr19:41282923_41282924CC>AA	ENST00000263369.3	+	3	477_478	c.311_312CC>AA	c.(310-312)cCC>cAA	p.P104Q	MIA-RAB4B_ENST00000600729.1_Missense_Mutation_p.P104Q|MIA_ENST00000597784.1_Missense_Mutation_p.P104Q|RAB4B_ENST00000594800.1_5'Flank|MIA_ENST00000594436.1_Missense_Mutation_p.P104Q|RAB4B-EGLN2_ENST00000594136.1_5'Flank|RAB4B_ENST00000357052.2_5'Flank	NM_006533.3	NP_006524.1	Q16674	MIA_HUMAN	melanoma inhibitory activity	104	SH3. {ECO:0000255|PROSITE- ProRule:PRU00192}.				cell proliferation (GO:0008283)	extracellular space (GO:0005615)				haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(2)	4			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)	GBM - Glioblastoma multiforme(1328;0.0199)		GGCTATTTCCCCAGTAGCATTG	0.545																																																0																																										SO:0001583	missense	8190			X75450	CCDS12566.1	19q13.2	2012-10-15			ENSG00000261857	ENSG00000261857			7076	protein-coding gene	gene with protein product		601340				7923218, 8661134	Standard	NM_006533		Approved	CD-RAP	uc021uuu.1	Q16674		Exception_encountered	19.37:g.41282923_41282924delinsAA	ENSP00000263369:p.Pro104Gln	Somatic		WXS	Illumina HiSeq		Q6FHV3	Missense_Mutation	DNP	ENST00000263369.3	37	CCDS12566.1																																																																																				0.545	MIA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463162.1			AA	41282924	CC	AA	41282923	3	1	604	1	0	0	0	0	1	0	0	0	9570	623	22	4	321	4	MIA	19	41282923	Missense_Mutation	DNP	CC	TCGA-HE-7128-01A-11D-1961-08	21547760	41282923	17846060	51	36424										
SIGLEC11	114132	hgsc.bcm.edu	37	chr19	50462728	50462728	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	acgcagctccagccccagggTtctggggccccaggggtggg	17	14	1	0	rs550818529	byFrequency	TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr19:50462728T>G	ENST00000447370.2	-	5	1036	c.946A>C	c.(946-948)Acc>Ccc	p.T316P	CTC-326K19.6_ENST00000451973.1_5'Flank|SIGLEC11_ENST00000426971.2_Missense_Mutation_p.T316P	NM_052884.2	NP_443116.2	Q96RL6	SIG11_HUMAN	sialic acid binding Ig-like lectin 11	316	Ig-like C2-type 2.				cell adhesion (GO:0007155)	integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(8)|lung(9)|ovary(6)|pancreas(1)|prostate(1)|skin(1)	32		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)		AGCCCCAGGGTTCTGGGGCCC	0.692													T|||	2	0.000399361	0.0015	0.0	5008	,	,		12019	0.0		0.0	False		,,,				2504	0.0															0													6	10	9					19																	50462728		1815	4163	5978	SO:0001583	missense	114132			AF337818	CCDS12790.2, CCDS46150.1	19q13.3	2013-01-29			ENSG00000161640	ENSG00000161640		"Sialic acid binding Ig-like lectins", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	15622	protein-coding gene	gene with protein product		607157				11986327	Standard	NM_052884		Approved		uc010ybi.2	Q96RL6	OTTHUMG00000157077	ENST00000447370.2:c.946A>C	19.37:g.50462728T>G	ENSP00000412361:p.Thr316Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000447370.2	37	CCDS12790.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	0.500|0.500	-0.871393|-0.871393	0.02570|0.02570	.|.	.|.	ENSG00000161640|ENSG00000161640	ENST00000426971|ENST00000447370;ENST00000458019	.|T	.|0.67523	.|-0.27	1.61|1.61	-1.27|-1.27	0.09347|0.09347	.|Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.|1.785050	.|0.02815	.|N	.|0.124869	T|T	0.72211|0.72211	0.3432|0.3432	M|M	0.91972|0.91972	3.26|3.26	0.09310|0.09310	N|N	1|1	.|B;B	.|0.20368	.|0.044;0.02	.|B;B	.|0.25405	.|0.045;0.06	T|T	0.47535|0.47535	-0.9110|-0.9110	5|10	.|0.34782	.|T	.|0.22	.|.	5.7793|5.7793	0.18297|0.18297	0.0:0.0:0.5751:0.4249|0.0:0.0:0.5751:0.4249	.|.	.|316;316	.|Q96RL6-2;Q96RL6	.|.;SIG11_HUMAN	D|P	305|316	.|ENSP00000412361:T316P	.|ENSP00000412361:T316P	E|T	-|-	3|1	2|0	SIGLEC11|SIGLEC11	55154540|55154540	0.001000|0.001000	0.12720|0.12720	0.036000|0.036000	0.18154|0.18154	0.195000|0.195000	0.23768|0.23768	-0.655000|-0.655000	0.05348|0.05348	-0.403000|-0.403000	0.07622|0.07622	0.529000|0.529000	0.55759|0.55759	GAA|ACC		0.692	SIGLEC11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000347382.1	NM_052884		G	50462728	T	G	50462728	3	3	604	1	0	0	0	0	1	0	0	0	14320	1725	60	5	1178	5	SIGLEC11	19	50462728	Missense_Mutation	SNP	T	TCGA-HE-7128-01A-11D-1961-08	9179805	50462728	8666255	52	36425										
SYT3	84258	hgsc.bcm.edu	37	chr19	51135725	51135725	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	gcagcctctggatacgagtcCatgtccaagtaggagggctc	13	11	1	0			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr19:51135725C>G	ENST00000338916.4	-	2	1125	c.492G>C	c.(490-492)atG>atC	p.M164I	SYT3_ENST00000593901.1_Missense_Mutation_p.M164I|SYT3_ENST00000544769.1_Missense_Mutation_p.M164I|SYT3_ENST00000600079.1_Missense_Mutation_p.M164I	NM_032298.2	NP_115674.1	Q9BQG1	SYT3_HUMAN	synaptotagmin III	164					calcium ion-dependent exocytosis (GO:0017156)|positive regulation of vesicle fusion (GO:0031340)|response to calcium ion (GO:0051592)	cell junction (GO:0030054)|endosome (GO:0005768)|integral component of membrane (GO:0016021)|synaptic vesicle (GO:0008021)	calcium-dependent phospholipid binding (GO:0005544)|metal ion binding (GO:0046872)|phosphatidylserine binding (GO:0001786)|transporter activity (GO:0005215)			breast(1)|endometrium(2)|kidney(2)|large_intestine(5)|lung(16)|ovary(2)|prostate(2)|skin(3)|urinary_tract(2)	35		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		GATACGAGTCCATGTCCAAGT	0.647																																																0													26	26	26					19																	51135725		2202	4299	6501	SO:0001583	missense	84258			AL136594	CCDS12798.1	19q13.33	2014-07-02			ENSG00000213023	ENSG00000213023		"Synaptotagmins"	11511	protein-coding gene	gene with protein product		600327				7749232	Standard	NM_032298		Approved		uc002psv.3	Q9BQG1	OTTHUMG00000183064	ENST00000338916.4:c.492G>C	19.37:g.51135725C>G	ENSP00000340914:p.Met164Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N5Z1|Q8N640	Missense_Mutation	SNP	ENST00000338916.4	37	CCDS12798.1	.	.	.	.	.	.	.	.	.	.	C	13.82	2.350361	0.41599	.	.	ENSG00000213023	ENST00000338916;ENST00000544769	T;T	0.59502	0.26;0.26	4.59	4.59	0.56863	.	0.067275	0.53938	U	0.000047	T	0.58104	0.2099	L	0.27053	0.805	0.80722	D	1	P	0.45126	0.851	P	0.55391	0.775	T	0.50065	-0.8871	10	0.17832	T	0.49	.	16.6764	0.85280	0.0:1.0:0.0:0.0	.	164	Q9BQG1	SYT3_HUMAN	I	164	ENSP00000340914:M164I;ENSP00000438883:M164I	ENSP00000340914:M164I	M	-	3	0	SYT3	55827537	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.982000	0.63825	2.536000	0.85505	0.563000	0.77884	ATG		0.647	SYT3-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464910.1	NM_032298		G	51135725	C	G	51135725	3	3	604	1	0	0	0	0	1	0	0	0	15487	594	21	4	1308	4	SYT3	19	51135725	Missense_Mutation	SNP	C	TCGA-HE-7128-01A-11D-1961-08	672997	51135725	7993258	53	36426										
C20orf72	27131	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	17950811	17950811	+	5'Flank	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	ccacaaaactggtttcctatCttcaatccagagagaagtga	7	10	2	3			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr20:17950811C>A	ENST00000377768.3	-	0	0				SNX5_ENST00000486039.1_5'Flank|SNX5_ENST00000377759.4_5'Flank|SNX5_ENST00000606602.1_5'Flank|SNX5_ENST00000481323.1_5'Flank|SNX5_ENST00000606557.1_5'Flank|MGME1_ENST00000377704.4_Silent_p.I103I|MGME1_ENST00000377709.1_Intron|MGME1_ENST00000467391.1_3'UTR|MGME1_ENST00000377710.5_Silent_p.I103I	NM_152227.1	NP_689413.1	Q9Y5X3	SNX5_HUMAN	sorting nexin 5						intracellular protein transport (GO:0006886)|pinocytosis (GO:0006907)	cytoplasmic vesicle (GO:0031410)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)|extrinsic component of endosome membrane (GO:0031313)|macropinocytic cup (GO:0070685)	phosphatidylinositol binding (GO:0035091)			endometrium(1)|kidney(1)|large_intestine(3)|lung(5)|prostate(1)	11						GGTTTCCTATCTTCAATCCAG	0.478																																																0													68	71	70					20																	17950811		2203	4300	6503	SO:0001631	upstream_gene_variant	92667			AF121855	CCDS13130.1	20p11	2008-05-22			ENSG00000089006	ENSG00000089006		"Sorting nexins"	14969	protein-coding gene	gene with protein product		605937				10600472, 17148574	Standard	NM_152227		Approved		uc002wqc.3	Q9Y5X3	OTTHUMG00000031953		20.37:g.17950811C>A	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKN3|D3DW26|Q52LC4|Q7KZN0|Q9BWP0	Silent	SNP	ENST00000377768.3	37	CCDS13130.1																																																																																				0.478	SNX5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078137.4			A	17950811	C	A	17950811	1	1	604	0	1	0	0	0	0	0	0	0	2120	903	32	4		4	C20orf72	20	17950811	5'Flank	SNP	C	TCGA-HE-7128-01A-11D-1961-08		17950811	45074709	54	36427										
C20orf132	140699	bcgsc.ca	37	chr20	35769661	35769661	+	Frame_Shift_Del	DEL	A	A	-													0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	ttcagggttttcagggtatcAaatgtagtcattataaactg							TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr20:35769661delA	ENST00000400441.3	-	12	1391	c.1392delT	c.(1390-1392)tttfs	p.F464fs	MROH8_ENST00000441008.2_Frame_Shift_Del_p.F450fs|MROH8_ENST00000217333.8_Intron			Q9H579	MROH8_HUMAN	maestro heat-like repeat family member 8	349																	TCAGGGTATCAAATGTAGTCA	0.378																																																0													91	79	83					20																	35769661		1849	4093	5942	SO:0001589	frameshift_variant	140699			AL136172		20q11.22	2012-12-19	2012-12-19	2012-12-19	ENSG00000101353	ENSG00000101353		"maestro heat-like repeat containing"	16125	protein-coding gene	gene with protein product	"hypothetical protein LOC140699"		"chromosome 20 open reading frame 131", "chromosome 20 open reading frame 132"	C20orf131, C20orf132		11780052, 15635413	Standard	NM_152503		Approved	dJ621N11.4, dJ621N11.3	uc010zvu.2	Q9H579	OTTHUMG00000032407	ENST00000400441.3:c.1392delT	20.37:g.35769661delA	ENSP00000383291:p.Phe464fs	Somatic		WXS	Illumina HiSeq	Phase_1	Q5JYQ6	Frame_Shift_Del	DEL	ENST00000400441.3	37																																																																																					0.378	MROH8-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_152503		-	35769661	A	-	35769661	7	5	604	1	0	1	0	1	0	0	0	0	2088	127	5	0	1800	0	C20orf132	20	35769661	Frame_Shift_Del	DEL	A	TCGA-HE-7128-01A-11D-1961-08	17818850	35769661	27255859	55	36428										
KCNQ2	3785	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	62070959	62070959	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	agctggacttactgcaggcaGcgcgaagaaggagacaccga	14	10	0	2			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr20:62070959G>A	ENST00000359125.2	-	6	1093	c.919C>T	c.(919-921)Ctg>Ttg	p.L307L	KCNQ2_ENST00000344425.5_Silent_p.L307L|KCNQ2_ENST00000344462.4_Silent_p.L307L|KCNQ2_ENST00000370224.1_Silent_p.L307L|KCNQ2_ENST00000354587.3_Silent_p.L307L|KCNQ2_ENST00000359689.1_Silent_p.L307L|KCNQ2_ENST00000357249.2_Silent_p.L307L|KCNQ2_ENST00000360480.3_Silent_p.L307L	NM_172107.2	NP_742105.1	O43526	KCNQ2_HUMAN	potassium voltage-gated channel, KQT-like subfamily, member 2	307					axon guidance (GO:0007411)|nervous system development (GO:0007399)|potassium ion transport (GO:0006813)|synaptic transmission (GO:0007268)|transmission of nerve impulse (GO:0019226)	axon initial segment (GO:0043194)|node of Ranvier (GO:0033268)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	ankyrin binding (GO:0030506)|delayed rectifier potassium channel activity (GO:0005251)|potassium channel activity (GO:0005267)|voltage-gated potassium channel activity (GO:0005249)			biliary_tract(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(4)|liver(1)|lung(30)|ovary(2)|prostate(4)|skin(3)|upper_aerodigestive_tract(1)	65	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)|Diclofenac(DB00586)|Ezogabine(DB04953)|Meclofenamic acid(DB00939)	ACTGCAGGCAGCGCGAAGAAG	0.637																																																0													152	116	128					20																	62070959		2203	4300	6503	SO:0001819	synonymous_variant	3785			AF033348	CCDS13518.1, CCDS13519.1, CCDS13520.1, CCDS13521.1, CCDS46629.1	20q13.33	2012-07-05			ENSG00000075043	ENSG00000075043		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6296	protein-coding gene	gene with protein product		602235		EBN, EBN1		9425895, 16382104	Standard	NM_172107		Approved	Kv7.2, ENB1, BFNC, KCNA11, HNSPC	uc002yex.3	O43526	OTTHUMG00000033049	ENST00000359125.2:c.919C>T	20.37:g.62070959G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O43796|O75580|O95845|Q4VXP4|Q4VXR6|Q5VYT8|Q96J59|Q99454	Silent	SNP	ENST00000359125.2	37	CCDS13520.1																																																																																				0.637	KCNQ2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000080353.1	NM_172109		A	62070959	G	A	62070959	2	1	604	1	0	0	0	0	0	0	0	1	8090	962	34	2		2	KCNQ2	20	62070959	Silent	SNP	G	TCGA-HE-7128-01A-11D-1961-08	26301298	62070959	954561	56	36429										
L3MBTL2	83746	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	41621916	41621916	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	cccggccaccttctgtcagaAgaatgacattgagctcacac	8	14	3	4			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chr22:41621916A>G	ENST00000216237.5	+	12	1633	c.1475A>G	c.(1474-1476)aAg>aGg	p.K492R		NM_031488.4	NP_113676.2	Q969R5	LMBL2_HUMAN	l(3)mbt-like 2 (Drosophila)	492					chromatin modification (GO:0016568)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	histone binding (GO:0042393)|methylated histone binding (GO:0035064)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(5)|lung(4)|ovary(4)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	24						TTCTGTCAGAAGAATGACATT	0.592																																																0													94	69	78					22																	41621916		2203	4300	6503	SO:0001583	missense	83746			AJ305226	CCDS14011.1	22q13.31-q13.33	2008-06-11			ENSG00000100395	ENSG00000100395			18594	protein-coding gene	gene with protein product		611865				11682070	Standard	NM_031488		Approved	H-l(3)mbt-l, DKFZP761I141, dJ756G23.3	uc003azo.3	Q969R5	OTTHUMG00000150942	ENST00000216237.5:c.1475A>G	22.37:g.41621916A>G	ENSP00000216237:p.Lys492Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TEN1|Q96SC4|Q9BQI2|Q9UGS4	Missense_Mutation	SNP	ENST00000216237.5	37	CCDS14011.1	.	.	.	.	.	.	.	.	.	.	A	11.68	1.711335	0.30322	.	.	ENSG00000100395	ENST00000216237	T	0.31769	1.48	5.23	4.17	0.49024	.	0.233465	0.50627	D	0.000106	T	0.27663	0.0680	L	0.54965	1.715	0.35928	D	0.832306	B;B	0.14438	0.004;0.01	B;B	0.21151	0.003;0.033	T	0.19484	-1.0304	10	0.46703	T	0.11	.	7.1971	0.25860	0.7961:0.0:0.0731:0.1308	.	492;492	Q969R5-3;Q969R5	.;LMBL2_HUMAN	R	492	ENSP00000216237:K492R	ENSP00000216237:K492R	K	+	2	0	L3MBTL2	39951862	1.000000	0.71417	0.987000	0.45799	0.906000	0.53458	2.599000	0.46231	0.792000	0.33850	0.459000	0.35465	AAG		0.592	L3MBTL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320613.1	NM_031488		G	41621916	A	G	41621916	3	3	604	1	0	0	0	0	1	0	0	0	8599	72	3	3	1521	3	L3MBTL2	22	41621916	Missense_Mutation	SNP	A	TCGA-HE-7128-01A-11D-1961-08		41621916	9682650	57	36430										
DMD	1756	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	31152282	31152282	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	ctctaaccctgtgcttgtgtCctggggaggactgagaagat	13	9	1	2			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chrX:31152282C>G	ENST00000357033.4	-	77	11157	c.10951G>C	c.(10951-10953)Gac>Cac	p.D3651H	DMD_ENST00000378723.3_Missense_Mutation_p.D583H|DMD_ENST00000343523.2_Missense_Mutation_p.D1081H|DMD_ENST00000541735.1_Missense_Mutation_p.D1081H|DMD_ENST00000361471.4_Missense_Mutation_p.D570H|DMD_ENST00000474231.1_Missense_Mutation_p.D1191H|DMD_ENST00000359836.1_Missense_Mutation_p.D1178H|DMD_ENST00000378702.4_Missense_Mutation_p.D583H|DMD_ENST00000378677.2_Missense_Mutation_p.D3647H|DMD_ENST00000378707.3_Missense_Mutation_p.D1191H|DMD_ENST00000378680.2_Missense_Mutation_p.D473H	NM_000109.3|NM_004006.2|NM_004011.3|NM_004012.3|NM_004014.2	NP_000100.2|NP_003997|NP_004002.2|NP_004003.1|NP_004005.1	P11532	DMD_HUMAN	dystrophin	3651					cardiac muscle cell action potential (GO:0086001)|cardiac muscle contraction (GO:0060048)|cellular protein complex assembly (GO:0043623)|cellular protein localization (GO:0034613)|extracellular matrix organization (GO:0030198)|motile cilium assembly (GO:0044458)|muscle filament sliding (GO:0030049)|muscle organ development (GO:0007517)|negative regulation of peptidyl-cysteine S-nitrosylation (GO:1902083)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|peptide biosynthetic process (GO:0043043)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of neuron projection development (GO:0010976)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of cellular response to growth factor stimulus (GO:0090287)|regulation of heart rate (GO:0002027)|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0010880)|regulation of ryanodine-sensitive calcium-release channel activity (GO:0060314)|regulation of skeletal muscle contraction (GO:0014819)|regulation of skeletal muscle contraction by regulation of release of sequestered calcium ion (GO:0014809)|regulation of voltage-gated calcium channel activity (GO:1901385)	cell junction (GO:0030054)|cell surface (GO:0009986)|costamere (GO:0043034)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|dystrophin-associated glycoprotein complex (GO:0016010)|filopodium (GO:0030175)|filopodium membrane (GO:0031527)|membrane raft (GO:0045121)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|protein complex (GO:0043234)|sarcolemma (GO:0042383)|syntrophin complex (GO:0016013)	actin binding (GO:0003779)|calcium ion binding (GO:0005509)|dystroglycan binding (GO:0002162)|myosin binding (GO:0017022)|nitric-oxide synthase binding (GO:0050998)|structural constituent of cytoskeleton (GO:0005200)|structural constituent of muscle (GO:0008307)|vinculin binding (GO:0017166)|zinc ion binding (GO:0008270)			NS(2)|breast(3)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(17)|liver(1)|lung(25)|ovary(3)|pancreas(3)|prostate(2)|skin(1)|urinary_tract(2)	77		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)				GTGCTTGTGTCCTGGGGAGGA	0.408																																																0													189	119	143					X																	31152282		2202	4300	6502	SO:0001583	missense	1756			AF047505	CCDS14231.1, CCDS14232.1, CCDS14233.1, CCDS14234.1, CCDS48091.1, CCDS55394.1, CCDS55395.1, CCDS75965.1	Xp21.2	2014-09-17	2008-08-01		ENSG00000198947	ENSG00000198947			2928	protein-coding gene	gene with protein product	"muscular dystrophy, Duchenne and Becker types"	300377	"dystrophin (muscular dystrophy, Duchenne and Becker types), includes DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272", "mental retardation, X-linked 85"	MRX85		3282674, 3607877, 23900271	Standard	NM_004019		Approved	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272	uc004dda.1	P11532	OTTHUMG00000021336	ENST00000357033.4:c.10951G>C	X.37:g.31152282C>G	ENSP00000354923:p.Asp3651His	Somatic		WXS	Illumina HiSeq	Phase_I	E9PDN1|Q02295|Q14169|Q14170|Q5JYU0|Q6NSJ9|Q7KZ48|Q8N754|Q9UCW3|Q9UCW4	Missense_Mutation	SNP	ENST00000357033.4	37	CCDS14233.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	21.4|21.4	4.136863|4.136863	0.77662|0.77662	.|.	.|.	ENSG00000198947|ENSG00000198947	ENST00000534884;ENST00000378682;ENST00000378684;ENST00000378723;ENST00000358062;ENST00000378677;ENST00000357033;ENST00000359836;ENST00000343523;ENST00000542849;ENST00000535280;ENST00000378707;ENST00000541735;ENST00000378702;ENST00000474231;ENST00000361471;ENST00000378680|ENST00000465285	T;T;T;T;T;T;T;T;T;T;T;T|.	0.65178|.	2.06;3.8;-0.14;-0.14;3.72;3.74;3.68;3.48;2.04;3.74;2.08;2.1|.	5.04|5.04	5.04|5.04	0.67666|0.67666	.|.	0.000000|.	0.36740|.	U|.	0.002431|.	T|T	0.73992|0.73992	0.3658|0.3658	M|M	0.68317|0.68317	2.08|2.08	0.45621|0.45621	D|D	0.998554|0.998554	D;D;D;D;D;D;B;B;B;D;D;P;P;B;B;B|.	0.89917|.	0.996;0.996;0.999;0.999;0.999;0.996;0.098;0.059;0.059;0.999;1.0;0.86;0.729;0.003;0.001;0.38|.	D;D;D;D;D;D;B;B;B;D;D;P;P;B;B;B|.	0.83275|.	0.926;0.955;0.974;0.995;0.945;0.926;0.077;0.035;0.052;0.99;0.996;0.661;0.526;0.003;0.005;0.326|.	T|T	0.73379|0.73379	-0.4001|-0.4001	10|5	0.52906|.	T|.	0.07|.	.|.	17.7643|17.7643	0.88473|0.88473	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	473;3643;3651;3647;2310;2307;1178;1191;1191;1081;1081;3528;570;583;570;583|.	B4DSV7;P11532-4;P11532;E9PDN5;E7EQS7;E7EQS6;F8VX32;E7ESB2;E7EQS5;E7EQR9;F5GZY3;F5GZT3;P11532-5;Q8N754;Q6NSJ9;E9PDN1|.	.;.;DMD_HUMAN;.;.;.;.;.;.;.;.;.;.;.;.;.|.	H|A	3643;2310;2307;583;1334;3647;3651;1178;1081;3651;3528;1191;1081;583;1191;570;473|1379	ENSP00000367997:D583H;ENSP00000350765:D1334H;ENSP00000367948:D3647H;ENSP00000354923:D3651H;ENSP00000352894:D1178H;ENSP00000340057:D1081H;ENSP00000367979:D1191H;ENSP00000444119:D1081H;ENSP00000367974:D583H;ENSP00000417123:D1191H;ENSP00000354464:D570H;ENSP00000367951:D473H|.	ENSP00000340057:D1081H|.	D|G	-|-	1|2	0|0	DMD|DMD	31062203|31062203	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.966000|0.966000	0.64601|0.64601	6.271000|6.271000	0.72569|0.72569	2.470000|2.470000	0.83445|0.83445	0.600000|0.600000	0.82982|0.82982	GAC|GGA		0.408	DMD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056182.2	NM_004006		G	31152282	C	G	31152282	3	3	604	1	0	0	0	0	1	0	0	0	4582	855	30	4	204	4	DMD	23	31152282	Missense_Mutation	SNP	C	TCGA-HE-7128-01A-11D-1961-08		31152282	124118278	58	36431										
GLUD2	2747	ucsc.edu	37	chrX	120182436	120182436	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0338983050847458	2	1	0.647571606475716	0	0.949771689497717	0.4	1	0	taggaatgacaccagggtttAgagataaaacatttgttgtt	10	4	0	2			TCGA-HE-7128-01A-11D-1961-08	TCGA-HE-7128-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a290bf48-c383-4a28-aed8-3d24910c3576	b9aafe9d-7537-47f4-9296-4e2581cfa7c3	g.chrX:120182436A>G	ENST00000328078.1	+	1	975	c.898A>G	c.(898-900)Aga>Gga	p.R300G		NM_012084.3	NP_036216.2	P49448	DHE4_HUMAN	glutamate dehydrogenase 2	300					glutamate biosynthetic process (GO:0006537)|glutamate catabolic process (GO:0006538)|glutamate metabolic process (GO:0006536)|oxidation-reduction process (GO:0055114)	mitochondrion (GO:0005739)	ADP binding (GO:0043531)|glutamate dehydrogenase (NAD+) activity (GO:0004352)|glutamate dehydrogenase [NAD(P)+] activity (GO:0004353)|GTP binding (GO:0005525)|leucine binding (GO:0070728)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(9)|lung(15)|ovary(1)|pancreas(1)|urinary_tract(1)	38						ACCAGGGTTTAGAGATAAAAC	0.413																																																0													189	170	177					X																	120182436		2203	4300	6503	SO:0001583	missense	2747			U08997	CCDS14603.1	Xq24-q25	2008-02-05	2003-02-24	2003-02-28	ENSG00000182890	ENSG00000182890			4336	protein-coding gene	gene with protein product		300144	"glutamate dehydrogenase pseudogene 1"	GLUDP1		8207021, 9109504	Standard	NM_012084		Approved		uc004eto.3	P49448	OTTHUMG00000022320	ENST00000328078.1:c.898A>G	X.37:g.120182436A>G	ENSP00000327589:p.Arg300Gly	Somatic		WXS	Illumina HiSeq		B2R8G0|Q9UDQ4	Missense_Mutation	SNP	ENST00000328078.1	37	CCDS14603.1	.	.	.	.	.	.	.	.	.	.	A	0.019	-1.462215	0.01062	.	.	ENSG00000182890	ENST00000328078	D	0.95272	-3.66	2.3	-1.33	0.09172	Glutamate/phenylalanine/leucine/valine dehydrogenase, C-terminal (2);NAD(P)-binding domain (1);	0.376526	0.30093	N	0.010424	T	0.76983	0.4064	N	0.02247	-0.625	0.09310	N	0.999995	B	0.02656	0.0	B	0.04013	0.001	T	0.70048	-0.4979	10	0.02654	T	1	-8.2867	4.1877	0.10405	0.2739:0.2268:0.4994:0.0	.	300	P49448	DHE4_HUMAN	G	300	ENSP00000327589:R300G	ENSP00000327589:R300G	R	+	1	2	GLUD2	120010117	1.000000	0.71417	0.578000	0.28575	0.925000	0.55904	2.644000	0.46613	-0.680000	0.05211	-0.386000	0.06593	AGA		0.413	GLUD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058133.1	NM_012084		G	120182436	A	G	120182436	3	3	604	1	0	0	0	0	1	0	0	0	6484	412	15	3	900	3	GLUD2	23	120182436	Missense_Mutation	SNP	A	TCGA-HE-7128-01A-11D-1961-08	89030154	120182436	35088124	59	36432										
PRDM2	7799	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	14068533	14068533	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	atttgggatggatgtgcattGatgccactgatccagagaag	13	6	0	3			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr1:14068533G>T	ENST00000235372.7	+	5	1121	c.265G>T	c.(265-267)Gat>Tat	p.D89Y	PRDM2_ENST00000502727.1_3'UTR|PRDM2_ENST00000311066.5_Missense_Mutation_p.D89Y|PRDM2_ENST00000376048.5_Missense_Mutation_p.D89Y	NM_012231.4	NP_036363.2	Q13029	PRDM2_HUMAN	PR domain containing 2, with ZNF domain	89	SET. {ECO:0000255|PROSITE- ProRule:PRU00190}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(16)|lung(20)|ovary(3)|prostate(3)|skin(1)|urinary_tract(2)	55	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		GATGTGCATTGATGCCACTGA	0.383																																																0													78	72	74					1																	14068533		2203	4300	6503	SO:0001583	missense	7799			U17838	CCDS150.1, CCDS151.1, CCDS30603.1, CCDS44061.1	1p36	2011-07-01			ENSG00000116731	ENSG00000116731		"Chromatin-modifying enzymes / K-methyltransferases"	9347	protein-coding gene	gene with protein product	"retinoblastoma protein-binding zinc finger protein", "retinoblastoma protein-interacting zinc finger protein", "MTE-binding protein", "zinc-finger DNA-binding protein", "GATA-3 binding protein G3B"	601196				7538672	Standard	NM_012231		Approved	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1	uc001avi.3	Q13029	OTTHUMG00000007917	ENST00000235372.7:c.265G>T	1.37:g.14068533G>T	ENSP00000235372:p.Asp89Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B1AJZ4|B5MC68|Q13149|Q14550|Q5THJ1|Q5VUL9	Missense_Mutation	SNP	ENST00000235372.7	37	CCDS150.1	.	.	.	.	.	.	.	.	.	.	G	16.57	3.160930	0.57368	.	.	ENSG00000116731	ENST00000484063;ENST00000376048;ENST00000235372;ENST00000311066;ENST00000400800	D;D;D;D	0.94330	-3.4;-3.4;-3.4;-3.4	5.95	5.95	0.96441	SET domain (2);	0.000000	0.85682	D	0.000000	D	0.97826	0.9286	H	0.94620	3.56	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.98389	1.0562	10	0.87932	D	0	.	18.957	0.92662	0.0:0.0:1.0:0.0	.	89;89;89	Q13029;Q13029-2;B1AJZ4	PRDM2_HUMAN;.;.	Y	80;89;89;89;89	ENSP00000423010:D80Y;ENSP00000365216:D89Y;ENSP00000235372:D89Y;ENSP00000312352:D89Y	ENSP00000235372:D89Y	D	+	1	0	PRDM2	13941120	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	8.957000	0.93082	2.824000	0.97209	0.655000	0.94253	GAT		0.383	PRDM2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000021792.2	NM_012231		T	14068533	G	T	14068533	3	4	605	1	0	0	0	0	1	0	0	0	12468	1290	45	4	279	4	PRDM2	1	14068533	Missense_Mutation	SNP	G	TCGA-HE-7129-01A-11D-1961-08		14068533	235182088	1	36433										
INSRR	3645	broad.mit.edu	37	chr1	156818724	156818724	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	ggcactcacgactccttgtaGtacacgatgaagctgagcag	11	11	1	2	rs544109301		TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr1:156818724G>A	ENST00000368195.3	-	7	1956	c.1560C>T	c.(1558-1560)taC>taT	p.Y520Y	NTRK1_ENST00000392302.2_Intron	NM_014215.2	NP_055030.1	P14616	INSRR_HUMAN	insulin receptor-related receptor	520	Fibronectin type-III 1. {ECO:0000255|PROSITE-ProRule:PRU00316}.				actin cytoskeleton reorganization (GO:0031532)|cellular response to alkaline pH (GO:0071469)|male sex determination (GO:0030238)|peptidyl-tyrosine phosphorylation (GO:0018108)|protein autophosphorylation (GO:0046777)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(13)|ovary(7)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)	42	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					ACTCCTTGTAGTACACGATGA	0.672																																																0													13	14	13					1																	156818724		2194	4295	6489	SO:0001819	synonymous_variant	3645			J05046	CCDS1160.1	1q21-q23	2013-02-11			ENSG00000027644	ENSG00000027644		"Fibronectin type III domain containing"	6093	protein-coding gene	gene with protein product		147671				2768234, 2249481	Standard	NM_014215		Approved	IRR	uc010pht.2	P14616	OTTHUMG00000041291	ENST00000368195.3:c.1560C>T	1.37:g.156818724G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60724|Q5VZS3	Silent	SNP	ENST00000368195.3	37	CCDS1160.1																																																																																				0.672	INSRR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098929.1	NM_014215		A	156818724	G	A	156818724	2	1	605	1	0	0	0	0	0	0	0	1	7781	1024	36	2		2	INSRR	1	156818724	Silent	SNP	G	TCGA-HE-7129-01A-11D-1961-08	142750191	156818724	92431897	2	36434										
NEK2	4751	broad.mit.edu	37	chr1	211843673	211843673	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	attcaattcatcagagtaacGgtatggaattcgcctgaatt	8	7	3	2			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr1:211843673G>C	ENST00000366999.4	-	5	853	c.715C>G	c.(715-717)Cgt>Ggt	p.R239G	NEK2_ENST00000462283.1_5'UTR|NEK2_ENST00000366998.3_Missense_Mutation_p.R239G|NEK2_ENST00000540251.1_Missense_Mutation_p.R196G	NM_002497.3	NP_002488.1	P51955	NEK2_HUMAN	NIMA-related kinase 2	239	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				blastocyst development (GO:0001824)|centrosome separation (GO:0051299)|chromosome segregation (GO:0007059)|G2/M transition of mitotic cell cycle (GO:0000086)|meiotic nuclear division (GO:0007126)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic sister chromatid segregation (GO:0000070)|negative regulation of centriole-centriole cohesion (GO:1903126)|negative regulation of DNA binding (GO:0043392)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of attachment of spindle microtubules to kinetochore (GO:0051988)|regulation of mitosis (GO:0007088)|regulation of mitotic centrosome separation (GO:0046602)|spindle assembly (GO:0051225)|spindle assembly involved in mitosis (GO:0090307)	centrosome (GO:0005813)|condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|intercellular bridge (GO:0045171)|kinetochore (GO:0000776)|microtubule (GO:0005874)|midbody (GO:0030496)|nucleus (GO:0005634)|protein complex (GO:0043234)|spindle pole (GO:0000922)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein kinase activity (GO:0004672)|protein phosphatase binding (GO:0019903)|protein serine/threonine kinase activity (GO:0004674)	p.R239S(2)		breast(2)|stomach(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.00203)|all cancers(67;0.0339)|Epithelial(68;0.0546)		TCAGAGTAACGGTATGGAATT	0.363																																																2	Substitution - Missense(2)	lung(2)											156	163	160					1																	211843673		2203	4300	6503	SO:0001583	missense	4751			U11050	CCDS1500.1, CCDS55682.1, CCDS73024.1	1q32.3	2014-06-12	2012-11-15		ENSG00000117650	ENSG00000117650			7745	protein-coding gene	gene with protein product	"HsPK 21", "protein phosphatase 1, regulatory subunit 111"	604043	"NIMA (never in mitosis gene a)-related kinase 2"			8274451, 24043777	Standard	NM_002497		Approved	NLK1, NEK2A, RP67, PPP1R111	uc001hir.2	P51955	OTTHUMG00000037121	ENST00000366999.4:c.715C>G	1.37:g.211843673G>C	ENSP00000355966:p.Arg239Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q53FD6|Q5I1Z9|Q5VXZ1|Q6NZX8|Q7Z634|Q86XH2|Q96QN9	Missense_Mutation	SNP	ENST00000366999.4	37	CCDS1500.1	.	.	.	.	.	.	.	.	.	.	G	15.71	2.914393	0.52546	.	.	ENSG00000117650	ENST00000366999;ENST00000540251;ENST00000366998	T;T;T	0.65364	-0.15;-0.15;-0.15	5.45	5.45	0.79879	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.47875	0.1469	N	0.13168	0.305	0.80722	D	1	B;B;B	0.13145	0.007;0.006;0.003	B;B;B	0.13407	0.005;0.009;0.005	T	0.36648	-0.9739	10	0.36615	T	0.2	.	17.4884	0.87694	0.0:0.0:1.0:0.0	.	239;239;239	P51955-2;P51955;P51955-4	.;NEK2_HUMAN;.	G	239;196;239	ENSP00000355966:R239G;ENSP00000440237:R196G;ENSP00000355965:R239G	ENSP00000355965:R239G	R	-	1	0	NEK2	209910296	1.000000	0.71417	0.997000	0.53966	0.995000	0.86356	9.507000	0.97996	2.550000	0.86006	0.655000	0.94253	CGT		0.363	NEK2-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090154.1	NM_002497		C	211843673	G	C	211843673	3	2	605	1	0	0	0	0	1	0	0	0	10331	1116	39	4	638	4	NEK2	1	211843673	Missense_Mutation	SNP	G	TCGA-HE-7129-01A-11D-1961-08	55024949	211843673	37406948	3	36435										
SFRS7	6432	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr2	38978383	38978384	+	Missense_Mutation	DNP	GC	GC	AA													0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	cttcttacctcctccgtaccGcccgtaacgcgacatgatga							TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr2:38978383_38978384GC>AA	ENST00000313117.6	-	1	252_253	c.15_16GC>TT	c.(13-18)ggGCgg>ggTTgg	p.R6W	GEMIN6_ENST00000409011.1_5'Flank|SRSF7_ENST00000446327.2_Missense_Mutation_p.R6W|SRSF7_ENST00000409276.1_Missense_Mutation_p.R6W	NM_001031684.2|NM_001195446.1	NP_001026854.1|NP_001182375.1	Q16629	SRSF7_HUMAN	serine/arginine-rich splicing factor 7	6					gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA export from nucleus (GO:0006406)|mRNA processing (GO:0006397)|mRNA splicing, via spliceosome (GO:0000398)|negative regulation of mRNA splicing, via spliceosome (GO:0048025)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	12						CCTCCGTACCGCCCGTAACGCG	0.624																																																0																																										SO:0001583	missense	6432			L41887	CCDS33183.1, CCDS56115.1	2p22.1	2013-02-12	2010-06-22	2010-06-22	ENSG00000115875	ENSG00000115875		"Zinc fingers, CCHC domain containing", "Serine/arginine-rich splicing factors", "RNA binding motif (RRM) containing"	10789	protein-coding gene	gene with protein product	"SR splicing factor 7"	600572	"splicing factor, arginine/serine-rich 7 (35kD)", "splicing factor, arginine/serine-rich 7, 35kDa"	SFRS7		8013463, 20516191	Standard	NM_001031684		Approved	9G8, ZCRB2, HSSG1, AAG3, RBM37, ZCCHC20	uc002rqz.3	Q16629	OTTHUMG00000102076	ENST00000313117.6:c.15_16delinsAA	2.37:g.38978383_38978384delinsAA	ENSP00000325905:p.Arg6Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DLU6|G5E9M3|Q564D3	Missense_Mutation	DNP	ENST00000313117.6	37	CCDS33183.1																																																																																				0.624	SRSF7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219889.2	NM_001031684		AA	38978384	GC	AA	38978383	3	1	605	1	0	0	0	0	1	0	0	0	14195	1086	38	1	732	1	SFRS7	2	38978383	Missense_Mutation	DNP	GC	TCGA-HE-7129-01A-11D-1961-08		38978383	204220990	4	36436										
C2orf55	343990	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	99413866	99413867	+	Frame_Shift_Del	DEL	GT	GT	-													0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	tggttcagacttcagggtccGtgccccaggcttgtcttcct					rs201196594		TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr2:99413866_99413867delGT	ENST00000397899.2	-	8	2881_2882	c.2550_2551delAC	c.(2548-2553)gcacggfs	p.R851fs		NM_207362.2	NP_997245.2	Q6NV74	K121L_HUMAN	KIAA1211-like	851																	TTCAGGGTCCGTGCCCCAGGCT	0.619																																																0																																										SO:0001589	frameshift_variant	343990			BC068277	CCDS42720.1	2q11.2	2012-08-03	2012-08-03	2012-08-03	ENSG00000196872	ENSG00000196872			33454	protein-coding gene	gene with protein product			"chromosome 2 open reading frame 55"	C2orf55			Standard	NM_207362		Approved	MGC42367	uc002szf.1	Q6NV74	OTTHUMG00000153171	ENST00000397899.2:c.2550_2551delAC	2.37:g.99413866_99413867delGT	ENSP00000380996:p.Arg851fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000397899.2	37	CCDS42720.1																																																																																				0.619	KIAA1211L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329933.1	NM_207362		-	99413867	GT	-	99413866	7	5	605	1	0	1	0	1	0	0	0	0	2178	1144	40	0	349	0	C2orf55	2	99413866	Frame_Shift_Del	DEL	GT	TCGA-HE-7129-01A-11D-1961-08	60435483	99413866	143785507	5	36437										
ANKZF1	55139	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr2	220099828	220099828	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	cctggtcagccagagctctgGaatgcactgcttgctgcttg	12	12	2	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr2:220099828G>T	ENST00000323348.5	+	10	1659	c.1485G>T	c.(1483-1485)tgG>tgT	p.W495C	GLB1L_ENST00000497855.1_5'Flank|ANKZF1_ENST00000410034.3_Missense_Mutation_p.W495C|ANKZF1_ENST00000409849.1_Missense_Mutation_p.W285C	NM_018089.2	NP_060559.2	Q9H8Y5	ANKZ1_HUMAN	ankyrin repeat and zinc finger domain containing 1	495						membrane (GO:0016020)	metal ion binding (GO:0046872)			breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(8)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	23		Renal(207;0.0474)		Epithelial(149;1.2e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CAGAGCTCTGGAATGCACTGC	0.587																																																0													51	55	53					2																	220099828		2017	4171	6188	SO:0001583	missense	55139			AF364318	CCDS42821.1, CCDS63129.1	2q35	2013-01-10			ENSG00000163516	ENSG00000163516		"Zinc fingers, C2H2-type", "Ankyrin repeat domain containing"	25527	protein-coding gene	gene with protein product						12477932	Standard	NM_018089		Approved	FLJ10415, ZNF744	uc002vkg.3	Q9H8Y5	OTTHUMG00000154533	ENST00000323348.5:c.1485G>T	2.37:g.220099828G>T	ENSP00000321617:p.Trp495Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NVZ4	Missense_Mutation	SNP	ENST00000323348.5	37	CCDS42821.1	.	.	.	.	.	.	.	.	.	.	G	11.67	1.709332	0.30322	.	.	ENSG00000163516	ENST00000323348;ENST00000409849;ENST00000410034	T;T;T	0.52983	0.64;0.64;0.64	5.41	4.51	0.55191	Ankyrin repeat-containing domain (2);	0.253027	0.37955	N	0.001878	T	0.43942	0.1270	M	0.65975	2.015	0.53005	D	0.999964	B	0.15141	0.012	B	0.17722	0.019	T	0.38265	-0.9669	10	0.37606	T	0.19	-6.7572	8.4061	0.32616	0.0:0.1513:0.5358:0.313	.	495	Q9H8Y5	ANKZ1_HUMAN	C	495;285;495	ENSP00000321617:W495C;ENSP00000386815:W285C;ENSP00000386337:W495C	ENSP00000321617:W495C	W	+	3	0	ANKZF1	219808072	1.000000	0.71417	0.983000	0.44433	0.353000	0.29299	1.765000	0.38481	1.473000	0.48159	0.591000	0.81541	TGG		0.587	ANKZF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335790.1	NM_018089		T	220099828	G	T	220099828	3	4	605	1	0	0	0	0	1	0	0	0	693	1183	41	4	1519	4	ANKZF1	2	220099828	Missense_Mutation	SNP	G	TCGA-HE-7129-01A-11D-1961-08	120685962	220099828	23099545	6	36438										
PLCL2	23228	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr3	17051783	17051783	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gagcttaagttcaaagaattGcataaatcaaaggacaaagc	8	6	2	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr3:17051783G>T	ENST00000418129.2	+	2	1032	c.567G>T	c.(565-567)ttG>ttT	p.L189F	PLCL2_ENST00000460467.1_Intron|PLCL2_ENST00000396755.2_Missense_Mutation_p.L189F|PLCL2_ENST00000432376.1_Missense_Mutation_p.L189F	NM_001144382.1	NP_001137854.1	Q9UPR0	PLCL2_HUMAN	phospholipase C-like 2	315	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				B cell proliferation involved in immune response (GO:0002322)|B-1a B cell differentiation (GO:0002337)|gamma-aminobutyric acid signaling pathway (GO:0007214)|intracellular signal transduction (GO:0035556)|lipid metabolic process (GO:0006629)|negative regulation of B cell receptor signaling pathway (GO:0050859)|positive regulation of receptor binding (GO:1900122)|regulation of peptidyl-serine phosphorylation (GO:0033135)|regulation of synaptic transmission, GABAergic (GO:0032228)	cytoplasm (GO:0005737)	calcium ion binding (GO:0005509)|GABA receptor binding (GO:0050811)|phosphatidylinositol phospholipase C activity (GO:0004435)|signal transducer activity (GO:0004871)			breast(4)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(9)|lung(13)|ovary(1)|prostate(2)|skin(7)|urinary_tract(1)	43						TCAAAGAATTGCATAAATCAA	0.348																																																0													61	64	63					3																	17051783		2203	4300	6503	SO:0001583	missense	23228			AB029015	CCDS33713.1, CCDS74911.1	3p25.3-p25.1	2008-03-18	2002-02-18	2002-02-22	ENSG00000154822	ENSG00000154822			9064	protein-coding gene	gene with protein product		614276	"phospholipase C, epsilon 2"	PLCE2		10470851	Standard	NM_015184		Approved	KIAA1092	uc011awd.2	Q9UPR0	OTTHUMG00000155467	ENST00000418129.2:c.567G>T	3.37:g.17051783G>T	ENSP00000409637:p.Leu189Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5V4|Q8N498|Q9H8L0|Q9UFP9	Missense_Mutation	SNP	ENST00000418129.2	37	CCDS33713.1	.	.	.	.	.	.	.	.	.	.	G	6.609	0.480810	0.12581	.	.	ENSG00000154822	ENST00000418129;ENST00000285094;ENST00000396755;ENST00000432376	T;T;T	0.45276	0.9;0.9;0.9	5.54	5.54	0.83059	EF-hand-like domain (1);	0.063928	0.64402	D	0.000008	T	0.53142	0.1778	.	.	.	0.54753	D	0.999982	D	0.52996	0.957	P	0.57502	0.822	T	0.51980	-0.8636	8	.	.	.	.	9.7379	0.40399	0.1594:0.0:0.8406:0.0	.	315	Q9UPR0	PLCL2_HUMAN	F	189;316;189;189	ENSP00000409637:L189F;ENSP00000379979:L189F;ENSP00000412836:L189F	.	L	+	3	2	PLCL2	17026787	0.998000	0.40836	0.999000	0.59377	0.977000	0.68977	0.452000	0.21795	2.600000	0.87896	0.563000	0.77884	TTG		0.348	PLCL2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340250.3			T	17051783	G	T	17051783	3	4	605	1	0	0	0	0	1	0	0	0	12047	1310	46	4	945	4	PLCL2	3	17051783	Missense_Mutation	SNP	G	TCGA-HE-7129-01A-11D-1961-08		17051783	180970647	7	36439										
TRAK1	22906	ucsc.edu	37	chr3	42251523	42251523	+	Intron	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	tgtctcaggcagcagaagttAcccgagccggcctcaggctt	12	13	2	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr3:42251523A>C	ENST00000327628.5	+	14	2363				TRAK1_ENST00000487159.1_Intron|TRAK1_ENST00000341421.3_Missense_Mutation_p.Y612S|TRAK1_ENST00000396175.1_Intron	NM_001042646.2	NP_001036111.1	Q9UPV9	TRAK1_HUMAN	trafficking protein, kinesin binding 1						endosome to lysosome transport (GO:0008333)|protein O-linked glycosylation (GO:0006493)|protein targeting (GO:0006605)|regulation of transcription from RNA polymerase II promoter (GO:0006357)	cytoplasm (GO:0005737)|early endosome (GO:0005769)|mitochondrion (GO:0005739)|nucleus (GO:0005634)				central_nervous_system(2)|endometrium(1)|kidney(2)|large_intestine(8)|lung(6)|ovary(1)|upper_aerodigestive_tract(2)	22						AGCAGAAGTTACCCGAGCCGG	0.637																																					GBM(44;195 884 22595 31865 41850)											0													53	51	52					3																	42251523		2203	4300	6503	SO:0001627	intron_variant	22906				CCDS2695.1, CCDS43072.1, CCDS58826.1, CCDS74922.1	3p22.1	2012-03-05			ENSG00000182606	ENSG00000182606			29947	protein-coding gene	gene with protein product	"OGT(O Glc NAc transferase) interacting protein 106 KDa", "O-linked N-acetylglucosamine transferase interacting protein 106", "milton homolog 1 (Drosophila)"	608112				10470851, 12435728, 16380713, 20230862	Standard	NM_014965		Approved	OIP106, KIAA1042, MILT1	uc003cky.4	Q9UPV9	OTTHUMG00000131795	ENST00000327628.5:c.1963+46A>C	3.37:g.42251523A>C		Somatic		WXS	Illumina HiSeq		E9PDS2|J3KNT7|Q63HR0|Q659B5|Q96B69	Missense_Mutation	SNP	ENST00000327628.5	37	CCDS43072.1	.	.	.	.	.	.	.	.	.	.	A	9.834	1.189127	0.21954	.	.	ENSG00000182606	ENST00000341421	T	0.07688	3.17	4.97	-3.01	0.05463	.	.	.	.	.	T	0.03305	0.0096	N	0.14661	0.345	0.21256	N	0.999741	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.04013	0.0;0.0;0.001	T	0.45920	-0.9228	8	.	.	.	.	0.4311	0.00471	0.3368:0.2619:0.1475:0.2538	.	596;670;612	B7Z218;B7Z347;Q9UPV9-2	.;.;.	S	612	ENSP00000340702:Y612S	.	Y	+	2	0	TRAK1	42226527	0.992000	0.36948	0.952000	0.39060	0.981000	0.71138	0.277000	0.18734	-0.288000	0.09051	-0.290000	0.09829	TAC		0.637	TRAK1-004	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000343413.1	NM_014965		C	42251523	A	C	42251523	1	2	605	0	1	0	0	0	0	0	0	0	16461	391	14	5		5	TRAK1	3	42251523	Intron	SNP	A	TCGA-HE-7129-01A-11D-1961-08	25199740	42251523	155770907	8	36440										
C3orf27	23434	broad.mit.edu	37	chr3	128292497	128292497	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gggtccctggaggcgggagaCgctgagtctaggcaggctcg	19	10	1	2	rs141693917		TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr3:128292497C>T	ENST00000356020.2	-	3	1042	c.76G>A	c.(76-78)Gtc>Atc	p.V26I		NM_007354.2	NP_031380.1	O15544	GR6_HUMAN	chromosome 3 open reading frame 27	26								p.V26I(2)		large_intestine(2)|lung(5)|prostate(1)	8				GBM - Glioblastoma multiforme(114;0.176)		AGGCGGGAGACGCTGAGTCTA	0.592																																																2	Substitution - Missense(2)	large_intestine(1)|lung(1)						C	ILE/VAL	0,4402		0,0,2201	28	29	29		76	-1.2	0	3	dbSNP_134	29	1,8597		0,1,4298	no	missense	C3orf27	NM_007354.2	29	0,1,6499	TT,TC,CC		0.0116,0.0,0.0077	possibly-damaging	26/150	128292497	1,12999	2201	4299	6500	SO:0001583	missense	23434			AF008192	CCDS3050.1	3q21	2005-12-19			ENSG00000198685	ENSG00000198685			17099	protein-coding gene	gene with protein product						9307271	Standard	NR_125802		Approved	GR6	uc003ekq.3	O15544	OTTHUMG00000159688	ENST00000356020.2:c.76G>A	3.37:g.128292497C>T	ENSP00000348302:p.Val26Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000356020.2	37	CCDS3050.1	.	.	.	.	.	.	.	.	.	.	C	9.932	1.215195	0.22373	0.0	1.16E-4	ENSG00000198685	ENST00000356020	.	.	.	2.35	-1.23	0.09465	.	.	.	.	.	T	0.11750	0.0286	N	0.08118	0	0.09310	N	1	P	0.39404	0.672	B	0.29942	0.109	T	0.16158	-1.0412	8	0.87932	D	0	.	6.0846	0.19960	0.157:0.6855:0.0:0.1575	.	26	O15544	GR6_HUMAN	I	26	.	ENSP00000348302:V26I	V	-	1	0	C3orf27	129775187	0.000000	0.05858	0.001000	0.08648	0.388000	0.30384	-0.996000	0.03709	-0.054000	0.13266	0.313000	0.20887	GTC		0.592	C3orf27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356924.1	NM_007354		T	128292497	C	T	128292497	3	4	605	1	0	0	0	0	1	0	0	0	2221	536	19	1	377	1	C3orf27	3	128292497	Missense_Mutation	SNP	C	TCGA-HE-7129-01A-11D-1961-08	86040974	128292497	69729933	9	36441										
KY	339855	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr3	134323200	134323200	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	catggttggagggtacacctCcaacttcatcccattcttcc	7	14	2	0			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr3:134323200C>A	ENST00000423778.2	-	11	1268	c.1207G>T	c.(1207-1209)Gag>Tag	p.E403*	KY_ENST00000508956.1_Nonsense_Mutation_p.E382*|KY_ENST00000503669.1_3'UTR	NM_178554.4	NP_848649.3	Q8NBH2	KY_HUMAN	kyphoscoliosis peptidase	403					muscle organ development (GO:0007517)|neuromuscular junction development (GO:0007528)	cytoskeleton (GO:0005856)|Z disc (GO:0030018)	peptidase activity (GO:0008233)			central_nervous_system(1)|endometrium(3)|kidney(1)|lung(12)|ovary(2)|upper_aerodigestive_tract(2)	21						GGGTACACCTCCAACTTCATC	0.542																																																0													87	86	86					3																	134323200		2128	4244	6372	SO:0001587	stop_gained	339855			AK090526	CCDS46920.1	3q22.1	2010-11-23			ENSG00000174611	ENSG00000174611			26576	protein-coding gene	gene with protein product		605739					Standard	NM_178554		Approved	FLJ33207	uc010hty.3	Q8NBH2	OTTHUMG00000159788	ENST00000423778.2:c.1207G>T	3.37:g.134323200C>A	ENSP00000397598:p.Glu403*	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z1S4|Q6ZT15	Nonsense_Mutation	SNP	ENST00000423778.2	37	CCDS46920.1	.	.	.	.	.	.	.	.	.	.	C	36	5.846292	0.97016	.	.	ENSG00000174611	ENST00000508956;ENST00000423778;ENST00000310263	.	.	.	5.48	5.48	0.80851	.	0.368781	0.27393	N	0.019579	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.46703	T	0.11	-14.9747	19.3474	0.94370	0.0:1.0:0.0:0.0	.	.	.	.	X	382;403;403	.	ENSP00000309520:E403X	E	-	1	0	KY	135805890	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.042000	0.57347	2.578000	0.87016	0.561000	0.74099	GAG		0.542	KY-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357320.1	NM_178554		A	134323200	C	A	134323200	4	1	605	1	0	0	0	0	0	1	0	0	8593	864	30	4	782	4	KY	3	134323200	Nonsense_Mutation	SNP	C	TCGA-HE-7129-01A-11D-1961-08	6030703	134323200	63699230	10	36442										
HPS3	84343	hgsc.bcm.edu;broad.mit.edu	37	chr3	148885021	148885021	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	aatcatgaactgaaagaagaGaaccgggtatgctttttcag	10	6	2	4	rs551986971		TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr3:148885021G>T	ENST00000296051.2	+	15	2930	c.2790G>T	c.(2788-2790)gaG>gaT	p.E930D	HPS3_ENST00000460120.1_Missense_Mutation_p.E765D	NM_032383.3	NP_115759.2	Q969F9	HPS3_HUMAN	Hermansky-Pudlak syndrome 3	930					organelle organization (GO:0006996)|pigmentation (GO:0043473)	BLOC-2 complex (GO:0031084)				breast(2)|endometrium(2)|kidney(1)|large_intestine(7)|lung(12)|ovary(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)	34			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			TGAAAGAAGAGAACCGGGTAT	0.403									Hermansky-Pudlak syndrome																																							0													74	75	75					3																	148885021		2203	4300	6503	SO:0001583	missense	84343	Familial Cancer Database	HPS, HPS1-8	AY033141	CCDS3140.1	3q24	2014-06-18			ENSG00000163755	ENSG00000163755			15597	protein-coding gene	gene with protein product		606118				11455388	Standard	NM_032383		Approved	SUTAL	uc003ewu.1	Q969F9	OTTHUMG00000159548	ENST00000296051.2:c.2790G>T	3.37:g.148885021G>T	ENSP00000296051:p.Glu930Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6G6|Q8WTV6|Q96AP1|Q96MR3|Q9H608	Missense_Mutation	SNP	ENST00000296051.2	37	CCDS3140.1	.	.	.	.	.	.	.	.	.	.	G	9.373	1.071040	0.20147	.	.	ENSG00000163755	ENST00000296051;ENST00000460120	T;T	0.63417	-0.03;-0.04	6.01	0.327	0.15913	.	0.542522	0.23534	N	0.047155	T	0.32466	0.0830	N	0.15975	0.35	0.49582	D	0.999804	B;B	0.10296	0.003;0.001	B;B	0.11329	0.006;0.002	T	0.14448	-1.0472	10	0.06494	T	0.89	-9.9199	4.0764	0.09906	0.1806:0.318:0.4022:0.0992	.	765;930	G5E9V4;Q969F9	.;HPS3_HUMAN	D	930;765	ENSP00000296051:E930D;ENSP00000418230:E765D	ENSP00000296051:E930D	E	+	3	2	HPS3	150367711	0.080000	0.21391	0.995000	0.50966	0.991000	0.79684	-0.222000	0.09190	0.105000	0.17753	0.650000	0.86243	GAG		0.403	HPS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356151.1	NM_032383		T	148885021	G	T	148885021	3	4	605	1	0	0	0	0	1	0	0	0	7347	933	33	4	2848	4	HPS3	3	148885021	Missense_Mutation	SNP	G	TCGA-HE-7129-01A-11D-1961-08	14561821	148885021	49137409	11	36443										
VPS8	23355	ucsc.edu	37	chr3	184603940	184603940	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	attactgccttctgctgcagCgaaagtgagtatgcgttgcc	11	10	1	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr3:184603940C>T	ENST00000437079.3	+	22	1948	c.1777C>T	c.(1777-1779)Cga>Tga	p.R593*	VPS8_ENST00000446204.2_Intron|VPS8_ENST00000287546.4_Nonsense_Mutation_p.R593*|VPS8_ENST00000436792.2_Nonsense_Mutation_p.R591*	NM_001009921.2	NP_001009921.1	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog (S. cerevisiae)	593							zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(6)|kidney(4)|large_intestine(11)|lung(19)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	54	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			TCTGCTGCAGCGAAAGTGAGT	0.433																																																0													194	190	191					3																	184603940		1977	4153	6130	SO:0001587	stop_gained	23355			AK056661	CCDS46972.1	3q27.2	2006-07-07	2006-07-07	2006-07-07	ENSG00000156931	ENSG00000156931			29122	protein-coding gene	gene with protein product			"KIAA0804"	KIAA0804		9872452	Standard	NM_001009921		Approved	FLJ32099	uc003fpb.1	Q8N3P4	OTTHUMG00000156707	ENST00000437079.3:c.1777C>T	3.37:g.184603940C>T	ENSP00000397879:p.Arg593*	Somatic		WXS	Illumina HiSeq		A8K8Q8|B9EIQ1|C9JB61|O94896|Q63HP2|Q9BVP9|Q9H9B0	Nonsense_Mutation	SNP	ENST00000437079.3	37	CCDS46971.1	.	.	.	.	.	.	.	.	.	.	C	41	8.738117	0.98935	.	.	ENSG00000156931	ENST00000287546;ENST00000437079;ENST00000436792	.	.	.	5.83	3.99	0.46301	.	0.053175	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.07644	T	0.81	-8.1278	15.0324	0.71717	0.2602:0.7397:0.0:0.0	.	.	.	.	X	593;593;591	.	ENSP00000287546:R593X	R	+	1	2	VPS8	186086634	1.000000	0.71417	1.000000	0.80357	0.817000	0.46193	2.885000	0.48570	0.761000	0.33130	-0.181000	0.13052	CGA		0.433	VPS8-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_015303		T	184603940	C	T	184603940	4	4	605	1	0	0	0	0	0	1	0	0	17230	760	27	1	1855	1	VPS8	3	184603940	Nonsense_Mutation	SNP	C	TCGA-HE-7129-01A-11D-1961-08	35718919	184603940	13418490	12	36444										
CRIPAK	285464	broad.mit.edu	37	chr4	1388729	1388729	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	ctgctcacacgtgcccatgcGgagtgcccgcctgctcacac	10	18	2	0			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr4:1388729G>C	ENST00000324803.4	+	1	3390	c.430G>C	c.(430-432)Gga>Cga	p.G144R		NM_175918.3	NP_787114.2	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	144					negative regulation of intracellular estrogen receptor signaling pathway (GO:0033147)|negative regulation of protein kinase activity (GO:0006469)|regulation of cytoskeleton organization (GO:0051493)|response to estrogen (GO:0043627)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				NS(3)|breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(11)|ovary(1)|pancreas(2)|prostate(6)|skin(4)|urinary_tract(1)	35			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			GTGCCCATGCGGAGTGCCCGC	0.701																																																0													37	37	37					4																	1388729		2033	3881	5914	SO:0001583	missense	285464			AK096209	CCDS3349.1	4p16.3	2011-02-10	2006-09-04		ENSG00000179979	ENSG00000179979			26619	protein-coding gene	gene with protein product		610203	"cysteine-rich PAK1inhibitor"			16278681	Standard	NM_175918		Approved	FLJ34443	uc003gdf.2	Q8N1N5	OTTHUMG00000121131	ENST00000324803.4:c.430G>C	4.37:g.1388729G>C	ENSP00000323978:p.Gly144Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NB03	Missense_Mutation	SNP	ENST00000324803.4	37	CCDS3349.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	-|-	10.33|10.33	1.320122|1.320122	0.23994|0.23994	.|.	.|.	ENSG00000179979|ENSG00000179979	ENST00000324803|ENST00000382944	T|.	0.17370|.	2.28|.	0.948|0.948	0.948|0.948	0.19561|0.19561	Post-SET domain (1);|.	.|.	.|.	.|.	.|.	T|T	0.18841|0.18841	0.0452|0.0452	N|N	0.08118|0.08118	0|0	0.09310|0.09310	N|N	1|1	D|.	0.76494|.	0.999|.	D|.	0.70487|.	0.969|.	T|T	0.25082|0.25082	-1.0142|-1.0142	9|6	0.19147|0.32370	T|T	0.46|0.25	.|.	7.86|7.86	0.29504|0.29504	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	144|.	Q8N1N5|.	CRPAK_HUMAN|.	R|P	144|127	ENSP00000323978:G144R|.	ENSP00000323978:G144R|ENSP00000372402:R127P	G|R	+|+	1|2	0|0	CRIPAK|CRIPAK	1378729|1378729	0.000000|0.000000	0.05858|0.05858	0.032000|0.032000	0.17829|0.17829	0.031000|0.031000	0.12232|0.12232	-2.156000|-2.156000	0.01283|0.01283	0.840000|0.840000	0.34995|0.34995	0.121000|0.121000	0.15741|0.15741	GGA|CGG		0.701	CRIPAK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241607.2	NM_175918		C	1388729	G	C	1388729	3	2	605	1	0	0	0	0	1	0	0	0	3879	1117	39	4	432	4	CRIPAK	4	1388729	Missense_Mutation	SNP	G	TCGA-HE-7129-01A-11D-1961-08		1388729	189765547	13	36445										
DCHS2	54798	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr4	155256161	155256161	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	tatggtgacatcggcattaaTgacagctgtgagcccaccac	10	11	0	3			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr4:155256161T>G	ENST00000357232.4	-	8	1074	c.1075A>C	c.(1075-1077)Att>Ctt	p.I359L	DCHS2_ENST00000339452.1_Missense_Mutation_p.I858L|DCHS2_ENST00000507542.1_5'UTR	NM_017639.3	NP_060109.2	Q6V1P9	PCD23_HUMAN	dachsous cadherin-related 2	359	Cadherin 2. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|central_nervous_system(1)|cervix(3)|endometrium(8)|kidney(5)|large_intestine(54)|lung(63)|ovary(4)|pancreas(1)|prostate(14)|skin(12)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	176	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TCGGCATTAATGACAGCTGTG	0.433																																																0													110	109	109					4																	155256161		2203	4300	6503	SO:0001583	missense	54798			BC140919	CCDS3785.1, CCDS47150.1	4q32.1	2014-06-04	2013-10-04	2004-09-03		ENSG00000197410		"Cadherins / Cadherin-related"	23111	protein-coding gene	gene with protein product	"cadherin-related family member 7"	612486	"cadherin-like 27", "dachsous 2 (Drosophila)"	CDH27, PCDH23		15003449	Standard	NM_017639		Approved	CDHJ, FLJ20047, PCDHJ, CDHR7	uc003inw.2	Q6V1P9		ENST00000357232.4:c.1075A>C	4.37:g.155256161T>G	ENSP00000349768:p.Ile359Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RU14|E9PC11|Q4W5P9|Q6ZS61|Q9NXU8	Missense_Mutation	SNP	ENST00000357232.4	37	CCDS3785.1	.	.	.	.	.	.	.	.	.	.	T	2.461	-0.324065	0.05350	.	.	ENSG00000197410	ENST00000357232;ENST00000339452;ENST00000544161	T;T	0.52983	0.64;0.73	6.17	-3.98	0.04082	Cadherin (2);	1.778240	0.02970	N	0.144240	T	0.35128	0.0921	L	0.31926	0.97	0.09310	N	1	B;B	0.20887	0.049;0.024	B;B	0.20955	0.032;0.014	T	0.16660	-1.0395	10	0.23302	T	0.38	.	8.8965	0.35467	0.0:0.4543:0.2232:0.3226	.	858;359	E9PC11;Q6V1P9	.;PCD23_HUMAN	L	359;858;858	ENSP00000349768:I359L;ENSP00000345062:I858L	ENSP00000345062:I858L	I	-	1	0	DCHS2	155475611	0.000000	0.05858	0.000000	0.03702	0.354000	0.29330	-0.719000	0.04974	-0.924000	0.03780	-0.408000	0.06270	ATT		0.433	DCHS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365281.2	NM_001142552		G	155256161	T	G	155256161	3	3	605	1	0	0	0	0	1	0	0	0	4290	1464	51	5	7843	5	DCHS2	4	155256161	Missense_Mutation	SNP	T	TCGA-HE-7129-01A-11D-1961-08	153867432	155256161	35898115	14	36446										
SLC27A6	28965	ucsc.edu	37	chr5	128302311	128302311	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gagccctagtggtgggcgcaGgtagagtatggggtgtggtc	20	6	0	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr5:128302311G>A	ENST00000262462.4	+	1	1491	c.481G>A	c.(481-483)Gat>Aat	p.D161N	SLC27A6_ENST00000395266.1_Splice_Site_p.D161N|SLC27A6_ENST00000506176.1_Splice_Site_p.D161N			Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid transporter), member 6	161					long-chain fatty acid metabolic process (GO:0001676)|long-chain fatty acid transport (GO:0015909)|transmembrane transport (GO:0055085)|very long-chain fatty acid metabolic process (GO:0000038)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	long-chain fatty acid-CoA ligase activity (GO:0004467)|nucleotide binding (GO:0000166)|very long-chain fatty acid-CoA ligase activity (GO:0031957)			NS(2)|endometrium(1)|kidney(3)|large_intestine(11)|liver(1)|lung(20)|prostate(1)|skin(4)|stomach(1)	44		all_cancers(142;0.0483)|Prostate(80;0.055)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.171)|OV - Ovarian serous cystadenocarcinoma(64;0.186)		GGTGGGCGCAGGTAGAGTATG	0.517																																																0													27	22	24					5																	128302311		2203	4300	6503	SO:0001630	splice_region_variant	28965			AF064254	CCDS4145.1	5q23.3	2013-05-22			ENSG00000113396	ENSG00000113396		"Acyl-CoA synthetase family", "Solute carriers"	11000	protein-coding gene	gene with protein product	"fatty-acid-Coenzyme A ligase, very long-chain 2"	604196				12556534, 10479480	Standard	XM_005271967		Approved	FATP6, VLCS-H1, FACVL2, ACSVL2	uc003kuy.3	Q9Y2P4	OTTHUMG00000128991	ENST00000262462.4:c.481+1G>A	5.37:g.128302311G>A		Somatic		WXS	Illumina HiSeq		Q6IAM5|Q7Z6E6|Q86YF6	Missense_Mutation	SNP	ENST00000262462.4	37	CCDS4145.1	.	.	.	.	.	.	.	.	.	.	G	19.62	3.862321	0.71949	.	.	ENSG00000113396	ENST00000262462;ENST00000395266;ENST00000506176	T;T;T	0.50548	0.74;0.74;0.74	4.04	4.04	0.47022	AMP-dependent synthetase/ligase (1);	0.145674	0.64402	N	0.000010	T	0.53254	0.1785	M	0.79258	2.445	0.80722	D	1	B	0.18968	0.032	B	0.24848	0.056	T	0.58741	-0.7583	10	0.51188	T	0.08	-12.852	17.5013	0.87732	0.0:0.0:1.0:0.0	.	161	Q9Y2P4	S27A6_HUMAN	N	161	ENSP00000262462:D161N;ENSP00000378684:D161N;ENSP00000421024:D161N	ENSP00000262462:D161N	D	+	1	0	SLC27A6	128330210	1.000000	0.71417	1.000000	0.80357	0.936000	0.57629	8.984000	0.93482	2.536000	0.85505	0.561000	0.74099	GAT		0.517	SLC27A6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250980.1	NM_014031	Missense_Mutation	A	128302311	G	A	128302311	5	1	605	1	0	0	0	0	0	0	1	0	14543	1014	35	2	483	2	SLC27A6	5	128302311	Splice_Site	SNP	G	TCGA-HE-7129-01A-11D-1961-08		128302311	52612949	15	36447										
PCDHB15	56121	hgsc.bcm.edu	37	chr5	140625665	140625665	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gttcaaaactacaatatttcTcccaattctcatttccatgt	2	11	3	0			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr5:140625665T>C	ENST00000231173.3	+	1	519	c.519T>C	c.(517-519)tcT>tcC	p.S173S		NM_018935.2	NP_061758.1	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15	173	Cadherin 2. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			NS(1)|breast(3)|endometrium(8)|kidney(3)|large_intestine(14)|liver(1)|lung(18)|ovary(3)|prostate(1)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)	61			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACAATATTTCTCCCAATTCTC	0.502																																																0													44	47	46					5																	140625665		2203	4300	6503	SO:0001819	synonymous_variant	56121			AF152494	CCDS4257.1	5q31	2011-06-07			ENSG00000113248	ENSG00000113248		"Cadherins / Protocadherins : Clustered"	8686	other	protocadherin		606341				10380929	Standard	NM_018935		Approved	PCDH-BETA15	uc003lje.3	Q9Y5E8	OTTHUMG00000129609	ENST00000231173.3:c.519T>C	5.37:g.140625665T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUX5	Silent	SNP	ENST00000231173.3	37	CCDS4257.1																																																																																				0.502	PCDHB15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251804.2	NM_018935		C	140625665	T	C	140625665	2	2	605	1	0	0	0	0	0	0	0	1	11547	1538	54	3		3	PCDHB15	5	140625665	Silent	SNP	T	TCGA-HE-7129-01A-11D-1961-08	12323354	140625665	40289595	16	36448										
HNRNPAB	85007	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr5	177632984	177632984	+	IGR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	agagggtttgggtttatcctGttcaaagatgcagccagtgt	13	6	1	2	rs201431713		TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr5:177632984G>A	ENST00000308158.5	-	0	2038				HNRNPAB_ENST00000355836.5_Silent_p.L117L|HNRNPAB_ENST00000506339.1_Silent_p.L117L|HNRNPAB_ENST00000506259.1_Silent_p.L117L|PHYKPL_ENST00000481811.1_5'Flank|HNRNPAB_ENST00000514633.1_Silent_p.L117L|HNRNPAB_ENST00000515193.1_Silent_p.L117L|HNRNPAB_ENST00000504898.1_Silent_p.L117L|HNRNPAB_ENST00000358344.3_Silent_p.L117L	NM_153373.2	NP_699204.1	Q8IUZ5	AT2L2_HUMAN	5-phosphohydroxy-L-lysine phospho-lyase							mitochondrion (GO:0005739)	lyase activity (GO:0016829)|pyridoxal phosphate binding (GO:0030170)|transaminase activity (GO:0008483)									L-Alanine(DB00160)	GGTTTATCCTGTTCAAAGATG	0.408																																																0													129	126	127					5																	177632984		2203	4300	6503	SO:0001628	intergenic_variant	3182			BC037567	CCDS4434.1	5q35.3	2013-06-12	2013-06-12	2013-06-12	ENSG00000175309	ENSG00000175309	4.2.3.134		28249	protein-coding gene	gene with protein product	"5-phosphonooxy-L-lysine phospho-lyase"	614683	"alanine-glyoxylate aminotransferase 2-like 2"	AGXT2L2		22241472	Standard	NM_153373		Approved	MGC15875	uc003miz.3	Q8IUZ5	OTTHUMG00000130892		5.37:g.177632984G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7P6|B3KN36|D3DWP9|Q8WYS6|Q96HW8	Silent	SNP	ENST00000308158.5	37	CCDS4434.1																																																																																				0.408	PHYKPL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253477.1	NM_032921		A	177632984	G	A	177632984	1	1	605	0	1	0	0	0	0	0	0	0	7268	1364	48	2		2	HNRNPAB	5	177632984	IGR	SNP	G	TCGA-HE-7129-01A-11D-1961-08	37007319	177632984	3282276	17	36449										
CCDC90A	63933	broad.mit.edu;ucsc.edu	37	chr6	13800602	13800602	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	ttgttttaactgatgtagttCgagttttattttctaaaaac	6	4	1	1	rs556879787		TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr6:13800602C>T	ENST00000379170.4	-	5	892	c.754G>A	c.(754-756)Gaa>Aaa	p.E252K		NM_001031713.3	NP_001026883.1	Q96AQ8	MCUR1_HUMAN	mitochondrial calcium uniporter regulator 1	252					calcium ion import (GO:0070509)|mitochondrial calcium ion transport (GO:0006851)|positive regulation of mitochondrial calcium ion concentration (GO:0051561)	integral component of mitochondrial inner membrane (GO:0031305)											TGATGTAGTTCGAGTTTTATT	0.244													C|||	1	0.000199681	0.0	0.0	5008	,	,		16997	0.0		0.0	False		,,,				2504	0.001															0													35	36	36					6																	13800602		2198	4287	6485	SO:0001583	missense	63933			BC016850	CCDS35495.1	6p23	2013-03-13	2013-03-13	2013-03-13	ENSG00000050393	ENSG00000050393			21097	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 79", "coiled-coil domain containing 90A"	C6orf79, CCDC90A		23178883	Standard	NM_001031713		Approved	FLJ20958	uc003nbc.2	Q96AQ8	OTTHUMG00000014279	ENST00000379170.4:c.754G>A	6.37:g.13800602C>T	ENSP00000368468:p.Glu252Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q96JS7|Q9H7F8	Missense_Mutation	SNP	ENST00000379170.4	37	CCDS35495.1	.	.	.	.	.	.	.	.	.	.	C	22.4	4.279411	0.80692	.	.	ENSG00000050393	ENST00000379170	T	0.45668	0.89	5.16	5.16	0.70880	.	0.050117	0.85682	D	0.000000	T	0.55955	0.1953	M	0.70595	2.14	0.80722	D	1	D	0.89917	1.0	D	0.68943	0.961	T	0.59064	-0.7524	10	0.62326	D	0.03	-18.5219	15.9312	0.79659	0.0:1.0:0.0:0.0	.	252	Q96AQ8	CC90A_HUMAN	K	252	ENSP00000368468:E252K	ENSP00000368468:E252K	E	-	1	0	CCDC90A	13908581	1.000000	0.71417	0.997000	0.53966	0.995000	0.86356	3.018000	0.49625	2.561000	0.86390	0.655000	0.94253	GAA		0.244	MCUR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039909.3	NM_022102		T	13800602	C	T	13800602	3	4	605	1	0	0	0	0	1	0	0	0	2870	893	31	1	345	1	CCDC90A	6	13800602	Missense_Mutation	SNP	C	TCGA-HE-7129-01A-11D-1961-08		13800602	157314465	18	36450										
MDFI	4188	broad.mit.edu;ucsc.edu	37	chr6	41614025	41614025	+	Intron	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	tggacagcactgacctcgacGtccccacagaagctgtgaca	10	14	0	3	rs367874076		TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr6:41614025G>A	ENST00000373050.4	+	3	263							Q99750	MDFI_HUMAN	MyoD family inhibitor						activation of JUN kinase activity (GO:0007257)|cytoplasmic sequestering of transcription factor (GO:0042994)|dorsal/ventral axis specification (GO:0009950)|embryo development (GO:0009790)|embryonic skeletal system morphogenesis (GO:0048704)|negative regulation of DNA binding (GO:0043392)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of Wnt signaling pathway (GO:0030178)|trophoblast giant cell differentiation (GO:0060707)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|liver(2)|prostate(2)|skin(1)|urinary_tract(1)	8	Ovarian(28;0.0327)|Colorectal(47;0.121)		Colorectal(64;0.0123)|COAD - Colon adenocarcinoma(64;0.0264)|KIRC - Kidney renal clear cell carcinoma(1;0.138)			TGACCTCGACGTCCCCACAGA	0.627													G|||	1	0.000199681	0.0	0.0	5008	,	,		18391	0.001		0.0	False		,,,				2504	0.0															0													36	34	35					6																	41614025		2203	4300	6503	SO:0001627	intron_variant	4188			U78313	CCDS4857.1, CCDS75451.1	6p21	2008-08-29			ENSG00000112559	ENSG00000112559			6967	protein-coding gene	gene with protein product	"inhibitor of MyoD family a"	604971				9250874, 17289077	Standard	NM_005586		Approved	I-mfa	uc003oqq.4	Q99750	OTTHUMG00000014681	ENST00000373050.4:c.77-3332G>A	6.37:g.41614025G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000373050.4	37		.	.	.	.	.	.	.	.	.	.	G	11.01	1.512898	0.27123	.	.	ENSG00000112559	ENST00000432027;ENST00000419164;ENST00000373051;ENST00000441667;ENST00000230321;ENST00000543326;ENST00000446650	.	.	.	5.56	1.13	0.20643	.	0.618193	0.15698	N	0.249098	T	0.11153	0.0272	L	0.33485	1.01	0.09310	N	1	B	0.06786	0.001	B	0.06405	0.002	T	0.29427	-1.0012	9	0.30078	T	0.28	-23.2738	6.7381	0.23421	0.2547:0.1343:0.611:0.0	.	80	Q99750	MDFI_HUMAN	I	80	.	ENSP00000230321:V80I	V	+	1	0	MDFI	41722003	0.117000	0.22190	0.791000	0.31998	0.989000	0.77384	1.430000	0.34914	0.280000	0.22209	0.655000	0.94253	GTC		0.627	MDFI-002	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000040519.2	NM_005586		A	41614025	G	A	41614025	1	1	605	0	1	0	0	0	0	0	0	0	9411	1145	40	1		1	MDFI	6	41614025	Intron	SNP	G	TCGA-HE-7129-01A-11D-1961-08	27813423	41614025	129501042	19	36451										
ICK	22858	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr6	52878690	52878690	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	aggtgggcctgccttttccaGgatgcctttctgtggttttt	12	9	1	0			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr6:52878690G>C	ENST00000350082.5	-	9	1268	c.922C>G	c.(922-924)Ctg>Gtg	p.L308V	ICK_ENST00000356971.3_Missense_Mutation_p.L308V	NM_014920.3	NP_055735.1	Q9UPZ9	ICK_HUMAN	intestinal cell (MAK-like) kinase	308					intracellular signal transduction (GO:0035556)|multicellular organismal development (GO:0007275)|protein phosphorylation (GO:0006468)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|cyclin-dependent protein serine/threonine kinase activity (GO:0004693)|magnesium ion binding (GO:0000287)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|central_nervous_system(2)|endometrium(4)|kidney(2)|large_intestine(6)|lung(10)|ovary(1)|prostate(1)|skin(3)|stomach(1)	31	Lung NSC(77;0.103)					GCCTTTTCCAGGATGCCTTTC	0.512																																																0													137	113	121					6																	52878690		2203	4300	6503	SO:0001583	missense	22858			AB023153	CCDS4949.1	6p12.3-p11.2	2008-02-05			ENSG00000112144	ENSG00000112144			21219	protein-coding gene	gene with protein product		612325				12103360	Standard	NM_014920		Approved	MRK, LCK2, KIAA0936, MGC46090	uc003pbi.2	Q9UPZ9	OTTHUMG00000014870	ENST00000350082.5:c.922C>G	6.37:g.52878690G>C	ENSP00000263043:p.Leu308Val	Somatic		WXS	Illumina HiSeq	Phase_I	A7MD41|O75985|Q5THL2|Q8IYH8|Q9BX17|Q9NYX3	Missense_Mutation	SNP	ENST00000350082.5	37	CCDS4949.1	.	.	.	.	.	.	.	.	.	.	G	3.787	-0.044509	0.07452	.	.	ENSG00000112144	ENST00000350082;ENST00000356971	T;T	0.72282	-0.64;-0.64	6.06	5.18	0.71444	Protein kinase-like domain (1);	1.200720	0.05905	N	0.630645	T	0.33498	0.0865	N	0.08118	0	0.09310	N	1	B	0.09022	0.002	B	0.09377	0.004	T	0.26677	-1.0096	10	0.15499	T	0.54	5.3033	15.6578	0.77155	0.0661:0.0:0.9339:0.0	.	308	Q9UPZ9	ICK_HUMAN	V	308	ENSP00000263043:L308V;ENSP00000349458:L308V	ENSP00000263043:L308V	L	-	1	2	ICK	52986649	0.844000	0.29557	0.232000	0.24009	0.396000	0.30629	3.921000	0.56454	1.551000	0.49450	0.655000	0.94253	CTG		0.512	ICK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040952.1	NM_016513		C	52878690	G	C	52878690	3	2	605	1	0	0	0	0	1	0	0	0	7491	991	35	4	1000	4	ICK	6	52878690	Missense_Mutation	SNP	G	TCGA-HE-7129-01A-11D-1961-08	11264665	52878690	118236377	20	36452										
CCM2	83605	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr7	45112359	45112359	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	aaagtggacattaaggagacCtacgaggtggaagccagcac	13	8	0	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr7:45112359C>T	ENST00000258781.6	+	7	929	c.780C>T	c.(778-780)acC>acT	p.T260T	CCM2_ENST00000475551.1_Silent_p.T254T|CCM2_ENST00000544363.1_Silent_p.T169T|CCM2_ENST00000381112.3_Silent_p.T281T|CCM2_ENST00000541586.1_Silent_p.T202T|CCM2_ENST00000461377.1_3'UTR|CCM2_ENST00000474617.1_Silent_p.T163T	NM_031443.3	NP_113631.1	Q9BSQ5	CCM2_HUMAN	cerebral cavernous malformation 2	260					blood vessel endothelial cell differentiation (GO:0060837)|cell-cell junction organization (GO:0045216)|endothelial cell development (GO:0001885)|endothelial tube morphogenesis (GO:0061154)|in utero embryonic development (GO:0001701)|inner ear development (GO:0048839)|integrin-mediated signaling pathway (GO:0007229)|multicellular organism growth (GO:0035264)|pericardium development (GO:0060039)|stress-activated MAPK cascade (GO:0051403)|vasculogenesis (GO:0001570)|venous blood vessel morphogenesis (GO:0048845)	cytoplasm (GO:0005737)|protein complex (GO:0043234)				NS(1)|endometrium(3)|large_intestine(2)|lung(9)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	19						TTAAGGAGACCTACGAGGTGG	0.507																																																0													102	87	92					7																	45112359		2203	4300	6503	SO:0001819	synonymous_variant	83605			BC004903	CCDS5500.1, CCDS34630.1, CCDS55108.1, CCDS55109.1	7p13	2014-09-17	2004-02-13	2004-02-18	ENSG00000136280	ENSG00000136280			21708	protein-coding gene	gene with protein product	"malcavernin"	607929	"chromosome 7 open reading frame 22"	C7orf22		9811928	Standard	NM_001029835		Approved	MGC4607	uc003tms.3	Q9BSQ5	OTTHUMG00000129246	ENST00000258781.6:c.780C>T	7.37:g.45112359C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4D2L4|B3KUV0|D3DVL4|E9PDJ3|F5H0E1|F5H551|Q71RE5|Q8TAT4	Silent	SNP	ENST00000258781.6	37	CCDS5500.1	.	.	.	.	.	.	.	.	.	.	C	7.888	0.731770	0.15507	.	.	ENSG00000136280	ENST00000480382	.	.	.	5.55	-2.66	0.06077	.	.	.	.	.	T	0.41328	0.1154	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.28235	-1.0050	4	.	.	.	-0.5904	2.9764	0.05939	0.3625:0.1562:0.3533:0.128	.	.	.	.	L	127	.	.	P	+	2	0	CCM2	45078884	0.004000	0.15560	0.000000	0.03702	0.904000	0.53231	-0.395000	0.07287	-0.809000	0.04381	-0.165000	0.13383	CCT		0.507	CCM2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000251348.1	NM_031443		T	45112359	C	T	45112359	2	4	605	1	0	0	0	0	0	0	0	1	2910	668	24	2		2	CCM2	7	45112359	Silent	SNP	C	TCGA-HE-7129-01A-11D-1961-08		45112359	114026304	21	36453										
HIP1	3092	broad.mit.edu	37	chr7	75168684	75168684	+	Frame_Shift_Del	DEL	T	T	-													0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	caccagcaagctcgtagtgcTttttccgaagctctcccagt							TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr7:75168684delT	ENST00000336926.6	-	30	3046	c.3020delA	c.(3019-3021)aagfs	p.K1007fs	HIP1_ENST00000434438.2_Frame_Shift_Del_p.K956fs	NM_005338.5	NP_005329.3	O00291	HIP1_HUMAN	huntingtin interacting protein 1	1007	I/LWEQ. {ECO:0000255|PROSITE- ProRule:PRU00292}.				activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|cell differentiation (GO:0030154)|clathrin coat assembly (GO:0048268)|endocytosis (GO:0006897)|positive regulation of receptor-mediated endocytosis (GO:0048260)|regulation of apoptotic process (GO:0042981)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	clathrin-coated vesicle (GO:0030136)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)	clathrin binding (GO:0030276)|phosphatidylinositol binding (GO:0035091)|structural constituent of cytoskeleton (GO:0005200)			breast(3)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(25)|ovary(2)|pancreas(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	51						CTCGTAGTGCTTTTTCCGAAG	0.507			T	PDGFRB	CMML																																		Dom	yes		7	7q11.23	3092	huntingtin interacting protein 1		L	0													303	294	297					7																	75168684		2203	4300	6503	SO:0001589	frameshift_variant	3092			AF052288	CCDS34669.1, CCDS59060.1	7q11.23	2008-07-18			ENSG00000127946	ENSG00000127946			4913	protein-coding gene	gene with protein product		601767				9140394, 9147654	Standard	NM_005338		Approved	ILWEQ	uc003uds.2	O00291	OTTHUMG00000156050	ENST00000336926.6:c.3020delA	7.37:g.75168684delT	ENSP00000336747:p.Lys1007fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3I7|E7ES17|O00328|Q2TB58|Q8TDL4	Frame_Shift_Del	DEL	ENST00000336926.6	37	CCDS34669.1																																																																																				0.507	HIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342863.2	NM_005338		-	75168684	T	-	75168684	7	5	605	1	0	1	0	1	0	0	0	0	7121	1609	56	0	101	0	HIP1	7	75168684	Frame_Shift_Del	DEL	T	TCGA-HE-7129-01A-11D-1961-08	30056325	75168684	83969979	22	36454										
PDK4	5166	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	95221864	95221872	+	In_Frame_Del	DEL	CCAATGTGG	CCAATGTGG	-													0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	cacagttaggatcaatgcttCcaatgtggcttgggtttcct					rs138077797		TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	CCAATGTGG	CCAATGTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr7:95221864_95221872delCCAATGTGG	ENST00000005178.5	-	5	764_772	c.567_575delCCACATTGG	c.(565-576)agccacattgga>aga	p.189_192SHIG>R		NM_002612.3	NP_002603.1	Q16654	PDK4_HUMAN	pyruvate dehydrogenase kinase, isozyme 4	189	Histidine kinase. {ECO:0000255|PROSITE- ProRule:PRU00107}.				cellular metabolic process (GO:0044237)|cellular response to fatty acid (GO:0071398)|cellular response to starvation (GO:0009267)|glucose homeostasis (GO:0042593)|glucose metabolic process (GO:0006006)|insulin receptor signaling pathway (GO:0008286)|negative regulation of anoikis (GO:2000811)|protein phosphorylation (GO:0006468)|pyruvate metabolic process (GO:0006090)|reactive oxygen species metabolic process (GO:0072593)|regulation of acetyl-CoA biosynthetic process from pyruvate (GO:0010510)|regulation of bone resorption (GO:0045124)|regulation of cellular ketone metabolic process (GO:0010565)|regulation of fatty acid biosynthetic process (GO:0042304)|regulation of fatty acid oxidation (GO:0046320)|regulation of glucose metabolic process (GO:0010906)|regulation of pH (GO:0006885)|response to starvation (GO:0042594)|small molecule metabolic process (GO:0044281)	mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|pyruvate dehydrogenase (acetyl-transferring) kinase activity (GO:0004740)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|liver(1)|lung(4)|skin(1)|upper_aerodigestive_tract(1)	15	all_cancers(62;1.06e-10)|all_epithelial(64;1.04e-09)|Lung NSC(181;0.128)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0151)			ATCAATGCTTCCAATGTGGCTTGGGTTTC	0.321																																																0																																										SO:0001651	inframe_deletion	5166			U54617	CCDS5643.1	7q21.3-q22.1	2008-07-18	2005-11-16		ENSG00000004799	ENSG00000004799			8812	protein-coding gene	gene with protein product		602527	"pyruvate dehydrogenase kinase, isoenzyme 4"			7499431	Standard	NM_002612		Approved		uc003uoa.3	Q16654	OTTHUMG00000153977	ENST00000005178.5:c.567_575delCCACATTGG	7.37:g.95221864_95221872delCCAATGTGG	ENSP00000005178:p.Ser189_Gly192delinsArg	Somatic		WXS	Illumina HiSeq	Phase_I		In_Frame_Del	DEL	ENST00000005178.5	37	CCDS5643.1																																																																																				0.321	PDK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333298.1	NM_002612		-	95221872	CCAATGTGG	-	95221864	7	5	605	1	0	1	0	1	0	0	0	0	11685	855	30	0	688	0	PDK4	7	95221864	In_Frame_Del	DEL	CCAATGTGG	TCGA-HE-7129-01A-11D-1961-08	20053180	95221864	63916799	23	36455										
ZKSCAN5	23660	broad.mit.edu	37	chr7	99123898	99123898	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	ggtgtgcggaaaggctttccGggtgagttcccacctggttc	15	10	0	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr7:99123898G>T	ENST00000394170.2	+	6	1486	c.1235G>T	c.(1234-1236)cGg>cTg	p.R412L	ZKSCAN5_ENST00000451158.1_Missense_Mutation_p.R412L|ZKSCAN5_ENST00000326775.5_Missense_Mutation_p.R412L	NM_014569.3	NP_055384.1	Q9Y2L8	ZKSC5_HUMAN	zinc finger with KRAB and SCAN domains 5	412					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			breast(3)|endometrium(1)|kidney(1)|large_intestine(6)|lung(6)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	21	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)					AAGGCTTTCCGGGTGAGTTCC	0.582																																																0													144	141	142					7																	99123898		2203	4300	6503	SO:0001583	missense	23660			AF170025	CCDS5667.1	7q22	2013-01-09	2007-02-20	2007-02-20	ENSG00000196652	ENSG00000196652		"Zinc fingers, C2H2-type", "-", "-", "-"	12867	protein-coding gene	gene with protein product		611272	"zinc finger protein homologous to Zfp95 in mouse", "zinc finger protein 95 homolog (mouse)"	ZFP95		10585779	Standard	NM_014569		Approved	ZNF914, ZSCAN37	uc003uqv.3	Q9Y2L8	OTTHUMG00000156749	ENST00000394170.2:c.1235G>T	7.37:g.99123898G>T	ENSP00000377725:p.Arg412Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A4D280|D6W5S9	Missense_Mutation	SNP	ENST00000394170.2	37	CCDS5667.1	.	.	.	.	.	.	.	.	.	.	G	16.35	3.099745	0.56183	.	.	ENSG00000196652	ENST00000537357;ENST00000326775;ENST00000451158;ENST00000394170	T;T;T	0.05925	3.37;3.37;3.37	4.63	4.63	0.57726	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.261790	0.27567	N	0.018793	T	0.06735	0.0172	N	0.16266	0.395	0.25005	N	0.991449	D;D	0.53619	0.961;0.961	P;P	0.51866	0.682;0.682	T	0.39603	-0.9606	10	0.15952	T	0.53	.	11.117	0.48266	0.0:0.1871:0.8129:0.0	.	412;412	Q8N718;Q9Y2L8	.;ZKSC5_HUMAN	L	412	ENSP00000322872:R412L;ENSP00000392104:R412L;ENSP00000377725:R412L	ENSP00000322872:R412L	R	+	2	0	ZKSCAN5	98961834	0.000000	0.05858	0.965000	0.40720	0.996000	0.88848	0.225000	0.17757	2.581000	0.87130	0.655000	0.94253	CGG		0.582	ZKSCAN5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345597.1	NM_014569		T	99123898	G	T	99123898	3	4	605	1	0	0	0	0	1	0	0	0	17702	1116	39	4	1253	4	ZKSCAN5	7	99123898	Missense_Mutation	SNP	G	TCGA-HE-7129-01A-11D-1961-08	3902034	99123898	60014765	24	36456										
ZKSCAN1	7586	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr7	99621201	99621201	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	caggagaaggatggtatcgtAatagtgaaggtggaagagga	17	2	0	3			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr7:99621201A>G	ENST00000324306.6	+	2	306	c.72A>G	c.(70-72)gtA>gtG	p.V24V	ZKSCAN1_ENST00000535170.1_Intron|ZKSCAN1_ENST00000426572.1_5'UTR	NM_003439.1	NP_003430.1	P17029	ZKSC1_HUMAN	zinc finger with KRAB and SCAN domains 1	24					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(5)|lung(5)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	25	Lung NSC(181;0.0211)|all_lung(186;0.0323)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			ATGGTATCGTAATAGTGAAGG	0.542																																																0													94	83	87					7																	99621201		2203	4300	6503	SO:0001819	synonymous_variant	7586			X52349	CCDS34698.1, CCDS69349.1, CCDS75640.1	7q22	2013-01-09	2004-11-16	2004-11-17	ENSG00000106261	ENSG00000106261		"Zinc fingers, C2H2-type", "-", "-", "-"	13101	protein-coding gene	gene with protein product		601260	"zinc finger protein 36 (KOX 18)"	ZNF139, ZNF36			Standard	NM_001287055		Approved	KOX18, PHZ-37, ZSCAN33	uc003usk.1	P17029	OTTHUMG00000156534	ENST00000324306.6:c.72A>G	7.37:g.99621201A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A4D294|P52745|Q2M1U1|Q8TBW5|Q8TEK7	Silent	SNP	ENST00000324306.6	37	CCDS34698.1																																																																																				0.542	ZKSCAN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344550.2	NM_003439		G	99621201	A	G	99621201	2	3	605	1	0	0	0	0	0	0	0	1	17698	349	13	3		3	ZKSCAN1	7	99621201	Silent	SNP	A	TCGA-HE-7129-01A-11D-1961-08	497303	99621201	59517462	25	36457										
SLC4A2	6522	broad.mit.edu	37	chr7	150769158	150769158	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gcttcgtctcccgcttcaccCaggagatcttcgccttcttg	8	16	4	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr7:150769158C>A	ENST00000485713.1	+	16	3510	c.2470C>A	c.(2470-2472)Cag>Aag	p.Q824K	SLC4A2_ENST00000461735.1_Missense_Mutation_p.Q810K|SLC4A2_ENST00000310317.5_Missense_Mutation_p.Q742K|SLC4A2_ENST00000413384.2_Missense_Mutation_p.Q824K|SLC4A2_ENST00000392826.2_Missense_Mutation_p.Q815K|RP11-148K1.12_ENST00000485974.1_RNA	NM_001199692.1	NP_001186621.1	P04920	B3A2_HUMAN	solute carrier family 4 (anion exchanger), member 2	824	Membrane (anion exchange).			Q -> R (in Ref. 1; CAA44067 and 7; CAA27556). {ECO:0000305}.	anion transport (GO:0006820)|bicarbonate transport (GO:0015701)|ion transport (GO:0006811)|transmembrane transport (GO:0055085)	basolateral plasma membrane (GO:0016323)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	anion transmembrane transporter activity (GO:0008509)|chloride transmembrane transporter activity (GO:0015108)|inorganic anion exchanger activity (GO:0005452)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(2)|liver(2)|lung(14)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	33			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CCGCTTCACCCAGGAGATCTT	0.617																																																0													171	173	172					7																	150769158		2203	4300	6503	SO:0001583	missense	6522				CCDS5917.1, CCDS56520.1, CCDS56521.1	7q36.1	2013-07-19	2013-07-19		ENSG00000164889	ENSG00000164889		"Solute carriers"	11028	protein-coding gene	gene with protein product	"anion exchanger 2 type a", "anion exchanger 2 type b1", "anion exchanger 2 type b2"	109280	"erythrocyte membrane protein band 3-like 1", "solute carrier family 4, anion exchanger, member 2 (erythrocyte membrane protein band 3-like 1)"	EPB3L1, AE2		8434259	Standard	NM_003040		Approved	HKB3, BND3L, NBND3	uc003wit.4	P04920	OTTHUMG00000158443	ENST00000485713.1:c.2470C>A	7.37:g.150769158C>A	ENSP00000419412:p.Gln824Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6T0|B4DIT0|D3DX05|F8W682|Q45EY5|Q969L3	Missense_Mutation	SNP	ENST00000485713.1	37	CCDS5917.1	.	.	.	.	.	.	.	.	.	.	C	23.7	4.442592	0.83993	.	.	ENSG00000164889	ENST00000485713;ENST00000413384;ENST00000310317;ENST00000392826;ENST00000461735	T;T;T;T;T	0.79845	-1.31;-1.31;-1.31;-1.31;-1.31	4.85	4.85	0.62838	Bicarbonate transporter, C-terminal (1);	0.000000	0.85682	D	0.000000	D	0.91593	0.7344	M	0.93106	3.38	0.80722	D	1	D;D;D	0.69078	0.982;0.997;0.997	D;D;D	0.74674	0.954;0.973;0.984	D	0.93451	0.6802	10	0.87932	D	0	.	15.534	0.75986	0.0:1.0:0.0:0.0	.	815;810;824	F8W682;P04920-2;P04920	.;.;B3A2_HUMAN	K	824;824;742;815;810	ENSP00000419412:Q824K;ENSP00000405600:Q824K;ENSP00000311402:Q742K;ENSP00000376571:Q815K;ENSP00000419164:Q810K	ENSP00000311402:Q742K	Q	+	1	0	SLC4A2	150400091	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.604000	0.82830	2.524000	0.85096	0.561000	0.74099	CAG		0.617	SLC4A2-002	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000351039.1	NM_003040		A	150769158	C	A	150769158	3	1	605	1	0	0	0	0	1	0	0	0	14667	595	21	4	2528	4	SLC4A2	7	150769158	Missense_Mutation	SNP	C	TCGA-HE-7129-01A-11D-1961-08	51147957	150769158	8369505	26	36458										
ASB10	136371	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr7	150878302	150878302	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gctgaaagcagcaagctgcaCagctgcaggcagcgggcggt	16	11	0	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr7:150878302C>G	ENST00000420175.2	-	3	852	c.828G>C	c.(826-828)ctG>ctC	p.L276L	ASB10_ENST00000275838.1_Silent_p.L276L|ASB10_ENST00000377867.3_Silent_p.L261L|ASB10_ENST00000422024.1_Silent_p.L321L|ASB10_ENST00000434669.1_Silent_p.L321L			Q8WXI3	ASB10_HUMAN	ankyrin repeat and SOCS box containing 10	276					intracellular signal transduction (GO:0035556)|protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				NS(1)|endometrium(2)|lung(7)|skin(2)	12			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GCAAGCTGCACAGCTGCAGGC	0.682																																																0													29	31	30					7																	150878302		2202	4297	6499	SO:0001819	synonymous_variant	136371			AK055536	CCDS5921.2, CCDS47749.1, CCDS47750.1, CCDS47749.2, CCDS47750.2	7q35	2014-02-04	2011-01-25		ENSG00000146926	ENSG00000146926		"Ankyrin repeat domain containing"	17185	protein-coding gene	gene with protein product		615054	"ankyrin repeat and SOCS box-containing 10", "glaucoma 1, open angle, F (adult-onset)"	GLC1F		22156576	Standard	NM_080871		Approved		uc003wjm.1	Q8WXI3	OTTHUMG00000157013	ENST00000420175.2:c.828G>C	7.37:g.150878302C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0AVH0|Q6ZUL6	Silent	SNP	ENST00000420175.2	37	CCDS47750.2																																																																																				0.682	ASB10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347096.3	NM_080871		G	150878302	C	G	150878302	2	3	605	1	0	0	0	0	0	0	0	1	1014	465	17	4		4	ASB10	7	150878302	Silent	SNP	C	TCGA-HE-7129-01A-11D-1961-08	109144	150878302	8260361	27	36459										
WISP1	8840	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr8	134225321	134225321	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	ggaggctgccatctgtgaccCccaccggggcctctactgtg	13	15	2	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr8:134225321C>T	ENST00000250160.6	+	2	390	c.284C>T	c.(283-285)cCc>cTc	p.P95L	WISP1_ENST00000377863.2_Intron|WISP1_ENST00000220856.6_Missense_Mutation_p.P95L|WISP1_ENST00000519433.1_Intron|WISP1_ENST00000517423.1_Missense_Mutation_p.P95L	NM_003882.3	NP_003873.1	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	95	IGFBP N-terminal. {ECO:0000255|PROSITE- ProRule:PRU00653}.				cell adhesion (GO:0007155)|cell-cell signaling (GO:0007267)|regulation of cell growth (GO:0001558)|signal transduction (GO:0007165)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)				central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(8)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	21	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			ATCTGTGACCCCCACCGGGGC	0.612																																																0													57	59	58					8																	134225321		2203	4300	6503	SO:0001583	missense	8840			AF100779	CCDS6371.1, CCDS6372.1, CCDS56555.1, CCDS56556.1	8q24.22	2007-05-14			ENSG00000104415	ENSG00000104415			12769	protein-coding gene	gene with protein product		603398				9843955	Standard	NM_003882		Approved	CCN4	uc003yub.3	O95388	OTTHUMG00000164440	ENST00000250160.6:c.284C>T	8.37:g.134225321C>T	ENSP00000250160:p.Pro95Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAG6|E7EMM5|Q5JBS6|Q5JBS7|Q5JBS8|Q9HCS3	Missense_Mutation	SNP	ENST00000250160.6	37	CCDS6371.1	.	.	.	.	.	.	.	.	.	.	C	15.65	2.895808	0.52121	.	.	ENSG00000104415	ENST00000250160;ENST00000517423;ENST00000220856	T;T;T	0.64618	-0.11;-0.11;-0.11	5.27	4.33	0.51752	Insulin-like growth factor-binding protein, IGFBP (3);	0.467062	0.24962	N	0.034202	T	0.57961	0.2089	M	0.63843	1.955	0.80722	D	1	P;P;B	0.45176	0.852;0.458;0.27	B;B;B	0.42462	0.388;0.137;0.089	T	0.62315	-0.6880	10	0.56958	D	0.05	-27.7812	7.9781	0.30166	0.0:0.7412:0.1659:0.0928	.	95;95;95	E7EMM5;O95388-2;O95388	.;.;WISP1_HUMAN	L	95	ENSP00000250160:P95L;ENSP00000427744:P95L;ENSP00000220856:P95L	ENSP00000220856:P95L	P	+	2	0	WISP1	134294503	0.959000	0.32827	1.000000	0.80357	0.965000	0.64279	1.247000	0.32815	2.460000	0.83146	0.542000	0.68232	CCC		0.612	WISP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378794.2	NM_003882		T	134225321	C	T	134225321	3	4	605	1	0	0	0	0	1	0	0	0	17384	623	22	2	290	2	WISP1	8	134225321	Missense_Mutation	SNP	C	TCGA-HE-7129-01A-11D-1961-08		134225321	12138701	28	36460										
COL27A1	85301	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr9	117047026	117047026	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	acacaaaggcattgtgggacCccttggacctcctggaccaa	10	13	0	0			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr9:117047026C>G	ENST00000356083.3	+	41	4347	c.3956C>G	c.(3955-3957)cCc>cGc	p.P1319R		NM_032888.2	NP_116277.2	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1	1319	Collagen-like 12.|Pro-rich.|Triple-helical region.				extracellular matrix organization (GO:0030198)	endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|fibrillar collagen trimer (GO:0005583)	extracellular matrix structural constituent (GO:0005201)|metal ion binding (GO:0046872)			central_nervous_system(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(17)|lung(30)|ovary(4)|prostate(6)|skin(3)|soft_tissue(1)|stomach(1)|urinary_tract(3)	80						ATTGTGGGACCCCTTGGACCT	0.557																																																0													142	119	127					9																	117047026		2203	4300	6503	SO:0001583	missense	85301			AB058773	CCDS6802.1	9q33.1	2013-01-16			ENSG00000196739	ENSG00000196739		"Collagens"	22986	protein-coding gene	gene with protein product		608461				12766169	Standard	NM_032888		Approved	KIAA1870, MGC11337, FLJ11895	uc011lxl.2	Q8IZC6	OTTHUMG00000020537	ENST00000356083.3:c.3956C>G	9.37:g.117047026C>G	ENSP00000348385:p.Pro1319Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q66K43|Q96JF7	Missense_Mutation	SNP	ENST00000356083.3	37	CCDS6802.1	.	.	.	.	.	.	.	.	.	.	c	12.60	1.986411	0.35036	.	.	ENSG00000196739	ENST00000356083;ENST00000357257	D	0.93366	-3.21	4.71	3.82	0.43975	.	.	.	.	.	D	0.93779	0.8011	L	0.55017	1.72	0.38600	D	0.950644	P	0.52577	0.954	P	0.60012	0.867	D	0.91884	0.5518	9	0.22706	T	0.39	.	10.6899	0.45864	0.0:0.9065:0.0:0.0935	.	1319	Q8IZC6	CORA1_HUMAN	R	1319	ENSP00000348385:P1319R	ENSP00000348385:P1319R	P	+	2	0	COL27A1	116086847	1.000000	0.71417	1.000000	0.80357	0.672000	0.39443	5.396000	0.66297	1.205000	0.43262	-0.265000	0.10407	CCC		0.557	COL27A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053763.1	NM_032888		G	117047026	C	G	117047026	3	3	605	1	0	0	0	0	1	0	0	0	3687	623	22	4	4118	4	COL27A1	9	117047026	Missense_Mutation	SNP	C	TCGA-HE-7129-01A-11D-1961-08		117047026	24166405	29	36461										
TMEM203	94107	broad.mit.edu;ucsc.edu	37	chr9	140099503	140099503	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gagcagctgcaggagaatgaAgagcggggacgtaatgaggc	18	6	0	4			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr9:140099503A>T	ENST00000343666.5	-	1	587	c.364T>A	c.(364-366)Ttc>Atc	p.F122I	TPRN_ENST00000541945.1_5'Flank|TMEM203_ENST00000537254.1_Missense_Mutation_p.F122I|NDOR1_ENST00000371521.4_5'Flank|NDOR1_ENST00000427047.2_5'Flank|NDOR1_ENST00000458322.2_5'Flank|NDOR1_ENST00000344894.5_5'Flank	NM_053045.1	NP_444273.1	Q969S6	TM203_HUMAN	transmembrane protein 203	122						integral component of membrane (GO:0016021)				central_nervous_system(1)|kidney(1)	2	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		AGGAGAATGAAGAGCGGGGAC	0.587																																																0													42	41	41					9																	140099503		2200	4294	6494	SO:0001583	missense	94107			BC009283	CCDS35185.1	9q34.3	2007-12-18			ENSG00000187713	ENSG00000187713			28217	protein-coding gene	gene with protein product	"HBeAg-binding protein 1"					12477932	Standard	NM_053045		Approved	MGC14327, HBEBP1	uc004clv.3	Q969S6	OTTHUMG00000020985	ENST00000343666.5:c.364T>A	9.37:g.140099503A>T	ENSP00000375053:p.Phe122Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NW08	Missense_Mutation	SNP	ENST00000343666.5	37	CCDS35185.1	.	.	.	.	.	.	.	.	.	.	A	23.3	4.394143	0.83011	.	.	ENSG00000187713	ENST00000343666;ENST00000537254	.	.	.	4.31	4.31	0.51392	.	0.158722	0.42053	U	0.000772	T	0.68860	0.3047	L	0.54323	1.7	0.80722	D	1	D	0.76494	0.999	D	0.68765	0.96	T	0.71334	-0.4624	9	0.59425	D	0.04	.	12.4385	0.55612	1.0:0.0:0.0:0.0	.	122	Q969S6	TM203_HUMAN	I	122	.	ENSP00000375053:F122I	F	-	1	0	TMEM203	139219324	1.000000	0.71417	0.992000	0.48379	0.369000	0.29798	8.717000	0.91425	1.799000	0.52666	0.533000	0.62120	TTC		0.587	TMEM203-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055325.2	NM_053045		T	140099503	A	T	140099503	3	4	605	1	0	0	0	0	1	0	0	0	16140	72	3	5	50	5	TMEM203	9	140099503	Missense_Mutation	SNP	A	TCGA-HE-7129-01A-11D-1961-08	23052477	140099503	1113928	30	36462										
PCDH15	65217	broad.mit.edu;ucsc.edu	37	chr10	55568839	55568839	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	cttcttgcaagcacaatgttTttccttgctttttctccttc	4	12	2	0			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr10:55568839T>A	ENST00000395445.1	-	36	5365	c.4971A>T	c.(4969-4971)aaA>aaT	p.K1657N	PCDH15_ENST00000409834.1_3'UTR|PCDH15_ENST00000395438.1_3'UTR|PCDH15_ENST00000395442.1_Missense_Mutation_p.K522N|PCDH15_ENST00000373965.2_Intron|PCDH15_ENST00000395446.1_Missense_Mutation_p.K853N|PCDH15_ENST00000395440.1_Missense_Mutation_p.K591N|PCDH15_ENST00000414778.1_Intron	NM_001142769.1	NP_001136241.1	Q96QU1	PCD15_HUMAN	protocadherin-related 15	0					equilibrioception (GO:0050957)|homophilic cell adhesion (GO:0007156)|photoreceptor cell maintenance (GO:0045494)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|photoreceptor outer segment (GO:0001750)|plasma membrane (GO:0005886)|stereocilium (GO:0032420)|synapse (GO:0045202)	calcium ion binding (GO:0005509)			NS(3)|breast(6)|central_nervous_system(1)|cervix(3)|endometrium(18)|haematopoietic_and_lymphoid_tissue(4)|kidney(13)|large_intestine(39)|lung(108)|ovary(5)|pancreas(6)|prostate(6)|skin(12)|upper_aerodigestive_tract(12)|urinary_tract(1)	237		Melanoma(3;0.117)|Lung SC(717;0.238)				GCACAATGTTTTTCCTTGCTT	0.473										HNSCC(58;0.16)																																						0													123	94	103					10																	55568839		1568	3582	5150	SO:0001583	missense	65217			AY029205	CCDS7248.1, CCDS44400.1, CCDS44401.1, CCDS44403.1, CCDS44404.1, CCDS73134.1, CCDS73135.1, CCDS73136.1, CCDS73137.1, CCDS73138.1	10q21.1	2013-01-08	2010-01-25		ENSG00000150275	ENSG00000150275		"Cadherins / Cadherin-related"	14674	protein-coding gene	gene with protein product	"cadherin-related family member 15"	605514	"deafness, autosomal recessive 23", "protocadherin 15"	USH1F, DFNB23		11398101, 14570705	Standard	NM_033056		Approved	CDHR15	uc010qhy.1	Q96QU1	OTTHUMG00000018259	ENST00000395445.1:c.4971A>T	10.37:g.55568839T>A	ENSP00000378832:p.Lys1657Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A6NL19|C6ZEF5|C6ZEF6|C6ZEF7|Q5VY38|Q5VY39|Q6TRH8|Q8NDB9|Q96QT8	Missense_Mutation	SNP	ENST00000395445.1	37		.	.	.	.	.	.	.	.	.	.	T	12.19	1.863009	0.32884	.	.	ENSG00000150275	ENST00000395445;ENST00000395446;ENST00000395442;ENST00000395440	T;D;D;D	0.97089	-0.31;-4.24;-4.24;-4.24	5.55	-4.49	0.03504	.	.	.	.	.	D	0.89656	0.6778	N	0.14661	0.345	0.21841	N	0.99951	P;P	0.38922	0.651;0.501	B;B	0.29785	0.107;0.107	T	0.82623	-0.0366	9	0.62326	D	0.03	.	9.0437	0.36333	0.1044:0.4727:0.0:0.4229	.	1655;1657	C6ZEF5;A2A3E2	.;.	N	1657;853;522;591	ENSP00000378832:K1657N;ENSP00000378833:K853N;ENSP00000378829:K522N;ENSP00000378827:K591N	ENSP00000378827:K591N	K	-	3	2	PCDH15	55238845	0.945000	0.32115	0.056000	0.19401	0.489000	0.33432	0.441000	0.21611	-0.418000	0.07450	-0.290000	0.09829	AAA		0.473	PCDH15-007	NOVEL	not_organism_supported|basic	protein_coding	protein_coding	OTTHUMT00000291335.1	NM_033056		A	55568839	T	A	55568839	3	1	605	1	0	0	0	0	1	0	0	0	11518	1838	64	5	945	5	PCDH15	10	55568839	Missense_Mutation	SNP	T	TCGA-HE-7129-01A-11D-1961-08		55568839	79965908	31	36463										
AP3M1	26985	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr10	75898090	75898090	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	acgctcttccagtgcttctcTagaaatatgtcaccggaaca	7	12	3	1	rs147488745		TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr10:75898090T>C	ENST00000355264.4	-	2	359	c.48A>G	c.(46-48)ctA>ctG	p.L16L	AP3M1_ENST00000487653.1_5'UTR|AP3M1_ENST00000372745.1_Silent_p.L16L	NM_012095.4	NP_036227.1	Q9Y2T2	AP3M1_HUMAN	adaptor-related protein complex 3, mu 1 subunit	16					anterograde axon cargo transport (GO:0008089)|anterograde synaptic vesicle transport (GO:0048490)|protein targeting to lysosome (GO:0006622)	clathrin adaptor complex (GO:0030131)|cytoplasmic vesicle (GO:0031410)|Golgi apparatus (GO:0005794)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)	Rab GTPase binding (GO:0017137)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(1)|lung(1)|prostate(1)|skin(1)	13	Prostate(51;0.0112)					AGTGCTTCTCTAGAAATATGT	0.358																																																0													76	76	76					10																	75898090		2203	4300	6503	SO:0001819	synonymous_variant	26985			AF092092	CCDS7342.1	10q22.1-q22.3	2008-07-07			ENSG00000185009	ENSG00000185009			569	protein-coding gene	gene with protein product		610366				10024875	Standard	NM_207012		Approved		uc001jwh.3	Q9Y2T2	OTTHUMG00000018497	ENST00000355264.4:c.48A>G	10.37:g.75898090T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JQ12|Q9H5L2	Silent	SNP	ENST00000355264.4	37	CCDS7342.1																																																																																				0.358	AP3M1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048747.1			C	75898090	T	C	75898090	2	2	605	1	0	0	0	0	0	0	0	1	747	1509	53	3		3	AP3M1	10	75898090	Silent	SNP	T	TCGA-HE-7129-01A-11D-1961-08	20329251	75898090	59636657	32	36464										
MUC2	4583	broad.mit.edu	37	chr11	1098668	1098668	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gcccagtgccacgcactggtGcccccgcagcactactacga	10	18	0	0			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr11:1098668G>A	ENST00000441003.2	+	37	7065	c.7038G>A	c.(7036-7038)gtG>gtA	p.V2346V	MUC2_ENST00000361558.6_3'UTR	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	4708					cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	ACGCACTGGTGCCCCCGCAGC	0.652																																																0													21	26	24					11																	1098668		2108	4219	6327	SO:0001819	synonymous_variant	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.7038G>A	11.37:g.1098668G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Silent	SNP	ENST00000441003.2	37																																																																																					0.652	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		A	1098668	G	A	1098668	2	1	605	1	0	0	0	0	0	0	0	1	9982	1306	46	2		2	MUC2	11	1098668	Silent	SNP	G	TCGA-HE-7129-01A-11D-1961-08		1098668	133907848	33	36465										
OR8I2	120586	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr11	55861472	55861472	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	catcctgaggatccagtcagCagcaggcaggcagaaggcct	13	12	1	2			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr11:55861472C>G	ENST00000302124.2	+	1	720	c.689C>G	c.(688-690)gCa>gGa	p.A230G		NM_001003750.1	NP_001003750.1	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I, member 2	230						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.A230E(1)		NS(1)|breast(2)|endometrium(16)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(4)|lung(24)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	53	Esophageal squamous(21;0.00693)					ATCCAGTCAGCAGCAGGCAGG	0.468																																																1	Substitution - Missense(1)	lung(1)											148	133	138					11																	55861472		2201	4296	6497	SO:0001583	missense	120586			AB065656	CCDS31517.1	11q11	2012-08-09			ENSG00000172154	ENSG00000172154		"GPCR / Class A : Olfactory receptors"	15310	protein-coding gene	gene with protein product							Standard	NM_001003750		Approved		uc010rix.2	Q8N0Y5	OTTHUMG00000166831	ENST00000302124.2:c.689C>G	11.37:g.55861472C>G	ENSP00000303864:p.Ala230Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNN4|Q6IFC0|Q96RC5	Missense_Mutation	SNP	ENST00000302124.2	37	CCDS31517.1	.	.	.	.	.	.	.	.	.	.	C	7.367	0.625989	0.14257	.	.	ENSG00000172154	ENST00000302124	T	0.00207	8.55	4.33	3.41	0.39046	GPCR, rhodopsin-like superfamily (1);	0.410674	0.17770	U	0.162617	T	0.00241	0.0007	L	0.60904	1.88	0.09310	N	1	B	0.19935	0.04	B	0.25614	0.062	T	0.31613	-0.9937	10	0.62326	D	0.03	-0.4958	11.6945	0.51536	0.0:0.9111:0.0:0.0889	.	230	Q8N0Y5	OR8I2_HUMAN	G	230	ENSP00000303864:A230G	ENSP00000303864:A230G	A	+	2	0	OR8I2	55618048	0.000000	0.05858	0.014000	0.15608	0.555000	0.35460	0.408000	0.21065	0.934000	0.37316	0.440000	0.28878	GCA		0.468	OR8I2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001003750		G	55861472	C	G	55861472	3	3	605	1	0	0	0	0	1	0	0	0	11247	710	25	4	691	4	OR8I2	11	55861472	Missense_Mutation	SNP	C	TCGA-HE-7129-01A-11D-1961-08	54762804	55861472	79145044	34	36466										
TNKS1BP1	85456	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr11	57076186	57076186	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	cccactccacatccccgtagCccctgagaacctccagagtc	6	20	0	2			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr11:57076186C>T	ENST00000532437.1	-	5	4310	c.3999G>A	c.(3997-3999)ggG>ggA	p.G1333G	TNKS1BP1_ENST00000530920.1_5'Flank|TNKS1BP1_ENST00000358252.3_Silent_p.G1333G			Q9C0C2	TB182_HUMAN	tankyrase 1 binding protein 1, 182kDa	1333	Acidic.|Gly-rich.				gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|RNA metabolic process (GO:0016070)|telomere maintenance via telomerase (GO:0007004)	CCR4-NOT complex (GO:0030014)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|nuclear telomeric heterochromatin (GO:0005724)|nucleus (GO:0005634)	ankyrin binding (GO:0030506)|enzyme binding (GO:0019899)			breast(3)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(11)|lung(24)|ovary(3)|prostate(3)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	64		all_epithelial(135;0.21)				ATCCCCGTAGCCCCTGAGAAC	0.607																																																0													134	146	142					11																	57076186		2201	4296	6497	SO:0001819	synonymous_variant	85456			AB051528	CCDS7951.1	11q12.2	2008-07-21			ENSG00000149115	ENSG00000149115			19081	protein-coding gene	gene with protein product		607104				11854288	Standard	NM_033396		Approved	TAB182, KIAA1741, FLJ45975	uc001njs.3	Q9C0C2	OTTHUMG00000167022	ENST00000532437.1:c.3999G>A	11.37:g.57076186C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7E2F8|Q6PJ35|Q6ZV74	Silent	SNP	ENST00000532437.1	37	CCDS7951.1																																																																																				0.607	TNKS1BP1-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392455.1	NM_033396		T	57076186	C	T	57076186	2	4	605	1	0	0	0	0	0	0	0	1	16332	726	26	2		2	TNKS1BP1	11	57076186	Silent	SNP	C	TCGA-HE-7129-01A-11D-1961-08	1214714	57076186	77930330	35	36467										
SLC3A2	6520	ucsc.edu	37	chr11	62648666	62648666	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gaggcggaggcggcagccgcGgctaagttcacgggcctgtc	18	12	1	0			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr11:62648666G>A	ENST00000377890.2	+	4	642	c.474G>A	c.(472-474)gcG>gcA	p.A158A	SLC3A2_ENST00000536981.1_5'Flank|SLC3A2_ENST00000377889.2_Silent_p.A96A|SLC3A2_ENST00000338663.7_Silent_p.A57A|SLC3A2_ENST00000377892.1_Silent_p.A189A|SLC3A2_ENST00000535296.1_Silent_p.A127A|SLC3A2_ENST00000377891.2_Silent_p.A159A	NM_002394.5	NP_002385.3	P08195	4F2_HUMAN	solute carrier family 3 (amino acid transporter heavy chain), member 2	158				A -> P (in Ref. 3; AAA51540). {ECO:0000305}.	amino acid transport (GO:0006865)|blood coagulation (GO:0007596)|calcium ion transport (GO:0006816)|carbohydrate metabolic process (GO:0005975)|cell growth (GO:0016049)|ion transport (GO:0006811)|leucine import (GO:0060356)|leukocyte migration (GO:0050900)|response to exogenous dsRNA (GO:0043330)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)|tryptophan transport (GO:0015827)	cell junction (GO:0030054)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium:sodium antiporter activity (GO:0005432)|catalytic activity (GO:0003824)|cation binding (GO:0043169)|double-stranded RNA binding (GO:0003725)|neutral amino acid transmembrane transporter activity (GO:0015175)|poly(A) RNA binding (GO:0044822)			endometrium(1)|kidney(3)|large_intestine(2)|lung(12)|ovary(1)|prostate(1)|skin(2)	22						CGGCAGCCGCGGCTAAGTTCA	0.677											OREG0021031	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													15	19	18					11																	62648666		2193	4292	6485	SO:0001819	synonymous_variant	6520				CCDS8039.2, CCDS31588.1, CCDS31589.1, CCDS31590.1	11q12-q22	2013-07-19	2013-07-19		ENSG00000168003	ENSG00000168003		"Solute carriers"	11026	protein-coding gene	gene with protein product	"antigen identified by monoclonal antibodies 4F2, TRA1.10, TROP4, and T43", "antigen defined by monoclonal antibody 4F2", "heavy chain", "4F2 heavy chain", "CD98 heavy chain", "monoclonal antibody 44D7", "4F2 cell-surface antigen heavy chain", "lymphocyte activation antigen 4F2 large subunit"	158070	"solute carrier family 3 (activators of dibasic and neutral amino acid transport), member 2"	MDU1		3036867	Standard	NM_001012662		Approved	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC	uc001nwd.3	P08195	OTTHUMG00000074091	ENST00000377890.2:c.474G>A	11.37:g.62648666G>A		Somatic	1062	WXS	Illumina HiSeq		Q13543	Silent	SNP	ENST00000377890.2	37	CCDS8039.2	.	.	.	.	.	.	.	.	.	.	G	0.757	-0.770850	0.02974	.	.	ENSG00000168003	ENST00000538084	.	.	.	4.22	-1.89	0.07689	.	.	.	.	.	T	0.43166	0.1235	.	.	.	0.41309	D	0.987096	.	.	.	.	.	.	T	0.29274	-1.0017	4	.	.	.	-2.3345	4.2588	0.10730	0.0792:0.3374:0.3594:0.224	.	.	.	.	Q	129	.	.	R	+	2	0	SLC3A2	62405242	0.017000	0.18338	0.015000	0.15790	0.058000	0.15608	-0.108000	0.10857	-0.509000	0.06532	-1.268000	0.01426	CGG		0.677	SLC3A2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000157306.1	NM_001012661		A	62648666	G	A	62648666	2	1	605	1	0	0	0	0	0	0	0	1	14640	1103	39	1		1	SLC3A2	11	62648666	Silent	SNP	G	TCGA-HE-7129-01A-11D-1961-08	5572480	62648666	72357850	36	36468										
DSCAML1	57453	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr11	117375681	117375681	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	cttgggtggggggtagccgtCcaccgagcagttgagcacac	16	11	0	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr11:117375681C>T	ENST00000321322.6	-	10	2321	c.2320G>A	c.(2320-2322)Gac>Aac	p.D774N	DSCAML1_ENST00000527706.1_Missense_Mutation_p.D504N	NM_020693.2	NP_065744.2	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	714	Ig-like C2-type 8.				axonogenesis (GO:0007409)|brain development (GO:0007420)|cell fate determination (GO:0001709)|central nervous system development (GO:0007417)|dendrite self-avoidance (GO:0070593)|dorsal/ventral pattern formation (GO:0009953)|embryonic skeletal system morphogenesis (GO:0048704)|homophilic cell adhesion (GO:0007156)|negative regulation of cell adhesion (GO:0007162)	cell surface (GO:0009986)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	protein homodimerization activity (GO:0042803)			breast(3)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|large_intestine(24)|lung(49)|ovary(6)|pancreas(1)|prostate(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	110	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)		GGGTAGCCGTCCACCGAGCAG	0.602																																																0													88	77	81					11																	117375681		2201	4296	6497	SO:0001583	missense	57453				CCDS8384.1	11q22.2-q22.3	2013-02-11			ENSG00000177103	ENSG00000177103		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	14656	protein-coding gene	gene with protein product		611782				11453658	Standard	NM_020693		Approved	KIAA1132	uc001prh.1	Q8TD84	OTTHUMG00000167071	ENST00000321322.6:c.2320G>A	11.37:g.117375681C>T	ENSP00000315465:p.Asp774Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q76MU9|Q8IZY3|Q8IZY4|Q8WXU7|Q9ULT7	Missense_Mutation	SNP	ENST00000321322.6	37	CCDS8384.1	.	.	.	.	.	.	.	.	.	.	C	19.37	3.813851	0.70912	.	.	ENSG00000177103	ENST00000527706;ENST00000321322;ENST00000446508	T;T	0.66995	-0.24;-0.24	4.32	4.32	0.51571	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.54727	0.1876	N	0.21097	0.63	0.58432	D	0.999999	B	0.18013	0.025	B	0.21360	0.034	T	0.52358	-0.8586	9	0.38643	T	0.18	.	16.5931	0.84781	0.0:1.0:0.0:0.0	.	714	Q8TD84	DSCL1_HUMAN	N	504;774;481	ENSP00000434335:D504N;ENSP00000315465:D774N	ENSP00000315465:D774N	D	-	1	0	DSCAML1	116880891	1.000000	0.71417	0.939000	0.37840	0.852000	0.48524	7.559000	0.82265	2.222000	0.72286	0.313000	0.20887	GAC		0.602	DSCAML1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392907.2	NM_020693		T	117375681	C	T	117375681	3	4	605	1	0	0	0	0	1	0	0	0	4771	855	30	2	4117	2	DSCAML1	11	117375681	Missense_Mutation	SNP	C	TCGA-HE-7129-01A-11D-1961-08	54727015	117375681	17630835	37	36469										
LIMA1	51474	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr12	50571511	50571511	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	ccaaggcacttcctgaacttCcaagttcagtggggggtggc	13	11	1	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr12:50571511C>G	ENST00000341247.4	-	11	1765	c.1616G>C	c.(1615-1617)gGa>gCa	p.G539A	LIMA1_ENST00000552783.1_Missense_Mutation_p.G380A|LIMA1_ENST00000394943.3_Missense_Mutation_p.G540A|LIMA1_ENST00000552823.1_Missense_Mutation_p.G379A|LIMA1_ENST00000547825.1_Missense_Mutation_p.G237A|LIMA1_ENST00000552909.1_Missense_Mutation_p.G378A|LIMA1_ENST00000552491.1_Missense_Mutation_p.G236A	NM_001113546.1|NM_016357.4	NP_001107018.1|NP_057441.1	Q9UHB6	LIMA1_HUMAN	LIM domain and actin binding 1	539					actin filament bundle assembly (GO:0051017)|negative regulation of actin filament depolymerization (GO:0030835)|ruffle organization (GO:0031529)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|plasma membrane (GO:0005886)|stress fiber (GO:0001725)	actin filament binding (GO:0051015)|actin monomer binding (GO:0003785)|zinc ion binding (GO:0008270)			NS(1)|breast(4)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|lung(17)|ovary(1)|prostate(2)|skin(2)	44						TCCTGAACTTCCAAGTTCAGT	0.532																																																0													113	118	116					12																	50571511		2203	4300	6503	SO:0001583	missense	51474			AF198454	CCDS8802.1, CCDS44877.1, CCDS55826.1, CCDS58230.1	12q13.12	2006-04-12				ENSG00000050405			24636	protein-coding gene	gene with protein product	"epithelial protein lost in neoplasm beta"	608364				10806352, 10618726, 12566430	Standard	NM_016357		Approved	EPLIN	uc001rwk.4	Q9UHB6		ENST00000341247.4:c.1616G>C	12.37:g.50571511C>G	ENSP00000340184:p.Gly539Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RB09|Q2TAN7|Q59FE8|Q9BVF2|Q9H8J1|Q9HBN5|Q9NX96|Q9NXC3|Q9NXU6|Q9P0H8|Q9UHB5	Missense_Mutation	SNP	ENST00000341247.4	37	CCDS8802.1	.	.	.	.	.	.	.	.	.	.	C	17.76	3.467708	0.63625	.	.	ENSG00000050405	ENST00000552491;ENST00000547825;ENST00000552823;ENST00000394943;ENST00000341247;ENST00000552783;ENST00000552909;ENST00000420992	T;T;T;D;T;T;T	0.84800	-1.15;-1.15;-1.49;-1.9;-1.16;-1.49;-1.49	5.73	4.83	0.62350	.	0.635701	0.18245	N	0.147130	D	0.82779	0.5111	L	0.44542	1.39	0.30474	N	0.773064	B;B;P	0.38129	0.072;0.293;0.619	B;B;B	0.39339	0.067;0.078;0.297	T	0.81895	-0.0723	10	0.49607	T	0.09	.	17.0525	0.86523	0.0:0.8729:0.1271:0.0	.	549;539;378	Q59FE8;Q9UHB6;F8VQE1	.;LIMA1_HUMAN;.	A	236;237;379;540;539;380;378;458	ENSP00000448463:G236A;ENSP00000448706:G237A;ENSP00000450266:G379A;ENSP00000378400:G540A;ENSP00000340184:G539A;ENSP00000448779:G380A;ENSP00000450087:G378A	ENSP00000340184:G539A	G	-	2	0	LIMA1	48857778	0.928000	0.31464	0.969000	0.41365	0.973000	0.67179	4.892000	0.63193	1.530000	0.49136	0.655000	0.94253	GGA		0.532	LIMA1-003	KNOWN	NAGNAG_splice_site|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000406235.2	NM_016357		G	50571511	C	G	50571511	3	3	605	1	0	0	0	0	1	0	0	0	8803	855	30	4	667	4	LIMA1	12	50571511	Missense_Mutation	SNP	C	TCGA-HE-7129-01A-11D-1961-08		50571511	83280384	38	36470										
LAMP1	3916	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr13	113964011	113964011	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gtggtgctcaaccgcagctcCtgtggaaaagagaacacttc	11	11	1	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr13:113964011C>T	ENST00000332556.4	+	3	431	c.237C>T	c.(235-237)tcC>tcT	p.S79S	LAMP1_ENST00000397181.3_Silent_p.S79S	NM_005561.3	NP_005552.3	P11279	LAMP1_HUMAN	lysosomal-associated membrane protein 1	79	First lumenal domain.				autophagic cell death (GO:0048102)|autophagy (GO:0006914)|establishment of protein localization to organelle (GO:0072594)|Golgi to lysosome transport (GO:0090160)|granzyme-mediated apoptotic signaling pathway (GO:0008626)|positive regulation of natural killer cell degranulation (GO:0043323)|positive regulation of natural killer cell mediated cytotoxicity (GO:0045954)|protein stabilization (GO:0050821)|regulation of organelle transport along microtubule (GO:1902513)	alveolar lamellar body (GO:0097208)|cytolytic granule (GO:0044194)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|lysosome (GO:0005764)|melanosome (GO:0042470)|membrane (GO:0016020)|multivesicular body (GO:0005771)|neuronal cell body (GO:0043025)|phagolysosome membrane (GO:0061474)|sarcolemma (GO:0042383)	enzyme binding (GO:0019899)			NS(1)|central_nervous_system(2)|endometrium(3)|large_intestine(4)|lung(2)|prostate(1)|skin(1)|stomach(2)	16	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)			ACCGCAGCTCCTGTGGAAAAG	0.448																																																0													110	114	113					13																	113964011		1968	4157	6125	SO:0001819	synonymous_variant	3916			J03263	CCDS41909.1	13q34	2011-11-24			ENSG00000185896	ENSG00000185896		"CD molecules"	6499	protein-coding gene	gene with protein product		153330					Standard	NM_005561		Approved	CD107a	uc001vtm.1	P11279	OTTHUMG00000017380	ENST00000332556.4:c.237C>T	13.37:g.113964011C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DWL3|Q8WU33|Q96I40|Q9BRD2|Q9NP13	Silent	SNP	ENST00000332556.4	37	CCDS41909.1																																																																																				0.448	LAMP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045876.2			T	113964011	C	T	113964011	2	4	605	1	0	0	0	0	0	0	0	1	8624	668	24	2		2	LAMP1	13	113964011	Silent	SNP	C	TCGA-HE-7129-01A-11D-1961-08		113964011	1205867	39	36471										
BAZ1A	11177	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr14	35242930	35242930	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	ctccagatatgtcgatctgtAacctgtaacaaaattcaaac	5	10	2	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr14:35242930A>G	ENST00000382422.2	-	19	3327	c.3000T>C	c.(2998-3000)gtT>gtC	p.V1000V	BAZ1A_ENST00000360310.1_Silent_p.V1000V|BAZ1A_ENST00000358716.4_Silent_p.V968V			Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1000					chromatin remodeling (GO:0006338)|DNA-dependent DNA replication (GO:0006261)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	ACF complex (GO:0016590)|CHRAC (GO:0008623)|nuclear chromosome (GO:0000228)	zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(2)|cervix(2)|endometrium(6)|kidney(2)|large_intestine(7)|lung(19)|ovary(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	48	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)		GTCGATCTGTAACCTGTAACA	0.323																																																0													87	78	81					14																	35242930		2203	4300	6503	SO:0001819	synonymous_variant	11177			AB032252	CCDS9651.1, CCDS41943.1	14q13.2	2013-01-28			ENSG00000198604	ENSG00000198604		"Zinc fingers, PHD-type"	960	protein-coding gene	gene with protein product		605680				10662543	Standard	NM_013448		Approved	hACF1, ACF1, WALp1, WCRF180	uc001wsk.3	Q9NRL2	OTTHUMG00000140216	ENST00000382422.2:c.3000T>C	14.37:g.35242930A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NZ15|Q9P065|Q9UIG1|Q9Y3V3	Silent	SNP	ENST00000382422.2	37	CCDS9651.1																																																																																				0.323	BAZ1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276646.1			G	35242930	A	G	35242930	2	3	605	1	0	0	0	0	0	0	0	1	1329	349	13	3		3	BAZ1A	14	35242930	Silent	SNP	A	TCGA-HE-7129-01A-11D-1961-08		35242930	72106610	40	36472										
ARID4A	5926	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	58827698	58827698	+	Frame_Shift_Del	DEL	C	C	-													0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gggacgacctcctttaaaatCaaccctctcatcaaacatgc							TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr14:58827698delC	ENST00000355431.3	+	19	2391	c.2018delC	c.(2017-2019)tcafs	p.S673fs	ARID4A_ENST00000395168.3_Frame_Shift_Del_p.S673fs|ARID4A_ENST00000431317.2_Frame_Shift_Del_p.S673fs|ARID4A_ENST00000348476.3_Frame_Shift_Del_p.S673fs	NM_002892.3	NP_002883.3	P29374	ARI4A_HUMAN	AT rich interactive domain 4A (RBP1-like)	673					erythrocyte development (GO:0048821)|histone H3-K4 trimethylation (GO:0080182)|histone H3-K9 trimethylation (GO:0036124)|histone H4-K20 trimethylation (GO:0034773)|negative regulation of transcription, DNA-templated (GO:0045892)|regulation of gene expression by genetic imprinting (GO:0006349)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(2)|central_nervous_system(1)|cervix(4)|endometrium(8)|kidney(2)|large_intestine(14)|lung(19)|ovary(3)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	60						CCTTTAAAATCAACCCTCTCA	0.433																																																0													169	155	159					14																	58827698		2203	4300	6503	SO:0001589	frameshift_variant	5926			S57153	CCDS9732.1, CCDS9733.1, CCDS45114.1	14q22.3	2013-02-07	2004-01-28	2004-01-28	ENSG00000032219	ENSG00000032219		"-"	9885	protein-coding gene	gene with protein product		180201	"retinoblastoma-binding protein 1"	RBBP1		1857421, 8455946	Standard	NM_023000		Approved	RBP1, RBP-1	uc001xdp.3	P29374	OTTHUMG00000140320	ENST00000355431.3:c.2018delC	14.37:g.58827698delC	ENSP00000347602:p.Ser673fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q15991|Q15992|Q15993	Nonsense_Mutation	DEL	ENST00000355431.3	37	CCDS9732.1																																																																																				0.433	ARID4A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276927.2	NM_023001		-	58827698	C	-	58827698	7	5	605	1	0	1	0	1	0	0	0	0	919	838	29	0	2088	0	ARID4A	14	58827698	Frame_Shift_Del	DEL	C	TCGA-HE-7129-01A-11D-1961-08	23584768	58827698	48521842	41	36473										
ESR2	2100	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr14	64746749	64746749	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	atccttcacacgaccagactCcatagtgatatcccgatgcg	7	14	1	2			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr14:64746749C>G	ENST00000341099.4	-	3	902	c.485G>C	c.(484-486)gGa>gCa	p.G162A	ESR2_ENST00000353772.3_Missense_Mutation_p.G162A|ESR2_ENST00000555483.1_Intron|ESR2_ENST00000542956.1_Missense_Mutation_p.G162A|ESR2_ENST00000554572.1_Missense_Mutation_p.G162A|ESR2_ENST00000267525.6_Missense_Mutation_p.G162A|ESR2_ENST00000358599.5_Missense_Mutation_p.G162A|ESR2_ENST00000557772.1_Missense_Mutation_p.G162A|ESR2_ENST00000553796.1_Missense_Mutation_p.G162A|ESR2_ENST00000357782.2_Missense_Mutation_p.G162A|ESR2_ENST00000555278.1_Missense_Mutation_p.G162A	NM_001437.2	NP_001428.1	Q92731	ESR2_HUMAN	estrogen receptor 2 (ER beta)	162					brain development (GO:0007420)|cell-cell signaling (GO:0007267)|epithelial cell maturation involved in prostate gland development (GO:0060743)|extracellular negative regulation of signal transduction (GO:1900116)|gene expression (GO:0010467)|hormone-mediated apoptotic signaling pathway (GO:0008628)|intracellular estrogen receptor signaling pathway (GO:0030520)|negative regulation of androgen receptor signaling pathway (GO:0060766)|negative regulation of cell growth (GO:0030308)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron migration (GO:0001764)|ovarian follicle development (GO:0001541)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|prostate gland epithelium morphogenesis (GO:0060740)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)|transcription initiation from RNA polymerase II promoter (GO:0006367)|uterus development (GO:0060065)|vagina development (GO:0060068)	extracellular region (GO:0005576)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	core promoter sequence-specific DNA binding (GO:0001046)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|estrogen receptor activity (GO:0030284)|estrogen response element binding (GO:0034056)|ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|receptor antagonist activity (GO:0048019)|sequence-specific DNA binding transcription factor activity (GO:0003700)|steroid binding (GO:0005496)|steroid hormone receptor activity (GO:0003707)|transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)			central_nervous_system(2)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(5)|ovary(1)|prostate(1)|skin(3)|stomach(1)|urinary_tract(1)	23				all cancers(60;0.00916)|OV - Ovarian serous cystadenocarcinoma(108;0.0111)|BRCA - Breast invasive adenocarcinoma(234;0.0437)	Diethylstilbestrol(DB00255)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estropipate(DB04574)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Trilostane(DB01108)	CGACCAGACTCCATAGTGATA	0.453																																																0													236	229	232					14																	64746749		2203	4300	6503	SO:0001583	missense	2100			X99101	CCDS9762.1, CCDS32096.1, CCDS55920.1, CCDS61469.1, CCDS61470.1	14q21-q22	2013-01-16			ENSG00000140009	ENSG00000140009		"Nuclear hormone receptors"	3468	protein-coding gene	gene with protein product		601663				8769313	Standard	NM_001214902		Approved	NR3A2, Erb	uc001xha.1	Q92731	OTTHUMG00000141306	ENST00000341099.4:c.485G>C	14.37:g.64746749C>G	ENSP00000343925:p.Gly162Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8K5|G3V5M5|O60608|O60685|O60702|O60703|O75583|O75584|Q0MWT5|Q0MWT6|Q86Z31|Q9UEV6|Q9UHD3|Q9UQK9	Missense_Mutation	SNP	ENST00000341099.4	37	CCDS9762.1	.	.	.	.	.	.	.	.	.	.	C	32	5.148027	0.94603	.	.	ENSG00000140009	ENST00000556275;ENST00000542956;ENST00000554572;ENST00000353772;ENST00000358599;ENST00000555278;ENST00000553796;ENST00000357782;ENST00000557772;ENST00000341099;ENST00000267525	D;D;D;D;D;D;D;D;D;D;D	0.97575	-4.44;-4.44;-4.44;-4.44;-4.44;-4.44;-4.44;-4.44;-4.44;-4.44;-4.44	5.56	5.56	0.83823	Zinc finger, NHR/GATA-type (1);Zinc finger, nuclear hormone receptor-type (5);	0.000000	0.85682	D	0.000000	D	0.99312	0.9759	H	0.99425	4.56	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.97110	1.0;1.0;1.0;1.0;1.0	D	0.98376	1.0556	10	0.87932	D	0	.	19.5206	0.95183	0.0:1.0:0.0:0.0	.	162;162;162;162;162	Q92731-7;Q92731;Q92731-6;Q92731-5;F1D8N3	.;ESR2_HUMAN;.;.;.	A	162	ENSP00000452485:G162A;ENSP00000441792:G162A;ENSP00000450699:G162A;ENSP00000335551:G162A;ENSP00000351412:G162A;ENSP00000450488:G162A;ENSP00000452426:G162A;ENSP00000350427:G162A;ENSP00000451582:G162A;ENSP00000343925:G162A;ENSP00000267525:G162A	ENSP00000267525:G162A	G	-	2	0	ESR2	63816502	1.000000	0.71417	1.000000	0.80357	0.948000	0.59901	7.647000	0.83462	2.623000	0.88846	0.557000	0.71058	GGA		0.453	ESR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280621.1			G	64746749	C	G	64746749	3	3	605	1	0	0	0	0	1	0	0	0	5259	855	30	4	1221	4	ESR2	14	64746749	Missense_Mutation	SNP	C	TCGA-HE-7129-01A-11D-1961-08	5919051	64746749	42602791	42	36474										
HERC1	8925	ucsc.edu	37	chr15	63901303	63901303	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gtagtcagtgtcggagccctCggcgttgtccacgtttctcg	13	12	2	0			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr15:63901303C>T	ENST00000443617.2	-	78	14650	c.14563G>A	c.(14563-14565)Gag>Aag	p.E4855K		NM_003922.3	NP_003913.3	Q15751	HERC1_HUMAN	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	4855					cerebellar Purkinje cell differentiation (GO:0021702)|negative regulation of autophagy (GO:0010507)|neuromuscular process controlling balance (GO:0050885)|neuron projection development (GO:0031175)|positive regulation of GTPase activity (GO:0043547)|transport (GO:0006810)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			NS(3)|breast(9)|central_nervous_system(4)|endometrium(23)|haematopoietic_and_lymphoid_tissue(1)|kidney(12)|large_intestine(22)|liver(1)|lung(36)|ovary(7)|prostate(4)|skin(3)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	132						TCGGAGCCCTCGGCGTTGTCC	0.537																																																0													71	79	76					15																	63901303		2131	4230	6361	SO:0001583	missense	8925			U50078	CCDS45277.1	15q22	2013-01-10	2012-02-23			ENSG00000103657		"WD repeat domain containing"	4867	protein-coding gene	gene with protein product		605109	"hect (homologous to the E6-AP (UBE3A) carboxyl terminus) domain and RCC1 (CHC1)-like domain (RLD) 1"			8861955, 9233772	Standard	NM_003922		Approved	p532, p619	uc002amp.3	Q15751		ENST00000443617.2:c.14563G>A	15.37:g.63901303C>T	ENSP00000390158:p.Glu4855Lys	Somatic		WXS	Illumina HiSeq		Q8IW65	Missense_Mutation	SNP	ENST00000443617.2	37	CCDS45277.1	.	.	.	.	.	.	.	.	.	.	C	36	5.744559	0.96882	.	.	ENSG00000103657	ENST00000443617	T	0.25250	1.81	5.42	5.42	0.78866	.	0.073125	0.51477	U	0.000085	T	0.12817	0.0311	N	0.08118	0	0.80722	D	1	P	0.44006	0.824	B	0.27500	0.08	T	0.09422	-1.0675	10	0.46703	T	0.11	.	19.2521	0.93929	0.0:1.0:0.0:0.0	.	4855	Q15751	HERC1_HUMAN	K	4855	ENSP00000390158:E4855K	ENSP00000390158:E4855K	E	-	1	0	HERC1	61688356	1.000000	0.71417	0.989000	0.46669	0.993000	0.82548	7.703000	0.84585	2.542000	0.85734	0.655000	0.94253	GAG		0.537	HERC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418523.1	NM_003922		T	63901303	C	T	63901303	3	4	605	1	0	0	0	0	1	0	0	0	7064	893	31	1	26	1	HERC1	15	63901303	Missense_Mutation	SNP	C	TCGA-HE-7129-01A-11D-1961-08		63901303	38630089	43	36475										
CP110	9738	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr16	19548870	19548870	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gataccctaagggatctggcTtcgttaacaagaataaaatg	9	7	1	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr16:19548870T>A	ENST00000381396.5	+	4	2126	c.1879T>A	c.(1879-1881)Ttc>Atc	p.F627I	CCP110_ENST00000396208.2_Missense_Mutation_p.F627I|CCP110_ENST00000396212.2_Missense_Mutation_p.F627I	NM_001199022.1	NP_001185951	O43303	CP110_HUMAN	centriolar coiled coil protein 110kDa	627					cell projection organization (GO:0030030)|centriole replication (GO:0007099)|centrosome duplication (GO:0051298)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|regulation of cytokinesis (GO:0032465)	centriole (GO:0005814)|centrosome (GO:0005813)|cytosol (GO:0005829)|protein complex (GO:0043234)				breast(2)|endometrium(2)|kidney(2)|large_intestine(3)|lung(8)|stomach(3)|urinary_tract(1)	21						GGGATCTGGCTTCGTTAACAA	0.348																																																0													40	42	42					16																	19548870		2197	4300	6497	SO:0001583	missense	9738			AB007879	CCDS10579.1, CCDS55992.1	16p12.3	2014-02-20	2011-05-27		ENSG00000103540	ENSG00000103540			24342	protein-coding gene	gene with protein product		609544				9455477, 12361598, 16760425	Standard	NM_014711		Approved	KIAA0419, CP110	uc002dgl.4	O43303	OTTHUMG00000131459	ENST00000381396.5:c.1879T>A	16.37:g.19548870T>A	ENSP00000370803:p.Phe627Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B7WP23|O43335|Q68DV9|Q8NE13	Missense_Mutation	SNP	ENST00000381396.5	37	CCDS55992.1	.	.	.	.	.	.	.	.	.	.	T	12.32	1.901950	0.33535	.	.	ENSG00000103540	ENST00000396212;ENST00000381396;ENST00000396208	T;T;T	0.13307	2.6;2.6;2.6	5.39	1.56	0.23342	.	0.876000	0.09983	N	0.730791	T	0.05318	0.0141	N	0.03608	-0.345	0.22213	N	0.999282	B;B	0.06786	0.001;0.001	B;B	0.04013	0.001;0.001	T	0.39251	-0.9623	10	0.37606	T	0.19	-0.0461	3.164	0.06529	0.1377:0.0766:0.1437:0.642	.	627;627	O43303;O43303-2	CP110_HUMAN;.	I	627	ENSP00000379515:F627I;ENSP00000370803:F627I;ENSP00000379511:F627I	ENSP00000370803:F627I	F	+	1	0	CCP110	19456371	0.389000	0.25205	0.861000	0.33841	0.927000	0.56198	0.910000	0.28571	0.291000	0.22468	0.460000	0.39030	TTC		0.348	CCP110-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254284.2	NM_014711		A	19548870	T	A	19548870	3	1	605	1	0	0	0	0	1	0	0	0	3790	1609	56	5	1889	5	CP110	16	19548870	Missense_Mutation	SNP	T	TCGA-HE-7129-01A-11D-1961-08		19548870	70805883	44	36476										
TNRC6A	27327	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr16	24826534	24826534	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	ctatgactttatgaacagcaGtacttcaccagccagtcctc	6	13	1	2			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr16:24826534G>A	ENST00000395799.3	+	19	4868	c.4739G>A	c.(4738-4740)aGt>aAt	p.S1580N	TNRC6A_ENST00000432286.2_Missense_Mutation_p.S58N|TNRC6A_ENST00000315183.7_Missense_Mutation_p.S1531N|CTD-2515A14.1_ENST00000568895.1_RNA	NM_014494.2	NP_055309.2	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1580					cellular response to starvation (GO:0009267)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|innate immune response (GO:0045087)|negative regulation of translation involved in gene silencing by miRNA (GO:0035278)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch signaling pathway (GO:0007219)|phosphatidylinositol-mediated signaling (GO:0048015)	cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|micro-ribonucleoprotein complex (GO:0035068)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|cervix(1)|endometrium(13)|kidney(5)|large_intestine(13)|liver(1)|lung(20)|ovary(3)|skin(2)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	64				GBM - Glioblastoma multiforme(48;0.0394)		ATGAACAGCAGTACTTCACCA	0.458																																																0													89	87	88					16																	24826534		2197	4300	6497	SO:0001583	missense	27327			U80739	CCDS10624.2	16p11.2	2009-09-22	2004-12-17	2004-12-17	ENSG00000090905	ENSG00000090905		"Trinucleotide (CAG) repeat containing"	11969	protein-coding gene	gene with protein product		610739	"trinucleotide repeat containing 6"	TNRC6		9225980	Standard	NM_014494		Approved	CAGH26, KIAA1460, GW182	uc002dmm.3	Q8NDV7	OTTHUMG00000096999	ENST00000395799.3:c.4739G>A	16.37:g.24826534G>A	ENSP00000379144:p.Ser1580Asn	Somatic		WXS	Illumina HiSeq	Phase_I	C9JAR8|O15408|Q658L5|Q6NVB5|Q8NEZ0|Q8TBT8|Q8TCR0|Q9NV59|Q9P268	Missense_Mutation	SNP	ENST00000395799.3	37	CCDS10624.2	.	.	.	.	.	.	.	.	.	.	G	24.7	4.561278	0.86335	.	.	ENSG00000090905	ENST00000315183;ENST00000395799;ENST00000432286	T;T	0.14022	2.58;2.54	5.92	5.92	0.95590	.	0.042755	0.85682	D	0.000000	T	0.29458	0.0734	L	0.59436	1.845	0.58432	D	0.999998	P;B;B;D	0.63880	0.718;0.427;0.392;0.993	B;B;B;P	0.54629	0.366;0.254;0.315;0.757	T	0.00097	-1.2072	10	0.33141	T	0.24	-13.8994	20.3206	0.98668	0.0:0.0:1.0:0.0	.	247;719;1531;1580	B3KSX2;C9JA83;Q8NDV7-6;Q8NDV7	.;.;.;TNR6A_HUMAN	N	1531;1580;58	ENSP00000326900:S1531N;ENSP00000379144:S1580N	ENSP00000326900:S1531N	S	+	2	0	TNRC6A	24734035	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	8.423000	0.90264	2.809000	0.96659	0.655000	0.94253	AGT		0.458	TNRC6A-001	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000214081.1	NM_020847		A	24826534	G	A	24826534	3	1	605	1	0	0	0	0	1	0	0	0	16352	1029	36	2	4813	2	TNRC6A	16	24826534	Missense_Mutation	SNP	G	TCGA-HE-7129-01A-11D-1961-08	5277664	24826534	65528219	45	36477										
CNOT1	23019	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr16	58585134	58585134	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	aattctctcagtttgatctgTggccacaagcaacgtatcta	7	10	4	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr16:58585134T>C	ENST00000317147.5	-	24	3576	c.3244A>G	c.(3244-3246)Aca>Gca	p.T1082A	CNOT1_ENST00000569732.1_5'Flank|CNOT1_ENST00000441024.2_Missense_Mutation_p.T1082A|CNOT1_ENST00000569240.1_Missense_Mutation_p.T1077A|CNOT1_ENST00000245138.4_5'UTR|SNORA46_ENST00000384762.1_RNA	NM_001265612.1|NM_016284.4	NP_001252541.1|NP_057368.3	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	1082					gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|negative regulation of intracellular estrogen receptor signaling pathway (GO:0033147)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of cytoplasmic mRNA processing body assembly (GO:0010606)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|regulation of stem cell maintenance (GO:2000036)|regulation of translation (GO:0006417)|RNA metabolic process (GO:0016070)|RNA phosphodiester bond hydrolysis, exonucleolytic (GO:0090503)|transcription, DNA-templated (GO:0006351)|trophectodermal cell differentiation (GO:0001829)	CCR4-NOT complex (GO:0030014)|cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|extracellular space (GO:0005615)|membrane (GO:0016020)|nucleus (GO:0005634)|peroxisomal membrane (GO:0005778)	estrogen receptor binding (GO:0030331)|poly(A) RNA binding (GO:0044822)|retinoic acid receptor binding (GO:0042974)			breast(1)|central_nervous_system(2)|endometrium(9)|haematopoietic_and_lymphoid_tissue(4)|kidney(7)|large_intestine(24)|lung(25)|ovary(4)|prostate(6)|skin(3)|upper_aerodigestive_tract(2)	87				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		GTTTGATCTGTGGCCACAAGC	0.323																																																0													106	124	118					16																	58585134		2197	4300	6497	SO:0001583	missense	23019			AL833549	CCDS10799.1, CCDS45501.1, CCDS58468.1	16q21	2008-02-05			ENSG00000125107	ENSG00000125107			7877	protein-coding gene	gene with protein product		604917		NOT1		14702039	Standard	NM_016284		Approved	CDC39, NOT1H, KIAA1007, AD-005	uc002env.4	A5YKK6	OTTHUMG00000133487	ENST00000317147.5:c.3244A>G	16.37:g.58585134T>C	ENSP00000320949:p.Thr1082Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DX7|Q7Z3K2|Q8IWB8|Q8TB53|Q9BVZ6|Q9UFR8|Q9UI27|Q9Y2L0	Missense_Mutation	SNP	ENST00000317147.5	37	CCDS10799.1	.	.	.	.	.	.	.	.	.	.	T	25.7	4.669566	0.88348	.	.	ENSG00000125107	ENST00000317147;ENST00000422872;ENST00000394200;ENST00000441024	T;T	0.45668	0.93;0.89	5.39	5.39	0.77823	.	0.000000	0.85682	D	0.000000	T	0.51449	0.1675	L	0.37561	1.115	0.80722	D	1	D;P;P	0.56035	0.974;0.851;0.939	D;B;P	0.70487	0.969;0.253;0.625	T	0.39522	-0.9610	10	0.13470	T	0.59	.	15.4218	0.75018	0.0:0.0:0.0:1.0	.	1082;1082;1077	A5YKK6-4;A5YKK6;A5YKK6-2	.;CNOT1_HUMAN;.	A	1082;511;1077;1082	ENSP00000320949:T1082A;ENSP00000413113:T1082A	ENSP00000320949:T1082A	T	-	1	0	CNOT1	57142635	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	8.040000	0.89188	2.051000	0.60960	0.383000	0.25322	ACA		0.323	CNOT1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257385.3	NM_016284		C	58585134	T	C	58585134	3	2	605	1	0	0	0	0	1	0	0	0	3619	1696	59	3	4212	3	CNOT1	16	58585134	Missense_Mutation	SNP	T	TCGA-HE-7129-01A-11D-1961-08	33758600	58585134	31769619	46	36478										
FAM18B2	201158	ucsc.edu	37	chr17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	tgagcaactcacagagaagaCagacgatgattgcactgact	10	9	1	6			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr17:15457087C>T	ENST00000225576.3	-	3	247	c.152G>A	c.(151-153)tGt>tAt	p.C51Y	TVP23C_ENST00000438826.3_Missense_Mutation_p.C51Y|TVP23C_ENST00000428082.2_Missense_Mutation_p.C51Y|TVP23C-CDRT4_ENST00000522212.2_Missense_Mutation_p.C51Y|TVP23C_ENST00000518321.1_Missense_Mutation_p.C51Y|TVP23C_ENST00000584811.1_5'UTR|TVP23C_ENST00000519970.1_Intron	NM_145301.2	NP_660344.2	Q96ET8	TV23C_HUMAN	trans-golgi network vesicle protein 23 homolog C (S. cerevisiae)	51						integral component of membrane (GO:0016021)											ACAGAGAAGACAGACGATGAT	0.373																																																0													274	265	268					17																	15457087		2203	4300	6503	SO:0001583	missense	201158			BC011952	CCDS11170.1, CCDS45617.1	17p12	2012-11-29	2012-11-29	2012-11-29	ENSG00000175106	ENSG00000175106			30453	protein-coding gene	gene with protein product			"family with sequence similarity 18, member B2"	FAM18B2			Standard	NM_001135036		Approved	MGC8763	uc002goq.2	Q96ET8	OTTHUMG00000171461	ENST00000225576.3:c.152G>A	17.37:g.15457087C>T	ENSP00000225576:p.Cys51Tyr	Somatic		WXS	Illumina HiSeq		Q3LIC7	Missense_Mutation	SNP	ENST00000225576.3	37	CCDS11170.1	.	.	.	.	.	.	.	.	.	.	.	2.368	-0.344949	0.05208	.	.	ENSG00000259024;ENSG00000175106;ENSG00000175106;ENSG00000175106	ENST00000522212;ENST00000225576;ENST00000428082;ENST00000438826	T;T;T;T	0.25749	1.78;1.78;1.78;1.78	4.47	4.47	0.54385	.	0.000000	0.85682	N	0.000000	T	0.02571	0.0078	N	0.00004	-3.335	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.06405	0.0;0.0;0.002	T	0.38457	-0.9660	10	0.02654	T	1	-3.8701	9.492	0.38965	0.0:0.0877:0.0:0.9123	.	51;51;51	Q96ET8-2;Q96ET8-3;Q96ET8	.;.;F18B2_HUMAN	Y	51	ENSP00000429865:C51Y;ENSP00000225576:C51Y;ENSP00000406387:C51Y;ENSP00000413355:C51Y	ENSP00000225576:C51Y	C	-	2	0	RP11-726O12.1;FAM18B2	15397812	1.000000	0.71417	1.000000	0.80357	0.703000	0.40648	6.178000	0.71968	0.670000	0.31165	-0.442000	0.05670	TGT		0.373	TVP23C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000130705.2	NM_145301		T	15457087	C	T	15457087	3	4	605	1	0	0	0	0	1	0	0	0	5524	478	17	2	848	2	FAM18B2	17	15457087	Missense_Mutation	SNP	C	TCGA-HE-7129-01A-11D-1961-08		15457087	65738123	47	36479										
UBB	7314	broad.mit.edu	37	chr17	16285476	16285476	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	atcttcgtgaagaccctgacCggcaagaccatcaccctgga	9	14	2	4	rs370706400		TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr17:16285476C>G	ENST00000395837.1	+	2	436	c.255C>G	c.(253-255)acC>acG	p.T85T	UBB_ENST00000535788.1_Intron|UBB_ENST00000578649.1_Intron|UBB_ENST00000302182.3_Silent_p.T85T|RP11-138I1.4_ENST00000583934.1_RNA|UBB_ENST00000395839.1_Silent_p.T85T	NM_001281718.1|NM_001281720.1	NP_001268647.1|NP_001268649.1	P0CG47	UBB_HUMAN	ubiquitin B	85	Ubiquitin-like 2. {ECO:0000255|PROSITE- ProRule:PRU00214}.		GMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQ QRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFV KTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFA GKQLEDGRTLSDYNIQKESTLHLVLRLRGGC -> YADLRE DPDRQDHHPGSGAQ (in UBB(+1); loss of polyubiquitination; impairs the ubiquitin-proteasome pathway; refractory to disassembly by DUBs; slow degradation by UCHL3).		activation of MAPK activity (GO:0000187)|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|carbohydrate metabolic process (GO:0005975)|cellular response to hypoxia (GO:0071456)|cytokine-mediated signaling pathway (GO:0019221)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA repair (GO:0006281)|endosomal transport (GO:0016197)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|G1/S transition of mitotic cell cycle (GO:0000082)|G2/M transition of mitotic cell cycle (GO:0000086)|gene expression (GO:0010467)|glucose metabolic process (GO:0006006)|glycogen biosynthetic process (GO:0005978)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|innate immune response (GO:0045087)|intracellular transport of virus (GO:0075733)|ion transmembrane transport (GO:0034220)|JNK cascade (GO:0007254)|membrane organization (GO:0061024)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic process (GO:0043066)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|negative regulation of type I interferon production (GO:0032480)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch receptor processing (GO:0007220)|Notch signaling pathway (GO:0007219)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of apoptotic process (GO:0043065)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of type I interferon production (GO:0032481)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of type I interferon production (GO:0032479)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|stress-activated MAPK cascade (GO:0051403)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|transmembrane transport (GO:0055085)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral protein processing (GO:0019082)|virion assembly (GO:0019068)	cytosol (GO:0005829)|endocytic vesicle membrane (GO:0030666)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|plasma membrane (GO:0005886)				breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(2)|lung(3)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	16				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)		AGACCCTGACCGGCAAGACCA	0.552																																					Melanoma(163;1126 3406 34901)											0													69	69	69					17																	16285476		2203	4297	6500	SO:0001819	synonymous_variant	7314				CCDS11177.1	17p12-p11.2	2010-11-25			ENSG00000170315	ENSG00000170315			12463	protein-coding gene	gene with protein product	"polyubiquitin B"	191339				2154095	Standard	NM_018955		Approved	MGC8385, FLJ25987	uc002gpx.3	P0CG47	OTTHUMG00000058987	ENST00000395837.1:c.255C>G	17.37:g.16285476C>G		Somatic		WXS	Illumina HiSeq	Phase_I	P02248|P02249|P02250|P62988|Q29120|Q6LBL4|Q6LDU5|Q8WYN8|Q91887|Q91888|Q9BWD6|Q9BX98|Q9UEF2|Q9UEG1|Q9UEK8|Q9UPK7	Silent	SNP	ENST00000395837.1	37	CCDS11177.1																																																																																				0.552	UBB-002	NOVEL	alternative_5_UTR|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000130459.1	NM_018955		G	16285476	C	G	16285476	2	3	605	1	0	0	0	0	0	0	0	1	16853	639	23	4		4	UBB	17	16285476	Silent	SNP	C	TCGA-HE-7129-01A-11D-1961-08	828389	16285476	64909734	48	36480										
SLC6A4	6532	hgsc.bcm.edu	37	chr17	28525539	28525565	+	Splice_Site	DEL	TAATAATACGCTATTGGGAAGAAAATA	TAATAATACGCTATTGGGAAGAAAATA	-													0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	tgtttctggggtaatactttTaataatacgctattgggaag					rs202181933|rs201520429|rs200015551		TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	TAATAATACGCTATTGGGAAGAAAATA	TAATAATACGCTATTGGGAAGAAAATA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr17:28525539_28525565delTAATAATACGCTATTGGGAAGAAAATA	ENST00000401766.2	-	14	2331_2340	c.1819_1828delTATTTTCTTCCCAATAGCGTATTATTA	c.(1819-1830)tattttcttccc>cc	p.YFLP607del	SLC6A4_ENST00000261707.3_Splice_Site_p.YFLP607del			P31645	SC6A4_HUMAN	solute carrier family 6 (neurotransmitter transporter), member 4	607					brain morphogenesis (GO:0048854)|cellular response to cGMP (GO:0071321)|cellular response to retinoic acid (GO:0071300)|circadian rhythm (GO:0007623)|memory (GO:0007613)|monoamine transport (GO:0015844)|negative regulation of cerebellar granule cell precursor proliferation (GO:0021941)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of organ growth (GO:0046621)|negative regulation of synaptic transmission, dopaminergic (GO:0032227)|positive regulation of cell cycle (GO:0045787)|positive regulation of gene expression (GO:0010628)|protein homooligomerization (GO:0051260)|protein oligomerization (GO:0051259)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to hypoxia (GO:0001666)|response to nutrient (GO:0007584)|response to toxic substance (GO:0009636)|serotonin transport (GO:0006837)|serotonin uptake (GO:0051610)|social behavior (GO:0035176)|sperm ejaculation (GO:0042713)|thalamus development (GO:0021794)|vasoconstriction (GO:0042310)	cytosol (GO:0005829)|endomembrane system (GO:0012505)|endosome (GO:0005768)|integral component of plasma membrane (GO:0005887)|membrane raft (GO:0045121)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)	actin filament binding (GO:0051015)|cocaine binding (GO:0019811)|monoamine transmembrane transporter activity (GO:0008504)|Rab GTPase binding (GO:0017137)|serotonin transmembrane transporter activity (GO:0015222)|serotonin:sodium symporter activity (GO:0005335)			breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(8)|ovary(1)|prostate(1)|skin(4)	25					Amitriptyline(DB00321)|Amoxapine(DB00543)|Amphetamine(DB00182)|Atomoxetine(DB00289)|Chlorphenamine(DB01114)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Desvenlafaxine(DB06700)|Dexfenfluramine(DB01191)|Dexmethylphenidate(DB06701)|Dextromethorphan(DB00514)|Dopamine(DB00988)|Doxepin(DB01142)|Duloxetine(DB00476)|Ephedra(DB01363)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Levomilnacipran(DB08918)|Loxapine(DB00408)|Mazindol(DB00579)|Methamphetamine(DB01577)|Methylphenidate(DB00422)|Mianserin(DB06148)|Milnacipran(DB04896)|Minaprine(DB00805)|Mirtazapine(DB00370)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Pethidine(DB00454)|Phentermine(DB00191)|Protriptyline(DB00344)|Pseudoephedrine(DB00852)|Sertraline(DB01104)|Sibutramine(DB01105)|Tapentadol(DB06204)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Verapamil(DB00661)|Vilazodone(DB06684)	GTAATACTTTTAATAATACGCTATTGGGAAGAAAATACAATGTTATA	0.335																																																0																																										SO:0001630	splice_region_variant	6532			L05568	CCDS11256.1	17q11.2	2014-01-30	2013-07-19		ENSG00000108576	ENSG00000108576		"Solute carriers"	11050	protein-coding gene	gene with protein product	"serotonin transporter 1"	182138	"solute carrier family 6 (neurotransmitter transporter, serotonin), member 4", "5-hydroxytryptamine (serotonin) transporter", "obsessive-compulsive disorder 1"	HTT, OCD1		7681602, 19806148	Standard	NM_001045		Approved	5-HTT, SERT1	uc002hey.5	P31645	OTTHUMG00000132751	ENST00000401766.2:c.1819-1TATTTTCTTCCCAATAGCGTATTATTA>-	17.37:g.28525539_28525565delTAATAATACGCTATTGGGAAGAAAATA		Somatic		WXS	Illumina HiSeq	Phase_I	Q5EE02	Frame_Shift_Del	DEL	ENST00000401766.2	37	CCDS11256.1																																																																																				0.335	SLC6A4-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256115.3	NM_001045	In_Frame_Del	-	28525565	TAATAATACGCTATTGGGAAGAAAATA	-	28525539	8	5	605	1	0	1	0	1	0	0	1	0	14699	1763	61	0	68	0	SLC6A4	17	28525539	Splice_Site	DEL	TAATAATACGCTATTGGGAAGAAAATA	TCGA-HE-7129-01A-11D-1961-08	12240063	28525539	52669671	49	36481										
BLMH	642	hgsc.bcm.edu;broad.mit.edu	37	chr17	28601215	28601215	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gatgcacaccactcggaataTctggaagagaggaggaggaa	14	7	1	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr17:28601215T>C	ENST00000261714.6	-	7	820	c.646A>G	c.(646-648)Ata>Gta	p.I216V	BLMH_ENST00000394819.3_Splice_Site_p.I129V|BLMH_ENST00000582669.1_5'UTR	NM_000386.3	NP_000377.1	Q13867	BLMH_HUMAN	bleomycin hydrolase	216					antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|protein polyubiquitination (GO:0000209)|proteolysis (GO:0006508)|response to drug (GO:0042493)|response to toxic substance (GO:0009636)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	aminopeptidase activity (GO:0004177)|carboxypeptidase activity (GO:0004180)|cysteine-type endopeptidase activity (GO:0004197)|cysteine-type peptidase activity (GO:0008234)			breast(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(2)|ovary(1)|prostate(1)|stomach(1)	13					Bleomycin(DB00290)	ACTCGGAATATCTGGAAGAGA	0.408																																					Pancreas(127;628 1772 12912 33293 36203)											0													52	52	52					17																	28601215		2203	4300	6503	SO:0001630	splice_region_variant	642			X92106	CCDS32604.1	17q11.2	2004-02-16				ENSG00000108578			1059	protein-coding gene	gene with protein product		602403				9407121, 9331073	Standard	NM_000386		Approved	BH	uc002hez.2	Q13867		ENST00000261714.6:c.646-1A>G	17.37:g.28601215T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R796|Q53F86|Q9UER9	Missense_Mutation	SNP	ENST00000261714.6	37	CCDS32604.1	.	.	.	.	.	.	.	.	.	.	T	11.42	1.634591	0.29068	.	.	ENSG00000108578	ENST00000261714;ENST00000394819	T;T	0.47869	0.83;0.83	5.91	3.38	0.38709	.	0.142143	0.64402	N	0.000007	T	0.21631	0.0521	N	0.04820	-0.15	0.39774	D	0.972206	B;B	0.02656	0.0;0.0	B;B	0.11329	0.006;0.005	T	0.05818	-1.0862	10	0.16896	T	0.51	-15.4969	6.3794	0.21525	0.0:0.3117:0.0:0.6883	.	129;216	E7EMN3;Q13867	.;BLMH_HUMAN	V	216;129	ENSP00000261714:I216V;ENSP00000378296:I129V	ENSP00000261714:I216V	I	-	1	0	BLMH	25625341	1.000000	0.71417	1.000000	0.80357	0.955000	0.61496	3.118000	0.50414	1.064000	0.40671	0.533000	0.62120	ATA		0.408	BLMH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447940.1	NM_000386	Missense_Mutation	C	28601215	T	C	28601215	5	2	605	1	0	0	0	0	0	0	1	0	1446	1449	50	3	745	3	BLMH	17	28601215	Splice_Site	SNP	T	TCGA-HE-7129-01A-11D-1961-08	75676	28601215	52593995	50	36482										
MED24	9862	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr17	38182477	38182477	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	agctggcggatcatctgcagCgacttctcacgctcatccag	10	14	4	0	rs572516214		TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr17:38182477C>T	ENST00000394128.2	-	19	1998	c.1917G>A	c.(1915-1917)tcG>tcA	p.S639S	MED24_ENST00000394127.2_Silent_p.S626S|MED24_ENST00000356271.3_Silent_p.S626S|SNORD124_ENST00000459577.1_RNA|MED24_ENST00000501516.3_Silent_p.S658S|MED24_ENST00000394126.1_Silent_p.S664S	NM_014815.3	NP_055630.2	O75448	MED24_HUMAN	mediator complex subunit 24	639					androgen receptor signaling pathway (GO:0030521)|gene expression (GO:0010467)|intracellular steroid hormone receptor signaling pathway (GO:0030518)|positive regulation of transcription, DNA-templated (GO:0045893)|protein heterooligomerization (GO:0051291)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|stem cell maintenance (GO:0019827)|transcription initiation from RNA polymerase II promoter (GO:0006367)	mediator complex (GO:0016592)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	histone acetyltransferase activity (GO:0004402)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|receptor activity (GO:0004872)|RNA polymerase II transcription cofactor activity (GO:0001104)|thyroid hormone receptor binding (GO:0046966)|transcription cofactor activity (GO:0003712)|vitamin D receptor binding (GO:0042809)			autonomic_ganglia(1)|breast(2)|endometrium(9)|large_intestine(10)|lung(14)|ovary(1)|prostate(2)|skin(1)|urinary_tract(1)	41	Colorectal(19;0.000442)					TCATCTGCAGCGACTTCTCAC	0.567																																																0													143	129	134					17																	38182477		2203	4300	6503	SO:0001819	synonymous_variant	9862			AF055995	CCDS11359.1, CCDS42315.1	17q21.2	2007-07-30	2007-07-30	2007-07-30	ENSG00000008838	ENSG00000008838			22963	protein-coding gene	gene with protein product		607000	"thyroid hormone receptor associated protein 4", "cofactor required for Sp1 transcriptional activation, subunit 4, 100kDa"	THRAP4, CRSP4			Standard	NM_001079518		Approved	TRAP100, KIAA0130, DRIP100, CRSP100	uc002htt.3	O75448	OTTHUMG00000133329	ENST00000394128.2:c.1917G>A	17.37:g.38182477C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K4S5|B3KMR9|Q14143|Q9NNY5	Silent	SNP	ENST00000394128.2	37	CCDS11359.1																																																																																				0.567	MED24-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257147.2	NM_014815		T	38182477	C	T	38182477	2	4	605	1	0	0	0	0	0	0	0	1	9449	755	27	1		1	MED24	17	38182477	Silent	SNP	C	TCGA-HE-7129-01A-11D-1961-08	9581262	38182477	43012733	51	36483										
ITGB3	3690	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr17	45369560	45369560	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	tccccaggagaaggagaagtCctttaccataaagcccgtgg	11	11	0	2			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr17:45369560C>T	ENST00000559488.1	+	10	1332	c.1316C>T	c.(1315-1317)tCc>tTc	p.S439F	ITGB3_ENST00000560629.1_Silent_p.V427V|ITGB3_ENST00000435993.2_Missense_Mutation_p.S392F	NM_000212.2	NP_000203.2	P05106	ITB3_HUMAN	integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61)	439					activation of protein kinase activity (GO:0032147)|angiogenesis involved in wound healing (GO:0060055)|apolipoprotein A-I-mediated signaling pathway (GO:0038027)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell growth (GO:0016049)|cell migration (GO:0016477)|cell-matrix adhesion (GO:0007160)|cell-substrate adhesion (GO:0031589)|cell-substrate junction assembly (GO:0007044)|extracellular matrix organization (GO:0030198)|heterotypic cell-cell adhesion (GO:0034113)|integrin-mediated signaling pathway (GO:0007229)|leukocyte migration (GO:0050900)|mesodermal cell differentiation (GO:0048333)|negative chemotaxis (GO:0050919)|negative regulation of lipid storage (GO:0010888)|negative regulation of lipid transport (GO:0032369)|negative regulation of lipoprotein metabolic process (GO:0050748)|negative regulation of low-density lipoprotein particle receptor biosynthetic process (GO:0045715)|negative regulation of macrophage derived foam cell differentiation (GO:0010745)|platelet activation (GO:0030168)|platelet aggregation (GO:0070527)|platelet degranulation (GO:0002576)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030949)|protein folding (GO:0006457)|regulation of bone resorption (GO:0045124)|smooth muscle cell migration (GO:0014909)|substrate adhesion-dependent cell spreading (GO:0034446)|tube development (GO:0035295)|viral entry into host cell (GO:0046718)|wound healing (GO:0042060)	alphav-beta3 integrin-vitronectin complex (GO:0071062)|cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|filopodium membrane (GO:0031527)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|integrin alphav-beta3 complex (GO:0034683)|integrin complex (GO:0008305)|lamellipodium membrane (GO:0031258)|melanosome (GO:0042470)|microvillus membrane (GO:0031528)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|platelet alpha granule membrane (GO:0031092)|receptor complex (GO:0043235)|ruffle membrane (GO:0032587)	cell adhesion molecule binding (GO:0050839)|extracellular matrix binding (GO:0050840)|fibronectin binding (GO:0001968)|identical protein binding (GO:0042802)|platelet-derived growth factor receptor binding (GO:0005161)|protease binding (GO:0002020)|protein disulfide isomerase activity (GO:0003756)|receptor activity (GO:0004872)|vascular endothelial growth factor receptor 2 binding (GO:0043184)			breast(3)|central_nervous_system(5)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(10)|lung(9)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	39					Abciximab(DB00054)|Antithymocyte globulin(DB00098)|Eptifibatide(DB00063)|Tirofiban(DB00775)	AAGGAGAAGTCCTTTACCATA	0.522																																																0													94	78	84					17																	45369560		2203	4300	6503	SO:0001583	missense	3690				CCDS11511.1	17q21.32	2014-09-17			ENSG00000259207	ENSG00000259207		"CD molecules", "Integrins"	6156	protein-coding gene	gene with protein product	"platelet glycoprotein IIIa"	173470		GP3A		2454952	Standard	NM_000212		Approved	CD61, GPIIIa	uc002ilj.3	P05106	OTTHUMG00000171956	ENST00000559488.1:c.1316C>T	17.37:g.45369560C>T	ENSP00000452786:p.Ser439Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJW2|D3DXJ8|O15495|Q12806|Q13413|Q14648|Q16499	Missense_Mutation	SNP	ENST00000559488.1	37	CCDS11511.1	.	.	.	.	.	.	.	.	.	.	C	24.7	4.558922	0.86231	.	.	ENSG00000178852	ENST00000262017;ENST00000435993	T	0.67171	-0.25	5.4	5.4	0.78164	Integrin beta subunit, N-terminal (2);	0.153255	0.56097	D	0.000025	T	0.78960	0.4366	L	0.60455	1.87	0.51233	D	0.99991	D	0.64830	0.994	D	0.65573	0.936	T	0.80324	-0.1430	10	0.66056	D	0.02	.	17.9137	0.88942	0.0:1.0:0.0:0.0	.	439	P05106	ITB3_HUMAN	F	439;392	ENSP00000407801:S392F	ENSP00000262017:S439F	S	+	2	0	C17orf57	42724559	0.998000	0.40836	1.000000	0.80357	0.953000	0.61014	3.315000	0.51951	2.531000	0.85337	0.462000	0.41574	TCC		0.522	ITGB3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416111.3	NM_000212		T	45369560	C	T	45369560	3	4	605	1	0	0	0	0	1	0	0	0	7902	855	30	2	1354	2	ITGB3	17	45369560	Missense_Mutation	SNP	C	TCGA-HE-7129-01A-11D-1961-08	7187083	45369560	35825650	52	36484										
HSF5	124535	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr17	56540550	56540550	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	ggaggaatgcaactcatcaaCtatctgaaagacagcctcta	8	10	4	2			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr17:56540550C>G	ENST00000323777.3	-	4	1244	c.1135G>C	c.(1135-1137)Gtt>Ctt	p.V379L		NM_001080439.1	NP_001073908.1	Q4G112	HSF5_HUMAN	heat shock transcription factor family member 5	379					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(7)|ovary(3)|skin(1)	16	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AACTCATCAACTATCTGAAAG	0.438																																																0													101	97	98					17																	56540550		2203	4300	6503	SO:0001583	missense	124535			BC033020	CCDS32690.1	17q23.2	2006-04-25				ENSG00000176160			26862	protein-coding gene	gene with protein product							Standard	NM_001080439		Approved	FLJ40311	uc002iwi.1	Q4G112		ENST00000323777.3:c.1135G>C	17.37:g.56540550C>G	ENSP00000313243:p.Val379Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q08EH7|Q8N7V2	Missense_Mutation	SNP	ENST00000323777.3	37	CCDS32690.1	.	.	.	.	.	.	.	.	.	.	C	13.97	2.396051	0.42512	.	.	ENSG00000176160	ENST00000412540;ENST00000323777	T	0.43294	0.95	5.47	4.49	0.54785	.	0.247257	0.28754	N	0.014249	T	0.30448	0.0765	L	0.27053	0.805	0.38062	D	0.936116	B	0.06786	0.001	B	0.08055	0.003	T	0.11372	-1.0590	10	0.34782	T	0.22	.	12.6737	0.56882	0.1654:0.8346:0.0:0.0	.	379	Q4G112	HSF5_HUMAN	L	279;379	ENSP00000313243:V379L	ENSP00000313243:V379L	V	-	1	0	HSF5	53895549	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.377000	0.44300	1.273000	0.44346	0.650000	0.86243	GTT		0.438	HSF5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444719.1	XM_064190		G	56540550	C	G	56540550	3	3	605	1	0	0	0	0	1	0	0	0	7406	565	20	4	667	4	HSF5	17	56540550	Missense_Mutation	SNP	C	TCGA-HE-7129-01A-11D-1961-08	11170990	56540550	24654660	53	36485										
TEX14	56155	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr17	56663339	56663339	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gggctgcagcagggcgtcggGctcattttcagcctcgctct	14	13	3	0			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr17:56663339G>C	ENST00000240361.8	-	18	2996	c.2911C>G	c.(2911-2913)Ccc>Gcc	p.P971A	TEX14_ENST00000389934.3_Missense_Mutation_p.P965A|TEX14_ENST00000349033.5_Missense_Mutation_p.P965A			Q8IWB6	TEX14_HUMAN	testis expressed 14	971					attachment of spindle microtubules to kinetochore (GO:0008608)|intercellular bridge organization (GO:0043063)|male meiosis (GO:0007140)|mitotic sister chromatid separation (GO:0051306)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of cytokinesis (GO:0032466)|negative regulation of protein binding (GO:0032091)	cell (GO:0005623)|cytoplasm (GO:0005737)|intercellular bridge (GO:0045171)|kinetochore (GO:0000776)|midbody (GO:0030496)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)			breast(6)|endometrium(5)|kidney(3)|large_intestine(22)|liver(1)|lung(24)|ovary(4)|pancreas(1)|prostate(1)|skin(5)|stomach(5)|upper_aerodigestive_tract(1)|urinary_tract(3)	81	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AGGGCGTCGGGCTCATTTTCA	0.512																																																0													145	146	146					17																	56663339		2203	4300	6503	SO:0001583	missense	56155			AF285601	CCDS32692.1, CCDS32693.1, CCDS56042.1	17q22	2013-09-20	2007-03-13		ENSG00000121101	ENSG00000121101			11737	protein-coding gene	gene with protein product	"cancer/testis antigen 113"	605792	"testis expressed sequence 14"			11279525, 12711554	Standard	NM_031272		Approved	CT113	uc010dcz.2	Q8IWB6	OTTHUMG00000179245	ENST00000240361.8:c.2911C>G	17.37:g.56663339G>C	ENSP00000240361:p.Pro971Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6NH19|Q7RTP3|Q8ND97|Q9BXT9	Missense_Mutation	SNP	ENST00000240361.8	37	CCDS56042.1	.	.	.	.	.	.	.	.	.	.	G	13.81	2.349191	0.41599	.	.	ENSG00000121101	ENST00000240361;ENST00000389934;ENST00000349033	T;T;T	0.78126	-1.15;-1.15;-1.1	5.38	-0.87	0.10646	.	1.113020	0.06645	N	0.761719	T	0.69450	0.3112	L	0.57536	1.79	0.09310	N	1	B;B;B	0.12630	0.006;0.002;0.002	B;B;B	0.14023	0.003;0.01;0.01	T	0.55648	-0.8108	10	0.45353	T	0.12	-3.8719	2.7702	0.05332	0.3122:0.0:0.3257:0.3621	.	971;965;965	Q8IWB6;Q8IWB6-3;Q8IWB6-2	TEX14_HUMAN;.;.	A	971;965;965	ENSP00000240361:P971A;ENSP00000374584:P965A;ENSP00000268910:P965A	ENSP00000240361:P971A	P	-	1	0	TEX14	54018338	0.000000	0.05858	0.003000	0.11579	0.431000	0.31685	-0.152000	0.10159	0.220000	0.20860	0.561000	0.74099	CCC		0.512	TEX14-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000445446.1			C	56663339	G	C	56663339	3	2	605	1	0	0	0	0	1	0	0	0	15790	1203	42	4	1646	4	TEX14	17	56663339	Missense_Mutation	SNP	G	TCGA-HE-7129-01A-11D-1961-08	122789	56663339	24531871	54	36486										
METTL2A	339175	broad.mit.edu	37	chr17	60501296	60501296	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	taccctgaaggtgcacctgcAgtcctcgccgataagaggca	11	13	0	2			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr17:60501296A>G	ENST00000311506.5	+	1	69	c.33A>G	c.(31-33)gcA>gcG	p.A11A		NM_181725.3	NP_859076.3	Q96IZ6	MET2A_HUMAN	methyltransferase like 2A	11					tRNA methylation (GO:0030488)		tRNA (cytosine) methyltransferase activity (GO:0016427)			breast(2)|central_nervous_system(1)|endometrium(1)|upper_aerodigestive_tract(2)	6			BRCA - Breast invasive adenocarcinoma(2;1.08e-10)			GTGCACCTGCAGTCCTCGCCG	0.597											OREG0024635	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													57	67	64					17																	60501296		692	1591	2283	SO:0001819	synonymous_variant	339175			AK000991	CCDS45752.1	17q23.3	2012-12-20		2006-02-10	ENSG00000087995	ENSG00000087995			25755	protein-coding gene	gene with protein product						12477932	Standard	NM_181725		Approved	FLJ12760, METTL2	uc002izv.2	Q96IZ6	OTTHUMG00000164527	ENST00000311506.5:c.33A>G	17.37:g.60501296A>G		Somatic	1046	WXS	Illumina HiSeq	Phase_I	A6NNC4|Q9H9G9|Q9NUI8|Q9P0B5	Silent	SNP	ENST00000311506.5	37	CCDS45752.1																																																																																				0.597	METTL2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445130.1	NM_181725		G	60501296	A	G	60501296	2	3	605	1	0	0	0	0	0	0	0	1	9506	175	7	3		3	METTL2A	17	60501296	Silent	SNP	A	TCGA-HE-7129-01A-11D-1961-08	3837957	60501296	20693914	55	36487										
CYB561	1534	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr17	61511913	61511913	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gccagcagcaggcccagcacGttggccaggacaccctcggg	14	16	0	0			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr17:61511913G>A	ENST00000392976.1	-	6	905	c.606C>T	c.(604-606)aaC>aaT	p.N202N	CYB561_ENST00000582997.1_Silent_p.N209N|CYB561_ENST00000582297.1_Intron|CYB561_ENST00000582034.1_Silent_p.N173N|CYB561_ENST00000542042.1_Silent_p.N269N|CYB561_ENST00000581163.1_5'UTR|CYB561_ENST00000448884.2_3'UTR|CYB561_ENST00000581573.1_Silent_p.N202N|CYB561_ENST00000360793.3_Silent_p.N202N|CYB561_ENST00000584031.1_3'UTR|RP11-269G24.4_ENST00000584608.1_lincRNA|CYB561_ENST00000392975.2_Silent_p.N202N	NM_001017916.1	NP_001017916.1	P49447	CY561_HUMAN	cytochrome b561	202	Cytochrome b561. {ECO:0000255|PROSITE- ProRule:PRU00242}.				electron transport chain (GO:0022900)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)	ferric-chelate reductase activity (GO:0000293)|metal ion binding (GO:0046872)|transmembrane electron transfer carrier (GO:0022865)			lung(2)|ovary(1)|prostate(1)	4				READ - Rectum adenocarcinoma(1115;0.0689)		GGCCCAGCACGTTGGCCAGGA	0.642																																																0													48	48	48					17																	61511913		2203	4300	6503	SO:0001819	synonymous_variant	1534				CCDS11636.1	17q23.3	2013-03-14	2013-03-14		ENSG00000008283	ENSG00000008283		"Cytochrome b genes"	2571	protein-coding gene	gene with protein product	"ferric-chelate reductase 2", "cytochrome b561 family, member A1"	600019				7959749, 23249217	Standard	XM_005257091		Approved	FRRS2, CYB561A1	uc002jas.3	P49447		ENST00000392976.1:c.606C>T	17.37:g.61511913G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RE96|B7Z775|D3DU11|Q5BJG9|Q9BU05|Q9BWR9	Silent	SNP	ENST00000392976.1	37	CCDS11636.1																																																																																				0.642	CYB561-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444843.1	NM_001915		A	61511913	G	A	61511913	2	1	605	1	0	0	0	0	0	0	0	1	4121	1136	40	1		1	CYB561	17	61511913	Silent	SNP	G	TCGA-HE-7129-01A-11D-1961-08	1010617	61511913	19683297	56	36488										
ABCA5	23461	hgsc.bcm.edu;broad.mit.edu	37	chr17	67303077	67303077	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	tgactccagctccttccaaaGagaaacattggtcttcaact	6	12	2	2			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr17:67303077G>A	ENST00000392676.3	-	6	641	c.577C>T	c.(577-579)Ctt>Ttt	p.L193F	ABCA5_ENST00000588877.1_Missense_Mutation_p.L193F|ABCA5_ENST00000392677.2_Missense_Mutation_p.L193F			Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 5	193					cholesterol efflux (GO:0033344)|high-density lipoprotein particle remodeling (GO:0034375)|negative regulation of macrophage derived foam cell differentiation (GO:0010745)|reverse cholesterol transport (GO:0043691)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|late endosome (GO:0005770)|lysosome (GO:0005764)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(18)|lung(19)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	54	Breast(10;3.72e-11)				Tacrolimus(DB00864)	TCCTTCCAAAGAGAAACATTG	0.348																																																0													56	60	59					17																	67303077		2198	4294	6492	SO:0001583	missense	23461			U66672	CCDS11685.1	17q24.3	2012-03-14			ENSG00000154265	ENSG00000154265		"ATP binding cassette transporters / subfamily A"	35	protein-coding gene	gene with protein product		612503				8894702	Standard	NM_172232		Approved	EST90625	uc002jig.2	Q8WWZ7		ENST00000392676.3:c.577C>T	17.37:g.67303077G>A	ENSP00000376443:p.Leu193Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVJ2|Q96LJ1|Q96MS4|Q96PZ9|Q9NY14	Missense_Mutation	SNP	ENST00000392676.3	37	CCDS11685.1	.	.	.	.	.	.	.	.	.	.	G	15.45	2.836993	0.50951	.	.	ENSG00000154265	ENST00000392677;ENST00000392676	D;D	0.87966	-2.32;-2.32	5.22	-9.14	0.00701	.	1.842040	0.03300	N	0.188828	T	0.60625	0.2283	N	0.01352	-0.895	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.08055	0.001;0.003	T	0.57452	-0.7809	9	.	.	.	.	6.752	0.23491	0.1697:0.5331:0.2205:0.0768	.	193;193	Q8WWZ7-2;Q8WWZ7	.;ABCA5_HUMAN	F	193	ENSP00000376444:L193F;ENSP00000376443:L193F	.	L	-	1	0	ABCA5	64814672	0.090000	0.21635	0.839000	0.33178	0.999000	0.98932	0.440000	0.21592	-1.239000	0.02532	0.650000	0.86243	CTT		0.348	ABCA5-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000450654.1	NM_018672		A	67303077	G	A	67303077	3	1	605	1	0	0	0	0	1	0	0	0	35	942	33	2	4487	2	ABCA5	17	67303077	Missense_Mutation	SNP	G	TCGA-HE-7129-01A-11D-1961-08	5791164	67303077	13892133	57	36489										
NOTUM	147111	broad.mit.edu	37	chr17	79913365	79913365	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	ggctgccccgtcaggtgcacGttgtccaccgtcagctgtgc	13	15	2	0			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr17:79913365G>A	ENST00000409678.3	-	9	1427	c.1044C>T	c.(1042-1044)aaC>aaT	p.N348N		NM_178493.5	NP_848588.3	Q6P988	NOTUM_HUMAN	notum pectinacetylesterase homolog (Drosophila)	348						extracellular region (GO:0005576)	hydrolase activity (GO:0016787)			breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(8)|ovary(1)|skin(1)|urinary_tract(1)	15	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			TCAGGTGCACGTTGTCCACCG	0.687																																																0													23	20	21					17																	79913365		2202	4285	6487	SO:0001819	synonymous_variant	147111			BC060882	CCDS32771.2	17q25.3	2008-02-05			ENSG00000185269	ENSG00000185269			27106	protein-coding gene	gene with protein product		609847					Standard	NM_178493		Approved		uc010wvg.2	Q6P988	OTTHUMG00000154416	ENST00000409678.3:c.1044C>T	17.37:g.79913365G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N410|Q8NI82	Silent	SNP	ENST00000409678.3	37	CCDS32771.2																																																																																				0.687	NOTUM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335123.2	NM_178493		A	79913365	G	A	79913365	2	1	605	1	0	0	0	0	0	0	0	1	10559	1136	40	1		1	NOTUM	17	79913365	Silent	SNP	G	TCGA-HE-7129-01A-11D-1961-08	12610288	79913365	1281845	58	36490										
HCN2	610	broad.mit.edu	37	chr19	615935	615935	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	aggccgagctgggtcagcgcGtgggcctcttcccgccgccg	16	16	2	0			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr19:615935G>C	ENST00000251287.2	+	8	2184	c.2131G>C	c.(2131-2133)Gtg>Ctg	p.V711L	AC005559.2_ENST00000591847.1_RNA	NM_001194.3	NP_001185.3	Q9UL51	HCN2_HUMAN	hyperpolarization activated cyclic nucleotide-gated potassium channel 2	711					cell-cell signaling (GO:0007267)|cellular response to cAMP (GO:0071320)|cellular response to cGMP (GO:0071321)|potassium ion transmembrane transport (GO:0071805)|regulation of membrane potential (GO:0042391)|sodium ion transmembrane transport (GO:0035725)|synaptic transmission (GO:0007268)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	cAMP binding (GO:0030552)|identical protein binding (GO:0042802)|intracellular cAMP activated cation channel activity (GO:0005222)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated sodium channel activity (GO:0005248)			endometrium(5)|lung(4)	9		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)		GGGTCAGCGCGTGGGCCTCTT	0.692																																					Melanoma(145;1175 2427 8056 36306)											0													26	22	23					19																	615935		2198	4296	6494	SO:0001583	missense	610			AF064877	CCDS12035.1	19p13	2011-07-05				ENSG00000099822		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	4846	protein-coding gene	gene with protein product		602781		BCNG2		9405696, 9630217, 16382102	Standard	NM_001194		Approved	BCNG-2, HAC-1	uc002lpe.3	Q9UL51		ENST00000251287.2:c.2131G>C	19.37:g.615935G>C	ENSP00000251287:p.Val711Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O60742|O60743|O75267|Q9UBS2	Missense_Mutation	SNP	ENST00000251287.2	37	CCDS12035.1	.	.	.	.	.	.	.	.	.	.	.	9.846	1.192309	0.21954	.	.	ENSG00000099822	ENST00000251287	T	0.42900	0.96	3.52	3.52	0.40303	.	.	.	.	.	T	0.19485	0.0468	N	0.08118	0	0.09310	N	1	B	0.15141	0.012	B	0.12837	0.008	T	0.19679	-1.0298	9	0.07325	T	0.83	.	8.5564	0.33483	0.1283:0.0:0.8717:0.0	.	711	Q9UL51	HCN2_HUMAN	L	711	ENSP00000251287:V711L	ENSP00000251287:V711L	V	+	1	0	HCN2	566935	0.009000	0.17119	0.104000	0.21259	0.845000	0.48019	0.661000	0.25023	1.697000	0.51169	0.478000	0.44815	GTG		0.692	HCN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452100.1	NM_001194		C	615935	G	C	615935	3	2	605	1	0	0	0	0	1	0	0	0	7004	1145	40	4	2161	4	HCN2	19	615935	Missense_Mutation	SNP	G	TCGA-HE-7129-01A-11D-1961-08		615935	58513048	59	36491										
ZNF284	342909	broad.mit.edu	37	chr19	44590761	44590761	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	atataattgtaatgtatgtgGgaagggcttcaggtggtcct	13	4	1	0			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr19:44590761G>C	ENST00000421176.3	+	5	1346	c.1130G>C	c.(1129-1131)gGg>gCg	p.G377A	ZNF223_ENST00000591793.1_3'UTR|RNU6-902P_ENST00000517212.1_RNA	NM_001037813.2	NP_001032902.1	Q2VY69	ZN284_HUMAN	zinc finger protein 284	377					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(1)|kidney(2)|large_intestine(6)|lung(4)|upper_aerodigestive_tract(1)	15		Prostate(69;0.0435)				AATGTATGTGGGAAGGGCTTC	0.428																																																0													100	106	104					19																	44590761		2104	4238	6342	SO:0001583	missense	342909			AY166789	CCDS46099.1	19q13.32	2013-01-08				ENSG00000186026		"Zinc fingers, C2H2-type", "-"	13078	protein-coding gene	gene with protein product						12743021	Standard	NM_001037813		Approved	DKFZp781F1775	uc002oyg.1	Q2VY69		ENST00000421176.3:c.1130G>C	19.37:g.44590761G>C	ENSP00000411032:p.Gly377Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q86WM1	Missense_Mutation	SNP	ENST00000421176.3	37	CCDS46099.1	.	.	.	.	.	.	.	.	.	.	G	15.01	2.707297	0.48412	.	.	ENSG00000186026	ENST00000421176	T	0.07114	3.22	2.15	1.06	0.20224	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.28962	0.0719	M	0.87827	2.91	0.29133	N	0.879512	D	0.89917	1.0	D	0.97110	1.0	T	0.06607	-1.0817	9	0.87932	D	0	.	7.7642	0.28970	0.1413:0.0:0.8587:0.0	.	377	Q2VY69	ZN284_HUMAN	A	377	ENSP00000411032:G377A	ENSP00000411032:G377A	G	+	2	0	ZNF284	49282601	1.000000	0.71417	0.015000	0.15790	0.070000	0.16714	3.579000	0.53900	0.228000	0.21019	0.462000	0.41574	GGG		0.428	ZNF284-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460473.1	NM_001037813		C	44590761	G	C	44590761	3	2	605	1	0	0	0	0	1	0	0	0	17833	1232	43	4	1144	4	ZNF284	19	44590761	Missense_Mutation	SNP	G	TCGA-HE-7129-01A-11D-1961-08	43974826	44590761	14538222	60	36492										
RIN2	54453	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr20	19955386	19955386	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	gacggtgtctgtcctgcctcCctgcgtcagctctgccttat	10	15	3	0			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr20:19955386C>T	ENST00000255006.6	+	8	1013	c.864C>T	c.(862-864)tcC>tcT	p.S288S	RIN2_ENST00000484638.1_3'UTR|RIN2_ENST00000440354.2_Intron	NM_001242581.1|NM_018993.3	NP_001229510.1|NP_061866.1	Q8WYP3	RIN2_HUMAN	Ras and Rab interactor 2	239					endocytosis (GO:0006897)|positive regulation of Rab GTPase activity (GO:0032851)|regulation of catalytic activity (GO:0050790)|small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)	GTPase activator activity (GO:0005096)|Rab guanyl-nucleotide exchange factor activity (GO:0017112)|small GTPase regulator activity (GO:0005083)			autonomic_ganglia(1)|breast(1)|endometrium(3)|kidney(3)|large_intestine(4)|lung(11)|ovary(1)|prostate(1)|urinary_tract(2)	27						GTCCTGCCTCCCTGCGTCAGC	0.547																																																0													73	77	75					20																	19955386		1935	4144	6079	SO:0001819	synonymous_variant	54453			AB060339	CCDS56182.1	20p11.22	2008-07-30			ENSG00000132669	ENSG00000132669			18750	protein-coding gene	gene with protein product		610222				11733506, 1849280, 16423831	Standard	NM_018993		Approved	RASSF4	uc002wro.2	Q8WYP3	OTTHUMG00000031996	ENST00000255006.6:c.864C>T	20.37:g.19955386C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q00425|Q5TFT8|Q9BQL3|Q9H071	Silent	SNP	ENST00000255006.6	37	CCDS56182.1																																																																																				0.547	RIN2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078212.1			T	19955386	C	T	19955386	2	4	605	1	0	0	0	0	0	0	0	1	13385	610	22	2		2	RIN2	20	19955386	Silent	SNP	C	TCGA-HE-7129-01A-11D-1961-08		19955386	43070134	61	36493										
RBM9	23543	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr22	36206007	36206007	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	ggaaatgggatggtagtaaaAggctgaaccattgcgtcagg	15	5	1	1			TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chr22:36206007A>G	ENST00000438146.2	-	3	281	c.282T>C	c.(280-282)ccT>ccC	p.P94P	RBFOX2_ENST00000416721.2_Silent_p.P24P|RBFOX2_ENST00000262829.7_Silent_p.P24P|RBFOX2_ENST00000359369.4_Silent_p.P4P|RBFOX2_ENST00000414461.2_Silent_p.P24P|RBFOX2_ENST00000405409.2_Silent_p.P24P|RBFOX2_ENST00000449924.2_Silent_p.P24P|RBFOX2_ENST00000397303.2_Silent_p.P4P	NM_001082578.1|NM_001082579.1	NP_001076047|NP_001076048.1	O43251	RFOX2_HUMAN	RNA binding protein, fox-1 homolog (C. elegans) 2	34					dendrite morphogenesis (GO:0048813)|intracellular estrogen receptor signaling pathway (GO:0030520)|mRNA processing (GO:0006397)|negative regulation of transcription, DNA-templated (GO:0045892)|neuromuscular process controlling balance (GO:0050885)|radial glia guided migration of Purkinje cell (GO:0021942)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|regulation of cell proliferation (GO:0042127)|regulation of definitive erythrocyte differentiation (GO:0010724)|RNA metabolic process (GO:0016070)|RNA splicing (GO:0008380)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)			endometrium(4)|large_intestine(7)|lung(7)	18						TGGTAGTAAAAGGCTGAACCA	0.473																																																0													148	133	138					22																	36206007		2203	4300	6503	SO:0001819	synonymous_variant	23543			AL009266	CCDS13921.1, CCDS43013.1, CCDS46699.1, CCDS46700.1, CCDS46701.1	22q12-q13	2013-02-12	2010-09-10	2010-09-10	ENSG00000100320	ENSG00000100320		"RNA binding motif (RRM) containing"	9906	protein-coding gene	gene with protein product	"hexaribonucleotide binding protein 2"	612149	"RNA binding motif protein 9"	RBM9			Standard	NM_014309		Approved	HNRBP2, FOX-2, HRNBP2	uc003aon.4	O43251	OTTHUMG00000150585	ENST00000438146.2:c.282T>C	22.37:g.36206007A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A4F5G8|A8K5Z5|B0QYY8|B0QYY9|Q0PRL5|Q0VH35|Q5TF71|Q6IC09|Q8TD00|Q8WYB1|Q96DZ6|Q96NL7|Q9UGW4|Q9UH33	Silent	SNP	ENST00000438146.2	37	CCDS43013.1																																																																																				0.473	RBFOX2-005	KNOWN	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000319299.3			G	36206007	A	G	36206007	2	3	605	1	0	0	0	0	0	0	0	1	13160	59	3	3		3	RBM9	22	36206007	Silent	SNP	A	TCGA-HE-7129-01A-11D-1961-08		36206007	15098559	62	36494										
KDM6A	7403	hgsc.bcm.edu;broad.mit.edu	37	chrX	44920581	44920581	+	Frame_Shift_Del	DEL	A	A	-													0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	ttcctcagaatacttctgacAattggagtggtggacatgct							TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chrX:44920581delA	ENST00000377967.4	+	14	1383	c.1342delA	c.(1342-1344)aatfs	p.N448fs	KDM6A_ENST00000543216.1_Frame_Shift_Del_p.N403fs|KDM6A_ENST00000382899.4_Frame_Shift_Del_p.N455fs|KDM6A_ENST00000536777.1_Frame_Shift_Del_p.N403fs	NM_021140.2	NP_066963.2	O15550	KDM6A_HUMAN	lysine (K)-specific demethylase 6A	448	Interaction with SUPT6H. {ECO:0000250}.				canonical Wnt signaling pathway (GO:0060070)|heart morphogenesis (GO:0003007)|histone H3-K4 methylation (GO:0051568)|in utero embryonic development (GO:0001701)|mesodermal cell differentiation (GO:0048333)|multicellular organism growth (GO:0035264)|neural tube closure (GO:0001843)|notochord morphogenesis (GO:0048570)|regulation of gene expression (GO:0010468)|respiratory system process (GO:0003016)|somite rostral/caudal axis specification (GO:0032525)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	dioxygenase activity (GO:0051213)|histone demethylase activity (H3-K27 specific) (GO:0071558)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)	p.0?(6)|p.0(2)		NS(1)|breast(7)|central_nervous_system(27)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(24)|kidney(24)|large_intestine(9)|liver(1)|lung(21)|oesophagus(11)|pancreas(2)|prostate(5)|skin(1)|soft_tissue(1)|urinary_tract(29)	170						TACTTCTGACAATTGGAGTGG	0.348			"D, N, F, S"		"renal, oesophageal SCC, MM"																																Colon(129;1273 1667 15230 27352 52914)		Rec	yes		X	Xp11.2	7403	"lysine (K)-specific demethylase 6A, UTX"		"E, L"	8	Whole gene deletion(6)|No detectable mRNA/protein(2)	haematopoietic_and_lymphoid_tissue(2)|oesophagus(2)|breast(2)|pancreas(2)											58	47	51					X																	44920581		2203	4300	6503	SO:0001589	frameshift_variant	7403			AF000992	CCDS14265.1	Xp11.2	2014-09-17	2009-04-17	2009-04-17	ENSG00000147050	ENSG00000147050		"Chromatin-modifying enzymes / K-demethylases", "Tetratricopeptide (TTC) repeat domain containing"	12637	protein-coding gene	gene with protein product		300128	"ubiquitously transcribed tetratricopeptide repeat, X chromosome"	UTX		9499428, 9381176	Standard	XM_005272655		Approved		uc004dge.4	O15550	OTTHUMG00000021402	ENST00000377967.4:c.1342delA	X.37:g.44920581delA	ENSP00000367203:p.Asn448fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LL9|Q5JVQ7	Frame_Shift_Del	DEL	ENST00000377967.4	37	CCDS14265.1																																																																																				0.348	KDM6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056324.1	NM_021140		-	44920581	A	-	44920581	7	5	605	1	0	1	0	1	0	0	0	0	8144	130	5	0	1396	0	KDM6A	23	44920581	Frame_Shift_Del	DEL	A	TCGA-HE-7129-01A-11D-1961-08		44920581	110349979	63	36495										
EMD	2010	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	153609241	153609241	+	Splice_Site	DEL	G	G	-													0.015625	1	1	0.229074074074074	0	0.358550724637681	1	1	0	tgctcccctcttttgcctcaGggaacgccccatgtacggcc							TCGA-HE-7129-01A-11D-1961-08	TCGA-HE-7129-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56f3efb-5a25-4967-b817-44b1eb9f440a	3c6e3907-3f31-4a91-825b-87070d603395	g.chrX:153609241delG	ENST00000369842.4	+	6	737		c.e6-1		EMD_ENST00000369835.3_Splice_Site|EMD_ENST00000492448.1_Splice_Site	NM_000117.2	NP_000108.1	P50402	EMD_HUMAN	emerin						cellular response to growth factor stimulus (GO:0071363)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mitotic nuclear envelope reassembly (GO:0007084)|muscle contraction (GO:0006936)|muscle organ development (GO:0007517)|negative regulation of catenin import into nucleus (GO:0035414)|negative regulation of fibroblast proliferation (GO:0048147)|positive regulation of protein export from nucleus (GO:0046827)|regulation of canonical Wnt signaling pathway (GO:0060828)|skeletal muscle cell differentiation (GO:0035914)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|microtubule (GO:0005874)|nuclear envelope (GO:0005635)|nuclear inner membrane (GO:0005637)|nuclear membrane (GO:0031965)|nuclear outer membrane (GO:0005640)	actin binding (GO:0003779)|beta-tubulin binding (GO:0048487)			lung(5)	5	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)					TTTTGCCTCAGGGAACGCCCC	0.622																																																0													77	67	71					X																	153609241		2203	4300	6503	SO:0001630	splice_region_variant	2010			X82434	CCDS14745.1	Xq27.3-q28	2014-09-17	2008-07-29		ENSG00000102119	ENSG00000102119			3331	protein-coding gene	gene with protein product	"LEM domain containing 5"	300384	"Emery-Dreifuss muscular dystrophy"				Standard	NM_000117		Approved	STA, LEMD5	uc004fkl.3	P50402	OTTHUMG00000033186	ENST00000369842.4:c.450-1G>-	X.37:g.153609241delG		Somatic		WXS	Illumina HiSeq	Phase_I	Q6FI02	Splice_Site	DEL	ENST00000369842.4	37	CCDS14745.1																																																																																				0.622	EMD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080921.1		Intron	-	153609241	G	-	153609241	8	5	605	1	0	1	0	1	0	0	1	0	5089	1014	35	0	471	0	EMD	23	153609241	Splice_Site	DEL	G	TCGA-HE-7129-01A-11D-1961-08	108688660	153609241	1661319	64	36496										
PEX10	5192	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	2341814	2341814	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ccgtgggagcttctacctgcAagtgtggtgaggccaaagta	14	9	1	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:2341814A>C	ENST00000447513.2	-	2	257	c.189T>G	c.(187-189)ctT>ctG	p.L63L	PEX10_ENST00000288774.3_Silent_p.L63L|PEX10_ENST00000515760.1_5'Flank|PEX10_ENST00000507596.1_Silent_p.L63L	NM_002617.3	NP_002608.1	O60683	PEX10_HUMAN	peroxisomal biogenesis factor 10	63					peroxisome organization (GO:0007031)|protein import into peroxisome matrix (GO:0016558)	integral component of peroxisomal membrane (GO:0005779)|intracellular (GO:0005622)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	protein C-terminus binding (GO:0008022)|zinc ion binding (GO:0008270)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|lung(3)|skin(2)	7	all_cancers(77;0.000247)|all_epithelial(69;9.96e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;5.35e-20)|all_lung(118;2.78e-08)|Lung NSC(185;2.69e-06)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;1.1e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.02e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;3.94e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00102)|BRCA - Breast invasive adenocarcinoma(365;0.00435)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0169)|Lung(427;0.199)		TTCTACCTGCAAGTGTGGTGA	0.597																																					GBM(12;9 508 1649 13619)											0													99	86	91					1																	2341814		2203	4300	6503	SO:0001819	synonymous_variant	5192			AF060502	CCDS41.1, CCDS44045.1	1p36.32	2013-01-09	2008-08-26		ENSG00000157911	ENSG00000157911		"RING-type (C3HC4) zinc fingers"	8851	protein-coding gene	gene with protein product		602859	"peroxisome biogenesis factor 10"			9683594	Standard	NM_002617		Approved	RNF69	uc001ajg.3	O60683	OTTHUMG00000001637	ENST00000447513.2:c.189T>G	1.37:g.2341814A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KWD8|Q5T095|Q9BW90	Silent	SNP	ENST00000447513.2	37	CCDS44045.1																																																																																				0.597	PEX10-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000367454.1	NM_153818		C	2341814	A	C	2341814	2	2	606	1	0	0	0	0	0	0	0	1	11743	117	5	5		5	PEX10	1	2341814	Silent	SNP	A	TCGA-HE-7130-01A-11D-1961-08		2341814	246908807	1	36497										
KIF1B	23095	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	10431203	10431203	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ttcggtttgcttccagttgtCtgatatctctccaattggac	8	10	2	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:10431203C>T	ENST00000377086.1	+	45	5031	c.4829C>T	c.(4828-4830)tCt>tTt	p.S1610F	KIF1B_ENST00000263934.6_Missense_Mutation_p.S1564F|KIF1B_ENST00000377081.1_Missense_Mutation_p.S1610F			O60333	KIF1B_HUMAN	kinesin family member 1B	1610					anterograde axon cargo transport (GO:0008089)|apoptotic process (GO:0006915)|cytoskeleton-dependent intracellular transport (GO:0030705)|microtubule-based movement (GO:0007018)|mitochondrion transport along microtubule (GO:0047497)|neuromuscular synaptic transmission (GO:0007274)|neuron-neuron synaptic transmission (GO:0007270)|vesicle-mediated transport (GO:0016192)	cytoplasmic vesicle (GO:0031410)|cytoplasmic vesicle membrane (GO:0030659)|kinesin complex (GO:0005871)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|kinesin binding (GO:0019894)|microtubule motor activity (GO:0003777)|plus-end-directed microtubule motor activity (GO:0008574)			breast(2)|endometrium(7)|kidney(8)|large_intestine(9)|lung(29)|ovary(3)|prostate(3)|skin(5)|stomach(3)|upper_aerodigestive_tract(2)	71	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)		TTCCAGTTGTCTGATATCTCT	0.488																																																0													139	121	127					1																	10431203		2203	4300	6503	SO:0001583	missense	23095			AF257176	CCDS111.1, CCDS112.1	1p36.22	2014-09-17			ENSG00000054523	ENSG00000054523		"Kinesins", "Pleckstrin homology (PH) domain containing"	16636	protein-coding gene	gene with protein product		605995		CMT2A, CMT2		11389829, 10762626	Standard	NM_015074		Approved	KIAA0591, KLP, HMSNII	uc001aqw.4	O60333	OTTHUMG00000001817	ENST00000377086.1:c.4829C>T	1.37:g.10431203C>T	ENSP00000366290:p.Ser1610Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFS8|A6NKQ4|Q4VXC3|Q4VXC4|Q4VXC5|Q4VXC6|Q96Q94|Q9BV80|Q9P280	Missense_Mutation	SNP	ENST00000377086.1	37		.	.	.	.	.	.	.	.	.	.	C	26.3	4.719966	0.89205	.	.	ENSG00000054523	ENST00000355249;ENST00000263934;ENST00000377086;ENST00000377081	T;T;T	0.11712	2.75;2.75;2.75	5.53	5.53	0.82687	.	0.060274	0.64402	D	0.000002	T	0.22126	0.0533	N	0.19112	0.55	0.80722	D	1	D;P;D;D;P;D	0.76494	0.966;0.744;0.999;0.972;0.952;0.994	P;B;D;P;B;D	0.74348	0.641;0.289;0.959;0.845;0.288;0.983	T	0.02868	-1.1100	10	0.72032	D	0.01	.	19.8228	0.96604	0.0:1.0:0.0:0.0	.	1596;1570;1610;1584;1610;1564	Q4R9M9;Q4R9M7;Q4VXC4;Q4R9M8;O60333;O60333-2	.;.;.;.;KIF1B_HUMAN;.	F	1610;1564;1610;1610	ENSP00000263934:S1564F;ENSP00000366290:S1610F;ENSP00000366284:S1610F	ENSP00000263934:S1564F	S	+	2	0	KIF1B	10353790	1.000000	0.71417	1.000000	0.80357	0.816000	0.46133	7.445000	0.80570	2.759000	0.94783	0.650000	0.86243	TCT		0.488	KIF1B-001	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000005102.1			T	10431203	C	T	10431203	3	4	606	1	0	0	0	0	1	0	0	0	8291	913	32	2	6346	2	KIF1B	1	10431203	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	8089389	10431203	238819418	2	36498										
C1orf187	374946	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	11775243	11775243	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ggcctcaacaacaaatgcttCgatgactgcatgtgtgtgga	11	9	1	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:11775243C>T	ENST00000294485.5	+	6	1050	c.915C>T	c.(913-915)ttC>ttT	p.F305F		NM_198545.3	NP_940947.3			dorsal inhibitory axon guidance protein																		ACAAATGCTTCGATGACTGCA	0.582																																																0													180	135	150					1																	11775243		2203	4300	6503	SO:0001819	synonymous_variant	374946			AY358750	CCDS135.1	1p36.22	2012-08-20	2012-08-14	2012-08-14	ENSG00000162490	ENSG00000162490			25054	protein-coding gene	gene with protein product	"dorsal repulsive axon guidance protein", "neural tissue-specific cysteine-rich protein"	612682	"chromosome 1 open reading frame 187"	C1orf187		19150847	Standard	NM_198545		Approved	FLJ34999, Draxin, Neucrin	uc001asr.1	Q8NBI3	OTTHUMG00000002227	ENST00000294485.5:c.915C>T	1.37:g.11775243C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000294485.5	37	CCDS135.1																																																																																				0.582	DRAXIN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006325.1	NM_198545		T	11775243	C	T	11775243	2	4	606	1	0	0	0	0	0	0	0	1	2023	883	31	1		1	C1orf187	1	11775243	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	1344040	11775243	237475378	3	36499										
CASP9	842	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	15844625	15844625	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cgacatcaccaaatcctccaGaaccaatgtccactggtctg	6	15	2	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:15844625G>A	ENST00000333868.5	-	2	492	c.398C>T	c.(397-399)tCt>tTt	p.S133F	CASP9_ENST00000546424.1_Missense_Mutation_p.S133F|CASP9_ENST00000348549.5_Missense_Mutation_p.S133F|CASP9_ENST00000469637.1_5'Flank|CASP9_ENST00000375890.4_Missense_Mutation_p.S50F	NM_001229.3	NP_001220.2	P55211	CASP9_HUMAN	caspase 9, apoptosis-related cysteine peptidase	133					activation of cysteine-type endopeptidase activity involved in apoptotic process by cytochrome c (GO:0008635)|aging (GO:0007568)|apoptotic process (GO:0006915)|cellular response to dexamethasone stimulus (GO:0071549)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to UV (GO:0034644)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|glial cell apoptotic process (GO:0034349)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|platelet formation (GO:0030220)|positive regulation of apoptotic process (GO:0043065)|positive regulation of neuron apoptotic process (GO:0043525)|regulation of apoptotic process (GO:0042981)|regulation of response to DNA damage stimulus (GO:2001020)|response to antibiotic (GO:0046677)|response to cobalt ion (GO:0032025)|response to estradiol (GO:0032355)|response to lipopolysaccharide (GO:0032496)|signal transduction in response to DNA damage (GO:0042770)	apoptosome (GO:0043293)|cytosol (GO:0005829)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	cysteine-type endopeptidase activity (GO:0004197)|enzyme activator activity (GO:0008047)|peptidase activity (GO:0008233)|protein kinase binding (GO:0019901)|SH3 domain binding (GO:0017124)			central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(2)|lung(9)|ovary(1)|prostate(1)|stomach(1)	18		Breast(348;0.000207)|all_lung(284;0.000211)|Colorectal(325;0.000259)|Lung NSC(340;0.000269)|Renal(390;0.000518)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;8.49e-07)|COAD - Colon adenocarcinoma(227;4.36e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00013)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00763)|READ - Rectum adenocarcinoma(331;0.0655)		AAATCCTCCAGAACCAATGTC	0.517																																																0													114	100	105					1																	15844625		2203	4300	6503	SO:0001583	missense	842			U60521	CCDS158.1, CCDS159.1, CCDS159.2, CCDS59995.1	1p36.21	2012-04-17	2005-08-17		ENSG00000132906	ENSG00000132906		"Caspases", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	1511	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 56"	602234	"caspase 9, apoptosis-related cysteine protease"			8663294, 9390557	Standard	NM_001229		Approved	MCH6, ICE-LAP6, APAF-3, PPP1R56	uc001awn.4	P55211	OTTHUMG00000002256	ENST00000333868.5:c.398C>T	1.37:g.15844625G>A	ENSP00000330237:p.Ser133Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B4E1A3|O95348|Q53Y70|Q5JRU9|Q5UGI1|Q92852|Q9BQ62|Q9UEQ3|Q9UIJ8	Missense_Mutation	SNP	ENST00000333868.5	37	CCDS158.1	.	.	.	.	.	.	.	.	.	.	G	8.539	0.872713	0.17322	.	.	ENSG00000132906	ENST00000546424;ENST00000333868;ENST00000348549;ENST00000375890;ENST00000447522;ENST00000440484	T;T;T;T;T;T	0.09445	4.56;4.58;2.98;4.47;3.81;3.51	4.77	3.83	0.44106	.	1.470630	0.03659	N	0.242280	T	0.24586	0.0596	L	0.50333	1.59	0.09310	N	1	D;P;B	0.54207	0.965;0.695;0.137	P;B;B	0.54312	0.748;0.231;0.087	T	0.20042	-1.0287	10	0.66056	D	0.02	.	10.9008	0.47051	0.0:0.1903:0.8097:0.0	.	133;133;133	P55211-2;P55211;F8VVS7	.;CASP9_HUMAN;.	F	133;133;133;50;50;133	ENSP00000449584:S133F;ENSP00000330237:S133F;ENSP00000255256:S133F;ENSP00000365051:S50F;ENSP00000396540:S50F;ENSP00000411304:S133F	ENSP00000330237:S133F	S	-	2	0	CASP9	15717212	0.022000	0.18835	0.150000	0.22450	0.099000	0.18886	1.320000	0.33666	1.330000	0.45394	0.563000	0.77884	TCT		0.517	CASP9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006438.1	NM_032996		A	15844625	G	A	15844625	3	1	606	1	0	0	0	0	1	0	0	0	2681	942	33	2	884	2	CASP9	1	15844625	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	4069382	15844625	233405996	4	36500										
EIF4G3	8672	hgsc.bcm.edu;broad.mit.edu	37	chr1	21188793	21188793	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tttctttctttcacaattttCtccatctgattaaagtactg	3	9	5	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:21188793C>G	ENST00000264211.8	-	17	3065	c.2871G>C	c.(2869-2871)gaG>gaC	p.E957D	EIF4G3_ENST00000536266.1_Missense_Mutation_p.E561D|EIF4G3_ENST00000537738.1_Missense_Mutation_p.E447D|EIF4G3_ENST00000374937.3_Missense_Mutation_p.E963D|EIF4G3_ENST00000400422.1_Missense_Mutation_p.E957D|EIF4G3_ENST00000602326.1_Missense_Mutation_p.E963D|EIF4G3_ENST00000374935.3_Missense_Mutation_p.E677D	NM_003760.4	NP_003751.2	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4 gamma, 3	957	MIF4G. {ECO:0000255|PROSITE- ProRule:PRU00698}.|eIF3/EIF4A-binding. {ECO:0000250}.				cytokine-mediated signaling pathway (GO:0019221)|positive regulation of meiosis I (GO:0060903)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of translation (GO:0045727)|regulation of translational initiation (GO:0006446)|spermatogenesis (GO:0007283)|viral process (GO:0016032)	cytosol (GO:0005829)|eukaryotic translation initiation factor 4F complex (GO:0016281)	poly(A) RNA binding (GO:0044822)|RNA cap binding (GO:0000339)|translation factor activity, nucleic acid binding (GO:0008135)|translation initiation factor activity (GO:0003743)			endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(18)|lung(20)|ovary(1)|prostate(4)|skin(3)|stomach(1)|urinary_tract(3)	70		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		TCACAATTTTCTCCATCTGAT	0.353																																																0													123	119	121					1																	21188793		2203	4300	6503	SO:0001583	missense	8672			AF012072	CCDS214.1, CCDS55580.1, CCDS59192.1, CCDS72723.1	1p36.12	2008-02-05			ENSG00000075151	ENSG00000075151			3298	protein-coding gene	gene with protein product		603929				9418880	Standard	NM_001198801		Approved	eIF4GII	uc001bef.3	O43432	OTTHUMG00000002624	ENST00000264211.8:c.2871G>C	1.37:g.21188793C>G	ENSP00000264211:p.Glu957Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGQ7|Q15597|Q504Z1|Q5SWC3|Q8NEN1	Missense_Mutation	SNP	ENST00000264211.8	37	CCDS214.1	.	.	.	.	.	.	.	.	.	.	C	16.86	3.240150	0.58995	.	.	ENSG00000075151	ENST00000264211;ENST00000400415;ENST00000400422;ENST00000374935;ENST00000537738;ENST00000374937;ENST00000536266	T;T;T;T;T;T	0.25250	1.81;1.81;1.81;1.81;1.81;1.81	5.56	1.54	0.23209	MIF4G-like, type 3 (2);Armadillo-type fold (1);MIF4-like, type 1/2/3 (1);	0.122140	0.56097	D	0.000022	T	0.34454	0.0898	L	0.37561	1.115	0.80722	D	1	D;B;B;D;B	0.89917	1.0;0.035;0.0;0.999;0.392	D;B;B;D;B	0.85130	0.997;0.05;0.011;0.994;0.173	T	0.01484	-1.1343	10	0.27785	T	0.31	-16.9367	9.6933	0.40143	0.0:0.7145:0.0:0.2855	.	1152;677;561;963;957	Q59GJ0;Q504Z1;F5H564;B9EGQ7;O43432	.;.;.;.;IF4G3_HUMAN	D	957;1153;957;677;447;963;561	ENSP00000264211:E957D;ENSP00000383274:E957D;ENSP00000364071:E677D;ENSP00000442010:E447D;ENSP00000364073:E963D;ENSP00000444693:E561D	ENSP00000264211:E957D	E	-	3	2	EIF4G3	21061380	0.678000	0.27586	0.998000	0.56505	0.983000	0.72400	-0.070000	0.11523	0.025000	0.15241	-0.808000	0.03180	GAG		0.353	EIF4G3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000007467.3	NM_003760		G	21188793	C	G	21188793	3	3	606	1	0	0	0	0	1	0	0	0	5040	912	32	4	1946	4	EIF4G3	1	21188793	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	5344168	21188793	228061828	5	36501										
EIF4G3	8672	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	21226358	21226358	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	taggtcagaggggtctctttCaggatgaaacccctggctca	12	10	4	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:21226358C>A	ENST00000264211.8	-	10	1857	c.1663G>T	c.(1663-1665)Gaa>Taa	p.E555*	EIF4G3_ENST00000536266.1_Nonsense_Mutation_p.E159*|EIF4G3_ENST00000537738.1_Nonsense_Mutation_p.E8*|EIF4G3_ENST00000374937.3_Nonsense_Mutation_p.E561*|EIF4G3_ENST00000400422.1_Nonsense_Mutation_p.E555*|EIF4G3_ENST00000602326.1_Nonsense_Mutation_p.E561*|EIF4G3_ENST00000544689.1_Nonsense_Mutation_p.E98*|EIF4G3_ENST00000374935.3_Nonsense_Mutation_p.E275*|EIF4G3_ENST00000374933.3_5'UTR	NM_003760.4	NP_003751.2	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4 gamma, 3	555					cytokine-mediated signaling pathway (GO:0019221)|positive regulation of meiosis I (GO:0060903)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of translation (GO:0045727)|regulation of translational initiation (GO:0006446)|spermatogenesis (GO:0007283)|viral process (GO:0016032)	cytosol (GO:0005829)|eukaryotic translation initiation factor 4F complex (GO:0016281)	poly(A) RNA binding (GO:0044822)|RNA cap binding (GO:0000339)|translation factor activity, nucleic acid binding (GO:0008135)|translation initiation factor activity (GO:0003743)			endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(18)|lung(20)|ovary(1)|prostate(4)|skin(3)|stomach(1)|urinary_tract(3)	70		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		GGGTCTCTTTCAGGATGAAAC	0.403																																																0													163	174	170					1																	21226358		2203	4300	6503	SO:0001587	stop_gained	8672			AF012072	CCDS214.1, CCDS55580.1, CCDS59192.1, CCDS72723.1	1p36.12	2008-02-05			ENSG00000075151	ENSG00000075151			3298	protein-coding gene	gene with protein product		603929				9418880	Standard	NM_001198801		Approved	eIF4GII	uc001bef.3	O43432	OTTHUMG00000002624	ENST00000264211.8:c.1663G>T	1.37:g.21226358C>A	ENSP00000264211:p.Glu555*	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGQ7|Q15597|Q504Z1|Q5SWC3|Q8NEN1	Nonsense_Mutation	SNP	ENST00000264211.8	37	CCDS214.1	.	.	.	.	.	.	.	.	.	.	C	37	6.423410	0.97555	.	.	ENSG00000075151	ENST00000264211;ENST00000400415;ENST00000400422;ENST00000374935;ENST00000537738;ENST00000374937;ENST00000536266;ENST00000374933;ENST00000544689	.	.	.	5.72	5.72	0.89469	.	0.733486	0.13569	N	0.378186	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.41790	T	0.15	-6.563	12.2565	0.54627	0.0:0.9228:0.0:0.0772	.	.	.	.	X	555;751;555;275;8;561;159;98;98	.	ENSP00000264211:E555X	E	-	1	0	EIF4G3	21098945	1.000000	0.71417	1.000000	0.80357	0.919000	0.55068	5.084000	0.64462	2.711000	0.92665	0.644000	0.83932	GAA		0.403	EIF4G3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000007467.3	NM_003760		A	21226358	C	A	21226358	4	1	606	1	0	0	0	0	0	1	0	0	5040	835	29	4	3182	4	EIF4G3	1	21226358	Nonsense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	37565	21226358	228024263	6	36502										
EIF4G3	8672	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	21226427	21226427	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gtcaatggaaagctcctcttCagctttaagctaaataataa	6	8	3	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:21226427C>T	ENST00000264211.8	-	10	1788	c.1594G>A	c.(1594-1596)Gaa>Aaa	p.E532K	EIF4G3_ENST00000536266.1_Missense_Mutation_p.E136K|EIF4G3_ENST00000537738.1_5'Flank|EIF4G3_ENST00000374937.3_Missense_Mutation_p.E538K|EIF4G3_ENST00000400422.1_Missense_Mutation_p.E532K|EIF4G3_ENST00000602326.1_Missense_Mutation_p.E538K|EIF4G3_ENST00000544689.1_Missense_Mutation_p.E75K|EIF4G3_ENST00000374935.3_Missense_Mutation_p.E252K|EIF4G3_ENST00000374933.3_5'UTR	NM_003760.4	NP_003751.2	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4 gamma, 3	532					cytokine-mediated signaling pathway (GO:0019221)|positive regulation of meiosis I (GO:0060903)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of translation (GO:0045727)|regulation of translational initiation (GO:0006446)|spermatogenesis (GO:0007283)|viral process (GO:0016032)	cytosol (GO:0005829)|eukaryotic translation initiation factor 4F complex (GO:0016281)	poly(A) RNA binding (GO:0044822)|RNA cap binding (GO:0000339)|translation factor activity, nucleic acid binding (GO:0008135)|translation initiation factor activity (GO:0003743)			endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(18)|lung(20)|ovary(1)|prostate(4)|skin(3)|stomach(1)|urinary_tract(3)	70		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		AGCTCCTCTTCAGCTTTAAGC	0.358																																																0													95	103	100					1																	21226427		2202	4300	6502	SO:0001583	missense	8672			AF012072	CCDS214.1, CCDS55580.1, CCDS59192.1, CCDS72723.1	1p36.12	2008-02-05			ENSG00000075151	ENSG00000075151			3298	protein-coding gene	gene with protein product		603929				9418880	Standard	NM_001198801		Approved	eIF4GII	uc001bef.3	O43432	OTTHUMG00000002624	ENST00000264211.8:c.1594G>A	1.37:g.21226427C>T	ENSP00000264211:p.Glu532Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGQ7|Q15597|Q504Z1|Q5SWC3|Q8NEN1	Missense_Mutation	SNP	ENST00000264211.8	37	CCDS214.1	.	.	.	.	.	.	.	.	.	.	C	15.51	2.854237	0.51270	.	.	ENSG00000075151	ENST00000264211;ENST00000400415;ENST00000400422;ENST00000374935;ENST00000374937;ENST00000536266;ENST00000374933;ENST00000544689	T;T;T;T;T;D	0.87412	2.05;2.05;1.94;2.05;2.05;-2.25	4.98	4.06	0.47325	.	0.426295	0.27143	N	0.020740	T	0.74809	0.3765	N	0.08118	0	0.80722	D	1	P;P;B;P;B	0.47762	0.9;0.651;0.007;0.546;0.376	B;B;B;B;B	0.40285	0.325;0.115;0.006;0.049;0.099	T	0.78458	-0.2196	10	0.52906	T	0.07	-18.3664	13.2326	0.59951	0.0:0.9233:0.0:0.0767	.	727;252;136;538;532	Q59GJ0;Q504Z1;F5H564;B9EGQ7;O43432	.;.;.;.;IF4G3_HUMAN	K	532;728;532;252;538;136;75;75	ENSP00000264211:E532K;ENSP00000383274:E532K;ENSP00000364071:E252K;ENSP00000364073:E538K;ENSP00000444693:E136K;ENSP00000444401:E75K	ENSP00000264211:E532K	E	-	1	0	EIF4G3	21099014	0.999000	0.42202	0.967000	0.41034	0.284000	0.27059	5.276000	0.65580	1.325000	0.45301	0.644000	0.83932	GAA		0.358	EIF4G3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000007467.3	NM_003760		T	21226427	C	T	21226427	3	4	606	1	0	0	0	0	1	0	0	0	5040	835	29	2	3251	2	EIF4G3	1	21226427	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	69	21226427	228024194	7	36503										
CDC42	998	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	22413230	22413230	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gttgggactcaaattgatctCagagatgacccctctactat	8	10	3	3	rs143448220		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:22413230C>G	ENST00000344548.3	+	6	608	c.357C>G	c.(355-357)ctC>ctG	p.L119L	CDC42_ENST00000315554.8_Silent_p.L119L|CDC42_ENST00000421089.2_Silent_p.L161L|CDC42_ENST00000400259.1_Silent_p.L119L|CDC42_ENST00000498236.1_3'UTR	NM_001039802.1	NP_001034891.1	P60953	CDC42_HUMAN	cell division cycle 42	119					actin cytoskeleton organization (GO:0030036)|actin filament branching (GO:0090135)|actin filament bundle assembly (GO:0051017)|adherens junction organization (GO:0034332)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|canonical Wnt signaling pathway (GO:0060070)|cardiac conduction system development (GO:0003161)|cellular protein localization (GO:0034613)|dendritic cell migration (GO:0036336)|epidermal growth factor receptor signaling pathway (GO:0007173)|epithelial cell-cell adhesion (GO:0090136)|epithelial-mesenchymal cell signaling (GO:0060684)|establishment of Golgi localization (GO:0051683)|establishment or maintenance of apical/basal cell polarity (GO:0035088)|establishment or maintenance of cell polarity (GO:0007163)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|filopodium assembly (GO:0046847)|Golgi organization (GO:0007030)|GTP catabolic process (GO:0006184)|hair follicle morphogenesis (GO:0031069)|hair follicle placode formation (GO:0060789)|heart contraction (GO:0060047)|innate immune response (GO:0045087)|keratinization (GO:0031424)|keratinocyte development (GO:0003334)|macrophage differentiation (GO:0030225)|multicellular organism growth (GO:0035264)|muscle cell differentiation (GO:0042692)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|negative regulation of gene expression (GO:0010629)|negative regulation of protein complex assembly (GO:0031333)|neuron fate determination (GO:0048664)|nuclear migration (GO:0007097)|nucleus localization (GO:0051647)|organelle transport along microtubule (GO:0072384)|positive regulation of cytokinesis (GO:0032467)|positive regulation of DNA replication (GO:0045740)|positive regulation of gene expression (GO:0010628)|positive regulation of hair follicle cell proliferation (GO:0071338)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of JNK cascade (GO:0046330)|positive regulation of metalloenzyme activity (GO:0048554)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of pseudopodium assembly (GO:0031274)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|positive regulation of synapse structural plasticity (GO:0051835)|regulation of attachment of spindle microtubules to kinetochore (GO:0051988)|regulation of filopodium assembly (GO:0051489)|regulation of mitosis (GO:0007088)|regulation of protein catabolic process (GO:0042176)|regulation of protein heterodimerization activity (GO:0043497)|regulation of protein kinase activity (GO:0045859)|regulation of protein stability (GO:0031647)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|sprouting angiogenesis (GO:0002040)|submandibular salivary gland formation (GO:0060661)|substantia nigra development (GO:0021762)|T cell costimulation (GO:0031295)	apical part of cell (GO:0045177)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|Golgi membrane (GO:0000139)|leading edge membrane (GO:0031256)|membrane (GO:0016020)|midbody (GO:0030496)|mitotic spindle (GO:0072686)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|secretory granule (GO:0030141)|spindle midzone (GO:0051233)	apolipoprotein A-I receptor binding (GO:0034191)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|identical protein binding (GO:0042802)|protein kinase binding (GO:0019901)|thioesterase binding (GO:0031996)			NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(1)|lung(4)	12		Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;6.55e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)|Prostate(1639;0.0792)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0452)|OV - Ovarian serous cystadenocarcinoma(117;7.32e-26)|Colorectal(126;1.35e-07)|COAD - Colon adenocarcinoma(152;7.73e-06)|GBM - Glioblastoma multiforme(114;8.62e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000649)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00767)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.207)		AAATTGATCTCAGAGATGACC	0.438																																																0													167	181	177					1																	22413230		2203	4300	6503	SO:0001819	synonymous_variant	998			BC018266	CCDS221.1, CCDS222.1	1p36.1	2013-01-17	2013-01-17		ENSG00000070831	ENSG00000070831			1736	protein-coding gene	gene with protein product	"GTP binding protein, 25kDa"	116952	"cell division cycle 42 (GTP-binding protein, 25kD)", "cell division cycle 42 (GTP binding protein, 25kDa)"			2124704, 2122236	Standard	NM_001039802		Approved	G25K, CDC42Hs	uc001bfr.3	P60953	OTTHUMG00000002753	ENST00000344548.3:c.357C>G	1.37:g.22413230C>G		Somatic		WXS	Illumina HiSeq	Phase_I	P21181|P25763|Q7L8R5|Q9UDI2	Silent	SNP	ENST00000344548.3	37	CCDS221.1																																																																																				0.438	CDC42-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000007787.1	NM_001791		G	22413230	C	G	22413230	2	3	606	1	0	0	0	0	0	0	0	1	3073	813	29	4		4	CDC42	1	22413230	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	1186803	22413230	226837391	8	36504										
CDC42	998	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	22413329	22413329	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gcccgtgacctgaaggctgtCaagtatgtggagtgttctgc	14	9	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:22413329C>G	ENST00000344548.3	+	6	707	c.456C>G	c.(454-456)gtC>gtG	p.V152V	CDC42_ENST00000315554.8_Silent_p.V152V|CDC42_ENST00000421089.2_Silent_p.V194V|CDC42_ENST00000400259.1_Silent_p.V152V|CDC42_ENST00000498236.1_3'UTR	NM_001039802.1	NP_001034891.1	P60953	CDC42_HUMAN	cell division cycle 42	152					actin cytoskeleton organization (GO:0030036)|actin filament branching (GO:0090135)|actin filament bundle assembly (GO:0051017)|adherens junction organization (GO:0034332)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|canonical Wnt signaling pathway (GO:0060070)|cardiac conduction system development (GO:0003161)|cellular protein localization (GO:0034613)|dendritic cell migration (GO:0036336)|epidermal growth factor receptor signaling pathway (GO:0007173)|epithelial cell-cell adhesion (GO:0090136)|epithelial-mesenchymal cell signaling (GO:0060684)|establishment of Golgi localization (GO:0051683)|establishment or maintenance of apical/basal cell polarity (GO:0035088)|establishment or maintenance of cell polarity (GO:0007163)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|filopodium assembly (GO:0046847)|Golgi organization (GO:0007030)|GTP catabolic process (GO:0006184)|hair follicle morphogenesis (GO:0031069)|hair follicle placode formation (GO:0060789)|heart contraction (GO:0060047)|innate immune response (GO:0045087)|keratinization (GO:0031424)|keratinocyte development (GO:0003334)|macrophage differentiation (GO:0030225)|multicellular organism growth (GO:0035264)|muscle cell differentiation (GO:0042692)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|negative regulation of gene expression (GO:0010629)|negative regulation of protein complex assembly (GO:0031333)|neuron fate determination (GO:0048664)|nuclear migration (GO:0007097)|nucleus localization (GO:0051647)|organelle transport along microtubule (GO:0072384)|positive regulation of cytokinesis (GO:0032467)|positive regulation of DNA replication (GO:0045740)|positive regulation of gene expression (GO:0010628)|positive regulation of hair follicle cell proliferation (GO:0071338)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of JNK cascade (GO:0046330)|positive regulation of metalloenzyme activity (GO:0048554)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of pseudopodium assembly (GO:0031274)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|positive regulation of synapse structural plasticity (GO:0051835)|regulation of attachment of spindle microtubules to kinetochore (GO:0051988)|regulation of filopodium assembly (GO:0051489)|regulation of mitosis (GO:0007088)|regulation of protein catabolic process (GO:0042176)|regulation of protein heterodimerization activity (GO:0043497)|regulation of protein kinase activity (GO:0045859)|regulation of protein stability (GO:0031647)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|sprouting angiogenesis (GO:0002040)|submandibular salivary gland formation (GO:0060661)|substantia nigra development (GO:0021762)|T cell costimulation (GO:0031295)	apical part of cell (GO:0045177)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|Golgi membrane (GO:0000139)|leading edge membrane (GO:0031256)|membrane (GO:0016020)|midbody (GO:0030496)|mitotic spindle (GO:0072686)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|secretory granule (GO:0030141)|spindle midzone (GO:0051233)	apolipoprotein A-I receptor binding (GO:0034191)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|identical protein binding (GO:0042802)|protein kinase binding (GO:0019901)|thioesterase binding (GO:0031996)			NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(1)|lung(4)	12		Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;6.55e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)|Prostate(1639;0.0792)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0452)|OV - Ovarian serous cystadenocarcinoma(117;7.32e-26)|Colorectal(126;1.35e-07)|COAD - Colon adenocarcinoma(152;7.73e-06)|GBM - Glioblastoma multiforme(114;8.62e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000649)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00767)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.207)		TGAAGGCTGTCAAGTATGTGG	0.448																																																0													148	150	149					1																	22413329		2203	4300	6503	SO:0001819	synonymous_variant	998			BC018266	CCDS221.1, CCDS222.1	1p36.1	2013-01-17	2013-01-17		ENSG00000070831	ENSG00000070831			1736	protein-coding gene	gene with protein product	"GTP binding protein, 25kDa"	116952	"cell division cycle 42 (GTP-binding protein, 25kD)", "cell division cycle 42 (GTP binding protein, 25kDa)"			2124704, 2122236	Standard	NM_001039802		Approved	G25K, CDC42Hs	uc001bfr.3	P60953	OTTHUMG00000002753	ENST00000344548.3:c.456C>G	1.37:g.22413329C>G		Somatic		WXS	Illumina HiSeq	Phase_I	P21181|P25763|Q7L8R5|Q9UDI2	Silent	SNP	ENST00000344548.3	37	CCDS221.1																																																																																				0.448	CDC42-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000007787.1	NM_001791		G	22413329	C	G	22413329	2	3	606	1	0	0	0	0	0	0	0	1	3073	813	29	4		4	CDC42	1	22413329	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	99	22413329	226837292	9	36505										
INPP5B	3633	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	38328025	38328025	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gaactggtgaataaattcttGagccttcttcttctctgtca	7	9	5	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:38328025G>C	ENST00000373026.1	-	23	2944	c.2944C>G	c.(2944-2946)Caa>Gaa	p.Q982E	INPP5B_ENST00000373027.1_Missense_Mutation_p.Q738E|MTF1_ENST00000373036.4_5'Flank|INPP5B_ENST00000373024.3_Missense_Mutation_p.Q902E|INPP5B_ENST00000373023.2_Missense_Mutation_p.Q982E|RP11-109P14.10_ENST00000419993.1_RNA			P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	982	Rho-GAP. {ECO:0000255|PROSITE- ProRule:PRU00172}.				in utero embryonic development (GO:0001701)|inositol phosphate metabolic process (GO:0043647)|phosphatidylinositol dephosphorylation (GO:0046856)|regulation of protein processing (GO:0070613)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|small molecule metabolic process (GO:0044281)|sperm motility (GO:0030317)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|plasma membrane (GO:0005886)	inositol-1,4,5-trisphosphate 5-phosphatase activity (GO:0052658)|metal ion binding (GO:0046872)|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity (GO:0004439)			breast(1)|endometrium(2)|large_intestine(1)|liver(1)|lung(9)|urinary_tract(1)	15	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				ATAAATTCTTGAGCCTTCTTC	0.453																																																0													121	118	119					1																	38328025		1860	4104	5964	SO:0001583	missense	3633			M74161	CCDS41306.1, CCDS72760.1	1p34	2008-02-05	2002-08-29		ENSG00000204084	ENSG00000204084	3.1.3.56		6077	protein-coding gene	gene with protein product		147264	"inositol polyphosphate-5-phosphatase, 75kD"			1718960	Standard	NM_005540		Approved		uc001ccg.1	P32019	OTTHUMG00000004436	ENST00000373026.1:c.2944C>G	1.37:g.38328025G>C	ENSP00000362117:p.Gln982Glu	Somatic		WXS	Illumina HiSeq	Phase_I	C9J6U5|Q5VSG9|Q5VSH0|Q5VSH1|Q658Q5|Q6P6D4|Q6PD53|Q86YE1	Missense_Mutation	SNP	ENST00000373026.1	37		.	.	.	.	.	.	.	.	.	.	G	14.26	2.482316	0.44147	.	.	ENSG00000204084	ENST00000373027;ENST00000373023;ENST00000373026;ENST00000373024	T;T;T;T	0.42900	0.96;0.96;0.96;0.96	5.63	5.63	0.86233	.	0.000000	0.85682	D	0.000000	T	0.45637	0.1352	L	0.56769	1.78	0.80722	D	1	P	0.44241	0.829	B	0.43274	0.414	T	0.23368	-1.0190	10	0.17832	T	0.49	.	20.054	0.97641	0.0:0.0:1.0:0.0	.	902	P32019-2	.	E	738;982;982;902	ENSP00000362118:Q738E;ENSP00000362114:Q982E;ENSP00000362117:Q982E;ENSP00000362115:Q902E	ENSP00000362114:Q982E	Q	-	1	0	INPP5B	38100612	1.000000	0.71417	1.000000	0.80357	0.958000	0.62258	8.101000	0.89546	2.808000	0.96608	0.655000	0.94253	CAA		0.453	INPP5B-003	KNOWN	non_canonical_conserved|basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000012968.1	NM_005540		C	38328025	G	C	38328025	3	2	606	1	0	0	0	0	1	0	0	0	7762	1299	45	4	41	4	INPP5B	1	38328025	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	15914696	38328025	210922596	10	36506										
INPP5B	3633	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	38338748	38338748	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cctgtccaagtgcagaaccaGaatgtcctcaattttgtctt	7	11	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:38338748G>A	ENST00000373026.1	-	18	2281	c.2281C>T	c.(2281-2283)Ctg>Ttg	p.L761L	INPP5B_ENST00000373027.1_Silent_p.L517L|INPP5B_ENST00000373024.3_Silent_p.L681L|INPP5B_ENST00000373023.2_Silent_p.L761L			P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	761	ASH. {ECO:0000250}.				in utero embryonic development (GO:0001701)|inositol phosphate metabolic process (GO:0043647)|phosphatidylinositol dephosphorylation (GO:0046856)|regulation of protein processing (GO:0070613)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|small molecule metabolic process (GO:0044281)|sperm motility (GO:0030317)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|plasma membrane (GO:0005886)	inositol-1,4,5-trisphosphate 5-phosphatase activity (GO:0052658)|metal ion binding (GO:0046872)|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity (GO:0004439)			breast(1)|endometrium(2)|large_intestine(1)|liver(1)|lung(9)|urinary_tract(1)	15	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TGCAGAACCAGAATGTCCTCA	0.438																																																0													207	193	198					1																	38338748		1876	4120	5996	SO:0001819	synonymous_variant	3633			M74161	CCDS41306.1, CCDS72760.1	1p34	2008-02-05	2002-08-29		ENSG00000204084	ENSG00000204084	3.1.3.56		6077	protein-coding gene	gene with protein product		147264	"inositol polyphosphate-5-phosphatase, 75kD"			1718960	Standard	NM_005540		Approved		uc001ccg.1	P32019	OTTHUMG00000004436	ENST00000373026.1:c.2281C>T	1.37:g.38338748G>A		Somatic		WXS	Illumina HiSeq	Phase_I	C9J6U5|Q5VSG9|Q5VSH0|Q5VSH1|Q658Q5|Q6P6D4|Q6PD53|Q86YE1	Silent	SNP	ENST00000373026.1	37																																																																																					0.438	INPP5B-003	KNOWN	non_canonical_conserved|basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000012968.1	NM_005540		A	38338748	G	A	38338748	2	1	606	1	0	0	0	0	0	0	0	1	7762	933	33	2		2	INPP5B	1	38338748	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	10723	38338748	210911873	11	36507										
BMP8A	353500	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	39991443	39991443	+	Frame_Shift_Del	DEL	G	G	-													0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctgcgcaagcaccgcaacatGgtggtcaaggcctgcggctg							TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:39991443delG	ENST00000331593.5	+	7	1528	c.1182delG	c.(1180-1182)atgfs	p.M394fs	RP11-69E11.4_ENST00000331856.2_RNA|RP11-69E11.4_ENST00000417869.1_RNA|RP11-69E11.4_ENST00000458207.1_RNA|RP11-69E11.4_ENST00000440190.1_RNA|RP11-69E11.4_ENST00000431553.1_RNA|RP11-69E11.4_ENST00000450157.1_RNA|RP11-69E11.4_ENST00000441741.1_RNA	NM_181809.3	NP_861525.2	Q7Z5Y6	BMP8A_HUMAN	bone morphogenetic protein 8a	394					cartilage development (GO:0051216)|cell differentiation (GO:0030154)|diet induced thermogenesis (GO:0002024)|growth (GO:0040007)|negative regulation of insulin secretion (GO:0046676)|ossification (GO:0001503)|regulation of energy homeostasis (GO:2000505)	extracellular space (GO:0005615)				kidney(1)|large_intestine(2)|lung(1)|skin(1)	5	Lung NSC(20;2.08e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;9.69e-19)|Epithelial(16;9.34e-17)|all cancers(16;1.73e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			ACCGCAACATGGTGGTCAAGG	0.612																																																0													135	111	119					1																	39991443		2203	4300	6503	SO:0001589	frameshift_variant	353500			AY303954	CCDS437.1	1p35-p32	2014-01-30			ENSG00000183682	ENSG00000183682		"Bone morphogenetic proteins", "Endogenous ligands"	21650	protein-coding gene	gene with protein product							Standard	NM_181809		Approved		uc001cdi.3	Q7Z5Y6	OTTHUMG00000008394	ENST00000331593.5:c.1182delG	1.37:g.39991443delG	ENSP00000327440:p.Met394fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3A5	Frame_Shift_Del	DEL	ENST00000331593.5	37	CCDS437.1																																																																																				0.612	BMP8A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023079.1	NM_181809		-	39991443	G	-	39991443	7	5	606	1	0	1	0	1	0	0	0	0	1466	1348	47	0	1208	0	BMP8A	1	39991443	Frame_Shift_Del	DEL	G	TCGA-HE-7130-01A-11D-1961-08	1652695	39991443	209259178	12	36508										
PTPRF	5792	broad.mit.edu;bcgsc.ca	37	chr1	44063474	44063474	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	agcatgggctccaccacggtCcgggtaagttgggtcccgcc	14	14	0	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:44063474C>T	ENST00000359947.4	+	12	2209	c.1869C>T	c.(1867-1869)gtC>gtT	p.V623V	PTPRF_ENST00000438120.1_Silent_p.V623V|PTPRF_ENST00000422171.2_Intron|PTPRF_ENST00000372414.3_Silent_p.V623V|PTPRF_ENST00000372413.3_Silent_p.V623V	NM_002840.3	NP_002831.2	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	623	Fibronectin type-III 4. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell adhesion (GO:0007155)|cell migration (GO:0016477)|negative regulation of receptor binding (GO:1900121)|peptidyl-tyrosine dephosphorylation (GO:0035335)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	heparin binding (GO:0008201)|protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(2)|breast(4)|central_nervous_system(3)|endometrium(9)|kidney(4)|large_intestine(11)|liver(1)|lung(24)|ovary(4)|prostate(2)|skin(5)|upper_aerodigestive_tract(3)	72	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CCACCACGGTCCGGGTAAGTT	0.687																																																0													23	23	23					1																	44063474		2203	4299	6502	SO:0001819	synonymous_variant	5792			Y00815	CCDS489.2, CCDS490.2	1p34	2013-02-11			ENSG00000142949	ENSG00000142949		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	9670	protein-coding gene	gene with protein product		179590		LAR		7558042	Standard	NM_130440		Approved		uc001cjr.3	P10586	OTTHUMG00000007501	ENST00000359947.4:c.1869C>T	1.37:g.44063474C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DPX6|D3DPX7|Q5T021|Q5T022|Q5W9G2|Q86WS0	Silent	SNP	ENST00000359947.4	37	CCDS489.2	.	.	.	.	.	.	.	.	.	.	C	9.661	1.144186	0.21205	.	.	ENSG00000142949	ENST00000429895	.	.	.	3.36	2.43	0.29744	.	.	.	.	.	T	0.59649	0.2209	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.54403	-0.8299	4	.	.	.	.	10.5636	0.45161	0.0:0.9017:0.0:0.0983	.	.	.	.	F	280	.	.	S	+	2	0	PTPRF	43836061	1.000000	0.71417	1.000000	0.80357	0.937000	0.57800	1.537000	0.36083	0.544000	0.28883	0.313000	0.20887	TCC		0.687	PTPRF-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000019710.1			T	44063474	C	T	44063474	2	4	606	1	0	0	0	0	0	0	0	1	12814	842	30	2		2	PTPRF	1	44063474	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	4072031	44063474	205187147	13	36509										
PTPRF	5792	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	44063522	44063522	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gacagccgcaacggcgttatCacccagtactccgtggccta	10	15	1	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:44063522C>T	ENST00000359947.4	+	12	2257	c.1917C>T	c.(1915-1917)atC>atT	p.I639I	PTPRF_ENST00000438120.1_Silent_p.I639I|PTPRF_ENST00000422171.2_Intron|PTPRF_ENST00000372414.3_Silent_p.I639I|PTPRF_ENST00000372413.3_Silent_p.I639I	NM_002840.3	NP_002831.2	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	639	Fibronectin type-III 4. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell adhesion (GO:0007155)|cell migration (GO:0016477)|negative regulation of receptor binding (GO:1900121)|peptidyl-tyrosine dephosphorylation (GO:0035335)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	heparin binding (GO:0008201)|protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(2)|breast(4)|central_nervous_system(3)|endometrium(9)|kidney(4)|large_intestine(11)|liver(1)|lung(24)|ovary(4)|prostate(2)|skin(5)|upper_aerodigestive_tract(3)	72	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				ACGGCGTTATCACCCAGTACT	0.682																																																0													36	35	35					1																	44063522		2203	4299	6502	SO:0001819	synonymous_variant	5792			Y00815	CCDS489.2, CCDS490.2	1p34	2013-02-11			ENSG00000142949	ENSG00000142949		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	9670	protein-coding gene	gene with protein product		179590		LAR		7558042	Standard	NM_130440		Approved		uc001cjr.3	P10586	OTTHUMG00000007501	ENST00000359947.4:c.1917C>T	1.37:g.44063522C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DPX6|D3DPX7|Q5T021|Q5T022|Q5W9G2|Q86WS0	Silent	SNP	ENST00000359947.4	37	CCDS489.2	.	.	.	.	.	.	.	.	.	.	C	6.416	0.444943	0.12164	.	.	ENSG00000142949	ENST00000429895	.	.	.	3.36	2.39	0.29439	.	.	.	.	.	T	0.53965	0.1829	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.50101	-0.8867	4	.	.	.	.	6.7821	0.23652	0.1746:0.725:0.0:0.1004	.	.	.	.	L	296	.	.	S	+	2	0	PTPRF	43836109	0.931000	0.31567	0.996000	0.52242	0.537000	0.34900	0.201000	0.17276	1.613000	0.50231	0.313000	0.20887	TCA		0.682	PTPRF-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000019710.1			T	44063522	C	T	44063522	2	4	606	1	0	0	0	0	0	0	0	1	12814	816	29	2		2	PTPRF	1	44063522	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	48	44063522	205187099	14	36510										
CCDC18	343099	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	93705376	93705376	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ttaagacaactccaggaattGagagatgtactacagaaggc	10	7	0	4			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:93705376G>C	ENST00000343253.7	+	21	3403	c.2901G>C	c.(2899-2901)ttG>ttC	p.L967F	CCDC18_ENST00000334652.5_Missense_Mutation_p.E261Q|CCDC18_ENST00000401026.3_Missense_Mutation_p.L968F|CCDC18_ENST00000338949.4_Missense_Mutation_p.L723F|CCDC18_ENST00000557479.1_Missense_Mutation_p.L1086F			Q5T9S5	CCD18_HUMAN	coiled-coil domain containing 18	967										breast(5)|endometrium(3)|kidney(1)|large_intestine(6)|lung(19)|ovary(3)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	42		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)		TCCAGGAATTGAGAGATGTAC	0.343																																																0													100	91	94					1																	93705376		1815	4083	5898	SO:0001583	missense	343099					1p22.1	2008-02-05			ENSG00000122483	ENSG00000122483			30370	protein-coding gene	gene with protein product						12601173	Standard	XM_006710609		Approved	NY-SAR-41	uc021opx.1	Q5T9S5	OTTHUMG00000010598	ENST00000343253.7:c.2901G>C	1.37:g.93705376G>C	ENSP00000343377:p.Leu967Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZU17	Missense_Mutation	SNP	ENST00000343253.7	37		.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	G|G|G	17.75|17.75|17.75	3.466942|3.466942|3.466942	0.63625|0.63625|0.63625	.|.|.	.|.|.	ENSG00000122483|ENSG00000122483|ENSG00000122483	ENST00000334652|ENST00000343253;ENST00000401026;ENST00000557479;ENST00000338949;ENST00000455267|ENST00000370276	.|T;T|.	.|0.78707|.	.|-1.2;-1.2|.	5.83|5.83|5.83	5.83|5.83|5.83	0.93111|0.93111|0.93111	.|.|.	.|0.000000|.	.|0.64402|.	.|D|.	.|0.000002|.	T|T|.	0.41534|0.41534|.	0.1163|0.1163|.	L|L|L	0.58101|0.58101|0.58101	1.795|1.795|1.795	0.22066|0.22066|0.22066	N|N|N	0.999385|0.999385|0.999385	.|D;D|.	.|0.89917|.	.|1.0;1.0|.	.|D;D|.	.|0.91635|.	.|0.999;0.999|.	T|T|.	0.36986|0.36986|.	-0.9725|-0.9725|.	6|10|.	0.87932|0.62326|.	D|D|.	0|0.03|.	.|.|.	13.3361|13.3361|13.3361	0.60518|0.60518|0.60518	0.0719:0.0:0.9281:0.0|0.0719:0.0:0.9281:0.0|0.0719:0.0:0.9281:0.0	.|.|.	.|967;1086|.	.|Q5T9S5;G3V388|.	.|CCD18_HUMAN;.|.	Q|F|S	261|967;968;1086;723;643|1021	.|ENSP00000383808:L968F;ENSP00000451099:L1086F|.	ENSP00000334084:E261Q|ENSP00000344380:L723F|.	E|L|X	+|+|+	1|3|2	0|2|2	CCDC18|CCDC18|CCDC18	93477964|93477964|93477964	1.000000|1.000000|1.000000	0.71417|0.71417|0.71417	1.000000|1.000000|1.000000	0.80357|0.80357|0.80357	0.996000|0.996000|0.996000	0.88848|0.88848|0.88848	1.479000|1.479000|1.479000	0.35453|0.35453|0.35453	2.749000|2.749000|2.749000	0.94314|0.94314|0.94314	0.650000|0.650000|0.650000	0.86243|0.86243|0.86243	GAG|TTG|TGA		0.343	CCDC18-008	PUTATIVE	basic|appris_principal|exp_conf	protein_coding	protein_coding	OTTHUMT00000382327.1	NM_206886		C	93705376	G	C	93705376	3	2	606	1	0	0	0	0	1	0	0	0	2796	1281	45	4	3340	4	CCDC18	1	93705376	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	49641854	93705376	155545245	15	36511										
DDX20	11218	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	112309171	112309171	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gaagtgacacccccaatccaGagaaatatcaagaatcacct	6	12	2	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:112309171G>A	ENST00000369702.4	+	11	2745	c.2125G>A	c.(2125-2127)Gag>Aag	p.E709K	DDX20_ENST00000475700.1_Missense_Mutation_p.E317K	NM_007204.4	NP_009135.4	Q9UHI6	DDX20_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 20	709					ATP catabolic process (GO:0006200)|gene expression (GO:0010467)|ncRNA metabolic process (GO:0034660)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|oogenesis (GO:0048477)|positive regulation of apoptotic process (GO:0043065)|regulation of steroid biosynthetic process (GO:0050810)|RNA metabolic process (GO:0016070)|RNA processing (GO:0006396)|spliceosomal snRNP assembly (GO:0000387)|spliceosomal tri-snRNP complex assembly (GO:0000244)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SMN complex (GO:0032797)|SMN-Sm protein complex (GO:0034719)|transcriptional repressor complex (GO:0017053)	ATP binding (GO:0005524)|ATP-dependent RNA helicase activity (GO:0004004)|DNA binding (GO:0003677)			endometrium(3)|kidney(7)|large_intestine(6)|lung(3)|pancreas(1)|prostate(1)	21		all_cancers(81;1.06e-05)|all_epithelial(167;7.36e-06)|all_lung(203;2.44e-05)|Lung NSC(69;4.15e-05)		Lung(183;0.0234)|Colorectal(144;0.0282)|all cancers(265;0.0614)|Epithelial(280;0.0999)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCCCAATCCAGAGAAATATCA	0.478																																																0													68	71	70					1																	112309171		2203	4299	6502	SO:0001583	missense	11218			AF106019	CCDS842.1	1p21.1-p13.2	2008-02-05	2003-06-13		ENSG00000064703	ENSG00000064703		"DEAD-boxes"	2743	protein-coding gene	gene with protein product		606168	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 20, 103kD"			10383418	Standard	NM_007204		Approved	DP103, GEMIN3	uc001ebs.3	Q9UHI6	OTTHUMG00000011956	ENST00000369702.4:c.2125G>A	1.37:g.112309171G>A	ENSP00000358716:p.Glu709Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DWV7|Q96F72|Q9NVM3|Q9UF59|Q9UIY0|Q9Y659	Missense_Mutation	SNP	ENST00000369702.4	37	CCDS842.1	.	.	.	.	.	.	.	.	.	.	G	4.428	0.079164	0.08533	.	.	ENSG00000064703	ENST00000369702;ENST00000475700	T;T	0.35048	1.33;1.89	5.71	5.71	0.89125	.	1.938660	0.01863	N	0.036737	T	0.13457	0.0326	N	0.19112	0.55	0.23893	N	0.996542	B;B	0.30973	0.302;0.09	B;B	0.33620	0.167;0.016	T	0.19289	-1.0310	9	.	.	.	0.764	8.6694	0.34140	0.0762:0.0:0.7714:0.1524	.	317;709	E9PJ60;Q9UHI6	.;DDX20_HUMAN	K	709;317	ENSP00000358716:E709K;ENSP00000435660:E317K	.	E	+	1	0	DDX20	112110694	0.080000	0.21391	0.034000	0.17996	0.052000	0.14988	2.490000	0.45294	2.703000	0.92315	0.655000	0.94253	GAG		0.478	DDX20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033063.2	NM_007204		A	112309171	G	A	112309171	3	1	606	1	0	0	0	0	1	0	0	0	4350	943	33	2	2167	2	DDX20	1	112309171	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	18603795	112309171	136941450	16	36512										
DDX20	11218	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	112309315	112309315	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cccaggaagatgattggtatGactgtcatagggaaatacgt	12	6	1	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:112309315G>A	ENST00000369702.4	+	11	2889	c.2269G>A	c.(2269-2271)Gac>Aac	p.D757N	DDX20_ENST00000475700.1_Missense_Mutation_p.D365N	NM_007204.4	NP_009135.4	Q9UHI6	DDX20_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 20	757					ATP catabolic process (GO:0006200)|gene expression (GO:0010467)|ncRNA metabolic process (GO:0034660)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|oogenesis (GO:0048477)|positive regulation of apoptotic process (GO:0043065)|regulation of steroid biosynthetic process (GO:0050810)|RNA metabolic process (GO:0016070)|RNA processing (GO:0006396)|spliceosomal snRNP assembly (GO:0000387)|spliceosomal tri-snRNP complex assembly (GO:0000244)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SMN complex (GO:0032797)|SMN-Sm protein complex (GO:0034719)|transcriptional repressor complex (GO:0017053)	ATP binding (GO:0005524)|ATP-dependent RNA helicase activity (GO:0004004)|DNA binding (GO:0003677)			endometrium(3)|kidney(7)|large_intestine(6)|lung(3)|pancreas(1)|prostate(1)	21		all_cancers(81;1.06e-05)|all_epithelial(167;7.36e-06)|all_lung(203;2.44e-05)|Lung NSC(69;4.15e-05)		Lung(183;0.0234)|Colorectal(144;0.0282)|all cancers(265;0.0614)|Epithelial(280;0.0999)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGATTGGTATGACTGTCATAG	0.478																																																0													101	100	100					1																	112309315		2203	4300	6503	SO:0001583	missense	11218			AF106019	CCDS842.1	1p21.1-p13.2	2008-02-05	2003-06-13		ENSG00000064703	ENSG00000064703		"DEAD-boxes"	2743	protein-coding gene	gene with protein product		606168	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 20, 103kD"			10383418	Standard	NM_007204		Approved	DP103, GEMIN3	uc001ebs.3	Q9UHI6	OTTHUMG00000011956	ENST00000369702.4:c.2269G>A	1.37:g.112309315G>A	ENSP00000358716:p.Asp757Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B4DWV7|Q96F72|Q9NVM3|Q9UF59|Q9UIY0|Q9Y659	Missense_Mutation	SNP	ENST00000369702.4	37	CCDS842.1	.	.	.	.	.	.	.	.	.	.	G	14.36	2.512691	0.44660	.	.	ENSG00000064703	ENST00000369702;ENST00000475700	T;T	0.35789	1.29;1.76	5.6	3.73	0.42828	.	0.820184	0.11606	N	0.547319	T	0.17238	0.0414	L	0.56769	1.78	0.44694	D	0.997688	B;B	0.29085	0.232;0.028	B;B	0.29176	0.099;0.018	T	0.04678	-1.0934	9	.	.	.	-7.2593	7.781	0.29064	0.144:0.1328:0.7233:0.0	.	365;757	E9PJ60;Q9UHI6	.;DDX20_HUMAN	N	757;365	ENSP00000358716:D757N;ENSP00000435660:D365N	.	D	+	1	0	DDX20	112110838	0.454000	0.25728	0.673000	0.29887	0.131000	0.20780	1.414000	0.34736	0.738000	0.32606	0.655000	0.94253	GAC		0.478	DDX20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033063.2	NM_007204		A	112309315	G	A	112309315	3	1	606	1	0	0	0	0	1	0	0	0	4350	1290	45	2	2311	2	DDX20	1	112309315	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	144	112309315	136941306	17	36513										
ST7L	54879	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	113124686	113124686	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aagtgattctaagagattttCatggatgttcaacatggtaa	9	4	3	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:113124686C>T	ENST00000358039.4	-	9	1301	c.997G>A	c.(997-999)Gaa>Aaa	p.E333K	ST7L_ENST00000490067.1_Missense_Mutation_p.E316K|ST7L_ENST00000538187.1_Missense_Mutation_p.E277K|ST7L_ENST00000369668.2_Missense_Mutation_p.E333K|ST7L_ENST00000544629.1_Missense_Mutation_p.E268K|ST7L_ENST00000343210.7_Missense_Mutation_p.E333K|ST7L_ENST00000360743.4_Missense_Mutation_p.E333K|ST7L_ENST00000463235.1_5'UTR|ST7L_ENST00000543570.1_Missense_Mutation_p.E316K|ST7L_ENST00000369669.1_Missense_Mutation_p.E150K|ST7L_ENST00000369666.1_Missense_Mutation_p.E316K	NM_017744.4|NM_138727.3	NP_060214.2|NP_620055.1	Q8TDW4	ST7L_HUMAN	suppression of tumorigenicity 7 like	333					negative regulation of cell growth (GO:0030308)	integral component of membrane (GO:0016021)				endometrium(1)|kidney(4)|large_intestine(3)|lung(1)|prostate(2)|stomach(1)|urinary_tract(3)	15	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AAGAGATTTTCATGGATGTTC	0.343																																																0													107	107	107					1																	113124686		2203	4299	6502	SO:0001583	missense	54879			AB081317	CCDS848.1, CCDS849.1, CCDS850.1, CCDS852.1	1p13.1	2008-06-06			ENSG00000007341	ENSG00000007341			18441	protein-coding gene	gene with protein product						12012006	Standard	NM_138729		Approved	FLJ20284, STLR, ST7R, FAM4B	uc001ecd.3	Q8TDW4	OTTHUMG00000011753	ENST00000358039.4:c.997G>A	1.37:g.113124686C>T	ENSP00000350734:p.Glu333Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4S7|Q49AH6|Q5TEI4|Q5U5K6|Q6N067|Q7Z2Z0|Q7Z3C2|Q8N7P8|Q8TDW1|Q8TDW2|Q8TDW3|Q9NXF3	Missense_Mutation	SNP	ENST00000358039.4	37	CCDS848.1	.	.	.	.	.	.	.	.	.	.	C	34	5.381617	0.95967	.	.	ENSG00000007341	ENST00000358039;ENST00000360743;ENST00000544629;ENST00000369669;ENST00000490067;ENST00000369668;ENST00000343210;ENST00000369666;ENST00000538187;ENST00000543570;ENST00000369665	T;T;T;T;T;T;T;T;T;T	0.21932	1.98;1.98;1.98;1.98;1.98;1.98;1.98;1.98;1.98;1.98	5.56	5.56	0.83823	Tetratricopeptide-like helical (1);	0.000000	0.85682	D	0.000000	T	0.45895	0.1365	M	0.82630	2.6	0.80722	D	1	D;D;D;D;D;D;D;D	0.89917	1.0;0.999;1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D;D;D	0.97110	1.0;0.997;0.999;0.996;0.996;0.996;0.997;0.999	T	0.48980	-0.8986	10	0.62326	D	0.03	-13.6675	19.1265	0.93386	0.0:1.0:0.0:0.0	.	316;277;268;333;316;316;333;333	B7Z8V6;B7Z7D4;F5H2P3;Q8TDW4-5;Q8TDW4-6;Q8TDW4-3;Q8TDW4-2;Q8TDW4	.;.;.;.;.;.;.;ST7L_HUMAN	K	333;333;268;150;316;333;333;316;277;316;211	ENSP00000350734:E333K;ENSP00000353972:E333K;ENSP00000445499:E268K;ENSP00000358683:E150K;ENSP00000417140:E316K;ENSP00000358682:E333K;ENSP00000345312:E333K;ENSP00000358680:E316K;ENSP00000444021:E277K;ENSP00000444088:E316K	ENSP00000345312:E333K	E	-	1	0	ST7L	112926209	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.487000	0.81328	2.618000	0.88619	0.462000	0.41574	GAA		0.343	ST7L-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000032504.3			T	113124686	C	T	113124686	3	4	606	1	0	0	0	0	1	0	0	0	15242	835	29	2	797	2	ST7L	1	113124686	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	815371	113124686	136125935	18	36514										
TXNIP	10628	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	145440057	145440059	+	In_Frame_Del	DEL	AAG	AAG	-													0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ggcacctgtgtctgctaaaaAagaaaagaaagtttcctgca							TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:145440057_145440059delAAG	ENST00000369317.4	+	4	825_827	c.491_493delAAG	c.(490-495)aaagaa>aaa	p.E165del	TXNIP_ENST00000475171.1_Intron	NM_006472.3	NP_006463.3	Q9H3M7	TXNIP_HUMAN	thioredoxin interacting protein	165					cell cycle (GO:0007049)|cellular response to tumor cell (GO:0071228)|innate immune response (GO:0045087)|keratinocyte differentiation (GO:0030216)|negative regulation of cell division (GO:0051782)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|protein import into nucleus (GO:0006606)|regulation of cell proliferation (GO:0042127)|response to calcium ion (GO:0051592)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to glucose (GO:0009749)|response to hydrogen peroxide (GO:0042542)|response to mechanical stimulus (GO:0009612)|response to progesterone (GO:0032570)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|mitochondrial intermembrane space (GO:0005758)|nucleus (GO:0005634)	enzyme inhibitor activity (GO:0004857)|ubiquitin protein ligase binding (GO:0031625)			breast(3)|cervix(1)|endometrium(1)|kidney(4)|large_intestine(1)|lung(5)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)	21	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TCTGCTAAAAAAGAAAAGAAAGT	0.414																																																0																																										SO:0001651	inframe_deletion	10628			S73591	CCDS72876.1	1q11	2008-07-18			ENSG00000117289	ENSG00000265972			16952	protein-coding gene	gene with protein product	"upregulated by 1,25-dihydroxyvitamin D-3", "thioredoxin binding protein 2"	606599				8086474	Standard	NM_006472		Approved	VDUP1, EST01027, HHCPA78, THIF	uc001enn.4	Q9H3M7	OTTHUMG00000013755	ENST00000369317.4:c.491_493delAAG	1.37:g.145440057_145440059delAAG	ENSP00000358323:p.Glu165del	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3D3|Q16226|Q6PML0|Q9BXG9	In_Frame_Del	DEL	ENST00000369317.4	37	CCDS913.1																																																																																				0.414	TXNIP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000038547.1	NM_006472		-	145440059	AAG	-	145440057	7	5	606	1	0	1	0	1	0	0	0	0	16815	14	1	0	505	0	TXNIP	1	145440057	In_Frame_Del	DEL	AAG	TCGA-HE-7130-01A-11D-1961-08	32315371	145440057	103810564	19	36515										
POGZ	23126	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	151377387	151377387	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	caggctcaattgtctcttcaGgagatgatctgggtcgtgga	13	8	4	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:151377387G>A	ENST00000271715.2	-	19	4438	c.4124C>T	c.(4123-4125)cCt>cTt	p.P1375L	POGZ_ENST00000531094.1_Missense_Mutation_p.P1313L|POGZ_ENST00000392723.1_Missense_Mutation_p.P1322L|POGZ_ENST00000540984.1_Missense_Mutation_p.P737L|POGZ_ENST00000361398.3_Missense_Mutation_p.P1322L|POGZ_ENST00000368863.2_Missense_Mutation_p.P1280L|POGZ_ENST00000409503.1_Missense_Mutation_p.P1366L|POGZ_ENST00000491586.1_Missense_Mutation_p.P1331L	NM_001194937.1|NM_015100.3	NP_001181866.1|NP_055915.2	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	1375					kinetochore assembly (GO:0051382)|mitotic sister chromatid cohesion (GO:0007064)	cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(1)|endometrium(10)|kidney(3)|large_intestine(10)|liver(2)|lung(11)|ovary(3)|prostate(2)|skin(3)|urinary_tract(1)	47	Lung SC(34;0.00471)|Ovarian(49;0.00672)|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)			TGTCTCTTCAGGAGATGATCT	0.488											OREG0003905	type=REGULATORY REGION|Gene=POGZ|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay																																				0													101	96	98					1																	151377387		2203	4300	6503	SO:0001583	missense	23126			AB007930	CCDS997.1, CCDS998.1, CCDS44222.1, CCDS44222.2, CCDS53365.1, CCDS53366.1	1q21.1	2013-07-22			ENSG00000143442	ENSG00000143442			18801	protein-coding gene	gene with protein product	"zinc finger protein 280E", "putative protein product of Nbla00003"	614787				10976766	Standard	NM_015100		Approved	KIAA0461, ZNF635m, ZNF280E	uc001eyd.2	Q7Z3K3	OTTHUMG00000012499	ENST00000271715.2:c.4124C>T	1.37:g.151377387G>A	ENSP00000271715:p.Pro1375Leu	Somatic	1739	WXS	Illumina HiSeq	Phase_I	B4DTP8|B4DYL9|B7ZBY5|E9PM80|O75049|Q3LIC4|Q5SZS1|Q5SZS2|Q5SZS3|Q5SZS4|Q8TDZ7|Q9Y4X7	Missense_Mutation	SNP	ENST00000271715.2	37	CCDS997.1	.	.	.	.	.	.	.	.	.	.	G	14.68	2.607106	0.46527	.	.	ENSG00000143442	ENST00000392723;ENST00000271715;ENST00000361398;ENST00000368863;ENST00000409503;ENST00000531094;ENST00000540984;ENST00000491586	T;T;T;T;T;T;T;T	0.24908	5.79;5.82;5.79;5.76;5.8;5.8;1.83;5.28	5.05	5.05	0.67936	.	0.000000	0.64402	D	0.000003	T	0.20007	0.0481	N	0.19112	0.55	0.58432	D	0.999999	B;D;P;P;B;B	0.58268	0.164;0.982;0.763;0.465;0.253;0.267	B;P;B;B;B;B	0.53006	0.04;0.715;0.173;0.124;0.087;0.058	T	0.02098	-1.1214	10	0.66056	D	0.02	-14.1248	17.4919	0.87707	0.0:0.0:1.0:0.0	.	1313;1366;1280;1331;1322;1375	E9PM80;B7ZBY5;Q7Z3K3-5;Q7Z3K3-3;Q7Z3K3-2;Q7Z3K3	.;.;.;.;.;POGZ_HUMAN	L	1322;1375;1322;1280;1366;1313;737;1331	ENSP00000376484:P1322L;ENSP00000271715:P1375L;ENSP00000354467:P1322L;ENSP00000357856:P1280L;ENSP00000386836:P1366L;ENSP00000431259:P1313L;ENSP00000443547:P737L;ENSP00000418408:P1331L	ENSP00000271715:P1375L	P	-	2	0	POGZ	149644011	1.000000	0.71417	0.999000	0.59377	0.935000	0.57460	6.397000	0.73239	2.780000	0.95670	0.655000	0.94253	CCT		0.488	POGZ-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000034915.2	NM_207171		A	151377387	G	A	151377387	3	1	606	1	0	0	0	0	1	0	0	0	12193	1000	35	2	112	2	POGZ	1	151377387	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	5937330	151377387	97873234	20	36516										
FLG	2312	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	152281276	152281276	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gtccactgtctctgactgcaGatgaagcttgtccatgccca	9	13	1	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:152281276G>C	ENST00000368799.1	-	3	6121	c.6086C>G	c.(6085-6087)tCt>tGt	p.S2029C	FLG-AS1_ENST00000420707.1_RNA|FLG-AS1_ENST00000593011.1_RNA	NM_002016.1	NP_002007.1	P20930	FILA_HUMAN	filaggrin	2029	Ser-rich.				establishment of skin barrier (GO:0061436)|keratinocyte differentiation (GO:0030216)|multicellular organismal development (GO:0007275)	cytoplasmic membrane-bounded vesicle (GO:0016023)|intermediate filament (GO:0005882)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|structural molecule activity (GO:0005198)			autonomic_ganglia(1)|breast(13)|central_nervous_system(5)|cervix(2)|endometrium(38)|haematopoietic_and_lymphoid_tissue(1)|kidney(16)|large_intestine(57)|lung(211)|ovary(13)|pancreas(1)|prostate(15)|skin(24)|stomach(5)|upper_aerodigestive_tract(10)|urinary_tract(12)	424	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCTGACTGCAGATGAAGCTTG	0.542									Ichthyosis																																							0													601	507	539					1																	152281276		2203	4298	6501	SO:0001583	missense	2312	Familial Cancer Database	X-linked Ichthyosis, Steroid Sulfatase Deficiency, Ichthyosis Vulgaris	XM_048104	CCDS30860.1	1q21.3	2013-01-10			ENSG00000143631	ENSG00000143631		"EF-hand domain containing"	3748	protein-coding gene	gene with protein product		135940				2740331, 2248957, 16444271	Standard	NM_002016		Approved		uc001ezu.1	P20930	OTTHUMG00000012202	ENST00000368799.1:c.6086C>G	1.37:g.152281276G>C	ENSP00000357789:p.Ser2029Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q01720|Q5T583|Q9UC71	Missense_Mutation	SNP	ENST00000368799.1	37	CCDS30860.1	.	.	.	.	.	.	.	.	.	.	g	5.168	0.216596	0.09810	.	.	ENSG00000143631	ENST00000368799	T	0.04083	3.71	3.44	2.51	0.30379	.	.	.	.	.	T	0.07052	0.0179	M	0.61703	1.905	0.09310	N	1	D	0.76494	0.999	D	0.65684	0.937	T	0.17440	-1.0369	9	0.56958	D	0.05	.	8.6711	0.34152	0.0:0.2608:0.7392:0.0	.	2029	P20930	FILA_HUMAN	C	2029	ENSP00000357789:S2029C	ENSP00000357789:S2029C	S	-	2	0	FLG	150547900	0.000000	0.05858	0.001000	0.08648	0.017000	0.09413	-0.118000	0.10692	0.748000	0.32831	0.485000	0.47835	TCT		0.542	FLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033742.1	NM_002016		C	152281276	G	C	152281276	3	2	606	1	0	0	0	0	1	0	0	0	5929	942	33	4	6103	4	FLG	1	152281276	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	903889	152281276	96969345	21	36517										
CHRNB2	1141	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	154544111	154544111	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gaagatgacgttgtgcatctCagtgctgctggcgctcacgg	14	10	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:154544111C>A	ENST00000368476.3	+	5	1076	c.812C>A	c.(811-813)tCa>tAa	p.S271*		NM_000748.2	NP_000739.1	P17787	ACHB2_HUMAN	cholinergic receptor, nicotinic, beta 2 (neuronal)	271					action potential (GO:0001508)|associative learning (GO:0008306)|B cell activation (GO:0042113)|behavioral response to nicotine (GO:0035095)|calcium ion transport (GO:0006816)|cation transmembrane transport (GO:0098655)|central nervous system projection neuron axonogenesis (GO:0021952)|cognition (GO:0050890)|conditioned taste aversion (GO:0001661)|ion transmembrane transport (GO:0034220)|ion transport (GO:0006811)|lateral geniculate nucleus development (GO:0021771)|learning (GO:0007612)|locomotory behavior (GO:0007626)|membrane depolarization (GO:0051899)|memory (GO:0007613)|negative regulation of action potential (GO:0045759)|neurological system process (GO:0050877)|optic nerve morphogenesis (GO:0021631)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of dopamine secretion (GO:0033603)|positive regulation of synaptic transmission, dopaminergic (GO:0032226)|protein heterooligomerization (GO:0051291)|regulation of circadian sleep/wake cycle, non-REM sleep (GO:0045188)|regulation of circadian sleep/wake cycle, REM sleep (GO:0042320)|regulation of dendrite morphogenesis (GO:0048814)|regulation of dopamine metabolic process (GO:0042053)|regulation of dopamine secretion (GO:0014059)|regulation of synapse assembly (GO:0051963)|regulation of synaptic transmission, dopaminergic (GO:0032225)|response to cocaine (GO:0042220)|response to ethanol (GO:0045471)|response to hypoxia (GO:0001666)|response to nicotine (GO:0035094)|sensory perception of pain (GO:0019233)|sensory perception of sound (GO:0007605)|signal transduction (GO:0007165)|smooth muscle contraction (GO:0006939)|social behavior (GO:0035176)|synaptic transmission (GO:0007268)|synaptic transmission involved in micturition (GO:0060084)|synaptic transmission, cholinergic (GO:0007271)|vestibulocochlear nerve development (GO:0021562)|visual learning (GO:0008542)|visual perception (GO:0007601)	acetylcholine-gated channel complex (GO:0005892)|cell junction (GO:0030054)|external side of plasma membrane (GO:0009897)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	acetylcholine binding (GO:0042166)|acetylcholine receptor activity (GO:0015464)|acetylcholine-activated cation-selective channel activity (GO:0004889)|drug binding (GO:0008144)|ligand-gated ion channel activity (GO:0015276)	p.S271*(1)		cervix(1)|endometrium(2)|kidney(1)|large_intestine(8)|lung(12)|skin(1)|urinary_tract(3)	28	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Dextromethorphan(DB00514)|Galantamine(DB00674)|Nicotine(DB00184)	TTGTGCATCTCAGTGCTGCTG	0.577																																																1	Substitution - Nonsense(1)	lung(1)											280	208	233					1																	154544111		2203	4300	6503	SO:0001587	stop_gained	1141			U62437	CCDS1070.1	1q21.3	2012-02-11	2006-02-01		ENSG00000160716	ENSG00000160716		"Cholinergic receptors", "Ligand-gated ion channels / Acetylcholine receptors, nicotinic"	1962	protein-coding gene	gene with protein product	"acetylcholine receptor, nicotinic, beta 2 (neuronal)"	118507	"cholinergic receptor, nicotinic, beta polypeptide 2 (neuronal)"			1505988	Standard	NM_000748		Approved		uc001ffg.3	P17787	OTTHUMG00000037262	ENST00000368476.3:c.812C>A	1.37:g.154544111C>A	ENSP00000357461:p.Ser271*	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UEH9	Nonsense_Mutation	SNP	ENST00000368476.3	37	CCDS1070.1	.	.	.	.	.	.	.	.	.	.	C	39	7.470747	0.98306	.	.	ENSG00000160716	ENST00000368476	.	.	.	4.1	4.1	0.47936	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	16.1089	0.81244	0.0:1.0:0.0:0.0	.	.	.	.	X	271	.	ENSP00000357461:S271X	S	+	2	0	CHRNB2	152810735	1.000000	0.71417	0.999000	0.59377	0.985000	0.73830	7.608000	0.82898	2.095000	0.63458	0.467000	0.42956	TCA		0.577	CHRNB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090697.1	NM_000748		A	154544111	C	A	154544111	4	1	606	1	0	0	0	0	0	1	0	0	3393	838	29	4	830	4	CHRNB2	1	154544111	Nonsense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	2262835	154544111	94706510	22	36518										
GON4L	54856	broad.mit.edu;bcgsc.ca	37	chr1	155723185	155723185	+	Silent	SNP	G	G	A													0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tcatggggctccttgctcttGtaggatttgctgtcacagac							TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:155723185G>A	ENST00000368331.1	-	29	5700	c.5652C>T	c.(5650-5652)taC>taT	p.Y1884Y	GON4L_ENST00000271883.5_Silent_p.Y1884Y|GON4L_ENST00000437809.1_Silent_p.Y1884Y	NM_001282858.1|NM_001282860.1	NP_001269787.1|NP_001269789.1	Q3T8J9	GON4L_HUMAN	gon-4-like (C. elegans)	1884					regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			NS(2)|breast(4)|cervix(1)|endometrium(7)|kidney(4)|large_intestine(7)|lung(10)|ovary(3)|prostate(3)|skin(2)|stomach(1)|urinary_tract(1)	45	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					CCTTGCTCTTGTAGGATTTGC	0.572																																																0													111	109	110					1																	155723185		1934	4136	6070	SO:0001819	synonymous_variant	54856			AB046826	CCDS1121.1, CCDS44242.1, CCDS60296.1	1q22	2013-10-31	2006-11-08	2006-02-16	ENSG00000116580	ENSG00000116580			25973	protein-coding gene	gene with protein product		610393	"gon-4 homolog (C.elegans)"	GON4		16545939, 21454521	Standard	XM_005245283		Approved	FLJ20203, GON-4	uc001fly.1	Q3T8J9	OTTHUMG00000014106	ENST00000368331.1:c.5652C>T	1.37:g.155723185G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBL4|Q14C93|Q3T8J8|Q5VYZ5|Q5W0D5|Q6AWA6|Q6P1Q6|Q7Z3L3|Q8IY79|Q9BQI1|Q9HCG6	Silent	SNP	ENST00000368331.1	37																																																																																					0.572	GON4L-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_032292		A	155723185	G	A	155723185	2	1	606	1	0	0	0	0	0	0	0	1	6579	1372	48	2		2	GON4L	1	155723185	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	1179074	155723185	93527436	23	36519	284	2								
GON4L	54856	broad.mit.edu;bcgsc.ca	37	chr1	155723194	155723194	+	Missense_Mutation	SNP	G	G	C													0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tccttgctcttgtaggatttGctgtcacagacctgcaggga							TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:155723194G>C	ENST00000368331.1	-	29	5691	c.5643C>G	c.(5641-5643)agC>agG	p.S1881R	GON4L_ENST00000271883.5_Missense_Mutation_p.S1881R|GON4L_ENST00000437809.1_Missense_Mutation_p.S1881R	NM_001282858.1|NM_001282860.1	NP_001269787.1|NP_001269789.1	Q3T8J9	GON4L_HUMAN	gon-4-like (C. elegans)	1881					regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			NS(2)|breast(4)|cervix(1)|endometrium(7)|kidney(4)|large_intestine(7)|lung(10)|ovary(3)|prostate(3)|skin(2)|stomach(1)|urinary_tract(1)	45	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					TGTAGGATTTGCTGTCACAGA	0.582																																																0													107	105	106					1																	155723194		1950	4137	6087	SO:0001583	missense	54856			AB046826	CCDS1121.1, CCDS44242.1, CCDS60296.1	1q22	2013-10-31	2006-11-08	2006-02-16	ENSG00000116580	ENSG00000116580			25973	protein-coding gene	gene with protein product		610393	"gon-4 homolog (C.elegans)"	GON4		16545939, 21454521	Standard	XM_005245283		Approved	FLJ20203, GON-4	uc001fly.1	Q3T8J9	OTTHUMG00000014106	ENST00000368331.1:c.5643C>G	1.37:g.155723194G>C	ENSP00000357315:p.Ser1881Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBL4|Q14C93|Q3T8J8|Q5VYZ5|Q5W0D5|Q6AWA6|Q6P1Q6|Q7Z3L3|Q8IY79|Q9BQI1|Q9HCG6	Missense_Mutation	SNP	ENST00000368331.1	37		.	.	.	.	.	.	.	.	.	.	G	15.41	2.824139	0.50739	.	.	ENSG00000116580	ENST00000437809;ENST00000368331;ENST00000271883	T;T;T	0.10668	2.85;2.85;2.85	5.15	4.23	0.50019	.	0.195098	0.45867	D	0.000333	T	0.04770	0.0129	L	0.44542	1.39	0.34449	D	0.70051	P;P	0.38048	0.481;0.616	B;B	0.35312	0.098;0.2	T	0.23655	-1.0182	10	0.45353	T	0.12	.	13.8128	0.63273	0.0753:0.0:0.9247:0.0	.	1881;1881	Q3T8J9;Q3T8J9-3	GON4L_HUMAN;.	R	1881	ENSP00000396117:S1881R;ENSP00000357315:S1881R;ENSP00000271883:S1881R	ENSP00000271883:S1881R	S	-	3	2	GON4L	153989818	1.000000	0.71417	1.000000	0.80357	0.855000	0.48748	4.844000	0.62846	1.377000	0.46286	0.455000	0.32223	AGC		0.582	GON4L-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_032292		C	155723194	G	C	155723194	3	2	606	1	0	0	0	0	1	0	0	0	6579	1310	46	4	1095	4	GON4L	1	155723194	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	9	155723194	93527427	24	36520	284	2								
OR10Z1	128368	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	158576303	158576303	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	agttctggggagttgcagctCcttctctttgccttgttcct	10	11	2	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:158576303C>T	ENST00000361284.1	+	1	75	c.75C>T	c.(73-75)ctC>ctT	p.L25L		NM_001004478.1	NP_001004478.1	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z, member 1	25						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(2)|large_intestine(6)|lung(21)|pancreas(1)|prostate(3)|skin(4)	37	all_hematologic(112;0.0378)					AGTTGCAGCTCCTTCTCTTTG	0.498																																																0													179	173	175					1																	158576303		2203	4300	6503	SO:0001819	synonymous_variant	128368			AB065635	CCDS30901.1	1q23.1	2012-08-23			ENSG00000198967	ENSG00000198967		"GPCR / Class A : Olfactory receptors"	14996	protein-coding gene	gene with protein product							Standard	NM_001004478		Approved		uc010pio.2	Q8NGY1	OTTHUMG00000019637	ENST00000361284.1:c.75C>T	1.37:g.158576303C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VYL0|Q6IFR7	Silent	SNP	ENST00000361284.1	37	CCDS30901.1																																																																																				0.498	OR10Z1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051853.1	NM_001004478		T	158576303	C	T	158576303	2	4	606	1	0	0	0	0	0	0	0	1	10930	842	30	2		2	OR10Z1	1	158576303	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	2853109	158576303	90674318	25	36521										
OR6N1	128372	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	158735810	158735810	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	attctgagcactgtgcagatGatctgcacataggagcagag	12	8	2	4			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:158735810G>A	ENST00000335094.2	-	1	682	c.663C>T	c.(661-663)atC>atT	p.I221I		NM_001005185.1	NP_001005185.1	Q8NGY5	OR6N1_HUMAN	olfactory receptor, family 6, subfamily N, member 1	221						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(12)|lung(22)|ovary(1)|pancreas(1)|prostate(6)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	54	all_hematologic(112;0.0378)					CTGTGCAGATGATCTGCACAT	0.488																																																0													125	124	125					1																	158735810		2203	4300	6503	SO:0001819	synonymous_variant	128372			BK004199	CCDS30905.1	1q23.1	2012-08-09			ENSG00000197403	ENSG00000197403		"GPCR / Class A : Olfactory receptors"	15034	protein-coding gene	gene with protein product							Standard	NM_001005185		Approved		uc010piq.2	Q8NGY5	OTTHUMG00000022774	ENST00000335094.2:c.663C>T	1.37:g.158735810G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUU8|Q96R35	Silent	SNP	ENST00000335094.2	37	CCDS30905.1																																																																																				0.488	OR6N1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059067.1	NM_001005185		A	158735810	G	A	158735810	2	1	606	1	0	0	0	0	0	0	0	1	11213	1280	45	2		2	OR6N1	1	158735810	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	159507	158735810	90514811	26	36522										
PYHIN1	149628	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	158943473	158943473	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	caggagcacagtcatcgcctGcaaactttagaatcacctca	7	13	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:158943473G>A	ENST00000368140.1	+	8	1641	c.1396G>A	c.(1396-1398)Gca>Aca	p.A466T	PYHIN1_ENST00000392252.3_Intron|PYHIN1_ENST00000392254.2_Intron|PYHIN1_ENST00000368138.3_Missense_Mutation_p.A457T	NM_152501.4|NM_198928.4|NM_198929.4	NP_689714.2|NP_945146.1|NP_945147.1	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1	466					cell cycle (GO:0007049)	nucleus (GO:0005634)				breast(2)|endometrium(3)|large_intestine(10)|lung(32)|ovary(3)|pancreas(1)|prostate(2)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	60	all_hematologic(112;0.0378)					GTCATCGCCTGCAAACTTTAG	0.448																																																0													162	144	150					1																	158943473		2203	4300	6503	SO:0001583	missense	149628			AY185344	CCDS1178.1, CCDS1179.1, CCDS30907.1, CCDS30908.1	1q23.1	2008-02-05			ENSG00000163564	ENSG00000163564			28894	protein-coding gene	gene with protein product		612677				15122330	Standard	NM_152501		Approved	IFIX, MGC23885	uc001ftb.3	Q6K0P9	OTTHUMG00000037109	ENST00000368140.1:c.1396G>A	1.37:g.158943473G>A	ENSP00000357122:p.Ala466Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3W6|Q6K0P6|Q6K0P7|Q6K0P8|Q8WW65	Missense_Mutation	SNP	ENST00000368140.1	37	CCDS1178.1	.	.	.	.	.	.	.	.	.	.	G	1.474	-0.558987	0.03967	.	.	ENSG00000163564	ENST00000368140;ENST00000368138	T;T	0.06294	3.33;3.32	1.95	-2.27	0.06846	.	.	.	.	.	T	0.00724	0.0024	N	0.08118	0	0.09310	N	1	B;B	0.22604	0.072;0.043	B;B	0.16289	0.015;0.007	T	0.46512	-0.9186	9	0.16420	T	0.52	.	6.2156	0.20653	0.668:0.0:0.332:0.0	.	457;466	Q6K0P9-2;Q6K0P9	.;IFIX_HUMAN	T	466;457	ENSP00000357122:A466T;ENSP00000357120:A457T	ENSP00000357120:A457T	A	+	1	0	PYHIN1	157210097	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-1.349000	0.02627	-0.729000	0.04875	-0.143000	0.13931	GCA		0.448	PYHIN1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000090110.1	NM_152501		A	158943473	G	A	158943473	3	1	606	1	0	0	0	0	1	0	0	0	12878	1319	46	2	1422	2	PYHIN1	1	158943473	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	207663	158943473	90307148	27	36523										
F5	2153	broad.mit.edu	37	chr1	169493136	169493136	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	atcttgctaatctgggctccCagtaacctaaactcaaggga	8	11	3	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:169493136C>A	ENST00000367797.3	-	20	5996	c.5795G>T	c.(5794-5796)tGg>tTg	p.W1932L	F5_ENST00000367796.3_Missense_Mutation_p.W1937L	NM_000130.4	NP_000121	P12259	FA5_HUMAN	coagulation factor V (proaccelerin, labile factor)	1932	F5/8 type C 1. {ECO:0000255|PROSITE- ProRule:PRU00081}.				blood circulation (GO:0008015)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|membrane (GO:0016020)|plasma membrane (GO:0005886)|platelet alpha granule lumen (GO:0031093)|vesicle (GO:0031982)	copper ion binding (GO:0005507)			NS(1)|breast(4)|central_nervous_system(4)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(24)|lung(55)|ovary(3)|prostate(4)|skin(5)|stomach(1)|upper_aerodigestive_tract(7)|urinary_tract(1)	128	all_hematologic(923;0.208)				ART-123(DB05777)|Drotrecogin alfa(DB00055)	TCTGGGCTCCCAGTAACCTAA	0.373																																																0													110	117	114					1																	169493136		2203	4300	6503	SO:0001583	missense	2153			M14335	CCDS1281.1	1q23	2012-10-02			ENSG00000198734	ENSG00000198734			3542	protein-coding gene	gene with protein product		612309					Standard	NM_000130		Approved		uc001ggg.1	P12259	OTTHUMG00000034595	ENST00000367797.3:c.5795G>T	1.37:g.169493136C>A	ENSP00000356771:p.Trp1932Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6E8|Q14285|Q2EHR5|Q5R346|Q5R347|Q6UPU6|Q8WWQ6	Missense_Mutation	SNP	ENST00000367797.3	37	CCDS1281.1	.	.	.	.	.	.	.	.	.	.	C	17.63	3.436127	0.62955	.	.	ENSG00000198734	ENST00000367797;ENST00000367796	D;D	0.98937	-5.25;-5.25	5.81	5.81	0.92471	Coagulation factor 5/8 C-terminal type domain (3);Galactose-binding domain-like (1);	0.000000	0.85682	D	0.000000	D	0.98551	0.9516	M	0.67517	2.055	0.45554	D	0.998506	P	0.49307	0.922	P	0.54060	0.741	D	0.99150	1.0858	9	0.59425	D	0.04	-6.5618	20.0826	0.97783	0.0:1.0:0.0:0.0	.	1932	P12259	FA5_HUMAN	L	1932;1937	ENSP00000356771:W1932L;ENSP00000356770:W1937L	ENSP00000356770:W1937L	W	-	2	0	F5	167759760	1.000000	0.71417	1.000000	0.80357	0.753000	0.42808	6.987000	0.76206	2.746000	0.94184	0.655000	0.94253	TGG		0.373	F5-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000083712.1	NM_000130		A	169493136	C	A	169493136	3	1	606	1	0	0	0	0	1	0	0	0	5350	595	21	4	903	4	F5	1	169493136	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	10549663	169493136	79757485	28	36524										
FASLG	356	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	172634825	172634825	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctatggaattgtcctgctttCtggagtgaagtataagaagg	12	5	1	2	rs80358236		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:172634825C>T	ENST00000367721.2	+	4	699	c.515C>T	c.(514-516)tCt>tTt	p.S172F	FASLG_ENST00000340030.3_3'UTR	NM_000639.1	NP_000630.1	P48023	TNFL6_HUMAN	Fas ligand (TNF superfamily, member 6)	172					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|cell-cell signaling (GO:0007267)|cellular chloride ion homeostasis (GO:0030644)|endosomal lumen acidification (GO:0048388)|extrinsic apoptotic signaling pathway (GO:0097191)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|immune response (GO:0006955)|inflammatory cell apoptotic process (GO:0006925)|necroptotic process (GO:0070266)|necroptotic signaling pathway (GO:0097527)|negative regulation of angiogenesis (GO:0016525)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cell proliferation (GO:0008284)|positive regulation of endothelial cell apoptotic process (GO:2000353)|positive regulation of epidermal growth factor receptor signaling pathway (GO:0045742)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of neuron apoptotic process (GO:0043525)|regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001239)|response to growth factor (GO:0070848)|response to lipopolysaccharide (GO:0032496)|retinal cell programmed cell death (GO:0046666)|signal transduction (GO:0007165)|T cell apoptotic process (GO:0070231)|transcription, DNA-templated (GO:0006351)	caveola (GO:0005901)|cytoplasmic membrane-bounded vesicle (GO:0016023)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|lysosome (GO:0005764)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	receptor binding (GO:0005102)			breast(1)|cervix(1)|endometrium(1)|large_intestine(2)|lung(12)|prostate(1)|skin(1)	19						GTCCTGCTTTCTGGAGTGAAG	0.433																																					Ovarian(28;486 876 30334 44033)											0													136	120	126					1																	172634825		2203	4300	6503	SO:0001583	missense	356			U11821	CCDS1304.1	1q23	2014-09-17	2005-01-07	2005-01-07	ENSG00000117560	ENSG00000117560		"Tumor necrosis factor (ligand) superfamily", "CD molecules", "Endogenous ligands"	11936	protein-coding gene	gene with protein product		134638	"tumor necrosis factor (ligand) superfamily, member 6"	APT1LG1, TNFSF6		7826947, 9022072	Standard	NM_000639		Approved	FasL, CD178	uc001gis.3	P48023	OTTHUMG00000034841	ENST00000367721.2:c.515C>T	1.37:g.172634825C>T	ENSP00000356694:p.Ser172Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BZP9	Missense_Mutation	SNP	ENST00000367721.2	37	CCDS1304.1	.	.	.	.	.	.	.	.	.	.	C	17.38	3.374699	0.61735	.	.	ENSG00000117560	ENST00000367721	T	0.65732	-0.17	5.24	5.24	0.73138	Tumour necrosis factor (3);Tumour necrosis factor-like (2);	0.277042	0.34046	N	0.004302	T	0.74496	0.3724	M	0.78456	2.415	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.78064	-0.2350	10	0.72032	D	0.01	-19.152	13.9766	0.64277	0.0:0.8471:0.1529:0.0	.	172	P48023	TNFL6_HUMAN	F	172	ENSP00000356694:S172F	ENSP00000356694:S172F	S	+	2	0	FASLG	170901448	0.930000	0.31532	0.910000	0.35882	0.880000	0.50808	2.041000	0.41213	2.455000	0.83008	0.650000	0.86243	TCT		0.433	FASLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084276.1			T	172634825	C	T	172634825	3	4	606	1	0	0	0	0	1	0	0	0	5689	913	32	2	529	2	FASLG	1	172634825	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	3141689	172634825	76615796	29	36525										
CEP350	9857	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	180044161	180044161	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	catggtgtgaccataggtttCtgacaaagcgggagcaaaaa	12	7	1	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:180044161C>T	ENST00000367607.3	+	28	5990	c.5572C>T	c.(5572-5574)Ctg>Ttg	p.L1858L		NM_014810.4	NP_055625.4	Q5VT06	CE350_HUMAN	centrosomal protein 350kDa	1858					microtubule anchoring (GO:0034453)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)				central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(7)|lung(35)|ovary(4)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	66						CCATAGGTTTCTGACAAAGCG	0.438																																																0													47	42	44					1																	180044161		2203	4300	6503	SO:0001819	synonymous_variant	9857			AF287356	CCDS1336.1	1q25.2	2014-02-20			ENSG00000135837	ENSG00000135837			24238	protein-coding gene	gene with protein product	"centrosome associated protein 350"					16314388, 15615782	Standard	NM_014810		Approved	KIAA0480, CAP350	uc001gnt.3	Q5VT06	OTTHUMG00000035269	ENST00000367607.3:c.5572C>T	1.37:g.180044161C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O75068|Q8TDK3|Q8WY20	Silent	SNP	ENST00000367607.3	37	CCDS1336.1	.	.	.	.	.	.	.	.	.	.	C	9.568	1.120365	0.20877	.	.	ENSG00000135837	ENST00000429851	.	.	.	5.81	3.95	0.45737	.	.	.	.	.	T	0.60405	0.2266	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.58177	-0.7682	4	.	.	.	.	10.2361	0.43284	0.0:0.7933:0.0:0.2067	.	.	.	.	F	32	.	.	S	+	2	0	CEP350	178310784	1.000000	0.71417	1.000000	0.80357	0.973000	0.67179	0.989000	0.29629	1.467000	0.48044	0.591000	0.81541	TCT		0.438	CEP350-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085315.2	NM_014810		T	180044161	C	T	180044161	2	4	606	1	0	0	0	0	0	0	0	1	3256	912	32	2		2	CEP350	1	180044161	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	7409336	180044161	69206460	30	36526										
OR2L8	391190	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	248112585	248112585	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	agcaaaagagtgtgtgtgctGatgataacagggtcttggat	14	4	1	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr1:248112585G>A	ENST00000357191.3	+	1	426	c.426G>A	c.(424-426)ctG>ctA	p.L142L	OR2L13_ENST00000366478.2_Intron	NM_001001963.1	NP_001001963.1	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L, member 8 (gene/pseudogene)	142						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(1)|kidney(3)|large_intestine(3)|lung(30)|ovary(1)|prostate(1)|skin(3)	42	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)			TGTGTGTGCTGATGATAACAG	0.438																																																0													295	240	258					1																	248112585		2203	4300	6503	SO:0001819	synonymous_variant	391190			BK004459	CCDS31101.1	1q44	2013-10-10	2013-10-10		ENSG00000196936	ENSG00000196936		"GPCR / Class A : Olfactory receptors"	15014	protein-coding gene	gene with protein product			"olfactory receptor, family 2, subfamily L, member 8"				Standard	NM_001001963		Approved		uc001idt.1	Q8NGY9	OTTHUMG00000040196	ENST00000357191.3:c.426G>A	1.37:g.248112585G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF03	Silent	SNP	ENST00000357191.3	37	CCDS31101.1																																																																																				0.438	OR2L8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096853.2			A	248112585	G	A	248112585	2	1	606	1	0	0	0	0	0	0	0	1	11016	1277	45	2		2	OR2L8	1	248112585	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	68068424	248112585	1138036	31	36527										
CAPN13	92291	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	30976059	30976059	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tctgttggaaatcttgacacGacatcctgttaaaaacagat	7	8	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr2:30976059G>A	ENST00000295055.8	-	10	1123	c.947C>T	c.(946-948)tCg>tTg	p.S316L	CAPN13_ENST00000534090.2_Missense_Mutation_p.S316L	NM_144575.2	NP_653176.2	Q6MZZ7	CAN13_HUMAN	calpain 13	316	Calpain catalytic. {ECO:0000255|PROSITE- ProRule:PRU00239}.				proteolysis (GO:0006508)	cytoplasm (GO:0005737)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(5)|large_intestine(5)|lung(11)|ovary(1)|prostate(1)|stomach(2)|urinary_tract(1)	30	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.155)					ATCTTGACACGACATCCTGTT	0.473																																																0													146	131	136					2																	30976059		1917	4122	6039	SO:0001583	missense	92291				CCDS46252.1	2p22-p21	2008-02-05			ENSG00000162949	ENSG00000162949			16663	protein-coding gene	gene with protein product		610228				11675017	Standard	NM_144575		Approved	FLJ23523	uc021vfm.1	Q6MZZ7	OTTHUMG00000152053	ENST00000295055.8:c.947C>T	2.37:g.30976059G>A	ENSP00000295055:p.Ser316Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RF0|Q580X1|Q8TE80	Missense_Mutation	SNP	ENST00000295055.8	37	CCDS46252.1	.	.	.	.	.	.	.	.	.	.	G	19.31	3.802500	0.70682	.	.	ENSG00000162949	ENST00000295055;ENST00000534090	D;D	0.91843	-2.92;-2.92	5.27	5.27	0.74061	Peptidase C2, calpain, catalytic domain (3);	0.325611	0.33364	N	0.004988	D	0.97483	0.9176	H	0.97340	3.985	0.58432	D	0.999994	D	0.89917	1.0	D	0.85130	0.997	D	0.98552	1.0637	10	0.87932	D	0	.	14.3858	0.66942	0.0:0.0:1.0:0.0	.	316	Q6MZZ7	CAN13_HUMAN	L	316	ENSP00000295055:S316L;ENSP00000431298:S316L	ENSP00000295055:S316L	S	-	2	0	CAPN13	30829563	1.000000	0.71417	0.999000	0.59377	0.588000	0.36517	5.259000	0.65485	2.462000	0.83206	0.561000	0.74099	TCG		0.473	CAPN13-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000325101.2	NM_144575		A	30976059	G	A	30976059	3	1	606	1	0	0	0	0	1	0	0	0	2628	1059	37	1	1114	1	CAPN13	2	30976059	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08		30976059	212223314	32	36528										
BIRC6	57448	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	32626579	32626579	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	atgatccagcaattgtacaaCagcttattctatcaggagac	7	9	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr2:32626579C>T	ENST00000421745.2	+	8	1440	c.1306C>T	c.(1306-1308)Cag>Tag	p.Q436*		NM_016252.3	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat containing 6	436					apoptotic process (GO:0006915)|labyrinthine layer development (GO:0060711)|mitotic nuclear division (GO:0007067)|negative regulation of apoptotic process (GO:0043066)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|positive regulation of cell proliferation (GO:0008284)|protein phosphorylation (GO:0006468)|protein ubiquitination (GO:0016567)|regulation of cell proliferation (GO:0042127)|regulation of cytokinesis (GO:0032465)|spongiotrophoblast layer development (GO:0060712)	endosome (GO:0005768)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)|midbody (GO:0030496)|spindle pole (GO:0000922)|trans-Golgi network (GO:0005802)	acid-amino acid ligase activity (GO:0016881)|cysteine-type endopeptidase inhibitor activity (GO:0004869)|ubiquitin-protein transferase activity (GO:0004842)			NS(4)|breast(8)|central_nervous_system(3)|endometrium(21)|haematopoietic_and_lymphoid_tissue(1)|kidney(15)|large_intestine(31)|lung(65)|ovary(7)|pancreas(1)|prostate(5)|skin(5)|stomach(1)|urinary_tract(5)	172	Acute lymphoblastic leukemia(172;0.155)					AATTGTACAACAGCTTATTCT	0.378																																					Pancreas(94;175 1509 16028 18060 45422)											0													105	107	106					2																	32626579		2203	4300	6503	SO:0001587	stop_gained	57448			AF265555	CCDS33175.2	2p22.3	2011-01-25	2011-01-25		ENSG00000115760	ENSG00000115760		"Baculoviral IAP repeat containing", "Ubiquitin-conjugating enzymes E2"	13516	protein-coding gene	gene with protein product	"apollon"	605638	"baculoviral IAP repeat-containing 6"			10544019	Standard	NM_016252		Approved	BRUCE	uc010ezu.3	Q9NR09	OTTHUMG00000150528	ENST00000421745.2:c.1306C>T	2.37:g.32626579C>T	ENSP00000393596:p.Gln436*	Somatic		WXS	Illumina HiSeq	Phase_I	Q9ULD1	Nonsense_Mutation	SNP	ENST00000421745.2	37	CCDS33175.2	.	.	.	.	.	.	.	.	.	.	C	36	5.679441	0.96774	.	.	ENSG00000115760	ENST00000421745	.	.	.	5.92	5.92	0.95590	.	0.157867	0.40908	D	0.000998	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.08599	T	0.76	.	13.5098	0.61504	0.0:0.929:0.0:0.071	.	.	.	.	X	436	.	ENSP00000393596:Q436X	Q	+	1	0	BIRC6	32480083	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	4.615000	0.61190	2.813000	0.96785	0.561000	0.74099	CAG		0.378	BIRC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318769.3	NM_016252		T	32626579	C	T	32626579	4	4	606	1	0	0	0	0	0	1	0	0	1438	479	17	2	1336	2	BIRC6	2	32626579	Nonsense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	1650520	32626579	210572794	33	36529										
SOS1	6654	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	39281894	39281894	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aagtttgttctcctgaggtgGaaggctcttcgtcagttaaa	11	7	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr2:39281894G>A	ENST00000426016.1	-	6	667	c.581C>T	c.(580-582)tCc>tTc	p.S194F	SOS1_ENST00000428721.2_Missense_Mutation_p.S137F|SOS1_ENST00000402219.2_Missense_Mutation_p.S194F|SOS1_ENST00000395038.2_Missense_Mutation_p.S194F			Q07889	SOS1_HUMAN	son of sevenless homolog 1 (Drosophila)	194					apoptotic signaling pathway (GO:0097190)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|leukocyte migration (GO:0050900)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet activation (GO:0030168)|positive regulation of apoptotic process (GO:0043065)|positive regulation of epidermal growth factor receptor signaling pathway (GO:0045742)|positive regulation of Ras GTPase activity (GO:0032320)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of small GTPase mediated signal transduction (GO:0051057)|Ras protein signal transduction (GO:0007265)|regulation of small GTPase mediated signal transduction (GO:0051056)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)	DNA binding (GO:0003677)|Ras guanyl-nucleotide exchange factor activity (GO:0005088)|Rho GTPase activator activity (GO:0005100)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			autonomic_ganglia(1)|breast(6)|central_nervous_system(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(9)|liver(1)|lung(29)|ovary(4)|prostate(1)|skin(4)|stomach(1)|urinary_tract(2)	75		all_hematologic(82;0.21)				TCCTGAGGTGGAAGGCTCTTC	0.284									Noonan syndrome																																							0													86	99	94					2																	39281894		2203	4297	6500	SO:0001583	missense	6654	Familial Cancer Database	Male Turner syndrome, Pterygium Colli syndrome, incl. Noonan-like/Multiple Giant Cell Lesion syndrome; Noonan s. with multiple lentigines/LEOPARD syndrome	L13857	CCDS1802.1	2p21	2014-09-17	2002-11-05		ENSG00000115904	ENSG00000115904		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	11187	protein-coding gene	gene with protein product		182530	"gingival fibromatosis, hereditary, 1"	GINGF		8276400, 10995566	Standard	NM_005633		Approved	HGF, GF1	uc002rrk.4	Q07889	OTTHUMG00000102109	ENST00000426016.1:c.581C>T	2.37:g.39281894G>A	ENSP00000387784:p.Ser194Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2G3|B4DXG2	Missense_Mutation	SNP	ENST00000426016.1	37	CCDS1802.1	.	.	.	.	.	.	.	.	.	.	G	15.74	2.921771	0.52653	.	.	ENSG00000115904	ENST00000426016;ENST00000402219;ENST00000395038;ENST00000263879;ENST00000428721	T;T;T;D	0.96334	-1.08;-1.08;-1.21;-3.98	5.88	5.88	0.94601	.	0.063359	0.64402	D	0.000004	D	0.93575	0.7949	L	0.27053	0.805	0.58432	D	0.999995	B	0.12013	0.005	B	0.15484	0.013	D	0.88675	0.3198	10	0.59425	D	0.04	.	20.2187	0.98312	0.0:0.0:1.0:0.0	.	194	Q07889	SOS1_HUMAN	F	194;194;194;194;137	ENSP00000387784:S194F;ENSP00000384675:S194F;ENSP00000378479:S194F;ENSP00000399992:S137F	ENSP00000263879:S194F	S	-	2	0	SOS1	39135398	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.200000	0.51051	2.780000	0.95670	0.655000	0.94253	TCC		0.284	SOS1-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219948.3	NM_005633		A	39281894	G	A	39281894	3	1	606	1	0	0	0	0	1	0	0	0	14949	1174	41	2	3496	2	SOS1	2	39281894	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	6655315	39281894	203917479	34	36530										
MDH1	4190	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	63826356	63826356	+	Nonsense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctgcctgactgcttccaagtCagctccatccatccccaagg	7	17	1	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr2:63826356C>G	ENST00000233114.8	+	5	863	c.428C>G	c.(427-429)tCa>tGa	p.S143*	MDH1_ENST00000409476.1_Nonsense_Mutation_p.S19*|MDH1_ENST00000539945.1_Nonsense_Mutation_p.S161*|MDH1_ENST00000544381.1_Nonsense_Mutation_p.S54*|MDH1_ENST00000409908.1_Intron|MDH1_ENST00000394423.1_Nonsense_Mutation_p.S143*	NM_005917.3	NP_005908.1	P40925	MDHC_HUMAN	malate dehydrogenase 1, NAD (soluble)	143					carbohydrate metabolic process (GO:0005975)|cellular carbohydrate metabolic process (GO:0044262)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|malate metabolic process (GO:0006108)|NADH metabolic process (GO:0006734)|oxaloacetate metabolic process (GO:0006107)|small molecule metabolic process (GO:0044281)|tricarboxylic acid cycle (GO:0006099)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	diiodophenylpyruvate reductase activity (GO:0047860)|L-malate dehydrogenase activity (GO:0030060)|malic enzyme activity (GO:0004470)|NAD binding (GO:0051287)			endometrium(2)|kidney(4)|large_intestine(1)|liver(2)|lung(4)	13						GCTTCCAAGTCAGCTCCATCC	0.418																																																0													103	95	97					2																	63826356		2203	4300	6503	SO:0001587	stop_gained	4190				CCDS1874.1, CCDS56121.1, CCDS56122.1	2p23	2012-10-02			ENSG00000014641	ENSG00000014641	1.1.1.37		6970	protein-coding gene	gene with protein product		154200					Standard	NM_005917		Approved		uc010ypv.2	P40925	OTTHUMG00000129512	ENST00000233114.8:c.428C>G	2.37:g.63826356C>G	ENSP00000233114:p.Ser143*	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5V5|B4DUN2|B7Z3I7|F5H098|Q6I9V0	Nonsense_Mutation	SNP	ENST00000233114.8	37	CCDS1874.1	.	.	.	.	.	.	.	.	.	.	C	22.5	4.291876	0.80914	.	.	ENSG00000014641	ENST00000233114;ENST00000409476;ENST00000436321;ENST00000432309;ENST00000539945;ENST00000544381;ENST00000394423	.	.	.	5.2	4.31	0.51392	.	0.267927	0.38837	N	0.001542	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.15499	T	0.54	-0.539	12.967	0.58490	0.0:0.9202:0.0:0.0798	.	.	.	.	X	143;19;98;161;161;54;143	.	ENSP00000233114:S143X	S	+	2	0	MDH1	63679860	1.000000	0.71417	0.958000	0.39756	0.942000	0.58702	4.937000	0.63513	2.564000	0.86499	0.585000	0.79938	TCA		0.418	MDH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251687.1			G	63826356	C	G	63826356	4	3	606	1	0	0	0	0	0	1	0	0	9415	838	29	4	446	4	MDH1	2	63826356	Nonsense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	24544462	63826356	179373017	35	36531										
ACTR2	10097	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	65492181	65492181	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cattgtgcctttctagatctGaattctacaaacacattgtg	6	9	3	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr2:65492181G>A	ENST00000260641.5	+	8	1043	c.886G>A	c.(886-888)Gaa>Aaa	p.E296K	ACTR2_ENST00000542850.1_Missense_Mutation_p.E241K|ACTR2_ENST00000377982.4_Missense_Mutation_p.E301K	NM_005722.3	NP_005713.1	P61160	ARP2_HUMAN	ARP2 actin-related protein 2 homolog (yeast)	296					Arp2/3 complex-mediated actin nucleation (GO:0034314)|asymmetric cell division (GO:0008356)|cellular component movement (GO:0006928)|cilium assembly (GO:0042384)|cytoplasmic transport (GO:0016482)|establishment or maintenance of cell polarity (GO:0007163)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|meiotic chromosome movement towards spindle pole (GO:0016344)|meiotic cytokinesis (GO:0033206)|spindle localization (GO:0051653)	actin cap (GO:0030478)|actin cytoskeleton (GO:0015629)|Arp2/3 protein complex (GO:0005885)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)	ATP binding (GO:0005524)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|breast(2)|endometrium(3)|kidney(1)|large_intestine(3)|lung(1)|prostate(1)	12						TTCTAGATCTGAATTCTACAA	0.428																																																0													179	168	171					2																	65492181		2203	4300	6503	SO:0001583	missense	10097			AF006082	CCDS1881.1, CCDS46307.1	2p14	2008-05-20	2001-11-28		ENSG00000138071	ENSG00000138071			169	protein-coding gene	gene with protein product		604221	"ARP2 (actin-related protein 2, yeast) homolog"			9230079	Standard	NM_001005386		Approved	ARP2	uc002sdp.3	P61160	OTTHUMG00000129540	ENST00000260641.5:c.886G>A	2.37:g.65492181G>A	ENSP00000260641:p.Glu296Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCP5|D6W5F4|E9PF41|O15142|Q96C82	Missense_Mutation	SNP	ENST00000260641.5	37	CCDS1881.1	.	.	.	.	.	.	.	.	.	.	G	18.95	3.731091	0.69189	.	.	ENSG00000138071	ENST00000260641;ENST00000542850;ENST00000377982;ENST00000535303	D;D;D	0.94576	-3.46;-3.46;-3.46	5.98	5.1	0.69264	.	0.120167	0.53938	U	0.000057	D	0.93841	0.8030	M	0.70275	2.135	0.58432	D	0.999999	B;B;B	0.13594	0.005;0.008;0.004	B;B;B	0.13407	0.009;0.007;0.007	D	0.91169	0.4967	10	0.62326	D	0.03	-23.7201	17.2991	0.87177	0.0:0.1254:0.8746:0.0	.	241;296;301	F5H6T1;P61160;E9PF41	.;ARP2_HUMAN;.	K	296;241;301;241	ENSP00000260641:E296K;ENSP00000437383:E241K;ENSP00000367220:E301K	ENSP00000260641:E296K	E	+	1	0	ACTR2	65345685	1.000000	0.71417	1.000000	0.80357	0.880000	0.50808	9.476000	0.97823	1.525000	0.49052	0.591000	0.81541	GAA		0.428	ACTR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251730.1	NM_001005386		A	65492181	G	A	65492181	3	1	606	1	0	0	0	0	1	0	0	0	211	1291	45	2	935	2	ACTR2	2	65492181	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	1665825	65492181	177707192	36	36532										
CLEC4F	165530	broad.mit.edu;bcgsc.ca	37	chr2	71043525	71043525	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cctttttaacacgtgaatttCatcaccagctctttccaaat	3	12	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr2:71043525C>T	ENST00000272367.2	-	4	1064	c.988G>A	c.(988-990)Gaa>Aaa	p.E330K	CLEC4F_ENST00000426626.1_Missense_Mutation_p.E330K	NM_001258027.1|NM_173535.2	NP_001244956.1|NP_775806.2	Q8N1N0	CLC4F_HUMAN	C-type lectin domain family 4, member F	330					endocytosis (GO:0006897)	integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)			endometrium(1)|large_intestine(5)|lung(18)|ovary(5)|prostate(5)|skin(1)|upper_aerodigestive_tract(2)	37						ACGTGAATTTCATCACCAGCT	0.423																																					Colon(107;10 2157 6841 26035)											0													93	90	91					2																	71043525		2203	4300	6503	SO:0001583	missense	165530			AK096429	CCDS1910.1	2p13.3	2008-02-05	2005-02-09	2005-02-11	ENSG00000152672	ENSG00000152672		"C-type lectin domain containing"	25357	protein-coding gene	gene with protein product			"C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 13"	CLECSF13		8889548, 1846367	Standard	NM_001258027		Approved	FLJ39110, KCLR	uc002shf.3	Q8N1N0	OTTHUMG00000129713	ENST00000272367.2:c.988G>A	2.37:g.71043525C>T	ENSP00000272367:p.Glu330Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A4QPA5	Missense_Mutation	SNP	ENST00000272367.2	37	CCDS1910.1	.	.	.	.	.	.	.	.	.	.	C	11.23	1.576506	0.28092	.	.	ENSG00000152672	ENST00000272367;ENST00000426626	T;T	0.78246	-1.16;-1.16	3.99	3.1	0.35709	.	0.390460	0.18739	N	0.132519	T	0.69233	0.3088	L	0.55481	1.735	0.09310	N	1	B;B	0.22541	0.071;0.071	B;B	0.21360	0.034;0.034	T	0.56768	-0.7924	10	0.30078	T	0.28	.	8.148	0.31124	0.0:0.8884:0.0:0.1116	.	330;330	B7ZMM1;Q8N1N0	.;CLC4F_HUMAN	K	330	ENSP00000272367:E330K;ENSP00000390581:E330K	ENSP00000272367:E330K	E	-	1	0	CLEC4F	70897033	0.004000	0.15560	0.004000	0.12327	0.012000	0.07955	0.746000	0.26275	1.234000	0.43709	0.467000	0.42956	GAA		0.423	CLEC4F-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251922.1	NM_173535		T	71043525	C	T	71043525	3	4	606	1	0	0	0	0	1	0	0	0	3518	835	29	2	797	2	CLEC4F	2	71043525	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	5551344	71043525	172155848	37	36533										
CNGA3	1261	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	99012521	99012522	+	Frame_Shift_Ins	INS	-	-	GT													0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gcacagagacaaggaccaacINStaccccaatatgttcaggat							TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr2:99012521_99012522insGT	ENST00000272602.2	+	7	927_928	c.888_889insGT	c.(889-891)tacfs	p.Y297fs	CNGA3_ENST00000436404.2_Frame_Shift_Ins_p.Y279fs|CNGA3_ENST00000409937.1_Frame_Shift_Ins_p.Y301fs|CNGA3_ENST00000393504.1_Frame_Shift_Ins_p.Y297fs			Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3	297					cation transport (GO:0006812)|phototransduction, visible light (GO:0007603)|potassium ion transmembrane transport (GO:0071805)|regulation of membrane potential (GO:0042391)|response to cAMP (GO:0051591)|response to corticosteroid (GO:0031960)|response to magnesium ion (GO:0032026)|retinal cone cell development (GO:0046549)|signal transduction (GO:0007165)|transport (GO:0006810)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|perikaryon (GO:0043204)|photoreceptor outer segment membrane (GO:0042622)|transmembrane transporter complex (GO:1902495)	cGMP binding (GO:0030553)|intracellular cAMP activated cation channel activity (GO:0005222)|intracellular cGMP activated cation channel activity (GO:0005223)|ligand-gated ion channel activity (GO:0015276)|voltage-gated potassium channel activity (GO:0005249)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(10)|lung(17)|ovary(5)|prostate(3)|skin(4)|upper_aerodigestive_tract(3)	49						CAAGGACCAACTACCCCAATAT	0.45																																																0																																										SO:0001589	frameshift_variant	1261			S76069	CCDS2034.1, CCDS42719.1	2q11.2	2013-01-08			ENSG00000144191	ENSG00000144191		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	2150	protein-coding gene	gene with protein product		600053		CNCG3, ACHM2		7532814, 9517456, 16382102	Standard	NM_001298		Approved	CCNC1, CCNCa, CNG3	uc002syt.3	Q16281	OTTHUMG00000130561	Exception_encountered	2.37:g.99012521_99012522insGT	ENSP00000272602:p.Tyr297fs	Somatic		WXS	Illumina HiSeq	Phase_I	E9PF93|Q4VAP7|Q53RD2|Q6ZNA7|Q9UP64	Frame_Shift_Ins	INS	ENST00000272602.2	37	CCDS2034.1																																																																																				0.45	CNGA3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252986.1	NM_001298		GT	99012522	-	GT	99012521	7	5	606	1	0	1	1	0	0	0	0	0	3600	564	20	0	914	0	CNGA3	2	99012521	Frame_Shift_Ins	INS	-	TCGA-HE-7130-01A-11D-1961-08	27968996	99012521	144186852	38	36534										
SULT1C2	6819	broad.mit.edu;ucsc.edu	37	chr2	108921890	108921890	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ggacccaaagcatgaaattcGgaaggtgatgcagttcatgg	13	7	1	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr2:108921890G>T	ENST00000437390.2	+	7	836	c.659G>T	c.(658-660)cGg>cTg	p.R220L	SULT1C2_ENST00000326853.5_Missense_Mutation_p.R217L|SULT1C2_ENST00000409880.1_Missense_Mutation_p.R169L|SULT1C2_ENST00000251481.6_Missense_Mutation_p.R206L			O75897	ST1C4_HUMAN	sulfotransferase family, cytosolic, 1C, member 2	212					3'-phosphoadenosine 5'-phosphosulfate metabolic process (GO:0050427)|small molecule metabolic process (GO:0044281)|sulfation (GO:0051923)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)	sulfotransferase activity (GO:0008146)			NS(1)|central_nervous_system(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|lung(9)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	20						CATGAAATTCGGAAGGTGATG	0.403																																																0													93	92	93					2																	108921890		2203	4300	6503	SO:0001583	missense	6819			U66036, AF186255	CCDS2075.1, CCDS2076.1	2q12.3	2010-09-30	2007-03-16	2007-03-16	ENSG00000198203	ENSG00000198203		"Sulfotransferases, cytosolic"	11456	protein-coding gene	gene with protein product		602385	"sulfotransferase family, cytosolic, 1C, member 1"	SULT1C1		9169148, 10783263	Standard	NM_001056		Approved	ST1C1	uc002tdx.3	O00338	OTTHUMG00000153215	ENST00000437390.2:c.659G>T	2.37:g.108921890G>T	ENSP00000399651:p.Arg220Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q069I8|Q08AS5|Q53S63	Missense_Mutation	SNP	ENST00000437390.2	37		.	.	.	.	.	.	.	.	.	.	G	12.27	1.888899	0.33348	.	.	ENSG00000198203	ENST00000251481;ENST00000326853;ENST00000409880;ENST00000437390	D;D;D;D	0.82619	-1.63;-1.63;-1.63;-1.63	4.66	-4.12	0.03916	Sulfotransferase domain (1);	0.750429	0.12255	N	0.485245	T	0.69913	0.3164	L	0.27053	0.805	0.22330	N	0.9992	B;B;B;B	0.15473	0.004;0.006;0.013;0.01	B;B;B;B	0.25759	0.038;0.003;0.063;0.037	T	0.54708	-0.8253	10	0.30078	T	0.28	.	11.0503	0.47882	0.6167:0.0:0.3833:0.0	.	220;121;206;217	B4DLP0;B4DPE8;O00338;O00338-2	.;.;ST1C2_HUMAN;.	L	206;217;169;220	ENSP00000251481:R206L;ENSP00000319622:R217L;ENSP00000387054:R169L;ENSP00000399651:R220L	ENSP00000251481:R206L	R	+	2	0	SULT1C2	108288322	0.001000	0.12720	0.945000	0.38365	0.789000	0.44602	0.233000	0.17911	-0.811000	0.04369	-1.044000	0.02363	CGG		0.403	SULT1C2-007	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000329969.2	NM_176825		T	108921890	G	T	108921890	3	4	606	1	0	0	0	0	1	0	0	0	15389	1116	39	4	738	4	SULT1C2	2	108921890	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	9909369	108921890	134277483	39	36535										
FSIP2	401024	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	186678413	186678413	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aagtgtatttggaaaattacAtaaaagaggaacgagattct	9	3	1	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr2:186678413A>T	ENST00000424728.1	+	18	19969	c.19969A>T	c.(19969-19971)Ata>Tta	p.I6657L	FSIP2_ENST00000343098.5_Missense_Mutation_p.I6746L			Q5CZC0	FSIP2_HUMAN	fibrous sheath interacting protein 2	6657										NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(4)|kidney(1)|large_intestine(11)|lung(46)|pancreas(1)|urinary_tract(2)	69						GGAAAATTACATAAAAGAGGA	0.308																																																0													60	58	59					2																	186678413		1815	4082	5897	SO:0001583	missense	401024			AK092099	CCDS54426.1	2q32.1	2010-06-18			ENSG00000188738	ENSG00000188738			21675	protein-coding gene	gene with protein product		615796				14702039	Standard	NM_173651		Approved	FLJ34780	uc002upl.3	Q5CZC0	OTTHUMG00000153874	ENST00000424728.1:c.19969A>T	2.37:g.186678413A>T	ENSP00000401306:p.Ile6657Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q53TL3|Q53TN5|Q5HYH2|Q6ZTZ5|Q6ZU14|Q6ZU21	Missense_Mutation	SNP	ENST00000424728.1	37		.	.	.	.	.	.	.	.	.	.	A	8.432	0.848829	0.17034	.	.	ENSG00000188738	ENST00000343098;ENST00000424728	T;T	0.39787	1.06;1.07	4.74	-6.09	0.02145	.	2.291920	0.01415	N	0.014178	T	0.16557	0.0398	N	0.03608	-0.345	0.09310	N	1	.	.	.	.	.	.	T	0.11567	-1.0582	8	0.17369	T	0.5	.	5.0483	0.14496	0.3028:0.0:0.4212:0.2761	.	.	.	.	L	6746;6657	ENSP00000344403:I6746L;ENSP00000401306:I6657L	ENSP00000344403:I6746L	I	+	1	0	FSIP2	186386658	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	0.003000	0.13083	-1.474000	0.01879	-1.412000	0.01120	ATA		0.308	FSIP2-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000332778.3	NM_173651		T	186678413	A	T	186678413	3	4	606	1	0	0	0	0	1	0	0	0	6082	217	8	5	20306	5	FSIP2	2	186678413	Missense_Mutation	SNP	A	TCGA-HE-7130-01A-11D-1961-08	77756523	186678413	56520960	40	36536										
MSTN	2660	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	190922196	190922196	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctctccagagcagtaattggCcttatatcttttaggagcga	9	9	2	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr2:190922196C>T	ENST00000260950.4	-	3	1048	c.916G>A	c.(916-918)Gcc>Acc	p.A306T	C2orf88_ENST00000478197.1_Intron	NM_005259.2	NP_005250.1	O14793	GDF8_HUMAN	myostatin	306					cellular response to dexamethasone stimulus (GO:0071549)|muscle organ development (GO:0007517)|negative regulation of muscle hypertrophy (GO:0014741)|negative regulation of skeletal muscle tissue growth (GO:0048632)|ovulation cycle process (GO:0022602)|positive regulation of transcription, DNA-templated (GO:0045893)|response to electrical stimulus (GO:0051602)|response to estrogen (GO:0043627)|response to ethanol (GO:0045471)|response to gravity (GO:0009629)|response to heat (GO:0009408)|response to muscle activity (GO:0014850)|response to testosterone (GO:0033574)|skeletal muscle atrophy (GO:0014732)|skeletal muscle tissue regeneration (GO:0043403)|transforming growth factor beta receptor signaling pathway (GO:0007179)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)	growth factor activity (GO:0008083)|heparin binding (GO:0008201)|identical protein binding (GO:0042802)|receptor binding (GO:0005102)			endometrium(1)|kidney(1)|large_intestine(1)|lung(8)|skin(1)	12			OV - Ovarian serous cystadenocarcinoma(117;0.000742)|Epithelial(96;0.0121)|all cancers(119;0.0395)			CAGTAATTGGCCTTATATCTT	0.423																																																0													85	83	84					2																	190922196		2203	4300	6503	SO:0001583	missense	2660			AF019627	CCDS2303.1	2q32.1	2014-09-17	2007-06-21	2007-06-21	ENSG00000138379	ENSG00000138379			4223	protein-coding gene	gene with protein product		601788	"growth differentiation factor 8"	GDF8		9288100, 10610713, 17003236	Standard	NM_005259		Approved		uc002urp.3	O14793	OTTHUMG00000132663	ENST00000260950.4:c.916G>A	2.37:g.190922196C>T	ENSP00000260950:p.Ala306Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A1C2J7|A1C2K0|Q6B0H2	Missense_Mutation	SNP	ENST00000260950.4	37	CCDS2303.1	.	.	.	.	.	.	.	.	.	.	C	24.1	4.497799	0.85069	.	.	ENSG00000138379	ENST00000260950	D	0.86497	-2.13	5.79	5.79	0.91817	Transforming growth factor beta, conserved site (1);Transforming growth factor-beta, C-terminal (3);	0.000000	0.85682	D	0.000000	D	0.95604	0.8571	H	0.94886	3.595	0.80722	D	1	P	0.48089	0.905	D	0.65140	0.932	D	0.96037	0.9021	10	0.87932	D	0	-9.1744	20.0308	0.97536	0.0:1.0:0.0:0.0	.	306	O14793	GDF8_HUMAN	T	306	ENSP00000260950:A306T	ENSP00000260950:A306T	A	-	1	0	MSTN	190630441	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	7.818000	0.86416	2.732000	0.93576	0.585000	0.79938	GCC		0.423	MSTN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255917.2	NM_005259		T	190922196	C	T	190922196	3	4	606	1	0	0	0	0	1	0	0	0	9900	739	26	2	215	2	MSTN	2	190922196	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	4243783	190922196	52277177	41	36537										
ALS2CR12	130540	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	202172265	202172265	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cttctcttgaatgaagttctCaaagacagcactgcaggatt	8	9	2	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr2:202172265C>G	ENST00000286190.5	-	10	902	c.856G>C	c.(856-858)Gag>Cag	p.E286Q	ALS2CR12_ENST00000405148.2_Missense_Mutation_p.E286Q|ALS2CR12_ENST00000448967.1_5'Flank|ALS2CR12_ENST00000392257.3_Missense_Mutation_p.E286Q|ALS2CR12_ENST00000439709.1_Missense_Mutation_p.E286Q			Q96Q35	AL2SB_HUMAN	amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 12	286					regulation of GTPase activity (GO:0043087)	outer dense fiber (GO:0001520)|sperm fibrous sheath (GO:0035686)|sperm flagellum (GO:0036126)				NS(1)|breast(5)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(6)|ovary(2)	21						ATGAAGTTCTCAAAGACAGCA	0.438																																																0													223	220	221					2																	202172265		2203	4299	6502	SO:0001583	missense	130540			AB053314	CCDS2346.1, CCDS46488.1	2q33.1	2009-10-06			ENSG00000155749	ENSG00000155749			14439	protein-coding gene	gene with protein product							Standard	XM_006712272		Approved		uc002uya.4	Q96Q35	OTTHUMG00000132824	ENST00000286190.5:c.856G>C	2.37:g.202172265C>G	ENSP00000286190:p.Glu286Gln	Somatic		WXS	Illumina HiSeq	Phase_I	G5E9S3|Q53TT6|Q8N1B6	Missense_Mutation	SNP	ENST00000286190.5	37	CCDS2346.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	33|33	5.237379|5.237379	0.95240|0.95240	.|.	.|.	ENSG00000155749|ENSG00000155749	ENST00000286190;ENST00000405148;ENST00000392257;ENST00000439709|ENST00000415745	T;T;T;T|.	0.44482|.	0.92;0.92;0.92;0.92|.	5.53|5.53	5.53|5.53	0.82687|0.82687	.|.	0.216156|.	0.32970|.	N|.	0.005435|.	T|T	0.57873|0.57873	0.2083|0.2083	L|L	0.60455|0.60455	1.87|1.87	0.26519|0.26519	N|N	0.974462|0.974462	D;D|.	0.67145|.	0.996;0.996|.	P;P|.	0.62298|.	0.9;0.9|.	T|T	0.52756|0.52756	-0.8533|-0.8533	10|5	0.33141|.	T|.	0.24|.	-10.1129|-10.1129	16.749|16.749	0.85480|0.85480	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	286;286|.	Q96Q35;G5E9S3|.	AL2SB_HUMAN;.|.	Q|F	286|60	ENSP00000286190:E286Q;ENSP00000385098:E286Q;ENSP00000376086:E286Q;ENSP00000412073:E286Q|.	ENSP00000286190:E286Q|.	E|L	-|-	1|3	0|2	ALS2CR12|ALS2CR12	201880510|201880510	0.991000|0.991000	0.36638|0.36638	0.738000|0.738000	0.30950|0.30950	0.804000|0.804000	0.45430|0.45430	3.681000|3.681000	0.54648|0.54648	2.773000|2.773000	0.95371|0.95371	0.650000|0.650000	0.86243|0.86243	GAG|TTG		0.438	ALS2CR12-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256286.1	NM_139163		G	202172265	C	G	202172265	3	3	606	1	0	0	0	0	1	0	0	0	553	835	29	4	501	4	ALS2CR12	2	202172265	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	11250069	202172265	41027108	42	36538										
KIF1A	547	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	241661280	241661280	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgtgtactctctgttgaatgTgtgcgtgagcaggcgcaagc	14	8	1	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr2:241661280T>C	ENST00000320389.7	-	42	4542	c.4384A>G	c.(4384-4386)Aca>Gca	p.T1462A	KIF1A_ENST00000498729.2_Missense_Mutation_p.T1563A	NM_004321.6	NP_004312.2	Q12756	KIF1A_HUMAN	kinesin family member 1A	1462					anterograde axon cargo transport (GO:0008089)|ATP catabolic process (GO:0006200)|cell death (GO:0008219)|cytoskeleton-dependent intracellular transport (GO:0030705)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|motor activity (GO:0003774)|plus-end-directed microtubule motor activity (GO:0008574)			NS(1)|central_nervous_system(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(8)|lung(25)|ovary(1)|prostate(5)|skin(2)|urinary_tract(1)	66		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)		CTGTTGAATGTGTGCGTGAGC	0.657																																																0													75	81	79					2																	241661280		2148	4248	6396	SO:0001583	missense	547			AF004425	CCDS46561.1, CCDS58757.1	2q37.2	2014-09-17	2004-01-09	2004-01-14	ENSG00000130294	ENSG00000130294		"Kinesins", "Pleckstrin homology (PH) domain containing"	888	protein-coding gene	gene with protein product		601255	"axonal transport of synaptic vesicles", "chromosome 2 open reading frame 20", "spastic paraplegia 30 (autosomal recessive)"	ATSV, C2orf20, SPG30		7539720, 10323250, 22258533	Standard	NM_001244008		Approved	UNC104	uc010fzk.3	Q12756	OTTHUMG00000151940	ENST00000320389.7:c.4384A>G	2.37:g.241661280T>C	ENSP00000322791:p.Thr1462Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1S5|F5H045|O95068|Q13355|Q14752|Q2NKJ6|Q4LE42|Q53T78|Q59GH1|Q63Z40|Q6P1R9|Q7KZ57	Missense_Mutation	SNP	ENST00000320389.7	37	CCDS46561.1	.	.	.	.	.	.	.	.	.	.	T	14.75	2.630002	0.46944	.	.	ENSG00000130294	ENST00000320389;ENST00000498729;ENST00000373308	T;T	0.72167	-0.55;-0.63	4.33	3.14	0.36123	.	0.120608	0.53938	U	0.000050	T	0.64483	0.2602	L	0.46157	1.445	0.41290	D	0.986977	P;B	0.39737	0.685;0.032	P;B	0.46299	0.511;0.014	T	0.57159	-0.7859	10	0.08599	T	0.76	.	9.5613	0.39371	0.165:0.0:0.0:0.835	.	1563;1462	F5H045;Q12756	.;KIF1A_HUMAN	A	1462;1563;1571	ENSP00000322791:T1462A;ENSP00000438388:T1563A	ENSP00000322791:T1462A	T	-	1	0	KIF1A	241309953	1.000000	0.71417	0.997000	0.53966	0.980000	0.70556	1.446000	0.35090	0.517000	0.28361	0.528000	0.53228	ACA		0.657	KIF1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324536.3	NM_138483		C	241661280	T	C	241661280	3	2	606	1	0	0	0	0	1	0	0	0	8290	1696	59	3	712	3	KIF1A	2	241661280	Missense_Mutation	SNP	T	TCGA-HE-7130-01A-11D-1961-08	39489015	241661280	1538093	43	36539										
OXSM	54995	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	25833175	25833175	+	Frame_Shift_Del	DEL	T	T	-													0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctgtgggagactcatttagaTttatagcccatggtgatgct							TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr3:25833175delT	ENST00000280701.3	+	2	763	c.664delT	c.(664-666)tttfs	p.F222fs	OXSM_ENST00000420173.2_Frame_Shift_Del_p.F222fs|OXSM_ENST00000449808.1_Intron|NGLY1_ENST00000417874.2_5'Flank	NM_017897.2	NP_060367.1	Q9NWU1	OXSM_HUMAN	3-oxoacyl-ACP synthase, mitochondrial	222					acyl-CoA metabolic process (GO:0006637)|medium-chain fatty acid biosynthetic process (GO:0051792)|short-chain fatty acid biosynthetic process (GO:0051790)	mitochondrion (GO:0005739)	3-oxoacyl-[acyl-carrier-protein] synthase activity (GO:0004315)			breast(1)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(5)|lung(9)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	25						CTCATTTAGATTTATAGCCCA	0.498																																																0													121	119	120					3																	25833175		2203	4300	6503	SO:0001589	frameshift_variant	54995			BC008202	CCDS2643.1, CCDS46780.1	3p24.2	2010-03-19			ENSG00000151093	ENSG00000151093	2.3.1.41		26063	protein-coding gene	gene with protein product	"beta-ketoacyl synthase"	610324				12477932	Standard	NM_017897		Approved	KS, FLJ20604, FASN2D	uc003cdn.3	Q9NWU1	OTTHUMG00000130477	ENST00000280701.3:c.664delT	3.37:g.25833175delT	ENSP00000280701:p.Phe222fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000280701.3	37	CCDS2643.1																																																																																				0.498	OXSM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252876.2	NM_017897		-	25833175	T	-	25833175	7	5	606	1	0	1	0	1	0	0	0	0	11342	1493	52	0	666	0	OXSM	3	25833175	Frame_Shift_Del	DEL	T	TCGA-HE-7130-01A-11D-1961-08		25833175	172189255	44	36540										
SEMA3F	6405	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	50220896	50220896	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgtgtgtctactccatggctGatattcgcatggtcttcaac	9	10	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr3:50220896G>C	ENST00000002829.3	+	12	1616	c.1132G>C	c.(1132-1134)Gat>Cat	p.D378H	SEMA3F_ENST00000413852.1_Missense_Mutation_p.D279H|SEMA3F_ENST00000434342.1_Missense_Mutation_p.D347H	NM_004186.3	NP_004177.3	Q13275	SEM3F_HUMAN	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F	378	Sema. {ECO:0000255|PROSITE- ProRule:PRU00352}.				axon extension involved in axon guidance (GO:0048846)|axon guidance (GO:0007411)|branchiomotor neuron axon guidance (GO:0021785)|facial nerve structural organization (GO:0021612)|negative regulation of axon extension involved in axon guidance (GO:0048843)|nerve development (GO:0021675)|neural crest cell migration (GO:0001755)|semaphorin-plexin signaling pathway involved in axon guidance (GO:1902287)|semaphorin-plexin signaling pathway involved in neuron projection guidance (GO:1902285)|sympathetic ganglion development (GO:0061549)|sympathetic neuron projection extension (GO:0097490)|sympathetic neuron projection guidance (GO:0097491)|trigeminal nerve structural organization (GO:0021637)	extracellular space (GO:0005615)|membrane (GO:0016020)	chemorepellent activity (GO:0045499)|receptor activity (GO:0004872)			central_nervous_system(1)|kidney(1)|large_intestine(2)|lung(9)|ovary(1)|prostate(1)|skin(2)	17				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		CTCCATGGCTGATATTCGCAT	0.632																																																0													86	74	78					3																	50220896		2203	4300	6503	SO:0001583	missense	6405			U33920	CCDS2811.1	3p21.3	2013-01-11			ENSG00000001617	ENSG00000001617		"Semaphorins", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	10728	protein-coding gene	gene with protein product	"sema IV"	601124				8786119, 8649831	Standard	NM_004186		Approved	SEMAK, Sema4	uc003cyj.3	Q13275	OTTHUMG00000156806	ENST00000002829.3:c.1132G>C	3.37:g.50220896G>C	ENSP00000002829:p.Asp378His	Somatic		WXS	Illumina HiSeq	Phase_I	C9JQ85|Q13274|Q13372|Q15704|Q6GTR4	Missense_Mutation	SNP	ENST00000002829.3	37	CCDS2811.1	.	.	.	.	.	.	.	.	.	.	G	32	5.151596	0.94645	.	.	ENSG00000001617	ENST00000450338;ENST00000413852;ENST00000002829;ENST00000434342	T;T;T;T	0.27720	1.65;1.65;1.65;1.65	5.45	5.45	0.79879	WD40/YVTN repeat-like-containing domain (1);Semaphorin/CD100 antigen (4);	0.000000	0.85682	D	0.000000	T	0.67590	0.2909	M	0.93720	3.45	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.81914	0.995;0.981	T	0.77096	-0.2714	10	0.87932	D	0	.	18.8886	0.92389	0.0:0.0:1.0:0.0	.	347;378	C9JQ85;Q13275	.;SEM3F_HUMAN	H	347;279;378;347	ENSP00000398399:D347H;ENSP00000388931:D279H;ENSP00000002829:D378H;ENSP00000409859:D347H	ENSP00000002829:D378H	D	+	1	0	SEMA3F	50195900	1.000000	0.71417	0.999000	0.59377	0.993000	0.82548	9.651000	0.98493	2.542000	0.85734	0.511000	0.50034	GAT		0.632	SEMA3F-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345929.1	NM_004186		C	50220896	G	C	50220896	3	2	606	1	0	0	0	0	1	0	0	0	14042	1290	45	4	1174	4	SEMA3F	3	50220896	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	24387721	50220896	147801534	45	36541										
CCDC80	151887	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	112324296	112324296	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tccatggtgataactctcatGatgacggtagtcatcctggt	10	9	2	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr3:112324296G>A	ENST00000206423.3	-	8	3774	c.2821C>T	c.(2821-2823)Cat>Tat	p.H941Y	CCDC80_ENST00000439685.2_Missense_Mutation_p.H941Y	NM_199511.1|NM_199512.1	NP_955805.1|NP_955806.1	Q76M96	CCD80_HUMAN	coiled-coil domain containing 80	941					extracellular matrix organization (GO:0030198)|positive regulation of cell-substrate adhesion (GO:0010811)	basement membrane (GO:0005604)|interstitial matrix (GO:0005614)	heparin binding (GO:0008201)			breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(13)|liver(1)|lung(21)|ovary(3)|pancreas(2)|prostate(4)	51						TAACTCTCATGATGACGGTAG	0.483																																																0													97	89	92					3																	112324296		2203	4300	6503	SO:0001583	missense	151887			AY333429	CCDS2968.1	3q13.2	2010-12-24			ENSG00000091986	ENSG00000091986			30649	protein-coding gene	gene with protein product	"steroid sensitive gene 1"	608298				15325258, 18178152	Standard	XM_005247135		Approved	URB, SSG1, DRO1	uc003dzf.3	Q76M96	OTTHUMG00000159265	ENST00000206423.3:c.2821C>T	3.37:g.112324296G>A	ENSP00000206423:p.His941Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DN67|Q5PR20|Q6GPG9|Q8IVT6|Q8NBV1|Q8NHY8	Missense_Mutation	SNP	ENST00000206423.3	37	CCDS2968.1	.	.	.	.	.	.	.	.	.	.	G	21.9	4.211797	0.79240	.	.	ENSG00000091986	ENST00000206423;ENST00000439685;ENST00000444594	T;T	0.52754	0.65;0.65	5.97	5.97	0.96955	.	0.000000	0.85682	D	0.000000	T	0.37571	0.1008	N	0.19112	0.55	0.46317	D	0.998989	B;B	0.31931	0.347;0.236	B;B	0.26416	0.069;0.031	T	0.29058	-1.0024	10	0.87932	D	0	-20.2625	20.4324	0.99085	0.0:0.0:1.0:0.0	.	952;941	Q76M96-2;Q76M96	.;CCD80_HUMAN	Y	941;941;542	ENSP00000206423:H941Y;ENSP00000411814:H941Y	ENSP00000206423:H941Y	H	-	1	0	CCDC80	113806986	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	6.764000	0.74960	2.833000	0.97629	0.585000	0.79938	CAT		0.483	CCDC80-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354219.1	NM_199511		A	112324296	G	A	112324296	3	1	606	1	0	0	0	0	1	0	0	0	2856	1290	45	2	35	2	CCDC80	3	112324296	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	62103400	112324296	85698134	46	36542										
KALRN	8997	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	124103778	124103778	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gaccccgaggagatctacaaGgcagctcgacacctggaggt	13	12	1	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr3:124103778G>C	ENST00000240874.3	+	11	2008	c.1851G>C	c.(1849-1851)aaG>aaC	p.K617N	KALRN_ENST00000460856.1_Missense_Mutation_p.K617N|KALRN_ENST00000360013.3_Missense_Mutation_p.K617N	NM_003947.4	NP_003938.1	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase	617					apoptotic signaling pathway (GO:0097190)|intracellular signal transduction (GO:0035556)|nervous system development (GO:0007399)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|protein phosphorylation (GO:0006468)|regulation of small GTPase mediated signal transduction (GO:0051056)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)|vesicle-mediated transport (GO:0016192)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|guanyl-nucleotide exchange factor activity (GO:0005085)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(1)|breast(1)|central_nervous_system(1)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(21)|lung(28)|ovary(4)|prostate(5)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	83						AGATCTACAAGGCAGCTCGAC	0.567																																																0													108	88	95					3																	124103778		2203	4300	6503	SO:0001583	missense	8997			U94190	CCDS3027.1, CCDS3028.1	3q21.2	2013-02-11	2005-03-11	2005-03-12	ENSG00000160145	ENSG00000160145		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	4814	protein-coding gene	gene with protein product	"serine/threonine kinase with Dbl and pleckstrin homology domains"	604605	"huntingtin-associated protein interacting protein (duo)"	HAPIP		9285789, 10023074	Standard	NM_001024660		Approved	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24	uc003ehd.3	O60229	OTTHUMG00000125545	ENST00000240874.3:c.1851G>C	3.37:g.124103778G>C	ENSP00000240874:p.Lys617Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8MSI4|C9JQ37|Q6ZN45|Q8TBQ5|Q9NSZ4|Q9Y2A5	Missense_Mutation	SNP	ENST00000240874.3	37	CCDS3027.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	15.01|15.01	2.706440|2.706440	0.48412|0.48412	.|.	.|.	ENSG00000160145|ENSG00000160145	ENST00000460856;ENST00000240874;ENST00000360013;ENST00000439170|ENST00000354186	T;T;T;T|.	0.41758|.	0.99;0.99;0.99;0.99|.	5.0|5.0	4.09|4.09	0.47781|0.47781	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.38214|0.38214	0.1032|0.1032	N|N	0.21373|0.21373	0.66|0.66	0.80722|0.80722	D|D	1|1	P;P;P|.	0.48089|.	0.542;0.905;0.486|.	B;P;B|.	0.50314|.	0.388;0.637;0.268|.	T|T	0.15065|0.15065	-1.0450|-1.0450	10|5	0.18276|.	T|.	0.48|.	.|.	5.048|5.048	0.14494|0.14494	0.4066:0.0:0.5934:0.0|0.4066:0.0:0.5934:0.0	.|.	617;617;617|.	C9IZQ6;O60229;O60229-2|.	.;KALRN_HUMAN;.|.	N|T	617;617;617;93|595	ENSP00000418611:K617N;ENSP00000240874:K617N;ENSP00000353109:K617N;ENSP00000402950:K93N|.	ENSP00000240874:K617N|.	K|R	+|+	3|2	2|0	KALRN|KALRN	125586468|125586468	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	1.890000|1.890000	0.39728|0.39728	1.232000|1.232000	0.43678|0.43678	0.563000|0.563000	0.77884|0.77884	AAG|AGG		0.567	KALRN-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000258843.4	NM_003947		C	124103778	G	C	124103778	3	2	606	1	0	0	0	0	1	0	0	0	7982	991	35	4	1893	4	KALRN	3	124103778	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	11779482	124103778	73918652	47	36543										
KY	339855	ucsc.edu	37	chr3	134322978	134322978	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gctgatggagcagcgcccgtCgctggtgtggatgatagggt	18	8	0	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr3:134322978C>T	ENST00000423778.2	-	11	1490	c.1429G>A	c.(1429-1431)Gac>Aac	p.D477N	KY_ENST00000508956.1_Missense_Mutation_p.D456N|KY_ENST00000503669.1_3'UTR	NM_178554.4	NP_848649.3	Q8NBH2	KY_HUMAN	kyphoscoliosis peptidase	477					muscle organ development (GO:0007517)|neuromuscular junction development (GO:0007528)	cytoskeleton (GO:0005856)|Z disc (GO:0030018)	peptidase activity (GO:0008233)			central_nervous_system(1)|endometrium(3)|kidney(1)|lung(12)|ovary(2)|upper_aerodigestive_tract(2)	21						CAGCGCCCGTCGCTGGTGTGG	0.637																																																0													24	26	25					3																	134322978		2064	4179	6243	SO:0001583	missense	339855			AK090526	CCDS46920.1	3q22.1	2010-11-23			ENSG00000174611	ENSG00000174611			26576	protein-coding gene	gene with protein product		605739					Standard	NM_178554		Approved	FLJ33207	uc010hty.3	Q8NBH2	OTTHUMG00000159788	ENST00000423778.2:c.1429G>A	3.37:g.134322978C>T	ENSP00000397598:p.Asp477Asn	Somatic		WXS	Illumina HiSeq		B7Z1S4|Q6ZT15	Missense_Mutation	SNP	ENST00000423778.2	37	CCDS46920.1	.	.	.	.	.	.	.	.	.	.	C	24.2	4.506252	0.85282	.	.	ENSG00000174611	ENST00000508956;ENST00000423778;ENST00000310263	.	.	.	5.63	5.63	0.86233	.	0.272187	0.36101	N	0.002796	T	0.79329	0.4427	M	0.67953	2.075	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.978;0.999	T	0.80434	-0.1384	9	0.87932	D	0	-5.6797	19.6704	0.95910	0.0:1.0:0.0:0.0	.	456;477	Q8NBH2-3;Q8NBH2-4	.;.	N	456;477;477	.	ENSP00000309520:D477N	D	-	1	0	KY	135805668	0.999000	0.42202	0.876000	0.34364	0.985000	0.73830	5.677000	0.68142	2.659000	0.90383	0.561000	0.74099	GAC		0.637	KY-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357320.1	NM_178554		T	134322978	C	T	134322978	3	4	606	1	0	0	0	0	1	0	0	0	8593	884	31	1	560	1	KY	3	134322978	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	10219200	134322978	63699452	48	36544										
TTC14	151613	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	180324303	180324303	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gaagtttgaacaaagcaataGaagattttgagcttgcatta	9	4	0	4			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr3:180324303G>C	ENST00000296015.4	+	9	1216	c.1084G>C	c.(1084-1086)Gaa>Caa	p.E362Q	TTC14_ENST00000382584.4_Missense_Mutation_p.E362Q|TTC14_ENST00000412756.2_Missense_Mutation_p.E362Q	NM_133462.3	NP_597719.1	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14	362							RNA binding (GO:0003723)			endometrium(3)|kidney(5)|large_intestine(9)|lung(24)|ovary(2)|pancreas(1)|skin(1)	45	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			CAAAGCAATAGAAGATTTTGA	0.383																																																0													117	124	121					3																	180324303		2203	4300	6503	SO:0001583	missense	151613			AB075860	CCDS3237.1, CCDS46963.1, CCDS75055.1	3q27.2	2013-01-10			ENSG00000163728	ENSG00000163728		"Tetratricopeptide (TTC) repeat domain containing"	24697	protein-coding gene	gene with protein product						11853319	Standard	NM_001042601		Approved	FLJ00166, KIAA1980	uc003fkk.3	Q96N46	OTTHUMG00000157859	ENST00000296015.4:c.1084G>C	3.37:g.180324303G>C	ENSP00000296015:p.Glu362Gln	Somatic		WXS	Illumina HiSeq	Phase_I	G5E9X0|Q6UWJ7|Q8TF22	Missense_Mutation	SNP	ENST00000296015.4	37	CCDS3237.1	.	.	.	.	.	.	.	.	.	.	G	17.46	3.396059	0.62177	.	.	ENSG00000163728	ENST00000296015;ENST00000412756;ENST00000382584	T;T;T	0.62232	0.04;0.04;0.04	5.93	5.93	0.95920	Tetratricopeptide-like helical (1);Tetratricopeptide repeat-containing (1);	0.482695	0.24828	N	0.035263	T	0.64778	0.2629	L	0.42529	1.33	0.33985	D	0.648465	D;P;P	0.71674	0.998;0.787;0.912	P;B;P	0.55615	0.78;0.419;0.575	T	0.70063	-0.4975	10	0.30854	T	0.27	-20.8298	11.6377	0.51213	0.1367:0.0:0.8633:0.0	.	362;362;362	Q96N46-2;G5E9X0;Q96N46	.;.;TTC14_HUMAN	Q	362	ENSP00000296015:E362Q;ENSP00000413743:E362Q;ENSP00000372027:E362Q	ENSP00000296015:E362Q	E	+	1	0	TTC14	181806997	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.915000	0.48805	2.798000	0.96311	0.655000	0.94253	GAA		0.383	TTC14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349786.1	NM_133462		C	180324303	G	C	180324303	3	2	606	1	0	0	0	0	1	0	0	0	16693	943	33	4	1118	4	TTC14	3	180324303	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	46001325	180324303	17698127	49	36545										
CCDC39	339829	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	180337752	180337752	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ttgaagttcttctttttcttGagcagcctatgaagtacaga	8	7	3	4			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr3:180337752G>C	ENST00000442201.2	-	15	2124	c.2005C>G	c.(2005-2007)Caa>Gaa	p.Q669E	CCDC39_ENST00000273654.4_Intron	NM_181426.1	NP_852091.1	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	669					axonemal dynein complex assembly (GO:0070286)|cilium-dependent cell motility (GO:0060285)|determination of digestive tract left/right asymmetry (GO:0071907)|determination of liver left/right asymmetry (GO:0071910)|determination of pancreatic left/right asymmetry (GO:0035469)|epithelial cilium movement involved in determination of left/right asymmetry (GO:0060287)|heart looping (GO:0001947)|lung development (GO:0030324)	axoneme (GO:0005930)|cytoskeleton (GO:0005856)				NS(1)|breast(1)|endometrium(4)|large_intestine(9)|lung(22)|ovary(6)|prostate(2)	45	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TCTTTTTCTTGAGCAGCCTAT	0.383																																																0													64	53	57					3																	180337752		1829	4079	5908	SO:0001583	missense	339829			BC047103	CCDS46964.1	3q26.33	2012-07-27			ENSG00000145075	ENSG00000145075			25244	protein-coding gene	gene with protein product		613798				21131972	Standard	NM_181426		Approved	DKFZp434A128, CILD14, FAP59	uc010hxe.3	Q9UFE4	OTTHUMG00000157857	ENST00000442201.2:c.2005C>G	3.37:g.180337752G>C	ENSP00000405708:p.Gln669Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2H1	Missense_Mutation	SNP	ENST00000442201.2	37	CCDS46964.1	.	.	.	.	.	.	.	.	.	.	G	22.2	4.263405	0.80358	.	.	ENSG00000145075	ENST00000442201	T	0.77620	-1.11	5.25	5.25	0.73442	.	.	.	.	.	D	0.87446	0.6179	M	0.83953	2.67	0.80722	D	1	D	0.71674	0.998	D	0.66602	0.945	D	0.84150	0.0422	9	0.13108	T	0.6	.	19.205	0.93726	0.0:0.0:1.0:0.0	.	669	Q9UFE4	CCD39_HUMAN	E	669	ENSP00000405708:Q669E	ENSP00000405708:Q669E	Q	-	1	0	CCDC39	181820446	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	8.762000	0.91711	2.596000	0.87737	0.563000	0.77884	CAA		0.383	CCDC39-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349783.3	XM_291028		C	180337752	G	C	180337752	3	2	606	1	0	0	0	0	1	0	0	0	2813	1299	45	4	844	4	CCDC39	3	180337752	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	13449	180337752	17684678	50	36546										
C3orf59	151963	broad.mit.edu	37	chr3	192516239	192516239	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cgtcaggattgataaagacaGagattgactttcccgggttc	11	8	1	4			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr3:192516239G>C	ENST00000392452.2	-	2	1732	c.1412C>G	c.(1411-1413)tCt>tGt	p.S471C		NM_178496.3	NP_848591.2	Q8IYB1	M21D2_HUMAN	Mab-21 domain containing 2	471							protein complex binding (GO:0032403)			endometrium(3)|kidney(1)|large_intestine(4)|lung(17)|ovary(3)|prostate(2)|upper_aerodigestive_tract(1)	31						GATAAAGACAGAGATTGACTT	0.453																																																0													106	112	110					3																	192516239		2203	4300	6503	SO:0001583	missense	151963			AK056276	CCDS3302.2	3q28-q29	2011-02-23	2011-02-23	2011-02-23	ENSG00000180611	ENSG00000180611			30438	protein-coding gene	gene with protein product			"chromosome 3 open reading frame 59"	C3orf59		12477932	Standard	NM_178496		Approved		uc011bsp.2	Q8IYB1	OTTHUMG00000155768	ENST00000392452.2:c.1412C>G	3.37:g.192516239G>C	ENSP00000376246:p.Ser471Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q86VD8	Missense_Mutation	SNP	ENST00000392452.2	37	CCDS3302.2	.	.	.	.	.	.	.	.	.	.	G	17.93	3.508051	0.64410	.	.	ENSG00000180611	ENST00000392452	T	0.61742	0.08	5.41	5.41	0.78517	.	0.000000	0.85682	D	0.000000	T	0.69115	0.3075	L	0.36672	1.1	0.80722	D	1	D	0.76494	0.999	D	0.77557	0.99	T	0.71932	-0.4443	10	0.87932	D	0	-6.8519	18.2207	0.89901	0.0:0.0:1.0:0.0	.	471	Q8IYB1	M21D2_HUMAN	C	471	ENSP00000376246:S471C	ENSP00000376246:S471C	S	-	2	0	MB21D2	193998933	1.000000	0.71417	0.994000	0.49952	0.921000	0.55340	9.567000	0.98161	2.538000	0.85594	0.650000	0.86243	TCT		0.453	MB21D2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341543.1	NM_178496		C	192516239	G	C	192516239	3	2	606	1	0	0	0	0	1	0	0	0	2239	942	33	4	67	4	C3orf59	3	192516239	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	12178487	192516239	5506191	51	36547										
PDE6B	5158	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	619524	619524	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	agaatgtggccgcggcctgcGaggacgggtgcccgccggac	18	13	0	1	rs376908835		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr4:619524G>A	ENST00000496514.1	+	1	130	c.109G>A	c.(109-111)Gag>Aag	p.E37K	PDE6B_ENST00000255622.6_Missense_Mutation_p.E37K			P35913	PDE6B_HUMAN	phosphodiesterase 6B, cGMP-specific, rod, beta	37					cytosolic calcium ion homeostasis (GO:0051480)|GMP metabolic process (GO:0046037)|phototransduction, visible light (GO:0007603)|regulation of rhodopsin mediated signaling pathway (GO:0022400)|retina development in camera-type eye (GO:0060041)|rhodopsin mediated signaling pathway (GO:0016056)|visual perception (GO:0007601)	photoreceptor disc membrane (GO:0097381)|plasma membrane (GO:0005886)	3',5'-cyclic-GMP phosphodiesterase activity (GO:0047555)|metal ion binding (GO:0046872)			NS(1)|breast(3)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(5)|lung(11)|ovary(2)|prostate(2)|urinary_tract(1)	30					Caffeine(DB00201)	CGCGGCCTGCGAGGACGGGTG	0.647																																					GBM(71;463 1194 9848 25922 46834)											0								G	LYS/GLU,LYS/GLU	0,4406		0,0,2203	46	49	48		109,109	5	0	4		48	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense	PDE6B	NM_000283.3,NM_001145291.1	56,56	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	benign,benign	37/855,37/854	619524	1,13005	2203	4300	6503	SO:0001583	missense	5158			BC000249	CCDS33932.1, CCDS46993.1, CCDS54703.1	4p16.3	2014-01-28	2008-07-31		ENSG00000133256	ENSG00000133256	3.1.4.17	"Phosphodiesterases"	8786	protein-coding gene	gene with protein product	"congenital stationary night blindness 3, autosomal dominant"	180072		PDEB		1313787	Standard	NM_001145292		Approved	CSNB3, rd1, RP40, CSNBAD2	uc003gap.3	P35913	OTTHUMG00000159909	ENST00000496514.1:c.109G>A	4.37:g.619524G>A	ENSP00000420295:p.Glu37Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z9T9|E7ETT3|Q53XN5|Q9BWH5|Q9UD49	Missense_Mutation	SNP	ENST00000496514.1	37	CCDS33932.1	.	.	.	.	.	.	.	.	.	.	G	4.307	0.056193	0.08291	0.0	1.16E-4	ENSG00000133256	ENST00000255622;ENST00000496514	T;T	0.62639	0.01;0.01	4.98	4.98	0.66077	.	0.434210	0.23720	N	0.045237	T	0.49150	0.1540	L	0.38531	1.155	0.80722	D	1	B;B	0.13145	0.007;0.005	B;B	0.08055	0.001;0.003	T	0.44574	-0.9319	10	0.06494	T	0.89	.	15.7244	0.77743	0.0:0.0:1.0:0.0	.	37;37	P35913;P35913-2	PDE6B_HUMAN;.	K	37	ENSP00000255622:E37K;ENSP00000420295:E37K	ENSP00000255622:E37K	E	+	1	0	PDE6B	609524	0.010000	0.17322	0.010000	0.14722	0.110000	0.19582	1.168000	0.31859	2.326000	0.78906	0.561000	0.74099	GAG		0.647	PDE6B-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000358109.1	NM_000283		A	619524	G	A	619524	3	1	606	1	0	0	0	0	1	0	0	0	11653	1059	37	1	111	1	PDE6B	4	619524	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08		619524	190534752	52	36548										
FGFR3	2261	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	1806099	1806099	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgacgaggcgggcagtgtgtAtgcaggcatcctcagctacg	15	10	1	1	rs121913485		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr4:1806099A>G	ENST00000260795.2	+	8	1220	c.1118A>G	c.(1117-1119)tAt>tGt	p.Y373C	FGFR3_ENST00000481110.2_Missense_Mutation_p.Y373C|FGFR3_ENST00000352904.1_Intron|FGFR3_ENST00000340107.4_Missense_Mutation_p.Y375C|FGFR3_ENST00000412135.2_Intron|FGFR3_ENST00000440486.2_Missense_Mutation_p.Y373C			P22607	FGFR3_HUMAN	fibroblast growth factor receptor 3	373			Y -> C (in KERSEB and TD1; disulfide- linked dimer with constitutive kinase activation). {ECO:0000269|PubMed:10360402, ECO:0000269|PubMed:15772091, ECO:0000269|PubMed:8845844, ECO:0000269|PubMed:9207791}.		alveolar secondary septum development (GO:0061144)|axonogenesis involved in innervation (GO:0060385)|bone maturation (GO:0070977)|bone mineralization (GO:0030282)|bone morphogenesis (GO:0060349)|cell-cell signaling (GO:0007267)|central nervous system myelination (GO:0022010)|chondrocyte differentiation (GO:0002062)|chondrocyte proliferation (GO:0035988)|cochlea development (GO:0090102)|digestive tract morphogenesis (GO:0048546)|endochondral bone growth (GO:0003416)|endochondral ossification (GO:0001958)|epidermal growth factor receptor signaling pathway (GO:0007173)|epithelial cell fate commitment (GO:0072148)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor apoptotic signaling pathway (GO:1902178)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|inner ear receptor cell differentiation (GO:0060113)|insulin receptor signaling pathway (GO:0008286)|JAK-STAT cascade (GO:0007259)|lens fiber cell development (GO:0070307)|lens morphogenesis in camera-type eye (GO:0002089)|MAPK cascade (GO:0000165)|morphogenesis of an epithelium (GO:0002009)|negative regulation of astrocyte differentiation (GO:0048712)|negative regulation of developmental growth (GO:0048640)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of mitosis (GO:0045839)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cell differentiation (GO:0045597)|positive regulation of cell proliferation (GO:0008284)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of MAPKKK cascade by fibroblast growth factor receptor signaling pathway (GO:0090080)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of phospholipase activity (GO:0010518)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of tyrosine phosphorylation of Stat1 protein (GO:0042511)|positive regulation of tyrosine phosphorylation of Stat3 protein (GO:0042517)|protein autophosphorylation (GO:0046777)|response to axon injury (GO:0048678)|skeletal system development (GO:0001501)|somatic stem cell maintenance (GO:0035019)|substantia nigra development (GO:0021762)	cell surface (GO:0009986)|cytoplasmic side of plasma membrane (GO:0009898)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|lysosome (GO:0005764)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|fibroblast growth factor binding (GO:0017134)|fibroblast growth factor-activated receptor activity (GO:0005007)|protein tyrosine kinase activity (GO:0004713)	p.Y373C(395)		NS(1)|central_nervous_system(5)|cervix(6)|endometrium(2)|haematopoietic_and_lymphoid_tissue(40)|kidney(1)|large_intestine(5)|lung(9)|ovary(1)|pancreas(2)|prostate(9)|skin(339)|soft_tissue(4)|testis(2)|upper_aerodigestive_tract(58)|urinary_tract(2607)	3091		Breast(71;0.212)|all_epithelial(65;0.241)	all cancers(2;0.000145)|OV - Ovarian serous cystadenocarcinoma(23;0.0019)|Epithelial(3;0.00221)|GBM - Glioblastoma multiforme(2;0.234)		Palifermin(DB00039)|Pazopanib(DB06589)|Ponatinib(DB08901)	GGCAGTGTGTATGCAGGCATC	0.682	Y373C(KMS11_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	1	"Mis, T"	"IGH@, ETV6"	"bladder, MM, T-cell lymphoma"		"Hypochondroplasia, Thanatophoric dysplasia"		Saethre-Chotzen syndrome;Muenke syndrome																														Dom	yes		4	4p16.3	2261	fibroblast growth factor receptor 3	yes	"L, E"	395	Substitution - Missense(395)	urinary_tract(371)|skin(16)|haematopoietic_and_lymphoid_tissue(8)	GRCh37	CM960657	FGFR3	M	rs121913485						141	134	137					4																	1806099		2203	4300	6503	SO:0001583	missense	2261	Familial Cancer Database	Acrocephalosyndactyly type III;Muenke Nonsyndromic Coronal Craniosynostosis, FGFR3-related Craniosynostosis	M64347	CCDS3353.1, CCDS3354.1, CCDS54706.1	4p16.3	2013-01-11	2008-08-01		ENSG00000068078	ENSG00000068078		"CD molecules", "Immunoglobulin superfamily / I-set domain containing"	3690	protein-coding gene	gene with protein product		134934	"achondroplasia, thanatophoric dwarfism"	ACH		1847508	Standard	NM_000142		Approved	CEK2, JTK4, CD333	uc003gdu.2	P22607	OTTHUMG00000121148	ENST00000260795.2:c.1118A>G	4.37:g.1806099A>G	ENSP00000260795:p.Tyr373Cys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVP9|D3DVQ0|Q14308|Q16294|Q16608|Q59FL9	Missense_Mutation	SNP	ENST00000260795.2	37	CCDS3353.1	.	.	.	.	.	.	.	.	.	.	a	12.61	1.990190	0.35131	.	.	ENSG00000068078	ENST00000481110;ENST00000340107;ENST00000440486;ENST00000260795	D;D;D;D	0.88201	-2.35;-2.35;-2.35;-2.35	4.68	1.93	0.25924	.	0.343855	0.31061	N	0.008340	D	0.93148	0.7818	M	0.82517	2.595	0.80722	A	1	D;D;D	0.76494	0.992;0.994;0.999	D;P;D	0.72625	0.94;0.896;0.978	D	0.94049	0.7316	9	0.72032	D	0.01	.	8.9873	0.36001	0.7079:0.0:0.0:0.2921	.	375;373;373	P22607-2;P22607;F8W9L4	.;FGFR3_HUMAN;.	C	373;375;373;373	ENSP00000420533:Y373C;ENSP00000339824:Y375C;ENSP00000414914:Y373C;ENSP00000260795:Y373C	ENSP00000260795:Y373C	Y	+	2	0	FGFR3	1775897	0.999000	0.42202	0.495000	0.27527	0.084000	0.17831	4.274000	0.58921	0.715000	0.32103	0.379000	0.24179	TAT		0.682	FGFR3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000241632.2	NM_000142		G	1806099	A	G	1806099	3	3	606	1	0	0	0	0	1	0	0	0	5874	449	16	3	1303	3	FGFR3	4	1806099	Missense_Mutation	SNP	A	TCGA-HE-7130-01A-11D-1961-08	1186575	1806099	189348177	53	36549										
FGFR3	2261	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	1807891	1807891	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aacctcgactactacaagaaGacgaccaacgtgagcccggc	9	14	0	3	rs28928868		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr4:1807891G>C	ENST00000260795.2	+	13	2052	c.1950G>C	c.(1948-1950)aaG>aaC	p.K650N	FGFR3_ENST00000481110.2_Missense_Mutation_p.K651N|FGFR3_ENST00000352904.1_Missense_Mutation_p.K538N|FGFR3_ENST00000340107.4_Missense_Mutation_p.K652N|FGFR3_ENST00000412135.2_Missense_Mutation_p.K538N|FGFR3_ENST00000440486.2_Missense_Mutation_p.K650N			P22607	FGFR3_HUMAN	fibroblast growth factor receptor 3	650	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.		K -> E (in KERSEB, TD2, TGCT and bladder cancer samples; bladder transitional cell carcinoma; somatic mutation; constitutively activated kinase with impaired internalization and degradation, resulting in prolonged FGFR3 signaling). {ECO:0000269|PubMed:10471491, ECO:0000269|PubMed:15772091, ECO:0000269|PubMed:17344846, ECO:0000269|PubMed:19855393, ECO:0000269|PubMed:7773297, ECO:0000269|PubMed:9207791}.|K -> M (in KERSEB, ACH and TD1; constitutively activated kinase with impaired internalization and degradation, resulting in prolonged FGFR3 signaling). {ECO:0000269|PubMed:10671061, ECO:0000269|PubMed:15772091, ECO:0000269|PubMed:9207791}.|K -> Q (in hypochondroplasia and bladder cancer; in hypochondroplasia the form is milder than that seen in individuals with the K-540 or M-650 mutations; constitutively activated kinase). {ECO:0000269|PubMed:11055896, ECO:0000269|PubMed:11314002}.		alveolar secondary septum development (GO:0061144)|axonogenesis involved in innervation (GO:0060385)|bone maturation (GO:0070977)|bone mineralization (GO:0030282)|bone morphogenesis (GO:0060349)|cell-cell signaling (GO:0007267)|central nervous system myelination (GO:0022010)|chondrocyte differentiation (GO:0002062)|chondrocyte proliferation (GO:0035988)|cochlea development (GO:0090102)|digestive tract morphogenesis (GO:0048546)|endochondral bone growth (GO:0003416)|endochondral ossification (GO:0001958)|epidermal growth factor receptor signaling pathway (GO:0007173)|epithelial cell fate commitment (GO:0072148)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor apoptotic signaling pathway (GO:1902178)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|inner ear receptor cell differentiation (GO:0060113)|insulin receptor signaling pathway (GO:0008286)|JAK-STAT cascade (GO:0007259)|lens fiber cell development (GO:0070307)|lens morphogenesis in camera-type eye (GO:0002089)|MAPK cascade (GO:0000165)|morphogenesis of an epithelium (GO:0002009)|negative regulation of astrocyte differentiation (GO:0048712)|negative regulation of developmental growth (GO:0048640)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of mitosis (GO:0045839)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cell differentiation (GO:0045597)|positive regulation of cell proliferation (GO:0008284)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of MAPKKK cascade by fibroblast growth factor receptor signaling pathway (GO:0090080)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of phospholipase activity (GO:0010518)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of tyrosine phosphorylation of Stat1 protein (GO:0042511)|positive regulation of tyrosine phosphorylation of Stat3 protein (GO:0042517)|protein autophosphorylation (GO:0046777)|response to axon injury (GO:0048678)|skeletal system development (GO:0001501)|somatic stem cell maintenance (GO:0035019)|substantia nigra development (GO:0021762)	cell surface (GO:0009986)|cytoplasmic side of plasma membrane (GO:0009898)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|lysosome (GO:0005764)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|fibroblast growth factor binding (GO:0017134)|fibroblast growth factor-activated receptor activity (GO:0005007)|protein tyrosine kinase activity (GO:0004713)			NS(1)|central_nervous_system(5)|cervix(6)|endometrium(2)|haematopoietic_and_lymphoid_tissue(40)|kidney(1)|large_intestine(5)|lung(9)|ovary(1)|pancreas(2)|prostate(9)|skin(339)|soft_tissue(4)|testis(2)|upper_aerodigestive_tract(58)|urinary_tract(2607)	3091		Breast(71;0.212)|all_epithelial(65;0.241)	all cancers(2;0.000145)|OV - Ovarian serous cystadenocarcinoma(23;0.0019)|Epithelial(3;0.00221)|GBM - Glioblastoma multiforme(2;0.234)		Palifermin(DB00039)|Pazopanib(DB06589)|Ponatinib(DB08901)	ACTACAAGAAGACGACCAACG	0.662		1	"Mis, T"	"IGH@, ETV6"	"bladder, MM, T-cell lymphoma"		"Hypochondroplasia, Thanatophoric dysplasia"		Saethre-Chotzen syndrome;Muenke syndrome																														Dom	yes		4	4p16.3	2261	fibroblast growth factor receptor 3	yes	"L, E"	0			GRCh37	CM002965|CM002966	FGFR3	M	rs28928868						31	32	31					4																	1807891		2203	4299	6502	SO:0001583	missense	2261	Familial Cancer Database	Acrocephalosyndactyly type III;Muenke Nonsyndromic Coronal Craniosynostosis, FGFR3-related Craniosynostosis	M64347	CCDS3353.1, CCDS3354.1, CCDS54706.1	4p16.3	2013-01-11	2008-08-01		ENSG00000068078	ENSG00000068078		"CD molecules", "Immunoglobulin superfamily / I-set domain containing"	3690	protein-coding gene	gene with protein product		134934	"achondroplasia, thanatophoric dwarfism"	ACH		1847508	Standard	NM_000142		Approved	CEK2, JTK4, CD333	uc003gdu.2	P22607	OTTHUMG00000121148	ENST00000260795.2:c.1950G>C	4.37:g.1807891G>C	ENSP00000260795:p.Lys650Asn	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVP9|D3DVQ0|Q14308|Q16294|Q16608|Q59FL9	Missense_Mutation	SNP	ENST00000260795.2	37	CCDS3353.1	.	.	.	.	.	.	.	.	.	.	g	13.74	2.328521	0.41197	.	.	ENSG00000068078	ENST00000481110;ENST00000340107;ENST00000440486;ENST00000412135;ENST00000260795;ENST00000352904	D;D;D;D;D;D	0.83506	-1.73;-1.73;-1.73;-1.73;-1.73;-1.73	4.35	3.48	0.39840	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	D	0.86100	0.5852	L	0.53671	1.685	0.80722	D	1	D;D;D;D	0.89917	1.0;0.999;1.0;1.0	D;D;D;D	0.97110	1.0;0.98;1.0;1.0	D	0.85665	0.1291	10	0.87932	D	0	.	5.6966	0.17859	0.3256:0.0:0.6744:0.0	.	652;538;650;651	P22607-2;P22607-3;P22607;F8W9L4	.;.;FGFR3_HUMAN;.	N	651;652;650;538;650;538	ENSP00000420533:K651N;ENSP00000339824:K652N;ENSP00000414914:K650N;ENSP00000412903:K538N;ENSP00000260795:K650N;ENSP00000231803:K538N	ENSP00000260795:K650N	K	+	3	2	FGFR3	1777689	1.000000	0.71417	1.000000	0.80357	0.396000	0.30629	2.106000	0.41835	2.127000	0.65507	0.448000	0.29417	AAG		0.662	FGFR3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000241632.2	NM_000142		C	1807891	G	C	1807891	3	2	606	1	0	0	0	0	1	0	0	0	5874	933	33	4	2155	4	FGFR3	4	1807891	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	1792	1807891	189346385	54	36550										
FGFR3	2261	broad.mit.edu;bcgsc.ca	37	chr4	1808562	1808562	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cgccctgcccgcaggtacatGatcatgcgggagtgctggca	14	13	1	1	rs377402598		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr4:1808562G>A	ENST00000260795.2	+	16	2277	c.2175G>A	c.(2173-2175)atG>atA	p.M725I	FGFR3_ENST00000481110.2_Missense_Mutation_p.D703N|FGFR3_ENST00000352904.1_Missense_Mutation_p.M613I|FGFR3_ENST00000340107.4_Missense_Mutation_p.M727I|FGFR3_ENST00000412135.2_Missense_Mutation_p.M613I|FGFR3_ENST00000440486.2_Missense_Mutation_p.M725I			P22607	FGFR3_HUMAN	fibroblast growth factor receptor 3	725	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				alveolar secondary septum development (GO:0061144)|axonogenesis involved in innervation (GO:0060385)|bone maturation (GO:0070977)|bone mineralization (GO:0030282)|bone morphogenesis (GO:0060349)|cell-cell signaling (GO:0007267)|central nervous system myelination (GO:0022010)|chondrocyte differentiation (GO:0002062)|chondrocyte proliferation (GO:0035988)|cochlea development (GO:0090102)|digestive tract morphogenesis (GO:0048546)|endochondral bone growth (GO:0003416)|endochondral ossification (GO:0001958)|epidermal growth factor receptor signaling pathway (GO:0007173)|epithelial cell fate commitment (GO:0072148)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor apoptotic signaling pathway (GO:1902178)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|inner ear receptor cell differentiation (GO:0060113)|insulin receptor signaling pathway (GO:0008286)|JAK-STAT cascade (GO:0007259)|lens fiber cell development (GO:0070307)|lens morphogenesis in camera-type eye (GO:0002089)|MAPK cascade (GO:0000165)|morphogenesis of an epithelium (GO:0002009)|negative regulation of astrocyte differentiation (GO:0048712)|negative regulation of developmental growth (GO:0048640)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of mitosis (GO:0045839)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cell differentiation (GO:0045597)|positive regulation of cell proliferation (GO:0008284)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of MAPKKK cascade by fibroblast growth factor receptor signaling pathway (GO:0090080)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of phospholipase activity (GO:0010518)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of tyrosine phosphorylation of Stat1 protein (GO:0042511)|positive regulation of tyrosine phosphorylation of Stat3 protein (GO:0042517)|protein autophosphorylation (GO:0046777)|response to axon injury (GO:0048678)|skeletal system development (GO:0001501)|somatic stem cell maintenance (GO:0035019)|substantia nigra development (GO:0021762)	cell surface (GO:0009986)|cytoplasmic side of plasma membrane (GO:0009898)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|lysosome (GO:0005764)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|fibroblast growth factor binding (GO:0017134)|fibroblast growth factor-activated receptor activity (GO:0005007)|protein tyrosine kinase activity (GO:0004713)			NS(1)|central_nervous_system(5)|cervix(6)|endometrium(2)|haematopoietic_and_lymphoid_tissue(40)|kidney(1)|large_intestine(5)|lung(9)|ovary(1)|pancreas(2)|prostate(9)|skin(339)|soft_tissue(4)|testis(2)|upper_aerodigestive_tract(58)|urinary_tract(2607)	3091		Breast(71;0.212)|all_epithelial(65;0.241)	all cancers(2;0.000145)|OV - Ovarian serous cystadenocarcinoma(23;0.0019)|Epithelial(3;0.00221)|GBM - Glioblastoma multiforme(2;0.234)		Palifermin(DB00039)|Pazopanib(DB06589)|Ponatinib(DB08901)	GCAGGTACATGATCATGCGGG	0.687		1	"Mis, T"	"IGH@, ETV6"	"bladder, MM, T-cell lymphoma"		"Hypochondroplasia, Thanatophoric dysplasia"		Saethre-Chotzen syndrome;Muenke syndrome																														Dom	yes		4	4p16.3	2261	fibroblast growth factor receptor 3	yes	"L, E"	0								G	ILE/MET,ILE/MET,ILE/MET	1,4395		0,1,2197	23	25	24		2175,2181,1839	3.9	1	4		24	0,8598		0,0,4299	no	missense,missense,missense	FGFR3	NM_000142.4,NM_001163213.1,NM_022965.3	10,10,10	0,1,6496	AA,AG,GG		0.0,0.0227,0.0077	benign,benign,benign	725/807,727/809,613/695	1808562	1,12993	2198	4299	6497	SO:0001583	missense	2261	Familial Cancer Database	Acrocephalosyndactyly type III;Muenke Nonsyndromic Coronal Craniosynostosis, FGFR3-related Craniosynostosis	M64347	CCDS3353.1, CCDS3354.1, CCDS54706.1	4p16.3	2013-01-11	2008-08-01		ENSG00000068078	ENSG00000068078		"CD molecules", "Immunoglobulin superfamily / I-set domain containing"	3690	protein-coding gene	gene with protein product		134934	"achondroplasia, thanatophoric dwarfism"	ACH		1847508	Standard	NM_000142		Approved	CEK2, JTK4, CD333	uc003gdu.2	P22607	OTTHUMG00000121148	ENST00000260795.2:c.2175G>A	4.37:g.1808562G>A	ENSP00000260795:p.Met725Ile	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVP9|D3DVQ0|Q14308|Q16294|Q16608|Q59FL9	Missense_Mutation	SNP	ENST00000260795.2	37	CCDS3353.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	g|g	20.8|20.8	4.049321|4.049321	0.75846|0.75846	2.27E-4|2.27E-4	0.0|0.0	ENSG00000068078|ENSG00000068078	ENST00000481110|ENST00000340107;ENST00000440486;ENST00000412135;ENST00000260795;ENST00000352904	T|D;D;D;D;D	0.80738|0.91180	-1.41|-2.8;-2.8;-2.8;-2.8;-2.8	4.88|4.88	3.88|3.88	0.44766|0.44766	.|Serine-threonine/tyrosine-protein kinase (2);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.213818|.	0.46758|.	D|.	0.000263|.	D|D	0.83381|0.83381	0.5242|0.5242	N|N	0.20685|0.20685	0.6|0.6	0.80722|0.80722	D|D	1|1	B|B;P;B	0.25007|0.42409	0.116|0.015;0.779;0.354	B|B;B;B	0.24155|0.40165	0.051|0.047;0.313;0.321	T|T	0.83259|0.83259	-0.0049|-0.0049	10|9	0.87932|0.72032	D|D	0|0.01	.|.	11.1768|11.1768	0.48603|0.48603	0.1118:0.0:0.8882:0.0|0.1118:0.0:0.8882:0.0	.|.	703|727;613;725	F8W9L4|P22607-2;P22607-3;P22607	.|.;.;FGFR3_HUMAN	N|I	703|727;725;613;725;613	ENSP00000420533:D703N|ENSP00000339824:M727I;ENSP00000414914:M725I;ENSP00000412903:M613I;ENSP00000260795:M725I;ENSP00000231803:M613I	ENSP00000420533:D703N|ENSP00000260795:M725I	D|M	+|+	1|3	0|0	FGFR3|FGFR3	1778360|1778360	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.964000|0.964000	0.63967|0.63967	6.445000|6.445000	0.73456|0.73456	0.925000|0.925000	0.37094|0.37094	0.561000|0.561000	0.74099|0.74099	GAT|ATG		0.687	FGFR3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000241632.2	NM_000142		A	1808562	G	A	1808562	3	1	606	1	0	0	0	0	1	0	0	0	5874	1290	45	2	2392	2	FGFR3	4	1808562	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	671	1808562	189345714	55	36551										
JAKMIP1	152789	broad.mit.edu;ucsc.edu	37	chr4	6052355	6052355	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gagagcgctgctgtggttctCggggaaggtggtgatttgga	19	5	1	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr4:6052355C>T	ENST00000409021.3	-	14	2307	c.1858G>A	c.(1858-1860)Gag>Aag	p.E620K	JAKMIP1_ENST00000409371.3_Missense_Mutation_p.E435K	NM_001099433.1	NP_001092903.1	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein 1	0	Mediates interaction with TYK2 and GABBR1.				cognition (GO:0050890)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|extrinsic component of membrane (GO:0019898)|microtubule (GO:0005874)|ribonucleoprotein complex (GO:0030529)	GABA receptor binding (GO:0050811)|RNA binding (GO:0003723)			NS(2)|endometrium(1)|kidney(2)|large_intestine(10)|lung(13)|ovary(2)|pancreas(2)|prostate(1)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	42						CTGTGGTTCTCGGGGAAGGTG	0.542																																																0													91	99	96					4																	6052355		2026	4154	6180	SO:0001583	missense	152789			AK056126	CCDS3385.1, CCDS47005.1	4p16.1	2013-10-11	2009-08-13		ENSG00000152969	ENSG00000152969			26460	protein-coding gene	gene with protein product		611195				18941173	Standard	NM_144720		Approved	MARLIN1, JAMIP1, Gababrbp, FLJ31564	uc010idb.1	Q96N16	OTTHUMG00000125491	ENST00000409021.3:c.1858G>A	4.37:g.6052355C>T	ENSP00000386711:p.Glu620Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6H2J2|A6H2J3|A6H2J4|A6H2J5|A8MTK6|B4DHZ8|B8ZZR7|D3DVT0|Q86Y69|Q8N7G3	Missense_Mutation	SNP	ENST00000409021.3	37	CCDS47005.1	.	.	.	.	.	.	.	.	.	.	C	18.32	3.598874	0.66332	.	.	ENSG00000152969	ENST00000409021;ENST00000409371	T;T	0.36157	1.7;1.27	5.1	5.1	0.69264	.	.	.	.	.	T	0.27731	0.0682	.	.	.	0.80722	D	1	P;D	0.56287	0.899;0.975	B;B	0.38225	0.268;0.206	T	0.04976	-1.0914	8	0.35671	T	0.21	.	13.3054	0.60349	0.0:0.8416:0.1584:0.0	.	435;620	Q96N16-5;Q96N16-2	.;.	K	620;435	ENSP00000386711:E620K;ENSP00000387042:E435K	ENSP00000386711:E620K	E	-	1	0	JAKMIP1	6103256	1.000000	0.71417	0.998000	0.56505	0.876000	0.50452	6.374000	0.73132	2.375000	0.81037	0.555000	0.69702	GAG		0.542	JAKMIP1-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000329747.1	NM_144720		T	6052355	C	T	6052355	3	4	606	1	0	0	0	0	1	0	0	0	7947	893	31	1	669	1	JAKMIP1	4	6052355	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	4243793	6052355	185101921	56	36552										
PPARGC1A	10891	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	23830149	23830149	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gtttgtggtcagatatttgaGaagctccgagcagggacgtc	14	7	1	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr4:23830149G>T	ENST00000264867.2	-	5	750	c.631C>A	c.(631-633)Ctc>Atc	p.L211I	PPARGC1A_ENST00000509702.1_5'UTR	NM_013261.3	NP_037393.1	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor gamma, coactivator 1 alpha	211					androgen metabolic process (GO:0008209)|androgen receptor signaling pathway (GO:0030521)|brown fat cell differentiation (GO:0050873)|cellular glucose homeostasis (GO:0001678)|cellular respiration (GO:0045333)|cellular response to fatty acid (GO:0071398)|cellular response to hypoxia (GO:0071456)|cellular response to nitrite (GO:0071250)|cellular response to oxidative stress (GO:0034599)|cellular response to thyroid hormone stimulus (GO:0097067)|cellular response to tumor necrosis factor (GO:0071356)|circadian regulation of gene expression (GO:0032922)|digestion (GO:0007586)|fatty acid oxidation (GO:0019395)|flavone metabolic process (GO:0051552)|galactose metabolic process (GO:0006012)|gluconeogenesis (GO:0006094)|mitochondrion organization (GO:0007005)|mRNA processing (GO:0006397)|negative regulation of glycolytic process (GO:0045820)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of neuron death (GO:1901215)|negative regulation of receptor activity (GO:2000272)|positive regulation of ATP biosynthetic process (GO:2001171)|positive regulation of cellular respiration (GO:1901857)|positive regulation of energy homeostasis (GO:2000507)|positive regulation of fatty acid oxidation (GO:0046321)|positive regulation of gluconeogenesis (GO:0045722)|positive regulation of histone acetylation (GO:0035066)|positive regulation of mitochondrial DNA metabolic process (GO:1901860)|positive regulation of mitochondrion organization (GO:0010822)|positive regulation of muscle tissue development (GO:1901863)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of smooth muscle cell proliferation (GO:0048661)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein stabilization (GO:0050821)|regulation of circadian rhythm (GO:0042752)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)|regulation of transcription, DNA-templated (GO:0006355)|respiratory electron transport chain (GO:0022904)|response to cold (GO:0009409)|response to epinephrine (GO:0071871)|response to leucine (GO:0043201)|response to muscle activity (GO:0014850)|response to norepinephrine (GO:0071873)|response to starvation (GO:0042594)|response to statin (GO:0036273)|RNA splicing (GO:0008380)|temperature homeostasis (GO:0001659)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cytosol (GO:0005829)|DNA-directed RNA polymerase II, core complex (GO:0005665)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|chromatin DNA binding (GO:0031490)|DNA binding (GO:0003677)|ligand-dependent nuclear receptor binding (GO:0016922)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|nucleotide binding (GO:0000166)|RNA binding (GO:0003723)|RNA polymerase II transcription cofactor activity (GO:0001104)|sequence-specific DNA binding (GO:0043565)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|ubiquitin protein ligase binding (GO:0031625)			central_nervous_system(1)|endometrium(7)|kidney(3)|large_intestine(7)|liver(1)|lung(24)|ovary(3)|skin(5)	51		Breast(46;0.0503)				AGATATTTGAGAAGCTCCGAG	0.443																																					Esophageal Squamous(29;694 744 13796 34866 44181)											0													373	340	351					4																	23830149		2203	4300	6503	SO:0001583	missense	10891			AF106698	CCDS3429.1	4p15.1	2013-02-12	2006-10-17	2004-02-04	ENSG00000109819	ENSG00000109819		"RNA binding motif (RRM) containing"	9237	protein-coding gene	gene with protein product		604517	"peroxisome proliferative activated receptor, gamma, coactivator 1", "peroxisome proliferative activated receptor, gamma, coactivator 1, alpha"	PPARGC1		10585775	Standard	NM_013261		Approved	PGC1, PGC1A	uc003gqs.3	Q9UBK2	OTTHUMG00000097747	ENST00000264867.2:c.631C>A	4.37:g.23830149G>T	ENSP00000264867:p.Leu211Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z406|G8DM16|I3RTT5|I3RTT6|I3RTT7|I3RTT8|I3RTT9|Q3LIG1|Q4W5M7|Q9UN32	Missense_Mutation	SNP	ENST00000264867.2	37	CCDS3429.1	.	.	.	.	.	.	.	.	.	.	G	16.75	3.209026	0.58343	.	.	ENSG00000109819	ENST00000264867	T	0.27104	1.69	6.17	5.33	0.75918	.	0.000000	0.85682	D	0.000000	T	0.52789	0.1756	M	0.79475	2.455	0.80722	D	1	D	0.69078	0.997	D	0.72625	0.978	T	0.58487	-0.7628	10	0.66056	D	0.02	-1.9376	15.7894	0.78343	0.065:0.0:0.935:0.0	.	211	Q9UBK2	PRGC1_HUMAN	I	211	ENSP00000264867:L211I	ENSP00000264867:L211I	L	-	1	0	PPARGC1A	23439247	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.637000	0.91014	1.626000	0.50381	0.655000	0.94253	CTC		0.443	PPARGC1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214976.1	NM_013261		T	23830149	G	T	23830149	3	4	606	1	0	0	0	0	1	0	0	0	12307	942	33	4	1801	4	PPARGC1A	4	23830149	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	17777794	23830149	167324127	57	36553										
HOPX	84525	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr4	57514941	57514941	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cttctgagcgccgccactttGccaggcgctgcttaaaccat	9	15	1	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr4:57514941G>A	ENST00000337881.7	-	3	823	c.167C>T	c.(166-168)gCa>gTa	p.A56V	HOPX_ENST00000503639.3_Missense_Mutation_p.A56V|HOPX_ENST00000381260.3_3'UTR|HOPX_ENST00000556376.2_Missense_Mutation_p.A56V|HOPX_ENST00000555760.2_Missense_Mutation_p.A56V|HOPX_ENST00000556614.2_Missense_Mutation_p.A56V|HOPX_ENST00000381255.3_Missense_Mutation_p.A56V|HOPX_ENST00000553379.2_Missense_Mutation_p.A56V|HOPX_ENST00000420433.1_Missense_Mutation_p.A74V|HOPX_ENST00000554144.1_3'UTR|HOPX_ENST00000508121.1_Missense_Mutation_p.A74V|HOPX_ENST00000317745.7_Missense_Mutation_p.A56V	NM_139212.3	NP_631958.1	Q9BPY8	HOP_HUMAN	HOP homeobox	56					heart development (GO:0007507)|histone deacetylation (GO:0016575)|lung alveolus development (GO:0048286)|negative regulation of cell differentiation (GO:0045596)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of skeletal muscle tissue regeneration (GO:0043415)|positive regulation of striated muscle cell differentiation (GO:0051155)|regulation of heart contraction (GO:0008016)|regulation of protein binding (GO:0043393)|transcription, DNA-templated (GO:0006351)|trophectodermal cell differentiation (GO:0001829)	nucleus (GO:0005634)	DNA binding (GO:0003677)			large_intestine(2)|lung(5)|skin(1)	8	Glioma(25;0.08)|all_neural(26;0.101)					CCGCCACTTTGCCAGGCGCTG	0.478																																																0													78	77	77					4																	57514941		2203	4300	6503	SO:0001583	missense	84525				CCDS3507.1, CCDS47062.1, CCDS54767.1	4q12	2011-06-20			ENSG00000171476	ENSG00000171476		"Homeoboxes / PRD class"	24961	protein-coding gene	gene with protein product	"homeobox only domain"	607275				12297045	Standard	NM_032495		Approved	LAGY, HOP, OB1, NECC1, SMAP31	uc003hbz.2	Q9BPY8	OTTHUMG00000128768	ENST00000337881.7:c.167C>T	4.37:g.57514941G>A	ENSP00000337330:p.Ala56Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0Z2|E9PB55|G3V294|Q8N0V6|Q96CI1	Missense_Mutation	SNP	ENST00000337881.7	37	CCDS3507.1	.	.	.	.	.	.	.	.	.	.	G	21.1	4.103343	0.76983	.	.	ENSG00000171476	ENST00000420433;ENST00000508121;ENST00000556376;ENST00000553379;ENST00000381255;ENST00000317745;ENST00000503639;ENST00000337881;ENST00000555760;ENST00000556614;ENST00000514890;ENST00000506661	D;D;D;D;D;D;D;D;D;D	0.97161	-4.27;-4.27;-4.27;-4.27;-4.27;-4.27;-4.27;-4.27;-4.27;-4.27	5.93	5.93	0.95920	Homeodomain-related (1);Homeobox (3);Homeodomain-like (1);	.	.	.	.	D	0.98298	0.9436	.	.	.	0.80722	D	1	D;D	0.76494	0.999;0.995	D;D	0.69824	0.966;0.927	D	0.98808	1.0742	8	0.87932	D	0	.	15.8335	0.78778	0.0:0.0:1.0:0.0	.	74;56	E9PB55;Q9BPY8	.;HOP_HUMAN	V	74;74;56;56;56;56;56;56;56;56;56;56	ENSP00000396275:A74V;ENSP00000422175:A74V;ENSP00000451794:A56V;ENSP00000452340:A56V;ENSP00000370654:A56V;ENSP00000315198:A56V;ENSP00000424101:A56V;ENSP00000337330:A56V;ENSP00000452098:A56V;ENSP00000452003:A56V	ENSP00000315198:A56V	A	-	2	0	HOPX	57209698	1.000000	0.71417	0.996000	0.52242	0.528000	0.34623	5.302000	0.65733	2.818000	0.97014	0.591000	0.81541	GCA		0.478	HOPX-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250689.4			A	57514941	G	A	57514941	3	1	606	1	0	0	0	0	1	0	0	0	7292	1319	46	2	58	2	HOPX	4	57514941	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	33684792	57514941	133639335	58	36554										
PLK4	10733	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	128813651	128813651	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	attctcctggtgctgattttGaggtttggttttatgatggt	12	4	1	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr4:128813651G>C	ENST00000270861.5	+	10	2444	c.2170G>C	c.(2170-2172)Gag>Cag	p.E724Q	PLK4_ENST00000507249.1_Missense_Mutation_p.E663Q|PLK4_ENST00000515069.1_Missense_Mutation_p.E646Q|RNU6-583P_ENST00000516012.1_RNA|PLK4_ENST00000514379.1_Missense_Mutation_p.E683Q|PLK4_ENST00000513090.1_Missense_Mutation_p.E692Q	NM_014264.4	NP_055079.3	O00444	PLK4_HUMAN	polo-like kinase 4	724					centriole replication (GO:0007099)|de novo centriole assembly (GO:0098535)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|positive regulation of centriole replication (GO:0046601)|protein phosphorylation (GO:0006468)|trophoblast giant cell differentiation (GO:0060707)	centriole (GO:0005814)|centrosome (GO:0005813)|cytosol (GO:0005829)|deuterosome (GO:0098536)|nucleolus (GO:0005730)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(10)|lung(12)|prostate(1)|upper_aerodigestive_tract(1)	31						TGCTGATTTTGAGGTTTGGTT	0.318																																					Colon(135;508 1718 19061 31832 42879)											0													145	132	137					4																	128813651		2202	4300	6502	SO:0001583	missense	10733			Y13115	CCDS3735.1, CCDS54803.1, CCDS54804.1	4q27-q28	2013-01-18	2010-06-24	2004-01-28	ENSG00000142731	ENSG00000142731			11397	protein-coding gene	gene with protein product		605031	"serine/threonine kinase 18", "polo-like kinase 4 (Drosophila)"	STK18			Standard	NM_014264		Approved	Sak	uc003ifo.3	O00444	OTTHUMG00000133301	ENST00000270861.5:c.2170G>C	4.37:g.128813651G>C	ENSP00000270861:p.Glu724Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAL0|B7Z837|B7Z8G7|Q8IYF0|Q96Q95|Q9UD84|Q9UDE2	Missense_Mutation	SNP	ENST00000270861.5	37	CCDS3735.1	.	.	.	.	.	.	.	.	.	.	G	24.7	4.561758	0.86335	.	.	ENSG00000142731	ENST00000270861;ENST00000515069;ENST00000513090;ENST00000507249;ENST00000514379	T;T;T;T;T	0.37058	1.22;1.22;1.22;1.22;1.22	5.42	5.42	0.78866	.	0.000000	0.85682	D	0.000000	T	0.66723	0.2818	M	0.86178	2.8	0.58432	D	0.999999	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.998	T	0.72239	-0.4351	10	0.87932	D	0	-7.7549	19.2043	0.93723	0.0:0.0:1.0:0.0	.	692;724	O00444-2;O00444	.;PLK4_HUMAN	Q	724;646;692;663;683	ENSP00000270861:E724Q;ENSP00000421774:E646Q;ENSP00000427554:E692Q;ENSP00000423412:E663Q;ENSP00000423582:E683Q	ENSP00000270861:E724Q	E	+	1	0	PLK4	129033101	1.000000	0.71417	1.000000	0.80357	0.952000	0.60782	9.502000	0.97981	2.536000	0.85505	0.313000	0.20887	GAG		0.318	PLK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257095.3			C	128813651	G	C	128813651	3	2	606	1	0	0	0	0	1	0	0	0	12105	1291	45	4	2208	4	PLK4	4	128813651	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	71298710	128813651	62340625	59	36555										
MAP3K1	4214	ucsc.edu	37	chr5	56155606	56155606	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tcacttagcagctgagtctcCaggagaggtccaggcaagtg	13	10	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr5:56155606C>T	ENST00000399503.3	+	3	698	c.698C>T	c.(697-699)cCa>cTa	p.P233L	AC008937.2_ENST00000415589.1_RNA|snoU13_ENST00000459264.1_RNA	NM_005921.1	NP_005912.1	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase 1, E3 ubiquitin protein ligase	233					activation of MAPKK activity (GO:0000186)|apoptotic mitochondrial changes (GO:0008637)|cellular response to mechanical stimulus (GO:0071260)|epithelial cell morphogenesis (GO:0003382)|eyelid development in camera-type eye (GO:0061029)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|positive regulation of actin filament polymerization (GO:0030838)|protein phosphorylation (GO:0006468)|regulation of cell migration (GO:0030334)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transforming growth factor beta receptor signaling pathway (GO:0007179)|wound healing (GO:0042060)	cytosol (GO:0005829)	ATP binding (GO:0005524)|JUN kinase kinase activity (GO:0008545)|MAP kinase kinase kinase activity (GO:0004709)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|zinc ion binding (GO:0008270)			NS(1)|breast(19)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(8)|lung(11)|ovary(1)|skin(3)|urinary_tract(1)	57		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		GCTGAGTCTCCAGGAGAGGTC	0.463																																																0													43	43	43					5																	56155606		1915	4137	6052	SO:0001583	missense	4214			U29671, AF042838	CCDS43318.1	5q11.2	2012-02-23	2012-02-23		ENSG00000095015	ENSG00000095015		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6848	protein-coding gene	gene with protein product		600982	"mitogen-activated protein kinase kinase kinase 1"	MEKK1		8597633	Standard	NM_005921		Approved	MEKK, MAPKKK1	uc003jqw.4	Q13233	OTTHUMG00000059486	ENST00000399503.3:c.698C>T	5.37:g.56155606C>T	ENSP00000382423:p.Pro233Leu	Somatic		WXS	Illumina HiSeq			Missense_Mutation	SNP	ENST00000399503.3	37	CCDS43318.1	.	.	.	.	.	.	.	.	.	.	C	8.286	0.816620	0.16607	.	.	ENSG00000095015	ENST00000399503	T	0.66099	-0.19	5.72	-1.09	0.09904	.	0.679571	0.15209	N	0.274585	T	0.38374	0.1038	N	0.08118	0	0.18873	N	0.999986	B	0.02656	0.0	B	0.01281	0.0	T	0.18209	-1.0344	10	0.35671	T	0.21	.	12.3505	0.55144	0.2871:0.6121:0.0:0.1008	.	233	Q13233	M3K1_HUMAN	L	233	ENSP00000382423:P233L	ENSP00000382423:P233L	P	+	2	0	MAP3K1	56191363	0.348000	0.24861	0.010000	0.14722	0.155000	0.21991	0.666000	0.25097	-0.319000	0.08652	-0.150000	0.13652	CCA		0.463	MAP3K1-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000132309.2	XM_042066		T	56155606	C	T	56155606	3	4	606	1	0	0	0	0	1	0	0	0	9250	594	21	2	708	2	MAP3K1	5	56155606	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08		56155606	124759654	60	36556										
MAP1B	4131	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	71495628	71495628	+	Nonsense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgatgaaacccctcccacctCagtcagcgagtcagccccat	7	17	3	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr5:71495628C>G	ENST00000296755.7	+	5	6744	c.6446C>G	c.(6445-6447)tCa>tGa	p.S2149*		NM_005909.3	NP_005900.2	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	2149					axon extension (GO:0048675)|cellular process (GO:0009987)|dendrite development (GO:0016358)|establishment of monopolar cell polarity (GO:0061162)|microtubule bundle formation (GO:0001578)|mitochondrion transport along microtubule (GO:0047497)|negative regulation of intracellular transport (GO:0032387)|positive regulation of axon extension (GO:0045773)	cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|plasma membrane (GO:0005886)|synapse (GO:0045202)	structural molecule activity (GO:0005198)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(42)|liver(1)|lung(28)|ovary(1)|pancreas(1)|prostate(3)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(3)	104		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)		CCTCCCACCTCAGTCAGCGAG	0.587																																					Melanoma(17;367 822 11631 31730 47712)											0													90	81	84					5																	71495628		2203	4300	6503	SO:0001587	stop_gained	4131			L06237	CCDS4012.1	5q13	2014-06-12			ENSG00000131711	ENSG00000131711			6836	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 102"	157129				1881920	Standard	NM_005909		Approved	MAP5, PPP1R102	uc003kbw.4	P46821	OTTHUMG00000100952	ENST00000296755.7:c.6446C>G	5.37:g.71495628C>G	ENSP00000296755:p.Ser2149*	Somatic		WXS	Illumina HiSeq	Phase_I	A2BDK5	Nonsense_Mutation	SNP	ENST00000296755.7	37	CCDS4012.1	.	.	.	.	.	.	.	.	.	.	C	48	14.809369	0.99811	.	.	ENSG00000131711	ENST00000296755	.	.	.	5.82	5.82	0.92795	.	0.000000	0.52532	D	0.000072	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	-12.7908	20.0953	0.97838	0.0:1.0:0.0:0.0	.	.	.	.	X	2149	.	ENSP00000296755:S2149X	S	+	2	0	MAP1B	71531384	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.818000	0.86416	2.767000	0.95098	0.655000	0.94253	TCA		0.587	MAP1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000218561.6	NM_005909		G	71495628	C	G	71495628	4	3	606	1	0	0	0	0	0	1	0	0	9235	838	29	4	6464	4	MAP1B	5	71495628	Nonsense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	15340022	71495628	109419632	61	36557										
CMYA5	202333	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	79027353	79027353	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ggaagaaattgtccatagatCtctaaatctaaaaggtgcat	8	6	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr5:79027353C>T	ENST00000446378.2	+	2	2796	c.2765C>T	c.(2764-2766)tCt>tTt	p.S922F		NM_153610.3	NP_705838.3	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	922					negative regulation of calcineurin-NFAT signaling cascade (GO:0070885)|negative regulation of protein phosphatase type 2B activity (GO:0032513)|regulation of skeletal muscle adaptation (GO:0014733)	costamere (GO:0043034)				NS(2)|breast(4)|central_nervous_system(1)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(37)|lung(34)|ovary(6)|pancreas(2)|prostate(5)|skin(5)|stomach(11)|upper_aerodigestive_tract(3)|urinary_tract(1)	128		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)		GTCCATAGATCTCTAAATCTA	0.413																																																0													103	100	101					5																	79027353		1924	4135	6059	SO:0001583	missense	202333			AW755254, AL831986	CCDS47238.1	5q14.1	2013-02-11			ENSG00000164309	ENSG00000164309		"Tripartite motif containing / Tripartite motif containing", "A-kinase anchor proteins", "Fibronectin type III domain containing"	14305	protein-coding gene	gene with protein product	"genethonin-3", "tripartite motif-containing 76"	612193	"chromosome 5 open reading frame 10"	C5orf10		14688250	Standard	NM_153610		Approved	myospryn, SPRYD2, DKFZp451G223, TRIM76	uc003kgc.3	Q8N3K9	OTTHUMG00000162548	ENST00000446378.2:c.2765C>T	5.37:g.79027353C>T	ENSP00000394770:p.Ser922Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJB7|Q05CT4|Q2NKX1|Q2T9G9|Q69YQ8|Q69YQ9|Q6P517|Q6P5U3|Q7Z4I1|Q86T34|Q86T49|Q8N3S4|Q8N3S7|Q8NAG8|Q9UK88	Missense_Mutation	SNP	ENST00000446378.2	37	CCDS47238.1	.	.	.	.	.	.	.	.	.	.	C	7.587	0.669858	0.14776	.	.	ENSG00000164309	ENST00000446378	T	0.59502	0.26	5.54	2.7	0.31948	.	1.759930	0.02782	N	0.121104	T	0.67239	0.2872	M	0.78456	2.415	0.09310	N	1	D	0.56035	0.974	P	0.49752	0.621	T	0.40813	-0.9543	10	0.72032	D	0.01	.	4.9024	0.13781	0.178:0.5938:0.0:0.2282	.	922	Q8N3K9	CMYA5_HUMAN	F	922	ENSP00000394770:S922F	ENSP00000394770:S922F	S	+	2	0	CMYA5	79063109	0.035000	0.19736	0.003000	0.11579	0.048000	0.14542	0.437000	0.21543	0.358000	0.24211	-0.302000	0.09304	TCT		0.413	CMYA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369497.1	NM_153610		T	79027353	C	T	79027353	3	4	606	1	0	0	0	0	1	0	0	0	3592	913	32	2	2771	2	CMYA5	5	79027353	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	7531725	79027353	101887907	62	36558			1	71		5	5	5227	N	G_C	8.857889e-08
CMYA5	202333	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	79030983	79030983	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	agtaaaaatacccacacaaaGaaaacccatctcctcaatcc	2	14	2	1	rs79193094	byFrequency	TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr5:79030983G>C	ENST00000446378.2	+	2	6426	c.6395G>C	c.(6394-6396)aGa>aCa	p.R2132T		NM_153610.3	NP_705838.3	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2132					negative regulation of calcineurin-NFAT signaling cascade (GO:0070885)|negative regulation of protein phosphatase type 2B activity (GO:0032513)|regulation of skeletal muscle adaptation (GO:0014733)	costamere (GO:0043034)				NS(2)|breast(4)|central_nervous_system(1)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(37)|lung(34)|ovary(6)|pancreas(2)|prostate(5)|skin(5)|stomach(11)|upper_aerodigestive_tract(3)|urinary_tract(1)	128		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)		CCCACACAAAGAAAACCCATC	0.448																																																0													84	81	82					5																	79030983		1882	4113	5995	SO:0001583	missense	202333			AW755254, AL831986	CCDS47238.1	5q14.1	2013-02-11			ENSG00000164309	ENSG00000164309		"Tripartite motif containing / Tripartite motif containing", "A-kinase anchor proteins", "Fibronectin type III domain containing"	14305	protein-coding gene	gene with protein product	"genethonin-3", "tripartite motif-containing 76"	612193	"chromosome 5 open reading frame 10"	C5orf10		14688250	Standard	NM_153610		Approved	myospryn, SPRYD2, DKFZp451G223, TRIM76	uc003kgc.3	Q8N3K9	OTTHUMG00000162548	ENST00000446378.2:c.6395G>C	5.37:g.79030983G>C	ENSP00000394770:p.Arg2132Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJB7|Q05CT4|Q2NKX1|Q2T9G9|Q69YQ8|Q69YQ9|Q6P517|Q6P5U3|Q7Z4I1|Q86T34|Q86T49|Q8N3S4|Q8N3S7|Q8NAG8|Q9UK88	Missense_Mutation	SNP	ENST00000446378.2	37	CCDS47238.1	.	.	.	.	.	.	.	.	.	.	G	6.577	0.474842	0.12521	.	.	ENSG00000164309	ENST00000446378	T	0.04015	3.73	5.96	1.21	0.21127	.	1.390360	0.04325	N	0.351334	T	0.02047	0.0064	N	0.03608	-0.345	0.09310	N	1	B	0.14805	0.011	B	0.11329	0.006	T	0.44877	-0.9299	10	0.13108	T	0.6	.	0.325	0.00309	0.2677:0.1408:0.3029:0.2886	.	2132	Q8N3K9	CMYA5_HUMAN	T	2132	ENSP00000394770:R2132T	ENSP00000394770:R2132T	R	+	2	0	CMYA5	79066739	0.001000	0.12720	0.000000	0.03702	0.005000	0.04900	0.548000	0.23314	0.297000	0.22615	0.650000	0.86243	AGA		0.448	CMYA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369497.1	NM_153610		C	79030983	G	C	79030983	3	2	606	1	0	0	0	0	1	0	0	0	3592	942	33	4	6401	4	CMYA5	5	79030983	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	3630	79030983	101884277	63	36559			1	71		5	5	5227	N	G_C	8.857889e-08
CMYA5	202333	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	79031337	79031337	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	taaaactgctgatgaacccaGaggtactttagtaaaatctg	8	7	1	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr5:79031337G>A	ENST00000446378.2	+	2	6780	c.6749G>A	c.(6748-6750)aGa>aAa	p.R2250K		NM_153610.3	NP_705838.3	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2250					negative regulation of calcineurin-NFAT signaling cascade (GO:0070885)|negative regulation of protein phosphatase type 2B activity (GO:0032513)|regulation of skeletal muscle adaptation (GO:0014733)	costamere (GO:0043034)				NS(2)|breast(4)|central_nervous_system(1)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(37)|lung(34)|ovary(6)|pancreas(2)|prostate(5)|skin(5)|stomach(11)|upper_aerodigestive_tract(3)|urinary_tract(1)	128		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)		GATGAACCCAGAGGTACTTTA	0.343																																																0													84	86	85					5																	79031337		1802	4075	5877	SO:0001583	missense	202333			AW755254, AL831986	CCDS47238.1	5q14.1	2013-02-11			ENSG00000164309	ENSG00000164309		"Tripartite motif containing / Tripartite motif containing", "A-kinase anchor proteins", "Fibronectin type III domain containing"	14305	protein-coding gene	gene with protein product	"genethonin-3", "tripartite motif-containing 76"	612193	"chromosome 5 open reading frame 10"	C5orf10		14688250	Standard	NM_153610		Approved	myospryn, SPRYD2, DKFZp451G223, TRIM76	uc003kgc.3	Q8N3K9	OTTHUMG00000162548	ENST00000446378.2:c.6749G>A	5.37:g.79031337G>A	ENSP00000394770:p.Arg2250Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJB7|Q05CT4|Q2NKX1|Q2T9G9|Q69YQ8|Q69YQ9|Q6P517|Q6P5U3|Q7Z4I1|Q86T34|Q86T49|Q8N3S4|Q8N3S7|Q8NAG8|Q9UK88	Missense_Mutation	SNP	ENST00000446378.2	37	CCDS47238.1	.	.	.	.	.	.	.	.	.	.	G	4.593	0.110236	0.08780	.	.	ENSG00000164309	ENST00000446378	T	0.15718	2.4	5.74	-0.131	0.13494	.	1.286200	0.05079	N	0.483194	T	0.15046	0.0363	L	0.48362	1.52	0.09310	N	1	B	0.14805	0.011	B	0.10450	0.005	T	0.33599	-0.9862	10	0.33940	T	0.23	.	4.6556	0.12615	0.2976:0.3196:0.3827:0.0	.	2250	Q8N3K9	CMYA5_HUMAN	K	2250	ENSP00000394770:R2250K	ENSP00000394770:R2250K	R	+	2	0	CMYA5	79067093	0.000000	0.05858	0.001000	0.08648	0.014000	0.08584	-0.363000	0.07593	0.328000	0.23435	0.650000	0.86243	AGA		0.343	CMYA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369497.1	NM_153610		A	79031337	G	A	79031337	3	1	606	1	0	0	0	0	1	0	0	0	3592	942	33	2	6755	2	CMYA5	5	79031337	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	354	79031337	101883923	64	36560			1	71		5	5	5227	N	G_C	8.857889e-08
CMYA5	202333	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	79031882	79031882	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gtgaagacagactcaagaaaGaaatgcaaaatcctacttcc	7	9	1	5			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr5:79031882G>C	ENST00000446378.2	+	2	7325	c.7294G>C	c.(7294-7296)Gaa>Caa	p.E2432Q		NM_153610.3	NP_705838.3	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2432					negative regulation of calcineurin-NFAT signaling cascade (GO:0070885)|negative regulation of protein phosphatase type 2B activity (GO:0032513)|regulation of skeletal muscle adaptation (GO:0014733)	costamere (GO:0043034)				NS(2)|breast(4)|central_nervous_system(1)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(37)|lung(34)|ovary(6)|pancreas(2)|prostate(5)|skin(5)|stomach(11)|upper_aerodigestive_tract(3)|urinary_tract(1)	128		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)		ACTCAAGAAAGAAATGCAAAA	0.333																																																0													38	38	38					5																	79031882		1818	4082	5900	SO:0001583	missense	202333			AW755254, AL831986	CCDS47238.1	5q14.1	2013-02-11			ENSG00000164309	ENSG00000164309		"Tripartite motif containing / Tripartite motif containing", "A-kinase anchor proteins", "Fibronectin type III domain containing"	14305	protein-coding gene	gene with protein product	"genethonin-3", "tripartite motif-containing 76"	612193	"chromosome 5 open reading frame 10"	C5orf10		14688250	Standard	NM_153610		Approved	myospryn, SPRYD2, DKFZp451G223, TRIM76	uc003kgc.3	Q8N3K9	OTTHUMG00000162548	ENST00000446378.2:c.7294G>C	5.37:g.79031882G>C	ENSP00000394770:p.Glu2432Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJB7|Q05CT4|Q2NKX1|Q2T9G9|Q69YQ8|Q69YQ9|Q6P517|Q6P5U3|Q7Z4I1|Q86T34|Q86T49|Q8N3S4|Q8N3S7|Q8NAG8|Q9UK88	Missense_Mutation	SNP	ENST00000446378.2	37	CCDS47238.1	.	.	.	.	.	.	.	.	.	.	G	17.82	3.484254	0.63962	.	.	ENSG00000164309	ENST00000446378	T	0.24723	1.84	5.87	4.09	0.47781	.	0.121012	0.37483	N	0.002068	T	0.37100	0.0991	M	0.71581	2.175	0.28279	N	0.924047	D	0.59767	0.986	P	0.53954	0.738	T	0.32877	-0.9890	10	0.66056	D	0.02	.	6.9428	0.24502	0.2444:0.0:0.7556:0.0	.	2432	Q8N3K9	CMYA5_HUMAN	Q	2432	ENSP00000394770:E2432Q	ENSP00000394770:E2432Q	E	+	1	0	CMYA5	79067638	0.992000	0.36948	0.963000	0.40424	0.963000	0.63663	1.287000	0.33284	1.493000	0.48517	0.655000	0.94253	GAA		0.333	CMYA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369497.1	NM_153610		C	79031882	G	C	79031882	3	2	606	1	0	0	0	0	1	0	0	0	3592	943	33	4	7300	4	CMYA5	5	79031882	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	545	79031882	101883378	65	36561			1	71		5	5	5227	N	G_C	8.857889e-08
CMYA5	202333	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	79032579	79032579	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	agtattagaaaagtcaagcaGagatatgccagatcacagtg	10	6	2	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr5:79032579G>A	ENST00000446378.2	+	2	8022	c.7991G>A	c.(7990-7992)aGa>aAa	p.R2664K		NM_153610.3	NP_705838.3	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2664					negative regulation of calcineurin-NFAT signaling cascade (GO:0070885)|negative regulation of protein phosphatase type 2B activity (GO:0032513)|regulation of skeletal muscle adaptation (GO:0014733)	costamere (GO:0043034)				NS(2)|breast(4)|central_nervous_system(1)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(37)|lung(34)|ovary(6)|pancreas(2)|prostate(5)|skin(5)|stomach(11)|upper_aerodigestive_tract(3)|urinary_tract(1)	128		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)		AAGTCAAGCAGAGATATGCCA	0.403																																																0													49	49	49					5																	79032579		1848	4092	5940	SO:0001583	missense	202333			AW755254, AL831986	CCDS47238.1	5q14.1	2013-02-11			ENSG00000164309	ENSG00000164309		"Tripartite motif containing / Tripartite motif containing", "A-kinase anchor proteins", "Fibronectin type III domain containing"	14305	protein-coding gene	gene with protein product	"genethonin-3", "tripartite motif-containing 76"	612193	"chromosome 5 open reading frame 10"	C5orf10		14688250	Standard	NM_153610		Approved	myospryn, SPRYD2, DKFZp451G223, TRIM76	uc003kgc.3	Q8N3K9	OTTHUMG00000162548	ENST00000446378.2:c.7991G>A	5.37:g.79032579G>A	ENSP00000394770:p.Arg2664Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJB7|Q05CT4|Q2NKX1|Q2T9G9|Q69YQ8|Q69YQ9|Q6P517|Q6P5U3|Q7Z4I1|Q86T34|Q86T49|Q8N3S4|Q8N3S7|Q8NAG8|Q9UK88	Missense_Mutation	SNP	ENST00000446378.2	37	CCDS47238.1	.	.	.	.	.	.	.	.	.	.	G	10.79	1.448897	0.26074	.	.	ENSG00000164309	ENST00000446378	T	0.36340	1.26	3.85	2.95	0.34219	.	.	.	.	.	T	0.25419	0.0618	L	0.34521	1.04	0.09310	N	1	B	0.26483	0.15	B	0.23419	0.046	T	0.17349	-1.0372	9	0.39692	T	0.17	.	6.834	0.23925	0.1396:0.0:0.8604:0.0	.	2664	Q8N3K9	CMYA5_HUMAN	K	2664	ENSP00000394770:R2664K	ENSP00000394770:R2664K	R	+	2	0	CMYA5	79068335	0.000000	0.05858	0.016000	0.15963	0.089000	0.18198	0.577000	0.23758	0.699000	0.31761	0.393000	0.25936	AGA		0.403	CMYA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369497.1	NM_153610		A	79032579	G	A	79032579	3	1	606	1	0	0	0	0	1	0	0	0	3592	942	33	2	7997	2	CMYA5	5	79032579	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	697	79032579	101882681	66	36562			1	71		5	5	5227	N	G_C	8.857889e-08
MTX3	345778	hgsc.bcm.edu	37	chr5	79284404	79284404	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	actcaaaggaaaaggaatttGtgaagcaaaccatggctttg	10	6	1	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr5:79284404G>C	ENST00000512528.1	-	5	405	c.385C>G	c.(385-387)Caa>Gaa	p.Q129E	MTX3_ENST00000509852.1_Missense_Mutation_p.Q129E|MTX3_ENST00000512560.1_Missense_Mutation_p.Q68E			Q5HYI7	MTX3_HUMAN	metaxin 3	129					protein targeting to mitochondrion (GO:0006626)	mitochondrial outer membrane (GO:0005741)				endometrium(1)|large_intestine(3)|lung(2)|urinary_tract(1)	7		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.63e-45)|Epithelial(54;2.9e-40)|all cancers(79;4.68e-35)		AAAGGAATTTGTGAAGCAAAC	0.438																																																0													52	48	49					5																	79284404		1886	4117	6003	SO:0001583	missense	345778			BX538064	CCDS47239.1, CCDS47239.2, CCDS54872.1	5q14.1	2004-08-18				ENSG00000177034			24812	protein-coding gene	gene with protein product						15087125	Standard	NM_001010891		Approved		uc010jah.3	Q5HYI7		ENST00000512528.1:c.385C>G	5.37:g.79284404G>C	ENSP00000424798:p.Gln129Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DL65|E9PB57|Q7Z380|Q8NB92	Missense_Mutation	SNP	ENST00000512528.1	37		.	.	.	.	.	.	.	.	.	.	G	12.57	1.978410	0.34942	.	.	ENSG00000177034	ENST00000512560;ENST00000328496;ENST00000509852;ENST00000512528;ENST00000418095	T;T;T	0.40476	1.05;1.03;1.03	5.58	5.58	0.84498	.	0.238382	0.42548	D	0.000688	T	0.26376	0.0644	N	0.19112	0.55	0.23386	N	0.997788	B;B	0.13594	0.004;0.008	B;B	0.23275	0.009;0.045	T	0.14699	-1.0463	10	0.02654	T	1	-2.1197	14.3221	0.66493	0.0:0.0:0.8155:0.1845	.	129;129	Q5HYI7-4;Q5HYI7	.;MTX3_HUMAN	E	68;129;129;129;129	ENSP00000423600:Q68E;ENSP00000423302:Q129E;ENSP00000424798:Q129E	ENSP00000331672:Q129E	Q	-	1	0	MTX3	79320160	1.000000	0.71417	0.994000	0.49952	0.988000	0.76386	4.897000	0.63231	2.627000	0.88993	0.655000	0.94253	CAA		0.438	MTX3-005	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000372567.1	XM_293971		C	79284404	G	C	79284404	3	2	606	1	0	0	0	0	1	0	0	0	9976	1386	48	4	573	4	MTX3	5	79284404	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	251825	79284404	101630856	67	36563										
VCAN	1462	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	82786054	82786054	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gcatcaaatggtctaagattGaagtggacaaaaatggaaaa	10	4	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr5:82786054G>T	ENST00000265077.3	+	3	773	c.208G>T	c.(208-210)Gaa>Taa	p.E70*	VCAN_ENST00000343200.5_Nonsense_Mutation_p.E70*|VCAN_ENST00000513984.1_Nonsense_Mutation_p.E70*|VCAN_ENST00000502527.2_Nonsense_Mutation_p.E70*|VCAN_ENST00000342785.4_Nonsense_Mutation_p.E70*|VCAN_ENST00000512590.2_Nonsense_Mutation_p.E22*	NM_004385.4	NP_004376.2	P13611	CSPG2_HUMAN	versican	70	Ig-like V-type.				carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|cell recognition (GO:0008037)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|extracellular matrix organization (GO:0030198)|glial cell migration (GO:0008347)|glycosaminoglycan metabolic process (GO:0030203)|heart development (GO:0007507)|multicellular organismal development (GO:0007275)|osteoblast differentiation (GO:0001649)|small molecule metabolic process (GO:0044281)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi lumen (GO:0005796)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|carbohydrate binding (GO:0030246)|glycosaminoglycan binding (GO:0005539)|hyaluronic acid binding (GO:0005540)			NS(2)|biliary_tract(1)|breast(3)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(52)|lung(64)|ovary(8)|pancreas(3)|prostate(13)|skin(14)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(5)	190		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)	Hyaluronan(DB08818)	GTCTAAGATTGAAGTGGACAA	0.418																																																0													104	102	103					5																	82786054		2203	4300	6503	SO:0001587	stop_gained	1462			X15998	CCDS4060.1, CCDS47242.1, CCDS54875.1, CCDS54876.1	5q14.2-q14.3	2013-05-07	2007-02-15	2007-02-15	ENSG00000038427	ENSG00000038427		"Immunoglobulin superfamily / V-set domain containing", "Proteoglycans / Extracellular Matrix : Hyalectans"	2464	protein-coding gene	gene with protein product	"versican proteoglycan"	118661	"chondroitin sulfate proteoglycan 2"	CSPG2		1478664, 21063030	Standard	NM_004385		Approved	PG-M	uc003kii.3	P13611	OTTHUMG00000131321	ENST00000265077.3:c.208G>T	5.37:g.82786054G>T	ENSP00000265077:p.Glu70*	Somatic		WXS	Illumina HiSeq	Phase_I	P20754|Q13010|Q13189|Q15123|Q9UCL9|Q9UNW5	Nonsense_Mutation	SNP	ENST00000265077.3	37	CCDS4060.1	.	.	.	.	.	.	.	.	.	.	G	40	8.125073	0.98665	.	.	ENSG00000038427	ENST00000265077;ENST00000343200;ENST00000342785;ENST00000512590;ENST00000513960;ENST00000513984;ENST00000502527	.	.	.	5.78	5.78	0.91487	.	0.000000	0.64402	D	0.000005	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.44086	T	0.13	.	19.9898	0.97362	0.0:0.0:1.0:0.0	.	.	.	.	X	70;70;70;22;70;70;70	.	ENSP00000265077:E70X	E	+	1	0	VCAN	82821810	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	5.034000	0.64152	2.733000	0.93635	0.655000	0.94253	GAA		0.418	VCAN-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000254092.3	NM_004385		T	82786054	G	T	82786054	4	4	606	1	0	0	0	0	0	1	0	0	17150	1291	45	4	214	4	VCAN	5	82786054	Nonsense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	3501650	82786054	98129206	68	36564										
VCAN	1462	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	82817031	82817031	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gcctactacttatgtagactCttcccataccattcctcttt	3	14	2	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr5:82817031C>G	ENST00000265077.3	+	7	3471	c.2906C>G	c.(2905-2907)tCt>tGt	p.S969C	VCAN_ENST00000343200.5_Intron|VCAN_ENST00000502527.2_Intron|VCAN_ENST00000342785.4_Missense_Mutation_p.S969C|VCAN_ENST00000512590.2_Missense_Mutation_p.S921C	NM_004385.4	NP_004376.2	P13611	CSPG2_HUMAN	versican	969	GAG-alpha (glucosaminoglycan attachment domain).				carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|cell recognition (GO:0008037)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|extracellular matrix organization (GO:0030198)|glial cell migration (GO:0008347)|glycosaminoglycan metabolic process (GO:0030203)|heart development (GO:0007507)|multicellular organismal development (GO:0007275)|osteoblast differentiation (GO:0001649)|small molecule metabolic process (GO:0044281)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi lumen (GO:0005796)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|carbohydrate binding (GO:0030246)|glycosaminoglycan binding (GO:0005539)|hyaluronic acid binding (GO:0005540)			NS(2)|biliary_tract(1)|breast(3)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(52)|lung(64)|ovary(8)|pancreas(3)|prostate(13)|skin(14)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(5)	190		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)	Hyaluronan(DB08818)	TATGTAGACTCTTCCCATACC	0.433																																																0													113	112	112					5																	82817031		2203	4300	6503	SO:0001583	missense	1462			X15998	CCDS4060.1, CCDS47242.1, CCDS54875.1, CCDS54876.1	5q14.2-q14.3	2013-05-07	2007-02-15	2007-02-15	ENSG00000038427	ENSG00000038427		"Immunoglobulin superfamily / V-set domain containing", "Proteoglycans / Extracellular Matrix : Hyalectans"	2464	protein-coding gene	gene with protein product	"versican proteoglycan"	118661	"chondroitin sulfate proteoglycan 2"	CSPG2		1478664, 21063030	Standard	NM_004385		Approved	PG-M	uc003kii.3	P13611	OTTHUMG00000131321	ENST00000265077.3:c.2906C>G	5.37:g.82817031C>G	ENSP00000265077:p.Ser969Cys	Somatic		WXS	Illumina HiSeq	Phase_I	P20754|Q13010|Q13189|Q15123|Q9UCL9|Q9UNW5	Missense_Mutation	SNP	ENST00000265077.3	37	CCDS4060.1	.	.	.	.	.	.	.	.	.	.	C	10.39	1.337475	0.24253	.	.	ENSG00000038427	ENST00000265077;ENST00000342785;ENST00000512590	T;T;T	0.20332	2.08;2.08;2.08	5.26	-0.324	0.12706	.	1.069220	0.07230	N	0.862281	T	0.21718	0.0523	L	0.44542	1.39	0.09310	N	1	P;P	0.51653	0.904;0.947	P;P	0.47981	0.563;0.453	T	0.19257	-1.0311	10	0.62326	D	0.03	.	4.5464	0.12083	0.0:0.4105:0.2996:0.29	.	969;969	P13611-3;P13611	.;CSPG2_HUMAN	C	969;969;921	ENSP00000265077:S969C;ENSP00000342768:S969C;ENSP00000425959:S921C	ENSP00000265077:S969C	S	+	2	0	VCAN	82852787	0.000000	0.05858	0.022000	0.16811	0.689000	0.40095	-0.838000	0.04372	-0.249000	0.09569	0.591000	0.81541	TCT		0.433	VCAN-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000254092.3	NM_004385		G	82817031	C	G	82817031	3	3	606	1	0	0	0	0	1	0	0	0	17150	913	32	4	2928	4	VCAN	5	82817031	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	30977	82817031	98098229	69	36565										
APBB3	10307	hgsc.bcm.edu	37	chr5	139940335	139940335	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	atggcctcgttcagcacatcCatgcctgggggaacataccc	10	14	1	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr5:139940335C>G	ENST00000357560.4	-	11	1364	c.921G>C	c.(919-921)atG>atC	p.M307I	APBB3_ENST00000507279.1_5'Flank|APBB3_ENST00000354402.5_Missense_Mutation_p.M314I|SRA1_ENST00000336283.6_5'Flank|APBB3_ENST00000356738.2_Missense_Mutation_p.M312I|APBB3_ENST00000508496.2_Missense_Mutation_p.M84I|APBB3_ENST00000511201.2_Intron|APBB3_ENST00000412920.3_Missense_Mutation_p.M305I|APBB3_ENST00000358580.5_Intron	NM_006051.3|NM_133173.2	NP_006042.3|NP_573419.2	O95704	APBB3_HUMAN	amyloid beta (A4) precursor protein-binding, family B, member 3	307	PID 2. {ECO:0000255|PROSITE- ProRule:PRU00148}.					actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|nucleus (GO:0005634)				endometrium(1)|kidney(1)|large_intestine(3)|lung(3)|ovary(2)|prostate(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCAGCACATCCATGCCTGGGG	0.572																																																0													43	44	44					5																	139940335		2203	4300	6503	SO:0001583	missense	10307			AB018247	CCDS4227.1, CCDS4228.1, CCDS4229.1, CCDS47279.1	5q31	2008-02-05			ENSG00000113108	ENSG00000113108			20708	protein-coding gene	gene with protein product		602711				9407065	Standard	NM_133172		Approved	FE65L2	uc003lgd.1	O95704	OTTHUMG00000129504	ENST00000357560.4:c.921G>C	5.37:g.139940335C>G	ENSP00000350171:p.Met307Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQN9|Q08AG4|Q96Q18|Q9BYD4|Q9NYX6|Q9NYX7|Q9NYX8	Missense_Mutation	SNP	ENST00000357560.4	37	CCDS4229.1	.	.	.	.	.	.	.	.	.	.	C	16.64	3.180314	0.57800	.	.	ENSG00000113108	ENST00000356738;ENST00000354402;ENST00000357560;ENST00000508496;ENST00000412920	T;T;T;T;T	0.22539	1.95;1.95;1.95;1.95;1.95	4.96	4.96	0.65561	.	0.000000	0.85682	D	0.000000	T	0.22666	0.0547	L	0.38175	1.15	0.80722	D	1	D;P	0.54601	0.967;0.803	P;B	0.46940	0.532;0.27	T	0.00822	-1.1552	9	.	.	.	-17.4445	15.5267	0.75915	0.0:0.862:0.138:0.0	.	305;312	O95704-2;O95704-3	.;.	I	312;314;307;84;305	ENSP00000349177:M312I;ENSP00000346378:M314I;ENSP00000350171:M307I;ENSP00000444013:M84I;ENSP00000402591:M305I	.	M	-	3	0	APBB3	139920519	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	4.658000	0.61497	2.579000	0.87056	0.655000	0.94253	ATG		0.572	APBB3-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000251677.2	NM_006051		G	139940335	C	G	139940335	3	3	606	1	0	0	0	0	1	0	0	0	762	594	21	4	551	4	APBB3	5	139940335	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	57123304	139940335	40974925	70	36566										
PCDHGC3	5098	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	140856910	140856910	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctcaagaattacttcactttGaaaaccagtgcagacctgga	7	10	2	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr5:140856910G>A	ENST00000308177.3	+	1	1331	c.1227G>A	c.(1225-1227)ttG>ttA	p.L409L	PCDHGB7_ENST00000398594.2_Intron|PCDHGB3_ENST00000576222.1_Intron|PCDHGA5_ENST00000518069.1_Intron|PCDHGA7_ENST00000518325.1_Intron|PCDHGA2_ENST00000394576.2_Intron|PCDHGB1_ENST00000523390.1_Intron|PCDHGB2_ENST00000522605.1_Intron|PCDHGA1_ENST00000517417.1_Intron|PCDHGA6_ENST00000517434.1_Intron|PCDHGA8_ENST00000398604.2_Intron|RN7SL68P_ENST00000488078.2_RNA|PCDHGA11_ENST00000518882.1_Intron|PCDHGA4_ENST00000571252.1_Intron|PCDHGA3_ENST00000253812.6_Intron|PCDHGA9_ENST00000573521.1_Intron|PCDHGB6_ENST00000520790.1_Intron|PCDHGB4_ENST00000519479.1_Intron|PCDHGA10_ENST00000398610.2_Intron|PCDHGA12_ENST00000252085.3_Intron|PCDHGA11_ENST00000398587.2_Intron	NM_002588.2|NM_032402.1	NP_002579.2|NP_115778.1	Q9UN70	PCDGK_HUMAN	protocadherin gamma subfamily C, 3	409	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(8)|lung(8)|ovary(2)|skin(2)|urinary_tract(1)	29			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACTTCACTTTGAAAACCAGTG	0.552																																																0													55	56	56					5																	140856910		2203	4300	6503	SO:0001819	synonymous_variant	5098			AF152337	CCDS4261.1, CCDS75347.1, CCDS75348.1	5q31	2010-01-26			ENSG00000240184	ENSG00000240184		"Cadherins / Protocadherins : Clustered"	8716	other	protocadherin	"cadherin-like 2", "protocadherin 2", "protocadherin 43"	603627		PCDH2		9360932, 8508762	Standard	NM_032402		Approved	PC-43, PC43, PCDH-GAMMA-C3		Q9UN70	OTTHUMG00000129613	ENST00000308177.3:c.1227G>A	5.37:g.140856910G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60622|Q08192|Q9Y5C4	Silent	SNP	ENST00000308177.3	37	CCDS4261.1																																																																																				0.552	PCDHGC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251808.2	NM_002588		A	140856910	G	A	140856910	2	1	606	1	0	0	0	0	0	0	0	1	11576	1281	45	2		2	PCDHGC3	5	140856910	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	916575	140856910	40058350	71	36567										
GRIA1	2890	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	153078520	153078520	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tagagctggcggcagagattGccaagcacgtgggctactcc	14	11	0	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr5:153078520G>C	ENST00000285900.5	+	10	1682	c.1339G>C	c.(1339-1341)Gcc>Ccc	p.A447P	GRIA1_ENST00000340592.5_Missense_Mutation_p.A447P|GRIA1_ENST00000518142.1_Missense_Mutation_p.A367P|GRIA1_ENST00000521843.2_Missense_Mutation_p.A378P|GRIA1_ENST00000448073.4_Missense_Mutation_p.A457P|GRIA1_ENST00000518783.1_Missense_Mutation_p.A457P	NM_000827.3|NM_001258019.1	NP_000818.2|NP_001244948.1	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1	447					ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|long-term memory (GO:0007616)|receptor internalization (GO:0031623)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex (GO:0032281)|axonal spine (GO:0044308)|cell junction (GO:0030054)|cell surface (GO:0009986)|dendrite (GO:0030425)|dendrite membrane (GO:0032590)|dendritic spine (GO:0043197)|endocytic vesicle membrane (GO:0030666)|endoplasmic reticulum (GO:0005783)|neuron spine (GO:0044309)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)|synaptic vesicle (GO:0008021)	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:0004971)|extracellular-glutamate-gated ion channel activity (GO:0005234)|glutamate receptor activity (GO:0008066)|PDZ domain binding (GO:0030165)			NS(1)|breast(4)|endometrium(7)|kidney(3)|large_intestine(24)|liver(2)|lung(23)|ovary(4)|pancreas(1)|prostate(5)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	81		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Perampanel(DB08883)|Sevoflurane(DB01236)	GGCAGAGATTGCCAAGCACGT	0.537																																																0													115	102	106					5																	153078520		2203	4300	6503	SO:0001583	missense	2890				CCDS4322.1, CCDS47318.1, CCDS58986.1, CCDS58987.1, CCDS58988.1, CCDS58989.1	5q33	2012-08-29			ENSG00000155511	ENSG00000155511		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4571	protein-coding gene	gene with protein product		138248		GLUR1		1652753, 1319477	Standard	NM_000827		Approved	GluA1, GLURA	uc011dcy.2	P42261	OTTHUMG00000130148	ENST00000285900.5:c.1339G>C	5.37:g.153078520G>C	ENSP00000285900:p.Ala447Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2S0|B7Z2W8|B7Z3F6|B7Z9G9|D3DQI4|E7ESV8|Q2NKM6	Missense_Mutation	SNP	ENST00000285900.5	37	CCDS4322.1	.	.	.	.	.	.	.	.	.	.	G	34	5.344853	0.95807	.	.	ENSG00000155511	ENST00000285900;ENST00000544403;ENST00000518142;ENST00000537037;ENST00000340592;ENST00000521843;ENST00000544794;ENST00000518783;ENST00000448073	T;T;D;T;T;T;D	0.81821	1.03;1.03;-1.54;1.03;1.03;1.03;-1.54	5.44	5.44	0.79542	Glutamate receptor, L-glutamate/glycine-binding (2);Ionotropic glutamate receptor (1);	0.000000	0.85682	D	0.000000	D	0.93514	0.7930	H	0.96996	3.92	0.80722	D	1	D;D;D;D;D;D	0.71674	0.987;0.987;0.998;0.987;0.984;0.998	D;D;D;D;P;D	0.91635	0.931;0.931;0.999;0.931;0.887;0.984	D	0.95457	0.8539	10	0.87932	D	0	.	18.2393	0.89961	0.0:0.0:1.0:0.0	.	457;457;367;457;447;447	E7ESV8;B7Z9G9;B7Z3F6;B7Z2W8;P42261-2;P42261	.;.;.;.;.;GRIA1_HUMAN	P	447;447;367;401;447;378;378;457;457	ENSP00000285900:A447P;ENSP00000427920:A367P;ENSP00000339343:A447P;ENSP00000427864:A378P;ENSP00000442108:A378P;ENSP00000428994:A457P;ENSP00000415569:A457P	ENSP00000285900:A447P	A	+	1	0	GRIA1	153058713	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	9.640000	0.98453	2.548000	0.85928	0.655000	0.94253	GCC		0.537	GRIA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252456.3			C	153078520	G	C	153078520	3	2	606	1	0	0	0	0	1	0	0	0	6774	1319	46	4	1377	4	GRIA1	5	153078520	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	12221610	153078520	27836740	72	36568										
SGCD	6444	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	156186311	156186311	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ggaacgaggcagaaggtcttCgagatctgcgtctgcgccaa	14	10	3	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr5:156186311C>T	ENST00000435422.3	+	8	1267	c.780C>T	c.(778-780)ttC>ttT	p.F260F	SGCD_ENST00000337851.4_Silent_p.F261F	NM_001128209.1	NP_001121681.1	Q92629	SGCD_HUMAN	sarcoglycan, delta (35kDa dystrophin-associated glycoprotein)	260					muscle organ development (GO:0007517)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|dystrophin-associated glycoprotein complex (GO:0016010)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|sarcoglycan complex (GO:0016012)|sarcolemma (GO:0042383)		p.F261L(1)		breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(16)|prostate(1)	24	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)			AGAAGGTCTTCGAGATCTGCG	0.488																																																1	Substitution - Missense(1)	lung(1)											130	125	127					5																	156186311		1968	4175	6143	SO:0001819	synonymous_variant	6444			BX537948	CCDS47325.1, CCDS47326.1, CCDS47327.1	5q33-q34	2014-09-17	2002-08-29						10807	protein-coding gene	gene with protein product		601411	"sarcoglycan, delta (35kD dystrophin-associated glycoprotein)"			8776597, 8841194, 10974018	Standard	NM_000337		Approved	DAGD, LGMD2F, CMD1L	uc003lwd.4	Q92629		ENST00000435422.3:c.780C>T	5.37:g.156186311C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K9S9|Q53XA5|Q99644	Silent	SNP	ENST00000435422.3	37	CCDS47327.1																																																																																				0.488	SGCD-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000373469.3			T	156186311	C	T	156186311	2	4	606	1	0	0	0	0	0	0	0	1	14214	883	31	1		1	SGCD	5	156186311	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	3107791	156186311	24728949	73	36569										
HLA-B	3106	broad.mit.edu	37	chr6	31324628	31324628	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ggactcgcggcgtcgctgtcGaacctcacgaactgggtgtc	14	13	1	0	rs151341114		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr6:31324628G>A	ENST00000412585.2	-	2	208	c.180C>T	c.(178-180)ttC>ttT	p.F60F		NM_005514.6	NP_005505.2	P30486	1B48_HUMAN	major histocompatibility complex, class I, B	60	Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|immune response (GO:0006955)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|viral process (GO:0016032)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|MHC class I protein complex (GO:0042612)	peptide antigen binding (GO:0042605)			endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(4)|lung(4)|prostate(1)|upper_aerodigestive_tract(2)	27						CGTCGCTGTCGAACCTCACGA	0.652									Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of																																							0													39	33	35					6																	31324628		2158	4201	6359	SO:0001819	synonymous_variant	3106	Familial Cancer Database	;Lichen Sclerosis, Familial	M15470	CCDS34394.1	6p21.3	2013-01-11			ENSG00000234745	ENSG00000234745		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4932	protein-coding gene	gene with protein product		142830	"ankylosing spondylitis"	AS		3459708	Standard	NM_005514		Approved		uc011imz.2	P01889	OTTHUMG00000031153	ENST00000412585.2:c.180C>T	6.37:g.31324628G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q29764	Silent	SNP	ENST00000412585.2	37	CCDS34394.1																																																																																				0.652	HLA-B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076280.4	NM_005514		A	31324628	G	A	31324628	2	1	606	1	0	0	0	0	0	0	0	1	7203	1049	37	1		1	HLA-B	6	31324628	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08		31324628	139790439	74	36570										
FOXP4	116113	bcgsc.ca	37	chr6	41533574	41533574	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gcgtgggcagcctctctgggCaagccgatggcagcagcggc	17	13	1	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr6:41533574C>A	ENST00000307972.4	+	1	88	c.76C>A	c.(76-78)Caa>Aaa	p.Q26K	FOXP4_ENST00000409208.1_Missense_Mutation_p.Q26K|FOXP4_ENST00000373063.3_Missense_Mutation_p.Q26K|FOXP4_ENST00000373060.1_Missense_Mutation_p.Q26K|FOXP4_ENST00000373057.3_Missense_Mutation_p.Q26K			Q8IVH2	FOXP4_HUMAN	forkhead box P4	26					embryonic foregut morphogenesis (GO:0048617)|heart development (GO:0007507)|lung secretory cell differentiation (GO:0061140)|negative regulation of lung goblet cell differentiation (GO:1901250)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)			autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(6)|upper_aerodigestive_tract(1)	16	Ovarian(28;0.0327)|Colorectal(47;0.196)					CCTCTCTGGGCAAGCCGATGG	0.627																																																0													83	84	84					6																	41533574		2201	4292	6493	SO:0001583	missense	116113			AB080747	CCDS4856.1, CCDS34447.1, CCDS34448.1	6p21.1	2008-02-05			ENSG00000137166	ENSG00000137166		"Forkhead boxes"	20842	protein-coding gene	gene with protein product		608924					Standard	XM_006714991		Approved	FLJ40908	uc003oql.3	Q8IVH2	OTTHUMG00000014679	ENST00000307972.4:c.76C>A	6.37:g.41533574C>A	ENSP00000309823:p.Gln26Lys	Somatic		WXS	Illumina HiSeq	Phase_1	Q5W098|Q7Z7F8|Q8IW55|Q96E19	Missense_Mutation	SNP	ENST00000307972.4	37	CCDS34447.1	.	.	.	.	.	.	.	.	.	.	C	14.48	2.547854	0.45383	.	.	ENSG00000137166	ENST00000373060;ENST00000373063;ENST00000409208;ENST00000373057;ENST00000307972	D;D;D;D;D	0.91464	-2.85;-2.81;-2.81;-2.8;-2.85	5.35	5.35	0.76521	.	0.000000	0.50627	D	0.000103	D	0.82715	0.5097	M	0.70595	2.14	0.58432	D	0.999996	B;B;B	0.29037	0.231;0.231;0.231	B;B;B	0.24848	0.056;0.056;0.056	T	0.82694	-0.0330	10	0.02654	T	1	.	19.0777	0.93169	0.0:1.0:0.0:0.0	.	26;26;26	Q8IW55;Q7Z7F8;Q8IVH2	.;.;FOXP4_HUMAN	K	26	ENSP00000362151:Q26K;ENSP00000362154:Q26K;ENSP00000386958:Q26K;ENSP00000362148:Q26K;ENSP00000309823:Q26K	ENSP00000309823:Q26K	Q	+	1	0	FOXP4	41641552	1.000000	0.71417	0.999000	0.59377	0.155000	0.21991	7.077000	0.76814	2.529000	0.85273	0.655000	0.94253	CAA		0.627	FOXP4-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000106767.1	NM_138457		A	41533574	C	A	41533574	3	1	606	1	0	0	0	0	1	0	0	0	6036	711	25	4	78	4	FOXP4	6	41533574	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	10208946	41533574	129581493	75	36571										
CUL7	9820	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	43008726	43008726	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	agcttgcaggcattgctgcaGctgtgccagcctctccattt	10	13	1	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr6:43008726G>A	ENST00000265348.3	-	20	3818	c.3733C>T	c.(3733-3735)Ctg>Ttg	p.L1245L	CUL7_ENST00000535468.1_Silent_p.L1329L			Q14999	CUL7_HUMAN	cullin 7	1245					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|epithelial to mesenchymal transition (GO:0001837)|Golgi organization (GO:0007030)|microtubule cytoskeleton organization (GO:0000226)|mitotic cytokinesis (GO:0000281)|placenta development (GO:0001890)|positive regulation of dendrite morphogenesis (GO:0050775)|protein ubiquitination (GO:0016567)|proteolysis (GO:0006508)|regulation of mitosis (GO:0007088)|ubiquitin-dependent protein catabolic process (GO:0006511)|vasculogenesis (GO:0001570)|viral process (GO:0016032)	3M complex (GO:1990393)|anaphase-promoting complex (GO:0005680)|centrosome (GO:0005813)|Cul7-RING ubiquitin ligase complex (GO:0031467)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)				breast(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(8)|liver(1)|lung(11)|ovary(3)|prostate(2)|skin(3)|stomach(1)|urinary_tract(1)	49			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			CATTGCTGCAGCTGTGCCAGC	0.572																																																0													40	31	34					6																	43008726		2203	4300	6503	SO:0001819	synonymous_variant	9820			BC033647	CCDS4881.1, CCDS55003.1	6p21.1	2011-05-24	2004-03-22	2004-03-22	ENSG00000044090	ENSG00000044090			21024	protein-coding gene	gene with protein product		609577	"KIAA0076"	KIAA0076		12481031, 12904573	Standard	NM_014780		Approved	dJ20C7.5	uc011dvb.2	Q14999	OTTHUMG00000014718	ENST00000265348.3:c.3733C>T	6.37:g.43008726G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DYZ0|F5H0L1|Q5T654	Silent	SNP	ENST00000265348.3	37	CCDS4881.1																																																																																				0.572	CUL7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040575.1	NM_014780		A	43008726	G	A	43008726	2	1	606	1	0	0	0	0	0	0	0	1	4062	962	34	2		2	CUL7	6	43008726	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	1475152	43008726	128106341	76	36572										
CUL9	23113	hgsc.bcm.edu	37	chr6	43181268	43181268	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctcacctcagggaatggcccTttgaccctgcatgagggcca	11	14	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr6:43181268T>C	ENST00000252050.4	+	28	5535	c.5451T>C	c.(5449-5451)ccT>ccC	p.P1817P	CUL9_ENST00000354495.3_Silent_p.P1707P|RP3-330M21.5_ENST00000500590.1_RNA|CUL9_ENST00000502937.1_3'UTR|CUL9_ENST00000372647.2_Silent_p.P1817P	NM_015089.2	NP_055904.1	Q8IWT3	CUL9_HUMAN	cullin 9	1817					microtubule cytoskeleton organization (GO:0000226)|protein ubiquitination (GO:0016567)|regulation of mitosis (GO:0007088)|ubiquitin-dependent protein catabolic process (GO:0006511)	cullin-RING ubiquitin ligase complex (GO:0031461)|cytoplasm (GO:0005737)	ATP binding (GO:0005524)|zinc ion binding (GO:0008270)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(18)|liver(1)|lung(30)|ovary(5)|prostate(3)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(4)	92						GGAATGGCCCTTTGACCCTGC	0.632																																																0													50	51	51					6																	43181268		2203	4300	6503	SO:0001819	synonymous_variant	23113			AB014608	CCDS4890.1	6p21.1	2011-05-24			ENSG00000112659	ENSG00000112659			15982	protein-coding gene	gene with protein product	"parkin-like cytoplasmic p53 binding protein", "p53-associated parkin-like cytoplasmic protein"	607489				17332328, 10521492, 12526791	Standard	NM_015089		Approved	H7AP1, KIAA0708, PARC	uc003ouk.3	Q8IWT3	OTTHUMG00000014723	ENST00000252050.4:c.5451T>C	6.37:g.43181268T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O75188|Q5TCY3|Q68CP2|Q68D92|Q8N3W9|Q9BU56	Silent	SNP	ENST00000252050.4	37	CCDS4890.1																																																																																				0.632	CUL9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040582.2	NM_015089		C	43181268	T	C	43181268	2	2	606	1	0	0	0	0	0	0	0	1	4063	1596	56	3		3	CUL9	6	43181268	Silent	SNP	T	TCGA-HE-7130-01A-11D-1961-08	172542	43181268	127933799	77	36573										
TJAP1	93643	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	43468508	43468508	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctgactgatgcagaaaggatGaagtgagtatctgctacctg	12	7	1	5			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr6:43468508G>T	ENST00000372445.5	+	5	502	c.126G>T	c.(124-126)atG>atT	p.M42I	TJAP1_ENST00000372444.2_Missense_Mutation_p.M42I|TJAP1_ENST00000372449.1_Missense_Mutation_p.M42I|TJAP1_ENST00000436109.2_Missense_Mutation_p.M42I|TJAP1_ENST00000483640.1_3'UTR|TJAP1_ENST00000259751.1_Missense_Mutation_p.M42I|TJAP1_ENST00000438588.2_Missense_Mutation_p.M42I|TJAP1_ENST00000372452.1_Missense_Mutation_p.M42I	NM_001146016.1	NP_001139488.1	Q5JTD0	TJAP1_HUMAN	tight junction associated protein 1 (peripheral)	42					Golgi organization (GO:0007030)	endosome (GO:0005768)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|tight junction (GO:0005923)|trans-Golgi network (GO:0005802)				cervix(1)|endometrium(4)|kidney(1)|large_intestine(1)|lung(11)|ovary(1)|urinary_tract(2)	21	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0122)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CAGAAAGGATGAAGTGAGTAT	0.537																																																0													170	152	158					6																	43468508		2203	4300	6503	SO:0001583	missense	93643			AK024269	CCDS4898.1, CCDS55004.1	6p21.1	2008-02-05	2005-07-05	2005-07-05	ENSG00000137221	ENSG00000137221			17949	protein-coding gene	gene with protein product		612658	"tight junction protein 4 (peripheral)"	TJP4		11602598	Standard	NM_001146016		Approved	PILT	uc011dvh.1	Q5JTD0	OTTHUMG00000014736	ENST00000372445.5:c.126G>T	6.37:g.43468508G>T	ENSP00000361522:p.Met42Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q05BH9|Q5JTD1|Q5JWW1|Q68DB2|Q6P2P3|Q9H7V7	Missense_Mutation	SNP	ENST00000372445.5	37	CCDS55004.1	.	.	.	.	.	.	.	.	.	.	G	19.37	3.814511	0.70912	.	.	ENSG00000137221	ENST00000372444;ENST00000372445;ENST00000436109;ENST00000442878;ENST00000259751;ENST00000372454;ENST00000372452;ENST00000372449;ENST00000438588	T;T;T;T;T;T;T;T	0.77877	-1.13;-1.13;-1.13;-1.13;-1.13;-1.13;-1.13;-1.13	5.9	5.9	0.94986	.	0.048207	0.85682	D	0.000000	T	0.71134	0.3304	N	0.17082	0.46	0.37379	D	0.911945	B;D;P	0.53745	0.001;0.962;0.664	B;D;B	0.66716	0.003;0.946;0.203	T	0.68017	-0.5520	10	0.15066	T	0.55	-26.5245	17.4349	0.87548	0.0:0.0:1.0:0.0	.	42;42;42	E2QRK7;Q5JTD0;Q5JTD0-2	.;TJAP1_HUMAN;.	I	42	ENSP00000361521:M42I;ENSP00000361522:M42I;ENSP00000407080:M42I;ENSP00000390981:M42I;ENSP00000259751:M42I;ENSP00000361530:M42I;ENSP00000361527:M42I;ENSP00000408769:M42I	ENSP00000259751:M42I	M	+	3	0	TJAP1	43576486	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	4.402000	0.59722	2.788000	0.95919	0.650000	0.86243	ATG		0.537	TJAP1-202	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000040629.1	NM_080604		T	43468508	G	T	43468508	3	4	606	1	0	0	0	0	1	0	0	0	15940	1290	45	4	132	4	TJAP1	6	43468508	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	287240	43468508	127646559	78	36574										
SYNE1	23345	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	152557320	152557320	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgttacttagccagcactctCcaagttgatttagttggctt	8	9	1	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr6:152557320C>T	ENST00000367255.5	-	110	20919	c.20318G>A	c.(20317-20319)gGa>gAa	p.G6773E	SYNE1_ENST00000341594.5_Missense_Mutation_p.G6385E|SYNE1_ENST00000265368.4_Missense_Mutation_p.G6773E|SYNE1_ENST00000448038.1_Missense_Mutation_p.G6702E|SYNE1_ENST00000423061.1_Missense_Mutation_p.G6702E|SYNE1_ENST00000356820.4_Missense_Mutation_p.G1297E	NM_182961.3	NP_892006.3	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6773					cell death (GO:0008219)|cytoskeletal anchoring at nuclear membrane (GO:0090286)|establishment of nucleus localization (GO:0040023)|Golgi organization (GO:0007030)|muscle cell differentiation (GO:0042692)|nuclear matrix anchoring at nuclear membrane (GO:0090292)|nucleus organization (GO:0006997)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|postsynaptic membrane (GO:0045211)|sarcomere (GO:0030017)|SUN-KASH complex (GO:0034993)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|lamin binding (GO:0005521)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)			NS(3)|biliary_tract(1)|breast(17)|central_nervous_system(21)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(4)|kidney(16)|large_intestine(138)|liver(1)|lung(190)|ovary(11)|pancreas(5)|prostate(12)|skin(20)|stomach(3)|upper_aerodigestive_tract(33)|urinary_tract(19)	524		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CCAGCACTCTCCAAGTTGATT	0.373										HNSCC(10;0.0054)																																						0													170	166	167					6																	152557320		2203	4300	6503	SO:0001583	missense	23345			AB018339	CCDS5235.1, CCDS5236.1, CCDS5236.2	6q24.2-q25.3	2014-09-17			ENSG00000131018	ENSG00000131018			17089	protein-coding gene	gene with protein product	"myocyte nuclear envelope protein 1", "nuclear envelope spectrin repeat-1"	608441	"chromosome 6 open reading frame 98"	C6orf98		9872452, 10878022	Standard	NM_182961		Approved	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1	uc003qou.4	Q8NF91	OTTHUMG00000015841	ENST00000367255.5:c.20318G>A	6.37:g.152557320C>T	ENSP00000356224:p.Gly6773Glu	Somatic		WXS	Illumina HiSeq	Phase_I	E7EQI5|O94890|Q5JV19|Q5JV22|Q8N9P7|Q8TCP1|Q8WWW6|Q8WWW7|Q8WXF6|Q96N17|Q9C0A7|Q9H525|Q9H526|Q9NS36|Q9NU50|Q9UJ06|Q9UJ07|Q9ULF8	Missense_Mutation	SNP	ENST00000367255.5	37	CCDS5236.2	.	.	.	.	.	.	.	.	.	.	C	12.94	2.087720	0.36855	.	.	ENSG00000131018	ENST00000367255;ENST00000423061;ENST00000265368;ENST00000448038;ENST00000341594;ENST00000356820	T;T;T;T;T;T	0.50548	0.83;0.81;0.74;0.82;0.92;2.82	5.56	5.56	0.83823	.	0.000000	0.56097	D	0.000029	T	0.53498	0.1800	L	0.33710	1.025	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	T	0.55147	-0.8186	10	0.54805	T	0.06	.	19.5353	0.95251	0.0:1.0:0.0:0.0	.	6773;6773;6702	Q8NF91;E7EQI5;Q8NF91-4	SYNE1_HUMAN;.;.	E	6773;6702;6773;6702;6385;1297	ENSP00000356224:G6773E;ENSP00000396024:G6702E;ENSP00000265368:G6773E;ENSP00000390975:G6702E;ENSP00000341887:G6385E;ENSP00000349276:G1297E	ENSP00000265368:G6773E	G	-	2	0	SYNE1	152599013	1.000000	0.71417	1.000000	0.80357	0.816000	0.46133	6.073000	0.71245	2.607000	0.88179	0.655000	0.94253	GGA		0.373	SYNE1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000334755.2	NM_182961		T	152557320	C	T	152557320	3	4	606	1	0	0	0	0	1	0	0	0	15457	855	30	2	6296	2	SYNE1	6	152557320	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	109088812	152557320	18557747	79	36575										
SYNE1	23345	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	152560730	152560730	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tttcagtacagcagaagcctGagccatcagctctgtatgga	10	10	3	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr6:152560730G>C	ENST00000367255.5	-	108	20606	c.20005C>G	c.(20005-20007)Cag>Gag	p.Q6669E	SYNE1_ENST00000341594.5_Missense_Mutation_p.Q6281E|SYNE1_ENST00000265368.4_Missense_Mutation_p.Q6669E|SYNE1_ENST00000448038.1_Missense_Mutation_p.Q6598E|SYNE1_ENST00000423061.1_Missense_Mutation_p.Q6598E|SYNE1_ENST00000356820.4_Missense_Mutation_p.Q1193E	NM_182961.3	NP_892006.3	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6669					cell death (GO:0008219)|cytoskeletal anchoring at nuclear membrane (GO:0090286)|establishment of nucleus localization (GO:0040023)|Golgi organization (GO:0007030)|muscle cell differentiation (GO:0042692)|nuclear matrix anchoring at nuclear membrane (GO:0090292)|nucleus organization (GO:0006997)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|postsynaptic membrane (GO:0045211)|sarcomere (GO:0030017)|SUN-KASH complex (GO:0034993)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|lamin binding (GO:0005521)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)			NS(3)|biliary_tract(1)|breast(17)|central_nervous_system(21)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(4)|kidney(16)|large_intestine(138)|liver(1)|lung(190)|ovary(11)|pancreas(5)|prostate(12)|skin(20)|stomach(3)|upper_aerodigestive_tract(33)|urinary_tract(19)	524		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GCAGAAGCCTGAGCCATCAGC	0.468										HNSCC(10;0.0054)																																						0													136	112	120					6																	152560730		2203	4300	6503	SO:0001583	missense	23345			AB018339	CCDS5235.1, CCDS5236.1, CCDS5236.2	6q24.2-q25.3	2014-09-17			ENSG00000131018	ENSG00000131018			17089	protein-coding gene	gene with protein product	"myocyte nuclear envelope protein 1", "nuclear envelope spectrin repeat-1"	608441	"chromosome 6 open reading frame 98"	C6orf98		9872452, 10878022	Standard	NM_182961		Approved	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1	uc003qou.4	Q8NF91	OTTHUMG00000015841	ENST00000367255.5:c.20005C>G	6.37:g.152560730G>C	ENSP00000356224:p.Gln6669Glu	Somatic		WXS	Illumina HiSeq	Phase_I	E7EQI5|O94890|Q5JV19|Q5JV22|Q8N9P7|Q8TCP1|Q8WWW6|Q8WWW7|Q8WXF6|Q96N17|Q9C0A7|Q9H525|Q9H526|Q9NS36|Q9NU50|Q9UJ06|Q9UJ07|Q9ULF8	Missense_Mutation	SNP	ENST00000367255.5	37	CCDS5236.2	.	.	.	.	.	.	.	.	.	.	G	2.493	-0.316916	0.05386	.	.	ENSG00000131018	ENST00000367255;ENST00000423061;ENST00000265368;ENST00000448038;ENST00000341594;ENST00000356820	T;T;T;T;T;T	0.34859	1.34;1.34;1.34;1.34;1.34;1.34	5.7	4.81	0.61882	.	0.210406	0.33438	N	0.004910	T	0.14787	0.0357	L	0.36672	1.1	0.30220	N	0.796918	B;B;B	0.26876	0.101;0.101;0.162	B;B;B	0.22386	0.017;0.017;0.039	T	0.10428	-1.0630	10	0.66056	D	0.02	.	12.7363	0.57225	0.0:0.1256:0.7439:0.1305	.	6669;6669;6598	Q8NF91;E7EQI5;Q8NF91-4	SYNE1_HUMAN;.;.	E	6669;6598;6669;6598;6281;1193	ENSP00000356224:Q6669E;ENSP00000396024:Q6598E;ENSP00000265368:Q6669E;ENSP00000390975:Q6598E;ENSP00000341887:Q6281E;ENSP00000349276:Q1193E	ENSP00000265368:Q6669E	Q	-	1	0	SYNE1	152602423	0.999000	0.42202	0.997000	0.53966	0.994000	0.84299	2.850000	0.48294	1.368000	0.46115	0.655000	0.94253	CAG		0.468	SYNE1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000334755.2	NM_182961		C	152560730	G	C	152560730	3	2	606	1	0	0	0	0	1	0	0	0	15457	1299	45	4	6617	4	SYNE1	6	152560730	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	3410	152560730	18554337	80	36576										
SYNE1	23345	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	152730280	152730280	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	actgtgaattttcttcagctCagataacaagtgttttcctt	6	8	3	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr6:152730280C>T	ENST00000367255.5	-	44	7064	c.6463G>A	c.(6463-6465)Gag>Aag	p.E2155K	SYNE1_ENST00000341594.5_Missense_Mutation_p.E2192K|SYNE1_ENST00000265368.4_Missense_Mutation_p.E2155K|SYNE1_ENST00000448038.1_Missense_Mutation_p.E2162K|RNA5SP223_ENST00000365174.1_RNA|SYNE1_ENST00000423061.1_Missense_Mutation_p.E2162K	NM_182961.3	NP_892006.3	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2155					cell death (GO:0008219)|cytoskeletal anchoring at nuclear membrane (GO:0090286)|establishment of nucleus localization (GO:0040023)|Golgi organization (GO:0007030)|muscle cell differentiation (GO:0042692)|nuclear matrix anchoring at nuclear membrane (GO:0090292)|nucleus organization (GO:0006997)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|postsynaptic membrane (GO:0045211)|sarcomere (GO:0030017)|SUN-KASH complex (GO:0034993)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|lamin binding (GO:0005521)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)			NS(3)|biliary_tract(1)|breast(17)|central_nervous_system(21)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(4)|kidney(16)|large_intestine(138)|liver(1)|lung(190)|ovary(11)|pancreas(5)|prostate(12)|skin(20)|stomach(3)|upper_aerodigestive_tract(33)|urinary_tract(19)	524		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTCTTCAGCTCAGATAACAAG	0.383										HNSCC(10;0.0054)																																						0													147	142	143					6																	152730280		2203	4300	6503	SO:0001583	missense	23345			AB018339	CCDS5235.1, CCDS5236.1, CCDS5236.2	6q24.2-q25.3	2014-09-17			ENSG00000131018	ENSG00000131018			17089	protein-coding gene	gene with protein product	"myocyte nuclear envelope protein 1", "nuclear envelope spectrin repeat-1"	608441	"chromosome 6 open reading frame 98"	C6orf98		9872452, 10878022	Standard	NM_182961		Approved	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1	uc003qou.4	Q8NF91	OTTHUMG00000015841	ENST00000367255.5:c.6463G>A	6.37:g.152730280C>T	ENSP00000356224:p.Glu2155Lys	Somatic		WXS	Illumina HiSeq	Phase_I	E7EQI5|O94890|Q5JV19|Q5JV22|Q8N9P7|Q8TCP1|Q8WWW6|Q8WWW7|Q8WXF6|Q96N17|Q9C0A7|Q9H525|Q9H526|Q9NS36|Q9NU50|Q9UJ06|Q9UJ07|Q9ULF8	Missense_Mutation	SNP	ENST00000367255.5	37	CCDS5236.2	.	.	.	.	.	.	.	.	.	.	C	18.72	3.684114	0.68157	.	.	ENSG00000131018	ENST00000367255;ENST00000423061;ENST00000265368;ENST00000448038;ENST00000341594	T;T;T;T;T	0.52295	1.38;1.38;1.38;1.38;0.67	5.57	5.57	0.84162	.	0.000000	0.64402	D	0.000013	T	0.49115	0.1538	M	0.61703	1.905	0.80722	D	1	D;D;D;D	0.58620	0.982;0.983;0.983;0.978	P;P;P;P	0.59424	0.791;0.678;0.678;0.857	T	0.46582	-0.9181	10	0.06891	T	0.86	.	19.5527	0.95328	0.0:1.0:0.0:0.0	.	2138;2155;2155;2162	B3W695;Q8NF91;E7EQI5;Q8NF91-4	.;SYNE1_HUMAN;.;.	K	2155;2162;2155;2162;2192	ENSP00000356224:E2155K;ENSP00000396024:E2162K;ENSP00000265368:E2155K;ENSP00000390975:E2162K;ENSP00000341887:E2192K	ENSP00000265368:E2155K	E	-	1	0	SYNE1	152771973	1.000000	0.71417	0.991000	0.47740	0.194000	0.23727	7.794000	0.85869	2.630000	0.89119	0.655000	0.94253	GAG		0.383	SYNE1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000334755.2	NM_182961		T	152730280	C	T	152730280	3	4	606	1	0	0	0	0	1	0	0	0	15457	835	29	2	20415	2	SYNE1	6	152730280	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	169550	152730280	18384787	81	36577										
MLLT4	4301	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	168347543	168347543	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tggtgatgacagactgatgaAaaatagagctgatcaccgtt	11	6	1	7			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr6:168347543A>C	ENST00000447894.2	+	26	3494	c.3494A>C	c.(3493-3495)aAa>aCa	p.K1165T	MLLT4_ENST00000392108.3_Missense_Mutation_p.K1165T|MLLT4_ENST00000507679.1_3'UTR|MLLT4_ENST00000366806.2_Missense_Mutation_p.K1165T|MLLT4_ENST00000351017.4_Missense_Mutation_p.K1172T|MLLT4_ENST00000392112.1_Missense_Mutation_p.K1148T|MLLT4_ENST00000400822.3_Missense_Mutation_p.K1164T|MLLT4_ENST00000344191.4_Missense_Mutation_p.K1165T			P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 4	1165					adherens junction organization (GO:0034332)|cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|cell-cell signaling (GO:0007267)|signal transduction (GO:0007165)	apical part of cell (GO:0045177)|cell junction (GO:0030054)|cell-cell adherens junction (GO:0005913)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	protein C-terminus binding (GO:0008022)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(13)|large_intestine(10)|lung(19)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	65		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)		AGACTGATGAAAAATAGAGCT	0.433			T	MLL	AL																																		Dom	yes		6	6q27	4301	"myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 4 (AF6)"		L	0													115	116	116					6																	168347543		2203	4300	6503	SO:0001583	missense	4301			AB011399	CCDS47517.1, CCDS75553.1	6q27	2008-02-05	2001-11-28		ENSG00000130396	ENSG00000130396			7137	protein-coding gene	gene with protein product		159559	"myeloid/lymphoid or mixed-lineage leukemia (trithorax (Drosophila) homolog); translocated to, 4"			8242616	Standard	NM_001040000		Approved	AF-6, AF6	uc021zij.1	P55196	OTTHUMG00000016031	ENST00000447894.2:c.3494A>C	6.37:g.168347543A>C	ENSP00000404595:p.Lys1165Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O75087|O75088|O75089|Q59FP0|Q5TIG6|Q5TIG7|Q9NSN7|Q9NU92	Missense_Mutation	SNP	ENST00000447894.2	37		.	.	.	.	.	.	.	.	.	.	A	22.4	4.286695	0.80803	.	.	ENSG00000130396	ENST00000344191;ENST00000351017;ENST00000392108;ENST00000366806;ENST00000392112;ENST00000341575;ENST00000400822;ENST00000447894	T;T;T;T;T;T;T	0.04970	3.73;3.62;3.72;3.71;3.52;3.62;3.62	5.36	4.19	0.49359	.	0.000000	0.85682	D	0.000000	T	0.12347	0.0300	M	0.73962	2.25	0.52501	D	0.999956	P;D;P;P	0.67145	0.586;0.996;0.817;0.843	B;D;B;P	0.63703	0.263;0.917;0.345;0.63	T	0.00800	-1.1561	10	0.59425	D	0.04	-31.0185	11.4921	0.50387	0.929:0.0:0.071:0.0	.	1165;1164;1165;1149	P55196;P55196-5;P55196-6;P55196-2	AFAD_HUMAN;.;.;.	T	1165;1172;1165;1165;1148;1165;1164;1165	ENSP00000341118:K1165T;ENSP00000252692:K1172T;ENSP00000375956:K1165T;ENSP00000355771:K1165T;ENSP00000375960:K1148T;ENSP00000383623:K1164T;ENSP00000404595:K1165T	ENSP00000345834:K1165T	K	+	2	0	MLLT4	168090392	1.000000	0.71417	0.812000	0.32479	0.904000	0.53231	8.548000	0.90669	0.965000	0.38133	0.533000	0.62120	AAA		0.433	MLLT4-013	PUTATIVE	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000372077.1	NM_005936		C	168347543	A	C	168347543	3	2	606	1	0	0	0	0	1	0	0	0	9636	14	1	5	3596	5	MLLT4	6	168347543	Missense_Mutation	SNP	A	TCGA-HE-7130-01A-11D-1961-08	15617263	168347543	2767524	82	36578										
FRMD1	79981	hgsc.bcm.edu;broad.mit.edu	37	chr6	168457843	168457843	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gcgagacagttgctggacctCttgctggggagagtggccct	16	10	1	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr6:168457843C>G	ENST00000283309.6	-	11	1648	c.1584G>C	c.(1582-1584)aaG>aaC	p.K528N	FRMD1_ENST00000440994.2_Missense_Mutation_p.K460N|FRMD1_ENST00000537786.1_Missense_Mutation_p.K299N|FRMD1_ENST00000432403.1_5'UTR	NM_024919.3	NP_079195.3	Q8N878	FRMD1_HUMAN	FERM domain containing 1	528						cytoskeleton (GO:0005856)				endometrium(3)|kidney(2)|large_intestine(5)|lung(6)|ovary(1)|prostate(1)|urinary_tract(1)	19		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)		TGCTGGACCTCTTGCTGGGGA	0.672																																					GBM(50;8 1094 9538 34399)|Ovarian(80;676 1857 8675 49015)											0													42	35	37					6																	168457843		2201	4298	6499	SO:0001583	missense	79981				CCDS5306.1, CCDS47518.1	6q27	2008-10-23			ENSG00000153303	ENSG00000153303			21240	protein-coding gene	gene with protein product							Standard	NM_001122841		Approved	FLJ00181, DKFZp434O0117, FLJ40260, FLJ22615, bA164L23.1	uc003qwo.4	Q8N878	OTTHUMG00000016037	ENST00000283309.6:c.1584G>C	6.37:g.168457843C>G	ENSP00000283309:p.Lys528Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNV8|B3KUM6|Q5SZU7|Q9UFB0	Missense_Mutation	SNP	ENST00000283309.6	37	CCDS5306.1	.	.	.	.	.	.	.	.	.	.	C	9.261	1.043138	0.19748	.	.	ENSG00000153303	ENST00000283309;ENST00000440994;ENST00000537786	T;T;T	0.46451	0.87;0.87;0.87	3.29	-0.146	0.13432	.	0.376195	0.16637	U	0.205782	T	0.10078	0.0247	L	0.28115	0.83	0.22280	N	0.999235	B;B;B;B	0.20261	0.043;0.043;0.04;0.043	B;B;B;B	0.23419	0.02;0.02;0.046;0.03	T	0.20438	-1.0275	10	0.72032	D	0.01	.	2.0231	0.03513	0.1548:0.5026:0.152:0.1906	.	463;528;460;423	B7Z8G9;Q8N878;Q8N878-2;Q5SZU5	.;FRMD1_HUMAN;.;.	N	528;460;299	ENSP00000283309:K528N;ENSP00000414115:K460N;ENSP00000440078:K299N	ENSP00000283309:K528N	K	-	3	2	FRMD1	168200692	0.001000	0.12720	0.000000	0.03702	0.002000	0.02628	-0.243000	0.08915	0.339000	0.23719	-0.463000	0.05309	AAG		0.672	FRMD1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362513.2	NM_024919		G	168457843	C	G	168457843	3	3	606	1	0	0	0	0	1	0	0	0	6056	912	32	4	69	4	FRMD1	6	168457843	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	110300	168457843	2657224	83	36579										
SBDS	51119	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	66456129	66456129	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	atatttgactcttacgatttCtaactgttggccataatctt	5	8	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr7:66456129C>G	ENST00000246868.2	-	4	802	c.619G>C	c.(619-621)Gaa>Caa	p.E207Q		NM_016038.2	NP_057122.2	Q9Y3A5	SBDS_HUMAN	Shwachman-Bodian-Diamond syndrome	207					bone marrow development (GO:0048539)|bone mineralization (GO:0030282)|cell proliferation (GO:0008283)|inner cell mass cell proliferation (GO:0001833)|leukocyte chemotaxis (GO:0030595)|mature ribosome assembly (GO:0042256)|mitotic spindle stabilization (GO:0043148)|ribosomal large subunit biogenesis (GO:0042273)|rRNA processing (GO:0006364)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)|spindle pole (GO:0000922)	microtubule binding (GO:0008017)|poly(A) RNA binding (GO:0044822)|ribosome binding (GO:0043022)|rRNA binding (GO:0019843)			cervix(1)|endometrium(1)|lung(3)|ovary(1)|upper_aerodigestive_tract(1)	7						CTTACGATTTCTAACTGTTGG	0.353			Gene Conversion			"AML, MDS"			Shwachman-Diamond syndrome																													yes	Rec		Schwachman-Diamond syndrome	7	7q11	51119	Shwachman-Bodian-Diamond syndrome protein		L	0													150	125	133					7																	66456129		2203	4300	6503	SO:0001583	missense	51119	Familial Cancer Database	Shwachman syndrome, Shwachman-Bodian syndrome, Congenital Lipomatosis of the Pancreas	AF151855	CCDS5537.1	7q11.22	2014-09-17			ENSG00000126524	ENSG00000126524			19440	protein-coding gene	gene with protein product		607444				12496757	Standard	NM_016038		Approved	CGI-97, FLJ10917, SDS, SWDS	uc003tvm.1	Q9Y3A5	OTTHUMG00000023165	ENST00000246868.2:c.619G>C	7.37:g.66456129C>G	ENSP00000246868:p.Glu207Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0P4|Q96FX0|Q9NV53	Missense_Mutation	SNP	ENST00000246868.2	37	CCDS5537.1	.	.	.	.	.	.	.	.	.	.	C	21.7	4.189067	0.78789	.	.	ENSG00000126524	ENST00000246868	D	0.96745	-4.11	5.04	5.04	0.67666	Ribosome maturation protein SBDS, C-terminal (1);	0.000000	0.85682	D	0.000000	D	0.96929	0.8997	M	0.87381	2.88	0.80722	D	1	P	0.37594	0.601	P	0.44394	0.448	D	0.96222	0.9161	10	0.30854	T	0.27	-19.3899	15.9306	0.79656	0.0:1.0:0.0:0.0	.	207	Q9Y3A5	SBDS_HUMAN	Q	207	ENSP00000246868:E207Q	ENSP00000246868:E207Q	E	-	1	0	SBDS	66093564	1.000000	0.71417	1.000000	0.80357	0.839000	0.47603	6.965000	0.76067	2.641000	0.89580	0.555000	0.69702	GAA		0.353	SBDS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251746.2	NM_016038		G	66456129	C	G	66456129	3	3	606	1	0	0	0	0	1	0	0	0	13870	922	32	4	141	4	SBDS	7	66456129	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08		66456129	92682534	84	36580										
PHTF2	57157	hgsc.bcm.edu;broad.mit.edu	37	chr7	77539715	77539715	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gatctctggcatgctgctttCtttttatcagggtttgtatt	9	7	3	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr7:77539715C>G	ENST00000248550.7	+	8	841	c.765C>G	c.(763-765)ttC>ttG	p.F255L	PHTF2_ENST00000415251.2_Missense_Mutation_p.F217L|PHTF2_ENST00000424760.1_Missense_Mutation_p.F217L|PHTF2_ENST00000450574.1_Missense_Mutation_p.F221L|PHTF2_ENST00000307305.8_Missense_Mutation_p.F217L|PHTF2_ENST00000275575.7_Missense_Mutation_p.F217L|PHTF2_ENST00000454592.1_3'UTR|PHTF2_ENST00000422959.2_Missense_Mutation_p.F221L|PHTF2_ENST00000416283.2_Missense_Mutation_p.F221L			Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	255					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)	DNA binding (GO:0003677)			endometrium(2)|kidney(3)|large_intestine(3)|lung(9)|ovary(1)|prostate(1)	19						ATGCTGCTTTCTTTTTATCAG	0.413																																																0													82	78	79					7																	77539715		1912	4141	6053	SO:0001583	missense	57157			AL136883	CCDS47621.1, CCDS47622.1, CCDS47623.1, CCDS47624.1	7q11.23-q21	2008-02-01			ENSG00000006576	ENSG00000006576			13411	protein-coding gene	gene with protein product						10729229	Standard	NM_020432		Approved	DKFZp434D166	uc003ugq.4	Q8N3S3	OTTHUMG00000155557	ENST00000248550.7:c.765C>G	7.37:g.77539715C>G	ENSP00000248550:p.Phe255Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A0JP04|A0JP05|A4D1C2|E9PEE3|G5E9H7|Q6NW35|Q8TBW4|Q9H099	Missense_Mutation	SNP	ENST00000248550.7	37		.	.	.	.	.	.	.	.	.	.	C	13.99	2.400678	0.42613	.	.	ENSG00000006576	ENST00000427986;ENST00000422959;ENST00000307305;ENST00000424760;ENST00000415251;ENST00000275575;ENST00000450574;ENST00000416283;ENST00000248550	.	.	.	5.5	5.5	0.81552	.	0.050270	0.85682	D	0.000000	T	0.53238	0.1784	N	0.24115	0.695	0.50313	D	0.999866	P;B;B;B;B;B;B;B;B	0.46859	0.885;0.114;0.105;0.066;0.105;0.447;0.141;0.172;0.172	P;B;B;B;B;B;B;B;B	0.48189	0.57;0.022;0.03;0.008;0.03;0.067;0.045;0.045;0.02	T	0.46247	-0.9205	9	0.23302	T	0.38	-12.6236	19.4005	0.94627	0.0:1.0:0.0:0.0	.	59;217;80;221;255;221;217;217;217	Q8WVD6;Q8N3S3-4;Q8N5I6;Q8N3S3-2;Q8N3S3;G5E9H7;Q8N3S3-3;B3KQZ2;E9PEE3	.;.;.;.;PHTF2_HUMAN;.;.;.;.	L	221;221;217;217;217;217;221;221;255	.	ENSP00000248550:F255L	F	+	3	2	PHTF2	77377651	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.493000	0.66899	2.591000	0.87537	0.655000	0.94253	TTC		0.413	PHTF2-006	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000340638.2	NM_020432		G	77539715	C	G	77539715	3	3	606	1	0	0	0	0	1	0	0	0	11870	912	32	4	689	4	PHTF2	7	77539715	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	11083586	77539715	81598948	85	36581										
MAGI2	9863	hgsc.bcm.edu;broad.mit.edu	37	chr7	77885410	77885410	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gccagggcatccctgaatgtCaagtatttgtttcacccgct	9	12	2	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr7:77885410C>G	ENST00000354212.4	-	10	2150	c.1897G>C	c.(1897-1899)Gac>Cac	p.D633H	MAGI2_ENST00000419488.1_Missense_Mutation_p.D633H|MAGI2_ENST00000522391.1_Missense_Mutation_p.D633H|MAGI2_ENST00000536571.1_Missense_Mutation_p.D465H|MAGI2_ENST00000535697.1_Missense_Mutation_p.D470H	NM_012301.3	NP_036433.2	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ domain containing 2	633	PDZ 3. {ECO:0000255|PROSITE- ProRule:PRU00143}.				cellular response to nerve growth factor stimulus (GO:1990090)|cytoplasmic transport (GO:0016482)|glomerular visceral epithelial cell development (GO:0072015)|mitotic cell cycle arrest (GO:0071850)|negative regulation of activin receptor signaling pathway (GO:0032926)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of protein kinase B signaling (GO:0051898)|nerve growth factor signaling pathway (GO:0038180)|planar cell polarity pathway involved in axis elongation (GO:0003402)|positive regulation of neuron projection development (GO:0010976)|positive regulation of phosphoprotein phosphatase activity (GO:0032516)|positive regulation of receptor internalization (GO:0002092)|protein heterooligomerization (GO:0051291)|receptor clustering (GO:0043113)|SMAD protein signal transduction (GO:0060395)	cytoplasm (GO:0005737)|dendrite (GO:0030425)|late endosome (GO:0005770)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|protein complex (GO:0043234)|slit diaphragm (GO:0036057)|synapse (GO:0045202)|tight junction (GO:0005923)	beta-1 adrenergic receptor binding (GO:0031697)|phosphatase binding (GO:0019902)|receptor signaling complex scaffold activity (GO:0030159)|signal transducer activity (GO:0004871)|SMAD binding (GO:0046332)|type II activin receptor binding (GO:0070699)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(12)|lung(37)|ovary(5)|prostate(1)|skin(8)|upper_aerodigestive_tract(1)|urinary_tract(3)	84		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				CCCTGAATGTCAAGTATTTGT	0.488																																																0													71	60	64					7																	77885410		2203	4300	6503	SO:0001583	missense	9863			AB014605	CCDS5594.1, CCDS75623.1	7q21	2005-08-09			ENSG00000187391	ENSG00000187391			18957	protein-coding gene	gene with protein product		606382				10681527, 9734811	Standard	XM_005250725		Approved	AIP1, ARIP1, KIAA0705, ACVRIP1, MAGI-2	uc003ugx.3	Q86UL8	OTTHUMG00000130697	ENST00000354212.4:c.1897G>C	7.37:g.77885410C>G	ENSP00000346151:p.Asp633His	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1C1|A7E2C3|O60434|O60510|Q86UI7|Q9NP44|Q9UDQ5|Q9UDU1	Missense_Mutation	SNP	ENST00000354212.4	37	CCDS5594.1	.	.	.	.	.	.	.	.	.	.	C	21.8	4.198609	0.79015	.	.	ENSG00000187391	ENST00000419488;ENST00000354212;ENST00000536298;ENST00000522391;ENST00000536571;ENST00000535697	T;T;T;T;T	0.26810	1.71;1.71;1.71;1.71;1.71	5.74	5.74	0.90152	PDZ/DHR/GLGF (4);	0.000000	0.38381	U	0.001709	T	0.58133	0.2101	M	0.85710	2.77	0.80722	D	1	D;D;D;D;D;D	0.89917	0.999;0.961;0.987;0.987;1.0;0.998	D;D;D;D;D;D	0.76575	0.979;0.94;0.93;0.93;0.988;0.944	T	0.63152	-0.6701	10	0.87932	D	0	.	18.9145	0.92499	0.0:1.0:0.0:0.0	.	470;465;633;633;633;633	F5GWH1;F5GWK7;B7Z4H4;E7EWI0;Q86UL8-2;Q86UL8	.;.;.;.;.;MAGI2_HUMAN	H	633;633;633;633;465;470	ENSP00000405766:D633H;ENSP00000346151:D633H;ENSP00000428389:D633H;ENSP00000441584:D465H;ENSP00000441603:D470H	ENSP00000346151:D633H	D	-	1	0	MAGI2	77723346	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.550000	0.82173	2.700000	0.92200	0.561000	0.74099	GAC		0.488	MAGI2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253197.3	NM_012301		G	77885410	C	G	77885410	3	3	606	1	0	0	0	0	1	0	0	0	9198	826	29	4	2522	4	MAGI2	7	77885410	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	345695	77885410	81253253	86	36582										
COL1A2	1278	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	94035021	94035021	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctggaactcctggacttcctGgcttcaaaggcattagggtg	12	10	1	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr7:94035021G>A	ENST00000297268.6	+	11	994	c.523G>A	c.(523-525)Ggc>Agc	p.G175S		NM_000089.3	NP_000080.2	P08123	CO1A2_HUMAN	collagen, type I, alpha 2	175					blood coagulation (GO:0007596)|blood vessel development (GO:0001568)|cellular response to amino acid stimulus (GO:0071230)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|leukocyte migration (GO:0050900)|odontogenesis (GO:0042476)|platelet activation (GO:0030168)|protein heterotrimerization (GO:0070208)|regulation of blood pressure (GO:0008217)|Rho protein signal transduction (GO:0007266)|skeletal system development (GO:0001501)|skin morphogenesis (GO:0043589)|transforming growth factor beta receptor signaling pathway (GO:0007179)	collagen type I trimer (GO:0005584)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	extracellular matrix structural constituent (GO:0005201)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|platelet-derived growth factor binding (GO:0048407)|protein binding, bridging (GO:0030674)		COL1A2/PLAG1(3)	NS(2)|breast(2)|central_nervous_system(4)|cervix(1)|endometrium(6)|kidney(8)|large_intestine(21)|lung(51)|ovary(2)|prostate(1)|skin(7)|stomach(1)|upper_aerodigestive_tract(8)|urinary_tract(1)	115	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	TGGACTTCCTGGCTTCAAAGG	0.373										HNSCC(75;0.22)																																						0													158	155	156					7																	94035021		2203	4299	6502	SO:0001583	missense	1278			Z74616	CCDS34682.1	7q21.3	2014-09-17	2002-02-13		ENSG00000164692	ENSG00000164692		"Collagens"	2198	protein-coding gene	gene with protein product	"alpha 2(I)-collagen", "alpha-2 collagen type I", "type I procollagen", "collagen I, alpha-2 polypeptide", "collagen of skin, tendon and bone, alpha-2 chain"	120160	"osteogenesis imperfecta type IV"	OI4		3857213, 2897363	Standard	NM_000089		Approved		uc003ung.1	P08123	OTTHUMG00000148675	ENST00000297268.6:c.523G>A	7.37:g.94035021G>A	ENSP00000297268:p.Gly175Ser	Somatic		WXS	Illumina HiSeq	Phase_I	P02464|Q13897|Q13997|Q13998|Q14038|Q14057|Q15177|Q15947|Q16480|Q16511|Q7Z5S6|Q9UEB6|Q9UEF9|Q9UM83|Q9UMI1|Q9UML5|Q9UMM6|Q9UPH0	Missense_Mutation	SNP	ENST00000297268.6	37	CCDS34682.1	.	.	.	.	.	.	.	.	.	.	G	22.8	4.343237	0.82022	.	.	ENSG00000164692	ENST00000297268;ENST00000545487	D	0.93659	-3.26	4.99	4.99	0.66335	.	0.000000	0.85682	D	0.000000	D	0.98330	0.9446	H	0.98833	4.345	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.99501	1.0953	10	0.87932	D	0	.	19.1584	0.93520	0.0:0.0:1.0:0.0	.	175	P08123	CO1A2_HUMAN	S	175;176	ENSP00000297268:G175S	ENSP00000297268:G175S	G	+	1	0	COL1A2	93872957	1.000000	0.71417	1.000000	0.80357	0.944000	0.59088	9.420000	0.97426	2.697000	0.92050	0.591000	0.81541	GGC		0.373	COL1A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000309045.2	NM_000089		A	94035021	G	A	94035021	3	1	606	1	0	0	0	0	1	0	0	0	3680	1348	47	2	565	2	COL1A2	7	94035021	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	16149611	94035021	65103642	87	36583										
TFR2	7036	broad.mit.edu	37	chr7	100239125	100239125	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tctggaatagaccccaaagcCgctccatgcttgtgtcccct	8	15	1	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr7:100239125C>T	ENST00000462107.1	-	2	295	c.8G>A	c.(7-9)cGg>cAg	p.R3Q	TFR2_ENST00000431692.1_Missense_Mutation_p.R3Q|TFR2_ENST00000223051.3_Missense_Mutation_p.R3Q			Q9UP52	TFR2_HUMAN	transferrin receptor 2	3					cellular iron ion homeostasis (GO:0006879)|iron ion transport (GO:0006826)|receptor-mediated endocytosis (GO:0006898)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)	transferrin receptor activity (GO:0004998)			central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(6)|liver(1)|lung(8)|ovary(1)|pancreas(1)|prostate(1)|skin(1)	23	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)				Gallium nitrate(DB05260)	ACCCCAAAGCCGCTCCATGCT	0.587																																																0													83	73	76					7																	100239125		2203	4300	6503	SO:0001583	missense	7036			AF053356	CCDS34707.1	7q22	2003-01-27			ENSG00000106327	ENSG00000106327			11762	protein-coding gene	gene with protein product		604720				9799793, 12130528	Standard	NM_003227		Approved	HFE3, TFRC2	uc003uvv.1	Q9UP52	OTTHUMG00000159598	ENST00000462107.1:c.8G>A	7.37:g.100239125C>T	ENSP00000420525:p.Arg3Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGM7|O75422|Q1HE13|Q9HA99|Q9NX67	Missense_Mutation	SNP	ENST00000462107.1	37	CCDS34707.1	.	.	.	.	.	.	.	.	.	.	C	12.68	2.010438	0.35511	.	.	ENSG00000106327	ENST00000223051;ENST00000431692;ENST00000462107	T;T;T	0.56444	0.55;0.46;0.55	4.63	-1.77	0.07982	.	0.842939	0.09703	N	0.766751	T	0.25606	0.0623	N	0.12182	0.205	0.22710	N	0.998822	B	0.13145	0.007	B	0.04013	0.001	T	0.22661	-1.0210	10	0.09338	T	0.73	-4.8853	5.2345	0.15439	0.0:0.3478:0.167:0.4852	.	3	Q9UP52	TFR2_HUMAN	Q	3	ENSP00000223051:R3Q;ENSP00000413905:R3Q;ENSP00000420525:R3Q	ENSP00000223051:R3Q	R	-	2	0	TFR2	100077061	0.937000	0.31787	0.826000	0.32828	0.792000	0.44763	-0.050000	0.11904	-0.621000	0.05633	-0.327000	0.08410	CGG		0.587	TFR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356392.3	NM_003227		T	100239125	C	T	100239125	3	4	606	1	0	0	0	0	1	0	0	0	15823	652	23	1	2469	1	TFR2	7	100239125	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	6204104	100239125	58899538	88	36584										
TAS2R41	259287	broad.mit.edu;bcgsc.ca	37	chr7	143175820	143175820	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	catcccttcatcctcatcttCagcaacctcaagcttcgaag	4	16	5	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr7:143175820C>T	ENST00000408916.1	+	1	855	c.855C>T	c.(853-855)ttC>ttT	p.F285F	EPHA1-AS1_ENST00000429289.1_RNA	NM_176883.2	NP_795364.2	P59536	T2R41_HUMAN	taste receptor, type 2, member 41	285					sensory perception of taste (GO:0050909)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)	p.F285F(1)		endometrium(2)|large_intestine(2)|lung(10)|pancreas(1)|prostate(2)|skin(1)	18	Melanoma(164;0.15)					TCCTCATCTTCAGCAACCTCA	0.502																																																1	Substitution - coding silent(1)	lung(1)											135	124	128					7																	143175820		2068	4201	6269	SO:0001819	synonymous_variant	259287			AF494232	CCDS43663.1	7q34	2012-08-22			ENSG00000221855	ENSG00000221855		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	18883	protein-coding gene	gene with protein product		613965				12379855	Standard	NM_176883		Approved	T2R59	uc003wdc.1	P59536	OTTHUMG00000155892	ENST00000408916.1:c.855C>T	7.37:g.143175820C>T		Somatic		WXS	Illumina HiSeq	Phase_I	P59550|Q495I2|Q50KJ5|Q50KJ6|Q50KJ7|Q645W7	Silent	SNP	ENST00000408916.1	37	CCDS43663.1																																																																																				0.502	TAS2R41-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342149.1			T	143175820	C	T	143175820	2	4	606	1	0	0	0	0	0	0	0	1	15591	825	29	2		2	TAS2R41	7	143175820	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	42936695	143175820	15962843	89	36585										
ATG9B	285973	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	150720230	150720230	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ttacttggttggttggcaaaGagaacattgtaatccacgca	10	7	0	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr7:150720230G>A	ENST00000377974.2	-	4	798	c.723C>T	c.(721-723)ctC>ctT	p.L241L	ATG9B_ENST00000444312.1_5'UTR|ATG9B_ENST00000494791.1_5'UTR|ATG9B_ENST00000605952.1_Silent_p.L241L|ATG9B_ENST00000605938.1_Silent_p.L241L			Q674R7	ATG9B_HUMAN	autophagy related 9B	241					autophagic vacuole assembly (GO:0000045)	autophagic vacuole (GO:0005776)|cytoplasmic vesicle (GO:0031410)|integral component of membrane (GO:0016021)				cervix(1)|endometrium(3)|kidney(2)|large_intestine(2)|lung(1)|ovary(4)|prostate(1)	14	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GGTTGGCAAAGAGAACATTGT	0.532																																																0													266	270	269					7																	150720230		2036	4201	6237	SO:0001819	synonymous_variant	285973			AK027791		7q36	2014-02-12	2012-06-06	2005-09-11	ENSG00000181652	ENSG00000181652			21899	protein-coding gene	gene with protein product		612205	"nitric oxide synthase 3 antisense", "ATG9 autophagy related 9 homolog B (S. cerevisiae)"	NOS3AS		15234981, 15755735	Standard	NM_173681		Approved	FLJ14885, APG9L2, SONE	uc011kvc.2	Q674R7	OTTHUMG00000158634	ENST00000377974.2:c.723C>T	7.37:g.150720230G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A1A5D3|Q6JRW5|Q8N8I8	Silent	SNP	ENST00000377974.2	37																																																																																					0.532	ATG9B-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_173681		A	150720230	G	A	150720230	2	1	606	1	0	0	0	0	0	0	0	1	1103	929	33	2		2	ATG9B	7	150720230	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	7544410	150720230	8418433	90	36586										
RP1L1	94137	hgsc.bcm.edu;broad.mit.edu	37	chr8	10468873	10468873	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	accccgcaccctggctggcaCtgcttctccttgatgcccct	8	19	1	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr8:10468873C>T	ENST00000382483.3	-	4	2958	c.2735G>A	c.(2734-2736)aGt>aAt	p.S912N		NM_178857.5	NP_849188.4	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	912					cell projection organization (GO:0030030)|intracellular signal transduction (GO:0035556)|photoreceptor cell development (GO:0042461)|photoreceptor cell maintenance (GO:0045494)|visual perception (GO:0007601)	axoneme (GO:0005930)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|photoreceptor connecting cilium (GO:0032391)|photoreceptor outer segment (GO:0001750)				breast(5)|central_nervous_system(2)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(4)|kidney(5)|large_intestine(16)|lung(82)|ovary(8)|prostate(5)|skin(6)|upper_aerodigestive_tract(4)|urinary_tract(3)	148				COAD - Colon adenocarcinoma(149;0.0811)		CTGGCTGGCACTGCTTCTCCT	0.716																																																0													12	16	15					8																	10468873		1930	4102	6032	SO:0001583	missense	94137			AY168346	CCDS43708.1	8p23.1	2011-12-06			ENSG00000183638	ENSG00000183638			15946	protein-coding gene	gene with protein product		608581				12634863	Standard	NM_178857		Approved	DCDC4B	uc003wtc.3	Q8IWN7	OTTHUMG00000163806	ENST00000382483.3:c.2735G>A	8.37:g.10468873C>T	ENSP00000371923:p.Ser912Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q86SQ1|Q8IWN8|Q8IWN9|Q8IWP0|Q8IWP1|Q8IWP2	Missense_Mutation	SNP	ENST00000382483.3	37	CCDS43708.1	.	.	.	.	.	.	.	.	.	.	C	6.313	0.425815	0.11987	.	.	ENSG00000183638	ENST00000382483	T	0.04156	3.69	4.6	2.64	0.31445	.	.	.	.	.	T	0.02970	0.0088	N	0.08118	0	0.09310	N	1	P	0.49961	0.93	P	0.44860	0.462	T	0.42949	-0.9421	9	0.38643	T	0.18	0.111	4.4393	0.11566	0.1583:0.6002:0.1536:0.0879	.	912	A6NKC6	.	N	912	ENSP00000371923:S912N	ENSP00000371923:S912N	S	-	2	0	RP1L1	10506283	0.001000	0.12720	0.001000	0.08648	0.060000	0.15804	1.033000	0.30191	1.107000	0.41642	0.313000	0.20887	AGT		0.716	RP1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375673.1			T	10468873	C	T	10468873	3	4	606	1	0	0	0	0	1	0	0	0	13546	565	20	2	4471	2	RP1L1	8	10468873	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08		10468873	135895149	91	36587										
PCM1	5108	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	17885162	17885162	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tcagaaacggtgggagcccaGagtatatgagatgtcttcag	13	7	3	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr8:17885162G>C	ENST00000519253.1	+	39	6293	c.6042G>C	c.(6040-6042)caG>caC	p.Q2014H	PCM1_ENST00000327578.8_Missense_Mutation_p.Q721H|PCM1_ENST00000325083.8_Missense_Mutation_p.Q2022H|PCM1_ENST00000524226.1_Missense_Mutation_p.Q1858H			Q15154	PCM1_HUMAN	pericentriolar material 1	2022	Interaction with BBS4.				centrosome organization (GO:0051297)|cilium assembly (GO:0042384)|cytoplasmic microtubule organization (GO:0031122)|G2/M transition of mitotic cell cycle (GO:0000086)|interkinetic nuclear migration (GO:0022027)|intraciliary transport involved in cilium morphogenesis (GO:0035735)|microtubule anchoring (GO:0034453)|microtubule anchoring at centrosome (GO:0034454)|mitotic cell cycle (GO:0000278)|negative regulation of neurogenesis (GO:0050768)|neuronal stem cell maintenance (GO:0097150)|positive regulation of intracellular protein transport (GO:0090316)|protein localization to centrosome (GO:0071539)	centriolar satellite (GO:0034451)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nuclear membrane (GO:0031965)|pericentriolar material (GO:0000242)|protein complex (GO:0043234)	identical protein binding (GO:0042802)		PCM1/JAK2(30)	breast(4)|endometrium(8)|kidney(5)|large_intestine(16)|lung(11)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	48				Colorectal(111;0.0789)		TGGGAGCCCAGAGTATATGAG	0.303			T	"RET, JAK2"	"papillary thyroid, CML, MPD"																																		Dom	yes		8	8p22-p21.3	5108	pericentriolar material 1  (PTC4)		"E, L"	0													52	51	51					8																	17885162		1794	4062	5856	SO:0001583	missense	5108				CCDS47812.1	8p22-p21.3	2008-08-08			ENSG00000078674	ENSG00000078674			8727	protein-coding gene	gene with protein product		600299				8120099, 15659651	Standard	NM_006197		Approved	PTC4	uc003wyi.4	Q15154	OTTHUMG00000163699	ENST00000519253.1:c.6042G>C	8.37:g.17885162G>C	ENSP00000431099:p.Gln2014His	Somatic		WXS	Illumina HiSeq	Phase_I	Q58F13|Q6P1K7|Q8NB85|Q9BWC1|Q9H4A2	Missense_Mutation	SNP	ENST00000519253.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	10.24|10.24	1.296731|1.296731	0.23650|0.23650	.|.	.|.	ENSG00000078674|ENSG00000078674	ENST00000325083;ENST00000519253;ENST00000524226;ENST00000327578|ENST00000522275	T;T;T;T|.	0.22945|.	3.3;3.3;3.0;1.93|.	5.51|5.51	-6.77|-6.77	0.01727|0.01727	.|.	0.261946|.	0.40302|.	N|.	0.001133|.	T|T	0.25195|0.25195	0.0612|0.0612	N|N	0.20986|0.20986	0.625|0.625	0.29276|0.29276	N|N	0.870346|0.870346	B;B;B;B;B;B;B|.	0.06786|.	0.001;0.001;0.001;0.001;0.001;0.001;0.001|.	B;B;B;B;B;B;B|.	0.08055|.	0.003;0.003;0.003;0.003;0.003;0.003;0.003|.	T|T	0.35101|0.35101	-0.9802|-0.9802	10|5	0.87932|.	D|.	0|.	-2.5298|-2.5298	8.8371|8.8371	0.35119|0.35119	0.2748:0.2274:0.4978:0.0|0.2748:0.2274:0.4978:0.0	.|.	2014;2022;821;2014;1967;1858;2022|.	B9EIS5;D3DSQ0;B4DJ00;E7ETA6;Q15154-2;E7EV56;Q15154|.	.;.;.;.;.;.;PCM1_HUMAN|.	H|T	2022;2014;1858;721|762	ENSP00000327077:Q2022H;ENSP00000431099:Q2014H;ENSP00000430521:Q1858H;ENSP00000328332:Q721H|.	ENSP00000327077:Q2022H|.	Q|R	+|+	3|2	2|0	PCM1|PCM1	17929442|17929442	0.944000|0.944000	0.32072|0.32072	0.012000|0.012000	0.15200|0.15200	0.629000|0.629000	0.37895|0.37895	-0.012000|-0.012000	0.12699|0.12699	-1.249000|-1.249000	0.02500|0.02500	-0.302000|-0.302000	0.09304|0.09304	CAG|AGA		0.303	PCM1-003	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000374800.1	NM_006197		C	17885162	G	C	17885162	3	2	606	1	0	0	0	0	1	0	0	0	11591	933	33	4	6212	4	PCM1	8	17885162	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	7416289	17885162	128478860	92	36588										
EBF2	64641	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	25890622	25890622	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgtcaattatgactgggtccGatggagtctcatttcggttt	11	7	2	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr8:25890622G>C	ENST00000520164.1	-	6	1067	c.530C>G	c.(529-531)tCg>tGg	p.S177W	EBF2_ENST00000408929.3_Missense_Mutation_p.S29W	NM_022659.3	NP_073150.2	Q9HAK2	COE2_HUMAN	early B-cell factor 2	177					adipose tissue development (GO:0060612)|brown fat cell differentiation (GO:0050873)|cell fate determination (GO:0001709)|positive regulation of chromatin binding (GO:0035563)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(3)|kidney(2)|large_intestine(3)|lung(22)|ovary(3)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	39		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		GACTGGGTCCGATGGAGTCTC	0.388																																					Esophageal Squamous(166;1018 1046 3854 8328 13429 13634 14071 26624 32918)											0													139	138	138					8																	25890622		1949	4188	6137	SO:0001583	missense	64641			AK021562, AK001144	CCDS43726.1	8p21.1	2007-07-26			ENSG00000221818	ENSG00000221818			19090	protein-coding gene	gene with protein product		609934				9151732	Standard	NM_022659		Approved	FLJ11500, COE2	uc003xes.2	Q9HAK2	OTTHUMG00000163838	ENST00000520164.1:c.530C>G	8.37:g.25890622G>C	ENSP00000430241:p.Ser177Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJM4|A6NMF7|F5H645|Q66VZ3|Q6DK36|Q6IS86|Q6ISA4	Missense_Mutation	SNP	ENST00000520164.1	37	CCDS43726.1	.	.	.	.	.	.	.	.	.	.	G	22.4	4.281973	0.80692	.	.	ENSG00000221818	ENST00000520164;ENST00000408929	T;T	0.57273	0.47;0.41	6.17	5.27	0.74061	.	0.000000	0.64402	U	0.000001	T	0.76234	0.3959	M	0.84948	2.725	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.79232	-0.1888	10	0.87932	D	0	-4.121	17.6654	0.88201	0.0:0.1224:0.8776:0.0	.	177	Q9HAK2	COE2_HUMAN	W	177;29	ENSP00000430241:S177W;ENSP00000386178:S29W	ENSP00000386178:S29W	S	-	2	0	EBF2	25946539	1.000000	0.71417	0.917000	0.36280	0.772000	0.43724	7.624000	0.83124	2.941000	0.99782	0.655000	0.94253	TCG		0.388	EBF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375886.2	NM_022659		C	25890622	G	C	25890622	3	2	606	1	0	0	0	0	1	0	0	0	4883	1059	37	4	1241	4	EBF2	8	25890622	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	8005460	25890622	120473400	93	36589										
MATN2	4147	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	99019720	99019720	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tttgcaggggtggattactgCctgctgagtgaccatggttg	15	7	0	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr8:99019720C>T	ENST00000520016.1	+	9	1588	c.1464C>T	c.(1462-1464)tgC>tgT	p.C488C	MATN2_ENST00000521689.1_Silent_p.C488C|MATN2_ENST00000524308.1_Silent_p.C447C|MATN2_ENST00000522025.2_Silent_p.C204C|MATN2_ENST00000254898.5_Silent_p.C488C			O00339	MATN2_HUMAN	matrilin 2	488	EGF-like 7. {ECO:0000255|PROSITE- ProRule:PRU00076}.					proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)			breast(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(17)|ovary(2)|urinary_tract(1)	31	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			TGGATTACTGCCTGCTGAGTG	0.547																																																0													131	130	131					8																	99019720		2069	4211	6280	SO:0001819	synonymous_variant	4147			U69263	CCDS55264.1, CCDS55265.1	8q22.1-q22.2	2008-05-15							6908	protein-coding gene	gene with protein product		602108				9083061, 11852232	Standard	XM_005250920		Approved		uc003yic.3	O00339		ENST00000520016.1:c.1464C>T	8.37:g.99019720C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K106|E7EW74|E9PD48|E9PGL2|Q6UWA5|Q7Z5X1|Q8NDE6|Q96FT5|Q9NSZ1	Silent	SNP	ENST00000520016.1	37	CCDS55264.1	.	.	.	.	.	.	.	.	.	.	C	9.120	1.008646	0.19199	.	.	ENSG00000132561	ENST00000518154	.	.	.	5.65	4.77	0.60923	.	.	.	.	.	T	0.63827	0.2544	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.62407	-0.6861	4	.	.	.	-23.2752	12.1976	0.54307	0.0:0.9189:0.0:0.0811	.	.	.	.	S	271	.	.	P	+	1	0	MATN2	99088896	1.000000	0.71417	1.000000	0.80357	0.959000	0.62525	1.602000	0.36783	1.393000	0.46605	0.655000	0.94253	CCT		0.547	MATN2-004	KNOWN	non_canonical_conserved|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000380332.1			T	99019720	C	T	99019720	2	4	606	1	0	0	0	0	0	0	0	1	9341	747	26	2		2	MATN2	8	99019720	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	73129098	99019720	47344302	94	36590										
TG	7038	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	133945814	133945814	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tggtgcttgcagattgcacaGaggacgaggcctgcagcttc	14	10	0	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr8:133945814G>A	ENST00000220616.4	+	24	4865	c.4825G>A	c.(4825-4827)Gag>Aag	p.E1609K	TG_ENST00000377869.1_Missense_Mutation_p.E1552K|TG_ENST00000542445.1_Missense_Mutation_p.E43K	NM_003235.4	NP_003226.4	P01266	THYG_HUMAN	thyroglobulin	1609					hormone biosynthetic process (GO:0042446)|iodide transport (GO:0015705)|regulation of myelination (GO:0031641)|signal transduction (GO:0007165)|thyroid gland development (GO:0030878)|thyroid hormone generation (GO:0006590)	extracellular region (GO:0005576)|extracellular space (GO:0005615)				NS(1)|breast(11)|central_nervous_system(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(34)|liver(2)|lung(59)|ovary(9)|pancreas(2)|prostate(6)|skin(7)|stomach(4)|upper_aerodigestive_tract(4)|urinary_tract(8)	168	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AGATTGCACAGAGGACGAGGC	0.582																																																0													237	176	197					8																	133945814		2203	4300	6503	SO:0001583	missense	7038			AU141420	CCDS34944.1	8q24	2012-10-02			ENSG00000042832	ENSG00000042832			11764	protein-coding gene	gene with protein product		188450					Standard	NM_003235		Approved	TGN, AITD3	uc003ytw.3	P01266	OTTHUMG00000164649	ENST00000220616.4:c.4825G>A	8.37:g.133945814G>A	ENSP00000220616:p.Glu1609Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O15274|O43899|Q15593|Q15948|Q9NYR1|Q9NYR2|Q9UMZ0|Q9UNY3	Missense_Mutation	SNP	ENST00000220616.4	37	CCDS34944.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	0.015|0.015	-1.564449|-1.564449	0.00903|0.00903	.|.	.|.	ENSG00000042832|ENSG00000042832	ENST00000377869;ENST00000543313;ENST00000220616;ENST00000542445|ENST00000519178	T;T;T|.	0.63417|.	-0.04;-0.04;-0.04|.	5.3|5.3	-6.81|-6.81	0.01704|0.01704	.|.	2.263600|.	0.01555|.	N|.	0.019854|.	T|T	0.14056|0.14056	0.0340|0.0340	N|N	0.14661|0.14661	0.345|0.345	0.09310|0.09310	N|N	1|1	B;B|.	0.06786|.	0.001;0.001|.	B;B|.	0.04013|.	0.001;0.001|.	T|T	0.24764|0.24764	-1.0151|-1.0151	10|5	0.06099|.	T|.	0.92|.	.|.	1.784|1.784	0.03038|0.03038	0.3015:0.2787:0.305:0.1148|0.3015:0.2787:0.305:0.1148	.|.	43;1609|.	F5GWW5;P01266|.	.;THYG_HUMAN|.	K|K	1552;415;1609;43|128	ENSP00000367100:E1552K;ENSP00000220616:E1609K;ENSP00000441693:E43K|.	ENSP00000220616:E1609K|.	E|R	+|+	1|2	0|0	TG|TG	134014996|134014996	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.002000|0.002000	0.02628|0.02628	-0.841000|-0.841000	0.04359|0.04359	-0.900000|-0.900000	0.03896|0.03896	-0.154000|-0.154000	0.13518|0.13518	GAG|AGA		0.582	TG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379606.1	NM_003235		A	133945814	G	A	133945814	3	1	606	1	0	0	0	0	1	0	0	0	15825	943	33	2	4919	2	TG	8	133945814	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	34926094	133945814	12418208	95	36591										
BAI1	575	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	143603450	143603450	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cctccggaaccgcctcatccGcaagcgcttcctctgcctgg	9	19	2	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr8:143603450G>A	ENST00000517894.1	+	21	4043	c.3149G>A	c.(3148-3150)cGc>cAc	p.R1050H	BAI1_ENST00000323289.5_Missense_Mutation_p.R1050H			O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	1050					axonogenesis (GO:0007409)|cell adhesion (GO:0007155)|G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cell proliferation (GO:0008285)|neuropeptide signaling pathway (GO:0007218)|peripheral nervous system development (GO:0007422)|signal transduction (GO:0007165)	cell-cell junction (GO:0005911)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(2)|lung(28)|ovary(4)|pancreas(1)|prostate(7)	57	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)					CGCCTCATCCGCAAGCGCTTC	0.652																																																0													30	40	37					8																	143603450		2200	4299	6499	SO:0001583	missense	575			AB005297	CCDS64985.1	8q24.3	2014-08-08			ENSG00000181790	ENSG00000181790		"-", "GPCR / Class B : Orphans"	943	protein-coding gene	gene with protein product		602682				9533023	Standard	NM_001702		Approved		uc003ywm.3	O14514	OTTHUMG00000164732	ENST00000517894.1:c.3149G>A	8.37:g.143603450G>A	ENSP00000430945:p.Arg1050His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000517894.1	37		.	.	.	.	.	.	.	.	.	.	G	28.6	4.933063	0.92458	.	.	ENSG00000181790	ENST00000517894;ENST00000323289	T;T	0.39787	1.06;1.06	3.78	3.78	0.43462	.	0.156800	0.43110	U	0.000612	T	0.51024	0.1650	L	0.46947	1.48	0.58432	D	0.999997	D	0.60160	0.987	P	0.56648	0.803	T	0.57493	-0.7802	10	0.87932	D	0	.	14.6053	0.68475	0.0:0.0:1.0:0.0	.	1050	E9PBK0	.	H	1050	ENSP00000430945:R1050H;ENSP00000313046:R1050H	ENSP00000313046:R1050H	R	+	2	0	BAI1	143600452	1.000000	0.71417	1.000000	0.80357	0.919000	0.55068	7.618000	0.83043	1.641000	0.50575	0.305000	0.20034	CGC		0.652	BAI1-001	KNOWN	non_canonical_conserved|not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000379963.3	NM_001702		A	143603450	G	A	143603450	3	1	606	1	0	0	0	0	1	0	0	0	1298	1087	38	1	3227	1	BAI1	8	143603450	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	9657636	143603450	2760572	96	36592										
FRMPD1	22844	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	37729833	37729833	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ggctgcacctgctgcacgaaGaggaactcatccagcaggta	12	12	1	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr9:37729833G>A	ENST00000539465.1	+	8	1314	c.721G>A	c.(721-723)Gag>Aag	p.E241K	FRMPD1_ENST00000377765.3_Missense_Mutation_p.E241K|RP11-613M10.9_ENST00000540557.1_Intron|FRMPD1_ENST00000541302.1_Missense_Mutation_p.E110K|FRMPD1_ENST00000536622.1_Missense_Mutation_p.E63K			Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	241	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.					cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)				NS(3)|breast(2)|central_nervous_system(2)|endometrium(5)|kidney(4)|large_intestine(22)|lung(34)|ovary(5)|prostate(3)|skin(8)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	93				GBM - Glioblastoma multiforme(29;0.00655)		GCTGCACGAAGAGGAACTCAT	0.602																																																0													93	75	81					9																	37729833		2203	4300	6503	SO:0001583	missense	22844			AB023184	CCDS6612.1	9p13.1	2008-02-05			ENSG00000070601	ENSG00000070601			29159	protein-coding gene	gene with protein product						10231032	Standard	NM_014907		Approved	KIAA0967, FRMD2	uc004aag.1	Q5SYB0	OTTHUMG00000019927	ENST00000539465.1:c.721G>A	9.37:g.37729833G>A	ENSP00000444411:p.Glu241Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZC8|B7Z807|D3DRQ3|Q14C73|Q5HY96|Q9Y2H3	Missense_Mutation	SNP	ENST00000539465.1	37	CCDS6612.1	.	.	.	.	.	.	.	.	.	.	G	29.6	5.020484	0.93462	.	.	ENSG00000070601	ENST00000377765;ENST00000539465;ENST00000536622;ENST00000541302	D;D;D;D	0.85955	-2.05;-2.05;-2.05;-2.05	5.64	5.64	0.86602	FERM, N-terminal (1);Band 4.1 domain (1);FERM domain (1);	0.105447	0.64402	D	0.000005	D	0.88973	0.6583	L	0.39898	1.24	0.80722	D	1	D;D	0.71674	0.982;0.998	P;D	0.71870	0.871;0.975	D	0.88259	0.2922	10	0.44086	T	0.13	-21.3858	17.1917	0.86881	0.0:0.0:1.0:0.0	.	110;241	B4DZC8;Q5SYB0	.;FRPD1_HUMAN	K	241;241;63;110	ENSP00000366995:E241K;ENSP00000444411:E241K;ENSP00000437762:E63K;ENSP00000444804:E110K	ENSP00000366995:E241K	E	+	1	0	FRMPD1	37719833	1.000000	0.71417	1.000000	0.80357	0.896000	0.52359	9.301000	0.96167	2.666000	0.90696	0.655000	0.94253	GAG		0.602	FRMPD1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402969.1	NM_014907		A	37729833	G	A	37729833	3	1	606	1	0	0	0	0	1	0	0	0	6064	943	33	2	747	2	FRMPD1	9	37729833	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08		37729833	103483598	97	36593										
TRPM3	80036	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	73151243	73151243	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cagttctgcttctcgctctgGatggcagcaagttaagtcct	10	11	3	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr9:73151243G>C	ENST00000377110.3	-	25	4993	c.4750C>G	c.(4750-4752)Cca>Gca	p.P1584A	TRPM3_ENST00000377111.2_Intron|TRPM3_ENST00000423814.3_Missense_Mutation_p.P1611A|TRPM3_ENST00000360823.2_Missense_Mutation_p.P1446A|TRPM3_ENST00000357533.2_Missense_Mutation_p.P1588A|TRPM3_ENST00000396285.1_Missense_Mutation_p.P1443A|TRPM3_ENST00000396292.4_Missense_Mutation_p.P1456A|TRPM3_ENST00000377106.1_Missense_Mutation_p.P1456A|TRPM3_ENST00000377105.1_Missense_Mutation_p.P1443A|TRPM3_ENST00000396280.5_Missense_Mutation_p.P1433A|TRPM3_ENST00000358082.3_Missense_Mutation_p.P1446A|TRPM3_ENST00000408909.2_Missense_Mutation_p.P1443A			Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel, subfamily M, member 3	1609					calcium ion transmembrane transport (GO:0070588)|cation transport (GO:0006812)|detection of temperature stimulus (GO:0016048)|ion transmembrane transport (GO:0034220)|sensory perception of temperature stimulus (GO:0050951)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium activated cation channel activity (GO:0005227)|calcium channel activity (GO:0005262)|cation channel activity (GO:0005261)			NS(2)|breast(4)|central_nervous_system(2)|endometrium(6)|kidney(1)|large_intestine(18)|liver(1)|lung(46)|ovary(3)|pancreas(2)|prostate(5)|skin(4)|urinary_tract(1)	95						TCTCGCTCTGGATGGCAGCAA	0.542																																																0													128	119	122					9																	73151243		2203	4300	6503	SO:0001583	missense	80036			AB046836	CCDS6634.1, CCDS6635.1, CCDS6636.1, CCDS6637.1, CCDS43835.1, CCDS65064.1	9q21.11	2011-12-14			ENSG00000083067	ENSG00000083067		"Voltage-gated ion channels / Transient receptor potential cation channels"	17992	protein-coding gene	gene with protein product	"melastatin 2"	608961				16382100	Standard	NM_206946		Approved	KIAA1616, LTRPC3, GON-2	uc004aid.3	Q9HCF6	OTTHUMG00000019997	ENST00000377110.3:c.4750C>G	9.37:g.73151243G>C	ENSP00000366314:p.Pro1584Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3F6|A9Z1Y7|Q5VW02|Q5VW03|Q5VW04|Q5W5T7|Q86SH0|Q86SH6|Q86UL0|Q86WK1|Q86WK2|Q86WK3|Q86WK4|Q86YZ9|Q86Z00|Q86Z01|Q9H0X2	Missense_Mutation	SNP	ENST00000377110.3	37	CCDS43835.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	13.42|13.42	2.233192|2.233192	0.39498|0.39498	.|.	.|.	ENSG00000083067|ENSG00000083067	ENST00000377110;ENST00000377106;ENST00000360823;ENST00000377105;ENST00000357533;ENST00000408909;ENST00000396285;ENST00000396292;ENST00000358082;ENST00000423814|ENST00000396280	T;T;T;T;T;T;T;T;T;T|.	0.57107|.	0.54;0.45;0.44;0.43;0.54;0.43;0.42;0.45;0.44;0.54|.	5.87|5.87	5.87|5.87	0.94306|0.94306	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.61236|0.61236	0.2331|0.2331	L|L	0.32530|0.32530	0.975|0.975	0.58432|0.58432	D|D	0.999999|0.999999	D;B;D;D;D;D;D|.	0.76494|.	0.999;0.311;0.999;0.999;0.999;0.999;0.999|.	D;B;D;D;D;D;D|.	0.83275|.	0.996;0.147;0.991;0.991;0.996;0.996;0.991|.	T|T	0.52909|0.52909	-0.8512|-0.8512	10|5	0.10636|.	T|.	0.68|.	-14.3964|-14.3964	20.2181|20.2181	0.98305|0.98305	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	1584;1574;1588;1446;1443;1556;1443|.	Q9HCF6-2;Q9HCF6-4;A2A3F7;A2A3F4;G5E9G1;Q9HCF6-8;A2A3F3|.	.;.;.;.;.;.;.|.	A|C	1584;1456;1446;1443;1588;1443;1443;1456;1446;1611|1432	ENSP00000366314:P1584A;ENSP00000366310:P1456A;ENSP00000354066:P1446A;ENSP00000366309:P1443A;ENSP00000350140:P1588A;ENSP00000386127:P1443A;ENSP00000379581:P1443A;ENSP00000379587:P1456A;ENSP00000350791:P1446A;ENSP00000389542:P1611A|.	ENSP00000350140:P1588A|.	P|S	-|-	1|2	0|0	TRPM3|TRPM3	72341063|72341063	1.000000|1.000000	0.71417|0.71417	0.970000|0.970000	0.41538|0.41538	0.972000|0.972000	0.66771|0.66771	9.230000|9.230000	0.95299|0.95299	2.785000|2.785000	0.95823|0.95823	0.655000|0.655000	0.94253|0.94253	CCA|TCC		0.542	TRPM3-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214158.3	NM_206945		C	73151243	G	C	73151243	3	2	606	1	0	0	0	0	1	0	0	0	16599	1174	41	4	377	4	TRPM3	9	73151243	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	35421410	73151243	68062188	98	36594										
C5	727	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	123783919	123783919	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	acatcaattgtttgtgcattCagtgttactgggactcctcc	8	10	2	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr9:123783919C>G	ENST00000223642.1	-	11	1199	c.1170G>C	c.(1168-1170)ctG>ctC	p.L390L		NM_001735.2	NP_001726.2	P01031	CO5_HUMAN	complement component 5	390					activation of MAPK activity (GO:0000187)|cell chemotaxis (GO:0060326)|cell surface receptor signaling pathway (GO:0007166)|cellular calcium ion homeostasis (GO:0006874)|chemotaxis (GO:0006935)|complement activation (GO:0006956)|complement activation, alternative pathway (GO:0006957)|complement activation, classical pathway (GO:0006958)|cytolysis (GO:0019835)|G-protein coupled receptor signaling pathway (GO:0007186)|glucose homeostasis (GO:0042593)|in utero embryonic development (GO:0001701)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|leukocyte migration involved in inflammatory response (GO:0002523)|negative regulation of dopamine secretion (GO:0033602)|negative regulation of macrophage chemotaxis (GO:0010760)|negative regulation of norepinephrine secretion (GO:0010700)|positive regulation of angiogenesis (GO:0045766)|positive regulation of chemokine secretion (GO:0090197)|positive regulation of chemotaxis (GO:0050921)|positive regulation vascular endothelial growth factor production (GO:0010575)|regulation of complement activation (GO:0030449)|response to stress (GO:0006950)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane attack complex (GO:0005579)	chemokine activity (GO:0008009)|endopeptidase inhibitor activity (GO:0004866)|receptor binding (GO:0005102)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(7)|kidney(2)|large_intestine(14)|lung(5)|ovary(2)|prostate(4)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	46				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)|Intravenous Immunoglobulin(DB00028)	TTTGTGCATTCAGTGTTACTG	0.403																																																0													201	182	188					9																	123783919		2203	4300	6503	SO:0001819	synonymous_variant	727			M57729	CCDS6826.1	9q33-q34	2014-09-17			ENSG00000106804	ENSG00000106804		"Complement system", "Endogenous ligands"	1331	protein-coding gene	gene with protein product	"prepro-C5", "C5a anaphylatoxin"	120900					Standard	NM_001735		Approved	CPAMD4, C5a, C5b	uc004bkv.3	P01031	OTTHUMG00000020579	ENST00000223642.1:c.1170G>C	9.37:g.123783919C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q14CJ0|Q27I61	Silent	SNP	ENST00000223642.1	37	CCDS6826.1																																																																																				0.403	C5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053844.1	NM_001735		G	123783919	C	G	123783919	2	3	606	1	0	0	0	0	0	0	0	1	2282	813	29	4		4	C5	9	123783919	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	50632676	123783919	17429512	99	36595										
DDX31	64794	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	135545615	135545615	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gaagctctctgaatgcctctGagaagcgagatccggcgcca	12	12	2	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr9:135545615G>C	ENST00000372159.3	-	1	173	c.22C>G	c.(22-24)Cag>Gag	p.Q8E	GTF3C4_ENST00000372146.4_5'UTR|DDX31_ENST00000544003.1_5'Flank|DDX31_ENST00000372153.1_Missense_Mutation_p.Q8E|DDX31_ENST00000480876.1_5'UTR|DDX31_ENST00000310532.2_Missense_Mutation_p.Q8E|GTF3C4_ENST00000483873.2_5'UTR	NM_022779.7	NP_073616.6	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	8						nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(2)|endometrium(4)|kidney(3)|large_intestine(4)|lung(10)|prostate(1)|skin(1)|urinary_tract(1)	27				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)		GAATGCCTCTGAGAAGCGAGA	0.622																																																0													24	22	23					9																	135545615		2163	4206	6369	SO:0001583	missense	64794			AF427339	CCDS6951.1, CCDS6952.1	9q34.2	2012-04-17	2003-06-13		ENSG00000125485	ENSG00000125485		"DEAD-boxes", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	16715	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 25"		"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 31"				Standard	NM_022779		Approved	FLJ13633, FLJ23349, FLJ14578, PPP1R25	uc004cbq.1	Q9H8H2	OTTHUMG00000020843	ENST00000372159.3:c.22C>G	9.37:g.135545615G>C	ENSP00000361232:p.Gln8Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5K6N2|Q5K6N3|Q5K6N4|Q5VZJ4|Q5VZJ9|Q96E91|Q96NY2|Q96SX5|Q9H5K6	Missense_Mutation	SNP	ENST00000372159.3	37	CCDS6951.1	.	.	.	.	.	.	.	.	.	.	G	11.25	1.582024	0.28180	.	.	ENSG00000125485	ENST00000372159;ENST00000372155;ENST00000372153;ENST00000310532	T;T;T	0.05199	4.34;3.88;3.48	3.16	-1.78	0.07957	.	.	.	.	.	T	0.03220	0.0094	N	0.14661	0.345	0.20638	N	0.999874	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.04013	0.0;0.001;0.0	T	0.43637	-0.9379	9	0.34782	T	0.22	.	3.7708	0.08640	0.2994:0.3994:0.3012:0.0	.	8;8;8	Q9H8H2-2;Q9H8H2-3;Q9H8H2	.;.;DDX31_HUMAN	E	8	ENSP00000361232:Q8E;ENSP00000361226:Q8E;ENSP00000310539:Q8E	ENSP00000310539:Q8E	Q	-	1	0	DDX31	134535436	0.000000	0.05858	0.000000	0.03702	0.045000	0.14185	0.320000	0.19540	-0.347000	0.08299	0.462000	0.41574	CAG		0.622	DDX31-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000054794.1	NM_138620		C	135545615	G	C	135545615	3	2	606	1	0	0	0	0	1	0	0	0	4358	1299	45	4	2620	4	DDX31	9	135545615	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	11761696	135545615	5667816	100	36596										
KCNT1	402381	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	138594186	138594186	+	5'Flank	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gctacaccaaccggaccttcGagtttgacgacggccaatgc	10	14	0	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr9:138594186G>C	ENST00000298466.5	-	0	0				KCNT1_ENST00000298480.5_Missense_Mutation_p.E28Q|KCNT1_ENST00000371757.2_Missense_Mutation_p.E28Q|SOHLH1_ENST00000425225.1_5'Flank|KCNT1_ENST00000487664.1_Missense_Mutation_p.E28Q	NM_001012415.2	NP_001012415	Q5JUK2	SOLH1_HUMAN	spermatogenesis and oogenesis specific basic helix-loop-helix 1						oogenesis (GO:0048477)|ovarian follicle development (GO:0001541)|positive regulation of transcription, DNA-templated (GO:0045893)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(1)|lung(5)|prostate(1)	12		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.66e-07)|Epithelial(140;1.11e-06)|all cancers(34;6.45e-05)		CCGGACCTTCGAGTTTGACGA	0.726																																																0													22	27	25					9																	138594186		2200	4297	6497	SO:0001631	upstream_gene_variant	57582			BC031861	CCDS35174.1, CCDS48054.1	9q34.3	2013-05-21	2006-03-16	2006-03-16	ENSG00000165643	ENSG00000165643		"Basic helix-loop-helix proteins"	27845	protein-coding gene	gene with protein product	"spermatogenesis associated 27"	610224	"chromosome 9 open reading frame 157"	C9orf157		12477932	Standard	NM_001012415		Approved	NOHLH, TEB2, bA100C15.3, bHLHe80, SPATA27	uc010nbe.3	Q5JUK2	OTTHUMG00000020915		9.37:g.138594186G>C	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	C9JG81|Q5EE14|Q5EGC2|Q8NEE3	Missense_Mutation	SNP	ENST00000298466.5	37	CCDS35174.1	.	.	.	.	.	.	.	.	.	.	G	10.15	1.270987	0.23221	.	.	ENSG00000107147	ENST00000487664;ENST00000298480;ENST00000371757	T;T;T	0.22336	1.98;1.96;1.96	2.17	2.17	0.27698	.	.	.	.	.	T	0.08582	0.0213	N	0.08118	0	0.80722	D	1	B;P	0.34757	0.315;0.467	B;B	0.26517	0.049;0.07	T	0.21861	-1.0233	9	0.41790	T	0.15	.	7.9137	0.29806	0.0:0.0:1.0:0.0	.	28;28	B9EGP2;G5E9V0	.;.	Q	28	ENSP00000417851:E28Q;ENSP00000298480:E28Q;ENSP00000360822:E28Q	ENSP00000298480:E28Q	E	+	1	0	KCNT1	137734007	0.552000	0.26505	0.891000	0.34965	0.007000	0.05969	1.839000	0.39220	1.514000	0.48869	0.650000	0.86243	GAG		0.726	SOHLH1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000055018.2	NM_001012415		C	138594186	G	C	138594186	1	2	606	0	1	0	0	0	0	0	0	0	8098	1059	37	4		4	KCNT1	9	138594186	5'Flank	SNP	G	TCGA-HE-7130-01A-11D-1961-08	3048571	138594186	2619245	101	36597										
CLIC3	9022	broad.mit.edu;bcgsc.ca	37	chr9	139890192	139890192	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gaggggcagtgacccacgctCtccccgtcctcactcgcctg	11	18	2	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr9:139890192C>G	ENST00000494426.1	-	2	310	c.51G>C	c.(49-51)gaG>gaC	p.E17D	CLIC3_ENST00000480181.1_5'UTR	NM_004669.2	NP_004660.2	O95833	CLIC3_HUMAN	chloride intracellular channel 3	17	GST N-terminal.|Required for insertion into the membrane. {ECO:0000250}.				chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|signal transduction (GO:0007165)	chloride channel complex (GO:0034707)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	chloride channel activity (GO:0005254)|voltage-gated chloride channel activity (GO:0005247)			lung(1)|skin(1)	2	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GACCCACGCTCTCCCCGTCCT	0.706																																																0													37	32	33					9																	139890192		2179	4283	6462	SO:0001583	missense	9022			AF102166	CCDS7021.1	9q34.3	2012-09-26			ENSG00000169583	ENSG00000169583		"Ion channels / Chloride channels : Intracellular"	2064	protein-coding gene	gene with protein product		606533				9880541	Standard	NM_004669		Approved		uc004ckj.1	O95833	OTTHUMG00000020954	ENST00000494426.1:c.51G>C	9.37:g.139890192C>G	ENSP00000419378:p.Glu17Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SPZ7	Missense_Mutation	SNP	ENST00000494426.1	37	CCDS7021.1	.	.	.	.	.	.	.	.	.	.	C	14.46	2.541433	0.45280	.	.	ENSG00000169583	ENST00000494426	T	0.25749	1.78	3.99	3.99	0.46301	Thioredoxin-like fold (2);	0.052675	0.64402	D	0.000001	T	0.29061	0.0722	M	0.63428	1.95	0.45676	D	0.998592	B	0.10296	0.003	B	0.06405	0.002	T	0.19484	-1.0304	10	0.66056	D	0.02	.	15.014	0.71570	0.0:1.0:0.0:0.0	.	17	O95833	CLIC3_HUMAN	D	17	ENSP00000419378:E17D	ENSP00000419378:E17D	E	-	3	2	CLIC3	139010013	0.995000	0.38212	1.000000	0.80357	0.969000	0.65631	0.393000	0.20817	2.045000	0.60652	0.561000	0.74099	GAG		0.706	CLIC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055173.2	NM_004669		G	139890192	C	G	139890192	3	3	606	1	0	0	0	0	1	0	0	0	3529	912	32	4	679	4	CLIC3	9	139890192	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	1296006	139890192	1323239	102	36598										
FAM171A1	221061	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	15256140	15256140	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gtaactacccctgtagtcatCattgcccgaggactcgtagc	9	13	2	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr10:15256140C>T	ENST00000378116.4	-	8	1453	c.1447G>A	c.(1447-1449)Gat>Aat	p.D483N	FAM171A1_ENST00000477161.1_5'Flank	NM_001010924.1	NP_001010924.1	Q5VUB5	F1711_HUMAN	family with sequence similarity 171, member A1	483						extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				breast(6)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(9)|lung(20)|ovary(3)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	52						CTGTAGTCATCATTGCCCGAG	0.483																																																0													126	107	113					10																	15256140		2203	4300	6503	SO:0001583	missense	221061			AK022946	CCDS31154.1	10p13	2008-06-16	2008-06-16	2008-06-16	ENSG00000148468	ENSG00000148468			23522	protein-coding gene	gene with protein product			"chromosome 10 open reading frame 38"	C10orf38			Standard	NM_001010924		Approved	FLJ12884	uc001iob.3	Q5VUB5	OTTHUMG00000017732	ENST00000378116.4:c.1447G>A	10.37:g.15256140C>T	ENSP00000367356:p.Asp483Asn	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRT9|Q32M49|Q8N4I0	Missense_Mutation	SNP	ENST00000378116.4	37	CCDS31154.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	1.660|1.660	-0.511725|-0.511725	0.04200|0.04200	.|.	.|.	ENSG00000148468|ENSG00000148468	ENST00000378116|ENST00000396781	T|.	0.33438|.	1.41|.	5.25|5.25	2.22|2.22	0.28083|0.28083	.|.	0.813268|.	0.11427|.	N|.	0.565243|.	T|T	0.38161|0.38161	0.1030|0.1030	L|L	0.54323|0.54323	1.7|1.7	0.09310|0.09310	N|N	1|1	B|.	0.02656|.	0.0|.	B|.	0.06405|.	0.002|.	T|T	0.26467|0.26467	-1.0102|-1.0102	10|6	0.32370|0.18276	T|T	0.25|0.48	-0.8277|-0.8277	7.3007|7.3007	0.26418|0.26418	0.0:0.692:0.0:0.308|0.0:0.692:0.0:0.308	.|.	483|.	Q5VUB5|.	F1711_HUMAN|.	N|I	483|482	ENSP00000367356:D483N|.	ENSP00000367356:D483N|ENSP00000380001:M482I	D|M	-|-	1|3	0|0	FAM171A1|FAM171A1	15296146|15296146	0.000000|0.000000	0.05858|0.05858	0.006000|0.006000	0.13384|0.13384	0.058000|0.058000	0.15608|0.15608	-0.109000|-0.109000	0.10840|0.10840	0.272000|0.272000	0.22027|0.22027	0.563000|0.563000	0.77884|0.77884	GAT|ATG		0.483	FAM171A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046984.1	XM_167709		T	15256140	C	T	15256140	3	4	606	1	0	0	0	0	1	0	0	0	5494	826	29	2	1229	2	FAM171A1	10	15256140	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08		15256140	120278607	103	36599										
ANKRD30A	91074	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	37451603	37451603	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cggggaagccatctgccttcGaggtatttagttttatgatt	11	7	1	1	rs376283553		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr10:37451603G>A	ENST00000602533.1	+	16	1858	c.1759G>A	c.(1759-1761)Gag>Aag	p.E587K	ANKRD30A_ENST00000374660.1_Missense_Mutation_p.E587K|ANKRD30A_ENST00000361713.1_Missense_Mutation_p.E587K			Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	643					regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(8)|endometrium(14)|kidney(21)|large_intestine(13)|lung(70)|ovary(8)|pancreas(1)|prostate(3)|skin(15)|stomach(1)|urinary_tract(3)	158						ATCTGCCTTCGAGGTATTTAG	0.333													.|||	1	0.000199681	0.0008	0.0	5008	,	,		17442	0.0		0.0	False		,,,				2504	0.0															0								G	LYS/GLU	1,3617		0,1,1808	162	135	143		1759	-1	0	10		143	0,8130		0,0,4065	no	missense	ANKRD30A	NM_052997.2	56	0,1,5873	AA,AG,GG		0.0,0.0276,0.0085	benign	587/1342	37451603	1,11747	1809	4065	5874	SO:0001583	missense	91074			AF269087	CCDS7193.1	10p11.21	2013-01-10			ENSG00000148513	ENSG00000148513		"Ankyrin repeat domain containing"	17234	protein-coding gene	gene with protein product	"breast cancer antigen NY-BR-1"	610856				11280766	Standard	NM_052997		Approved	NY-BR-1	uc001iza.1	Q9BXX3	OTTHUMG00000017968	ENST00000602533.1:c.1759G>A	10.37:g.37451603G>A	ENSP00000473551:p.Glu587Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5W025	Missense_Mutation	SNP	ENST00000602533.1	37		.	.	.	.	.	.	.	.	.	.	.	0.014	-1.579776	0.00879	2.76E-4	0.0	ENSG00000148513	ENST00000361713;ENST00000374660	T;T	0.05139	3.49;3.49	0.731	-1.01	0.10169	.	.	.	.	.	T	0.01189	0.0039	N	0.00413	-1.525	0.09310	N	1	B	0.13594	0.008	B	0.04013	0.001	T	0.44528	-0.9322	9	0.02654	T	1	.	2.925	0.05781	0.6458:0.0:0.3542:0.0	.	643	Q9BXX3	AN30A_HUMAN	K	587	ENSP00000354432:E587K;ENSP00000363792:E587K	ENSP00000354432:E587K	E	+	1	0	ANKRD30A	37491609	0.071000	0.21146	0.009000	0.14445	0.199000	0.23934	-0.207000	0.09384	-0.240000	0.09696	0.089000	0.15464	GAG		0.333	ANKRD30A-001	KNOWN	NMD_exception|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000047588.2	NM_052997		A	37451603	G	A	37451603	3	1	606	1	0	0	0	0	1	0	0	0	658	1059	37	1	1821	1	ANKRD30A	10	37451603	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	22195463	37451603	98083144	104	36600										
CSGALNACT2	55454	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	43654255	43654255	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	atagacatgtgaccctcttcCgcccttttggacctctcatg	7	14	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr10:43654255C>T	ENST00000374466.3	+	3	1089	c.754C>T	c.(754-756)Cgc>Tgc	p.R252C	CSGALNACT2_ENST00000374464.1_Missense_Mutation_p.R252C	NM_018590.3	NP_061060.3	Q8N6G5	CGAT2_HUMAN	chondroitin sulfate N-acetylgalactosaminyltransferase 2	252					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|chondroitin sulfate proteoglycan biosynthetic process (GO:0050650)|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050653)|dermatan sulfate proteoglycan biosynthetic process (GO:0050651)|dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050652)|glycosaminoglycan metabolic process (GO:0030203)|proteoglycan biosynthetic process (GO:0030166)|small molecule metabolic process (GO:0044281)	Golgi cisterna membrane (GO:0032580)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)|membrane (GO:0016020)	acetylgalactosaminyltransferase activity (GO:0008376)|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity (GO:0047237)|metal ion binding (GO:0046872)			endometrium(12)|kidney(3)|large_intestine(5)|lung(16)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	42						GACCCTCTTCCGCCCTTTTGG	0.393																																																0													98	93	95					10																	43654255		2203	4300	6503	SO:0001583	missense	55454			AF116646	CCDS7201.1	10q11.21	2013-02-19			ENSG00000169826	ENSG00000169826		"Beta 4-glycosyltransferases"	24292	protein-coding gene	gene with protein product	"chondroitin beta1,4 N-acetylgalactosaminyltransferase 2"					12446672	Standard	NM_018590		Approved	GALNACT2, MGC40204, PRO0082, GALNACT-2	uc001jan.4	Q8N6G5	OTTHUMG00000018023	ENST00000374466.3:c.754C>T	10.37:g.43654255C>T	ENSP00000363590:p.Arg252Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWL7|Q6MZJ5|Q6MZP6|Q8TCH4|Q9P1I6	Missense_Mutation	SNP	ENST00000374466.3	37	CCDS7201.1	.	.	.	.	.	.	.	.	.	.	C	16.19	3.053268	0.55218	.	.	ENSG00000169826	ENST00000374466;ENST00000374464	T;T	0.23950	1.88;1.88	5.57	5.57	0.84162	.	0.000000	0.85682	D	0.000000	T	0.39226	0.1070	M	0.85630	2.765	0.80722	D	1	B;B	0.26081	0.141;0.108	B;B	0.20184	0.028;0.016	T	0.39921	-0.9590	10	0.87932	D	0	-9.3537	19.5366	0.95255	0.0:1.0:0.0:0.0	.	252;252	Q8N6G5;Q8N6G5-2	CGAT2_HUMAN;.	C	252	ENSP00000363590:R252C;ENSP00000363588:R252C	ENSP00000363588:R252C	R	+	1	0	CSGALNACT2	42974261	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.581000	0.60949	2.622000	0.88805	0.591000	0.81541	CGC		0.393	CSGALNACT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047693.1	NM_018590		T	43654255	C	T	43654255	3	4	606	1	0	0	0	0	1	0	0	0	3941	652	23	1	760	1	CSGALNACT2	10	43654255	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	6202652	43654255	91880492	105	36601										
C10orf10	11067	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	45472882	45472882	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aggtgcgagtagagtgttctGaggacactgctggggcgggg	20	6	1	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr10:45472882G>A	ENST00000298295.3	-	2	814	c.597C>T	c.(595-597)ctC>ctT	p.L199L	RASSF4_ENST00000334940.6_Intron|RASSF4_ENST00000374417.2_Intron|C10orf10_ENST00000496638.1_Intron|RASSF4_ENST00000340258.5_Intron|RASSF4_ENST00000472561.1_Intron	NM_007021.3	NP_008952.1	Q9NTK1	DEPP_HUMAN	chromosome 10 open reading frame 10	199						mitochondrion (GO:0005739)				lung(1)	1						AGAGTGTTCTGAGGACACTGC	0.607																																																0													59	71	67					10																	45472882		2197	4298	6495	SO:0001819	synonymous_variant	11067			AB022718	CCDS7210.1	10q11.21	2014-07-31			ENSG00000165507	ENSG00000165507			23355	protein-coding gene	gene with protein product	"decidual protein induced by progesterone", "fasting induced", "fat-specific expressed gene"	611309				24530860, 19937567, 16123073	Standard	NM_007021		Approved	DEPP, FIG, Fseg	uc001jbr.4	Q9NTK1	OTTHUMG00000018063	ENST00000298295.3:c.597C>T	10.37:g.45472882G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R6A1|O94997|Q5T735|Q76MX8	Silent	SNP	ENST00000298295.3	37	CCDS7210.1																																																																																				0.607	C10orf10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047758.1	NM_007021		A	45472882	G	A	45472882	2	1	606	1	0	0	0	0	0	0	0	1	1582	1277	45	2		2	C10orf10	10	45472882	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	1818627	45472882	90061865	106	36602										
ANK3	288	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	61830133	61830133	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgtctgccttccagtgtgaaGaactgggcccctgacttctg	11	12	2	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr10:61830133G>A	ENST00000280772.2	-	37	10697	c.10506C>T	c.(10504-10506)ttC>ttT	p.F3502F	ANK3_ENST00000503366.1_Intron|ANK3_ENST00000355288.2_Intron|ANK3_ENST00000373827.2_Intron	NM_020987.3	NP_066267.2	Q12955	ANK3_HUMAN	ankyrin 3, node of Ranvier (ankyrin G)	3502					axon guidance (GO:0007411)|axonogenesis (GO:0007409)|cytoskeletal anchoring at plasma membrane (GO:0007016)|establishment of protein localization (GO:0045184)|Golgi to plasma membrane protein transport (GO:0043001)|maintenance of protein location in plasma membrane (GO:0072660)|membrane assembly (GO:0071709)|mitotic cytokinesis (GO:0000281)|neuromuscular junction development (GO:0007528)|neuronal action potential (GO:0019228)|plasma membrane organization (GO:0007009)|positive regulation of cell communication by electrical coupling (GO:0010650)|positive regulation of gene expression (GO:0010628)|positive regulation of homotypic cell-cell adhesion (GO:0034112)|positive regulation of membrane depolarization during cardiac muscle cell action potential (GO:1900827)|positive regulation of membrane potential (GO:0045838)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|positive regulation of sodium ion transport (GO:0010765)|protein localization to plasma membrane (GO:0072659)|protein targeting to plasma membrane (GO:0072661)|regulation of potassium ion transport (GO:0043266)|signal transduction (GO:0007165)	axon initial segment (GO:0043194)|basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|costamere (GO:0043034)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|intercalated disc (GO:0014704)|lateral plasma membrane (GO:0016328)|lysosome (GO:0005764)|neuromuscular junction (GO:0031594)|node of Ranvier (GO:0033268)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|sarcoplasmic reticulum (GO:0016529)|spectrin-associated cytoskeleton (GO:0014731)|T-tubule (GO:0030315)|Z disc (GO:0030018)	cadherin binding (GO:0045296)|cytoskeletal protein binding (GO:0008092)|ion channel binding (GO:0044325)|protein binding, bridging (GO:0030674)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)			NS(4)|breast(7)|central_nervous_system(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(5)|kidney(14)|large_intestine(30)|liver(2)|lung(59)|ovary(8)|pancreas(2)|prostate(5)|skin(26)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(7)	196						CCAGTGTGAAGAACTGGGCCC	0.438																																																0													85	84	84					10																	61830133		2203	4300	6503	SO:0001819	synonymous_variant	288			U13616	CCDS7258.1, CCDS7259.1, CCDS55711.1, CCDS55712.1	10q21	2013-01-10			ENSG00000151150	ENSG00000151150		"Ankyrin repeat domain containing"	494	protein-coding gene	gene with protein product	"ankyrin-3, node of Ranvier", "ankyrin-G"	600465				7665168	Standard	NM_020987		Approved		uc001jky.3	Q12955	OTTHUMG00000018288	ENST00000280772.2:c.10506C>T	10.37:g.61830133G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B1AQT2|B4DIL1|E9PE32|Q13484|Q5CZH9|Q5VXD5|Q7Z3G4|Q9H0P5	Silent	SNP	ENST00000280772.2	37	CCDS7258.1																																																																																				0.438	ANK3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048201.4	NM_020987		A	61830133	G	A	61830133	2	1	606	1	0	0	0	0	0	0	0	1	622	933	33	2		2	ANK3	10	61830133	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	16357251	61830133	73704614	107	36603										
ANK3	288	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	61830689	61830689	+	Nonsense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aaatagattcgtcatcgcttGaatcactgacgtctgccccg	8	12	3	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr10:61830689G>C	ENST00000280772.2	-	37	10141	c.9950C>G	c.(9949-9951)tCa>tGa	p.S3317*	ANK3_ENST00000503366.1_Intron|ANK3_ENST00000355288.2_Intron|ANK3_ENST00000373827.2_Intron	NM_020987.3	NP_066267.2	Q12955	ANK3_HUMAN	ankyrin 3, node of Ranvier (ankyrin G)	3317					axon guidance (GO:0007411)|axonogenesis (GO:0007409)|cytoskeletal anchoring at plasma membrane (GO:0007016)|establishment of protein localization (GO:0045184)|Golgi to plasma membrane protein transport (GO:0043001)|maintenance of protein location in plasma membrane (GO:0072660)|membrane assembly (GO:0071709)|mitotic cytokinesis (GO:0000281)|neuromuscular junction development (GO:0007528)|neuronal action potential (GO:0019228)|plasma membrane organization (GO:0007009)|positive regulation of cell communication by electrical coupling (GO:0010650)|positive regulation of gene expression (GO:0010628)|positive regulation of homotypic cell-cell adhesion (GO:0034112)|positive regulation of membrane depolarization during cardiac muscle cell action potential (GO:1900827)|positive regulation of membrane potential (GO:0045838)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|positive regulation of sodium ion transport (GO:0010765)|protein localization to plasma membrane (GO:0072659)|protein targeting to plasma membrane (GO:0072661)|regulation of potassium ion transport (GO:0043266)|signal transduction (GO:0007165)	axon initial segment (GO:0043194)|basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|costamere (GO:0043034)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|intercalated disc (GO:0014704)|lateral plasma membrane (GO:0016328)|lysosome (GO:0005764)|neuromuscular junction (GO:0031594)|node of Ranvier (GO:0033268)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|sarcoplasmic reticulum (GO:0016529)|spectrin-associated cytoskeleton (GO:0014731)|T-tubule (GO:0030315)|Z disc (GO:0030018)	cadherin binding (GO:0045296)|cytoskeletal protein binding (GO:0008092)|ion channel binding (GO:0044325)|protein binding, bridging (GO:0030674)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)			NS(4)|breast(7)|central_nervous_system(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(5)|kidney(14)|large_intestine(30)|liver(2)|lung(59)|ovary(8)|pancreas(2)|prostate(5)|skin(26)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(7)	196						GTCATCGCTTGAATCACTGAC	0.443																																																0													130	132	131					10																	61830689		2203	4300	6503	SO:0001587	stop_gained	288			U13616	CCDS7258.1, CCDS7259.1, CCDS55711.1, CCDS55712.1	10q21	2013-01-10			ENSG00000151150	ENSG00000151150		"Ankyrin repeat domain containing"	494	protein-coding gene	gene with protein product	"ankyrin-3, node of Ranvier", "ankyrin-G"	600465				7665168	Standard	NM_020987		Approved		uc001jky.3	Q12955	OTTHUMG00000018288	ENST00000280772.2:c.9950C>G	10.37:g.61830689G>C	ENSP00000280772:p.Ser3317*	Somatic		WXS	Illumina HiSeq	Phase_I	B1AQT2|B4DIL1|E9PE32|Q13484|Q5CZH9|Q5VXD5|Q7Z3G4|Q9H0P5	Nonsense_Mutation	SNP	ENST00000280772.2	37	CCDS7258.1	.	.	.	.	.	.	.	.	.	.	G	51	17.357246	0.99884	.	.	ENSG00000151150	ENST00000280772	.	.	.	5.48	5.48	0.80851	.	0.000000	0.38326	N	0.001738	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	.	19.359	0.94428	0.0:0.0:1.0:0.0	.	.	.	.	X	3317	.	ENSP00000280772:S3317X	S	-	2	0	ANK3	61500695	1.000000	0.71417	0.256000	0.24389	0.293000	0.27360	7.876000	0.87215	2.584000	0.87258	0.561000	0.74099	TCA		0.443	ANK3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048201.4	NM_020987		C	61830689	G	C	61830689	4	2	606	1	0	0	0	0	0	1	0	0	622	1294	45	4	3524	4	ANK3	10	61830689	Nonsense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	556	61830689	73704058	108	36604										
PRF1	5551	ucsc.edu;bcgsc.ca	37	chr10	72360284	72360284	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ccgaccttccagtcgttgcgGatgctacgagccgcatcccg	11	16	0	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr10:72360284G>A	ENST00000441259.1	-	2	535	c.375C>T	c.(373-375)atC>atT	p.I125I	PRF1_ENST00000373209.2_Silent_p.I125I	NM_001083116.1|NM_005041.4	NP_001076585.1|NP_005032.2	P14222	PERF_HUMAN	perforin 1 (pore forming protein)	125	MACPF. {ECO:0000255|PROSITE- ProRule:PRU00745}.				apoptotic process (GO:0006915)|cellular defense response (GO:0006968)|cytolysis (GO:0019835)|defense response to tumor cell (GO:0002357)|defense response to virus (GO:0051607)|immune response to tumor cell (GO:0002418)|protein homooligomerization (GO:0051260)|transmembrane transport (GO:0055085)	cytolytic granule (GO:0044194)|cytoplasmic membrane-bounded vesicle (GO:0016023)|endosome (GO:0005768)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|wide pore channel activity (GO:0022829)			breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(2)|lung(11)|ovary(1)|prostate(3)|urinary_tract(3)	23						AGTCGTTGCGGATGCTACGAG	0.627			M			"various leukaemia, lymphoma"	Type 2 familial hemophagocytic lymphohistiocytosis		Familial Hemophagocytic Lymphohistiocytosis																													yes	Rec			10	10q22	5551	perforin 1 (pore forming protein)		L	0													48	45	46					10																	72360284		2203	4300	6503	SO:0001819	synonymous_variant	5551	Familial Cancer Database	FHLH, FHL, Familial Hemophagocytic Reticulosis, FHR	BC047695	CCDS7305.1	10q22	2014-09-17			ENSG00000180644	ENSG00000180644			9360	protein-coding gene	gene with protein product	"Perforin", "perforin 1 (preforming protein)"	170280				1505959, 2592021	Standard	NM_005041		Approved	PFP, P1, HPLH2	uc001jrf.4	P14222	OTTHUMG00000018412	ENST00000441259.1:c.375C>T	10.37:g.72360284G>A		Somatic		WXS	Illumina HiSeq		B2R6X4|Q59F57|Q86WX7	Silent	SNP	ENST00000441259.1	37	CCDS7305.1																																																																																				0.627	PRF1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048517.2	NM_005041		A	72360284	G	A	72360284	2	1	606	1	0	0	0	0	0	0	0	1	12488	1164	41	2		2	PRF1	10	72360284	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	10529595	72360284	63174463	109	36605										
CHST3	9469	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	73765714	73765714	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gtgatagtttttgtcttcatCgaaaaggaaaataaaatcat	7	4	3	1	rs374590185		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr10:73765714C>G	ENST00000373115.4	+	2	551	c.114C>G	c.(112-114)atC>atG	p.I38M		NM_004273.4	NP_004264.2	Q7LGC8	CHST3_HUMAN	carbohydrate (chondroitin 6) sulfotransferase 3	38					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|glycosaminoglycan metabolic process (GO:0030203)|small molecule metabolic process (GO:0044281)|sulfur compound metabolic process (GO:0006790)|T cell homeostasis (GO:0043029)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	chondroitin 6-sulfotransferase activity (GO:0008459)|proteoglycan sulfotransferase activity (GO:0050698)|sulfotransferase activity (GO:0008146)			endometrium(1)|lung(5)	6						TTGTCTTCATCGAAAAGGAAA	0.478																																																0													182	168	173					10																	73765714		2203	4300	6503	SO:0001583	missense	9469			AB017915	CCDS7312.1	10q22.1	2007-03-14			ENSG00000122863	ENSG00000122863		"Sulfotransferases, membrane-bound"	1971	protein-coding gene	gene with protein product		603799				9883891, 9714738	Standard	NM_004273		Approved	C6ST, C6ST1	uc001jsn.3	Q7LGC8	OTTHUMG00000018431	ENST00000373115.4:c.114C>G	10.37:g.73765714C>G	ENSP00000362207:p.Ile38Met	Somatic		WXS	Illumina HiSeq	Phase_I	O75099|Q52M30	Missense_Mutation	SNP	ENST00000373115.4	37	CCDS7312.1	.	.	.	.	.	.	.	.	.	.	C	16.26	3.072133	0.55646	.	.	ENSG00000122863	ENST00000373115	D	0.98044	-4.68	5.66	0.325	0.15903	.	0.000000	0.85682	D	0.000000	D	0.97445	0.9164	L	0.59436	1.845	0.47214	D	0.999359	D	0.89917	1.0	D	0.87578	0.998	D	0.95229	0.8341	10	0.87932	D	0	-10.7332	5.8588	0.18734	0.1406:0.4405:0.0:0.4189	.	38	Q7LGC8	CHST3_HUMAN	M	38	ENSP00000362207:I38M	ENSP00000362207:I38M	I	+	3	3	CHST3	73435720	0.992000	0.36948	0.997000	0.53966	0.982000	0.71751	0.179000	0.16840	-0.128000	0.11641	-1.202000	0.01658	ATC		0.478	CHST3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048563.1	NM_004273		G	73765714	C	G	73765714	3	3	606	1	0	0	0	0	1	0	0	0	3407	874	31	4	116	4	CHST3	10	73765714	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	1405430	73765714	61769033	110	36606										
CDHR1	92211	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	85956359	85956359	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctagaagcgtcttttctgttGaccccacttttggaaacatc	7	11	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr10:85956359G>A	ENST00000372117.3	+	3	353	c.250G>A	c.(250-252)Gac>Aac	p.D84N	CDHR1_ENST00000332904.3_Missense_Mutation_p.D84N	NM_033100.2	NP_149091.1	Q96JP9	CDHR1_HUMAN	cadherin-related family member 1	84	Cadherin 1. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cellular process (GO:0009987)|homophilic cell adhesion (GO:0007156)|photoreceptor cell maintenance (GO:0045494)	integral component of plasma membrane (GO:0005887)|photoreceptor outer segment membrane (GO:0042622)	calcium ion binding (GO:0005509)			breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(6)|liver(1)|lung(21)|ovary(1)|prostate(1)|skin(1)	36						CTTTTCTGTTGACCCCACTTT	0.562																																																0													138	124	129					10																	85956359		2203	4300	6503	SO:0001583	missense	92211			AB053448	CCDS7372.1, CCDS53548.1	10q23.1	2014-01-28	2010-01-25	2010-01-25	ENSG00000148600	ENSG00000148600		"Cadherins / Cadherin-related"	14550	protein-coding gene	gene with protein product		609502	"protocadherin 21"	PCDH21		11597768	Standard	NM_001171971		Approved	KIAA1775, CORD15, RP65	uc001kcv.3	Q96JP9	OTTHUMG00000018634	ENST00000372117.3:c.250G>A	10.37:g.85956359G>A	ENSP00000361189:p.Asp84Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q69YZ8|Q8IXY5	Missense_Mutation	SNP	ENST00000372117.3	37	CCDS7372.1	.	.	.	.	.	.	.	.	.	.	G	22.1	4.237685	0.79800	.	.	ENSG00000148600	ENST00000332904;ENST00000372117	T;T	0.62788	-0.0;-0.0	5.57	5.57	0.84162	Cadherin (5);Cadherin-like (1);	0.095350	0.64402	D	0.000001	T	0.54191	0.1843	L	0.37630	1.12	0.80722	D	1	B;B	0.30542	0.284;0.148	B;B	0.34722	0.188;0.186	T	0.53215	-0.8470	10	0.39692	T	0.17	-36.6578	12.4369	0.55604	0.0811:0.0:0.9189:0.0	.	84;84	Q96JP9-2;Q96JP9	.;CDHR1_HUMAN	N	84	ENSP00000331063:D84N;ENSP00000361189:D84N	ENSP00000331063:D84N	D	+	1	0	CDHR1	85946339	1.000000	0.71417	0.770000	0.31555	0.782000	0.44232	5.695000	0.68279	2.630000	0.89119	0.561000	0.74099	GAC		0.562	CDHR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049111.1	NM_033100		A	85956359	G	A	85956359	3	1	606	1	0	0	0	0	1	0	0	0	3120	1290	45	2	260	2	CDHR1	10	85956359	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	12190645	85956359	49578388	111	36607										
CALHM1	255022	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	105215149	105215149	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gtttgcatttgtgccagctcGtgagcagcctgttcatggtg	13	9	1	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr10:105215149G>A	ENST00000329905.5	-	2	1047	c.911C>T	c.(910-912)aCg>aTg	p.T304M	RP11-225H22.4_ENST00000411906.1_RNA|CALHM2_ENST00000393235.1_5'Flank|CALHM2_ENST00000369788.3_5'Flank	NM_001001412.3	NP_001001412.3	Q8IU99	CAHM1_HUMAN	calcium homeostasis modulator 1	304					ATP transport (GO:0015867)|cation transport (GO:0006812)|protein homooligomerization (GO:0051260)|regulation of ion transmembrane transport (GO:0034765)|sensory perception of bitter taste (GO:0050913)|sensory perception of sweet taste (GO:0050916)|sensory perception of umami taste (GO:0050917)	endoplasmic reticulum (GO:0005783)|integral component of plasma membrane (GO:0005887)	calcium activated cation channel activity (GO:0005227)|calcium channel activity (GO:0005262)|identical protein binding (GO:0042802)|voltage-gated ion channel activity (GO:0005244)			large_intestine(2)|liver(1)|lung(5)|ovary(1)	9						GTGCCAGCTCGTGAGCAGCCT	0.677																																																0													67	52	57					10																	105215149		2203	4300	6503	SO:0001583	missense	255022			BC036208	CCDS7550.1	10q24.33	2008-07-02	2008-07-02	2008-07-02	ENSG00000185933	ENSG00000185933			23494	protein-coding gene	gene with protein product		612234	"family with sequence similarity 26, member C"	FAM26C		18585350	Standard	NM_001001412		Approved		uc001kxe.2	Q8IU99	OTTHUMG00000018991	ENST00000329905.5:c.911C>T	10.37:g.105215149G>A	ENSP00000329926:p.Thr304Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5W091	Missense_Mutation	SNP	ENST00000329905.5	37	CCDS7550.1	.	.	.	.	.	.	.	.	.	.	G	9.572	1.121186	0.20877	.	.	ENSG00000185933	ENST00000329905	T	0.18016	2.24	4.8	1.28	0.21552	.	0.231983	0.45867	D	0.000331	T	0.07728	0.0194	N	0.14661	0.345	0.26966	N	0.96569	B	0.06786	0.001	B	0.04013	0.001	T	0.18681	-1.0329	10	0.48119	T	0.1	-15.6045	2.9522	0.05865	0.0963:0.1134:0.4129:0.3775	.	304	Q8IU99	CAHM1_HUMAN	M	304	ENSP00000329926:T304M	ENSP00000329926:T304M	T	-	2	0	CALHM1	105205139	0.405000	0.25336	0.635000	0.29338	0.188000	0.23474	1.119000	0.31258	0.546000	0.28920	0.462000	0.41574	ACG		0.677	CALHM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050165.1	NM_001001412		A	105215149	G	A	105215149	3	1	606	1	0	0	0	0	1	0	0	0	2584	1145	40	1	133	1	CALHM1	10	105215149	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	19258790	105215149	30319598	112	36608										
TRUB1	142940	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	116734920	116734920	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	atgtgctagagctgacccgaAccaaacagggaccatttacg	10	11	0	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr10:116734920A>G	ENST00000298746.3	+	8	893	c.832A>G	c.(832-834)Acc>Gcc	p.T278A		NM_139169.4	NP_631908.1	Q8WWH5	TRUB1_HUMAN	TruB pseudouridine (psi) synthase family member 1	278					pseudouridine synthesis (GO:0001522)|tRNA processing (GO:0008033)		pseudouridine synthase activity (GO:0009982)|RNA binding (GO:0003723)			breast(2)|kidney(2)|large_intestine(1)|lung(5)|urinary_tract(2)	12		Colorectal(252;0.09)|Breast(234;0.174)|Lung NSC(174;0.245)		Epithelial(162;0.00879)|all cancers(201;0.0243)		GCTGACCCGAACCAAACAGGG	0.408																																																0													157	145	149					10																	116734920		2203	4300	6503	SO:0001583	missense	142940			AF448144	CCDS7591.1	10q25.3	2013-09-02	2013-09-02		ENSG00000165832	ENSG00000165832			16060	protein-coding gene	gene with protein product		610726	"TruB pseudouridine (psi) synthase homolog 1 (E. coli)"			12736709	Standard	NM_139169		Approved	PUS4	uc001lcd.3	Q8WWH5	OTTHUMG00000019094	ENST00000298746.3:c.832A>G	10.37:g.116734920A>G	ENSP00000298746:p.Thr278Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2R716|Q53ES2	Missense_Mutation	SNP	ENST00000298746.3	37	CCDS7591.1	.	.	.	.	.	.	.	.	.	.	A	26.0	4.696609	0.88830	.	.	ENSG00000165832	ENST00000298746	T	0.16196	2.36	5.7	5.7	0.88788	Pseudouridine synthase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.49558	0.1564	M	0.93062	3.375	0.80722	D	1	D	0.55605	0.972	P	0.62740	0.906	T	0.61048	-0.7141	10	0.66056	D	0.02	-16.4514	14.82	0.70065	1.0:0.0:0.0:0.0	.	278	Q8WWH5	TRUB1_HUMAN	A	278	ENSP00000298746:T278A	ENSP00000298746:T278A	T	+	1	0	TRUB1	116724910	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.785000	0.85724	2.287000	0.76781	0.533000	0.62120	ACC		0.408	TRUB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050504.1	NM_139169		G	116734920	A	G	116734920	3	3	606	1	0	0	0	0	1	0	0	0	16614	43	2	3	862	3	TRUB1	10	116734920	Missense_Mutation	SNP	A	TCGA-HE-7130-01A-11D-1961-08	11519771	116734920	18799827	113	36609										
MKI67	4288	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	129910532	129910532	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ccctcctctcttaggaacctCtgtctgagatttgctgctgg	9	13	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr10:129910532C>T	ENST00000368654.3	-	9	2209	c.1834G>A	c.(1834-1836)Gag>Aag	p.E612K	MKI67_ENST00000484853.1_5'UTR|MKI67_ENST00000368653.3_Missense_Mutation_p.E252K	NM_002417.4	NP_002408.3	P46013	KI67_HUMAN	marker of proliferation Ki-67	612					cell proliferation (GO:0008283)|cellular response to heat (GO:0034605)|DNA metabolic process (GO:0006259)|hyaluronan metabolic process (GO:0030212)|meiotic nuclear division (GO:0007126)|organ regeneration (GO:0031100)|response to organic cyclic compound (GO:0014070)	chromosome, centromeric region (GO:0000775)|condensed chromosome (GO:0000793)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(5)|kidney(7)|large_intestine(30)|lung(64)|ovary(4)|pancreas(1)|prostate(4)|skin(2)|soft_tissue(1)|stomach(10)|upper_aerodigestive_tract(4)|urinary_tract(4)	159		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TTAGGAACCTCTGTCTGAGAT	0.488																																																0													111	102	105					10																	129910532		2203	4300	6503	SO:0001583	missense	4288			X65550	CCDS7659.1, CCDS53588.1	10q26.2	2014-06-12	2013-10-10		ENSG00000148773	ENSG00000148773			7107	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 105"	176741	"antigen identified by monoclonal antibody Ki-67"			2571566, 16206250	Standard	NM_002417		Approved	MIB-, PPP1R105	uc001lke.3	P46013	OTTHUMG00000019255	ENST00000368654.3:c.1834G>A	10.37:g.129910532C>T	ENSP00000357643:p.Glu612Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VWH2	Missense_Mutation	SNP	ENST00000368654.3	37	CCDS7659.1	.	.	.	.	.	.	.	.	.	.	C	13.04	2.117442	0.37339	.	.	ENSG00000148773	ENST00000368654;ENST00000368653;ENST00000537609;ENST00000368652	T;T	0.01335	5.04;5.0	3.15	2.24	0.28232	.	0.534998	0.18473	N	0.140147	T	0.01592	0.0051	N	0.22421	0.69	0.09310	N	1	P;P;P	0.50528	0.73;0.936;0.61	B;P;B	0.47673	0.205;0.554;0.101	T	0.55276	-0.8166	10	0.33141	T	0.24	.	8.3147	0.32093	0.0:0.8808:0.0:0.1192	.	612;252;612	F5H4V4;P46013-2;P46013	.;.;KI67_HUMAN	K	612;252;612;187	ENSP00000357643:E612K;ENSP00000357642:E252K	ENSP00000357641:E187K	E	-	1	0	MKI67	129800522	0.000000	0.05858	0.031000	0.17742	0.069000	0.16628	0.316000	0.19469	0.889000	0.36185	0.655000	0.94253	GAG		0.488	MKI67-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000050999.1	NM_002417		T	129910532	C	T	129910532	3	4	606	1	0	0	0	0	1	0	0	0	9605	922	32	2	7964	2	MKI67	10	129910532	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	13175612	129910532	5624215	114	36610										
MTG1	92170	broad.mit.edu;bcgsc.ca	37	chr10	135209677	135209677	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	attttgccacatcccactttCaggccgcaaccctctgtttc	5	16	2	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr10:135209677C>T	ENST00000317502.6	+	3	238	c.188C>T	c.(187-189)tCa>tTa	p.S63L	MTG1_ENST00000477902.2_Missense_Mutation_p.S22L|RP11-108K14.8_ENST00000468317.2_Missense_Mutation_p.S68L	NM_138384.2	NP_612393.2	Q9BT17	MTG1_HUMAN	mitochondrial ribosome-associated GTPase 1	63	CP-type G. {ECO:0000255|PROSITE- ProRule:PRU01058}.				GTP catabolic process (GO:0006184)|regulation of mitochondrial translation (GO:0070129)|regulation of respiratory system process (GO:0044065)|ribosome biogenesis (GO:0042254)	mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrial ribosome (GO:0005761)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			endometrium(1)|large_intestine(5)|lung(5)|ovary(2)|skin(1)|urinary_tract(1)	15		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)		ATCCCACTTTCAGGCCGCAAC	0.468																																																0													199	209	205					10																	135209677		2203	4300	6503	SO:0001583	missense	92170				CCDS31320.1	10q26.3	2013-05-24	2013-05-24	2006-01-09	ENSG00000148824	ENSG00000148824			32159	protein-coding gene	gene with protein product			"GTP-binding protein 7", "GTP-binding protein 7 (putative)", "mitochondrial GTPase 1 homolog (S. cerevisiae)"	GTPBP7		12808030, 23396448	Standard	NM_138384		Approved		uc001lnd.3	Q9BT17	OTTHUMG00000166564	ENST00000317502.6:c.188C>T	10.37:g.135209677C>T	ENSP00000323047:p.Ser63Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VWX8|Q6PIY9|Q8IYJ4|Q8NC48|Q9BVU8	Missense_Mutation	SNP	ENST00000317502.6	37	CCDS31320.1	.	.	.	.	.	.	.	.	.	.	c	29.2	4.990134	0.93106	.	.	ENSG00000254536;ENSG00000148824;ENSG00000148824;ENSG00000148824	ENST00000468317;ENST00000317502;ENST00000432508;ENST00000537620	T;T;T	0.12984	2.63;2.63;2.63	5.4	5.4	0.78164	.	4.888220	0.00424	N	0.000066	T	0.38825	0.1055	M	0.88181	2.935	0.58432	D	0.999999	P	0.36577	0.558	B	0.41723	0.365	T	0.46965	-0.9153	10	0.87932	D	0	-1.9895	16.6591	0.85236	0.0:1.0:0.0:0.0	.	63	Q9BT17	MTG1_HUMAN	L	68;63;63;22	ENSP00000436767:S68L;ENSP00000323047:S63L;ENSP00000393480:S63L	ENSP00000323047:S63L	S	+	2	0	AL360181.1;MTG1	135059667	1.000000	0.71417	0.999000	0.59377	0.993000	0.82548	6.217000	0.72218	2.535000	0.85469	0.478000	0.44815	TCA		0.468	MTG1-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051166.1	NM_138384		T	135209677	C	T	135209677	3	4	606	1	0	0	0	0	1	0	0	0	9933	838	29	2	198	2	MTG1	10	135209677	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	5299145	135209677	325070	115	36611										
OR51G2	81282	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	4936273	4936273	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	atacccactgtagagacgatGacaaacatgccgtagatgct	9	10	0	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:4936273G>A	ENST00000322013.3	-	1	649	c.621C>T	c.(619-621)gtC>gtT	p.V207V	MMP26_ENST00000477339.1_Intron|MMP26_ENST00000380390.1_Intron	NM_001005238.1	NP_001005238.1	Q8NGK0	O51G2_HUMAN	olfactory receptor, family 51, subfamily G, member 2	207						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			autonomic_ganglia(1)|endometrium(1)|large_intestine(9)|lung(12)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29		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)		TAGAGACGATGACAAACATGC	0.512																																																0													133	108	117					11																	4936273		2201	4298	6499	SO:0001819	synonymous_variant	81282			AB065794	CCDS31365.1	11p15.4	2012-08-09			ENSG00000176893	ENSG00000176893		"GPCR / Class A : Olfactory receptors"	15198	protein-coding gene	gene with protein product							Standard	NM_001005238		Approved		uc001lzr.1	Q8NGK0	OTTHUMG00000066501	ENST00000322013.3:c.621C>T	11.37:g.4936273G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFH7	Silent	SNP	ENST00000322013.3	37	CCDS31365.1																																																																																				0.512	OR51G2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000142174.1	NM_001005238		A	4936273	G	A	4936273	2	1	606	1	0	0	0	0	0	0	0	1	11106	1277	45	2		2	OR51G2	11	4936273	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08		4936273	130070243	116	36612										
IPO7	10527	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	9451343	9451343	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgatctgtgaatatagtgaaGaagttactcctattgcagta	9	5	1	4			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:9451343G>A	ENST00000379719.3	+	15	1856	c.1714G>A	c.(1714-1716)Gaa>Aaa	p.E572K	SNORA23_ENST00000365128.1_RNA|CTD-2371O3.2_ENST00000531111.1_RNA	NM_006391.2	NP_006382.1	O95373	IPO7_HUMAN	importin 7	572					innate immune response (GO:0045087)|protein import into nucleus (GO:0006606)|regulation of catalytic activity (GO:0050790)|signal transduction (GO:0007165)|viral process (GO:0016032)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nuclear pore (GO:0005643)	Ran GTPase binding (GO:0008536)|small GTPase regulator activity (GO:0005083)|transporter activity (GO:0005215)			NS(1)|breast(1)|endometrium(3)|kidney(3)|large_intestine(6)|lung(12)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29				all cancers(16;8.29e-09)|Epithelial(150;4.76e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0217)		ATATAGTGAAGAAGTTACTCC	0.353																																																0													71	61	65					11																	9451343		2201	4294	6495	SO:0001583	missense	10527			AF098799	CCDS31425.1	11p15.3	2010-12-02	2003-03-11	2003-03-14	ENSG00000205339	ENSG00000205339		"Importins"	9852	protein-coding gene	gene with protein product		605586	"RAN binding protein 7"	RANBP7		9214382	Standard	NM_006391		Approved	Imp7	uc001mho.3	O95373	OTTHUMG00000165753	ENST00000379719.3:c.1714G>A	11.37:g.9451343G>A	ENSP00000369042:p.Glu572Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNM5|B2R786|Q1RMF7|Q9H177|Q9NTE3	Missense_Mutation	SNP	ENST00000379719.3	37	CCDS31425.1	.	.	.	.	.	.	.	.	.	.	G	26.5	4.743031	0.89663	.	.	ENSG00000205339	ENST00000379719	T	0.44881	0.91	5.86	5.86	0.93980	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.53948	0.1828	M	0.80183	2.485	0.80722	D	1	B	0.31989	0.35	B	0.36335	0.222	T	0.55049	-0.8201	10	0.51188	T	0.08	.	20.1772	0.98182	0.0:0.0:1.0:0.0	.	572	O95373	IPO7_HUMAN	K	572	ENSP00000369042:E572K	ENSP00000369042:E572K	E	+	1	0	IPO7	9407919	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.869000	0.99810	2.778000	0.95560	0.655000	0.94253	GAA		0.353	IPO7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386022.1	NM_006391		A	9451343	G	A	9451343	3	1	606	1	0	0	0	0	1	0	0	0	7804	943	33	2	1772	2	IPO7	11	9451343	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	4515070	9451343	125555173	117	36613										
COPB1	1315	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	14501121	14501121	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tattttaaacctacttgacaGatttaatagcatgaaagact	5	6	0	4			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:14501121G>C	ENST00000249923.3	-	11	1652	c.1352C>G	c.(1351-1353)tCt>tGt	p.S451C	COPB1_ENST00000439561.2_Missense_Mutation_p.S451C|RNU7-49P_ENST00000516182.1_RNA	NM_016451.4	NP_057535.1	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1	451					COPI coating of Golgi vesicle (GO:0048205)|intra-Golgi vesicle-mediated transport (GO:0006891)|intracellular protein transport (GO:0006886)|membrane organization (GO:0061024)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)|viral process (GO:0016032)	COPI vesicle coat (GO:0030126)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi-associated vesicle (GO:0005798)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|plasma membrane (GO:0005886)	structural molecule activity (GO:0005198)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(9)|lung(12)|ovary(1)|prostate(1)|skin(1)|stomach(1)|urinary_tract(2)	36						CTACTTGACAGATTTAATAGC	0.343																																																0													76	78	77					11																	14501121		2200	4293	6493	SO:0001583	missense	1315			BC037280	CCDS7815.1	11p15.2	2011-05-20	2006-06-30	2006-06-30	ENSG00000129083	ENSG00000129083			2231	protein-coding gene	gene with protein product		600959	"coatomer protein complex, subunit beta"	COPB		7982906	Standard	NM_016451		Approved		uc001mlg.2	P53618	OTTHUMG00000165824	ENST00000249923.3:c.1352C>G	11.37:g.14501121G>C	ENSP00000249923:p.Ser451Cys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQX0|Q6GTT7|Q9NTK2|Q9UNW7	Missense_Mutation	SNP	ENST00000249923.3	37	CCDS7815.1	.	.	.	.	.	.	.	.	.	.	G	31	5.070302	0.93950	.	.	ENSG00000129083	ENST00000249923;ENST00000439561;ENST00000534234	T;T;T	0.14893	2.47;2.47;2.47	5.83	5.83	0.93111	Clathrin/coatomer adaptor, adaptin-like, N-terminal (1);Armadillo-like helical (1);Armadillo-type fold (1);	0.049398	0.85682	D	0.000000	T	0.48589	0.1508	M	0.87971	2.92	0.80722	D	1	P	0.45768	0.866	P	0.60117	0.869	T	0.47302	-0.9128	10	0.56958	D	0.05	-0.5739	20.127	0.97984	0.0:0.0:1.0:0.0	.	451	P53618	COPB_HUMAN	C	451	ENSP00000249923:S451C;ENSP00000397873:S451C;ENSP00000436383:S451C	ENSP00000249923:S451C	S	-	2	0	COPB1	14457697	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.869000	0.99810	2.775000	0.95449	0.585000	0.79938	TCT		0.343	COPB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386410.1	NM_016451		C	14501121	G	C	14501121	3	2	606	1	0	0	0	0	1	0	0	0	3730	942	33	4	1557	4	COPB1	11	14501121	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	5049778	14501121	120505395	118	36614										
RAG2	5897	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	36614896	36614896	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	attttcaagctgatagccacCaacaataacaaattcatcat	3	10	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:36614896C>T	ENST00000311485.3	-	2	984	c.823G>A	c.(823-825)Ggt>Agt	p.G275S	C11orf74_ENST00000534635.1_5'Flank|C11orf74_ENST00000334307.5_5'Flank|C11orf74_ENST00000347206.4_5'Flank|RAG2_ENST00000528428.1_5'Flank|C11orf74_ENST00000446510.2_5'Flank	NM_000536.3|NM_001243785.1|NM_001243786.1	NP_000527.2|NP_001230714.1|NP_001230715.1	P55895	RAG2_HUMAN	recombination activating gene 2	275					B cell differentiation (GO:0030183)|chromatin modification (GO:0016568)|pre-B cell allelic exclusion (GO:0002331)|T cell differentiation in thymus (GO:0033077)|V(D)J recombination (GO:0033151)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|methylated histone binding (GO:0035064)|phosphatidylinositol binding (GO:0035091)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)|phosphatidylinositol-3,5-bisphosphate binding (GO:0080025)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(18)|ovary(1)|pancreas(2)|prostate(1)|skin(4)	32	all_lung(20;0.226)	all_hematologic(20;0.00756)				TGATAGCCACCAACAATAACA	0.428									Familial Hemophagocytic Lymphohistiocytosis																																							0													86	87	86					11																	36614896		2202	4298	6500	SO:0001583	missense	5897	Familial Cancer Database	FHLH, FHL, Familial Hemophagocytic Reticulosis, FHR	AF080577	CCDS7903.1	11p13	2014-09-17				ENSG00000175097			9832	protein-coding gene	gene with protein product		179616				1283330	Standard	NM_000536		Approved		uc001mwv.4	P55895		ENST00000311485.3:c.823G>A	11.37:g.36614896C>T	ENSP00000308620:p.Gly275Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9E9|Q8TBL4	Missense_Mutation	SNP	ENST00000311485.3	37	CCDS7903.1	.	.	.	.	.	.	.	.	.	.	C	23.9	4.473990	0.84640	.	.	ENSG00000175097	ENST00000311485	D	0.93906	-3.31	5.69	5.69	0.88448	Galactose oxidase/kelch, beta-propeller (1);	0.000000	0.85682	D	0.000000	D	0.98027	0.9350	H	0.96048	3.76	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.98794	1.0737	10	0.87932	D	0	-12.4322	19.8052	0.96529	0.0:1.0:0.0:0.0	.	275	P55895	RAG2_HUMAN	S	275	ENSP00000308620:G275S	ENSP00000308620:G275S	G	-	1	0	RAG2	36571472	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.487000	0.81328	2.692000	0.91855	0.650000	0.86243	GGT		0.428	RAG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389536.1	NM_000536		T	36614896	C	T	36614896	3	4	606	1	0	0	0	0	1	0	0	0	13018	594	21	2	764	2	RAG2	11	36614896	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	22113775	36614896	98391620	119	36615										
OR9G1	390174	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	56468116	56468116	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	caaagatcctagtgacctgcAtctctgaagacaaaagcatc	7	11	1	4			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:56468116A>G	ENST00000312153.1	+	1	253	c.253A>G	c.(253-255)Atc>Gtc	p.I85V		NM_001005213.1	NP_001005213.1	Q8NH87	OR9G1_HUMAN	olfactory receptor, family 9, subfamily G, member 1	85						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(2)|kidney(1)|lung(25)|stomach(2)|upper_aerodigestive_tract(1)	31						AGTGACCTGCATCTCTGAAGA	0.507																																																0													127	124	125					11																	56468116		2201	4293	6494	SO:0001583	missense	504191			AB065500	CCDS31536.1	11q11	2012-08-09			ENSG00000174914	ENSG00000174914		"GPCR / Class A : Olfactory receptors"	15319	protein-coding gene	gene with protein product				OR9G5			Standard	NM_001005213		Approved			Q8NH87	OTTHUMG00000167112	ENST00000312153.1:c.253A>G	11.37:g.56468116A>G	ENSP00000309012:p.Ile85Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEU9|Q8NGQ0	Missense_Mutation	SNP	ENST00000312153.1	37	CCDS31536.1	.	.	.	.	.	.	.	.	.	.	A	0.852	-0.738253	0.03111	.	.	ENSG00000174914	ENST00000312153	T	0.02236	4.38	4.54	4.54	0.55810	GPCR, rhodopsin-like superfamily (1);	0.251802	0.29178	N	0.012920	T	0.01661	0.0053	N	0.15975	0.35	0.24579	N	0.993886	B	0.06786	0.001	B	0.10450	0.005	T	0.48592	-0.9022	10	0.19590	T	0.45	-19.0486	10.2627	0.43436	0.721:0.279:0.0:0.0	.	85	Q8NH87	OR9G1_HUMAN	V	85	ENSP00000309012:I85V	ENSP00000309012:I85V	I	+	1	0	OR9G1	56224692	0.000000	0.05858	0.995000	0.50966	0.171000	0.22731	-0.467000	0.06664	2.013000	0.59113	0.477000	0.44152	ATC		0.507	OR9G1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393253.1	NM_001005213		G	56468116	A	G	56468116	3	3	606	1	0	0	0	0	1	0	0	0	11257	217	8	3	255	3	OR9G1	11	56468116	Missense_Mutation	SNP	A	TCGA-HE-7130-01A-11D-1961-08	19853220	56468116	78538400	120	36616										
LPXN	9404	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	58295114	58295114	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	acccatggcagagcgttcccCggcggtgatggtaatggagc	15	11	0	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:58295114C>T	ENST00000395074.2	-	9	1062	c.974G>A	c.(973-975)cGg>cAg	p.R325Q	LPXN_ENST00000528954.1_Missense_Mutation_p.R330Q|LPXN_ENST00000528489.1_Missense_Mutation_p.R305Q	NM_004811.2	NP_004802.1	O60711	LPXN_HUMAN	leupaxin	325	LIM zinc-binding 3. {ECO:0000255|PROSITE- ProRule:PRU00125}.				cell adhesion (GO:0007155)|negative regulation of B cell receptor signaling pathway (GO:0050859)|negative regulation of cell adhesion (GO:0007162)|protein complex assembly (GO:0006461)|regulation of cell adhesion mediated by integrin (GO:0033628)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|podosome (GO:0002102)	transcription cofactor activity (GO:0003712)|zinc ion binding (GO:0008270)			NS(1)|central_nervous_system(1)|large_intestine(2)|lung(6)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	14		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				GAGCGTTCCCCGGCGGTGATG	0.542																																																0													77	67	70					11																	58295114		2201	4295	6496	SO:0001583	missense	9404			AF062075	CCDS7969.1, CCDS53635.1	11q12.1	2013-09-20			ENSG00000110031	ENSG00000110031			14061	protein-coding gene	gene with protein product		605390				9565592	Standard	NM_004811		Approved	LDPL	uc001nmw.3	O60711	OTTHUMG00000167466	ENST00000395074.2:c.974G>A	11.37:g.58295114C>T	ENSP00000378512:p.Arg325Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8B4|B4DV71|Q53FW6|Q6FI07	Missense_Mutation	SNP	ENST00000395074.2	37	CCDS7969.1	.	.	.	.	.	.	.	.	.	.	C	19.74	3.883091	0.72410	.	.	ENSG00000110031	ENST00000528954;ENST00000395074	D;D	0.87029	-2.2;-2.2	6.03	2.1	0.27182	Zinc finger, LIM-type (2);	0.221957	0.39274	N	0.001420	T	0.70842	0.3270	N	0.02973	-0.45	0.44042	D	0.996771	P;B;B	0.36990	0.577;0.097;0.25	B;B;B	0.40038	0.317;0.013;0.089	T	0.68750	-0.5326	10	0.38643	T	0.18	.	9.295	0.37811	0.0:0.6642:0.0:0.3358	.	305;330;325	B7Z5P7;B4DV71;O60711	.;.;LPXN_HUMAN	Q	330;325	ENSP00000431284:R330Q;ENSP00000378512:R325Q	ENSP00000378512:R325Q	R	-	2	0	LPXN	58051690	0.002000	0.14202	0.998000	0.56505	0.756000	0.42949	0.015000	0.13355	0.885000	0.36088	0.557000	0.71058	CGG		0.542	LPXN-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000394709.1	NM_004811		T	58295114	C	T	58295114	3	4	606	1	0	0	0	0	1	0	0	0	8936	652	23	1	190	1	LPXN	11	58295114	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	1826998	58295114	76711402	121	36617										
OR4D11	219986	hgsc.bcm.edu;broad.mit.edu	37	chr11	59271133	59271133	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	accagagtttggtcttgtttCtttttttatgtcttgtgtac	8	6	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:59271133C>G	ENST00000313253.1	+	1	85	c.85C>G	c.(85-87)Ctt>Gtt	p.L29V		NM_001004706.1	NP_001004706.1	Q8NGI4	OR4DB_HUMAN	olfactory receptor, family 4, subfamily D, member 11	29						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(2)|large_intestine(3)|liver(2)|lung(17)|ovary(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	29						GGTCTTGTTTCTTTTTTTATG	0.433																																																0													103	96	98					11																	59271133		2201	4295	6496	SO:0001583	missense	219986			AB065810	CCDS31563.1	11q12.1	2012-08-09		2004-03-10	ENSG00000176200	ENSG00000176200		"GPCR / Class A : Olfactory receptors"	15174	protein-coding gene	gene with protein product				OR4D11P			Standard	NM_001004706		Approved		uc001noa.1	Q8NGI4	OTTHUMG00000167342	ENST00000313253.1:c.85C>G	11.37:g.59271133C>G	ENSP00000320077:p.Leu29Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000313253.1	37	CCDS31563.1	.	.	.	.	.	.	.	.	.	.	C	0	-2.816889	0.00072	.	.	ENSG00000176200	ENST00000313253	T	0.00418	7.49	5.45	-1.74	0.08056	.	0.332667	0.21503	N	0.073498	T	0.00144	0.0004	N	0.16233	0.39	0.20638	N	0.999875	B	0.02656	0.0	B	0.06405	0.002	T	0.46176	-0.9210	10	0.02654	T	1	-9.7981	2.6212	0.04917	0.2091:0.3651:0.287:0.1389	.	29	Q8NGI4	OR4DB_HUMAN	V	29	ENSP00000320077:L29V	ENSP00000320077:L29V	L	+	1	0	OR4D11	59027709	0.000000	0.05858	0.184000	0.23157	0.091000	0.18340	-1.215000	0.02985	-0.006000	0.14370	-0.311000	0.09066	CTT		0.433	OR4D11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394236.1	NM_001004706		G	59271133	C	G	59271133	3	3	606	1	0	0	0	0	1	0	0	0	11062	913	32	4	87	4	OR4D11	11	59271133	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	976019	59271133	75735383	122	36618										
GSTP1	2950	ucsc.edu	37	chr11	67352042	67352042	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gctcactcaaagcctcctgcGtaagtgaccatgcccgggca	10	15	2	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:67352042G>C	ENST00000398606.3	+	3	393		c.e3+1		GSTP1_ENST00000398603.1_Splice_Site|GSTP1_ENST00000498765.1_Splice_Site	NM_000852.3	NP_000843.1	P09211	GSTP1_HUMAN	glutathione S-transferase pi 1						cellular response to lipopolysaccharide (GO:0071222)|central nervous system development (GO:0007417)|common myeloid progenitor cell proliferation (GO:0035726)|glutathione derivative biosynthetic process (GO:1901687)|glutathione metabolic process (GO:0006749)|negative regulation of acute inflammatory response (GO:0002674)|negative regulation of apoptotic process (GO:0043066)|negative regulation of biosynthetic process (GO:0009890)|negative regulation of ERK1 and ERK2 cascade (GO:0070373)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of interleukin-1 beta production (GO:0032691)|negative regulation of JUN kinase activity (GO:0043508)|negative regulation of leukocyte proliferation (GO:0070664)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of MAPK cascade (GO:0043409)|negative regulation of monocyte chemotactic protein-1 production (GO:0071638)|negative regulation of nitric-oxide synthase biosynthetic process (GO:0051771)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of stress-activated MAPK cascade (GO:0032873)|negative regulation of tumor necrosis factor production (GO:0032720)|negative regulation of tumor necrosis factor-mediated signaling pathway (GO:0010804)|nitric oxide storage (GO:0035732)|positive regulation of superoxide anion generation (GO:0032930)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of stress-activated MAPK cascade (GO:0032872)|response to reactive oxygen species (GO:0000302)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|TRAF2-GSTP1 complex (GO:0097057)|vesicle (GO:0031982)	dinitrosyl-iron complex binding (GO:0035731)|glutathione transferase activity (GO:0004364)|JUN kinase binding (GO:0008432)|kinase regulator activity (GO:0019207)|nitric oxide binding (GO:0070026)|S-nitrosoglutathione binding (GO:0035730)			central_nervous_system(1)|cervix(1)|endometrium(4)|lung(2)|ovary(1)	9					Busulfan(DB01008)|Carboplatin(DB00958)|Chlorambucil(DB00291)|Cisplatin(DB00515)|Clomipramine(DB01242)|Etoposide(DB00773)|Glutathione(DB00143)|Oxaliplatin(DB00526)|Vitamin E(DB00163)	AGCCTCCTGCGTAAGTGACCA	0.672																																																0													14	18	17					11																	67352042		1959	4140	6099	SO:0001630	splice_region_variant	2950			U12472	CCDS41679.1	11q13.2	2014-09-17	2008-07-18		ENSG00000084207	ENSG00000084207	2.5.1.18	"Glutathione S-transferases / Soluble"	4638	protein-coding gene	gene with protein product		134660		FAEES3, GST3		1885604, 7587384, 19915149	Standard	NM_000852		Approved	GSTP	uc001omf.3	P09211	OTTHUMG00000137430	ENST00000398606.3:c.144+1G>C	11.37:g.67352042G>C		Somatic		WXS	Illumina HiSeq		O00460|Q15690|Q5TZY3	Splice_Site	SNP	ENST00000398606.3	37	CCDS41679.1	.	.	.	.	.	.	.	.	.	.	G	15.36	2.811907	0.50527	.	.	ENSG00000084207	ENST00000398606;ENST00000398603	.	.	.	5.35	5.35	0.76521	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.5527	0.68078	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	GSTP1	67108618	1.000000	0.71417	0.998000	0.56505	0.369000	0.29798	4.707000	0.61852	2.505000	0.84491	0.561000	0.74099	.		0.672	GSTP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268504.1	NM_000852	Intron	C	67352042	G	C	67352042	5	2	606	1	0	0	0	0	0	0	1	0	6851	1159	40	4	155	4	GSTP1	11	67352042	Splice_Site	SNP	G	TCGA-HE-7130-01A-11D-1961-08	8080909	67352042	67654474	123	36619										
LRP5	4041	broad.mit.edu;bcgsc.ca	37	chr11	68197137	68197137	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgctcatgcccagtccacctCgtgctcctgcagaacctgct	8	17	1	1	rs556919142		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:68197137C>T	ENST00000294304.7	+	17	3838	c.3732C>T	c.(3730-3732)ctC>ctT	p.L1244L		NM_002335.2	NP_002326.2	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein 5	1244	EGF-like 4.				adipose tissue development (GO:0060612)|anatomical structure regression (GO:0060033)|anterior/posterior pattern specification (GO:0009952)|apoptotic process involved in patterning of blood vessels (GO:1902262)|bone marrow development (GO:0048539)|bone morphogenesis (GO:0060349)|bone remodeling (GO:0046849)|branching involved in mammary gland duct morphogenesis (GO:0060444)|canonical Wnt signaling pathway (GO:0060070)|cell migration involved in gastrulation (GO:0042074)|cell-cell signaling involved in mammary gland development (GO:0060764)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|embryonic camera-type eye morphogenesis (GO:0048596)|embryonic digit morphogenesis (GO:0042733)|embryonic limb morphogenesis (GO:0030326)|embryonic retina morphogenesis in camera-type eye (GO:0060059)|endocytosis (GO:0006897)|extracellular matrix-cell signaling (GO:0035426)|gastrulation with mouth forming second (GO:0001702)|glucose catabolic process (GO:0006007)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of protein serine/threonine kinase activity (GO:0071901)|osteoblast development (GO:0002076)|positive regulation of cell proliferation (GO:0008284)|positive regulation of fat cell differentiation (GO:0045600)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of mitosis (GO:0045840)|positive regulation of osteoblast proliferation (GO:0033690)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of apoptotic process (GO:0042981)|regulation of blood pressure (GO:0008217)|regulation of bone remodeling (GO:0046850)|regulation of canonical Wnt signaling pathway (GO:0060828)|regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0061178)|response to peptide hormone (GO:0043434)|retina morphogenesis in camera-type eye (GO:0060042)|retinal blood vessel morphogenesis (GO:0061304)|somatic stem cell maintenance (GO:0035019)|Wnt signaling pathway (GO:0016055)|Wnt signaling pathway involved in dorsal/ventral axis specification (GO:0044332)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	coreceptor activity (GO:0015026)|Wnt-activated receptor activity (GO:0042813)|Wnt-protein binding (GO:0017147)			autonomic_ganglia(1)|breast(3)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|lung(24)|ovary(5)|pancreas(1)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	63						CAGTCCACCTCGTGCTCCTGC	0.592													C|||	1	0.000199681	0.0	0.0	5008	,	,		21123	0.0		0.0	False		,,,				2504	0.001															0													147	108	122					11																	68197137		2200	4294	6494	SO:0001819	synonymous_variant	4041			AF064548	CCDS8181.1	11q13.4	2014-01-28	2003-03-12		ENSG00000162337	ENSG00000162337		"Low density lipoprotein receptors"	6697	protein-coding gene	gene with protein product		603506	"osteoporosis pseudoglioma syndrome", "exudative vitreoretinopathy 1"	LRP7, OPPG, EVR1		9714764, 10049586	Standard	XM_005273994		Approved	LR3, BMND1, HBM, OPS, OPTA1, VBCH2, EVR4	uc001ont.3	O75197	OTTHUMG00000167570	ENST00000294304.7:c.3732C>T	11.37:g.68197137C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q96TD6|Q9UES7|Q9UP66	Silent	SNP	ENST00000294304.7	37	CCDS8181.1																																																																																				0.592	LRP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395088.1	NM_002335		T	68197137	C	T	68197137	2	4	606	1	0	0	0	0	0	0	0	1	8967	871	31	1		1	LRP5	11	68197137	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	845095	68197137	66809379	124	36620										
NARS2	79731	hgsc.bcm.edu	37	chr11	78154732	78154732	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	taagcgctcctctaagaaatGgtatcgttcttctctgaggc	9	10	3	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:78154732G>C	ENST00000281038.5	-	12	1612	c.1237C>G	c.(1237-1239)Cat>Gat	p.H413D	NARS2_ENST00000528850.1_Missense_Mutation_p.H186D|RP11-452H21.1_ENST00000534168.1_RNA	NM_001243251.1|NM_024678.5	NP_001230180.1|NP_078954.4	Q96I59	SYNM_HUMAN	asparaginyl-tRNA synthetase 2, mitochondrial (putative)	413					asparaginyl-tRNA aminoacylation (GO:0006421)|gene expression (GO:0010467)|tRNA aminoacylation for protein translation (GO:0006418)	mitochondrion (GO:0005739)	asparagine-tRNA ligase activity (GO:0004816)|ATP binding (GO:0005524)|nucleic acid binding (GO:0003676)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(9)|ovary(2)|prostate(2)|skin(1)	27	all_cancers(14;2.63e-17)|all_epithelial(13;1.85e-19)				L-Asparagine(DB00174)	TCTAAGAAATGGTATCGTTCT	0.423																																																0													96	91	93					11																	78154732		2200	4292	6492	SO:0001583	missense	79731			BC007800	CCDS8261.1, CCDS58164.1	11q14.1	2011-07-01	2007-02-23		ENSG00000137513	ENSG00000137513	6.1.1.22	"Aminoacyl tRNA synthetases / Class II"	26274	protein-coding gene	gene with protein product	"asparagine tRNA ligase 2, mitochondrial (putative)"	612803				15779907	Standard	NM_024678		Approved	FLJ23441, SLM5	uc001ozi.3	Q96I59	OTTHUMG00000166702	ENST00000281038.5:c.1237C>G	11.37:g.78154732G>C	ENSP00000281038:p.His413Asp	Somatic		WXS	Illumina HiSeq	Phase_I	G3V178	Missense_Mutation	SNP	ENST00000281038.5	37	CCDS8261.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	15.65|15.65	2.895206|2.895206	0.52121|0.52121	.|.	.|.	ENSG00000137513|ENSG00000137513	ENST00000281038;ENST00000528850|ENST00000529771	T;T|.	0.77229|.	-1.08;-1.08|.	4.96|4.96	4.96|4.96	0.65561|0.65561	Aminoacyl-tRNA synthetase, class II (1);Aminoacyl-tRNA synthetase, class II (D/K/N) (1);|.	0.189082|.	0.56097|.	D|.	0.000031|.	T|T	0.10551|0.10551	0.0258|0.0258	N|N	0.00106|0.00106	-2.12|-2.12	0.35491|0.35491	D|D	0.798978|0.798978	B|.	0.06786|.	0.001|.	B|.	0.10450|.	0.005|.	T|T	0.29579|0.29579	-1.0007|-1.0007	10|5	0.02654|.	T|.	1|.	-6.0659|-6.0659	15.1595|15.1595	0.72771|0.72771	0.0:0.1415:0.8585:0.0|0.0:0.1415:0.8585:0.0	.|.	413|.	Q96I59|.	SYNM_HUMAN|.	D|R	413;186|25	ENSP00000281038:H413D;ENSP00000432635:H186D|.	ENSP00000281038:H413D|.	H|P	-|-	1|2	0|0	NARS2|NARS2	77832380|77832380	1.000000|1.000000	0.71417|0.71417	0.999000|0.999000	0.59377|0.59377	0.992000|0.992000	0.81027|0.81027	2.432000|2.432000	0.44784|0.44784	2.734000|2.734000	0.93682|0.93682	0.591000|0.591000	0.81541|0.81541	CAT|CCA		0.423	NARS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391138.2	NM_024678		C	78154732	G	C	78154732	3	2	606	1	0	0	0	0	1	0	0	0	10178	1348	47	4	208	4	NARS2	11	78154732	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	9957595	78154732	56851784	125	36621										
FAM181B	220382	broad.mit.edu	37	chr11	82444012	82444012	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctccgcgcccttctccaggtCgcccaagctcacgtccggcc	9	21	2	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:82444012C>T	ENST00000329203.3	-	1	894	c.760G>A	c.(760-762)Gac>Aac	p.D254N		NM_175885.3	NP_787081.2	A6NEQ2	F181B_HUMAN	family with sequence similarity 181, member B	254	Gly-rich.									large_intestine(1)|lung(2)|prostate(1)	4						TTCTCCAGGTCGCCCAAGCTC	0.731																																																0													5	6	5					11																	82444012		1957	3912	5869	SO:0001583	missense	220382			AK095054, BC039262	CCDS31648.1	11q14.1	2011-11-30			ENSG00000182103	ENSG00000182103			28512	protein-coding gene	gene with protein product						12477932	Standard	NM_175885		Approved	LOC220382, MGC33846	uc001ozp.3	A6NEQ2	OTTHUMG00000166869	ENST00000329203.3:c.760G>A	11.37:g.82444012C>T	ENSP00000365295:p.Asp254Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2RWP1	Missense_Mutation	SNP	ENST00000329203.3	37	CCDS31648.1	.	.	.	.	.	.	.	.	.	.	C	31	5.087202	0.94100	.	.	ENSG00000182103	ENST00000329203	T	0.33654	1.4	4.36	4.36	0.52297	.	0.175158	0.37906	U	0.001900	T	0.42177	0.1191	L	0.29908	0.895	0.43885	D	0.996506	D	0.71674	0.998	P	0.57548	0.823	T	0.23655	-1.0182	9	.	.	.	.	16.4743	0.84128	0.0:1.0:0.0:0.0	.	254	A6NEQ2	F181B_HUMAN	N	254	ENSP00000365295:D254N	.	D	-	1	0	FAM181B	82121660	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	4.269000	0.58890	1.969000	0.57287	0.462000	0.41574	GAC		0.731	FAM181B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391626.1	NM_175885		T	82444012	C	T	82444012	3	4	606	1	0	0	0	0	1	0	0	0	5513	884	31	1	524	1	FAM181B	11	82444012	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	4289280	82444012	52562504	126	36622										
CREBZF	58487	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	85375684	85375684	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cctcctccatctcctcggggGagggcgcgcgcacggccacg	14	18	1	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:85375684G>A	ENST00000527447.1	-	1	462	c.236C>T	c.(235-237)tCc>tTc	p.S79F	CREBZF_ENST00000398294.2_5'UTR|CREBZF_ENST00000531515.1_Intron|CREBZF_ENST00000534224.1_Intron	NM_001039618.2	NP_001034707.1	Q9NS37	ZHANG_HUMAN	CREB/ATF bZIP transcription factor	79					negative regulation of gene expression, epigenetic (GO:0045814)|negative regulation of transcription, DNA-templated (GO:0045892)|regulation of sequence-specific DNA binding transcription factor activity (GO:0051090)|response to virus (GO:0009615)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|identical protein binding (GO:0042802)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			cervix(1)|endometrium(1)|kidney(1)|large_intestine(3)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	9		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)				CTCCTCGGGGGAGGGCGCGCG	0.701																																					NSCLC(172;674 2044 9050 18334 41735)											0													35	42	40					11																	85375684		1861	4083	5944	SO:0001583	missense	58487			AF039942	CCDS41697.1	11q14.1	2013-01-10			ENSG00000137504	ENSG00000137504		"basic leucine zipper proteins"	24905	protein-coding gene	gene with protein product	"Zhangfei"	606444				10871379	Standard	NM_001039618		Approved	ZF	uc001pas.2	Q9NS37	OTTHUMG00000133648	ENST00000527447.1:c.236C>T	11.37:g.85375684G>A	ENSP00000433459:p.Ser79Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8Q9|Q0P5U9|Q52LT3	Missense_Mutation	SNP	ENST00000527447.1	37	CCDS41697.1	.	.	.	.	.	.	.	.	.	.	G	14.77	2.635626	0.47049	.	.	ENSG00000137504	ENST00000527447	.	.	.	3.72	3.72	0.42706	.	0.000000	0.33217	U	0.005143	T	0.29749	0.0743	N	0.08118	0	0.80722	D	1	B	0.31910	0.346	B	0.35550	0.205	T	0.09443	-1.0674	8	.	.	.	-19.421	8.7689	0.34719	0.0:0.0:0.7748:0.2252	.	79	Q9NS37	ZHANG_HUMAN	F	79	.	.	S	-	2	0	CREBZF	85053332	0.998000	0.40836	0.998000	0.56505	0.982000	0.71751	2.082000	0.41605	2.068000	0.61886	0.561000	0.74099	TCC		0.701	CREBZF-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390191.2	NM_001039618		A	85375684	G	A	85375684	3	1	606	1	0	0	0	0	1	0	0	0	3865	1174	41	2	832	2	CREBZF	11	85375684	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	2931672	85375684	49630832	127	36623										
MTMR2	8898	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	95621408	95621408	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ttgtatgcactgaattctctGaatgagaagtggaggcacta	11	6	1	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:95621408G>A	ENST00000346299.5	-	2	438	c.98C>T	c.(97-99)tCa>tTa	p.S33L	MTMR2_ENST00000409459.1_5'UTR|MTMR2_ENST00000393223.3_5'UTR|MTMR2_ENST00000484818.1_5'UTR|MTMR2_ENST00000352297.7_5'UTR	NM_016156.5	NP_057240.3	Q13614	MTMR2_HUMAN	myotubularin related protein 2	33	Ser-rich.				cell death (GO:0008219)|dendritic spine maintenance (GO:0097062)|inositol phosphate dephosphorylation (GO:0046855)|myelin assembly (GO:0032288)|negative regulation of endocytosis (GO:0045806)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|negative regulation of myelination (GO:0031642)|negative regulation of receptor catabolic process (GO:2000645)|negative regulation of receptor internalization (GO:0002091)|neuron development (GO:0048666)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phospholipid metabolic process (GO:0006644)|positive regulation of early endosome to late endosome transport (GO:2000643)|protein dephosphorylation (GO:0006470)|protein tetramerization (GO:0051262)|small molecule metabolic process (GO:0044281)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|dendritic spine (GO:0043197)|endosome (GO:0005768)|neuronal postsynaptic density (GO:0097481)|nucleus (GO:0005634)|synaptic membrane (GO:0097060)|synaptic vesicle (GO:0008021)|vacuolar membrane (GO:0005774)	phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity (GO:0052629)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)			autonomic_ganglia(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(6)|ovary(1)|pancreas(1)|prostate(1)|skin(1)	19		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TGAATTCTCTGAATGAGAAGT	0.358																																																0													75	71	72					11																	95621408		2201	4298	6499	SO:0001583	missense	8898			U58033	CCDS8305.1, CCDS8306.1	11q22	2014-09-17			ENSG00000087053	ENSG00000087053		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	7450	protein-coding gene	gene with protein product		603557		CMT4B		8640223, 9736772	Standard	NM_016156		Approved	KIAA1073	uc001pfu.3	Q13614	OTTHUMG00000153837	ENST00000346299.5:c.98C>T	11.37:g.95621408G>A	ENSP00000345752:p.Ser33Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NN98|Q9UPS9	Missense_Mutation	SNP	ENST00000346299.5	37	CCDS8305.1	.	.	.	.	.	.	.	.	.	.	G	22.9	4.348120	0.82132	.	.	ENSG00000087053	ENST00000346299;ENST00000546018	D	0.95069	-3.6	5.81	5.81	0.92471	.	0.282561	0.35291	N	0.003307	D	0.94185	0.8134	L	0.32530	0.975	0.80722	D	1	P;D	0.54601	0.791;0.967	B;P	0.60789	0.15;0.879	D	0.91270	0.5043	10	0.12103	T	0.63	.	16.9897	0.86350	0.0:0.0:1.0:0.0	.	33;33	A8K5G2;Q13614	.;MTMR2_HUMAN	L	33;16	ENSP00000345752:S33L	ENSP00000345752:S33L	S	-	2	0	MTMR2	95261056	1.000000	0.71417	1.000000	0.80357	0.897000	0.52465	5.703000	0.68340	2.750000	0.94351	0.655000	0.94253	TCA		0.358	MTMR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000332620.1	NM_016156		A	95621408	G	A	95621408	3	1	606	1	0	0	0	0	1	0	0	0	9951	1294	45	2	1889	2	MTMR2	11	95621408	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	10245724	95621408	39385108	128	36624										
YAP1	10413	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	102080284	102080284	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	atcccagcacagcaaattctCcaaaatgtcaggtaggctct	7	12	3	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:102080284C>G	ENST00000282441.5	+	6	1409	c.1021C>G	c.(1021-1023)Cca>Gca	p.P341A	YAP1_ENST00000345877.2_Intron|YAP1_ENST00000526343.1_Intron|YAP1_ENST00000531439.1_Intron|YAP1_ENST00000537274.1_Intron|YAP1_ENST00000524575.1_Missense_Mutation_p.P163A	NM_001130145.2|NM_001282101.1	NP_001123617.1|NP_001269030.1	P46937	YAP1_HUMAN	Yes-associated protein 1	341	Transactivation domain.				cell proliferation (GO:0008283)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to gamma radiation (GO:0071480)|contact inhibition (GO:0060242)|embryonic heart tube morphogenesis (GO:0003143)|gene expression (GO:0010467)|hippo signaling (GO:0035329)|keratinocyte differentiation (GO:0030216)|lateral mesoderm development (GO:0048368)|negative regulation of epithelial cell differentiation (GO:0030857)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|notochord development (GO:0030903)|paraxial mesoderm development (GO:0048339)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cell proliferation (GO:0008284)|positive regulation of organ growth (GO:0046622)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of keratinocyte proliferation (GO:0010837)|regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072307)|regulation of stem cell proliferation (GO:0072091)|somatic stem cell maintenance (GO:0035019)|transcription initiation from RNA polymerase II promoter (GO:0006367)|vasculogenesis (GO:0001570)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|RNA polymerase II transcription factor binding transcription factor activity (GO:0001076)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)|transcription regulatory region DNA binding (GO:0044212)			central_nervous_system(1)|large_intestine(1)|lung(1)|ovary(1)	4	all_cancers(8;0.000575)|all_epithelial(12;0.00564)	Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.00936)	Lung(13;0.245)	BRCA - Breast invasive adenocarcinoma(274;0.0189)		AGCAAATTCTCCAAAATGTCA	0.368																																					Colon(50;247 1103 7861 28956)											0													142	126	131					11																	102080284		1568	3581	5149	SO:0001583	missense	10413				CCDS8314.1, CCDS44716.1, CCDS8314.2, CCDS53699.1, CCDS53700.1, CCDS60944.1, CCDS73373.1, CCDS73374.1	11q13	2010-03-19	2010-03-19		ENSG00000137693	ENSG00000137693			16262	protein-coding gene	gene with protein product		606608	"Yes-associated protein 1, 65kDa"			7782338	Standard	NM_001130145		Approved	YAP65	uc001pgt.3	P46937	OTTHUMG00000167322	ENST00000282441.5:c.1021C>G	11.37:g.102080284C>G	ENSP00000282441:p.Pro341Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTY1|B7ZA01|E3WEB5|E3WEB6|E9PRV2|F5H202|K0KQ18|K0KYZ8|K0L195|K0L1G3|Q7Z574|Q8IUY9	Missense_Mutation	SNP	ENST00000282441.5	37	CCDS44716.1	.	.	.	.	.	.	.	.	.	.	C	16.49	3.138326	0.56936	.	.	ENSG00000137693	ENST00000282441;ENST00000445250;ENST00000524575	T	0.39592	1.07	6.17	6.17	0.99709	.	0.226095	0.38720	N	0.001598	T	0.46386	0.1390	N	0.08118	0	0.80722	D	1	D;D;D	0.69078	0.993;0.996;0.997	D;D;D	0.73708	0.956;0.981;0.98	T	0.49399	-0.8944	10	0.35671	T	0.21	.	19.0599	0.93085	0.0:1.0:0.0:0.0	.	163;258;341	B4DTY1;F5GWC5;P46937	.;.;YAP1_HUMAN	A	341;258;163	ENSP00000435602:P163A	ENSP00000282441:P341A	P	+	1	0	YAP1	101585494	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	4.770000	0.62309	2.941000	0.99782	0.655000	0.94253	CCA		0.368	YAP1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000394151.1	NM_006106		G	102080284	C	G	102080284	3	3	606	1	0	0	0	0	1	0	0	0	17478	855	30	4	1055	4	YAP1	11	102080284	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	6458876	102080284	32926232	129	36625										
YAP1	10413	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	102098224	102098224	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	acctatcactctcgagatgaGagtacagacagtggactaag	10	9	2	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:102098224G>C	ENST00000282441.5	+	8	1576	c.1188G>C	c.(1186-1188)gaG>gaC	p.E396D	YAP1_ENST00000345877.2_Missense_Mutation_p.E346D|YAP1_ENST00000526343.1_Missense_Mutation_p.E342D|YAP1_ENST00000528834.1_3'UTR|YAP1_ENST00000531439.1_Missense_Mutation_p.E380D|YAP1_ENST00000537274.1_Missense_Mutation_p.E384D|RP11-864G5.3_ENST00000526310.1_RNA|YAP1_ENST00000524575.1_Missense_Mutation_p.E218D	NM_001130145.2|NM_001282101.1	NP_001123617.1|NP_001269030.1	P46937	YAP1_HUMAN	Yes-associated protein 1	396	Transactivation domain.				cell proliferation (GO:0008283)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to gamma radiation (GO:0071480)|contact inhibition (GO:0060242)|embryonic heart tube morphogenesis (GO:0003143)|gene expression (GO:0010467)|hippo signaling (GO:0035329)|keratinocyte differentiation (GO:0030216)|lateral mesoderm development (GO:0048368)|negative regulation of epithelial cell differentiation (GO:0030857)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|notochord development (GO:0030903)|paraxial mesoderm development (GO:0048339)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cell proliferation (GO:0008284)|positive regulation of organ growth (GO:0046622)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of keratinocyte proliferation (GO:0010837)|regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072307)|regulation of stem cell proliferation (GO:0072091)|somatic stem cell maintenance (GO:0035019)|transcription initiation from RNA polymerase II promoter (GO:0006367)|vasculogenesis (GO:0001570)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|RNA polymerase II transcription factor binding transcription factor activity (GO:0001076)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)|transcription regulatory region DNA binding (GO:0044212)			central_nervous_system(1)|large_intestine(1)|lung(1)|ovary(1)	4	all_cancers(8;0.000575)|all_epithelial(12;0.00564)	Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.00936)	Lung(13;0.245)	BRCA - Breast invasive adenocarcinoma(274;0.0189)		CTCGAGATGAGAGTACAGACA	0.408																																					Colon(50;247 1103 7861 28956)											0													155	119	131					11																	102098224		2203	4299	6502	SO:0001583	missense	10413				CCDS8314.1, CCDS44716.1, CCDS8314.2, CCDS53699.1, CCDS53700.1, CCDS60944.1, CCDS73373.1, CCDS73374.1	11q13	2010-03-19	2010-03-19		ENSG00000137693	ENSG00000137693			16262	protein-coding gene	gene with protein product		606608	"Yes-associated protein 1, 65kDa"			7782338	Standard	NM_001130145		Approved	YAP65	uc001pgt.3	P46937	OTTHUMG00000167322	ENST00000282441.5:c.1188G>C	11.37:g.102098224G>C	ENSP00000282441:p.Glu396Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTY1|B7ZA01|E3WEB5|E3WEB6|E9PRV2|F5H202|K0KQ18|K0KYZ8|K0L195|K0L1G3|Q7Z574|Q8IUY9	Missense_Mutation	SNP	ENST00000282441.5	37	CCDS44716.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	19.43|19.43	3.825846|3.825846	0.71143|0.71143	.|.	.|.	ENSG00000137693|ENSG00000137693	ENST00000526343;ENST00000282441;ENST00000537274;ENST00000345877;ENST00000445250;ENST00000531439;ENST00000524575|ENST00000529029	T;T;T|.	0.56103|.	0.48;0.5;0.6|.	5.28|5.28	1.34|1.34	0.21922|0.21922	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.61527|0.61527	0.2354|0.2354	M|M	0.65975|0.65975	2.015|2.015	0.48632|0.48632	D|D	0.999686|0.999686	P;D;D;D;D;D|.	0.71674|.	0.956;0.998;0.991;0.97;0.991;0.998|.	D;D;P;P;P;P|.	0.68353|.	0.931;0.957;0.82;0.774;0.82;0.875|.	T|T	0.55354|0.55354	-0.8154|-0.8154	10|5	0.32370|.	T|.	0.25|.	.|.	9.06|9.06	0.36429|0.36429	0.4715:0.0:0.5285:0.0|0.4715:0.0:0.5285:0.0	.|.	218;313;342;380;396;346|.	B4DTY1;F5GWC5;E9PRV2;P46937-2;P46937;P46937-3|.	.;.;.;.;YAP1_HUMAN;.|.	D|T	342;396;384;346;313;380;218|150	ENSP00000434134:E342D;ENSP00000331023:E346D;ENSP00000435602:E218D|.	ENSP00000282441:E396D|.	E|R	+|+	3|2	2|0	YAP1|YAP1	101603434|101603434	1.000000|1.000000	0.71417|0.71417	0.994000|0.994000	0.49952|0.49952	0.980000|0.980000	0.70556|0.70556	2.046000|2.046000	0.41260|0.41260	-0.001000|-0.001000	0.14495|0.14495	0.650000|0.650000	0.86243|0.86243	GAG|AGA		0.408	YAP1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000394151.1	NM_006106		C	102098224	G	C	102098224	3	2	606	1	0	0	0	0	1	0	0	0	17478	933	33	4	1230	4	YAP1	11	102098224	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	17940	102098224	32908292	130	36626										
HTR3A	3359	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	113856896	113856896	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctatgcagaaatgaagttctAtgtgagtgggagtgaatgtg	14	3	1	4			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:113856896A>G	ENST00000504030.2	+	6	1149	c.704A>G	c.(703-705)tAt>tGt	p.Y235C	HTR3A_ENST00000355556.2_Splice_Site_p.Y241C|HTR3A_ENST00000535865.1_Intron|HTR3A_ENST00000506841.2_Splice_Site_p.Y235C|HTR3A_ENST00000375498.2_Splice_Site_p.Y241C|HTR3A_ENST00000299961.5_Splice_Site_p.Y220C			P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A, ionotropic	235					cation transmembrane transport (GO:0098655)|cation transport (GO:0006812)|cellular response to growth factor stimulus (GO:0071363)|digestion (GO:0007586)|ion transmembrane transport (GO:0034220)|response to cocaine (GO:0042220)|response to ethanol (GO:0045471)|serotonin receptor signaling pathway (GO:0007210)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|transport (GO:0006810)	axon (GO:0030424)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	receptor activity (GO:0004872)|serotonin binding (GO:0051378)|serotonin receptor activity (GO:0004993)|serotonin-activated cation-selective channel activity (GO:0005232)|voltage-gated potassium channel activity (GO:0005249)			central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(14)|prostate(1)|skin(4)|upper_aerodigestive_tract(3)	36		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Amoxapine(DB00543)|Aripiprazole(DB01238)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Clozapine(DB00363)|Dolasetron(DB00757)|Ergoloid mesylate(DB01049)|Granisetron(DB00889)|Loxapine(DB00408)|Memantine(DB01043)|Methadone(DB00333)|Metoclopramide(DB01233)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Quetiapine(DB01224)|Rocuronium(DB00728)|Tapentadol(DB06204)|Trimipramine(DB00726)|Tubocurarine(DB01199)|Ziprasidone(DB00246)	ATGAAGTTCTATGTGAGTGGG	0.463																																																0													127	129	128					11																	113856896		2201	4296	6497	SO:0001630	splice_region_variant	3359			D49394	CCDS8365.1, CCDS8366.1, CCDS8365.2, CCDS8366.2, CCDS53710.1	11q23.1-q23.2	2012-05-22	2012-02-03					"5-HT (serotonin) receptors", "Ligand-gated ion channels / 5-HT (serotonin) receptors, ionotropic"	5297	protein-coding gene	gene with protein product		182139	"5-hydroxytryptamine (serotonin) receptor 3A"	HTR3		8530095, 12867984	Standard	NM_000869		Approved	5-HT3R, 5-HT3A	uc010rxb.2	P46098		ENST00000504030.2:c.705+1A>G	11.37:g.113856896A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DSY6|G5E986|O60854|Q7KZM7|Q99918|Q9BSZ9	Missense_Mutation	SNP	ENST00000504030.2	37		.	.	.	.	.	.	.	.	.	.	A	14.92	2.678107	0.47886	.	.	ENSG00000166736	ENST00000504030;ENST00000355556;ENST00000375498;ENST00000506841;ENST00000299961	T;T;T;T;T	0.80033	-1.33;-1.33;-1.33;-1.33;-1.33	5.19	5.19	0.71726	.	0.238980	0.43579	D	0.000549	D	0.87390	0.6165	M	0.73598	2.24	0.80722	D	1	D;D;D	0.71674	0.996;0.998;0.998	P;P;D	0.66351	0.905;0.887;0.943	D	0.87931	0.2710	10	0.54805	T	0.06	-11.3278	11.1542	0.48478	0.8621:0.0:0.0:0.1379	.	220;241;241	B4DSY6;G5E986;Q7KZM7	.;.;.	C	235;241;241;235;220	ENSP00000424189:Y235C;ENSP00000347754:Y241C;ENSP00000364648:Y241C;ENSP00000424776:Y235C;ENSP00000299961:Y220C	ENSP00000299961:Y220C	Y	+	2	0	HTR3A	113362106	1.000000	0.71417	0.987000	0.45799	0.454000	0.32378	4.949000	0.63596	2.079000	0.62486	0.533000	0.62120	TAT		0.463	HTR3A-001	KNOWN	upstream_ATG|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000360822.2	NM_000869	Missense_Mutation	G	113856896	A	G	113856896	5	3	606	1	0	0	0	0	0	0	1	0	7451	463	16	3	770	3	HTR3A	11	113856896	Splice_Site	SNP	A	TCGA-HE-7130-01A-11D-1961-08	11758672	113856896	21149620	131	36627										
PCSK7	9159	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	117097976	117097976	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ccatggtggttgccattctcCacatccgggtggggcatggg	15	11	1	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:117097976C>A	ENST00000320934.3	-	5	1296	c.666G>T	c.(664-666)gtG>gtT	p.V222V		NM_004716.2	NP_004707.2	Q16549	PCSK7_HUMAN	proprotein convertase subtilisin/kexin type 7	222	Peptidase S8.				peptide hormone processing (GO:0016486)|protein processing (GO:0016485)	integral component of Golgi membrane (GO:0030173)	peptidase activity (GO:0008233)|serine-type endopeptidase activity (GO:0004252)			NS(1)|endometrium(3)|large_intestine(2)|lung(8)|ovary(1)|skin(1)	16	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.72e-06)|Epithelial(105;6.71e-05)|all cancers(92;0.000537)		TGCCATTCTCCACATCCGGGT	0.582			T	IGH@	MLCLS																																		Dom	yes		11	11q23.3	9159	proprotein convertase subtilisin/kexin type 7		L	0													117	108	111					11																	117097976		2201	4296	6497	SO:0001819	synonymous_variant	9159			U40623	CCDS8382.1	11q23-q24	2008-02-01			ENSG00000160613	ENSG00000160613			8748	protein-coding gene	gene with protein product		604872				8615762, 9820811	Standard	XM_006718938		Approved	PC7, PC8, LPC, SPC7	uc001pqr.3	Q16549	OTTHUMG00000165640	ENST00000320934.3:c.666G>T	11.37:g.117097976C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ60|Q3C1X1|Q53GM4|Q96FK8|Q9UL57	Silent	SNP	ENST00000320934.3	37	CCDS8382.1																																																																																				0.582	PCSK7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385529.2	NM_004716		A	117097976	C	A	117097976	2	1	606	1	0	0	0	0	0	0	0	1	11612	581	21	4		4	PCSK7	11	117097976	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	3241080	117097976	17908540	132	36628										
HSPA8	3312	bcgsc.ca	37	chr11	122929378	122929379	+	In_Frame_Ins	INS	-	-	TACTCT													0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aatcttgttctcttttcccgINStactcttgtccacagcagag							TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr11:122929378_122929379insTACTCT	ENST00000532636.1	-	7	1602_1603	c.1483_1484insAGAGTA	c.(1483-1485)acg>aAGAGTAcg	p.494_495insKS	HSPA8_ENST00000526110.1_In_Frame_Ins_p.475_476insKS|HSPA8_ENST00000534319.1_In_Frame_Ins_p.258_259insKS|SNORD14D_ENST00000384390.1_RNA|HSPA8_ENST00000526862.1_5'Flank|HSPA8_ENST00000227378.3_In_Frame_Ins_p.494_495insKS|HSPA8_ENST00000533540.1_In_Frame_Ins_p.348_349insKS|HSPA8_ENST00000534624.1_In_Frame_Ins_p.494_495insKS|SNORD14C_ENST00000365382.1_RNA|SNORD14E_ENST00000364009.1_RNA|HSPA8_ENST00000453788.2_Intron			P11142	HSP7C_HUMAN	heat shock 70kDa protein 8	494					ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|chaperone mediated protein folding requiring cofactor (GO:0051085)|clathrin coat disassembly (GO:0072318)|gene expression (GO:0010467)|membrane organization (GO:0061024)|mRNA metabolic process (GO:0016071)|mRNA processing (GO:0006397)|negative regulation of fibril organization (GO:1902904)|negative regulation of transcription, DNA-templated (GO:0045892)|neurotransmitter secretion (GO:0007269)|post-Golgi vesicle-mediated transport (GO:0006892)|protein folding (GO:0006457)|protein refolding (GO:0042026)|regulation of cell cycle (GO:0051726)|response to unfolded protein (GO:0006986)|RNA metabolic process (GO:0016070)|RNA splicing (GO:0008380)|synaptic transmission (GO:0007268)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	blood microparticle (GO:0072562)|clathrin-sculpted gamma-aminobutyric acid transport vesicle membrane (GO:0061202)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|intracellular (GO:0005622)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|Prp19 complex (GO:0000974)|ribonucleoprotein complex (GO:0030529)|spliceosomal complex (GO:0005681)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled (GO:0042623)|enzyme binding (GO:0019899)|G-protein coupled receptor binding (GO:0001664)|heat shock protein binding (GO:0031072)|MHC class II protein complex binding (GO:0023026)|poly(A) RNA binding (GO:0044822)|ubiquitin protein ligase binding (GO:0031625)|unfolded protein binding (GO:0051082)			breast(1)|central_nervous_system(7)|endometrium(1)|kidney(9)|large_intestine(4)|lung(13)|upper_aerodigestive_tract(1)	36		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		CTCTTTTCCCGTACTCTTGTCC	0.446																																					Colon(21;486 594 5900 6733 14272)											0																																										SO:0001652	inframe_insertion	3312			Y00371	CCDS8440.1, CCDS44754.1	11q24.1	2011-09-02	2002-08-29		ENSG00000109971	ENSG00000109971		"Heat shock proteins / HSP70"	5241	protein-coding gene	gene with protein product		600816	"heat shock 70kD protein 8"	HSPA10		8530083, 3037489	Standard	NM_006597		Approved	HSC71, HSC70, HSP73	uc001pyo.3	P11142	OTTHUMG00000166030	ENST00000532636.1:c.1478_1483dupAGAGTA	11.37:g.122929379_122929384dupTACTCT	ENSP00000437125:p.Lys493_Ser494dup	Somatic		WXS	Illumina HiSeq	Phase_1	Q9H3R6	In_Frame_Ins	INS	ENST00000532636.1	37	CCDS8440.1																																																																																				0.446	HSPA8-004	PUTATIVE	alternative_5_UTR|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000387515.1			TACTCT	122929379	-	TACTCT	122929378	7	5	606	1	0	1	1	0	0	0	0	0	7423	1145	40	0	468	0	HSPA8	11	122929378	In_Frame_Ins	INS	-	TCGA-HE-7130-01A-11D-1961-08	5831402	122929378	12077138	133	36629										
VWF	7450	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	6167128	6167128	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cccggggctccgccagcccaGagggggtaaggaagtcgtcg	17	13	0	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr12:6167128G>C	ENST00000261405.5	-	14	1870	c.1616C>G	c.(1615-1617)tCt>tGt	p.S539C		NM_000552.3	NP_000543	P04275	VWF_HUMAN	von Willebrand factor	539	VWFD 2. {ECO:0000255|PROSITE- ProRule:PRU00580}.				blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|cell adhesion (GO:0007155)|cell-substrate adhesion (GO:0031589)|extracellular matrix organization (GO:0030198)|hemostasis (GO:0007599)|liver development (GO:0001889)|placenta development (GO:0001890)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|protein homooligomerization (GO:0051260)|response to wounding (GO:0009611)	endoplasmic reticulum (GO:0005783)|external side of plasma membrane (GO:0009897)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|platelet alpha granule (GO:0031091)|platelet alpha granule lumen (GO:0031093)|proteinaceous extracellular matrix (GO:0005578)|Weibel-Palade body (GO:0033093)	chaperone binding (GO:0051087)|collagen binding (GO:0005518)|glycoprotein binding (GO:0001948)|identical protein binding (GO:0042802)|immunoglobulin binding (GO:0019865)|integrin binding (GO:0005178)|protease binding (GO:0002020)|protein homodimerization activity (GO:0042803)|protein N-terminus binding (GO:0047485)			NS(1)|breast(6)|central_nervous_system(5)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(25)|lung(41)|ovary(7)|pancreas(2)|prostate(6)|skin(15)|stomach(1)|upper_aerodigestive_tract(5)	129					Antihemophilic Factor(DB00025)	CGCCAGCCCAGAGGGGGTAAG	0.662																																																0													56	59	58					12																	6167128		2203	4299	6502	SO:0001583	missense	7450				CCDS8539.1	12p13.3	2014-09-17			ENSG00000110799	ENSG00000110799		"Endogenous ligands"	12726	protein-coding gene	gene with protein product		613160		F8VWF		2251280	Standard	NM_000552		Approved		uc001qnn.1	P04275	OTTHUMG00000168265	ENST00000261405.5:c.1616C>G	12.37:g.6167128G>C	ENSP00000261405:p.Ser539Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TCE8|Q99806	Missense_Mutation	SNP	ENST00000261405.5	37	CCDS8539.1	.	.	.	.	.	.	.	.	.	.	G	12.35	1.911404	0.33721	.	.	ENSG00000110799	ENST00000261405	T	0.62498	0.02	4.94	4.03	0.46877	von Willebrand factor, type D domain (3);	0.650601	0.12694	N	0.446915	T	0.80889	0.4710	M	0.87617	2.895	0.47214	D	0.999357	D;P	0.64830	0.994;0.794	D;P	0.64687	0.928;0.694	T	0.82458	-0.0447	10	0.87932	D	0	.	14.3887	0.66963	0.0:0.1485:0.8515:0.0	.	539;539	B4DNX0;P04275	.;VWF_HUMAN	C	539	ENSP00000261405:S539C	ENSP00000261405:S539C	S	-	2	0	VWF	6037389	0.891000	0.30450	0.007000	0.13788	0.010000	0.07245	4.866000	0.63005	1.267000	0.44247	0.491000	0.48974	TCT		0.662	VWF-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399020.1	NM_000552		C	6167128	G	C	6167128	3	2	606	1	0	0	0	0	1	0	0	0	17258	942	33	4	6981	4	VWF	12	6167128	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08		6167128	127684767	134	36630										
CAPRIN2	65981	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	30906661	30906661	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cttttccacagaagtgagctCgaaacccaatgatgcttgag	9	10	0	4			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr12:30906661C>G	ENST00000395805.2	-	1	584	c.37G>C	c.(37-39)Gag>Cag	p.E13Q	CAPRIN2_ENST00000308433.5_5'UTR|CAPRIN2_ENST00000251071.5_Missense_Mutation_p.E13Q|RP11-77I22.2_ENST00000500076.2_lincRNA|CAPRIN2_ENST00000298892.5_Missense_Mutation_p.E13Q|CAPRIN2_ENST00000417045.1_Missense_Mutation_p.E13Q	NM_001206856.1	NP_001193785.1			caprin family member 2									p.E13K(2)		breast(1)|central_nervous_system(1)|endometrium(8)|kidney(4)|large_intestine(13)|lung(16)|ovary(1)|prostate(2)|skin(1)|urinary_tract(1)	48	all_lung(12;1.13e-09)|Lung NSC(12;7.98e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					GAAGTGAGCTCGAAACCCAAT	0.408											OREG0021723	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				2	Substitution - Missense(2)	large_intestine(2)											103	104	104					12																	30906661		2202	4299	6501	SO:0001583	missense	65981			AY074491	CCDS8720.1, CCDS41766.1, CCDS41766.2, CCDS55816.1	12p11	2010-08-03	2007-03-27	2007-03-27	ENSG00000110888	ENSG00000110888			21259	protein-coding gene	gene with protein product		610375	"C1q domain containing 1"	C1QDC1		11347906, 14764709	Standard	NM_001002259		Approved	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140	uc001rji.1	Q6IMN6	OTTHUMG00000169185	ENST00000395805.2:c.37G>C	12.37:g.30906661C>G	ENSP00000379150:p.Glu13Gln	Somatic	820	WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000395805.2	37	CCDS55816.1	.	.	.	.	.	.	.	.	.	.	C	16.59	3.165966	0.57476	.	.	ENSG00000110888	ENST00000298892;ENST00000395805;ENST00000251071;ENST00000417045	T;T;T;T	0.73363	-0.74;2.74;-0.69;2.74	3.72	2.83	0.33086	.	.	.	.	.	T	0.48978	0.1530	N	0.08118	0	0.19575	N	0.999963	B;P;B;B	0.35226	0.358;0.491;0.218;0.325	B;B;B;B	0.32805	0.073;0.153;0.03;0.067	T	0.31833	-0.9929	8	.	.	.	0.5218	5.7801	0.18301	0.0:0.7584:0.0:0.2416	.	13;13;13;13	Q149P6;Q6IMN6-3;Q6IMN6;Q6IMN6-2	.;.;CAPR2_HUMAN;.	Q	13	ENSP00000298892:E13Q;ENSP00000379150:E13Q;ENSP00000251071:E13Q;ENSP00000391479:E13Q	.	E	-	1	0	CAPRIN2	30797928	0.001000	0.12720	0.056000	0.19401	0.500000	0.33767	0.235000	0.17948	0.783000	0.33636	0.563000	0.77884	GAG		0.408	CAPRIN2-004	PUTATIVE	basic|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000403322.2	NM_023925		G	30906661	C	G	30906661	3	3	606	1	0	0	0	0	1	0	0	0	2638	893	31	4	3418	4	CAPRIN2	12	30906661	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	24739533	30906661	102945234	135	36631										
SLC2A13	114134	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	40422219	40422219	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tacgggccttctgagtctgtCctttctgaataagccatcga	9	11	3	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr12:40422219C>T	ENST00000280871.4	-	3	859	c.809G>A	c.(808-810)gGa>gAa	p.G270E	SLC2A13_ENST00000380858.1_Missense_Mutation_p.G270E	NM_052885.3	NP_443117.3	Q96QE2	MYCT_HUMAN	solute carrier family 2 (facilitated glucose transporter), member 13	270					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	substrate-specific transmembrane transporter activity (GO:0022891)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(12)|ovary(1)|prostate(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	29		Lung NSC(34;0.105)|all_lung(34;0.123)				CTGAGTCTGTCCTTTCTGAAT	0.438										HNSCC(50;0.14)																																						0													101	106	104					12																	40422219		2203	4300	6503	SO:0001583	missense	114134			AJ315644	CCDS8736.2	12q12	2013-05-22			ENSG00000151229	ENSG00000151229		"Solute carriers"	15956	protein-coding gene	gene with protein product	"H(+)-myo-inositol symporter"	611036				11500374	Standard	NM_052885		Approved	HMIT	uc010skm.2	Q96QE2	OTTHUMG00000059743	ENST00000280871.4:c.809G>A	12.37:g.40422219C>T	ENSP00000280871:p.Gly270Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q17S07	Missense_Mutation	SNP	ENST00000280871.4	37	CCDS8736.2	.	.	.	.	.	.	.	.	.	.	C	26.9	4.781378	0.90282	.	.	ENSG00000151229	ENST00000280871;ENST00000380858	T;T	0.76839	-1.05;-1.05	5.54	5.54	0.83059	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.099482	0.64402	D	0.000001	D	0.88403	0.6427	M	0.82323	2.585	0.80722	D	1	P;D	0.60575	0.933;0.988	P;P	0.61722	0.838;0.893	D	0.88848	0.3317	10	0.59425	D	0.04	-17.57	19.8499	0.96734	0.0:1.0:0.0:0.0	.	270;270	Q96QE2;E9PE47	MYCT_HUMAN;.	E	270	ENSP00000280871:G270E;ENSP00000370239:G270E	ENSP00000280871:G270E	G	-	2	0	SLC2A13	38708486	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	7.290000	0.78711	2.779000	0.95612	0.591000	0.81541	GGA		0.438	SLC2A13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132849.2			T	40422219	C	T	40422219	3	4	606	1	0	0	0	0	1	0	0	0	14555	855	30	2	1169	2	SLC2A13	12	40422219	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	9515558	40422219	93429676	136	36632										
DDX23	9416	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	49231830	49231830	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctgccgtcgctttagagcttCagcctctcgttctgctttag	9	13	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr12:49231830C>T	ENST00000308025.3	-	6	593	c.514G>A	c.(514-516)Gaa>Aaa	p.E172K	DDX23_ENST00000553182.1_5'UTR	NM_004818.2	NP_004809.2	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	172	Glu-rich.				ATP catabolic process (GO:0006200)|cis assembly of pre-catalytic spliceosome (GO:0000354)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)	catalytic step 2 spliceosome (GO:0071013)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|U5 snRNP (GO:0005682)	ATP binding (GO:0005524)|ATP-dependent RNA helicase activity (GO:0004004)|poly(A) RNA binding (GO:0044822)			NS(1)|cervix(1)|kidney(4)|large_intestine(6)|lung(17)|ovary(1)|prostate(1)|skin(2)|urinary_tract(3)	36						TTTAGAGCTTCAGCCTCTCGT	0.498																																																0													149	140	143					12																	49231830		2203	4300	6503	SO:0001583	missense	9416			AF026402	CCDS8770.1	12q13.11	2013-07-16				ENSG00000174243		"DEAD-boxes"	17347	protein-coding gene	gene with protein product		612172	"PRP28 homolog, yeast"			9409622, 9539711	Standard	NM_004818		Approved	prp28, U5-100K, PRPF28, SNRNP100	uc001rsm.3	Q9BUQ8		ENST00000308025.3:c.514G>A	12.37:g.49231830C>T	ENSP00000310723:p.Glu172Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R600|B4DH15|O43188	Missense_Mutation	SNP	ENST00000308025.3	37	CCDS8770.1	.	.	.	.	.	.	.	.	.	.	C	23.7	4.450245	0.84101	.	.	ENSG00000174243	ENST00000550834;ENST00000308025;ENST00000552512	T	0.22945	1.93	5.15	5.15	0.70609	.	0.055638	0.64402	D	0.000001	T	0.20333	0.0489	L	0.36672	1.1	0.58432	D	0.999999	P	0.39480	0.675	B	0.34093	0.175	T	0.03231	-1.1058	10	0.21014	T	0.42	-10.372	17.5534	0.87884	0.0:1.0:0.0:0.0	.	172	Q9BUQ8	DDX23_HUMAN	K	16;172;172	ENSP00000310723:E172K	ENSP00000310723:E172K	E	-	1	0	DDX23	47518097	1.000000	0.71417	0.999000	0.59377	0.954000	0.61252	7.411000	0.80078	2.676000	0.91093	0.563000	0.77884	GAA		0.498	DDX23-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408897.2	NM_004818		T	49231830	C	T	49231830	3	4	606	1	0	0	0	0	1	0	0	0	4352	835	29	2	1996	2	DDX23	12	49231830	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	8809611	49231830	84620065	137	36633										
SPATS2	65244	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	49916614	49916614	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gatgtagagaccctaaagaaGagcattgattcatttggaca	10	6	1	4			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr12:49916614G>C	ENST00000553127.1	+	13	1602	c.1089G>C	c.(1087-1089)aaG>aaC	p.K363N	SPATS2_ENST00000552918.1_Missense_Mutation_p.K363N|SPATS2_ENST00000321898.6_Missense_Mutation_p.K363N			Q86XZ4	SPAS2_HUMAN	spermatogenesis associated, serine-rich 2	363						cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			breast(3)|endometrium(4)|kidney(1)|large_intestine(7)|lung(1)|prostate(1)|urinary_tract(4)	21						CCCTAAAGAAGAGCATTGATT	0.448																																																0													145	125	132					12																	49916614		2203	4300	6503	SO:0001583	missense	65244			AK023179	CCDS31794.1	12q13.12	2009-06-12							18650	protein-coding gene	gene with protein product		611667				11944913, 17989879	Standard	NM_023071		Approved	SPATA10, SCR59, FLJ13117	uc001rud.2	Q86XZ4		ENST00000553127.1:c.1089G>C	12.37:g.49916614G>C	ENSP00000448228:p.Lys363Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8G9|Q9H7D4|Q9H8Y7|Q9H8Z8	Missense_Mutation	SNP	ENST00000553127.1	37	CCDS31794.1	.	.	.	.	.	.	.	.	.	.	G	18.92	3.725778	0.69074	.	.	ENSG00000123352	ENST00000553127;ENST00000321898;ENST00000552918;ENST00000395063	.	.	.	5.84	5.84	0.93424	.	0.215681	0.51477	D	0.000085	T	0.62097	0.2400	L	0.56769	1.78	0.80722	D	1	P	0.42161	0.772	P	0.49528	0.614	T	0.59139	-0.7510	9	0.38643	T	0.18	-13.4976	11.3109	0.49364	0.0822:0.0:0.9178:0.0	.	363	Q86XZ4	SPAS2_HUMAN	N	363	.	ENSP00000326841:K363N	K	+	3	2	SPATS2	48202881	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	2.162000	0.42367	2.937000	0.99478	0.650000	0.86243	AAG		0.448	SPATS2-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404023.1	NM_023071		C	49916614	G	C	49916614	3	2	606	1	0	0	0	0	1	0	0	0	15031	933	33	4	1127	4	SPATS2	12	49916614	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	684784	49916614	83935281	138	36634										
RARG	5916	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	53607847	53607847	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	acagggcctaacttaccaggAtatctaggcaggcagctttg	11	10	1	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr12:53607847A>G	ENST00000425354.2	-	7	1296	c.809T>C	c.(808-810)aTc>aCc	p.I270T	RARG_ENST00000338561.5_Missense_Mutation_p.I259T|RARG_ENST00000327550.3_Missense_Mutation_p.I198T|RARG_ENST00000543762.1_5'UTR|RARG_ENST00000394426.1_Missense_Mutation_p.I270T|RARG_ENST00000543726.1_Missense_Mutation_p.I248T	NM_000966.5	NP_000957.1	P13631	RARG_HUMAN	retinoic acid receptor, gamma	270	Ligand-binding.				anterior/posterior pattern specification (GO:0009952)|canonical Wnt signaling pathway (GO:0060070)|cellular response to retinoic acid (GO:0071300)|embryonic camera-type eye development (GO:0031076)|embryonic eye morphogenesis (GO:0048048)|embryonic hindlimb morphogenesis (GO:0035116)|face development (GO:0060324)|gene expression (GO:0010467)|glandular epithelial cell development (GO:0002068)|growth plate cartilage chondrocyte growth (GO:0003430)|Harderian gland development (GO:0070384)|multicellular organism growth (GO:0035264)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cartilage development (GO:0061037)|negative regulation of cell proliferation (GO:0008285)|negative regulation of chondrocyte differentiation (GO:0032331)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neural tube closure (GO:0001843)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cell proliferation (GO:0008284)|positive regulation of programmed cell death (GO:0043068)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|prostate gland epithelium morphogenesis (GO:0060740)|regulation of cell size (GO:0008361)|regulation of myelination (GO:0031641)|response to retinoic acid (GO:0032526)|retinal pigment epithelium development (GO:0003406)|retinoic acid receptor signaling pathway (GO:0048384)|trachea cartilage development (GO:0060534)|transcription initiation from RNA polymerase II promoter (GO:0006367)	integral component of membrane (GO:0016021)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|retinoic acid receptor activity (GO:0003708)|retinoid X receptor binding (GO:0046965)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|sequence-specific DNA binding transcription factor activity (GO:0003700)|steroid hormone receptor activity (GO:0003707)|zinc ion binding (GO:0008270)			breast(3)|endometrium(3)|kidney(1)|large_intestine(6)|lung(3)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	20					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Tazarotene(DB00799)|Tretinoin(DB00755)	ACTTACCAGGATATCTAGGCA	0.532											OREG0021862	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													185	185	185					12																	53607847		2203	4300	6503	SO:0001583	missense	5916			M57707	CCDS8850.1, CCDS41790.1, CCDS58236.1, CCDS58237.1	12q13	2013-01-16			ENSG00000172819	ENSG00000172819		"Nuclear hormone receptors"	9866	protein-coding gene	gene with protein product		180190				1849262	Standard	NM_001042728		Approved	RARC, NR1B3	uc001scf.3	P13631	OTTHUMG00000048077	ENST00000425354.2:c.809T>C	12.37:g.53607847A>G	ENSP00000388510:p.Ile270Thr	Somatic	993	WXS	Illumina HiSeq	Phase_I	B7Z492|B7Z4F1|B7ZAE4|J3KNP6|P22932|Q15281|Q52LZ8|Q9BYX8|Q9H1I3|Q9UJ38	Missense_Mutation	SNP	ENST00000425354.2	37	CCDS8850.1	.	.	.	.	.	.	.	.	.	.	A	19.87	3.906612	0.72868	.	.	ENSG00000172819	ENST00000425354;ENST00000394426;ENST00000538479;ENST00000327550;ENST00000338561;ENST00000543726;ENST00000550265	T;T;T;T;T	0.42131	0.98;0.98;0.98;0.98;0.98	5.37	5.37	0.77165	Nuclear hormone receptor, ligand-binding (2);Nuclear hormone receptor, ligand-binding, core (2);	0.000000	0.85682	D	0.000000	T	0.65657	0.2712	M	0.79258	2.445	0.80722	D	1	D;D;D;D	0.89917	1.0;0.996;1.0;1.0	D;D;D;D	0.97110	1.0;0.993;1.0;0.999	T	0.70447	-0.4869	10	0.87932	D	0	.	14.6593	0.68858	1.0:0.0:0.0:0.0	.	307;248;270;259	F8VR45;B7Z4F1;P13631;F1D8P1	.;.;RARG_HUMAN;.	T	270;270;32;198;259;248;307	ENSP00000388510:I270T;ENSP00000377947:I270T;ENSP00000332695:I198T;ENSP00000343698:I259T;ENSP00000444335:I248T	ENSP00000332695:I198T	I	-	2	0	RARG	51894114	1.000000	0.71417	1.000000	0.80357	0.827000	0.46813	9.034000	0.93747	2.171000	0.68590	0.460000	0.39030	ATC		0.532	RARG-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000109404.2	NM_000966		G	53607847	A	G	53607847	3	3	606	1	0	0	0	0	1	0	0	0	13067	333	12	3	571	3	RARG	12	53607847	Missense_Mutation	SNP	A	TCGA-HE-7130-01A-11D-1961-08	3691233	53607847	80244048	139	36635										
DPY19L2	283417	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	64061939	64061939	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gacgaactggaaggggccgaGaagaaaggtcttggccacca	15	9	1	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr12:64061939G>A	ENST00000324472.4	-	1	418	c.235C>T	c.(235-237)Ctc>Ttc	p.L79F	RP11-415I12.3_ENST00000509615.2_RNA	NM_173812.4	NP_776173.3	Q6NUT2	D19L2_HUMAN	dpy-19-like 2 (C. elegans)	79					multicellular organismal development (GO:0007275)|spermatid development (GO:0007286)	integral component of membrane (GO:0016021)|nuclear inner membrane (GO:0005637)|nucleus (GO:0005634)	transferase activity, transferring glycosyl groups (GO:0016757)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(8)|lung(19)|ovary(1)|prostate(5)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	45			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		AAGGGGCCGAGAAGAAAGGTC	0.602																																																0													74	80	78					12																	64061939		2203	4300	6503	SO:0001583	missense	283417				CCDS31851.1	12q14.2	2012-11-14			ENSG00000177990	ENSG00000177990			19414	protein-coding gene	gene with protein product	"spermatogenesis associated 34"	613893				12975309	Standard	XM_006719348		Approved	FLJ32949, SPATA34	uc001srp.1	Q6NUT2	OTTHUMG00000168712	ENST00000324472.4:c.235C>T	12.37:g.64061939G>A	ENSP00000315988:p.Leu79Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A4FVC1|B4E191|Q3ZCX2|Q6UWG8|Q96LZ9	Missense_Mutation	SNP	ENST00000324472.4	37	CCDS31851.1	.	.	.	.	.	.	.	.	.	.	G	3.843	-0.033397	0.07543	.	.	ENSG00000177990	ENST00000324472;ENST00000542209	T;T	0.45668	0.95;0.89	1.61	0.631	0.17699	.	.	.	.	.	T	0.26231	0.0640	L	0.32530	0.975	0.09310	N	0.999999	B	0.32653	0.379	B	0.30029	0.11	T	0.14643	-1.0465	8	.	.	.	.	5.6322	0.17516	0.0:0.3487:0.6513:0.0	.	79	Q6NUT2	D19L2_HUMAN	F	79	ENSP00000315988:L79F;ENSP00000444932:L79F	.	L	-	1	0	DPY19L2	62348206	0.000000	0.05858	0.010000	0.14722	0.121000	0.20230	0.247000	0.18179	0.202000	0.20498	0.195000	0.17529	CTC		0.602	DPY19L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400689.2	NM_173812		A	64061939	G	A	64061939	3	1	606	1	0	0	0	0	1	0	0	0	4743	942	33	2	2129	2	DPY19L2	12	64061939	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	10454092	64061939	69789956	140	36636										
LLPH	84298	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	66522754	66522754	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	caccacagttgctatctcttGaacatctttcattaaaacat	3	11	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr12:66522754G>A	ENST00000266604.2	-	2	203	c.133C>T	c.(133-135)Caa>Taa	p.Q45*	TMBIM4_ENST00000556010.1_3'UTR|TMBIM4_ENST00000539652.1_3'UTR|LLPH_ENST00000446587.2_Nonsense_Mutation_p.Q45*|RP11-745O10.2_ENST00000510317.2_RNA	NM_032338.3	NP_115714.1	Q9BRT6	LLPH_HUMAN	LLP homolog, long-term synaptic facilitation (Aplysia)	45	Lys-rich.						poly(A) RNA binding (GO:0044822)			central_nervous_system(1)|cervix(1)|kidney(1)|large_intestine(1)|skin(1)	5						GCTATCTCTTGAACATCTTTC	0.403																																																0													122	112	115					12																	66522754		2203	4297	6500	SO:0001587	stop_gained	84298			AK057947	CCDS8974.1	12q14.3	2014-05-09	2008-10-02	2008-10-02	ENSG00000139233	ENSG00000139233			28229	protein-coding gene	gene with protein product	"human LAPS18-like protein"		"chromosome 12 open reading frame 31"	C12orf31		12477932	Standard	NM_032338		Approved	MGC14817, hLLP	uc010ssw.2	Q9BRT6	OTTHUMG00000168959	ENST00000266604.2:c.133C>T	12.37:g.66522754G>A	ENSP00000266604:p.Gln45*	Somatic		WXS	Illumina HiSeq	Phase_I	Q3B766	Nonsense_Mutation	SNP	ENST00000266604.2	37	CCDS8974.1	.	.	.	.	.	.	.	.	.	.	G	32	5.127434	0.94473	.	.	ENSG00000139233	ENST00000266604;ENST00000446587	.	.	.	4.13	-0.482	0.12078	.	0.626869	0.17801	N	0.161575	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-5.9384	6.7866	0.23677	0.0:0.1983:0.3284:0.4734	.	.	.	.	X	45	.	.	Q	-	1	0	LLPH	64809021	0.974000	0.33945	0.987000	0.45799	0.865000	0.49528	0.701000	0.25616	0.090000	0.17273	0.467000	0.42956	CAA		0.403	LLPH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401752.1	NM_032338		A	66522754	G	A	66522754	4	1	606	1	0	0	0	0	0	1	0	0	8842	1299	45	2	264	2	LLPH	12	66522754	Nonsense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	2460815	66522754	67329141	141	36637										
AMDHD1	144193	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	96354342	96354342	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ggattcttcaacgtggaaaaGatatagggttacagattaac	10	5	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr12:96354342G>C	ENST00000266736.2	+	5	860	c.754G>C	c.(754-756)Gat>Cat	p.D252H		NM_152435.2	NP_689648.2	Q96NU7	HUTI_HUMAN	amidohydrolase domain containing 1	252					cellular nitrogen compound metabolic process (GO:0034641)|histidine catabolic process (GO:0006548)|histidine catabolic process to glutamate and formamide (GO:0019556)|histidine catabolic process to glutamate and formate (GO:0019557)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	imidazolonepropionase activity (GO:0050480)|metal ion binding (GO:0046872)			central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(7)|lung(7)|ovary(1)|skin(1)	22						ACGTGGAAAAGATATAGGGTT	0.428																																																0													122	117	118					12																	96354342		2203	4300	6503	SO:0001583	missense	144193			AB075878	CCDS9057.1	12q23.1	2006-02-02				ENSG00000139344			28577	protein-coding gene	gene with protein product							Standard	NM_152435		Approved	MGC35366	uc001tel.2	Q96NU7	OTTHUMG00000170353	ENST00000266736.2:c.754G>C	12.37:g.96354342G>C	ENSP00000266736:p.Asp252His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K463|Q68CI8	Missense_Mutation	SNP	ENST00000266736.2	37	CCDS9057.1	.	.	.	.	.	.	.	.	.	.	G	14.46	2.540809	0.45280	.	.	ENSG00000139344	ENST00000266736	T	0.46063	0.88	5.55	4.65	0.58169	Metal-dependent hydrolase, composite domain (1);	0.384940	0.33235	N	0.005136	T	0.49660	0.1570	L	0.60957	1.885	0.34446	D	0.700188	P	0.40107	0.703	P	0.47528	0.549	T	0.65340	-0.6192	10	0.54805	T	0.06	-0.0155	13.7543	0.62926	0.0749:0.0:0.9251:0.0	.	252	Q96NU7	HUTI_HUMAN	H	252	ENSP00000266736:D252H	ENSP00000266736:D252H	D	+	1	0	AMDHD1	94878473	1.000000	0.71417	0.605000	0.28930	0.004000	0.04260	4.953000	0.63624	1.447000	0.47661	0.655000	0.94253	GAT		0.428	AMDHD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408640.1	NM_152435		C	96354342	G	C	96354342	3	2	606	1	0	0	0	0	1	0	0	0	567	942	33	4	772	4	AMDHD1	12	96354342	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	29831588	96354342	37497553	142	36638										
C12orf42	374470	broad.mit.edu	37	chr12	103699754	103699754	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ccacaacatgatacttaccaGaatttttcttgggactgctc	6	11	1	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr12:103699754G>A	ENST00000378113.2	-	5	854	c.629C>T	c.(628-630)tCt>tTt	p.S210F	C12orf42_ENST00000315192.8_Intron|C12orf42_ENST00000548048.1_Missense_Mutation_p.S143F|C12orf42_ENST00000548883.1_Missense_Mutation_p.S210F|C12orf42_ENST00000548789.1_5'UTR	NM_001099336.1	NP_001092806.1	Q96LP6	CL042_HUMAN	chromosome 12 open reading frame 42	210										NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(7)|ovary(2)|prostate(1)	22						ATACTTACCAGAATTTTTCTT	0.418																																																0													166	160	162					12																	103699754		1885	4107	5992	SO:0001583	missense	374470			AK058052	CCDS44963.1	12q23.2	2012-05-30			ENSG00000179088	ENSG00000179088			24729	protein-coding gene	gene with protein product							Standard	NM_001099336		Approved	FLJ25323	uc001tjt.2	Q96LP6	OTTHUMG00000169988	ENST00000378113.2:c.629C>T	12.37:g.103699754G>A	ENSP00000367353:p.Ser210Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q49A64|Q4G0S2	Missense_Mutation	SNP	ENST00000378113.2	37	CCDS44963.1	.	.	.	.	.	.	.	.	.	.	G	14.12	2.441683	0.43326	.	.	ENSG00000179088	ENST00000548883;ENST00000548048;ENST00000378113	T;T;T	0.59083	0.29;0.29;0.29	4.02	2.18	0.27775	.	0.916854	0.08987	N	0.864952	T	0.43144	0.1234	L	0.32530	0.975	0.09310	N	1	B	0.32031	0.352	B	0.29176	0.099	T	0.40117	-0.9580	10	0.87932	D	0	-2.6865	5.0246	0.14378	0.1071:0.0:0.6868:0.2061	.	210	Q96LP6	CL042_HUMAN	F	210;143;210	ENSP00000447908:S210F;ENSP00000449362:S143F;ENSP00000367353:S210F	ENSP00000367353:S210F	S	-	2	0	C12orf42	102223884	0.055000	0.20627	0.009000	0.14445	0.065000	0.16274	0.795000	0.26972	0.653000	0.30826	0.555000	0.69702	TCT		0.418	C12orf42-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406754.1	NM_198521		A	103699754	G	A	103699754	3	1	606	1	0	0	0	0	1	0	0	0	1690	942	33	2	461	2	C12orf42	12	103699754	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	7345412	103699754	30152141	143	36639										
KSR2	283455	broad.mit.edu	37	chr12	118293234	118293234	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gaccccggggcctgctcaccTgacatgtggacattcctgag	12	14	1	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr12:118293234T>C	ENST00000339824.5	-	3	1198	c.471A>G	c.(469-471)tcA>tcG	p.S157S	KSR2_ENST00000425217.1_Splice_Site_p.S128S			Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	157					intracellular signal transduction (GO:0035556)	cytoplasm (GO:0005737)|membrane (GO:0016020)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(3)|central_nervous_system(2)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(25)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	67	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CCTGCTCACCTGACATGTGGA	0.652																																																0													66	75	72					12																	118293234		2058	4195	6253	SO:0001630	splice_region_variant	283455			AY345972	CCDS61250.1	12q24.22-q24.23	2014-08-12			ENSG00000171435	ENSG00000171435			18610	protein-coding gene	gene with protein product		610737				12471243	Standard	NM_173598		Approved	FLJ25965	uc001two.2	Q6VAB6	OTTHUMG00000169020	ENST00000339824.5:c.472+1A>G	12.37:g.118293234T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJT2|Q3B828|Q8N775	Silent	SNP	ENST00000339824.5	37																																																																																					0.652	KSR2-001	KNOWN	non_canonical_conserved|not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000401987.2	NM_173598	Silent	C	118293234	T	C	118293234	5	2	606	1	0	0	0	0	0	0	1	0	8589	1594	55	3	2453	3	KSR2	12	118293234	Splice_Site	SNP	T	TCGA-HE-7130-01A-11D-1961-08	14593480	118293234	15558661	144	36640										
P2RX4	5025	broad.mit.edu;bcgsc.ca	37	chr12	121648006	121648006	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gcgctggcggccttcctgttCgagtacgacacgccgcgcat	13	15	0	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr12:121648006C>T	ENST00000337233.4	+	1	347	c.39C>T	c.(37-39)ttC>ttT	p.F13F	P2RX4_ENST00000540930.1_3'UTR|P2RX4_ENST00000543171.1_5'UTR|P2RX4_ENST00000541532.1_Silent_p.F13F|P2RX4_ENST00000359949.7_Silent_p.F13F	NM_001261397.1|NM_001261398.1|NM_002560.2	NP_001248326.1|NP_001248327.1|NP_002551.2	Q99571	P2RX4_HUMAN	purinergic receptor P2X, ligand-gated ion channel, 4	13					apoptotic signaling pathway (GO:0097190)|calcium ion transport (GO:0006816)|cation transmembrane transport (GO:0098655)|cellular response to ATP (GO:0071318)|endothelial cell activation (GO:0042118)|ion transmembrane transport (GO:0034220)|membrane depolarization (GO:0051899)|negative regulation of cardiac muscle hypertrophy (GO:0010614)|neuronal action potential (GO:0019228)|nitric oxide biosynthetic process (GO:0006809)|positive regulation of calcium ion transport (GO:0051928)|positive regulation of calcium ion transport into cytosol (GO:0010524)|positive regulation of calcium-mediated signaling (GO:0050850)|positive regulation of nitric oxide biosynthetic process (GO:0045429)|positive regulation of prostaglandin secretion (GO:0032308)|protein homooligomerization (GO:0051260)|purinergic nucleotide receptor signaling pathway (GO:0035590)|regulation of blood pressure (GO:0008217)|regulation of cardiac muscle contraction (GO:0055117)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of sodium ion transport (GO:0002028)|relaxation of cardiac muscle (GO:0055119)|response to ATP (GO:0033198)|response to fluid shear stress (GO:0034405)|sensory perception of pain (GO:0019233)|signal transduction (GO:0007165)|tissue homeostasis (GO:0001894)|transport (GO:0006810)|vasodilation (GO:0042311)	apical part of cell (GO:0045177)|cell junction (GO:0030054)|dendritic spine (GO:0043197)|extracellular vesicular exosome (GO:0070062)|integral component of nuclear inner membrane (GO:0005639)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|terminal bouton (GO:0043195)	ATP binding (GO:0005524)|cadherin binding (GO:0045296)|copper ion binding (GO:0005507)|drug binding (GO:0008144)|extracellular ATP-gated cation channel activity (GO:0004931)|protein homodimerization activity (GO:0042803)|purinergic nucleotide receptor activity (GO:0001614)|receptor binding (GO:0005102)|zinc ion binding (GO:0008270)			breast(1)|kidney(4)|large_intestine(4)|lung(7)|prostate(1)	17	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CCTTCCTGTTCGAGTACGACA	0.706																																																0													16	16	16					12																	121648006		2195	4290	6485	SO:0001819	synonymous_variant	5025			Y07684	CCDS9214.1, CCDS58282.1	12q24.32	2012-01-17			ENSG00000135124	ENSG00000135124		"Purinergic receptors", "Ligand-gated ion channels / Purinergic receptors, ionotropic"	8535	protein-coding gene	gene with protein product		600846				9016352	Standard	NM_002560		Approved	P2X4	uc031qjt.1	Q99571	OTTHUMG00000169155	ENST00000337233.4:c.39C>T	12.37:g.121648006C>T		Somatic		WXS	Illumina HiSeq	Phase_I	E7EPF7|F6RU17|O00450|O14722|Q5U089|Q5U090|Q8N4N1|Q9UBG9	Silent	SNP	ENST00000337233.4	37	CCDS9214.1																																																																																				0.706	P2RX4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402545.1	NM_175567		T	121648006	C	T	121648006	2	4	606	1	0	0	0	0	0	0	0	1	11349	883	31	1		1	P2RX4	12	121648006	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	3354772	121648006	12203889	145	36641										
UTP14C	9724	hgsc.bcm.edu;broad.mit.edu	37	chr13	52603705	52603705	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aaaaagtatcacaaagtcgtGaagaaaggaaaggccaagaa	10	5	1	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr13:52603705G>C	ENST00000521776.2	+	2	1498	c.765G>C	c.(763-765)gtG>gtC	p.V255V	ALG11_ENST00000523764.1_3'UTR|ALG11_ENST00000521508.1_3'UTR	NM_021645.5	NP_067677.4	Q5TAP6	UT14C_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein, homolog C (yeast)	255					cell differentiation (GO:0030154)|meiotic nuclear division (GO:0007126)|multicellular organismal development (GO:0007275)|rRNA processing (GO:0006364)|spermatogenesis (GO:0007283)	nucleus (GO:0005634)|small-subunit processome (GO:0032040)				breast(4)|cervix(1)|endometrium(1)|large_intestine(10)|lung(10)|ovary(3)|skin(1)|stomach(1)|urinary_tract(1)	32		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)		ACAAAGTCGTGAAGAAAGGAA	0.433																																																0													89	88	88					13																	52603705		2203	4300	6503	SO:0001819	synonymous_variant	9724			D87455	CCDS31978.1	13q12.2-q13.3	2010-11-23	2004-06-15	2004-06-16	ENSG00000253797	ENSG00000253797			20321	protein-coding gene	gene with protein product		608969	"KIAA0266"	KIAA0266		9039502, 16354793	Standard	NM_021645		Approved	2700066J21Rik	uc021rjw.1	Q5TAP6	OTTHUMG00000164353	ENST00000521776.2:c.765G>C	13.37:g.52603705G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5FWG3|Q92555	Silent	SNP	ENST00000521776.2	37	CCDS31978.1																																																																																				0.433	UTP14C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045049.2	NM_021645		C	52603705	G	C	52603705	2	2	606	1	0	0	0	0	0	0	0	1	17108	1277	45	4		4	UTP14C	13	52603705	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08		52603705	62566173	146	36642										
OLFM4	10562	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	53624805	53624805	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgcataagatgcaggaaaaaGtgcagagcattaactataac	9	6	0	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr13:53624805G>C	ENST00000219022.2	+	5	1510	c.1432G>C	c.(1432-1434)Gtg>Ctg	p.V478L		NM_006418.4	NP_006409.3	Q6UX06	OLFM4_HUMAN	olfactomedin 4	478	Olfactomedin-like. {ECO:0000255|PROSITE- ProRule:PRU00446}.				cell adhesion (GO:0007155)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of immune response (GO:0050777)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|protein homooligomerization (GO:0051260)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|specific granule (GO:0042581)	cadherin binding (GO:0045296)|catalytic activity (GO:0003824)|protein homodimerization activity (GO:0042803)			breast(2)|endometrium(4)|kidney(4)|large_intestine(5)|lung(20)|skin(3)|urinary_tract(1)	39		Breast(56;0.000776)|Lung NSC(96;0.000814)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.13e-08)		GCAGGAAAAAGTGCAGAGCAT	0.368																																																0													108	108	108					13																	53624805		2203	4300	6503	SO:0001583	missense	10562			AY358567	CCDS9440.1	13q14	2004-06-25			ENSG00000102837	ENSG00000102837			17190	protein-coding gene	gene with protein product		614061					Standard	NM_006418		Approved	OlfD, GW112, GC1	uc001vhl.3	Q6UX06	OTTHUMG00000016981	ENST00000219022.2:c.1432G>C	13.37:g.53624805G>C	ENSP00000219022:p.Val478Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O95362|Q5VWG0|Q86T22	Missense_Mutation	SNP	ENST00000219022.2	37	CCDS9440.1	.	.	.	.	.	.	.	.	.	.	G	10.48	1.362917	0.24684	.	.	ENSG00000102837	ENST00000219022	T	0.14022	2.54	5.64	-2.23	0.06930	Olfactomedin-like (3);	0.818724	0.11361	N	0.571904	T	0.03959	0.0111	N	0.03268	-0.37	0.18873	N	0.999988	B	0.06786	0.001	B	0.15484	0.013	T	0.43426	-0.9392	10	0.15499	T	0.54	.	2.2285	0.03991	0.2383:0.3579:0.2837:0.1201	.	478	Q6UX06	OLFM4_HUMAN	L	478	ENSP00000219022:V478L	ENSP00000219022:V478L	V	+	1	0	OLFM4	52522806	0.000000	0.05858	0.030000	0.17652	0.978000	0.69477	-0.374000	0.07484	-0.094000	0.12374	0.585000	0.79938	GTG		0.368	OLFM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045112.2	NM_006418		C	53624805	G	C	53624805	3	2	606	1	0	0	0	0	1	0	0	0	10862	1029	36	4	1450	4	OLFM4	13	53624805	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	1021100	53624805	61545073	147	36643										
PCDH20	64881	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	61986466	61986467	+	Missense_Mutation	DNP	CC	CC	TT													0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gagtagaaactgtcagaattCctgtgacactgtctaaggaa							TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr13:61986466_61986467CC>TT	ENST00000409186.1	-	5	3870_3871	c.1765_1766GG>AA	c.(1765-1767)GGa>AAa	p.G589K	PCDH20_ENST00000409204.4_Missense_Mutation_p.G589K			Q8N6Y1	PCD20_HUMAN	protocadherin 20	589	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|poly(A) RNA binding (GO:0044822)			breast(3)|central_nervous_system(2)|endometrium(3)|kidney(4)|large_intestine(14)|liver(1)|lung(23)|ovary(5)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	58		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		TGTCAGAATTCCTGTGACACTG	0.455																																																0																																										SO:0001583	missense	64881			AF169693	CCDS9442.2	13q21	2010-01-26			ENSG00000197991	ENSG00000197991		"Cadherins / Protocadherins : Non-clustered"	14257	protein-coding gene	gene with protein product		614449					Standard	NM_022843		Approved	PCDH13, FLJ22218	uc001vid.4	Q8N6Y1	OTTHUMG00000017012	ENST00000409186.1:c.1765_1766delinsTT	13.37:g.61986466_61986467delinsTT	ENSP00000386653:p.Gly589Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1K9|B1AQU2|Q8NDN4|Q9NRT9	Missense_Mutation	DNP	ENST00000409186.1	37	CCDS9442.2																																																																																				0.455	PCDH20-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333054.2	NM_022843		TT	61986467	CC	TT	61986466	3	4	606	1	0	0	0	0	1	0	0	0	11522	855	30	2	1093	2	PCDH20	13	61986466	Missense_Mutation	DNP	CC	TCGA-HE-7130-01A-11D-1961-08	8361661	61986466	53183412	148	36644										
RBM26	64062	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	79945132	79945132	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctgcttctatctctgtccctCtcacgaagcctctctttact	4	16	4	0	rs199797508		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr13:79945132C>T	ENST00000438737.2	-	5	1022	c.582G>A	c.(580-582)gaG>gaA	p.E194E	RBM26_ENST00000267229.7_Silent_p.E194E|RBM26_ENST00000438724.1_Silent_p.E194E			Q5T8P6	RBM26_HUMAN	RNA binding motif protein 26	194	Arg-rich.				mRNA processing (GO:0006397)|negative regulation of phosphatase activity (GO:0010923)		metal ion binding (GO:0046872)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(1)|biliary_tract(1)|breast(2)|cervix(1)|endometrium(7)|kidney(4)|large_intestine(6)|lung(7)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	33		Acute lymphoblastic leukemia(28;0.0279)		GBM - Glioblastoma multiforme(99;0.0188)		CTCTGTCCCTCTCACGAAGCC	0.428													C|||	1	0.000199681	0.0	0.0	5008	,	,		15718	0.001		0.0	False		,,,				2504	0.0															0													167	171	170					13																	79945132		2203	4300	6503	SO:0001819	synonymous_variant	64062			AF116667	CCDS9462.1, CCDS66566.1, CCDS73591.1	13q31.1	2014-06-13	2006-06-22	2006-06-22	ENSG00000139746	ENSG00000139746		"Zinc fingers, CCCH-type domain containing", "RNA binding motif (RRM) containing"	20327	protein-coding gene	gene with protein product	"acidic rich RS domain containing 2", "protein phosphatase 1, regulatory 132"		"chromosome 13 open reading frame 10"	C13orf10		11149944, 15741184	Standard	XM_005266497		Approved	PRO1777, SE70-2, FLJ20957, ZC3H17, ARRS2, PPP1R132	uc001vky.2	Q5T8P6	OTTHUMG00000017133	ENST00000438737.2:c.582G>A	13.37:g.79945132C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DZE0|Q2NKM2|Q2NKQ2|Q5CZH8|Q5T8P5|Q5T8P8|Q5U5P5|Q5W0G7|Q8N3H5|Q96K92|Q96SZ3|Q9H2F8|Q9H7F9|Q9P1G7	Silent	SNP	ENST00000438737.2	37																																																																																					0.428	RBM26-004	NOVEL	not_organism_supported|basic	protein_coding	protein_coding	OTTHUMT00000045373.4	NM_022118		T	79945132	C	T	79945132	2	4	606	1	0	0	0	0	0	0	0	1	13139	912	32	2		2	RBM26	13	79945132	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	17958666	79945132	35224746	149	36645										
CIDEB	27141	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	24775203	24775203	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aagtcacaactcatagagtaGagcccgtagaatgtggcttt	10	8	2	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr14:24775203G>C	ENST00000336557.5	-	7	1779	c.477C>G	c.(475-477)ctC>ctG	p.L159L	LTB4R2_ENST00000528054.1_5'Flank|NOP9_ENST00000267425.3_3'UTR|CIDEB_ENST00000258807.5_Silent_p.L159L|CIDEB_ENST00000554411.1_Silent_p.L159L			Q9UHD4	CIDEB_HUMAN	cell death-inducing DFFA-like effector b	159					apoptotic process (GO:0006915)|execution phase of apoptosis (GO:0097194)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|regulation of apoptotic process (GO:0042981)	cytosol (GO:0005829)|lipid particle (GO:0005811)	identical protein binding (GO:0042802)			NS(1)|endometrium(1)|kidney(1)|large_intestine(3)|urinary_tract(1)	7				GBM - Glioblastoma multiforme(265;0.0181)		TCATAGAGTAGAGCCCGTAGA	0.488																																																0													141	134	136					14																	24775203		2203	4300	6503	SO:0001819	synonymous_variant	27141			AF190901	CCDS32056.1	14q12	2012-09-20			ENSG00000136305	ENSG00000136305			1977	protein-coding gene	gene with protein product		604441				10619428, 10837461	Standard	XM_005267540		Approved		uc001woo.3	Q9UHD4	OTTHUMG00000171555	ENST00000336557.5:c.477C>G	14.37:g.24775203G>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DS73|Q546V8|Q9NNW9	Silent	SNP	ENST00000336557.5	37	CCDS32056.1																																																																																				0.488	CIDEB-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414120.1			C	24775203	G	C	24775203	2	2	606	1	0	0	0	0	0	0	0	1	3428	929	33	4		4	CIDEB	14	24775203	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08		24775203	82574337	150	36646										
FANCM	57697	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	45642339	45642339	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	atcatcctttgcctacacatCaagttgatcactcagatcga	5	12	4	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr14:45642339C>G	ENST00000267430.5	+	13	2327	c.2242C>G	c.(2242-2244)Caa>Gaa	p.Q748E	FANCM_ENST00000542564.2_Missense_Mutation_p.Q722E	NM_020937.2	NP_065988.1	Q8IYD8	FANCM_HUMAN	Fanconi anemia, complementation group M	748					DNA repair (GO:0006281)|replication fork processing (GO:0031297)|resolution of meiotic recombination intermediates (GO:0000712)	FANCM-MHF complex (GO:0071821)|Fanconi anaemia nuclear complex (GO:0043240)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|nuclease activity (GO:0004518)			breast(4)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(18)|liver(2)|lung(31)|ovary(4)|prostate(2)|skin(1)|upper_aerodigestive_tract(6)|urinary_tract(1)	85						GCCTACACATCAAGTTGATCA	0.398								Involved in tolerance or repair of DNA crosslinks	Fanconi Anemia																																							0													160	144	150					14																	45642339		2203	4300	6503	SO:0001583	missense	57697	Familial Cancer Database	Pancytopenia Dysmelia, FA (several complementation groups)	AK001672	CCDS32070.1	14q21.3	2014-09-17	2005-09-01	2005-09-01		ENSG00000187790		"Fanconi anemia, complementation groups"	23168	protein-coding gene	gene with protein product		609644	"KIAA1596"	KIAA1596		10997877, 16116422	Standard	NM_020937		Approved	FAAP250	uc001wwd.4	Q8IYD8		ENST00000267430.5:c.2242C>G	14.37:g.45642339C>G	ENSP00000267430:p.Gln748Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTQ9|Q3YFH9|Q8N9X6|Q9HCH6	Missense_Mutation	SNP	ENST00000267430.5	37	CCDS32070.1	.	.	.	.	.	.	.	.	.	.	C	2.703	-0.270591	0.05716	.	.	ENSG00000187790	ENST00000267430;ENST00000542564;ENST00000556250	T;T;T	0.18338	2.83;2.83;2.22	5.79	5.79	0.91817	.	1.031910	0.07642	N	0.930388	T	0.18841	0.0452	L	0.60455	1.87	0.09310	N	1	B;B	0.28233	0.204;0.204	B;B	0.21708	0.036;0.033	T	0.21999	-1.0229	10	0.23302	T	0.38	.	9.037	0.36293	0.1484:0.7768:0.0:0.0748	.	722;748	B2RTQ9;Q8IYD8	.;FANCM_HUMAN	E	748;722;264	ENSP00000267430:Q748E;ENSP00000442493:Q722E;ENSP00000452033:Q264E	ENSP00000267430:Q748E	Q	+	1	0	FANCM	44712089	0.001000	0.12720	0.103000	0.21229	0.402000	0.30811	1.154000	0.31688	2.746000	0.94184	0.561000	0.74099	CAA		0.398	FANCM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410474.1	XM_048128		G	45642339	C	G	45642339	3	3	606	1	0	0	0	0	1	0	0	0	5678	827	29	4	2292	4	FANCM	14	45642339	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	20867136	45642339	61707201	151	36647										
ZBTB1	22890	hgsc.bcm.edu	37	chr14	64989477	64989477	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gtccagtacaagaggatgctGaaaatgcatcttgtgagctg	12	7	1	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr14:64989477G>C	ENST00000554015.1	+	4	1686	c.1255G>C	c.(1255-1257)Gaa>Caa	p.E419Q	ZBTB1_ENST00000358738.3_Missense_Mutation_p.E419Q|RP11-973N13.4_ENST00000554918.1_RNA|ZBTB1_ENST00000394712.2_Missense_Mutation_p.E419Q			Q9Y2K1	ZBTB1_HUMAN	zinc finger and BTB domain containing 1	419					B cell differentiation (GO:0030183)|innate immune response (GO:0045087)|mRNA transcription from RNA polymerase II promoter (GO:0042789)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of natural killer cell differentiation (GO:0032825)|positive regulation of pro-T cell differentiation (GO:2000176)|positive regulation of T cell differentiation (GO:0045582)|positive regulation of T cell mediated immunity (GO:0002711)|protein homooligomerization (GO:0051260)|T cell differentiation in thymus (GO:0033077)|thymus development (GO:0048538)	nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)			kidney(1)|large_intestine(3)|lung(7)|prostate(1)|skin(1)	13		all_lung(585;0.000567)|Myeloproliferative disorder(585;0.0255)|all_neural(303;0.0294)		UCEC - Uterine corpus endometrioid carcinoma (185;0.0182)|all cancers(60;3.78e-43)|OV - Ovarian serous cystadenocarcinoma(108;1.22e-20)|BRCA - Breast invasive adenocarcinoma(234;6.75e-06)|KIRC - Kidney renal clear cell carcinoma(182;0.00269)|STAD - Stomach adenocarcinoma(64;0.012)		AGAGGATGCTGAAAATGCATC	0.423																																																0													61	59	60					14																	64989477		2203	4300	6503	SO:0001583	missense	22890			AB023214	CCDS32097.1, CCDS45126.1	14q23.3	2013-01-09			ENSG00000126804	ENSG00000126804		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	20259	protein-coding gene	gene with protein product						10231032	Standard	NM_014950		Approved	KIAA0997, ZNF909	uc010aqg.3	Q9Y2K1		ENST00000554015.1:c.1255G>C	14.37:g.64989477G>C	ENSP00000451000:p.Glu419Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6S8|Q86SW8	Missense_Mutation	SNP	ENST00000554015.1	37	CCDS45126.1	.	.	.	.	.	.	.	.	.	.	G	11.69	1.714837	0.30413	.	.	ENSG00000126804	ENST00000554015;ENST00000358738;ENST00000394712	T;T;T	0.10960	2.82;3.36;2.82	6.17	6.17	0.99709	.	0.000000	0.43110	D	0.000615	T	0.15003	0.0362	N	0.24115	0.695	0.21822	N	0.999521	D;P	0.52996	0.957;0.818	P;B	0.48454	0.578;0.255	T	0.02758	-1.1114	10	0.87932	D	0	-29.409	20.8794	0.99867	0.0:0.0:1.0:0.0	.	419;419	Q9Y2K1-2;Q9Y2K1	.;ZBTB1_HUMAN	Q	419	ENSP00000451000:E419Q;ENSP00000351587:E419Q;ENSP00000378201:E419Q	ENSP00000351587:E419Q	E	+	1	0	ZBTB1	64059230	1.000000	0.71417	0.278000	0.24718	0.995000	0.86356	5.210000	0.65214	2.941000	0.99782	0.655000	0.94253	GAA		0.423	ZBTB1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411912.1			C	64989477	G	C	64989477	3	2	606	1	0	0	0	0	1	0	0	0	17534	1291	45	4	1257	4	ZBTB1	14	64989477	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	19347138	64989477	42360063	152	36648										
SLC8A3	6547	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	70633987	70633987	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aggctcatcggtgtgcacctCgctcatgctggaggccttct	12	13	3	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr14:70633987C>T	ENST00000381269.2	-	2	1906	c.1153G>A	c.(1153-1155)Gag>Aag	p.E385K	SLC8A3_ENST00000534137.1_Missense_Mutation_p.E385K|SLC8A3_ENST00000528359.1_Missense_Mutation_p.E385K|SLC8A3_ENST00000356921.2_Missense_Mutation_p.E385K|SLC8A3_ENST00000357887.3_Missense_Mutation_p.E385K	NM_058240.2|NM_183002.1	NP_489479.1|NP_892114.1	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium exchanger), member 3	385					blood coagulation (GO:0007596)|calcium ion export from cell (GO:1990034)|calcium ion import into cell (GO:1990035)|calcium ion transport into cytosol (GO:0060402)|cell communication (GO:0007154)|cellular response to cAMP (GO:0071320)|hematopoietic progenitor cell differentiation (GO:0002244)|ion transport (GO:0006811)|telencephalon development (GO:0021537)|transmembrane transport (GO:0055085)	dendritic spine (GO:0043197)|integral component of membrane (GO:0016021)|microtubule (GO:0005874)|mitochondrion (GO:0005739)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)	calcium:sodium antiporter activity (GO:0005432)			NS(1)|breast(3)|central_nervous_system(2)|endometrium(3)|kidney(2)|large_intestine(12)|lung(18)|ovary(2)|pancreas(2)|prostate(3)|skin(6)	54				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		GTGTGCACCTCGCTCATGCTG	0.512																																																0													126	116	119					14																	70633987		2203	4300	6503	SO:0001583	missense	6547			AJ304852	CCDS9799.1, CCDS9800.1, CCDS35498.1, CCDS41967.1, CCDS45131.1, CCDS53904.1	14q24.1	2013-05-22	2008-09-02		ENSG00000100678	ENSG00000100678		"Solute carriers"	11070	protein-coding gene	gene with protein product		607991				8798769	Standard	XM_005268017		Approved	NCX3	uc001xly.3	P57103	OTTHUMG00000152342	ENST00000381269.2:c.1153G>A	14.37:g.70633987C>T	ENSP00000370669:p.Glu385Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5K3P6|Q5K3P7|Q8IUE9|Q8IUF0|Q8NFI7|Q96QG1|Q96QG2	Missense_Mutation	SNP	ENST00000381269.2	37	CCDS35498.1	.	.	.	.	.	.	.	.	.	.	C	11.86	1.764362	0.31228	.	.	ENSG00000100678	ENST00000356921;ENST00000381269;ENST00000357887;ENST00000534137;ENST00000528359	T;T;T;T;T	0.36699	1.33;1.24;1.38;1.33;1.38	5.83	5.83	0.93111	Na-Ca exchanger/integrin-beta4 (1);	0.054654	0.64402	D	0.000001	T	0.55386	0.1917	L	0.55990	1.75	0.80722	D	1	P;P;D;D	0.61080	0.811;0.843;0.989;0.989	B;B;P;P	0.62740	0.146;0.228;0.906;0.874	T	0.44143	-0.9347	10	0.37606	T	0.19	.	20.1242	0.97973	0.0:1.0:0.0:0.0	.	385;385;385;385	P57103-2;P57103;Q96QG2;Q96QG1	.;NAC3_HUMAN;.;.	K	385	ENSP00000349392:E385K;ENSP00000370669:E385K;ENSP00000350560:E385K;ENSP00000436688:E385K;ENSP00000433531:E385K	ENSP00000349392:E385K	E	-	1	0	SLC8A3	69703740	1.000000	0.71417	0.979000	0.43373	0.631000	0.37964	4.942000	0.63547	2.744000	0.94065	0.643000	0.83706	GAG		0.512	SLC8A3-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000390736.1			T	70633987	C	T	70633987	3	4	606	1	0	0	0	0	1	0	0	0	14721	893	31	1	1769	1	SLC8A3	14	70633987	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	5644510	70633987	36715553	153	36649										
PAPLN	89932	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	73720491	73720491	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	agggccatgggcaccctgctCagcctcctgtggaggaggct	15	13	1	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr14:73720491C>T	ENST00000554301.1	+	11	1287	c.1124C>T	c.(1123-1125)tCa>tTa	p.S375L	PAPLN_ENST00000381166.3_Missense_Mutation_p.S375L|PAPLN_ENST00000427855.1_Missense_Mutation_p.S375L|PAPLN_ENST00000340738.5_Missense_Mutation_p.S348L|PAPLN_ENST00000555445.1_Missense_Mutation_p.S375L			O95428	PPN_HUMAN	papilin, proteoglycan-like sulfated glycoprotein	375	TSP type-1 3. {ECO:0000255|PROSITE- ProRule:PRU00210}.					basement membrane (GO:0005604)	metalloendopeptidase activity (GO:0004222)|serine-type endopeptidase inhibitor activity (GO:0004867)|zinc ion binding (GO:0008270)			NS(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(4)|lung(11)|ovary(3)|pancreas(3)|prostate(5)|skin(3)|upper_aerodigestive_tract(3)	42				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GCACCCTGCTCAGCCTCCTGT	0.672																																																0													44	47	46					14																	73720491		2202	4299	6501	SO:0001583	missense	89932			BC042057	CCDS32114.1	14q24.2	2013-01-11				ENSG00000100767		"Immunoglobulin superfamily / I-set domain containing"	19262	protein-coding gene	gene with protein product						11076767, 19734141	Standard	NM_173462		Approved	MGC50452	uc001xnw.4	O95428		ENST00000554301.1:c.1124C>T	14.37:g.73720491C>T	ENSP00000451803:p.Ser375Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DES8|B4DGE6|Q659F2|Q6UXJ4|Q6ZNM1|Q6ZUJ0|Q7Z681|Q8IVU0	Missense_Mutation	SNP	ENST00000554301.1	37		.	.	.	.	.	.	.	.	.	.	C	17.90	3.503048	0.64298	.	.	ENSG00000100767	ENST00000340738;ENST00000427855;ENST00000381166;ENST00000554301;ENST00000555445	T;T;T;T;T	0.68479	-0.33;-0.33;-0.33;-0.33;-0.33	4.57	4.57	0.56435	.	.	.	.	.	D	0.89111	0.6622	H	0.98351	4.21	0.53005	D	0.999967	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.994	D	0.93625	0.6951	9	0.87932	D	0	.	17.5437	0.87855	0.0:1.0:0.0:0.0	.	375;375;348	O95428-5;O95428;O95428-6	.;PPN_HUMAN;.	L	348;375;375;375;375	ENSP00000345395:S348L;ENSP00000403403:S375L;ENSP00000370558:S375L;ENSP00000451803:S375L;ENSP00000451729:S375L	ENSP00000216658:S375L	S	+	2	0	PAPLN	72790244	1.000000	0.71417	0.939000	0.37840	0.046000	0.14306	7.385000	0.79763	2.385000	0.81259	0.462000	0.41574	TCA		0.672	PAPLN-002	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000413182.1	NM_173462		T	73720491	C	T	73720491	3	4	606	1	0	0	0	0	1	0	0	0	11435	838	29	2	1081	2	PAPLN	14	73720491	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	3086504	73720491	33629049	154	36650										
FLRT2	23768	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	86088747	86088747	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgctgactcaaggggtttttGataatctctccaacctgaag	9	9	2	3	rs199966508		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr14:86088747G>C	ENST00000330753.4	+	2	1656	c.889G>C	c.(889-891)Gat>Cat	p.D297H	FLRT2_ENST00000554746.1_Missense_Mutation_p.D297H	NM_013231.4	NP_037363.1	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	297					axon guidance (GO:0007411)|cell adhesion (GO:0007155)|intracellular signal transduction (GO:0035556)|regulation of neuron migration (GO:2001222)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|proteinaceous extracellular matrix (GO:0005578)	chemorepellent activity (GO:0045499)|protein binding, bridging (GO:0030674)|receptor signaling protein activity (GO:0005057)			NS(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|large_intestine(21)|lung(27)|ovary(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	73				BRCA - Breast invasive adenocarcinoma(234;0.0319)		AGGGGTTTTTGATAATCTCTC	0.448																																																0													169	178	175					14																	86088747		2203	4300	6503	SO:0001583	missense	23768			AF169676	CCDS9877.1	14q24-q32	2013-02-11				ENSG00000185070		"Fibronectin type III domain containing"	3761	protein-coding gene	gene with protein product		604807				10644439, 16872596	Standard	XM_005267490		Approved		uc001xvr.3	O43155		ENST00000330753.4:c.889G>C	14.37:g.86088747G>C	ENSP00000332879:p.Asp297His	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV84|B7ZLP3	Missense_Mutation	SNP	ENST00000330753.4	37	CCDS9877.1	.	.	.	.	.	.	.	.	.	.	G	17.30	3.355620	0.61293	.	.	ENSG00000185070	ENST00000330753;ENST00000554746	T;T	0.58210	0.35;0.35	5.97	5.97	0.96955	.	0.048069	0.85682	D	0.000000	T	0.64316	0.2587	L	0.32530	0.975	0.80722	D	1	D	0.65815	0.995	D	0.65233	0.933	T	0.63747	-0.6567	10	0.59425	D	0.04	-19.3382	20.4238	0.99064	0.0:0.0:1.0:0.0	.	297	O43155	FLRT2_HUMAN	H	297	ENSP00000332879:D297H;ENSP00000451050:D297H	ENSP00000332879:D297H	D	+	1	0	FLRT2	85158500	1.000000	0.71417	1.000000	0.80357	0.951000	0.60555	8.061000	0.89467	2.828000	0.97474	0.655000	0.94253	GAT		0.448	FLRT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413193.1			C	86088747	G	C	86088747	3	2	606	1	0	0	0	0	1	0	0	0	5946	1290	45	4	891	4	FLRT2	14	86088747	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	12368256	86088747	21260793	155	36651										
EML5	161436	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	89161727	89161727	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgctattgaaagtttctctcCtttcttccagtcccagagca	6	12	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr14:89161727C>T	ENST00000380664.5	-	16	2415	c.2416G>A	c.(2416-2418)Gga>Aga	p.G806R	EML5_ENST00000352093.5_Missense_Mutation_p.G806R|EML5_ENST00000554922.1_Missense_Mutation_p.G806R			Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like 5	806						cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)	catalytic activity (GO:0003824)			breast(1)|endometrium(3)|kidney(4)|large_intestine(17)|lung(14)|ovary(3)|pancreas(1)|prostate(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	50						AGTTTCTCTCCTTTCTTCCAG	0.338																																																0													88	79	82					14																	89161727		1843	4083	5926	SO:0001583	missense	161436			AY357725	CCDS45148.1	14q31.3	2013-01-10				ENSG00000165521		"WD repeat domain containing"	18197	protein-coding gene	gene with protein product							Standard	NM_183387		Approved	HuEMAP-2, EMAP-2	uc021ryf.1	Q05BV3		ENST00000380664.5:c.2416G>A	14.37:g.89161727C>T	ENSP00000370039:p.Gly806Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B9EK59|Q5H9N6|Q6UYC9|Q6ZRP3|Q6ZT03	Missense_Mutation	SNP	ENST00000380664.5	37	CCDS45148.1	.	.	.	.	.	.	.	.	.	.	C	26.2	4.718501	0.89205	.	.	ENSG00000165521	ENST00000554922;ENST00000352093;ENST00000380664	T;T;T	0.65916	-0.18;1.86;-0.18	4.86	4.86	0.63082	WD40/YVTN repeat-like-containing domain (1);Quinonprotein alcohol dehydrogenase-like (1);WD40-repeat-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.80391	0.4614	M	0.81239	2.535	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.81899	-0.0721	10	0.51188	T	0.08	-15.3073	17.7789	0.88517	0.0:1.0:0.0:0.0	.	806	Q05BV3	EMAL5_HUMAN	R	806	ENSP00000451998:G806R;ENSP00000298315:G806R;ENSP00000370039:G806R	ENSP00000298315:G806R	G	-	1	0	EML5	88231480	1.000000	0.71417	1.000000	0.80357	0.928000	0.56348	7.320000	0.79064	2.526000	0.85167	0.467000	0.42956	GGA		0.338	EML5-010	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000410491.1			T	89161727	C	T	89161727	3	4	606	1	0	0	0	0	1	0	0	0	5102	690	24	2	3629	2	EML5	14	89161727	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	3072980	89161727	18187813	156	36652										
MARK3	4140	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	103932113	103932113	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tcagtggctcacttccctttGatgggcaaaacctaaaggta	9	10	2	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr14:103932113G>C	ENST00000429436.2	+	8	1270	c.760G>C	c.(760-762)Gat>Cat	p.D254H	MARK3_ENST00000216288.7_Missense_Mutation_p.D254H|MARK3_ENST00000561071.1_Intron|MARK3_ENST00000440884.3_Intron|MARK3_ENST00000416682.2_Missense_Mutation_p.D277H|MARK3_ENST00000303622.9_Missense_Mutation_p.D254H|MARK3_ENST00000553942.1_Missense_Mutation_p.D254H|MARK3_ENST00000335102.5_Missense_Mutation_p.D277H	NM_001128918.1|NM_001128919.1	NP_001122390.1|NP_001122391.1	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	254	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.					plasma membrane (GO:0005886)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			autonomic_ganglia(1)|breast(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(6)|lung(10)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	30		Melanoma(154;0.155)	Epithelial(46;0.241)			ACTTCCCTTTGATGGGCAAAA	0.403																																																0													64	65	65					14																	103932113		1975	4183	6158	SO:0001583	missense	4140			M80359	CCDS41993.1, CCDS45165.1, CCDS45166.1, CCDS45167.1, CCDS55947.1	14q32.32	2014-04-07			ENSG00000075413	ENSG00000075413			6897	protein-coding gene	gene with protein product		602678				9533022	Standard	NM_002376		Approved	CTAK1, KP78, PAR-1A	uc001ymz.4	P27448	OTTHUMG00000171789	ENST00000429436.2:c.760G>C	14.37:g.103932113G>C	ENSP00000411397:p.Asp254His	Somatic		WXS	Illumina HiSeq	Phase_I	O60219|Q86TT8|Q8TB41|Q8WX83|Q96RG1|Q9UMY9|Q9UN34	Missense_Mutation	SNP	ENST00000429436.2	37	CCDS45165.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	26.1|26.1	4.702752|4.702752	0.88924|0.88924	.|.	.|.	ENSG00000075413|ENSG00000075413	ENST00000335102;ENST00000416682;ENST00000429436;ENST00000303622;ENST00000216288;ENST00000553942|ENST00000554627	T;T;T;T;T;T|.	0.66280|.	-0.2;-0.2;-0.2;-0.2;-0.2;-0.2|.	5.84|5.84	5.84|5.84	0.93424|0.93424	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.61185|0.61185	0.2327|0.2327	L|L	0.33189|0.33189	0.99|0.99	0.80722|0.80722	D|D	1|1	D;D;D;D;D;D|.	0.89917|.	1.0;1.0;1.0;1.0;1.0;1.0|.	D;D;D;D;D;D|.	0.97110|.	0.997;0.996;0.999;0.998;1.0;0.995|.	T|T	0.53208|0.53208	-0.8471|-0.8471	10|5	0.87932|.	D|.	0|.	.|.	20.1454|20.1454	0.98074|0.98074	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	277;277;254;254;254;254|.	P27448-7;P27448-2;P27448-6;P27448;P27448-4;P27448-3|.	.;.;.;MARK3_HUMAN;.;.|.	H|F	277;277;254;254;254;254|21	ENSP00000335347:D277H;ENSP00000408092:D277H;ENSP00000411397:D254H;ENSP00000303698:D254H;ENSP00000216288:D254H;ENSP00000450772:D254H|.	ENSP00000216288:D254H|.	D|L	+|+	1|3	0|2	MARK3|MARK3	103001866|103001866	1.000000|1.000000	0.71417|0.71417	0.996000|0.996000	0.52242|0.52242	0.996000|0.996000	0.88848|0.88848	9.807000|9.807000	0.99171|0.99171	2.748000|2.748000	0.94277|0.94277	0.650000|0.650000	0.86243|0.86243	GAT|TTG		0.403	MARK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415144.1	NM_001128918		C	103932113	G	C	103932113	3	2	606	1	0	0	0	0	1	0	0	0	9321	1290	45	4	790	4	MARK3	14	103932113	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	14770386	103932113	3417427	157	36653										
MARK3	4140	ucsc.edu	37	chr14	103932725	103932725	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	atgcagggcatgaagaagatGaactcaaaccatttgttgaa	10	6	1	5			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr14:103932725G>A	ENST00000429436.2	+	10	1453	c.943G>A	c.(943-945)Gaa>Aaa	p.E315K	MARK3_ENST00000216288.7_Missense_Mutation_p.E315K|MARK3_ENST00000561071.1_Intron|MARK3_ENST00000440884.3_Missense_Mutation_p.E236K|MARK3_ENST00000416682.2_Missense_Mutation_p.E338K|MARK3_ENST00000303622.9_Missense_Mutation_p.E315K|MARK3_ENST00000553942.1_Missense_Mutation_p.E315K|MARK3_ENST00000335102.5_Missense_Mutation_p.E338K	NM_001128918.1|NM_001128919.1	NP_001122390.1|NP_001122391.1	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	315						plasma membrane (GO:0005886)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			autonomic_ganglia(1)|breast(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(6)|lung(10)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	30		Melanoma(154;0.155)	Epithelial(46;0.241)			TGAAGAAGATGAACTCAAACC	0.373																																																0													109	97	101					14																	103932725		1910	4129	6039	SO:0001583	missense	4140			M80359	CCDS41993.1, CCDS45165.1, CCDS45166.1, CCDS45167.1, CCDS55947.1	14q32.32	2014-04-07			ENSG00000075413	ENSG00000075413			6897	protein-coding gene	gene with protein product		602678				9533022	Standard	NM_002376		Approved	CTAK1, KP78, PAR-1A	uc001ymz.4	P27448	OTTHUMG00000171789	ENST00000429436.2:c.943G>A	14.37:g.103932725G>A	ENSP00000411397:p.Glu315Lys	Somatic		WXS	Illumina HiSeq		O60219|Q86TT8|Q8TB41|Q8WX83|Q96RG1|Q9UMY9|Q9UN34	Missense_Mutation	SNP	ENST00000429436.2	37	CCDS45165.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	36|36	5.634428|5.634428	0.96682|0.96682	.|.	.|.	ENSG00000075413|ENSG00000075413	ENST00000335102;ENST00000440884;ENST00000416682;ENST00000429436;ENST00000303622;ENST00000216288;ENST00000553942|ENST00000554627	T;T;T;T;T;T;T|.	0.74002|.	-0.8;3.14;-0.74;-0.76;-0.75;1.85;-0.76|.	5.69|5.69	5.69|5.69	0.88448|0.88448	Protein kinase-like domain (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.66567|0.66567	0.2802|0.2802	L|L	0.38838|0.38838	1.175|1.175	0.80722|0.80722	D|D	1|1	P;D;P;B;D;D;B|.	0.63046|.	0.749;0.981;0.849;0.446;0.986;0.992;0.392|.	P;P;B;B;D;P;B|.	0.64776|.	0.511;0.876;0.375;0.138;0.929;0.868;0.058|.	T|T	0.60777|0.60777	-0.7196|-0.7196	10|5	0.41790|.	T|.	0.15|.	.|.	19.8215|19.8215	0.96599|0.96599	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	338;338;315;315;236;315;315|.	P27448-7;P27448-2;P27448-6;P27448;Q86TT8;P27448-4;P27448-3|.	.;.;.;MARK3_HUMAN;.;.;.|.	K|I	338;236;338;315;315;315;315|82	ENSP00000335347:E338K;ENSP00000402104:E236K;ENSP00000408092:E338K;ENSP00000411397:E315K;ENSP00000303698:E315K;ENSP00000216288:E315K;ENSP00000450772:E315K|.	ENSP00000216288:E315K|.	E|M	+|+	1|3	0|0	MARK3|MARK3	103002478|103002478	1.000000|1.000000	0.71417|0.71417	0.927000|0.927000	0.36925|0.36925	0.971000|0.971000	0.66376|0.66376	7.645000|7.645000	0.83430|0.83430	2.679000|2.679000	0.91253|0.91253	0.650000|0.650000	0.86243|0.86243	GAA|ATG		0.373	MARK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415144.1	NM_001128918		A	103932725	G	A	103932725	3	1	606	1	0	0	0	0	1	0	0	0	9321	1291	45	2	981	2	MARK3	14	103932725	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	612	103932725	3416815	158	36654										
AHNAK2	113146	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	105409722	105409722	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gcctggacctccaggtcagcGgaagggggctgaacgctgag	17	11	1	2	rs372712364	byFrequency	TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr14:105409722G>A	ENST00000333244.5	-	7	12185	c.12066C>T	c.(12064-12066)tcC>tcT	p.S4022S	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4022						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			CCAGGTCAGCGGAAGGGGGCT	0.657													.|||	2	0.000399361	0.0008	0.0014	5008	,	,		17513	0.0		0.0	False		,,,				2504	0.0															0													109	115	113					14																	105409722		1954	4133	6087	SO:0001819	synonymous_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.12066C>T	14.37:g.105409722G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Silent	SNP	ENST00000333244.5	37	CCDS45177.1																																																																																				0.657	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		A	105409722	G	A	105409722	2	1	606	1	0	0	0	0	0	0	0	1	415	1103	39	1		1	AHNAK2	14	105409722	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	1476997	105409722	1939818	159	36655										
ZFYVE19	84936	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	41099974	41099974	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gcccaggacttggccggcgtGatctcagctctgcagaccct	12	15	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr15:41099974G>A	ENST00000355341.4	+	1	688	c.187G>A	c.(187-189)Gat>Aat	p.D63N	ZFYVE19_ENST00000564258.1_Intron|ZFYVE19_ENST00000570108.1_Intron|DNAJC17_ENST00000220496.4_5'Flank|ZFYVE19_ENST00000299173.10_Missense_Mutation_p.D63N|ZFYVE19_ENST00000563530.1_3'UTR|ZFYVE19_ENST00000336455.5_Intron	NM_001077268.1	NP_001070736.1	Q96K21	ANCHR_HUMAN	zinc finger, FYVE domain containing 19	63					abscission (GO:0009838)|cell division (GO:0051301)|cytokinesis checkpoint (GO:0031565)|negative regulation of cytokinesis (GO:0032466)	centrosome (GO:0005813)|cleavage furrow (GO:0032154)|cytoplasm (GO:0005737)|midbody (GO:0030496)	phosphatidylinositol-3-phosphate binding (GO:0032266)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(1)|large_intestine(1)|lung(4)|skin(1)	9		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)		TGGCCGGCGTGATCTCAGCTC	0.672																																																0													36	46	42					15																	41099974		2053	4206	6259	SO:0001583	missense	84936			AK027746	CCDS42025.1, CCDS58353.1, CCDS58354.1, CCDS58355.1	15q14	2008-05-02				ENSG00000166140		"Zinc fingers, FYVE domain containing"	20758	protein-coding gene	gene with protein product							Standard	NM_001077268		Approved	FLJ14840	uc031qrk.1	Q96K21		ENST00000355341.4:c.187G>A	15.37:g.41099974G>A	ENSP00000347498:p.Asp63Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVB2|C9JNF4|H3BUF9|Q86WC2|Q8WU96	Missense_Mutation	SNP	ENST00000355341.4	37	CCDS42025.1	.	.	.	.	.	.	.	.	.	.	G	15.18	2.756051	0.49362	.	.	ENSG00000166140	ENST00000355341;ENST00000299173	T;T	0.37058	1.23;1.22	4.57	1.69	0.24217	.	1.328960	0.05087	N	0.484506	T	0.25680	0.0625	N	0.19112	0.55	0.09310	N	1	B;B	0.06786	0.001;0.001	B;B	0.08055	0.003;0.001	T	0.29610	-1.0006	10	0.72032	D	0.01	1.3232	6.5318	0.22332	0.2972:0.0:0.7028:0.0	.	63;63	Q96K21-3;Q96K21	.;ZFY19_HUMAN	N	63	ENSP00000347498:D63N;ENSP00000299173:D63N	ENSP00000299173:D63N	D	+	1	0	ZFYVE19	38887266	0.001000	0.12720	0.000000	0.03702	0.004000	0.04260	1.012000	0.29924	0.425000	0.26087	0.603000	0.83216	GAT		0.672	ZFYVE19-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000418996.1	NM_032850		A	41099974	G	A	41099974	3	1	606	1	0	0	0	0	1	0	0	0	17677	1290	45	2	189	2	ZFYVE19	15	41099974	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08		41099974	61431418	160	36656										
ZFYVE19	84936	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	41100015	41100015	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gcggtgctgggagccaccatGgagagtaggtgctacggctg	18	9	0	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr15:41100015G>A	ENST00000355341.4	+	1	729	c.228G>A	c.(226-228)atG>atA	p.M76I	ZFYVE19_ENST00000564258.1_Intron|ZFYVE19_ENST00000570108.1_Missense_Mutation_p.M53I|DNAJC17_ENST00000220496.4_5'Flank|ZFYVE19_ENST00000299173.10_Missense_Mutation_p.M76I|ZFYVE19_ENST00000563530.1_3'UTR|ZFYVE19_ENST00000336455.5_Intron	NM_001077268.1	NP_001070736.1	Q96K21	ANCHR_HUMAN	zinc finger, FYVE domain containing 19	76					abscission (GO:0009838)|cell division (GO:0051301)|cytokinesis checkpoint (GO:0031565)|negative regulation of cytokinesis (GO:0032466)	centrosome (GO:0005813)|cleavage furrow (GO:0032154)|cytoplasm (GO:0005737)|midbody (GO:0030496)	phosphatidylinositol-3-phosphate binding (GO:0032266)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(1)|large_intestine(1)|lung(4)|skin(1)	9		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)		GAGCCACCATGGAGAGTAGGT	0.657																																																0													40	49	46					15																	41100015		2070	4201	6271	SO:0001583	missense	84936			AK027746	CCDS42025.1, CCDS58353.1, CCDS58354.1, CCDS58355.1	15q14	2008-05-02				ENSG00000166140		"Zinc fingers, FYVE domain containing"	20758	protein-coding gene	gene with protein product							Standard	NM_001077268		Approved	FLJ14840	uc031qrk.1	Q96K21		ENST00000355341.4:c.228G>A	15.37:g.41100015G>A	ENSP00000347498:p.Met76Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVB2|C9JNF4|H3BUF9|Q86WC2|Q8WU96	Missense_Mutation	SNP	ENST00000355341.4	37	CCDS42025.1	.	.	.	.	.	.	.	.	.	.	G	33	5.220228	0.95139	.	.	ENSG00000166140	ENST00000355341;ENST00000299173	T;T	0.41065	1.01;1.01	5.5	5.5	0.81552	Zinc finger, FYVE-type (1);Zinc finger, FYVE/PHD-type (1);	171.812000	0.00166	N	0.000000	T	0.72827	0.3509	M	0.77486	2.375	0.54753	D	0.999986	D;D	0.71674	0.998;0.998	D;D	0.80764	0.991;0.994	T	0.54860	-0.8230	10	0.45353	T	0.12	-2.0204	18.3837	0.90459	0.0:0.0:1.0:0.0	.	76;76	Q96K21-3;Q96K21	.;ZFY19_HUMAN	I	76	ENSP00000347498:M76I;ENSP00000299173:M76I	ENSP00000299173:M76I	M	+	3	0	ZFYVE19	38887307	1.000000	0.71417	1.000000	0.80357	0.689000	0.40095	8.435000	0.90297	2.866000	0.98385	0.650000	0.86243	ATG		0.657	ZFYVE19-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000418996.1	NM_032850		A	41100015	G	A	41100015	3	1	606	1	0	0	0	0	1	0	0	0	17677	1348	47	2	230	2	ZFYVE19	15	41100015	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	41	41100015	61431377	161	36657										
INO80	54617	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	41384347	41384347	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	atcgtcttcactctgagaatCagcctcgctggattcatcac	7	13	6	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr15:41384347C>A	ENST00000361937.3	-	5	839	c.415G>T	c.(415-417)Gat>Tat	p.D139Y	INO80_ENST00000401393.3_Missense_Mutation_p.D139Y			Q9ULG1	INO80_HUMAN	INO80 complex subunit	139	Assembles INO80 complex module with putative regulatory components INO80E, INO80F, UCHL5, NFRKB, MCRS1 and IN80D.				ATP catabolic process (GO:0006200)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|chromatin remodeling (GO:0006338)|DNA duplex unwinding (GO:0032508)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|mitotic sister chromatid segregation (GO:0000070)|positive regulation of cell growth (GO:0030307)|positive regulation of nuclear cell cycle DNA replication (GO:0010571)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of G1/S transition of mitotic cell cycle (GO:2000045)|spindle assembly (GO:0051225)|UV-damage excision repair (GO:0070914)	Ino80 complex (GO:0031011)|microtubule (GO:0005874)|nucleus (GO:0005634)	alpha-tubulin binding (GO:0043014)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)			NS(1)|breast(4)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(10)|lung(10)|ovary(3)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(2)	49						CTCTGAGAATCAGCCTCGCTG	0.378																																																0													123	114	117					15																	41384347		2203	4300	6503	SO:0001583	missense	54617			AB033085	CCDS10071.1	15q15.1	2013-08-21	2013-08-21	2008-08-07	ENSG00000128908	ENSG00000128908	3.6.1.3	"INO80 complex subunits"	26956	protein-coding gene	gene with protein product	"INO80 complex subunit A"	610169	"INO80 complex homolog 1 (S. cerevisiae)", "INO80 homolog (S. cerevisiae)"	INOC1		16298340, 16230350, 20237820	Standard	NM_017553		Approved	KIAA1259, Ino80, hINO80, INO80A	uc001zni.3	Q9ULG1	OTTHUMG00000130209	ENST00000361937.3:c.415G>T	15.37:g.41384347C>A	ENSP00000355205:p.Asp139Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8X4|Q9NTG6	Missense_Mutation	SNP	ENST00000361937.3	37	CCDS10071.1	.	.	.	.	.	.	.	.	.	.	C	16.39	3.111190	0.56398	.	.	ENSG00000128908	ENST00000361937;ENST00000401393	D;D	0.92752	-3.1;-3.1	5.37	5.37	0.77165	.	0.099076	0.64402	D	0.000002	D	0.92612	0.7653	L	0.59436	1.845	0.80722	D	1	P	0.51791	0.948	P	0.47626	0.552	D	0.93222	0.6609	10	0.72032	D	0.01	.	19.3098	0.94182	0.0:1.0:0.0:0.0	.	139	Q9ULG1	INO80_HUMAN	Y	139	ENSP00000355205:D139Y;ENSP00000384686:D139Y	ENSP00000355205:D139Y	D	-	1	0	INO80	39171639	1.000000	0.71417	1.000000	0.80357	0.070000	0.16714	6.847000	0.75404	2.800000	0.96347	0.455000	0.32223	GAT		0.378	INO80-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252527.2	NM_017553		A	41384347	C	A	41384347	3	1	606	1	0	0	0	0	1	0	0	0	7753	826	29	4	4383	4	INO80	15	41384347	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	284332	41384347	61147045	162	36658										
TRPM7	54822	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	50906430	50906430	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aacaagtcctatatcaatcaGagtgatcttatatcctggag	7	8	3	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr15:50906430G>C	ENST00000313478.7	-	14	1806	c.1525C>G	c.(1525-1527)Ctg>Gtg	p.L509V	TRPM7_ENST00000560955.1_Missense_Mutation_p.L509V	NM_017672.4	NP_060142.3	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel, subfamily M, member 7	509					actomyosin structure organization (GO:0031032)|calcium ion transmembrane transport (GO:0070588)|calcium-dependent cell-matrix adhesion (GO:0016340)|cellular magnesium ion homeostasis (GO:0010961)|ion transmembrane transport (GO:0034220)|necroptotic process (GO:0070266)|protein autophosphorylation (GO:0046777)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	ATP binding (GO:0005524)|calcium channel activity (GO:0005262)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)			breast(3)|central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(17)|lung(13)|ovary(4)|pancreas(1)|skin(4)|stomach(3)	52				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		ATATCAATCAGAGTGATCTTA	0.363																																																0													77	73	74					15																	50906430		1819	4082	5901	SO:0001583	missense	54822			AF346629	CCDS42035.1, CCDS73725.1	15q21	2011-12-14				ENSG00000092439		"Voltage-gated ion channels / Transient receptor potential cation channels"	17994	protein-coding gene	gene with protein product		605692				11161216, 11385574, 16382100	Standard	XM_005254486		Approved	CHAK1, LTRPC7, TRP-PLIK	uc001zyt.4	Q96QT4		ENST00000313478.7:c.1525C>G	15.37:g.50906430G>C	ENSP00000320239:p.Leu509Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZMF5|Q86VJ4|Q8NBW2|Q9BXB2|Q9NXQ2	Missense_Mutation	SNP	ENST00000313478.7	37	CCDS42035.1	.	.	.	.	.	.	.	.	.	.	G	16.53	3.149746	0.57151	.	.	ENSG00000092439	ENST00000313478	T	0.69685	-0.42	4.99	3.08	0.35506	.	0.079472	0.51477	D	0.000082	T	0.71091	0.3299	M	0.77712	2.385	0.47511	D	0.999449	D	0.58620	0.983	P	0.51016	0.656	T	0.70615	-0.4823	10	0.49607	T	0.09	-10.3651	8.4541	0.32888	0.3035:0.0:0.6965:0.0	.	509	Q96QT4	TRPM7_HUMAN	V	509	ENSP00000320239:L509V	ENSP00000320239:L509V	L	-	1	2	TRPM7	48693722	0.997000	0.39634	1.000000	0.80357	0.995000	0.86356	2.080000	0.41586	0.667000	0.31107	0.563000	0.77884	CTG		0.363	TRPM7-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000418604.1	NM_017672		C	50906430	G	C	50906430	3	2	606	1	0	0	0	0	1	0	0	0	16603	933	33	4	4176	4	TRPM7	15	50906430	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	9522083	50906430	51624962	163	36659										
DMXL2	23312	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	51773559	51773559	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctttttttgcagataaggcaGatgttttggttacttttgga	10	4	0	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr15:51773559G>A	ENST00000251076.5	-	24	6031	c.5744C>T	c.(5743-5745)tCt>tTt	p.S1915F	DMXL2_ENST00000543779.2_Missense_Mutation_p.S1915F|RP11-707P17.1_ENST00000561007.1_RNA|DMXL2_ENST00000449909.3_Missense_Mutation_p.S1279F	NM_001174116.1|NM_015263.3	NP_001167587.1|NP_056078.2	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	1915						cell junction (GO:0030054)|extracellular space (GO:0005615)|membrane (GO:0016020)|synaptic vesicle (GO:0008021)	Rab GTPase binding (GO:0017137)			breast(4)|central_nervous_system(1)|cervix(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(26)|liver(1)|lung(28)|ovary(7)|prostate(7)|skin(4)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	101				all cancers(107;0.00494)		AGATAAGGCAGATGTTTTGGT	0.383																																																0													190	183	185					15																	51773559		2196	4293	6489	SO:0001583	missense	23312			AB020663	CCDS10141.1, CCDS53945.1, CCDS53946.1	15q21.2	2013-01-10			ENSG00000104093	ENSG00000104093		"WD repeat domain containing"	2938	protein-coding gene	gene with protein product	"rabconnectin 3"	612186					Standard	NM_001174116		Approved	RC3, KIAA0856	uc010ufy.2	Q8TDJ6	OTTHUMG00000131749	ENST00000251076.5:c.5744C>T	15.37:g.51773559G>A	ENSP00000251076:p.Ser1915Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTR3|B7ZMH3|F5GWF1|O94938	Missense_Mutation	SNP	ENST00000251076.5	37	CCDS10141.1	.	.	.	.	.	.	.	.	.	.	G	11.80	1.745636	0.30955	.	.	ENSG00000104093	ENST00000251076;ENST00000543779;ENST00000449909	T;T;T	0.26660	1.85;1.85;1.72	5.65	4.68	0.58851	.	0.408961	0.29624	N	0.011623	T	0.23289	0.0563	L	0.48986	1.54	0.30040	N	0.812686	B;B;B	0.18863	0.001;0.031;0.0	B;B;B	0.10450	0.004;0.005;0.002	T	0.08806	-1.0704	10	0.56958	D	0.05	.	9.5634	0.39383	0.0741:0.1436:0.7824:0.0	.	1915;1279;1915	F5GWF1;B2RTR3;Q8TDJ6	.;.;DMXL2_HUMAN	F	1915;1915;1279	ENSP00000251076:S1915F;ENSP00000441858:S1915F;ENSP00000400855:S1279F	ENSP00000251076:S1915F	S	-	2	0	DMXL2	49560851	0.996000	0.38824	0.872000	0.34217	0.993000	0.82548	3.716000	0.54904	2.665000	0.90641	0.650000	0.86243	TCT		0.383	DMXL2-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000254671.2	NM_015263		A	51773559	G	A	51773559	3	1	606	1	0	0	0	0	1	0	0	0	4597	942	33	2	3449	2	DMXL2	15	51773559	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	867129	51773559	50757833	164	36660										
AKAP13	11214	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	86269660	86269660	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gaggttcaagcagttcttctCactgacattttagttttcct	7	9	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr15:86269660C>G	ENST00000394518.2	+	27	6860	c.6765C>G	c.(6763-6765)ctC>ctG	p.L2255L	AKAP13_ENST00000361243.2_Silent_p.L2259L|RP11-158M2.2_ENST00000561417.1_RNA|AKAP13_ENST00000560579.1_3'UTR|AKAP13_ENST00000394510.2_Silent_p.L500L	NM_001270546.1|NM_007200.4	NP_001257475.1|NP_009131.2	Q12802	AKP13_HUMAN	A kinase (PRKA) anchor protein 13	2255	Interaction with ESR1.|PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|nuclear export (GO:0051168)|positive regulation of apoptotic process (GO:0043065)|protein phosphorylation (GO:0006468)|regulation of cardiac muscle hypertrophy (GO:0010611)|regulation of glucocorticoid mediated signaling pathway (GO:1900169)|regulation of protein kinase activity (GO:0045859)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	cAMP-dependent protein kinase activity (GO:0004691)|metal ion binding (GO:0046872)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|signal transducer activity (GO:0004871)			NS(1)|breast(2)|central_nervous_system(4)|endometrium(12)|haematopoietic_and_lymphoid_tissue(4)|kidney(13)|large_intestine(13)|liver(1)|lung(43)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	98						CAGTTCTTCTCACTGACATTT	0.338																																					Melanoma(94;603 1453 3280 32295 32951)											0													184	186	186					15																	86269660		2202	4298	6500	SO:0001819	synonymous_variant	11214			M90360	CCDS32319.1, CCDS32320.1, CCDS73778.1	15q24-q25	2013-01-10	2002-06-13			ENSG00000170776		"A-kinase anchor proteins", "Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	371	protein-coding gene	gene with protein product		604686	"lymphoid blast crisis oncogene"	LBC		9627117, 1860836	Standard	NM_007200		Approved	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13	uc002blu.2	Q12802		ENST00000394518.2:c.6765C>G	15.37:g.86269660C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q14572|Q59FP6|Q86W90|Q8WXQ6|Q96JP6|Q96P79|Q9Y5T0|Q9Y5T6	Silent	SNP	ENST00000394518.2	37	CCDS32319.1																																																																																				0.338	AKAP13-004	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000417318.1	NM_007200		G	86269660	C	G	86269660	2	3	606	1	0	0	0	0	0	0	0	1	449	813	29	4		4	AKAP13	15	86269660	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	34496101	86269660	16261732	165	36661										
PRC1	9055	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	91524227	91524227	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gatttgagtacgcagcccctCacacactgcttcattttgtg	8	12	2	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr15:91524227C>T	ENST00000361188.5	-	6	1920	c.709G>A	c.(709-711)Gag>Aag	p.E237K	PRC1_ENST00000361919.3_Missense_Mutation_p.E237K|PRC1_ENST00000442656.2_Missense_Mutation_p.E196K|PRC1-AS1_ENST00000554388.1_RNA|PRC1_ENST00000394249.3_Missense_Mutation_p.E237K					protein regulator of cytokinesis 1									p.E237Q(1)		endometrium(1)|kidney(2)|large_intestine(7)|lung(9)|ovary(3)|prostate(1)|skin(2)	25	Lung NSC(78;0.0987)|all_lung(78;0.175)					CGCAGCCCCTCACACACTGCT	0.507																																																1	Substitution - Missense(1)	ovary(1)											110	107	108					15																	91524227		2198	4298	6496	SO:0001583	missense	9055			AF044588	CCDS32334.1, CCDS45352.1, CCDS45353.1, CCDS45353.2	15q26.1	2013-05-29		2006-07-07	ENSG00000198901	ENSG00000198901			9341	protein-coding gene	gene with protein product	"anaphase spindle elongation 1 homolog (S. cerevisiae)"	603484				9885575	Standard	NM_003981		Approved	ASE1	uc002bqm.4	O43663	OTTHUMG00000171685	ENST00000361188.5:c.709G>A	15.37:g.91524227C>T	ENSP00000354679:p.Glu237Lys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000361188.5	37	CCDS45352.1	.	.	.	.	.	.	.	.	.	.	C	13.49	2.253520	0.39797	.	.	ENSG00000198901	ENST00000394249;ENST00000361919;ENST00000361188;ENST00000442656;ENST00000556982	T;T;T;T	0.28666	1.6;1.6;1.6;1.6	5.19	5.19	0.71726	.	0.240235	0.41605	D	0.000850	T	0.49012	0.1532	M	0.74258	2.255	0.41448	D	0.987967	P;P;P;P	0.51933	0.936;0.936;0.936;0.949	P;P;P;P	0.57960	0.738;0.811;0.738;0.83	T	0.42085	-0.9472	10	0.08381	T	0.77	.	18.5027	0.90888	0.0:1.0:0.0:0.0	.	196;237;237;237	O43663-3;F8W9B5;O43663-2;O43663	.;.;.;PRC1_HUMAN	K	237;237;237;196;11	ENSP00000377793:E237K;ENSP00000354618:E237K;ENSP00000354679:E237K;ENSP00000409549:E196K	ENSP00000354679:E237K	E	-	1	0	PRC1	89325231	0.608000	0.26966	0.998000	0.56505	0.023000	0.10783	1.659000	0.37387	2.711000	0.92665	0.655000	0.94253	GAG		0.507	PRC1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414760.1	NM_003981		T	91524227	C	T	91524227	3	4	606	1	0	0	0	0	1	0	0	0	12456	835	29	2	1193	2	PRC1	15	91524227	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	5254567	91524227	11007165	166	36662										
ZNF689	115509	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	30616559	30616559	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cccacagtctgggcaagggtAaggcttttttagattctggg	13	8	2	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr16:30616559A>G	ENST00000287461.3	-	3	866	c.529T>C	c.(529-531)Tac>Cac	p.Y177H	ZNF689_ENST00000566673.1_5'UTR|RP11-146F11.5_ENST00000563540.1_RNA	NM_138447.1	NP_612456.1	Q96CS4	ZN689_HUMAN	zinc finger protein 689	177					regulation of transcription, DNA-templated (GO:0006355)|skeletal muscle cell differentiation (GO:0035914)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(4)|prostate(1)|urinary_tract(1)	14			Colorectal(24;0.198)			GGGCAAGGGTAAGGCTTTTTT	0.617																																																0													73	78	77					16																	30616559		2197	4300	6497	SO:0001583	missense	115509			BC014000	CCDS10686.1	16p11.2	2013-01-08			ENSG00000156853	ENSG00000156853		"Zinc fingers, C2H2-type", "-"	25173	protein-coding gene	gene with protein product							Standard	NM_138447		Approved	FLJ90415	uc031qvq.1	Q96CS4	OTTHUMG00000132415	ENST00000287461.3:c.529T>C	16.37:g.30616559A>G	ENSP00000287461:p.Tyr177His	Somatic		WXS	Illumina HiSeq	Phase_I	Q658J5	Missense_Mutation	SNP	ENST00000287461.3	37	CCDS10686.1	.	.	.	.	.	.	.	.	.	.	a	10.15	1.270760	0.23221	.	.	ENSG00000156853	ENST00000287461;ENST00000443190	T	0.60040	0.22	4.94	3.8	0.43715	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (2);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.35495	N	0.003162	T	0.43567	0.1253	N	0.25332	0.735	0.32189	N	0.579329	B	0.18166	0.026	B	0.25614	0.062	T	0.54227	-0.8325	10	0.62326	D	0.03	-23.399	9.3707	0.38252	0.8409:0.0:0.0:0.159	.	177	Q96CS4	ZN689_HUMAN	H	177	ENSP00000287461:Y177H	ENSP00000287461:Y177H	Y	-	1	0	ZNF689	30524060	0.355000	0.24921	0.997000	0.53966	0.194000	0.23727	2.424000	0.44714	2.074000	0.62210	0.455000	0.32223	TAC		0.617	ZNF689-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255552.1	NM_138447		G	30616559	A	G	30616559	3	3	606	1	0	0	0	0	1	0	0	0	18106	362	13	3	977	3	ZNF689	16	30616559	Missense_Mutation	SNP	A	TCGA-HE-7130-01A-11D-1961-08		30616559	59738194	167	36663										
SRCAP	10847	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	30749163	30749163	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgtgtcagagaagaacctttCtctcaccccttctgcaccca	6	15	4	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr16:30749163C>G	ENST00000262518.4	+	34	8187	c.7802C>G	c.(7801-7803)tCt>tGt	p.S2601C	SRCAP_ENST00000344771.4_Missense_Mutation_p.S2443C|RP11-2C24.4_ENST00000483578.1_lincRNA|SRCAP_ENST00000395059.2_Missense_Mutation_p.S2539C	NM_006662.2	NP_006653.2	Q6ZRS2	SRCAP_HUMAN	Snf2-related CREBBP activator protein	2601	Pro-rich.				histone acetylation (GO:0016573)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|protein complex (GO:0043234)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|histone acetyltransferase activity (GO:0004402)|transcription coactivator activity (GO:0003713)			NS(1)|breast(3)|cervix(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(22)|liver(3)|lung(62)|ovary(6)|pancreas(1)|prostate(4)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(5)	136			Colorectal(24;0.198)			AAGAACCTTTCTCTCACCCCT	0.552																																																0													79	68	72					16																	30749163		2197	4300	6497	SO:0001583	missense	10847			AB002307	CCDS10689.2	16p11.2	2009-08-06			ENSG00000080603	ENSG00000080603			16974	protein-coding gene	gene with protein product	"Swi2/Snf2-related ATPase homolog (S. cerevisiae)", "domino homolog 1 (Drosophila)"	611421				10347196, 9205841	Standard	NM_006662		Approved	KIAA0309, EAF1, SWR1, DOMO1	uc002dze.1	Q6ZRS2	OTTHUMG00000132393	ENST00000262518.4:c.7802C>G	16.37:g.30749163C>G	ENSP00000262518:p.Ser2601Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B0JZA6|O15026|Q7Z744|Q9Y5L9	Missense_Mutation	SNP	ENST00000262518.4	37	CCDS10689.2	.	.	.	.	.	.	.	.	.	.	C	7.548	0.662079	0.14645	.	.	ENSG00000080603	ENST00000262518;ENST00000395059;ENST00000344771	D;D;D	0.91792	-2.9;-2.91;-2.91	4.88	3.85	0.44370	.	0.294453	0.24843	N	0.035160	D	0.83594	0.5288	N	0.08118	0	0.22728	N	0.9988	P;P	0.50156	0.932;0.758	P;B	0.46479	0.518;0.319	T	0.76427	-0.2963	10	0.62326	D	0.03	-9.0E-4	7.2792	0.26302	0.0:0.8786:0.0:0.1214	.	2539;2601	Q6ZRS2-2;Q6ZRS2	.;SRCAP_HUMAN	C	2601;2539;2443	ENSP00000262518:S2601C;ENSP00000378499:S2539C;ENSP00000343042:S2443C	ENSP00000262518:S2601C	S	+	2	0	SRCAP	30656664	0.483000	0.25956	0.998000	0.56505	0.666000	0.39218	0.172000	0.16704	2.543000	0.85770	0.467000	0.42956	TCT		0.552	SRCAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255523.1	NM_006662		G	30749163	C	G	30749163	3	3	606	1	0	0	0	0	1	0	0	0	15147	913	32	4	7928	4	SRCAP	16	30749163	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	132604	30749163	59605590	168	36664										
BBS2	583	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	56518732	56518732	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgtgttgatgttattgcttcGaattgcatcccgacaagcag	10	8	0	1	rs567573386		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr16:56518732G>A	ENST00000245157.5	-	17	2527	c.2107C>T	c.(2107-2109)Cga>Tga	p.R703*	BBS2_ENST00000568104.1_Nonsense_Mutation_p.R657*	NM_031885.3	NP_114091	Q9BXC9	BBS2_HUMAN	Bardet-Biedl syndrome 2	703					adult behavior (GO:0030534)|artery smooth muscle contraction (GO:0014824)|brain morphogenesis (GO:0048854)|cartilage development (GO:0051216)|cerebral cortex development (GO:0021987)|cilium morphogenesis (GO:0060271)|fat cell differentiation (GO:0045444)|Golgi to plasma membrane protein transport (GO:0043001)|hippocampus development (GO:0021766)|melanosome transport (GO:0032402)|negative regulation of appetite by leptin-mediated signaling pathway (GO:0038108)|negative regulation of gene expression (GO:0010629)|negative regulation of multicellular organism growth (GO:0040015)|nonmotile primary cilium assembly (GO:0035058)|photoreceptor cell maintenance (GO:0045494)|positive regulation of multicellular organism growth (GO:0040018)|protein localization (GO:0008104)|protein localization to organelle (GO:0033365)|regulation of cilium beat frequency involved in ciliary motility (GO:0060296)|sperm axoneme assembly (GO:0007288)|striatum development (GO:0021756)|vasodilation (GO:0042311)|visual perception (GO:0007601)	BBSome (GO:0034464)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|motile cilium (GO:0031514)|plasma membrane (GO:0005886)	RNA polymerase II repressing transcription factor binding (GO:0001103)			breast(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(7)|lung(10)|ovary(1)|skin(3)	26						TTATTGCTTCGAATTGCATCC	0.398									Bardet-Biedl syndrome				G|||	1	0.000199681	0.0	0.0	5008	,	,		18568	0.001		0.0	False		,,,				2504	0.0															0													154	123	133					16																	56518732		2198	4300	6498	SO:0001587	stop_gained	583	Familial Cancer Database	BBS, Bardet-Biedl syndrome, type 1-12: BBS1-12,Laurence-Moon-Biedl syndrome	AF342736	CCDS32451.1	16q21	2013-01-08				ENSG00000125124			967	protein-coding gene	gene with protein product		606151		BBS		11285252	Standard	NM_031885		Approved		uc002ejd.2	Q9BXC9		ENST00000245157.5:c.2107C>T	16.37:g.56518732G>A	ENSP00000245157:p.Arg703*	Somatic		WXS	Illumina HiSeq	Phase_I	Q96CM0|Q96SN9	Nonsense_Mutation	SNP	ENST00000245157.5	37	CCDS32451.1	.	.	.	.	.	.	.	.	.	.	G	43	9.864671	0.99283	.	.	ENSG00000125124	ENST00000245157	.	.	.	5.3	5.3	0.74995	.	0.126809	0.49305	D	0.000144	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.21540	T	0.41	-6.8024	14.1321	0.65260	0.0:0.0:0.8135:0.1864	.	.	.	.	X	703	.	ENSP00000245157:R703X	R	-	1	2	BBS2	55076233	1.000000	0.71417	0.992000	0.48379	0.991000	0.79684	5.120000	0.64685	2.629000	0.89072	0.591000	0.81541	CGA		0.398	BBS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000434386.2	NM_031885		A	56518732	G	A	56518732	4	1	606	1	0	0	0	0	0	1	0	0	1338	1066	37	1	62	1	BBS2	16	56518732	Nonsense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	25769569	56518732	33836021	169	36665										
CMTM2	146225	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	66614056	66614056	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gtacagctttgccattcataGatacatacccttcatcctgt	5	12	2	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr16:66614056G>C	ENST00000268595.2	+	2	564	c.413G>C	c.(412-414)aGa>aCa	p.R138T	RP11-403P17.2_ENST00000568430.1_RNA|CMTM2_ENST00000379486.2_Intron	NM_144673.2	NP_653274.1	Q8TAZ6	CKLF2_HUMAN	CKLF-like MARVEL transmembrane domain containing 2	138	MARVEL. {ECO:0000255|PROSITE- ProRule:PRU00581}.				chemotaxis (GO:0006935)	extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)				endometrium(1)|kidney(1)|large_intestine(4)|lung(6)|ovary(1)|skin(2)|stomach(1)|urinary_tract(1)	17		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.068)|Epithelial(162;0.212)		GCCATTCATAGATACATACCC	0.483																																																0													258	204	223					16																	66614056		2201	4300	6501	SO:0001583	missense	146225			BC025354	CCDS10814.1, CCDS56001.1	16q22.1-q22.3	2008-02-05	2005-11-08	2005-11-08	ENSG00000140932	ENSG00000140932			19173	protein-coding gene	gene with protein product		607885	"chemokine-like factor super family 2", "chemokine-like factor superfamily 2"	CKLFSF2			Standard	NM_001199317		Approved	MGC39436, FLJ25732	uc002ept.3	Q8TAZ6	OTTHUMG00000137501	ENST00000268595.2:c.413G>C	16.37:g.66614056G>C	ENSP00000268595:p.Arg138Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5I2A4|Q8N7E5	Missense_Mutation	SNP	ENST00000268595.2	37	CCDS10814.1	.	.	.	.	.	.	.	.	.	.	G	23.4	4.416443	0.83449	.	.	ENSG00000140932	ENST00000268595	T	0.35605	1.3	4.51	4.51	0.55191	Marvel (1);	0.000000	0.56097	D	0.000029	T	0.52661	0.1748	L	0.54323	1.7	0.35958	D	0.834422	D	0.89917	1.0	D	0.87578	0.998	T	0.57219	-0.7849	10	0.40728	T	0.16	20.5482	13.0353	0.58867	0.0:0.0:1.0:0.0	.	138	Q8TAZ6	CKLF2_HUMAN	T	138	ENSP00000268595:R138T	ENSP00000268595:R138T	R	+	2	0	CMTM2	65171557	1.000000	0.71417	0.997000	0.53966	0.404000	0.30871	2.341000	0.43983	2.786000	0.95864	0.561000	0.74099	AGA		0.483	CMTM2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000268808.1			C	66614056	G	C	66614056	3	2	606	1	0	0	0	0	1	0	0	0	3585	942	33	4	419	4	CMTM2	16	66614056	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	10095324	66614056	23740697	170	36666										
AARS	16	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	70316659	70316659	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tttcacttgctgttagagtaGagtccatcttgaaagtcacc	8	9	3	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr16:70316659G>C	ENST00000261772.8	-	2	151	c.8C>G	c.(7-9)tCt>tGt	p.S3C		NM_001605.2	NP_001596.2			alanyl-tRNA synthetase											breast(3)|cervix(2)|endometrium(5)|large_intestine(7)|lung(7)|ovary(1)|pancreas(1)|prostate(1)	27		Ovarian(137;0.0365)		BRCA - Breast invasive adenocarcinoma(221;0.161)		TGTTAGAGTAGAGTCCATCTT	0.388																																																0													119	117	118					16																	70316659		2198	4300	6498	SO:0001583	missense	16			D32050	CCDS32474.1	16q22.1	2014-09-17			ENSG00000090861	ENSG00000090861	6.1.1.7	"Aminoacyl tRNA synthetases / Class II"	20	protein-coding gene	gene with protein product	"alanine tRNA ligase 1, cytoplasmic"	601065				8595897	Standard	NM_001605		Approved		uc002eyn.1	P49588	OTTHUMG00000177042	ENST00000261772.8:c.8C>G	16.37:g.70316659G>C	ENSP00000261772:p.Ser3Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000261772.8	37	CCDS32474.1	.	.	.	.	.	.	.	.	.	.	G	16.98	3.270776	0.59540	.	.	ENSG00000090861	ENST00000261772	T	0.64991	-0.13	5.56	1.06	0.20224	.	0.309320	0.37012	N	0.002288	T	0.54334	0.1852	L	0.39898	1.24	0.30179	N	0.800544	B	0.29085	0.232	B	0.38921	0.285	T	0.57353	-0.7826	10	0.66056	D	0.02	0.0292	8.518	0.33257	0.3543:0.0:0.6457:0.0	.	3	P49588	SYAC_HUMAN	C	3	ENSP00000261772:S3C	ENSP00000261772:S3C	S	-	2	0	AARS	68874160	0.401000	0.25303	0.169000	0.22859	0.874000	0.50279	3.302000	0.51849	0.212000	0.20703	0.591000	0.81541	TCT		0.388	AARS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000435021.2	NM_001605		C	70316659	G	C	70316659	3	2	606	1	0	0	0	0	1	0	0	0	19	942	33	4	2978	4	AARS	16	70316659	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	3702603	70316659	20038094	171	36667										
HYDIN	54768	broad.mit.edu;bcgsc.ca	37	chr16	70896078	70896078	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gaagggctgtggggaaccctCggcccagtggtccatggtgc	17	11	0	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr16:70896078C>T	ENST00000393567.2	-	69	11800	c.11650G>A	c.(11650-11652)Gag>Aag	p.E3884K		NM_001270974.1	NP_001257903.1	Q4G0P3	HYDIN_HUMAN	HYDIN, axonemal central pair apparatus protein	3884					cilium assembly (GO:0042384)|cilium movement (GO:0003341)|epithelial cell development (GO:0002064)|trachea development (GO:0060438)|ventricular system development (GO:0021591)	cell projection (GO:0042995)				breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(17)|lung(12)|ovary(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)	43		Ovarian(137;0.0654)				GGGGAACCCTCGGCCCAGTGG	0.562																																																0													37	39	39					16																	70896078		1932	4139	6071	SO:0001583	missense	54768			AK074472	CCDS10897.1, CCDS56004.1, CCDS56005.1, CCDS59269.1	16q22.2	2014-02-05	2012-01-06		ENSG00000157423	ENSG00000157423		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	19368	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 31"	610812	"hydrocephalus inducing", "hydrocephalus inducing homolog (mouse)"			12719380, 23022101	Standard	NM_001198542		Approved	DKFZp434D0513, KIAA1864, PPP1R31, CILD5	uc031qwy.1	Q4G0P3	OTTHUMG00000137584	ENST00000393567.2:c.11650G>A	16.37:g.70896078C>T	ENSP00000377197:p.Glu3884Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NC70|A6NLZ0|B4DQY4|B4DRN4|F5H6V3|Q8N3H8|Q8N3P6|Q8TC08|Q96JG3|Q96SS4|Q9H5U3|Q9H9B8|Q9NTI0|Q9UBE5	Missense_Mutation	SNP	ENST00000393567.2	37	CCDS59269.1	.	.	.	.	.	.	.	.	.	.	C	13.28	2.189687	0.38707	.	.	ENSG00000157423	ENST00000393567;ENST00000316490	T	0.00912	5.55	5.97	5.97	0.96955	.	1.190440	0.06746	U	0.779107	T	0.01222	0.0040	L	0.34521	1.04	0.80722	D	1	B	0.33964	0.434	B	0.28916	0.096	T	0.63301	-0.6668	10	0.06365	T	0.9	.	17.1497	0.86774	0.0:1.0:0.0:0.0	.	3883	F8WD23	.	K	3884;3883	ENSP00000377197:E3884K	ENSP00000313052:E3883K	E	-	1	0	HYDIN	69453579	0.003000	0.15002	0.315000	0.25238	0.202000	0.24057	1.389000	0.34453	2.838000	0.97847	0.511000	0.50034	GAG		0.562	HYDIN-001	PUTATIVE	not_organism_supported|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000398624.3			T	70896078	C	T	70896078	3	4	606	1	0	0	0	0	1	0	0	0	7474	893	31	1	3787	1	HYDIN	16	70896078	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	579419	70896078	19458675	172	36668										
PRPF8	10594	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	1586885	1586885	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ggtcatgtctccatggtctcGaatgatcttcctgacatgtt	9	10	4	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr17:1586885G>C	ENST00000572621.1	-	2	476	c.211C>G	c.(211-213)Cga>Gga	p.R71G	PRPF8_ENST00000304992.6_Missense_Mutation_p.R71G			Q6P2Q9	PRP8_HUMAN	pre-mRNA processing factor 8	71					gene expression (GO:0010467)|mRNA processing (GO:0006397)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)	catalytic step 2 spliceosome (GO:0071013)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|U5 snRNP (GO:0005682)	poly(A) RNA binding (GO:0044822)|U5 snRNA binding (GO:0030623)|U6 snRNA binding (GO:0017070)			NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(13)|lung(24)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(5)|urinary_tract(3)	77				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		CCATGGTCTCGAATGATCTTC	0.478																																																0													210	180	190					17																	1586885		2203	4300	6503	SO:0001583	missense	10594			AB007510	CCDS11010.1	17p13.3	2013-07-16	2013-06-10		ENSG00000174231	ENSG00000174231			17340	protein-coding gene	gene with protein product		607300	"PRP8 pre-mRNA processing factor 8 homolog (yeast)", "PRP8 pre-mRNA processing factor 8 homolog (S. cerevisiae)"	RP13		11468273, 10411133	Standard	NM_006445		Approved	PRPC8, Prp8, hPrp8, SNRNP220	uc002fte.3	Q6P2Q9	OTTHUMG00000090553	ENST00000572621.1:c.211C>G	17.37:g.1586885G>C	ENSP00000460348:p.Arg71Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O14547|O75965	Missense_Mutation	SNP	ENST00000572621.1	37	CCDS11010.1	.	.	.	.	.	.	.	.	.	.	G	19.91	3.914983	0.72983	.	.	ENSG00000174231	ENST00000304992	T	0.44881	0.91	5.41	4.42	0.53409	Pre-mRNA-processing-splicing factor 8 (2);	0.000000	0.85682	D	0.000000	T	0.48295	0.1492	L	0.61218	1.895	0.80722	D	1	P	0.44241	0.829	P	0.45310	0.476	T	0.54510	-0.8283	10	0.72032	D	0.01	.	15.2921	0.73872	0.0:0.0:0.8586:0.1413	.	71	Q6P2Q9	PRP8_HUMAN	G	71	ENSP00000304350:R71G	ENSP00000304350:R71G	R	-	1	2	PRPF8	1533635	1.000000	0.71417	0.998000	0.56505	0.954000	0.61252	4.592000	0.61027	1.237000	0.43756	0.467000	0.42956	CGA		0.478	PRPF8-002	NOVEL	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438412.2			C	1586885	G	C	1586885	3	2	606	1	0	0	0	0	1	0	0	0	12585	1066	37	4	6960	4	PRPF8	17	1586885	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08		1586885	79608325	173	36669										
ZZEF1	23140	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	3926086	3926086	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	caacttcagcaaatcggtctGaaggaaagtagcacggatct	10	9	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr17:3926086G>C	ENST00000381638.2	-	44	7253	c.7129C>G	c.(7129-7131)Cag>Gag	p.Q2377E		NM_015113.3	NP_055928.3	O43149	ZZEF1_HUMAN	zinc finger, ZZ-type with EF-hand domain 1	2377							calcium ion binding (GO:0005509)|zinc ion binding (GO:0008270)			central_nervous_system(1)|cervix(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(17)|lung(19)|ovary(3)|pancreas(1)|prostate(3)|skin(8)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(3)	84						AAATCGGTCTGAAGGAAAGTA	0.498																																																0													95	85	88					17																	3926086		2203	4300	6503	SO:0001583	missense	23140			BC035319	CCDS11043.1	17p13.3	2013-01-10	2004-11-03		ENSG00000074755	ENSG00000074755		"Zinc fingers, ZZ-type", "EF-hand domain containing"	29027	protein-coding gene	gene with protein product			"zinc finger, ZZ-type with EF hand domain 1"			9455477	Standard	XM_005256560		Approved	KIAA0399, ZZZ4, FLJ10821	uc002fxe.3	O43149	OTTHUMG00000090741	ENST00000381638.2:c.7129C>G	17.37:g.3926086G>C	ENSP00000371051:p.Gln2377Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A7MBM5|Q6NXG0|Q6ZRA1|Q6ZSF4|Q9NVB9	Missense_Mutation	SNP	ENST00000381638.2	37	CCDS11043.1	.	.	.	.	.	.	.	.	.	.	G	7.212	0.595598	0.13875	.	.	ENSG00000074755	ENST00000381638	T	0.19938	2.11	5.96	4.94	0.65067	.	0.473334	0.24301	N	0.039721	T	0.09598	0.0236	N	0.08118	0	0.27680	N	0.946471	B	0.02656	0.0	B	0.01281	0.0	T	0.15896	-1.0421	10	0.02654	T	1	-4.1226	13.6249	0.62159	0.0:0.1251:0.7598:0.1151	.	2377	O43149	ZZEF1_HUMAN	E	2377	ENSP00000371051:Q2377E	ENSP00000371051:Q2377E	Q	-	1	0	ZZEF1	3872835	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	3.220000	0.51207	2.832000	0.97577	0.655000	0.94253	CAG		0.498	ZZEF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207480.1	NM_015113		C	3926086	G	C	3926086	3	2	606	1	0	0	0	0	1	0	0	0	18267	1299	45	4	1804	4	ZZEF1	17	3926086	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	2339201	3926086	77269124	174	36670										
TRPV2	51393	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	16330054	16330054	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	agcaccgacaccgaatggtcGttttggagcccctgaacaaa	10	12	0	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr17:16330054G>A	ENST00000338560.7	+	7	1513	c.1114G>A	c.(1114-1116)Gtt>Att	p.V372I	TRPV2_ENST00000577397.1_Intron|AC093484.4_ENST00000441875.1_RNA	NM_016113.4	NP_057197.2	Q9Y5S1	TRPV2_HUMAN	transient receptor potential cation channel, subfamily V, member 2	372	Required for interaction with SLC50A1. {ECO:0000250}.				calcium ion transmembrane transport (GO:0070588)|ion transmembrane transport (GO:0034220)|positive regulation of axon extension (GO:0045773)|positive regulation of calcium ion import (GO:0090280)|response to heat (GO:0009408)|response to temperature stimulus (GO:0009266)|sensory perception (GO:0007600)|transmembrane transport (GO:0055085)|transport (GO:0006810)	axonal growth cone (GO:0044295)|cell body (GO:0044297)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|endomembrane system (GO:0012505)|growth cone membrane (GO:0032584)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium channel activity (GO:0005262)|cation channel activity (GO:0005261)|ion channel activity (GO:0005216)|ion transmembrane transporter activity (GO:0015075)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(7)|lung(9)|ovary(1)|pancreas(1)|prostate(2)|stomach(3)	28				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		CCGAATGGTCGTTTTGGAGCC	0.507																																																0													89	74	79					17																	16330054		2203	4300	6503	SO:0001583	missense	51393			AF129112	CCDS32576.1	17p11.2	2013-01-10			ENSG00000187688	ENSG00000187688		"Voltage-gated ion channels / Transient receptor potential cation channels", "Ankyrin repeat domain containing"	18082	protein-coding gene	gene with protein product		606676				10201375, 16382100	Standard	NM_016113		Approved	VRL, VRL-1, VRL1	uc002gpy.3	Q9Y5S1	OTTHUMG00000058989	ENST00000338560.7:c.1114G>A	17.37:g.16330054G>A	ENSP00000342222:p.Val372Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NML2|A8K0Z0|Q9Y670	Missense_Mutation	SNP	ENST00000338560.7	37	CCDS32576.1	.	.	.	.	.	.	.	.	.	.	G	16.38	3.105678	0.56291	.	.	ENSG00000187688	ENST00000338560	D	0.89617	-2.54	5.29	2.95	0.34219	.	0.314085	0.34133	N	0.004239	D	0.83418	0.5250	M	0.72479	2.2	0.28997	N	0.887687	P	0.48694	0.914	B	0.29785	0.107	T	0.79077	-0.1951	10	0.37606	T	0.19	-30.5063	12.2162	0.54408	0.1653:0.0:0.8347:0.0	.	372	Q9Y5S1	TRPV2_HUMAN	I	372	ENSP00000342222:V372I	ENSP00000342222:V372I	V	+	1	0	TRPV2	16270779	0.014000	0.17966	1.000000	0.80357	0.953000	0.61014	0.888000	0.28268	1.248000	0.43934	-0.232000	0.12228	GTT		0.507	TRPV2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130464.2	NM_016113		A	16330054	G	A	16330054	3	1	606	1	0	0	0	0	1	0	0	0	16608	1145	40	1	1136	1	TRPV2	17	16330054	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	12403968	16330054	64865156	175	36671										
MPRIP	23164	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	17046031	17046031	+	Frame_Shift_Del	DEL	C	C	-													0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gtggggccctcaccatccagCgacacacgccagggccgcag					rs146439071		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr17:17046031delC	ENST00000341712.4	+	8	987	c.987delC	c.(985-987)agcfs	p.S329fs	MPRIP_ENST00000395804.3_Frame_Shift_Del_p.S329fs|MPRIP_ENST00000395811.5_Frame_Shift_Del_p.S329fs|MPRIP_ENST00000444976.1_Frame_Shift_Del_p.S329fs			Q6WCQ1	MPRIP_HUMAN	myosin phosphatase Rho interacting protein	329	Interaction with F-actin. {ECO:0000250}.					actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)				biliary_tract(1)|breast(1)|endometrium(4)|kidney(2)|large_intestine(6)|lung(9)|ovary(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	31						CACCATCCAGCGACACACGCC	0.632																																																0													85	77	80					17																	17046031		2203	4300	6503	SO:0001589	frameshift_variant	23164			BC014102	CCDS32578.1, CCDS42268.1	17p11.2	2013-01-10			ENSG00000133030	ENSG00000133030		"Pleckstrin homology (PH) domain containing"	30321	protein-coding gene	gene with protein product	"Rho interacting protein 3"	612935				10048485	Standard	NM_201274		Approved	RHOIP3, M-RIP, p116Rip	uc002gqy.2	Q6WCQ1	OTTHUMG00000059276	ENST00000341712.4:c.987delC	17.37:g.17046031delC	ENSP00000342379:p.Ser329fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q3KQZ5|Q5FB94|Q6DHW2|Q7Z5Y2|Q8N390|Q96G40	Frame_Shift_Del	DEL	ENST00000341712.4	37	CCDS32578.1																																																																																				0.632	MPRIP-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000131587.1	NM_015134		-	17046031	C	-	17046031	7	5	606	1	0	1	0	1	0	0	0	0	9750	767	27	0	1017	0	MPRIP	17	17046031	Frame_Shift_Del	DEL	C	TCGA-HE-7130-01A-11D-1961-08	715977	17046031	64149179	176	36672										
ZNF286B	729288	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	18565401	18565401	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	atgaatgaatgaaggcttttCcacactcactacatttgtac	6	9	1	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr17:18565401C>T	ENST00000545289.1	-	5	1668	c.1418G>A	c.(1417-1419)gGa>gAa	p.G473E	ZNF286B_ENST00000285274.5_3'UTR	NM_001145045.1	NP_001138517.1	P0CG31	Z286B_HUMAN	zinc finger protein 286B	473					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(1)|lung(1)	2						GAAGGCTTTTCCACACTCACT	0.393																																																0													171	159	162					17																	18565401		692	1591	2283	SO:0001583	missense	729288				CCDS58523.1	17p11.2	2013-01-08			ENSG00000249459	ENSG00000249459		"Zinc fingers, C2H2-type"	33241	protein-coding gene	gene with protein product	"zinc finger protein 590"		"zinc finger protein 286-like", "zinc finger 286C pseudogene"	ZNF286L, ZNF286C			Standard	NM_001145045		Approved	ZNF590	uc010vyd.1	P0CG31	OTTHUMG00000178136	ENST00000545289.1:c.1418G>A	17.37:g.18565401C>T	ENSP00000461413:p.Gly473Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000545289.1	37	CCDS58523.1																																																																																				0.393	ZNF286B-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		XM_001723047		T	18565401	C	T	18565401	3	4	606	1	0	0	0	0	1	0	0	0	17836	855	30	2	154	2	ZNF286B	17	18565401	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	1519370	18565401	62629809	177	36673			2	72		2	2	13	C		8.837772e-05
ZNF286B	729288	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	18565413	18565413	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aggcttttccacactcactaCatttgtacggtttctttcca	5	12	2	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr17:18565413C>T	ENST00000545289.1	-	5	1656	c.1406G>A	c.(1405-1407)tGt>tAt	p.C469Y	ZNF286B_ENST00000285274.5_3'UTR	NM_001145045.1	NP_001138517.1	P0CG31	Z286B_HUMAN	zinc finger protein 286B	469					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(1)|lung(1)	2						ACACTCACTACATTTGTACGG	0.393																																																0													154	144	147					17																	18565413		692	1591	2283	SO:0001583	missense	729288				CCDS58523.1	17p11.2	2013-01-08			ENSG00000249459	ENSG00000249459		"Zinc fingers, C2H2-type"	33241	protein-coding gene	gene with protein product	"zinc finger protein 590"		"zinc finger protein 286-like", "zinc finger 286C pseudogene"	ZNF286L, ZNF286C			Standard	NM_001145045		Approved	ZNF590	uc010vyd.1	P0CG31	OTTHUMG00000178136	ENST00000545289.1:c.1406G>A	17.37:g.18565413C>T	ENSP00000461413:p.Cys469Tyr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000545289.1	37	CCDS58523.1																																																																																				0.393	ZNF286B-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		XM_001723047		T	18565413	C	T	18565413	3	4	606	1	0	0	0	0	1	0	0	0	17836	478	17	2	166	2	ZNF286B	17	18565413	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	12	18565413	62629797	178	36674			2	72		2	2	13	C		8.837772e-05
IKZF3	22806	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	37949078	37949078	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tttcatattcattatattctCttgaatagctgtaagggatt	6	5	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr17:37949078C>T	ENST00000346872.3	-	4	333	c.272G>A	c.(271-273)aGa>aAa	p.R91K	IKZF3_ENST00000377958.2_Intron|IKZF3_ENST00000346243.3_Missense_Mutation_p.R91K|IKZF3_ENST00000394189.2_Intron|IKZF3_ENST00000350532.3_Missense_Mutation_p.R91K|IKZF3_ENST00000535189.1_Missense_Mutation_p.R57K|IKZF3_ENST00000377944.3_Intron|IKZF3_ENST00000377952.2_Intron|IKZF3_ENST00000351680.3_Missense_Mutation_p.R91K|IKZF3_ENST00000467757.1_Missense_Mutation_p.R91K|IKZF3_ENST00000377945.3_Missense_Mutation_p.R91K|IKZF3_ENST00000439016.2_Missense_Mutation_p.R91K|IKZF3_ENST00000439167.2_Missense_Mutation_p.R57K	NM_012481.4	NP_036613.2	Q9UKT9	IKZF3_HUMAN	IKAROS family zinc finger 3 (Aiolos)	91					B cell activation (GO:0042113)|mesoderm development (GO:0007498)|regulation of apoptotic process (GO:0042981)|regulation of B cell differentiation (GO:0045577)|regulation of B cell proliferation (GO:0030888)|regulation of lymphocyte differentiation (GO:0045619)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.E92fs*29(1)		NS(1)|breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(5)|kidney(6)|large_intestine(4)|liver(1)|lung(13)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	42	Breast(7;4.5e-103)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			ATTATATTCTCTTGAATAGCT	0.383																																																1	Insertion - Frameshift(1)	haematopoietic_and_lymphoid_tissue(1)											127	118	121					17																	37949078		2203	4300	6503	SO:0001583	missense	22806			AF129512	CCDS11346.1, CCDS11347.1, CCDS11348.1, CCDS11349.1, CCDS11350.1, CCDS11351.1, CCDS58539.1, CCDS58540.1, CCDS58541.1, CCDS58542.1, CCDS58543.1, CCDS58544.1, CCDS58545.1, CCDS74055.1	17q11.2	2013-01-08	2006-08-25	2006-08-25	ENSG00000161405	ENSG00000161405		"Zinc fingers, C2H2-type", "IKAROS zinc fingers"	13178	protein-coding gene	gene with protein product		606221	"zinc finger protein, subfamily 1A, 3 (Aiolos)"	ZNFN1A3		9155026, 10552935	Standard	NM_012481		Approved	Aiolos	uc002hsu.4	Q9UKT9	OTTHUMG00000133250	ENST00000346872.3:c.272G>A	17.37:g.37949078C>T	ENSP00000344544:p.Arg91Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DVV5|Q69BL6|Q69BL7|Q69BL8|Q69BL9|Q69BM0|Q69BM1|Q69BM2|Q69BM3|Q69BM5|Q8N574|Q8WWQ9|Q8WWR0|Q8WWR1|Q8WWR2|Q8WWR3	Missense_Mutation	SNP	ENST00000346872.3	37	CCDS11346.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	18.24|18.24	3.579420|3.579420	0.65878|0.65878	.|.	.|.	ENSG00000161405|ENSG00000161405	ENST00000439167;ENST00000439016|ENST00000488188;ENST00000346872;ENST00000377945;ENST00000535189;ENST00000351680;ENST00000346243;ENST00000350532;ENST00000467757	.|T;T;T;T;T;T;T	.|0.05855	.|3.45;3.52;3.43;3.48;3.52;3.38;4.4	5.96|5.96	5.96|5.96	0.96718|0.96718	.|.	.|0.000000	.|0.64402	.|D	.|0.000004	T|T	0.10594|0.10594	0.0259|0.0259	L|L	0.29908|0.29908	0.895|0.895	0.09310|0.09310	N|N	0.999992|0.999992	.|P;B;P;D;P;P;P;P;P	.|0.59357	.|0.794;0.317;0.864;0.985;0.57;0.93;0.864;0.798;0.786	.|B;B;P;D;B;P;P;B;B	.|0.70716	.|0.31;0.228;0.523;0.97;0.341;0.798;0.523;0.384;0.323	T|T	0.22661|0.22661	-1.0210|-1.0210	5|10	.|0.02654	.|T	.|1	-18.7806|-18.7806	10.1431|10.1431	0.42747|0.42747	0.0:0.7917:0.1376:0.0707|0.0:0.7917:0.1376:0.0707	.|.	.|91;57;91;91;91;91;91;57;91	.|Q9UKT9-13;Q9UKT9-7;Q9UKT9-6;Q9UKT9-5;Q9UKT9-4;Q9UKT9-2;Q9UKT9-3;Q9UKT9-8;Q9UKT9	.|.;.;.;.;.;.;.;.;IKZF3_HUMAN	K|K	45|91;91;91;57;91;91;91;91	.|ENSP00000344544:R91K;ENSP00000367180:R91K;ENSP00000438972:R57K;ENSP00000345622:R91K;ENSP00000341977:R91K;ENSP00000344471:R91K;ENSP00000420463:R91K	.|ENSP00000341977:R91K	E|R	-|-	1|2	0|0	IKZF3|IKZF3	35202604|35202604	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.995000|0.995000	0.86356|0.86356	1.918000|1.918000	0.40006|0.40006	2.832000|2.832000	0.97577|0.97577	0.655000|0.655000	0.94253|0.94253	GAG|AGA		0.383	IKZF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257004.2	NM_012481		T	37949078	C	T	37949078	3	4	606	1	0	0	0	0	1	0	0	0	7623	913	32	2	1277	2	IKZF3	17	37949078	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	19383665	37949078	43246132	179	36675										
HAP1	9001	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	39887800	39887800	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tcctcatcctcaagagtgtcGagttgagaggcctggaggga	14	9	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr17:39887800G>A	ENST00000310778.5	-	6	1023	c.1014C>T	c.(1012-1014)ctC>ctT	p.L338L	RN7SL399P_ENST00000471648.2_RNA|JUP_ENST00000540235.1_Intron|HAP1_ENST00000347901.4_Silent_p.L338L|HAP1_ENST00000341193.5_Silent_p.L346L|HAP1_ENST00000393939.2_Silent_p.L338L			P54257	HAP1_HUMAN	huntingtin-associated protein 1	338	Glu-rich.|HAP1 N-terminal.				anterograde axon cargo transport (GO:0008089)|autophagy (GO:0006914)|brain development (GO:0007420)|cell projection organization (GO:0030030)|exocytosis (GO:0006887)|negative regulation of beta-amyloid formation (GO:1902430)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of epidermal growth factor receptor signaling pathway (GO:0045742)|positive regulation of inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0031587)|positive regulation of neurotrophin production (GO:0032901)|positive regulation of nonmotile primary cilium assembly (GO:1902857)|positive regulation of synaptic transmission, GABAergic (GO:0032230)|protein localization (GO:0008104)|protein transport (GO:0015031)|regulation of exocytosis (GO:0017157)|regulation of organelle transport along microtubule (GO:1902513)|retrograde axon cargo transport (GO:0008090)|synaptic transmission (GO:0007268)|vesicle transport along microtubule (GO:0047496)	actin cytoskeleton (GO:0015629)|cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytoskeleton (GO:0005856)|endoplasmic reticulum (GO:0005783)|inclusion body (GO:0016234)|lysosome (GO:0005764)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|synapse (GO:0045202)	brain-derived neurotrophic factor binding (GO:0048403)|ion channel binding (GO:0044325)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(4)|lung(5)|ovary(4)|skin(1)	21		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.0677)			CAAGAGTGTCGAGTTGAGAGG	0.557																																																0													142	116	125					17																	39887800		2203	4300	6503	SO:0001819	synonymous_variant	9001			AF040723	CCDS11406.1, CCDS42338.1, CCDS42339.1	17q21.2-q21.3	2008-04-23	2008-04-23		ENSG00000173805	ENSG00000173805			4812	protein-coding gene	gene with protein product	"neuroan 1"	600947		HAP2		7477378, 9668110	Standard	NM_177977		Approved	HLP, hHLP1, HIP5	uc002hxn.1	P54257	OTTHUMG00000133498	ENST00000310778.5:c.1014C>T	17.37:g.39887800G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MQB5|O75358|Q59GK4|Q9H4G3|Q9HA98|Q9NY90	Silent	SNP	ENST00000310778.5	37																																																																																					0.557	HAP1-006	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000389619.1	NM_003949		A	39887800	G	A	39887800	2	1	606	1	0	0	0	0	0	0	0	1	6960	1045	37	1		1	HAP1	17	39887800	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	1938722	39887800	41307410	180	36676										
UBTF	7343	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	42293042	42293042	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cttcttcttctccggaagctCcttgtatttcttggacagaa	7	11	4	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr17:42293042C>T	ENST00000302904.4	-	5	946	c.454G>A	c.(454-456)Gag>Aag	p.E152K	UBTF_ENST00000436088.1_Missense_Mutation_p.E152K|UBTF_ENST00000529383.1_Missense_Mutation_p.E152K|UBTF_ENST00000393606.3_Missense_Mutation_p.E152K|UBTF_ENST00000537550.1_5'UTR|UBTF_ENST00000343638.5_Missense_Mutation_p.E152K|UBTF_ENST00000526094.1_Missense_Mutation_p.E152K|UBTF_ENST00000533177.1_Missense_Mutation_p.E152K|CTB-175E5.7_ENST00000586560.1_RNA|UBTF_ENST00000527034.1_Missense_Mutation_p.E152K			P17480	UBF1_HUMAN	upstream binding transcription factor, RNA polymerase I	152					chromatin silencing at rDNA (GO:0000183)|gene expression (GO:0010467)|positive regulation of transcription from RNA polymerase I promoter (GO:0045943)|regulation of transcription from RNA polymerase I promoter (GO:0006356)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription from RNA polymerase I promoter (GO:0006360)|transcription initiation from RNA polymerase I promoter (GO:0006361)	nucleolus (GO:0005730)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(2)|endometrium(1)|large_intestine(9)|lung(10)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	29		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.114)		TCCGGAAGCTCCTTGTATTTC	0.547																																																0													112	116	115					17																	42293042		2203	4300	6503	SO:0001583	missense	7343			BC042297	CCDS11480.1, CCDS42346.1	17q21.31	2014-03-25			ENSG00000108312	ENSG00000108312			12511	protein-coding gene	gene with protein product		600673				9126496	Standard	NM_001076683		Approved	UBF, NOR-90, UBF1, UBF2	uc010czs.3	P17480	OTTHUMG00000167585	ENST00000302904.4:c.454G>A	17.37:g.42293042C>T	ENSP00000302640:p.Glu152Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6R8	Missense_Mutation	SNP	ENST00000302904.4	37	CCDS11480.1	.	.	.	.	.	.	.	.	.	.	c	26.9	4.784023	0.90282	.	.	ENSG00000108312	ENST00000343638;ENST00000302904;ENST00000527034;ENST00000533177;ENST00000436088;ENST00000393606;ENST00000526094;ENST00000529383;ENST00000530828	D;D;D;D;D;D;D;D;D	0.98060	-4.69;-4.69;-4.69;-4.69;-4.69;-4.69;-4.69;-4.69;-4.69	4.27	4.27	0.50696	High mobility group, superfamily (1);High mobility group, HMG1/HMG2 (4);	0.000000	0.85682	D	0.000000	D	0.97539	0.9194	L	0.35854	1.095	0.80722	D	1	D;P;D	0.76494	0.999;0.553;0.999	D;B;D	0.91635	0.998;0.331;0.999	D	0.96841	0.9618	10	0.26408	T	0.33	-30.3629	16.6665	0.85254	0.0:1.0:0.0:0.0	.	152;152;152	E9PKP7;P17480-2;P17480	.;.;UBF1_HUMAN	K	152;152;152;152;152;152;152;152;124	ENSP00000345297:E152K;ENSP00000302640:E152K;ENSP00000431539:E152K;ENSP00000437180:E152K;ENSP00000390669:E152K;ENSP00000377231:E152K;ENSP00000432925:E152K;ENSP00000435708:E152K;ENSP00000433046:E124K	ENSP00000302640:E152K	E	-	1	0	UBTF	39648568	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.713000	0.84693	2.082000	0.62665	0.467000	0.42956	GAG		0.547	UBTF-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395205.1	NM_014233		T	42293042	C	T	42293042	3	4	606	1	0	0	0	0	1	0	0	0	16921	864	30	2	1908	2	UBTF	17	42293042	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	2405242	42293042	38902168	181	36677										
KIAA1267	284058	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	44248974	44248974	+	Frame_Shift_Del	DEL	C	C	-													0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	atgaagtgagagcccgttttCccccattgagggaagtggaa							TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr17:44248974delC	ENST00000262419.6	-	2	1006	c.536delG	c.(535-537)ggafs	p.G179fs	KANSL1_ENST00000572904.1_Frame_Shift_Del_p.G179fs|KANSL1_ENST00000576248.1_5'Flank|KANSL1_ENST00000575318.1_Frame_Shift_Del_p.G179fs|KANSL1_ENST00000432791.1_Frame_Shift_Del_p.G179fs|KANSL1_ENST00000393476.3_5'UTR|KANSL1_ENST00000574590.1_Frame_Shift_Del_p.G179fs	NM_001193466.1	NP_001180395	Q7Z3B3	KANL1_HUMAN	KAT8 regulatory NSL complex subunit 1	179					chromatin organization (GO:0006325)|histone H4-K16 acetylation (GO:0043984)|histone H4-K5 acetylation (GO:0043981)|histone H4-K8 acetylation (GO:0043982)	histone acetyltransferase complex (GO:0000123)|MLL1 complex (GO:0071339)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)											AGCCCGTTTTCCCCCATTGAG	0.473																																																0													104	138	127					17																	44248974		2203	4300	6503	SO:0001589	frameshift_variant	284058			BX538006	CCDS11503.1, CCDS11503.2, CCDS74084.1	17q21.31	2012-02-20	2012-02-20	2012-02-20	ENSG00000120071	ENSG00000120071			24565	protein-coding gene	gene with protein product	"centromere protein 36"	612452	"KIAA1267"	KIAA1267		10574462	Standard	NM_015443		Approved	DKFZP727C091, MSL1v1, CENP-36, NSL1	uc002ikd.3	Q7Z3B3		ENST00000262419.6:c.536delG	17.37:g.44248974delC	ENSP00000262419:p.Gly179fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5E4|Q6AW85|Q8IYH1|Q9BRH0|Q9NTE7|Q9UFT0|Q9ULF3	Frame_Shift_Del	DEL	ENST00000262419.6	37	CCDS11503.1																																																																																				0.473	KANSL1-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440274.1	NM_015443		-	44248974	C	-	44248974	7	5	606	1	0	1	0	1	0	0	0	0	8226	855	30	0	2837	0	KIAA1267	17	44248974	Frame_Shift_Del	DEL	C	TCGA-HE-7130-01A-11D-1961-08	1955932	44248974	36946236	182	36678										
C17orf57	124989	ucsc.edu	37	chr17	45452155	45452155	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aaaaacattcagagaagggtGaaattcatgactcaaagtct	8	6	4	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr17:45452155G>A	ENST00000331493.2	+	12	1606	c.1195G>A	c.(1195-1197)Gaa>Aaa	p.E399K	EFCAB13_ENST00000517484.1_Missense_Mutation_p.E303K	NM_152347.4	NP_689560.3	Q8IY85	EFC13_HUMAN	EF-hand calcium binding domain 13	399						cytoplasm (GO:0005737)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)										AGAGAAGGGTGAAATTCATGA	0.363																																																0													60	63	62					17																	45452155		2203	4300	6503	SO:0001583	missense	124989			BC036407	CCDS11512.1, CCDS56034.1	17q21.32	2013-01-11	2012-07-20	2012-07-20	ENSG00000178852	ENSG00000178852		"EF-hand domain containing"	26864	protein-coding gene	gene with protein product			"chromosome 17 open reading frame 57"	C17orf57			Standard	NM_152347		Approved	FLJ40342	uc002iln.3	Q8IY85	OTTHUMG00000164767	ENST00000331493.2:c.1195G>A	17.37:g.45452155G>A	ENSP00000332111:p.Glu399Lys	Somatic		WXS	Illumina HiSeq		G3V128|Q49AG9	Missense_Mutation	SNP	ENST00000331493.2	37	CCDS11512.1	.	.	.	.	.	.	.	.	.	.	G	19.14	3.769226	0.69992	.	.	ENSG00000178852	ENST00000331493;ENST00000517484;ENST00000344176	T;T	0.68025	0.06;-0.3	3.69	3.69	0.42338	.	0.488035	0.20086	N	0.099559	T	0.70107	0.3186	L	0.42245	1.32	0.09310	N	1	D;D;D	0.64830	0.994;0.994;0.994	P;P;P	0.60173	0.82;0.87;0.87	T	0.59783	-0.7389	9	.	.	.	5.8359	11.0933	0.48130	0.0:0.0:1.0:0.0	.	351;399;303	Q8N7U2;Q8IY85;G3V128	.;CQ057_HUMAN;.	K	399;303;351	ENSP00000332111:E399K;ENSP00000430048:E303K	.	E	+	1	0	C17orf57	42807154	0.622000	0.27085	0.114000	0.21550	0.916000	0.54674	2.027000	0.41078	2.045000	0.60652	0.585000	0.79938	GAA		0.363	EFCAB13-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000380147.4	NM_152347		A	45452155	G	A	45452155	3	1	606	1	0	0	0	0	1	0	0	0	1867	1291	45	2	1229	2	C17orf57	17	45452155	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	1203181	45452155	35743055	183	36679										
SKAP1	8631	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	46239837	46239837	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctttctgtccttaccttgctCagaatacggatgaggtcacc	8	12	3	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr17:46239837C>G	ENST00000336915.6	-	11	1041	c.972G>C	c.(970-972)ctG>ctC	p.L324L	SKAP1_ENST00000584924.1_Silent_p.L324L	NM_001075099.1|NM_003726.3	NP_001068567.1|NP_003717.3	Q86WV1	SKAP1_HUMAN	src kinase associated phosphoprotein 1	324	SH3. {ECO:0000255|PROSITE- ProRule:PRU00192}.				positive regulation of signal transduction (GO:0009967)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|T cell receptor signaling pathway (GO:0050852)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	protein kinase binding (GO:0019901)|protein phosphatase binding (GO:0019903)|SH2 domain binding (GO:0042169)|SH3 domain binding (GO:0017124)|SH3/SH2 adaptor activity (GO:0005070)	p.L324L(1)		large_intestine(1)|lung(10)|prostate(2)|skin(4)|urinary_tract(1)	18						TTACCTTGCTCAGAATACGGA	0.433																																																1	Substitution - coding silent(1)	urinary_tract(1)											93	79	84					17																	46239837		2203	4300	6503	SO:0001819	synonymous_variant	8631			Y11215	CCDS32674.1	17q21.32	2013-01-10	2006-09-28	2006-09-28		ENSG00000141293		"Pleckstrin homology (PH) domain containing"	15605	protein-coding gene	gene with protein product		604969	"src family associated phosphoprotein 1"	SCAP1		9195899	Standard	NM_003726		Approved	SKAP55	uc002ini.1	Q86WV1		ENST00000336915.6:c.972G>C	17.37:g.46239837C>G		Somatic		WXS	Illumina HiSeq	Phase_I	D3DTV1|O15268	Silent	SNP	ENST00000336915.6	37	CCDS32674.1																																																																																				0.433	SKAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443432.1	NM_003726		G	46239837	C	G	46239837	2	3	606	1	0	0	0	0	0	0	0	1	14368	813	29	4		4	SKAP1	17	46239837	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	787682	46239837	34955373	184	36680										
KIF19	124602	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	72338804	72338804	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gccaccaccaagagcctcatCgagggcgtcatctcaggcta	10	15	3	1	rs368432623		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr17:72338804C>G	ENST00000389916.4	+	4	405	c.267C>G	c.(265-267)atC>atG	p.I89M		NM_153209.3	NP_694941.2	Q2TAC6	KIF19_HUMAN	kinesin family member 19	89	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				ATP catabolic process (GO:0006200)|axonemal microtubule depolymerization (GO:0060404)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|plus-end specific microtubule depolymerization (GO:0070462)	cilium (GO:0005929)|cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|plus-end-directed microtubule motor activity (GO:0008574)			autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(6)|large_intestine(3)|lung(16)|ovary(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	41						AGAGCCTCATCGAGGGCGTCA	0.622																																																0													140	112	121					17																	72338804		2203	4300	6503	SO:0001583	missense	124602			AK094619	CCDS32718.2	17q25	2007-02-13			ENSG00000196169	ENSG00000196169		"Kinesins"	26735	protein-coding gene	gene with protein product						11416179	Standard	NM_153209		Approved	FLJ37300, KIF19A	uc031rei.1	Q2TAC6	OTTHUMG00000150694	ENST00000389916.4:c.267C>G	17.37:g.72338804C>G	ENSP00000374566:p.Ile89Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLG2|B7ZKR1|Q52M87|Q8N1X8|Q8TAB6	Missense_Mutation	SNP	ENST00000389916.4	37	CCDS32718.2	.	.	.	.	.	.	.	.	.	.	C	18.38	3.611793	0.66558	.	.	ENSG00000196169	ENST00000551294;ENST00000389916	T;T	0.75821	-0.97;-0.97	5.5	-11.0	0.00169	Kinesin, motor domain (4);	.	.	.	.	T	0.77916	0.4202	M	0.79805	2.47	0.28548	N	0.91179	D;D;P;D	0.64830	0.99;0.981;0.93;0.994	D;D;P;D	0.67382	0.932;0.916;0.803;0.951	T	0.72581	-0.4250	9	0.87932	D	0	.	2.1205	0.03724	0.1636:0.208:0.163:0.4655	.	89;89;89;89	Q2TAC6;F8VW50;Q2TAC6-3;Q2TAC6-2	KIF19_HUMAN;.;.;.	M	89	ENSP00000449134:I89M;ENSP00000374566:I89M	ENSP00000374566:I89M	I	+	3	3	KIF19	69850399	0.000000	0.05858	0.008000	0.14137	0.981000	0.71138	-2.329000	0.01111	-1.540000	0.01730	0.456000	0.33151	ATC		0.622	KIF19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319644.2	NM_153209		G	72338804	C	G	72338804	3	3	606	1	0	0	0	0	1	0	0	0	8289	874	31	4	281	4	KIF19	17	72338804	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	26098967	72338804	8856406	185	36681										
EIF4A3	9775	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	78120725	78120725	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ttgagcagccgctttcgcgcCgagcccgaggtcgccatcgt	13	15	0	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr17:78120725C>G	ENST00000269349.3	-	1	257	c.36G>C	c.(34-36)tcG>tcC	p.S12S		NM_014740.3	NP_055555.1	P38919	IF4A3_HUMAN	eukaryotic translation initiation factor 4A3	12					ATP catabolic process (GO:0006200)|cytokine-mediated signaling pathway (GO:0019221)|embryonic cranial skeleton morphogenesis (GO:0048701)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|mRNA splicing, via spliceosome (GO:0000398)|mRNA transport (GO:0051028)|negative regulation of translation (GO:0017148)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of translation (GO:0045727)|RNA metabolic process (GO:0016070)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|exon-exon junction complex (GO:0035145)|membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent RNA helicase activity (GO:0004004)|mRNA binding (GO:0003729)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	10	all_neural(118;0.117)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.139)			GCTTTCGCGCCGAGCCCGAGG	0.652																																																0													33	28	30					17																	78120725		2203	4292	6495	SO:0001819	synonymous_variant	9775			BC004386	CCDS11767.1	17q25.3	2010-02-10	2010-02-10	2006-11-27		ENSG00000141543		"DEAD-boxes"	18683	protein-coding gene	gene with protein product		608546	"DEAD (Asp-Glu-Ala-Asp) box polypeptide 48", "eukaryotic translation initiation factor 4A, isoform 3"	DDX48		10623621, 14730019	Standard	NM_014740		Approved	KIAA0111, EIF4AIII	uc002jxs.3	P38919		ENST00000269349.3:c.36G>C	17.37:g.78120725C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q15033|Q6IBQ2|Q96A18	Silent	SNP	ENST00000269349.3	37	CCDS11767.1																																																																																				0.652	EIF4A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437446.1	NM_014740		G	78120725	C	G	78120725	2	3	606	1	0	0	0	0	0	0	0	1	5028	639	23	4		4	EIF4A3	17	78120725	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	5781921	78120725	3074485	186	36682										
MIB1	57534	broad.mit.edu;bcgsc.ca	37	chr18	19399507	19399507	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	caataagtaagaaacgtgatGatatcctagcagttcttttg	8	6	1	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr18:19399507G>A	ENST00000261537.6	+	12	1993	c.1729G>A	c.(1729-1731)Gat>Aat	p.D577N	SNORA73_ENST00000363107.1_RNA|MIB1_ENST00000578646.1_3'UTR	NM_020774.2	NP_065825.1	Q86YT6	MIB1_HUMAN	mindbomb E3 ubiquitin protein ligase 1	577					blood vessel development (GO:0001568)|heart looping (GO:0001947)|in utero embryonic development (GO:0001701)|negative regulation of neuron differentiation (GO:0045665)|neural tube formation (GO:0001841)|Notch signaling pathway (GO:0007219)|positive regulation of endocytosis (GO:0045807)|somitogenesis (GO:0001756)	centrosome (GO:0005813)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(13)|ovary(5)	27			STAD - Stomach adenocarcinoma(5;0.212)			GAAACGTGATGATATCCTAGC	0.368																																																0													151	143	145					18																	19399507		2203	4300	6503	SO:0001583	missense	57534			AB037744	CCDS11871.1	18q11.2	2014-09-17	2012-02-23		ENSG00000101752	ENSG00000101752		"Zinc fingers, ZZ-type", "Ankyrin repeat domain containing"	21086	protein-coding gene	gene with protein product		608677	"mindbomb homolog 1 (Drosophila)"				Standard	NM_020774		Approved	DIP-1, MIB, KIAA1323, ZZANK2, ZZZ6	uc002ktq.3	Q86YT6	OTTHUMG00000131753	ENST00000261537.6:c.1729G>A	18.37:g.19399507G>A	ENSP00000261537:p.Asp577Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ38|Q2TB37|Q68D01|Q6YI51|Q8NBY0|Q8TCB5|Q8TCL7|Q9P2M3	Missense_Mutation	SNP	ENST00000261537.6	37	CCDS11871.1	.	.	.	.	.	.	.	.	.	.	G	31	5.088114	0.94100	.	.	ENSG00000101752	ENST00000261537	T	0.67171	-0.25	5.1	5.1	0.69264	Ankyrin repeat-containing domain (4);	0.000000	0.85682	D	0.000000	T	0.74884	0.3775	L	0.37630	1.12	0.80722	D	1	D	0.53885	0.963	D	0.68621	0.959	T	0.72717	-0.4209	10	0.35671	T	0.21	-20.3959	18.8792	0.92350	0.0:0.0:1.0:0.0	.	577	Q86YT6	MIB1_HUMAN	N	577	ENSP00000261537:D577N	ENSP00000261537:D577N	D	+	1	0	MIB1	17653505	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.813000	0.99286	2.544000	0.85801	0.563000	0.77884	GAT		0.368	MIB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254675.1	NM_020774		A	19399507	G	A	19399507	3	1	606	1	0	0	0	0	1	0	0	0	9573	1290	45	2	1775	2	MIB1	18	19399507	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08		19399507	58677741	187	36683										
HRH4	59340	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	22048831	22048831	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gaaatctgtgtattttggctCactactgactatctgttatg	8	7	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr18:22048831C>T	ENST00000256906.4	+	2	373	c.273C>T	c.(271-273)ctC>ctT	p.L91L	HRH4_ENST00000426880.2_Intron	NM_001160166.1|NM_021624.3	NP_001153638.1|NP_067637.2	Q9H3N8	HRH4_HUMAN	histamine receptor H4	91					inflammatory response (GO:0006954)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|regulation of MAPK cascade (GO:0043408)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	histamine receptor activity (GO:0004969)			endometrium(2)|kidney(1)|large_intestine(4)|lung(10)|ovary(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	22	all_cancers(21;0.000545)|all_epithelial(16;6.56e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)				Amitriptyline(DB00321)|Amoxapine(DB00543)|Chlorpromazine(DB00477)|Clozapine(DB00363)|Doxepin(DB01142)|Histamine Phosphate(DB00667)|Loxapine(DB00408)|Mianserin(DB06148)|Olanzapine(DB00334)	TATTTTGGCTCACTACTGACT	0.403																																																0													228	186	200					18																	22048831		2203	4300	6503	SO:0001819	synonymous_variant	59340			AF312230	CCDS11887.1, CCDS45841.1	18q11.2	2012-08-08			ENSG00000134489	ENSG00000134489		"GPCR / Class A : Histamine receptors"	17383	protein-coding gene	gene with protein product		606792				11118334, 10973974	Standard	NM_021624		Approved	H4R, HH4R, AXOR35, GPCR105, GPRv53	uc002kvi.3	Q9H3N8	OTTHUMG00000131945	ENST00000256906.4:c.273C>T	18.37:g.22048831C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ19|B2KJ48|Q4G0I6|Q9GZQ0	Silent	SNP	ENST00000256906.4	37	CCDS11887.1																																																																																				0.403	HRH4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254904.1			T	22048831	C	T	22048831	2	4	606	1	0	0	0	0	0	0	0	1	7365	813	29	2		2	HRH4	18	22048831	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	2649324	22048831	56028417	188	36684										
TAF4B	6875	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	23866009	23866009	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctcaagccagtctgaaaagtCaattattgtttctggagcaa	8	8	4	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr18:23866009C>T	ENST00000269142.5	+	7	2134	c.1136C>T	c.(1135-1137)tCa>tTa	p.S379L	TAF4B_ENST00000578121.1_Missense_Mutation_p.S379L|TAF4B_ENST00000400466.2_Missense_Mutation_p.S379L	NM_005640.1	NP_005631.1	Q92750	TAF4B_HUMAN	TAF4b RNA polymerase II, TATA box binding protein (TBP)-associated factor, 105kDa	379					gene expression (GO:0010467)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor TFIID complex (GO:0005669)	DNA binding (GO:0003677)|NF-kappaB binding (GO:0051059)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(13)|prostate(1)|skin(1)	29	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)			TCTGAAAAGTCAATTATTGTT	0.463																																																0													100	97	98					18																	23866009		1925	4142	6067	SO:0001583	missense	6875			Y09321	CCDS42421.1	18q11.1	2008-08-01	2002-08-29	2001-12-07		ENSG00000141384			11538	protein-coding gene	gene with protein product	"TATA box binding protein (TBP)-associated factor 4B"	601689	"TATA box binding protein (TBP)-associated factor, RNA polymerase II, C2, 105kD"	TAF2C2		8858156, 10849440	Standard	XM_005258339		Approved	TAFII105	uc002kvu.4	Q92750		ENST00000269142.5:c.1136C>T	18.37:g.23866009C>T	ENSP00000269142:p.Ser379Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q29YA4|Q29YA5	Missense_Mutation	SNP	ENST00000269142.5	37	CCDS42421.1	.	.	.	.	.	.	.	.	.	.	c	2.722	-0.266371	0.05754	.	.	ENSG00000141384	ENST00000418698;ENST00000269142;ENST00000400466	T;T;T	0.22945	1.93;1.93;1.93	5.35	4.47	0.54385	.	1.607940	0.03022	N	0.150849	T	0.16685	0.0401	N	0.08118	0	0.09310	N	1	B;B	0.13594	0.001;0.008	B;B	0.14578	0.001;0.011	T	0.23797	-1.0178	10	0.20519	T	0.43	0.3248	9.9174	0.41444	0.1569:0.6917:0.1514:0.0	.	379;379	Q92750;A4PBF7	TAF4B_HUMAN;.	L	379	ENSP00000389365:S379L;ENSP00000269142:S379L;ENSP00000383314:S379L	ENSP00000269142:S379L	S	+	2	0	TAF4B	22120007	0.028000	0.19301	0.092000	0.20876	0.014000	0.08584	2.845000	0.48254	1.228000	0.43614	0.558000	0.71614	TCA		0.463	TAF4B-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000446260.3	NM_005640		T	23866009	C	T	23866009	3	4	606	1	0	0	0	0	1	0	0	0	15539	838	29	2	1162	2	TAF4B	18	23866009	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	1817178	23866009	54211239	189	36685										
DOK6	220164	hgsc.bcm.edu;broad.mit.edu	37	chr18	67266711	67266711	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	catctttcacgatgaaacatCgaagacatttgcctgtgagt	8	9	2	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr18:67266711C>G	ENST00000382713.5	+	3	456	c.266C>G	c.(265-267)tCg>tGg	p.S89W	RP11-465I4.2_ENST00000583991.1_RNA	NM_152721.5	NP_689934.2	Q6PKX4	DOK6_HUMAN	docking protein 6	89	PH.									central_nervous_system(1)|cervix(1)|endometrium(1)|large_intestine(6)|lung(6)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	20		Colorectal(73;0.083)|Esophageal squamous(42;0.131)				GATGAAACATCGAAGACATTT	0.448																																																0													101	78	86					18																	67266711		2203	4300	6503	SO:0001583	missense	220164			AK057795	CCDS32841.1	18q22.2	2013-01-10	2005-01-18	2005-01-18		ENSG00000206052		"Pleckstrin homology (PH) domain containing"	28301	protein-coding gene	gene with protein product		611402	"docking protein 5-like"	DOK5L		15286081	Standard	NM_152721		Approved	MGC20785, HsT3226	uc002lkl.3	Q6PKX4		ENST00000382713.5:c.266C>G	18.37:g.67266711C>G	ENSP00000372160:p.Ser89Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNG3|Q4V9S3|Q8WUZ8|Q96HI2|Q96LU2	Missense_Mutation	SNP	ENST00000382713.5	37	CCDS32841.1	.	.	.	.	.	.	.	.	.	.	C	17.07	3.295543	0.60086	.	.	ENSG00000206052	ENST00000382713	T	0.79352	-1.26	5.91	5.91	0.95273	Pleckstrin homology-type (1);Pleckstrin homology domain (2);	0.000000	0.85682	D	0.000000	D	0.85548	0.5722	L	0.47716	1.5	0.80722	D	1	D	0.89917	1.0	D	0.79784	0.993	D	0.85609	0.1257	10	0.66056	D	0.02	-2.6428	19.2865	0.94077	0.0:1.0:0.0:0.0	.	89	Q6PKX4	DOK6_HUMAN	W	89	ENSP00000372160:S89W	ENSP00000372160:S89W	S	+	2	0	DOK6	65417691	1.000000	0.71417	0.262000	0.24481	0.116000	0.19942	7.786000	0.85741	2.802000	0.96397	0.655000	0.94253	TCG		0.448	DOK6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000442969.1	NM_152721		G	67266711	C	G	67266711	3	3	606	1	0	0	0	0	1	0	0	0	4703	893	31	4	276	4	DOK6	18	67266711	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	43400702	67266711	10810537	190	36686										
MED16	10025	hgsc.bcm.edu	37	chr19	879943	879943	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ccccagcagctcaccttcccGtggctgtcaatccccaccag	7	20	2	0	rs201392672|rs76403059	byFrequency	TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:879943G>C	ENST00000589119.1	-	7	1346	c.1347C>G	c.(1345-1347)caC>caG	p.H449Q	MED16_ENST00000325464.1_Missense_Mutation_p.H449Q|MED16_ENST00000395808.3_Missense_Mutation_p.H449Q|MED16_ENST00000606828.1_Intron|MED16_ENST00000312090.6_Missense_Mutation_p.H449Q|MED16_ENST00000269814.4_Missense_Mutation_p.H449Q			Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	449					androgen receptor signaling pathway (GO:0030521)|gene expression (GO:0010467)|intracellular steroid hormone receptor signaling pathway (GO:0030518)|positive regulation of receptor activity (GO:2000273)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)	mediator complex (GO:0016592)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	catalytic activity (GO:0003824)|receptor activity (GO:0004872)|thyroid hormone receptor binding (GO:0046966)|thyroid hormone receptor coactivator activity (GO:0030375)|transcription coactivator activity (GO:0003713)|transcription cofactor activity (GO:0003712)|vitamin D receptor binding (GO:0042809)			NS(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(12)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	21		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)		TCACCTTCCCGTGGCTGTCAA	0.672																																																0													13	11	12					19																	879943		2152	4247	6399	SO:0001583	missense	10025			AF121228	CCDS12047.1	19p13.3	2013-01-10	2007-07-30	2007-07-30		ENSG00000175221		"WD repeat domain containing"	17556	protein-coding gene	gene with protein product		604062	"thyroid hormone receptor associated protein 5"	THRAP5		10235266, 10198638	Standard	NM_005481		Approved	DRIP92, TRAP95	uc002lqd.1	Q9Y2X0		ENST00000589119.1:c.1347C>G	19.37:g.879943G>C	ENSP00000464810:p.His449Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PJT2|Q96AD4|Q96I35|Q9Y652	Missense_Mutation	SNP	ENST00000589119.1	37	CCDS12047.1	.	.	.	.	.	.	.	.	.	.	C	3.376	-0.127462	0.06753	.	.	ENSG00000175221	ENST00000325464;ENST00000312090;ENST00000395808;ENST00000269814;ENST00000534906;ENST00000537596;ENST00000540679;ENST00000538572;ENST00000424039	T;T;T;T	0.42131	0.98;0.98;0.98;0.98	4.21	-7.89	0.01174	WD40 repeat-like-containing domain (1);	0.323237	0.32357	N	0.006220	T	0.21307	0.0513	L	0.37850	1.14	0.37741	D	0.925623	B;B;B;B;B	0.13145	0.006;0.007;0.002;0.001;0.001	B;B;B;B;B	0.14023	0.006;0.006;0.003;0.006;0.01	T	0.20009	-1.0288	10	0.15066	T	0.55	-14.2411	8.1092	0.30905	0.4704:0.1904:0.3392:0.0	.	449;449;449;449;449	Q9Y2X0-2;E7ETV0;Q9Y2X0-4;Q9Y2X0-3;Q9Y2X0	.;.;.;.;MED16_HUMAN	Q	449;449;449;449;449;305;210;208;449	ENSP00000325612:H449Q;ENSP00000308528:H449Q;ENSP00000379153:H449Q;ENSP00000269814:H449Q	ENSP00000269814:H449Q	H	-	3	2	MED16	830943	0.000000	0.05858	0.886000	0.34754	0.057000	0.15508	-3.404000	0.00482	-1.779000	0.01280	-2.326000	0.00250	CAC		0.672	MED16-006	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000457902.3	NM_005481		C	879943	G	C	879943	3	2	606	1	0	0	0	0	1	0	0	0	9441	1136	40	4	1322	4	MED16	19	879943	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08		879943	58249040	191	36687										
ATP8B3	148229	ucsc.edu;bcgsc.ca	37	chr19	1811677	1811677	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ccccaggtcctggtggggcaGggcttggctcagggccagct	17	13	1	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:1811677G>T	ENST00000310127.6	-	2	297	c.59C>A	c.(58-60)cCt>cAt	p.P20H	ATP8B3_ENST00000539485.1_Missense_Mutation_p.P20H|ATP8B3_ENST00000525591.1_Intron|ATP8B3_ENST00000526092.2_Intron	NM_138813.3	NP_620168.1	O60423	AT8B3_HUMAN	ATPase, aminophospholipid transporter, class I, type 8B, member 3	20					binding of sperm to zona pellucida (GO:0007339)	acrosomal vesicle (GO:0001669)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(9)|ovary(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	23		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)		TGGTGGGGCAGGGCTTGGCTC	0.647																																																0													31	35	34					19																	1811677		2002	4160	6162	SO:0001583	missense	148229			AA827939	CCDS45901.1, CCDS54196.1	19p13.3	2010-04-28	2010-04-28		ENSG00000130270	ENSG00000130270		"ATPases / P-type"	13535	protein-coding gene	gene with protein product	"aminophospholipid translocase ATP8B3", "potential phospholipid-transporting ATPase IK"	605866	"ATPase, Class I, type 8B, member 3", "ATPase, class I, type 8B, member 3"			11015572	Standard	NM_138813		Approved	ATPIK	uc002ltw.4	O60423	OTTHUMG00000166189	ENST00000310127.6:c.59C>A	19.37:g.1811677G>T	ENSP00000311336:p.Pro20His	Somatic		WXS	Illumina HiSeq		Q7Z485|Q8IVB8|Q8N4Y8|Q96M22	Missense_Mutation	SNP	ENST00000310127.6	37	CCDS45901.1	.	.	.	.	.	.	.	.	.	.	c	3.042	-0.197318	0.06259	.	.	ENSG00000130270	ENST00000310127;ENST00000539485	T;T	0.75477	-0.94;-0.94	1.78	-3.56	0.04626	.	.	.	.	.	T	0.45637	0.1352	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.13308	-1.0514	9	0.39692	T	0.17	.	1.204	0.01891	0.1366:0.3313:0.1985:0.3336	.	20	O60423	AT8B3_HUMAN	H	20	ENSP00000311336:P20H;ENSP00000443574:P20H	ENSP00000311336:P20H	P	-	2	0	ATP8B3	1762677	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-1.066000	0.03454	-1.603000	0.01597	-0.465000	0.05216	CCT		0.647	ATP8B3-002	KNOWN	alternative_5_UTR|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000388279.1	NM_138813		T	1811677	G	T	1811677	3	4	606	1	0	0	0	0	1	0	0	0	1196	1000	35	4	4003	4	ATP8B3	19	1811677	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	931734	1811677	57317306	192	36688										
NFIC	4782	ucsc.edu	37	chr19	3435161	3435161	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ttactacacttcgcccagctCgcccacgagtagcagccgca	8	17	0	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:3435161C>T	ENST00000443272.2	+	6	965	c.914C>T	c.(913-915)tCg>tTg	p.S305L	NFIC_ENST00000341919.3_Missense_Mutation_p.S305L|NFIC_ENST00000586919.1_Missense_Mutation_p.S272L|NFIC_ENST00000589123.1_Missense_Mutation_p.S296L|NFIC_ENST00000346156.5_Missense_Mutation_p.S272L|NFIC_ENST00000395111.3_Missense_Mutation_p.S296L|NFIC_ENST00000590282.1_Missense_Mutation_p.S305L	NM_001245002.1	NP_001231931.1	P08651	NFIC_HUMAN	nuclear factor I/C (CCAAT-binding transcription factor)	305					DNA replication (GO:0006260)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|odontogenesis of dentin-containing tooth (GO:0042475)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription from RNA polymerase II promoter (GO:0006366)	nucleolus (GO:0005730)|nucleus (GO:0005634)	core promoter proximal region DNA binding (GO:0001159)|double-stranded DNA binding (GO:0003690)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(10)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	21		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;7.8e-05)|Epithelial(107;2.94e-108)|BRCA - Breast invasive adenocarcinoma(158;0.00154)|STAD - Stomach adenocarcinoma(1328;0.191)		TCGCCCAGCTCGCCCACGAGT	0.662																																																0													28	24	25					19																	3435161		2200	4298	6498	SO:0001583	missense	4782			X12492	CCDS12107.1, CCDS45914.1, CCDS58640.1, CCDS59330.1, CCDS59331.1	19p13.3	2008-02-05				ENSG00000141905			7786	protein-coding gene	gene with protein product		600729		NFI		3398920, 7590749	Standard	NM_205843		Approved	CTF, NF-I, CTF5	uc010xhi.2	P08651		ENST00000443272.2:c.914C>T	19.37:g.3435161C>T	ENSP00000396843:p.Ser305Leu	Somatic		WXS	Illumina HiSeq		A8K1H0|B7Z4U5|B7Z9C3|K7EMU1|P08652|Q14932|Q9UPJ3|Q9UPJ9|Q9UPK0|Q9UPK1	Missense_Mutation	SNP	ENST00000443272.2	37	CCDS59330.1	.	.	.	.	.	.	.	.	.	.	C	21.5	4.159672	0.78226	.	.	ENSG00000141905	ENST00000443272;ENST00000395111;ENST00000346156;ENST00000341919;ENST00000343825;ENST00000269778	T;T;T	0.58506	0.33;0.33;0.33	4.69	3.64	0.41730	.	0.287773	0.33813	N	0.004531	T	0.46308	0.1386	L	0.50333	1.59	0.44402	D	0.997317	P;P;P;P;P	0.49862	0.716;0.929;0.668;0.531;0.531	B;B;B;B;B	0.37267	0.092;0.245;0.055;0.055;0.055	T	0.51616	-0.8683	10	0.40728	T	0.16	.	11.87	0.52515	0.0:0.9119:0.0:0.0881	.	305;305;296;305;296	B7Z4U5;P08651;P08651-3;P08651-5;P08651-2	.;NFIC_HUMAN;.;.;.	L	296;296;272;305;305;305	ENSP00000378543:S296L;ENSP00000301935:S272L;ENSP00000342194:S305L	ENSP00000269778:S305L	S	+	2	0	NFIC	3386161	0.999000	0.42202	0.990000	0.47175	0.984000	0.73092	4.572000	0.60886	2.152000	0.67230	0.561000	0.74099	TCG		0.662	NFIC-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452834.1	NM_005597		T	3435161	C	T	3435161	3	4	606	1	0	0	0	0	1	0	0	0	10379	893	31	1	943	1	NFIC	19	3435161	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	1623484	3435161	55693822	193	36689										
TRIP10	9322	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	6743264	6743264	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aatggctttaaacagctggaGaatgtgagtttgcagaggta	13	4	0	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:6743264G>C	ENST00000313244.9	+	5	440	c.405G>C	c.(403-405)gaG>gaC	p.E135D	TRIP10_ENST00000313285.8_Missense_Mutation_p.E135D|TRIP10_ENST00000600428.1_Missense_Mutation_p.E27D|TRIP10_ENST00000596758.1_Missense_Mutation_p.E135D			Q15642	CIP4_HUMAN	thyroid hormone receptor interactor 10	135	F-BAR domain.				actin cytoskeleton organization (GO:0030036)|cell communication (GO:0007154)|endocytosis (GO:0006897)|regulation of small GTPase mediated signal transduction (GO:0051056)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|lysosome (GO:0005764)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	identical protein binding (GO:0042802)|lipid binding (GO:0008289)			NS(1)|breast(1)|endometrium(1)|large_intestine(1)|liver(2)|lung(7)|ovary(1)|prostate(1)|urinary_tract(1)	16						AACAGCTGGAGAATGTGAGTT	0.582																																																0													53	55	54					19																	6743264		2203	4300	6503	SO:0001583	missense	9322			AB072596	CCDS12172.1, CCDS74271.1, CCDS74272.1	19p13.3	2008-02-05			ENSG00000125733	ENSG00000125733			12304	protein-coding gene	gene with protein product	"Cdc42-interacting protein"	604504	"salt tolerator"	STOT		7776974, 9210375, 11294612	Standard	XM_005259683		Approved	STP, HSTP, CIP4	uc002mfr.3	Q15642	OTTHUMG00000150255	ENST00000313244.9:c.405G>C	19.37:g.6743264G>C	ENSP00000320117:p.Glu135Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8A6|B7WP22|D6W645|O15184|Q53G22|Q5TZN1|Q6FI24|Q8NFL1|Q8TCY1|Q8TDX3|Q96RJ1	Missense_Mutation	SNP	ENST00000313244.9	37		.	.	.	.	.	.	.	.	.	.	G	5.067	0.198081	0.09652	.	.	ENSG00000125733	ENST00000313285;ENST00000313244;ENST00000420690	T;T	0.17528	2.27;2.27	3.97	1.76	0.24704	.	0.279702	0.33309	N	0.005060	T	0.05914	0.0154	N	0.10760	0.04	0.37681	D	0.9235	B;P;B	0.39424	0.003;0.673;0.008	B;B;B	0.34536	0.019;0.185;0.012	T	0.43523	-0.9386	10	0.12103	T	0.63	-23.3165	6.6451	0.22931	0.2321:0.0:0.7679:0.0	.	135;135;135	G5E9U1;Q15642;Q15642-2	.;CIP4_HUMAN;.	D	135	ENSP00000320493:E135D;ENSP00000320117:E135D	ENSP00000320117:E135D	E	+	3	2	TRIP10	6694264	1.000000	0.71417	0.999000	0.59377	0.854000	0.48673	0.793000	0.26944	0.174000	0.19809	0.462000	0.41574	GAG		0.582	TRIP10-003	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000317129.2			C	6743264	G	C	6743264	3	2	606	1	0	0	0	0	1	0	0	0	16566	933	33	4	423	4	TRIP10	19	6743264	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	3308103	6743264	52385719	194	36690										
NR2F6	2063	broad.mit.edu	37	chr19	17355929	17355929	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cgctggcggcaccggggggcGaggccgagtcgtcctcggcc	19	15	0	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:17355929G>A	ENST00000291442.3	-	1	820	c.101C>T	c.(100-102)tCg>tTg	p.S34L	AC010646.3_ENST00000594059.1_Intron	NM_005234.3	NP_005225.2	P10588	NR2F6_HUMAN	nuclear receptor subfamily 2, group F, member 6	34					detection of temperature stimulus involved in sensory perception of pain (GO:0050965)|entrainment of circadian clock by photoperiod (GO:0043153)|gene expression (GO:0010467)|intracellular receptor signaling pathway (GO:0030522)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron development (GO:0048666)|signal transduction (GO:0007165)|transcription initiation from RNA polymerase II promoter (GO:0006367)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001227)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|steroid hormone receptor activity (GO:0003707)|thyroid hormone receptor activity (GO:0004887)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(1)|large_intestine(1)|lung(1)	5						ACCGGGGGGCGAGGCCGAGTC	0.771																																																0													6	7	6					19																	17355929		1976	3706	5682	SO:0001583	missense	2063			X12794	CCDS12352.1	19p13.11	2013-09-20			ENSG00000160113	ENSG00000160113		"Nuclear hormone receptors"	7977	protein-coding gene	gene with protein product		132880		ERBAL2		2905047	Standard	NM_005234		Approved	EAR-2	uc002nfq.3	P10588	OTTHUMG00000182728	ENST00000291442.3:c.101C>T	19.37:g.17355929G>A	ENSP00000291442:p.Ser34Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RC68|Q5XGA0|Q6P586|Q9BUE8	Missense_Mutation	SNP	ENST00000291442.3	37	CCDS12352.1	.	.	.	.	.	.	.	.	.	.	G	16.51	3.144482	0.57044	.	.	ENSG00000160113	ENST00000291442	D	0.93307	-3.2	2.97	2.97	0.34412	.	0.363501	0.24793	N	0.035544	D	0.86397	0.5923	L	0.46157	1.445	0.80722	D	1	P	0.49253	0.921	B	0.24974	0.057	D	0.87361	0.2344	10	0.59425	D	0.04	.	11.8123	0.52189	0.0:0.0:1.0:0.0	.	34	P10588	NR2F6_HUMAN	L	34	ENSP00000291442:S34L	ENSP00000291442:S34L	S	-	2	0	NR2F6	17216929	1.000000	0.71417	0.966000	0.40874	0.092000	0.18411	3.656000	0.54467	1.686000	0.51046	0.298000	0.19748	TCG		0.771	NR2F6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463325.1			A	17355929	G	A	17355929	3	1	606	1	0	0	0	0	1	0	0	0	10636	1059	37	1	1129	1	NR2F6	19	17355929	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	10612665	17355929	41773054	195	36691										
WDR88	126248	hgsc.bcm.edu	37	chr19	33635808	33635808	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	caggcccaaagctcctgttgTagagtgcagcatcaccggcg	12	13	1	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:33635808T>C	ENST00000355868.3	+	3	522	c.446T>C	c.(445-447)gTa>gCa	p.V149A	WDR88_ENST00000361680.2_Missense_Mutation_p.V149A|WDR88_ENST00000592765.1_Missense_Mutation_p.V149A	NM_173479.3	NP_775750.3	Q6ZMY6	WDR88_HUMAN	WD repeat domain 88	149										breast(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(8)|ovary(2)|prostate(1)|urinary_tract(1)	25	Esophageal squamous(110;0.137)					GCTCCTGTTGTAGAGTGCAGC	0.552																																																0													117	91	100					19																	33635808		2203	4300	6503	SO:0001583	missense	126248			BC031227	CCDS12429.1	19q13.11	2013-01-09	2007-04-04	2007-04-04		ENSG00000166359		"WD repeat domain containing"	26999	protein-coding gene	gene with protein product			"PQQ repeat and WD repeat domain containing"	PQWD		12477932	Standard	NM_173479		Approved		uc002nui.3	Q6ZMY6		ENST00000355868.3:c.446T>C	19.37:g.33635808T>C	ENSP00000348129:p.Val149Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NEF8	Missense_Mutation	SNP	ENST00000355868.3	37	CCDS12429.1	.	.	.	.	.	.	.	.	.	.	T	2.527	-0.309490	0.05458	.	.	ENSG00000166359	ENST00000355868;ENST00000361680	T;T	0.39406	1.08;1.08	5.09	1.36	0.22044	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	44.246300	0.00166	N	0.000000	T	0.28928	0.0718	N	0.24115	0.695	0.09310	N	1	B	0.22480	0.07	B	0.16722	0.016	T	0.11891	-1.0569	10	0.16896	T	0.51	.	5.9601	0.19295	0.0:0.4463:0.0:0.5537	.	149	Q6ZMY6	WDR88_HUMAN	A	149	ENSP00000348129:V149A;ENSP00000355148:V149A	ENSP00000348129:V149A	V	+	2	0	WDR88	38327648	0.001000	0.12720	0.026000	0.17262	0.171000	0.22731	0.476000	0.22180	0.366000	0.24427	0.459000	0.35465	GTA		0.552	WDR88-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450840.1	NM_173479		C	33635808	T	C	33635808	3	2	606	1	0	0	0	0	1	0	0	0	17347	1638	57	3	456	3	WDR88	19	33635808	Missense_Mutation	SNP	T	TCGA-HE-7130-01A-11D-1961-08	16279879	33635808	25493175	196	36692										
NCCRP1	342897	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	39691364	39691364	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgcggcggacacgggtgaccGactcctccgtgtctgtgcag	15	13	1	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:39691364G>A	ENST00000339852.4	+	6	818	c.796G>A	c.(796-798)Gac>Aac	p.D266N		NM_001001414.1	NP_001001414.1	Q6ZVX7	FBX50_HUMAN	non-specific cytotoxic cell receptor protein 1 homolog (zebrafish)	266	FBA. {ECO:0000255|PROSITE- ProRule:PRU00482}.				positive regulation of cell proliferation (GO:0008284)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)				kidney(1)|large_intestine(2)|liver(1)|lung(4)|ovary(1)|urinary_tract(1)	10						ACGGGTGACCGACTCCTCCGT	0.617																																					Melanoma(107;1207 1556 14956 29427 52130)											0													152	148	149					19																	39691364		2203	4300	6503	SO:0001583	missense	342897			AK123941, BC067874	CCDS12529.1	19q13.2	2013-07-31	2008-11-19		ENSG00000188505	ENSG00000188505			33739	protein-coding gene	gene with protein product		615901					Standard	NM_001001414		Approved	LOC342897, NCCRP-1, FBXO50	uc002okq.1	Q6ZVX7		ENST00000339852.4:c.796G>A	19.37:g.39691364G>A	ENSP00000342137:p.Asp266Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NVV5	Missense_Mutation	SNP	ENST00000339852.4	37	CCDS12529.1	.	.	.	.	.	.	.	.	.	.	G	9.500	1.103019	0.20632	.	.	ENSG00000188505	ENST00000339852	T	0.24350	1.86	4.96	4.96	0.65561	Galactose-binding domain-like (1);F-box associated (FBA) domain (2);	0.050217	0.85682	D	0.000000	T	0.22898	0.0553	N	0.11201	0.11	0.50313	D	0.999862	D	0.61697	0.99	P	0.57057	0.812	T	0.02728	-1.1118	10	0.07030	T	0.85	-30.2767	15.693	0.77469	0.0:0.0:1.0:0.0	.	266	Q6ZVX7	NCRP1_HUMAN	N	266	ENSP00000342137:D266N	ENSP00000342137:D266N	D	+	1	0	NCCRP1	44383204	1.000000	0.71417	0.955000	0.39395	0.144000	0.21451	4.099000	0.57755	2.319000	0.78375	0.484000	0.47621	GAC		0.617	NCCRP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463829.1	NM_001001414		A	39691364	G	A	39691364	3	1	606	1	0	0	0	0	1	0	0	0	10220	1058	37	1	818	1	NCCRP1	19	39691364	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	6055556	39691364	19437619	197	36693										
AKT2	208	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	40741033	40741033	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gtcgacctcggacgtgacctGaggtttgaagggtggcagga	17	8	0	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:40741033G>C	ENST00000392038.2	-	13	1583	c.1285C>G	c.(1285-1287)Cag>Gag	p.Q429E	AKT2_ENST00000579047.1_Missense_Mutation_p.Q367E|AKT2_ENST00000424901.1_Missense_Mutation_p.Q429E|AKT2_ENST00000311278.6_Missense_Mutation_p.Q386E	NM_001243027.1|NM_001243028.1|NM_001626.4	NP_001229956.1|NP_001229957.1|NP_001617.1	P31751	AKT2_HUMAN	v-akt murine thymoma viral oncogene homolog 2	429	AGC-kinase C-terminal.				activation of Ral GTPase activity (GO:0032859)|apoptotic process (GO:0006915)|carbohydrate transport (GO:0008643)|cellular protein modification process (GO:0006464)|cellular response to insulin stimulus (GO:0032869)|fat cell differentiation (GO:0045444)|glucose metabolic process (GO:0006006)|glycogen biosynthetic process (GO:0005978)|insulin receptor signaling pathway (GO:0008286)|intracellular protein transmembrane transport (GO:0065002)|mammary gland epithelial cell differentiation (GO:0060644)|membrane organization (GO:0061024)|negative regulation of plasma membrane long-chain fatty acid transport (GO:0010748)|peripheral nervous system myelin maintenance (GO:0032287)|positive regulation of cell motility (GO:2000147)|positive regulation of fatty acid beta-oxidation (GO:0032000)|positive regulation of glucose import (GO:0046326)|positive regulation of glucose import in response to insulin stimulus (GO:2001275)|positive regulation of glucose metabolic process (GO:0010907)|positive regulation of glycogen biosynthetic process (GO:0045725)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of vesicle fusion (GO:0031340)|protein localization to plasma membrane (GO:0072659)|regulation of cell cycle arrest (GO:0071156)|regulation of cell migration (GO:0030334)|regulation of translation (GO:0006417)|signal transduction (GO:0007165)	cell cortex (GO:0005938)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)	ATP binding (GO:0005524)|kinase activity (GO:0016301)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|cervix(1)|kidney(3)|large_intestine(9)|lung(10)|prostate(2)|skin(1)	27			Lung(22;0.000499)			GACGTGACCTGAGGTTTGAAG	0.617			A		"ovarian, pancreatic "																																		Dom	yes		19	19q13.1-q13.2	208	v-akt murine thymoma viral oncogene homolog 2		E	0													131	117	122					19																	40741033		2203	4300	6503	SO:0001583	missense	208			M77198	CCDS12552.1	19q13.1-q13.2	2013-01-10			ENSG00000105221	ENSG00000105221	2.7.11.1	"Pleckstrin homology (PH) domain containing"	392	protein-coding gene	gene with protein product		164731				1409633	Standard	NM_001626		Approved		uc002onf.3	P31751	OTTHUMG00000137375	ENST00000392038.2:c.1285C>G	19.37:g.40741033G>C	ENSP00000375892:p.Gln429Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBD8|Q05BV0|Q0VAN0|Q0VAN1|Q68GC0	Missense_Mutation	SNP	ENST00000392038.2	37	CCDS12552.1	.	.	.	.	.	.	.	.	.	.	G	15.06	2.720332	0.48728	.	.	ENSG00000105221	ENST00000392038;ENST00000391844;ENST00000424901;ENST00000311278	T;T;T	0.56611	0.45;0.45;0.45	5.39	4.36	0.52297	Protein kinase, C-terminal (1);AGC-kinase, C-terminal (2);Protein kinase-like domain (1);	0.000000	0.85682	D	0.000000	T	0.51941	0.1704	M	0.69823	2.125	0.80722	D	1	B;B;B	0.10296	0.0;0.003;0.001	B;B;B	0.15870	0.001;0.014;0.006	T	0.52162	-0.8612	10	0.41790	T	0.15	.	12.9122	0.58187	0.0788:0.0:0.9212:0.0	.	367;386;429	B4DG79;Q0VAN0;P31751	.;.;AKT2_HUMAN	E	429;330;429;386	ENSP00000375892:Q429E;ENSP00000399532:Q429E;ENSP00000309428:Q386E	ENSP00000309428:Q386E	Q	-	1	0	AKT2	45432873	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.329000	0.96413	1.513000	0.48852	0.655000	0.94253	CAG		0.617	AKT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268029.1	NM_001626		C	40741033	G	C	40741033	3	2	606	1	0	0	0	0	1	0	0	0	480	1299	45	4	168	4	AKT2	19	40741033	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	1049669	40741033	18387950	198	36694										
C19orf47	126526	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	40832303	40832303	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gtgtggtgcctttgggcatgTtgatgacgtacttcccctcc	12	11	0	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:40832303T>C	ENST00000582783.1	-	7	653	c.641A>G	c.(640-642)aAc>aGc	p.N214S	C19orf47_ENST00000392035.2_Missense_Mutation_p.N147S	NM_001256440.1	NP_001243369.1	Q8N9M1	CS047_HUMAN	chromosome 19 open reading frame 47	214						nucleus (GO:0005634)				endometrium(5)|kidney(2)|lung(7)|ovary(3)|prostate(1)|skin(1)|urinary_tract(1)	20			Lung(22;0.000636)			TTTGGGCATGTTGATGACGTA	0.662																																																0													132	102	112					19																	40832303		2203	4300	6503	SO:0001583	missense	126526			AL834131	CCDS58662.1	19q13.2	2012-07-20			ENSG00000160392	ENSG00000160392			26723	protein-coding gene	gene with protein product						12477932	Standard	NM_001256440		Approved	FLJ36888	uc002oni.5	Q8N9M1	OTTHUMG00000179028	ENST00000582783.1:c.641A>G	19.37:g.40832303T>C	ENSP00000463159:p.Asn214Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IZ33|Q8N0V9	Missense_Mutation	SNP	ENST00000582783.1	37	CCDS58662.1	.	.	.	.	.	.	.	.	.	.	T	17.31	3.356248	0.61293	.	.	ENSG00000160392	ENST00000357884;ENST00000392035	.	.	.	5.54	4.44	0.53790	.	0.086607	0.85682	D	0.000000	T	0.51329	0.1668	L	0.59436	1.845	0.50632	D	0.999884	B	0.32753	0.383	B	0.33521	0.165	T	0.46803	-0.9165	9	0.14656	T	0.56	1.1855	13.0399	0.58893	0.0:0.0:0.1429:0.8571	.	214	Q8N9M1	CS047_HUMAN	S	214;147	.	ENSP00000350556:N214S	N	-	2	0	C19orf47	45524143	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	3.596000	0.54024	2.115000	0.64714	0.379000	0.24179	AAC		0.662	C19orf47-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444488.1	NM_178830		C	40832303	T	C	40832303	3	2	606	1	0	0	0	0	1	0	0	0	1932	1725	60	3	639	3	C19orf47	19	40832303	Missense_Mutation	SNP	T	TCGA-HE-7130-01A-11D-1961-08	91270	40832303	18296680	199	36695										
LYPD3	27076	hgsc.bcm.edu	37	chr19	43967362	43967362	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gctcacgaccggcggcgatgTaccctggcacgcctcccggc	13	18	1	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:43967362T>C	ENST00000244333.3	-	4	548	c.460A>G	c.(460-462)Aca>Gca	p.T154A		NM_014400.2	NP_055215.2	O95274	LYPD3_HUMAN	LY6/PLAUR domain containing 3	154	UPAR/Ly6 2.				cell-matrix adhesion (GO:0007160)|cellular component movement (GO:0006928)	anchored component of plasma membrane (GO:0046658)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)				cervix(1)|endometrium(1)|kidney(2)|large_intestine(3)|lung(1)|pancreas(1)|upper_aerodigestive_tract(2)	11		Prostate(69;0.0153)				GGCGGCGATGTACCCTGGCAC	0.647																																																0													73	65	68					19																	43967362		2203	4300	6503	SO:0001583	missense	27076			AF082889	CCDS12620.1	19q13.31	2008-02-05				ENSG00000124466			24880	protein-coding gene	gene with protein product		609484				11179665, 11245483	Standard	NM_014400		Approved	C4.4A	uc002owl.1	O95274		ENST00000244333.3:c.460A>G	19.37:g.43967362T>C	ENSP00000244333:p.Thr154Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UJ74	Missense_Mutation	SNP	ENST00000244333.3	37	CCDS12620.1	.	.	.	.	.	.	.	.	.	.	T	4.370	0.068265	0.08436	.	.	ENSG00000124466	ENST00000244333	T	0.69435	-0.4	4.67	-1.43	0.08884	CD59 antigen (1);	1.302740	0.05157	N	0.497038	T	0.32763	0.0840	N	0.02011	-0.69	0.09310	N	1	B	0.06786	0.001	B	0.08055	0.003	T	0.12400	-1.0549	10	0.10636	T	0.68	.	3.1389	0.06448	0.4169:0.1813:0.0:0.4018	.	154	O95274	LYPD3_HUMAN	A	154	ENSP00000244333:T154A	ENSP00000244333:T154A	T	-	1	0	LYPD3	48659202	0.000000	0.05858	0.000000	0.03702	0.485000	0.33311	-0.246000	0.08878	-0.637000	0.05516	0.374000	0.22700	ACA		0.647	LYPD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463177.1	NM_014400		C	43967362	T	C	43967362	3	2	606	1	0	0	0	0	1	0	0	0	9118	1638	57	3	588	3	LYPD3	19	43967362	Missense_Mutation	SNP	T	TCGA-HE-7130-01A-11D-1961-08	3135059	43967362	15161621	200	36696										
ALDH16A1	126133	ucsc.edu	37	chr19	49969068	49969068	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cccgaagctccaggcccatcCgggattcgtctggcaacctc	10	17	1	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:49969068C>T	ENST00000293350.4	+	13	1805	c.1642C>T	c.(1642-1644)Cgg>Tgg	p.R548W	ALDH16A1_ENST00000455361.2_Missense_Mutation_p.R497W|CTD-3148I10.9_ENST00000599536.1_Intron|ALDH16A1_ENST00000433981.2_Missense_Mutation_p.R383W|ALDH16A1_ENST00000540132.1_Missense_Mutation_p.R385W	NM_153329.3	NP_699160.2	Q8IZ83	A16A1_HUMAN	aldehyde dehydrogenase 16 family, member A1	548						extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor (GO:0016620)			cervix(2)|endometrium(3)|kidney(2)|large_intestine(3)|lung(5)|skin(2)|urinary_tract(3)	20		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)		CAGGCCCATCCGGGATTCGTC	0.652																																																0													38	41	40					19																	49969068		2203	4300	6503	SO:0001583	missense	126133			AY007096	CCDS12766.1, CCDS46141.1	19q13.33	2014-08-12			ENSG00000161618	ENSG00000161618		"Aldehyde dehydrogenases"	28114	protein-coding gene	gene with protein product		613358					Standard	NM_153329		Approved	MGC10204	uc002pnt.3	Q8IZ83	OTTHUMG00000183163	ENST00000293350.4:c.1642C>T	19.37:g.49969068C>T	ENSP00000293350:p.Arg548Trp	Somatic		WXS	Illumina HiSeq		B4DLQ1|C9JBH6|Q86YF0|Q8IYL4|Q8TEI8	Missense_Mutation	SNP	ENST00000293350.4	37	CCDS12766.1	.	.	.	.	.	.	.	.	.	.	C	4.227	0.041032	0.08196	.	.	ENSG00000161618	ENST00000293350;ENST00000455361;ENST00000540132;ENST00000433981	T;T;T;T	0.30182	1.54;1.54;1.54;1.54	4.77	-1.69	0.08186	Aldehyde dehydrogenase, N-terminal (1);Aldehyde/histidinol dehydrogenase (1);	1.480900	0.04153	N	0.321619	T	0.21962	0.0529	L	0.37800	1.135	0.09310	N	1	B;B;B	0.06786	0.001;0.001;0.001	B;B;B	0.06405	0.002;0.0;0.0	T	0.20940	-1.0260	10	0.36615	T	0.2	-21.3384	3.6231	0.08103	0.2686:0.3861:0.0:0.3453	.	385;497;548	F5H4B6;B4DLQ1;Q8IZ83	.;.;A16A1_HUMAN	W	548;497;385;383	ENSP00000293350:R548W;ENSP00000410142:R497W;ENSP00000445088:R385W;ENSP00000398675:R383W	ENSP00000293350:R548W	R	+	1	2	ALDH16A1	54660880	0.000000	0.05858	0.070000	0.20053	0.014000	0.08584	-1.814000	0.01723	-0.156000	0.11079	-0.254000	0.11334	CGG		0.652	ALDH16A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465358.1	NM_153329		T	49969068	C	T	49969068	3	4	606	1	0	0	0	0	1	0	0	0	488	643	23	1	1692	1	ALDH16A1	19	49969068	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	6001706	49969068	9159915	201	36697										
KLK10	5655	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	51518766	51518766	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tcacactctttagggctcagGatagtgatgctggagcaggt	13	8	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:51518766G>T	ENST00000309958.3	-	5	803	c.585C>A	c.(583-585)atC>atA	p.I195I	KLK10_ENST00000391805.1_Silent_p.I195I|CTC-518B2.12_ENST00000596286.1_RNA|KLK10_ENST00000358789.3_Silent_p.I195I	NM_002776.4	NP_002767.2	O43240	KLK10_HUMAN	kallikrein-related peptidase 10	195	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cell cycle (GO:0007049)	extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(6)|ovary(1)|prostate(1)	13		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00885)		TAGGGCTCAGGATAGTGATGC	0.567																																																0													273	256	262					19																	51518766		2203	4300	6503	SO:0001819	synonymous_variant	5655			AF024605	CCDS12817.1	19q13	2011-03-07	2006-10-27			ENSG00000129451		"Kallikreins"	6358	protein-coding gene	gene with protein product		602673	"kallikrein 10"	PRSSL1		8764136, 9533035, 16800724, 16800723, 10675891	Standard	NM_145888		Approved	NES1	uc002pva.3	O43240		ENST00000309958.3:c.585C>A	19.37:g.51518766G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NC12|Q53YL3|Q99920|Q9GZW9	Silent	SNP	ENST00000309958.3	37	CCDS12817.1																																																																																				0.567	KLK10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464337.2	NM_002776		T	51518766	G	T	51518766	2	4	606	1	0	0	0	0	0	0	0	1	8405	1164	41	4		4	KLK10	19	51518766	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	1549698	51518766	7610217	202	36698										
ZNF347	84671	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	53643875	53643875	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	acactcattgcatttgtaagGtttttttccagtatggattg	8	6	1	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:53643875G>T	ENST00000334197.7	-	5	2274	c.2206C>A	c.(2206-2208)Cct>Act	p.P736T	ZNF347_ENST00000601804.1_Intron|ZNF347_ENST00000601469.2_Missense_Mutation_p.P737T|ZNF347_ENST00000452676.2_Missense_Mutation_p.P737T	NM_032584.2	NP_115973.2	Q96SE7	ZN347_HUMAN	zinc finger protein 347	736					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(3)|kidney(2)|large_intestine(6)|lung(8)|prostate(3)|skin(1)	23				GBM - Glioblastoma multiforme(134;0.0179)		CATTTGTAAGGTTTTTTTCCA	0.423																																					Melanoma(64;205 1597 17324 45721)											0													167	155	159					19																	53643875		2203	4300	6503	SO:0001583	missense	84671			AY029765	CCDS33097.1, CCDS54314.1	19q13.3	2013-01-08				ENSG00000197937		"Zinc fingers, C2H2-type", "-"	16447	protein-coding gene	gene with protein product							Standard	NM_032584		Approved	ZNF1111	uc010eql.2	Q96SE7		ENST00000334197.7:c.2206C>A	19.37:g.53643875G>T	ENSP00000334146:p.Pro736Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KU77|B9EG59|G5E9N4|Q8TCN1	Missense_Mutation	SNP	ENST00000334197.7	37	CCDS33097.1	.	.	.	.	.	.	.	.	.	.	G	14.27	2.486058	0.44147	.	.	ENSG00000197937	ENST00000334197;ENST00000452676	T;T	0.16897	2.31;2.31	2.64	-0.0406	0.13871	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.36054	0.0953	M	0.76574	2.34	0.09310	N	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.981	T	0.11036	-1.0604	9	0.87932	D	0	.	6.5531	0.22446	0.3119:0.0:0.6881:0.0	.	737;736	G5E9N4;Q96SE7	.;ZN347_HUMAN	T	736;737	ENSP00000334146:P736T;ENSP00000405218:P737T	ENSP00000334146:P736T	P	-	1	0	ZNF347	58335687	0.348000	0.24861	0.000000	0.03702	0.251000	0.25915	1.732000	0.38146	-0.074000	0.12820	0.655000	0.94253	CCT		0.423	ZNF347-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000464170.1	NM_032584		T	53643875	G	T	53643875	3	4	606	1	0	0	0	0	1	0	0	0	17873	1261	44	4	317	4	ZNF347	19	53643875	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	2125109	53643875	5485108	203	36699										
MYADM	91663	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	54377552	54377552	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tctatgccaccgcccttgttCtctggcccctctaccagttc	6	18	3	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:54377552C>T	ENST00000391769.2	+	3	1049	c.769C>T	c.(769-771)Ctc>Ttc	p.L257F	MYADM_ENST00000391768.2_Missense_Mutation_p.L257F|MYADM_ENST00000391771.1_Missense_Mutation_p.L257F|AC008440.5_ENST00000413496.2_RNA|MYADM_ENST00000391770.4_Missense_Mutation_p.L257F|MYADM_ENST00000336967.3_Missense_Mutation_p.L257F	NM_001020821.1	NP_001018657.1	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	257	MARVEL 2. {ECO:0000255|PROSITE- ProRule:PRU00581}.				establishment of endothelial barrier (GO:0061028)|membrane raft organization (GO:0031579)|negative regulation of actin filament polymerization (GO:0030837)|negative regulation of gene expression (GO:0010629)|negative regulation of heterotypic cell-cell adhesion (GO:0034115)|negative regulation of protein kinase C signaling (GO:0090038)|negative regulation of protein phosphorylation (GO:0001933)|positive regulation of cell migration (GO:0030335)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|protein targeting to plasma membrane (GO:0072661)	cell-cell junction (GO:0005911)|cortical actin cytoskeleton (GO:0030864)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)|ruffle (GO:0001726)				central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(4)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	12	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)		CGCCCTTGTTCTCTGGCCCCT	0.622																																																0													84	77	79					19																	54377552		2203	4300	6503	SO:0001583	missense	91663			AF087882	CCDS12866.1	19q13.33-q13.4	2004-07-23			ENSG00000179820	ENSG00000179820			7544	protein-coding gene	gene with protein product		609959				10733104, 12075932	Standard	NM_001020818		Approved		uc002qcl.3	Q96S97	OTTHUMG00000060775	ENST00000391769.2:c.769C>T	19.37:g.54377552C>T	ENSP00000375649:p.Leu257Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE58|Q542Z1|Q7Z507|Q8N9R4|Q96CS6|Q96SK9	Missense_Mutation	SNP	ENST00000391769.2	37	CCDS12866.1	.	.	.	.	.	.	.	.	.	.	C	12.50	1.957420	0.34565	.	.	ENSG00000179820	ENST00000336967;ENST00000391770;ENST00000439000;ENST00000391771;ENST00000415619;ENST00000391769;ENST00000391768	T;T;T;T;T;T	0.25912	1.77;1.77;1.77;1.77;1.77;1.77	4.3	0.655	0.17839	Marvel (1);MARVEL-like domain (1);	0.516121	0.18617	N	0.135981	T	0.48187	0.1486	M	0.85542	2.76	0.44447	D	0.997374	D	0.71674	0.998	D	0.71656	0.974	T	0.45527	-0.9255	10	0.87932	D	0	-12.2374	7.6235	0.28200	0.472:0.3744:0.1536:0.0	.	257	Q96S97	MYADM_HUMAN	F	257;257;257;257;220;257;257	ENSP00000337222:L257F;ENSP00000375650:L257F;ENSP00000416919:L257F;ENSP00000375651:L257F;ENSP00000375649:L257F;ENSP00000375648:L257F	ENSP00000337222:L257F	L	+	1	0	MYADM	59069364	0.029000	0.19370	0.419000	0.26584	0.201000	0.24016	-0.708000	0.05035	0.027000	0.15297	0.305000	0.20034	CTC		0.622	MYADM-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000134337.1	NM_138373		T	54377552	C	T	54377552	3	4	606	1	0	0	0	0	1	0	0	0	10013	913	32	2	771	2	MYADM	19	54377552	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	733677	54377552	4751431	204	36700										
NLRP7	199713	broad.mit.edu	37	chr19	55450843	55450843	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cggaggatgtctccgtccagGaacagacggaggtcggactc	15	11	1	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:55450843G>A	ENST00000590030.1	-	3	1384	c.1344C>T	c.(1342-1344)ttC>ttT	p.F448F	NLRP7_ENST00000328092.5_Silent_p.F448F|NLRP7_ENST00000446217.1_Silent_p.F476F|NLRP7_ENST00000592784.1_Silent_p.F448F|NLRP7_ENST00000588756.1_Silent_p.F448F|NLRP7_ENST00000448121.2_Silent_p.F448F|NLRP7_ENST00000340844.2_Silent_p.F448F			Q8WX94	NALP7_HUMAN	NLR family, pyrin domain containing 7	448	NACHT. {ECO:0000255|PROSITE- ProRule:PRU00136}.						ATP binding (GO:0005524)			autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(17)|liver(1)|lung(33)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(3)	73				GBM - Glioblastoma multiforme(193;0.0325)		CTCCGTCCAGGAACAGACGGA	0.627																																																0													35	32	33					19																	55450843		2203	4298	6501	SO:0001819	synonymous_variant	199713			AF464765	CCDS12912.1, CCDS33109.1, CCDS46183.1	19q13.42	2008-02-05	2006-12-08	2006-12-08		ENSG00000167634		"Nucleotide-binding domain and leucine rich repeat containing"	22947	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 7"	609661	"NACHT, leucine rich repeat and PYD containing 7"	NALP7		12563287, 12019269	Standard	NM_139176		Approved	PYPAF3, NOD12, PAN7, CLR19.4	uc002qii.4	Q8WX94		ENST00000590030.1:c.1344C>T	19.37:g.55450843G>A		Somatic		WXS	Illumina HiSeq	Phase_I	E9PE16|Q32MH8|Q7RTR1	Silent	SNP	ENST00000590030.1	37	CCDS33109.1																																																																																				0.627	NLRP7-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000451396.1	NM_139176		A	55450843	G	A	55450843	2	1	606	1	0	0	0	0	0	0	0	1	10489	1165	41	2		2	NLRP7	19	55450843	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	1073291	55450843	3678140	205	36701										
GALP	85569	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	56694579	56694579	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gtttgccaaaccagagattgGaggtaaagccaggaaacaca	11	8	0	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:56694579G>C	ENST00000357330.2	+	5	375	c.293G>C	c.(292-294)gGa>gCa	p.G98A	GALP_ENST00000440823.1_3'UTR	NM_033106.3	NP_149097.1	Q9UBC7	GALP_HUMAN	galanin-like peptide	98					behavioral response to starvation (GO:0042595)|defense response to bacterium (GO:0042742)|neuropeptide signaling pathway (GO:0007218)|regulation of appetite (GO:0032098)|response to insulin (GO:0032868)	extracellular region (GO:0005576)				lung(4)	4		Colorectal(82;0.000147)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0507)		CCAGAGATTGGAGGTAAAGCC	0.507																																																0													94	88	90					19																	56694579		2203	4300	6503	SO:0001583	missense	85569			AF188493	CCDS12940.1, CCDS46202.1	19q13.42	2013-02-26	2007-08-24			ENSG00000197487		"Endogenous ligands"	24840	protein-coding gene	gene with protein product		611178				10601261	Standard	NM_033106		Approved		uc002qmo.1	Q9UBC7		ENST00000357330.2:c.293G>C	19.37:g.56694579G>C	ENSP00000349884:p.Gly98Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A1KXL3	Missense_Mutation	SNP	ENST00000357330.2	37	CCDS12940.1	.	.	.	.	.	.	.	.	.	.	G	11.60	1.687848	0.29962	.	.	ENSG00000197487	ENST00000357330	T	0.60797	0.16	2.07	0.986	0.19784	.	.	.	.	.	T	0.35508	0.0934	L	0.32530	0.975	0.80722	D	1	B	0.33266	0.404	B	0.18561	0.022	T	0.07597	-1.0764	9	0.25106	T	0.35	-6.1554	6.4753	0.22033	0.0:0.3481:0.6519:0.0	.	98	Q9UBC7	GALP_HUMAN	A	98	ENSP00000349884:G98A	ENSP00000349884:G98A	G	+	2	0	GALP	61386391	0.945000	0.32115	0.166000	0.22797	0.024000	0.10985	0.450000	0.21762	0.410000	0.25675	0.591000	0.81541	GGA		0.507	GALP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000457832.1	NM_033106		C	56694579	G	C	56694579	3	2	606	1	0	0	0	0	1	0	0	0	6233	1174	41	4	307	4	GALP	19	56694579	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	1243736	56694579	2434404	206	36702										
USP29	57663	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	57641187	57641187	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	agtttttaggtcagtgtttaGaccagctgaaagaagacatg	11	5	1	4			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr19:57641187G>C	ENST00000254181.4	+	4	1598	c.1144G>C	c.(1144-1146)Gac>Cac	p.D382H	USP29_ENST00000598197.1_Missense_Mutation_p.D382H	NM_020903.2	NP_065954.1	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	382	USP.				ubiquitin-dependent protein catabolic process (GO:0006511)		cysteine-type peptidase activity (GO:0008234)|ubiquitin thiolesterase activity (GO:0004221)			breast(3)|endometrium(4)|kidney(3)|large_intestine(15)|lung(47)|ovary(2)|pancreas(1)|prostate(2)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	85		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)		TCAGTGTTTAGACCAGCTGAA	0.368																																																0													58	58	58					19																	57641187		2203	4298	6501	SO:0001583	missense	57663				CCDS33124.1	19q13.4	2008-06-23	2005-08-08			ENSG00000131864		"Ubiquitin-specific peptidases"	18563	protein-coding gene	gene with protein product		609546	"ubiquitin specific protease 29"			12838346	Standard	NM_020903		Approved		uc002qny.3	Q9HBJ7		ENST00000254181.4:c.1144G>C	19.37:g.57641187G>C	ENSP00000254181:p.Asp382His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000254181.4	37	CCDS33124.1	.	.	.	.	.	.	.	.	.	.	G	14.62	2.588551	0.46110	.	.	ENSG00000131864	ENST00000254181	T	0.78595	-1.19	2.44	2.44	0.29823	Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2 (2);	0.617223	0.13416	U	0.389500	D	0.87688	0.6240	M	0.85630	2.765	0.29467	N	0.857365	D	0.89917	1.0	D	0.76575	0.988	T	0.80843	-0.1201	10	0.87932	D	0	-5.0112	11.0121	0.47669	0.0:0.0:1.0:0.0	.	382	Q9HBJ7	UBP29_HUMAN	H	382	ENSP00000254181:D382H	ENSP00000254181:D382H	D	+	1	0	USP29	62332999	1.000000	0.71417	1.000000	0.80357	0.972000	0.66771	3.330000	0.52068	1.646000	0.50622	0.591000	0.81541	GAC		0.368	USP29-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465075.1			C	57641187	G	C	57641187	3	2	606	1	0	0	0	0	1	0	0	0	17071	942	33	4	1146	4	USP29	19	57641187	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	946608	57641187	1487796	207	36703										
C20orf46	55321	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	1161561	1161561	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ttctccaccagggcctggccCccatccccattgagctgtct	8	18	2	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr20:1161561C>T	ENST00000381894.3	-	2	1373	c.702G>A	c.(700-702)ggG>ggA	p.G234G	TMEM74B_ENST00000481747.1_5'Flank	NM_018354.1	NP_060824.1	Q9NUR3	TM74B_HUMAN	transmembrane protein 74B	234						integral component of membrane (GO:0016021)											GGGCCTGGCCCCCATCCCCAT	0.592																																																0													80	73	75					20																	1161561		2203	4300	6503	SO:0001819	synonymous_variant	55321			AK002052	CCDS13011.1	20p13	2011-11-23	2011-11-23	2011-11-23	ENSG00000125895	ENSG00000125895			15893	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 46"	C20orf46			Standard	XM_005260748		Approved	FLJ11190	uc002weq.1	Q9NUR3	OTTHUMG00000031655	ENST00000381894.3:c.702G>A	20.37:g.1161561C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DVW5	Silent	SNP	ENST00000381894.3	37	CCDS13011.1																																																																																				0.592	TMEM74B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077496.2	NM_018354		T	1161561	C	T	1161561	2	4	606	1	0	0	0	0	0	0	0	1	2115	610	22	2		2	C20orf46	20	1161561	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08		1161561	61863959	208	36704										
CHD6	84181	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	40033767	40033767	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gtggttgccatgggtggactGaggagtcccccaacaccaaa	13	11	0	1	rs559201396		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr20:40033767G>A	ENST00000373233.3	-	37	7791	c.7614C>T	c.(7612-7614)ctC>ctT	p.L2538L	CHD6_ENST00000480022.1_5'UTR	NM_032221.3	NP_115597.3	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	2538					ATP catabolic process (GO:0006200)|chromatin modification (GO:0016568)|positive regulation of transcription from RNA polymerase II promoter in response to oxidative stress (GO:0036091)|transcription, DNA-templated (GO:0006351)	nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|DNA-dependent ATPase activity (GO:0008094)|transcription cofactor binding (GO:0001221)			breast(8)|central_nervous_system(2)|cervix(2)|endometrium(5)|kidney(4)|large_intestine(24)|lung(53)|ovary(8)|prostate(5)|skin(8)|stomach(1)|urinary_tract(9)	129		Myeloproliferative disorder(115;0.00425)				TGGGTGGACTGAGGAGTCCCC	0.557																																																0													90	83	85					20																	40033767		2203	4300	6503	SO:0001819	synonymous_variant	84181			AF525085	CCDS13317.1	20q12	2003-03-07			ENSG00000124177	ENSG00000124177			19057	protein-coding gene	gene with protein product						11889561	Standard	NM_032221		Approved	KIAA1335, FLJ22369, dJ620E11.1, CHD5, RIGB	uc002xka.1	Q8TD26	OTTHUMG00000032487	ENST00000373233.3:c.7614C>T	20.37:g.40033767G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JYQ0|Q5TGZ9|Q5TH00|Q5TH01|Q8IZR2|Q8WTY0|Q9H4H6|Q9H6D4|Q9NTT7|Q9P2L1	Silent	SNP	ENST00000373233.3	37	CCDS13317.1																																																																																				0.557	CHD6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079270.1			A	40033767	G	A	40033767	2	1	606	1	0	0	0	0	0	0	0	1	3331	1277	45	2		2	CHD6	20	40033767	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	38872206	40033767	22991753	209	36705										
CHD6	84181	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	40050320	40050320	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gttcattttcaagggactctGaagtcctactcatttgagaa	8	8	4	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr20:40050320G>A	ENST00000373233.3	-	31	5132	c.4955C>T	c.(4954-4956)tCa>tTa	p.S1652L		NM_032221.3	NP_115597.3	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1652					ATP catabolic process (GO:0006200)|chromatin modification (GO:0016568)|positive regulation of transcription from RNA polymerase II promoter in response to oxidative stress (GO:0036091)|transcription, DNA-templated (GO:0006351)	nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|DNA-dependent ATPase activity (GO:0008094)|transcription cofactor binding (GO:0001221)			breast(8)|central_nervous_system(2)|cervix(2)|endometrium(5)|kidney(4)|large_intestine(24)|lung(53)|ovary(8)|prostate(5)|skin(8)|stomach(1)|urinary_tract(9)	129		Myeloproliferative disorder(115;0.00425)				AAGGGACTCTGAAGTCCTACT	0.398																																																0													59	61	60					20																	40050320		2203	4300	6503	SO:0001583	missense	84181			AF525085	CCDS13317.1	20q12	2003-03-07			ENSG00000124177	ENSG00000124177			19057	protein-coding gene	gene with protein product						11889561	Standard	NM_032221		Approved	KIAA1335, FLJ22369, dJ620E11.1, CHD5, RIGB	uc002xka.1	Q8TD26	OTTHUMG00000032487	ENST00000373233.3:c.4955C>T	20.37:g.40050320G>A	ENSP00000362330:p.Ser1652Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JYQ0|Q5TGZ9|Q5TH00|Q5TH01|Q8IZR2|Q8WTY0|Q9H4H6|Q9H6D4|Q9NTT7|Q9P2L1	Missense_Mutation	SNP	ENST00000373233.3	37	CCDS13317.1	.	.	.	.	.	.	.	.	.	.	G	11.57	1.677648	0.29783	.	.	ENSG00000124177	ENST00000373233	T	0.70164	-0.46	6.17	4.2	0.49525	.	0.656538	0.13852	N	0.358262	T	0.48003	0.1476	L	0.27053	0.805	0.58432	D	0.999999	B	0.02656	0.0	B	0.08055	0.003	T	0.41070	-0.9529	10	0.23891	T	0.37	-2.5172	4.8034	0.13308	0.0851:0.301:0.5012:0.1128	.	1652	Q8TD26	CHD6_HUMAN	L	1652	ENSP00000362330:S1652L	ENSP00000362330:S1652L	S	-	2	0	CHD6	39483734	0.819000	0.29175	1.000000	0.80357	0.984000	0.73092	1.588000	0.36633	1.633000	0.50488	0.655000	0.94253	TCA		0.398	CHD6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079270.1			A	40050320	G	A	40050320	3	1	606	1	0	0	0	0	1	0	0	0	3331	1294	45	2	3220	2	CHD6	20	40050320	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	16553	40050320	22975200	210	36706										
PTPN1	5770	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	49195155	49195155	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ccttctgtctggctgataccTgcctcttgctggtaaggagg	12	11	3	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr20:49195155T>G	ENST00000371621.3	+	6	865	c.691T>G	c.(691-693)Tgc>Ggc	p.C231G	PTPN1_ENST00000541713.1_Missense_Mutation_p.C158G|RP4-530I15.9_ENST00000431019.1_RNA	NM_001278618.1|NM_002827.2	NP_001265547.1|NP_002818.1	P18031	PTN1_HUMAN	protein tyrosine phosphatase, non-receptor type 1	231	Tyrosine-protein phosphatase. {ECO:0000255|PROSITE-ProRule:PRU00160}.				actin cytoskeleton reorganization (GO:0031532)|blood coagulation (GO:0007596)|cytokine-mediated signaling pathway (GO:0019221)|endoplasmic reticulum unfolded protein response (GO:0030968)|insulin receptor signaling pathway (GO:0008286)|interferon-gamma-mediated signaling pathway (GO:0060333)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|negative regulation of ERK1 and ERK2 cascade (GO:0070373)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030948)|peptidyl-tyrosine dephosphorylation (GO:0035335)|peptidyl-tyrosine dephosphorylation involved in inactivation of protein kinase activity (GO:1990264)|platelet activation (GO:0030168)|platelet-derived growth factor receptor-beta signaling pathway (GO:0035791)|regulation of endocytosis (GO:0030100)|regulation of hepatocyte growth factor receptor signaling pathway (GO:1902202)|regulation of interferon-gamma-mediated signaling pathway (GO:0060334)|regulation of signal transduction (GO:0009966)|regulation of type I interferon-mediated signaling pathway (GO:0060338)|type I interferon signaling pathway (GO:0060337)	cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|early endosome (GO:0005769)|endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)|sorting endosome (GO:0097443)	enzyme binding (GO:0019899)|ephrin receptor binding (GO:0046875)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)|protein tyrosine phosphatase activity (GO:0004725)|receptor tyrosine kinase binding (GO:0030971)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(5)|skin(2)	16		Lung NSC(126;0.163)			Tiludronate(DB01133)	GGCTGATACCTGCCTCTTGCT	0.597																																																0													47	48	48					20																	49195155		2203	4300	6503	SO:0001583	missense	5770				CCDS13430.1, CCDS63309.1	20q13.1-q13.2	2011-06-09			ENSG00000196396	ENSG00000196396		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Non-receptor"	9642	protein-coding gene	gene with protein product		176885		PTP1B		2164224	Standard	NM_002827		Approved		uc002xvl.3	P18031	OTTHUMG00000032729	ENST00000371621.3:c.691T>G	20.37:g.49195155T>G	ENSP00000360683:p.Cys231Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TGD8|Q9BQV9|Q9NQQ4	Missense_Mutation	SNP	ENST00000371621.3	37	CCDS13430.1	.	.	.	.	.	.	.	.	.	.	T	23.8	4.457273	0.84317	.	.	ENSG00000196396	ENST00000371621;ENST00000541713	D;D	0.83250	-1.7;-1.7	5.24	5.24	0.73138	Protein-tyrosine phosphatase, receptor/non-receptor type (3);Protein-tyrosine/Dual-specificity phosphatase (1);	0.000000	0.85682	D	0.000000	D	0.91408	0.7289	M	0.84082	2.675	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	D	0.92757	0.6221	10	0.87932	D	0	.	15.139	0.72595	0.0:0.0:0.0:1.0	.	231	P18031	PTN1_HUMAN	G	231;158	ENSP00000360683:C231G;ENSP00000437732:C158G	ENSP00000360683:C231G	C	+	1	0	PTPN1	48628562	1.000000	0.71417	0.997000	0.53966	0.975000	0.68041	7.977000	0.88081	1.979000	0.57680	0.379000	0.24179	TGC		0.597	PTPN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079694.2			G	49195155	T	G	49195155	3	3	606	1	0	0	0	0	1	0	0	0	12790	1580	55	5	713	5	PTPN1	20	49195155	Missense_Mutation	SNP	T	TCGA-HE-7130-01A-11D-1961-08	9144835	49195155	13830365	211	36707										
HRH3	11255	broad.mit.edu	37	chr20	60791561	60791561	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cggcctcagcgcctacggccGcctcacccaccccatacctg	8	22	2	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr20:60791561G>A	ENST00000340177.5	-	3	1123	c.839C>T	c.(838-840)gCg>gTg	p.A280V	HRH3_ENST00000317393.6_Missense_Mutation_p.A280V	NM_007232.2	NP_009163.2	Q9Y5N1	HRH3_HUMAN	histamine receptor H3	280			A -> V (in one Shy-Drager syndrome patient; rare variant with unknown pathological significance). {ECO:0000269|PubMed:11956964}.		brain development (GO:0007420)|drinking behavior (GO:0042756)|eating behavior (GO:0042755)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|learning (GO:0007612)|memory (GO:0007613)|negative regulation of adenylate cyclase activity (GO:0007194)|negative regulation of blood pressure (GO:0045776)|negative regulation of gamma-aminobutyric acid secretion (GO:0014053)|negative regulation of glutamate secretion (GO:0014050)|negative regulation of serotonin secretion (GO:0014063)|neurotransmitter secretion (GO:0007269)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of epithelial cell proliferation (GO:0050679)|regulation of norepinephrine secretion (GO:0014061)|response to organic cyclic compound (GO:0014070)	integral component of plasma membrane (GO:0005887)|myelin sheath (GO:0043209)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)	drug binding (GO:0008144)|histamine receptor activity (GO:0004969)			breast(1)|endometrium(1)|lung(4)|skin(2)|upper_aerodigestive_tract(1)	9	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;7.08e-07)		Betahistine(DB06698)|Histamine Phosphate(DB00667)|Mirtazapine(DB00370)	GCCTACGGCCGCCTCACCCAC	0.756																																																0													4	5	5					20																	60791561		1932	3885	5817	SO:0001583	missense	11255			AF140538	CCDS13493.1	20q13.33	2013-09-19			ENSG00000101180	ENSG00000101180		"GPCR / Class A : Histamine receptors"	5184	protein-coding gene	gene with protein product		604525				10347254	Standard	NM_007232		Approved	GPCR97	uc002ycf.2	Q9Y5N1	OTTHUMG00000032899	ENST00000340177.5:c.839C>T	20.37:g.60791561G>A	ENSP00000342560:p.Ala280Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q4QRI7|Q9GZX2|Q9H4K8	Missense_Mutation	SNP	ENST00000340177.5	37	CCDS13493.1	.	.	.	.	.	.	.	.	.	.	G	2.089	-0.408938	0.04799	.	.	ENSG00000101180	ENST00000340177;ENST00000317393;ENST00000370797	T;T	0.67171	-0.22;-0.25	3.29	-2.86	0.05717	GPCR, rhodopsin-like superfamily (1);	0.819050	0.10671	U	0.647521	T	0.51958	0.1705	L	0.54323	1.7	0.09310	N	1	B;B	0.13594	0.007;0.008	B;B	0.10450	0.003;0.005	T	0.37126	-0.9719	10	0.28530	T	0.3	-9.5065	3.3454	0.07133	0.2806:0.0:0.4203:0.2991	.	280;280	Q9Y5N1-2;Q9Y5N1	.;HRH3_HUMAN	V	280;280;250	ENSP00000342560:A280V;ENSP00000321482:A280V	ENSP00000321482:A280V	A	-	2	0	HRH3	60224956	0.000000	0.05858	0.005000	0.12908	0.076000	0.17211	-0.457000	0.06745	-0.559000	0.06110	0.205000	0.17691	GCG		0.756	HRH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079994.1	NM_007232		A	60791561	G	A	60791561	3	1	606	1	0	0	0	0	1	0	0	0	7364	1087	38	1	502	1	HRH3	20	60791561	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	11596406	60791561	2233959	212	36708										
DIP2A	23181	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	47978259	47978259	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tgggcctgccggcccgcgccGtaagcaccacgttcgggtgc	15	16	0	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr21:47978259G>A	ENST00000417564.2	+	32	3943	c.3922G>A	c.(3922-3924)Gta>Ata	p.V1308I	DIP2A_ENST00000400274.1_Missense_Mutation_p.V1304I|DIP2A_ENST00000318711.7_Missense_Mutation_p.V1309I			Q14689	DIP2A_HUMAN	DIP2 disco-interacting protein 2 homolog A (Drosophila)	1308					multicellular organismal development (GO:0007275)|negative regulation of gene expression (GO:0010629)|regulation of apoptotic process (GO:0042981)	cell surface (GO:0009986)|nucleus (GO:0005634)	catalytic activity (GO:0003824)			cervix(1)|endometrium(7)|kidney(2)|large_intestine(6)|lung(22)|ovary(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	43	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		GGCCCGCGCCGTAAGCACCAC	0.657																																																0													14	19	17					21																	47978259		2050	4184	6234	SO:0001583	missense	23181			AF490768	CCDS46655.1, CCDS46656.1, CCDS46657.1, CCDS54490.1, CCDS54491.1	21q22.3	2010-08-20	2006-01-13	2006-01-13	ENSG00000160305	ENSG00000160305			17217	protein-coding gene	gene with protein product		607711	"chromosome 21 open reading frame 106"	C21orf106			Standard	NM_015151		Approved	Dip2, KIAA0184	uc002zjo.2	Q14689	OTTHUMG00000090717	ENST00000417564.2:c.3922G>A	21.37:g.47978259G>A	ENSP00000392066:p.Val1308Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6P4T3|B4E0F0|E7EMA5|Q8IVA3|Q8N4S2|Q8TD89|Q96ML9	Missense_Mutation	SNP	ENST00000417564.2	37	CCDS46655.1	.	.	.	.	.	.	.	.	.	.	G	27.5	4.832722	0.91036	.	.	ENSG00000160305	ENST00000400274;ENST00000318711;ENST00000417564	T;T;T	0.38887	1.11;1.11;1.11	5.2	5.2	0.72013	AMP-dependent synthetase/ligase (1);	0.000000	0.64402	D	0.000001	T	0.56202	0.1969	L	0.52011	1.625	0.80722	D	1	D;D;D	0.89917	1.0;0.999;0.984	D;D;D	0.87578	0.998;0.993;0.938	T	0.47649	-0.9101	10	0.08599	T	0.76	-22.8966	17.7235	0.88359	0.0:0.0:1.0:0.0	.	1309;99;1308	E9PER1;Q9NSX6;Q14689	.;.;DIP2A_HUMAN	I	1304;1309;1308	ENSP00000383133:V1304I;ENSP00000323633:V1309I;ENSP00000392066:V1308I	ENSP00000323633:V1309I	V	+	1	0	DIP2A	46802687	1.000000	0.71417	0.986000	0.45419	0.838000	0.47535	9.680000	0.98651	2.430000	0.82344	0.557000	0.71058	GTA		0.657	DIP2A-012	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000376736.1	NM_015151		A	47978259	G	A	47978259	3	1	606	1	0	0	0	0	1	0	0	0	4529	1145	40	1	4161	1	DIP2A	21	47978259	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08		47978259	151636	213	36709										
SERPIND1	3053	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	21140297	21140297	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tccttttctgtctagaactcGagaagtgcttctgccgaaat	8	10	3	2	rs368023291		TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr22:21140297G>A	ENST00000215727.5	+	4	1452	c.1169G>A	c.(1168-1170)cGa>cAa	p.R390Q	PI4KA_ENST00000572273.1_Intron|PI4KA_ENST00000255882.6_Intron|PI4KA_ENST00000466162.1_Intron|SERPIND1_ENST00000406799.1_Missense_Mutation_p.R390Q	NM_000185.3	NP_000176.2	P05546	HEP2_HUMAN	serpin peptidase inhibitor, clade D (heparin cofactor), member 1	390					blood coagulation (GO:0007596)|chemotaxis (GO:0006935)|negative regulation of endopeptidase activity (GO:0010951)|regulation of proteolysis (GO:0030162)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	endopeptidase inhibitor activity (GO:0004866)|heparin binding (GO:0008201)|serine-type endopeptidase inhibitor activity (GO:0004867)			breast(2)|endometrium(3)|kidney(1)|large_intestine(2)|lung(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	13	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)|Sulodexide(DB06271)	TCTAGAACTCGAGAAGTGCTT	0.423																																																0								G	GLN/ARG,	0,4406		0,0,2203	130	134	132		1169,	5.3	1	22		132	1,8599	1.2+/-3.3	0,1,4299	no	missense,intron	SERPIND1,PI4KA	NM_000185.3,NM_058004.3	43,	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging,	390/500,	21140297	1,13005	2203	4300	6503	SO:0001583	missense	3053			M12849	CCDS13783.1	22q11.21	2014-02-18	2005-08-18		ENSG00000099937	ENSG00000099937		"Serine (or cysteine) peptidase inhibitors"	4838	protein-coding gene	gene with protein product	"heparin cofactor II"	142360	"serine (or cysteine) proteinase inhibitor, clade D (heparin cofactor), member 1"	HCF2		1671335, 24172014	Standard	XM_005261597		Approved	HC-II, HLS2, HC2, D22S673	uc002ztb.1	P05546	OTTHUMG00000150755	ENST00000215727.5:c.1169G>A	22.37:g.21140297G>A	ENSP00000215727:p.Arg390Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAI1|D3DX34|Q6IBZ5	Missense_Mutation	SNP	ENST00000215727.5	37	CCDS13783.1	.	.	.	.	.	.	.	.	.	.	G	32	5.164332	0.94727	0.0	1.16E-4	ENSG00000099937	ENST00000215727;ENST00000406799	D;D	0.87650	-2.28;-2.28	5.28	5.28	0.74379	Serpin domain (3);	0.000000	0.85682	D	0.000000	D	0.93032	0.7782	M	0.73962	2.25	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.66979	0.948;0.948	D	0.92954	0.6383	10	0.56958	D	0.05	.	19.0957	0.93249	0.0:0.0:1.0:0.0	.	390;390	Q8IVC0;P05546	.;HEP2_HUMAN	Q	390	ENSP00000215727:R390Q;ENSP00000384050:R390Q	ENSP00000215727:R390Q	R	+	2	0	SERPIND1	19470297	1.000000	0.71417	0.988000	0.46212	0.855000	0.48748	8.835000	0.92100	2.755000	0.94549	0.655000	0.94253	CGA		0.423	SERPIND1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319961.1	NM_000185		A	21140297	G	A	21140297	3	1	606	1	0	0	0	0	1	0	0	0	14123	1058	37	1	1179	1	SERPIND1	22	21140297	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08		21140297	30164269	214	36710										
SERPIND1	3053	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	21140328	21140328	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctgccgaaattcaagctggaGaagaactacaatctagtgga	10	8	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr22:21140328G>A	ENST00000215727.5	+	4	1483	c.1200G>A	c.(1198-1200)gaG>gaA	p.E400E	PI4KA_ENST00000572273.1_Intron|PI4KA_ENST00000255882.6_Intron|PI4KA_ENST00000466162.1_Intron|SERPIND1_ENST00000406799.1_Silent_p.E400E	NM_000185.3	NP_000176.2	P05546	HEP2_HUMAN	serpin peptidase inhibitor, clade D (heparin cofactor), member 1	400					blood coagulation (GO:0007596)|chemotaxis (GO:0006935)|negative regulation of endopeptidase activity (GO:0010951)|regulation of proteolysis (GO:0030162)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	endopeptidase inhibitor activity (GO:0004866)|heparin binding (GO:0008201)|serine-type endopeptidase inhibitor activity (GO:0004867)			breast(2)|endometrium(3)|kidney(1)|large_intestine(2)|lung(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	13	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)|Sulodexide(DB06271)	TCAAGCTGGAGAAGAACTACA	0.448																																																0													171	164	166					22																	21140328		2203	4300	6503	SO:0001819	synonymous_variant	3053			M12849	CCDS13783.1	22q11.21	2014-02-18	2005-08-18		ENSG00000099937	ENSG00000099937		"Serine (or cysteine) peptidase inhibitors"	4838	protein-coding gene	gene with protein product	"heparin cofactor II"	142360	"serine (or cysteine) proteinase inhibitor, clade D (heparin cofactor), member 1"	HCF2		1671335, 24172014	Standard	XM_005261597		Approved	HC-II, HLS2, HC2, D22S673	uc002ztb.1	P05546	OTTHUMG00000150755	ENST00000215727.5:c.1200G>A	22.37:g.21140328G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RAI1|D3DX34|Q6IBZ5	Silent	SNP	ENST00000215727.5	37	CCDS13783.1																																																																																				0.448	SERPIND1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319961.1	NM_000185		A	21140328	G	A	21140328	2	1	606	1	0	0	0	0	0	0	0	1	14123	933	33	2		2	SERPIND1	22	21140328	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	31	21140328	30164238	215	36711										
SEZ6L	23544	broad.mit.edu	37	chr22	26702084	26702084	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aagctgcacctgcactttgaGaggctgttgctgcatgacaa	11	10	0	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr22:26702084G>A	ENST00000248933.6	+	6	1583	c.1488G>A	c.(1486-1488)gaG>gaA	p.E496E	SEZ6L_ENST00000529632.2_Silent_p.E496E|SEZ6L_ENST00000343706.4_Silent_p.E496E|SEZ6L_ENST00000404234.3_Silent_p.E496E|SEZ6L_ENST00000360929.3_Silent_p.E496E|SEZ6L_ENST00000402979.1_Silent_p.E269E|SEZ6L_ENST00000403121.1_Silent_p.E269E			Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	496	CUB 2. {ECO:0000255|PROSITE- ProRule:PRU00059}.				adult locomotory behavior (GO:0008344)|cerebellar Purkinje cell layer development (GO:0021680)|regulation of protein kinase C signaling (GO:0090036)|synapse maturation (GO:0060074)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)				breast(1)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(18)|lung(35)|ovary(4)|pancreas(1)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	80						TGCACTTTGAGAGGCTGTTGC	0.517																																																0													58	56	57					22																	26702084		2203	4300	6503	SO:0001819	synonymous_variant	23544			AL050253	CCDS13833.1, CCDS54508.1, CCDS54510.1, CCDS54511.1, CCDS74837.1	22q12.1	2008-05-14	2001-11-28		ENSG00000100095	ENSG00000100095			10763	protein-coding gene	gene with protein product		607021	"seizure related gene 6 (mouse)-like"				Standard	NM_021115		Approved		uc003acb.3	Q9BYH1	OTTHUMG00000150870	ENST00000248933.6:c.1488G>A	22.37:g.26702084G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0AUW7|B0QYG4|B0QYG5|B7ZLJ6|G8JLP3|O95917|Q5THY5|Q6IBZ4|Q6UXD4|Q9NUI3|Q9NUI4|Q9NUI5|Q9Y2E1|Q9Y3J6	Silent	SNP	ENST00000248933.6	37	CCDS13833.1																																																																																				0.517	SEZ6L-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000320359.3			A	26702084	G	A	26702084	2	1	606	1	0	0	0	0	0	0	0	1	14156	933	33	2		2	SEZ6L	22	26702084	Silent	SNP	G	TCGA-HE-7130-01A-11D-1961-08	5561756	26702084	24602482	216	36712										
MCM5	4174	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	35806777	35806777	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tccctgggaacagggttaccAtcatgggcatctactccatc	9	13	2	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr22:35806777A>G	ENST00000216122.4	+	7	947	c.793A>G	c.(793-795)Atc>Gtc	p.I265V	MCM5_ENST00000382011.5_Missense_Mutation_p.I222V	NM_006739.3	NP_006730.2	P33992	MCM5_HUMAN	minichromosome maintenance complex component 5	265					DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA strand elongation involved in DNA replication (GO:0006271)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)	MCM complex (GO:0042555)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(13)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	29						CAGGGTTACCATCATGGGCAT	0.557																																																0													166	144	151					22																	35806777		2203	4300	6503	SO:0001583	missense	4174				CCDS13915.1	22q13.1-q13.2	2007-04-04	2007-04-04		ENSG00000100297	ENSG00000100297			6948	protein-coding gene	gene with protein product		602696	"minichromosome maintenance deficient (S. cerevisiae) 5 (cell division cycle 46)", "MCM5 minichromosome maintenance deficient 5, cell division cycle 46 (S. cerevisiae)"	CDC46		8751386, 10591208	Standard	NM_006739		Approved		uc003anu.4	P33992	OTTHUMG00000150961	ENST00000216122.4:c.793A>G	22.37:g.35806777A>G	ENSP00000216122:p.Ile265Val	Somatic		WXS	Illumina HiSeq	Phase_I	O60785|Q14578|Q9BTJ4|Q9BWL8	Missense_Mutation	SNP	ENST00000216122.4	37	CCDS13915.1	.	.	.	.	.	.	.	.	.	.	A	7.703	0.693600	0.15039	.	.	ENSG00000100297	ENST00000216122;ENST00000382011;ENST00000444582;ENST00000444778	T;T;T	0.03413	3.94;3.94;3.94	5.32	5.32	0.75619	Nucleic acid-binding, OB-fold-like (1);Nucleic acid-binding, OB-fold (1);	0.046124	0.85682	D	0.000000	T	0.02727	0.0082	N	0.11789	0.175	0.58432	D	0.999999	B;B;B;B	0.11235	0.004;0.004;0.004;0.004	B;B;B;B	0.17979	0.009;0.009;0.02;0.009	T	0.48115	-0.9063	10	0.08837	T	0.75	-32.0355	15.5601	0.76237	1.0:0.0:0.0:0.0	.	265;265;222;265	B1AHB0;Q53FG5;B1AHB1;P33992	.;.;.;MCM5_HUMAN	V	265;222;174;122	ENSP00000216122:I265V;ENSP00000371441:I222V;ENSP00000408705:I122V	ENSP00000216122:I265V	I	+	1	0	MCM5	34136777	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	4.001000	0.57046	2.142000	0.66516	0.459000	0.35465	ATC		0.557	MCM5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320661.3			G	35806777	A	G	35806777	3	3	606	1	0	0	0	0	1	0	0	0	9397	217	8	3	815	3	MCM5	22	35806777	Missense_Mutation	SNP	A	TCGA-HE-7130-01A-11D-1961-08	9104693	35806777	15497789	217	36713										
MYH9	4627	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	36696256	36696256	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cgcctcggtggtcaccttctCcagctgcagcttctgccggg	12	16	3	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr22:36696256C>G	ENST00000216181.5	-	23	3123	c.2893G>C	c.(2893-2895)Gag>Cag	p.E965Q		NM_002473.4	NP_002464.1	P35579	MYH9_HUMAN	myosin, heavy chain 9, non-muscle	965					actin cytoskeleton reorganization (GO:0031532)|actin filament-based movement (GO:0030048)|actomyosin structure organization (GO:0031032)|angiogenesis (GO:0001525)|ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|blood vessel endothelial cell migration (GO:0043534)|cytokinesis (GO:0000910)|establishment of meiotic spindle localization (GO:0051295)|establishment of T cell polarity (GO:0001768)|in utero embryonic development (GO:0001701)|integrin-mediated signaling pathway (GO:0007229)|leukocyte migration (GO:0050900)|meiotic spindle organization (GO:0000212)|membrane protein ectodomain proteolysis (GO:0006509)|monocyte differentiation (GO:0030224)|myoblast fusion (GO:0007520)|platelet aggregation (GO:0070527)|platelet formation (GO:0030220)|protein transport (GO:0015031)|regulation of cell shape (GO:0008360)|termination of G-protein coupled receptor signaling pathway (GO:0038032)|uropod organization (GO:0032796)	actin cytoskeleton (GO:0015629)|actomyosin (GO:0042641)|actomyosin contractile ring (GO:0005826)|cell leading edge (GO:0031252)|cell-cell adherens junction (GO:0005913)|cleavage furrow (GO:0032154)|cortical cytoskeleton (GO:0030863)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|immunological synapse (GO:0001772)|membrane (GO:0016020)|myosin II complex (GO:0016460)|myosin II filament (GO:0097513)|neuromuscular junction (GO:0031594)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|ruffle (GO:0001726)|spindle (GO:0005819)|stress fiber (GO:0001725)|uropod (GO:0001931)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microfilament motor activity (GO:0000146)|motor activity (GO:0003774)|poly(A) RNA binding (GO:0044822)|protein anchor (GO:0043495)|protein homodimerization activity (GO:0042803)			NS(1)|breast(8)|central_nervous_system(3)|cervix(2)|endometrium(5)|kidney(4)|large_intestine(16)|lung(29)|ovary(4)|pancreas(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(6)|urinary_tract(3)	86						GTCACCTTCTCCAGCTGCAGC	0.632			T	ALK	ALCL		"Deafness, autosomal dominant 17, Epstein syndrome, Fechtner syndrome, May-Hegglin anomaly, Sebastian syndrome"		Hereditary Macrothrombocytopenia, MYH9-associated																														Dom	yes		22	22q13.1	4627	"myosin, heavy polypeptide 9, non-muscle"	yes	L	0													76	71	73					22																	36696256		2203	4300	6503	SO:0001583	missense	4627	Familial Cancer Database	MYHIIA syndrome, incl. Fechtner Syndrome, FTNS, and May-Hegglin Anomaly, MHA		CCDS13927.1	22q13.1	2014-09-17	2006-09-29		ENSG00000100345	ENSG00000100345		"Myosins / Myosin superfamily : Class II"	7579	protein-coding gene	gene with protein product	"nonmuscle myosin heavy chain II-A"	160775	"myosin, heavy polypeptide 9, non-muscle"	DFNA17		1860190, 11023810	Standard	NM_002473		Approved	NMMHCA, NMHC-II-A, MHA, FTNS, EPSTS	uc003apg.3	P35579	OTTHUMG00000030429	ENST00000216181.5:c.2893G>C	22.37:g.36696256C>G	ENSP00000216181:p.Glu965Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6E4|O60805|Q60FE2|Q86T83	Missense_Mutation	SNP	ENST00000216181.5	37	CCDS13927.1	.	.	.	.	.	.	.	.	.	.	C	35	5.458931	0.96240	.	.	ENSG00000100345	ENST00000337818;ENST00000216181	D	0.92911	-3.13	5.33	5.33	0.75918	.	0.000000	0.85682	D	0.000000	D	0.97517	0.9187	H	0.96889	3.9	0.80722	D	1	D	0.62365	0.991	D	0.65773	0.938	D	0.98548	1.0635	10	0.87932	D	0	.	19.3857	0.94555	0.0:1.0:0.0:0.0	.	965	P35579	MYH9_HUMAN	Q	829;965	ENSP00000216181:E965Q	ENSP00000216181:E965Q	E	-	1	0	MYH9	35026202	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.781000	0.85668	2.665000	0.90641	0.655000	0.94253	GAG		0.632	MYH9-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000259110.3	NM_002473		G	36696256	C	G	36696256	3	3	606	1	0	0	0	0	1	0	0	0	10049	864	30	4	3065	4	MYH9	22	36696256	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	889479	36696256	14608310	218	36714										
HDAC10	83933	hgsc.bcm.edu;broad.mit.edu	37	chr22	50687534	50687534	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	agccctccgtgcagtcacctCaaaggccagtgggagcagca	12	14	2	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chr22:50687534C>G	ENST00000216271.5	-	8	1106	c.754G>C	c.(754-756)Gag>Cag	p.E252Q	HDAC10_ENST00000498366.1_5'UTR|MAPK12_ENST00000497036.1_5'UTR|HDAC10_ENST00000349505.4_Missense_Mutation_p.E252Q|HDAC10_ENST00000448072.1_Missense_Mutation_p.E252Q	NM_001159286.1|NM_032019.5	NP_001152758.1|NP_114408.3	Q969S8	HDA10_HUMAN	histone deacetylase 10	252	Histone deacetylase.				chromatin modification (GO:0016568)|histone deacetylation (GO:0016575)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|Notch signaling pathway (GO:0007219)|oligodendrocyte development (GO:0014003)|protein deacetylation (GO:0006476)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|histone deacetylase complex (GO:0000118)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	enzyme binding (GO:0019899)|histone deacetylase activity (GO:0004407)|histone deacetylase binding (GO:0042826)|NAD-dependent histone deacetylase activity (H3-K14 specific) (GO:0032041)|NAD-dependent histone deacetylase activity (H3-K18 specific) (GO:0097372)|NAD-dependent histone deacetylase activity (H3-K9 specific) (GO:0046969)|NAD-dependent histone deacetylase activity (H4-K16 specific) (GO:0046970)|protein deacetylase activity (GO:0033558)			endometrium(2)|kidney(2)|lung(1)|prostate(1)|skin(1)|urinary_tract(1)	8		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GCAGTCACCTCAAAGGCCAGT	0.642																																																0													41	26	31					22																	50687534		2190	4291	6481	SO:0001583	missense	83933			AF393962	CCDS14088.1, CCDS54545.1	22q13.31	2008-06-10			ENSG00000100429	ENSG00000100429			18128	protein-coding gene	gene with protein product		608544				11677242, 11726666	Standard	NM_032019		Approved	DKFZP761B039	uc003bkg.3	Q969S8	OTTHUMG00000044647	ENST00000216271.5:c.754G>C	22.37:g.50687534C>G	ENSP00000216271:p.Glu252Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q08AP4|Q6STF9|Q96P77|Q96P78|Q9H028|Q9UGX1|Q9UGX2	Missense_Mutation	SNP	ENST00000216271.5	37	CCDS14088.1	.	.	.	.	.	.	.	.	.	.	C	27.6	4.847077	0.91277	.	.	ENSG00000100429	ENST00000216271;ENST00000448072;ENST00000349505	T;T;T	0.69685	-0.42;-0.23;0.57	4.54	4.54	0.55810	Histone deacetylase domain (2);	0.062472	0.64402	D	0.000005	T	0.78033	0.4220	L	0.49455	1.56	0.80722	D	1	D;D;D	0.89917	0.999;1.0;0.96	D;D;P	0.85130	0.97;0.997;0.856	T	0.80369	-0.1411	10	0.66056	D	0.02	-26.0078	17.069	0.86568	0.0:1.0:0.0:0.0	.	252;252;252	Q969S8-2;C9J8B8;Q969S8	.;.;HDA10_HUMAN	Q	252	ENSP00000216271:E252Q;ENSP00000397542:E252Q;ENSP00000343540:E252Q	ENSP00000216271:E252Q	E	-	1	0	HDAC10	49029661	1.000000	0.71417	0.997000	0.53966	0.899000	0.52679	5.208000	0.65203	2.342000	0.79632	0.561000	0.74099	GAG		0.642	HDAC10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000104141.4	NM_032019		G	50687534	C	G	50687534	3	3	606	1	0	0	0	0	1	0	0	0	7012	835	29	4	1307	4	HDAC10	22	50687534	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	13991278	50687534	617032	219	36715										
MAOB	4129	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	43655117	43655117	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctcactcacttgaccagatcCgcccacaaatttcctctcct	3	18	3	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chrX:43655117C>T	ENST00000378069.4	-	7	784	c.637G>A	c.(637-639)Gga>Aga	p.G213R	MAOB_ENST00000536181.1_Missense_Mutation_p.G197R|MAOB_ENST00000487544.1_5'Flank|MAOB_ENST00000538942.1_Missense_Mutation_p.G197R	NM_000898.4	NP_000889.3	P27338	AOFB_HUMAN	monoamine oxidase B	213					negative regulation of serotonin secretion (GO:0014063)|positive regulation of dopamine metabolic process (GO:0045964)|response to aluminum ion (GO:0010044)|response to corticosterone (GO:0051412)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to lipopolysaccharide (GO:0032496)|response to selenium ion (GO:0010269)|response to toxic substance (GO:0009636)|small molecule metabolic process (GO:0044281)|substantia nigra development (GO:0021762)|xenobiotic metabolic process (GO:0006805)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|mitochondrial envelope (GO:0005740)|mitochondrial inner membrane (GO:0005743)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)	electron carrier activity (GO:0009055)|flavin adenine dinucleotide binding (GO:0050660)|primary amine oxidase activity (GO:0008131)			breast(2)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(1)|liver(1)|lung(3)|ovary(1)|prostate(2)|skin(5)	21					Amantadine(DB00915)|Amphetamine(DB00182)|Dopamine(DB00988)|Ephedra(DB01363)|Flavin adenine dinucleotide(DB03147)|Furazolidone(DB00614)|Isocarboxazid(DB01247)|Linezolid(DB00601)|Methamphetamine(DB01577)|Moclobemide(DB01171)|Nandrolone decanoate(DB08804)|Nicotine(DB00184)|Pargyline(DB01626)|Phenelzine(DB00780)|Phentermine(DB00191)|Procaine(DB00721)|Rasagiline(DB01367)|Selegiline(DB01037)|Sertraline(DB01104)|Tranylcypromine(DB00752)|Zonisamide(DB00909)	TGACCAGATCCGCCCACAAAT	0.458																																																0													82	69	74					X																	43655117		2203	4300	6503	SO:0001583	missense	4129				CCDS14261.1	Xp11.4-p11.3	2008-02-05			ENSG00000069535	ENSG00000069535	1.4.3.4		6834	protein-coding gene	gene with protein product		309860					Standard	NM_000898		Approved		uc004dfz.4	P27338	OTTHUMG00000021388	ENST00000378069.4:c.637G>A	X.37:g.43655117C>T	ENSP00000367309:p.Gly213Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6R3|B7Z5H3|D3DWC3|Q7Z6S2	Missense_Mutation	SNP	ENST00000378069.4	37	CCDS14261.1	.	.	.	.	.	.	.	.	.	.	C	26.9	4.778441	0.90195	.	.	ENSG00000069535	ENST00000378069;ENST00000536181;ENST00000538942	T;T;T	0.25085	1.82;1.82;1.82	5.42	5.42	0.78866	Amine oxidase (1);	0.000000	0.85682	D	0.000000	T	0.67306	0.2879	H	0.96861	3.895	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.80054	-0.1543	10	0.87932	D	0	-15.4168	18.5254	0.90969	0.0:1.0:0.0:0.0	.	197;213	B7Z5H3;P27338	.;AOFB_HUMAN	R	213;197;197	ENSP00000367309:G213R;ENSP00000441613:G197R;ENSP00000442240:G197R	ENSP00000367309:G213R	G	-	1	0	MAOB	43540061	1.000000	0.71417	0.991000	0.47740	0.950000	0.60333	7.104000	0.77024	2.404000	0.81709	0.600000	0.82982	GGA		0.458	MAOB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056303.1	NM_000898		T	43655117	C	T	43655117	3	4	606	1	0	0	0	0	1	0	0	0	9233	661	23	1	961	1	MAOB	23	43655117	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08		43655117	111615443	220	36716										
KDM6A	7403	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	44870205	44870205	+	Splice_Site	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	tctttttcccttcctttacaGaatgctgcctttttatatgg	5	10	1	1			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chrX:44870205G>C	ENST00000377967.4	+	5	425		c.e5-1		KDM6A_ENST00000543216.1_Splice_Site|KDM6A_ENST00000382899.4_Splice_Site|KDM6A_ENST00000536777.1_Splice_Site	NM_021140.2	NP_066963.2	O15550	KDM6A_HUMAN	lysine (K)-specific demethylase 6A						canonical Wnt signaling pathway (GO:0060070)|heart morphogenesis (GO:0003007)|histone H3-K4 methylation (GO:0051568)|in utero embryonic development (GO:0001701)|mesodermal cell differentiation (GO:0048333)|multicellular organism growth (GO:0035264)|neural tube closure (GO:0001843)|notochord morphogenesis (GO:0048570)|regulation of gene expression (GO:0010468)|respiratory system process (GO:0003016)|somite rostral/caudal axis specification (GO:0032525)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	dioxygenase activity (GO:0051213)|histone demethylase activity (H3-K27 specific) (GO:0071558)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)	p.0(10)|p.0?(6)|p.?(1)		NS(1)|breast(7)|central_nervous_system(27)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(24)|kidney(24)|large_intestine(9)|liver(1)|lung(21)|oesophagus(11)|pancreas(2)|prostate(5)|skin(1)|soft_tissue(1)|urinary_tract(29)	170						TTCCTTTACAGAATGCTGCCT	0.299			"D, N, F, S"		"renal, oesophageal SCC, MM"																																Colon(129;1273 1667 15230 27352 52914)		Rec	yes		X	Xp11.2	7403	"lysine (K)-specific demethylase 6A, UTX"		"E, L"	17	No detectable mRNA/protein(10)|Whole gene deletion(6)|Unknown(1)	haematopoietic_and_lymphoid_tissue(11)|oesophagus(2)|breast(2)|pancreas(2)											121	102	108					X																	44870205		2203	4299	6502	SO:0001630	splice_region_variant	7403			AF000992	CCDS14265.1	Xp11.2	2014-09-17	2009-04-17	2009-04-17	ENSG00000147050	ENSG00000147050		"Chromatin-modifying enzymes / K-demethylases", "Tetratricopeptide (TTC) repeat domain containing"	12637	protein-coding gene	gene with protein product		300128	"ubiquitously transcribed tetratricopeptide repeat, X chromosome"	UTX		9499428, 9381176	Standard	XM_005272655		Approved		uc004dge.4	O15550	OTTHUMG00000021402	ENST00000377967.4:c.385-1G>C	X.37:g.44870205G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q52LL9|Q5JVQ7	Splice_Site	SNP	ENST00000377967.4	37	CCDS14265.1	.	.	.	.	.	.	.	.	.	.	G	12.63	1.994801	0.35226	.	.	ENSG00000147050	ENST00000377967;ENST00000536777;ENST00000382899;ENST00000543216;ENST00000542299	.	.	.	5.43	5.43	0.79202	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	18.2912	0.90131	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	KDM6A	44755149	1.000000	0.71417	0.995000	0.50966	0.078000	0.17371	9.225000	0.95219	2.258000	0.74832	0.506000	0.49869	.		0.299	KDM6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056324.1	NM_021140	Intron	C	44870205	G	C	44870205	5	2	606	1	0	0	0	0	0	0	1	0	8144	956	33	4	402	4	KDM6A	23	44870205	Splice_Site	SNP	G	TCGA-HE-7130-01A-11D-1961-08	1215088	44870205	110400355	221	36717										
KDM6A	7403	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	44969446	44969447	+	Frame_Shift_Del	DEL	AC	AC	-													0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	gaaaactttgtggtgctagaAcagtacaaaatggaggacct							TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chrX:44969446_44969447delAC	ENST00000377967.4	+	28	4169_4170	c.4128_4129delAC	c.(4126-4131)gaacagfs	p.Q1377fs	KDM6A_ENST00000543216.1_Frame_Shift_Del_p.Q1298fs|KDM6A_ENST00000382899.4_Frame_Shift_Del_p.Q1384fs|KDM6A_ENST00000536777.1_Frame_Shift_Del_p.Q1332fs|KDM6A_ENST00000479423.1_3'UTR	NM_021140.2	NP_066963.2	O15550	KDM6A_HUMAN	lysine (K)-specific demethylase 6A	1377					canonical Wnt signaling pathway (GO:0060070)|heart morphogenesis (GO:0003007)|histone H3-K4 methylation (GO:0051568)|in utero embryonic development (GO:0001701)|mesodermal cell differentiation (GO:0048333)|multicellular organism growth (GO:0035264)|neural tube closure (GO:0001843)|notochord morphogenesis (GO:0048570)|regulation of gene expression (GO:0010468)|respiratory system process (GO:0003016)|somite rostral/caudal axis specification (GO:0032525)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	dioxygenase activity (GO:0051213)|histone demethylase activity (H3-K27 specific) (GO:0071558)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)	p.0?(6)|p.Q1377*(1)		NS(1)|breast(7)|central_nervous_system(27)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(24)|kidney(24)|large_intestine(9)|liver(1)|lung(21)|oesophagus(11)|pancreas(2)|prostate(5)|skin(1)|soft_tissue(1)|urinary_tract(29)	170						TGGTGCTAGAACAGTACAAAAT	0.386			"D, N, F, S"		"renal, oesophageal SCC, MM"																																Colon(129;1273 1667 15230 27352 52914)		Rec	yes		X	Xp11.2	7403	"lysine (K)-specific demethylase 6A, UTX"		"E, L"	7	Whole gene deletion(6)|Substitution - Nonsense(1)	oesophagus(2)|breast(2)|pancreas(2)|urinary_tract(1)																																								SO:0001589	frameshift_variant	7403			AF000992	CCDS14265.1	Xp11.2	2014-09-17	2009-04-17	2009-04-17	ENSG00000147050	ENSG00000147050		"Chromatin-modifying enzymes / K-demethylases", "Tetratricopeptide (TTC) repeat domain containing"	12637	protein-coding gene	gene with protein product		300128	"ubiquitously transcribed tetratricopeptide repeat, X chromosome"	UTX		9499428, 9381176	Standard	XM_005272655		Approved		uc004dge.4	O15550	OTTHUMG00000021402	ENST00000377967.4:c.4128_4129delAC	X.37:g.44969446_44969447delAC	ENSP00000367203:p.Gln1377fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LL9|Q5JVQ7	Frame_Shift_Del	DEL	ENST00000377967.4	37	CCDS14265.1																																																																																				0.386	KDM6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056324.1	NM_021140		-	44969447	AC	-	44969446	7	5	606	1	0	1	0	1	0	0	0	0	8144	40	2	0	4238	0	KDM6A	23	44969446	Frame_Shift_Del	DEL	AC	TCGA-HE-7130-01A-11D-1961-08	99241	44969446	110301114	222	36718										
HUWE1	10075	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	53641559	53641559	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ctgcatggcctgtacttcctCttcctcctcatcctcactag	5	17	3	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chrX:53641559C>T	ENST00000342160.3	-	22	2654	c.2197G>A	c.(2197-2199)Gag>Aag	p.E733K	HUWE1_ENST00000218328.8_Missense_Mutation_p.E733K|HUWE1_ENST00000262854.6_Missense_Mutation_p.E733K			Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1, E3 ubiquitin protein ligase	733					base-excision repair (GO:0006284)|cell differentiation (GO:0030154)|histone ubiquitination (GO:0016574)|protein monoubiquitination (GO:0006513)|protein polyubiquitination (GO:0000209)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	DNA binding (GO:0003677)|ligase activity (GO:0016874)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)			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						TGTACTTCCTCTTCCTCCTCA	0.473																																																0													246	208	221					X																	53641559		2203	4300	6503	SO:0001583	missense	10075			AB071605	CCDS35301.1	Xp11.22	2014-06-09	2012-02-23		ENSG00000086758	ENSG00000086758			30892	protein-coding gene	gene with protein product		300697	"HECT, UBA and WWE domain containing 1"			9205841, 10998601	Standard	NM_031407		Approved	Ib772, KIAA0312, UREB1	uc004dsp.4	Q7Z6Z7	OTTHUMG00000021617	ENST00000342160.3:c.2197G>A	X.37:g.53641559C>T	ENSP00000340648:p.Glu733Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O15029|Q4G2Z2|Q5H961|Q6P4D0|Q8NG67|Q9BUI0|Q9HCJ4|Q9NSL6|Q9P0A9	Missense_Mutation	SNP	ENST00000342160.3	37	CCDS35301.1	.	.	.	.	.	.	.	.	.	.	C	34	5.381036	0.95945	.	.	ENSG00000086758	ENST00000342160;ENST00000262854;ENST00000218328	T;T;T	0.42900	0.96;0.96;0.96	5.46	5.46	0.80206	E3 ubiquitin ligase, domain of unknown function DUF913 (1);	0.137022	0.48286	D	0.000191	T	0.49047	0.1534	L	0.41236	1.265	0.80722	D	1	D	0.53619	0.961	P	0.54544	0.755	T	0.33904	-0.9850	10	0.29301	T	0.29	.	16.9953	0.86366	0.0:1.0:0.0:0.0	.	733	Q7Z6Z7	HUWE1_HUMAN	K	733	ENSP00000340648:E733K;ENSP00000262854:E733K;ENSP00000218328:E733K	ENSP00000218328:E733K	E	-	1	0	HUWE1	53658284	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.068000	0.76748	2.275000	0.75901	0.600000	0.82982	GAG		0.473	HUWE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056766.1	XM_497119		T	53641559	C	T	53641559	3	4	606	1	0	0	0	0	1	0	0	0	7468	922	32	2	11175	2	HUWE1	23	53641559	Missense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	8672113	53641559	101629001	223	36719										
ERCC6L	54821	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	71426809	71426809	+	Nonsense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cagtagtttgtcttattaatGagtccttgaaaacctgtctt	7	7	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chrX:71426809G>C	ENST00000334463.3	-	2	1943	c.1808C>G	c.(1807-1809)tCa>tGa	p.S603*	ERCC6L_ENST00000373657.1_Nonsense_Mutation_p.S480*|PIN4_ENST00000423432.2_Intron	NM_017669.2	NP_060139.2	Q2NKX8	ERC6L_HUMAN	excision repair cross-complementation group 6-like	603	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	cytosol (GO:0005829)|kinetochore (GO:0000776)|membrane (GO:0016020)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)			breast(2)|cervix(1)|endometrium(9)|kidney(4)|large_intestine(9)|lung(9)|ovary(3)|skin(1)	38	Renal(35;0.156)					TCTTATTAATGAGTCCTTGAA	0.348																																																0													101	99	99					X																	71426809		2203	4300	6503	SO:0001587	stop_gained	54821			AK000112	CCDS35329.1	Xq13.1	2014-03-07	2014-03-07		ENSG00000186871	ENSG00000186871			20794	protein-coding gene	gene with protein product	"PLK1-interacting checkpoint helicase"	300687	"excision repair cross-complementing rodent repair deficiency, complementation group 6-like"			17218258	Standard	NM_017669		Approved	FLJ20105, PICH, RAD26L	uc004eaq.1	Q2NKX8	OTTHUMG00000021810	ENST00000334463.3:c.1808C>G	X.37:g.71426809G>C	ENSP00000334675:p.Ser603*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NCI1|Q96H93|Q9NXQ8	Nonsense_Mutation	SNP	ENST00000334463.3	37	CCDS35329.1	.	.	.	.	.	.	.	.	.	.	G	42	9.316536	0.99135	.	.	ENSG00000186871	ENST00000373657;ENST00000334463	.	.	.	5.46	5.46	0.80206	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.45353	T	0.12	-9.103	15.597	0.76590	0.0:0.0:1.0:0.0	.	.	.	.	X	480;603	.	ENSP00000334675:S603X	S	-	2	0	ERCC6L	71343534	1.000000	0.71417	0.937000	0.37676	0.994000	0.84299	7.739000	0.84976	2.279000	0.76181	0.594000	0.82650	TCA		0.348	ERCC6L-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057174.2	NM_017669		C	71426809	G	C	71426809	4	2	606	1	0	0	0	0	0	1	0	0	5220	1294	45	4	1948	4	ERCC6L	23	71426809	Nonsense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	17785250	71426809	83843751	224	36720										
PHKA1	5255	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	71886083	71886083	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aggcagggaaggaaaccactGagagtagactagcatcaacc	12	9	1	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chrX:71886083G>A	ENST00000373542.4	-	8	941	c.782C>T	c.(781-783)tCa>tTa	p.S261L	PHKA1_ENST00000373539.3_Missense_Mutation_p.S261L|PHKA1_ENST00000541944.1_Missense_Mutation_p.S261L|PHKA1_ENST00000373545.3_Missense_Mutation_p.S261L|PHKA1_ENST00000339490.3_Missense_Mutation_p.S261L	NM_002637.3	NP_002628.2	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle)	261					carbohydrate metabolic process (GO:0005975)|generation of precursor metabolites and energy (GO:0006091)|glucose metabolic process (GO:0006006)|glycogen catabolic process (GO:0005980)|glycogen metabolic process (GO:0005977)|protein phosphorylation (GO:0006468)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|plasma membrane (GO:0005886)	hydrolase activity, hydrolyzing O-glycosyl compounds (GO:0004553)|phosphorylase kinase activity (GO:0004689)			NS(1)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(9)|liver(2)|lung(18)|ovary(3)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	52	Renal(35;0.156)					GGAAACCACTGAGAGTAGACT	0.423																																																0													109	91	97					X																	71886083		2203	4300	6503	SO:0001583	missense	5255				CCDS14421.1, CCDS48137.1, CCDS55453.1	Xq12-q13	2009-07-10			ENSG00000067177	ENSG00000067177	2.7.11.19		8925	protein-coding gene	gene with protein product		311870		PHKA			Standard	NM_002637		Approved		uc004eax.4	P46020	OTTHUMG00000022696	ENST00000373542.4:c.782C>T	X.37:g.71886083G>A	ENSP00000362643:p.Ser261Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZL05|B7ZL07|Q2M3D7	Missense_Mutation	SNP	ENST00000373542.4	37	CCDS14421.1	.	.	.	.	.	.	.	.	.	.	G	35	5.514712	0.96402	.	.	ENSG00000067177	ENST00000373545;ENST00000373542;ENST00000541944;ENST00000339490;ENST00000373539	D;D;D;D;D	0.93811	-3.29;-3.29;-3.29;-3.29;-3.29	5.78	5.78	0.91487	Six-hairpin glycosidase (1);Six-hairpin glycosidase-like (1);Glycoside hydrolase 15-related (1);	0.059029	0.64402	D	0.000002	D	0.96349	0.8809	M	0.80746	2.51	0.58432	D	0.999999	P;D;D	0.67145	0.916;0.989;0.996	P;P;D	0.65773	0.515;0.897;0.938	D	0.95897	0.8912	10	0.42905	T	0.14	-12.5655	16.1536	0.81640	0.0:0.0:1.0:0.0	.	261;261;261	B7ZL07;P46020-2;P46020	.;.;KPB1_HUMAN	L	261	ENSP00000362646:S261L;ENSP00000362643:S261L;ENSP00000441251:S261L;ENSP00000342469:S261L;ENSP00000362640:S261L	ENSP00000342469:S261L	S	-	2	0	PHKA1	71802808	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	9.296000	0.96104	2.417000	0.82017	0.600000	0.82982	TCA		0.423	PHKA1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000058896.1			A	71886083	G	A	71886083	3	1	606	1	0	0	0	0	1	0	0	0	11850	1294	45	2	2989	2	PHKA1	23	71886083	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	459274	71886083	83384477	225	36721										
GPRASP2	114928	broad.mit.edu;bcgsc.ca	37	chrX	101971025	101971025	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cttcagcaatctgtgaatctGagccaggaactgaggagggg	14	8	3	3			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chrX:101971025G>C	ENST00000535209.1	+	4	2059	c.1228G>C	c.(1228-1230)Gag>Cag	p.E410Q	GPRASP2_ENST00000332262.5_Missense_Mutation_p.E410Q|GPRASP2_ENST00000543253.1_Missense_Mutation_p.E410Q			Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting protein 2	410						cytoplasm (GO:0005737)	beta-amyloid binding (GO:0001540)			breast(3)|endometrium(5)|kidney(2)|large_intestine(6)|lung(12)|ovary(1)|upper_aerodigestive_tract(1)	30						CTGTGAATCTGAGCCAGGAAC	0.562																																																0													60	64	62					X																	101971025		2203	4300	6503	SO:0001583	missense	114928			AK094646	CCDS14501.1	Xq22.1	2014-03-21			ENSG00000158301	ENSG00000158301		"Armadillo repeat containing"	25169	protein-coding gene	gene with protein product						15086532, 16221301	Standard	NM_138437		Approved	GASP2, FLJ37327		Q96D09	OTTHUMG00000022059	ENST00000535209.1:c.1228G>C	X.37:g.101971025G>C	ENSP00000437394:p.Glu410Gln	Somatic		WXS	Illumina HiSeq	Phase_I	D3DXA0|Q8NAB4	Missense_Mutation	SNP	ENST00000535209.1	37	CCDS14501.1	.	.	.	.	.	.	.	.	.	.	G	3.485	-0.105101	0.06967	.	.	ENSG00000158301	ENST00000543253;ENST00000535209;ENST00000332262	T;T;T	0.07021	3.23;3.23;3.23	4.44	0.0818	0.14426	.	1.880220	0.02612	N	0.102273	T	0.08714	0.0216	L	0.44542	1.39	0.09310	N	1	B	0.28128	0.201	B	0.22386	0.039	T	0.38520	-0.9657	10	0.21014	T	0.42	.	8.4458	0.32841	0.345:0.0:0.655:0.0	.	410	Q96D09	GASP2_HUMAN	Q	410	ENSP00000437872:E410Q;ENSP00000437394:E410Q;ENSP00000339057:E410Q	ENSP00000339057:E410Q	E	+	1	0	GPRASP2	101857681	0.000000	0.05858	0.000000	0.03702	0.968000	0.65278	0.558000	0.23469	-0.104000	0.12154	0.600000	0.82982	GAG		0.562	GPRASP2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057626.2	NM_138437		C	101971025	G	C	101971025	3	2	606	1	0	0	0	0	1	0	0	0	6730	1291	45	4	1230	4	GPRASP2	23	101971025	Missense_Mutation	SNP	G	TCGA-HE-7130-01A-11D-1961-08	30084942	101971025	53299535	226	36722										
PGRMC1	10857	broad.mit.edu;bcgsc.ca	37	chrX	118370497	118370497	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	ccggcggccagcggcgacagCgacgacgacgagccgccccc	15	19	0	0			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chrX:118370497C>T	ENST00000217971.7	+	1	282	c.171C>T	c.(169-171)agC>agT	p.S57S	PGRMC1_ENST00000535419.1_Silent_p.S57S	NM_006667.3	NP_006658.1	O00264	PGRC1_HUMAN	progesterone receptor membrane component 1	57					axon guidance (GO:0007411)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleolus (GO:0005730)	heme binding (GO:0020037)|steroid binding (GO:0005496)			lung(6)	6					Dextromethorphan(DB00514)|Nortriptyline(DB00540)	GCGGCGACAGCGACGACGACG	0.692																																																0													18	14	16					X																	118370497		2148	4187	6335	SO:0001819	synonymous_variant	10857				CCDS14576.1, CCDS65313.1	Xq22-q24	2005-11-29			ENSG00000101856	ENSG00000101856			16090	protein-coding gene	gene with protein product		300435				9705155	Standard	NM_006667		Approved	HPR6.6	uc004erb.3	O00264	OTTHUMG00000022268	ENST00000217971.7:c.171C>T	X.37:g.118370497C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z1L3|Q9UGJ9	Silent	SNP	ENST00000217971.7	37	CCDS14576.1																																																																																				0.692	PGRMC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058024.1	NM_006667		T	118370497	C	T	118370497	2	4	606	1	0	0	0	0	0	0	0	1	11813	767	27	1		1	PGRMC1	23	118370497	Silent	SNP	C	TCGA-HE-7130-01A-11D-1961-08	16399472	118370497	36900063	227	36723										
STAG2	10735	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	123202456	123202456	+	Nonsense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	aacaaatgagagtattttgtCagatatgtcaacattacctg	7	6	2	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chrX:123202456C>T	ENST00000371160.1	+	24	2598	c.2308C>T	c.(2308-2310)Cag>Tag	p.Q770*	STAG2_ENST00000371145.3_Nonsense_Mutation_p.Q770*|STAG2_ENST00000354548.5_Nonsense_Mutation_p.Q701*|STAG2_ENST00000469481.1_Intron|STAG2_ENST00000218089.9_Nonsense_Mutation_p.Q770*|STAG2_ENST00000371157.3_Nonsense_Mutation_p.Q770*|STAG2_ENST00000371144.3_Nonsense_Mutation_p.Q770*	NM_001282418.1	NP_001269347.1	Q8N3U4	STAG2_HUMAN	stromal antigen 2	770					meiotic nuclear division (GO:0007126)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of DNA endoreduplication (GO:0032876)|sister chromatid cohesion (GO:0007062)|stem cell maintenance (GO:0019827)	actin cytoskeleton (GO:0015629)|chromatin (GO:0000785)|chromosome (GO:0005694)|chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|intermediate filament cytoskeleton (GO:0045111)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	chromatin binding (GO:0003682)			breast(5)|central_nervous_system(4)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(5)|kidney(8)|large_intestine(9)|lung(21)|ovary(5)|prostate(2)|skin(5)|urinary_tract(4)	78						AGTATTTTGTCAGATATGTCA	0.284																																																0													75	70	72					X																	123202456		2203	4285	6488	SO:0001587	stop_gained	10735			Z75331	CCDS14607.1, CCDS43990.1	Xq25	2014-09-17			ENSG00000101972	ENSG00000101972			11355	protein-coding gene	gene with protein product		300826				9305759	Standard	NM_001042750		Approved	SA-2, SCC3B	uc004eua.3	Q8N3U4	OTTHUMG00000022725	ENST00000371160.1:c.2308C>T	X.37:g.123202456C>T	ENSP00000360202:p.Gln770*	Somatic		WXS	Illumina HiSeq	Phase_I	B1AMT5|D3DTF5|O00540|Q5JTI6|Q68DE9|Q9H1N8	Nonsense_Mutation	SNP	ENST00000371160.1	37	CCDS14607.1	.	.	.	.	.	.	.	.	.	.	C	41	8.670079	0.98908	.	.	ENSG00000101972	ENST00000218089;ENST00000354548;ENST00000371160;ENST00000371157;ENST00000371145;ENST00000371144	.	.	.	5.19	5.19	0.71726	.	0.185733	0.49305	D	0.000159	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.12766	T	0.61	-2.5759	18.1116	0.89538	0.0:1.0:0.0:0.0	.	.	.	.	X	770;701;770;770;770;770	.	ENSP00000218089:Q770X	Q	+	1	0	STAG2	123030137	1.000000	0.71417	1.000000	0.80357	0.671000	0.39405	3.356000	0.52269	2.301000	0.77427	0.534000	0.68092	CAG		0.284	STAG2-018	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000156159.2	NM_006603		T	123202456	C	T	123202456	4	4	606	1	0	0	0	0	0	1	0	0	15255	827	29	2	2394	2	STAG2	23	123202456	Nonsense_Mutation	SNP	C	TCGA-HE-7130-01A-11D-1961-08	4831959	123202456	32068104	228	36724										
ODZ1	10178	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	123680889	123680889	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.486842105263158	111	1.17093891191052e-35	3.67284528858565	4.51526561043802	3.12117180347879	0.793520404050095	1	81	cctggcagagaggacttataTaacagttgctttgttgacaa	10	7	0	2			TCGA-HE-7130-01A-11D-1961-08	TCGA-HE-7130-10A-01D-1962-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0f6da78c-86f4-41ec-b368-485fe4865ddb	e08a90e3-a3ba-48a4-9d47-d6d40602f0e1	g.chrX:123680889T>A	ENST00000371130.3	-	15	2549	c.2486A>T	c.(2485-2487)tAt>tTt	p.Y829F	TENM1_ENST00000422452.2_Missense_Mutation_p.Y829F	NM_014253.3	NP_055068.2	Q9UKZ4	TEN1_HUMAN	teneurin transmembrane protein 1	829					immune response (GO:0006955)|negative regulation of cell proliferation (GO:0008285)|nervous system development (GO:0007399)|neuropeptide signaling pathway (GO:0007218)|positive regulation of actin filament polymerization (GO:0030838)|positive regulation of filopodium assembly (GO:0051491)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|regulation of transcription from RNA polymerase III promoter (GO:0006359)|response to stress (GO:0006950)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|nuclear matrix (GO:0016363)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	heparin binding (GO:0008201)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)										AGGACTTATATAACAGTTGCT	0.403																																																0													119	102	108					X																	123680889		2203	4300	6503	SO:0001583	missense	10178			AF100772	CCDS14609.1, CCDS55488.1	Xq25	2012-10-02	2012-10-02	2012-10-02	ENSG00000009694	ENSG00000009694			8117	protein-coding gene	gene with protein product		300588	"tenascin M", "odz, odd Oz/ten-m homolog 1 (Drosophila)"	ODZ3, TNM, ODZ1		10331952, 10341219	Standard	NM_001163278		Approved	TEN-M1	uc010nqy.3	Q9UKZ4	OTTHUMG00000022721	ENST00000371130.3:c.2486A>T	X.37:g.123680889T>A	ENSP00000360171:p.Tyr829Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTR5|Q5JZ17	Missense_Mutation	SNP	ENST00000371130.3	37	CCDS14609.1	.	.	.	.	.	.	.	.	.	.	T	11.45	1.641329	0.29157	.	.	ENSG00000009694	ENST00000371130;ENST00000422452	T;T	0.11169	2.8;2.8	5.32	5.32	0.75619	.	0.304797	0.31772	N	0.007082	T	0.05090	0.0136	N	0.08118	0	0.32290	N	0.566467	B;B;B	0.06786	0.001;0.001;0.0	B;B;B	0.08055	0.003;0.001;0.002	T	0.23332	-1.0191	10	0.10902	T	0.67	.	9.7127	0.40256	0.1566:0.0:0.0:0.8434	.	828;829;829	B7ZMH4;B2RTR5;Q9UKZ4	.;.;TEN1_HUMAN	F	829	ENSP00000360171:Y829F;ENSP00000403954:Y829F	ENSP00000360171:Y829F	Y	-	2	0	ODZ1	123508570	1.000000	0.71417	0.954000	0.39281	0.787000	0.44495	3.654000	0.54453	1.955000	0.56771	0.481000	0.45027	TAT		0.403	TENM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058985.1	NM_014253		A	123680889	T	A	123680889	3	1	606	1	0	0	0	0	1	0	0	0	10841	1406	49	5	5784	5	ODZ1	23	123680889	Missense_Mutation	SNP	T	TCGA-HE-7130-01A-11D-1961-08	478433	123680889	31589671	229	36725										
AGRN	375790	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	957703	957703	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	atctgtgacaaccaggtgtcCactggggacaccaggatctt	11	11	2	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr1:957703C>A	ENST00000379370.2	+	2	374	c.324C>A	c.(322-324)tcC>tcA	p.S108S		NM_198576.3	NP_940978.2	O00468	AGRIN_HUMAN	agrin	108	NtA. {ECO:0000255|PROSITE- ProRule:PRU00443}.				axon guidance (GO:0007411)|carbohydrate metabolic process (GO:0005975)|chondroitin sulfate metabolic process (GO:0030204)|clustering of voltage-gated sodium channels (GO:0045162)|extracellular matrix organization (GO:0030198)|G-protein coupled acetylcholine receptor signaling pathway (GO:0007213)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|neuromuscular junction development (GO:0007528)|neurotransmitter receptor metabolic process (GO:0045213)|phototransduction, visible light (GO:0007603)|plasma membrane organization (GO:0007009)|positive regulation of filopodium assembly (GO:0051491)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of synaptic growth at neuromuscular junction (GO:0045887)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|receptor clustering (GO:0043113)|retinoid metabolic process (GO:0001523)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synapse organization (GO:0050808)	basal lamina (GO:0005605)|cell junction (GO:0030054)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|lysosomal lumen (GO:0043202)|plasma membrane (GO:0005886)|synapse (GO:0045202)	acetylcholine receptor regulator activity (GO:0030548)|calcium ion binding (GO:0005509)|chondroitin sulfate binding (GO:0035374)|dystroglycan binding (GO:0002162)|heparan sulfate proteoglycan binding (GO:0043395)|laminin binding (GO:0043236)|sialic acid binding (GO:0033691)|structural constituent of cytoskeleton (GO:0005200)			breast(1)|central_nervous_system(2)|endometrium(8)|kidney(3)|large_intestine(2)|lung(20)|ovary(1)|prostate(1)|skin(3)|urinary_tract(1)	42	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		ACCAGGTGTCCACTGGGGACA	0.602																																																0													131	137	135					1																	957703		2203	4300	6503	SO:0001819	synonymous_variant	375790			XM_372195	CCDS30551.1	1p36.33	2014-09-17		2007-02-16	ENSG00000188157	ENSG00000188157		"Proteoglycans / Extracellular Matrix : Other"	329	protein-coding gene	gene with protein product	"agrin proteoglycan"	103320				1851019, 12270958	Standard	NM_198576		Approved	AGRIN	uc001ack.2	O00468	OTTHUMG00000040778	ENST00000379370.2:c.324C>A	1.37:g.957703C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SVA1|Q5SVA2|Q60FE1|Q7KYS8|Q8N4J5|Q96IC1|Q9BTD4	Silent	SNP	ENST00000379370.2	37	CCDS30551.1																																																																																				0.602	AGRN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097990.2	NM_198576		A	957703	C	A	957703	2	1	607	1	0	0	0	0	0	0	0	1	397	581	21	4		4	AGRN	1	957703	Silent	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10		957703	248292918	1	36726										
OTUD3	23252	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	20233031	20233031	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	tttggaaatcagggcttaaaTgaaggcaggaccgaaaacaa	11	6	1	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr1:20233031T>C	ENST00000375120.3	+	7	943	c.942T>C	c.(940-942)aaT>aaC	p.N314N		NM_015207.1	NP_056022.1	Q5T2D3	OTUD3_HUMAN	OTU deubiquitinase 3	314					protein K11-linked deubiquitination (GO:0035871)|protein K6-linked deubiquitination (GO:0044313)		ubiquitin-specific protease activity (GO:0004843)			breast(1)|kidney(2)|large_intestine(4)|lung(1)|skin(1)	9		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000276)|Lung NSC(340;0.000338)|Breast(348;0.000812)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|COAD - Colon adenocarcinoma(152;1.12e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000142)|Kidney(64;0.000177)|GBM - Glioblastoma multiforme(114;0.000408)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		AGGGCTTAAATGAAGGCAGGA	0.488																																																0													107	112	110					1																	20233031		1980	4166	6146	SO:0001819	synonymous_variant	23252			AB007928	CCDS41279.1	1p36.13	2014-02-24	2014-02-24		ENSG00000169914	ENSG00000169914		"OTU domain containing"	29038	protein-coding gene	gene with protein product		611758	"OTU domain containing 3"			9455484, 23827681	Standard	NM_015207		Approved	KIAA0459, DUBA4	uc001bcs.4	Q5T2D3	OTTHUMG00000002696	ENST00000375120.3:c.942T>C	1.37:g.20233031T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O75047	Silent	SNP	ENST00000375120.3	37	CCDS41279.1																																																																																				0.488	OTUD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000007655.1			C	20233031	T	C	20233031	2	2	607	1	0	0	0	0	0	0	0	1	11320	1461	51	3		3	OTUD3	1	20233031	Silent	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10	19275328	20233031	229017590	2	36727										
KANK4	163782	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	62739262	62739262	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ggcctccttcctgttcagtgCctgcttcttcaatcctgagt	8	14	3	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr1:62739262C>T	ENST00000371153.4	-	3	1892	c.1514G>A	c.(1513-1515)gGc>gAc	p.G505D	KANK4_ENST00000354381.3_Intron|KANK4_ENST00000371150.1_5'Flank	NM_181712.4	NP_859063.3	Q5T7N3	KANK4_HUMAN	KN motif and ankyrin repeat domains 4	505						cytoplasm (GO:0005737)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(49)|ovary(3)|prostate(4)|skin(9)|stomach(1)|upper_aerodigestive_tract(2)	81						CTGTTCAGTGCCTGCTTCTTC	0.602																																																0													74	76	75					1																	62739262		2203	4300	6503	SO:0001583	missense	163782			AK096259	CCDS620.1	1p31.3	2013-10-11	2008-01-29	2008-01-29	ENSG00000132854	ENSG00000132854		"KN motif and ankyrin repeat domain containing", "Ankyrin repeat domain containing"	27263	protein-coding gene	gene with protein product		614612	"ankyrin repeat domain 38"	ANKRD38		17996375, 19554261	Standard	NM_181712		Approved	KIAA0172	uc001dah.4	Q5T7N3	OTTHUMG00000008971	ENST00000371153.4:c.1514G>A	1.37:g.62739262C>T	ENSP00000360195:p.Gly505Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALP7|Q6P9A0|Q86T71|Q86VE6|Q8NAX3	Missense_Mutation	SNP	ENST00000371153.4	37	CCDS620.1	.	.	.	.	.	.	.	.	.	.	C	6.119	0.390267	0.11581	.	.	ENSG00000132854	ENST00000371153	T	0.45668	0.89	5.0	-4.67	0.03319	.	0.629621	0.13219	N	0.404541	T	0.18173	0.0436	N	0.20685	0.6	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.24333	-1.0163	10	0.14656	T	0.56	-0.895	4.4402	0.11570	0.4045:0.2134:0.0:0.382	.	505	Q5T7N3	KANK4_HUMAN	D	505	ENSP00000360195:G505D	ENSP00000360195:G505D	G	-	2	0	KANK4	62511850	0.000000	0.05858	0.000000	0.03702	0.008000	0.06430	-0.315000	0.08081	-0.487000	0.06735	-0.880000	0.02959	GGC		0.602	KANK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000024877.1	NM_181712		T	62739262	C	T	62739262	3	4	607	1	0	0	0	0	1	0	0	0	7986	739	26	2	1505	2	KANK4	1	62739262	Missense_Mutation	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10	42506231	62739262	186511359	3	36728										
SYDE2	84144	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	85648463	85648463	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	caggtgagtctccatcactaAggtaaccacctttgcaggaa	9	11	2	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr1:85648463A>T	ENST00000341460.5	-	3	1911	c.1862T>A	c.(1861-1863)cTt>cAt	p.L621H		NM_032184.1	NP_115560.1	Q5VT97	SYDE2_HUMAN	synapse defective 1, Rho GTPase, homolog 2 (C. elegans)	621					activation of Rho GTPase activity (GO:0032862)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	Rho GTPase activator activity (GO:0005100)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(8)|ovary(1)	20				all cancers(265;0.0126)|Epithelial(280;0.0336)		TCCATCACTAAGGTAACCACC	0.378																																																0													86	80	82					1																	85648463		1853	4086	5939	SO:0001583	missense	84144			AL834286	CCDS44169.1	1p22.3	2008-02-05		2005-08-09	ENSG00000097096	ENSG00000097096			25841	protein-coding gene	gene with protein product							Standard	NM_032184		Approved	FLJ13815	uc009wcm.3	Q5VT97	OTTHUMG00000009956	ENST00000341460.5:c.1862T>A	1.37:g.85648463A>T	ENSP00000340594:p.Leu621His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VT96|Q8NDB8|Q9H8A6	Missense_Mutation	SNP	ENST00000341460.5	37	CCDS44169.1	.	.	.	.	.	.	.	.	.	.	A	18.98	3.737544	0.69304	.	.	ENSG00000097096	ENST00000341460	T	0.25749	1.78	5.56	5.56	0.83823	.	0.000000	0.85682	D	0.000000	T	0.46502	0.1396	M	0.81942	2.565	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.999;1.0	T	0.54125	-0.8340	10	0.87932	D	0	.	15.6946	0.77484	1.0:0.0:0.0:0.0	.	621;621	Q5VT97;Q5VT97-2	SYDE2_HUMAN;.	H	621	ENSP00000340594:L621H	ENSP00000340594:L621H	L	-	2	0	SYDE2	85421051	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	8.923000	0.92808	2.116000	0.64780	0.454000	0.30748	CTT		0.378	SYDE2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000127989.2			T	85648463	A	T	85648463	3	4	607	1	0	0	0	0	1	0	0	0	15448	72	3	5	1742	5	SYDE2	1	85648463	Missense_Mutation	SNP	A	TCGA-HE-A5NF-01A-11D-A26P-10	22909201	85648463	163602158	4	36729										
NTRK1	4914	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	156851384	156851384	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	tcaaggatgtgcacgcccggCtgcaagccctggcccaggca	13	15	1	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr1:156851384C>T	ENST00000524377.1	+	17	2382	c.2341C>T	c.(2341-2343)Ctg>Ttg	p.L781L	NTRK1_ENST00000368196.3_Silent_p.L775L|NTRK1_ENST00000392302.2_Silent_p.L745L|NTRK1_ENST00000358660.3_Silent_p.L778L|NTRK1_ENST00000531606.1_3'UTR	NM_002529.3	NP_002520.2	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	781	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of adenylate cyclase activity (GO:0007190)|activation of MAPKK activity (GO:0000186)|activation of phospholipase C activity (GO:0007202)|aging (GO:0007568)|axon guidance (GO:0007411)|axonogenesis involved in innervation (GO:0060385)|B cell differentiation (GO:0030183)|cellular response to nerve growth factor stimulus (GO:1990090)|cellular response to nicotine (GO:0071316)|circadian rhythm (GO:0007623)|detection of mechanical stimulus involved in sensory perception of pain (GO:0050966)|detection of temperature stimulus involved in sensory perception of pain (GO:0050965)|developmental programmed cell death (GO:0010623)|learning or memory (GO:0007611)|mechanoreceptor differentiation (GO:0042490)|negative regulation of cell proliferation (GO:0008285)|negative regulation of neuron apoptotic process (GO:0043524)|neurotrophin TRK receptor signaling pathway (GO:0048011)|olfactory nerve development (GO:0021553)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of angiogenesis (GO:0045766)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of neuron projection development (GO:0010976)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of programmed cell death (GO:0043068)|positive regulation of Ras GTPase activity (GO:0032320)|positive regulation of Ras protein signal transduction (GO:0046579)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|Ras protein signal transduction (GO:0007265)|response to activity (GO:0014823)|response to axon injury (GO:0048678)|response to drug (GO:0042493)|response to electrical stimulus (GO:0051602)|response to ethanol (GO:0045471)|response to hydrostatic pressure (GO:0051599)|response to nutrient levels (GO:0031667)|response to radiation (GO:0009314)|Sertoli cell development (GO:0060009)|small GTPase mediated signal transduction (GO:0007264)|sympathetic nervous system development (GO:0048485)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	axon (GO:0030424)|cell surface (GO:0009986)|cytoplasmic vesicle (GO:0031410)|dendrite (GO:0030425)|early endosome (GO:0005769)|endosome (GO:0005768)|integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|nerve growth factor binding (GO:0048406)|nerve growth factor receptor activity (GO:0010465)|neurotrophin binding (GO:0043121)|protein homodimerization activity (GO:0042803)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			breast(3)|central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(7)|lung(35)|ovary(8)|prostate(2)|skin(5)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	74	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Amitriptyline(DB00321)|Imatinib(DB00619)|Regorafenib(DB08896)	GCACGCCCGGCTGCAAGCCCT	0.697			T	"TPM3, TPR, TFG"	papillary thyroid					TSP Lung(10;0.080)																													Dom	yes		1	1q21-q22	4914	"neurotrophic tyrosine kinase, receptor, type 1"		E	0													23	24	24					1																	156851384		2202	4297	6499	SO:0001819	synonymous_variant	4914			Y09028	CCDS1161.1, CCDS30890.1, CCDS30891.1	1q21-q22	2014-09-17			ENSG00000198400	ENSG00000198400	2.7.10.1	"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	8031	protein-coding gene	gene with protein product	"high affinity nerve growth factor receptor"	191315				2869410	Standard	NM_001007792		Approved	TRK, TRKA, MTC	uc001fqh.1	P04629	OTTHUMG00000041304	ENST00000524377.1:c.2341C>T	1.37:g.156851384C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R6T5|B7ZM34|P08119|Q15655|Q15656|Q5D056|Q5VZS2|Q7Z5C3|Q9UIU7	Silent	SNP	ENST00000524377.1	37	CCDS1161.1																																																																																				0.697	NTRK1-007	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000392279.1	NM_002529		T	156851384	C	T	156851384	2	4	607	1	0	0	0	0	0	0	0	1	10713	796	28	2		2	NTRK1	1	156851384	Silent	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10	71202921	156851384	92399237	5	36730										
HSPA6	3310	broad.mit.edu	37	chr1	161495204	161495204	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	gaattccggcggaagcatggGaaggacctgagcgggaacaa	16	8	0	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr1:161495204G>A	ENST00000309758.4	+	1	1169	c.756G>A	c.(754-756)ggG>ggA	p.G252G	RP11-25K21.6_ENST00000537821.2_RNA	NM_002155.3	NP_002146.2	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	252					ATP catabolic process (GO:0006200)|cellular response to heat (GO:0034605)|protein refolding (GO:0042026)|response to unfolded protein (GO:0006986)	blood microparticle (GO:0072562)|centriole (GO:0005814)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|ATPase activity, coupled (GO:0042623)|enzyme binding (GO:0019899)|heat shock protein binding (GO:0031072)|unfolded protein binding (GO:0051082)			endometrium(3)|large_intestine(5)|lung(9)|prostate(2)|skin(2)	21	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			GGAAGCATGGGAAGGACCTGA	0.627																																																0																																										SO:0001819	synonymous_variant	3310				CCDS1231.1	1q23.3	2011-09-02	2002-08-29		ENSG00000173110	ENSG00000173110		"Heat shock proteins / HSP70"	5239	protein-coding gene	gene with protein product		140555	"heat shock 70kD protein 6 (HSP70B')"			1346391	Standard	NM_002155		Approved		uc001gaq.3	P17066	OTTHUMG00000034461	ENST00000309758.4:c.756G>A	1.37:g.161495204G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q1HBA8|Q8IYK7|Q9BT95	Silent	SNP	ENST00000309758.4	37	CCDS1231.1																																																																																				0.627	HSPA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083308.1	NM_002155		A	161495204	G	A	161495204	2	1	607	1	0	0	0	0	0	0	0	1	7422	1161	41	2		2	HSPA6	1	161495204	Silent	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	4643820	161495204	87755417	6	36731										
ARHGEF4	50649	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	131801154	131801154	+	Frame_Shift_Del	DEL	A	A	-													0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	accagctcatctactgtaagAaggtaccagagctgctctgc							TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr2:131801154delA	ENST00000326016.5	+	11	2116	c.1597delA	c.(1597-1599)aagfs	p.K533fs	ARHGEF4_ENST00000525839.1_Frame_Shift_Del_p.K533fs|ARHGEF4_ENST00000409303.1_Frame_Shift_Del_p.K473fs|ARHGEF4_ENST00000428230.2_Intron|ARHGEF4_ENST00000355771.3_Frame_Shift_Del_p.K462fs|ARHGEF4_ENST00000392953.3_Frame_Shift_Del_p.K533fs	NM_015320.2	NP_056135.2	Q9NR80	ARHG4_HUMAN	Rho guanine nucleotide exchange factor (GEF) 4	533	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				apoptotic signaling pathway (GO:0097190)|filopodium assembly (GO:0046847)|lamellipodium assembly (GO:0030032)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|positive regulation of Rac GTPase activity (GO:0032855)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cell projection (GO:0042995)|cytosol (GO:0005829)|plasma membrane (GO:0005886)	guanyl-nucleotide exchange factor activity (GO:0005085)|protein domain specific binding (GO:0019904)|Rac guanyl-nucleotide exchange factor activity (GO:0030676)			NS(1)|breast(4)|cervix(1)|endometrium(2)|large_intestine(5)|lung(7)|ovary(3)|pancreas(1)|prostate(1)|skin(4)	29		Prostate(154;0.055)		BRCA - Breast invasive adenocarcinoma(221;0.097)		CTACTGTAAGAAGGTACCAGA	0.572																																																0													97	87	90					2																	131801154		2203	4300	6503	SO:0001589	frameshift_variant	50649			AL137289	CCDS2165.1, CCDS42754.1	2q22	2013-01-10			ENSG00000136002	ENSG00000136002		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	684	protein-coding gene	gene with protein product	"APC-stimulated guanine nucleotide exchange factor"	605216				10873612	Standard	NM_015320		Approved	STM6, KIAA1112, ASEF	uc002tsa.1	Q9NR80	OTTHUMG00000131657	ENST00000326016.5:c.1597delA	2.37:g.131801154delA	ENSP00000316845:p.Lys533fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9HDC6|Q9UPP0	Frame_Shift_Del	DEL	ENST00000326016.5	37	CCDS2165.1																																																																																				0.572	ARHGEF4-001	KNOWN	basic|appris_candidate_longest|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000254554.4			-	131801154	A	-	131801154	7	5	607	1	0	1	0	1	0	0	0	0	908	247	9	0	1631	0	ARHGEF4	2	131801154	Frame_Shift_Del	DEL	A	TCGA-HE-A5NF-01A-11D-A26P-10		131801154	111398219	7	36732										
ERMN	57471	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	158178038	158178038	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ttaaattctatcactcgaacTtcatcttcatcattattgca	2	10	6	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr2:158178038T>A	ENST00000410096.1	-	3	891	c.600A>T	c.(598-600)gaA>gaT	p.E200D	ERMN_ENST00000397283.2_Missense_Mutation_p.E213D|ERMN_ENST00000535935.1_Missense_Mutation_p.E94D|ERMN_ENST00000420719.2_Missense_Mutation_p.E180D	NM_020711.1	NP_065762.1	Q8TAM6	ERMIN_HUMAN	ermin, ERM-like protein	200					actin filament organization (GO:0007015)|morphogenesis of a branching structure (GO:0001763)|regulation of cell projection organization (GO:0031344)|regulation of cell shape (GO:0008360)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|internode region of axon (GO:0033269)|myelin sheath (GO:0043209)|neuronal cell body (GO:0043025)|paranode region of axon (GO:0033270)				endometrium(1)|kidney(1)|large_intestine(3)|lung(5)|ovary(1)|skin(1)	12						TCACTCGAACTtcatcttcat	0.383																																																0													122	118	119					2																	158178038		1908	4131	6039	SO:0001583	missense	57471			AB033015	CCDS42764.1, CCDS46431.1	2q24	2008-02-05	2008-01-15	2008-01-15	ENSG00000136541	ENSG00000136541			29208	protein-coding gene	gene with protein product	"juxtanodin", "ermin"	610072	"KIAA1189"	KIAA1189		16051705, 16421295	Standard	NM_020711		Approved	JN, ERMIN	uc002tzi.3	Q8TAM6	OTTHUMG00000153843	ENST00000410096.1:c.600A>T	2.37:g.158178038T>A	ENSP00000387047:p.Glu200Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DKA6|Q9ULN1	Missense_Mutation	SNP	ENST00000410096.1	37	CCDS46431.1	.	.	.	.	.	.	.	.	.	.	T	13.62	2.290199	0.40494	.	.	ENSG00000136541	ENST00000410096;ENST00000397283;ENST00000535935;ENST00000420719	.	.	.	5.81	4.66	0.58398	.	0.162184	0.43416	D	0.000573	T	0.48021	0.1477	L	0.36672	1.1	0.28039	N	0.933847	D;D;D	0.76494	0.999;0.999;0.999	D;D;D	0.66602	0.945;0.945;0.945	T	0.37549	-0.9701	9	0.38643	T	0.18	.	8.1808	0.31309	0.0:0.1976:0.0:0.8024	.	180;213;200	B4DIZ1;Q8TAM6-2;Q8TAM6	.;.;ERMIN_HUMAN	D	200;213;94;180	.	ENSP00000380453:E213D	E	-	3	2	ERMN	157886284	0.998000	0.40836	1.000000	0.80357	0.979000	0.70002	0.434000	0.21494	1.031000	0.39867	0.533000	0.62120	GAA		0.383	ERMN-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000332659.1	NM_001009959		A	158178038	T	A	158178038	3	1	607	1	0	0	0	0	1	0	0	0	5237	1606	56	5	258	5	ERMN	2	158178038	Missense_Mutation	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10	26376884	158178038	85021335	8	36733										
UBR3	130507	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	170762609	170762609	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ctcagacctactatgctgccTttgctgctgaacttgaggcc	9	13	1	3			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr2:170762609T>A	ENST00000272793.5	+	10	1764	c.1714T>A	c.(1714-1716)Ttt>Att	p.F572I	UBR3_ENST00000418381.1_Missense_Mutation_p.F572I			Q6ZT12	UBR3_HUMAN	ubiquitin protein ligase E3 component n-recognin 3 (putative)	572					embryo development (GO:0009790)|in utero embryonic development (GO:0001701)|olfactory behavior (GO:0042048)|sensory perception of smell (GO:0007608)|suckling behavior (GO:0001967)|ubiquitin-dependent protein catabolic process (GO:0006511)	integral component of membrane (GO:0016021)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(2)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(9)|liver(1)|lung(8)|ovary(1)|prostate(3)|stomach(1)	33						CTATGCTGCCTTTGCTGCTGA	0.388																																																0													116	103	107					2																	170762609		692	1591	2283	SO:0001583	missense	130507			AL834144	CCDS2238.2	2q31.1	2008-06-23	2008-06-23	2007-11-29	ENSG00000144357	ENSG00000144357		"Ubiquitin protein ligase E3 component n-recognins"	30467	protein-coding gene	gene with protein product		613831	"zinc finger protein 650"	ZNF650		17462990	Standard	NM_172070		Approved	KIAA2024, DKFZp434P117, FLJ37422	uc010zdi.2	Q6ZT12	OTTHUMG00000132229	ENST00000272793.5:c.1714T>A	2.37:g.170762609T>A	ENSP00000272793:p.Phe572Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZR7|Q2KHN5|Q6ZR55|Q6ZSC2|Q8IVE7|Q8ND96	Missense_Mutation	SNP	ENST00000272793.5	37		.	.	.	.	.	.	.	.	.	.	T	34	5.361453	0.95877	.	.	ENSG00000144357	ENST00000272793;ENST00000442603;ENST00000418381	T;T	0.58060	0.36;0.36	5.58	5.58	0.84498	.	.	.	.	.	T	0.64316	0.2587	L	0.43923	1.385	0.80722	D	1	D	0.57899	0.981	D	0.69824	0.966	T	0.60835	-0.7184	9	0.30854	T	0.27	.	15.7431	0.77918	0.0:0.0:0.0:1.0	.	572	Q6ZT12	UBR3_HUMAN	I	572	ENSP00000272793:F572I;ENSP00000396068:F572I	ENSP00000272793:F572I	F	+	1	0	UBR3	170470855	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	8.040000	0.89188	2.116000	0.64780	0.482000	0.46254	TTT		0.388	UBR3-001	KNOWN	non_canonical_conserved|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000255290.2	NM_172070		A	170762609	T	A	170762609	3	1	607	1	0	0	0	0	1	0	0	0	16915	1609	56	5	1752	5	UBR3	2	170762609	Missense_Mutation	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10	12584571	170762609	72436764	9	36734										
OBSL1	23363	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	220416332	220416332	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	gtcctcaggtcgaacgtcatGgatgaccaggctgtgggtgg	16	9	2	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr2:220416332G>T	ENST00000404537.1	-	20	5658	c.5602C>A	c.(5602-5604)Cat>Aat	p.H1868N	OBSL1_ENST00000265318.4_3'UTR|MIR3132_ENST00000581997.1_RNA|OBSL1_ENST00000373876.1_Missense_Mutation_p.H1776N	NM_015311.2	NP_056126.1	O75147	OBSL1_HUMAN	obscurin-like 1	1868	Ig-like 14.				cardiac myofibril assembly (GO:0055003)|cytoskeleton organization (GO:0007010)|Golgi organization (GO:0007030)|microtubule cytoskeleton organization (GO:0000226)|positive regulation of dendrite morphogenesis (GO:0050775)|protein localization to Golgi apparatus (GO:0034067)|regulation of mitosis (GO:0007088)	3M complex (GO:1990393)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|intercalated disc (GO:0014704)|M band (GO:0031430)|perinuclear region of cytoplasm (GO:0048471)|Z disc (GO:0030018)	cytoskeletal adaptor activity (GO:0008093)						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)		CGAACGTCATGGATGACCAGG	0.657																																																0													32	37	36					2																	220416332		2086	4208	6294	SO:0001583	missense	23363			BC007201	CCDS46520.1, CCDS54433.1, CCDS63134.1	2q35	2013-01-29			ENSG00000124006	ENSG00000124006		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	29092	protein-coding gene	gene with protein product		610991				9734811	Standard	NM_015311		Approved	KIAA0657	uc010fwk.3	O75147	OTTHUMG00000059157	ENST00000404537.1:c.5602C>A	2.37:g.220416332G>T	ENSP00000385636:p.His1868Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A4KVA4|A4KVA5|Q96IW3|S4R3M6	Missense_Mutation	SNP	ENST00000404537.1	37	CCDS46520.1	.	.	.	.	.	.	.	.	.	.	G	13.23	2.174528	0.38413	.	.	ENSG00000124006	ENST00000404537;ENST00000373876	T;T	0.65916	-0.18;-0.18	5.32	3.38	0.38709	Immunoglobulin subtype (1);Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.53449	0.1797	L	0.28344	0.845	0.80722	D	1	B	0.27192	0.171	B	0.41691	0.364	T	0.43798	-0.9369	9	0.21540	T	0.41	.	9.4425	0.38677	0.0:0.1395:0.5724:0.2881	.	1868	O75147	OBSL1_HUMAN	N	1868;1776	ENSP00000385636:H1868N;ENSP00000362983:H1776N	ENSP00000362983:H1776N	H	-	1	0	OBSL1	220124576	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.056000	0.57448	1.220000	0.43490	0.655000	0.94253	CAT		0.657	OBSL1-014	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322012.1			T	220416332	G	T	220416332	3	4	607	1	0	0	0	0	1	0	0	0	10820	1348	47	4	96	4	OBSL1	2	220416332	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	49653723	220416332	22783041	10	36735										
SNED1	25992	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	242026825	242026825	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	aggtataaaagagtctaccgAgttcaccaagacatctgctt	8	9	3	2			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr2:242026825A>T	ENST00000310397.8	+	30	4140	c.4140A>T	c.(4138-4140)cgA>cgT	p.R1380R	SNED1_ENST00000342631.6_Silent_p.R1347R|SNED1_ENST00000405547.3_Intron|MTERFD2_ENST00000464344.2_Intron	NM_001080437.1	NP_001073906.1	Q8TER0	SNED1_HUMAN	sushi, nidogen and EGF-like domains 1	1380					cell-matrix adhesion (GO:0007160)	extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)			NS(1)|breast(1)|central_nervous_system(3)|kidney(2)|large_intestine(6)|lung(4)|ovary(3)|prostate(3)|upper_aerodigestive_tract(1)	24		all_cancers(19;7.48e-31)|all_epithelial(40;1.35e-12)|Breast(86;0.000148)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.46e-32)|all cancers(36;6.23e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.1e-14)|Kidney(56;6.35e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;3.66e-06)|Lung(119;0.00072)|LUSC - Lung squamous cell carcinoma(224;0.00553)|Colorectal(34;0.0162)|COAD - Colon adenocarcinoma(134;0.109)		GAGTCTACCGAGTTCACCAAG	0.488																																																0													50	46	47					2																	242026825		1886	4111	5997	SO:0001819	synonymous_variant	25992			AK074062	CCDS46562.1	2q37.3	2014-01-28			ENSG00000162804	ENSG00000162804		"Fibronectin type III domain containing"	24696	protein-coding gene	gene with protein product						12477932	Standard	NM_001080437		Approved	FLJ00133, SST3, Snep	uc002wah.1	Q8TER0	OTTHUMG00000151803	ENST00000310397.8:c.4140A>T	2.37:g.242026825A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B5MDC3|B7WNK6|B7WPM0|Q336F4|Q336F5|Q8N369|Q8TEP7	Silent	SNP	ENST00000310397.8	37	CCDS46562.1																																																																																				0.488	SNED1-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323935.2	XM_059482		T	242026825	A	T	242026825	2	4	607	1	0	0	0	0	0	0	0	1	14858	291	11	5		5	SNED1	2	242026825	Silent	SNP	A	TCGA-HE-A5NF-01A-11D-A26P-10	21610493	242026825	1172548	11	36736										
SRGAP3	9901	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	9100033	9100033	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	cttgtcacttcgggaatccaGgttgtccactgcattctcaa	8	12	2	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr3:9100033G>T	ENST00000383836.3	-	7	1352	c.925C>A	c.(925-927)Ctg>Atg	p.L309M	SRGAP3_ENST00000433332.3_5'UTR|SRGAP3_ENST00000360413.3_Missense_Mutation_p.L309M	NM_014850.3	NP_055665.1	O43295	SRGP3_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	309	F-BAR domain.				regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	GTPase activator activity (GO:0005096)		SRGAP3/RAF1(6)	breast(1)|endometrium(2)|kidney(21)|large_intestine(7)|lung(13)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	54				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		CGGGAATCCAGGTTGTCCACT	0.552			T	RAF1	pilocytic astrocytoma																																		Dom	yes		3	3p25.3	9901	SLIT-ROBO Rho GTPase activating protein 3		M	0													246	203	218					3																	9100033		2203	4300	6503	SO:0001583	missense	9901			AB007871	CCDS2572.1, CCDS33689.1	3p25.3	2011-07-04	2004-11-12	2004-11-12	ENSG00000196220	ENSG00000196220		"Rho GTPase activating proteins"	19744	protein-coding gene	gene with protein product		606525	"SLIT-ROBO Rho GTPase activating protein 2"	SRGAP2		12195014	Standard	NM_014850		Approved	KIAA0411, MEGAP, WRP, ARHGAP14	uc003brf.2	O43295	OTTHUMG00000090589	ENST00000383836.3:c.925C>A	3.37:g.9100033G>T	ENSP00000373347:p.Leu309Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IX13|Q8IZV8	Missense_Mutation	SNP	ENST00000383836.3	37	CCDS2572.1	.	.	.	.	.	.	.	.	.	.	G	15.76	2.927507	0.52759	.	.	ENSG00000196220	ENST00000383836;ENST00000360413;ENST00000544908	T;T	0.14893	2.47;2.47	5.54	4.66	0.58398	.	0.000000	0.64402	D	0.000001	T	0.18800	0.0451	M	0.67397	2.05	0.58432	D	0.999993	B;B;B	0.30937	0.074;0.301;0.2	B;B;B	0.27796	0.083;0.083;0.038	T	0.01956	-1.1240	10	0.45353	T	0.12	.	10.889	0.46984	0.1445:0.0:0.8555:0.0	.	178;309;309	Q9ULR4;O43295-2;O43295	.;.;SRGP2_HUMAN	M	309;309;189	ENSP00000373347:L309M;ENSP00000353587:L309M	ENSP00000353587:L309M	L	-	1	2	SRGAP3	9075033	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	2.275000	0.43399	2.606000	0.88127	0.655000	0.94253	CTG		0.552	SRGAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207137.3			T	9100033	G	T	9100033	3	4	607	1	0	0	0	0	1	0	0	0	15159	991	35	4	2473	4	SRGAP3	3	9100033	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10		9100033	188922397	12	36737										
TBC1D5	9779	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	17550057	17550057	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ctagtttcagataaggaatgAtacattgtgggaactggaca	11	5	1	2			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr3:17550057A>G	ENST00000253692.7	-	3	1670	c.6T>C	c.(4-6)taT>taC	p.Y2Y	TBC1D5_ENST00000414318.2_Intron|TBC1D5_ENST00000429383.4_Silent_p.Y2Y|TBC1D5_ENST00000446818.2_Silent_p.Y2Y	NM_014744.2	NP_055559.1	Q92609	TBCD5_HUMAN	TBC1 domain family, member 5	2						retromer complex (GO:0030904)	Rab GTPase activator activity (GO:0005097)			NS(1)|breast(1)|endometrium(1)|kidney(3)|large_intestine(7)|lung(14)|ovary(2)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	36						ATAAGGAATGATACATTGTGG	0.403																																																0													142	122	129					3																	17550057		2203	4300	6503	SO:0001819	synonymous_variant	9779			D86965	CCDS33714.1, CCDS46770.1	3p24.3	2013-07-09			ENSG00000131374	ENSG00000131374			19166	protein-coding gene	gene with protein product		615740				19531583	Standard	NM_014744		Approved	KIAA0210	uc003cbe.3	Q92609	OTTHUMG00000155488	ENST00000253692.7:c.6T>C	3.37:g.17550057A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NP25|C9JP52	Silent	SNP	ENST00000253692.7	37	CCDS33714.1																																																																																				0.403	TBC1D5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340301.3	NM_014744		G	17550057	A	G	17550057	2	3	607	1	0	0	0	0	0	0	0	1	15635	340	12	3		3	TBC1D5	3	17550057	Silent	SNP	A	TCGA-HE-A5NF-01A-11D-A26P-10	8450024	17550057	180472373	13	36738										
ZNF445	353274	ucsc.edu;bcgsc.ca	37	chr3	44492934	44492934	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	cagatcgcagggctcctgtaCccatccaatgcacatctggg	10	14	1	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr3:44492934C>T	ENST00000396077.2	-	4	817	c.470G>A	c.(469-471)gGt>gAt	p.G157D	ZNF445_ENST00000425708.2_Missense_Mutation_p.G157D	NM_181489.5	NP_852466.1	P59923	ZN445_HUMAN	zinc finger protein 445	157					transcription, DNA-templated (GO:0006351)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(5)|kidney(3)|large_intestine(8)|lung(8)|ovary(2)|pancreas(1)|skin(3)	31				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		GGCTCCTGTACCCATCCAATG	0.542																																																0													81	82	82					3																	44492934		2203	4300	6503	SO:0001583	missense	353274			AY262260	CCDS2713.1	3p21.32	2013-01-09	2003-10-07		ENSG00000185219	ENSG00000185219		"Zinc fingers, C2H2-type", "-", "-", "-"	21018	protein-coding gene	gene with protein product			"zinc finger protein 168"	ZNF168		7814019	Standard	NM_181489		Approved	ZKSCAN15, ZSCAN47	uc003cnf.2	P59923	OTTHUMG00000133042	ENST00000396077.2:c.470G>A	3.37:g.44492934C>T	ENSP00000379387:p.Gly157Asp	Somatic		WXS	Illumina HiSeq		Q3MJD1	Missense_Mutation	SNP	ENST00000396077.2	37	CCDS2713.1	.	.	.	.	.	.	.	.	.	.	C	21.5	4.157033	0.78114	.	.	ENSG00000185219	ENST00000425708;ENST00000396077	T;T	0.06068	3.35;3.35	5.07	4.18	0.49190	Transcription regulator SCAN (1);	0.141093	0.33217	N	0.005158	T	0.08980	0.0222	N	0.08118	0	0.39350	D	0.965742	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.998	T	0.29458	-1.0011	10	0.52906	T	0.07	.	8.7795	0.34783	0.0:0.8979:0.0:0.1021	.	157;157	B7ZKX2;P59923	.;ZN445_HUMAN	D	157	ENSP00000413073:G157D;ENSP00000379387:G157D	ENSP00000379387:G157D	G	-	2	0	ZNF445	44467938	0.999000	0.42202	0.998000	0.56505	0.995000	0.86356	2.097000	0.41748	2.537000	0.85549	0.491000	0.48974	GGT		0.542	ZNF445-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256647.2	NM_181489		T	44492934	C	T	44492934	3	4	607	1	0	0	0	0	1	0	0	0	17930	507	18	2	2645	2	ZNF445	3	44492934	Missense_Mutation	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10	26942877	44492934	153529496	14	36739										
MST1	327	broad.mit.edu	37	chr3	49723112	49723112	+	IGR	DEL	T	T	-													0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	catggctatccccatctgggTtccggcagaagttctcctcc							TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr3:49723112delT	ENST00000296456.5	+	0	3220				AC099668.5_ENST00000563780.1_RNA|MST1_ENST00000383728.3_3'UTR|MST1_ENST00000494828.2_5'Flank|MST1_ENST00000449682.2_Frame_Shift_Del_p.N435fs	NM_001640.3	NP_001631.3	P13798	ACPH_HUMAN	acylaminoacyl-peptide hydrolase						beta-amyloid metabolic process (GO:0050435)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nuclear membrane (GO:0031965)	omega peptidase activity (GO:0008242)|poly(A) RNA binding (GO:0044822)|serine-type endopeptidase activity (GO:0004252)			endometrium(3)|large_intestine(1)|lung(6)|ovary(1)|skin(1)|stomach(2)|urinary_tract(1)	15				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CCCATCTGGGTTCCGGCAGAA	0.587																																																0													43	42	43					3																	49723112		2203	4300	6503	SO:0001628	intergenic_variant	4485			D38441	CCDS2801.1	3p21	2013-05-29	2013-05-29		ENSG00000164062	ENSG00000164062	3.4.19.1		586	protein-coding gene	gene with protein product	"acylaminoacyl-peptidase"	102645	"N-acylaminoacyl-peptide hydrolase"	D3F15S2, DNF15S2, D3S48E		2392324	Standard	NM_001640		Approved		uc003cxf.3	P13798	OTTHUMG00000156882		3.37:g.49723112delT		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BQ33|Q9P0Y2	Frame_Shift_Del	DEL	ENST00000296456.5	37	CCDS2801.1																																																																																				0.587	APEH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346415.2			-	49723112	T	-	49723112	6	5	607	0	1	1	0	1	0	0	0	0	9897	1725	60	0		0	MST1	3	49723112	IGR	DEL	T	TCGA-HE-A5NF-01A-11D-A26P-10	5230178	49723112	148299318	15	36740										
RPL24	6152	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	101404668	101404668	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	cgtattccacttaccgactgTccctttttgtgcttccttct	5	14	1	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr3:101404668T>C	ENST00000394077.3	-	3	291	c.186A>G	c.(184-186)ggA>ggG	p.G62G	RPL24_ENST00000469605.1_Silent_p.G62G|RPL24_ENST00000495401.1_Silent_p.G62G	NM_000986.3	NP_000977.1	P83731	RL24_HUMAN	ribosomal protein L24	62					cellular protein metabolic process (GO:0044267)|exit from mitosis (GO:0010458)|gene expression (GO:0010467)|mitotic cell cycle checkpoint (GO:0007093)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|optic nerve development (GO:0021554)|retina development in camera-type eye (GO:0060041)|retinal ganglion cell axon guidance (GO:0031290)|ribosomal large subunit assembly (GO:0000027)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|structural constituent of ribosome (GO:0003735)			large_intestine(1)|lung(2)|urinary_tract(1)	4						TTACCGACTGTCCCTTTTTGT	0.443																																																0													89	78	81					3																	101404668		2203	4300	6503	SO:0001819	synonymous_variant	6152			AB007177	CCDS33809.1	3q12	2011-04-06			ENSG00000114391	ENSG00000114391		"L ribosomal proteins"	10325	protein-coding gene	gene with protein product		604180				9582194	Standard	NM_000986		Approved	L24	uc003dvh.1	P83731	OTTHUMG00000159146	ENST00000394077.3:c.186A>G	3.37:g.101404668T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R4Y3|P38663|Q6IBS3	Silent	SNP	ENST00000394077.3	37	CCDS33809.1																																																																																				0.443	RPL24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353487.1	NM_000986		C	101404668	T	C	101404668	2	2	607	1	0	0	0	0	0	0	0	1	13585	1654	58	3		3	RPL24	3	101404668	Silent	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10	51681556	101404668	96617762	16	36741										
ZBTB20	26137	broad.mit.edu	37	chr3	114070690	114070690	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	gttgtgaaggttgatgctgtGaatgcgctcggtcatcccct	13	9	1	3			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr3:114070690G>A	ENST00000474710.1	-	4	413	c.235C>T	c.(235-237)Cac>Tac	p.H79Y	ZBTB20_ENST00000357258.3_Missense_Mutation_p.H6Y|ZBTB20-AS1_ENST00000496219.1_RNA|ZBTB20-AS1_ENST00000467304.1_RNA|ZBTB20_ENST00000464560.1_Missense_Mutation_p.H6Y|ZBTB20_ENST00000481632.1_Missense_Mutation_p.H6Y|ZBTB20_ENST00000462705.1_Missense_Mutation_p.H6Y|ZBTB20_ENST00000471418.1_Missense_Mutation_p.H6Y|ZBTB20_ENST00000393785.2_Missense_Mutation_p.H6Y|ZBTB20-AS1_ENST00000475939.1_RNA	NM_001164342.1	NP_001157814.1	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20	79						nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)			breast(1)|central_nervous_system(1)|endometrium(10)|kidney(2)|large_intestine(8)|lung(15)|ovary(4)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	48				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		TTGATGCTGTGAATGCGCTCG	0.547																																					NSCLC(69;748 1344 9802 11203 30933)											0													75	77	76					3																	114070690		2203	4299	6502	SO:0001583	missense	26137			AF139460	CCDS2981.1, CCDS54626.1	3q13.2	2013-01-08	2004-07-16	2004-07-16	ENSG00000181722	ENSG00000181722		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	13503	protein-coding gene	gene with protein product		606025	"zinc finger protein 288"	ZNF288		10965110, 11352661	Standard	XM_005247339		Approved	ODA-8S, DKFZp566F123, DPZF	uc003ebi.3	Q9HC78	OTTHUMG00000159366	ENST00000474710.1:c.235C>T	3.37:g.114070690G>A	ENSP00000419153:p.His79Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q63HP6|Q8N6R5|Q9Y410	Missense_Mutation	SNP	ENST00000474710.1	37	CCDS54626.1	.	.	.	.	.	.	.	.	.	.	G	18.15	3.559799	0.65538	.	.	ENSG00000181722	ENST00000462705;ENST00000393785;ENST00000481632;ENST00000471418;ENST00000474710;ENST00000357258;ENST00000464560;ENST00000470311	T;T;T;T;T;T;T;T	0.45276	2.94;2.94;2.94;2.94;2.91;2.94;2.94;0.9	6.1	5.23	0.72850	BTB/POZ fold (1);	0.049382	0.85682	N	0.000000	T	0.53706	0.1813	L	0.39085	1.19	0.80722	D	1	D	0.57899	0.981	D	0.65140	0.932	T	0.57636	-0.7777	10	0.87932	D	0	.	15.4094	0.74905	0.0662:0.0:0.9338:0.0	.	79	Q9HC78	ZBT20_HUMAN	Y	6;6;6;6;79;6;6;6	ENSP00000420324:H6Y;ENSP00000377375:H6Y;ENSP00000418092:H6Y;ENSP00000419902:H6Y;ENSP00000419153:H79Y;ENSP00000349803:H6Y;ENSP00000417307:H6Y;ENSP00000420684:H6Y	ENSP00000349803:H6Y	H	-	1	0	ZBTB20	115553380	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.476000	0.97823	1.601000	0.50113	0.650000	0.86243	CAC		0.547	ZBTB20-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000354951.1	NM_015642		A	114070690	G	A	114070690	3	1	607	1	0	0	0	0	1	0	0	0	17541	1290	45	2	1998	2	ZBTB20	3	114070690	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	12666022	114070690	83951740	17	36742										
STAG1	10274	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	136060303	136060303	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	acagcatgcctcactccagtTctcactttcatgtagttcat	5	13	4	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr3:136060303T>A	ENST00000383202.2	-	31	3793	c.3537A>T	c.(3535-3537)agA>agT	p.R1179S	STAG1_ENST00000434713.2_Missense_Mutation_p.R919S|STAG1_ENST00000536929.1_Missense_Mutation_p.R763S|STAG1_ENST00000236698.5_Intron	NM_005862.2	NP_005853.2	Q8WVM7	STAG1_HUMAN	stromal antigen 1	1179					chromosome segregation (GO:0007059)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	cell junction (GO:0030054)|chromatin (GO:0000785)|chromosome (GO:0005694)|chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)			NS(2)|breast(4)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(16)|lung(16)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	58						TCACTCCAGTTCTCACTTTCA	0.423																																																0													273	206	228					3																	136060303		2203	4300	6503	SO:0001583	missense	10274			Z75330	CCDS3090.1	3q22.2-q22.3	2011-08-12			ENSG00000118007	ENSG00000118007			11354	protein-coding gene	gene with protein product		604358				9305759	Standard	XM_006713471		Approved	SA-1, SCC3A	uc003era.1	Q8WVM7	OTTHUMG00000159798	ENST00000383202.2:c.3537A>T	3.37:g.136060303T>A	ENSP00000372689:p.Arg1179Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O00539|Q6P275	Missense_Mutation	SNP	ENST00000383202.2	37	CCDS3090.1	.	.	.	.	.	.	.	.	.	.	T	20.3	3.970648	0.74246	.	.	ENSG00000118007	ENST00000383202;ENST00000434713;ENST00000536929	T;T;T	0.50277	1.31;0.75;0.97	5.91	3.52	0.40303	.	0.100808	0.64402	D	0.000003	T	0.50633	0.1627	M	0.63843	1.955	0.54753	D	0.999983	D	0.60160	0.987	P	0.54174	0.744	T	0.47724	-0.9095	10	0.13108	T	0.6	.	8.6846	0.34229	0.0:0.2062:0.0:0.7938	.	1179	Q8WVM7	STAG1_HUMAN	S	1179;919;763	ENSP00000372689:R1179S;ENSP00000404396:R919S;ENSP00000445787:R763S	ENSP00000372689:R1179S	R	-	3	2	STAG1	137542993	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	0.775000	0.26689	0.483000	0.27608	0.528000	0.53228	AGA		0.423	STAG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357366.1	NM_005862		A	136060303	T	A	136060303	3	1	607	1	0	0	0	0	1	0	0	0	15254	1780	62	5	255	5	STAG1	3	136060303	Missense_Mutation	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10	21989613	136060303	61962127	18	36743										
UBE2K	3093	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	39757353	39757353	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ttgtttggatatcctgaaagAtcaatggtaagagattttga	10	3	1	4			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr4:39757353A>G	ENST00000261427.5	+	4	577	c.293A>G	c.(292-294)gAt>gGt	p.D98G	UBE2K_ENST00000503368.1_Missense_Mutation_p.D47G|UBE2K_ENST00000295963.6_Intron|UBE2K_ENST00000438068.2_3'UTR|UBE2K_ENST00000445950.2_Missense_Mutation_p.D98G	NM_001111112.1|NM_005339.4	NP_001104582.1|NP_005330.1	P61086	UBE2K_HUMAN	ubiquitin-conjugating enzyme E2K	98					intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress (GO:0070059)|protein K48-linked ubiquitination (GO:0070936)|regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032434)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	acid-amino acid ligase activity (GO:0016881)|ATP binding (GO:0005524)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activity (GO:0004842)|ubiquitin-ubiquitin ligase activity (GO:0034450)			large_intestine(1)|lung(1)|ovary(2)	4						ATCCTGAAAGATCAATGGTAA	0.343																																					NSCLC(101;689 1592 16105 29682 31745)											0													152	150	151					4																	39757353		2203	4300	6503	SO:0001583	missense	3093			U58522	CCDS33976.1, CCDS47043.1, CCDS47044.1	4p14	2011-05-19	2011-05-19	2007-12-04	ENSG00000078140	ENSG00000078140		"Ubiquitin-conjugating enzymes E2"	4914	protein-coding gene	gene with protein product		602846	"huntingtin interacting protein 2", "ubiquitin-conjugating enzyme E2K (UBC1 homolog, yeast)"	HIP2		8702625, 17873885	Standard	NM_005339		Approved	HYPG, UBC1	uc003guu.4	P61086	OTTHUMG00000160543	ENST00000261427.5:c.293A>G	4.37:g.39757353A>G	ENSP00000261427:p.Asp98Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJC1|A8K5Y9|B2RDF8|C9JGP1|O54806|P27924|Q16721|Q9CVV9|Q9Y2D3	Missense_Mutation	SNP	ENST00000261427.5	37	CCDS33976.1	.	.	.	.	.	.	.	.	.	.	A	28.0	4.885370	0.91814	.	.	ENSG00000078140	ENST00000261427;ENST00000503368;ENST00000445950	T;T;T	0.72835	-0.69;-0.69;-0.69	5.98	5.98	0.97165	Ubiquitin-conjugating enzyme, E2 (2);Ubiquitin-conjugating enzyme/RWD-like (2);	0.000000	0.85682	D	0.000000	D	0.82935	0.5145	M	0.74467	2.265	0.80722	D	1	D;D;B	0.61697	0.97;0.99;0.034	D;D;B	0.66497	0.925;0.944;0.131	D	0.84525	0.0630	10	0.62326	D	0.03	-22.3267	15.4553	0.75308	1.0:0.0:0.0:0.0	.	98;47;98	P61086;P61086-2;C9JGP1	UBE2K_HUMAN;.;.	G	98;47;98	ENSP00000261427:D98G;ENSP00000421203:D47G;ENSP00000390483:D98G	ENSP00000261427:D98G	D	+	2	0	UBE2K	39433748	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.872000	0.92352	2.296000	0.77279	0.482000	0.46254	GAT		0.343	UBE2K-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361061.1	NM_005339		G	39757353	A	G	39757353	3	3	607	1	0	0	0	0	1	0	0	0	16874	333	12	3	307	3	UBE2K	4	39757353	Missense_Mutation	SNP	A	TCGA-HE-A5NF-01A-11D-A26P-10		39757353	151396923	19	36744										
OCIAD2	132299	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	48887522	48887522	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	taggaagctgaaggctgagaGtctcccttctcacttaatcc	9	11	2	2			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr4:48887522G>T	ENST00000508632.1	-	7	676	c.444C>A	c.(442-444)gaC>gaA	p.D148E	OCIAD2_ENST00000508069.2_5'UTR|OCIAD2_ENST00000273860.4_3'UTR	NM_001014446.1	NP_001014446.1	Q56VL3	OCAD2_HUMAN	OCIA domain containing 2	148						endosome (GO:0005768)|mitochondrial inner membrane (GO:0005743)				kidney(1)|lung(3)|skin(1)|urinary_tract(1)	6						AAGGCTGAGAGTCTCCCTTCT	0.368																																																0													185	180	182					4																	48887522		2203	4300	6503	SO:0001583	missense	132299			BC032808	CCDS3485.1, CCDS33981.1	4p12	2013-10-11			ENSG00000145247	ENSG00000145247			28685	protein-coding gene	gene with protein product						17054434	Standard	NM_001286774		Approved	MGC45416	uc003gyt.3	Q56VL3	OTTHUMG00000128626	ENST00000508632.1:c.444C>A	4.37:g.48887522G>T	ENSP00000423014:p.Asp148Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DPE7|Q8N544	Missense_Mutation	SNP	ENST00000508632.1	37	CCDS33981.1	.	.	.	.	.	.	.	.	.	.	G	5.308	0.242112	0.10077	.	.	ENSG00000145247	ENST00000508632	T	0.41758	0.99	5.25	-4.51	0.03483	.	0.562361	0.17338	N	0.177837	T	0.15349	0.0370	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.18178	-1.0345	9	.	.	.	1.3177	6.0446	0.19752	0.3698:0.2579:0.3723:0.0	.	148	Q56VL3	OCAD2_HUMAN	E	148	ENSP00000423014:D148E	.	D	-	3	2	OCIAD2	48582279	0.006000	0.16342	0.000000	0.03702	0.004000	0.04260	-0.089000	0.11180	-1.031000	0.03308	-0.302000	0.09304	GAC		0.368	OCIAD2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361984.5	NM_152398		T	48887522	G	T	48887522	3	4	607	1	0	0	0	0	1	0	0	0	10825	1020	36	4	24	4	OCIAD2	4	48887522	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	9130169	48887522	142266754	20	36745										
DSPP	1834	bcgsc.ca	37	chr4	88536953	88536953	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	gcgatagcagtgacagcagcGatagcagtgacagcagtgac	14	9	0	3	rs200486992		TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr4:88536953G>A	ENST00000282478.7	+	4	3172	c.3139G>A	c.(3139-3141)Gat>Aat	p.D1047N	DSPP_ENST00000399271.1_Missense_Mutation_p.D1047N|RP11-742B18.1_ENST00000506480.1_RNA			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	1047	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		tgacagcagcgatagcagtga	0.527																																																0													46	57	53					4																	88536953		1537	2773	4310	SO:0001583	missense	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.3139G>A	4.37:g.88536953G>A	ENSP00000282478:p.Asp1047Asn	Somatic		WXS	Illumina HiSeq	Phase_1	A8MUI0|O95815	Missense_Mutation	SNP	ENST00000282478.7	37	CCDS43248.1	.	.	.	.	.	.	.	.	.	.	g	3.566	-0.088574	0.07097	.	.	ENSG00000152591	ENST00000399271;ENST00000282478	D;D	0.88201	-2.35;-2.35	1.51	-1.84	0.07809	.	.	.	.	.	T	0.78355	0.4270	L	0.34521	1.04	0.09310	N	1	B	0.26708	0.157	B	0.08055	0.003	T	0.61637	-0.7022	9	0.38643	T	0.18	.	5.2365	0.15448	0.5606:0.0:0.4394:0.0	.	1047	Q9NZW4	DSPP_HUMAN	N	1047	ENSP00000382213:D1047N;ENSP00000282478:D1047N	ENSP00000282478:D1047N	D	+	1	0	DSPP	88755977	0.032000	0.19561	0.079000	0.20413	0.006000	0.05464	0.451000	0.21779	-0.607000	0.05738	-0.791000	0.03333	GAT		0.527	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		A	88536953	G	A	88536953	3	1	607	1	0	0	0	0	1	0	0	0	4784	1058	37	1	3153	1	DSPP	4	88536953	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	39649431	88536953	102617323	21	36746										
ADH1B	125	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	100231924	100231924	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	aactaacttaaaatctacctTttcccagagtgaagcaggtc	6	10	1	2			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr4:100231924T>C	ENST00000305046.8	-	8	1168	c.1101A>G	c.(1099-1101)aaA>aaG	p.K367K	ADH1B_ENST00000394887.3_Silent_p.K327K			P00325	ADH1B_HUMAN	alcohol dehydrogenase 1B (class I), beta polypeptide	367					ethanol oxidation (GO:0006069)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)	alcohol dehydrogenase activity, zinc-dependent (GO:0004024)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(5)|lung(12)|ovary(1)|prostate(2)|skin(2)|urinary_tract(1)	33				OV - Ovarian serous cystadenocarcinoma(123;1.02e-07)	Ethanol(DB00898)|Fomepizole(DB01213)	AAATCTACCTTTTCCCAGAGT	0.333																																																0													72	72	72					4																	100231924		2202	4300	6502	SO:0001819	synonymous_variant	125			AF153821	CCDS34033.1, CCDS68761.1	4q23	2008-02-05	2007-11-06		ENSG00000196616	ENSG00000196616	1.1.1.1	"Alcohol dehydrogenases"	250	protein-coding gene	gene with protein product		103720		ADH2		3006456	Standard	NM_000668		Approved		uc003hus.4	P00325	OTTHUMG00000161413	ENST00000305046.8:c.1101A>G	4.37:g.100231924T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8MYN5|B4DRS9|B4DVC3|Q13711|Q4ZGI9|Q96KI7	Silent	SNP	ENST00000305046.8	37	CCDS34033.1																																																																																				0.333	ADH1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364853.1	NM_000668		C	100231924	T	C	100231924	2	2	607	1	0	0	0	0	0	0	0	1	308	1838	64	3		3	ADH1B	4	100231924	Silent	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10	11694971	100231924	90922352	22	36747										
FAT4	79633	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	126408614	126408614	+	Frame_Shift_Del	DEL	A	A	-													0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ggcacacttttctaattgggAaaaatggaacagcaacagta							TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr4:126408614delA	ENST00000394329.3	+	16	12944	c.12931delA	c.(12931-12933)aaafs	p.K4311fs	FAT4_ENST00000335110.5_Frame_Shift_Del_p.K2552fs	NM_024582.4	NP_078858.4	Q6V0I7	FAT4_HUMAN	FAT atypical cadherin 4	4311	Laminin G-like 2. {ECO:0000255|PROSITE- ProRule:PRU00122}.				branching involved in ureteric bud morphogenesis (GO:0001658)|cerebral cortex development (GO:0021987)|digestive tract development (GO:0048565)|heart morphogenesis (GO:0003007)|heterophilic cell-cell adhesion (GO:0007157)|hippo signaling (GO:0035329)|homophilic cell adhesion (GO:0007156)|inner ear receptor stereocilium organization (GO:0060122)|neurogenesis (GO:0022008)|ossification involved in bone maturation (GO:0043931)|plasma membrane organization (GO:0007009)|regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072307)	apical part of cell (GO:0045177)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(6)|autonomic_ganglia(1)|breast(4)|central_nervous_system(3)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(3)|kidney(10)|large_intestine(93)|liver(3)|lung(120)|ovary(9)|pancreas(2)|prostate(21)|skin(31)|stomach(1)|upper_aerodigestive_tract(12)|urinary_tract(6)	355						TCTAATTGGGAAAAATGGAAC	0.403																																																0													82	83	83					4																	126408614		2203	4300	6503	SO:0001589	frameshift_variant	79633			AY356402	CCDS3732.3	4q28.1	2013-05-31	2013-05-31		ENSG00000196159	ENSG00000196159		"Cadherins / Cadherin-related"	23109	protein-coding gene	gene with protein product	"cadherin-related family member 11"	612411	"FAT tumor suppressor homolog 4 (Drosophila)"			15003449	Standard	NM_024582		Approved	CDHF14, FAT-J, CDHR11	uc003ifj.4	Q6V0I7	OTTHUMG00000133100	ENST00000394329.3:c.12931delA	4.37:g.126408614delA	ENSP00000377862:p.Lys4311fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5Z6|B5MDG4|Q3LIA6|Q8TCK7|Q9H5T6	Frame_Shift_Del	DEL	ENST00000394329.3	37	CCDS3732.3																																																																																				0.403	FAT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256765.2	NM_024582		-	126408614	A	-	126408614	7	5	607	1	0	1	0	1	0	0	0	0	5699	247	9	0	12993	0	FAT4	4	126408614	Frame_Shift_Del	DEL	A	TCGA-HE-A5NF-01A-11D-A26P-10	26176690	126408614	64745662	23	36748										
SLC6A3	6531	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	1394869	1394869	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	tctacaccttgagccagtggCggagctggaaagaaaacagg	13	9	1	2			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr5:1394869C>T	ENST00000270349.9	-	15	1971	c.1844G>A	c.(1843-1845)cGc>cAc	p.R615H	SLC6A3_ENST00000453492.2_Missense_Mutation_p.R615H	NM_001044.4	NP_001035.1	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter transporter), member 3	615					adenohypophysis development (GO:0021984)|aging (GO:0007568)|cation transmembrane transport (GO:0098655)|cell death (GO:0008219)|dopamine biosynthetic process (GO:0042416)|dopamine catabolic process (GO:0042420)|dopamine transport (GO:0015872)|lactation (GO:0007595)|locomotory behavior (GO:0007626)|monoamine transport (GO:0015844)|neurotransmitter biosynthetic process (GO:0042136)|positive regulation of multicellular organism growth (GO:0040018)|prepulse inhibition (GO:0060134)|regulation of dopamine metabolic process (GO:0042053)|response to cAMP (GO:0051591)|response to cocaine (GO:0042220)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to iron ion (GO:0010039)|response to nicotine (GO:0035094)|sensory perception of smell (GO:0007608)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	axon (GO:0030424)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	dopamine binding (GO:0035240)|dopamine transmembrane transporter activity (GO:0005329)|dopamine:sodium symporter activity (GO:0005330)|drug binding (GO:0008144)|monoamine transmembrane transporter activity (GO:0008504)	p.R615P(1)		breast(2)|endometrium(4)|kidney(1)|large_intestine(3)|lung(19)|ovary(4)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	38			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amoxapine(DB00543)|Amphetamine(DB00182)|Atomoxetine(DB00289)|Benzatropine(DB00245)|Benzphetamine(DB00865)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Chlorphenamine(DB01114)|Citalopram(DB00215)|Cocaine(DB00907)|Dexmethylphenidate(DB06701)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Diphenylpyraline(DB01146)|Dopamine(DB00988)|Duloxetine(DB00476)|Ephedra(DB01363)|Escitalopram(DB01175)|Fencamfamine(DB01463)|Imipramine(DB00458)|Ioflupane I 123(DB08824)|Lisdexamfetamine(DB01255)|Loxapine(DB00408)|Mazindol(DB00579)|Methamphetamine(DB01577)|Methylphenidate(DB00422)|Mianserin(DB06148)|Mirtazapine(DB00370)|Modafinil(DB00745)|Nefazodone(DB01149)|Pethidine(DB00454)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)|Pseudoephedrine(DB00852)|Sertraline(DB01104)|Sibutramine(DB01105)|Trimipramine(DB00726)|Venlafaxine(DB00285)	GAGCCAGTGGCGGAGCTGGAA	0.522																																																1	Substitution - Missense(1)	lung(1)											101	100	100					5																	1394869		2203	4300	6503	SO:0001583	missense	6531				CCDS3863.1	5p15.3	2013-07-19	2013-07-19		ENSG00000142319	ENSG00000142319		"Solute carriers"	11049	protein-coding gene	gene with protein product	"dopamine transporter"	126455	"solute carrier family 6 (neurotransmitter transporter, dopamine), member 3", "dopamine transporter 1"	DAT1		1406597	Standard	NM_001044		Approved	DAT	uc003jck.3	Q01959	OTTHUMG00000131016	ENST00000270349.9:c.1844G>A	5.37:g.1394869C>T	ENSP00000270349:p.Arg615His	Somatic		WXS	Illumina HiSeq	Phase_I	A2RUN4|Q14996	Missense_Mutation	SNP	ENST00000270349.9	37	CCDS3863.1	.	.	.	.	.	.	.	.	.	.	C	11.40	1.627534	0.28978	.	.	ENSG00000142319	ENST00000270349;ENST00000453492	T;T	0.74632	-0.86;-0.86	4.79	2.97	0.34412	.	0.585459	0.14305	N	0.328004	T	0.53834	0.1821	N	0.12182	0.205	0.32012	N	0.60198	B	0.16802	0.019	B	0.13407	0.009	T	0.56643	-0.7945	10	0.49607	T	0.09	.	6.8118	0.23809	0.0:0.7896:0.0:0.2104	.	615	Q01959	SC6A3_HUMAN	H	615	ENSP00000270349:R615H;ENSP00000399806:R615H	ENSP00000270349:R615H	R	-	2	0	SLC6A3	1447869	1.000000	0.71417	0.999000	0.59377	0.917000	0.54804	0.574000	0.23714	1.139000	0.42245	0.655000	0.94253	CGC		0.522	SLC6A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253650.3	NM_001044		T	1394869	C	T	1394869	3	4	607	1	0	0	0	0	1	0	0	0	14698	768	27	1	22	1	SLC6A3	5	1394869	Missense_Mutation	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10		1394869	179520391	24	36749										
MEGF10	84466	hgsc.bcm.edu;ucsc.edu	37	chr5	126790286	126790286	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ggacttgacagaagctatatGggaaaatccttaaaaggtat	10	5	0	2			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr5:126790286G>T	ENST00000274473.6	+	24	3276	c.3009G>T	c.(3007-3009)atG>atT	p.M1003I	MEGF10_ENST00000503335.2_Missense_Mutation_p.M1003I|MEGF10_ENST00000510828.1_3'UTR	NM_032446.2	NP_115822.1	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10	1003	Necessary for formation of large intracellular vacuoles.				homotypic cell-cell adhesion (GO:0034109)|muscle cell development (GO:0055001)|recognition of apoptotic cell (GO:0043654)|regulation of muscle cell differentiation (GO:0051147)|regulation of skeletal muscle tissue development (GO:0048641)|skeletal muscle satellite cell activation (GO:0014719)|skeletal muscle satellite cell differentiation (GO:0014816)|skeletal muscle satellite cell proliferation (GO:0014841)	cell projection (GO:0042995)|integral component of membrane (GO:0016021)|phagocytic cup (GO:0001891)				breast(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(10)|lung(28)|ovary(4)|prostate(2)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	68		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)		GAAGCTATATGGGAAAATCCT	0.328																																																0													71	73	72					5																	126790286		2203	4300	6503	SO:0001583	missense	84466			AK021631	CCDS4142.1	5q33	2008-02-05			ENSG00000145794	ENSG00000145794			29634	protein-coding gene	gene with protein product		612453				11347906	Standard	NM_032446		Approved	KIAA1780	uc003kui.4	Q96KG7	OTTHUMG00000128984	ENST00000274473.6:c.3009G>T	5.37:g.126790286G>T	ENSP00000274473:p.Met1003Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DE5|Q8WUL3	Missense_Mutation	SNP	ENST00000274473.6	37	CCDS4142.1	.	.	.	.	.	.	.	.	.	.	G	13.08	2.130925	0.37630	.	.	ENSG00000145794	ENST00000503335;ENST00000274473	T;T	0.79940	-1.32;-1.32	6.03	5.16	0.70880	.	0.346611	0.28847	N	0.013959	T	0.62925	0.2468	N	0.08118	0	0.37163	D	0.902706	B	0.02656	0.0	B	0.04013	0.001	T	0.61461	-0.7058	10	0.24483	T	0.36	-5.9793	12.4451	0.55647	0.1344:0.0:0.8656:0.0	.	1003	Q96KG7	MEG10_HUMAN	I	1003	ENSP00000423354:M1003I;ENSP00000274473:M1003I	ENSP00000274473:M1003I	M	+	3	0	MEGF10	126818185	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	3.346000	0.52190	1.558000	0.49541	0.655000	0.94253	ATG		0.328	MEGF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250973.2	NM_032446		T	126790286	G	T	126790286	3	4	607	1	0	0	0	0	1	0	0	0	9467	1348	47	4	3095	4	MEGF10	5	126790286	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	125395417	126790286	54124974	25	36750										
CTNNA1	1495	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	138118896	138118897	+	Frame_Shift_Del	DEL	GG	GG	-													0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ttgtaaacaccaatagtaaaGggccctctaataagaagaga							TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr5:138118896_138118897delGG	ENST00000302763.7	+	3	226_227	c.136_137delGG	c.(136-138)gggfs	p.G46fs	CTNNA1_ENST00000518825.1_Frame_Shift_Del_p.G46fs|CTNNA1_ENST00000355078.5_Intron	NM_001903.2	NP_001894.2	P35221	CTNA1_HUMAN	catenin (cadherin-associated protein), alpha 1, 102kDa	46	Involved in homodimerization.				adherens junction organization (GO:0034332)|aging (GO:0007568)|apical junction assembly (GO:0043297)|axon regeneration (GO:0031103)|cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|cellular protein localization (GO:0034613)|cellular response to indole-3-methanol (GO:0071681)|epithelial cell-cell adhesion (GO:0090136)|establishment or maintenance of cell polarity (GO:0007163)|gap junction assembly (GO:0016264)|male gonad development (GO:0008584)|muscle cell differentiation (GO:0042692)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell motility (GO:2000146)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of integrin-mediated signaling pathway (GO:2001045)|negative regulation of neuroblast proliferation (GO:0007406)|odontogenesis of dentin-containing tooth (GO:0042475)|ovarian follicle development (GO:0001541)|positive regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001241)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of smoothened signaling pathway (GO:0045880)|protein heterooligomerization (GO:0051291)|response to estrogen (GO:0043627)	acrosomal vesicle (GO:0001669)|actin cytoskeleton (GO:0015629)|catenin complex (GO:0016342)|cell-cell junction (GO:0005911)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|intercalated disc (GO:0014704)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)|zonula adherens (GO:0005915)	beta-catenin binding (GO:0008013)|cadherin binding (GO:0045296)|gamma-catenin binding (GO:0045295)|poly(A) RNA binding (GO:0044822)|structural molecule activity (GO:0005198)|vinculin binding (GO:0017166)			NS(1)|breast(7)|cervix(2)|endometrium(4)|kidney(6)|large_intestine(16)|lung(9)|oesophagus(2)|ovary(3)|prostate(1)|upper_aerodigestive_tract(1)	52			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CAATAGTAAAGGGCCCTCTAAT	0.356																																																0																																										SO:0001589	frameshift_variant	1495			D13866	CCDS34243.1, CCDS75315.1	5q31.2	2008-02-05	2002-08-29			ENSG00000044115			2509	protein-coding gene	gene with protein product		116805	"catenin (cadherin-associated protein), alpha 1 (102kD)"			1924379	Standard	XM_005271898		Approved	CAP102	uc003ldh.3	P35221		ENST00000302763.7:c.136_137delGG	5.37:g.138118896_138118897delGG	ENSP00000304669:p.Gly46fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q12795|Q8N1C0	Frame_Shift_Del	DEL	ENST00000302763.7	37	CCDS34243.1																																																																																				0.356	CTNNA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373868.1	NM_001903		-	138118897	GG	-	138118896	7	5	607	1	0	1	0	1	0	0	0	0	4014	1000	35	0	142	0	CTNNA1	5	138118896	Frame_Shift_Del	DEL	GG	TCGA-HE-A5NF-01A-11D-A26P-10	11328610	138118896	42796364	26	36751										
SPINK13	153218	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	147661756	147661756	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	gtttgtgcctcaaatggccaCactttccagaatgagtgttt	9	9	1	2			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr5:147661756C>T	ENST00000512953.1	+	5	729	c.198C>T	c.(196-198)caC>caT	p.H66H	RP11-373N22.3_ENST00000501695.3_RNA|SPINK13_ENST00000511106.1_Silent_p.H26H|SPINK13_ENST00000398450.4_Silent_p.H66H			Q1W4C9	ISK13_HUMAN	serine peptidase inhibitor, Kazal type 13 (putative)	66	Kazal-like. {ECO:0000255|PROSITE- ProRule:PRU00798}.				negative regulation of acrosome reaction (GO:1902225)	extracellular region (GO:0005576)	serine-type endopeptidase inhibitor activity (GO:0004867)			breast(2)|lung(3)	5						CAAATGGCCACACTTTCCAGA	0.403																																																0													159	144	149					5																	147661756		1920	4136	6056	SO:0001819	synonymous_variant	153218				CCDS43383.1	5q32	2011-08-31			ENSG00000214510	ENSG00000214510		"Serine peptidase inhibitors, Kazal type"	27200	protein-coding gene	gene with protein product		615205					Standard	NM_001040129		Approved	SPINK5L3, LiESP6, HESPINTOR, MGC149260, HBVDNAPTP1	uc003lpc.3	Q1W4C9	OTTHUMG00000163426	ENST00000512953.1:c.198C>T	5.37:g.147661756C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A1A4Y2	Silent	SNP	ENST00000512953.1	37	CCDS43383.1																																																																																				0.403	SPINK13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373337.1	NM_001040129.2		T	147661756	C	T	147661756	2	4	607	1	0	0	0	0	0	0	0	1	15070	477	17	2		2	SPINK13	5	147661756	Silent	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10	9542860	147661756	33253504	27	36752										
ADAM19	8728	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	156908922	156908922	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	actgggtttgccgggagtgcCttctggggcggccgaggcct	18	11	1	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr5:156908922C>A	ENST00000517905.1	-	22	2624	c.2580G>T	c.(2578-2580)aaG>aaT	p.K860N	ADAM19_ENST00000394020.1_Missense_Mutation_p.K862N|ADAM19_ENST00000257527.4_Missense_Mutation_p.K860N|ADAM19_ENST00000430702.2_Intron			Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19	860					heart development (GO:0007507)|membrane protein ectodomain proteolysis (GO:0006509)	integral component of membrane (GO:0016021)	metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(33)|ovary(3)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	53	Renal(175;0.00488)	Medulloblastoma(196;0.0359)|all_neural(177;0.14)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CCGGGAGTGCCTTCTGGGGCG	0.622																																																0													12	15	14					5																	156908922		2201	4297	6498	SO:0001583	missense	8728			AF311317	CCDS4338.1	5q33.3	2010-06-24	2010-06-24		ENSG00000135074	ENSG00000135074		"ADAM metallopeptidase domain containing"	197	protein-coding gene	gene with protein product	"meltrin beta"	603640	"a disintegrin and metalloproteinase domain 19 (meltrin beta)"			9806848	Standard	NM_033274		Approved	MLTNB	uc003lwz.4	Q9H013	OTTHUMG00000130242	ENST00000517905.1:c.2580G>T	5.37:g.156908922C>A	ENSP00000428654:p.Lys860Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BZL5|Q9UHP2	Missense_Mutation	SNP	ENST00000517905.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	20.8|20.8	4.047583|4.047583	0.75846|0.75846	.|.	.|.	ENSG00000135074|ENSG00000135074	ENST00000257527;ENST00000394020;ENST00000517905|ENST00000517374	T;T;T|.	0.01854|.	4.61;4.62;4.6|.	5.51|5.51	1.19|1.19	0.21007|0.21007	.|.	0.184073|.	0.37809|.	N|.	0.001925|.	T|T	0.50205|0.50205	0.1602|0.1602	L|L	0.50333|0.50333	1.59|1.59	0.35227|0.35227	D|D	0.776606|0.776606	D;D|.	0.76494|.	0.999;0.997|.	D;P|.	0.69479|.	0.964;0.888|.	T|T	0.54827|0.54827	-0.8235|-0.8235	10|5	0.87932|.	D|.	0|.	.|.	7.8|7.8	0.29168|0.29168	0.0:0.5227:0.0:0.4773|0.0:0.5227:0.0:0.4773	.|.	860;860|.	Q9H013-2;Q9H013|.	.;ADA19_HUMAN|.	N|M	860;862;860|431	ENSP00000257527:K860N;ENSP00000377588:K862N;ENSP00000428654:K860N|.	ENSP00000257527:K860N|.	K|R	-|-	3|2	2|0	ADAM19|ADAM19	156841500|156841500	0.995000|0.995000	0.38212|0.38212	0.997000|0.997000	0.53966|0.53966	0.977000|0.977000	0.68977|0.68977	0.140000|0.140000	0.16056|0.16056	0.304000|0.304000	0.22809|0.22809	0.561000|0.561000	0.74099|0.74099	AAG|AGG		0.622	ADAM19-003	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000373918.1	NM_033274		A	156908922	C	A	156908922	3	1	607	1	0	0	0	0	1	0	0	0	240	680	24	4	184	4	ADAM19	5	156908922	Missense_Mutation	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10	9247166	156908922	24006338	28	36753										
FLT4	2324	broad.mit.edu	37	chr5	180055903	180055903	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	actggaactcgggcggggggTacgctgccagcttcacgggc	17	12	1	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr5:180055903T>G	ENST00000261937.6	-	8	1160	c.1082A>C	c.(1081-1083)tAc>tCc	p.Y361S	FLT4_ENST00000502649.1_Missense_Mutation_p.Y361S|FLT4_ENST00000424276.2_5'UTR|FLT4_ENST00000393347.3_Missense_Mutation_p.Y361S	NM_182925.4	NP_891555.2	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4	361	Ig-like C2-type 4.				blood vessel morphogenesis (GO:0048514)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|lymph vessel development (GO:0001945)|lymphangiogenesis (GO:0001946)|negative regulation of apoptotic process (GO:0043066)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of cell proliferation (GO:0008284)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of JNK cascade (GO:0046330)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of protein kinase C signaling (GO:0090037)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation vascular endothelial growth factor production (GO:0010575)|protein autophosphorylation (GO:0046777)|regulation of blood vessel remodeling (GO:0060312)|sprouting angiogenesis (GO:0002040)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)|vascular endothelial growth factor signaling pathway (GO:0038084)|vasculature development (GO:0001944)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|growth factor binding (GO:0019838)|protein phosphatase binding (GO:0019903)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)|vascular endothelial growth factor-activated receptor activity (GO:0005021)			NS(1)|breast(3)|central_nervous_system(2)|endometrium(1)|kidney(6)|large_intestine(5)|liver(2)|lung(37)|ovary(6)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	71	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)	Axitinib(DB06626)|Pazopanib(DB06589)|Regorafenib(DB08896)|Sorafenib(DB00398)|Sunitinib(DB01268)	GGGCGGGGGGTACGCTGCCAG	0.632																																					Colon(97;1075 1466 27033 27547 35871)											0													29	31	30					5																	180055903		2200	4295	6495	SO:0001583	missense	2324			X68203	CCDS4457.1, CCDS43412.1	5q34-q35	2013-01-29			ENSG00000037280	ENSG00000037280	2.7.10.1	"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	3767	protein-coding gene	gene with protein product		136352				1319394	Standard	NM_002020		Approved	VEGFR3, PCL	uc003mlz.4	P35916	OTTHUMG00000130931	ENST00000261937.6:c.1082A>C	5.37:g.180055903T>G	ENSP00000261937:p.Tyr361Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6L4|B5A926|Q16067|Q86W07|Q86W08	Missense_Mutation	SNP	ENST00000261937.6	37	CCDS4457.1	.	.	.	.	.	.	.	.	.	.	T	12.69	2.015069	0.35511	.	.	ENSG00000037280	ENST00000261937;ENST00000393347;ENST00000502649;ENST00000376868	T;T;T	0.11712	2.75;2.75;2.75	4.68	4.68	0.58851	Immunoglobulin subtype (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.27866	0.0686	L	0.56280	1.765	0.49389	D	0.999784	D;D;D	0.89917	1.0;0.997;0.997	D;D;D	0.74023	0.982;0.979;0.979	T	0.01561	-1.1324	9	0.87932	D	0	.	14.4436	0.67336	0.0:0.0:0.0:1.0	.	361;361;361	P35916-3;E9PD35;P35916	.;.;VGFR3_HUMAN	S	361;361;361;171	ENSP00000261937:Y361S;ENSP00000377016:Y361S;ENSP00000426057:Y361S	ENSP00000261937:Y361S	Y	-	2	0	FLT4	179988509	1.000000	0.71417	0.646000	0.29493	0.040000	0.13550	2.726000	0.47302	1.875000	0.54330	0.459000	0.35465	TAC		0.632	FLT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253527.4			G	180055903	T	G	180055903	3	3	607	1	0	0	0	0	1	0	0	0	5951	1638	57	5	3109	5	FLT4	5	180055903	Missense_Mutation	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10	23146981	180055903	859357	29	36754										
UNC5CL	222643	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	41000635	41000635	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	tccctcaccctctgagatgtAcgtgagcttcaggcactggt	10	13	3	2			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr6:41000635A>G	ENST00000373164.1	-	3	997	c.937T>C	c.(937-939)Tac>Cac	p.Y313H	UNC5CL_ENST00000470102.1_5'UTR|UNC5CL_ENST00000244565.3_Missense_Mutation_p.Y313H			Q8IV45	UN5CL_HUMAN	unc-5 homolog C (C. elegans)-like	313	Interaction with RELA and NFKB1.				positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of JNK cascade (GO:0046330)|proteolysis (GO:0006508)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	peptidase activity (GO:0008233)			endometrium(1)|kidney(3)|large_intestine(3)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	13	Ovarian(28;0.0418)|Colorectal(47;0.196)					TCTGAGATGTACGTGAGCTTC	0.632																																																0													19	21	20					6																	41000635		2201	4299	6500	SO:0001583	missense	222643			BC035284	CCDS4847.1	6p21.1	2013-10-15			ENSG00000124602	ENSG00000124602			21203	protein-coding gene	gene with protein product	"ZU5 and death domain containing"					14769797	Standard	NM_173561		Approved	MGC34763, ZUD	uc003opi.3	Q8IV45	OTTHUMG00000014665	ENST00000373164.1:c.937T>C	6.37:g.41000635A>G	ENSP00000362258:p.Tyr313His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TGU1	Missense_Mutation	SNP	ENST00000373164.1	37	CCDS4847.1	.	.	.	.	.	.	.	.	.	.	A	7.812	0.716007	0.15306	.	.	ENSG00000124602	ENST00000244565;ENST00000373164	T;T	0.52526	0.66;0.66	5.43	5.43	0.79202	.	0.000000	0.40554	N	0.001066	T	0.16342	0.0393	N	0.24115	0.695	0.33409	D	0.578337	B	0.14438	0.01	B	0.12156	0.007	T	0.08785	-1.0705	10	0.19590	T	0.45	-29.4271	11.8914	0.52630	1.0:0.0:0.0:0.0	.	313	Q8IV45	UN5CL_HUMAN	H	313	ENSP00000244565:Y313H;ENSP00000362258:Y313H	ENSP00000244565:Y313H	Y	-	1	0	UNC5CL	41108613	1.000000	0.71417	1.000000	0.80357	0.566000	0.35808	4.569000	0.60865	2.042000	0.60477	0.533000	0.62120	TAC		0.632	UNC5CL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040491.1	NM_173561		G	41000635	A	G	41000635	3	3	607	1	0	0	0	0	1	0	0	0	17006	391	14	3	643	3	UNC5CL	6	41000635	Missense_Mutation	SNP	A	TCGA-HE-A5NF-01A-11D-A26P-10		41000635	130114432	30	36755										
DEFB110	245913	hgsc.bcm.edu;broad.mit.edu	37	chr6	49986835	49986835	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	catactcaggatatttctttTtggctgtaagaagggaagaa	10	5	2	2			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr6:49986835T>G	ENST00000371148.2	-	2	104	c.59A>C	c.(58-60)aAa>aCa	p.K20T	DEFB110_ENST00000393660.2_Intron	NM_001037497.1	NP_001032586.1	Q30KQ9	DB110_HUMAN	defensin, beta 110 locus	20					defense response to bacterium (GO:0042742)	extracellular region (GO:0005576)				endometrium(1)|lung(1)|ovary(1)	3	Lung NSC(77;0.042)					ATATTTCTTTTTGGCTGTAAG	0.353																																																0													129	126	127					6																	49986835		2203	4300	6503	SO:0001583	missense	245913			DQ012014, BC148541	CCDS43473.1, CCDS34475.1	6p12.3	2010-11-26	2010-11-26		ENSG00000203970	ENSG00000203970		"Defensins, beta"	18091	protein-coding gene	gene with protein product			"defensin, beta 110"			11854508, 16033865	Standard	NM_001037728		Approved	DEFB-10, DEFB-11, DEFB111	uc003pac.3	Q30KQ9	OTTHUMG00000160208	ENST00000371148.2:c.59A>C	6.37:g.49986835T>G	ENSP00000360190:p.Lys20Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q30KR0	Missense_Mutation	SNP	ENST00000371148.2	37	CCDS34475.1	.	.	.	.	.	.	.	.	.	.	T	11.38	1.622246	0.28889	.	.	ENSG00000203970	ENST00000371148	.	.	.	4.77	-6.13	0.02118	.	0.904575	0.09377	N	0.810521	T	0.07954	0.0199	.	.	.	0.23882	N	0.996572	B	0.12630	0.006	B	0.12837	0.008	T	0.34700	-0.9818	7	.	.	.	-4.2088	9.1953	0.37224	0.0:0.6424:0.1253:0.2323	.	20	Q30KQ9	DB110_HUMAN	T	20	.	.	K	-	2	0	DEFB110	50094794	0.245000	0.23899	0.575000	0.28536	0.857000	0.48899	-1.073000	0.03430	-1.040000	0.03271	-0.408000	0.06270	AAA		0.353	DEFB110-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359664.1	NM_001037728		G	49986835	T	G	49986835	3	3	607	1	0	0	0	0	1	0	0	0	4402	1841	64	5	284	5	DEFB110	6	49986835	Missense_Mutation	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10	8986200	49986835	121128232	31	36756										
SERINC1	57515	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	122766258	122766258	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	acatacagcacgatgccaatCcaactggaagagattttcac	7	11	1	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr6:122766258C>G	ENST00000339697.4	-	10	1377	c.1293G>C	c.(1291-1293)tgG>tgC	p.W431C		NM_020755.2	NP_065806.1	Q9NRX5	SERC1_HUMAN	serine incorporator 1	431					L-serine transport (GO:0015825)|phosphatidylserine metabolic process (GO:0006658)|phospholipid biosynthetic process (GO:0008654)|positive regulation of transferase activity (GO:0051347)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	L-serine transmembrane transporter activity (GO:0015194)			endometrium(2)|kidney(2)|large_intestine(4)|liver(1)|lung(2)|ovary(1)|skin(1)	13				GBM - Glioblastoma multiforme(226;0.126)		CGATGCCAATCCAACTGGAAG	0.428																																																0													107	96	99					6																	122766258		2203	4300	6503	SO:0001583	missense	57515			AF087902	CCDS5125.1	6q22.32	2006-02-09	2005-10-14	2005-10-14	ENSG00000111897	ENSG00000111897			13464	protein-coding gene	gene with protein product		614548	"tumor differentially expressed 2"	TDE2		10637174	Standard	NM_020755		Approved	TMS-2, TDE1L, KIAA1253	uc003pyy.1	Q9NRX5	OTTHUMG00000015487	ENST00000339697.4:c.1293G>C	6.37:g.122766258C>G	ENSP00000342962:p.Trp431Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KY69|E1P565|O75655|Q7Z2F5|Q8TAG1|Q9NTH8|Q9ULG7	Missense_Mutation	SNP	ENST00000339697.4	37	CCDS5125.1	.	.	.	.	.	.	.	.	.	.	C	24.8	4.569369	0.86439	.	.	ENSG00000111897	ENST00000339697;ENST00000368454	T;T	0.25579	1.79;1.79	5.59	5.59	0.84812	.	0.000000	0.85682	D	0.000000	T	0.62405	0.2425	H	0.96269	3.795	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.75502	-0.3295	10	0.87932	D	0	-7.4299	19.5937	0.95526	0.0:1.0:0.0:0.0	.	431	Q9NRX5	SERC1_HUMAN	C	431	ENSP00000342962:W431C;ENSP00000357439:W431C	ENSP00000342962:W431C	W	-	3	0	SERINC1	122807957	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.798000	0.85924	2.629000	0.89072	0.655000	0.94253	TGG		0.428	SERINC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042031.2	NM_020755		G	122766258	C	G	122766258	3	3	607	1	0	0	0	0	1	0	0	0	14092	856	30	4	72	4	SERINC1	6	122766258	Missense_Mutation	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10	72779423	122766258	48348809	32	36757										
AEBP1	165	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	44150535	44150535	+	Frame_Shift_Del	DEL	G	G	-													0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	tttcatgggaacgtggacaaGgacacacccgtgctgagtga							TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr7:44150535delG	ENST00000223357.3	+	13	1814	c.1509delG	c.(1507-1509)aagfs	p.K503fs	MIR4649_ENST00000582839.1_RNA|AEBP1_ENST00000450684.2_Frame_Shift_Del_p.K46fs	NM_001129.3	NP_001120.3	Q8IUX7	AEBP1_HUMAN	AE binding protein 1	503	F5/8 type C. {ECO:0000255|PROSITE- ProRule:PRU00081}.|Interaction with MAPK1 and MAPK3. {ECO:0000250}.|Required for DNA-binding and interaction with NFKBIA. {ECO:0000250}.				cell adhesion (GO:0007155)|muscle organ development (GO:0007517)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	carboxypeptidase activity (GO:0004180)|metallocarboxypeptidase activity (GO:0004181)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001227)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|cervix(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(8)|lung(13)|upper_aerodigestive_tract(2)	33						ACGTGGACAAGGACACACCCG	0.627																																																0													88	81	83					7																	44150535		2203	4300	6503	SO:0001589	frameshift_variant	165			D86479	CCDS5476.1	7p	2008-07-18	2001-11-28		ENSG00000106624	ENSG00000106624			303	protein-coding gene	gene with protein product	"aortic carboxypeptidase-like protein", "adipocyte enhancer binding protein 1"	602981	"AE-binding protein 1"			8920928	Standard	NM_001129		Approved	ACLP	uc003tkb.4	Q8IUX7	OTTHUMG00000023362	ENST00000223357.3:c.1509delG	7.37:g.44150535delG	ENSP00000223357:p.Lys503fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q14113|Q59ER7|Q6ZSC7|Q7KZ79	Frame_Shift_Del	DEL	ENST00000223357.3	37	CCDS5476.1																																																																																				0.627	AEBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250993.2	NM_001129		-	44150535	G	-	44150535	7	5	607	1	0	1	0	1	0	0	0	0	349	991	35	0	1559	0	AEBP1	7	44150535	Frame_Shift_Del	DEL	G	TCGA-HE-A5NF-01A-11D-A26P-10		44150535	114988128	33	36758										
POM121C	100101267	broad.mit.edu;bcgsc.ca	37	chr7	75054953	75054953	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	actccttgtctgctgccaatGgagttgaagaactggaatga	11	8	1	3			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr7:75054953G>A	ENST00000257665.5	-	7	1336	c.1337C>T	c.(1336-1338)cCa>cTa	p.P446L	POM121C_ENST00000473168.1_5'UTR|POM121C_ENST00000453279.2_Missense_Mutation_p.P204L			A8CG34	P121C_HUMAN	POM121 transmembrane nucleoporin C	446	Pore side. {ECO:0000255}.				mRNA transport (GO:0051028)|protein transport (GO:0015031)	endoplasmic reticulum (GO:0005783)|nuclear pore (GO:0005643)				central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(6)|prostate(1)|skin(1)|urinary_tract(1)	14						TGCTGCCAATGGAGTTGAAGA	0.453																																																0													38	47	44					7																	75054953		2201	4296	6497	SO:0001583	missense	100101267				CCDS47617.1	7q11.23	2012-03-13	2012-03-13		ENSG00000135213	ENSG00000272391			34005	protein-coding gene	gene with protein product		615754	"POM121 membrane glycoprotein C"			17900573	Standard	NM_001099415		Approved		uc003udk.4	A8CG34	OTTHUMG00000156238	ENST00000257665.5:c.1337C>T	7.37:g.75054953G>A	ENSP00000257665:p.Pro446Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O75115|Q9Y2N3|Q9Y4S7	Missense_Mutation	SNP	ENST00000257665.5	37		.	.	.	.	.	.	.	.	.	.	G	11.84	1.759509	0.31137	.	.	ENSG00000135213	ENST00000257665;ENST00000453279;ENST00000439629	T;T;T	0.15834	2.39;2.39;2.39	3.46	3.46	0.39613	.	0.000000	0.39146	N	0.001448	T	0.34193	0.0889	M	0.72118	2.19	0.09310	N	0.999998	D	0.64830	0.994	P	0.59221	0.854	T	0.08785	-1.0705	10	0.87932	D	0	.	12.0262	0.53371	0.0:0.0:1.0:0.0	.	446	A8CG34	P121C_HUMAN	L	446;204;76	ENSP00000257665:P446L;ENSP00000414208:P204L;ENSP00000410033:P76L	ENSP00000257665:P446L	P	-	2	0	POM121C	74892889	0.998000	0.40836	0.086000	0.20670	0.054000	0.15201	5.673000	0.68109	1.641000	0.50575	0.195000	0.17529	CCA		0.453	POM121C-003	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000343919.2	NM_001099415		A	75054953	G	A	75054953	3	1	607	1	0	0	0	0	1	0	0	0	12247	1348	47	2	2380	2	POM121C	7	75054953	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	30904418	75054953	84083710	34	36759										
DUSP26	78986	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	33454873	33454873	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ggttacaggctgtcttgcctGtgtagaggagccgctccaac	13	11	1	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr8:33454873G>T	ENST00000256261.4	-	2	678	c.161C>A	c.(160-162)aCa>aAa	p.T54K	DUSP26_ENST00000523956.1_Missense_Mutation_p.T54K	NM_024025.1	NP_076930.1	Q9BV47	DUS26_HUMAN	dual specificity phosphatase 26 (putative)	54					negative regulation of ERK1 and ERK2 cascade (GO:0070373)|negative regulation of protein kinase activity by regulation of protein phosphorylation (GO:0044387)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|peptidyl-tyrosine dephosphorylation (GO:0035335)|positive regulation of cell adhesion (GO:0045785)|positive regulation of peptidyl-serine dephosphorylation (GO:1902310)|protein dephosphorylation (GO:0006470)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	p53 binding (GO:0002039)|phosphoprotein phosphatase activity (GO:0004721)|phosphoserine phosphatase activity (GO:0004647)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)|RNA polymerase II activating transcription factor binding (GO:0001102)			NS(1)|breast(1)|kidney(1)|large_intestine(4)|lung(7)|skin(1)	15				KIRC - Kidney renal clear cell carcinoma(67;0.0918)|Kidney(114;0.111)		TGTCTTGCCTGTGTAGAGGAG	0.572																																																0													69	52	58					8																	33454873		2203	4300	6503	SO:0001583	missense	78986			AY902194	CCDS6092.1	8p12	2014-09-09			ENSG00000133878	ENSG00000133878		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Atypical dual specificity phosphatases"	28161	protein-coding gene	gene with protein product							Standard	NM_024025		Approved	MGC1136, DUSP24	uc003xjp.3	Q9BV47	OTTHUMG00000163961	ENST00000256261.4:c.161C>A	8.37:g.33454873G>T	ENSP00000256261:p.Thr54Lys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSV8|Q9BTW0	Missense_Mutation	SNP	ENST00000256261.4	37	CCDS6092.1	.	.	.	.	.	.	.	.	.	.	G	14.78	2.638232	0.47153	.	.	ENSG00000133878	ENST00000256261;ENST00000523956;ENST00000522982	T;T;T	0.60040	0.22;0.22;0.22	5.5	5.5	0.81552	.	0.146976	0.64402	D	0.000010	T	0.43765	0.1262	L	0.27053	0.805	0.54753	D	0.999983	B	0.21520	0.057	B	0.20955	0.032	T	0.40776	-0.9545	10	0.05436	T	0.98	-14.8884	18.9825	0.92760	0.0:0.0:1.0:0.0	.	54	Q9BV47	DUS26_HUMAN	K	54	ENSP00000256261:T54K;ENSP00000429176:T54K;ENSP00000430922:T54K	ENSP00000256261:T54K	T	-	2	0	DUSP26	33574415	1.000000	0.71417	0.962000	0.40283	0.975000	0.68041	7.744000	0.85034	2.590000	0.87494	0.561000	0.74099	ACA		0.572	DUSP26-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376564.1	NM_024025		T	33454873	G	T	33454873	3	4	607	1	0	0	0	0	1	0	0	0	4825	1377	48	4	486	4	DUSP26	8	33454873	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10		33454873	112909149	35	36760										
EFCAB1	79645	broad.mit.edu	37	chr8	49647656	49647656	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	actacattcttacttacaatGcttgcaatttttggttaagg	6	7	1	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr8:49647656G>A	ENST00000262103.3	-	1	135	c.55C>T	c.(55-57)Cat>Tat	p.H19Y	EFCAB1_ENST00000521002.1_5'UTR|EFCAB1_ENST00000523092.1_Missense_Mutation_p.H19Y|EFCAB1_ENST00000433756.1_Missense_Mutation_p.H19Y	NM_024593.3	NP_078869.1	Q9HAE3	EFCB1_HUMAN	EF-hand calcium binding domain 1	19							calcium ion binding (GO:0005509)			endometrium(1)|large_intestine(3)|lung(6)|pancreas(1)|prostate(1)|urinary_tract(2)	14		all_epithelial(80;0.0134)|Lung NSC(129;0.0207)|all_lung(136;0.0464)				TACTTACAATGCTTGCAATTT	0.602																																																0													179	160	167					8																	49647656		2203	4300	6503	SO:0001583	missense	79645				CCDS6145.1, CCDS47853.1	8q11.21	2013-01-10			ENSG00000034239	ENSG00000034239		"EF-hand domain containing"	25678	protein-coding gene	gene with protein product						12477932	Standard	NM_024593		Approved	FLJ11767	uc003xqo.2	Q9HAE3	OTTHUMG00000164203	ENST00000262103.3:c.55C>T	8.37:g.49647656G>A	ENSP00000262103:p.His19Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DSB4|E7EVN7	Missense_Mutation	SNP	ENST00000262103.3	37	CCDS6145.1	.	.	.	.	.	.	.	.	.	.	G	17.47	3.397676	0.62177	.	.	ENSG00000034239	ENST00000433756;ENST00000262103;ENST00000450553;ENST00000523092	T;T;T	0.68025	-0.3;-0.29;-0.3	5.04	4.15	0.48705	EF-hand-like domain (1);	0.193761	0.53938	D	0.000052	T	0.76564	0.4005	M	0.77103	2.36	0.52099	D	0.99994	B;D	0.59357	0.05;0.985	B;P	0.56788	0.024;0.806	T	0.76637	-0.2886	10	0.35671	T	0.21	.	12.9599	0.58451	0.0:0.0:0.8368:0.1632	.	19;19	Q9HAE3-2;Q9HAE3	.;EFCB1_HUMAN	Y	19	ENSP00000400873:H19Y;ENSP00000262103:H19Y;ENSP00000430765:H19Y	ENSP00000262103:H19Y	H	-	1	0	EFCAB1	49810209	1.000000	0.71417	0.994000	0.49952	0.568000	0.35870	3.938000	0.56583	1.247000	0.43917	0.462000	0.41574	CAT		0.602	EFCAB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377778.1	NM_024593		A	49647656	G	A	49647656	3	1	607	1	0	0	0	0	1	0	0	0	4935	1319	46	2	604	2	EFCAB1	8	49647656	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	16192783	49647656	96716366	36	36761										
CA13	377677	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	86162972	86162972	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ggtcctatatatttaaggtcCtattcactggaaggaatttt	8	6	1	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr8:86162972C>T	ENST00000321764.3	+	2	343	c.41C>T	c.(40-42)cCt>cTt	p.P14L	RP11-219B4.6_ENST00000551479.1_5'Flank|CA13_ENST00000517298.1_3'UTR	NM_198584.2	NP_940986.1	Q8N1Q1	CAH13_HUMAN	carbonic anhydrase XIII	14					bicarbonate transport (GO:0015701)|one-carbon metabolic process (GO:0006730)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|myelin sheath (GO:0043209)	carbonate dehydratase activity (GO:0004089)|zinc ion binding (GO:0008270)			large_intestine(1)|lung(6)	7					Zonisamide(DB00909)	ATTTAAGGTCCTATTCACTGG	0.338																																																0													62	64	63					8																	86162972		2203	4300	6503	SO:0001583	missense	377677			BC052602	CCDS6236.1	8q21	2004-05-10				ENSG00000185015		"Carbonic anhydrases"	14914	protein-coding gene	gene with protein product		611436				14600151	Standard	NM_198584		Approved	CAXIII, FLJ37995, MGC59868	uc003ydg.2	Q8N1Q1		ENST00000321764.3:c.41C>T	8.37:g.86162972C>T	ENSP00000318912:p.Pro14Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000321764.3	37	CCDS6236.1	.	.	.	.	.	.	.	.	.	.	C	28.1	4.887731	0.91814	.	.	ENSG00000185015	ENST00000321764	T	0.68624	-0.34	5.48	5.48	0.80851	Carbonic anhydrase, alpha-class, catalytic domain (4);	0.000000	0.85682	D	0.000000	D	0.89361	0.6693	H	0.98133	4.155	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.93109	0.6515	10	0.87932	D	0	-23.2453	19.3527	0.94395	0.0:1.0:0.0:0.0	.	14	Q8N1Q1	CAH13_HUMAN	L	14	ENSP00000318912:P14L	ENSP00000318912:P14L	P	+	2	0	CA13	86350224	1.000000	0.71417	0.973000	0.42090	0.987000	0.75469	7.044000	0.76578	2.567000	0.86603	0.563000	0.77884	CCT		0.338	CA13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381066.1	NM_198584		T	86162972	C	T	86162972	3	4	607	1	0	0	0	0	1	0	0	0	2516	681	24	2	47	2	CA13	8	86162972	Missense_Mutation	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10	36515316	86162972	60201050	37	36762										
ADCY8	114	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	132002781	132002781	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	acatgaatagcactgcctggGccacaacctaaaataaacac	6	12	0	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr8:132002781G>A	ENST00000286355.5	-	2	3060	c.968C>T	c.(967-969)gCc>gTc	p.A323V	ADCY8_ENST00000377928.3_Missense_Mutation_p.A323V	NM_001115.2	NP_001106.1	P40145	ADCY8_HUMAN	adenylate cyclase 8 (brain)	323					activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|learning or memory (GO:0007611)|long-term memory (GO:0007616)|neurotrophin TRK receptor signaling pathway (GO:0048011)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	adenylate cyclase activity (GO:0004016)|ATP binding (GO:0005524)|calcium- and calmodulin-responsive adenylate cyclase activity (GO:0008294)|metal ion binding (GO:0046872)			NS(1)|breast(4)|central_nervous_system(2)|cervix(1)|endometrium(10)|kidney(5)|large_intestine(21)|lung(67)|pancreas(1)|prostate(3)|skin(12)|upper_aerodigestive_tract(5)|urinary_tract(2)	134	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CACTGCCTGGGCCACAACCTA	0.428										HNSCC(32;0.087)																																						0													96	106	103					8																	132002781		2203	4300	6503	SO:0001583	missense	114			Z35309	CCDS6363.1	8q24	2013-02-04			ENSG00000155897	ENSG00000155897	4.6.1.1	"Adenylate cyclases"	239	protein-coding gene	gene with protein product		103070		ADCY3		8076676	Standard	NM_001115		Approved	HBAC1, AC8	uc003ytd.4	P40145	OTTHUMG00000164756	ENST00000286355.5:c.968C>T	8.37:g.132002781G>A	ENSP00000286355:p.Ala323Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000286355.5	37	CCDS6363.1	.	.	.	.	.	.	.	.	.	.	G	26.7	4.767301	0.90020	.	.	ENSG00000155897	ENST00000286355;ENST00000377928	T;T	0.81163	-1.46;-1.45	5.52	5.52	0.82312	.	0.000000	0.85682	D	0.000000	D	0.89326	0.6683	M	0.76002	2.32	0.58432	D	0.999991	D;P	0.63880	0.993;0.455	D;B	0.70227	0.968;0.214	D	0.88311	0.2956	10	0.44086	T	0.13	.	18.7877	0.91961	0.0:0.0:1.0:0.0	.	323;323	E7EVL1;P40145	.;ADCY8_HUMAN	V	323	ENSP00000286355:A323V;ENSP00000367161:A323V	ENSP00000286355:A323V	A	-	2	0	ADCY8	132071963	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.792000	0.99085	2.751000	0.94390	0.650000	0.86243	GCC		0.428	ADCY8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380080.1			A	132002781	G	A	132002781	3	1	607	1	0	0	0	0	1	0	0	0	300	1203	42	2	2855	2	ADCY8	8	132002781	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	45839809	132002781	14361241	38	36763										
TG	7038	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	133899726	133899727	+	Frame_Shift_Ins	INS	-	-	TA													0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	agtgcttcaactcagagtgcINStactgtgttgatgctgaggg							TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr8:133899726_133899727insTA	ENST00000220616.4	+	9	2149_2150	c.2109_2110insTA	c.(2110-2112)tacfs	p.Y704fs	TG_ENST00000377869.1_Frame_Shift_Ins_p.Y704fs	NM_003235.4	NP_003226.4	P01266	THYG_HUMAN	thyroglobulin	704	Thyroglobulin type-1 6. {ECO:0000255|PROSITE-ProRule:PRU00500}.				hormone biosynthetic process (GO:0042446)|iodide transport (GO:0015705)|regulation of myelination (GO:0031641)|signal transduction (GO:0007165)|thyroid gland development (GO:0030878)|thyroid hormone generation (GO:0006590)	extracellular region (GO:0005576)|extracellular space (GO:0005615)				NS(1)|breast(11)|central_nervous_system(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(34)|liver(2)|lung(59)|ovary(9)|pancreas(2)|prostate(6)|skin(7)|stomach(4)|upper_aerodigestive_tract(4)|urinary_tract(8)	168	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		ACTCAGAGTGCTACTGTGTTGA	0.515																																																0																																										SO:0001589	frameshift_variant	7038			AU141420	CCDS34944.1	8q24	2012-10-02			ENSG00000042832	ENSG00000042832			11764	protein-coding gene	gene with protein product		188450					Standard	NM_003235		Approved	TGN, AITD3	uc003ytw.3	P01266	OTTHUMG00000164649	ENST00000220616.4:c.2110_2111dupTA	8.37:g.133899727_133899728dupTA	ENSP00000220616:p.Tyr704fs	Somatic		WXS	Illumina HiSeq	Phase_I	O15274|O43899|Q15593|Q15948|Q9NYR1|Q9NYR2|Q9UMZ0|Q9UNY3	Frame_Shift_Ins	INS	ENST00000220616.4	37	CCDS34944.1																																																																																				0.515	TG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379606.1	NM_003235		TA	133899727	-	TA	133899726	7	5	607	1	0	1	1	0	0	0	0	0	15825	805	28	0	2143	0	TG	8	133899726	Frame_Shift_Ins	INS	-	TCGA-HE-A5NF-01A-11D-A26P-10	1896945	133899726	12464296	39	36764										
RMI1	80010	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	86617525	86617525	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ctgatggtactgcatatctaGatgtagactttgtggatgaa	11	5	1	4			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr9:86617525G>T	ENST00000325875.3	+	3	1956	c.1624G>T	c.(1624-1626)Gat>Tat	p.D542Y		NM_024945.2	NP_079221.2	Q9H9A7	RMI1_HUMAN	RecQ mediated genome instability 1	542					DNA replication (GO:0006260)|glucose homeostasis (GO:0042593)|multicellular organism growth (GO:0035264)|reduction of food intake in response to dietary excess (GO:0002023)|response to glucose (GO:0009749)	nucleus (GO:0005634)				biliary_tract(1)|central_nervous_system(1)|kidney(2)|large_intestine(7)|lung(3)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	18						TGCATATCTAGATGTAGACTT	0.368																																																0													197	193	194					9																	86617525		2203	4300	6503	SO:0001583	missense	80010			AK022950	CCDS6669.1	9q22.1	2013-06-10	2013-06-10	2006-06-12	ENSG00000178966	ENSG00000178966			25764	protein-coding gene	gene with protein product	"BLM-Associated Polypeptide, 75 kDa"	610404	"chromosome 9 open reading frame 76", "RMI1, RecQ mediated genome instability 1, homolog (S. cerevisiae)"	C9orf76		15775963, 20826341	Standard	NM_024945		Approved	FLJ12888, BLAP75	uc004anq.4	Q9H9A7	OTTHUMG00000020113	ENST00000325875.3:c.1624G>T	9.37:g.86617525G>T	ENSP00000317039:p.Asp542Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q05BX1|Q05CW3|Q5SQG8|Q5SQG9|Q6P1Q4|Q6PI89|Q7Z6L6	Missense_Mutation	SNP	ENST00000325875.3	37	CCDS6669.1	.	.	.	.	.	.	.	.	.	.	G	15.78	2.935730	0.52972	.	.	ENSG00000178966	ENST00000325875	T	0.47177	0.85	5.29	5.29	0.74685	.	0.104013	0.64402	D	0.000005	T	0.61198	0.2328	L	0.55481	1.735	0.47659	D	0.999484	D	0.89917	1.0	D	0.70487	0.969	T	0.58702	-0.7590	9	.	.	.	-9.5894	12.6452	0.56731	0.0762:0.0:0.9238:0.0	.	542	Q9H9A7	RMI1_HUMAN	Y	542	ENSP00000317039:D542Y	.	D	+	1	0	RMI1	85807345	1.000000	0.71417	1.000000	0.80357	0.882000	0.50991	6.827000	0.75303	2.620000	0.88729	0.563000	0.77884	GAT		0.368	RMI1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052870.1	NM_024945		T	86617525	G	T	86617525	3	4	607	1	0	0	0	0	1	0	0	0	13408	942	33	4	1626	4	RMI1	9	86617525	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10		86617525	54595906	40	36765										
LPAR1	1902	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	113704022	113704022	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	tacccgccggttgctcatccGtgtgtggagctgcatgcgga	14	12	1	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr9:113704022G>A	ENST00000374431.3	-	4	855	c.472C>T	c.(472-474)Cgg>Tgg	p.R158W	LPAR1_ENST00000541779.1_Missense_Mutation_p.R159W|LPAR1_ENST00000358883.4_Missense_Mutation_p.R158W|LPAR1_ENST00000538760.1_Missense_Mutation_p.R159W|LPAR1_ENST00000374430.2_Missense_Mutation_p.R158W	NM_057159.2	NP_476500.1	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	158					activation of MAPK activity (GO:0000187)|activation of phospholipase C activity (GO:0007202)|bleb assembly (GO:0032060)|cellular response to oxygen levels (GO:0071453)|G-protein coupled receptor signaling pathway (GO:0007186)|myelination (GO:0042552)|negative regulation of neuron projection development (GO:0010977)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G-protein coupled signaling pathway (GO:0051482)|positive regulation of dendritic spine development (GO:0060999)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of Rho protein signal transduction (GO:0035025)|positive regulation of smooth muscle cell chemotaxis (GO:0071673)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|dendritic shaft (GO:0043198)|dendritic spine (GO:0043197)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|lysophosphatidic acid receptor activity (GO:0070915)|phospholipid binding (GO:0005543)	p.R158W(1)		breast(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(1)|ovary(2)|prostate(6)|skin(1)	21						TTGCTCATCCGTGTGTGGAGC	0.542																																					NSCLC(115;661 2323 9836 34256)											1	Substitution - Missense(1)	large_intestine(1)											117	104	109					9																	113704022		2203	4300	6503	SO:0001583	missense	1902			U80811	CCDS6777.1	9q	2012-08-08	2008-04-11	2008-04-11	ENSG00000198121	ENSG00000198121		"GPCR / Class A : Lysophospholipid receptors : Lysophosphatidic acid"	3166	protein-coding gene	gene with protein product		602282	"endothelial differentiation, lysophosphatidic acid G-protein-coupled receptor, 2"	EDG2		8922387, 9070858	Standard	NM_001401		Approved	edg-2, rec.1.3, vzg-1, Gpcr26, Mrec1.3, LPA1, GPR26	uc004bfc.3	Q92633	OTTHUMG00000020486	ENST00000374431.3:c.472C>T	9.37:g.113704022G>A	ENSP00000363553:p.Arg158Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DK36|O00656|O00722|P78351	Missense_Mutation	SNP	ENST00000374431.3	37	CCDS6777.1	.	.	.	.	.	.	.	.	.	.	G	20.6	4.017060	0.75161	.	.	ENSG00000198121	ENST00000374431;ENST00000541779;ENST00000374430;ENST00000358883;ENST00000449490;ENST00000538760;ENST00000441240	T;T;T;T;T;T	0.39592	1.07;1.07;1.07;1.07;1.07;1.07	5.53	4.64	0.57946	GPCR, rhodopsin-like superfamily (1);	0.000000	0.85682	D	0.000000	T	0.60301	0.2258	M	0.76328	2.33	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.74348	0.983;0.983;0.983	T	0.63189	-0.6693	10	0.72032	D	0.01	.	8.4744	0.33005	0.0771:0.0:0.7707:0.1522	.	159;159;158	B4DQ18;B4DK36;Q92633	.;.;LPAR1_HUMAN	W	158;159;158;158;140;159;158	ENSP00000363553:R158W;ENSP00000445697:R159W;ENSP00000363552:R158W;ENSP00000351755:R158W;ENSP00000440201:R159W;ENSP00000401810:R158W	ENSP00000351755:R158W	R	-	1	2	LPAR1	112743843	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	6.528000	0.73807	1.357000	0.45904	0.655000	0.94253	CGG		0.542	LPAR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053631.1	NM_057159		A	113704022	G	A	113704022	3	1	607	1	0	0	0	0	1	0	0	0	8911	1144	40	1	630	1	LPAR1	9	113704022	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	27086497	113704022	27509409	41	36766										
SPTAN1	6709	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	131362363	131362363	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ctctttctttgaataggatgAaactgattccaagacagcct	7	9	2	4			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr9:131362363A>T	ENST00000372731.4	+	27	3658	c.3548A>T	c.(3547-3549)gAa>gTa	p.E1183V	SPTAN1_ENST00000358161.5_Missense_Mutation_p.E1183V|SPTAN1_ENST00000372739.3_Missense_Mutation_p.E1183V	NM_001195532.1|NM_003127.3	NP_001182461.1|NP_003118.2	Q13813	SPTN1_HUMAN	spectrin, alpha, non-erythrocytic 1	1183					actin filament capping (GO:0051693)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)	cuticular plate (GO:0032437)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|fascia adherens (GO:0005916)|intracellular membrane-bounded organelle (GO:0043231)|lateral plasma membrane (GO:0016328)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|spectrin (GO:0008091)|vesicle (GO:0031982)|Z disc (GO:0030018)	actin binding (GO:0003779)|calcium ion binding (GO:0005509)|structural constituent of cytoskeleton (GO:0005200)			NS(2)|breast(8)|cervix(2)|endometrium(6)|kidney(4)|large_intestine(21)|liver(1)|lung(25)|ovary(5)|pancreas(1)|prostate(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	87						GAATAGGATGAAACTGATTCC	0.433																																					NSCLC(120;833 1744 2558 35612 37579)											0													125	114	118					9																	131362363		2203	4300	6503	SO:0001583	missense	6709			M19725	CCDS6905.1, CCDS48036.1, CCDS75914.1	9q34.11	2013-01-10	2012-06-15		ENSG00000197694	ENSG00000197694		"EF-hand domain containing"	11273	protein-coding gene	gene with protein product	"alpha-fodrin"	182810				3336352	Standard	NM_003127		Approved		uc004bvm.4	Q13813	OTTHUMG00000020754	ENST00000372731.4:c.3548A>T	9.37:g.131362363A>T	ENSP00000361816:p.Glu1183Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q13186|Q15324|Q16606|Q59EF1|Q5VXV5|Q5VXV6|Q7Z6M5|Q9P0V0	Missense_Mutation	SNP	ENST00000372731.4	37	CCDS6905.1	.	.	.	.	.	.	.	.	.	.	A	17.11	3.305120	0.60305	.	.	ENSG00000197694	ENST00000358161;ENST00000372731;ENST00000372739;ENST00000372719	T;T;T	0.51574	0.7;0.72;0.7	6.08	6.08	0.98989	.	0.142496	0.64402	D	0.000006	T	0.40398	0.1115	N	0.19112	0.55	0.80722	D	1	P;B;B;B	0.36733	0.567;0.384;0.384;0.265	B;B;B;B	0.39840	0.18;0.311;0.311;0.165	T	0.42103	-0.9471	10	0.87932	D	0	.	16.6438	0.85155	1.0:0.0:0.0:0.0	.	1183;1163;1183;1183	A6NG51;Q13813-3;Q13813-2;Q13813	.;.;.;SPTA2_HUMAN	V	1183;1183;1183;1163	ENSP00000350882:E1183V;ENSP00000361816:E1183V;ENSP00000361824:E1183V	ENSP00000350882:E1183V	E	+	2	0	SPTAN1	130402184	1.000000	0.71417	0.945000	0.38365	0.557000	0.35523	8.593000	0.90832	2.333000	0.79357	0.533000	0.62120	GAA		0.433	SPTAN1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054472.1	NM_003127		T	131362363	A	T	131362363	3	4	607	1	0	0	0	0	1	0	0	0	15129	246	9	5	3650	5	SPTAN1	9	131362363	Missense_Mutation	SNP	A	TCGA-HE-A5NF-01A-11D-A26P-10	17658341	131362363	9851068	42	36767										
LCN10	414332	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	139633991	139633991	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	tggctctcatggcaggatggTgtgtgtacgggacgctgtgg	18	7	1	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr9:139633991T>C	ENST00000474369.1	-	5	549	c.550A>G	c.(550-552)Acc>Gcc	p.T184A	LCN6_ENST00000435202.1_3'UTR|LCN10_ENST00000527229.1_Missense_Mutation_p.T161A|LCN6_ENST00000480584.1_5'Flank|LCN10_ENST00000497771.1_Missense_Mutation_p.T197A			Q6JVE6	LCN10_HUMAN	lipocalin 10	184					transport (GO:0006810)	extracellular region (GO:0005576)				breast(2)|cervix(1)|large_intestine(1)	4	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.32e-06)|Epithelial(140;7.83e-05)		GGCAGGATGGTGTGTGTACGG	0.617																																																0													92	76	81					9																	139633991		2199	4295	6494	SO:0001583	missense	414332			AY301271	CCDS35182.2	9q34.3	2011-10-24			ENSG00000187922	ENSG00000187922		"Lipocalins"	20892	protein-coding gene	gene with protein product		612904				15363845	Standard	NM_001001712		Approved		uc004civ.3	Q6JVE6	OTTHUMG00000150428	ENST00000474369.1:c.550A>G	9.37:g.139633991T>C	ENSP00000420564:p.Thr184Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A2RUU3|B0QZ79	Missense_Mutation	SNP	ENST00000474369.1	37	CCDS35182.2	.	.	.	.	.	.	.	.	.	.	T	13.52	2.260996	0.39995	.	.	ENSG00000187922	ENST00000527229;ENST00000497771;ENST00000474369	T;T	0.33865	1.39;1.41	3.17	2.04	0.26737	.	0.000000	0.36002	U	0.002855	T	0.39655	0.1086	.	.	.	0.27101	N	0.962612	D;D;D	0.71674	0.998;0.998;0.998	D;D;D	0.63957	0.92;0.92;0.92	T	0.17410	-1.0370	9	0.19147	T	0.46	-7.4152	4.3041	0.10938	0.0:0.1588:0.0:0.8412	.	161;184;197	E9PK15;Q6JVE6;Q6JVE6-2	.;LCN10_HUMAN;.	A	161;197;184	ENSP00000418491:T197A;ENSP00000420564:T184A	ENSP00000420564:T184A	T	-	1	0	LCN10	138753812	0.530000	0.26330	1.000000	0.80357	0.718000	0.41266	1.557000	0.36299	1.410000	0.46936	0.451000	0.29950	ACC		0.617	LCN10-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318062.2	NM_001001712		C	139633991	T	C	139633991	3	2	607	1	0	0	0	0	1	0	0	0	8688	1696	59	3	17	3	LCN10	9	139633991	Missense_Mutation	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10	8271628	139633991	1579440	43	36768										
CUBN	8029	broad.mit.edu	37	chr10	16941145	16941145	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	tgaggccagtgaggggatctGattgtaccattatcagaatg	13	6	2	4			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr10:16941145G>C	ENST00000377833.4	-	54	8513	c.8448C>G	c.(8446-8448)atC>atG	p.I2816M		NM_001081.3	NP_001072.2	O60494	CUBN_HUMAN	cubilin (intrinsic factor-cobalamin receptor)	2816	CUB 21. {ECO:0000255|PROSITE- ProRule:PRU00059}.				cholesterol metabolic process (GO:0008203)|cobalamin metabolic process (GO:0009235)|cobalamin transport (GO:0015889)|lipoprotein metabolic process (GO:0042157)|lipoprotein transport (GO:0042953)|receptor-mediated endocytosis (GO:0006898)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|tissue homeostasis (GO:0001894)|vitamin D metabolic process (GO:0042359)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|coated pit (GO:0005905)|cytosol (GO:0005829)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|extrinsic component of external side of plasma membrane (GO:0031232)|Golgi apparatus (GO:0005794)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|cobalamin binding (GO:0031419)|protein homodimerization activity (GO:0042803)|receptor activity (GO:0004872)|transporter activity (GO:0005215)			breast(8)|central_nervous_system(4)|cervix(1)|endometrium(18)|haematopoietic_and_lymphoid_tissue(3)|kidney(12)|large_intestine(42)|liver(1)|lung(107)|ovary(9)|pancreas(2)|prostate(3)|skin(9)|stomach(3)|upper_aerodigestive_tract(11)|urinary_tract(8)	241					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GAGGGGATCTGATTGTACCAT	0.403																																																0													118	112	114					10																	16941145		2203	4300	6503	SO:0001583	missense	8029			AF034611	CCDS7113.1	10p12	2014-09-17			ENSG00000107611	ENSG00000107611			2548	protein-coding gene	gene with protein product		602997		MGA1		9572993, 9478979	Standard	NM_001081		Approved	IFCR, gp280	uc001ioo.3	O60494	OTTHUMG00000017741	ENST00000377833.4:c.8448C>G	10.37:g.16941145G>C	ENSP00000367064:p.Ile2816Met	Somatic		WXS	Illumina HiSeq	Phase_I	B0YIZ4|Q5VTA6|Q96RU9	Missense_Mutation	SNP	ENST00000377833.4	37	CCDS7113.1	.	.	.	.	.	.	.	.	.	.	G	9.641	1.139005	0.21123	.	.	ENSG00000107611	ENST00000377833	T	0.40476	1.03	5.63	0.557	0.17260	CUB (5);	0.137522	0.33057	N	0.005332	T	0.64494	0.2603	M	0.93150	3.385	0.80722	D	1	D	0.60160	0.987	P	0.62298	0.9	T	0.64782	-0.6326	10	0.66056	D	0.02	.	7.5405	0.27735	0.1201:0.0:0.4925:0.3874	.	2816	O60494	CUBN_HUMAN	M	2816	ENSP00000367064:I2816M	ENSP00000367064:I2816M	I	-	3	3	CUBN	16981151	1.000000	0.71417	0.001000	0.08648	0.014000	0.08584	3.071000	0.50041	-0.070000	0.12908	-0.940000	0.02684	ATC		0.403	CUBN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047009.1	NM_001081		C	16941145	G	C	16941145	3	2	607	1	0	0	0	0	1	0	0	0	4053	1280	45	4	2479	4	CUBN	10	16941145	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10		16941145	118593602	44	36769										
NUDT13	25961	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	74879794	74879794	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	aggtatttatttgaactgaaGgaagatgatgatgcatgtaa	11	2	0	5			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr10:74879794G>T	ENST00000357321.4	+	3	220	c.102G>T	c.(100-102)aaG>aaT	p.K34N	NUDT13_ENST00000372997.3_Missense_Mutation_p.K34N|NUDT13_ENST00000349051.5_Missense_Mutation_p.K34N|NUDT13_ENST00000488223.1_3'UTR|NUDT13_ENST00000537969.1_5'UTR|NUDT13_ENST00000544879.1_5'UTR	NM_001283016.1|NM_015901.4	NP_001269945.1|NP_056985.3			nudix (nucleoside diphosphate linked moiety X)-type motif 13											large_intestine(2)|lung(5)	7	Prostate(51;0.0119)					TTGAACTGAAGGAAGATGATG	0.403																																																0													134	144	141					10																	74879794		2203	4300	6503	SO:0001583	missense	25961			AL050114	CCDS31220.1, CCDS60551.1, CCDS60552.1, CCDS60553.1, CCDS73148.1	10q22.3	2014-04-24			ENSG00000166321	ENSG00000166321		"Nudix motif containing"	18827	protein-coding gene	gene with protein product		609233				15164054	Standard	NM_001283019		Approved	DKFZp586P2219	uc001jtj.3	Q86X67	OTTHUMG00000018453	ENST00000357321.4:c.102G>T	10.37:g.74879794G>T	ENSP00000349874:p.Lys34Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000357321.4	37	CCDS31220.1	.	.	.	.	.	.	.	.	.	.	G	18.98	3.736917	0.69304	.	.	ENSG00000166321	ENST00000357321;ENST00000349051;ENST00000372997	T;T;T	0.58797	1.36;0.36;0.31	5.18	-2.34	0.06704	.	0.000000	0.85682	D	0.000000	T	0.60932	0.2307	L	0.32530	0.975	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.992;0.993	T	0.59862	-0.7374	10	0.72032	D	0.01	-2.5729	12.2089	0.54369	0.6313:0.0:0.3687:0.0	.	34;34;34	Q86X67-2;Q5SQM6;Q86X67	.;.;NUD13_HUMAN	N	34	ENSP00000349874:K34N;ENSP00000335326:K34N;ENSP00000362088:K34N	ENSP00000335326:K34N	K	+	3	2	NUDT13	74549800	0.999000	0.42202	0.977000	0.42913	0.998000	0.95712	0.456000	0.21859	-0.547000	0.06207	0.655000	0.94253	AAG		0.403	NUDT13-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048614.1	NM_015901		T	74879794	G	T	74879794	3	4	607	1	0	0	0	0	1	0	0	0	10736	991	35	4	108	4	NUDT13	10	74879794	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	57938649	74879794	60654953	45	36770										
LZTS2	84445	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	102763858	102763858	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	tcctggaaggaaagctccgaGaccgggaggcagagcttcag	15	10	1	2			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr10:102763858G>C	ENST00000370220.1	+	2	4066	c.1003G>C	c.(1003-1005)Gac>Cac	p.D335H	LZTS2_ENST00000370223.3_Missense_Mutation_p.D335H					leucine zipper, putative tumor suppressor 2											breast(1)|large_intestine(6)|lung(7)|ovary(4)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	22				Epithelial(162;7.3e-09)|all cancers(201;3.72e-07)		AAAGCTCCGAGACCGGGAGGC	0.637																																					Esophageal Squamous(8;38 437 13604 19902 37640)											0													43	47	46					10																	102763858		2202	4297	6499	SO:0001583	missense	84445			AB058716	CCDS7507.1	10q24	2004-03-18			ENSG00000107816	ENSG00000107816			29381	protein-coding gene	gene with protein product		610454				11347906, 11709705	Standard	NM_032429		Approved	KIAA1813, LAPSER1	uc001ksj.3	Q9BRK4	OTTHUMG00000018914	ENST00000370220.1:c.1003G>C	10.37:g.102763858G>C	ENSP00000359240:p.Asp335His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000370220.1	37	CCDS7507.1	.	.	.	.	.	.	.	.	.	.	G	16.44	3.123472	0.56613	.	.	ENSG00000107816	ENST00000370223;ENST00000315797;ENST00000370220	T;T	0.41065	1.01;1.01	5.12	4.19	0.49359	.	0.157325	0.56097	D	0.000028	T	0.42494	0.1205	L	0.39898	1.24	0.43222	D	0.995102	P	0.40398	0.716	P	0.45946	0.498	T	0.20405	-1.0276	9	.	.	.	-23.6803	15.3201	0.74115	0.0:0.1408:0.8592:0.0	.	335	Q9BRK4	LZTS2_HUMAN	H	335	ENSP00000359243:D335H;ENSP00000359240:D335H	.	D	+	1	0	LZTS2	102753848	1.000000	0.71417	0.732000	0.30844	0.655000	0.38815	7.542000	0.82095	1.243000	0.43853	0.561000	0.74099	GAC		0.637	LZTS2-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049872.1	XM_046743		C	102763858	G	C	102763858	3	2	607	1	0	0	0	0	1	0	0	0	9146	942	33	4	1009	4	LZTS2	10	102763858	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	27884064	102763858	32770889	46	36771										
TIAL1	7073	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	121338280	121338280	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	aggtggtttacgagtggcccAattggttcggatttgacgac	14	7	0	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr10:121338280A>C	ENST00000436547.2	-	7	558	c.514T>G	c.(514-516)Tgg>Ggg	p.W172G	TIAL1_ENST00000369092.4_Missense_Mutation_p.W49G|TIAL1_ENST00000369093.2_Missense_Mutation_p.W189G|TIAL1_ENST00000463089.2_5'Flank	NM_003252.3	NP_003243.1	Q01085	TIAR_HUMAN	TIA1 cytotoxic granule-associated RNA binding protein-like 1	172	RRM 2. {ECO:0000255|PROSITE- ProRule:PRU00176}.				apoptotic process (GO:0006915)|defense response (GO:0006952)|germ cell development (GO:0007281)|positive regulation of cell proliferation (GO:0008284)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|stem cell division (GO:0017145)	cytoplasm (GO:0005737)|cytoplasmic stress granule (GO:0010494)|extracellular vesicular exosome (GO:0070062)|lysosome (GO:0005764)|nucleus (GO:0005634)	AU-rich element binding (GO:0017091)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			breast(1)|endometrium(1)|kidney(2)|large_intestine(4)|liver(1)|lung(3)|ovary(1)	13		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00239)|BRCA - Breast invasive adenocarcinoma(275;0.0932)		CGAGTGGCCCAATTGGTTCGG	0.398																																																0													160	141	147					10																	121338280		2203	4300	6503	SO:0001583	missense	7073			AL833106	CCDS7613.1, CCDS31295.1	10q	2013-02-12	2001-11-28		ENSG00000151923	ENSG00000151923		"RNA binding motif (RRM) containing"	11804	protein-coding gene	gene with protein product		603413	"TIA1 cytotoxic granule-associated RNA-binding protein-like 1"			1326761	Standard	XM_005270108		Approved	TIAR	uc001lej.1	Q01085	OTTHUMG00000019156	ENST00000436547.2:c.514T>G	10.37:g.121338280A>C	ENSP00000394902:p.Trp172Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3T0|A8K4L9	Missense_Mutation	SNP	ENST00000436547.2	37	CCDS7613.1	.	.	.	.	.	.	.	.	.	.	A	23.2	4.385753	0.82792	.	.	ENSG00000151923	ENST00000369093;ENST00000369092;ENST00000436547	T;T;T	0.75367	3.33;-0.93;-0.93	5.61	5.61	0.85477	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (1);	0.000000	0.85682	D	0.000000	D	0.85008	0.5599	M	0.65975	2.015	0.80722	D	1	D;D;D;D	0.89917	0.993;1.0;1.0;0.999	D;D;D;D	0.91635	0.968;0.999;0.994;0.966	D	0.86674	0.1912	10	0.87932	D	0	-1.9553	15.8113	0.78568	1.0:0.0:0.0:0.0	.	49;49;189;172	B4DHS3;Q49AS9;A8K4L9;Q01085	.;.;.;TIAR_HUMAN	G	189;49;172	ENSP00000358089:W189G;ENSP00000358088:W49G;ENSP00000394902:W172G	ENSP00000358088:W49G	W	-	1	0	TIAL1	121328270	1.000000	0.71417	0.993000	0.49108	0.863000	0.49368	9.125000	0.94402	2.137000	0.66172	0.482000	0.46254	TGG		0.398	TIAL1-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050672.2	NM_022333, NM_003252		C	121338280	A	C	121338280	3	2	607	1	0	0	0	0	1	0	0	0	15901	130	5	5	637	5	TIAL1	10	121338280	Missense_Mutation	SNP	A	TCGA-HE-A5NF-01A-11D-A26P-10	18574422	121338280	14196467	47	36772										
WDR11	55717	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	122664157	122664157	+	Splice_Site	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	aaaaaccgtttctcttactaGacagacagagctgtgcagtt	8	9	1	3			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr10:122664157G>A	ENST00000263461.6	+	25	3273		c.e25-1		WDR11_ENST00000604509.1_Intron	NM_018117.11	NP_060587.8	Q8WWQ0	PHIP_HUMAN	WD repeat domain 11						cytoskeleton organization (GO:0007010)|insulin receptor signaling pathway (GO:0008286)|negative regulation of apoptotic process (GO:0043066)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|positive regulation of cell proliferation (GO:0008284)|positive regulation of insulin-like growth factor receptor signaling pathway (GO:0043568)|positive regulation of mitosis (GO:0045840)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein import into nucleus (GO:0006606)|regulation of cell morphogenesis (GO:0022604)|regulation of growth (GO:0040008)|regulation of protein phosphorylation (GO:0001932)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	insulin receptor binding (GO:0005158)|lysine-acetylated histone binding (GO:0070577)			breast(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(11)|lung(9)|prostate(2)|skin(2)|stomach(5)	38						TCTCTTACTAGACAGACAGAG	0.358																																																0													93	89	90					10																	122664157		2203	4300	6503	SO:0001630	splice_region_variant	55717			AF320223	CCDS7619.1	10q26	2013-01-21	2010-01-06	2010-01-06	ENSG00000120008	ENSG00000120008		"WD repeat domain containing"	13831	protein-coding gene	gene with protein product		606417	"bromodomain and WD repeat domain containing 2"	BRWD2		10718198, 11536051	Standard	NM_018117		Approved	KIAA1351, FLJ10506, WDR15, HH14, DR11	uc021pzt.1	Q9BZH6	OTTHUMG00000019171	ENST00000263461.6:c.3028-1G>A	10.37:g.122664157G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A7J992|B2RPK4|Q05CQ9|Q5VVH4|Q66I29|Q69YV1|Q8NBZ5|Q96H52|Q96ME2|Q9H261	Splice_Site	SNP	ENST00000263461.6	37	CCDS7619.1	.	.	.	.	.	.	.	.	.	.	G	24.8	4.566439	0.86439	.	.	ENSG00000120008	ENST00000263461	.	.	.	5.97	5.97	0.96955	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	20.4387	0.99107	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	WDR11	122654147	1.000000	0.71417	1.000000	0.80357	0.892000	0.51952	9.434000	0.97515	2.836000	0.97738	0.655000	0.94253	.		0.358	WDR11-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050707.2		Intron	A	122664157	G	A	122664157	5	1	607	1	0	0	0	0	0	0	1	0	17285	956	33	2	3125	2	WDR11	10	122664157	Splice_Site	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	1325877	122664157	12870590	48	36773										
C11orf40	143501	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	4592781	4592781	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	aagtgttttgtaatcagtgcGgtccaattcaatggcccagt	10	8	2	0	rs573632085	byFrequency	TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr11:4592781G>C	ENST00000307616.1	-	4	525	c.526C>G	c.(526-528)Cgc>Ggc	p.R176G		NM_144663.1	NP_653264.1	Q8WZ69	CK040_HUMAN	chromosome 11 open reading frame 40	176										large_intestine(3)|lung(1)|ovary(2)|stomach(1)	7		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;4.28e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0288)|LUSC - Lung squamous cell carcinoma(625;0.192)		taatcagtgcggtccaattca	0.433																																																0													81	73	76					11																	4592781		2201	4298	6499	SO:0001583	missense	143501				CCDS31354.1	11p15.5	2005-10-03			ENSG00000171987	ENSG00000171987			23986	protein-coding gene	gene with protein product							Standard	NM_144663		Approved	NOV1	uc010qyg.2	Q8WZ69	OTTHUMG00000165345	ENST00000307616.1:c.526C>G	11.37:g.4592781G>C	ENSP00000302918:p.Arg176Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000307616.1	37	CCDS31354.1	.	.	.	.	.	.	.	.	.	.	G	0.006	-2.039801	0.00402	.	.	ENSG00000171987	ENST00000307616	T	0.55930	0.49	0.832	-1.66	0.08265	.	.	.	.	.	T	0.26774	0.0655	N	0.08118	0	0.09310	N	1	B	0.09022	0.002	B	0.01281	0.0	T	0.08743	-1.0707	9	0.87932	D	0	.	3.0485	0.06161	0.2412:0.0:0.4837:0.275	.	176	Q8WZ69	CK040_HUMAN	G	176	ENSP00000302918:R176G	ENSP00000302918:R176G	R	-	1	0	C11orf40	4549357	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.923000	0.04000	-1.894000	0.01105	-1.561000	0.00884	CGC		0.433	C11orf40-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383529.1	NM_144663		C	4592781	G	C	4592781	3	2	607	1	0	0	0	0	1	0	0	0	1641	1116	39	4	130	4	C11orf40	11	4592781	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10		4592781	130413735	49	36774										
DCHS1	8642	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	6646473	6646473	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	aggtgcattgtcattgacatCctccacaagcactgtgaggt	10	10	1	2			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr11:6646473C>G	ENST00000299441.3	-	19	7513	c.7102G>C	c.(7102-7104)Gat>Cat	p.D2368H	RP11-732A19.5_ENST00000526456.1_RNA	NM_003737.2	NP_003728.1	Q96JQ0	PCD16_HUMAN	dachsous cadherin-related 1	2368	Cadherin 22. {ECO:0000255|PROSITE- ProRule:PRU00043}.				branching involved in ureteric bud morphogenesis (GO:0001658)|calcium-dependent cell-cell adhesion (GO:0016339)|cochlea development (GO:0090102)|digestive tract development (GO:0048565)|heart morphogenesis (GO:0003007)|heterophilic cell-cell adhesion (GO:0007157)|hippo signaling (GO:0035329)|homophilic cell adhesion (GO:0007156)|neural tube development (GO:0021915)|neurogenesis (GO:0022008)|ossification involved in bone maturation (GO:0043931)|post-anal tail morphogenesis (GO:0036342)	apical part of cell (GO:0045177)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(16)|liver(1)|lung(41)|ovary(4)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(6)|urinary_tract(4)	103		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCATTGACATCCTCCACAAGC	0.587																																																0													101	92	95					11																	6646473		2201	4296	6497	SO:0001583	missense	8642			AB000895	CCDS7771.1	11p15.4	2013-10-04	2013-10-04	2004-09-03	ENSG00000166341	ENSG00000166341		"Cadherins / Cadherin-related"	13681	protein-coding gene	gene with protein product	"cadherin-related family member 6"	603057	"protocadherin 16", "dachsous 1 (Drosophila)"	CDH25, PCDH16		9199196	Standard	XM_005253207		Approved	FIB1, KIAA1773, FLJ11790, CDHR6	uc001mem.1	Q96JQ0	OTTHUMG00000133398	ENST00000299441.3:c.7102G>C	11.37:g.6646473C>G	ENSP00000299441:p.Asp2368His	Somatic		WXS	Illumina HiSeq	Phase_I	O15098	Missense_Mutation	SNP	ENST00000299441.3	37	CCDS7771.1	.	.	.	.	.	.	.	.	.	.	c	22.9	4.351321	0.82132	.	.	ENSG00000166341	ENST00000299441	T	0.76186	-1.0	4.94	4.94	0.65067	Cadherin (3);Cadherin conserved site (1);Cadherin-like (1);	0.000000	0.43747	D	0.000525	D	0.91202	0.7228	H	0.97682	4.055	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.94164	0.7417	10	0.87932	D	0	.	16.9335	0.86197	0.0:1.0:0.0:0.0	.	2368	Q96JQ0	PCD16_HUMAN	H	2368	ENSP00000299441:D2368H	ENSP00000299441:D2368H	D	-	1	0	DCHS1	6603049	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.632000	0.83247	2.560000	0.86352	0.651000	0.88453	GAT		0.587	DCHS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257258.1	NM_003737		G	6646473	C	G	6646473	3	3	607	1	0	0	0	0	1	0	0	0	4289	855	30	4	2806	4	DCHS1	11	6646473	Missense_Mutation	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10	2053692	6646473	128360043	50	36775										
LRP4	4038	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	46898795	46898795	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	aatggtgttcttcatggtaaTgttgattggtaccaccacat	9	7	2	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr11:46898795T>C	ENST00000378623.1	-	23	3474	c.3232A>G	c.(3232-3234)Att>Gtt	p.I1078V	LRP4-AS1_ENST00000502049.2_RNA	NM_002334.3	NP_002325.2	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein 4	1078					dendrite morphogenesis (GO:0048813)|dorsal/ventral pattern formation (GO:0009953)|embryonic digit morphogenesis (GO:0042733)|endocytosis (GO:0006897)|extracellular matrix organization (GO:0030198)|hair follicle development (GO:0001942)|kidney development (GO:0001822)|limb development (GO:0060173)|negative regulation of axonogenesis (GO:0050771)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of ossification (GO:0030279)|odontogenesis of dentin-containing tooth (GO:0042475)|positive regulation of presynaptic membrane organization (GO:1901631)|postsynaptic membrane assembly (GO:0097104)|presynaptic membrane assembly (GO:0097105)|protein heterotetramerization (GO:0051290)|proximal/distal pattern formation (GO:0009954)|regulation of protein phosphorylation (GO:0001932)|skeletal muscle acetylcholine-gated channel clustering (GO:0071340)|synapse organization (GO:0050808)|synaptic growth at neuromuscular junction (GO:0051124)|Wnt signaling pathway (GO:0016055)	cell surface (GO:0009986)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|neuromuscular junction (GO:0031594)|neuronal cell body (GO:0043025)|postsynaptic density (GO:0014069)|synaptic membrane (GO:0097060)	calcium ion binding (GO:0005509)|receptor tyrosine kinase binding (GO:0030971)|scaffold protein binding (GO:0097110)			breast(7)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(13)|lung(24)|ovary(3)|pancreas(2)|prostate(5)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)	70				Lung(87;0.159)		TTCATGGTAATGTTGATTGGT	0.507																																																0													250	187	208					11																	46898795		2201	4299	6500	SO:0001583	missense	4038			AB011540	CCDS31478.1	11p11.2	2013-05-29			ENSG00000134569	ENSG00000134569		"Low density lipoprotein receptors"	6696	protein-coding gene	gene with protein product		604270				9693030	Standard	NM_002334		Approved	MEGF7, CLSS, LRP-4, SOST2	uc001ndn.4	O75096	OTTHUMG00000166700	ENST00000378623.1:c.3232A>G	11.37:g.46898795T>C	ENSP00000367888:p.Ile1078Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN39|Q4AC85|Q5KTZ5	Missense_Mutation	SNP	ENST00000378623.1	37	CCDS31478.1	.	.	.	.	.	.	.	.	.	.	T	12.62	1.991485	0.35131	.	.	ENSG00000134569	ENST00000378623	D	0.90955	-2.76	6.17	-1.45	0.08828	Six-bladed beta-propeller, TolB-like (1);	0.729507	0.14357	N	0.324711	T	0.70850	0.3271	N	0.00926	-1.1	0.20926	N	0.999826	B	0.02656	0.0	B	0.01281	0.0	T	0.58440	-0.7636	10	0.14656	T	0.56	.	13.3945	0.60843	0.0:0.5812:0.0:0.4188	.	1078	O75096	LRP4_HUMAN	V	1078	ENSP00000367888:I1078V	ENSP00000367888:I1078V	I	-	1	0	LRP4	46855371	1.000000	0.71417	0.959000	0.39883	0.998000	0.95712	0.814000	0.27239	-0.251000	0.09542	0.533000	0.62120	ATT		0.507	LRP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391133.1	NM_002334		C	46898795	T	C	46898795	3	2	607	1	0	0	0	0	1	0	0	0	8966	1464	51	3	2549	3	LRP4	11	46898795	Missense_Mutation	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10	40252322	46898795	88107721	51	36776										
AMOTL1	154810	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	94533391	94533391	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	cccgggatgctccacgagatGgtcaagccctaccctgctcc	10	17	1	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr11:94533391G>T	ENST00000433060.2	+	3	1176	c.1035G>T	c.(1033-1035)atG>atT	p.M345I	AMOTL1_ENST00000317837.9_Missense_Mutation_p.M345I|AMOTL1_ENST00000317829.8_Missense_Mutation_p.M295I	NM_130847.2	NP_570899.1	Q8IY63	AMOL1_HUMAN	angiomotin like 1	345					establishment of cell polarity involved in ameboidal cell migration (GO:0003365)|hippo signaling (GO:0035329)|positive regulation of blood vessel endothelial cell migration (GO:0043536)|Wnt signaling pathway (GO:0016055)	apical plasma membrane (GO:0016324)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|lamellipodium (GO:0030027)|tight junction (GO:0005923)	identical protein binding (GO:0042802)			autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(14)|lung(8)|ovary(1)|pancreas(1)|prostate(1)|urinary_tract(2)	36		Acute lymphoblastic leukemia(157;2.38e-05)|all_hematologic(158;0.00824)				TCCACGAGATGGTCAAGCCCT	0.562																																																0													115	116	116					11																	94533391		2016	4172	6188	SO:0001583	missense	154810			AF453742	CCDS44712.1, CCDS73368.1	11q21	2008-07-18				ENSG00000166025			17811	protein-coding gene	gene with protein product	"junction-enriched and associated protein"	614657				11733531	Standard	XM_005273798		Approved	JEAP	uc001pfb.3	Q8IY63		ENST00000433060.2:c.1035G>T	11.37:g.94533391G>T	ENSP00000387739:p.Met345Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q63HK7|Q8NDN0|Q8TEN8|Q8WXD1|Q96CM5	Missense_Mutation	SNP	ENST00000433060.2	37	CCDS44712.1	.	.	.	.	.	.	.	.	.	.	G	14.22	2.471025	0.43942	.	.	ENSG00000166025	ENST00000317829;ENST00000542840;ENST00000317837;ENST00000433060	T;T;T	0.13307	2.6;2.6;2.6	5.13	4.15	0.48705	.	0.155049	0.44688	D	0.000423	T	0.10380	0.0254	L	0.40543	1.245	0.30008	N	0.815444	B;B	0.16802	0.013;0.019	B;B	0.13407	0.009;0.006	T	0.06127	-1.0844	9	.	.	.	-21.0972	7.6609	0.28402	0.0937:0.2865:0.6198:0.0	.	295;345	Q8IY63-2;Q8IY63	.;AMOL1_HUMAN	I	295;351;345;345	ENSP00000320968:M295I;ENSP00000323474:M345I;ENSP00000387739:M345I	.	M	+	3	0	AMOTL1	94173039	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	0.997000	0.29731	2.395000	0.81488	0.555000	0.69702	ATG		0.562	AMOTL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396474.3	NM_130847		T	94533391	G	T	94533391	3	4	607	1	0	0	0	0	1	0	0	0	583	1348	47	4	1045	4	AMOTL1	11	94533391	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	47634596	94533391	40473125	52	36777										
TMBIM4	51643	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	66546147	66546147	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ccgagggcaaacagcaaaatTaaggcaggactgaaagacat	11	8	0	2			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr12:66546147T>C	ENST00000358230.3	-	3	336	c.216A>G	c.(214-216)ttA>ttG	p.L72L	TMBIM4_ENST00000556010.1_Silent_p.L72L|TMBIM4_ENST00000286424.7_Silent_p.L119L|TMBIM4_ENST00000539652.1_Silent_p.L72L|TMBIM4_ENST00000542724.1_Silent_p.L41L|TMBIM4_ENST00000398033.4_Silent_p.L72L|TMBIM4_ENST00000544599.1_5'UTR	NM_016056.2	NP_057140.2	Q9HC24	LFG4_HUMAN	transmembrane BAX inhibitor motif containing 4	72					apoptotic process (GO:0006915)|negative regulation of apoptotic process (GO:0043066)|regulation of calcium-mediated signaling (GO:0050848)	Golgi stack (GO:0005795)|integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(1)|large_intestine(4)|ovary(1)|prostate(2)	9				GBM - Glioblastoma multiforme(28;0.0745)		ACAGCAAAATTAAGGCAGGAC	0.303																																																0													79	75	76					12																	66546147		1821	4077	5898	SO:0001819	synonymous_variant	51643			AF113127	CCDS41805.1, CCDS61187.1, CCDS73493.1	12q14.3	2014-05-09			ENSG00000155957	ENSG00000155957			24257	protein-coding gene	gene with protein product						11042152, 10810093	Standard	NM_001282609		Approved	CGI-119, S1R, ZPRO, LFG4, GAAP	uc001stc.3	Q9HC24	OTTHUMG00000168973	ENST00000358230.3:c.216A>G	12.37:g.66546147T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q542Z6|Q9UHY5|Q9Y3C2	Silent	SNP	ENST00000358230.3	37	CCDS41805.1																																																																																				0.303	TMBIM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401832.2	NM_016056		C	66546147	T	C	66546147	2	2	607	1	0	0	0	0	0	0	0	1	15994	1751	61	3		3	TMBIM4	12	66546147	Silent	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10		66546147	67305748	53	36778										
HPD	3242	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	122281677	122281677	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	tcttcagcttctcccgcagtTgtttgtagtacgtggaggga	12	9	3	0	rs201305943		TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr12:122281677T>G	ENST00000289004.4	-	12	928	c.893A>C	c.(892-894)cAa>cCa	p.Q298P	HPD_ENST00000543163.1_Missense_Mutation_p.Q259P	NM_002150.2	NP_002141	P32754	HPPD_HUMAN	4-hydroxyphenylpyruvate dioxygenase	298					cellular nitrogen compound metabolic process (GO:0034641)|L-phenylalanine catabolic process (GO:0006559)|small molecule metabolic process (GO:0044281)|tyrosine catabolic process (GO:0006572)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	4-hydroxyphenylpyruvate dioxygenase activity (GO:0003868)|metal ion binding (GO:0046872)			breast(1)|cervix(1)|kidney(1)|large_intestine(6)|lung(8)|urinary_tract(1)	18	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000105)|Epithelial(86;0.000352)|BRCA - Breast invasive adenocarcinoma(302;0.225)	Nitisinone(DB00348)	CTCCCGCAGTTGTTTGTAGTA	0.557													T|||	1	0.000199681	0.0	0.0	5008	,	,		16317	0.001		0.0	False		,,,				2504	0.0															0													154	133	140					12																	122281677		2203	4300	6503	SO:0001583	missense	3242			BC014790	CCDS9224.1, CCDS53839.1	12q24.31	2013-09-19			ENSG00000158104	ENSG00000158104	1.13.11.27		5147	protein-coding gene	gene with protein product	"glyoxalase domain containing 3"	609695		PPD			Standard	NM_001171993		Approved	4-HPPD, 4HPPD, GLOD3	uc001ubj.3	P32754	OTTHUMG00000169081	ENST00000289004.4:c.893A>C	12.37:g.122281677T>G	ENSP00000289004:p.Gln298Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K461|B3KQ63|Q13234	Missense_Mutation	SNP	ENST00000289004.4	37	CCDS9224.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	T	10.24	1.295797	0.23564	.	.	ENSG00000158104	ENST00000289004;ENST00000545969;ENST00000543163	T;T	0.69926	-0.44;-0.44	4.32	3.14	0.36123	Glyoxalase/fosfomycin resistance/dioxygenase (1);	0.521328	0.20860	N	0.084365	T	0.67268	0.2875	M	0.78456	2.415	0.28564	N	0.910987	B	0.15719	0.014	B	0.35770	0.21	T	0.61983	-0.6950	10	0.38643	T	0.18	-13.4789	5.2654	0.15595	0.3145:0.0:0.1519:0.5335	.	298	P32754	HPPD_HUMAN	P	298;295;259	ENSP00000289004:Q298P;ENSP00000441677:Q259P	ENSP00000289004:Q298P	Q	-	2	0	HPD	120766060	0.995000	0.38212	0.652000	0.29579	0.773000	0.43773	1.628000	0.37060	0.668000	0.31126	0.418000	0.28097	CAA		0.557	HPD-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402184.1	NM_002150		G	122281677	T	G	122281677	3	3	607	1	0	0	0	0	1	0	0	0	7339	1812	63	5	300	5	HPD	12	122281677	Missense_Mutation	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10	55735530	122281677	11570218	54	36779										
ZNF140	7699	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	133683062	133683062	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	cttcagccggagcttttcccTcattctacatcagagaactc	6	14	4	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr12:133683062T>C	ENST00000355557.2	+	5	2482	c.1199T>C	c.(1198-1200)cTc>cCc	p.L400P	ZNF140_ENST00000440550.2_3'UTR|ZNF140_ENST00000544426.1_Missense_Mutation_p.L297P	NM_003440.2	NP_003431.2	P52738	ZN140_HUMAN	zinc finger protein 140	400					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|endometrium(1)|large_intestine(4)|lung(1)|ovary(1)|stomach(1)|upper_aerodigestive_tract(1)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;1.28e-06)|all_epithelial(31;0.0051)|Lung NSC(355;0.114)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		AGCTTTTCCCTCATTCTACAT	0.448																																																0													90	91	91					12																	133683062		2203	4300	6503	SO:0001583	missense	7699			U09368	CCDS9282.1, CCDS73550.1	12q24.33	2013-01-08	2006-06-13		ENSG00000196387	ENSG00000196387		"Zinc fingers, C2H2-type", "-"	12925	protein-coding gene	gene with protein product		604082	"zinc finger protein 140 (clone pHZ-39)"			7557990	Standard	XR_245353		Approved	pHZ-39	uc001ulo.3	P52738	OTTHUMG00000167942	ENST00000355557.2:c.1199T>C	12.37:g.133683062T>C	ENSP00000347755:p.Leu400Pro	Somatic		WXS	Illumina HiSeq	Phase_I	D3DXJ3|Q05CP6|Q8IV75	Missense_Mutation	SNP	ENST00000355557.2	37	CCDS9282.1	.	.	.	.	.	.	.	.	.	.	T	17.08	3.296703	0.60086	.	.	ENSG00000196387	ENST00000355557;ENST00000544426;ENST00000433577	T;T	0.14266	2.52;2.52	3.85	3.85	0.44370	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.31859	N	0.006952	T	0.39627	0.1085	M	0.89715	3.055	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.36672	-0.9738	10	0.87932	D	0	.	7.0829	0.25241	0.0:0.1065:0.0:0.8935	.	400	P52738	ZN140_HUMAN	P	400;297;191	ENSP00000347755:L400P;ENSP00000445411:L297P	ENSP00000347755:L400P	L	+	2	0	ZNF140	132193135	0.996000	0.38824	0.998000	0.56505	0.958000	0.62258	5.435000	0.66532	1.736000	0.51660	0.460000	0.39030	CTC		0.448	ZNF140-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397169.1	NM_003440		C	133683062	T	C	133683062	3	2	607	1	0	0	0	0	1	0	0	0	17741	1551	54	3	1213	3	ZNF140	12	133683062	Missense_Mutation	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10	11401385	133683062	168833	55	36780										
KCTD12	115207	hgsc.bcm.edu	37	chr13	77460122	77460122	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	cagagcagcgagtcgggcacCgacaccaccgtgcagcgccg	14	16	0	1	rs371800969		TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr13:77460122C>G	ENST00000377474.2	-	1	403	c.162G>C	c.(160-162)tcG>tcC	p.S54S	AC000403.1_ENST00000579275.1_RNA|KCTD12_ENST00000317765.2_Silent_p.S54S	NM_138444.3	NP_612453.1	Q96CX2	KCD12_HUMAN	potassium channel tetramerization domain containing 12	54					protein homooligomerization (GO:0051260)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)	cell junction (GO:0030054)|extracellular vesicular exosome (GO:0070062)|postsynaptic membrane (GO:0045211)|presynaptic membrane (GO:0042734)|receptor complex (GO:0043235)	poly(A) RNA binding (GO:0044822)			kidney(1)|large_intestine(1)|lung(1)|ovary(1)	4		Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.0499)		AGTCGGGCACCGACACCACCG	0.692																																																0								C		0,4356		0,0,2178	16	15	15		162	0.4	1	13		15	2,8550		0,2,4274	no	coding-synonymous	KCTD12	NM_138444.3		0,2,6452	GG,GC,CC		0.0234,0.0,0.0155		54/326	77460122	2,12906	2178	4276	6454	SO:0001819	synonymous_variant	115207			AF359381	CCDS9455.1	13q21	2013-06-20	2013-06-20	2003-11-26	ENSG00000178695	ENSG00000178695			14678	protein-coding gene	gene with protein product	"predominantly fetal expressed T1 domain"	610521	"chromosome 13 open reading frame 2", "potassium channel tetramerisation domain containing 12"	C13orf2		15357420	Standard	NM_138444		Approved	KIAA1778, PFET1	uc010aeu.1	Q96CX2	OTTHUMG00000017096	ENST00000377474.2:c.162G>C	13.37:g.77460122C>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000377474.2	37	CCDS9455.1																																																																																				0.692	KCTD12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045309.2	NM_138444		G	77460122	C	G	77460122	2	3	607	1	0	0	0	0	0	0	0	1	8106	639	23	4		4	KCTD12	13	77460122	Silent	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10		77460122	37709756	56	36781										
TEP1	7011	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	20845648	20845648	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	cctgaccctgagccccctggGaacctagagaatgagagaga	12	12	0	5			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr14:20845648G>T	ENST00000262715.5	-	41	5919	c.5879C>A	c.(5878-5880)tCc>tAc	p.S1960Y	TEP1_ENST00000545983.1_Missense_Mutation_p.S298Y|TEP1_ENST00000556935.1_Missense_Mutation_p.S1852Y	NM_007110.4	NP_009041.2	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1960					RNA-dependent DNA replication (GO:0006278)|telomere maintenance via recombination (GO:0000722)	chromosome, telomeric region (GO:0000781)|cytoplasm (GO:0005737)|nuclear matrix (GO:0016363)|ribonucleoprotein complex (GO:0030529)|telomerase holoenzyme complex (GO:0005697)	ATP binding (GO:0005524)|RNA binding (GO:0003723)			NS(4)|breast(1)|central_nervous_system(4)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(9)|lung(48)|ovary(7)|pancreas(1)|prostate(2)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	96	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)		AGCCCCCTGGGAACCTAGAGA	0.582																																																0													53	54	54					14																	20845648		2203	4300	6503	SO:0001583	missense	7011				CCDS9548.1	14q11.2	2013-01-10			ENSG00000129566	ENSG00000129566		"WD repeat domain containing"	11726	protein-coding gene	gene with protein product	"TROVE domain family, member 1"	601686				9403057	Standard	NM_007110		Approved	TP1, TLP1, VAULT2, p240, TROVE1	uc001vxe.3	Q99973	OTTHUMG00000029515	ENST00000262715.5:c.5879C>A	14.37:g.20845648G>T	ENSP00000262715:p.Ser1960Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A0AUV9	Missense_Mutation	SNP	ENST00000262715.5	37	CCDS9548.1	.	.	.	.	.	.	.	.	.	.	G	21.5	4.164956	0.78339	.	.	ENSG00000129566	ENST00000262715;ENST00000359243;ENST00000556935;ENST00000545983	T;T;T	0.71461	0.73;-0.57;1.23	5.33	5.33	0.75918	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.606102	0.17469	N	0.173149	T	0.80639	0.4661	M	0.71036	2.16	0.38057	D	0.935966	D;D;D;D	0.59767	0.976;0.983;0.986;0.971	P;P;P;P	0.57152	0.556;0.804;0.814;0.641	D	0.83486	0.0067	10	0.59425	D	0.04	-4.4509	15.9418	0.79758	0.0:0.0:1.0:0.0	.	298;1852;1303;1960	B4E0B6;G3V5X7;G3V2A4;Q99973	.;.;.;TEP1_HUMAN	Y	1960;1960;1852;298	ENSP00000262715:S1960Y;ENSP00000452574:S1852Y;ENSP00000438849:S298Y	ENSP00000262715:S1960Y	S	-	2	0	TEP1	19915488	0.983000	0.35010	0.894000	0.35097	0.940000	0.58332	4.982000	0.63825	2.502000	0.84385	0.563000	0.77884	TCC		0.582	TEP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000073563.2	NM_007110		T	20845648	G	T	20845648	3	4	607	1	0	0	0	0	1	0	0	0	15771	1174	41	4	2064	4	TEP1	14	20845648	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10		20845648	86503892	57	36782										
CDH24	64403	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	23524349	23524349	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	gtcgttgatgtcttgcacttTgatgatgaactctgatgggg	13	6	2	5			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr14:23524349T>A	ENST00000267383.5	-	2	507	c.415A>T	c.(415-417)Aaa>Taa	p.K139*	CDH24_ENST00000487137.2_Nonsense_Mutation_p.K139*|CDH24_ENST00000397359.3_Nonsense_Mutation_p.K139*|CDH24_ENST00000554034.1_Nonsense_Mutation_p.K139*			Q86UP0	CAD24_HUMAN	cadherin 24, type 2	139	Cadherin 1. {ECO:0000255|PROSITE- ProRule:PRU00043}.				adherens junction organization (GO:0034332)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|homophilic cell adhesion (GO:0007156)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	alpha-catenin binding (GO:0045294)|beta-catenin binding (GO:0008013)|calcium ion binding (GO:0005509)|delta-catenin binding (GO:0070097)			breast(1)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(6)|lung(5)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	26	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00654)		TCTTGCACTTTGATGATGAAC	0.587											OREG0022594	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													86	90	88					14																	23524349		2203	4300	6503	SO:0001587	stop_gained	64403			AL137477	CCDS9585.1, CCDS9586.1	14q11.2	2010-08-20	2009-11-20		ENSG00000139880	ENSG00000139880		"Cadherins / Major cadherins"	14265	protein-coding gene	gene with protein product			"cadherin-like 24"			12734196	Standard	NM_022478		Approved	CDH11L	uc001wil.3	Q86UP0	OTTHUMG00000028715	ENST00000267383.5:c.415A>T	14.37:g.23524349T>A	ENSP00000267383:p.Lys139*	Somatic	764	WXS	Illumina HiSeq	Phase_I	D3DS44|Q86UP1|Q9NT84	Nonsense_Mutation	SNP	ENST00000267383.5	37	CCDS9585.1	.	.	.	.	.	.	.	.	.	.	T	36	5.772834	0.96922	.	.	ENSG00000139880	ENST00000397359;ENST00000487137;ENST00000422751;ENST00000554034;ENST00000267383	.	.	.	3.72	3.72	0.42706	.	0.061985	0.64402	D	0.000007	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	11.8066	0.52158	0.0:0.0:0.0:1.0	.	.	.	.	X	139	.	ENSP00000267383:K139X	K	-	1	0	CDH24	22594189	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.825000	0.86693	1.689000	0.51079	0.459000	0.35465	AAA		0.587	CDH24-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000257241.2	NM_022478		A	23524349	T	A	23524349	4	1	607	1	0	0	0	0	0	1	0	0	3111	1821	63	5	2088	5	CDH24	14	23524349	Nonsense_Mutation	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10	2678701	23524349	83825191	58	36783										
NYNRIN	57523	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	24885037	24885037	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	cctggcagccgtggcctgcgGcctggagcgctttggccagt	16	14	0	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr14:24885037G>T	ENST00000382554.3	+	9	4400	c.4082G>T	c.(4081-4083)gGc>gTc	p.G1361V		NM_025081.2	NP_079357.2	Q9P2P1	NYNRI_HUMAN	NYN domain and retroviral integrase containing	1361					DNA integration (GO:0015074)	integral component of membrane (GO:0016021)	nucleic acid binding (GO:0003676)			breast(3)|central_nervous_system(1)|endometrium(7)|kidney(6)|large_intestine(8)|lung(21)|ovary(2)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	56						GTGGCCTGCGGCCTGGAGCGC	0.627																																																0													68	73	71					14																	24885037		1961	4143	6104	SO:0001583	missense	57523			AB037726	CCDS45090.1	14q11.2	2009-10-14	2009-10-14	2009-10-14		ENSG00000205978			20165	protein-coding gene	gene with protein product	"Cousin of GIN1"		"KIAA1305"	KIAA1305		19561090, 17114934	Standard	NM_025081		Approved	FLJ11811, CGIN1	uc001wpf.4	Q9P2P1		ENST00000382554.3:c.4082G>T	14.37:g.24885037G>T	ENSP00000371994:p.Gly1361Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P153|Q86TR3|Q9HAC4	Missense_Mutation	SNP	ENST00000382554.3	37	CCDS45090.1	.	.	.	.	.	.	.	.	.	.	G	14.65	2.597704	0.46318	.	.	ENSG00000205978	ENST00000382554	T	0.10668	2.85	4.93	4.02	0.46733	Ribonuclease H-like (1);	.	.	.	.	T	0.12603	0.0306	N	0.24115	0.695	0.49582	D	0.999804	P	0.50066	0.931	P	0.50860	0.652	T	0.03555	-1.1025	9	0.87932	D	0	.	11.5825	0.50900	0.0:0.3481:0.6519:0.0	.	1361	Q9P2P1	NYNRI_HUMAN	V	1361	ENSP00000371994:G1361V	ENSP00000371994:G1361V	G	+	2	0	NYNRIN	23954877	0.997000	0.39634	0.949000	0.38748	0.982000	0.71751	2.871000	0.48459	1.254000	0.44035	0.655000	0.94253	GGC		0.627	NYNRIN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412939.1			T	24885037	G	T	24885037	3	4	607	1	0	0	0	0	1	0	0	0	10803	1203	42	4	4112	4	NYNRIN	14	24885037	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	1360688	24885037	82464503	59	36784										
C14orf126	112487	ucsc.edu	37	chr14	31926584	31926584	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	cgcccgggcctgaggaatccGgctaccctcagccatggctt	12	16	1	1	rs17097904	byFrequency	TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr14:31926584G>A	ENST00000310850.4	-	1	132	c.16C>T	c.(16-18)Cgg>Tgg	p.R6W	DTD2_ENST00000356180.4_Missense_Mutation_p.R6W|RP11-176H8.1_ENST00000547378.1_Missense_Mutation_p.R6W	NM_080664.2	NP_542395.1	Q96FN9	DTD2_HUMAN	D-tyrosyl-tRNA deacylase 2 (putative)	6			R -> W (in dbSNP:rs17097904).		D-amino acid catabolic process (GO:0019478)	cytoplasm (GO:0005737)	hydrolase activity, acting on ester bonds (GO:0016788)	p.R6W(1)									TGAGGAATCCGGCTACCCTCA	0.697																																																1	Substitution - Missense(1)	skin(1)											12	12	12					14																	31926584		2183	4278	6461	SO:0001583	missense	112487			BC010618	CCDS9643.1	14q12	2012-09-25	2012-09-25	2012-09-25	ENSG00000129480	ENSG00000129480			20277	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 126"	C14orf126			Standard	NM_080664		Approved	MGC9912	uc001wrj.3	Q96FN9	OTTHUMG00000140205	ENST00000310850.4:c.16C>T	14.37:g.31926584G>A	ENSP00000312224:p.Arg6Trp	Somatic		WXS	Illumina HiSeq		D3DS87	Missense_Mutation	SNP	ENST00000310850.4	37	CCDS9643.1	.	.	.	.	.	.	.	.	.	.	G	19.08	3.758136	0.69763	.	.	ENSG00000203546;ENSG00000129480;ENSG00000129480	ENST00000547378;ENST00000310850;ENST00000356180	T;T;T	0.55052	0.54;0.71;0.71	4.84	2.97	0.34412	D-Tyr tRNAtyr deacylase-like domain (1);	0.302778	0.30901	N	0.008651	T	0.52419	0.1733	M	0.69823	2.125	0.36855	D	0.888115	D	0.67145	0.996	B	0.43623	0.425	T	0.65220	-0.6221	10	0.87932	D	0	.	11.9711	0.53063	0.0:0.0:0.5428:0.4572	rs17097904	6	Q96FN9	DTD2_HUMAN	W	6	ENSP00000447056:R6W;ENSP00000312224:R6W;ENSP00000348503:R6W	ENSP00000312224:R6W	R	-	1	2	C14orf126;RP11-176H8.1	30996335	0.001000	0.12720	0.005000	0.12908	0.004000	0.04260	0.080000	0.14802	0.618000	0.30179	0.561000	0.74099	CGG		0.697	DTD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276614.2	NM_080664		A	31926584	G	A	31926584	3	1	607	1	0	0	0	0	1	0	0	0	1745	1115	39	1	502	1	C14orf126	14	31926584	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	7041547	31926584	75422956	60	36785										
MLH3	27030	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	75516201	75516205	+	Frame_Shift_Del	DEL	TGAAC	TGAAC	-													0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	caaatccattgtctatcactTgaacttggaaggtttccata							TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	TGAAC	TGAAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr14:75516201_75516205delTGAAC	ENST00000556740.1	-	1	189_193	c.154_158delGTTCA	c.(154-159)gttcaafs	p.VQ52fs	MLH3_ENST00000556257.1_Frame_Shift_Del_p.VQ52fs|MLH3_ENST00000238662.7_Frame_Shift_Del_p.VQ52fs|MLH3_ENST00000380968.2_5'UTR|MLH3_ENST00000544985.1_5'Flank|MLH3_ENST00000355774.2_Frame_Shift_Del_p.VQ52fs|MLH3_ENST00000555671.1_5'Flank			Q9UHC1	MLH3_HUMAN	mutL homolog 3	52					ATP catabolic process (GO:0006200)|female meiosis I (GO:0007144)|male meiosis (GO:0007140)|mismatch repair (GO:0006298)|protein localization (GO:0008104)|reciprocal meiotic recombination (GO:0007131)|synaptonemal complex assembly (GO:0007130)	chiasma (GO:0005712)|male germ cell nucleus (GO:0001673)|mismatch repair complex (GO:0032300)|nucleus (GO:0005634)|synaptonemal complex (GO:0000795)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|centromeric DNA binding (GO:0019237)|chromatin binding (GO:0003682)|mismatched DNA binding (GO:0030983)|satellite DNA binding (GO:0003696)|single-stranded DNA binding (GO:0003697)			breast(5)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|liver(1)|lung(16)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	44				BRCA - Breast invasive adenocarcinoma(234;0.00688)		GTCTATCACTTGAACTTGGAAGGTT	0.444								Mismatch excision repair (MMR)																																								0																																										SO:0001589	frameshift_variant	27030			AF195657	CCDS9837.1, CCDS32123.1	14q24.3	2014-09-17	2013-09-12			ENSG00000119684			7128	protein-coding gene	gene with protein product		604395	"mutL (E. coli) homolog 3", "mutL homolog 3 (E. coli)"			10615123	Standard	XR_245681		Approved		uc001xrd.1	Q9UHC1		ENST00000556740.1:c.154_158delGTTCA	14.37:g.75516201_75516205delTGAAC	ENSP00000452316:p.Val52fs	Somatic		WXS	Illumina HiSeq	Phase_I	P49751|Q56DK9|Q9P292|Q9UHC0	Frame_Shift_Del	DEL	ENST00000556740.1	37	CCDS32123.1																																																																																				0.444	MLH3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415006.1	NM_014381		-	75516205	TGAAC	-	75516201	7	5	607	1	0	1	0	1	0	0	0	0	9625	1812	63	0	4251	0	MLH3	14	75516201	Frame_Shift_Del	DEL	TGAAC	TCGA-HE-A5NF-01A-11D-A26P-10	43589617	75516201	31833339	61	36786										
ATXN3	4287	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	92549507	92549507	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	tgctaattcttctccaataaGttttggtcgatgcatctgtt	7	8	3	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr14:92549507G>C	ENST00000532032.1	-	7	580	c.571C>G	c.(571-573)Ctt>Gtt	p.L191V	ATXN3_ENST00000340660.6_Missense_Mutation_p.L136V|ATXN3_ENST00000554491.1_5'UTR|ATXN3_ENST00000503767.1_Missense_Mutation_p.L176V|ATXN3_ENST00000429774.2_Missense_Mutation_p.L176V|ATXN3_ENST00000545170.1_Missense_Mutation_p.L191V|ATXN3_ENST00000393287.5_Missense_Mutation_p.L191V|ATXN3_ENST00000502250.1_Missense_Mutation_p.L12V			P54252	ATX3_HUMAN	ataxin 3	191					actin cytoskeleton organization (GO:0030036)|cell death (GO:0008219)|cellular response to misfolded protein (GO:0071218)|intermediate filament cytoskeleton organization (GO:0045104)|microtubule cytoskeleton organization (GO:0000226)|misfolded or incompletely synthesized protein catabolic process (GO:0006515)|monoubiquitinated protein deubiquitination (GO:0035520)|nervous system development (GO:0007399)|nucleotide-excision repair (GO:0006289)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein K48-linked deubiquitination (GO:0071108)|protein K63-linked deubiquitination (GO:0070536)|regulation of cell-substrate adhesion (GO:0010810)|regulation of transcription, DNA-templated (GO:0006355)|synaptic transmission (GO:0007268)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATPase binding (GO:0051117)|identical protein binding (GO:0042802)|Lys48-specific deubiquitinase activity (GO:1990380)|Lys63-specific deubiquitinase activity (GO:0061578)|omega peptidase activity (GO:0008242)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			endometrium(2)|large_intestine(1)|lung(7)|prostate(1)|stomach(1)	12		all_cancers(154;0.0768)		COAD - Colon adenocarcinoma(157;0.224)		TCTCCAATAAGTTTTGGTCGA	0.368																																					Esophageal Squamous(190;752 2094 29897 44875 49530)											0													146	138	141					14																	92549507		2203	4300	6503	SO:0001583	missense	4287			U64820	CCDS9900.1, CCDS32143.1, CCDS45154.1, CCDS53908.1, CCDS73680.1	14q21	2014-09-17	2004-08-12	2004-08-13	ENSG00000066427	ENSG00000066427		"Ataxins"	7106	protein-coding gene	gene with protein product		607047	"Machado-Joseph disease (spinocerebellar ataxia 3, olivopontocerebellar ataxia 3, autosomal dominant, ataxin 3)"	SCA3, MJD		8358439	Standard	NM_004993		Approved	ATX3, JOS	uc001yac.4	P54252	OTTHUMG00000162212	ENST00000532032.1:c.571C>G	14.37:g.92549507G>C	ENSP00000437157:p.Leu191Val	Somatic		WXS	Illumina HiSeq	Phase_I	A7LFZ5|D6RDL9|E9PB63|O15284|O15285|O15286|Q8N189|Q96TC3|Q96TC4|Q9H3N0	Missense_Mutation	SNP	ENST00000532032.1	37		.	.	.	.	.	.	.	.	.	.	G	25.0	4.587229	0.86851	.	.	ENSG00000066427	ENST00000545278;ENST00000539555;ENST00000537884;ENST00000545170;ENST00000447800;ENST00000359819;ENST00000393289;ENST00000429774;ENST00000539454;ENST00000393287;ENST00000502250;ENST00000503767;ENST00000340660;ENST00000532032;ENST00000555381;ENST00000557311;ENST00000554592;ENST00000554672;ENST00000553491;ENST00000556220;ENST00000506466	T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.55760	2.13;2.17;2.16;0.72;2.16;1.82;1.81;1.42;0.5;1.85;1.41;1.39;1.38;1.45	5.19	5.19	0.71726	.	0.000000	0.85682	D	0.000000	T	0.71592	0.3358	M	0.65498	2.005	0.58432	D	0.999997	D;D;D;D;D	0.71674	0.974;0.993;0.97;0.998;0.996	P;P;P;D;D	0.75484	0.829;0.901;0.804;0.986;0.966	T	0.71866	-0.4463	10	0.46703	T	0.11	.	18.7593	0.91843	0.0:0.0:1.0:0.0	.	191;176;191;136;191	P54252;E9PB63;F5H096;P54252-3;P54252-2	ATX3_HUMAN;.;.;.;.	V	191;191;191;191;191;191;191;176;190;191;12;176;136;191;121;12;190;93;140;85;125	ENSP00000445618:L191V;ENSP00000389376:L176V;ENSP00000376965:L191V;ENSP00000425322:L12V;ENSP00000426697:L176V;ENSP00000339110:L136V;ENSP00000437157:L191V;ENSP00000451001:L121V;ENSP00000450642:L12V;ENSP00000451385:L190V;ENSP00000451417:L93V;ENSP00000451996:L140V;ENSP00000450641:L85V;ENSP00000435571:L125V	ENSP00000339110:L136V	L	-	1	0	ATXN3	91619260	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	3.235000	0.51328	2.450000	0.82876	0.478000	0.44815	CTT		0.368	ATXN3-015	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000388065.1	NM_004993		C	92549507	G	C	92549507	3	2	607	1	0	0	0	0	1	0	0	0	1213	1029	36	4	534	4	ATXN3	14	92549507	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	17033306	92549507	14800033	62	36787										
ASPG	374569	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	104565246	104565246	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	aaccgggcaaccaaggtagaCgctcggaggttcgcagcttt	13	11	0	1	rs200662335	byFrequency	TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr14:104565246C>T	ENST00000551177.1	+	6	662	c.570C>T	c.(568-570)gaC>gaT	p.D190D	ASPG_ENST00000455920.2_Silent_p.D190D|ASPG_ENST00000546892.2_Silent_p.D190D	NM_001080464.2	NP_001073933.2	Q86U10	LPP60_HUMAN	asparaginase	190	Asparaginase.|Asparaginase/glutaminase. {ECO:0000255|PROSITE-ProRule:PRU01068}.				asparagine metabolic process (GO:0006528)|lipid catabolic process (GO:0016042)|phospholipid metabolic process (GO:0006644)		1-alkyl-2-acetylglycerophosphocholine esterase activity (GO:0003847)|asparaginase activity (GO:0004067)|lysophospholipase activity (GO:0004622)			endometrium(1)|kidney(1)|large_intestine(1)|lung(5)|prostate(1)|skin(1)|urinary_tract(1)	11						CCAAGGTAGACGCTCGGAGGT	0.622													C|||	5	0.000998403	0.0038	0.0	5008	,	,		18268	0.0		0.0	False		,,,				2504	0.0															0								C		3,4013		0,3,2005	47	55	52		570	-0.9	0.1	14		52	0,8346		0,0,4173	no	coding-synonymous	ASPG	NM_001080464.2		0,3,6178	TT,TC,CC		0.0,0.0747,0.0243		190/574	104565246	3,12359	2008	4173	6181	SO:0001819	synonymous_variant	374569				CCDS45170.1, CCDS45170.2	14q32.33	2014-03-14	2014-03-14	2008-11-06	ENSG00000166183	ENSG00000166183	3.1.1.5, 3.5.1.1	"Ankyrin repeat domain containing"	20123	protein-coding gene	gene with protein product	"60-kDa-lysophospholipase"		"chromosome 14 open reading frame 76", "asparaginase homolog (S. cerevisiae)"	C14orf76			Standard	NM_001080464		Approved		uc001yoq.2	Q86U10		ENST00000551177.1:c.570C>T	14.37:g.104565246C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B9EGQ2|Q8IV80	Silent	SNP	ENST00000551177.1	37	CCDS45170.2																																																																																				0.622	ASPG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407005.1	NM_001080464		T	104565246	C	T	104565246	2	4	607	1	0	0	0	0	0	0	0	1	1052	535	19	1		1	ASPG	14	104565246	Silent	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10	12015739	104565246	2784294	63	36788										
TLE3	7090	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	70368460	70368460	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	gtgacaggaaaggcatgatcTgtgctaaaattgtgttcagt	12	5	2	2			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr15:70368460T>A	ENST00000558939.1	-	5	1649	c.272A>T	c.(271-273)cAg>cTg	p.Q91L	TLE3_ENST00000440567.3_Missense_Mutation_p.Q84L|TLE3_ENST00000559191.1_Intron|TLE3_ENST00000560939.1_Missense_Mutation_p.Q97L|TLE3_ENST00000559929.1_Missense_Mutation_p.Q91L|TLE3_ENST00000557907.1_Missense_Mutation_p.Q91L|TLE3_ENST00000560589.1_Missense_Mutation_p.Q35L|TLE3_ENST00000539550.1_Missense_Mutation_p.Q25L|TLE3_ENST00000558201.1_Missense_Mutation_p.Q97L|TLE3_ENST00000442299.2_Missense_Mutation_p.Q91L|TLE3_ENST00000557997.1_Missense_Mutation_p.Q91L|TLE3_ENST00000558379.1_Missense_Mutation_p.Q91L|TLE3_ENST00000559048.1_Missense_Mutation_p.Q97L|TLE3_ENST00000317509.8_Missense_Mutation_p.Q91L|TLE3_ENST00000451782.2_Missense_Mutation_p.Q91L	NM_001282979.1|NM_001282980.1|NM_001282981.1	NP_001269908.1|NP_001269909.1|NP_001269910.1	Q04726	TLE3_HUMAN	transducin-like enhancer of split 3	91	Gln-rich.				Notch signaling pathway (GO:0007219)|organ morphogenesis (GO:0009887)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)|Wnt signaling pathway (GO:0016055)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)				breast(1)|endometrium(4)|kidney(2)|large_intestine(4)|lung(16)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	31						AGGCATGATCTGTGCTAAAAT	0.438																																																0													170	166	167					15																	70368460		1956	4138	6094	SO:0001583	missense	7090			M99438	CCDS45293.1, CCDS45294.1, CCDS58375.1, CCDS61689.1, CCDS61691.1, CCDS61692.1, CCDS73747.1	15q22	2014-03-07	2014-03-07			ENSG00000140332		"WD repeat domain containing"	11839	protein-coding gene	gene with protein product		600190	"transducin-like enhancer of split 3, homolog of Drosophila E(sp1)", "transducin-like enhancer of split 3 (E(sp1) homolog, Drosophila)"			8365415	Standard	XM_005254623		Approved	ESG, ESG3, KIAA1547, HsT18976, GRG3	uc002asm.2	Q04726		ENST00000558939.1:c.272A>T	15.37:g.70368460T>A	ENSP00000452871:p.Gln91Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DPT0|E9PD64|F8W964|Q6PI57|Q8IVV6|Q8WVR2|Q9HCM5	Missense_Mutation	SNP	ENST00000558939.1	37	CCDS45293.1	.	.	.	.	.	.	.	.	.	.	T	33	5.250170	0.95305	.	.	ENSG00000140332	ENST00000442299;ENST00000451782;ENST00000317509;ENST00000440567;ENST00000539550	T;T;T;T;T	0.63913	0.26;0.29;0.34;0.26;-0.07	5.85	5.85	0.93711	Groucho/TLE, N-terminal Q-rich domain (1);	0.000000	0.85682	D	0.000000	T	0.81635	0.4864	M	0.93854	3.465	0.80722	D	1	P;P;D;P;P;P;P;P	0.54397	0.851;0.927;0.966;0.877;0.748;0.877;0.62;0.911	B;P;P;P;P;P;P;P	0.56216	0.419;0.794;0.783;0.72;0.575;0.72;0.46;0.786	D	0.86775	0.1975	10	0.87932	D	0	-17.3549	16.2303	0.82332	0.0:0.0:0.0:1.0	.	84;91;91;91;91;91;97;25	F8W964;E9PD64;Q04726-3;Q6PI57;Q04726-2;Q04726;Q04726-4;F5H7D6	.;.;.;.;.;TLE3_HUMAN;.;.	L	91;91;91;84;25	ENSP00000390007:Q91L;ENSP00000394717:Q91L;ENSP00000319233:Q91L;ENSP00000415057:Q84L;ENSP00000442594:Q25L	ENSP00000319233:Q91L	Q	-	2	0	TLE3	68155514	1.000000	0.71417	1.000000	0.80357	0.938000	0.57974	7.924000	0.87555	2.233000	0.73108	0.533000	0.62120	CAG		0.438	TLE3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000416913.1	NM_005078		A	70368460	T	A	70368460	3	1	607	1	0	0	0	0	1	0	0	0	15952	1580	55	5	2110	5	TLE3	15	70368460	Missense_Mutation	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10		70368460	32162932	64	36789										
CYP11A1	1583	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	74640247	74640247	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ggcccaggactcacttcaacAggactcctatgggtctctgg	11	13	3	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr15:74640247A>T	ENST00000268053.6	-	2	573	c.419T>A	c.(418-420)cTg>cAg	p.L140Q	CYP11A1_ENST00000358632.4_5'UTR|CYP11A1_ENST00000541301.1_Missense_Mutation_p.L140Q|CYP11A1_ENST00000419019.2_Intron	NM_000781.2	NP_000772.2	P05108	CP11A_HUMAN	cytochrome P450, family 11, subfamily A, polypeptide 1	140					biphenyl metabolic process (GO:0018879)|C21-steroid hormone biosynthetic process (GO:0006700)|cellular response to antibiotic (GO:0071236)|cellular response to cadmium ion (GO:0071276)|cellular response to cAMP (GO:0071320)|cellular response to fibroblast growth factor stimulus (GO:0044344)|cellular response to follicle-stimulating hormone stimulus (GO:0071372)|cellular response to interleukin-1 (GO:0071347)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to peptide hormone stimulus (GO:0071375)|cellular response to transforming growth factor beta stimulus (GO:0071560)|cellular response to tumor necrosis factor (GO:0071356)|cerebellum development (GO:0021549)|cholesterol metabolic process (GO:0008203)|dibenzo-p-dioxin metabolic process (GO:0018894)|estrogen biosynthetic process (GO:0006703)|fractalkine metabolic process (GO:0050756)|granulosa cell differentiation (GO:0060014)|hippocampus development (GO:0021766)|Leydig cell differentiation (GO:0033327)|maternal process involved in female pregnancy (GO:0060135)|mating behavior (GO:0007617)|phenol-containing compound metabolic process (GO:0018958)|phthalate metabolic process (GO:0018963)|progesterone biosynthetic process (GO:0006701)|response to alkaloid (GO:0043279)|response to corticosterone (GO:0051412)|response to drug (GO:0042493)|response to fungicide (GO:0060992)|response to gamma radiation (GO:0010332)|response to genistein (GO:0033595)|response to hydrogen peroxide (GO:0042542)|response to insecticide (GO:0017085)|response to L-ascorbic acid (GO:0033591)|response to salt stress (GO:0009651)|response to vitamin E (GO:0033197)|Schwann cell differentiation (GO:0014037)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|sterol metabolic process (GO:0016125)|testosterone biosynthetic process (GO:0061370)|vitamin D metabolic process (GO:0042359)|xenobiotic metabolic process (GO:0006805)	mitochondrial crista (GO:0030061)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|perikaryon (GO:0043204)	cholesterol binding (GO:0015485)|cholesterol monooxygenase (side-chain-cleaving) activity (GO:0008386)|heme binding (GO:0020037)|iron ion binding (GO:0005506)			breast(1)|endometrium(2)|kidney(1)|large_intestine(7)|lung(3)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	20					Aminoglutethimide(DB00357)|Cholecalciferol(DB00169)|Clomifene(DB00882)|Clotrimazole(DB00257)|Dexamethasone(DB01234)|Digitoxin(DB01396)|Digoxin(DB00390)|Dinoprostone(DB00917)|Glutethimide(DB01437)|Ketoconazole(DB01026)|Omeprazole(DB00338)|Saquinavir(DB01232)|Terbinafine(DB00857)|Testosterone(DB00624)	TCACTTCAACAGGACTCCTAT	0.622																																					Esophageal Squamous(87;818 1337 4093 9268 37314)											0													45	42	43					15																	74640247		2197	4296	6493	SO:0001583	missense	1583			AK056794	CCDS32291.1, CCDS45303.1	15q23-q24	2010-05-04	2003-01-14	2003-01-17	ENSG00000140459	ENSG00000140459	1.14.15.6	"Cytochrome P450s"	2590	protein-coding gene	gene with protein product	"cholesterol monooxygenase (side-chain-cleaving)"	118485	"cytochrome P450, subfamily XIA (cholesterol side chain cleavage)"	CYP11A			Standard	NM_000781		Approved	P450SCC	uc002axt.2	P05108	OTTHUMG00000150716	ENST00000268053.6:c.419T>A	15.37:g.74640247A>T	ENSP00000268053:p.Leu140Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8D5|B3KPU8|G3XAD7|Q15081|Q16805|Q8N1A7	Missense_Mutation	SNP	ENST00000268053.6	37	CCDS32291.1	.	.	.	.	.	.	.	.	.	.	A	16.15	3.040820	0.55003	.	.	ENSG00000140459	ENST00000268053;ENST00000541301;ENST00000450547;ENST00000433240;ENST00000416978	T;T;T	0.71222	-0.55;-0.55;-0.55	4.46	4.46	0.54185	.	0.000000	0.64402	D	0.000001	T	0.81917	0.4924	M	0.71871	2.18	0.80722	D	1	D;D;D	0.89917	0.999;1.0;0.999	D;D;D	0.79108	0.929;0.992;0.929	T	0.83072	-0.0142	10	0.51188	T	0.08	-0.0287	13.4211	0.60998	1.0:0.0:0.0:0.0	.	140;140;140	E7EPP8;B4DTE5;P05108	.;.;CP11A_HUMAN	Q	140;140;52;140;140	ENSP00000268053:L140Q;ENSP00000439750:L140Q;ENSP00000388018:L140Q	ENSP00000268053:L140Q	L	-	2	0	CYP11A1	72427300	1.000000	0.71417	0.556000	0.28293	0.404000	0.30871	7.439000	0.80444	1.642000	0.50584	0.523000	0.50628	CTG		0.622	CYP11A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319737.1			T	74640247	A	T	74640247	3	4	607	1	0	0	0	0	1	0	0	0	4146	188	7	5	1178	5	CYP11A1	15	74640247	Missense_Mutation	SNP	A	TCGA-HE-A5NF-01A-11D-A26P-10	4271787	74640247	27891145	65	36790										
CHD2	1106	broad.mit.edu	37	chr15	93480801	93480801	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	acaggaacaaggcaccagtgCagagagtgagccagaacaaa	12	9	0	3			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr15:93480801C>T	ENST00000394196.4	+	6	1565	c.497C>T	c.(496-498)gCa>gTa	p.A166V	CHD2_ENST00000420239.2_Missense_Mutation_p.A166V|CHD2_ENST00000557381.1_Missense_Mutation_p.A166V|CHD2_ENST00000536619.1_Missense_Mutation_p.A179V	NM_001271.3	NP_001262.3	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	166					cellular response to DNA damage stimulus (GO:0006974)|chromatin modification (GO:0016568)|DNA duplex unwinding (GO:0032508)|hematopoietic stem cell differentiation (GO:0060218)|muscle organ development (GO:0007517)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|core promoter sequence-specific DNA binding (GO:0001046)|DNA binding (GO:0003677)|histone binding (GO:0042393)|poly(A) RNA binding (GO:0044822)			breast(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(5)|kidney(2)|large_intestine(10)|lung(17)|ovary(1)|prostate(2)|skin(2)|stomach(1)|urinary_tract(2)	47	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			GGCACCAGTGCAGAGAGTGAG	0.403																																																0													101	99	99					15																	93480801		2197	4298	6495	SO:0001583	missense	1106			AF006514	CCDS10374.2, CCDS45356.1	15q26	2008-07-18			ENSG00000173575	ENSG00000173575			1917	protein-coding gene	gene with protein product		602119				9326634	Standard	NM_001042572		Approved	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200	uc002bsp.3	O14647	OTTHUMG00000149845	ENST00000394196.4:c.497C>T	15.37:g.93480801C>T	ENSP00000377747:p.Ala166Val	Somatic		WXS	Illumina HiSeq	Phase_I	C6G482|Q96IP5	Missense_Mutation	SNP	ENST00000394196.4	37	CCDS10374.2	.	.	.	.	.	.	.	.	.	.	C	16.04	3.008892	0.54361	.	.	ENSG00000173575	ENST00000556722;ENST00000394196;ENST00000557381;ENST00000420239;ENST00000536619	D;D;T;T	0.90004	-2.6;-2.6;0.88;0.87	5.07	5.07	0.68467	.	0.000000	0.33916	U	0.004434	T	0.78572	0.4304	N	0.14661	0.345	0.43179	D	0.994992	B;B;B;P	0.37781	0.075;0.099;0.16;0.608	B;B;B;B	0.30401	0.026;0.027;0.059;0.115	T	0.80120	-0.1515	10	0.39692	T	0.17	-32.1826	15.4022	0.74849	0.1394:0.8606:0.0:0.0	.	179;166;166;166	B7Z3I4;O14647;O14647-2;Q6AI05	.;CHD2_HUMAN;.;.	V	166;166;166;166;179	ENSP00000377747:A166V;ENSP00000451366:A166V;ENSP00000406581:A166V;ENSP00000443618:A179V	ENSP00000377747:A166V	A	+	2	0	CHD2	91281805	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.498000	0.60373	2.798000	0.96311	0.650000	0.86243	GCA		0.403	CHD2-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000313528.3	NM_001271		T	93480801	C	T	93480801	3	4	607	1	0	0	0	0	1	0	0	0	3327	710	25	2	515	2	CHD2	15	93480801	Missense_Mutation	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10	18840554	93480801	9050591	66	36791										
SRCAP	10847	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	30734928	30734928	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	cagcccccggagctgcccccTtgaccatctcttctcctctc	6	21	3	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr16:30734928T>C	ENST00000262518.4	+	25	4568	c.4183T>C	c.(4183-4185)Ttg>Ctg	p.L1395L	SRCAP_ENST00000344771.4_Silent_p.L1237L|SRCAP_ENST00000395059.2_Silent_p.L1333L	NM_006662.2	NP_006653.2	Q6ZRS2	SRCAP_HUMAN	Snf2-related CREBBP activator protein	1395	Pro-rich.				histone acetylation (GO:0016573)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|protein complex (GO:0043234)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|histone acetyltransferase activity (GO:0004402)|transcription coactivator activity (GO:0003713)			NS(1)|breast(3)|cervix(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(22)|liver(3)|lung(62)|ovary(6)|pancreas(1)|prostate(4)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(5)	136			Colorectal(24;0.198)			AGCTGCCCCCTTGACCATCTC	0.567																																																0													149	141	144					16																	30734928		2197	4300	6497	SO:0001819	synonymous_variant	10847			AB002307	CCDS10689.2	16p11.2	2009-08-06			ENSG00000080603	ENSG00000080603			16974	protein-coding gene	gene with protein product	"Swi2/Snf2-related ATPase homolog (S. cerevisiae)", "domino homolog 1 (Drosophila)"	611421				10347196, 9205841	Standard	NM_006662		Approved	KIAA0309, EAF1, SWR1, DOMO1	uc002dze.1	Q6ZRS2	OTTHUMG00000132393	ENST00000262518.4:c.4183T>C	16.37:g.30734928T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B0JZA6|O15026|Q7Z744|Q9Y5L9	Silent	SNP	ENST00000262518.4	37	CCDS10689.2																																																																																				0.567	SRCAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255523.1	NM_006662		C	30734928	T	C	30734928	2	2	607	1	0	0	0	0	0	0	0	1	15147	1606	56	3		3	SRCAP	16	30734928	Silent	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10		30734928	59619825	67	36792										
AMFR	267	broad.mit.edu	37	chr16	56396896	56396896	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	cgacgcagggtcacggggtcAgaggacgcaccttccgaggg	17	12	2	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr16:56396896A>G	ENST00000290649.5	-	14	2067	c.1857T>C	c.(1855-1857)tcT>tcC	p.S619S		NM_001144.5	NP_001135.3	Q9UKV5	AMFR_HUMAN	autocrine motility factor receptor, E3 ubiquitin protein ligase	619	VCP/p97-interacting motif (VIM).				aging (GO:0007568)|cellular component movement (GO:0006928)|endoplasmic reticulum unfolded protein response (GO:0030968)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|learning or memory (GO:0007611)|protein oligomerization (GO:0051259)|protein polyubiquitination (GO:0000209)|signal transduction (GO:0007165)|ubiquitin-dependent protein catabolic process (GO:0006511)	dendrite (GO:0030425)|endoplasmic reticulum membrane (GO:0005789)|growth cone (GO:0030426)|Hrd1p ubiquitin ligase complex (GO:0000836)|integral component of endoplasmic reticulum membrane (GO:0030176)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|protein complex (GO:0043234)	ligase activity (GO:0016874)|receptor activity (GO:0004872)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|endometrium(1)|kidney(1)|large_intestine(4)|lung(6)|skin(1)|upper_aerodigestive_tract(1)	17						TCACGGGGTCAGAGGACGCAC	0.567																																					Pancreas(2;144 323 39528)											0													49	44	45					16																	56396896		2198	4300	6498	SO:0001819	synonymous_variant	267			L35233	CCDS10758.1	16q21	2013-01-09	2012-02-23		ENSG00000159461	ENSG00000159461		"RING-type (C3HC4) zinc fingers"	463	protein-coding gene	gene with protein product		603243	"autocrine motility factor receptor"			1649192	Standard	NM_001144		Approved	RNF45, gp78	uc002eiy.4	Q9UKV5	OTTHUMG00000133239	ENST00000290649.5:c.1857T>C	16.37:g.56396896A>G		Somatic		WXS	Illumina HiSeq	Phase_I	P26442|Q8IZ70	Silent	SNP	ENST00000290649.5	37	CCDS10758.1																																																																																				0.567	AMFR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256978.2			G	56396896	A	G	56396896	2	3	607	1	0	0	0	0	0	0	0	1	571	175	7	3		3	AMFR	16	56396896	Silent	SNP	A	TCGA-HE-A5NF-01A-11D-A26P-10	25661968	56396896	33957857	68	36793										
SLC12A3	6559	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	56919183	56919183	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ccttgctctcccagaggtaaAttggggctcctcggtacagg	12	12	1	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr16:56919183A>C	ENST00000563236.1	+	15	1857	c.1832A>C	c.(1831-1833)aAt>aCt	p.N611T	SLC12A3_ENST00000262502.5_Missense_Mutation_p.N610T|SLC12A3_ENST00000566786.1_Missense_Mutation_p.N610T|SLC12A3_ENST00000438926.2_Missense_Mutation_p.N611T			P55017	S12A3_HUMAN	solute carrier family 12 (sodium/chloride transporter), member 3	611					chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|ion transport (GO:0006811)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)|transport (GO:0006810)	apical plasma membrane (GO:0016324)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	sodium:chloride symporter activity (GO:0015378)|transporter activity (GO:0005215)			breast(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(28)|ovary(2)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	50					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	CCAGAGGTAAATTGGGGCTCC	0.567																																																0			GRCh37	CM075008	SLC12A3	M							85	63	70					16																	56919183		2156	4234	6390	SO:0001583	missense	6559				CCDS10770.1, CCDS45491.1, CCDS58464.1	16q13	2013-07-18	2013-07-18		ENSG00000070915	ENSG00000070915		"Solute carriers"	10912	protein-coding gene	gene with protein product		600968				8812482	Standard	NM_000339		Approved	NCCT	uc002ekd.4	P55017	OTTHUMG00000133284	ENST00000563236.1:c.1832A>C	16.37:g.56919183A>C	ENSP00000456149:p.Asn611Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8MSJ2|C9JNN9	Missense_Mutation	SNP	ENST00000563236.1	37	CCDS58464.1	.	.	.	.	.	.	.	.	.	.	A	23.2	4.386422	0.82902	.	.	ENSG00000070915	ENST00000438926;ENST00000262502	.	.	.	5.4	5.4	0.78164	Amino acid permease domain (1);	0.088014	0.85682	D	0.000000	T	0.77478	0.4136	M	0.71296	2.17	0.80722	D	1	P;D;D	0.76494	0.735;0.999;0.999	B;D;D	0.74674	0.426;0.984;0.973	T	0.80415	-0.1392	9	0.87932	D	0	.	14.4174	0.67160	1.0:0.0:0.0:0.0	.	610;611;611	P55017-3;P55017;P55017-2	.;S12A3_HUMAN;.	T	610;611	.	ENSP00000262502:N611T	N	+	2	0	SLC12A3	55476684	1.000000	0.71417	1.000000	0.80357	0.922000	0.55478	9.060000	0.93907	2.048000	0.60808	0.533000	0.62120	AAT		0.567	SLC12A3-005	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000432337.1			C	56919183	A	C	56919183	3	2	607	1	0	0	0	0	1	0	0	0	14397	101	4	5	1890	5	SLC12A3	16	56919183	Missense_Mutation	SNP	A	TCGA-HE-A5NF-01A-11D-A26P-10	522287	56919183	33435570	69	36794										
KIAA0753	9851	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	6526336	6526336	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	aggaagtggatgctcccctcGgtcagtaaactgagtgacaa	12	9	1	2			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr17:6526336G>C	ENST00000361413.3	-	6	1328	c.970C>G	c.(970-972)Cga>Gga	p.R324G	KIAA0753_ENST00000542606.1_Missense_Mutation_p.R25G|KIAA0753_ENST00000589033.1_5'Flank|KIAA0753_ENST00000572370.1_Missense_Mutation_p.R25G	NM_014804.2	NP_055619.2	Q2KHM9	K0753_HUMAN	KIAA0753	324						centrosome (GO:0005813)|cytoplasm (GO:0005737)				endometrium(4)|large_intestine(11)|lung(5)|prostate(4)	24				COAD - Colon adenocarcinoma(228;0.157)		TGCTCCCCTCGGTCAGTAAAC	0.517																																																0													62	60	60					17																	6526336		1915	4127	6042	SO:0001583	missense	9851				CCDS42247.1	17p13.1	2014-04-04			ENSG00000198920	ENSG00000198920			29110	protein-coding gene	gene with protein product						24613305	Standard	NM_014804		Approved		uc002gde.4	Q2KHM9	OTTHUMG00000177928	ENST00000361413.3:c.970C>G	17.37:g.6526336G>C	ENSP00000355250:p.Arg324Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA11|B7Z479|O94853|Q05D97|Q2KHN0|Q9UG45	Missense_Mutation	SNP	ENST00000361413.3	37	CCDS42247.1	.	.	.	.	.	.	.	.	.	.	G	11.08	1.533928	0.27387	.	.	ENSG00000198920	ENST00000361413;ENST00000542606	D;D	0.86230	-2.09;-2.09	5.7	-0.0324	0.13905	.	0.841046	0.10770	N	0.636068	T	0.79052	0.4381	L	0.42245	1.32	0.80722	D	1	B	0.18013	0.025	B	0.17098	0.017	T	0.65903	-0.6055	10	0.30078	T	0.28	-0.3706	5.2141	0.15332	0.0698:0.1147:0.3462:0.4694	.	324	Q2KHM9	K0753_HUMAN	G	324;25	ENSP00000355250:R324G;ENSP00000444634:R25G	ENSP00000355250:R324G	R	-	1	2	KIAA0753	6467060	1.000000	0.71417	0.995000	0.50966	0.396000	0.30629	2.647000	0.46639	0.118000	0.18165	-1.035000	0.02400	CGA		0.517	KIAA0753-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000439769.3	NM_014804		C	6526336	G	C	6526336	3	2	607	1	0	0	0	0	1	0	0	0	8198	1124	39	4	1989	4	KIAA0753	17	6526336	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10		6526336	74668874	70	36795										
SHBG	6462	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	7534128	7534128	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ctgagatccaactgcacaatCactgggcccagcttacggtg	10	13	1	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr17:7534128C>G	ENST00000380450.4	+	3	365	c.334C>G	c.(334-336)Cac>Gac	p.H112D	SHBG_ENST00000576478.1_Missense_Mutation_p.H54D|SHBG_ENST00000441599.2_Missense_Mutation_p.H112D|SHBG_ENST00000575314.1_Missense_Mutation_p.H54D|SHBG_ENST00000570547.1_Missense_Mutation_p.H54D|SAT2_ENST00000380466.2_5'Flank|SAT2_ENST00000269298.5_5'Flank|SHBG_ENST00000575903.1_Missense_Mutation_p.H112D|SHBG_ENST00000340624.5_Missense_Mutation_p.H54D|SHBG_ENST00000572182.1_Missense_Mutation_p.H54D|SHBG_ENST00000576728.1_Missense_Mutation_p.H54D|SHBG_ENST00000572262.1_Missense_Mutation_p.H54D|SHBG_ENST00000416273.3_Missense_Mutation_p.H112D|SHBG_ENST00000574539.1_Missense_Mutation_p.H54D	NM_001040.3	NP_001031.2	P04278	SHBG_HUMAN	sex hormone-binding globulin	112	Laminin G-like 1. {ECO:0000255|PROSITE- ProRule:PRU00122}.				primary spermatocyte growth (GO:0007285)	extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	androgen binding (GO:0005497)	p.?(1)		cervix(1)|endometrium(2)|large_intestine(4)|lung(2)|skin(1)	10		all_cancers(10;0.0867)		READ - Rectum adenocarcinoma(115;0.168)	Danazol(DB01406)|Drostanolone(DB00858)|Estradiol(DB00783)|Estropipate(DB04574)|Fluoxymesterone(DB01185)|Hydrocortisone(DB00741)|Methyltestosterone(DB06710)|Mitotane(DB00648)|Norethindrone(DB00717)|Spironolactone(DB00421)|Testosterone(DB00624)|transdermal testosterone gel(DB05275)	ACTGCACAATCACTGGGCCCA	0.567																																																1	Unknown(1)	haematopoietic_and_lymphoid_tissue(1)											81	77	78					17																	7534128		2203	4300	6503	SO:0001583	missense	6462				CCDS11117.1, CCDS54082.1, CCDS54083.1, CCDS58513.1, CCDS73961.1, CCDS73962.1	17p13.1	2013-09-19			ENSG00000129214	ENSG00000129214			10839	protein-coding gene	gene with protein product	"androgen binding protein"	182205				2587256	Standard	NM_001146279		Approved	ABP, TEBG, MGC126834, MGC138391	uc002gie.2	P04278	OTTHUMG00000108153	ENST00000380450.4:c.334C>G	17.37:g.7534128C>G	ENSP00000369816:p.His112Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B0FWH4|E9PGW1|F5H5Z8|I3L1N7|P14689|Q16616|Q3MIL0|Q6ISD2	Missense_Mutation	SNP	ENST00000380450.4	37	CCDS11117.1	.	.	.	.	.	.	.	.	.	.	C	8.055	0.766779	0.15983	.	.	ENSG00000129214	ENST00000340624;ENST00000441599;ENST00000416273;ENST00000441313;ENST00000452698;ENST00000380450	T;T;T;T	0.77620	-1.11;-1.11;-1.11;-1.11	5.04	-0.0208	0.13954	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (2);Laminin G, subdomain 1 (1);	2.361970	0.01468	N	0.016151	T	0.71592	0.3358	L	0.47716	1.5	0.09310	N	1	B;B;B;B;B;B;B;B;B;B;B	0.25007	0.01;0.045;0.023;0.001;0.013;0.116;0.116;0.03;0.007;0.013;0.013	B;B;B;B;B;B;B;B;B;B;B	0.28011	0.011;0.03;0.044;0.001;0.042;0.085;0.085;0.045;0.038;0.031;0.013	T	0.49194	-0.8965	10	0.12103	T	0.63	2.7497	9.104	0.36687	0.0:0.6418:0.1148:0.2435	.	112;107;85;112;112;112;85;85;85;112;54	F5H5Z8;P04278-2;B0FWH6;E9PH59;E9PGW1;E9PGQ3;B0FWH7;B0FWH5;B0FWH4;P04278;B4DYU0	.;.;.;.;.;.;.;.;.;SHBG_HUMAN;.	D	54;112;112;112;112;112	ENSP00000345675:H54D;ENSP00000393426:H112D;ENSP00000388867:H112D;ENSP00000369816:H112D	ENSP00000345675:H54D	H	+	1	0	SHBG	7474853	0.001000	0.12720	0.000000	0.03702	0.014000	0.08584	-0.109000	0.10840	-0.068000	0.12953	-1.134000	0.01955	CAC		0.567	SHBG-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000226957.2	NM_001040		G	7534128	C	G	7534128	3	3	607	1	0	0	0	0	1	0	0	0	14282	826	29	4	344	4	SHBG	17	7534128	Missense_Mutation	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10	1007792	7534128	73661082	71	36796										
SOCS7	30837	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	36508826	36508826	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	tccggcggtggggatgggacCggcaagaggccttctggaga	19	9	1	2			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr17:36508826C>A	ENST00000577233.1	+	1	699	c.699C>A	c.(697-699)acC>acA	p.T233T	SOCS7_ENST00000331159.5_Silent_p.T233T	NM_014598.2	NP_055413.1	O14512	SOCS7_HUMAN	suppressor of cytokine signaling 7	233	Mediates interaction with SORBS3.				fat cell differentiation (GO:0045444)|insulin receptor signaling pathway (GO:0008286)|intracellular signal transduction (GO:0035556)|negative regulation of signal transduction (GO:0009968)|protein ubiquitination (GO:0016567)|regulation of growth (GO:0040008)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	SH3 domain binding (GO:0017124)			central_nervous_system(1)|endometrium(1)|kidney(1)|prostate(1)|skin(5)	9	Breast(7;3.47e-17)					GGGATGGGACCGGCAAGAGGC	0.667																																																0													7	10	9					17																	36508826		2166	4235	6401	SO:0001819	synonymous_variant	30837			AB005216	CCDS32637.1	17q12	2014-08-12			ENSG00000274211	ENSG00000274211		"Suppressors of cytokine signaling", "SH2 domain containing"	29846	protein-coding gene	gene with protein product	"Nck, Ash and phospholipase C binding protein", "NCK-associated protein 4"	608788				9344857, 12076535	Standard	XM_005257264		Approved	NAP4, NCKAP4	uc002hqa.3	O14512	OTTHUMG00000188546	ENST00000577233.1:c.699C>A	17.37:g.36508826C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2VCU2|Q0IJ63	Silent	SNP	ENST00000577233.1	37	CCDS32637.1																																																																																				0.667	SOCS7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440486.4	XM_371052		A	36508826	C	A	36508826	2	1	607	1	0	0	0	0	0	0	0	1	14932	639	23	4		4	SOCS7	17	36508826	Silent	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10	28974698	36508826	44686384	72	36797										
KRTAP4-7	100132476	hgsc.bcm.edu;ucsc.edu	37	chr17	39240796	39240796	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	gcccacctgctgccgccccaGctgctgccgcccctgctgct	10	22	0	0	rs553572799|rs199957151	byFrequency	TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr17:39240796G>C	ENST00000391417.4	+	1	338	c.338G>C	c.(337-339)aGc>aCc	p.S113T		NM_033061.3	NP_149050.3	Q9BYR0	KRA47_HUMAN	keratin associated protein 4-7	138	31 X 5 AA repeats of C-C-[GIKRQVHEML]- [SPTRV]-[STVQRCP].		Missing. {ECO:0000269|PubMed:15955084}.		aging (GO:0007568)|hair cycle (GO:0042633)	keratin filament (GO:0045095)		p.R111_C115delRPSCC(1)|p.?(1)		NS(1)|endometrium(3)|kidney(1)|lung(1)|prostate(2)|urinary_tract(1)	9						tgccgccccagctgctgccgc	0.667																																																2	Unknown(1)|Deletion - In frame(1)	NS(2)																																								SO:0001583	missense	100132476			AJ406939	CCDS45673.1	17q21.2	2013-06-25			ENSG00000240871	ENSG00000240871		"Keratin associated proteins"	18898	protein-coding gene	gene with protein product						11279113	Standard	NM_033061		Approved	KAP4.7	uc010wfn.2	Q9BYR0	OTTHUMG00000133582	ENST00000391417.4:c.338G>C	17.37:g.39240796G>C	ENSP00000375236:p.Ser113Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVM6|A8MQ08|A8MTL4	Missense_Mutation	SNP	ENST00000391417.4	37	CCDS45673.1	.	.	.	.	.	.	.	.	.	.	.	0.047	-1.263726	0.01433	.	.	ENSG00000240871	ENST00000391417	T	0.00627	6.12	2.73	1.66	0.24008	.	2.038930	0.02697	N	0.111300	T	0.00552	0.0018	.	.	.	0.21290	N	0.999731	B	0.13145	0.007	B	0.12837	0.008	T	0.47222	-0.9134	9	0.17832	T	0.49	.	5.1702	0.15107	0.0:0.2319:0.5315:0.2367	.	168	Q9BYR0	KRA47_HUMAN	T	113	ENSP00000375236:S113T	ENSP00000375236:S113T	S	+	2	0	KRTAP4-7	36494322	0.010000	0.17322	0.067000	0.19924	0.024000	0.10985	-0.517000	0.06275	0.191000	0.20236	0.289000	0.19496	AGC		0.667	KRTAP4-7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257686.1			C	39240796	G	C	39240796	3	2	607	1	0	0	0	0	1	0	0	0	8562	971	34	4	340	4	KRTAP4-7	17	39240796	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	2731970	39240796	41954414	73	36798										
TOB1	10140	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	48940734	48940734	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	atggctttctgcttcaagagGtcattcacattcaagccgag	9	10	5	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr17:48940734G>C	ENST00000268957.3	-	3	1073	c.645C>G	c.(643-645)gaC>gaG	p.D215E	TOB1_ENST00000509385.1_5'UTR|TOB1_ENST00000499247.2_Missense_Mutation_p.D215E	NM_001243877.1	NP_001230806.1	P50616	TOB1_HUMAN	transducer of ERBB2, 1	215					negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of cell proliferation (GO:0008285)|negative regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060212)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of translation (GO:0017148)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|positive regulation of signal transduction (GO:0009967)|SMAD protein import into nucleus (GO:0007184)	CCR4-NOT complex (GO:0030014)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	receptor tyrosine kinase binding (GO:0030971)|SH3/SH2 adaptor activity (GO:0005070)|transcription corepressor activity (GO:0003714)			breast(1)|kidney(2)|large_intestine(3)|liver(1)|lung(2)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	13			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			GCTTCAAGAGGTCATTCACAT	0.527																																					NSCLC(144;643 1919 24513 29423 40686)											0													98	100	99					17																	48940734		2203	4300	6503	SO:0001583	missense	10140			D38305	CCDS11576.1	17q21.33	2012-08-14			ENSG00000141232	ENSG00000141232			11979	protein-coding gene	gene with protein product		605523		TROB1		8632892, 17785442	Standard	NM_005749		Approved	TOB, TROB	uc002isw.3	P50616	OTTHUMG00000162277	ENST00000268957.3:c.645C>G	17.37:g.48940734G>C	ENSP00000268957:p.Asp215Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9T0|D3DTY3|Q4KMQ0	Missense_Mutation	SNP	ENST00000268957.3	37	CCDS11576.1	.	.	.	.	.	.	.	.	.	.	G	6.571	0.473717	0.12521	.	.	ENSG00000141232	ENST00000499247;ENST00000268957	T;T	0.39229	1.09;1.09	6.07	6.07	0.98685	.	0.168901	0.51477	D	0.000081	T	0.21550	0.0519	N	0.02539	-0.55	0.38296	D	0.94283	B	0.16396	0.017	B	0.12156	0.007	T	0.14254	-1.0479	10	0.38643	T	0.18	.	14.7663	0.69642	0.0684:0.0:0.9316:0.0	.	215	P50616	TOB1_HUMAN	E	215	ENSP00000427695:D215E;ENSP00000268957:D215E	ENSP00000268957:D215E	D	-	3	2	TOB1	46295733	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	1.185000	0.32065	2.885000	0.99019	0.655000	0.94253	GAC		0.527	TOB1-002	KNOWN	alternative_5_UTR|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000368364.1			C	48940734	G	C	48940734	3	2	607	1	0	0	0	0	1	0	0	0	16359	1252	44	4	396	4	TOB1	17	48940734	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	9699938	48940734	32254476	74	36799										
ABCA8	10351	broad.mit.edu;bcgsc.ca	37	chr17	66878037	66878037	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	gaaggagacatttctcgtggCtatcttattcttcctcttgg	9	9	4	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr17:66878037C>A	ENST00000269080.2	-	29	3930	c.3793G>T	c.(3793-3795)Gcc>Tcc	p.A1265S	ABCA8_ENST00000586539.1_Missense_Mutation_p.A1305S|ABCA8_ENST00000430352.2_Missense_Mutation_p.A1305S	NM_007168.2	NP_009099.1	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 8	1265	ABC transporter 2. {ECO:0000255|PROSITE- ProRule:PRU00434}.				transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)			breast(3)|central_nervous_system(2)|endometrium(9)|kidney(5)|large_intestine(19)|liver(1)|lung(30)|ovary(3)|pancreas(2)|prostate(2)|skin(3)|urinary_tract(4)	83	Breast(10;4.56e-13)					TTTCTCGTGGCTATCTTATTC	0.473																																																0													171	157	161					17																	66878037		2203	4300	6503	SO:0001583	missense	10351			AB020629	CCDS11680.1, CCDS74138.1, CCDS74139.1	17q24	2012-03-14			ENSG00000141338	ENSG00000141338		"ATP binding cassette transporters / subfamily A"	38	protein-coding gene	gene with protein product		612505					Standard	XM_005256938		Approved	KIAA0822	uc002jhp.3	O94911		ENST00000269080.2:c.3793G>T	17.37:g.66878037C>A	ENSP00000269080:p.Ala1265Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A1L3U3|C9JQE6|Q86WW0	Missense_Mutation	SNP	ENST00000269080.2	37	CCDS11680.1	.	.	.	.	.	.	.	.	.	.	C	27.9	4.875492	0.91664	.	.	ENSG00000141338	ENST00000269080;ENST00000430352	T;T	0.16743	2.32;2.32	4.75	4.75	0.60458	ABC transporter-like (1);	0.000000	0.52532	D	0.000066	T	0.46464	0.1394	M	0.83603	2.65	0.51767	D	0.999932	D;D;D	0.89917	1.0;0.997;0.999	D;D;D	0.77557	0.99;0.94;0.94	T	0.51764	-0.8664	10	0.72032	D	0.01	.	17.2614	0.87071	0.0:1.0:0.0:0.0	.	1305;1305;1265	A1L3U3;C9JQE6;O94911	.;.;ABCA8_HUMAN	S	1265;1305	ENSP00000269080:A1265S;ENSP00000402814:A1305S	ENSP00000269080:A1265S	A	-	1	0	ABCA8	64389632	1.000000	0.71417	0.923000	0.36655	0.874000	0.50279	6.725000	0.74752	2.623000	0.88846	0.563000	0.77884	GCC		0.473	ABCA8-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000450172.1	NM_007168		A	66878037	C	A	66878037	3	1	607	1	0	0	0	0	1	0	0	0	38	797	28	4	992	4	ABCA8	17	66878037	Missense_Mutation	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10	17937303	66878037	14317173	75	36800										
TOMM40	10452	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	45397281	45397281	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	atcggggctctgacttcacaGcagccgtcaccctggggaac	12	14	3	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr19:45397281G>A	ENST00000426677.2	+	5	781	c.601G>A	c.(601-603)Gca>Aca	p.A201T	TOMM40_ENST00000405636.2_Missense_Mutation_p.A201T|TOMM40_ENST00000592434.1_Missense_Mutation_p.A201T|TOMM40_ENST00000252487.5_Missense_Mutation_p.A201T	NM_001128917.1	NP_001122389.1	O96008	TOM40_HUMAN	translocase of outer mitochondrial membrane 40 homolog (yeast)	201					cellular protein metabolic process (GO:0044267)|ion transport (GO:0006811)|protein targeting to mitochondrion (GO:0006626)|protein transmembrane transport (GO:0071806)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|integral component of mitochondrial outer membrane (GO:0031307)|mitochondrial outer membrane translocase complex (GO:0005742)|pore complex (GO:0046930)	porin activity (GO:0015288)|protein transmembrane transporter activity (GO:0008320)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|lung(2)|ovary(1)	5	Lung NSC(12;0.0018)|all_lung(12;0.00481)			OV - Ovarian serous cystadenocarcinoma(262;0.0033)|Epithelial(262;0.176)		TGACTTCACAGCAGCCGTCAC	0.617																																																0													45	44	45					19																	45397281		2203	4300	6503	SO:0001583	missense	10452			AF043250	CCDS12646.1	19q13	2008-07-04				ENSG00000130204			18001	protein-coding gene	gene with protein product		608061				10980201, 15644312	Standard	NM_006114		Approved	PEREC1, D19S1177E, C19orf1, TOM40, PER-EC1	uc002paa.4	O96008		ENST00000426677.2:c.601G>A	19.37:g.45397281G>A	ENSP00000410339:p.Ala201Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q86VW4|Q8WY09|Q8WY10|Q8WY11|Q9BR95	Missense_Mutation	SNP	ENST00000426677.2	37	CCDS12646.1	.	.	.	.	.	.	.	.	.	.	G	16.63	3.176405	0.57692	.	.	ENSG00000130204	ENST00000426677;ENST00000405636;ENST00000252487	T;T;T	0.45668	0.89;0.89;0.89	4.76	4.76	0.60689	.	0.122142	0.53938	D	0.000046	T	0.39145	0.1067	L	0.49571	1.57	0.46701	D	0.999162	B;B	0.26975	0.165;0.037	B;B	0.28139	0.086;0.05	T	0.20306	-1.0279	10	0.28530	T	0.3	1.0773	15.2511	0.73545	0.0:0.0:1.0:0.0	.	201;201	O96008-2;O96008	.;TOM40_HUMAN	T	201	ENSP00000410339:A201T;ENSP00000385184:A201T;ENSP00000252487:A201T	ENSP00000252487:A201T	A	+	1	0	TOMM40	50089121	1.000000	0.71417	0.016000	0.15963	0.939000	0.58152	5.430000	0.66501	2.191000	0.70037	0.561000	0.74099	GCA		0.617	TOMM40-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453241.1			A	45397281	G	A	45397281	3	1	607	1	0	0	0	0	1	0	0	0	16370	971	34	2	619	2	TOMM40	19	45397281	Missense_Mutation	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10		45397281	13731702	76	36801										
CNOT3	4849	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	54648053	54648053	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	tcagtgcagacacgcaagaaGaagggcgacaaggatgtgag	15	7	1	4			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr19:54648053G>A	ENST00000406403.1	+	6	2071	c.468G>A	c.(466-468)aaG>aaA	p.K156K	CNOT3_ENST00000358389.3_5'UTR|CNOT3_ENST00000221232.5_Silent_p.K156K			O75175	CNOT3_HUMAN	CCR4-NOT transcription complex, subunit 3	156					gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|regulation of stem cell maintenance (GO:2000036)|regulation of transcription, DNA-templated (GO:0006355)|regulation of translation (GO:0006417)|RNA metabolic process (GO:0016070)|transcription, DNA-templated (GO:0006351)|trophectodermal cell differentiation (GO:0001829)	CCR4-NOT complex (GO:0030014)|cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|nucleus (GO:0005634)				endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(3)|lung(6)|ovary(3)|prostate(7)|urinary_tract(3)	28	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					CACGCAAGAAGAAGGGCGACA	0.557																																																0													136	103	114					19																	54648053		2203	4300	6503	SO:0001819	synonymous_variant	4849			AF180474	CCDS12880.1	19q13.4	2011-02-14			ENSG00000088038	ENSG00000088038			7879	protein-coding gene	gene with protein product	"NOT3 (negative regulator of transcription 3, yeast) homolog"	604910		NOT3		10637334, 9734811	Standard	NM_014516		Approved	NOT3H, KIAA0691, LENG2	uc002qdj.2	O75175	OTTHUMG00000066468	ENST00000406403.1:c.468G>A	19.37:g.54648053G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NZN7|Q9UF76	Silent	SNP	ENST00000406403.1	37	CCDS12880.1	.	.	.	.	.	.	.	.	.	.	G	9.574	1.121845	0.20877	.	.	ENSG00000088038	ENST00000440571	.	.	.	5.38	5.38	0.77491	.	.	.	.	.	T	0.74512	0.3726	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.72686	-0.4218	4	.	.	.	-30.9714	18.2928	0.90136	0.0:0.0:1.0:0.0	.	.	.	.	K	77	.	.	R	+	2	0	CNOT3	59339865	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.854000	0.69503	2.697000	0.92050	0.655000	0.94253	AGA		0.557	CNOT3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000142130.3	NM_014516		A	54648053	G	A	54648053	2	1	607	1	0	0	0	0	0	0	0	1	3622	933	33	2		2	CNOT3	19	54648053	Silent	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10	9250772	54648053	4480930	77	36802										
NKX2-2	4821	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	21492814	21492814	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ggggcgtcacctccatacctTtctcggcccgggcgcgcttc	12	17	2	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr20:21492814T>G	ENST00000377142.4	-	2	925	c.569A>C	c.(568-570)aAa>aCa	p.K190T	NKX2-2-AS1_ENST00000549659.1_RNA	NM_002509.3	NP_002500.1	O95096	NKX22_HUMAN	NK2 homeobox 2	190					astrocyte differentiation (GO:0048708)|brain development (GO:0007420)|digestive tract development (GO:0048565)|endocrine pancreas development (GO:0031018)|negative regulation of neuron differentiation (GO:0045665)|neuron fate specification (GO:0048665)|oligodendrocyte development (GO:0014003)|optic nerve development (GO:0021554)|pancreatic A cell fate commitment (GO:0003326)|pancreatic PP cell fate commitment (GO:0003329)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of oligodendrocyte differentiation (GO:0048714)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|response to glucose (GO:0009749)|response to progesterone (GO:0032570)|smoothened signaling pathway (GO:0007224)|spinal cord motor neuron differentiation (GO:0021522)|spinal cord oligodendrocyte cell fate specification (GO:0021530)|transcription, DNA-templated (GO:0006351)|type B pancreatic cell development (GO:0003323)|type B pancreatic cell fate commitment (GO:0003327)|ventral spinal cord interneuron fate determination (GO:0060580)	nucleoplasm (GO:0005654)	chromatin binding (GO:0003682)|core promoter proximal region DNA binding (GO:0001159)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)			endometrium(2)|kidney(2)|large_intestine(2)|lung(10)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	21						CTCCATACCTTTCTCGGCCCG	0.667																																																0													38	40	39					20																	21492814		2202	4300	6502	SO:0001583	missense	4821			AF019415	CCDS13145.1	20p11.22	2012-03-09	2007-07-09	2002-10-04	ENSG00000125820	ENSG00000125820		"Homeoboxes / ANTP class : NKL subclass"	7835	protein-coding gene	gene with protein product		604612	"NK-2 (Drosophila) homolog B", "NK2 transcription factor related, locus 2 (Drosophila)"	NKX2B		9703340, 1346742	Standard	NM_002509		Approved	NKX2.2	uc002wsi.3	O95096	OTTHUMG00000170524	ENST00000377142.4:c.569A>C	20.37:g.21492814T>G	ENSP00000366347:p.Lys190Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000377142.4	37	CCDS13145.1	.	.	.	.	.	.	.	.	.	.	T	26.3	4.724176	0.89298	.	.	ENSG00000125820	ENST00000377142	D	0.91996	-2.95	5.35	5.35	0.76521	Homeobox (1);	0.000000	0.85682	D	0.000000	D	0.94499	0.8229	M	0.73217	2.22	0.80722	D	1	D	0.57257	0.979	P	0.57620	0.824	D	0.94718	0.7898	10	0.56958	D	0.05	.	15.3169	0.74089	0.0:0.0:0.0:1.0	.	190	O95096	NKX22_HUMAN	T	190	ENSP00000366347:K190T	ENSP00000366347:K190T	K	-	2	0	NKX2-2	21440814	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	8.002000	0.88514	2.014000	0.59158	0.379000	0.24179	AAA		0.667	NKX2-2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078278.9			G	21492814	T	G	21492814	3	3	607	1	0	0	0	0	1	0	0	0	10457	1841	64	5	256	5	NKX2-2	20	21492814	Missense_Mutation	SNP	T	TCGA-HE-A5NF-01A-11D-A26P-10		21492814	41532706	78	36803										
KCNG1	3755	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	49621336	49621336	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	cgttgtggcacatctgggaaCagtggccctgggagagaggg	18	8	1	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr20:49621336C>T	ENST00000371571.4	-	3	1067	c.782G>A	c.(781-783)tGt>tAt	p.C261Y	KCNG1_ENST00000506387.1_5'UTR|RP5-955M13.4_ENST00000424566.1_RNA	NM_002237.3	NP_002228.2	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G, member 1	261					potassium ion transport (GO:0006813)|protein homooligomerization (GO:0051260)|synaptic transmission (GO:0007268)	intracellular membrane-bounded organelle (GO:0043231)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|potassium channel activity (GO:0005267)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(7)|liver(1)|lung(11)|ovary(2)|prostate(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	35						CATCTGGGAACAGTGGCCCTG	0.652																																																0													12	12	12					20																	49621336		2198	4293	6491	SO:0001583	missense	3755			AF033383	CCDS13436.1	20q13	2011-07-05			ENSG00000026559	ENSG00000026559		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6248	protein-coding gene	gene with protein product		603788		KCNG		9434767, 16382104	Standard	NM_002237		Approved	Kv6.1, kH2, K13	uc002xwa.4	Q9UIX4	OTTHUMG00000032745	ENST00000371571.4:c.782G>A	20.37:g.49621336C>T	ENSP00000360626:p.Cys261Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3S4|O43528|Q5JXL5|Q9BRC1	Missense_Mutation	SNP	ENST00000371571.4	37	CCDS13436.1	.	.	.	.	.	.	.	.	.	.	C	15.67	2.903278	0.52333	.	.	ENSG00000026559	ENST00000371571	D	0.97924	-4.61	5.0	5.0	0.66597	.	0.090523	0.85682	D	0.000000	D	0.97232	0.9095	M	0.85945	2.785	0.80722	D	1	B	0.27316	0.175	B	0.24269	0.052	D	0.96618	0.9457	9	.	.	.	.	18.6442	0.91405	0.0:1.0:0.0:0.0	.	261	Q9UIX4	KCNG1_HUMAN	Y	261	ENSP00000360626:C261Y	.	C	-	2	0	KCNG1	49054743	1.000000	0.71417	1.000000	0.80357	0.971000	0.66376	7.776000	0.85560	2.477000	0.83638	0.313000	0.20887	TGT		0.652	KCNG1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079726.4	NM_002237		T	49621336	C	T	49621336	3	4	607	1	0	0	0	0	1	0	0	0	8034	478	17	2	763	2	KCNG1	20	49621336	Missense_Mutation	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10	28128522	49621336	13404184	79	36804										
SETD4	54093	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	37408418	37408418	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	aatgcgcttcggtgaaatcaGgtaaaagctgtttgcaaact	10	7	1	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr21:37408418G>C	ENST00000399215.1	-	10	2692	c.1320C>G	c.(1318-1320)acC>acG	p.T440T	SETD4_ENST00000399212.1_Silent_p.T416T|SETD4_ENST00000332131.4_Silent_p.T440T|AP000688.1_ENST00000600312.1_Intron|SETD4_ENST00000481477.1_5'UTR			Q9NVD3	SETD4_HUMAN	SET domain containing 4	440				EILVKYLPSTDKQMDKKISILKDHGYIENLTFGWDGPSWRL LTALKLLCLEAEKFTCWKKVLLGEVISDTNEKTSLDIAQKI CYYFIEETNAVLQKVSHMKDEKEALINQLTLVESLWTEELK ILRASAETLHSLQTAFT -> GWNQLCS (in Ref. 5; AAH02898). {ECO:0000305}.			methyltransferase activity (GO:0008168)			autonomic_ganglia(1)|kidney(2)|large_intestine(4)|lung(6)|ovary(1)|prostate(1)	15						GGTGAAATCAGGTAAAAGCTG	0.433																																																0													147	146	146					21																	37408418		2203	4300	6503	SO:0001819	synonymous_variant	54093			AK001660	CCDS13640.1, CCDS42923.1, CCDS74791.1, CCDS74792.1	21q22.13	2006-02-15	2006-02-15	2006-02-15	ENSG00000185917	ENSG00000185917			1258	protein-coding gene	gene with protein product			"chromosome 21 open reading frame 27", "chromosome 21 open reading frame 18"	C21orf27, C21orf18			Standard	XM_005261000		Approved		uc021wiy.1	Q9NVD3	OTTHUMG00000086483	ENST00000399215.1:c.1320C>G	21.37:g.37408418G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DT14|D3DSG2|D3DSG4|Q8NE19|Q9BU46	Silent	SNP	ENST00000399215.1	37	CCDS13640.1																																																																																				0.433	SETD4-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000194456.1	NM_017438		C	37408418	G	C	37408418	2	2	607	1	0	0	0	0	0	0	0	1	14146	987	35	4		4	SETD4	21	37408418	Silent	SNP	G	TCGA-HE-A5NF-01A-11D-A26P-10		37408418	10721477	80	36805										
MCM3AP	8888	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	47664760	47664760	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	catctgcggaagctggaaccCgagcacagcctgcttcagcc	11	15	2	0			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr21:47664760C>T	ENST00000397708.1	-	24	5253	c.4999G>A	c.(4999-5001)Ggg>Agg	p.G1667R	MCM3AP-AS1_ENST00000421927.1_RNA|MCM3AP-AS1_ENST00000591223.1_RNA|MCM3AP-AS1_ENST00000444998.1_RNA|MCM3AP_ENST00000467026.1_5'UTR|MCM3AP_ENST00000291688.1_Missense_Mutation_p.G1667R|MCM3AP-AS1_ENST00000588753.1_RNA|MCM3AP-AS1_ENST00000590829.1_RNA|MCM3AP-AS1_ENST00000414659.1_RNA|AP001469.7_ENST00000444966.1_RNA|MCM3AP-AS1_ENST00000455567.1_RNA|MCM3AP-AS1_ENST00000432735.1_RNA			O60318	GANP_HUMAN	minichromosome maintenance complex component 3 associated protein	1667	Acetyltransferase.				DNA replication (GO:0006260)|immune system process (GO:0002376)|mRNA transport (GO:0051028)|protein import into nucleus (GO:0006606)	cytosol (GO:0005829)|nuclear pore (GO:0005643)|nucleus (GO:0005634)	DNA binding (GO:0003677)|transferase activity, transferring acyl groups (GO:0016746)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(10)|kidney(5)|large_intestine(17)|lung(24)|ovary(4)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	72	Breast(49;0.112)					AGCTGGAACCCGAGCACAGCC	0.642																																																0													38	38	38					21																	47664760		2203	4300	6503	SO:0001583	missense	8888			AB005543	CCDS13734.1	21q22.3	2012-12-19	2007-04-04		ENSG00000160294	ENSG00000160294			6946	protein-coding gene	gene with protein product	"germinal-centre associated nuclear protein"	603294	"minichromosome maintenance deficient (S. cerevisiae) 3-associated protein", "MCM3 minichromosome maintenance deficient 3 (S. cerevisiae) associated protein"			9712829, 16914116, 21195085	Standard	XM_005261205		Approved	Map80, KIAA0572, GANP, SAC3	uc002zir.1	O60318	OTTHUMG00000090630	ENST00000397708.1:c.4999G>A	21.37:g.47664760C>T	ENSP00000380820:p.Gly1667Arg	Somatic		WXS	Illumina HiSeq	Phase_I	C9JL56|Q2M3C1|Q6PJP6|Q9BSY5|Q9UMT4	Missense_Mutation	SNP	ENST00000397708.1	37	CCDS13734.1	.	.	.	.	.	.	.	.	.	.	C	13.13	2.146050	0.37923	.	.	ENSG00000160294	ENST00000397708;ENST00000291688;ENST00000539647	T;T	0.03468	3.92;3.92	5.55	2.48	0.30137	.	0.335736	0.36409	N	0.002607	T	0.05456	0.0144	L	0.47716	1.5	0.29780	N	0.834087	B;D	0.59767	0.022;0.986	B;P	0.49421	0.005;0.61	T	0.14699	-1.0463	10	0.56958	D	0.05	-13.7278	5.035	0.14430	0.3494:0.4672:0.0:0.1834	.	1667;162	O60318;B3KT88	MCM3A_HUMAN;.	R	1667;1667;162	ENSP00000380820:G1667R;ENSP00000291688:G1667R	ENSP00000291688:G1667R	G	-	1	0	MCM3AP	46489188	0.922000	0.31269	0.682000	0.30024	0.188000	0.23474	1.789000	0.38724	0.711000	0.32018	-0.136000	0.14681	GGG		0.642	MCM3AP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207254.1	NM_003906		T	47664760	C	T	47664760	3	4	607	1	0	0	0	0	1	0	0	0	9395	652	23	1	967	1	MCM3AP	21	47664760	Missense_Mutation	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10	10256342	47664760	465135	81	36806										
PI4KA	5297	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	21119517	21119517	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0731707317073171	6	1	1.26868044515103	1.7972972972973	0.98034398034398	1	1	0	ccctcgtaccattcttctggCcagagtcctgcaataaagtg	8	13	2	1			TCGA-HE-A5NF-01A-11D-A26P-10	TCGA-HE-A5NF-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c14407ad-670e-4d1e-9417-2b76f4810fff	fcfc53c2-52b3-44d1-ae32-76375e3a0836	g.chr22:21119517C>T	ENST00000572273.1	-	21	2501	c.2271G>A	c.(2269-2271)tgG>tgA	p.W757*	PI4KA_ENST00000255882.6_Nonsense_Mutation_p.W815*|PI4KA_ENST00000466162.1_5'UTR			P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase, catalytic, alpha	757					phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi-associated vesicle membrane (GO:0030660)|membrane (GO:0016020)|plasma membrane (GO:0005886)	1-phosphatidylinositol 4-kinase activity (GO:0004430)|ATP binding (GO:0005524)			breast(3)|endometrium(8)|kidney(9)|large_intestine(19)|lung(29)|ovary(1)|pancreas(1)|prostate(3)|salivary_gland(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	79	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)			ATTCTTCTGGCCAGAGTCCTG	0.493																																					GBM(136;1332 1831 3115 23601 50806)											0													93	97	96					22																	21119517		2203	4300	6503	SO:0001587	stop_gained	5297			L36151	CCDS33603.1, CCDS33603.2	22q11.21	2011-05-25	2007-08-14	2007-08-02	ENSG00000241973	ENSG00000241973			8983	protein-coding gene	gene with protein product		600286		PIK4CA		7961848, 8662589	Standard	NM_002650		Approved	PI4K-ALPHA, pi4K230	uc002zsz.5	P42356	OTTHUMG00000167440	ENST00000572273.1:c.2271G>A	22.37:g.21119517C>T	ENSP00000458238:p.Trp757*	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z625|Q9UPG2	Nonsense_Mutation	SNP	ENST00000572273.1	37		.	.	.	.	.	.	.	.	.	.	C	40	8.059858	0.98632	.	.	ENSG00000241973	ENST00000255882	.	.	.	5.32	5.32	0.75619	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-13.5831	19.2017	0.93713	0.0:1.0:0.0:0.0	.	.	.	.	X	757	.	ENSP00000255882:W757X	W	-	3	0	PI4KA	19449517	1.000000	0.71417	1.000000	0.80357	0.579000	0.36224	7.539000	0.82063	2.770000	0.95276	0.650000	0.86243	TGG		0.493	PI4KA-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_058004		T	21119517	C	T	21119517	4	4	607	1	0	0	0	0	0	1	0	0	11880	740	26	2	4003	2	PI4KA	22	21119517	Nonsense_Mutation	SNP	C	TCGA-HE-A5NF-01A-11D-A26P-10		21119517	30185049	82	36807										
ZNF436	80818	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	23693623	23693623	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	agaggtctccattcttcccgGgtgagatacatggccatatc	10	11	2	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr1:23693623G>A	ENST00000314011.4	-	3	208	c.72C>T	c.(70-72)acC>acT	p.T24T	ZNF436_ENST00000374608.3_Silent_p.T24T|C1orf213_ENST00000437367.2_5'Flank|C1orf213_ENST00000454117.1_5'Flank|C1orf213_ENST00000335648.3_5'Flank|C1orf213_ENST00000518821.1_5'Flank	NM_001077195.1	NP_001070663.1	Q9C0F3	ZN436_HUMAN	zinc finger protein 436	24	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(2)|lung(8)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	19		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;5.97e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000977)|KIRC - Kidney renal clear cell carcinoma(1967;0.00336)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		ATTCTTCCCGGGTGAGATACA	0.438																																																0													136	129	132					1																	23693623		2203	4300	6503	SO:0001819	synonymous_variant	80818			AB051497	CCDS233.1	1p36	2013-01-08			ENSG00000125945	ENSG00000125945		"Zinc fingers, C2H2-type", "-"	20814	protein-coding gene	gene with protein product		611703				11214970	Standard	NM_001077195		Approved	KIAA1710, Zfp46	uc001bgt.3	Q9C0F3	OTTHUMG00000003232	ENST00000314011.4:c.72C>T	1.37:g.23693623G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q658I9	Silent	SNP	ENST00000314011.4	37	CCDS233.1																																																																																				0.438	ZNF436-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008908.1	NM_030634		A	23693623	G	A	23693623	2	1	608	1	0	0	0	0	0	0	0	1	17921	1219	43	2		2	ZNF436	1	23693623	Silent	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10		23693623	225556998	1	36808										
KLF17	128209	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	44595405	44595405	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ggtgggaatctaaggatgccCcccaatgggctgccagtctc	13	12	2	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr1:44595405C>G	ENST00000372299.3	+	2	520	c.462C>G	c.(460-462)ccC>ccG	p.P154P	KLF17_ENST00000476802.1_Intron	NM_173484.3	NP_775755.3	Q5JT82	KLF17_HUMAN	Kruppel-like factor 17	154					gamete generation (GO:0007276)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			NS(1)|breast(2)|central_nervous_system(1)|large_intestine(1)|lung(6)|ovary(3)|prostate(1)|skin(2)|stomach(1)	18	Acute lymphoblastic leukemia(166;0.155)					TAAGGATGCCCCCCAATGGGC	0.562																																																0													33	37	35					1																	44595405		2203	4300	6503	SO:0001819	synonymous_variant	128209			BC049844	CCDS508.1	1p34.1	2011-11-15	2006-02-17	2006-02-17	ENSG00000171872	ENSG00000171872		"Zinc fingers, C2H2-type", "Kruppel-like transcription factors"	18830	protein-coding gene	gene with protein product		609602	"zinc finger protein 393"	ZNF393		16460907	Standard	NM_173484		Approved	Zfp393, FLJ40160	uc001clp.3	Q5JT82	OTTHUMG00000009664	ENST00000372299.3:c.462C>G	1.37:g.44595405C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q86VQ7|Q8N805	Silent	SNP	ENST00000372299.3	37	CCDS508.1																																																																																				0.562	KLF17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026646.1	NM_173484		G	44595405	C	G	44595405	2	3	608	1	0	0	0	0	0	0	0	1	8352	610	22	4		4	KLF17	1	44595405	Silent	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	20901782	44595405	204655216	2	36809										
LRRC8C	84230	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	90179946	90179946	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	tgacctggagcgtattcctcAtgctgtgttcagcctactca	9	12	3	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr1:90179946A>C	ENST00000370454.4	+	3	2072	c.1817A>C	c.(1816-1818)cAt>cCt	p.H606P	LRRC8C_ENST00000479252.1_Intron|RP11-302M6.4_ENST00000370453.5_Intron	NM_032270.4	NP_115646	Q8TDW0	LRC8C_HUMAN	leucine rich repeat containing 8 family, member C	606					fat cell differentiation (GO:0045444)|ion transport (GO:0006811)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)				breast(1)|central_nervous_system(1)|large_intestine(5)|lung(10)|ovary(3)|pancreas(1)|prostate(1)|skin(5)|urinary_tract(1)	28		all_lung(203;0.126)		all cancers(265;0.00756)|Epithelial(280;0.0313)		CGTATTCCTCATGCTGTGTTC	0.448																																																0													57	55	56					1																	90179946		2203	4300	6503	SO:0001583	missense	84230				CCDS725.1	1p22.2	2011-02-10			ENSG00000171488	ENSG00000171488			25075	protein-coding gene	gene with protein product	"hypothetical protein AD158"	612889				11230166	Standard	NM_032270		Approved	AD158	uc001dnl.4	Q8TDW0	OTTHUMG00000010305	ENST00000370454.4:c.1817A>C	1.37:g.90179946A>C	ENSP00000359483:p.His606Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXS9|Q29RV6|Q9H075	Missense_Mutation	SNP	ENST00000370454.4	37	CCDS725.1	.	.	.	.	.	.	.	.	.	.	A	15.17	2.754041	0.49362	.	.	ENSG00000171488	ENST00000370454	T	0.54866	0.55	5.82	5.82	0.92795	.	0.000000	0.85682	D	0.000000	T	0.31199	0.0789	N	0.00656	-1.285	0.80722	D	1	D	0.67145	0.996	D	0.72625	0.978	T	0.63730	-0.6571	10	0.39692	T	0.17	.	16.5441	0.84409	1.0:0.0:0.0:0.0	.	606	Q8TDW0	LRC8C_HUMAN	P	606	ENSP00000359483:H606P	ENSP00000359483:H606P	H	+	2	0	LRRC8C	89952534	1.000000	0.71417	0.397000	0.26308	0.684000	0.39900	9.284000	0.95882	2.364000	0.80123	0.524000	0.50904	CAT		0.448	LRRC8C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000028435.2	NM_032270		C	90179946	A	C	90179946	3	2	608	1	0	0	0	0	1	0	0	0	9030	217	8	5	1823	5	LRRC8C	1	90179946	Missense_Mutation	SNP	A	TCGA-HE-A5NH-01A-11D-A26P-10	45584541	90179946	159070675	3	36810										
EVI5	7813	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	93073196	93073196	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ttaattgagtaaggagtcctTtgttctgtgcagaaagatac	10	5	1	3			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr1:93073196T>A	ENST00000370331.1	-	15	1877	c.1868A>T	c.(1867-1869)aAa>aTa	p.K623I	EVI5_ENST00000543509.1_Missense_Mutation_p.K634I|EVI5_ENST00000540033.1_Missense_Mutation_p.K623I|EVI5_ENST00000491940.1_5'UTR	NM_005665.4	NP_005656.4	O60447	EVI5_HUMAN	ecotropic viral integration site 5	623	Dimerization.|Interaction with AURKB and INCENP.|Targeting to the centrosomes.				cell cycle (GO:0007049)|cell division (GO:0051301)|cell proliferation (GO:0008283)|multicellular organismal development (GO:0007275)|positive regulation of GTP catabolic process (GO:0033126)|positive regulation of Rab GTPase activity (GO:0032851)|retrograde transport, endosome to Golgi (GO:0042147)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	Rab GTPase activator activity (GO:0005097)|Rab GTPase binding (GO:0017137)			breast(1)|endometrium(6)|kidney(2)|large_intestine(8)|lung(18)|ovary(1)|prostate(1)|skin(1)	38		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)		AAGGAGTCCTTTGTTCTGTGC	0.358																																																0													166	149	154					1																	93073196		2202	4299	6501	SO:0001583	missense	7813			AF008915	CCDS30774.1	1p22	2013-07-09			ENSG00000067208	ENSG00000067208			3501	protein-coding gene	gene with protein product	"neuroblastoma stage 4S gene"	602942				9618176	Standard	XM_005271180		Approved	NB4S	uc001dox.3	O60447	OTTHUMG00000010895	ENST00000370331.1:c.1868A>T	1.37:g.93073196T>A	ENSP00000359356:p.Lys623Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKX8|B9A6J0|Q9H1Y9	Missense_Mutation	SNP	ENST00000370331.1	37	CCDS30774.1	.	.	.	.	.	.	.	.	.	.	T	25.6	4.656843	0.88154	.	.	ENSG00000067208	ENST00000370331;ENST00000540033;ENST00000543509	T;T;T	0.37584	1.19;1.19;1.19	5.59	4.26	0.50523	.	0.052940	0.85682	D	0.000000	T	0.44286	0.1286	M	0.79123	2.44	0.51767	D	0.999936	P;P	0.49696	0.927;0.88	P;P	0.55455	0.776;0.602	T	0.51124	-0.8745	10	0.87932	D	0	-27.0804	12.0805	0.53667	0.0:0.0783:0.0:0.9217	.	634;623	F5H4R0;O60447	.;EVI5_HUMAN	I	623;623;634	ENSP00000359356:K623I;ENSP00000440826:K623I;ENSP00000445019:K634I	ENSP00000359356:K623I	K	-	2	0	EVI5	92845784	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	5.949000	0.70257	2.132000	0.65825	0.533000	0.62120	AAA		0.358	EVI5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030047.1	NM_005665		A	93073196	T	A	93073196	3	1	608	1	0	0	0	0	1	0	0	0	5291	1841	64	5	580	5	EVI5	1	93073196	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	2893250	93073196	156177425	4	36811										
GPSM2	29899	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	109439646	109439646	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gccagttgggcaatgcttatTtctatttgcatgattatgcc	9	8	1	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr1:109439646T>G	ENST00000406462.2	+	4	990	c.217T>G	c.(217-219)Ttc>Gtc	p.F73V	GPSM2_ENST00000264126.3_Missense_Mutation_p.F73V|AKNAD1_ENST00000357393.4_Intron			P81274	GPSM2_HUMAN	G-protein signaling modulator 2	73					establishment of mitotic spindle orientation (GO:0000132)|G-protein coupled receptor signaling pathway (GO:0007186)|lung epithelial cell differentiation (GO:0060487)	apical part of cell (GO:0045177)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	GTPase regulator activity (GO:0030695)|identical protein binding (GO:0042802)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(4)|liver(2)|lung(3)	14		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0353)|Lung(183;0.0984)|COAD - Colon adenocarcinoma(174;0.129)|Epithelial(280;0.175)|all cancers(265;0.209)		CAATGCTTATTTCTATTTGCA	0.378																																																0													122	126	125					1																	109439646		2203	4300	6503	SO:0001583	missense	29899			AY136740	CCDS792.2	1p13.3	2013-10-11	2010-06-24		ENSG00000121957	ENSG00000121957		"Tetratricopeptide (TTC) repeat domain containing"	29501	protein-coding gene	gene with protein product		609245	"G-protein signalling modulator 2 (AGS3-like, C. elegans)", "deafness, autosomal recessive 82"	DFNB82		11832491, 8973305, 19888295, 20602914, 21348867	Standard	NM_013296		Approved	LGN, Pins	uc010ovc.2	P81274	OTTHUMG00000011730	ENST00000406462.2:c.217T>G	1.37:g.109439646T>G	ENSP00000385510:p.Phe73Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T1N8|Q6IBL7|Q8N0Z5	Missense_Mutation	SNP	ENST00000406462.2	37	CCDS792.2	.	.	.	.	.	.	.	.	.	.	T	31	5.083858	0.94050	.	.	ENSG00000121957	ENST00000406462;ENST00000435987;ENST00000264126;ENST00000435475	T;T;T	0.65916	-0.18;-0.18;-0.18	5.61	5.61	0.85477	Tetratricopeptide-like helical (1);Tetratricopeptide repeat-containing (1);	0.000000	0.85682	D	0.000000	T	0.69342	0.3100	L	0.58810	1.83	0.80722	D	1	P	0.50617	0.937	D	0.64877	0.93	T	0.72603	-0.4243	10	0.59425	D	0.04	-7.2819	15.7996	0.78443	0.0:0.0:0.0:1.0	.	73	P81274	GPSM2_HUMAN	V	73	ENSP00000385510:F73V;ENSP00000408664:F73V;ENSP00000264126:F73V	ENSP00000264126:F73V	F	+	1	0	GPSM2	109241169	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	8.040000	0.89188	2.133000	0.65898	0.533000	0.62120	TTC		0.378	GPSM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032400.3	NM_013296		G	109439646	T	G	109439646	3	3	608	1	0	0	0	0	1	0	0	0	6742	1841	64	5	223	5	GPSM2	1	109439646	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	16366450	109439646	139810975	5	36812										
EDEM3	80267	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	184723718	184723718	+	Frame_Shift_Del	DEL	T	T	-													0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	aacgcggccgtcgccgccacTagtctccatcgcgctcgctg							TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr1:184723718delT	ENST00000318130.8	-	1	329	c.63delA	c.(61-63)ctafs	p.L21fs	EDEM3_ENST00000367512.3_5'Flank	NM_025191.3	NP_079467.3	Q9BZQ6	EDEM3_HUMAN	ER degradation enhancer, mannosidase alpha-like 3	21					cellular protein metabolic process (GO:0044267)|glycoprotein catabolic process (GO:0006516)|post-translational protein modification (GO:0043687)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein folding (GO:0006457)|protein N-linked glycosylation via asparagine (GO:0018279)|response to unfolded protein (GO:0006986)	endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum membrane (GO:0005789)	calcium ion binding (GO:0005509)|glycoprotein endo-alpha-1,2-mannosidase activity (GO:0004569)|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity (GO:0004571)			breast(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(14)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	30						TCGCCGCCACTAGTCTCCATC	0.716																																																0													5	10	9					1																	184723718		667	1557	2224	SO:0001589	frameshift_variant	80267			AF288393	CCDS1363.2	1q25	2008-02-05	2006-03-31	2006-03-31	ENSG00000116406	ENSG00000116406			16787	protein-coding gene	gene with protein product		610214	"chromosome 1 open reading frame 22"	C1orf22		15537790, 15579471	Standard	NM_025191		Approved		uc010pok.2	Q9BZQ6	OTTHUMG00000035387	ENST00000318130.8:c.63delA	1.37:g.184723718delT	ENSP00000318147:p.Leu21fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCH6|B7ZLZ2|Q0VGM5|Q5TEZ0|Q9HCW1|Q9UFV7	Frame_Shift_Del	DEL	ENST00000318130.8	37	CCDS1363.2																																																																																				0.716	EDEM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085785.3	NM_025191		-	184723718	T	-	184723718	7	5	608	1	0	1	0	1	0	0	0	0	4915	1509	53	0	2815	0	EDEM3	1	184723718	Frame_Shift_Del	DEL	T	TCGA-HE-A5NH-01A-11D-A26P-10	75284072	184723718	64526903	6	36813										
HMCN1	83872	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	186082053	186082053	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	tgccagcaacattgcaggaaAgactacaagagaatttattc	8	8	0	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr1:186082053A>G	ENST00000271588.4	+	72	11328	c.11099A>G	c.(11098-11100)aAg>aGg	p.K3700R	HMCN1_ENST00000367492.2_Missense_Mutation_p.K3700R	NM_031935.2	NP_114141.2	Q96RW7	HMCN1_HUMAN	hemicentin 1	3700	Ig-like C2-type 35.				response to stimulus (GO:0050896)|visual perception (GO:0007601)	basement membrane (GO:0005604)|cell cortex (GO:0005938)|cell junction (GO:0030054)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)			NS(2)|autonomic_ganglia(1)|breast(10)|central_nervous_system(2)|cervix(1)|endometrium(28)|haematopoietic_and_lymphoid_tissue(4)|kidney(13)|large_intestine(58)|liver(3)|lung(101)|ovary(23)|pancreas(4)|prostate(20)|skin(8)|stomach(1)|upper_aerodigestive_tract(11)|urinary_tract(18)	308						ATTGCAGGAAAGACTACAAGA	0.393																																																0													106	101	103					1																	186082053		2203	4300	6503	SO:0001583	missense	83872			AF156100	CCDS30956.1	1q25.3-q31.1	2013-01-11			ENSG00000143341	ENSG00000143341		"Fibulins", "Immunoglobulin superfamily / I-set domain containing"	19194	protein-coding gene	gene with protein product	"fibulin 6"	608548	"age-related macular degeneration 1 (senile macular degeneration)"	ARMD1		11222143	Standard	NM_031935		Approved	FBLN6, FIBL6, FIBL-6	uc001grq.1	Q96RW7	OTTHUMG00000059337	ENST00000271588.4:c.11099A>G	1.37:g.186082053A>G	ENSP00000271588:p.Lys3700Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGE3|Q5TYR7|Q96DN3|Q96DN8|Q96SC3	Missense_Mutation	SNP	ENST00000271588.4	37	CCDS30956.1	.	.	.	.	.	.	.	.	.	.	A	14.68	2.607517	0.46527	.	.	ENSG00000143341	ENST00000271588;ENST00000367492	T;T	0.69561	-0.41;-0.41	4.91	3.77	0.43336	Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.134451	0.64402	D	0.000003	T	0.62527	0.2435	N	0.12637	0.245	0.45747	D	0.99864	D	0.69078	0.997	D	0.80764	0.994	T	0.58278	-0.7664	10	0.21014	T	0.42	.	10.2014	0.43087	0.921:0.0:0.079:0.0	.	3700	Q96RW7	HMCN1_HUMAN	R	3700	ENSP00000271588:K3700R;ENSP00000356462:K3700R	ENSP00000271588:K3700R	K	+	2	0	HMCN1	184348676	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	4.263000	0.58853	1.957000	0.56846	0.533000	0.62120	AAG		0.393	HMCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131848.1	NM_031935		G	186082053	A	G	186082053	3	3	608	1	0	0	0	0	1	0	0	0	7227	72	3	3	11385	3	HMCN1	1	186082053	Missense_Mutation	SNP	A	TCGA-HE-A5NH-01A-11D-A26P-10	1358335	186082053	63168568	7	36814										
NBAS	51594	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	15519770	15519770	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gtgaggttggtagaagaattGaagtactctctgctggcagc	14	6	1	4			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr2:15519770G>T	ENST00000281513.5	-	30	3571	c.3546C>A	c.(3544-3546)ttC>ttA	p.F1182L	NBAS_ENST00000441750.1_Missense_Mutation_p.F1062L	NM_015909.3	NP_056993.2	A2RRP1	NBAS_HUMAN	neuroblastoma amplified sequence	1182					negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:2000623)|nuclear-transcribed mRNA catabolic process (GO:0000956)	cytoplasm (GO:0005737)|membrane (GO:0016020)				NS(4)|breast(4)|central_nervous_system(3)|endometrium(6)|kidney(5)|large_intestine(12)|liver(1)|lung(54)|ovary(2)|pancreas(3)|prostate(9)|skin(6)|stomach(3)	112						TAGAAGAATTGAAGTACTCTC	0.443																																																0													115	113	114					2																	15519770		2203	4300	6503	SO:0001583	missense	51594			BC051792	CCDS1685.1	2p24.3	2009-02-23			ENSG00000151779	ENSG00000151779			15625	protein-coding gene	gene with protein product		608025				9926938, 12706883	Standard	NM_015909		Approved	NAG	uc002rcc.2	A2RRP1	OTTHUMG00000121153	ENST00000281513.5:c.3546C>A	2.37:g.15519770G>T	ENSP00000281513:p.Phe1182Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O95790|Q2VPJ7|Q53TK6|Q86V39|Q8NFY8|Q9Y3W5	Missense_Mutation	SNP	ENST00000281513.5	37	CCDS1685.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	27.8|27.8	4.863074|4.863074	0.91511|0.91511	.|.	.|.	ENSG00000151779|ENSG00000151779	ENST00000441750;ENST00000281513;ENST00000441755|ENST00000442506	T;T;T|.	0.32272|.	1.46;1.46;1.46|.	5.79|5.79	4.92|4.92	0.64577|0.64577	Secretory pathway Sec39 (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|.	0.75258|.	0.3825|.	M|M	0.78637|0.78637	2.42|2.42	0.58432|0.58432	D|D	0.999999|0.999999	D;D|.	0.89917|.	0.992;1.0|.	D;D|.	0.91635|.	0.965;0.999|.	T|.	0.76699|.	-0.2863|.	10|.	0.87932|.	D|.	0|.	.|.	14.7925|14.7925	0.69854|0.69854	0.0691:0.0:0.9309:0.0|0.0691:0.0:0.9309:0.0	.|.	1062;1182|.	A2RRP1-2;A2RRP1|.	.;NBAS_HUMAN|.	L|X	1062;1182;229|230	ENSP00000413201:F1062L;ENSP00000281513:F1182L;ENSP00000396501:F229L|.	ENSP00000281513:F1182L|.	F|S	-|-	3|2	2|0	NBAS|NBAS	15437221|15437221	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.992000|0.992000	0.81027|0.81027	4.815000|4.815000	0.62634|0.62634	1.461000|1.461000	0.47929|0.47929	0.563000|0.563000	0.77884|0.77884	TTC|TCA		0.443	NBAS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241638.1	NM_015909		T	15519770	G	T	15519770	3	4	608	1	0	0	0	0	1	0	0	0	10193	1281	45	4	3661	4	NBAS	2	15519770	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10		15519770	227679603	8	36815										
RIF1	55183	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	152320162	152320162	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	actaatactgtagaggagaaAaatgtagaaattaatttgga	9	2	0	3			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr2:152320162A>T	ENST00000243326.5	+	29	4611	c.4128A>T	c.(4126-4128)aaA>aaT	p.K1376N	RIF1_ENST00000428287.2_Missense_Mutation_p.K1376N|RIF1_ENST00000453091.2_Missense_Mutation_p.K1376N|RIF1_ENST00000430328.2_Missense_Mutation_p.K1376N|RIF1_ENST00000444746.2_Missense_Mutation_p.K1376N			Q9Y581	INSL6_HUMAN	replication timing regulatory factor 1	0					fertilization (GO:0009566)|male gonad development (GO:0008584)|negative regulation of apoptotic process (GO:0043066)|sperm motility (GO:0030317)|spermatid development (GO:0007286)	extracellular region (GO:0005576)	hormone activity (GO:0005179)			NS(2)|breast(8)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(19)|liver(1)|lung(34)|ovary(6)|pancreas(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	97				BRCA - Breast invasive adenocarcinoma(221;0.0429)		TAGAGGAGAAAAATGTAGAAA	0.348																																																0													72	78	76					2																	152320162		2203	4300	6503	SO:0001583	missense	55183			AK022932	CCDS2194.1, CCDS54406.1	2q23.3	2014-06-02	2014-06-02		ENSG00000080345	ENSG00000080345			23207	protein-coding gene	gene with protein product		608952	"RAP1 interacting factor homolog (yeast)"			15342490, 15042697, 22850674	Standard	NM_018151		Approved	FLJ12870, FLJ10599	uc002txm.3	Q5UIP0	OTTHUMG00000131886	ENST00000243326.5:c.4128A>T	2.37:g.152320162A>T	ENSP00000243326:p.Lys1376Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVS0|Q9NS16	Missense_Mutation	SNP	ENST00000243326.5	37	CCDS2194.1	.	.	.	.	.	.	.	.	.	.	A	0.921	-0.715998	0.03206	.	.	ENSG00000080345	ENST00000444746;ENST00000453091;ENST00000428287;ENST00000243326;ENST00000430328	T;T;T;T;T	0.29142	1.58;1.58;1.58;1.58;1.58	5.45	1.54	0.23209	.	0.844182	0.10956	N	0.615469	T	0.20210	0.0486	L	0.41710	1.295	0.09310	N	1	B;B	0.28512	0.078;0.214	B;B	0.21546	0.015;0.035	T	0.21895	-1.0232	10	0.39692	T	0.17	-9.694	3.1462	0.06472	0.5289:0.0:0.2045:0.2666	.	1376;1376	Q5UIP0;Q5UIP0-2	RIF1_HUMAN;.	N	1376	ENSP00000390181:K1376N;ENSP00000414615:K1376N;ENSP00000415691:K1376N;ENSP00000243326:K1376N;ENSP00000416123:K1376N	ENSP00000243326:K1376N	K	+	3	2	RIF1	152028408	0.003000	0.15002	0.001000	0.08648	0.192000	0.23643	0.898000	0.28404	0.384000	0.24942	0.455000	0.32223	AAA		0.348	RIF1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254836.3			T	152320162	A	T	152320162	3	4	608	1	0	0	0	0	1	0	0	0	13372	11	1	5	4242	5	RIF1	2	152320162	Missense_Mutation	SNP	A	TCGA-HE-A5NH-01A-11D-A26P-10	136800392	152320162	90879211	9	36816										
PLA2R1	22925	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	160825863	160825863	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gtatatcactggtgttccatCtctccagctgtgggaagatt	10	9	2	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr2:160825863C>G	ENST00000283243.7	-	19	2874	c.2668G>C	c.(2668-2670)Gat>Cat	p.D890H	PLA2R1_ENST00000392771.1_Missense_Mutation_p.D890H	NM_001195641.1|NM_007366.4	NP_001182570.1|NP_031392.3	Q13018	PLA2R_HUMAN	phospholipase A2 receptor 1, 180kDa	890	C-type lectin 5. {ECO:0000255|PROSITE- ProRule:PRU00040}.				cytokine production (GO:0001816)|negative regulation of arachidonic acid secretion (GO:1900139)|negative regulation of phospholipase A2 activity (GO:1900138)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of arachidonic acid secretion (GO:0090238)|positive regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043517)|reactive oxygen species metabolic process (GO:0072593)|receptor-mediated endocytosis (GO:0006898)|replicative senescence (GO:0090399)	cell surface (GO:0009986)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	carbohydrate binding (GO:0030246)|phospholipase binding (GO:0043274)|receptor activity (GO:0004872)		PLA2R1/RBMS1(2)	central_nervous_system(1)|endometrium(8)|kidney(2)|large_intestine(17)|lung(20)|ovary(1)|pancreas(1)|prostate(1)|skin(7)|stomach(1)|upper_aerodigestive_tract(1)	60						GGTGTTCCATCTCTCCAGCTG	0.408																																																0													116	110	112					2																	160825863		2203	4300	6503	SO:0001583	missense	22925			U17033	CCDS33309.1, CCDS42767.1	2q23-q24	2011-08-30	2002-08-29		ENSG00000153246	ENSG00000153246		"C-type lectin domain containing"	9042	protein-coding gene	gene with protein product		604939	"phospholipase A2 receptor 1, 180kD"			7721806, 7925459	Standard	NM_007366		Approved	PLA2G1R, PLA2IR, PLA2-R, CLEC13C	uc002ube.2	Q13018	OTTHUMG00000154087	ENST00000283243.7:c.2668G>C	2.37:g.160825863C>G	ENSP00000283243:p.Asp890His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTU9|D3DPB1|Q13019|Q15095|Q53R45|Q53RR7	Missense_Mutation	SNP	ENST00000283243.7	37	CCDS33309.1	.	.	.	.	.	.	.	.	.	.	C	19.65	3.867614	0.72065	.	.	ENSG00000153246	ENST00000283243;ENST00000392771	T;T	0.15834	2.39;2.39	5.8	4.92	0.64577	C-type lectin fold (1);C-type lectin-like (1);C-type lectin (3);	0.107665	0.64402	D	0.000009	T	0.51143	0.1657	H	0.95365	3.66	0.47994	D	0.999564	B;D;D	0.89917	0.372;1.0;0.999	B;D;D	0.71414	0.309;0.973;0.966	T	0.62604	-0.6819	10	0.51188	T	0.08	.	11.2567	0.49058	0.0:0.9128:0.0:0.0872	.	890;890;890	B7ZML4;Q13018-2;Q13018	.;.;PLA2R_HUMAN	H	890	ENSP00000283243:D890H;ENSP00000376524:D890H	ENSP00000283243:D890H	D	-	1	0	PLA2R1	160534109	0.976000	0.34144	0.999000	0.59377	0.993000	0.82548	1.512000	0.35812	1.426000	0.47256	0.650000	0.86243	GAT		0.408	PLA2R1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333820.1			G	160825863	C	G	160825863	3	3	608	1	0	0	0	0	1	0	0	0	12017	913	32	4	1779	4	PLA2R1	2	160825863	Missense_Mutation	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	8505701	160825863	82373510	10	36817										
TTLL4	9654	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	219611762	219611762	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gctcattccagattgggaggAaggaccggctatggcggaac	15	9	1	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr2:219611762A>C	ENST00000392102.1	+	9	2351	c.2011A>C	c.(2011-2013)Aag>Cag	p.K671Q	TTLL4_ENST00000442769.1_Intron|TTLL4_ENST00000258398.4_Missense_Mutation_p.K671Q|TTLL4_ENST00000457313.1_Missense_Mutation_p.K506Q	NM_014640.4	NP_055455.3	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	671	TTL. {ECO:0000255|PROSITE- ProRule:PRU00568}.				protein polyglutamylation (GO:0018095)	cilium (GO:0005929)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)	ligase activity (GO:0016874)|tubulin binding (GO:0015631)			endometrium(3)|kidney(1)|large_intestine(6)|lung(21)|ovary(3)|skin(3)|upper_aerodigestive_tract(2)	39		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)		GATTGGGAGGAAGGACCGGCT	0.537																																					GBM(172;1818 2053 15407 20943 49753)											0													135	125	128					2																	219611762		2203	4300	6503	SO:0001583	missense	9654				CCDS2422.1	2p24.3-p24.1	2013-02-14			ENSG00000135912	ENSG00000135912		"Tubulin tyrosine ligase-like family"	28976	protein-coding gene	gene with protein product						11054573	Standard	NM_014640		Approved	KIAA0173	uc002viy.3	Q14679	OTTHUMG00000133081	ENST00000392102.1:c.2011A>C	2.37:g.219611762A>C	ENSP00000375951:p.Lys671Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6V5|Q8WW29	Missense_Mutation	SNP	ENST00000392102.1	37	CCDS2422.1	.	.	.	.	.	.	.	.	.	.	A	29.1	4.973585	0.92919	.	.	ENSG00000135912	ENST00000457313;ENST00000392102;ENST00000258398	T;T;T	0.09255	3.0;3.0;3.0	5.81	5.81	0.92471	.	0.000000	0.85682	D	0.000000	T	0.50548	0.1622	H	0.97918	4.105	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.69982	-0.4997	10	0.87932	D	0	.	15.3584	0.74448	1.0:0.0:0.0:0.0	.	506;671	E9PH58;Q14679	.;TTLL4_HUMAN	Q	506;671;671	ENSP00000393332:K506Q;ENSP00000375951:K671Q;ENSP00000258398:K671Q	ENSP00000258398:K671Q	K	+	1	0	TTLL4	219320006	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	8.904000	0.92590	2.217000	0.71921	0.482000	0.46254	AAG		0.537	TTLL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256726.1	NM_014640		C	219611762	A	C	219611762	3	2	608	1	0	0	0	0	1	0	0	0	16741	247	9	5	2037	5	TTLL4	2	219611762	Missense_Mutation	SNP	A	TCGA-HE-A5NH-01A-11D-A26P-10	58785899	219611762	23587611	11	36818										
CCDC108	255101	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	219878079	219878079	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ctccggcttcactgtcacacCtatgaaatttagctggaaat	7	11	2	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr2:219878079C>T	ENST00000341552.5	-	24	3942	c.3859G>A	c.(3859-3861)Ggt>Agt	p.G1287S	CCDC108_ENST00000441968.1_Missense_Mutation_p.G1287S|AC097468.4_ENST00000441450.1_RNA|CCDC108_ENST00000453220.1_Missense_Mutation_p.G1287S	NM_194302.2	NP_919278.2	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108	1287						integral component of membrane (GO:0016021)	poly(A) RNA binding (GO:0044822)|structural molecule activity (GO:0005198)			autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(18)|liver(1)|lung(34)|ovary(2)|pancreas(1)|prostate(6)|skin(5)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	80		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)		ACTGTCACACCTATGAAATTT	0.542																																																0													96	86	89					2																	219878079		2202	4299	6501	SO:0001583	missense	255101			NM_194302, AL833882, AK127189	CCDS2430.2, CCDS2431.2, CCDS63125.1, CCDS63126.1	2q35	2008-02-05			ENSG00000181378	ENSG00000181378			25325	protein-coding gene	gene with protein product		614270				12477932	Standard	NM_194302		Approved	DKFZp434O0527, MGC35338	uc002vjl.2	Q6ZU64	OTTHUMG00000133013	ENST00000341552.5:c.3859G>A	2.37:g.219878079C>T	ENSP00000340776:p.Gly1287Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A2BDD8|E9PCR1|E9PG25|E9PG72|Q6ZSR8|Q8N0T4|Q8NDJ3	Missense_Mutation	SNP	ENST00000341552.5	37	CCDS2430.2	.	.	.	.	.	.	.	.	.	.	C	31	5.066292	0.93898	.	.	ENSG00000181378	ENST00000341552;ENST00000441968;ENST00000453220	T;T;T	0.13307	2.6;2.6;2.6	5.11	5.11	0.69529	.	0.000000	0.42420	D	0.000714	T	0.40222	0.1108	M	0.75264	2.295	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.31081	-0.9956	10	0.72032	D	0.01	-14.6861	18.1538	0.89686	0.0:1.0:0.0:0.0	.	1287	Q6ZU64	CC108_HUMAN	S	1287	ENSP00000340776:G1287S;ENSP00000413377:G1287S;ENSP00000409117:G1287S	ENSP00000340776:G1287S	G	-	1	0	CCDC108	219586323	1.000000	0.71417	0.998000	0.56505	0.916000	0.54674	6.610000	0.74178	2.372000	0.80975	0.650000	0.86243	GGT		0.542	CCDC108-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256598.4	NM_194302		T	219878079	C	T	219878079	3	4	608	1	0	0	0	0	1	0	0	0	2745	681	24	2	1966	2	CCDC108	2	219878079	Missense_Mutation	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	266317	219878079	23321294	12	36819										
SPEG	10290	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	220349151	220349151	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ccaggcagcagtctcagtagCagcatcgaaaacttggagtc	11	11	1	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr2:220349151C>T	ENST00000312358.7	+	30	7098	c.6966C>T	c.(6964-6966)agC>agT	p.S2322S	AC053503.11_ENST00000429882.1_RNA|SPEG_ENST00000485813.1_3'UTR	NM_005876.4	NP_005867.3	Q15772	SPEG_HUMAN	SPEG complex locus	2322					cardiac muscle cell development (GO:0055013)|in utero embryonic development (GO:0001701)|muscle organ development (GO:0007517)|negative regulation of cell proliferation (GO:0008285)|respiratory system development (GO:0060541)	nucleus (GO:0005634)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|central_nervous_system(3)|endometrium(10)|kidney(2)|large_intestine(9)|lung(42)|ovary(5)|pancreas(1)|prostate(8)|skin(1)|stomach(9)|upper_aerodigestive_tract(4)|urinary_tract(4)	100		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GTCTCAGTAGCAGCATCGAAA	0.692																																																0													15	19	18					2																	220349151		1916	4034	5950	SO:0001819	synonymous_variant	10290			BC006346	CCDS42824.1, CCDS54432.1	2q35	2013-01-11	2006-04-27	2006-04-27	ENSG00000072195	ENSG00000072195		"Immunoglobulin superfamily / I-set domain containing"	16901	protein-coding gene	gene with protein product		615950	"aortic preferentially expressed gene 1"	APEG1		8663449, 10973969	Standard	NM_005876		Approved	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG	uc010fwg.3	Q15772	OTTHUMG00000058925	ENST00000312358.7:c.6966C>T	2.37:g.220349151C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0G6|A8MRU0|Q27J74|Q695L1|Q6FGA6|Q6ZQW1|Q6ZTL8|Q9P2P9	Silent	SNP	ENST00000312358.7	37	CCDS42824.1																																																																																				0.692	SPEG-004	NOVEL	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130252.2	NM_005876		T	220349151	C	T	220349151	2	4	608	1	0	0	0	0	0	0	0	1	15048	709	25	2		2	SPEG	2	220349151	Silent	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	471072	220349151	22850222	13	36820										
STK11IP	114790	hgsc.bcm.edu	37	chr2	220470428	220470428	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gctctgggggtcctgatactGcgaggcaatgagcttcggag	16	9	1	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr2:220470428G>T	ENST00000456909.1	+	8	807	c.717G>T	c.(715-717)ctG>ctT	p.L239L	STK11IP_ENST00000459692.1_3'UTR|STK11IP_ENST00000295641.10_Silent_p.L250L			Q8N1F8	S11IP_HUMAN	serine/threonine kinase 11 interacting protein	250					protein localization (GO:0008104)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal membrane (GO:0005765)	protein kinase binding (GO:0019901)			breast(2)|endometrium(5)|kidney(1)|large_intestine(2)|lung(10)|ovary(1)|prostate(1)|urinary_tract(1)	23		Renal(207;0.0183)		Epithelial(149;2.69e-07)|all cancers(144;5.91e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCCTGATACTGCGAGGCAATG	0.602																																																0													32	32	32					2																	220470428		1964	4137	6101	SO:0001819	synonymous_variant	114790			AF450267	CCDS46521.1	2q35	2008-06-03			ENSG00000144589	ENSG00000144589			19184	protein-coding gene	gene with protein product	"LKB1 interacting protein"	607172				11741830	Standard	NM_052902		Approved	LIP1, KIAA1898, LKB1IP, STK11IP1	uc002vml.3	Q8N1F8	OTTHUMG00000059239	ENST00000456909.1:c.717G>T	2.37:g.220470428G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NAW9|Q8WXE4|Q96CN3|Q96PY9	Silent	SNP	ENST00000456909.1	37																																																																																					0.602	STK11IP-001	NOVEL	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000131432.1	NM_052902		T	220470428	G	T	220470428	2	4	608	1	0	0	0	0	0	0	0	1	15300	1306	46	4		4	STK11IP	2	220470428	Silent	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10	121277	220470428	22728945	14	36821										
IL5RA	3568	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	3139630	3139630	+	Frame_Shift_Del	DEL	A	A	-													0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gagccgttaacaagcaccgcAagccagtcacgccctttgct							TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr3:3139630delA	ENST00000446632.2	-	7	1207	c.633delT	c.(631-633)cttfs	p.L211fs	IL5RA_ENST00000383846.1_Frame_Shift_Del_p.L211fs|IL5RA_ENST00000445864.2_Intron|IL5RA_ENST00000438560.1_Frame_Shift_Del_p.L211fs|IL5RA_ENST00000456302.1_Frame_Shift_Del_p.L211fs|IL5RA_ENST00000256452.3_Frame_Shift_Del_p.L211fs|IL5RA_ENST00000430514.2_Frame_Shift_Del_p.L211fs|IL5RA_ENST00000418488.2_Frame_Shift_Del_p.L211fs|IL5RA_ENST00000311981.8_Frame_Shift_Del_p.L211fs	NM_175726.3	NP_783853.1	Q01344	IL5RA_HUMAN	interleukin 5 receptor, alpha	211					cell proliferation (GO:0008283)|inflammatory response to antigenic stimulus (GO:0002437)|interleukin-5-mediated signaling pathway (GO:0038043)|regulation of interleukin-5 production (GO:0032674)|signal transduction (GO:0007165)	extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	interleukin-5 receptor activity (GO:0004914)			cervix(1)|endometrium(2)|large_intestine(7)|lung(9)|ovary(1)|prostate(2)|skin(2)	24				Epithelial(13;0.00278)|all cancers(10;0.00809)|OV - Ovarian serous cystadenocarcinoma(96;0.00944)		CAAGCACCGCAAGCCAGTCAC	0.507																																					GBM(169;430 2801 24955 28528)											0													112	97	102					3																	3139630		2203	4300	6503	SO:0001589	frameshift_variant	3568			M96652	CCDS2559.1, CCDS2560.1, CCDS46739.1, CCDS58813.1	3p26-p24	2008-01-11			ENSG00000091181	ENSG00000091181		"Interleukins and interleukin receptors", "CD molecules"	6017	protein-coding gene	gene with protein product		147851		IL5R		1732409	Standard	NM_175727		Approved	CDw125, CD125	uc010hbs.3	Q01344	OTTHUMG00000090245	ENST00000446632.2:c.633delT	3.37:g.3139630delA	ENSP00000412209:p.Leu211fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3IU77|B4E2G0|Q14633|Q15469|Q6ISX9	Frame_Shift_Del	DEL	ENST00000446632.2	37	CCDS2559.1																																																																																				0.507	IL5RA-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000337537.2			-	3139630	A	-	3139630	7	5	608	1	0	1	0	1	0	0	0	0	7707	117	5	0	679	0	IL5RA	3	3139630	Frame_Shift_Del	DEL	A	TCGA-HE-A5NH-01A-11D-A26P-10		3139630	194882800	15	36822										
IL17RC	84818	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	9971714	9971714	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gcctctcaccccttccagacTccctggggcctctcaaagac	7	19	2	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr3:9971714T>C	ENST00000295981.3	+	14	1590	c.1372T>C	c.(1372-1374)Tcc>Ccc	p.S458P	IL17RC_ENST00000413608.1_Missense_Mutation_p.S387P|IL17RC_ENST00000383812.4_Missense_Mutation_p.S372P|IL17RC_ENST00000455057.1_Missense_Mutation_p.S355P|IL17RC_ENST00000416074.2_Missense_Mutation_p.S226P|IL17RC_ENST00000403601.3_Missense_Mutation_p.S387P|IL17RC_ENST00000498214.1_Intron	NM_153461.3	NP_703191	Q8NAC3	I17RC_HUMAN	interleukin 17 receptor C	458					cytokine-mediated signaling pathway (GO:0019221)|positive regulation of cytokine production involved in inflammatory response (GO:1900017)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	interleukin-17 receptor activity (GO:0030368)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(3)|ovary(3)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	22						CCTTCCAGACTCCCTGGGGCC	0.597																																																0													62	66	65					3																	9971714		2203	4300	6503	SO:0001583	missense	84818			BC006411	CCDS2590.1, CCDS2591.2, CCDS46746.1, CCDS56240.1, CCDS56241.1, CCDS74898.1	3p25.3	2008-02-05			ENSG00000163702	ENSG00000163702		"Interleukins and interleukin receptors"	18358	protein-coding gene	gene with protein product		610925				11706037	Standard	NM_153460		Approved	IL17-RL	uc003bua.3	Q8NAC3	OTTHUMG00000128648	ENST00000295981.3:c.1372T>C	3.37:g.9971714T>C	ENSP00000295981:p.Ser458Pro	Somatic		WXS	Illumina HiSeq	Phase_I	E9PHG1|E9PHJ6|Q6UVY3|Q6UWD4|Q8NFS1|Q9BR97	Missense_Mutation	SNP	ENST00000295981.3	37	CCDS2590.1	.	.	.	.	.	.	.	.	.	.	T	18.01	3.526941	0.64860	.	.	ENSG00000163702	ENST00000383812;ENST00000295981;ENST00000436503;ENST00000403601;ENST00000416074;ENST00000455057;ENST00000413608	T;T;T;T;T;T;T	0.18174	2.23;2.23;2.23;2.23;2.23;2.23;2.23	5.84	1.78	0.24846	.	0.258488	0.27223	N	0.020354	T	0.25269	0.0614	L	0.59436	1.845	0.26156	N	0.980074	D;D;P;P;P;P;P;D;D;D	0.59357	0.98;0.967;0.93;0.93;0.883;0.883;0.944;0.958;0.966;0.985	P;P;B;P;P;P;B;P;P;P	0.56916	0.731;0.642;0.368;0.462;0.462;0.462;0.439;0.663;0.543;0.809	T	0.03148	-1.1067	10	0.72032	D	0.01	-27.1927	5.0209	0.14361	0.2862:0.0:0.2374:0.4764	.	372;226;355;370;387;387;226;372;458;387	Q8NAC3-4;F5H4Z2;E9PHG1;A8BWD5;E9PHJ6;A8BWC9;B4E008;Q8NAC3-3;Q8NAC3;Q8NAC3-2	.;.;.;.;.;.;.;.;I17RC_HUMAN;.	P	372;458;362;387;226;355;387	ENSP00000373323:S372P;ENSP00000295981:S458P;ENSP00000401128:S362P;ENSP00000384969:S387P;ENSP00000395315:S226P;ENSP00000407894:S355P;ENSP00000396064:S387P	ENSP00000295981:S458P	S	+	1	0	IL17RC	9946714	0.275000	0.24201	1.000000	0.80357	0.836000	0.47400	0.499000	0.22546	1.000000	0.39049	0.459000	0.35465	TCC		0.597	IL17RC-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000250526.2	NM_032732		C	9971714	T	C	9971714	3	2	608	1	0	0	0	0	1	0	0	0	7648	1551	54	3	1426	3	IL17RC	3	9971714	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	6832084	9971714	188050716	16	36823										
EOMES	8320	broad.mit.edu;bcgsc.ca	37	chr3	27760357	27760358	+	Frame_Shift_Ins	INS	-	-	T													0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	atatgcagtcggggttggtaINStttgtgtaaggattgtaaga							TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr3:27760357_27760358insT	ENST00000295743.4	-	4	1388_1389	c.1185_1186insA	c.(1183-1188)aaatacfs	p.Y396fs	EOMES_ENST00000461503.1_5'UTR|EOMES_ENST00000537516.1_Frame_Shift_Ins_p.Y101fs|EOMES_ENST00000449599.1_Frame_Shift_Ins_p.Y396fs			O95936	EOMES_HUMAN	eomesodermin	396					brain development (GO:0007420)|cardioblast differentiation (GO:0010002)|CD8-positive, alpha-beta T cell differentiation involved in immune response (GO:0002302)|cell differentiation involved in embryonic placenta development (GO:0060706)|cerebral cortex neuron differentiation (GO:0021895)|cerebral cortex regionalization (GO:0021796)|endoderm formation (GO:0001706)|endodermal cell fate specification (GO:0001714)|interferon-gamma production (GO:0032609)|mesoderm formation (GO:0001707)|mesodermal to mesenchymal transition involved in gastrulation (GO:0060809)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|olfactory bulb development (GO:0021772)|positive regulation of cell differentiation (GO:0045597)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of neuron differentiation (GO:0045664)|skeletal muscle cell differentiation (GO:0035914)|stem cell maintenance (GO:0019827)|trophectodermal cell differentiation (GO:0001829)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|endometrium(1)|kidney(1)|large_intestine(6)|lung(7)|ovary(3)|prostate(1)	21						CGGGGTTGGTATTTGTGTAAGG	0.381																																																0																																										SO:0001589	frameshift_variant	8320			BC025363	CCDS2646.1, CCDS63585.1	3p24.1	2011-06-13	2010-06-24		ENSG00000163508	ENSG00000163508		"T-boxes"	3372	protein-coding gene	gene with protein product	"T-box brain2"	604615	"eomesodermin (Xenopus laevis) homolog"			9888994, 9434949	Standard	NM_005442		Approved	TBR2	uc003cdy.4	O95936	OTTHUMG00000130570	ENST00000295743.4:c.1186dupA	3.37:g.27760360_27760360dupT	ENSP00000295743:p.Tyr396fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z4I2|B7ZA51|G3XAI5|Q8TAZ2|Q9UPM7	Frame_Shift_Ins	INS	ENST00000295743.4	37	CCDS2646.1																																																																																				0.381	EOMES-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252995.1	NM_005442		T	27760358	-	T	27760357	7	5	608	1	0	1	1	0	0	0	0	0	5149	449	16	0	886	0	EOMES	3	27760357	Frame_Shift_Ins	INS	-	TCGA-HE-A5NH-01A-11D-A26P-10	17788643	27760357	170262073	17	36824										
SCAP	22937	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	47460314	47460314	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gcggagcgtgactgggatgaCgggcagcaggctgatgtacc	18	9	0	3	rs199794833		TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr3:47460314C>A	ENST00000265565.5	-	14	2372	c.1960G>T	c.(1960-1962)Gtc>Ttc	p.V654F	SCAP_ENST00000465628.1_5'Flank|SCAP_ENST00000441517.2_Missense_Mutation_p.V399F|SCAP_ENST00000545718.1_Missense_Mutation_p.V262F	NM_012235.2	NP_036367.2	Q12770	SCAP_HUMAN	SREBF chaperone	654					aging (GO:0007568)|cholesterol metabolic process (GO:0008203)|negative regulation of cholesterol biosynthetic process (GO:0045541)|positive regulation of low-density lipoprotein particle receptor biosynthetic process (GO:0045716)|regulation of fatty acid biosynthetic process (GO:0042304)|response to hypoxia (GO:0001666)|response to insulin (GO:0032868)|small molecule metabolic process (GO:0044281)|SREBP signaling pathway (GO:0032933)	cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|protein complex (GO:0043234)	unfolded protein binding (GO:0051082)			endometrium(4)|kidney(1)|large_intestine(4)|liver(1)|lung(11)|ovary(1)|skin(2)|upper_aerodigestive_tract(2)	26				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		ACTGGGATGACGGGCAGCAGG	0.706																																					Pancreas(149;978 1908 29304 37806 46700)											0													23	22	23					3																	47460314		2201	4297	6498	SO:0001583	missense	22937			BC020987	CCDS2755.2	3p21.31	2013-01-10			ENSG00000114650	ENSG00000114650		"WD repeat domain containing"	30634	protein-coding gene	gene with protein product	"SREBP cleavage activating protein"	601510				8898195, 8724849, 10570913	Standard	XM_005264967		Approved	KIAA0199	uc003crh.1	Q12770	OTTHUMG00000125539	ENST00000265565.5:c.1960G>T	3.37:g.47460314C>A	ENSP00000265565:p.Val654Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N2E0|Q8WUA1	Missense_Mutation	SNP	ENST00000265565.5	37	CCDS2755.2	.	.	.	.	.	.	.	.	.	.	C	14.87	2.664257	0.47572	.	.	ENSG00000114650	ENST00000360832;ENST00000265565;ENST00000441517;ENST00000545718	T;T;T	0.80393	-1.37;-1.33;0.81	4.65	3.78	0.43462	.	0.205924	0.41500	D	0.000872	T	0.72391	0.3454	L	0.44542	1.39	0.47905	D	0.999548	P;B	0.39094	0.659;0.429	B;B	0.38327	0.271;0.124	T	0.72462	-0.4286	10	0.56958	D	0.05	-31.8419	8.9911	0.36024	0.0:0.8289:0.0:0.1711	.	399;654	F8W921;Q12770	.;SCAP_HUMAN	F	281;654;399;262	ENSP00000265565:V654F;ENSP00000416847:V399F;ENSP00000438956:V262F	ENSP00000265565:V654F	V	-	1	0	SCAP	47435318	1.000000	0.71417	0.975000	0.42487	0.422000	0.31414	4.644000	0.61397	1.182000	0.42928	0.561000	0.74099	GTC		0.706	SCAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000246872.2	NM_012235		A	47460314	C	A	47460314	3	1	608	1	0	0	0	0	1	0	0	0	13890	536	19	4	1919	4	SCAP	3	47460314	Missense_Mutation	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	19699957	47460314	150562116	18	36825										
RFT1	91869	ucsc.edu;bcgsc.ca	37	chr3	53126088	53126088	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gctcacagcagaggaataccTggggaaagaaaccattgtca	11	9	2	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr3:53126088T>A	ENST00000296292.3	-	13	1520		c.e13-2		RFT1_ENST00000394738.3_Splice_Site|RP11-894J14.5_ENST00000607203.1_Intron	NM_052859.3	NP_443091.1	Q96AA3	RFT1_HUMAN	RFT1 homolog (S. cerevisiae)						carbohydrate transport (GO:0008643)|cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)	integral component of membrane (GO:0016021)	lipid transporter activity (GO:0005319)			NS(1)|breast(1)|kidney(1)|lung(5)|skin(2)|urinary_tract(2)	12				BRCA - Breast invasive adenocarcinoma(193;6.98e-05)|Kidney(197;0.0017)|KIRC - Kidney renal clear cell carcinoma(197;0.00192)|OV - Ovarian serous cystadenocarcinoma(275;0.104)		GAGGAATACCTGGGGAAAGAA	0.557																																																0													52	45	47					3																	53126088		2203	4300	6503	SO:0001630	splice_region_variant	91869			AJ318099	CCDS2869.1	3p21.1	2014-02-06	2005-01-26		ENSG00000163933	ENSG00000163933			30220	protein-coding gene	gene with protein product	"congenital disorder of glycosylation 1N"	611908	"RFT1, requiring fifty three 1 homolog (S. cerevisiae)"			12477932	Standard	NM_052859		Approved	CDG1N	uc003dgj.3	Q96AA3	OTTHUMG00000074035	ENST00000296292.3:c.1459-2A>T	3.37:g.53126088T>A		Somatic		WXS	Illumina HiSeq		Q96J03	Splice_Site	SNP	ENST00000296292.3	37	CCDS2869.1	.	.	.	.	.	.	.	.	.	.	T	13.62	2.292549	0.40594	.	.	ENSG00000163933	ENST00000296292;ENST00000394738	.	.	.	5.26	5.26	0.73747	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	8.4957	0.33127	0.1725:0.0:0.0:0.8275	.	.	.	.	.	-1	.	.	.	-	.	.	RFT1	53101128	1.000000	0.71417	0.976000	0.42696	0.457000	0.32468	7.337000	0.79256	2.219000	0.72066	0.459000	0.35465	.		0.557	RFT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157136.2	NM_052859	Intron	A	53126088	T	A	53126088	5	1	608	1	0	0	0	0	0	0	1	0	13270	1594	55	5	172	5	RFT1	3	53126088	Splice_Site	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	5665774	53126088	144896342	19	36826										
ARL13B	200894	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	93761993	93761993	+	Frame_Shift_Del	DEL	T	T	-													0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	aatcacaatggccaaaaaaaTaatgaatttggactagtaga							TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr3:93761993delT	ENST00000394222.3	+	7	1208	c.933delT	c.(931-933)aatfs	p.N312fs	ARL13B_ENST00000471138.1_Frame_Shift_Del_p.N312fs|ARL13B_ENST00000535334.1_Frame_Shift_Del_p.N209fs|ARL13B_ENST00000539730.1_Frame_Shift_Del_p.N33fs|ARL13B_ENST00000303097.7_Frame_Shift_Del_p.N205fs	NM_001174150.1	NP_001167621.1	Q3SXY8	AR13B_HUMAN	ADP-ribosylation factor-like 13B	312					cilium assembly (GO:0042384)|dorsal/ventral pattern formation (GO:0009953)|formation of radial glial scaffolds (GO:0021943)|heart looping (GO:0001947)|interneuron migration from the subpallium to the cortex (GO:0021830)|left/right axis specification (GO:0070986)|neural tube patterning (GO:0021532)|nonmotile primary cilium assembly (GO:0035058)|small GTPase mediated signal transduction (GO:0007264)|smoothened signaling pathway (GO:0007224)	ciliary membrane (GO:0060170)|cilium (GO:0005929)|intracellular (GO:0005622)|primary cilium (GO:0072372)	GTP binding (GO:0005525)			endometrium(1)|kidney(1)|large_intestine(3)|lung(3)|urinary_tract(2)	10						GCCAAAAAAATAATGAATTTG	0.373																																																0													81	80	81					3																	93761993		2203	4300	6503	SO:0001589	frameshift_variant	200894			AL713789	CCDS2924.1, CCDS2925.1, CCDS54615.1	3q11	2014-05-09	2005-11-18	2005-11-18	ENSG00000169379	ENSG00000169379		"ADP-ribosylation factors-like", "ADP-ribosylation factors"	25419	protein-coding gene	gene with protein product		608922	"ADP-ribosylation factor-like 2-like 1"	ARL2L1		15314642, 18674751	Standard	NR_033427		Approved	DKFZp761H079, JBTS8	uc003drf.3	Q3SXY8	OTTHUMG00000159012	ENST00000394222.3:c.933delT	3.37:g.93761993delT	ENSP00000377769:p.Asn312fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DN29|G3V1S8|Q504W8|Q8TCL5	Frame_Shift_Del	DEL	ENST00000394222.3	37	CCDS2925.1																																																																																				0.373	ARL13B-005	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352904.1	NM_182896		-	93761993	T	-	93761993	7	5	608	1	0	1	0	1	0	0	0	0	929	1403	49	0	959	0	ARL13B	3	93761993	Frame_Shift_Del	DEL	T	TCGA-HE-A5NH-01A-11D-A26P-10	40635905	93761993	104260437	20	36827										
DZIP1L	199221	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	137813760	137813760	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ttccagctccccttgggtccActttagcttggcccgtagct	9	15	0	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr3:137813760A>T	ENST00000327532.2	-	4	1014	c.652T>A	c.(652-654)Tgg>Agg	p.W218R	DZIP1L_ENST00000488595.1_5'Flank|DZIP1L_ENST00000469243.1_Missense_Mutation_p.W218R	NM_173543.2	NP_775814.2	Q8IYY4	DZI1L_HUMAN	DAZ interacting zinc finger protein 1-like	218					cilium assembly (GO:0042384)	ciliary basal body (GO:0036064)	metal ion binding (GO:0046872)			breast(2)|cervix(2)|endometrium(3)|kidney(2)|large_intestine(6)|lung(15)|ovary(1)|pancreas(2)|prostate(1)|skin(1)	35						CCTTGGGTCCACTTTAGCTTG	0.567																																																0													204	183	190					3																	137813760		2203	4300	6503	SO:0001583	missense	199221			AK057406	CCDS3096.1, CCDS54645.1	3q22.3	2013-05-22	2013-05-22		ENSG00000158163	ENSG00000158163			26551	protein-coding gene	gene with protein product			"DAZ interacting protein 1-like"			12477932	Standard	NM_173543		Approved	FLJ32844, DZIP2	uc003erq.3	Q8IYY4	OTTHUMG00000159819	ENST00000327532.2:c.652T>A	3.37:g.137813760A>T	ENSP00000332148:p.Trp218Arg	Somatic		WXS	Illumina HiSeq	Phase_I	C9JUG5|Q96M38	Missense_Mutation	SNP	ENST00000327532.2	37	CCDS3096.1	.	.	.	.	.	.	.	.	.	.	A	2.056	-0.416478	0.04766	.	.	ENSG00000158163	ENST00000327532;ENST00000469243;ENST00000536706	T;T	0.58940	0.3;0.3	4.85	0.616	0.17613	.	0.838115	0.10499	N	0.667430	T	0.49287	0.1548	L	0.57536	1.79	0.24258	N	0.995292	B;B	0.16166	0.016;0.007	B;B	0.15870	0.01;0.014	T	0.44967	-0.9293	10	0.49607	T	0.09	-4.0524	5.9081	0.19012	0.3628:0.38:0.0:0.2572	.	218;218	Q8IYY4-2;Q8IYY4	.;DZI1L_HUMAN	R	218	ENSP00000332148:W218R;ENSP00000419486:W218R	ENSP00000332148:W218R	W	-	1	0	DZIP1L	139296450	0.994000	0.37717	0.993000	0.49108	0.676000	0.39594	0.188000	0.17018	0.280000	0.22209	0.460000	0.39030	TGG		0.567	DZIP1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357548.1	NM_173543		T	137813760	A	T	137813760	3	4	608	1	0	0	0	0	1	0	0	0	4866	159	6	5	1712	5	DZIP1L	3	137813760	Missense_Mutation	SNP	A	TCGA-HE-A5NH-01A-11D-A26P-10	44051767	137813760	60208670	21	36828										
ARAP2	116984	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	36069579	36069579	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ttttggaagggttcttgaccGttgtagaaccacattaagtt	10	6	1	2	rs377015356		TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr4:36069579G>A	ENST00000303965.4	-	33	5554	c.5065C>T	c.(5065-5067)Cgg>Tgg	p.R1689W		NM_015230.3	NP_056045.2	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	1689					regulation of ARF GTPase activity (GO:0032312)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	ARF GTPase activator activity (GO:0008060)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(22)|liver(1)|lung(32)|ovary(2)|pancreas(1)|prostate(3)|skin(7)|urinary_tract(1)	82						GTTCTTGACCGTTGTAGAACC	0.358																																																0													97	98	98					4																	36069579		2203	4300	6503	SO:0001583	missense	116984			AF411982	CCDS3441.1	4p15.1	2013-01-11	2008-09-22	2008-09-22	ENSG00000047365	ENSG00000047365		"ADP-ribosylation factor GTPase activating proteins", "Sterile alpha motif (SAM) domain containing", "Pleckstrin homology (PH) domain containing", "Ankyrin repeat domain containing"	16924	protein-coding gene	gene with protein product		606645	"centaurin, delta 1"	CENTD1			Standard	NM_015230		Approved	PARX	uc003gsq.2	Q8WZ64	OTTHUMG00000097811	ENST00000303965.4:c.5065C>T	4.37:g.36069579G>A	ENSP00000302895:p.Arg1689Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5D2|Q7Z2L5|Q96L70|Q96P49|Q9Y4E4	Missense_Mutation	SNP	ENST00000303965.4	37	CCDS3441.1	.	.	.	.	.	.	.	.	.	.	G	16.25	3.069954	0.55539	.	.	ENSG00000047365	ENST00000303965	T	0.10573	2.86	5.79	2.62	0.31277	.	0.081885	0.48286	D	0.000197	T	0.19327	0.0464	L	0.32530	0.975	0.26832	N	0.968552	D	0.89917	1.0	D	0.65573	0.936	T	0.02391	-1.1166	10	0.87932	D	0	.	12.1751	0.54180	0.0:0.0:0.5359:0.4641	.	1689	Q8WZ64	ARAP2_HUMAN	W	1689	ENSP00000302895:R1689W	ENSP00000302895:R1689W	R	-	1	2	ARAP2	35745974	0.543000	0.26434	0.703000	0.30354	0.768000	0.43524	1.288000	0.33296	0.691000	0.31592	0.650000	0.86243	CGG		0.358	ARAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215074.2	NM_015230		A	36069579	G	A	36069579	3	1	608	1	0	0	0	0	1	0	0	0	839	1144	40	1	53	1	ARAP2	4	36069579	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10		36069579	155084697	22	36829										
GABRB1	2560	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	47427723	47427723	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ggtaacattctcctcagcacCctggaaatccggaatgagac	9	12	2	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr4:47427723C>G	ENST00000295454.3	+	9	1405	c.1113C>G	c.(1111-1113)acC>acG	p.T371T	GABRB1_ENST00000538619.1_Silent_p.T301T	NM_000812.3	NP_000803.2	P18505	GBRB1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta 1	371					cellular response to histamine (GO:0071420)|ion transmembrane transport (GO:0034220)|ion transport (GO:0006811)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|transport (GO:0006810)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|GABA-A receptor complex (GO:1902711)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	chloride channel activity (GO:0005254)|extracellular ligand-gated ion channel activity (GO:0005230)|GABA-A receptor activity (GO:0004890)|ligand-gated ion channel activity (GO:0015276)			central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(8)|lung(22)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	44					Acamprosate(DB00659)|Adinazolam(DB00546)|Alprazolam(DB00404)|Amoxapine(DB00543)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Chlordiazepoxide(DB00475)|Cinolazepam(DB01594)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Clotiazepam(DB01559)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Fludiazepam(DB01567)|Flumazenil(DB01205)|Flurazepam(DB00690)|Gamma Hydroxybutyric Acid(DB01440)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Isoflurane(DB00753)|Ketazolam(DB01587)|Lindane(DB00431)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Topiramate(DB00273)|Triazolam(DB00897)	TCCTCAGCACCCTGGAAATCC	0.547																																																0													77	75	76					4																	47427723		2203	4300	6503	SO:0001819	synonymous_variant	2560				CCDS3474.1	4p12	2012-06-22			ENSG00000163288	ENSG00000163288		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4081	protein-coding gene	gene with protein product	"GABA(A) receptor, beta 1"	137190					Standard	NM_000812		Approved		uc003gxh.3	P18505	OTTHUMG00000044269	ENST00000295454.3:c.1113C>G	4.37:g.47427723C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R6U7|D6REL3|Q16166|Q8TBK3	Silent	SNP	ENST00000295454.3	37	CCDS3474.1																																																																																				0.547	GABRB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216896.1			G	47427723	C	G	47427723	2	3	608	1	0	0	0	0	0	0	0	1	6173	610	22	4		4	GABRB1	4	47427723	Silent	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	11358144	47427723	143726553	23	36830										
MTRR	4552	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	7895903	7895903	+	Frame_Shift_Del	DEL	C	C	-													0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ttaccagatgacccctcaatCcccatcataatggtgggtcc							TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr5:7895903delC	ENST00000264668.2	+	12	1725	c.1695delC	c.(1693-1695)atcfs	p.I565fs	MTRR_ENST00000440940.2_Frame_Shift_Del_p.I538fs	NM_002454.2|NM_024010.2	NP_002445.2|NP_076915.2	Q9UBK8	MTRR_HUMAN	5-methyltetrahydrofolate-homocysteine methyltransferase reductase	565					cellular nitrogen compound metabolic process (GO:0034641)|cobalamin metabolic process (GO:0009235)|DNA methylation (GO:0006306)|folic acid metabolic process (GO:0046655)|methionine biosynthetic process (GO:0009086)|methionine metabolic process (GO:0006555)|methylation (GO:0032259)|oxidation-reduction process (GO:0055114)|small molecule metabolic process (GO:0044281)|sulfur amino acid metabolic process (GO:0000096)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intermediate filament cytoskeleton (GO:0045111)|nucleus (GO:0005634)	[methionine synthase] reductase activity (GO:0030586)|flavin adenine dinucleotide binding (GO:0050660)|FMN binding (GO:0010181)|iron ion binding (GO:0005506)|NADP binding (GO:0050661)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen (GO:0016709)|oxidoreductase activity, oxidizing metal ions, NAD or NADP as acceptor (GO:0016723)			NS(1)|breast(3)|endometrium(2)|kidney(1)|large_intestine(4)|liver(1)|lung(14)|ovary(1)|prostate(3)|stomach(1)	31					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	ACCCCTCAATCCCCATCATAA	0.403																																																0													137	138	138					5																	7895903		2203	4300	6503	SO:0001589	frameshift_variant	4552			AF025794	CCDS3874.1, CCDS47190.1	5p15.31	2011-05-12			ENSG00000124275	ENSG00000124275	1.16.1.8		7473	protein-coding gene	gene with protein product		602568				9501215	Standard	NM_024010		Approved	cblE	uc003jed.3	Q9UBK8	OTTHUMG00000090477	ENST00000264668.2:c.1695delC	5.37:g.7895903delC	ENSP00000264668:p.Ile565fs	Somatic		WXS	Illumina HiSeq	Phase_I	O60471|Q32MA9|Q7Z4M8	Frame_Shift_Del	DEL	ENST00000264668.2	37	CCDS3874.1																																																																																				0.403	MTRR-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000206931.1			-	7895903	C	-	7895903	7	5	608	1	0	1	0	1	0	0	0	0	9968	845	30	0	1741	0	MTRR	5	7895903	Frame_Shift_Del	DEL	C	TCGA-HE-A5NH-01A-11D-A26P-10		7895903	173019357	24	36831										
PRR16	51334	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	120021685	120021685	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	acaccctgacctctgacctaCagctggaggatgagatgact	10	12	1	4			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr5:120021685C>A	ENST00000407149.2	+	2	405	c.196C>A	c.(196-198)Cag>Aag	p.Q66K	PRR16_ENST00000505123.1_5'UTR|PRR16_ENST00000379551.2_Missense_Mutation_p.Q43K|PRR16_ENST00000446965.1_5'UTR			Q569H4	LARGN_HUMAN	proline rich 16	66					positive regulation of cell size (GO:0045793)|positive regulation of translation (GO:0045727)					endometrium(2)|kidney(2)|large_intestine(5)|lung(12)|ovary(1)|pancreas(2)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	28		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)		CTCTGACCTACAGCTGGAGGA	0.463																																																0													97	88	91					5																	120021685		2203	4300	6503	SO:0001583	missense	51334			AF242769	CCDS4127.1, CCDS75290.1	5q23.1	2006-08-22			ENSG00000184838	ENSG00000184838			29654	protein-coding gene	gene with protein product		615931				15971941	Standard	XM_005272010		Approved	DSC54	uc003ksp.3	Q569H4	OTTHUMG00000128903	ENST00000407149.2:c.196C>A	5.37:g.120021685C>A	ENSP00000385118:p.Gln66Lys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSZ0|Q8IXY1|Q9NYI5	Missense_Mutation	SNP	ENST00000407149.2	37		.	.	.	.	.	.	.	.	.	.	C	22.1	4.240061	0.79912	.	.	ENSG00000184838	ENST00000407149;ENST00000379551	T;T	0.45668	0.89;0.89	5.16	5.16	0.70880	.	0.000000	0.85682	D	0.000000	T	0.52240	0.1722	L	0.43152	1.355	0.80722	D	1	D;D	0.67145	0.988;0.996	P;P	0.57911	0.829;0.829	T	0.44190	-0.9344	9	.	.	.	-0.1775	17.7817	0.88526	0.0:1.0:0.0:0.0	.	66;43	Q569H4;Q569H4-3	PRR16_HUMAN;.	K	66;43	ENSP00000385118:Q66K;ENSP00000368869:Q43K	.	Q	+	1	0	PRR16	120049584	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	7.383000	0.79741	2.568000	0.86640	0.555000	0.69702	CAG		0.463	PRR16-002	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000371059.1	NM_016644		A	120021685	C	A	120021685	3	1	608	1	0	0	0	0	1	0	0	0	12599	479	17	4	133	4	PRR16	5	120021685	Missense_Mutation	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	112125782	120021685	60893575	25	36832										
CCNI2	645121	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	132088594	132088594	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	acagctgctgcaaggaacttGtaatgcagcaactgagaagt	11	8	0	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr5:132088594G>A	ENST00000378731.1	+	6	1093	c.1042G>A	c.(1042-1044)Gta>Ata	p.V348I	SEPT8_ENST00000481030.1_Intron|SEPT8_ENST00000378719.2_Intron	NM_001039780.2	NP_001034869.1	Q6ZMN8	CCNI2_HUMAN	cyclin I family, member 2	348					regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)					haematopoietic_and_lymphoid_tissue(1)|prostate(1)|urinary_tract(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CAAGGAACTTGTAATGCAGCA	0.478																																																0													122	105	111					5																	132088594		2203	4300	6503	SO:0001583	missense	645121			BC132837	CCDS34236.1, CCDS75297.1	5q31.1	2014-07-03			ENSG00000205089	ENSG00000205089			33869	protein-coding gene	gene with protein product						23707792	Standard	NM_001287252		Approved	FLJ16793	uc003kxq.1	Q6ZMN8	OTTHUMG00000059737	ENST00000378731.1:c.1042G>A	5.37:g.132088594G>A	ENSP00000368005:p.Val348Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNE2|B7ZMB7|B7ZMB8	Missense_Mutation	SNP	ENST00000378731.1	37	CCDS34236.1	.	.	.	.	.	.	.	.	.	.	g	15.24	2.775517	0.49786	.	.	ENSG00000205089	ENST00000378731	T	0.42131	0.98	5.35	2.54	0.30619	.	0.252001	0.38959	N	0.001518	T	0.43055	0.1230	M	0.66297	2.02	0.09310	N	0.999999	B;B;P	0.41710	0.261;0.261;0.76	B;B;P	0.45232	0.03;0.052;0.474	T	0.31194	-0.9952	10	0.52906	T	0.07	.	6.9365	0.24468	0.1591:0.1432:0.6976:0.0	.	349;364;348	B7ZMB7;B7ZMB8;Q6ZMN8	.;.;CCNI2_HUMAN	I	348	ENSP00000368005:V348I	ENSP00000368005:V348I	V	+	1	0	CCNI2	132116493	0.435000	0.25577	0.001000	0.08648	0.003000	0.03518	1.780000	0.38634	0.434000	0.26340	-0.144000	0.13903	GTA		0.478	CCNI2-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000132833.1	NM_001039780		A	132088594	G	A	132088594	3	1	608	1	0	0	0	0	1	0	0	0	2929	1377	48	2	1064	2	CCNI2	5	132088594	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10	12066909	132088594	48826666	26	36833										
FAM13B	51306	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	137354741	137354741	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	tcatcaagtggaattccaaaTattttgttagcaagaacgga	8	6	2	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr5:137354741T>C	ENST00000033079.3	-	3	511	c.60A>G	c.(58-60)atA>atG	p.I20M	FAM13B_ENST00000425075.2_Intron|FAM13B_ENST00000420893.2_Missense_Mutation_p.I20M	NM_016603.2	NP_057687.2	Q9NYF5	FA13B_HUMAN	family with sequence similarity 13, member B	20					regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	GTPase activator activity (GO:0005096)			endometrium(4)|kidney(2)|lung(5)	11						GAATTCCAAATATTTTGTTAG	0.448																																																0													102	99	100					5																	137354741		2203	4300	6503	SO:0001583	missense	51306			AF251038	CCDS4195.1, CCDS47269.1, CCDS47270.1	5q31	2011-09-07	2009-01-20	2009-01-20	ENSG00000031003	ENSG00000031003		"Rho GTPase activating proteins"	1335	protein-coding gene	gene with protein product		609371	"chromosome 5 open reading frame 5", "family with sequence similarity 13, member B1"	C5orf5, FAM13B1		11087669, 11161817	Standard	NM_016603		Approved	N61, KHCHP, ARHGAP49	uc003lbz.2	Q9NYF5	OTTHUMG00000129202	ENST00000033079.3:c.60A>G	5.37:g.137354741T>C	ENSP00000033079:p.Ile20Met	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQB5|G3V0H9|Q3ZCR0|Q6PGQ2|Q9P0I7	Missense_Mutation	SNP	ENST00000033079.3	37	CCDS4195.1	.	.	.	.	.	.	.	.	.	.	T	17.19	3.327093	0.60743	.	.	ENSG00000031003	ENST00000033079;ENST00000420893;ENST00000514310;ENST00000502471;ENST00000509596;ENST00000508403;ENST00000505961	T;T;T;T;T;T;T	0.45668	0.89;0.89;0.89;0.89;0.89;0.89;0.89	5.87	5.87	0.94306	Rho GTPase-activating protein domain (1);Rho GTPase activation protein (1);	0.045544	0.85682	D	0.000000	T	0.48874	0.1524	N	0.14661	0.345	0.43394	D	0.995515	D;D	0.76494	0.999;0.998	D;D	0.74023	0.952;0.982	T	0.56986	-0.7888	10	0.87932	D	0	-9.9548	16.27	0.82612	0.0:0.0:0.0:1.0	.	20;20	Q9NYF5-2;Q9NYF5	.;FA13B_HUMAN	M	20	ENSP00000033079:I20M;ENSP00000388521:I20M;ENSP00000425326:I20M;ENSP00000424785:I20M;ENSP00000422311:I20M;ENSP00000426863:I20M;ENSP00000422673:I20M	ENSP00000033079:I20M	I	-	3	3	FAM13B	137382640	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	3.908000	0.56355	2.248000	0.74166	0.533000	0.62120	ATA		0.448	FAM13B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251279.1			C	137354741	T	C	137354741	3	2	608	1	0	0	0	0	1	0	0	0	5457	1396	49	3	2841	3	FAM13B	5	137354741	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	5266147	137354741	43560519	27	36834										
C6orf146	222826	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	4069042	4069042	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	acactatattttgtcggtaaAgtttctttttggtcccaaag	7	7	1	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr6:4069042A>G	ENST00000274673.3	-	7	1818	c.1415T>C	c.(1414-1416)cTt>cCt	p.L472P	FAM217A_ENST00000380188.2_5'UTR	NM_173563.2	NP_775834.2	Q8IXS0	F217A_HUMAN	family with sequence similarity 217, member A	472																	TTGTCGGTAAAGTTTCTTTTT	0.403																																																0													87	92	90					6																	4069042		2203	4300	6503	SO:0001583	missense	222826			BC039349	CCDS4489.1	6p25.1	2012-02-07	2012-02-07	2012-02-07	ENSG00000145975	ENSG00000145975			21362	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 146"	C6orf146			Standard	NM_173563		Approved	MGC43581	uc003mvx.3	Q8IXS0	OTTHUMG00000014159	ENST00000274673.3:c.1415T>C	6.37:g.4069042A>G	ENSP00000274673:p.Leu472Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JYK1	Missense_Mutation	SNP	ENST00000274673.3	37	CCDS4489.1	.	.	.	.	.	.	.	.	.	.	A	9.632	1.136613	0.21123	.	.	ENSG00000145975	ENST00000274673;ENST00000538080	T	0.19806	2.12	4.94	1.19	0.21007	.	0.439613	0.19414	N	0.114873	T	0.04724	0.0128	L	0.27053	0.805	0.38087	D	0.936832	B	0.22683	0.073	B	0.25884	0.064	T	0.21586	-1.0241	10	0.45353	T	0.12	.	3.9837	0.09506	0.6123:0.1915:0.1961:0.0	.	472	Q8IXS0	CF146_HUMAN	P	472;319	ENSP00000274673:L472P	ENSP00000274673:L472P	L	-	2	0	C6orf146	4014041	0.583000	0.26757	0.264000	0.24511	0.732000	0.41865	1.295000	0.33377	0.055000	0.16094	0.477000	0.44152	CTT		0.403	FAM217A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352577.2	NM_173563		G	4069042	A	G	4069042	3	3	608	1	0	0	0	0	1	0	0	0	2337	72	3	3	115	3	C6orf146	6	4069042	Missense_Mutation	SNP	A	TCGA-HE-A5NH-01A-11D-A26P-10		4069042	167046025	28	36835										
MYLIP	29116	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	16143330	16143330	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ttttgcagattgtgtcggcaAtggaaaactatggcatagaa	11	5	0	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr6:16143330A>G	ENST00000356840.3	+	4	742	c.544A>G	c.(544-546)Atg>Gtg	p.M182V	MIR4639_ENST00000584938.1_RNA|MYLIP_ENST00000349606.4_Start_Codon_SNP_p.M1V	NM_013262.3	NP_037394.2	Q8WY64	MYLIP_HUMAN	myosin regulatory light chain interacting protein	182	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.				cellular component movement (GO:0006928)|cholesterol homeostasis (GO:0042632)|negative regulation of low-density lipoprotein particle clearance (GO:0010989)|nervous system development (GO:0007399)|positive regulation of protein catabolic process (GO:0045732)|protein destabilization (GO:0031648)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|regulation of low-density lipoprotein particle receptor catabolic process (GO:0032803)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extrinsic component of membrane (GO:0019898)|intracellular (GO:0005622)|plasma membrane (GO:0005886)	cytoskeletal protein binding (GO:0008092)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(3)|lung(13)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	28	Breast(50;0.0799)|Ovarian(93;0.103)	all_hematologic(90;0.0895)	Epithelial(50;0.241)			TGTGTCGGCAATGGAAAACTA	0.473																																																0													130	122	125					6																	16143330		2203	4300	6503	SO:0001583	missense	29116			AF187016	CCDS4536.1	6p23-p22.3	2011-11-17			ENSG00000007944	ENSG00000007944			21155	protein-coding gene	gene with protein product	"E3 ubiquitin ligase-inducible degrader of the low density lipoprotein receptor"	610082				10593918, 11162443, 19688294	Standard	NM_013262		Approved	MIR, IDOL	uc003nbq.3	Q8WY64	OTTHUMG00000016405	ENST00000356840.3:c.544A>G	6.37:g.16143330A>G	ENSP00000349298:p.Met182Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TIA4|Q9BU73|Q9NRL9|Q9UHE7	Missense_Mutation	SNP	ENST00000356840.3	37	CCDS4536.1	.	.	.	.	.	.	.	.	.	.	A	11.61	1.689703	0.29962	.	.	ENSG00000007944	ENST00000356840;ENST00000349606	T;T	0.76839	-1.05;1.32	5.57	5.57	0.84162	Band 4.1 domain (1);FERM central domain (2);FERM domain (1);FERM/acyl-CoA-binding protein, 3-helical bundle (1);	0.135191	0.64402	D	0.000002	T	0.57548	0.2061	L	0.38175	1.15	0.80722	D	1	B	0.10296	0.003	B	0.11329	0.006	T	0.63125	-0.6707	10	0.87932	D	0	.	11.5381	0.50651	0.7336:0.2664:0.0:0.0	.	182	Q8WY64	MYLIP_HUMAN	V	182;1	ENSP00000349298:M182V;ENSP00000008686:M1V	ENSP00000008686:M1V	M	+	1	0	MYLIP	16251309	0.995000	0.38212	0.927000	0.36925	0.499000	0.33736	3.374000	0.52402	2.230000	0.72887	0.533000	0.62120	ATG		0.473	MYLIP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043864.1	NM_013262		G	16143330	A	G	16143330	3	3	608	1	0	0	0	0	1	0	0	0	10062	101	4	3	558	3	MYLIP	6	16143330	Missense_Mutation	SNP	A	TCGA-HE-A5NH-01A-11D-A26P-10	12074288	16143330	154971737	29	36836										
SLC17A1	6568	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	25811999	25811999	+	Splice_Site	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	agggaagacaagaacccattCtgaagaggaaacattattct	9	7	2	4			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr6:25811999C>T	ENST00000244527.4	-	9	1013		c.e9-1		SLC17A1_ENST00000476801.1_Splice_Site|SLC17A1_ENST00000468082.1_Splice_Site|SLC17A1_ENST00000427328.1_Splice_Site	NM_005074.3	NP_005065.2	Q14916	NPT1_HUMAN	solute carrier family 17 (organic anion transporter), member 1						ion transport (GO:0006811)|phosphate ion transport (GO:0006817)|sodium ion transport (GO:0006814)|sodium-dependent phosphate transport (GO:0044341)|transmembrane transport (GO:0055085)|urate metabolic process (GO:0046415)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	sodium-dependent phosphate transmembrane transporter activity (GO:0015321)|symporter activity (GO:0015293)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(14)|ovary(3)|pancreas(1)|skin(3)|upper_aerodigestive_tract(1)	36						AGAACCCATTCTGAAGAGGAA	0.403																																																0													87	79	82					6																	25811999		2203	4300	6503	SO:0001630	splice_region_variant	6568				CCDS4565.1	6p22.2	2013-07-18	2013-07-18		ENSG00000124568	ENSG00000124568		"Solute carriers"	10929	protein-coding gene	gene with protein product		182308	"solute carrier family 17 (sodium phosphate), member 1"	NPT1		8288239	Standard	NM_005074		Approved	NAPI-1	uc003nfh.4	Q14916	OTTHUMG00000016297	ENST00000244527.4:c.898-1G>A	6.37:g.25811999C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K418|O60761|Q13783|Q3MIP5|Q5MJP8|Q5TB83|Q96KL8	Splice_Site	SNP	ENST00000244527.4	37	CCDS4565.1	.	.	.	.	.	.	.	.	.	.	C	7.361	0.624846	0.14193	.	.	ENSG00000124568	ENST00000244527;ENST00000427328;ENST00000476801;ENST00000468082	.	.	.	3.38	3.38	0.38709	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	10.5584	0.45131	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	SLC17A1	25919978	1.000000	0.71417	0.946000	0.38457	0.079000	0.17450	4.214000	0.58527	2.191000	0.70037	0.650000	0.86243	.		0.403	SLC17A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043647.2		Intron	T	25811999	C	T	25811999	5	4	608	1	0	0	0	0	0	0	1	0	14429	927	32	2	522	2	SLC17A1	6	25811999	Splice_Site	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	9668669	25811999	145303068	30	36837										
GCLC	2729	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	53370243	53370243	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ggaaaggatcactctggtgaGcagtaccacaaacaccacat	9	11	2	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr6:53370243G>C	ENST00000229416.6	-	12	1825	c.1342C>G	c.(1342-1344)Ctc>Gtc	p.L448V	RP1-27K12.4_ENST00000508884.1_RNA	NM_001197115.1|NM_001498.3	NP_001184044.1|NP_001489.1	P48506	GSH1_HUMAN	glutamate-cysteine ligase, catalytic subunit	448					apoptotic mitochondrial changes (GO:0008637)|cell redox homeostasis (GO:0045454)|cellular nitrogen compound metabolic process (GO:0034641)|cysteine metabolic process (GO:0006534)|glutamate metabolic process (GO:0006536)|glutathione biosynthetic process (GO:0006750)|glutathione derivative biosynthetic process (GO:1901687)|L-ascorbic acid metabolic process (GO:0019852)|negative regulation of apoptotic process (GO:0043066)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of protein ubiquitination (GO:0031397)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|regulation of blood vessel size (GO:0050880)|regulation of mitochondrial depolarization (GO:0051900)|response to arsenic-containing substance (GO:0046685)|response to heat (GO:0009408)|response to hormone (GO:0009725)|response to nitrosative stress (GO:0051409)|response to oxidative stress (GO:0006979)|small molecule metabolic process (GO:0044281)|sulfur amino acid metabolic process (GO:0000096)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|glutamate-cysteine ligase complex (GO:0017109)	ADP binding (GO:0043531)|ATP binding (GO:0005524)|coenzyme binding (GO:0050662)|glutamate binding (GO:0016595)|glutamate-cysteine ligase activity (GO:0004357)|magnesium ion binding (GO:0000287)			breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(4)|liver(1)|lung(11)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	22	Lung NSC(77;0.0137)				L-Cysteine(DB00151)|Vitamin E(DB00163)	ACTCTGGTGAGCAGTACCACA	0.403																																																0													98	90	93					6																	53370243		2203	4300	6503	SO:0001583	missense	2729			M90656	CCDS4952.1, CCDS75471.1	6p12	2008-02-05				ENSG00000001084	6.3.2.2		4311	protein-coding gene	gene with protein product		606857		GLCLC, GLCL		1350904	Standard	NM_001498		Approved	GCS	uc003pbw.2	P48506		ENST00000229416.6:c.1342C>G	6.37:g.53370243G>C	ENSP00000229416:p.Leu448Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q14399	Missense_Mutation	SNP	ENST00000229416.6	37	CCDS4952.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	17.15|17.15	3.315237|3.315237	0.60524|0.60524	.|.	.|.	ENSG00000001084|ENSG00000001084	ENST00000514373|ENST00000229416	.|T	.|0.77358	.|-1.09	5.94|5.94	5.94|5.94	0.96194|0.96194	.|.	.|0.055897	.|0.85682	.|D	.|0.000000	T|T	0.71787|0.71787	0.3381|0.3381	M|M	0.66297|0.66297	2.02|2.02	0.80722|0.80722	D|D	1|1	.|B	.|0.18968	.|0.032	.|B	.|0.22152	.|0.038	T|T	0.66779|0.66779	-0.5837|-0.5837	5|10	.|0.42905	.|T	.|0.14	.|.	20.3594|20.3594	0.98849|0.98849	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|448	.|P48506	.|GSH1_HUMAN	W|V	49|448	.|ENSP00000229416:L448V	.|ENSP00000229416:L448V	C|L	-|-	3|1	2|0	GCLC|GCLC	53478202|53478202	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.830000|0.830000	0.47004|0.47004	8.018000|8.018000	0.88722|0.88722	2.816000|2.816000	0.96949|0.96949	0.563000|0.563000	0.77884|0.77884	TGC|CTC		0.403	GCLC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359710.2			C	53370243	G	C	53370243	3	2	608	1	0	0	0	0	1	0	0	0	6302	971	34	4	591	4	GCLC	6	53370243	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10	27558244	53370243	117744824	31	36838										
C6orf162	57150	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	88046811	88046811	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	acccaaagagaaagagtttcAaagcccagggctcagagggg	13	9	2	3			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr6:88046811A>C	ENST00000392863.1	+	3	151	c.62A>C	c.(61-63)cAa>cCa	p.Q21P	SMIM8_ENST00000608353.1_Missense_Mutation_p.Q21P|SMIM8_ENST00000229570.5_Missense_Mutation_p.Q21P|RP1-102H19.8_ENST00000448282.2_Missense_Mutation_p.Q21P|SMIM8_ENST00000608525.1_Missense_Mutation_p.Q21P|SMIM8_ENST00000608868.1_Missense_Mutation_p.Q21P	NM_001042493.1	NP_001035958.1	Q96KF7	SMIM8_HUMAN	small integral membrane protein 8	21						integral component of membrane (GO:0016021)											AAAGAGTTTCAAAGCCCAGGG	0.398																																																0													89	91	90					6																	88046811		2203	4300	6503	SO:0001583	missense	57150			AL050201	CCDS34496.1, CCDS75493.1	6q15	2013-06-21	2012-11-20	2012-11-20	ENSG00000111850	ENSG00000111850			21401	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 162"	C6orf162			Standard	NM_001287445		Approved	DKFZP586E1923, dJ102H19.2	uc003plq.1	Q96KF7	OTTHUMG00000015168	ENST00000392863.1:c.62A>C	6.37:g.88046811A>C	ENSP00000376603:p.Gln21Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4V6|E1P505|Q5TEZ3|Q6NSD2|Q8IZ10	Missense_Mutation	SNP	ENST00000392863.1	37	CCDS34496.1	.	.	.	.	.	.	.	.	.	.	A	12.70	2.015538	0.35511	.	.	ENSG00000111850	ENST00000392863;ENST00000229570	.	.	.	5.69	-0.263	0.12954	.	0.368122	0.29501	N	0.011965	T	0.08044	0.0201	.	.	.	0.25064	N	0.991047	B	0.02656	0.0	B	0.04013	0.001	T	0.35475	-0.9787	8	0.25106	T	0.35	0.3915	5.1987	0.15252	0.2411:0.3105:0.4483:0.0	.	21	Q96KF7	CF162_HUMAN	P	21	.	ENSP00000229570:Q21P	Q	+	2	0	C6orf162	88103530	0.489000	0.26004	0.812000	0.32479	0.823000	0.46562	0.679000	0.25291	-0.373000	0.07979	0.533000	0.62120	CAA		0.398	SMIM8-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000472479.2	NM_020425		C	88046811	A	C	88046811	3	2	608	1	0	0	0	0	1	0	0	0	2342	130	5	5	64	5	C6orf162	6	88046811	Missense_Mutation	SNP	A	TCGA-HE-A5NH-01A-11D-A26P-10	34676568	88046811	83068256	32	36839										
MET	4233	hgsc.bcm.edu	37	chr7	116411633	116411634	+	In_Frame_Ins	INS	-	-	TTGTCTCAATATCAACAGCACTGTTATTACTACTTGGGT													0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	cacaggattgattgctggtgINSttgtctcaatatcaacagca							TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr7:116411633_116411634insTTGTCTCAATATCAACAGCACTGTTATTACTACTTGGGT	ENST00000318493.6	+	13	3053_3054	c.2866_2867insTTGTCTCAATATCAACAGCACTGTTATTACTACTTGGGT	c.(2866-2868)gtt>gTTGTCTCAATATCAACAGCACTGTTATTACTACTTGGGTtt	p.969_970insVSISTALLLLLGF	MET_ENST00000397752.3_In_Frame_Ins_p.951_952insVSISTALLLLLGF			Q9NWH9	SLTM_HUMAN	MET proto-oncogene, receptor tyrosine kinase	0					apoptotic process (GO:0006915)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(10)|breast(4)|central_nervous_system(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|kidney(25)|large_intestine(8)|liver(3)|lung(70)|ovary(10)|pleura(2)|prostate(4)|skin(5)|stomach(6)|testis(1)|thyroid(4)|upper_aerodigestive_tract(64)|urinary_tract(3)	233	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			GATTGCTGGTGTTGTCTCAATA	0.347			Mis		"papillary renal, head-neck squamous cell "	papillary renal			Hereditary Papillary Renal Carcinoma (type 1)																														Dom	yes	Familial Papillary Renal Cancer	7	7q31	4233	met proto-oncogene (hepatocyte growth factor receptor)		E	0																																										SO:0001652	inframe_insertion	4233	Familial Cancer Database	HPRC, Hereditary Papillary Renal Cell Cancer	M35073	CCDS43636.1, CCDS47689.1	7q31	2014-09-17	2014-06-26		ENSG00000105976	ENSG00000105976	2.7.10.1		7029	protein-coding gene	gene with protein product	"hepatocyte growth factor receptor"	164860	"met proto-oncogene"			1846706, 1611909	Standard	NM_001127500		Approved	HGFR, RCCP2	uc010lkh.3	P08581	OTTHUMG00000023299	ENST00000318493.6:c.2867_2905dupTTGTCTCAATATCAACAGCACTGTTATTACTACTTGGGT	7.37:g.116411633_116411634insTTGTCTCAATATCAACAGCACTGTTATTACTACTTGGGT	ENSP00000317272:p.Val957_Phe969dup	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5V8|B2RTX3|Q2VPK7|Q52MB3|Q658J7|Q6ZNF2|Q86TK6|Q9H7C3|Q9H8U9	In_Frame_Ins	INS	ENST00000318493.6	37	CCDS47689.1																																																																																				0.347	MET-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059620.3			TTGTCTCAATATCAACAGCACTGTTATTACTACTTGGGT	116411634	-	TTGTCTCAATATCAACAGCACTGTTATTACTACTTGGGT	116411633	7	5	608	1	0	1	1	0	0	0	0	0	9492	1377	48	0	2912	0	MET	7	116411633	In_Frame_Ins	INS	-	TCGA-HE-A5NH-01A-11D-A26P-10		116411633	42727030	33	36840										
MET	4233	hgsc.bcm.edu;bcgsc.ca	37	chr7	116411675	116411675	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	tgttattactacttgggtttTtcctgtggctgaaaaagaga	10	5	0	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr7:116411675T>G	ENST00000318493.6	+	13	3095	c.2908T>G	c.(2908-2910)Ttc>Gtc	p.F970V	MET_ENST00000397752.3_Missense_Mutation_p.F952V			Q9NWH9	SLTM_HUMAN	MET proto-oncogene, receptor tyrosine kinase	0					apoptotic process (GO:0006915)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(10)|breast(4)|central_nervous_system(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|kidney(25)|large_intestine(8)|liver(3)|lung(70)|ovary(10)|pleura(2)|prostate(4)|skin(5)|stomach(6)|testis(1)|thyroid(4)|upper_aerodigestive_tract(64)|urinary_tract(3)	233	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			ACTTGGGTTTTTCCTGTGGCT	0.348			Mis		"papillary renal, head-neck squamous cell "	papillary renal			Hereditary Papillary Renal Carcinoma (type 1)																														Dom	yes	Familial Papillary Renal Cancer	7	7q31	4233	met proto-oncogene (hepatocyte growth factor receptor)		E	0													117	110	112					7																	116411675		1845	4085	5930	SO:0001583	missense	4233	Familial Cancer Database	HPRC, Hereditary Papillary Renal Cell Cancer	M35073	CCDS43636.1, CCDS47689.1	7q31	2014-09-17	2014-06-26		ENSG00000105976	ENSG00000105976	2.7.10.1		7029	protein-coding gene	gene with protein product	"hepatocyte growth factor receptor"	164860	"met proto-oncogene"			1846706, 1611909	Standard	NM_001127500		Approved	HGFR, RCCP2	uc010lkh.3	P08581	OTTHUMG00000023299	ENST00000318493.6:c.2908T>G	7.37:g.116411675T>G	ENSP00000317272:p.Phe970Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5V8|B2RTX3|Q2VPK7|Q52MB3|Q658J7|Q6ZNF2|Q86TK6|Q9H7C3|Q9H8U9	Missense_Mutation	SNP	ENST00000318493.6	37	CCDS47689.1	.	.	.	.	.	.	.	.	.	.	T	13.91	2.377141	0.42105	.	.	ENSG00000105976	ENST00000397752;ENST00000318493;ENST00000454623	T;T	0.72167	-0.63;-0.63	5.76	5.76	0.90799	.	0.096961	0.64402	D	0.000001	T	0.67420	0.2891	M	0.73598	2.24	0.80722	D	1	P;B	0.38129	0.619;0.349	B;B	0.35510	0.204;0.185	T	0.67428	-0.5673	10	0.31617	T	0.26	.	10.6767	0.45789	0.0:0.0713:0.0:0.9287	.	970;952	P08581-2;P08581	.;MET_HUMAN	V	952;970;84	ENSP00000380860:F952V;ENSP00000317272:F970V	ENSP00000317272:F970V	F	+	1	0	MET	116198911	1.000000	0.71417	0.999000	0.59377	0.905000	0.53344	2.954000	0.49113	2.324000	0.78689	0.533000	0.62120	TTC		0.348	MET-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059620.3			G	116411675	T	G	116411675	3	3	608	1	0	0	0	0	1	0	0	0	9492	1841	64	5	2954	5	MET	7	116411675	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	42	116411675	42726988	34	36841										
PLXNA4	91584	hgsc.bcm.edu;bcgsc.ca	37	chr7	131859582	131859583	+	Frame_Shift_Ins	INS	-	-	AA													0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	cttcaattcctgggaacagcINSacccgcatggtgtaagttct							TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr7:131859582_131859583insAA	ENST00000359827.3	-	21	4933_4934	c.3971_3972insTT	c.(3970-3972)gtgfs	p.V1324fs	PLXNA4_ENST00000321063.4_Frame_Shift_Ins_p.V1324fs			Q9HCM2	PLXA4_HUMAN	plexin A4	1324					anterior commissure morphogenesis (GO:0021960)|axon guidance (GO:0007411)|chemorepulsion of branchiomotor axon (GO:0021793)|facial nerve structural organization (GO:0021612)|glossopharyngeal nerve morphogenesis (GO:0021615)|postganglionic parasympathetic nervous system development (GO:0021784)|regulation of axon extension involved in axon guidance (GO:0048841)|regulation of negative chemotaxis (GO:0050923)|semaphorin-plexin signaling pathway (GO:0071526)|semaphorin-plexin signaling pathway involved in axon guidance (GO:1902287)|sympathetic nervous system development (GO:0048485)|trigeminal nerve structural organization (GO:0021637)|vagus nerve morphogenesis (GO:0021644)	integral component of membrane (GO:0016021)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|semaphorin receptor complex (GO:0002116)	semaphorin receptor activity (GO:0017154)			NS(1)|breast(1)|endometrium(3)|kidney(4)|large_intestine(14)|lung(17)|ovary(1)|prostate(2)|skin(1)|stomach(1)	45						CTGGGAACAGCACCCGCATGGT	0.569																																																0																																										SO:0001589	frameshift_variant	91584			AB046770, AK123428	CCDS5826.1, CCDS43646.1, CCDS43647.1	7q32.3	2007-09-26	2007-09-26	2007-09-26	ENSG00000221866	ENSG00000221866		"Plexins"	9102	protein-coding gene	gene with protein product		604280	"plexin A4, A", "plexin A4, B"	PLXNA4A, PLXNA4B			Standard	NM_181775		Approved	KIAA1550, DKFZp434G0625PRO34003, FAYV2820	uc003vra.4	Q9HCM2	OTTHUMG00000155108	ENST00000359827.3:c.3971_3972insTT	7.37:g.131859582_131859583insAA	ENSP00000352882:p.Val1324fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1N6|E9PAM2|Q6UWC6|Q6ZW89|Q8N969|Q8ND00|Q8NEN3|Q9NTD4	Frame_Shift_Ins	INS	ENST00000359827.3	37	CCDS43646.1																																																																																				0.569	PLXNA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338422.2	NM_181775		AA	131859583	-	AA	131859582	7	5	608	1	0	1	1	0	0	0	0	0	12129	697	25	0	1760	0	PLXNA4	7	131859582	Frame_Shift_Ins	INS	-	TCGA-HE-A5NH-01A-11D-A26P-10	15447907	131859582	27279081	35	36842										
GBX1	2636	broad.mit.edu	37	chr7	150864527	150864529	+	In_Frame_Del	DEL	GCG	GCG	-													0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gtacagcaagtggccggagcGcggcggcggcggcccgatta							TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	GCG	GCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr7:150864527_150864529delGCG	ENST00000297537.4	-	1	106_108	c.107_109delCGC	c.(106-111)ccgcgc>cgc	p.P36del	GBX1_ENST00000475831.1_Intron	NM_001098834.1	NP_001092304.1	Q14549	GBX1_HUMAN	gastrulation brain homeobox 1	36	Pro-rich.				adult walking behavior (GO:0007628)|neuron fate commitment (GO:0048663)|proprioception (GO:0019230)|regulation of transcription, DNA-templated (GO:0006355)|sensory neuron axon guidance (GO:0097374)|spinal cord motor neuron differentiation (GO:0021522)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)			large_intestine(1)|lung(5)|skin(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGGCCGGAGCGCGGCGGCGGCGG	0.773																																																0										5,2199		0,5,1097						2.6	0.7			3	12,4672		2,8,2332	no	coding	GBX1	NM_001098834.1		2,13,3429	A1A1,A1R,RR		0.2562,0.2269,0.2468				17,6871				SO:0001651	inframe_deletion	2636			L11239	CCDS43682.1	7q36.1	2012-03-09	2005-12-22		ENSG00000164900	ENSG00000164900		"Homeoboxes / ANTP class : HOXL subclass"	4185	protein-coding gene	gene with protein product		603354	"gastrulation brain homeo box 1"			7903253	Standard	NM_001098834		Approved		uc011kvg.2	Q14549	OTTHUMG00000158751	ENST00000297537.4:c.107_109delCGC	7.37:g.150864536_150864538delGCG	ENSP00000297537:p.Pro36del	Somatic		WXS	Illumina HiSeq	Phase_I		In_Frame_Del	DEL	ENST00000297537.4	37	CCDS43682.1																																																																																				0.773	GBX1-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352029.1			-	150864529	GCG	-	150864527	7	5	608	1	0	1	0	1	0	0	0	0	6287	1087	38	0	989	0	GBX1	7	150864527	In_Frame_Del	DEL	GCG	TCGA-HE-A5NH-01A-11D-A26P-10	19004945	150864527	8274136	36	36843										
MTUS1	57509	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr8	17579357	17579357	+	Intron	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	agtgtagaattgataaagatTtttgaagaaatatcagtttc	8	2	1	5			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr8:17579357T>A	ENST00000262102.6	-	4	2674				MTUS1_ENST00000381861.3_Missense_Mutation_p.K18N|MTUS1_ENST00000519263.1_Intron|MTUS1_ENST00000544260.1_Intron|MTUS1_ENST00000381869.3_Intron	NM_001001924.2	NP_001001924.1	Q9ULD2	MTUS1_HUMAN	microtubule associated tumor suppressor 1						cellular response to peptide hormone stimulus (GO:0071375)|regulation of macrophage chemotaxis (GO:0010758)	extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(1)|central_nervous_system(1)|endometrium(4)|kidney(4)|large_intestine(14)|lung(8)|ovary(1)|skin(2)|urinary_tract(1)	36				Colorectal(111;0.0778)		TGATAAAGATTTTTGAAGAAA	0.428																																																0													86	86	86					8																	17579357		1840	4094	5934	SO:0001627	intron_variant	57509			AL096842	CCDS43716.1, CCDS43717.1, CCDS43718.1, CCDS43719.1, CCDS55204.1	8p22	2013-01-17	2009-10-20		ENSG00000129422	ENSG00000129422			29789	protein-coding gene	gene with protein product	"AT2 receptor-interacting protein", "AT2R binding protein", "mitochondrial tumor suppressor gene 1"	609589	"mitochondrial tumor suppressor 1"			10574462, 12692079	Standard	NM_001001931		Approved	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS	uc003wxv.3	Q9ULD2	OTTHUMG00000163756	ENST00000262102.6:c.2449+1823A>T	8.37:g.17579357T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K135|B2RBJ6|B3KWJ9|B4DH03|B9EGA1|D3DSP8|Q63HJ6|Q659F4|Q6PK49|Q6URW7|Q8N4M6|Q8WTT9|Q9H7T2	Missense_Mutation	SNP	ENST00000262102.6	37	CCDS43717.1	.	.	.	.	.	.	.	.	.	.	T	13.03	2.116072	0.37339	.	.	ENSG00000129422	ENST00000381861	T	0.15487	2.42	5.48	1.4	0.22301	.	.	.	.	.	T	0.07234	0.0183	.	.	.	0.23602	N	0.997312	B	0.09022	0.002	B	0.11329	0.006	T	0.39860	-0.9593	8	0.16896	T	0.51	.	0.4383	0.00482	0.2369:0.2954:0.15:0.3178	.	18	Q9ULD2-6	.	N	18	ENSP00000371285:K18N	ENSP00000371285:K18N	K	-	3	2	MTUS1	17623637	0.479000	0.25925	0.804000	0.32291	0.992000	0.81027	0.640000	0.24705	0.443000	0.26582	0.533000	0.62120	AAA		0.428	MTUS1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000375247.1	XM_372031		A	17579357	T	A	17579357	1	1	608	0	1	0	0	0	0	0	0	0	9972	1838	64	5		5	MTUS1	8	17579357	Intron	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10		17579357	128784665	37	36844										
LPL	4023	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	19811710	19811710	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gatgatgcagattttgtagaCgtcttacacacattcaccag	8	9	2	3	rs118204076		TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr8:19811710C>T	ENST00000311322.8	+	5	1091	c.621C>T	c.(619-621)gaC>gaT	p.D207D		NM_000237.2	NP_000228.1	P06858	LIPL_HUMAN	lipoprotein lipase	207			D -> E (in LPL deficiency). {ECO:0000269|PubMed:8288243}.		chylomicron remodeling (GO:0034371)|fatty acid biosynthetic process (GO:0006633)|lipoprotein metabolic process (GO:0042157)|phospholipid metabolic process (GO:0006644)|phototransduction, visible light (GO:0007603)|positive regulation of cholesterol storage (GO:0010886)|positive regulation of macrophage derived foam cell differentiation (GO:0010744)|positive regulation of sequestering of triglyceride (GO:0010890)|response to cold (GO:0009409)|response to drug (GO:0042493)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)|triglyceride catabolic process (GO:0019433)|triglyceride homeostasis (GO:0070328)|triglyceride metabolic process (GO:0006641)|very-low-density lipoprotein particle remodeling (GO:0034372)	anchored component of membrane (GO:0031225)|cell surface (GO:0009986)|chylomicron (GO:0042627)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)|very-low-density lipoprotein particle (GO:0034361)	apolipoprotein binding (GO:0034185)|heparin binding (GO:0008201)|lipoprotein lipase activity (GO:0004465)|phospholipase activity (GO:0004620)|receptor binding (GO:0005102)|triglyceride binding (GO:0017129)|triglyceride lipase activity (GO:0004806)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(13)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(1)	36				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	AST-120(DB05269)|Tyloxapol(DB06439)	ATTTTGTAGACGTCTTACACA	0.483																																																0			GRCh37	CM930483	LPL	M	rs118204076						139	134	135					8																	19811710		2203	4300	6503	SO:0001819	synonymous_variant	4023				CCDS6012.1	8p22	2012-10-02			ENSG00000175445	ENSG00000175445	3.1.1.34		6677	protein-coding gene	gene with protein product		609708		LIPD			Standard	NM_000237		Approved		uc003wzk.4	P06858	OTTHUMG00000036645	ENST00000311322.8:c.621C>T	8.37:g.19811710C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R5T9|Q16282|Q16283|Q96FC4	Silent	SNP	ENST00000311322.8	37	CCDS6012.1																																																																																				0.483	LPL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089113.3			T	19811710	C	T	19811710	2	4	608	1	0	0	0	0	0	0	0	1	8928	535	19	1		1	LPL	8	19811710	Silent	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	2232353	19811710	126552312	38	36845										
PPP2R2A	5520	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	26211991	26211991	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gttttcattttagaacaaaaTccagtctcatagcagaggag	8	7	2	2	rs373174942		TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr8:26211991T>C	ENST00000380737.3	+	4	517	c.188T>C	c.(187-189)aTc>aCc	p.I63T	PPP2R2A_ENST00000315985.7_Missense_Mutation_p.I73T	NM_002717.3	NP_002708.1	P63151	2ABA_HUMAN	protein phosphatase 2, regulatory subunit B, alpha	63					G2/M transition of mitotic cell cycle (GO:0000086)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope reassembly (GO:0007084)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|protein dephosphorylation (GO:0006470)|regulation of catalytic activity (GO:0050790)|response to morphine (GO:0043278)|RNA metabolic process (GO:0016070)|signal transduction (GO:0007165)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)|protein phosphatase type 2A complex (GO:0000159)	protein phosphatase type 2A regulator activity (GO:0008601)|protein serine/threonine phosphatase activity (GO:0004722)			kidney(1)|large_intestine(2)|ovary(1)	4		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)		TAGAACAAAATCCAGTCTCAT	0.318																																																0								T	THR/ILE,THR/ILE	0,4406		0,0,2203	70	73	72		218,188	4.8	1	8		72	1,8597	1.2+/-3.3	0,1,4298	no	missense,missense	PPP2R2A	NM_001177591.1,NM_002717.3	89,89	0,1,6501	CC,CT,TT		0.0116,0.0,0.0077	,	73/458,63/448	26211991	1,13003	2203	4299	6502	SO:0001583	missense	5520			M64929	CCDS34867.1, CCDS55213.1	8p21.2	2013-01-10	2010-04-14		ENSG00000221914	ENSG00000221914	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatase 2, regulatory subunits", "WD repeat domain containing"	9304	protein-coding gene	gene with protein product	"PP2A subunit B isoform alpha"	604941	"protein phosphatase 2 (formerly 2A), regulatory subunit B (PR 52), alpha isoform", "protein phosphatase 2 (formerly 2A), regulatory subunit B, alpha isoform"			1849734	Standard	NM_001177591		Approved	PR52A, PR55A, B55A		P63151	OTTHUMG00000163850	ENST00000380737.3:c.188T>C	8.37:g.26211991T>C	ENSP00000370113:p.Ile63Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBU8|B4E1T7|P50409|Q00007	Missense_Mutation	SNP	ENST00000380737.3	37	CCDS34867.1	.	.	.	.	.	.	.	.	.	.	T	6.035	0.374882	0.11409	0.0	1.16E-4	ENSG00000221914	ENST00000380737;ENST00000315985	T;T	0.29142	1.59;1.58	5.97	4.84	0.62591	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);	0.287722	0.32204	U	0.006432	T	0.08358	0.0208	N	0.01576	-0.805	0.37304	D	0.908831	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.28522	-1.0041	10	0.09843	T	0.71	-14.6536	2.6676	0.05057	0.0:0.1705:0.291:0.5384	.	73;63	B4E1T7;P63151	.;2ABA_HUMAN	T	63;73	ENSP00000370113:I63T;ENSP00000325074:I73T	ENSP00000325074:I73T	I	+	2	0	PPP2R2A	26267908	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.834000	0.39171	2.285000	0.76669	0.528000	0.53228	ATC		0.318	PPP2R2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375954.2	NM_002717		C	26211991	T	C	26211991	3	2	608	1	0	0	0	0	1	0	0	0	12394	1435	50	3	243	3	PPP2R2A	8	26211991	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	6400281	26211991	120152031	39	36846										
ADAM9	8754	broad.mit.edu	37	chr8	38854664	38854670	+	Frame_Shift_Del	DEL	GGTGCGG	GGTGCGG	-													0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gcctggtgggcccagtcctcGgtgcggcgcggccaggtggg					rs576406930		TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	GGTGCGG	GGTGCGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr8:38854664_38854670delGGTGCGG	ENST00000487273.2	+	1	160_166	c.82_88delGGTGCGG	c.(82-90)ggtgcggcgfs	p.GAA28fs	ADAM9_ENST00000466936.1_Frame_Shift_Del_p.GAA28fs|TM2D2_ENST00000412303.1_5'Flank|TM2D2_ENST00000456397.2_5'Flank|TM2D2_ENST00000522434.1_5'Flank|ADAM9_ENST00000481513.1_Frame_Shift_Del_p.GAA28fs|TM2D2_ENST00000456845.2_5'Flank|TM2D2_ENST00000397070.2_5'Flank	NM_003816.2	NP_003807.1	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9	28				Missing (in Ref. 2; no nucleotide entry). {ECO:0000305}.	activation of MAPKK activity (GO:0000186)|cell adhesion (GO:0007155)|cell adhesion mediated by integrin (GO:0033627)|cell-cell adhesion mediated by integrin (GO:0033631)|cell-matrix adhesion (GO:0007160)|cellular response to lipopolysaccharide (GO:0071222)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|integrin-mediated signaling pathway (GO:0007229)|keratinocyte differentiation (GO:0030216)|membrane protein ectodomain proteolysis (GO:0006509)|monocyte activation (GO:0042117)|PMA-inducible membrane protein ectodomain proteolysis (GO:0051088)|positive regulation of cell adhesion mediated by integrin (GO:0033630)|positive regulation of keratinocyte migration (GO:0051549)|positive regulation of macrophage fusion (GO:0034241)|positive regulation of membrane protein ectodomain proteolysis (GO:0051044)|positive regulation of protein secretion (GO:0050714)|response to calcium ion (GO:0051592)|response to glucocorticoid (GO:0051384)|response to hydrogen peroxide (GO:0042542)|response to laminar fluid shear stress (GO:0034616)|response to manganese ion (GO:0010042)|response to tumor necrosis factor (GO:0034612)|transforming growth factor beta receptor signaling pathway (GO:0007179)	basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|intrinsic component of external side of plasma membrane (GO:0031233)	collagen binding (GO:0005518)|integrin binding (GO:0005178)|laminin binding (GO:0043236)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|protein kinase C binding (GO:0005080)|SH3 domain binding (GO:0017124)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(5)|lung(14)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	31		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			CCCAGTCCTCGGTGCGGCGCGGCCAGG	0.715																																																0																																										SO:0001589	frameshift_variant	8754			U41766	CCDS6112.1	8p11.23	2011-03-18	2010-06-24		ENSG00000168615	ENSG00000168615		"ADAM metallopeptidase domain containing"	216	protein-coding gene	gene with protein product	"meltrin gamma"	602713	"a disintegrin and metalloproteinase domain 9 (meltrin gamma)", "cone rod dystrophy 9"	CORD9		8647900, 11581183, 19409519	Standard	NR_027638		Approved	MDC9, KIAA0021, MCMP, Mltng	uc003xmr.3	Q13443	OTTHUMG00000159783	ENST00000487273.2:c.82_88delGGTGCGG	8.37:g.38854664_38854670delGGTGCGG	ENSP00000419446:p.Gly28fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLN7|Q10718|Q8NFM6	Frame_Shift_Del	DEL	ENST00000487273.2	37	CCDS6112.1																																																																																				0.715	ADAM9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357291.2			-	38854670	GGTGCGG	-	38854664	7	5	608	1	0	1	0	1	0	0	0	0	253	1116	39	0	84	0	ADAM9	8	38854664	Frame_Shift_Del	DEL	GGTGCGG	TCGA-HE-A5NH-01A-11D-A26P-10	12642673	38854664	107509358	40	36847										
ASPH	444	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	62460750	62460750	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	tgtcctctcttgtgcccaagCtcataccacttatatgcctg	6	14	2	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr8:62460750C>T	ENST00000379454.4	-	21	1831	c.1644G>A	c.(1642-1644)gaG>gaA	p.E548E	ASPH_ENST00000541428.1_Silent_p.E519E	NM_004318.3	NP_004309.2	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase	548					activation of cysteine-type endopeptidase activity (GO:0097202)|activation of store-operated calcium channel activity (GO:0032237)|calcium ion transmembrane transport (GO:0070588)|cellular response to calcium ion (GO:0071277)|detection of calcium ion (GO:0005513)|face morphogenesis (GO:0060325)|limb morphogenesis (GO:0035108)|muscle contraction (GO:0006936)|negative regulation of cell proliferation (GO:0008285)|palate development (GO:0060021)|pattern specification process (GO:0007389)|peptidyl-aspartic acid hydroxylation (GO:0042264)|positive regulation of calcium ion transport into cytosol (GO:0010524)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of proteolysis (GO:0045862)|positive regulation of ryanodine-sensitive calcium-release channel activity (GO:0060316)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of cell communication by electrical coupling (GO:0010649)|regulation of inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0031585)|regulation of protein depolymerization (GO:1901879)|regulation of protein stability (GO:0031647)|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0010880)|regulation of ryanodine-sensitive calcium-release channel activity (GO:0060314)|response to ATP (GO:0033198)	calcium channel complex (GO:0034704)|cortical endoplasmic reticulum (GO:0032541)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of endoplasmic reticulum membrane (GO:0030176)|integral component of membrane (GO:0016021)|junctional sarcoplasmic reticulum membrane (GO:0014701)|plasma membrane (GO:0005886)|sarcoplasmic reticulum lumen (GO:0033018)|sarcoplasmic reticulum membrane (GO:0033017)	calcium ion binding (GO:0005509)|electron carrier activity (GO:0009055)|ion channel binding (GO:0044325)|peptide-aspartate beta-dioxygenase activity (GO:0004597)|structural constituent of muscle (GO:0008307)|structural molecule activity (GO:0005198)	p.E548E(1)		breast(1)|cervix(1)|endometrium(5)|large_intestine(5)|lung(16)|ovary(4)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	35	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)	TGTGCCCAAGCTCATACCACT	0.403																																																1	Substitution - coding silent(1)	large_intestine(1)											119	102	108					8																	62460750		2203	4300	6503	SO:0001819	synonymous_variant	444			AF224468	CCDS34898.1, CCDS34899.1, CCDS34900.1, CCDS43742.1, CCDS47866.1, CCDS55234.1, CCDS55235.1, CCDS55236.1, CCDS55237.1, CCDS55238.1, CCDS75746.1	8q12.1	2008-02-05			ENSG00000198363	ENSG00000198363	1.14.11.16		757	protein-coding gene	gene with protein product	"junctin", "humbug", "junctate"	600582				7821814, 10974562	Standard	NM_004318		Approved	CASQ2BP1, BAH, JCTN, HAAH	uc003xuj.3	Q12797	OTTHUMG00000164375	ENST00000379454.4:c.1644G>A	8.37:g.62460750C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NDF4|A6NHI2|B4DIC9|B4E2K4|B7ZM95|E5RGP5|F5H667|Q6NXR7|Q8TB28|Q9H291|Q9H2C4|Q9NRI0|Q9NRI1|Q9Y4J0	Silent	SNP	ENST00000379454.4	37	CCDS34898.1																																																																																				0.403	ASPH-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000378510.3	NM_004318		T	62460750	C	T	62460750	2	4	608	1	0	0	0	0	0	0	0	1	1053	796	28	2		2	ASPH	8	62460750	Silent	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	23606086	62460750	83903272	41	36848										
TRAPPC9	83696	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	141301159	141301159	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gctgaacttcacacacatctCcttgaacccactggaaatct	5	14	3	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr8:141301159C>G	ENST00000438773.2	-	12	1920	c.1787G>C	c.(1786-1788)gGa>gCa	p.G596A	TRAPPC9_ENST00000389328.4_Missense_Mutation_p.G694A|TRAPPC9_ENST00000389327.3_Missense_Mutation_p.G587A	NM_001160372.1	NP_001153844.1	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9	596					cell differentiation (GO:0030154)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)				breast(4)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|liver(1)|lung(16)|ovary(2)|prostate(1)|skin(4)|upper_aerodigestive_tract(3)	47						ACACACATCTCCTTGAACCCA	0.368																																																0													158	138	145					8																	141301159		2203	4300	6503	SO:0001583	missense	83696			BC006206	CCDS34946.1, CCDS55278.1	8q24.3	2010-10-22			ENSG00000167632	ENSG00000167632		"Trafficking protein particle complex"	30832	protein-coding gene	gene with protein product	"TRAPP 120 kDa subunit", "tularik gene 1"	611966				11572484	Standard	NM_031466		Approved	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13	uc003yvh.2	Q96Q05	OTTHUMG00000164187	ENST00000438773.2:c.1787G>C	8.37:g.141301159C>G	ENSP00000405060:p.Gly596Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VTT3|Q658K7|Q6P149|Q6ZQT3|Q7L5C4|Q86Y21|Q96SL2|Q9BQA2	Missense_Mutation	SNP	ENST00000438773.2	37	CCDS55278.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	23.9|23.9	4.474358|4.474358	0.84640|0.84640	.|.	.|.	ENSG00000167632|ENSG00000167632	ENST00000389328;ENST00000389327;ENST00000438773|ENST00000520857	.|.	.|.	.|.	5.28|5.28	5.28|5.28	0.74379|0.74379	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.73598|0.73598	0.3607|0.3607	M|M	0.63843|0.63843	1.955|1.955	0.58432|0.58432	D|D	0.999994|0.999994	D;D;D;D|.	0.71674|.	0.998;0.998;0.996;0.998|.	D;D;D;D|.	0.73708|.	0.977;0.964;0.919;0.981|.	T|T	0.71856|0.71856	-0.4466|-0.4466	9|5	0.72032|.	D|.	0.01|.	.|.	18.9153|18.9153	0.92503|0.92503	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	694;596;587;694|.	A6NIF0;Q96Q05;Q96Q05-3;Q96Q05-2|.	.;TPPC9_HUMAN;.;.|.	A|S	694;587;596|439	.|.	ENSP00000373978:G587A|.	G|R	-|-	2|3	0|2	TRAPPC9|TRAPPC9	141370341|141370341	1.000000|1.000000	0.71417|0.71417	0.997000|0.997000	0.53966|0.53966	0.995000|0.995000	0.86356|0.86356	4.423000|4.423000	0.59861|0.59861	2.484000|2.484000	0.83849|0.83849	0.561000|0.561000	0.74099|0.74099	GGA|AGG		0.368	TRAPPC9-002	PUTATIVE	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000377749.1	NM_031466		G	141301159	C	G	141301159	3	3	608	1	0	0	0	0	1	0	0	0	16477	855	30	4	1707	4	TRAPPC9	8	141301159	Missense_Mutation	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	78840409	141301159	5062863	42	36849										
LRRC14	9684	broad.mit.edu	37	chr8	145745730	145745730	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	actgctgccgtagctcgcacAtgcattgcccagcagcaggg	12	14	0	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr8:145745730A>G	ENST00000292524.1	+	3	584	c.438A>G	c.(436-438)acA>acG	p.T146T	LRRC14_ENST00000529022.1_Silent_p.T146T|RECQL4_ENST00000428558.2_5'Flank|RECQL4_ENST00000532237.1_5'Flank	NM_001272036.1|NM_014665.2	NP_001258965.1|NP_055480.1	Q15048	LRC14_HUMAN	leucine rich repeat containing 14	146										endometrium(1)|lung(3)|prostate(1)	5	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			TAGCTCGCACATGCATTGCCC	0.662																																																0													71	75	74					8																	145745730		2203	4300	6503	SO:0001819	synonymous_variant	9684			BC011377	CCDS6432.1	8q24.3	2012-08-20			ENSG00000160959	ENSG00000160959			20419	protein-coding gene	gene with protein product						7584026	Standard	NM_001272036		Approved	KIAA0014, LRRC14A	uc003zdk.3	Q15048	OTTHUMG00000165179	ENST00000292524.1:c.438A>G	8.37:g.145745730A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0A8|D3DWM8	Silent	SNP	ENST00000292524.1	37	CCDS6432.1																																																																																				0.662	LRRC14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382494.1	NM_014665		G	145745730	A	G	145745730	2	3	608	1	0	0	0	0	0	0	0	1	8975	204	8	3		3	LRRC14	8	145745730	Silent	SNP	A	TCGA-HE-A5NH-01A-11D-A26P-10	4444571	145745730	618292	43	36850										
FOXD4L3	286380	hgsc.bcm.edu;broad.mit.edu	37	chr9	70919081	70919082	+	Frame_Shift_Del	DEL	GG	GG	-													0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	tgcgctcccaccaagggcgcGgtgctgggcgggcacctgtc							TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr9:70919081_70919082delGG	ENST00000342833.2	+	1	1806_1807	c.1214_1215delGG	c.(1213-1215)cggfs	p.R405fs		NM_199135.4	NP_954586.4	Q6VB84	FX4L3_HUMAN	forkhead box D4-like 3	405						nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			ovary(1)	1				all cancers(8;0.00136)|Epithelial(8;0.0288)|GBM - Glioblastoma multiforme(74;0.0402)|OV - Ovarian serous cystadenocarcinoma(323;0.18)		CCAAGGGCGCGGTGCTGGGCGG	0.668																																																0																																										SO:0001589	frameshift_variant	286380			AY344642	CCDS43833.1	9q13	2008-05-13				ENSG00000187559			18523	protein-coding gene	gene with protein product		611086				12421752	Standard	NM_199135		Approved	OTTHUMG00000019959, FOXD6	uc004agm.1	Q6VB84	OTTHUMG00000019959	ENST00000342833.2:c.1214_1215delGG	9.37:g.70919081_70919082delGG	ENSP00000341961:p.Arg405fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JTX9	Frame_Shift_Del	DEL	ENST00000342833.2	37	CCDS43833.1																																																																																				0.668	FOXD4L3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052539.2	NM_199358		-	70919082	GG	-	70919081	7	5	608	1	0	1	0	1	0	0	0	0	6008	1116	39	0	1216	0	FOXD4L3	9	70919081	Frame_Shift_Del	DEL	GG	TCGA-HE-A5NH-01A-11D-A26P-10		70919081	70294350	44	36851										
ODF2	4957	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	131256869	131256869	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	atcacggaggcgaagctggcTgagtgccaagaccaactgca	13	11	1	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr9:131256869T>C	ENST00000434106.3	+	17	2196	c.1833T>C	c.(1831-1833)gcT>gcC	p.A611A	ODF2_ENST00000372807.5_Silent_p.A606A|ODF2_ENST00000393527.3_Silent_p.A587A|ODF2_ENST00000372791.3_Silent_p.A592A|ODF2_ENST00000393533.2_Silent_p.A611A|ODF2_ENST00000604420.1_Silent_p.A611A|ODF2_ENST00000546203.1_Silent_p.A592A|ODF2_ENST00000372814.3_Silent_p.A655A|ODF2_ENST00000444119.2_Silent_p.A587A|ODF2_ENST00000448249.3_Silent_p.A530A|ODF2_ENST00000351030.3_Silent_p.A606A	NM_153433.1	NP_702911.1	Q5BJF6	ODFP2_HUMAN	outer dense fiber of sperm tails 2	611					G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|multicellular organismal development (GO:0007275)|regulation of cilium assembly (GO:1902017)|spermatid development (GO:0007286)	centriole (GO:0005814)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytosol (GO:0005829)|microtubule (GO:0005874)|nucleus (GO:0005634)|outer dense fiber (GO:0001520)|primary cilium (GO:0072372)	Rab GTPase binding (GO:0017137)|structural molecule activity (GO:0005198)			autonomic_ganglia(1)|breast(7)|cervix(1)|endometrium(4)|kidney(5)|large_intestine(7)|lung(8)|ovary(1)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	37						CGAAGCTGGCTGAGTGCCAAG	0.572																																																0													74	64	68					9																	131256869		2203	4300	6503	SO:0001819	synonymous_variant	4957			AF012549	CCDS6902.1, CCDS56585.1, CCDS56586.1, CCDS56587.1, CCDS56588.1, CCDS56589.1, CCDS56590.1	9q34	2010-04-23	2002-10-21		ENSG00000136811	ENSG00000136811			8114	protein-coding gene	gene with protein product	"cancer/testis antigen 134"	602015	"outer dense fibre of sperm tails 2"			9045620, 10072582	Standard	NM_153435		Approved	ODF84, CT134	uc004bvc.3	Q5BJF6	OTTHUMG00000020748	ENST00000434106.3:c.1833T>C	9.37:g.131256869T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B1AND3|B4DRK4|B4DX73|B4DZ02|E7EWL2|F5H6J4|O14721|O60631|Q1W2J6|Q6UN26|Q7Z5I6|Q96FN2	Silent	SNP	ENST00000434106.3	37	CCDS56588.1																																																																																				0.572	ODF2-011	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000054449.3			C	131256869	T	C	131256869	2	2	608	1	0	0	0	0	0	0	0	1	10834	1567	55	3		3	ODF2	9	131256869	Silent	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	60337788	131256869	9956562	45	36852										
NUP214	8021	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	134019825	134019825	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	cccccactgtgttctcctttGgttcttcatctttgaagtca	6	13	5	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr9:134019825G>C	ENST00000359428.5	+	12	1597	c.1453G>C	c.(1453-1455)Ggt>Cgt	p.G485R	RP11-544A12.4_ENST00000587264.1_RNA|NUP214_ENST00000451030.1_Missense_Mutation_p.G485R|RP11-544A12.4_ENST00000589540.1_RNA|RP11-544A12.4_ENST00000587408.1_RNA|RP11-544A12.4_ENST00000586290.1_RNA|NUP214_ENST00000411637.2_Missense_Mutation_p.G485R|RP11-544A12.4_ENST00000588378.1_RNA|RP11-544A12.4_ENST00000415391.2_RNA|RP11-544A12.4_ENST00000589667.1_RNA|RP11-544A12.4_ENST00000590461.1_RNA			P35658	NU214_HUMAN	nucleoporin 214kDa	485	11 X 5 AA approximate repeats.				carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|gene expression (GO:0010467)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA export from nucleus (GO:0006406)|mRNA metabolic process (GO:0016071)|protein export from nucleus (GO:0006611)|protein import into nucleus (GO:0006606)|regulation of cell cycle (GO:0051726)|regulation of glucose transport (GO:0010827)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytosol (GO:0005829)|focal adhesion (GO:0005925)|intracellular membrane-bounded organelle (GO:0043231)|nuclear pore (GO:0005643)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleocytoplasmic transporter activity (GO:0005487)|transporter activity (GO:0005215)			NS(1)|breast(9)|central_nervous_system(3)|endometrium(13)|kidney(2)|large_intestine(9)|liver(2)|lung(29)|ovary(2)|prostate(3)|skin(7)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	86	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		GTTCTCCTTTGGTTCTTCATC	0.577			T	"DEK, SET, ABL1"	"AML, T-ALL"																																Pancreas(4;24 48 25510 30394 32571)		Dom	yes		9	9q34.1	8021	nucleoporin 214kDa (CAN)		L	0													217	219	218					9																	134019825		2203	4300	6503	SO:0001583	missense	8021			X64228	CCDS6940.1	9q34	2008-07-21	2002-08-29		ENSG00000126883	ENSG00000126883			8064	protein-coding gene	gene with protein product	"nuclear pore complex protein Nup214", "CAN protein, putative oncogene"	114350	"nucleoporin 214kD (CAIN)"			8108440, 2370860	Standard	NM_005085		Approved	CAIN, CAN, D9S46E, N214	uc004cag.3	P35658	OTTHUMG00000020816	ENST00000359428.5:c.1453G>C	9.37:g.134019825G>C	ENSP00000352400:p.Gly485Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFQ0|Q15010|Q3KQZ0|Q5JUP7|Q75R47|Q86XD3	Missense_Mutation	SNP	ENST00000359428.5	37	CCDS6940.1	.	.	.	.	.	.	.	.	.	.	G	19.62	3.861397	0.71949	.	.	ENSG00000126883	ENST00000359428;ENST00000411637;ENST00000451030;ENST00000541375;ENST00000540899	T;T;T	0.80738	-1.41;-1.41;-1.41	5.79	5.79	0.91817	.	0.000000	0.41823	D	0.000813	T	0.72170	0.3427	N	0.08118	0	0.28472	N	0.915369	D;D	0.57571	0.98;0.98	P;P	0.56700	0.804;0.804	T	0.64672	-0.6352	10	0.20046	T	0.44	-17.3717	10.2889	0.43584	0.093:0.0:0.907:0.0	.	485;485	P35658-4;P35658	.;NU214_HUMAN	R	485;485;485;485;78	ENSP00000352400:G485R;ENSP00000396576:G485R;ENSP00000405014:G485R	ENSP00000352400:G485R	G	+	1	0	NUP214	133009646	0.876000	0.30132	1.000000	0.80357	0.916000	0.54674	1.801000	0.38843	2.726000	0.93360	0.655000	0.94253	GGT		0.577	NUP214-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000054694.2	NM_005085		C	134019825	G	C	134019825	3	2	608	1	0	0	0	0	1	0	0	0	10769	1348	47	4	1499	4	NUP214	9	134019825	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10	2762956	134019825	7193606	46	36853										
CUBN	8029	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	16941145	16941145	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	tgaggccagtgaggggatctGattgtaccattatcagaatg	13	6	2	4			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr10:16941145G>C	ENST00000377833.4	-	54	8513	c.8448C>G	c.(8446-8448)atC>atG	p.I2816M		NM_001081.3	NP_001072.2	O60494	CUBN_HUMAN	cubilin (intrinsic factor-cobalamin receptor)	2816	CUB 21. {ECO:0000255|PROSITE- ProRule:PRU00059}.				cholesterol metabolic process (GO:0008203)|cobalamin metabolic process (GO:0009235)|cobalamin transport (GO:0015889)|lipoprotein metabolic process (GO:0042157)|lipoprotein transport (GO:0042953)|receptor-mediated endocytosis (GO:0006898)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|tissue homeostasis (GO:0001894)|vitamin D metabolic process (GO:0042359)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|coated pit (GO:0005905)|cytosol (GO:0005829)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|extrinsic component of external side of plasma membrane (GO:0031232)|Golgi apparatus (GO:0005794)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|cobalamin binding (GO:0031419)|protein homodimerization activity (GO:0042803)|receptor activity (GO:0004872)|transporter activity (GO:0005215)			breast(8)|central_nervous_system(4)|cervix(1)|endometrium(18)|haematopoietic_and_lymphoid_tissue(3)|kidney(12)|large_intestine(42)|liver(1)|lung(107)|ovary(9)|pancreas(2)|prostate(3)|skin(9)|stomach(3)|upper_aerodigestive_tract(11)|urinary_tract(8)	241					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GAGGGGATCTGATTGTACCAT	0.403																																																0													118	112	114					10																	16941145		2203	4300	6503	SO:0001583	missense	8029			AF034611	CCDS7113.1	10p12	2014-09-17			ENSG00000107611	ENSG00000107611			2548	protein-coding gene	gene with protein product		602997		MGA1		9572993, 9478979	Standard	NM_001081		Approved	IFCR, gp280	uc001ioo.3	O60494	OTTHUMG00000017741	ENST00000377833.4:c.8448C>G	10.37:g.16941145G>C	ENSP00000367064:p.Ile2816Met	Somatic		WXS	Illumina HiSeq	Phase_I	B0YIZ4|Q5VTA6|Q96RU9	Missense_Mutation	SNP	ENST00000377833.4	37	CCDS7113.1	.	.	.	.	.	.	.	.	.	.	G	9.641	1.139005	0.21123	.	.	ENSG00000107611	ENST00000377833	T	0.40476	1.03	5.63	0.557	0.17260	CUB (5);	0.137522	0.33057	N	0.005332	T	0.64494	0.2603	M	0.93150	3.385	0.80722	D	1	D	0.60160	0.987	P	0.62298	0.9	T	0.64782	-0.6326	10	0.66056	D	0.02	.	7.5405	0.27735	0.1201:0.0:0.4925:0.3874	.	2816	O60494	CUBN_HUMAN	M	2816	ENSP00000367064:I2816M	ENSP00000367064:I2816M	I	-	3	3	CUBN	16981151	1.000000	0.71417	0.001000	0.08648	0.014000	0.08584	3.071000	0.50041	-0.070000	0.12908	-0.940000	0.02684	ATC		0.403	CUBN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047009.1	NM_001081		C	16941145	G	C	16941145	3	2	608	1	0	0	0	0	1	0	0	0	4053	1280	45	4	2479	4	CUBN	10	16941145	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10		16941145	118593602	47	36854										
JMJD1C	221037	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	64974605	64974605	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	tctctgcttcttcatgttttTtatcttcctgtatttgatcc	4	10	4	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr10:64974605T>G	ENST00000399262.2	-	8	1540	c.1322A>C	c.(1321-1323)aAa>aCa	p.K441T	JMJD1C_ENST00000399251.1_Missense_Mutation_p.K222T|JMJD1C_ENST00000542921.1_Missense_Mutation_p.K259T|JMJD1C_ENST00000489372.2_5'Flank|JMJD1C_ENST00000402544.1_Missense_Mutation_p.K222T	NM_032776.1	NP_116165.1	Q15652	JHD2C_HUMAN	jumonji domain containing 1C	441					blood coagulation (GO:0007596)|chromatin modification (GO:0016568)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	intracellular (GO:0005622)|nucleoplasm (GO:0005654)	dioxygenase activity (GO:0051213)|metal ion binding (GO:0046872)|thyroid hormone receptor binding (GO:0046966)			breast(2)|central_nervous_system(2)|cervix(1)|endometrium(8)|kidney(8)|large_intestine(9)|lung(27)|ovary(6)|prostate(4)|skin(4)|stomach(3)|upper_aerodigestive_tract(3)	77	Prostate(12;0.0119)|all_hematologic(501;0.191)					TTCATGTTTTTTATCTTCCTG	0.388																																																0													148	131	136					10																	64974605		1826	4079	5905	SO:0001583	missense	221037			L40411	CCDS41532.1, CCDS60538.1	10q22.1	2011-05-25	2004-03-31	2004-04-01	ENSG00000171988	ENSG00000171988			12313	protein-coding gene	gene with protein product		604503	"thyroid hormone receptor interactor 8"	TRIP8		7776974	Standard	XM_005269624		Approved	DKFZp761F0118, KIAA1380, FLJ14374	uc001jmn.3	Q15652	OTTHUMG00000018311	ENST00000399262.2:c.1322A>C	10.37:g.64974605T>G	ENSP00000382204:p.Lys441Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A0T124|Q5SQZ8|Q5SQZ9|Q5SR00|Q7Z3E7|Q8N3U0|Q96KB9|Q9P2G7	Missense_Mutation	SNP	ENST00000399262.2	37	CCDS41532.1	.	.	.	.	.	.	.	.	.	.	T	17.31	3.356618	0.61293	.	.	ENSG00000171988	ENST00000399262;ENST00000402544;ENST00000399251;ENST00000542921	T;T;T;T	0.55930	0.84;0.49;2.4;0.84	5.85	4.71	0.59529	.	0.256048	0.33290	U	0.005078	T	0.44159	0.1280	L	0.51422	1.61	0.44012	D	0.99672	P;P	0.39282	0.666;0.666	B;B	0.33339	0.162;0.115	T	0.51631	-0.8681	10	0.62326	D	0.03	-15.2085	12.0787	0.53659	0.0:0.0679:0.0:0.9321	.	441;259	Q15652;A0T124	JHD2C_HUMAN;.	T	441;222;222;259	ENSP00000382204:K441T;ENSP00000384990:K222T;ENSP00000382195:K222T;ENSP00000444682:K259T	ENSP00000382195:K222T	K	-	2	0	JMJD1C	64644611	1.000000	0.71417	0.998000	0.56505	0.987000	0.75469	2.933000	0.48948	2.237000	0.73441	0.459000	0.35465	AAA		0.388	JMJD1C-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048249.2	NM_004241		G	64974605	T	G	64974605	3	3	608	1	0	0	0	0	1	0	0	0	7957	1841	64	5	6376	5	JMJD1C	10	64974605	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	48033460	64974605	70560142	48	36855										
LDB1	8861	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	103871028	103871028	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	cttacccaatccctggctccAggtatgtaggcggatacatg	10	12	0	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr10:103871028A>G	ENST00000425280.1	-	3	500	c.158T>C	c.(157-159)cTg>cCg	p.L53P	LDB1_ENST00000361198.5_Missense_Mutation_p.L17P|LDB1_ENST00000490751.1_5'UTR	NM_001113407.1	NP_001106878.1	Q86U70	LDB1_HUMAN	LIM domain binding 1	53					anterior/posterior axis specification (GO:0009948)|cellular component assembly (GO:0022607)|cerebellar Purkinje cell differentiation (GO:0021702)|epithelial structure maintenance (GO:0010669)|gastrulation with mouth forming second (GO:0001702)|hair follicle development (GO:0001942)|head development (GO:0060322)|histone H3-K4 acetylation (GO:0043973)|multicellular organismal development (GO:0007275)|negative regulation of erythrocyte differentiation (GO:0045647)|negative regulation of transcription, DNA-templated (GO:0045892)|neuron differentiation (GO:0030182)|positive regulation of cell adhesion (GO:0045785)|positive regulation of hemoglobin biosynthetic process (GO:0046985)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of DNA-templated transcription, elongation (GO:0032784)|regulation of transcription, DNA-templated (GO:0006355)|somatic stem cell maintenance (GO:0035019)|transcription from RNA polymerase II promoter (GO:0006366)|transcription, DNA-templated (GO:0006351)|transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery (GO:0000972)|Wnt signaling pathway (GO:0016055)	nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|protein complex (GO:0043234)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|enhancer sequence-specific DNA binding (GO:0001158)|enzyme binding (GO:0019899)|LIM domain binding (GO:0030274)|protein homodimerization activity (GO:0042803)|RNA polymerase II activating transcription factor binding (GO:0001102)|transcription corepressor activity (GO:0003714)			breast(1)|central_nervous_system(4)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(5)|prostate(1)|skin(1)	21		Colorectal(252;0.122)		Epithelial(162;1.11e-07)|all cancers(201;1.82e-06)		CCCTGGCTCCAGGTATGTAGG	0.577																																																0													98	98	98					10																	103871028		2203	4300	6503	SO:0001583	missense	8861			AF068652	CCDS7528.1, CCDS44472.1	10q24-q25	2008-08-01			ENSG00000198728	ENSG00000198728			6532	protein-coding gene	gene with protein product	"carboxy terminal LIM domain protein 2"	603451				9503020, 9799849	Standard	NM_003893		Approved	NLI, CLIM2	uc009xwz.3	Q86U70	OTTHUMG00000018950	ENST00000425280.1:c.158T>C	10.37:g.103871028A>G	ENSP00000392466:p.Leu53Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DUC4|O75479|O96010|Q1EQX1|Q9UGM4	Missense_Mutation	SNP	ENST00000425280.1	37	CCDS44472.1	.	.	.	.	.	.	.	.	.	.	A	16.53	3.149912	0.57151	.	.	ENSG00000198728	ENST00000361198;ENST00000425280	.	.	.	5.73	5.73	0.89815	.	0.148563	0.46442	D	0.000281	T	0.39733	0.1089	N	0.19112	0.55	0.80722	D	1	P;B	0.48407	0.91;0.0	B;B	0.41135	0.348;0.001	T	0.26503	-1.0101	9	0.31617	T	0.26	-13.3126	15.6898	0.77442	1.0:0.0:0.0:0.0	.	53;17	Q86U70;Q86U70-3	LDB1_HUMAN;.	P	17;53	.	ENSP00000354616:L17P	L	-	2	0	LDB1	103861018	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	7.008000	0.76341	2.199000	0.70637	0.459000	0.35465	CTG		0.577	LDB1-201	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_001113407		G	103871028	A	G	103871028	3	3	608	1	0	0	0	0	1	0	0	0	8702	188	7	3	1113	3	LDB1	10	103871028	Missense_Mutation	SNP	A	TCGA-HE-A5NH-01A-11D-A26P-10	38896423	103871028	31663719	49	36856										
FAM53B	9679	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	126311947	126311947	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	cgtccagggcgcagctgtctGactcctcacaggacaggtcc	12	15	2	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr10:126311947G>A	ENST00000337318.3	-	5	1344	c.1133C>T	c.(1132-1134)tCa>tTa	p.S378L	RP11-12J10.3_ENST00000494792.1_Intron|FAM53B_ENST00000392754.3_Missense_Mutation_p.S378L	NM_014661.3	NP_055476.3	Q14153	FA53B_HUMAN	family with sequence similarity 53, member B	378										cervix(1)|lung(5)|ovary(2)|pancreas(1)	9		all_lung(145;0.0191)|Lung NSC(174;0.0301)|Colorectal(57;0.106)|all_neural(114;0.117)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.15)		GCAGCTGTCTGACTCCTCACA	0.711																																																0													21	22	21					10																	126311947		2200	4294	6494	SO:0001583	missense	9679			D50930	CCDS7641.1	10q26.13	2004-11-24	2004-11-24	2004-11-24	ENSG00000189319	ENSG00000189319			28968	protein-coding gene	gene with protein product			"KIAA0140"	KIAA0140		8590280	Standard	NM_014661		Approved	bA12J10.2	uc001lhv.1	Q14153	OTTHUMG00000019215	ENST00000337318.3:c.1133C>T	10.37:g.126311947G>A	ENSP00000338532:p.Ser378Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRF1|Q5VUW1|Q5VUW2|Q8N5S6	Missense_Mutation	SNP	ENST00000337318.3	37	CCDS7641.1	.	.	.	.	.	.	.	.	.	.	G	11.60	1.688447	0.29962	.	.	ENSG00000189319	ENST00000337318;ENST00000392754	.	.	.	4.78	3.86	0.44501	.	0.743799	0.11858	N	0.522697	T	0.30978	0.0782	L	0.34521	1.04	0.19945	N	0.999948	B	0.26809	0.16	B	0.31337	0.128	T	0.21793	-1.0235	9	0.06365	T	0.9	-7.9821	11.3285	0.49463	0.0:0.0:0.6724:0.3276	.	378	Q14153	FA53B_HUMAN	L	378	.	ENSP00000338532:S378L	S	-	2	0	FAM53B	126301937	0.742000	0.28228	0.299000	0.25016	0.686000	0.39977	2.551000	0.45820	1.213000	0.43380	0.655000	0.94253	TCA		0.711	FAM53B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050879.1	NM_014661		A	126311947	G	A	126311947	3	1	608	1	0	0	0	0	1	0	0	0	5587	1294	45	2	139	2	FAM53B	10	126311947	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10	22440919	126311947	9222800	50	36857										
ADAM12	8038	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	127806755	127806755	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	tggttgcacttttcattggtTctaagacatagctttcattt	7	7	3	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr10:127806755T>G	ENST00000368679.4	-	6	773	c.464A>C	c.(463-465)gAa>gCa	p.E155A	ADAM12_ENST00000368676.4_Missense_Mutation_p.E155A	NM_003474.4	NP_003465.3	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12	155					cell adhesion (GO:0007155)|epidermal growth factor receptor signaling pathway (GO:0007173)|myoblast fusion (GO:0007520)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|SH3 domain binding (GO:0017124)|zinc ion binding (GO:0008270)			biliary_tract(1)|breast(7)|central_nervous_system(4)|endometrium(5)|kidney(3)|large_intestine(11)|liver(1)|lung(24)|ovary(2)|prostate(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	69		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		TTTCATTGGTTCTAAGACATA	0.383																																																0													114	99	104					10																	127806755		2203	4300	6503	SO:0001583	missense	8038			AF023476	CCDS7653.1, CCDS7654.1	10q26	2008-07-29	2008-07-29		ENSG00000148848	ENSG00000148848		"ADAM metallopeptidase domain containing"	190	protein-coding gene	gene with protein product	"meltrin alpha"	602714	"a disintegrin and metalloproteinase domain 12 (meltrin alpha)"			9417060, 18342566	Standard	NM_003474		Approved	MCMPMltna, MLTN	uc001ljk.2	O43184	OTTHUMG00000019243	ENST00000368679.4:c.464A>C	10.37:g.127806755T>G	ENSP00000357668:p.Glu155Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O60470|Q5JRP0|Q5JRP1|Q6P9E3|Q6UWB0	Missense_Mutation	SNP	ENST00000368679.4	37	CCDS7653.1	.	.	.	.	.	.	.	.	.	.	T	18.64	3.666850	0.67814	.	.	ENSG00000148848	ENST00000368679;ENST00000368676;ENST00000448723	T;T;T	0.10288	2.89;2.89;2.89	5.03	5.03	0.67393	Peptidase M12B, propeptide (1);	0.000000	0.85682	D	0.000000	T	0.40767	0.1130	M	0.91140	3.18	0.52501	D	0.999957	D;D;D;D;D	0.89917	0.999;0.999;0.999;0.999;1.0	D;D;D;D;D	0.97110	0.999;0.998;0.998;0.998;1.0	T	0.50931	-0.8769	10	0.87932	D	0	.	13.1591	0.59535	0.0:0.0:0.0:1.0	.	152;152;155;152;155	A8K6G4;O43184-3;O43184-2;O43184-4;O43184	.;.;.;.;ADA12_HUMAN	A	155;155;152	ENSP00000357668:E155A;ENSP00000357665:E155A;ENSP00000391268:E152A	ENSP00000357665:E155A	E	-	2	0	ADAM12	127796745	0.999000	0.42202	0.598000	0.28837	0.711000	0.40976	2.805000	0.47939	2.118000	0.64928	0.533000	0.62120	GAA		0.383	ADAM12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050961.1			G	127806755	T	G	127806755	3	3	608	1	0	0	0	0	1	0	0	0	236	1783	62	5	2445	5	ADAM12	10	127806755	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	1494808	127806755	7727992	51	36858										
TRPM5	29850	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	2428360	2428360	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	cggcctcacccaggtgctccCgcttgtgctcagcctccttc	9	19	2	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr11:2428360C>T	ENST00000155858.6	-	20	3115	c.3107G>A	c.(3106-3108)cGg>cAg	p.R1036Q	TRPM5_ENST00000528453.1_Missense_Mutation_p.R1036Q|TRPM5_ENST00000452833.1_Missense_Mutation_p.R1038Q|AC124057.5_ENST00000433035.1_RNA|TRPM5_ENST00000533060.1_Missense_Mutation_p.R1036Q	NM_014555.3	NP_055370.1			transient receptor potential cation channel, subfamily M, member 5											breast(1)|central_nervous_system(1)|endometrium(4)|liver(1)|lung(8)|ovary(2)|prostate(2)|skin(2)|urinary_tract(2)	23		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)		CAGGTGCTCCCGCTTGTGCTC	0.706																																					NSCLC(1;49 61 17205 18850 43201)											0													26	25	26					11																	2428360		2193	4288	6481	SO:0001583	missense	29850			AF177473	CCDS31340.1	11p15.5	2011-12-14			ENSG00000070985	ENSG00000070985		"Voltage-gated ion channels / Transient receptor potential cation channels"	14323	protein-coding gene	gene with protein product		604600				10607831, 16382100	Standard	NM_014555		Approved	LTRPC5, MTR1	uc001lwm.4	Q9NZQ8	OTTHUMG00000009896	ENST00000155858.6:c.3107G>A	11.37:g.2428360C>T	ENSP00000155858:p.Arg1036Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000155858.6	37	CCDS31340.1	.	.	.	.	.	.	.	.	.	.	C	1.660	-0.511828	0.04200	.	.	ENSG00000070985	ENST00000533881;ENST00000155858;ENST00000452833;ENST00000533060;ENST00000528453	T;T;T;T;T	0.61627	0.27;0.21;0.21;0.09;0.21	3.21	1.21	0.21127	.	0.630612	0.15729	N	0.247507	T	0.33644	0.0870	N	0.15975	0.35	0.21553	N	0.999642	B;B;B	0.17465	0.022;0.022;0.006	B;B;B	0.13407	0.007;0.007;0.009	T	0.15065	-1.0450	10	0.25751	T	0.34	-7.4235	6.0447	0.19753	0.0:0.6066:0.0:0.3934	.	1036;1038;1036	E9PRW0;Q9NZQ8-2;Q9NZQ8	.;.;TRPM5_HUMAN	Q	1030;1036;1038;1036;1036	ENSP00000434383:R1030Q;ENSP00000155858:R1036Q;ENSP00000387965:R1038Q;ENSP00000434121:R1036Q;ENSP00000436809:R1036Q	ENSP00000155858:R1036Q	R	-	2	0	TRPM5	2384936	0.007000	0.16637	0.005000	0.12908	0.300000	0.27592	1.127000	0.31357	0.058000	0.16222	0.134000	0.15878	CGG		0.706	TRPM5-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000027378.1	NM_014555		T	2428360	C	T	2428360	3	4	608	1	0	0	0	0	1	0	0	0	16601	652	23	1	410	1	TRPM5	11	2428360	Missense_Mutation	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10		2428360	132578156	52	36859										
CALCB	797	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	15096663	15096663	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	cagtaaagaggacgcgcgccTcctgctggctgcactggtgc	14	13	0	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr11:15096663T>A	ENST00000533448.1	+	3	254	c.143T>A	c.(142-144)cTc>cAc	p.L48H	CALCB_ENST00000324229.6_Missense_Mutation_p.L48H|CALCB_ENST00000523376.1_Missense_Mutation_p.L59H			P10092	CALCB_HUMAN	calcitonin-related polypeptide beta	48					cellular calcium ion homeostasis (GO:0006874)|signal transduction (GO:0007165)	extracellular region (GO:0005576)	neuropeptide hormone activity (GO:0005184)			endometrium(1)|large_intestine(1)|lung(1)|skin(2)	5						GACGCGCGCCTCCTGCTGGCT	0.627											OREG0020793	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													58	61	60					11																	15096663		2200	4294	6494	SO:0001583	missense	797				CCDS7820.1	11p14.2-p12	2013-02-25	2008-02-20			ENSG00000175868		"Endogenous ligands"	1438	protein-coding gene	gene with protein product		114160	"calcitonin 2"	CALC2			Standard	NM_000728		Approved	FLJ30166, CGRP-II	uc001mlx.1	P10092		ENST00000533448.1:c.143T>A	11.37:g.15096663T>A	ENSP00000433490:p.Leu48His	Somatic	700	WXS	Illumina HiSeq	Phase_I	A8K573|D3DQX4|Q569I0|Q9UCN9	Missense_Mutation	SNP	ENST00000533448.1	37	CCDS7820.1	.	.	.	.	.	.	.	.	.	.	T	23.1	4.370035	0.82573	.	.	ENSG00000175868	ENST00000523376;ENST00000324229;ENST00000533448	T;T;T	0.24151	1.87;1.87;1.87	5.4	3.0	0.34707	.	0.000000	0.46442	D	0.000284	T	0.28267	0.0698	M	0.81239	2.535	0.27438	N	0.953794	B	0.30686	0.29	B	0.32022	0.139	T	0.17077	-1.0381	10	0.44086	T	0.13	-26.0769	6.6446	0.22929	0.1187:0.0:0.3692:0.512	.	48	P10092	CALCB_HUMAN	H	59;48;48	ENSP00000428882:L59H;ENSP00000346017:L48H;ENSP00000433490:L48H	ENSP00000346017:L48H	L	+	2	0	CALCB	15053239	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	5.094000	0.64523	2.176000	0.68965	0.454000	0.30748	CTC		0.627	CALCB-003	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387433.1	NM_000728		A	15096663	T	A	15096663	3	1	608	1	0	0	0	0	1	0	0	0	2578	1551	54	5	149	5	CALCB	11	15096663	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	12668303	15096663	119909853	53	36860										
PIK3C2A	5286	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	17150900	17150900	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	cccaaagcttctggtcccttTctctgcttattagaatcagg	7	12	3	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr11:17150900T>G	ENST00000265970.7	-	12	2345	c.2346A>C	c.(2344-2346)agA>agC	p.R782S	PIK3C2A_ENST00000540361.1_Missense_Mutation_p.R402S|PIK3C2A_ENST00000531428.1_Intron	NM_002645.2	NP_002636.2	O00443	P3C2A_HUMAN	phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha	782	C2 PI3K-type. {ECO:0000255|PROSITE- ProRule:PRU00041, ECO:0000255|PROSITE- ProRule:PRU00880}.				clathrin coat assembly (GO:0048268)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|exocytosis (GO:0006887)|insulin receptor signaling pathway (GO:0008286)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|small molecule metabolic process (GO:0044281)|vascular smooth muscle contraction (GO:0014829)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|nucleus (GO:0005634)|phosphatidylinositol 3-kinase complex (GO:0005942)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	1-phosphatidylinositol-3-kinase activity (GO:0016303)|1-phosphatidylinositol-4-phosphate 3-kinase activity (GO:0035005)|ATP binding (GO:0005524)|phosphatidylinositol 3-kinase activity (GO:0035004)|phosphatidylinositol binding (GO:0035091)			central_nervous_system(4)|endometrium(5)|kidney(5)|large_intestine(7)|lung(24)|ovary(3)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	58						CTGGTCCCTTTCTCTGCTTAT	0.388																																																0													90	96	94					11																	17150900		2200	4293	6493	SO:0001583	missense	5286			Y13367	CCDS7824.1	11p15.5-p14	2012-07-13	2012-07-13			ENSG00000011405	2.7.1.154		8971	protein-coding gene	gene with protein product		603601	"phosphoinositide-3-kinase, class 2, alpha polypeptide"			9337861	Standard	NM_002645		Approved	PI3K-C2alpha	uc001mmq.4	O00443		ENST00000265970.7:c.2346A>C	11.37:g.17150900T>G	ENSP00000265970:p.Arg782Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B0LPH2|B4E2G4|Q14CQ9	Missense_Mutation	SNP	ENST00000265970.7	37	CCDS7824.1	.	.	.	.	.	.	.	.	.	.	T	19.33	3.807327	0.70797	.	.	ENSG00000011405	ENST00000265970;ENST00000540361	T;T	0.77229	-1.08;-1.08	6.17	3.81	0.43845	C2 calcium-dependent membrane targeting (1);C2 calcium/lipid-binding domain, CaLB (1);Phosphoinositide 3-kinase, C2 (2);	0.000000	0.85682	D	0.000000	D	0.82834	0.5123	M	0.68952	2.095	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	T	0.79967	-0.1580	10	0.33940	T	0.23	-23.3516	5.1651	0.15081	0.1256:0.1839:0.0:0.6905	.	782	O00443	P3C2A_HUMAN	S	782;402	ENSP00000265970:R782S;ENSP00000438687:R402S	ENSP00000265970:R782S	R	-	3	2	PIK3C2A	17107476	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	0.962000	0.29280	1.126000	0.42016	0.533000	0.62120	AGA		0.388	PIK3C2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387553.1	NM_002645		G	17150900	T	G	17150900	3	3	608	1	0	0	0	0	1	0	0	0	11916	1780	62	5	2798	5	PIK3C2A	11	17150900	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	2054237	17150900	117855616	54	36861										
OR5AR1	219493	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	56432020	56432028	+	In_Frame_Del	DEL	CCCTTGATC	CCCTTGATC	-													0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ttatcatccccatgttaaatCccttgatctacagtttgcgg					rs139654321		TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	CCCTTGATC	CCCTTGATC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr11:56432020_56432028delCCCTTGATC	ENST00000302969.2	+	1	883_891	c.859_867delCCCTTGATC	c.(859-867)cccttgatcdel	p.PLI287del		NM_001004730.1	NP_001004730.1	Q8NGP9	O5AR1_HUMAN	olfactory receptor, family 5, subfamily AR, member 1 (gene/pseudogene)	287						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(1)|lung(12)|prostate(1)|skin(3)|stomach(1)	26						CATGTTAAATCCCTTGATCTACAGTTTGC	0.407																																																0																																										SO:0001651	inframe_deletion	219493			AB065740	CCDS31535.1	11q11	2013-10-10	2013-10-10		ENSG00000172459	ENSG00000172459		"GPCR / Class A : Olfactory receptors"	15260	protein-coding gene	gene with protein product			"olfactory receptor, family 5, subfamily AR, member 1"				Standard	NM_001004730		Approved		uc010rjm.2	Q8NGP9	OTTHUMG00000154213	ENST00000302969.2:c.859_867delCCCTTGATC	11.37:g.56432020_56432028delCCCTTGATC	ENSP00000302639:p.Pro287_Ile289del	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF61	In_Frame_Del	DEL	ENST00000302969.2	37	CCDS31535.1																																																																																				0.407	OR5AR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000334434.1	NM_001004730		-	56432028	CCCTTGATC	-	56432020	7	5	608	1	0	1	0	1	0	0	0	0	11152	855	30	0	861	0	OR5AR1	11	56432020	In_Frame_Del	DEL	CCCTTGATC	TCGA-HE-A5NH-01A-11D-A26P-10	39281120	56432020	78574496	55	36862										
PPFIA1	8500	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	70202285	70202285	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	agctggtgtttccgagacggAtaactcatctcaggatgcct	11	10	2	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr11:70202285A>T	ENST00000253925.7	+	19	2722	c.2507A>T	c.(2506-2508)gAt>gTt	p.D836V	AP000487.6_ENST00000528607.1_RNA|AP000487.4_ENST00000324630.5_RNA|PPFIA1_ENST00000389547.3_Missense_Mutation_p.D836V	NM_003626.3	NP_003617.1	Q13136	LIPA1_HUMAN	protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 1	836					cell-matrix adhesion (GO:0007160)|negative regulation of establishment of protein localization to plasma membrane (GO:0090005)|negative regulation of stress fiber assembly (GO:0051497)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|presynaptic active zone (GO:0048786)	signal transducer activity (GO:0004871)			breast(3)|cervix(1)|endometrium(5)|kidney(5)|large_intestine(11)|lung(31)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	65			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			TCCGAGACGGATAACTCATCT	0.398																																																0													139	145	143					11																	70202285		2200	4294	6494	SO:0001583	missense	8500			U22816	CCDS31627.1, CCDS31628.1	11q13.3	2013-01-10			ENSG00000131626	ENSG00000131626		"Sterile alpha motif (SAM) domain containing"	9245	protein-coding gene	gene with protein product	"Liprin-alpha1"	611054				7796809, 9624153	Standard	NM_003626		Approved	LIP.1, LIPRIN	uc001opo.3	Q13136	OTTHUMG00000167266	ENST00000253925.7:c.2507A>T	11.37:g.70202285A>T	ENSP00000253925:p.Asp836Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLE3|Q13135|Q14567|Q8N4I2	Missense_Mutation	SNP	ENST00000253925.7	37	CCDS31627.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	14.01|14.01	2.407640|2.407640	0.42715|0.42715	.|.	.|.	ENSG00000131626|ENSG00000131626	ENST00000253925;ENST00000389547;ENST00000544950|ENST00000528750	T;T|.	0.19250|.	2.16;2.16|.	5.01|5.01	5.01|5.01	0.66863|0.66863	.|.	0.411876|.	0.24172|.	U|.	0.040892|.	T|T	0.56337|0.56337	0.1978|0.1978	L|L	0.34521|0.34521	1.04|1.04	0.54753|0.54753	D|D	0.999981|0.999981	B;B|.	0.25105|.	0.004;0.118|.	B;B|.	0.24541|.	0.027;0.054|.	T|T	0.53570|0.53570	-0.8420|-0.8420	10|5	0.87932|.	D|.	0|.	.|.	15.0281|15.0281	0.71684|0.71684	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	836;836|.	Q13136;Q13136-2|.	LIPA1_HUMAN;.|.	V|L	836;836;333|279	ENSP00000253925:D836V;ENSP00000374198:D836V|.	ENSP00000253925:D836V|.	D|I	+|+	2|1	0|0	PPFIA1|PPFIA1	69879933|69879933	1.000000|1.000000	0.71417|0.71417	0.048000|0.048000	0.18961|0.18961	0.016000|0.016000	0.09150|0.09150	4.706000|4.706000	0.61845|0.61845	2.004000|2.004000	0.58718|0.58718	0.533000|0.533000	0.62120|0.62120	GAT|ATA		0.398	PPFIA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000393905.1	NM_003626		T	70202285	A	T	70202285	3	4	608	1	0	0	0	0	1	0	0	0	12316	333	12	5	2577	5	PPFIA1	11	70202285	Missense_Mutation	SNP	A	TCGA-HE-A5NH-01A-11D-A26P-10	13770265	70202285	64804231	56	36863										
MOGAT2	80168	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	75431106	75431106	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gctcctcactgtcctgtatgCggcctggtggtatctggacc	12	13	2	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr11:75431106C>A	ENST00000198801.5	+	2	231	c.161C>A	c.(160-162)gCg>gAg	p.A54E	MOGAT2_ENST00000526712.1_5'UTR	NM_025098.2	NP_079374.2	Q3SYC2	MOGT2_HUMAN	monoacylglycerol O-acyltransferase 2	54					diacylglycerol biosynthetic process (GO:0006651)|glycerol metabolic process (GO:0006071)|intestinal absorption (GO:0050892)|triglyceride biosynthetic process (GO:0019432)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	2-acylglycerol O-acyltransferase activity (GO:0003846)|acetyltransferase activity (GO:0016407)			NS(1)|kidney(2)|large_intestine(2)|lung(11)|ovary(2)|skin(1)|urinary_tract(1)	20	Ovarian(111;0.103)					GTCCTGTATGCGGCCTGGTGG	0.567																																																0													175	164	168					11																	75431106		2200	4293	6493	SO:0001583	missense	80168			AY157608	CCDS8240.1	11q13.5	2008-02-05			ENSG00000166391	ENSG00000166391			23248	protein-coding gene	gene with protein product		610270				14970677	Standard	NM_025098		Approved	MGAT2, DGAT2L5, FLJ22644	uc010rru.2	Q3SYC2	OTTHUMG00000165341	ENST00000198801.5:c.161C>A	11.37:g.75431106C>A	ENSP00000198801:p.Ala54Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7I3|Q3SYC1|Q6ZQZ2|Q86UH6|Q9H630	Missense_Mutation	SNP	ENST00000198801.5	37	CCDS8240.1	.	.	.	.	.	.	.	.	.	.	C	16.83	3.230712	0.58777	.	.	ENSG00000166391	ENST00000198801	T	0.15487	2.42	5.14	3.25	0.37280	.	0.175147	0.49916	D	0.000127	T	0.40595	0.1123	M	0.87180	2.865	0.37511	D	0.917131	D;D	0.67145	0.983;0.996	P;D	0.65233	0.815;0.933	T	0.47071	-0.9145	10	0.62326	D	0.03	.	8.4411	0.32816	0.0:0.6272:0.2933:0.0795	.	54;54	Q3SYC2;Q3SYC2-3	MOGT2_HUMAN;.	E	54	ENSP00000198801:A54E	ENSP00000198801:A54E	A	+	2	0	MOGAT2	75108754	0.114000	0.22134	0.003000	0.11579	0.143000	0.21401	2.008000	0.40893	0.732000	0.32470	-0.215000	0.12644	GCG		0.567	MOGAT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383520.1	NM_025098		A	75431106	C	A	75431106	3	1	608	1	0	0	0	0	1	0	0	0	9702	768	27	4	167	4	MOGAT2	11	75431106	Missense_Mutation	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	5228821	75431106	59575410	57	36864										
ARCN1	372	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	118464375	118464375	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	tatgagctacaagaagataaTttagaactgaatgatgtggt	10	3	0	6	rs546784519		TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr11:118464375T>G	ENST00000264028.4	+	8	1298	c.1203T>G	c.(1201-1203)aaT>aaG	p.N401K	RNU6-1157P_ENST00000384456.1_RNA|ARCN1_ENST00000392859.3_Missense_Mutation_p.N313K|ARCN1_ENST00000534182.2_Intron|ARCN1_ENST00000359415.4_Missense_Mutation_p.N442K	NM_001655.4	NP_001646.2	P48444	COPD_HUMAN	archain 1	401	MHD. {ECO:0000255|PROSITE- ProRule:PRU00404}.				adult locomotory behavior (GO:0008344)|cerebellar Purkinje cell layer maturation (GO:0021691)|COPI coating of Golgi vesicle (GO:0048205)|intracellular protein transport (GO:0006886)|membrane organization (GO:0061024)|pigmentation (GO:0043473)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)	clathrin adaptor complex (GO:0030131)|COPI vesicle coat (GO:0030126)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)			endometrium(1)|kidney(2)|large_intestine(3)|lung(4)|ovary(2)|urinary_tract(1)	13	all_hematologic(175;0.0349)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		AAGAAGATAATTTAGAACTGA	0.438													T|||	1	0.000199681	0.0	0.0	5008	,	,		20456	0.001		0.0	False		,,,				2504	0.0															0													118	100	106					11																	118464375		2200	4295	6495	SO:0001583	missense	372			X81197	CCDS8400.1, CCDS44749.1	11q23.3	2010-04-21	2003-01-29		ENSG00000095139	ENSG00000095139			649	protein-coding gene	gene with protein product		600820	"coatomer protein complex, subunit delta"	COPD		7782067, 8854871	Standard	NM_001655		Approved		uc001ptq.3	P48444	OTTHUMG00000166340	ENST00000264028.4:c.1203T>G	11.37:g.118464375T>G	ENSP00000264028:p.Asn401Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4E1X2|E9PEU4|Q52M80	Missense_Mutation	SNP	ENST00000264028.4	37	CCDS8400.1	.	.	.	.	.	.	.	.	.	.	T	9.897	1.205804	0.22205	.	.	ENSG00000095139	ENST00000392859;ENST00000359415;ENST00000264028	T;T;T	0.17528	2.27;2.27;2.27	5.95	1.01	0.19927	Clathrin adaptor, mu subunit, C-terminal (3);	0.266986	0.47455	D	0.000229	T	0.10121	0.0248	L	0.29908	0.895	0.29104	N	0.881303	B;B;B	0.14438	0.003;0.01;0.002	B;B;B	0.17979	0.006;0.02;0.005	T	0.18085	-1.0348	10	0.30078	T	0.28	-13.078	5.5305	0.16983	0.0:0.491:0.1917:0.3174	.	313;442;401	E9PEU4;B0YIW6;P48444	.;.;COPD_HUMAN	K	313;442;401	ENSP00000376599:N313K;ENSP00000352385:N442K;ENSP00000264028:N401K	ENSP00000264028:N401K	N	+	3	2	ARCN1	117969585	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	0.769000	0.26604	0.173000	0.19788	0.460000	0.39030	AAT		0.438	ARCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389278.1			G	118464375	T	G	118464375	3	3	608	1	0	0	0	0	1	0	0	0	842	1490	52	5	1233	5	ARCN1	11	118464375	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	43033269	118464375	16542141	58	36865										
SORL1	6653	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	121475939	121475939	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	tgcttcttgtgtatataatgTctactacaggtaggtcccat	8	8	2	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr11:121475939T>G	ENST00000260197.7	+	34	4898	c.4769T>G	c.(4768-4770)gTc>gGc	p.V1590G	SORL1_ENST00000534286.1_Missense_Mutation_p.V500G|SORL1_ENST00000527934.1_Missense_Mutation_p.V205G|SORL1_ENST00000525532.1_Missense_Mutation_p.V534G|SORL1_ENST00000532694.1_Missense_Mutation_p.V436G	NM_003105.5	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor, L(DLR class) A repeats containing	1590	Fibronectin type-III 1. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell death (GO:0008219)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|cholesterol metabolic process (GO:0008203)|lipid transport (GO:0006869)|negative regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process (GO:1902960)|negative regulation of beta-amyloid formation (GO:1902430)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of metalloendopeptidase activity involved in amyloid precursor protein catabolic process (GO:1902963)|negative regulation of neurofibrillary tangle assembly (GO:1902997)|negative regulation of neurogenesis (GO:0050768)|negative regulation of neuron death (GO:1901215)|negative regulation of protein binding (GO:0032091)|negative regulation of protein oligomerization (GO:0032460)|negative regulation of tau-protein kinase activity (GO:1902948)|positive regulation of choline O-acetyltransferase activity (GO:1902771)|positive regulation of early endosome to recycling endosome transport (GO:1902955)|positive regulation of endocytic recycling (GO:2001137)|positive regulation of ER to Golgi vesicle-mediated transport (GO:1902953)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of protein exit from endoplasmic reticulum (GO:0070863)|positive regulation of protein localization to early endosome (GO:1902966)|post-Golgi vesicle-mediated transport (GO:0006892)|protein maturation (GO:0051604)|protein retention in Golgi apparatus (GO:0045053)|protein targeting (GO:0006605)|protein targeting to Golgi (GO:0000042)|protein targeting to lysosome (GO:0006622)|receptor-mediated endocytosis (GO:0006898)|regulation of smooth muscle cell migration (GO:0014910)|signal transduction (GO:0007165)	early endosome (GO:0005769)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|Golgi cisterna (GO:0031985)|integral component of plasma membrane (GO:0005887)|low-density lipoprotein particle (GO:0034362)|membrane (GO:0016020)|multivesicular body (GO:0005771)|neuronal cell body (GO:0043025)|nuclear envelope lumen (GO:0005641)|recycling endosome (GO:0055037)|trans-Golgi network (GO:0005802)	ADP-ribosylation factor binding (GO:0030306)|beta-amyloid binding (GO:0001540)|low-density lipoprotein particle binding (GO:0030169)|transmembrane signaling receptor activity (GO:0004888)			NS(1)|breast(5)|central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(14)|liver(2)|lung(34)|ovary(5)|pancreas(1)|skin(12)|stomach(2)|upper_aerodigestive_tract(2)	91		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)		GTATATAATGTCTACTACAGG	0.443																																																0													121	119	120					11																	121475939		2203	4299	6502	SO:0001583	missense	6653			Y08110	CCDS8436.1	11q23.2-q24.4	2014-06-05	2011-01-25		ENSG00000137642	ENSG00000137642		"Fibronectin type III domain containing"	11185	protein-coding gene	gene with protein product	"LDLR relative with 11 ligand-binding repeats"	602005	"chromosome 11 open reading frame 32", "sortilin-related receptor, L(DLR class) A repeats-containing"	C11orf32		9157966, 8940146	Standard	NM_003105		Approved	gp250, LR11, LRP9, SorLA, SorLA-1	uc001pxx.3	Q92673	OTTHUMG00000166057	ENST00000260197.7:c.4769T>G	11.37:g.121475939T>G	ENSP00000260197:p.Val1590Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNX7|Q92856	Missense_Mutation	SNP	ENST00000260197.7	37	CCDS8436.1	.	.	.	.	.	.	.	.	.	.	T	16.47	3.133710	0.56828	.	.	ENSG00000137642	ENST00000260197;ENST00000525532;ENST00000532694;ENST00000534286;ENST00000527934	T;T;T;T;T	0.69040	-0.37;-0.37;-0.37;-0.37;-0.37	5.3	4.17	0.49024	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.537145	0.18359	N	0.143626	T	0.61185	0.2327	N	0.19112	0.55	0.51012	D	0.999904	P;P	0.51933	0.942;0.949	P;P	0.52386	0.697;0.659	T	0.60984	-0.7154	10	0.52906	T	0.07	.	10.8817	0.46942	0.0:0.0749:0.0:0.9251	.	205;1590	E9PKB0;Q92673	.;SORL_HUMAN	G	1590;534;436;500;205	ENSP00000260197:V1590G;ENSP00000434634:V534G;ENSP00000432131:V436G;ENSP00000436447:V500G;ENSP00000435405:V205G	ENSP00000260197:V1590G	V	+	2	0	SORL1	120981149	0.992000	0.36948	0.699000	0.30290	0.670000	0.39368	7.698000	0.84413	0.854000	0.35336	0.533000	0.62120	GTC		0.443	SORL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387626.2	NM_003105		G	121475939	T	G	121475939	3	3	608	1	0	0	0	0	1	0	0	0	14947	1667	58	5	4903	5	SORL1	11	121475939	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	3011564	121475939	13530577	59	36866										
IGSF9B	22997	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	133789844	133789844	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	tcccactgcggctgctctggGagggggagcctgtggacggc	18	12	1	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr11:133789844G>A	ENST00000321016.8	-	18	4006	c.3776C>T	c.(3775-3777)tCc>tTc	p.S1259F	IGSF9B_ENST00000533871.2_Missense_Mutation_p.S1259F			Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	1259	Pro-rich.				homophilic cell adhesion (GO:0007156)|positive regulation of inhibitory postsynaptic membrane potential (GO:0097151)	dendrite (GO:0030425)|inhibitory synapse (GO:0060077)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)				breast(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(18)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	44	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)		GCTGCTCTGGGAGGGGGAGCC	0.687																																																0													19	25	23					11																	133789844		1888	4098	5986	SO:0001583	missense	22997			AK097578	CCDS61010.1	11q25	2013-02-11	2005-10-12	2005-11-20				"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	32326	protein-coding gene	gene with protein product		613773					Standard	NM_001277285		Approved	KIAA1030	uc031qfh.1	Q9UPX0		ENST00000321016.8:c.3776C>T	11.37:g.133789844G>A	ENSP00000317980:p.Ser1259Phe	Somatic		WXS	Illumina HiSeq	Phase_I	G5EA26	Missense_Mutation	SNP	ENST00000321016.8	37		.	.	.	.	.	.	.	.	.	.	G	10.57	1.386761	0.25031	.	.	ENSG00000080854	ENST00000321016;ENST00000533871	T;T	0.68479	-0.0;-0.33	5.29	4.38	0.52667	.	0.164446	0.29119	N	0.013091	T	0.47414	0.1444	N	0.08118	0	0.33398	D	0.577033	B	0.06786	0.001	B	0.04013	0.001	T	0.56402	-0.7985	10	0.66056	D	0.02	.	13.4086	0.60929	0.0768:0.0:0.9232:0.0	.	1259	Q9UPX0	TUTLB_HUMAN	F	1259;1101	ENSP00000317980:S1259F;ENSP00000436552:S1101F	ENSP00000317980:S1259F	S	-	2	0	IGSF9B	133295054	1.000000	0.71417	0.411000	0.26484	0.307000	0.27823	7.382000	0.79729	1.243000	0.43853	0.555000	0.69702	TCC		0.687	IGSF9B-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		XM_290502		A	133789844	G	A	133789844	3	1	608	1	0	0	0	0	1	0	0	0	7613	1174	41	2	281	2	IGSF9B	11	133789844	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10	12313905	133789844	1216672	60	36867										
ING4	51147	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr12	6760401	6760401	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gggagcagcgtgggcaaaacCtgaaacagagaaggggagag	18	6	0	3			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr12:6760401C>T	ENST00000396807.4	-	8	749		c.e8-1		ING4_ENST00000486287.1_Splice_Site|ING4_ENST00000446105.2_Splice_Site|ING4_ENST00000444704.2_Splice_Site|ING4_ENST00000412586.2_Splice_Site|ING4_ENST00000423703.2_Splice_Site|ING4_ENST00000341550.4_Splice_Site	NM_001127582.1|NM_001127585.1|NM_001127586.1|NM_016162.3	NP_001121054.1|NP_001121057.1|NP_001121058.1|NP_057246.2	Q9UNL4	ING4_HUMAN	inhibitor of growth family, member 4						apoptotic process (GO:0006915)|cell cycle arrest (GO:0007050)|chromatin organization (GO:0006325)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA replication (GO:0006260)|histone H3 acetylation (GO:0043966)|histone H4-K12 acetylation (GO:0043983)|histone H4-K5 acetylation (GO:0043981)|histone H4-K8 acetylation (GO:0043982)|negative regulation of cell proliferation (GO:0008285)|negative regulation of growth (GO:0045926)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of apoptotic process (GO:0043065)|protein acetylation (GO:0006473)	histone acetyltransferase complex (GO:0000123)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	methylated histone binding (GO:0035064)|transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)			central_nervous_system(3)|endometrium(1)|large_intestine(2)|lung(3)|ovary(1)	10						TGGGCAAAACCTGAAACAGAG	0.512																																																0													112	96	102					12																	6760401		2203	4300	6503	SO:0001630	splice_region_variant	51147			AF063594	CCDS8555.1, CCDS44812.1, CCDS44813.1, CCDS44814.1, CCDS44815.1, CCDS44816.1	12p13.32	2013-01-28			ENSG00000111653	ENSG00000111653		"Zinc fingers, PHD-type"	19423	protein-coding gene	gene with protein product		608524				12750254	Standard	NM_001127582		Approved	p29ING4, my036	uc001qpw.4	Q9UNL4	OTTHUMG00000141274	ENST00000396807.4:c.711-1G>A	12.37:g.6760401C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4KYM4|A4KYM6|D3DUR8|Q0EF62|Q0EF63|Q4VBQ6|Q96E15|Q9H3J0	Splice_Site	SNP	ENST00000396807.4	37	CCDS44813.1	.	.	.	.	.	.	.	.	.	.	C	19.52	3.842434	0.71488	.	.	ENSG00000111653	ENST00000341550;ENST00000396807;ENST00000446105;ENST00000444704;ENST00000412586	.	.	.	4.63	4.63	0.57726	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.5782	0.84706	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	ING4	6630662	1.000000	0.71417	0.997000	0.53966	0.968000	0.65278	6.445000	0.73456	2.556000	0.86216	0.561000	0.74099	.		0.512	ING4-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000280467.2	NM_198287	Intron	T	6760401	C	T	6760401	5	4	608	1	0	0	0	0	0	0	1	0	7745	695	24	2	43	2	ING4	12	6760401	Splice_Site	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10		6760401	127091494	61	36868										
BHLHE41	79365	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	26276658	26276658	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	attccaagactacagctttcTccagatgtcccagagtctgc	7	13	2	3			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr12:26276658T>C	ENST00000242728.4	-	4	598	c.251A>G	c.(250-252)gAg>gGg	p.E84G	RP11-283G6.3_ENST00000535914.1_RNA|RP11-283G6.3_ENST00000545819.1_RNA	NM_030762.2	NP_110389.1	Q9C0J9	BHE41_HUMAN	basic helix-loop-helix family, member e41	84	bHLH. {ECO:0000255|PROSITE- ProRule:PRU00981}.				cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|circadian regulation of gene expression (GO:0032922)|negative regulation of myotube differentiation (GO:0010832)|negative regulation of transcription by competitive promoter binding (GO:0010944)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|organ morphogenesis (GO:0009887)	nucleus (GO:0005634)	bHLH transcription factor binding (GO:0043425)|E-box binding (GO:0070888)|histone deacetylase binding (GO:0042826)|MRF binding (GO:0043426)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|transcription corepressor activity (GO:0003714)			haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(1)	5						TACAGCTTTCTCCAGATGTCC	0.408																																																0													93	92	92					12																	26276658		2202	4300	6502	SO:0001583	missense	79365			AB044088	CCDS8706.1	12p12.1	2011-12-05	2009-01-12	2009-01-12	ENSG00000123095	ENSG00000123095		"Basic helix-loop-helix proteins"	16617	protein-coding gene	gene with protein product	"differentially expressed in chondrocytes 2", "Enhancer-of-split and hairy-related protein 1"	606200	"basic helix-loop-helix domain containing, class B, 3"	BHLHB3		11162494, 18557763	Standard	NM_030762		Approved	DEC2, SHARP-1, SHARP1, bHLHe41	uc001rhb.3	Q9C0J9	OTTHUMG00000169174	ENST00000242728.4:c.251A>G	12.37:g.26276658T>C	ENSP00000242728:p.Glu84Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A2I2N8	Missense_Mutation	SNP	ENST00000242728.4	37	CCDS8706.1	.	.	.	.	.	.	.	.	.	.	T	18.09	3.546283	0.65198	.	.	ENSG00000123095	ENST00000242728;ENST00000540731	D	0.98120	-4.73	4.15	4.15	0.48705	Helix-loop-helix DNA-binding (5);	0.000000	0.85682	U	0.000000	D	0.98172	0.9396	M	0.67569	2.06	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.98797	1.0738	10	0.87932	D	0	-16.7562	12.4813	0.55844	0.0:0.0:0.0:1.0	.	84	Q9C0J9	BHE41_HUMAN	G	84	ENSP00000242728:E84G	ENSP00000242728:E84G	E	-	2	0	BHLHE41	26167925	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.709000	0.84645	1.876000	0.54355	0.528000	0.53228	GAG		0.408	BHLHE41-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402714.1	NM_030762		C	26276658	T	C	26276658	3	2	608	1	0	0	0	0	1	0	0	0	1424	1551	54	3	1205	3	BHLHE41	12	26276658	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	19516257	26276658	107575237	62	36869										
ERGIC2	51290	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	29502995	29502995	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gcatgaccacgaggatgtggAattgccctgaaaggagaaaa	13	7	0	3			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr12:29502995A>T	ENST00000360150.4	-	9	654	c.579T>A	c.(577-579)atT>atA	p.I193I		NM_016570.2	NP_057654.2	Q96RQ1	ERGI2_HUMAN	ERGIC and golgi 2	193					vesicle-mediated transport (GO:0016192)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleolus (GO:0005730)				endometrium(2)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)|prostate(2)|urinary_tract(1)	10	Lung NSC(12;2.02e-08)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)|Lung SC(9;0.184)					GAGGATGTGGAATTGCCCTGA	0.303																																																0													57	53	54					12																	29502995		1824	4085	5909	SO:0001819	synonymous_variant	51290			AF216751	CCDS41765.1	12p11.22	2006-02-08							30208	protein-coding gene	gene with protein product		612236				11445006, 12932305	Standard	NM_016570		Approved	PTX1, Erv41	uc001riv.3	Q96RQ1		ENST00000360150.4:c.579T>A	12.37:g.29502995A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NHH6|Q53GY2|Q8N2Q9|Q9BVV9|Q9NZA3	Silent	SNP	ENST00000360150.4	37	CCDS41765.1	.	.	.	.	.	.	.	.	.	.	a	11.11	1.541269	0.27563	.	.	ENSG00000087502	ENST00000548909	.	.	.	5.78	0.983	0.19767	.	.	.	.	.	T	0.55114	0.1900	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.45556	-0.9253	4	.	.	.	.	8.0069	0.30329	0.655:0.0:0.345:0.0	.	.	.	.	T	3	.	.	S	-	1	0	ERGIC2	29394262	0.982000	0.34865	1.000000	0.80357	0.989000	0.77384	0.257000	0.18369	0.143000	0.18926	0.524000	0.50904	TCC		0.303	ERGIC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403489.1	NM_016570		T	29502995	A	T	29502995	2	4	608	1	0	0	0	0	0	0	0	1	5226	242	9	5		5	ERGIC2	12	29502995	Silent	SNP	A	TCGA-HE-A5NH-01A-11D-A26P-10	3226337	29502995	104348900	63	36870										
C12orf64	283310	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	80730767	80730767	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ccatacataaaataattgtcAatcggttggcaagaaaggta	8	6	1	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr12:80730767A>T	ENST00000547103.1	+	41	4786	c.4780A>T	c.(4780-4782)Aat>Tat	p.N1594Y	OTOGL_ENST00000458043.2_Missense_Mutation_p.N1606Y			Q3ZCN5	OTOGL_HUMAN	otogelin-like	1594	VWFD 4. {ECO:0000255|PROSITE- ProRule:PRU00580}.				L-arabinose metabolic process (GO:0046373)	extracellular region (GO:0005576)	alpha-L-arabinofuranosidase activity (GO:0046556)			breast(1)|endometrium(3)|kidney(2)|large_intestine(2)|lung(14)|prostate(1)	23						AATAATTGTCAATCGGTTGGC	0.279																																																0													28	26	26					12																	80730767		1788	4046	5834	SO:0001583	missense	283310			AK096852		12q21.31	2011-02-11	2011-02-11	2011-02-11	ENSG00000165899	ENSG00000165899			26901	protein-coding gene	gene with protein product		614925	"chromosome 12 open reading frame 64"	C12orf64			Standard	NM_173591		Approved	FLJ90579	uc001szd.3	Q3ZCN5	OTTHUMG00000150509	ENST00000547103.1:c.4780A>T	12.37:g.80730767A>T	ENSP00000447211:p.Asn1594Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	F8W0C3|Q495U8|Q8N8G5|Q8NC28	Missense_Mutation	SNP	ENST00000547103.1	37		.	.	.	.	.	.	.	.	.	.	A	14.88	2.668809	0.47677	.	.	ENSG00000165899	ENST00000547103;ENST00000458043	T;T	0.58652	0.32;0.32	4.92	3.72	0.42706	.	.	.	.	.	T	0.65428	0.2690	M	0.72118	2.19	0.28910	N	0.892741	.	.	.	.	.	.	T	0.61888	-0.6970	7	0.59425	D	0.04	.	10.9776	0.47475	0.8598:0.0:0.0:0.1402	.	.	.	.	Y	1594;1606	ENSP00000447211:N1594Y;ENSP00000400895:N1606Y	ENSP00000400895:N1606Y	N	+	1	0	OTOGL	79254898	1.000000	0.71417	0.989000	0.46669	0.943000	0.58893	4.208000	0.58486	0.757000	0.33036	0.482000	0.46254	AAT		0.279	OTOGL-001	NOVEL	not_organism_supported|basic	protein_coding	protein_coding	OTTHUMT00000407438.1	NM_173591		T	80730767	A	T	80730767	3	4	608	1	0	0	0	0	1	0	0	0	1709	130	5	5	4978	5	C12orf64	12	80730767	Missense_Mutation	SNP	A	TCGA-HE-A5NH-01A-11D-A26P-10	51227772	80730767	53121128	64	36871										
PPP1CC	5501	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr12	111168372	111168372	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	aaattctgttgatgctggcaCattcatggttccctctgaga	9	9	3	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr12:111168372C>T	ENST00000335007.5	-	3	570	c.380G>A	c.(379-381)tGt>tAt	p.C127Y	PPP1CC_ENST00000551690.1_5'Flank|PPP1CC_ENST00000546933.1_Missense_Mutation_p.C136Y|PPP1CC_ENST00000550991.1_Missense_Mutation_p.C127Y|PPP1CC_ENST00000340766.5_Missense_Mutation_p.C127Y|PPP1CC_ENST00000551676.1_Missense_Mutation_p.C127Y	NM_002710.3	NP_002701.1	P36873	PP1G_HUMAN	protein phosphatase 1, catalytic subunit, gamma isozyme	127					cell division (GO:0051301)|circadian regulation of gene expression (GO:0032922)|entrainment of circadian clock by photoperiod (GO:0043153)|glycogen metabolic process (GO:0005977)|mitotic cell cycle (GO:0000278)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron differentiation (GO:0030182)|protein dephosphorylation (GO:0006470)|regulation of circadian rhythm (GO:0042752)|small molecule metabolic process (GO:0044281)|transforming growth factor beta receptor signaling pathway (GO:0007179)|triglyceride catabolic process (GO:0019433)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|focal adhesion (GO:0005925)|kinetochore (GO:0000776)|mitochondrion (GO:0005739)|MLL5-L complex (GO:0070688)|nucleolus (GO:0005730)|nucleus (GO:0005634)|protein complex (GO:0043234)|PTW/PP1 phosphatase complex (GO:0072357)	metal ion binding (GO:0046872)|phosphatase activity (GO:0016791)|phosphoprotein phosphatase activity (GO:0004721)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein serine/threonine phosphatase activity (GO:0004722)			central_nervous_system(1)|large_intestine(2)|lung(3)	6						GATGCTGGCACATTCATGGTT	0.338																																																0													62	67	65					12																	111168372		2203	4300	6503	SO:0001583	missense	5501				CCDS9150.1, CCDS58279.1	12q24.1-q24.2	2013-01-17	2010-03-05		ENSG00000186298	ENSG00000186298	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatase, catalytic subunits"	9283	protein-coding gene	gene with protein product		176914	"protein phosphatase 1, catalytic subunit, gamma isoform"				Standard	NM_002710		Approved	PP1C, PP1gamma	uc021rdx.1	P36873	OTTHUMG00000169531	ENST00000335007.5:c.380G>A	12.37:g.111168372C>T	ENSP00000335084:p.Cys127Tyr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000335007.5	37	CCDS9150.1	.	.	.	.	.	.	.	.	.	.	C	24.3	4.520313	0.85495	.	.	ENSG00000186298	ENST00000335007;ENST00000340766;ENST00000546933;ENST00000550991;ENST00000551676	D;D;D;D;D	0.84589	-1.87;-1.87;-1.87;-1.87;-1.87	5.61	5.61	0.85477	Serine/threonine-specific protein phosphatase/bis(5-nucleosyl)-tetraphosphatase (2);Metallophosphoesterase domain (1);	0.039374	0.85682	D	0.000000	D	0.93015	0.7777	H	0.95611	3.695	0.80722	D	1	P	0.51240	0.943	P	0.50231	0.635	D	0.94583	0.7781	10	0.87932	D	0	-4.8814	19.998	0.97395	0.0:1.0:0.0:0.0	.	127	P36873	PP1G_HUMAN	Y	127;127;136;127;127	ENSP00000335084:C127Y;ENSP00000341779:C127Y;ENSP00000447122:C136Y;ENSP00000448981:C127Y;ENSP00000448437:C127Y	ENSP00000335084:C127Y	C	-	2	0	PPP1CC	109652755	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.692000	0.84203	2.804000	0.96469	0.462000	0.41574	TGT		0.338	PPP1CC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404659.1			T	111168372	C	T	111168372	3	4	608	1	0	0	0	0	1	0	0	0	12361	478	17	2	611	2	PPP1CC	12	111168372	Missense_Mutation	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	30437605	111168372	22683523	65	36872										
SSTR1	6751	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	38678806	38678806	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ctactccgtggtgtgcctggTggggctgtgtgggaactcta	16	9	1	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr14:38678806T>C	ENST00000267377.2	+	3	829	c.212T>C	c.(211-213)gTg>gCg	p.V71A		NM_001049.2	NP_001040.1	P30872	SSR1_HUMAN	somatostatin receptor 1	71					cell surface receptor signaling pathway (GO:0007166)|cell-cell signaling (GO:0007267)|cellular response to estradiol stimulus (GO:0071392)|cerebellum development (GO:0021549)|digestion (GO:0007586)|forebrain development (GO:0030900)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|glutamate receptor signaling pathway (GO:0007215)|negative regulation of cell proliferation (GO:0008285)|response to nutrient (GO:0007584)|response to starvation (GO:0042594)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	somatostatin receptor activity (GO:0004994)			breast(1)|central_nervous_system(3)|endometrium(6)|kidney(1)|large_intestine(6)|lung(8)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	29	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)|Pasireotide(DB06663)	GTGTGCCTGGTGGGGCTGTGT	0.562																																																0													144	130	135					14																	38678806		2203	4300	6503	SO:0001583	missense	6751				CCDS9666.1	14q13	2012-08-08			ENSG00000139874	ENSG00000139874		"GPCR / Class A : Somatostatin receptors"	11330	protein-coding gene	gene with protein product		182451				8449518	Standard	NM_001049		Approved		uc001wul.1	P30872	OTTHUMG00000140249	ENST00000267377.2:c.212T>C	14.37:g.38678806T>C	ENSP00000267377:p.Val71Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000267377.2	37	CCDS9666.1	.	.	.	.	.	.	.	.	.	.	T	14.87	2.664028	0.47572	.	.	ENSG00000139874	ENST00000267377	T	0.20598	2.06	4.74	3.58	0.41010	.	0.000000	0.48767	D	0.000167	T	0.16685	0.0401	L	0.32530	0.975	0.49687	D	0.99981	B	0.31581	0.329	B	0.32090	0.14	T	0.04427	-1.0952	10	0.52906	T	0.07	.	10.861	0.46827	0.0:0.0:0.1584:0.8416	.	71	P30872	SSR1_HUMAN	A	71	ENSP00000267377:V71A	ENSP00000267377:V71A	V	+	2	0	SSTR1	37748557	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.841000	0.86834	0.828000	0.34709	0.533000	0.62120	GTG		0.562	SSTR1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409930.2			C	38678806	T	C	38678806	3	2	608	1	0	0	0	0	1	0	0	0	15209	1696	59	3	214	3	SSTR1	14	38678806	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10		38678806	68670734	66	36873										
ZBTB1	22890	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	64988346	64988346	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ttcaagcacacaaggcagttCtagctgcctgtagctcctat	8	12	2	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr14:64988346C>G	ENST00000554015.1	+	4	555	c.124C>G	c.(124-126)Cta>Gta	p.L42V	ZBTB1_ENST00000358738.3_Missense_Mutation_p.L42V|RP11-973N13.4_ENST00000554918.1_RNA|ZBTB1_ENST00000394712.2_Missense_Mutation_p.L42V			Q9Y2K1	ZBTB1_HUMAN	zinc finger and BTB domain containing 1	42	BTB. {ECO:0000255|PROSITE- ProRule:PRU00037}.				B cell differentiation (GO:0030183)|innate immune response (GO:0045087)|mRNA transcription from RNA polymerase II promoter (GO:0042789)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of natural killer cell differentiation (GO:0032825)|positive regulation of pro-T cell differentiation (GO:2000176)|positive regulation of T cell differentiation (GO:0045582)|positive regulation of T cell mediated immunity (GO:0002711)|protein homooligomerization (GO:0051260)|T cell differentiation in thymus (GO:0033077)|thymus development (GO:0048538)	nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)			kidney(1)|large_intestine(3)|lung(7)|prostate(1)|skin(1)	13		all_lung(585;0.000567)|Myeloproliferative disorder(585;0.0255)|all_neural(303;0.0294)		UCEC - Uterine corpus endometrioid carcinoma (185;0.0182)|all cancers(60;3.78e-43)|OV - Ovarian serous cystadenocarcinoma(108;1.22e-20)|BRCA - Breast invasive adenocarcinoma(234;6.75e-06)|KIRC - Kidney renal clear cell carcinoma(182;0.00269)|STAD - Stomach adenocarcinoma(64;0.012)		CAAGGCAGTTCTAGCTGCCTG	0.393																																																0													106	98	101					14																	64988346		2203	4300	6503	SO:0001583	missense	22890			AB023214	CCDS32097.1, CCDS45126.1	14q23.3	2013-01-09			ENSG00000126804	ENSG00000126804		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	20259	protein-coding gene	gene with protein product						10231032	Standard	NM_014950		Approved	KIAA0997, ZNF909	uc010aqg.3	Q9Y2K1		ENST00000554015.1:c.124C>G	14.37:g.64988346C>G	ENSP00000451000:p.Leu42Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6S8|Q86SW8	Missense_Mutation	SNP	ENST00000554015.1	37	CCDS45126.1	.	.	.	.	.	.	.	.	.	.	C	20.1	3.937405	0.73557	.	.	ENSG00000126804	ENST00000553583;ENST00000556965;ENST00000554015;ENST00000358738;ENST00000394712	D;D;D;D;D	0.89485	-2.52;-2.52;-2.52;-2.52;-2.52	6.16	2.42	0.29668	BTB/POZ-like (2);BTB/POZ (1);BTB/POZ fold (2);	0.250565	0.28219	N	0.016157	D	0.95385	0.8502	H	0.95043	3.615	0.46203	D	0.998929	D;D	0.76494	0.999;0.997	D;D	0.85130	0.994;0.997	D	0.94162	0.7415	10	0.87932	D	0	-10.7701	9.9144	0.41425	0.0:0.6811:0.0:0.3189	.	42;42	Q9Y2K1-2;Q9Y2K1	.;ZBTB1_HUMAN	V	42	ENSP00000451584:L42V;ENSP00000450689:L42V;ENSP00000451000:L42V;ENSP00000351587:L42V;ENSP00000378201:L42V	ENSP00000351587:L42V	L	+	1	2	ZBTB1	64058099	0.970000	0.33590	0.892000	0.35008	0.997000	0.91878	1.715000	0.37971	0.195000	0.20347	0.650000	0.86243	CTA		0.393	ZBTB1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411912.1			G	64988346	C	G	64988346	3	3	608	1	0	0	0	0	1	0	0	0	17534	912	32	4	126	4	ZBTB1	14	64988346	Missense_Mutation	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	26309540	64988346	42361194	67	36874										
WDR20	91833	hgsc.bcm.edu;bcgsc.ca	37	chr14	102674963	102674964	+	Frame_Shift_Ins	INS	-	-	A													0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	taatagacaagtcacgagttINSacctgtgtcaaatgggttcc							TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr14:102674963_102674964insA	ENST00000342702.3	+	3	487_488	c.456_457insA	c.(457-459)accfs	p.T153fs	WDR20_ENST00000545563.1_5'UTR|WDR20_ENST00000299135.6_3'UTR|WDR20_ENST00000335263.5_Frame_Shift_Ins_p.T153fs|WDR20_ENST00000424963.2_Frame_Shift_Ins_p.T29fs|WDR20_ENST00000499851.2_Intron|WDR20_ENST00000322340.5_Intron|WDR20_ENST00000454394.2_Frame_Shift_Ins_p.T184fs|WDR20_ENST00000556511.2_Frame_Shift_Ins_p.T92fs|WDR20_ENST00000556807.1_Frame_Shift_Ins_p.T92fs	NM_001242418.1|NM_144574.3	NP_001229347.1|NP_653175.2	Q8TBZ3	WDR20_HUMAN	WD repeat domain 20	153										breast(1)|large_intestine(2)|lung(4)|prostate(1)	8						AGTCACGAGTTACCTGTGTCAA	0.45																																																0																																										SO:0001589	frameshift_variant	91833			BC028387	CCDS9968.1, CCDS9969.1, CCDS9970.1, CCDS55942.1, CCDS55943.1, CCDS55944.1, CCDS55945.1	14q32.31	2013-01-09				ENSG00000140153		"WD repeat domain containing"	19667	protein-coding gene	gene with protein product							Standard	NM_181291		Approved	DMR, MGC33177, FLJ33659	uc010txu.2	Q8TBZ3		ENST00000342702.3:c.457dupA	14.37:g.102674964_102674964dupA	ENSP00000341037:p.Thr153fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DN18|E7EUY8|F8W9S4|G3V2F8|G3V5R0|H0YJJ1|Q86TU2|Q8NCN7|Q8WXX2|Q9UF86	Frame_Shift_Ins	INS	ENST00000342702.3	37	CCDS9969.1																																																																																				0.45	WDR20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414963.1	NM_181291		A	102674964	-	A	102674963	7	5	608	1	0	1	1	0	0	0	0	0	17292	1741	61	0	483	0	WDR20	14	102674963	Frame_Shift_Ins	INS	-	TCGA-HE-A5NH-01A-11D-A26P-10	37686617	102674963	4674577	68	36875										
C15orf2	23742	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	24921405	24921405	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ctctcctgctgccttcaccaCgtgagccggcggtcaaggcc	11	17	3	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr15:24921405C>T	ENST00000329468.2	+	1	865	c.391C>T	c.(391-393)Cgt>Tgt	p.R131C		NM_018958.2	NP_061831.2	Q9NZP6	NPAP1_HUMAN	nuclear pore associated protein 1	131					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)		p.R131C(1)									GCCTTCACCACGTGAGCCGGC	0.627																																																1	Substitution - Missense(1)	endometrium(1)											51	43	46					15																	24921405		2203	4300	6503	SO:0001583	missense	23742			AF179681	CCDS10015.1	15q11-q13	2012-07-19	2012-06-14	2012-06-14	ENSG00000185823	ENSG00000185823			1190	protein-coding gene	gene with protein product		610922	"chromosome 15 open reading frame 2"	C15orf2		10783265, 22694955	Standard	NM_018958		Approved		uc001ywo.3	Q9NZP6	OTTHUMG00000129179	ENST00000329468.2:c.391C>T	15.37:g.24921405C>T	ENSP00000333735:p.Arg131Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000329468.2	37	CCDS10015.1	.	.	.	.	.	.	.	.	.	.	.	7.490	0.650540	0.14516	.	.	ENSG00000185823	ENST00000329468	T	0.06294	3.32	2.27	1.33	0.21861	.	4.968620	0.00575	N	0.000313	T	0.05410	0.0143	N	0.14661	0.345	0.09310	N	1	P	0.43094	0.799	B	0.37780	0.258	T	0.39643	-0.9604	10	0.56958	D	0.05	.	8.6687	0.34137	0.2269:0.7731:0.0:0.0	.	131	Q9NZP6	CO002_HUMAN	C	131	ENSP00000333735:R131C	ENSP00000333735:R131C	R	+	1	0	C15orf2	22472498	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	0.028000	0.13644	0.082000	0.17018	-2.175000	0.00321	CGT		0.627	NPAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251253.1	NM_018958		T	24921405	C	T	24921405	3	4	608	1	0	0	0	0	1	0	0	0	1786	536	19	1	393	1	C15orf2	15	24921405	Missense_Mutation	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10		24921405	77609987	69	36876										
TJP1	7082	ucsc.edu;bcgsc.ca	37	chr15	30010892	30010892	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ttcgtgccgcagggcggatgCtctaggtgcctgttcgtaac	14	11	1	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr15:30010892C>A	ENST00000346128.6	-	21	3928	c.3454G>T	c.(3454-3456)Gca>Tca	p.A1152S	TJP1_ENST00000356107.6_Missense_Mutation_p.A1152S|TJP1_ENST00000400011.2_Missense_Mutation_p.A1076S|TJP1_ENST00000545208.2_Missense_Mutation_p.A1072S	NM_003257.3|NM_175610.2	NP_003248.3|NP_783297.2	Q07157	ZO1_HUMAN	tight junction protein 1	1152					apoptotic process (GO:0006915)|blastocyst formation (GO:0001825)|cell-cell junction assembly (GO:0007043)|cell-cell signaling involved in cell-cell junction organization (GO:1901350)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular response to glucose stimulus (GO:0071333)|hippo signaling (GO:0035329)|membrane organization (GO:0061024)|negative regulation of vascular permeability (GO:0043116)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to lipopolysaccharide (GO:0032496)|response to magnetism (GO:0071000)|sensory perception of sound (GO:0007605)	apical junction complex (GO:0043296)|apical part of cell (GO:0045177)|apical plasma membrane (GO:0016324)|apicolateral plasma membrane (GO:0016327)|basolateral plasma membrane (GO:0016323)|cell junction (GO:0030054)|cell-cell adherens junction (GO:0005913)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|gap junction (GO:0005921)|intercalated disc (GO:0014704)|intercellular canaliculus (GO:0046581)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|tight junction (GO:0005923)				breast(4)|central_nervous_system(2)|endometrium(8)|kidney(3)|large_intestine(12)|liver(1)|lung(29)|ovary(4)|pancreas(1)|prostate(3)|urinary_tract(1)	68		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)		AGGGCGGATGCTCTAGGTGCC	0.597																																					Melanoma(77;681 1843 6309 6570)											0													101	106	104					15																	30010892		2100	4228	6328	SO:0001583	missense	7082				CCDS42007.1, CCDS45199.1, CCDS73702.1	15q13	2012-07-12	2012-07-12		ENSG00000104067	ENSG00000104067			11827	protein-coding gene	gene with protein product	"zona occludens 1", "tight junction protein ZO-1"	601009				8825647	Standard	XM_005254616		Approved	ZO-1, MGC133289, DKFZp686M05161	uc001zcr.3	Q07157	OTTHUMG00000137397	ENST00000346128.6:c.3454G>T	15.37:g.30010892C>A	ENSP00000281537:p.Ala1152Ser	Somatic		WXS	Illumina HiSeq		B4E3K1|Q2NKP3|Q4ZGJ6	Missense_Mutation	SNP	ENST00000346128.6	37	CCDS42007.1	.	.	.	.	.	.	.	.	.	.	C	1.722	-0.496273	0.04291	.	.	ENSG00000104067	ENST00000346128;ENST00000400011;ENST00000545208;ENST00000400007;ENST00000356107	T;T	0.05786	3.39;3.5	6.05	2.57	0.30868	.	0.392909	0.28612	N	0.014722	T	0.02380	0.0073	N	0.03608	-0.345	0.80722	D	1	B;B;B;B	0.14438	0.0;0.0;0.0;0.01	B;B;B;B	0.17098	0.001;0.002;0.001;0.017	T	0.49041	-0.8980	10	0.13108	T	0.6	.	5.5402	0.17033	0.0:0.2831:0.1345:0.5823	.	1145;1072;1152;1076	A9CQZ8;Q07157-2;Q07157;G5E9E7	.;.;ZO1_HUMAN;.	S	1152;1076;1152;1072;1072	ENSP00000281537:A1152S;ENSP00000382890:A1076S	ENSP00000281537:A1152S	A	-	1	0	TJP1	27798184	1.000000	0.71417	0.134000	0.22075	0.106000	0.19336	2.424000	0.44714	0.191000	0.20236	-0.312000	0.09012	GCA		0.597	TJP1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000268237.3	NM_003257		A	30010892	C	A	30010892	3	1	608	1	0	0	0	0	1	0	0	0	15941	797	28	4	1824	4	TJP1	15	30010892	Missense_Mutation	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	5089487	30010892	72520500	70	36877										
C15orf52	388115	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	40631768	40631768	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	caggctggaggagtgctggtGtggtcacagccatccccccc	14	14	1	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr15:40631768G>A	ENST00000559313.1	-	3	323	c.308C>T	c.(307-309)aCa>aTa	p.T103I	C15orf52_ENST00000557973.1_5'Flank|C15orf52_ENST00000397536.2_5'Flank	NM_207380.2	NP_997263.2	Q6ZUT6	CO052_HUMAN	chromosome 15 open reading frame 52	103							poly(A) RNA binding (GO:0044822)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(9)|urinary_tract(1)	19		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.06e-06)|Colorectal(105;0.0107)|BRCA - Breast invasive adenocarcinoma(123;0.0505)|READ - Rectum adenocarcinoma(2;0.0649)|Lung(196;0.0781)|LUAD - Lung adenocarcinoma(183;0.0841)		GAGTGCTGGTGTGGTCACAGC	0.662																																																0													85	94	91					15																	40631768		2140	4235	6375	SO:0001583	missense	388115			AK124643	CCDS10055.2	15q15.1	2007-06-14			ENSG00000188549	ENSG00000188549			33488	protein-coding gene	gene with protein product							Standard	NM_207380		Approved	FLJ43339	uc001zlh.4	Q6ZUT6	OTTHUMG00000129981	ENST00000559313.1:c.308C>T	15.37:g.40631768G>A	ENSP00000453969:p.Thr103Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B9EIQ8|Q68DG9|Q6ZTM3|Q6ZU22	Missense_Mutation	SNP	ENST00000559313.1	37	CCDS10055.2	.	.	.	.	.	.	.	.	.	.	G	17.63	3.436789	0.62955	.	.	ENSG00000188549	ENST00000382688	.	.	.	5.17	4.24	0.50183	.	0.513303	0.17847	N	0.160005	T	0.61098	0.2320	M	0.67953	2.075	0.19575	N	0.999964	D	0.63046	0.992	P	0.59357	0.856	T	0.54443	-0.8293	9	0.72032	D	0.01	-2.0548	11.0227	0.47728	0.0:0.0:0.8139:0.1861	.	103	Q6ZUT6	CO052_HUMAN	I	103	.	ENSP00000372135:T103I	T	-	2	0	C15orf52	38419060	0.145000	0.22656	0.060000	0.19600	0.492000	0.33523	2.204000	0.42761	1.152000	0.42452	0.563000	0.77884	ACA		0.662	C15orf52-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319567.2	NM_207380		A	40631768	G	A	40631768	3	1	608	1	0	0	0	0	1	0	0	0	1802	1377	48	2	1332	2	C15orf52	15	40631768	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10	10620876	40631768	61899624	71	36878										
UNC13C	440279	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	54557623	54557623	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ccatatgttacagttcaagtTggaaagaacaaaagaagaac	8	6	1	3			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr15:54557623T>A	ENST00000260323.11	+	9	3747	c.3747T>A	c.(3745-3747)gtT>gtA	p.V1249V	UNC13C_ENST00000537900.1_Silent_p.V1247V|UNC13C_ENST00000545554.1_Silent_p.V1249V	NM_001080534.1	NP_001074003.1	Q8NB66	UN13C_HUMAN	unc-13 homolog C (C. elegans)	1249	C2 1. {ECO:0000255|PROSITE- ProRule:PRU00041}.				exocytosis (GO:0006887)|intracellular signal transduction (GO:0035556)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|plasma membrane (GO:0005886)|presynaptic active zone (GO:0048786)	diacylglycerol binding (GO:0019992)|metal ion binding (GO:0046872)			breast(3)|endometrium(5)|kidney(5)|large_intestine(20)|lung(70)|ovary(6)|pancreas(2)|prostate(2)|upper_aerodigestive_tract(4)|urinary_tract(4)	121				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		CAGTTCAAGTTGGAAAGAACA	0.318																																																0													54	50	51					15																	54557623		1800	4067	5867	SO:0001819	synonymous_variant	440279			AK091491	CCDS45264.1	15q21.3	2012-10-02			ENSG00000137766	ENSG00000137766			23149	protein-coding gene	gene with protein product		614568					Standard	NM_001080534		Approved	Munc13-3, DKFZp547H074	uc021smr.1	Q8NB66	OTTHUMG00000172542	ENST00000260323.11:c.3747T>A	15.37:g.54557623T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q0P613|Q8ND48|Q96NP3	Silent	SNP	ENST00000260323.11	37	CCDS45264.1																																																																																				0.318	UNC13C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000419028.3	NM_173166		A	54557623	T	A	54557623	2	1	608	1	0	0	0	0	0	0	0	1	16998	1799	63	5		5	UNC13C	15	54557623	Silent	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	13925855	54557623	47973769	72	36879										
SNX1	6642	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	64424017	64424017	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	aaattgagcagctccaccagGaacaggccaacaatgacttc	8	12	0	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr15:64424017G>C	ENST00000559844.1	+	11	1161	c.1147G>C	c.(1147-1149)Gaa>Caa	p.E383Q	SNX1_ENST00000561026.1_Missense_Mutation_p.E318Q|SNX1_ENST00000560829.1_Missense_Mutation_p.E165Q|SNX1_ENST00000261889.5_Missense_Mutation_p.E383Q|SNX1_ENST00000353874.4_Missense_Mutation_p.E383Q			Q13596	SNX1_HUMAN	sorting nexin 1	383	BAR.				early endosome to Golgi transport (GO:0034498)|intracellular protein transport (GO:0006886)|positive regulation of protein catabolic process (GO:0045732)	cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|early endosome membrane (GO:0031901)|endosome membrane (GO:0010008)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|protein complex (GO:0043234)|retromer complex (GO:0030904)	epidermal growth factor receptor binding (GO:0005154)|insulin receptor binding (GO:0005158)|leptin receptor binding (GO:1990460)|phosphatidylinositol binding (GO:0035091)|transferrin receptor binding (GO:1990459)			breast(1)|endometrium(1)|large_intestine(5)|lung(4)|skin(1)|upper_aerodigestive_tract(1)	13						GCTCCACCAGGAACAGGCCAA	0.537																																																0													125	118	120					15																	64424017		2203	4300	6503	SO:0001583	missense	6642			BC000357	CCDS32266.1, CCDS32268.1, CCDS58371.1	15q22.31	2011-05-03			ENSG00000028528	ENSG00000028528		"Sorting nexins"	11172	protein-coding gene	gene with protein product		601272				8638121	Standard	NM_003099		Approved	SNX1A, MGC8664, HsT17379, Vps5	uc010uio.2	Q13596		ENST00000559844.1:c.1147G>C	15.37:g.64424017G>C	ENSP00000453785:p.Glu383Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NM19|A8K6T7|H0Y2M5|O60750|O60751|Q6ZRJ8	Missense_Mutation	SNP	ENST00000559844.1	37	CCDS32266.1	.	.	.	.	.	.	.	.	.	.	G	21.6	4.180341	0.78677	.	.	ENSG00000028528	ENST00000380285;ENST00000353874;ENST00000261889	T	0.32023	1.47	5.2	5.2	0.72013	Vps5 C-terminal (1);	0.092925	0.64402	D	0.000001	T	0.38532	0.1044	L	0.45137	1.4	0.80722	D	1	P;B;P;P;B;P;P	0.47106	0.89;0.167;0.74;0.74;0.365;0.475;0.571	P;B;P;P;B;B;B	0.48952	0.596;0.34;0.513;0.457;0.142;0.411;0.378	T	0.09885	-1.0654	10	0.52906	T	0.07	-19.057	17.8936	0.88879	0.0:0.0:1.0:0.0	.	383;293;383;383;318;383;383	Q6ZRJ8;Q59GU6;Q53HL9;Q53GY8;Q13596-2;A6NKH4;Q13596	.;.;.;.;.;.;SNX1_HUMAN	Q	383;383;318	ENSP00000326668:E383Q	ENSP00000261889:E318Q	E	+	1	0	SNX1	62211070	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	9.657000	0.98554	2.693000	0.91896	0.561000	0.74099	GAA		0.537	SNX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418559.1	NM_003099		C	64424017	G	C	64424017	3	2	608	1	0	0	0	0	1	0	0	0	14893	1175	41	4	1189	4	SNX1	15	64424017	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10	9866394	64424017	38107375	73	36880										
ANP32A	8125	ucsc.edu	37	chr15	69072440	69072440	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ttagtcatcatcttctccctCatcttcaggttctcgttttc	4	13	8	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr15:69072440C>A	ENST00000465139.2	-	7	873	c.730G>T	c.(730-732)Gag>Tag	p.E244*	ANP32A_ENST00000483551.2_5'UTR	NM_006305.3	NP_006296.1	P39687	AN32A_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32 family, member A	244	Asp/Glu-rich (highly acidic).|Interaction with E4F1. {ECO:0000250}.				gene expression (GO:0010467)|intracellular signal transduction (GO:0035556)|mRNA metabolic process (GO:0016071)|nucleocytoplasmic transport (GO:0006913)|regulation of transcription, DNA-templated (GO:0006355)|RNA metabolic process (GO:0016070)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	poly(A) RNA binding (GO:0044822)			endometrium(1)|large_intestine(1)|lung(2)	4						TCTTCTCCCTCATCTTCAGGT	0.408																																																0													64	71	69					15																	69072440		2199	4298	6497	SO:0001587	stop_gained	8125			AF025684	CCDS45292.1	15q23	2008-05-14			ENSG00000140350	ENSG00000140350		"ANP32 acidic nuclear phosphoproteins"	13233	protein-coding gene	gene with protein product		600832		C15orf1		8970164, 9144194	Standard	NM_006305		Approved	LANP, PP32, I1PP2A, PHAPI, MAPM, mapmodulin	uc002arl.3	P39687	OTTHUMG00000154502	ENST00000465139.2:c.730G>T	15.37:g.69072440C>A	ENSP00000417864:p.Glu244*	Somatic		WXS	Illumina HiSeq		B2R6T4|Q53FK4|Q5J8L8|Q7M4N6	Nonsense_Mutation	SNP	ENST00000465139.2	37	CCDS45292.1	.	.	.	.	.	.	.	.	.	.	C	36	5.661156	0.96734	.	.	ENSG00000140350	ENST00000465139	.	.	.	5.11	5.11	0.69529	.	0.138458	0.64402	D	0.000004	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.48119	T	0.1	.	17.8884	0.88864	0.0:1.0:0.0:0.0	.	.	.	.	X	244	.	ENSP00000417864:E244X	E	-	1	0	ANP32A	66859494	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.769000	0.74985	2.537000	0.85549	0.561000	0.74099	GAG		0.408	ANP32A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335525.2			A	69072440	C	A	69072440	4	1	608	1	0	0	0	0	0	1	0	0	705	835	29	4	23	4	ANP32A	15	69072440	Nonsense_Mutation	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	4648423	69072440	33458952	74	36881										
ALPK3	57538	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	85411510	85411510	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	aagagtccatctgctggcagGaaaggctcccagctgagtcc	12	12	1	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr15:85411510G>C	ENST00000258888.5	+	14	5714	c.5547G>C	c.(5545-5547)agG>agC	p.R1849S		NM_020778.4	NP_065829.3	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1849					heart development (GO:0007507)	nucleus (GO:0005634)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			NS(3)|breast(2)|central_nervous_system(2)|endometrium(12)|kidney(4)|large_intestine(9)|lung(27)|ovary(3)|prostate(5)|skin(8)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	81			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CTGCTGGCAGGAAAGGCTCCC	0.627																																																0													56	65	62					15																	85411510		2203	4299	6502	SO:0001583	missense	57538			AY044449	CCDS10333.1	15q25.2	2013-01-29			ENSG00000136383	ENSG00000136383		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	17574	protein-coding gene	gene with protein product	"myocyte induction differentiation originator", "muscle alpha-kinase"					10021370	Standard	NM_020778		Approved	MAK, KIAA1330, Midori	uc002ble.3	Q96L96	OTTHUMG00000148667	ENST00000258888.5:c.5547G>C	15.37:g.85411510G>C	ENSP00000258888:p.Arg1849Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q9P2L6	Missense_Mutation	SNP	ENST00000258888.5	37	CCDS10333.1	.	.	.	.	.	.	.	.	.	.	G	18.38	3.610641	0.66558	.	.	ENSG00000136383	ENST00000258888	T	0.68903	-0.36	3.93	1.99	0.26369	.	0.271361	0.27778	N	0.017892	T	0.76307	0.3969	M	0.74258	2.255	0.37283	D	0.907916	D;D	0.89917	1.0;0.999	D;D	0.87578	0.998;0.996	T	0.75625	-0.3253	10	0.54805	T	0.06	-23.6009	5.715	0.17954	0.3613:0.0:0.6387:0.0	.	150;1849	B4DU37;Q96L96	.;ALPK3_HUMAN	S	1849	ENSP00000258888:R1849S	ENSP00000258888:R1849S	R	+	3	2	ALPK3	83212514	1.000000	0.71417	0.996000	0.52242	0.906000	0.53458	0.646000	0.24797	0.408000	0.25621	0.313000	0.20887	AGG		0.627	ALPK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000308997.1	NM_020778		C	85411510	G	C	85411510	3	2	608	1	0	0	0	0	1	0	0	0	546	1165	41	4	5601	4	ALPK3	15	85411510	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10	16339070	85411510	17119882	75	36882										
BTBD12	84464	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	3645657	3645657	+	Frame_Shift_Del	DEL	C	C	-													0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	tcctgcgatggcaccacaaaCccagtcagaggaaggccgcc							TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr16:3645657delC	ENST00000294008.3	-	9	2602	c.1962delG	c.(1960-1962)gggfs	p.G654fs		NM_032444.2	NP_115820.2	Q8IY92	SLX4_HUMAN	SLX4 structure-specific endonuclease subunit	654	Interaction with SLX4IP, ERCC4 and MSH2.				DNA catabolic process, endonucleolytic (GO:0000737)|DNA double-strand break processing involved in repair via single-strand annealing (GO:0010792)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|double-strand break repair via homologous recombination (GO:0000724)|nucleotide-excision repair (GO:0006289)|positive regulation of catalytic activity (GO:0043085)|response to intra-S DNA damage checkpoint signaling (GO:0072429)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|Slx1-Slx4 complex (GO:0033557)	5'-flap endonuclease activity (GO:0017108)|enzyme activator activity (GO:0008047)			breast(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(18)|lung(20)|ovary(3)|pancreas(1)|prostate(7)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	76						GCACCACAAACCCAGTCAGAG	0.627								Direct reversal of damage																																								0													63	65	64					16																	3645657		2197	4300	6497	SO:0001589	frameshift_variant	84464			AB058687	CCDS10506.2	16p13.3	2014-09-17	2013-06-05	2010-09-13	ENSG00000188827	ENSG00000188827		"Fanconi anemia, complementation groups", "BTB/POZ domain containing"	23845	protein-coding gene	gene with protein product	"Fanconi anemia, complementation group P"	613278	"BTB (POZ) domain containing 12", "SLX4 structure-specific endonuclease subunit homolog (S. cerevisiae)"	BTBD12		11347906, 19595721	Standard	NM_032444		Approved	KIAA1784, KIAA1987, FANCP	uc002cvp.2	Q8IY92	OTTHUMG00000074089	ENST00000294008.3:c.1962delG	16.37:g.3645657delC	ENSP00000294008:p.Gly654fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q69YT8|Q8TF15|Q96JP1	Frame_Shift_Del	DEL	ENST00000294008.3	37	CCDS10506.2																																																																																				0.627	SLX4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157301.3	NM_032444		-	3645657	C	-	3645657	7	5	608	1	0	1	0	1	0	0	0	0	1542	494	18	0	3570	0	BTBD12	16	3645657	Frame_Shift_Del	DEL	C	TCGA-HE-A5NH-01A-11D-A26P-10		3645657	86709096	76	36883										
LOC100132247	100132247	broad.mit.edu;bcgsc.ca	37	chr16	22545906	22545906	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gataatatcaagacacctgcCgagcgtctgcgggggccgct	13	12	2	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr16:22545906C>T	ENST00000517539.1	+	8	1677	c.1602C>T	c.(1600-1602)gcC>gcT	p.A534A	NPIPB5_ENST00000424340.1_Silent_p.A534A|NPIPB5_ENST00000415654.1_3'UTR			A8MRT5	NPIB5_HUMAN	nuclear pore complex interacting protein family, member B5	534	Pro-rich.					integral component of membrane (GO:0016021)											AGACACCTGCCGAGCGTCTGC	0.592																																																0													4	4	4					16																	22545906		650	1439	2089	SO:0001819	synonymous_variant	0				CCDS45443.1	16p12.2	2013-06-11			ENSG00000243716	ENSG00000243716			37233	protein-coding gene	gene with protein product							Standard	NM_001135865		Approved			A8MRT5	OTTHUMG00000163573	ENST00000517539.1:c.1602C>T	16.37:g.22545906C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DK13	Silent	SNP	ENST00000517539.1	37	CCDS45443.1																																																																																				0.592	NPIPB5-002	NOVEL	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374343.2	NM_001135865		T	22545906	C	T	22545906	2	4	608	1	0	0	0	0	0	0	0	1	8875	639	23	1		1	LOC100132247	16	22545906	Silent	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	18900249	22545906	67808847	77	36884										
ZNF668	79759	broad.mit.edu;bcgsc.ca	37	chr16	31072415	31072415	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	cggcccctcttcaggcattcCtagcaaagccaccaggggct	10	16	2	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr16:31072415C>G	ENST00000538906.1	-	3	2618	c.1834G>C	c.(1834-1836)Gga>Cga	p.G612R	ZNF668_ENST00000426488.2_Missense_Mutation_p.G635R|ZNF668_ENST00000535577.1_Missense_Mutation_p.G612R|ZNF668_ENST00000539836.3_Missense_Mutation_p.G635R|ZNF668_ENST00000417110.2_5'Flank|ZNF668_ENST00000394983.2_Missense_Mutation_p.G612R|ZNF668_ENST00000300849.4_Missense_Mutation_p.G612R	NM_001172668.1	NP_001166139	Q96K58	ZN668_HUMAN	zinc finger protein 668	612					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(6)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(3)|lung(9)|ovary(1)|prostate(1)|urinary_tract(1)	27						TCAGGCATTCCTAGCAAAGCC	0.657																																					Colon(181;1111 1980 5060 10512 25785)											0													32	40	37					16																	31072415		2158	4276	6434	SO:0001583	missense	79759				CCDS10701.1, CCDS54003.1	16p11.2	2013-01-08			ENSG00000167394	ENSG00000167394		"Zinc fingers, C2H2-type"	25821	protein-coding gene	gene with protein product						12477932	Standard	NM_024706		Approved	FLJ13479	uc021tgt.1	Q96K58	OTTHUMG00000047357	ENST00000538906.1:c.1834G>C	16.37:g.31072415C>G	ENSP00000440149:p.Gly612Arg	Somatic		WXS	Illumina HiSeq	Phase_I	C9JHH8|F5H7E7|Q59EV1|Q8N669|Q9H8L4	Missense_Mutation	SNP	ENST00000538906.1	37	CCDS10701.1	.	.	.	.	.	.	.	.	.	.	C	20.5	4.004650	0.74932	.	.	ENSG00000167394	ENST00000539836;ENST00000535577;ENST00000538906;ENST00000394983;ENST00000300849	T;T;T;T;T	0.07327	3.2;3.22;3.22;3.22;3.22	5.05	5.05	0.67936	.	0.417562	0.21039	N	0.081215	T	0.10078	0.0247	N	0.14661	0.345	0.42318	D	0.992244	D	0.54207	0.965	P	0.51016	0.656	T	0.40021	-0.9585	10	0.29301	T	0.29	-5.1861	17.3426	0.87301	0.0:1.0:0.0:0.0	.	612	Q96K58	ZN668_HUMAN	R	635;612;612;612;612	ENSP00000442573:G635R;ENSP00000441349:G612R;ENSP00000440149:G612R;ENSP00000378434:G612R;ENSP00000300849:G612R	ENSP00000300849:G612R	G	-	1	0	ZNF668	30979916	0.358000	0.24947	1.000000	0.80357	0.908000	0.53690	2.421000	0.44688	2.640000	0.89533	0.561000	0.74099	GGA		0.657	ZNF668-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000108516.2	NM_024706		G	31072415	C	G	31072415	3	3	608	1	0	0	0	0	1	0	0	0	18087	690	24	4	29	4	ZNF668	16	31072415	Missense_Mutation	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	8526509	31072415	59282338	78	36885										
CES3	23491	broad.mit.edu	37	chr16	66997181	66997181	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ccgccttgtgaatgtctttcTgggcattccatttgcccagc	9	13	2	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr16:66997181T>G	ENST00000303334.4	+	2	253	c.182T>G	c.(181-183)cTg>cGg	p.L61R	RP11-361L15.4_ENST00000566869.1_RNA|CES3_ENST00000394037.1_Missense_Mutation_p.L61R	NM_024922.5	NP_079198.2	Q6UWW8	EST3_HUMAN	carboxylesterase 3	61						endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)	carboxylic ester hydrolase activity (GO:0052689)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(4)|lung(6)|ovary(3)|skin(1)	24		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0488)|Epithelial(162;0.127)		AATGTCTTTCTGGGCATTCCA	0.662																																																0													59	62	61					16																	66997181		2200	4300	6500	SO:0001583	missense	23491			AK025389	CCDS10826.1, CCDS54022.1, CCDS54023.1	16q22.1	2014-05-13	2008-07-25		ENSG00000172828	ENSG00000172828		"Carboxylesterases"	1865	protein-coding gene	gene with protein product	"esterase 31", "brain carboxylesterase BR3"	605279	"carboxylesterase 3 (brain)"			10518925, 14581373, 15100172, 20931200	Standard	NM_001185176		Approved	FLJ21736, ES31	uc002eqt.3	Q6UWW8	OTTHUMG00000137525	ENST00000303334.4:c.182T>G	16.37:g.66997181T>G	ENSP00000304782:p.Leu61Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2Z3W9|F5H242|Q7Z6J1|Q9H6X7	Missense_Mutation	SNP	ENST00000303334.4	37	CCDS10826.1	.	.	.	.	.	.	.	.	.	.	T	15.62	2.887142	0.52014	.	.	ENSG00000172828	ENST00000303334;ENST00000394037	T;T	0.70749	-0.51;-0.51	4.31	3.19	0.36642	Carboxylesterase, type B (1);	0.000000	0.30752	N	0.008957	T	0.74504	0.3725	L	0.48260	1.515	0.80722	D	1	D	0.65815	0.995	P	0.61722	0.893	T	0.74682	-0.3583	10	0.87932	D	0	.	9.289	0.37775	0.1615:0.0:0.0:0.8385	.	61	Q6UWW8	EST3_HUMAN	R	61	ENSP00000304782:L61R;ENSP00000377602:L61R	ENSP00000304782:L61R	L	+	2	0	CES3	65554682	1.000000	0.71417	1.000000	0.80357	0.163000	0.22366	6.725000	0.74752	0.748000	0.32831	0.533000	0.62120	CTG		0.662	CES3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000268848.1	NM_024922		G	66997181	T	G	66997181	3	3	608	1	0	0	0	0	1	0	0	0	3273	1580	55	5	188	5	CES3	16	66997181	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	35924766	66997181	23357572	79	36886										
PKD1L2	114780	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	81193369	81193369	+	RNA	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gaccacagtcaaatagtagaCcccttctccaaaacgcaggt	7	13	2	1	rs566575678	byFrequency	TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr16:81193369C>G	ENST00000525539.1	-	0	3753				PKD1L2_ENST00000533478.1_RNA	NM_052892.3	NP_443124.3	Q7Z442	PK1L2_HUMAN	polycystic kidney disease 1-like 2						ion transport (GO:0006811)|neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)|carbohydrate binding (GO:0030246)			breast(2)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(9)|lung(20)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	44						AAATAGTAGACCCCTTCTCCA	0.587																																																0													47	49	48					16																	81193369		1997	4182	6179			114780			AY164483	CCDS61998.1, CCDS61999.1	16q23.2	2014-09-11			ENSG00000166473	ENSG00000166473			21715	protein-coding gene	gene with protein product		607894				12782129	Standard	NM_052892		Approved	KIAA1879	uc002fgf.1	Q7Z442	OTTHUMG00000166126		16.37:g.81193369C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UEE1|Q6ZN46|Q6ZSP2|Q8N1H9|Q96CL2|Q96Q08	Missense_Mutation	SNP	ENST00000525539.1	37																																																																																					0.587	PKD1L2-001	KNOWN	non_canonical_polymorphism|basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000387972.2			G	81193369	C	G	81193369	1	3	608	0	1	0	0	0	0	0	0	0	11972	507	18	4		4	PKD1L2	16	81193369	RNA	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	14196188	81193369	9161384	80	36887										
SSH2	85464	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	27959441	27959441	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	aagaatcattctttgaattcTtacgagtggacaatgaggta	9	5	3	3			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr17:27959441T>A	ENST00000269033.3	-	15	2841	c.2690A>T	c.(2689-2691)aAg>aTg	p.K897M	RP11-68I3.2_ENST00000581474.1_RNA|SSH2_ENST00000540801.1_Missense_Mutation_p.K924M	NM_001282129.1|NM_033389.2	NP_001269058.1|NP_203747.2	Q76I76	SSH2_HUMAN	slingshot protein phosphatase 2	897					actin cytoskeleton organization (GO:0030036)|protein dephosphorylation (GO:0006470)|regulation of actin polymerization or depolymerization (GO:0008064)|regulation of axonogenesis (GO:0050770)|regulation of lamellipodium assembly (GO:0010591)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular space (GO:0005615)	actin binding (GO:0003779)|DNA binding (GO:0003677)|phosphoprotein phosphatase activity (GO:0004721)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)		SSH2/SUZ12(2)	breast(1)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(5)|lung(16)|ovary(1)|prostate(1)|skin(5)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	39						CTTTGAATTCTTACGAGTGGA	0.502																																																0													184	192	189					17																	27959441		2203	4300	6503	SO:0001583	missense	85464			AB072359	CCDS11253.1, CCDS74024.1	17q11.2	2013-03-05	2013-03-05		ENSG00000141298	ENSG00000141298		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Slingshots"	30580	protein-coding gene	gene with protein product		606779	"slingshot homolog 2 (Drosophila)"			11832213, 11214970	Standard	XM_005258059		Approved	KIAA1725	uc002heo.1	Q76I76	OTTHUMG00000132752	ENST00000269033.3:c.2690A>T	17.37:g.27959441T>A	ENSP00000269033:p.Lys897Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TDB5|Q8WYL1|Q8WYL2|Q96F40|Q96H36|Q9C0D8	Missense_Mutation	SNP	ENST00000269033.3	37	CCDS11253.1	.	.	.	.	.	.	.	.	.	.	T	18.26	3.585604	0.66105	.	.	ENSG00000141298	ENST00000269033;ENST00000540801	T;T	0.19806	2.14;2.12	5.97	4.89	0.63831	.	0.456816	0.25546	N	0.029933	T	0.43809	0.1264	M	0.66939	2.045	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.998	T	0.36407	-0.9749	10	0.87932	D	0	-19.645	11.9775	0.53100	0.0:0.0675:0.0:0.9325	.	924;897	F5H527;Q76I76	.;SSH2_HUMAN	M	897;924	ENSP00000269033:K897M;ENSP00000444743:K924M	ENSP00000269033:K897M	K	-	2	0	SSH2	24983567	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	5.807000	0.69157	1.089000	0.41292	0.472000	0.43445	AAG		0.502	SSH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256116.1	NM_033389		A	27959441	T	A	27959441	3	1	608	1	0	0	0	0	1	0	0	0	15197	1609	56	5	1585	5	SSH2	17	27959441	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10		27959441	53235769	81	36888										
TGIF1	7050	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr18	3452341	3452341	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ccccatcccagggcgcacagGgtccagctcctcggcgccga	12	19	0	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr18:3452341G>C	ENST00000330513.5	+	1	667	c.364G>C	c.(364-366)Ggt>Cgt	p.G122R	TGIF1_ENST00000407501.2_Intron|TGIF1_ENST00000577543.1_Intron|TGIF1_ENST00000405385.3_Intron|TGIF1_ENST00000551402.1_Intron|TGIF1_ENST00000551541.1_Intron|TGIF1_ENST00000548489.2_Intron|TGIF1_ENST00000343820.5_Intron|TGIF1_ENST00000400167.2_5'Flank|TGIF1_ENST00000401449.1_Intron|TGIF1_ENST00000345133.5_Intron	NM_170695.2	NP_733796.2	Q15583	TGIF1_HUMAN	TGFB-induced factor homeobox 1	122					determination of left/right symmetry (GO:0007368)|dorsal/ventral pattern formation (GO:0009953)|gene expression (GO:0010467)|multicellular organismal development (GO:0007275)|negative regulation of cell proliferation (GO:0008285)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neural tube closure (GO:0001843)|nodal signaling pathway (GO:0038092)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of neuron differentiation (GO:0045666)|regulation of gastrulation (GO:0010470)|response to drug (GO:0042493)|retina development in camera-type eye (GO:0060041)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	nucleoplasm (GO:0005654)	chromatin binding (GO:0003682)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			cervix(1)|endometrium(3)|large_intestine(4)|lung(2)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	13	Esophageal squamous(4;0.0859)	Colorectal(8;0.0104)				GGGCGCACAGGGTCCAGCTCC	0.687																																																0													14	16	15					18																	3452341		2171	4257	6428	SO:0001583	missense	7050			X89750	CCDS11832.1, CCDS11833.1, CCDS11834.1, CCDS11835.1	18p11.31	2011-06-20	2007-01-30	2007-01-30	ENSG00000177426	ENSG00000177426		"Homeoboxes / TALE class"	11776	protein-coding gene	gene with protein product		602630	"TGFB-induced factor (TALE family homeobox)"	HPE4, TGIF		8537382, 10835638	Standard	NM_173211		Approved		uc002klz.3	Q15583	OTTHUMG00000131511	ENST00000330513.5:c.364G>C	18.37:g.3452341G>C	ENSP00000327959:p.Gly122Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NE42|A6NLU7|F8VZB6|Q6ICR0|Q8N5X9|Q9NRS0	Missense_Mutation	SNP	ENST00000330513.5	37	CCDS11834.1	.	.	.	.	.	.	.	.	.	.	G	16.14	3.037731	0.54896	.	.	ENSG00000177426	ENST00000330513	T	0.52295	0.67	3.89	3.01	0.34805	.	.	.	.	.	T	0.37348	0.1000	L	0.38175	1.15	0.21473	N	0.999675	P	0.44877	0.845	B	0.41813	0.367	T	0.15235	-1.0444	9	0.52906	T	0.07	3.9769	7.1745	0.25736	0.1232:0.0:0.8768:0.0	.	122	Q15583	TGIF1_HUMAN	R	122	ENSP00000327959:G122R	ENSP00000327959:G122R	G	+	1	0	TGIF1	3442341	0.004000	0.15560	0.040000	0.18447	0.018000	0.09664	1.238000	0.32707	0.855000	0.35359	0.655000	0.94253	GGT		0.687	TGIF1-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000254368.4	NM_170695		C	3452341	G	C	3452341	3	2	608	1	0	0	0	0	1	0	0	0	15837	1232	43	4	448	4	TGIF1	18	3452341	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10		3452341	74624907	82	36889										
PTPRM	5797	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	8378412	8378412	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	cagattaaagaggaattccgGgtaagtgatgcctaagggag	14	5	0	3	rs374669816		TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr18:8378412G>T	ENST00000332175.8	+	25	4610	c.3573G>T	c.(3571-3573)cgG>cgT	p.R1191R	PTPRM_ENST00000580170.1_Splice_Site_p.R1204R|PTPRM_ENST00000400053.4_Splice_Site_p.R1129R|PTPRM_ENST00000444013.1_Splice_Site_p.R978R|PTPRM_ENST00000400060.4_Splice_Site_p.R1205R	NM_002845.3	NP_002836.3	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1191	Tyrosine-protein phosphatase 2. {ECO:0000255|PROSITE-ProRule:PRU00160}.				homophilic cell adhesion (GO:0007156)|negative regulation of angiogenesis (GO:0016525)|negative regulation of endothelial cell migration (GO:0010596)|negative regulation of endothelial cell proliferation (GO:0001937)|neuron projection development (GO:0031175)|peptidyl-tyrosine dephosphorylation (GO:0035335)|positive regulation of vasodilation (GO:0045909)|protein dephosphorylation (GO:0006470)|response to drug (GO:0042493)|retina layer formation (GO:0010842)|retinal ganglion cell axon guidance (GO:0031290)|signal transduction (GO:0007165)	cell-cell adherens junction (GO:0005913)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|perinuclear region of cytoplasm (GO:0048471)	cadherin binding (GO:0045296)|identical protein binding (GO:0042802)|protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			breast(3)|central_nervous_system(1)|cervix(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(32)|lung(25)|ovary(2)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	90		Colorectal(10;0.234)				AGGAATTCCGGGTAAGTGATG	0.493																																																0													116	97	103					18																	8378412		2203	4300	6503	SO:0001630	splice_region_variant	5797			X58288	CCDS11840.1, CCDS58613.1	18p11.2	2013-02-11			ENSG00000173482	ENSG00000173482		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	9675	protein-coding gene	gene with protein product		176888		PTPRL1		1655529, 8404049	Standard	NM_002845		Approved	RPTPU, hR-PTPu	uc010dkv.3	P28827	OTTHUMG00000131575	ENST00000332175.8:c.3573+1G>T	18.37:g.8378412G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7MBN1|D3DUH8|J3QL11	Silent	SNP	ENST00000332175.8	37	CCDS11840.1																																																																																				0.493	PTPRM-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000254456.1		Silent	T	8378412	G	T	8378412	5	4	608	1	0	0	0	0	0	0	1	0	12819	1246	43	4	3718	4	PTPRM	18	8378412	Splice_Site	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10	4926071	8378412	69698836	83	36890										
KIAA1468	57614	bcgsc.ca	37	chr18	59954615	59954615	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	catttgcataagttagccttGgtgaacaacttacagattgt	8	7	0	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr18:59954615G>T	ENST00000398130.2	+	26	3517	c.3285G>T	c.(3283-3285)ttG>ttT	p.L1095F	KIAA1468_ENST00000256858.6_Missense_Mutation_p.L1129F	NM_020854.3	NP_065905.2	Q9P260	K1468_HUMAN	KIAA1468	1095										autonomic_ganglia(1)|breast(4)|endometrium(4)|kidney(4)|large_intestine(7)|lung(20)|ovary(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	47		Colorectal(73;0.186)				AGTTAGCCTTGGTGAACAACT	0.353																																																0													165	151	156					18																	59954615		2203	4300	6503	SO:0001583	missense	57614			BC011992	CCDS11979.2	18q21.33	2005-11-03			ENSG00000134444	ENSG00000134444			29289	protein-coding gene	gene with protein product						11973628	Standard	NM_020854		Approved	HsT885, HsT3308, FLJ33841	uc002lil.3	Q9P260	OTTHUMG00000132780	ENST00000398130.2:c.3285G>T	18.37:g.59954615G>T	ENSP00000381198:p.Leu1095Phe	Somatic		WXS	Illumina HiSeq	Phase_1		Missense_Mutation	SNP	ENST00000398130.2	37	CCDS11979.2	.	.	.	.	.	.	.	.	.	.	G	12.76	2.035142	0.35893	.	.	ENSG00000134444	ENST00000398130;ENST00000256858	T;T	0.74421	-0.84;-0.84	5.71	4.84	0.62591	Armadillo-type fold (1);	0.063705	0.64402	D	0.000003	T	0.51736	0.1692	N	0.08118	0	0.51233	D	0.999914	B;B	0.15141	0.007;0.012	B;B	0.18561	0.022;0.015	T	0.45702	-0.9243	9	.	.	.	-5.9435	9.7506	0.40473	0.0702:0.0:0.7902:0.1396	.	1129;1095	Q9P260-2;Q9P260	.;K1468_HUMAN	F	1095;1129	ENSP00000381198:L1095F;ENSP00000256858:L1129F	.	L	+	3	2	KIAA1468	58105595	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.414000	0.59802	1.558000	0.49541	0.650000	0.86243	TTG		0.353	KIAA1468-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256187.1	NM_020854		T	59954615	G	T	59954615	3	4	608	1	0	0	0	0	1	0	0	0	8243	1339	47	4	3387	4	KIAA1468	18	59954615	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10	51576203	59954615	18122633	84	36891										
FUT6	2528	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	5832530	5832530	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ctgaaacagcagcgtggtcaGacagcagcgccacgaccact	11	14	1	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr19:5832530G>T	ENST00000318336.4	-	3	1243	c.49C>A	c.(49-51)Ctg>Atg	p.L17M	FUT6_ENST00000286955.5_Missense_Mutation_p.L17M|FUT6_ENST00000524754.1_Missense_Mutation_p.L17M|FUT6_ENST00000592563.1_Missense_Mutation_p.L17M|FUT6_ENST00000527106.1_Missense_Mutation_p.L17M	NM_000150.2	NP_000141.1	P51993	FUT6_HUMAN	fucosyltransferase 6 (alpha (1,3) fucosyltransferase)	17					fucosylation (GO:0036065)|L-fucose catabolic process (GO:0042355)|protein glycosylation (GO:0006486)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity (GO:0017060)|alpha-(1->3)-fucosyltransferase activity (GO:0046920)|fucosyltransferase activity (GO:0008417)			endometrium(2)|kidney(1)|large_intestine(1)|lung(2)	6						AGCGTGGTCAGACAGCAGCGC	0.572																																																0													35	30	32					19																	5832530		2203	4300	6503	SO:0001583	missense	2528				CCDS12152.1	19p13.3	2013-02-26			ENSG00000156413	ENSG00000156413	2.4.1.65	"Fucosyltransferases"	4017	protein-coding gene	gene with protein product	"alpha-(1,3)-fucosyltransferase", "galactoside 3-L-fucosyltransferase"	136836				1520296, 7782074	Standard	NM_001040701		Approved	FT1A, FCT3A, FucT-VI, FLJ40754	uc002mdh.1	P51993	OTTHUMG00000167335	ENST00000318336.4:c.49C>A	19.37:g.5832530G>T	ENSP00000313398:p.Leu17Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEX0|D6W637|Q9UND8	Missense_Mutation	SNP	ENST00000318336.4	37	CCDS12152.1	.	.	.	.	.	.	.	.	.	.	G	10.54	1.377927	0.24944	.	.	ENSG00000156413	ENST00000524754;ENST00000527106;ENST00000318336;ENST00000286955;ENST00000341530;ENST00000529165;ENST00000531085;ENST00000531199;ENST00000532464;ENST00000528505	T;T;T;T;T;T;T;T;T	0.61859	1.81;1.81;1.81;1.81;1.81;0.81;0.24;0.07;0.19	3.7	1.52	0.23074	.	0.960505	0.08559	U	0.927769	T	0.72803	0.3506	M	0.77616	2.38	0.09310	N	1	D;D	0.89917	1.0;1.0	D;D	0.85130	0.995;0.997	T	0.55068	-0.8198	10	0.54805	T	0.06	.	6.2965	0.21089	0.1124:0.195:0.6925:0.0	.	17;17	C9J8A2;P51993	.;FUT6_HUMAN	M	17	ENSP00000431708:L17M;ENSP00000432954:L17M;ENSP00000313398:L17M;ENSP00000286955:L17M;ENSP00000436547:L17M;ENSP00000432161:L17M;ENSP00000436413:L17M;ENSP00000431880:L17M;ENSP00000433811:L17M	ENSP00000286955:L17M	L	-	1	2	FUT6	5783530	0.017000	0.18338	0.005000	0.12908	0.033000	0.12548	1.348000	0.33987	0.849000	0.35215	0.436000	0.28706	CTG		0.572	FUT6-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394218.2	NM_000150		T	5832530	G	T	5832530	3	4	608	1	0	0	0	0	1	0	0	0	6115	933	33	4	1034	4	FUT6	19	5832530	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10		5832530	53296453	85	36892										
CYP4F8	11283	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	15739650	15739650	+	RNA	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	tattcctttctcggcggggcCcaggtgaggccagggggtgt	17	10	1	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr19:15739650C>G	ENST00000441682.2	+	0	1455							P98187	CP4F8_HUMAN	cytochrome P450, family 4, subfamily F, polypeptide 8						icosanoid metabolic process (GO:0006690)|prostaglandin metabolic process (GO:0006693)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	alkane 1-monooxygenase activity (GO:0018685)|aromatase activity (GO:0070330)|heme binding (GO:0020037)|iron ion binding (GO:0005506)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(14)|skin(1)	26						TCGGCGGGGCCCAGGTGAGGC	0.582																																																0													40	45	43					19																	15739650		2016	4203	6219			11283			AF133298	CCDS74303.1	19p13.12	2013-11-11	2003-01-14		ENSG00000186526	ENSG00000186526		"Cytochrome P450s"	2648	protein-coding gene	gene with protein product		611545	"cytochrome P450, subfamily IVF, polypeptide 8"			10405341	Standard	NM_007253		Approved		uc002nbi.3	P98187	OTTHUMG00000182386		19.37:g.15739650C>G		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000441682.2	37		.	.	.	.	.	.	.	.	.	.	.	17.80	3.477280	0.63849	.	.	ENSG00000186526	ENST00000441682;ENST00000325723	.	.	.	3.32	3.32	0.38043	Cytochrome P450, conserved site (1);	0.000000	0.64402	U	0.000001	T	0.71459	0.3342	.	.	.	0.49051	D	0.999743	P;D	0.61697	0.566;0.99	P;D	0.63877	0.624;0.919	T	0.81393	-0.0953	7	0.87932	D	0	.	12.1517	0.54053	0.0:1.0:0.0:0.0	.	277;465	B4DU85;P98187	.;CP4F8_HUMAN	R	464;277	.	ENSP00000314398:P277R	P	+	2	0	CYP4F8	15600650	1.000000	0.71417	0.998000	0.56505	0.722000	0.41435	4.681000	0.61663	1.681000	0.50988	0.436000	0.28706	CCC		0.582	CYP4F8-201	KNOWN	basic	processed_transcript	processed_transcript		NM_007253		G	15739650	C	G	15739650	1	3	608	0	1	0	0	0	0	0	0	0	4193	623	22	4		4	CYP4F8	19	15739650	RNA	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	9907120	15739650	43389333	86	36893										
IL28B	282617	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	39735444	39735444	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	tcactaaggcatctttggccCtcttaaaggcctgcagctcc	8	14	3	0	rs201018323	byFrequency	TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr19:39735444C>T	ENST00000413851.2	-	1	202	c.164G>A	c.(163-165)aGg>aAg	p.R55K	IFNL4_ENST00000606380.1_RNA	NM_172139.2	NP_742151.2	Q8IZI9	IFNL3_HUMAN	interferon, lambda 3	55					defense response to virus (GO:0051607)|JAK-STAT cascade (GO:0007259)|negative regulation of viral genome replication (GO:0045071)|positive regulation of immune response (GO:0050778)	extracellular space (GO:0005615)											ATCTTTGGCCCTCTTAAAGGC	0.622													C|||	3	0.000599042	0.0008	0.0	5008	,	,		19948	0.0		0.001	False		,,,				2504	0.001															0													21	24	23					19																	39735444		2203	4292	6495	SO:0001583	missense	282617			AY129149	CCDS12530.1	19q13.13	2014-05-22	2012-11-26	2012-11-26	ENSG00000197110	ENSG00000197110		"Interferons"	18365	protein-coding gene	gene with protein product		607402	"interleukin 28B", "interleukin 28B (interferon, lambda 3)"	IL28B			Standard	NM_172139		Approved	IL-28B, IL28C	uc010xut.2	Q8IZI9	OTTHUMG00000182805	ENST00000413851.2:c.164G>A	19.37:g.39735444C>T	ENSP00000409000:p.Arg55Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A2BDE1|Q6VN56|Q7Z4J3|Q8IWL6	Missense_Mutation	SNP	ENST00000413851.2	37	CCDS12530.1	.	.	.	.	.	.	.	.	.	.	C	0.482	-0.879400	0.02550	.	.	ENSG00000197110	ENST00000413851	T	0.26223	1.75	2.97	-4.43	0.03568	.	0.765632	0.12009	N	0.508070	T	0.03739	0.0106	N	0.00521	-1.4	0.18873	N	0.999982	B	0.06786	0.001	B	0.04013	0.001	T	0.37197	-0.9716	10	0.06757	T	0.87	2.9441	0.3638	0.00368	0.1912:0.2524:0.1896:0.3668	.	55	Q8IZI9	IL28B_HUMAN	K	55	ENSP00000409000:R55K	ENSP00000409000:R55K	R	-	2	0	IL28B	44427284	0.000000	0.05858	0.388000	0.26195	0.653000	0.38743	-1.727000	0.01860	-0.398000	0.07679	0.194000	0.17425	AGG		0.622	IFNL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463832.1	NM_172139		T	39735444	C	T	39735444	3	4	608	1	0	0	0	0	1	0	0	0	7690	681	24	2	445	2	IL28B	19	39735444	Missense_Mutation	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	23995794	39735444	19393539	87	36894										
PSG4	5672	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	43708130	43708130	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	aggatcctgcatcctcctgcGtgacattctggatcagcagg	11	12	2	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr19:43708130G>A	ENST00000405312.3	-	2	575	c.338C>T	c.(337-339)aCg>aTg	p.T113M	PSG4_ENST00000244295.9_Missense_Mutation_p.T113M|PSG4_ENST00000433626.2_Missense_Mutation_p.T113M	NM_002780.3	NP_002771.2	Q00888	PSG4_HUMAN	pregnancy specific beta-1-glycoprotein 4	113	Ig-like V-type.				female pregnancy (GO:0007565)	extracellular vesicular exosome (GO:0070062)				central_nervous_system(1)|endometrium(2)|large_intestine(8)|lung(10)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	24		Prostate(69;0.00682)				ATCCTCCTGCGTGACATTCTG	0.458																																																0													272	278	276					19																	43708130		2140	4271	6411	SO:0001583	missense	5672				CCDS33039.1, CCDS46093.1, CCDS62695.1	19q13.2	2013-01-29			ENSG00000243137	ENSG00000243137		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9521	protein-coding gene	gene with protein product	"pregnancy-specific beta-1-glycoprotein 4"	176393				2783133	Standard	NM_002780		Approved		uc002ovy.4	Q00888	OTTHUMG00000151544	ENST00000405312.3:c.338C>T	19.37:g.43708130G>A	ENSP00000384770:p.Thr113Met	Somatic		WXS	Illumina HiSeq	Phase_I	E7EX79|Q13047|Q13048|Q15234|Q15240|Q9UQ76	Missense_Mutation	SNP	ENST00000405312.3	37	CCDS46093.1	.	.	.	.	.	.	.	.	.	.	N	11.42	1.632906	0.29068	.	.	ENSG00000243137	ENST00000244295;ENST00000405312;ENST00000433626;ENST00000451895	T;T;T;T	0.67865	-0.29;-0.29;-0.29;-0.29	1.65	1.65	0.23941	Immunoglobulin subtype (1);Immunoglobulin V-set (1);Immunoglobulin-like fold (1);	.	.	.	.	D	0.82300	0.5007	M	0.91038	3.17	0.09310	N	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;0.994;1.0	T	0.67569	-0.5637	9	0.87932	D	0	.	6.8053	0.23774	0.0:0.0:1.0:0.0	.	113;113;113	E7EX79;Q00888-2;Q00888	.;.;PSG4_HUMAN	M	113;113;113;129	ENSP00000244295:T113M;ENSP00000384770:T113M;ENSP00000387864:T113M;ENSP00000388134:T129M	ENSP00000244295:T113M	T	-	2	0	PSG4	48399970	0.000000	0.05858	0.009000	0.14445	0.003000	0.03518	-0.474000	0.06607	1.251000	0.43983	0.173000	0.16961	ACG		0.458	PSG4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323073.1	NM_213633		A	43708130	G	A	43708130	3	1	608	1	0	0	0	0	1	0	0	0	12667	1145	40	1	941	1	PSG4	19	43708130	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10	3972686	43708130	15420853	88	36895										
CCDC9	26093	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	47767895	47767895	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	cgcaggcagaacattgagaaGatgaatgaggagatggagaa	15	4	0	7			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr19:47767895G>T	ENST00000221922.6	+	6	720	c.498G>T	c.(496-498)aaG>aaT	p.K166N		NM_015603.2	NP_056418.1	Q9Y3X0	CCDC9_HUMAN	coiled-coil domain containing 9	166							poly(A) RNA binding (GO:0044822)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(2)|ovary(1)|pancreas(1)|urinary_tract(1)	12		all_cancers(25;0.0432)|all_epithelial(76;0.00812)|Medulloblastoma(540;0.0208)|all_neural(266;0.0416)|Hepatocellular(1079;0.114)		OV - Ovarian serous cystadenocarcinoma(262;8.51e-95)|Epithelial(262;1.15e-92)|all cancers(93;7.67e-84)|GBM - Glioblastoma multiforme(486;0.024)|STAD - Stomach adenocarcinoma(1328;0.183)		ACATTGAGAAGATGAATGAGG	0.617																																																0													80	63	69					19																	47767895		2202	4299	6501	SO:0001583	missense	26093			AL050284	CCDS12698.1	19q13.33	2008-02-05				ENSG00000105321			24560	protein-coding gene	gene with protein product						11230166	Standard	NM_015603		Approved	DKFZP586M1019	uc010xym.2	Q9Y3X0		ENST00000221922.6:c.498G>T	19.37:g.47767895G>T	ENSP00000221922:p.Lys166Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000221922.6	37	CCDS12698.1	.	.	.	.	.	.	.	.	.	.	g	16.68	3.191307	0.58017	.	.	ENSG00000105321	ENST00000221922;ENST00000504556	T	0.27890	1.64	4.63	4.63	0.57726	.	0.356482	0.30667	N	0.009121	T	0.53769	0.1817	M	0.67953	2.075	0.44694	D	0.997682	D	0.89917	1.0	D	0.77004	0.989	T	0.55477	-0.8135	10	0.52906	T	0.07	-46.2641	16.3937	0.83548	0.0:0.0:1.0:0.0	.	166	Q9Y3X0	CCDC9_HUMAN	N	166;148	ENSP00000221922:K166N	ENSP00000221922:K166N	K	+	3	2	CCDC9	52459735	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	3.672000	0.54583	2.416000	0.81992	0.561000	0.74099	AAG		0.617	CCDC9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466917.1	NM_015603		T	47767895	G	T	47767895	3	4	608	1	0	0	0	0	1	0	0	0	2869	933	33	4	516	4	CCDC9	19	47767895	Missense_Mutation	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10	4059765	47767895	11361088	89	36896										
ZNF600	162966	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	53269420	53269420	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gactgaaggtcttgctgcacTcattacacttgtaaggtttc	9	9	2	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr19:53269420T>A	ENST00000338230.3	-	3	1856	c.1589A>T	c.(1588-1590)gAg>gTg	p.E530V		NM_198457.2	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	530					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|endometrium(2)|kidney(4)|large_intestine(9)|liver(1)|lung(10)|prostate(1)|upper_aerodigestive_tract(1)	30				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		CTTGCTGCACTCATTACACTT	0.458																																					Esophageal Squamous(196;1235 2112 2375 33339 34207)											0													220	195	204					19																	53269420		2203	4300	6503	SO:0001583	missense	162966			U52096	CCDS12856.1	19q13.42	2013-01-08				ENSG00000189190		"Zinc fingers, C2H2-type"	30951	protein-coding gene	gene with protein product						12576331	Standard	NM_198457		Approved	KR-ZNF1, DKFZp686F06123	uc002qab.4	Q6ZNG1		ENST00000338230.3:c.1589A>T	19.37:g.53269420T>A	ENSP00000344791:p.Glu530Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6MZR0	Missense_Mutation	SNP	ENST00000338230.3	37	CCDS12856.1	.	.	.	.	.	.	.	.	.	.	.	12.82	2.052449	0.36181	.	.	ENSG00000189190	ENST00000338230	T	0.17528	2.27	1.51	0.278	0.15673	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.18593	0.0446	N	0.11789	0.175	0.09310	N	1	D	0.55172	0.97	D	0.74348	0.983	T	0.16928	-1.0386	9	0.45353	T	0.12	.	5.4227	0.16409	0.251:0.0:0.0:0.749	.	530	Q6ZNG1	ZN600_HUMAN	V	530	ENSP00000344791:E530V	ENSP00000344791:E530V	E	-	2	0	ZNF600	57961232	0.000000	0.05858	0.001000	0.08648	0.042000	0.13812	0.274000	0.18680	-0.139000	0.11414	0.163000	0.16589	GAG		0.458	ZNF600-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463093.1	NM_198457		A	53269420	T	A	53269420	3	1	608	1	0	0	0	0	1	0	0	0	18042	1551	54	5	583	5	ZNF600	19	53269420	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	5501525	53269420	5859563	90	36897										
ZNF761	388561	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	53959526	53959526	+	RNA	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	atagtgacaaagcttacagtTtcaaatcaaaccttgaaata	5	7	2	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr19:53959526T>G	ENST00000454407.1	+	0	2218							Q86XN6	ZN761_HUMAN	zinc finger protein 761						regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|kidney(2)|large_intestine(5)|lung(13)|ovary(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	30				GBM - Glioblastoma multiforme(134;0.00786)		AGCTTACAGTTTCAAATCAAA	0.403																																																0													98	102	101					19																	53959526		2203	4299	6502			388561			AB107355		19q13.42	2007-10-05	2006-08-11	2006-08-11	ENSG00000160336	ENSG00000160336		"Zinc fingers, C2H2-type"	23179	protein-coding gene	gene with protein product							Standard	NM_001008401		Approved	KIAA2033, FLJ16231, FLJ35333	uc010eqp.3	Q86XN6	OTTHUMG00000156999		19.37:g.53959526T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZNB9	Missense_Mutation	SNP	ENST00000454407.1	37																																																																																					0.403	ZNF761-203	KNOWN	basic	processed_transcript	processed_transcript		NM_001008401		G	53959526	T	G	53959526	1	3	608	0	1	0	0	0	0	0	0	0	18148	1841	64	5		5	ZNF761	19	53959526	RNA	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10	690106	53959526	5169457	91	36898										
CRNKL1	51340	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	20026023	20026023	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	catatgttcatctccaaagaAttccacagctctctcataca	3	13	4	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr20:20026023A>T	ENST00000377340.2	-	7	1244	c.1213T>A	c.(1213-1215)Ttc>Atc	p.F405I	CRNKL1_ENST00000377327.4_Missense_Mutation_p.F393I|CRNKL1_ENST00000536226.1_Missense_Mutation_p.F244I	NM_001278628.1|NM_016652.4	NP_001265557.1|NP_057736.4	Q9BZJ0	CRNL1_HUMAN	crooked neck pre-mRNA splicing factor 1	405					mRNA splicing, via spliceosome (GO:0000398)|spliceosomal complex assembly (GO:0000245)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|spliceosomal complex (GO:0005681)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			breast(2)|cervix(2)|endometrium(7)|large_intestine(11)|lung(12)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(6)	45						TCTCCAAAGAATTCCACAGCT	0.398																																																0													175	173	173					20																	20026023		2203	4300	6503	SO:0001583	missense	51340			AF255443	CCDS33446.1, CCDS63238.1, CCDS63239.1	20p11.2	2013-10-03	2013-10-03		ENSG00000101343	ENSG00000101343			15762	protein-coding gene	gene with protein product	"SYF3 pre-mRNA-splicing factor"	610952	"crooked neck (Drosophila Crn homolog)-like 1", "Crn, crooked neck-like 1 (Drosophila)", "crooked neck pre-mRNA splicing factor-like 1 (Drosophila)"				Standard	NM_016652		Approved	CRN, CLF, SYF3, Clf1	uc002wrs.3	Q9BZJ0	OTTHUMG00000032000	ENST00000377340.2:c.1213T>A	20.37:g.20026023A>T	ENSP00000366557:p.Phe405Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9T4|Q5JY64|Q8WYI5|Q9BZI9|Q9BZJ1|Q9BZJ2|Q9GZW7|Q9H8F8|Q9NQH5|Q9NYD8	Missense_Mutation	SNP	ENST00000377340.2	37	CCDS33446.1	.	.	.	.	.	.	.	.	.	.	A	19.11	3.764213	0.69878	.	.	ENSG00000101343	ENST00000377327;ENST00000377340;ENST00000536226	T;T;T	0.08984	3.03;3.03;3.03	5.8	5.8	0.92144	Tetratricopeptide-like helical (1);	0.091092	0.85682	D	0.000000	T	0.13114	0.0318	M	0.70787	2.145	0.80722	D	1	B	0.29716	0.255	B	0.26517	0.07	T	0.02301	-1.1180	10	0.33141	T	0.24	-21.9403	16.1384	0.81506	1.0:0.0:0.0:0.0	.	405	Q9BZJ0	CRNL1_HUMAN	I	393;405;244	ENSP00000366544:F393I;ENSP00000366557:F405I;ENSP00000440733:F244I	ENSP00000366544:F393I	F	-	1	0	CRNKL1	19974023	1.000000	0.71417	0.976000	0.42696	0.987000	0.75469	9.339000	0.96797	2.203000	0.70933	0.460000	0.39030	TTC		0.398	CRNKL1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000127787.1			T	20026023	A	T	20026023	3	4	608	1	0	0	0	0	1	0	0	0	3893	101	4	5	1369	5	CRNKL1	20	20026023	Missense_Mutation	SNP	A	TCGA-HE-A5NH-01A-11D-A26P-10		20026023	42999497	92	36899										
KIAA1755	85449	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	36841970	36841970	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gctcctggcccaggcctgccCggctcagggaggccacctgc	14	18	1	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr20:36841970C>T	ENST00000279024.4	-	14	3348	c.3077G>A	c.(3076-3078)cGg>cAg	p.R1026Q		NM_001029864.1	NP_001025035.1	Q5JYT7	K1755_HUMAN	KIAA1755	1026										breast(2)|endometrium(3)|kidney(1)|large_intestine(5)|lung(31)|ovary(5)|pancreas(2)|skin(4)|stomach(1)	54		Myeloproliferative disorder(115;0.00874)				CAGGCCTGCCCGGCTCAGGGA	0.677																																																0													25	25	25					20																	36841970		2200	4297	6497	SO:0001583	missense	85449			AB051542	CCDS33467.1	20q11.23	2007-12-07			ENSG00000149633	ENSG00000149633			29372	protein-coding gene	gene with protein product						11214970	Standard	NM_001029864		Approved	RP5-1054A22.3	uc002xhy.1	Q5JYT7	OTTHUMG00000032436	ENST00000279024.4:c.3077G>A	20.37:g.36841970C>T	ENSP00000279024:p.Arg1026Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q9C0A8	Missense_Mutation	SNP	ENST00000279024.4	37	CCDS33467.1	.	.	.	.	.	.	.	.	.	.	C	10.69	1.421251	0.25639	.	.	ENSG00000149633	ENST00000279024	T	0.05717	3.4	5.29	-4.25	0.03766	.	0.891096	0.09443	N	0.801481	T	0.03011	0.0089	N	0.11064	0.09	0.09310	N	1	B	0.17667	0.023	B	0.08055	0.003	T	0.48692	-0.9013	10	0.10902	T	0.67	.	11.6604	0.51343	0.0:0.3634:0.0:0.6366	.	1026	Q5JYT7	K1755_HUMAN	Q	1026	ENSP00000279024:R1026Q	ENSP00000279024:R1026Q	R	-	2	0	KIAA1755	36275384	0.000000	0.05858	0.002000	0.10522	0.669000	0.39330	-2.684000	0.00835	-1.072000	0.03141	-0.224000	0.12420	CGG		0.677	KIAA1755-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079144.3	NM_001029864		T	36841970	C	T	36841970	3	4	608	1	0	0	0	0	1	0	0	0	8264	652	23	1	529	1	KIAA1755	20	36841970	Missense_Mutation	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	16815947	36841970	26183550	93	36900										
CABLES2	81928	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	60967982	60967982	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gagagggcactcaccatgtaCgacgcaaagatgaggacacg	13	10	1	3			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr20:60967982C>G	ENST00000279101.5	-	7	986	c.978G>C	c.(976-978)tcG>tcC	p.S326S		NM_031215.2	NP_112492.2	Q9BTV7	CABL2_HUMAN	Cdk5 and Abl enzyme substrate 2	326					cell cycle (GO:0007049)|cell division (GO:0051301)|regulation of cell cycle (GO:0051726)|regulation of cell division (GO:0051302)		cyclin-dependent protein serine/threonine kinase regulator activity (GO:0016538)			endometrium(2)|kidney(1)|lung(6)|pancreas(1)|skin(1)	11	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			TCACCATGTACGACGCAAAGA	0.657																																																0													140	122	128					20																	60967982		2203	4300	6503	SO:0001819	synonymous_variant	81928			BC003122	CCDS33503.1	20q13.33	2004-01-09	2004-01-09	2004-01-09	ENSG00000149679	ENSG00000149679			16143	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 150"	C20orf150		12477932	Standard	NM_031215		Approved	dJ908M14.2, ik3-2	uc002ycv.2	Q9BTV7	OTTHUMG00000032912	ENST00000279101.5:c.978G>C	20.37:g.60967982C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JWL0|Q9BYK0	Silent	SNP	ENST00000279101.5	37	CCDS33503.1	.	.	.	.	.	.	.	.	.	.	C	0.070	-1.204574	0.01568	.	.	ENSG00000149679	ENST00000453274	.	.	.	5.05	-10.1	0.00402	.	.	.	.	.	T	0.30448	0.0765	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.39742	-0.9599	4	.	.	.	-34.41	0.1912	0.00134	0.2752:0.1684:0.22:0.3364	.	.	.	.	P	120	.	.	R	-	2	0	CABLES2	60401377	0.000000	0.05858	0.020000	0.16555	0.052000	0.14988	-2.225000	0.01212	-2.475000	0.00527	-1.774000	0.00658	CGT		0.657	CABLES2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080027.2	XM_037265		G	60967982	C	G	60967982	2	3	608	1	0	0	0	0	0	0	0	1	2532	523	19	4		4	CABLES2	20	60967982	Silent	SNP	C	TCGA-HE-A5NH-01A-11D-A26P-10	24126012	60967982	2057538	94	36901										
DGCR8	54487	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	20077782	20077782	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gtgcaaagatgaatccgttgGtgagtttttgaaggactctt	12	5	1	4			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr22:20077782G>C	ENST00000351989.3	+	5	1735		c.e5+1		DGCR8_ENST00000407755.1_Splice_Site|DGCR8_ENST00000383024.2_Splice_Site	NM_022720.6	NP_073557.3	Q8WYQ5	DGCR8_HUMAN	DGCR8 microprocessor complex subunit						gene expression (GO:0010467)|primary miRNA processing (GO:0031053)	cytoplasm (GO:0005737)|microtubule cytoskeleton (GO:0015630)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	double-stranded RNA binding (GO:0003725)|metal ion binding (GO:0046872)			NS(2)|breast(1)|endometrium(5)|large_intestine(5)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	22	Colorectal(54;0.0993)					GAATCCGTTGGTGAGTTTTTG	0.532																																																0													34	41	38					22																	20077782		2198	4297	6495	SO:0001630	splice_region_variant	54487			AF165527, AB050770	CCDS13773.1, CCDS54501.1	22q11.2	2013-05-02	2013-05-02		ENSG00000128191	ENSG00000128191			2847	protein-coding gene	gene with protein product		609030	"chromosome 22 open reading frame 12", "DiGeorge syndrome critical region gene 8"	C22orf12		21454614	Standard	NM_001190326		Approved	DGCRK6, Gy1, pasha	uc002zri.3	Q8WYQ5	OTTHUMG00000150503	ENST00000351989.3:c.1306+1G>C	22.37:g.20077782G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R8G1|Q6DCB2|Q6MZE9|Q6Y2L0|Q96G39|Q96GP8|Q9H6L8|Q9H6T7|Q9NRW2	Splice_Site	SNP	ENST00000351989.3	37	CCDS13773.1	.	.	.	.	.	.	.	.	.	.	G	12.65	2.002878	0.35320	.	.	ENSG00000128191	ENST00000351989;ENST00000383024;ENST00000407755	.	.	.	4.75	4.75	0.60458	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	17.878	0.88830	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	DGCR8	18457782	1.000000	0.71417	1.000000	0.80357	0.214000	0.24535	9.225000	0.95219	2.618000	0.88619	0.467000	0.42956	.		0.532	DGCR8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318654.1		Intron	C	20077782	G	C	20077782	5	2	608	1	0	0	0	0	0	0	1	0	4466	1275	44	4	1321	4	DGCR8	22	20077782	Splice_Site	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10		20077782	31226784	95	36902										
CELSR1	9620	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	46931730	46931730	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	ttctcgtcctccacctcgatGtacacggtggccgtggcact	10	15	1	0			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chr22:46931730G>A	ENST00000262738.3	-	1	1337	c.1338C>T	c.(1336-1338)taC>taT	p.Y446Y	CELSR1_ENST00000497509.1_5'Flank|CELSR1_ENST00000395964.1_Silent_p.Y446Y	NM_014246.1	NP_055061.1	Q9NYQ6	CELR1_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 1	446	Cadherin 2. {ECO:0000255|PROSITE- ProRule:PRU00043}.				anterior/posterior pattern specification (GO:0009952)|apical protein localization (GO:0045176)|central nervous system development (GO:0007417)|establishment of body hair planar orientation (GO:0048105)|establishment of planar polarity (GO:0001736)|establishment of planar polarity of embryonic epithelium (GO:0042249)|G-protein coupled receptor signaling pathway (GO:0007186)|hair follicle development (GO:0001942)|homophilic cell adhesion (GO:0007156)|inner ear morphogenesis (GO:0042472)|lateral sprouting involved in lung morphogenesis (GO:0060490)|locomotory behavior (GO:0007626)|neural tube closure (GO:0001843)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|orthogonal dichotomous subdivision of terminal units involved in lung branching morphogenesis (GO:0060488)|planar cell polarity pathway involved in neural tube closure (GO:0090179)|planar dichotomous subdivision of terminal units involved in lung branching morphogenesis (GO:0060489)|protein localization involved in establishment of planar polarity (GO:0090251)|regulation of actin cytoskeleton organization (GO:0032956)|Rho protein signal transduction (GO:0007266)|wound healing (GO:0042060)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)|protein dimerization activity (GO:0046983)|transmembrane signaling receptor activity (GO:0004888)			breast(8)|central_nervous_system(5)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(5)|kidney(4)|large_intestine(13)|lung(27)|ovary(2)|pancreas(2)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(3)	95		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)		CCACCTCGATGTACACGGTGG	0.672																																																0													64	39	47					22																	46931730		2198	4295	6493	SO:0001819	synonymous_variant	9620			AF231024	CCDS14076.1	22q13.31	2014-08-08	2013-02-18		ENSG00000075275	ENSG00000075275		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	1850	protein-coding gene	gene with protein product	"flamingo homolog 2 (Drosophila)"	604523	"cadherin, EGF LAG seven-pass G-type receptor 1, flamingo (Drosophila) homolog"			9339365	Standard	XM_006724383		Approved	ME2, HFMI2, FMI2, CDHF9	uc003bhw.1	Q9NYQ6	OTTHUMG00000150423	ENST00000262738.3:c.1338C>T	22.37:g.46931730G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O95722|Q5TH47|Q9BWQ5|Q9Y506|Q9Y526	Silent	SNP	ENST00000262738.3	37	CCDS14076.1																																																																																				0.672	CELSR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318037.1	NM_014246		A	46931730	G	A	46931730	2	1	608	1	0	0	0	0	0	0	0	1	3223	1372	48	2		2	CELSR1	22	46931730	Silent	SNP	G	TCGA-HE-A5NH-01A-11D-A26P-10	26853948	46931730	4372836	96	36903										
KDM5C	8242	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	53245084	53245084	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	caggaaggtcttaggcgatgTtgactccaccttcacatccc	9	13	2	1			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chrX:53245084T>C	ENST00000375401.3	-	7	1388	c.856A>G	c.(856-858)Aca>Gca	p.T286A	KDM5C_ENST00000375383.3_Missense_Mutation_p.T245A|KDM5C_ENST00000452825.3_Missense_Mutation_p.T219A|KDM5C_ENST00000375379.3_Missense_Mutation_p.T286A|KDM5C_ENST00000404049.3_Missense_Mutation_p.T285A|KDM5C-IT1_ENST00000412242.1_RNA	NM_001282622.1|NM_004187.3	NP_001269551.1|NP_004178.2	P41229	KDM5C_HUMAN	lysine (K)-specific demethylase 5C	286					histone H3-K4 demethylation (GO:0034720)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone demethylase activity (H3-K4 specific) (GO:0032453)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(4)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(30)|large_intestine(9)|lung(17)|oesophagus(1)|ovary(6)|prostate(1)|salivary_gland(1)|skin(1)|upper_aerodigestive_tract(2)	82						TTAGGCGATGTTGACTCCACC	0.547			"N, F, S"		clear cell renal carcinoma								T|||	1	0.000264901	0.0	0.0	3775	,	,		14662	0.0		0.0	False		,,,				2504	0.001						Rec	yes		X	Xp11.22-p11.21	8242	lysine (K)-specific demethylase 5C (JARID1C)		E	0													216	158	177					X																	53245084		2203	4300	6503	SO:0001583	missense	8242			Z29650	CCDS14351.1, CCDS55417.1, CCDS65269.1	Xp11.22-p11.21	2014-01-31	2009-04-06	2009-04-06	ENSG00000126012	ENSG00000126012		"Chromatin-modifying enzymes / K-demethylases", "Zinc fingers, PHD-type"	11114	protein-coding gene	gene with protein product		314690	"Jumonji, AT rich interactive domain 1C (RBP2-like)", "Smcy homolog, X-linked (mouse)", "jumonji, AT rich interactive domain 1C", "mental retardation, X-linked 13"	SMCX, JARID1C, MRX13		7951230, 8162017, 19826449	Standard	NM_004187		Approved	DXS1272E, XE169	uc004drz.3	P41229	OTTHUMG00000021606	ENST00000375401.3:c.856A>G	X.37:g.53245084T>C	ENSP00000364550:p.Thr286Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B0QZ44|B4E3I2|F5H3T1|Q5JUX3|Q5JUX4|Q5JUX5|Q7Z5S5	Missense_Mutation	SNP	ENST00000375401.3	37	CCDS14351.1	.	.	.	.	.	.	.	.	.	.	T	0.018	-1.484126	0.01027	.	.	ENSG00000126012	ENST00000452825;ENST00000375401;ENST00000404049;ENST00000375379;ENST00000375383	D;D;D;D;D	0.85629	-2.01;-1.7;-1.7;-1.7;-1.84	5.25	-8.15	0.01065	.	1.077560	0.07053	N	0.832366	T	0.55737	0.1939	N	0.01800	-0.715	0.09310	N	1	B;B;B	0.06786	0.001;0.0;0.0	B;B;B	0.08055	0.003;0.001;0.001	T	0.54886	-0.8226	10	0.07482	T	0.82	0.2577	7.9029	0.29744	0.1202:0.6219:0.1198:0.1381	.	219;285;286	F5H3T1;B0QZ44;P41229	.;.;KDM5C_HUMAN	A	219;286;285;286;245	ENSP00000445176:T219A;ENSP00000364550:T286A;ENSP00000385394:T285A;ENSP00000364528:T286A;ENSP00000364532:T245A	ENSP00000364528:T286A	T	-	1	0	KDM5C	53261809	0.000000	0.05858	0.222000	0.23844	0.453000	0.32348	-1.761000	0.01805	-1.875000	0.01132	0.430000	0.28490	ACA		0.547	KDM5C-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000056737.2	NM_004187		C	53245084	T	C	53245084	3	2	608	1	0	0	0	0	1	0	0	0	8142	1725	60	3	4004	3	KDM5C	23	53245084	Missense_Mutation	SNP	T	TCGA-HE-A5NH-01A-11D-A26P-10		53245084	102025476	97	36904										
ATP11C	286410	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	138880882	138880882	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0510204081632653	5	1	0.905638784852268	1.22261235955056	0.652059925093633	1	1	0	gcgtagctcctttcagcaagAgattttcaggtcccaaagac	9	11	2	2			TCGA-HE-A5NH-01A-11D-A26P-10	TCGA-HE-A5NH-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	33b7e799-ad10-498f-9948-8ce433311539	10fb6a4b-3cb8-484e-abfd-0987cdecb32e	g.chrX:138880882A>C	ENST00000327569.3	-	9	838	c.740T>G	c.(739-741)cTc>cGc	p.L247R	ATP11C_ENST00000460773.1_5'Flank|ATP11C_ENST00000359686.2_Missense_Mutation_p.L247R|ATP11C_ENST00000361648.2_Missense_Mutation_p.L247R|ATP11C_ENST00000370543.1_Missense_Mutation_p.L247R|ATP11C_ENST00000370557.1_Missense_Mutation_p.L244R	NM_173694.4	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C	247					ion transmembrane transport (GO:0034220)|phospholipid translocation (GO:0045332)|positive regulation of B cell differentiation (GO:0045579)|pre-B cell differentiation (GO:0002329)|transmembrane transport (GO:0055085)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			breast(2)|central_nervous_system(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(15)|lung(31)|ovary(5)|prostate(1)|skin(3)	75	Acute lymphoblastic leukemia(192;0.000127)					TTTCAGCAAGAGATTTTCAGG	0.368																																																0													61	56	58					X																	138880882		2203	4300	6503	SO:0001583	missense	286410			AJ580094	CCDS14668.1, CCDS35410.1	Xq27.1	2011-06-09	2007-09-19		ENSG00000101974	ENSG00000101974		"ATPases / P-type"	13554	protein-coding gene	gene with protein product		300516	"ATPase, Class VI, type 11C"			11015572	Standard	NM_173694		Approved	ATPIG, ATPIQ	uc004faz.3	Q8NB49	OTTHUMG00000022538	ENST00000327569.3:c.740T>G	X.37:g.138880882A>C	ENSP00000332756:p.Leu247Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JT69|Q5JT70|Q5JT71|Q5JT72|Q5JT73|Q6ZND5|Q6ZU50|Q6ZUP7|Q70IJ9|Q70IK0|Q8WX24	Missense_Mutation	SNP	ENST00000327569.3	37	CCDS14668.1	.	.	.	.	.	.	.	.	.	.	A	22.9	4.355898	0.82243	.	.	ENSG00000101974	ENST00000370557;ENST00000361648;ENST00000327569;ENST00000370543;ENST00000359686	D;D;D;D;D	0.90900	-2.75;-2.75;-2.75;-2.75;-2.75	5.62	5.62	0.85841	ATPase, P-type, ATPase-associated domain (1);ATPase,  P-type, cytoplasmic transduction domain A (1);	0.000000	0.85682	D	0.000000	D	0.96911	0.8991	H	0.96748	3.875	0.54753	D	0.999986	D;D	0.89917	1.0;1.0	D;D	0.85130	0.994;0.997	D	0.98001	1.0360	10	0.87932	D	0	.	13.8743	0.63643	1.0:0.0:0.0:0.0	.	247;247	Q8NB49-3;Q8NB49	.;AT11C_HUMAN	R	244;247;247;247;247	ENSP00000359588:L244R;ENSP00000355165:L247R;ENSP00000332756:L247R;ENSP00000359574:L247R;ENSP00000352715:L247R	ENSP00000332756:L247R	L	-	2	0	ATP11C	138708548	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.962000	0.93254	1.873000	0.54277	0.481000	0.45027	CTC		0.368	ATP11C-008	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000354945.1	NM_173694		C	138880882	A	C	138880882	3	2	608	1	0	0	0	0	1	0	0	0	1121	304	11	5	2809	5	ATP11C	23	138880882	Missense_Mutation	SNP	A	TCGA-HE-A5NH-01A-11D-A26P-10	85635798	138880882	16389678	98	36905										
RERE	473	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	8422784	8422784	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ctctgctttactgtcattgcTggaggtactggcagcgctgg	13	10	2	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr1:8422784T>C	ENST00000337907.3	-	17	2495	c.1861A>G	c.(1861-1863)Agc>Ggc	p.S621G	RERE_ENST00000400907.2_Intron|RERE_ENST00000400908.2_Missense_Mutation_p.S621G|RERE_ENST00000377464.1_Missense_Mutation_p.S353G|RERE_ENST00000476556.1_Missense_Mutation_p.S67G	NM_012102.3	NP_036234.3	Q9P2R6	RERE_HUMAN	arginine-glutamic acid dipeptide (RE) repeats	621					chromatin remodeling (GO:0006338)|multicellular organismal development (GO:0007275)|NLS-bearing protein import into nucleus (GO:0006607)|transcription, DNA-templated (GO:0006351)	histone deacetylase complex (GO:0000118)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|poly-glutamine tract binding (GO:0008267)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			central_nervous_system(1)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(5)|liver(1)|lung(16)|ovary(3)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	49	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)		CTGTCATTGCTGGAGGTACTG	0.577																																																0													137	114	122					1																	8422784		2203	4300	6503	SO:0001583	missense	473			AF016005	CCDS95.1, CCDS41243.1	1p36.23	2013-01-25			ENSG00000142599	ENSG00000142599		"GATA zinc finger domain containing"	9965	protein-coding gene	gene with protein product		605226		ATN1L		10814707, 10729226	Standard	NM_012102		Approved	KIAA0458, ARP, ARG, DNB1	uc001apf.3	Q9P2R6	OTTHUMG00000001765	ENST00000337907.3:c.1861A>G	1.37:g.8422784T>C	ENSP00000338629:p.Ser621Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O43393|O75046|O75359|Q5VXL9|Q6P6B9|Q9Y2W4	Missense_Mutation	SNP	ENST00000337907.3	37	CCDS95.1	.	.	.	.	.	.	.	.	.	.	T	27.5	4.838657	0.91117	.	.	ENSG00000142599	ENST00000337907;ENST00000377464;ENST00000476556;ENST00000400908;ENST00000505225	T;T;T;T	0.64260	-0.09;3.35;1.89;-0.09	5.7	5.7	0.88788	.	.	.	.	.	T	0.77226	0.4099	M	0.67953	2.075	0.80722	D	1	D;D	0.63046	0.992;0.979	D;D	0.76071	0.987;0.982	T	0.78347	-0.2239	9	0.52906	T	0.07	-23.6318	15.138	0.72583	0.0:0.0:0.0:1.0	.	353;621	B1AKN3;Q9P2R6	.;RERE_HUMAN	G	621;353;67;621;41	ENSP00000338629:S621G;ENSP00000366684:S353G;ENSP00000422246:S67G;ENSP00000383700:S621G	ENSP00000338629:S621G	S	-	1	0	RERE	8345371	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.644000	0.83416	2.158000	0.67659	0.460000	0.39030	AGC		0.577	RERE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004916.1			C	8422784	T	C	8422784	3	2	609	1	0	0	0	0	1	0	0	0	13244	1580	55	3	2871	3	RERE	1	8422784	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10		8422784	240827837	1	36906										
MFN2	9927	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	12052666	12052667	+	Frame_Shift_Del	DEL	AC	AC	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cacagaagaacaggttctggAcgtcaaaggttacctatcca							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr1:12052666_12052667delAC	ENST00000235329.5	+	4	552_553	c.230_231delAC	c.(229-231)gacfs	p.D77fs	MFN2_ENST00000497302.1_3'UTR|MFN2_ENST00000444836.1_Frame_Shift_Del_p.D77fs	NM_014874.3	NP_055689.1	O95140	MFN2_HUMAN	mitofusin 2	77					apoptotic process (GO:0006915)|autophagy (GO:0006914)|blastocyst formation (GO:0001825)|blood coagulation (GO:0007596)|camera-type eye morphogenesis (GO:0048593)|mitochondrial fusion (GO:0008053)|mitochondrial membrane organization (GO:0007006)|mitochondrion localization (GO:0051646)|negative regulation of Ras protein signal transduction (GO:0046580)|negative regulation of smooth muscle cell proliferation (GO:0048662)|protein localization to pre-autophagosomal structure (GO:0034497)|protein targeting to mitochondrion (GO:0006626)|response to unfolded protein (GO:0006986)	cytosol (GO:0005829)|integral component of membrane (GO:0016021)|intrinsic component of mitochondrial outer membrane (GO:0031306)|microtubule cytoskeleton (GO:0015630)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|ubiquitin protein ligase binding (GO:0031625)			endometrium(4)|kidney(1)|large_intestine(4)|liver(2)|lung(3)|ovary(1)|pancreas(1)|prostate(2)|skin(2)	20	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;7.25e-06)|COAD - Colon adenocarcinoma(227;0.000302)|BRCA - Breast invasive adenocarcinoma(304;0.000329)|Kidney(185;0.000896)|KIRC - Kidney renal clear cell carcinoma(229;0.00274)|STAD - Stomach adenocarcinoma(313;0.00773)|READ - Rectum adenocarcinoma(331;0.0656)		CAGGTTCTGGACGTCAAAGGTT	0.525																																																0																																										SO:0001589	frameshift_variant	9927			AF036536	CCDS30587.1	1p36.22	2014-09-17			ENSG00000116688	ENSG00000116688			16877	protein-coding gene	gene with protein product		608507				12499352, 11181170	Standard	NM_014874		Approved	CPRP1, KIAA0214, MARF, CMT2A2	uc009vni.3	O95140	OTTHUMG00000002392	ENST00000235329.5:c.230_231delAC	1.37:g.12052666_12052667delAC	ENSP00000235329:p.Asp77fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1B3|O95572|Q5JXC3|Q5JXC4|Q9H131|Q9NSX8	Frame_Shift_Del	DEL	ENST00000235329.5	37	CCDS30587.1																																																																																				0.525	MFN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006859.2	NM_014874		-	12052667	AC	-	12052666	7	5	609	1	0	1	0	1	0	0	0	0	9531	275	10	0	236	0	MFN2	1	12052666	Frame_Shift_Del	DEL	AC	TCGA-HE-A5NI-01A-11D-A26P-10	3629882	12052666	237197955	2	36907										
SPEN	23013	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	16260463	16260463	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gaggccccgcccccgccagtTgactctaaaaagcctttaga	9	15	1	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr1:16260463T>G	ENST00000375759.3	+	11	7932	c.7728T>G	c.(7726-7728)gtT>gtG	p.V2576V		NM_015001.2	NP_055816.2	Q96T58	MINT_HUMAN	spen family transcriptional repressor	2576	RID.				negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|Notch signaling pathway (GO:0007219)|positive regulation of neurogenesis (GO:0050769)|positive regulation of transcription, DNA-templated (GO:0045893)|viral process (GO:0016032)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding transcription factor activity (GO:0003700)|single-stranded DNA binding (GO:0003697)|transcription corepressor activity (GO:0003714)			NS(1)|breast(13)|central_nervous_system(3)|cervix(5)|endometrium(16)|kidney(18)|large_intestine(27)|liver(2)|lung(37)|ovary(7)|prostate(7)|skin(7)|upper_aerodigestive_tract(5)|urinary_tract(1)	149		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)		CCCCGCCAGTTGACTCTAAAA	0.527																																																0													72	83	79					1																	16260463		2203	4300	6503	SO:0001819	synonymous_variant	23013				CCDS164.1	1p36	2013-10-17	2013-10-17		ENSG00000065526	ENSG00000065526		"RNA binding motif (RRM) containing"	17575	protein-coding gene	gene with protein product		613484	"SPEN homolog, transcriptional regulator (Drosophila)", "spen homolog, transcriptional regulator (Drosophila)"			10451362, 11331609	Standard	NM_015001		Approved	KIAA0929, MINT, SHARP, RBM15C	uc001axk.1	Q96T58	OTTHUMG00000009376	ENST00000375759.3:c.7728T>G	1.37:g.16260463T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H9A8|Q9NWH5|Q9UQ01|Q9Y556	Silent	SNP	ENST00000375759.3	37	CCDS164.1																																																																																				0.527	SPEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025993.1	NM_015001		G	16260463	T	G	16260463	2	3	609	1	0	0	0	0	0	0	0	1	15050	1799	63	5		5	SPEN	1	16260463	Silent	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	4207797	16260463	232990158	3	36908										
AKR7A3	22977	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	19611546	19611546	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	aaggcatagaacctcagtccAaagtgcctgaggcaggggaa	13	9	1	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr1:19611546A>G	ENST00000361640.4	-	4	1110	c.570T>C	c.(568-570)ttT>ttC	p.F190F		NM_012067.2	NP_036199.2	O95154	ARK73_HUMAN	aldo-keto reductase family 7, member A3 (aflatoxin aldehyde reductase)	190					cellular aldehyde metabolic process (GO:0006081)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	aldo-keto reductase (NADP) activity (GO:0004033)|electron carrier activity (GO:0009055)			NS(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(4)|ovary(1)|stomach(2)	13		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00049)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;1.78e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|GBM - Glioblastoma multiforme(114;0.00276)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		ACCTCAGTCCAAAGTGCCTGA	0.612																																																0													94	96	95					1																	19611546		2199	4300	6499	SO:0001819	synonymous_variant	22977			AF040639	CCDS193.1	1p36.13	2008-05-14			ENSG00000162482	ENSG00000162482		"Aldo-keto reductases"	390	protein-coding gene	gene with protein product		608477				10383892	Standard	NM_012067		Approved		uc001bbv.1	O95154	OTTHUMG00000002523	ENST00000361640.4:c.570T>C	1.37:g.19611546A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q86SR4|Q8IVN6|Q8N5V6|Q8TAX1|Q9NUC3	Silent	SNP	ENST00000361640.4	37	CCDS193.1																																																																																				0.612	AKR7A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000007166.1	NM_012067		G	19611546	A	G	19611546	2	3	609	1	0	0	0	0	0	0	0	1	476	127	5	3		3	AKR7A3	1	19611546	Silent	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10	3351083	19611546	229639075	4	36909										
RAP1GAP	5909	bcgsc.ca	37	chr1	21952821	21952821	+	5'UTR	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gggtagagtgaaggagtataGgagggaactaagttcactcg	16	4	1	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr1:21952821G>T	ENST00000374765.4	-	0	158				RAP1GAP_ENST00000290101.4_Silent_p.S50S|RAP1GAP_ENST00000542643.2_5'UTR|RAP1GAP_ENST00000374757.3_5'UTR	NM_002885.2	NP_002876.2	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein						GTP catabolic process (GO:0006184)|positive regulation of Rap GTPase activity (GO:0032854)|regulation of Ras GTPase activity (GO:0032318)|signal transduction (GO:0007165)	cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	GTPase activator activity (GO:0005096)|GTPase activity (GO:0003924)|protein homodimerization activity (GO:0042803)|Rap GTPase activator activity (GO:0046582)|Ras GTPase binding (GO:0017016)			breast(2)|central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(7)|ovary(2)|skin(1)	17		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		AAGGAGTATAGGAGGGAACTA	0.577																																																0													131	128	129					1																	21952821		1568	3582	5150	SO:0001623	5_prime_UTR_variant	5909			BC054490	CCDS218.1, CCDS53276.1, CCDS53277.1	1p36.1-p35	2009-09-14	2006-04-12	2006-04-12	ENSG00000076864	ENSG00000076864			9858	protein-coding gene	gene with protein product		600278	"RAP1, GTPase activating protein 1"	RAP1GA1		1904317	Standard	NM_001145657		Approved	KIAA0474, RAP1GAP1, RAP1GAPII	uc001bew.3	P47736	OTTHUMG00000007513	ENST00000374765.4:c.-43C>A	1.37:g.21952821G>T		Somatic		WXS	Illumina HiSeq	Phase_1	J3QSS6|O75062|Q5T3S9|Q5T3T4|Q7Z5S8|Q9UQ51	Silent	SNP	ENST00000374765.4	37	CCDS218.1																																																																																				0.577	RAP1GAP-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000019759.2	NM_002885		T	21952821	G	T	21952821	1	4	609	0	1	0	0	0	0	0	0	0	13050	987	35	4		4	RAP1GAP	1	21952821	5'UTR	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	2341275	21952821	227297800	5	36910										
ZMYM1	79830	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	35569920	35569920	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	attttaaatccaaaggatgtGattagtgtccagctggaaga	10	5	0	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr1:35569920G>C	ENST00000373330.1	+	6	618	c.444G>C	c.(442-444)gtG>gtC	p.V148V	ZMYM1_ENST00000373329.1_3'UTR|ZMYM1_ENST00000359858.4_Silent_p.V148V			Q5SVZ6	ZMYM1_HUMAN	zinc finger, MYM-type 1	148						nucleus (GO:0005634)	nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(5)|lung(8)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)	31		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CAAAGGATGTGATTAGTGTCC	0.308																																																0													41	40	41					1																	35569920		1830	4087	5917	SO:0001819	synonymous_variant	79830			AK096206	CCDS41302.1	1p34.3	2008-05-02	2005-09-12		ENSG00000197056	ENSG00000197056		"Zinc fingers, MYM type"	26253	protein-coding gene	gene with protein product			"zinc finger, MYM domain containing 1"			12477932	Standard	XM_005271216		Approved	FLJ23151, MYM	uc001bym.3	Q5SVZ6	OTTHUMG00000004374	ENST00000373330.1:c.444G>C	1.37:g.35569920G>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DPR7|Q7Z3Q4	Silent	SNP	ENST00000373330.1	37	CCDS41302.1																																																																																				0.308	ZMYM1-001	NOVEL	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012705.1	NM_024772		C	35569920	G	C	35569920	2	2	609	1	0	0	0	0	0	0	0	1	17711	1277	45	4		4	ZMYM1	1	35569920	Silent	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	13617099	35569920	213680701	6	36911										
EPS15	2060	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	51946986	51946986	+	Splice_Site	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tacaggattcccacttgataActgaaataaacacattaata	4	8	0	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr1:51946986A>C	ENST00000371733.3	-	2	130	c.34T>G	c.(34-36)Tta>Gta	p.L12V	EPS15_ENST00000371730.2_Splice_Site_p.L12V	NM_001981.2	NP_001972.1	P42566	EPS15_HUMAN	epidermal growth factor receptor pathway substrate 15	12	Interaction with DAB2. {ECO:0000250}.				cell proliferation (GO:0008283)|clathrin coat assembly (GO:0048268)|endocytic recycling (GO:0032456)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|Golgi to endosome transport (GO:0006895)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|protein transport (GO:0015031)|vesicle organization (GO:0016050)	AP-2 adaptor complex (GO:0030122)|ciliary membrane (GO:0060170)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome (GO:0005768)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|polyubiquitin binding (GO:0031593)			endometrium(3)|kidney(5)|large_intestine(8)|lung(13)|prostate(2)|skin(1)|stomach(1)|urinary_tract(2)	35						CCACTTGATAACTGAAATAAA	0.274			T	MLL	ALL																																		Dom	yes		1	1p32	2060	epidermal growth factor receptor pathway substrate 15 (AF1p)		L	0													52	53	53					1																	51946986		2200	4296	6496	SO:0001630	splice_region_variant	2060			BC054006	CCDS557.1	1p32	2013-01-10			ENSG00000085832	ENSG00000085832		"EF-hand domain containing"	3419	protein-coding gene	gene with protein product		600051				8183552	Standard	NM_001159969		Approved	AF-1P, MLLT5	uc001csq.1	P42566	OTTHUMG00000008192	ENST00000371733.3:c.34-1T>G	1.37:g.51946986A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R8J7|D3DPJ2|Q5SRH4	Missense_Mutation	SNP	ENST00000371733.3	37	CCDS557.1	.	.	.	.	.	.	.	.	.	.	A	11.39	1.624296	0.28889	.	.	ENSG00000085832	ENST00000371730;ENST00000371733;ENST00000371727	T;T	0.25749	1.87;1.78	5.0	3.81	0.43845	EPS15 homology (EH) (1);	0.000000	0.26478	N	0.024144	T	0.39655	0.1086	M	0.75264	2.295	0.80722	D	1	D;D	0.67145	0.993;0.996	D;D	0.75484	0.967;0.986	T	0.56080	-0.8038	10	0.02654	T	1	.	6.4196	0.21736	0.7757:0.0:0.2243:0.0	.	12;12	B1AUU8;P42566	.;EPS15_HUMAN	V	12	ENSP00000360795:L12V;ENSP00000360798:L12V	ENSP00000360792:L12V	L	-	1	2	EPS15	51719574	1.000000	0.71417	1.000000	0.80357	0.962000	0.63368	1.897000	0.39799	0.930000	0.37217	0.533000	0.62120	TTA		0.274	EPS15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000022422.1	NM_001981	Missense_Mutation	C	51946986	A	C	51946986	5	2	609	1	0	0	0	0	0	0	1	0	5194	57	2	5	2850	5	EPS15	1	51946986	Splice_Site	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10	16377066	51946986	197303635	7	36912										
ATG4C	84938	broad.mit.edu;bcgsc.ca	37	chr1	63284805	63284806	+	Frame_Shift_Ins	INS	-	-	A													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	agagaattcaaaaccccaacINSaatttctctgaaggaaacaa							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr1:63284805_63284806insA	ENST00000317868.4	+	5	731_732	c.524_525insA	c.(523-528)acaattfs	p.I176fs	ATG4C_ENST00000371120.3_Frame_Shift_Ins_p.I176fs	NM_032852.3	NP_116241.2	Q96DT6	ATG4C_HUMAN	autophagy related 4C, cysteine peptidase	176					autophagic vacuole assembly (GO:0000045)|autophagy (GO:0006914)|protein targeting to membrane (GO:0006612)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)	cysteine-type endopeptidase activity (GO:0004197)|peptidase activity (GO:0008233)		ATG4C/FBXO38(2)	NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(6)|lung(3)|ovary(1)|prostate(2)	19						AAAACCCCAACAATTTCTCTGA	0.366																																																0																																										SO:0001589	frameshift_variant	84938			AK027773	CCDS623.1	1p31.3	2014-02-12	2012-06-06	2005-09-11	ENSG00000125703	ENSG00000125703			16040	protein-coding gene	gene with protein product		611339	"AUT (S. cerevisiae)-like 1, cysteine endopeptidase; AUT-like 1, cysteine endopeptidase (S. cerevisiae)", "APG4 autophagy 4 homolog C (S. cerevisiae)", "ATG4 autophagy related 4 homolog C (S. cerevisiae)"	AUTL1, APG4C		12446702	Standard	NM_032852		Approved	FLJ14867, AUTL3	uc001dau.3	Q96DT6	OTTHUMG00000009142	ENST00000317868.4:c.526dupA	1.37:g.63284807_63284807dupA	ENSP00000322159:p.Ile176fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLR8|D3DQ58|Q96K04	Frame_Shift_Ins	INS	ENST00000317868.4	37	CCDS623.1																																																																																				0.366	ATG4C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025332.2	NM_032852		A	63284806	-	A	63284805	7	5	609	1	0	1	1	0	0	0	0	0	1098	478	17	0	538	0	ATG4C	1	63284805	Frame_Shift_Ins	INS	-	TCGA-HE-A5NI-01A-11D-A26P-10	11337819	63284805	185965816	8	36913										
FAM46C	54855	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	118165851	118165851	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gttcccttctgaacttcctgCcagagggtgtgaacaagctc	10	12	1	3			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr1:118165851C>G	ENST00000369448.3	+	2	608	c.361C>G	c.(361-363)Cca>Gca	p.P121A		NM_017709.3	NP_060179.2	Q5VWP2	FA46C_HUMAN	family with sequence similarity 46, member C	121										endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(1)|lung(7)|ovary(1)|upper_aerodigestive_tract(1)	15	Lung SC(450;0.225)	all_cancers(81;0.000101)|all_lung(203;3.4e-06)|all_epithelial(167;4.98e-06)|Lung NSC(69;2.33e-05)		Lung(183;0.0576)|LUSC - Lung squamous cell carcinoma(189;0.192)|Colorectal(144;0.247)		GAACTTCCTGCCAGAGGGTGT	0.502			"Mis, F, O"		MM					Multiple Myeloma(3;1.13e-06)																													Rec	yes		1	1p12	54855	"family with sequence similarity 46, member C"		L	0													104	106	105					1																	118165851		2203	4300	6503	SO:0001583	missense	54855			BC036516	CCDS896.1	1p12	2008-02-05			ENSG00000183508	ENSG00000183508			24712	protein-coding gene	gene with protein product		613952				12477932	Standard	NM_017709		Approved	FLJ20202	uc001ehe.3	Q5VWP2	OTTHUMG00000013703	ENST00000369448.3:c.361C>G	1.37:g.118165851C>G	ENSP00000358458:p.Pro121Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A3KMG2|Q8NE25|Q9NXK0	Missense_Mutation	SNP	ENST00000369448.3	37	CCDS896.1	.	.	.	.	.	.	.	.	.	.	C	19.71	3.877619	0.72294	.	.	ENSG00000183508	ENST00000369448	T	0.46819	0.86	5.75	5.75	0.90469	Domain of unknown function DUF1693 (1);	0.000000	0.64402	D	0.000002	T	0.70456	0.3226	M	0.87971	2.92	0.80722	D	1	D	0.76494	0.999	D	0.83275	0.996	T	0.74850	-0.3524	10	0.72032	D	0.01	-31.2719	18.9258	0.92544	0.0:1.0:0.0:0.0	.	121	Q5VWP2	FA46C_HUMAN	A	121	ENSP00000358458:P121A	ENSP00000358458:P121A	P	+	1	0	FAM46C	117967374	1.000000	0.71417	0.999000	0.59377	0.995000	0.86356	7.818000	0.86416	2.711000	0.92665	0.655000	0.94253	CCA		0.502	FAM46C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000038424.1	NM_017709		G	118165851	C	G	118165851	3	3	609	1	0	0	0	0	1	0	0	0	5574	739	26	4	363	4	FAM46C	1	118165851	Missense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	54881046	118165851	131084770	9	36914										
ZC3H11A	9877	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	203819761	203819761	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	attgccgctgtgaagccactCagctccagcagtgtcctaca	9	14	1	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr1:203819761C>T	ENST00000545588.1	+	15	5885	c.2058C>T	c.(2056-2058)ctC>ctT	p.L686L	ZC3H11A_ENST00000367214.1_Silent_p.L686L|ZC3H11A_ENST00000367210.1_Silent_p.L686L|ZC3H11A_ENST00000367212.3_Silent_p.L686L|ZC3H11A_ENST00000332127.4_Silent_p.L686L	NM_001271675.1	NP_001258604.1	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	686					poly(A)+ mRNA export from nucleus (GO:0016973)		metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(4)|lung(15)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	32	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			TGAAGCCACTCAGCTCCAGCA	0.502																																																0													80	80	80					1																	203819761		2203	4300	6503	SO:0001819	synonymous_variant	9877				CCDS30978.1	1q32.1	2012-07-05	2005-06-02	2005-06-02	ENSG00000058673	ENSG00000058673		"Zinc fingers, CCCH-type domain containing"	29093	protein-coding gene	gene with protein product		613513	"zinc finger CCCH-type domain containing 11A"	ZC3HDC11A		9734811	Standard	NM_014827		Approved	KIAA0663	uc001hac.3	O75152	OTTHUMG00000035909	ENST00000545588.1:c.2058C>T	1.37:g.203819761C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6AHY4|Q6AHY9|Q6AW79|Q6AWA1|Q6PJK4|Q86XZ7	Silent	SNP	ENST00000545588.1	37	CCDS30978.1																																																																																				0.502	ZC3H11A-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087471.3	NM_014827		T	203819761	C	T	203819761	2	4	609	1	0	0	0	0	0	0	0	1	17572	813	29	2		2	ZC3H11A	1	203819761	Silent	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	85653910	203819761	45430860	10	36915										
NUAK2	81788	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	205272646	205272646	+	Frame_Shift_Del	DEL	G	G	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cacctcctggcagtctgtcaGggaaaagcagctgtccccca							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr1:205272646delG	ENST00000367157.3	-	7	1945	c.1819delC	c.(1819-1821)ctgfs	p.L607fs		NM_030952.1	NP_112214.1			NUAK family, SNF1-like kinase, 2											breast(3)|kidney(3)|large_intestine(4)|lung(4)|ovary(3)|prostate(3)|skin(1)|stomach(1)|urinary_tract(1)	23	Breast(84;0.186)		BRCA - Breast invasive adenocarcinoma(75;0.117)			CAGTCTGTCAGGGAAAAGCAG	0.642																																																0													55	53	54					1																	205272646		2203	4300	6503	SO:0001589	frameshift_variant	81788			AK074830	CCDS1453.1	1q32.1	2008-02-05			ENSG00000163545	ENSG00000163545			29558	protein-coding gene	gene with protein product	"SNF1/AMP activated protein kinase"	608131				11230166	Standard	NM_030952		Approved	SNARK, FLJ90349	uc001hce.3	Q9H093	OTTHUMG00000037196	ENST00000367157.3:c.1819delC	1.37:g.205272646delG	ENSP00000356125:p.Leu607fs	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	DEL	ENST00000367157.3	37	CCDS1453.1																																																																																				0.642	NUAK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090390.1	NM_030952		-	205272646	G	-	205272646	7	5	609	1	0	1	0	1	0	0	0	0	10720	991	35	0	71	0	NUAK2	1	205272646	Frame_Shift_Del	DEL	G	TCGA-HE-A5NI-01A-11D-A26P-10	1452885	205272646	43977975	11	36916										
PLXNA2	5362	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	208213052	208213052	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cgtgatggcatcaatggggcCcttctccatctgctgcttga	11	12	3	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr1:208213052C>T	ENST00000367033.3	-	24	5171	c.4414G>A	c.(4414-4416)Ggc>Agc	p.G1472S		NM_025179.3	NP_079455.3	O75051	PLXA2_HUMAN	plexin A2	1472					axon guidance (GO:0007411)|centrosome localization (GO:0051642)|cerebellar granule cell precursor tangential migration (GO:0021935)|limb bud formation (GO:0060174)|neural tube development (GO:0021915)|pharyngeal system development (GO:0060037)|regulation of cell migration (GO:0030334)|semaphorin-plexin signaling pathway (GO:0071526)|somitogenesis (GO:0001756)	integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|semaphorin receptor complex (GO:0002116)	semaphorin receptor activity (GO:0017154)			NS(1)|breast(3)|central_nervous_system(5)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|liver(1)|lung(28)|ovary(3)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)	80				OV - Ovarian serous cystadenocarcinoma(81;0.199)		TCAATGGGGCCCTTCTCCATC	0.622																																																0													96	88	91					1																	208213052		2203	4300	6503	SO:0001583	missense	5362			X87831	CCDS31013.1	1q32.2	2008-07-18			ENSG00000076356	ENSG00000076356		"Plexins"	9100	protein-coding gene	gene with protein product	"plexin 2", "plexin-A2", "semaphorin receptor OCT", "transmembrane protein OCT"	601054		PLXN2		8570614	Standard	NM_025179		Approved	OCT, FLJ11751, FLJ30634, KIAA0463	uc001hgz.3	O75051	OTTHUMG00000036564	ENST00000367033.3:c.4414G>A	1.37:g.208213052C>T	ENSP00000356000:p.Gly1472Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A2RTX9|B2RMX7|Q6UX61|Q96GN9|Q9BRL1|Q9UIW1	Missense_Mutation	SNP	ENST00000367033.3	37	CCDS31013.1	.	.	.	.	.	.	.	.	.	.	C	36	5.938808	0.97122	.	.	ENSG00000076356	ENST00000367033	T	0.35789	1.29	5.51	5.51	0.81932	Plexin, cytoplasmic RasGAP domain (1);Rho GTPase activation protein (1);	0.000000	0.85682	D	0.000000	T	0.71745	0.3376	M	0.93678	3.445	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.79752	-0.1671	10	0.87932	D	0	.	19.4545	0.94882	0.0:1.0:0.0:0.0	.	1472	O75051	PLXA2_HUMAN	S	1472	ENSP00000356000:G1472S	ENSP00000356000:G1472S	G	-	1	0	PLXNA2	206279675	1.000000	0.71417	1.000000	0.80357	0.971000	0.66376	7.538000	0.82048	2.590000	0.87494	0.650000	0.86243	GGC		0.622	PLXNA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088932.6	NM_025179		T	208213052	C	T	208213052	3	4	609	1	0	0	0	0	1	0	0	0	12127	623	22	2	1306	2	PLXNA2	1	208213052	Missense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	2940406	208213052	41037569	12	36917										
CAPN2	824	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	223900487	223900487	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ccgggacgctcttccaggacCcgtccttcccggccatcccc	9	21	1	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr1:223900487C>A	ENST00000295006.5	+	1	454	c.145C>A	c.(145-147)Ccg>Acg	p.P49T	CAPN2_ENST00000433674.2_Intron	NM_001748.4	NP_001739	P17655	CAN2_HUMAN	calpain 2, (m/II) large subunit	49	Calpain catalytic. {ECO:0000255|PROSITE- ProRule:PRU00239}.				blastocyst development (GO:0001824)|cellular response to amino acid stimulus (GO:0071230)|myoblast fusion (GO:0007520)|protein autoprocessing (GO:0016540)|proteolysis (GO:0006508)|proteolysis involved in cellular protein catabolic process (GO:0051603)|regulation of cytoskeleton organization (GO:0051493)|response to hypoxia (GO:0001666)	chromatin (GO:0000785)|cortical actin cytoskeleton (GO:0030864)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi apparatus (GO:0005794)|membrane raft (GO:0045121)|nucleus (GO:0005634)|perinuclear endoplasmic reticulum (GO:0097038)|plasma membrane (GO:0005886)|pseudopodium (GO:0031143)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)|cysteine-type peptidase activity (GO:0008234)|cytoskeletal protein binding (GO:0008092)			breast(3)|endometrium(1)|kidney(1)|large_intestine(9)|lung(10)|prostate(1)|skin(1)|stomach(3)	29				GBM - Glioblastoma multiforme(131;0.109)		CTTCCAGGACCCGTCCTTCCC	0.672																																																0													24	24	24					1																	223900487		2201	4297	6498	SO:0001583	missense	824			J04700	CCDS31035.1, CCDS53478.1	1q41-q42	2013-01-10			ENSG00000162909	ENSG00000162909	3.4.22.52	"EF-hand domain containing"	1479	protein-coding gene	gene with protein product		114230				2852952, 2539381	Standard	NM_001748		Approved	mCANP, CANPml, CANPL2	uc001hob.4	P17655	OTTHUMG00000037376	ENST00000295006.5:c.145C>A	1.37:g.223900487C>A	ENSP00000295006:p.Pro49Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDG7|B7ZA96|E7ES58|Q16738|Q6PJT3|Q8WU26|Q9HBB1	Missense_Mutation	SNP	ENST00000295006.5	37	CCDS31035.1	.	.	.	.	.	.	.	.	.	.	C	15.79	2.935915	0.52972	.	.	ENSG00000162909	ENST00000295006;ENST00000366869	T	0.49432	0.78	3.88	3.88	0.44766	Peptidase C2, calpain, catalytic domain (3);	0.526246	0.19489	U	0.113025	T	0.54046	0.1834	M	0.81112	2.525	0.24034	N	0.996105	B	0.34214	0.442	B	0.39094	0.29	T	0.54556	-0.8276	10	0.54805	T	0.06	.	12.5002	0.55952	0.0:0.6877:0.3123:0.0	.	49	P17655	CAN2_HUMAN	T	49;78	ENSP00000295006:P49T	ENSP00000295006:P49T	P	+	1	0	CAPN2	221967110	0.000000	0.05858	0.913000	0.36048	0.489000	0.33432	0.484000	0.22308	1.862000	0.54008	0.491000	0.48974	CCG		0.672	CAPN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090973.1	NM_001748		A	223900487	C	A	223900487	3	1	609	1	0	0	0	0	1	0	0	0	2629	623	22	4	154	4	CAPN2	1	223900487	Missense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	15687435	223900487	25350134	13	36918										
ASXL2	55252	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	25972919	25972919	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gctgtggtgagatggttcttCtcagattcctgttcagcaga	12	8	3	3			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr2:25972919C>T	ENST00000435504.4	-	12	1799	c.1506G>A	c.(1504-1506)gaG>gaA	p.E502E	ASXL2_ENST00000272341.4_Silent_p.E242E|ASXL2_ENST00000404843.1_Silent_p.E242E|ASXL2_ENST00000336112.4_Silent_p.E474E			Q76L83	ASXL2_HUMAN	additional sex combs like transcriptional regulator 2	502					adult heart development (GO:0007512)|embryonic skeletal system morphogenesis (GO:0048704)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of bone mineralization involved in bone maturation (GO:1900159)|positive regulation of fat cell differentiation (GO:0045600)|positive regulation of histone H3-K27 trimethylation (GO:1902466)|positive regulation of osteoclast differentiation (GO:0045672)|positive regulation of peroxisome proliferator activated receptor signaling pathway (GO:0035360)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nuclear chromatin (GO:0000790)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|peroxisome proliferator activated receptor binding (GO:0042975)			NS(1)|breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(4)|lung(7)|pancreas(1)|prostate(4)|skin(3)|urinary_tract(3)	33	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GATGGTTCTTCTCAGATTCCT	0.443																																																0													148	136	140					2																	25972919		1903	4132	6035	SO:0001819	synonymous_variant	55252					2p24.1	2014-06-17	2014-06-17		ENSG00000143970	ENSG00000143970			23805	protein-coding gene	gene with protein product		612991	"additional sex combs like 2 (Drosophila)"			12888926	Standard	NM_018263		Approved	ASXH2, FLJ10898, KIAA1685	uc002rgs.2	Q76L83	OTTHUMG00000152176	ENST00000435504.4:c.1506G>A	2.37:g.25972919C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q53TC9|Q5H9U4|Q76L81|Q86XM1|Q9C0H8|Q9NV67	Silent	SNP	ENST00000435504.4	37																																																																																					0.443	ASXL2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000325593.3	NM_018263		T	25972919	C	T	25972919	2	4	609	1	0	0	0	0	0	0	0	1	1067	912	32	2		2	ASXL2	2	25972919	Silent	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10		25972919	217226454	14	36919										
HADHA	3030	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	26427053	26427053	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cccatcagccctgcaccaagAatagccagatgcctgcaagg	9	15	1	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr2:26427053A>C	ENST00000380649.3	-	12	1227	c.1098T>G	c.(1096-1098)atT>atG	p.I366M		NM_000182.4	NP_000173.2	P40939	ECHA_HUMAN	hydroxyacyl-CoA dehydrogenase/3-ketoacyl-CoA thiolase/enoyl-CoA hydratase (trifunctional protein), alpha subunit	366					cardiolipin acyl-chain remodeling (GO:0035965)|cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation (GO:0006635)|glycerophospholipid biosynthetic process (GO:0046474)|phospholipid metabolic process (GO:0006644)|response to drug (GO:0042493)|response to insulin (GO:0032868)|small molecule metabolic process (GO:0044281)	mitochondrial fatty acid beta-oxidation multienzyme complex (GO:0016507)|mitochondrial inner membrane (GO:0005743)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)	3-hydroxyacyl-CoA dehydrogenase activity (GO:0003857)|acetyl-CoA C-acetyltransferase activity (GO:0003985)|enoyl-CoA hydratase activity (GO:0004300)|fatty-acyl-CoA binding (GO:0000062)|long-chain-3-hydroxyacyl-CoA dehydrogenase activity (GO:0016509)|long-chain-enoyl-CoA hydratase activity (GO:0016508)|NAD binding (GO:0051287)			autonomic_ganglia(1)|breast(1)|endometrium(5)|kidney(1)|large_intestine(6)|lung(10)|ovary(1)|prostate(4)|skin(1)	30	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGCACCAAGAATAGCCAGAT	0.468																																																0													223	216	219					2																	26427053		2203	4300	6503	SO:0001583	missense	3030			D16480	CCDS1721.1	2p23	2014-09-17	2010-04-30		ENSG00000084754	ENSG00000084754	1.1.1.211, 4.2.1.17		4801	protein-coding gene	gene with protein product	"gastrin-binding protein", "long-chain-3-hydroxyacyl-CoA dehydrogenase", "long-chain 2-enoyl-CoA hydratase", "mitochondrial trifunctional protein, alpha subunit"	600890	"hydroxyacyl-Coenzyme A dehydrogenase/3-ketoacyl-Coenzyme A thiolase/enoyl-Coenzyme A hydratase (trifunctional protein), alpha subunit"			9605857, 7918661	Standard	NM_000182		Approved	GBP, LCEH, LCHAD, MTPA	uc002rgy.3	P40939	OTTHUMG00000096979	ENST00000380649.3:c.1098T>G	2.37:g.26427053A>C	ENSP00000370023:p.Ile366Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7L4|B4DYP2|Q16679|Q53T69|Q53TA2|Q96GT7|Q9UQC5	Missense_Mutation	SNP	ENST00000380649.3	37	CCDS1721.1	.	.	.	.	.	.	.	.	.	.	A	17.98	3.521115	0.64747	.	.	ENSG00000084754	ENST00000380649	T	0.81163	-1.46	5.0	3.85	0.44370	3-hydroxyacyl-CoA dehydrogenase, NAD binding (1);NAD(P)-binding domain (1);	0.398782	0.28834	N	0.013995	D	0.83454	0.5258	M	0.65677	2.01	0.80722	D	1	P;P	0.40731	0.728;0.728	P;P	0.57057	0.812;0.812	T	0.81743	-0.0793	10	0.66056	D	0.02	-14.6089	1.9477	0.03360	0.5809:0.166:0.0927:0.1603	.	366;366	E9KL44;P40939	.;ECHA_HUMAN	M	366	ENSP00000370023:I366M	ENSP00000370023:I366M	I	-	3	3	HADHA	26280557	0.998000	0.40836	0.972000	0.41901	0.988000	0.76386	0.641000	0.24720	0.867000	0.35654	0.533000	0.62120	ATT		0.468	HADHA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214051.1	NM_000182		C	26427053	A	C	26427053	3	2	609	1	0	0	0	0	1	0	0	0	6950	242	9	5	1229	5	HADHA	2	26427053	Missense_Mutation	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10	454134	26427053	216772320	15	36920										
TET3	200424	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	74320721	74320721	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gaaggacggcccttcgcgggGgtcacggcctgcatggactt	16	12	1	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr2:74320721G>T	ENST00000409262.3	+	7	2790	c.2790G>T	c.(2788-2790)ggG>ggT	p.G930G		NM_144993.1	NP_659430.1	O43151	TET3_HUMAN	tet methylcytosine dioxygenase 3	930					DNA demethylation (GO:0080111)|DNA demethylation of male pronucleus (GO:0044727)|histone H3-K4 trimethylation (GO:0080182)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein O-linked glycosylation (GO:0006493)	cytoplasm (GO:0005737)|female pronucleus (GO:0001939)|male pronucleus (GO:0001940)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|methylcytosine dioxygenase activity (GO:0070579)			NS(1)|breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(9)|lung(9)|ovary(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	34						CCTTCGCGGGGGTCACGGCCT	0.597																																																0													71	76	74					2																	74320721		2052	4226	6278	SO:0001819	synonymous_variant	200424				CCDS46339.1, CCDS46339.2	2p13.1	2011-09-30	2011-09-30		ENSG00000187605	ENSG00000187605			28313	protein-coding gene	gene with protein product		613555	"tet oncogene family member 3"			9455477	Standard	XM_005264187		Approved	MGC22014, hCG_40738	uc031roi.1	O43151	OTTHUMG00000152823	ENST00000409262.3:c.2790G>T	2.37:g.74320721G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NEI3|Q86Z24|Q8TBM9	Silent	SNP	ENST00000409262.3	37	CCDS46339.1																																																																																				0.597	TET3-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328141.4			T	74320721	G	T	74320721	2	4	609	1	0	0	0	0	0	0	0	1	15783	1219	43	4		4	TET3	2	74320721	Silent	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	47893668	74320721	168878652	16	36921										
MAP4K4	9448	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	102493592	102493592	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gtacttgagggcttgaatgtCttggtgacaatatctggtga	13	5	2	4	rs575144210		TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr2:102493592C>G	ENST00000347699.4	+	24	2934	c.2934C>G	c.(2932-2934)gtC>gtG	p.V978V	MAP4K4_ENST00000324219.4_Silent_p.V1059V|MAP4K4_ENST00000350198.4_Silent_p.V897V|MAP4K4_ENST00000302217.5_Silent_p.V781V|MAP4K4_ENST00000413150.2_Silent_p.V893V|MAP4K4_ENST00000456652.1_Silent_p.V777V|MAP4K4_ENST00000350878.4_Silent_p.V1018V|MAP4K4_ENST00000425019.1_Silent_p.V1011V	NM_001242559.1|NM_145687.3	NP_001229488.1|NP_663720.1	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase kinase 4	978	CNH. {ECO:0000255|PROSITE- ProRule:PRU00795}.|Mediates interaction with RAP2A.				intracellular signal transduction (GO:0035556)|protein phosphorylation (GO:0006468)|regulation of JNK cascade (GO:0046328)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)|small GTPase regulator activity (GO:0005083)			breast(1)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(8)|lung(15)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	41						GCTTGAATGTCTTGGTGACAA	0.418													C|||	1	0.000199681	0.0	0.0	5008	,	,		22716	0.001		0.0	False		,,,				2504	0.0															0													180	173	175					2																	102493592		1970	4164	6134	SO:0001819	synonymous_variant	9448			AF096300	CCDS56130.1, CCDS74546.1	2q11.2-q12	2011-06-09			ENSG00000071054	ENSG00000071054		"Mitogen-activated protein kinase cascade / Kinase kinase kinase kinases"	6866	protein-coding gene	gene with protein product	"HPK/GCK-like kinase", "hepatocyte progenitor kinase-like/germinal center kinase-like kinase"	604666				9890973, 9734811, 9135144	Standard	NM_004834		Approved	HGK, NIK, FLH21957	uc002tbf.3	O95819	OTTHUMG00000155394	ENST00000347699.4:c.2934C>G	2.37:g.102493592C>G		Somatic		WXS	Illumina HiSeq	Phase_I	O75172|Q9NST7	Silent	SNP	ENST00000347699.4	37	CCDS56130.1	.	.	.	.	.	.	.	.	.	.	C	8.328	0.825853	0.16749	.	.	ENSG00000071054	ENST00000421882	.	.	.	5.48	1.44	0.22558	.	.	.	.	.	T	0.53965	0.1829	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.43972	-0.9358	4	.	.	.	.	6.5872	0.22626	0.1267:0.6675:0.0:0.2057	.	.	.	.	V	795	.	.	L	+	1	0	MAP4K4	101860024	1.000000	0.71417	0.986000	0.45419	0.981000	0.71138	1.591000	0.36665	0.368000	0.24481	-0.136000	0.14681	CTT		0.418	MAP4K4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000339839.1	NM_004834		G	102493592	C	G	102493592	2	3	609	1	0	0	0	0	0	0	0	1	9269	900	32	4		4	MAP4K4	2	102493592	Silent	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	28172871	102493592	140705781	17	36922										
NPHP1	4867	broad.mit.edu	37	chr2	110936067	110936067	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttgggtaagcttgtccaaaaGagtatgctcctcttcttttc	8	9	2	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr2:110936067G>A	ENST00000393272.3	-	4	359	c.262C>T	c.(262-264)Ctt>Ttt	p.L88F	NPHP1_ENST00000316534.4_Missense_Mutation_p.L88F|NPHP1_ENST00000418527.1_Missense_Mutation_p.L88F|NPHP1_ENST00000445609.2_Missense_Mutation_p.L88F|NPHP1_ENST00000355301.4_Intron|NPHP1_ENST00000417665.1_Missense_Mutation_p.L88F	NM_000272.3|NM_207181.2	NP_000263.2|NP_997064.2	O15259	NPHP1_HUMAN	nephronophthisis 1 (juvenile)	88					actin cytoskeleton organization (GO:0030036)|cell projection organization (GO:0030030)|cellular protein localization (GO:0034613)|excretion (GO:0007588)|photoreceptor cell outer segment organization (GO:0035845)|retina development in camera-type eye (GO:0060041)|signal transduction (GO:0007165)|single organismal cell-cell adhesion (GO:0016337)|spermatid differentiation (GO:0048515)|visual behavior (GO:0007632)	cell-cell junction (GO:0005911)|ciliary transition zone (GO:0035869)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|membrane (GO:0016020)|motile cilium (GO:0031514)|photoreceptor connecting cilium (GO:0032391)|tight junction (GO:0005923)	structural molecule activity (GO:0005198)			autonomic_ganglia(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(6)|lung(10)|ovary(2)	24						TTGTCCAAAAGAGTATGCTCC	0.358																																																0													165	149	154					2																	110936067		2203	4300	6503	SO:0001583	missense	4867			AF023674	CCDS2086.1, CCDS46384.1, CCDS46385.1, CCDS46386.1	2q13	2014-01-28			ENSG00000144061	ENSG00000144061			7905	protein-coding gene	gene with protein product	"nephrocystin-1"	607100		NPH1			Standard	NM_000272		Approved	JBTS4, SLSN1	uc002tfm.4	O15259	OTTHUMG00000131195	ENST00000393272.3:c.262C>T	2.37:g.110936067G>A	ENSP00000376953:p.Leu88Phe	Somatic		WXS	Illumina HiSeq	Phase_I	O14837	Missense_Mutation	SNP	ENST00000393272.3	37	CCDS46385.1	.	.	.	.	.	.	.	.	.	.	G	15.72	2.916016	0.52546	.	.	ENSG00000144061	ENST00000316534;ENST00000445609;ENST00000393272;ENST00000417665;ENST00000418527	T;T;T;T	0.62639	0.01;0.04;0.01;0.04	5.57	2.59	0.31030	.	0.325851	0.28488	N	0.015164	T	0.69815	0.3153	L	0.56769	1.78	0.19575	N	0.999963	P;P;D;P;P;D	0.71674	0.868;0.947;0.998;0.868;0.919;0.977	B;P;D;B;B;P	0.69142	0.23;0.642;0.962;0.383;0.406;0.847	T	0.57860	-0.7738	10	0.39692	T	0.17	-10.1049	8.3457	0.32272	0.0775:0.0:0.6507:0.2718	.	88;88;88;88;88;88	B4DQY0;C9JNM7;C9J082;O15259;O15259-2;O15259-4	.;.;.;NPHP1_HUMAN;.;.	F	88	ENSP00000313169:L88F;ENSP00000389879:L88F;ENSP00000376953:L88F;ENSP00000402176:L88F	ENSP00000313169:L88F	L	-	1	0	NPHP1	110293356	0.499000	0.26083	0.400000	0.26346	0.901000	0.52897	1.117000	0.31234	0.800000	0.34041	0.655000	0.94253	CTT		0.358	NPHP1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000253919.3	NM_000272		A	110936067	G	A	110936067	3	1	609	1	0	0	0	0	1	0	0	0	10586	942	33	2	2007	2	NPHP1	2	110936067	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	8442475	110936067	132263306	18	36923										
ZC3H6	376940	broad.mit.edu;bcgsc.ca	37	chr2	113067649	113067649	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	caatcagctgaaacaatacaGgcaagctaaagaaacctcaa	6	10	2	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr2:113067649G>A	ENST00000409871.1	+	4	925	c.524G>A	c.(523-525)aGg>aAg	p.R175K	ZC3H6_ENST00000343936.4_Missense_Mutation_p.R175K	NM_198581.2	NP_940983.2	P61129	ZC3H6_HUMAN	zinc finger CCCH-type containing 6	175							metal ion binding (GO:0046872)			central_nervous_system(2)|endometrium(3)|kidney(3)|large_intestine(9)|lung(12)|ovary(4)|prostate(2)	35						AAACAATACAGGCAAGCTAAA	0.378																																																0													81	75	77					2																	113067649		1854	4104	5958	SO:0001583	missense	376940			AK123404	CCDS46393.1	2q13	2012-07-05	2005-06-02	2005-06-02	ENSG00000188177	ENSG00000188177		"Zinc fingers, CCCH-type domain containing"	24762	protein-coding gene	gene with protein product			"zinc finger CCCH-type domain containing 6"	ZC3HDC6			Standard	NM_198581		Approved	FLJ41410, FLJ45877, KIAA2035	uc002thq.1	P61129	OTTHUMG00000153286	ENST00000409871.1:c.524G>A	2.37:g.113067649G>A	ENSP00000386764:p.Arg175Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A9JR71|Q6ZW96	Missense_Mutation	SNP	ENST00000409871.1	37	CCDS46393.1	.	.	.	.	.	.	.	.	.	.	G	19.32	3.805777	0.70682	.	.	ENSG00000188177	ENST00000409871;ENST00000343936;ENST00000542974	T;T	0.15603	2.41;2.41	5.86	5.86	0.93980	.	0.213150	0.44285	D	0.000480	T	0.39172	0.1068	M	0.62016	1.91	0.37302	D	0.908746	D	0.61697	0.99	P	0.61070	0.883	T	0.10636	-1.0621	10	0.46703	T	0.11	-26.5479	20.1828	0.98210	0.0:0.0:1.0:0.0	.	175	P61129	ZC3H6_HUMAN	K	175;175;152	ENSP00000386764:R175K;ENSP00000340298:R175K	ENSP00000340298:R175K	R	+	2	0	ZC3H6	112784120	1.000000	0.71417	0.998000	0.56505	0.939000	0.58152	4.052000	0.57420	2.767000	0.95098	0.561000	0.74099	AGG		0.378	ZC3H6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000330551.1	NM_198581		A	113067649	G	A	113067649	3	1	609	1	0	0	0	0	1	0	0	0	17583	1000	35	2	538	2	ZC3H6	2	113067649	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	2131582	113067649	130131724	19	36924										
CCDC74B	91409	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	130899739	130899739	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ggacttgacagactggaagcTtgacgtggagaggctgtctg	16	7	1	4			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr2:130899739T>G	ENST00000310463.6	-	3	648	c.511A>C	c.(511-513)Agc>Cgc	p.S171R	CCDC74B_ENST00000409128.1_Missense_Mutation_p.S147R|CCDC74B_ENST00000409943.3_Missense_Mutation_p.S105R|MED15P9_ENST00000427638.1_RNA|CCDC74B_ENST00000392984.3_Missense_Mutation_p.S273R	NM_207310.2	NP_997193.1	Q96LY2	CC74B_HUMAN	coiled-coil domain containing 74B	171										endometrium(2)|large_intestine(1)|lung(3)	6	Colorectal(110;0.1)					GACTGGAAGCTTGACGTGGAG	0.647																																																0													98	73	81					2																	130899739		2201	4298	6499	SO:0001583	missense	91409				CCDS2155.1, CCDS58726.1	2q21.1	2006-11-29		2006-02-16	ENSG00000152076	ENSG00000152076			25267	protein-coding gene	gene with protein product							Standard	NM_001258307		Approved	DKFZp434E2321	uc002tqn.2	Q96LY2	OTTHUMG00000131629	ENST00000310463.6:c.511A>C	2.37:g.130899739T>G	ENSP00000308873:p.Ser171Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NW18	Missense_Mutation	SNP	ENST00000310463.6	37	CCDS2155.1	.	.	.	.	.	.	.	.	.	.	.	13.91	2.377052	0.42105	.	.	ENSG00000152076	ENST00000409943;ENST00000310463;ENST00000392984;ENST00000409488;ENST00000409128	T;T;T;T	0.57273	1.77;1.86;1.79;0.41	2.21	2.21	0.28008	.	0.538074	0.15538	U	0.257135	T	0.62134	0.2403	M	0.69823	2.125	0.09310	N	1	D;D;D	0.71674	0.995;0.998;0.991	P;P;P	0.61070	0.763;0.862;0.883	T	0.48822	-0.9001	10	0.42905	T	0.14	-14.6217	6.277	0.20987	0.0:0.0:0.0:1.0	.	273;105;171	E7ESC5;Q96LY2-2;Q96LY2	.;.;CC74B_HUMAN	R	105;171;273;105;147	ENSP00000386294:S105R;ENSP00000308873:S171R;ENSP00000376710:S273R;ENSP00000386644:S147R	ENSP00000308873:S171R	S	-	1	0	CCDC74B	130616209	0.427000	0.25514	0.007000	0.13788	0.018000	0.09664	2.792000	0.47837	1.010000	0.39314	0.248000	0.18094	AGC		0.647	CCDC74B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254522.3	NM_207310		G	130899739	T	G	130899739	3	3	609	1	0	0	0	0	1	0	0	0	2850	1609	56	5	655	5	CCDC74B	2	130899739	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	17832090	130899739	112299634	20	36925										
SF3B1	23451	broad.mit.edu;bcgsc.ca	37	chr2	198285209	198285209	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	catggtccgcctatgcttttTgtattcatcttcccggtctg	8	12	3	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr2:198285209T>G	ENST00000335508.6	-	4	449	c.358A>C	c.(358-360)Aaa>Caa	p.K120Q	SF3B1_ENST00000487698.1_Missense_Mutation_p.K120Q|SF3B1_ENST00000409915.4_Missense_Mutation_p.K120Q|SF3B1_ENST00000414963.2_Missense_Mutation_p.K120Q	NM_012433.2	NP_036565.2	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1, 155kDa	120					anterior/posterior pattern specification (GO:0009952)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)	catalytic step 2 spliceosome (GO:0071013)|intracellular membrane-bounded organelle (GO:0043231)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)|U12-type spliceosomal complex (GO:0005689)	chromatin binding (GO:0003682)|poly(A) RNA binding (GO:0044822)			NS(35)|breast(10)|central_nervous_system(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(524)|kidney(4)|large_intestine(10)|lung(19)|ovary(1)|pancreas(4)|prostate(6)|salivary_gland(1)|skin(4)|testis(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	633			OV - Ovarian serous cystadenocarcinoma(117;0.246)			CTATGCTTTTTGTATTCATCT	0.368			Mis		myelodysplastic syndrome																																		Dom	yes		2	2q33.1	23451	"splicing factor 3b, subunit 1, 155kDa"		L	0													178	174	175					2																	198285209		2203	4300	6503	SO:0001583	missense	23451			AF054284	CCDS33356.1, CCDS46479.1	2q33.1	2014-09-17	2002-08-29		ENSG00000115524	ENSG00000115524			10768	protein-coding gene	gene with protein product		605590	"splicing factor 3b, subunit 1, 155kD"			9585501	Standard	XM_005246428		Approved	SAP155, SF3b155, PRPF10, Prp10, Hsh155	uc002uue.3	O75533	OTTHUMG00000154447	ENST00000335508.6:c.358A>C	2.37:g.198285209T>G	ENSP00000335321:p.Lys120Gln	Somatic		WXS	Illumina HiSeq	Phase_I	E9PCH3	Missense_Mutation	SNP	ENST00000335508.6	37	CCDS33356.1	.	.	.	.	.	.	.	.	.	.	T	13.16	2.153467	0.38021	.	.	ENSG00000115524	ENST00000335508;ENST00000409915;ENST00000414963;ENST00000487698	.	.	.	6.06	4.88	0.63580	.	0.000000	0.85682	D	0.000000	T	0.26955	0.0660	N	0.02539	-0.55	0.58432	D	0.999998	D;D;B	0.54964	0.969;0.969;0.001	P;P;B	0.50314	0.556;0.637;0.002	T	0.25467	-1.0131	9	0.02654	T	1	.	12.5268	0.56091	0.1251:0.0:0.0:0.8749	.	120;120;120	B4DGZ4;E9PCH3;O75533	.;.;SF3B1_HUMAN	Q	120	.	ENSP00000335321:K120Q	K	-	1	0	SF3B1	197993454	1.000000	0.71417	1.000000	0.80357	0.959000	0.62525	6.111000	0.71541	1.076000	0.40961	0.523000	0.50628	AAA		0.368	SF3B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335245.2			G	198285209	T	G	198285209	3	3	609	1	0	0	0	0	1	0	0	0	14162	1821	63	5	3668	5	SF3B1	2	198285209	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	67385470	198285209	44914164	21	36926										
C2orf69	205327	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	200790075	200790075	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttatcaaagaaaagtttgaaTgtttggaataaggactccat	8	4	1	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr2:200790075T>A	ENST00000319974.5	+	2	807	c.624T>A	c.(622-624)aaT>aaA	p.N208K	C2orf69_ENST00000491721.1_Intron	NM_153689.5	NP_710156.3	Q8N8R5	CB069_HUMAN	chromosome 2 open reading frame 69	208						extracellular region (GO:0005576)				central_nervous_system(1)|endometrium(3)|large_intestine(3)|lung(2)|stomach(1)|urinary_tract(1)	11						AAAGTTTGAATGTTTGGAATA	0.348																																																0													52	52	52					2																	200790075		1819	4078	5897	SO:0001583	missense	205327				CCDS46482.1	2q33.1	2008-08-08			ENSG00000178074	ENSG00000178074			26799	protein-coding gene	gene with protein product	"hypothetical protein FLJ38973"					12477932	Standard	NM_153689		Approved	FLJ38973	uc010zhb.2	Q8N8R5	OTTHUMG00000154480	ENST00000319974.5:c.624T>A	2.37:g.200790075T>A	ENSP00000312770:p.Asn208Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NE30	Missense_Mutation	SNP	ENST00000319974.5	37	CCDS46482.1	.	.	.	.	.	.	.	.	.	.	T	0.008	-1.923247	0.00498	.	.	ENSG00000178074	ENST00000319974	.	.	.	5.5	-1.14	0.09741	.	0.634163	0.16276	N	0.221571	T	0.06050	0.0157	N	0.01048	-1.04	0.09310	N	0.999996	B	0.06786	0.001	B	0.08055	0.003	T	0.29518	-1.0009	9	0.05620	T	0.96	-2.3723	1.9048	0.03275	0.1333:0.2218:0.111:0.5339	.	208	Q8N8R5	CB069_HUMAN	K	208	.	ENSP00000312770:N208K	N	+	3	2	C2orf69	200498320	0.999000	0.42202	0.155000	0.22561	0.064000	0.16182	0.773000	0.26661	-0.325000	0.08577	-0.250000	0.11733	AAT		0.348	C2orf69-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335446.1	NM_153689		A	200790075	T	A	200790075	3	1	609	1	0	0	0	0	1	0	0	0	2190	1461	51	5	630	5	C2orf69	2	200790075	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	2504866	200790075	42409298	22	36927										
CLK1	1195	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	201721517	201721517	+	Frame_Shift_Del	DEL	G	G	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttaatatctggatttattaaGgtgcgttcatcacgtttctg							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr2:201721517delG	ENST00000321356.4	-	9	1080	c.945delC	c.(943-945)accfs	p.T315fs	CLK1_ENST00000409769.2_Frame_Shift_Del_p.T138fs|CLK1_ENST00000434813.2_Frame_Shift_Del_p.T357fs	NM_004071.3	NP_004062.2	P49759	CLK1_HUMAN	CDC-like kinase 1	315	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cell proliferation (GO:0008283)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|protein autophosphorylation (GO:0046777)|regulation of RNA splicing (GO:0043484)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein serine/threonine kinase activity (GO:0004674)|protein serine/threonine/tyrosine kinase activity (GO:0004712)			NS(1)|endometrium(2)|kidney(4)|large_intestine(6)|lung(12)|ovary(1)|pancreas(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	33						GATTTATTAAGGTGCGTTCAT	0.328																																																0													163	159	161					2																	201721517		2202	4300	6502	SO:0001589	frameshift_variant	1195			L29219	CCDS2331.1, CCDS54427.1	2q33	2008-05-02			ENSG00000013441	ENSG00000013441		"CDC-like kinases"	2068	protein-coding gene	gene with protein product		601951				9856501	Standard	NM_004071		Approved		uc002uwe.2	P49759	OTTHUMG00000132784	ENST00000321356.4:c.945delC	2.37:g.201721517delG	ENSP00000326830:p.Thr315fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFW7|Q0P694|Q8N5V8	Frame_Shift_Del	DEL	ENST00000321356.4	37	CCDS2331.1																																																																																				0.328	CLK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256192.2			-	201721517	G	-	201721517	7	5	609	1	0	1	0	1	0	0	0	0	3538	987	35	0	529	0	CLK1	2	201721517	Frame_Shift_Del	DEL	G	TCGA-HE-A5NI-01A-11D-A26P-10	931442	201721517	41477856	23	36928										
ORC2L	4999	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	201778083	201778083	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ggcccggagtgtcagatcacTattgacgaggaatgcctccc	12	12	2	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr2:201778083T>A	ENST00000234296.2	-	17	1831	c.1582A>T	c.(1582-1584)Agt>Tgt	p.S528C		NM_006190.4	NP_006181.1	Q13416	ORC2_HUMAN	origin recognition complex, subunit 2	528					DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)	condensed chromosome inner kinetochore (GO:0000939)|heterochromatin (GO:0000792)|membrane (GO:0016020)|nuclear origin of replication recognition complex (GO:0005664)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|origin recognition complex (GO:0000808)|plasma membrane (GO:0005886)	DNA replication origin binding (GO:0003688)			breast(1)|endometrium(1)|large_intestine(2)|lung(10)|ovary(1)|skin(4)|upper_aerodigestive_tract(1)	20						GTCAGATCACTATTGACGAGG	0.428																																																0													101	95	97					2																	201778083		2203	4300	6503	SO:0001583	missense	4999				CCDS2334.1	2q33	2010-10-12	2010-10-12	2010-10-12	ENSG00000115942	ENSG00000115942			8488	protein-coding gene	gene with protein product		601182	"origin recognition complex, subunit 2 (yeast homolog)-like", "origin recognition complex, subunit 2-like (yeast)", "origin recognition complex, subunit 2 homolog (yeast)"	ORC2L		8808289	Standard	NM_006190		Approved		uc002uwr.3	Q13416	OTTHUMG00000132783	ENST00000234296.2:c.1582A>T	2.37:g.201778083T>A	ENSP00000234296:p.Ser528Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q13204|Q53TX5	Missense_Mutation	SNP	ENST00000234296.2	37	CCDS2334.1	.	.	.	.	.	.	.	.	.	.	T	24.2	4.506382	0.85282	.	.	ENSG00000115942	ENST00000234296	T	0.52057	0.68	5.6	5.6	0.85130	.	0.091390	0.85682	D	0.000000	T	0.76190	0.3953	M	0.92219	3.285	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.82835	-0.0261	10	0.87932	D	0	-13.9094	15.7889	0.78338	0.0:0.0:0.0:1.0	.	528	Q13416	ORC2_HUMAN	C	528	ENSP00000234296:S528C	ENSP00000234296:S528C	S	-	1	0	ORC2	201486328	1.000000	0.71417	0.998000	0.56505	0.990000	0.78478	6.057000	0.71119	2.116000	0.64780	0.482000	0.46254	AGT		0.428	ORC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256191.2	NM_006190		A	201778083	T	A	201778083	3	1	609	1	0	0	0	0	1	0	0	0	11269	1522	53	5	159	5	ORC2L	2	201778083	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	56566	201778083	41421290	24	36929										
FN1	2335	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	216271073	216271073	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gtgacttctgcaaaggtgttCctgctgatgggcagcctctg	13	10	2	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr2:216271073C>T	ENST00000359671.1	-	19	3139	c.2874G>A	c.(2872-2874)agG>agA	p.R958R	FN1_ENST00000443816.1_Silent_p.R958R|FN1_ENST00000446046.1_Silent_p.R958R|FN1_ENST00000357009.2_Silent_p.R958R|FN1_ENST00000356005.4_Silent_p.R958R|FN1_ENST00000357867.4_Silent_p.R958R|FN1_ENST00000336916.4_Silent_p.R958R|FN1_ENST00000346544.3_Silent_p.R958R|FN1_ENST00000421182.1_Silent_p.R958R|FN1_ENST00000345488.5_Silent_p.R958R|FN1_ENST00000354785.4_Silent_p.R958R|FN1_ENST00000323926.6_Silent_p.R958R|FN1_ENST00000432072.2_Silent_p.R958R			P02751	FINC_HUMAN	fibronectin 1	958	Fibronectin type-III 4. {ECO:0000255|PROSITE-ProRule:PRU00316, ECO:0000255|PROSITE-ProRule:PRU00478, ECO:0000255|PROSITE-ProRule:PRU00479}.				acute-phase response (GO:0006953)|angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|calcium-independent cell-matrix adhesion (GO:0007161)|cell adhesion (GO:0007155)|cell-substrate junction assembly (GO:0007044)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|integrin activation (GO:0033622)|leukocyte migration (GO:0050900)|peptide cross-linking (GO:0018149)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of axon extension (GO:0045773)|regulation of cell shape (GO:0008360)|response to wounding (GO:0009611)|substrate adhesion-dependent cell spreading (GO:0034446)	apical plasma membrane (GO:0016324)|basal lamina (GO:0005605)|blood microparticle (GO:0072562)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|fibrinogen complex (GO:0005577)|platelet alpha granule lumen (GO:0031093)	collagen binding (GO:0005518)|heparin binding (GO:0008201)|integrin binding (GO:0005178)|peptidase activator activity (GO:0016504)|protease binding (GO:0002020)		FN1/ALK(2)	NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(7)|endometrium(9)|kidney(8)|large_intestine(33)|lung(38)|ovary(1)|pancreas(1)|prostate(3)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)	109		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)	Ocriplasmin(DB08888)	CAAAGGTGTTCCTGCTGATGG	0.597																																																0													63	62	63					2																	216271073		2203	4300	6503	SO:0001819	synonymous_variant	2335				CCDS2399.1, CCDS2400.1, CCDS42813.1, CCDS42814.1, CCDS46510.1, CCDS46512.1	2q34	2014-01-30			ENSG00000115414	ENSG00000115414		"Fibronectin type III domain containing", "Endogenous ligands"	3778	protein-coding gene	gene with protein product	"migration-stimulating factor", "cold-insoluble globulin"	135600				2992939, 3003095	Standard	NM_054034		Approved	MSF, CIG, LETS, GFND2, FINC	uc002vfa.3	P02751	OTTHUMG00000133054	ENST00000359671.1:c.2874G>A	2.37:g.216271073C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLF0|E9PE77|E9PG29|O95609|O95610|Q14312|Q14325|Q14326|Q17RV7|Q564H7|Q585T2|Q59EH1|Q60FE4|Q68DP8|Q68DP9|Q68DT4|Q6LDP6|Q6MZS0|Q6MZU5|Q6N025|Q6N0A6|Q7Z391|Q86T27|Q8IVI8|Q96KP7|Q96KP8|Q96KP9|Q9H1B8|Q9HAP3|Q9UMK2	Silent	SNP	ENST00000359671.1	37																																																																																					0.597	FN1-204	KNOWN	basic	protein_coding	protein_coding		NM_212476		T	216271073	C	T	216271073	2	4	609	1	0	0	0	0	0	0	0	1	5969	854	30	2		2	FN1	2	216271073	Silent	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	14492990	216271073	26928300	25	36930										
TRNT1	51095	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	3182301	3182309	+	In_Frame_Del	DEL	CAGAGATCT	CAGAGATCT	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tggcagaaagatgcggaacgCagagatctcactataaattc							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	CAGAGATCT	CAGAGATCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr3:3182301_3182309delCAGAGATCT	ENST00000251607.6	+	4	552_560	c.450_458delCAGAGATCT	c.(448-459)cgcagagatctc>cgc	p.RDL151del	TRNT1_ENST00000280591.6_In_Frame_Del_p.RDL151del	NM_182916.2	NP_886552	Q96Q11	TRNT1_HUMAN	tRNA nucleotidyl transferase, CCA-adding, 1	151					protein targeting to mitochondrion (GO:0006626)|tRNA 3'-end processing (GO:0042780)|tRNA 3'-terminal CCA addition (GO:0001680)	intracellular (GO:0005622)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|ATP:3'-cytidine-cytidine-tRNA adenylyltransferase activity (GO:0052929)|CTP:3'-cytidine-tRNA cytidylyltransferase activity (GO:0052928)|CTP:tRNA cytidylyltransferase activity (GO:0052927)|tRNA adenylyltransferase activity (GO:0004810)|tRNA binding (GO:0000049)			breast(2)|endometrium(3)|large_intestine(4)|lung(2)|urinary_tract(1)	12				Epithelial(13;0.00226)|OV - Ovarian serous cystadenocarcinoma(96;0.00592)|all cancers(10;0.011)		ATGCGGAACGCAGAGATCTCACTATAAAT	0.354																																																0																																										SO:0001651	inframe_deletion	51095			AF151805	CCDS2561.2	3p25.1	2002-05-30			ENSG00000072756	ENSG00000072756	2.7.7.25		17341	protein-coding gene	gene with protein product		612907				10810093, 11504732	Standard	NM_182916		Approved	MtCCA, CGI-47, CCA1	uc003bpp.4	Q96Q11	OTTHUMG00000090259	ENST00000251607.6:c.450_458delCAGAGATCT	3.37:g.3182301_3182309delCAGAGATCT	ENSP00000251607:p.Arg151_Leu153del	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2Z6|B7WP13|C9JKA2|Q8ND57|Q9BS97|Q9Y362	In_Frame_Del	DEL	ENST00000251607.6	37	CCDS2561.2																																																																																				0.354	TRNT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337616.1			-	3182309	CAGAGATCT	-	3182301	7	5	609	1	0	1	0	1	0	0	0	0	16585	697	25	0	460	0	TRNT1	3	3182301	In_Frame_Del	DEL	CAGAGATCT	TCGA-HE-A5NI-01A-11D-A26P-10		3182301	194840129	26	36931										
FBLN2	2199	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	13671374	13671374	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gtgccagcacacgtgtgagaAcacactcggctcctaccgct	10	15	0	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr3:13671374A>G	ENST00000295760.7	+	13	2825	c.2756A>G	c.(2755-2757)aAc>aGc	p.N919S	FBLN2_ENST00000492059.1_Missense_Mutation_p.N966S|FBLN2_ENST00000404922.3_Missense_Mutation_p.N966S|FBLN2_ENST00000535798.1_Missense_Mutation_p.N945S	NM_001998.2	NP_001989.2	P98095	FBLN2_HUMAN	fibulin 2	919	EGF-like 7; calcium-binding. {ECO:0000255|PROSITE-ProRule:PRU00076}.				extracellular matrix organization (GO:0030198)|positive regulation of cell-substrate adhesion (GO:0010811)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)|vesicle (GO:0031982)	calcium ion binding (GO:0005509)|extracellular matrix binding (GO:0050840)|extracellular matrix structural constituent (GO:0005201)			haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|lung(10)|ovary(3)|prostate(3)|urinary_tract(1)	24			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			ACGTGTGAGAACACACTCGGC	0.642																																																0													22	26	24					3																	13671374		2135	4244	6379	SO:0001583	missense	2199			X82494	CCDS46761.1, CCDS46762.1	3p25-p24	2010-06-15			ENSG00000163520	ENSG00000163520		"Fibulins"	3601	protein-coding gene	gene with protein product		135821				7806230	Standard	NM_001165035		Approved		uc011ava.2	P98095	OTTHUMG00000155437	ENST00000295760.7:c.2756A>G	3.37:g.13671374A>G	ENSP00000295760:p.Asn919Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z9C5|Q8IUI0|Q8IUI1	Missense_Mutation	SNP	ENST00000295760.7	37	CCDS46762.1	.	.	.	.	.	.	.	.	.	.	A	19.87	3.908264	0.72868	.	.	ENSG00000163520	ENST00000535798;ENST00000404922;ENST00000295760;ENST00000492059	D;D;D;D	0.88509	-2.39;-2.39;-2.39;-2.39	5.1	5.1	0.69264	EGF-like calcium-binding, conserved site (1);EGF-like calcium-binding (1);Epidermal growth factor-like, type 3 (1);	0.000000	0.85682	D	0.000000	D	0.96371	0.8816	H	0.96943	3.91	0.80722	D	1	D;D;D	0.76494	0.999;0.999;0.999	D;D;D	0.85130	0.996;0.997;0.997	D	0.97757	1.0218	10	0.87932	D	0	.	14.8854	0.70564	1.0:0.0:0.0:0.0	.	919;966;945	P98095;P98095-2;F5H1F3	FBLN2_HUMAN;.;.	S	945;966;919;966	ENSP00000445705:N945S;ENSP00000384169:N966S;ENSP00000295760:N919S;ENSP00000420042:N966S	ENSP00000295760:N919S	N	+	2	0	FBLN2	13646375	1.000000	0.71417	0.998000	0.56505	0.400000	0.30750	7.469000	0.80959	1.920000	0.55613	0.383000	0.25322	AAC		0.642	FBLN2-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000340083.3	NM_001004019		G	13671374	A	G	13671374	3	3	609	1	0	0	0	0	1	0	0	0	5706	43	2	3	1637	3	FBLN2	3	13671374	Missense_Mutation	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10	10489073	13671374	184351056	27	36932										
TGFBR2	7048	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	30713426	30713426	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttgagctggacaccctggtgGggaaaggtcgctttgctgag	16	8	0	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr3:30713426G>A	ENST00000295754.5	+	4	1133	c.751G>A	c.(751-753)Ggg>Agg	p.G251R	TGFBR2_ENST00000359013.4_Missense_Mutation_p.G276R	NM_003242.5	NP_003233.4	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II (70/80kDa)	251	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of protein kinase activity (GO:0032147)|aging (GO:0007568)|apoptotic process (GO:0006915)|blood vessel development (GO:0001568)|brain development (GO:0007420)|bronchus morphogenesis (GO:0060434)|cartilage development (GO:0051216)|common-partner SMAD protein phosphorylation (GO:0007182)|digestive tract development (GO:0048565)|embryo implantation (GO:0007566)|embryonic cranial skeleton morphogenesis (GO:0048701)|embryonic hemopoiesis (GO:0035162)|gastrulation (GO:0007369)|heart development (GO:0007507)|in utero embryonic development (GO:0001701)|lens development in camera-type eye (GO:0002088)|lens fiber cell apoptotic process (GO:1990086)|lung lobe morphogenesis (GO:0060463)|mammary gland morphogenesis (GO:0060443)|myeloid dendritic cell differentiation (GO:0043011)|negative regulation of cardiac muscle cell proliferation (GO:0060044)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|organ regeneration (GO:0031100)|palate development (GO:0060021)|pathway-restricted SMAD protein phosphorylation (GO:0060389)|patterning of blood vessels (GO:0001569)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|positive regulation of angiogenesis (GO:0045766)|positive regulation of B cell tolerance induction (GO:0002663)|positive regulation of cell proliferation (GO:0008284)|positive regulation of epithelial cell migration (GO:0010634)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of NK T cell differentiation (GO:0051138)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of skeletal muscle tissue regeneration (GO:0043415)|positive regulation of smooth muscle cell proliferation (GO:0048661)|positive regulation of T cell tolerance induction (GO:0002666)|positive regulation of tolerance induction to self antigen (GO:0002651)|protein phosphorylation (GO:0006468)|receptor-mediated endocytosis (GO:0006898)|regulation of cell proliferation (GO:0042127)|response to cholesterol (GO:0070723)|response to drug (GO:0042493)|response to estrogen (GO:0043627)|response to glucose (GO:0009749)|response to mechanical stimulus (GO:0009612)|response to nutrient (GO:0007584)|smoothened signaling pathway (GO:0007224)|trachea formation (GO:0060440)|transforming growth factor beta receptor signaling pathway (GO:0007179)|vasculogenesis (GO:0001570)|wound healing (GO:0042060)	caveola (GO:0005901)|cytosol (GO:0005829)|external side of plasma membrane (GO:0009897)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|transforming growth factor beta receptor homodimeric complex (GO:0070022)	ATP binding (GO:0005524)|glycosaminoglycan binding (GO:0005539)|metal ion binding (GO:0046872)|receptor signaling protein serine/threonine kinase activity (GO:0004702)|SMAD binding (GO:0046332)|transforming growth factor beta binding (GO:0050431)|transforming growth factor beta receptor activity, type II (GO:0005026)|transforming growth factor beta-activated receptor activity (GO:0005024)|transmembrane receptor protein serine/threonine kinase activity (GO:0004675)|type I transforming growth factor beta receptor binding (GO:0034713)|type III transforming growth factor beta receptor binding (GO:0034714)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(15)|lung(10)|ovary(3)|pancreas(12)|skin(1)|stomach(5)|upper_aerodigestive_tract(2)	53						CACCCTGGTGGGGAAAGGTCG	0.517																																																0													119	101	107					3																	30713426		2203	4300	6503	SO:0001583	missense	7048				CCDS2648.1, CCDS33727.1	3p22	2014-09-17	2002-08-29		ENSG00000163513	ENSG00000163513			11773	protein-coding gene	gene with protein product		190182	"transforming growth factor, beta receptor II (70-80kD)"	MFS2		1319842, 15235604	Standard	NM_001024847		Approved		uc003cen.3	P37173	OTTHUMG00000130569	ENST00000295754.5:c.751G>A	3.37:g.30713426G>A	ENSP00000295754:p.Gly251Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTV5|Q15580|Q6DKT6|Q99474	Missense_Mutation	SNP	ENST00000295754.5	37	CCDS2648.1	.	.	.	.	.	.	.	.	.	.	G	28.9	4.957609	0.92726	.	.	ENSG00000163513	ENST00000295754;ENST00000359013;ENST00000439925	D;D	0.82984	-1.67;-1.67	5.44	5.44	0.79542	Serine/threonine-protein kinase-like domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	D	0.93759	0.8005	M	0.94063	3.49	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.95033	0.8171	10	0.87932	D	0	.	19.2452	0.93899	0.0:0.0:1.0:0.0	.	251;276	P37173;D2JYI1	TGFR2_HUMAN;.	R	251;276;117	ENSP00000295754:G251R;ENSP00000351905:G276R	ENSP00000295754:G251R	G	+	1	0	TGFBR2	30688430	1.000000	0.71417	0.999000	0.59377	0.993000	0.82548	9.864000	0.99589	2.536000	0.85505	0.591000	0.81541	GGG		0.517	TGFBR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252994.2			A	30713426	G	A	30713426	3	1	609	1	0	0	0	0	1	0	0	0	15834	1232	43	2	844	2	TGFBR2	3	30713426	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	17042052	30713426	167309004	28	36933										
OSBPL10	114884	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	31705657	31705657	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttgcttctcctccaggtgccGcttctgctcggtggctgcgt	12	14	2	0	rs375455808		TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr3:31705657G>A	ENST00000396556.2	-	11	2286	c.2164C>T	c.(2164-2166)Cgg>Tgg	p.R722W	OSBPL10_ENST00000438237.2_Missense_Mutation_p.R658W	NM_017784.4	NP_060254.2	Q9BXB5	OSB10_HUMAN	oxysterol binding protein-like 10	722					lipid transport (GO:0006869)		cholesterol binding (GO:0015485)			breast(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(15)|prostate(2)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	34				STAD - Stomach adenocarcinoma(1;0.00406)		TCCAGGTGCCGCTTCTGCTCG	0.607																																																0								G	TRP/ARG,TRP/ARG	0,4406		0,0,2203	110	100	103		1972,2164	5.2	1	3		103	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense	OSBPL10	NM_001174060.1,NM_017784.4	101,101	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging,probably-damaging	658/701,722/765	31705657	1,13005	2203	4300	6503	SO:0001583	missense	114884			AF392451	CCDS2651.1, CCDS54559.1	3p23	2013-01-10			ENSG00000144645	ENSG00000144645		"Oxysterol binding proteins", "Pleckstrin homology (PH) domain containing"	16395	protein-coding gene	gene with protein product		606738					Standard	NM_001174060		Approved		uc021wuu.1	Q9BXB5	OTTHUMG00000130672	ENST00000396556.2:c.2164C>T	3.37:g.31705657G>A	ENSP00000379804:p.Arg722Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B4E212|Q9BTU5	Missense_Mutation	SNP	ENST00000396556.2	37	CCDS2651.1	.	.	.	.	.	.	.	.	.	.	G	34	5.329303	0.95733	0.0	1.16E-4	ENSG00000144645	ENST00000396556;ENST00000438237	T;T	0.31247	1.5;1.5	5.25	5.25	0.73442	.	0.051590	0.85682	D	0.000000	T	0.57989	0.2091	M	0.77103	2.36	0.48696	D	0.999691	D;D;D	0.89917	1.0;0.999;1.0	D;D;D	0.70935	0.971;0.93;0.969	T	0.57412	-0.7816	10	0.42905	T	0.14	-24.6464	19.2246	0.93814	0.0:0.0:1.0:0.0	.	658;722;490	B4E212;Q9BXB5;Q59ED9	.;OSB10_HUMAN;.	W	722;658	ENSP00000379804:R722W;ENSP00000406124:R658W	ENSP00000379804:R722W	R	-	1	2	OSBPL10	31680661	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	6.694000	0.74587	2.635000	0.89317	0.655000	0.94253	CGG		0.607	OSBPL10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000253165.2			A	31705657	G	A	31705657	3	1	609	1	0	0	0	0	1	0	0	0	11282	1086	38	1	138	1	OSBPL10	3	31705657	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	992231	31705657	166316773	29	36934										
TRIM71	131405	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	32915387	32915387	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ggccggcatgggggccacagCttcatctacctccaggaggc	14	14	2	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr3:32915387C>A	ENST00000383763.5	+	2	993	c.930C>A	c.(928-930)agC>agA	p.S310R		NM_001039111.1	NP_001034200.1	Q2Q1W2	LIN41_HUMAN	tripartite motif containing 71, E3 ubiquitin protein ligase	310					fibroblast growth factor receptor signaling pathway (GO:0008543)|G1/S transition of mitotic cell cycle (GO:0000082)|miRNA metabolic process (GO:0010586)|negative regulation of translation involved in gene silencing by miRNA (GO:0035278)|neural tube closure (GO:0001843)|neural tube development (GO:0021915)|positive regulation of gene silencing by miRNA (GO:2000637)|protein autoubiquitination (GO:0051865)|regulation of gene silencing by miRNA (GO:0060964)|regulation of neural precursor cell proliferation (GO:2000177)|stem cell proliferation (GO:0072089)	cytoplasmic mRNA processing body (GO:0000932)	ligase activity (GO:0016874)|miRNA binding (GO:0035198)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(3)|endometrium(3)|kidney(1)|large_intestine(4)|lung(7)|ovary(3)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	24						GGGGCCACAGCTTCATCTACC	0.607																																																0													166	176	173					3																	32915387		2112	4227	6339	SO:0001583	missense	131405				CCDS43060.1	3p22.3	2014-02-17	2012-02-29		ENSG00000206557	ENSG00000206557		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	32669	protein-coding gene	gene with protein product			"tripartite motif-containing 71", "tripartite motif containing 71"				Standard	NM_001039111		Approved	LIN41, LIN-41	uc003cff.3	Q2Q1W2	OTTHUMG00000155778	ENST00000383763.5:c.930C>A	3.37:g.32915387C>A	ENSP00000373272:p.Ser310Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000383763.5	37	CCDS43060.1	.	.	.	.	.	.	.	.	.	.	C	11.51	1.659417	0.29515	.	.	ENSG00000206557	ENST00000383763	T	0.40756	1.02	5.83	3.08	0.35506	Zinc finger, B-box (3);	0.090053	0.85682	D	0.000000	T	0.32436	0.0829	N	0.24115	0.695	0.58432	D	0.999999	P	0.51147	0.942	P	0.49999	0.628	T	0.03374	-1.1043	10	0.13470	T	0.59	-46.6103	9.4738	0.38858	0.0:0.7713:0.0:0.2287	.	310	Q2Q1W2	LIN41_HUMAN	R	310	ENSP00000373272:S310R	ENSP00000373272:S310R	S	+	3	2	TRIM71	32890391	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	2.122000	0.41987	0.817000	0.34445	0.655000	0.94253	AGC		0.607	TRIM71-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341565.3	NM_001039111		A	32915387	C	A	32915387	3	1	609	1	0	0	0	0	1	0	0	0	16556	796	28	4	936	4	TRIM71	3	32915387	Missense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	1209730	32915387	165107043	30	36935										
PRKCD	5580	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	53220041	53220041	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tgggcaaaggcagcttcgggAaggtgagggctgtgagccgg	20	7	0	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr3:53220041A>T	ENST00000394729.2	+	11	1412	c.1084A>T	c.(1084-1086)Aag>Tag	p.K362*	PRKCD_ENST00000330452.3_Nonsense_Mutation_p.K362*	NM_212539.1	NP_997704.1	Q05655	KPCD_HUMAN	protein kinase C, delta	362	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of phospholipase C activity (GO:0007202)|apoptotic process (GO:0006915)|B cell proliferation (GO:0042100)|blood coagulation (GO:0007596)|cell cycle (GO:0007049)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular senescence (GO:0090398)|cytokine-mediated signaling pathway (GO:0019221)|defense response to bacterium (GO:0042742)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|immunoglobulin mediated immune response (GO:0016064)|innate immune response (GO:0045087)|interferon-gamma-mediated signaling pathway (GO:0060333)|interleukin-10 production (GO:0032613)|interleukin-12 production (GO:0032615)|intrinsic apoptotic signaling pathway in response to oxidative stress (GO:0008631)|mRNA metabolic process (GO:0016071)|negative regulation of actin filament polymerization (GO:0030837)|negative regulation of filopodium assembly (GO:0051490)|negative regulation of glial cell apoptotic process (GO:0034351)|negative regulation of inflammatory response (GO:0050728)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of peptidyl-tyrosine phosphorylation (GO:0050732)|negative regulation of platelet aggregation (GO:0090331)|negative regulation of protein binding (GO:0032091)|neurotrophin TRK receptor signaling pathway (GO:0048011)|neutrophil activation (GO:0042119)|peptidyl-threonine phosphorylation (GO:0018107)|platelet activation (GO:0030168)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of ceramide biosynthetic process (GO:2000304)|positive regulation of glucosylceramide catabolic process (GO:2000753)|positive regulation of phospholipid scramblase activity (GO:1900163)|positive regulation of protein dephosphorylation (GO:0035307)|positive regulation of response to DNA damage stimulus (GO:2001022)|positive regulation of sphingomyelin catabolic process (GO:2000755)|positive regulation of superoxide anion generation (GO:0032930)|protein phosphorylation (GO:0006468)|protein stabilization (GO:0050821)|regulation of receptor activity (GO:0010469)|RNA metabolic process (GO:0016070)|signal transduction (GO:0007165)|termination of signal transduction (GO:0023021)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|calcium-independent protein kinase C activity (GO:0004699)|enzyme activator activity (GO:0008047)|enzyme binding (GO:0019899)|insulin receptor substrate binding (GO:0043560)|metal ion binding (GO:0046872)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein kinase C activity (GO:0004697)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|central_nervous_system(4)|endometrium(3)|kidney(1)|large_intestine(3)|lung(8)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	26		Ovarian(412;0.0728)		OV - Ovarian serous cystadenocarcinoma(275;3.58e-08)|BRCA - Breast invasive adenocarcinoma(193;0.000142)|Kidney(197;0.00153)|KIRC - Kidney renal clear cell carcinoma(197;0.00173)	Ingenol Mebutate(DB05013)|Tamoxifen(DB00675)	CAGCTTCGGGAAGGTGAGGGC	0.602																																																0													72	66	68					3																	53220041		2203	4300	6503	SO:0001587	stop_gained	5580				CCDS2870.1	3p21.31	2009-07-10			ENSG00000163932	ENSG00000163932	2.7.11.1		9399	protein-coding gene	gene with protein product		176977				8188219	Standard	NM_006254		Approved		uc003dgm.3	Q05655	OTTHUMG00000133659	ENST00000394729.2:c.1084A>T	3.37:g.53220041A>T	ENSP00000378217:p.Lys362*	Somatic		WXS	Illumina HiSeq	Phase_I	B0KZ81|B2R834|Q15144|Q86XJ6	Nonsense_Mutation	SNP	ENST00000394729.2	37	CCDS2870.1	.	.	.	.	.	.	.	.	.	.	A	41	8.637830	0.98895	.	.	ENSG00000163932	ENST00000394729;ENST00000330452	.	.	.	4.99	4.99	0.66335	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	13.9599	0.64172	1.0:0.0:0.0:0.0	.	.	.	.	X	362	.	ENSP00000331602:K362X	K	+	1	0	PRKCD	53195081	1.000000	0.71417	1.000000	0.80357	0.932000	0.56968	9.283000	0.95860	1.990000	0.58119	0.482000	0.46254	AAG		0.602	PRKCD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257818.1			T	53220041	A	T	53220041	4	4	609	1	0	0	0	0	0	1	0	0	12519	247	9	5	1122	5	PRKCD	3	53220041	Nonsense_Mutation	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10	20304654	53220041	144802389	31	36936										
C3orf63	23272	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	56667344	56667344	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttgaggctggttcatttctaCttcagttaaagccgaagtgg	11	7	3	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr3:56667344C>G	ENST00000493960.2	-	18	3485	c.3475G>C	c.(3475-3477)Gta>Cta	p.V1159L	FAM208A_ENST00000355628.5_Missense_Mutation_p.V1098L|FAM208A_ENST00000431842.2_Missense_Mutation_p.V722L	NM_001112736.1	NP_001106207.1	Q9UK61	F208A_HUMAN	family with sequence similarity 208, member A	1159							poly(A) RNA binding (GO:0044822)			NS(1)|breast(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(4)|lung(11)|prostate(3)|skin(1)	32						TTCATTTCTACTTCAGTTAAA	0.423																																																0													161	153	156					3																	56667344		2203	4300	6503	SO:0001583	missense	23272			AF180425	CCDS2877.1, CCDS46853.1	3p14.3	2011-09-14	2011-09-14	2011-09-14	ENSG00000163946	ENSG00000163946			30314	protein-coding gene	gene with protein product			"chromosome 3 open reading frame 63"	C3orf63		10470851, 11149944	Standard	NM_015224		Approved	se89-1, RAP140, KIAA1105	uc003die.4	Q9UK61	OTTHUMG00000158827	ENST00000493960.2:c.3475G>C	3.37:g.56667344C>G	ENSP00000417509:p.Val1159Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A1L3A4|B5ME28|Q9H2F7|Q9UPP7	Missense_Mutation	SNP	ENST00000493960.2	37	CCDS46853.1	.	.	.	.	.	.	.	.	.	.	C	10.01	1.233960	0.22626	.	.	ENSG00000163946	ENST00000431842;ENST00000493960;ENST00000355628	T;T;T	0.11930	2.73;2.92;2.92	5.71	2.97	0.34412	.	0.560812	0.17265	N	0.180629	T	0.14141	0.0342	L	0.59436	1.845	0.33043	D	0.531757	B;B;B;B	0.29481	0.052;0.082;0.046;0.245	B;B;B;B	0.26202	0.067;0.053;0.045;0.049	T	0.07731	-1.0757	10	0.49607	T	0.09	0.2694	9.0639	0.36451	0.0:0.7733:0.0:0.2267	.	1159;1098;722;1159	Q9UK61-3;Q9UK61-4;Q9UK61-2;Q9UK61	.;.;.;F208A_HUMAN	L	722;1159;1098	ENSP00000399410:V722L;ENSP00000417509:V1159L;ENSP00000347845:V1098L	ENSP00000347845:V1098L	V	-	1	0	C3orf63	56642384	0.810000	0.29049	0.970000	0.41538	0.807000	0.45602	0.627000	0.24506	0.444000	0.26612	-0.145000	0.13849	GTA		0.423	FAM208A-004	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352352.2	NM_015224		G	56667344	C	G	56667344	3	3	609	1	0	0	0	0	1	0	0	0	2241	565	20	4	1625	4	C3orf63	3	56667344	Missense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	3447303	56667344	141355086	32	36937										
FRMD4B	23150	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	69247894	69247894	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	caaattttttctcacggaaaTataagttctccagctgtttc	5	9	2	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr3:69247894T>C	ENST00000398540.3	-	12	991	c.908A>G	c.(907-909)tAt>tGt	p.Y303C	FRMD4B_ENST00000478263.1_De_novo_Start_OutOfFrame|FRMD4B_ENST00000542259.1_Missense_Mutation_p.Y249C	NM_015123.1	NP_055938	Q9Y2L6	FRM4B_HUMAN	FERM domain containing 4B	303	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.				establishment of epithelial cell polarity (GO:0090162)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular space (GO:0005615)|ruffle (GO:0001726)				NS(2)|central_nervous_system(2)|endometrium(1)|kidney(2)|large_intestine(3)|lung(1)|ovary(3)|prostate(3)|skin(2)	19		Lung NSC(201;0.0138)|Prostate(884;0.11)		BRCA - Breast invasive adenocarcinoma(55;0.000201)|Epithelial(33;0.00141)|LUSC - Lung squamous cell carcinoma(21;0.00999)|Lung(16;0.0182)		CTCACGGAAATATAAGTTCTC	0.333																																																0													49	44	45					3																	69247894		1798	4063	5861	SO:0001583	missense	23150			AL832231	CCDS46863.1	3p14.2	2006-04-12			ENSG00000114541	ENSG00000114541			24886	protein-coding gene	gene with protein product						10231032, 11445584	Standard	XM_005264720		Approved	KIAA1013, GRSP1	uc003dnv.2	Q9Y2L6	OTTHUMG00000158772	ENST00000398540.3:c.908A>G	3.37:g.69247894T>C	ENSP00000381549:p.Tyr303Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TAI3	Missense_Mutation	SNP	ENST00000398540.3	37	CCDS46863.1	.	.	.	.	.	.	.	.	.	.	T	25.3	4.628228	0.87560	.	.	ENSG00000114541	ENST00000398540;ENST00000542259;ENST00000462512	D;D;D	0.87334	-2.24;-2.24;-2.24	5.73	5.73	0.89815	FERM, C-terminal PH-like domain (1);FERM domain (1);Pleckstrin homology-type (1);	0.000000	0.85682	D	0.000000	D	0.93360	0.7883	M	0.78049	2.395	0.80722	D	1	D;D	0.89917	1.0;0.973	D;D	0.97110	1.0;0.934	D	0.94028	0.7298	10	0.72032	D	0.01	-14.0669	16.026	0.80545	0.0:0.0:0.0:1.0	.	147;303	B4DHD5;Q9Y2L6	.;FRM4B_HUMAN	C	303;249;14	ENSP00000381549:Y303C;ENSP00000437658:Y249C;ENSP00000419869:Y14C	ENSP00000381549:Y303C	Y	-	2	0	FRMD4B	69330584	1.000000	0.71417	0.999000	0.59377	0.953000	0.61014	8.040000	0.89188	2.191000	0.70037	0.533000	0.62120	TAT		0.333	FRMD4B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352111.1			C	69247894	T	C	69247894	3	2	609	1	0	0	0	0	1	0	0	0	6059	1406	49	3	2244	3	FRMD4B	3	69247894	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	12580550	69247894	128774536	33	36938										
CEP97	79598	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	101450739	101450739	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tagaatggcacctgcttaccTacccagaagtcttgctatac	7	12	1	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr3:101450739T>C	ENST00000341893.3	+	5	1255	c.503T>C	c.(502-504)cTa>cCa	p.L168P	CEP97_ENST00000494050.1_Missense_Mutation_p.L168P|CEP97_ENST00000327230.4_Missense_Mutation_p.L168P			Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	168					cell projection organization (GO:0030030)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|microtubule organizing center (GO:0005815)|protein complex (GO:0043234)				cervix(1)|endometrium(2)|kidney(4)|large_intestine(4)|lung(13)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	29						CCTGCTTACCTACCCAGAAGT	0.358																																																0													175	171	172					3																	101450739		2203	4300	6503	SO:0001583	missense	79598			AL833269	CCDS2944.1	3q12.3	2014-02-20	2008-01-08	2008-01-08	ENSG00000182504	ENSG00000182504			26244	protein-coding gene	gene with protein product		615864	"leucine-rich repeats and IQ motif containing 2"	LRRIQ2		17719545, 18068367	Standard	NM_024548		Approved	FLJ23047	uc003dvk.1	Q8IW35	OTTHUMG00000159162	ENST00000341893.3:c.503T>C	3.37:g.101450739T>C	ENSP00000342510:p.Leu168Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDY8|Q8NA71|Q9H5T9	Missense_Mutation	SNP	ENST00000341893.3	37	CCDS2944.1	.	.	.	.	.	.	.	.	.	.	T	26.2	4.711642	0.89112	.	.	ENSG00000182504	ENST00000341893;ENST00000327230;ENST00000494050	T;T;T	0.54866	0.55;0.55;0.55	5.86	5.86	0.93980	.	0.000000	0.85682	D	0.000000	T	0.78220	0.4249	M	0.90542	3.125	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.998;0.999;0.999	T	0.83115	-0.0121	10	0.87932	D	0	-9.0356	16.2507	0.82485	0.0:0.0:0.0:1.0	.	168;168;168	E9PG22;Q8IW35-2;Q8IW35	.;.;CEP97_HUMAN	P	168	ENSP00000342510:L168P;ENSP00000325881:L168P;ENSP00000418185:L168P	ENSP00000325881:L168P	L	+	2	0	CEP97	102933429	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.867000	0.87062	2.237000	0.73441	0.528000	0.53228	CTA		0.358	CEP97-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000353597.2	NM_024548		C	101450739	T	C	101450739	3	2	609	1	0	0	0	0	1	0	0	0	3265	1522	53	3	521	3	CEP97	3	101450739	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	32202845	101450739	96571691	34	36939										
ITGB5	3693	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	124536482	124536482	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	acttacattgtatgcattaaTaatcagttgaataatatttt	4	4	1	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr3:124536482T>A	ENST00000296181.4	-	8	1410	c.1114A>T	c.(1114-1116)Att>Ttt	p.I372F		NM_002213.3	NP_002204.2	P18084	ITB5_HUMAN	integrin, beta 5	372	VWFA.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cell-matrix adhesion (GO:0007160)|endodermal cell differentiation (GO:0035987)|epithelial cell-cell adhesion (GO:0090136)|extracellular matrix organization (GO:0030198)|integrin-mediated signaling pathway (GO:0007229)|muscle contraction (GO:0006936)|stress fiber assembly (GO:0043149)|transforming growth factor beta receptor signaling pathway (GO:0007179)	cell leading edge (GO:0031252)|cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integrin alphav-beta5 complex (GO:0034684)|phagocytic vesicle (GO:0045335)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	receptor activity (GO:0004872)			breast(1)|endometrium(3)|kidney(2)|large_intestine(8)|lung(10)|prostate(1)|skin(2)|upper_aerodigestive_tract(3)	30				GBM - Glioblastoma multiforme(114;0.163)		TATGCATTAATAATCAGTTGA	0.463																																																0													90	93	92					3																	124536482		2203	4300	6503	SO:0001583	missense	3693			J05633	CCDS3030.1	3q21.2	2010-03-23			ENSG00000082781	ENSG00000082781		"Integrins"	6160	protein-coding gene	gene with protein product		147561				2211615	Standard	NM_002213		Approved		uc003eho.3	P18084	OTTHUMG00000159432	ENST00000296181.4:c.1114A>T	3.37:g.124536482T>A	ENSP00000296181:p.Ile372Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B0LPF8|B2RD70	Missense_Mutation	SNP	ENST00000296181.4	37	CCDS3030.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	10.39|10.39	1.336008|1.336008	0.24253|0.24253	.|.	.|.	ENSG00000082781|ENSG00000082781	ENST00000296181|ENST00000481591	D|.	0.97731|.	-4.51|.	5.91|5.91	3.56|3.56	0.40772|0.40772	Integrin beta subunit, N-terminal (2);von Willebrand factor, type A (1);|.	0.258920|.	0.37761|.	N|.	0.001959|.	T|T	0.58177|0.58177	0.2104|0.2104	M|M	0.62723|0.62723	1.935|1.935	0.48087|0.48087	D|D	0.99958|0.99958	D|.	0.53745|.	0.962|.	P|.	0.54401|.	0.751|.	T|T	0.55829|0.55829	-0.8079|-0.8079	10|5	0.87932|.	D|.	0|.	.|.	4.6147|4.6147	0.12420|0.12420	0.0:0.4306:0.0:0.5694|0.0:0.4306:0.0:0.5694	.|.	372|.	P18084|.	ITB5_HUMAN|.	F|F	372|106	ENSP00000296181:I372F|.	ENSP00000296181:I372F|.	I|L	-|-	1|3	0|2	ITGB5|ITGB5	126019172|126019172	0.989000|0.989000	0.36119|0.36119	0.981000|0.981000	0.43875|0.43875	0.079000|0.079000	0.17450|0.17450	2.520000|2.520000	0.45554|0.45554	1.062000|1.062000	0.40625|0.40625	-0.290000|-0.290000	0.09829|0.09829	ATT|TTA		0.463	ITGB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355286.3	NM_002213		A	124536482	T	A	124536482	3	1	609	1	0	0	0	0	1	0	0	0	7905	1406	49	5	1317	5	ITGB5	3	124536482	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	23085743	124536482	73485948	35	36940										
IFT122	55764	hgsc.bcm.edu;bcgsc.ca	37	chr3	129200472	129200472	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gtgcctcccgtaagaagctgGccgtggtagatgaaaatgac	13	9	0	4			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr3:129200472G>C	ENST00000348417.2	+	14	1665	c.1588G>C	c.(1588-1590)Gcc>Ccc	p.A530P	IFT122_ENST00000440957.2_Missense_Mutation_p.A321P|IFT122_ENST00000296266.3_Missense_Mutation_p.A581P|IFT122_ENST00000347300.2_Missense_Mutation_p.A471P|IFT122_ENST00000431818.2_Missense_Mutation_p.A380P|IFT122_ENST00000349441.2_Missense_Mutation_p.A419P|IFT122_ENST00000507564.1_Missense_Mutation_p.A522P|IFT122_ENST00000504021.1_Missense_Mutation_p.A424P	NM_052989.1	NP_443715.1	Q9HBG6	IF122_HUMAN	intraflagellar transport 122	530					camera-type eye morphogenesis (GO:0048593)|ciliary receptor clustering involved in smoothened signaling pathway (GO:0060830)|cilium morphogenesis (GO:0060271)|embryonic body morphogenesis (GO:0010172)|embryonic digit morphogenesis (GO:0042733)|embryonic forelimb morphogenesis (GO:0035115)|embryonic heart tube development (GO:0035050)|embryonic heart tube left/right pattern formation (GO:0060971)|establishment of protein localization to organelle (GO:0072594)|intraciliary anterograde transport (GO:0035720)|intraciliary retrograde transport (GO:0035721)|limb development (GO:0060173)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of smoothened signaling pathway involved in ventral spinal cord patterning (GO:0021914)|neural tube closure (GO:0001843)|protein localization to cilium (GO:0061512)|signal transduction downstream of smoothened (GO:0007227)|smoothened signaling pathway involved in dorsal/ventral neural tube patterning (GO:0060831)	ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|intraciliary transport particle A (GO:0030991)|membrane (GO:0016020)|photoreceptor connecting cilium (GO:0032391)|primary cilium (GO:0072372)				breast(3)|cervix(1)|endometrium(9)|large_intestine(10)|lung(21)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	52						TAAGAAGCTGGCCGTGGTAGA	0.537																																																0													36	37	36					3																	129200472		2202	4280	6482	SO:0001583	missense	55764			AF244930	CCDS3059.1, CCDS3060.1, CCDS3061.1, CCDS3062.1, CCDS63770.1, CCDS63772.1, CCDS63773.1	3q21	2014-07-03	2014-07-03	2005-11-02	ENSG00000163913	ENSG00000163913		"WD repeat domain containing", "Intraflagellar transport homologs"	13556	protein-coding gene	gene with protein product		606045	"WD repeat domain 10", "intraflagellar transport 122 homolog (Chlamydomonas)"	WDR10		11242542	Standard	NM_052985		Approved	WDR140, WDR10p, SPG	uc003emm.3	Q9HBG6	OTTHUMG00000159516	ENST00000348417.2:c.1588G>C	3.37:g.129200472G>C	ENSP00000324005:p.Ala530Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B3KW53|B4DEY9|B4DPW7|E7EQF4|E9PDG2|E9PDX2|G3XAB1|H7C3C0|Q53G36|Q8TC06|Q9BTB9|Q9BTY4|Q9HAT9|Q9HBG5|Q9NV68|Q9UF80	Missense_Mutation	SNP	ENST00000348417.2	37	CCDS3061.1	.	.	.	.	.	.	.	.	.	.	G	31	5.058399	0.93846	.	.	ENSG00000163913	ENST00000347300;ENST00000296266;ENST00000507564;ENST00000454840;ENST00000431818;ENST00000504021;ENST00000349441;ENST00000348417;ENST00000446384;ENST00000440957;ENST00000509522	T;T;T;D;T;T;T;D;T	0.91237	2.88;0.84;0.84;-2.81;1.18;1.18;0.84;-2.81;0.28	5.5	5.5	0.81552	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);	0.052903	0.85682	D	0.000000	D	0.96676	0.8915	M	0.92507	3.315	0.80722	D	1	D;D;D;D;D;D;D;D	0.89917	1.0;0.999;1.0;1.0;1.0;1.0;0.999;1.0	D;D;D;D;D;D;D;D	0.97110	0.998;0.991;1.0;1.0;0.999;1.0;0.996;0.998	D	0.97335	0.9953	10	0.87932	D	0	-22.9133	19.3987	0.94619	0.0:0.0:1.0:0.0	.	321;522;424;370;419;471;530;581	E9PDG2;E7EQF4;B4DEY9;B4DPW7;Q9BTY4;Q9HBG6-3;Q9HBG6;G3XAB1	.;.;.;.;.;.;IF122_HUMAN;.	P	471;581;522;471;380;424;419;530;370;321;45	ENSP00000323973:A471P;ENSP00000296266:A581P;ENSP00000425536:A522P;ENSP00000410946:A380P;ENSP00000422179:A424P;ENSP00000324165:A419P;ENSP00000324005:A530P;ENSP00000401569:A321P;ENSP00000424727:A45P	ENSP00000296266:A581P	A	+	1	0	IFT122	130683162	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	9.113000	0.94321	2.553000	0.86117	0.585000	0.79938	GCC		0.537	IFT122-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000355852.1	NM_018262		C	129200472	G	C	129200472	3	2	609	1	0	0	0	0	1	0	0	0	7562	1203	42	4	1799	4	IFT122	3	129200472	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	4663990	129200472	68821958	36	36941										
DZIP1L	199221	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	137790541	137790541	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cattctcctgtctctccttcGctctgctggtgacttccttg	7	15	3	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr3:137790541G>A	ENST00000327532.2	-	12	1921	c.1559C>T	c.(1558-1560)gCg>gTg	p.A520V	DZIP1L_ENST00000488595.1_Intron|DZIP1L_ENST00000469243.1_Missense_Mutation_p.A520V	NM_173543.2	NP_775814.2	Q8IYY4	DZI1L_HUMAN	DAZ interacting zinc finger protein 1-like	520					cilium assembly (GO:0042384)	ciliary basal body (GO:0036064)	metal ion binding (GO:0046872)			breast(2)|cervix(2)|endometrium(3)|kidney(2)|large_intestine(6)|lung(15)|ovary(1)|pancreas(2)|prostate(1)|skin(1)	35						TCTCTCCTTCGCTCTGCTGGT	0.582																																																0													90	92	91					3																	137790541		2203	4300	6503	SO:0001583	missense	199221			AK057406	CCDS3096.1, CCDS54645.1	3q22.3	2013-05-22	2013-05-22		ENSG00000158163	ENSG00000158163			26551	protein-coding gene	gene with protein product			"DAZ interacting protein 1-like"			12477932	Standard	NM_173543		Approved	FLJ32844, DZIP2	uc003erq.3	Q8IYY4	OTTHUMG00000159819	ENST00000327532.2:c.1559C>T	3.37:g.137790541G>A	ENSP00000332148:p.Ala520Val	Somatic		WXS	Illumina HiSeq	Phase_I	C9JUG5|Q96M38	Missense_Mutation	SNP	ENST00000327532.2	37	CCDS3096.1	.	.	.	.	.	.	.	.	.	.	G	4.821	0.152566	0.09185	.	.	ENSG00000158163	ENST00000327532;ENST00000469243;ENST00000536706	T;T	0.38240	1.15;1.55	4.86	-3.99	0.04069	.	0.809238	0.10642	N	0.650958	T	0.12263	0.0298	N	0.03324	-0.35	0.09310	N	1	B;B	0.09022	0.002;0.002	B;B	0.06405	0.002;0.001	T	0.38351	-0.9665	10	0.02654	T	1	-4.7251	11.046	0.47859	0.5108:0.0:0.4892:0.0	.	520;520	Q8IYY4-2;Q8IYY4	.;DZI1L_HUMAN	V	520	ENSP00000332148:A520V;ENSP00000419486:A520V	ENSP00000332148:A520V	A	-	2	0	DZIP1L	139273231	0.009000	0.17119	0.025000	0.17156	0.009000	0.06853	0.410000	0.21098	-0.777000	0.04572	-1.004000	0.02495	GCG		0.582	DZIP1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357548.1	NM_173543		A	137790541	G	A	137790541	3	1	609	1	0	0	0	0	1	0	0	0	4866	1087	38	1	773	1	DZIP1L	3	137790541	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	8590069	137790541	60231889	37	36942										
KNG1	3827	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	186445075	186445075	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ctactcaattgtgcaaacgaAttgttccaaagagaattttc	6	8	1	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr3:186445075A>C	ENST00000265023.4	+	5	826	c.614A>C	c.(613-615)aAt>aCt	p.N205T	KNG1_ENST00000287611.2_Missense_Mutation_p.N205T|KNG1_ENST00000447445.1_Intron|RP11-573D15.8_ENST00000599314.1_RNA	NM_001102416.2	NP_001095886.1	P01042	KNG1_HUMAN	kininogen 1	205	Cystatin kininogen-type 2. {ECO:0000255|PROSITE-ProRule:PRU00979}.				blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|inflammatory response (GO:0006954)|negative regulation of blood coagulation (GO:0030195)|negative regulation of cell adhesion (GO:0007162)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of proteolysis (GO:0045861)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of renal sodium excretion (GO:0035815)|positive regulation of urine volume (GO:0035810)|smooth muscle contraction (GO:0006939)|vasodilation (GO:0042311)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)|platelet alpha granule lumen (GO:0031093)	cysteine-type endopeptidase inhibitor activity (GO:0004869)|heparin binding (GO:0008201)|receptor binding (GO:0005102)|zinc ion binding (GO:0008270)			endometrium(1)|lung(15)|prostate(1)|skin(2)|stomach(2)	21	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)		GTGCAAACGAATTGTTCCAAA	0.348																																																0													105	109	108					3																	186445075		2203	4300	6503	SO:0001583	missense	3827				CCDS3281.1, CCDS43183.1, CCDS54695.1	3q27.3	2014-05-15	2004-05-21	2004-05-26	ENSG00000113889	ENSG00000113889		"Endogenous ligands"	6383	protein-coding gene	gene with protein product	"alpha-2-thiol proteinase inhibitor", "bradykinin"	612358	"kininogen"	KNG, BDK		1733668	Standard	NM_000893		Approved	BK	uc011bsa.2	P01042	OTTHUMG00000150348	ENST00000265023.4:c.614A>C	3.37:g.186445075A>C	ENSP00000265023:p.Asn205Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K474|B2RCR2|C9JEX1|P01043|Q53EQ0|Q6PAU9|Q7M4P1	Missense_Mutation	SNP	ENST00000265023.4	37	CCDS43183.1	.	.	.	.	.	.	.	.	.	.	A	17.29	3.353296	0.61293	.	.	ENSG00000113889	ENST00000287611;ENST00000265023;ENST00000432028	T;T	0.26067	1.76;1.76	4.98	3.82	0.43975	Proteinase inhibitor I25, cystatin (2);	0.085672	0.49916	D	0.000134	T	0.40473	0.1118	L	0.52011	1.625	0.80722	D	1	D;D	0.89917	0.974;1.0	D;D	0.85130	0.961;0.997	T	0.15263	-1.0443	10	0.54805	T	0.06	-28.4834	7.9142	0.29808	0.9039:0.0:0.0961:0.0	.	205;205	P01042;P01042-2	KNG1_HUMAN;.	T	205;205;193	ENSP00000287611:N205T;ENSP00000265023:N205T	ENSP00000265023:N205T	N	+	2	0	KNG1	187927769	0.996000	0.38824	0.989000	0.46669	0.901000	0.52897	4.757000	0.62213	0.998000	0.38996	0.528000	0.53228	AAT		0.348	KNG1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000317738.1	NM_001102416		C	186445075	A	C	186445075	3	2	609	1	0	0	0	0	1	0	0	0	8434	101	4	5	632	5	KNG1	3	186445075	Missense_Mutation	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10	48654534	186445075	11577355	38	36943										
RNF168	165918	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	196214285	196214286	+	Frame_Shift_Ins	INS	-	-	T													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttacaatatcaatgcttagcINStttcttgccagttcctcatc					rs375146769		TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr3:196214285_196214286insT	ENST00000318037.3	-	3	1136_1137	c.542_543insA	c.(541-543)aagfs	p.K181fs		NM_152617.3	NP_689830.2	Q8IYW5	RN168_HUMAN	ring finger protein 168, E3 ubiquitin protein ligase	181					cellular response to DNA damage stimulus (GO:0006974)|double-strand break repair (GO:0006302)|histone H2A K63-linked ubiquitination (GO:0070535)|histone H2A monoubiquitination (GO:0035518)|histone H2A-K13 ubiquitination (GO:0036351)|histone H2A-K15 ubiquitination (GO:0036352)|interstrand cross-link repair (GO:0036297)|isotype switching (GO:0045190)|negative regulation of translational elongation (GO:0045900)|positive regulation of DNA repair (GO:0045739)|protein K63-linked ubiquitination (GO:0070534)|protein ubiquitination (GO:0016567)|response to ionizing radiation (GO:0010212)|ubiquitin-dependent protein catabolic process (GO:0006511)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|site of double-strand break (GO:0035861)|ubiquitin ligase complex (GO:0000151)	chromatin binding (GO:0003682)|histone binding (GO:0042393)|K63-linked polyubiquitin binding (GO:0070530)|ligase activity (GO:0016874)|nucleosome binding (GO:0031491)|ubiquitin binding (GO:0043130)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|endometrium(2)|large_intestine(7)|lung(9)|ovary(1)	20	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;5.25e-24)|all cancers(36;5.47e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00348)		CAATGCTTAGCTTTCTTGCCAG	0.47																																																0																																										SO:0001589	frameshift_variant	165918			AK054732	CCDS3317.1	3q29	2014-09-17	2012-02-23		ENSG00000163961	ENSG00000163961		"RING-type (C3HC4) zinc fingers"	26661	protein-coding gene	gene with protein product		612688	"ring finger protein 168"			12477932	Standard	NM_152617		Approved	FLJ35794	uc003fwq.3	Q8IYW5	OTTHUMG00000155582	ENST00000318037.3:c.543dupA	3.37:g.196214288_196214288dupT	ENSP00000320898:p.Lys181fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NA67|Q96NS4	Frame_Shift_Ins	INS	ENST00000318037.3	37	CCDS3317.1																																																																																				0.47	RNF168-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340778.1	NM_152617		T	196214286	-	T	196214285	7	5	609	1	0	1	1	0	0	0	0	0	13472	796	28	0	1188	0	RNF168	3	196214285	Frame_Shift_Ins	INS	-	TCGA-HE-A5NI-01A-11D-A26P-10	9769210	196214285	1808145	39	36944										
TIGD4	201798	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	153690653	153690653	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	agagttaataaaattttcaaGgtctgctaaagaattttgaa	7	3	2	3			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr4:153690653G>C	ENST00000304337.2	-	2	2324	c.1504C>G	c.(1504-1506)Ctt>Gtt	p.L502V		NM_145720.3	NP_663772.1	Q8IY51	TIGD4_HUMAN	tigger transposable element derived 4	502						nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|endometrium(2)|large_intestine(9)|lung(9)|ovary(1)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(2)	26	all_hematologic(180;0.093)					AAATTTTCAAGGTCTGCTAAA	0.284																																																0													34	39	38					4																	153690653		2202	4299	6501	SO:0001583	missense	201798			AK058054	CCDS34079.1	4q31.23	2008-02-05							18335	protein-coding gene	gene with protein product							Standard	NM_145720		Approved		uc003imy.3	Q8IY51		ENST00000304337.2:c.1504C>G	4.37:g.153690653G>C	ENSP00000355162:p.Leu502Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q96LP5	Missense_Mutation	SNP	ENST00000304337.2	37	CCDS34079.1	.	.	.	.	.	.	.	.	.	.	G	4.593	0.110214	0.08780	.	.	ENSG00000169989	ENST00000304337	T	0.17854	2.25	6.08	2.33	0.28932	Centromere protein Cenp-B, dimerisation domain (1);	0.493860	0.17134	N	0.185704	T	0.10981	0.0268	L	0.29908	0.895	0.26016	N	0.981923	B	0.06786	0.001	B	0.06405	0.002	T	0.24048	-1.0171	10	0.56958	D	0.05	-8.793	4.401	0.11386	0.0666:0.2372:0.3299:0.3663	.	502	Q8IY51	TIGD4_HUMAN	V	502	ENSP00000355162:L502V	ENSP00000355162:L502V	L	-	1	0	TIGD4	153910103	0.997000	0.39634	0.991000	0.47740	0.706000	0.40770	0.275000	0.18698	0.118000	0.18165	-0.293000	0.09583	CTT		0.284	TIGD4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365028.1	NM_145720		C	153690653	G	C	153690653	3	2	609	1	0	0	0	0	1	0	0	0	15910	1000	35	4	38	4	TIGD4	4	153690653	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10		153690653	37463623	40	36945										
MFAP3L	9848	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	170913188	170913189	+	Frame_Shift_Ins	INS	-	-	A													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttctctgcaccttcggtcctINSaaagaactcattgatggcct							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr4:170913188_170913189insA	ENST00000361618.3	-	3	877_878	c.570_571insT	c.(568-573)tttaggfs	p.R191fs	RP11-6E9.4_ENST00000508955.1_RNA|MFAP3L_ENST00000393704.3_Frame_Shift_Ins_p.R88fs	NM_021647.6	NP_067679.6	O75121	MFA3L_HUMAN	microfibrillar-associated protein 3-like	191						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				cervix(1)|endometrium(4)|kidney(1)|large_intestine(6)|lung(5)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	22		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0201)|LUSC - Lung squamous cell carcinoma(193;0.116)		CCTTCGGTCCTAAAGAACTCAT	0.525																																																0																																										SO:0001589	frameshift_variant	9848			AB014526	CCDS34103.1, CCDS43281.1	4q33	2014-08-12			ENSG00000198948	ENSG00000198948		"Immunoglobulin superfamily / I-set domain containing"	29083	protein-coding gene	gene with protein product						9734811	Standard	XM_005263366		Approved	KIAA0626, NYD-sp9	uc003isp.4	O75121	OTTHUMG00000160942	ENST00000361618.3:c.571dupT	4.37:g.170913191_170913191dupA	ENSP00000354583:p.Arg191fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1X6|D3DP35|Q4W5N7|Q4W5N9|Q6TNA8|Q9BVE1|Q9BXK0	Nonsense_Mutation	INS	ENST00000361618.3	37	CCDS34103.1																																																																																				0.525	MFAP3L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363043.2	NM_021647		A	170913189	-	A	170913188	7	5	609	1	0	1	1	0	0	0	0	0	9523	1521	53	0	662	0	MFAP3L	4	170913188	Frame_Shift_Ins	INS	-	TCGA-HE-A5NI-01A-11D-A26P-10	17222535	170913188	20241088	41	36946										
SEMA5A	9037	broad.mit.edu	37	chr5	9063125	9063125	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	aatgcccctgctgcagtcacGgctgcactgtgaccacgacg	11	15	1	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr5:9063125G>C	ENST00000382496.5	-	18	3057	c.2392C>G	c.(2392-2394)Cgt>Ggt	p.R798G		NM_003966.2	NP_003957.2	Q13591	SEM5A_HUMAN	sema domain, seven thrombospondin repeats (type 1 and type 1-like), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 5A	798	TSP type-1 5. {ECO:0000255|PROSITE- ProRule:PRU00210}.				axon guidance (GO:0007411)|axonal fasciculation (GO:0007413)|blood vessel endothelial cell proliferation involved in sprouting angiogenesis (GO:0002043)|cell adhesion (GO:0007155)|cell chemotaxis (GO:0060326)|cell-cell signaling (GO:0007267)|diencephalon development (GO:0021536)|negative regulation of axon extension involved in axon guidance (GO:0048843)|negative regulation of cell adhesion (GO:0007162)|negative regulation of endothelial cell apoptotic process (GO:2000352)|nervous system development (GO:0007399)|patterning of blood vessels (GO:0001569)|positive chemotaxis (GO:0050918)|positive regulation of actin filament depolymerization (GO:0030836)|positive regulation of angiogenesis (GO:0045766)|positive regulation of axon extension involved in axon guidance (GO:0048842)|positive regulation of catenin import into nucleus (GO:0035413)|positive regulation of endothelial cell chemotaxis (GO:2001028)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of protein kinase B signaling (GO:0051897)|signal clustering (GO:1990256)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	axon guidance receptor activity (GO:0008046)|chondroitin sulfate proteoglycan binding (GO:0035373)|heparan sulfate proteoglycan binding (GO:0043395)|semaphorin receptor binding (GO:0030215)|syndecan binding (GO:0045545)			biliary_tract(1)|breast(4)|central_nervous_system(2)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(13)|lung(40)|ovary(2)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	81						CTGCAGTCACGGCTGCACTGT	0.597																																																0													82	65	71					5																	9063125		2203	4300	6503	SO:0001583	missense	9037			U52840	CCDS3875.1	5p15.2	2008-05-15			ENSG00000112902	ENSG00000112902		"Semaphorins"	10736	protein-coding gene	gene with protein product		609297		SEMAF		8817451, 9464278	Standard	NM_003966		Approved	semF	uc003jek.2	Q13591	OTTHUMG00000090501	ENST00000382496.5:c.2392C>G	5.37:g.9063125G>C	ENSP00000371936:p.Arg798Gly	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTC6|O60408|Q1RLL9	Missense_Mutation	SNP	ENST00000382496.5	37	CCDS3875.1	.	.	.	.	.	.	.	.	.	.	G	20.3	3.959722	0.74016	.	.	ENSG00000112902	ENST00000382496	T	0.52754	0.65	5.65	3.75	0.43078	.	0.000000	0.85682	D	0.000000	T	0.68997	0.3062	M	0.85197	2.74	0.53005	D	0.999964	D	0.65815	0.995	D	0.69307	0.963	T	0.74399	-0.3678	10	0.62326	D	0.03	.	12.7069	0.57065	0.0:0.0:0.6934:0.3066	.	798	Q13591	SEM5A_HUMAN	G	798	ENSP00000371936:R798G	ENSP00000371936:R798G	R	-	1	0	SEMA5A	9116125	1.000000	0.71417	0.995000	0.50966	0.994000	0.84299	4.915000	0.63355	1.323000	0.45263	0.655000	0.94253	CGT		0.597	SEMA5A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206989.2			C	9063125	G	C	9063125	3	2	609	1	0	0	0	0	1	0	0	0	14050	1116	39	4	856	4	SEMA5A	5	9063125	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10		9063125	171852135	42	36947										
CARD6	84674	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	40852818	40852818	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tctcttttgtgcgtctaggaTactgtagcttctctaagtcc	8	10	3	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr5:40852818T>C	ENST00000254691.5	+	3	1583	c.1384T>C	c.(1384-1386)Tac>Cac	p.Y462H	CARD6_ENST00000381677.3_Intron	NM_032587.3	NP_115976.2	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	462					apoptotic process (GO:0006915)|regulation of apoptotic process (GO:0042981)					NS(1)|breast(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(10)|liver(2)|lung(29)|ovary(2)|pancreas(1)|prostate(2)|skin(3)|urinary_tract(1)	62						GCGTCTAGGATACTGTAGCTT	0.433																																																0													87	91	89					5																	40852818		2203	4300	6503	SO:0001583	missense	84674			AF356193	CCDS3935.1	5p13.1	2008-05-23			ENSG00000132357	ENSG00000132357			16394	protein-coding gene	gene with protein product		609986				12775719	Standard	NM_032587		Approved	CINCIN1	uc003jmg.3	Q9BX69	OTTHUMG00000094775	ENST00000254691.5:c.1384T>C	5.37:g.40852818T>C	ENSP00000254691:p.Tyr462His	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LR2	Missense_Mutation	SNP	ENST00000254691.5	37	CCDS3935.1	.	.	.	.	.	.	.	.	.	.	T	4.601	0.111736	0.08831	.	.	ENSG00000132357	ENST00000254691	T	0.11169	2.8	5.48	-5.23	0.02798	.	1.493650	0.03820	N	0.267293	T	0.04724	0.0128	N	0.08118	0	0.09310	N	1	B	0.06786	0.001	B	0.01281	0.0	T	0.34950	-0.9808	10	0.35671	T	0.21	3.1866	3.3078	0.07006	0.209:0.5204:0.1052:0.1655	.	462	Q9BX69	CARD6_HUMAN	H	462	ENSP00000254691:Y462H	ENSP00000254691:Y462H	Y	+	1	0	CARD6	40888575	0.000000	0.05858	0.002000	0.10522	0.968000	0.65278	-0.582000	0.05814	-1.244000	0.02516	-0.248000	0.11899	TAC		0.433	CARD6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000211584.3			C	40852818	T	C	40852818	3	2	609	1	0	0	0	0	1	0	0	0	2652	1406	49	3	1394	3	CARD6	5	40852818	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	31789693	40852818	140062442	43	36948										
MSH3	4437	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	80037368	80037368	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tggaaatcctacagaatcagGtcaggcaaatacaagggcta	10	8	2	1	rs550626088		TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr5:80037368G>C	ENST00000265081.6	+	11	1733		c.e11+1		MSH3_ENST00000512258.1_Splice_Site	NM_002439.4	NP_002430.3	P20585	MSH3_HUMAN	mutS homolog 3						ATP catabolic process (GO:0006200)|DNA repair (GO:0006281)|maintenance of DNA repeat elements (GO:0043570)|meiotic mismatch repair (GO:0000710)|mismatch repair (GO:0006298)|negative regulation of DNA recombination (GO:0045910)|positive regulation of helicase activity (GO:0051096)|reciprocal meiotic recombination (GO:0007131)|somatic recombination of immunoglobulin gene segments (GO:0016447)	membrane (GO:0016020)|MutSbeta complex (GO:0032302)|nuclear chromosome (GO:0000228)|nucleus (GO:0005634)	ATP binding (GO:0005524)|centromeric DNA binding (GO:0019237)|damaged DNA binding (GO:0003684)|DNA-dependent ATPase activity (GO:0008094)|double-strand/single-strand DNA junction binding (GO:0000406)|enzyme binding (GO:0019899)|heteroduplex DNA loop binding (GO:0000404)|Y-form DNA binding (GO:0000403)			NS(1)|breast(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(12)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	29		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		ACAGAATCAGGTCAGGCAAAT	0.333								Mismatch excision repair (MMR)																													Melanoma(88;1010 1399 13793 26548 36275)											0													53	58	57					5																	80037368		2203	4297	6500	SO:0001630	splice_region_variant	4437			U61981	CCDS34195.1	5q11-q12	2013-09-12	2013-09-12		ENSG00000113318	ENSG00000113318			7326	protein-coding gene	gene with protein product	"Divergent upstream protein", "Mismatch repair protein 1"	600887	"mutS (E. coli) homolog 3", "mutS homolog 3 (E. coli)"				Standard	NM_002439		Approved	DUP, MRP1	uc003kgz.4	P20585	OTTHUMG00000162540	ENST00000265081.6:c.1653+1G>C	5.37:g.80037368G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A1L480|A1L482|A6NMM6|Q6PJT5|Q86UQ6|Q92867	Splice_Site	SNP	ENST00000265081.6	37	CCDS34195.1	.	.	.	.	.	.	.	.	.	.	G	19.14	3.770243	0.69992	.	.	ENSG00000113318	ENST00000265081;ENST00000535995	.	.	.	4.79	4.79	0.61399	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.9659	0.86285	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	MSH3	80073124	1.000000	0.71417	1.000000	0.80357	0.948000	0.59901	6.767000	0.74975	2.369000	0.80426	0.650000	0.86243	.		0.333	MSH3-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369471.1	NM_002439	Intron	C	80037368	G	C	80037368	5	2	609	1	0	0	0	0	0	0	1	0	9878	1275	44	4	1696	4	MSH3	5	80037368	Splice_Site	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	39184550	80037368	100877892	44	36949										
PAM	5066	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	102203042	102203042	+	Frame_Shift_Del	DEL	T	T	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	caccagacccgtagttcctaTtgattcatcagattttgcat							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr5:102203042delT	ENST00000438793.3	+	2	625	c.155delT	c.(154-156)attfs	p.I52fs	PAM_ENST00000348126.2_Frame_Shift_Del_p.I52fs|PAM_ENST00000274392.9_De_novo_Start_OutOfFrame|PAM_ENST00000513648.1_3'UTR|PAM_ENST00000379787.4_De_novo_Start_InFrame|PAM_ENST00000304400.7_Frame_Shift_Del_p.I52fs|PAM_ENST00000455264.2_Frame_Shift_Del_p.I52fs|PAM_ENST00000346918.2_Frame_Shift_Del_p.I52fs	NM_000919.3|NM_001177306.1|NM_138766.2	NP_000910.2|NP_001170777.1|NP_620121.1	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase	52	Peptidylglycine alpha-hydroxylating monooxygenase. {ECO:0000250}.				central nervous system development (GO:0007417)|heart development (GO:0007507)|lactation (GO:0007595)|limb development (GO:0060173)|long-chain fatty acid metabolic process (GO:0001676)|maternal process involved in female pregnancy (GO:0060135)|odontogenesis (GO:0042476)|ovulation cycle process (GO:0022602)|peptide amidation (GO:0001519)|protein amidation (GO:0018032)|protein homooligomerization (GO:0051260)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of protein secretion (GO:0050708)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to copper ion (GO:0046688)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to glucocorticoid (GO:0051384)|response to hypoxia (GO:0001666)|response to pH (GO:0009268)|toxin metabolic process (GO:0009404)	cell surface (GO:0009986)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|neuron projection (GO:0043005)|perikaryon (GO:0043204)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|secretory granule membrane (GO:0030667)|trans-Golgi network (GO:0005802)	calcium ion binding (GO:0005509)|copper ion binding (GO:0005507)|L-ascorbic acid binding (GO:0031418)|peptidylamidoglycolate lyase activity (GO:0004598)|peptidylglycine monooxygenase activity (GO:0004504)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(2)|large_intestine(10)|lung(8)|prostate(2)|upper_aerodigestive_tract(1)	25		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)	GTAGTTCCTATTGATTCATCA	0.373																																																0													168	148	155					5																	102203042		2203	4300	6503	SO:0001589	frameshift_variant	5066			AB095007	CCDS4092.1, CCDS4093.1, CCDS4094.1, CCDS43348.1, CCDS54885.1	5q	2008-02-05			ENSG00000145730	ENSG00000145730	1.14.17.3		8596	protein-coding gene	gene with protein product	"peptidyl-alpha-hydroxyglycine alpha-amidating lyase", "peptidylglycine alpha-hydroxylating monooxygenase"	170270				2357221	Standard	NM_000919		Approved	PAL, PHM	uc003knt.3	P19021	OTTHUMG00000128729	ENST00000438793.3:c.155delT	5.37:g.102203042delT	ENSP00000396493:p.Ile52fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMR0|A8K293|O43211|O95080|Q16252|Q16253|Q54A45|Q86U53|Q8WVC7|Q9UCG0	Frame_Shift_Del	DEL	ENST00000438793.3	37	CCDS54885.1																																																																																				0.373	PAM-004	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000250640.2	NM_000919		-	102203042	T	-	102203042	7	5	609	1	0	1	0	1	0	0	0	0	11419	1493	52	0	161	0	PAM	5	102203042	Frame_Shift_Del	DEL	T	TCGA-HE-A5NI-01A-11D-A26P-10	22165674	102203042	78712218	45	36950	285	3								
PAM	5066	hgsc.bcm.edu	37	chr5	102203043	102203044	+	Frame_Shift_Del	DEL	TG	TG	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	accagacccgtagttcctatTgattcatcagattttgcatt							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr5:102203043_102203044delTG	ENST00000438793.3	+	2	626_627	c.156_157delTG	c.(154-159)attgatfs	p.D53fs	PAM_ENST00000348126.2_Frame_Shift_Del_p.D53fs|PAM_ENST00000274392.9_5'UTR|PAM_ENST00000513648.1_3'UTR|PAM_ENST00000379787.4_5'UTR|PAM_ENST00000304400.7_Frame_Shift_Del_p.D53fs|PAM_ENST00000455264.2_Frame_Shift_Del_p.D53fs|PAM_ENST00000346918.2_Frame_Shift_Del_p.D53fs	NM_000919.3|NM_001177306.1|NM_138766.2	NP_000910.2|NP_001170777.1|NP_620121.1	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase	53	Peptidylglycine alpha-hydroxylating monooxygenase. {ECO:0000250}.				central nervous system development (GO:0007417)|heart development (GO:0007507)|lactation (GO:0007595)|limb development (GO:0060173)|long-chain fatty acid metabolic process (GO:0001676)|maternal process involved in female pregnancy (GO:0060135)|odontogenesis (GO:0042476)|ovulation cycle process (GO:0022602)|peptide amidation (GO:0001519)|protein amidation (GO:0018032)|protein homooligomerization (GO:0051260)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of protein secretion (GO:0050708)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to copper ion (GO:0046688)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to glucocorticoid (GO:0051384)|response to hypoxia (GO:0001666)|response to pH (GO:0009268)|toxin metabolic process (GO:0009404)	cell surface (GO:0009986)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|neuron projection (GO:0043005)|perikaryon (GO:0043204)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|secretory granule membrane (GO:0030667)|trans-Golgi network (GO:0005802)	calcium ion binding (GO:0005509)|copper ion binding (GO:0005507)|L-ascorbic acid binding (GO:0031418)|peptidylamidoglycolate lyase activity (GO:0004598)|peptidylglycine monooxygenase activity (GO:0004504)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(2)|large_intestine(10)|lung(8)|prostate(2)|upper_aerodigestive_tract(1)	25		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)	TAGTTCCTATTGATTCATCAGA	0.376																																																0																																										SO:0001589	frameshift_variant	5066			AB095007	CCDS4092.1, CCDS4093.1, CCDS4094.1, CCDS43348.1, CCDS54885.1	5q	2008-02-05			ENSG00000145730	ENSG00000145730	1.14.17.3		8596	protein-coding gene	gene with protein product	"peptidyl-alpha-hydroxyglycine alpha-amidating lyase", "peptidylglycine alpha-hydroxylating monooxygenase"	170270				2357221	Standard	NM_000919		Approved	PAL, PHM	uc003knt.3	P19021	OTTHUMG00000128729	ENST00000438793.3:c.156_157delTG	5.37:g.102203043_102203044delTG	ENSP00000396493:p.Asp53fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMR0|A8K293|O43211|O95080|Q16252|Q16253|Q54A45|Q86U53|Q8WVC7|Q9UCG0	Frame_Shift_Del	DEL	ENST00000438793.3	37	CCDS54885.1																																																																																				0.376	PAM-004	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000250640.2	NM_000919		-	102203044	TG	-	102203043	7	5	609	1	0	1	0	1	0	0	0	0	11419	1800	63	0	162	0	PAM	5	102203043	Frame_Shift_Del	DEL	TG	TCGA-HE-A5NI-01A-11D-A26P-10	1	102203043	78712217	46	36951	285	3								
PAM	5066	hgsc.bcm.edu;bcgsc.ca	37	chr5	102203044	102203044	+	Missense_Mutation	SNP	G	G	A													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ccagacccgtagttcctattGattcatcagattttgcattg							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr5:102203044G>A	ENST00000438793.3	+	2	627	c.157G>A	c.(157-159)Gat>Aat	p.D53N	PAM_ENST00000348126.2_Missense_Mutation_p.D53N|PAM_ENST00000274392.9_5'UTR|PAM_ENST00000513648.1_3'UTR|PAM_ENST00000379787.4_5'UTR|PAM_ENST00000304400.7_Missense_Mutation_p.D53N|PAM_ENST00000455264.2_Missense_Mutation_p.D53N|PAM_ENST00000346918.2_Missense_Mutation_p.D53N	NM_000919.3|NM_001177306.1|NM_138766.2	NP_000910.2|NP_001170777.1|NP_620121.1	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase	53	Peptidylglycine alpha-hydroxylating monooxygenase. {ECO:0000250}.				central nervous system development (GO:0007417)|heart development (GO:0007507)|lactation (GO:0007595)|limb development (GO:0060173)|long-chain fatty acid metabolic process (GO:0001676)|maternal process involved in female pregnancy (GO:0060135)|odontogenesis (GO:0042476)|ovulation cycle process (GO:0022602)|peptide amidation (GO:0001519)|protein amidation (GO:0018032)|protein homooligomerization (GO:0051260)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of protein secretion (GO:0050708)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to copper ion (GO:0046688)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to glucocorticoid (GO:0051384)|response to hypoxia (GO:0001666)|response to pH (GO:0009268)|toxin metabolic process (GO:0009404)	cell surface (GO:0009986)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|neuron projection (GO:0043005)|perikaryon (GO:0043204)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|secretory granule membrane (GO:0030667)|trans-Golgi network (GO:0005802)	calcium ion binding (GO:0005509)|copper ion binding (GO:0005507)|L-ascorbic acid binding (GO:0031418)|peptidylamidoglycolate lyase activity (GO:0004598)|peptidylglycine monooxygenase activity (GO:0004504)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(2)|large_intestine(10)|lung(8)|prostate(2)|upper_aerodigestive_tract(1)	25		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)	AGTTCCTATTGATTCATCAGA	0.373																																																0													166	147	153					5																	102203044		2203	4300	6503	SO:0001583	missense	5066			AB095007	CCDS4092.1, CCDS4093.1, CCDS4094.1, CCDS43348.1, CCDS54885.1	5q	2008-02-05			ENSG00000145730	ENSG00000145730	1.14.17.3		8596	protein-coding gene	gene with protein product	"peptidyl-alpha-hydroxyglycine alpha-amidating lyase", "peptidylglycine alpha-hydroxylating monooxygenase"	170270				2357221	Standard	NM_000919		Approved	PAL, PHM	uc003knt.3	P19021	OTTHUMG00000128729	ENST00000438793.3:c.157G>A	5.37:g.102203044G>A	ENSP00000396493:p.Asp53Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMR0|A8K293|O43211|O95080|Q16252|Q16253|Q54A45|Q86U53|Q8WVC7|Q9UCG0	Missense_Mutation	SNP	ENST00000438793.3	37	CCDS54885.1	.	.	.	.	.	.	.	.	.	.	G	13.81	2.347969	0.41599	.	.	ENSG00000145730	ENST00000511839;ENST00000509832;ENST00000438793;ENST00000346918;ENST00000348126;ENST00000304400;ENST00000455264	T;T;T;T;T;T;T	0.64085	0.66;-0.08;1.36;1.36;1.36;1.36;1.36	5.68	5.68	0.88126	Copper type II, ascorbate-dependent monooxygenase, N-terminal (1);PHM/PNGase F domain (1);	0.264128	0.41396	D	0.000899	T	0.54481	0.1861	L	0.29908	0.895	0.80722	D	1	B;B;B;B;B	0.12630	0.004;0.006;0.006;0.006;0.006	B;B;B;B;B	0.12156	0.003;0.006;0.006;0.006;0.007	T	0.45760	-0.9239	10	0.39692	T	0.17	.	19.791	0.96456	0.0:0.0:1.0:0.0	.	53;53;53;53;53	P19021;P19021-4;P19021-3;P19021-5;P19021-2	AMD_HUMAN;.;.;.;.	N	53	ENSP00000426448:D53N;ENSP00000423763:D53N;ENSP00000396493:D53N;ENSP00000282992:D53N;ENSP00000314638:D53N;ENSP00000306100:D53N;ENSP00000403461:D53N	ENSP00000306100:D53N	D	+	1	0	PAM	102230943	1.000000	0.71417	0.985000	0.45067	0.013000	0.08279	5.413000	0.66399	2.677000	0.91161	0.491000	0.48974	GAT		0.373	PAM-004	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000250640.2	NM_000919		A	102203044	G	A	102203044	3	1	609	1	0	0	0	0	1	0	0	0	11419	1290	45	2	163	2	PAM	5	102203044	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	1	102203044	78712216	47	36952	285	3								
ARHGAP26	23092	broad.mit.edu	37	chr5	142281511	142281511	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tcattacagctgctggccttCctgcaaggactcttcacttt	7	13	3	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr5:142281511C>A	ENST00000274498.4	+	7	987	c.609C>A	c.(607-609)ttC>ttA	p.F203L	ARHGAP26_ENST00000378004.3_Missense_Mutation_p.F203L	NM_015071.4	NP_055886.1	Q9UNA1	RHG26_HUMAN	Rho GTPase activating protein 26	203					actin cytoskeleton organization (GO:0030036)|filopodium assembly (GO:0046847)|nervous system development (GO:0007399)|positive regulation of Rho GTPase activity (GO:0032321)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cell junction (GO:0030054)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)	phospholipid binding (GO:0005543)|Rho GTPase activator activity (GO:0005100)			autonomic_ganglia(1)|breast(1)|central_nervous_system(2)|endometrium(4)|kidney(3)|large_intestine(6)|lung(7)|ovary(1)	25		all_hematologic(541;0.0416)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGCTGGCCTTCCTGCAAGGAC	0.458																																																0													149	125	133					5																	142281511		2203	4300	6503	SO:0001583	missense	23092			AB014521	CCDS4277.1, CCDS47297.1	5q31	2011-06-29			ENSG00000145819	ENSG00000145819		"Rho GTPase activating proteins"	17073	protein-coding gene	gene with protein product	"GTPase regulator associated with the focal adhesion kinase pp125"	605370				9858476, 8649427	Standard	NM_001135608		Approved	GRAF, KIAA0621, OPHN1L, OPHN1L1	uc011dbj.2	Q9UNA1	OTTHUMG00000059705	ENST00000274498.4:c.609C>A	5.37:g.142281511C>A	ENSP00000274498:p.Phe203Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O75117|Q5D035|Q9BYS6|Q9BYS7|Q9UJ00	Missense_Mutation	SNP	ENST00000274498.4	37	CCDS4277.1	.	.	.	.	.	.	.	.	.	.	C	20.9	4.063007	0.76187	.	.	ENSG00000145819	ENST00000274498;ENST00000378004	T;T	0.04551	3.6;3.6	5.79	3.03	0.35002	IRSp53/MIM homology domain (IMD) (2);	0.000000	0.85682	D	0.000000	T	0.15955	0.0384	M	0.85462	2.755	0.58432	D	0.999998	P;P	0.49307	0.655;0.922	P;P	0.55667	0.557;0.781	T	0.00363	-1.1788	10	0.54805	T	0.06	.	8.3362	0.32217	0.0:0.6617:0.0:0.3383	.	203;203	Q9UNA1;Q9UNA1-2	RHG26_HUMAN;.	L	203	ENSP00000274498:F203L;ENSP00000367243:F203L	ENSP00000274498:F203L	F	+	3	2	ARHGAP26	142261695	0.926000	0.31397	1.000000	0.80357	0.990000	0.78478	0.065000	0.14466	0.784000	0.33661	0.563000	0.77884	TTC		0.458	ARHGAP26-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000132744.3	NM_015071		A	142281511	C	A	142281511	3	1	609	1	0	0	0	0	1	0	0	0	875	854	30	4	635	4	ARHGAP26	5	142281511	Missense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	40078467	142281511	38633749	48	36953										
SYCP2L	221711	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	10931696	10931696	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tgccagttttccctcccagtAgtggcagtggccatgagaaa	11	11	0	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr6:10931696A>G	ENST00000283141.6	+	20	1953	c.1657A>G	c.(1657-1659)Agt>Ggt	p.S553G		NM_001040274.2	NP_001035364.2	Q5T4T6	SYC2L_HUMAN	synaptonemal complex protein 2-like	553						nucleus (GO:0005634)				breast(3)|central_nervous_system(1)|kidney(4)|large_intestine(10)|lung(12)|ovary(1)|skin(3)|stomach(1)|urinary_tract(1)	36	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)			CCCTCCCAGTAGTGGCAGTGG	0.398																																																0													162	153	156					6																	10931696		1894	4121	6015	SO:0001583	missense	221711			AK128130	CCDS43423.1	6p24.2	2008-11-06	2007-07-02	2007-07-02	ENSG00000153157	ENSG00000153157			21537	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 177"	C6orf177			Standard	NM_001040274		Approved	dJ62D2.1, NO145	uc003mzo.3	Q5T4T6	OTTHUMG00000014250	ENST00000283141.6:c.1657A>G	6.37:g.10931696A>G	ENSP00000283141:p.Ser553Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDS5|Q08GK5|Q6ZRM2|Q96EJ2	Missense_Mutation	SNP	ENST00000283141.6	37	CCDS43423.1	.	.	.	.	.	.	.	.	.	.	A	12.52	1.964123	0.34659	.	.	ENSG00000153157	ENST00000283141	T	0.31247	1.5	4.54	3.37	0.38596	.	0.357110	0.31648	N	0.007296	T	0.19327	0.0464	L	0.52011	1.625	0.24843	N	0.992458	D	0.60160	0.987	P	0.50270	0.636	T	0.03325	-1.1048	10	0.59425	D	0.04	.	8.5559	0.33480	0.7752:0.2248:0.0:0.0	.	553	Q5T4T6	SYC2L_HUMAN	G	553	ENSP00000283141:S553G	ENSP00000283141:S553G	S	+	1	0	SYCP2L	11039682	0.004000	0.15560	0.006000	0.13384	0.043000	0.13939	0.576000	0.23744	0.822000	0.34565	0.460000	0.39030	AGT		0.398	SYCP2L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039845.3	NM_194299		G	10931696	A	G	10931696	3	3	609	1	0	0	0	0	1	0	0	0	15445	420	15	3	1735	3	SYCP2L	6	10931696	Missense_Mutation	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10		10931696	160183371	49	36954										
GPLD1	2822	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	24450018	24450018	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tatccagcagcagccttactTtgtaggtgagctgctcggag	12	10	0	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr6:24450018T>C	ENST00000230036.1	-	15	1555	c.1445A>G	c.(1444-1446)aAa>aGa	p.K482R		NM_001503.3	NP_001494.2	P80108	PHLD_HUMAN	glycosylphosphatidylinositol specific phospholipase D1	482					cell migration involved in sprouting angiogenesis (GO:0002042)|cellular response to calcium ion (GO:0071277)|cellular response to cholesterol (GO:0071397)|cellular response to drug (GO:0035690)|cellular response to insulin stimulus (GO:0032869)|cellular response to pH (GO:0071467)|cellular response to triglyceride (GO:0071401)|chondrocyte differentiation (GO:0002062)|complement receptor mediated signaling pathway (GO:0002430)|GPI anchor release (GO:0006507)|hematopoietic stem cell migration (GO:0035701)|hematopoietic stem cell migration to bone marrow (GO:0097241)|insulin receptor signaling pathway (GO:0008286)|negative regulation of cell proliferation (GO:0008285)|negative regulation of triglyceride catabolic process (GO:0010897)|ossification (GO:0001503)|phosphatidylcholine metabolic process (GO:0046470)|positive regulation of alkaline phosphatase activity (GO:0010694)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cytolysis (GO:0045919)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of glucose metabolic process (GO:0010907)|positive regulation of high-density lipoprotein particle clearance (GO:0010983)|positive regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0035774)|positive regulation of membrane protein ectodomain proteolysis (GO:0051044)|positive regulation of secretion (GO:0051047)|positive regulation of triglyceride biosynthetic process (GO:0010867)|regulation of cellular response to insulin stimulus (GO:1900076)|response to glucose (GO:0009749)|transepithelial transport (GO:0070633)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal membrane (GO:0005765)|proteinaceous extracellular matrix (GO:0005578)	glycosylphosphatidylinositol phospholipase D activity (GO:0004621)|phospholipase D activity (GO:0004630)|sodium channel regulator activity (GO:0017080)			breast(3)|endometrium(5)|kidney(1)|large_intestine(11)|lung(8)|ovary(2)|prostate(1)|urinary_tract(1)	32						CAGCCTTACTTTGTAGGTGAG	0.632																																																0													67	71	69					6																	24450018		2203	4300	6503	SO:0001630	splice_region_variant	2822			L11701	CCDS4553.1	6p22.1	2008-02-05			ENSG00000112293	ENSG00000112293			4459	protein-coding gene	gene with protein product		602515				11072085	Standard	NM_001503		Approved		uc003ned.2	P80108	OTTHUMG00000016104	ENST00000230036.1:c.1446+1A>G	6.37:g.24450018T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q15127|Q15128|Q2M2F2|Q5T3Y0|Q7Z6T8|Q8TCV0|Q8WW82|Q96ID6|Q9H167|Q9H4M1|Q9UJC9	Missense_Mutation	SNP	ENST00000230036.1	37	CCDS4553.1	.	.	.	.	.	.	.	.	.	.	T	9.926	1.213638	0.22289	.	.	ENSG00000112293	ENST00000230036	T	0.66995	-0.24	5.5	-3.95	0.04118	.	0.800408	0.11589	N	0.548920	T	0.20455	0.0492	N	0.12527	0.23	0.53005	D	0.999964	B	0.09022	0.002	B	0.14578	0.011	T	0.12142	-1.0559	10	0.12766	T	0.61	-0.5038	9.3674	0.38232	0.0:0.1973:0.5455:0.2572	.	482	P80108	PHLD_HUMAN	R	482	ENSP00000230036:K482R	ENSP00000230036:K482R	K	-	2	0	GPLD1	24557997	0.006000	0.16342	0.147000	0.22382	0.634000	0.38068	-0.438000	0.06905	-0.534000	0.06315	0.482000	0.46254	AAA		0.632	GPLD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043315.1	NM_001503	Missense_Mutation	C	24450018	T	C	24450018	5	2	609	1	0	0	0	0	0	0	1	0	6621	1855	64	3	1121	3	GPLD1	6	24450018	Splice_Site	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	13518322	24450018	146665049	50	36955										
NOTCH4	4855	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	32169043	32169043	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tccctgccatcacgatccttCcttacccagagtcctaccct	4	19	1	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr6:32169043C>T	ENST00000375023.3	-	22	4128	c.3990G>A	c.(3988-3990)agG>agA	p.R1330R		NM_004557.3	NP_004548.3	Q99466	NOTC4_HUMAN	notch 4	1330					cell differentiation (GO:0030154)|cell fate determination (GO:0001709)|embryo development (GO:0009790)|endothelial cell morphogenesis (GO:0001886)|gene expression (GO:0010467)|hemopoiesis (GO:0030097)|mammary gland development (GO:0030879)|morphogenesis of a branching structure (GO:0001763)|negative regulation of cell differentiation (GO:0045596)|negative regulation of endothelial cell differentiation (GO:0045602)|Notch receptor processing (GO:0007220)|Notch signaling pathway (GO:0007219)|patterning of blood vessels (GO:0001569)|positive regulation of transcription of Notch receptor target (GO:0007221)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cell surface (GO:0009986)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of plasma membrane (GO:0005887)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|protein heterodimerization activity (GO:0046982)|receptor activity (GO:0004872)			NS(1)|autonomic_ganglia(1)|breast(4)|central_nervous_system(4)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(47)|ovary(5)|prostate(4)|skin(10)|upper_aerodigestive_tract(1)|urinary_tract(1)	100						CACGATCCTTCCTTACCCAGA	0.622																																																0													59	65	63					6																	32169043		1511	2709	4220	SO:0001819	synonymous_variant	4855				CCDS34420.1	6p21.3	2013-01-10	2010-06-24		ENSG00000204301	ENSG00000204301		"Ankyrin repeat domain containing"	7884	protein-coding gene	gene with protein product		164951	"Notch (Drosophila) homolog 4", "Notch homolog 4 (Drosophila)"	INT3		7835890	Standard	NM_004557		Approved		uc003obb.3	Q99466	OTTHUMG00000031044	ENST00000375023.3:c.3990G>A	6.37:g.32169043C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0V183|B0V1X5|O00306|Q5SSY7|Q99458|Q99940|Q9H3S8|Q9UII9|Q9UIJ0	Silent	SNP	ENST00000375023.3	37	CCDS34420.1																																																																																				0.622	NOTCH4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076045.2			T	32169043	C	T	32169043	2	4	609	1	0	0	0	0	0	0	0	1	10558	854	30	2		2	NOTCH4	6	32169043	Silent	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	7719025	32169043	138946024	51	36956										
C6orf106	64771	hgsc.bcm.edu;broad.mit.edu	37	chr6	34664262	34664262	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	agaaggcgcaaccggcaggaTtgagctggaagccgagcagc	16	10	0	2	rs369638409		TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr6:34664262T>C	ENST00000374023.3	-	1	362	c.119A>G	c.(118-120)aAt>aGt	p.N40S	RP11-140K17.3_ENST00000606971.1_RNA|C6orf106_ENST00000374026.3_Missense_Mutation_p.N40S|RP11-140K17.3_ENST00000606496.1_RNA	NM_024294.2	NP_077270.1	Q9H6K1	CF106_HUMAN	chromosome 6 open reading frame 106	40										endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|ovary(1)|skin(2)	10						ACCGGCAGGATTGAGCTGGAA	0.662																																																0								T	SER/ASN,SER/ASN	0,4406		0,0,2203	62	43	49		119,119	1.8	1	6		49	1,8599		0,1,4299	no	missense,missense	C6orf106	NM_022758.4,NM_024294.2	46,46	0,1,6502	CC,CT,TT		0.0116,0.0,0.0077	possibly-damaging,possibly-damaging	40/233,40/299	34664262	1,13005	2203	4300	6503	SO:0001583	missense	64771			AF052106	CCDS4795.1, CCDS4796.1	6p21.31	2012-01-27			ENSG00000196821	ENSG00000196821			21215	protein-coding gene	gene with protein product		612217					Standard	XM_005249298		Approved	FLJ22195, dJ391O22.4	uc003ojr.2	Q9H6K1	OTTHUMG00000014553	ENST00000374023.3:c.119A>G	6.37:g.34664262T>C	ENSP00000363135:p.Asn40Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8K7|Q5VV77|Q96MG5|Q9BUR9	Missense_Mutation	SNP	ENST00000374023.3	37	CCDS4796.1	.	.	.	.	.	.	.	.	.	.	T	10.61	1.399579	0.25291	0.0	1.16E-4	ENSG00000196821	ENST00000374023;ENST00000374026	.	.	.	2.99	1.78	0.24846	UBA-like (1);	0.185370	0.46442	D	0.000288	T	0.21186	0.0510	L	0.46670	1.46	0.80722	D	1	B;P	0.46142	0.207;0.873	B;B	0.44163	0.219;0.443	T	0.04178	-1.0971	9	0.33940	T	0.23	-7.2216	2.9531	0.05868	0.2121:0.1602:0.0:0.6277	.	40;40	Q9H6K1-2;Q9H6K1	.;CF106_HUMAN	S	40	.	ENSP00000363135:N40S	N	-	2	0	C6orf106	34772240	1.000000	0.71417	1.000000	0.80357	0.515000	0.34225	3.873000	0.56093	0.535000	0.28714	-0.669000	0.03829	AAT		0.662	C6orf106-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040251.1	NM_022758		C	34664262	T	C	34664262	3	2	609	1	0	0	0	0	1	0	0	0	2321	1493	52	3	797	3	C6orf106	6	34664262	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	2495219	34664262	136450805	52	36957										
DST	667	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	56501422	56501422	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	agagctgtaagatccagctcCactgcgtctgcattgccgct	10	13	1	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr6:56501422C>T	ENST00000361203.3	-	19	2367	c.2360G>A	c.(2359-2361)tGg>tAg	p.W787*	DST_ENST00000370788.2_Nonsense_Mutation_p.W787*|DST_ENST00000370769.4_Nonsense_Mutation_p.W787*|DST_ENST00000312431.6_Nonsense_Mutation_p.W787*|DST_ENST00000244364.6_Nonsense_Mutation_p.W461*|DST_ENST00000421834.2_Nonsense_Mutation_p.W787*|DST_ENST00000446842.2_Nonsense_Mutation_p.W461*|DST_ENST00000370754.5_Nonsense_Mutation_p.W965*|DST_ENST00000518935.1_Nonsense_Mutation_p.W461*|DST_ENST00000370765.6_Nonsense_Mutation_p.W461*			Q03001	DYST_HUMAN	dystonin	787					axonogenesis (GO:0007409)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cell motility (GO:0048870)|cytoplasmic microtubule organization (GO:0031122)|cytoskeleton organization (GO:0007010)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)|integrin-mediated signaling pathway (GO:0007229)|intermediate filament cytoskeleton organization (GO:0045104)|maintenance of cell polarity (GO:0030011)|microtubule cytoskeleton organization (GO:0000226)|regulation of microtubule polymerization or depolymerization (GO:0031110)|response to wounding (GO:0009611)|retrograde axon cargo transport (GO:0008090)	actin cytoskeleton (GO:0015629)|axon (GO:0030424)|basal plasma membrane (GO:0009925)|basement membrane (GO:0005604)|cell leading edge (GO:0031252)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|integral component of membrane (GO:0016021)|intermediate filament (GO:0005882)|intermediate filament cytoskeleton (GO:0045111)|microtubule cytoskeleton (GO:0015630)|microtubule plus-end (GO:0035371)|neurofilament cytoskeleton (GO:0060053)|nucleus (GO:0005634)|Z disc (GO:0030018)	calcium ion binding (GO:0005509)|integrin binding (GO:0005178)|microtubule plus-end binding (GO:0051010)|protein C-terminus binding (GO:0008022)|protein homodimerization activity (GO:0042803)			NS(1)|breast(5)|central_nervous_system(8)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(22)|lung(43)|ovary(7)|prostate(1)|skin(4)|upper_aerodigestive_tract(3)	105	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			GATCCAGCTCCACTGCGTCTG	0.453																																																0													171	142	152					6																	56501422		2203	4300	6503	SO:0001587	stop_gained	667			M22942, M69225	CCDS4959.1, CCDS47443.1, CCDS75474.1	6p12.1	2013-01-10	2004-06-25	2004-07-01	ENSG00000151914	ENSG00000151914		"EF-hand domain containing"	1090	protein-coding gene	gene with protein product		113810	"bullous pemphigoid antigen 1, 230/240kDa"	BPAG1		2461961, 2276744	Standard	NM_001144770		Approved	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2	uc021zba.2	Q03001	OTTHUMG00000014913	ENST00000361203.3:c.2360G>A	6.37:g.56501422C>T	ENSP00000354508:p.Trp787*	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3H1|O94833|Q12825|Q13266|Q13267|Q13775|Q5TBT0|Q5TBT2|Q5TF23|Q5TF24|Q8N1T8|Q8N8J3|Q8WXK8|Q8WXK9|Q96AK9|Q96DQ5|Q96J76|Q96QT5|Q9H555|Q9UGD7|Q9UGD8|Q9UN10	Nonsense_Mutation	SNP	ENST00000361203.3	37		.	.	.	.	.	.	.	.	.	.	C	38	6.731382	0.97796	.	.	ENSG00000151914	ENST00000244364;ENST00000370754;ENST00000370769;ENST00000421834;ENST00000446842;ENST00000312431;ENST00000370788;ENST00000361203;ENST00000439203;ENST00000520645;ENST00000370765;ENST00000518935	.	.	.	5.25	5.25	0.73442	.	0.000000	0.46145	D	0.000304	.	.	.	.	.	.	0.80722	A	1.000000	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	19.029	0.92948	0.0:1.0:0.0:0.0	.	.	.	.	X	461;965;787;787;461;787;787;787;461;827;461;461	.	ENSP00000244364:W461X	W	-	2	0	DST	56609381	1.000000	0.71417	1.000000	0.80357	0.958000	0.62258	7.644000	0.83416	2.726000	0.93360	0.579000	0.79373	TGG		0.453	DST-004	NOVEL	not_organism_supported|basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000041021.3	NM_001723		T	56501422	C	T	56501422	4	4	609	1	0	0	0	0	0	1	0	0	4785	595	21	2	19077	2	DST	6	56501422	Nonsense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	21837160	56501422	114613645	53	36958										
KIAA1009	22832	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	84872967	84872967	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gtttcagtcttttgatgtctTccaataaactgtctttttct	5	8	5	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr6:84872967T>G	ENST00000403245.3	-	19	2522	c.2408A>C	c.(2407-2409)gAa>gCa	p.E803A	KIAA1009_ENST00000461137.1_5'UTR|KIAA1009_ENST00000257766.4_Missense_Mutation_p.E727A	NM_014895.2	NP_055710.2														breast(2)|central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(10)|lung(17)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	43		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		TTTGATGTCTTCCAATAAACT	0.318																																																0													180	165	170					6																	84872967		2203	4300	6503	SO:0001583	missense	22832																														ENST00000403245.3:c.2408A>C	6.37:g.84872967T>G	ENSP00000385215:p.Glu803Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000403245.3	37	CCDS34494.2	.	.	.	.	.	.	.	.	.	.	T	18.77	3.694256	0.68386	.	.	ENSG00000135315	ENST00000257766;ENST00000403245	T;T	0.33216	1.42;1.42	4.82	4.82	0.62117	.	0.000000	0.64402	D	0.000005	T	0.43523	0.1251	M	0.66506	2.035	0.46437	D	0.999046	D	0.71674	0.998	D	0.81914	0.995	T	0.37686	-0.9695	10	0.44086	T	0.13	-22.1089	14.6743	0.68967	0.0:0.0:0.0:1.0	.	803	Q5TB80	QN1_HUMAN	A	727;803	ENSP00000257766:E727A;ENSP00000385215:E803A	ENSP00000257766:E727A	E	-	2	0	KIAA1009	84929686	1.000000	0.71417	0.998000	0.56505	0.910000	0.53928	6.642000	0.74329	1.912000	0.55364	0.460000	0.39030	GAA		0.318	KIAA1009-004	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317315.1			G	84872967	T	G	84872967	3	3	609	1	0	0	0	0	1	0	0	0	8210	1783	62	5	1839	5	KIAA1009	6	84872967	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	28371545	84872967	86242100	54	36959										
ZNF292	23036	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	87943085	87943085	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gggtcccatcttgttggataTgagaattaaacatctaatca	8	7	3	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr6:87943085T>A	ENST00000369577.3	+	5	624	c.581T>A	c.(580-582)aTg>aAg	p.M194K	ZNF292_ENST00000339907.4_Missense_Mutation_p.M189K	NM_015021.1	NP_055836.1	O60281	ZN292_HUMAN	zinc finger protein 292	194						nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(27)|lung(21)|ovary(4)|prostate(6)|upper_aerodigestive_tract(1)|urinary_tract(2)	89		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		TTGTTGGATATGAGAATTAAA	0.313																																																0													81	77	78					6																	87943085		1825	4076	5901	SO:0001583	missense	23036			AB011102	CCDS47457.1	6q15	2008-10-23			ENSG00000188994	ENSG00000188994		"Zinc fingers, C2H2-type"	18410	protein-coding gene	gene with protein product						9628581	Standard	NM_015021		Approved	KIAA0530, ZFP292, bA393I2.3, Zn-15, Zn-16	uc003plm.4	O60281	OTTHUMG00000015164	ENST00000369577.3:c.581T>A	6.37:g.87943085T>A	ENSP00000358590:p.Met194Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5W0B2|Q7Z3L7|Q9H8G3|Q9H8J4	Missense_Mutation	SNP	ENST00000369577.3	37	CCDS47457.1	.	.	.	.	.	.	.	.	.	.	T	23.1	4.376146	0.82682	.	.	ENSG00000188994	ENST00000369577;ENST00000339907	T;T	0.10860	2.83;2.85	5.36	5.36	0.76844	.	0.000000	0.85682	D	0.000000	T	0.24198	0.0586	M	0.72894	2.215	0.58432	D	0.999993	D	0.76494	0.999	D	0.79784	0.993	T	0.01524	-1.1333	10	0.87932	D	0	.	15.658	0.77158	0.0:0.0:0.0:1.0	.	194	O60281	ZN292_HUMAN	K	194;189	ENSP00000358590:M194K;ENSP00000342847:M189K	ENSP00000342847:M189K	M	+	2	0	ZNF292	87999804	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.183000	0.77697	2.158000	0.67659	0.460000	0.39030	ATG		0.313	ZNF292-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000376192.2	NM_015021		A	87943085	T	A	87943085	3	1	609	1	0	0	0	0	1	0	0	0	17838	1464	51	5	599	5	ZNF292	6	87943085	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	3070118	87943085	83171982	55	36960										
PNRC1	10957	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	89793801	89793801	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tttagtgatccaccttctccTagtgttcttccaaagcctcc	5	14	2	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr6:89793801T>C	ENST00000336032.3	+	2	987	c.870T>C	c.(868-870)ccT>ccC	p.P290P	PNRC1_ENST00000354922.3_Silent_p.P105P|PNRC1_ENST00000369472.1_Silent_p.P105P	NM_006813.2	NP_006804.1	Q12796	PNRC1_HUMAN	proline-rich nuclear receptor coactivator 1	290					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)				endometrium(1)|large_intestine(2)|lung(3)	6		all_cancers(76;3.64e-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;0.102)		CACCTTCTCCTAGTGTTCTTC	0.413										Multiple Myeloma(7;0.094)																																						0													81	83	83					6																	89793801		2203	4300	6503	SO:0001819	synonymous_variant	10957			U03105	CCDS5018.1	6q16.1	2008-02-05	2003-09-25	2003-09-26	ENSG00000146278	ENSG00000146278			17278	protein-coding gene	gene with protein product		606714	"proline rich 2"	PROL2		7578250	Standard	NM_006813		Approved	B4-2, PRR2	uc003pmv.3	Q12796	OTTHUMG00000015191	ENST00000336032.3:c.870T>C	6.37:g.89793801T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R6Q0|E1P515|Q5T7J6|Q7Z5N0	Silent	SNP	ENST00000336032.3	37	CCDS5018.1																																																																																				0.413	PNRC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041471.1	NM_006813		C	89793801	T	C	89793801	2	2	609	1	0	0	0	0	0	0	0	1	12181	1509	53	3		3	PNRC1	6	89793801	Silent	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	1850716	89793801	81321266	56	36961										
MCM9	254394	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	119245294	119245294	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tcaggacagacaggcaaaccTgatggagaaaacaaaaaaac	9	8	1	3			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr6:119245294T>C	ENST00000316316.6	-	3	591		c.e3-2		MCM9_ENST00000316068.3_Splice_Site	NM_017696.2	NP_060166.2	Q9NXL9	MCM9_HUMAN	minichromosome maintenance complex component 9						cellular response to DNA damage stimulus (GO:0006974)|DNA replication (GO:0006260)|double-strand break repair via homologous recombination (GO:0000724)|female gamete generation (GO:0007292)	MCM8-MCM9 complex (GO:0097362)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)			cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(8)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	18		all_cancers(87;0.122)|all_epithelial(87;0.179)		GBM - Glioblastoma multiforme(226;0.0676)|OV - Ovarian serous cystadenocarcinoma(136;0.194)		CAGGCAAACCTGATGGAGAAA	0.393																																																0													118	126	124					6																	119245294		2201	4300	6501	SO:0001630	splice_region_variant	254394			BC031658	CCDS5121.1, CCDS56447.1	6q22.31	2009-11-16	2007-04-04	2007-04-04	ENSG00000111877	ENSG00000111877			21484	protein-coding gene	gene with protein product		610098	"minichromosome maintenance deficient domain containing 1", "chromosome 6 open reading frame 61"	MCMDC1, C6orf61		16226853, 15850810, 16495042	Standard	NM_153255		Approved	MGC35304, dJ329L24.3, FLJ20170	uc021zeh.1	Q9NXL9	OTTHUMG00000015468	ENST00000316316.6:c.305-2A>G	6.37:g.119245294T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DR30|B9DI77|Q2KHJ0|Q8N5S5|Q9HCV5	Splice_Site	SNP	ENST00000316316.6	37	CCDS56447.1	.	.	.	.	.	.	.	.	.	.	T	16.26	3.073982	0.55646	.	.	ENSG00000111877	ENST00000316316;ENST00000316068;ENST00000425154	.	.	.	5.48	5.48	0.80851	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.5716	0.76341	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	MCM9	119286993	1.000000	0.71417	0.963000	0.40424	0.735000	0.41995	7.499000	0.81566	2.072000	0.62099	0.460000	0.39030	.		0.393	MCM9-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042005.4	NM_153255	Intron	C	119245294	T	C	119245294	5	2	609	1	0	0	0	0	0	0	1	0	9401	1594	55	3	892	3	MCM9	6	119245294	Splice_Site	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	29451493	119245294	51869773	57	36962										
FGFR1OP	11116	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	167435950	167435950	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	agtgtctccttgtcagaaccCaagagcaaaagcagccttca	8	12	3	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr6:167435950C>A	ENST00000366847.4	+	8	864	c.633C>A	c.(631-633)ccC>ccA	p.P211P	FGFR1OP_ENST00000349556.4_Silent_p.P191P|RP11-517H2.6_ENST00000609590.1_RNA	NM_007045.2	NP_008976.1	O95684	FR1OP_HUMAN	FGFR1 oncogene partner	211					G2/M transition of mitotic cell cycle (GO:0000086)|microtubule anchoring (GO:0034453)|mitotic cell cycle (GO:0000278)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of protein tyrosine kinase activity (GO:0061099)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of cell growth (GO:0030307)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)	centrosome (GO:0005813)|cytosol (GO:0005829)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	protein homodimerization activity (GO:0042803)|protein kinase binding (GO:0019901)|protein tyrosine kinase activity (GO:0004713)|protein tyrosine kinase inhibitor activity (GO:0030292)			large_intestine(2)|ovary(1)|stomach(1)	4		Breast(66;1.48e-05)|Ovarian(120;0.0607)		OV - Ovarian serous cystadenocarcinoma(33;1.73e-19)|BRCA - Breast invasive adenocarcinoma(81;5.1e-06)|GBM - Glioblastoma multiforme(31;0.00231)		TGTCAGAACCCAAGAGCAAAA	0.428			T	FGFR1	"MPD, NHL"																																		Dom	yes		6	6q27	11116	FGFR1 oncogene partner (FOP)		L	0													96	92	93					6																	167435950		2203	4300	6503	SO:0001819	synonymous_variant	11116			Y18046	CCDS5296.1, CCDS5297.1, CCDS75550.1	6q27	2008-02-05			ENSG00000213066	ENSG00000213066			17012	protein-coding gene	gene with protein product		605392				9949182, 10373756	Standard	NM_007045		Approved	FOP	uc003qvj.3	O95684	OTTHUMG00000016011	ENST00000366847.4:c.633C>A	6.37:g.167435950C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1D1|B2R705|Q49AI0|Q5R3F6|Q96EW1	Silent	SNP	ENST00000366847.4	37	CCDS5296.1																																																																																				0.428	FGFR1OP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000043099.2	NM_007045		A	167435950	C	A	167435950	2	1	609	1	0	0	0	0	0	0	0	1	5871	581	21	4		4	FGFR1OP	6	167435950	Silent	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	48190656	167435950	3679117	58	36963										
WBSCR27	155368	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	73249148	73249148	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gatgaagccatccttggcagAgatgccggataccacctcca	10	13	0	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr7:73249148A>C	ENST00000297873.4	-	6	712	c.663T>G	c.(661-663)tcT>tcG	p.S221S		NM_152559.2	NP_689772.2	Q8N6F8	WBS27_HUMAN	Williams Beuren syndrome chromosome region 27	221										NS(1)|central_nervous_system(1)|lung(2)|prostate(1)	5		Lung NSC(55;0.159)				TCCTTGGCAGAGATGCCGGAT	0.637																																																0													68	61	63					7																	73249148		2203	4300	6503	SO:0001819	synonymous_variant	155368			AF534110	CCDS5561.1	7q11.23	2004-07-05			ENSG00000165171	ENSG00000165171			19068	protein-coding gene	gene with protein product		612546					Standard	NM_152559		Approved		uc003tzj.2	Q8N6F8	OTTHUMG00000130033	ENST00000297873.4:c.663T>G	7.37:g.73249148A>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000297873.4	37	CCDS5561.1																																																																																				0.637	WBSCR27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252312.1	NM_152559		C	73249148	A	C	73249148	2	2	609	1	0	0	0	0	0	0	0	1	17278	291	11	5		5	WBSCR27	7	73249148	Silent	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10		73249148	85889515	59	36964										
HTR5A	3361	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	154862732	154862732	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ctgctctcggtcttcggagtGcttattctcaccttgctggg	11	12	3	0	rs372855479		TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr7:154862732G>T	ENST00000287907.2	+	1	699	c.123G>T	c.(121-123)gtG>gtT	p.V41V	HTR5A-AS1_ENST00000543018.1_Intron|HTR5A-AS1_ENST00000493904.1_Intron|HTR5A-AS1_ENST00000395731.2_Intron	NM_024012.3	NP_076917.1	P47898	5HT5A_HUMAN	5-hydroxytryptamine (serotonin) receptor 5A, G protein-coupled	41					cAMP-mediated signaling (GO:0019933)|G-protein coupled receptor signaling pathway (GO:0007186)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|hippocampus development (GO:0021766)|response to estradiol (GO:0032355)|serotonin receptor signaling pathway (GO:0007210)	dendrite (GO:0030425)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)|rough endoplasmic reticulum (GO:0005791)	serotonin receptor activity (GO:0004993)			NS(1)|breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(22)|ovary(2)|prostate(3)|stomach(1)	48	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)	Asenapine(DB06216)|Loxapine(DB00408)|Olanzapine(DB00334)	TCTTCGGAGTGCTTATTCTCA	0.642																																																0													103	89	94					7																	154862732		2203	4300	6503	SO:0001819	synonymous_variant	3361				CCDS5936.1	7q36.1	2012-08-08	2012-02-03		ENSG00000157219	ENSG00000157219		"5-HT (serotonin) receptors", "GPCR / Class A : 5-HT (serotonin) receptors, GPCR only"	5300	protein-coding gene	gene with protein product		601305	"5-hydroxytryptamine (serotonin) receptor 5A"			7988681	Standard	NM_024012		Approved	5-HT5A	uc003wlu.2	P47898	OTTHUMG00000151327	ENST00000287907.2:c.123G>T	7.37:g.154862732G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M2D2	Silent	SNP	ENST00000287907.2	37	CCDS5936.1																																																																																				0.642	HTR5A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322240.1	NM_024012		T	154862732	G	T	154862732	2	4	609	1	0	0	0	0	0	0	0	1	7457	1306	46	4		4	HTR5A	7	154862732	Silent	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	81613584	154862732	4275931	60	36965										
TRIM35	23087	bcgsc.ca	37	chr8	27145422	27145422	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cctcagcgcccgagtcctggCgcacacgtaccacgcccacc	9	21	1	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr8:27145422C>T	ENST00000305364.4	-	6	1210	c.1127G>A	c.(1126-1128)cGc>cAc	p.R376H	TRIM35_ENST00000521253.1_3'UTR	NM_171982.3	NP_741983.2	Q9UPQ4	TRI35_HUMAN	tripartite motif containing 35	376	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.				apoptotic process (GO:0006915)|innate immune response (GO:0045087)|negative regulation of cell proliferation (GO:0008285)|negative regulation of mitotic cell cycle (GO:0045930)|negative regulation of viral release from host cell (GO:1902187)|positive regulation of apoptotic process (GO:0043065)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	zinc ion binding (GO:0008270)			breast(1)|endometrium(6)|large_intestine(2)|lung(4)|upper_aerodigestive_tract(1)	14		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|Epithelial(17;9.34e-10)|Colorectal(74;0.141)		CGAGTCCTGGCGCACACGTAC	0.697																																																0													35	31	32					8																	27145422		2201	4297	6498	SO:0001583	missense	23087			AB029021	CCDS6056.2	8p21.2	2013-01-09	2011-01-25		ENSG00000104228	ENSG00000104228		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	16285	protein-coding gene	gene with protein product			"tripartite motif-containing 35"			11331580, 14662771, 12692137	Standard	XM_005273451		Approved	KIAA1098, MAIR, HLS5	uc003xfl.1	Q9UPQ4	OTTHUMG00000102047	ENST00000305364.4:c.1127G>A	8.37:g.27145422C>T	ENSP00000301924:p.Arg376His	Somatic		WXS	Illumina HiSeq	Phase_1	Q86XQ0|Q8WVA4	Missense_Mutation	SNP	ENST00000305364.4	37	CCDS6056.2	.	.	.	.	.	.	.	.	.	.	C	13.92	2.380304	0.42207	.	.	ENSG00000104228	ENST00000305364;ENST00000380544	T	0.61040	0.14	5.42	2.27	0.28462	Concanavalin A-like lectin/glucanase (1);B30.2/SPRY domain (1);SPla/RYanodine receptor SPRY (1);	0.406842	0.21274	N	0.077274	T	0.31979	0.0814	N	0.14661	0.345	0.09310	N	1	P	0.38167	0.621	B	0.36534	0.227	T	0.08932	-1.0698	10	0.33141	T	0.24	.	2.7059	0.05162	0.2211:0.5064:0.0:0.2725	.	376	Q9UPQ4	TRI35_HUMAN	H	376	ENSP00000301924:R376H	ENSP00000301924:R376H	R	-	2	0	TRIM35	27201339	0.024000	0.19004	0.005000	0.12908	0.427000	0.31564	0.264000	0.18497	0.556000	0.29098	0.313000	0.20887	CGC		0.697	TRIM35-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219848.2	NM_171982		T	27145422	C	T	27145422	3	4	609	1	0	0	0	0	1	0	0	0	16521	768	27	1	358	1	TRIM35	8	27145422	Missense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10		27145422	119218600	61	36966										
GDAP1	54332	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	75274164	75274164	+	Frame_Shift_Del	DEL	A	A	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gctgaagaaacttgctgaagAaaacccagatttacaagaag							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr8:75274164delA	ENST00000220822.7	+	4	610	c.530delA	c.(529-531)gaafs	p.E177fs	GDAP1_ENST00000521096.1_3'UTR|GDAP1_ENST00000434412.2_Frame_Shift_Del_p.E109fs	NM_001040875.2|NM_018972.2	NP_001035808.1|NP_061845.2	Q8TB36	GDAP1_HUMAN	ganglioside induced differentiation associated protein 1	177	GST C-terminal.				cell death (GO:0008219)|mitochondrial fission (GO:0000266)|protein targeting to mitochondrion (GO:0006626)|response to retinoic acid (GO:0032526)	integral component of mitochondrial outer membrane (GO:0031307)|membrane (GO:0016020)|nucleus (GO:0005634)				endometrium(1)|kidney(1)|large_intestine(1)|lung(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	10	Breast(64;0.00769)	Myeloproliferative disorder(644;0.0122)	BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.104)|all cancers(69;0.234)			CTTGCTGAAGAAAACCCAGAT	0.373																																																0													118	110	113					8																	75274164		2203	4300	6503	SO:0001589	frameshift_variant	54332				CCDS34911.1, CCDS47877.1	8q13.3	2014-09-17	2012-02-09						15968	protein-coding gene	gene with protein product		606598	"Charcot-Marie-Tooth neuropathy 4A"	CMT4A		8268915, 11743579	Standard	NM_018972		Approved	CMT4	uc003yah.3	Q8TB36		ENST00000220822.7:c.530delA	8.37:g.75274164delA	ENSP00000220822:p.Glu177fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K957|E7FJF3|E7FJF4	Frame_Shift_Del	DEL	ENST00000220822.7	37	CCDS34911.1																																																																																				0.373	GDAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379061.1	NM_018972		-	75274164	A	-	75274164	7	5	609	1	0	1	0	1	0	0	0	0	6314	246	9	0	544	0	GDAP1	8	75274164	Frame_Shift_Del	DEL	A	TCGA-HE-A5NI-01A-11D-A26P-10	48128742	75274164	71089858	62	36967										
SQLE	6713	ucsc.edu;bcgsc.ca	37	chr8	126033029	126033029	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttacaattttattttagattCcctgcatcaactaagaaaag	4	7	1	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr8:126033029C>T	ENST00000265896.5	+	10	2346	c.1448C>T	c.(1447-1449)tCc>tTc	p.S483F	SQLE_ENST00000523430.1_Missense_Mutation_p.S388F	NM_003129.3	NP_003120.2	Q14534	ERG1_HUMAN	squalene epoxidase	483					cellular aromatic compound metabolic process (GO:0006725)|cholesterol biosynthetic process (GO:0006695)|response to organic substance (GO:0010033)|small molecule metabolic process (GO:0044281)|sterol biosynthetic process (GO:0016126)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	flavin adenine dinucleotide binding (GO:0050660)|squalene monooxygenase activity (GO:0004506)			NS(1)|breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|ovary(1)|prostate(1)	14	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)	ATTTTAGATTCCCTGCATCAA	0.348																																																0													75	73	74					8																	126033029		1841	4086	5927	SO:0001583	missense	6713			D78130	CCDS47918.1	8q24.1	2014-06-23			ENSG00000104549	ENSG00000104549	1.14.13.132		11279	protein-coding gene	gene with protein product	"squalene monooxygenase"	602019				9286711	Standard	NM_003129		Approved		uc011liq.2	Q14534	OTTHUMG00000164990	ENST00000265896.5:c.1448C>T	8.37:g.126033029C>T	ENSP00000265896:p.Ser483Phe	Somatic		WXS	Illumina HiSeq		Q9UEK6	Missense_Mutation	SNP	ENST00000265896.5	37	CCDS47918.1	.	.	.	.	.	.	.	.	.	.	C	17.60	3.429507	0.62844	.	.	ENSG00000104549	ENST00000523430;ENST00000265896;ENST00000541193;ENST00000518931	T;T;T	0.40476	1.03;1.03;1.03	5.87	3.0	0.34707	Squalene epoxidase (1);	0.096455	0.85682	D	0.000000	T	0.61602	0.2360	M	0.83012	2.62	0.58432	D	0.99999	D	0.53462	0.96	P	0.61003	0.882	T	0.63413	-0.6643	10	0.51188	T	0.08	-7.9375	12.0916	0.53730	0.2455:0.6365:0.118:0.0	.	483	Q14534	ERG1_HUMAN	F	388;483;288;135	ENSP00000430331:S388F;ENSP00000265896:S483F;ENSP00000429916:S135F	ENSP00000265896:S483F	S	+	2	0	SQLE	126102211	1.000000	0.71417	0.998000	0.56505	0.960000	0.62799	3.631000	0.54280	0.425000	0.26087	0.655000	0.94253	TCC		0.348	SQLE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381362.1	NM_003129		T	126033029	C	T	126033029	3	4	609	1	0	0	0	0	1	0	0	0	15140	855	30	2	1385	2	SQLE	8	126033029	Missense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	50758865	126033029	20330993	63	36968										
ACER2	340485	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	19435060	19435060	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tgggagttccttgcactgcaCtgctcatcgcagagctaaag	11	11	1	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr9:19435060C>T	ENST00000340967.2	+	4	507	c.481C>T	c.(481-483)Ctg>Ttg	p.L161L	ACER2_ENST00000380376.1_Silent_p.L112L	NM_001010887.2	NP_001010887.2	Q5QJU3	ACER2_HUMAN	alkaline ceramidase 2	161					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|cellular response to drug (GO:0035690)|ceramide metabolic process (GO:0006672)|negative regulation of cell adhesion mediated by integrin (GO:0033629)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of protein glycosylation in Golgi (GO:0090285)|positive regulation of cell death (GO:0010942)|positive regulation of cell proliferation (GO:0008284)|response to retinoic acid (GO:0032526)|small molecule metabolic process (GO:0044281)|sphingolipid biosynthetic process (GO:0030148)|sphingolipid metabolic process (GO:0006665)|sphingosine biosynthetic process (GO:0046512)	Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)	ceramidase activity (GO:0017040)|dihydroceramidase activity (GO:0071633)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(6)|prostate(1)|skin(1)	13						TTGCACTGCACTGCTCATCGC	0.557																																																0													219	164	182					9																	19435060		2203	4300	6503	SO:0001819	synonymous_variant	340485			AK123581	CCDS34992.1	9p21.3	2013-01-25	2008-12-19	2008-12-19	ENSG00000177076	ENSG00000177076	3.5.1.23	"Alkaline ceramidase"	23675	protein-coding gene	gene with protein product		613492	"N-acylsphingosine amidohydrolase 3-like"	ASAH3L		18945876	Standard	XM_005251447		Approved	FLJ41587	uc003zny.1	Q5QJU3	OTTHUMG00000019644	ENST00000340967.2:c.481C>T	9.37:g.19435060C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2A3R8|Q569G5|Q5VZR7|Q71RD2	Silent	SNP	ENST00000340967.2	37	CCDS34992.1																																																																																				0.557	ACER2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051864.1	XM_294540		T	19435060	C	T	19435060	2	4	609	1	0	0	0	0	0	0	0	1	139	564	20	2		2	ACER2	9	19435060	Silent	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10		19435060	121778371	64	36969										
FAM22F	54754	bcgsc.ca	37	chr9	97081337	97081337	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	agtgcgcactctgccctgtcCctgagggtcctgggcagctg	14	14	1	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr9:97081337C>A	ENST00000253262.4	-	7	1701	c.1681G>T	c.(1681-1683)Gga>Tga	p.G561*	NUTM2F_ENST00000335456.7_Intron|NUTM2F_ENST00000341207.4_Nonsense_Mutation_p.G546*	NM_017561.1	NP_060031.1	A1L443	NTM2F_HUMAN	NUT family member 2F	561																	CTGCCCTGTCCCTGAGGGTCC	0.632																																																0													9	15	13					9																	97081337		1825	4044	5869	SO:0001587	stop_gained	54754				CCDS47994.1	9q22.32	2013-05-02	2013-03-14	2013-05-02	ENSG00000130950	ENSG00000130950			23450	protein-coding gene	gene with protein product			"family with sequence similarity 22, member F"	FAM22F			Standard	NM_017561		Approved	DKFZp434I1117		A1L443	OTTHUMG00000020260	ENST00000253262.4:c.1681G>T	9.37:g.97081337C>A	ENSP00000253262:p.Gly561*	Somatic		WXS	Illumina HiSeq	Phase_1	B6ZDF0|Q5SR58|Q5SR59|Q9UFB1	Nonsense_Mutation	SNP	ENST00000253262.4	37	CCDS47994.1	.	.	.	.	.	.	.	.	.	.	C	14.40	2.524387	0.44969	.	.	ENSG00000130950	ENST00000253262;ENST00000341207;ENST00000375347	.	.	.	1.45	-0.439	0.12264	.	0.767987	0.11801	N	0.528127	.	.	.	.	.	.	0.58432	D	0.999999	.	.	.	.	.	.	.	.	.	.	0.33141	T	0.24	.	3.6141	0.08071	0.0:0.3681:0.0:0.6319	.	.	.	.	X	561;546;395	.	ENSP00000253262:G561X	G	-	1	0	FAM22F	96121158	0.000000	0.05858	0.001000	0.08648	0.005000	0.04900	-0.318000	0.08050	-0.110000	0.12022	0.400000	0.26472	GGA		0.632	NUTM2F-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000053173.2	NM_017561		A	97081337	C	A	97081337	4	1	609	1	0	0	0	0	0	1	0	0	5549	632	22	4	593	4	FAM22F	9	97081337	Nonsense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	77646277	97081337	44132094	65	36970										
FAM22G	441457	bcgsc.ca	37	chr9	99700841	99700841	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cggctgcccaggaccctcagGgacagggcagagtgcgcact	15	14	1	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr9:99700841G>T	ENST00000372322.3	+	7	1657	c.1636G>T	c.(1636-1638)Gga>Tga	p.G546*	NUTM2G_ENST00000354649.3_Intron|HIATL2_ENST00000506067.1_Intron	NM_001170741.1	NP_001164212.1	Q5VZR2	NTM2G_HUMAN	NUT family member 2G	546																	GGACCCTCAGGGACAGGGCAG	0.642																																																0													62	71	68					9																	99700841		692	1591	2283	SO:0001587	stop_gained	441457				CCDS43854.1, CCDS55329.1	9q22.33	2013-05-02	2013-03-14	2013-05-02	ENSG00000188152	ENSG00000188152			23449	protein-coding gene	gene with protein product			"family with sequence similarity 22, member G"	FAM22G			Standard	NM_001045477		Approved			Q5VZR2	OTTHUMG00000020305	ENST00000372322.3:c.1636G>T	9.37:g.99700841G>T	ENSP00000361397:p.Gly546*	Somatic		WXS	Illumina HiSeq	Phase_1	A6NNI5|Q5VZR3	Nonsense_Mutation	SNP	ENST00000372322.3	37	CCDS55329.1	.	.	.	.	.	.	.	.	.	.	.	14.35	2.510637	0.44660	.	.	ENSG00000188152	ENST00000372322;ENST00000417159;ENST00000375230	.	.	.	1.01	-1.15	0.09709	.	0.767987	0.11801	N	0.528127	.	.	.	.	.	.	0.58432	D	0.999999	.	.	.	.	.	.	.	.	.	.	0.33940	T	0.23	.	3.5235	0.07751	0.5622:0.0:0.4378:0.0	.	.	.	.	X	546;395;427	.	ENSP00000361397:G546X	G	+	1	0	FAM22G	98740662	0.000000	0.05858	0.001000	0.08648	0.015000	0.08874	0.006000	0.13152	-0.335000	0.08451	0.473000	0.43528	GGA		0.642	NUTM2G-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000053291.2	NM_001170741		T	99700841	G	T	99700841	4	4	609	1	0	0	0	0	0	1	0	0	5550	1233	43	4	1662	4	FAM22G	9	99700841	Nonsense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	2619504	99700841	41512590	66	36971										
PTGR1	22949	broad.mit.edu;bcgsc.ca	37	chr9	114332439	114332439	+	Frame_Shift_Del	DEL	C	C	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tccttgccagcggtagacgaCaaaagcttccatgcgaagct							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr9:114332439delC	ENST00000407693.2	-	9	1073	c.811delG	c.(811-813)gtcfs	p.V272fs	PTGR1_ENST00000538962.1_Frame_Shift_Del_p.V272fs|PTGR1_ENST00000238248.3_Frame_Shift_Del_p.V149fs|ZNF483_ENST00000358151.4_Intron|PTGR1_ENST00000309195.5_Frame_Shift_Del_p.V272fs	NM_001146108.1	NP_001139580.1	Q14914	PTGR1_HUMAN	prostaglandin reductase 1	272					arachidonic acid metabolic process (GO:0019369)|cyclooxygenase pathway (GO:0019371)|leukotriene metabolic process (GO:0006691)|lipoxin metabolic process (GO:2001300)|response to toxic substance (GO:0009636)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	13-prostaglandin reductase activity (GO:0036132)|15-oxoprostaglandin 13-oxidase activity (GO:0047522)|2-alkenal reductase [NAD(P)] activity (GO:0032440)|zinc ion binding (GO:0008270)			endometrium(2)|large_intestine(5)|lung(3)|ovary(1)	11						CGGTAGACGACAAAAGCTTCC	0.547																																					Ovarian(200;132 2151 7551 19220 46064)											0													53	52	52					9																	114332439		2203	4300	6503	SO:0001589	frameshift_variant	22949			D49387	CCDS6779.1, CCDS55331.1	9q32	2008-06-04	2008-06-02	2008-06-02	ENSG00000106853	ENSG00000106853	1.3.1.74, 1.3.1.48		18429	protein-coding gene	gene with protein product	"zinc binding alcohol dehydrogenase domain containing 3"	601274	"leukotriene B4 12-hydroxydehydrogenase"	LTB4DH		8576264, 17449869	Standard	NM_001146109		Approved	ZADH3	uc004bfh.2	Q14914	OTTHUMG00000020493	ENST00000407693.2:c.811delG	9.37:g.114332439delC	ENSP00000385763:p.Val272fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0N2|B4DPK3|F5GY50|Q8IYQ0|Q9H1X6	Frame_Shift_Del	DEL	ENST00000407693.2	37	CCDS6779.1																																																																																				0.547	PTGR1-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053647.2			-	114332439	C	-	114332439	7	5	609	1	0	1	0	1	0	0	0	0	12764	478	17	0	217	0	PTGR1	9	114332439	Frame_Shift_Del	DEL	C	TCGA-HE-A5NI-01A-11D-A26P-10	14631598	114332439	26880992	67	36972	286	2								
PTGR1	22949	bcgsc.ca	37	chr9	114332440	114332440	+	Silent	SNP	A	A	G													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ccttgccagcggtagacgacAaaagcttccatgcgaagctc							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr9:114332440A>G	ENST00000407693.2	-	9	1072	c.810T>C	c.(808-810)ttT>ttC	p.F270F	PTGR1_ENST00000538962.1_Silent_p.F270F|PTGR1_ENST00000238248.3_Silent_p.F147F|ZNF483_ENST00000358151.4_Intron|PTGR1_ENST00000309195.5_Silent_p.F270F	NM_001146108.1	NP_001139580.1	Q14914	PTGR1_HUMAN	prostaglandin reductase 1	270					arachidonic acid metabolic process (GO:0019369)|cyclooxygenase pathway (GO:0019371)|leukotriene metabolic process (GO:0006691)|lipoxin metabolic process (GO:2001300)|response to toxic substance (GO:0009636)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	13-prostaglandin reductase activity (GO:0036132)|15-oxoprostaglandin 13-oxidase activity (GO:0047522)|2-alkenal reductase [NAD(P)] activity (GO:0032440)|zinc ion binding (GO:0008270)			endometrium(2)|large_intestine(5)|lung(3)|ovary(1)	11						GGTAGACGACAAAAGCTTCCA	0.547																																					Ovarian(200;132 2151 7551 19220 46064)											0													53	52	52					9																	114332440		2203	4300	6503	SO:0001819	synonymous_variant	22949			D49387	CCDS6779.1, CCDS55331.1	9q32	2008-06-04	2008-06-02	2008-06-02	ENSG00000106853	ENSG00000106853	1.3.1.74, 1.3.1.48		18429	protein-coding gene	gene with protein product	"zinc binding alcohol dehydrogenase domain containing 3"	601274	"leukotriene B4 12-hydroxydehydrogenase"	LTB4DH		8576264, 17449869	Standard	NM_001146109		Approved	ZADH3	uc004bfh.2	Q14914	OTTHUMG00000020493	ENST00000407693.2:c.810T>C	9.37:g.114332440A>G		Somatic		WXS	Illumina HiSeq	Phase_1	A8K0N2|B4DPK3|F5GY50|Q8IYQ0|Q9H1X6	Silent	SNP	ENST00000407693.2	37	CCDS6779.1																																																																																				0.547	PTGR1-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053647.2			G	114332440	A	G	114332440	2	3	609	1	0	0	0	0	0	0	0	1	12764	127	5	3		3	PTGR1	9	114332440	Silent	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10	1	114332440	26880991	68	36973	286	2								
GPR21	2844	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	125797664	125797664	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ccatatatcatctacttcttGttggaaagctccactggcca	6	12	3	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr9:125797664G>T	ENST00000373642.1	+	1	859	c.819G>T	c.(817-819)ttG>ttT	p.L273F	RABGAP1_ENST00000373647.4_Intron|RABGAP1_ENST00000493854.1_Intron|RABGAP1_ENST00000373643.5_Intron	NM_005294.1	NP_005285.1	Q99679	GPR21_HUMAN	G protein-coupled receptor 21	273					G-protein coupled receptor signaling pathway (GO:0007186)|glucose homeostasis (GO:0042593)|negative regulation of insulin receptor signaling pathway (GO:0046627)|positive regulation of multicellular organism growth (GO:0040018)	integral component of plasma membrane (GO:0005887)	G-protein coupled receptor activity (GO:0004930)			endometrium(3)|large_intestine(3)|lung(4)|ovary(1)|skin(1)|stomach(1)|urinary_tract(2)	15						TCTACTTCTTGTTGGAAAGCT	0.458																																																0													148	128	135					9																	125797664		2203	4300	6503	SO:0001583	missense	2844			BC066885	CCDS6849.1	9q33	2012-08-21			ENSG00000188394	ENSG00000188394		"GPCR / Class A : Orphans"	4476	protein-coding gene	gene with protein product		601909					Standard	NM_005294		Approved		uc011lzk.3	Q99679	OTTHUMG00000020631	ENST00000373642.1:c.819G>T	9.37:g.125797664G>T	ENSP00000362746:p.Leu273Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8W9|Q6NXU2	Missense_Mutation	SNP	ENST00000373642.1	37	CCDS6849.1	.	.	.	.	.	.	.	.	.	.	G	10.49	1.365299	0.24684	.	.	ENSG00000188394	ENST00000373642	T	0.41758	0.99	5.93	1.91	0.25777	GPCR, rhodopsin-like superfamily (1);	0.281802	0.23228	U	0.050493	T	0.33352	0.0860	M	0.64630	1.985	0.80722	D	1	P	0.41232	0.743	B	0.36244	0.22	T	0.05099	-1.0906	10	0.44086	T	0.13	-6.8862	5.7514	0.18148	0.2774:0.2257:0.4969:0.0	.	273	Q99679	GPR21_HUMAN	F	273	ENSP00000362746:L273F	ENSP00000362746:L273F	L	+	3	2	GPR21	124837485	0.993000	0.37304	0.989000	0.46669	0.976000	0.68499	0.535000	0.23114	0.080000	0.16959	-0.218000	0.12543	TTG		0.458	GPR21-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053965.1	NM_005294		T	125797664	G	T	125797664	3	4	609	1	0	0	0	0	1	0	0	0	6688	1368	48	4	821	4	GPR21	9	125797664	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	11465224	125797664	15415767	69	36974										
SPTAN1	6709	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	131386741	131386741	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttccttcagttcaactggaaGgcggacgtggtggagtcctg	14	9	2	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr9:131386741G>A	ENST00000372731.4	+	45	6062	c.5952G>A	c.(5950-5952)aaG>aaA	p.K1984K	SPTAN1_ENST00000372739.3_Silent_p.K1989K|SPTAN1_ENST00000358161.5_Silent_p.K1989K	NM_001195532.1|NM_003127.3	NP_001182461.1|NP_003118.2	Q13813	SPTN1_HUMAN	spectrin, alpha, non-erythrocytic 1	1984					actin filament capping (GO:0051693)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)	cuticular plate (GO:0032437)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|fascia adherens (GO:0005916)|intracellular membrane-bounded organelle (GO:0043231)|lateral plasma membrane (GO:0016328)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|spectrin (GO:0008091)|vesicle (GO:0031982)|Z disc (GO:0030018)	actin binding (GO:0003779)|calcium ion binding (GO:0005509)|structural constituent of cytoskeleton (GO:0005200)			NS(2)|breast(8)|cervix(2)|endometrium(6)|kidney(4)|large_intestine(21)|liver(1)|lung(25)|ovary(5)|pancreas(1)|prostate(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	87						TCAACTGGAAGGCGGACGTGG	0.562																																					NSCLC(120;833 1744 2558 35612 37579)											0													64	53	57					9																	131386741		2203	4300	6503	SO:0001819	synonymous_variant	6709			M19725	CCDS6905.1, CCDS48036.1, CCDS75914.1	9q34.11	2013-01-10	2012-06-15		ENSG00000197694	ENSG00000197694		"EF-hand domain containing"	11273	protein-coding gene	gene with protein product	"alpha-fodrin"	182810				3336352	Standard	NM_003127		Approved		uc004bvm.4	Q13813	OTTHUMG00000020754	ENST00000372731.4:c.5952G>A	9.37:g.131386741G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q13186|Q15324|Q16606|Q59EF1|Q5VXV5|Q5VXV6|Q7Z6M5|Q9P0V0	Silent	SNP	ENST00000372731.4	37	CCDS6905.1																																																																																				0.562	SPTAN1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054472.1	NM_003127		A	131386741	G	A	131386741	2	1	609	1	0	0	0	0	0	0	0	1	15129	991	35	2		2	SPTAN1	9	131386741	Silent	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	5589077	131386741	9826690	70	36975										
DNAJC1	64215	ucsc.edu	37	chr10	22208842	22208842	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttttcttttctctcttttttCtacttagtagttcatcctta	2	9	5	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr10:22208842C>G	ENST00000376980.3	-	5	844	c.554G>C	c.(553-555)aGa>aCa	p.R185T		NM_022365.3	NP_071760.2	Q96KC8	DNJC1_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 1	185					negative regulation of proteolysis (GO:0045861)|positive regulation of ATPase activity (GO:0032781)|protein folding (GO:0006457)|regulation of protein secretion (GO:0050708)|regulation of translation (GO:0006417)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)	ATPase activator activity (GO:0001671)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)			cervix(1)|endometrium(1)|large_intestine(2)|lung(13)|skin(2)|upper_aerodigestive_tract(2)	21		Breast(68;0.00869)|Prostate(175;0.0181)|Lung SC(717;0.0262)				TCTCTTTTTTCTACTTAGTAG	0.333																																																0													82	87	85					10																	22208842		2201	4293	6494	SO:0001583	missense	64215			AK026062	CCDS7136.1	10p11.23	2011-09-02			ENSG00000136770	ENSG00000136770		"Heat shock proteins / DNAJ (HSP40)"	20090	protein-coding gene	gene with protein product		611207					Standard	NM_022365		Approved	DNAJL1, ERdj1, MTJ1	uc001irc.3	Q96KC8	OTTHUMG00000017800	ENST00000376980.3:c.554G>C	10.37:g.22208842C>G	ENSP00000366179:p.Arg185Thr	Somatic		WXS	Illumina HiSeq		B0YIZ8|Q5VX89|Q9H6B8	Missense_Mutation	SNP	ENST00000376980.3	37	CCDS7136.1	.	.	.	.	.	.	.	.	.	.	C	12.90	2.077825	0.36662	.	.	ENSG00000136770	ENST00000376980	T	0.45668	0.89	5.7	4.79	0.61399	.	0.126969	0.64402	D	0.000001	T	0.30603	0.0770	L	0.38531	1.155	0.80722	D	1	P	0.40144	0.704	B	0.38378	0.272	T	0.02813	-1.1107	10	0.17832	T	0.49	-7.7676	11.1524	0.48466	0.0:0.8588:0.0:0.1412	.	185	Q96KC8	DNJC1_HUMAN	T	185	ENSP00000366179:R185T	ENSP00000366179:R185T	R	-	2	0	DNAJC1	22248848	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	0.912000	0.28597	2.695000	0.91970	0.650000	0.86243	AGA		0.333	DNAJC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047149.1	NM_022365		G	22208842	C	G	22208842	3	3	609	1	0	0	0	0	1	0	0	0	4630	913	32	4	1142	4	DNAJC1	10	22208842	Missense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10		22208842	113325905	71	36976										
KIF5B	3799	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	32320043	32320043	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ctaagcaattcatattccttAgttttgtcttcaacttcctg	4	10	3	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr10:32320043A>G	ENST00000302418.4	-	14	1996	c.1539T>C	c.(1537-1539)acT>acC	p.T513T		NM_004521.2	NP_004512.1	P33176	KINH_HUMAN	kinesin family member 5B	513					ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|cellular protein metabolic process (GO:0044267)|cytoplasm organization (GO:0007028)|cytoskeleton-dependent intracellular transport (GO:0030705)|microtubule-based movement (GO:0007018)|plus-end-directed vesicle transport along microtubule (GO:0072383)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of potassium ion transport (GO:0043268)|regulation of membrane potential (GO:0042391)|stress granule disassembly (GO:0035617)|vesicle transport along microtubule (GO:0047496)	ciliary rootlet (GO:0035253)|cytoplasm (GO:0005737)|endocytic vesicle (GO:0030139)|kinesin complex (GO:0005871)|membrane (GO:0016020)|microtubule (GO:0005874)|microtubule organizing center (GO:0005815)|neuron projection (GO:0043005)|perinuclear region of cytoplasm (GO:0048471)|vesicle (GO:0031982)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule binding (GO:0008017)|microtubule motor activity (GO:0003777)|plus-end-directed microtubule motor activity (GO:0008574)		KIF5B/ALK(8)|KIF5B/RET(79)	NS(2)|breast(1)|endometrium(5)|kidney(2)|large_intestine(12)|lung(11)|ovary(1)|prostate(1)	35		Prostate(175;0.0137)				CATATTCCTTAGTTTTGTCTT	0.313			T	"RET, ALK"	NSCLC																																		Dom	yes		10	10p11.22	3799	kinesin family member 5B		E	0													103	101	102					10																	32320043		2203	4300	6503	SO:0001819	synonymous_variant	3799			X65873	CCDS7171.1	10p11.22	2007-02-13			ENSG00000170759	ENSG00000170759		"Kinesins"	6324	protein-coding gene	gene with protein product		602809		KNS1		1607388	Standard	NM_004521		Approved	KNS	uc001iwe.4	P33176	OTTHUMG00000017913	ENST00000302418.4:c.1539T>C	10.37:g.32320043A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0AVB2|Q5VZ85	Silent	SNP	ENST00000302418.4	37	CCDS7171.1																																																																																				0.313	KIF5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047467.1	NM_004521		G	32320043	A	G	32320043	2	3	609	1	0	0	0	0	0	0	0	1	8313	407	15	3		3	KIF5B	10	32320043	Silent	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10	10111201	32320043	103214704	72	36977										
CYP26A1	1592	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	94834101	94834101	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	agatgaagcgcaggaaatacGgcttcatctacaagacgcat	10	9	2	3			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr10:94834101G>A	ENST00000224356.4	+	2	271	c.226G>A	c.(226-228)Ggc>Agc	p.G76S	CYP26A1_ENST00000394139.1_Missense_Mutation_p.G7S|CYP26A1_ENST00000371531.1_Missense_Mutation_p.G7S	NM_000783.3	NP_000774.2	O43174	CP26A_HUMAN	cytochrome P450, family 26, subfamily A, polypeptide 1	76					anterior/posterior pattern specification (GO:0009952)|cellular response to retinoic acid (GO:0071300)|central nervous system development (GO:0007417)|metabolic process (GO:0008152)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|neural crest cell development (GO:0014032)|retinoic acid catabolic process (GO:0034653)|retinoic acid receptor signaling pathway (GO:0048384)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)	heme binding (GO:0020037)|iron ion binding (GO:0005506)|oxygen binding (GO:0019825)|retinoic acid 4-hydroxylase activity (GO:0008401)|retinoic acid binding (GO:0001972)			breast(1)|endometrium(1)|large_intestine(4)|lung(5)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	16		Colorectal(252;0.122)			Acitretin(DB00459)|Ketoconazole(DB01026)|Vitamin A(DB00162)	CAGGAAATACGGCTTCATCTA	0.657																																																0													53	56	55					10																	94834101		2203	4300	6503	SO:0001583	missense	1592			AF005418	CCDS7426.1, CCDS7427.1	10q23-q24	2003-10-06	2003-01-14		ENSG00000095596	ENSG00000095596		"Cytochrome P450s"	2603	protein-coding gene	gene with protein product		602239	"cytochrome P450, subfamily XXVIA, polypeptide 1"			9228017, 9521883	Standard	NM_000783		Approved	P450RAI, CP26, CYP26, P450RAI1	uc001kil.2	O43174	OTTHUMG00000018765	ENST00000224356.4:c.226G>A	10.37:g.94834101G>A	ENSP00000224356:p.Gly76Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KNI4|Q5VXH9|Q5VXI0	Missense_Mutation	SNP	ENST00000224356.4	37	CCDS7426.1	.	.	.	.	.	.	.	.	.	.	G	34	5.324133	0.95708	.	.	ENSG00000095596	ENST00000371531;ENST00000224356;ENST00000394139	T;T;T	0.78003	-1.14;-1.14;-1.14	5.17	5.17	0.71159	.	0.000000	0.85682	D	0.000000	D	0.85504	0.5712	L	0.52759	1.655	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.84672	0.0712	10	0.45353	T	0.12	-21.1018	18.8725	0.92320	0.0:0.0:1.0:0.0	.	76	O43174	CP26A_HUMAN	S	7;76;7	ENSP00000360586:G7S;ENSP00000224356:G76S;ENSP00000377695:G7S	ENSP00000224356:G76S	G	+	1	0	CYP26A1	94824091	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.187000	0.94912	2.711000	0.92665	0.561000	0.74099	GGC		0.657	CYP26A1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049408.3			A	94834101	G	A	94834101	3	1	609	1	0	0	0	0	1	0	0	0	4157	1116	39	1	232	1	CYP26A1	10	94834101	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	62514058	94834101	40700646	73	36978										
LGI1	9211	hgsc.bcm.edu	37	chr10	95549895	95549895	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ctccagacactcccaaaagaTattttcaaaggcctggattc	6	12	1	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr10:95549895T>C	ENST00000371418.4	+	5	731	c.471T>C	c.(469-471)gaT>gaC	p.D157D	LGI1_ENST00000371413.3_Silent_p.D157D|LGI1_ENST00000542308.1_Silent_p.D109D	NM_005097.2	NP_005088.1	O95970	LGI1_HUMAN	leucine-rich, glioma inactivated 1	157					axon guidance (GO:0007411)|cell proliferation (GO:0008283)|nervous system development (GO:0007399)|neuron projection development (GO:0031175)|positive regulation of cell growth (GO:0030307)|positive regulation of synaptic transmission (GO:0050806)|protein homooligomerization (GO:0051260)	cell junction (GO:0030054)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|synapse (GO:0045202)	receptor binding (GO:0005102)			central_nervous_system(1)|endometrium(1)|large_intestine(6)|lung(18)|ovary(2)|skin(1)	29		Colorectal(252;0.124)				TCCCAAAAGATATTTTCAAAG	0.328																																																0													54	57	56					10																	95549895		2203	4299	6502	SO:0001819	synonymous_variant	9211			AF055636	CCDS7431.1	10q24	2008-08-01	2002-06-05		ENSG00000108231	ENSG00000108231			6572	protein-coding gene	gene with protein product		604619	"epilepsy, partial"	EPT		9879993, 11978770, 15079011	Standard	NM_005097		Approved	IB1099, ETL1, EPITEMPIN	uc001kjc.4	O95970	OTTHUMG00000018777	ENST00000371418.4:c.471T>C	10.37:g.95549895T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0Z1|B4E1S0|Q5W001|Q5W002|Q8NI23|Q96LF5	Silent	SNP	ENST00000371418.4	37	CCDS7431.1																																																																																				0.328	LGI1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049445.1	NM_005097		C	95549895	T	C	95549895	2	2	609	1	0	0	0	0	0	0	0	1	8758	1403	49	3		3	LGI1	10	95549895	Silent	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	715794	95549895	39984852	74	36979										
SEMA4G	57715	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	102738660	102738660	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gagcaaggccagtgcagtggGtgatgatgacaaggtgtact	16	6	0	3			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr10:102738660G>A	ENST00000370250.4	+	7	1071	c.698G>A	c.(697-699)gGt>gAt	p.G233D	SEMA4G_ENST00000519756.1_Intron|MRPL43_ENST00000318325.2_3'UTR|MRPL43_ENST00000370241.3_3'UTR|RP11-108L7.4_ENST00000447344.1_RNA|SEMA4G_ENST00000517724.1_Missense_Mutation_p.G233D|SEMA4G_ENST00000210633.3_Missense_Mutation_p.G233D	NM_017893.3	NP_060363.2	Q9NTN9	SEM4G_HUMAN	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4G	233	Sema. {ECO:0000255|PROSITE- ProRule:PRU00352}.				cell differentiation (GO:0030154)|nervous system development (GO:0007399)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	receptor activity (GO:0004872)			breast(3)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(9)|lung(5)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	25		Colorectal(252;0.234)		Epithelial(162;3.71e-09)|all cancers(201;2.1e-07)		AGTGCAGTGGGTGATGATGAC	0.587																																																0													84	65	71					10																	102738660		2203	4300	6503	SO:0001583	missense	57715			AB046839	CCDS7501.1, CCDS55724.1	10q24.31	2013-01-11			ENSG00000095539	ENSG00000095539		"Semaphorins", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	10735	protein-coding gene	gene with protein product							Standard	NM_017893		Approved	FLJ20590, KIAA1619	uc001krw.2	Q9NTN9	OTTHUMG00000018922	ENST00000370250.4:c.698G>A	10.37:g.102738660G>A	ENSP00000359270:p.Gly233Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A1A5C6|A6NJY8|Q58EY1|Q9HCF3	Missense_Mutation	SNP	ENST00000370250.4	37		.	.	.	.	.	.	.	.	.	.	G	23.0	4.363918	0.82353	.	.	ENSG00000095539	ENST00000519649;ENST00000457585;ENST00000370250;ENST00000517724;ENST00000210633	T;T;T;T	0.29917	1.55;1.55;1.55;1.55	5.74	4.84	0.62591	WD40/YVTN repeat-like-containing domain (1);Semaphorin/CD100 antigen (4);	0.050938	0.85682	D	0.000000	T	0.52805	0.1757	M	0.68952	2.095	0.80722	D	1	D;D;D	0.89917	1.0;1.0;0.984	D;D;P	0.97110	1.0;1.0;0.907	T	0.53049	-0.8493	10	0.45353	T	0.12	.	13.9543	0.64137	0.0731:0.0:0.9269:0.0	.	233;233;233	Q9NTN9;A1A5C6;Q9NTN9-2	SEM4G_HUMAN;.;.	D	233	ENSP00000428896:G233D;ENSP00000359270:G233D;ENSP00000430175:G233D;ENSP00000210633:G233D	ENSP00000210633:G233D	G	+	2	0	SEMA4G	102728650	1.000000	0.71417	0.959000	0.39883	0.876000	0.50452	7.636000	0.83301	1.433000	0.47394	0.484000	0.47621	GGT		0.587	SEMA4G-002	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000049920.2			A	102738660	G	A	102738660	3	1	609	1	0	0	0	0	1	0	0	0	14049	1261	44	2	724	2	SEMA4G	10	102738660	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	7188765	102738660	32796087	75	36980										
PPRC1	23082	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	103899235	103899235	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tgcccaacctcacccacctgGcatcacttgaggatgagctt	8	15	2	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr10:103899235G>A	ENST00000278070.2	+	5	1009	c.970G>A	c.(970-972)Gca>Aca	p.A324T	PPRC1_ENST00000370012.1_5'Flank|PPRC1_ENST00000413464.2_Missense_Mutation_p.A324T	NM_015062.3	NP_055877.3	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor gamma, coactivator-related 1	324					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			central_nervous_system(1)|cervix(1)|endometrium(9)|kidney(5)|large_intestine(10)|lung(19)|ovary(1)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	56		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		CACCCACCTGGCATCACTTGA	0.602																																																0													90	77	81					10																	103899235		2203	4300	6503	SO:0001583	missense	23082			AF325193	CCDS7529.1, CCDS73186.1	10q24.32	2013-02-12	2006-10-17		ENSG00000148840	ENSG00000148840		"RNA binding motif (RRM) containing"	30025	protein-coding gene	gene with protein product			"peroxisome proliferative activated receptor, gamma, coactivator-related 1"			9628581, 11340167	Standard	XM_005269656		Approved	PRC, KIAA0595, MGC74642	uc001kum.3	Q5VV67	OTTHUMG00000018948	ENST00000278070.2:c.970G>A	10.37:g.103899235G>A	ENSP00000278070:p.Ala324Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VV66|Q6P3U5|Q6P3W1|Q76N31|Q9BUJ3|Q9BZE5|Q9Y4E0	Missense_Mutation	SNP	ENST00000278070.2	37	CCDS7529.1	.	.	.	.	.	.	.	.	.	.	G	7.563	0.665151	0.14710	.	.	ENSG00000148840	ENST00000278070;ENST00000413464	T;T	0.53857	0.6;0.6	5.87	1.18	0.20946	.	0.908110	0.09536	N	0.788858	T	0.27205	0.0667	N	0.08118	0	0.09310	N	1	B;B;B	0.06786	0.0;0.001;0.0	B;B;B	0.04013	0.001;0.001;0.0	T	0.20773	-1.0265	10	0.20519	T	0.43	.	4.8401	0.13485	0.2462:0.0:0.584:0.1699	.	324;204;324	E7EVG6;Q5VV67-2;Q5VV67	.;.;PPRC1_HUMAN	T	324	ENSP00000278070:A324T;ENSP00000399743:A324T	ENSP00000278070:A324T	A	+	1	0	PPRC1	103889225	0.825000	0.29262	0.862000	0.33874	0.407000	0.30961	1.093000	0.30939	0.240000	0.21263	-0.350000	0.07774	GCA		0.602	PPRC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050021.1	NM_015062		A	103899235	G	A	103899235	3	1	609	1	0	0	0	0	1	0	0	0	12420	1203	42	2	988	2	PPRC1	10	103899235	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	1160575	103899235	31635512	76	36981										
DMBT1	1755	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	124339398	124339398	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	aactgtggccatagtgaagaCgctggtgtcatctgctcagg	13	9	3	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr10:124339398C>G	ENST00000338354.3	+	10	1090	c.984C>G	c.(982-984)gaC>gaG	p.D328E	DMBT1_ENST00000344338.3_Missense_Mutation_p.D328E|DMBT1_ENST00000368909.3_Missense_Mutation_p.D328E|DMBT1_ENST00000359586.6_Intron|DMBT1_ENST00000368955.3_Missense_Mutation_p.D328E|DMBT1_ENST00000330163.4_Missense_Mutation_p.D328E|DMBT1_ENST00000368956.2_Missense_Mutation_p.D328E			Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1	328	SRCR 2. {ECO:0000255|PROSITE- ProRule:PRU00196}.				defense response to virus (GO:0051607)|epithelial cell differentiation (GO:0030855)|induction of bacterial agglutination (GO:0043152)|innate immune response (GO:0045087)|inner cell mass cell proliferation (GO:0001833)|pattern recognition receptor signaling pathway (GO:0002221)|positive regulation of epithelial cell differentiation (GO:0030858)|protein transport (GO:0015031)|receptor-mediated endocytosis (GO:0006898)|viral process (GO:0016032)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|phagocytic vesicle membrane (GO:0030670)|proteinaceous extracellular matrix (GO:0005578)|zymogen granule membrane (GO:0042589)	calcium-dependent protein binding (GO:0048306)|scavenger receptor activity (GO:0005044)|signaling pattern recognition receptor activity (GO:0008329)|zymogen binding (GO:0035375)			breast(2)|central_nervous_system(7)|cervix(3)|endometrium(8)|kidney(1)|large_intestine(1)|lung(46)|prostate(1)|urinary_tract(3)	72		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				ATAGTGAAGACGCTGGTGTCA	0.532																																					Ovarian(182;93 2026 18125 22222 38972)											0													82	81	81					10																	124339398		1908	4138	6046	SO:0001583	missense	1755				CCDS44490.1, CCDS44491.1, CCDS44492.1	10q25.3-q26.1	2008-08-01			ENSG00000187908	ENSG00000187908			2926	protein-coding gene	gene with protein product		601969				9288095, 17548659	Standard	NM_004406		Approved	GP340, muclin	uc001lgk.1	Q9UGM3	OTTHUMG00000019185	ENST00000338354.3:c.984C>G	10.37:g.124339398C>G	ENSP00000342210:p.Asp328Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDG4|A6NDJ5|A8E4R5|B1ARE7|B1ARE8|B1ARE9|B1ARF0|B7Z8Y2|F8WEF7|Q59EX0|Q5JR26|Q6MZN4|Q96DU4|Q9UGM2|Q9UJ57|Q9UKJ4|Q9Y211|Q9Y4V9	Missense_Mutation	SNP	ENST00000338354.3	37		.	.	.	.	.	.	.	.	.	.	c	16.17	3.046172	0.55110	.	.	ENSG00000187908	ENST00000338354;ENST00000368915;ENST00000341278;ENST00000368953;ENST00000339871;ENST00000368942;ENST00000327438;ENST00000344338;ENST00000339712;ENST00000330163;ENST00000368909;ENST00000368955;ENST00000368956	T;T;T;T;T;T	0.52526	0.66;0.66;0.66;0.66;0.66;0.66	3.94	-7.88	0.01178	Speract/scavenger receptor (2);Speract/scavenger receptor-related (2);	.	.	.	.	T	0.74741	0.3756	H	0.95504	3.68	0.80722	D	1	D;D;D;D;D	0.89917	1.0;0.999;1.0;0.999;1.0	D;D;D;D;D	0.97110	1.0;0.996;0.98;0.997;0.999	D	0.85967	0.1474	9	0.66056	D	0.02	.	19.1418	0.93449	0.0:0.092:0.0:0.908	.	328;328;328;328;328	Q9UGM3-4;Q9UGM3-6;Q9UGM3-2;Q9UGM3-3;Q9UGM3	.;.;.;.;DMBT1_HUMAN	E	328	ENSP00000342210:D328E;ENSP00000343175:D328E;ENSP00000327747:D328E;ENSP00000357905:D328E;ENSP00000357951:D328E;ENSP00000357952:D328E	ENSP00000331522:D328E	D	+	3	2	DMBT1	124329388	0.017000	0.18338	0.000000	0.03702	0.118000	0.20060	-1.037000	0.03557	-3.153000	0.00230	-1.386000	0.01163	GAC		0.532	DMBT1-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000050792.2	NM_004406		G	124339398	C	G	124339398	3	3	609	1	0	0	0	0	1	0	0	0	4579	535	19	4	1022	4	DMBT1	10	124339398	Missense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	20440163	124339398	11195349	77	36982										
C2CD3	26005	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	73748552	73748561	+	Frame_Shift_Del	DEL	AGGTTACTGG	AGGTTACTGG	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	aggagctgacttgcaacaccAggttactggatttctccagg					rs146977583		TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	AGGTTACTGG	AGGTTACTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr11:73748552_73748561delAGGTTACTGG	ENST00000334126.7	-	30	6069_6078	c.5843_5852delCCAGTAACCT	c.(5842-5853)tccagtaacctgfs	p.SSNL1948fs	C2CD3_ENST00000313663.7_Frame_Shift_Del_p.SSNL1948fs			Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1948					brain development (GO:0007420)|centriole elongation (GO:0061511)|embryonic digit morphogenesis (GO:0042733)|heart looping (GO:0001947)|in utero embryonic development (GO:0001701)|neural plate axis specification (GO:0021997)|neural tube development (GO:0021915)|nonmotile primary cilium assembly (GO:0035058)|protein localization to centrosome (GO:0071539)|protein processing (GO:0016485)|regulation of proteolysis (GO:0030162)|regulation of smoothened signaling pathway (GO:0008589)	centriolar satellite (GO:0034451)|centriole (GO:0005814)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)				NS(1)|breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(16)|lung(26)|ovary(4)|pancreas(2)|prostate(1)|skin(3)	64	Breast(11;4.16e-06)					TTGCAACACCAGGTTACTGGATTTCTCCAG	0.49																																																0																																										SO:0001589	frameshift_variant	26005			BC035599	CCDS31636.1, CCDS66167.1	11q13.4	2014-02-12	2007-10-17		ENSG00000168014	ENSG00000168014			24564	protein-coding gene	gene with protein product		615944					Standard	XM_005273897		Approved	DKFZP586P0123	uc001ouu.2	Q4AC94	OTTHUMG00000168110	ENST00000334126.7:c.5843_5852delCCAGTAACCT	11.37:g.73748552_73748561delAGGTTACTGG	ENSP00000334379:p.Ser1948fs	Somatic		WXS	Illumina HiSeq	Phase_I	C9JR55|E2QRD1|Q2NLE1|Q3C1U9|Q6ZU92|Q8IYM4|Q8NB87|Q8NDH7|Q9Y4M2	Frame_Shift_Del	DEL	ENST00000334126.7	37																																																																																					0.49	C2CD3-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_015531		-	73748561	AGGTTACTGG	-	73748552	7	5	609	1	0	1	0	1	0	0	0	0	2156	188	7	0	47	0	C2CD3	11	73748552	Frame_Shift_Del	DEL	AGGTTACTGG	TCGA-HE-A5NI-01A-11D-A26P-10		73748552	61257964	78	36983										
NAALAD2	10003	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	89896525	89896525	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gggactcctgggtatttggaGctattgacccaaccagtggg	14	9	0	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr11:89896525G>A	ENST00000534061.1	+	10	1353	c.1123G>A	c.(1123-1125)Gct>Act	p.A375T	NAALAD2_ENST00000321955.4_Missense_Mutation_p.A342T|NAALAD2_ENST00000375944.3_Intron|NAALAD2_ENST00000525171.1_Missense_Mutation_p.A282T	NM_005467.3	NP_005458.1	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	375	NAALADase.				neurotransmitter catabolic process (GO:0042135)|proteolysis (GO:0006508)	integral component of membrane (GO:0016021)	carboxypeptidase activity (GO:0004180)|dipeptidase activity (GO:0016805)|dipeptidyl-peptidase activity (GO:0008239)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)|N-formylglutamate deformylase activity (GO:0050129)|serine-type peptidase activity (GO:0008236)			NS(1)|breast(1)|endometrium(1)|kidney(1)|large_intestine(12)|lung(32)|pancreas(1)|prostate(3)|skin(5)|stomach(2)	59		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				GGTATTTGGAGCTATTGACCC	0.403																																																0													122	129	126					11																	89896525		2201	4299	6500	SO:0001583	missense	10003			AJ012370	CCDS8288.1, CCDS73364.1	11q14.3-q21	2011-08-16			ENSG00000077616	ENSG00000077616	3.4.17.21		14526	protein-coding gene	gene with protein product	"glutamate carboxypeptidase III"	611636				10085079	Standard	NM_005467		Approved	NAALADASE2, NAADALASE2, GPCIII	uc001pdf.4	Q9Y3Q0	OTTHUMG00000166368	ENST00000534061.1:c.1123G>A	11.37:g.89896525G>A	ENSP00000432481:p.Ala375Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQR4|Q4KKV4|Q4VAM9	Missense_Mutation	SNP	ENST00000534061.1	37	CCDS8288.1	.	.	.	.	.	.	.	.	.	.	G	18.74	3.688939	0.68271	.	.	ENSG00000077616	ENST00000534061;ENST00000321955;ENST00000525171	T;T;T	0.65364	-0.15;-0.15;-0.15	5.51	4.61	0.57282	Peptidase M28 (1);	0.502085	0.19690	N	0.108285	T	0.69975	0.3171	M	0.83012	2.62	0.80722	D	1	P;B	0.45283	0.855;0.001	P;B	0.45753	0.492;0.004	T	0.73726	-0.3892	9	.	.	.	-1.5086	14.2116	0.65769	0.0725:0.0:0.9275:0.0	.	375;282	Q9Y3Q0;E9PKX5	NALD2_HUMAN;.	T	375;342;282	ENSP00000432481:A375T;ENSP00000320083:A342T;ENSP00000435249:A282T	.	A	+	1	0	NAALAD2	89536173	1.000000	0.71417	0.972000	0.41901	0.993000	0.82548	7.040000	0.76551	1.467000	0.48044	-0.218000	0.12543	GCT		0.403	NAALAD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389424.2	NM_005467		A	89896525	G	A	89896525	3	1	609	1	0	0	0	0	1	0	0	0	10135	971	34	2	1161	2	NAALAD2	11	89896525	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	16147973	89896525	45109991	79	36984										
GPRC5D	55507	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	13102558	13102558	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cagggacgatgtacagcagcAggaaaacccatgcgttggtg	14	9	0	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr12:13102558A>T	ENST00000228887.1	-	1	760	c.761T>A	c.(760-762)cTg>cAg	p.L254Q	RP11-392P7.6_ENST00000536029.1_RNA|RP11-392P7.6_ENST00000394742.3_RNA|RP11-392P7.6_ENST00000538231.1_RNA|RP11-392P7.6_ENST00000543515.2_RNA|RP11-392P7.6_ENST00000545914.1_RNA|GPRC5D_ENST00000396333.3_Missense_Mutation_p.L254Q|RP11-392P7.6_ENST00000540198.1_RNA|RP11-392P7.6_ENST00000542078.1_RNA	NM_018654.1	NP_061124.1	Q9NZD1	GPC5D_HUMAN	G protein-coupled receptor, class C, group 5, member D	254						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			kidney(2)|large_intestine(2)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	9		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.15)		GTACAGCAGCAGGAAAACCCA	0.577																																																0													144	132	136					12																	13102558		2203	4300	6503	SO:0001583	missense	55507			AF209923	CCDS8658.1	12p13.3	2014-01-30	2014-01-30		ENSG00000111291	ENSG00000111291		"GPCR / Class C : Orphans"	13310	protein-coding gene	gene with protein product		607437	"G protein-coupled receptor, family C, group 5, member D"				Standard	XM_005253421		Approved		uc010shp.2	Q9NZD1	OTTHUMG00000168711	ENST00000228887.1:c.761T>A	12.37:g.13102558A>T	ENSP00000228887:p.Leu254Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q3KNV3|Q7Z5J9|Q8TDS6	Missense_Mutation	SNP	ENST00000228887.1	37	CCDS8658.1	.	.	.	.	.	.	.	.	.	.	A	25.9	4.684961	0.88639	.	.	ENSG00000111291	ENST00000228887;ENST00000396333	D;D	0.94793	-3.52;-3.52	6.03	6.03	0.97812	GPCR, family 3, C-terminal (1);	0.000000	0.56097	D	0.000037	D	0.97269	0.9107	M	0.80183	2.485	0.51767	D	0.999936	D	0.89917	1.0	D	0.97110	1.0	D	0.97842	1.0269	10	0.87932	D	0	.	16.5655	0.84588	1.0:0.0:0.0:0.0	.	254	Q9NZD1	GPC5D_HUMAN	Q	254	ENSP00000228887:L254Q;ENSP00000379624:L254Q	ENSP00000228887:L254Q	L	-	2	0	GPRC5D	12993825	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	9.300000	0.96151	2.302000	0.77476	0.533000	0.62120	CTG		0.577	GPRC5D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400687.1			T	13102558	A	T	13102558	3	4	609	1	0	0	0	0	1	0	0	0	6734	188	7	5	286	5	GPRC5D	12	13102558	Missense_Mutation	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10		13102558	120749337	80	36985										
PDZRN4	29951	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	41966603	41966603	+	Frame_Shift_Del	DEL	A	A	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttgcttaatgaagaactgagAaacattgagcttgagtgtca							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr12:41966603delA	ENST00000402685.2	+	10	2030	c.2022delA	c.(2020-2022)agafs	p.R674fs	PDZRN4_ENST00000539469.2_Frame_Shift_Del_p.R416fs|PDZRN4_ENST00000298919.7_Frame_Shift_Del_p.R414fs	NM_001164595.1	NP_001158067.1	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing ring finger 4	674							ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(23)|lung(29)|ovary(3)|pancreas(1)|prostate(2)|skin(4)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	77	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				AAGAACTGAGAAACATTGAGC	0.458																																																0													112	100	104					12																	41966603		2203	4300	6503	SO:0001589	frameshift_variant	29951			AK094690	CCDS8739.1, CCDS53777.1	12q12	2008-08-14	2008-08-14			ENSG00000165966		"RING-type (C3HC4) zinc fingers"	30552	protein-coding gene	gene with protein product	"similar to semaF cytoplasmic domain associated protein 3"	609730				11230166, 15010864	Standard	NM_013377		Approved	DKFZp434B0417, LNX4, FLJ33777, IMAGE5767589	uc010skn.2	Q6ZMN7		ENST00000402685.2:c.2022delA	12.37:g.41966603delA	ENSP00000384197:p.Arg674fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LY3|Q52LY4|Q6N052|Q8IUU1|Q9NTP7	Frame_Shift_Del	DEL	ENST00000402685.2	37	CCDS53777.1																																																																																				0.458	PDZRN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403701.1	NM_013377		-	41966603	A	-	41966603	7	5	609	1	0	1	0	1	0	0	0	0	11717	243	9	0	2133	0	PDZRN4	12	41966603	Frame_Shift_Del	DEL	A	TCGA-HE-A5NI-01A-11D-A26P-10	28864045	41966603	91885292	81	36986										
GALNT6	11226	broad.mit.edu;bcgsc.ca	37	chr12	51751976	51751982	+	Frame_Shift_Del	DEL	ACCAGGA	ACCAGGA	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tgggtagacattgtgcaggtAccaggaaaagttgtgacagt							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	ACCAGGA	ACCAGGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr12:51751976_51751982delACCAGGA	ENST00000543196.2	-	8	1637_1643	c.1432_1438delTCCTGGT	c.(1432-1440)tcctggtacfs	p.SWY478fs	GALNT6_ENST00000356317.3_Frame_Shift_Del_p.SWY478fs			Q8NCL4	GALT6_HUMAN	polypeptide N-acetylgalactosaminyltransferase 6	478					cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein O-linked glycosylation (GO:0006493)	Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			endometrium(2)|large_intestine(6)|lung(7)|ovary(3)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	27						TTGTGCAGGTACCAGGAAAAGTTGTGA	0.517																																																0																																										SO:0001589	frameshift_variant	11226			Y08565	CCDS8813.1	12q13	2014-03-13	2014-03-13		ENSG00000139629	ENSG00000139629		"Glycosyltransferase family 2 domain containing"	4128	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 6"	605148	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 6 (GalNAc-T6)"			10464263	Standard	NM_007210		Approved	GalNAc-T6	uc001ryl.1	Q8NCL4		ENST00000543196.2:c.1432_1438delTCCTGGT	12.37:g.51751976_51751982delACCAGGA	ENSP00000444171:p.Ser478fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYH4|Q9H6G2|Q9UIV5	Frame_Shift_Del	DEL	ENST00000543196.2	37	CCDS8813.1																																																																																				0.517	GALNT6-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000469735.1	NM_007210		-	51751982	ACCAGGA	-	51751976	7	5	609	1	0	1	0	1	0	0	0	0	6224	391	14	0	446	0	GALNT6	12	51751976	Frame_Shift_Del	DEL	ACCAGGA	TCGA-HE-A5NI-01A-11D-A26P-10	9785373	51751976	82099919	82	36987										
SP7	121340	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	53722359	53722359	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cagctgtggatgggcttcttCcgcagcccagccgctgctgc	13	15	1	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr12:53722359C>T	ENST00000536324.2	-	3	1150	c.867G>A	c.(865-867)cgG>cgA	p.R289R	SP7_ENST00000303846.3_Silent_p.R289R|SP7_ENST00000537210.2_Silent_p.R271R	NM_001173467.1	NP_001166938.1	Q8TDD2	SP7_HUMAN	Sp7 transcription factor	289					hematopoietic stem cell differentiation (GO:0060218)|osteoblast differentiation (GO:0001649)|positive regulation of stem cell differentiation (GO:2000738)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DEAD/H-box RNA helicase binding (GO:0017151)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)			cervix(2)|large_intestine(3)|lung(7)|skin(1)|urinary_tract(1)	14						TGGGCTTCTTCCGCAGCCCAG	0.657																																																0													17	22	20					12																	53722359		2187	4292	6479	SO:0001819	synonymous_variant	121340			AF477981	CCDS44897.1, CCDS73475.1	12q13.13	2013-01-08				ENSG00000170374		"Specificity protein transcription factors", "Zinc fingers, C2H2-type"	17321	protein-coding gene	gene with protein product		606633				11792318	Standard	NM_152860		Approved	osterix, OSX	uc001sct.3	Q8TDD2		ENST00000536324.2:c.867G>A	12.37:g.53722359C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KY26|Q3MJ72|Q7Z718	Silent	SNP	ENST00000536324.2	37	CCDS44897.1																																																																																				0.657	SP7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406917.1			T	53722359	C	T	53722359	2	4	609	1	0	0	0	0	0	0	0	1	14982	842	30	2		2	SP7	12	53722359	Silent	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	1970383	53722359	80129536	83	36988										
DNAJC14	85406	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	56216194	56216194	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gcctggaatccgagaaccaaAtgagatgtgataggggactc	13	8	0	3			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr12:56216194A>G	ENST00000357606.3	-	7	2150	c.1861T>C	c.(1861-1863)Ttt>Ctt	p.F621L	RP11-762I7.5_ENST00000552719.1_5'UTR|RP11-762I7.5_ENST00000546837.1_Missense_Mutation_p.I250T|DNAJC14_ENST00000317287.5_Missense_Mutation_p.F621L|DNAJC14_ENST00000317269.3_Missense_Mutation_p.F621L			Q6Y2X3	DJC14_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 14	621					protein transport (GO:0015031)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)				breast(2)|kidney(1)|large_intestine(8)|lung(7)|ovary(3)|prostate(1)|skin(1)	23						CGAGAACCAAATGAGATGTGA	0.463											OREG0021910	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													107	112	110					12																	56216194		2203	4300	6503	SO:0001583	missense	85406			AF141342	CCDS8894.1	12q12	2011-09-02				ENSG00000135392		"Heat shock proteins / DNAJ (HSP40)"	24581	protein-coding gene	gene with protein product		606092				11331877, 11984006	Standard	NM_032364		Approved	DNAJ, DRIP78, HDJ3, LIP6, FLJ32792	uc001shu.2	Q6Y2X3		ENST00000357606.3:c.1861T>C	12.37:g.56216194A>G	ENSP00000350223:p.Phe621Leu	Somatic	1013	WXS	Illumina HiSeq	Phase_I	A5YM67|Q17RY2|Q66K17|Q96N59|Q96T63	Missense_Mutation	SNP	ENST00000357606.3	37	CCDS8894.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	23.5|23.5	4.424150|4.424150	0.83667|0.83667	.|.	.|.	ENSG00000135392|ENSG00000257390	ENST00000357606;ENST00000317269;ENST00000537962;ENST00000317287;ENST00000540330|ENST00000546837	T;T;T|.	0.33216|.	1.42;1.42;1.42|.	5.73|5.73	5.73|5.73	0.89815|0.89815	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.53481|0.53481	0.1799|0.1799	L|L	0.28014|0.28014	0.82|0.82	0.58432|0.58432	D|D	0.999997|0.999997	D;D|.	0.71674|.	0.998;0.998|.	D;D|.	0.72625|.	0.978;0.978|.	T|T	0.50285|0.50285	-0.8846|-0.8846	10|5	0.29301|.	T|.	0.29|.	-12.4258|-12.4258	14.2815|14.2815	0.66216|0.66216	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	621;621|.	Q6Y2X3;A8K5A7|.	DJC14_HUMAN;.|.	L|T	621;621;331;621;117|250	ENSP00000350223:F621L;ENSP00000316240:F621L;ENSP00000317500:F621L|.	ENSP00000316240:F621L|.	F|I	-|-	1|2	0|0	DNAJC14|RP11-762I7.5	54502461|54502461	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.995000|0.995000	0.86356|0.86356	8.512000|8.512000	0.90538|0.90538	2.324000|2.324000	0.78689|0.78689	0.533000|0.533000	0.62120|0.62120	TTT|ATT		0.463	DNAJC14-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409095.1	NM_032364		G	56216194	A	G	56216194	3	3	609	1	0	0	0	0	1	0	0	0	4635	101	4	3	255	3	DNAJC14	12	56216194	Missense_Mutation	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10	2493835	56216194	77635701	84	36989										
DPY19L2	283417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	63991615	63991615	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttccatgaagtcaaattcggGagcacaggtatatattaaag	9	6	1	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr12:63991615G>A	ENST00000324472.4	-	14	1618	c.1435C>T	c.(1435-1437)Ccc>Tcc	p.P479S		NM_173812.4	NP_776173.3	Q6NUT2	D19L2_HUMAN	dpy-19-like 2 (C. elegans)	479					multicellular organismal development (GO:0007275)|spermatid development (GO:0007286)	integral component of membrane (GO:0016021)|nuclear inner membrane (GO:0005637)|nucleus (GO:0005634)	transferase activity, transferring glycosyl groups (GO:0016757)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(8)|lung(19)|ovary(1)|prostate(5)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	45			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		TCAAATTCGGGAGCACAGGTA	0.323																																																0													53	58	56					12																	63991615		2202	4287	6489	SO:0001583	missense	283417				CCDS31851.1	12q14.2	2012-11-14			ENSG00000177990	ENSG00000177990			19414	protein-coding gene	gene with protein product	"spermatogenesis associated 34"	613893				12975309	Standard	XM_006719348		Approved	FLJ32949, SPATA34	uc001srp.1	Q6NUT2	OTTHUMG00000168712	ENST00000324472.4:c.1435C>T	12.37:g.63991615G>A	ENSP00000315988:p.Pro479Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A4FVC1|B4E191|Q3ZCX2|Q6UWG8|Q96LZ9	Missense_Mutation	SNP	ENST00000324472.4	37	CCDS31851.1	.	.	.	.	.	.	.	.	.	.	G	15.22	2.769090	0.49680	.	.	ENSG00000177990	ENST00000324472	T	0.54071	0.59	3.15	2.22	0.28083	.	0.062767	0.64402	U	0.000008	T	0.51991	0.1707	M	0.71581	2.175	0.58432	D	0.999999	B	0.25272	0.122	B	0.36186	0.219	T	0.44050	-0.9353	9	.	.	.	.	8.3442	0.32263	0.0:0.2427:0.7573:0.0	.	479	Q6NUT2	D19L2_HUMAN	S	479	ENSP00000315988:P479S	.	P	-	1	0	DPY19L2	62277882	1.000000	0.71417	0.698000	0.30274	0.953000	0.61014	2.632000	0.46511	0.619000	0.30197	0.586000	0.80456	CCC		0.323	DPY19L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400689.2	NM_173812		A	63991615	G	A	63991615	3	1	609	1	0	0	0	0	1	0	0	0	4743	1174	41	2	877	2	DPY19L2	12	63991615	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	7775421	63991615	69860280	85	36990										
TMPO	7112	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	98925573	98925573	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tcagcagaaaatacaaggcaGaatggaagtaatgattctga	10	5	2	4			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr12:98925573G>C	ENST00000556029.1	+	3	878	c.522G>C	c.(520-522)caG>caC	p.Q174H	TMPO_ENST00000343315.5_Missense_Mutation_p.Q174H|TMPO_ENST00000266732.4_Missense_Mutation_p.Q174H|TMPO_ENST00000393053.2_Missense_Mutation_p.Q174H|TMPO_ENST00000261210.5_Missense_Mutation_p.Q174H	NM_001032283.2	NP_001027454.1	P42167	LAP2B_HUMAN	thymopoietin	174	NAKAP95-binding N.|Nucleoplasmic. {ECO:0000255}.					cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)	DNA binding (GO:0003677)|lamin binding (GO:0005521)			breast(2)|endometrium(1)|large_intestine(4)|lung(5)|ovary(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	16						ATACAAGGCAGAATGGAAGTA	0.323																																																0													70	70	70					12																	98925573		2203	4300	6503	SO:0001583	missense	7112				CCDS9064.1, CCDS31879.1, CCDS31880.1	12q22	2014-09-17			ENSG00000120802	ENSG00000120802			11875	protein-coding gene	gene with protein product	"LEM domain containing 4"	188380				7517549	Standard	NM_003276		Approved	TP, LAP2, LEMD4	uc001tfh.2	P42166	OTTHUMG00000170210	ENST00000556029.1:c.522G>C	12.37:g.98925573G>C	ENSP00000450627:p.Gln174His	Somatic		WXS	Illumina HiSeq	Phase_I	A2T926|Q14861	Missense_Mutation	SNP	ENST00000556029.1	37	CCDS31879.1	.	.	.	.	.	.	.	.	.	.	G	18.16	3.562332	0.65538	.	.	ENSG00000120802	ENST00000556029;ENST00000343315;ENST00000266732;ENST00000393053;ENST00000261210;ENST00000556678	T;T;T;T;T;T	0.74421	0.18;0.22;1.55;-0.23;-0.84;-0.8	5.4	2.51	0.30379	.	0.053524	0.85682	D	0.000000	T	0.78046	0.4222	L	0.46157	1.445	0.49687	D	0.999819	D;P;D;D	0.71674	0.997;0.604;0.998;0.997	D;B;D;D	0.79784	0.991;0.204;0.993;0.99	T	0.75611	-0.3258	10	0.59425	D	0.04	.	6.5002	0.22164	0.2145:0.1293:0.6561:0.0	.	207;174;174;174	Q59G12;P42167;A2T926;P42166	.;LAP2B_HUMAN;.;LAP2A_HUMAN	H	174;174;174;174;174;81	ENSP00000450627:Q174H;ENSP00000340251:Q174H;ENSP00000266732:Q174H;ENSP00000376773:Q174H;ENSP00000261210:Q174H;ENSP00000451552:Q81H	ENSP00000261210:Q174H	Q	+	3	2	TMPO	97449704	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.511000	0.45476	0.634000	0.30469	0.655000	0.94253	CAG		0.323	TMPO-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407973.2	NM_003276		C	98925573	G	C	98925573	3	2	609	1	0	0	0	0	1	0	0	0	16249	933	33	4	532	4	TMPO	12	98925573	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	34933958	98925573	34926322	86	36991										
POLR3B	55703	broad.mit.edu	37	chr12	106890644	106890644	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	atgtgtgtgaggacctcgttCgccatggttataactacttg	11	8	0	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr12:106890644C>T	ENST00000228347.4	+	25	3154	c.2932C>T	c.(2932-2934)Cgc>Tgc	p.R978C	RP11-144F15.1_ENST00000551505.1_Intron|POLR3B_ENST00000539066.1_Missense_Mutation_p.R920C	NM_018082.5	NP_060552.4	Q9NW08	RPC2_HUMAN	polymerase (RNA) III (DNA directed) polypeptide B	978				R -> C (in Ref. 2; BAA91527). {ECO:0000305}.	defense response to virus (GO:0051607)|gene expression (GO:0010467)|innate immune response (GO:0045087)|positive regulation of innate immune response (GO:0045089)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of type I interferon production (GO:0032481)|termination of RNA polymerase III transcription (GO:0006386)|transcription elongation from RNA polymerase III promoter (GO:0006385)|transcription from RNA polymerase III promoter (GO:0006383)	cytosol (GO:0005829)|DNA-directed RNA polymerase III complex (GO:0005666)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)|metal ion binding (GO:0046872)|ribonucleoside binding (GO:0032549)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(14)|lung(22)|ovary(1)|prostate(3)|skin(3)|urinary_tract(2)	57						GGACCTCGTTCGCCATGGTTA	0.488																																																0													215	170	185					12																	106890644		2203	4300	6503	SO:0001583	missense	55703			AY092084	CCDS9105.1, CCDS53824.1	12q23.3	2014-08-12			ENSG00000013503	ENSG00000013503		"RNA polymerase subunits"	30348	protein-coding gene	gene with protein product		614366				12391170	Standard	NM_018082		Approved	RPC2, FLJ10388	uc001tlp.3	Q9NW08	OTTHUMG00000170077	ENST00000228347.4:c.2932C>T	12.37:g.106890644C>T	ENSP00000228347:p.Arg978Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6H0|B3KV73|F5H1E6|Q9NW59	Missense_Mutation	SNP	ENST00000228347.4	37	CCDS9105.1	.	.	.	.	.	.	.	.	.	.	C	35	5.566002	0.96540	.	.	ENSG00000013503	ENST00000228347;ENST00000539066	T;T	0.73047	-0.71;-0.71	5.56	5.56	0.83823	DNA-directed RNA polymerase, subunit 2, domain 6 (2);	0.046314	0.85682	D	0.000000	T	0.82226	0.4991	M	0.71036	2.16	0.80722	D	1	D	0.65815	0.995	P	0.58970	0.849	D	0.83970	0.0326	10	0.87932	D	0	-12.8497	19.5302	0.95226	0.0:1.0:0.0:0.0	.	978	Q9NW08	RPC2_HUMAN	C	978;920	ENSP00000228347:R978C;ENSP00000445721:R920C	ENSP00000228347:R978C	R	+	1	0	POLR3B	105414774	1.000000	0.71417	0.997000	0.53966	0.993000	0.82548	7.786000	0.85741	2.592000	0.87571	0.655000	0.94253	CGC		0.488	POLR3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407166.1	NM_018082		T	106890644	C	T	106890644	3	4	609	1	0	0	0	0	1	0	0	0	12236	884	31	1	3030	1	POLR3B	12	106890644	Missense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	7965071	106890644	26961251	87	36992										
RNF34	80196	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	121855373	121855374	+	Frame_Shift_Del	DEL	AG	AG	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tcttacaagaaaatctccgtAgatgttctacttgtcactta							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr12:121855373_121855374delAG	ENST00000392464.2	+	3	361_362	c.292_293delAG	c.(292-294)agafs	p.R98fs	RNF34_ENST00000361234.5_Frame_Shift_Del_p.R98fs|RNF34_ENST00000555076.1_Intron|RNF34_ENST00000392465.3_Frame_Shift_Del_p.R99fs					ring finger protein 34, E3 ubiquitin protein ligase											breast(1)|large_intestine(1)	2	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000432)|Epithelial(86;0.00233)		AAATCTCCGTAGATGTTCTACT	0.416																																																0																																										SO:0001589	frameshift_variant	80196			AF306709, AB084914	CCDS9221.1, CCDS31915.1, CCDS73538.1	12q24.31	2012-02-23	2012-02-23			ENSG00000170633		"RING-type (C3HC4) zinc fingers"	17297	protein-coding gene	gene with protein product		608299	"ring finger protein 34"			12118383	Standard	NM_025126		Approved	RIFF, FLJ21786, RIF	uc001ual.2	Q969K3		ENST00000392464.2:c.292_293delAG	12.37:g.121855373_121855374delAG	ENSP00000376257:p.Arg98fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000392464.2	37																																																																																					0.416	RNF34-005	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000413892.1	NM_194271		-	121855374	AG	-	121855373	7	5	609	1	0	1	0	1	0	0	0	0	13502	412	15	0	315	0	RNF34	12	121855373	Frame_Shift_Del	DEL	AG	TCGA-HE-A5NI-01A-11D-A26P-10	14964729	121855373	11996522	88	36993										
SACS	26278	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr13	23906370	23906371	+	Frame_Shift_Ins	INS	-	-	A													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tagactcctgaacagaccagINSaaactactctcttaactgta							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr13:23906370_23906371insA	ENST00000382292.3	-	9	11917_11918	c.11644_11645insT	c.(11644-11646)tctfs	p.S3882fs	SACS_ENST00000382298.3_Frame_Shift_Ins_p.S3882fs|SACS_ENST00000402364.1_Frame_Shift_Ins_p.S3132fs			Q9NZJ4	SACS_HUMAN	sacsin molecular chaperone	3882					cell death (GO:0008219)|negative regulation of inclusion body assembly (GO:0090084)|protein folding (GO:0006457)	axon (GO:0030424)|cell body fiber (GO:0070852)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	chaperone binding (GO:0051087)|Hsp70 protein binding (GO:0030544)|proteasome binding (GO:0070628)			NS(1)|biliary_tract(1)|breast(3)|central_nervous_system(2)|endometrium(22)|haematopoietic_and_lymphoid_tissue(1)|kidney(15)|large_intestine(54)|lung(49)|ovary(7)|pancreas(1)|prostate(4)|skin(10)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(11)	189		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)		GAACAGACCAGAAACTACTCTC	0.416																																																0																																										SO:0001589	frameshift_variant	26278			AF193556	CCDS9300.2	13q11	2014-06-13	2014-01-30		ENSG00000151835	ENSG00000151835		"Heat shock proteins / DNAJ (HSP40)"	10519	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 138"	604490	"spastic ataxia of Charlevoix-Saguenay (sacsin)"			10610707, 15057823, 21726565	Standard	NM_001278055		Approved	ARSACS, KIAA0730, DKFZp686B15167, DNAJC29, SPAX6, PPP1R138	uc001uon.3	Q9NZJ4	OTTHUMG00000016562	ENST00000382292.3:c.11645dupT	13.37:g.23906373_23906373dupA	ENSP00000371729:p.Ser3882fs	Somatic		WXS	Illumina HiSeq	Phase_I	O94835|Q5T9J5|Q5T9J7|Q5T9J8|Q68DF5|Q6MZR4|Q8NBF9	Frame_Shift_Ins	INS	ENST00000382292.3	37	CCDS9300.2																																																																																				0.416	SACS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044148.3	NM_014363		A	23906371	-	A	23906370	7	5	609	1	0	1	1	0	0	0	0	0	13817	942	33	0	2098	0	SACS	13	23906370	Frame_Shift_Ins	INS	-	TCGA-HE-A5NI-01A-11D-A26P-10		23906370	91263508	89	36994										
IPO4	79711	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	24654679	24654679	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gttcacctgtaggttttctgAgaactggcccagggcaaaca	11	10	2	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr14:24654679A>T	ENST00000354464.6	-	13	1440	c.1264T>A	c.(1264-1266)Tca>Aca	p.S422T	RP11-468E2.2_ENST00000561419.1_3'UTR	NM_024658.3	NP_078934.3	Q8TEX9	IPO4_HUMAN	importin 4	422					DNA replication-dependent nucleosome assembly (GO:0006335)|DNA replication-independent nucleosome assembly (GO:0006336)|intracellular protein transport (GO:0006886)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nuclear chromatin (GO:0000790)|protein complex (GO:0043234)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(5)|lung(10)|ovary(1)|stomach(2)|urinary_tract(1)	33				GBM - Glioblastoma multiforme(265;0.0087)		AGGTTTTCTGAGAACTGGCCC	0.562																																																0													85	91	89					14																	24654679		2042	4182	6224	SO:0001583	missense	79711			AF411122	CCDS9616.1	14q11.2	2003-03-10			ENSG00000196497	ENSG00000196497		"Importins"	19426	protein-coding gene	gene with protein product						11823430	Standard	NR_051979		Approved	Imp4, FLJ23338	uc001wmv.1	Q8TEX9	OTTHUMG00000028801	ENST00000354464.6:c.1264T>A	14.37:g.24654679A>T	ENSP00000346453:p.Ser422Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN95|Q2NL96|Q86TZ9|Q8NCG8|Q96SJ3|Q9BTI4|Q9H5L0	Missense_Mutation	SNP	ENST00000354464.6	37	CCDS9616.1	.	.	.	.	.	.	.	.	.	.	A	29.5	5.007813	0.93287	.	.	ENSG00000196497	ENST00000354464;ENST00000399536	T	0.05513	3.43	5.44	5.44	0.79542	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.21962	0.0529	M	0.69185	2.1	0.80722	D	1	D	0.65815	0.995	D	0.70016	0.967	T	0.00138	-1.2003	10	0.72032	D	0.01	-9.0334	13.1234	0.59340	1.0:0.0:0.0:0.0	.	422	Q8TEX9	IPO4_HUMAN	T	422;98	ENSP00000346453:S422T	ENSP00000346453:S422T	S	-	1	0	IPO4	23724519	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	5.283000	0.65621	2.288000	0.76882	0.533000	0.62120	TCA		0.562	IPO4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071931.4	NM_024658		T	24654679	A	T	24654679	3	4	609	1	0	0	0	0	1	0	0	0	7802	304	11	5	2053	5	IPO4	14	24654679	Missense_Mutation	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10		24654679	82694861	90	36995										
BRMS1L	84312	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	36300676	36300676	+	Frame_Shift_Del	DEL	T	T	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tttggatgaaatgtccaatcTtgaaaaacagtttaccgatc							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr14:36300676delT	ENST00000216807.7	+	2	402	c.203delT	c.(202-204)cttfs	p.L68fs	BRMS1L_ENST00000543183.1_Frame_Shift_Del_p.L20fs	NM_032352.3	NP_115728.2	Q5PSV4	BRM1L_HUMAN	breast cancer metastasis-suppressor 1-like	68					regulation of growth (GO:0040008)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)				breast(1)|cervix(1)|endometrium(2)|kidney(1)|lung(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	9	Breast(36;0.137)|Hepatocellular(127;0.158)		Lung(8;1.7e-07)|LUAD - Lung adenocarcinoma(9;3e-07)|Epithelial(34;0.00467)|all cancers(34;0.0157)|BRCA - Breast invasive adenocarcinoma(188;0.158)	GBM - Glioblastoma multiforme(112;0.0333)		ATGTCCAATCTTGAAAAACAG	0.333																																																0													116	117	116					14																	36300676		2203	4300	6503	SO:0001589	frameshift_variant	84312			AK096496	CCDS32066.1	14q13.1	2005-09-22	2003-12-02	2003-12-03		ENSG00000100916			20512	protein-coding gene	gene with protein product			"breast cancer metastasis-suppressor 1"	BRMS1			Standard	XM_005268128		Approved	MGC11296, FLJ39177	uc001wtl.3	Q5PSV4		ENST00000216807.7:c.203delT	14.37:g.36300676delT	ENSP00000216807:p.Leu68fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFW5|A6NH45|B2RD65|Q9BRI4	Frame_Shift_Del	DEL	ENST00000216807.7	37	CCDS32066.1																																																																																				0.333	BRMS1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409601.2	NM_032352		-	36300676	T	-	36300676	7	5	609	1	0	1	0	1	0	0	0	0	1519	1609	56	0	209	0	BRMS1L	14	36300676	Frame_Shift_Del	DEL	T	TCGA-HE-A5NI-01A-11D-A26P-10	11645997	36300676	71048864	91	36996										
NIN	51199	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	51223359	51223359	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tccttcaacttcctagtcagCtcctgtaactttgttttctc	4	13	3	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr14:51223359C>G	ENST00000382041.3	-	18	4579	c.4389G>C	c.(4387-4389)gaG>gaC	p.E1463D	NIN_ENST00000245441.5_Missense_Mutation_p.E1463D|NIN_ENST00000453196.1_Missense_Mutation_p.E1463D|NIN_ENST00000382043.4_Intron|NIN_ENST00000389868.3_Intron|NIN_ENST00000530997.2_Missense_Mutation_p.E1463D|NIN_ENST00000324330.9_Missense_Mutation_p.E1463D	NM_016350.4|NM_182946.1	NP_057434.4|NP_891991	Q8N4C6	NIN_HUMAN	ninein (GSK3B interacting protein)	1463					centrosome localization (GO:0051642)|centrosome-templated microtubule nucleation (GO:0090222)|microtubule anchoring at centrosome (GO:0034454)	centriole (GO:0005814)|centrosome (GO:0005813)|microtubule (GO:0005874)|nucleolus (GO:0005730)|spindle pole (GO:0000922)	calcium ion binding (GO:0005509)|GTP binding (GO:0005525)			breast(4)|central_nervous_system(1)|cervix(2)|endometrium(10)|kidney(5)|large_intestine(13)|lung(16)|ovary(1)|pancreas(1)|prostate(5)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(5)	71	all_epithelial(31;0.00244)|Breast(41;0.127)					tcctagtcagctcctgtaact	0.418			T	PDGFRB	MPD																																		Dom	yes		14	14q24	51199	ninein (GSK3B interacting protein)		L	0													113	88	96					14																	51223359		2194	4286	6480	SO:0001583	missense	51199			AF212162	CCDS32078.1, CCDS32079.1, CCDS32078.2	14q21-q22	2013-01-10			ENSG00000100503	ENSG00000100503		"EF-hand domain containing"	14906	protein-coding gene	gene with protein product		608684				11004522, 11162463	Standard	NM_020921		Approved		uc001wyi.3	Q8N4C6	OTTHUMG00000029569	ENST00000382041.3:c.4389G>C	14.37:g.51223359C>G	ENSP00000371472:p.Glu1463Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDB8|B7WPA3|C9JSB6|C9JSG2|C9JXL2|Q5BKU3|Q6P0P6|Q9BWU6|Q9C012|Q9C013|Q9C014|Q9H5I6|Q9HAT7|Q9HBY5|Q9HCK7|Q9UH61	Missense_Mutation	SNP	ENST00000382041.3	37	CCDS32079.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	16.37|16.37	3.103971|3.103971	0.56291|0.56291	.|.	.|.	ENSG00000100503|ENSG00000100503	ENST00000530997;ENST00000389869;ENST00000530853|ENST00000245441;ENST00000311149;ENST00000324292;ENST00000382041;ENST00000324330;ENST00000453196	.|T;T;T;T	.|0.10192	.|3.17;2.91;2.9;2.91	5.59|5.59	4.7|4.7	0.59300|0.59300	.|.	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.20170|0.20170	0.0485|0.0485	M|M	0.62723|0.62723	1.935|1.935	0.31457|0.31457	N|N	0.670061|0.670061	.|P;D;P;P	.|0.59767	.|0.873;0.986;0.852;0.8	.|B;P;B;B	.|0.53224	.|0.291;0.721;0.275;0.416	T|T	0.11842|0.11842	-1.0571|-1.0571	5|10	.|0.48119	.|T	.|0.1	-1.0688|-1.0688	10.3959|10.3959	0.44201|0.44201	0.0:0.9099:0.0:0.0901|0.0:0.9099:0.0:0.0901	.|.	.|1469;1463;1463;1463	.|Q8N4C6-5;C9J066;Q8N4C6;Q8N4C6-7	.|.;.;NIN_HUMAN;.	P|D	954|1463;1446;1469;1463;1463;1463	.|ENSP00000245441:E1463D;ENSP00000371472:E1463D;ENSP00000324210:E1463D;ENSP00000412391:E1463D	.|ENSP00000245441:E1463D	A|E	-|-	1|3	0|2	NIN|NIN	50293109|50293109	0.999000|0.999000	0.42202|0.42202	1.000000|1.000000	0.80357|0.80357	0.997000|0.997000	0.91878|0.91878	0.415000|0.415000	0.21181|0.21181	1.366000|1.366000	0.46076|0.46076	0.655000|0.655000	0.94253|0.94253	GCT|GAG		0.418	NIN-016	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000395207.2	NM_182946		G	51223359	C	G	51223359	3	3	609	1	0	0	0	0	1	0	0	0	10424	796	28	4	2216	4	NIN	14	51223359	Missense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	14922683	51223359	56126181	92	36997										
C14orf4	64207	hgsc.bcm.edu	37	chr14	77493794	77493794	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tgctgctgctgctgctgctgTtgctgctgctgctgctgctg	14	12	0	0	rs377151545|rs28718623|rs71125518	byFrequency	TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr14:77493794T>C	ENST00000238647.3	-	1	1240	c.342A>G	c.(340-342)caA>caG	p.Q114Q		NM_024496.3	NP_078772.1	Q9H1B7	I2BPL_HUMAN	interferon regulatory factor 2 binding protein-like	114	Poly-Gln.				development of secondary female sexual characteristics (GO:0046543)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	extracellular space (GO:0005615)|nucleus (GO:0005634)	metal ion binding (GO:0046872)			endometrium(2)|kidney(1)|lung(3)|ovary(1)|prostate(1)|skin(1)|urinary_tract(2)	11						gctgctgctgttgctgctgct	0.697													T|||	1146	0.228834	0.1649	0.1758	5008	,	,		5976	0.2659		0.2614	False		,,,				2504	0.2812															0								-		160,2330		6,148,1091	2	2	2		342	0.6	0	14	dbSNP_125	2	324,4012		7,310,1851	no	coding-synonymous	IRF2BPL	NM_024496.2		13,458,2942	CC,CT,TT		7.4723,6.4257,7.0905		114/797	77493794	484,6342	1245	2168	3413	SO:0001819	synonymous_variant	64207			AJ277365	CCDS9854.1	14q24.3	2011-02-23	2011-02-23	2011-02-23	ENSG00000119669	ENSG00000119669			14282	protein-coding gene	gene with protein product	"enhanced at puberty 1"	611720	"chromosome 14 open reading frame 4"	C14orf4		11095982, 17627301	Standard	NM_024496		Approved	EAP1, KIAA1865	uc001xsy.4	Q9H1B7		ENST00000238647.3:c.342A>G	14.37:g.77493794T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NDQ2|Q96JG2|Q9H3I7	Silent	SNP	ENST00000238647.3	37	CCDS9854.1																																																																																				0.697	IRF2BPL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414298.1	NM_024496		C	77493794	T	C	77493794	2	2	609	1	0	0	0	0	0	0	0	1	1775	1722	60	3		3	C14orf4	14	77493794	Silent	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	26270435	77493794	29855746	93	36998										
CHGA	1113	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	93397675	93397675	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cagagaaaagtggtgaagccAcagacggagccaggccccag	14	11	0	3			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr14:93397675A>G	ENST00000216492.5	+	6	716	c.436A>G	c.(436-438)Aca>Gca	p.T146A	CHGA_ENST00000553866.1_3'UTR|CHGA_ENST00000334654.4_Intron	NM_001275.3	NP_001266.1	P10645	CMGA_HUMAN	chromogranin A (parathyroid secretory protein 1)	146					regulation of blood pressure (GO:0008217)	extracellular region (GO:0005576)|membrane (GO:0016020)|perinuclear region of cytoplasm (GO:0048471)|secretory granule (GO:0030141)				cervix(1)|large_intestine(1)|lung(3)|skin(3)	8		all_cancers(154;0.0843)		Epithelial(152;0.102)|COAD - Colon adenocarcinoma(157;0.208)|all cancers(159;0.224)		TGGTGAAGCCACAGACGGAGC	0.597																																					Colon(31;154 822 45066 49155)|NSCLC(28;804 1157 13734 25204)											0													33	40	37					14																	93397675		2203	4300	6503	SO:0001583	missense	1113				CCDS9906.1	14q32	2012-10-02			ENSG00000100604	ENSG00000100604			1929	protein-coding gene	gene with protein product	"vasostatin", "pancreastatin", "parastatin"	118910				3403545	Standard	NM_001275		Approved		uc001ybc.4	P10645		ENST00000216492.5:c.436A>G	14.37:g.93397675A>G	ENSP00000216492:p.Thr146Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9E9|Q53FA8|Q6NR84|Q96E84|Q96GL7|Q9BQB5	Missense_Mutation	SNP	ENST00000216492.5	37	CCDS9906.1	.	.	.	.	.	.	.	.	.	.	A	5.459	0.269804	0.10349	.	.	ENSG00000100604	ENST00000216492	T	0.01647	4.71	4.7	-9.4	0.00616	.	2.536240	0.01191	N	0.007328	T	0.01061	0.0035	N	0.16656	0.425	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.45862	-0.9232	10	0.11182	T	0.66	6.9295	4.398	0.11372	0.216:0.2247:0.4493:0.11	.	146	P10645	CMGA_HUMAN	A	146	ENSP00000216492:T146A	ENSP00000216492:T146A	T	+	1	0	CHGA	92467428	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.711000	0.05019	-2.936000	0.00299	-0.441000	0.05720	ACA		0.597	CHGA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412411.1	NM_001275		G	93397675	A	G	93397675	3	3	609	1	0	0	0	0	1	0	0	0	3340	159	6	3	458	3	CHGA	14	93397675	Missense_Mutation	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10	15903881	93397675	13951865	94	36999										
C15orf29	79768	broad.mit.edu;bcgsc.ca	37	chr15	34445066	34445072	+	Frame_Shift_Del	DEL	ATATGTT	ATATGTT	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gaatcactggagttaaccaaAtatgttcgactatcatggtg							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	ATATGTT	ATATGTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr15:34445066_34445072delATATGTT	ENST00000256544.3	-	4	499_505	c.357_363delAACATAT	c.(355-363)cgaacatatfs	p.RTY119fs		NM_024713.2	NP_078989.1	Q9H079	KTBL1_HUMAN	katanin p80 subunit B-like 1	119						nucleolus (GO:0005730)											AGTTAACCAAATATGTTCGACTATCAT	0.411																																																0																																										SO:0001589	frameshift_variant	79768			AL136908	CCDS10034.1	15q13.2	2012-09-27	2012-09-27	2012-09-27	ENSG00000134152	ENSG00000134152			26199	protein-coding gene	gene with protein product			"chromosome 15 open reading frame 29"	C15orf29		11230166	Standard	NM_024713		Approved	FLJ22557	uc001zhp.3	Q9H079	OTTHUMG00000129368	ENST00000256544.3:c.357_363delAACATAT	15.37:g.34445066_34445072delATATGTT	ENSP00000256544:p.Arg119fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAF6|Q2TAC0|Q9H670	Frame_Shift_Del	DEL	ENST00000256544.3	37	CCDS10034.1																																																																																				0.411	KATNBL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251520.1	NM_024713		-	34445072	ATATGTT	-	34445066	7	5	609	1	0	1	0	1	0	0	0	0	1791	108	4	0	579	0	C15orf29	15	34445066	Frame_Shift_Del	DEL	ATATGTT	TCGA-HE-A5NI-01A-11D-A26P-10		34445066	68086326	95	37000										
GCNT3	9245	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	59911000	59911000	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttgcttcccaaatgtcttcaTagccagtaagctggttcggg	10	10	2	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr15:59911000T>C	ENST00000396065.1	+	3	1011	c.563T>C	c.(562-564)aTa>aCa	p.I188T	GCNT3_ENST00000560585.1_Missense_Mutation_p.I188T	NM_004751.2	NP_004742.1	O95395	GCNT3_HUMAN	glucosaminyl (N-acetyl) transferase 3, mucin type	188					carbohydrate metabolic process (GO:0005975)|cellular protein metabolic process (GO:0044267)|immunoglobulin production in mucosal tissue (GO:0002426)|intestinal absorption (GO:0050892)|kidney morphogenesis (GO:0060993)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein O-linked glycosylation (GO:0006493)|tissue morphogenesis (GO:0048729)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	acetylgalactosaminyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity (GO:0047225)|beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity (GO:0003829)|N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity (GO:0008109)			central_nervous_system(1)|cervix(1)|kidney(1)|large_intestine(4)|lung(9)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	19						AATGTCTTCATAGCCAGTAAG	0.498																																																0													117	110	112					15																	59911000		2190	4290	6480	SO:0001583	missense	9245			AF102542	CCDS10172.1	15q22	2013-02-25			ENSG00000140297	ENSG00000140297	2.4.1.102, 2.4.1.150	"Glucosaminyl (N-acetyl) transferase and xylosyltransferase family"	4205	protein-coding gene	gene with protein product		606836				9915862, 9988682	Standard	NM_004751		Approved	C2GnT-M, C2/4GnT, C2GnT2	uc002age.3	O95395	OTTHUMG00000132726	ENST00000396065.1:c.563T>C	15.37:g.59911000T>C	ENSP00000379377:p.Ile188Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000396065.1	37	CCDS10172.1	.	.	.	.	.	.	.	.	.	.	T	17.13	3.311833	0.60414	.	.	ENSG00000140297	ENST00000396065	T	0.11712	2.75	6.13	6.13	0.99165	.	0.536118	0.20374	N	0.093586	T	0.20210	0.0486	M	0.80183	2.485	0.45035	D	0.998058	P	0.36354	0.549	B	0.35182	0.197	T	0.01249	-1.1406	10	0.87932	D	0	.	16.8061	0.85666	0.0:0.0:0.0:1.0	.	188	O95395	GCNT3_HUMAN	T	188	ENSP00000379377:I188T	ENSP00000379377:I188T	I	+	2	0	GCNT3	57698292	1.000000	0.71417	0.948000	0.38648	0.868000	0.49771	7.955000	0.87856	2.367000	0.80283	0.529000	0.55759	ATA		0.498	GCNT3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256068.1	NM_004751		C	59911000	T	C	59911000	3	2	609	1	0	0	0	0	1	0	0	0	6309	1406	49	3	565	3	GCNT3	15	59911000	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	25465934	59911000	42620392	96	37001										
DENND4A	10260	hgsc.bcm.edu;bcgsc.ca	37	chr15	65956990	65956991	+	Frame_Shift_Ins	INS	-	-	T													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttttaatgctttttaccataINScttttcaacagttcctggtt							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr15:65956990_65956991insT	ENST00000431932.2	-	30	5505_5506	c.5297_5298insA	c.(5296-5298)agtfs	p.S1766fs	DENND4A_ENST00000443035.3_Frame_Shift_Ins_p.S1809fs	NM_005848.3	NP_005839.3	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A	1766					positive regulation of Rab GTPase activity (GO:0032851)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|Rab guanyl-nucleotide exchange factor activity (GO:0017112)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(17)|lung(11)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	51						TTTTTACCATACTTTTCAACAG	0.337																																																0																																										SO:0001589	frameshift_variant	10260			AF534403	CCDS45285.1, CCDS53949.1	15q22.31	2012-10-03	2006-01-27	2006-01-27				"DENN/MADD domain containing"	24321	protein-coding gene	gene with protein product		600382	"c-myc promoter binding protein"	MYCPBP		8056341, 12906859	Standard	NM_005848		Approved	IRLB	uc002api.3	Q7Z401		ENST00000431932.2:c.5297_5298insA	15.37:g.65956990_65956991insT	ENSP00000396830:p.Ser1766fs	Somatic		WXS	Illumina HiSeq	Phase_I	E7EPL3|Q14655|Q86T77|Q8IVX2|Q8NB93	Frame_Shift_Ins	INS	ENST00000431932.2	37	CCDS45285.1																																																																																				0.337	DENND4A-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419611.1	NM_005848		T	65956991	-	T	65956990	7	5	609	1	0	1	1	0	0	0	0	0	4435	388	14	0	305	0	DENND4A	15	65956990	Frame_Shift_Ins	INS	-	TCGA-HE-A5NI-01A-11D-A26P-10	6045990	65956990	36574402	97	37002										
UACA	55075	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	70991969	70991969	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttctgctgctttcatcaatcGgtcatcatatttattccaat	4	10	5	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr15:70991969G>A	ENST00000322954.6	-	2	294	c.109C>T	c.(109-111)Cga>Tga	p.R37*	UACA_ENST00000379983.2_Nonsense_Mutation_p.R24*|UACA_ENST00000560441.1_Nonsense_Mutation_p.R24*|UACA_ENST00000539319.1_Nonsense_Mutation_p.R37*	NM_018003.2	NP_060473.2	Q9BZF9	UACA_HUMAN	uveal autoantigen with coiled-coil domains and ankyrin repeats	37					intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|intrinsic apoptotic signaling pathway in response to oxidative stress (GO:0008631)|negative regulation of inflammatory response (GO:0050728)|negative regulation of NF-kappaB import into nucleus (GO:0042347)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of protein import into nucleus (GO:0042307)|response to UV (GO:0009411)	apoptosome (GO:0043293)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nuclear envelope (GO:0005635)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)				breast(2)|endometrium(7)|kidney(4)|large_intestine(13)|lung(17)|ovary(2)|pancreas(1)|prostate(2)|skin(2)	50						TTCATCAATCGGTCATCATAT	0.363																																																0													145	125	132					15																	70991969		2199	4297	6496	SO:0001587	stop_gained	55075			AF322916	CCDS10235.1, CCDS32280.1	15q22-q24	2013-01-10			ENSG00000137831	ENSG00000137831		"Ankyrin repeat domain containing"	15947	protein-coding gene	gene with protein product		612516				11162650, 10997877	Standard	NM_001008224		Approved	FLJ10128, KIAA1561	uc002asr.3	Q9BZF9	OTTHUMG00000133363	ENST00000322954.6:c.109C>T	15.37:g.70991969G>A	ENSP00000314556:p.Arg37*	Somatic		WXS	Illumina HiSeq	Phase_I	G3XAG2|Q14DD3|Q8N3B8|Q96NH6|Q9HCL1|Q9NWC6	Nonsense_Mutation	SNP	ENST00000322954.6	37	CCDS10235.1	.	.	.	.	.	.	.	.	.	.	G	37	6.366924	0.97511	.	.	ENSG00000137831	ENST00000322954;ENST00000379983;ENST00000395362;ENST00000539319	.	.	.	5.28	3.23	0.37069	.	0.000000	0.48286	D	0.000192	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-14.7105	14.3737	0.66860	0.0:0.0:0.6557:0.3443	.	.	.	.	X	37;24;24;37	.	ENSP00000314556:R37X	R	-	1	2	UACA	68779023	1.000000	0.71417	0.999000	0.59377	0.956000	0.61745	4.021000	0.57196	1.312000	0.45043	0.491000	0.48974	CGA		0.363	UACA-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257199.2			A	70991969	G	A	70991969	4	1	609	1	0	0	0	0	0	1	0	0	16836	1124	39	1	4213	1	UACA	15	70991969	Nonsense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	5034979	70991969	31539423	98	37003										
ST8SIA2	8128	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	92973323	92973323	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cagatcagctgtgaacagctTacatagcaaatctaataggt	8	8	2	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr15:92973323T>C	ENST00000268164.3	+	2	380	c.143T>C	c.(142-144)tTa>tCa	p.L48S	ST8SIA2_ENST00000539113.1_Intron	NM_006011.3	NP_006002.1	Q92186	SIA8B_HUMAN	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 2	48					axon guidance (GO:0007411)|carbohydrate metabolic process (GO:0005975)|cellular protein metabolic process (GO:0044267)|cellular protein modification process (GO:0006464)|ganglioside biosynthetic process (GO:0001574)|N-glycan processing (GO:0006491)|nervous system development (GO:0007399)|oligosaccharide metabolic process (GO:0009311)|post-translational protein modification (GO:0043687)|protein glycosylation (GO:0006486)|protein N-linked glycosylation via asparagine (GO:0018279)|sialylation (GO:0097503)	early endosome (GO:0005769)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)|recycling endosome (GO:0055037)	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity (GO:0003828)|sialic acid binding (GO:0033691)			endometrium(2)|large_intestine(6)|lung(9)|skin(2)|urinary_tract(1)	20	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0355)|OV - Ovarian serous cystadenocarcinoma(32;0.203)			GTGAACAGCTTACATAGCAAA	0.393																																																0													143	133	136					15																	92973323		2198	4298	6496	SO:0001583	missense	8128			U33551	CCDS10372.1	15q26	2013-03-01	2003-01-14	2005-02-07	ENSG00000140557	ENSG00000140557		"Sialyltransferases"	10870	protein-coding gene	gene with protein product		602546	"sialyltransferase 8 (alpha-2, 8-sialytransferase) B"	SIAT8B		7559389	Standard	NM_006011		Approved	STX, ST8SIA-II, HsT19690	uc002bra.3	Q92186	OTTHUMG00000149843	ENST00000268164.3:c.143T>C	15.37:g.92973323T>C	ENSP00000268164:p.Leu48Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VAZ0|Q92470|Q92746	Missense_Mutation	SNP	ENST00000268164.3	37	CCDS10372.1	.	.	.	.	.	.	.	.	.	.	T	10.03	1.239532	0.22711	.	.	ENSG00000140557	ENST00000268164;ENST00000555434	T;T	0.27720	1.95;1.65	5.55	5.55	0.83447	.	0.179000	0.35436	N	0.003205	T	0.23054	0.0557	L	0.27053	0.805	0.80722	D	1	B	0.12630	0.006	B	0.09377	0.004	T	0.05053	-1.0909	10	0.20046	T	0.44	0.2846	15.71	0.77620	0.0:0.0:0.0:1.0	.	48	Q92186	SIA8B_HUMAN	S	48	ENSP00000268164:L48S;ENSP00000450851:L48S	ENSP00000268164:L48S	L	+	2	0	ST8SIA2	90774327	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.306000	0.65756	2.105000	0.64084	0.533000	0.62120	TTA		0.393	ST8SIA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313526.1	NM_006011		C	92973323	T	C	92973323	3	2	609	1	0	0	0	0	1	0	0	0	15244	1764	61	3	149	3	ST8SIA2	15	92973323	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	21981354	92973323	9558069	99	37004										
ASB7	140460	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	101152488	101152488	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tgcagattcaggccgcggtgGctgctggggatgtccacaca	15	11	1	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr15:101152488G>A	ENST00000332783.7	+	4	852	c.67G>A	c.(67-69)Gct>Act	p.A23T	ASB7_ENST00000343276.4_Missense_Mutation_p.A23T|ASB7_ENST00000558747.1_Missense_Mutation_p.A23T	NM_198243.2	NP_937886.1	Q9H672	ASB7_HUMAN	ankyrin repeat and SOCS box containing 7	23					intracellular signal transduction (GO:0035556)|protein ubiquitination (GO:0016567)					breast(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(6)|prostate(1)|skin(2)	16	Lung NSC(78;0.00121)|all_lung(78;0.00152)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00168)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			GGCCGCGGTGGCTGCTGGGGA	0.512																																																0													106	95	99					15																	101152488		2203	4300	6503	SO:0001583	missense	140460				CCDS10387.1, CCDS10388.1	15q26.3	2013-01-10	2011-01-25		ENSG00000183475	ENSG00000183475		"Ankyrin repeat domain containing"	17182	protein-coding gene	gene with protein product		615052	"ankyrin repeat and SOCS box-containing 7"				Standard	NM_024708		Approved		uc002bwk.3	Q9H672	OTTHUMG00000149868	ENST00000332783.7:c.67G>A	15.37:g.101152488G>A	ENSP00000328327:p.Ala23Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1E5|Q6GSJ6|Q7Z4S3	Missense_Mutation	SNP	ENST00000332783.7	37	CCDS10387.1	.	.	.	.	.	.	.	.	.	.	G	20.3	3.969229	0.74246	.	.	ENSG00000183475	ENST00000332783;ENST00000343276	T;T	0.65364	-0.15;-0.11	5.9	5.9	0.94986	Ankyrin repeat-containing domain (4);	0.000000	0.85682	D	0.000000	T	0.76828	0.4042	L	0.56280	1.765	0.80722	D	1	D;P	0.62365	0.991;0.867	D;B	0.77004	0.989;0.445	T	0.72679	-0.4220	10	0.38643	T	0.18	-7.1712	20.2822	0.98520	0.0:0.0:1.0:0.0	.	23;23	Q9H672;Q9H672-2	ASB7_HUMAN;.	T	23	ENSP00000328327:A23T;ENSP00000339819:A23T	ENSP00000328327:A23T	A	+	1	0	ASB7	98970011	1.000000	0.71417	1.000000	0.80357	0.954000	0.61252	9.296000	0.96104	2.806000	0.96561	0.655000	0.94253	GCT		0.512	ASB7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313617.1	NM_024708		A	101152488	G	A	101152488	3	1	609	1	0	0	0	0	1	0	0	0	1028	1203	42	2	69	2	ASB7	15	101152488	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	8179165	101152488	1378904	100	37005										
PCSK6	5046	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	101865152	101865152	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	caagacaggcactgcgtcgcAgctctgctggagcaggtctc	13	13	2	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr15:101865152A>G	ENST00000348070.1	-	18	2276	c.2277T>C	c.(2275-2277)gcT>gcC	p.A759A	PCSK6_ENST00000561177.1_5'UTR|PCSK6_ENST00000358417.3_Silent_p.A746A	NM_002570.3|NM_138320.1	NP_002561.1|NP_612193.1	P29122	PCSK6_HUMAN	proprotein convertase subtilisin/kexin type 6	760	CRM (Cys-rich motif).				determination of left/right symmetry (GO:0007368)|glycoprotein metabolic process (GO:0009100)|nerve growth factor processing (GO:0032455)|nerve growth factor production (GO:0032902)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptide hormone processing (GO:0016486)|protein processing (GO:0016485)|regulation of BMP signaling pathway (GO:0030510)|secretion by cell (GO:0032940)|zygotic determination of anterior/posterior axis, embryo (GO:0007354)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|extracellular matrix (GO:0031012)|extracellular space (GO:0005615)|Golgi lumen (GO:0005796)|membrane (GO:0016020)	endopeptidase activity (GO:0004175)|heparin binding (GO:0008201)|nerve growth factor binding (GO:0048406)|serine-type endopeptidase activity (GO:0004252)			breast(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(17)|pancreas(2)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	32	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)			ACTGCGTCGCAGCTCTGCTGG	0.587																																																0													45	50	48					15																	101865152		2042	4184	6226	SO:0001819	synonymous_variant	5046				CCDS73789.1, CCDS73790.1, CCDS73791.1, CCDS73792.1, CCDS73793.1	15q26	2008-07-18	2004-06-14	2004-06-16		ENSG00000140479			8569	protein-coding gene	gene with protein product	"subtilisin-like protease", "subtilisin-like proprotein convertase 4", "subtilisin/kexin-like protease PACE4"	167405	"paired basic amino acid cleaving system 4"	PACE4		1741956	Standard	NM_002570		Approved	SPC4	uc002bwy.3	P29122		ENST00000348070.1:c.2277T>C	15.37:g.101865152A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q15099|Q15100|Q9UEG7|Q9UEJ1|Q9UEJ2|Q9UEJ7|Q9UEJ8|Q9UEJ9|Q9Y4G9|Q9Y4H0|Q9Y4H1	Silent	SNP	ENST00000348070.1	37																																																																																					0.587	PCSK6-203	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_002570		G	101865152	A	G	101865152	2	3	609	1	0	0	0	0	0	0	0	1	11611	175	7	3		3	PCSK6	15	101865152	Silent	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10	712664	101865152	666240	101	37006										
SRCAP	10847	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	30733555	30733555	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cagggcaacaagctgactttGactggtgcccaggtgcgcca	13	12	0	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr16:30733555G>C	ENST00000262518.4	+	22	4039	c.3654G>C	c.(3652-3654)ttG>ttC	p.L1218F	SRCAP_ENST00000395059.2_Missense_Mutation_p.L1218F|SRCAP_ENST00000344771.4_Missense_Mutation_p.L1122F	NM_006662.2	NP_006653.2	Q6ZRS2	SRCAP_HUMAN	Snf2-related CREBBP activator protein	1218	Pro-rich.				histone acetylation (GO:0016573)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|protein complex (GO:0043234)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|histone acetyltransferase activity (GO:0004402)|transcription coactivator activity (GO:0003713)			NS(1)|breast(3)|cervix(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(22)|liver(3)|lung(62)|ovary(6)|pancreas(1)|prostate(4)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(5)	136			Colorectal(24;0.198)			AGCTGACTTTGACTGGTGCCC	0.587																																																0													113	96	102					16																	30733555		2197	4300	6497	SO:0001583	missense	10847			AB002307	CCDS10689.2	16p11.2	2009-08-06			ENSG00000080603	ENSG00000080603			16974	protein-coding gene	gene with protein product	"Swi2/Snf2-related ATPase homolog (S. cerevisiae)", "domino homolog 1 (Drosophila)"	611421				10347196, 9205841	Standard	NM_006662		Approved	KIAA0309, EAF1, SWR1, DOMO1	uc002dze.1	Q6ZRS2	OTTHUMG00000132393	ENST00000262518.4:c.3654G>C	16.37:g.30733555G>C	ENSP00000262518:p.Leu1218Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B0JZA6|O15026|Q7Z744|Q9Y5L9	Missense_Mutation	SNP	ENST00000262518.4	37	CCDS10689.2	.	.	.	.	.	.	.	.	.	.	G	14.90	2.673750	0.47781	.	.	ENSG00000080603	ENST00000262518;ENST00000395059;ENST00000344771	D;D;D	0.96913	-4.07;-4.17;-3.98	4.68	4.68	0.58851	.	0.000000	0.40064	N	0.001186	D	0.96522	0.8865	L	0.29908	0.895	0.27411	N	0.954569	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.997	D	0.92402	0.5930	10	0.72032	D	0.01	-5.1815	16.5291	0.84353	0.0:0.0:1.0:0.0	.	1122;1218;1218	Q6ZRS2-3;Q6ZRS2-2;Q6ZRS2	.;.;SRCAP_HUMAN	F	1218;1218;1122	ENSP00000262518:L1218F;ENSP00000378499:L1218F;ENSP00000343042:L1122F	ENSP00000262518:L1218F	L	+	3	2	SRCAP	30641056	1.000000	0.71417	1.000000	0.80357	0.796000	0.44982	2.423000	0.44705	2.414000	0.81942	0.462000	0.41574	TTG		0.587	SRCAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255523.1	NM_006662		C	30733555	G	C	30733555	3	2	609	1	0	0	0	0	1	0	0	0	15147	1281	45	4	3732	4	SRCAP	16	30733555	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10		30733555	59621198	102	37007										
ITGAX	3687	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	31371302	31371302	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cactttcgaggaattcaggcGcagctcaaaccccctcagcc	8	16	3	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr16:31371302G>A	ENST00000268296.4	+	7	744	c.623G>A	c.(622-624)cGc>cAc	p.R208H	ITGAX_ENST00000562522.1_Missense_Mutation_p.R208H	NM_000887.3	NP_000878.2	P20702	ITAX_HUMAN	integrin, alpha X (complement component 3 receptor 4 subunit)	208	VWFA. {ECO:0000255|PROSITE- ProRule:PRU00219}.				blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|heterotypic cell-cell adhesion (GO:0034113)|integrin-mediated signaling pathway (GO:0007229)|leukocyte migration (GO:0050900)|organ morphogenesis (GO:0009887)	cell surface (GO:0009986)|integrin complex (GO:0008305)|membrane (GO:0016020)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|receptor activity (GO:0004872)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(8)|lung(42)|ovary(2)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	77						GAATTCAGGCGCAGCTCAAAC	0.517																																																0													101	103	102					16																	31371302		2197	4300	6497	SO:0001583	missense	3687			BC038237	CCDS10711.1, CCDS67014.1	16p11.2	2010-03-23	2006-02-10		ENSG00000140678	ENSG00000140678		"CD molecules", "Complement system", "Integrins"	6152	protein-coding gene	gene with protein product		151510	"integrin, alpha X (antigen CD11C (p150), alpha polypeptide)"	CD11C		3284962, 2303426	Standard	NM_001286375		Approved	CD11c	uc002ebu.1	P20702	OTTHUMG00000132465	ENST00000268296.4:c.623G>A	16.37:g.31371302G>A	ENSP00000268296:p.Arg208His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVA6	Missense_Mutation	SNP	ENST00000268296.4	37	CCDS10711.1	.	.	.	.	.	.	.	.	.	.	G	11.36	1.616950	0.28801	.	.	ENSG00000140678	ENST00000268296	T	0.78246	-1.16	4.88	-5.48	0.02592	von Willebrand factor, type A (3);	.	.	.	.	T	0.64800	0.2631	L	0.41492	1.28	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.54002	-0.8358	9	0.56958	D	0.05	.	8.8842	0.35394	0.176:0.46:0.364:0.0	.	208	P20702	ITAX_HUMAN	H	208	ENSP00000268296:R208H	ENSP00000268296:R208H	R	+	2	0	ITGAX	31278803	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.940000	0.01543	-0.882000	0.03987	-0.670000	0.03821	CGC		0.517	ITGAX-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000255628.2	NM_000887		A	31371302	G	A	31371302	3	1	609	1	0	0	0	0	1	0	0	0	7896	1087	38	1	649	1	ITGAX	16	31371302	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	637747	31371302	58983451	103	37008										
ZNF319	57567	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	58031774	58031774	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	atcttgcagaccccacagacGaagggcttctgctcagcctg	10	14	3	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr16:58031774G>A	ENST00000299237.2	-	2	1018	c.396C>T	c.(394-396)ttC>ttT	p.F132F	USB1_ENST00000561743.1_5'Flank	NM_020807.1	NP_065858.1	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	132					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			large_intestine(2)|lung(4)|ovary(1)|urinary_tract(1)	8						CCCCACAGACGAAGGGCTTCT	0.572																																																0													59	57	57					16																	58031774		2198	4300	6498	SO:0001819	synonymous_variant	57567			AB037809	CCDS32462.1	16q21	2013-01-08				ENSG00000166188		"Zinc fingers, C2H2-type"	13644	protein-coding gene	gene with protein product						10718198, 11161788	Standard	XM_005256069		Approved	KIAA1388, Zfp319	uc002emx.1	Q9P2F9		ENST00000299237.2:c.396C>T	16.37:g.58031774G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q52LH8	Silent	SNP	ENST00000299237.2	37	CCDS32462.1																																																																																				0.572	ZNF319-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000430317.1			A	58031774	G	A	58031774	2	1	609	1	0	0	0	0	0	0	0	1	17849	1049	37	1		1	ZNF319	16	58031774	Silent	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	26660472	58031774	32322979	104	37009										
AP1G1	164	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	71772895	71772895	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cgtcatatctagctctgtgcTgttggaggcctgtatcgtta	11	9	3	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr16:71772895T>A	ENST00000299980.4	-	21	2659	c.2218A>T	c.(2218-2220)Agc>Tgc	p.S740C	AP1G1_ENST00000564155.1_Missense_Mutation_p.S165C|AP1G1_ENST00000433195.2_Missense_Mutation_p.S763C|AP1G1_ENST00000423132.2_Missense_Mutation_p.S743C|AP1G1_ENST00000569748.1_Missense_Mutation_p.S740C|AP1G1_ENST00000393512.3_Missense_Mutation_p.S743C	NM_001128.5	NP_001119.3	O43747	AP1G1_HUMAN	adaptor-related protein complex 1, gamma 1 subunit	740	GAE. {ECO:0000255|PROSITE- ProRule:PRU00093}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|endosome to melanosome transport (GO:0035646)|Golgi to lysosome transport (GO:0090160)|intracellular protein transport (GO:0006886)|melanosome organization (GO:0032438)|membrane organization (GO:0061024)|positive regulation of natural killer cell degranulation (GO:0043323)|positive regulation of natural killer cell mediated cytotoxicity (GO:0045954)|post-Golgi vesicle-mediated transport (GO:0006892)|regulation of defense response to virus by virus (GO:0050690)|viral process (GO:0016032)	AP-type membrane coat adaptor complex (GO:0030119)|clathrin adaptor complex (GO:0030131)|clathrin-coated vesicle (GO:0030136)|clathrin-coated vesicle membrane (GO:0030665)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|perinuclear region of cytoplasm (GO:0048471)|recycling endosome (GO:0055037)|trans-Golgi network membrane (GO:0032588)	GTP-dependent protein binding (GO:0030742)|kinesin binding (GO:0019894)|protein transporter activity (GO:0008565)|Rab GTPase binding (GO:0017137)|transporter activity (GO:0005215)			breast(1)|endometrium(8)|large_intestine(6)|lung(7)|ovary(4)|pancreas(1)|urinary_tract(1)	28		Ovarian(137;0.125)				AGCTCTGTGCTGTTGGAGGCC	0.418																																																0													208	183	191					16																	71772895		2198	4300	6498	SO:0001583	missense	164			Y12226	CCDS32480.1, CCDS45522.1	16q23	2009-08-03				ENSG00000166747			555	protein-coding gene	gene with protein product	"gamma1-adaptin"	603533		CLAPG1, ADTG		9653655, 9733768	Standard	NM_001128		Approved		uc010cgg.3	O43747		ENST00000299980.4:c.2218A>T	16.37:g.71772895T>A	ENSP00000299980:p.Ser740Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O75709|O75842|Q9UG09|Q9Y3U4	Missense_Mutation	SNP	ENST00000299980.4	37	CCDS32480.1	.	.	.	.	.	.	.	.	.	.	T	13.67	2.307011	0.40795	.	.	ENSG00000166747	ENST00000299980;ENST00000393512;ENST00000423132;ENST00000433195	T;T;T;T	0.44482	0.92;0.92;0.92;0.92	5.29	5.29	0.74685	Coatomer/clathrin adaptor appendage, Ig-like subdomain (1);Clathrin adaptor, gamma-adaptin, appendage (2);Clathrin adaptor, alpha/beta/gamma-adaptin, appendage, Ig-like subdomain (2);	0.135369	0.64402	D	0.000002	T	0.38878	0.1057	L	0.52905	1.665	0.49687	D	0.999819	B;B;B	0.12013	0.005;0.002;0.002	B;B;B	0.19666	0.026;0.017;0.023	T	0.26608	-1.0098	10	0.48119	T	0.1	-8.7323	10.4684	0.44622	0.1451:0.0:0.0:0.8549	.	740;763;743	O43747;B3KXW5;O43747-2	AP1G1_HUMAN;.;.	C	740;743;743;763	ENSP00000299980:S740C;ENSP00000377148:S743C;ENSP00000409153:S743C;ENSP00000403259:S763C	ENSP00000299980:S740C	S	-	1	0	AP1G1	70330396	1.000000	0.71417	1.000000	0.80357	0.870000	0.49936	3.020000	0.49643	1.996000	0.58369	0.528000	0.53228	AGC		0.418	AP1G1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000434147.1			A	71772895	T	A	71772895	3	1	609	1	0	0	0	0	1	0	0	0	732	1580	55	5	262	5	AP1G1	16	71772895	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	13741121	71772895	18581858	105	37010										
PRPF8	10594	broad.mit.edu	37	chr17	1585300	1585301	+	Frame_Shift_Ins	INS	-	-	T													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cttgaaatgcctcctatctcINSttttttctcggcgcatcata							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr17:1585300_1585301insT	ENST00000572621.1	-	4	731_732	c.466_467insA	c.(466-468)agafs	p.R156fs	PRPF8_ENST00000304992.6_Frame_Shift_Ins_p.R156fs			Q6P2Q9	PRP8_HUMAN	pre-mRNA processing factor 8	156					gene expression (GO:0010467)|mRNA processing (GO:0006397)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)	catalytic step 2 spliceosome (GO:0071013)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|U5 snRNP (GO:0005682)	poly(A) RNA binding (GO:0044822)|U5 snRNA binding (GO:0030623)|U6 snRNA binding (GO:0017070)			NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(13)|lung(24)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(5)|urinary_tract(3)	77				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		CCTCCTATCTCTTTTTTCTCGG	0.51																																																0																																										SO:0001589	frameshift_variant	10594			AB007510	CCDS11010.1	17p13.3	2013-07-16	2013-06-10		ENSG00000174231	ENSG00000174231			17340	protein-coding gene	gene with protein product		607300	"PRP8 pre-mRNA processing factor 8 homolog (yeast)", "PRP8 pre-mRNA processing factor 8 homolog (S. cerevisiae)"	RP13		11468273, 10411133	Standard	NM_006445		Approved	PRPC8, Prp8, hPrp8, SNRNP220	uc002fte.3	Q6P2Q9	OTTHUMG00000090553	ENST00000572621.1:c.467dupA	17.37:g.1585306_1585306dupT	ENSP00000460348:p.Arg156fs	Somatic		WXS	Illumina HiSeq	Phase_I	O14547|O75965	Frame_Shift_Ins	INS	ENST00000572621.1	37	CCDS11010.1																																																																																				0.51	PRPF8-002	NOVEL	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438412.2			T	1585301	-	T	1585300	7	5	609	1	0	1	1	0	0	0	0	0	12585	913	32	0	6696	0	PRPF8	17	1585300	Frame_Shift_Ins	INS	-	TCGA-HE-A5NI-01A-11D-A26P-10		1585300	79609910	106	37011										
ACACA	31	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	35615281	35615281	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tccttgattctatatagaggAatccccatggcaatctgaaa	7	9	2	3			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr17:35615281A>T	ENST00000394406.2	-	13	1594	c.1404T>A	c.(1402-1404)atT>atA	p.I468I	ACACA_ENST00000353139.5_Silent_p.I505I|ACACA_ENST00000335166.5_Silent_p.I390I|ACACA_ENST00000360679.3_Silent_p.I410I	NM_198836.1	NP_942133.1	Q13085	ACACA_HUMAN	acetyl-CoA carboxylase alpha	468	Biotin carboxylation.				acetyl-CoA metabolic process (GO:0006084)|biotin metabolic process (GO:0006768)|carnitine shuttle (GO:0006853)|cellular lipid metabolic process (GO:0044255)|energy reserve metabolic process (GO:0006112)|fatty acid biosynthetic process (GO:0006633)|lipid homeostasis (GO:0055088)|long-chain fatty-acyl-CoA biosynthetic process (GO:0035338)|malonyl-CoA biosynthetic process (GO:2001295)|multicellular organismal protein metabolic process (GO:0044268)|positive regulation of cellular metabolic process (GO:0031325)|protein homotetramerization (GO:0051289)|small molecule metabolic process (GO:0044281)|tissue homeostasis (GO:0001894)|triglyceride biosynthetic process (GO:0019432)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	acetyl-CoA carboxylase activity (GO:0003989)|ATP binding (GO:0005524)|biotin carboxylase activity (GO:0004075)|metal ion binding (GO:0046872)			NS(2)|breast(5)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(24)|lung(23)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	83		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	TATATAGAGGAATCCCCATGG	0.368																																					Colon(23;82 258 739 2117 10493 24037 27661 34815 35438 36249)											0													67	66	66					17																	35615281		2203	4300	6503	SO:0001819	synonymous_variant	31			U19822	CCDS11317.1, CCDS11318.1, CCDS42302.1, CCDS42303.1	17q21	2014-05-06	2010-04-30		ENSG00000132142	ENSG00000278540	6.4.1.2		84	protein-coding gene	gene with protein product	"acetyl-CoA carboxylase 1"	200350	"acetyl-Coenzyme A carboxylase alpha"	ACAC, ACC			Standard	NM_198837		Approved	ACC1	uc002hno.3	Q13085	OTTHUMG00000188463	ENST00000394406.2:c.1404T>A	17.37:g.35615281A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RP68|Q6KEV6|Q6XDA8|Q7Z2G8|Q7Z561|Q7Z563|Q7Z564|Q86WB2|Q86WB3	Silent	SNP	ENST00000394406.2	37	CCDS11317.1																																																																																				0.368	ACACA-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256696.1	NM_198836		T	35615281	A	T	35615281	2	4	609	1	0	0	0	0	0	0	0	1	106	242	9	5		5	ACACA	17	35615281	Silent	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10	34029981	35615281	45579929	107	37012										
KRT23	25984	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	39092459	39092459	+	Splice_Site	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cagggtcacccagcatcttaCctgctcctgcaggtgtgtga	11	13	2	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr17:39092459C>G	ENST00000209718.3	-	2	821		c.e2+1		KRT23_ENST00000582283.1_5'Flank|AC004231.2_ENST00000418393.1_RNA|KRT23_ENST00000436344.3_Intron	NM_015515.3	NP_056330.3	Q9C075	K1C23_HUMAN	keratin 23 (histone deacetylase inducible)							intermediate filament (GO:0005882)	structural molecule activity (GO:0005198)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(10)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	21		Breast(137;0.000301)|Ovarian(249;0.15)				CAGCATCTTACCTGCTCCTGC	0.517																																																0													55	57	56					17																	39092459		2203	4300	6503	SO:0001630	splice_region_variant	25984			AF102848	CCDS11380.1, CCDS62182.1	17q21.2	2013-01-16			ENSG00000108244	ENSG00000108244		"-", "Intermediate filaments type I, keratins (acidic)"	6438	protein-coding gene	gene with protein product		606194				11135429, 16831889	Standard	NM_015515		Approved	K23, DKFZP434G032, HAIK1, CK23, MGC26158	uc002hvm.1	Q9C075	OTTHUMG00000133376	ENST00000209718.3:c.396+1G>C	17.37:g.39092459C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K084|B7Z7J2|I3L3Q6|Q9NUR6	Splice_Site	SNP	ENST00000209718.3	37	CCDS11380.1	.	.	.	.	.	.	.	.	.	.	C	13.33	2.205300	0.39003	.	.	ENSG00000108244	ENST00000209718	.	.	.	5.73	5.73	0.89815	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	19.8915	0.96931	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	KRT23	36345985	1.000000	0.71417	1.000000	0.80357	0.197000	0.23852	7.797000	0.85911	2.707000	0.92482	0.557000	0.71058	.		0.517	KRT23-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257223.1		Intron	G	39092459	C	G	39092459	5	3	609	1	0	0	0	0	0	0	1	0	8467	521	18	4	903	4	KRT23	17	39092459	Splice_Site	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	3477178	39092459	42102751	108	37013										
PSMD12	5718	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	65362549	65362549	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttggctagcttcgcacactcGggtaggcgctgatccaccgt	12	13	0	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr17:65362549G>C	ENST00000356126.3	-	1	194	c.87C>G	c.(85-87)ccC>ccG	p.P29P	PSMD12_ENST00000581618.1_5'UTR|PSMD12_ENST00000357146.4_Silent_p.P29P	NM_002816.3	NP_002807.1	O00232	PSD12_HUMAN	proteasome (prosome, macropain) 26S subunit, non-ATPase, 12	29					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|cellular nitrogen compound metabolic process (GO:0034641)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|negative regulation of apoptotic process (GO:0043066)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|viral process (GO:0016032)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|proteasome accessory complex (GO:0022624)|proteasome complex (GO:0000502)|proteasome regulatory particle (GO:0005838)				breast(1)|large_intestine(4)|lung(6)|pancreas(1)|urinary_tract(1)	13	all_cancers(12;2.38e-11)|all_epithelial(3;8.27e-13)					TCGCACACTCGGGTAGGCGCT	0.706																																																0													40	31	34					17																	65362549		2203	4299	6502	SO:0001819	synonymous_variant	5718			AB003103	CCDS11669.1, CCDS11670.1	17q24.3	2008-05-22			ENSG00000197170	ENSG00000197170		"Proteasome (prosome, macropain) subunits"	9557	protein-coding gene	gene with protein product		604450				9426256	Standard	NM_002816		Approved	p55, Rpn5	uc002jfy.3	O00232	OTTHUMG00000140376	ENST00000356126.3:c.87C>G	17.37:g.65362549G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NP15|Q53HA2|Q6P053	Silent	SNP	ENST00000356126.3	37	CCDS11669.1																																																																																				0.706	PSMD12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277103.1	NM_002816, NM_174871		C	65362549	G	C	65362549	2	2	609	1	0	0	0	0	0	0	0	1	12705	1103	39	4		4	PSMD12	17	65362549	Silent	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	26270090	65362549	15832661	109	37014										
TRIM47	91107	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	73872839	73872839	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gcctggactgtgcaatgccaGcacccagctcgtccatgcgg	12	15	0	0	rs377764139		TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr17:73872839G>A	ENST00000254816.2	-	2	757	c.731C>T	c.(730-732)gCt>gTt	p.A244V	TRIM47_ENST00000587339.1_Missense_Mutation_p.A6V|RP11-552F3.9_ENST00000586076.1_RNA	NM_033452.2	NP_258411.2	Q96LD4	TRI47_HUMAN	tripartite motif containing 47	244						cytoplasm (GO:0005737)|nucleus (GO:0005634)	zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(3)|endometrium(1)|large_intestine(3)|lung(7)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	22			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)			TGCAATGCCAGCACCCAGCTC	0.587																																																0													170	119	136					17																	73872839		2203	4300	6503	SO:0001583	missense	91107			AY026763	CCDS32737.1	17q25	2013-01-09	2011-01-25			ENSG00000132481		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	19020	protein-coding gene	gene with protein product		611041	"tripartite motif-containing 47"				Standard	NM_033452		Approved	GOA, RNF100	uc002jpw.3	Q96LD4		ENST00000254816.2:c.731C>T	17.37:g.73872839G>A	ENSP00000254816:p.Ala244Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q96AD0|Q96GU5|Q9BRN7	Missense_Mutation	SNP	ENST00000254816.2	37	CCDS32737.1	.	.	.	.	.	.	.	.	.	.	G	14.00	2.404309	0.42613	.	.	ENSG00000132481	ENST00000254816	T	0.45276	0.9	4.91	4.91	0.64330	.	0.105328	0.42682	D	0.000664	T	0.27524	0.0676	N	0.24115	0.695	0.37335	D	0.910149	B	0.02656	0.0	B	0.06405	0.002	T	0.14783	-1.0460	10	0.39692	T	0.17	.	9.121	0.36786	0.097:0.0:0.903:0.0	.	244	Q96LD4	TRI47_HUMAN	V	244	ENSP00000254816:A244V	ENSP00000254816:A244V	A	-	2	0	TRIM47	71384434	0.747000	0.28283	0.927000	0.36925	0.785000	0.44390	3.752000	0.55172	2.560000	0.86352	0.511000	0.50034	GCT		0.587	TRIM47-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000448934.1			A	73872839	G	A	73872839	3	1	609	1	0	0	0	0	1	0	0	0	16534	971	34	2	1205	2	TRIM47	17	73872839	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	8510290	73872839	7322371	110	37015										
OSBPL1A	114876	ucsc.edu;bcgsc.ca	37	chr18	21914248	21914248	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gttttgccttctcttgctgcTgctaaaagtaattcttcaag	7	9	3	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr18:21914248T>C	ENST00000319481.3	-	6	647	c.441A>G	c.(439-441)gcA>gcG	p.A147A		NM_080597.3	NP_542164.2	Q9BXW6	OSBL1_HUMAN	oxysterol binding protein-like 1A	147	Interaction with RAB7A.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cholesterol metabolic process (GO:0008203)|lipid transport (GO:0006869)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|late endosome (GO:0005770)|lysosomal membrane (GO:0005765)|nucleus (GO:0005634)	cholesterol binding (GO:0015485)|phospholipid binding (GO:0005543)			breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(16)|ovary(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	36	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)					CTCTTGCTGCTGCTAAAAGTA	0.363																																																0													138	125	129					18																	21914248		2203	4297	6500	SO:0001819	synonymous_variant	114876			AF392449, AF274714	CCDS11884.1, CCDS11885.1, CCDS56056.1	18q11.2	2014-06-03	2014-06-03	2014-06-03	ENSG00000141447	ENSG00000141447		"Oxysterol binding proteins", "Ankyrin repeat domain containing"	16398	protein-coding gene	gene with protein product		606730	"oxysterol binding protein-like 1B"	OSBPL1B		11279184, 10588946	Standard	NM_080597		Approved	ORP-1, ORP1	uc002kve.3	Q9BXW6	OTTHUMG00000131944	ENST00000319481.3:c.441A>G	18.37:g.21914248T>C		Somatic		WXS	Illumina HiSeq		B7Z7D3|Q9BZF5|Q9NW87	Silent	SNP	ENST00000319481.3	37	CCDS11884.1																																																																																				0.363	OSBPL1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254902.1	NM_080597		C	21914248	T	C	21914248	2	2	609	1	0	0	0	0	0	0	0	1	11284	1567	55	3		3	OSBPL1A	18	21914248	Silent	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10		21914248	56163000	111	37016										
B4GALT6	9331	bcgsc.ca	37	chr18	29218694	29218694	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	aaaattggaagatgttcatgGcgattacggaaaggaatgag	13	3	1	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr18:29218694G>A	ENST00000306851.5	-	5	797	c.501C>T	c.(499-501)cgC>cgT	p.R167R	B4GALT6_ENST00000237019.7_Silent_p.R128R|B4GALT6_ENST00000383131.3_Intron	NM_004775.3	NP_004766.2	Q9UBX8	B4GT6_HUMAN	UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 6	167	UDP-alpha-D-galactose binding. {ECO:0000250}.				carbohydrate metabolic process (GO:0005975)|cellular protein metabolic process (GO:0044267)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate metabolic process (GO:0042339)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)|small molecule metabolic process (GO:0044281)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	galactosyltransferase activity (GO:0008378)|metal ion binding (GO:0046872)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(6)|lung(6)|pancreas(1)	20			OV - Ovarian serous cystadenocarcinoma(10;0.00791)			GATGTTCATGGCGATTACGGA	0.353																																																0													85	84	84					18																	29218694		2203	4300	6503	SO:0001819	synonymous_variant	9331			AF038664	CCDS11900.1	18q11	2013-02-19			ENSG00000118276	ENSG00000118276		"Beta 4-glycosyltransferases"	929	protein-coding gene	gene with protein product	"UDP-Gal:glucosylceramide beta-1,4-galactosyltransferase"	604017				9597550, 12180132	Standard	NM_004775		Approved	beta4GalT-VI	uc002kwz.4	Q9UBX8	OTTHUMG00000131980	ENST00000306851.5:c.501C>T	18.37:g.29218694G>A		Somatic		WXS	Illumina HiSeq	Phase_1	O60514|Q6NT09	Silent	SNP	ENST00000306851.5	37	CCDS11900.1																																																																																				0.353	B4GALT6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254942.2	NM_004775		A	29218694	G	A	29218694	2	1	609	1	0	0	0	0	0	0	0	1	1275	1190	42	2		2	B4GALT6	18	29218694	Silent	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	7304446	29218694	48858554	112	37017										
MADCAM1	8174	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	504882	504883	+	Missense_Mutation	DNP	CC	CC	AT													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ctgaggacgacacccacccaCcagcttctctgaggcttctg							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr19:504882_504883CC>AT	ENST00000215637.3	+	5	1112_1113	c.1066_1067CC>AT	c.(1066-1068)CCa>ATa	p.P356I	MADCAM1_ENST00000382683.4_Missense_Mutation_p.P174I|TPGS1_ENST00000359315.5_5'Flank|MADCAM1_ENST00000346144.4_Missense_Mutation_p.P269I|AC005775.2_ENST00000592413.1_RNA|MADCAM1_ENST00000587541.1_Missense_Mutation_p.P137I	NM_130760.2	NP_570116.2	Q13477	MADCA_HUMAN	mucosal vascular addressin cell adhesion molecule 1	356					aging (GO:0007568)|cell adhesion (GO:0007155)|cell-matrix adhesion (GO:0007160)|embryo development (GO:0009790)|extracellular matrix organization (GO:0030198)|heterotypic cell-cell adhesion (GO:0034113)|immune response (GO:0006955)|integrin-mediated signaling pathway (GO:0007229)|keratinocyte differentiation (GO:0030216)|leukocyte tethering or rolling (GO:0050901)|positive regulation of leukocyte migration (GO:0002687)|receptor clustering (GO:0043113)|regulation of immune response (GO:0050776)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	integrin binding involved in cell-matrix adhesion (GO:0098640)			central_nervous_system(1)|endometrium(1)|kidney(1)|lung(4)|prostate(1)|skin(2)	10		all_cancers(10;4.25e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CACCCACCCACCAGCTTCTCTG	0.673																																																0																																										SO:0001583	missense	8174			U43628	CCDS12028.1, CCDS12029.1	19p13.3	2013-01-11			ENSG00000099866	ENSG00000099866		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6765	protein-coding gene	gene with protein product	"mucosal addressin cell adhesion molecule-1"	102670				9162097, 8609404	Standard	NM_130762		Approved	MACAM1	uc002los.3	Q13477	OTTHUMG00000180548	Exception_encountered	19.37:g.504882_504883delinsAT	ENSP00000215637:p.Pro356Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKV4|B2RPL9|O60222|O75867|Q5UGI7	Missense_Mutation	DNP	ENST00000215637.3	37	CCDS12028.1																																																																																				0.673	MADCAM1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451884.1	NM_130760		AT	504883	CC	AT	504882	3	1	609	1	0	0	0	0	1	0	0	0	9158	507	18	4	1084	4	MADCAM1	19	504882	Missense_Mutation	DNP	CC	TCGA-HE-A5NI-01A-11D-A26P-10		504882	58624101	113	37018										
PLIN4	729359	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	4511773	4511773	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gcaccggtcaccccactgcaGacggtgtccttggtaccagt	11	15	1	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr19:4511773G>A	ENST00000301286.3	-	3	2156	c.2157C>T	c.(2155-2157)gtC>gtT	p.V719V		NM_001080400.1	NP_001073869.1	Q96Q06	PLIN4_HUMAN	perilipin 4	719	27 X 33 AA approximate tandem repeat.					cytoplasm (GO:0005737)|lipid particle (GO:0005811)|plasma membrane (GO:0005886)				NS(2)|breast(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(14)|ovary(1)|skin(2)|soft_tissue(1)|stomach(2)	41						CCCCACTGCAGACGGTGTCCT	0.572																																																0													210	212	211					19																	4511773		2098	4206	6304	SO:0001819	synonymous_variant	729359			AB067468	CCDS45927.1	19p13.3	2009-10-06	2009-08-12	2009-08-12	ENSG00000167676	ENSG00000167676		"Perilipins"	29393	protein-coding gene	gene with protein product		613247	"KIAA1881"	KIAA1881		11572484, 19638644	Standard	NM_001080400		Approved	S3-12	uc002mar.1	Q96Q06	OTTHUMG00000167571	ENST00000301286.3:c.2157C>T	19.37:g.4511773G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NEI2	Silent	SNP	ENST00000301286.3	37	CCDS45927.1																																																																																				0.572	PLIN4-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395095.1	XM_170901		A	4511773	G	A	4511773	2	1	609	1	0	0	0	0	0	0	0	1	12099	929	33	2		2	PLIN4	19	4511773	Silent	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	4006891	4511773	54617210	114	37019										
PLIN3	10226	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	4839279	4839279	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	agccacgtgacaggtgtgttCtgggccacatattccaccat	10	12	1	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr19:4839279C>G	ENST00000221957.4	-	8	1406	c.1230G>C	c.(1228-1230)caG>caC	p.Q410H	PLIN3_ENST00000585479.1_Missense_Mutation_p.Q409H|PLIN3_ENST00000592528.1_Missense_Mutation_p.Q398H|CTC-518P12.6_ENST00000591657.1_RNA	NM_001164189.1|NM_001164194.1|NM_005817.4	NP_001157661.1|NP_001157666.1|NP_005808.3	O60664	PLIN3_HUMAN	perilipin 3	410					vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|lipid particle (GO:0005811)|membrane (GO:0016020)				cervix(1)|endometrium(2)|large_intestine(2)|lung(2)|ovary(1)|prostate(1)	9					Galsulfase(DB01279)|Idursulfase(DB01271)	CAGGTGTGTTCTGGGCCACAT	0.632																																																0													66	70	69					19																	4839279		2203	4300	6503	SO:0001583	missense	10226			AF051314	CCDS12137.1, CCDS59337.1, CCDS59338.1	19p13.3	2009-08-12	2009-08-12	2009-08-12		ENSG00000105355		"Perilipins"	16893	protein-coding gene	gene with protein product	"cargo selection protein (mannose 6 phosphate receptor binding protein)", "placental protein 17", "MPR-BINDING PROTEIN, 47-KD"	602702	"mannose-6-phosphate receptor binding protein 1"	M6PRBP1		9590177, 6856484, 19638644	Standard	NM_005817		Approved	TIP47, PP17	uc002mbj.2	O60664		ENST00000221957.4:c.1230G>C	19.37:g.4839279C>G	ENSP00000221957:p.Gln410His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4Y9|K7EQF4|Q53G77|Q9BS03|Q9UBD7|Q9UP92	Missense_Mutation	SNP	ENST00000221957.4	37	CCDS12137.1	.	.	.	.	.	.	.	.	.	.	C	7.106	0.575129	0.13623	.	.	ENSG00000105355	ENST00000221957	T	0.18960	2.18	4.97	2.65	0.31530	.	0.938934	0.08920	N	0.874576	T	0.19287	0.0463	L	0.28192	0.835	0.34333	D	0.68787	B;B;B	0.23249	0.027;0.082;0.033	B;B;B	0.25140	0.022;0.058;0.038	T	0.21690	-1.0238	10	0.37606	T	0.19	-13.9129	16.1339	0.81465	0.0:0.4858:0.5141:0.0	.	409;227;410	O60664-3;O60664-2;O60664	.;.;PLIN3_HUMAN	H	410	ENSP00000221957:Q410H	ENSP00000221957:Q410H	Q	-	3	2	PLIN3	4790279	1.000000	0.71417	0.992000	0.48379	0.108000	0.19459	0.655000	0.24933	1.042000	0.40150	0.561000	0.74099	CAG		0.632	PLIN3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000450436.1	NM_005817		G	4839279	C	G	4839279	3	3	609	1	0	0	0	0	1	0	0	0	12098	912	32	4	78	4	PLIN3	19	4839279	Missense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	327506	4839279	54289704	115	37020										
PLIN3	10226	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	4839466	4839466	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cattggtggggaggccctgaAtgctggaccccagggaggta	17	9	0	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr19:4839466A>C	ENST00000221957.4	-	8	1219	c.1043T>G	c.(1042-1044)aTt>aGt	p.I348S	PLIN3_ENST00000585479.1_Missense_Mutation_p.I347S|PLIN3_ENST00000592528.1_Missense_Mutation_p.I336S|CTC-518P12.6_ENST00000591657.1_RNA	NM_001164189.1|NM_001164194.1|NM_005817.4	NP_001157661.1|NP_001157666.1|NP_005808.3	O60664	PLIN3_HUMAN	perilipin 3	348					vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|lipid particle (GO:0005811)|membrane (GO:0016020)				cervix(1)|endometrium(2)|large_intestine(2)|lung(2)|ovary(1)|prostate(1)	9					Galsulfase(DB01279)|Idursulfase(DB01271)	GAGGCCCTGAATGCTGGACCC	0.647																																																0													37	31	33					19																	4839466		2203	4300	6503	SO:0001583	missense	10226			AF051314	CCDS12137.1, CCDS59337.1, CCDS59338.1	19p13.3	2009-08-12	2009-08-12	2009-08-12		ENSG00000105355		"Perilipins"	16893	protein-coding gene	gene with protein product	"cargo selection protein (mannose 6 phosphate receptor binding protein)", "placental protein 17", "MPR-BINDING PROTEIN, 47-KD"	602702	"mannose-6-phosphate receptor binding protein 1"	M6PRBP1		9590177, 6856484, 19638644	Standard	NM_005817		Approved	TIP47, PP17	uc002mbj.2	O60664		ENST00000221957.4:c.1043T>G	19.37:g.4839466A>C	ENSP00000221957:p.Ile348Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4Y9|K7EQF4|Q53G77|Q9BS03|Q9UBD7|Q9UP92	Missense_Mutation	SNP	ENST00000221957.4	37	CCDS12137.1	.	.	.	.	.	.	.	.	.	.	A	14.10	2.433232	0.43224	.	.	ENSG00000105355	ENST00000221957	T	0.20332	2.08	4.85	4.85	0.62838	.	422.645000	0.01670	U	0.025543	T	0.50120	0.1597	M	0.78637	2.42	0.27909	N	0.93868	D;P;D	0.56746	0.971;0.937;0.977	P;P;D	0.64506	0.879;0.698;0.926	T	0.06881	-1.0802	10	0.87932	D	0	-13.3555	9.052	0.36383	0.9163:0.0:0.0837:0.0	.	347;165;348	O60664-3;O60664-2;O60664	.;.;PLIN3_HUMAN	S	348	ENSP00000221957:I348S	ENSP00000221957:I348S	I	-	2	0	PLIN3	4790466	0.801000	0.28930	0.975000	0.42487	0.034000	0.12701	3.474000	0.53129	1.817000	0.53016	0.454000	0.30748	ATT		0.647	PLIN3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000450436.1	NM_005817		C	4839466	A	C	4839466	3	2	609	1	0	0	0	0	1	0	0	0	12098	101	4	5	265	5	PLIN3	19	4839466	Missense_Mutation	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10	187	4839466	54289517	116	37021										
DCAF15	90379	hgsc.bcm.edu;broad.mit.edu	37	chr19	14070072	14070072	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tcttccgccgggccaaagagGccaagggcggggtccctgag	16	13	1	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr19:14070072G>A	ENST00000254337.6	+	7	1021	c.1000G>A	c.(1000-1002)Gcc>Acc	p.A334T		NM_138353.2	NP_612362.2	Q66K64	DCA15_HUMAN	DDB1 and CUL4 associated factor 15	334					protein ubiquitination (GO:0016567)					breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(5)|ovary(1)|pancreas(1)	11						GGCCAAAGAGGCCAAGGGCGG	0.682																																																0													27	35	32					19																	14070072		2203	4300	6503	SO:0001583	missense	90379			BC002926	CCDS32926.1	19p13.12	2009-07-17	2009-07-17	2009-07-17	ENSG00000132017	ENSG00000132017		"DDB1 and CUL4 associated factors"	25095	protein-coding gene	gene with protein product			"chromosome 19 open reading frame 72"	C19orf72			Standard	NM_138353		Approved	MGC99481	uc002mxt.3	Q66K64		ENST00000254337.6:c.1000G>A	19.37:g.14070072G>A	ENSP00000254337:p.Ala334Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KS86|Q96DW0|Q9BU31	Missense_Mutation	SNP	ENST00000254337.6	37	CCDS32926.1	.	.	.	.	.	.	.	.	.	.	g	32	5.112699	0.94339	.	.	ENSG00000132017	ENST00000254337	.	.	.	4.46	4.46	0.54185	.	0.085620	0.44097	D	0.000488	T	0.60470	0.2271	L	0.29908	0.895	0.41151	D	0.986027	D	0.54207	0.965	P	0.55871	0.786	T	0.65998	-0.6032	9	0.62326	D	0.03	-24.0048	15.8605	0.79017	0.0:0.0:1.0:0.0	.	334	Q66K64	DCA15_HUMAN	T	334	.	ENSP00000254337:A334T	A	+	1	0	DCAF15	13931072	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	5.504000	0.66968	2.043000	0.60533	0.491000	0.48974	GCC		0.682	DCAF15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458099.1	NM_138353		A	14070072	G	A	14070072	3	1	609	1	0	0	0	0	1	0	0	0	4269	1203	42	2	1026	2	DCAF15	19	14070072	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	9230606	14070072	45058911	117	37022										
TECR	9524	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	14674655	14674657	+	In_Frame_Del	DEL	CGT	CGT	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gatgttctgcagaagctgccCgtgggcaccacggccacact					rs367952165|rs201634024		TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	CGT	CGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr19:14674655_14674657delCGT	ENST00000215567.5	+	5	344_346	c.207_209delCGT	c.(205-210)cccgtg>ccg	p.V70del	TECR_ENST00000600083.1_5'UTR|TECR_ENST00000596073.1_5'UTR|TECR_ENST00000436007.2_In_Frame_Del_p.V85del|TECR_ENST00000596164.1_3'UTR	NM_138501.5	NP_612510.1	Q9NZ01	TECR_HUMAN	trans-2,3-enoyl-CoA reductase	70					cellular lipid metabolic process (GO:0044255)|fatty acid elongation (GO:0030497)|long-chain fatty-acyl-CoA biosynthetic process (GO:0035338)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)|very long-chain fatty acid biosynthetic process (GO:0042761)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of endoplasmic reticulum membrane (GO:0030176)|nucleus (GO:0005634)	oxidoreductase activity, acting on the CH-CH group of donors (GO:0016627)			endometrium(1)|large_intestine(1)|ovary(1)	3						AGAAGCTGCCCGTGGGCACCACG	0.66																																																0																																										SO:0001651	inframe_deletion	9524			AK001416	CCDS12313.1	19p13.12	2014-05-27	2009-07-21	2009-07-21	ENSG00000099797	ENSG00000099797			4551	protein-coding gene	gene with protein product		610057	"glycoprotein, synaptic 2"	SC2, GPSN2		9653160, 12482854	Standard	NM_138501		Approved	TER, MRT14	uc002mza.3	Q9NZ01		ENST00000215567.5:c.207_209delCGT	19.37:g.14674655_14674657delCGT	ENSP00000215567:p.Val70del	Somatic		WXS	Illumina HiSeq	Phase_I	B2RD55|O75350|Q6IBB2|Q9BWK3|Q9Y6P0	In_Frame_Del	DEL	ENST00000215567.5	37	CCDS12313.1																																																																																				0.66	TECR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466000.1	NM_138501		-	14674657	CGT	-	14674655	7	5	609	1	0	1	0	1	0	0	0	0	15757	639	23	0	225	0	TECR	19	14674655	In_Frame_Del	DEL	CGT	TCGA-HE-A5NI-01A-11D-A26P-10	604583	14674655	44454328	118	37023										
NAPA	8775	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	47996229	47996229	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tgtccccacctgttcgtagaTgtcaatggccttctgatact	8	12	2	2			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr19:47996229T>C	ENST00000263354.3	-	7	849	c.550A>G	c.(550-552)Atc>Gtc	p.I184V	NAPA_ENST00000595227.1_Missense_Mutation_p.I145V|NAPA-AS1_ENST00000593284.1_RNA|NAPA-AS1_ENST00000594367.1_RNA|NAPA_ENST00000593785.1_5'Flank	NM_003827.3	NP_003818.2	P54920	SNAA_HUMAN	N-ethylmaleimide-sensitive factor attachment protein, alpha	184					apical protein localization (GO:0045176)|brain development (GO:0007420)|intra-Golgi vesicle-mediated transport (GO:0006891)|intracellular protein transport (GO:0006886)|membrane fusion (GO:0061025)|membrane organization (GO:0061024)|neuron differentiation (GO:0030182)|post-Golgi vesicle-mediated transport (GO:0006892)|regulation of synaptic vesicle priming (GO:0010807)|SNARE complex disassembly (GO:0035494)|synaptic transmission, glutamatergic (GO:0035249)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|synaptobrevin 2-SNAP-25-syntaxin-1a complex (GO:0070044)				breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(3)	11		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)		TGTTCGTAGATGTCAATGGCC	0.607																																					Ovarian(185;1135 2042 27703 31345 42493)											0													113	101	105					19																	47996229		2203	4300	6503	SO:0001583	missense	8775			U39412	CCDS12702.1	19q13.33	2012-08-16			ENSG00000105402	ENSG00000105402			7641	protein-coding gene	gene with protein product	"alpha SNAP"	603215				9269766	Standard	NM_003827		Approved		uc002pha.2	P54920		ENST00000263354.3:c.550A>G	19.37:g.47996229T>C	ENSP00000263354:p.Ile184Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K879|Q96IK3|Q9BVJ3	Missense_Mutation	SNP	ENST00000263354.3	37	CCDS12702.1	.	.	.	.	.	.	.	.	.	.	T	13.73	2.323538	0.41096	.	.	ENSG00000105402	ENST00000263354	T	0.76448	-1.02	5.16	5.16	0.70880	Tetratricopeptide-like helical (1);	0.000000	0.85682	D	0.000000	T	0.77605	0.4155	M	0.76170	2.325	0.80722	D	1	B	0.16603	0.018	B	0.20577	0.03	T	0.75190	-0.3405	10	0.45353	T	0.12	-33.228	14.1002	0.65049	0.0:0.0:0.0:1.0	.	184	P54920	SNAA_HUMAN	V	184	ENSP00000263354:I184V	ENSP00000263354:I184V	I	-	1	0	NAPA	52688041	1.000000	0.71417	1.000000	0.80357	0.456000	0.32438	7.585000	0.82584	2.168000	0.68352	0.496000	0.49642	ATC		0.607	NAPA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466048.2	NM_003827		C	47996229	T	C	47996229	3	2	609	1	0	0	0	0	1	0	0	0	10168	1464	51	3	357	3	NAPA	19	47996229	Missense_Mutation	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10	33321574	47996229	11132754	119	37024										
ZNF836	162962	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	52658860	52658860	+	Frame_Shift_Del	DEL	T	T	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	aactcattacaattgtaaggTttctctccagtatgaattat							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr19:52658860delT	ENST00000322146.8	-	5	2597	c.2076delA	c.(2074-2076)aaafs	p.K692fs	CTC-471J1.8_ENST00000594362.1_RNA|ZNF836_ENST00000597252.1_Frame_Shift_Del_p.K692fs	NM_001102657.1	NP_001096127.1	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	692					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(2)|kidney(2)|large_intestine(9)|lung(10)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	26						AATTGTAAGGTTTCTCTCCAG	0.393																																																0													71	76	74					19																	52658860		2071	4245	6316	SO:0001589	frameshift_variant	162962			BC011784	CCDS46162.1	19q13.33	2013-01-08			ENSG00000196267	ENSG00000196267		"Zinc fingers, C2H2-type", "-"	34333	protein-coding gene	gene with protein product							Standard	NM_001102657		Approved	FLJ16287	uc010ydj.2	Q6ZNA1		ENST00000322146.8:c.2076delA	19.37:g.52658860delT	ENSP00000325038:p.Lys692fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000322146.8	37	CCDS46162.1																																																																																				0.393	ZNF836-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462456.1	NM_001102657		-	52658860	T	-	52658860	7	5	609	1	0	1	0	1	0	0	0	0	18199	1722	60	0	736	0	ZNF836	19	52658860	Frame_Shift_Del	DEL	T	TCGA-HE-A5NI-01A-11D-A26P-10	4662631	52658860	6470123	120	37025										
BRSK1	84446	broad.mit.edu	37	chr19	55805597	55805597	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ctcaggtccccccattatgcGtgtccagaggtgattaaggt	11	11	1	2	rs374051558		TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr19:55805597G>T	ENST00000309383.1	+	6	868	c.591G>T	c.(589-591)gcG>gcT	p.A197A	BRSK1_ENST00000585418.1_Silent_p.A197A|BRSK1_ENST00000590333.1_Silent_p.A213A	NM_032430.1	NP_115806.1	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	197	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				axonogenesis (GO:0007409)|cellular response to DNA damage stimulus (GO:0006974)|centrosome duplication (GO:0051298)|establishment of cell polarity (GO:0030010)|G2 DNA damage checkpoint (GO:0031572)|neuron differentiation (GO:0030182)|neurotransmitter secretion (GO:0007269)|protein phosphorylation (GO:0006468)|response to UV (GO:0009411)	cell junction (GO:0030054)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)	ATP binding (GO:0005524)|gamma-tubulin binding (GO:0043015)|magnesium ion binding (GO:0000287)|protein serine/threonine kinase activity (GO:0004674)|tau-protein kinase activity (GO:0050321)	p.A197A(2)		NS(1)|breast(1)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(12)|lung(15)|ovary(2)|prostate(2)|skin(6)|stomach(1)	48		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0474)		CCCATTATGCGTGTCCAGAGG	0.617																																																2	Substitution - coding silent(2)	large_intestine(2)											82	84	83					19																	55805597		2203	4300	6503	SO:0001819	synonymous_variant	84446			AB058714	CCDS12921.1	19q13.4	2008-02-05				ENSG00000160469			18994	protein-coding gene	gene with protein product		609235				14976552	Standard	NM_032430		Approved	KIAA1811	uc002qkg.3	Q8TDC3		ENST00000309383.1:c.591G>T	19.37:g.55805597G>T		Somatic		WXS	Illumina HiSeq	Phase_I	F1DG44|Q5J5B5|Q8NDD0|Q8NDR4|Q8TDC2|Q96AV4|Q96JL4	Silent	SNP	ENST00000309383.1	37	CCDS12921.1																																																																																				0.617	BRSK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452787.1	NM_032430		T	55805597	G	T	55805597	2	4	609	1	0	0	0	0	0	0	0	1	1525	1132	40	4		4	BRSK1	19	55805597	Silent	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	3146737	55805597	3323386	121	37026										
ZNF274	10782	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	58723654	58723658	+	Frame_Shift_Del	DEL	TACCT	TACCT	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ttgtcctctacattagaagaTaccttgcagggtggggtcca							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	TACCT	TACCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr19:58723654_58723658delTACCT	ENST00000326804.4	+	9	1563_1567	c.1104_1108delTACCT	c.(1102-1110)gataccttgfs	p.TL369fs	ZNF274_ENST00000345813.3_Frame_Shift_Del_p.TL337fs|ZNF274_ENST00000424679.2_Frame_Shift_Del_p.TL264fs|ZNF274_ENST00000597818.1_3'UTR	NM_001278734.1|NM_133502.1	NP_001265663.1|NP_598009.1	Q96GC6	ZN274_HUMAN	zinc finger protein 274	370					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			breast(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(13)|ovary(1)|prostate(1)|skin(1)	21		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		CATTAGAAGATACCTTGCAGGGTGG	0.483																																																0																																										SO:0001589	frameshift_variant	10782			AB029149	CCDS74473.1, CCDS74474.1, CCDS74475.1, CCDS74476.1	19q13.43	2013-01-09				ENSG00000171606		"Zinc fingers, C2H2-type", "-", "-", "-"	13068	protein-coding gene	gene with protein product		605467				10777669	Standard	NM_133502		Approved	ZKSCAN19, ZSCAN51	uc002qrs.1	Q96GC6		ENST00000326804.4:c.1104_1108delTACCT	19.37:g.58723654_58723658delTACCT	ENSP00000321209:p.Thr369fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q53XU4|Q6MZG1|Q8WY37|Q8WY38|Q92969|Q9UII0|Q9UII1	Targeted_Region	DEL	ENST00000326804.4	37																																																																																					0.483	ZNF274-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_133502		-	58723658	TACCT	-	58723654	7	5	609	1	0	1	0	1	0	0	0	0	17821	1403	49	0	1132	0	ZNF274	19	58723654	Frame_Shift_Del	DEL	TACCT	TCGA-HE-A5NI-01A-11D-A26P-10	2918057	58723654	405329	122	37027										
ZNF274	10782	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	58724017	58724017	+	Silent	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tgtaggaaaaccttcagtcgGagtactaaacagattacgtt	9	7	1	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr19:58724017G>C	ENST00000326804.4	+	9	1926	c.1467G>C	c.(1465-1467)cgG>cgC	p.R489R	ZNF274_ENST00000345813.3_Silent_p.R457R|ZNF274_ENST00000424679.2_Silent_p.R384R|ZNF274_ENST00000597818.1_3'UTR	NM_001278734.1|NM_133502.1	NP_001265663.1|NP_598009.1	Q96GC6	ZN274_HUMAN	zinc finger protein 274	490					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			breast(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(13)|ovary(1)|prostate(1)|skin(1)	21		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.215)		CCTTCAGTCGGAGTACTAAAC	0.388																																																0													91	91	91					19																	58724017		1893	4106	5999	SO:0001819	synonymous_variant	10782			AB029149	CCDS74473.1, CCDS74474.1, CCDS74475.1, CCDS74476.1	19q13.43	2013-01-09				ENSG00000171606		"Zinc fingers, C2H2-type", "-", "-", "-"	13068	protein-coding gene	gene with protein product		605467				10777669	Standard	NM_133502		Approved	ZKSCAN19, ZSCAN51	uc002qrs.1	Q96GC6		ENST00000326804.4:c.1467G>C	19.37:g.58724017G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q53XU4|Q6MZG1|Q8WY37|Q8WY38|Q92969|Q9UII0|Q9UII1	Silent	SNP	ENST00000326804.4	37																																																																																					0.388	ZNF274-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_133502		C	58724017	G	C	58724017	2	2	609	1	0	0	0	0	0	0	0	1	17821	1161	41	4		4	ZNF274	19	58724017	Silent	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	363	58724017	404966	123	37028										
MZF1	7593	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	59082640	59082640	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cgcaggcgtgcagcttcaggGcctgggtcccataaggcagc	15	13	1	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr19:59082640G>A	ENST00000215057.2	-	2	677	c.117C>T	c.(115-117)ggC>ggT	p.G39G	MZF1_ENST00000594108.1_Silent_p.G39G|AC016629.8_ENST00000600534.1_RNA|MZF1_ENST00000599369.1_Silent_p.G39G|AC016629.8_ENST00000593642.1_RNA|AC016629.8_ENST00000600726.1_RNA|MZF1_ENST00000594234.1_Silent_p.G39G	NM_001267033.1|NM_198055.1	NP_001253962.1|NP_932172.1	P28698	MZF1_HUMAN	myeloid zinc finger 1	39					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(2)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0443)|all cancers(4;7.92e-14)|Epithelial(4;5.57e-11)|OV - Ovarian serous cystadenocarcinoma(4;1.13e-09)|GBM - Glioblastoma multiforme(193;0.0108)|Lung(386;0.182)		CAGCTTCAGGGCCTGGGTCCC	0.657																																																0													26	29	28					19																	59082640		2203	4300	6503	SO:0001819	synonymous_variant	7593			M58297	CCDS12988.1, CCDS59427.1	19q13.43	2014-08-22	2006-06-15	2006-06-15	ENSG00000099326	ENSG00000099326		"-", "Zinc fingers, C2H2-type"	13108	protein-coding gene	gene with protein product		194550	"zinc finger protein 42 (myeloid-specific retinoic acid-responsive)"	ZNF42		1860835	Standard	NM_198055		Approved	ZSCAN6, MZF1B, MZF-1, Zfp98	uc002qtn.3	P28698	OTTHUMG00000183550	ENST00000215057.2:c.117C>T	19.37:g.59082640G>A		Somatic		WXS	Illumina HiSeq	Phase_I	M0QXU0|Q7Z729|Q96I71|Q9NRY0|Q9UBW2	Silent	SNP	ENST00000215057.2	37	CCDS12988.1																																																																																				0.657	MZF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467112.1	NM_198055		A	59082640	G	A	59082640	2	1	609	1	0	0	0	0	0	0	0	1	10115	1190	42	2		2	MZF1	19	59082640	Silent	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	358623	59082640	46343	124	37029										
PLCB1	23236	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	8608961	8608961	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gaccccaaattacgtgaactTttggatgtggggaacatcgg	12	8	0	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr20:8608961T>G	ENST00000338037.6	+	4	294	c.267T>G	c.(265-267)ctT>ctG	p.L89L	PLCB1_ENST00000378641.3_Silent_p.L89L|PLCB1_ENST00000378637.2_Silent_p.L89L	NM_015192.2	NP_056007.1	Q9NQ66	PLCB1_HUMAN	phospholipase C, beta 1 (phosphoinositide-specific)	89					activation of meiosis involved in egg activation (GO:0060466)|cerebral cortex development (GO:0021987)|fat cell differentiation (GO:0045444)|G-protein coupled acetylcholine receptor signaling pathway (GO:0007213)|G2/M transition of mitotic cell cycle (GO:0000086)|glutamate receptor signaling pathway (GO:0007215)|inositol phosphate metabolic process (GO:0043647)|insulin-like growth factor receptor signaling pathway (GO:0048009)|interleukin-1-mediated signaling pathway (GO:0070498)|interleukin-12-mediated signaling pathway (GO:0035722)|interleukin-15-mediated signaling pathway (GO:0035723)|intracellular signal transduction (GO:0035556)|lipid catabolic process (GO:0016042)|memory (GO:0007613)|negative regulation of monocyte extravasation (GO:2000438)|negative regulation of transcription, DNA-templated (GO:0045892)|phosphatidylinositol metabolic process (GO:0046488)|positive regulation of acrosome reaction (GO:2000344)|positive regulation of CD24 biosynthetic process (GO:2000560)|positive regulation of developmental growth (GO:0048639)|positive regulation of embryonic development (GO:0040019)|positive regulation of G1/S transition of mitotic cell cycle (GO:1900087)|positive regulation of GTPase activity (GO:0043547)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of JNK cascade (GO:0046330)|positive regulation of myoblast differentiation (GO:0045663)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of fertilization (GO:0080154)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nuclear chromatin (GO:0000790)|nuclear speck (GO:0016607)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|GTPase activator activity (GO:0005096)|phosphatidylinositol phospholipase C activity (GO:0004435)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|protein homodimerization activity (GO:0042803)|signal transducer activity (GO:0004871)			NS(2)|breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(11)|liver(2)|lung(41)|ovary(4)|prostate(3)|skin(12)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(4)	95						TACGTGAACTTTTGGATGTGG	0.443																																																0													78	78	78					20																	8608961		2203	4300	6503	SO:0001819	synonymous_variant	23236			AB011153	CCDS13102.1, CCDS13103.1	20p12	2008-03-18			ENSG00000182621	ENSG00000182621	3.1.4.11		15917	protein-coding gene	gene with protein product		607120				10760467, 11118617	Standard	NM_015192		Approved	KIAA0581, PLC-I, PLC154	uc002wnb.4	Q9NQ66	OTTHUMG00000031849	ENST00000338037.6:c.267T>G	20.37:g.8608961T>G		Somatic		WXS	Illumina HiSeq	Phase_I	D3DW12|D3DW13|O60325|Q17RQ6|Q5TFF7|Q5TGC9|Q8IV93|Q9BQW2|Q9H4H2|Q9H8H5|Q9NQ65|Q9NQH9|Q9NTH4|Q9UJP6|Q9UM26	Missense_Mutation	SNP	ENST00000338037.6	37	CCDS13102.1																																																																																				0.443	PLCB1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077938.3			G	8608961	T	G	8608961	2	3	609	1	0	0	0	0	0	0	0	1	12034	1828	64	5		5	PLCB1	20	8608961	Silent	SNP	T	TCGA-HE-A5NI-01A-11D-A26P-10		8608961	54416559	125	37030										
ASIP	434	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	32856797	32856797	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ccccggcgtttcccacgcagAaggaggcttcgatgaagaaa	12	12	0	3	rs538816237		TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr20:32856797A>G	ENST00000568305.1	+	4	425	c.223A>G	c.(223-225)Aag>Gag	p.K75E	RP4-785G19.5_ENST00000512005.1_RNA|ASIP_ENST00000374954.3_Splice_Site_p.K75E			P42127	ASIP_HUMAN	agouti signaling protein	75	Arg/Lys-rich (basic).				adult feeding behavior (GO:0008343)|cell-cell signaling (GO:0007267)|generation of precursor metabolites and energy (GO:0006091)|genetic imprinting (GO:0071514)|hormone-mediated signaling pathway (GO:0009755)|melanin biosynthetic process (GO:0042438)|melanosome organization (GO:0032438)|melanosome transport (GO:0032402)|regulation of molecular function, epigenetic (GO:0040030)|signal transduction (GO:0007165)	extracellular space (GO:0005615)	receptor binding (GO:0005102)			central_nervous_system(1)|lung(2)	3						TCCCACGCAGAAGGAGGCTTC	0.697													A|||	1	0.000199681	0.0	0.0	5008	,	,		12806	0.001		0.0	False		,,,				2504	0.0															0													8	11	10					20																	32856797		2188	4282	6470	SO:0001630	splice_region_variant	434				CCDS13232.1	20q11.2-q12	2010-06-24	2010-06-24		ENSG00000101440	ENSG00000101440			745	protein-coding gene	gene with protein product	"nonagouti homolog (mouse)"	600201	"agouti (mouse)-signaling protein", "agouti signaling protein, nonagouti homolog (mouse)"	AGTIL		7937887, 7757071	Standard	NM_001672		Approved	ASP	uc002xah.1	P42127	OTTHUMG00000032289	ENST00000568305.1:c.223-1A>G	20.37:g.32856797A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q3SXL2	Missense_Mutation	SNP	ENST00000568305.1	37	CCDS13232.1	.	.	.	.	.	.	.	.	.	.	A	15.14	2.744523	0.49151	.	.	ENSG00000101440	ENST00000374954	T	0.31769	1.48	4.61	4.61	0.57282	.	0.063957	0.64402	D	0.000013	T	0.48660	0.1512	M	0.82323	2.585	0.40299	D	0.978584	P	0.51240	0.943	P	0.54346	0.749	T	0.54970	-0.8213	9	.	.	.	.	10.3603	0.43989	1.0:0.0:0.0:0.0	.	75	P42127	ASIP_HUMAN	E	75	ENSP00000364092:K75E	.	K	+	1	0	ASIP	32320458	1.000000	0.71417	1.000000	0.80357	0.127000	0.20565	3.560000	0.53763	1.942000	0.56320	0.397000	0.26171	AAG		0.697	ASIP-002	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000430541.1		Missense_Mutation	G	32856797	A	G	32856797	5	3	609	1	0	0	0	0	0	0	1	0	1043	260	9	3	233	3	ASIP	20	32856797	Splice_Site	SNP	A	TCGA-HE-A5NI-01A-11D-A26P-10	24247836	32856797	30168723	126	37031										
C20orf152	140894	ucsc.edu;bcgsc.ca	37	chr20	34618475	34618475	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	agacgactaaacctcgttatCctatttttatggcaccccag	6	12	0	1			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr20:34618475C>A	ENST00000373973.3	+	12	1809	c.1636C>A	c.(1636-1638)Cct>Act	p.P546T	CNBD2_ENST00000538900.1_3'UTR|CNBD2_ENST00000349339.1_Missense_Mutation_p.P542T			Q96M20	CNBD2_HUMAN	cyclic nucleotide binding domain containing 2	546																	ACCTCGTTATCCTATTTTTAT	0.468																																																0													232	221	225					20																	34618475		2203	4300	6503	SO:0001583	missense	140894			AL359828	CCDS13270.1, CCDS56189.1	20q11.23	2012-11-15	2012-11-15	2012-11-15	ENSG00000149646	ENSG00000149646			16145	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 152", "cyclic nucleotide (cNMP) binding domain containing 1"	C20orf152, CNMPD1		11780052	Standard	NM_080834		Approved	dJ954P9.1	uc002xer.1	Q96M20	OTTHUMG00000032371	ENST00000373973.3:c.1636C>A	20.37:g.34618475C>A	ENSP00000363084:p.Pro546Thr	Somatic		WXS	Illumina HiSeq		Q14C79|Q5JWY7|Q5T3S1|Q9BR36|Q9BWY5	Missense_Mutation	SNP	ENST00000373973.3	37		.	.	.	.	.	.	.	.	.	.	C	13.10	2.134926	0.37728	.	.	ENSG00000149646	ENST00000373973;ENST00000349339	T;T	0.25250	1.81;1.81	5.26	4.31	0.51392	.	0.000000	0.56097	D	0.000033	T	0.39963	0.1098	L	0.46157	1.445	0.80722	D	1	D	0.89917	1.0	D	0.75484	0.986	T	0.13308	-1.0514	10	0.72032	D	0.01	-16.0468	9.1274	0.36824	0.0:0.9017:0.0:0.0983	.	542	Q96M20-2	.	T	546;542	ENSP00000363084:P546T;ENSP00000340954:P542T	ENSP00000340954:P542T	P	+	1	0	C20orf152	34081889	0.002000	0.14202	0.900000	0.35374	0.020000	0.10135	0.206000	0.17375	2.634000	0.89283	0.561000	0.74099	CCT		0.468	CNBD2-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000078960.2	NM_080834		A	34618475	C	A	34618475	3	1	609	1	0	0	0	0	1	0	0	0	2094	855	30	4	1670	4	C20orf152	20	34618475	Missense_Mutation	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	1761678	34618475	28407045	127	37032										
SALL4	57167	hgsc.bcm.edu;bcgsc.ca	37	chr20	50401006	50401006	+	Frame_Shift_Del	DEL	A	A	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ccccactctggatcacagagAtctcattggtcttcacggcc							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr20:50401006delA	ENST00000217086.4	-	4	3071	c.2960delT	c.(2959-2961)atcfs	p.I987fs	SALL4_ENST00000371539.3_Frame_Shift_Del_p.I210fs|SALL4_ENST00000395997.3_Frame_Shift_Del_p.I550fs	NM_020436.3	NP_065169.1	Q9UJQ4	SALL4_HUMAN	spalt-like transcription factor 4	987					embryonic limb morphogenesis (GO:0030326)|inner cell mass cell proliferation (GO:0001833)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neural tube closure (GO:0001843)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|stem cell maintenance (GO:0019827)|transcription, DNA-templated (GO:0006351)|ventricular septum development (GO:0003281)	cytoplasm (GO:0005737)|heterochromatin (GO:0000792)|nucleus (GO:0005634)|protein complex (GO:0043234)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(27)|ovary(5)|prostate(2)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	63						GATCACAGAGATCTCATTGGT	0.572																																																0													85	78	80					20																	50401006		2203	4300	6503	SO:0001589	frameshift_variant	57167			AK001666	CCDS13438.1	20q13.2	2014-09-17	2013-10-17		ENSG00000101115	ENSG00000101115		"Zinc fingers, C2H2-type"	15924	protein-coding gene	gene with protein product		607343	"sal (Drosophila)-like 4", "sal-like 4 (Drosophila)"				Standard	NM_020436		Approved	dJ1112F19.1, ZNF797	uc002xwh.4	Q9UJQ4	OTTHUMG00000032752	ENST00000217086.4:c.2960delT	20.37:g.50401006delA	ENSP00000217086:p.Ile987fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2D8|Q540H3|Q6Y8G6	Frame_Shift_Del	DEL	ENST00000217086.4	37	CCDS13438.1																																																																																				0.572	SALL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079738.3			-	50401006	A	-	50401006	7	5	609	1	0	1	0	1	0	0	0	0	13826	333	12	0	205	0	SALL4	20	50401006	Frame_Shift_Del	DEL	A	TCGA-HE-A5NI-01A-11D-A26P-10	15782531	50401006	12624514	128	37033										
ARVCF	421	hgsc.bcm.edu	37	chr22	19967432	19967432	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cgcacctcagcccgcgggtgGtccagcagtgccacaagcag	13	16	1	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr22:19967432G>T	ENST00000263207.3	-	6	1521	c.1230C>A	c.(1228-1230)gaC>gaA	p.D410E	ARVCF_ENST00000344269.3_Missense_Mutation_p.D347E|ARVCF_ENST00000406522.1_Missense_Mutation_p.D347E|ARVCF_ENST00000401994.1_Missense_Mutation_p.D347E|ARVCF_ENST00000487793.1_5'Flank|ARVCF_ENST00000406259.1_Missense_Mutation_p.D410E	NM_001670.2	NP_001661.1	O00192	ARVC_HUMAN	armadillo repeat gene deleted in velocardiofacial syndrome	410					calcium-dependent cell-cell adhesion (GO:0016339)|cell adhesion (GO:0007155)|multicellular organismal development (GO:0007275)|single organismal cell-cell adhesion (GO:0016337)	cytoplasm (GO:0005737)|intracellular (GO:0005622)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				NS(1)|cervix(1)|endometrium(3)|liver(1)|lung(4)|prostate(1)|urinary_tract(2)	13	Colorectal(54;0.0993)					CCCGCGGGTGGTCCAGCAGTG	0.682																																																0													19	19	19					22																	19967432		2178	4274	6452	SO:0001583	missense	421				CCDS13771.1	22q11.21	2013-02-14	2010-04-28		ENSG00000099889	ENSG00000099889		"Armadillo repeat containing"	728	protein-coding gene	gene with protein product		602269				9126485, 15456900	Standard	NM_001670		Approved		uc002zqz.3	O00192	OTTHUMG00000030426	ENST00000263207.3:c.1230C>A	22.37:g.19967432G>T	ENSP00000263207:p.Asp410Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B7WNV2	Missense_Mutation	SNP	ENST00000263207.3	37	CCDS13771.1	.	.	.	.	.	.	.	.	.	.	G	16.60	3.167282	0.57476	.	.	ENSG00000099889	ENST00000263207;ENST00000344269;ENST00000401994;ENST00000406522;ENST00000406259	T;T;T;T;T	0.48522	0.81;0.81;0.81;0.81;0.81	4.51	-0.0128	0.13987	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.42040	0.1185	L	0.28115	0.83	0.50171	D	0.999858	P	0.39601	0.68	P	0.51742	0.678	T	0.11966	-1.0566	9	.	.	.	-21.2014	9.1754	0.37109	0.4923:0.0:0.5077:0.0	.	410	O00192	ARVC_HUMAN	E	410;347;347;347;410	ENSP00000263207:D410E;ENSP00000342042:D347E;ENSP00000384341:D347E;ENSP00000384732:D347E;ENSP00000385444:D410E	.	D	-	3	2	ARVCF	18347432	0.997000	0.39634	0.997000	0.53966	0.684000	0.39900	0.345000	0.19979	0.012000	0.14892	-0.131000	0.14894	GAC		0.682	ARVCF-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000075314.5	NM_001670		T	19967432	G	T	19967432	3	4	609	1	0	0	0	0	1	0	0	0	1003	1252	44	4	1714	4	ARVCF	22	19967432	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10		19967432	31337134	129	37034										
YPEL1	29799	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	22064932	22064932	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cttgccttggagatgagctcGtcatgattggccaggtgtgc	14	9	1	3			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr22:22064932G>C	ENST00000339468.3	-	2	485	c.102C>G	c.(100-102)gaC>gaG	p.D34E	YPEL1_ENST00000403503.1_Missense_Mutation_p.D34E	NM_013313.3	NP_037445.1	O60688	YPEL1_HUMAN	yippee-like 1 (Drosophila)	34						nucleus (GO:0005634)				breast(1)|large_intestine(1)|lung(1)	3	Colorectal(54;0.105)					AGATGAGCTCGTCATGATTGG	0.438																																																0													317	269	285					22																	22064932		2203	4300	6503	SO:0001583	missense	29799			AF060862	CCDS13794.1	22q11.2	2008-02-04	2001-11-28		ENSG00000100027	ENSG00000100027			12845	protein-coding gene	gene with protein product		608082	"yippee (Drosophila) homolog-like 1"			11473580	Standard	NM_013313		Approved		uc002zvl.3	O60688	OTTHUMG00000150830	ENST00000339468.3:c.102C>G	22.37:g.22064932G>C	ENSP00000342832:p.Asp34Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q65ZA1|Q6GLI6	Missense_Mutation	SNP	ENST00000339468.3	37	CCDS13794.1	.	.	.	.	.	.	.	.	.	.	G	14.09	2.432950	0.43224	.	.	ENSG00000100027	ENST00000339468;ENST00000403503	.	.	.	4.86	-7.17	0.01511	.	0.000000	0.85682	D	0.000000	T	0.45175	0.1329	L	0.31065	0.9	0.53688	D	0.999971	B	0.15930	0.015	B	0.19666	0.026	T	0.02721	-1.1119	9	0.36615	T	0.2	.	16.9342	0.86199	0.6194:0.0:0.3806:0.0	.	34	O60688	YPEL1_HUMAN	E	34	.	ENSP00000342832:D34E	D	-	3	2	YPEL1	20394932	0.300000	0.24435	0.368000	0.25939	0.764000	0.43329	-0.146000	0.10250	-2.011000	0.00952	-2.069000	0.00389	GAC		0.438	YPEL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320245.1	NM_013313		C	22064932	G	C	22064932	3	2	609	1	0	0	0	0	1	0	0	0	17501	1136	40	4	273	4	YPEL1	22	22064932	Missense_Mutation	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	2097500	22064932	29239634	130	37035										
LARGE	9215	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	33679190	33679190	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gcagctagagccactcacctGaatgtgaagagggtccccat	11	12	1	4			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chr22:33679190G>A	ENST00000354992.2	-	14	2446	c.1875C>T	c.(1873-1875)ttC>ttT	p.F625F	LARGE_ENST00000402320.1_Silent_p.F573F|LARGE_ENST00000452586.2_Silent_p.F424F|LARGE_ENST00000437602.2_Intron|LARGE_ENST00000397394.2_Silent_p.F625F|LARGE_ENST00000337431.2_Silent_p.F573F	NM_004737.4	NP_004728.1	O95461	LARGE_HUMAN	like-glycosyltransferase	625					glycoprotein biosynthetic process (GO:0009101)|glycosphingolipid biosynthetic process (GO:0006688)|muscle cell cellular homeostasis (GO:0046716)|N-acetylglucosamine metabolic process (GO:0006044)|protein glycosylation (GO:0006486)	integral component of Golgi membrane (GO:0030173)	acetylglucosaminyltransferase activity (GO:0008375)|transferase activity, transferring glycosyl groups (GO:0016757)			breast(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(13)|lung(23)|ovary(1)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	51		Lung NSC(1;0.219)				CCACTCACCTGAATGTGAAGA	0.552																																					Colon(70;397 1175 4573 19089 45288)											0													140	124	129					22																	33679190		2203	4300	6503	SO:0001819	synonymous_variant	9215			AJ007583	CCDS13912.1	22q12.3	2013-02-22			ENSG00000133424	ENSG00000133424		"Glycosyltransferase family 8 domain containing"	6511	protein-coding gene	gene with protein product		603590				9892679, 10591208, 12966029	Standard	NM_004737		Approved	KIAA0609	uc003ane.4	O95461	OTTHUMG00000150914	ENST00000354992.2:c.1875C>T	22.37:g.33679190G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B0QXZ7|O60348|Q17R80|Q9UGD1|Q9UGE7|Q9UGG3|Q9UGZ8|Q9UH22	Silent	SNP	ENST00000354992.2	37	CCDS13912.1																																																																																				0.552	LARGE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320515.2	NM_133642		A	33679190	G	A	33679190	2	1	609	1	0	0	0	0	0	0	0	1	8634	1281	45	2		2	LARGE	22	33679190	Silent	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	11614258	33679190	17625376	131	37036										
SFRS17A	8227	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	1714402	1714403	+	Missense_Mutation	DNP	GG	GG	AA													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	cgcagagagaaggaagcggaGgagaggcagcgagcggagga							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chrX:1714402_1714403GG>AA	ENST00000313871.3	+	3	1084_1085	c.888_889GG>AA	c.(886-891)gaGGag>gaAAag	p.E297K	AKAP17A_ENST00000381261.3_Missense_Mutation_p.E297K	NM_005088.2	NP_005079.2	Q02040	AK17A_HUMAN	A kinase (PRKA) anchor protein 17A	297					B cell activation (GO:0042113)|mRNA processing (GO:0006397)|regulation of RNA splicing (GO:0043484)|regulation of transcription, DNA-templated (GO:0006355)|RNA splicing (GO:0008380)|signal transduction (GO:0007165)	nuclear speck (GO:0016607)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein kinase A binding (GO:0051018)			breast(2)|endometrium(5)|kidney(3)|large_intestine(1)|lung(12)|prostate(3)	26						AGGAAGCGGAGGAGAGGCAGCG	0.604																																																0																																										SO:0001583	missense	8227			L03426	CCDS14116.1	Xp22.33 and Yp11.32	2010-09-08	2010-09-08	2010-09-08	ENSG00000197976	ENSG00000197976		"Pseudoautosomal regions / PAR1", "A-kinase anchor proteins"	18783	protein-coding gene	gene with protein product		312095, 465000	"chromosome X and Y open reading frame 3", "splicing factor, arginine/serine-rich 17A"	CXYorf3, SFRS17A		9736779, 1438229, 19840947	Standard	NR_027383		Approved	XE7, XE7Y, DXYS155E, MGC39904, 721P, CCDC133	uc004cqa.3	Q02040	OTTHUMG00000021063	Exception_encountered	X.37:g.1714402_1714403delinsAA	ENSP00000324827:p.Glu297Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q02832|Q2TB98|Q5JQ74|Q5JQ76|Q8N6U9	Missense_Mutation	DNP	ENST00000313871.3	37	CCDS14116.1																																																																																				0.604	AKAP17A-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055609.2	NM_005088		AA	1714403	GG	AA	1714402	3	1	609	1	0	0	0	0	1	0	0	0	14186	991	35	2	894	2	SFRS17A	23	1714402	Missense_Mutation	DNP	GG	TCGA-HE-A5NI-01A-11D-A26P-10		1714402	153556158	132	37037										
BCOR	54880	hgsc.bcm.edu;bcgsc.ca	37	chrX	39923132	39923132	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	tcaatgcacaccttcaggttGgtcagctcactataatgtgg	9	10	4	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chrX:39923132G>T	ENST00000378444.4	-	8	3804	c.3576C>A	c.(3574-3576)acC>acA	p.T1192T	BCOR_ENST00000397354.3_Intron|BCOR_ENST00000378455.4_Intron|BCOR_ENST00000342274.4_Intron|BCOR_ENST00000378463.1_Intron	NM_001123385.1	NP_001116857.1	Q6W2J9	BCOR_HUMAN	BCL6 corepressor	1192					heart development (GO:0007507)|histone H2A monoubiquitination (GO:0035518)|negative regulation of bone mineralization (GO:0030502)|negative regulation of histone H3-K36 methylation (GO:0000415)|negative regulation of histone H3-K4 methylation (GO:0051572)|negative regulation of tooth mineralization (GO:0070171)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|odontogenesis (GO:0042476)|palate development (GO:0060021)|specification of axis polarity (GO:0065001)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	heat shock protein binding (GO:0031072)|histone deacetylase binding (GO:0042826)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			breast(4)|central_nervous_system(11)|cervix(1)|endometrium(24)|eye(6)|haematopoietic_and_lymphoid_tissue(33)|kidney(2)|large_intestine(11)|lung(22)|ovary(2)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	126						CCTTCAGGTTGGTCAGCTCAC	0.453			"F, N, S, T"	RARA	"retinoblastoma, AML, APL(translocation)"		oculo-facio-cardio-dental genetic																																Rec	yes		X	Xp11.4	54880	BCL6 corepressor	yes		0													57	55	55					X																	39923132		2202	4300	6502	SO:0001819	synonymous_variant	54880			AF317391	CCDS14250.1, CCDS48092.1, CCDS48093.1	Xp11.4	2014-09-17	2010-06-10		ENSG00000183337	ENSG00000183337		"Ankyrin repeat domain containing"	20893	protein-coding gene	gene with protein product		300485	"BCL6 co-repressor"			10898795	Standard	NM_017745		Approved	FLJ20285, KIAA1575	uc004den.4	Q6W2J9	OTTHUMG00000024100	ENST00000378444.4:c.3576C>A	X.37:g.39923132G>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DWB3|D3DWB4|Q29RF6|Q6P4B6|Q7Z2K7|Q8TEB4|Q96DB3|Q9H232|Q9H233|Q9HCJ7|Q9NXF2	Silent	SNP	ENST00000378444.4	37	CCDS48093.1																																																																																				0.453	BCOR-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000060666.2	NM_017745		T	39923132	G	T	39923132	2	4	609	1	0	0	0	0	0	0	0	1	1386	1335	47	4		4	BCOR	23	39923132	Silent	SNP	G	TCGA-HE-A5NI-01A-11D-A26P-10	38208730	39923132	115347428	133	37038										
GATA1	2623	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	48650855	48650855	+	Frame_Shift_Del	DEL	A	A	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	atgggcagaacaggcccctcAtccggcccaagaagcgcctg							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chrX:48650855delA	ENST00000376670.3	+	4	835	c.724delA	c.(724-726)atcfs	p.I242fs	GATA1_ENST00000376665.3_Frame_Shift_Del_p.I242fs	NM_002049.3	NP_002040.1	P15976	GATA1_HUMAN	GATA binding protein 1 (globin transcription factor 1)	242					basophil differentiation (GO:0030221)|blood coagulation (GO:0007596)|cell-cell signaling (GO:0007267)|cellular response to thyroid hormone stimulus (GO:0097067)|dendritic cell differentiation (GO:0097028)|embryonic hemopoiesis (GO:0035162)|eosinophil differentiation (GO:0030222)|eosinophil fate commitment (GO:0035854)|erythrocyte development (GO:0048821)|erythrocyte differentiation (GO:0030218)|in utero embryonic development (GO:0001701)|male gonad development (GO:0008584)|megakaryocyte differentiation (GO:0030219)|negative regulation of apoptotic process (GO:0043066)|negative regulation of bone mineralization (GO:0030502)|negative regulation of cell proliferation (GO:0008285)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription regulatory region DNA binding (GO:2000678)|platelet aggregation (GO:0070527)|platelet formation (GO:0030220)|positive regulation of erythrocyte differentiation (GO:0045648)|positive regulation of osteoblast proliferation (GO:0033690)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of definitive erythrocyte differentiation (GO:0010724)|regulation of glycoprotein biosynthetic process (GO:0010559)|transcription from RNA polymerase II promoter (GO:0006366)|transcriptional activation by promoter-enhancer looping (GO:0071733)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)|transcriptional repressor complex (GO:0017053)	C2H2 zinc finger domain binding (GO:0070742)|chromatin DNA binding (GO:0031490)|DNA binding (GO:0003677)|DNA binding, bending (GO:0008301)|enhancer sequence-specific DNA binding (GO:0001158)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription factor binding (GO:0001085)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region sequence-specific DNA binding (GO:0000976)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(259)|large_intestine(8)|lung(9)|prostate(1)	283						CAGGCCCCTCATCCGGCCCAA	0.562			"Mis, F"		megakaryoblastic leukemia of Downs Syndrome																																Pancreas(9;429 505 11287 29617)		Dom	yes		X	Xp11.23	2623	GATA binding protein 1 (globin transcription factor 1)		L	0													62	58	59					X																	48650855		2203	4300	6503	SO:0001589	frameshift_variant	2623			X17254	CCDS14305.1	Xp11.23	2014-09-17	2001-11-28		ENSG00000102145	ENSG00000102145		"GATA zinc finger domain containing"	4170	protein-coding gene	gene with protein product	"nuclear factor, erythroid 1"	305371	"GATA-binding protein 1 (globin transcription factor 1)"	GF1		1999341	Standard	NM_002049		Approved	ERYF1, NFE1, GATA-1, NF-E1	uc004dkq.4	P15976	OTTHUMG00000021504	ENST00000376670.3:c.724delA	X.37:g.48650855delA	ENSP00000365858:p.Ile242fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q96GB8	Frame_Shift_Del	DEL	ENST00000376670.3	37	CCDS14305.1																																																																																				0.562	GATA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056517.1	NM_002049		-	48650855	A	-	48650855	7	5	609	1	0	1	0	1	0	0	0	0	6260	217	8	0	734	0	GATA1	23	48650855	Frame_Shift_Del	DEL	A	TCGA-HE-A5NI-01A-11D-A26P-10	8727723	48650855	106619705	134	37039										
DCX	1641	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	110654011	110654011	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	ctcctatcaaattggaacttCgggctaaatacattaaaact	5	9	1	0			TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chrX:110654011C>T	ENST00000338081.3	-	1	363	c.192G>A	c.(190-192)ccG>ccA	p.P64P	DCX_ENST00000496551.1_Intron|DCX_ENST00000488120.1_Intron|DCX_ENST00000371993.2_Intron|DCX_ENST00000356915.2_Intron|DCX_ENST00000356220.3_Intron	NM_000555.3	NP_000546.2	O43602	DCX_HUMAN	doublecortin	64					axon extension (GO:0048675)|axon guidance (GO:0007411)|brain development (GO:0007420)|central nervous system development (GO:0007417)|central nervous system projection neuron axonogenesis (GO:0021952)|dendrite morphogenesis (GO:0048813)|intracellular signal transduction (GO:0035556)|nervous system development (GO:0007399)|neuron migration (GO:0001764)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|neuron projection (GO:0043005)	microtubule binding (GO:0008017)|protein kinase binding (GO:0019901)			breast(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(10)|lung(17)|skin(6)|upper_aerodigestive_tract(1)	41						ATTGGAACTTCGGGCTAAATA	0.433																																																0													167	158	161					X																	110654011		2203	4300	6503	SO:0001819	synonymous_variant	1641			AF040254	CCDS14556.1, CCDS14557.1, CCDS14558.1	Xq22.3-q23	2008-08-01	2008-08-01		ENSG00000077279	ENSG00000077279			2714	protein-coding gene	gene with protein product	"doublecortex"	300121	"doublecortex; lissencephaly, X-linked (doublecortin)"			9489699, 9489700	Standard	NM_178151		Approved	SCLH, DC, LISX, DBCN, XLIS	uc004epd.3	O43602	OTTHUMG00000022204	ENST00000338081.3:c.192G>A	X.37:g.110654011C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NFY6|A9Z1V8|D3DUY8|D3DUY9|D3DUZ0|O43911|Q5JYZ5	Silent	SNP	ENST00000338081.3	37	CCDS14556.1	.	.	.	.	.	.	.	.	.	.	c	4.746	0.138661	0.09083	.	.	ENSG00000077279	ENST00000358070	.	.	.	4.44	4.44	0.53790	.	.	.	.	.	T	0.60287	0.2257	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.57688	-0.7768	4	.	.	.	.	9.6932	0.40141	0.0:0.7737:0.2263:0.0	.	.	.	.	Q	56	.	.	R	-	2	0	DCX	110540667	0.959000	0.32827	1.000000	0.80357	0.995000	0.86356	1.431000	0.34925	2.442000	0.82660	0.509000	0.49947	CGA		0.433	DCX-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000357058.1	NM_178153		T	110654011	C	T	110654011	2	4	609	1	0	0	0	0	0	0	0	1	4320	871	31	1		1	DCX	23	110654011	Silent	SNP	C	TCGA-HE-A5NI-01A-11D-A26P-10	62003156	110654011	44616549	135	37040										
PRRG3	79057	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	150869380	150869380	+	Frame_Shift_Del	DEL	C	C	-													0.0827067669172932	11	1	1.6050232802151	2.48049052396878	1.12749569271308	1	1	0	gactgtccagcaccacccctCccccctcctacgaggaggtg							TCGA-HE-A5NI-01A-11D-A26P-10	TCGA-HE-A5NI-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	40a609bb-2c8f-4146-83c4-e7b0d1b23619	a08286b5-7084-40d6-bbfe-9601634344bc	g.chrX:150869380delC	ENST00000370353.3	+	4	961	c.571delC	c.(571-573)cccfs	p.P192fs	PRRG3_ENST00000538575.1_Frame_Shift_Del_p.P192fs			Q9BZD7	TMG3_HUMAN	proline rich Gla (G-carboxyglutamic acid) 3 (transmembrane)	192						extracellular region (GO:0005576)|integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(6)|ovary(3)|prostate(2)|skin(3)	24	Acute lymphoblastic leukemia(192;6.56e-05)					CACCACCCCTCCCCCCTCCTA	0.647																																																0													55	44	48					X																	150869380		2203	4300	6503	SO:0001589	frameshift_variant	79057			AK074574	CCDS14699.1	Xq28	2008-02-05			ENSG00000130032	ENSG00000130032			30798	protein-coding gene	gene with protein product		300685				11171957	Standard	NM_024082		Approved	TMG3	uc022cgt.1	Q9BZD7	OTTHUMG00000024170	ENST00000370353.3:c.571delC	X.37:g.150869380delC	ENSP00000359378:p.Pro192fs	Somatic		WXS	Illumina HiSeq	Phase_I	A1A523|A1A575|Q8N2N6	Frame_Shift_Del	DEL	ENST00000370353.3	37	CCDS14699.1																																																																																				0.647	PRRG3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060880.1	NM_024082		-	150869380	C	-	150869380	7	5	609	1	0	1	0	1	0	0	0	0	12617	855	30	0	581	0	PRRG3	23	150869380	Frame_Shift_Del	DEL	C	TCGA-HE-A5NI-01A-11D-A26P-10	40215369	150869380	4401180	136	37041										
ARID1A	8289	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	27106015	27106015	+	Frame_Shift_Del	DEL	C	C	-													0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ggcctcacgcaccctgcccaCcagcccctcggaagcatgtg							TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr1:27106015delC	ENST00000324856.7	+	20	5997	c.5626delC	c.(5626-5628)ccafs	p.P1876fs	ARID1A_ENST00000457599.2_Frame_Shift_Del_p.P1659fs|ARID1A_ENST00000540690.1_Frame_Shift_Del_p.P204fs|ARID1A_ENST00000374152.2_Frame_Shift_Del_p.P1493fs	NM_006015.4	NP_006006.3	O14497	ARI1A_HUMAN	AT rich interactive domain 1A (SWI-like)	1876					androgen receptor signaling pathway (GO:0030521)|ATP-dependent chromatin remodeling (GO:0043044)|cardiac chamber development (GO:0003205)|chromatin remodeling (GO:0006338)|chromatin-mediated maintenance of transcription (GO:0048096)|forebrain development (GO:0030900)|glucocorticoid receptor signaling pathway (GO:0042921)|intracellular estrogen receptor signaling pathway (GO:0030520)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neural tube closure (GO:0001843)|nucleosome disassembly (GO:0006337)|nucleosome mobilization (GO:0042766)|optic cup formation involved in camera-type eye development (GO:0003408)|placenta blood vessel development (GO:0060674)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|SWI/SNF complex (GO:0016514)	DNA binding (GO:0003677)|ligand-dependent nuclear receptor binding (GO:0016922)|transcription coactivator activity (GO:0003713)		ARID1A/MAST2_ENST00000361297(2)	NS(1)|autonomic_ganglia(1)|biliary_tract(1)|breast(13)|central_nervous_system(6)|cervix(2)|endometrium(56)|haematopoietic_and_lymphoid_tissue(8)|kidney(10)|large_intestine(41)|liver(31)|lung(34)|ovary(130)|pancreas(18)|prostate(8)|skin(9)|stomach(14)|upper_aerodigestive_tract(4)|urinary_tract(24)	411		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)		ACCCTGCCCACCAGCCCCTCG	0.622			"Mis, N, F, S, D"		"clear cell ovarian carcinoma, RCC"																																		Rec	yes		1	1p35.3	8289	AT rich interactive domain 1A (SWI-like)		E	0													64	70	68					1																	27106015		2203	4300	6503	SO:0001589	frameshift_variant	8289			AB001895	CCDS285.1, CCDS44091.1	1p36.1-p35	2014-09-17	2006-11-08	2004-01-30	ENSG00000117713	ENSG00000117713		"-"	11110	protein-coding gene	gene with protein product		603024	"SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily f, member 1", "AT rich interactive domain 1A (SWI- like)"	C1orf4, SMARCF1		9630625, 9434167	Standard	NM_139135		Approved	B120, P270, C10rf4, BAF250, BAF250a	uc001bmv.1	O14497	OTTHUMG00000004004	ENST00000324856.7:c.5626delC	1.37:g.27106015delC	ENSP00000320485:p.Pro1876fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPL1|Q53FK9|Q5T0W1|Q5T0W2|Q5T0W3|Q8NFD6|Q96T89|Q9BY33|Q9HBJ5|Q9UPZ1	Frame_Shift_Del	DEL	ENST00000324856.7	37	CCDS285.1																																																																																				0.622	ARID1A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000011437.2	NM_139135		-	27106015	C	-	27106015	7	5	610	1	0	1	0	1	0	0	0	0	913	507	18	0	5704	0	ARID1A	1	27106015	Frame_Shift_Del	DEL	C	TCGA-HE-A5NJ-01A-11D-A26P-10		27106015	222144606	1	37042										
TMEM125	128218	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	43739036	43739036	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gtcacgagaccacatccagcAttgccagcctcatctgacgg	9	15	3	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr1:43739036A>G	ENST00000432792.2	+	4	1213	c.643A>G	c.(643-645)Att>Gtt	p.I215V	TMEM125_ENST00000439858.1_Missense_Mutation_p.I215V			Q96AQ2	TM125_HUMAN	transmembrane protein 125	215						integral component of membrane (GO:0016021)				breast(1)|large_intestine(1)|lung(1)	3	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CACATCCAGCATTGCCAGCCT	0.627																																																0													35	29	31					1																	43739036		2203	4300	6503	SO:0001583	missense	128218			BC016858	CCDS480.1	1p34.2	2006-02-16			ENSG00000179178	ENSG00000179178			28275	protein-coding gene	gene with protein product							Standard	NM_144626		Approved	MGC17299	uc021oml.1	Q96AQ2	OTTHUMG00000007288	ENST00000432792.2:c.643A>G	1.37:g.43739036A>G	ENSP00000429275:p.Ile215Val	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPX1	Missense_Mutation	SNP	ENST00000432792.2	37	CCDS480.1	.	.	.	.	.	.	.	.	.	.	A	13.78	2.340390	0.41498	.	.	ENSG00000179178	ENST00000439858;ENST00000432792	T;T	0.44482	0.92;0.92	4.91	4.91	0.64330	.	0.123297	0.53938	D	0.000057	T	0.28599	0.0708	N	0.19112	0.55	0.29819	N	0.830963	P	0.34462	0.454	B	0.31337	0.128	T	0.19844	-1.0293	10	0.36615	T	0.2	.	14.5656	0.68173	1.0:0.0:0.0:0.0	.	215	Q96AQ2	TM125_HUMAN	V	215	ENSP00000429775:I215V;ENSP00000429275:I215V	ENSP00000429275:I215V	I	+	1	0	TMEM125	43511623	1.000000	0.71417	0.997000	0.53966	0.784000	0.44337	2.906000	0.48735	1.842000	0.53543	0.460000	0.39030	ATT		0.627	TMEM125-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019032.2	NM_144626		G	43739036	A	G	43739036	3	3	610	1	0	0	0	0	1	0	0	0	16049	217	8	3	645	3	TMEM125	1	43739036	Missense_Mutation	SNP	A	TCGA-HE-A5NJ-01A-11D-A26P-10	16633021	43739036	205511585	2	37043										
RPTN	126638	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	152127305	152127305	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	cttcatgggtttgcctgtctCgtctctgatggctctgctca	10	12	5	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr1:152127305C>T	ENST00000316073.3	-	3	2334	c.2270G>A	c.(2269-2271)cGa>cAa	p.R757Q		NM_001122965.1	NP_001116437.1	Q6XPR3	RPTN_HUMAN	repetin	757	Gln-rich.					cornified envelope (GO:0001533)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)			breast(2)|central_nervous_system(1)|endometrium(14)|kidney(2)|large_intestine(1)|lung(32)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	59						TTGCCTGTCTCGTCTCTGATG	0.512																																																0													835	660	713					1																	152127305		1568	3582	5150	SO:0001583	missense	126638			AK096436	CCDS41397.1	1q21.3	2013-01-10			ENSG00000215853	ENSG00000215853		"EF-hand domain containing"	26809	protein-coding gene	gene with protein product		613259				15854042	Standard	NM_001122965		Approved	FLJ39117	uc001ezs.1	Q6XPR3	OTTHUMG00000154095	ENST00000316073.3:c.2270G>A	1.37:g.152127305C>T	ENSP00000317895:p.Arg757Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBZ3	Missense_Mutation	SNP	ENST00000316073.3	37	CCDS41397.1	.	.	.	.	.	.	.	.	.	.	C	4.873	0.162231	0.09287	.	.	ENSG00000215853	ENST00000316073;ENST00000541545	T	0.12569	2.67	5.46	-6.92	0.01644	.	1.609200	0.05690	N	0.591997	T	0.02688	0.0081	N	0.25286	0.73	0.09310	N	1	B	0.13145	0.007	B	0.06405	0.002	T	0.25187	-1.0139	10	0.29301	T	0.29	0.289	14.9735	0.71251	0.0:0.6643:0.0:0.3357	.	757	Q6XPR3	RPTN_HUMAN	Q	757;412	ENSP00000317895:R757Q	ENSP00000317895:R757Q	R	-	2	0	RPTN	150393929	0.000000	0.05858	0.000000	0.03702	0.087000	0.18053	-1.478000	0.02329	-2.128000	0.00818	-1.183000	0.01708	CGA		0.512	RPTN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333867.1	XM_371312		T	152127305	C	T	152127305	3	4	610	1	0	0	0	0	1	0	0	0	13677	884	31	1	88	1	RPTN	1	152127305	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	108388269	152127305	97123316	3	37044										
NUP210L	91181	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	154108401	154108401	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	agacccgttaagtgcaactcTatggtcttgcaattccagta	8	10	2	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr1:154108401T>C	ENST00000368559.3	-	7	969	c.898A>G	c.(898-900)Aga>Gga	p.R300G	NUP210L_ENST00000271854.3_Missense_Mutation_p.R300G	NM_207308.2	NP_997191.2	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like	300					Sertoli cell development (GO:0060009)|spermatid development (GO:0007286)	integral component of membrane (GO:0016021)				NS(1)|breast(6)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(12)|lung(34)|ovary(4)|pancreas(1)|prostate(2)|skin(6)|urinary_tract(2)	80	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			AGTGCAACTCTATGGTCTTGC	0.418																																																0													108	99	102					1																	154108401		1876	4103	5979	SO:0001583	missense	91181			AK125924	CCDS41399.1, CCDS53370.1	1q21.3	2008-02-05			ENSG00000143552	ENSG00000143552			29915	protein-coding gene	gene with protein product							Standard	NM_207308		Approved		uc001fdw.3	Q5VU65	OTTHUMG00000035852	ENST00000368559.3:c.898A>G	1.37:g.154108401T>C	ENSP00000357547:p.Arg300Gly	Somatic		WXS	Illumina HiSeq	Phase_I	E7EP56|Q5T4L7|Q6ZRN1|Q6ZRT4|Q6ZU81|Q8NDI6|Q9UF31	Missense_Mutation	SNP	ENST00000368559.3	37	CCDS41399.1	.	.	.	.	.	.	.	.	.	.	T	10.65	1.410097	0.25465	.	.	ENSG00000143552	ENST00000368559;ENST00000271854	T;T	0.05447	3.44;3.44	5.0	2.53	0.30540	.	0.593551	0.16379	N	0.216995	T	0.01387	0.0045	L	0.44542	1.39	0.09310	N	1	B;B	0.31125	0.201;0.309	B;B	0.21917	0.037;0.037	T	0.48714	-0.9011	10	0.23302	T	0.38	-11.1939	4.5019	0.11869	0.0:0.1237:0.3878:0.4885	.	300;300	E7EP56;Q5VU65	.;P210L_HUMAN	G	300	ENSP00000357547:R300G;ENSP00000271854:R300G	ENSP00000271854:R300G	R	-	1	2	NUP210L	152375025	0.003000	0.15002	0.002000	0.10522	0.896000	0.52359	1.475000	0.35409	0.321000	0.23259	0.533000	0.62120	AGA		0.418	NUP210L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087270.3	NM_207308		C	154108401	T	C	154108401	3	2	610	1	0	0	0	0	1	0	0	0	10768	1530	53	3	4904	3	NUP210L	1	154108401	Missense_Mutation	SNP	T	TCGA-HE-A5NJ-01A-11D-A26P-10	1981096	154108401	95142220	4	37045										
TMEM9	252839	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	201123024	201123024	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gggcaccagcaaacacccgaCcacagccaccaaagataaga	8	15	0	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr1:201123024C>T	ENST00000367330.1	-	1	544	c.28G>A	c.(28-30)Gtc>Atc	p.V10I	TMEM9_ENST00000485839.2_Missense_Mutation_p.V10I|TMEM9_ENST00000367332.1_Missense_Mutation_p.V10I|TMEM9_ENST00000367334.5_Missense_Mutation_p.V10I|TMEM9_ENST00000367333.2_Missense_Mutation_p.V10I			Q9P0T7	TMEM9_HUMAN	transmembrane protein 9	10					transport (GO:0006810)	integral component of membrane (GO:0016021)|late endosome (GO:0005770)|lysosome (GO:0005764)				liver(1)|lung(1)|stomach(1)	3		Breast(1374;0.000301)				AAACACCCGACCACAGCCACC	0.582																																																0													70	66	67					1																	201123024		2203	4300	6503	SO:0001583	missense	252839				CCDS1408.1, CCDS73001.1	1q41	2008-02-05			ENSG00000116857	ENSG00000116857			18823	protein-coding gene	gene with protein product							Standard	NM_001288565		Approved	TMEM9A	uc001gvy.3	Q9P0T7	OTTHUMG00000035831	ENST00000367330.1:c.28G>A	1.37:g.201123024C>T	ENSP00000356299:p.Val10Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALM6|Q96NQ9|Q9BQF5	Missense_Mutation	SNP	ENST00000367330.1	37	CCDS1408.1	.	.	.	.	.	.	.	.	.	.	C	16.71	3.198740	0.58126	.	.	ENSG00000116857	ENST00000367334;ENST00000367332;ENST00000367330;ENST00000367329;ENST00000367333;ENST00000455367;ENST00000435310;ENST00000414605	.	.	.	4.66	3.75	0.43078	.	0.790844	0.10935	N	0.617956	T	0.20210	0.0486	N	0.19112	0.55	0.19300	N	0.999979	B;B;B;B	0.31581	0.329;0.049;0.008;0.003	B;B;B;B	0.25987	0.065;0.039;0.003;0.004	T	0.11641	-1.0579	9	0.08599	T	0.76	-18.4909	9.8146	0.40844	0.0:0.9026:0.0:0.0974	.	10;10;10;10	B4DJZ4;B4E1H4;B1ALM5;Q9P0T7	.;.;.;TMEM9_HUMAN	I	10	.	ENSP00000356298:V10I	V	-	1	0	TMEM9	199389647	0.000000	0.05858	0.772000	0.31596	0.991000	0.79684	0.133000	0.15912	1.175000	0.42826	0.557000	0.71058	GTC		0.582	TMEM9-002	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000087160.1	NM_016456		T	201123024	C	T	201123024	3	4	610	1	0	0	0	0	1	0	0	0	16229	507	18	2	543	2	TMEM9	1	201123024	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	47014623	201123024	48127597	5	37046										
GPN1	11321	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	27858007	27858007	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tgatttttttgtggctttagGcatcctcatttccaacagtt	7	8	1	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr2:27858007G>A	ENST00000610189.1	+	7	437	c.430G>A	c.(430-432)Gca>Aca	p.A144T	GPN1_ENST00000458167.2_Splice_Site_p.A49T|RP11-158I13.2_ENST00000505973.1_RNA|GPN1_ENST00000503738.1_Splice_Site_p.A49T|GPN1_ENST00000424214.1_Splice_Site_p.A65T|GPN1_ENST00000461249.1_3'UTR|GPN1_ENST00000264718.3_Splice_Site_p.A158T|GPN1_ENST00000407583.3_Splice_Site_p.A132T|ZNF512_ENST00000556601.1_3'UTR|GPN1_ENST00000515877.1_Splice_Site_p.A65T	NM_007266.3	NP_009197.2			GPN-loop GTPase 1											endometrium(1)|large_intestine(1)|lung(12)	14						GTGGCTTTAGGCATCCTCATT	0.443																																																0													209	190	196					2																	27858007		2203	4300	6503	SO:0001630	splice_region_variant	11321			AB044661	CCDS1760.2, CCDS46248.1, CCDS46249.1, CCDS46250.1	2p23.3	2011-11-04	2008-04-30	2008-04-30	ENSG00000198522	ENSG00000198522		"GPN-loop GTPases"	17030	protein-coding gene	gene with protein product	"RNA polymerase II associated protein 4"	611479	"XPA binding protein 1", "XPA binding protein 1, GTPase"	XAB1		11058119, 11124703	Standard	NM_007266		Approved	NTPBP, MBDIN, ATPBD1A, RPAP4	uc010ymc.2	Q9HCN4	OTTHUMG00000097784	ENST00000610189.1:c.430-1G>A	2.37:g.27858007G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000610189.1	37		.	.	.	.	.	.	.	.	.	.	G	36	5.660616	0.96734	.	.	ENSG00000198522	ENST00000515877;ENST00000503738;ENST00000458167;ENST00000424214;ENST00000407583;ENST00000264718	T;T;T;T;T;T	0.23552	1.9;1.9;1.9;1.9;1.9;1.9	5.96	5.96	0.96718	ATPase, AAA+ type, core (1);	0.000000	0.85682	D	0.000000	T	0.53449	0.1797	M	0.77616	2.38	0.80722	D	1	P;D;D;D	0.89917	0.792;1.0;0.98;0.992	P;D;P;D	0.81914	0.9;0.995;0.876;0.92	T	0.50039	-0.8874	9	.	.	.	-8.5718	17.1122	0.86679	0.0:0.0:1.0:0.0	.	144;158;49;132	Q9HCN4;B4DQM4;B4DXU4;B5MBZ5	GPN1_HUMAN;.;.;.	T	65;49;49;65;132;158	ENSP00000424678:A65T;ENSP00000427269:A49T;ENSP00000412170:A49T;ENSP00000398115:A65T;ENSP00000384255:A132T;ENSP00000264718:A158T	.	A	+	1	0	GPN1	27711511	1.000000	0.71417	1.000000	0.80357	0.961000	0.63080	8.896000	0.92521	2.820000	0.97059	0.655000	0.94253	GCA		0.443	GPN1-010	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000473126.1	NM_007266	Missense_Mutation	A	27858007	G	A	27858007	5	1	610	1	0	0	0	0	0	0	1	0	6624	1217	42	2	581	2	GPN1	2	27858007	Splice_Site	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10		27858007	215341366	6	37047										
RTN4	57142	bcgsc.ca	37	chr2	55254453	55254453	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tttcttgaagtgttccttcaGtgggtaatactgttgacaaa	9	6	2	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr2:55254453G>T	ENST00000337526.6	-	3	1025	c.782C>A	c.(781-783)aCt>aAt	p.T261N	RTN4_ENST00000357376.3_Missense_Mutation_p.T55N|RTN4_ENST00000354474.6_Intron|RTN4_ENST00000357732.4_Intron|RTN4_ENST00000317610.7_Intron|RTN4_ENST00000394611.2_Missense_Mutation_p.T55N|RTN4_ENST00000402434.2_Intron|RTN4_ENST00000405240.1_Missense_Mutation_p.T55N|RTN4_ENST00000404909.1_Missense_Mutation_p.T55N	NM_020532.4	NP_065393.1	Q9NQC3	RTN4_HUMAN	reticulon 4	261					angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|axonal fasciculation (GO:0007413)|cardiac epithelial to mesenchymal transition (GO:0060317)|cerebral cortex radial glia guided migration (GO:0021801)|endoplasmic reticulum tubular network organization (GO:0071786)|negative regulation of axon extension (GO:0030517)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell growth (GO:0030308)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of apoptotic process (GO:0042981)|regulation of axonogenesis (GO:0050770)|regulation of branching morphogenesis of a nerve (GO:2000172)|regulation of cell migration (GO:0030334)	cell projection (GO:0042995)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|integral component of endoplasmic reticulum membrane (GO:0030176)|intracellular (GO:0005622)|neuronal cell body (GO:0043025)|nuclear envelope (GO:0005635)|plasma membrane (GO:0005886)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(4)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(11)|lung(9)|ovary(2)|prostate(1)|skin(1)|stomach(1)	36						TGTTCCTTCAGTGGGTAATAC	0.398																																																0													76	78	77					2																	55254453		2203	4300	6503	SO:0001583	missense	57142			AF087901	CCDS1851.1, CCDS1852.1, CCDS42683.1, CCDS42684.1, CCDS42685.1	2p14-p13	2008-05-23			ENSG00000115310	ENSG00000115310			14085	protein-coding gene	gene with protein product		604475				10667797, 10773680	Standard	NM_020532		Approved	NSP-CL, KIAA0886, NOGO, ASY	uc002rye.3	Q9NQC3	OTTHUMG00000129337	ENST00000337526.6:c.782C>A	2.37:g.55254453G>T	ENSP00000337838:p.Thr261Asn	Somatic		WXS	Illumina HiSeq	Phase_1	O94962|Q7L7Q5|Q7L7Q6|Q7L7Q8|Q8IUA4|Q96B16|Q9BXG5|Q9H212|Q9H3I3|Q9UQ42|Q9Y293|Q9Y2Y7|Q9Y5U6	Missense_Mutation	SNP	ENST00000337526.6	37	CCDS42684.1	.	.	.	.	.	.	.	.	.	.	G	9.097	1.003103	0.19121	.	.	ENSG00000115310	ENST00000405240;ENST00000357376;ENST00000337526;ENST00000394611;ENST00000404909;ENST00000427710	T;T;T;T;T	0.20463	2.07;2.07;2.3;2.07;2.07	6.02	3.28	0.37604	.	0.837760	0.10740	N	0.639616	T	0.21718	0.0523	L	0.56769	1.78	0.53688	D	0.99997	P	0.34462	0.454	B	0.30251	0.113	T	0.01951	-1.1241	10	0.72032	D	0.01	-0.0569	9.4715	0.38844	0.1281:0.1192:0.7527:0.0	.	261	Q9NQC3	RTN4_HUMAN	N	55;55;261;55;55;55	ENSP00000384471:T55N;ENSP00000349944:T55N;ENSP00000337838:T261N;ENSP00000378109:T55N;ENSP00000385650:T55N	ENSP00000337838:T261N	T	-	2	0	RTN4	55107957	0.920000	0.31207	0.045000	0.18777	0.578000	0.36192	2.530000	0.45641	0.438000	0.26450	-0.156000	0.13503	ACT		0.398	RTN4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000251484.1			T	55254453	G	T	55254453	3	4	610	1	0	0	0	0	1	0	0	0	13741	1029	36	4	2862	4	RTN4	2	55254453	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	27396446	55254453	187944920	7	37048										
ALMS1	7840	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	73836707	73836707	+	Nonsense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ttctacagagagtgaccaatCaacttctggggagaaaagtt	10	7	3	3			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr2:73836707C>T	ENST00000264448.6	+	23	12583	c.12472C>T	c.(12472-12474)Caa>Taa	p.Q4158*	ALMS1_ENST00000409009.1_Nonsense_Mutation_p.Q4116*	NM_015120.4	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	4158	ALMS motif.				endosomal transport (GO:0016197)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|regulation of stress fiber assembly (GO:0051492)	centrosome (GO:0005813)|cilium (GO:0005929)|cytoplasm (GO:0005737)|cytosol (GO:0005829)				breast(4)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(31)|lung(68)|ovary(4)|pancreas(4)|prostate(3)|skin(8)|upper_aerodigestive_tract(1)|urinary_tract(2)	147						AGTGACCAATCAACTTCTGGG	0.433																																																0													117	116	116					2																	73836707		1850	4083	5933	SO:0001587	stop_gained	7840			AB002326	CCDS42697.1	2p13.1	2014-09-17			ENSG00000116127	ENSG00000116127			428	protein-coding gene	gene with protein product		606844				9063741	Standard	NM_015120		Approved	KIAA0328	uc002sje.1	Q8TCU4	OTTHUMG00000152812	ENST00000264448.6:c.12472C>T	2.37:g.73836707C>T	ENSP00000264448:p.Gln4158*	Somatic		WXS	Illumina HiSeq	Phase_I	Q53S05|Q580Q8|Q86VP9|Q9Y4G4	Nonsense_Mutation	SNP	ENST00000264448.6	37	CCDS42697.1	.	.	.	.	.	.	.	.	.	.	C	53	21.012144	0.99936	.	.	ENSG00000116127	ENST00000409009;ENST00000264448	.	.	.	5.34	5.34	0.76211	.	0.658065	0.14442	N	0.319301	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.30854	T	0.27	.	14.4071	0.67090	0.0:1.0:0.0:0.0	.	.	.	.	X	4116;4158	.	ENSP00000264448:Q4158X	Q	+	1	0	ALMS1	73690215	0.984000	0.35163	0.996000	0.52242	0.780000	0.44128	2.387000	0.44389	2.779000	0.95612	0.591000	0.81541	CAA		0.433	ALMS1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000327776.1	NM_015120		T	73836707	C	T	73836707	4	4	610	1	0	0	0	0	0	1	0	0	535	827	29	2	12562	2	ALMS1	2	73836707	Nonsense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	18582254	73836707	169362666	8	37049										
ACVR2A	92	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	148676153	148676153	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gatggccacaaacctgccatAtctcacaggtagactaaatt	7	11	1	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr2:148676153A>G	ENST00000241416.7	+	7	1590	c.954A>G	c.(952-954)atA>atG	p.I318M	ACVR2A_ENST00000404590.1_Missense_Mutation_p.I318M|ACVR2A_ENST00000535787.1_Missense_Mutation_p.I210M	NM_001278579.1|NM_001278580.1|NM_001616.3	NP_001265508.1|NP_001265509.1|NP_001607.1	P27037	AVR2A_HUMAN	activin A receptor, type IIA	318	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activin receptor signaling pathway (GO:0032924)|anterior/posterior pattern specification (GO:0009952)|BMP signaling pathway (GO:0030509)|cellular response to BMP stimulus (GO:0071773)|determination of left/right symmetry (GO:0007368)|embryonic skeletal system development (GO:0048706)|gastrulation with mouth forming second (GO:0001702)|mesoderm development (GO:0007498)|penile erection (GO:0043084)|positive regulation of activin receptor signaling pathway (GO:0032927)|positive regulation of bone mineralization (GO:0030501)|positive regulation of erythrocyte differentiation (GO:0045648)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of pathway-restricted SMAD protein phosphorylation (GO:0010862)|positive regulation of protein phosphorylation (GO:0001934)|regulation of BMP signaling pathway (GO:0030510)|regulation of nitric-oxide synthase activity (GO:0050999)|Sertoli cell proliferation (GO:0060011)|sperm ejaculation (GO:0042713)|spermatogenesis (GO:0007283)|transmembrane receptor protein serine/threonine kinase signaling pathway (GO:0007178)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|inhibin-betaglycan-ActRII complex (GO:0034673)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|coreceptor activity (GO:0015026)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|receptor signaling protein serine/threonine kinase activity (GO:0004702)|transforming growth factor beta-activated receptor activity (GO:0005024)|transmembrane receptor protein serine/threonine kinase activity (GO:0004675)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(5)|large_intestine(14)|liver(1)|lung(7)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|stomach(8)	45				BRCA - Breast invasive adenocarcinoma(221;0.0969)		AACCTGCCATATCTCACAGGT	0.348																																																0													42	44	43					2																	148676153		2202	4300	6502	SO:0001583	missense	92				CCDS33301.1, CCDS63030.1	2q22.2-q23.3	2008-02-05	2005-05-10	2005-05-10	ENSG00000121989	ENSG00000121989			173	protein-coding gene	gene with protein product		102581	"activin A receptor, type II"	ACVR2		1314589, 10702675	Standard	NM_001278579		Approved	ACTRII	uc002twh.3	P27037	OTTHUMG00000150603	ENST00000241416.7:c.954A>G	2.37:g.148676153A>G	ENSP00000241416:p.Ile318Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAB8|B4DWQ2|D3DP85|Q53TH4|Q6NWV2|Q92474	Missense_Mutation	SNP	ENST00000241416.7	37	CCDS33301.1	.	.	.	.	.	.	.	.	.	.	A	17.99	3.524183	0.64747	.	.	ENSG00000121989	ENST00000241416;ENST00000535787;ENST00000404590	T;T;T	0.73789	-0.78;-0.78;-0.78	5.63	0.102	0.14522	Serine/threonine-protein kinase-like domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.050216	0.85682	D	0.000000	D	0.84465	0.5478	M	0.86178	2.8	0.54753	D	0.999987	P	0.42827	0.791	P	0.56514	0.8	D	0.85693	0.1308	10	0.59425	D	0.04	.	15.9363	0.79712	0.3896:0.6104:0.0:0.0	.	318	P27037	AVR2A_HUMAN	M	318;210;318	ENSP00000241416:I318M;ENSP00000439988:I210M;ENSP00000384338:I318M	ENSP00000241416:I318M	I	+	3	3	ACVR2A	148392623	0.981000	0.34729	0.995000	0.50966	0.986000	0.74619	0.307000	0.19296	-0.207000	0.10187	0.460000	0.39030	ATA		0.348	ACVR2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319051.1	NM_001616		G	148676153	A	G	148676153	3	3	610	1	0	0	0	0	1	0	0	0	223	439	16	3	980	3	ACVR2A	2	148676153	Missense_Mutation	SNP	A	TCGA-HE-A5NJ-01A-11D-A26P-10	74839446	148676153	94523220	9	37050										
SH3BP4	23677	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	235949726	235949726	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ccaccgaaatgggctacatcCcctcctcctatgtgcagccc	7	18	0	0			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr2:235949726C>G	ENST00000409212.1	+	4	820	c.313C>G	c.(313-315)Ccc>Gcc	p.P105A	SH3BP4_ENST00000392011.2_Missense_Mutation_p.P105A|SH3BP4_ENST00000344528.4_Missense_Mutation_p.P105A			Q9P0V3	SH3B4_HUMAN	SH3-domain binding protein 4	105	SH3. {ECO:0000255|PROSITE- ProRule:PRU00192}.				cellular response to amino acid stimulus (GO:0071230)|endocytosis (GO:0006897)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of GTPase activity (GO:0034260)|negative regulation of TOR signaling (GO:0032007)|positive regulation of autophagy (GO:0010508)|protein localization to lysosome (GO:0061462)|regulation of catalytic activity (GO:0050790)	coated pit (GO:0005905)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	GDP-dissociation inhibitor activity (GO:0005092)|identical protein binding (GO:0042802)|Ras GTPase binding (GO:0017016)			central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(6)|lung(13)|ovary(4)|prostate(2)|skin(6)|stomach(3)|urinary_tract(2)	44		Breast(86;0.000332)|Renal(207;0.00339)|all_lung(227;0.00458)|all_hematologic(139;0.0296)|Lung NSC(271;0.0419)		Epithelial(121;7.66e-20)|BRCA - Breast invasive adenocarcinoma(100;0.000402)|Lung(119;0.00299)|LUSC - Lung squamous cell carcinoma(224;0.00645)|GBM - Glioblastoma multiforme(43;0.237)		GGGCTACATCCCCTCCTCCTA	0.537																																																0													171	144	153					2																	235949726		2203	4300	6503	SO:0001583	missense	23677			AF147747	CCDS2513.1	2q37.1-q37.2	2008-05-15			ENSG00000130147	ENSG00000130147			10826	protein-coding gene	gene with protein product		605611				10644451	Standard	NM_014521		Approved		uc002vvp.3	Q9P0V3	OTTHUMG00000133292	ENST00000409212.1:c.313C>G	2.37:g.235949726C>G	ENSP00000386862:p.Pro105Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O95082|Q309A3|Q53QD0|Q53TD1	Missense_Mutation	SNP	ENST00000409212.1	37	CCDS2513.1	.	.	.	.	.	.	.	.	.	.	C	28.2	4.895268	0.91962	.	.	ENSG00000130147	ENST00000392011;ENST00000420127;ENST00000416021;ENST00000409212;ENST00000344528;ENST00000446904	D;D;D;D;D	0.99454	-5.92;-5.92;-5.92;-5.92;-5.92	5.24	5.24	0.73138	Src homology-3 domain (4);	0.000000	0.85682	D	0.000000	D	0.99635	0.9866	M	0.93062	3.375	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.97817	1.0254	10	0.72032	D	0.01	-9.9278	17.3901	0.87427	0.0:1.0:0.0:0.0	.	105;105	A8K594;Q9P0V3	.;SH3B4_HUMAN	A	105	ENSP00000375867:P105A;ENSP00000403251:P105A;ENSP00000386862:P105A;ENSP00000340237:P105A;ENSP00000415391:P105A	ENSP00000340237:P105A	P	+	1	0	SH3BP4	235614465	1.000000	0.71417	0.996000	0.52242	0.940000	0.58332	7.571000	0.82399	2.442000	0.82660	0.655000	0.94253	CCC		0.537	SH3BP4-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329763.1			G	235949726	C	G	235949726	3	3	610	1	0	0	0	0	1	0	0	0	14259	623	22	4	319	4	SH3BP4	2	235949726	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	87273573	235949726	7249647	10	37051										
ITPR1	3708	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	4859771	4859771	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ttgtctcatttttaggcttgGaaagagacaagtttgacaac	9	6	1	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr3:4859771G>A	ENST00000443694.2	+	57	7828	c.7828G>A	c.(7828-7830)Gaa>Aaa	p.E2610K	AC018816.3_ENST00000441894.1_Intron|ITPR1_ENST00000423119.2_Missense_Mutation_p.E2577K|AC018816.3_ENST00000489771.1_Intron|ITPR1_ENST00000544951.1_Missense_Mutation_p.E588K|ITPR1_ENST00000354582.6_Missense_Mutation_p.E2610K|ITPR1_ENST00000302640.8_Missense_Mutation_p.E2610K|ITPR1_ENST00000357086.4_Missense_Mutation_p.E2577K|ITPR1_ENST00000456211.2_Missense_Mutation_p.E2562K|ITPR1_ENST00000463980.1_3'UTR|AC018816.3_ENST00000449914.1_Intron			Q14643	ITPR1_HUMAN	inositol 1,4,5-trisphosphate receptor, type 1	2625					activation of phospholipase C activity (GO:0007202)|blood coagulation (GO:0007596)|calcium ion transport (GO:0006816)|endoplasmic reticulum calcium ion homeostasis (GO:0032469)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|inositol phosphate-mediated signaling (GO:0048016)|intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress (GO:0070059)|negative regulation of calcium-mediated signaling (GO:0050849)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet activation (GO:0030168)|post-embryonic development (GO:0009791)|regulation of insulin secretion (GO:0050796)|release of sequestered calcium ion into cytosol (GO:0051209)|response to hypoxia (GO:0001666)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|voluntary musculoskeletal movement (GO:0050882)	calcineurin complex (GO:0005955)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nuclear inner membrane (GO:0005637)|nucleolus (GO:0005730)|platelet dense granule membrane (GO:0031088)|platelet dense tubular network (GO:0031094)|platelet dense tubular network membrane (GO:0031095)|postsynaptic density (GO:0014069)|sarcoplasmic reticulum (GO:0016529)	calcium channel inhibitor activity (GO:0019855)|calcium ion transmembrane transporter activity (GO:0015085)|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0005220)|intracellular ligand-gated calcium channel activity (GO:0005218)|phosphatidylinositol binding (GO:0035091)			NS(1)|autonomic_ganglia(1)|breast(10)|endometrium(15)|kidney(6)|large_intestine(27)|liver(1)|lung(27)|ovary(6)|pancreas(1)|prostate(4)|skin(5)|urinary_tract(2)	106				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)	Caffeine(DB00201)	TTTAGGCTTGGAAAGAGACAA	0.448																																																0													52	48	49					3																	4859771		1897	4121	6018	SO:0001583	missense	3708			D26070	CCDS46740.1, CCDS46740.2, CCDS54550.1, CCDS54551.1	3p26.1	2014-06-12	2011-04-28			ENSG00000150995		"Ion channels / Inositol triphosphate receptors"	6180	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 94"	147265	"spinocerebellar ataxia 15", "spinocerebellar ataxia 16", "spinocerebellar ataxia 29"	SCA15, SCA16, SCA29		7945203, 7500840, 17590087, 17932120, 22986007	Standard	NM_001099952		Approved	Insp3r1, IP3R1, ACV, PPP1R94	uc003bqc.3	Q14643		ENST00000443694.2:c.7828G>A	3.37:g.4859771G>A	ENSP00000401671:p.Glu2610Lys	Somatic		WXS	Illumina HiSeq	Phase_I	E7EPX7|E9PDE9|Q14660|Q99897	Missense_Mutation	SNP	ENST00000443694.2	37	CCDS54551.1	.	.	.	.	.	.	.	.	.	.	g	32	5.120856	0.94385	.	.	ENSG00000150995	ENST00000356617;ENST00000302640;ENST00000354582;ENST00000423119;ENST00000426160;ENST00000357086;ENST00000456211;ENST00000544951;ENST00000443694	T;T;T;T;T;T;T	0.42513	0.97;0.97;0.97;0.97;0.97;0.97;0.97	5.02	5.02	0.67125	.	0.000000	0.85682	D	0.000000	T	0.58581	0.2132	L	0.57536	1.79	0.80722	D	1	D;B;B	0.62365	0.991;0.102;0.226	P;B;B	0.61201	0.885;0.07;0.425	T	0.56147	-0.8027	10	0.35671	T	0.21	.	18.3362	0.90288	0.0:0.0:1.0:0.0	.	588;2625;2577	B7ZMI3;Q14643;G5E9P1	.;ITPR1_HUMAN;.	K	2625;2610;2610;2577;1071;2577;2562;588;2610	ENSP00000306253:E2610K;ENSP00000346595:E2610K;ENSP00000405934:E2577K;ENSP00000349597:E2577K;ENSP00000397885:E2562K;ENSP00000440564:E588K;ENSP00000401671:E2610K	ENSP00000306253:E2610K	E	+	1	0	ITPR1	4834771	1.000000	0.71417	1.000000	0.80357	0.895000	0.52256	9.709000	0.98729	2.311000	0.77944	0.461000	0.40582	GAA		0.448	ITPR1-004	KNOWN	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000337982.3	NM_002222		A	4859771	G	A	4859771	3	1	610	1	0	0	0	0	1	0	0	0	7927	1175	41	2	8103	2	ITPR1	3	4859771	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10		4859771	193162659	11	37052										
THUMPD3	25917	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	9406849	9406849	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	cagaaagtgacctcggaagtGaatctgagcttctagtcact	10	9	3	4			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr3:9406849G>A	ENST00000345094.3	+	2	431	c.97G>A	c.(97-99)Gaa>Aaa	p.E33K	SETD5-AS1_ENST00000468186.1_RNA|RP11-380O24.1_ENST00000517846.1_RNA|RP11-380O24.1_ENST00000518331.1_RNA|THUMPD3_ENST00000515662.2_Missense_Mutation_p.E33K|RP11-380O24.1_ENST00000517687.1_RNA|THUMPD3_ENST00000452837.2_Missense_Mutation_p.E33K|RP11-380O24.1_ENST00000466431.2_RNA|RP11-380O24.1_ENST00000491930.2_RNA	NM_001114092.1|NM_015453.2	NP_001107564.1|NP_056268.2	Q9BV44	THUM3_HUMAN	THUMP domain containing 3	33						cytoplasm (GO:0005737)|nucleolus (GO:0005730)	methyltransferase activity (GO:0008168)|RNA binding (GO:0003723)			NS(1)|central_nervous_system(1)|large_intestine(4)|lung(9)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	19	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.101)		CCTCGGAAGTGAATCTGAGCT	0.443																																																0													94	95	94					3																	9406849		2203	4300	6503	SO:0001583	missense	25917			AL117483	CCDS2573.1	3p25.3	2004-06-04			ENSG00000134077	ENSG00000134077			24493	protein-coding gene	gene with protein product						12477932	Standard	NM_015453		Approved	DKFZP434F091	uc003brn.4	Q9BV44	OTTHUMG00000097031	ENST00000345094.3:c.97G>A	3.37:g.9406849G>A	ENSP00000339532:p.Glu33Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H8V6|Q9NVC1|Q9UFS3	Missense_Mutation	SNP	ENST00000345094.3	37	CCDS2573.1	.	.	.	.	.	.	.	.	.	.	G	20.8	4.044109	0.75732	.	.	ENSG00000134077	ENST00000452837;ENST00000417036;ENST00000419437;ENST00000345094;ENST00000515662	T;T;T	0.44083	0.93;0.93;0.93	5.57	4.47	0.54385	.	0.949351	0.08920	N	0.874534	T	0.35595	0.0937	L	0.51422	1.61	0.09310	N	1	B	0.12630	0.006	B	0.06405	0.002	T	0.11494	-1.0585	10	0.40728	T	0.16	.	5.2477	0.15506	0.1312:0.2026:0.6662:0.0	.	33	Q9BV44	THUM3_HUMAN	K	33	ENSP00000395893:E33K;ENSP00000339532:E33K;ENSP00000424064:E33K	ENSP00000339532:E33K	E	+	1	0	THUMPD3	9381849	0.049000	0.20398	0.085000	0.20634	0.888000	0.51559	2.198000	0.42705	2.785000	0.95823	0.655000	0.94253	GAA		0.443	THUMPD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214127.1	NM_015453		A	9406849	G	A	9406849	3	1	610	1	0	0	0	0	1	0	0	0	15896	1291	45	2	99	2	THUMPD3	3	9406849	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	4547078	9406849	188615581	12	37053										
COL7A1	1294	hgsc.bcm.edu;bcgsc.ca	37	chr3	48610131	48610131	+	Frame_Shift_Del	DEL	T	T	-													0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ggggcccccgtggggccaggTtctcctttaggtccgacagg							TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr3:48610131delT	ENST00000328333.8	-	87	6980	c.6873delA	c.(6871-6873)gaafs	p.E2291fs	COL7A1_ENST00000454817.1_Frame_Shift_Del_p.E2259fs	NM_000094.3	NP_000085.1	Q02388	CO7A1_HUMAN	collagen, type VII, alpha 1	2291	Triple-helical region.				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|endodermal cell differentiation (GO:0035987)|epidermis development (GO:0008544)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	basement membrane (GO:0005604)|collagen type VII trimer (GO:0005590)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular space (GO:0005615)	serine-type endopeptidase inhibitor activity (GO:0004867)			NS(3)|breast(8)|central_nervous_system(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(18)|lung(57)|ovary(7)|prostate(5)|skin(9)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(5)	137				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TGGGGCCAGGTTCTCCTTTAG	0.632																																																0													24	30	28					3																	48610131		2200	4297	6497	SO:0001589	frameshift_variant	1294			L02870	CCDS2773.1	3p21.1	2014-09-17	2008-08-01		ENSG00000114270	ENSG00000114270		"Collagens", "Fibronectin type III domain containing"	2214	protein-coding gene	gene with protein product	"collagen VII, alpha-1 polypeptide", "LC collagen"	120120	"epidermolysis bullosa, dystrophic, dominant and recessive"	EBDCT, EBD1, EBR1		1871109	Standard	NM_000094		Approved		uc003ctz.2	Q02388	OTTHUMG00000133541	ENST00000328333.8:c.6873delA	3.37:g.48610131delT	ENSP00000332371:p.Glu2291fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q14054|Q16507	Frame_Shift_Del	DEL	ENST00000328333.8	37	CCDS2773.1																																																																																				0.632	COL7A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257519.1	NM_000094		-	48610131	T	-	48610131	7	5	610	1	0	1	0	1	0	0	0	0	3706	1722	60	0	2089	0	COL7A1	3	48610131	Frame_Shift_Del	DEL	T	TCGA-HE-A5NJ-01A-11D-A26P-10	39203282	48610131	149412299	13	37054										
IL17RD	54756	hgsc.bcm.edu;bcgsc.ca	37	chr3	57144293	57144293	+	Frame_Shift_Del	DEL	C	C	-													0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tggcactgtcttccctccgaCttcagctcctccagtattac							TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr3:57144293delC	ENST00000296318.7	-	4	445	c.357delG	c.(355-357)aagfs	p.K119fs	IL17RD_ENST00000427856.2_Frame_Shift_Del_p.K95fs|IL17RD_ENST00000463523.1_5'UTR|IL17RD_ENST00000320057.5_5'UTR	NM_017563.3	NP_060033.3	Q8NFM7	I17RD_HUMAN	interleukin 17 receptor D	119					signal transduction (GO:0007165)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(1)|ovary(1)|pancreas(1)	16				KIRC - Kidney renal clear cell carcinoma(284;0.0173)|Kidney(284;0.0204)		TTCCCTCCGACTTCAGCTCCT	0.438																																																0													121	109	113					3																	57144293		1911	4137	6048	SO:0001589	frameshift_variant	54756			AF494208	CCDS2880.2	3p21.1	2008-02-05			ENSG00000144730	ENSG00000144730		"Interleukins and interleukin receptors"	17616	protein-coding gene	gene with protein product		606807				11802164, 12604616	Standard	NM_017563		Approved	SEF, IL17RLM, FLJ35755, IL-17RD	uc003dil.3	Q8NFM7	OTTHUMG00000150171	ENST00000296318.7:c.357delG	3.37:g.57144293delC	ENSP00000296318:p.Lys119fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKP7|Q58EZ7|Q6RVF4|Q6UWI5|Q8N113|Q8NFS0|Q9UFA0	Frame_Shift_Del	DEL	ENST00000296318.7	37	CCDS2880.2																																																																																				0.438	IL17RD-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316680.1	NM_017563		-	57144293	C	-	57144293	7	5	610	1	0	1	0	1	0	0	0	0	7649	564	20	0	1902	0	IL17RD	3	57144293	Frame_Shift_Del	DEL	C	TCGA-HE-A5NJ-01A-11D-A26P-10	8534162	57144293	140878137	14	37055										
IGSF10	285313	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	151155196	151155196	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tgctatcagatactgataacTttgtggtccattggaaaatc	8	7	1	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr3:151155196T>G	ENST00000282466.3	-	6	7152	c.7153A>C	c.(7153-7155)Agt>Cgt	p.S2385R	IGSF10_ENST00000495443.1_5'UTR	NM_001178145.1|NM_001178146.1|NM_178822.4	NP_001171616.1|NP_001171617.1|NP_849144.2	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10	2385	Ig-like C2-type 10.				cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)	extracellular region (GO:0005576)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(24)|liver(4)|lung(43)|ovary(8)|prostate(4)|skin(9)|stomach(1)|urinary_tract(3)	116			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TACTGATAACTTTGTGGTCCA	0.408																																																0													125	125	125					3																	151155196		2203	4300	6503	SO:0001583	missense	285313			AY273815	CCDS3160.1	3q25.1	2013-01-11			ENSG00000152580	ENSG00000152580		"Immunoglobulin superfamily / I-set domain containing"	26384	protein-coding gene	gene with protein product						12477932	Standard	NM_178822		Approved	FLJ25972, CMF608	uc011bod.2	Q6WRI0	OTTHUMG00000159856	ENST00000282466.3:c.7153A>C	3.37:g.151155196T>G	ENSP00000282466:p.Ser2385Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q86YJ9|Q8N772|Q8NA84	Missense_Mutation	SNP	ENST00000282466.3	37	CCDS3160.1	.	.	.	.	.	.	.	.	.	.	T	4.176	0.031261	0.08101	.	.	ENSG00000152580	ENST00000282466	T	0.63580	-0.05	5.59	0.331	0.15933	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.945401	0.08716	N	0.904233	T	0.42607	0.1210	L	0.28115	0.83	0.09310	N	1	P;B	0.41080	0.737;0.141	B;B	0.36845	0.234;0.066	T	0.18681	-1.0329	10	0.22706	T	0.39	.	6.415	0.21712	0.0:0.1304:0.2469:0.6227	.	2385;412	Q6WRI0;Q6WRI0-2	IGS10_HUMAN;.	R	2385	ENSP00000282466:S2385R	ENSP00000282466:S2385R	S	-	1	0	IGSF10	152637886	0.000000	0.05858	0.000000	0.03702	0.016000	0.09150	1.061000	0.30542	-0.160000	0.11002	-0.316000	0.08728	AGT		0.408	IGSF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357782.1	NM_178822		G	151155196	T	G	151155196	3	3	610	1	0	0	0	0	1	0	0	0	7604	1609	56	5	722	5	IGSF10	3	151155196	Missense_Mutation	SNP	T	TCGA-HE-A5NJ-01A-11D-A26P-10	94010903	151155196	46867234	15	37056										
UGT2B28	54490	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	70146322	70146322	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gtggaccggtgaatacagccAttggatgaatatgaagacaa	12	6	0	4			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr4:70146322A>T	ENST00000335568.5	+	1	106	c.104A>T	c.(103-105)cAt>cTt	p.H35L	UGT2B28_ENST00000511240.1_Missense_Mutation_p.H35L	NM_053039.1	NP_444267.1	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family, polypeptide B28	35					metabolic process (GO:0008152)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	glucuronosyltransferase activity (GO:0015020)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(16)|pancreas(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	31						GAATACAGCCATTGGATGAAT	0.458																																																0													160	185	177					4																	70146322		2067	4246	6313	SO:0001583	missense	54490			AF177272	CCDS3528.1, CCDS56330.1	4q13.3	2011-02-09	2005-07-20		ENSG00000135226	ENSG00000135226		"UDP glucuronosyltransferases"	13479	protein-coding gene	gene with protein product		606497	"UDP glycosyltransferase 2 family, polypeptide B28"			11300766	Standard	NM_053039		Approved		uc003hej.3	Q9BY64	OTTHUMG00000129401	ENST00000335568.5:c.104A>T	4.37:g.70146322A>T	ENSP00000334276:p.His35Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B5BUM0|Q9BY62|Q9BY63	Missense_Mutation	SNP	ENST00000335568.5	37	CCDS3528.1	.	.	.	.	.	.	.	.	.	.	-	7.966	0.747929	0.15710	.	.	ENSG00000135226	ENST00000335568;ENST00000511240	T;T	0.75704	-0.96;-0.96	2.18	2.18	0.27775	.	0.076639	0.51477	U	0.000092	T	0.80560	0.4646	M	0.90595	3.13	0.31529	N	0.661439	B;B	0.25007	0.004;0.116	B;B	0.39935	0.015;0.314	T	0.81614	-0.0853	10	0.66056	D	0.02	.	7.9497	0.30008	1.0:0.0:0.0:0.0	.	35;35	Q9BY64-2;Q9BY64	.;UDB28_HUMAN	L	35	ENSP00000334276:H35L;ENSP00000427399:H35L	ENSP00000334276:H35L	H	+	2	0	UGT2B28	70180911	0.998000	0.40836	0.173000	0.22940	0.039000	0.13416	5.193000	0.65120	1.012000	0.39366	0.155000	0.16302	CAT		0.458	UGT2B28-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251557.2	NM_053039		T	70146322	A	T	70146322	3	4	610	1	0	0	0	0	1	0	0	0	16972	217	8	5	106	5	UGT2B28	4	70146322	Missense_Mutation	SNP	A	TCGA-HE-A5NJ-01A-11D-A26P-10		70146322	121007954	16	37057										
NPFFR2	10886	bcgsc.ca	37	chr4	73012838	73012838	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gcaagaagaaaaatattaccGagtgagactcaactcccaga	8	9	1	4			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr4:73012838G>A	ENST00000308744.6	+	4	976	c.878G>A	c.(877-879)cGa>cAa	p.R293Q	NPFFR2_ENST00000506359.1_3'UTR|NPFFR2_ENST00000395999.1_Missense_Mutation_p.R194Q|NPFFR2_ENST00000344413.5_3'UTR|NPFFR2_ENST00000358749.3_Missense_Mutation_p.R191Q	NM_004885.2	NP_004876.2	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2	293					detection of abiotic stimulus (GO:0009582)|G-protein coupled receptor signaling pathway (GO:0007186)|regulation of adenylate cyclase activity (GO:0045761)|regulation of cAMP-dependent protein kinase activity (GO:2000479)|regulation of MAPK cascade (GO:0043408)	actin cytoskeleton (GO:0015629)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|neuropeptide receptor activity (GO:0008188)			NS(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(24)|ovary(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	43			Lung(101;0.0935)|LUSC - Lung squamous cell carcinoma(112;0.138)			AAATATTACCGAGTGAGACTC	0.433																																																0													140	138	138					4																	73012838		2203	4300	6503	SO:0001583	missense	10886			AF236083	CCDS3551.1, CCDS3552.1, CCDS47072.1	4q21	2012-08-10	2006-02-15	2006-02-15	ENSG00000056291	ENSG00000056291		"GPCR / Class A :  Neuropeptide receptors : FF/AF", "GPCR / Class A : RF amide peptide receptors"	4525	protein-coding gene	gene with protein product	"neuropeptide FF 2"	607449	"G protein-coupled receptor 74"	GPR74		10079187, 10851242	Standard	NM_001144756		Approved	NPFF2, NPGPR	uc003hgg.2	Q9Y5X5	OTTHUMG00000129918	ENST00000308744.6:c.878G>A	4.37:g.73012838G>A	ENSP00000307822:p.Arg293Gln	Somatic		WXS	Illumina HiSeq	Phase_1	Q96RV1|Q9NR49	Missense_Mutation	SNP	ENST00000308744.6	37	CCDS3551.1	.	.	.	.	.	.	.	.	.	.	G	8.617	0.890562	0.17613	.	.	ENSG00000056291	ENST00000308744;ENST00000395999;ENST00000358749	T;T;T	0.71817	-0.6;-0.6;-0.6	5.67	0.868	0.19090	GPCR, rhodopsin-like superfamily (1);	0.487974	0.17420	N	0.174879	T	0.57519	0.2059	L	0.48174	1.505	0.47659	D	0.99948	B;B	0.31655	0.108;0.334	B;B	0.29524	0.024;0.103	T	0.40515	-0.9559	10	0.17832	T	0.49	.	9.92	0.41459	0.3518:0.0:0.6482:0.0	.	194;293	Q9Y5X5-3;Q9Y5X5	.;NPFF2_HUMAN	Q	293;194;191	ENSP00000307822:R293Q;ENSP00000379321:R194Q;ENSP00000351599:R191Q	ENSP00000307822:R293Q	R	+	2	0	NPFFR2	73231702	0.252000	0.23972	0.933000	0.37362	0.106000	0.19336	0.370000	0.20433	-0.165000	0.10908	-0.136000	0.14681	CGA		0.433	NPFFR2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000252170.2	NM_004885		A	73012838	G	A	73012838	3	1	610	1	0	0	0	0	1	0	0	0	10585	1058	37	1	898	1	NPFFR2	4	73012838	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	2866516	73012838	118141438	17	37058										
ENPEP	2028	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	111397929	111397929	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	cacctacacgggcaccgtgaGcatctccatcaacctgagcg	9	16	2	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr4:111397929G>A	ENST00000265162.5	+	1	701	c.359G>A	c.(358-360)aGc>aAc	p.S120N		NM_001977.3	NP_001968.3	Q07075	AMPE_HUMAN	glutamyl aminopeptidase (aminopeptidase A)	120					angiogenesis (GO:0001525)|angiotensin catabolic process in blood (GO:0002005)|angiotensin maturation (GO:0002003)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|cell-cell signaling (GO:0007267)|cellular protein metabolic process (GO:0044267)|glomerulus development (GO:0032835)|regulation of systemic arterial blood pressure by renin-angiotensin (GO:0003081)	apical part of cell (GO:0045177)|apical plasma membrane (GO:0016324)|brush border (GO:0005903)|cytoplasmic vesicle (GO:0031410)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|plasma membrane (GO:0005886)	aminopeptidase activity (GO:0004177)|metalloaminopeptidase activity (GO:0070006)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|kidney(1)|large_intestine(12)|lung(22)|ovary(1)|prostate(3)|skin(8)|upper_aerodigestive_tract(2)|urinary_tract(1)	54		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)		GGCACCGTGAGCATCTCCATC	0.627																																																0													96	100	99					4																	111397929		2203	4300	6503	SO:0001583	missense	2028			L12468	CCDS3691.1	4q25	2008-02-05			ENSG00000138792	ENSG00000138792	3.4.11.7	"CD molecules"	3355	protein-coding gene	gene with protein product		138297				9268642	Standard	NM_001977		Approved	gp160, CD249	uc003iab.4	Q07075	OTTHUMG00000132546	ENST00000265162.5:c.359G>A	4.37:g.111397929G>A	ENSP00000265162:p.Ser120Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q504U2	Missense_Mutation	SNP	ENST00000265162.5	37	CCDS3691.1	.	.	.	.	.	.	.	.	.	.	G	4.521	0.096620	0.08681	.	.	ENSG00000138792	ENST00000265162	T	0.02709	4.19	5.83	-6.19	0.02078	Peptidase M1, membrane alanine aminopeptidase, N-terminal (1);	1.193580	0.05705	N	0.594848	T	0.02342	0.0072	N	0.12443	0.215	0.20489	N	0.999897	B	0.09022	0.002	B	0.14023	0.01	T	0.41270	-0.9518	10	0.17832	T	0.49	.	18.7095	0.91651	0.2671:0.1216:0.6113:0.0	.	120	Q07075	AMPE_HUMAN	N	120	ENSP00000265162:S120N	ENSP00000265162:S120N	S	+	2	0	ENPEP	111617378	0.004000	0.15560	0.072000	0.20136	0.026000	0.11368	-0.722000	0.04958	-1.974000	0.00998	-0.305000	0.09177	AGC		0.627	ENPEP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255747.2			A	111397929	G	A	111397929	3	1	610	1	0	0	0	0	1	0	0	0	5130	971	34	2	361	2	ENPEP	4	111397929	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	38385091	111397929	79756347	18	37059										
CCT5	22948	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	10263419	10263419	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	atcgactgtttgcacaagggGacaaatggtgaggagctgtc	14	7	0	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr5:10263419G>A	ENST00000280326.4	+	10	1911	c.1491G>A	c.(1489-1491)ggG>ggA	p.G497G	CCT5_ENST00000515676.1_Silent_p.G459G|CCT5_ENST00000503026.1_Silent_p.G476G|CTD-2256P15.4_ENST00000606194.1_RNA|CCT5_ENST00000506600.1_Silent_p.G404G|CCT5_ENST00000515390.1_Silent_p.G442G	NM_012073.3	NP_036205.1	P48643	TCPE_HUMAN	chaperonin containing TCP1, subunit 5 (epsilon)	497					'de novo' posttranslational protein folding (GO:0051084)|binding of sperm to zona pellucida (GO:0007339)|cellular protein metabolic process (GO:0044267)|protein folding (GO:0006457)|response to virus (GO:0009615)	cell body (GO:0044297)|centrosome (GO:0005813)|chaperonin-containing T-complex (GO:0005832)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|nucleolus (GO:0005730)|zona pellucida receptor complex (GO:0002199)	ATP binding (GO:0005524)|G-protein beta-subunit binding (GO:0031681)			NS(1)|breast(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(13)|ovary(2)|pancreas(1)|prostate(2)	26						TGCACAAGGGGACAAATGGTG	0.512																																																0													59	55	56					5																	10263419		2203	4300	6503	SO:0001819	synonymous_variant	22948			D43950	CCDS3877.1	5p15.2	2014-09-17			ENSG00000150753	ENSG00000150753		"Heat Shock Proteins / Chaperonins"	1618	protein-coding gene	gene with protein product		610150					Standard	NM_012073		Approved	KIAA0098	uc003jeq.3	P48643	OTTHUMG00000131042	ENST00000280326.4:c.1491G>A	5.37:g.10263419G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8JZY8|A8K2X8|B4DYD8	Silent	SNP	ENST00000280326.4	37	CCDS3877.1																																																																																				0.512	CCT5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253688.2			A	10263419	G	A	10263419	2	1	610	1	0	0	0	0	0	0	0	1	2958	1161	41	2		2	CCT5	5	10263419	Silent	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10		10263419	170651841	19	37060										
ZNF366	167465	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	71739709	71739709	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	cgccgggtactctgaaaagcCctgagactgagacactcatc	10	13	2	3			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr5:71739709C>T	ENST00000318442.5	-	5	2599	c.2109G>A	c.(2107-2109)agG>agA	p.R703R	RP11-389C8.2_ENST00000564956.1_RNA	NM_152625.1	NP_689838.1	Q8N895	ZN366_HUMAN	zinc finger protein 366	703	Interaction with CTBP1.|Interaction with NRIP1.				negative regulation of intracellular estrogen receptor signaling pathway (GO:0033147)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|response to estrogen (GO:0043627)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|estrogen receptor binding (GO:0030331)|metal ion binding (GO:0046872)|transcription corepressor activity (GO:0003714)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(9)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)	35		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		TCTGAAAAGCCCTGAGACTGA	0.517																																																0													102	107	105					5																	71739709		2203	4300	6503	SO:0001819	synonymous_variant	167465			AK097115	CCDS4015.1	5q13.1	2013-01-08			ENSG00000178175	ENSG00000178175		"Zinc fingers, C2H2-type"	18316	protein-coding gene	gene with protein product		610159					Standard	NM_152625		Approved	FLJ39796	uc003kce.1	Q8N895	OTTHUMG00000100965	ENST00000318442.5:c.2109G>A	5.37:g.71739709C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5HYI9|Q7RTV4	Silent	SNP	ENST00000318442.5	37	CCDS4015.1																																																																																				0.517	ZNF366-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000218574.3			T	71739709	C	T	71739709	2	4	610	1	0	0	0	0	0	0	0	1	17882	622	22	2		2	ZNF366	5	71739709	Silent	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	61476290	71739709	109175551	20	37061										
SLC12A2	6558	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	127477532	127477532	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tgtgctttaggttcttgtgtTgttcgagatgccactggaaa	12	6	1	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr5:127477532T>A	ENST00000262461.2	+	10	1821	c.1632T>A	c.(1630-1632)gtT>gtA	p.V544V	SLC12A2_ENST00000343225.4_Silent_p.V544V	NM_001046.2	NP_001037.1	P55011	S12A2_HUMAN	solute carrier family 12 (sodium/potassium/chloride transporter), member 2	544					ammonium transmembrane transport (GO:0072488)|ammonium transport (GO:0015696)|branching involved in mammary gland duct morphogenesis (GO:0060444)|chloride transmembrane transport (GO:1902476)|detection of mechanical stimulus involved in sensory perception of sound (GO:0050910)|gamma-aminobutyric acid signaling pathway (GO:0007214)|hyperosmotic response (GO:0006972)|ion transport (GO:0006811)|mammary duct terminal end bud growth (GO:0060763)|multicellular organism growth (GO:0035264)|positive regulation of cell volume (GO:0045795)|potassium ion transport (GO:0006813)|sodium ion transport (GO:0006814)|transepithelial ammonium transport (GO:0070634)|transepithelial chloride transport (GO:0030321)|transmembrane transport (GO:0055085)|transport (GO:0006810)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	ammonium transmembrane transporter activity (GO:0008519)|sodium:potassium:chloride symporter activity (GO:0008511)			breast(3)|endometrium(5)|kidney(5)|large_intestine(12)|lung(16)|ovary(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	48		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)|Quinethazone(DB01325)	GTTCTTGTGTTGTTCGAGATG	0.308																																																0													171	162	165					5																	127477532		2203	4300	6503	SO:0001819	synonymous_variant	6558				CCDS4144.1, CCDS58965.1	5q23.3	2014-06-13	2013-07-18		ENSG00000064651	ENSG00000064651		"Solute carriers"	10911	protein-coding gene	gene with protein product	"bumetanide-sensitive sodium-(potassium)-chloride cotransporter 1", "basolateral Na-K-Cl symporter", "protein phosphatase 1, regulatory subunit 141"	600840				7629105	Standard	NM_001256461		Approved	NKCC1, BSC, BSC2, PPP1R141	uc003kus.3	P55011	OTTHUMG00000128983	ENST00000262461.2:c.1632T>A	5.37:g.127477532T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N713|Q8WWH7	Silent	SNP	ENST00000262461.2	37	CCDS4144.1																																																																																				0.308	SLC12A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250972.1	NM_001046		A	127477532	T	A	127477532	2	1	610	1	0	0	0	0	0	0	0	1	14396	1799	63	5		5	SLC12A2	5	127477532	Silent	SNP	T	TCGA-HE-A5NJ-01A-11D-A26P-10	55737823	127477532	53437728	21	37062										
SLC26A2	1836	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	149361289	149361289	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gaaaaccttctcttctatagTgtgtatgaagcgatggcttt	9	7	2	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr5:149361289T>C	ENST00000286298.4	+	3	2401	c.2133T>C	c.(2131-2133)agT>agC	p.S711S		NM_000112.3	NP_000103.2	P50443	S26A2_HUMAN	solute carrier family 26 (anion exchanger), member 2	711	STAS. {ECO:0000255|PROSITE- ProRule:PRU00198}.				3'-phosphoadenosine 5'-phosphosulfate biosynthetic process (GO:0050428)|3'-phosphoadenosine 5'-phosphosulfate metabolic process (GO:0050427)|carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|ion transport (GO:0006811)|ossification (GO:0001503)|small molecule metabolic process (GO:0044281)|sulfate transmembrane transport (GO:1902358)|sulfate transport (GO:0008272)|transmembrane transport (GO:0055085)|xenobiotic metabolic process (GO:0006805)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	secondary active sulfate transmembrane transporter activity (GO:0008271)|sulfate transmembrane transporter activity (GO:0015116)			NS(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(9)|lung(1)|prostate(2)|stomach(1)	18			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			TCTTCTATAGTGTGTATGAAG	0.413																																																0													57	63	61					5																	149361289		2203	4299	6502	SO:0001819	synonymous_variant	1836			U14528	CCDS4300.1	5q31-q34	2014-09-17	2013-07-18		ENSG00000155850	ENSG00000155850		"Solute carriers"	10994	protein-coding gene	gene with protein product		606718	"solute carrier family 26 (sulfate transporter), member 2"	DTD		7923357	Standard	NM_000112		Approved	DTDST	uc003lrh.3	P50443	OTTHUMG00000130054	ENST00000286298.4:c.2133T>C	5.37:g.149361289T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K2U3|B2R6J1|Q6N051	Silent	SNP	ENST00000286298.4	37	CCDS4300.1																																																																																				0.413	SLC26A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252333.2	NM_000112		C	149361289	T	C	149361289	2	2	610	1	0	0	0	0	0	0	0	1	14530	1693	59	3		3	SLC26A2	5	149361289	Silent	SNP	T	TCGA-HE-A5NJ-01A-11D-A26P-10	21883757	149361289	31553971	22	37063										
C6orf108	23113	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr6	43193768	43193768	+	IGR	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ggagggaggcttggggtgctCaccgcggccagactgcgggc	20	11	1	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr6:43193768C>A	ENST00000252050.4	+	0	7780				RP3-330M21.5_ENST00000500590.1_RNA|DNPH1_ENST00000230431.6_Intron|DNPH1_ENST00000393987.2_Nonsense_Mutation_p.E127*	NM_015089.2	NP_055904.1	Q8IWT3	CUL9_HUMAN	cullin 9						microtubule cytoskeleton organization (GO:0000226)|protein ubiquitination (GO:0016567)|regulation of mitosis (GO:0007088)|ubiquitin-dependent protein catabolic process (GO:0006511)	cullin-RING ubiquitin ligase complex (GO:0031461)|cytoplasm (GO:0005737)	ATP binding (GO:0005524)|zinc ion binding (GO:0008270)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(18)|liver(1)|lung(30)|ovary(5)|prostate(3)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(4)	92						TTGGGGTGCTCACCGCGGCCA	0.647																																																0													27	26	26					6																	43193768		2203	4298	6501	SO:0001628	intergenic_variant	10591			AB014608	CCDS4890.1	6p21.1	2011-05-24			ENSG00000112659	ENSG00000112659			15982	protein-coding gene	gene with protein product	"parkin-like cytoplasmic p53 binding protein", "p53-associated parkin-like cytoplasmic protein"	607489				17332328, 10521492, 12526791	Standard	NM_015089		Approved	H7AP1, KIAA0708, PARC	uc003ouk.3	Q8IWT3	OTTHUMG00000014723		6.37:g.43193768C>A		Somatic		WXS	Illumina HiSeq	Phase_I	O75188|Q5TCY3|Q68CP2|Q68D92|Q8N3W9|Q9BU56	Nonsense_Mutation	SNP	ENST00000252050.4	37	CCDS4890.1	.	.	.	.	.	.	.	.	.	.	C	11.10	1.539836	0.27563	.	.	ENSG00000112667	ENST00000393987	.	.	.	4.24	2.38	0.29361	.	.	.	.	.	.	.	.	.	.	.	0.53688	D	0.999974	.	.	.	.	.	.	.	.	.	.	0.44086	T	0.13	.	6.7563	0.23516	0.0:0.7731:0.0:0.2269	.	.	.	.	X	127	.	ENSP00000377556:E127X	E	-	1	0	C6orf108	43301746	0.036000	0.19791	0.992000	0.48379	0.353000	0.29299	0.002000	0.13061	0.989000	0.38761	0.462000	0.41574	GAG		0.647	CUL9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040582.2	NM_015089		A	43193768	C	A	43193768	1	1	610	0	1	0	0	0	0	0	0	0	2322	835	29	4		4	C6orf108	6	43193768	IGR	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10		43193768	127921299	23	37064										
HCRTR2	3062	ucsc.edu;bcgsc.ca	37	chr6	55113587	55113587	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gacctggttttttggacagtCcctttgcaaagtgattcctt	9	9	0	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr6:55113587C>G	ENST00000370862.3	+	2	710	c.374C>G	c.(373-375)tCc>tGc	p.S125C		NM_001526.3	NP_001517.2	O43614	OX2R_HUMAN	hypocretin (orexin) receptor 2	125					circadian sleep/wake cycle process (GO:0022410)|feeding behavior (GO:0007631)|neuropeptide signaling pathway (GO:0007218)|synaptic transmission (GO:0007268)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	neuropeptide receptor activity (GO:0008188)|orexin receptor activity (GO:0016499)	p.S125C(1)		breast(3)|endometrium(2)|kidney(1)|large_intestine(7)|lung(23)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	46	Lung NSC(77;0.107)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			TTTGGACAGTCCCTTTGCAAA	0.423																																																1	Substitution - Missense(1)	lung(1)											251	234	240					6																	55113587		2203	4299	6502	SO:0001583	missense	3062			AF041245	CCDS4956.1	6p12.1	2012-09-20			ENSG00000137252	ENSG00000137252		"GPCR / Class A : Hypocretin (orexin) receptors"	4849	protein-coding gene	gene with protein product		602393				9491897	Standard	NM_001526		Approved	OX2R	uc003pcl.3	O43614	OTTHUMG00000016150	ENST00000370862.3:c.374C>G	6.37:g.55113587C>G	ENSP00000359899:p.Ser125Cys	Somatic		WXS	Illumina HiSeq		Q5VTM0	Missense_Mutation	SNP	ENST00000370862.3	37	CCDS4956.1	.	.	.	.	.	.	.	.	.	.	C	16.63	3.177419	0.57692	.	.	ENSG00000137252	ENST00000370862	T	0.72167	-0.63	4.65	4.65	0.58169	GPCR, rhodopsin-like superfamily (1);	0.230889	0.43416	D	0.000566	T	0.64821	0.2633	L	0.41492	1.28	0.32294	N	0.565959	P;P	0.40931	0.733;0.733	P;P	0.56343	0.796;0.796	T	0.64774	-0.6328	10	0.39692	T	0.17	.	11.1333	0.48360	0.1407:0.723:0.1364:0.0	.	125;125	Q548Y0;O43614	.;OX2R_HUMAN	C	125	ENSP00000359899:S125C	ENSP00000359899:S125C	S	+	2	0	HCRTR2	55221546	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	3.695000	0.54749	2.282000	0.76494	0.555000	0.69702	TCC		0.423	HCRTR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043392.1			G	55113587	C	G	55113587	3	3	610	1	0	0	0	0	1	0	0	0	7009	855	30	4	380	4	HCRTR2	6	55113587	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	11919819	55113587	116001480	24	37065										
IGF2R	3482	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	160467594	160467594	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tataaagttgagacaaagaaGtatgacttttatataaatgt	7	2	0	3			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr6:160467594G>C	ENST00000356956.1	+	15	2116	c.1968G>C	c.(1966-1968)aaG>aaC	p.K656N		NM_000876.2	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor	656					insulin-like growth factor receptor signaling pathway (GO:0048009)|liver development (GO:0001889)|organ regeneration (GO:0031100)|positive regulation of apoptotic process (GO:0043065)|post-embryonic development (GO:0009791)|receptor-mediated endocytosis (GO:0006898)|response to retinoic acid (GO:0032526)|signal transduction (GO:0007165)|spermatogenesis (GO:0007283)	cell surface (GO:0009986)|clathrin coat (GO:0030118)|endocytic vesicle (GO:0030139)|endosome (GO:0005768)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|lysosome (GO:0005764)|membrane (GO:0016020)|nuclear envelope lumen (GO:0005641)|perinuclear region of cytoplasm (GO:0048471)|trans-Golgi network transport vesicle (GO:0030140)	G-protein coupled receptor activity (GO:0004930)|glycoprotein binding (GO:0001948)|identical protein binding (GO:0042802)|insulin-like growth factor-activated receptor activity (GO:0005010)|mannose binding (GO:0005537)|phosphoprotein binding (GO:0051219)|receptor activity (GO:0004872)|retinoic acid binding (GO:0001972)|transporter activity (GO:0005215)			breast(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(27)|lung(31)|ovary(3)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	95		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)	Mecasermin(DB01277)	AGACAAAGAAGTATGACTTTT	0.413																																																0													81	88	86					6																	160467594		2203	4300	6503	SO:0001583	missense	3482			J03528	CCDS5273.1	6q25.3	2014-09-16			ENSG00000197081	ENSG00000197081		"CD molecules"	5467	protein-coding gene	gene with protein product	"cation-independent mannose-6 phosphate receptor"	147280					Standard	NM_000876		Approved	CD222, MPRI, MPR1, CIMPR, M6P-R	uc003qta.3	P11717	OTTHUMG00000015945	ENST00000356956.1:c.1968G>C	6.37:g.160467594G>C	ENSP00000349437:p.Lys656Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z7G9|Q96PT5	Missense_Mutation	SNP	ENST00000356956.1	37	CCDS5273.1	.	.	.	.	.	.	.	.	.	.	G	10.21	1.287371	0.23478	.	.	ENSG00000197081	ENST00000356956	T	0.11277	2.79	5.07	3.25	0.37280	Mannose-6-phosphate receptor, binding (1);	0.269818	0.41500	D	0.000876	T	0.04770	0.0129	L	0.58354	1.805	0.45995	D	0.998804	P	0.45396	0.857	P	0.45377	0.478	T	0.37798	-0.9690	10	0.19147	T	0.46	-5.8683	3.1762	0.06569	0.2087:0.1255:0.5372:0.1286	.	656	P11717	MPRI_HUMAN	N	656	ENSP00000349437:K656N	ENSP00000349437:K656N	K	+	3	2	IGF2R	160387584	0.158000	0.22850	0.965000	0.40720	0.840000	0.47671	-0.185000	0.09684	1.262000	0.44165	0.655000	0.94253	AAG		0.413	IGF2R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042931.1	NM_000876		C	160467594	G	C	160467594	3	2	610	1	0	0	0	0	1	0	0	0	7583	1020	36	4	2026	4	IGF2R	6	160467594	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	105354007	160467594	10647473	25	37066										
ISPD	729920	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	16255771	16255771	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	aaattctctaatctgcattaGgttttccattttctgactgg	6	8	3	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr7:16255771G>C	ENST00000407010.2	-	9	1170	c.1171C>G	c.(1171-1173)Cta>Gta	p.L391V	ISPD-AS1_ENST00000582683.1_RNA|ISPD-AS1_ENST00000438573.1_RNA|ISPD_ENST00000399310.3_Missense_Mutation_p.L341V|ISPD-AS1_ENST00000579293.1_RNA|ISPD-AS1_ENST00000457112.1_RNA	NM_001101426.3	NP_001094896.1	A4D126	ISPD_HUMAN	isoprenoid synthase domain containing	391					axon guidance (GO:0007411)|isoprenoid biosynthetic process (GO:0008299)|protein O-linked mannosylation (GO:0035269)		nucleotidyltransferase activity (GO:0016779)			endometrium(1)|kidney(1)|large_intestine(3)|lung(3)|ovary(1)	9						ATCTGCATTAGGTTTTCCATT	0.303										Multiple Myeloma(15;0.18)																																						0													64	60	61					7																	16255771		1786	4057	5843	SO:0001583	missense	729920			AK124805		7p21.2	2010-03-19			ENSG00000214960	ENSG00000214960			37276	protein-coding gene	gene with protein product	"notch1-induced protein", "4-diphosphocytidyl-2C-methyl-D-erythritol synthase homolog (Arabidopsis)"	614631				11181995	Standard	NM_001101417		Approved	hCG_1745121, IspD, Nip	uc010ktx.2	A4D126	OTTHUMG00000152447	ENST00000407010.2:c.1171C>G	7.37:g.16255771G>C	ENSP00000385478:p.Leu391Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8MU35|H9KVB2	Missense_Mutation	SNP	ENST00000407010.2	37		.	.	.	.	.	.	.	.	.	.	G	5.747	0.322274	0.10900	.	.	ENSG00000214960	ENST00000407010;ENST00000399310	D;D	0.87729	-2.23;-2.29	5.22	3.4	0.38934	.	.	.	.	.	T	0.77711	0.4171	N	0.24115	0.695	0.09310	N	1	B	0.10296	0.003	B	0.10450	0.005	T	0.65857	-0.6066	9	0.48119	T	0.1	-18.4993	7.3675	0.26781	0.0916:0.1697:0.7388:0.0	.	391	A4D126	ISPD_HUMAN	V	391;341	ENSP00000385478:L391V;ENSP00000382249:L341V	ENSP00000382249:L341V	L	-	1	2	ISPD	16222296	0.250000	0.23951	0.038000	0.18304	0.431000	0.31685	0.794000	0.26958	0.685000	0.31468	0.591000	0.81541	CTA		0.303	ISPD-001	KNOWN	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000326252.4	NM_001101426		C	16255771	G	C	16255771	3	2	610	1	0	0	0	0	1	0	0	0	7871	991	35	4	192	4	ISPD	7	16255771	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10		16255771	142882892	26	37067										
HIP1	3092	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	75183809	75183809	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	cagctggaaatggatgtgacCgtggagaggaggtgatctgt	17	5	1	3			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr7:75183809C>T	ENST00000336926.6	-	20	2006	c.1980G>A	c.(1978-1980)acG>acA	p.T660T	HIP1_ENST00000434438.2_Silent_p.T660T	NM_005338.5	NP_005329.3	O00291	HIP1_HUMAN	huntingtin interacting protein 1	660					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|cell differentiation (GO:0030154)|clathrin coat assembly (GO:0048268)|endocytosis (GO:0006897)|positive regulation of receptor-mediated endocytosis (GO:0048260)|regulation of apoptotic process (GO:0042981)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	clathrin-coated vesicle (GO:0030136)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)	clathrin binding (GO:0030276)|phosphatidylinositol binding (GO:0035091)|structural constituent of cytoskeleton (GO:0005200)			breast(3)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(25)|ovary(2)|pancreas(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	51						TGGATGTGACCGTGGAGAGGA	0.527			T	PDGFRB	CMML																																		Dom	yes		7	7q11.23	3092	huntingtin interacting protein 1		L	0													98	90	92					7																	75183809		2203	4300	6503	SO:0001819	synonymous_variant	3092			AF052288	CCDS34669.1, CCDS59060.1	7q11.23	2008-07-18			ENSG00000127946	ENSG00000127946			4913	protein-coding gene	gene with protein product		601767				9140394, 9147654	Standard	NM_005338		Approved	ILWEQ	uc003uds.2	O00291	OTTHUMG00000156050	ENST00000336926.6:c.1980G>A	7.37:g.75183809C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4E3I7|E7ES17|O00328|Q2TB58|Q8TDL4	Silent	SNP	ENST00000336926.6	37	CCDS34669.1																																																																																				0.527	HIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342863.2	NM_005338		T	75183809	C	T	75183809	2	4	610	1	0	0	0	0	0	0	0	1	7121	639	23	1		1	HIP1	7	75183809	Silent	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	58928038	75183809	83954854	27	37068										
CD36	948	broad.mit.edu;bcgsc.ca	37	chr7	80302113	80302113	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gattcactttacaatttgcaAaacggctgcaggtcaaccta	7	10	2	0			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr7:80302113A>T	ENST00000435819.1	+	15	1837	c.1153A>T	c.(1153-1155)Aaa>Taa	p.K385*	CD36_ENST00000447544.2_Nonsense_Mutation_p.K385*|CD36_ENST00000394788.3_Nonsense_Mutation_p.K385*|CD36_ENST00000432207.1_Nonsense_Mutation_p.K385*|CD36_ENST00000433696.2_Nonsense_Mutation_p.K346*|CD36_ENST00000538969.1_Nonsense_Mutation_p.K325*|CD36_ENST00000309881.7_Nonsense_Mutation_p.K385*|CD36_ENST00000534394.1_Nonsense_Mutation_p.K309*|CD36_ENST00000544133.1_3'UTR			P16671	CD36_HUMAN	CD36 molecule (thrombospondin receptor)	385					antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic cell clearance (GO:0043277)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell surface receptor signaling pathway (GO:0007166)|cellular lipid metabolic process (GO:0044255)|cellular response to bacterial lipopeptide (GO:0071221)|cellular response to hydroperoxide (GO:0071447)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to lipoteichoic acid (GO:0071223)|cGMP-mediated signaling (GO:0019934)|cholesterol transport (GO:0030301)|defense response to Gram-positive bacterium (GO:0050830)|innate immune response (GO:0045087)|lipid metabolic process (GO:0006629)|lipid storage (GO:0019915)|lipoprotein transport (GO:0042953)|long-chain fatty acid import (GO:0044539)|low-density lipoprotein particle clearance (GO:0034383)|low-density lipoprotein particle mediated signaling (GO:0055096)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|negative regulation of growth of symbiont in host (GO:0044130)|negative regulation of transcription factor import into nucleus (GO:0042992)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nitric oxide mediated signal transduction (GO:0007263)|phagocytosis, recognition (GO:0006910)|plasma lipoprotein particle clearance (GO:0034381)|plasma membrane long-chain fatty acid transport (GO:0015911)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of blood coagulation (GO:0030194)|positive regulation of blood microparticle formation (GO:2000334)|positive regulation of cell-matrix adhesion (GO:0001954)|positive regulation of cholesterol storage (GO:0010886)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of macrophage cytokine production (GO:0060907)|positive regulation of macrophage derived foam cell differentiation (GO:0010744)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of phagocytosis, engulfment (GO:0060100)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of tumor necrosis factor production (GO:0032760)|regulation of removal of superoxide radicals (GO:2000121)|response to stilbenoid (GO:0035634)|small molecule metabolic process (GO:0044281)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)	cell surface (GO:0009986)|endocytic vesicle membrane (GO:0030666)|external side of plasma membrane (GO:0009897)|extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|membrane raft (GO:0045121)|phagocytic vesicle (GO:0045335)|plasma membrane (GO:0005886)|platelet alpha granule membrane (GO:0031092)	high-density lipoprotein particle binding (GO:0008035)|lipid binding (GO:0008289)|lipoprotein particle binding (GO:0071813)|lipoteichoic acid receptor activity (GO:0070892)|low-density lipoprotein particle binding (GO:0030169)|low-density lipoprotein receptor activity (GO:0005041)|thrombospondin receptor activity (GO:0070053)|transforming growth factor beta binding (GO:0050431)			breast(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(10)|large_intestine(1)|lung(6)|ovary(1)	21						ACAATTTGCAAAACGGCTGCA	0.289																																																0													63	64	64					7																	80302113		2200	4298	6498	SO:0001587	stop_gained	948			Z32770	CCDS34673.1	7q11.2	2010-02-26	2006-03-28		ENSG00000135218	ENSG00000135218		"CD molecules"	1663	protein-coding gene	gene with protein product		173510	"CD36 antigen (collagen type I receptor, thrombospondin receptor)"			7503937	Standard	NM_001001548		Approved	SCARB3, GPIV, FAT, GP4, GP3B	uc003uhg.4	P16671	OTTHUMG00000155383	ENST00000435819.1:c.1153A>T	7.37:g.80302113A>T	ENSP00000399421:p.Lys385*	Somatic		WXS	Illumina HiSeq	Phase_I	D9IX66|D9IX67|D9IX68|D9IX69|Q13966|Q16093|Q8TCV7|Q9BPZ8|Q9BQC2|Q9BZM8|Q9BZN3|Q9BZN4|Q9BZN5	Nonsense_Mutation	SNP	ENST00000435819.1	37	CCDS34673.1	.	.	.	.	.	.	.	.	.	.	A	38	6.792769	0.97841	.	.	ENSG00000135218	ENST00000435819;ENST00000309881;ENST00000534394;ENST00000394788;ENST00000447544;ENST00000432207;ENST00000419819;ENST00000538969;ENST00000433696	.	.	.	5.06	5.06	0.68205	.	0.043359	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-27.73	14.7706	0.69675	1.0:0.0:0.0:0.0	.	.	.	.	X	385;385;309;385;385;385;385;325;346	.	.	K	+	1	0	CD36	80140049	1.000000	0.71417	1.000000	0.80357	0.926000	0.56050	4.318000	0.59190	2.016000	0.59253	0.482000	0.46254	AAA		0.289	CD36-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000339767.6	NM_001001547		T	80302113	A	T	80302113	4	4	610	1	0	0	0	0	0	1	0	0	3009	15	1	5	1191	5	CD36	7	80302113	Nonsense_Mutation	SNP	A	TCGA-HE-A5NJ-01A-11D-A26P-10	5118304	80302113	78836550	28	37069										
HIPK2	28996	ucsc.edu;bcgsc.ca	37	chr7	139305166	139305166	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	cctggttgtggacagtggtcAgctggttgttaaaggtcatg	15	6	2	0			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr7:139305166A>T	ENST00000406875.3	-	7	1857	c.1763T>A	c.(1762-1764)cTg>cAg	p.L588Q	HIPK2_ENST00000428878.2_Missense_Mutation_p.L588Q|HIPK2_ENST00000342645.6_Missense_Mutation_p.L588Q	NM_022740.4	NP_073577.3	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2	588	Interaction with SKI and SMAD1.				adult walking behavior (GO:0007628)|anterior/posterior pattern specification (GO:0009952)|cellular response to hypoxia (GO:0071456)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|embryonic camera-type eye morphogenesis (GO:0048596)|embryonic retina morphogenesis in camera-type eye (GO:0060059)|erythrocyte differentiation (GO:0030218)|eye development (GO:0001654)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|iris morphogenesis (GO:0061072)|lens induction in camera-type eye (GO:0060235)|modulation by virus of host morphology or physiology (GO:0019048)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron differentiation (GO:0030182)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|PML body organization (GO:0030578)|positive regulation of angiogenesis (GO:0045766)|positive regulation of cell proliferation (GO:0008284)|positive regulation of DNA binding (GO:0043388)|positive regulation of JNK cascade (GO:0046330)|positive regulation of protein binding (GO:0032092)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|protein phosphorylation (GO:0006468)|regulation of cell cycle (GO:0051726)|retina layer formation (GO:0010842)|SMAD protein signal transduction (GO:0060395)|smoothened signaling pathway (GO:0007224)|transforming growth factor beta receptor signaling pathway (GO:0007179)|voluntary musculoskeletal movement (GO:0050882)	cytoplasm (GO:0005737)|nuclear body (GO:0016604)|nucleus (GO:0005634)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II transcription coactivator activity (GO:0001105)|SMAD binding (GO:0046332)|transcription corepressor activity (GO:0003714)|virion binding (GO:0046790)			breast(4)|central_nervous_system(4)|endometrium(7)|kidney(2)|large_intestine(5)|lung(11)|ovary(3)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	43	Melanoma(164;0.205)					GACAGTGGTCAGCTGGTTGTT	0.527																																																0													204	197	199					7																	139305166		2096	4234	6330	SO:0001583	missense	28996			AF208291	CCDS75666.1, CCDS75667.1	7q32-q34	2004-01-29	2001-11-29		ENSG00000064393	ENSG00000064393			14402	protein-coding gene	gene with protein product		606868	"homeodomain-interacting protein kinase 2"			11120354	Standard	NM_001113239		Approved		uc003vvf.4	Q9H2X6	OTTHUMG00000157704	ENST00000406875.3:c.1763T>A	7.37:g.139305166A>T	ENSP00000385571:p.Leu588Gln	Somatic		WXS	Illumina HiSeq		Q75MR7|Q8WWI4|Q9H2Y1	Missense_Mutation	SNP	ENST00000406875.3	37		.	.	.	.	.	.	.	.	.	.	A	21.8	4.199947	0.79015	.	.	ENSG00000064393	ENST00000406875;ENST00000428878;ENST00000342645	T;T;T	0.56776	0.46;0.44;0.51	4.79	4.79	0.61399	.	.	.	.	.	T	0.72179	0.3428	.	.	.	0.58432	D	0.999999	D;D	0.71674	0.998;0.997	D;D	0.80764	0.991;0.994	T	0.76490	-0.2940	8	0.66056	D	0.02	.	14.3492	0.66688	1.0:0.0:0.0:0.0	.	588;588	Q9H2X6;Q9H2X6-3	HIPK2_HUMAN;.	Q	588	ENSP00000385571:L588Q;ENSP00000413724:L588Q;ENSP00000343108:L588Q	ENSP00000343108:L588Q	L	-	2	0	HIPK2	138955706	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	8.907000	0.92634	1.780000	0.52325	0.533000	0.62120	CTG		0.527	HIPK2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000349430.3	NM_022740		T	139305166	A	T	139305166	3	4	610	1	0	0	0	0	1	0	0	0	7124	188	7	5	1869	5	HIPK2	7	139305166	Missense_Mutation	SNP	A	TCGA-HE-A5NJ-01A-11D-A26P-10	59003053	139305166	19833497	29	37070										
PAXIP1	22976	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	154767474	154767474	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	agtaatattcctcagtgtccGtacagctggactccaggtag	10	10	1	0	rs540417697		TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr7:154767474G>A	ENST00000404141.1	-	6	1160	c.1006C>T	c.(1006-1008)Cgg>Tgg	p.R336W	PAXIP1_ENST00000397192.1_Missense_Mutation_p.R336W|PAXIP1_ENST00000473219.1_5'UTR			Q6ZW49	PAXI1_HUMAN	PAX interacting (with transcription-activation domain) protein 1	336					adipose tissue development (GO:0060612)|chorion development (GO:0060717)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|endothelial cell migration (GO:0043542)|histone H3-K4 methylation (GO:0051568)|positive regulation of histone acetylation (GO:0035066)|positive regulation of histone H3-K36 methylation (GO:0000416)|positive regulation of histone H3-K4 methylation (GO:0051571)|positive regulation of isotype switching (GO:0045830)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of transcription initiation from RNA polymerase II promoter (GO:0060261)|response to ionizing radiation (GO:0010212)|transcription, DNA-templated (GO:0006351)|vasculogenesis (GO:0001570)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)				NS(1)|breast(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(9)|ovary(1)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|urinary_tract(1)	33	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0296)	UCEC - Uterine corpus endometrioid carcinoma (81;0.178)		CTCAGTGTCCGTACAGCTGGA	0.433																																																0													45	44	44					7																	154767474		1947	4167	6114	SO:0001583	missense	22976			U80735	CCDS47753.1	7q36	2007-07-06	2005-04-05	2005-04-05	ENSG00000157212	ENSG00000157212			8624	protein-coding gene	gene with protein product		608254	"PAX transcription activation domain interacting protein 1 like"	PAXIP1L		9225980	Standard	XM_005249539		Approved	CAGF29, CAGF28, TNRC2, PTIP	uc022aqf.1	Q6ZW49	OTTHUMG00000151322	ENST00000404141.1:c.1006C>T	7.37:g.154767474G>A	ENSP00000384048:p.Arg336Trp	Somatic		WXS	Illumina HiSeq	Phase_I	O15404|Q6N099|Q6ZWH9|Q7Z315|Q86UN0|Q8N4P9|Q96HP2	Missense_Mutation	SNP	ENST00000404141.1	37	CCDS47753.1	.	.	.	.	.	.	.	.	.	.	G	17.83	3.486598	0.63962	.	.	ENSG00000157212	ENST00000404141;ENST00000397192;ENST00000357094;ENST00000323199	T;T	0.48836	0.8;0.8	5.04	4.16	0.48862	.	0.000000	0.50627	U	0.000119	T	0.63141	0.2486	M	0.68952	2.095	0.40826	D	0.983548	B;D;B;D	0.89917	0.225;1.0;0.333;1.0	B;D;B;D	0.91635	0.028;0.999;0.061;0.998	T	0.66040	-0.6022	10	0.72032	D	0.01	-63.4587	8.8578	0.35238	0.0761:0.0:0.7761:0.1478	.	289;245;302;336	B4DEQ6;Q6ZW49-3;Q6ZW49-1;Q6ZW49	.;.;.;PAXI1_HUMAN	W	336;336;284;289	ENSP00000384048:R336W;ENSP00000380376:R336W	ENSP00000319149:R289W	R	-	1	2	PAXIP1	154398407	1.000000	0.71417	0.985000	0.45067	0.878000	0.50629	3.274000	0.51631	1.250000	0.43966	0.305000	0.20034	CGG		0.433	PAXIP1-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322223.1	NM_007349		A	154767474	G	A	154767474	3	1	610	1	0	0	0	0	1	0	0	0	11494	1144	40	1	2267	1	PAXIP1	7	154767474	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	15462308	154767474	4371189	30	37071										
SGK223	157285	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	8235300	8235300	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ggcagccagtttctggcggaAgctctcctgggtggagggcc	17	11	2	0			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr8:8235300A>G	ENST00000520004.1	-	3	883	c.619T>C	c.(619-621)Ttc>Ctc	p.F207L	SGK223_ENST00000330777.4_Missense_Mutation_p.F207L			Q86YV5	SG223_HUMAN		207							ATP binding (GO:0005524)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)										TTCTGGCGGAAGCTCTCCTGG	0.602																																					GBM(34;731 755 10259 33573 33867)											0													88	97	94					8																	8235300		1951	4139	6090	SO:0001583	missense	0																														ENST00000520004.1:c.619T>C	8.37:g.8235300A>G	ENSP00000428054:p.Phe207Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3N5	Missense_Mutation	SNP	ENST00000520004.1	37	CCDS43706.1	.	.	.	.	.	.	.	.	.	.	A	10.85	1.466943	0.26335	.	.	ENSG00000182319	ENST00000330777;ENST00000520004	T;T	0.56103	0.48;0.48	5.2	5.2	0.72013	.	0.099877	0.41605	D	0.000844	T	0.38188	0.1031	L	0.32530	0.975	0.30179	N	0.800576	B	0.27351	0.176	B	0.25884	0.064	T	0.37150	-0.9718	10	0.37606	T	0.19	.	7.5573	0.27831	0.8992:0.0:0.1008:0.0	.	207	Q86YV5	SG223_HUMAN	L	207	ENSP00000330930:F207L;ENSP00000428054:F207L	ENSP00000330930:F207L	F	-	1	0	AC068353.1	8272710	0.988000	0.35896	1.000000	0.80357	0.426000	0.31534	1.270000	0.33086	2.089000	0.63090	0.533000	0.62120	TTC		0.602	SGK223-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374864.1			G	8235300	A	G	8235300	3	3	610	1	0	0	0	0	1	0	0	0	14223	72	3	3	3605	3	SGK223	8	8235300	Missense_Mutation	SNP	A	TCGA-HE-A5NJ-01A-11D-A26P-10		8235300	138128722	31	37072										
PXDNL	137902	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	52359698	52359698	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	cagaggagagaactgtatgcTggccttccacagggagctgc	14	10	0	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr8:52359698T>A	ENST00000356297.4	-	12	1491	c.1391A>T	c.(1390-1392)cAg>cTg	p.Q464L	PXDNL_ENST00000543296.1_Missense_Mutation_p.Q464L	NM_144651.4	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog (Drosophila)-like	464	Ig-like C2-type 3.				hydrogen peroxide catabolic process (GO:0042744)|oxidation-reduction process (GO:0055114)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)	endonuclease activity (GO:0004519)|heme binding (GO:0020037)|metal ion binding (GO:0046872)|peroxidase activity (GO:0004601)			NS(1)|breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(6)|lung(25)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	48		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				AACTGTATGCTGGCCTTCCAC	0.512																																																0													109	107	108					8																	52359698		2028	4190	6218	SO:0001583	missense	137902				CCDS47855.1	8q11.21-q11.22	2013-02-18	2007-01-12		ENSG00000147485	ENSG00000147485		"Immunoglobulin superfamily / I-set domain containing"	26359	protein-coding gene	gene with protein product	"polysomal ribonuclease 1 homolog (Xenopus)"	615904	"peroxidasin homolog-like (Drosophila)"			22543864	Standard	NM_144651		Approved	FLJ25471, PMR1	uc003xqu.4	A1KZ92	OTTHUMG00000164244	ENST00000356297.4:c.1391A>T	8.37:g.52359698T>A	ENSP00000348645:p.Gln464Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B5ME43|B6CGZ3|H0YBM9|Q6ZMR2|Q96LH9	Missense_Mutation	SNP	ENST00000356297.4	37	CCDS47855.1	.	.	.	.	.	.	.	.	.	.	T	5.421	0.262910	0.10294	.	.	ENSG00000147485	ENST00000356297;ENST00000543296	D;D	0.81659	-1.52;-1.52	4.02	-7.16	0.01516	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.65450	0.2692	L	0.43701	1.375	0.09310	N	1	B	0.02656	0.0	B	0.06405	0.002	T	0.49523	-0.8931	9	0.36615	T	0.2	.	4.0424	0.09758	0.3721:0.1572:0.0:0.4707	.	464	A1KZ92	PXDNL_HUMAN	L	464	ENSP00000348645:Q464L;ENSP00000444865:Q464L	ENSP00000348645:Q464L	Q	-	2	0	PXDNL	52522251	0.000000	0.05858	0.000000	0.03702	0.046000	0.14306	0.100000	0.15231	-1.355000	0.02186	-0.375000	0.07067	CAG		0.512	PXDNL-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377905.1	NM_144651		A	52359698	T	A	52359698	3	1	610	1	0	0	0	0	1	0	0	0	12861	1580	55	5	3048	5	PXDNL	8	52359698	Missense_Mutation	SNP	T	TCGA-HE-A5NJ-01A-11D-A26P-10	44124398	52359698	94004324	32	37073										
RB1CC1	9821	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	53555097	53555097	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tactgacttcttcttcaagcTttttcttttcctcaagcaaa	3	11	5	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr8:53555097T>G	ENST00000025008.5	-	18	4674	c.4151A>C	c.(4150-4152)aAg>aCg	p.K1384T	RB1CC1_ENST00000539297.1_Missense_Mutation_p.K1384T|RB1CC1_ENST00000435644.2_Missense_Mutation_p.K1384T|RB1CC1_ENST00000521611.1_Intron	NM_014781.4	NP_055596.3	Q8TDY2	RBCC1_HUMAN	RB1-inducible coiled-coil 1	1384					autophagic vacuole assembly (GO:0000045)|cell cycle (GO:0007049)|heart development (GO:0007507)|JNK cascade (GO:0007254)|liver development (GO:0001889)|negative regulation of apoptotic process (GO:0043066)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|positive regulation of cell size (GO:0045793)|positive regulation of protein phosphorylation (GO:0001934)|regulation of autophagy (GO:0010506)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nuclear membrane (GO:0031965)|pre-autophagosomal structure membrane (GO:0034045)|ULK1-ATG13-FIP200 complex (GO:0070969)				NS(2)|cervix(2)|endometrium(6)|kidney(4)|large_intestine(9)|lung(19)|ovary(8)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)	60		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				TTCTTCAAGCTTTTTCTTTTC	0.383																																					GBM(180;1701 2102 13475 42023 52570)											0													96	91	93					8																	53555097		2203	4300	6503	SO:0001583	missense	9821			AB059622	CCDS34892.1, CCDS47856.1	8q11	2014-06-13				ENSG00000023287			15574	protein-coding gene	gene with protein product	"200 kDa FAK family kinase-interacting protein", "phosphatase 1, regulatory subunit 131"	606837				11850849, 7724523, 18443221	Standard	NM_014781		Approved	KIAA0203, Cc1, DRAGOU14, FIP200, ATG17, PPP1R131	uc003xre.4	Q8TDY2		ENST00000025008.5:c.4151A>C	8.37:g.53555097T>G	ENSP00000025008:p.Lys1384Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q86YR4|Q8WVU9|Q92601	Missense_Mutation	SNP	ENST00000025008.5	37	CCDS34892.1	.	.	.	.	.	.	.	.	.	.	T	16.15	3.040807	0.55003	.	.	ENSG00000023287	ENST00000025008;ENST00000435644;ENST00000539297	T;T;T	0.18338	2.22;2.22;2.22	5.61	4.46	0.54185	.	0.235291	0.44097	D	0.000482	T	0.12561	0.0305	L	0.27053	0.805	0.34041	D	0.654965	B;B	0.30361	0.277;0.181	B;B	0.33042	0.157;0.075	T	0.22941	-1.0202	10	0.26408	T	0.33	-15.3958	10.1369	0.42712	0.0:0.0806:0.0:0.9194	.	1384;1384	Q8TDY2-2;Q8TDY2	.;RBCC1_HUMAN	T	1384	ENSP00000025008:K1384T;ENSP00000396067:K1384T;ENSP00000445960:K1384T	ENSP00000025008:K1384T	K	-	2	0	RB1CC1	53717650	0.999000	0.42202	0.825000	0.32803	0.998000	0.95712	3.259000	0.51515	0.950000	0.37743	0.533000	0.62120	AAG		0.383	RB1CC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000378011.1	NM_014781		G	53555097	T	G	53555097	3	3	610	1	0	0	0	0	1	0	0	0	13112	1609	56	5	661	5	RB1CC1	8	53555097	Missense_Mutation	SNP	T	TCGA-HE-A5NJ-01A-11D-A26P-10	1195399	53555097	92808925	33	37074										
UTP23	84294	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	117782585	117782585	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ttgaagagggaaatcctcatCattattttgtggcaacacag	9	7	2	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr8:117782585C>T	ENST00000309822.2	+	2	444	c.343C>T	c.(343-345)Cat>Tat	p.H115Y	UTP23_ENST00000517820.1_Intron|UTP23_ENST00000520733.1_Missense_Mutation_p.H9Y|UTP23_ENST00000357148.3_Missense_Mutation_p.H115Y	NM_032334.2	NP_115710.2	Q9BRU9	UTP23_HUMAN	UTP23, small subunit (SSU) processome component, homolog (yeast)	115					rRNA processing (GO:0006364)	nucleus (GO:0005634)|small-subunit processome (GO:0032040)	poly(A) RNA binding (GO:0044822)			breast(2)|endometrium(2)|kidney(1)|large_intestine(2)|lung(4)|urinary_tract(1)	12						AAATCCTCATCATTATTTTGT	0.353																																																0													112	105	107					8																	117782585		2203	4300	6503	SO:0001583	missense	84294				CCDS6320.1	8q24.11	2008-06-12	2008-06-12	2008-06-12		ENSG00000147679			28224	protein-coding gene	gene with protein product			"chromosome 8 open reading frame 53"	C8orf53		16769905	Standard	NM_032334		Approved	MGC14595	uc003yoc.3	Q9BRU9		ENST00000309822.2:c.343C>T	8.37:g.117782585C>T	ENSP00000308332:p.His115Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE25|Q96NJ8	Missense_Mutation	SNP	ENST00000309822.2	37	CCDS6320.1	.	.	.	.	.	.	.	.	.	.	C	22.9	4.351801	0.82132	.	.	ENSG00000147679	ENST00000309822;ENST00000357148;ENST00000517814;ENST00000520733	T	0.24151	1.87	5.9	5.9	0.94986	.	0.093959	0.64402	D	0.000001	T	0.54935	0.1889	M	0.79011	2.435	0.58432	D	0.999998	D	0.71674	0.998	D	0.69142	0.962	T	0.54662	-0.8260	10	0.62326	D	0.03	-17.3326	20.2789	0.98501	0.0:1.0:0.0:0.0	.	115	Q9BRU9	UTP23_HUMAN	Y	115;115;115;9	ENSP00000308332:H115Y	ENSP00000308332:H115Y	H	+	1	0	UTP23	117851766	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	5.525000	0.67110	2.788000	0.95919	0.650000	0.86243	CAT		0.353	UTP23-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381173.1	NM_032334		T	117782585	C	T	117782585	3	4	610	1	0	0	0	0	1	0	0	0	17112	826	29	2	349	2	UTP23	8	117782585	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	64227488	117782585	28581437	34	37075										
NFKBIL2	4796	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	145668588	145668588	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tgtgcctgcagcaaagcatcCctcgactggcagtggtcata	11	12	1	0			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr8:145668588C>G	ENST00000409379.3	-	4	410	c.381G>C	c.(379-381)agG>agC	p.R127S		NM_013432.4	NP_038460.4	Q96HA7	TONSL_HUMAN	tonsoku-like, DNA repair protein	127					cytoplasmic sequestering of transcription factor (GO:0042994)|double-strand break repair via homologous recombination (GO:0000724)|regulation of RNA biosynthetic process (GO:2001141)|replication fork processing (GO:0031297)	cytoplasm (GO:0005737)|nuclear replication fork (GO:0043596)|nucleus (GO:0005634)	histone binding (GO:0042393)|transcription corepressor activity (GO:0003714)			biliary_tract(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|lung(14)|ovary(3)|prostate(1)|skin(1)	26						GCAAAGCATCCCTCGACTGGC	0.622																																																0													78	80	79					8																	145668588		692	1591	2283	SO:0001583	missense	4796				CCDS34968.2	8q24.3	2013-01-10	2010-12-02	2010-11-30	ENSG00000160949	ENSG00000160949		"Ankyrin repeat domain containing"	7801	protein-coding gene	gene with protein product		604546	"nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor-like 2"	NFKBIL2		7738005, 11246458	Standard	NM_013432		Approved	IKBR	uc011llg.2	Q96HA7	OTTHUMG00000153122	ENST00000409379.3:c.381G>C	8.37:g.145668588C>G	ENSP00000386239:p.Arg127Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDP0|C9JKB1|C9JNV8|Q13006|Q9UGJ2	Missense_Mutation	SNP	ENST00000409379.3	37	CCDS34968.2	.	.	.	.	.	.	.	.	.	.	C	3.081	-0.189045	0.06299	.	.	ENSG00000160949	ENST00000409379;ENST00000422691	T	0.75367	-0.93	4.66	2.56	0.30785	Tetratricopeptide-like helical (1);	.	.	.	.	T	0.56630	0.1998	L	0.36672	1.1	0.09310	N	0.999996	B	0.29716	0.255	B	0.19148	0.024	T	0.36040	-0.9764	9	0.10111	T	0.7	.	7.8666	0.29541	0.1718:0.7237:0.0:0.1045	.	127	Q96HA7	TONSL_HUMAN	S	127	ENSP00000386239:R127S	ENSP00000386239:R127S	R	-	3	2	TONSL	145639396	0.079000	0.21365	0.105000	0.21289	0.613000	0.37349	0.816000	0.27267	0.930000	0.37217	0.462000	0.41574	AGG		0.622	TONSL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329668.2	NM_013432		G	145668588	C	G	145668588	3	3	610	1	0	0	0	0	1	0	0	0	10389	622	22	4	3847	4	NFKBIL2	8	145668588	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	27886003	145668588	695434	35	37076										
FAM22F	54754	bcgsc.ca	37	chr9	97082579	97082579	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	cccgtcctcttcctgcggctGctccactttgcccttttccc	6	20	1	0			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr9:97082579G>A	ENST00000253262.4	-	5	1299	c.1279C>T	c.(1279-1281)Cag>Tag	p.Q427*	NUTM2F_ENST00000341207.4_Nonsense_Mutation_p.Q412*|NUTM2F_ENST00000335456.7_Nonsense_Mutation_p.Q412*	NM_017561.1	NP_060031.1	A1L443	NTM2F_HUMAN	NUT family member 2F	427																	TCCTGCGGCTGCTCCACTTTG	0.592																																																0													82	96	92					9																	97082579		1957	4131	6088	SO:0001587	stop_gained	54754				CCDS47994.1	9q22.32	2013-05-02	2013-03-14	2013-05-02	ENSG00000130950	ENSG00000130950			23450	protein-coding gene	gene with protein product			"family with sequence similarity 22, member F"	FAM22F			Standard	NM_017561		Approved	DKFZp434I1117		A1L443	OTTHUMG00000020260	ENST00000253262.4:c.1279C>T	9.37:g.97082579G>A	ENSP00000253262:p.Gln427*	Somatic		WXS	Illumina HiSeq	Phase_1	B6ZDF0|Q5SR58|Q5SR59|Q9UFB1	Nonsense_Mutation	SNP	ENST00000253262.4	37	CCDS47994.1	.	.	.	.	.	.	.	.	.	.	.	12.92	2.081550	0.36758	.	.	ENSG00000130950	ENST00000335456;ENST00000253262;ENST00000341207;ENST00000375347	.	.	.	1.2	1.2	0.21068	.	2.955810	0.00957	N	0.003056	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	5.8356	0.18605	0.0:0.0:1.0:0.0	.	.	.	.	X	412;427;412;261	.	ENSP00000253262:Q427X	Q	-	1	0	FAM22F	96122400	0.024000	0.19004	0.001000	0.08648	0.006000	0.05464	1.009000	0.29886	0.992000	0.38840	0.456000	0.33151	CAG		0.592	NUTM2F-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000053173.2	NM_017561		A	97082579	G	A	97082579	4	1	610	1	0	0	0	0	0	1	0	0	5549	1328	46	2	1003	2	FAM22F	9	97082579	Nonsense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10		97082579	44130852	36	37077										
KIAA1529	100499483	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	100128909	100128909	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tgtgacacctttgaccagtgCgccgagaacattagcaaaaa	9	10	0	3	rs575555258		TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr9:100128909C>T	ENST00000357054.1	+	43	5018	c.4083C>T	c.(4081-4083)tgC>tgT	p.C1361C	CCDC180_ENST00000375202.2_Silent_p.C1416C|RP11-23J9.4_ENST00000534123.1_RNA|MIR1302-8_ENST00000408342.1_RNA|CCDC180_ENST00000395220.1_3'UTR|CCDC180_ENST00000529487.1_Silent_p.C1416C			Q9P1Z9	CC180_HUMAN	coiled-coil domain containing 180	1361						extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)		p.C1361C(1)									TTGACCAGTGCGCCGAGAACA	0.532													C|||	1	0.000199681	0.0	0.0	5008	,	,		20527	0.0		0.0	False		,,,				2504	0.001															1	Substitution - coding silent(1)	large_intestine(1)											108	90	96					9																	100128909		2203	4300	6503	SO:0001819	synonymous_variant	0			AK123391	CCDS35077.1, CCDS35077.2	9q22.33	2013-03-08	2013-03-08	2013-03-08		ENSG00000197816			29303	protein-coding gene	gene with protein product	"Behcet's Disease Associated Gene 1"		"KIAA1529", "chromosome 9 open reading frame 174"	KIAA1529, C9orf174		10819331	Standard	NM_020893		Approved	DKFZp434I2420, BDAG1	uc004axg.2	Q9P1Z9	OTTHUMG00000167001	ENST00000357054.1:c.4083C>T	9.37:g.100128909C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2KHR6|Q5VV25|Q68DP5|Q69YV9|Q6AHY0	Silent	SNP	ENST00000357054.1	37																																																																																					0.532	CCDC180-201	KNOWN	basic	protein_coding	protein_coding		NM_020893		T	100128909	C	T	100128909	2	4	610	1	0	0	0	0	0	0	0	1	8247	776	27	1		1	KIAA1529	9	100128909	Silent	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	3046330	100128909	41084522	37	37078										
IDI2	91734	broad.mit.edu	37	chr10	1066741	1066741	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ttcccagctctgcttgcagaCgcctctgggctgccctcctc	9	18	2	1	rs368608756		TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr10:1066741C>T	ENST00000277517.1	-	4	396	c.332G>A	c.(331-333)cGt>cAt	p.R111H	IDI2-AS1_ENST00000536039.1_RNA|IDI2-AS1_ENST00000434470.1_RNA|IDI2-AS1_ENST00000437374.1_RNA|IDI2-AS1_ENST00000428780.2_RNA|IDI2-AS1_ENST00000420381.1_RNA	NM_033261.2	NP_150286.1	Q9BXS1	IDI2_HUMAN	isopentenyl-diphosphate delta isomerase 2	111	Nudix hydrolase. {ECO:0000255|PROSITE- ProRule:PRU00794}.				cholesterol biosynthetic process (GO:0006695)|dimethylallyl diphosphate biosynthetic process (GO:0050992)|isopentenyl diphosphate metabolic process (GO:0046490)|isoprenoid biosynthetic process (GO:0008299)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|peroxisome (GO:0005777)	hydrolase activity (GO:0016787)|isopentenyl-diphosphate delta-isomerase activity (GO:0004452)|metal ion binding (GO:0046872)			kidney(1)|large_intestine(3)|lung(3)|ovary(1)|upper_aerodigestive_tract(1)	9		Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.143)	Epithelial(11;0.067)|OV - Ovarian serous cystadenocarcinoma(14;0.169)|all cancers(11;0.192)		TGCTTGCAGACGCCTCTGGGC	0.572													C|||	1	0.000199681	0.0	0.0014	5008	,	,		16338	0.0		0.0	False		,,,				2504	0.0															0													100	86	91					10																	1066741		2203	4300	6503	SO:0001583	missense	91734			AF271725	CCDS7055.1	10p15.3	2003-11-19			ENSG00000148377	ENSG00000148377			23487	protein-coding gene	gene with protein product		615389				12477932	Standard	NM_033261		Approved	IPPI2	uc001ifv.1	Q9BXS1	OTTHUMG00000017537	ENST00000277517.1:c.332G>A	10.37:g.1066741C>T	ENSP00000277517:p.Arg111His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000277517.1	37	CCDS7055.1	.	.	.	.	.	.	.	.	.	.	C	14.90	2.673904	0.47781	.	.	ENSG00000148377	ENST00000277517	T	0.08193	3.12	4.09	-1.8	0.07907	NUDIX hydrolase domain (3);NUDIX hydrolase domain-like (1);	0.116280	0.53938	U	0.000051	T	0.25568	0.0622	M	0.88979	2.995	0.20403	N	0.999907	D	0.71674	0.998	D	0.65573	0.936	T	0.05354	-1.0890	10	0.87932	D	0	-4.7047	8.2637	0.31801	0.0:0.6495:0.1046:0.246	.	111	Q9BXS1	IDI2_HUMAN	H	111	ENSP00000277517:R111H	ENSP00000277517:R111H	R	-	2	0	IDI2	1056741	0.103000	0.21917	0.000000	0.03702	0.001000	0.01503	2.002000	0.40835	-1.050000	0.03230	-2.005000	0.00442	CGT		0.572	IDI2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046411.1	NM_033261		T	1066741	C	T	1066741	3	4	610	1	0	0	0	0	1	0	0	0	7507	536	19	1	359	1	IDI2	10	1066741	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10		1066741	134468006	38	37079										
FAM21C	253725	broad.mit.edu	37	chr10	46282636	46282644	+	In_Frame_Del	DEL	GAGGCCGGT	GAGGCCGGT	-													0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ctgtccttcccgggagtgggGaggccggtgtgagttttgat							TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	GAGGCCGGT	GAGGCCGGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr10:46282636_46282644delGAGGCCGGT	ENST00000336378.4	+	27	3077_3085	c.2959_2967delGAGGCCGGT	c.(2959-2967)gaggccggtdel	p.EAG987del	FAM21C_ENST00000540872.1_In_Frame_Del_p.EAG948del|FAM21C_ENST00000374362.2_In_Frame_Del_p.EAG989del|FAM21C_ENST00000537517.1_In_Frame_Del_p.EAG914del|FAM21C_ENST00000359860.4_In_Frame_Del_p.EAG931del	NM_015262.2	NP_056077.2	Q9Y4E1	FA21C_HUMAN	family with sequence similarity 21, member C	987					retrograde transport, endosome to Golgi (GO:0042147)	early endosome (GO:0005769)|endosome (GO:0005768)|plasma membrane (GO:0005886)|WASH complex (GO:0071203)				central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(6)|lung(8)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	28						CGGGAGTGGGGAGGCCGGTGTGAGTTTTG	0.488																																																0																																										SO:0001651	inframe_deletion	253725				CCDS44374.1, CCDS44374.2, CCDS53528.1, CCDS53529.1	10q11.22	2014-05-09			ENSG00000172661	ENSG00000172661			23414	protein-coding gene	gene with protein product		613631				20498093	Standard	NM_015262		Approved	Em:AC012044.3, KIAA0592	uc001jcu.3	Q9Y4E1	OTTHUMG00000018089	ENST00000336378.4:c.2959_2967delGAGGCCGGT	10.37:g.46282636_46282644delGAGGCCGGT	ENSP00000337541:p.Glu987_Gly989del	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZQ6|B9EK53|F5H0J6|F5H871|Q5SQU4|Q5SQU5|Q7L521|Q9UG79	In_Frame_Del	DEL	ENST00000336378.4	37																																																																																					0.488	FAM21C-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding				-	46282644	GAGGCCGGT	-	46282636	7	5	610	1	0	1	0	1	0	0	0	0	5546	1175	41	0	3071	0	FAM21C	10	46282636	In_Frame_Del	DEL	GAGGCCGGT	TCGA-HE-A5NJ-01A-11D-A26P-10	45215895	46282636	89252111	39	37080										
MYPN	84665	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	69959137	69959137	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tttattaggtgagtggtttaCcgcccccggagctgacatgg	13	9	0	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr10:69959137C>T	ENST00000358913.5	+	17	3786	c.3298C>T	c.(3298-3300)Ccg>Tcg	p.P1100S	MYPN_ENST00000354393.2_Missense_Mutation_p.P825S|MYPN_ENST00000540630.1_Missense_Mutation_p.P1100S	NM_001256267.1|NM_032578.3	NP_001243196.1|NP_115967.2	Q86TC9	MYPN_HUMAN	myopalladin	1100	Ig-like 4.|Interaction with ACTN.				sarcomere organization (GO:0045214)	I band (GO:0031674)|nucleus (GO:0005634)|Z disc (GO:0030018)	cytoskeletal protein binding (GO:0008092)|muscle alpha-actinin binding (GO:0051371)|SH3 domain binding (GO:0017124)			breast(2)|central_nervous_system(1)|endometrium(13)|kidney(6)|large_intestine(13)|liver(1)|lung(43)|ovary(3)|prostate(1)|skin(6)|upper_aerodigestive_tract(5)	94						GAGTGGTTTACCGCCCCCGGA	0.507																																																0													56	48	50					10																	69959137		2203	4300	6503	SO:0001583	missense	84665			AL834247	CCDS7275.1, CCDS73142.1	10q22.1	2014-09-17			ENSG00000138347	ENSG00000138347		"Immunoglobulin superfamily / I-set domain containing"	23246	protein-coding gene	gene with protein product	"sarcomeric protein myopalladin, 145 kDa"	608517				11309420, 12482578	Standard	NM_032578		Approved	MYOP	uc001jnm.5	Q86TC9	OTTHUMG00000018344	ENST00000358913.5:c.3298C>T	10.37:g.69959137C>T	ENSP00000351790:p.Pro1100Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VV35|Q5VV36|Q86T37|Q8N3L4|Q96K90|Q96KF5	Missense_Mutation	SNP	ENST00000358913.5	37	CCDS7275.1	.	.	.	.	.	.	.	.	.	.	C	30	5.053409	0.93793	.	.	ENSG00000138347	ENST00000354393;ENST00000542332;ENST00000358913;ENST00000540630	T;T;T	0.80393	-1.37;-1.37;-1.37	5.38	5.38	0.77491	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	D	0.94072	0.8100	H	0.97806	4.08	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	0.998;0.999;1.0	D	0.95767	0.8805	9	.	.	.	.	19.3311	0.94288	0.0:1.0:0.0:0.0	.	1100;825;1100	F5GWA6;Q86TC9-2;Q86TC9	.;.;MYPN_HUMAN	S	825;825;1100;1100	ENSP00000346369:P825S;ENSP00000351790:P1100S;ENSP00000441668:P1100S	.	P	+	1	0	MYPN	69629143	1.000000	0.71417	0.999000	0.59377	0.978000	0.69477	7.595000	0.82710	2.813000	0.96785	0.655000	0.94253	CCG		0.507	MYPN-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048307.1	NM_032578		T	69959137	C	T	69959137	3	4	610	1	0	0	0	0	1	0	0	0	10105	507	18	2	3360	2	MYPN	10	69959137	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	23676501	69959137	65575610	40	37081										
TRIM8	81603	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	104416093	104416093	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	cacctgaactccaagctcttCctgaacgaagtggccaagaa	8	13	1	3			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr10:104416093C>A	ENST00000302424.7	+	5	1121	c.999C>A	c.(997-999)ttC>ttA	p.F333L	TRIM8_ENST00000487927.1_3'UTR	NM_030912.2	NP_112174.2	Q9BZR9	TRIM8_HUMAN	tripartite motif containing 8	333					innate immune response (GO:0045087)|negative regulation of viral entry into host cell (GO:0046597)|negative regulation of viral release from host cell (GO:1902187)|negative regulation of viral transcription (GO:0032897)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)|PML body (GO:0016605)	identical protein binding (GO:0042802)|ligase activity (GO:0016874)|protein homodimerization activity (GO:0042803)|zinc ion binding (GO:0008270)			endometrium(4)|kidney(1)|large_intestine(2)|lung(5)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	15		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		CCAAGCTCTTCCTGAACGAAG	0.607																																																0													59	46	50					10																	104416093		2203	4300	6503	SO:0001583	missense	81603			AF281046	CCDS31274.1	10q24.3	2013-01-09	2011-01-25	2002-06-14	ENSG00000171206	ENSG00000171206		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	15579	protein-coding gene	gene with protein product	"glioblastoma expressed ring finger protein"	606125	"ring finger protein 27", "tripartite motif-containing 8"	RNF27		11118312, 12163497	Standard	NM_030912		Approved	GERP	uc001kvz.2	Q9BZR9	OTTHUMG00000018964	ENST00000302424.7:c.999C>A	10.37:g.104416093C>A	ENSP00000302120:p.Phe333Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NI31|Q9C028	Missense_Mutation	SNP	ENST00000302424.7	37	CCDS31274.1	.	.	.	.	.	.	.	.	.	.	C	15.80	2.940287	0.52972	.	.	ENSG00000171206	ENST00000302424;ENST00000369896	T	0.77489	-1.1	5.67	3.82	0.43975	.	0.000000	0.85682	D	0.000000	T	0.76205	0.3955	L	0.29908	0.895	0.58432	D	0.99999	P	0.52842	0.956	P	0.62184	0.899	T	0.69525	-0.5122	10	0.08837	T	0.75	.	12.1033	0.53796	0.0:0.8608:0.0:0.1392	.	333	Q9BZR9	TRIM8_HUMAN	L	333;332	ENSP00000302120:F333L	ENSP00000302120:F333L	F	+	3	2	TRIM8	104406083	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	1.588000	0.36633	0.753000	0.32945	0.555000	0.69702	TTC		0.607	TRIM8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050084.3	NM_030912		A	104416093	C	A	104416093	3	1	610	1	0	0	0	0	1	0	0	0	16560	854	30	4	1017	4	TRIM8	10	104416093	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	34456956	104416093	31118654	41	37082										
GPR83	10888	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	94113422	94113422	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gggagccctctggccatcatTcttctctgtccaggccaccc	9	17	4	0			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr11:94113422T>A	ENST00000243673.2	-	4	1336	c.1165A>T	c.(1165-1167)Aat>Tat	p.N389Y	GPR83_ENST00000539203.2_Missense_Mutation_p.N347Y	NM_016540.3	NP_057624.3	Q9NYM4	GPR83_HUMAN	G protein-coupled receptor 83	389					response to glucocorticoid (GO:0051384)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|neuropeptide Y receptor activity (GO:0004983)			NS(1)|breast(1)|central_nervous_system(2)|kidney(2)|large_intestine(2)|lung(9)|ovary(1)|prostate(1)	19		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				TGGCCATCATTCTTCTCTGTC	0.562																																																0													83	82	82					11																	94113422		2201	4298	6499	SO:0001583	missense	10888			AF236081	CCDS8297.1	11q21	2012-08-21	2003-07-30	2003-08-01	ENSG00000123901	ENSG00000123901		"GPCR / Class A : Orphans"	4523	protein-coding gene	gene with protein product		605569	"G protein-coupled receptor 72"	GPR72		10760605, 11060465	Standard	NM_016540		Approved		uc001pet.2	Q9NYM4	OTTHUMG00000167779	ENST00000243673.2:c.1165A>T	11.37:g.94113422T>A	ENSP00000243673:p.Asn389Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B0M0K5|Q6NWR4|Q9P1Y8	Missense_Mutation	SNP	ENST00000243673.2	37	CCDS8297.1	.	.	.	.	.	.	.	.	.	.	T	0	-2.689837	0.00100	.	.	ENSG00000123901	ENST00000243673;ENST00000539203	T;T	0.61392	0.11;0.22	5.75	0.538	0.17150	.	0.659318	0.17607	N	0.168232	T	0.31544	0.0800	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.17319	-1.0373	10	0.21014	T	0.42	.	9.6421	0.39846	0.0:0.4117:0.0:0.5883	.	389	Q9NYM4	GPR83_HUMAN	Y	389;347	ENSP00000243673:N389Y;ENSP00000441550:N347Y	ENSP00000243673:N389Y	N	-	1	0	GPR83	93753070	0.772000	0.28567	0.077000	0.20336	0.003000	0.03518	0.384000	0.20668	0.096000	0.17463	-0.250000	0.11733	AAT		0.562	GPR83-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396232.1	NM_016540		A	94113422	T	A	94113422	3	1	610	1	0	0	0	0	1	0	0	0	6720	1783	62	5	110	5	GPR83	11	94113422	Missense_Mutation	SNP	T	TCGA-HE-A5NJ-01A-11D-A26P-10		94113422	40893094	42	37083										
PIWIL4	143689	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	94340737	94340737	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	aacagggcatgatgatgagtAtcgccaccaagatcgctatg	11	9	0	4			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr11:94340737A>G	ENST00000299001.6	+	14	1982	c.1771A>G	c.(1771-1773)Atc>Gtc	p.I591V	RP11-867G2.8_ENST00000536540.1_RNA|RP11-867G2.8_ENST00000537874.1_RNA	NM_152431.2	NP_689644.2	Q7Z3Z4	PIWL4_HUMAN	piwi-like RNA-mediated gene silencing 4	591	Piwi. {ECO:0000255|PROSITE- ProRule:PRU00150}.				cell differentiation (GO:0030154)|DNA methylation involved in gamete generation (GO:0043046)|gene silencing by RNA (GO:0031047)|meiotic nuclear division (GO:0007126)|multicellular organismal development (GO:0007275)|piRNA metabolic process (GO:0034587)|regulation of translation (GO:0006417)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|P granule (GO:0043186)|piP-body (GO:0071547)	piRNA binding (GO:0034584)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(9)|lung(10)|prostate(1)|skin(1)|urinary_tract(2)	30		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				GATGATGAGTATCGCCACCAA	0.453																																																0													89	82	84					11																	94340737		2201	4298	6499	SO:0001583	missense	143689			AB079366	CCDS31656.1	11q12	2013-02-15	2013-02-15			ENSG00000134627		"Argonaute/PIWI family"	18444	protein-coding gene	gene with protein product		610315	"piwi-like 4 (Drosophila)"			12906857	Standard	NM_152431		Approved	FLJ36156, HIWI2, Miwi2	uc001pfa.3	Q7Z3Z4		ENST00000299001.6:c.1771A>G	11.37:g.94340737A>G	ENSP00000299001:p.Ile591Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DEG5|Q68CZ4|Q8N8G9|Q8N9V8|Q8NEH2	Missense_Mutation	SNP	ENST00000299001.6	37	CCDS31656.1	.	.	.	.	.	.	.	.	.	.	A	0.557	-0.846779	0.02671	.	.	ENSG00000134627	ENST00000299001	T	0.30448	1.53	4.75	-9.49	0.00587	Stem cell self-renewal protein Piwi (3);Ribonuclease H-like (1);	1.548280	0.03817	N	0.266847	T	0.10337	0.0253	N	0.03881	-0.34	0.40307	D	0.978677	B	0.14438	0.01	B	0.21546	0.035	T	0.24621	-1.0155	10	0.06099	T	0.92	0.1986	8.5103	0.33213	0.4048:0.3269:0.2683:0.0	.	591	Q7Z3Z4	PIWL4_HUMAN	V	591	ENSP00000299001:I591V	ENSP00000299001:I591V	I	+	1	0	PIWIL4	93980385	0.000000	0.05858	0.000000	0.03702	0.135000	0.20990	-0.634000	0.05477	-2.120000	0.00826	-0.472000	0.04984	ATC		0.453	PIWIL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396388.1	NM_152431		G	94340737	A	G	94340737	3	3	610	1	0	0	0	0	1	0	0	0	11967	449	16	3	1825	3	PIWIL4	11	94340737	Missense_Mutation	SNP	A	TCGA-HE-A5NJ-01A-11D-A26P-10	227315	94340737	40665779	43	37084										
ARHGAP32	9743	broad.mit.edu	37	chr11	128936739	128936739	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tacccgaaaatcttcataacTtcttttaacaatccaacttt	1	11	3	0			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr11:128936739T>A	ENST00000310343.9	-	6	513	c.514A>T	c.(514-516)Agt>Tgt	p.S172C	ARHGAP32_ENST00000524655.1_Missense_Mutation_p.S98C	NM_001142685.1	NP_001136157.1	A7KAX9	RHG32_HUMAN	Rho GTPase activating protein 32	172	PX; atypical.				regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	actin cytoskeleton (GO:0015629)|cell cortex (GO:0005938)|cell junction (GO:0030054)|cell projection (GO:0042995)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|postsynaptic membrane (GO:0045211)	GTPase activator activity (GO:0005096)|phosphatidylinositol binding (GO:0035091)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(12)|lung(28)|ovary(3)|prostate(6)|urinary_tract(3)	60						TCTTCATAACTTCTTTTAACA	0.348																																																0													58	54	55					11																	128936739		1566	3578	5144	SO:0001583	missense	9743			AB018255	CCDS31718.1, CCDS44769.1	11q24.3	2011-06-29			ENSG00000134909	ENSG00000134909		"Rho GTPase activating proteins"	17399	protein-coding gene	gene with protein product		608541				12446789, 12819203, 17663722	Standard	NM_014715		Approved	GRIT, KIAA0712, MGC1892, RICS, GC-GAP	uc009zcp.3	A7KAX9	OTTHUMG00000165774	ENST00000310343.9:c.514A>T	11.37:g.128936739T>A	ENSP00000310561:p.Ser172Cys	Somatic		WXS	Illumina HiSeq	Phase_I	I7H0B0|O94820|Q86YL6|Q8IUG4|Q9BWG3	Missense_Mutation	SNP	ENST00000310343.9	37	CCDS44769.1	.	.	.	.	.	.	.	.	.	.	T	24.4	4.529999	0.85706	.	.	ENSG00000134909	ENST00000310343;ENST00000524655;ENST00000457677;ENST00000525234	T;T;T	0.32515	1.45;1.45;1.45	5.04	5.04	0.67666	Phox homologous domain (3);	.	.	.	.	T	0.58452	0.2123	M	0.82716	2.605	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.85130	0.997;0.961	T	0.65195	-0.6227	9	0.87932	D	0	.	13.8913	0.63740	0.0:0.0:0.0:1.0	.	106;172	Q86T64;A7KAX9	.;RHG32_HUMAN	C	172;98;106;146	ENSP00000310561:S172C;ENSP00000432468:S98C;ENSP00000432303:S146C	ENSP00000310561:S172C	S	-	1	0	ARHGAP32	128441949	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	5.647000	0.67923	2.123000	0.65237	0.455000	0.32223	AGT		0.348	ARHGAP32-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386151.3	NM_014715		A	128936739	T	A	128936739	3	1	610	1	0	0	0	0	1	0	0	0	881	1609	56	5	5817	5	ARHGAP32	11	128936739	Missense_Mutation	SNP	T	TCGA-HE-A5NJ-01A-11D-A26P-10	34596002	128936739	6069777	44	37085										
XPOT	11260	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	64827226	64827226	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ccgtttttacaacagatgttCatgcccctgcttcatgcaat	6	12	2	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr12:64827226C>A	ENST00000332707.5	+	19	2824	c.2295C>A	c.(2293-2295)ttC>ttA	p.F765L		NM_007235.4	NP_009166.2	O43592	XPOT_HUMAN	exportin, tRNA	765	Necessary for tRNA-binding, cytoplasmic localization and nuclear export.				intracellular protein transport (GO:0006886)|tRNA export from nucleus (GO:0006409)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	tRNA binding (GO:0000049)			NS(1)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(7)|lung(12)|ovary(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	45				GBM - Glioblastoma multiforme(28;0.0404)		AACAGATGTTCATGCCCCTGC	0.383																																																0													142	139	140					12																	64827226		2203	4300	6503	SO:0001583	missense	11260			AF039022	CCDS31852.1	12q14.1	2012-10-17	2012-10-17		ENSG00000184575	ENSG00000184575		"Exportins"	12826	protein-coding gene	gene with protein product		603180	"exportin, tRNA (nuclear export receptor for tRNAs)"			9660920, 9512417	Standard	NM_007235		Approved	XPO3	uc001ssb.3	O43592	OTTHUMG00000168794	ENST00000332707.5:c.2295C>A	12.37:g.64827226C>A	ENSP00000327821:p.Phe765Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLH1|O43784|Q8WUG2|Q9BVS7	Missense_Mutation	SNP	ENST00000332707.5	37	CCDS31852.1	.	.	.	.	.	.	.	.	.	.	C	9.351	1.065624	0.20067	.	.	ENSG00000184575	ENST00000332707	T	0.35048	1.33	4.99	1.1	0.20463	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.25121	0.0610	L	0.43923	1.385	0.58432	D	0.999994	B	0.26483	0.15	B	0.19946	0.027	T	0.05632	-1.0873	9	.	.	.	.	8.7565	0.34648	0.0:0.4567:0.0:0.5433	.	765	O43592	XPOT_HUMAN	L	765	ENSP00000327821:F765L	.	F	+	3	2	XPOT	63113493	1.000000	0.71417	0.998000	0.56505	0.566000	0.35808	0.960000	0.29253	-0.000000	0.14550	0.650000	0.86243	TTC		0.383	XPOT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401122.1	NM_007235		A	64827226	C	A	64827226	3	1	610	1	0	0	0	0	1	0	0	0	17462	825	29	4	2365	4	XPOT	12	64827226	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10		64827226	69024669	45	37086										
UHRF1BP1L	23074	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	100453199	100453199	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	aagcttctaggtcagaatgtCgacagtttggacagtgcctt	11	8	2	1	rs374748413		TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr12:100453199C>G	ENST00000279907.7	-	14	2068	c.1856G>C	c.(1855-1857)cGa>cCa	p.R619P	UHRF1BP1L_ENST00000545232.2_Missense_Mutation_p.R269P	NM_015054.1	NP_055869.1	A0JNW5	UH1BL_HUMAN	UHRF1 binding protein 1-like	619								p.R619Q(1)		breast(3)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(5)|large_intestine(9)|lung(21)|ovary(3)|skin(1)|upper_aerodigestive_tract(1)	50						GTCAGAATGTCGACAGTTTGG	0.353																																																1	Substitution - Missense(1)	large_intestine(1)											47	50	49					12																	100453199		2203	4300	6503	SO:0001583	missense	23074				CCDS31882.1, CCDS31883.1	12q23.1	2011-04-15	2008-08-15		ENSG00000111647	ENSG00000111647			29102	protein-coding gene	gene with protein product							Standard	XM_005268737		Approved	KIAA0701	uc001tgq.3	A0JNW5	OTTHUMG00000170195	ENST00000279907.7:c.1856G>C	12.37:g.100453199C>G	ENSP00000279907:p.Arg619Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJE5|O75183|Q8NDL1|Q96C30|Q9BTS5|Q9H0F1	Missense_Mutation	SNP	ENST00000279907.7	37	CCDS31882.1	.	.	.	.	.	.	.	.	.	.	C	16.39	3.110310	0.56398	.	.	ENSG00000111647	ENST00000279907;ENST00000545232	T;T	0.10960	2.83;2.82	5.56	5.56	0.83823	.	0.071690	0.56097	D	0.000028	T	0.26159	0.0638	L	0.51422	1.61	0.80722	D	1	D	0.63046	0.992	P	0.59115	0.852	T	0.00102	-1.2063	10	0.48119	T	0.1	-7.7813	19.5255	0.95203	0.0:1.0:0.0:0.0	.	619	A0JNW5	UH1BL_HUMAN	P	619;269	ENSP00000279907:R619P;ENSP00000444824:R269P	ENSP00000279907:R619P	R	-	2	0	UHRF1BP1L	98977330	1.000000	0.71417	0.996000	0.52242	0.984000	0.73092	4.740000	0.62087	2.624000	0.88883	0.650000	0.86243	CGA		0.353	UHRF1BP1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407875.1	NM_001006947		G	100453199	C	G	100453199	3	3	610	1	0	0	0	0	1	0	0	0	16981	884	31	4	2570	4	UHRF1BP1L	12	100453199	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	35625973	100453199	33398696	46	37087										
SCYL2	55681	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	100707272	100707272	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	aacatgtaaagctactgttaAatgtaactccgactgtaaga	7	7	0	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr12:100707272A>T	ENST00000360820.2	+	7	1362	c.925A>T	c.(925-927)Aat>Tat	p.N309Y		NM_017988.4	NP_060458.3	Q6P3W7	SCYL2_HUMAN	SCY1-like 2 (S. cerevisiae)	309	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				endosome to lysosome transport (GO:0008333)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|positive regulation of clathrin-mediated endocytosis (GO:2000370)|positive regulation of receptor internalization (GO:0002092)|receptor internalization involved in canonical Wnt signaling pathway (GO:2000286)	cytoplasmic vesicle (GO:0031410)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|receptor binding (GO:0005102)			central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(4)|lung(15)|ovary(2)|skin(1)	41						GCTACTGTTAAATGTAACTCC	0.363																																																0													94	84	87					12																	100707272		2203	4300	6503	SO:0001583	missense	55681			AB037781	CCDS9076.1	12q23.1	2005-01-20				ENSG00000136021			19286	protein-coding gene	gene with protein product						10718198	Standard	NM_017988		Approved	KIAA1360	uc001thn.3	Q6P3W7	OTTHUMG00000170319	ENST00000360820.2:c.925A>T	12.37:g.100707272A>T	ENSP00000354061:p.Asn309Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAB5|Q96EF4|Q96ST4|Q9H7V5|Q9NVH3|Q9P2I7	Missense_Mutation	SNP	ENST00000360820.2	37	CCDS9076.1	.	.	.	.	.	.	.	.	.	.	A	29.9	5.046858	0.93740	.	.	ENSG00000136021	ENST00000549687;ENST00000258506;ENST00000360820	T;T	0.66815	-0.23;-0.23	5.87	5.87	0.94306	Serine/threonine-protein kinase-like domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.039673	0.85682	D	0.000000	T	0.78349	0.4269	M	0.68952	2.095	0.80722	D	1	P	0.45240	0.854	P	0.57009	0.811	T	0.79680	-0.1702	10	0.62326	D	0.03	.	16.2736	0.82632	1.0:0.0:0.0:0.0	.	309	Q6P3W7	SCYL2_HUMAN	Y	309;136;309	ENSP00000448366:N309Y;ENSP00000354061:N309Y	ENSP00000258506:N136Y	N	+	1	0	SCYL2	99231403	1.000000	0.71417	1.000000	0.80357	0.856000	0.48823	8.769000	0.91742	2.247000	0.74100	0.477000	0.44152	AAT		0.363	SCYL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408493.2	NM_017988		T	100707272	A	T	100707272	3	4	610	1	0	0	0	0	1	0	0	0	13961	14	1	5	947	5	SCYL2	12	100707272	Missense_Mutation	SNP	A	TCGA-HE-A5NJ-01A-11D-A26P-10	254073	100707272	33144623	47	37088										
IFT81	28981	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	110565896	110565896	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tgccagagcagacagccaaaCgaatgttgagccttcttggt	11	10	1	3	rs372027811		TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr12:110565896C>T	ENST00000242591.5	+	3	696	c.190C>T	c.(190-192)Cga>Tga	p.R64*	IFT81_ENST00000361948.4_Nonsense_Mutation_p.R64*|IFT81_ENST00000552912.1_Nonsense_Mutation_p.R64*	NM_014055.3	NP_054774.2	Q8WYA0	IFT81_HUMAN	intraflagellar transport 81	64	CH (calponin-homology)-like region.				cilium assembly (GO:0042384)|intraciliary transport involved in cilium morphogenesis (GO:0035735)|spermatogenesis (GO:0007283)	centrosome (GO:0005813)|cilium (GO:0005929)|intraciliary transport particle B (GO:0030992)|motile cilium (GO:0031514)|sperm midpiece (GO:0097225)|sperm principal piece (GO:0097228)	tubulin binding (GO:0015631)			endometrium(1)|large_intestine(2)|lung(5)|ovary(1)|stomach(1)	10						GACAGCCAAACGAATGTTGAG	0.343																																																0								C	stop/ARG,stop/ARG,stop/ARG	2,4404	4.2+/-10.8	0,2,2201	125	120	122		190,190,190	2.9	1	12		122	1,8599	1.2+/-3.3	0,1,4299	no	stop-gained,stop-gained,stop-gained	IFT81	NM_001143779.1,NM_014055.3,NM_031473.3	,,	0,3,6500	TT,TC,CC		0.0116,0.0454,0.0231	,,	64/677,64/677,64/432	110565896	3,13003	2203	4300	6503	SO:0001587	stop_gained	28981			AF139540	CCDS9142.1, CCDS41831.1	12q24.13	2014-07-03	2014-07-03	2005-11-02		ENSG00000122970		"Intraflagellar transport homologs"	14313	protein-coding gene	gene with protein product		605489	"carnitine deficiency-associated, expressed in ventricle 1", "intraflagellar transport 81 homolog (Chlamydomonas)"	CDV1		11130971	Standard	NM_014055		Approved	CDV-1R, MGC4027	uc001tqi.3	Q8WYA0	OTTHUMG00000169326	ENST00000242591.5:c.190C>T	12.37:g.110565896C>T	ENSP00000242591:p.Arg64*	Somatic		WXS	Illumina HiSeq	Phase_I	Q2YDY1|Q8NB51|Q9BSV2|Q9UNY8	Nonsense_Mutation	SNP	ENST00000242591.5	37	CCDS41831.1	.	.	.	.	.	.	.	.	.	.	C	27.4	4.830743	0.91036	4.54E-4	1.16E-4	ENSG00000122970	ENST00000361948;ENST00000552912;ENST00000242591;ENST00000546374	.	.	.	5.96	2.88	0.33553	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-12.6056	16.1793	0.81889	0.5747:0.4253:0.0:0.0	.	.	.	.	X	64	.	ENSP00000242591:R64X	R	+	1	2	IFT81	109050279	0.998000	0.40836	0.997000	0.53966	0.972000	0.66771	1.423000	0.34837	0.248000	0.21435	0.655000	0.94253	CGA		0.343	IFT81-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403529.1	NM_014055		T	110565896	C	T	110565896	4	4	610	1	0	0	0	0	0	1	0	0	7572	528	19	1	196	1	IFT81	12	110565896	Nonsense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	9858624	110565896	23285999	48	37089										
OLFM4	10562	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	53624827	53624827	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gcagagcattaactataaccCttttgaccagaaactttatg	6	9	0	3			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr13:53624827C>A	ENST00000219022.2	+	5	1532	c.1454C>A	c.(1453-1455)cCt>cAt	p.P485H		NM_006418.4	NP_006409.3	Q6UX06	OLFM4_HUMAN	olfactomedin 4	485	Olfactomedin-like. {ECO:0000255|PROSITE- ProRule:PRU00446}.				cell adhesion (GO:0007155)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of immune response (GO:0050777)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|protein homooligomerization (GO:0051260)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|specific granule (GO:0042581)	cadherin binding (GO:0045296)|catalytic activity (GO:0003824)|protein homodimerization activity (GO:0042803)			breast(2)|endometrium(4)|kidney(4)|large_intestine(5)|lung(20)|skin(3)|urinary_tract(1)	39		Breast(56;0.000776)|Lung NSC(96;0.000814)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.13e-08)		AACTATAACCCTTTTGACCAG	0.378																																																0													99	100	100					13																	53624827		2203	4300	6503	SO:0001583	missense	10562			AY358567	CCDS9440.1	13q14	2004-06-25			ENSG00000102837	ENSG00000102837			17190	protein-coding gene	gene with protein product		614061					Standard	NM_006418		Approved	OlfD, GW112, GC1	uc001vhl.3	Q6UX06	OTTHUMG00000016981	ENST00000219022.2:c.1454C>A	13.37:g.53624827C>A	ENSP00000219022:p.Pro485His	Somatic		WXS	Illumina HiSeq	Phase_I	O95362|Q5VWG0|Q86T22	Missense_Mutation	SNP	ENST00000219022.2	37	CCDS9440.1	.	.	.	.	.	.	.	.	.	.	C	27.3	4.816222	0.90790	.	.	ENSG00000102837	ENST00000219022	T	0.19669	2.13	5.64	5.64	0.86602	Olfactomedin-like (3);	0.049423	0.85682	D	0.000000	T	0.58409	0.2120	M	0.90922	3.16	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.67465	-0.5664	10	0.87932	D	0	.	19.7082	0.96082	0.0:1.0:0.0:0.0	.	485	Q6UX06	OLFM4_HUMAN	H	485	ENSP00000219022:P485H	ENSP00000219022:P485H	P	+	2	0	OLFM4	52522828	1.000000	0.71417	0.882000	0.34594	0.914000	0.54420	6.095000	0.71439	2.651000	0.90000	0.585000	0.79938	CCT		0.378	OLFM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045112.2	NM_006418		A	53624827	C	A	53624827	3	1	610	1	0	0	0	0	1	0	0	0	10862	681	24	4	1472	4	OLFM4	13	53624827	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10		53624827	61545051	49	37090										
C14orf105	55195	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	57960296	57960296	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tggtcctgcagtcttgccagTgaatatgaagtcttttcttc	9	9	3	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr14:57960296T>A	ENST00000216445.3	-	1	274	c.138A>T	c.(136-138)tcA>tcT	p.S46S	C14orf105_ENST00000422976.2_Silent_p.S46S|C14orf105_ENST00000526336.1_Silent_p.S46S|C14orf105_ENST00000534126.1_Silent_p.S46S	NM_001283057.1|NM_018168.2	NP_001269986.1|NP_060638.2	Q9NVL8	CN105_HUMAN	chromosome 14 open reading frame 105	46										breast(1)|cervix(1)|endometrium(1)|large_intestine(3)|lung(3)|prostate(1)|skin(1)	11						GTCTTGCCAGTGAATATGAAG	0.438																																																0													126	127	127					14																	57960296		2203	4300	6503	SO:0001819	synonymous_variant	55195			AK001512	CCDS9730.1, CCDS61458.1, CCDS61459.1	14q22.2	2012-09-25			ENSG00000100557	ENSG00000100557			20189	protein-coding gene	gene with protein product							Standard	XM_005267806		Approved	FLJ10650	uc001xcy.2	Q9NVL8	OTTHUMG00000140317	ENST00000216445.3:c.138A>T	14.37:g.57960296T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q53G04	Silent	SNP	ENST00000216445.3	37	CCDS9730.1																																																																																				0.438	C14orf105-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000276921.2	NM_018168		A	57960296	T	A	57960296	2	1	610	1	0	0	0	0	0	0	0	1	1739	1683	59	5		5	C14orf105	14	57960296	Silent	SNP	T	TCGA-HE-A5NJ-01A-11D-A26P-10		57960296	49389244	50	37091										
PAPLN	89932	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	73712877	73712877	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ggtatcggtggctgccctacTacagcggtgagcgcggccgg	17	12	0	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr14:73712877T>G	ENST00000554301.1	+	4	491	c.328T>G	c.(328-330)Tac>Gac	p.Y110D	PAPLN_ENST00000381166.3_Missense_Mutation_p.Y110D|PAPLN_ENST00000427855.1_Missense_Mutation_p.Y110D|RNU6-419P_ENST00000517030.1_RNA|RP4-647C14.2_ENST00000554614.1_RNA|PAPLN_ENST00000340738.5_Missense_Mutation_p.Y110D|PAPLN_ENST00000555445.1_Missense_Mutation_p.Y110D			O95428	PPN_HUMAN	papilin, proteoglycan-like sulfated glycoprotein	110						basement membrane (GO:0005604)	metalloendopeptidase activity (GO:0004222)|serine-type endopeptidase inhibitor activity (GO:0004867)|zinc ion binding (GO:0008270)			NS(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(4)|lung(11)|ovary(3)|pancreas(3)|prostate(5)|skin(3)|upper_aerodigestive_tract(3)	42				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GCTGCCCTACTACAGCGGTGA	0.642																																																0													8	10	10					14																	73712877		2163	4255	6418	SO:0001583	missense	89932			BC042057	CCDS32114.1	14q24.2	2013-01-11				ENSG00000100767		"Immunoglobulin superfamily / I-set domain containing"	19262	protein-coding gene	gene with protein product						11076767, 19734141	Standard	NM_173462		Approved	MGC50452	uc001xnw.4	O95428		ENST00000554301.1:c.328T>G	14.37:g.73712877T>G	ENSP00000451803:p.Tyr110Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DES8|B4DGE6|Q659F2|Q6UXJ4|Q6ZNM1|Q6ZUJ0|Q7Z681|Q8IVU0	Missense_Mutation	SNP	ENST00000554301.1	37		.	.	.	.	.	.	.	.	.	.	T	23.3	4.398999	0.83120	.	.	ENSG00000100767	ENST00000340738;ENST00000427855;ENST00000381166;ENST00000394134;ENST00000554301;ENST00000555445	T;T;T;T;T	0.03441	3.93;3.93;3.93;3.93;3.93	4.26	4.26	0.50523	.	.	.	.	.	T	0.17662	0.0424	M	0.82132	2.575	0.47698	D	0.999491	D;D;D	0.89917	1.0;0.999;1.0	D;D;D	0.72625	0.978;0.951;0.975	T	0.00593	-1.1654	9	0.62326	D	0.03	.	13.222	0.59894	0.0:0.0:0.0:1.0	.	110;110;110	O95428-5;O95428;O95428-6	.;PPN_HUMAN;.	D	110	ENSP00000345395:Y110D;ENSP00000403403:Y110D;ENSP00000370558:Y110D;ENSP00000451803:Y110D;ENSP00000451729:Y110D	ENSP00000216658:Y110D	Y	+	1	0	PAPLN	72782630	1.000000	0.71417	0.997000	0.53966	0.671000	0.39405	4.002000	0.57053	1.789000	0.52484	0.379000	0.24179	TAC		0.642	PAPLN-002	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000413182.1	NM_173462		G	73712877	T	G	73712877	3	3	610	1	0	0	0	0	1	0	0	0	11435	1522	53	5	342	5	PAPLN	14	73712877	Missense_Mutation	SNP	T	TCGA-HE-A5NJ-01A-11D-A26P-10	15752581	73712877	33636663	51	37092										
TDP1	55775	bcgsc.ca	37	chr14	90459808	90459808	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ctccagacttcagtaaaattGcttggttccttgtcacaagg	8	10	2	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr14:90459808G>T	ENST00000335725.4	+	14	1772	c.1522G>T	c.(1522-1524)Gct>Tct	p.A508S	TDP1_ENST00000393452.3_Missense_Mutation_p.A508S|TDP1_ENST00000393454.2_Missense_Mutation_p.A508S|TDP1_ENST00000357382.3_Missense_Mutation_p.A269S|TDP1_ENST00000555880.1_Missense_Mutation_p.A508S	NM_018319.3	NP_060789.2	Q9NUW8	TYDP1_HUMAN	tyrosyl-DNA phosphodiesterase 1	508					cell death (GO:0008219)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|single strand break repair (GO:0000012)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	3'-tyrosyl-DNA phosphodiesterase activity (GO:0017005)|double-stranded DNA binding (GO:0003690)|exonuclease activity (GO:0004527)|single-stranded DNA binding (GO:0003697)			NS(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(10)|ovary(3)|prostate(1)|urinary_tract(1)	25		all_cancers(154;0.185)		COAD - Colon adenocarcinoma(157;0.23)		CAGTAAAATTGCTTGGTTCCT	0.403								Repair of DNA-protein crosslinks																																								0													98	90	93					14																	90459808		2203	4300	6503	SO:0001583	missense	55775			AF182002	CCDS9888.1	14q32.11	2008-08-11				ENSG00000042088			18884	protein-coding gene	gene with protein product		607198				11839309, 12244316	Standard	XM_005267847		Approved	FLJ11090, SCAN1	uc001xxz.3	Q9NUW8		ENST00000335725.4:c.1522G>T	14.37:g.90459808G>T	ENSP00000337353:p.Ala508Ser	Somatic		WXS	Illumina HiSeq	Phase_1	Q2HXX4|Q86TV8|Q96BK7|Q9NZM7|Q9NZM8	Missense_Mutation	SNP	ENST00000335725.4	37	CCDS9888.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	20.5|20.5	4.002048|4.002048	0.74932|0.74932	.|.	.|.	ENSG00000042088|ENSG00000042088	ENST00000393452;ENST00000393454;ENST00000335725;ENST00000357382;ENST00000555880|ENST00000556063	T;T;T;T;T|.	0.42131|.	0.98;0.98;0.98;0.98;0.98|.	5.7|5.7	5.7|5.7	0.88788|0.88788	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.74359|0.74359	0.3706|0.3706	M|M	0.65320|0.65320	2|2	0.80722|0.80722	D|D	1|1	D;D;D;D;D|.	0.76494|.	0.999;0.999;0.999;0.981;0.999|.	D;D;D;D;D|.	0.83275|.	0.986;0.992;0.996;0.949;0.996|.	T|T	0.71504|0.71504	-0.4573|-0.4573	10|5	0.25751|.	T|.	0.34|.	-9.0E-4|-9.0E-4	19.4362|19.4362	0.94796|0.94796	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	508;508;508;269;508|.	G3V2F4;E7EPD8;B2RDI0;Q86TV8;Q9NUW8|.	.;.;.;.;TYDP1_HUMAN|.	S|F	508;508;508;269;508|148	ENSP00000377098:A508S;ENSP00000377099:A508S;ENSP00000337353:A508S;ENSP00000349952:A269S;ENSP00000450628:A508S|.	ENSP00000337353:A508S|.	A|C	+|+	1|2	0|0	TDP1|TDP1	89529561|89529561	1.000000|1.000000	0.71417|0.71417	0.128000|0.128000	0.21923|0.21923	0.978000|0.978000	0.69477|0.69477	6.611000|6.611000	0.74183|0.74183	2.683000|2.683000	0.91414|0.91414	0.655000|0.655000	0.94253|0.94253	GCT|TGC		0.403	TDP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411239.1	NM_018319		T	90459808	G	T	90459808	3	4	610	1	0	0	0	0	1	0	0	0	15740	1319	46	4	1568	4	TDP1	14	90459808	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	16746931	90459808	16889732	52	37093										
SERPINA6	866	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	94780584	94780584	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tccagcaactccaggctgccAtcaagaaacaaggcattgcc	8	14	1	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr14:94780584A>T	ENST00000341584.3	-	2	548	c.402T>A	c.(400-402)gaT>gaA	p.D134E		NM_001756.3	NP_001747	P08185	CBG_HUMAN	serpin peptidase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 6	134					glucocorticoid metabolic process (GO:0008211)|negative regulation of endopeptidase activity (GO:0010951)|regulation of proteolysis (GO:0030162)|transport (GO:0006810)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	serine-type endopeptidase inhibitor activity (GO:0004867)|steroid binding (GO:0005496)			central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(11)|ovary(1)|skin(4)|upper_aerodigestive_tract(1)	26		all_cancers(154;0.0482)|all_epithelial(191;0.166)		COAD - Colon adenocarcinoma(157;0.211)	Alclometasone(DB00240)|Beclomethasone(DB00394)|Ciclesonide(DB01410)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Medrysone(DB00253)|Mitotane(DB00648)|Paramethasone(DB01384)|Prednisolone(DB00860)|Rimexolone(DB00896)|Triamcinolone(DB00620)	CCAGGCTGCCATCAAGAAACA	0.502																																																0													92	87	89					14																	94780584		2203	4300	6503	SO:0001583	missense	866			J02943	CCDS9924.1	14q32.13	2014-02-18	2005-08-18		ENSG00000170099	ENSG00000170099		"Serine (or cysteine) peptidase inhibitors"	1540	protein-coding gene	gene with protein product	"corticosteroid binding globulin", "transcortin"	122500	"serine (or cysteine) proteinase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 6"	CBG		3299377, 7912884, 24172014	Standard	NM_001756		Approved		uc001ycv.3	P08185	OTTHUMG00000171346	ENST00000341584.3:c.402T>A	14.37:g.94780584A>T	ENSP00000342850:p.Asp134Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K456|Q7Z2Q9	Missense_Mutation	SNP	ENST00000341584.3	37	CCDS9924.1	.	.	.	.	.	.	.	.	.	.	A	0.415	-0.911384	0.02434	.	.	ENSG00000170099	ENST00000341584;ENST00000557225	D;D	0.87966	-2.32;-1.66	4.85	1.84	0.25277	Serpin domain (3);	1.049680	0.07521	N	0.910514	T	0.76140	0.3946	L	0.28192	0.835	0.09310	N	1	B	0.20164	0.042	B	0.25759	0.063	T	0.59595	-0.7425	10	0.17369	T	0.5	.	2.1492	0.03795	0.2204:0.2403:0.4165:0.1227	.	134	P08185	CBG_HUMAN	E	134	ENSP00000342850:D134E;ENSP00000452018:D134E	ENSP00000342850:D134E	D	-	3	2	SERPINA6	93850337	0.000000	0.05858	0.002000	0.10522	0.017000	0.09413	0.022000	0.13511	0.581000	0.29539	-0.242000	0.12053	GAT		0.502	SERPINA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413065.1	NM_001756		T	94780584	A	T	94780584	3	4	610	1	0	0	0	0	1	0	0	0	14106	214	8	5	831	5	SERPINA6	14	94780584	Missense_Mutation	SNP	A	TCGA-HE-A5NJ-01A-11D-A26P-10	4320776	94780584	12568956	53	37094										
NUSAP1	51203	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	41669495	41669495	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	cttacaaacaaccccatctcCagacaaagtaagtacataat	3	12	1	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr15:41669495C>T	ENST00000559596.1	+	10	1312	c.1225C>T	c.(1225-1227)Cag>Tag	p.Q409*	NUSAP1_ENST00000450318.1_Nonsense_Mutation_p.Q370*|NUSAP1_ENST00000558123.1_3'UTR|NUSAP1_ENST00000560177.1_Nonsense_Mutation_p.Q408*|NUSAP1_ENST00000414849.2_Nonsense_Mutation_p.Q408*|NUSAP1_ENST00000560747.1_Nonsense_Mutation_p.Q407*|NUSAP1_ENST00000260359.6_Nonsense_Mutation_p.Q394*|NUSAP1_ENST00000450592.2_Nonsense_Mutation_p.Q346*			Q9BXS6	NUSAP_HUMAN	nucleolar and spindle associated protein 1	409					establishment of mitotic spindle localization (GO:0040001)|mitotic chromosome condensation (GO:0007076)|mitotic cytokinesis (GO:0000281)|mitotic sister chromatid segregation (GO:0000070)|positive regulation of mitosis (GO:0045840)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)|spindle microtubule (GO:0005876)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(3)|ovary(1)|prostate(2)|urinary_tract(2)	13		all_cancers(109;5.07e-19)|all_epithelial(112;2.43e-16)|Lung NSC(122;1.81e-11)|all_lung(180;4.81e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;9.63e-17)|GBM - Glioblastoma multiforme(113;1.59e-06)|BRCA - Breast invasive adenocarcinoma(123;0.168)		ACCCCATCTCCAGACAAAGTA	0.333																																																0													16	14	15					15																	41669495		1771	4000	5771	SO:0001587	stop_gained	51203			AF290612	CCDS45234.1, CCDS45236.1, CCDS58356.1, CCDS58357.1, CCDS58358.1, CCDS73708.1	15q14	2008-02-05				ENSG00000137804			18538	protein-coding gene	gene with protein product		612818				12963707	Standard	NM_016359		Approved	FLJ13421, LNP, ANKT, NuSAP1, SAPL, BM037, PRO0310p1, Q0310	uc001zns.4	Q9BXS6		ENST00000559596.1:c.1225C>T	15.37:g.41669495C>T	ENSP00000453403:p.Gln409*	Somatic		WXS	Illumina HiSeq	Phase_I	B4DDF1|E7ERR5|J3KN21|Q53GW2|Q8TBT4|Q96E58|Q96FJ1|Q9GZM9|Q9NZ85|Q9UI70	Nonsense_Mutation	SNP	ENST00000559596.1	37	CCDS45234.1	.	.	.	.	.	.	.	.	.	.	C	15.20	2.761477	0.49468	.	.	ENSG00000137804	ENST00000260359;ENST00000414849;ENST00000450318;ENST00000450592	.	.	.	5.65	4.71	0.59529	.	0.367085	0.31922	N	0.006860	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.72032	D	0.01	.	12.8916	0.58073	0.1626:0.8374:0.0:0.0	.	.	.	.	X	409;408;370;346	.	ENSP00000260359:Q409X	Q	+	1	0	NUSAP1	39456787	1.000000	0.71417	0.756000	0.31282	0.567000	0.35839	2.988000	0.49386	1.561000	0.49584	0.655000	0.94253	CAG		0.333	NUSAP1-006	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000419427.1	NM_016359		T	41669495	C	T	41669495	4	4	610	1	0	0	0	0	0	1	0	0	10785	595	21	2	1263	2	NUSAP1	15	41669495	Nonsense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10		41669495	60861897	54	37095										
SHF	90525	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	45491143	45491143	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	cggcgtgagcatccaggaatGgggctgggcggaactcagac	17	10	1	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr15:45491143G>T	ENST00000290894.8	-	2	624	c.130C>A	c.(130-132)Cat>Aat	p.H44N	SHF_ENST00000318390.6_Missense_Mutation_p.H101N|CTD-2651B20.6_ENST00000563103.1_RNA|CTD-2651B20.7_ENST00000568314.1_RNA|RP11-519G16.2_ENST00000560034.1_RNA	NM_138356.2	NP_612365			Src homology 2 domain containing F											endometrium(2)|kidney(1)|large_intestine(3)|lung(3)|ovary(1)|prostate(2)	12		all_cancers(109;8.13e-11)|all_epithelial(112;6.29e-09)|Lung NSC(122;3.57e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;4.1e-16)|GBM - Glioblastoma multiforme(94;5.98e-06)		ATCCAGGAATGGGGCTGGGCG	0.632											OREG0023105	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													50	54	53					15																	45491143		1969	4159	6128	SO:0001583	missense	90525			BC007586	CCDS10120.2, CCDS73721.1	15q21.1	2013-02-14			ENSG00000138606	ENSG00000138606		"SH2 domain containing"	25116	protein-coding gene	gene with protein product						11095946	Standard	NM_138356		Approved		uc001zuy.3	Q7M4L6	OTTHUMG00000131353	ENST00000290894.8:c.130C>A	15.37:g.45491143G>T	ENSP00000290894:p.His44Asn	Somatic	932	WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000290894.8	37	CCDS10120.2	.	.	.	.	.	.	.	.	.	.	G	11.94	1.788761	0.31685	.	.	ENSG00000138606	ENST00000290894;ENST00000361989;ENST00000318390	T;T	0.38240	1.57;1.15	3.04	-6.08	0.02151	.	7739.210000	0.00166	N	0.000000	T	0.23886	0.0578	N	0.22421	0.69	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.15578	-1.0432	10	0.37606	T	0.19	3.8664	8.6801	0.34203	0.0:0.4794:0.1588:0.3618	.	44	Q7M4L6	SHF_HUMAN	N	44;44;101	ENSP00000290894:H44N;ENSP00000315978:H101N	ENSP00000290894:H44N	H	-	1	0	SHF	43278435	0.000000	0.05858	0.000000	0.03702	0.023000	0.10783	-1.536000	0.02208	-1.992000	0.00975	0.655000	0.94253	CAT		0.632	SHF-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254141.2	NM_138356		T	45491143	G	T	45491143	3	4	610	1	0	0	0	0	1	0	0	0	14290	1348	47	4	1169	4	SHF	15	45491143	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	3821648	45491143	57040249	55	37096										
C15orf39	56905	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	75499667	75499667	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ttgccagcgagccagccctgCtcagagcctgtgaggcctgc	13	15	1	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr15:75499667C>T	ENST00000360639.2	+	2	1598	c.1278C>T	c.(1276-1278)tgC>tgT	p.C426C	C15orf39_ENST00000394987.4_Silent_p.C426C|C15orf39_ENST00000567617.1_Silent_p.C426C			Q6ZRI6	CO039_HUMAN	chromosome 15 open reading frame 39	426						cytoplasm (GO:0005737)				autonomic_ganglia(1)|breast(2)|endometrium(3)|large_intestine(4)|lung(4)|skin(1)|upper_aerodigestive_tract(1)	16						GCCAGCCCTGCTCAGAGCCTG	0.642																																																0													37	42	40					15																	75499667		2197	4295	6492	SO:0001819	synonymous_variant	56905			AK128205	CCDS10276.1	15q23	2013-03-14	2005-10-24		ENSG00000167173	ENSG00000167173			24497	protein-coding gene	gene with protein product			"chromosome 15 open reading frame 38~Name Same As HGNC:28782"				Standard	NM_015492		Approved	DKFZP434H132, FLJ46337	uc002azq.4	Q6ZRI6	OTTHUMG00000142820	ENST00000360639.2:c.1278C>T	15.37:g.75499667C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KWI3|C9J888|Q71JB1|Q7L3S0|Q8N3F2|Q96FB6|Q9NTU5	Silent	SNP	ENST00000360639.2	37	CCDS10276.1																																																																																				0.642	C15orf39-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286410.1	NM_015492		T	75499667	C	T	75499667	2	4	610	1	0	0	0	0	0	0	0	1	1795	805	28	2		2	C15orf39	15	75499667	Silent	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	30008524	75499667	27031725	56	37097										
CREBBP	1387	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	3901001	3901001	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	cattttccaagtcaaacaatGatccaaaatctagaaattaa	3	8	2	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr16:3901001G>A	ENST00000262367.5	-	2	904	c.95C>T	c.(94-96)tCa>tTa	p.S32L	CREBBP_ENST00000382070.3_Missense_Mutation_p.S32L	NM_004380.2	NP_004371.2	Q92793	CBP_HUMAN	CREB binding protein	32					cellular lipid metabolic process (GO:0044255)|cellular response to hypoxia (GO:0071456)|chromatin organization (GO:0006325)|embryonic digit morphogenesis (GO:0042733)|gene expression (GO:0010467)|germ-line stem cell maintenance (GO:0030718)|histone acetylation (GO:0016573)|homeostatic process (GO:0042592)|innate immune response (GO:0045087)|N-terminal peptidyl-lysine acetylation (GO:0018076)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of type I interferon production (GO:0032481)|protein complex assembly (GO:0006461)|regulation of smoothened signaling pathway (GO:0008589)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of transcription, DNA-templated (GO:0006355)|response to hypoxia (GO:0001666)|rhythmic process (GO:0048511)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	condensed chromosome outer kinetochore (GO:0000940)|cytoplasm (GO:0005737)|histone acetyltransferase complex (GO:0000123)|nuclear body (GO:0016604)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	acetyltransferase activity (GO:0016407)|chromatin binding (GO:0003682)|core promoter proximal region sequence-specific DNA binding (GO:0000987)|histone acetyltransferase activity (GO:0004402)|MRF binding (GO:0043426)|p53 binding (GO:0002039)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II transcription coactivator activity (GO:0001105)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			NS(1)|breast(5)|central_nervous_system(4)|cervix(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(125)|kidney(5)|large_intestine(32)|lung(43)|ovary(18)|pancreas(2)|prostate(6)|skin(9)|soft_tissue(1)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(21)	295		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		GTCAAACAATGATCCAAAATC	0.403			"T, N, F, Mis, O"	"MLL, MORF, RUNXBP2"	"ALL, AML, DLBCL, B-NHL "		Rubinstein-Taybi syndrome																																Dom/Rec	yes		16	16p13.3	1387	CREB binding protein (CBP)	yes	L	0													55	54	55					16																	3901001		2195	4291	6486	SO:0001583	missense	1387			U85962	CCDS10509.1, CCDS45399.1	16p13.3	2011-07-01	2008-08-01		ENSG00000005339	ENSG00000005339		"Chromatin-modifying enzymes / K-acetyltransferases"	2348	protein-coding gene	gene with protein product		600140	"Rubinstein-Taybi syndrome"	RSTS		8413673	Standard	NM_001079846		Approved	RTS, CBP, KAT3A	uc002cvv.3	Q92793	OTTHUMG00000129431	ENST00000262367.5:c.95C>T	16.37:g.3901001G>A	ENSP00000262367:p.Ser32Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUC9|O00147|Q16376|Q4LE28	Missense_Mutation	SNP	ENST00000262367.5	37	CCDS10509.1	.	.	.	.	.	.	.	.	.	.	G	20.8	4.054063	0.75960	.	.	ENSG00000005339	ENST00000262367;ENST00000543883;ENST00000382070	D;D	0.86562	-2.14;-2.12	5.92	5.92	0.95590	.	0.086452	0.49916	D	0.000127	D	0.92172	0.7518	M	0.72894	2.215	0.80722	D	1	P;D	0.58620	0.949;0.983	P;P	0.57101	0.719;0.813	D	0.92259	0.5815	10	0.87932	D	0	-4.3311	20.3206	0.98668	0.0:0.0:1.0:0.0	.	100;32	Q4LE28;Q92793	.;CBP_HUMAN	L	32;100;32	ENSP00000262367:S32L;ENSP00000371502:S32L	ENSP00000262367:S32L	S	-	2	0	CREBBP	3841002	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	7.390000	0.79816	2.809000	0.96659	0.655000	0.94253	TCA		0.403	CREBBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251591.2	NM_004380		A	3901001	G	A	3901001	3	1	610	1	0	0	0	0	1	0	0	0	3863	1294	45	2	7353	2	CREBBP	16	3901001	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10		3901001	86453752	57	37098										
UBN1	29855	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr16	4908004	4908004	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tttacagaagaaagatctgtCagatcctttcaatgacgaag	8	7	3	5			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr16:4908004C>T	ENST00000396658.4	+	2	966	c.263C>T	c.(262-264)tCa>tTa	p.S88L	UBN1_ENST00000590769.1_Missense_Mutation_p.S88L|UBN1_ENST00000545171.1_Missense_Mutation_p.S88L|UBN1_ENST00000262376.6_Missense_Mutation_p.S88L	NM_016936.3	NP_058632.2	Q9NPG3	UBN1_HUMAN	ubinuclein 1	88	Sufficient for interaction with HIRA.				chromatin modification (GO:0016568)|DNA replication-independent nucleosome assembly (GO:0006336)|negative regulation of phosphatase activity (GO:0010923)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|viral process (GO:0016032)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|tight junction (GO:0005923)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|endometrium(6)|kidney(4)|large_intestine(10)|lung(12)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	38						AAAGATCTGTCAGATCCTTTC	0.338																																																0													70	77	75					16																	4908004		2197	4300	6497	SO:0001583	missense	29855			AF108460	CCDS10525.1, CCDS73822.1	16p13.3	2010-11-09			ENSG00000118900	ENSG00000118900			12506	protein-coding gene	gene with protein product		609771				10725330	Standard	XM_005255277		Approved		uc002cyb.3	Q9NPG3	OTTHUMG00000129531	ENST00000396658.4:c.263C>T	16.37:g.4908004C>T	ENSP00000379894:p.Ser88Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6D3|D3DUE8|Q13079|Q9P1P7	Missense_Mutation	SNP	ENST00000396658.4	37	CCDS10525.1	.	.	.	.	.	.	.	.	.	.	C	10.11	1.260216	0.23051	.	.	ENSG00000118900	ENST00000262376;ENST00000545171;ENST00000396658	T;T;T	0.44083	1.51;0.93;1.51	5.37	-2.3	0.06785	.	1.211730	0.05673	N	0.589051	T	0.27313	0.0670	N	0.16266	0.395	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.0	T	0.26258	-1.0108	10	0.27785	T	0.31	1.4387	11.8692	0.52511	0.0:0.4651:0.0:0.5349	.	88;88	Q9NPG3-2;Q9NPG3	.;UBN1_HUMAN	L	88	ENSP00000262376:S88L;ENSP00000442379:S88L;ENSP00000379894:S88L	ENSP00000262376:S88L	S	+	2	0	UBN1	4848005	0.000000	0.05858	0.017000	0.16124	0.976000	0.68499	-1.157000	0.03157	-0.259000	0.09432	0.655000	0.94253	TCA		0.338	UBN1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251719.1	NM_016936		T	4908004	C	T	4908004	3	4	610	1	0	0	0	0	1	0	0	0	16904	838	29	2	269	2	UBN1	16	4908004	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	1007003	4908004	85446749	58	37099										
DNAH3	55567	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	21051260	21051260	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	atcatggccactgtccggaaCaaggcctggaaaagaaacaa	10	10	1	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr16:21051260C>A	ENST00000261383.3	-	33	4643	c.4644G>T	c.(4642-4644)ttG>ttT	p.L1548F	DNAH3_ENST00000415178.1_Missense_Mutation_p.L1548F	NM_017539.1	NP_060009.1	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1548	AAA 1. {ECO:0000250}.				cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|microtubule motor activity (GO:0003777)			NS(3)|autonomic_ganglia(1)|breast(12)|central_nervous_system(3)|cervix(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(4)|kidney(10)|large_intestine(42)|liver(2)|lung(57)|ovary(14)|pancreas(1)|prostate(7)|skin(11)|stomach(5)|upper_aerodigestive_tract(7)|urinary_tract(6)	202				GBM - Glioblastoma multiforme(48;0.207)		CTGTCCGGAACAAGGCCTGGA	0.488																																																0													114	103	107					16																	21051260		2201	4300	6501	SO:0001583	missense	55567			U83574	CCDS10594.1	16p12.2	2008-08-01	2006-09-04		ENSG00000158486	ENSG00000158486		"Axonemal dyneins"	2949	protein-coding gene	gene with protein product		603334	"dynein, axonemal, heavy polypeptide 3"			9256245, 9373155	Standard	NM_017539		Approved	Dnahc3b, DLP3, Hsadhc3, DKFZp434N074	uc010vbe.2	Q8TD57	OTTHUMG00000090677	ENST00000261383.3:c.4644G>T	16.37:g.21051260C>A	ENSP00000261383:p.Leu1548Phe	Somatic		WXS	Illumina HiSeq	Phase_I	O00437|O15437|O43326|Q3C0H2|Q8WUP9|Q9UEM3|Q9UEM5|Q9UG35	Missense_Mutation	SNP	ENST00000261383.3	37	CCDS10594.1	.	.	.	.	.	.	.	.	.	.	c	19.21	3.783406	0.70222	.	.	ENSG00000158486	ENST00000261383;ENST00000415178	T;T	0.40756	1.02;1.02	5.48	-3.63	0.04529	ATPase, AAA+ type, core (1);	0.000000	0.64402	D	0.000008	T	0.71787	0.3381	H	0.98048	4.135	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.76408	-0.2970	10	0.87932	D	0	.	11.9329	0.52857	0.0:0.4256:0.0:0.5744	.	1548	Q8TD57	DYH3_HUMAN	F	1548	ENSP00000261383:L1548F;ENSP00000394245:L1548F	ENSP00000261383:L1548F	L	-	3	2	DNAH3	20958761	0.014000	0.17966	0.915000	0.36163	0.963000	0.63663	-0.900000	0.04097	-0.896000	0.03915	-0.753000	0.03488	TTG		0.488	DNAH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207361.1	NM_017539		A	21051260	C	A	21051260	3	1	610	1	0	0	0	0	1	0	0	0	4605	477	17	4	7825	4	DNAH3	16	21051260	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	16143256	21051260	69303493	59	37100										
MBTPS1	8720	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	84094306	84094306	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ccttccatcctctctggagtGactgagcctgctccactggg	10	15	1	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr16:84094306G>C	ENST00000343411.3	-	20	3180	c.2685C>G	c.(2683-2685)gtC>gtG	p.V895V		NM_003791.2	NP_003782.1	Q14703	MBTP1_HUMAN	membrane-bound transcription factor peptidase, site 1	895					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|cholesterol metabolic process (GO:0008203)|endoplasmic reticulum unfolded protein response (GO:0030968)|lipid metabolic process (GO:0006629)|lysosome organization (GO:0007040)|proteolysis (GO:0006508)|regulation of transcription factor import into nucleus (GO:0042990)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum lumen (GO:0005788)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi stack (GO:0005795)|integral component of membrane (GO:0016021)	serine-type endopeptidase activity (GO:0004252)			NS(1)|breast(2)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(12)|lung(10)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	41						TCTCTGGAGTGACTGAGCCTG	0.592																																																0													65	53	57					16																	84094306		2200	4300	6500	SO:0001819	synonymous_variant	8720			D42053	CCDS10941.1	16q24	2008-08-04	2005-08-17		ENSG00000140943	ENSG00000140943			15456	protein-coding gene	gene with protein product		603355	"membrane-bound transcription factor protease, site 1"			9809072, 10944850	Standard	NM_003791		Approved	S1P, KIAA0091, SKI-1, PCSK8	uc002fhi.3	Q14703	OTTHUMG00000137639	ENST00000343411.3:c.2685C>G	16.37:g.84094306G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6V8|Q24JQ2|Q9UF67	Silent	SNP	ENST00000343411.3	37	CCDS10941.1																																																																																				0.592	MBTPS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269080.2	NM_003791		C	84094306	G	C	84094306	2	2	610	1	0	0	0	0	0	0	0	1	9368	1277	45	4		4	MBTPS1	16	84094306	Silent	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	63043046	84094306	6260447	60	37101										
ZCCHC14	23174	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	87445209	87445209	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gtaacaagataggttcccgcTctttttgtgactggaaccat	9	9	1	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr16:87445209T>A	ENST00000268616.4	-	12	2924	c.2707A>T	c.(2707-2709)Agc>Tgc	p.S903C		NM_015144.2	NP_055959.1	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	903							nucleic acid binding (GO:0003676)|phosphatidylinositol binding (GO:0035091)|zinc ion binding (GO:0008270)			breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(5)|lung(10)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	36				BRCA - Breast invasive adenocarcinoma(80;0.0285)		AGGTTCCCGCTCTTTTTGTGA	0.597																																																0													85	74	78					16																	87445209		2198	4300	6498	SO:0001583	missense	23174			AB011151	CCDS10961.1	16q24.2	2013-01-10			ENSG00000140948	ENSG00000140948		"Zinc fingers, CCHC domain containing", "Sterile alpha motif (SAM) domain containing"	24134	protein-coding gene	gene with protein product						9628581	Standard	XM_005255858		Approved	BDG29, MGC14139	uc002fjz.1	Q8WYQ9	OTTHUMG00000137655	ENST00000268616.4:c.2707A>T	16.37:g.87445209T>A	ENSP00000268616:p.Ser903Cys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUN1|O60324|Q3MJD8|Q9UFP0	Missense_Mutation	SNP	ENST00000268616.4	37	CCDS10961.1	.	.	.	.	.	.	.	.	.	.	T	14.84	2.654553	0.47467	.	.	ENSG00000140948	ENST00000268616	T	0.76968	-1.06	5.55	5.55	0.83447	.	0.169858	0.53938	D	0.000059	T	0.79375	0.4435	L	0.27053	0.805	0.33555	D	0.596683	D;D	0.67145	0.996;0.993	P;P	0.59288	0.855;0.72	D	0.85907	0.1438	10	0.87932	D	0	-19.183	15.975	0.80057	0.0:0.0:0.0:1.0	.	903;903	Q8WYQ9-2;Q8WYQ9	.;ZCH14_HUMAN	C	903	ENSP00000268616:S903C	ENSP00000268616:S903C	S	-	1	0	ZCCHC14	86002710	0.998000	0.40836	0.998000	0.56505	0.927000	0.56198	1.668000	0.37481	2.223000	0.72356	0.533000	0.62120	AGC		0.597	ZCCHC14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269107.1	NM_015144		A	87445209	T	A	87445209	3	1	610	1	0	0	0	0	1	0	0	0	17595	1551	54	5	150	5	ZCCHC14	16	87445209	Missense_Mutation	SNP	T	TCGA-HE-A5NJ-01A-11D-A26P-10	3350903	87445209	2909544	61	37102										
FXR2	9513	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	7497319	7497319	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	aacaaaaatgaagggaaccaTtccctagagaacagagagca	9	8	0	3			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr17:7497319T>G	ENST00000250113.7	-	11	1358	c.1024A>C	c.(1024-1026)Atg>Ctg	p.M342L	FXR2_ENST00000573057.1_5'Flank	NM_004860.3	NP_004851.2	P51116	FXR2_HUMAN	fragile X mental retardation, autosomal homolog 2	342						cytoplasm (GO:0005737)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	identical protein binding (GO:0042802)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			NS(1)|breast(2)|endometrium(6)|kidney(1)|large_intestine(7)|lung(8)|prostate(1)	26				READ - Rectum adenocarcinoma(115;0.17)		AAGGGAACCATTCCCTAGAGA	0.532																																																0													60	59	59					17																	7497319		1905	4126	6031	SO:0001583	missense	9513			U31501	CCDS45604.1	17p13.3	2014-09-17				ENSG00000129245			4024	protein-coding gene	gene with protein product		605339		FMR1L2		7489725, 9259278	Standard	NM_004860		Approved		uc002gia.2	P51116		ENST00000250113.7:c.1024A>C	17.37:g.7497319T>G	ENSP00000250113:p.Met342Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9M2|D3DTQ1|Q86V09|Q8WUM2	Missense_Mutation	SNP	ENST00000250113.7	37	CCDS45604.1	.	.	.	.	.	.	.	.	.	.	T	9.196	1.027335	0.19512	.	.	ENSG00000129245	ENST00000250113	T	0.27720	1.65	5.52	5.52	0.82312	K Homology (1);K Homology, type 1, subgroup (1);K Homology, type 1 (1);	0.122387	0.64402	D	0.000001	T	0.18299	0.0439	N	0.12746	0.255	0.42425	D	0.992651	B	0.06786	0.001	B	0.09377	0.004	T	0.08932	-1.0698	10	0.22706	T	0.39	1.2613	13.6401	0.62246	0.0:0.0:0.0:1.0	.	342	P51116	FXR2_HUMAN	L	342	ENSP00000250113:M342L	ENSP00000250113:M342L	M	-	1	0	FXR2	7438044	1.000000	0.71417	1.000000	0.80357	0.081000	0.17604	5.842000	0.69417	2.317000	0.78254	0.460000	0.39030	ATG		0.532	FXR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441084.1			G	7497319	T	G	7497319	3	3	610	1	0	0	0	0	1	0	0	0	6123	1493	52	5	925	5	FXR2	17	7497319	Missense_Mutation	SNP	T	TCGA-HE-A5NJ-01A-11D-A26P-10		7497319	73697891	62	37103										
WDR16	146845	broad.mit.edu	37	chr17	9503401	9503402	+	Frame_Shift_Ins	INS	-	-	T													0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	aggtggatgatgatgatagcINStttttctaccttggcaccac							TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr17:9503401_9503402insT	ENST00000352665.5	+	6	723_724	c.654_655insT	c.(655-657)tttfs	p.F219fs	WDR16_ENST00000396219.3_Frame_Shift_Ins_p.F151fs|WDR16_ENST00000299764.5_Frame_Shift_Ins_p.F229fs	NM_145054.4	NP_659491.4			WD repeat domain 16											NS(1)|breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	31						ATGATGATAGCTTTTTCTACCT	0.485																																																0																																										SO:0001589	frameshift_variant	146845			AB065281	CCDS11149.2, CCDS42262.1	17p13.1	2014-08-01			ENSG00000166596	ENSG00000166596		"WD repeat domain containing"	16053	protein-coding gene	gene with protein product	"WD40-repeat protein upregulated in HCC"	609804				15967112	Standard	NM_001080556		Approved	WDRPUH, FLJ37528	uc002gly.3	Q8N1V2	OTTHUMG00000150149	ENST00000352665.5:c.659dupT	17.37:g.9503406_9503406dupT	ENSP00000339449:p.Phe219fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000352665.5	37	CCDS11149.2																																																																																				0.485	WDR16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316569.2	NM_145054		T	9503402	-	T	9503401	7	5	610	1	0	1	1	0	0	0	0	0	17288	796	28	0	676	0	WDR16	17	9503401	Frame_Shift_Ins	INS	-	TCGA-HE-A5NJ-01A-11D-A26P-10	2006082	9503401	71691809	63	37104										
MYH4	4622	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	10366950	10366950	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tagcactgatgatttgatctTcaagggtccccttaagagaa	9	8	2	4			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr17:10366950T>G	ENST00000255381.2	-	8	769	c.659A>C	c.(658-660)gAa>gCa	p.E220A	RP11-799N11.1_ENST00000581304.1_RNA|CTC-297N7.11_ENST00000587182.2_RNA|RP11-799N11.1_ENST00000399342.2_RNA	NM_017533.2	NP_060003.2	Q9Y623	MYH4_HUMAN	myosin, heavy chain 4, skeletal muscle	220	Myosin motor.				actin filament-based movement (GO:0030048)|ATP catabolic process (GO:0006200)|membrane organization (GO:0061024)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|response to activity (GO:0014823)	muscle myosin complex (GO:0005859)|myofibril (GO:0030016)|myosin filament (GO:0032982)|sarcomere (GO:0030017)	ATP binding (GO:0005524)|double-stranded RNA binding (GO:0003725)|microfilament motor activity (GO:0000146)			NS(4)|breast(8)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(13)|lung(72)|ovary(10)|prostate(7)|skin(9)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	149						GATTTGATCTTCAAGGGTCCC	0.448																																																0													73	73	73					17																	10366950		2203	4300	6503	SO:0001583	missense	4622				CCDS11154.1	17p13.1	2013-09-19	2006-09-29		ENSG00000264424	ENSG00000264424		"Myosins / Myosin superfamily : Class II"	7574	protein-coding gene	gene with protein product		160742	"myosin, heavy polypeptide 4, skeletal muscle"			8518795	Standard	NM_017533		Approved	MYH2B, MyHC-2B, MyHC-IIb	uc002gmn.3	Q9Y623	OTTHUMG00000130365	ENST00000255381.2:c.659A>C	17.37:g.10366950T>G	ENSP00000255381:p.Glu220Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000255381.2	37	CCDS11154.1	.	.	.	.	.	.	.	.	.	.	T	24.8	4.567354	0.86439	.	.	ENSG00000141048	ENST00000255381	D	0.89050	-2.46	5.14	5.14	0.70334	Myosin head, motor domain (2);	0.000000	0.38005	U	0.001849	D	0.96503	0.8859	H	0.97707	4.06	0.80722	D	1	D	0.63880	0.993	D	0.77557	0.99	D	0.97990	1.0354	10	0.87932	D	0	.	15.2278	0.73364	0.0:0.0:0.0:1.0	.	220	Q9Y623	MYH4_HUMAN	A	220	ENSP00000255381:E220A	ENSP00000255381:E220A	E	-	2	0	MYH4	10307675	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.966000	0.87956	2.052000	0.61016	0.455000	0.32223	GAA		0.448	MYH4-001	KNOWN	NAGNAG_splice_site|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252731.1	NM_017533		G	10366950	T	G	10366950	3	3	610	1	0	0	0	0	1	0	0	0	10044	1783	62	5	5292	5	MYH4	17	10366950	Missense_Mutation	SNP	T	TCGA-HE-A5NJ-01A-11D-A26P-10	863549	10366950	70828260	64	37105										
STAC2	342667	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	37373422	37373422	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	catcgcaagccctgtttggaGtttcctaggaagaatttggg	12	8	0	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr17:37373422G>A	ENST00000333461.5	-	3	771	c.402C>T	c.(400-402)aaC>aaT	p.N134N		NM_198993.3	NP_945344.1	Q6ZMT1	STAC2_HUMAN	SH3 and cysteine rich domain 2	134					intracellular signal transduction (GO:0035556)		metal ion binding (GO:0046872)			NS(2)|endometrium(1)|kidney(2)|large_intestine(1)|lung(7)|pancreas(1)|prostate(1)|skin(2)	17						CCTGTTTGGAGTTTCCTAGGA	0.562																																																0													59	56	57					17																	37373422		2203	4300	6503	SO:0001819	synonymous_variant	342667			AJ608762	CCDS11335.1	17q21.2	2012-11-19			ENSG00000141750	ENSG00000141750			23990	protein-coding gene	gene with protein product							Standard	NM_198993		Approved	24b2	uc002hrs.3	Q6ZMT1	OTTHUMG00000179039	ENST00000333461.5:c.402C>T	17.37:g.37373422G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q32MA3	Silent	SNP	ENST00000333461.5	37	CCDS11335.1																																																																																				0.562	STAC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444533.2	NM_198993		A	37373422	G	A	37373422	2	1	610	1	0	0	0	0	0	0	0	1	15252	1020	36	2		2	STAC2	17	37373422	Silent	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	27006472	37373422	43821788	65	37106										
LLGL2	3993	broad.mit.edu	37	chr17	73565071	73565071	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gcccacaggcacgaggacggCacggtgcggttctgggatgc	17	12	1	0			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr17:73565071C>A	ENST00000392550.3	+	13	1452	c.1335C>A	c.(1333-1335)ggC>ggA	p.G445G	LLGL2_ENST00000577200.1_Silent_p.G445G|LLGL2_ENST00000167462.5_Silent_p.G445G	NM_001031803.1	NP_001026973.1	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 (Drosophila)	445					cell cycle (GO:0007049)|cell division (GO:0051301)|exocytosis (GO:0006887)|regulation of establishment or maintenance of cell polarity (GO:0032878)	cytoplasm (GO:0005737)	PDZ domain binding (GO:0030165)			NS(1)|breast(3)|cervix(2)|endometrium(2)|kidney(1)|large_intestine(2)|lung(9)|ovary(2)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	31	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			ACGAGGACGGCACGGTGCGGT	0.667																																																0													41	42	41					17																	73565071		2203	4300	6503	SO:0001819	synonymous_variant	3993			X87342	CCDS11725.1, CCDS32733.1, CCDS45776.1	17q25.1	2013-01-10	2001-11-28			ENSG00000073350		"WD repeat domain containing"	6629	protein-coding gene	gene with protein product			"lethal giant larvae (Drosophila) homolog 2"				Standard	XR_243659		Approved	HGL	uc002joh.3	Q6P1M3		ENST00000392550.3:c.1335C>A	17.37:g.73565071C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q14521|Q9BR62	Silent	SNP	ENST00000392550.3	37	CCDS32733.1																																																																																				0.667	LLGL2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000447633.1	NM_004524		A	73565071	C	A	73565071	2	1	610	1	0	0	0	0	0	0	0	1	8841	697	25	4		4	LLGL2	17	73565071	Silent	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	36191649	73565071	7630139	66	37107										
NEDD4L	23327	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr18	56033337	56033337	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	accagatgtcctaaaagctaGactgtggattgagtttgaat	10	6	0	4			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr18:56033337G>C	ENST00000400345.3	+	21	2223	c.1940G>C	c.(1939-1941)aGa>aCa	p.R647T	NEDD4L_ENST00000456986.1_Missense_Mutation_p.R526T|NEDD4L_ENST00000456173.2_Missense_Mutation_p.R506T|NEDD4L_ENST00000586263.1_Missense_Mutation_p.R619T|NEDD4L_ENST00000356462.6_Missense_Mutation_p.R583T|NEDD4L_ENST00000589054.1_Intron|NEDD4L_ENST00000357895.5_Missense_Mutation_p.R639T|NEDD4L_ENST00000256830.9_Missense_Mutation_p.R543T|NEDD4L_ENST00000435432.2_Missense_Mutation_p.R506T|NEDD4L_ENST00000431212.2_Missense_Mutation_p.R526T|NEDD4L_ENST00000382850.4_Missense_Mutation_p.R627T|NEDD4L_ENST00000256832.7_Missense_Mutation_p.R507T	NM_001144967.2	NP_001138439.1	Q96PU5	NED4L_HUMAN	neural precursor cell expressed, developmentally down-regulated 4-like, E3 ubiquitin protein ligase	647	HECT. {ECO:0000255|PROSITE- ProRule:PRU00104}.				cellular sodium ion homeostasis (GO:0006883)|excretion (GO:0007588)|gene expression (GO:0010467)|ion transmembrane transport (GO:0034220)|negative regulation of potassium ion transmembrane transport (GO:1901380)|negative regulation of potassium ion transmembrane transporter activity (GO:1901017)|negative regulation of protein localization to cell surface (GO:2000009)|negative regulation of sodium ion transmembrane transport (GO:1902306)|negative regulation of sodium ion transmembrane transporter activity (GO:2000650)|negative regulation of systemic arterial blood pressure (GO:0003085)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|positive regulation of cation channel activity (GO:2001259)|positive regulation of caveolin-mediated endocytosis (GO:2001288)|positive regulation of endocytosis (GO:0045807)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of sodium ion transport (GO:0010765)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein K48-linked ubiquitination (GO:0070936)|protein monoubiquitination (GO:0006513)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|regulation of ion transmembrane transport (GO:0034765)|regulation of membrane depolarization (GO:0003254)|regulation of membrane potential (GO:0042391)|regulation of membrane repolarization (GO:0060306)|regulation of potassium ion transmembrane transporter activity (GO:1901016)|regulation of protein catabolic process (GO:0042176)|regulation of tight junction assembly (GO:2000810)|response to metal ion (GO:0010038)|response to salt stress (GO:0009651)|sodium ion transport (GO:0006814)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|transmembrane transport (GO:0055085)|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway (GO:0043162)|ventricular cardiac muscle cell action potential (GO:0086005)|viral life cycle (GO:0019058)|viral process (GO:0016032)|water homeostasis (GO:0030104)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ion channel binding (GO:0044325)|ligase activity (GO:0016874)|potassium channel inhibitor activity (GO:0019870)|potassium channel regulator activity (GO:0015459)|sodium channel inhibitor activity (GO:0019871)|sodium channel regulator activity (GO:0017080)|ubiquitin-protein transferase activity (GO:0004842)			breast(1)|endometrium(7)|kidney(3)|large_intestine(10)|lung(11)|ovary(1)|prostate(4)	37						CTAAAAGCTAGACTGTGGATT	0.408																																																0													122	114	117					18																	56033337		1867	4102	5969	SO:0001583	missense	23327			AF210730	CCDS45872.1, CCDS45873.1, CCDS45874.1, CCDS45875.1, CCDS45876.1, CCDS58632.1, CCDS59323.1	18q21.31	2014-08-12	2012-02-23		ENSG00000049759				7728	protein-coding gene	gene with protein product		606384	"neural precursor cell expressed, developmentally down-regulated 4-like"			10594025, 11244092, 18322022	Standard	NM_001144965		Approved	KIAA0439, RSP5, NEDD4-2	uc002lgy.3	Q96PU5	OTTHUMG00000179875	ENST00000400345.3:c.1940G>C	18.37:g.56033337G>C	ENSP00000383199:p.Arg647Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O43165|Q3LSM7|Q7Z5F1|Q7Z5F2|Q7Z5N3|Q8N5A7|Q8WUU9|Q9BW58|Q9H2W4|Q9NT88	Missense_Mutation	SNP	ENST00000400345.3	37	CCDS45872.1	.	.	.	.	.	.	.	.	.	.	G	30	5.052900	0.93793	.	.	ENSG00000049759	ENST00000400345;ENST00000382850;ENST00000356462;ENST00000256830;ENST00000256832;ENST00000456986;ENST00000357895;ENST00000435432;ENST00000456173;ENST00000431212	T;T;T;T;T;T;T;T;T;T	0.75938	0.97;0.97;0.97;0.97;-0.98;-0.98;0.97;-0.98;-0.98;-0.98	5.54	5.54	0.83059	HECT (3);	0.000000	0.85682	D	0.000000	D	0.86727	0.6002	M	0.76574	2.34	0.80722	D	1	D;D;D;D;D;D	0.76494	0.999;0.999;0.966;0.985;0.999;0.999	D;D;P;D;D;D	0.77004	0.989;0.985;0.574;0.955;0.977;0.985	D	0.87407	0.2373	10	0.87932	D	0	.	19.8487	0.96730	0.0:0.0:1.0:0.0	.	619;639;506;583;647;627	Q96PU5-6;Q96PU5-7;Q3LSM7;Q96PU5-2;Q96PU5;Q96PU5-5	.;.;.;.;NED4L_HUMAN;.	T	647;627;583;543;507;526;639;506;506;526	ENSP00000383199:R647T;ENSP00000372301:R627T;ENSP00000348847:R583T;ENSP00000256830:R543T;ENSP00000256832:R507T;ENSP00000411947:R526T;ENSP00000350569:R639T;ENSP00000393395:R506T;ENSP00000405440:R506T;ENSP00000389406:R526T	ENSP00000256830:R543T	R	+	2	0	NEDD4L	54184317	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.813000	0.99286	2.748000	0.94277	0.650000	0.86243	AGA		0.408	NEDD4L-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000448749.1			C	56033337	G	C	56033337	3	2	610	1	0	0	0	0	1	0	0	0	10318	942	33	4	2050	4	NEDD4L	18	56033337	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10		56033337	22043911	67	37108										
LPPR3	79948	hgsc.bcm.edu	37	chr19	815207	815207	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	cacaaaccgcaccgtacgccGcaggaaggagttgaagttgc	12	12	0	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr19:815207G>A	ENST00000520876.3	-	4	460	c.382C>T	c.(382-384)Cgg>Tgg	p.R128W	LPPR3_ENST00000359894.2_Missense_Mutation_p.R128W|MIR3187_ENST00000583431.1_RNA	NM_001270366.1	NP_001257295.1	Q6T4P5	LPPR3_HUMAN		128						integral component of membrane (GO:0016021)	phosphatidate phosphatase activity (GO:0008195)										ACCGTACGCCGCAGGAAGGAG	0.716																																																0													23	28	26					19																	815207		2181	4286	6467	SO:0001583	missense	0																														ENST00000520876.3:c.382C>T	19.37:g.815207G>A	ENSP00000430297:p.Arg128Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q86XQ4|Q96EH1|Q9BQF9|Q9HAJ4	Missense_Mutation	SNP	ENST00000520876.3	37	CCDS58636.1	.	.	.	.	.	.	.	.	.	.	G	19.24	3.790052	0.70337	.	.	ENSG00000129951	ENST00000300947;ENST00000359894;ENST00000520876;ENST00000521445	T;T	0.52526	0.66;0.66	4.33	3.27	0.37495	Phosphatidic acid phosphatase/chloroperoxidase, N-terminal (1);	0.000000	0.85682	U	0.000000	T	0.68339	0.2990	M	0.82517	2.595	0.52501	D	0.999955	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	T	0.71712	-0.4510	10	0.87932	D	0	-9.9087	11.2342	0.48931	0.0:0.0:0.8149:0.1851	.	128;128;128	Q6T4P5-2;Q6T4P5;Q6T4P5-3	.;LPPR3_HUMAN;.	W	128	ENSP00000352962:R128W;ENSP00000430297:R128W	ENSP00000300947:R128W	R	-	1	2	AC006273.1	766207	0.599000	0.26891	0.997000	0.53966	0.459000	0.32528	0.345000	0.19979	0.788000	0.33755	0.462000	0.41574	CGG		0.716	LPPR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379096.3			A	815207	G	A	815207	3	1	610	1	0	0	0	0	1	0	0	0	8933	1086	38	1	1874	1	LPPR3	19	815207	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10		815207	58313776	68	37109										
STK11	6794	ucsc.edu	37	chr19	1220643	1220643	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	agggctccccggctttccagCcgcccgagattgccaacggc	12	17	0	1	rs587782546		TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr19:1220643C>T	ENST00000326873.7	+	5	1834	c.661C>T	c.(661-663)Ccg>Tcg	p.P221S		NM_000455.4	NP_000446.1	Q15831	STK11_HUMAN	serine/threonine kinase 11	221	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of protein kinase activity (GO:0032147)|anoikis (GO:0043276)|autophagy (GO:0006914)|axonogenesis (GO:0007409)|canonical Wnt signaling pathway (GO:0060070)|cell cycle arrest (GO:0007050)|cellular response to DNA damage stimulus (GO:0006974)|energy reserve metabolic process (GO:0006112)|establishment of cell polarity (GO:0030010)|glucose homeostasis (GO:0042593)|Golgi localization (GO:0051645)|insulin receptor signaling pathway (GO:0008286)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of epithelial cell proliferation involved in prostate gland development (GO:0060770)|positive regulation of axonogenesis (GO:0050772)|positive regulation of gluconeogenesis (GO:0045722)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|positive thymic T cell selection (GO:0045059)|protein autophosphorylation (GO:0046777)|protein heterooligomerization (GO:0051291)|protein phosphorylation (GO:0006468)|regulation of cell growth (GO:0001558)|regulation of fatty acid biosynthetic process (GO:0042304)|regulation of protein kinase B signaling (GO:0051896)|regulation of Wnt signaling pathway (GO:0030111)|response to glucagon (GO:0033762)|response to ionizing radiation (GO:0010212)|response to lipid (GO:0033993)|small molecule metabolic process (GO:0044281)|spermatid development (GO:0007286)|T cell receptor signaling pathway (GO:0050852)|TCR signalosome assembly (GO:0036399)|tissue homeostasis (GO:0001894)|vasculature development (GO:0001944)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|TCR signalosome (GO:0036398)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|p53 binding (GO:0002039)|protein kinase activator activity (GO:0030295)|protein serine/threonine kinase activity (GO:0004674)	p.0?(20)|p.?(2)		biliary_tract(1)|breast(3)|cervix(35)|gastrointestinal_tract_(site_indeterminate)(5)|haematopoietic_and_lymphoid_tissue(7)|kidney(2)|large_intestine(14)|liver(1)|lung(219)|oesophagus(1)|ovary(4)|pancreas(6)|prostate(2)|skin(15)|small_intestine(1)|stomach(9)|testis(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	328		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Renal(1328;0.0183)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.00942)|STAD - Stomach adenocarcinoma(1328;0.18)		GGCTTTCCAGCCGCCCGAGAT	0.711		14	"D, Mis, N, F, S"		"NSCLC, pancreatic"	"jejunal harmartoma, ovarian, testicular, pancreatic"			Peutz-Jeghers syndrome	TSP Lung(3;<1E-08)																												yes	Rec	yes	Peutz-Jeghers syndrome	19	19p13.3	6794	serine/threonine kinase 11 gene (LKB1)		"E, M, O"	22	Whole gene deletion(20)|Unknown(2)	cervix(14)|lung(4)|oesophagus(1)|ovary(1)|kidney(1)|pancreas(1)											13	19	17					19																	1220643		1945	4124	6069	SO:0001583	missense	6794	Familial Cancer Database	PJS, Hamartous Intestinal Polyposis	U63333	CCDS45896.1	19p13.3	2014-09-17	2005-12-13			ENSG00000118046			11389	protein-coding gene	gene with protein product	"polarization-related protein LKB1"	602216	"serine/threonine kinase 11 (Peutz-Jeghers syndrome)"			9425897	Standard	XM_005259617		Approved	PJS, LKB1	uc002lrl.1	Q15831		ENST00000326873.7:c.661C>T	19.37:g.1220643C>T	ENSP00000324856:p.Pro221Ser	Somatic		WXS	Illumina HiSeq		B2RBX7|E7EW76	Missense_Mutation	SNP	ENST00000326873.7	37	CCDS45896.1	.	.	.	.	.	.	.	.	.	.	C	28.9	4.963262	0.92791	.	.	ENSG00000118046	ENST00000326873;ENST00000405031	T	0.81163	-1.46	5.6	5.6	0.85130	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.76335	0.3973	N	0.04335	-0.225	0.80722	D	1	D	0.62365	0.991	P	0.58660	0.843	T	0.79298	-0.1861	10	0.34782	T	0.22	-28.8932	18.5988	0.91240	0.0:1.0:0.0:0.0	.	221	Q15831	STK11_HUMAN	S	221	ENSP00000324856:P221S	ENSP00000324856:P221S	P	+	1	0	STK11	1171643	1.000000	0.71417	0.999000	0.59377	0.684000	0.39900	7.712000	0.84684	2.644000	0.89710	0.561000	0.74099	CCG		0.711	STK11-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449839.3	NM_000455		T	1220643	C	T	1220643	3	4	610	1	0	0	0	0	1	0	0	0	15299	739	26	2	679	2	STK11	19	1220643	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	405436	1220643	57908340	69	37110										
ZNF57	126295	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	2915555	2915555	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gaggatgtggctgtggacttCaccctggaggagtgggcttt	17	7	1	0			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr19:2915555C>T	ENST00000306908.5	+	2	187	c.39C>T	c.(37-39)ttC>ttT	p.F13F	AC006277.2_ENST00000520090.2_RNA|ZNF57_ENST00000523428.1_5'UTR	NM_173480.2	NP_775751.1	Q68EA5	ZNF57_HUMAN	zinc finger protein 57	13	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|kidney(2)|large_intestine(5)|lung(2)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	18				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.00161)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGTGGACTTCACCCTGGAGG	0.542																																					NSCLC(150;910 1964 4303 10464 26498)											0													160	141	147					19																	2915555		2203	4300	6503	SO:0001819	synonymous_variant	126295			M88368	CCDS12098.1	19p13.3	2013-01-08			ENSG00000171970	ENSG00000171970		"Zinc fingers, C2H2-type", "-"	13125	protein-coding gene	gene with protein product			"zinc finger protein 424"	ZNF424		1505991	Standard	NM_173480		Approved		uc002lwr.3	Q68EA5	OTTHUMG00000164485	ENST00000306908.5:c.39C>T	19.37:g.2915555C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N6R9	Silent	SNP	ENST00000306908.5	37	CCDS12098.1																																																																																				0.542	ZNF57-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378969.1	NM_173480		T	2915555	C	T	2915555	2	4	610	1	0	0	0	0	0	0	0	1	18013	825	29	2		2	ZNF57	19	2915555	Silent	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	1694912	2915555	56213428	70	37111										
ZFR2	23217	hgsc.bcm.edu;broad.mit.edu	37	chr19	3808936	3808936	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tgcatccccggggcccagggGcccagccgcactgctcacag	13	18	1	0			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr19:3808936G>A	ENST00000262961.4	-	17	2489	c.2479C>T	c.(2479-2481)Ccc>Tcc	p.P827S		NM_015174.1	NP_055989.1	Q9UPR6	ZFR2_HUMAN	zinc finger RNA binding protein 2	827	DZF. {ECO:0000255|PROSITE- ProRule:PRU01040}.						nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)			central_nervous_system(1)|kidney(3)|large_intestine(4)|lung(5)|pancreas(1)|prostate(1)|skin(1)	16				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00514)|STAD - Stomach adenocarcinoma(1328;0.19)		GGGCCCAGGGGCCCAGCCGCA	0.697																																																0													10	15	14					19																	3808936		2017	4182	6199	SO:0001583	missense	23217			AB029009	CCDS45921.1, CCDS45922.1	19p13.3	2012-10-05	2008-03-25	2008-03-25	ENSG00000105278	ENSG00000105278			29189	protein-coding gene	gene with protein product			"KIAA1086"	KIAA1086		10470851	Standard	NM_015174		Approved		uc002lyw.2	Q9UPR6	OTTHUMG00000180918	ENST00000262961.4:c.2479C>T	19.37:g.3808936G>A	ENSP00000262961:p.Pro827Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000262961.4	37	CCDS45921.1	.	.	.	.	.	.	.	.	.	.	G	14.62	2.588474	0.46110	.	.	ENSG00000105278	ENST00000262961	T	0.42131	0.98	3.97	3.97	0.46021	DZF (2);	0.084158	0.48767	U	0.000179	T	0.62962	0.2471	M	0.81112	2.525	0.80722	D	1	D	0.89917	1.0	D	0.77557	0.99	T	0.65668	-0.6112	10	0.48119	T	0.1	-16.1842	11.3964	0.49845	0.0:0.0:1.0:0.0	.	827	Q9UPR6	ZFR2_HUMAN	S	827	ENSP00000262961:P827S	ENSP00000262961:P827S	P	-	1	0	ZFR2	3759936	1.000000	0.71417	0.677000	0.29947	0.009000	0.06853	5.975000	0.70475	2.053000	0.61076	0.484000	0.47621	CCC		0.697	ZFR2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453648.2	NM_015174		A	3808936	G	A	3808936	3	1	610	1	0	0	0	0	1	0	0	0	17672	1203	42	2	352	2	ZFR2	19	3808936	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	893381	3808936	55320047	71	37112										
LOC55908	55908	broad.mit.edu;bcgsc.ca	37	chr19	11350388	11350388	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gcctcagcggcccccatgggCggcccagaactggcacagca	13	17	1	1	rs376063419		TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr19:11350388C>T	ENST00000252453.8	+	1	94	c.75C>T	c.(73-75)ggC>ggT	p.G25G	C19orf80_ENST00000591200.1_Intron|DOCK6_ENST00000294618.7_Intron|DOCK6_ENST00000319867.7_5'Flank	NM_018687.6	NP_061157.3	Q6UXH0	BETAT_HUMAN	chromosome 19 open reading frame 80	25					cellular lipid metabolic process (GO:0044255)|glucose metabolic process (GO:0006006)|positive regulation of protein processing (GO:0010954)|regulation of lipoprotein metabolic process (GO:0050746)|triglyceride homeostasis (GO:0070328)|type B pancreatic cell proliferation (GO:0044342)	extracellular region (GO:0005576)	hormone activity (GO:0005179)			NS(1)|breast(1)|endometrium(2)	4						CCCCCATGGGCGGCCCAGAAC	0.652																																																0								C	,	0,3918		0,0,1959	24	26	25		75,	-8.4	0	19		25	2,8282		0,2,4140	no	coding-synonymous,intron	C19orf80,DOCK6	NM_018687.6,NM_020812.2	,	0,2,6099	TT,TC,CC		0.0241,0.0,0.0164	,	25/199,	11350388	2,12200	1959	4142	6101	SO:0001819	synonymous_variant	55908				CCDS54220.1	19p13.2	2014-02-13			ENSG00000130173	ENSG00000130173			24933	protein-coding gene	gene with protein product	"lipasin", "betatrophin"					22809513, 23150577, 24262987	Standard	NM_018687		Approved	TD26, RIFL, ANGPTL8	uc021upg.1	Q6UXH0		ENST00000252453.8:c.75C>T	19.37:g.11350388C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NQZ1	Silent	SNP	ENST00000252453.8	37	CCDS54220.1																																																																																				0.652	C19orf80-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453175.1	NM_018687		T	11350388	C	T	11350388	2	4	610	1	0	0	0	0	0	0	0	1	8888	755	27	1		1	LOC55908	19	11350388	Silent	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	7541452	11350388	47778595	72	37113										
IL27RA	9466	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	14150421	14150421	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tgacaaactccttgtctgggGcactaaggcaggccagcctc	11	13	1	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr19:14150421G>A	ENST00000263379.2	+	3	445	c.320G>A	c.(319-321)gGc>gAc	p.G107D		NM_004843.3	NP_004834.1	Q6UWB1	I27RA_HUMAN	interleukin 27 receptor, alpha	107					cell surface receptor signaling pathway (GO:0007166)|defense response to Gram-positive bacterium (GO:0050830)|immune response (GO:0006955)|negative regulation of type 2 immune response (GO:0002829)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of T-helper 1 type immune response (GO:0002827)|regulation of isotype switching to IgG isotypes (GO:0048302)	integral component of plasma membrane (GO:0005887)	interleukin-27 receptor activity (GO:0045509)|transmembrane signaling receptor activity (GO:0004888)			breast(3)|endometrium(3)|kidney(2)|large_intestine(8)|lung(7)|ovary(1)|skin(1)|urinary_tract(1)	26						CTTGTCTGGGGCACTAAGGCA	0.612																																					Colon(164;1849 1896 4443 37792 47834)											0													66	61	63					19																	14150421		2203	4300	6503	SO:0001583	missense	9466			AF053004	CCDS12303.1	19p13.11	2013-02-11				ENSG00000104998		"Interleukins and interleukin receptors", "Fibronectin type III domain containing"	17290	protein-coding gene	gene with protein product	"T-cell cytokine receptor type 1"	605350				9600072, 11057672	Standard	NM_004843		Approved	WSX-1, TCCR, CRL1, WSX1, zcytor1, IL-27R	uc002mxx.4	Q6UWB1		ENST00000263379.2:c.320G>A	19.37:g.14150421G>A	ENSP00000263379:p.Gly107Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A0N0L1|O60624	Missense_Mutation	SNP	ENST00000263379.2	37	CCDS12303.1	.	.	.	.	.	.	.	.	.	.	G	13.70	2.314782	0.40996	.	.	ENSG00000104998	ENST00000263379	T	0.61627	0.09	4.54	-2.12	0.07165	.	0.705821	0.12338	N	0.477779	T	0.46073	0.1374	L	0.32530	0.975	0.09310	N	0.999991	P	0.52316	0.952	P	0.49140	0.601	T	0.43718	-0.9374	10	0.23891	T	0.37	-20.1299	7.3547	0.26713	0.0:0.2745:0.2642:0.4613	.	107	Q6UWB1	I27RA_HUMAN	D	107	ENSP00000263379:G107D	ENSP00000263379:G107D	G	+	2	0	IL27RA	14011421	0.006000	0.16342	0.097000	0.21041	0.288000	0.27193	-0.354000	0.07681	-0.030000	0.13804	0.555000	0.69702	GGC		0.612	IL27RA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458539.1	NM_004843		A	14150421	G	A	14150421	3	1	610	1	0	0	0	0	1	0	0	0	7688	1203	42	2	330	2	IL27RA	19	14150421	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	2800033	14150421	44978562	73	37114										
MYO9B	4650	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	17322846	17322846	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	cggacccccatcatgcccacGgccaacatcaagctcccacc	6	21	2	0			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr19:17322846G>A	ENST00000594824.1	+	40	6348	c.6201G>A	c.(6199-6201)acG>acA	p.T2067T	MYO9B_ENST00000595618.1_3'UTR|MYO9B_ENST00000397274.2_3'UTR			Q13459	MYO9B_HUMAN	myosin IXB	2067	Tail.				actin filament-based movement (GO:0030048)|establishment of cell polarity (GO:0030010)|lamellipodium morphogenesis (GO:0072673)|macrophage chemotaxis (GO:0048246)|monocyte chemotaxis (GO:0002548)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	actin cytoskeleton (GO:0015629)|cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|filamentous actin (GO:0031941)|filopodium tip (GO:0032433)|lamellipodium (GO:0030027)|membrane (GO:0016020)|myosin complex (GO:0016459)|perinuclear region of cytoplasm (GO:0048471)|ruffle (GO:0001726)	actin binding (GO:0003779)|actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|calmodulin binding (GO:0005516)|microfilament motor activity (GO:0000146)|Rho GTPase activator activity (GO:0005100)|zinc ion binding (GO:0008270)			breast(3)|endometrium(9)|kidney(2)|large_intestine(1)|lung(19)|soft_tissue(1)|urinary_tract(4)	39						TCATGCCCACGGCCAACATCA	0.736																																																0													9	11	10					19																	17322846		1808	4035	5843	SO:0001819	synonymous_variant	4650				CCDS46010.1	19p13.1	2011-09-27				ENSG00000099331		"Myosins / Myosin superfamily : Class IX"	7609	protein-coding gene	gene with protein product		602129		CELIAC4		9226381	Standard	NM_004145		Approved		uc010eak.3	Q13459		ENST00000594824.1:c.6201G>A	19.37:g.17322846G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O75314|Q9NUJ2|Q9UHN0	Silent	SNP	ENST00000594824.1	37																																																																																					0.736	MYO9B-002	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000463236.1			A	17322846	G	A	17322846	2	1	610	1	0	0	0	0	0	0	0	1	10092	1103	39	1		1	MYO9B	19	17322846	Silent	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	3172425	17322846	41806137	74	37115										
USF2	7392	bcgsc.ca	37	chr19	35761401	35761402	+	In_Frame_Ins	INS	-	-	TCAGCGGGGAGGCACGATTTGCCT													0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	cagtccggcggccgaggctgINStcagcggggaggcacgattt							TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr19:35761401_35761402insTCAGCGGGGAGGCACGATTTGCCT	ENST00000222305.3	+	5	518_519	c.481_482insTCAGCGGGGAGGCACGATTTGCCT	c.(481-483)gtc>gTCAGCGGGGAGGCACGATTTGCCTtc	p.161_162insSGEARFAF	USF2_ENST00000594064.1_In_Frame_Ins_p.159_160insSGEARFAF|USF2_ENST00000343550.5_In_Frame_Ins_p.94_95insSGEARFAF|USF2_ENST00000379134.3_Intron|USF2_ENST00000595068.1_In_Frame_Ins_p.161_162insSGEARFAF	NM_003367.2	NP_003358.1	Q15853	USF2_HUMAN	upstream transcription factor 2, c-fos interacting	161					lactation (GO:0007595)|late viral transcription (GO:0019086)|lipid homeostasis (GO:0055088)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription from RNA polymerase II promoter by glucose (GO:0000432)|regulation of transcription from RNA polymerase II promoter by glucose (GO:0000430)|transcription from RNA polymerase II promoter (GO:0006366)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	bHLH transcription factor binding (GO:0043425)|double-stranded DNA binding (GO:0003690)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|endometrium(2)|large_intestine(2)|lung(7)|urinary_tract(1)	13	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)		Epithelial(14;7.4e-20)|OV - Ovarian serous cystadenocarcinoma(14;6.47e-19)|all cancers(14;4.17e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)			GGCCGAGGCTGTCAGCGGGGAG	0.589																																					NSCLC(103;173 2832 8890)											0																																										SO:0001652	inframe_insertion	7392			AY007087	CCDS12452.1, CCDS12453.1	19q13	2013-05-21				ENSG00000105698		"Basic helix-loop-helix proteins"	12594	protein-coding gene	gene with protein product		600390				8954795	Standard	NM_003367		Approved	FIP, bHLHb12	uc002nyq.1	Q15853		ENST00000222305.3:c.482_505dupTCAGCGGGGAGGCACGATTTGCCT	19.37:g.35761401_35761402insTCAGCGGGGAGGCACGATTTGCCT	ENSP00000222305:p.Val161_Ser162insSerGlyGluAlaArgPheAlaPhe	Somatic		WXS	Illumina HiSeq	Phase_1	O00671|O00709|Q05750|Q07952|Q15851|Q15852|Q6FI33|Q6YI47	In_Frame_Ins	INS	ENST00000222305.3	37	CCDS12452.1																																																																																				0.589	USF2-013	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466056.1	NM_003367		TCAGCGGGGAGGCACGATTTGCCT	35761402	-	TCAGCGGGGAGGCACGATTTGCCT	35761401	7	5	610	1	0	1	1	0	0	0	0	0	17045	1377	48	0	499	0	USF2	19	35761401	In_Frame_Ins	INS	-	TCGA-HE-A5NJ-01A-11D-A26P-10	18438555	35761401	23367582	75	37116										
MAP3K10	4294	hgsc.bcm.edu	37	chr19	40698281	40698281	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gctttggcaaggtctatcggGccctgtggcgtggcgaggag	18	9	1	0			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr19:40698281G>T	ENST00000253055.3	+	1	631	c.343G>T	c.(343-345)Gcc>Tcc	p.A115S	MAP3K10_ENST00000593906.1_3'UTR	NM_002446.3	NP_002437.2	Q02779	M3K10_HUMAN	mitogen-activated protein kinase kinase kinase 10	115	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of JNKK activity (GO:0007256)|activation of JUN kinase activity (GO:0007257)|apoptotic process (GO:0006915)|JNK cascade (GO:0007254)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription, DNA-templated (GO:0045892)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|positive regulation of apoptotic process (GO:0043065)|positive regulation of JNK cascade (GO:0046330)|positive regulation of JUN kinase activity (GO:0043507)|protein autophosphorylation (GO:0046777)|signal transduction (GO:0007165)|smoothened signaling pathway (GO:0007224)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|bHLH transcription factor binding (GO:0043425)|JUN kinase kinase kinase activity (GO:0004706)|protein homodimerization activity (GO:0042803)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|transcription corepressor activity (GO:0003714)			NS(1)|breast(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(5)|ovary(2)|pancreas(1)|prostate(1)|skin(2)	24						GGTCTATCGGGCCCTGTGGCG	0.687																																																0													33	38	36					19																	40698281		2202	4298	6500	SO:0001583	missense	4294			X90846	CCDS12549.1	19q13.2	2014-08-12			ENSG00000130758		2.7.11.1	"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6849	protein-coding gene	gene with protein product	"MKN28 kinase", "mixed lineage kinase 2", "MKN28 derived nonreceptor_type serine/threonine kinase"	600137		MLK2		8536694, 7731697	Standard	NM_002446		Approved	MST, MEKK10	uc002ona.3	Q02779	OTTHUMG00000182591	ENST00000253055.3:c.343G>T	19.37:g.40698281G>T	ENSP00000253055:p.Ala115Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q12761|Q14871	Missense_Mutation	SNP	ENST00000253055.3	37	CCDS12549.1	.	.	.	.	.	.	.	.	.	.	G	29.1	4.976122	0.92982	.	.	ENSG00000130758	ENST00000253055	D	0.84944	-1.92	4.3	4.3	0.51218	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.207947	0.38897	N	0.001532	D	0.89223	0.6654	M	0.63428	1.95	0.39678	D	0.970865	P	0.51933	0.949	P	0.58660	0.843	D	0.91138	0.4943	10	0.87932	D	0	.	14.3128	0.66426	0.0:0.0:1.0:0.0	.	115	Q02779	M3K10_HUMAN	S	115	ENSP00000253055:A115S	ENSP00000253055:A115S	A	+	1	0	MAP3K10	45390121	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.646000	0.98474	2.232000	0.73038	0.655000	0.94253	GCC		0.687	MAP3K10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462552.1	NM_002446		T	40698281	G	T	40698281	3	4	610	1	0	0	0	0	1	0	0	0	9251	1203	42	4	345	4	MAP3K10	19	40698281	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	4936880	40698281	18430702	76	37117										
CYP2A6	1548	ucsc.edu;bcgsc.ca	37	chr19	41349763	41349763	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	ggcaaagcccacgtgtttggGggacacgtcaatgtccttag	13	10	1	0	rs561053481	byFrequency	TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr19:41349763G>T	ENST00000301141.5	-	9	1443	c.1423C>A	c.(1423-1425)Ccc>Acc	p.P475T	CTC-490E21.12_ENST00000601627.1_Intron	NM_000762.5	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A, polypeptide 6	475					coumarin catabolic process (GO:0046226)|coumarin metabolic process (GO:0009804)|drug metabolic process (GO:0017144)|exogenous drug catabolic process (GO:0042738)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|xenobiotic metabolic process (GO:0006805)	cytoplasmic microtubule (GO:0005881)|endoplasmic reticulum membrane (GO:0005789)	coumarin 7-hydroxylase activity (GO:0008389)|enzyme binding (GO:0019899)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen (GO:0016712)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(7)|lung(9)|ovary(3)|prostate(5)|skin(2)|upper_aerodigestive_tract(2)	37			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Acetaminophen(DB00316)|Amiodarone(DB01118)|Amlodipine(DB00381)|Amobarbital(DB01351)|Amphetamine(DB00182)|Antipyrine(DB01435)|Arformoterol(DB01274)|Azelastine(DB00972)|Azithromycin(DB00207)|Buprenorphine(DB00921)|Bupropion(DB01156)|Chlorzoxazone(DB00356)|Cinnarizine(DB00568)|Cisapride(DB00604)|Clofibrate(DB00636)|Clomifene(DB00882)|Clotrimazole(DB00257)|Clozapine(DB00363)|Cyclophosphamide(DB00531)|Dapagliflozin(DB06292)|Desipramine(DB01151)|Dexamethasone(DB01234)|Dexfenfluramine(DB01191)|Diethylstilbestrol(DB00255)|Dronabinol(DB00470)|Eletriptan(DB00216)|Ezogabine(DB04953)|Flunarizine(DB04841)|Flunitrazepam(DB01544)|Fluorouracil(DB00544)|Flurazepam(DB00690)|Fomepizole(DB01213)|Formoterol(DB00983)|Halothane(DB01159)|Ifosfamide(DB01181)|Isoniazid(DB00951)|Ketoconazole(DB01026)|Letrozole(DB01006)|Lidocaine(DB00281)|Lorcaserin(DB04871)|Memantine(DB01043)|Menadione(DB00170)|Methimazole(DB00763)|Methoxsalen(DB00553)|Methoxyflurane(DB01028)|Metyrapone(DB01011)|Miconazole(DB01110)|Montelukast(DB00471)|Nevirapine(DB00238)|Nicotine(DB00184)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Norfloxacin(DB01059)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Pilocarpine(DB01085)|Prednisolone(DB00860)|Progesterone(DB00396)|Propofol(DB00818)|Rifampicin(DB01045)|Rosiglitazone(DB00412)|Selegiline(DB01037)|Sevoflurane(DB01236)|Sulfaphenazole(DB06729)|Tamoxifen(DB00675)|Tranylcypromine(DB00752)|Tretinoin(DB00755)|Troleandomycin(DB01361)|Valproic Acid(DB00313)|Zidovudine(DB00495)	ACGTGTTTGGGGGACACGTCA	0.602																																																0													213	159	177					19																	41349763		2202	4300	6502	SO:0001583	missense	1548			AF182275	CCDS12568.1	19q13.2	2013-11-11	2003-01-14		ENSG00000255974	ENSG00000255974		"Cytochrome P450s"	2610	protein-coding gene	gene with protein product		122720	"cytochrome P450, subfamily IIA (phenobarbital-inducible), polypeptide 6"	CYP2A3		7668294, 2748347	Standard	NM_000762		Approved	CPA6, CYP2A	uc002opl.4	P11509	OTTHUMG00000182713	ENST00000301141.5:c.1423C>A	19.37:g.41349763G>T	ENSP00000301141:p.Pro475Thr	Somatic		WXS	Illumina HiSeq		A7YAE5|B2R7F6|P00190|P10890|Q16803|Q4VAT9|Q4VAU0|Q4VAU1|Q9H1Z7|Q9UCU0|Q9UK48	Missense_Mutation	SNP	ENST00000301141.5	37	CCDS12568.1	.	.	.	.	.	.	.	.	.	.	-	22.8	4.342732	0.82022	.	.	ENSG00000255974	ENST00000301141	T	0.68624	-0.34	3.02	1.92	0.25849	.	0.064020	0.64402	U	0.000006	T	0.75140	0.3809	L	0.56340	1.77	0.33079	D	0.536371	D	0.89917	1.0	D	0.97110	1.0	T	0.79995	-0.1568	10	0.87932	D	0	.	10.8431	0.46728	0.0:0.1951:0.8049:0.0	.	475	P11509	CP2A6_HUMAN	T	475	ENSP00000301141:P475T	ENSP00000301141:P475T	P	-	1	0	CYP2A6	46041603	0.999000	0.42202	0.036000	0.18154	0.855000	0.48748	2.893000	0.48633	0.364000	0.24374	0.386000	0.25728	CCC		0.602	CYP2A6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463259.1	NM_000762		T	41349763	G	T	41349763	3	4	610	1	0	0	0	0	1	0	0	0	4164	1232	43	4	65	4	CYP2A6	19	41349763	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	651482	41349763	17779220	77	37118										
ZNF221	7638	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	44471195	44471195	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	atgtgaagagtgtggaaagaGatttactcagagttcacaac	11	5	2	4			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr19:44471195G>C	ENST00000251269.5	+	6	1869	c.1541G>C	c.(1540-1542)aGa>aCa	p.R514T	ZNF221_ENST00000587682.1_Missense_Mutation_p.R514T|ZNF221_ENST00000592350.1_Missense_Mutation_p.R514T	NM_013359.2	NP_037491	Q9UK13	ZN221_HUMAN	zinc finger protein 221	514					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(7)|lung(11)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	30		Prostate(69;0.0352)				TGTGGAAAGAGATTTACTCAG	0.428																																																0													94	89	91					19																	44471195		2203	4300	6503	SO:0001583	missense	7638			AF187987	CCDS12633.1	19q13.31	2013-01-08				ENSG00000159905		"Zinc fingers, C2H2-type", "-"	13014	protein-coding gene	gene with protein product							Standard	NM_013359		Approved		uc002oxx.2	Q9UK13		ENST00000251269.5:c.1541G>C	19.37:g.44471195G>C	ENSP00000251269:p.Arg514Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAI6|Q2M2H2|Q9P1U8	Missense_Mutation	SNP	ENST00000251269.5	37	CCDS12633.1	.	.	.	.	.	.	.	.	.	.	g	12.16	1.853235	0.32699	.	.	ENSG00000159905	ENST00000251269	T	0.16597	2.33	2.63	-1.52	0.08637	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.10895	0.0266	N	0.11870	0.19	0.09310	N	1	P	0.51240	0.943	P	0.48873	0.593	T	0.25152	-1.0140	9	0.38643	T	0.18	.	5.5077	0.16864	0.1145:0.0:0.5338:0.3517	.	514	Q9UK13	ZN221_HUMAN	T	514	ENSP00000251269:R514T	ENSP00000251269:R514T	R	+	2	0	ZNF221	49163035	0.000000	0.05858	0.000000	0.03702	0.888000	0.51559	0.114000	0.15520	-0.005000	0.14395	0.313000	0.20887	AGA		0.428	ZNF221-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460068.1			C	44471195	G	C	44471195	3	2	610	1	0	0	0	0	1	0	0	0	17787	942	33	4	1555	4	ZNF221	19	44471195	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	3121432	44471195	14657788	78	37119										
SEPT5	5413	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	19709430	19709430	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	gacctcaaggacgtgacgtgCgacgtgcactacgagaacta	12	11	1	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr22:19709430C>T	ENST00000455784.2	+	10	1025	c.900C>T	c.(898-900)tgC>tgT	p.C300C	SEPT5_ENST00000406395.1_Nonsense_Mutation_p.R297*|SEPT5_ENST00000383045.3_Silent_p.C309C|SEPT5_ENST00000438754.2_Nonsense_Mutation_p.R306*|GP1BB_ENST00000366425.3_5'Flank	NM_002688.5	NP_002679.2	Q99719	SEPT5_HUMAN	septin 5	300	Septin-type G.				cytokinesis (GO:0000910)|GTP catabolic process (GO:0006184)|regulation of exocytosis (GO:0017157)|regulation of synaptic vesicle exocytosis (GO:2000300)|synaptic vesicle targeting (GO:0016080)	plasma membrane (GO:0005886)|septin complex (GO:0031105)|synaptic vesicle (GO:0008021)|terminal bouton (GO:0043195)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural molecule activity (GO:0005198)			lung(1)|upper_aerodigestive_tract(1)	2	Colorectal(54;0.0993)					ACGTGACGTGCGACGTGCACT	0.662																																																0													58	52	54					22																	19709430		2203	4299	6502	SO:0001819	synonymous_variant	5413			Y11593	CCDS13764.1, CCDS56224.1	22q11.2	2013-01-21	2005-01-11	2005-01-12	ENSG00000184702	ENSG00000184702		"Septins"	9164	protein-coding gene	gene with protein product		602724	"peanut-like 1 (Drosophila)"	PNUTL1		9385360, 9611266	Standard	NM_002688		Approved	HCDCREL-1, H5		Q99719	OTTHUMG00000150399	ENST00000455784.2:c.900C>T	22.37:g.19709430C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O15251|Q96MY5	Nonsense_Mutation	SNP	ENST00000455784.2	37	CCDS13764.1	.	.	.	.	.	.	.	.	.	.	C	35	5.483869	0.96307	.	.	ENSG00000184702	ENST00000406395;ENST00000438754	.	.	.	3.66	-2.26	0.06867	.	.	.	.	.	.	.	.	.	.	.	0.58432	A	0.999992	.	.	.	.	.	.	.	.	.	.	0.11485	T	0.65	.	5.9818	0.19411	0.0:0.3259:0.1386:0.5355	.	.	.	.	X	297;306	.	ENSP00000384535:R297X	R	+	1	2	SEPT5	18089430	0.020000	0.18652	0.802000	0.32245	0.983000	0.72400	-0.876000	0.04201	-0.201000	0.10284	0.297000	0.19635	CGA		0.662	SEPT5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317937.1	NM_002688		T	19709430	C	T	19709430	2	4	610	1	0	0	0	0	0	0	0	1	14080	776	27	1		1	SEPT5	22	19709430	Silent	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10		19709430	31595136	79	37120										
MTMR3	8897	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	30416249	30416249	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	caaggtcatcatagatcttgCcttgtaaatagtggcaagga	10	7	3	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chr22:30416249C>T	ENST00000401950.2	+	17	2943	c.2601C>T	c.(2599-2601)tgC>tgT	p.C867C	CTA-85E5.10_ENST00000453743.2_RNA|MTMR3_ENST00000333027.3_Silent_p.C867C|MTMR3_ENST00000351488.3_Silent_p.C867C|MTMR3_ENST00000406629.1_Silent_p.C867C|MTMR3_ENST00000323630.5_Silent_p.C731C|CTA-85E5.10_ENST00000429350.1_RNA	NM_021090.3	NP_066576.1	Q13615	MTMR3_HUMAN	myotubularin related protein 3	867					peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phospholipid metabolic process (GO:0006644)|protein dephosphorylation (GO:0006470)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extrinsic component of membrane (GO:0019898)|membrane (GO:0016020)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity (GO:0052629)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)			breast(3)|large_intestine(3)|ovary(2)|skin(8)|upper_aerodigestive_tract(1)	17			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			ATAGATCTTGCCTTGTAAATA	0.512																																																0													69	65	66					22																	30416249		2203	4300	6503	SO:0001819	synonymous_variant	8897			U58034	CCDS13870.1, CCDS13871.1, CCDS46682.1	22q12.2	2011-06-09			ENSG00000100330	ENSG00000100330		"Zinc fingers, FYVE domain containing", "Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	7451	protein-coding gene	gene with protein product		603558				8640223, 9736772	Standard	NM_153050		Approved	KIAA0371, ZFYVE10, FYVE-DSP1	uc003agv.4	Q13615	OTTHUMG00000151278	ENST00000401950.2:c.2601C>T	22.37:g.30416249C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A5PL26|A7MD32|Q9NYN5|Q9NYN6|Q9UDX6|Q9UEG3	Silent	SNP	ENST00000401950.2	37	CCDS13870.1																																																																																				0.512	MTMR3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000322066.1	NM_021090		T	30416249	C	T	30416249	2	4	610	1	0	0	0	0	0	0	0	1	9952	747	26	2		2	MTMR3	22	30416249	Silent	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	10706819	30416249	20888317	80	37121										
POLA1	5422	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	24750526	24750526	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tggtccatcacagttttgcaTtggataaagcagccccaaag	9	10	1	0			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chrX:24750526T>A	ENST00000379059.3	+	16	1723	c.1708T>A	c.(1708-1710)Ttg>Atg	p.L570M	POLA1_ENST00000379068.3_Missense_Mutation_p.L576M|POLA1_ENST00000493342.1_3'UTR	NM_016937.3	NP_058633.2	P09884	DPOLA_HUMAN	polymerase (DNA directed), alpha 1, catalytic subunit	570					cell proliferation (GO:0008283)|DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA replication, synthesis of RNA primer (GO:0006269)|DNA strand elongation involved in DNA replication (GO:0006271)|double-strand break repair via nonhomologous end joining (GO:0006303)|G1/S transition of mitotic cell cycle (GO:0000082)|lagging strand elongation (GO:0006273)|leading strand elongation (GO:0006272)|mitotic cell cycle (GO:0000278)|nucleic acid phosphodiester bond hydrolysis (GO:0090305)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)|telomere maintenance (GO:0000723)|telomere maintenance via recombination (GO:0000722)|telomere maintenance via semi-conservative replication (GO:0032201)|translesion synthesis (GO:0019985)|viral process (GO:0016032)	alpha DNA polymerase:primase complex (GO:0005658)|cytoplasm (GO:0005737)|nuclear envelope (GO:0005635)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	3'-5' exonuclease activity (GO:0008408)|4 iron, 4 sulfur cluster binding (GO:0051539)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|DNA-directed DNA polymerase activity (GO:0003887)|metal ion binding (GO:0046872)|nucleoside binding (GO:0001882)|nucleotide binding (GO:0000166)|protein kinase binding (GO:0019901)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|ovary(2)|skin(2)	11					Cladribine(DB00242)|Clofarabine(DB00631)|Fludarabine(DB01073)|Nelarabine(DB01280)	CAGTTTTGCATTGGATAAAGC	0.398																																																0													189	158	168					X																	24750526		2203	4300	6503	SO:0001583	missense	5422				CCDS14214.1	Xp22.1-p21.3	2014-01-30	2008-08-07	2006-09-26	ENSG00000101868	ENSG00000101868	2.7.7.7	"DNA polymerases"	9173	protein-coding gene	gene with protein product		312040	"polymerase (DNA directed), alpha", "polymerase (DNA directed), alpha 1", "N syndrome (mental retardation, malformations, chromosome breakage)"	POLA, NSX		1689958	Standard	NM_016937		Approved	p180	uc004dbl.3	P09884	OTTHUMG00000021277	ENST00000379059.3:c.1708T>A	X.37:g.24750526T>A	ENSP00000368349:p.Leu570Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q86UQ7	Missense_Mutation	SNP	ENST00000379059.3	37	CCDS14214.1	.	.	.	.	.	.	.	.	.	.	T	14.44	2.534808	0.45073	.	.	ENSG00000101868	ENST00000379068;ENST00000379059	T;T	0.45276	0.9;0.9	5.42	0.376	0.16193	DNA-directed DNA polymerase, family B, exonuclease domain (1);Ribonuclease H-like (1);	0.268948	0.37483	N	0.002076	T	0.45357	0.1338	M	0.82323	2.585	0.33032	D	0.530339	B	0.32283	0.362	B	0.36244	0.22	T	0.54675	-0.8258	10	0.54805	T	0.06	-6.8741	9.4781	0.38884	0.0:0.4038:0.0:0.5962	.	570	P09884	DPOLA_HUMAN	M	576;570	ENSP00000368358:L576M;ENSP00000368349:L570M	ENSP00000368349:L570M	L	+	1	2	POLA1	24660447	0.321000	0.24625	0.054000	0.19295	0.938000	0.57974	0.682000	0.25335	-0.193000	0.10415	0.417000	0.27973	TTG		0.398	POLA1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000056111.1	NM_016937		A	24750526	T	A	24750526	3	1	610	1	0	0	0	0	1	0	0	0	12194	1490	52	5	1770	5	POLA1	23	24750526	Missense_Mutation	SNP	T	TCGA-HE-A5NJ-01A-11D-A26P-10		24750526	130520034	81	37122										
GATA1	2623	hgsc.bcm.edu	37	chrX	48652221	48652221	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tgaaccggccactgaccatgCggaaggatggtattcagact	12	10	1	3			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chrX:48652221C>T	ENST00000376670.3	+	6	1003	c.892C>T	c.(892-894)Cgg>Tgg	p.R298W	GATA1_ENST00000376665.3_Intron	NM_002049.3	NP_002040.1	P15976	GATA1_HUMAN	GATA binding protein 1 (globin transcription factor 1)	298					basophil differentiation (GO:0030221)|blood coagulation (GO:0007596)|cell-cell signaling (GO:0007267)|cellular response to thyroid hormone stimulus (GO:0097067)|dendritic cell differentiation (GO:0097028)|embryonic hemopoiesis (GO:0035162)|eosinophil differentiation (GO:0030222)|eosinophil fate commitment (GO:0035854)|erythrocyte development (GO:0048821)|erythrocyte differentiation (GO:0030218)|in utero embryonic development (GO:0001701)|male gonad development (GO:0008584)|megakaryocyte differentiation (GO:0030219)|negative regulation of apoptotic process (GO:0043066)|negative regulation of bone mineralization (GO:0030502)|negative regulation of cell proliferation (GO:0008285)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription regulatory region DNA binding (GO:2000678)|platelet aggregation (GO:0070527)|platelet formation (GO:0030220)|positive regulation of erythrocyte differentiation (GO:0045648)|positive regulation of osteoblast proliferation (GO:0033690)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of definitive erythrocyte differentiation (GO:0010724)|regulation of glycoprotein biosynthetic process (GO:0010559)|transcription from RNA polymerase II promoter (GO:0006366)|transcriptional activation by promoter-enhancer looping (GO:0071733)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)|transcriptional repressor complex (GO:0017053)	C2H2 zinc finger domain binding (GO:0070742)|chromatin DNA binding (GO:0031490)|DNA binding (GO:0003677)|DNA binding, bending (GO:0008301)|enhancer sequence-specific DNA binding (GO:0001158)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription factor binding (GO:0001085)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region sequence-specific DNA binding (GO:0000976)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(259)|large_intestine(8)|lung(9)|prostate(1)	283						ACTGACCATGCGGAAGGATGG	0.582			"Mis, F"		megakaryoblastic leukemia of Downs Syndrome																																Pancreas(9;429 505 11287 29617)		Dom	yes		X	Xp11.23	2623	GATA binding protein 1 (globin transcription factor 1)		L	0													21	20	21					X																	48652221		2203	4299	6502	SO:0001583	missense	2623			X17254	CCDS14305.1	Xp11.23	2014-09-17	2001-11-28		ENSG00000102145	ENSG00000102145		"GATA zinc finger domain containing"	4170	protein-coding gene	gene with protein product	"nuclear factor, erythroid 1"	305371	"GATA-binding protein 1 (globin transcription factor 1)"	GF1		1999341	Standard	NM_002049		Approved	ERYF1, NFE1, GATA-1, NF-E1	uc004dkq.4	P15976	OTTHUMG00000021504	ENST00000376670.3:c.892C>T	X.37:g.48652221C>T	ENSP00000365858:p.Arg298Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q96GB8	Missense_Mutation	SNP	ENST00000376670.3	37	CCDS14305.1	.	.	.	.	.	.	.	.	.	.	c	18.07	3.540683	0.65085	.	.	ENSG00000102145	ENST00000376670	D	0.99667	-6.34	4.21	-2.43	0.06522	Zinc finger, NHR/GATA-type (1);Zinc finger, GATA-type (2);	0.068357	0.56097	U	0.000034	D	0.99007	0.9661	L	0.28694	0.88	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	D	0.96825	0.9607	10	0.87932	D	0	-11.8489	14.9001	0.70672	0.8239:0.1761:0.0:0.0	.	298	P15976	GATA1_HUMAN	W	298	ENSP00000365858:R298W	ENSP00000365858:R298W	R	+	1	2	GATA1	48537165	0.693000	0.27728	0.976000	0.42696	0.976000	0.68499	-0.187000	0.09656	-1.041000	0.03266	0.365000	0.22127	CGG		0.582	GATA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056517.1	NM_002049		T	48652221	C	T	48652221	3	4	610	1	0	0	0	0	1	0	0	0	6260	759	27	1	910	1	GATA1	23	48652221	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	23901695	48652221	106618339	82	37123										
FAM155B	27112	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	68748896	68748896	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tgacccagcaggaatgccagCgctgggtgccctgcaagcaa	13	13	0	1			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chrX:68748896C>T	ENST00000252338.4	+	2	964	c.922C>T	c.(922-924)Cgc>Tgc	p.R308C		NM_015686.2	NP_056501.2	O75949	F155B_HUMAN	family with sequence similarity 155, member B	308						integral component of membrane (GO:0016021)				autonomic_ganglia(1)|breast(2)|endometrium(4)|large_intestine(2)|lung(4)|ovary(2)|pancreas(1)	16						GGAATGCCAGCGCTGGGTGCC	0.597																																																0													57	44	48					X																	68748896		2203	4300	6503	SO:0001583	missense	27112			AF087142	CCDS35317.1	Xq13.1	2008-04-15	2008-04-15	2008-04-15	ENSG00000130054	ENSG00000130054			30701	protein-coding gene	gene with protein product			"transmembrane protein 28", "chromosome X open reading frame 63"	TMEM28, CXorf63			Standard	NM_015686		Approved	TED	uc004dxk.3	O75949	OTTHUMG00000021756	ENST00000252338.4:c.922C>T	X.37:g.68748896C>T	ENSP00000252338:p.Arg308Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALV6|B9EGK1|D3DVU1	Missense_Mutation	SNP	ENST00000252338.4	37	CCDS35317.1	.	.	.	.	.	.	.	.	.	.	C	17.82	3.482094	0.63849	.	.	ENSG00000130054	ENST00000252338	T	0.12569	2.67	5.31	4.44	0.53790	.	0.417992	0.21811	N	0.068766	T	0.12220	0.0297	N	0.19112	0.55	0.38759	D	0.954299	D	0.57571	0.98	P	0.46049	0.502	T	0.06661	-1.0814	10	0.72032	D	0.01	-4.1926	12.3103	0.54925	0.1695:0.8305:0.0:0.0	.	308	O75949-2	.	C	308	ENSP00000252338:R308C	ENSP00000252338:R308C	R	+	1	0	FAM155B	68665621	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.899000	0.48679	0.993000	0.38866	0.523000	0.50628	CGC		0.597	FAM155B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057037.1	NM_015686		T	68748896	C	T	68748896	3	4	610	1	0	0	0	0	1	0	0	0	5470	768	27	1	928	1	FAM155B	23	68748896	Missense_Mutation	SNP	C	TCGA-HE-A5NJ-01A-11D-A26P-10	20096675	68748896	86521664	83	37124										
TBC1D8B	54885	broad.mit.edu	37	chrX	106109170	106109170	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.107142857142857	9	1	1.43539102818579	2.3391557496361	1.20299438552714	0.386996904024768	1	0	tgagtccctgggctcattctGcaaataaagactcactagct	8	11	3	2			TCGA-HE-A5NJ-01A-11D-A26P-10	TCGA-HE-A5NJ-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a9dbd55c-5dcc-48db-8785-6baef3fdd7db	de0653ad-a848-4f4b-b675-6cb625cb5167	g.chrX:106109170G>A	ENST00000357242.5	+	16	2743	c.2569G>A	c.(2569-2571)Gca>Aca	p.A857T	TBC1D8B_ENST00000276175.3_Missense_Mutation_p.A851T	NM_017752.2	NP_060222.2	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	857							calcium ion binding (GO:0005509)|Rab GTPase activator activity (GO:0005097)			NS(2)|breast(4)|central_nervous_system(1)|endometrium(3)|kidney(5)|large_intestine(6)|liver(4)|lung(15)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	47						GGCTCATTCTGCAAATAAAGA	0.408																																																0													136	119	125					X																	106109170		2203	4300	6503	SO:0001583	missense	54885			AK123957	CCDS14522.1, CCDS14523.1	Xq22.3	2013-01-10			ENSG00000133138	ENSG00000133138		"EF-hand domain containing"	24715	protein-coding gene	gene with protein product						8889548	Standard	NM_017752		Approved	FLJ20298, RP11-321G1.1	uc004emo.3	Q0IIM8	OTTHUMG00000022152	ENST00000357242.5:c.2569G>A	X.37:g.106109170G>A	ENSP00000349781:p.Ala857Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B9A6K5|B9A6K6|Q5JRB7|Q6ZVX5|Q9NXE3	Missense_Mutation	SNP	ENST00000357242.5	37	CCDS14522.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	10.04|10.04	1.241609|1.241609	0.22711|0.22711	.|.	.|.	ENSG00000133138|ENSG00000133138	ENST00000357242;ENST00000276175;ENST00000394972|ENST00000431860	T;T|.	0.30182|.	1.54;1.54|.	5.71|5.71	4.83|4.83	0.62350|0.62350	EF-hand-like domain (1);|.	0.116831|.	0.64402|.	D|.	0.000017|.	T|T	0.59595|0.59595	0.2205|0.2205	L|L	0.43598|0.43598	1.365|1.365	0.44282|0.44282	D|D	0.997149|0.997149	B|.	0.18461|.	0.028|.	B|.	0.15870|.	0.014|.	T|T	0.55496|0.55496	-0.8132|-0.8132	10|5	0.07175|.	T|.	0.84|.	-8.178|-8.178	14.2281|14.2281	0.65873|0.65873	0.0:0.1465:0.8535:0.0|0.0:0.1465:0.8535:0.0	.|.	857|.	Q0IIM8|.	TBC8B_HUMAN|.	T|Y	857;851;119|119	ENSP00000349781:A857T;ENSP00000276175:A851T|.	ENSP00000276175:A851T|.	A|C	+|+	1|2	0|0	TBC1D8B|TBC1D8B	105995826|105995826	1.000000|1.000000	0.71417|0.71417	0.999000|0.999000	0.59377|0.59377	0.899000|0.899000	0.52679|0.52679	3.852000|3.852000	0.55934|0.55934	1.125000|1.125000	0.41998|0.41998	0.594000|0.594000	0.82650|0.82650	GCA|TGC		0.408	TBC1D8B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000057807.2	NM_017752		A	106109170	G	A	106109170	3	1	610	1	0	0	0	0	1	0	0	0	15638	1319	46	2	2697	2	TBC1D8B	23	106109170	Missense_Mutation	SNP	G	TCGA-HE-A5NJ-01A-11D-A26P-10	37360274	106109170	49161390	84	37125										
DDI2	84301	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	15956933	15956933	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ctcctggagaaataacttcaTctcctcagggcttggacaat	8	11	3	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr1:15956933T>G	ENST00000480945.1	+	3	553	c.382T>G	c.(382-384)Tct>Gct	p.S128A		NM_032341.4	NP_115717.3	Q5TDH0	DDI2_HUMAN	DNA-damage inducible 1 homolog 2 (S. cerevisiae)	128							aspartic-type endopeptidase activity (GO:0004190)			breast(1)|central_nervous_system(2)|endometrium(2)|large_intestine(2)|lung(7)|pancreas(1)|prostate(1)|stomach(1)	17		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00327)|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;9.03e-07)|COAD - Colon adenocarcinoma(227;4.48e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00773)|READ - Rectum adenocarcinoma(331;0.0656)		AATAACTTCATCTCCTCAGGG	0.552																																																0													95	87	90					1																	15956933		2203	4300	6503	SO:0001583	missense	84301				CCDS30607.1	1p36.13	2010-05-04	2010-05-04		ENSG00000197312	ENSG00000197312			24578	protein-coding gene	gene with protein product			"DDI1, DNA-damage inducible 1, homolog 2 (S. cerevisiae)"				Standard	NM_032341		Approved	MGC14844	uc001awx.2	Q5TDH0	OTTHUMG00000002381	ENST00000480945.1:c.382T>G	1.37:g.15956933T>G	ENSP00000417748:p.Ser128Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAE1|Q7RTZ0|Q9BRT1	Missense_Mutation	SNP	ENST00000480945.1	37	CCDS30607.1	.	.	.	.	.	.	.	.	.	.	T	14.20	2.463776	0.43736	.	.	ENSG00000197312	ENST00000480945	T	0.23348	1.91	5.67	4.53	0.55603	.	0.259165	0.39341	U	0.001400	T	0.13030	0.0316	N	0.12182	0.205	0.31118	N	0.709206	B	0.02656	0.0	B	0.01281	0.0	T	0.17776	-1.0358	10	0.08381	T	0.77	-21.6366	11.9893	0.53166	0.1297:0.0:0.0:0.8703	.	128	Q5TDH0	DDI2_HUMAN	A	128	ENSP00000417748:S128A	ENSP00000449475:S13A	S	+	1	0	DDI2	15829520	1.000000	0.71417	0.774000	0.31636	0.995000	0.86356	4.722000	0.61958	0.949000	0.37715	0.528000	0.53228	TCT		0.552	DDI2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006826.1	NM_032341		G	15956933	T	G	15956933	3	3	611	1	0	0	0	0	1	0	0	0	4331	1435	50	5	392	5	DDI2	1	15956933	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10		15956933	233293688	1	37126										
C1orf213	80818	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	23696043	23696043	+	5'Flank	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tagacttgcaggcgaagcccAgatatcgtaggctgatccta	11	10	0	3			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr1:23696043A>C	ENST00000314011.4	-	0	0				ZNF436_ENST00000374608.3_5'Flank|C1orf213_ENST00000454117.1_Intron|C1orf213_ENST00000335648.3_Silent_p.R85R|C1orf213_ENST00000518821.1_Intron|C1orf213_ENST00000458053.1_Intron|Y_RNA_ENST00000364535.1_RNA|C1orf213_ENST00000437367.2_Intron	NM_001077195.1	NP_001070663.1	Q9C0F3	ZN436_HUMAN	zinc finger protein 436						regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(2)|lung(8)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	19		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;5.97e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000977)|KIRC - Kidney renal clear cell carcinoma(1967;0.00336)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		GGCGAAGCCCAGATATCGTAG	0.562																																																0													66	67	67					1																	23696043		2203	4300	6503	SO:0001631	upstream_gene_variant	148898			AB051497	CCDS233.1	1p36	2013-01-08			ENSG00000125945	ENSG00000125945		"Zinc fingers, C2H2-type", "-"	20814	protein-coding gene	gene with protein product		611703				11214970	Standard	NM_001077195		Approved	KIAA1710, Zfp46	uc001bgt.3	Q9C0F3	OTTHUMG00000003232		1.37:g.23696043A>C	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	Q658I9	RNA	SNP	ENST00000314011.4	37	CCDS233.1																																																																																				0.562	ZNF436-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008908.1	NM_030634		C	23696043	A	C	23696043	1	2	611	0	1	0	0	0	0	0	0	0	2032	180	7	5		5	C1orf213	1	23696043	5'Flank	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	7739110	23696043	225554578	2	37127										
C1orf173	127254	broad.mit.edu	37	chr1	75038719	75038719	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	aaccctgttccccttcagaaGctgctttgtctgtctcaagc	7	14	3	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr1:75038719G>A	ENST00000326665.5	-	14	2893	c.2675C>T	c.(2674-2676)gCt>gTt	p.A892V	C1orf173_ENST00000433746.2_5'UTR	NM_001002912.4	NP_001002912.4	Q5RHP9	ERIC3_HUMAN		892	Glu-rich.									NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(23)|lung(123)|ovary(3)|prostate(10)|skin(10)|stomach(1)|upper_aerodigestive_tract(5)	184						CCCTTCAGAAGCTGCTTTGTC	0.498																																																0													248	246	247					1																	75038719		2203	4300	6503	SO:0001583	missense	127254																														ENST00000326665.5:c.2675C>T	1.37:g.75038719G>A	ENSP00000322609:p.Ala892Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DL8|Q6GMR8|Q6ZSF9|Q8ND41	Missense_Mutation	SNP	ENST00000326665.5	37	CCDS30755.1	.	.	.	.	.	.	.	.	.	.	G	10.66	1.413575	0.25465	.	.	ENSG00000178965	ENST00000326665	T	0.12984	2.63	5.37	-7.67	0.01272	.	.	.	.	.	T	0.01835	0.0058	L	0.36672	1.1	0.09310	N	1	B	0.13594	0.008	B	0.14578	0.011	T	0.44605	-0.9317	9	0.22109	T	0.4	-0.0472	0.526	0.00620	0.2864:0.2006:0.3108:0.2021	.	892	Q5RHP9	CA173_HUMAN	V	892	ENSP00000322609:A892V	ENSP00000322609:A892V	A	-	2	0	C1orf173	74811307	0.000000	0.05858	0.000000	0.03702	0.007000	0.05969	-1.399000	0.02506	-1.229000	0.02564	0.563000	0.77884	GCT		0.498	C1orf173-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026516.1			A	75038719	G	A	75038719	3	1	611	1	0	0	0	0	1	0	0	0	2016	971	34	2	1921	2	C1orf173	1	75038719	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	51342676	75038719	174211902	3	37128										
FUBP1	8880	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	78414969	78414969	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	cctggaggagccccagtcggAgcaggaactgcctgaccttt	13	13	0	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr1:78414969A>G	ENST00000370768.2	-	19	1878	c.1797T>C	c.(1795-1797)gcT>gcC	p.A599A	FUBP1_ENST00000489495.1_5'Flank|FUBP1_ENST00000370767.1_Silent_p.A599A|FUBP1_ENST00000436586.2_Silent_p.A620A	NM_003902.3	NP_003893.2	Q96AE4	FUBP1_HUMAN	far upstream element (FUSE) binding protein 1	599					positive regulation of gene expression (GO:0010628)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001205)|sequence-specific DNA binding transcription factor activity (GO:0003700)|single-stranded DNA binding (GO:0003697)			central_nervous_system(7)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(4)|lung(1)|upper_aerodigestive_tract(3)	17						CCCCAGTCGGAGCAGGAACTG	0.448			"F, N"		oligodendroglioma																																		Rec	yes		1	1p13.1	8880	far upstream element (FUSE) binding protein 1		O	0													64	69	67					1																	78414969		2203	4300	6503	SO:0001819	synonymous_variant	8880			U05040	CCDS683.1	1p31.1	2008-02-05			ENSG00000162613	ENSG00000162613			4004	protein-coding gene	gene with protein product		603444		FUBP		8125259	Standard	XM_005271309		Approved	FBP	uc001dii.3	Q96AE4	OTTHUMG00000040799	ENST00000370768.2:c.1797T>C	1.37:g.78414969A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q12828	Silent	SNP	ENST00000370768.2	37	CCDS683.1																																																																																				0.448	FUBP1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098030.3	NM_003902		G	78414969	A	G	78414969	2	3	611	1	0	0	0	0	0	0	0	1	6099	291	11	3		3	FUBP1	1	78414969	Silent	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	3376250	78414969	170835652	4	37129										
RBMXL1	494115	broad.mit.edu	37	chr1	89449426	89449426	+	Frame_Shift_Del	DEL	A	A	-													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	actattcgtccatatttgccAaatactgtttcaagagcttt							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr1:89449426delA	ENST00000321792.5	-	2	511	c.84delT	c.(82-84)tttfs	p.F28fs	RBMXL1_ENST00000399794.2_Frame_Shift_Del_p.F28fs|CCBL2_ENST00000446900.2_Intron|CCBL2_ENST00000260508.4_Intron|RBMXL1_ENST00000413769.1_5'UTR|CCBL2_ENST00000370491.3_Intron|CCBL2_ENST00000370485.2_Intron	NM_019610.5	NP_062556.2	Q96E39	RMXL1_HUMAN	RNA binding motif protein, X-linked-like 1	28	RRM. {ECO:0000255|PROSITE- ProRule:PRU00176}.				mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|RNA binding (GO:0003723)										CATATTTGCCAAATACTGTTT	0.413											OREG0013593	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													191	187	188					1																	89449426		2203	4300	6503	SO:0001589	frameshift_variant	494115			BC012942	CCDS716.1	1p22.2	2013-02-12	2007-01-04	2007-01-04	ENSG00000213516	ENSG00000213516		"RNA binding motif (RRM) containing"	25073	protein-coding gene	gene with protein product	"kynurenine aminotransferase III"					10441733	Standard	NM_019610		Approved	KAT3	uc001dms.3	Q96E39	OTTHUMG00000010661	ENST00000321792.5:c.84delT	1.37:g.89449426delA	ENSP00000318415:p.Phe28fs	Somatic	1267	WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000321792.5	37	CCDS716.1																																																																																				0.413	RBMXL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029403.3	NM_019610		-	89449426	A	-	89449426	7	5	611	1	0	1	0	1	0	0	0	0	13166	127	5	0	1092	0	RBMXL1	1	89449426	Frame_Shift_Del	DEL	A	TCGA-HE-A5NK-01A-11D-A26P-10	11034457	89449426	159801195	5	37130										
LRRC8C	84230	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	90179188	90179188	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	cgggaatattcctttgagtaTgtccgtcaggagactggaat	12	7	1	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr1:90179188T>C	ENST00000370454.4	+	3	1314	c.1059T>C	c.(1057-1059)taT>taC	p.Y353Y	RP11-302M6.4_ENST00000370453.5_Intron|LRRC8C_ENST00000479252.1_Intron	NM_032270.4	NP_115646	Q8TDW0	LRC8C_HUMAN	leucine rich repeat containing 8 family, member C	353					fat cell differentiation (GO:0045444)|ion transport (GO:0006811)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)				breast(1)|central_nervous_system(1)|large_intestine(5)|lung(10)|ovary(3)|pancreas(1)|prostate(1)|skin(5)|urinary_tract(1)	28		all_lung(203;0.126)		all cancers(265;0.00756)|Epithelial(280;0.0313)		CCTTTGAGTATGTCCGTCAGG	0.388																																																0													54	50	51					1																	90179188		2203	4299	6502	SO:0001819	synonymous_variant	84230				CCDS725.1	1p22.2	2011-02-10			ENSG00000171488	ENSG00000171488			25075	protein-coding gene	gene with protein product	"hypothetical protein AD158"	612889				11230166	Standard	NM_032270		Approved	AD158	uc001dnl.4	Q8TDW0	OTTHUMG00000010305	ENST00000370454.4:c.1059T>C	1.37:g.90179188T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KXS9|Q29RV6|Q9H075	Silent	SNP	ENST00000370454.4	37	CCDS725.1																																																																																				0.388	LRRC8C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000028435.2	NM_032270		C	90179188	T	C	90179188	2	2	611	1	0	0	0	0	0	0	0	1	9030	1471	51	3		3	LRRC8C	1	90179188	Silent	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	729762	90179188	159071433	6	37131										
IQGAP3	128239	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	156517916	156517917	+	Frame_Shift_Del	DEL	AG	AG	-													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ctcagaaagtgggaatgctcAgcaaacttctgccgaactag							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr1:156517916_156517917delAG	ENST00000361170.2	-	19	2262_2263	c.2252_2253delCT	c.(2251-2253)gctfs	p.A751fs		NM_178229.4	NP_839943.2	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	751	IQ 1. {ECO:0000255|PROSITE- ProRule:PRU00116}.				activation of MAPK activity (GO:0000187)|cellular response to organic substance (GO:0071310)|ERK1 and ERK2 cascade (GO:0070371)|G1/S transition of mitotic cell cycle (GO:0000082)|negative regulation of gene expression (GO:0010629)|positive regulation of gene expression (GO:0010628)|positive regulation of mammary gland epithelial cell proliferation (GO:0033601)|Ras protein signal transduction (GO:0007265)|regulation of cell size (GO:0008361)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|lateral plasma membrane (GO:0016328)	Ras GTPase activator activity (GO:0005099)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(8)|kidney(2)|large_intestine(14)|lung(29)|ovary(5)|prostate(5)|skin(5)|urinary_tract(3)	75	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GGGAATGCTCAGCAAACTTCTG	0.579																																																0																																										SO:0001589	frameshift_variant	128239			AY253300	CCDS1144.1	1q21.3	2008-02-05			ENSG00000183856	ENSG00000183856			20669	protein-coding gene	gene with protein product							Standard	NM_178229		Approved		uc001fpf.3	Q86VI3	OTTHUMG00000033114	ENST00000361170.2:c.2252_2253delCT	1.37:g.156517916_156517917delAG	ENSP00000354451:p.Ala751fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3H8	Frame_Shift_Del	DEL	ENST00000361170.2	37	CCDS1144.1																																																																																				0.579	IQGAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080657.1	NM_178229		-	156517917	AG	-	156517916	7	5	611	1	0	1	0	1	0	0	0	0	7823	175	7	0	2722	0	IQGAP3	1	156517916	Frame_Shift_Del	DEL	AG	TCGA-HE-A5NK-01A-11D-A26P-10	66338728	156517916	92732705	7	37132										
LY9	4063	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	160786562	160786562	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	cacctcaatgtctcatggagAagcagtgaaaatcaccccaa	7	12	3	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr1:160786562A>C	ENST00000263285.6	+	5	1281	c.1251A>C	c.(1249-1251)agA>agC	p.R417S	LY9_ENST00000341032.4_Intron|LY9_ENST00000392203.4_Intron|LY9_ENST00000368040.1_Missense_Mutation_p.R69S|LY9_ENST00000368037.5_Missense_Mutation_p.R417S|LY9_ENST00000368041.2_Intron			Q9HBG7	LY9_HUMAN	lymphocyte antigen 9	417	Ig-like C2-type 2.				cell adhesion (GO:0007155)	integral component of membrane (GO:0016021)	receptor activity (GO:0004872)			autonomic_ganglia(1)|breast(1)|endometrium(4)|kidney(3)|large_intestine(5)|lung(17)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	36	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			TCTCATGGAGAAGCAGTGAAA	0.527																																																0													159	138	145					1																	160786562		2203	4300	6503	SO:0001583	missense	4063			L42621	CCDS30916.1, CCDS30917.1, CCDS65695.1, CCDS65696.1	1q23.3	2013-01-11			ENSG00000122224	ENSG00000122224		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6730	protein-coding gene	gene with protein product		600684				8537117, 7797269	Standard	NM_001261457		Approved	CD229, mLY9, SLAMF3, hly9	uc001fwu.4	Q9HBG7	OTTHUMG00000024007	ENST00000263285.6:c.1251A>C	1.37:g.160786562A>C	ENSP00000263285:p.Arg417Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7N3|Q14775|Q5VYI3|Q6P2J4|Q9H4N5|Q9NQ24	Missense_Mutation	SNP	ENST00000263285.6	37	CCDS30916.1	.	.	.	.	.	.	.	.	.	.	A	10.24	1.295086	0.23564	.	.	ENSG00000122224	ENST00000368041;ENST00000368040;ENST00000263285;ENST00000368037;ENST00000368035	T;T;T	0.37235	1.21;1.21;1.21	4.75	-0.968	0.10313	Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.07818	0.0196	L	0.41573	1.285	0.09310	N	1	B;B;B	0.22909	0.024;0.063;0.077	B;B;B	0.25405	0.06;0.022;0.038	T	0.37979	-0.9682	9	0.14252	T	0.57	-1.3404	2.8809	0.05647	0.461:0.0:0.1909:0.3481	.	69;417;417	Q5VYI1;Q9HBG7-2;Q9HBG7	.;.;LY9_HUMAN	S	417;69;417;377;69	ENSP00000357019:R69S;ENSP00000263285:R417S;ENSP00000357014:R69S	ENSP00000263285:R417S	R	+	3	2	LY9	159053186	0.000000	0.05858	0.003000	0.11579	0.128000	0.20619	0.088000	0.14979	-0.120000	0.11809	0.455000	0.32223	AGA		0.527	LY9-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000060457.3	NM_002348		C	160786562	A	C	160786562	3	2	611	1	0	0	0	0	1	0	0	0	9108	243	9	5	1401	5	LY9	1	160786562	Missense_Mutation	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	4268646	160786562	88464059	8	37133										
SLC19A2	10560	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	169446750	169446750	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	actttctggtacatgcccagGtccaccacactgtagatata	7	12	1	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr1:169446750G>A	ENST00000236137.5	-	2	686	c.450C>T	c.(448-450)gaC>gaT	p.D150D	SLC19A2_ENST00000367804.4_Intron	NM_006996.2	NP_008927.1	O60779	S19A2_HUMAN	solute carrier family 19 (thiamine transporter), member 2	150					folic acid transport (GO:0015884)|small molecule metabolic process (GO:0044281)|thiamine transport (GO:0015888)|thiamine-containing compound metabolic process (GO:0042723)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	folic acid transporter activity (GO:0008517)|thiamine transmembrane transporter activity (GO:0015234)|thiamine uptake transmembrane transporter activity (GO:0015403)			breast(2)|central_nervous_system(1)|endometrium(2)|large_intestine(3)|lung(2)|upper_aerodigestive_tract(1)	11	all_hematologic(923;0.208)				Thiamine(DB00152)	ACATGCCCAGGTCCACCACAC	0.478																																																0													93	96	95					1																	169446750		2203	4300	6503	SO:0001819	synonymous_variant	10560			AF135488	CCDS1280.1	1q23.3	2013-05-22			ENSG00000117479	ENSG00000117479		"Solute carriers"	10938	protein-coding gene	gene with protein product		603941		TRMA		9399900, 10391221	Standard	NM_006996		Approved	THTR1	uc001gge.4	O60779	OTTHUMG00000035452	ENST00000236137.5:c.450C>T	1.37:g.169446750G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9H0|B4E1X4|Q8WV87|Q9UBL7|Q9UKJ2|Q9UN31|Q9UN43	Silent	SNP	ENST00000236137.5	37	CCDS1280.1																																																																																				0.478	SLC19A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086106.1	NM_006996		A	169446750	G	A	169446750	2	1	611	1	0	0	0	0	0	0	0	1	14442	1252	44	2		2	SLC19A2	1	169446750	Silent	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	8660188	169446750	79803871	9	37134										
CACNA1E	777	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	181701628	181701628	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gccctcaacagagaggaggcGccgaccatgaacccgctcaa	11	15	2	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr1:181701628G>A	ENST00000367573.2	+	20	2406	c.2406G>A	c.(2404-2406)gcG>gcA	p.A802A	CACNA1E_ENST00000526775.1_Silent_p.A783A|CACNA1E_ENST00000367567.4_Silent_p.A409A|CACNA1E_ENST00000360108.3_Silent_p.A783A|CACNA1E_ENST00000367570.1_Silent_p.A802A|CACNA1E_ENST00000357570.5_Silent_p.A753A|CACNA1E_ENST00000358338.5_Silent_p.A734A	NM_001205293.1	NP_001192222.1	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type, alpha 1E subunit	802					calcium ion import (GO:0070509)|energy reserve metabolic process (GO:0006112)|membrane depolarization (GO:0051899)|membrane depolarization during action potential (GO:0086010)|regulation of insulin secretion (GO:0050796)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transport (GO:0006810)	plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	calcium ion binding (GO:0005509)|high voltage-gated calcium channel activity (GO:0008331)|voltage-gated calcium channel activity (GO:0005245)			NS(2)|breast(9)|central_nervous_system(3)|cervix(1)|endometrium(22)|haematopoietic_and_lymphoid_tissue(6)|kidney(4)|large_intestine(34)|lung(99)|ovary(6)|pancreas(1)|prostate(9)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	204						GAGAGGAGGCGCCGACCATGa	0.657																																																0													39	57	51					1																	181701628		1759	3301	5060	SO:0001819	synonymous_variant	777			AK096563	CCDS53443.1, CCDS55664.1, CCDS55665.1	1q25.3	2013-01-10	2007-02-16		ENSG00000198216	ENSG00000198216		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels", "EF-hand domain containing"	1392	protein-coding gene	gene with protein product		601013		CACNL1A6		8388125, 16382099	Standard	NM_001205293		Approved	Cav2.3, BII, CACH6	uc009wxt.3	Q15878	OTTHUMG00000037301	ENST00000367573.2:c.2406G>A	1.37:g.181701628G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B1AM12|B1AM13|B1AM14|Q14580|Q14581	Silent	SNP	ENST00000367573.2	37	CCDS55664.1																																																																																				0.657	CACNA1E-003	KNOWN	non_canonical_U12|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000090793.2	NM_000721		A	181701628	G	A	181701628	2	1	611	1	0	0	0	0	0	0	0	1	2544	1074	38	1		1	CACNA1E	1	181701628	Silent	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	12254878	181701628	67548993	10	37135										
CABC1	56997	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	227172964	227172964	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	cctctccccagatcatcaggGctgctgccgacagggacagg	12	15	3	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr1:227172964G>A	ENST00000366779.1	+	19	4353	c.1582G>A	c.(1582-1584)Gct>Act	p.A528T	ADCK3_ENST00000478406.1_3'UTR|ADCK3_ENST00000458507.2_Missense_Mutation_p.A249T|ADCK3_ENST00000433743.2_Missense_Mutation_p.A202T|ADCK3_ENST00000366778.1_Missense_Mutation_p.A476T|ADCK3_ENST00000366777.3_Missense_Mutation_p.A528T			Q8NI60	ADCK3_HUMAN	aarF domain containing kinase 3	528					cell death (GO:0008219)|ubiquinone biosynthetic process (GO:0006744)	mitochondrion (GO:0005739)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			endometrium(1)|kidney(2)|large_intestine(1)|prostate(1)|skin(1)|stomach(1)|urinary_tract(2)	9						GATCATCAGGGCTGCTGCCGA	0.632																																																0													119	116	117					1																	227172964		2203	4300	6503	SO:0001583	missense	56997			AJ278126	CCDS1557.1	1q42.11	2011-05-03	2010-10-01	2010-10-01	ENSG00000163050	ENSG00000163050			16812	protein-coding gene	gene with protein product	"coenzyme Q8 homolog (yeast)"	606980	"chaperone-ABC1 (activity of bc1 complex, S.pombe)-like", "chaperone, ABC1 activity of bc1 complex like (S. pombe)", "chaperone, ABC1 activity of bc1 complex homolog (S. pombe)"	CABC1			Standard	NM_020247		Approved	COQ8, SCAR9	uc001hqn.1	Q8NI60	OTTHUMG00000037621	ENST00000366779.1:c.1582G>A	1.37:g.227172964G>A	ENSP00000355741:p.Ala528Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T7A5|Q63HK0|Q8NCJ6|Q9HBQ1|Q9NQ67	Missense_Mutation	SNP	ENST00000366779.1	37	CCDS1557.1	.	.	.	.	.	.	.	.	.	.	G	29.3	4.998025	0.93227	.	.	ENSG00000163050	ENST00000366779;ENST00000366778;ENST00000366777;ENST00000366776;ENST00000458507;ENST00000366775;ENST00000405743;ENST00000433743	T;T;T;T;T;T;T	0.61510	0.1;0.1;0.1;0.1;0.1;0.1;0.1	5.69	5.69	0.88448	.	0.105243	0.64402	D	0.000005	D	0.82554	0.5062	H	0.94847	3.59	0.58432	D	0.999995	D;D	0.64830	0.982;0.994	P;D	0.63033	0.796;0.91	D	0.87070	0.2159	10	0.87932	D	0	-11.9896	19.815	0.96564	0.0:0.0:1.0:0.0	.	202;528	E7EVZ8;Q8NI60	.;ADCK3_HUMAN	T	528;476;528;453;249;373;479;202	ENSP00000355741:A528T;ENSP00000355740:A476T;ENSP00000355739:A528T;ENSP00000355738:A453T;ENSP00000403704:A249T;ENSP00000355737:A373T;ENSP00000404550:A202T	ENSP00000355737:A373T	A	+	1	0	ADCK3	225239587	1.000000	0.71417	1.000000	0.80357	0.900000	0.52787	3.953000	0.56699	2.681000	0.91329	0.561000	0.74099	GCT		0.632	ADCK3-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091712.1	NM_020247		A	227172964	G	A	227172964	3	1	611	1	0	0	0	0	1	0	0	0	2529	1203	42	2	1632	2	CABC1	1	227172964	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	45471336	227172964	22077657	11	37136										
FMN2	56776	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	240370577	240370577	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ccttctgtggtctgctgggcAaggacagcctgggtcacagc	14	12	3	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr1:240370577A>T	ENST00000319653.9	+	5	2695	c.2465A>T	c.(2464-2466)cAa>cTa	p.Q822L		NM_020066.4	NP_064450.3	Q9NZ56	FMN2_HUMAN	formin 2	822	FH1.|Pro-rich.				cellular response to DNA damage stimulus (GO:0006974)|cellular response to hypoxia (GO:0071456)|establishment of meiotic spindle localization (GO:0051295)|formin-nucleated actin cable assembly (GO:0070649)|homologous chromosome movement towards spindle pole involved in homologous chromosome segregation (GO:0051758)|intracellular signal transduction (GO:0035556)|intracellular transport (GO:0046907)|multicellular organismal development (GO:0007275)|negative regulation of apoptotic process (GO:0043066)|negative regulation of protein catabolic process (GO:0042177)|oogenesis (GO:0048477)|polar body extrusion after meiotic divisions (GO:0040038)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	cell cortex (GO:0005938)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|microvillus (GO:0005902)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)|spindle (GO:0005819)	actin binding (GO:0003779)			NS(1)|breast(7)|central_nervous_system(6)|cervix(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(13)|lung(87)|ovary(6)|pancreas(3)|prostate(12)|skin(7)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(2)	178	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TCTGCTGGGCAAGGACAGCCT	0.537																																																0													74	71	72					1																	240370577		2203	4300	6503	SO:0001583	missense	56776			AF218942	CCDS31069.2	1q43	2008-02-05			ENSG00000155816	ENSG00000155816			14074	protein-coding gene	gene with protein product		606373				10781961	Standard	NM_020066		Approved		uc010pyd.2	Q9NZ56	OTTHUMG00000039883	ENST00000319653.9:c.2465A>T	1.37:g.240370577A>T	ENSP00000318884:p.Gln822Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B0QZA7|B4DP05|Q59GF6|Q5VU37|Q9NZ55	Missense_Mutation	SNP	ENST00000319653.9	37	CCDS31069.2	.	.	.	.	.	.	.	.	.	.	A	7.760	0.705185	0.15172	.	.	ENSG00000155816	ENST00000319653	T	0.31510	1.49	4.09	4.09	0.47781	Actin-binding FH2/DRF autoregulatory (1);	0.425372	0.19864	N	0.104352	T	0.30823	0.0777	L	0.57536	1.79	0.80722	D	1	B	0.30482	0.281	B	0.32533	0.147	T	0.07849	-1.0751	9	.	.	.	.	12.1017	0.53788	1.0:0.0:0.0:0.0	.	822	Q9NZ56	FMN2_HUMAN	L	822	ENSP00000318884:Q822L	.	Q	+	2	0	FMN2	238437200	0.247000	0.23920	0.447000	0.26932	0.071000	0.16799	1.728000	0.38105	1.842000	0.53543	0.454000	0.30748	CAA		0.537	FMN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096217.2	XM_371352		T	240370577	A	T	240370577	3	4	611	1	0	0	0	0	1	0	0	0	5957	130	5	5	2483	5	FMN2	1	240370577	Missense_Mutation	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	13197613	240370577	8880044	12	37137										
KIDINS220	57498	broad.mit.edu	37	chr2	8919107	8919107	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	attgcttagtccacgactatTaaggaacacaggcaagtgga	10	8	0	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr2:8919107T>A	ENST00000256707.3	-	19	2714	c.2533A>T	c.(2533-2535)Aat>Tat	p.N845Y	KIDINS220_ENST00000473731.1_Missense_Mutation_p.N845Y|KIDINS220_ENST00000418530.1_Missense_Mutation_p.N803Y|KIDINS220_ENST00000427284.1_Missense_Mutation_p.N845Y|KIDINS220_ENST00000319688.5_Missense_Mutation_p.N846Y	NM_020738.2	NP_065789.1	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate, 220kDa	845	KAP NTPase.				activation of MAPKK activity (GO:0000186)|cellular response to nerve growth factor stimulus (GO:1990090)|cytoplasmic transport (GO:0016482)|dendrite morphogenesis (GO:0048813)|in utero embryonic development (GO:0001701)|nerve growth factor signaling pathway (GO:0038180)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of neuron projection development (GO:0010976)	cytosol (GO:0005829)|integral component of membrane (GO:0016021)|late endosome (GO:0005770)|membrane (GO:0016020)|protein complex (GO:0043234)	PDZ domain binding (GO:0030165)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(11)|lung(25)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	60	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					CCACGACTATTAAGGAACACA	0.418																																																0													220	199	206					2																	8919107		1903	4132	6035	SO:0001583	missense	57498			AK025528	CCDS42650.1	2p24	2013-01-10			ENSG00000134313	ENSG00000134313		"Ankyrin repeat domain containing"	29508	protein-coding gene	gene with protein product	"ankyrin repeat-rich membrane-spanning protein"	615759				10998417, 10574462	Standard	NM_020738		Approved	ARMS	uc002qzc.2	Q9ULH0	OTTHUMG00000151658	ENST00000256707.3:c.2533A>T	2.37:g.8919107T>A	ENSP00000256707:p.Asn845Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A1L4N4|Q4VC08|Q6MZU2|Q9H889|Q9H9E4|Q9NT37|Q9UF42	Missense_Mutation	SNP	ENST00000256707.3	37	CCDS42650.1	.	.	.	.	.	.	.	.	.	.	T	16.46	3.128451	0.56721	.	.	ENSG00000134313	ENST00000496383;ENST00000541927;ENST00000256707;ENST00000427284;ENST00000418530;ENST00000473731;ENST00000489024;ENST00000319688	T;T;T;T;T;T;T	0.32023	1.47;1.47;1.47;1.47;1.47;1.47;1.47	5.64	5.64	0.86602	KAP P-loop (1);	0.000000	0.85682	D	0.000000	T	0.54143	0.1840	M	0.63428	1.95	0.80722	D	1	D;D;D;D	0.89917	1.0;0.999;1.0;1.0	D;D;D;D	0.97110	0.999;0.986;1.0;1.0	T	0.56251	-0.8010	10	0.72032	D	0.01	.	16.1617	0.81721	0.0:0.0:0.0:1.0	.	846;846;803;845	B4DK94;E9PH70;Q9ULH0-2;Q9ULH0	.;.;.;KDIS_HUMAN	Y	592;529;845;845;803;845;846;846	ENSP00000420364:N592Y;ENSP00000256707:N845Y;ENSP00000411849:N845Y;ENSP00000414923:N803Y;ENSP00000418974:N845Y;ENSP00000419964:N846Y;ENSP00000319947:N846Y	ENSP00000256707:N845Y	N	-	1	0	KIDINS220	8836558	1.000000	0.71417	0.313000	0.25210	0.057000	0.15508	7.948000	0.87774	2.275000	0.75901	0.528000	0.53228	AAT		0.418	KIDINS220-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323408.2	NM_020738		A	8919107	T	A	8919107	3	1	611	1	0	0	0	0	1	0	0	0	8278	1754	61	5	2830	5	KIDINS220	2	8919107	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10		8919107	234280266	13	37138										
VWA3B	200403	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	98907042	98907042	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ccagatcccctcaaaggacaGaaggttattgcaagatgtga	10	9	1	4			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr2:98907042G>A	ENST00000477737.1	+	23	3318	c.3114G>A	c.(3112-3114)caG>caA	p.Q1038Q	VWA3B_ENST00000490947.2_3'UTR	NM_144992.4	NP_659429.4	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	1038										NS(3)|breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(10)|lung(33)|ovary(3)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	70						TCAAAGGACAGAAGGTTATTG	0.323																																																0													109	101	103					2																	98907042		1815	4071	5886	SO:0001819	synonymous_variant	200403			AL832761	CCDS42718.1	2q11.2	2008-02-05			ENSG00000168658	ENSG00000168658			28385	protein-coding gene	gene with protein product						12477932	Standard	NM_144992		Approved	DKFZp686F2227, MGC26733	uc002syo.3	Q502W6	OTTHUMG00000153104	ENST00000477737.1:c.3114G>A	2.37:g.98907042G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B9EK71|Q86T73|Q8N2D0|Q8N770|Q8NA79|Q8ND63|Q8ND65|Q8WW02	Silent	SNP	ENST00000477737.1	37	CCDS42718.1	.	.	.	.	.	.	.	.	.	.	G	7.644	0.681410	0.14907	.	.	ENSG00000168658	ENST00000473149	.	.	.	4.52	4.52	0.55395	.	.	.	.	.	T	0.58466	0.2124	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.55366	-0.8152	4	.	.	.	.	8.6822	0.34216	0.1025:0.0:0.8975:0.0	.	.	.	.	K	449	.	.	E	+	1	0	VWA3B	98273474	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	2.549000	0.45803	2.499000	0.84300	0.557000	0.71058	GAA		0.323	VWA3B-020	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353469.2	NM_144992		A	98907042	G	A	98907042	2	1	611	1	0	0	0	0	0	0	0	1	17253	933	33	2		2	VWA3B	2	98907042	Silent	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	89987935	98907042	144292331	14	37139										
NEB	4703	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	152426612	152426612	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	cacatcgctctgcagttcgtAggccttcttggcctgaatca	9	13	3	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr2:152426612A>T	ENST00000172853.10	-	81	12457	c.12310T>A	c.(12310-12312)Tac>Aac	p.Y4104N	NEB_ENST00000409198.1_Missense_Mutation_p.Y4104N|NEB_ENST00000427231.2_Missense_Mutation_p.Y5805N|NEB_ENST00000604864.1_Missense_Mutation_p.Y5805N|NEB_ENST00000603639.1_Missense_Mutation_p.Y5805N|NEB_ENST00000397345.3_Missense_Mutation_p.Y5805N			P20929	NEBU_HUMAN	nebulin	4104					muscle filament sliding (GO:0030049)|muscle organ development (GO:0007517)|regulation of actin filament length (GO:0030832)|somatic muscle development (GO:0007525)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|Z disc (GO:0030018)	structural constituent of muscle (GO:0008307)			NS(5)|autonomic_ganglia(3)|breast(9)|central_nervous_system(5)|cervix(3)|endometrium(35)|kidney(16)|large_intestine(77)|liver(1)|lung(99)|ovary(9)|pancreas(3)|prostate(13)|skin(7)|stomach(8)|upper_aerodigestive_tract(6)|urinary_tract(2)	301				BRCA - Breast invasive adenocarcinoma(221;0.219)		TGCAGTTCGTAGGCCTTCTTG	0.507																																																0													40	40	40					2																	152426612		2059	4189	6248	SO:0001583	missense	4703			X83957	CCDS46424.1, CCDS54407.1, CCDS54408.1, CCDS74588.1	2q22	2014-09-17			ENSG00000183091	ENSG00000183091			7720	protein-coding gene	gene with protein product	"nemaline myopathy type 2"	161650		NEM2		10051637, 9359044	Standard	NM_001164507		Approved	NEB177D	uc010fnx.3	P20929	OTTHUMG00000153784	ENST00000172853.10:c.12310T>A	2.37:g.152426612A>T	ENSP00000172853:p.Tyr4104Asn	Somatic		WXS	Illumina HiSeq	Phase_I	F8WCL5|F8WCP0|Q15346|Q53QQ2|Q53TG8	Missense_Mutation	SNP	ENST00000172853.10	37		.	.	.	.	.	.	.	.	.	.	A	19.45	3.830650	0.71258	.	.	ENSG00000183091	ENST00000409198;ENST00000397345;ENST00000427231;ENST00000397342;ENST00000413693;ENST00000172853	T;T;T;T;T	0.43688	0.94;0.94;0.94;0.94;0.94	5.95	5.95	0.96441	.	0.000000	0.85682	D	0.000000	T	0.66626	0.2808	M	0.77486	2.375	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.97110	1.0;0.999	T	0.69003	-0.5260	10	0.54805	T	0.06	.	16.4101	0.83708	1.0:0.0:0.0:0.0	.	4104;535	P20929;Q14215	NEBU_HUMAN;.	N	4104;5805;5805;153;535;4104	ENSP00000386259:Y4104N;ENSP00000380505:Y5805N;ENSP00000416578:Y5805N;ENSP00000410961:Y535N;ENSP00000172853:Y4104N	ENSP00000172853:Y4104N	Y	-	1	0	NEB	152134858	1.000000	0.71417	1.000000	0.80357	0.958000	0.62258	9.339000	0.96797	2.280000	0.76307	0.460000	0.39030	TAC		0.507	NEB-201	KNOWN	basic	protein_coding	protein_coding		NM_004543		T	152426612	A	T	152426612	3	4	611	1	0	0	0	0	1	0	0	0	10309	420	15	5	8569	5	NEB	2	152426612	Missense_Mutation	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	53519570	152426612	90772761	15	37140										
CCDC141	285025	broad.mit.edu	37	chr2	179701995	179701995	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	atcatgctctctggatgttcAgcactgattctgtgtaaggc	10	9	4	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr2:179701995A>T	ENST00000420890.2	-	23	4068	c.3951T>A	c.(3949-3951)gcT>gcA	p.A1317A	CCDC141_ENST00000295723.5_Silent_p.A742A|CCDC141_ENST00000480419.1_5'UTR	NM_173648.3	NP_775919.3	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	1317										NS(2)|breast(1)|endometrium(5)|kidney(1)|large_intestine(17)|lung(37)|ovary(8)|pancreas(2)|skin(4)|upper_aerodigestive_tract(1)	78			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			CTGGATGTTCAGCACTGATTC	0.493																																																0													120	105	110					2																	179701995		2203	4300	6503	SO:0001819	synonymous_variant	285025			AK096821		2q31.2	2013-01-14			ENSG00000163492	ENSG00000163492		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	26821	protein-coding gene	gene with protein product	"coiled-coil protein associated with myosin II and DISC1"					20956536	Standard	NM_173648		Approved	FLJ39502, CAMDI	uc002une.2	Q6ZP82	OTTHUMG00000132578	ENST00000420890.2:c.3951T>A	2.37:g.179701995A>T		Somatic		WXS	Illumina HiSeq	Phase_I	H7C0P1|J3KNW6|Q8N8H3	Silent	SNP	ENST00000420890.2	37																																																																																					0.493	CCDC141-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_173648		T	179701995	A	T	179701995	2	4	611	1	0	0	0	0	0	0	0	1	2777	175	7	5		5	CCDC141	2	179701995	Silent	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	27275383	179701995	63497378	16	37141										
PLCL1	5334	ucsc.edu;bcgsc.ca	37	chr2	198949559	198949559	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gagctttgaaaatgggctgtCgaagcgttgaactcgatgta	13	6	0	2	rs376872615		TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr2:198949559C>G	ENST00000428675.1	+	2	1716	c.1318C>G	c.(1318-1320)Cga>Gga	p.R440G	PLCL1_ENST00000437704.2_Missense_Mutation_p.R342G	NM_006226.3	NP_006217.3	Q15111	PLCL1_HUMAN	phospholipase C-like 1	440	PI-PLC X-box. {ECO:0000255|PROSITE- ProRule:PRU00270}.				gamma-aminobutyric acid signaling pathway (GO:0007214)|intracellular signal transduction (GO:0035556)|lipid metabolic process (GO:0006629)|positive regulation of receptor binding (GO:1900122)|regulation of peptidyl-serine phosphorylation (GO:0033135)|regulation of synaptic transmission, GABAergic (GO:0032228)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|inositol 1,4,5 trisphosphate binding (GO:0070679)|phosphatidylinositol phospholipase C activity (GO:0004435)|phospholipase C activity (GO:0004629)|signal transducer activity (GO:0004871)			autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(8)|kidney(1)|large_intestine(14)|lung(44)|ovary(1)|pancreas(2)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	80					Quinacrine(DB01103)	AATGGGCTGTCGAAGCGTTGA	0.408																																																0													61	59	59					2																	198949559		2203	4300	6503	SO:0001583	missense	5334			D42108	CCDS2326.1, CCDS2326.2	2q33	2014-06-13	2002-02-18	2002-02-22	ENSG00000115896	ENSG00000115896			9063	protein-coding gene	gene with protein product	"phospholipase C related, but catalytically inactive protein", "protein phosphatase 1, regulatory subunit 127"	600597	"phospholipase C, epsilon"	PLCE		7633416	Standard	NM_006226		Approved	PLC-L, PLCL, PRIP, PPP1R127	uc010fsp.3	Q15111	OTTHUMG00000132750	ENST00000428675.1:c.1318C>G	2.37:g.198949559C>G	ENSP00000402861:p.Arg440Gly	Somatic		WXS	Illumina HiSeq		Q3MJ90|Q53SD3|Q7Z3S3	Missense_Mutation	SNP	ENST00000428675.1	37	CCDS2326.2	.	.	.	.	.	.	.	.	.	.	C	13.17	2.158059	0.38119	.	.	ENSG00000115896	ENST00000428675;ENST00000437704	T;T	0.81415	-1.49;-1.49	5.94	2.89	0.33648	PLC-like phosphodiesterase, TIM beta/alpha-barrel domain (2);Phospholipase C, phosphatidylinositol-specific , X domain (3);	0.000000	0.53938	D	0.000051	D	0.93449	0.7910	H	0.98466	4.24	0.58432	D	0.999995	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.96190	0.9137	9	.	.	.	.	15.4712	0.75441	0.4363:0.5637:0.0:0.0	.	440;366	Q15111;B4DYZ4	PLCL1_HUMAN;.	G	440;342	ENSP00000402861:R440G;ENSP00000414138:R342G	.	R	+	1	2	PLCL1	198657804	0.997000	0.39634	1.000000	0.80357	0.930000	0.56654	1.426000	0.34870	1.501000	0.48654	0.561000	0.74099	CGA		0.408	PLCL1-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340210.1	NM_006226		G	198949559	C	G	198949559	3	3	611	1	0	0	0	0	1	0	0	0	12046	876	31	4	1324	4	PLCL1	2	198949559	Missense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	19247564	198949559	44249814	17	37142										
CPS1	1373	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	211471605	211471605	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tcctacctcaatggaatactGcatcattgaagtgaatgcca	7	10	2	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr2:211471605G>T	ENST00000233072.5	+	18	2328	c.2132G>T	c.(2131-2133)tGc>tTc	p.C711F	CPS1_ENST00000451903.2_Missense_Mutation_p.C260F|CPS1_ENST00000430249.2_Missense_Mutation_p.C717F	NM_001875.4	NP_001866.2	P31327	CPSM_HUMAN	carbamoyl-phosphate synthase 1, mitochondrial	711	ATP-grasp 1.				anion homeostasis (GO:0055081)|carbamoyl phosphate biosynthetic process (GO:0070409)|cellular nitrogen compound metabolic process (GO:0034641)|cellular response to cAMP (GO:0071320)|cellular response to fibroblast growth factor stimulus (GO:0044344)|cellular response to glucagon stimulus (GO:0071377)|cellular response to oleic acid (GO:0071400)|citrulline biosynthetic process (GO:0019240)|glutamine catabolic process (GO:0006543)|glycogen catabolic process (GO:0005980)|hepatocyte differentiation (GO:0070365)|homocysteine metabolic process (GO:0050667)|midgut development (GO:0007494)|nitric oxide metabolic process (GO:0046209)|positive regulation of vasodilation (GO:0045909)|response to amine (GO:0014075)|response to amino acid (GO:0043200)|response to dexamethasone (GO:0071548)|response to drug (GO:0042493)|response to food (GO:0032094)|response to growth hormone (GO:0060416)|response to lipopolysaccharide (GO:0032496)|response to starvation (GO:0042594)|response to toxic substance (GO:0009636)|response to zinc ion (GO:0010043)|small molecule metabolic process (GO:0044281)|triglyceride catabolic process (GO:0019433)|urea cycle (GO:0000050)	mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrial nucleoid (GO:0042645)|nucleus (GO:0005634)|protein complex (GO:0043234)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|carbamoyl-phosphate synthase (ammonia) activity (GO:0004087)|endopeptidase activity (GO:0004175)|glutamate binding (GO:0016595)|modified amino acid binding (GO:0072341)|phospholipid binding (GO:0005543)			breast(1)|central_nervous_system(4)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(17)|lung(85)|ovary(8)|pancreas(1)|prostate(6)|skin(1)|upper_aerodigestive_tract(4)|urinary_tract(2)	142				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)	Carglumic Acid(DB06775)	ATGGAATACTGCATCATTGAA	0.458																																																0													129	110	116					2																	211471605		2203	4300	6503	SO:0001583	missense	1373			AF154830	CCDS2393.1, CCDS46505.1, CCDS46506.1	2p	2014-09-17	2010-05-11		ENSG00000021826	ENSG00000021826	6.3.4.16		2323	protein-coding gene	gene with protein product		608307	"carbamoyl-phosphate synthetase 1, mitochondrial"				Standard	NM_001122633		Approved		uc002vee.4	P31327	OTTHUMG00000132994	ENST00000233072.5:c.2132G>T	2.37:g.211471605G>T	ENSP00000233072:p.Cys711Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z818|J3KQL0|O43774|Q53TL5|Q59HF8|Q7Z5I5	Missense_Mutation	SNP	ENST00000233072.5	37	CCDS2393.1	.	.	.	.	.	.	.	.	.	.	G	16.88	3.245638	0.59103	.	.	ENSG00000021826	ENST00000430249;ENST00000539150;ENST00000233072;ENST00000451903	D;D;D	0.96967	-4.19;-4.19;-4.19	5.83	5.83	0.93111	ATP-grasp fold (1);ATP-grasp fold, subdomain 2 (1);Carbamoyl-phosphate synthetase, large subunit, ATP-binding (1);	0.152323	0.64402	D	0.000009	D	0.94712	0.8294	L	0.35341	1.055	0.41705	D	0.989423	D;D	0.53151	0.958;0.958	P;P	0.54060	0.741;0.741	D	0.93061	0.6474	10	0.41790	T	0.15	-24.117	8.7971	0.34885	0.0797:0.0:0.7691:0.1511	.	721;711	Q59HF8;P31327	.;CPSM_HUMAN	F	717;719;711;260	ENSP00000402608:C717F;ENSP00000233072:C711F;ENSP00000406136:C260F	ENSP00000233072:C711F	C	+	2	0	CPS1	211179850	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.300000	0.65721	2.781000	0.95711	0.586000	0.80456	TGC		0.458	CPS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256569.5			T	211471605	G	T	211471605	3	4	611	1	0	0	0	0	1	0	0	0	3825	1319	46	4	2224	4	CPS1	2	211471605	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	12522046	211471605	31727768	18	37143										
IKZF2	22807	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	213872649	213872649	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	cagcgattgtgcttggcgggTgctgcatcagagggtgaagg	18	7	1	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr2:213872649T>C	ENST00000434687.1	-	9	1325	c.1016A>G	c.(1015-1017)cAc>cGc	p.H339R	IKZF2_ENST00000451136.2_Missense_Mutation_p.H267R|IKZF2_ENST00000457361.1_Missense_Mutation_p.H339R|IKZF2_ENST00000342002.2_Missense_Mutation_p.H345R|IKZF2_ENST00000421754.2_Missense_Mutation_p.H265R|AC079610.1_ENST00000415387.1_RNA|IKZF2_ENST00000374327.4_Missense_Mutation_p.H194R|IKZF2_ENST00000413091.3_3'UTR|IKZF2_ENST00000374319.4_Missense_Mutation_p.H313R			Q9UKS7	IKZF2_HUMAN	IKAROS family zinc finger 2 (Helios)	339					positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(1)|cervix(1)|endometrium(1)|large_intestine(7)|lung(7)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	23		Esophageal squamous(248;0.0559)|Renal(323;0.218)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;2.97e-07)|all cancers(144;1.53e-05)|LUSC - Lung squamous cell carcinoma(224;0.00599)|Lung(261;0.00792)		GCTTGGCGGGTGCTGCATCAG	0.498																																																0													106	97	100					2																	213872649		2203	4300	6503	SO:0001583	missense	22807			AF130863	CCDS2395.1, CCDS46507.1	2q13.1	2013-01-08	2006-08-25	2006-08-25	ENSG00000030419	ENSG00000030419		"Zinc fingers, C2H2-type", "IKAROS zinc fingers"	13177	protein-coding gene	gene with protein product		606234	"zinc finger protein, subfamily 1A, 2 (Helios)"	ZNFN1A2		9512513, 9560339	Standard	NM_001079526		Approved	Helios	uc002vem.3	Q9UKS7	OTTHUMG00000133005	ENST00000434687.1:c.1016A>G	2.37:g.213872649T>C	ENSP00000412869:p.His339Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q53YJ5|Q6PQC5|Q6PQC6|Q6PQC7|Q6PQC8|Q6PQD0|Q6PQD1|Q8N6S1	Missense_Mutation	SNP	ENST00000434687.1	37	CCDS2395.1	.	.	.	.	.	.	.	.	.	.	T	10.59	1.391634	0.25118	.	.	ENSG00000030419	ENST00000457361;ENST00000342002;ENST00000434687;ENST00000374319;ENST00000451136;ENST00000421754;ENST00000374327	T;T;T;T;T;T;T	0.13901	3.3;3.27;3.3;3.33;3.27;3.31;2.55	5.97	5.97	0.96955	.	0.000000	0.85682	D	0.000000	T	0.33411	0.0862	M	0.64997	1.995	0.80722	D	1	D;D;D;B;D;D	0.89917	0.993;0.996;1.0;0.092;0.997;0.989	D;D;D;B;D;D	0.85130	0.943;0.99;0.997;0.07;0.989;0.978	T	0.01966	-1.1238	10	0.45353	T	0.12	-8.9537	12.3172	0.54964	0.0:0.0:0.1409:0.859	.	267;265;194;313;339;117	C9JCG7;C9JTM9;F5H8M1;Q9UKS7-2;Q9UKS7;Q96LD7	.;.;.;.;IKZF2_HUMAN;.	R	339;345;339;313;267;265;194	ENSP00000410447:H339R;ENSP00000342876:H345R;ENSP00000412869:H339R;ENSP00000363439:H313R;ENSP00000395203:H267R;ENSP00000399574:H265R;ENSP00000363447:H194R	ENSP00000342876:H345R	H	-	2	0	IKZF2	213580894	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.696000	0.61774	2.288000	0.76882	0.533000	0.62120	CAC		0.498	IKZF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256593.3	NM_016260		C	213872649	T	C	213872649	3	2	611	1	0	0	0	0	1	0	0	0	7622	1696	59	3	568	3	IKZF2	2	213872649	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	2401044	213872649	29326724	19	37144										
ABCB6	10058	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	220075010	220075011	+	Missense_Mutation	DNP	CA	CA	AG													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gatctggtcagcattgaccaCagttgagagcctgagaagtc							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr2:220075010_220075011CA>AG	ENST00000265316.3	-	18	2677_2678	c.2361_2362TG>CT	c.(2359-2364)acTGtg>acCTtg	p.V788L	ABCB6_ENST00000439002.2_Missense_Mutation_p.V742L	NM_005689.2	NP_005680.1	Q9NP58	ABCB6_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP), member 6 (Langereis blood group)	788	ABC transporter. {ECO:0000255|PROSITE- ProRule:PRU00434}.				brain development (GO:0007420)|cellular iron ion homeostasis (GO:0006879)|heme transport (GO:0015886)|porphyrin-containing compound biosynthetic process (GO:0006779)|skin development (GO:0043588)|transmembrane transport (GO:0055085)|transport (GO:0006810)	ATP-binding cassette (ABC) transporter complex (GO:0043190)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of mitochondrial outer membrane (GO:0031307)|mitochondrial envelope (GO:0005740)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|efflux transmembrane transporter activity (GO:0015562)|heme binding (GO:0020037)|heme transporter activity (GO:0015232)|heme-transporting ATPase activity (GO:0015439)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(2)|large_intestine(9)|lung(9)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)	34		Renal(207;0.0474)		Epithelial(149;1.22e-06)|all cancers(144;0.000201)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCATTGACCACAGTTGAGAGCC	0.55																																																0																																										SO:0001583	missense	10058			AF070598	CCDS2436.1	2q36	2014-08-27	2014-08-27		ENSG00000115657	ENSG00000115657		"ATP binding cassette transporters / subfamily B"	47	protein-coding gene	gene with protein product	"ATP-binding cassette half-transporter"	605452	"ATP-binding cassette, sub-family B (MDR/TAP), member 6"			8894702, 9110174	Standard	NM_005689		Approved	EST45597, umat, MTABC3	uc002vkc.2	Q9NP58	OTTHUMG00000133131	ENST00000265316.3:c.2361_2362delinsAG	2.37:g.220075010_220075011delinsAG	ENSP00000265316:p.Val788Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O75542|Q49A66|Q59GQ5|Q6ZME6|Q96ME8|Q9HAQ6|Q9HAQ7	Missense_Mutation	DNP	ENST00000265316.3	37	CCDS2436.1																																																																																				0.55	ABCB6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256820.2	NM_005689		AG	220075011	CA	AG	220075010	3	1	611	1	0	0	0	0	1	0	0	0	45	478	17	4	174	4	ABCB6	2	220075010	Missense_Mutation	DNP	CA	TCGA-HE-A5NK-01A-11D-A26P-10	6202361	220075010	23124363	20	37145										
EIF4E2	9470	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	233428989	233428989	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tggaggttttatagccacatGgtacgtcctggggacctgac	13	9	0	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr2:233428989G>T	ENST00000258416.3	+	4	976	c.303G>T	c.(301-303)atG>atT	p.M101I	EIF4E2_ENST00000409394.1_Missense_Mutation_p.M56I|EIF4E2_ENST00000409322.1_Missense_Mutation_p.M56I|EIF4E2_ENST00000409514.1_Missense_Mutation_p.M101I|EIF4E2_ENST00000409167.3_Missense_Mutation_p.M56I|EIF4E2_ENST00000409495.1_Missense_Mutation_p.M101I|EIF4E2_ENST00000409098.1_Missense_Mutation_p.M101I	NM_004846.2	NP_004837.1	O60573	IF4E2_HUMAN	eukaryotic translation initiation factor 4E family member 2	101					cytokine-mediated signaling pathway (GO:0019221)|in utero embryonic development (GO:0001701)|negative regulation of translation (GO:0017148)	cytosol (GO:0005829)|mRNA cap binding complex (GO:0005845)	poly(A) RNA binding (GO:0044822)|RNA cap binding (GO:0000339)|translation factor activity, nucleic acid binding (GO:0008135)|translation initiation factor activity (GO:0003743)|ubiquitin protein ligase binding (GO:0031625)			endometrium(2)|kidney(1)|large_intestine(2)|lung(3)	8		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;2.3e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000912)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		ATAGCCACATGGTACGTCCTG	0.458																																																0													48	45	46					2																	233428989		2203	4300	6503	SO:0001583	missense	9470			AF038957	CCDS2496.1, CCDS63158.1, CCDS63159.1, CCDS74671.1	2q37.1	2008-02-05	2006-11-13	2004-10-30	ENSG00000135930	ENSG00000135930			3293	protein-coding gene	gene with protein product		605895	"eukaryotic translation initiation factor 4E-like 3"	EIF4EL3		9653160, 9582349	Standard	XM_005246975		Approved	IF4e, 4EHP	uc002vta.3	O60573	OTTHUMG00000133256	ENST00000258416.3:c.303G>T	2.37:g.233428989G>T	ENSP00000258416:p.Met101Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B8ZZJ9|O75349	Missense_Mutation	SNP	ENST00000258416.3	37	CCDS2496.1	.	.	.	.	.	.	.	.	.	.	G	15.90	2.970766	0.53614	.	.	ENSG00000135930	ENST00000258416;ENST00000409514;ENST00000409098;ENST00000409495;ENST00000409167;ENST00000409322;ENST00000409394;ENST00000454501	T;T;T;T;T;T;T;T	0.35421	1.31;1.31;1.31;1.31;1.31;1.31;1.31;1.31	5.65	5.65	0.86999	Translation Initiation factor eIF- 4e-like  domain (2);	0.000000	0.85682	D	0.000000	T	0.16257	0.0391	N	0.01618	-0.8	0.53005	D	0.999961	B;B;B	0.15473	0.013;0.003;0.002	B;B;B	0.24974	0.018;0.057;0.004	T	0.18587	-1.0332	10	0.08599	T	0.76	-10.3692	17.2336	0.86991	0.0:0.0:1.0:0.0	.	56;101;101	B4E1E4;B8ZZJ9;O60573	.;.;IF4E2_HUMAN	I	101;101;101;101;56;56;56;96	ENSP00000258416:M101I;ENSP00000387336:M101I;ENSP00000386996:M101I;ENSP00000386876:M101I;ENSP00000387328:M56I;ENSP00000386424:M56I;ENSP00000386983:M56I;ENSP00000390904:M96I	ENSP00000258416:M101I	M	+	3	0	EIF4E2	233137233	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.876000	0.87215	2.660000	0.90430	0.655000	0.94253	ATG		0.458	EIF4E2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257033.2	NM_004846		T	233428989	G	T	233428989	3	4	611	1	0	0	0	0	1	0	0	0	5032	1348	47	4	317	4	EIF4E2	2	233428989	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	13353979	233428989	9770384	21	37146										
TMEM43	79188	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	14183165	14183165	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tgccttctgtgtggccacctCgctgaccctgctgaccgtgg	12	15	1	2	rs63750743		TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr3:14183165C>T	ENST00000306077.4	+	12	1327	c.1073C>T	c.(1072-1074)tCg>tTg	p.S358L	RP11-434D12.1_ENST00000608606.1_Intron|RP11-434D12.1_ENST00000601399.1_Intron	NM_024334.2	NP_077310.1	Q9BTV4	TMM43_HUMAN	transmembrane protein 43	358			S -> L (in ARVD5). {ECO:0000269|PubMed:18313022}.		nuclear membrane organization (GO:0071763)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)				breast(1)|cervix(3)|endometrium(2)|large_intestine(5)|lung(4)|ovary(1)|prostate(1)|skin(2)	19						GTGGCCACCTCGCTGACCCTG	0.602																																																0			GRCh37	CM081452	TMEM43	M	rs63750743						135	110	119					3																	14183165		2203	4300	6503	SO:0001583	missense	79188			BC008054	CCDS2618.1	3p25.1	2014-09-17			ENSG00000170876	ENSG00000170876			28472	protein-coding gene	gene with protein product		612048	"arrhythmogenic right ventricular dysplasia 5"	ARVD5		11230166, 18313022	Standard	NM_024334		Approved	MGC3222, DKFZp586G1919, LUMA	uc003byk.2	Q9BTV4	OTTHUMG00000129802	ENST00000306077.4:c.1073C>T	3.37:g.14183165C>T	ENSP00000303992:p.Ser358Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q7L4N5|Q8NC30|Q96A63|Q96F19|Q96JX0|Q9H076	Missense_Mutation	SNP	ENST00000306077.4	37	CCDS2618.1	.	.	.	.	.	.	.	.	.	.	C	35	5.493272	0.96339	.	.	ENSG00000170876	ENST00000306077	T	0.35973	1.28	5.71	5.71	0.89125	.	0.066812	0.64402	D	0.000008	T	0.58293	0.2112	L	0.57536	1.79	0.80722	A	1	D	0.89917	1.0	D	0.69142	0.962	T	0.55711	-0.8098	9	0.52906	T	0.07	-15.2636	19.8516	0.96743	0.0:1.0:0.0:0.0	rs63750743	358	Q9BTV4	TMM43_HUMAN	L	358	ENSP00000303992:S358L	ENSP00000303992:S358L	S	+	2	0	TMEM43	14158166	1.000000	0.71417	0.940000	0.37924	0.911000	0.54048	7.205000	0.77881	2.685000	0.91497	0.585000	0.79938	TCG		0.602	TMEM43-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252030.2	NM_024334		T	14183165	C	T	14183165	3	4	611	1	0	0	0	0	1	0	0	0	16179	893	31	1	1119	1	TMEM43	3	14183165	Missense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10		14183165	183839265	22	37147										
SMARCC1	6599	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	47718172	47718172	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	agagggggtatcagctaataCattaaaatgaggagtaggag	14	3	1	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr3:47718172C>A	ENST00000254480.5	-	17	1791	c.1672G>T	c.(1672-1674)Gta>Tta	p.V558L	SMARCC1_ENST00000425518.1_5'UTR	NM_003074.3	NP_003065.3	Q92922	SMRC1_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1	558					ATP-dependent chromatin remodeling (GO:0043044)|chromatin remodeling (GO:0006338)|insulin receptor signaling pathway (GO:0008286)|nervous system development (GO:0007399)|nucleosome disassembly (GO:0006337)|organ morphogenesis (GO:0009887)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|protein complex (GO:0043234)|SWI/SNF complex (GO:0016514)|XY body (GO:0001741)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|protein N-terminus binding (GO:0047485)|transcription coactivator activity (GO:0003713)			breast(1)|endometrium(5)|kidney(2)|large_intestine(3)|lung(15)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	33				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		TCAGCTAATACATTAAAATGA	0.463																																																0													73	70	71					3																	47718172		2203	4300	6503	SO:0001583	missense	6599			U66615	CCDS2758.1	3p21.31	2008-05-15			ENSG00000173473	ENSG00000173473			11104	protein-coding gene	gene with protein product		601732				8804307	Standard	NM_003074		Approved	BAF155, SRG3, Rsc8, CRACC1	uc003crq.2	Q92922	OTTHUMG00000133519	ENST00000254480.5:c.1672G>T	3.37:g.47718172C>A	ENSP00000254480:p.Val558Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RS0|Q6P172|Q8IWH2	Missense_Mutation	SNP	ENST00000254480.5	37	CCDS2758.1	.	.	.	.	.	.	.	.	.	.	C	35	5.457122	0.96223	.	.	ENSG00000173473	ENST00000254480	T	0.55760	0.5	6.16	6.16	0.99307	.	0.000000	0.85682	D	0.000000	T	0.77294	0.4109	M	0.85099	2.735	0.80722	D	1	D	0.76494	0.999	D	0.81914	0.995	T	0.78959	-0.1998	10	0.87932	D	0	-21.3909	19.4236	0.94732	0.0:1.0:0.0:0.0	.	558	Q92922	SMRC1_HUMAN	L	558	ENSP00000254480:V558L	ENSP00000254480:V558L	V	-	1	0	SMARCC1	47693176	1.000000	0.71417	0.995000	0.50966	0.958000	0.62258	7.580000	0.82523	2.937000	0.99478	0.650000	0.86243	GTA		0.463	SMARCC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257491.1			A	47718172	C	A	47718172	3	1	611	1	0	0	0	0	1	0	0	0	14788	478	17	4	1693	4	SMARCC1	3	47718172	Missense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	33535007	47718172	150304258	23	37148										
COL7A1	1294	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	48604393	48604393	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	accaacactgccaggtggccCtgggggaccagcagagccat	13	14	0	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr3:48604393C>A	ENST00000328333.8	-	110	8280	c.8173G>T	c.(8173-8175)Ggg>Tgg	p.G2725W	COL7A1_ENST00000470076.1_5'Flank|COL7A1_ENST00000454817.1_Missense_Mutation_p.G2693W	NM_000094.3	NP_000085.1	Q02388	CO7A1_HUMAN	collagen, type VII, alpha 1	2725	Triple-helical region.				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|endodermal cell differentiation (GO:0035987)|epidermis development (GO:0008544)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	basement membrane (GO:0005604)|collagen type VII trimer (GO:0005590)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular space (GO:0005615)	serine-type endopeptidase inhibitor activity (GO:0004867)			NS(3)|breast(8)|central_nervous_system(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(18)|lung(57)|ovary(7)|prostate(5)|skin(9)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(5)	137				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CCAGGTGGCCCTGGGGGACCA	0.617																																																0													24	27	26					3																	48604393		2203	4299	6502	SO:0001583	missense	1294			L02870	CCDS2773.1	3p21.1	2014-09-17	2008-08-01		ENSG00000114270	ENSG00000114270		"Collagens", "Fibronectin type III domain containing"	2214	protein-coding gene	gene with protein product	"collagen VII, alpha-1 polypeptide", "LC collagen"	120120	"epidermolysis bullosa, dystrophic, dominant and recessive"	EBDCT, EBD1, EBR1		1871109	Standard	NM_000094		Approved		uc003ctz.2	Q02388	OTTHUMG00000133541	ENST00000328333.8:c.8173G>T	3.37:g.48604393C>A	ENSP00000332371:p.Gly2725Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q14054|Q16507	Missense_Mutation	SNP	ENST00000328333.8	37	CCDS2773.1	.	.	.	.	.	.	.	.	.	.	C	9.532	1.111099	0.20714	.	.	ENSG00000114270	ENST00000328333;ENST00000454817	D;D	0.99369	-5.78;-5.78	4.86	4.86	0.63082	.	0.000000	0.41938	D	0.000791	D	0.99664	0.9875	H	0.98005	4.125	0.53005	D	0.999962	D	0.89917	1.0	D	0.97110	1.0	D	0.97321	0.9944	10	0.87932	D	0	.	16.16	0.81698	0.0:1.0:0.0:0.0	.	2725	Q02388	CO7A1_HUMAN	W	2725;2693	ENSP00000332371:G2725W;ENSP00000412569:G2693W	ENSP00000332371:G2725W	G	-	1	0	COL7A1	48579397	1.000000	0.71417	0.985000	0.45067	0.058000	0.15608	6.966000	0.76073	2.260000	0.74910	0.467000	0.42956	GGG		0.617	COL7A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257519.1	NM_000094		A	48604393	C	A	48604393	3	1	611	1	0	0	0	0	1	0	0	0	3706	681	24	4	697	4	COL7A1	3	48604393	Missense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	886221	48604393	149418037	24	37149										
APEH	327	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	49718019	49718019	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gctcacaattgaccaggaccTcatggtggcacagttttcca	9	12	2	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr3:49718019T>C	ENST00000296456.5	+	14	1656	c.1256T>C	c.(1255-1257)cTc>cCc	p.L419P	APEH_ENST00000438011.1_Missense_Mutation_p.L419P	NM_001640.3	NP_001631.3	P13798	ACPH_HUMAN	acylaminoacyl-peptide hydrolase	419					beta-amyloid metabolic process (GO:0050435)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nuclear membrane (GO:0031965)	omega peptidase activity (GO:0008242)|poly(A) RNA binding (GO:0044822)|serine-type endopeptidase activity (GO:0004252)			endometrium(3)|large_intestine(1)|lung(6)|ovary(1)|skin(1)|stomach(2)|urinary_tract(1)	15				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GACCAGGACCTCATGGTGGCA	0.572																																																0													136	107	117					3																	49718019		2203	4300	6503	SO:0001583	missense	327			D38441	CCDS2801.1	3p21	2013-05-29	2013-05-29		ENSG00000164062	ENSG00000164062	3.4.19.1		586	protein-coding gene	gene with protein product	"acylaminoacyl-peptidase"	102645	"N-acylaminoacyl-peptide hydrolase"	D3F15S2, DNF15S2, D3S48E		2392324	Standard	NM_001640		Approved		uc003cxf.3	P13798	OTTHUMG00000156882	ENST00000296456.5:c.1256T>C	3.37:g.49718019T>C	ENSP00000296456:p.Leu419Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BQ33|Q9P0Y2	Missense_Mutation	SNP	ENST00000296456.5	37	CCDS2801.1	.	.	.	.	.	.	.	.	.	.	T	24.8	4.573571	0.86542	.	.	ENSG00000164062	ENST00000296456;ENST00000438011	T;T	0.39787	1.06;1.06	5.44	5.44	0.79542	Peptidase S9A/B/C, oligopeptidase, N-terminal beta-propeller (1);	0.000000	0.85682	D	0.000000	T	0.59074	0.2167	M	0.66939	2.045	0.80722	D	1	D;D	0.64830	0.994;0.994	P;P	0.61201	0.885;0.885	T	0.58228	-0.7673	10	0.36615	T	0.2	-28.7761	15.1365	0.72572	0.0:0.0:0.0:1.0	.	419;419	C9JIF9;P13798	.;ACPH_HUMAN	P	419	ENSP00000296456:L419P;ENSP00000415862:L419P	ENSP00000296456:L419P	L	+	2	0	APEH	49693023	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	7.147000	0.77382	2.056000	0.61249	0.459000	0.35465	CTC		0.572	APEH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346415.2			C	49718019	T	C	49718019	3	2	611	1	0	0	0	0	1	0	0	0	768	1551	54	3	1310	3	APEH	3	49718019	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	1113626	49718019	148304411	25	37150										
CACNA1D	776	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	53844325	53844325	+	Splice_Site	DEL	A	A	-													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gcggacagcttggtggaggcAgtgagtacggttcttggccg							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr3:53844325delA	ENST00000350061.5	+	47	6703	c.6192delA	c.(6190-6192)gca>gc	p.A2064fs	CACNA1D_ENST00000544977.1_3'UTR|CACNA1D_ENST00000288139.4_Splice_Site_p.A2084fs|CACNA1D_ENST00000422281.2_Splice_Site_p.A2040fs	NM_001128840.1	NP_001122312.1	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type, alpha 1D subunit	2064					adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|axon guidance (GO:0007411)|calcium ion import (GO:0070509)|calcium ion transmembrane transport (GO:0070588)|calcium ion transport (GO:0006816)|energy reserve metabolic process (GO:0006112)|membrane depolarization during action potential (GO:0086010)|membrane depolarization during cardiac muscle cell action potential (GO:0086012)|membrane repolarization during SA node cell action potential (GO:0086052)|positive regulation of calcium ion transport (GO:0051928)|regulation of atrial cardiac muscle cell membrane repolarization (GO:0060372)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of insulin secretion (GO:0050796)|regulation of potassium ion transmembrane transport (GO:1901379)|regulation of potassium ion transmembrane transporter activity (GO:1901016)|sensory perception of sound (GO:0007605)|small molecule metabolic process (GO:0044281)	plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)|Z disc (GO:0030018)	alpha-actinin binding (GO:0051393)|ankyrin binding (GO:0030506)|high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)|voltage-gated calcium channel activity involved in cardiac muscle cell action potential (GO:0086007)|voltage-gated calcium channel activity involved SA node cell action potential (GO:0086059)			breast(3)|central_nervous_system(9)|cervix(2)|endometrium(11)|kidney(7)|large_intestine(13)|liver(1)|lung(29)|ovary(6)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	90				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)	Amlodipine(DB00381)|Cinnarizine(DB00568)|Clevidipine(DB04920)|Dronedarone(DB04855)|Felodipine(DB01023)|Isradipine(DB00270)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Verapamil(DB00661)	TGGTGGAGGCAGTGAGTACGG	0.612																																																0													53	60	57					3																	53844325		2203	4300	6503	SO:0001630	splice_region_variant	776			AB209171	CCDS2872.1, CCDS46848.1, CCDS46849.1	3p14.3	2012-03-07			ENSG00000157388	ENSG00000157388		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1391	protein-coding gene	gene with protein product		114206		CCHL1A2, CACNL1A2		1664412	Standard	NM_000720		Approved	Cav1.3, CACH3, CACN4	uc003dgu.5	Q01668	OTTHUMG00000158278	ENST00000350061.5:c.6192+1A>-	3.37:g.53844325delA		Somatic		WXS	Illumina HiSeq	Phase_I	B0FYA3|Q13916|Q13931|Q71UT1|Q9UDC3	Frame_Shift_Del	DEL	ENST00000350061.5	37	CCDS46848.1																																																																																				0.612	CACNA1D-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350557.1	NM_000720	Frame_Shift_Del	-	53844325	A	-	53844325	8	5	611	1	0	1	0	1	0	0	1	0	2543	202	7	0	6550	0	CACNA1D	3	53844325	Splice_Site	DEL	A	TCGA-HE-A5NK-01A-11D-A26P-10	4126306	53844325	144178105	26	37151										
SLC15A2	6565	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	121649781	121649781	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	atggtgtgtctgcttatagaActgtgcaaagaggagagtaa	13	4	1	3			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr3:121649781A>G	ENST00000489711.1	+	18	2036	c.1648A>G	c.(1648-1650)Act>Gct	p.T550A	SLC15A2_ENST00000465060.1_3'UTR|SLC15A2_ENST00000295605.2_Missense_Mutation_p.T519A	NM_021082.3	NP_066568.3	Q16348	S15A2_HUMAN	solute carrier family 15 (oligopeptide transporter), member 2	550					drug transport (GO:0015893)|ion transport (GO:0006811)|protein transport (GO:0015031)|proton transport (GO:0015992)|transmembrane transport (GO:0055085)|transport (GO:0006810)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	antibiotic transporter activity (GO:0042895)|dipeptide transporter activity (GO:0042936)|high-affinity oligopeptide transporter activity (GO:0015334)|peptide:proton symporter activity (GO:0015333)			NS(1)|endometrium(1)|kidney(4)|large_intestine(5)|lung(17)|skin(6)|upper_aerodigestive_tract(2)	36				GBM - Glioblastoma multiforme(114;0.0967)	Aminolevulinic acid(DB00855)|Amoxicillin(DB01060)|Ampicillin(DB00415)|Azidocillin(DB08795)|Benazepril(DB00542)|Benzylpenicillin(DB01053)|Cefaclor(DB00833)|Cefadroxil(DB01140)|Cefalotin(DB00456)|Cefdinir(DB00535)|Cefepime(DB01413)|Cefixime(DB00671)|Cefmetazole(DB00274)|Cefotaxime(DB00493)|Cefradine(DB01333)|Ceftazidime(DB00438)|Ceftibuten(DB01415)|Ceftriaxone(DB01212)|Cefuroxime(DB01112)|Cephalexin(DB00567)|Chlorpropamide(DB00672)|Cilazapril(DB01340)|Cloxacillin(DB01147)|Cyclacillin(DB01000)|Dicloxacillin(DB00485)|Fosinopril(DB00492)|Glyburide(DB01016)|Moexipril(DB00691)|Nateglinide(DB00731)|Oxacillin(DB00713)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Spirapril(DB01348)|Tolbutamide(DB01124)|Trandolapril(DB00519)|Tranexamic Acid(DB00302)|Valaciclovir(DB00577)|Valganciclovir(DB01610)	TGCTTATAGAACTGTGCAAAG	0.388																																																0													196	183	187					3																	121649781		2203	4300	6503	SO:0001583	missense	6565			BC044572	CCDS3007.1, CCDS54631.1	3q21.1	2013-07-18	2013-07-18		ENSG00000163406	ENSG00000163406		"Solute carriers"	10921	protein-coding gene	gene with protein product		602339	"solute carrier family 15 (H+/peptide transporter), member 2"			7756356	Standard	NM_021082		Approved	PEPT2	uc003eep.2	Q16348	OTTHUMG00000159423	ENST00000489711.1:c.1648A>G	3.37:g.121649781A>G	ENSP00000417085:p.Thr550Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1A5|B4E2A7	Missense_Mutation	SNP	ENST00000489711.1	37	CCDS3007.1	.	.	.	.	.	.	.	.	.	.	A	0.388	-0.925105	0.02377	.	.	ENSG00000163406	ENST00000489711;ENST00000542599;ENST00000295605	T;T	0.02656	4.5;4.21	5.42	1.6	0.23607	.	0.546824	0.20900	N	0.083650	T	0.02156	0.0067	L	0.45228	1.405	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.0	T	0.49051	-0.8979	10	0.08599	T	0.76	-1.3387	3.1896	0.06613	0.5309:0.0:0.1062:0.3628	.	519;550	B4E2A7;Q16348	.;S15A2_HUMAN	A	550;512;519	ENSP00000417085:T550A;ENSP00000295605:T519A	ENSP00000295605:T519A	T	+	1	0	SLC15A2	123132471	0.000000	0.05858	0.036000	0.18154	0.509000	0.34042	0.828000	0.27435	0.109000	0.17891	0.528000	0.53228	ACT		0.388	SLC15A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355239.1	NM_021082		G	121649781	A	G	121649781	3	3	611	1	0	0	0	0	1	0	0	0	14412	43	2	3	1718	3	SLC15A2	3	121649781	Missense_Mutation	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	67805456	121649781	76372649	27	37152										
HEG1	57493	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	124748131	124748131	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ttgttctacttgaagagccgCtccttcctctagcatctgct	7	13	3	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr3:124748131C>T	ENST00000311127.4	-	2	585	c.518G>A	c.(517-519)aGc>aAc	p.S173N		NM_020733.1	NP_065784.1	Q9ULI3	HEG1_HUMAN	heart development protein with EGF-like domains 1	173					cardiac atrium morphogenesis (GO:0003209)|cell-cell junction assembly (GO:0007043)|endothelial cell morphogenesis (GO:0001886)|in utero embryonic development (GO:0001701)|lung development (GO:0030324)|lymph circulation (GO:0003017)|lymph vessel development (GO:0001945)|multicellular organism growth (GO:0035264)|pericardium development (GO:0060039)|post-embryonic development (GO:0009791)|regulation of body fluid levels (GO:0050878)|vasculogenesis (GO:0001570)|venous blood vessel morphogenesis (GO:0048845)|ventricular septum development (GO:0003281)	cell-cell junction (GO:0005911)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(7)|lung(24)|ovary(2)|urinary_tract(4)	47						TGAAGAGCCGCTCCTTCCTCT	0.512																																																0													92	89	90					3																	124748131		1958	4173	6131	SO:0001583	missense	57493			AK074987	CCDS46898.1	3q21.2	2013-03-08	2013-03-08		ENSG00000173706	ENSG00000173706			29227	protein-coding gene	gene with protein product	"heart of glass"	614182	"HEG homolog 1 (zebrafish)"			10574462, 19151727, 23007647	Standard	NM_020733		Approved	KIAA1237, HEG	uc003ehs.4	Q9ULI3	OTTHUMG00000159486	ENST00000311127.4:c.518G>A	3.37:g.124748131C>T	ENSP00000311502:p.Ser173Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NX66|Q8NC40|Q9BSV0	Missense_Mutation	SNP	ENST00000311127.4	37	CCDS46898.1	.	.	.	.	.	.	.	.	.	.	C	0.917	-0.717219	0.03182	.	.	ENSG00000173706	ENST00000311127	T	0.44482	0.92	5.38	-10.8	0.00216	.	.	.	.	.	T	0.09158	0.0226	N	0.01352	-0.895	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.13361	-1.0512	9	0.02654	T	1	.	5.997	0.19499	0.0926:0.2061:0.5365:0.1648	.	173;173	Q9ULI3-2;Q9ULI3	.;HEG1_HUMAN	N	173	ENSP00000311502:S173N	ENSP00000311502:S173N	S	-	2	0	HEG1	126230821	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.000000	0.03693	-1.869000	0.01141	-1.298000	0.01336	AGC		0.512	HEG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355732.2	XM_087386		T	124748131	C	T	124748131	3	4	611	1	0	0	0	0	1	0	0	0	7051	797	28	2	3691	2	HEG1	3	124748131	Missense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	3098350	124748131	73274299	28	37153										
COL6A5	256076	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	130095526	130095526	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tctccgtgggggtgcagaaaGcttctgaggaaaatctgaag	14	7	3	3			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr3:130095526G>T	ENST00000432398.2	+	3	1008	c.514G>T	c.(514-516)Gct>Tct	p.A172S	COL6A5_ENST00000265379.6_Missense_Mutation_p.A172S	NM_153264.5	NP_694996.5	A8TX70	CO6A5_HUMAN	collagen, type VI, alpha 5	172	Nonhelical region.|VWFA 1. {ECO:0000255|PROSITE- ProRule:PRU00219}.				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)				endometrium(6)|kidney(4)|large_intestine(8)|lung(19)|pancreas(2)|prostate(3)|stomach(1)|urinary_tract(1)	44						GGTGCAGAAAGCTTCTGAGGA	0.502																																																0													81	81	81					3																	130095526		692	1591	2283	SO:0001583	missense	256076			AK093199		3q21.3	2013-01-16	2010-05-24	2010-05-24	ENSG00000172752	ENSG00000172752		"Collagens"	26674	protein-coding gene	gene with protein product	"von Willebrand factor A domain containing 4"	611916	"collagen, type XXIX, alpha 1"	COL29A1		17850181	Standard	NM_153264		Approved	FLJ35880, VWA4	uc010htk.2	A8TX70	OTTHUMG00000159712	ENST00000432398.2:c.514G>T	3.37:g.130095526G>T	ENSP00000390895:p.Ala172Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A9J6L2|A9J6L4|A9J6L6|A9J6L7|A9J6M0|A9J6M1|A9J6M2|B5MEA7|Q6ZW26|Q8NA36	Missense_Mutation	SNP	ENST00000432398.2	37		.	.	.	.	.	.	.	.	.	.	G	6.971	0.549091	0.13312	.	.	ENSG00000172752	ENST00000432398;ENST00000265379	T;T	0.80214	-1.35;-1.35	5.14	3.34	0.38264	.	.	.	.	.	T	0.80989	0.4730	M	0.72479	2.2	0.09310	N	0.99999	P	0.38582	0.638	P	0.45577	0.486	T	0.69379	-0.5161	9	0.38643	T	0.18	.	6.3024	0.21119	0.1591:0.0:0.6941:0.1469	.	172	A8TX70-2	.	S	172	ENSP00000390895:A172S;ENSP00000265379:A172S	ENSP00000265379:A172S	A	+	1	0	COL6A5	131578216	0.445000	0.25657	0.010000	0.14722	0.017000	0.09413	2.715000	0.47210	0.671000	0.31185	-0.259000	0.10710	GCT		0.502	COL6A5-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_153264		T	130095526	G	T	130095526	3	4	611	1	0	0	0	0	1	0	0	0	3704	971	34	4	520	4	COL6A5	3	130095526	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	5347395	130095526	67926904	29	37154										
TBL1XR1	79718	broad.mit.edu;bcgsc.ca	37	chr3	176771657	176771657	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	agggcaccatttatattggaCtgactgatatggctttctat	9	7	1	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr3:176771657C>G	ENST00000430069.1	-	4	367	c.108G>C	c.(106-108)caG>caC	p.Q36H	TBL1XR1_ENST00000457928.2_Missense_Mutation_p.Q36H			Q9BZK7	TBL1R_HUMAN	transducin (beta)-like 1 X-linked receptor 1	36	LisH. {ECO:0000255|PROSITE- ProRule:PRU00126}.				canonical Wnt signaling pathway (GO:0060070)|cellular lipid metabolic process (GO:0044255)|chromatin modification (GO:0016568)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle microtubule (GO:0005876)|transcriptional repressor complex (GO:0017053)	beta-catenin binding (GO:0008013)|histone binding (GO:0042393)|protein N-terminus binding (GO:0047485)|transcription corepressor activity (GO:0003714)|transcription regulatory region DNA binding (GO:0044212)			breast(3)|endometrium(1)|haematopoietic_and_lymphoid_tissue(4)|kidney(2)|large_intestine(7)|liver(1)|lung(7)|ovary(1)|prostate(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	31	all_cancers(143;1.44e-17)|Ovarian(172;0.00163)|Breast(254;0.214)	Acute lymphoblastic leukemia(1;0.00599)|all_hematologic(1;0.0632)|Prostate(884;0.215)	OV - Ovarian serous cystadenocarcinoma(80;9.83e-31)			TTATATTGGACTGACTGATAT	0.378																																																0													104	97	100					3																	176771657		1867	4107	5974	SO:0001583	missense	79718			AK022956	CCDS46961.1	3q26.33	2013-01-10	2008-01-17		ENSG00000177565	ENSG00000177565		"WD repeat domain containing"	29529	protein-coding gene	gene with protein product		608628	"transducin (beta)-like 1X-linked receptor 1"			11063877, 11931768	Standard	NM_024665		Approved	IRA1, FLJ12894, TBLR1, C21, DC42	uc003fix.4	Q9BZK7	OTTHUMG00000157140	ENST00000430069.1:c.108G>C	3.37:g.176771657C>G	ENSP00000405574:p.Gln36His	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNQ9|Q14DC3|Q9H2I1|Q9H9A1	Missense_Mutation	SNP	ENST00000430069.1	37	CCDS46961.1	.	.	.	.	.	.	.	.	.	.	C	18.79	3.698324	0.68386	.	.	ENSG00000177565	ENST00000430069;ENST00000457928;ENST00000352800;ENST00000437738;ENST00000450267;ENST00000431674;ENST00000422066;ENST00000443315;ENST00000422442;ENST00000427349	T;T	0.54279	0.58;0.58	5.21	4.27	0.50696	LisH dimerisation motif (2);	0.000000	0.85682	D	0.000000	T	0.46347	0.1388	L	0.54323	1.7	0.58432	D	0.999999	B	0.32731	0.382	B	0.28553	0.091	T	0.49283	-0.8956	10	0.62326	D	0.03	-20.5183	11.9894	0.53166	0.0:0.9084:0.0:0.0916	.	36	Q9BZK7	TBL1R_HUMAN	H	36	ENSP00000405574:Q36H;ENSP00000413251:Q36H	ENSP00000263964:Q36H	Q	-	3	2	TBL1XR1	178254351	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	3.260000	0.51523	1.202000	0.43218	0.655000	0.94253	CAG		0.378	TBL1XR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347587.3	NM_024665		G	176771657	C	G	176771657	3	3	611	1	0	0	0	0	1	0	0	0	15652	564	20	4	1488	4	TBL1XR1	3	176771657	Missense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	46676131	176771657	21250773	30	37155										
KLHL24	54800	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	183381404	183381404	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	atcagagtatgcagtctgtgCtctaaggaatgacattcttg	10	7	4	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr3:183381404C>A	ENST00000454652.2	+	5	1465	c.1079C>A	c.(1078-1080)gCt>gAt	p.A360D	KLHL24_ENST00000242810.6_Missense_Mutation_p.A360D|KLHL24_ENST00000476808.1_Missense_Mutation_p.A360D	NM_017644.3	NP_060114.2	Q6TFL4	KLH24_HUMAN	kelch-like family member 24	360						cell projection (GO:0042995)|cytoplasm (GO:0005737)				NS(2)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(5)|lung(10)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	27	all_cancers(143;2.88e-10)|Ovarian(172;0.0303)		all cancers(12;1.43e-42)|Epithelial(37;1.73e-36)|OV - Ovarian serous cystadenocarcinoma(80;8.75e-22)			GCAGTCTGTGCTCTAAGGAAT	0.353																																																0													104	99	101					3																	183381404		2203	4300	6503	SO:0001583	missense	54800				CCDS3246.1	3q27.1	2013-02-22	2013-02-22		ENSG00000114796	ENSG00000114796		"Kelch-like", "BTB/POZ domain containing"	25947	protein-coding gene	gene with protein product		611295	"kelch-like 24 (Drosophila)"				Standard	XM_005247552		Approved	DRE1, FLJ20059	uc003flv.3	Q6TFL4	OTTHUMG00000156911	ENST00000454652.2:c.1079C>A	3.37:g.183381404C>A	ENSP00000395012:p.Ala360Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A5PLN8|Q9H620|Q9NXT9	Missense_Mutation	SNP	ENST00000454652.2	37	CCDS3246.1	.	.	.	.	.	.	.	.	.	.	C	21.0	4.086083	0.76642	.	.	ENSG00000114796	ENST00000242810;ENST00000454652;ENST00000476808	T;T;T	0.79352	-1.26;-1.26;-1.26	5.34	5.34	0.76211	Galactose oxidase, beta-propeller (1);	0.047926	0.85682	D	0.000000	D	0.85048	0.5608	M	0.80847	2.515	0.80722	D	1	B;B	0.30146	0.131;0.27	B;B	0.42593	0.04;0.392	D	0.84947	0.0869	10	0.66056	D	0.02	.	19.4149	0.94690	0.0:1.0:0.0:0.0	.	360;360	Q6TFL4-2;Q6TFL4	.;KLH24_HUMAN	D	360	ENSP00000242810:A360D;ENSP00000395012:A360D;ENSP00000419010:A360D	ENSP00000242810:A360D	A	+	2	0	KLHL24	184864098	1.000000	0.71417	0.998000	0.56505	0.993000	0.82548	7.445000	0.80570	2.675000	0.91044	0.462000	0.41574	GCT		0.353	KLHL24-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346586.2	NM_017644		A	183381404	C	A	183381404	3	1	611	1	0	0	0	0	1	0	0	0	8386	797	28	4	1085	4	KLHL24	3	183381404	Missense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	6609747	183381404	14641026	31	37156										
YEATS2	55689	broad.mit.edu;bcgsc.ca	37	chr3	183476664	183476664	+	Frame_Shift_Del	DEL	A	A	-													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tatcaggaagtcctacaaacAagatctccacggcttctcag							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr3:183476664delA	ENST00000305135.5	+	13	1762	c.1567delA	c.(1567-1569)aagfs	p.K523fs		NM_018023.4	NP_060493.3	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	523					chromatin organization (GO:0006325)|histone H3 acetylation (GO:0043966)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)	Ada2/Gcn5/Ada3 transcription activator complex (GO:0005671)|mitotic spindle (GO:0072686)	TBP-class protein binding (GO:0017025)			NS(1)|breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(24)|ovary(3)|prostate(2)|skin(3)	49	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)			TCCTACAAACAAGATCTCCAC	0.373																																																0													138	126	129					3																	183476664		1834	4080	5914	SO:0001589	frameshift_variant	55689			AB033023	CCDS43175.1	3q27.3	2004-08-18			ENSG00000163872	ENSG00000163872			25489	protein-coding gene	gene with protein product		613373				10574462	Standard	NM_018023		Approved	FLJ10201, FLJ12841, FLJ13308, KIAA1197	uc003fly.2	Q9ULM3	OTTHUMG00000156898	ENST00000305135.5:c.1567delA	3.37:g.183476664delA	ENSP00000306983:p.Lys523fs	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2B9|D3DNS9|Q641P6|Q9NW96	Frame_Shift_Del	DEL	ENST00000305135.5	37	CCDS43175.1																																																																																				0.373	YEATS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346507.2	NM_018023		-	183476664	A	-	183476664	7	5	611	1	0	1	0	1	0	0	0	0	17484	131	5	0	1613	0	YEATS2	3	183476664	Frame_Shift_Del	DEL	A	TCGA-HE-A5NK-01A-11D-A26P-10	95260	183476664	14545766	32	37157										
CNGA1	1259	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	47938977	47938977	+	Frame_Shift_Del	DEL	T	T	-													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	aatgtacatctctcgtccgaTatcccctttcttgcaaatat							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr4:47938977delT	ENST00000514170.1	-	11	1853	c.1534delA	c.(1534-1536)atcfs	p.I512fs	CNGA1_ENST00000544810.1_Frame_Shift_Del_p.I512fs|CNGA1_ENST00000420489.2_Frame_Shift_Del_p.I512fs|CNGA1_ENST00000402813.3_Frame_Shift_Del_p.I581fs|CNGA1_ENST00000358519.4_Frame_Shift_Del_p.I512fs			P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1	512					phototransduction, visible light (GO:0007603)|potassium ion transmembrane transport (GO:0071805)|regulation of membrane potential (GO:0042391)|regulation of rhodopsin mediated signaling pathway (GO:0022400)|rhodopsin mediated signaling pathway (GO:0016056)|transport (GO:0006810)|visual perception (GO:0007601)	integral component of plasma membrane (GO:0005887)|photoreceptor outer segment membrane (GO:0042622)|plasma membrane (GO:0005886)	cGMP binding (GO:0030553)|intracellular cAMP activated cation channel activity (GO:0005222)|intracellular cGMP activated cation channel activity (GO:0005223)|voltage-gated potassium channel activity (GO:0005249)			central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(12)|ovary(3)|urinary_tract(1)	28						TCTCGTCCGATATCCCCTTTC	0.463																																																0													111	112	111					4																	47938977		2138	4277	6415	SO:0001589	frameshift_variant	1259			M84741	CCDS43226.1, CCDS47050.1	4p12	2013-02-14				ENSG00000198515		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	2148	protein-coding gene	gene with protein product		123825		CNCG1, CNCG		7683629, 16382102	Standard	NM_000087		Approved	RCNC1, RCNCa, CNG1, RP49	uc003gxu.3	P29973		ENST00000514170.1:c.1534delA	4.37:g.47938977delT	ENSP00000426862:p.Ile512fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7K6|J3KPZ2|Q16279|Q16485|Q4W5E3	Frame_Shift_Del	DEL	ENST00000514170.1	37	CCDS43226.1																																																																																				0.463	CNGA1-006	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000372070.2	NM_000087		-	47938977	T	-	47938977	7	5	611	1	0	1	0	1	0	0	0	0	3598	1406	49	0	542	0	CNGA1	4	47938977	Frame_Shift_Del	DEL	T	TCGA-HE-A5NK-01A-11D-A26P-10		47938977	143215299	33	37158										
USO1	8615	broad.mit.edu	37	chr4	76726384	76726384	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ggtagattgcgagaagagatAgaagaattaaaacgtaatca	11	3	1	5			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr4:76726384A>G	ENST00000538159.1	+	20	2244	c.2244A>G	c.(2242-2244)atA>atG	p.I748M	USO1_ENST00000514213.2_Missense_Mutation_p.I724M			O60763	USO1_HUMAN	USO1 vesicle transport factor	739					ER to Golgi vesicle-mediated transport (GO:0006888)|Golgi vesicle docking (GO:0048211)|intracellular protein transport (GO:0006886)|membrane fusion (GO:0061025)|mitotic cell cycle (GO:0000278)|transcytosis (GO:0045056)|vesicle fusion with Golgi apparatus (GO:0048280)	endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi stack (GO:0005795)|membrane (GO:0016020)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)|protein transporter activity (GO:0008565)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(7)|ovary(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	24			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			GAGAAGAGATAGAAGAATTAA	0.363																																																0													62	59	60					4																	76726384		1844	4090	5934	SO:0001583	missense	8615			AL832010	CCDS75144.1	4q21.1	2012-12-10	2012-12-10		ENSG00000138768	ENSG00000138768			30904	protein-coding gene	gene with protein product	"vesicle docking protein", "transcytosis associated protein"	603344	"USO1 homolog, vesicle docking protein (yeast)", "USO1 vesicle docking protein homolog (yeast)"			9478999, 9150144, 12077354, 15979508, 14736916	Standard	XM_006714395		Approved	TAP, VDP, p115	uc003hiu.3	O60763	OTTHUMG00000160952	ENST00000538159.1:c.2244A>G	4.37:g.76726384A>G	ENSP00000440586:p.Ile748Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAQ0|Q6PK63|Q86TB8|Q8N592	Missense_Mutation	SNP	ENST00000538159.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	10.94|10.94	1.493406|1.493406	0.26774|0.26774	.|.	.|.	ENSG00000138768|ENSG00000138768	ENST00000508939;ENST00000538159;ENST00000514213;ENST00000264904|ENST00000441296	.|.	.|.	.|.	5.7|5.7	1.58|1.58	0.23477|0.23477	Armadillo-type fold (1);|.	0.332013|.	0.36815|.	N|.	0.002383|.	T|.	0.34077|.	0.0885|.	L|L	0.47716|0.47716	1.5|1.5	0.29331|0.29331	N|N	0.866689|0.866689	P;P|.	0.48089|.	0.905;0.664|.	B;B|.	0.42555|.	0.391;0.115|.	T|.	0.32428|.	-0.9907|.	9|.	0.45353|.	T|.	0.12|.	.|.	1.9891|1.9891	0.03442|0.03442	0.4271:0.254:0.0733:0.2456|0.4271:0.254:0.0733:0.2456	.|.	748;739|.	F5GYR8;O60763|.	.;USO1_HUMAN|.	M|W	574;748;724;667|415	.|.	ENSP00000264904:I667M|.	I|X	+|+	3|2	3|0	USO1|USO1	76945408|76945408	0.998000|0.998000	0.40836|0.40836	0.998000|0.998000	0.56505|0.56505	0.316000|0.316000	0.28119|0.28119	0.503000|0.503000	0.22610|0.22610	0.399000|0.399000	0.25367|0.25367	-0.757000|-0.757000	0.03467|0.03467	ATA|TAG		0.363	USO1-202	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_003715		G	76726384	A	G	76726384	3	3	611	1	0	0	0	0	1	0	0	0	17051	410	15	3	2132	3	USO1	4	76726384	Missense_Mutation	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	28787407	76726384	114427892	34	37159										
WDFY3	23001	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	85716095	85716095	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tgtgacggtattatttgtagGagcattatgaggggccaaac	13	5	0	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr4:85716095G>T	ENST00000295888.4	-	20	3612	c.3205C>A	c.(3205-3207)Cct>Act	p.P1069T	WDFY3_ENST00000322366.6_Missense_Mutation_p.P1069T	NM_014991.4	NP_055806.2	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3	1069					aggrephagy (GO:0035973)|positive regulation of macroautophagy (GO:0016239)	autophagic vacuole (GO:0005776)|cytoplasm (GO:0005737)|extrinsic component of membrane (GO:0019898)|inclusion body (GO:0016234)|nuclear envelope (GO:0005635)|PML body (GO:0016605)	1-phosphatidylinositol binding (GO:0005545)|beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity (GO:0003831)|metal ion binding (GO:0046872)			breast(5)|central_nervous_system(5)|endometrium(15)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(32)|lung(50)|ovary(3)|prostate(5)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	134		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TTATTTGTAGGAGCATTATGA	0.378																																																0													72	69	70					4																	85716095		2203	4300	6503	SO:0001583	missense	23001			AB023210	CCDS3609.1	4q21.3	2013-01-09			ENSG00000163625	ENSG00000163625		"Zinc fingers, FYVE domain containing", "WD repeat domain containing"	20751	protein-coding gene	gene with protein product						10231032	Standard	NM_014991		Approved	KIAA0993, ALFY, ZFYVE25	uc003hpd.3	Q8IZQ1	OTTHUMG00000130424	ENST00000295888.4:c.3205C>A	4.37:g.85716095G>T	ENSP00000295888:p.Pro1069Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5K5|Q6P0Q5|Q8N1T2|Q8NAV6|Q96BS7|Q96D33|Q96N85|Q9Y2J7	Missense_Mutation	SNP	ENST00000295888.4	37	CCDS3609.1	.	.	.	.	.	.	.	.	.	.	G	3.505	-0.100986	0.06967	.	.	ENSG00000163625	ENST00000322366;ENST00000295888	T;T	0.40476	1.03;1.03	5.44	5.44	0.79542	.	0.000000	0.85682	D	0.000000	T	0.30417	0.0764	N	0.24115	0.695	0.80722	D	1	B	0.12013	0.005	B	0.11329	0.006	T	0.14643	-1.0465	10	0.07325	T	0.83	.	19.6264	0.95679	0.0:0.0:1.0:0.0	.	1069	Q8IZQ1	WDFY3_HUMAN	T	1069	ENSP00000318466:P1069T;ENSP00000295888:P1069T	ENSP00000295888:P1069T	P	-	1	0	WDFY3	85935119	1.000000	0.71417	0.996000	0.52242	0.219000	0.24729	7.424000	0.80242	2.717000	0.92951	0.655000	0.94253	CCT		0.378	WDFY3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252811.2	NM_014991		T	85716095	G	T	85716095	3	4	611	1	0	0	0	0	1	0	0	0	17282	1174	41	4	7571	4	WDFY3	4	85716095	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	8989711	85716095	105438181	35	37160										
C4orf37	285555	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	98893529	98893529	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tgcacttttcttctgtttctTtgagcagatatttctaacac	5	9	4	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr4:98893529T>C	ENST00000295268.3	-	7	924	c.835A>G	c.(835-837)Aag>Gag	p.K279E		NM_174952.2	NP_777612.1	Q8N412	STPG2_HUMAN	sperm-tail PG-rich repeat containing 2	279			K -> R (in dbSNP:rs7654193).														TTCTGTTTCTTTGAGCAGATA	0.358																																																0													71	71	71					4																	98893529		2203	4300	6503	SO:0001583	missense	285555			BC036870	CCDS3645.1	4q22.3-q23	2013-10-11	2012-07-30	2012-07-30	ENSG00000163116	ENSG00000163116			28712	protein-coding gene	gene with protein product			"chromosome 4 open reading frame 37"	C4orf37		23031811	Standard	NM_174952		Approved	MGC46496	uc003htt.2	Q8N412	OTTHUMG00000131009	ENST00000295268.3:c.835A>G	4.37:g.98893529T>C	ENSP00000295268:p.Lys279Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000295268.3	37	CCDS3645.1	.	.	.	.	.	.	.	.	.	.	T	0.011	-1.723977	0.00694	.	.	ENSG00000163116	ENST00000295268	T	0.11604	2.76	5.45	1.74	0.24563	.	0.432965	0.22937	N	0.053831	T	0.06005	0.0156	L	0.27053	0.805	0.09310	N	1	B	0.11235	0.004	B	0.16289	0.015	T	0.34800	-0.9814	9	.	.	.	-8.5472	4.1354	0.10169	0.0:0.3996:0.2191:0.3813	.	279	Q8N412	CD037_HUMAN	E	279	ENSP00000295268:K279E	.	K	-	1	0	C4orf37	99112552	0.115000	0.22152	0.080000	0.20451	0.292000	0.27327	0.392000	0.20801	0.901000	0.36495	0.455000	0.32223	AAG		0.358	STPG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253642.1	NM_174952		C	98893529	T	C	98893529	3	2	611	1	0	0	0	0	1	0	0	0	2269	1850	64	3	564	3	C4orf37	4	98893529	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	13177434	98893529	92260747	36	37161										
PDE5A	8654	ucsc.edu;bcgsc.ca	37	chr4	120528177	120528177	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	agcactggtccccttcatcaTgatcaaaccttggaggggtt	10	11	3	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr4:120528177T>A	ENST00000354960.3	-	2	747	c.428A>T	c.(427-429)cAt>cTt	p.H143L	PDE5A_ENST00000394439.1_Missense_Mutation_p.H91L|PDE5A_ENST00000264805.5_Missense_Mutation_p.H101L	NM_001083.3	NP_001074.2	O76074	PDE5A_HUMAN	phosphodiesterase 5A, cGMP-specific	143					blood coagulation (GO:0007596)|cGMP catabolic process (GO:0046069)|negative regulation of cardiac muscle contraction (GO:0055118)|negative regulation of T cell proliferation (GO:0042130)|positive regulation of cardiac muscle hypertrophy (GO:0010613)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of oocyte development (GO:0060282)|relaxation of cardiac muscle (GO:0055119)|signal transduction (GO:0007165)	cytosol (GO:0005829)	3',5'-cyclic-GMP phosphodiesterase activity (GO:0047555)|3',5'-cyclic-nucleotide phosphodiesterase activity (GO:0004114)|cGMP binding (GO:0030553)|metal ion binding (GO:0046872)			breast(4)|endometrium(2)|kidney(3)|large_intestine(8)|lung(7)|prostate(1)|skin(1)|urinary_tract(1)	27					Avanafil(DB06237)|Caffeine(DB00201)|Dipyridamole(DB00975)|Pentoxifylline(DB00806)|Sildenafil(DB00203)|Tadalafil(DB00820)|Theophylline(DB00277)|Udenafil(DB06267)|Vardenafil(DB00862)	CCCTTCATCATGATCAAACCT	0.428																																																0													119	112	114					4																	120528177		2203	4300	6503	SO:0001583	missense	8654			D89094	CCDS3713.1, CCDS34055.1	4q27	2008-05-15			ENSG00000138735	ENSG00000138735	3.1.4.17	"Phosphodiesterases"	8784	protein-coding gene	gene with protein product		603310				9714779, 9642111	Standard	NM_033437		Approved		uc003idh.3	O76074	OTTHUMG00000132971	ENST00000354960.3:c.428A>T	4.37:g.120528177T>A	ENSP00000347046:p.His143Leu	Somatic		WXS	Illumina HiSeq		A0AV69|A8K2C4|O75026|O75887|Q86UI0|Q86V66|Q9Y6Z6	Missense_Mutation	SNP	ENST00000354960.3	37	CCDS3713.1	.	.	.	.	.	.	.	.	.	.	T	0.029	-1.349473	0.01266	.	.	ENSG00000138735	ENST00000354960;ENST00000394439;ENST00000264805;ENST00000420633	T;T;T;T	0.08193	3.12;3.12;3.12;3.12	5.51	0.545	0.17190	.	1.839920	0.02500	N	0.090345	T	0.03608	0.0103	N	0.08118	0	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.30851	-0.9964	10	0.02654	T	1	.	2.3607	0.04307	0.1028:0.1584:0.2143:0.5245	.	143;101	O76074;O76074-2	PDE5A_HUMAN;.	L	143;91;101;91	ENSP00000347046:H143L;ENSP00000377957:H91L;ENSP00000264805:H101L;ENSP00000416309:H91L	ENSP00000264805:H101L	H	-	2	0	PDE5A	120747625	0.000000	0.05858	0.019000	0.16419	0.569000	0.35902	0.454000	0.21827	0.076000	0.16826	0.459000	0.35465	CAT		0.428	PDE5A-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256529.1	NM_001083		A	120528177	T	A	120528177	3	1	611	1	0	0	0	0	1	0	0	0	11651	1464	51	5	2279	5	PDE5A	4	120528177	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	21634648	120528177	70626099	37	37162										
NR3C2	4306	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	149356416	149356416	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	agccgatcgtgataaagataTtgtaccttgagcaccaatcc	8	10	0	3			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr4:149356416T>C	ENST00000358102.3	-	2	1959	c.1597A>G	c.(1597-1599)Ata>Gta	p.I533V	NR3C2_ENST00000512865.1_Missense_Mutation_p.I533V|NR3C2_ENST00000355292.3_Missense_Mutation_p.I533V|NR3C2_ENST00000511528.1_Missense_Mutation_p.I533V|NR3C2_ENST00000344721.4_Missense_Mutation_p.I533V	NM_000901.4|NM_001166104.1	NP_000892.2|NP_001159576.1	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	533	Modulating.				gene expression (GO:0010467)|signal transduction (GO:0007165)|transcription initiation from RNA polymerase II promoter (GO:0006367)	endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|receptor complex (GO:0043235)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|steroid binding (GO:0005496)|steroid hormone receptor activity (GO:0003707)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(14)|liver(1)|lung(11)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	41	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Drospirenone(DB01395)|Eplerenone(DB00700)|Felodipine(DB01023)|Fludrocortisone(DB00687)|Fluticasone Propionate(DB00588)|Nimodipine(DB00393)|Progesterone(DB00396)|Spironolactone(DB00421)	GATAAAGATATTGTACCTTGA	0.483																																					Melanoma(27;428 957 40335 51025 51111)											0													121	112	115					4																	149356416		2203	4300	6503	SO:0001583	missense	4306			M16801	CCDS3772.1, CCDS54811.1	4q31	2013-01-16			ENSG00000151623	ENSG00000151623		"Nuclear hormone receptors"	7979	protein-coding gene	gene with protein product		600983		MLR		2558856	Standard	NM_000901		Approved	MR	uc003ilj.4	P08235	OTTHUMG00000161455	ENST00000358102.3:c.1597A>G	4.37:g.149356416T>C	ENSP00000350815:p.Ile533Val	Somatic		WXS	Illumina HiSeq	Phase_I	B0ZBF5|B0ZBF7|Q2NKL1|Q96KQ8|Q96KQ9	Missense_Mutation	SNP	ENST00000358102.3	37	CCDS3772.1	.	.	.	.	.	.	.	.	.	.	T	13.43	2.234464	0.39498	.	.	ENSG00000151623	ENST00000344721;ENST00000355292;ENST00000358102;ENST00000512865;ENST00000544252;ENST00000342437;ENST00000511528	D;D;D;D;D;D	0.90069	-2.6;-2.61;-2.6;-2.17;-2.18;-2.61	5.51	5.51	0.81932	.	0.037872	0.85682	D	0.000000	T	0.80839	0.4700	N	0.24115	0.695	0.45806	D	0.998684	B;P	0.41524	0.144;0.753	B;B	0.35550	0.035;0.205	T	0.80576	-0.1321	9	.	.	.	.	15.9104	0.79470	0.0:0.0:0.0:1.0	.	533;533	B0ZBF5;B0ZBF6	.;.	V	533	ENSP00000341390:I533V;ENSP00000347441:I533V;ENSP00000350815:I533V;ENSP00000423510:I533V;ENSP00000343907:I533V;ENSP00000421481:I533V	.	I	-	1	0	NR3C2	149575866	1.000000	0.71417	1.000000	0.80357	0.945000	0.59286	7.615000	0.83006	2.210000	0.71456	0.533000	0.62120	ATA		0.483	NR3C2-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364986.1			C	149356416	T	C	149356416	3	2	611	1	0	0	0	0	1	0	0	0	10638	1493	52	3	1389	3	NR3C2	4	149356416	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	28828239	149356416	41797860	38	37163										
NAF1	92345	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	164061509	164061509	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	cgtaacacataaaatggatgTgcaacaggtccaaatatctc	7	9	1	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr4:164061509T>C	ENST00000274054.2	-	5	937	c.744A>G	c.(742-744)gcA>gcG	p.A248A	NAF1_ENST00000509434.1_5'Flank|NAF1_ENST00000422287.2_Silent_p.A248A	NM_138386.2	NP_612395.2	Q96HR8	NAF1_HUMAN	nuclear assembly factor 1 ribonucleoprotein	248					pseudouridine synthesis (GO:0001522)|ribosome biogenesis (GO:0042254)|rRNA processing (GO:0006364)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|small nucleolar ribonucleoprotein complex (GO:0005732)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			NS(1)|autonomic_ganglia(1)|endometrium(3)|kidney(3)|large_intestine(1)|lung(10)|ovary(2)	21	all_hematologic(180;0.166)	Prostate(90;0.109)				AAAATGGATGTGCAACAGGTC	0.299																																																0													82	90	87					4																	164061509		2203	4291	6494	SO:0001819	synonymous_variant	92345				CCDS3803.1, CCDS47159.1	4q32.2	2013-03-05	2013-03-05			ENSG00000145414			25126	protein-coding gene	gene with protein product			"nuclear assembly factor 1 homolog (S. cerevisiae)"			16618814, 16601202	Standard	NM_138386		Approved		uc003iqj.3	Q96HR8		ENST00000274054.2:c.744A>G	4.37:g.164061509T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DP28|E9PAZ2	Silent	SNP	ENST00000274054.2	37	CCDS3803.1																																																																																				0.299	NAF1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000364684.2	NM_138386		C	164061509	T	C	164061509	2	2	611	1	0	0	0	0	0	0	0	1	10147	1683	59	3		3	NAF1	4	164061509	Silent	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	14705093	164061509	27092767	39	37164										
C5orf42	65250	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	37121780	37121780	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	agggctgggtttgttaggcaAtggtttctgtggtagagttg	17	3	1	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr5:37121780A>G	ENST00000508244.1	-	47	9055	c.8962T>C	c.(8962-8964)Ttg>Ctg	p.L2988L	C5orf42_ENST00000425232.2_Silent_p.L2988L|C5orf42_ENST00000274258.7_Silent_p.L1886L|C5orf42_ENST00000512288.1_5'UTR			Q9H799	CE042_HUMAN	chromosome 5 open reading frame 42	2988						integral component of membrane (GO:0016021)				breast(5)|endometrium(3)|kidney(8)|large_intestine(24)|lung(28)|ovary(4)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	79	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			TTGTTAGGCAATGGTTTCTGT	0.463																																																0													308	265	280					5																	37121780		2203	4300	6503	SO:0001819	synonymous_variant	65250				CCDS34146.1, CCDS34146.2	5p13.2	2014-01-28			ENSG00000197603	ENSG00000197603			25801	protein-coding gene	gene with protein product		614571				22264561	Standard	NM_023073		Approved	FLJ13231, JBTS17	uc011cpa.1	Q9H799	OTTHUMG00000160492	ENST00000508244.1:c.8962T>C	5.37:g.37121780A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8MUB7|B7ZLV7|Q4G174|Q6DK46|Q8N8L4|Q9H5T1|Q9H8T9	Silent	SNP	ENST00000508244.1	37	CCDS34146.2																																																																																				0.463	C5orf42-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360806.1	NM_023073		G	37121780	A	G	37121780	2	3	611	1	0	0	0	0	0	0	0	1	2303	98	4	3		3	C5orf42	5	37121780	Silent	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10		37121780	143793480	40	37165										
ADAMTS6	11174	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	64587271	64587271	+	IGR	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	agtcacgcttgggaggctcaTtatcaaggcaagtaccacgg	12	10	3	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr5:64587271T>A								ADAMTS6 (92679 upstream) : ADAMTS6 (5763 downstream)																							GGGAGGCTCATTATCAAGGCA	0.458																																																0													107	97	101					5																	64587271		2203	4300	6503	SO:0001628	intergenic_variant	11174																															5.37:g.64587271T>A		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP		37		.	.	.	.	.	.	.	.	.	.	T	18.48	3.633123	0.67015	.	.	ENSG00000049192	ENST00000381055;ENST00000464680	D;D	0.90004	-2.6;-2.6	5.26	5.26	0.73747	Metallopeptidase, catalytic domain (1);Peptidase M12B, ADAM/reprolysin (2);	0.000000	0.85682	D	0.000000	D	0.92854	0.7727	L	0.53249	1.67	0.80722	D	1	D;D	0.89917	0.999;1.0	D;D	0.85130	0.987;0.997	D	0.93648	0.6970	10	0.87932	D	0	.	15.4604	0.75353	0.0:0.0:0.0:1.0	.	466;466	D6R9L6;Q9UKP5	.;ATS6_HUMAN	I	466	ENSP00000370443:N466I;ENSP00000423551:N466I	ENSP00000370443:N466I	N	-	2	0	ADAMTS6	64623027	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.578000	0.82498	2.117000	0.64856	0.533000	0.62120	AAT	0	0.458									A	64587271	T	A	64587271	1	1	611	0	1	0	0	0	0	0	0	0	270	1493	52	5		5	ADAMTS6	5	64587271	IGR	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	27465491	64587271	116327989	41	37166										
UTP15	84135	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	72864379	72864379	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gaagatggtggagttcaactTtttgatataagtgggagggc	15	3	1	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr5:72864379T>A	ENST00000296792.4	+	4	573	c.318T>A	c.(316-318)ctT>ctA	p.L106L	UTP15_ENST00000508491.1_Silent_p.L87L|ANKRA2_ENST00000296785.3_5'Flank|UTP15_ENST00000543251.1_5'UTR	NM_001284431.1|NM_032175.2	NP_001271360.1|NP_115551.2	Q8TED0	UTP15_HUMAN	UTP15, U3 small nucleolar ribonucleoprotein, homolog (S. cerevisiae)	106					rRNA processing (GO:0006364)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)			endometrium(1)|kidney(1)|large_intestine(3)|lung(7)|ovary(1)|skin(2)	15		Lung NSC(167;0.00405)|Ovarian(174;0.0129)		OV - Ovarian serous cystadenocarcinoma(47;7.76e-55)		GAGTTCAACTTTTTGATATAA	0.413																																																0													101	103	102					5																	72864379		2203	4300	6503	SO:0001819	synonymous_variant	84135			AL831972	CCDS34186.1, CCDS68893.1, CCDS68894.1	5q13.2	2013-01-10	2006-04-20		ENSG00000164338	ENSG00000164338		"WD repeat domain containing"	25758	protein-coding gene	gene with protein product			"UTP15, U3 small nucleolar ribonucleoprotein, homolog (yeast)"			12477932	Standard	NM_032175		Approved	FLJ12787, NET21, FLJ23637	uc003kcw.1	Q8TED0	OTTHUMG00000162453	ENST00000296792.4:c.318T>A	5.37:g.72864379T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DU75|B4DXK8|Q6IA60|Q96E08|Q9H9F8	Silent	SNP	ENST00000296792.4	37	CCDS34186.1	.	.	.	.	.	.	.	.	.	.	T	10.81	1.454530	0.26161	.	.	ENSG00000164338	ENST00000509005	.	.	.	5.55	-2.87	0.05700	.	.	.	.	.	T	0.51500	0.1678	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.49735	-0.8908	4	.	.	.	.	7.9204	0.29843	0.0:0.4287:0.3982:0.1731	.	.	.	.	Y	133	.	.	F	+	2	0	UTP15	72900135	0.042000	0.20092	0.996000	0.52242	0.996000	0.88848	-1.057000	0.03486	-0.143000	0.11334	0.533000	0.62120	TTT		0.413	UTP15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368965.1	NM_032175		A	72864379	T	A	72864379	2	1	611	1	0	0	0	0	0	0	0	1	17109	1828	64	5		5	UTP15	5	72864379	Silent	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	8277108	72864379	108050881	42	37167										
CCDC112	153733	broad.mit.edu;bcgsc.ca	37	chr5	114603580	114603581	+	Frame_Shift_Ins	INS	-	-	TT													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	aatttgattatctcatactcINSttctctgtattccttgtctc							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr5:114603580_114603581insTT	ENST00000512261.1	-	11	1749_1750	c.1333_1334insAA	c.(1333-1335)agafs	p.R445fs	CCDC112_ENST00000379611.5_Frame_Shift_Ins_p.R528fs|CCDC112_ENST00000395557.4_Frame_Shift_Ins_p.R445fs|CCDC112_ENST00000506442.1_Frame_Shift_Ins_p.R413fs			Q8NEF3	CC112_HUMAN	coiled-coil domain containing 112	445										endometrium(2)|kidney(1)|large_intestine(8)|lung(8)|skin(1)	20		all_cancers(142;0.000523)|all_epithelial(76;6.44e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;4.09e-08)|Epithelial(69;5.28e-08)|all cancers(49;7.06e-06)		ATCTCATACTCTTCTCTGTATT	0.327																																																0																																										SO:0001589	frameshift_variant	153733			BC031242	CCDS4117.1, CCDS34213.1	5q22.3	2009-04-17			ENSG00000164221	ENSG00000164221			28599	protein-coding gene	gene with protein product						12477932	Standard	NM_001040440		Approved	MGC39633	uc003kqz.2	Q8NEF3	OTTHUMG00000128894	ENST00000512261.1:c.1332_1333dupAA	5.37:g.114603581_114603582dupTT	ENSP00000423712:p.Arg445fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6A334	Frame_Shift_Ins	INS	ENST00000512261.1	37	CCDS4117.1																																																																																				0.327	CCDC112-003	PUTATIVE	not_organism_supported|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000370999.1	NM_152549		TT	114603581	-	TT	114603580	7	5	611	1	0	1	1	0	0	0	0	0	2751	913	32	0	10	0	CCDC112	5	114603580	Frame_Shift_Ins	INS	-	TCGA-HE-A5NK-01A-11D-A26P-10	41739201	114603580	66311680	43	37168										
ARSI	340075	bcgsc.ca	37	chr5	149678111	149678111	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tggcagtgtcacctggtccaGgggcaggcagttgggctgct	17	10	1	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr5:149678111G>C	ENST00000328668.7	-	2	955	c.376C>G	c.(376-378)Ctg>Gtg	p.L126V		NM_001012301.2	NP_001012301.1	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I	126					cellular protein metabolic process (GO:0044267)|glycosphingolipid metabolic process (GO:0006687)|post-translational protein modification (GO:0043687)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	arylsulfatase activity (GO:0004065)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(11)|ovary(1)|pancreas(1)|skin(1)|urinary_tract(1)	23			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACCTGGTCCAGGGGCAGGCAG	0.612																																																0													50	56	54					5																	149678111		2186	4287	6473	SO:0001583	missense	340075			AY875937	CCDS34275.1	5q32	2014-03-03	2006-03-07			ENSG00000183876		"Arylsulfatase family"	32521	protein-coding gene	gene with protein product		610009	"arylsulfatase I"			16174644, 24482476	Standard	NM_001012301		Approved	FLJ16069, SPG66	uc003lrv.2	Q5FYB1		ENST00000328668.7:c.376C>G	5.37:g.149678111G>C	ENSP00000333395:p.Leu126Val	Somatic		WXS	Illumina HiSeq	Phase_1	A1L3B0|B3KV22|B7XD03	Missense_Mutation	SNP	ENST00000328668.7	37	CCDS34275.1	.	.	.	.	.	.	.	.	.	.	G	12.98	2.101429	0.37048	.	.	ENSG00000183876	ENST00000328668	D	0.98717	-5.09	4.58	2.64	0.31445	Alkaline phosphatase-like, alpha/beta/alpha (1);Sulfatase (1);Alkaline-phosphatase-like, core domain (1);	0.068615	0.64402	D	0.000011	D	0.97561	0.9201	M	0.71036	2.16	0.80722	D	1	B	0.26147	0.143	B	0.33121	0.158	D	0.94605	0.7799	10	0.59425	D	0.04	.	11.2155	0.48823	0.2441:0.0:0.7559:0.0	.	126	Q5FYB1	ARSI_HUMAN	V	126	ENSP00000333395:L126V	ENSP00000333395:L126V	L	-	1	2	ARSI	149658304	0.998000	0.40836	0.997000	0.53966	0.952000	0.60782	0.925000	0.28791	0.124000	0.18369	-1.134000	0.01955	CTG		0.612	ARSI-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373681.1	NM_001012301		C	149678111	G	C	149678111	3	2	611	1	0	0	0	0	1	0	0	0	994	991	35	4	1337	4	ARSI	5	149678111	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	35074531	149678111	31237149	44	37169										
MRPL22	29093	broad.mit.edu	37	chr5	154346429	154346429	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	agagtatattcagcagcttcGcagccggaccatcgttcaca	9	12	2	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr5:154346429G>A	ENST00000523037.1	+	7	634	c.593G>A	c.(592-594)cGc>cAc	p.R198H	MRPL22_ENST00000518364.1_3'UTR|MRPL22_ENST00000265229.8_Missense_Mutation_p.R118H|MRPL22_ENST00000439747.3_Missense_Mutation_p.R224H|MRPL22_ENST00000522038.1_Missense_Mutation_p.R204H	NM_014180.3	NP_054899.2	Q9NWU5	RM22_HUMAN	mitochondrial ribosomal protein L22	198					translation (GO:0006412)	large ribosomal subunit (GO:0015934)|mitochondrion (GO:0005739)	poly(A) RNA binding (GO:0044822)|structural constituent of ribosome (GO:0003735)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(3)|urinary_tract(2)	10	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CAGCAGCTTCGCAGCCGGACC	0.438																																																0													54	47	50					5																	154346429		2203	4300	6503	SO:0001583	missense	29093			AB051622	CCDS4331.1, CCDS43391.1	5q33.2	2012-09-13			ENSG00000082515	ENSG00000082515		"Mitochondrial ribosomal proteins / large subunits"	14480	protein-coding gene	gene with protein product		611835					Standard	NM_014180		Approved	MRP-L25, RPML25, HSPC158	uc003lvy.4	Q9NWU5	OTTHUMG00000130190	ENST00000523037.1:c.593G>A	5.37:g.154346429G>A	ENSP00000431040:p.Arg198His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGJ8|Q5H9Q1|Q96Q51|Q9P006	Missense_Mutation	SNP	ENST00000523037.1	37	CCDS4331.1	.	.	.	.	.	.	.	.	.	.	G	17.92	3.506467	0.64410	.	.	ENSG00000082515	ENST00000523037;ENST00000265229;ENST00000439747;ENST00000522038	T;T;T;T	0.59772	0.28;0.4;0.24;0.27	5.8	5.8	0.92144	.	0.579484	0.18168	N	0.149546	T	0.74574	0.3734	M	0.79926	2.475	0.58432	D	0.999999	D	0.60575	0.988	P	0.55303	0.773	T	0.75958	-0.3134	10	0.54805	T	0.06	-1.2567	20.0415	0.97592	0.0:0.0:1.0:0.0	.	198	Q9NWU5	RM22_HUMAN	H	198;118;224;204	ENSP00000431040:R198H;ENSP00000265229:R118H;ENSP00000411177:R224H;ENSP00000429039:R204H	ENSP00000265229:R118H	R	+	2	0	MRPL22	154326622	0.996000	0.38824	0.800000	0.32199	0.138000	0.21146	4.728000	0.62000	2.745000	0.94114	0.563000	0.77884	CGC		0.438	MRPL22-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000252508.2			A	154346429	G	A	154346429	3	1	611	1	0	0	0	0	1	0	0	0	9795	1087	38	1	619	1	MRPL22	5	154346429	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	4668318	154346429	26568831	45	37170										
SCUBE3	222663	hgsc.bcm.edu	37	chr6	35182249	35182249	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	cttgtcctgctggtccacgcCcgcgccgcccagtacagcaa	10	18	0	0	rs113302940	byFrequency	TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr6:35182249C>T	ENST00000274938.7	+	1	54	c.54C>T	c.(52-54)gcC>gcT	p.A18A	SCUBE3_ENST00000394681.1_Silent_p.A18A	NM_152753.2	NP_689966.2			signal peptide, CUB domain, EGF-like 3											breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(12)|lung(11)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	37						TGGTCCACGCCCGCGCCGCCC	0.736													C|||	30	0.00599042	0.0045	0.0072	5008	,	,		9874	0.0		0.0189	False		,,,				2504	0.0															0								C		15,4025		0,15,2005	4	5	5		54	1	1	6	dbSNP_132	5	139,7901		0,139,3881	no	coding-synonymous	SCUBE3	NM_152753.2		0,154,5886	TT,TC,CC		1.7289,0.3713,1.2748		18/994	35182249	154,11926	2020	4020	6040	SO:0001819	synonymous_variant	222663			AF452494.1	CCDS4800.1	6p21.3	2008-02-05	2004-05-19	2004-05-21		ENSG00000146197			13655	protein-coding gene	gene with protein product		614708	"CUB domain and EGF-like repeat containing 3"	CEGF3		12270931	Standard	NM_152753		Approved	FLJ34743	uc003okf.1	Q8IX30		ENST00000274938.7:c.54C>T	6.37:g.35182249C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000274938.7	37	CCDS4800.1																																																																																				0.736	SCUBE3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040275.1	NM_152753		T	35182249	C	T	35182249	2	4	611	1	0	0	0	0	0	0	0	1	13959	610	22	2		2	SCUBE3	6	35182249	Silent	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10		35182249	135932818	46	37171										
DEFB113	245927	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	49936558	49936558	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tctctttttctctctgcaacTtctcttgtttttttctgtgg	5	10	5	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr6:49936558T>C	ENST00000398718.1	-	2	80	c.81A>G	c.(79-81)gaA>gaG	p.E27E		NM_001037729.1	NP_001032818.1	Q30KQ7	DB113_HUMAN	defensin, beta 113	27					defense response to bacterium (GO:0042742)	extracellular region (GO:0005576)				breast(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(3)	7	Lung NSC(77;0.042)					TCTCTGCAACTTCTCTTGTTT	0.363																																																0													95	92	93					6																	49936558		1859	4093	5952	SO:0001819	synonymous_variant	245927			DQ012017	CCDS43472.1	6p12.3	2010-03-30			ENSG00000214642	ENSG00000214642		"Defensins, beta"	18094	protein-coding gene	gene with protein product						11854508, 16033865	Standard	NM_001037729		Approved	DEFB-13	uc011dwq.2	Q30KQ7	OTTHUMG00000160210	ENST00000398718.1:c.81A>G	6.37:g.49936558T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000398718.1	37	CCDS43472.1																																																																																				0.363	DEFB113-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359666.1			C	49936558	T	C	49936558	2	2	611	1	0	0	0	0	0	0	0	1	4404	1606	56	3		3	DEFB113	6	49936558	Silent	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	14754309	49936558	121178509	47	37172										
PKHD1	5314	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	51750667	51750667	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	aacaacaaaaaagcttacctGggcaccacctgcactttccc	5	15	0	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr6:51750667G>T	ENST00000371117.3	-	45	7488	c.7213C>A	c.(7213-7215)Cag>Aag	p.Q2405K	PKHD1_ENST00000340994.4_Missense_Mutation_p.Q2405K	NM_138694.3	NP_619639.3	P08F94	PKHD1_HUMAN	polycystic kidney and hepatic disease 1 (autosomal recessive)	2405					cellular calcium ion homeostasis (GO:0006874)|cilium assembly (GO:0042384)|homeostatic process (GO:0042592)|kidney development (GO:0001822)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cellular component movement (GO:0051271)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of protein kinase B signaling (GO:0051898)|positive regulation of cell proliferation (GO:0008284)|regulation of centrosome duplication (GO:0010824)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of TOR signaling (GO:0032006)|single organismal cell-cell adhesion (GO:0016337)	anchored component of external side of plasma membrane (GO:0031362)|apical plasma membrane (GO:0016324)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|mitotic spindle (GO:0072686)|perinuclear region of cytoplasm (GO:0048471)|primary cilium (GO:0072372)	receptor activity (GO:0004872)			NS(1)|autonomic_ganglia(1)|breast(8)|central_nervous_system(5)|cervix(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(59)|lung(139)|ovary(16)|prostate(8)|skin(20)|soft_tissue(1)|stomach(2)|upper_aerodigestive_tract(7)|urinary_tract(5)	304	Lung NSC(77;0.0605)					AAGCTTACCTGGGCACCACCT	0.383																																																0													43	41	42					6																	51750667		2203	4300	6503	SO:0001583	missense	5314			AF480064	CCDS4935.1, CCDS4936.1	6p21.2-p12	2012-11-26	2003-04-16		ENSG00000170927	ENSG00000170927			9016	protein-coding gene	gene with protein product	"tigmin", "polyductin", "fibrocystin"	606702	"TIG multiple domains 1"	TIGM1		9503014	Standard	NM_138694		Approved	ARPKD, FCYT	uc003pah.1	P08F94	OTTHUMG00000014841	ENST00000371117.3:c.7213C>A	6.37:g.51750667G>T	ENSP00000360158:p.Gln2405Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUA2|Q5VUA3|Q5VWV1|Q86Z26|Q8TCZ9	Missense_Mutation	SNP	ENST00000371117.3	37	CCDS4935.1	.	.	.	.	.	.	.	.	.	.	G	15.47	2.841905	0.51057	.	.	ENSG00000170927	ENST00000371117;ENST00000340994;ENST00000393616	T;T	0.79653	-1.29;-1.29	5.81	5.81	0.92471	Pectin lyase fold/virulence factor (1);Pectin lyase fold (1);	0.147468	0.48286	D	0.000193	T	0.69797	0.3151	M	0.67953	2.075	0.34697	D	0.726304	P;B;P	0.40000	0.698;0.313;0.698	B;B;B	0.35353	0.201;0.104;0.167	T	0.72704	-0.4213	10	0.27082	T	0.32	.	17.2257	0.86970	0.0:0.0:1.0:0.0	.	2405;2405;2405	A8MVM9;P08F94-2;P08F94	.;.;PKHD1_HUMAN	K	2405	ENSP00000360158:Q2405K;ENSP00000341097:Q2405K	ENSP00000341097:Q2405K	Q	-	1	0	PKHD1	51858626	0.998000	0.40836	0.941000	0.38009	0.505000	0.33919	3.052000	0.49893	2.756000	0.94617	0.650000	0.86243	CAG		0.383	PKHD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040893.1	NM_138694		T	51750667	G	T	51750667	3	4	611	1	0	0	0	0	1	0	0	0	11978	1357	47	4	5142	4	PKHD1	6	51750667	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	1814109	51750667	119364400	48	37173										
COL9A1	1297	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	70926682	70926682	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	cacagaaaccgggaagcccaGgaggtcccgggggtccaggc	16	13	0	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr6:70926682G>T	ENST00000357250.6	-	38	2842	c.2684C>A	c.(2683-2685)cCt>cAt	p.P895H	COL9A1_ENST00000320755.7_Missense_Mutation_p.P652H|COL9A1_ENST00000489611.1_5'UTR|COL9A1_ENST00000370499.4_Missense_Mutation_p.P652H	NM_001851.4	NP_001842.3	P20849	CO9A1_HUMAN	collagen, type IX, alpha 1	895	Collagen-like 10.|Triple-helical region (COL1).				axon guidance (GO:0007411)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|growth plate cartilage development (GO:0003417)|organ morphogenesis (GO:0009887)|tissue homeostasis (GO:0001894)	collagen type IX trimer (GO:0005594)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	extracellular matrix structural constituent conferring tensile strength (GO:0030020)|metal ion binding (GO:0046872)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(10)|lung(44)|ovary(5)|prostate(2)|skin(6)|stomach(1)|upper_aerodigestive_tract(4)	80						GGGAAGCCCAGGAGGTCCCGG	0.632																																																0													36	44	41					6																	70926682		2203	4300	6503	SO:0001583	missense	1297				CCDS4971.1, CCDS47447.1	6q13	2013-05-07			ENSG00000112280	ENSG00000112280		"Proteoglycans / Extracellular Matrix : Collagen proteoglycans", "Collagens"	2217	protein-coding gene	gene with protein product		120210				1429648	Standard	NM_001851		Approved		uc003pfg.4	P20849	OTTHUMG00000014988	ENST00000357250.6:c.2684C>A	6.37:g.70926682G>T	ENSP00000349790:p.Pro895His	Somatic		WXS	Illumina HiSeq	Phase_I	Q13699|Q13700|Q5TF52|Q6P467|Q96BM8|Q99225|Q9H151|Q9H152|Q9Y6P2|Q9Y6P3	Missense_Mutation	SNP	ENST00000357250.6	37	CCDS4971.1	.	.	.	.	.	.	.	.	.	.	G	12.05	1.820329	0.32145	.	.	ENSG00000112280	ENST00000357250;ENST00000320755;ENST00000370499	D;D;D	0.94280	-3.39;-3.39;-3.39	5.87	5.87	0.94306	.	0.341840	0.28577	N	0.014857	D	0.96009	0.8700	M	0.84773	2.715	0.51482	D	0.999929	P;B;D	0.60575	0.619;0.218;0.988	B;B;P	0.57057	0.245;0.055;0.812	D	0.94708	0.7889	10	0.41790	T	0.15	.	20.1935	0.98237	0.0:0.0:1.0:0.0	.	895;652;444	P20849;P20849-2;B3KWS8	CO9A1_HUMAN;.;.	H	895;652;652	ENSP00000349790:P895H;ENSP00000315252:P652H;ENSP00000359530:P652H	ENSP00000315252:P652H	P	-	2	0	COL9A1	70983403	1.000000	0.71417	0.924000	0.36721	0.411000	0.31082	8.196000	0.89725	2.779000	0.95612	0.591000	0.81541	CCT		0.632	COL9A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041131.2			T	70926682	G	T	70926682	3	4	611	1	0	0	0	0	1	0	0	0	3709	1000	35	4	85	4	COL9A1	6	70926682	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	19176015	70926682	100188385	49	37174										
ALDH8A1	64577	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	135260502	135260502	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ctgcagccatcgctggagctAtcttccaggtcagcaagtag	11	12	2	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr6:135260502A>G	ENST00000265605.2	-	4	562	c.494T>C	c.(493-495)aTa>aCa	p.I165T	RP11-349J5.2_ENST00000416448.2_RNA|ALDH8A1_ENST00000367847.2_Intron|ALDH8A1_ENST00000367845.2_Missense_Mutation_p.I165T	NM_022568.3	NP_072090.1	Q9H2A2	AL8A1_HUMAN	aldehyde dehydrogenase 8 family, member A1	165					9-cis-retinoic acid biosynthetic process (GO:0042904)|retinal metabolic process (GO:0042574)|retinoic acid metabolic process (GO:0042573)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)	retinal dehydrogenase activity (GO:0001758)			NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(16)|ovary(2)|pancreas(1)|prostate(1)|skin(2)	36	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00401)|GBM - Glioblastoma multiforme(68;0.0058)		CGCTGGAGCTATCTTCCAGGT	0.542																																																0													100	87	91					6																	135260502		2203	4300	6503	SO:0001583	missense	64577			AL021939	CCDS5171.1, CCDS5172.1, CCDS55057.1	6q24.1-q25.1	2008-07-03			ENSG00000118514	ENSG00000118514		"Aldehyde dehydrogenases"	15471	protein-coding gene	gene with protein product		606467				11007799	Standard	NM_001193480		Approved	ALDH12	uc003qew.3	Q9H2A2	OTTHUMG00000015623	ENST00000265605.2:c.494T>C	6.37:g.135260502A>G	ENSP00000265605:p.Ile165Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z521|O60793|Q24JS9|Q53GT3|Q5TI80	Missense_Mutation	SNP	ENST00000265605.2	37	CCDS5171.1	.	.	.	.	.	.	.	.	.	.	A	18.58	3.654610	0.67472	.	.	ENSG00000118514	ENST00000265605;ENST00000367845	T;T	0.78364	-1.17;-1.17	5.45	4.29	0.51040	Aldehyde dehydrogenase domain (1);Aldehyde dehydrogenase, N-terminal (1);Aldehyde/histidinol dehydrogenase (1);	0.097324	0.64402	D	0.000001	T	0.79805	0.4509	M	0.72118	2.19	0.80722	D	1	D;D	0.54397	0.958;0.966	P;D	0.64687	0.881;0.928	T	0.78919	-0.2014	10	0.35671	T	0.21	.	11.1526	0.48469	0.9277:0.0:0.0723:0.0	.	165;165	Q9H2A2-2;Q9H2A2	.;AL8A1_HUMAN	T	165	ENSP00000265605:I165T;ENSP00000356819:I165T	ENSP00000265605:I165T	I	-	2	0	ALDH8A1	135302195	1.000000	0.71417	0.338000	0.25549	0.733000	0.41908	7.522000	0.81844	0.909000	0.36697	0.460000	0.39030	ATA		0.542	ALDH8A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042334.2			G	135260502	A	G	135260502	3	3	611	1	0	0	0	0	1	0	0	0	505	449	16	3	985	3	ALDH8A1	6	135260502	Missense_Mutation	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	64333820	135260502	35854565	50	37175										
RBM16	22828	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	155154048	155154048	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ggttctaccggtctatggtgGtccaaaaggcttacatgaag	12	8	2	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr6:155154048G>A	ENST00000367178.3	+	20	3911	c.3335G>A	c.(3334-3336)gGt>gAt	p.G1112D	SCAF8_ENST00000417268.1_Missense_Mutation_p.G1112D|TIAM2_ENST00000461783.3_5'UTR|SCAF8_ENST00000367186.4_Missense_Mutation_p.G1178D	NM_014892.3	NP_055707.3	Q9UPN6	SCAF8_HUMAN	SR-related CTD-associated factor 8	1112					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nuclear matrix (GO:0016363)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)	nucleotide binding (GO:0000166)|RNA binding (GO:0003723)|RNA polymerase core enzyme binding (GO:0043175)			breast(4)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(14)|lung(15)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	46						GTCTATGGTGGTCCAAAAGGC	0.468																																																0													66	72	70					6																	155154048		2203	4300	6503	SO:0001583	missense	22828			AB029039	CCDS5247.1, CCDS69226.1, CCDS75541.1	6q25.1-q25.3	2013-02-12	2011-01-10	2011-01-10	ENSG00000213079	ENSG00000213079		"RNA binding motif (RRM) containing"	20959	protein-coding gene	gene with protein product			"RNA binding motif protein 16"	RBM16		10470851	Standard	NM_001286189		Approved	KIAA1116	uc003qpz.3	Q9UPN6	OTTHUMG00000015877	ENST00000367178.3:c.3335G>A	6.37:g.155154048G>A	ENSP00000356146:p.Gly1112Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z888|Q5TBU6|Q6NSK3|Q9BQN8|Q9BX43	Missense_Mutation	SNP	ENST00000367178.3	37	CCDS5247.1	.	.	.	.	.	.	.	.	.	.	G	19.22	3.784709	0.70222	.	.	ENSG00000213079;ENSG00000213079;ENSG00000213079;ENSG00000146426	ENST00000367178;ENST00000417268;ENST00000367186;ENST00000528928	T;T;T	0.61274	0.18;0.18;0.12	5.97	5.97	0.96955	.	0.000000	0.64402	U	0.000001	T	0.63534	0.2519	L	0.29908	0.895	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.999	T	0.66388	-0.5936	10	0.87932	D	0	.	20.4238	0.99064	0.0:0.0:1.0:0.0	.	1157;1178;1112	B7Z876;B7Z888;Q9UPN6	.;.;SCAF8_HUMAN	D	1112;1112;1178;73	ENSP00000356146:G1112D;ENSP00000413098:G1112D;ENSP00000356154:G1178D	ENSP00000356146:G1112D	G	+	2	0	TIAM2;SCAF8	155195740	1.000000	0.71417	0.999000	0.59377	0.976000	0.68499	5.774000	0.68906	2.828000	0.97474	0.655000	0.94253	GGT		0.468	SCAF8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042798.1	NM_014892		A	155154048	G	A	155154048	3	1	611	1	0	0	0	0	1	0	0	0	13131	1261	44	2	3413	2	RBM16	6	155154048	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	19893546	155154048	15961019	51	37176										
LPA	4018	hgsc.bcm.edu;bcgsc.ca	37	chr6	161071523	161071523	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ggaccacatggctttgctcaGgtgctgctaaaattaaaaca	9	9	1	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr6:161071523G>T	ENST00000316300.5	-	2	100	c.56C>A	c.(55-57)cCt>cAt	p.P19H	LPA_ENST00000447678.1_Missense_Mutation_p.P19H			P08519	APOA_HUMAN	lipoprotein, Lp(a)	2527					blood circulation (GO:0008015)|lipid metabolic process (GO:0006629)|lipid transport (GO:0006869)|lipoprotein metabolic process (GO:0042157)|negative regulation of endopeptidase activity (GO:0010951)|receptor-mediated endocytosis (GO:0006898)|small molecule metabolic process (GO:0044281)	extracellular region (GO:0005576)|plasma lipoprotein particle (GO:0034358)	apolipoprotein binding (GO:0034185)|endopeptidase inhibitor activity (GO:0004866)|fibronectin binding (GO:0001968)|heparin binding (GO:0008201)|serine-type endopeptidase activity (GO:0004252)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(16)|lung(54)|ovary(4)|pancreas(1)|prostate(2)|skin(10)|stomach(1)|urinary_tract(1)	107		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)	GCTTTGCTCAGGTGCTGCTAA	0.433																																																0													129	134	132					6																	161071523		2186	4297	6483	SO:0001583	missense	4018			X06290	CCDS43523.1	6q25-q26	2012-10-02			ENSG00000198670	ENSG00000198670			6667	protein-coding gene	gene with protein product		152200		LP		3670400	Standard	NM_005577		Approved		uc003qtl.3	P08519	OTTHUMG00000015956	ENST00000316300.5:c.56C>A	6.37:g.161071523G>T	ENSP00000321334:p.Pro19His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VTD7|Q9UD88	Missense_Mutation	SNP	ENST00000316300.5	37	CCDS43523.1	.	.	.	.	.	.	.	.	.	.	g	7.332	0.619100	0.14129	.	.	ENSG00000198670	ENST00000316300;ENST00000447678	T;T	0.61627	0.09;0.09	2.71	2.71	0.32032	.	.	.	.	.	T	0.32164	0.0820	L	0.43152	1.355	0.09310	N	1	.	.	.	.	.	.	T	0.16719	-1.0393	7	0.20519	T	0.43	.	9.0216	0.36204	0.0:0.0:1.0:0.0	.	.	.	.	H	19	ENSP00000321334:P19H;ENSP00000395608:P19H	ENSP00000321334:P19H	P	-	2	0	LPA	160991513	0.652000	0.27349	0.137000	0.22149	0.005000	0.04900	4.568000	0.60857	1.519000	0.48950	0.499000	0.49734	CCT		0.433	LPA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042957.1	NM_005577		T	161071523	G	T	161071523	3	4	611	1	0	0	0	0	1	0	0	0	8910	1000	35	4	6218	4	LPA	6	161071523	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	5917475	161071523	10043544	52	37177										
SEPT7	989	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	35923576	35923576	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	aaagggtcagaggaaggcagTatccttggggtgttgctgaa	16	5	1	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr7:35923576T>A	ENST00000435235.1	+	8	1072	c.640T>A	c.(640-642)Tat>Aat	p.Y214N	SEPT7_ENST00000494488.2_Missense_Mutation_p.Y253N|SEPT7_ENST00000399034.2_Missense_Mutation_p.Y268N|SEPT7_ENST00000432293.2_Intron|SEPT7_ENST00000350320.6_Missense_Mutation_p.Y266N|SEPT7_ENST00000399035.3_Missense_Mutation_p.Y266N|SEPT7_ENST00000469679.2_Intron			Q16181	SEPT7_HUMAN	septin 7	267	Septin-type G.				cilium morphogenesis (GO:0060271)|cytokinesis (GO:0000910)|mitotic nuclear division (GO:0007067)|protein heterooligomerization (GO:0051291)|regulation of embryonic cell shape (GO:0016476)	actin cytoskeleton (GO:0015629)|axoneme (GO:0005930)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|kinetochore (GO:0000776)|microtubule cytoskeleton (GO:0015630)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|septin complex (GO:0031105)|stress fiber (GO:0001725)	GTP binding (GO:0005525)|identical protein binding (GO:0042802)|structural molecule activity (GO:0005198)			central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(7)|prostate(1)	14						AGGAAGGCAGTATCCTTGGGG	0.343																																																0													131	122	125					7																	35923576		1847	4086	5933	SO:0001583	missense	989			S72008	CCDS75582.1	7p14.2	2013-01-21	2005-01-11	2005-01-12	ENSG00000122545	ENSG00000122545		"Septins"	1717	protein-coding gene	gene with protein product		603151	"CDC10 cell division cycle 10 homolog (S. cerevisiae)"	CDC10		8037772	Standard	NM_001788		Approved	CDC3, SEPT7A	uc011kau.2	Q16181	OTTHUMG00000155063	ENST00000435235.1:c.640T>A	7.37:g.35923576T>A	ENSP00000413507:p.Tyr214Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q52M76|Q6NX50	Missense_Mutation	SNP	ENST00000435235.1	37		.	.	.	.	.	.	.	.	.	.	T	24.2	4.503094	0.85176	.	.	ENSG00000122545	ENST00000435235;ENST00000399034;ENST00000350320;ENST00000399035;ENST00000537785;ENST00000493670;ENST00000494488	T;T;T;T;T	0.61510	0.1;0.1;0.1;0.1;0.1	4.88	4.88	0.63580	.	0.000000	0.64402	U	0.000001	T	0.78168	0.4241	M	0.86028	2.79	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	T	0.82587	-0.0383	10	0.87932	D	0	.	14.8193	0.70059	0.0:0.0:0.0:1.0	.	212;266;267	B4DNE4;E7EPK1;Q16181	.;.;SEPT7_HUMAN	N	214;268;266;266;212;214;253	ENSP00000413507:Y214N;ENSP00000381992:Y268N;ENSP00000344868:Y266N;ENSP00000381993:Y266N;ENSP00000438395:Y253N	ENSP00000344868:Y266N	Y	+	1	0	SEPT7	35890101	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.037000	0.88933	1.960000	0.56953	0.456000	0.33151	TAT		0.343	SEPT7-001	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000338285.1	NM_001788		A	35923576	T	A	35923576	3	1	611	1	0	0	0	0	1	0	0	0	14082	1638	57	5	827	5	SEPT7	7	35923576	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10		35923576	123215087	53	37178										
AUTS2	26053	broad.mit.edu	37	chr7	70255120	70255120	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gggtgagccggcctacgagaAccccaagaagagctccgagg	15	12	0	4			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr7:70255120A>T	ENST00000342771.4	+	19	3239	c.2918A>T	c.(2917-2919)aAc>aTc	p.N973I	AUTS2_ENST00000406775.2_Missense_Mutation_p.N949I	NM_015570.2	NP_056385.1	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2	973										breast(2)|central_nervous_system(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(14)|ovary(4)|prostate(2)|skin(4)|urinary_tract(1)	50		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)		GCCTACGAGAACCCCAAGAAG	0.697																																																0													19	17	18					7																	70255120		2184	4284	6468	SO:0001583	missense	26053			AF326917	CCDS5539.1, CCDS47601.1, CCDS47602.1	7q11.22	2014-01-06			ENSG00000158321	ENSG00000158321			14262	protein-coding gene	gene with protein product		607270				12160723	Standard	XM_005250257		Approved	KIAA0442, FBRSL2	uc003tvw.4	Q8WXX7	OTTHUMG00000023865	ENST00000342771.4:c.2918A>T	7.37:g.70255120A>T	ENSP00000344087:p.Asn973Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1Y9|L7QET3|L7QF75|Q5D049|Q6PJU5|Q9Y4F2	Missense_Mutation	SNP	ENST00000342771.4	37	CCDS5539.1	.	.	.	.	.	.	.	.	.	.	A	14.15	2.448589	0.43531	.	.	ENSG00000158321	ENST00000406775;ENST00000342771	T;T	0.31769	1.48;1.48	4.63	4.63	0.57726	.	0.318337	0.36665	N	0.002467	T	0.34366	0.0895	L	0.42245	1.32	0.80722	D	1	B;B;B	0.33857	0.429;0.429;0.429	B;B;B	0.43478	0.241;0.421;0.421	T	0.09378	-1.0677	9	.	.	.	-17.0461	14.0636	0.64815	1.0:0.0:0.0:0.0	.	425;949;973	B4DLG0;Q8WXX7-2;Q8WXX7	.;.;AUTS2_HUMAN	I	949;973	ENSP00000385263:N949I;ENSP00000344087:N973I	.	N	+	2	0	AUTS2	69893056	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	3.386000	0.52492	1.723000	0.51488	0.533000	0.62120	AAC		0.697	AUTS2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251971.2			T	70255120	A	T	70255120	3	4	611	1	0	0	0	0	1	0	0	0	1225	43	2	5	3137	5	AUTS2	7	70255120	Missense_Mutation	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	34331544	70255120	88883543	54	37179										
AKAP9	10142	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	91631221	91631221	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ataatttaggcattcactatAaacagcagatagatggttta	7	5	1	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr7:91631221A>T	ENST00000359028.2	+	9	2251	c.2026A>T	c.(2026-2028)Aaa>Taa	p.K676*	AKAP9_ENST00000358100.2_Nonsense_Mutation_p.K676*|AKAP9_ENST00000356239.3_Nonsense_Mutation_p.K664*			Q99996	AKAP9_HUMAN	A kinase (PRKA) anchor protein 9	676	Glu-rich.				G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|Sertoli cell development (GO:0060009)|signal transduction (GO:0007165)|spermatogenesis (GO:0007283)|synaptic transmission (GO:0007268)|transport (GO:0006810)	centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|pericentriolar material (GO:0000242)|voltage-gated potassium channel complex (GO:0008076)	ion channel binding (GO:0044325)|protein complex scaffold (GO:0032947)|receptor binding (GO:0005102)			NS(1)|autonomic_ganglia(2)|breast(14)|central_nervous_system(3)|cervix(1)|endometrium(13)|kidney(12)|large_intestine(35)|lung(49)|ovary(8)|prostate(6)|skin(8)|stomach(1)|urinary_tract(2)	155	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)			CATTCACTATAAACAGCAGAT	0.289			T	BRAF	papillary thyroid																																		Dom	yes		7	7q21-q22	10142	A kinase (PRKA) anchor protein (yotiao) 9		E	0													41	45	44					7																	91631221		2197	4281	6478	SO:0001587	stop_gained	10142			AF091711	CCDS5622.1	7q21-q22	2014-09-17	2013-09-25		ENSG00000127914	ENSG00000127914		"A-kinase anchor proteins", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	379	protein-coding gene	gene with protein product	"A-kinase anchoring protein 450", "AKAP9-BRAF fusion protein", "AKAP120-like protein", "centrosome- and golgi-localized protein kinase N-associated protein", "protein kinase A anchoring protein 9", "A-kinase anchor protein, 350kDa", "protein phosphatase 1, regulatory subunit 45", "yotiao"	604001				9482789, 10390370, 24475373	Standard	NM_147185		Approved	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11	uc003ulg.3	Q99996	OTTHUMG00000131127	ENST00000359028.2:c.2026A>T	7.37:g.91631221A>T	ENSP00000351922:p.Lys676*	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1F0|A4D1F2|A4D1F4|O14869|O43355|O94895|Q75N20|Q9UQH3|Q9UQQ4|Q9Y6B8|Q9Y6Y2	Nonsense_Mutation	SNP	ENST00000359028.2	37		.	.	.	.	.	.	.	.	.	.	A	38	7.134461	0.98085	.	.	ENSG00000127914	ENST00000356239;ENST00000359028;ENST00000358100;ENST00000413120;ENST00000394565	.	.	.	5.73	4.58	0.56647	.	0.000000	0.44483	D	0.000455	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	11.4971	0.50415	0.93:0.0:0.07:0.0	.	.	.	.	X	664;676;676;676;676	.	ENSP00000348573:K664X	K	+	1	0	AKAP9	91469157	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	3.891000	0.56227	2.323000	0.78572	0.529000	0.55759	AAA		0.289	AKAP9-202	KNOWN	basic	protein_coding	protein_coding		NM_005751		T	91631221	A	T	91631221	4	4	611	1	0	0	0	0	0	1	0	0	459	363	13	5	2020	5	AKAP9	7	91631221	Nonsense_Mutation	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	21376101	91631221	67507442	55	37180										
NPTX2	4885	bcgsc.ca	37	chr7	98257767	98257767	+	Frame_Shift_Del	DEL	C	C	-													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gcatttgtcggggagctcagCcagttcaacatatgggaccg							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr7:98257767delC	ENST00000265634.3	+	5	1287	c.1122delC	c.(1120-1122)agcfs	p.S374fs		NM_002523.2	NP_002514.1	P47972	NPTX2_HUMAN	neuronal pentraxin II	374	Pentaxin.				synaptic transmission (GO:0007268)	extracellular region (GO:0005576)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(2)|endometrium(1)|large_intestine(5)|lung(5)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	18	all_cancers(62;2.28e-09)|all_epithelial(64;4.86e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0128)|all_lung(186;0.0142)		STAD - Stomach adenocarcinoma(171;0.215)			GGGAGCTCAGCCAGTTCAACA	0.567																																																0													89	70	76					7																	98257767		2203	4300	6503	SO:0001589	frameshift_variant	4885				CCDS5657.1	7q21.3-q22.1	2008-04-30			ENSG00000106236	ENSG00000106236			7953	protein-coding gene	gene with protein product	"apexin"	600750				8530029	Standard	NM_002523		Approved		uc003upl.2	P47972	OTTHUMG00000154369	ENST00000265634.3:c.1122delC	7.37:g.98257767delC	ENSP00000265634:p.Ser374fs	Somatic		WXS	Illumina HiSeq	Phase_1	A4D267|Q86XV7|Q96G70	Frame_Shift_Del	DEL	ENST00000265634.3	37	CCDS5657.1																																																																																				0.567	NPTX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000334982.1	NM_002523		-	98257767	C	-	98257767	7	5	611	1	0	1	0	1	0	0	0	0	10610	738	26	0	1140	0	NPTX2	7	98257767	Frame_Shift_Del	DEL	C	TCGA-HE-A5NK-01A-11D-A26P-10	6626546	98257767	60880896	56	37181										
METTL2B	55798	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	128119287	128119287	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	aaatgggtttttcaaggataGacattggctttttaccgaat	9	5	1	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr7:128119287G>T	ENST00000262432.8	+	3	315	c.278G>T	c.(277-279)aGa>aTa	p.R93I	RP11-212P7.3_ENST00000462662.1_RNA|METTL2B_ENST00000480046.1_Missense_Mutation_p.R28I	NM_018396.2	NP_060866.2	Q6P1Q9	MET2B_HUMAN	methyltransferase like 2B	93					tRNA methylation (GO:0030488)		tRNA (cytosine) methyltransferase activity (GO:0016427)			breast(1)|cervix(1)|large_intestine(2)|lung(10)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	17						TTCAAGGATAGACATTGGCTT	0.348																																																0													46	48	47					7																	128119287		2202	4296	6498	SO:0001583	missense	55798			AK002212	CCDS5803.2	7q32.2	2012-06-12	2006-02-09	2006-02-09	ENSG00000165055	ENSG00000165055			18272	protein-coding gene	gene with protein product		607846	"methyltransferase like 2"	METTL2		11738826	Standard	NM_018396		Approved	METL, FLJ11350	uc003vnf.3	Q6P1Q9	OTTHUMG00000143738	ENST00000262432.8:c.278G>T	7.37:g.128119287G>T	ENSP00000262432:p.Arg93Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ68|Q0IJ54|Q3B7J1	Missense_Mutation	SNP	ENST00000262432.8	37	CCDS5803.2	.	.	.	.	.	.	.	.	.	.	G	15.00	2.704511	0.48412	.	.	ENSG00000165055	ENST00000462662;ENST00000262432;ENST00000480046	T;T;T	0.04654	3.58;3.58;3.58	2.86	1.97	0.26223	.	0.000000	0.85682	D	0.000000	T	0.24624	0.0597	M	0.94021	3.485	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.01583	-1.1319	10	0.87932	D	0	-0.8843	7.7593	0.28942	0.1338:0.0:0.8662:0.0	.	28;93	Q6P1Q9-2;Q6P1Q9	.;MTL2B_HUMAN	I	87;93;28	ENSP00000418634:R87I;ENSP00000262432:R93I;ENSP00000418402:R28I	ENSP00000262432:R93I	R	+	2	0	METTL2B	127906523	1.000000	0.71417	0.984000	0.44739	0.344000	0.29017	9.445000	0.97587	0.540000	0.28808	-0.491000	0.04670	AGA		0.348	METTL2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000289817.1	NM_018396		T	128119287	G	T	128119287	3	4	611	1	0	0	0	0	1	0	0	0	9507	942	33	4	288	4	METTL2B	7	128119287	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	29861520	128119287	31019376	57	37182										
TAS2R39	259285	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	142880641	142880641	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ttttagcagttttacttgctGaatacctcattggtatcatt	6	7	2	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr7:142880641G>A	ENST00000446620.1	+	1	130	c.130G>A	c.(130-132)Gaa>Aaa	p.E44K		NM_176881.2	NP_795362.2	P59534	T2R39_HUMAN	taste receptor, type 2, member 39	44					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(9)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	20	Melanoma(164;0.059)					TTTACTTGCTGAATACCTCAT	0.413																																																0													145	132	136					7																	142880641		1939	4149	6088	SO:0001583	missense	259285			AF494230	CCDS47729.1	7q34	2012-08-22			ENSG00000236398	ENSG00000236398		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	18886	protein-coding gene	gene with protein product						12379855	Standard	NM_176881		Approved		uc011ksw.2	P59534	OTTHUMG00000152636	ENST00000446620.1:c.130G>A	7.37:g.142880641G>A	ENSP00000405095:p.Glu44Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A4FUI7|Q3ZCN6|Q645W4	Missense_Mutation	SNP	ENST00000446620.1	37	CCDS47729.1	.	.	.	.	.	.	.	.	.	.	G	15.58	2.876777	0.51801	.	.	ENSG00000236398	ENST00000446620	T	0.37411	1.2	4.66	4.66	0.58398	.	.	.	.	.	T	0.65196	0.2668	M	0.89478	3.035	0.29517	N	0.853797	D	0.71674	0.998	D	0.68765	0.96	T	0.65676	-0.6110	9	0.72032	D	0.01	.	14.7561	0.69567	0.0:0.0:1.0:0.0	.	44	P59534	T2R39_HUMAN	K	44	ENSP00000405095:E44K	ENSP00000405095:E44K	E	+	1	0	TAS2R39	142590763	0.321000	0.24625	0.437000	0.26809	0.026000	0.11368	1.677000	0.37576	2.583000	0.87209	0.557000	0.71058	GAA		0.413	TAS2R39-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327090.2	NM_176881		A	142880641	G	A	142880641	3	1	611	1	0	0	0	0	1	0	0	0	15588	1291	45	2	132	2	TAS2R39	7	142880641	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	14761354	142880641	16258022	58	37183										
KRBA1	84626	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	149430813	149430813	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	acgctcccccggcagaacctCctgggctccactgcagctct	9	19	1	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr7:149430813C>G	ENST00000485033.2	+	15	2587	c.2587C>G	c.(2587-2589)Cct>Gct	p.P863A	KRBA1_ENST00000479560.1_3'UTR|KRBA1_ENST00000319551.8_Missense_Mutation_p.P863A|KRBA1_ENST00000255992.10_Missense_Mutation_p.P923A			A5PL33	KRBA1_HUMAN	KRAB-A domain containing 1	924										breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(17)|ovary(1)|prostate(1)	27	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GGCAGAACCTCCTGGGCTCCA	0.692																																																0													9	12	11					7																	149430813		2163	4252	6415	SO:0001583	missense	84626			AB058765	CCDS75674.1	7q36	2014-02-12	2006-08-15		ENSG00000133619	ENSG00000133619		"-"	22228	protein-coding gene	gene with protein product			"KRAB A domain containing 1"				Standard	NM_001290187		Approved	KIAA1862	uc003wfz.3	A5PL33	OTTHUMG00000157886	ENST00000485033.2:c.2587C>G	7.37:g.149430813C>G	ENSP00000420112:p.Pro863Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2F5|E7ENE9|Q8N4X0|Q96JG5	Missense_Mutation	SNP	ENST00000485033.2	37		.	.	.	.	.	.	.	.	.	.	C	10.09	1.254707	0.22965	.	.	ENSG00000133619	ENST00000255992;ENST00000319551;ENST00000485033	T;T;T	0.28069	1.63;1.63;1.63	5.37	0.334	0.15948	.	0.552042	0.15405	N	0.264109	T	0.11750	0.0286	.	.	.	0.09310	N	1	B;B	0.20780	0.048;0.048	B;B	0.24541	0.054;0.054	T	0.36529	-0.9744	9	0.05436	T	0.98	-1.0704	7.65	0.28342	0.0:0.3639:0.0:0.6361	.	863;924	E7ENE9;A5PL33	.;KRBA1_HUMAN	A	923;863;863	ENSP00000255992:P923A;ENSP00000317165:P863A;ENSP00000420112:P863A	ENSP00000255992:P923A	P	+	1	0	KRBA1	149061746	0.003000	0.15002	0.032000	0.17829	0.084000	0.17831	0.213000	0.17521	-0.172000	0.10779	-0.320000	0.08662	CCT		0.692	KRBA1-004	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000349841.3	NM_032534		G	149430813	C	G	149430813	3	3	611	1	0	0	0	0	1	0	0	0	8446	855	30	4	2831	4	KRBA1	7	149430813	Missense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	6550172	149430813	9707850	59	37184										
REPIN1	29803	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	150069172	150069172	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	caataagccctatctgacttCgcaccggcgcatccacaccg	7	17	1	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr7:150069172C>A	ENST00000425389.2	+	1	920	c.842C>A	c.(841-843)tCg>tAg	p.S281*	REPIN1_ENST00000489432.2_Nonsense_Mutation_p.S338*|REPIN1_ENST00000444957.1_Nonsense_Mutation_p.S281*|RP4-584D14.5_ENST00000488310.1_RNA|REPIN1_ENST00000466559.1_3'UTR|REPIN1_ENST00000540729.1_Nonsense_Mutation_p.S281*|REPIN1_ENST00000397281.2_Nonsense_Mutation_p.S281*|REPIN1_ENST00000479668.1_3'UTR	NM_014374.3	NP_055189.2	Q9BWE0	REPI1_HUMAN	replication initiator 1	281					DNA replication (GO:0006260)|regulation of fatty acid transport (GO:2000191)|regulation of glucose import in response to insulin stimulus (GO:2001273)	cytosolic ribosome (GO:0022626)|lipid particle (GO:0005811)|nuclear membrane (GO:0031965)|nuclear origin of replication recognition complex (GO:0005664)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			cervix(2)|lung(7)|ovary(1)|pancreas(1)|prostate(2)|skin(1)	14	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.011)			TATCTGACTTCGCACCGGCGC	0.637																																																0													18	23	22					7																	150069172		2160	4279	6439	SO:0001587	stop_gained	29803			AF201303	CCDS43677.1, CCDS47745.1	7q36.1	2013-01-08	2003-08-07	2003-08-08				"Zinc fingers, C2H2-type"	17922	protein-coding gene	gene with protein product	"replication initiation region protein (60kD)", "zinc finger protein AP4", "zinc finger protein 464 (RIP60)"		"zinc finger protein 464 (RIP60)"	ZNF464		10606657	Standard	NM_013400		Approved	RIP60, AP4, H_DJ0584D14.12, Zfp464	uc010lpr.1	Q9BWE0		ENST00000425389.2:c.842C>A	7.37:g.150069172C>A	ENSP00000388287:p.Ser281*	Somatic		WXS	Illumina HiSeq	Phase_I	C9J3L7|D3DWZ1|Q7LE03|Q9BUZ6|Q9NZH2|Q9UMP5	Nonsense_Mutation	SNP	ENST00000425389.2	37	CCDS43677.1	.	.	.	.	.	.	.	.	.	.	C	21.0	4.090002	0.76756	.	.	ENSG00000214022	ENST00000540729;ENST00000397281;ENST00000444957;ENST00000489432;ENST00000475514;ENST00000488943;ENST00000425389	.	.	.	4.91	4.91	0.64330	.	.	.	.	.	.	.	.	.	.	.	0.22017	N	0.999416	.	.	.	.	.	.	.	.	.	.	0.07325	T	0.83	-5.8606	11.3408	0.49531	0.0:0.8167:0.1833:0.0	.	.	.	.	X	281;281;281;338;340;341;281	.	ENSP00000380451:S281X	S	+	2	0	REPIN1	149700105	0.000000	0.05858	0.985000	0.45067	0.853000	0.48598	-1.414000	0.02471	2.550000	0.86006	0.462000	0.41574	TCG		0.637	REPIN1-018	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000376940.1	NM_014374		A	150069172	C	A	150069172	4	1	611	1	0	0	0	0	0	1	0	0	13240	893	31	4	1019	4	REPIN1	7	150069172	Nonsense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	638359	150069172	9069491	60	37185										
DLGAP2	9228	broad.mit.edu	37	chr8	1513950	1513950	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tacattaaagccatgggggaCgaggagagcggagagtcaga	16	6	1	3	rs371842482		TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr8:1513950C>T	ENST00000421627.2	+	3	1226	c.1092C>T	c.(1090-1092)gaC>gaT	p.D364D	RP11-666I19.2_ENST00000518063.1_RNA	NM_004745.3	NP_004736.2	Q9P1A6	DLGP2_HUMAN	discs, large (Drosophila) homolog-associated protein 2	443					neuron-neuron synaptic transmission (GO:0007270)	cell junction (GO:0030054)|neurofilament (GO:0005883)|postsynaptic membrane (GO:0045211)				breast(1)|endometrium(6)|lung(31)|prostate(3)	41		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)		CCATGGGGGACGAGGAGAGCG	0.567																																																0								C		2,4336		0,2,2167	47	52	50		1092	-7.2	0.2	8		50	0,8586		0,0,4293	no	coding-synonymous	DLGAP2	NM_004745.3		0,2,6460	TT,TC,CC		0.0,0.0461,0.0155		364/976	1513950	2,12922	2169	4293	6462	SO:0001819	synonymous_variant	9228			AB000275	CCDS47760.1, CCDS75689.1	8p23	2007-12-06	2001-11-28		ENSG00000198010	ENSG00000198010			2906	protein-coding gene	gene with protein product		605438	"discs, large (Drosophila) homolog-associated protein 2"			9286858, 10854099	Standard	NM_004745		Approved	DAP-2	uc003wpl.4	Q9P1A6	OTTHUMG00000163599	ENST00000421627.2:c.1092C>T	8.37:g.1513950C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A1QCF8|A1QCF9|A5D8Y2|O14488|O14664|Q9P1A7	Silent	SNP	ENST00000421627.2	37	CCDS47760.1	.	.	.	.	.	.	.	.	.	.	C	8.974	0.973749	0.18736	4.61E-4	0.0	ENSG00000198010	ENST00000520901	.	.	.	4.55	-7.15	0.01521	.	.	.	.	.	T	0.62925	0.2468	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.67023	-0.5775	4	.	.	.	-8.2505	16.0777	0.80979	0.0:0.2339:0.0:0.7661	.	.	.	.	M	381	.	.	T	+	2	0	DLGAP2	1501357	0.455000	0.25736	0.228000	0.23943	0.986000	0.74619	-0.333000	0.07894	-1.726000	0.01370	-0.236000	0.12185	ACG		0.567	DLGAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374478.1	NM_004745		T	1513950	C	T	1513950	2	4	611	1	0	0	0	0	0	0	0	1	4562	535	19	1		1	DLGAP2	8	1513950	Silent	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10		1513950	144850072	61	37186										
MTUS1	57509	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	17612803	17612803	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gatggcatgatgtgatataaAggtgcagttaactttatcca	10	5	0	2	rs374892928		TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr8:17612803A>G	ENST00000262102.6	-	2	738	c.514T>C	c.(514-516)Ttt>Ctt	p.F172L	MTUS1_ENST00000381862.3_Missense_Mutation_p.F172L|MTUS1_ENST00000519263.1_Missense_Mutation_p.F172L|MTUS1_ENST00000381869.3_Missense_Mutation_p.F172L	NM_001001924.2	NP_001001924.1	Q9ULD2	MTUS1_HUMAN	microtubule associated tumor suppressor 1	172					cellular response to peptide hormone stimulus (GO:0071375)|regulation of macrophage chemotaxis (GO:0010758)	extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(1)|central_nervous_system(1)|endometrium(4)|kidney(4)|large_intestine(14)|lung(8)|ovary(1)|skin(2)|urinary_tract(1)	36				Colorectal(111;0.0778)		TGTGATATAAAGGTGCAGTTA	0.438																																																0													146	132	136					8																	17612803		1963	4150	6113	SO:0001583	missense	57509			AL096842	CCDS43716.1, CCDS43717.1, CCDS43718.1, CCDS43719.1, CCDS55204.1	8p22	2013-01-17	2009-10-20		ENSG00000129422	ENSG00000129422			29789	protein-coding gene	gene with protein product	"AT2 receptor-interacting protein", "AT2R binding protein", "mitochondrial tumor suppressor gene 1"	609589	"mitochondrial tumor suppressor 1"			10574462, 12692079	Standard	NM_001001931		Approved	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS	uc003wxv.3	Q9ULD2	OTTHUMG00000163756	ENST00000262102.6:c.514T>C	8.37:g.17612803A>G	ENSP00000262102:p.Phe172Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K135|B2RBJ6|B3KWJ9|B4DH03|B9EGA1|D3DSP8|Q63HJ6|Q659F4|Q6PK49|Q6URW7|Q8N4M6|Q8WTT9|Q9H7T2	Missense_Mutation	SNP	ENST00000262102.6	37	CCDS43717.1	.	.	.	.	.	.	.	.	.	.	A	13.70	2.316888	0.40996	.	.	ENSG00000129422	ENST00000381869;ENST00000262102;ENST00000519263;ENST00000381862	T;T;T;T	0.30182	2.43;2.5;2.43;1.54	4.09	2.91	0.33838	.	0.407817	0.21445	N	0.074440	T	0.21921	0.0528	L	0.32530	0.975	0.09310	N	0.999999	B;B;P	0.44139	0.356;0.206;0.827	B;B;B	0.43331	0.104;0.052;0.416	T	0.05886	-1.0858	9	.	.	.	-5.1088	5.1218	0.14863	0.5864:0.2499:0.0:0.1636	.	172;172;172	Q9ULD2-5;Q9ULD2-2;Q9ULD2	.;.;MTUS1_HUMAN	L	172	ENSP00000371293:F172L;ENSP00000262102:F172L;ENSP00000430167:F172L;ENSP00000371286:F172L	.	F	-	1	0	MTUS1	17657083	0.265000	0.24102	0.123000	0.21794	0.013000	0.08279	1.311000	0.33562	0.883000	0.36040	-0.490000	0.04691	TTT		0.438	MTUS1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000375247.1	XM_372031		G	17612803	A	G	17612803	3	3	611	1	0	0	0	0	1	0	0	0	9972	72	3	3	3673	3	MTUS1	8	17612803	Missense_Mutation	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	16098853	17612803	128751219	62	37187										
MYST3	7994	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	41794945	41794945	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gatctcaaacgtgggttctaAtcttggcattggcctctcgg	11	10	4	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr8:41794945A>T	ENST00000396930.3	-	17	3724	c.3181T>A	c.(3181-3183)Tta>Ata	p.L1061I	KAT6A_ENST00000265713.2_Missense_Mutation_p.L1061I|KAT6A_ENST00000406337.1_Missense_Mutation_p.L1061I	NM_001099412.1	NP_001092882.1	Q92794	KAT6A_HUMAN	K(lysine) acetyltransferase 6A	1061					aorta morphogenesis (GO:0035909)|cellular senescence (GO:0090398)|chromatin organization (GO:0006325)|DNA packaging (GO:0006323)|embryonic hemopoiesis (GO:0035162)|face morphogenesis (GO:0060325)|heart morphogenesis (GO:0003007)|histone acetylation (GO:0016573)|histone H3 acetylation (GO:0043966)|myeloid cell differentiation (GO:0030099)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription, DNA-templated (GO:0045892)|nucleosome assembly (GO:0006334)|positive regulation of transcription, DNA-templated (GO:0045893)|protein acetylation (GO:0006473)|somatic stem cell maintenance (GO:0035019)|transcription, DNA-templated (GO:0006351)	Golgi apparatus (GO:0005794)|MOZ/MORF histone acetyltransferase complex (GO:0070776)|nucleoplasm (GO:0005654)|nucleosome (GO:0000786)|nucleus (GO:0005634)|PML body (GO:0016605)	acetyltransferase activity (GO:0016407)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|histone acetyltransferase activity (GO:0004402)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)										GTGGGTTCTAATCTTGGCATT	0.428																																																0													120	115	117					8																	41794945		2203	4300	6503	SO:0001583	missense	7994			U47742	CCDS6124.1	8p11	2013-01-28	2011-07-21	2011-07-21	ENSG00000083168	ENSG00000083168		"Chromatin-modifying enzymes / K-acetyltransferases", "Zinc fingers, C2HC-type containing", "Zinc fingers, PHD-type"	13013	protein-coding gene	gene with protein product	"Monocytic leukemia zinc finger protein"	601408	"runt-related transcription factor binding protein 2", "MYST histone acetyltransferase (monocytic leukemia) 3"	ZNF220, RUNXBP2, MYST3		8849440, 8782817	Standard	NM_001099412		Approved	MOZ, ZC2HC6A	uc003xon.4	Q92794	OTTHUMG00000150453	ENST00000396930.3:c.3181T>A	8.37:g.41794945A>T	ENSP00000380136:p.Leu1061Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q76L81	Missense_Mutation	SNP	ENST00000396930.3	37	CCDS6124.1	.	.	.	.	.	.	.	.	.	.	A	13.75	2.330228	0.41297	.	.	ENSG00000083168	ENST00000265713;ENST00000406337;ENST00000396930;ENST00000418721	T;T;T	0.66099	-0.19;-0.19;-0.19	5.63	3.27	0.37495	.	0.000000	0.53938	D	0.000041	T	0.73853	0.3640	M	0.69823	2.125	0.42293	D	0.992149	D	0.69078	0.997	D	0.78314	0.991	T	0.72571	-0.4253	10	0.62326	D	0.03	-9.4799	7.9093	0.29780	0.6901:0.0:0.3099:0.0	.	1061	Q92794	KAT6A_HUMAN	I	1061;1061;1061;641	ENSP00000265713:L1061I;ENSP00000385888:L1061I;ENSP00000380136:L1061I	ENSP00000265713:L1061I	L	-	1	2	KAT6A	41914102	0.999000	0.42202	0.996000	0.52242	0.990000	0.78478	3.600000	0.54052	0.436000	0.26393	0.528000	0.53228	TTA		0.428	KAT6A-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318163.1	NM_006766		T	41794945	A	T	41794945	3	4	611	1	0	0	0	0	1	0	0	0	10111	98	4	5	2841	5	MYST3	8	41794945	Missense_Mutation	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	24182142	41794945	104569077	63	37188										
WWP1	11059	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	87423961	87423961	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gtgcagaattggaatctgaaGctagaagtatattagagcct	11	5	1	4			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr8:87423961G>C	ENST00000517970.1	+	9	1226	c.919G>C	c.(919-921)Gct>Cct	p.A307P	WWP1_ENST00000265428.4_Missense_Mutation_p.A307P|WWP1_ENST00000349423.2_Missense_Mutation_p.A89P|WWP1_ENST00000341922.2_Missense_Mutation_p.A177P	NM_007013.3	NP_008944.1	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase 1	307					central nervous system development (GO:0007417)|ion transmembrane transport (GO:0034220)|negative regulation of transcription, DNA-templated (GO:0045892)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|signal transduction (GO:0007165)|transmembrane transport (GO:0055085)|viral entry into host cell (GO:0046718)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ubiquitin ligase complex (GO:0000151)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			endometrium(3)|kidney(2)|large_intestine(9)|liver(4)|lung(10)|prostate(2)|urinary_tract(1)	31						GGAATCTGAAGCTAGAAGTAT	0.408																																																0													78	76	77					8																	87423961		2203	4300	6503	SO:0001583	missense	11059			AY043361	CCDS6242.1	8q21.3	2013-07-22			ENSG00000123124	ENSG00000123124			17004	protein-coding gene	gene with protein product		602307				9169421, 9647693	Standard	NM_007013		Approved	AIP5, DKFZP434D2111	uc003ydt.3	Q9H0M0	OTTHUMG00000163690	ENST00000517970.1:c.919G>C	8.37:g.87423961G>C	ENSP00000427793:p.Ala307Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O00307|Q5YLC1|Q96BP4	Missense_Mutation	SNP	ENST00000517970.1	37	CCDS6242.1	.	.	.	.	.	.	.	.	.	.	G	5.203	0.222924	0.09863	.	.	ENSG00000123124	ENST00000517970;ENST00000265428;ENST00000341922;ENST00000349423	T;T;T;T	0.46451	0.89;0.89;0.87;0.89	5.69	4.81	0.61882	.	0.669254	0.14402	N	0.321845	T	0.21962	0.0529	N	0.08118	0	0.39335	D	0.965486	B;B	0.06786	0.0;0.001	B;B	0.09377	0.004;0.003	T	0.08513	-1.0718	10	0.30078	T	0.28	.	7.2873	0.26346	0.1504:0.1403:0.7094:0.0	.	89;307	Q9H0M0-6;Q9H0M0	.;WWP1_HUMAN	P	307;307;177;89	ENSP00000427793:A307P;ENSP00000265428:A307P;ENSP00000340564:A177P;ENSP00000342665:A89P	ENSP00000265428:A307P	A	+	1	0	WWP1	87493077	0.557000	0.26546	0.093000	0.20910	0.015000	0.08874	0.271000	0.18626	1.410000	0.46936	0.650000	0.86243	GCT		0.408	WWP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374755.1	NM_007013		C	87423961	G	C	87423961	3	2	611	1	0	0	0	0	1	0	0	0	17427	971	34	4	945	4	WWP1	8	87423961	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	45629016	87423961	58940061	64	37189										
EIF3H	8667	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	117661151	117661151	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ccatcagcaactgtagattcTtccccaaatgattgctgaaa	6	11	2	3			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr8:117661151T>G	ENST00000276682.4	-	8	1530	c.764A>C	c.(763-765)aAg>aCg	p.K255T	EIF3H_ENST00000521861.1_Missense_Mutation_p.K241T					eukaryotic translation initiation factor 3, subunit H											large_intestine(2)|lung(10)|skin(1)	13	all_cancers(13;3.98e-22)|Lung NSC(37;0.000183)|Ovarian(258;0.0172)					CTGTAGATTCTTCCCCAAATG	0.333																																																0													187	166	173					8																	117661151		2203	4300	6503	SO:0001583	missense	8667			U54559	CCDS6319.1	8q24.11	2007-07-27	2007-07-27	2007-07-27	ENSG00000147677	ENSG00000147677			3273	protein-coding gene	gene with protein product		603912	"eukaryotic translation initiation factor 3, subunit 3 gamma, 40kDa"	EIF3S3		9341143	Standard	NM_003756		Approved	eIF3-gamma, eIF3-p40, eIF3h	uc003yoa.3	O15372	OTTHUMG00000164919	ENST00000276682.4:c.764A>C	8.37:g.117661151T>G	ENSP00000276682:p.Lys255Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000276682.4	37		.	.	.	.	.	.	.	.	.	.	T	26.6	4.753458	0.89753	.	.	ENSG00000147677	ENST00000521861;ENST00000276682;ENST00000518949	T;T	0.52526	0.69;0.66	5.95	5.95	0.96441	.	0.000000	0.85682	D	0.000000	T	0.69251	0.3090	M	0.81112	2.525	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.64144	0.922;0.922	T	0.73228	-0.4049	10	0.62326	D	0.03	-27.6801	16.4116	0.83717	0.0:0.0:0.0:1.0	.	255;241	B3KS98;O15372	.;EIF3H_HUMAN	T	241;255;209	ENSP00000429931:K241T;ENSP00000276682:K255T	ENSP00000276682:K255T	K	-	2	0	EIF3H	117730332	1.000000	0.71417	0.996000	0.52242	0.987000	0.75469	8.040000	0.89188	2.276000	0.75962	0.528000	0.53228	AAG		0.333	EIF3H-003	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000380913.1	NM_003756		G	117661151	T	G	117661151	3	3	611	1	0	0	0	0	1	0	0	0	5020	1609	56	5	348	5	EIF3H	8	117661151	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	30237190	117661151	28702871	65	37190										
PLIN2	123	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	19126158	19126158	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ggcagagcactggtcatggcCacggaggtgatggtcttcac	15	10	3	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr9:19126158C>A	ENST00000276914.2	-	3	359	c.180G>T	c.(178-180)gtG>gtT	p.V60V	PLIN2_ENST00000411567.1_Silent_p.V60V|PLIN2_ENST00000380465.3_Silent_p.V60V|PLIN2_ENST00000380464.3_Silent_p.V60V	NM_001122.3	NP_001113.2	Q99541	PLIN2_HUMAN	perilipin 2	60					cellular lipid metabolic process (GO:0044255)|lipid storage (GO:0019915)|long-chain fatty acid transport (GO:0015909)|response to drug (GO:0042493)|response to organic cyclic compound (GO:0014070)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|lipid particle (GO:0005811)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(5)|ovary(2)|pancreas(1)|prostate(1)|skin(1)	19						TGGTCATGGCCACGGAGGTGA	0.527																																																0													160	124	136					9																	19126158		2203	4300	6503	SO:0001819	synonymous_variant	123			X97324	CCDS6490.1	9p22.1	2009-08-12	2009-08-12	2009-08-12	ENSG00000147872	ENSG00000147872		"Perilipins"	248	protein-coding gene	gene with protein product	"adipophilin"	103195	"adipose differentiation-related protein"	ADFP		9003395, 19638644	Standard	NM_001122		Approved	ADRP	uc003zno.3	Q99541	OTTHUMG00000019624	ENST00000276914.2:c.180G>T	9.37:g.19126158C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BSC3	Silent	SNP	ENST00000276914.2	37	CCDS6490.1																																																																																				0.527	PLIN2-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051835.1	NM_001122		A	19126158	C	A	19126158	2	1	611	1	0	0	0	0	0	0	0	1	12097	581	21	4		4	PLIN2	9	19126158	Silent	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10		19126158	122087273	66	37191										
AGTPBP1	23287	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	88233969	88233969	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	aagcaacacctggtcgcattCcactgacttcaaagtaaaac	6	12	1	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr9:88233969C>G	ENST00000357081.3	-	17	2408	c.2264G>C	c.(2263-2265)gGa>gCa	p.G755A	AGTPBP1_ENST00000337006.4_3'UTR|AGTPBP1_ENST00000432218.1_Missense_Mutation_p.G593A|AGTPBP1_ENST00000376109.3_Missense_Mutation_p.G767A|AGTPBP1_ENST00000376083.3_Missense_Mutation_p.G715A			Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	755					adult walking behavior (GO:0007628)|C-terminal protein deglutamylation (GO:0035609)|cerebellar Purkinje cell differentiation (GO:0021702)|eye photoreceptor cell differentiation (GO:0001754)|mitochondrion organization (GO:0007005)|neuromuscular process (GO:0050905)|neurotransmitter metabolic process (GO:0042133)|olfactory bulb development (GO:0021772)|protein side chain deglutamylation (GO:0035610)|retina development in camera-type eye (GO:0060041)	cytosol (GO:0005829)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	metallocarboxypeptidase activity (GO:0004181)|tubulin binding (GO:0015631)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(12)|lung(12)|ovary(5)|skin(2)|urinary_tract(3)	44						TGGTCGCATTCCACTGACTTC	0.328																																																0													92	93	92					9																	88233969		2203	4300	6503	SO:0001583	missense	23287			AB028958	CCDS6672.1, CCDS75854.1	9q21.33	2014-06-23			ENSG00000135049	ENSG00000135049			17258	protein-coding gene	gene with protein product	"cytosolic carboxypeptidase 1", "tubulinyl-Tyr carboxypeptidase", "carboxypeptidase-tubulin", "tyrosine carboxypeptidase", "soluble carboxypeptidase"	606830				11083920	Standard	NM_015239		Approved	KIAA1035, Nna1, CCP1	uc010mqc.3	Q9UPW5	OTTHUMG00000020124	ENST00000357081.3:c.2264G>C	9.37:g.88233969C>G	ENSP00000349592:p.Gly755Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4DIT6|B4DRZ8|Q5VV80|Q63HM7|Q658P5|Q6P9D6|Q9H8U6|Q9H9W8|Q9NVK1	Missense_Mutation	SNP	ENST00000357081.3	37		.	.	.	.	.	.	.	.	.	.	C	16.55	3.154898	0.57259	.	.	ENSG00000135049	ENST00000357081;ENST00000376083;ENST00000376109;ENST00000432218	T;T;T;T	0.31510	1.49;1.49;1.49;1.49	5.38	5.38	0.77491	.	0.097920	0.64402	D	0.000001	T	0.55593	0.1930	M	0.67517	2.055	0.80722	D	1	B;D;D;P	0.76494	0.34;0.992;0.999;0.729	B;P;D;B	0.73708	0.257;0.872;0.981;0.439	T	0.54057	-0.8350	10	0.48119	T	0.1	-15.9497	19.1333	0.93415	0.0:1.0:0.0:0.0	.	767;755;593;715	Q9UPW5-3;Q9UPW5;B4DHX2;Q9UPW5-2	.;CBPC1_HUMAN;.;.	A	755;715;767;593	ENSP00000349592:G755A;ENSP00000365251:G715A;ENSP00000365277:G767A;ENSP00000402804:G593A	ENSP00000349592:G755A	G	-	2	0	AGTPBP1	87423789	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	5.890000	0.69774	2.532000	0.85374	0.650000	0.86243	GGA		0.328	AGTPBP1-004	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000052893.1	NM_015239		G	88233969	C	G	88233969	3	3	611	1	0	0	0	0	1	0	0	0	400	855	30	4	1456	4	AGTPBP1	9	88233969	Missense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	69107811	88233969	52979462	67	37192										
ASS1	445	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	133342187	133342187	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	acctgatggagtacgcaaagGtatggccgagtctccccacc	11	13	1	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr9:133342187G>C	ENST00000372394.1	+	7	976		c.e7+1		ASS1_ENST00000493984.2_Splice_Site|ASS1_ENST00000372393.3_Splice_Site|ASS1_ENST00000352480.5_Splice_Site			P00966	ASSY_HUMAN	argininosuccinate synthase 1						acute-phase response (GO:0006953)|aging (GO:0007568)|arginine biosynthetic process (GO:0006526)|argininosuccinate metabolic process (GO:0000053)|aspartate metabolic process (GO:0006531)|cellular nitrogen compound metabolic process (GO:0034641)|cellular response to amine stimulus (GO:0071418)|cellular response to amino acid stimulus (GO:0071230)|cellular response to ammonium ion (GO:0071242)|cellular response to cAMP (GO:0071320)|cellular response to dexamethasone stimulus (GO:0071549)|cellular response to glucagon stimulus (GO:0071377)|cellular response to interferon-gamma (GO:0071346)|cellular response to laminar fluid shear stress (GO:0071499)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to oleic acid (GO:0071400)|cellular response to tumor necrosis factor (GO:0071356)|citrulline metabolic process (GO:0000052)|diaphragm development (GO:0060539)|kidney development (GO:0001822)|liver development (GO:0001889)|midgut development (GO:0007494)|negative regulation of leukocyte cell-cell adhesion (GO:1903038)|positive regulation of nitric oxide biosynthetic process (GO:0045429)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to growth hormone (GO:0060416)|response to mycotoxin (GO:0010046)|response to nutrient (GO:0007584)|response to zinc ion (GO:0010043)|small molecule metabolic process (GO:0044281)|urea cycle (GO:0000050)	cell body fiber (GO:0070852)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|lysosome (GO:0005764)|mitochondrial outer membrane (GO:0005741)|nucleus (GO:0005634)|perikaryon (GO:0043204)	amino acid binding (GO:0016597)|argininosuccinate synthase activity (GO:0004055)|ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|toxic substance binding (GO:0015643)			breast(1)|cervix(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(4)|ovary(1)|skin(1)|urinary_tract(1)	17				OV - Ovarian serous cystadenocarcinoma(145;0.000514)	Adenosine triphosphate(DB00171)|L-Arginine(DB00125)|L-Aspartic Acid(DB00128)|L-Citrulline(DB00155)	GTACGCAAAGGTATGGCCGAG	0.612																																																0													104	84	90					9																	133342187		2203	4300	6503	SO:0001630	splice_region_variant	445			X01630	CCDS6933.1	9q34.1	2012-10-02	2010-04-20	2006-08-24	ENSG00000130707	ENSG00000130707	6.3.4.5		758	protein-coding gene	gene with protein product		603470	"argininosuccinate synthetase"	ASS		3513483, 852520	Standard	NM_054012		Approved	CTLN1	uc004bzm.3	P00966	OTTHUMG00000020806	ENST00000372394.1:c.495+1G>C	9.37:g.133342187G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6LDL2|Q86UZ0|Q96GT4	Splice_Site	SNP	ENST00000372394.1	37	CCDS6933.1	.	.	.	.	.	.	.	.	.	.	G	10.96	1.498082	0.26861	.	.	ENSG00000130707	ENST00000334909;ENST00000352480;ENST00000372394;ENST00000372393;ENST00000422569;ENST00000443588	.	.	.	4.79	4.79	0.61399	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.8195	0.85742	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	ASS1	132332008	1.000000	0.71417	0.996000	0.52242	0.068000	0.16541	8.950000	0.93019	2.187000	0.69744	0.462000	0.41574	.		0.612	ASS1-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054652.1	NM_000050	Intron	C	133342187	G	C	133342187	5	2	611	1	0	0	0	0	0	0	1	0	1061	1275	44	4	514	4	ASS1	9	133342187	Splice_Site	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	45108218	133342187	7871244	68	37193										
PHPT1	29085	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	139744582	139744582	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gaagattcacgtgtacggctAttccatggtgagccgcagcc	12	11	1	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr9:139744582A>G	ENST00000247665.10	+	2	615	c.278A>G	c.(277-279)tAt>tGt	p.Y93C	MAMDC4_ENST00000445819.1_5'Flank|PHPT1_ENST00000492540.1_3'UTR|MAMDC4_ENST00000317446.2_5'Flank|PHPT1_ENST00000371661.1_Missense_Mutation_p.Y93C|PHPT1_ENST00000545326.1_Missense_Mutation_p.Y93C	NM_014172.4	NP_054891.2	Q9NRX4	PHP14_HUMAN	phosphohistidine phosphatase 1	93					negative regulation of ATP citrate synthase activity (GO:2000984)|negative regulation of lyase activity (GO:0051350)|negative regulation of T cell receptor signaling pathway (GO:0050860)|peptidyl-histidine dephosphorylation (GO:0035971)|positive regulation of cell motility (GO:2000147)|positive regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0035774)|protein dephosphorylation (GO:0006470)|regulation of actin cytoskeleton reorganization (GO:2000249)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	calcium channel inhibitor activity (GO:0019855)|ion channel binding (GO:0044325)|phosphohistidine phosphatase activity (GO:0008969)|phosphoprotein phosphatase activity (GO:0004721)			NS(1)|large_intestine(1)|lung(1)	3	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		GTGTACGGCTATTCCATGGTG	0.662																																																0													93	86	88					9																	139744582		2202	4300	6502	SO:0001583	missense	29085			AF131857	CCDS7009.1, CCDS48060.1	9q34.3	2008-02-05			ENSG00000054148	ENSG00000054148	3.1.3.-		30033	protein-coding gene	gene with protein product	"phosphohistidine phosphatase 14kDa", " sex-regulated protein janus-a"	610167				11042152, 8619474	Standard	NM_014172		Approved	PHP14, HSPC141, CGI-202, DKFZp564M173, bA216L13.10	uc004cjq.4	Q9NRX4	OTTHUMG00000020950	ENST00000247665.10:c.278A>G	9.37:g.139744582A>G	ENSP00000247665:p.Tyr93Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B1AMX0|B1AMX1|Q9H0Y3	Missense_Mutation	SNP	ENST00000247665.10	37	CCDS7009.1	.	.	.	.	.	.	.	.	.	.	.	22.3	4.267724	0.80469	.	.	ENSG00000054148	ENST00000371661;ENST00000545326;ENST00000247665	.	.	.	4.61	4.61	0.57282	.	.	.	.	.	T	0.80979	0.4728	M	0.88450	2.955	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.999;1.0	T	0.83346	-0.0005	8	0.46703	T	0.11	-0.3441	13.1692	0.59589	1.0:0.0:0.0:0.0	.	93;93	Q9NRX4-2;Q9NRX4	.;PHP14_HUMAN	C	93	.	ENSP00000247665:Y93C	Y	+	2	0	PHPT1	138864403	1.000000	0.71417	1.000000	0.80357	0.918000	0.54935	5.655000	0.67981	1.703000	0.51240	0.374000	0.22700	TAT		0.662	PHPT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055150.1	NM_014172		G	139744582	A	G	139744582	3	3	611	1	0	0	0	0	1	0	0	0	11867	449	16	3	284	3	PHPT1	9	139744582	Missense_Mutation	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	6402395	139744582	1468849	69	37194										
ADARB2	105	broad.mit.edu	37	chr10	1405639	1405640	+	Frame_Shift_Ins	INS	-	-	G													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	aactcctggaagagcgtgtcINSggggaaatcggcctggtcgg							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr10:1405639_1405640insG	ENST00000381312.1	-	3	985_986	c.660_661insC	c.(658-663)cccgacfs	p.D221fs	RP11-398B16.2_ENST00000432987.1_RNA	NM_018702.3	NP_061172.1	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2 (non-functional)	221					mRNA processing (GO:0006397)	nucleus (GO:0005634)	adenosine deaminase activity (GO:0004000)|double-stranded RNA binding (GO:0003725)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|single-stranded RNA binding (GO:0003727)			breast(2)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(7)|lung(17)|prostate(2)|skin(1)|urinary_tract(1)	41		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		AAGAGCGTGTCGGGGAAATCGG	0.762																																																0																																										SO:0001589	frameshift_variant	105			AF034837	CCDS7058.1	10p15.3	2013-05-20	2013-05-20		ENSG00000185736	ENSG00000185736	3.5.-.-		227	protein-coding gene	gene with protein product	"RED2 homolog (rat)"	602065	"adenosine deaminase, RNA-specific, B2 (RED2 homolog rat)", "adenosine deaminase, RNA-specific, B2"			9272162, 10836796	Standard	NM_018702		Approved	RED2, hRED2, ADAR3	uc009xhq.3	Q9NS39	OTTHUMG00000017543	ENST00000381312.1:c.661dupC	10.37:g.1405643_1405643dupG	ENSP00000370713:p.Asp221fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPJ5|Q5VUT6|Q5VW42	Frame_Shift_Ins	INS	ENST00000381312.1	37	CCDS7058.1																																																																																				0.762	ADARB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046426.1	NM_018702		G	1405640	-	G	1405639	7	5	611	1	0	1	1	0	0	0	0	0	283	884	31	0	1590	0	ADARB2	10	1405639	Frame_Shift_Ins	INS	-	TCGA-HE-A5NK-01A-11D-A26P-10		1405639	134129108	70	37195										
CSGALNACT2	55454	broad.mit.edu	37	chr10	43659419	43659419	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tgggacaagggagaggtcttGatgtttttctgtgatgttga	15	3	2	4	rs79064394		TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr10:43659419G>T	ENST00000374466.3	+	5	1421	c.1086G>T	c.(1084-1086)ttG>ttT	p.L362F		NM_018590.3	NP_061060.3	Q8N6G5	CGAT2_HUMAN	chondroitin sulfate N-acetylgalactosaminyltransferase 2	362					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|chondroitin sulfate proteoglycan biosynthetic process (GO:0050650)|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050653)|dermatan sulfate proteoglycan biosynthetic process (GO:0050651)|dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050652)|glycosaminoglycan metabolic process (GO:0030203)|proteoglycan biosynthetic process (GO:0030166)|small molecule metabolic process (GO:0044281)	Golgi cisterna membrane (GO:0032580)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)|membrane (GO:0016020)	acetylgalactosaminyltransferase activity (GO:0008376)|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity (GO:0047237)|metal ion binding (GO:0046872)	p.L362F(5)		endometrium(12)|kidney(3)|large_intestine(5)|lung(16)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	42						GAGAGGTCTTGATGTTTTTCT	0.433																																																5	Substitution - Missense(5)	endometrium(4)|kidney(1)											223	221	222					10																	43659419		2203	4300	6503	SO:0001583	missense	55454			AF116646	CCDS7201.1	10q11.21	2013-02-19			ENSG00000169826	ENSG00000169826		"Beta 4-glycosyltransferases"	24292	protein-coding gene	gene with protein product	"chondroitin beta1,4 N-acetylgalactosaminyltransferase 2"					12446672	Standard	NM_018590		Approved	GALNACT2, MGC40204, PRO0082, GALNACT-2	uc001jan.4	Q8N6G5	OTTHUMG00000018023	ENST00000374466.3:c.1086G>T	10.37:g.43659419G>T	ENSP00000363590:p.Leu362Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWL7|Q6MZJ5|Q6MZP6|Q8TCH4|Q9P1I6	Missense_Mutation	SNP	ENST00000374466.3	37	CCDS7201.1	.	.	.	.	.	.	.	.	.	.	G	24.2	4.499782	0.85176	.	.	ENSG00000169826	ENST00000374466	T	0.27256	1.68	6.08	5.17	0.71159	.	0.064535	0.64402	D	0.000004	T	0.57359	0.2048	M	0.89095	3.005	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.63721	-0.6573	10	0.87932	D	0	-11.7375	14.8306	0.70146	0.0683:0.0:0.9317:0.0	.	362	Q8N6G5	CGAT2_HUMAN	F	362	ENSP00000363590:L362F	ENSP00000363590:L362F	L	+	3	2	CSGALNACT2	42979425	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.683000	0.37638	2.894000	0.99253	0.591000	0.81541	TTG		0.433	CSGALNACT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047693.1	NM_018590		T	43659419	G	T	43659419	3	4	611	1	0	0	0	0	1	0	0	0	3941	1281	45	4	1100	4	CSGALNACT2	10	43659419	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	42253780	43659419	91875328	71	37196										
NOLC1	9221	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	103917872	103917872	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	aggccaagagctctgattctGattctgactcaagctccgag	10	11	4	4			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr10:103917872G>A	ENST00000605788.1	+	5	743	c.508G>A	c.(508-510)Gat>Aat	p.D170N	NOLC1_ENST00000405356.1_Missense_Mutation_p.D170N|NOLC1_ENST00000488254.2_Missense_Mutation_p.D171N|NOLC1_ENST00000603742.1_5'UTR	NM_001284389.1|NM_004741.3	NP_001271318.1|NP_004732.2	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	170	11 X 12 AA approximate repeats of an acidic serine cluster.				cell cycle (GO:0007049)|mitotic nuclear division (GO:0007067)|nucleolus organization (GO:0007000)|rRNA processing (GO:0006364)	Cajal body (GO:0015030)|cytoplasm (GO:0005737)|nucleolus (GO:0005730)	ATP binding (GO:0005524)|GTP binding (GO:0005525)|poly(A) RNA binding (GO:0044822)			breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(12)|ovary(1)|upper_aerodigestive_tract(1)	31		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		CTCTGATTCTGATTCTGACTC	0.488																																																0													88	90	89					10																	103917872		2203	4300	6503	SO:0001583	missense	9221			Z34289	CCDS7530.1, CCDS65925.1, CCDS65926.1	10q24.32	2008-08-01			ENSG00000166197	ENSG00000166197			15608	protein-coding gene	gene with protein product		602394				7657714, 10567578	Standard	XM_005270273		Approved	P130, KIAA0035, NOPP140, NOPP130	uc001kuo.2	Q14978	OTTHUMG00000018944	ENST00000605788.1:c.508G>A	10.37:g.103917872G>A	ENSP00000474710:p.Asp170Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q15030|Q5VV70|Q9BUV3	Missense_Mutation	SNP	ENST00000605788.1	37	CCDS7530.1	.	.	.	.	.	.	.	.	.	.	G	20.2	3.948000	0.73787	.	.	ENSG00000166197	ENST00000405356;ENST00000370007	T	0.52057	0.68	5.72	5.72	0.89469	.	0.256859	0.33834	N	0.004509	T	0.68796	0.3040	M	0.77313	2.365	0.80722	D	1	D;D;D	0.63046	0.992;0.992;0.986	P;P;P	0.61592	0.891;0.891;0.78	T	0.71341	-0.4622	10	0.66056	D	0.02	-7.6697	18.8652	0.92289	0.0:0.0:1.0:0.0	.	171;170;170	Q14978-3;Q14978-2;Q14978	.;.;NOLC1_HUMAN	N	170	ENSP00000385410:D170N	ENSP00000359024:D170N	D	+	1	0	NOLC1	103907862	1.000000	0.71417	0.959000	0.39883	0.796000	0.44982	6.775000	0.75018	2.709000	0.92574	0.561000	0.74099	GAT		0.488	NOLC1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000050012.2	NM_004741		A	103917872	G	A	103917872	3	1	611	1	0	0	0	0	1	0	0	0	10536	1290	45	2	526	2	NOLC1	10	103917872	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	60258453	103917872	31616875	72	37197										
CNGA4	1262	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	6261868	6261868	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	cagatgcggctttctacccaGatcatgcactggtgaagaag	11	10	2	4			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr11:6261868G>C	ENST00000379936.2	+	4	959	c.844G>C	c.(844-846)Gat>Cat	p.D282H	CNGA4_ENST00000533426.1_Splice_Site	NM_001037329.3	NP_001032406.1	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	282					phototransduction, visible light (GO:0007603)|potassium ion transmembrane transport (GO:0071805)|regulation of membrane potential (GO:0042391)|sensory perception of smell (GO:0007608)	integral component of plasma membrane (GO:0005887)	cAMP binding (GO:0030552)|cGMP binding (GO:0030553)|intracellular cAMP activated cation channel activity (GO:0005222)|intracellular cGMP activated cation channel activity (GO:0005223)|voltage-gated potassium channel activity (GO:0005249)			endometrium(2)|kidney(1)|large_intestine(9)|lung(24)|prostate(3)|skin(1)	40		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTTCTACCCAGATCATGCACT	0.552																																																0													100	89	93					11																	6261868		2201	4296	6497	SO:0001583	missense	1262			AK122736	CCDS31408.1	11p15.4	2011-07-05		2002-01-18		ENSG00000132259		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	2152	protein-coding gene	gene with protein product		609472	"cyclic nucleotide gated channel beta 2"	CNCA2, CNGB2		11764791, 16382102	Standard	NM_001037329		Approved	OCNC2, OCNCb, CNG5	uc001mco.3	Q8IV77		ENST00000379936.2:c.844G>C	11.37:g.6261868G>C	ENSP00000369268:p.Asp282His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000379936.2	37	CCDS31408.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	14.83|14.83	2.653921|2.653921	0.47362|0.47362	.|.	.|.	ENSG00000132259|ENSG00000132259	ENST00000533426|ENST00000379936	.|D	.|0.96716	.|-4.1	5.3|5.3	4.39|4.39	0.52855|0.52855	.|Cyclic nucleotide-binding-like (1);	.|0.138507	.|0.64402	.|D	.|0.000004	.|D	.|0.92084	.|0.7491	N|N	0.25647|0.25647	0.755|0.755	0.40621|0.40621	D|D	0.981768|0.981768	.|B;B	.|0.21147	.|0.044;0.052	.|B;B	.|0.25884	.|0.008;0.064	.|D	.|0.89286	.|0.3615	.|10	.|0.66056	.|D	.|0.02	.|.	9.3632|9.3632	0.38208|0.38208	0.1652:0.0:0.8348:0.0|0.1652:0.0:0.8348:0.0	.|.	.|282;242	.|Q8IV77;Q8IV77-2	.|CNGA4_HUMAN;.	.|H	-1|282	.|ENSP00000369268:D282H	.|ENSP00000369268:D282H	.|D	+|+	.|1	.|0	CNGA4|CNGA4	6218444|6218444	0.664000|0.664000	0.27457|0.27457	0.997000|0.997000	0.53966|0.53966	0.939000|0.939000	0.58152|0.58152	1.232000|1.232000	0.32636|0.32636	1.376000|1.376000	0.46267|0.46267	0.561000|0.561000	0.74099|0.74099	.|GAT		0.552	CNGA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383765.2	NM_001037329		C	6261868	G	C	6261868	3	2	611	1	0	0	0	0	1	0	0	0	3601	942	33	4	858	4	CNGA4	11	6261868	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10		6261868	128744648	73	37198										
DNHD1	144132	broad.mit.edu	37	chr11	6561201	6561201	+	Frame_Shift_Del	DEL	C	C	-													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	cagctgcgcctgctcaacttCatcctgcatgtaccctacga							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr11:6561201delC	ENST00000527990.2	+	16	3516	c.3516delC	c.(3514-3516)ttcfs	p.F1172fs	DNHD1_ENST00000254579.6_Frame_Shift_Del_p.F1172fs			Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1	1172					microtubule-based movement (GO:0007018)	dynein complex (GO:0030286)|extracellular vesicular exosome (GO:0070062)	microtubule motor activity (GO:0003777)			NS(1)|autonomic_ganglia(1)|breast(4)|endometrium(13)|kidney(6)|large_intestine(11)|lung(14)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	55		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		TGCTCAACTTCATCCTGCATG	0.582																																																0													62	66	65					11																	6561201		692	1591	2283	SO:0001589	frameshift_variant	144132			AK128064	CCDS44532.1, CCDS7767.1	11p15.4	2011-02-10		2005-11-28	ENSG00000179532	ENSG00000179532			26532	protein-coding gene	gene with protein product			"chromosome 11 open reading frame 47", "dynein heavy chain domain 1-like", "coiled-coil domain containing 35"	DHCD1, C11orf47, DNHD1L, CCDC35		12975309	Standard	NM_173589		Approved	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796	uc001mdw.4	Q96M86	OTTHUMG00000133403	ENST00000527990.2:c.3516delC	11.37:g.6561201delC	ENSP00000436180:p.Phe1172fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKK8|Q6UWI9|Q8NAA2|Q8TEE6|Q9NSZ9	Frame_Shift_Del	DEL	ENST00000527990.2	37	CCDS44532.1																																																																																				0.582	DNHD1-007	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384673.2	NM_144666		-	6561201	C	-	6561201	7	5	611	1	0	1	0	1	0	0	0	0	4670	825	29	0	3587	0	DNHD1	11	6561201	Frame_Shift_Del	DEL	C	TCGA-HE-A5NK-01A-11D-A26P-10	299333	6561201	128445315	74	37199										
OR2AG2	338755	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	6789370	6789370	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	attgtgtagaaaacagagatGatgttgtcttgtttggggct	13	3	1	3			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr11:6789370G>T	ENST00000338569.2	-	1	916	c.819C>A	c.(817-819)atC>atA	p.I273I		NM_001004490.1	NP_001004490.1	A6NM03	O2AG2_HUMAN	olfactory receptor, family 2, subfamily AG, member 2	273						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(2)|lung(13)|ovary(1)|skin(5)|stomach(1)|urinary_tract(1)	28		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		AAACAGAGATGATGTTGTCTT	0.512																																																0													151	138	142					11																	6789370		2201	4296	6497	SO:0001819	synonymous_variant	338755			AB065539	CCDS31413.1	11p15.4	2012-08-09		2004-03-10	ENSG00000188124	ENSG00000188124		"GPCR / Class A : Olfactory receptors"	15143	protein-coding gene	gene with protein product				OR2AG2P			Standard	NM_001004490		Approved		uc001meq.1	A6NM03	OTTHUMG00000165868	ENST00000338569.2:c.819C>A	11.37:g.6789370G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000338569.2	37	CCDS31413.1																																																																																				0.512	OR2AG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386775.1	NM_001004490		T	6789370	G	T	6789370	2	4	611	1	0	0	0	0	0	0	0	1	10992	1280	45	4		4	OR2AG2	11	6789370	Silent	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	228169	6789370	128217146	75	37200										
RBM14	10432	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	66384484	66384484	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gagccaggaactgcgcagccTcttcgagcgccgcggacgcg	15	15	1	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr11:66384484T>C	ENST00000310137.4	+	1	432	c.293T>C	c.(292-294)cTc>cCc	p.L98P	RBM14_ENST00000409738.4_Missense_Mutation_p.L98P|RBM4_ENST00000503028.2_5'UTR|RBM14-RBM4_ENST00000511114.1_3'UTR|RBM14-RBM4_ENST00000412278.2_Missense_Mutation_p.L98P|RBM14_ENST00000393979.3_Missense_Mutation_p.L98P|RBM14_ENST00000443702.1_Missense_Mutation_p.L98P|RNU4-39P_ENST00000362455.1_RNA|RBM14-RBM4_ENST00000500635.2_Missense_Mutation_p.L98P|RBM4_ENST00000514361.3_Missense_Mutation_p.L98P|RBM14_ENST00000409372.1_Missense_Mutation_p.L98P	NM_006328.3	NP_006319.1	Q96PK6	RBM14_HUMAN	RNA binding motif protein 14	98	RRM 2. {ECO:0000255|PROSITE- ProRule:PRU00176}.				DNA recombination (GO:0006310)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|glucocorticoid receptor signaling pathway (GO:0042921)|histone deacetylation (GO:0016575)|intracellular estrogen receptor signaling pathway (GO:0030520)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|response to hormone (GO:0009725)|transcription from RNA polymerase II promoter (GO:0006366)	mediator complex (GO:0016592)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)|transcription factor complex (GO:0005667)	ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein binding, bridging (GO:0030674)|RNA binding (GO:0003723)|RNA polymerase II transcription cofactor activity (GO:0001104)		RBM14/PACS1(2)	breast(2)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(3)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	17						CTGCGCAGCCTCTTCGAGCGC	0.647																																																0													52	62	59					11																	66384484		2141	4173	6314	SO:0001583	missense	10432			AF080561	CCDS8147.1, CCDS55772.1, CCDS55773.1	11q13.2	2013-02-12			ENSG00000239306	ENSG00000239306		"RNA binding motif (RRM) containing"	14219	protein-coding gene	gene with protein product	"coactivator activator", "SYT interacting protein"	612409				9285794	Standard	NM_006328		Approved	SIP, SYTIP1, COAA, DKFZp779J0927	uc001oit.3	Q96PK6	OTTHUMG00000140380	ENST00000310137.4:c.293T>C	11.37:g.66384484T>C	ENSP00000311747:p.Leu98Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B0LM41|B3KMN4|D6RGD8|O75932|Q2PYN1|Q53GV1|Q68DQ9|Q96PK5	Missense_Mutation	SNP	ENST00000310137.4	37	CCDS8147.1	.	.	.	.	.	.	.	.	.	.	T	19.10	3.761857	0.69763	.	.	ENSG00000239306;ENSG00000239306;ENSG00000239306;ENSG00000239306;ENSG00000239306;ENSG00000248643;ENSG00000248643	ENST00000310137;ENST00000393979;ENST00000409372;ENST00000443702;ENST00000409738;ENST00000412278;ENST00000500635	T;T;T;T;T;T;T	0.23754	1.89;1.89;1.89;1.89;1.89;1.89;1.89	5.19	4.01	0.46588	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.257070	0.27811	N	0.017747	T	0.58977	0.2160	H	0.94808	3.585	0.80722	D	1	D;D;D;B	0.89917	1.0;0.999;0.995;0.213	D;D;D;B	0.87578	0.998;0.964;0.974;0.398	T	0.68002	-0.5524	10	0.59425	D	0.04	-4.9687	10.4857	0.44719	0.0:0.0:0.1621:0.8379	.	98;98;98;98	B0LM41;Q96PK6-2;Q2PYN1;Q96PK6	.;.;.;RBM14_HUMAN	P	98	ENSP00000311747:L98P;ENSP00000377548:L98P;ENSP00000386518:L98P;ENSP00000414650:L98P;ENSP00000386995:L98P;ENSP00000388552:L98P;ENSP00000421279:L98P	ENSP00000311747:L98P	L	+	2	0	RBM14;RBM14-RBM4	66141060	0.914000	0.31030	1.000000	0.80357	0.966000	0.64601	1.791000	0.38744	1.971000	0.57363	0.459000	0.35465	CTC		0.647	RBM14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277128.1	NM_006328		C	66384484	T	C	66384484	3	2	611	1	0	0	0	0	1	0	0	0	13128	1551	54	3	295	3	RBM14	11	66384484	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	59595114	66384484	68622032	76	37201										
FGF3	2248	broad.mit.edu;bcgsc.ca	37	chr11	69625251	69625251	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ggtccctgtggtccagcacgCggggcaggaacagggaggac	18	11	0	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr11:69625251C>T	ENST00000334134.2	-	3	632	c.542G>A	c.(541-543)cGc>cAc	p.R181H		NM_005247.2	NP_005238.1	P11487	FGF3_HUMAN	fibroblast growth factor 3	181					anatomical structure morphogenesis (GO:0009653)|cell-cell signaling (GO:0007267)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|negative regulation of cardiac muscle tissue development (GO:0055026)|neurotrophin TRK receptor signaling pathway (GO:0048011)|organ induction (GO:0001759)|otic vesicle formation (GO:0030916)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell division (GO:0051781)|positive regulation of cell proliferation (GO:0008284)|post-anal tail morphogenesis (GO:0036342)|semicircular canal morphogenesis (GO:0048752)|signal transduction (GO:0007165)|thymus development (GO:0048538)	extracellular region (GO:0005576)|Golgi apparatus (GO:0005794)	growth factor activity (GO:0008083)			endometrium(1)|kidney(1)|large_intestine(1)|lung(6)|ovary(1)|prostate(2)|urinary_tract(1)	13			LUSC - Lung squamous cell carcinoma(11;5.05e-15)|STAD - Stomach adenocarcinoma(18;0.0278)			GTCCAGCACGCGGGGCAGGAA	0.687																																																0													22	24	23					11																	69625251		2190	4268	6458	SO:0001583	missense	2248				CCDS8195.1	11q13	2010-06-25	2010-06-25		ENSG00000186895	ENSG00000186895			3681	protein-coding gene	gene with protein product	"INT-2 proto-oncogene protein", "oncogene INT2", "V-INT2 murine mammary tumor virus integration site oncogene homolog", "murine mammary tumor virus integration site 2, mouse"	164950	"fibroblast growth factor 3 (murine mammary tumor virus integration site (v-int-2) oncogene homolog)"	INT2			Standard	NM_005247		Approved	HBGF-3	uc001oph.3	P11487	OTTHUMG00000167888	ENST00000334134.2:c.542G>A	11.37:g.69625251C>T	ENSP00000334122:p.Arg181His	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VG69	Missense_Mutation	SNP	ENST00000334134.2	37	CCDS8195.1	.	.	.	.	.	.	.	.	.	.	C	27.6	4.849693	0.91277	.	.	ENSG00000186895	ENST00000334134	T	0.69435	-0.4	4.01	4.01	0.46588	.	0.055897	0.64402	D	0.000002	T	0.73713	0.3622	L	0.36672	1.1	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.73244	-0.4044	9	.	.	.	.	16.1475	0.81580	0.0:1.0:0.0:0.0	.	181	P11487	FGF3_HUMAN	H	181	ENSP00000334122:R181H	.	R	-	2	0	FGF3	69334432	1.000000	0.71417	1.000000	0.80357	0.939000	0.58152	5.414000	0.66405	1.763000	0.52060	0.462000	0.41574	CGC		0.687	FGF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396835.1	NM_005247		T	69625251	C	T	69625251	3	4	611	1	0	0	0	0	1	0	0	0	5860	768	27	1	181	1	FGF3	11	69625251	Missense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	3240767	69625251	65381265	77	37202										
AQP11	282679	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	77301546	77301546	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gctcaaagcggtcatcacagAggccgtctgctcctttctct	9	14	5	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr11:77301546A>G	ENST00000313578.3	+	1	867	c.509A>G	c.(508-510)gAg>gGg	p.E170G	AQP11_ENST00000528638.1_Intron	NM_173039.2	NP_766627.1	Q8NBQ7	AQP11_HUMAN	aquaporin 11	170					endosomal lumen acidification (GO:0048388)|protein homooligomerization (GO:0051260)|proximal tubule development (GO:0072014)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cell surface (GO:0009986)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			kidney(2)|large_intestine(1)|lung(5)	8	all_cancers(14;1.75e-17)|all_epithelial(13;4.7e-20)|Ovarian(111;0.249)		Epithelial(5;4.73e-49)|BRCA - Breast invasive adenocarcinoma(5;1.4e-30)			GTCATCACAGAGGCCGTCTGC	0.557																																																0													119	115	117					11																	77301546		2200	4292	6492	SO:0001583	missense	282679			AB028147	CCDS8251.1	11q13.5	2008-02-05			ENSG00000178301	ENSG00000178301		"Ion channels / Aquaporins"	19940	protein-coding gene	gene with protein product		609914				16107722	Standard	NM_173039		Approved		uc001oyj.3	Q8NBQ7	OTTHUMG00000165194	ENST00000313578.3:c.509A>G	11.37:g.77301546A>G	ENSP00000318770:p.Glu170Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000313578.3	37	CCDS8251.1	.	.	.	.	.	.	.	.	.	.	A	24.9	4.576863	0.86645	.	.	ENSG00000178301	ENST00000313578	T	0.70399	-0.48	5.54	5.54	0.83059	Aquaporin-like (2);	0.000000	0.85682	D	0.000000	D	0.84737	0.5538	M	0.81497	2.545	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.87033	0.2136	10	0.87932	D	0	-14.4732	15.6787	0.77349	1.0:0.0:0.0:0.0	.	170	Q8NBQ7	AQP11_HUMAN	G	170	ENSP00000318770:E170G	ENSP00000318770:E170G	E	+	2	0	AQP11	76979194	1.000000	0.71417	0.812000	0.32479	0.716000	0.41182	7.467000	0.80930	2.107000	0.64212	0.402000	0.26972	GAG		0.557	AQP11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382582.1	NM_173039		G	77301546	A	G	77301546	3	3	611	1	0	0	0	0	1	0	0	0	823	304	11	3	511	3	AQP11	11	77301546	Missense_Mutation	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	7676295	77301546	57704970	78	37203										
MAML2	84441	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	95712439	95712440	+	Frame_Shift_Ins	INS	-	-	T													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ttagctgattgggtctgagaINSttcagacccctgaggggacc							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr11:95712439_95712440insT	ENST00000524717.1	-	5	4427_4428	c.3143_3144insA	c.(3142-3144)aatfs	p.N1048fs		NM_032427.1	NP_115803.1	Q8IZL2	MAML2_HUMAN	mastermind-like 2 (Drosophila)	1048					gene expression (GO:0010467)|Notch signaling pathway (GO:0007219)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription initiation from RNA polymerase II promoter (GO:0006367)	Golgi apparatus (GO:0005794)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)		CRTC3/MAML2(26)|CRTC1/MAML2(516)	breast(2)|cervix(1)|endometrium(11)|kidney(4)|large_intestine(8)|lung(12)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	43		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				TGGGTCTGAGATTCAGACCCCT	0.5			T	"MECT1, CRTC3"	salivary gland mucoepidermoid																																		Dom	yes		11	11q22-q23	84441	mastermind-like 2 (Drosophila)		E	0																																										SO:0001589	frameshift_variant	84441			AB058722	CCDS44714.1	11q	2008-02-05	2001-11-28		ENSG00000184384	ENSG00000184384			16259	protein-coding gene	gene with protein product		607537	"mastermind (Drosophila)-like 2"			12370315, 12386158	Standard	NM_032427		Approved	KIAA1819, MAM3	uc001pfw.1	Q8IZL2	OTTHUMG00000167677	ENST00000524717.1:c.3144dupA	11.37:g.95712441_95712441dupT	ENSP00000434552:p.Asn1048fs	Somatic		WXS	Illumina HiSeq	Phase_I	A7MD26|Q6AI23|Q6Y3A3|Q8IUL3|Q96JK6	Frame_Shift_Ins	INS	ENST00000524717.1	37	CCDS44714.1																																																																																				0.5	MAML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395540.1			T	95712440	-	T	95712439	7	5	611	1	0	1	1	0	0	0	0	0	9213	330	12	0	330	0	MAML2	11	95712439	Frame_Shift_Ins	INS	-	TCGA-HE-A5NK-01A-11D-A26P-10	18410893	95712439	39294077	79	37204										
KIAA1377	57562	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	101832493	101832493	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	aatttggtgatgaagttaatCagataaccaattctgaaacc	7	6	2	4			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr11:101832493C>G	ENST00000263468.8	+	6	997	c.727C>G	c.(727-729)Cag>Gag	p.Q243E	KIAA1377_ENST00000537689.1_Missense_Mutation_p.Q44E	NM_020802.2	NP_065853.2	Q9P2H0	K1377_HUMAN	KIAA1377	243										breast(4)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(12)|lung(18)|ovary(1)|prostate(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	53	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		TGAAGTTAATCAGATAACCAA	0.313																																																0													39	42	41					11																	101832493		2199	4295	6494	SO:0001583	missense	57562			AK095004	CCDS31658.1	11q22.2	2006-02-03			ENSG00000110318	ENSG00000110318			29264	protein-coding gene	gene with protein product		614634				10718198	Standard	XM_005271627		Approved		uc001pgm.3	Q9P2H0	OTTHUMG00000167319	ENST00000263468.8:c.727C>G	11.37:g.101832493C>G	ENSP00000263468:p.Gln243Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0U6	Missense_Mutation	SNP	ENST00000263468.8	37	CCDS31658.1	.	.	.	.	.	.	.	.	.	.	C	10.77	1.444976	0.25987	.	.	ENSG00000110318	ENST00000263468;ENST00000537689	T;T	0.07908	3.15;3.15	5.51	5.51	0.81932	.	0.475599	0.20115	N	0.098938	T	0.12860	0.0312	M	0.70595	2.14	0.22684	N	0.998852	B	0.24823	0.112	B	0.26094	0.066	T	0.07597	-1.0764	10	0.48119	T	0.1	0.0806	11.3463	0.49563	0.1257:0.6801:0.1941:0.0	.	243	Q9P2H0	K1377_HUMAN	E	243;44	ENSP00000263468:Q243E;ENSP00000443184:Q44E	ENSP00000263468:Q243E	Q	+	1	0	KIAA1377	101337703	0.999000	0.42202	0.995000	0.50966	0.907000	0.53573	1.559000	0.36320	2.595000	0.87683	0.561000	0.74099	CAG		0.313	KIAA1377-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394140.1	NM_020802		G	101832493	C	G	101832493	3	3	611	1	0	0	0	0	1	0	0	0	8234	827	29	4	749	4	KIAA1377	11	101832493	Missense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	6120054	101832493	33174023	80	37205										
OR8B2	26595	bcgsc.ca	37	chr11	124252684	124252692	+	In_Frame_Del	DEL	GGAGGAGGG	GGAGGAGGG	-													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ggtgctggtgcaggaaagctGgaggagggggagtatgtcac							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	GGAGGAGGG	GGAGGAGGG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr11:124252684_124252692delGGAGGAGGG	ENST00000375013.2	-	1	566_574	c.548_556delCCCTCCTCC	c.(547-558)cccctcctccag>cag	p.PLL183del		NM_001005468.1	NP_001005468.1	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B, member 2	183						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(13)|ovary(1)	23		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)		CAGGAAAGCTGGAGGAGGGGGAGTATGTC	0.488																																																0																																										SO:0001651	inframe_deletion	26595			AB065826	CCDS31708.1	11q24.1	2012-08-09			ENSG00000204293	ENSG00000204293		"GPCR / Class A : Olfactory receptors"	8471	protein-coding gene	gene with protein product							Standard	XM_005271500		Approved		uc010sai.2	Q96RD0	OTTHUMG00000165982	ENST00000375013.2:c.548_556delCCCTCCTCC	11.37:g.124252684_124252692delGGAGGAGGG	ENSP00000364152:p.Pro183_Leu185del	Somatic		WXS	Illumina HiSeq	Phase_1	Q8NGH2	In_Frame_Del	DEL	ENST00000375013.2	37	CCDS31708.1																																																																																				0.488	OR8B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387290.1	NM_001005468		-	124252692	GGAGGAGGG	-	124252684	7	5	611	1	0	1	0	1	0	0	0	0	11234	1357	47	0	388	0	OR8B2	11	124252684	In_Frame_Del	DEL	GGAGGAGGG	TCGA-HE-A5NK-01A-11D-A26P-10	22420191	124252684	10753832	81	37206										
CACNA1C	775	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	2763057	2763057	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ttcttcatctacgcggtgatCgggatgcaggtagggaggct	15	8	3	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr12:2763057C>T	ENST00000347598.4	+	35	4275	c.4275C>T	c.(4273-4275)atC>atT	p.I1425I	CACNA1C_ENST00000399617.1_Silent_p.I1377I|CACNA1C_ENST00000344100.3_Silent_p.I1399I|CACNA1C_ENST00000399637.1_Silent_p.I1377I|CACNA1C_ENST00000399597.1_Silent_p.I1377I|CACNA1C_ENST00000399638.1_Silent_p.I1405I|CACNA1C_ENST00000399644.1_Silent_p.I1377I|CACNA1C_ENST00000399641.1_Silent_p.I1377I|CACNA1C_ENST00000399601.1_Silent_p.I1377I|CACNA1C_ENST00000399606.1_Silent_p.I1397I|CACNA1C_ENST00000399603.1_Silent_p.I1377I|CACNA1C_ENST00000399621.1_Silent_p.I1377I|CACNA1C_ENST00000327702.7_Silent_p.I1377I|CACNA1C_ENST00000399595.1_Silent_p.I1366I|CACNA1C_ENST00000399649.1_Silent_p.I1364I|CACNA1C_ENST00000399655.1_Silent_p.I1377I|CACNA1C_ENST00000335762.5_Silent_p.I1402I|CACNA1C_ENST00000399629.1_Silent_p.I1394I|CACNA1C_ENST00000399634.1_Silent_p.I1377I|CACNA1C_ENST00000399591.1_Silent_p.I1366I|CACNA1C_ENST00000406454.3_Silent_p.I1377I|CACNA1C_ENST00000402845.3_Silent_p.I1377I	NM_001129827.1|NM_199460.2	NP_001123299.1|NP_955630.2	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type, alpha 1C subunit	1425					adult walking behavior (GO:0007628)|axon guidance (GO:0007411)|calcium ion import (GO:0070509)|calcium ion transport into cytosol (GO:0060402)|calcium ion-dependent exocytosis (GO:0017156)|calcium-mediated signaling using extracellular calcium source (GO:0035585)|cell communication by electrical coupling involved in cardiac conduction (GO:0086064)|energy reserve metabolic process (GO:0006112)|glucose homeostasis (GO:0042593)|growth hormone secretion (GO:0030252)|insulin secretion (GO:0030073)|membrane depolarization during action potential (GO:0086010)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|regulation of blood pressure (GO:0008217)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of insulin secretion (GO:0050796)|regulation of organ growth (GO:0046620)|regulation of vasoconstriction (GO:0019229)|small molecule metabolic process (GO:0044281)|smooth muscle contraction involved in micturition (GO:0060083)|synaptic transmission (GO:0007268)|visual learning (GO:0008542)	caveolar macromolecular signaling complex (GO:0002095)|cytoplasm (GO:0005737)|dendritic shaft (GO:0043198)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|voltage-gated calcium channel complex (GO:0005891)|Z disc (GO:0030018)	alpha-actinin binding (GO:0051393)|calmodulin binding (GO:0005516)|high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)			NS(3)|breast(4)|central_nervous_system(4)|cervix(2)|endometrium(12)|kidney(9)|large_intestine(20)|lung(55)|ovary(10)|pancreas(1)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)	132			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Amlodipine(DB00381)|Cinnarizine(DB00568)|Clevidipine(DB04920)|Dronedarone(DB04855)|Drotaverine(DB06751)|Felodipine(DB01023)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Verapamil(DB00661)	ACGCGGTGATCGGGATGCAGG	0.627																																																0													75	78	77					12																	2763057		2028	4203	6231	SO:0001819	synonymous_variant	775			AF070589	CCDS44787.1, CCDS44788.1, CCDS44789.1, CCDS44790.1, CCDS44791.1, CCDS44792.1, CCDS44793.1, CCDS44794.1, CCDS44795.1, CCDS44796.1, CCDS44797.1, CCDS44798.1, CCDS44799.1, CCDS44800.1, CCDS44801.1, CCDS53733.1, CCDS53734.1, CCDS53735.1, CCDS53736.1	12p13.3	2014-09-17			ENSG00000151067	ENSG00000151067		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1390	protein-coding gene	gene with protein product		114205		CCHL1A1, CACNL1A1		1650913, 16382099	Standard	NM_001129832		Approved	Cav1.2, CACH2, CACN2, TS, LQT8	uc001qjy.3	Q13936	OTTHUMG00000150243	ENST00000347598.4:c.4275C>T	12.37:g.2763057C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RUT3|E9PDJ0|Q13917|Q13918|Q13919|Q13920|Q13921|Q13922|Q13923|Q13924|Q13925|Q13926|Q13927|Q13928|Q13929|Q13930|Q13932|Q13933|Q14743|Q14744|Q15877|Q4VMI7|Q4VMI8|Q4VMI9|Q6PKM7|Q8N6C0|Q99025|Q99241|Q99875	Silent	SNP	ENST00000347598.4	37	CCDS44788.1																																																																																				0.627	CACNA1C-017	KNOWN	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000317035.1	NM_000719		T	2763057	C	T	2763057	2	4	611	1	0	0	0	0	0	0	0	1	2542	874	31	1		1	CACNA1C	12	2763057	Silent	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10		2763057	131088838	82	37207										
A2M	2	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	9242617	9242617	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gctcacagtgaaattcacatTtcctgaaaaaaaaggccagt	7	9	2	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr12:9242617T>A	ENST00000318602.7	-	21	2906	c.2599A>T	c.(2599-2601)Aat>Tat	p.N867Y		NM_000014.4	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin	867					blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|negative regulation of complement activation, lectin pathway (GO:0001869)|negative regulation of endopeptidase activity (GO:0010951)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|stem cell differentiation (GO:0048863)	blood microparticle (GO:0072562)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|platelet alpha granule lumen (GO:0031093)	calcium-dependent protein binding (GO:0048306)|enzyme binding (GO:0019899)|growth factor binding (GO:0019838)|interleukin-1 binding (GO:0019966)|interleukin-8 binding (GO:0019959)|protease binding (GO:0002020)|receptor binding (GO:0005102)|serine-type endopeptidase inhibitor activity (GO:0004867)|tumor necrosis factor binding (GO:0043120)			breast(1)|central_nervous_system(6)|cervix(1)|endometrium(5)|kidney(6)|large_intestine(17)|lung(30)|ovary(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	77					Bacitracin(DB00626)|Becaplermin(DB00102)|Ocriplasmin(DB08888)	AAATTCACATTTCCTGAAAAA	0.438																																																0													119	118	118					12																	9242617		1893	4112	6005	SO:0001583	missense	2			BX647329, X68728, M11313	CCDS44827.1	12p13.31	2010-02-24			ENSG00000175899	ENSG00000175899			7	protein-coding gene	gene with protein product		103950					Standard	XM_006719056		Approved	FWP007, S863-7, CPAMD5	uc001qvk.1	P01023	OTTHUMG00000150267	ENST00000318602.7:c.2599A>T	12.37:g.9242617T>A	ENSP00000323929:p.Asn867Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q13677|Q59F47|Q5QTS0|Q68DN2|Q6PIY3|Q6PN97	Missense_Mutation	SNP	ENST00000318602.7	37	CCDS44827.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	11.24|11.24	1.580426|1.580426	0.28180|0.28180	.|.	.|.	ENSG00000175899|ENSG00000175899	ENST00000543436|ENST00000318602;ENST00000540099	.|T	.|0.17054	.|2.3	5.68|5.68	3.33|3.33	0.38152|0.38152	.|.	.|0.737822	.|0.13068	.|N	.|0.416350	T|T	0.19327|0.19327	0.0464|0.0464	M|M	0.80028|0.80028	2.48|2.48	0.09310|0.09310	N|N	1|1	.|B	.|0.17465	.|0.022	.|B	.|0.15870	.|0.014	T|T	0.41998|0.41998	-0.9477|-0.9477	5|10	.|0.66056	.|D	.|0.02	.|.	0.9957|0.9957	0.01466|0.01466	0.1621:0.1524:0.1695:0.516|0.1621:0.1524:0.1695:0.516	.|.	.|867	.|P01023	.|A2MG_HUMAN	D|Y	114|867;882	.|ENSP00000323929:N867Y	.|ENSP00000323929:N867Y	E|N	-|-	3|1	2|0	A2M|A2M	9133884|9133884	0.000000|0.000000	0.05858|0.05858	0.405000|0.405000	0.26409|0.26409	0.850000|0.850000	0.48378|0.48378	0.257000|0.257000	0.18369|0.18369	0.955000|0.955000	0.37878|0.37878	-0.336000|-0.336000	0.08194|0.08194	GAA|AAT		0.438	A2M-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317233.2	NM_000014		A	9242617	T	A	9242617	3	1	611	1	0	0	0	0	1	0	0	0	4	1841	64	5	1889	5	A2M	12	9242617	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	6479560	9242617	124609278	83	37208										
PTPRB	5787	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	71002988	71002988	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gggcacaacgcggcccccagGgtgtcactgctatagatgag	14	12	1	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr12:71002988G>A	ENST00000261266.5	-	2	215	c.186C>T	c.(184-186)acC>acT	p.T62T	PTPRB_ENST00000551525.1_Silent_p.T279T|PTPRB_ENST00000550857.1_Silent_p.T62T|PTPRB_ENST00000451516.2_Silent_p.T62T|PTPRB_ENST00000550358.1_Silent_p.T280T|PTPRB_ENST00000538174.2_5'UTR|PTPRB_ENST00000538708.1_Silent_p.T62T|PTPRB_ENST00000334414.6_Silent_p.T280T	NM_002837.4	NP_002828.3	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	62	Fibronectin type-III 1. {ECO:0000255|PROSITE-ProRule:PRU00316}.				angiogenesis (GO:0001525)|dephosphorylation (GO:0016311)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphate-containing compound metabolic process (GO:0006796)|protein dephosphorylation (GO:0006470)	integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)	transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			breast(4)|central_nervous_system(2)|endometrium(13)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(8)|lung(46)|prostate(4)|skin(18)|upper_aerodigestive_tract(1)|urinary_tract(3)	107	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)			CGGCCCCCAGGGTGTCACTGC	0.498																																																0													86	90	88					12																	71002988		1923	4116	6039	SO:0001819	synonymous_variant	5787			X54131	CCDS44943.1, CCDS44944.1, CCDS55845.1, CCDS55846.1	12q15-q21	2013-02-11						"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Fibronectin type III domain containing"	9665	protein-coding gene	gene with protein product		176882		PTPB		2169617	Standard	NM_001109754		Approved		uc001swc.4	P23467	OTTHUMG00000169499	ENST00000261266.5:c.186C>T	12.37:g.71002988G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKS8|B7ZKT0|C9JX87|F5H3G6|Q14D85|Q3MIV7	Silent	SNP	ENST00000261266.5	37	CCDS44944.1	.	.	.	.	.	.	.	.	.	.	G	0.050	-1.252789	0.01469	.	.	ENSG00000127329	ENST00000547715	.	.	.	4.75	-4.0	0.04057	.	.	.	.	.	T	0.17023	0.0409	.	.	.	0.09310	N	0.999999	.	.	.	.	.	.	T	0.21930	-1.0231	4	.	.	.	.	0.6526	0.00829	0.3902:0.1252:0.1784:0.3062	.	.	.	.	S	54	.	.	P	-	1	0	PTPRB	69289255	0.707000	0.27866	0.000000	0.03702	0.051000	0.14879	-0.453000	0.06778	-1.290000	0.02372	-0.194000	0.12790	CCT		0.498	PTPRB-007	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000404439.1			A	71002988	G	A	71002988	2	1	611	1	0	0	0	0	0	0	0	1	12809	1219	43	2		2	PTPRB	12	71002988	Silent	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	61760371	71002988	62848907	84	37209										
HIP1R	9026	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	123342922	123342922	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tggtgagcagggcccaggagGccttggatgccgtgagcacc	17	11	0	2	rs375880257		TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr12:123342922G>A	ENST00000253083.4	+	20	2115	c.1990G>A	c.(1990-1992)Gcc>Acc	p.A664T		NM_003959.1	NP_003950.1	O75146	HIP1R_HUMAN	huntingtin interacting protein 1 related	664					receptor-mediated endocytosis (GO:0006898)	clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|intracellular membrane-bounded organelle (GO:0043231)	phosphatidylinositol binding (GO:0035091)			breast(1)|endometrium(5)|kidney(6)|large_intestine(2)|lung(6)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	26	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;4.6e-05)|Epithelial(86;0.000119)|BRCA - Breast invasive adenocarcinoma(302;0.2)		GGCCCAGGAGGCCTTGGATGC	0.687													G|||	1	0.000199681	0.0008	0.0	5008	,	,		17393	0.0		0.0	False		,,,				2504	0.0															0								G	THR/ALA	1,4405	2.1+/-5.4	0,1,2202	54	53	54		1990	5.2	0.9	12		54	0,8600		0,0,4300	no	missense	HIP1R	NM_003959.1	58	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	benign	664/1069	123342922	1,13005	2203	4300	6503	SO:0001583	missense	9026			AB013384	CCDS31922.1	12q24	2007-12-07			ENSG00000130787	ENSG00000130787			18415	protein-coding gene	gene with protein product		605613				16415883	Standard	NM_003959		Approved	KIAA0655, HIP3, HIP12, FLJ14000, ILWEQ	uc001udj.1	O75146	OTTHUMG00000168765	ENST00000253083.4:c.1990G>A	12.37:g.123342922G>A	ENSP00000253083:p.Ala664Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHQ6|Q6NXG8|Q9UED9	Missense_Mutation	SNP	ENST00000253083.4	37	CCDS31922.1	.	.	.	.	.	.	.	.	.	.	G	9.409	1.080136	0.20309	2.27E-4	0.0	ENSG00000130787	ENST00000253083	T	0.19105	2.17	5.24	5.24	0.73138	.	0.069873	0.56097	N	0.000030	T	0.19967	0.0480	L	0.49350	1.555	0.39383	D	0.966281	B	0.20550	0.046	B	0.14023	0.01	T	0.05566	-1.0877	10	0.17832	T	0.49	-27.4445	14.146	0.65351	0.0745:0.0:0.9255:0.0	.	664	O75146	HIP1R_HUMAN	T	664	ENSP00000253083:A664T	ENSP00000253083:A664T	A	+	1	0	HIP1R	121908875	1.000000	0.71417	0.941000	0.38009	0.429000	0.31625	5.185000	0.65076	2.436000	0.82500	0.561000	0.74099	GCC		0.687	HIP1R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400935.1	NM_003959		A	123342922	G	A	123342922	3	1	611	1	0	0	0	0	1	0	0	0	7122	1203	42	2	2068	2	HIP1R	12	123342922	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	52339934	123342922	10508973	85	37210										
PGAM5	192111	hgsc.bcm.edu;bcgsc.ca	37	chr12	133294130	133294130	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	cgccatagagaccaccgataTcatcagccggcacctgccag	9	16	2	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr12:133294130T>C	ENST00000498926.2	+	3	534	c.476T>C	c.(475-477)aTc>aCc	p.I159T	PGAM5_ENST00000543955.1_Missense_Mutation_p.I10T|PGAM5_ENST00000454808.2_Missense_Mutation_p.I10T|PGAM5_ENST00000317555.2_Missense_Mutation_p.I159T|PXMP2_ENST00000545677.1_3'UTR	NM_001170543.1|NM_001170544.1	NP_001164014.1|NP_001164015.1	Q96HS1	PGAM5_HUMAN	phosphoglycerate mutase family member 5	159					dephosphorylation (GO:0016311)|necroptotic process (GO:0070266)|positive regulation of GTPase activity (GO:0043547)	integral component of membrane (GO:0016021)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)	GTPase activator activity (GO:0005096)|phosphatase activity (GO:0016791)|phosphoprotein phosphatase activity (GO:0004721)|protein complex binding (GO:0032403)			endometrium(1)|kidney(1)|large_intestine(1)|lung(2)	5	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.89e-08)|Epithelial(86;1.14e-07)|all cancers(50;3.57e-06)		ACCACCGATATCATCAGCCGG	0.632																																																0													49	55	53					12																	133294130		2203	4298	6501	SO:0001583	missense	192111			BC008196	CCDS9280.1, CCDS53845.1	12q24.33	2011-07-28			ENSG00000247077	ENSG00000247077			28763	protein-coding gene	gene with protein product		614939				11283018	Standard	NM_001170543		Approved	MGC5352, BXLBv68	uc009zyv.3	Q96HS1	OTTHUMG00000168021	ENST00000498926.2:c.476T>C	12.37:g.133294130T>C	ENSP00000438465:p.Ile159Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A9LN06|C9IZY7|Q96JB0	Missense_Mutation	SNP	ENST00000498926.2	37	CCDS53845.1	.	.	.	.	.	.	.	.	.	.	T	19.44	3.827390	0.71143	.	.	ENSG00000247077	ENST00000317555;ENST00000498926;ENST00000543955;ENST00000454808	T;T	0.73681	1.36;-0.77	5.6	5.6	0.85130	Histidine phosphatase superfamily, clade-1 (2);	0.000000	0.85682	D	0.000000	D	0.86577	0.5966	M	0.79693	2.465	0.80722	D	1	D;D	0.76494	0.999;0.988	D;D	0.81914	0.995;0.962	D	0.88249	0.2915	10	0.66056	D	0.02	-3.8102	15.8035	0.78473	0.0:0.0:0.0:1.0	.	159;159	Q96HS1;Q96HS1-2	PGAM5_HUMAN;.	T	159;159;10;10	ENSP00000321503:I159T;ENSP00000438465:I159T	ENSP00000321503:I159T	I	+	2	0	PGAM5	131804203	1.000000	0.71417	1.000000	0.80357	0.267000	0.26476	7.459000	0.80802	2.130000	0.65690	0.482000	0.46254	ATC		0.632	PGAM5-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397562.1	NM_138575		C	133294130	T	C	133294130	3	2	611	1	0	0	0	0	1	0	0	0	11783	1435	50	3	486	3	PGAM5	12	133294130	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	9951208	133294130	557765	86	37211										
MTRF1	9617	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	41791352	41791352	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ctgatccaggcccttcccacCacataaaaattcctggtaaa	5	14	0	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr13:41791352C>T	ENST00000379480.4	-	10	1337	c.1237G>A	c.(1237-1239)Ggt>Agt	p.G413S	MTRF1_ENST00000379477.1_Missense_Mutation_p.G413S|MTRF1_ENST00000430347.2_Silent_p.V461V	NM_004294.2	NP_004285.2	O75570	RF1M_HUMAN	mitochondrial translational release factor 1	413					regulation of translational termination (GO:0006449)	mitochondrion (GO:0005739)	translation release factor activity (GO:0003747)|translation release factor activity, codon specific (GO:0016149)			breast(1)|endometrium(4)|large_intestine(3)|lung(6)	14		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)|Ovarian(182;0.125)		OV - Ovarian serous cystadenocarcinoma(117;4.24e-10)|all cancers(112;2.05e-09)|Epithelial(112;2.48e-09)|GBM - Glioblastoma multiforme(144;0.00115)|BRCA - Breast invasive adenocarcinoma(63;0.0721)|KIRC - Kidney renal clear cell carcinoma(186;0.248)		CCCTTCCCACCACATAAAAAT	0.348																																																0													56	61	59					13																	41791352		2203	4300	6503	SO:0001583	missense	9617			AF072934	CCDS9378.1	13q14.1-q14.3	2008-07-18			ENSG00000120662	ENSG00000120662			7469	protein-coding gene	gene with protein product	"mitochontrial peptide chain release factor 1"	604601				9838146, 10773675	Standard	NM_004294		Approved	RF1, MTTRF1, MGC47721	uc001uxy.3	O75570	OTTHUMG00000016790	ENST00000379480.4:c.1237G>A	13.37:g.41791352C>T	ENSP00000368793:p.Gly413Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DG01|Q5T6Y5|Q8IUQ6	Missense_Mutation	SNP	ENST00000379480.4	37	CCDS9378.1	.	.	.	.	.	.	.	.	.	.	C	17.91	3.505562	0.64410	.	.	ENSG00000120662	ENST00000379480;ENST00000379477	T;T	0.58210	0.35;0.35	5.48	5.48	0.80851	.	0.000000	0.85682	D	0.000000	T	0.72334	0.3447	M	0.71036	2.16	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.75068	-0.3448	10	0.87932	D	0	-9.2822	16.8351	0.85955	0.0:1.0:0.0:0.0	.	413	O75570	RF1M_HUMAN	S	413	ENSP00000368793:G413S;ENSP00000368790:G413S	ENSP00000368790:G413S	G	-	1	0	MTRF1	40689352	1.000000	0.71417	1.000000	0.80357	0.228000	0.25075	4.053000	0.57427	2.583000	0.87209	0.655000	0.94253	GGT		0.348	MTRF1-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044666.3	NM_004294		T	41791352	C	T	41791352	3	4	611	1	0	0	0	0	1	0	0	0	9966	594	21	2	104	2	MTRF1	13	41791352	Missense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10		41791352	73378526	87	37212										
BCL2L2	599	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	23776985	23776985	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	atagccgcccggatggcgacCccagcctcggccccagacac	11	19	0	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr14:23776985C>A	ENST00000250405.5	+	3	238	c.9C>A	c.(7-9)acC>acA	p.T3T	BCL2L2-PABPN1_ENST00000557008.1_Silent_p.T3T|BCL2L2-PABPN1_ENST00000553781.1_Silent_p.T3T	NM_001199839.1|NM_004050.4	NP_001186768.1|NP_004041	Q92843	B2CL2_HUMAN	BCL2-like 2	3					extrinsic apoptotic signaling pathway in absence of ligand (GO:0097192)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|negative regulation of apoptotic process (GO:0043066)|negative regulation of intrinsic apoptotic signaling pathway (GO:2001243)|Sertoli cell proliferation (GO:0060011)|spermatogenesis (GO:0007283)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|mitochondrial outer membrane (GO:0005741)	protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)			central_nervous_system(1)|lung(4)|prostate(1)	6	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00654)		GGATGGCGACCCCAGCCTCGG	0.562																																																0													53	63	60					14																	23776985		2203	4298	6501	SO:0001819	synonymous_variant	100529063			D87461	CCDS9591.1	14q11.2-q12	2014-03-07			ENSG00000129473	ENSG00000129473		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	995	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 51"	601931				8761287	Standard	NM_001199839		Approved	KIAA0271, BCL-W, PPP1R51		Q92843	OTTHUMG00000028738	ENST00000250405.5:c.9C>A	14.37:g.23776985C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0F4|Q2M3U0|Q5U0H4	Silent	SNP	ENST00000250405.5	37	CCDS9591.1																																																																																				0.562	BCL2L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071763.3	NM_004050		A	23776985	C	A	23776985	2	1	611	1	0	0	0	0	0	0	0	1	1374	610	22	4		4	BCL2L2	14	23776985	Silent	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10		23776985	83572555	88	37213										
SAV1	60485	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	51132105	51132106	+	Frame_Shift_Del	DEL	CT	CT	-													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	aatgactgagaagaaccataCtctctagggacatctgctag							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr14:51132105_51132106delCT	ENST00000324679.4	-	2	689_690	c.326_327delAG	c.(325-327)gagfs	p.E109fs	RP11-248J18.2_ENST00000602954.1_RNA	NM_021818.3	NP_068590.1	Q9H4B6	SAV1_HUMAN	salvador family WW domain containing protein 1	109					hair follicle development (GO:0001942)|hippo signaling (GO:0035329)|intestinal epithelial cell differentiation (GO:0060575)|keratinocyte differentiation (GO:0030216)|lung epithelial cell differentiation (GO:0060487)|negative regulation of cardiac muscle cell proliferation (GO:0060044)|negative regulation of epithelial cell proliferation (GO:0050680)|positive regulation of apoptotic process (GO:0043065)|regulation of stem cell maintenance (GO:2000036)|ventricular septum morphogenesis (GO:0060412)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)				breast(1)|kidney(2)|lung(2)|prostate(1)	6	all_epithelial(31;0.000611)|Breast(41;0.0333)					AAGAACCATACTCTCTAGGGAC	0.376																																																0																																										SO:0001589	frameshift_variant	60485			AK023071	CCDS9701.1	14q13-q23	2014-04-14	2014-04-14		ENSG00000151748	ENSG00000151748			17795	protein-coding gene	gene with protein product	"WW domain-containing adaptor 45"	607203	"salvador homolog 1 (Drosophila)"			12202036, 11027580	Standard	NM_021818		Approved	WW45, WWP4, salvador	uc001wyh.2	Q9H4B6	OTTHUMG00000140293	ENST00000324679.4:c.326_327delAG	14.37:g.51132109_51132110delCT	ENSP00000324729:p.Glu109fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4B8|D3DSB6|Q6IA58|Q9H949|Q9HAK9	Frame_Shift_Del	DEL	ENST00000324679.4	37	CCDS9701.1																																																																																				0.376	SAV1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276879.1			-	51132106	CT	-	51132105	7	5	611	1	0	1	0	1	0	0	0	0	13869	564	20	0	840	0	SAV1	14	51132105	Frame_Shift_Del	DEL	CT	TCGA-HE-A5NK-01A-11D-A26P-10	27355120	51132105	56217435	89	37214										
MAP1A	4130	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	43817788	43817788	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ttttacagcagaaagacaaaActctggagcacaaggaggtg	11	7	1	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr15:43817788A>G	ENST00000300231.5	+	4	4567	c.4117A>G	c.(4117-4119)Act>Gct	p.T1373A	MAP1A_ENST00000382031.1_Missense_Mutation_p.T1611A|MAP1A_ENST00000399453.1_Missense_Mutation_p.T1373A			P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1373					microtubule cytoskeleton organization (GO:0000226)|sensory perception of sound (GO:0007605)	cytosol (GO:0005829)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)	structural molecule activity (GO:0005198)			breast(5)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(11)|liver(2)|lung(19)|ovary(5)|pancreas(3)|prostate(2)|skin(6)|soft_tissue(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	66		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)	GAAAGACAAAACTCTGGAGCA	0.443																																																0													99	96	97					15																	43817788		1906	4125	6031	SO:0001583	missense	4130			U38292	CCDS42031.1	15q15.3	2006-06-15			ENSG00000166963	ENSG00000166963			6835	protein-coding gene	gene with protein product		600178		MAP1L		7806212, 7629894	Standard	XM_005254385		Approved		uc001zrt.3	P78559	OTTHUMG00000059756	ENST00000300231.5:c.4117A>G	15.37:g.43817788A>G	ENSP00000300231:p.Thr1373Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O95643|Q12973|Q15882|Q9UJT4	Missense_Mutation	SNP	ENST00000300231.5	37	CCDS42031.1	.	.	.	.	.	.	.	.	.	.	A	9.136	1.012745	0.19277	.	.	ENSG00000166963	ENST00000382031;ENST00000399453;ENST00000300231	T;T;T	0.02280	4.36;4.36;4.36	4.47	1.97	0.26223	.	.	.	.	.	T	0.02807	0.0084	M	0.63428	1.95	0.09310	N	0.999998	B	0.33549	0.417	B	0.30495	0.116	T	0.41431	-0.9509	9	0.27785	T	0.31	0.3065	5.6758	0.17747	0.7318:0.171:0.0972:0.0	.	1373	P78559	MAP1A_HUMAN	A	1611;1373;1373	ENSP00000371462:T1611A;ENSP00000382380:T1373A;ENSP00000300231:T1373A	ENSP00000300231:T1373A	T	+	1	0	MAP1A	41605080	0.004000	0.15560	0.999000	0.59377	0.716000	0.41182	1.917000	0.39996	0.866000	0.35629	0.460000	0.39030	ACT		0.443	MAP1A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000132894.5	NM_002373		G	43817788	A	G	43817788	3	3	611	1	0	0	0	0	1	0	0	0	9234	43	2	3	4119	3	MAP1A	15	43817788	Missense_Mutation	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10		43817788	58713604	90	37215										
CP110	9738	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	19548820	19548820	+	Missense_Mutation	SNP	A	A	T													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	cataacaagtggaataactgAacaagaaaggcaacatttgc							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr16:19548820A>T	ENST00000381396.5	+	4	2076	c.1829A>T	c.(1828-1830)gAa>gTa	p.E610V	CCP110_ENST00000396212.2_Missense_Mutation_p.E610V|CCP110_ENST00000396208.2_Missense_Mutation_p.E610V	NM_001199022.1	NP_001185951	O43303	CP110_HUMAN	centriolar coiled coil protein 110kDa	610					cell projection organization (GO:0030030)|centriole replication (GO:0007099)|centrosome duplication (GO:0051298)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|regulation of cytokinesis (GO:0032465)	centriole (GO:0005814)|centrosome (GO:0005813)|cytosol (GO:0005829)|protein complex (GO:0043234)				breast(2)|endometrium(2)|kidney(2)|large_intestine(3)|lung(8)|stomach(3)|urinary_tract(1)	21						GGAATAACTGAACAAGAAAGG	0.348																																																0													67	72	70					16																	19548820		2197	4300	6497	SO:0001583	missense	9738			AB007879	CCDS10579.1, CCDS55992.1	16p12.3	2014-02-20	2011-05-27		ENSG00000103540	ENSG00000103540			24342	protein-coding gene	gene with protein product		609544				9455477, 12361598, 16760425	Standard	NM_014711		Approved	KIAA0419, CP110	uc002dgl.4	O43303	OTTHUMG00000131459	ENST00000381396.5:c.1829A>T	16.37:g.19548820A>T	ENSP00000370803:p.Glu610Val	Somatic		WXS	Illumina HiSeq	Phase_I	B7WP23|O43335|Q68DV9|Q8NE13	Missense_Mutation	SNP	ENST00000381396.5	37	CCDS55992.1	.	.	.	.	.	.	.	.	.	.	A	14.41	2.527464	0.44969	.	.	ENSG00000103540	ENST00000396212;ENST00000381396;ENST00000396208	T;T;T	0.16897	2.31;2.31;2.31	5.17	5.17	0.71159	.	0.139138	0.46145	D	0.000310	T	0.16557	0.0398	L	0.58101	1.795	0.30579	N	0.762718	P;P	0.45715	0.865;0.865	B;B	0.42555	0.391;0.391	T	0.30090	-0.9990	10	0.48119	T	0.1	-1.1381	3.1962	0.06634	0.6412:0.1436:0.0771:0.1382	.	610;610	O43303;O43303-2	CP110_HUMAN;.	V	610	ENSP00000379515:E610V;ENSP00000370803:E610V;ENSP00000379511:E610V	ENSP00000370803:E610V	E	+	2	0	CCP110	19456321	1.000000	0.71417	0.981000	0.43875	0.972000	0.66771	2.685000	0.46959	1.933000	0.56026	0.460000	0.39030	GAA		0.348	CCP110-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254284.2	NM_014711		T	19548820	A	T	19548820	3	4	611	1	0	0	0	0	1	0	0	0	3790	246	9	5	1839	5	CP110	16	19548820	Missense_Mutation	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10		19548820	70805933	91	37216	287	2								
CP110	9738	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	19548822	19548822	+	Missense_Mutation	SNP	C	C	A													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	taacaagtggaataactgaaCaagaaaggcaacatttgcca							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr16:19548822C>A	ENST00000381396.5	+	4	2078	c.1831C>A	c.(1831-1833)Caa>Aaa	p.Q611K	CCP110_ENST00000396212.2_Missense_Mutation_p.Q611K|CCP110_ENST00000396208.2_Missense_Mutation_p.Q611K	NM_001199022.1	NP_001185951	O43303	CP110_HUMAN	centriolar coiled coil protein 110kDa	611					cell projection organization (GO:0030030)|centriole replication (GO:0007099)|centrosome duplication (GO:0051298)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|regulation of cytokinesis (GO:0032465)	centriole (GO:0005814)|centrosome (GO:0005813)|cytosol (GO:0005829)|protein complex (GO:0043234)				breast(2)|endometrium(2)|kidney(2)|large_intestine(3)|lung(8)|stomach(3)|urinary_tract(1)	21						AATAACTGAACAAGAAAGGCA	0.348																																																0													66	71	69					16																	19548822		2197	4300	6497	SO:0001583	missense	9738			AB007879	CCDS10579.1, CCDS55992.1	16p12.3	2014-02-20	2011-05-27		ENSG00000103540	ENSG00000103540			24342	protein-coding gene	gene with protein product		609544				9455477, 12361598, 16760425	Standard	NM_014711		Approved	KIAA0419, CP110	uc002dgl.4	O43303	OTTHUMG00000131459	ENST00000381396.5:c.1831C>A	16.37:g.19548822C>A	ENSP00000370803:p.Gln611Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B7WP23|O43335|Q68DV9|Q8NE13	Missense_Mutation	SNP	ENST00000381396.5	37	CCDS55992.1	.	.	.	.	.	.	.	.	.	.	C	14.97	2.694577	0.48202	.	.	ENSG00000103540	ENST00000396212;ENST00000381396;ENST00000396208	T;T;T	0.19105	2.17;2.17;2.17	5.17	5.17	0.71159	.	0.260422	0.33127	N	0.005246	T	0.25005	0.0607	L	0.58101	1.795	0.35963	D	0.834752	P;P	0.41978	0.767;0.767	B;B	0.41510	0.359;0.359	T	0.33904	-0.9850	10	0.72032	D	0.01	-0.143	12.0805	0.53667	0.0:0.9211:0.0:0.0789	.	611;611	O43303;O43303-2	CP110_HUMAN;.	K	611	ENSP00000379515:Q611K;ENSP00000370803:Q611K;ENSP00000379511:Q611K	ENSP00000370803:Q611K	Q	+	1	0	CCP110	19456323	1.000000	0.71417	0.998000	0.56505	0.975000	0.68041	3.793000	0.55484	2.385000	0.81259	0.563000	0.77884	CAA		0.348	CCP110-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254284.2	NM_014711		A	19548822	C	A	19548822	3	1	611	1	0	0	0	0	1	0	0	0	3790	479	17	4	1841	4	CP110	16	19548822	Missense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	2	19548822	70805931	92	37217	287	2								
PRR14	78994	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	30666137	30666137	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ccgtcccccccaatgaagctGgagttgaagatcgccatctc	9	15	1	3			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr16:30666137G>A	ENST00000542965.2	+	7	1302	c.846G>A	c.(844-846)ctG>ctA	p.L282L	PRR14_ENST00000300835.4_Silent_p.L282L			Q9BWN1	PRR14_HUMAN	proline rich 14	282	Pro-rich.									breast(3)|endometrium(5)|kidney(1)|large_intestine(3)|lung(5)|skin(1)	18			Colorectal(24;0.103)			CAATGAAGCTGGAGTTGAAGA	0.637																																																0													19	23	21					16																	30666137		2192	4295	6487	SO:0001819	synonymous_variant	78994			AK074783	CCDS10687.1	16p11.2	2008-02-05			ENSG00000156858	ENSG00000156858			28458	protein-coding gene	gene with protein product						12477932	Standard	NM_024031		Approved	MGC3121	uc002dyy.3	Q9BWN1	OTTHUMG00000132414	ENST00000542965.2:c.846G>A	16.37:g.30666137G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8WTX2	Silent	SNP	ENST00000542965.2	37	CCDS10687.1																																																																																				0.637	PRR14-007	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000434433.1	NM_024031		A	30666137	G	A	30666137	2	1	611	1	0	0	0	0	0	0	0	1	12596	1335	47	2		2	PRR14	16	30666137	Silent	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	11117315	30666137	59688616	93	37218										
ITGAX	3687	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	31374006	31374006	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ccccccgctaccagcacaccGggaaggctgtcatcttcacc	8	19	3	0	rs554674355		TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr16:31374006G>C	ENST00000268296.4	+	12	1412	c.1291G>C	c.(1291-1293)Ggg>Cgg	p.G431R	ITGAX_ENST00000562522.1_Missense_Mutation_p.G431R	NM_000887.3	NP_000878.2	P20702	ITAX_HUMAN	integrin, alpha X (complement component 3 receptor 4 subunit)	431					blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|heterotypic cell-cell adhesion (GO:0034113)|integrin-mediated signaling pathway (GO:0007229)|leukocyte migration (GO:0050900)|organ morphogenesis (GO:0009887)	cell surface (GO:0009986)|integrin complex (GO:0008305)|membrane (GO:0016020)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|receptor activity (GO:0004872)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(8)|lung(42)|ovary(2)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	77						CCAGCACACCGGGAAGGCTGT	0.647																																																0													34	33	33					16																	31374006		2197	4300	6497	SO:0001583	missense	3687			BC038237	CCDS10711.1, CCDS67014.1	16p11.2	2010-03-23	2006-02-10		ENSG00000140678	ENSG00000140678		"CD molecules", "Complement system", "Integrins"	6152	protein-coding gene	gene with protein product		151510	"integrin, alpha X (antigen CD11C (p150), alpha polypeptide)"	CD11C		3284962, 2303426	Standard	NM_001286375		Approved	CD11c	uc002ebu.1	P20702	OTTHUMG00000132465	ENST00000268296.4:c.1291G>C	16.37:g.31374006G>C	ENSP00000268296:p.Gly431Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVA6	Missense_Mutation	SNP	ENST00000268296.4	37	CCDS10711.1	.	.	.	.	.	.	.	.	.	.	g	18.79	3.698354	0.68386	.	.	ENSG00000140678	ENST00000268296	T	0.54479	0.57	3.76	2.69	0.31865	.	.	.	.	.	T	0.80979	0.4728	H	0.98559	4.265	0.33798	D	0.62635	D	0.89917	1.0	D	0.87578	0.998	D	0.87513	0.2441	9	0.87932	D	0	.	10.1899	0.43019	0.0:0.2038:0.7962:0.0	.	431	P20702	ITAX_HUMAN	R	431	ENSP00000268296:G431R	ENSP00000268296:G431R	G	+	1	0	ITGAX	31281507	0.999000	0.42202	0.997000	0.53966	0.899000	0.52679	3.647000	0.54403	1.829000	0.53265	0.448000	0.29417	GGG		0.647	ITGAX-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000255628.2	NM_000887		C	31374006	G	C	31374006	3	2	611	1	0	0	0	0	1	0	0	0	7896	1116	39	4	1337	4	ITGAX	16	31374006	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	707869	31374006	58980747	94	37219										
ALOX12B	242	ucsc.edu;bcgsc.ca	37	chr17	7990699	7990699	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ccacaatggtcagtgagatgGagtcccgtgttcccgacaag	12	11	1	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr17:7990699G>C	ENST00000319144.4	-	1	322	c.62C>G	c.(61-63)tCc>tGc	p.S21C	MIR4314_ENST00000583321.1_RNA	NM_001139.2	NP_001130.1	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type	21	PLAT. {ECO:0000255|PROSITE- ProRule:PRU00152}.				arachidonic acid metabolic process (GO:0019369)|ceramide biosynthetic process (GO:0046513)|establishment of skin barrier (GO:0061436)|hepoxilin biosynthetic process (GO:0051122)|linoleic acid metabolic process (GO:0043651)|lipoxygenase pathway (GO:0019372)|oxidation-reduction process (GO:0055114)|positive regulation of gene expression (GO:0010628)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of mucus secretion (GO:0070257)|protein lipidation (GO:0006497)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	cytosol (GO:0005829)	arachidonate 12-lipoxygenase activity (GO:0004052)|iron ion binding (GO:0005506)|linoleate 9S-lipoxygenase activity (GO:1990136)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen (GO:0016702)			endometrium(5)|kidney(1)|large_intestine(3)|lung(5)|prostate(1)|stomach(1)	16						CAGTGAGATGGAGTCCCGTGT	0.577										Multiple Myeloma(8;0.094)																																						0													263	188	213					17																	7990699		2203	4300	6503	SO:0001583	missense	242			AF038461	CCDS11129.1	17p13.1	2008-03-18			ENSG00000179477	ENSG00000179477	1.13.11.-	"Arachidonate lipoxygenases"	430	protein-coding gene	gene with protein product		603741				9618483	Standard	NM_001139		Approved	12R-LOX	uc002gjy.1	O75342	OTTHUMG00000108180	ENST00000319144.4:c.62C>G	17.37:g.7990699G>C	ENSP00000315167:p.Ser21Cys	Somatic		WXS	Illumina HiSeq			Missense_Mutation	SNP	ENST00000319144.4	37	CCDS11129.1	.	.	.	.	.	.	.	.	.	.	G	6.255	0.415202	0.11870	.	.	ENSG00000179477	ENST00000319144	T	0.77750	-1.12	4.78	-3.77	0.04346	Lipoxygenase, LH2 (4);Lipase/lipooxygenase, PLAT/LH2 (1);	0.472031	0.23382	N	0.048781	T	0.64034	0.2562	L	0.35854	1.095	0.09310	N	0.999999	B	0.15719	0.014	B	0.24394	0.053	T	0.55140	-0.8187	10	0.40728	T	0.16	-16.6531	11.2422	0.48977	0.0:0.4855:0.3194:0.1951	.	21	O75342	LX12B_HUMAN	C	21	ENSP00000315167:S21C	ENSP00000315167:S21C	S	-	2	0	ALOX12B	7931424	0.993000	0.37304	0.042000	0.18584	0.279000	0.26890	0.479000	0.22228	-0.316000	0.08690	-0.314000	0.08810	TCC		0.577	ALOX12B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000226984.3			C	7990699	G	C	7990699	3	2	611	1	0	0	0	0	1	0	0	0	537	1174	41	4	2103	4	ALOX12B	17	7990699	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10		7990699	73204511	95	37220										
GHDC	84514	broad.mit.edu;bcgsc.ca	37	chr17	40344519	40344519	+	Frame_Shift_Del	DEL	A	A	-													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	catcagtctccaggcccaagAaaacatccagaagttcgaca							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr17:40344519delA	ENST00000301671.8	-	4	1070	c.629delT	c.(628-630)ttcfs	p.F210fs	GHDC_ENST00000587427.1_Frame_Shift_Del_p.F210fs|GHDC_ENST00000436923.2_Frame_Shift_Del_p.F210fs|GHDC_ENST00000593209.1_Frame_Shift_Del_p.F210fs|GHDC_ENST00000590520.1_5'Flank|GHDC_ENST00000414034.3_Frame_Shift_Del_p.F210fs|GHDC_ENST00000428494.2_Frame_Shift_Del_p.F171fs			Q8N2G8	GHDC_HUMAN	GH3 domain containing	210						endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)|nucleus (GO:0005634)				central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(5)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	13		all_cancers(22;0.000229)|Breast(137;0.00104)|all_epithelial(22;0.00304)		BRCA - Breast invasive adenocarcinoma(366;0.124)		CAGGCCCAAGAAAACATCCAG	0.652																																																0													82	94	89					17																	40344519		2202	4298	6500	SO:0001589	frameshift_variant	84514			AF316997, BC011056	CCDS11422.1, CCDS45682.1	17q21.2	2006-08-02				ENSG00000167925			24438	protein-coding gene	gene with protein product		608587				11161808, 11735219	Standard	NR_024573		Approved	LGP1	uc002hzf.4	Q8N2G8		ENST00000301671.8:c.629delT	17.37:g.40344519delA	ENSP00000301671:p.Phe210fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DQS4|E9PDB5|Q9BXM6	Frame_Shift_Del	DEL	ENST00000301671.8	37	CCDS11422.1																																																																																				0.652	GHDC-006	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000449794.1	NM_032484		-	40344519	A	-	40344519	7	5	611	1	0	1	0	1	0	0	0	0	6376	246	9	0	1076	0	GHDC	17	40344519	Frame_Shift_Del	DEL	A	TCGA-HE-A5NK-01A-11D-A26P-10	32353820	40344519	40850691	96	37221										
AOC3	8639	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	41004649	41004649	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gacaatacgtgatgccttttGtgtgtttgaacagaaccagg	11	7	0	3			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr17:41004649G>A	ENST00000308423.2	+	1	1449	c.1289G>A	c.(1288-1290)tGt>tAt	p.C430Y	AOC3_ENST00000591562.1_5'Flank	NM_003734.2	NP_003725.1	Q16853	AOC3_HUMAN	amine oxidase, copper containing 3	430					amine metabolic process (GO:0009308)|cation transmembrane transport (GO:0098655)|cation transport (GO:0006812)|cell adhesion (GO:0007155)|inflammatory response (GO:0006954)|response to antibiotic (GO:0046677)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|microvillus (GO:0005902)|plasma membrane (GO:0005886)	aliphatic-amine oxidase activity (GO:0052595)|aminoacetone:oxygen oxidoreductase(deaminating) activity (GO:0052594)|calcium ion binding (GO:0005509)|cation channel activity (GO:0005261)|copper ion binding (GO:0005507)|phenethylamine:oxygen oxidoreductase (deaminating) activity (GO:0052596)|primary amine oxidase activity (GO:0008131)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|quinone binding (GO:0048038)|tryptamine:oxygen oxidoreductase (deaminating) activity (GO:0052593)			breast(1)|central_nervous_system(4)|endometrium(4)|kidney(1)|large_intestine(8)|lung(14)|ovary(1)|skin(8)	41		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)	Hydralazine(DB01275)|Phenelzine(DB00780)	GATGCCTTTTGTGTGTTTGAA	0.592																																					NSCLC(3;192 220 10664 11501 16477)											0													96	85	89					17																	41004649		2203	4300	6503	SO:0001583	missense	8639			AF067406	CCDS11444.1, CCDS62198.1, CCDS74071.1	17q21	2013-05-08	2013-05-08			ENSG00000131471	1.4.3.21		550	protein-coding gene	gene with protein product	"vascular adhesion protein 1"	603735				9653080, 8972912	Standard	NM_003734		Approved	VAP1, HPAO, VAP-1	uc002ibv.4	Q16853		ENST00000308423.2:c.1289G>A	17.37:g.41004649G>A	ENSP00000312326:p.Cys430Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCI5|K7ESB3|L0L8N9|Q45F94	Missense_Mutation	SNP	ENST00000308423.2	37	CCDS11444.1	.	.	.	.	.	.	.	.	.	.	G	19.04	3.749416	0.69533	.	.	ENSG00000131471	ENST00000308423	T	0.11604	2.76	4.64	4.64	0.57946	Copper amine oxidase, C-terminal (3);	0.000000	0.85682	D	0.000000	T	0.45357	0.1338	M	0.93978	3.48	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.60850	-0.7181	10	0.87932	D	0	.	18.0666	0.89392	0.0:0.0:1.0:0.0	.	430	Q16853	AOC3_HUMAN	Y	430	ENSP00000312326:C430Y	ENSP00000312326:C430Y	C	+	2	0	AOC3	38258175	1.000000	0.71417	1.000000	0.80357	0.780000	0.44128	7.595000	0.82710	2.591000	0.87537	0.591000	0.81541	TGT		0.592	AOC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452444.1	NM_003734		A	41004649	G	A	41004649	3	1	611	1	0	0	0	0	1	0	0	0	728	1377	48	2	1291	2	AOC3	17	41004649	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	660130	41004649	40190561	97	37222										
MMD	23531	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	53485137	53485138	+	Frame_Shift_Ins	INS	-	-	AG													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	agaagcagcaatgaagaaatINSagataaccattctatcacac							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr17:53485137_53485138insAG	ENST00000262065.3	-	4	609_610	c.313_314insCT	c.(313-315)tatfs	p.Y105fs		NM_012329.2	NP_036461.2	Q15546	PAQRB_HUMAN	monocyte to macrophage differentiation-associated	105					cytolysis (GO:0019835)	endosome (GO:0005768)|integral component of plasma membrane (GO:0005887)|lysosome (GO:0005764)|membrane (GO:0016020)	receptor activity (GO:0004872)			breast(1)|large_intestine(1)|lung(4)|prostate(1)	7						AATGAAGAAATAGATAACCATT	0.386																																																0																																										SO:0001589	frameshift_variant	23531			X85750	CCDS11586.1	17q	2008-05-02				ENSG00000108960			7153	protein-coding gene	gene with protein product		604467				7503749, 16044242	Standard	NM_012329		Approved	MMA, PAQR11	uc002iui.3	Q15546		ENST00000262065.3:c.312_313dupCT	17.37:g.53485138_53485139dupAG	ENSP00000262065:p.Tyr105fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6X9|D3DTY6|Q8TAN7	Frame_Shift_Ins	INS	ENST00000262065.3	37	CCDS11586.1																																																																																				0.386	MMD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000439214.1			AG	53485138	-	AG	53485137	7	5	611	1	0	1	1	0	0	0	0	0	9650	1406	49	0	418	0	MMD	17	53485137	Frame_Shift_Ins	INS	-	TCGA-HE-A5NK-01A-11D-A26P-10	12480488	53485137	27710073	98	37223										
PPM1E	22843	hgsc.bcm.edu	37	chr17	56833490	56833490	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gaacccgaacccgaacccgaGtccgagcccgagcccgaacc	10	19	0	0	rs59676153		TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr17:56833490G>A	ENST00000308249.2	+	1	261	c.132G>A	c.(130-132)gaG>gaA	p.E44E		NM_014906.4	NP_055721.3	Q96MI6	PPM1M_HUMAN	protein phosphatase, Mg2+/Mn2+ dependent, 1E	0	PP2C-like.				protein dephosphorylation (GO:0006470)	nucleus (GO:0005634)	CTD phosphatase activity (GO:0008420)|manganese ion binding (GO:0030145)			biliary_tract(1)|breast(3)|endometrium(4)|kidney(2)|large_intestine(8)|lung(10)|ovary(2)|prostate(1)|skin(2)	33	Medulloblastoma(34;0.127)|all_neural(34;0.237)		BRCA - Breast invasive adenocarcinoma(1;5.76e-11)			ccgaacccgagtccgagcccg	0.706																																																0																																										SO:0001819	synonymous_variant	22843			AB028995	CCDS11613.1	17q24.2	2012-04-17	2010-03-05		ENSG00000175175	ENSG00000175175		"Serine/threonine phosphatases / Protein phosphatases, Mg2+/Mn2+ dependent"	19322	protein-coding gene	gene with protein product	"partner of PIX 1", "nuclear calmodulin-dependent protein kinase phosphatase"		"protein phosphatase 1E (PP2C domain containing)"			11864573, 10470851	Standard	NR_048561		Approved	POPX1, KIAA1072, PP2CH, CaMKP-N	uc002iwx.4	Q8WY54		ENST00000308249.2:c.132G>A	17.37:g.56833490G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N8J9|Q96DB8	Silent	SNP	ENST00000308249.2	37	CCDS11613.1																																																																																				0.706	PPM1E-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445458.1	NM_014906		A	56833490	G	A	56833490	2	1	611	1	0	0	0	0	0	0	0	1	12348	1020	36	2		2	PPM1E	17	56833490	Silent	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	3348353	56833490	24361720	99	37224										
CLTC	1213	ucsc.edu	37	chr17	57746160	57746160	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ctcttttattttctgggatcCattgttaactttagccagga	7	8	2	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr17:57746160C>T	ENST00000269122.3	+	14	2425	c.2151C>T	c.(2149-2151)tcC>tcT	p.S717S	CLTC_ENST00000579456.1_Intron|CLTC_ENST00000393043.1_Silent_p.S717S	NM_004859.3	NP_004850.1	Q00610	CLH1_HUMAN	clathrin, heavy chain (Hc)	717	Heavy chain arm.|Proximal segment.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|intracellular protein transport (GO:0006886)|membrane organization (GO:0061024)|mitotic nuclear division (GO:0007067)|negative regulation of hyaluronan biosynthetic process (GO:1900126)|negative regulation of protein localization to plasma membrane (GO:1903077)|osteoblast differentiation (GO:0001649)|post-Golgi vesicle-mediated transport (GO:0006892)|receptor internalization (GO:0031623)|receptor-mediated endocytosis (GO:0006898)|transferrin transport (GO:0033572)	clathrin coat (GO:0030118)|clathrin coat of coated pit (GO:0030132)|clathrin coat of trans-Golgi network vesicle (GO:0030130)|clathrin complex (GO:0071439)|clathrin-coated endocytic vesicle membrane (GO:0030669)|clathrin-coated vesicle (GO:0030136)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|spindle (GO:0005819)|trans-Golgi network membrane (GO:0032588)|vesicle (GO:0031982)	clathrin light chain binding (GO:0032051)|double-stranded RNA binding (GO:0003725)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)|structural molecule activity (GO:0005198)		CLTC/ALK(44)|CLTC/TFE3(2)	breast(2)|large_intestine(6)|ovary(1)	9	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					TTCTGGGATCCATTGTTAACT	0.328			T	"ALK, TFE3"	"ALCL, renal "																																		Dom	yes		17	17q11-qter	1213	"clathrin, heavy polypeptide (Hc)"		L	0													125	119	121					17																	57746160		2203	4300	6503	SO:0001819	synonymous_variant	1213			X55878	CCDS32696.1, CCDS74115.1	17q23.1	2013-09-19	2006-09-29		ENSG00000141367	ENSG00000141367			2092	protein-coding gene	gene with protein product		118955	"clathrin, heavy polypeptide (Hc)", "clathrin, heavy chain", "clathrin, heavy polypeptide-like 2"	CLTCL2		1765375, 7584026	Standard	NM_004859		Approved	Hc	uc002ixq.1	Q00610	OTTHUMG00000134279	ENST00000269122.3:c.2151C>T	17.37:g.57746160C>T		Somatic		WXS	Illumina HiSeq		D3DU00|Q6N0A0|Q86TF2	Silent	SNP	ENST00000269122.3	37	CCDS32696.1																																																																																				0.328	CLTC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258859.1	NM_004859		T	57746160	C	T	57746160	2	4	611	1	0	0	0	0	0	0	0	1	3568	581	21	2		2	CLTC	17	57746160	Silent	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	912670	57746160	23449050	100	37225										
KCNH6	81033	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	61616010	61616010	+	Silent	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	atcctgcgcgacgacgtggtCgtggccatcctaggtgggtc	15	12	0	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr17:61616010C>G	ENST00000583023.1	+	8	1952	c.1941C>G	c.(1939-1941)gtC>gtG	p.V647V	KCNH6_ENST00000314672.5_Silent_p.V647V|KCNH6_ENST00000581784.1_Silent_p.V594V|KCNH6_ENST00000456941.2_Silent_p.V594V	NM_030779.2	NP_110406.1	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H (eag-related), member 6	647					potassium ion transmembrane transport (GO:0071805)|regulation of membrane potential (GO:0042391)|synaptic transmission (GO:0007268)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	signal transducer activity (GO:0004871)|voltage-gated potassium channel activity (GO:0005249)			breast(2)|central_nervous_system(2)|endometrium(9)|kidney(4)|large_intestine(6)|lung(20)|ovary(2)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(2)	54					Doxazosin(DB00590)|Ibutilide(DB00308)|Miconazole(DB01110)|Prazosin(DB00457)|Terazosin(DB01162)	ACGACGTGGTCGTGGCCATCC	0.662																																																0													46	42	43					17																	61616010		2203	4300	6503	SO:0001819	synonymous_variant	81033			AF311913	CCDS11638.1, CCDS11639.1, CCDS62290.1	17q23.3	2012-07-05				ENSG00000173826		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	18862	protein-coding gene	gene with protein product		608168				16382104	Standard	NM_030779		Approved	Kv11.2, erg2, HERG2	uc002jay.3	Q9H252		ENST00000583023.1:c.1941C>G	17.37:g.61616010C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BRD7	Silent	SNP	ENST00000583023.1	37	CCDS11638.1																																																																																				0.662	KCNH6-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443853.1	NM_030779		G	61616010	C	G	61616010	2	3	611	1	0	0	0	0	0	0	0	1	8043	871	31	4		4	KCNH6	17	61616010	Silent	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	3869850	61616010	19579200	101	37226										
RNF213	57674	broad.mit.edu;bcgsc.ca	37	chr17	78350139	78350141	+	In_Frame_Del	DEL	GAT	GAT	-													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	aaattcattggcgaatgcaaGatcctttcacctcctgatat							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	GAT	GAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr17:78350139_78350141delGAT	ENST00000582970.1	+	52	13367_13369	c.13224_13226delGAT	c.(13222-13227)aagatc>aac	p.4408_4409KI>N	RNF213_ENST00000336301.6_In_Frame_Del_p.2481_2482KI>N|CTD-2047H16.4_ENST00000572151.1_RNA|CTD-2047H16.4_ENST00000575034.1_RNA|RNF213_ENST00000508628.2_In_Frame_Del_p.4457_4458KI>N	NM_001256071.1	NP_001243000.1	Q63HN8	RN213_HUMAN	ring finger protein 213	4408					ATP catabolic process (GO:0006200)|protein autoubiquitination (GO:0051865)|protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)|membrane (GO:0016020)	ATPase activity (GO:0016887)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(7)|central_nervous_system(1)|cervix(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(23)|lung(36)|ovary(11)|pancreas(2)|prostate(4)|skin(3)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	130	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			GCGAATGCAAGATCCTTTCACCT	0.433																																																0																																										SO:0001651	inframe_deletion	57674			AK074030	CCDS58606.1	17q25.3	2013-01-09	2007-02-08	2007-02-08		ENSG00000173821		"RING-type (C3HC4) zinc fingers"	14539	protein-coding gene	gene with protein product		613768	"chromosome 17 open reading frame 27", "KIAA1618", "moyamoya disease 2", "Moyamoya disease 2"	C17orf27, KIAA1618, MYMY2		10997877, 21048783, 21799892	Standard	NM_020954		Approved	KIAA1554, NET57	uc021uen.2	Q63HN8		ENST00000582970.1:c.13224_13226delGAT	17.37:g.78350139_78350141delGAT	ENSP00000464087:p.Lys4408_Ile4409delinsAsn	Somatic		WXS	Illumina HiSeq	Phase_I	C9JCP4|D6RI12|F8WKS1|Q658P6|Q69YK7|Q6MZR1|Q8IWF4|Q8IZX1|Q8IZX2|Q8N406|Q8TEU0|Q9H6C9|Q9H6H9|Q9H6P3|Q9H8A9|Q9HCF4|Q9HCL8	In_Frame_Del	DEL	ENST00000582970.1	37	CCDS58606.1																																																																																				0.433	RNF213-020	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000443298.1	NM_020914		-	78350141	GAT	-	78350139	7	5	611	1	0	1	0	1	0	0	0	0	13490	933	33	0	13745	0	RNF213	17	78350139	In_Frame_Del	DEL	GAT	TCGA-HE-A5NK-01A-11D-A26P-10	16734129	78350139	2845071	102	37227										
ZNF236	7776	hgsc.bcm.edu;bcgsc.ca	37	chr18	74680294	74680294	+	Nonstop_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ggccctcacccacgtcttctGatgcgagttggaagtacacc	10	14	3	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr18:74680294G>T	ENST00000253159.8	+	31	5735	c.5537G>T	c.(5536-5538)tGa>tTa	p.*1846L	ZNF236_ENST00000320610.9_Nonstop_Mutation_p.*1848L	NM_007345.3	NP_031371.3	Q9UL36	ZN236_HUMAN	zinc finger protein 236	0					cellular response to glucose stimulus (GO:0071333)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(2)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(14)|lung(43)|ovary(7)|pancreas(1)|prostate(6)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	94		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		CACGTCTTCTGATGCGAGTTG	0.542																																																0													65	76	72					18																	74680294		1938	4135	6073	SO:0001578	stop_lost	7776			AF085243	CCDS42447.1	18q22-q23	2013-01-08				ENSG00000130856		"Zinc fingers, C2H2-type"	13028	protein-coding gene	gene with protein product		604760				10458916	Standard	NM_007345		Approved		uc002lmi.3	Q9UL36		ENST00000253159.8:c.5537G>T	18.37:g.74680294G>T	ENSP00000253159:p.*1846Leuext*8	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTX9|Q9UL37	Missense_Mutation	SNP	ENST00000253159.8	37	CCDS42447.1	.	.	.	.	.	.	.	.	.	.	G	8.724	0.914980	0.17907	.	.	ENSG00000130856	ENST00000253159	.	.	.	4.91	4.04	0.47022	.	.	.	.	.	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.5206	0.61566	0.0765:0.0:0.9235:0.0	.	.	.	.	L	1846	.	.	X	+	2	2	ZNF236	72809282	1.000000	0.71417	0.888000	0.34837	0.039000	0.13416	5.969000	0.70422	1.207000	0.43291	0.557000	0.71058	TGA		0.542	ZNF236-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000445776.1			T	74680294	G	T	74680294	4	4	611	1	0	0	0	0	0	0	0	0	17801	1285	45	4	5659	4	ZNF236	18	74680294	Nonstop_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10		74680294	3396954	103	37228										
DOT1L	84444	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr19	2210830	2210830	+	Nonsense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tgcacgctcagaccgtgtctCagacggcggcctcctcaccc	10	18	3	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr19:2210830C>T	ENST00000398665.3	+	14	1363	c.1327C>T	c.(1327-1329)Cag>Tag	p.Q443*	AC004490.1_ENST00000585593.1_RNA	NM_032482.2	NP_115871.1	Q8TEK3	DOT1L_HUMAN	DOT1-like histone H3K79 methyltransferase	443					histone lysine methylation (GO:0034968)|regulation of JAK-STAT cascade (GO:0046425)|regulation of transcription regulatory region DNA binding (GO:2000677)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|transcription factor binding (GO:0008134)			NS(1)|breast(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(3)|lung(14)|ovary(2)|pancreas(2)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(9)	42		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)		GACCGTGTCTCAGACGGCGGC	0.692																																																0													26	34	31					19																	2210830		1991	4142	6133	SO:0001587	stop_gained	84444			AF509504	CCDS42460.1	19p13.3	2013-05-21	2013-05-21		ENSG00000104885	ENSG00000104885	2.1.1.43	"Chromatin-modifying enzymes / K-methyltransferases"	24948	protein-coding gene	gene with protein product	"histone methyltransferase DOT1L"	607375	"DOT1-like, histone H3 methyltransferase (S. cerevisiae)"			11347906, 12123582	Standard	NM_032482		Approved	KIAA1814, DOT1, KMT4	uc002lvb.4	Q8TEK3	OTTHUMG00000150431	ENST00000398665.3:c.1327C>T	19.37:g.2210830C>T	ENSP00000381657:p.Gln443*	Somatic		WXS	Illumina HiSeq	Phase_I	O60379|Q96JL1	Nonsense_Mutation	SNP	ENST00000398665.3	37	CCDS42460.1	.	.	.	.	.	.	.	.	.	.	C	28.0	4.878112	0.91664	.	.	ENSG00000104885	ENST00000398665;ENST00000221482	.	.	.	4.84	4.84	0.62591	.	0.625695	0.16263	N	0.222122	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	-7.1526	16.9353	0.86202	0.0:1.0:0.0:0.0	.	.	.	.	X	443	.	ENSP00000221482:Q443X	Q	+	1	0	DOT1L	2161830	0.963000	0.33076	0.020000	0.16555	0.076000	0.17211	4.755000	0.62198	2.222000	0.72286	0.561000	0.74099	CAG		0.692	DOT1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318066.1	NM_032482		T	2210830	C	T	2210830	4	4	611	1	0	0	0	0	0	1	0	0	4711	827	29	2	1381	2	DOT1L	19	2210830	Nonsense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10		2210830	56918153	104	37229										
TSPAN16	26526	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	11408999	11408999	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tggagcgactaaagagagcaGaggcacgctcttgtttgtaa	13	7	1	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr19:11408999G>A	ENST00000316737.1	+	2	401	c.251G>A	c.(250-252)aGa>aAa	p.R84K	TSPAN16_ENST00000592955.1_Missense_Mutation_p.R84K|CTC-510F12.4_ENST00000586356.1_RNA|TSPAN16_ENST00000590327.1_Missense_Mutation_p.R84K	NM_012466.2	NP_036598.1	Q9UKR8	TSN16_HUMAN	tetraspanin 16	84						integral component of membrane (GO:0016021)				breast(1)|endometrium(3)|large_intestine(1)|lung(2)|ovary(1)|prostate(1)|skin(2)|stomach(1)	12						AAAGAGAGCAGAGGCACGCTC	0.522																																																0													96	73	81					19																	11408999		2203	4300	6503	SO:0001583	missense	26526			BC029908	CCDS12256.1, CCDS62549.1, CCDS62550.1	19p13.2	2013-02-14	2005-03-21	2005-03-21	ENSG00000130167	ENSG00000130167		"Tetraspanins"	30725	protein-coding gene	gene with protein product			"transmembrane 4 superfamily member 16"	TM4SF16		10500248	Standard	NM_012466		Approved	TM4-B, TM-8	uc002mqv.1	Q9UKR8	OTTHUMG00000180833	ENST00000316737.1:c.251G>A	19.37:g.11408999G>A	ENSP00000319486:p.Arg84Lys	Somatic		WXS	Illumina HiSeq	Phase_I	K7EN22|K7EPD8|Q8N6J7	Missense_Mutation	SNP	ENST00000316737.1	37	CCDS12256.1	.	.	.	.	.	.	.	.	.	.	G	16.08	3.021270	0.54576	.	.	ENSG00000130167	ENST00000316737;ENST00000337994	T;T	0.77750	-1.12;-1.12	3.57	3.57	0.40892	.	0.000000	0.37530	N	0.002042	T	0.78130	0.4235	L	0.38692	1.165	0.09310	N	1	D	0.69078	0.997	D	0.79108	0.992	T	0.65467	-0.6161	10	0.09084	T	0.74	-17.1852	10.972	0.47444	0.0:0.0:1.0:0.0	.	84	Q9UKR8	TSN16_HUMAN	K	84	ENSP00000319486:R84K;ENSP00000338759:R84K	ENSP00000319486:R84K	R	+	2	0	TSPAN16	11269999	0.208000	0.23494	0.207000	0.23584	0.052000	0.14988	2.108000	0.41854	2.287000	0.76781	0.462000	0.41574	AGA		0.522	TSPAN16-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000453204.1	NM_012466		A	11408999	G	A	11408999	3	1	611	1	0	0	0	0	1	0	0	0	16652	942	33	2	257	2	TSPAN16	19	11408999	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	9198169	11408999	47719984	105	37230										
ZNF653	115950	broad.mit.edu	37	chr19	11594521	11594521	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gtgggcttgtgatccgggtgGcttttgagcgtgtggaactt	17	6	0	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr19:11594521G>A	ENST00000293771.5	-	9	1960	c.1824C>T	c.(1822-1824)agC>agT	p.S608S	ELAVL3_ENST00000592218.1_5'Flank|ELAVL3_ENST00000359227.3_5'Flank|CTC-398G3.6_ENST00000585656.1_Intron	NM_138783.3	NP_620138.2	Q96CK0	ZN653_HUMAN	zinc finger protein 653	608					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(2)|kidney(3)|large_intestine(2)|lung(8)|prostate(1)|skin(1)	17						GATCCGGGTGGCTTTTGAGCG	0.617																																					Pancreas(83;980 1446 4542 6441 43352)											0													232	183	199					19																	11594521		2203	4300	6503	SO:0001819	synonymous_variant	115950			AY072704	CCDS12261.1	19p13.2	2013-01-08						"Zinc fingers, C2H2-type"	25196	protein-coding gene	gene with protein product		611371				12477932	Standard	NM_138783		Approved	Zip67	uc002mrz.2	Q96CK0		ENST00000293771.5:c.1824C>T	19.37:g.11594521G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q96AS7	Silent	SNP	ENST00000293771.5	37	CCDS12261.1																																																																																				0.617	ZNF653-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458836.2	NM_138783		A	11594521	G	A	11594521	2	1	611	1	0	0	0	0	0	0	0	1	18078	1194	42	2		2	ZNF653	19	11594521	Silent	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	185522	11594521	47534462	106	37231										
HAPLN4	404037	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	19371725	19371725	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gtgacgttgcggaggaccagGgaggcatccccaggcccgtc	16	13	0	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr19:19371725G>A	ENST00000291481.7	-	3	444	c.381C>T	c.(379-381)tcC>tcT	p.S127S	AC138430.4_ENST00000586064.2_RNA	NM_023002.2	NP_075378.1	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	127	Ig-like C2-type.				cell adhesion (GO:0007155)	proteinaceous extracellular matrix (GO:0005578)	hyaluronic acid binding (GO:0005540)			NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(7)|pancreas(1)|prostate(1)	16			Epithelial(12;0.00575)		Hyaluronan(DB08818)	GGAGGACCAGGGAGGCATCCC	0.652																																																0													66	61	63					19																	19371725		2203	4300	6503	SO:0001819	synonymous_variant	404037			AB107883	CCDS12398.1	19p13.1	2013-01-11						"Immunoglobulin superfamily / V-set domain containing"	31357	protein-coding gene	gene with protein product	"brain link protein 2"					12663660	Standard	NM_023002		Approved	BRAL2, KIAA1926	uc002nmb.3	Q86UW8		ENST00000291481.7:c.381C>T	19.37:g.19371725G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A5PKW5|Q96PW2	Silent	SNP	ENST00000291481.7	37	CCDS12398.1																																																																																				0.652	HAPLN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460117.2	NM_023002		A	19371725	G	A	19371725	2	1	611	1	0	0	0	0	0	0	0	1	6964	1219	43	2		2	HAPLN4	19	19371725	Silent	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	7777204	19371725	39757258	107	37232										
GRAMD1A	57655	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	35500151	35500151	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	catggtggagaagggatcagAtagctcctcagagaagggtg	16	6	2	3			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr19:35500151A>C	ENST00000317991.5	+	2	329	c.137A>C	c.(136-138)gAt>gCt	p.D46A	GRAMD1A_ENST00000504615.2_5'UTR|GRAMD1A_ENST00000411896.2_Missense_Mutation_p.D46A|GRAMD1A_ENST00000424536.2_Missense_Mutation_p.D46A|GRAMD1A_ENST00000598073.1_3'UTR|GRAMD1A_ENST00000599564.1_Missense_Mutation_p.D133A	NM_020895.3	NP_065946.2	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A	46						integral component of membrane (GO:0016021)				NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(10)|prostate(1)|upper_aerodigestive_tract(1)	19	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			AAGGGATCAGATAGCTCCTCA	0.647																																																0													38	45	43					19																	35500151		1939	4128	6067	SO:0001583	missense	57655			AK074864	CCDS42546.1, CCDS46046.1	19q13.13	2008-02-05	2005-11-02	2005-11-02		ENSG00000089351			29305	protein-coding gene	gene with protein product			"KIAA1533"	KIAA1533		10819331	Standard	NM_020895		Approved	FLJ90346	uc010xse.1	Q96CP6		ENST00000317991.5:c.137A>C	19.37:g.35500151A>C	ENSP00000441032:p.Asp46Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKY7|Q8NC77|Q9P1Z5	Missense_Mutation	SNP	ENST00000317991.5	37	CCDS42546.1	.	.	.	.	.	.	.	.	.	.	A	18.24	3.579681	0.65992	.	.	ENSG00000089351	ENST00000453966;ENST00000317991;ENST00000411896	T;T	0.25250	1.81;1.83	4.67	4.67	0.58626	.	0.081214	0.49916	D	0.000124	T	0.30665	0.0772	N	0.19112	0.55	0.80722	D	1	D;D;D;D	0.60160	0.987;0.978;0.987;0.987	P;P;P;P	0.61477	0.889;0.698;0.841;0.889	T	0.05402	-1.0887	10	0.45353	T	0.12	.	12.1081	0.53823	1.0:0.0:0.0:0.0	.	46;46;46;133	Q96CP6-3;Q96CP6;Q96CP6-2;F5GZ02	.;GRM1A_HUMAN;.;.	A	133;46;46	ENSP00000441032:D46A;ENSP00000439267:D46A	ENSP00000441032:D46A	D	+	2	0	GRAMD1A	40191991	1.000000	0.71417	0.569000	0.28460	0.688000	0.40055	4.842000	0.62831	1.965000	0.57142	0.459000	0.35465	GAT		0.647	GRAMD1A-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000461557.1	NM_020895		C	35500151	A	C	35500151	3	2	611	1	0	0	0	0	1	0	0	0	6754	333	12	5	143	5	GRAMD1A	19	35500151	Missense_Mutation	SNP	A	TCGA-HE-A5NK-01A-11D-A26P-10	16128426	35500151	23628832	108	37233										
DHX34	9704	ucsc.edu;bcgsc.ca	37	chr19	47858386	47858386	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tgctcctgcgacaaatccagCgggaacccagcctgccccag	10	17	0	0	rs371092274		TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr19:47858386C>T	ENST00000328771.4	+	3	1145	c.796C>T	c.(796-798)Cgg>Tgg	p.R266W		NM_014681.5	NP_055496.2	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	266	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:2000623)|nuclear-transcribed mRNA catabolic process (GO:0000956)	membrane (GO:0016020)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|lung(8)|ovary(5)|prostate(5)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	36		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)		ACAAATCCAGCGGGAACCCAG	0.597																																																0								C	TRP/ARG	0,4406		0,0,2203	88	76	80		796	4.8	1	19		80	1,8599	1.2+/-3.3	0,1,4299	no	missense	DHX34	NM_014681.5	101	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	266/1144	47858386	1,13005	2203	4300	6503	SO:0001583	missense	9704			D50924	CCDS12700.1	19q13.3	2003-06-13	2003-06-13	2003-06-13	ENSG00000134815	ENSG00000134815		"DEAH-boxes"	16719	protein-coding gene	gene with protein product		615475	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 34"	DDX34		10708517, 8590280	Standard	NM_014681		Approved	KIAA0134	uc010xyn.2	Q14147	OTTHUMG00000149959	ENST00000328771.4:c.796C>T	19.37:g.47858386C>T	ENSP00000331907:p.Arg266Trp	Somatic		WXS	Illumina HiSeq		B4DMY8	Missense_Mutation	SNP	ENST00000328771.4	37	CCDS12700.1	.	.	.	.	.	.	.	.	.	.	C	19.65	3.867337	0.72065	0.0	1.16E-4	ENSG00000134815	ENST00000328771;ENST00000257252	T	0.07688	3.17	4.76	4.76	0.60689	DEAD-like helicase (2);DNA/RNA helicase, DEAD/DEAH box type, N-terminal (1);	0.110120	0.36374	N	0.002626	T	0.23014	0.0556	M	0.77820	2.39	0.46061	D	0.99884	D;D	0.67145	0.996;0.996	P;P	0.56788	0.806;0.803	T	0.00849	-1.1541	10	0.87932	D	0	-0.0613	11.7971	0.52106	0.176:0.824:0.0:0.0	.	266;266	Q14147;B4E3G3	DHX34_HUMAN;.	W	266	ENSP00000331907:R266W	ENSP00000257252:R266W	R	+	1	2	DHX34	52550226	1.000000	0.71417	1.000000	0.80357	0.936000	0.57629	1.007000	0.29860	2.213000	0.71641	0.456000	0.33151	CGG		0.597	DHX34-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000314313.3	NM_014681		T	47858386	C	T	47858386	3	4	611	1	0	0	0	0	1	0	0	0	4509	759	27	1	802	1	DHX34	19	47858386	Missense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	12358235	47858386	11270597	109	37234										
CGB	1082	broad.mit.edu	37	chr19	49526376	49526377	+	Frame_Shift_Ins	INS	-	-	T													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ccgcgcgggcagccagggagINSccggatggactcgaagcgca							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr19:49526376_49526377insT	ENST00000357383.4	-	3	625_626	c.264_265insA	c.(262-267)cggctcfs	p.L89fs	CTB-60B18.6_ENST00000591656.1_Frame_Shift_Ins_p.L75fs	NM_000737.3	NP_000728.1	P01233	CGHB_HUMAN	chorionic gonadotropin, beta polypeptide	89					apoptotic process (GO:0006915)|cell-cell signaling (GO:0007267)|cellular protein metabolic process (GO:0044267)|female gamete generation (GO:0007292)|peptide hormone processing (GO:0016486)|signal transduction (GO:0007165)	extracellular region (GO:0005576)	hormone activity (GO:0005179)			large_intestine(1)	1		all_epithelial(76;9.62e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000371)|OV - Ovarian serous cystadenocarcinoma(262;0.000503)|GBM - Glioblastoma multiforme(486;0.00518)|Epithelial(262;0.0427)		CAGCCAGGGAGCCGGATGGACT	0.693																																																0																																										SO:0001589	frameshift_variant	1082			J00117	CCDS12749.1	19q13.3	2013-02-25				ENSG00000104827		"Endogenous ligands"	1886	protein-coding gene	gene with protein product		118860				6774259, 6194155	Standard	NM_000737		Approved	CGB3	uc002plv.2	P01233		ENST00000357383.4:c.264_265insA	19.37:g.49526376_49526377insT	ENSP00000349954:p.Leu89fs	Somatic		WXS	Illumina HiSeq	Phase_I	A1A5E0|B9ZVP5|Q13991|Q14000|Q3KPI3|Q3SY41|Q8WTT5|Q8WXL1|Q8WXL2|Q8WXL3|Q8WXL4	Frame_Shift_Ins	INS	ENST00000357383.4	37	CCDS12749.1																																																																																				0.693	CGB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452164.2	NM_000737		T	49526377	-	T	49526376	7	5	611	1	0	1	1	0	0	0	0	0	3298	971	34	0	236	0	CGB	19	49526376	Frame_Shift_Ins	INS	-	TCGA-HE-A5NK-01A-11D-A26P-10	1667990	49526376	9602607	110	37235										
ZNF418	147686	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	58438722	58438722	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tcccagtgtgaactcgctgaTgctgaacaaggctgccctta	10	12	0	3			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr19:58438722T>A	ENST00000396147.1	-	4	1118	c.827A>T	c.(826-828)cAt>cTt	p.H276L	ZNF418_ENST00000599852.1_Missense_Mutation_p.H191L|ZNF418_ENST00000425570.3_Missense_Mutation_p.H297L|ZNF418_ENST00000595830.1_Missense_Mutation_p.H276L|ZNF418_ENST00000600989.1_Intron|ZNF418_ENST00000599086.1_5'Flank	NM_133460.1	NP_597717.1	Q8TF45	ZN418_HUMAN	zinc finger protein 418	276					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			cervix(1)|endometrium(6)|kidney(1)|large_intestine(6)|lung(9)|prostate(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	31		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;0.0158)		AACTCGCTGATGCTGAACAAG	0.433																																																0													90	92	91					19																	58438722		2189	4296	6485	SO:0001583	missense	147686			AB075836, AY695825	CCDS42642.1	19q13.43	2013-01-08				ENSG00000196724		"Zinc fingers, C2H2-type", "-"	20647	protein-coding gene	gene with protein product						11853319	Standard	NM_133460		Approved	KIAA1956, FLJ31551	uc002qqs.1	Q8TF45		ENST00000396147.1:c.827A>T	19.37:g.58438722T>A	ENSP00000379451:p.His276Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M1S2|Q670L5|Q96N18	Missense_Mutation	SNP	ENST00000396147.1	37	CCDS42642.1	.	.	.	.	.	.	.	.	.	.	.	11.49	1.655252	0.29425	.	.	ENSG00000196724	ENST00000396147;ENST00000425570;ENST00000545403	D;D	0.86865	-2.18;-2.18	2.26	1.15	0.20763	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	D	0.90147	0.6921	H	0.98295	4.195	0.09310	N	0.999995	P	0.38110	0.618	B	0.33254	0.16	D	0.83866	0.0271	9	0.87932	D	0	.	6.5871	0.22626	0.2146:0.0:0.0:0.7854	.	276	Q8TF45	ZN418_HUMAN	L	276;297;242	ENSP00000379451:H276L;ENSP00000407039:H297L	ENSP00000379451:H276L	H	-	2	0	ZNF418	63130534	.	.	0.001000	0.08648	0.109000	0.19521	.	.	0.129000	0.18514	0.240000	0.17902	CAT		0.433	ZNF418-001	KNOWN	NMD_exception|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466693.1	NM_133460		A	58438722	T	A	58438722	3	1	611	1	0	0	0	0	1	0	0	0	17907	1464	51	5	1207	5	ZNF418	19	58438722	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	8912346	58438722	690261	111	37236										
KIF16B	55614	broad.mit.edu	37	chr20	16359622	16359622	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tctcctctccagcctggccaGggcccgctccagcgcctctc	9	21	3	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr20:16359622G>A	ENST00000354981.2	-	19	3182	c.3025C>T	c.(3025-3027)Ctg>Ttg	p.L1009L	KIF16B_ENST00000408042.1_Silent_p.L1009L|KIF16B_ENST00000378003.2_Silent_p.L235L|KIF16B_ENST00000355755.3_Silent_p.L1009L	NM_001199865.1|NM_024704.4	NP_001186794.1|NP_078980.3	Q96L93	KI16B_HUMAN	kinesin family member 16B	1009	Glu-rich.				ATP catabolic process (GO:0006200)|early endosome to late endosome transport (GO:0045022)|endoderm development (GO:0007492)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|formation of primary germ layer (GO:0001704)|Golgi to endosome transport (GO:0006895)|microtubule-based movement (GO:0007018)|receptor catabolic process (GO:0032801)|regulation of receptor recycling (GO:0001919)	early endosome (GO:0005769)|endosome (GO:0005768)|kinesin complex (GO:0005871)|membrane (GO:0016020)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)|phosphatidylinositol-3,5-bisphosphate binding (GO:0080025)|phosphatidylinositol-3-phosphate binding (GO:0032266)|plus-end-directed microtubule motor activity (GO:0008574)			NS(2)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(6)|large_intestine(15)|lung(24)|ovary(1)|prostate(15)|skin(3)|upper_aerodigestive_tract(2)	74						AGCCTGGCCAGGGCCCGCTCC	0.557																																																0													82	87	85					20																	16359622		2203	4300	6503	SO:0001819	synonymous_variant	55614			AK000142	CCDS13122.1, CCDS56178.1	20p11.23	2008-03-03	2008-03-03	2008-03-03	ENSG00000089177	ENSG00000089177		"Kinesins"	15869	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 23"	C20orf23		16084724, 16782399	Standard	NM_024704		Approved	FLJ20135, dJ971B4.1, SNX23	uc010gci.2	Q96L93	OTTHUMG00000031927	ENST00000354981.2:c.3025C>T	20.37:g.16359622G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKJ9|A7E2A8|B1AKG3|B1AKT7|C9JDN5|C9JI52|C9JSM8|C9JWJ7|Q2TBF5|Q5HYC0|Q5HYK1|Q5JWW3|Q5TFK5|Q86VL9|Q86YS5|Q8IYU0|Q9BQJ8|Q9BQM0|Q9BQM1|Q9BQM5|Q9H5U0|Q9HCI2|Q9NXN9	Silent	SNP	ENST00000354981.2	37	CCDS13122.1																																																																																				0.557	KIF16B-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078104.2	NM_017683		A	16359622	G	A	16359622	2	1	611	1	0	0	0	0	0	0	0	1	8285	991	35	2		2	KIF16B	20	16359622	Silent	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10		16359622	46665898	112	37237										
CST9L	128821	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	23546696	23546696	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tagttctccccagcagtagcTccattgagaatacagtcttg	8	11	2	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr20:23546696T>G	ENST00000376979.3	-	2	567	c.269A>C	c.(268-270)gAg>gCg	p.E90A		NM_080610.2	NP_542177.1	Q9H4G1	CST9L_HUMAN	cystatin 9-like	90						extracellular region (GO:0005576)	cysteine-type endopeptidase inhibitor activity (GO:0004869)			breast(1)|endometrium(1)|large_intestine(1)|lung(4)|prostate(1)	8	Colorectal(13;0.0431)|Lung NSC(19;0.235)					CAGCAGTAGCTCCATTGAGAA	0.468																																																0													205	177	187					20																	23546696		2203	4300	6503	SO:0001583	missense	128821				CCDS13157.1	20p11.21	2012-08-14	2008-03-06		ENSG00000101435	ENSG00000101435			16233	protein-coding gene	gene with protein product			"cystatin 9 (mouse)-like"			20565543	Standard	NM_080610		Approved	bA218C14.1, CTES7B	uc002wtk.4	Q9H4G1	OTTHUMG00000032073	ENST00000376979.3:c.269A>C	20.37:g.23546696T>G	ENSP00000366178:p.Glu90Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5A1	Missense_Mutation	SNP	ENST00000376979.3	37	CCDS13157.1	.	.	.	.	.	.	.	.	.	.	T	12.87	2.067516	0.36470	.	.	ENSG00000101435	ENST00000376979	T	0.28666	1.6	1.92	1.92	0.25849	Proteinase inhibitor I25, cystatin (2);	0.919888	0.08938	N	0.872000	T	0.44265	0.1285	M	0.75264	2.295	0.09310	N	1	D	0.58970	0.984	P	0.55749	0.783	T	0.23619	-1.0183	10	0.37606	T	0.19	.	5.8418	0.18637	0.0:0.0:0.0:1.0	.	90	Q9H4G1	CST9L_HUMAN	A	90	ENSP00000366178:E90A	ENSP00000366178:E90A	E	-	2	0	CST9L	23494696	0.004000	0.15560	0.108000	0.21378	0.004000	0.04260	0.143000	0.16115	1.118000	0.41863	0.402000	0.26972	GAG		0.468	CST9L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078338.1	NM_080610		G	23546696	T	G	23546696	3	3	611	1	0	0	0	0	1	0	0	0	3982	1551	54	5	182	5	CST9L	20	23546696	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	7187074	23546696	39478824	113	37238										
SLC32A1	140679	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	37356957	37356957	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ggaaggcagccgcgccttttTcccggcctgctacagcggcg	14	15	0	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr20:37356957T>C	ENST00000217420.1	+	2	1516	c.1253T>C	c.(1252-1254)tTc>tCc	p.F418S		NM_080552.2	NP_542119.1	Q9H598	VIAAT_HUMAN	solute carrier family 32 (GABA vesicular transporter), member 1	418					aging (GO:0007568)|ion transport (GO:0006811)|neurotransmitter secretion (GO:0007269)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	cell tip (GO:0051286)|clathrin-sculpted gamma-aminobutyric acid transport vesicle membrane (GO:0061202)|cone cell pedicle (GO:0044316)|dendrite (GO:0030425)|dendrite terminus (GO:0044292)|inhibitory synapse (GO:0060077)|integral component of membrane (GO:0016021)|neuron projection (GO:0043005)|neuron projection terminus (GO:0044306)|plasma membrane (GO:0005886)|synaptic vesicle membrane (GO:0030672)	gamma-aminobutyric acid:proton symporter activity (GO:0015495)|glycine transmembrane transporter activity (GO:0015187)			breast(2)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(11)|lung(16)|urinary_tract(1)	38		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CGCGCCTTTTTCCCGGCCTGC	0.632																																																0													31	34	33					20																	37356957		2203	4300	6503	SO:0001583	missense	140679			AL133519	CCDS13307.1	20q11	2013-05-22			ENSG00000101438	ENSG00000101438		"Solute carriers"	11018	protein-coding gene	gene with protein product			"vesicular inhibitory amino acid transporter"	VIAAT		19843525	Standard	NM_080552		Approved	VGAT, bA122O1.1	uc002xjc.3	Q9H598	OTTHUMG00000032457	ENST00000217420.1:c.1253T>C	20.37:g.37356957T>C	ENSP00000217420:p.Phe418Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N489	Missense_Mutation	SNP	ENST00000217420.1	37	CCDS13307.1	.	.	.	.	.	.	.	.	.	.	T	15.82	2.946656	0.53186	.	.	ENSG00000101438	ENST00000217420	T	0.02140	4.43	4.45	4.45	0.53987	.	0.050284	0.85682	D	0.000000	T	0.04679	0.0127	M	0.72894	2.215	0.80722	D	1	B	0.26195	0.144	B	0.32211	0.142	T	0.31223	-0.9951	10	0.34782	T	0.22	-23.406	11.9404	0.52896	0.0:0.0:0.0:1.0	.	418	Q9H598	VIAAT_HUMAN	S	418	ENSP00000217420:F418S	ENSP00000217420:F418S	F	+	2	0	SLC32A1	36790371	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.944000	0.87722	1.786000	0.52430	0.460000	0.39030	TTC		0.632	SLC32A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079206.1	NM_080552		C	37356957	T	C	37356957	3	2	611	1	0	0	0	0	1	0	0	0	14578	1783	62	3	1259	3	SLC32A1	20	37356957	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	13810261	37356957	25668563	114	37239										
DHX35	60625	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	37653978	37653978	+	Nonsense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	aaaagcttcttgtcaagtttCaagtgcccaggaagtctagt	9	8	4	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr20:37653978C>T	ENST00000252011.3	+	18	1810	c.1777C>T	c.(1777-1779)Caa>Taa	p.Q593*	DHX35_ENST00000373325.2_Nonsense_Mutation_p.Q593*|DHX35_ENST00000373323.4_Nonsense_Mutation_p.Q562*	NM_021931.3	NP_068750.2	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	593					mRNA splicing, via spliceosome (GO:0000398)	catalytic step 2 spliceosome (GO:0071013)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|nucleic acid binding (GO:0003676)			breast(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(6)|lung(13)|ovary(1)|skin(2)|stomach(1)|urinary_tract(2)	40		Myeloproliferative disorder(115;0.00878)				TGTCAAGTTTCAAGTGCCCAG	0.443																																																0													176	185	182					20																	37653978		2203	4300	6503	SO:0001587	stop_gained	60625			AK026412	CCDS13310.1, CCDS54463.1	20q11.22-q12	2003-06-13	2003-06-13	2003-06-13	ENSG00000101452	ENSG00000101452		"DEAH-boxes"	15861	protein-coding gene	gene with protein product			"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 35"	C20orf15, DDX35			Standard	NM_001190809		Approved	FLJ22759, KAIA0875	uc002xjh.3	Q9H5Z1	OTTHUMG00000032463	ENST00000252011.3:c.1777C>T	20.37:g.37653978C>T	ENSP00000252011:p.Gln593*	Somatic		WXS	Illumina HiSeq	Phase_I	A2RTX3|B4E0J0|F5GXM6|Q5THR0|Q9H4H7|Q9H6T6	Nonsense_Mutation	SNP	ENST00000252011.3	37	CCDS13310.1	.	.	.	.	.	.	.	.	.	.	C	38	6.967926	0.97971	.	.	ENSG00000101452	ENST00000373325;ENST00000252011;ENST00000373323;ENST00000373321;ENST00000449559	.	.	.	5.41	4.4	0.53042	.	0.097447	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	10.4304	0.44405	0.3784:0.6216:0.0:0.0	.	.	.	.	X	593;593;562;73;57	.	ENSP00000252011:Q593X	Q	+	1	0	DHX35	37087392	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	5.037000	0.64170	2.530000	0.85305	0.655000	0.94253	CAA		0.443	DHX35-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079212.2	NM_021931		T	37653978	C	T	37653978	4	4	611	1	0	0	0	0	0	1	0	0	4510	827	29	2	1847	2	DHX35	20	37653978	Nonsense_Mutation	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	297021	37653978	25371542	115	37240										
SLC9A8	23315	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	48431566	48431566	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	aggttccccaatacaactcaTgagggtttcaatgtcaccct	7	12	3	1	rs536021956		TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr20:48431566T>C	ENST00000361573.2	+	2	90	c.48T>C	c.(46-48)caT>caC	p.H16H	SLC9A8_ENST00000417961.1_Silent_p.H16H|SLC9A8_ENST00000539601.1_5'UTR|SLC9A8_ENST00000541138.1_5'UTR			Q9Y2E8	SL9A8_HUMAN	solute carrier family 9, subfamily A (NHE8, cation proton antiporter 8), member 8	16					ion transport (GO:0006811)|regulation of intracellular pH (GO:0051453)|transmembrane transport (GO:0055085)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	potassium:proton antiporter activity (GO:0015386)|sodium:proton antiporter activity (GO:0015385)			NS(1)|autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(8)|lung(9)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(4)	30			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			ATACAACTCATGAGGGTTTCA	0.522																																																0													90	78	82					20																	48431566		2203	4300	6503	SO:0001819	synonymous_variant	23315			AB023156	CCDS13421.1, CCDS58774.1	20q13.13	2013-05-22	2012-03-22		ENSG00000197818	ENSG00000197818		"Solute carriers"	20728	protein-coding gene	gene with protein product		612730	"solute carrier family 9 (sodium/hydrogen exchanger), isoform 8", "solute carrier family 9 (sodium/hydrogen exchanger), member 8"			12409279	Standard	NM_001260491		Approved	KIAA0939, NHE8	uc002xuv.2	Q9Y2E8	OTTHUMG00000032710	ENST00000361573.2:c.48T>C	20.37:g.48431566T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DTQ8|Q2M1U9|Q68CZ8|Q9BX15|Q9Y507	Silent	SNP	ENST00000361573.2	37	CCDS13421.1																																																																																				0.522	SLC9A8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000106483.3	XM_030524		C	48431566	T	C	48431566	2	2	611	1	0	0	0	0	0	0	0	1	14733	1461	51	3		3	SLC9A8	20	48431566	Silent	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	10777588	48431566	14593954	116	37241										
MYO18B	84700	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	26422672	26422672	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ctgtcgagggaaaagctgccCagtccttcagcggccctctc	11	15	2	0			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr22:26422672C>T	ENST00000407587.2	+	43	6904	c.6735C>T	c.(6733-6735)ccC>ccT	p.P2245P	MYO18B_ENST00000536101.1_Silent_p.P2244P|MYO18B_ENST00000335473.7_Silent_p.P2244P			Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2244						cytoplasm (GO:0005737)|nucleus (GO:0005634)|unconventional myosin complex (GO:0016461)	ATP binding (GO:0005524)|motor activity (GO:0003774)			NS(2)|breast(6)|central_nervous_system(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(4)|kidney(5)|large_intestine(27)|liver(2)|lung(60)|ovary(7)|prostate(8)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(2)	146						AAAAGCTGCCCAGTCCTTCAG	0.607																																																0													24	25	25					22																	26422672		1910	4104	6014	SO:0001819	synonymous_variant	84700			AJ310931	CCDS54507.1	22q12.1	2011-09-27			ENSG00000133454	ENSG00000133454		"Myosins / Myosin superfamily : Class XVIII"	18150	protein-coding gene	gene with protein product		607295				12209013, 12547197	Standard	NM_032608		Approved	BK125H2.1	uc003abz.1	Q8IUG5	OTTHUMG00000151129	ENST00000407587.2:c.6735C>T	22.37:g.26422672C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RWP3|F5GYU7|Q8NDI8|Q8TE65|Q8WWS0|Q96KH2|Q96KR8|Q96KR9	Silent	SNP	ENST00000407587.2	37		.	.	.	.	.	.	.	.	.	.	C	10.77	1.444427	0.25987	.	.	ENSG00000133454	ENST00000543971	T	0.55234	0.53	4.94	-4.84	0.03151	.	0.116110	0.34002	N	0.004359	T	0.50394	0.1613	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.53315	-0.8456	7	0.72032	D	0.01	.	5.3684	0.16127	0.2432:0.2637:0.4198:0.0733	.	.	.	.	L	194	ENSP00000444262:P194L	ENSP00000444262:P194L	P	+	2	0	MYO18B	24752672	0.013000	0.17824	0.962000	0.40283	0.992000	0.81027	-1.785000	0.01767	-0.418000	0.07450	0.491000	0.48974	CCA		0.607	MYO18B-006	NOVEL	non_canonical_conserved|basic|appris_candidate_longest|exp_conf	protein_coding	protein_coding	OTTHUMT00000400691.1	NM_032608		T	26422672	C	T	26422672	2	4	611	1	0	0	0	0	0	0	0	1	10073	581	21	2		2	MYO18B	22	26422672	Silent	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10		26422672	24881894	117	37242										
NEFH	4744	bcgsc.ca	37	chr22	29885429	29885429	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	tcaccggctgaggccaagtcTccagagaaggccaagtcccc	11	15	2	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr22:29885429T>C	ENST00000310624.6	+	4	1833	c.1800T>C	c.(1798-1800)tcT>tcC	p.S600S		NM_021076.3	NP_066554.2	P12036	NFH_HUMAN	neurofilament, heavy polypeptide	600	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.				axon development (GO:0061564)|axonogenesis (GO:0007409)|cell death (GO:0008219)|cell projection assembly (GO:0030031)|microtubule cytoskeleton organization (GO:0000226)|neurofilament bundle assembly (GO:0033693)|peripheral nervous system neuron axonogenesis (GO:0048936)|regulation of organelle transport along microtubule (GO:1902513)	axon (GO:0030424)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|neurofibrillary tangle (GO:0097418)|neurofilament (GO:0005883)	dynein binding (GO:0045502)|kinesin binding (GO:0019894)|microtubule binding (GO:0008017)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(12)|ovary(2)|skin(3)	30						AGGCCAAGTCTCCAGAGAAGG	0.552																																																0													65	62	63					22																	29885429		2203	4300	6503	SO:0001819	synonymous_variant	4744				CCDS13858.1	22q12.2	2013-01-16	2008-09-19		ENSG00000100285	ENSG00000100285		"Intermediate filaments type IV"	7737	protein-coding gene	gene with protein product		162230	"neurofilament, heavy polypeptide 200kDa"				Standard	NM_021076		Approved		uc003afo.3	P12036	OTTHUMG00000151155	ENST00000310624.6:c.1800T>C	22.37:g.29885429T>C		Somatic		WXS	Illumina HiSeq	Phase_1	B4DYY4|Q96HF8|Q9UJS7|Q9UQ14	Silent	SNP	ENST00000310624.6	37	CCDS13858.1																																																																																				0.552	NEFH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321553.2	NM_021076		C	29885429	T	C	29885429	2	2	611	1	0	0	0	0	0	0	0	1	10321	1538	54	3		3	NEFH	22	29885429	Silent	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	3462757	29885429	21419137	118	37243			1	73		3	3	194	N	T_G_-	3.067843e-07
NEFH	4744	hgsc.bcm.edu	37	chr22	29885562	29885562	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ccaagtctccaacgaaggagGaagcaaagtcccctgagaag	11	11	1	1	rs370929798		TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr22:29885562G>A	ENST00000310624.6	+	4	1966	c.1933G>A	c.(1933-1935)Gaa>Aaa	p.E645K		NM_021076.3	NP_066554.2	P12036	NFH_HUMAN	neurofilament, heavy polypeptide	645	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.				axon development (GO:0061564)|axonogenesis (GO:0007409)|cell death (GO:0008219)|cell projection assembly (GO:0030031)|microtubule cytoskeleton organization (GO:0000226)|neurofilament bundle assembly (GO:0033693)|peripheral nervous system neuron axonogenesis (GO:0048936)|regulation of organelle transport along microtubule (GO:1902513)	axon (GO:0030424)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|neurofibrillary tangle (GO:0097418)|neurofilament (GO:0005883)	dynein binding (GO:0045502)|kinesin binding (GO:0019894)|microtubule binding (GO:0008017)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(12)|ovary(2)|skin(3)	30						AACGAAGGAGGAAGCAAAGTC	0.562																																																0													82	88	86					22																	29885562		2203	4300	6503	SO:0001583	missense	4744				CCDS13858.1	22q12.2	2013-01-16	2008-09-19		ENSG00000100285	ENSG00000100285		"Intermediate filaments type IV"	7737	protein-coding gene	gene with protein product		162230	"neurofilament, heavy polypeptide 200kDa"				Standard	NM_021076		Approved		uc003afo.3	P12036	OTTHUMG00000151155	ENST00000310624.6:c.1933G>A	22.37:g.29885562G>A	ENSP00000311997:p.Glu645Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYY4|Q96HF8|Q9UJS7|Q9UQ14	Missense_Mutation	SNP	ENST00000310624.6	37	CCDS13858.1	.	.	.	.	.	.	.	.	.	.	G	9.212	1.031217	0.19590	.	.	ENSG00000100285	ENST00000328842;ENST00000310624	D	0.83914	-1.78	4.97	4.97	0.65823	.	0.115504	0.38778	N	0.001569	D	0.87783	0.6264	L	0.61218	1.895	0.29104	N	0.881289	P	0.36712	0.566	P	0.52267	0.694	D	0.83526	0.0088	10	0.44086	T	0.13	.	16.1111	0.81263	0.0:0.0:1.0:0.0	.	645	P12036	NFH_HUMAN	K	645	ENSP00000311997:E645K	ENSP00000311997:E645K	E	+	1	0	NEFH	28215562	0.001000	0.12720	0.367000	0.25926	0.091000	0.18340	0.923000	0.28757	2.745000	0.94114	0.491000	0.48974	GAA		0.562	NEFH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321553.2	NM_021076		A	29885562	G	A	29885562	3	1	611	1	0	0	0	0	1	0	0	0	10321	1175	41	2	1947	2	NEFH	22	29885562	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	133	29885562	21419004	119	37244			1	73		3	3	194	N	T_G_-	3.067843e-07
NEFH	4744	broad.mit.edu	37	chr22	29885622	29885623	+	In_Frame_Ins	INS	-	-	AGGAAG													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	agaggccaagtcccctgagaINSaggccaagtccccagtgaag					rs267607534|rs267607535		TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr22:29885622_29885623insAGGAAG	ENST00000310624.6	+	4	2026_2027	c.1993_1994insAGGAAG	c.(1993-1995)aag>aAGGAAGag	p.665_666insEE		NM_021076.3	NP_066554.2	P12036	NFH_HUMAN	neurofilament, heavy polypeptide	671	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.				axon development (GO:0061564)|axonogenesis (GO:0007409)|cell death (GO:0008219)|cell projection assembly (GO:0030031)|microtubule cytoskeleton organization (GO:0000226)|neurofilament bundle assembly (GO:0033693)|peripheral nervous system neuron axonogenesis (GO:0048936)|regulation of organelle transport along microtubule (GO:1902513)	axon (GO:0030424)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|neurofibrillary tangle (GO:0097418)|neurofilament (GO:0005883)	dynein binding (GO:0045502)|kinesin binding (GO:0019894)|microtubule binding (GO:0008017)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(12)|ovary(2)|skin(3)	30						GTCCCCTGAGAAGGCCAAGTCC	0.579																																																0																																										SO:0001652	inframe_insertion	4744				CCDS13858.1	22q12.2	2013-01-16	2008-09-19		ENSG00000100285	ENSG00000100285		"Intermediate filaments type IV"	7737	protein-coding gene	gene with protein product		162230	"neurofilament, heavy polypeptide 200kDa"				Standard	NM_021076		Approved		uc003afo.3	P12036	OTTHUMG00000151155	Exception_encountered	22.37:g.29885622_29885623insAGGAAG	ENSP00000311997:p.Lys665_Ala666insGluGlu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYY4|Q96HF8|Q9UJS7|Q9UQ14	In_Frame_Ins	INS	ENST00000310624.6	37	CCDS13858.1																																																																																				0.579	NEFH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321553.2	NM_021076		AGGAAG	29885623	-	AGGAAG	29885622	7	5	611	1	0	1	1	0	0	0	0	0	10321	247	9	0	2007	0	NEFH	22	29885622	In_Frame_Ins	INS	-	TCGA-HE-A5NK-01A-11D-A26P-10	60	29885622	21418944	120	37245			1	73		3	3	194	N	T_G_-	3.067843e-07
BAIAP2L2	80115	hgsc.bcm.edu	37	chr22	38483172	38483172	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gggttcatgggtgtcatgggGgacatggaggtcatggaggt	20	4	3	0	rs539447143	byFrequency	TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr22:38483172G>T	ENST00000381669.3	-	11	1362	c.1218C>A	c.(1216-1218)tcC>tcA	p.S406S	CTA-228A9.3_ENST00000609162.1_lincRNA	NM_025045.4	NP_079321.3	Q6UXY1	BI2L2_HUMAN	BAI1-associated protein 2-like 2	406					filopodium assembly (GO:0046847)|membrane organization (GO:0061024)|regulation of actin cytoskeleton organization (GO:0032956)|signal transduction (GO:0007165)	cell-cell contact zone (GO:0044291)|cytoplasmic vesicle (GO:0031410)|plasma membrane (GO:0005886)|vesicle membrane (GO:0012506)	phospholipid binding (GO:0005543)			large_intestine(2)|lung(1)|ovary(2)|pancreas(1)|prostate(1)|stomach(1)	8	Melanoma(58;0.045)					gtgtcatgggggacatggagg	0.662													G|||	30	0.00599042	0.0068	0.0014	5008	,	,		13061	0.0		0.004	False		,,,				2504	0.0164															0													31	37	35					22																	38483172		1925	4122	6047	SO:0001819	synonymous_variant	80115			BC015619	CCDS43018.1	22q13.1	2005-02-09			ENSG00000128298	ENSG00000128298			26203	protein-coding gene	gene with protein product							Standard	NM_025045		Approved	FLJ22582	uc003auw.3	Q6UXY1	OTTHUMG00000151197	ENST00000381669.3:c.1218C>A	22.37:g.38483172G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0QYE2|Q96BG7	Silent	SNP	ENST00000381669.3	37	CCDS43018.1																																																																																				0.662	BAIAP2L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321727.1	NM_025045		T	38483172	G	T	38483172	2	4	611	1	0	0	0	0	0	0	0	1	1303	1219	43	4		4	BAIAP2L2	22	38483172	Silent	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	8597550	38483172	12821394	121	37246										
GRAP2	9402	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	40367067	40367067	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ggcctcttccctgccaactaCgtggcacccatgacccgata	8	17	1	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr22:40367067C>T	ENST00000344138.4	+	8	1235	c.972C>T	c.(970-972)taC>taT	p.Y324Y	GRAP2_ENST00000544756.1_Silent_p.Y252Y|GRAP2_ENST00000399090.2_Silent_p.Y211Y|GRAP2_ENST00000543252.1_Silent_p.Y272Y|GRAP2_ENST00000540310.1_Silent_p.Y258Y|GRAP2_ENST00000407075.3_Silent_p.Y324Y	NM_004810.2	NP_004801.1	O75791	GRAP2_HUMAN	GRB2-related adaptor protein 2	324	SH3 2. {ECO:0000255|PROSITE- ProRule:PRU00192}.				cell-cell signaling (GO:0007267)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|positive regulation of signal transduction (GO:0009967)|Ras protein signal transduction (GO:0007265)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome (GO:0005768)|nucleus (GO:0005634)	SH3/SH2 adaptor activity (GO:0005070)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(4)|skin(1)|upper_aerodigestive_tract(1)	14						CTGCCAACTACGTGGCACCCA	0.582																																																0													77	67	71					22																	40367067		2203	4300	6503	SO:0001819	synonymous_variant	9402			AF102694	CCDS13999.1	22q13.2	2013-02-14			ENSG00000100351	ENSG00000100351		"SH2 domain containing"	4563	protein-coding gene	gene with protein product		604518				9878555, 10224278	Standard	XM_005261836		Approved	Grf40, GrbX, GRBLG, GADS, Mona	uc003ayh.2	O75791	OTTHUMG00000151097	ENST00000344138.4:c.972C>T	22.37:g.40367067C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8I3|O43726|Q9NRB7	Silent	SNP	ENST00000344138.4	37	CCDS13999.1																																																																																				0.582	GRAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321295.1	NM_004810		T	40367067	C	T	40367067	2	4	611	1	0	0	0	0	0	0	0	1	6761	547	19	1		1	GRAP2	22	40367067	Silent	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10	1883895	40367067	10937499	122	37247										
SMC1B	27127	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	45785629	45785630	+	Missense_Mutation	DNP	GC	GC	CT													0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	cgaggaatgtctcaggttcaGctctttcctccttcagaaat							TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr22:45785629_45785630GC>CT	ENST00000357450.4	-	10	1692_1693	c.1693_1694GC>AG	c.(1693-1695)GCt>AGt	p.A565S	SMC1B_ENST00000404354.3_Missense_Mutation_p.A565S	NM_148674.3	NP_683515.3	Q8NDV3	SMC1B_HUMAN	structural maintenance of chromosomes 1B	565	Flexible hinge.				meiotic nuclear division (GO:0007126)|sister chromatid cohesion (GO:0007062)	chromosome, centromeric region (GO:0000775)|lateral element (GO:0000800)|meiotic cohesin complex (GO:0030893)|nuclear meiotic cohesin complex (GO:0034991)	ATP binding (GO:0005524)|DNA binding (GO:0003677)			breast(2)|endometrium(4)|kidney(3)|large_intestine(6)|lung(15)|ovary(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	37		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		CTCAGGTTCAGCTCTTTCCTCC	0.386																																																0																																										SO:0001583	missense	27127			AJ504806	CCDS43027.1, CCDS74876.1	22q13	2006-07-06	2006-07-06	2006-07-06	ENSG00000077935	ENSG00000077935		"Structural maintenance of chromosomes proteins"	11112	protein-coding gene	gene with protein product		608685	"SMC1 (structural maintenance of chromosomes 1, yeast)-like 1", "SMC1 structural maintenance of chromosomes 1-like 2 (yeast)"	SMC1L2		10591208, 11564881	Standard	XM_005261566		Approved	bK268H5	uc003bgc.3	Q8NDV3	OTTHUMG00000151334	ENST00000357450.4:c.1693_1694delinsCT	22.37:g.45785629_45785630delinsCT	ENSP00000350036:p.Ala565Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV46|B0QY23|B0QY24|Q5TIC3|Q6ZUF9|Q9Y3G5	Missense_Mutation	DNP	ENST00000357450.4	37	CCDS43027.1																																																																																				0.386	SMC1B-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322256.2	NM_148674		CT	45785630	GC	CT	45785629	3	2	611	1	0	0	0	0	1	0	0	0	14795	971	34	4	2077	4	SMC1B	22	45785629	Missense_Mutation	DNP	GC	TCGA-HE-A5NK-01A-11D-A26P-10	5418562	45785629	5518937	123	37248										
SHANK3	85358	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	51159826	51159826	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	gggaggagcggaagtcacccGaggacaagaagtccatgatc	15	9	1	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chr22:51159826G>A	ENST00000414786.2	+	21	3750	c.3523G>A	c.(3523-3525)Gag>Aag	p.E1175K	SHANK3_ENST00000262795.3_Missense_Mutation_p.E1205K|SHANK3_ENST00000445220.2_Missense_Mutation_p.E1191K			Q9BYB0	SHAN3_HUMAN	SH3 and multiple ankyrin repeat domains 3	1189					adult behavior (GO:0030534)|alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor clustering (GO:0097113)|brain morphogenesis (GO:0048854)|dendritic spine morphogenesis (GO:0060997)|guanylate kinase-associated protein clustering (GO:0097117)|learning (GO:0007612)|MAPK cascade (GO:0000165)|memory (GO:0007613)|N-methyl-D-aspartate receptor clustering (GO:0097114)|negative regulation of actin filament bundle assembly (GO:0032232)|negative regulation of cell volume (GO:0045794)|positive regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:2000969)|positive regulation of dendritic spine development (GO:0060999)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of glutamate receptor signaling pathway (GO:1900451)|positive regulation of long-term neuronal synaptic plasticity (GO:0048170)|positive regulation of synapse structural plasticity (GO:0051835)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|postsynaptic density assembly (GO:0097107)|regulation of dendritic spine morphogenesis (GO:0061001)|regulation of long term synaptic depression (GO:1900452)|regulation of long-term synaptic potentiation (GO:1900271)|social behavior (GO:0035176)|striatal medium spiny neuron differentiation (GO:0021773)|synapse assembly (GO:0007416)|vocal learning (GO:0042297)|vocalization behavior (GO:0071625)	cell junction (GO:0030054)|ciliary membrane (GO:0060170)|cytoplasm (GO:0005737)|neuron projection (GO:0043005)|neuron spine (GO:0044309)|neuronal postsynaptic density (GO:0097481)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	GKAP/Homer scaffold activity (GO:0030160)|identical protein binding (GO:0042802)|ionotropic glutamate receptor binding (GO:0035255)|protein C-terminus binding (GO:0008022)|scaffold protein binding (GO:0097110)|SH3 domain binding (GO:0017124)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(1)|kidney(1)|lung(5)	8		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		GAAGTCACCCGAGGACAAGAA	0.662																																																0													39	48	45					22																	51159826		2100	4200	6300	SO:0001583	missense	85358			AB051437		22q13.3	2013-11-14			ENSG00000251322	ENSG00000251322		"Sterile alpha motif (SAM) domain containing", "Ankyrin repeat domain containing"	14294	protein-coding gene	gene with protein product	"proline rich synapse associated protein 2", "shank postsynaptic density protein"	606230				11258795, 11431708, 10806096, 17173049	Standard	NM_033517		Approved	SPANK-2, prosap2, KIAA1650, PSAP2	uc031ryd.1	Q9BYB0	OTTHUMG00000150169	ENST00000414786.2:c.3523G>A	22.37:g.51159826G>A	ENSP00000464552:p.Glu1175Lys	Somatic		WXS	Illumina HiSeq	Phase_I	D7UT47|Q8TET3	Missense_Mutation	SNP	ENST00000414786.2	37		.	.	.	.	.	.	.	.	.	.	G	15.47	2.843265	0.51057	.	.	ENSG00000251322	ENST00000262795;ENST00000445220	T;T	0.26373	1.74;1.74	4.58	4.58	0.56647	.	0.163605	0.51477	D	0.000081	T	0.25827	0.0629	M	0.70275	2.135	0.29353	N	0.865219	D;P;P	0.53462	0.96;0.492;0.921	B;B;B	0.34489	0.184;0.024;0.163	T	0.43556	-0.9384	10	0.56958	D	0.05	.	14.8583	0.70359	0.0:0.0:1.0:0.0	.	1189;1190;1205	D7UT47;Q9BYB0;F2Z3L0	.;SHAN3_HUMAN;.	K	1205;1191	ENSP00000442518:E1205K;ENSP00000446078:E1191K	ENSP00000442518:E1205K	E	+	1	0	SHANK3	49506692	1.000000	0.71417	0.875000	0.34327	0.943000	0.58893	8.323000	0.90002	2.093000	0.63338	0.462000	0.41574	GAG		0.662	SHANK3-001	KNOWN	non_canonical_polymorphism|basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000316674.2	NM_001080420		A	51159826	G	A	51159826	3	1	611	1	0	0	0	0	1	0	0	0	14279	1059	37	1	3699	1	SHANK3	22	51159826	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	5374197	51159826	144740	124	37249										
BMP15	9210	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	50658965	50658965	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	aaaccttccctgatgtctaaCgcttggaaagagatggatat	9	8	1	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chrX:50658965C>T	ENST00000252677.3	+	2	537	c.537C>T	c.(535-537)aaC>aaT	p.N179N		NM_005448.2	NP_005439.2	O95972	BMP15_HUMAN	bone morphogenetic protein 15	179					female gamete generation (GO:0007292)|granulosa cell development (GO:0060016)|ovarian follicle development (GO:0001541)|positive regulation of transcription, DNA-templated (GO:0045893)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)				NS(1)|breast(2)|endometrium(4)|kidney(1)|large_intestine(5)|lung(10)|ovary(2)|skin(1)	26	Ovarian(276;0.236)					TGATGTCTAACGCTTGGAAAG	0.473																																																0													116	94	101					X																	50658965		2203	4299	6502	SO:0001819	synonymous_variant	9210			AF082349	CCDS14334.1	Xp11.2	2013-02-06			ENSG00000130385	ENSG00000130385		"Bone morphogenetic proteins"	1068	protein-coding gene	gene with protein product		300247				9849956	Standard	NM_005448		Approved	GDF9B	uc011mnw.2	O95972	OTTHUMG00000021525	ENST00000252677.3:c.537C>T	X.37:g.50658965C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q17RM6|Q5JST1|Q9UMS1	Silent	SNP	ENST00000252677.3	37	CCDS14334.1																																																																																				0.473	BMP15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056572.1	NM_005448		T	50658965	C	T	50658965	2	4	611	1	0	0	0	0	0	0	0	1	1458	535	19	1		1	BMP15	23	50658965	Silent	SNP	C	TCGA-HE-A5NK-01A-11D-A26P-10		50658965	104611595	125	37250										
ZCCHC5	203430	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chrX	77913359	77913359	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	ctccagaggctcctggggagGtggaagctcaaggaactcta	14	10	2	1			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chrX:77913359G>A	ENST00000321110.1	-	2	854	c.559C>T	c.(559-561)Cct>Tct	p.P187S		NM_152694.2	NP_689907.1	Q8N8U3	ZCHC5_HUMAN	zinc finger, CCHC domain containing 5	187	Pro-rich.						nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(3)|large_intestine(6)|lung(18)|ovary(1)|prostate(1)|skin(1)	37						TCCTGGGGAGGTGGAAGCTCA	0.537																																																0													41	41	41					X																	77913359		2203	4300	6503	SO:0001583	missense	203430			AK096184	CCDS14440.1	Xq13.3	2008-02-05			ENSG00000179300	ENSG00000179300		"Zinc fingers, CCHC domain containing"	22997	protein-coding gene	gene with protein product						15716091, 16093683	Standard	NM_152694		Approved	FLJ38865, Mar3, Mart3, ZHC5	uc004edc.1	Q8N8U3	OTTHUMG00000021892	ENST00000321110.1:c.559C>T	X.37:g.77913359G>A	ENSP00000316794:p.Pro187Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMZ0|Q5JQE9	Missense_Mutation	SNP	ENST00000321110.1	37	CCDS14440.1	.	.	.	.	.	.	.	.	.	.	G	0.020	-1.432832	0.01108	.	.	ENSG00000179300	ENST00000321110	T	0.17691	2.26	3.46	-5.74	0.02391	.	.	.	.	.	T	0.05547	0.0146	N	0.14661	0.345	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.40289	-0.9571	9	0.07175	T	0.84	.	1.35	0.02171	0.2436:0.2501:0.329:0.1772	.	187	Q8N8U3	ZCHC5_HUMAN	S	187	ENSP00000316794:P187S	ENSP00000316794:P187S	P	-	1	0	ZCCHC5	77800015	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-2.423000	0.01030	-1.795000	0.01255	-3.016000	0.00074	CCT		0.537	ZCCHC5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057319.1	NM_152694		A	77913359	G	A	77913359	3	1	611	1	0	0	0	0	1	0	0	0	17603	1261	44	2	872	2	ZCCHC5	23	77913359	Missense_Mutation	SNP	G	TCGA-HE-A5NK-01A-11D-A26P-10	27254394	77913359	77357201	126	37251										
SRPX2	27286	broad.mit.edu	37	chrX	99919925	99919925	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0634920634920635	8	1	1.21269967521707	1.18743509865005	1.22136181575434	0.193027325346615	1	0	atggaagatgggagatggagTggaggcgagcctgtatgtgt	19	3	0	2			TCGA-HE-A5NK-01A-11D-A26P-10	TCGA-HE-A5NK-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	73f57b92-a6e6-4472-940b-579c22d208bf	254baf21-7011-4eb9-84cf-45364c96ccb7	g.chrX:99919925T>G	ENST00000373004.3	+	5	938	c.510T>G	c.(508-510)agT>agG	p.S170R		NM_014467.2	NP_055282.1	O60687	SRPX2_HUMAN	sushi-repeat containing protein, X-linked 2	170	Sushi 2. {ECO:0000255|PROSITE- ProRule:PRU00302}.				angiogenesis (GO:0001525)|cell motility (GO:0048870)|positive regulation of cell migration involved in sprouting angiogenesis (GO:0090050)|positive regulation of synapse assembly (GO:0051965)|regulation of phosphorylation (GO:0042325)|single organismal cell-cell adhesion (GO:0016337)|vocalization behavior (GO:0071625)	cell junction (GO:0030054)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|excitatory synapse (GO:0060076)|extracellular space (GO:0005615)|synaptic membrane (GO:0097060)	hepatocyte growth factor binding (GO:0036458)|identical protein binding (GO:0042802)|receptor binding (GO:0005102)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|lung(10)|ovary(2)|upper_aerodigestive_tract(1)	19						GGAGATGGAGTGGAGGCGAGC	0.517																																																0													58	48	52					X																	99919925		2203	4300	6503	SO:0001583	missense	27286			AF393649	CCDS14471.1	Xq21.33-q23	2011-01-25	2011-01-25		ENSG00000102359	ENSG00000102359			30668	protein-coding gene	gene with protein product		300642	"sushi-repeat-containing protein, X-linked 2"			9864177	Standard	NM_014467		Approved	SRPUL	uc004egb.3	O60687	OTTHUMG00000022003	ENST00000373004.3:c.510T>G	X.37:g.99919925T>G	ENSP00000362095:p.Ser170Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQT3|Q8WW85	Missense_Mutation	SNP	ENST00000373004.3	37	CCDS14471.1	.	.	.	.	.	.	.	.	.	.	T	18.27	3.587119	0.66105	.	.	ENSG00000102359	ENST00000373004	T	0.68765	-0.35	5.74	0.76	0.18442	Complement control module (2);Sushi/SCR/CCP (3);	0.000000	0.85682	D	0.000000	D	0.83986	0.5373	H	0.94658	3.565	0.58432	D	0.999999	D	0.76494	0.999	D	0.87578	0.998	D	0.84349	0.0531	9	.	.	.	-15.0606	10.4888	0.44739	0.0:0.4289:0.0:0.5711	.	170	O60687	SRPX2_HUMAN	R	170	ENSP00000362095:S170R	.	S	+	3	2	SRPX2	99806581	0.023000	0.18921	0.999000	0.59377	0.990000	0.78478	-0.866000	0.04245	0.004000	0.14682	-0.335000	0.08231	AGT		0.517	SRPX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057486.1	NM_014467		G	99919925	T	G	99919925	3	3	611	1	0	0	0	0	1	0	0	0	15177	1693	59	5	524	5	SRPX2	23	99919925	Missense_Mutation	SNP	T	TCGA-HE-A5NK-01A-11D-A26P-10	22006566	99919925	55350635	127	37252										
PRAMEF12	390999	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	12837407	12837407	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gcgccatcctgcctgccctgAgccgctgctcccagctcagc	10	20	1	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr1:12837407A>T	ENST00000357726.4	+	3	1144	c.1117A>T	c.(1117-1119)Agc>Tgc	p.S373C		NM_001080830.1	NP_001074299.1	O95522	PRA12_HUMAN	PRAME family member 12	373					negative regulation of apoptotic process (GO:0043066)|negative regulation of cell differentiation (GO:0045596)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)					NS(2)|central_nervous_system(1)|cervix(1)|endometrium(2)|large_intestine(3)|lung(9)|ovary(3)|skin(1)|urinary_tract(1)	23	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00818)|Colorectal(212;5.04e-06)|Kidney(185;4.99e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000198)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GCCTGCCCTGAGCCGCTGCTC	0.627																																																0													99	101	100					1																	12837407		2203	4300	6503	SO:0001583	missense	390999				CCDS41254.1	1p36.21	2013-01-17			ENSG00000116726	ENSG00000116726		"-"	22125	protein-coding gene	gene with protein product							Standard	NM_001080830		Approved	OTTHUMG00000001927	uc001aui.3	O95522	OTTHUMG00000001927	ENST00000357726.4:c.1117A>T	1.37:g.12837407A>T	ENSP00000350358:p.Ser373Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000357726.4	37	CCDS41254.1	.	.	.	.	.	.	.	.	.	.	.	15.97	2.990792	0.54041	.	.	ENSG00000116726	ENST00000357726	T	0.12672	2.66	2.72	1.59	0.23543	.	0.618526	0.16899	N	0.194981	T	0.32102	0.0818	M	0.83384	2.64	0.27627	N	0.948171	D	0.89917	1.0	D	0.85130	0.997	T	0.10451	-1.0629	10	0.56958	D	0.05	.	3.0429	0.06143	0.6004:0.2557:0.1439:0.0	.	373	O95522	PRA12_HUMAN	C	373	ENSP00000350358:S373C	ENSP00000350358:S373C	S	+	1	0	PRAMEF12	12759994	0.357000	0.24938	0.906000	0.35671	0.303000	0.27691	-0.407000	0.07178	0.455000	0.26910	0.164000	0.16699	AGC		0.627	PRAMEF12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005457.1	XM_372760		T	12837407	A	T	12837407	3	4	612	1	0	0	0	0	1	0	0	0	12438	304	11	5	1127	5	PRAMEF12	1	12837407	Missense_Mutation	SNP	A	TCGA-HE-A5NL-01A-11D-A26P-10		12837407	236413214	1	37253										
SPEN	23013	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	16257911	16257911	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ttgaggaaggttcatcaggtGaccagccgccttatctggat	12	9	3	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr1:16257911G>A	ENST00000375759.3	+	11	5380	c.5176G>A	c.(5176-5178)Gac>Aac	p.D1726N		NM_015001.2	NP_055816.2	Q96T58	MINT_HUMAN	spen family transcriptional repressor	1726					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|Notch signaling pathway (GO:0007219)|positive regulation of neurogenesis (GO:0050769)|positive regulation of transcription, DNA-templated (GO:0045893)|viral process (GO:0016032)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding transcription factor activity (GO:0003700)|single-stranded DNA binding (GO:0003697)|transcription corepressor activity (GO:0003714)			NS(1)|breast(13)|central_nervous_system(3)|cervix(5)|endometrium(16)|kidney(18)|large_intestine(27)|liver(2)|lung(37)|ovary(7)|prostate(7)|skin(7)|upper_aerodigestive_tract(5)|urinary_tract(1)	149		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)		TTCATCAGGTGACCAGCCGCC	0.587																																																0													136	148	144					1																	16257911		2203	4300	6503	SO:0001583	missense	23013				CCDS164.1	1p36	2013-10-17	2013-10-17		ENSG00000065526	ENSG00000065526		"RNA binding motif (RRM) containing"	17575	protein-coding gene	gene with protein product		613484	"SPEN homolog, transcriptional regulator (Drosophila)", "spen homolog, transcriptional regulator (Drosophila)"			10451362, 11331609	Standard	NM_015001		Approved	KIAA0929, MINT, SHARP, RBM15C	uc001axk.1	Q96T58	OTTHUMG00000009376	ENST00000375759.3:c.5176G>A	1.37:g.16257911G>A	ENSP00000364912:p.Asp1726Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H9A8|Q9NWH5|Q9UQ01|Q9Y556	Missense_Mutation	SNP	ENST00000375759.3	37	CCDS164.1	.	.	.	.	.	.	.	.	.	.	G	16.12	3.032932	0.54790	.	.	ENSG00000065526	ENST00000375759	T	0.09163	3.01	5.16	4.25	0.50352	.	.	.	.	.	T	0.08891	0.0220	N	0.24115	0.695	0.09310	N	1	B	0.32245	0.361	B	0.30646	0.118	T	0.24548	-1.0157	9	0.40728	T	0.16	-3.0207	13.4332	0.61068	0.0759:0.0:0.9241:0.0	.	1726	Q96T58	MINT_HUMAN	N	1726	ENSP00000364912:D1726N	ENSP00000364912:D1726N	D	+	1	0	SPEN	16130498	0.999000	0.42202	0.001000	0.08648	0.749000	0.42624	6.058000	0.71126	1.152000	0.42452	0.467000	0.42956	GAC		0.587	SPEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025993.1	NM_015001		A	16257911	G	A	16257911	3	1	612	1	0	0	0	0	1	0	0	0	15050	1290	45	2	5218	2	SPEN	1	16257911	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	3420504	16257911	232992710	2	37254										
TAL1	6886	broad.mit.edu	37	chr1	47685614	47685614	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ccagcccccaccacagggtcCttgccagtcttggcccgctg	10	19	1	0			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr1:47685614C>G	ENST00000294339.3	-	4	1350	c.774G>C	c.(772-774)aaG>aaC	p.K258N	TAL1_ENST00000371884.2_Missense_Mutation_p.K258N|TAL1_ENST00000459729.1_5'UTR|TAL1_ENST00000371883.3_Missense_Mutation_p.K260N	NM_003189.2	NP_003180.1	P17542	TAL1_HUMAN	T-cell acute lymphocytic leukemia 1	258					angiogenesis (GO:0001525)|astrocyte fate commitment (GO:0060018)|basophil differentiation (GO:0030221)|cell fate commitment (GO:0045165)|definitive hemopoiesis (GO:0060216)|embryonic hemopoiesis (GO:0035162)|erythrocyte differentiation (GO:0030218)|erythrocyte maturation (GO:0043249)|hemangioblast cell differentiation (GO:0060217)|hematopoietic stem cell differentiation (GO:0060218)|hemopoiesis (GO:0030097)|locomotory behavior (GO:0007626)|megakaryocyte development (GO:0035855)|megakaryocyte differentiation (GO:0030219)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|platelet formation (GO:0030220)|positive regulation of cell division (GO:0051781)|positive regulation of chromatin assembly or disassembly (GO:0045799)|positive regulation of erythrocyte differentiation (GO:0045648)|positive regulation of mitotic cell cycle (GO:0045931)|positive regulation of protein complex assembly (GO:0031334)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cell proliferation (GO:0042127)|regulation of mast cell differentiation (GO:0060375)|regulation of stem cell maintenance (GO:2000036)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|spinal cord association neuron differentiation (GO:0021527)	nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|E-box binding (GO:0070888)|enzyme binding (GO:0019899)|histone deacetylase binding (GO:0042826)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II transcription factor binding (GO:0001085)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			haematopoietic_and_lymphoid_tissue(1)|lung(12)|prostate(1)|upper_aerodigestive_tract(1)	15						CCACAGGGTCCTTGCCAGTCT	0.642			T	"TRD@, SIL"	lymphoblastic leukemia/biphasic																																		Dom	yes		1	1p32	6886	T-cell acute lymphocytic leukemia 1 (SCL)		L	0													11	11	11					1																	47685614		2201	4287	6488	SO:0001583	missense	6886			M29038	CCDS547.1	1p32	2013-05-21	2001-12-04		ENSG00000162367	ENSG00000162367		"Basic helix-loop-helix proteins"	11556	protein-coding gene	gene with protein product		187040		TCL5		2740341	Standard	NM_001287347		Approved	SCL, bHLHa17	uc009vyq.2	P17542	OTTHUMG00000007847	ENST00000294339.3:c.774G>C	1.37:g.47685614C>G	ENSP00000294339:p.Lys258Asn	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQ24	Missense_Mutation	SNP	ENST00000294339.3	37	CCDS547.1	.	.	.	.	.	.	.	.	.	.	C	18.67	3.673282	0.67928	.	.	ENSG00000162367	ENST00000371884;ENST00000371883;ENST00000294339	D;D;D	0.97811	-4.54;-4.55;-4.54	5.01	4.1	0.47936	Helix-loop-helix DNA-binding (1);	0.120919	0.52532	D	0.000063	D	0.94991	0.8379	L	0.27053	0.805	0.41923	D	0.990522	D	0.60160	0.987	P	0.50708	0.648	D	0.93287	0.6665	10	0.51188	T	0.08	.	5.5117	0.16884	0.0:0.6676:0.0:0.3324	.	258	P17542	TAL1_HUMAN	N	258;260;258	ENSP00000360951:K258N;ENSP00000360950:K260N;ENSP00000294339:K258N	ENSP00000294339:K258N	K	-	3	2	TAL1	47458201	0.998000	0.40836	1.000000	0.80357	0.995000	0.86356	0.494000	0.22467	1.344000	0.45657	0.579000	0.79373	AAG		0.642	TAL1-002	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000021640.1	NM_003189		G	47685614	C	G	47685614	3	3	612	1	0	0	0	0	1	0	0	0	15553	680	24	4	225	4	TAL1	1	47685614	Missense_Mutation	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	31427703	47685614	201565007	3	37255										
ABCA4	24	broad.mit.edu	37	chr1	94486858	94486858	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	tggctaatgacggtgattccAtactcctcggggctcctgtc	11	12	0	2	rs61750561		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr1:94486858A>G	ENST00000370225.3	-	35	5042	c.4956T>C	c.(4954-4956)taT>taC	p.Y1652Y	ABCA4_ENST00000536513.1_5'Flank	NM_000350.2	NP_000341.2	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 4	1652			Y -> D (in STGD1). {ECO:0000269|PubMed:10206579}.		phospholipid transfer to membrane (GO:0006649)|photoreceptor cell maintenance (GO:0045494)|phototransduction, visible light (GO:0007603)|retinoid metabolic process (GO:0001523)|transmembrane transport (GO:0055085)|transport (GO:0006810)|visual perception (GO:0007601)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|photoreceptor disc membrane (GO:0097381)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|phospholipid-translocating ATPase activity (GO:0004012)|transporter activity (GO:0005215)			NS(2)|breast(6)|central_nervous_system(5)|endometrium(9)|haematopoietic_and_lymphoid_tissue(5)|kidney(10)|large_intestine(25)|lung(57)|ovary(4)|pancreas(1)|prostate(4)|skin(10)|stomach(4)|upper_aerodigestive_tract(3)|urinary_tract(2)	147		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		CGGTGATTCCATACTCCTCGG	0.547																																																0			GRCh37	CM012882	ABCA4	M	rs61750561						184	177	180					1																	94486858		2203	4300	6503	SO:0001819	synonymous_variant	24			U88667	CCDS747.1	1p22	2013-01-23			ENSG00000198691	ENSG00000198691		"ATP binding cassette transporters / subfamily A"	34	protein-coding gene	gene with protein product	"Stargardt disease"	601691	"ATP-binding cassette transporter, retinal-specific"	STGD1, ABCR, RP19, STGD		9490294	Standard	NM_000350		Approved	FFM, ARMD2, CORD3	uc001dqh.3	P78363	OTTHUMG00000010622	ENST00000370225.3:c.4956T>C	1.37:g.94486858A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O15112|O60438|O60915|Q0QD48|Q4LE31	Silent	SNP	ENST00000370225.3	37	CCDS747.1																																																																																				0.547	ABCA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029320.1	NM_000350		G	94486858	A	G	94486858	2	3	612	1	0	0	0	0	0	0	0	1	34	224	8	3		3	ABCA4	1	94486858	Silent	SNP	A	TCGA-HE-A5NL-01A-11D-A26P-10	46801244	94486858	154763763	4	37256										
NBPF15	284565	broad.mit.edu;bcgsc.ca	37	chr1	148594427	148594427	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gtgctgatggaagtggaagaGcctgaagtcttacaggactc	14	7	1	3	rs587634015	byFrequency	TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr1:148594427G>C	ENST00000369187.3	+	19	2289	c.1800G>C	c.(1798-1800)gaG>gaC	p.E600D	NBPF15_ENST00000442702.2_Missense_Mutation_p.E600D	NM_173638.3	NP_775909.2	Q8N660	NBPFF_HUMAN	neuroblastoma breakpoint family, member 15	600	NBPF 6. {ECO:0000255|PROSITE- ProRule:PRU00647}.					cytoplasm (GO:0005737)				NS(1)|cervix(1)|endometrium(1)|large_intestine(4)|lung(3)|skin(2)	12	all_hematologic(923;0.032)					AAGTGGAAGAGCCTGAAGTCT	0.458																																																0																																										SO:0001583	missense	728936			BC023087	CCDS72852.1	1q21.1	2014-01-16			ENSG00000243452	ENSG00000266338		"neuroblastoma breakpoint family"	28791	protein-coding gene	gene with protein product		610414, 614005	"neuroblastoma breakpoint family, member 16"	NBPF16		16079250	Standard	NM_173638		Approved	MGC8902	uc001esc.2	Q8N660	OTTHUMG00000013634	ENST00000369187.3:c.1800G>C	1.37:g.148594427G>C	ENSP00000358188:p.Glu600Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q3BBV9|Q8IX77	Missense_Mutation	SNP	ENST00000369187.3	37	CCDS932.1	.	.	.	.	.	.	.	.	.	.	.	10.47	1.358251	0.24598	.	.	ENSG00000243452	ENST00000442702;ENST00000369187	T;T	0.15372	2.43;2.43	0.502	0.502	0.16932	DUF1220 (2);	.	.	.	.	T	0.19005	0.0456	M	0.86420	2.815	0.09310	N	1	B	0.29188	0.236	P	0.44860	0.462	T	0.41106	-0.9527	8	0.66056	D	0.02	.	.	.	.	.	600	Q8N660	NBPFF_HUMAN	D	600	ENSP00000416864:E600D;ENSP00000358188:E600D	ENSP00000358188:E600D	E	+	3	2	NBPF15	146861051	0.937000	0.31787	0.003000	0.11579	0.003000	0.03518	0.894000	0.28350	0.557000	0.29117	0.377000	0.23210	GAG		0.458	NBPF15-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000038609.3	NM_173638		C	148594427	G	C	148594427	3	2	612	1	0	0	0	0	1	0	0	0	10202	962	34	4	1858	4	NBPF15	1	148594427	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	54107569	148594427	100656194	5	37257										
CADM3	57863	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	159170698	159170698	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	caggaggggacgacaagaagGaatatttcatctagaggcgc	14	7	2	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr1:159170698G>T	ENST00000368125.4	+	9	1340	c.1183G>T	c.(1183-1185)Gaa>Taa	p.E395*	CTA-134P22.2_ENST00000609696.1_RNA|CTA-134P22.2_ENST00000415675.2_RNA|CADM3_ENST00000497636.1_3'UTR|DARC_ENST00000537147.1_5'Flank|CADM3_ENST00000368124.4_Nonsense_Mutation_p.E429*	NM_001127173.1	NP_001120645.1	Q8N126	CADM3_HUMAN	cell adhesion molecule 3	395					adherens junction organization (GO:0034332)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|heterophilic cell-cell adhesion (GO:0007157)|homophilic cell adhesion (GO:0007156)|protein localization (GO:0008104)	cell-cell junction (GO:0005911)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	protein homodimerization activity (GO:0042803)			NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|endometrium(5)|kidney(4)|large_intestine(12)|lung(20)|ovary(2)|pancreas(1)|prostate(2)|skin(3)	55	all_hematologic(112;0.0429)					CGACAAGAAGGAATATTTCAT	0.617																																																0													78	76	77					1																	159170698		2203	4300	6503	SO:0001587	stop_gained	57863			AY046418	CCDS1182.1, CCDS44251.1	1q21.2-q22	2013-01-29	2007-02-07	2007-02-07	ENSG00000162706	ENSG00000162706		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	17601	protein-coding gene	gene with protein product	"nectin-like 1"	609743	"immunoglobulin superfamily, member 4B"	IGSF4B		11536053	Standard	NM_021189		Approved	BIgR, FLJ10698, TSLL1, NECL1, SynCAM3, Necl-1	uc001ftk.2	Q8N126	OTTHUMG00000037177	ENST00000368125.4:c.1183G>T	1.37:g.159170698G>T	ENSP00000357107:p.Glu395*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IZQ9|Q9NVJ5|Q9UJP1	Nonsense_Mutation	SNP	ENST00000368125.4	37	CCDS44251.1	.	.	.	.	.	.	.	.	.	.	G	38	6.895315	0.97916	.	.	ENSG00000162706	ENST00000368124;ENST00000368125	.	.	.	3.81	3.81	0.43845	.	0.000000	0.64402	D	0.000001	.	.	.	.	.	.	0.48571	D	0.999671	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	.	13.2211	0.59887	0.0:0.0:1.0:0.0	.	.	.	.	X	429;395	.	ENSP00000357106:E429X	E	+	1	0	CADM3	157437322	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	8.966000	0.93397	1.965000	0.57142	0.591000	0.81541	GAA		0.617	CADM3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000090330.1	NM_021189		T	159170698	G	T	159170698	4	4	612	1	0	0	0	0	0	1	0	0	2570	1175	41	4	1323	4	CADM3	1	159170698	Nonsense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	10576271	159170698	90079923	6	37258										
C1orf129	80133	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	170965712	170965712	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	tgcaacaggtggatattactCtaatgaaggagaatttctgg	11	5	2	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr1:170965712C>G	ENST00000367758.3	+	14	1501	c.1402C>G	c.(1402-1404)Cta>Gta	p.L468V	MROH9_ENST00000367759.4_Missense_Mutation_p.L468V	NM_025063.2	NP_079339.2	Q5TGP6	MROH9_HUMAN	maestro heat-like repeat family member 9	468																	GGATATTACTCTAATGAAGGA	0.443																																																0													181	172	175					1																	170965712		1873	4113	5986	SO:0001583	missense	80133			AK027203	CCDS41436.1, CCDS53429.1	1q24.3	2012-12-19	2012-12-19	2012-12-19	ENSG00000117501	ENSG00000117501		"maestro heat-like repeat containing"	26287	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 129"	C1orf129			Standard	NM_025063		Approved	FLJ23550, ARMC11	uc010plz.2	Q5TGP6	OTTHUMG00000041456	ENST00000367758.3:c.1402C>G	1.37:g.170965712C>G	ENSP00000356732:p.Leu468Val	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJM0|A0PJM2|F5GWX6|Q9H5D7	Missense_Mutation	SNP	ENST00000367758.3	37	CCDS41436.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	17.85|17.85	3.489337|3.489337	0.64074|0.64074	.|.	.|.	ENSG00000117501|ENSG00000117501	ENST00000367759;ENST00000367758|ENST00000426136	T;T|.	0.67698|.	-0.28;1.49|.	5.75|5.75	5.75|5.75	0.90469|0.90469	Armadillo-like helical (1);|.	0.127327|.	0.36101|.	N|.	0.002798|.	T|T	0.49626|0.49626	0.1568|0.1568	M|M	0.69823|0.69823	2.125|2.125	0.29405|0.29405	N|N	0.86168|0.86168	D;D|.	0.89917|.	1.0;1.0|.	D;D|.	0.85130|.	0.997;0.997|.	T|T	0.49390|0.49390	-0.8945|-0.8945	10|5	0.72032|.	D|.	0.01|.	-13.2876|-13.2876	15.4599|15.4599	0.75346|0.75346	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	468;468|.	F5GWX6;Q5TGP6|.	.;CA129_HUMAN|.	V|C	468|74	ENSP00000356733:L468V;ENSP00000356732:L468V|.	ENSP00000356732:L468V|.	L|S	+|+	1|2	2|0	C1orf129|C1orf129	169232336|169232336	0.790000|0.790000	0.28787|0.28787	0.271000|0.271000	0.24616|0.24616	0.008000|0.008000	0.06430|0.06430	3.549000|3.549000	0.53681|0.53681	2.716000|2.716000	0.92895|0.92895	0.655000|0.655000	0.94253|0.94253	CTA|TCT		0.443	MROH9-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000099327.1	NM_025063		G	170965712	C	G	170965712	3	3	612	1	0	0	0	0	1	0	0	0	1998	912	32	4	1452	4	C1orf129	1	170965712	Missense_Mutation	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	11795014	170965712	78284909	7	37259										
EPHX1	2052	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	226030105	226030105	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ctcctgtgggtctggctgccTatattctagagaagttttcc	10	10	2	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr1:226030105T>C	ENST00000366837.4	+	7	1166	c.970T>C	c.(970-972)Tat>Cat	p.Y324H	RP11-285F7.2_ENST00000424332.1_RNA|EPHX1_ENST00000272167.5_Missense_Mutation_p.Y324H	NM_000120.3	NP_000111.1	P07099	HYEP_HUMAN	epoxide hydrolase 1, microsomal (xenobiotic)	324					aromatic compound catabolic process (GO:0019439)|response to toxic substance (GO:0009636)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	cis-stilbene-oxide hydrolase activity (GO:0033961)|epoxide hydrolase activity (GO:0004301)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(6)|lung(7)|ovary(3)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	28	Breast(184;0.197)					TCTGGCTGCCTATATTCTAGA	0.582																																																0													121	130	127					1																	226030105		2203	4300	6503	SO:0001583	missense	2052			J03518	CCDS1547.1	1q42.1	2009-07-10			ENSG00000143819	ENSG00000143819	3.3.2.9		3401	protein-coding gene	gene with protein product		132810		EPHX		9925921	Standard	NM_000120		Approved		uc001hpk.3	P07099	OTTHUMG00000037743	ENST00000366837.4:c.970T>C	1.37:g.226030105T>C	ENSP00000355802:p.Tyr324His	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8N0|Q5VTJ6|Q9NP75|Q9NPE7|Q9NQU6|Q9NQU7|Q9NQU8|Q9NQU9|Q9NQV0|Q9NQV1|Q9NQV2	Missense_Mutation	SNP	ENST00000366837.4	37	CCDS1547.1	.	.	.	.	.	.	.	.	.	.	T	26.8	4.776408	0.90195	.	.	ENSG00000143819	ENST00000272167;ENST00000366837	T;T	0.08102	3.13;3.13	5.33	5.33	0.75918	Alpha/beta hydrolase fold-1 (1);	0.000000	0.85682	D	0.000000	T	0.41050	0.1142	H	0.94503	3.545	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.57248	-0.7844	10	0.87932	D	0	-30.0957	15.5961	0.76583	0.0:0.0:0.0:1.0	.	324	P07099	HYEP_HUMAN	H	324	ENSP00000272167:Y324H;ENSP00000355802:Y324H	ENSP00000272167:Y324H	Y	+	1	0	EPHX1	224096728	1.000000	0.71417	0.993000	0.49108	0.984000	0.73092	7.914000	0.87478	2.137000	0.66172	0.533000	0.62120	TAT		0.582	EPHX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092064.1	NM_000120		C	226030105	T	C	226030105	3	2	612	1	0	0	0	0	1	0	0	0	5181	1522	53	3	992	3	EPHX1	1	226030105	Missense_Mutation	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10	55064393	226030105	23220516	8	37260										
LYST	1130	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	235872510	235872510	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gtcagactctagagcctgccGatggatgaggataaaaagac	12	8	2	4			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr1:235872510G>A	ENST00000389794.3	-	44	10198	c.10024C>T	c.(10024-10026)Cgg>Tgg	p.R3342W	LYST_ENST00000389793.2_Missense_Mutation_p.R3342W|LYST_ENST00000473037.1_5'UTR			Q99698	LYST_HUMAN	lysosomal trafficking regulator	3342	BEACH. {ECO:0000255|PROSITE- ProRule:PRU00026}.				blood coagulation (GO:0007596)|defense response to bacterium (GO:0042742)|defense response to protozoan (GO:0042832)|defense response to virus (GO:0051607)|endosome to lysosome transport via multivesicular body sorting pathway (GO:0032510)|leukocyte chemotaxis (GO:0030595)|lysosome organization (GO:0007040)|mast cell secretory granule organization (GO:0033364)|melanosome organization (GO:0032438)|microtubule-based process (GO:0007017)|natural killer cell mediated cytotoxicity (GO:0042267)|neutrophil mediated immunity (GO:0002446)|phospholipid homeostasis (GO:0055091)|phospholipid metabolic process (GO:0006644)|pigmentation (GO:0043473)|positive regulation of natural killer cell activation (GO:0032816)|response to drug (GO:0042493)|secretion of lysosomal enzymes (GO:0033299)|T cell mediated immunity (GO:0002456)	cytosol (GO:0005829)|microtubule cytoskeleton (GO:0015630)				NS(1)|breast(13)|central_nervous_system(3)|cervix(3)|endometrium(17)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(27)|lung(66)|ovary(7)|pancreas(1)|prostate(4)|skin(4)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	162	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)			AGAGCCTGCCGATGGATGAGG	0.483																																																0													97	95	96					1																	235872510		2203	4300	6503	SO:0001583	missense	1130			U70064	CCDS31062.1	1q42.1-q42.2	2014-09-17	2004-12-09	2004-12-10	ENSG00000143669	ENSG00000143669		"WD repeat domain containing"	1968	protein-coding gene	gene with protein product		606897	"Chediak-Higashi syndrome 1"	CHS1		8717042, 8896560	Standard	NM_000081		Approved	CHS	uc001hxj.3	Q99698	OTTHUMG00000040527	ENST00000389794.3:c.10024C>T	1.37:g.235872510G>A	ENSP00000374444:p.Arg3342Trp	Somatic		WXS	Illumina HiSeq	Phase_I	O43274|Q5T2U9|Q96TD7|Q96TD8|Q99709|Q9H133	Missense_Mutation	SNP	ENST00000389794.3	37	CCDS31062.1	.	.	.	.	.	.	.	.	.	.	G	25.1	4.601748	0.87055	.	.	ENSG00000143669	ENST00000389794;ENST00000389793	T;T	0.74209	-0.82;-0.82	5.39	4.47	0.54385	BEACH domain (4);	0.000000	0.85682	D	0.000000	D	0.91345	0.7270	H	0.98005	4.125	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.94675	0.7860	10	0.87932	D	0	.	15.9845	0.80142	0.0:0.0:0.8645:0.1355	.	3342	Q99698	LYST_HUMAN	W	3342	ENSP00000374444:R3342W;ENSP00000374443:R3342W	ENSP00000374443:R3342W	R	-	1	2	LYST	233939133	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.049000	0.71053	1.391000	0.46566	0.655000	0.94253	CGG		0.483	LYST-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097533.5			A	235872510	G	A	235872510	3	1	612	1	0	0	0	0	1	0	0	0	9135	1057	37	1	1421	1	LYST	1	235872510	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	9842405	235872510	13378111	9	37261										
NCOA1	8648	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	24929447	24929447	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ttccccctagggagcacagtGggctttctcctcaagatgac	10	13	2	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr2:24929447G>A	ENST00000406961.1	+	13	1760	c.1108G>A	c.(1108-1110)Ggg>Agg	p.G370R	NCOA1_ENST00000348332.3_Missense_Mutation_p.G370R|NCOA1_ENST00000405141.1_Missense_Mutation_p.G370R|NCOA1_ENST00000395856.3_Missense_Mutation_p.G370R|NCOA1_ENST00000288599.5_Missense_Mutation_p.G370R|NCOA1_ENST00000407230.1_Missense_Mutation_p.G219R|NCOA1_ENST00000538539.1_Missense_Mutation_p.G370R			Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1	370	Interaction with STAT3.				androgen receptor signaling pathway (GO:0030521)|cellular lipid metabolic process (GO:0044255)|cellular response to hormone stimulus (GO:0032870)|cerebellum development (GO:0021549)|cerebral cortex development (GO:0021987)|estrous cycle phase (GO:0060206)|hippocampus development (GO:0021766)|histone H4 acetylation (GO:0043967)|hypothalamus development (GO:0021854)|labyrinthine layer morphogenesis (GO:0060713)|lactation (GO:0007595)|male gonad development (GO:0008584)|male mating behavior (GO:0060179)|ovulation cycle (GO:0042698)|positive regulation of apoptotic process (GO:0043065)|positive regulation of female receptivity (GO:0045925)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription from RNA polymerase II promoter by galactose (GO:0000435)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cellular response to drug (GO:2001038)|response to estradiol (GO:0032355)|response to progesterone (GO:0032570)|response to retinoic acid (GO:0032526)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|neuron projection (GO:0043005)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)	androgen receptor binding (GO:0050681)|chromatin binding (GO:0003682)|enzyme binding (GO:0019899)|histone acetyltransferase activity (GO:0004402)|ligand-dependent nuclear receptor binding (GO:0016922)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|nuclear hormone receptor binding (GO:0035257)|protein N-terminus binding (GO:0047485)|RNA polymerase II regulatory region DNA binding (GO:0001012)|RNA polymerase II transcription coactivator activity (GO:0001105)|signal transducer activity (GO:0004871)|transcription coactivator activity (GO:0003713)		PAX3/NCOA1(8)	breast(3)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(13)|lung(26)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	53	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGAGCACAGTGGGCTTTCTCC	0.383			T	PAX3	alveolar rhadomyosarcoma																																		Dom	yes		2	2p23	8648	nuclear receptor coactivator 1		M	0													65	66	66					2																	24929447		2203	4300	6503	SO:0001583	missense	8648			U40396	CCDS1712.1, CCDS1713.1, CCDS42660.1	2p23	2011-07-01			ENSG00000084676	ENSG00000084676		"Chromatin-modifying enzymes / K-acetyltransferases", "Basic helix-loop-helix proteins"	7668	protein-coding gene	gene with protein product		602691				7481822, 9575154	Standard	XM_005264625		Approved	SRC1, F-SRC-1, NCoA-1, KAT13A, RIP160, bHLHe74	uc002rfk.3	Q15788	OTTHUMG00000125523	ENST00000406961.1:c.1108G>A	2.37:g.24929447G>A	ENSP00000385216:p.Gly370Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O00150|O43792|O43793|Q13071|Q13420|Q2T9G5|Q53SX3|Q6GVI5|Q7KYV3	Missense_Mutation	SNP	ENST00000406961.1	37	CCDS1712.1	.	.	.	.	.	.	.	.	.	.	G	7.212	0.595682	0.13875	.	.	ENSG00000084676	ENST00000406961;ENST00000405141;ENST00000407230;ENST00000538539;ENST00000348332;ENST00000288599;ENST00000395856	T;T;T;T;T;T;T	0.02158	4.54;4.54;4.42;4.54;4.54;4.54;4.54	5.02	5.02	0.67125	.	0.298923	0.37483	N	0.002071	T	0.01940	0.0061	L	0.34521	1.04	0.29230	N	0.873364	B;B;B;B	0.31790	0.34;0.28;0.014;0.203	B;B;B;B	0.33392	0.101;0.163;0.049;0.127	T	0.38156	-0.9674	10	0.20046	T	0.44	.	4.5462	0.12081	0.083:0.1533:0.6049:0.1588	.	370;370;370;219	Q15788-3;Q15788;Q15788-2;B5MCN7	.;NCOA1_HUMAN;.;.	R	370;370;219;370;370;370;370	ENSP00000385216:G370R;ENSP00000385097:G370R;ENSP00000385195:G219R;ENSP00000444039:G370R;ENSP00000320940:G370R;ENSP00000288599:G370R;ENSP00000379197:G370R	ENSP00000288599:G370R	G	+	1	0	NCOA1	24782951	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	2.987000	0.49378	2.485000	0.83878	0.655000	0.94253	GGG		0.383	NCOA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000246852.3	NM_147223		A	24929447	G	A	24929447	3	1	612	1	0	0	0	0	1	0	0	0	10235	1348	47	2	1142	2	NCOA1	2	24929447	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10		24929447	218269926	10	37262										
LRPPRC	10128	broad.mit.edu;bcgsc.ca	37	chr2	44203320	44203320	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gtcacaagggcactgaatacTgcctctgtaactgggagatc	11	10	2	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr2:44203320T>A	ENST00000260665.7	-	6	756	c.699A>T	c.(697-699)gcA>gcT	p.A233A	LRPPRC_ENST00000409946.1_Silent_p.A233A|LRPPRC_ENST00000409659.1_Silent_p.A233A	NM_133259.3	NP_573566.2	P42704	LPPRC_HUMAN	leucine-rich pentatricopeptide repeat containing	233					mitochondrion transport along microtubule (GO:0047497)|mRNA transport (GO:0051028)|negative regulation of mitochondrial RNA catabolic process (GO:0000961)|regulation of mitochondrial translation (GO:0070129)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	condensed nuclear chromosome (GO:0000794)|cytoskeleton (GO:0005856)|membrane (GO:0016020)|microtubule (GO:0005874)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|ribonucleoprotein complex (GO:0030529)	beta-tubulin binding (GO:0048487)|microtubule binding (GO:0008017)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|single-stranded DNA binding (GO:0003697)			breast(3)|endometrium(3)|kidney(5)|large_intestine(9)|lung(15)|ovary(2)|prostate(2)|skin(2)	41		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				CACTGAATACTGCCTCTGTAA	0.403																																																0													84	82	83					2																	44203320		2203	4300	6503	SO:0001819	synonymous_variant	10128			M92439	CCDS33189.1	2p21	2012-02-24	2012-02-24		ENSG00000138095	ENSG00000138095			15714	protein-coding gene	gene with protein product		607544	"Leigh syndrome, French-Canadian type (cytochrome oxidase deficiency)"	LSFC		8012652, 8619474, 22045337	Standard	NM_133259		Approved	GP130, LRP130	uc002rtr.2	P42704	OTTHUMG00000152782	ENST00000260665.7:c.699A>T	2.37:g.44203320T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJE3|A8K1V1|Q53PC0|Q53QN7|Q6ZUD8|Q7Z7A6|Q96D84	Silent	SNP	ENST00000260665.7	37	CCDS33189.1																																																																																				0.403	LRPPRC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327823.1	NM_133259		A	44203320	T	A	44203320	2	1	612	1	0	0	0	0	0	0	0	1	8972	1567	55	5		5	LRPPRC	2	44203320	Silent	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10	19273873	44203320	198996053	11	37263										
TTL	150465	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	113260589	113260589	+	Frame_Shift_Del	DEL	A	A	-													0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	atgttgataatttccaagacAaaacctgccatttgaccaat							TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr2:113260589delA	ENST00000233336.6	+	5	897	c.706delA	c.(706-708)aaafs	p.K236fs		NM_153712.4	NP_714923.1	Q8NG68	TTL_HUMAN	tubulin tyrosine ligase	236	TTL. {ECO:0000255|PROSITE- ProRule:PRU00568}.				cellular protein modification process (GO:0006464)|microtubule cytoskeleton organization (GO:0000226)|regulation of axon extension (GO:0030516)		ATP binding (GO:0005524)|tubulin-tyrosine ligase activity (GO:0004835)			breast(1)|large_intestine(2)|ovary(1)	4		Ovarian(717;0.024)		BRCA - Breast invasive adenocarcinoma(221;6.17e-07)|STAD - Stomach adenocarcinoma(1183;0.00644)		TTTCCAAGACAAAACCTGCCA	0.388			T	ETV6	ALL																																		Dom	yes		2	2q13	150465	tubulin tyrosine ligase		L	0													126	124	125					2																	113260589		2203	4300	6503	SO:0001589	frameshift_variant	150465				CCDS2096.1	2q13	2010-04-21			ENSG00000114999	ENSG00000114999	6.3.2.25		21586	protein-coding gene	gene with protein product		608291				11431336	Standard	NM_153712		Approved	MGC46235	uc002thu.3	Q8NG68	OTTHUMG00000131316	ENST00000233336.6:c.706delA	2.37:g.113260589delA	ENSP00000233336:p.Lys236fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q585T3|Q7Z302|Q8N426	Frame_Shift_Del	DEL	ENST00000233336.6	37	CCDS2096.1																																																																																				0.388	TTL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254085.2	NM_153712		-	113260589	A	-	113260589	7	5	612	1	0	1	0	1	0	0	0	0	16733	131	5	0	724	0	TTL	2	113260589	Frame_Shift_Del	DEL	A	TCGA-HE-A5NL-01A-11D-A26P-10	69057269	113260589	129938784	12	37264										
GAD1	2571	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	171705820	171705820	+	Frame_Shift_Del	DEL	A	A	-													0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	cctggggaggtgggctgctcAtgtccaggaagcaccgccat							TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr2:171705820delA	ENST00000358196.3	+	12	1694	c.1144delA	c.(1144-1146)atgfs	p.M382fs		NM_000817.2	NP_000808.2	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 (brain, 67kDa)	382					gamma-aminobutyric acid biosynthetic process (GO:0009449)|glutamate catabolic process (GO:0006538)|glutamate decarboxylation to succinate (GO:0006540)|neurotransmitter biosynthetic process (GO:0042136)|neurotransmitter secretion (GO:0007269)|protein-pyridoxal-5-phosphate linkage (GO:0018352)|response to drug (GO:0042493)|synaptic transmission (GO:0007268)	clathrin-sculpted gamma-aminobutyric acid transport vesicle membrane (GO:0061202)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|vesicle membrane (GO:0012506)	glutamate binding (GO:0016595)|glutamate decarboxylase activity (GO:0004351)|pyridoxal phosphate binding (GO:0030170)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(11)|lung(15)|ovary(1)|urinary_tract(2)	35						TGGGCTGCTCATGTCCAGGAA	0.537																																																0													76	67	70					2																	171705820		2203	4300	6503	SO:0001589	frameshift_variant	2571				CCDS2239.1, CCDS2240.1	2q31	2008-02-05	2002-08-29		ENSG00000128683	ENSG00000128683	4.1.1.15		4092	protein-coding gene	gene with protein product		605363	"glutamate decarboxylase 1 (brain, 67kD)"	GAD		1549570	Standard	XM_005246443		Approved		uc002ugi.3	Q99259	OTTHUMG00000044175	ENST00000358196.3:c.1144delA	2.37:g.171705820delA	ENSP00000350928:p.Met382fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q49AK1|Q53TQ7|Q9BU91|Q9UHH4	Frame_Shift_Del	DEL	ENST00000358196.3	37	CCDS2239.1																																																																																				0.537	GAD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000102664.2			-	171705820	A	-	171705820	7	5	612	1	0	1	0	1	0	0	0	0	6186	217	8	0	1227	0	GAD1	2	171705820	Frame_Shift_Del	DEL	A	TCGA-HE-A5NL-01A-11D-A26P-10	58445231	171705820	71493553	13	37265										
FN1	2335	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	216274676	216274676	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ctggtcacaggtgtgctggtGctggtggtggtgaagtcaaa	17	6	2	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr2:216274676G>T	ENST00000359671.1	-	14	2368	c.2103C>A	c.(2101-2103)agC>agA	p.S701R	FN1_ENST00000443816.1_Missense_Mutation_p.S701R|FN1_ENST00000354785.4_Missense_Mutation_p.S701R|FN1_ENST00000432072.2_Missense_Mutation_p.S701R|FN1_ENST00000356005.4_Missense_Mutation_p.S701R|FN1_ENST00000323926.6_Missense_Mutation_p.S701R|FN1_ENST00000336916.4_Missense_Mutation_p.S701R|FN1_ENST00000346544.3_Missense_Mutation_p.S701R|FN1_ENST00000357009.2_Missense_Mutation_p.S701R|FN1_ENST00000421182.1_Missense_Mutation_p.S701R|FN1_ENST00000345488.5_Missense_Mutation_p.S701R|FN1_ENST00000357867.4_Missense_Mutation_p.S701R|FN1_ENST00000446046.1_Missense_Mutation_p.S701R			P02751	FINC_HUMAN	fibronectin 1	701	Fibronectin type-III 1.				acute-phase response (GO:0006953)|angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|calcium-independent cell-matrix adhesion (GO:0007161)|cell adhesion (GO:0007155)|cell-substrate junction assembly (GO:0007044)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|integrin activation (GO:0033622)|leukocyte migration (GO:0050900)|peptide cross-linking (GO:0018149)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of axon extension (GO:0045773)|regulation of cell shape (GO:0008360)|response to wounding (GO:0009611)|substrate adhesion-dependent cell spreading (GO:0034446)	apical plasma membrane (GO:0016324)|basal lamina (GO:0005605)|blood microparticle (GO:0072562)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|fibrinogen complex (GO:0005577)|platelet alpha granule lumen (GO:0031093)	collagen binding (GO:0005518)|heparin binding (GO:0008201)|integrin binding (GO:0005178)|peptidase activator activity (GO:0016504)|protease binding (GO:0002020)		FN1/ALK(2)	NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(7)|endometrium(9)|kidney(8)|large_intestine(33)|lung(38)|ovary(1)|pancreas(1)|prostate(3)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)	109		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)	Ocriplasmin(DB08888)	GTGTGCTGGTGCTGGTGGTGG	0.557																																																0													370	375	373					2																	216274676		2203	4300	6503	SO:0001583	missense	2335				CCDS2399.1, CCDS2400.1, CCDS42813.1, CCDS42814.1, CCDS46510.1, CCDS46512.1	2q34	2014-01-30			ENSG00000115414	ENSG00000115414		"Fibronectin type III domain containing", "Endogenous ligands"	3778	protein-coding gene	gene with protein product	"migration-stimulating factor", "cold-insoluble globulin"	135600				2992939, 3003095	Standard	NM_054034		Approved	MSF, CIG, LETS, GFND2, FINC	uc002vfa.3	P02751	OTTHUMG00000133054	ENST00000359671.1:c.2103C>A	2.37:g.216274676G>T	ENSP00000352696:p.Ser701Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLF0|E9PE77|E9PG29|O95609|O95610|Q14312|Q14325|Q14326|Q17RV7|Q564H7|Q585T2|Q59EH1|Q60FE4|Q68DP8|Q68DP9|Q68DT4|Q6LDP6|Q6MZS0|Q6MZU5|Q6N025|Q6N0A6|Q7Z391|Q86T27|Q8IVI8|Q96KP7|Q96KP8|Q96KP9|Q9H1B8|Q9HAP3|Q9UMK2	Missense_Mutation	SNP	ENST00000359671.1	37		.	.	.	.	.	.	.	.	.	.	G	11.17	1.559369	0.27827	.	.	ENSG00000115414	ENST00000421182;ENST00000323926;ENST00000336916;ENST00000357867;ENST00000354785;ENST00000265313;ENST00000359671;ENST00000346544;ENST00000345488;ENST00000357009;ENST00000446046;ENST00000443816;ENST00000432072;ENST00000356005	T;T;T;T;T;T;T;T;T;T;T;T;T	0.47869	0.83;2.19;2.35;0.92;2.42;2.05;2.4;2.07;2.37;2.08;1.58;0.9;1.49	5.65	3.84	0.44239	.	0.360826	0.30464	N	0.009573	T	0.56077	0.1961	L	0.44542	1.39	0.42852	D	0.994085	D;B;B;B;B;P;D;B;B;D	0.89917	1.0;0.353;0.17;0.17;0.106;0.533;0.998;0.17;0.17;0.987	D;P;B;B;B;B;P;B;B;P	0.87578	0.998;0.522;0.079;0.127;0.036;0.326;0.865;0.127;0.127;0.904	T	0.54549	-0.8277	10	0.40728	T	0.16	.	8.8981	0.35476	0.2229:0.0:0.7771:0.0	.	701;701;701;701;701;701;701;701;701;701	P02751-13;P02751-7;P02751-10;P02751-8;E9PE77;P02751-3;E7ERA1;P02751-9;P02751-14;P02751-15	.;.;.;.;.;.;.;.;.;.	R	701	ENSP00000394423:S701R;ENSP00000323534:S701R;ENSP00000338200:S701R;ENSP00000350534:S701R;ENSP00000346839:S701R;ENSP00000352696:S701R;ENSP00000265312:S701R;ENSP00000273049:S701R;ENSP00000349509:S701R;ENSP00000410422:S701R;ENSP00000415018:S701R;ENSP00000399538:S701R;ENSP00000348285:S701R	ENSP00000265313:S701R	S	-	3	2	FN1	215982921	1.000000	0.71417	0.896000	0.35187	0.102000	0.19082	1.257000	0.32932	1.531000	0.49152	-0.140000	0.14226	AGC		0.557	FN1-204	KNOWN	basic	protein_coding	protein_coding		NM_212476		T	216274676	G	T	216274676	3	4	612	1	0	0	0	0	1	0	0	0	5969	1310	46	4	5462	4	FN1	2	216274676	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	44568856	216274676	26924697	14	37266										
PDCD6IP	10015	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	33840351	33840351	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ccagtactgccgcgcggcggAggagctcagcaagctgcgcc	15	15	1	0			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr3:33840351A>C	ENST00000307296.3	+	1	508	c.131A>C	c.(130-132)gAg>gCg	p.E44A	RP11-10C24.3_ENST00000604982.1_lincRNA|PDCD6IP_ENST00000457054.2_Missense_Mutation_p.E44A|RP11-10C24.1_ENST00000605513.1_lincRNA			Q8WUM4	PDC6I_HUMAN	programmed cell death 6 interacting protein	44	BRO1. {ECO:0000255|PROSITE- ProRule:PRU00526}.				apoptotic process (GO:0006915)|cell cycle (GO:0007049)|cell division (GO:0051301)|protein transport (GO:0015031)|viral life cycle (GO:0019058)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|immunological synapse (GO:0001772)|membrane (GO:0016020)|vesicle (GO:0031982)	calcium-dependent protein binding (GO:0048306)|protein homodimerization activity (GO:0042803)			central_nervous_system(3)|endometrium(1)|kidney(2)|large_intestine(7)|lung(6)|ovary(2)|skin(1)|stomach(1)	23						CGCGCGGCGGAGGAGCTCAGC	0.692																																																0													10	11	11					3																	33840351		2139	4155	6294	SO:0001583	missense	10015			BC020066	CCDS2660.1, CCDS54561.1	3p22.3	2012-08-30	2001-11-29		ENSG00000170248	ENSG00000170248			8766	protein-coding gene	gene with protein product	"ALG-2 interacting protein X"	608074	"programmed cell death 6-interacting protein"			9880530	Standard	NM_001162429		Approved	Alix, AIP1, Hp95	uc003cfy.4	Q8WUM4	OTTHUMG00000130751	ENST00000307296.3:c.131A>C	3.37:g.33840351A>C	ENSP00000307387:p.Glu44Ala	Somatic		WXS	Illumina HiSeq	Phase_I	C5MQH7|E9PFU1|Q6NUS1|Q9BX86|Q9NUN0|Q9P2H2|Q9UKL5	Missense_Mutation	SNP	ENST00000307296.3	37	CCDS2660.1	.	.	.	.	.	.	.	.	.	.	A	15.41	2.824727	0.50739	.	.	ENSG00000170248	ENST00000307296;ENST00000457054;ENST00000413073	T;T;T	0.16324	2.35;2.35;2.35	5.03	5.03	0.67393	BRO1 domain (3);	0.048074	0.85682	D	0.000000	T	0.09202	0.0227	N	0.13299	0.325	0.80722	D	1	B;B;B	0.09022	0.002;0.002;0.001	B;B;B	0.11329	0.006;0.006;0.002	T	0.14364	-1.0475	10	0.08381	T	0.77	-21.2451	11.3154	0.49388	0.8641:0.0:0.0:0.1359	.	44;44;44	C5MQH7;E9PFU1;Q8WUM4	.;.;PDC6I_HUMAN	A	44	ENSP00000307387:E44A;ENSP00000411825:E44A;ENSP00000406693:E44A	ENSP00000307387:E44A	E	+	2	0	PDCD6IP	33815355	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	6.731000	0.74785	2.108000	0.64289	0.482000	0.46254	GAG		0.692	PDCD6IP-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000253251.2			C	33840351	A	C	33840351	3	2	612	1	0	0	0	0	1	0	0	0	11631	304	11	5	133	5	PDCD6IP	3	33840351	Missense_Mutation	SNP	A	TCGA-HE-A5NL-01A-11D-A26P-10		33840351	164182079	15	37267										
ARHGEF3	50650	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	56766301	56766301	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	tgaatgcccctcgcagggagCcacccagcctcacttctcca	8	18	2	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr3:56766301C>A	ENST00000296315.3	-	9	1361	c.1193G>T	c.(1192-1194)gGc>gTc	p.G398V	ARHGEF3_ENST00000413728.2_Missense_Mutation_p.G404V|ARHGEF3_ENST00000495373.1_Missense_Mutation_p.G398V|ARHGEF3_ENST00000338458.4_Missense_Mutation_p.G430V|ARHGEF3_ENST00000497267.1_Missense_Mutation_p.G369V|ARHGEF3_ENST00000496106.1_Missense_Mutation_p.G404V	NM_019555.2	NP_062455.1	Q9NR81	ARHG3_HUMAN	Rho guanine nucleotide exchange factor (GEF) 3	398	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of Rho GTPase activity (GO:0032321)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|intracellular (GO:0005622)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			cervix(1)|endometrium(3)|kidney(3)|large_intestine(4)|lung(11)|ovary(1)|prostate(1)|urinary_tract(1)	25				KIRC - Kidney renal clear cell carcinoma(284;0.0161)|Kidney(284;0.019)|OV - Ovarian serous cystadenocarcinoma(275;0.193)		TCGCAGGGAGCCACCCAGCCT	0.552																																																0													116	102	106					3																	56766301		2203	4300	6503	SO:0001583	missense	50650			AB209661	CCDS2878.1, CCDS46854.1, CCDS46855.1, CCDS74948.1	3p14.3	2012-09-20			ENSG00000163947	ENSG00000163947		"Rho guanine nucleotide exchange factors"	683	protein-coding gene	gene with protein product	"exchange factor found in platelets and leukemic and neuronal tissues, XPLN", "RhoGEF protein"	612115				10873612	Standard	NM_019555		Approved	STA3, XPLN, GEF3, DKFZP434F2429	uc003dih.2	Q9NR81	OTTHUMG00000158857	ENST00000296315.3:c.1193G>T	3.37:g.56766301C>A	ENSP00000296315:p.Gly398Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5U7|Q4FZB6|Q4QQI5|Q4QQQ0|Q59F00|Q6NUN3|Q7Z4U2|Q7Z5T2|Q9H7T4	Missense_Mutation	SNP	ENST00000296315.3	37	CCDS2878.1	.	.	.	.	.	.	.	.	.	.	C	32	5.120131	0.94385	.	.	ENSG00000163947	ENST00000296315;ENST00000338458;ENST00000413728;ENST00000496106;ENST00000497267;ENST00000495373	T;T;T;T;T;T	0.28666	1.88;1.79;1.8;1.8;1.82;1.6	5.83	5.83	0.93111	Pleckstrin homology-type (1);Pleckstrin homology domain (2);	0.000000	0.85682	D	0.000000	T	0.55016	0.1894	M	0.73962	2.25	0.80722	D	1	D;D;D;D;D;D;D	0.89917	1.0;0.998;0.999;1.0;0.999;0.998;0.999	D;D;D;D;D;D;D	0.79108	0.982;0.97;0.982;0.982;0.982;0.97;0.992	T	0.46871	-0.9160	10	0.09590	T	0.72	-7.7666	20.1218	0.97964	0.0:1.0:0.0:0.0	.	404;369;196;398;430;398;404	E9PG37;E7EU49;Q9NR81-4;C9J586;Q9NR81-2;Q9NR81;Q9NR81-3	.;.;.;.;.;ARHG3_HUMAN;.	V	398;430;404;404;369;398	ENSP00000296315:G398V;ENSP00000341071:G430V;ENSP00000410922:G404V;ENSP00000420420:G404V;ENSP00000418826:G369V;ENSP00000417986:G398V	ENSP00000296315:G398V	G	-	2	0	ARHGEF3	56741341	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.818000	0.86416	2.763000	0.94921	0.561000	0.74099	GGC		0.552	ARHGEF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352431.2	NM_019555		A	56766301	C	A	56766301	3	1	612	1	0	0	0	0	1	0	0	0	904	739	26	4	395	4	ARHGEF3	3	56766301	Missense_Mutation	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	22925950	56766301	141256129	16	37268										
MED12L	116931	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	150877786	150877786	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	atcggggcccccagccctggCccccccggccctggcatgag	13	20	0	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr3:150877786C>T	ENST00000474524.1	+	7	1043	c.1005C>T	c.(1003-1005)ggC>ggT	p.G335G	MED12L_ENST00000309237.4_Silent_p.G335G|MED12L_ENST00000422248.2_Silent_p.G335G|MED12L_ENST00000273432.4_Intron	NM_053002.4	NP_443728.3	Q86YW9	MD12L_HUMAN	mediator complex subunit 12-like	335						mediator complex (GO:0016592)	RNA polymerase II transcription cofactor activity (GO:0001104)			NS(1)|breast(3)|central_nervous_system(3)|cervix(2)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(27)|lung(50)|ovary(6)|prostate(3)|skin(4)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	128			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CCAGCCCTGGCCCCCCCGGCC	0.582																																																0													83	94	90					3																	150877786		2203	4300	6503	SO:0001819	synonymous_variant	116931			AB046855, AF388364	CCDS33876.1	3q25.1	2007-07-30	2007-07-30		ENSG00000144893	ENSG00000144893			16050	protein-coding gene	gene with protein product		611318	"mediator of RNA polymerase II transcription, subunit 12 homolog (S. cerevisiae)-like"			11524702	Standard	XM_006713487		Approved	KIAA1635, TNRC11L, TRALPUSH, TRALP	uc003eyp.3	Q86YW9	OTTHUMG00000159844	ENST00000474524.1:c.1005C>T	3.37:g.150877786C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q96PC7|Q96PC8|Q9H9M5|Q9HCD7|Q9UI69	Silent	SNP	ENST00000474524.1	37	CCDS33876.1																																																																																				0.582	MED12L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357707.2	NM_053002		T	150877786	C	T	150877786	2	4	612	1	0	0	0	0	0	0	0	1	9436	726	26	2		2	MED12L	3	150877786	Silent	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	94111485	150877786	47144644	17	37269										
SPON2	10417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	1164263	1164263	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gggatgaaggccctggggctCtgtcgcagccgcaccagtgt	16	12	1	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr4:1164263C>A	ENST00000290902.5	-	5	1070	c.738G>T	c.(736-738)caG>caT	p.Q246H	SPON2_ENST00000431380.1_Missense_Mutation_p.Q246H|RP11-20I20.4_ENST00000609548.1_RNA	NM_012445.3	NP_036577	Q9BUD6	SPON2_HUMAN	spondin 2, extracellular matrix protein	246					axon guidance (GO:0007411)|cell adhesion (GO:0007155)|innate immune response (GO:0045087)	extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)	metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(2)|pancreas(1)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(23;0.00805)	UCEC - Uterine corpus endometrioid carcinoma (64;0.139)|Colorectal(103;0.19)		CCCTGGGGCTCTGTCGCAGCC	0.637																																																0													104	102	103					4																	1164263		2203	4300	6503	SO:0001583	missense	10417			AB027466	CCDS3347.1	4p16.3	2008-07-29			ENSG00000159674	ENSG00000159674			11253	protein-coding gene	gene with protein product	"Mindin", "M-spondin"	605918				10512675, 15094111	Standard	NM_012445		Approved	DIL1	uc003gco.4	Q9BUD6	OTTHUMG00000089002	ENST00000290902.5:c.738G>T	4.37:g.1164263C>A	ENSP00000290902:p.Gln246His	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVN9|Q4W5N4|Q9ULW1	Missense_Mutation	SNP	ENST00000290902.5	37	CCDS3347.1	.	.	.	.	.	.	.	.	.	.	C	4.701	0.130282	0.08981	.	.	ENSG00000159674	ENST00000290902;ENST00000431380	T;T	0.10005	2.92;2.92	4.73	0.866	0.19079	.	0.275166	0.40640	N	0.001054	T	0.10465	0.0256	M	0.62723	1.935	0.09310	N	1	B;B	0.06786	0.0;0.001	B;B	0.01281	0.0;0.0	T	0.20773	-1.0265	10	0.48119	T	0.1	.	5.9277	0.19122	0.0:0.4937:0.254:0.2523	.	246;246	D3DVN9;Q9BUD6	.;SPON2_HUMAN	H	246	ENSP00000290902:Q246H;ENSP00000394832:Q246H	ENSP00000290902:Q246H	Q	-	3	2	SPON2	1154263	0.003000	0.15002	0.455000	0.27031	0.047000	0.14425	-0.195000	0.09546	0.077000	0.16863	0.603000	0.83216	CAG		0.637	SPON2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000202080.2			A	1164263	C	A	1164263	3	1	612	1	0	0	0	0	1	0	0	0	15095	912	32	4	265	4	SPON2	4	1164263	Missense_Mutation	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10		1164263	189990013	18	37270										
SEL1L3	23231	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	25819805	25819806	+	Frame_Shift_Ins	INS	-	-	T													0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gcctggaacaagctggggtgINStttgtctttcagctccttct							TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr4:25819805_25819806insT	ENST00000399878.3	-	9	1640_1641	c.1518_1519insA	c.(1516-1521)aaacacfs	p.H507fs	SEL1L3_ENST00000502949.1_Frame_Shift_Ins_p.H354fs|SEL1L3_ENST00000264868.5_Frame_Shift_Ins_p.H472fs	NM_015187.3	NP_056002.2	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3 (C. elegans)	507						integral component of membrane (GO:0016021)				breast(1)|endometrium(1)|kidney(2)|large_intestine(1)|lung(6)|prostate(1)|urinary_tract(2)	14						AAGCTGGGGTGTTTGTCTTTCA	0.55																																																0																																										SO:0001589	frameshift_variant	23231			BC009945	CCDS47037.1, CCDS75113.1	4p15.2	2009-09-24			ENSG00000091490	ENSG00000091490			29108	protein-coding gene	gene with protein product	"KIAA0746 protein"					9872452	Standard	XM_005248143		Approved	KIAA0746	uc003gru.4	Q68CR1	OTTHUMG00000160331	ENST00000399878.3:c.1519dupA	4.37:g.25819808_25819808dupT	ENSP00000382767:p.His507fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJH6|A8K0X2|O94847|Q6P999|Q96G59	Frame_Shift_Ins	INS	ENST00000399878.3	37	CCDS47037.1																																																																																				0.55	SEL1L3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360261.1	NM_015187		T	25819806	-	T	25819805	7	5	612	1	0	1	1	0	0	0	0	0	14025	1377	48	0	1943	0	SEL1L3	4	25819805	Frame_Shift_Ins	INS	-	TCGA-HE-A5NL-01A-11D-A26P-10	24655542	25819805	165334471	19	37271										
KLB	152831	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	39435931	39435931	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	cattggatcgagccaaaccgGtcggaaaacacgatggatat	11	9	0	0			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr4:39435931G>T	ENST00000257408.4	+	2	1024	c.927G>T	c.(925-927)cgG>cgT	p.R309R		NM_175737.3	NP_783864.1	Q86Z14	KLOTB_HUMAN	klotho beta	309	Glycosyl hydrolase-1 1.				carbohydrate metabolic process (GO:0005975)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell proliferation (GO:0008284)|positive regulation of MAPKKK cascade by fibroblast growth factor receptor signaling pathway (GO:0090080)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	fibroblast growth factor binding (GO:0017134)|hydrolase activity, hydrolyzing O-glycosyl compounds (GO:0004553)			NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(11)|skin(6)	29						AGCCAAACCGGTCGGAAAACA	0.473																																																0													118	101	107					4																	39435931		2203	4300	6503	SO:0001819	synonymous_variant	152831			AB079373	CCDS3451.1	4p14	2008-02-05			ENSG00000134962	ENSG00000134962			15527	protein-coding gene	gene with protein product		611135					Standard	NM_175737		Approved		uc003gua.3	Q86Z14	OTTHUMG00000128577	ENST00000257408.4:c.927G>T	4.37:g.39435931G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3K8	Silent	SNP	ENST00000257408.4	37	CCDS3451.1																																																																																				0.473	KLB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250429.1	NM_175737		T	39435931	G	T	39435931	2	4	612	1	0	0	0	0	0	0	0	1	8339	1248	44	4		4	KLB	4	39435931	Silent	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	13616126	39435931	151718345	20	37272										
GABRG1	2565	hgsc.bcm.edu;bcgsc.ca	37	chr4	46043272	46043272	+	Splice_Site	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ggatggagaccaggagtcatCtgagcacaataataaatgaa	11	6	2	3			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr4:46043272C>T	ENST00000295452.4	-	9	1299		c.e9-1			NM_173536.3	NP_775807.2	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma 1						gamma-aminobutyric acid signaling pathway (GO:0007214)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|postsynaptic membrane (GO:0045211)|receptor complex (GO:0043235)	chloride channel activity (GO:0005254)|extracellular ligand-gated ion channel activity (GO:0005230)|GABA-A receptor activity (GO:0004890)			breast(2)|central_nervous_system(5)|endometrium(3)|kidney(4)|large_intestine(11)|liver(1)|lung(37)|ovary(2)|prostate(5)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	76				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)	Acamprosate(DB00659)|Adinazolam(DB00546)|Alprazolam(DB00404)|Amoxapine(DB00543)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Chlordiazepoxide(DB00475)|Cinolazepam(DB01594)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Clotiazepam(DB01559)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Fludiazepam(DB01567)|Flumazenil(DB01205)|Flurazepam(DB00690)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Isoflurane(DB00753)|Ketazolam(DB01587)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Topiramate(DB00273)|Triazolam(DB00897)	CAGGAGTCATCTGAGCACAAT	0.388																																																0													44	46	45					4																	46043272		2203	4297	6500	SO:0001630	splice_region_variant	2565			BC031087	CCDS3470.1	4p12	2012-06-22			ENSG00000163285	ENSG00000163285		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4086	protein-coding gene	gene with protein product	"GABA(A) receptor, gamma"	137166				1321425	Standard	NM_173536		Approved		uc003gxb.3	Q8N1C3	OTTHUMG00000128609	ENST00000295452.4:c.1132-1G>A	4.37:g.46043272C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5H9T8	Splice_Site	SNP	ENST00000295452.4	37	CCDS3470.1	.	.	.	.	.	.	.	.	.	.	C	10.91	1.483181	0.26598	.	.	ENSG00000163285	ENST00000295452;ENST00000540030	.	.	.	5.22	5.22	0.72569	.	.	.	.	.	.	.	.	.	.	.	0.36548	D	0.871662	.	.	.	.	.	.	.	.	.	.	.	.	.	.	9.8364	0.40971	0.0:0.9066:0.0:0.0934	.	.	.	.	.	-1	.	.	.	-	.	.	GABRG1	45738029	0.279000	0.24239	0.267000	0.24556	0.006000	0.05464	1.471000	0.35365	2.436000	0.82500	0.585000	0.79938	.		0.388	GABRG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250470.1	NM_173536	Intron	T	46043272	C	T	46043272	5	4	612	1	0	0	0	0	0	0	1	0	6178	927	32	2	270	2	GABRG1	4	46043272	Splice_Site	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	6607341	46043272	145111004	21	37273										
G3BP2	9908	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	76570830	76570830	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ctggtttctcgctctcttgcAgctcttgtttttttctcttc	6	12	4	0			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr4:76570830A>T	ENST00000359707.4	-	12	2018	c.1233T>A	c.(1231-1233)gcT>gcA	p.A411A	G3BP2_ENST00000395719.3_Silent_p.A411A|G3BP2_ENST00000357854.3_Silent_p.A378A	NM_203505.2	NP_987101.1	Q9UN86	G3BP2_HUMAN	GTPase activating protein (SH3 domain) binding protein 2	411					cytoplasmic sequestering of NF-kappaB (GO:0007253)|mRNA transport (GO:0051028)|Ras protein signal transduction (GO:0007265)	cytoplasm (GO:0005737)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|receptor signaling complex scaffold activity (GO:0030159)			breast(3)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(6)|upper_aerodigestive_tract(3)|urinary_tract(2)	27			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			GCTCTCTTGCAGCTCTTGTTT	0.453																																																0													226	187	200					4																	76570830		2203	4300	6503	SO:0001819	synonymous_variant	9908			AB014560	CCDS3571.1, CCDS3572.1	4q21.1	2013-02-12	2006-11-01		ENSG00000138757	ENSG00000138757		"RNA binding motif (RRM) containing"	30291	protein-coding gene	gene with protein product	"Ras-GTPase activating protein SH3 domain-binding protein 2"					9734811, 9575347	Standard	NM_203504		Approved	KIAA0660	uc003his.3	Q9UN86	OTTHUMG00000130097	ENST00000359707.4:c.1233T>A	4.37:g.76570830A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6X1|O60606|O75149|Q9UPA1	Silent	SNP	ENST00000359707.4	37	CCDS3571.1																																																																																				0.453	G3BP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252399.2	NM_012297		T	76570830	A	T	76570830	2	4	612	1	0	0	0	0	0	0	0	1	6149	175	7	5		5	G3BP2	4	76570830	Silent	SNP	A	TCGA-HE-A5NL-01A-11D-A26P-10	30527558	76570830	114583446	22	37274										
ARHGAP24	83478	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	86916564	86916564	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	agagcaagacttttttggggGgaactttgaggaccctgttt	13	6	0	3			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr4:86916564G>A	ENST00000395184.1	+	9	2223	c.1757G>A	c.(1756-1758)gGg>gAg	p.G586E	ARHGAP24_ENST00000395183.2_Missense_Mutation_p.G491E|ARHGAP24_ENST00000264343.4_Missense_Mutation_p.G493E	NM_001025616.2	NP_001020787.2	Q8N264	RHG24_HUMAN	Rho GTPase activating protein 24	586					activation of Rac GTPase activity (GO:0032863)|angiogenesis (GO:0001525)|cell differentiation (GO:0030154)|negative regulation of Rac protein signal transduction (GO:0035021)|negative regulation of ruffle assembly (GO:1900028)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|wound healing, spreading of epidermal cells (GO:0035313)	cell projection (GO:0042995)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|focal adhesion (GO:0005925)	Rac GTPase activator activity (GO:0030675)			breast(3)|cervix(1)|endometrium(3)|large_intestine(4)|lung(10)|skin(1)|stomach(1)|urinary_tract(1)	24		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)		TTTTTTGGGGGGAACTTTGAG	0.562																																																0													71	74	73					4																	86916564		2203	4300	6503	SO:0001583	missense	83478			AK091196	CCDS3611.1, CCDS34025.1, CCDS43246.1	4q22.1	2013-01-10			ENSG00000138639	ENSG00000138639		"Rho GTPase activating proteins", "Pleckstrin homology (PH) domain containing"	25361	protein-coding gene	gene with protein product		610586				11230166, 15254788	Standard	NM_001042669		Approved	DKFZP564B1162, FLJ33877, FilGAP	uc003hpk.3	Q8N264	OTTHUMG00000130427	ENST00000395184.1:c.1757G>A	4.37:g.86916564G>A	ENSP00000378611:p.Gly586Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q4KMG1|Q6ZNV3|Q86TI5|Q86WE4|Q9H0T6	Missense_Mutation	SNP	ENST00000395184.1	37	CCDS34025.1	.	.	.	.	.	.	.	.	.	.	G	13.10	2.135263	0.37728	.	.	ENSG00000138639	ENST00000395184;ENST00000395183;ENST00000514229;ENST00000264343	T;T;T;T	0.14144	2.88;2.54;2.53;2.53	5.73	4.85	0.62838	.	0.101205	0.64402	D	0.000002	T	0.17662	0.0424	L	0.60455	1.87	0.48830	D	0.999715	B;B;P	0.50066	0.086;0.04;0.931	B;B;B	0.44224	0.035;0.01;0.444	T	0.07252	-1.0782	10	0.10377	T	0.69	.	18.1969	0.89825	0.0:0.1889:0.8111:0.0	.	491;493;586	Q8N264-3;Q8N264-2;Q8N264	.;.;RHG24_HUMAN	E	586;491;501;493	ENSP00000378611:G586E;ENSP00000378610:G491E;ENSP00000425589:G501E;ENSP00000264343:G493E	ENSP00000264343:G493E	G	+	2	0	ARHGAP24	87135588	1.000000	0.71417	0.996000	0.52242	0.983000	0.72400	5.010000	0.64004	2.710000	0.92621	0.491000	0.48974	GGG		0.562	ARHGAP24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252815.2	NM_031305		A	86916564	G	A	86916564	3	1	612	1	0	0	0	0	1	0	0	0	873	1232	43	2	1903	2	ARHGAP24	4	86916564	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	10345734	86916564	104237712	23	37275										
FAT4	79633	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	126239108	126239108	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gctaatctgcgttacagcatTgtctctggcaatggactggg	12	9	2	0			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr4:126239108T>C	ENST00000394329.3	+	1	1555	c.1542T>C	c.(1540-1542)atT>atC	p.I514I		NM_024582.4	NP_078858.4	Q6V0I7	FAT4_HUMAN	FAT atypical cadherin 4	514	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				branching involved in ureteric bud morphogenesis (GO:0001658)|cerebral cortex development (GO:0021987)|digestive tract development (GO:0048565)|heart morphogenesis (GO:0003007)|heterophilic cell-cell adhesion (GO:0007157)|hippo signaling (GO:0035329)|homophilic cell adhesion (GO:0007156)|inner ear receptor stereocilium organization (GO:0060122)|neurogenesis (GO:0022008)|ossification involved in bone maturation (GO:0043931)|plasma membrane organization (GO:0007009)|regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072307)	apical part of cell (GO:0045177)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(6)|autonomic_ganglia(1)|breast(4)|central_nervous_system(3)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(3)|kidney(10)|large_intestine(93)|liver(3)|lung(120)|ovary(9)|pancreas(2)|prostate(21)|skin(31)|stomach(1)|upper_aerodigestive_tract(12)|urinary_tract(6)	355						GTTACAGCATTGTCTCTGGCA	0.562											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													63	65	65					4																	126239108		2203	4300	6503	SO:0001819	synonymous_variant	79633			AY356402	CCDS3732.3	4q28.1	2013-05-31	2013-05-31		ENSG00000196159	ENSG00000196159		"Cadherins / Cadherin-related"	23109	protein-coding gene	gene with protein product	"cadherin-related family member 11"	612411	"FAT tumor suppressor homolog 4 (Drosophila)"			15003449	Standard	NM_024582		Approved	CDHF14, FAT-J, CDHR11	uc003ifj.4	Q6V0I7	OTTHUMG00000133100	ENST00000394329.3:c.1542T>C	4.37:g.126239108T>C		Somatic	1548	WXS	Illumina HiSeq	Phase_I	A8K5Z6|B5MDG4|Q3LIA6|Q8TCK7|Q9H5T6	Silent	SNP	ENST00000394329.3	37	CCDS3732.3																																																																																				0.562	FAT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256765.2	NM_024582		C	126239108	T	C	126239108	2	2	612	1	0	0	0	0	0	0	0	1	5699	1800	63	3		3	FAT4	4	126239108	Silent	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10	39322544	126239108	64915168	24	37276										
HAND2	9464	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	174450317	174450317	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gatgagccagccatggaagtAggggttctcctcatggctgc	14	10	2	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr4:174450317A>T	ENST00000359562.4	-	1	1063	c.124T>A	c.(124-126)Tac>Aac	p.Y42N	HAND2-AS1_ENST00000510221.1_RNA|HAND2-AS1_ENST00000507062.1_RNA|HAND2-AS1_ENST00000512929.1_RNA|HAND2-AS1_ENST00000503198.1_RNA|HAND2-AS1_ENST00000502896.1_RNA|HAND2-AS1_ENST00000515350.1_RNA|HAND2-AS1_ENST00000508534.1_RNA|HAND2-AS1_ENST00000507636.1_RNA|HAND2-AS1_ENST00000507571.1_RNA|HAND2-AS1_ENST00000504740.1_RNA|HAND2-AS1_ENST00000505817.1_RNA|HAND2-AS1_ENST00000515310.1_RNA|HAND2-AS1_ENST00000511196.1_RNA|HAND2-AS1_ENST00000503309.1_RNA|HAND2-AS1_ENST00000510268.1_RNA|HAND2-AS1_ENST00000509640.1_RNA|HAND2-AS1_ENST00000514673.1_RNA|HAND2-AS1_ENST00000512943.1_RNA|HAND2-AS1_ENST00000515376.1_RNA|HAND2-AS1_ENST00000505621.1_RNA|HAND2-AS1_ENST00000512246.1_RNA|HAND2-AS1_ENST00000502334.1_RNA|HAND2-AS1_ENST00000510339.1_RNA|HAND2-AS1_ENST00000503474.1_RNA|HAND2-AS1_ENST00000507322.1_RNA|HAND2-AS1_ENST00000515741.1_RNA|HAND2-AS1_ENST00000502941.1_RNA|HAND2-AS1_ENST00000515345.1_RNA|HAND2-AS1_ENST00000504429.1_RNA|HAND2-AS1_ENST00000514431.1_RNA|HAND2-AS1_ENST00000509866.1_RNA|HAND2-AS1_ENST00000505032.1_RNA|HAND2-AS1_ENST00000512099.1_RNA|HAND2-AS1_ENST00000508887.1_RNA|HAND2-AS1_ENST00000512209.2_RNA|HAND2-AS1_ENST00000511728.1_RNA|HAND2_ENST00000505300.1_5'UTR	NM_021973.2	NP_068808.1	P61296	HAND2_HUMAN	heart and neural crest derivatives expressed 2	42					adult heart development (GO:0007512)|angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|apoptotic process involved in heart morphogenesis (GO:0003278)|cardiac neural crest cell development involved in outflow tract morphogenesis (GO:0061309)|cardiac neural crest cell migration involved in outflow tract morphogenesis (GO:0003253)|cardiac right ventricle formation (GO:0003219)|cartilage morphogenesis (GO:0060536)|cell proliferation involved in outflow tract morphogenesis (GO:0061325)|coronary artery morphogenesis (GO:0060982)|embryonic digit morphogenesis (GO:0042733)|heart development (GO:0007507)|heart looping (GO:0001947)|heart morphogenesis (GO:0003007)|in utero embryonic development (GO:0001701)|mesenchymal cell proliferation (GO:0010463)|negative regulation of cardiac muscle cell apoptotic process (GO:0010667)|negative regulation of DNA binding (GO:0043392)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|neural crest cell development (GO:0014032)|noradrenergic neuron differentiation (GO:0003357)|odontogenesis of dentin-containing tooth (GO:0042475)|palate development (GO:0060021)|peripheral nervous system neuron development (GO:0048935)|positive regulation of semaphorin-plexin signaling pathway involved in outflow tract morphogenesis (GO:2000764)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription from RNA polymerase II promoter involved in norepinephrine biosynthetic process (GO:2000763)|positive regulation of transcription regulatory region DNA binding (GO:2000679)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of secondary heart field cardioblast proliferation (GO:0003266)|regulation of transcription, DNA-templated (GO:0006355)|suckling behavior (GO:0001967)|sympathetic nervous system development (GO:0048485)|thymus development (GO:0048538)|tongue development (GO:0043586)|visceral serous pericardium development (GO:0061032)	nuclear chromatin (GO:0000790)|protein complex (GO:0043234)|transcription factor complex (GO:0005667)	activating transcription factor binding (GO:0033613)|AT DNA binding (GO:0003680)|E-box binding (GO:0070888)|protein homodimerization activity (GO:0042803)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)			endometrium(1)|large_intestine(4)|lung(6)|prostate(1)|skin(1)	13		Prostate(90;0.00601)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_neural(102;0.0837)|all_hematologic(60;0.107)		all cancers(43;1.37e-18)|Epithelial(43;5.5e-17)|OV - Ovarian serous cystadenocarcinoma(60;3.3e-10)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		CCATGGAAGTAGGGGTTCTCC	0.726																																																0													5	6	6					4																	174450317		1939	3897	5836	SO:0001583	missense	9464			AF087941	CCDS3819.1	4q34.1	2014-08-12			ENSG00000164107	ENSG00000164107		"Basic helix-loop-helix proteins"	4808	protein-coding gene	gene with protein product		602407				9878849	Standard	NM_021973		Approved	dHand, Thing2, Hed, bHLHa26	uc003ith.1	P61296	OTTHUMG00000160775	ENST00000359562.4:c.124T>A	4.37:g.174450317A>T	ENSP00000352565:p.Tyr42Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B6ECG9|O95300|O95301|P97833|Q494T1	Missense_Mutation	SNP	ENST00000359562.4	37	CCDS3819.1	.	.	.	.	.	.	.	.	.	.	A	18.74	3.688940	0.68271	.	.	ENSG00000164107	ENST00000359562;ENST00000393686	D	0.97066	-4.23	3.57	3.57	0.40892	.	0.281047	0.34178	N	0.004194	D	0.96078	0.8722	L	0.38175	1.15	0.58432	D	0.999995	D;D;D	0.63046	0.992;0.992;0.986	P;P;P	0.57204	0.815;0.815;0.701	D	0.94998	0.8140	10	0.39692	T	0.17	-0.0407	12.291	0.54819	1.0:0.0:0.0:0.0	.	42;42;42	B6ECG9;P61296;E9PCP7	.;HAND2_HUMAN;.	N	42	ENSP00000352565:Y42N	ENSP00000352565:Y42N	Y	-	1	0	HAND2	174686892	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	5.391000	0.66266	1.491000	0.48482	0.379000	0.24179	TAC		0.726	HAND2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362241.3			T	174450317	A	T	174450317	3	4	612	1	0	0	0	0	1	0	0	0	6957	420	15	5	537	5	HAND2	4	174450317	Missense_Mutation	SNP	A	TCGA-HE-A5NL-01A-11D-A26P-10	48211209	174450317	16703959	25	37277										
WDR17	116966	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	177056301	177056301	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	actgcaaattcaaacctgacGatcctaatcttttagcaaca	4	11	2	1	rs140987021		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr4:177056301G>A	ENST00000280190.4	+	9	1369	c.1213G>A	c.(1213-1215)Gat>Aat	p.D405N	WDR17_ENST00000507824.2_Missense_Mutation_p.D388N|WDR17_ENST00000393643.2_Missense_Mutation_p.D381N|WDR17_ENST00000508596.1_Missense_Mutation_p.D381N			Q8IZU2	WDR17_HUMAN	WD repeat domain 17	405										breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(18)|lung(46)|ovary(2)|pancreas(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(6)|urinary_tract(1)	92		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)		CAAACCTGACGATCCTAATCT	0.353																																																0								G	ASN/ASP,ASN/ASP	0,4406		0,0,2203	121	122	122		1213,1141	2.4	1	4	dbSNP_134	122	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense	WDR17	NM_170710.4,NM_181265.3	23,23	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	benign,benign	405/1323,381/1284	177056301	1,13005	2203	4300	6503	SO:0001583	missense	116966			AF492460	CCDS3825.1, CCDS43284.1, CCDS43284.2	4q34	2013-01-09			ENSG00000150627	ENSG00000150627		"WD repeat domain containing"	16661	protein-coding gene	gene with protein product		609005				12401215	Standard	NM_170710		Approved		uc003iuj.3	Q8IZU2	OTTHUMG00000160791	ENST00000280190.4:c.1213G>A	4.37:g.177056301G>A	ENSP00000280190:p.Asp405Asn	Somatic		WXS	Illumina HiSeq	Phase_I	E7EQX0|Q0QD35	Missense_Mutation	SNP	ENST00000280190.4	37	CCDS3825.1	.	.	.	.	.	.	.	.	.	.	G	10.35	1.326502	0.24080	0.0	1.16E-4	ENSG00000150627	ENST00000508596;ENST00000393643;ENST00000280190;ENST00000507824	T;T;T	0.58652	0.35;3.58;0.32	5.5	2.42	0.29668	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (2);WD40-repeat-containing domain (1);	0.265065	0.38164	N	0.001790	T	0.30324	0.0761	N	0.13198	0.31	0.48571	D	0.999678	B;B	0.19445	0.036;0.036	B;B	0.18871	0.023;0.023	T	0.15150	-1.0447	10	0.05525	T	0.97	-17.5458	6.7154	0.23300	0.433:0.0:0.567:0.0	.	381;405	E7EQX0;Q8IZU2	.;WDR17_HUMAN	N	381;381;405;388	ENSP00000422763:D381N;ENSP00000377258:D381N;ENSP00000280190:D405N	ENSP00000280190:D405N	D	+	1	0	WDR17	177293295	1.000000	0.71417	0.998000	0.56505	0.740000	0.42216	3.339000	0.52135	0.703000	0.31848	0.650000	0.86243	GAT		0.353	WDR17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362334.2			A	177056301	G	A	177056301	3	1	612	1	0	0	0	0	1	0	0	0	17289	1058	37	1	1243	1	WDR17	4	177056301	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	2605984	177056301	14097975	26	37278										
CENPK	64105	broad.mit.edu;bcgsc.ca	37	chr5	64824334	64824341	+	Frame_Shift_Del	DEL	CCCAAGGT	CCCAAGGT	-													0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	aatggtcttctagaaactcgCccaaggtactcaagagtttc							TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	CCCAAGGT	CCCAAGGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr5:64824334_64824341delCCCAAGGT	ENST00000396679.1	-	9	749_756	c.535_542delACCTTGGG	c.(535-543)accttgggcfs	p.TLG179fs	CENPK_ENST00000242872.3_Frame_Shift_Del_p.TLG179fs|CENPK_ENST00000508421.1_Frame_Shift_Del_p.TLG149fs|CENPK_ENST00000510693.1_Frame_Shift_Del_p.TLG116fs|CENPK_ENST00000514814.1_Frame_Shift_Del_p.TLG179fs|CENPK_ENST00000506282.2_5'UTR	NM_022145.4	NP_071428.2	Q9BS16	CENPK_HUMAN	centromere protein K	179					CENP-A containing nucleosome assembly (GO:0034080)|mitotic cell cycle (GO:0000278)|nucleosome assembly (GO:0006334)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	cytosol (GO:0005829)|kinetochore (GO:0000776)|nucleoplasm (GO:0005654)				breast(1)|endometrium(1)|large_intestine(3)|lung(5)	10		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		Lung(70;0.00466)		TAGAAACTCGCCCAAGGTACTCAAGAGT	0.264																																																0																																										SO:0001589	frameshift_variant	64105			BC008504	CCDS3984.1	5q12.3	2013-11-05			ENSG00000123219	ENSG00000123219			29479	protein-coding gene	gene with protein product		611502				8950979	Standard	NM_022145		Approved	FKSG14, SOLT, CENP-K	uc003jtu.3	Q9BS16	OTTHUMG00000131227	ENST00000396679.1:c.535_542delACCTTGGG	5.37:g.64824334_64824341delCCCAAGGT	ENSP00000379911:p.Thr179fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H4L0	Frame_Shift_Del	DEL	ENST00000396679.1	37	CCDS3984.1																																																																																				0.264	CENPK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253971.2	NM_022145		-	64824341	CCCAAGGT	-	64824334	7	5	612	1	0	1	0	1	0	0	0	0	3237	739	26	0	279	0	CENPK	5	64824334	Frame_Shift_Del	DEL	CCCAAGGT	TCGA-HE-A5NL-01A-11D-A26P-10		64824334	116090926	27	37279										
RGMB	285704	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	98115590	98115591	+	Frame_Shift_Del	DEL	GG	GG	-													0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	tcacagccacgctggagccaGggaacacaggagaggggacc							TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr5:98115590_98115591delGG	ENST00000513185.1	+	2	879_880	c.443_444delGG	c.(442-444)aggfs	p.R148fs	RGMB_ENST00000308234.7_Frame_Shift_Del_p.R189fs|RGMB_ENST00000504776.1_3'UTR			Q6NW40	RGMB_HUMAN	repulsive guidance molecule family member b	148					axon guidance (GO:0007411)|BMP signaling pathway (GO:0030509)|cell adhesion (GO:0007155)|positive regulation of transcription, DNA-templated (GO:0045893)|signal transduction (GO:0007165)	anchored component of plasma membrane (GO:0046658)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)	identical protein binding (GO:0042802)			haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(2)|upper_aerodigestive_tract(1)	10		all_cancers(142;2.76e-08)|all_epithelial(76;2.98e-11)|all_lung(232;0.000485)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0587)		GCTGGAGCCAGGGAACACAGGA	0.51																																																0																																										SO:0001589	frameshift_variant	285704			AK074887	CCDS47251.1	5q21.1	2013-11-06	2013-11-06		ENSG00000174136	ENSG00000174136			26896	protein-coding gene	gene with protein product		612687	"RGM domain family, member B"			19324014	Standard	NM_001012761		Approved	FLJ90406, DRAGON	uc003knc.3	Q6NW40	OTTHUMG00000162745	ENST00000513185.1:c.443_444delGG	5.37:g.98115590_98115591delGG	ENSP00000423256:p.Arg148fs	Somatic		WXS	Illumina HiSeq	Phase_I	D6R9A0|Q8NC92	Frame_Shift_Del	DEL	ENST00000513185.1	37																																																																																					0.51	RGMB-003	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000370308.1	NM_173670		-	98115591	GG	-	98115590	7	5	612	1	0	1	0	1	0	0	0	0	13294	1000	35	0	576	0	RGMB	5	98115590	Frame_Shift_Del	DEL	GG	TCGA-HE-A5NL-01A-11D-A26P-10	33291256	98115590	82799670	28	37280										
ANKHD1	54882	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	139876316	139876316	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	aacaaagataagatagaagaActtaaaaagaacagagaaga	8	3	0	7			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr5:139876316A>G	ENST00000360839.2	+	15	2611	c.2457A>G	c.(2455-2457)gaA>gaG	p.E819E	ANKHD1-EIF4EBP3_ENST00000532219.1_Silent_p.E819E|ANKHD1_ENST00000297183.6_Silent_p.E819E|ANKHD1_ENST00000462121.1_3'UTR	NM_017747.2	NP_060217.1	Q8IWZ3	ANKH1_HUMAN	ankyrin repeat and KH domain containing 1	819						cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			breast(2)|endometrium(8)|kidney(6)|large_intestine(14)|lung(18)|ovary(5)|prostate(2)|skin(3)|urinary_tract(2)	60			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGATAGAAGAACTTAAAAAGA	0.368																																																0													69	73	71					5																	139876316		2203	4300	6503	SO:0001819	synonymous_variant	54882			AF521882	CCDS4225.1, CCDS43371.1, CCDS43372.1, CCDS75319.1	5q31.3	2013-01-10			ENSG00000131503	ENSG00000131503		"Ankyrin repeat domain containing"	24714	protein-coding gene	gene with protein product		610500				10470851, 11230166, 16098192	Standard	NM_017747		Approved	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085		Q8IWZ3	OTTHUMG00000161610	ENST00000360839.2:c.2457A>G	5.37:g.139876316A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NH85|Q149P2|Q8IWZ2|Q8WY90|Q96G77|Q96GK0|Q9H2U0|Q9HA95|Q9NWG4|Q9UPR7	Silent	SNP	ENST00000360839.2	37	CCDS4225.1																																																																																				0.368	ANKHD1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000251672.1	NM_017747		G	139876316	A	G	139876316	2	3	612	1	0	0	0	0	0	0	0	1	628	40	2	3		3	ANKHD1	5	139876316	Silent	SNP	A	TCGA-HE-A5NL-01A-11D-A26P-10	41760726	139876316	41038944	29	37281										
FAT2	2196	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	150921871	150921871	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	atgtagcaggtgacctgcctGttctgctcagaaatgtcagc	11	10	3	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr5:150921871G>T	ENST00000261800.5	-	9	8829	c.8817C>A	c.(8815-8817)aaC>aaA	p.N2939K		NM_001447.2	NP_001438.1	Q9NYQ8	FAT2_HUMAN	FAT atypical cadherin 2	2939	Cadherin 26. {ECO:0000255|PROSITE- ProRule:PRU00043}.				epithelial cell migration (GO:0010631)|homophilic cell adhesion (GO:0007156)	cell-cell adherens junction (GO:0005913)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(6)|breast(3)|central_nervous_system(3)|cervix(5)|endometrium(15)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(61)|liver(1)|lung(60)|ovary(6)|prostate(5)|skin(5)|stomach(2)|upper_aerodigestive_tract(11)|urinary_tract(1)	196		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGACCTGCCTGTTCTGCTCAG	0.502																																																0													127	121	123					5																	150921871		2203	4300	6503	SO:0001583	missense	2196			AF231022	CCDS4317.1	5q33.1	2014-07-21	2013-05-31		ENSG00000086570	ENSG00000086570		"Cadherins / Cadherin-related"	3596	protein-coding gene	gene with protein product	"cadherin-related family member 9"	604269	"FAT tumor suppressor (Drosophila) homolog 2", "FAT tumor suppressor homolog 2 (Drosophila)"			9693030	Standard	NM_001447		Approved	MEGF1, CDHF8, HFAT2, CDHR9	uc003lue.4	Q9NYQ8	OTTHUMG00000130126	ENST00000261800.5:c.8817C>A	5.37:g.150921871G>T	ENSP00000261800:p.Asn2939Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O75091|Q9NSR7	Missense_Mutation	SNP	ENST00000261800.5	37	CCDS4317.1	.	.	.	.	.	.	.	.	.	.	G	19.95	3.921781	0.73213	.	.	ENSG00000086570	ENST00000261800	T	0.59906	0.23	6.05	1.26	0.21427	Cadherin (4);Cadherin-like (1);	0.000000	0.64402	D	0.000002	T	0.76807	0.4039	M	0.89601	3.045	0.47511	D	0.999445	D	0.89917	1.0	D	0.97110	1.0	T	0.77199	-0.2675	10	0.56958	D	0.05	.	10.6765	0.45789	0.4552:0.0:0.5448:0.0	.	2939	Q9NYQ8	FAT2_HUMAN	K	2939	ENSP00000261800:N2939K	ENSP00000261800:N2939K	N	-	3	2	FAT2	150902064	1.000000	0.71417	0.999000	0.59377	0.984000	0.73092	1.206000	0.32321	0.147000	0.19030	0.650000	0.86243	AAC		0.502	FAT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252434.1	NM_001447		T	150921871	G	T	150921871	3	4	612	1	0	0	0	0	1	0	0	0	5697	1368	48	4	4292	4	FAT2	5	150921871	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	11045555	150921871	29993389	30	37282										
KIF4B	285643	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	154395501	154395501	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	aaacttgaaagaaacttccaGaaacaatccagtgtgctcag	7	9	1	3			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr5:154395501G>A	ENST00000435029.4	+	1	2242	c.2082G>A	c.(2080-2082)caG>caA	p.Q694Q		NM_001099293.1	NP_001092763.1	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	694	Interaction with PRC1. {ECO:0000250}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	cytosol (GO:0005829)|kinesin complex (GO:0005871)|microtubule (GO:0005874)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|DNA binding (GO:0003677)|plus-end-directed microtubule motor activity (GO:0008574)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(6)|large_intestine(13)|lung(27)|ovary(2)|upper_aerodigestive_tract(1)	58	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			GAAACTTCCAGAAACAATCCA	0.438																																																0													103	107	106					5																	154395501		2203	4300	6503	SO:0001819	synonymous_variant	285643			AF241316	CCDS47324.1	5q33.2	2010-06-22			ENSG00000226650	ENSG00000226650		"Kinesins"	6322	protein-coding gene	gene with protein product		609184					Standard	NM_001099293		Approved		uc010jih.1	Q2VIQ3	OTTHUMG00000164143	ENST00000435029.4:c.2082G>A	5.37:g.154395501G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000435029.4	37	CCDS47324.1																																																																																				0.438	KIF4B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377478.1			A	154395501	G	A	154395501	2	1	612	1	0	0	0	0	0	0	0	1	8311	933	33	2		2	KIF4B	5	154395501	Silent	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	3473630	154395501	26519759	31	37283										
CASP8AP2	9994	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	90577520	90577520	+	RNA	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ggagtctgataattcaagcaGtaaatcaagttgttcttctt	8	6	5	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr6:90577520G>T	ENST00000551025.1	+	0	5948									caspase 8 associated protein 2											NS(1)|endometrium(7)|kidney(6)|large_intestine(12)|lung(21)|ovary(2)|urinary_tract(2)	51		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		AATTCAAGCAGTAAATCAAGT	0.423																																					Colon(187;1656 2025 17045 31481 39901)											0													84	80	82					6																	90577520		1902	4115	6017			9994			AB037736		6q15	2012-04-19	2008-10-30		ENSG00000118412	ENSG00000118412			1510	protein-coding gene	gene with protein product	"FLICE-associated huge protein"	606880	"CASP8 associated protein 2"			10235259, 17245429, 17003126	Standard	NM_001137668		Approved	FLASH, CED-4, RIP25, FLJ11208, KIAA1315	uc011dzz.2	Q9UKL3	OTTHUMG00000015212		6.37:g.90577520G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000551025.1	37																																																																																					0.423	CASP8AP2-202	KNOWN	basic	processed_transcript	processed_transcript		NM_001137667		T	90577520	G	T	90577520	1	4	612	0	1	0	0	0	0	0	0	0	2680	1029	36	4		4	CASP8AP2	6	90577520	RNA	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10		90577520	80537547	32	37284										
FBXO30	84085	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	146126628	146126628	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	agttactttgttttgaatcaCcatgtaaattctgattctgg	7	6	3	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr6:146126628C>T	ENST00000237281.4	-	2	1080	c.914G>A	c.(913-915)gGt>gAt	p.G305D		NM_032145.4	NP_115521.3	Q8TB52	FBX30_HUMAN	F-box protein 30	305							ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)	p.G305D(1)		NS(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(11)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	26		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		TTTTGAATCACCATGTAAATT	0.403																																																1	Substitution - Missense(1)	lung(1)											125	119	121					6																	146126628		2203	4300	6503	SO:0001583	missense	84085			AF248640	CCDS5208.1	6q24	2008-02-05	2004-06-15		ENSG00000118496	ENSG00000118496		"F-boxes /  "other""	15600	protein-coding gene	gene with protein product		609101	"F-box only protein, helicase, 18"				Standard	XM_005267159		Approved	MGC21674, Fbx30	uc003qla.3	Q8TB52	OTTHUMG00000015749	ENST00000237281.4:c.914G>A	6.37:g.146126628C>T	ENSP00000237281:p.Gly305Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BXZ7	Missense_Mutation	SNP	ENST00000237281.4	37	CCDS5208.1	.	.	.	.	.	.	.	.	.	.	C	0.042	-1.281092	0.01398	.	.	ENSG00000118496	ENST00000237281	T	0.17691	2.26	5.29	0.298	0.15766	.	1.121610	0.06334	N	0.706654	T	0.02767	0.0083	L	0.36672	1.1	0.22127	N	0.999344	B	0.02656	0.0	B	0.01281	0.0	T	0.40905	-0.9538	10	0.08381	T	0.77	-3.4918	2.8503	0.05555	0.1103:0.4508:0.2365:0.2024	.	305	Q8TB52	FBX30_HUMAN	D	305	ENSP00000237281:G305D	ENSP00000237281:G305D	G	-	2	0	FBXO30	146168321	0.000000	0.05858	0.946000	0.38457	0.946000	0.59487	0.028000	0.13644	0.046000	0.15833	0.655000	0.94253	GGT		0.403	FBXO30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042570.2			T	146126628	C	T	146126628	3	4	612	1	0	0	0	0	1	0	0	0	5747	507	18	2	1331	2	FBXO30	6	146126628	Missense_Mutation	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	55549108	146126628	24988439	33	37285										
ABCB4	5244	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	87037472	87037472	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	cttcacctccaggctcagccCctgaagcactggcacgtttg	9	16	2	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr7:87037472C>T	ENST00000265723.4	-	25	3271	c.3160G>A	c.(3160-3162)Ggg>Agg	p.G1054R	ABCB4_ENST00000453593.1_Missense_Mutation_p.G1007R|ABCB4_ENST00000358400.3_Missense_Mutation_p.G1007R|ABCB4_ENST00000359206.3_Missense_Mutation_p.G1054R|ABCB4_ENST00000545634.1_Missense_Mutation_p.G1054R	NM_000443.3|NM_018849.2	NP_000434.1|NP_061337.1	P21439	MDR3_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP), member 4	1054	ABC transporter 2. {ECO:0000255|PROSITE- ProRule:PRU00434}.				cellular lipid metabolic process (GO:0044255)|lipid metabolic process (GO:0006629)|response to drug (GO:0042493)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|transport (GO:0006810)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|intercellular canaliculus (GO:0046581)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|xenobiotic-transporting ATPase activity (GO:0008559)			breast(5)|endometrium(7)|kidney(2)|large_intestine(15)|lung(32)|ovary(4)|pancreas(2)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	77	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				Colchicine(DB01394)|Etravirine(DB06414)|Silodosin(DB06207)	AGGCTCAGCCCCTGAAGCACT	0.498																																																0													82	80	81					7																	87037472		2203	4300	6503	SO:0001583	missense	5244			M23234	CCDS5605.1, CCDS5606.1, CCDS5607.1	7q21	2012-03-14			ENSG00000005471	ENSG00000005471		"ATP binding cassette transporters / subfamily B"	45	protein-coding gene	gene with protein product		171060		PGY3, MDR3		2892668, 11313316	Standard	NM_018850		Approved	MDR2, PFIC-3, GBD1	uc003uiv.1	P21439	OTTHUMG00000023396	ENST00000265723.4:c.3160G>A	7.37:g.87037472C>T	ENSP00000265723:p.Gly1054Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A0A2V7|A4D1D3|A4D1D4|A4D1D5|D6W5P3|D6W5P4|Q14813	Missense_Mutation	SNP	ENST00000265723.4	37	CCDS5606.1	.	.	.	.	.	.	.	.	.	.	C	23.2	4.390489	0.82902	.	.	ENSG00000005471	ENST00000359206;ENST00000358400;ENST00000265723;ENST00000453593;ENST00000545634	D;D;D;D;D	0.91011	-2.77;-2.77;-2.77;-2.77;-2.77	5.19	3.18	0.36537	ABC transporter-like (1);	0.158975	0.56097	N	0.000029	D	0.92632	0.7659	L	0.51914	1.62	0.80722	D	1	P;D;P	0.54047	0.947;0.964;0.939	P;D;D	0.68943	0.789;0.961;0.914	D	0.91904	0.5534	10	0.87932	D	0	-4.0274	11.256	0.49054	0.0:0.8415:0.0:0.1585	.	1007;1054;1054	A4D1D5;P21439-2;P21439	.;.;MDR3_HUMAN	R	1054;1007;1054;1007;1054	ENSP00000352135:G1054R;ENSP00000351172:G1007R;ENSP00000265723:G1054R;ENSP00000392983:G1007R;ENSP00000437465:G1054R	ENSP00000265723:G1054R	G	-	1	0	ABCB4	86875408	1.000000	0.71417	1.000000	0.80357	0.958000	0.62258	4.034000	0.57289	0.565000	0.29255	0.655000	0.94253	GGG		0.498	ABCB4-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000336083.1	NM_000443		T	87037472	C	T	87037472	3	4	612	1	0	0	0	0	1	0	0	0	43	623	22	2	716	2	ABCB4	7	87037472	Missense_Mutation	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10		87037472	72101191	34	37286										
SLC25A40	55972	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	87466048	87466048	+	Frame_Shift_Del	DEL	A	A	-													0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	aaagcaagtatttttacctgAaaataatccggaaaatccat							TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr7:87466048delA	ENST00000341119.5	-	11	1247	c.901delT	c.(901-903)tcafs	p.S301fs		NM_018843.3	NP_061331.2	Q8TBP6	S2540_HUMAN	solute carrier family 25, member 40	301					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)				central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(6)|prostate(1)|skin(1)	17	Esophageal squamous(14;0.00202)					TTTTTACCTGAAAATAATCCG	0.264																																																0													25	27	26					7																	87466048		2182	4244	6426	SO:0001589	frameshift_variant	55972			AF125531	CCDS5610.1	7q21.12	2013-05-22			ENSG00000075303	ENSG00000075303		"Solute carriers"	29680	protein-coding gene	gene with protein product		610821				16949250	Standard	NM_018843		Approved	MCFP	uc003uje.3	Q8TBP6	OTTHUMG00000131033	ENST00000341119.5:c.901delT	7.37:g.87466048delA	ENSP00000344831:p.Ser301fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K483|D6W5P6|Q53GB1|Q9UHR1	Frame_Shift_Del	DEL	ENST00000341119.5	37	CCDS5610.1																																																																																				0.264	SLC25A40-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253677.5	NM_018843		-	87466048	A	-	87466048	7	5	612	1	0	1	0	1	0	0	0	0	14518	246	9	0	123	0	SLC25A40	7	87466048	Frame_Shift_Del	DEL	A	TCGA-HE-A5NL-01A-11D-A26P-10	428576	87466048	71672615	35	37287										
TECPR1	25851	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	97847037	97847037	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	tcccagccgtggcccttgggCtcgtgaggctgcacgccggt	15	15	0	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr7:97847037C>T	ENST00000447648.2	-	25	3650	c.3351G>A	c.(3349-3351)gaG>gaA	p.E1117E	TECPR1_ENST00000379795.3_Silent_p.E1119E			Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	1117					autophagic vacuole fusion (GO:0000046)|autophagy (GO:0006914)	autophagic vacuole membrane (GO:0000421)|cytoplasmic vesicle (GO:0031410)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)	phosphatidylinositol-3-phosphate binding (GO:0032266)			central_nervous_system(2)|endometrium(8)|kidney(1)|large_intestine(1)|lung(9)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	26						GGCCCTTGGGCTCGTGAGGCT	0.667																																																0													12	16	15					7																	97847037		2009	3915	5924	SO:0001819	synonymous_variant	25851				CCDS47648.1	7q21.3	2009-01-30			ENSG00000205356	ENSG00000205356			22214	protein-coding gene	gene with protein product		614781					Standard	NM_015395		Approved	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358	uc003upg.4	Q7Z6L1	OTTHUMG00000154273	ENST00000447648.2:c.3351G>A	7.37:g.97847037C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8KAD1|B3KPZ1|C9J024|F5GX57|Q96EB0|Q9P2I9|Q9UFR6	Silent	SNP	ENST00000447648.2	37	CCDS47648.1																																																																																				0.667	TECPR1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000334661.1	NM_015395		T	97847037	C	T	97847037	2	4	612	1	0	0	0	0	0	0	0	1	15755	796	28	2		2	TECPR1	7	97847037	Silent	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	10380989	97847037	61291626	36	37288										
MEPCE	56257	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	100030705	100030705	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gcacctacgccctgggggcaTcctggtcctagagccccaac	11	17	0	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr7:100030705T>A	ENST00000310512.2	+	2	2223	c.1835T>A	c.(1834-1836)aTc>aAc	p.I612N	RP11-758P17.2_ENST00000492523.1_RNA|MEPCE_ENST00000414441.1_Missense_Mutation_p.I143N|PPP1R35_ENST00000476185.1_5'Flank	NM_019606.5	NP_062552.2	Q7L2J0	MEPCE_HUMAN	methylphosphate capping enzyme	612	Bin3-type SAM. {ECO:0000255|PROSITE- ProRule:PRU00848}.				negative regulation of chromatin binding (GO:0035562)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of G1/S transition of mitotic cell cycle (GO:1900087)|RNA methylation (GO:0001510)|snRNA metabolic process (GO:0016073)|snRNA modification (GO:0040031)		poly(A) RNA binding (GO:0044822)|RNA methyltransferase activity (GO:0008173)|S-adenosylmethionine-dependent methyltransferase activity (GO:0008757)			breast(1)|endometrium(2)|kidney(1)|large_intestine(3)|liver(2)|lung(9)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)	24	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CCTGGGGGCATCCTGGTCCTA	0.577																																																0													72	69	70					7																	100030705		2203	4300	6503	SO:0001583	missense	56257			AF264752	CCDS5693.1, CCDS55136.1	7q22.1	2008-02-04	2007-07-26	2007-07-26	ENSG00000146834	ENSG00000146834			20247	protein-coding gene	gene with protein product		611478	"bin3, bicoid-interacting 3, homolog (Drosophila)"	BCDIN3		12358911, 17643375	Standard	NM_019606		Approved	FLJ20257, MePCE	uc003uuw.3	Q7L2J0	OTTHUMG00000155255	ENST00000310512.2:c.1835T>A	7.37:g.100030705T>A	ENSP00000308546:p.Ile612Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B3KP86|D6W5V7|Q9NPD4	Missense_Mutation	SNP	ENST00000310512.2	37	CCDS5693.1	.	.	.	.	.	.	.	.	.	.	T	19.74	3.883852	0.72410	.	.	ENSG00000146834	ENST00000414441;ENST00000425355;ENST00000310512	T;T	0.46819	0.86;0.86	5.37	5.37	0.77165	Bin3-type S-adenosyl-L-methionine binding domain (1);Bicoid-interacting 3 (1);	0.077394	0.52532	D	0.000064	T	0.50837	0.1639	L	0.45352	1.415	0.45066	D	0.998087	D	0.59357	0.985	P	0.58013	0.831	T	0.46470	-0.9189	10	0.29301	T	0.29	-24.0822	8.2283	0.31582	0.0:0.0895:0.0:0.9105	.	612	Q7L2J0	MEPCE_HUMAN	N	143;143;612	ENSP00000400875:I143N;ENSP00000308546:I612N	ENSP00000308546:I612N	I	+	2	0	MEPCE	99868641	1.000000	0.71417	1.000000	0.80357	0.751000	0.42716	5.644000	0.67902	2.156000	0.67533	0.379000	0.24179	ATC		0.577	MEPCE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000339135.1			A	100030705	T	A	100030705	3	1	612	1	0	0	0	0	1	0	0	0	9484	1435	50	5	1841	5	MEPCE	7	100030705	Missense_Mutation	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10	2183668	100030705	59107958	37	37289										
ELP3	55140	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	28047190	28047190	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	cggcaccaggaattattataGaaagatcggctacagattac	9	8	0	3			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr8:28047190G>C	ENST00000256398.8	+	15	1969	c.1592G>C	c.(1591-1593)aGa>aCa	p.R531T	ELP3_ENST00000542181.1_Missense_Mutation_p.R402T|ELP3_ENST00000524103.1_Missense_Mutation_p.R459T|ELP3_ENST00000521015.1_Missense_Mutation_p.R517T|ELP3_ENST00000380353.4_Missense_Mutation_p.R439T|ELP3_ENST00000537665.1_Missense_Mutation_p.R412T	NM_001284220.1|NM_001284226.1|NM_018091.5	NP_001271149.1|NP_001271155.1|NP_060561.3	Q9H9T3	ELP3_HUMAN	elongator acetyltransferase complex subunit 3	531	N-acetyltransferase. {ECO:0000255|PROSITE-ProRule:PRU00532}.				chromatin organization (GO:0006325)|positive regulation of cell migration (GO:0030335)|regulation of protein kinase activity (GO:0045859)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription elongation from RNA polymerase II promoter (GO:0006368)	cytoplasm (GO:0005737)|DNA-directed RNA polymerase II, holoenzyme (GO:0016591)|Elongator holoenzyme complex (GO:0033588)|nucleolus (GO:0005730)|transcription elongation factor complex (GO:0008023)	histone acetyltransferase activity (GO:0004402)|iron-sulfur cluster binding (GO:0051536)|metal ion binding (GO:0046872)|phosphorylase kinase regulator activity (GO:0008607)			kidney(2)|large_intestine(3)|lung(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	10		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)		AATTATTATAGAAAGATCGGC	0.468																																																0													127	132	130					8																	28047190		2203	4300	6503	SO:0001583	missense	55140				CCDS6065.1, CCDS64860.1, CCDS64861.1, CCDS75717.1, CCDS75718.1	8p21.1	2012-08-14	2012-08-08		ENSG00000134014	ENSG00000134014		"Chromatin-modifying enzymes / K-acetyltransferases", "Elongator acetyltransferase complex subunits"	20696	protein-coding gene	gene with protein product		612722	"elongation protein 3 homolog (S. cerevisiae)"			11714725	Standard	NM_018091		Approved	FLJ10422, KAT9	uc003xgo.4	Q9H9T3	OTTHUMG00000102124	ENST00000256398.8:c.1592G>C	8.37:g.28047190G>C	ENSP00000256398:p.Arg531Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DE19|B4DIG1|E2QRI5|Q53G84|Q6AWB0|Q9BVF7|Q9NVZ1	Missense_Mutation	SNP	ENST00000256398.8	37	CCDS6065.1	.	.	.	.	.	.	.	.	.	.	G	17.08	3.297498	0.60086	.	.	ENSG00000134014	ENST00000521015;ENST00000256398;ENST00000542181;ENST00000524103;ENST00000537665;ENST00000380353	T;T;T;T;T;T	0.22743	1.94;1.94;1.94;1.94;1.94;1.94	5.13	5.13	0.70059	GCN5-related N-acetyltransferase (GNAT) domain (2);Acyl-CoA N-acyltransferase (2);	0.000000	0.85682	D	0.000000	T	0.44371	0.1290	H	0.96604	3.85	0.58432	D	0.999995	B;B	0.24576	0.106;0.062	B;B	0.31337	0.128;0.128	T	0.56238	-0.8012	10	0.72032	D	0.01	-17.8026	13.9575	0.64160	0.0:0.0:1.0:0.0	.	412;531	B4DE19;Q9H9T3	.;ELP3_HUMAN	T	517;531;402;459;412;439	ENSP00000428449:R517T;ENSP00000256398:R531T;ENSP00000439242:R402T;ENSP00000429180:R459T;ENSP00000445558:R412T;ENSP00000369711:R439T	ENSP00000256398:R531T	R	+	2	0	ELP3	28103109	1.000000	0.71417	0.978000	0.43139	0.982000	0.71751	4.723000	0.61965	2.669000	0.90835	0.655000	0.94253	AGA		0.468	ELP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219963.2	NM_018091		C	28047190	G	C	28047190	3	2	612	1	0	0	0	0	1	0	0	0	5083	942	33	4	1650	4	ELP3	8	28047190	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10		28047190	118316832	38	37290										
TRIM55	84675	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	67064722	67064722	+	Frame_Shift_Del	DEL	T	T	-													0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	tagaaaatgttcaaacagagTttccaggagaagatgaaaac							TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr8:67064722delT	ENST00000315962.4	+	8	1469	c.1096delT	c.(1096-1098)tttfs	p.F366fs	TRIM55_ENST00000276573.7_Frame_Shift_Del_p.F366fs|TRIM55_ENST00000353317.5_Frame_Shift_Del_p.F366fs|TRIM55_ENST00000350034.4_Intron	NM_184085.1	NP_908973.1	Q9BYV6	TRI55_HUMAN	tripartite motif containing 55	366					signal transduction (GO:0007165)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|nucleus (GO:0005634)	identical protein binding (GO:0042802)|signal transducer activity (GO:0004871)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(13)|ovary(1)|prostate(2)|skin(6)|upper_aerodigestive_tract(2)	39		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)			TCAAACAGAGTTTCCAGGAGA	0.498																																																0													70	70	70					8																	67064722		2203	4300	6503	SO:0001589	frameshift_variant	84675			AJ291712	CCDS6184.1, CCDS6185.1, CCDS6186.1, CCDS6187.1	8q13.1	2013-01-09	2011-01-25	2004-11-17	ENSG00000147573	ENSG00000147573		"RING-type (C3HC4) zinc fingers", "Tripartite motif containing / Tripartite motif containing"	14215	protein-coding gene	gene with protein product		606469	"ring finger protein 29", "tripartite motif-containing 55"	RNF29		11243782	Standard	NM_033058		Approved	MURF-2	uc003xvv.3	Q9BYV6	OTTHUMG00000164473	ENST00000315962.4:c.1096delT	8.37:g.67064722delT	ENSP00000323913:p.Phe366fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRC0|B3KRJ3|Q53XX3|Q8IUD9|Q8IUE4|Q96DV2|Q96DV3|Q9BYV5	Frame_Shift_Del	DEL	ENST00000315962.4	37	CCDS6184.1																																																																																				0.498	TRIM55-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378921.1	NM_184085		-	67064722	T	-	67064722	7	5	612	1	0	1	0	1	0	0	0	0	16541	1725	60	0	1126	0	TRIM55	8	67064722	Frame_Shift_Del	DEL	T	TCGA-HE-A5NL-01A-11D-A26P-10	39017532	67064722	79299300	39	37291										
CSMD3	114788	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr8	113516202	113516202	+	Missense_Mutation	SNP	T	T	C													0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gtcatagtttggttctatgcTaaaactgaaaaaaaaaagga							TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr8:113516202T>C	ENST00000297405.5	-	30	5144	c.4900A>G	c.(4900-4902)Agc>Ggc	p.S1634G	CSMD3_ENST00000455883.2_Missense_Mutation_p.S1530G|CSMD3_ENST00000343508.3_Missense_Mutation_p.S1594G|CSMD3_ENST00000352409.3_Missense_Mutation_p.S1634G	NM_198123.1	NP_937756.1	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3	1634	CUB 9. {ECO:0000255|PROSITE- ProRule:PRU00059}.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(7)|central_nervous_system(6)|endometrium(44)|haematopoietic_and_lymphoid_tissue(8)|kidney(36)|large_intestine(72)|liver(5)|lung(389)|ovary(24)|prostate(6)|skin(23)|upper_aerodigestive_tract(19)|urinary_tract(7)	646						GGTTCTATGCTAAAACTgaaa	0.308										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)																																						0													69	67	68					8																	113516202		2203	4300	6503	SO:0001583	missense	114788			AY210419	CCDS6315.1, CCDS6316.2, CCDS6317.1	8q23.3	2007-01-06			ENSG00000164796	ENSG00000164796			19291	protein-coding gene	gene with protein product		608399					Standard	NM_052900		Approved		uc003ynu.3	Q7Z407	OTTHUMG00000157027	ENST00000297405.5:c.4900A>G	8.37:g.113516202T>C	ENSP00000297405:p.Ser1634Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q96PZ3	Missense_Mutation	SNP	ENST00000297405.5	37	CCDS6315.1	.	.	.	.	.	.	.	.	.	.	T	19.81	3.897390	0.72639	.	.	ENSG00000164796	ENST00000343508;ENST00000297405;ENST00000339701;ENST00000455883;ENST00000352409	T;T;T;T;T	0.18174	2.23;2.23;2.23;2.23;2.23	4.96	4.96	0.65561	CUB (5);	0.056809	0.64402	D	0.000002	T	0.31104	0.0786	L	0.55990	1.75	0.33482	D	0.587596	B;B;P	0.49635	0.007;0.008;0.926	B;B;P	0.58454	0.026;0.044;0.839	T	0.33266	-0.9875	10	0.22706	T	0.39	.	14.7774	0.69740	0.0:0.0:0.0:1.0	.	1530;1634;1594	Q7Z407-3;Q7Z407;Q7Z407-2	.;CSMD3_HUMAN;.	G	1594;1634;974;1530;1634	ENSP00000345799:S1594G;ENSP00000297405:S1634G;ENSP00000341558:S974G;ENSP00000412263:S1530G;ENSP00000343124:S1634G	ENSP00000297405:S1634G	S	-	1	0	CSMD3	113585378	1.000000	0.71417	1.000000	0.80357	0.934000	0.57294	7.657000	0.83745	2.069000	0.61940	0.455000	0.32223	AGC		0.308	CSMD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347141.1	NM_052900		C	113516202	T	C	113516202	3	2	612	1	0	0	0	0	1	0	0	0	3948	1522	53	3	6391	3	CSMD3	8	113516202	Missense_Mutation	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10	46451480	113516202	32847820	40	37292	288	2								
CSMD3	114788	hgsc.bcm.edu;bcgsc.ca	37	chr8	113516207	113516207	+	Splice_Site	SNP	C	C	G													0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	agtttggttctatgctaaaaCtgaaaaaaaaaaggaaagaa					rs76670724		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr8:113516207C>G	ENST00000297405.5	-	30	5140		c.e30-1		CSMD3_ENST00000455883.2_Splice_Site|CSMD3_ENST00000343508.3_Splice_Site|CSMD3_ENST00000352409.3_Splice_Site	NM_198123.1	NP_937756.1	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3							integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(7)|central_nervous_system(6)|endometrium(44)|haematopoietic_and_lymphoid_tissue(8)|kidney(36)|large_intestine(72)|liver(5)|lung(389)|ovary(24)|prostate(6)|skin(23)|upper_aerodigestive_tract(19)|urinary_tract(7)	646						TATGCTAAAACTgaaaaaaaa	0.318										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)																																						0													61	60	60					8																	113516207		2203	4299	6502	SO:0001630	splice_region_variant	114788			AY210419	CCDS6315.1, CCDS6316.2, CCDS6317.1	8q23.3	2007-01-06			ENSG00000164796	ENSG00000164796			19291	protein-coding gene	gene with protein product		608399					Standard	NM_052900		Approved		uc003ynu.3	Q7Z407	OTTHUMG00000157027	ENST00000297405.5:c.4896-1G>C	8.37:g.113516207C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q96PZ3	Splice_Site	SNP	ENST00000297405.5	37	CCDS6315.1	.	.	.	.	.	.	.	.	.	.	C	18.97	3.736213	0.69189	.	.	ENSG00000164796	ENST00000343508;ENST00000297405;ENST00000339701;ENST00000455883;ENST00000352409	.	.	.	4.96	4.96	0.65561	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	18.378	0.90441	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	CSMD3	113585383	1.000000	0.71417	1.000000	0.80357	0.757000	0.42996	7.446000	0.80609	2.560000	0.86352	0.557000	0.71058	.		0.318	CSMD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347141.1	NM_052900	Intron	G	113516207	C	G	113516207	5	3	612	1	0	0	0	0	0	0	1	0	3948	579	20	4	6396	4	CSMD3	8	113516207	Splice_Site	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	5	113516207	32847815	41	37293	288	2								
ZNF79	7633	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	130206739	130206739	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	agccttacaagtgcagtgaaTgtggaagagccttcagccag	12	9	1	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr9:130206739T>C	ENST00000342483.5	+	5	1166	c.760T>C	c.(760-762)Tgt>Cgt	p.C254R	ZNF79_ENST00000543471.1_Missense_Mutation_p.C230R	NM_007135.2	NP_009066.2	Q15937	ZNF79_HUMAN	zinc finger protein 79	254					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(5)|large_intestine(1)|lung(13)|ovary(2)|prostate(1)|stomach(2)	28						GTGCAGTGAATGTGGAAGAGC	0.532																																																0													101	92	95					9																	130206739		2203	4300	6503	SO:0001583	missense	7633			X65232	CCDS6871.1, CCDS69664.1, CCDS75904.1	9q34	2013-01-08	2006-05-12		ENSG00000196152	ENSG00000196152		"Zinc fingers, C2H2-type"	13153	protein-coding gene	gene with protein product		194552	"zinc finger protein 79 (pT7)"			8478004	Standard	NM_007135		Approved	pT7	uc004bqw.4	Q15937	OTTHUMG00000020703	ENST00000342483.5:c.760T>C	9.37:g.130206739T>C	ENSP00000362446:p.Cys254Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VVW1|Q96NV1	Missense_Mutation	SNP	ENST00000342483.5	37	CCDS6871.1	.	.	.	.	.	.	.	.	.	.	T	16.12	3.034463	0.54896	.	.	ENSG00000196152	ENST00000342483;ENST00000543471	D;D	0.85955	-2.05;-2.05	3.53	2.38	0.29361	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	D	0.92404	0.7589	H	0.98682	4.3	0.80722	D	1	D	0.53745	0.962	P	0.53313	0.723	D	0.90977	0.4824	9	0.87932	D	0	.	6.7985	0.23738	0.0:0.1169:0.0:0.8831	.	254	Q15937	ZNF79_HUMAN	R	254;230	ENSP00000362446:C254R;ENSP00000438418:C230R	ENSP00000362446:C254R	C	+	1	0	ZNF79	129246560	1.000000	0.71417	0.659000	0.29680	0.986000	0.74619	5.308000	0.65768	0.555000	0.29079	0.533000	0.62120	TGT		0.532	ZNF79-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054188.1	NM_007135		C	130206739	T	C	130206739	3	2	612	1	0	0	0	0	1	0	0	0	18173	1464	51	3	778	3	ZNF79	9	130206739	Missense_Mutation	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10		130206739	11006692	42	37294										
ACBD5	91452	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr10	27529275	27529275	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	cggcaaactctggatcacctTcacggccgcctcaaacctag	8	16	4	0			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr10:27529275T>G	ENST00000375888.1	-	1	212	c.148A>C	c.(148-150)Aag>Cag	p.K50Q	ACBD5_ENST00000375897.3_5'UTR|ACBD5_ENST00000375901.1_5'UTR|ACBD5_ENST00000476758.1_5'UTR|ACBD5_ENST00000375905.4_Missense_Mutation_p.K17Q|ACBD5_ENST00000396271.3_Missense_Mutation_p.K52Q|RP11-85G18.6_ENST00000574842.1_lincRNA			Q5T8D3	ACBD5_HUMAN	acyl-CoA binding domain containing 5	50	ACB. {ECO:0000255|PROSITE- ProRule:PRU00573}.				peroxisome degradation (GO:0030242)|transport (GO:0006810)	integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)|peroxisome (GO:0005777)	fatty-acyl-CoA binding (GO:0000062)|lipid binding (GO:0008289)			breast(1)|endometrium(1)|large_intestine(3)|lung(7)|prostate(1)	13						TGGATCACCTTCACGGCCGCC	0.617																																																0													101	91	94					10																	27529275		2203	4300	6503	SO:0001583	missense	91452			AF505653	CCDS7154.1, CCDS44368.1, CCDS73079.1	10p12.1	2010-04-30	2010-04-30		ENSG00000107897	ENSG00000107897			23338	protein-coding gene	gene with protein product			"acyl-Coenzyme A binding domain containing 5"			12056414	Standard	NR_024150		Approved	DKFZp434A2417, KIAA1996	uc010qdp.2	Q5T8D3	OTTHUMG00000017854	ENST00000375888.1:c.148A>C	10.37:g.27529275T>G	ENSP00000365049:p.Lys50Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQ56|D3DRW0|Q5T8D4|Q5T8E1|Q5T8E2|Q86UV1|Q8N6E3|Q9UFB5	Missense_Mutation	SNP	ENST00000375888.1	37		.	.	.	.	.	.	.	.	.	.	T	24.0	4.487454	0.84854	.	.	ENSG00000107897	ENST00000375889;ENST00000396271;ENST00000375905;ENST00000375888;ENST00000426079;ENST00000412279	T;T;T;T;T	0.23754	1.89;1.89;1.89;1.89;1.89	4.87	4.87	0.63330	.	0.087964	0.85682	D	0.000000	T	0.42921	0.1224	L	0.45352	1.415	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.83275	0.996;0.99	T	0.25082	-1.0142	10	0.46703	T	0.11	-20.8054	14.7721	0.69688	0.0:0.0:0.0:1.0	.	52;50	Q5T8D3-3;B7Z2R7	.;.	Q	47;52;17;50;59;17	ENSP00000379568:K52Q;ENSP00000365070:K17Q;ENSP00000365049:K50Q;ENSP00000401591:K59Q;ENSP00000393398:K17Q	ENSP00000365049:K50Q	K	-	1	0	ACBD5	27569281	1.000000	0.71417	1.000000	0.80357	0.911000	0.54048	4.285000	0.58989	1.945000	0.56424	0.383000	0.25322	AAG		0.617	ACBD5-005	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000047314.1	NM_145698		G	27529275	T	G	27529275	3	3	612	1	0	0	0	0	1	0	0	0	125	1792	62	5	1471	5	ACBD5	10	27529275	Missense_Mutation	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10		27529275	108005472	43	37295										
ATRNL1	26033	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	117075179	117075179	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	attggaatgcaccacagtgaGatggttcttgacaccaatct	9	9	2	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr10:117075179G>A	ENST00000355044.3	+	18	3096	c.2970G>A	c.(2968-2970)gaG>gaA	p.E990E	ATRNL1_ENST00000423111.2_Silent_p.E87E|ATRNL1_ENST00000303745.7_De_novo_Start_OutOfFrame	NM_207303.2	NP_997186.1	Q5VV63	ATRN1_HUMAN	attractin-like 1	990	PSI 5.				G-protein coupled receptor signaling pathway (GO:0007186)|multicellular organismal development (GO:0007275)	integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)|receptor activity (GO:0004872)			NS(1)|breast(1)|central_nervous_system(2)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(11)|liver(2)|lung(44)|ovary(6)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	95		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)		ACCACAGTGAGATGGTTCTTG	0.413																																																0													128	119	122					10																	117075179		2203	4300	6503	SO:0001819	synonymous_variant	26033			AB011106	CCDS7592.1, CCDS73204.1	10q26	2004-03-04			ENSG00000107518	ENSG00000107518			29063	protein-coding gene	gene with protein product		612869				9628581	Standard	NM_001276282		Approved	KIAA0534, FLJ45344, ALP	uc001lcg.3	Q5VV63	OTTHUMG00000019096	ENST00000355044.3:c.2970G>A	10.37:g.117075179G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60283|Q5JSE8|Q5T5Y9|Q6T256|Q6ZSN4|Q86WX2	Silent	SNP	ENST00000355044.3	37	CCDS7592.1	.	.	.	.	.	.	.	.	.	.	G	6.849	0.525834	0.13066	.	.	ENSG00000107518	ENST00000526373	.	.	.	5.34	1.35	0.21983	.	.	.	.	.	T	0.52125	0.1715	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.42548	-0.9445	4	.	.	.	-8.6523	5.6587	0.17656	0.2884:0.1549:0.5567:0.0	.	.	.	.	N	120	.	.	D	+	1	0	ATRNL1	117065169	1.000000	0.71417	0.996000	0.52242	0.876000	0.50452	1.591000	0.36665	0.628000	0.30357	-0.391000	0.06502	GAT		0.413	ATRNL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050507.3	XM_049349		A	117075179	G	A	117075179	2	1	612	1	0	0	0	0	0	0	0	1	1207	933	33	2		2	ATRNL1	10	117075179	Silent	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	89545904	117075179	18459568	44	37296										
MKI67	4288	broad.mit.edu	37	chr10	129905112	129905113	+	Frame_Shift_Del	DEL	TG	TG	-													0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ttaccatctcctgttggctcTgtgtgtgtgtgtgtagtctc					rs145960091		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr10:129905112_129905113delTG	ENST00000368654.3	-	13	5366_5367	c.4991_4992delCA	c.(4990-4992)acafs	p.T1664fs	MKI67_ENST00000368653.3_Frame_Shift_Del_p.T1304fs	NM_002417.4	NP_002408.3	P46013	KI67_HUMAN	marker of proliferation Ki-67	1664	16 X 122 AA approximate repeats.				cell proliferation (GO:0008283)|cellular response to heat (GO:0034605)|DNA metabolic process (GO:0006259)|hyaluronan metabolic process (GO:0030212)|meiotic nuclear division (GO:0007126)|organ regeneration (GO:0031100)|response to organic cyclic compound (GO:0014070)	chromosome, centromeric region (GO:0000775)|condensed chromosome (GO:0000793)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(5)|kidney(7)|large_intestine(30)|lung(64)|ovary(4)|pancreas(1)|prostate(4)|skin(2)|soft_tissue(1)|stomach(10)|upper_aerodigestive_tract(4)|urinary_tract(4)	159		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				CTGTTGGCTCTGTGTGTGTGTG	0.51																																																0																																										SO:0001589	frameshift_variant	4288			X65550	CCDS7659.1, CCDS53588.1	10q26.2	2014-06-12	2013-10-10		ENSG00000148773	ENSG00000148773			7107	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 105"	176741	"antigen identified by monoclonal antibody Ki-67"			2571566, 16206250	Standard	NM_002417		Approved	MIB-, PPP1R105	uc001lke.3	P46013	OTTHUMG00000019255	ENST00000368654.3:c.4991_4992delCA	10.37:g.129905122_129905123delTG	ENSP00000357643:p.Thr1664fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VWH2	Frame_Shift_Del	DEL	ENST00000368654.3	37	CCDS7659.1																																																																																				0.51	MKI67-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000050999.1	NM_002417		-	129905113	TG	-	129905112	7	5	612	1	0	1	0	1	0	0	0	0	9605	1567	55	0	4790	0	MKI67	10	129905112	Frame_Shift_Del	DEL	TG	TCGA-HE-A5NL-01A-11D-A26P-10	12829933	129905112	5629635	45	37297										
MUC5B	727897	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	1264092	1264092	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ctgggcaccacctggacccgCctatcacagaccaccacacc	7	20	1	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr11:1264092C>T	ENST00000529681.1	+	31	6040	c.5982C>T	c.(5980-5982)cgC>cgT	p.R1994R	RP11-532E4.2_ENST00000532061.2_RNA|MUC5B_ENST00000447027.1_Silent_p.R1997R	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	1994	11 X approximate tandem repeats, Ser/Thr- rich.|7 X Cys-rich subdomain repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		CCTGGACCCGCCTATCACAGA	0.637																																																0													118	172	154					11																	1264092		2117	4210	6327	SO:0001819	synonymous_variant	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.5982C>T	11.37:g.1264092C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Silent	SNP	ENST00000529681.1	37	CCDS44515.2																																																																																				0.637	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		T	1264092	C	T	1264092	2	4	612	1	0	0	0	0	0	0	0	1	9986	726	26	2		2	MUC5B	11	1264092	Silent	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10		1264092	133742424	46	37298										
NAV2	89797	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	19890497	19890497	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	aacatagatgcctgcttgaaTttcctggcagctaagggaat	10	8	0	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr11:19890497T>A	ENST00000396087.3	+	4	564	c.465T>A	c.(463-465)aaT>aaA	p.N155K	NAV2_ENST00000360655.4_Missense_Mutation_p.N91K|NAV2_ENST00000540292.1_Missense_Mutation_p.N86K|NAV2_ENST00000534229.1_3'UTR|NAV2_ENST00000527559.2_Missense_Mutation_p.N84K|NAV2_ENST00000349880.4_Missense_Mutation_p.N155K|NAV2_ENST00000396085.1_Missense_Mutation_p.N155K	NM_001244963.1	NP_001231892.1	Q8IVL1	NAV2_HUMAN	neuron navigator 2	155	CH. {ECO:0000255|PROSITE- ProRule:PRU00044}.				glossopharyngeal nerve development (GO:0021563)|locomotory behavior (GO:0007626)|optic nerve development (GO:0021554)|regulation of systemic arterial blood pressure by baroreceptor feedback (GO:0003025)|sensory perception of smell (GO:0007608)|sensory perception of sound (GO:0007605)|vagus nerve development (GO:0021564)	interstitial matrix (GO:0005614)|nucleus (GO:0005634)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|heparin binding (GO:0008201)			NS(1)|breast(2)|central_nervous_system(5)|endometrium(15)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(26)|lung(38)|ovary(3)|pancreas(1)|prostate(7)|skin(5)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	116						CCTGCTTGAATTTCCTGGCAG	0.438																																																0													70	71	70					11																	19890497		2199	4293	6492	SO:0001583	missense	89797			AB037840	CCDS7850.1, CCDS7851.2, CCDS44552.1, CCDS53612.1, CCDS58126.1	11p15.1	2008-07-18			ENSG00000166833	ENSG00000166833	3.6.1.1		15997	protein-coding gene	gene with protein product	"pore membrane and/or filament interacting like protein 2", "retinoic acid inducible gene in neuroblastoma 1", "helicase, APC down-regulated 1"	607026				12079279, 12062803	Standard	NM_145117		Approved	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707	uc010rdm.2	Q8IVL1	OTTHUMG00000151837	ENST00000396087.3:c.465T>A	11.37:g.19890497T>A	ENSP00000379396:p.Asn155Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEC1|Q8IVK3|Q8IVK4|Q8IVK5|Q8IVK6|Q8IVK7|Q8IVK8|Q8NHC9|Q8NHD0|Q8TDE9|Q8TDF0|Q8TEB3|Q96B30|Q9NUZ6|Q9NVM7|Q9P2C8	Missense_Mutation	SNP	ENST00000396087.3	37	CCDS58126.1	.	.	.	.	.	.	.	.	.	.	T	16.47	3.133723	0.56828	.	.	ENSG00000166833	ENST00000360655;ENST00000396085;ENST00000349880;ENST00000396087;ENST00000527559;ENST00000540292	T;T;T;T;T;T	0.56444	0.46;0.46;0.46;0.46;0.46;0.46	5.87	5.87	0.94306	.	0.090463	0.47852	D	0.000201	T	0.36166	0.0957	N	0.05177	-0.1	0.80722	D	1	B;B	0.20052	0.002;0.041	B;B	0.34722	0.034;0.188	T	0.29610	-1.0006	9	.	.	.	.	13.7906	0.63138	0.0:0.0:0.0:1.0	.	155;91	Q8IVL1-3;Q8IVL1-4	.;.	K	91;155;155;155;84;86	ENSP00000353871:N91K;ENSP00000379394:N155K;ENSP00000309577:N155K;ENSP00000379396:N155K;ENSP00000435395:N84K;ENSP00000443489:N86K	.	N	+	3	2	NAV2	19847073	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	1.897000	0.39799	2.242000	0.73789	0.533000	0.62120	AAT		0.438	NAV2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000324112.1	NM_145117		A	19890497	T	A	19890497	3	1	612	1	0	0	0	0	1	0	0	0	10191	1490	52	5	558	5	NAV2	11	19890497	Missense_Mutation	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10	18626405	19890497	115116019	47	37299										
GAS2	2620	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	22759307	22759307	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	tgctagagcttggccggattGcagccaggtaggtcaaacca	13	10	1	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr11:22759307G>A	ENST00000454584.2	+	5	771	c.466G>A	c.(466-468)Gca>Aca	p.A156T	GAS2_ENST00000433790.1_Missense_Mutation_p.A156T|GAS2_ENST00000278187.3_Missense_Mutation_p.A156T	NM_001143830.1	NP_001137302.1	O43903	GAS2_HUMAN	growth arrest-specific 2	156	CH. {ECO:0000255|PROSITE- ProRule:PRU00044}.				apoptotic process (GO:0006915)|cell cycle arrest (GO:0007050)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|regulation of cell shape (GO:0008360)	actin filament (GO:0005884)|cytosol (GO:0005829)|membrane (GO:0016020)				breast(1)|endometrium(1)|kidney(3)|large_intestine(5)|lung(8)|ovary(1)|skin(4)|stomach(1)	24						TGGCCGGATTGCAGCCAGGTA	0.458																																																0													145	122	130					11																	22759307		2203	4300	6503	SO:0001583	missense	2620			BC040470	CCDS7858.1	11p14.3	2005-10-11			ENSG00000148935	ENSG00000148935			4167	protein-coding gene	gene with protein product		602835				9521882	Standard	NM_005256		Approved		uc001mqo.3	O43903	OTTHUMG00000166071	ENST00000454584.2:c.466G>A	11.37:g.22759307G>A	ENSP00000401145:p.Ala156Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9C8|D3DQZ0|Q6ICV8|Q7Z3X8	Missense_Mutation	SNP	ENST00000454584.2	37	CCDS7858.1	.	.	.	.	.	.	.	.	.	.	G	34	5.368653	0.95900	.	.	ENSG00000148935	ENST00000528582;ENST00000454584;ENST00000278187;ENST00000532398;ENST00000433790	T;T;T;T;T	0.47869	0.83;0.83;0.83;0.83;0.83	5.64	5.64	0.86602	Calponin homology domain (3);	0.051266	0.85682	D	0.000000	T	0.70605	0.3243	M	0.82923	2.615	0.52501	D	0.999956	P	0.52316	0.952	P	0.62885	0.908	T	0.74256	-0.3724	10	0.72032	D	0.01	-13.9779	17.5008	0.87731	0.0:0.0:1.0:0.0	.	156	O43903	GAS2_HUMAN	T	156	ENSP00000432584:A156T;ENSP00000401145:A156T;ENSP00000278187:A156T;ENSP00000435946:A156T;ENSP00000396708:A156T	ENSP00000278187:A156T	A	+	1	0	GAS2	22715883	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.950000	0.75977	2.664000	0.90586	0.650000	0.86243	GCA		0.458	GAS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387717.1	NM_177553		A	22759307	G	A	22759307	3	1	612	1	0	0	0	0	1	0	0	0	6252	1319	46	2	480	2	GAS2	11	22759307	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	2868810	22759307	112247209	48	37300										
PAMR1	25891	broad.mit.edu;bcgsc.ca	37	chr11	35492269	35492269	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	tggccgctcgttgccacagaCacgcttgatgatctggccat	11	13	1	3			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr11:35492269C>A	ENST00000378880.2	-	5	1037	c.592G>T	c.(592-594)Gtc>Ttc	p.V198F	PAMR1_ENST00000378878.3_Intron|PAMR1_ENST00000532848.1_Missense_Mutation_p.V158F|PAMR1_ENST00000534803.1_5'UTR|PAMR1_ENST00000278360.3_Missense_Mutation_p.V198F	NM_001001991.1	NP_001001991.1	Q6UXH9	PAMR1_HUMAN	peptidase domain containing associated with muscle regeneration 1	198	CUB. {ECO:0000255|PROSITE- ProRule:PRU00059}.					extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)			breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(8)|ovary(3)|upper_aerodigestive_tract(1)	26						TTGCCACAGACACGCTTGATG	0.517																																																0													138	109	119					11																	35492269		2202	4298	6500	SO:0001583	missense	25891				CCDS7898.1, CCDS31460.1, CCDS60759.1, CCDS60760.1	11p13	2009-09-30			ENSG00000149090	ENSG00000149090			24554	protein-coding gene	gene with protein product	"regeneration-associated muscle protease"					15111323	Standard	NM_001282675		Approved	RAMP, DKFZP586H2123	uc001mwf.3	Q6UXH9	OTTHUMG00000166328	ENST00000378880.2:c.592G>T	11.37:g.35492269C>A	ENSP00000368158:p.Val198Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A8MQ58|B7ZA73|Q5EBL7|Q5JPI4|Q6N062|Q71RE9|Q96JW2|Q9Y432	Missense_Mutation	SNP	ENST00000378880.2	37	CCDS31460.1	.	.	.	.	.	.	.	.	.	.	C	0.044	-1.272703	0.01421	.	.	ENSG00000149090	ENST00000278360;ENST00000378880;ENST00000532848;ENST00000527605	T;T;T;T	0.14893	2.47;2.47;2.47;2.47	5.39	-1.35	0.09114	CUB (5);	0.174175	0.53938	N	0.000059	T	0.03011	0.0089	N	0.00116	-2.08	0.80722	D	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.43556	-0.9384	10	0.87932	D	0	.	8.1749	0.31276	0.6507:0.2318:0.1175:0.0	.	198;198	Q6UXH9;Q6UXH9-2	PAMR1_HUMAN;.	F	198;198;158;158	ENSP00000278360:V198F;ENSP00000368158:V198F;ENSP00000433868:V158F;ENSP00000432591:V158F	ENSP00000278360:V198F	V	-	1	0	PAMR1	35448845	1.000000	0.71417	0.947000	0.38551	0.104000	0.19210	3.458000	0.53014	-0.534000	0.06315	-0.181000	0.13052	GTC		0.517	PAMR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389177.1	NM_015430		A	35492269	C	A	35492269	3	1	612	1	0	0	0	0	1	0	0	0	11420	478	17	4	1653	4	PAMR1	11	35492269	Missense_Mutation	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	12732962	35492269	99514247	49	37301										
SLC43A3	29015	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	57182446	57182446	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gccatgttggtcagcaaggaGttgagagtgccaatgaagag	15	6	1	3			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr11:57182446G>C	ENST00000395123.2	-	10	1207	c.903C>G	c.(901-903)aaC>aaG	p.N301K	SLC43A3_ENST00000528098.1_5'Flank|SLC43A3_ENST00000529554.1_Missense_Mutation_p.N301K|SLC43A3_ENST00000352187.1_Missense_Mutation_p.N301K|SLC43A3_ENST00000395124.1_Missense_Mutation_p.N301K|SLC43A3_ENST00000533524.1_Missense_Mutation_p.N314K	NM_001278201.1|NM_014096.2	NP_001265130.1|NP_054815.2	Q8NBI5	S43A3_HUMAN	solute carrier family 43, member 3	301					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(1)|large_intestine(10)|lung(4)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	27						TCAGCAAGGAGTTGAGAGTGC	0.582																																																0													129	110	117					11																	57182446		2201	4296	6497	SO:0001583	missense	29015			AL157431	CCDS7956.1, CCDS60784.1	11q11	2013-05-22			ENSG00000134802	ENSG00000134802		"Solute carriers"	17466	protein-coding gene	gene with protein product	"likely ortholog of mouse embryonic epithelial gene 1"					7531438, 11704567	Standard	NM_017611		Approved	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659	uc001nki.3	Q8NBI5	OTTHUMG00000167113	ENST00000395123.2:c.903C>G	11.37:g.57182446G>C	ENSP00000378555:p.Asn301Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DNR8|E7EQD2|Q9NSS4	Missense_Mutation	SNP	ENST00000395123.2	37	CCDS7956.1	.	.	.	.	.	.	.	.	.	.	G	17.62	3.434719	0.62955	.	.	ENSG00000134802	ENST00000395123;ENST00000395124;ENST00000352187;ENST00000529554;ENST00000533524;ENST00000530005	T;T;T;T;T;T	0.58652	0.37;0.37;0.37;0.37;0.37;0.32	5.05	4.13	0.48395	Major facilitator superfamily domain, general substrate transporter (1);	0.094270	0.64402	D	0.000001	T	0.58395	0.2119	M	0.71296	2.17	0.43924	D	0.99657	P;B;B	0.37548	0.599;0.186;0.343	B;B;B	0.44278	0.445;0.158;0.314	T	0.56019	-0.8048	10	0.06625	T	0.88	-17.6813	12.7477	0.57289	0.0:0.1658:0.8342:0.0	.	314;301;301	E7EQD2;Q8NBI5;A8K2X6	.;S43A3_HUMAN;.	K	301;301;301;301;314;301	ENSP00000378555:N301K;ENSP00000378556:N301K;ENSP00000337561:N301K;ENSP00000436254:N301K;ENSP00000434515:N314K;ENSP00000435893:N301K	ENSP00000337561:N301K	N	-	3	2	SLC43A3	56939022	1.000000	0.71417	0.996000	0.52242	0.418000	0.31294	6.596000	0.74113	1.117000	0.41842	0.563000	0.77884	AAC		0.582	SLC43A3-005	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000393057.1	NM_017611		C	57182446	G	C	57182446	3	2	612	1	0	0	0	0	1	0	0	0	14647	1020	36	4	592	4	SLC43A3	11	57182446	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	21690177	57182446	77824070	50	37302										
TUT1	64852	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	62343357	62343370	+	Frame_Shift_Del	DEL	GTAAAGGGATCGGC	GTAAAGGGATCGGC	-													0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ctgggtgaagggtgcaagggGtaaagggatcggcgtagcag					rs149885942|rs371469091		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	GTAAAGGGATCGGC	GTAAAGGGATCGGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr11:62343357_62343370delGTAAAGGGATCGGC	ENST00000476907.1	-	9	2512_2525	c.1821_1834delGCCGATCCCTTTAC	c.(1819-1836)acgccgatccctttacccfs	p.PIPLP608fs	TUT1_ENST00000308436.7_Frame_Shift_Del_p.PIPLP646fs|EEF1G_ENST00000532986.1_5'Flank|EEF1G_ENST00000378019.3_5'Flank|EEF1G_ENST00000329251.4_5'Flank|MIR3654_ENST00000496634.2_Intron			Q9H6E5	STPAP_HUMAN	terminal uridylyl transferase 1, U6 snRNA-specific	608					mRNA cleavage (GO:0006379)|mRNA polyadenylation (GO:0006378)|snRNA processing (GO:0016180)	intercellular bridge (GO:0045171)|nuclear speck (GO:0016607)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|enzyme binding (GO:0019899)|metal ion binding (GO:0046872)|mRNA 3'-UTR binding (GO:0003730)|polynucleotide adenylyltransferase activity (GO:0004652)|RNA binding (GO:0003723)|RNA uridylyltransferase activity (GO:0050265)			breast(1)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(3)|lung(15)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	29						GGTGCAAGGGGTAAAGGGATCGGCGTAGCAGAGA	0.636																																																0																																										SO:0001589	frameshift_variant	64852			BC005013	CCDS8021.1, CCDS8021.2	11q12.2	2014-03-05	2006-10-06	2006-10-06	ENSG00000149016	ENSG00000149016	2.7.7.52	"RNA binding motif (RRM) containing"	26184	protein-coding gene	gene with protein product	"RNA uridylyltransferase", "U6 TUTase", "TUTase 6"	610641	"RNA binding motif protein 21"	RBM21		16790842	Standard	NM_022830		Approved	FLJ22347, FLJ22267, FLJ21850, PAPD2, TUTase	uc001nto.2	Q9H6E5	OTTHUMG00000158564	ENST00000476907.1:c.1821_1834delGCCGATCCCTTTAC	11.37:g.62343357_62343370delGTAAAGGGATCGGC	ENSP00000419607:p.Pro608fs	Somatic		WXS	Illumina HiSeq	Phase_I	A1A527|A8K995|Q2NL65|Q7L583|Q9H6H7	Frame_Shift_Del	DEL	ENST00000476907.1	37																																																																																					0.636	TUT1-001	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000351319.2	NM_022830		-	62343370	GTAAAGGGATCGGC	-	62343357	7	5	612	1	0	1	0	1	0	0	0	0	16792	1261	44	0	794	0	TUT1	11	62343357	Frame_Shift_Del	DEL	GTAAAGGGATCGGC	TCGA-HE-A5NL-01A-11D-A26P-10	5160911	62343357	72663159	51	37303										
PDE2A	5138	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	72292965	72292965	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ttgtagttgttgatgaaattCatgtcctgcagcatgctcag	10	7	2	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr11:72292965C>T	ENST00000334456.5	-	22	2123	c.1878G>A	c.(1876-1878)atG>atA	p.M626I	PDE2A_ENST00000444035.2_Missense_Mutation_p.M617I|RP11-169D4.2_ENST00000545254.1_RNA|PDE2A_ENST00000376450.3_Missense_Mutation_p.M370I|PDE2A_ENST00000418754.2_Missense_Mutation_p.M511I|PDE2A_ENST00000540345.1_Missense_Mutation_p.M617I|PDE2A_ENST00000544570.1_Missense_Mutation_p.M619I	NM_002599.4	NP_002590.1	O00408	PDE2A_HUMAN	phosphodiesterase 2A, cGMP-stimulated	626					blood coagulation (GO:0007596)|calcium ion transmembrane transport (GO:0070588)|cAMP catabolic process (GO:0006198)|cAMP-mediated signaling (GO:0019933)|cellular response to cGMP (GO:0071321)|cellular response to drug (GO:0035690)|cellular response to granulocyte macrophage colony-stimulating factor stimulus (GO:0097011)|cellular response to macrophage colony-stimulating factor stimulus (GO:0036006)|cellular response to mechanical stimulus (GO:0071260)|cellular response to transforming growth factor beta stimulus (GO:0071560)|cGMP catabolic process (GO:0046069)|cGMP-mediated signaling (GO:0019934)|establishment of endothelial barrier (GO:0061028)|metabolic process (GO:0008152)|monocyte differentiation (GO:0030224)|negative regulation of cAMP biosynthetic process (GO:0030818)|negative regulation of protein import into nucleus, translocation (GO:0033159)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of vascular permeability (GO:0043116)|positive regulation of inflammatory response (GO:0050729)|positive regulation of vascular permeability (GO:0043117)|protein targeting to mitochondrion (GO:0006626)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|mitochondrial matrix (GO:0005759)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|presynaptic membrane (GO:0042734)	calcium channel activity (GO:0005262)|cAMP binding (GO:0030552)|cGMP binding (GO:0030553)|cGMP-stimulated cyclic-nucleotide phosphodiesterase activity (GO:0004118)|cyclic-nucleotide phosphodiesterase activity (GO:0004112)|drug binding (GO:0008144)|metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|TPR domain binding (GO:0030911)			breast(2)|endometrium(1)|kidney(3)|large_intestine(2)|lung(21)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	36			BRCA - Breast invasive adenocarcinoma(5;3.55e-05)		Caffeine(DB00201)|Tofisopam(DB08811)	TGATGAAATTCATGTCCTGCA	0.577																																																0													78	79	78					11																	72292965		2200	4293	6493	SO:0001583	missense	5138			U67733	CCDS8216.1, CCDS44670.1, CCDS53678.1, CCDS73345.1	11q13.1-q14.1	2008-05-14			ENSG00000186642	ENSG00000186642	3.1.4.17	"Phosphodiesterases"	8777	protein-coding gene	gene with protein product		602658				9210593	Standard	NM_002599		Approved		uc010rrc.2	O00408	OTTHUMG00000102045	ENST00000334456.5:c.1878G>A	11.37:g.72292965C>T	ENSP00000334910:p.Met626Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2R646|B3KRV5|E9PGI1|F6W5Z0|Q5J791|Q5J792|Q5J793|Q6ZMR1	Missense_Mutation	SNP	ENST00000334456.5	37	CCDS8216.1	.	.	.	.	.	.	.	.	.	.	C	19.78	3.890586	0.72524	.	.	ENSG00000186642	ENST00000334456;ENST00000376450;ENST00000444035;ENST00000429363;ENST00000544570;ENST00000418754;ENST00000540345;ENST00000420501;ENST00000441209;ENST00000542223	T;T;T;T;T;T;T;T;T	0.75938	-0.98;-0.98;-0.98;-0.98;-0.98;-0.98;-0.98;-0.98;-0.98	5.51	5.51	0.81932	5&apos (1);-cyclic nucleotide phosphodiesterase, catalytic domain (1);3&apos (1);	0.058122	0.64402	D	0.000002	T	0.69913	0.3164	L	0.46157	1.445	0.53688	D	0.999977	B;B;B;B;B;B	0.31968	0.162;0.087;0.149;0.349;0.087;0.237	B;B;B;B;B;B	0.33042	0.079;0.051;0.051;0.157;0.051;0.051	T	0.68708	-0.5337	10	0.40728	T	0.16	.	16.1456	0.81563	0.0:1.0:0.0:0.0	.	511;626;617;619;626;370	E9PEF1;O00408;E9PGI1;F6W5Z0;B2R646;Q6ZMR1	.;PDE2A_HUMAN;.;.;.;.	I	626;370;617;695;619;511;617;5;167;57	ENSP00000334910:M626I;ENSP00000365633:M370I;ENSP00000411657:M617I;ENSP00000442256:M619I;ENSP00000410310:M511I;ENSP00000446399:M617I;ENSP00000388997:M5I;ENSP00000392457:M167I;ENSP00000440834:M57I	ENSP00000334910:M626I	M	-	3	0	PDE2A	71970613	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.040000	0.76551	2.605000	0.88082	0.563000	0.77884	ATG		0.577	PDE2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219839.2	NM_002599		T	72292965	C	T	72292965	3	4	612	1	0	0	0	0	1	0	0	0	11643	826	29	2	987	2	PDE2A	11	72292965	Missense_Mutation	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	9949608	72292965	62713551	52	37304										
MYO7A	4647	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	76891503	76891503	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	atgagcgccaagaaggccaaGgaggaggccgagcgcaagca	16	10	0	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr11:76891503G>A	ENST00000409709.3	+	22	2942	c.2670G>A	c.(2668-2670)aaG>aaA	p.K890K	MYO7A_ENST00000409893.1_Silent_p.K890K|MYO7A_ENST00000409619.2_Silent_p.K879K|MYO7A_ENST00000458637.2_Silent_p.K890K	NM_000260.3	NP_000251.3	Q13402	MYO7A_HUMAN	myosin VIIA	890					actin filament-based movement (GO:0030048)|auditory receptor cell stereocilium organization (GO:0060088)|equilibrioception (GO:0050957)|eye photoreceptor cell development (GO:0042462)|intracellular protein transport (GO:0006886)|lysosome organization (GO:0007040)|metabolic process (GO:0008152)|phagolysosome assembly (GO:0001845)|pigment granule transport (GO:0051904)|post-embryonic organ morphogenesis (GO:0048563)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|lysosomal membrane (GO:0005765)|melanosome (GO:0042470)|myosin VII complex (GO:0031477)|photoreceptor connecting cilium (GO:0032391)|photoreceptor inner segment (GO:0001917)|photoreceptor outer segment (GO:0001750)|stereocilium (GO:0032420)|synapse (GO:0045202)	actin filament binding (GO:0051015)|actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|calmodulin binding (GO:0005516)|microfilament motor activity (GO:0000146)|spectrin binding (GO:0030507)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(10)|lung(32)|ovary(4)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	64						AGAAGGCCAAGGAGGAGGCCG	0.612																																																0													38	46	43					11																	76891503		2114	4210	6324	SO:0001819	synonymous_variant	4647			U39226	CCDS53683.1, CCDS53684.1, CCDS53685.1	11q13.5	2013-01-08	2005-09-12		ENSG00000137474	ENSG00000137474		"A-kinase anchor proteins", "Myosins / Myosin superfamily : Class VII"	7606	protein-coding gene	gene with protein product		276903	"myosin VIIA (Usher syndrome 1B (autosomal recessive, severe))"	USH1B, DFNB2, DFNA11		8884266	Standard	NM_000260		Approved	NSRD2	uc001oyb.2	Q13402	OTTHUMG00000152822	ENST00000409709.3:c.2670G>A	11.37:g.76891503G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B9A011|F8VUN5|P78427|Q13321|Q14785|Q92821|Q92822	Silent	SNP	ENST00000409709.3	37	CCDS53683.1																																																																																				0.612	MYO7A-001	KNOWN	non_canonical_conserved|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000328133.1	NM_000260		A	76891503	G	A	76891503	2	1	612	1	0	0	0	0	0	0	0	1	10089	991	35	2		2	MYO7A	11	76891503	Silent	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	4598538	76891503	58115013	53	37305										
KBTBD3	143879	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	105925034	105925034	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	aacttgaagaaatgatgacaActggaagaacatttccacat	7	7	0	5			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr11:105925034A>T	ENST00000526793.1	-	3	541	c.382T>A	c.(382-384)Ttg>Atg	p.L128M	KBTBD3_ENST00000534815.1_Missense_Mutation_p.L49M|KBTBD3_ENST00000531837.1_Missense_Mutation_p.L128M	NM_152433.3	NP_689646.2	Q8NAB2	KBTB3_HUMAN	kelch repeat and BTB (POZ) domain containing 3	124										NS(1)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(9)|lung(6)|ovary(1)|prostate(1)	25		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.43e-05)|Epithelial(105;0.00418)|all cancers(92;0.0299)		AATGATGACAACTGGAAGAAC	0.308																																																0													82	88	86					11																	105925034		2201	4298	6499	SO:0001583	missense	143879			AK055247	CCDS8334.1	11q22.3	2013-01-08	2003-12-12	2003-12-17		ENSG00000182359		"BTB/POZ domain containing"	22934	protein-coding gene	gene with protein product			"BTB and kelch domain containing 3"	BKLHD3			Standard	NM_198439		Approved		uc001pjb.3	Q8NAB2		ENST00000526793.1:c.382T>A	11.37:g.105925034A>T	ENSP00000436262:p.Leu128Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q6N066|Q86X38|Q96NK5	Missense_Mutation	SNP	ENST00000526793.1	37	CCDS8334.1	.	.	.	.	.	.	.	.	.	.	A	7.067	0.567452	0.13560	.	.	ENSG00000182359	ENST00000534815;ENST00000526793;ENST00000531837	T;T;T	0.72835	-0.69;-0.69;-0.69	5.22	1.55	0.23275	BTB/POZ-like (1);BTB/POZ (1);BTB/POZ fold (2);	0.271361	0.35936	N	0.002898	T	0.47451	0.1446	N	0.21545	0.675	0.32074	N	0.594092	B;B	0.23377	0.052;0.084	B;B	0.23018	0.043;0.029	T	0.33650	-0.9860	10	0.33940	T	0.23	.	1.1059	0.01693	0.4145:0.1523:0.286:0.1472	.	128;124	A8K1K0;Q8NAB2	.;KBTB3_HUMAN	M	49;128;128	ENSP00000431910:L49M;ENSP00000436262:L128M;ENSP00000432163:L128M	ENSP00000436262:L128M	L	-	1	2	KBTBD3	105430244	1.000000	0.71417	0.999000	0.59377	0.990000	0.78478	1.122000	0.31295	0.006000	0.14734	-0.421000	0.06004	TTG		0.308	KBTBD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388705.2	NM_152433		T	105925034	A	T	105925034	3	4	612	1	0	0	0	0	1	0	0	0	8001	40	2	5	1460	5	KBTBD3	11	105925034	Missense_Mutation	SNP	A	TCGA-HE-A5NL-01A-11D-A26P-10	29033531	105925034	29081482	54	37306										
ESAM	90952	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	124623587	124623587	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	tgggcaggcaccatcacaggCacagcacccatgcggctcaa	11	15	2	0			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr11:124623587C>T	ENST00000278927.5	-	7	1257	c.1128G>A	c.(1126-1128)gtG>gtA	p.V376V	ESAM_ENST00000442070.2_Intron|VSIG2_ENST00000326621.5_5'Flank|VSIG2_ENST00000403470.1_5'Flank	NM_138961.2	NP_620411.2	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule	376					blood coagulation (GO:0007596)|homophilic cell adhesion (GO:0007156)|leukocyte migration (GO:0050900)|single organismal cell-cell adhesion (GO:0016337)	adherens junction (GO:0005912)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|tight junction (GO:0005923)				endometrium(2)|kidney(1)|large_intestine(6)|lung(4)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	16	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)		CCATCACAGGCACAGCACCCA	0.577																																																0													56	58	57					11																	124623587		2201	4299	6500	SO:0001819	synonymous_variant	90952			AK075396	CCDS8453.1	11q24.2	2013-01-29			ENSG00000149564	ENSG00000149564		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	17474	protein-coding gene	gene with protein product		614281				11279107, 11906820	Standard	NM_138961		Approved	W117m	uc001qav.4	Q96AP7	OTTHUMG00000151986	ENST00000278927.5:c.1128G>A	11.37:g.124623587C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DVN8|Q96T50	Silent	SNP	ENST00000278927.5	37	CCDS8453.1																																																																																				0.577	ESAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324686.1	NM_138961		T	124623587	C	T	124623587	2	4	612	1	0	0	0	0	0	0	0	1	5249	697	25	2		2	ESAM	11	124623587	Silent	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	18698553	124623587	10382929	55	37307										
NTM	50863	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	132180102	132180102	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	agcagtcccctcagcagaatTccagtggtacaaggatgaca	10	11	1	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr11:132180102T>C	ENST00000374786.1	+	5	1237	c.758T>C	c.(757-759)tTc>tCc	p.F253S	NTM_ENST00000427481.2_Missense_Mutation_p.F244S|NTM_ENST00000374791.3_Missense_Mutation_p.F253S|NTM_ENST00000539799.1_Missense_Mutation_p.F253S|NTM_ENST00000474900.1_3'UTR|NTM_ENST00000374784.1_Missense_Mutation_p.F253S|NTM_ENST00000425719.2_Missense_Mutation_p.F253S	NM_001144058.1|NM_016522.2	NP_001137530.1|NP_057606.1	Q9P121	NTRI_HUMAN	neurotrimin	253	Ig-like C2-type 3.				cell adhesion (GO:0007155)|neuron recognition (GO:0008038)	anchored component of membrane (GO:0031225)|plasma membrane (GO:0005886)				breast(2)|central_nervous_system(1)|endometrium(4)|large_intestine(9)|lung(30)|ovary(4)|pancreas(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	56						TCAGCAGAATTCCAGTGGTAC	0.517																																																0													165	162	163					11																	132180102		2201	4297	6498	SO:0001583	missense	50863			AF126426	CCDS8491.1, CCDS41733.1, CCDS44777.1, CCDS44778.1	11q25	2013-01-11			ENSG00000182667	ENSG00000182667		"Immunoglobulin superfamily / I-set domain containing"	17941	protein-coding gene	gene with protein product	"neurotrimin", "IgLON family member 2"	607938				7891157	Standard	NM_001048209		Approved	HNT, NTRI, IGLON2	uc001qgq.3	Q9P121	OTTHUMG00000066364	ENST00000374786.1:c.758T>C	11.37:g.132180102T>C	ENSP00000363918:p.Phe253Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A0MTT2|Q6UXJ3|Q86VJ9	Missense_Mutation	SNP	ENST00000374786.1	37	CCDS8491.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	27.9|27.9	4.869133|4.869133	0.91587|0.91587	.|.	.|.	ENSG00000182667|ENSG00000182667	ENST00000374791;ENST00000539799;ENST00000427481;ENST00000374786;ENST00000425719;ENST00000374784|ENST00000457381	T;T;T;T;T;T|.	0.67523|.	-0.27;-0.27;-0.27;-0.27;-0.27;-0.27|.	6.07|6.07	6.07|6.07	0.98685|0.98685	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.78886|0.78886	0.4354|0.4354	M|M	0.82323|0.82323	2.585|2.585	0.80722|0.80722	D|D	1|1	D;D;D;D;D;D|.	0.89917|.	1.0;1.0;1.0;1.0;1.0;1.0|.	D;D;D;D;D;D|.	0.91635|.	0.998;0.999;0.996;0.999;0.997;0.997|.	T|T	0.80251|0.80251	-0.1460|-0.1460	10|5	0.13853|.	T|.	0.58|.	-27.0916|-27.0916	16.6288|16.6288	0.85011|0.85011	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	253;244;253;253;253;253|.	B7Z1Z5;B7Z1I4;Q9P121-4;Q9P121;Q9P121-3;Q9P121-2|.	.;.;.;NTRI_HUMAN;.;.|.	S|P	253;253;244;253;253;253|5	ENSP00000363923:F253S;ENSP00000437668:F253S;ENSP00000416320:F244S;ENSP00000363918:F253S;ENSP00000396722:F253S;ENSP00000363916:F253S|.	ENSP00000363916:F253S|.	F|S	+|+	2|1	0|0	NTM|NTM	131685312|131685312	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	5.864000|5.864000	0.69575|0.69575	2.326000|2.326000	0.78906|0.78906	0.533000|0.533000	0.62120|0.62120	TTC|TCC		0.517	NTM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000141937.1	NM_016522		C	132180102	T	C	132180102	3	2	612	1	0	0	0	0	1	0	0	0	10706	1783	62	3	862	3	NTM	11	132180102	Missense_Mutation	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10	7556515	132180102	2826414	56	37308										
TCHP	84260	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	110341898	110341898	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	atgaacttgcaggaaagaagAatccgggagcagcacgggaa	14	7	0	3			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr12:110341898A>T	ENST00000312777.5	+	3	559	c.345A>T	c.(343-345)agA>agT	p.R115S	TCHP_ENST00000405876.4_Missense_Mutation_p.R115S	NM_032300.4	NP_115676.1			trichoplein, keratin filament binding											NS(1)|breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(8)|ovary(1)|skin(2)	22						AGGAAAGAAGAATCCGGGAGC	0.577																																																0													59	52	55					12																	110341898		2200	4296	6496	SO:0001583	missense	84260			AK092736	CCDS9137.1	12q24.11	2011-08-25	2006-01-27			ENSG00000139437			28135	protein-coding gene	gene with protein product	"mitostatin"	612654				15731013, 20930847	Standard	NM_032300		Approved	MGC10854, TpMs	uc001tpn.3	Q9BT92		ENST00000312777.5:c.345A>T	12.37:g.110341898A>T	ENSP00000324404:p.Arg115Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000312777.5	37	CCDS9137.1	.	.	.	.	.	.	.	.	.	.	A	12.33	1.905459	0.33628	.	.	ENSG00000139437	ENST00000405876;ENST00000536868;ENST00000312777;ENST00000536408	T;T;T	0.42900	1.52;1.52;0.96	5.08	-4.39	0.03611	.	0.427244	0.26723	N	0.022822	T	0.19967	0.0480	L	0.38175	1.15	0.20926	N	0.99982	B	0.17852	0.024	B	0.10450	0.005	T	0.12066	-1.0562	10	0.18276	T	0.48	-3.2278	1.3904	0.02249	0.3888:0.1111:0.3091:0.1911	.	115	Q9BT92	TCHP_HUMAN	S	115	ENSP00000384520:R115S;ENSP00000324404:R115S;ENSP00000441835:R115S	ENSP00000324404:R115S	R	+	3	2	TCHP	108826281	0.872000	0.30054	0.473000	0.27253	0.658000	0.38924	1.003000	0.29809	-0.513000	0.06496	0.456000	0.33151	AGA		0.577	TCHP-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403289.1	NM_032300		T	110341898	A	T	110341898	3	4	612	1	0	0	0	0	1	0	0	0	15714	243	9	5	351	5	TCHP	12	110341898	Missense_Mutation	SNP	A	TCGA-HE-A5NL-01A-11D-A26P-10		110341898	23509997	57	37309										
EXOSC8	11340	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	37583387	37583387	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	agcagttacaagacacaaagAagttaaaaaactgatggatg	9	5	0	3			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr13:37583387A>G	ENST00000389704.3	+	11	1047	c.782A>G	c.(781-783)gAa>gGa	p.E261G		NM_181503.2	NP_852480.1	Q96B26	EXOS8_HUMAN	exosome component 8	261					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay (GO:0043928)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|RNA metabolic process (GO:0016070)|rRNA processing (GO:0006364)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|exosome (RNase complex) (GO:0000178)|nucleus (GO:0005634)	AU-rich element binding (GO:0017091)			biliary_tract(1)|breast(1)|kidney(2)|pancreas(1)|prostate(1)|skin(1)	7		Lung NSC(96;6.57e-05)|Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.67e-07)|Epithelial(112;1.31e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00699)|BRCA - Breast invasive adenocarcinoma(63;0.0117)|GBM - Glioblastoma multiforme(144;0.0411)		AGACACAAAGAAGTTAAAAAA	0.338																																																0													57	56	56					13																	37583387		2203	4300	6503	SO:0001583	missense	11340			AF025438	CCDS31958.1	13q13.1	2010-05-07			ENSG00000120699	ENSG00000120699	3.1.13.-		17035	protein-coding gene	gene with protein product	"CBP-interacting protein 3", "Opa interacting protein 2"	606019				9466265, 11929972	Standard	NM_181503		Approved	OIP2, RRP43, bA421P11.3, Rrp43p, EAP2, p9, CIP3	uc001uwa.3	Q96B26	OTTHUMG00000016742	ENST00000389704.3:c.782A>G	13.37:g.37583387A>G	ENSP00000374354:p.Glu261Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O43480|Q5TBA5	Missense_Mutation	SNP	ENST00000389704.3	37	CCDS31958.1	.	.	.	.	.	.	.	.	.	.	A	19.62	3.862459	0.71949	.	.	ENSG00000120699	ENST00000389704;ENST00000379809;ENST00000481013	T	0.52754	0.65	5.92	5.92	0.95590	Exoribonuclease, phosphorolytic domain 2 (1);	0.000000	0.85682	D	0.000000	T	0.69088	0.3072	M	0.77820	2.39	0.80722	D	1	P;D	0.76494	0.944;0.999	P;D	0.69654	0.56;0.965	T	0.71052	-0.4704	10	0.49607	T	0.09	-29.8227	16.3593	0.83251	1.0:0.0:0.0:0.0	.	233;261	Q5JXM0;Q96B26	.;EXOS8_HUMAN	G	261;233;54	ENSP00000374354:E261G	ENSP00000369137:E233G	E	+	2	0	EXOSC8	36481387	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	8.372000	0.90127	2.267000	0.75376	0.383000	0.25322	GAA		0.338	EXOSC8-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044535.2	NM_181503		G	37583387	A	G	37583387	3	3	612	1	0	0	0	0	1	0	0	0	5322	246	9	3	824	3	EXOSC8	13	37583387	Missense_Mutation	SNP	A	TCGA-HE-A5NL-01A-11D-A26P-10		37583387	77586491	58	37310										
KIAA0564	23078	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	42293875	42293875	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ggagagaccttcagtcggaaAtttctgtattaaaaaaaaat	8	5	2	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr13:42293875A>G	ENST00000379310.3	-	26	3036	c.2968T>C	c.(2968-2970)Ttt>Ctt	p.F990L	VWA8_ENST00000281496.6_Missense_Mutation_p.F990L	NM_015058.1	NP_055873.1	A3KMH1	VWA8_HUMAN	von Willebrand factor A domain containing 8	990						extracellular region (GO:0005576)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)										TCAGTCGGAAATTTCTGTATT	0.294																																																0													68	64	65					13																	42293875		2203	4300	6503	SO:0001583	missense	23078			AB011136	CCDS31963.1, CCDS41881.1	13q14.11	2013-11-18	2012-08-02	2012-08-02	ENSG00000102763	ENSG00000102763			29071	protein-coding gene	gene with protein product			"KIAA0564"	KIAA0564		9628581	Standard	NM_015058		Approved		uc001uyj.3	A3KMH1	OTTHUMG00000016799	ENST00000379310.3:c.2968T>C	13.37:g.42293875A>G	ENSP00000368612:p.Phe990Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O60310|Q5JTP6|Q5VW08|Q7Z6I9|Q86YC9|Q8N3E4	Missense_Mutation	SNP	ENST00000379310.3	37	CCDS41881.1	.	.	.	.	.	.	.	.	.	.	A	29.6	5.023069	0.93462	.	.	ENSG00000102763	ENST00000251030;ENST00000379310;ENST00000281496	T;T	0.26810	1.71;1.71	5.41	5.41	0.78517	.	0.000000	0.85682	D	0.000000	T	0.52240	0.1722	M	0.87456	2.885	0.80722	D	1	D	0.59357	0.985	P	0.57720	0.826	T	0.61133	-0.7124	10	0.62326	D	0.03	.	15.7306	0.77800	1.0:0.0:0.0:0.0	.	990	A3KMH1	K0564_HUMAN	L	894;990;990	ENSP00000368612:F990L;ENSP00000281496:F990L	ENSP00000251030:F894L	F	-	1	0	KIAA0564	41191875	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.248000	0.95456	2.175000	0.68902	0.477000	0.44152	TTT		0.294	VWA8-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354828.2	NM_015058		G	42293875	A	G	42293875	3	3	612	1	0	0	0	0	1	0	0	0	8192	101	4	3	2833	3	KIAA0564	13	42293875	Missense_Mutation	SNP	A	TCGA-HE-A5NL-01A-11D-A26P-10	4710488	42293875	72876003	59	37311										
TIMM9	26520	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	58878635	58878635	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	aataccttacctgttttatcTgatcagattctggtatttgt	6	7	3	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr14:58878635T>C	ENST00000395159.2	-	4	554	c.29A>G	c.(28-30)cAg>cGg	p.Q10R	TIMM9_ENST00000555593.1_Missense_Mutation_p.Q10R|RP11-517O13.1_ENST00000556734.1_RNA|TIMM9_ENST00000556007.2_Missense_Mutation_p.Q10R|TIMM9_ENST00000216463.4_Intron|TIMM9_ENST00000555061.1_Missense_Mutation_p.Q10R|TIMM9_ENST00000555404.1_Missense_Mutation_p.Q10R	NM_012460.2	NP_036592.1	Q9Y5J7	TIM9_HUMAN	translocase of inner mitochondrial membrane 9 homolog (yeast)	10					cellular protein metabolic process (GO:0044267)|chaperone-mediated protein transport (GO:0072321)|protein import into mitochondrial inner membrane (GO:0045039)|protein targeting to mitochondrion (GO:0006626)|sensory perception of sound (GO:0007605)	mitochondrial inner membrane (GO:0005743)|mitochondrial intermembrane space (GO:0005758)|mitochondrial intermembrane space protein transporter complex (GO:0042719)|mitochondrion (GO:0005739)	chaperone binding (GO:0051087)|protein homodimerization activity (GO:0042803)|transporter activity (GO:0005215)|zinc ion binding (GO:0008270)			kidney(2)|skin(1)	3						CTGTTTTATCTGATCAGATTC	0.353																																																0													113	110	111					14																	58878635		2203	4300	6503	SO:0001583	missense	26520			AF150100	CCDS9735.1	14q22.3-q24	2008-07-04	2001-11-28		ENSG00000100575	ENSG00000100575			11819	protein-coding gene	gene with protein product		607384	"translocase of inner mitochondrial membrane 9 (yeast) homolog"			10552927, 14726512	Standard	NM_012460		Approved	TIM9A	uc001xds.3	Q9Y5J7	OTTHUMG00000140322	ENST00000395159.2:c.29A>G	14.37:g.58878635T>C	ENSP00000378588:p.Gln10Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2R584	Missense_Mutation	SNP	ENST00000395159.2	37	CCDS9735.1	.	.	.	.	.	.	.	.	.	.	T	24.0	4.480758	0.84747	.	.	ENSG00000100575	ENST00000395159;ENST00000555593;ENST00000556007;ENST00000555061;ENST00000555404;ENST00000555097;ENST00000553450	T;T;T;T;T;T	0.67698	-0.28;-0.28;-0.28;-0.28;-0.28;-0.28	5.07	5.07	0.68467	.	0.000000	0.85682	D	0.000000	T	0.81302	0.4794	.	.	.	0.80722	D	1	D	0.89917	1.0	D	0.74674	0.984	D	0.84141	0.0417	9	0.87932	D	0	-16.1458	14.6598	0.68861	0.0:0.0:0.0:1.0	.	10	Q9Y5J7	TIM9_HUMAN	R	10	ENSP00000378588:Q10R;ENSP00000451006:Q10R;ENSP00000452091:Q10R;ENSP00000450638:Q10R;ENSP00000451198:Q10R;ENSP00000450624:Q10R	ENSP00000216463:Q10R	Q	-	2	0	TIMM9	57948388	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.606000	0.82863	2.130000	0.65690	0.528000	0.53228	CAG		0.353	TIMM9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276936.2			C	58878635	T	C	58878635	3	2	612	1	0	0	0	0	1	0	0	0	15928	1580	55	3	252	3	TIMM9	14	58878635	Missense_Mutation	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10		58878635	48470905	60	37312										
WDR72	256764	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	53815462	53815462	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	atctgtcaggcatgtcctccAcgtcttggaagtttgccgag	11	11	3	0			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr15:53815462A>G	ENST00000396328.1	-	19	3445	c.3206T>C	c.(3205-3207)gTg>gCg	p.V1069A	WDR72_ENST00000360509.5_Missense_Mutation_p.V1069A|WDR72_ENST00000567224.1_5'UTR|WDR72_ENST00000559418.1_Missense_Mutation_p.V1079A|WDR72_ENST00000557913.1_Missense_Mutation_p.V1066A	NM_001277176.1|NM_182758.2	NP_001264105.1|NP_877435.3	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	1069										NS(1)|breast(1)|endometrium(4)|kidney(4)|large_intestine(18)|lung(29)|prostate(3)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	71				all cancers(107;0.0511)		CATGTCCTCCACGTCTTGGAA	0.443																																																0													190	181	184					15																	53815462		2194	4293	6487	SO:0001583	missense	256764			BX537884	CCDS10151.1, CCDS73730.1	15q21.3	2013-01-09			ENSG00000166415	ENSG00000166415		"WD repeat domain containing"	26790	protein-coding gene	gene with protein product		613214					Standard	NM_182758		Approved	FLJ38736	uc002acj.2	Q3MJ13	OTTHUMG00000131939	ENST00000396328.1:c.3206T>C	15.37:g.53815462A>G	ENSP00000379619:p.Val1069Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z3I3|Q8N8X2	Missense_Mutation	SNP	ENST00000396328.1	37	CCDS10151.1	.	.	.	.	.	.	.	.	.	.	A	0.124	-1.121308	0.01785	.	.	ENSG00000166415	ENST00000396328;ENST00000360509	T;T	0.33216	1.42;1.42	6.17	1.97	0.26223	.	1.192530	0.05923	N	0.633818	T	0.09949	0.0244	N	0.02011	-0.69	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.31308	-0.9948	10	0.10636	T	0.68	.	1.0072	0.01489	0.2223:0.1286:0.3848:0.2643	.	1069	Q3MJ13	WDR72_HUMAN	A	1069	ENSP00000379619:V1069A;ENSP00000353699:V1069A	ENSP00000353699:V1069A	V	-	2	0	WDR72	51602754	0.018000	0.18449	0.000000	0.03702	0.436000	0.31835	0.638000	0.24674	0.137000	0.18759	-0.177000	0.13119	GTG		0.443	WDR72-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254893.2	NM_182758		G	53815462	A	G	53815462	3	3	612	1	0	0	0	0	1	0	0	0	17334	159	6	3	110	3	WDR72	15	53815462	Missense_Mutation	SNP	A	TCGA-HE-A5NL-01A-11D-A26P-10		53815462	48715930	61	37313										
TLN2	83660	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	63097959	63097959	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	caacctgagccggaaagccgTgtcagatatgttgacggctt	12	10	1	3			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr15:63097959T>A	ENST00000561311.1	+	50	6868	c.6638T>A	c.(6637-6639)gTg>gAg	p.V2213E	TLN2_ENST00000306829.6_Missense_Mutation_p.V2213E			Q9Y4G6	TLN2_HUMAN	talin 2	2213					cell adhesion (GO:0007155)|cell-cell junction assembly (GO:0007043)|cytoskeletal anchoring at plasma membrane (GO:0007016)	actin cytoskeleton (GO:0015629)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|fascia adherens (GO:0005916)|focal adhesion (GO:0005925)|plasma membrane (GO:0005886)|ruffle (GO:0001726)|synapse (GO:0045202)	actin binding (GO:0003779)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			NS(3)|breast(6)|central_nervous_system(3)|endometrium(8)|kidney(8)|large_intestine(20)|lung(34)|ovary(6)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(5)	99						CGGAAAGCCGTGTCAGATATG	0.512																																																0													77	68	71					15																	63097959		2203	4300	6503	SO:0001583	missense	83660			AB002318	CCDS32261.1	15q15-q21	2008-07-03			ENSG00000171914	ENSG00000171914			15447	protein-coding gene	gene with protein product		607349				9205841, 11527381	Standard	NM_015059		Approved	KIAA0320, ILWEQ	uc002alb.4	Q9Y4G6	OTTHUMG00000133679	ENST00000561311.1:c.6638T>A	15.37:g.63097959T>A	ENSP00000453508:p.Val2213Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLB8	Missense_Mutation	SNP	ENST00000561311.1	37	CCDS32261.1	.	.	.	.	.	.	.	.	.	.	T	32	5.119444	0.94385	.	.	ENSG00000171914	ENST00000306829	T	0.77098	-1.07	5.83	5.83	0.93111	.	0.055071	0.64402	D	0.000001	T	0.79724	0.4495	M	0.62723	1.935	0.80722	D	1	P	0.40398	0.716	B	0.43478	0.421	T	0.82133	-0.0608	10	0.87932	D	0	-21.9765	16.2009	0.82078	0.0:0.0:0.0:1.0	.	2213	Q9Y4G6	TLN2_HUMAN	E	2213	ENSP00000303476:V2213E	ENSP00000303476:V2213E	V	+	2	0	TLN2	60885012	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	7.997000	0.88414	2.235000	0.73313	0.533000	0.62120	GTG		0.512	TLN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257878.2			A	63097959	T	A	63097959	3	1	612	1	0	0	0	0	1	0	0	0	15960	1696	59	5	6828	5	TLN2	15	63097959	Missense_Mutation	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10	9282497	63097959	39433433	62	37314										
MEGF11	84465	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	66190397	66190397	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ctggatatagctggagttatGaccgcaaccttcttggacca	10	10	1	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr15:66190397G>A	ENST00000409699.2	-	23	3182	c.3010C>T	c.(3010-3012)Cat>Tat	p.H1004Y	MEGF11_ENST00000395625.2_Missense_Mutation_p.H929Y|MEGF11_ENST00000360698.4_3'UTR|MEGF11_ENST00000422354.1_Missense_Mutation_p.H1004Y|MEGF11_ENST00000288745.3_Missense_Mutation_p.H929Y|MEGF11_ENST00000478721.1_5'Flank			A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11	1004					homotypic cell-cell adhesion (GO:0034109)|retina layer formation (GO:0010842)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(4)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	19						CTGGAGTTATGACCGCAACCT	0.463																																																0													124	107	113					15																	66190397		2201	4299	6500	SO:0001583	missense	84465			AB058677	CCDS10213.2	15q22.31	2006-03-31			ENSG00000157890	ENSG00000157890			29635	protein-coding gene	gene with protein product		612454				11347906	Standard	NM_032445		Approved	KIAA1781, DKFZp434L121	uc002apm.2	A6BM72	OTTHUMG00000133175	ENST00000409699.2:c.3010C>T	15.37:g.66190397G>A	ENSP00000386908:p.His1004Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q17R86|Q6UXS5|Q8ND91|Q96KG6	Missense_Mutation	SNP	ENST00000409699.2	37	CCDS10213.2	.	.	.	.	.	.	.	.	.	.	G	0.007	-1.943794	0.00479	.	.	ENSG00000157890	ENST00000409699;ENST00000288745;ENST00000422354;ENST00000395625	D;D;D;D	0.86694	-2.16;-2.05;-2.16;-2.05	5.03	4.11	0.48088	.	0.766593	0.10702	U	0.643968	T	0.77191	0.4094	N	0.22421	0.69	0.18873	N	0.999982	B;B	0.22746	0.015;0.074	B;B	0.24269	0.008;0.052	T	0.56619	-0.7949	10	0.02654	T	1	.	12.3211	0.54985	0.0833:0.0:0.9167:0.0	.	1004;929	A6BM72;A6BM72-2	MEG11_HUMAN;.	Y	1004;929;1004;929	ENSP00000386908:H1004Y;ENSP00000288745:H929Y;ENSP00000414475:H1004Y;ENSP00000378987:H929Y	ENSP00000288745:H929Y	H	-	1	0	MEGF11	63977451	0.017000	0.18338	0.046000	0.18839	0.418000	0.31294	1.820000	0.39032	1.300000	0.44818	0.655000	0.94253	CAT		0.463	MEGF11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329307.2	NM_032445		A	66190397	G	A	66190397	3	1	612	1	0	0	0	0	1	0	0	0	9468	1290	45	2	128	2	MEGF11	15	66190397	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	3092438	66190397	36340995	63	37315										
DNAH3	55567	bcgsc.ca	37	chr16	20976403	20976403	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gtcattcagggcctggagccGatctaccaccagcttcagct	10	14	4	0	rs143399673		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr16:20976403G>A	ENST00000261383.3	-	53	8802	c.8803C>T	c.(8803-8805)Cgg>Tgg	p.R2935W	DNAH3_ENST00000415178.1_3'UTR	NM_017539.1	NP_060009.1	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2935	Stalk. {ECO:0000250}.				cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|microtubule motor activity (GO:0003777)			NS(3)|autonomic_ganglia(1)|breast(12)|central_nervous_system(3)|cervix(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(4)|kidney(10)|large_intestine(42)|liver(2)|lung(57)|ovary(14)|pancreas(1)|prostate(7)|skin(11)|stomach(5)|upper_aerodigestive_tract(7)|urinary_tract(6)	202				GBM - Glioblastoma multiforme(48;0.207)		GCCTGGAGCCGATCTACCACC	0.532																																																0								G	TRP/ARG	1,4401	2.1+/-5.4	0,1,2200	190	180	183		8803	5	0.1	16	dbSNP_134	183	0,8600		0,0,4300	no	missense	DNAH3	NM_017539.1	101	0,1,6500	AA,AG,GG		0.0,0.0227,0.0077	probably-damaging	2935/4117	20976403	1,13001	2201	4300	6501	SO:0001583	missense	55567			U83574	CCDS10594.1	16p12.2	2008-08-01	2006-09-04		ENSG00000158486	ENSG00000158486		"Axonemal dyneins"	2949	protein-coding gene	gene with protein product		603334	"dynein, axonemal, heavy polypeptide 3"			9256245, 9373155	Standard	NM_017539		Approved	Dnahc3b, DLP3, Hsadhc3, DKFZp434N074	uc010vbe.2	Q8TD57	OTTHUMG00000090677	ENST00000261383.3:c.8803C>T	16.37:g.20976403G>A	ENSP00000261383:p.Arg2935Trp	Somatic		WXS	Illumina HiSeq	Phase_1	O00437|O15437|O43326|Q3C0H2|Q8WUP9|Q9UEM3|Q9UEM5|Q9UG35	Missense_Mutation	SNP	ENST00000261383.3	37	CCDS10594.1	.	.	.	.	.	.	.	.	.	.	G	10.77	1.444776	0.25987	2.27E-4	0.0	ENSG00000158486	ENST00000261383	T	0.74632	-0.86	5.93	4.96	0.65561	Dynein heavy chain, coiled coil stalk (1);	0.153499	0.43260	D	0.000600	D	0.88262	0.6389	M	0.88181	2.935	0.80722	D	1	D	0.89917	1.0	D	0.75484	0.986	D	0.90761	0.4665	10	0.87932	D	0	.	16.4106	0.83712	0.0:0.0:0.8675:0.1325	.	2935	Q8TD57	DYH3_HUMAN	W	2935	ENSP00000261383:R2935W	ENSP00000261383:R2935W	R	-	1	2	DNAH3	20883904	1.000000	0.71417	0.054000	0.19295	0.001000	0.01503	3.924000	0.56476	1.485000	0.48380	0.655000	0.94253	CGG		0.532	DNAH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207361.1	NM_017539		A	20976403	G	A	20976403	3	1	612	1	0	0	0	0	1	0	0	0	4605	1057	37	1	3586	1	DNAH3	16	20976403	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10		20976403	69378350	64	37316										
EEF2K	29904	ucsc.edu;bcgsc.ca	37	chr16	22291588	22291588	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	atgacggactgtgatgagggCggtgagtacgacggaatgca	17	6	0	4	rs543402357		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr16:22291588C>T	ENST00000263026.5	+	17	2433	c.1959C>T	c.(1957-1959)ggC>ggT	p.G653G		NM_013302.3	NP_037434	O00418	EF2K_HUMAN	eukaryotic elongation factor-2 kinase	653					insulin receptor signaling pathway (GO:0008286)|protein autophosphorylation (GO:0046777)|regulation of protein autophosphorylation (GO:0031952)|translational elongation (GO:0006414)	cytoplasm (GO:0005737)|cytosol (GO:0005829)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|elongation factor-2 kinase activity (GO:0004686)|protein kinase activity (GO:0004672)|translation factor activity, nucleic acid binding (GO:0008135)			breast(1)|central_nervous_system(1)|endometrium(8)|large_intestine(2)|lung(13)|ovary(1)|prostate(1)|skin(2)	29				GBM - Glioblastoma multiforme(48;0.0223)		GTGATGAGGGCGGTGAGTACG	0.612													C|||	1	0.000199681	0.0	0.0014	5008	,	,		19850	0.0		0.0	False		,,,				2504	0.0				NSCLC(195;1411 2157 20319 27471 51856)											0													108	84	92					16																	22291588		2197	4300	6497	SO:0001819	synonymous_variant	29904			U93850	CCDS10604.1	16p12	2008-02-05			ENSG00000103319	ENSG00000103319			24615	protein-coding gene	gene with protein product		606968				9144159, 12051769	Standard	NM_013302		Approved	eEF-2K	uc002dki.3	O00418	OTTHUMG00000094771	ENST00000263026.5:c.1959C>T	16.37:g.22291588C>T		Somatic		WXS	Illumina HiSeq		Q8N588	Silent	SNP	ENST00000263026.5	37	CCDS10604.1																																																																																				0.612	EEF2K-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000211580.2	NM_013302		T	22291588	C	T	22291588	2	4	612	1	0	0	0	0	0	0	0	1	4932	755	27	1		1	EEF2K	16	22291588	Silent	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	1315185	22291588	68063165	65	37317										
IL21R	50615	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	27459983	27459983	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gccaagaggctgcagctcacGgagctacaagaaccagcaga	12	12	1	3			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr16:27459983G>T	ENST00000337929.3	+	9	1469	c.996G>T	c.(994-996)acG>acT	p.T332T	IL21R_ENST00000395754.4_Silent_p.T332T|IL21R_ENST00000564583.1_3'UTR|IL21R_ENST00000395755.1_Silent_p.T332T|IL21R-AS1_ENST00000563191.1_RNA|IL21R_ENST00000564089.1_Silent_p.T332T	NM_181078.2	NP_851564.1	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor	332					interleukin-21-mediated signaling pathway (GO:0038114)|natural killer cell activation (GO:0030101)	integral component of membrane (GO:0016021)	interleukin-21 receptor activity (GO:0001532)			breast(2)|large_intestine(3)|lung(1)|ovary(2)	8						TGCAGCTCACGGAGCTACAAG	0.662			T	BCL6	NHL																																		Dom	yes		16	16p11	50615	interleukin 21 receptor		L	0													27	29	28					16																	27459983		2196	4297	6493	SO:0001819	synonymous_variant	50615			AF254067	CCDS10630.1	16p11	2014-09-17			ENSG00000103522	ENSG00000103522		"Interleukins and interleukin receptors", "CD molecules"	6006	protein-coding gene	gene with protein product		605383				11081504	Standard	NM_181078		Approved	CD360	uc002dos.2	Q9HBE5	OTTHUMG00000131675	ENST00000337929.3:c.996G>T	16.37:g.27459983G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K9E8|D3DWF7|Q96HZ1|Q9HB91	Silent	SNP	ENST00000337929.3	37	CCDS10630.1																																																																																				0.662	IL21R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254578.2	NM_181078		T	27459983	G	T	27459983	2	4	612	1	0	0	0	0	0	0	0	1	7678	1103	39	4		4	IL21R	16	27459983	Silent	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	5168395	27459983	62894770	66	37318										
POLR2C	5432	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	57503976	57503976	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	aagtggaaccctactgcaggGgtggcttttgaatacgatcc	12	9	0	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr16:57503976G>A	ENST00000219252.5	+	7	881	c.543G>A	c.(541-543)ggG>ggA	p.G181G	POLR2C_ENST00000564651.1_3'UTR	NM_032940.2	NP_116558.1	P19387	RPB3_HUMAN	polymerase (RNA) II (DNA directed) polypeptide C, 33kDa	181					7-methylguanosine mRNA capping (GO:0006370)|DNA repair (GO:0006281)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|nucleotide-excision repair (GO:0006289)|positive regulation of viral transcription (GO:0050434)|RNA splicing (GO:0008380)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription-coupled nucleotide-excision repair (GO:0006283)|viral process (GO:0016032)	cytoplasm (GO:0005737)|DNA-directed RNA polymerase II, core complex (GO:0005665)|microtubule cytoskeleton (GO:0015630)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)			breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(2)|upper_aerodigestive_tract(1)	10						CTACTGCAGGGGTGGCTTTTG	0.537																																																0													67	63	64					16																	57503976		2198	4300	6498	SO:0001819	synonymous_variant	5432				CCDS10782.1	16q13-q21	2013-01-21	2002-08-29		ENSG00000102978	ENSG00000102978		"RNA polymerase subunits"	9189	protein-coding gene	gene with protein product	"RNA polymerase II subunit 3"	180663	"polymerase (RNA) II (DNA directed) polypeptide C (33kD)"			8034326	Standard	NM_032940		Approved	RPB3	uc002elt.1	P19387	OTTHUMG00000133464	ENST00000219252.5:c.543G>A	16.37:g.57503976G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O15161	Silent	SNP	ENST00000219252.5	37	CCDS10782.1																																																																																				0.537	POLR2C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257340.3	NM_032940		A	57503976	G	A	57503976	2	1	612	1	0	0	0	0	0	0	0	1	12223	1219	43	2		2	POLR2C	16	57503976	Silent	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	30043993	57503976	32850777	67	37319										
KLHDC4	54758	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	87760467	87760467	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ggccccgtccctgacggggaCagcttgctccatgtgaaggt	14	13	0	2	rs548850415		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr16:87760467C>T	ENST00000270583.5	-	7	721	c.663G>A	c.(661-663)ctG>ctA	p.L221L	KLHDC4_ENST00000566349.1_5'UTR|KLHDC4_ENST00000353170.5_Silent_p.L164L|KLHDC4_ENST00000347925.5_Silent_p.L190L	NM_017566.3	NP_060036.2	Q8TBB5	KLDC4_HUMAN	kelch domain containing 4	221										breast(2)|endometrium(3)|lung(10)|pancreas(2)|prostate(1)|skin(1)|urinary_tract(2)	21				BRCA - Breast invasive adenocarcinoma(80;0.0283)		CTGACGGGGACAGCTTGCTCC	0.557																																																0													91	90	90					16																	87760467		2198	4300	6498	SO:0001819	synonymous_variant	54758			AK001742	CCDS10963.1, CCDS54050.1, CCDS54051.1	16q24	2008-02-05			ENSG00000104731	ENSG00000104731			25272	protein-coding gene	gene with protein product							Standard	NM_001184854		Approved	DKFZp434G0522	uc002fki.3	Q8TBB5	OTTHUMG00000137657	ENST00000270583.5:c.663G>A	16.37:g.87760467C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DUN3|D3DUN4|D3DUN5|Q96F29|Q9BVN3	Silent	SNP	ENST00000270583.5	37	CCDS10963.1																																																																																				0.557	KLHDC4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000269109.2	NM_017566		T	87760467	C	T	87760467	2	4	612	1	0	0	0	0	0	0	0	1	8365	465	17	2		2	KLHDC4	16	87760467	Silent	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	30256491	87760467	2594286	68	37320										
WDR81	124997	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	1630178	1630178	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gccagttttagaggccactcCctgtgaggctagctggacca	12	12	0	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr17:1630178C>G	ENST00000409644.1	+	1	1925	c.1925C>G	c.(1924-1926)cCc>cGc	p.P642R	WDR81_ENST00000309182.5_Intron|RP11-961A15.1_ENST00000576540.1_RNA|WDR81_ENST00000446363.1_Intron|WDR81_ENST00000419248.1_Intron|WDR81_ENST00000437219.2_Intron	NM_001163809.1	NP_001157281.1	Q562E7	WDR81_HUMAN	WD repeat domain 81	642					negative regulation of phosphatase activity (GO:0010923)		transferase activity, transferring phosphorus-containing groups (GO:0016772)			cervix(1)|endometrium(1)|kidney(3)|lung(6)|ovary(2)|prostate(2)|skin(1)	16				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GAGGCCACTCCCTGTGAGGCT	0.587																																																0													7	9	9					17																	1630178		690	1579	2269	SO:0001583	missense	124997			AK074111	CCDS54061.1, CCDS54062.1, CCDS54063.1	17p13.3	2014-06-13			ENSG00000167716	ENSG00000167716		"WD repeat domain containing"	26600	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 166"	614218					Standard	NM_001163673		Approved	FLJ33817, PPP1R166	uc002ftj.2	Q562E7	OTTHUMG00000153941	ENST00000409644.1:c.1925C>G	17.37:g.1630178C>G	ENSP00000386609:p.Pro642Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B3KW16|B3KXU1|B7Z579|E9PHG7|Q24JP6|Q8N277|Q8N3F3|Q8TEL1	Missense_Mutation	SNP	ENST00000409644.1	37	CCDS54062.1	.	.	.	.	.	.	.	.	.	.	C	4.713	0.132661	0.09032	.	.	ENSG00000167716	ENST00000409644	T	0.56275	0.47	5.59	4.62	0.57501	.	.	.	.	.	T	0.55433	0.1920	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.52646	-0.8548	6	0.33940	T	0.23	.	9.7471	0.40453	0.0:0.8428:0.0:0.1572	.	.	.	.	R	642	ENSP00000386609:P642R	ENSP00000386609:P642R	P	+	2	0	WDR81	1576928	0.940000	0.31905	0.835000	0.33067	0.224000	0.24922	3.300000	0.51834	1.349000	0.45751	0.462000	0.41574	CCC		0.587	WDR81-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000333118.2	NM_152348		G	1630178	C	G	1630178	3	3	612	1	0	0	0	0	1	0	0	0	17342	623	22	4	1989	4	WDR81	17	1630178	Missense_Mutation	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10		1630178	79565032	69	37321										
NUP88	4927	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	5312151	5312152	+	Frame_Shift_Ins	INS	-	-	A													0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ctttgccgttttgtccaaatINSagagtctttgggactgctgc							TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr17:5312151_5312152insA	ENST00000573584.1	-	5	1267_1268	c.758_759insT	c.(757-759)ctafs	p.L253fs		NM_002532.4	NP_002523.2	Q99567	NUP88_HUMAN	nucleoporin 88kDa	253					carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|protein transport (GO:0015031)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytosol (GO:0005829)|nuclear pore (GO:0005643)|nucleus (GO:0005634)	transporter activity (GO:0005215)			endometrium(4)|kidney(4)|large_intestine(4)|lung(3)	15						TTTGTCCAAATAGAGTCTTTGG	0.436																																																0																																										SO:0001589	frameshift_variant	4927			Y08612	CCDS11070.1	17p13	2004-02-18	2002-08-29		ENSG00000108559	ENSG00000108559			8067	protein-coding gene	gene with protein product		602552	"nucleoporin 88kD"			9049309	Standard	NM_002532		Approved	MGC8530	uc002gbo.2	Q99567	OTTHUMG00000099453	ENST00000573584.1:c.759dupT	17.37:g.5312152_5312152dupA	ENSP00000458954:p.Leu253fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTM2|Q9BWE5	Frame_Shift_Ins	INS	ENST00000573584.1	37	CCDS11070.1																																																																																				0.436	NUP88-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216918.3	NM_002532		A	5312152	-	A	5312151	7	5	612	1	0	1	1	0	0	0	0	0	10778	1393	49	0	1518	0	NUP88	17	5312151	Frame_Shift_Ins	INS	-	TCGA-HE-A5NL-01A-11D-A26P-10	3681973	5312151	75883059	70	37322										
C17orf104	284071	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	42744034	42744034	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	taactgtcacaatattcagaCaaatgatacagctaagacaa	5	8	2	3			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr17:42744034C>T	ENST00000409122.2	+	5	897	c.755C>T	c.(754-756)aCa>aTa	p.T252I	C17orf104_ENST00000409464.1_Missense_Mutation_p.T86I|C17orf104_ENST00000359945.3_Missense_Mutation_p.T252I	NM_001145080.2	NP_001138552.2	A2RUB1	CQ104_HUMAN	chromosome 17 open reading frame 104	252										autonomic_ganglia(1)|breast(2)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(7)|ovary(2)|pancreas(1)|skin(1)	24						AATATTCAGACAAATGATACA	0.353																																																0													72	63	66					17																	42744034		2203	4300	6503	SO:0001583	missense	284071				CCDS45703.1, CCDS45703.2	17q21.31	2009-09-08			ENSG00000180336	ENSG00000180336			26670	protein-coding gene	gene with protein product							Standard	NM_001145080		Approved	FLJ35848	uc002iha.3	A2RUB1	OTTHUMG00000153039	ENST00000409122.2:c.755C>T	17.37:g.42744034C>T	ENSP00000386452:p.Thr252Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B4DXJ2|B5MD93|B9EGQ6|C4AM97|Q4G0Y1|Q8IVZ7|Q8NA45	Missense_Mutation	SNP	ENST00000409122.2	37	CCDS45703.2	.	.	.	.	.	.	.	.	.	.	C	10.68	1.418212	0.25552	.	.	ENSG00000180336	ENST00000359945;ENST00000409122;ENST00000432494;ENST00000456912;ENST00000409464	T;T;T;T;T	0.35048	1.33;1.33;1.63;1.63;1.34	5.54	4.58	0.56647	.	0.518815	0.20253	N	0.096034	T	0.24547	0.0595	N	0.14661	0.345	0.24157	N	0.995676	B;B;B	0.10296	0.003;0.003;0.003	B;B;B	0.14023	0.01;0.006;0.006	T	0.15350	-1.0440	10	0.39692	T	0.17	-10.3947	14.6777	0.68993	0.0:0.9298:0.0:0.0702	.	252;252;86	A2RUB1-5;A2RUB1;A2RUB1-1	.;CQ104_HUMAN;.	I	252;252;86;86;86	ENSP00000353028:T252I;ENSP00000386452:T252I;ENSP00000399809:T86I;ENSP00000397957:T86I;ENSP00000386586:T86I	ENSP00000353028:T252I	T	+	2	0	C17orf104	40099560	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	3.331000	0.52075	1.468000	0.48064	0.591000	0.81541	ACA		0.353	C17orf104-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329171.2	NM_001145080		T	42744034	C	T	42744034	3	4	612	1	0	0	0	0	1	0	0	0	1853	478	17	2	773	2	C17orf104	17	42744034	Missense_Mutation	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	37431883	42744034	38451176	71	37323										
SLC35B1	10237	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	47781478	47781478	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	tcacccattcccagcagcaaTgtcgaccaaaggttgatgtt	8	12	1	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr17:47781478T>A	ENST00000240333.6	-	6	760	c.639A>T	c.(637-639)acA>acT	p.T213T	SLC35B1_ENST00000415270.2_Silent_p.T250T			P78383	S35B1_HUMAN	solute carrier family 35, member B1	213					transport (GO:0006810)|UDP-galactose transmembrane transport (GO:0072334)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)	UDP-galactose transmembrane transporter activity (GO:0005459)			endometrium(1)|large_intestine(2)|lung(3)|urinary_tract(1)	7						CCAGCAGCAATGTCGACCAAA	0.527																																																0													220	173	189					17																	47781478		2203	4300	6503	SO:0001819	synonymous_variant	10237			D16978	CCDS11552.1, CCDS11552.2	17q21.32	2013-05-22			ENSG00000121073	ENSG00000121073		"Solute carriers"	20798	protein-coding gene	gene with protein product		610790				9010752	Standard	NM_005827		Approved	UGTREL1	uc002iph.1	P78383	OTTHUMG00000161638	ENST00000240333.6:c.639A>T	17.37:g.47781478T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DEC4|J3KQV4|Q96EW7	Silent	SNP	ENST00000240333.6	37	CCDS11552.1																																																																																				0.527	SLC35B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365564.2	NM_005827		A	47781478	T	A	47781478	2	1	612	1	0	0	0	0	0	0	0	1	14588	1451	51	5		5	SLC35B1	17	47781478	Silent	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10	5037444	47781478	33413732	72	37324										
PRKAR1A	5573	broad.mit.edu;bcgsc.ca	37	chr17	66526491	66526491	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ggccccttgaagtgcgttaaGctggaccgacctagatttga	12	10	0	3			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr17:66526491G>A	ENST00000589228.1	+	11	1175	c.1047G>A	c.(1045-1047)aaG>aaA	p.K349K	PRKAR1A_ENST00000358598.2_Silent_p.K349K|PRKAR1A_ENST00000586397.1_Silent_p.K349K|PRKAR1A_ENST00000392711.1_Silent_p.K349K|PRKAR1A_ENST00000588188.2_Intron|PRKAR1A_ENST00000536854.2_Silent_p.K349K	NM_001276289.1|NM_001278433.1	NP_001263218.1|NP_001265362.1	P10644	KAP0_HUMAN	protein kinase, cAMP-dependent, regulatory, type I, alpha	349					activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|blood coagulation (GO:0007596)|cardiac muscle cell proliferation (GO:0060038)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|female meiotic division (GO:0007143)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|mesoderm formation (GO:0001707)|negative regulation of cAMP-dependent protein kinase activity (GO:2000480)|negative regulation of meiosis (GO:0045835)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of insulin secretion (GO:0050796)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|sarcomere organization (GO:0045214)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	AMP-activated protein kinase complex (GO:0031588)|cAMP-dependent protein kinase complex (GO:0005952)|cytosol (GO:0005829)|membrane (GO:0016020)|neuromuscular junction (GO:0031594)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	cAMP binding (GO:0030552)|cAMP-dependent protein kinase inhibitor activity (GO:0004862)|cAMP-dependent protein kinase regulator activity (GO:0008603)|protein kinase A catalytic subunit binding (GO:0034236)|ubiquitin protein ligase binding (GO:0031625)			adrenal_gland(4)|breast(2)|endometrium(1)|kidney(1)|large_intestine(5)|liver(2)|lung(8)|soft_tissue(2)|stomach(2)|testis(1)|thyroid(2)|upper_aerodigestive_tract(1)	31	Breast(10;1.64e-13)					AGTGCGTTAAGCTGGACCGAC	0.488			"T, Mis, N, F, S"	RET	papillary thyroid	"myxoma, endocrine, papillary thyroid"			Primary Pigmented Nodular Adrenocortical Disease, Familial;Carney Complex;Cardiac Myxomas, Familial Clustering of																												Ovarian(167;637 1670 33025 39608 46699 51856)	yes	"Dom, Rec"	yes	Carney complex	17	17q23-q24	5573	"protein kinase, cAMP-dependent, regulatory, type I, alpha (tissue specific extinguisher 1)"		"E, M"	0													262	211	228					17																	66526491		2203	4300	6503	SO:0001819	synonymous_variant	5573	Familial Cancer Database	iPPNAD, PPNAD1, incl. familial micronodular adrenocortical hyperplasia, PPNAD2;Carney syndrome, NAME syndrome, LAMB syndrome, Familial Myxoma syndrome;		CCDS11678.1, CCDS62307.1	17q24.2	2014-09-17	2012-07-31		ENSG00000108946	ENSG00000108946	2.7.11.1		9388	protein-coding gene	gene with protein product	"Carney complex type 1"	188830	"tissue specific extinguisher 1"	PRKAR1, TSE1		3479018, 10973256	Standard	NM_212471		Approved	CNC1	uc002jhg.4	P10644	OTTHUMG00000180128	ENST00000589228.1:c.1047G>A	17.37:g.66526491G>A		Somatic		WXS	Illumina HiSeq	Phase_I	K7ER48|Q567S7	Silent	SNP	ENST00000589228.1	37	CCDS11678.1																																																																																				0.488	PRKAR1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449884.1			A	66526491	G	A	66526491	2	1	612	1	0	0	0	0	0	0	0	1	12513	962	34	2		2	PRKAR1A	17	66526491	Silent	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	18745013	66526491	14668719	73	37325										
CD300A	11314	broad.mit.edu	37	chr17	72473598	72473598	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	cccgctgctcctctccctgcTggcattgttgctgcttctgt	9	16	2	0			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr17:72473598T>C	ENST00000360141.3	+	4	845	c.557T>C	c.(556-558)cTg>cCg	p.L186P	CD300A_ENST00000310828.5_Missense_Mutation_p.L73P|CD300A_ENST00000577511.1_Missense_Mutation_p.L56P|CD300A_ENST00000392625.3_Missense_Mutation_p.L73P|CD300A_ENST00000361933.3_Intron	NM_001256841.1|NM_007261.3	NP_001243770.1|NP_009192.2	Q9UGN4	CLM8_HUMAN	CD300a molecule	186					cell adhesion (GO:0007155)|immune system process (GO:0002376)|negative regulation of activation of JAK2 kinase activity (GO:1902569)|negative regulation of B cell proliferation (GO:0030889)|negative regulation of B cell receptor signaling pathway (GO:0050859)|negative regulation of eosinophil activation (GO:1902567)|negative regulation of eosinophil migration (GO:2000417)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of mast cell activation involved in immune response (GO:0033007)|negative regulation of mast cell degranulation (GO:0043305)|negative regulation of neutrophil activation (GO:1902564)|negative regulation of NK T cell activation (GO:0051134)|negative regulation of phagocytosis, engulfment (GO:0060101)|positive regulation of phosphoprotein phosphatase activity (GO:0032516)|regulation of T cell receptor signaling pathway (GO:0050856)|signal transduction (GO:0007165)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	phosphatidylethanolamine binding (GO:0008429)|phosphatidylserine binding (GO:0001786)|signaling receptor activity (GO:0038023)			breast(1)|endometrium(1)|large_intestine(3)|lung(5)|ovary(1)|skin(4)|urinary_tract(1)	16						CTCTCCCTGCTGGCATTGTTG	0.532																																																0													75	63	67					17																	72473598		2203	4300	6503	SO:0001583	missense	11314			BC032352	CCDS32720.1, CCDS58590.1	17q25.2	2013-01-11	2006-03-28		ENSG00000167851	ENSG00000167851		"CD molecules", "Immunoglobulin superfamily / V-set domain containing"	19319	protein-coding gene	gene with protein product		606790	"CD300a antigen"			9701027, 10746781	Standard	NM_007261		Approved	Irp60, CMRF35H, CMRF-35-H9, IRC1, IRC2, IGSF12	uc002jkv.4	Q9UGN4	OTTHUMG00000067612	ENST00000360141.3:c.557T>C	17.37:g.72473598T>C	ENSP00000353259:p.Leu186Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8MW96|O95100|Q9HD97|Q9P0F3|Q9UBK4|Q9UMS9|Q9UMT0	Missense_Mutation	SNP	ENST00000360141.3	37	CCDS32720.1	.	.	.	.	.	.	.	.	.	.	T	14.34	2.505708	0.44558	.	.	ENSG00000167851	ENST00000360141;ENST00000392625;ENST00000310828	T;T	0.52983	0.64;0.64	3.8	2.69	0.31865	.	0.741961	0.10047	N	0.722712	T	0.58779	0.2146	L	0.47190	1.495	0.09310	N	0.999997	D;D;D	0.89917	0.999;0.999;1.0	D;D;D	0.85130	0.98;0.98;0.997	T	0.42155	-0.9468	10	0.87932	D	0	.	6.5794	0.22585	0.0:0.1194:0.0:0.8806	.	73;73;186	Q9UGN4-4;Q9UGN4-2;Q9UGN4	.;.;CLM8_HUMAN	P	186;73;73	ENSP00000353259:L186P;ENSP00000308188:L73P	ENSP00000308188:L73P	L	+	2	0	CD300A	69985193	0.006000	0.16342	0.001000	0.08648	0.251000	0.25915	1.861000	0.39438	0.566000	0.29273	0.374000	0.22700	CTG		0.532	CD300A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000145091.1	NM_007261		C	72473598	T	C	72473598	3	2	612	1	0	0	0	0	1	0	0	0	2998	1580	55	3	571	3	CD300A	17	72473598	Missense_Mutation	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10	5947107	72473598	8721612	74	37326										
ZACN	353174	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	74076354	74076354	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	aggctctgggtggactggagGgaccagagcccccaggctcg	17	12	1	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr17:74076354G>T	ENST00000334586.5	+	5	476	c.393G>T	c.(391-393)agG>agT	p.R131S	ZACN_ENST00000392503.2_Intron|EXOC7_ENST00000591724.1_5'Flank	NM_180990.3	NP_851321.2	Q401N2	ZACN_HUMAN	zinc activated ligand-gated ion channel	131					ion transmembrane transport (GO:0034220)|response to zinc ion (GO:0010043)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	extracellular ligand-gated ion channel activity (GO:0005230)|ligand-gated ion channel activity (GO:0015276)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|large_intestine(1)|lung(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	11						TGGACTGGAGGGACCAGAGCC	0.662																																																0													50	48	48					17																	74076354		2203	4300	6503	SO:0001583	missense	353174			AK122638	CCDS11740.2	17q25.3	2012-01-18	2008-04-17	2008-04-17	ENSG00000186919	ENSG00000186919		"Ligand-gated ion channels / Zinc activated channels"	29504	protein-coding gene	gene with protein product		610935	"ligand-gated ion channel, zinc activated 1"	LGICZ1		12381728, 16083862	Standard	NM_180990		Approved	LGICZ, L2, ZAC, ZAC1	uc002jqn.2	Q401N2	OTTHUMG00000157186	ENST00000334586.5:c.393G>T	17.37:g.74076354G>T	ENSP00000334854:p.Arg131Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q2TB29|Q6ZWK3|Q86YW4	Missense_Mutation	SNP	ENST00000334586.5	37	CCDS11740.2	.	.	.	.	.	.	.	.	.	.	G	6.430	0.447387	0.12223	.	.	ENSG00000186919	ENST00000334586	T	0.76839	-1.05	4.57	3.59	0.41128	Neurotransmitter-gated ion-channel ligand-binding (3);	0.656443	0.12755	N	0.441853	T	0.66519	0.2797	L	0.36672	1.1	0.80722	D	1	B	0.33000	0.393	B	0.28916	0.096	T	0.60667	-0.7218	10	0.33940	T	0.23	.	10.1865	0.43000	0.0964:0.0:0.9036:0.0	.	131	Q401N2	ZACN_HUMAN	S	131	ENSP00000334854:R131S	ENSP00000334854:R131S	R	+	3	2	ZACN	71587949	0.923000	0.31300	0.985000	0.45067	0.962000	0.63368	1.248000	0.32827	1.121000	0.41925	0.655000	0.94253	AGG		0.662	ZACN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347827.2	NM_180990		T	74076354	G	T	74076354	3	4	612	1	0	0	0	0	1	0	0	0	17522	1223	43	4	411	4	ZACN	17	74076354	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	1602756	74076354	7118856	75	37327										
QRICH2	84074	bcgsc.ca	37	chr17	74288508	74288508	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gttggaccaaaccatgctgaTctgcaccaggttggaccaaa	10	11	1	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr17:74288508T>A	ENST00000262765.5	-	4	1981	c.1802A>T	c.(1801-1803)gAt>gTt	p.D601V		NM_032134.1	NP_115510.1	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	601	Gln-rich.									breast(3)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(6)|lung(17)|ovary(4)|pancreas(2)|prostate(3)|skin(2)|stomach(4)	62						ACCATGCTGATCTGCACCAGG	0.537																																																0													168	134	145					17																	74288508		2203	4300	6503	SO:0001583	missense	84074			AK058102	CCDS32741.1	17q25.1	2009-03-19			ENSG00000129646	ENSG00000129646			25326	protein-coding gene	gene with protein product							Standard	NM_032134		Approved	DKFZP434P0316	uc002jrd.1	Q9H0J4	OTTHUMG00000167578	ENST00000262765.5:c.1802A>T	17.37:g.74288508T>A	ENSP00000262765:p.Asp601Val	Somatic		WXS	Illumina HiSeq	Phase_1	A2RRE1|Q96LM3	Missense_Mutation	SNP	ENST00000262765.5	37	CCDS32741.1	.	.	.	.	.	.	.	.	.	.	T	8.120	0.780708	0.16120	.	.	ENSG00000129646	ENST00000262765;ENST00000301613	T	0.21734	1.99	4.82	-9.63	0.00544	.	.	.	.	.	T	0.06735	0.0172	N	0.16478	0.41	0.09310	N	1	P;B	0.37276	0.589;0.138	B;B	0.33454	0.164;0.033	T	0.14200	-1.0481	9	0.18710	T	0.47	0.7097	1.6345	0.02739	0.4588:0.2138:0.0952:0.2322	.	601;601	B5MD94;Q9H0J4	.;QRIC2_HUMAN	V	601	ENSP00000262765:D601V	ENSP00000262765:D601V	D	-	2	0	QRICH2	71800103	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-6.623000	0.00059	-2.309000	0.00651	-0.444000	0.05651	GAT		0.537	QRICH2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395140.1	NM_032134		A	74288508	T	A	74288508	3	1	612	1	0	0	0	0	1	0	0	0	12893	1435	50	5	3253	5	QRICH2	17	74288508	Missense_Mutation	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10	212154	74288508	6906702	76	37328										
RNF152	220441	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	59483369	59483369	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gtctccgggcagcagcgcacGctccttggagatgggcaggg	17	12	1	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr18:59483369G>C	ENST00000312828.3	-	2	1427	c.328C>G	c.(328-330)Cgt>Ggt	p.R110G		NM_173557.2	NP_775828.1	Q8N8N0	RN152_HUMAN	ring finger protein 152	110					apoptotic process (GO:0006915)|protein K48-linked ubiquitination (GO:0070936)	integral component of membrane (GO:0016021)|lysosome (GO:0005764)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(10)|skin(1)	17		Colorectal(73;0.186)				AGCAGCGCACGCTCCTTGGAG	0.627																																																0													68	74	72					18																	59483369		2203	4300	6503	SO:0001583	missense	220441			AK096495	CCDS11978.1	18q21.33	2013-01-09			ENSG00000176641	ENSG00000176641		"RING-type (C3HC4) zinc fingers"	26811	protein-coding gene	gene with protein product							Standard	XM_005266650		Approved	FLJ39176	uc002lih.1	Q8N8N0	OTTHUMG00000132774	ENST00000312828.3:c.328C>G	18.37:g.59483369G>C	ENSP00000316628:p.Arg110Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KV99|Q52LA4	Missense_Mutation	SNP	ENST00000312828.3	37	CCDS11978.1	.	.	.	.	.	.	.	.	.	.	G	5.884	0.347185	0.11126	.	.	ENSG00000176641	ENST00000312828	D	0.83335	-1.71	4.97	4.97	0.65823	.	0.139197	0.44902	D	0.000405	T	0.69424	0.3109	N	0.17082	0.46	0.45621	D	0.998557	B	0.06786	0.001	B	0.06405	0.002	T	0.63501	-0.6623	10	0.18710	T	0.47	-3.5749	13.096	0.59192	0.0:0.0:0.7221:0.2779	.	110	Q8N8N0	RN152_HUMAN	G	110	ENSP00000316628:R110G	ENSP00000316628:R110G	R	-	1	0	RNF152	57634349	1.000000	0.71417	0.998000	0.56505	0.987000	0.75469	3.456000	0.53000	2.600000	0.87896	0.655000	0.94253	CGT		0.627	RNF152-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256180.1	NM_173557		C	59483369	G	C	59483369	3	2	612	1	0	0	0	0	1	0	0	0	13466	1087	38	4	287	4	RNF152	18	59483369	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10		59483369	18593879	77	37329										
BTBD2	55643	broad.mit.edu	37	chr19	2015365	2015365	+	Frame_Shift_Del	DEL	T	T	-													0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gcacgtcgcacagcacctcgTtgttgaagaggaaggcgaag							TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr19:2015365delT	ENST00000255608.4	-	1	354	c.338delA	c.(337-339)aacfs	p.N113fs	BTBD2_ENST00000590646.1_Intron	NM_017797.3	NP_060267.2	Q9BX70	BTBD2_HUMAN	BTB (POZ) domain containing 2	113						cytoplasmic mRNA processing body (GO:0000932)				endometrium(5)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)|skin(1)|stomach(1)	12		Ovarian(11;2.11e-07)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGCACCTCGTTGTTGAAGAG	0.741																																																0													19	12	14					19																	2015365		1832	3545	5377	SO:0001589	frameshift_variant	55643			AF355797	CCDS12078.1	19p13.3	2013-10-02			ENSG00000133243	ENSG00000133243		"BTB/POZ domain containing"	15504	protein-coding gene	gene with protein product		608531				11179693	Standard	XM_005259593		Approved		uc002lup.1	Q9BX70	OTTHUMG00000180017	ENST00000255608.4:c.338delA	19.37:g.2015365delT	ENSP00000255608:p.Asn113fs	Somatic		WXS	Illumina HiSeq	Phase_I	O60418|O75248|Q4VBZ1|Q6IAC5|Q7Z5W0|Q96SX8|Q9NPS1|Q9NX81	Frame_Shift_Del	DEL	ENST00000255608.4	37	CCDS12078.1																																																																																				0.741	BTBD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449300.2			-	2015365	T	-	2015365	7	5	612	1	0	1	0	1	0	0	0	0	1545	1725	60	0	1275	0	BTBD2	19	2015365	Frame_Shift_Del	DEL	T	TCGA-HE-A5NL-01A-11D-A26P-10		2015365	57113618	78	37330										
ATP13A1	57130	broad.mit.edu;bcgsc.ca	37	chr19	19762514	19762515	+	Frame_Shift_Ins	INS	-	-	TGCAGGA													0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	cacctttctcggagggaggcINStgcaggatcagcgtgtgggc							TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr19:19762514_19762515insTGCAGGA	ENST00000357324.6	-	17	2344_2345	c.2318_2319insTCCTGCA	c.(2317-2319)cagfs	p.Q773fs	ATP13A1_ENST00000496082.1_5'Flank|ATP13A1_ENST00000291503.5_Frame_Shift_Ins_p.Q655fs	NM_020410.2	NP_065143.2	Q9HD20	AT131_HUMAN	ATPase type 13A1	773						endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|metal ion binding (GO:0046872)			central_nervous_system(3)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|liver(2)|lung(7)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	29						CGGAGGGAGGCTGCAGGATCAG	0.609																																					Esophageal Squamous(142;920 1789 9047 14684 24777)											0																																										SO:0001589	frameshift_variant	57130			AK056420	CCDS32970.2	19p13.11	2010-04-20	2005-01-12	2005-01-12	ENSG00000105726	ENSG00000105726		"ATPases / P-type"	24215	protein-coding gene	gene with protein product	"cation transporting ATPase"		"ATPase type 13A"	ATP13A		11347906	Standard	NM_020410		Approved	KIAA1825, FLJ31858, CGI-152	uc002nnh.4	Q9HD20	OTTHUMG00000153016	ENST00000357324.6:c.2312_2318dupTCCTGCA	19.37:g.19762515_19762521dupTGCAGGA	ENSP00000349877:p.Gln773fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPJ2|B3KTA7|Q6NT90|Q6ZMG7|Q9H6C6	Frame_Shift_Ins	INS	ENST00000357324.6	37	CCDS32970.2																																																																																				0.609	ATP13A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329005.1	NM_020410		TGCAGGA	19762515	-	TGCAGGA	19762514	7	5	612	1	0	1	1	0	0	0	0	0	1123	796	28	0	1335	0	ATP13A1	19	19762514	Frame_Shift_Ins	INS	-	TCGA-HE-A5NL-01A-11D-A26P-10	17747149	19762514	39366469	79	37331										
PSG11	5680	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	43519496	43519496	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	atagtaagaggtgactgaagGgaaaattctggggaggtctg	16	3	2	3			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr19:43519496G>T	ENST00000401740.1	-	4	839	c.736C>A	c.(736-738)Cct>Act	p.P246T	PSG11_ENST00000595312.1_5'Flank|PSG11_ENST00000320078.7_Missense_Mutation_p.P246T|PSG11_ENST00000306322.7_Missense_Mutation_p.P124T|PSG11_ENST00000403486.1_Missense_Mutation_p.P124T			Q00887	PSG9_HUMAN	pregnancy specific beta-1-glycoprotein 11	244	Ig-like C2-type 2.				female pregnancy (GO:0007565)	extracellular region (GO:0005576)				breast(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(15)|prostate(2)|stomach(1)|upper_aerodigestive_tract(1)	26		Prostate(69;0.00682)				GTGACTGAAGGGAAAATTCTG	0.468																																																0													112	125	120					19																	43519496		2199	4298	6497	SO:0001583	missense	5680			U25988	CCDS12614.2, CCDS12615.2	19q13.2	2013-01-29			ENSG00000243130	ENSG00000243130		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9516	protein-coding gene	gene with protein product	"pregnancy specific beta-1-glycoprotein 13"	176401		PSG13, PSG14		7794280	Standard	NM_001113410		Approved	MGC22484	uc002ovm.1	Q9UQ72	OTTHUMG00000151546	ENST00000401740.1:c.736C>A	19.37:g.43519496G>T	ENSP00000384995:p.Pro246Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R869|Q15227|Q15236|Q15237|Q8WW78|Q9UQ73	Missense_Mutation	SNP	ENST00000401740.1	37	CCDS12614.2	.	.	.	.	.	.	.	.	.	.	g	7.213	0.595792	0.13875	.	.	ENSG00000243130	ENST00000320078;ENST00000403486;ENST00000306322;ENST00000401740	T;T;T;T	0.74842	-0.88;-0.88;-0.88;-0.88	0.961	-0.805	0.10879	Immunoglobulin-like (1);	.	.	.	.	T	0.80154	0.4571	M	0.84683	2.71	0.09310	N	1	B;B	0.28636	0.085;0.218	B;P	0.45037	0.078;0.467	T	0.75110	-0.3433	9	0.87932	D	0	.	4.7032	0.12837	0.2746:0.0:0.7254:0.0	.	124;246	Q9UQ72-2;Q9UQ72	.;PSG11_HUMAN	T	246;124;124;246	ENSP00000319140:P246T;ENSP00000385427:P124T;ENSP00000304913:P124T;ENSP00000384995:P246T	ENSP00000304913:P124T	P	-	1	0	PSG11	48211336	0.001000	0.12720	0.001000	0.08648	0.002000	0.02628	0.167000	0.16602	-1.109000	0.02996	-1.109000	0.02080	CCT		0.468	PSG11-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323079.1	NM_002785		T	43519496	G	T	43519496	3	4	612	1	0	0	0	0	1	0	0	0	12664	1232	43	4	279	4	PSG11	19	43519496	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	23756982	43519496	15609487	80	37332										
ZNF415	55786	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	53612760	53612760	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	tttgatggtagaagaaattaTttggggtggtgaaactgagg	15	1	0	5			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr19:53612760T>A	ENST00000500065.4	-	4	871	c.538A>T	c.(538-540)Ata>Tta	p.I180L	ZNF415_ENST00000243643.4_Missense_Mutation_p.I180L|ZNF415_ENST00000601493.1_5'UTR|ZNF415_ENST00000597748.1_3'UTR|ZNF415_ENST00000421033.1_Missense_Mutation_p.I192L|ZNF415_ENST00000455735.2_Missense_Mutation_p.I228L|ZNF415_ENST00000594011.1_3'UTR|ZNF415_ENST00000440291.1_Missense_Mutation_p.I167L|ZNF415_ENST00000595193.1_3'UTR|ZNF415_ENST00000597503.1_3'UTR|ZNF415_ENST00000448501.1_Missense_Mutation_p.I228L	NM_001136038.2	NP_001129510.2	Q09FC8	ZN415_HUMAN	zinc finger protein 415	228					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|microtubule cytoskeleton (GO:0015630)|nucleolus (GO:0005730)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|kidney(3)|large_intestine(8)|lung(11)|ovary(2)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	31				GBM - Glioblastoma multiforme(134;0.0191)		GAAGAAATTATTTGGGGTGGT	0.383																																																0													103	100	101					19																	53612760		2203	4300	6503	SO:0001583	missense	55786			AK002053	CCDS12860.1, CCDS54313.1	19q13.42	2014-03-18			ENSG00000170954	ENSG00000170954		"Zinc fingers, C2H2-type", "-"	20636	protein-coding gene	gene with protein product						14702039	Standard	NM_001136038		Approved		uc002qaw.3	Q09FC8	OTTHUMG00000182865	ENST00000500065.4:c.538A>T	19.37:g.53612760T>A	ENSP00000439435:p.Ile180Leu	Somatic		WXS	Illumina HiSeq	Phase_I	F5H287|Q09FC7|Q09FC9|Q09FD0|Q6NSZ2|Q6P3S0|Q9NUR2	Missense_Mutation	SNP	ENST00000500065.4	37	CCDS54313.1	.	.	.	.	.	.	.	.	.	.	T	11.10	1.538587	0.27475	.	.	ENSG00000170954	ENST00000243643;ENST00000500065;ENST00000448501;ENST00000421033;ENST00000455735;ENST00000440291	T;T;T;T;T;T	0.07908	3.15;3.15;3.15;3.15;3.15;3.15	2.74	-0.82	0.10826	.	.	.	.	.	T	0.07007	0.0178	L	0.31578	0.945	0.09310	N	1	B;B;B;B;B;B	0.29085	0.033;0.041;0.038;0.11;0.033;0.232	B;B;B;B;B;B	0.34138	0.015;0.028;0.017;0.033;0.02;0.176	T	0.39440	-0.9614	9	0.59425	D	0.04	.	6.2583	0.20885	0.0:0.3858:0.0:0.6142	.	180;228;228;180;167;192	F5H287;B3KTG1;Q09FC8;Q09FC8-5;Q09FC8-4;Q09FC8-2	.;.;ZN415_HUMAN;.;.;.	L	180;180;228;192;228;167	ENSP00000243643:I180L;ENSP00000439435:I180L;ENSP00000396492:I228L;ENSP00000395055:I192L;ENSP00000388787:I228L;ENSP00000414601:I167L	ENSP00000243643:I180L	I	-	1	0	ZNF415	58304572	0.000000	0.05858	0.000000	0.03702	0.086000	0.17979	-0.921000	0.04008	-0.410000	0.07542	0.260000	0.18958	ATA		0.383	ZNF415-025	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000464043.1	NM_018355		A	53612760	T	A	53612760	3	1	612	1	0	0	0	0	1	0	0	0	17904	1493	52	5	1133	5	ZNF415	19	53612760	Missense_Mutation	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10	10093264	53612760	5516223	81	37333										
SEL1L2	80343	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	13868446	13868446	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	actttcttgtaataacttagGgcaacttcacaattctgtag	6	8	3	0			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr20:13868446G>T	ENST00000284951.5	-	8	788	c.714C>A	c.(712-714)gcC>gcA	p.A238A	SEL1L2_ENST00000486903.1_5'UTR|SEL1L2_ENST00000378072.5_Silent_p.A238A			Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 (C. elegans)	238						integral component of membrane (GO:0016021)				cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(14)|lung(25)|ovary(2)|skin(3)|urinary_tract(1)	51						AATAACTTAGGGCAACTTCAC	0.299																																																0													129	123	125					20																	13868446		1817	4072	5889	SO:0001819	synonymous_variant	80343			AL137678	CCDS59443.1	20p12.1	2011-03-31	2006-11-24	2006-11-24	ENSG00000101251	ENSG00000101251			15897	protein-coding gene	gene with protein product		614289	"chromosome 20 open reading frame 50"	C20orf50			Standard	NM_001271539		Approved	DKFZp434C1826	uc010zrl.3	Q5TEA6	OTTHUMG00000031910	ENST00000284951.5:c.714C>A	20.37:g.13868446G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DXX5	Silent	SNP	ENST00000284951.5	37																																																																																					0.299	SEL1L2-002	KNOWN	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000078067.3	NM_025229		T	13868446	G	T	13868446	2	4	612	1	0	0	0	0	0	0	0	1	14024	1219	43	4		4	SEL1L2	20	13868446	Silent	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10		13868446	49157074	82	37334										
ZNF337	26152	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	25656225	25656225	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	attaaatggcctttcccccgAgtgtgtccactgatgtctaa	8	11	1	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr20:25656225A>T	ENST00000376436.1	-	4	2238	c.1699T>A	c.(1699-1701)Tcg>Acg	p.S567T	RP4-694B14.5_ENST00000421829.1_RNA|ZNF337_ENST00000481610.1_5'Flank|RP4-694B14.5_ENST00000439498.1_RNA|RP4-694B14.5_ENST00000455791.1_RNA|ZNF337_ENST00000538750.1_Missense_Mutation_p.S535T|RP4-694B14.5_ENST00000428254.1_RNA|RP4-694B14.5_ENST00000414393.1_RNA|ZNF337_ENST00000252979.5_Missense_Mutation_p.S567T			Q9Y3M9	ZN337_HUMAN	zinc finger protein 337	567					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(9)|lung(8)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	32						CTTTCCCCCGAGTGTGTCCAC	0.473																																																0													92	83	86					20																	25656225		2203	4300	6503	SO:0001583	missense	26152				CCDS13174.1	20p11.1	2013-09-20			ENSG00000130684	ENSG00000130684		"Zinc fingers, C2H2-type", "-"	15809	protein-coding gene	gene with protein product							Standard	XM_005260702		Approved	dJ694B14.1	uc002wuz.3	Q9Y3M9	OTTHUMG00000032131	ENST00000376436.1:c.1699T>A	20.37:g.25656225A>T	ENSP00000365619:p.Ser567Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DSM2|Q9Y3Y5	Missense_Mutation	SNP	ENST00000376436.1	37	CCDS13174.1	.	.	.	.	.	.	.	.	.	.	.	8.160	0.789335	0.16258	.	.	ENSG00000130684	ENST00000376436;ENST00000252979;ENST00000538750	T;T;T	0.12879	2.64;2.64;2.64	1.29	-2.14	0.07123	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.03477	0.0100	N	0.02403	-0.565	0.22457	N	0.999081	B;B	0.13145	0.007;0.007	B;B	0.04013	0.001;0.001	T	0.41520	-0.9504	9	0.02654	T	1	.	5.6207	0.17455	0.3135:0.0:0.0:0.6864	.	535;567	B4DSM2;Q9Y3M9	.;ZN337_HUMAN	T	567;567;535	ENSP00000365619:S567T;ENSP00000252979:S567T;ENSP00000442181:S535T	ENSP00000252979:S567T	S	-	1	0	ZNF337	25604225	0.892000	0.30473	0.005000	0.12908	0.954000	0.61252	0.661000	0.25023	-0.602000	0.05775	0.248000	0.18094	TCG		0.473	ZNF337-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078454.1			T	25656225	A	T	25656225	3	4	612	1	0	0	0	0	1	0	0	0	17865	304	11	5	560	5	ZNF337	20	25656225	Missense_Mutation	SNP	A	TCGA-HE-A5NL-01A-11D-A26P-10	11787779	25656225	37369295	83	37335										
TRPC4AP	26133	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	33623074	33623074	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	tttcgagtcgccagtttgcaAagccgctcaacaaagccagg	10	12	1	0			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr20:33623074A>C	ENST00000252015.2	-	8	992	c.903T>G	c.(901-903)ctT>ctG	p.L301L	TRPC4AP_ENST00000432634.2_Silent_p.L262L|TRPC4AP_ENST00000451813.2_Silent_p.L301L|TRPC4AP_ENST00000539834.1_5'UTR			Q8TEL6	TP4AP_HUMAN	transient receptor potential cation channel, subfamily C, member 4 associated protein	301	Interaction with TNFRSF1A. {ECO:0000250}.				calcium ion transmembrane transport (GO:0070588)|ion transmembrane transport (GO:0034220)|protein ubiquitination (GO:0016567)|transmembrane transport (GO:0055085)|ubiquitin-dependent protein catabolic process (GO:0006511)	Cul4A-RING E3 ubiquitin ligase complex (GO:0031464)|plasma membrane (GO:0005886)	phosphatase binding (GO:0019902)			breast(3)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(13)|skin(1)|stomach(1)|urinary_tract(1)	32			BRCA - Breast invasive adenocarcinoma(18;0.00936)			CCAGTTTGCAAAGCCGCTCAA	0.507																																																0													87	78	81					20																	33623074		2203	4300	6503	SO:0001819	synonymous_variant	26133			AF055022	CCDS13246.1, CCDS46591.1	20q11.23	2014-06-13	2003-10-06	2003-10-08	ENSG00000100991	ENSG00000100991			16181	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 158"	608430	"chromosome 20 open reading frame 188"	C20orf188			Standard	NM_015638		Approved	DKFZP727M231, DKFZp586C1223, dJ756N5.2, TRRP4AP, PPP1R158	uc002xbk.3	Q8TEL6	OTTHUMG00000032319	ENST00000252015.2:c.903T>G	20.37:g.33623074A>C		Somatic		WXS	Illumina HiSeq	Phase_I	E1P5Q0|E1P5Q1|Q96H82|Q9BVB8|Q9H429|Q9UFS6	Silent	SNP	ENST00000252015.2	37	CCDS13246.1																																																																																				0.507	TRPC4AP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078832.2	NM_015638		C	33623074	A	C	33623074	2	2	612	1	0	0	0	0	0	0	0	1	16593	1	1	5		5	TRPC4AP	20	33623074	Silent	SNP	A	TCGA-HE-A5NL-01A-11D-A26P-10	7966849	33623074	29402446	84	37336			1	74		2	2	26	N	C_A	7.510202e-05
TRPC4AP	26133	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	33623099	33623099	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gctcaacaaagccaggaatgCtgagaagggccgctgccagg	14	11	1	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr20:33623099C>A	ENST00000252015.2	-	8	967	c.878G>T	c.(877-879)aGc>aTc	p.S293I	TRPC4AP_ENST00000432634.2_Missense_Mutation_p.S254I|TRPC4AP_ENST00000451813.2_Missense_Mutation_p.S293I|TRPC4AP_ENST00000539834.1_5'Flank			Q8TEL6	TP4AP_HUMAN	transient receptor potential cation channel, subfamily C, member 4 associated protein	293	Interaction with TNFRSF1A. {ECO:0000250}.				calcium ion transmembrane transport (GO:0070588)|ion transmembrane transport (GO:0034220)|protein ubiquitination (GO:0016567)|transmembrane transport (GO:0055085)|ubiquitin-dependent protein catabolic process (GO:0006511)	Cul4A-RING E3 ubiquitin ligase complex (GO:0031464)|plasma membrane (GO:0005886)	phosphatase binding (GO:0019902)			breast(3)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(13)|skin(1)|stomach(1)|urinary_tract(1)	32			BRCA - Breast invasive adenocarcinoma(18;0.00936)			GCCAGGAATGCTGAGAAGGGC	0.498																																																0													61	57	58					20																	33623099		2203	4300	6503	SO:0001583	missense	26133			AF055022	CCDS13246.1, CCDS46591.1	20q11.23	2014-06-13	2003-10-06	2003-10-08	ENSG00000100991	ENSG00000100991			16181	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 158"	608430	"chromosome 20 open reading frame 188"	C20orf188			Standard	NM_015638		Approved	DKFZP727M231, DKFZp586C1223, dJ756N5.2, TRRP4AP, PPP1R158	uc002xbk.3	Q8TEL6	OTTHUMG00000032319	ENST00000252015.2:c.878G>T	20.37:g.33623099C>A	ENSP00000252015:p.Ser293Ile	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5Q0|E1P5Q1|Q96H82|Q9BVB8|Q9H429|Q9UFS6	Missense_Mutation	SNP	ENST00000252015.2	37	CCDS13246.1	.	.	.	.	.	.	.	.	.	.	C	15.76	2.929049	0.52759	.	.	ENSG00000100991	ENST00000252015;ENST00000451813;ENST00000432634;ENST00000541994	T;T;T	0.27720	1.65;1.65;1.65	5.49	4.45	0.53987	.	0.085031	0.85682	D	0.000000	T	0.13329	0.0323	N	0.14661	0.345	0.80722	D	1	B;P;P	0.38335	0.396;0.475;0.627	B;B;B	0.31614	0.044;0.133;0.133	T	0.03524	-1.1028	10	0.54805	T	0.06	.	3.5606	0.07881	0.0:0.6443:0.0:0.3557	.	254;293;293	B4E0Q1;E1P5Q0;Q8TEL6	.;.;TP4AP_HUMAN	I	293;293;254;278	ENSP00000252015:S293I;ENSP00000400614:S293I;ENSP00000400497:S254I	ENSP00000252015:S293I	S	-	2	0	TRPC4AP	33086760	1.000000	0.71417	1.000000	0.80357	0.926000	0.56050	3.786000	0.55431	2.587000	0.87381	0.557000	0.71058	AGC		0.498	TRPC4AP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078832.2	NM_015638		A	33623099	C	A	33623099	3	1	612	1	0	0	0	0	1	0	0	0	16593	797	28	4	1563	4	TRPC4AP	20	33623099	Missense_Mutation	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	25	33623099	29402421	85	37337			1	74		2	2	26	N	C_A	7.510202e-05
TP53TG5	27296	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	44005903	44005903	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	tgagcagtgaatgccaacacCttttggccagcttatgcagt	10	10	0	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr20:44005903C>A	ENST00000372726.3	-	3	359	c.203G>T	c.(202-204)aGg>aTg	p.R68M	TP53TG5_ENST00000537995.1_Missense_Mutation_p.R52M|TP53TG5_ENST00000494455.1_5'UTR|SYS1-DBNDD2_ENST00000452133.1_Intron|SYS1-DBNDD2_ENST00000475242.1_Intron	NM_014477.2	NP_055292.1	Q9Y2B4	T53G5_HUMAN	TP53 target 5	68					intracellular signal transduction (GO:0035556)|negative regulation of cell growth (GO:0030308)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(3)|lung(2)|prostate(2)|upper_aerodigestive_tract(1)	12						ATGCCAACACCTTTTGGCCAG	0.517																																																0													198	185	189					20																	44005903		2203	4300	6503	SO:0001583	missense	27296			AB017802	CCDS13352.1	20q13.12	2008-09-18	2008-09-18	2008-09-18	ENSG00000124251	ENSG00000124251			15856	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 10"	C20orf10			Standard	NM_014477		Approved	CLG01, dJ453C12.5	uc002xny.3	Q9Y2B4	OTTHUMG00000032582	ENST00000372726.3:c.203G>T	20.37:g.44005903C>A	ENSP00000361811:p.Arg68Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000372726.3	37	CCDS13352.1	.	.	.	.	.	.	.	.	.	.	C	19.08	3.757255	0.69648	.	.	ENSG00000124251	ENST00000372726;ENST00000537995	T;T	0.20598	2.06;2.06	5.52	2.25	0.28309	.	0.633338	0.15520	N	0.258106	T	0.34978	0.0916	L	0.46157	1.445	0.29922	N	0.82262	D	0.89917	1.0	D	0.73380	0.98	T	0.15235	-1.0444	10	0.87932	D	0	-16.0632	8.937	0.35706	0.0:0.6414:0.2788:0.0798	.	68	Q9Y2B4	T53G5_HUMAN	M	68;52	ENSP00000361811:R68M;ENSP00000438374:R52M	ENSP00000361811:R68M	R	-	2	0	TP53TG5	43439317	0.434000	0.25570	0.996000	0.52242	0.996000	0.88848	0.351000	0.20096	0.765000	0.33221	0.655000	0.94253	AGG		0.517	TP53TG5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079460.1	NM_014477		A	44005903	C	A	44005903	3	1	612	1	0	0	0	0	1	0	0	0	16403	681	24	4	681	4	TP53TG5	20	44005903	Missense_Mutation	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	10382804	44005903	19019617	86	37338										
PCK1	5105	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	56140806	56140806	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	caagtcaatgccgacctcccCtgtgaaatcgagagagagat	10	11	1	3			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr20:56140806C>A	ENST00000319441.4	+	10	1979	c.1815C>A	c.(1813-1815)ccC>ccA	p.P605P	PCK1_ENST00000543666.1_Silent_p.P288P	NM_002591.3	NP_002582.3	P35558	PCKGC_HUMAN	phosphoenolpyruvate carboxykinase 1 (soluble)	605					carbohydrate metabolic process (GO:0005975)|drug metabolic process (GO:0017144)|gluconeogenesis (GO:0006094)|glucose homeostasis (GO:0042593)|glucose metabolic process (GO:0006006)|glycerol biosynthetic process from pyruvate (GO:0046327)|internal protein amino acid acetylation (GO:0006475)|oxaloacetate metabolic process (GO:0006107)|response to activity (GO:0014823)|response to insulin (GO:0032868)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	carboxylic acid binding (GO:0031406)|GDP binding (GO:0019003)|GTP binding (GO:0005525)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|phosphoenolpyruvate carboxykinase (GTP) activity (GO:0004613)			endometrium(2)|kidney(1)|large_intestine(4)|liver(2)|lung(19)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	34	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)			CCGACCTCCCCTGTGAAATCG	0.463																																																0													54	50	51					20																	56140806		2203	4300	6503	SO:0001819	synonymous_variant	5105				CCDS13460.1	20q13.31	2007-11-06			ENSG00000124253	ENSG00000124253	4.1.1.32		8724	protein-coding gene	gene with protein product		614168				1492743	Standard	NM_002591		Approved	PEPCK-C	uc002xyn.4	P35558	OTTHUMG00000032825	ENST00000319441.4:c.1815C>A	20.37:g.56140806C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K437|B4DT64|Q8TCA3|Q9UJD2	Silent	SNP	ENST00000319441.4	37	CCDS13460.1																																																																																				0.463	PCK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079851.2			A	56140806	C	A	56140806	2	1	612	1	0	0	0	0	0	0	0	1	11588	668	24	4		4	PCK1	20	56140806	Silent	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	12134903	56140806	6884714	87	37339										
ZGPAT	84619	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	62366740	62366740	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	aagctgcaaggtcaggctccTggggccctagaagccggggc	16	12	1	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr20:62366740T>A	ENST00000328969.5	+	6	1408	c.1281T>A	c.(1279-1281)ccT>ccA	p.P427P	LIME1_ENST00000309546.3_5'Flank|ZGPAT_ENST00000369967.3_Silent_p.P407P|ZGPAT_ENST00000448100.2_Silent_p.P407P|ZGPAT_ENST00000355969.6_Silent_p.P407P|RP4-583P15.14_ENST00000467211.1_5'Flank|RP4-583P15.15_ENST00000490623.2_Missense_Mutation_p.L313Q|ZGPAT_ENST00000357119.4_Silent_p.P398P	NM_032527.4	NP_115916.3	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	427					negative regulation of epidermal growth factor-activated receptor activity (GO:0007175)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(2)|kidney(1)|large_intestine(1)|lung(7)|ovary(2)|prostate(1)	14	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					GTCAGGCTCCTGGGGCCCTAG	0.672																																																0													20	23	22					20																	62366740		2183	4294	6477	SO:0001819	synonymous_variant	84619			AK027878	CCDS13534.1, CCDS13535.1, CCDS56203.1	20q13.3	2013-01-28	2004-12-01	2004-12-01	ENSG00000197114	ENSG00000197114		"Zinc fingers, CCCH-type domain containing", "G patch domain containing"	15948	protein-coding gene	gene with protein product			"KIAA1847"	KIAA1847		16952911	Standard	NM_181485		Approved	dJ583P15.3, MGC44880, FLJ14972, ZC3HDC9, ZC3H9, GPATC6, GPATCH6, ZIP	uc002ygk.3	Q8N5A5	OTTHUMG00000032998	ENST00000328969.5:c.1281T>A	20.37:g.62366740T>A		Somatic		WXS	Illumina HiSeq	Phase_I	E1P5K1|Q4VXN9|Q5JWI9|Q5JWJ0|Q8NC55|Q8WUV4|Q96JI0|Q96JU4|Q9H401	Silent	SNP	ENST00000328969.5	37	CCDS13534.1																																																																																				0.672	ZGPAT-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000080214.1	NM_181484		A	62366740	T	A	62366740	2	1	612	1	0	0	0	0	0	0	0	1	17686	1567	55	5		5	ZGPAT	20	62366740	Silent	SNP	T	TCGA-HE-A5NL-01A-11D-A26P-10	6225934	62366740	658780	88	37340										
NEFH	4744	bcgsc.ca	37	chr22	29885458	29885458	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ggccaagtccccagtgaaggAagaagcaaagtcaccggctg	13	11	1	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr22:29885458A>C	ENST00000310624.6	+	4	1862	c.1829A>C	c.(1828-1830)gAa>gCa	p.E610A		NM_021076.3	NP_066554.2	P12036	NFH_HUMAN	neurofilament, heavy polypeptide	610	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.				axon development (GO:0061564)|axonogenesis (GO:0007409)|cell death (GO:0008219)|cell projection assembly (GO:0030031)|microtubule cytoskeleton organization (GO:0000226)|neurofilament bundle assembly (GO:0033693)|peripheral nervous system neuron axonogenesis (GO:0048936)|regulation of organelle transport along microtubule (GO:1902513)	axon (GO:0030424)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|neurofibrillary tangle (GO:0097418)|neurofilament (GO:0005883)	dynein binding (GO:0045502)|kinesin binding (GO:0019894)|microtubule binding (GO:0008017)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(12)|ovary(2)|skin(3)	30						ccagtgaaggaagaagcaaag	0.567																																																0													66	64	65					22																	29885458		2203	4300	6503	SO:0001583	missense	4744				CCDS13858.1	22q12.2	2013-01-16	2008-09-19		ENSG00000100285	ENSG00000100285		"Intermediate filaments type IV"	7737	protein-coding gene	gene with protein product		162230	"neurofilament, heavy polypeptide 200kDa"				Standard	NM_021076		Approved		uc003afo.3	P12036	OTTHUMG00000151155	ENST00000310624.6:c.1829A>C	22.37:g.29885458A>C	ENSP00000311997:p.Glu610Ala	Somatic		WXS	Illumina HiSeq	Phase_1	B4DYY4|Q96HF8|Q9UJS7|Q9UQ14	Missense_Mutation	SNP	ENST00000310624.6	37	CCDS13858.1	.	.	.	.	.	.	.	.	.	.	A	6.939	0.543004	0.13250	.	.	ENSG00000100285	ENST00000328842;ENST00000310624	T	0.30448	1.53	4.98	1.5	0.22942	.	0.000000	0.37577	N	0.002038	T	0.29190	0.0726	M	0.69823	2.125	0.30754	N	0.74477	P	0.43392	0.805	P	0.45753	0.492	T	0.20075	-1.0286	10	0.14656	T	0.56	.	3.2852	0.06929	0.4892:0.0:0.239:0.2717	.	610	P12036	NFH_HUMAN	A	610	ENSP00000311997:E610A	ENSP00000311997:E610A	E	+	2	0	NEFH	28215458	0.987000	0.35691	0.168000	0.22838	0.172000	0.22775	3.046000	0.49846	0.238000	0.21222	0.377000	0.23210	GAA		0.567	NEFH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321553.2	NM_021076		C	29885458	A	C	29885458	3	2	612	1	0	0	0	0	1	0	0	0	10321	246	9	5	1843	5	NEFH	22	29885458	Missense_Mutation	SNP	A	TCGA-HE-A5NL-01A-11D-A26P-10		29885458	21419108	89	37341										
LGALS2	3957	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	37966307	37966307	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	aagaggacatgttgaacccgCcccttacgctcaggtagctc	10	13	1	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr22:37966307C>T	ENST00000215886.4	-	4	536	c.362G>A	c.(361-363)gGc>gAc	p.G121D		NM_006498.2	NP_006489.1	P05162	LEG2_HUMAN	lectin, galactoside-binding, soluble, 2	121	Galectin. {ECO:0000255|PROSITE- ProRule:PRU00639}.						carbohydrate binding (GO:0030246)|galactoside binding (GO:0016936)			breast(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(5)|skin(1)|stomach(1)	11	Melanoma(58;0.0574)					GTTGAACCCGCCCCTTACGCT	0.498																																					GBM(193;1840 2185 13711 20676 24505)											0													90	94	93					22																	37966307		2203	4300	6503	SO:0001583	missense	3957				CCDS13950.1	22q13.1	2011-08-04	2007-02-01		ENSG00000100079	ENSG00000100079		"Lectins, galactoside-binding"	6562	protein-coding gene	gene with protein product	"galectin 2"	150571				1988031, 15356130	Standard	NM_006498		Approved	HL14	uc003ata.3	P05162	OTTHUMG00000150590	ENST00000215886.4:c.362G>A	22.37:g.37966307C>T	ENSP00000215886:p.Gly121Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FGY4	Missense_Mutation	SNP	ENST00000215886.4	37	CCDS13950.1	.	.	.	.	.	.	.	.	.	.	C	15.41	2.824838	0.50739	.	.	ENSG00000100079	ENST00000215886	T	0.68181	-0.31	5.65	1.17	0.20885	Concanavalin A-like lectin/glucanase (1);Galectin, carbohydrate recognition domain (4);Concanavalin A-like lectin/glucanase, subgroup (1);	0.292084	0.42821	D	0.000648	T	0.64983	0.2648	M	0.82056	2.57	0.09310	N	0.999994	B	0.30870	0.298	B	0.30943	0.122	T	0.59958	-0.7356	10	0.62326	D	0.03	0.0582	10.2071	0.43120	0.0:0.7317:0.0:0.2683	.	121	P05162	LEG2_HUMAN	D	121	ENSP00000215886:G121D	ENSP00000215886:G121D	G	-	2	0	LGALS2	36296253	0.010000	0.17322	0.000000	0.03702	0.000000	0.00434	1.026000	0.30103	0.056000	0.16144	-0.291000	0.09656	GGC		0.498	LGALS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318991.1	NM_006498		T	37966307	C	T	37966307	3	4	612	1	0	0	0	0	1	0	0	0	8749	739	26	2	40	2	LGALS2	22	37966307	Missense_Mutation	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	8080849	37966307	13338259	90	37342										
PNPLA3	80339	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	44333050	44333050	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	ccccggagtcggctgccttgGctgtgaggctggagggagat	18	10	0	2			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chr22:44333050G>A	ENST00000216180.3	+	6	1050	c.877G>A	c.(877-879)Gct>Act	p.A293T	PNPLA3_ENST00000423180.2_Missense_Mutation_p.A289T	NM_025225.2	NP_079501.2	Q9NST1	PLPL3_HUMAN	patatin-like phospholipase domain containing 3	293					acylglycerol acyl-chain remodeling (GO:0036155)|glycerophospholipid biosynthetic process (GO:0046474)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)|triglyceride catabolic process (GO:0019433)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	diolein transacylation activity (GO:0051265)|mono-olein transacylation activity (GO:0051264)|phospholipase A2 activity (GO:0004623)|triglyceride lipase activity (GO:0004806)			cervix(1)|endometrium(2)|kidney(2)|large_intestine(7)|lung(3)|prostate(1)|skin(1)|stomach(2)	19		Ovarian(80;0.024)|all_neural(38;0.0416)				GGCTGCCTTGGCTGTGAGGCT	0.617																																																0													105	84	91					22																	44333050		2203	4300	6503	SO:0001583	missense	80339				CCDS14054.1	22q13.31	2014-03-14	2006-05-26	2006-05-26	ENSG00000100344	ENSG00000100344	3.1.1.3	"Patatin-like phospholipase domain containing"	18590	protein-coding gene	gene with protein product		609567	"chromosome 22 open reading frame 20", "adiponutrin"	C22orf20, ADPN		16799181, 19029121	Standard	NM_025225		Approved	dJ796I17.1, FLJ22012, adiponutrin, iPLA2epsilon	uc003bei.1	Q9NST1	OTTHUMG00000150555	ENST00000216180.3:c.877G>A	22.37:g.44333050G>A	ENSP00000216180:p.Ala293Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B0QYI0|B2RCL3|B3KW00|Q6P1A1|Q96CB4	Missense_Mutation	SNP	ENST00000216180.3	37	CCDS14054.1	.	.	.	.	.	.	.	.	.	.	G	8.597	0.885868	0.17540	.	.	ENSG00000100344	ENST00000216180;ENST00000423180	T;T	0.28895	1.59;1.59	3.7	-1.2	0.09554	.	.	.	.	.	T	0.13670	0.0331	N	0.22421	0.69	0.09310	N	1	B	0.30326	0.276	B	0.25614	0.062	T	0.25363	-1.0134	9	0.18276	T	0.48	-0.1582	1.9895	0.03443	0.1065:0.1711:0.3719:0.3504	.	293	Q9NST1	PLPL3_HUMAN	T	293;289	ENSP00000216180:A293T;ENSP00000397987:A289T	ENSP00000216180:A293T	A	+	1	0	PNPLA3	42664383	0.000000	0.05858	0.000000	0.03702	0.005000	0.04900	-0.317000	0.08060	-0.232000	0.09811	0.462000	0.41574	GCT		0.617	PNPLA3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318891.1	NM_025225		A	44333050	G	A	44333050	3	1	612	1	0	0	0	0	1	0	0	0	12173	1203	42	2	899	2	PNPLA3	22	44333050	Missense_Mutation	SNP	G	TCGA-HE-A5NL-01A-11D-A26P-10	6366743	44333050	6971516	91	37343										
TLR7	51284	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	12906681	12906681	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gtccttgagtggccaacaaaCccgcaagctcacccatactt	7	15	1	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chrX:12906681C>A	ENST00000380659.3	+	3	3193	c.3054C>A	c.(3052-3054)aaC>aaA	p.N1018K		NM_016562.3	NP_057646.1	Q9NYK1	TLR7_HUMAN	toll-like receptor 7	1018	TIR. {ECO:0000255|PROSITE- ProRule:PRU00204}.				cellular response to mechanical stimulus (GO:0071260)|defense response to virus (GO:0051607)|I-kappaB phosphorylation (GO:0007252)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|microglial cell activation involved in immune response (GO:0002282)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|pathogen-associated molecular pattern dependent induction by symbiont of host innate immune response (GO:0052033)|positive regulation of chemokine production (GO:0032722)|positive regulation of inflammatory response (GO:0050729)|positive regulation of interferon-alpha biosynthetic process (GO:0045356)|positive regulation of interferon-beta biosynthetic process (GO:0045359)|positive regulation of interferon-gamma biosynthetic process (GO:0045078)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of interleukin-8 biosynthetic process (GO:0045416)|positive regulation of interleukin-8 production (GO:0032757)|positive regulation of NF-kappaB import into nucleus (GO:0042346)|toll-like receptor 7 signaling pathway (GO:0034154)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)	cytoplasm (GO:0005737)|early phagosome (GO:0032009)|endolysosome membrane (GO:0036020)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|endosome (GO:0005768)|endosome membrane (GO:0010008)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	double-stranded RNA binding (GO:0003725)|drug binding (GO:0008144)|single-stranded RNA binding (GO:0003727)|siRNA binding (GO:0035197)|transmembrane signaling receptor activity (GO:0004888)			NS(1)|breast(4)|endometrium(5)|kidney(1)|large_intestine(8)|lung(18)|ovary(2)|pancreas(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	44					Hydroxychloroquine(DB01611)|Imiquimod(DB00724)	GGCCAACAAACCCGCAAGCTC	0.498																																																0													132	132	132					X																	12906681		2203	4300	6503	SO:0001583	missense	51284			AF240467	CCDS14151.1	Xp22.3	2008-02-05			ENSG00000196664	ENSG00000196664			15631	protein-coding gene	gene with protein product		300365				11022119	Standard	NM_016562		Approved		uc004cvc.3	Q9NYK1	OTTHUMG00000021137	ENST00000380659.3:c.3054C>A	X.37:g.12906681C>A	ENSP00000370034:p.Asn1018Lys	Somatic		WXS	Illumina HiSeq	Phase_I	D1CS69|Q9NR98	Missense_Mutation	SNP	ENST00000380659.3	37	CCDS14151.1	.	.	.	.	.	.	.	.	.	.	C	15.02	2.709113	0.48517	.	.	ENSG00000196664	ENST00000380659	T	0.02552	4.25	5.72	3.77	0.43336	Toll/interleukin-1 receptor homology (TIR) domain (3);	0.126973	0.49916	D	0.000130	T	0.12305	0.0299	M	0.82630	2.6	0.53005	D	0.999963	D	0.57257	0.979	P	0.62298	0.9	T	0.00128	-1.2018	10	0.87932	D	0	.	7.9627	0.30081	0.0:0.5072:0.0:0.4928	.	1018	Q9NYK1	TLR7_HUMAN	K	1018	ENSP00000370034:N1018K	ENSP00000370034:N1018K	N	+	3	2	TLR7	12816602	0.966000	0.33281	0.997000	0.53966	0.987000	0.75469	0.178000	0.16820	0.448000	0.26722	0.600000	0.82982	AAC		0.498	TLR7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055769.1	NM_016562		A	12906681	C	A	12906681	3	1	612	1	0	0	0	0	1	0	0	0	15968	506	18	4	3060	4	TLR7	23	12906681	Missense_Mutation	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10		12906681	142363879	92	37344										
FAM47A	158724	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	34148836	34148836	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	gtccgacgagtcttgggaggCtccgagcggagactggacgt	17	10	1	1			TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chrX:34148836C>T	ENST00000346193.3	-	1	1611	c.1560G>A	c.(1558-1560)gaG>gaA	p.E520E		NM_203408.3	NP_981953.2	Q5JRC9	FA47A_HUMAN	family with sequence similarity 47, member A	520										NS(1)|biliary_tract(1)|breast(2)|central_nervous_system(1)|endometrium(9)|kidney(5)|large_intestine(17)|lung(44)|ovary(5)|prostate(2)|skin(4)|upper_aerodigestive_tract(4)|urinary_tract(2)	97						TCTTGGGAGGCTCCGAGCGGA	0.657																																																0													29	31	30					X																	34148836		2188	4287	6475	SO:0001819	synonymous_variant	158724			BC026171	CCDS43926.1	Xp21.1	2004-08-09			ENSG00000185448	ENSG00000185448			29962	protein-coding gene	gene with protein product	"similar to hypothetical protein FLJ35782"					12477932	Standard	NM_203408		Approved	MGC27003	uc004ddg.3	Q5JRC9	OTTHUMG00000021339	ENST00000346193.3:c.1560G>A	X.37:g.34148836C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K8I9|Q8TAA0	Silent	SNP	ENST00000346193.3	37	CCDS43926.1																																																																																				0.657	FAM47A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056205.1	NM_203408		T	34148836	C	T	34148836	2	4	612	1	0	0	0	0	0	0	0	1	5576	796	28	2		2	FAM47A	23	34148836	Silent	SNP	C	TCGA-HE-A5NL-01A-11D-A26P-10	21242155	34148836	121121724	93	37345										
IL9R	3581	broad.mit.edu	37	chrX	155239822	155239824	+	In_Frame_Del	DEL	CAA	CAA	-													0.0860215053763441	8	1	1.66853795460093	2.02608180201541	1.57584140156754	0.153434800493624	1	0	agcagcagcagcagcagcagCaacaacaacaactactgtgc							TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	CAA	CAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	g.chrX:155239822_155239824delCAA	ENST00000244174.5	+	9	1493_1495	c.1314_1316delCAA	c.(1312-1317)agcaac>agc	p.N442del	IL9R_ENST00000540897.1_3'UTR|IL9R_ENST00000369423.2_3'UTR|IL9R_ENST00000424344.3_In_Frame_Del_p.N421del	NM_002186.2	NP_002177.2	Q01113	IL9R_HUMAN	interleukin 9 receptor	442	Poly-Asn.				cell proliferation (GO:0008283)|positive regulation of cell growth (GO:0030307)|signal transduction (GO:0007165)	extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)	interleukin-9 receptor activity (GO:0004919)	p.N439S(1)		NS(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(3)|large_intestine(1)|lung(12)|upper_aerodigestive_tract(1)	23	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)					gcagcagcagcaacaacaacaAC	0.635																																																1	Substitution - Missense(1)	kidney(1)																																								SO:0001651	inframe_deletion	3581			M84747	CCDS14771.4, CCDS59180.1	Xq28 and Yq12	2008-02-05			ENSG00000124334	ENSG00000124334		"Pseudoautosomal regions / PAR2", "Interleukins and interleukin receptors", "CD molecules"	6030	protein-coding gene	gene with protein product		300007				1376929, 8666384	Standard	NM_002186		Approved	CD129	uc004fnv.1	Q01113	OTTHUMG00000022720	ENST00000244174.5:c.1314_1316delCAA	X.37:g.155239831_155239833delCAA	ENSP00000244174:p.Asn442del	Somatic		WXS	Illumina HiSeq	Phase_I	B9ZVT0|Q14634|Q8WWU1|Q96TF0	In_Frame_Del	DEL	ENST00000244174.5	37	CCDS14771.4																																																																																				0.635	IL9R-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058981.1	NM_002186		-	155239824	CAA	-	155239822	7	5	612	1	0	1	0	1	0	0	0	0	7715	709	25	0	1348	0	IL9R	23	155239822	In_Frame_Del	DEL	CAA	TCGA-HE-A5NL-01A-11D-A26P-10	121090986	155239822	30738	94	37346										
BAI2	576	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	32205741	32205741	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	tcgtcccacttctccttgttTtccgcatccaccatgaagct	5	16	1	1			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr1:32205741T>G	ENST00000373658.3	-	13	2369	c.2028A>C	c.(2026-2028)gaA>gaC	p.E676D	BAI2_ENST00000398538.1_Missense_Mutation_p.E664D|BAI2_ENST00000398556.3_Missense_Mutation_p.E624D|BAI2_ENST00000257070.4_Missense_Mutation_p.E676D|BAI2_ENST00000398547.1_Missense_Mutation_p.E609D|BAI2_ENST00000527361.1_Missense_Mutation_p.E676D|BAI2_ENST00000440175.2_Missense_Mutation_p.E318D|BAI2_ENST00000398542.1_Missense_Mutation_p.E609D|BAI2_ENST00000373655.2_Missense_Mutation_p.E676D	NM_001703.2	NP_001694.2	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	676					G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of angiogenesis (GO:0016525)|neuropeptide signaling pathway (GO:0007218)|peripheral nervous system development (GO:0007422)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			breast(5)|central_nervous_system(2)|endometrium(1)|large_intestine(7)|liver(2)|lung(24)|ovary(7)|pancreas(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	55		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		TCTCCTTGTTTTCCGCATCCA	0.612																																																0													125	110	115					1																	32205741		2203	4300	6503	SO:0001583	missense	576			AB005298	CCDS72746.1, CCDS72747.1	1p35	2014-08-08			ENSG00000121753	ENSG00000121753		"-", "GPCR / Class B : Orphans"	944	protein-coding gene	gene with protein product		602683				9533023	Standard	XM_006710783		Approved		uc001btn.3	O60241	OTTHUMG00000003885	ENST00000373658.3:c.2028A>C	1.37:g.32205741T>G	ENSP00000362762:p.Glu676Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGK9|Q5T6K0|Q8NGW8|Q96GZ9	Missense_Mutation	SNP	ENST00000373658.3	37	CCDS346.2	.	.	.	.	.	.	.	.	.	.	T	18.09	3.546810	0.65198	.	.	ENSG00000121753	ENST00000398556;ENST00000398547;ENST00000373658;ENST00000373655;ENST00000398542;ENST00000257070;ENST00000527361;ENST00000440175;ENST00000398538;ENST00000420125	T;T;T;T;T;T;T;T;T;T	0.10288	2.89;2.89;2.89;2.89;2.89;2.89;2.89;2.89;2.89;2.89	4.62	1.63	0.23807	Domain of unknown function DUF3497 (1);	0.192067	0.26106	N	0.026319	T	0.16385	0.0394	L	0.54323	1.7	0.32584	N	0.528032	P;D;B;P;P;P	0.52996	0.804;0.957;0.307;0.815;0.804;0.815	P;P;P;P;P;P	0.53313	0.526;0.723;0.534;0.631;0.526;0.631	T	0.12268	-1.0554	10	0.46703	T	0.11	.	7.784	0.29080	0.0:0.6153:0.0:0.3847	.	676;664;318;609;676;676	O60241-4;O60241-3;B4DKC3;A2A3C1;O60241-2;O60241	.;.;.;.;.;BAI2_HUMAN	D	624;609;676;676;609;676;676;318;664;614	ENSP00000381564:E624D;ENSP00000381555:E609D;ENSP00000362762:E676D;ENSP00000362759:E676D;ENSP00000381550:E609D;ENSP00000257070:E676D;ENSP00000435397:E676D;ENSP00000391071:E318D;ENSP00000381548:E664D;ENSP00000410921:E614D	ENSP00000257070:E676D	E	-	3	2	BAI2	31978328	1.000000	0.71417	0.975000	0.42487	0.765000	0.43378	0.796000	0.26986	0.124000	0.18369	-0.474000	0.04947	GAA		0.612	BAI2-015	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000381838.1	NM_001703		G	32205741	T	G	32205741	3	3	613	1	0	0	0	0	1	0	0	0	1299	1838	64	5	2813	5	BAI2	1	32205741	Missense_Mutation	SNP	T	TCGA-IA-A40U-01A-11D-A25F-10		32205741	217044880	1	37347										
PMF1	632	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	156209392	156209392	+	5'Flank	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	gtgctgagggagcctgagtgAggagaccgccagccccagaa	16	11	0	5			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr1:156209392A>C	ENST00000368272.4	+	0	0				PMF1_ENST00000567140.1_Intron|PMF1-BGLAP_ENST00000368276.4_Intron|PMF1_ENST00000368279.3_3'UTR|PMF1_ENST00000565805.1_Intron|PMF1_ENST00000368273.4_Nonstop_Mutation_p.*208C|PMF1-BGLAP_ENST00000320139.5_Intron|PMF1_ENST00000368277.3_Nonstop_Mutation_p.*206C|PMF1-BGLAP_ENST00000490491.1_Intron	NM_199173.4	NP_954642.1	P02818	OSTCN_HUMAN	bone gamma-carboxyglutamate (gla) protein						bone development (GO:0060348)|bone mineralization (GO:0030282)|cell adhesion (GO:0007155)|cell aging (GO:0007569)|cellular response to growth factor stimulus (GO:0071363)|cellular response to vitamin D (GO:0071305)|odontogenesis (GO:0042476)|osteoblast development (GO:0002076)|osteoblast differentiation (GO:0001649)|regulation of bone mineralization (GO:0030500)|regulation of bone resorption (GO:0045124)|regulation of osteoclast differentiation (GO:0045670)|response to activity (GO:0014823)|response to drug (GO:0042493)|response to estrogen (GO:0043627)|response to ethanol (GO:0045471)|response to glucocorticoid (GO:0051384)|response to gravity (GO:0009629)|response to hydroxyisoflavone (GO:0033594)|response to mechanical stimulus (GO:0009612)|response to testosterone (GO:0033574)|response to vitamin D (GO:0033280)|response to vitamin K (GO:0032571)|response to zinc ion (GO:0010043)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|dendrite (GO:0030425)|extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|membrane-bounded vesicle (GO:0031988)|perikaryon (GO:0043204)|rough endoplasmic reticulum (GO:0005791)	calcium ion binding (GO:0005509)|hydroxyapatite binding (GO:0046848)|structural constituent of bone (GO:0008147)|structural molecule activity (GO:0005198)			large_intestine(3)|lung(1)|urinary_tract(1)	5	Hepatocellular(266;0.158)				Gallium nitrate(DB05260)|Menadione(DB00170)|Phylloquinone(DB01022)	AGCCTGAGTGAGGAGACCGCC	0.572																																																0													81	85	84					1																	156209392		2203	4300	6503	SO:0001631	upstream_gene_variant	11243			X04143	CCDS1134.1	1q22	2014-05-13	2008-08-01		ENSG00000242252	ENSG00000242252			1043	protein-coding gene	gene with protein product	"osteocalcin"	112260				2785029, 2394711	Standard	NM_199173		Approved	OCN	uc001fnt.3	P02818	OTTHUMG00000014819		1.37:g.156209392A>C	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TCK6	Missense_Mutation	SNP	ENST00000368272.4	37	CCDS1134.1	.	.	.	.	.	.	.	.	.	.	a	16.96	3.267332	0.59540	.	.	ENSG00000160783	ENST00000368273;ENST00000368277	.	.	.	5.07	3.95	0.45737	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	7.4393	0.27174	0.9034:0.0:0.0966:0.0	.	.	.	.	C	208;206	.	.	X	+	3	0	PMF1	154476016	0.998000	0.40836	0.883000	0.34634	0.969000	0.65631	2.898000	0.48672	1.073000	0.40885	0.529000	0.55759	TGA		0.572	BGLAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040867.2	NM_199173		C	156209392	A	C	156209392	1	2	613	0	1	0	0	0	0	0	0	0	12140	317	11	5		5	PMF1	1	156209392	5'Flank	SNP	A	TCGA-IA-A40U-01A-11D-A25F-10	124003651	156209392	93041229	2	37348										
OR2T3	343173	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	248637175	248637175	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	catgagcttccccttttgccAgtctaggaaaatcctgagtt	8	11	1	2			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr1:248637175A>C	ENST00000359594.2	+	1	549	c.524A>C	c.(523-525)cAg>cCg	p.Q175P		NM_001005495.1	NP_001005495.1	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T, member 3	175						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(2)|endometrium(5)|lung(19)|ovary(1)|prostate(1)|skin(3)	31	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)			CCCTTTTGCCAGTCTAGGAAA	0.527																																																0													42	39	40					1																	248637175		2162	4256	6418	SO:0001583	missense	343173				CCDS31117.1	1q44	2012-08-09			ENSG00000196539	ENSG00000196539		"GPCR / Class A : Olfactory receptors"	14727	protein-coding gene	gene with protein product							Standard	NM_001005495		Approved		uc001iel.1	Q8NH03	OTTHUMG00000040452	ENST00000359594.2:c.524A>C	1.37:g.248637175A>C	ENSP00000352604:p.Gln175Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNJ1	Missense_Mutation	SNP	ENST00000359594.2	37	CCDS31117.1	.	.	.	.	.	.	.	.	.	.	a	10.12	1.262159	0.23051	.	.	ENSG00000196539	ENST00000359594	T	0.37235	1.21	2.37	-2.34	0.06704	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.27629	0.0679	N	0.20807	0.61	0.09310	N	1	B	0.29909	0.261	B	0.40602	0.334	T	0.45396	-0.9264	9	0.66056	D	0.02	.	8.3181	0.32113	0.2131:0.0:0.7869:0.0	.	175	Q8NH03	OR2T3_HUMAN	P	175	ENSP00000352604:Q175P	ENSP00000352604:Q175P	Q	+	2	0	OR2T3	246703798	0.000000	0.05858	0.000000	0.03702	0.062000	0.15995	-0.077000	0.11394	-1.019000	0.03358	0.156000	0.16432	CAG		0.527	OR2T3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097348.1	NM_001005495		C	248637175	A	C	248637175	3	2	613	1	0	0	0	0	1	0	0	0	11030	188	7	5	526	5	OR2T3	1	248637175	Missense_Mutation	SNP	A	TCGA-IA-A40U-01A-11D-A25F-10	92427783	248637175	613446	3	37349										
MPHOSPH10	10199	broad.mit.edu	37	chr2	71376396	71376396	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	aaaaacagctgctgaaaaaaCagctacagacaagaaacgag	8	8	0	3			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr2:71376396C>T	ENST00000244230.2	+	10	2061	c.1709C>T	c.(1708-1710)aCa>aTa	p.T570I		NM_005791.2	NP_005782.1	O00566	MPP10_HUMAN	M-phase phosphoprotein 10 (U3 small nucleolar ribonucleoprotein)	570					negative regulation of phosphatase activity (GO:0010923)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)|rRNA processing (GO:0006364)	chromosome (GO:0005694)|nucleolus (GO:0005730)|small nucleolar ribonucleoprotein complex (GO:0005732)	poly(A) RNA binding (GO:0044822)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(2)|pancreas(2)|skin(2)|stomach(1)	26						GCTGAAAAAACAGCTACAGAC	0.333																																																0													38	35	36					2																	71376396		2201	4299	6500	SO:0001583	missense	10199			X98494	CCDS1916.1	2p13.3	2014-06-12			ENSG00000124383	ENSG00000124383			7213	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 106"	605503				8885239, 9450966	Standard	NM_005791		Approved	MPP10, MPP10P, CT90, PPP1R106	uc002sht.2	O00566	OTTHUMG00000129715	ENST00000244230.2:c.1709C>T	2.37:g.71376396C>T	ENSP00000244230:p.Thr570Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVJ8	Missense_Mutation	SNP	ENST00000244230.2	37	CCDS1916.1	.	.	.	.	.	.	.	.	.	.	C	27.4	4.831810	0.91036	.	.	ENSG00000124383	ENST00000244230;ENST00000425650	T;T	0.12879	2.64;2.64	5.64	5.64	0.86602	.	0.097879	0.64402	D	0.000001	T	0.47078	0.1426	M	0.90870	3.155	0.58432	D	0.999998	D	0.69078	0.997	D	0.70716	0.97	T	0.54437	-0.8294	10	0.62326	D	0.03	.	17.585	0.87979	0.0:1.0:0.0:0.0	.	570	O00566	MPP10_HUMAN	I	570;430	ENSP00000244230:T570I;ENSP00000393034:T430I	ENSP00000244230:T570I	T	+	2	0	MPHOSPH10	71229904	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.007000	0.63984	2.837000	0.97791	0.655000	0.94253	ACA		0.333	MPHOSPH10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251924.2	NM_005791		T	71376396	C	T	71376396	3	4	613	1	0	0	0	0	1	0	0	0	9732	478	17	2	1747	2	MPHOSPH10	2	71376396	Missense_Mutation	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10		71376396	171822977	4	37350										
WDR54	84058	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	74651108	74651108	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	caccgagcctgcccagggacAggtgagtggacttcccctac	12	15	0	1			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr2:74651108A>G	ENST00000348227.4	+	6	621	c.533A>G	c.(532-534)cAg>cGg	p.Q178R	WDR54_ENST00000409791.1_Splice_Site_p.Q126R|WDR54_ENST00000461531.1_3'UTR	NM_032118.2	NP_115494.1	Q9H977	WDR54_HUMAN	WD repeat domain 54	178										breast(1)|large_intestine(1)|lung(6)|upper_aerodigestive_tract(1)	9						GCCCAGGGACAGGTGAGTGGA	0.597																																																0													72	67	69					2																	74651108		2203	4300	6503	SO:0001630	splice_region_variant	84058			AK023015	CCDS1940.1	2p13.1	2013-01-09			ENSG00000005448	ENSG00000005448		"WD repeat domain containing"	25770	protein-coding gene	gene with protein product						12477932	Standard	NM_032118		Approved	FLJ12953	uc002slb.3	Q9H977	OTTHUMG00000129951	ENST00000348227.4:c.534+1A>G	2.37:g.74651108A>G		Somatic		WXS	Illumina HiSeq	Phase_I	D6W5I3|Q53H85|Q86V45	Missense_Mutation	SNP	ENST00000348227.4	37	CCDS1940.1	.	.	.	.	.	.	.	.	.	.	A	8.262	0.811387	0.16537	.	.	ENSG00000005448	ENST00000409791;ENST00000426787;ENST00000348227	T;T	0.50277	0.75;0.75	5.23	4.05	0.47172	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.490280	0.21308	N	0.076697	T	0.28928	0.0718	N	0.22421	0.69	0.37494	D	0.916488	B	0.20671	0.047	B	0.17098	0.017	T	0.12293	-1.0553	10	0.23891	T	0.37	.	5.7368	0.18071	0.7423:0.169:0.0887:0.0	.	178	Q9H977	WDR54_HUMAN	R	126;160;178	ENSP00000387236:Q126R;ENSP00000006526:Q178R	ENSP00000006526:Q178R	Q	+	2	0	WDR54	74504616	1.000000	0.71417	1.000000	0.80357	0.890000	0.51754	3.121000	0.50438	0.795000	0.33922	0.528000	0.53228	CAG		0.597	WDR54-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252213.1	NM_032118	Missense_Mutation	G	74651108	A	G	74651108	5	3	613	1	0	0	0	0	0	0	1	0	17318	202	7	3	551	3	WDR54	2	74651108	Splice_Site	SNP	A	TCGA-IA-A40U-01A-11D-A25F-10	3274712	74651108	168548265	5	37351										
INO80D	54891	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	206921631	206921631	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	ttcttcctctcttttttcggGataaagccaagtacctgcaa	6	11	2	0			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr2:206921631G>A	ENST00000403263.1	-	4	659	c.255C>T	c.(253-255)atC>atT	p.I85I		NM_017759.4	NP_060229.3	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	85					DNA recombination (GO:0006310)|DNA repair (GO:0006281)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)				NS(1)|cervix(2)|endometrium(3)|kidney(3)|large_intestine(3)|lung(9)|ovary(2)|prostate(1)|urinary_tract(2)	26						CTTTTTTCGGGATAAAGCCAA	0.408																																																0													103	90	94					2																	206921631		1900	4118	6018	SO:0001819	synonymous_variant	54891				CCDS46500.1	2q33.3	2011-07-06			ENSG00000114933	ENSG00000114933		"INO80 complex subunits"	25997	protein-coding gene	gene with protein product						16230350	Standard	NM_017759		Approved	FLJ20309	uc002vaz.4	Q53TQ3	OTTHUMG00000154649	ENST00000403263.1:c.255C>T	2.37:g.206921631G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KU68|B9EG77|Q6PJC6|Q6PJU1|Q6PKA1|Q9NXD5	Silent	SNP	ENST00000403263.1	37	CCDS46500.1																																																																																				0.408	INO80D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336459.1	NM_017759		A	206921631	G	A	206921631	2	1	613	1	0	0	0	0	0	0	0	1	7756	1164	41	2		2	INO80D	2	206921631	Silent	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10	132270523	206921631	36277742	6	37352										
ERBB4	2066	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	212248449	212248449	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	ctgccacaataggccggatcCgcccattctgtttataaaaa	7	12	1	0			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr2:212248449C>T	ENST00000342788.4	-	28	4128	c.3818G>A	c.(3817-3819)cGg>cAg	p.R1273Q	ERBB4_ENST00000436443.1_Missense_Mutation_p.R1257Q|ERBB4_ENST00000402597.1_Missense_Mutation_p.R1263Q	NM_005235.2	NP_005226.1	Q15303	ERBB4_HUMAN	v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 4	1273					cardiac muscle tissue regeneration (GO:0061026)|cell fate commitment (GO:0045165)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|central nervous system morphogenesis (GO:0021551)|embryonic pattern specification (GO:0009880)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|lactation (GO:0007595)|mammary gland alveolus development (GO:0060749)|mammary gland epithelial cell differentiation (GO:0060644)|mitochondrial fragmentation involved in apoptotic process (GO:0043653)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|nervous system development (GO:0007399)|neural crest cell migration (GO:0001755)|neurotrophin TRK receptor signaling pathway (GO:0048011)|olfactory bulb interneuron differentiation (GO:0021889)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cardiac muscle cell proliferation (GO:0060045)|positive regulation of cell proliferation (GO:0008284)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of STAT protein import into nucleus (GO:2000366)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of tyrosine phosphorylation of Stat5 protein (GO:0042523)|protein autophosphorylation (GO:0046777)|regulation of cell migration (GO:0030334)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	basolateral plasma membrane (GO:0016323)|cytosol (GO:0005829)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|epidermal growth factor receptor binding (GO:0005154)|protein homodimerization activity (GO:0042803)|protein tyrosine kinase activity (GO:0004713)|receptor signaling protein tyrosine kinase activity (GO:0004716)|transcription regulatory region DNA binding (GO:0044212)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			NS(1)|breast(7)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(31)|lung(71)|pancreas(1)|prostate(3)|skin(39)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	179		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)	Afatinib(DB08916)	AGGCCGGATCCGCCCATTCTG	0.532										TSP Lung(8;0.080)																																						0													89	91	91					2																	212248449		2203	4300	6503	SO:0001583	missense	2066			L07868	CCDS2394.1, CCDS42811.1	2q33.3-q34	2013-10-11	2013-07-09		ENSG00000178568	ENSG00000178568			3432	protein-coding gene	gene with protein product		600543	"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"			7700649, 17018285	Standard	NM_001042599		Approved	ALS19	uc002veg.1	Q15303	OTTHUMG00000133012	ENST00000342788.4:c.3818G>A	2.37:g.212248449C>T	ENSP00000342235:p.Arg1273Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLD7|B7ZLE2|B7ZLE3|Q2M1W1|Q59EW4	Missense_Mutation	SNP	ENST00000342788.4	37	CCDS2394.1	.	.	.	.	.	.	.	.	.	.	C	17.20	3.328293	0.60743	.	.	ENSG00000178568	ENST00000342788;ENST00000436443;ENST00000402597	T;T;T	0.75367	-0.92;-0.93;-0.92	5.41	5.41	0.78517	.	0.000000	0.64402	D	0.000001	T	0.72518	0.3470	L	0.44542	1.39	0.52501	D	0.999958	P;P;P;P	0.50710	0.938;0.873;0.938;0.897	P;P;P;B	0.44860	0.462;0.462;0.462;0.273	T	0.73151	-0.4073	10	0.42905	T	0.14	.	19.39	0.94576	0.0:1.0:0.0:0.0	.	1247;1263;1257;1273	Q15303-4;Q15303-2;Q15303-3;Q15303	.;.;.;ERBB4_HUMAN	Q	1273;1257;1263	ENSP00000342235:R1273Q;ENSP00000403204:R1257Q;ENSP00000385565:R1263Q	ENSP00000342235:R1273Q	R	-	2	0	ERBB4	211956694	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	5.584000	0.67490	2.812000	0.96745	0.557000	0.71058	CGG		0.532	ERBB4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256597.1	NM_001042599		T	212248449	C	T	212248449	3	4	613	1	0	0	0	0	1	0	0	0	5211	652	23	1	112	1	ERBB4	2	212248449	Missense_Mutation	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10	5326818	212248449	30950924	7	37353										
CCDC66	285331	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	56627039	56627039	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	cctttcagtgctgtgaaacaAgaactgcaaagaaaatggat	9	7	1	3			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr3:56627039A>C	ENST00000394672.3	+	8	1048	c.978A>C	c.(976-978)caA>caC	p.Q326H	CCDC66_ENST00000436465.2_Missense_Mutation_p.Q326H|CCDC66_ENST00000326595.7_Missense_Mutation_p.Q292H	NM_001012506.4|NM_001141947.1	NP_001012524.4|NP_001135419.1	A2RUB6	CCD66_HUMAN	coiled-coil domain containing 66	326					post-embryonic retina morphogenesis in camera-type eye (GO:0060060)|retinal rod cell development (GO:0046548)					breast(1)|kidney(1)|large_intestine(2)|liver(1)|lung(4)|skin(2)|urinary_tract(1)	12				KIRC - Kidney renal clear cell carcinoma(284;0.0478)|Kidney(284;0.0597)|OV - Ovarian serous cystadenocarcinoma(275;0.233)		CTGTGAAACAAGAACTGCAAA	0.333																																																0													100	108	106					3																	56627039		2203	4300	6503	SO:0001583	missense	285331			AL832692	CCDS33770.2, CCDS46852.1	3p14.3	2006-03-27			ENSG00000180376	ENSG00000180376			27709	protein-coding gene	gene with protein product						14702039	Standard	NR_024460		Approved	DKFZp686C0433	uc003dhz.3	A2RUB6	OTTHUMG00000155748	ENST00000394672.3:c.978A>C	3.37:g.56627039A>C	ENSP00000378167:p.Gln326His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWL8|Q4VC34|Q8N949	Missense_Mutation	SNP	ENST00000394672.3	37	CCDS46852.1	.	.	.	.	.	.	.	.	.	.	A	17.71	3.456082	0.63401	.	.	ENSG00000180376	ENST00000394672;ENST00000326595;ENST00000436465	T;T;T	0.23950	1.88;1.88;1.88	5.6	0.516	0.17019	.	0.359209	0.26542	N	0.023798	T	0.19005	0.0456	L	0.55103	1.725	0.80722	D	1	B	0.17038	0.02	B	0.19391	0.025	T	0.06661	-1.0814	10	0.38643	T	0.18	-3.3314	2.9391	0.05824	0.4431:0.0:0.258:0.2989	.	326	A2RUB6	CCD66_HUMAN	H	326;292;326	ENSP00000378167:Q326H;ENSP00000326050:Q292H;ENSP00000404320:Q326H	ENSP00000326050:Q292H	Q	+	3	2	CCDC66	56602079	0.989000	0.36119	0.920000	0.36463	0.969000	0.65631	0.062000	0.14389	-0.134000	0.11516	0.533000	0.62120	CAA		0.333	CCDC66-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000341473.1	NM_001012506		C	56627039	A	C	56627039	3	2	613	1	0	0	0	0	1	0	0	0	2840	69	3	5	1008	5	CCDC66	3	56627039	Missense_Mutation	SNP	A	TCGA-IA-A40U-01A-11D-A25F-10		56627039	141395391	8	37354										
TRIM42	287015	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	140401754	140401754	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	ctgtgcaacgactgcctcaaGgccttccactcggatgtggc	11	14	1	0			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr3:140401754G>A	ENST00000286349.3	+	2	983	c.792G>A	c.(790-792)aaG>aaA	p.K264K		NM_152616.4	NP_689829.3	Q8IWZ5	TRI42_HUMAN	tripartite motif containing 42	264						intracellular (GO:0005622)	zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|large_intestine(11)|lung(33)|ovary(2)|pancreas(1)|prostate(6)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(2)	69						ACTGCCTCAAGGCCTTCCACT	0.617																																																0													115	102	106					3																	140401754		2203	4300	6503	SO:0001819	synonymous_variant	287015			AF521868	CCDS3113.1	3q23	2014-02-17	2011-01-25		ENSG00000155890	ENSG00000155890		"Tripartite motif containing / Tripartite motif containing", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits", "Fibronectin type III domain containing", "RING-type (C3HC4) zinc fingers"	19014	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 40"		"tripartite motif-containing 42"				Standard	NM_152616		Approved	FLJ40097, PPP1R40	uc003eto.2	Q8IWZ5	OTTHUMG00000160170	ENST00000286349.3:c.792G>A	3.37:g.140401754G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A1L4B4|Q8N832|Q8NDL3	Silent	SNP	ENST00000286349.3	37	CCDS3113.1																																																																																				0.617	TRIM42-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359531.2	NM_152616		A	140401754	G	A	140401754	2	1	613	1	0	0	0	0	0	0	0	1	16529	991	35	2		2	TRIM42	3	140401754	Silent	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10	83774715	140401754	57620676	9	37355										
PRKCI	5584	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	170013708	170013708	+	Frame_Shift_Del	DEL	A	A	-													0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	tatctttctagttattttggAaaaacaaattcgcataccac							TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr3:170013708delA	ENST00000295797.4	+	15	1732	c.1427delA	c.(1426-1428)gaafs	p.E476fs		NM_002740.5	NP_002731.4	P41743	KPCI_HUMAN	protein kinase C, iota	476	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				actin filament organization (GO:0007015)|cell junction assembly (GO:0034329)|cell migration (GO:0016477)|cell-cell junction organization (GO:0045216)|cellular response to insulin stimulus (GO:0032869)|cytoskeleton organization (GO:0007010)|establishment of apical/basal cell polarity (GO:0035089)|establishment or maintenance of epithelial cell apical/basal polarity (GO:0045197)|eye photoreceptor cell development (GO:0042462)|Golgi vesicle budding (GO:0048194)|intracellular signal transduction (GO:0035556)|membrane organization (GO:0061024)|negative regulation of apoptotic process (GO:0043066)|negative regulation of glial cell apoptotic process (GO:0034351)|negative regulation of neuron apoptotic process (GO:0043524)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of endothelial cell apoptotic process (GO:2000353)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of glial cell proliferation (GO:0060252)|positive regulation of glucose import (GO:0046326)|positive regulation of neuron projection development (GO:0010976)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|protein phosphorylation (GO:0006468)|protein targeting to membrane (GO:0006612)|response to interleukin-1 (GO:0070555)|secretion (GO:0046903)|tight junction assembly (GO:0070830)|vesicle-mediated transport (GO:0016192)	apical plasma membrane (GO:0016324)|cell leading edge (GO:0031252)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|intercellular bridge (GO:0045171)|microtubule cytoskeleton (GO:0015630)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|Schmidt-Lanterman incisure (GO:0043220)	ATP binding (GO:0005524)|phospholipid binding (GO:0005543)|protein kinase activity (GO:0004672)|protein kinase C activity (GO:0004697)|protein serine/threonine kinase activity (GO:0004674)|zinc ion binding (GO:0008270)			breast(2)|endometrium(5)|kidney(1)|large_intestine(4)|lung(16)|ovary(2)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	36	all_cancers(22;6.45e-23)|all_epithelial(15;8.52e-28)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)		Tamoxifen(DB00675)	GTTATTTTGGAAAAACAAATT	0.289																																																0													51	55	54					3																	170013708		2202	4298	6500	SO:0001589	frameshift_variant	5584				CCDS3212.2	3q26.3	2008-07-18			ENSG00000163558	ENSG00000163558	2.7.11.13		9404	protein-coding gene	gene with protein product		600539		DXS1179E		7607695, 11978974	Standard	NM_002740		Approved	PKCI	uc003fgs.2	P41743	OTTHUMG00000150214	ENST00000295797.4:c.1427delA	3.37:g.170013708delA	ENSP00000295797:p.Glu476fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNQ4|Q8WW06	Frame_Shift_Del	DEL	ENST00000295797.4	37	CCDS3212.2																																																																																				0.289	PRKCI-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316866.3	NM_002740		-	170013708	A	-	170013708	7	5	613	1	0	1	0	1	0	0	0	0	12524	246	9	0	1485	0	PRKCI	3	170013708	Frame_Shift_Del	DEL	A	TCGA-IA-A40U-01A-11D-A25F-10	29611954	170013708	28008722	10	37356										
CDKL2	8999	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	76532433	76532433	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	atcgggttgccacataatcaGtataaacctccccaggagct	8	12	1	0			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr4:76532433G>A	ENST00000429927.2	-	4	1179	c.476C>T	c.(475-477)aCt>aTt	p.T159I	CDKL2_ENST00000307465.4_Missense_Mutation_p.T159I	NM_003948.3	NP_003939.1	Q92772	CDKL2_HUMAN	cyclin-dependent kinase-like 2 (CDC2-related kinase)	159	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				sex differentiation (GO:0007548)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|cyclin-dependent protein serine/threonine kinase activity (GO:0004693)|protein kinase activity (GO:0004672)			breast(3)|endometrium(1)|large_intestine(4)|lung(6)|ovary(2)|prostate(2)|skin(2)|stomach(2)	22			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			CACATAATCAGTATAAACCTC	0.443																																																0													90	86	87					4																	76532433		2203	4300	6503	SO:0001583	missense	8999			U35146	CCDS3570.1	4q21.21	2011-11-04			ENSG00000138769	ENSG00000138769		"Cyclin-dependent kinases"	1782	protein-coding gene	gene with protein product		603442				9000130	Standard	NM_003948		Approved	P56, KKIAMRE	uc003hiq.3	Q92772	OTTHUMG00000130103	ENST00000429927.2:c.476C>T	4.37:g.76532433G>A	ENSP00000412365:p.Thr159Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2R695	Missense_Mutation	SNP	ENST00000429927.2	37	CCDS3570.1	.	.	.	.	.	.	.	.	.	.	g	23.8	4.454370	0.84209	.	.	ENSG00000138769	ENST00000429927;ENST00000307465	T;T	0.68025	-0.3;-0.3	4.72	4.72	0.59763	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	.	.	.	.	T	0.81945	0.4930	M	0.78344	2.41	0.50813	D	0.999894	D;D	0.89917	1.0;1.0	D;D	0.81914	0.988;0.995	D	0.84486	0.0608	9	0.87932	D	0	-11.7169	16.9749	0.86310	0.0:0.0:1.0:0.0	.	159;159	B4DH08;Q92772	.;CDKL2_HUMAN	I	159	ENSP00000412365:T159I;ENSP00000306340:T159I	ENSP00000306340:T159I	T	-	2	0	CDKL2	76751457	1.000000	0.71417	0.946000	0.38457	0.908000	0.53690	8.407000	0.90218	2.605000	0.88082	0.639000	0.83563	ACT		0.443	CDKL2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000252409.2	NM_003948		A	76532433	G	A	76532433	3	1	613	1	0	0	0	0	1	0	0	0	3156	1029	36	2	1037	2	CDKL2	4	76532433	Missense_Mutation	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10		76532433	114621843	11	37357										
SYNPO2	171024	hgsc.bcm.edu;bcgsc.ca	37	chr4	119947961	119947961	+	Missense_Mutation	SNP	A	A	C													0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	agttcccctagctgagaaccAaagaagtggtcccgactgtg					rs70944826	byFrequency	TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr4:119947961A>C	ENST00000429713.2	+	3	619	c.437A>C	c.(436-438)cAa>cCa	p.Q146P	SYNPO2_ENST00000448416.2_Intron|SYNPO2_ENST00000307142.4_Missense_Mutation_p.Q146P|SYNPO2_ENST00000434046.2_Missense_Mutation_p.Q146P	NM_001128933.1	NP_001122405.1	Q9UMS6	SYNP2_HUMAN	synaptopodin 2	146						actin cytoskeleton (GO:0015629)|focal adhesion (GO:0005925)|nucleus (GO:0005634)|Z disc (GO:0030018)	14-3-3 protein binding (GO:0071889)|muscle alpha-actinin binding (GO:0051371)			breast(3)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(20)|lung(18)|ovary(2)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	64						GCTGAGAACCAAAGAAGTGGT	0.557																																																0													43	45	44					4																	119947961		2203	4300	6503	SO:0001583	missense	171024			AJ010482	CCDS34054.1, CCDS47128.1, CCDS47129.1, CCDS75185.1, CCDS75186.1	4q26	2008-08-29			ENSG00000172403	ENSG00000172403			17732	protein-coding gene	gene with protein product						11673475, 17828378	Standard	NM_133477		Approved	MYOPODIN	uc010inb.3	Q9UMS6	OTTHUMG00000161165	ENST00000429713.2:c.437A>C	4.37:g.119947961A>C	ENSP00000395143:p.Gln146Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RWP6|B2Y8J9|Q9UK89|S5XAM4	Missense_Mutation	SNP	ENST00000429713.2	37	CCDS47129.1	.	.	.	.	.	.	.	.	.	.	A	8.210	0.800113	0.16397	.	.	ENSG00000172403	ENST00000307142;ENST00000429713;ENST00000434046	T;T;T	0.08896	3.04;3.04;3.04	5.51	2.93	0.34026	.	0.395951	0.21221	N	0.078143	T	0.07999	0.0200	M	0.62723	1.935	0.09310	N	1	B;P;B;B	0.34757	0.165;0.467;0.165;0.165	B;B;B;B	0.28139	0.043;0.086;0.069;0.043	T	0.28459	-1.0043	10	0.59425	D	0.04	-2.8964	4.6069	0.12382	0.561:0.1597:0.2792:0.0	.	146;146;146;146	B9EG60;Q9UMS6-2;E9PEM2;Q9UMS6	.;.;.;SYNP2_HUMAN	P	146	ENSP00000306015:Q146P;ENSP00000395143:Q146P;ENSP00000390965:Q146P	ENSP00000306015:Q146P	Q	+	2	0	SYNPO2	120167409	0.019000	0.18553	0.400000	0.26346	0.322000	0.28314	1.517000	0.35867	0.792000	0.33850	0.455000	0.32223	CAA		0.557	SYNPO2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000364020.1			C	119947961	A	C	119947961	3	2	613	1	0	0	0	0	1	0	0	0	15469	130	5	5	447	5	SYNPO2	4	119947961	Missense_Mutation	SNP	A	TCGA-IA-A40U-01A-11D-A25F-10	43415528	119947961	71206315	12	37358	289	2								
SYNPO2	171024	hgsc.bcm.edu	37	chr4	119947965	119947967	+	In_Frame_Del	DEL	AAG	AAG	-													0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	cccctagctgagaaccaaagAagtggtcccgactgtgcagg							TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr4:119947965_119947967delAAG	ENST00000429713.2	+	3	623_625	c.441_443delAAG	c.(439-444)agaagt>agt	p.R147del	SYNPO2_ENST00000448416.2_Intron|SYNPO2_ENST00000307142.4_In_Frame_Del_p.R147del|SYNPO2_ENST00000434046.2_In_Frame_Del_p.R147del	NM_001128933.1	NP_001122405.1	Q9UMS6	SYNP2_HUMAN	synaptopodin 2	147				Missing (in Ref. 3; AL832031). {ECO:0000305}.		actin cytoskeleton (GO:0015629)|focal adhesion (GO:0005925)|nucleus (GO:0005634)|Z disc (GO:0030018)	14-3-3 protein binding (GO:0071889)|muscle alpha-actinin binding (GO:0051371)			breast(3)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(20)|lung(18)|ovary(2)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	64						AGAACCAAAGAAGTGGTCCCGAC	0.552																																																0																																										SO:0001651	inframe_deletion	171024			AJ010482	CCDS34054.1, CCDS47128.1, CCDS47129.1, CCDS75185.1, CCDS75186.1	4q26	2008-08-29			ENSG00000172403	ENSG00000172403			17732	protein-coding gene	gene with protein product						11673475, 17828378	Standard	NM_133477		Approved	MYOPODIN	uc010inb.3	Q9UMS6	OTTHUMG00000161165	ENST00000429713.2:c.441_443delAAG	4.37:g.119947965_119947967delAAG	ENSP00000395143:p.Arg147del	Somatic		WXS	Illumina HiSeq	Phase_I	B2RWP6|B2Y8J9|Q9UK89|S5XAM4	In_Frame_Del	DEL	ENST00000429713.2	37	CCDS47129.1																																																																																				0.552	SYNPO2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000364020.1			-	119947967	AAG	-	119947965	7	5	613	1	0	1	0	1	0	0	0	0	15469	243	9	0	451	0	SYNPO2	4	119947965	In_Frame_Del	DEL	AAG	TCGA-IA-A40U-01A-11D-A25F-10	4	119947965	71206311	13	37359	289	2								
FAT4	79633	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	126240999	126240999	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	cttttgaaatggtgcagccaGattttgagttgcatgccatc	10	8	0	3			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr4:126240999G>A	ENST00000394329.3	+	1	3446	c.3433G>A	c.(3433-3435)Gat>Aat	p.D1145N		NM_024582.4	NP_078858.4	Q6V0I7	FAT4_HUMAN	FAT atypical cadherin 4	1145	Cadherin 11. {ECO:0000255|PROSITE- ProRule:PRU00043}.				branching involved in ureteric bud morphogenesis (GO:0001658)|cerebral cortex development (GO:0021987)|digestive tract development (GO:0048565)|heart morphogenesis (GO:0003007)|heterophilic cell-cell adhesion (GO:0007157)|hippo signaling (GO:0035329)|homophilic cell adhesion (GO:0007156)|inner ear receptor stereocilium organization (GO:0060122)|neurogenesis (GO:0022008)|ossification involved in bone maturation (GO:0043931)|plasma membrane organization (GO:0007009)|regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072307)	apical part of cell (GO:0045177)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(6)|autonomic_ganglia(1)|breast(4)|central_nervous_system(3)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(3)|kidney(10)|large_intestine(93)|liver(3)|lung(120)|ovary(9)|pancreas(2)|prostate(21)|skin(31)|stomach(1)|upper_aerodigestive_tract(12)|urinary_tract(6)	355						GGTGCAGCCAGATTTTGAGTT	0.453																																																0													160	162	162					4																	126240999		1913	4132	6045	SO:0001583	missense	79633			AY356402	CCDS3732.3	4q28.1	2013-05-31	2013-05-31		ENSG00000196159	ENSG00000196159		"Cadherins / Cadherin-related"	23109	protein-coding gene	gene with protein product	"cadherin-related family member 11"	612411	"FAT tumor suppressor homolog 4 (Drosophila)"			15003449	Standard	NM_024582		Approved	CDHF14, FAT-J, CDHR11	uc003ifj.4	Q6V0I7	OTTHUMG00000133100	ENST00000394329.3:c.3433G>A	4.37:g.126240999G>A	ENSP00000377862:p.Asp1145Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5Z6|B5MDG4|Q3LIA6|Q8TCK7|Q9H5T6	Missense_Mutation	SNP	ENST00000394329.3	37	CCDS3732.3	.	.	.	.	.	.	.	.	.	.	G	11.28	1.592284	0.28357	.	.	ENSG00000196159	ENST00000394329	T	0.49432	0.78	4.99	4.14	0.48551	Cadherin (4);Cadherin-like (1);	0.223514	0.21270	N	0.077330	T	0.36580	0.0972	L	0.37507	1.11	0.80722	D	1	B	0.11235	0.004	B	0.10450	0.005	T	0.12400	-1.0549	10	0.13108	T	0.6	.	13.9069	0.63841	0.0744:0.0:0.9256:0.0	.	1145	Q6V0I7	FAT4_HUMAN	N	1145	ENSP00000377862:D1145N	ENSP00000377862:D1145N	D	+	1	0	FAT4	126460449	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	6.076000	0.71267	1.299000	0.44798	0.561000	0.74099	GAT		0.453	FAT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256765.2	NM_024582		A	126240999	G	A	126240999	3	1	613	1	0	0	0	0	1	0	0	0	5699	942	33	2	3435	2	FAT4	4	126240999	Missense_Mutation	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10	6293034	126240999	64913277	14	37360										
ADCY2	108	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	7816984	7816984	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	tgtgtttgttctcaggagccCgagcggcagtacatgcacat	12	10	1	0			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr5:7816984C>T	ENST00000338316.4	+	23	2978	c.2889C>T	c.(2887-2889)ccC>ccT	p.P963P	ADCY2_ENST00000537121.1_Silent_p.P783P	NM_020546.2	NP_065433.2	Q08462	ADCY2_HUMAN	adenylate cyclase 2 (brain)	963					activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|cAMP biosynthetic process (GO:0006171)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|neurotrophin TRK receptor signaling pathway (GO:0048011)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cytoplasm (GO:0005737)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|intracellular (GO:0005622)|membrane (GO:0016020)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	adenylate cyclase activity (GO:0004016)|adenylate cyclase binding (GO:0008179)|ATP binding (GO:0005524)|calcium- and calmodulin-responsive adenylate cyclase activity (GO:0008294)|metal ion binding (GO:0046872)|protein heterodimerization activity (GO:0046982)			NS(3)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(22)|lung(56)|ovary(8)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(7)	119						CTCAGGAGCCCGAGCGGCAGT	0.502											OREG0016499	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													148	124	132					5																	7816984		2203	4300	6503	SO:0001819	synonymous_variant	108			AB028983	CCDS3872.2	5p15.3	2013-02-04			ENSG00000078295	ENSG00000078295	4.6.1.1	"Adenylate cyclases"	233	protein-coding gene	gene with protein product		103071				1427768	Standard	NM_020546		Approved	HBAC2, KIAA1060, AC2	uc003jdz.1	Q08462	OTTHUMG00000090476	ENST00000338316.4:c.2889C>T	5.37:g.7816984C>T		Somatic	644	WXS	Illumina HiSeq	Phase_I	B7Z2C1|Q2NKL8|Q9UDB2|Q9UPU2	Silent	SNP	ENST00000338316.4	37	CCDS3872.2																																																																																				0.502	ADCY2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206930.2	NM_020546		T	7816984	C	T	7816984	2	4	613	1	0	0	0	0	0	0	0	1	294	639	23	1		1	ADCY2	5	7816984	Silent	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10		7816984	173098276	15	37361										
NUP155	9631	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	37307409	37307409	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	tggaatgcacctttcttggaAggcctgaagtccaactatgt	10	9	1	1			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr5:37307409A>G	ENST00000231498.3	-	25	3096	c.2893T>C	c.(2893-2895)Ttc>Ctc	p.F965L	NUP155_ENST00000381843.2_Missense_Mutation_p.F906L|NUP155_ENST00000502533.1_5'UTR|NUP155_ENST00000513532.1_Missense_Mutation_p.F901L	NM_153485.1	NP_705618.1	O75694	NU155_HUMAN	nucleoporin 155kDa	965					atrial cardiac muscle cell action potential (GO:0086014)|carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA export from nucleus (GO:0006406)|nuclear envelope organization (GO:0006998)|protein import into nucleus (GO:0006606)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	membrane (GO:0016020)|nuclear envelope (GO:0005635)|nuclear pore (GO:0005643)	structural constituent of nuclear pore (GO:0017056)|transporter activity (GO:0005215)			endometrium(1)|kidney(16)|large_intestine(5)|lung(29)|ovary(2)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	62	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CTTTCTTGGAAGGCCTGAAGT	0.358																																																0													112	104	106					5																	37307409		2203	4300	6503	SO:0001583	missense	9631			AJ007558	CCDS3921.1, CCDS43310.1, CCDS64142.1	5p13.1	2008-02-05	2002-08-29		ENSG00000113569	ENSG00000113569			8063	protein-coding gene	gene with protein product		606694	"nucleoporin 155kD"			10191094	Standard	NM_153485		Approved	KIAA0791, N155	uc003jku.1	O75694	OTTHUMG00000090803	ENST00000231498.3:c.2893T>C	5.37:g.37307409A>G	ENSP00000231498:p.Phe965Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UBE9|Q9UFL5	Missense_Mutation	SNP	ENST00000231498.3	37	CCDS3921.1	.	.	.	.	.	.	.	.	.	.	A	20.3	3.964993	0.74131	.	.	ENSG00000113569	ENST00000231498;ENST00000381843;ENST00000434056;ENST00000513532	T;T;T	0.77750	-1.11;-1.1;-1.12	5.3	5.3	0.74995	Nucleoporin, Nup133/Nup155-like, C-terminal (1);	0.000000	0.85682	D	0.000000	T	0.77778	0.4181	L	0.56124	1.755	0.58432	D	0.999999	P;P	0.45827	0.867;0.568	P;P	0.48063	0.565;0.534	T	0.74734	-0.3565	10	0.20046	T	0.44	-2.0962	15.2661	0.73663	1.0:0.0:0.0:0.0	.	901;965	E9PF10;O75694	.;NU155_HUMAN	L	965;906;927;901	ENSP00000231498:F965L;ENSP00000371265:F906L;ENSP00000422019:F901L	ENSP00000231498:F965L	F	-	1	0	NUP155	37343166	1.000000	0.71417	1.000000	0.80357	0.951000	0.60555	8.959000	0.93110	2.016000	0.59253	0.533000	0.62120	TTC		0.358	NUP155-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207593.2	NM_153485, NM_004298		G	37307409	A	G	37307409	3	3	613	1	0	0	0	0	1	0	0	0	10763	72	3	3	1326	3	NUP155	5	37307409	Missense_Mutation	SNP	A	TCGA-IA-A40U-01A-11D-A25F-10	29490425	37307409	143607851	16	37362										
PAM	5066	hgsc.bcm.edu;broad.mit.edu	37	chr5	102237063	102237063	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	aatcttttttttaatagtccGatacatacttctgcatgtct	4	8	3	0			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr5:102237063G>A	ENST00000438793.3	+	3	684	c.214G>A	c.(214-216)Gat>Aat	p.D72N	PAM_ENST00000379787.4_5'UTR|PAM_ENST00000348126.2_Missense_Mutation_p.D72N|PAM_ENST00000274392.9_Intron|PAM_ENST00000346918.2_Missense_Mutation_p.D72N|PAM_ENST00000455264.2_Missense_Mutation_p.D72N|PAM_ENST00000304400.7_Missense_Mutation_p.D72N	NM_000919.3|NM_001177306.1|NM_138766.2	NP_000910.2|NP_001170777.1|NP_620121.1	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase	72	Peptidylglycine alpha-hydroxylating monooxygenase. {ECO:0000250}.				central nervous system development (GO:0007417)|heart development (GO:0007507)|lactation (GO:0007595)|limb development (GO:0060173)|long-chain fatty acid metabolic process (GO:0001676)|maternal process involved in female pregnancy (GO:0060135)|odontogenesis (GO:0042476)|ovulation cycle process (GO:0022602)|peptide amidation (GO:0001519)|protein amidation (GO:0018032)|protein homooligomerization (GO:0051260)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of protein secretion (GO:0050708)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to copper ion (GO:0046688)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to glucocorticoid (GO:0051384)|response to hypoxia (GO:0001666)|response to pH (GO:0009268)|toxin metabolic process (GO:0009404)	cell surface (GO:0009986)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|neuron projection (GO:0043005)|perikaryon (GO:0043204)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|secretory granule membrane (GO:0030667)|trans-Golgi network (GO:0005802)	calcium ion binding (GO:0005509)|copper ion binding (GO:0005507)|L-ascorbic acid binding (GO:0031418)|peptidylamidoglycolate lyase activity (GO:0004598)|peptidylglycine monooxygenase activity (GO:0004504)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(2)|large_intestine(10)|lung(8)|prostate(2)|upper_aerodigestive_tract(1)	25		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)	TTAATAGTCCGATACATACTT	0.353																																																0													106	107	107					5																	102237063		2203	4300	6503	SO:0001583	missense	5066			AB095007	CCDS4092.1, CCDS4093.1, CCDS4094.1, CCDS43348.1, CCDS54885.1	5q	2008-02-05			ENSG00000145730	ENSG00000145730	1.14.17.3		8596	protein-coding gene	gene with protein product	"peptidyl-alpha-hydroxyglycine alpha-amidating lyase", "peptidylglycine alpha-hydroxylating monooxygenase"	170270				2357221	Standard	NM_000919		Approved	PAL, PHM	uc003knt.3	P19021	OTTHUMG00000128729	ENST00000438793.3:c.214G>A	5.37:g.102237063G>A	ENSP00000396493:p.Asp72Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMR0|A8K293|O43211|O95080|Q16252|Q16253|Q54A45|Q86U53|Q8WVC7|Q9UCG0	Missense_Mutation	SNP	ENST00000438793.3	37	CCDS54885.1	.	.	.	.	.	.	.	.	.	.	G	23.3	4.396904	0.83120	.	.	ENSG00000145730	ENST00000438793;ENST00000346918;ENST00000348126;ENST00000304400;ENST00000455264	T;T;T;T;T	0.41065	1.01;1.01;1.01;1.01;1.01	5.39	5.39	0.77823	Copper type II, ascorbate-dependent monooxygenase, N-terminal (2);PHM/PNGase F domain (1);	0.092891	0.64402	D	0.000001	T	0.69205	0.3085	M	0.86651	2.83	0.80722	D	1	D;D;P;D;D	0.76494	0.993;0.997;0.798;0.991;0.999	P;P;B;P;D	0.64237	0.824;0.826;0.236;0.73;0.923	T	0.74494	-0.3647	10	0.66056	D	0.02	.	19.5261	0.95208	0.0:0.0:1.0:0.0	.	72;72;72;72;72	P19021;P19021-4;P19021-3;P19021-5;P19021-2	AMD_HUMAN;.;.;.;.	N	72	ENSP00000396493:D72N;ENSP00000282992:D72N;ENSP00000314638:D72N;ENSP00000306100:D72N;ENSP00000403461:D72N	ENSP00000306100:D72N	D	+	1	0	PAM	102264962	1.000000	0.71417	1.000000	0.80357	0.742000	0.42306	6.709000	0.74665	2.668000	0.90789	0.650000	0.86243	GAT		0.353	PAM-004	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000250640.2	NM_000919		A	102237063	G	A	102237063	3	1	613	1	0	0	0	0	1	0	0	0	11419	1058	37	1	224	1	PAM	5	102237063	Missense_Mutation	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10	64929654	102237063	78678197	17	37363										
RNF14	9604	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	141357939	141357939	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	agcgtggtcctgtttgcctgGatgcaatttcttaaggaaga	12	7	1	1			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr5:141357939G>T	ENST00000394520.2	+	5	687	c.378G>T	c.(376-378)tgG>tgT	p.W126C	AC005740.5_ENST00000520882.1_RNA|RNF14_ENST00000540015.1_Intron|RNF14_ENST00000502341.1_3'UTR|RNF14_ENST00000394514.2_5'UTR|RNF14_ENST00000394519.1_Missense_Mutation_p.W126C|RNF14_ENST00000347642.3_Missense_Mutation_p.W126C|RNF14_ENST00000394515.3_Intron|RNF14_ENST00000356143.1_Missense_Mutation_p.W126C	NM_001201365.1|NM_004290.4	NP_001188294.1|NP_004281.1	Q9UBS8	RNF14_HUMAN	ring finger protein 14	126	RWD. {ECO:0000255|PROSITE- ProRule:PRU00179}.				androgen receptor signaling pathway (GO:0030521)|positive regulation of transcription, DNA-templated (GO:0045893)|protein ubiquitination (GO:0016567)|regulation of androgen receptor signaling pathway (GO:0060765)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|response to estradiol (GO:0032355)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|small conjugating protein ligase activity (GO:0019787)|transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)			cervix(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	15		all_hematologic(541;0.0536)|Ovarian(839;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.0407)		TGTTTGCCTGGATGCAATTTC	0.448																																																0													126	113	117					5																	141357939		2203	4300	6503	SO:0001583	missense	9604			AF060544	CCDS4270.1, CCDS4271.1	5q23.3-q31.1	2008-02-05			ENSG00000013561	ENSG00000013561		"RING-type (C3HC4) zinc fingers"	10058	protein-coding gene	gene with protein product		605675				10085091, 10320776	Standard	NM_183399		Approved	ARA54, HFB30, TRIAD2	uc003lmc.3	Q9UBS8	OTTHUMG00000129660	ENST00000394520.2:c.378G>T	5.37:g.141357939G>T	ENSP00000378028:p.Trp126Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV26|A6NMR2|A8MTW5|B3KN72|B7ZLV2|D3DQE4|O94793|Q6IBV0	Missense_Mutation	SNP	ENST00000394520.2	37	CCDS4270.1	.	.	.	.	.	.	.	.	.	.	G	23.5	4.419220	0.83559	.	.	ENSG00000013561	ENST00000511961;ENST00000506822;ENST00000356143;ENST00000394520;ENST00000347642;ENST00000506938;ENST00000507163;ENST00000394519	T;T;T;T;T;T;T;T	0.44482	0.92;0.92;0.92;0.92;0.92;0.92;0.92;0.92	5.67	5.67	0.87782	Ubiquitin-conjugating enzyme/RWD-like (2);RWD domain (3);	0.000000	0.85682	D	0.000000	T	0.72645	0.3486	M	0.90922	3.16	0.80722	D	1	D	0.59767	0.986	D	0.72338	0.977	T	0.74490	-0.3648	10	0.37606	T	0.19	.	19.8351	0.96655	0.0:0.0:1.0:0.0	.	126	Q9UBS8	RNF14_HUMAN	C	126	ENSP00000423420:W126C;ENSP00000423273:W126C;ENSP00000348462:W126C;ENSP00000378028:W126C;ENSP00000324956:W126C;ENSP00000420837:W126C;ENSP00000422527:W126C;ENSP00000378027:W126C	ENSP00000324956:W126C	W	+	3	0	RNF14	141338123	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.513000	0.98010	2.702000	0.92279	0.558000	0.71614	TGG		0.448	RNF14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251860.2	NM_004290		T	141357939	G	T	141357939	3	4	613	1	0	0	0	0	1	0	0	0	13456	1183	41	4	388	4	RNF14	5	141357939	Missense_Mutation	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10	39120876	141357939	39557321	18	37364										
GEMIN5	25929	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	154278113	154278113	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	agacaactcatcctctcctaCgatggcagccaactctgcag	7	15	3	1	rs144363013	byFrequency	TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr5:154278113C>T	ENST00000285873.7	-	23	3307	c.3232G>A	c.(3232-3234)Gta>Ata	p.V1078I		NM_001252156.1|NM_015465.4	NP_001239085.1|NP_056280.2	Q8TEQ6	GEMI5_HUMAN	gem (nuclear organelle) associated protein 5	1078					gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|ncRNA metabolic process (GO:0034660)|protein complex assembly (GO:0006461)|RNA metabolic process (GO:0016070)|spliceosomal snRNP assembly (GO:0000387)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SMN complex (GO:0032797)|SMN-Sm protein complex (GO:0034719)	poly(A) RNA binding (GO:0044822)|snRNA binding (GO:0017069)			breast(1)|central_nervous_system(2)|endometrium(5)|kidney(3)|large_intestine(10)|lung(10)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	38	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TCCTCTCCTACGATGGCAGCC	0.552													C|||	2	0.000399361	0.0008	0.0	5008	,	,		18001	0.0		0.001	False		,,,				2504	0.0															0								C	ILE/VAL	3,4403	6.2+/-15.9	0,3,2200	95	86	89		3232	2.2	0	5	dbSNP_134	89	6,8594	5.0+/-18.6	0,6,4294	yes	missense	GEMIN5	NM_015465.3	29	0,9,6494	TT,TC,CC		0.0698,0.0681,0.0692	benign	1078/1509	154278113	9,12997	2203	4300	6503	SO:0001583	missense	25929			AK022748	CCDS4330.1	5q34	2013-01-10			ENSG00000082516	ENSG00000082516		"WD repeat domain containing"	20043	protein-coding gene	gene with protein product		607005				11714716	Standard	NM_015465		Approved		uc003lvx.3	Q8TEQ6	OTTHUMG00000130189	ENST00000285873.7:c.3232G>A	5.37:g.154278113C>T	ENSP00000285873:p.Val1078Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q14CV0|Q8WWV4|Q969W4|Q9H9K3|Q9UFI5	Missense_Mutation	SNP	ENST00000285873.7	37	CCDS4330.1	.	.	.	.	.	.	.	.	.	.	C	7.692	0.691317	0.15039	6.81E-4	6.98E-4	ENSG00000082516	ENST00000285873	T	0.69806	-0.43	5.91	2.19	0.27852	.	0.811288	0.11495	N	0.558347	T	0.47097	0.1427	L	0.36672	1.1	0.09310	N	1	P;P	0.36768	0.569;0.569	B;B	0.22152	0.038;0.038	T	0.13098	-1.0522	10	0.20519	T	0.43	-0.487	8.1531	0.31152	0.1114:0.6337:0.0:0.2549	.	1077;1078	B7ZLC9;Q8TEQ6	.;GEMI5_HUMAN	I	1078	ENSP00000285873:V1078I	ENSP00000285873:V1078I	V	-	1	0	GEMIN5	154258306	0.247000	0.23920	0.000000	0.03702	0.428000	0.31595	0.291000	0.18994	0.135000	0.18707	-0.797000	0.03246	GTA		0.552	GEMIN5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252507.1			T	154278113	C	T	154278113	3	4	613	1	0	0	0	0	1	0	0	0	6338	536	19	1	1318	1	GEMIN5	5	154278113	Missense_Mutation	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10	12920174	154278113	26637147	19	37365										
TULP1	7287	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	35471606	35471606	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	gttgtcaaagaccgtgaagcGgttccccaggaggttggacc	14	10	1	2			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr6:35471606G>C	ENST00000229771.6	-	12	1211	c.1132C>G	c.(1132-1134)Cgc>Ggc	p.R378G	TULP1_ENST00000322263.4_Missense_Mutation_p.R325G	NM_003322.3	NP_003313.3	O00294	TULP1_HUMAN	tubby like protein 1	378			R -> H (in RP14).		dendrite development (GO:0016358)|detection of light stimulus involved in visual perception (GO:0050908)|eye photoreceptor cell development (GO:0042462)|phagocytosis (GO:0006909)|photoreceptor cell maintenance (GO:0045494)|phototransduction (GO:0007602)|positive regulation of phagocytosis (GO:0050766)|retina development in camera-type eye (GO:0060041)|retina homeostasis (GO:0001895)|visual perception (GO:0007601)	cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|photoreceptor inner segment (GO:0001917)|photoreceptor outer segment (GO:0001750)|plasma membrane (GO:0005886)|synapse (GO:0045202)	actin filament binding (GO:0051015)|G-protein coupled photoreceptor activity (GO:0008020)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)			central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(5)|ovary(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	19						ACCGTGAAGCGGTTCCCCAGG	0.607																																					GBM(55;1027 1091 11115 23439)											0													44	39	41					6																	35471606		2203	4300	6503	SO:0001583	missense	7287			U82468	CCDS4807.1, CCDS75436.1	6p21.3	2014-01-28			ENSG00000112041	ENSG00000112041			12423	protein-coding gene	gene with protein product		602280		RP14		9096357, 9521870	Standard	NM_003322		Approved	TUBL1, LCA15	uc003okv.4	O00294	OTTHUMG00000014575	ENST00000229771.6:c.1132C>G	6.37:g.35471606G>C	ENSP00000229771:p.Arg378Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O43536|Q5TGM5|Q8N571	Missense_Mutation	SNP	ENST00000229771.6	37	CCDS4807.1	.	.	.	.	.	.	.	.	.	.	G	17.47	3.398726	0.62177	.	.	ENSG00000112041	ENST00000229771;ENST00000322263	D;D	0.85861	-2.04;-2.04	4.95	4.08	0.47627	Tubby, C-terminal (4);	0.060704	0.64402	D	0.000009	D	0.82976	0.5154	L	0.60455	1.87	0.33292	D	0.563614	D;P	0.56035	0.974;0.913	P;P	0.58577	0.841;0.584	D	0.83863	0.0269	10	0.87932	D	0	-13.8748	7.85	0.29448	0.0803:0.0:0.6548:0.2649	.	325;378	O00294-2;O00294	.;TULP1_HUMAN	G	378;325	ENSP00000229771:R378G;ENSP00000319414:R325G	ENSP00000229771:R378G	R	-	1	0	TULP1	35579584	1.000000	0.71417	1.000000	0.80357	0.925000	0.55904	5.638000	0.67861	1.075000	0.40932	0.491000	0.48974	CGC		0.607	TULP1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040307.2			C	35471606	G	C	35471606	3	2	613	1	0	0	0	0	1	0	0	0	16785	1116	39	4	512	4	TULP1	6	35471606	Missense_Mutation	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10		35471606	135643461	20	37366										
COL12A1	1303	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	75884802	75884802	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	ggcgtctccagccccagacgCatacaaggctgtcacagata	10	14	2	2	rs373259425		TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr6:75884802C>T	ENST00000322507.8	-	13	2971	c.2662G>A	c.(2662-2664)Gcg>Acg	p.A888T	COL12A1_ENST00000416123.2_Missense_Mutation_p.A888T|COL12A1_ENST00000345356.6_Intron|COL12A1_ENST00000483888.2_Missense_Mutation_p.A888T	NM_004370.5	NP_004361.3	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1	888	Fibronectin type-III 5. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|skeletal system development (GO:0001501)	collagen type XII trimer (GO:0005595)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|vesicle (GO:0031982)	extracellular matrix structural constituent conferring tensile strength (GO:0030020)			breast(7)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(5)|kidney(5)|large_intestine(44)|liver(1)|lung(77)|ovary(7)|prostate(3)|skin(4)|stomach(2)|upper_aerodigestive_tract(4)|urinary_tract(2)	169						GCCCCAGACGCATACAAGGCT	0.478																																																0													209	208	208					6																	75884802		1993	4171	6164	SO:0001583	missense	1303			U73779	CCDS43481.1, CCDS43482.1	6q12-q13	2013-02-11	2003-07-24		ENSG00000111799	ENSG00000111799		"Proteoglycans / Extracellular Matrix : Collagen proteoglycans", "Collagens", "Fibronectin type III domain containing"	2188	protein-coding gene	gene with protein product	"collagen type XII proteoglycan"	120320	"collagen, type XII, alpha 1-like"	COL12A1L		9143499	Standard	XM_006715334		Approved		uc003phs.3	Q99715	OTTHUMG00000015051	ENST00000322507.8:c.2662G>A	6.37:g.75884802C>T	ENSP00000325146:p.Ala888Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O43853|Q15955|Q5VYK1|Q5VYK2|Q71UR3|Q99716	Missense_Mutation	SNP	ENST00000322507.8	37	CCDS43482.1	.	.	.	.	.	.	.	.	.	.	C	10.79	1.450680	0.26074	.	.	ENSG00000111799	ENST00000322507;ENST00000432784;ENST00000416123;ENST00000483888	T;T;T	0.56941	0.43;0.43;0.43	5.94	5.06	0.68205	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.273480	0.31847	N	0.006967	T	0.22322	0.0538	L	0.37630	1.12	0.32335	N	0.560601	B	0.22080	0.064	B	0.23275	0.045	T	0.09250	-1.0683	10	0.23891	T	0.37	.	9.8609	0.41114	0.1406:0.7907:0.0:0.0688	.	888	Q99715	COCA1_HUMAN	T	888	ENSP00000325146:A888T;ENSP00000412864:A888T;ENSP00000421216:A888T	ENSP00000325146:A888T	A	-	1	0	COL12A1	75941522	1.000000	0.71417	0.997000	0.53966	0.907000	0.53573	1.159000	0.31749	1.499000	0.48617	-0.319000	0.08680	GCG		0.478	COL12A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041249.3	NM_004370		T	75884802	C	T	75884802	3	4	613	1	0	0	0	0	1	0	0	0	3671	710	25	2	6745	2	COL12A1	6	75884802	Missense_Mutation	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10	40413196	75884802	95230265	21	37367										
CNKSR3	154043	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	154732110	154732110	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	catttttgtgggcagaatgtTggtttccaccgagtacccag	11	9	0	1			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr6:154732110T>C	ENST00000607772.1	-	11	1781	c.1237A>G	c.(1237-1239)Aac>Gac	p.N413D	CNKSR3_ENST00000479339.1_Missense_Mutation_p.N333D|CNKSR3_ENST00000433165.2_Missense_Mutation_p.N238D	NM_173515.2	NP_775786.2	Q6P9H4	CNKR3_HUMAN	CNKSR family member 3	413	DUF1170.				negative regulation of ERK1 and ERK2 cascade (GO:0070373)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|positive regulation of sodium ion transport (GO:0010765)	cytoplasm (GO:0005737)|membrane (GO:0016020)				breast(2)|central_nervous_system(1)|kidney(1)|large_intestine(3)|lung(3)|ovary(2)|skin(1)|stomach(1)|urinary_tract(1)	15		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;5.03e-11)|BRCA - Breast invasive adenocarcinoma(81;0.00627)		GGCAGAATGTTGGTTTCCACC	0.502																																																0													186	176	179					6																	154732110		2203	4300	6503	SO:0001583	missense	154043			AK055911	CCDS5246.1	6q25.2	2013-01-10	2005-04-11	2005-04-11	ENSG00000153721	ENSG00000153721		"Sterile alpha motif (SAM) domain containing"	23034	protein-coding gene	gene with protein product			"membrane associated guanylate kinase interacting protein-like 1"	MAGI1			Standard	NM_173515		Approved	FLJ31349		Q6P9H4	OTTHUMG00000015873	ENST00000607772.1:c.1237A>G	6.37:g.154732110T>C	ENSP00000475915:p.Asn413Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SGD5|Q96N65	Missense_Mutation	SNP	ENST00000607772.1	37	CCDS5246.1	.	.	.	.	.	.	.	.	.	.	T	14.04	2.416814	0.42918	.	.	ENSG00000153721	ENST00000367209;ENST00000367213;ENST00000433165;ENST00000479339;ENST00000424998	T;T;T	0.46063	1.48;0.88;0.89	5.82	5.82	0.92795	Connector enhancer of kinase suppressor of ras 2 (1);	0.275495	0.38326	N	0.001731	T	0.26846	0.0657	L	0.59436	1.845	0.20764	N	0.999854	B	0.27625	0.183	B	0.31495	0.131	T	0.17349	-1.0372	10	0.59425	D	0.04	.	12.6716	0.56870	0.0:0.0:0.1375:0.8625	.	413	Q6P9H4	CNKR3_HUMAN	D	188;413;238;333;175	ENSP00000356182:N413D;ENSP00000414185:N238D;ENSP00000418975:N333D	ENSP00000356178:N188D	N	-	1	0	CNKSR3	154773802	0.999000	0.42202	0.966000	0.40874	0.822000	0.46500	3.065000	0.49994	2.222000	0.72286	0.533000	0.62120	AAC		0.502	CNKSR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042792.2	NM_173515		C	154732110	T	C	154732110	3	2	613	1	0	0	0	0	1	0	0	0	3610	1812	63	3	442	3	CNKSR3	6	154732110	Missense_Mutation	SNP	T	TCGA-IA-A40U-01A-11D-A25F-10	78847308	154732110	16382957	22	37368										
MET	4233	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	116397543	116397543	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	agcatttcaatatgtccataAttatttcaaatggccacggg	7	8	2	0			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr7:116397543A>C	ENST00000318493.6	+	7	2102	c.1915A>C	c.(1915-1917)Att>Ctt	p.I639L	MET_ENST00000436117.2_Missense_Mutation_p.I639L|MET_ENST00000397752.3_Missense_Mutation_p.I639L			Q9NWH9	SLTM_HUMAN	MET proto-oncogene, receptor tyrosine kinase	0	Arg/Glu-rich.				apoptotic process (GO:0006915)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(10)|breast(4)|central_nervous_system(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|kidney(25)|large_intestine(8)|liver(3)|lung(70)|ovary(10)|pleura(2)|prostate(4)|skin(5)|stomach(6)|testis(1)|thyroid(4)|upper_aerodigestive_tract(64)|urinary_tract(3)	233	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			TATGTCCATAATTATTTCAAA	0.323			Mis		"papillary renal, head-neck squamous cell "	papillary renal			Hereditary Papillary Renal Carcinoma (type 1)																														Dom	yes	Familial Papillary Renal Cancer	7	7q31	4233	met proto-oncogene (hepatocyte growth factor receptor)		E	0													88	86	86					7																	116397543		1844	4100	5944	SO:0001583	missense	4233	Familial Cancer Database	HPRC, Hereditary Papillary Renal Cell Cancer	M35073	CCDS43636.1, CCDS47689.1	7q31	2014-09-17	2014-06-26		ENSG00000105976	ENSG00000105976	2.7.10.1		7029	protein-coding gene	gene with protein product	"hepatocyte growth factor receptor"	164860	"met proto-oncogene"			1846706, 1611909	Standard	NM_001127500		Approved	HGFR, RCCP2	uc010lkh.3	P08581	OTTHUMG00000023299	ENST00000318493.6:c.1915A>C	7.37:g.116397543A>C	ENSP00000317272:p.Ile639Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5V8|B2RTX3|Q2VPK7|Q52MB3|Q658J7|Q6ZNF2|Q86TK6|Q9H7C3|Q9H8U9	Missense_Mutation	SNP	ENST00000318493.6	37	CCDS47689.1	.	.	.	.	.	.	.	.	.	.	A	12.37	1.917098	0.33815	.	.	ENSG00000105976	ENST00000397752;ENST00000318493;ENST00000436117	T;T;T	0.58652	0.32;0.32;0.32	5.4	-0.479	0.12089	Cell surface receptor IPT/TIG (2);Immunoglobulin E-set (1);Immunoglobulin-like fold (1);	0.634640	0.17750	N	0.163272	T	0.36991	0.0987	L	0.33485	1.01	0.58432	D	0.999999	B;B;B;B;B;B;B;B	0.06786	0.0;0.0;0.001;0.0;0.001;0.0;0.0;0.0	B;B;B;B;B;B;B;B	0.10450	0.001;0.002;0.004;0.005;0.004;0.004;0.001;0.004	T	0.07731	-1.0757	10	0.33141	T	0.24	.	2.8283	0.05491	0.6225:0.12:0.1419:0.1157	.	639;639;639;639;611;639;639;639	B5A929;E7EQ94;B5A930;B5A934;B5A936;B5A937;P08581-2;P08581	.;.;.;.;.;.;.;MET_HUMAN	L	639	ENSP00000380860:I639L;ENSP00000317272:I639L;ENSP00000410980:I639L	ENSP00000317272:I639L	I	+	1	0	MET	116184779	0.099000	0.21834	0.845000	0.33349	0.858000	0.48976	0.480000	0.22244	0.057000	0.16193	-0.334000	0.08254	ATT		0.323	MET-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059620.3			C	116397543	A	C	116397543	3	2	613	1	0	0	0	0	1	0	0	0	9492	101	4	5	1937	5	MET	7	116397543	Missense_Mutation	SNP	A	TCGA-IA-A40U-01A-11D-A25F-10		116397543	42741120	23	37369										
COPG2	26958	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	130337745	130337745	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	tcacatcctcagagatggtaGccatttctttgatggtaagg	10	8	3	2			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr7:130337745G>C	ENST00000445977.2	-	5	376	c.287C>G	c.(286-288)gCt>gGt	p.A96G				Q9UBF2	COPG2_HUMAN	coatomer protein complex, subunit gamma 2	96					intra-Golgi vesicle-mediated transport (GO:0006891)|intracellular protein transport (GO:0006886)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)	COPI vesicle coat (GO:0030126)	structural molecule activity (GO:0005198)			large_intestine(1)	1	Melanoma(18;0.0435)					AGAGATGGTAGCCATTTCTTT	0.318																																																0													85	79	81					7																	130337745		1852	4093	5945	SO:0001583	missense	26958			AF157833	CCDS75662.1	7q32	2010-06-22			ENSG00000158623	ENSG00000158623			2237	protein-coding gene	gene with protein product	"coat protein, nonclathrin, gamma-2-cop"	604355				10556286, 10995575	Standard	NM_001290033		Approved	2-COP	uc003vqh.1	Q9UBF2	OTTHUMG00000155364	ENST00000445977.2:c.287C>G	7.37:g.130337745G>C	ENSP00000393912:p.Ala96Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NH74|Q2NLA0|Q54AC3|Q8WVW8	Missense_Mutation	SNP	ENST00000445977.2	37		.	.	.	.	.	.	.	.	.	.	G	28.6	4.934045	0.92458	.	.	ENSG00000158623	ENST00000445977;ENST00000330992	T;T	0.15487	2.42;2.42	5.11	5.11	0.69529	Clathrin/coatomer adaptor, adaptin-like, N-terminal (1);Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	U	0.000000	T	0.39627	0.1085	M	0.78049	2.395	0.80722	D	1	P	0.45902	0.868	P	0.56216	0.794	T	0.24621	-1.0155	10	0.72032	D	0.01	.	16.3759	0.83392	0.0:0.0:1.0:0.0	.	96	Q9UBF2	COPG2_HUMAN	G	96	ENSP00000393912:A96G;ENSP00000331218:A96G	ENSP00000331218:A96G	A	-	2	0	COPG2	129988285	1.000000	0.71417	0.999000	0.59377	0.998000	0.95712	8.255000	0.89846	2.517000	0.84864	0.585000	0.79938	GCT		0.318	COPG2-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_012133		C	130337745	G	C	130337745	3	2	613	1	0	0	0	0	1	0	0	0	3734	971	34	4	955	4	COPG2	7	130337745	Missense_Mutation	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10	13940202	130337745	28800918	24	37370										
MFHAS1	9258	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	8643536	8643536	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	tccacagccacaaacgtcacTggtttctgtgcttttcacca	6	14	3	0			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr8:8643536T>C	ENST00000276282.6	-	3	3741	c.3155A>G	c.(3154-3156)cAg>cGg	p.Q1052R	MFHAS1_ENST00000520091.1_5'UTR	NM_004225.2	NP_004216.2	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified sequence 1	1052										endometrium(1)|kidney(3)|large_intestine(7)|lung(6)|ovary(1)|prostate(2)|stomach(1)	21		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)		CAAACGTCACTGGTTTCTGTG	0.473																																					Melanoma(103;1201 2045 17515 28966)											0													192	159	170					8																	8643536		2203	4300	6503	SO:0001583	missense	9258			AB016816	CCDS34844.1	8p23.1	2014-03-07			ENSG00000147324	ENSG00000147324			16982	protein-coding gene	gene with protein product	"leucine rich repeat containing 65", "malignant fibrous histiocytoma-amplified sequences with leucine-rich tandem repeats 1"	605352				9973190	Standard	NM_004225		Approved	MASL1, LRRC65	uc003wsj.1	Q9Y4C4	OTTHUMG00000163676	ENST00000276282.6:c.3155A>G	8.37:g.8643536T>C	ENSP00000276282:p.Gln1052Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q96CI0	Missense_Mutation	SNP	ENST00000276282.6	37	CCDS34844.1	.	.	.	.	.	.	.	.	.	.	T	18.70	3.679279	0.68042	.	.	ENSG00000147324	ENST00000276282	T	0.35236	1.32	5.61	5.61	0.85477	.	0.000000	0.42420	D	0.000702	T	0.36580	0.0972	N	0.08118	0	0.31388	N	0.678181	D	0.54601	0.967	P	0.62382	0.901	T	0.47749	-0.9093	10	0.87932	D	0	.	12.4865	0.55877	0.0:0.0:0.0:1.0	.	1052	Q9Y4C4	MFHA1_HUMAN	R	1052	ENSP00000276282:Q1052R	ENSP00000276282:Q1052R	Q	-	2	0	MFHAS1	8680946	1.000000	0.71417	1.000000	0.80357	0.928000	0.56348	2.564000	0.45931	2.266000	0.75297	0.533000	0.62120	CAG		0.473	MFHAS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374724.2	NM_004225		C	8643536	T	C	8643536	3	2	613	1	0	0	0	0	1	0	0	0	9528	1580	55	3	7	3	MFHAS1	8	8643536	Missense_Mutation	SNP	T	TCGA-IA-A40U-01A-11D-A25F-10		8643536	137720486	25	37371										
C9orf89	84270	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	95874554	95874555	+	Missense_Mutation	DNP	TG	TG	GT													0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	tgtgggactggccctgctccTgtactgctatccgccaggtg							TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr9:95874554_95874555TG>GT	ENST00000375464.2	+	5	547_548	c.419_420TG>GT	c.(418-420)cTG>cGT	p.L140R	C9orf89_ENST00000488630.1_3'UTR	NM_032310.3	NP_115686.3	Q96LW7	BINCA_HUMAN	chromosome 9 open reading frame 89	145					negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	CARD domain binding (GO:0050700)			endometrium(1)|kidney(1)|lung(3)|ovary(1)|skin(1)	7						GCCCTGCTCCTGTACTGCTATC	0.668																																																0																																										SO:0001583	missense	84270			AK057716	CCDS6702.2	9q22.32	2012-03-16			ENSG00000165233	ENSG00000165233			28148	protein-coding gene	gene with protein product	"Bcl10-interacting protein with CARD"					12477932	Standard	XM_005252273		Approved	MGC11115, bA370F5.1, BinCARD	uc004atd.3	Q96LW7	OTTHUMG00000020243	Exception_encountered	9.37:g.95874554_95874555delinsGT	ENSP00000364613:p.Leu140Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BJH8|Q9BSY2	Missense_Mutation	DNP	ENST00000375464.2	37	CCDS6702.2																																																																																				0.668	C9orf89-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053128.1	NM_032310		GT	95874555	TG	GT	95874554	3	3	613	1	0	0	0	0	1	0	0	0	2505	1580	55	5	437	5	C9orf89	9	95874554	Missense_Mutation	DNP	TG	TCGA-IA-A40U-01A-11D-A25F-10		95874554	45338877	26	37372										
CCDC3	83643	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	13043327	13043327	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	gccccacgcctggtcgcacaGcatctcgacctcggccgagt	11	18	1	0			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr10:13043327G>T	ENST00000378825.3	-	1	370	c.244C>A	c.(244-246)Ctg>Atg	p.L82M	CCDC3_ENST00000378839.1_Intron	NM_031455.3	NP_113643.1	Q9BQI4	CCDC3_HUMAN	coiled-coil domain containing 3	82						endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)				central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|lung(2)|ovary(1)|prostate(2)	11		Ovarian(717;0.0822)	BRCA - Breast invasive adenocarcinoma(52;0.163)			TGGTCGCACAGCATCTCGACC	0.706																																																0													14	16	15					10																	13043327		2194	4293	6487	SO:0001583	missense	83643			BC051334	CCDS7093.1, CCDS60484.1	10p14	2004-02-13			ENSG00000151468	ENSG00000151468			23813	protein-coding gene	gene with protein product							Standard	NM_031455		Approved	DKFZp761F241	uc001ilq.1	Q9BQI4	OTTHUMG00000017689	ENST00000378825.3:c.244C>A	10.37:g.13043327G>T	ENSP00000368102:p.Leu82Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VYV8|Q5VYV9	Missense_Mutation	SNP	ENST00000378825.3	37	CCDS7093.1	.	.	.	.	.	.	.	.	.	.	G	20.7	4.029083	0.75504	.	.	ENSG00000151468	ENST00000378825	.	.	.	4.55	3.65	0.41850	.	0.000000	0.64402	D	0.000001	T	0.75788	0.3897	M	0.74258	2.255	0.50813	D	0.999899	D	0.76494	0.999	D	0.71656	0.974	T	0.76623	-0.2891	9	0.54805	T	0.06	-8.5593	11.5639	0.50794	0.0889:0.0:0.9111:0.0	.	82	Q9BQI4	CCDC3_HUMAN	M	82	.	ENSP00000368102:L82M	L	-	1	2	CCDC3	13083333	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	6.135000	0.71696	0.905000	0.36596	-0.224000	0.12420	CTG		0.706	CCDC3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046829.1	NM_031455		T	13043327	G	T	13043327	3	4	613	1	0	0	0	0	1	0	0	0	2806	962	34	4	580	4	CCDC3	10	13043327	Missense_Mutation	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10		13043327	122491420	27	37373										
C10orf72	196740	hgsc.bcm.edu;bcgsc.ca	37	chr10	50311832	50311835	+	Intron	DEL	GGGC	GGGC	-													0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	atggttaagtctgcggtgaaGggcaaagagtgaggtagtat							TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	GGGC	GGGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr10:50311832_50311835delGGGC	ENST00000332853.4	-	2	481				VSTM4_ENST00000298454.3_Frame_Shift_Del_p.LP176fs	NM_001031746.3	NP_001026916.2	Q8IW00	VSTM4_HUMAN	V-set and transmembrane domain containing 4							integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(1)|endometrium(3)|kidney(1)|large_intestine(9)|liver(1)|lung(14)|skin(2)	31						CTGCGGTGAAGGGCAAAGAGTGAG	0.49																																																0																																										SO:0001627	intron_variant	196740			BC041414	CCDS7228.1, CCDS31198.1	10q11.23	2013-01-11	2011-07-01	2011-07-01	ENSG00000165633	ENSG00000165633		"Immunoglobulin superfamily / V-set domain containing"	26470	protein-coding gene	gene with protein product			"chromosome 10 open reading frame 72"	C10orf72			Standard	XR_246075		Approved	FLJ31737	uc001jhf.2	Q8IW00	OTTHUMG00000018184	ENST00000332853.4:c.457+3803GCCC>-	10.37:g.50311832_50311835delGGGC		Somatic		WXS	Illumina HiSeq	Phase_I	B4DNI6|Q96MX7	Frame_Shift_Del	DEL	ENST00000332853.4	37	CCDS31198.1																																																																																				0.49	VSTM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047966.2	NM_144984		-	50311835	GGGC	-	50311832	6	5	613	0	1	1	0	1	0	0	0	0	1617	987	35	0		0	C10orf72	10	50311832	Intron	DEL	GGGC	TCGA-IA-A40U-01A-11D-A25F-10	37268505	50311832	85222915	28	37374										
C10orf76	79591	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	103789497	103789497	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	actcctcgaatgagtgcgcaCagggtctgcagaaatgagag	13	9	1	3			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr10:103789497C>T	ENST00000370033.4	-	5	431	c.312G>A	c.(310-312)ctG>ctA	p.L104L	C10orf76_ENST00000311122.5_Silent_p.L104L	NM_024541.2	NP_078817.2	Q5T2E6	CJ076_HUMAN	chromosome 10 open reading frame 76	104						integral component of membrane (GO:0016021)				autonomic_ganglia(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(7)|prostate(2)|upper_aerodigestive_tract(2)	24		Colorectal(252;0.123)		Epithelial(162;2.41e-08)|all cancers(201;6.41e-07)		TGAGTGCGCACAGGGTCTGCA	0.473																																																0													112	104	107					10																	103789497		1928	4137	6065	SO:0001819	synonymous_variant	79591			AK023176	CCDS41563.1	10q24.32	2008-10-21			ENSG00000120029	ENSG00000120029			25788	protein-coding gene	gene with protein product						14702039	Standard	NM_024541		Approved	FLJ13114	uc009xwy.1	Q5T2E6	OTTHUMG00000018943	ENST00000370033.4:c.312G>A	10.37:g.103789497C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2TB87|Q9H8Z9	Silent	SNP	ENST00000370033.4	37	CCDS41563.1																																																																																				0.473	C10orf76-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050007.1	NM_024541		T	103789497	C	T	103789497	2	4	613	1	0	0	0	0	0	0	0	1	1618	465	17	2		2	C10orf76	10	103789497	Silent	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10	53477665	103789497	31745250	29	37375										
PSD	5662	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	104173630	104173630	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	ctggcctctgcctcctcctcCtcccctctctgtgtccaagg	7	20	2	0			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr10:104173630C>A	ENST00000020673.5	-	5	1975	c.1449G>T	c.(1447-1449)gaG>gaT	p.E483D	PSD_ENST00000406432.1_Missense_Mutation_p.E483D|PSD_ENST00000492902.2_5'Flank	NM_001270966.1|NM_002779.4	NP_001257895.1|NP_002770.3	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	483	Poly-Glu.				neuron differentiation (GO:0030182)|positive regulation of GTPase activity (GO:0043547)|regulation of ARF protein signal transduction (GO:0032012)|signal transduction (GO:0007165)	cell junction (GO:0030054)|cell projection (GO:0042995)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|phospholipid binding (GO:0005543)|signal transducer activity (GO:0004871)			breast(4)|endometrium(2)|large_intestine(5)|liver(1)|lung(14)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	34				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		CCTCCTCCTCCTCCCCTCTCT	0.677																																																0													30	34	33					10																	104173630		2203	4300	6503	SO:0001583	missense	5662			X99688	CCDS31272.1, CCDS73187.1	10q24	2013-01-10	2004-04-28		ENSG00000059915	ENSG00000059915		"Pleckstrin homology (PH) domain containing"	9507	protein-coding gene	gene with protein product		602327	"pleckstrin and Sec7 domain protein"			9417912	Standard	NM_002779		Approved	KIAA2011, TYL, PSD1	uc009xxd.2	A5PKW4	OTTHUMG00000018954	ENST00000020673.5:c.1449G>T	10.37:g.104173630C>A	ENSP00000020673:p.Glu483Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B1AKX7|D3DR87|Q15673|Q8IVG0	Missense_Mutation	SNP	ENST00000020673.5	37	CCDS31272.1	.	.	.	.	.	.	.	.	.	.	C	13.92	2.379979	0.42207	.	.	ENSG00000059915	ENST00000020673;ENST00000541902;ENST00000406432	T;T	0.19806	2.12;2.12	4.65	0.0368	0.14193	.	0.480088	0.20167	N	0.097814	T	0.11067	0.0270	N	0.24115	0.695	0.20638	N	0.999877	B	0.16396	0.017	B	0.09377	0.004	T	0.35895	-0.9770	10	0.13853	T	0.58	.	9.4906	0.38958	0.0:0.5847:0.0:0.4153	.	483	A5PKW4	PSD1_HUMAN	D	483;386;483	ENSP00000020673:E483D;ENSP00000384830:E483D	ENSP00000020673:E483D	E	-	3	2	PSD	104163620	0.473000	0.25878	0.998000	0.56505	0.989000	0.77384	-0.538000	0.06120	0.064000	0.16427	0.456000	0.33151	GAG		0.677	PSD-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050041.2			A	104173630	C	A	104173630	3	1	613	1	0	0	0	0	1	0	0	0	12656	680	24	4	1677	4	PSD	10	104173630	Missense_Mutation	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10	384133	104173630	31361117	30	37376										
LRDD	79751	ucsc.edu	37	chr11	799396	799396	+	5'Flank	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	gcccatgcgtcggatgctgtCctggtacttgcggcggccga	15	13	0	0	rs370316550		TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr11:799396C>T	ENST00000531214.1	-	0	0				PIDD_ENST00000411829.2_Missense_Mutation_p.D865N|PIDD_ENST00000347755.5_Missense_Mutation_p.D882N	NM_001191060.1	NP_001177989.1	Q9H936	GHC1_HUMAN	solute carrier family 25 (mitochondrial carrier: glutamate), member 22						L-glutamate transport (GO:0015813)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	L-glutamate transmembrane transporter activity (GO:0005313)|symporter activity (GO:0015293)			endometrium(1)|kidney(1)|lung(2)|urinary_tract(1)	5		all_cancers(49;4.75e-06)|all_epithelial(84;0.00204)|Breast(177;0.00234)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;6.27e-26)|Epithelial(43;4.84e-25)|OV - Ovarian serous cystadenocarcinoma(40;2.72e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CGGATGCTGTCCTGGTACTTG	0.701																																					Colon(93;848 1468 3270 23355 49636)											0													59	62	61					11																	799396		2203	4294	6497	SO:0001631	upstream_gene_variant	55367			AJ428202	CCDS7715.1	11p15.5	2013-05-22			ENSG00000177542	ENSG00000177542		"Solute carriers"	19954	protein-coding gene	gene with protein product		609302				11897791	Standard	NM_024698		Approved	GC1, FLJ13044, NET44, EIEE3	uc001lrj.3	Q9H936	OTTHUMG00000133310		11.37:g.799396C>T	Exception_encountered	Somatic		WXS	Illumina HiSeq		A8K366|C9J1H6|E9PJD3|E9PKB2|E9PL68|E9PN26|E9PNQ3|E9PP01|E9PR97|Q8TBU8	Missense_Mutation	SNP	ENST00000531214.1	37	CCDS7715.1	.	.	.	.	.	.	.	.	.	.	C	15.36	2.809838	0.50421	.	.	ENSG00000177595	ENST00000411829;ENST00000347755	D;D	0.93076	-3.16;-3.16	5.04	5.04	0.67666	DEATH-like (1);	0.275088	0.34411	N	0.003990	D	0.87370	0.6160	N	0.24115	0.695	0.34027	D	0.653334	P;B;P	0.38504	0.561;0.302;0.634	B;B;B	0.33620	0.109;0.167;0.167	D	0.92063	0.5658	10	0.66056	D	0.02	.	14.0391	0.64663	0.0:0.8486:0.1514:0.0	.	882;725;865	Q9HB75;Q9HB75-3;Q9HB75-2	PIDD_HUMAN;.;.	N	865;882	ENSP00000416801:D865N;ENSP00000337797:D882N	ENSP00000337797:D882N	D	-	1	0	PIDD	789396	0.995000	0.38212	0.925000	0.36789	0.081000	0.17604	4.915000	0.63355	2.338000	0.79540	0.448000	0.29417	GAC		0.701	SLC25A22-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384124.1			T	799396	C	T	799396	1	4	613	0	1	0	0	0	0	0	0	0	8943	855	30	2		2	LRDD	11	799396	5'Flank	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10		799396	134207120	31	37377										
PSMA1	5682	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	14536021	14536021	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	aaatctggaatccaaacactCctgacgcataaaattactaa	4	10	1	1			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr11:14536021C>A	ENST00000396394.2	-	5	667	c.271G>T	c.(271-273)Gag>Tag	p.E91*	PSMA1_ENST00000418988.2_Nonsense_Mutation_p.E97*|PSMA1_ENST00000396393.1_Nonsense_Mutation_p.E91*|PSMA1_ENST00000530457.1_Nonsense_Mutation_p.E66*|PSMA1_ENST00000419365.2_Nonsense_Mutation_p.E91*|PSMA1_ENST00000555531.1_Nonsense_Mutation_p.E91*	NM_002786.3	NP_002777.1	P25786	PSA1_HUMAN	proteasome (prosome, macropain) subunit, alpha type, 1	91					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|cellular nitrogen compound metabolic process (GO:0034641)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|negative regulation of apoptotic process (GO:0043066)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|viral process (GO:0016032)	centrosome (GO:0005813)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|polysome (GO:0005844)|proteasome complex (GO:0000502)|proteasome core complex (GO:0005839)|proteasome core complex, alpha-subunit complex (GO:0019773)	RNA binding (GO:0003723)|threonine-type endopeptidase activity (GO:0004298)			large_intestine(1)|skin(1)|upper_aerodigestive_tract(1)	3						TCCAAACACTCCTGACGCATA	0.308																																																0													43	41	42					11																	14536021		2200	4294	6494	SO:0001587	stop_gained	5682			X61969	CCDS7816.1, CCDS31431.1	11p15.1	2005-10-10			ENSG00000129084	ENSG00000129084		"Proteasome (prosome, macropain) subunits"	9530	protein-coding gene	gene with protein product		602854				1398136, 2025653	Standard	NM_148976		Approved	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915	uc001mlk.3	P25786	OTTHUMG00000165825	ENST00000396394.2:c.271G>T	11.37:g.14536021C>A	ENSP00000379676:p.Glu91*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K400|Q53YE8|Q9BRV9	Nonsense_Mutation	SNP	ENST00000396394.2	37	CCDS7816.1	.	.	.	.	.	.	.	.	.	.	C	39	7.563044	0.98361	.	.	ENSG00000129084	ENST00000419365;ENST00000396394;ENST00000396393;ENST00000530457;ENST00000418988	.	.	.	5.57	5.57	0.84162	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.72032	D	0.01	-21.0217	19.5544	0.95335	0.0:1.0:0.0:0.0	.	.	.	.	X	91;91;91;66;97	.	ENSP00000379675:E91X	E	-	1	0	PSMA1	14492597	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.018000	0.76406	2.623000	0.88846	0.591000	0.81541	GAG		0.308	PSMA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386421.3	NM_002786		A	14536021	C	A	14536021	4	1	613	1	0	0	0	0	0	1	0	0	12676	864	30	4	594	4	PSMA1	11	14536021	Nonsense_Mutation	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10	13736625	14536021	120470495	32	37378										
INPPL1	3636	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	71944164	71944164	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	cacctaccgctatgagcgggGttcccgggacacatatgcct	11	14	0	1			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr11:71944164G>T	ENST00000298229.2	+	17	2201	c.1997G>T	c.(1996-1998)gGt>gTt	p.G666V	INPPL1_ENST00000541756.1_Missense_Mutation_p.G424V|INPPL1_ENST00000538751.1_Missense_Mutation_p.G424V	NM_001567.3	NP_001558.3	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	666					actin filament organization (GO:0007015)|cell adhesion (GO:0007155)|endochondral ossification (GO:0001958)|endocytosis (GO:0006897)|glucose metabolic process (GO:0006006)|immune system process (GO:0002376)|inositol phosphate metabolic process (GO:0043647)|negative regulation of cell proliferation (GO:0008285)|negative regulation of gene expression (GO:0010629)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phospholipid metabolic process (GO:0006644)|post-embryonic development (GO:0009791)|response to insulin (GO:0032868)|ruffle assembly (GO:0097178)|small molecule metabolic process (GO:0044281)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	hydrolase activity (GO:0016787)|SH2 domain binding (GO:0042169)			breast(2)|endometrium(9)|kidney(1)|large_intestine(7)|lung(12)|ovary(1)|pancreas(1)|prostate(3)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	44						TATGAGCGGGGTTCCCGGGAC	0.602																																																0													49	48	48					11																	71944164		2200	4293	6493	SO:0001583	missense	3636			Y14385	CCDS8213.1	11q23	2013-02-14			ENSG00000165458	ENSG00000165458		"Sterile alpha motif (SAM) domain containing", "SH2 domain containing"	6080	protein-coding gene	gene with protein product	"51C protein"	600829				8530088	Standard	NM_001567		Approved	SHIP2	uc001osf.3	O15357	OTTHUMG00000167879	ENST00000298229.2:c.1997G>T	11.37:g.71944164G>T	ENSP00000298229:p.Gly666Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTX5|Q13577|Q13578	Missense_Mutation	SNP	ENST00000298229.2	37	CCDS8213.1	.	.	.	.	.	.	.	.	.	.	g	18.33	3.599890	0.66332	.	.	ENSG00000165458	ENST00000298229;ENST00000541756;ENST00000538751	D;D;D	0.95656	-3.77;-3.77;-3.77	5.66	5.66	0.87406	Endonuclease/exonuclease/phosphatase (2);Inositol polyphosphate-related phosphatase (1);	0.230735	0.44688	D	0.000437	D	0.98457	0.9486	H	0.97051	3.93	0.80722	D	1	D	0.89917	1.0	D	0.74674	0.984	D	0.98338	1.0537	10	0.27082	T	0.32	.	17.588	0.87988	0.0:0.0:1.0:0.0	.	666	O15357	SHIP2_HUMAN	V	666;424;424	ENSP00000298229:G666V;ENSP00000446360:G424V;ENSP00000444619:G424V	ENSP00000298229:G666V	G	+	2	0	INPPL1	71621812	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.393000	0.97256	2.830000	0.97506	0.655000	0.94253	GGT		0.602	INPPL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396789.1	NM_001567		T	71944164	G	T	71944164	3	4	613	1	0	0	0	0	1	0	0	0	7768	1261	44	4	2063	4	INPPL1	11	71944164	Missense_Mutation	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10	57408143	71944164	63062352	33	37379										
MMP27	64066	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	102563689	102563689	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	ctttgtactggaaagcagcaTcaacacggatactgattcca	8	10	1	1			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr11:102563689T>G	ENST00000260229.4	-	9	1368	c.1277A>C	c.(1276-1278)gAt>gCt	p.D426A		NM_022122.2	NP_071405.2	Q9H306	MMP27_HUMAN	matrix metallopeptidase 27	426					collagen catabolic process (GO:0030574)	proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(4)|liver(2)|lung(12)|ovary(2)|prostate(2)|skin(11)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	45	all_cancers(8;0.000843)|all_epithelial(12;0.00362)|Lung NSC(15;0.21)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0509)|Lung(13;0.0696)|LUSC - Lung squamous cell carcinoma(19;0.13)|all cancers(10;0.176)	BRCA - Breast invasive adenocarcinoma(274;0.0151)	Marimastat(DB00786)	GAAAGCAGCATCAACACGGAT	0.413																																																0													215	201	206					11																	102563689		2203	4299	6502	SO:0001583	missense	64066			AF195192	CCDS8319.1	11q24	2008-07-18	2005-08-08		ENSG00000137675	ENSG00000137675			14250	protein-coding gene	gene with protein product	"matrix metalloprotease 27"		"matrix metalloproteinase 27"			10419448	Standard	NM_022122		Approved		uc001phd.1	Q9H306	OTTHUMG00000168099	ENST00000260229.4:c.1277A>C	11.37:g.102563689T>G	ENSP00000260229:p.Asp426Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UWK6	Missense_Mutation	SNP	ENST00000260229.4	37	CCDS8319.1	.	.	.	.	.	.	.	.	.	.	T	15.18	2.756835	0.49362	.	.	ENSG00000137675	ENST00000260229	T	0.20598	2.06	5.67	4.55	0.56014	Hemopexin/matrixin (2);	0.204141	0.33813	N	0.004526	T	0.50497	0.1619	M	0.90483	3.12	0.53688	D	0.999973	D	0.76494	0.999	D	0.67900	0.954	T	0.58578	-0.7612	10	0.72032	D	0.01	.	11.5591	0.50766	0.0:0.0698:0.0:0.9302	.	426	Q9H306	MMP27_HUMAN	A	426	ENSP00000260229:D426A	ENSP00000260229:D426A	D	-	2	0	MMP27	102068899	0.445000	0.25657	0.431000	0.26735	0.430000	0.31655	2.306000	0.43673	0.996000	0.38943	0.529000	0.55759	GAT		0.413	MMP27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398128.1	NM_022122		G	102563689	T	G	102563689	3	3	613	1	0	0	0	0	1	0	0	0	9671	1435	50	5	272	5	MMP27	11	102563689	Missense_Mutation	SNP	T	TCGA-IA-A40U-01A-11D-A25F-10	30619525	102563689	32442827	34	37380										
PAFAH1B2	5049	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	117038364	117038364	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	aaacccctgcatgaactgatCatgcagttgttggaggaaac	10	9	1	2	rs569223304		TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr11:117038364C>G	ENST00000527958.1	+	6	798	c.639C>G	c.(637-639)atC>atG	p.I213M	PAFAH1B2_ENST00000419197.2_Intron|PAFAH1B2_ENST00000529887.2_Intron|PAFAH1B2_ENST00000530272.1_Intron|PAFAH1B2_ENST00000526888.1_Intron	NM_002572.3	NP_002563.1	P68402	PA1B2_HUMAN	platelet-activating factor acetylhydrolase 1b, catalytic subunit 2 (30kDa)	213					brain development (GO:0007420)|lipid catabolic process (GO:0016042)|lipid metabolic process (GO:0006629)|positive regulation of macroautophagy (GO:0016239)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)	1-alkyl-2-acetylglycerophosphocholine esterase activity (GO:0003847)			kidney(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;1.68e-05)|Epithelial(105;0.000162)|all cancers(92;0.00111)		ATGAACTGATCATGCAGTTGT	0.488			T	IGH@	MLCLS																																		Dom	yes		11	11q23	5049	"platelet-activating factor acetylhydrolase, isoform Ib, beta subunit 30kDa"		L	0													82	68	73					11																	117038364		2201	4296	6497	SO:0001583	missense	5049			D63390	CCDS8380.1, CCDS53713.1, CCDS53714.1, CCDS53715.1	11q23	2011-10-24	2010-02-10			ENSG00000168092			8575	protein-coding gene	gene with protein product	"PAF-AH1b alpha 2 subunit"	602508	"platelet-activating factor acetylhydrolase, isoform Ib, beta subunit 30kDa", "platelet-activating factor acetylhydrolase, isoform Ib, subunit 2 (30kDa)"			9144386, 9693049	Standard	NM_002572		Approved		uc001pqe.2	P68402		ENST00000527958.1:c.639C>G	11.37:g.117038364C>G	ENSP00000435289:p.Ile213Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8DPS5|A8DPS6|A8DPS7|E9PEJ5|E9PLP3|O00687|Q29459|Q6IBR6	Missense_Mutation	SNP	ENST00000527958.1	37	CCDS8380.1	.	.	.	.	.	.	.	.	.	.	C	17.72	3.458076	0.63401	.	.	ENSG00000168092	ENST00000527958;ENST00000304808	T;T	0.56776	0.62;0.44	5.49	5.49	0.81192	Esterase, SGNH hydrolase-type (1);Esterase, SGNH hydrolase-type, subgroup (1);	0.053461	0.85682	D	0.000000	T	0.64360	0.2591	L	0.54323	1.7	0.80722	D	1	P	0.40931	0.733	P	0.51193	0.662	T	0.65685	-0.6108	10	0.72032	D	0.01	-9.1136	19.3671	0.94468	0.0:1.0:0.0:0.0	.	213	P68402	PA1B2_HUMAN	M	213;159	ENSP00000435289:I213M;ENSP00000304006:I159M	ENSP00000304006:I159M	I	+	3	3	PAFAH1B2	116543574	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	3.100000	0.50275	2.593000	0.87608	0.563000	0.77884	ATC		0.488	PAFAH1B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392826.1	NM_002572		G	117038364	C	G	117038364	3	3	613	1	0	0	0	0	1	0	0	0	11392	816	29	4	657	4	PAFAH1B2	11	117038364	Missense_Mutation	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10	14474675	117038364	17968152	35	37381										
RECQL	5965	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	21623145	21623145	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	atatcaggcatcatcgatttTtcttttcttagctcctgtat	5	9	4	0			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr12:21623145T>G	ENST00000444129.2	-	15	2401	c.1933A>C	c.(1933-1935)Aaa>Caa	p.K645Q	RECQL_ENST00000421138.2_Missense_Mutation_p.K645Q|PYROXD1_ENST00000538582.1_3'UTR|PYROXD1_ENST00000240651.9_3'UTR	NM_002907.3|NM_032941.2	NP_002898.2|NP_116559.1	P46063	RECQ1_HUMAN	RecQ helicase-like	645					DNA duplex unwinding (GO:0032508)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|DNA strand renaturation (GO:0000733)	membrane (GO:0016020)|nucleus (GO:0005634)	annealing helicase activity (GO:0036310)|ATP binding (GO:0005524)|ATP-dependent 3'-5' DNA helicase activity (GO:0043140)|ATP-dependent DNA helicase activity (GO:0004003)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)			endometrium(2)|kidney(1)|large_intestine(4)|lung(5)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	17						TCATCGATTTTTCTTTTCTTA	0.313								Other identified genes with known or suspected DNA repair function																																								0													79	81	80					12																	21623145		2202	4297	6499	SO:0001583	missense	5965			D37984	CCDS31756.1	12p12.1	2014-03-07	2014-03-07	2014-03-07	ENSG00000004700	ENSG00000004700			9948	protein-coding gene	gene with protein product	"DNA helicase Q1-like"	600537	"RecQ protein-like (DNA helicase Q1-like)"			7527136, 7961977	Standard	NM_002907		Approved	RecQ1, RecQL1	uc001rex.3	P46063	OTTHUMG00000169131	ENST00000444129.2:c.1933A>C	12.37:g.21623145T>G	ENSP00000416739:p.Lys645Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6G2	Missense_Mutation	SNP	ENST00000444129.2	37	CCDS31756.1	.	.	.	.	.	.	.	.	.	.	T	17.60	3.429403	0.62844	.	.	ENSG00000004700	ENST00000444129;ENST00000421138	T;T	0.57907	0.37;0.37	4.56	4.56	0.56223	.	0.597468	0.16648	N	0.205325	T	0.48926	0.1527	L	0.32530	0.975	0.33037	D	0.530956	P	0.52316	0.952	P	0.49140	0.601	T	0.62553	-0.6830	10	0.66056	D	0.02	-7.7317	10.4656	0.44604	0.0:0.0:0.0:1.0	.	645	P46063	RECQ1_HUMAN	Q	645	ENSP00000416739:K645Q;ENSP00000395449:K645Q	ENSP00000395449:K645Q	K	-	1	0	RECQL	21514412	1.000000	0.71417	0.988000	0.46212	0.886000	0.51366	3.310000	0.51911	2.036000	0.60181	0.528000	0.53228	AAA		0.313	RECQL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402371.1	NM_002907		G	21623145	T	G	21623145	3	3	613	1	0	0	0	0	1	0	0	0	13214	1850	64	5	20	5	RECQL	12	21623145	Missense_Mutation	SNP	T	TCGA-IA-A40U-01A-11D-A25F-10		21623145	112228750	36	37382										
HOXC10	3226	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	54382989	54382989	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	aaacaccacaggaaattggcTgacagcaaagagcggaagga	12	8	0	2			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr12:54382989T>C	ENST00000303460.4	+	2	862	c.788T>C	c.(787-789)cTg>cCg	p.L263P	MIR196A2_ENST00000385189.1_RNA|RP11-834C11.12_ENST00000513209.1_Intron|HOXC10_ENST00000511575.1_3'UTR	NM_017409.3	NP_059105.2	Q9NYD6	HXC10_HUMAN	homeobox C10	263					anterior/posterior pattern specification (GO:0009952)|embryonic limb morphogenesis (GO:0030326)|neuromuscular process (GO:0050905)|positive regulation of cell proliferation (GO:0008284)|proximal/distal pattern formation (GO:0009954)|regulation of transcription, DNA-templated (GO:0006355)|skeletal system development (GO:0001501)|spinal cord motor neuron cell fate specification (GO:0021520)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)			endometrium(2)|large_intestine(3)|lung(14)|pancreas(1)	20						GGAAATTGGCTGACAGCAAAG	0.428											OREG0021882	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													64	62	63					12																	54382989		2203	4300	6503	SO:0001583	missense	3226				CCDS8868.1	12q13.13	2011-06-20	2005-12-22		ENSG00000180818	ENSG00000180818		"Homeoboxes / ANTP class : HOXL subclass"	5122	protein-coding gene	gene with protein product		605560	"homeo box C10"	HOX3I		1358459	Standard	NM_017409		Approved		uc001sen.3	Q9NYD6	OTTHUMG00000160031	ENST00000303460.4:c.788T>C	12.37:g.54382989T>C	ENSP00000307321:p.Leu263Pro	Somatic	999	WXS	Illumina HiSeq	Phase_I	O15219|O15220|Q9BVD5	Missense_Mutation	SNP	ENST00000303460.4	37	CCDS8868.1	.	.	.	.	.	.	.	.	.	.	T	16.15	3.041980	0.55003	.	.	ENSG00000180818	ENST00000303460	D	0.95724	-3.79	3.97	3.97	0.46021	Homeodomain-related (1);Homeodomain-like (1);	0.000000	0.64402	D	0.000004	D	0.95233	0.8454	M	0.70842	2.15	0.80722	D	1	P	0.43607	0.812	P	0.46585	0.521	D	0.95488	0.8566	10	0.87932	D	0	.	12.5235	0.56073	0.0:0.0:0.0:1.0	.	263	Q9NYD6	HXC10_HUMAN	P	263	ENSP00000307321:L263P	ENSP00000307321:L263P	L	+	2	0	HOXC10	52669256	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.993000	0.88291	1.743000	0.51761	0.374000	0.22700	CTG		0.428	HOXC10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358952.2			C	54382989	T	C	54382989	3	2	613	1	0	0	0	0	1	0	0	0	7316	1580	55	3	794	3	HOXC10	12	54382989	Missense_Mutation	SNP	T	TCGA-IA-A40U-01A-11D-A25F-10	32759844	54382989	79468906	37	37383										
NCKAP1L	3071	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	54905823	54905823	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	gcagggctccctctacatcaCccttatccgtgaggatgtgc	10	14	2	1			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr12:54905823C>A	ENST00000293373.6	+	9	954	c.875C>A	c.(874-876)aCc>aAc	p.T292N	NCKAP1L_ENST00000552211.1_3'UTR|NCKAP1L_ENST00000545638.2_Missense_Mutation_p.T242N	NM_005337.4	NP_005328.2	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	292					actin polymerization-dependent cell motility (GO:0070358)|B cell homeostasis (GO:0001782)|B cell receptor signaling pathway (GO:0050853)|chemotaxis (GO:0006935)|cortical actin cytoskeleton organization (GO:0030866)|erythrocyte development (GO:0048821)|maintenance of cell polarity (GO:0030011)|myeloid cell homeostasis (GO:0002262)|negative regulation of apoptotic process (GO:0043066)|negative regulation of interleukin-17 production (GO:0032700)|negative regulation of interleukin-6 production (GO:0032715)|negative regulation of myosin-light-chain-phosphatase activity (GO:0035509)|neutrophil chemotaxis (GO:0030593)|positive regulation of actin filament polymerization (GO:0030838)|positive regulation of B cell differentiation (GO:0045579)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of CD4-positive, alpha-beta T cell differentiation (GO:0043372)|positive regulation of CD8-positive, alpha-beta T cell differentiation (GO:0043378)|positive regulation of cell adhesion mediated by integrin (GO:0033630)|positive regulation of erythrocyte differentiation (GO:0045648)|positive regulation of gamma-delta T cell differentiation (GO:0045588)|positive regulation of lymphocyte differentiation (GO:0045621)|positive regulation of neutrophil chemotaxis (GO:0090023)|positive regulation of phagocytosis, engulfment (GO:0060100)|positive regulation of phosphorylation (GO:0042327)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of T cell proliferation (GO:0042102)|protein complex assembly (GO:0006461)|response to drug (GO:0042493)|T cell homeostasis (GO:0043029)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|SCAR complex (GO:0031209)	protein complex binding (GO:0032403)|protein kinase activator activity (GO:0030295)|Rac GTPase activator activity (GO:0030675)			NS(3)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(12)|lung(37)|ovary(3)|prostate(3)|skin(3)|stomach(2)	80						CTCTACATCACCCTTATCCGT	0.522																																																0													144	125	132					12																	54905823		2203	4300	6503	SO:0001583	missense	3071			AI924363	CCDS31813.1, CCDS53799.1	12q13.1	2005-10-11	2005-10-11	2005-10-11		ENSG00000123338			4862	protein-coding gene	gene with protein product		141180	"hematopoietic protein 1"	HEM1		1932118	Standard	NM_005337		Approved		uc001sgc.4	P55160	OTTHUMG00000169843	ENST00000293373.6:c.875C>A	12.37:g.54905823C>A	ENSP00000293373:p.Thr292Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B4DUT5|Q52LW0	Missense_Mutation	SNP	ENST00000293373.6	37	CCDS31813.1	.	.	.	.	.	.	.	.	.	.	C	18.92	3.724890	0.68959	.	.	ENSG00000123338	ENST00000293373;ENST00000545638	T;T	0.34072	1.38;1.38	5.61	5.61	0.85477	.	0.108403	0.64402	D	0.000011	T	0.50837	0.1639	M	0.65498	2.005	0.37617	D	0.921162	D	0.55385	0.971	P	0.52823	0.71	T	0.54728	-0.8250	10	0.42905	T	0.14	-19.2572	17.1917	0.86881	0.0:1.0:0.0:0.0	.	292	P55160	NCKPL_HUMAN	N	292;242	ENSP00000293373:T292N;ENSP00000445596:T242N	ENSP00000293373:T292N	T	+	2	0	NCKAP1L	53192090	0.976000	0.34144	1.000000	0.80357	0.786000	0.44442	2.377000	0.44300	2.665000	0.90641	0.558000	0.71614	ACC		0.522	NCKAP1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406195.1	NM_005337		A	54905823	C	A	54905823	3	1	613	1	0	0	0	0	1	0	0	0	10229	507	18	4	909	4	NCKAP1L	12	54905823	Missense_Mutation	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10	522834	54905823	78946072	38	37384										
LRIG3	121227	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	59308047	59308047	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	caaaataacgaagactcacaCttctcgaaggctttgaaggt	8	9	2	2	rs373824765		TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr12:59308047C>T	ENST00000320743.3	-	2	593	c.307G>A	c.(307-309)Gtg>Atg	p.V103M	LRIG3_ENST00000379141.4_Splice_Site_p.V43M	NM_153377.4	NP_700356.2	Q6UXM1	LRIG3_HUMAN	leucine-rich repeats and immunoglobulin-like domains 3	103					otolith morphogenesis (GO:0032474)	cytoplasmic vesicle (GO:0031410)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)			LRIG3/ROS1(2)	breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(12)|liver(1)|lung(14)|ovary(1)|prostate(3)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	48			GBM - Glioblastoma multiforme(1;1.17e-18)			AAGACTCACACTTCTCGAAGG	0.323			T	ROS1	NSCLC																																		Dom	yes		12	12q14.1	121227	leucine-rich repeats and immunoglobulin-like domains 3		E	0								C	MET/VAL,MET/VAL	0,4406		0,0,2203	97	104	101		127,307	4	1	12		101	1,8599	1.2+/-3.3	0,1,4299	no	missense-near-splice,missense-near-splice	LRIG3	NM_001136051.1,NM_153377.3	21,21	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign,benign	43/1060,103/1120	59308047	1,13005	2203	4300	6503	SO:0001630	splice_region_variant	121227			AY505340	CCDS8960.1, CCDS44933.1	12q13.2	2013-01-11				ENSG00000139263		"Immunoglobulin superfamily / I-set domain containing"	30991	protein-coding gene	gene with protein product		608870					Standard	NM_153377		Approved	FLJ90440, KIAA3016	uc001sqr.4	Q6UXM1	OTTHUMG00000169940	ENST00000320743.3:c.308+1G>A	12.37:g.59308047C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXL7|Q8NC72	Missense_Mutation	SNP	ENST00000320743.3	37	CCDS8960.1	.	.	.	.	.	.	.	.	.	.	C	13.83	2.352857	0.41700	0.0	1.16E-4	ENSG00000139263	ENST00000379141;ENST00000320743;ENST00000552267	T;T;T	0.55052	1.74;1.53;0.54	5.86	3.99	0.46301	.	0.234157	0.21955	N	0.066677	T	0.44850	0.1313	M	0.63428	1.95	0.41104	D	0.985693	B;B	0.24823	0.112;0.02	B;B	0.24541	0.054;0.006	T	0.31696	-0.9934	9	.	.	.	.	5.4651	0.16637	0.0:0.5541:0.1389:0.307	.	43;103	Q6UXM1-2;Q6UXM1	.;LRIG3_HUMAN	M	43;103;10	ENSP00000368436:V43M;ENSP00000326759:V103M;ENSP00000449109:V10M	.	V	-	1	0	LRIG3	57594314	0.999000	0.42202	1.000000	0.80357	0.987000	0.75469	0.426000	0.21363	0.753000	0.32945	0.655000	0.94253	GTG		0.323	LRIG3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406623.1	NM_153377	Missense_Mutation	T	59308047	C	T	59308047	5	4	613	1	0	0	0	0	0	0	1	0	8953	579	20	2	3124	2	LRIG3	12	59308047	Splice_Site	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10	4402224	59308047	74543848	39	37385										
RBM19	9904	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	114400219	114400220	+	Splice_Site	DNP	TC	TC	CT													0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	cctgaaacgctcctccttcaTctaggacagagggaaaggaa							TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr12:114400219_114400220TC>CT	ENST00000545145.2	-	2	115	c.37_37GA>AG	c.(37-39)GAat>AGaat	p.E13R	RBM19_ENST00000261741.5_Splice_Site_p.E13R|RBM19_ENST00000392561.3_Splice_Site_p.E13R	NM_001146699.1	NP_001140171.1	Q9Y4C8	RBM19_HUMAN	RNA binding motif protein 19	13	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				multicellular organismal development (GO:0007275)|positive regulation of embryonic development (GO:0040019)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(10)|liver(1)|lung(22)|ovary(1)|skin(3)|stomach(4)	55	Medulloblastoma(191;0.163)|all_neural(191;0.178)					TCCTCCTTCATCTAGGACAGAG	0.54																																																0																																										SO:0001630	splice_region_variant	9904			AL117547	CCDS9172.1	12q24.21	2013-02-12				ENSG00000122965		"RNA binding motif (RRM) containing"	29098	protein-coding gene	gene with protein product						9734811, 11230166	Standard	NM_016196		Approved	DKFZp586F1023, KIAA0682	uc009zwi.2	Q9Y4C8	OTTHUMG00000169646	ENST00000545145.2:c.37_37delinsCT	12.37:g.114400219_114400220delinsCT		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5X9|Q9BPY6|Q9UFN5	Splice_Site	DNP	ENST00000545145.2	37	CCDS9172.1																																																																																				0.54	RBM19-003	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405251.1	NM_016196	Missense_Mutation	CT	114400220	TC	CT	114400219	5	2	613	1	0	0	0	0	0	0	1	0	13134	1449	50	3	2937	3	RBM19	12	114400219	Splice_Site	DNP	TC	TCGA-IA-A40U-01A-11D-A25F-10	55092172	114400219	19451676	40	37386										
UBC	7316	ucsc.edu;bcgsc.ca	37	chr12	125397655	125397655	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	ccacctctgagacggagtacCaggtgcaaggtggactcttt	12	11	2	1	rs544863778		TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr12:125397655C>A	ENST00000536769.1	-	1	2239	c.663G>T	c.(661-663)ctG>ctT	p.L221L	UBC_ENST00000339647.5_Silent_p.L221L|UBC_ENST00000536661.1_5'Flank|MIR5188_ENST00000583467.1_RNA|UBC_ENST00000546120.1_Silent_p.L145L|UBC_ENST00000538617.1_Intron			P0CG48	UBC_HUMAN	ubiquitin C	221	Ubiquitin-like 3. {ECO:0000255|PROSITE- ProRule:PRU00214}.				activation of MAPK activity (GO:0000187)|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|carbohydrate metabolic process (GO:0005975)|cellular response to hypoxia (GO:0071456)|cytokine-mediated signaling pathway (GO:0019221)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA repair (GO:0006281)|endosomal transport (GO:0016197)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|G1/S transition of mitotic cell cycle (GO:0000082)|G2/M transition of mitotic cell cycle (GO:0000086)|gene expression (GO:0010467)|glucose metabolic process (GO:0006006)|glycogen biosynthetic process (GO:0005978)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|innate immune response (GO:0045087)|intracellular transport of virus (GO:0075733)|ion transmembrane transport (GO:0034220)|JNK cascade (GO:0007254)|membrane organization (GO:0061024)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic process (GO:0043066)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|negative regulation of type I interferon production (GO:0032480)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch receptor processing (GO:0007220)|Notch signaling pathway (GO:0007219)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of apoptotic process (GO:0043065)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of type I interferon production (GO:0032481)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of type I interferon production (GO:0032479)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|stress-activated MAPK cascade (GO:0051403)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|transmembrane transport (GO:0055085)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral protein processing (GO:0019082)|virion assembly (GO:0019068)	cytosol (GO:0005829)|endocytic vesicle membrane (GO:0030666)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|plasma membrane (GO:0005886)	poly(A) RNA binding (GO:0044822)|protease binding (GO:0002020)			breast(3)|endometrium(4)|kidney(4)|large_intestine(2)|lung(13)|ovary(3)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	36	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.17e-05)|Epithelial(86;0.000207)|all cancers(50;0.00308)		GACGGAGTACCAGGTGCAAGG	0.512																																																0													221	196	204					12																	125397655		2203	4299	6502	SO:0001819	synonymous_variant	7316				CCDS9260.1	12q24.3	2008-09-08			ENSG00000150991	ENSG00000150991			12468	protein-coding gene	gene with protein product	"polyubiquitin-C"	191340				1315303, 11872750	Standard	NM_021009		Approved		uc001ugs.4	P0CG48		ENST00000536769.1:c.663G>T	12.37:g.125397655C>A		Somatic		WXS	Illumina HiSeq		P02248|P02249|P02250|P62988|Q29120|Q6LBL4|Q6LDU5|Q8WYN8|Q91887|Q91888|Q9BWD6|Q9BX98|Q9UEF2|Q9UEG1|Q9UEK8|Q9UPK7	Silent	SNP	ENST00000536769.1	37	CCDS9260.1																																																																																				0.512	UBC-007	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400177.1	NM_021009		A	125397655	C	A	125397655	2	1	613	1	0	0	0	0	0	0	0	1	16854	581	21	4		4	UBC	12	125397655	Silent	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10	10997436	125397655	8454240	41	37387										
C14orf156	81892	ucsc.edu	37	chr14	78174462	78174462	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	ctttagtctgaagatggcggCctcagcagcgagaggtgctg	15	9	2	3	rs552083394		TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr14:78174462C>A	ENST00000557342.1	+	1	49	c.8C>A	c.(7-9)gCc>gAc	p.A3D	SLIRP_ENST00000557431.1_Missense_Mutation_p.A3D|SLIRP_ENST00000238688.5_Missense_Mutation_p.A3D|SLIRP_ENST00000557623.1_Missense_Mutation_p.A3D|ALKBH1_ENST00000216489.3_5'Flank	NM_001267864.1|NM_031210.5	NP_001254793.1|NP_112487.1	Q9GZT3	SLIRP_HUMAN	SRA stem-loop interacting RNA binding protein	3					mitochondrion morphogenesis (GO:0070584)|negative regulation of mitochondrial RNA catabolic process (GO:0000961)|regulation of transcription, DNA-templated (GO:0006355)|single fertilization (GO:0007338)|sperm motility (GO:0030317)|spermatid development (GO:0007286)|transcription, DNA-templated (GO:0006351)	acrosomal vesicle (GO:0001669)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|ribonucleoprotein complex (GO:0030529)|sperm flagellum (GO:0036126)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			kidney(1)|prostate(1)	2						AAGATGGCGGCCTCAGCAGCG	0.567																																																0													58	59	59					14																	78174462		2203	4300	6503	SO:0001583	missense	81892			AF253980	CCDS9866.1, CCDS58331.1, CCDS73668.1	14q24.3	2013-02-12	2011-06-17	2011-06-17	ENSG00000119705	ENSG00000119705		"RNA binding motif (RRM) containing"	20495	protein-coding gene	gene with protein product		610211	"chromosome 14 open reading frame 156"	C14orf156		16762838	Standard	NM_031210		Approved	DC50	uc001xue.5	Q9GZT3		ENST00000557342.1:c.8C>A	14.37:g.78174462C>A	ENSP00000450909:p.Ala3Asp	Somatic		WXS	Illumina HiSeq		J3KMY7	Missense_Mutation	SNP	ENST00000557342.1	37	CCDS9866.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	16.20|16.20	3.055129|3.055129	0.55325|0.55325	.|.	.|.	ENSG00000119705|ENSG00000119705	ENST00000557342;ENST00000238688;ENST00000557623;ENST00000557431|ENST00000556831	T;T;T;T|.	0.59638|.	0.72;0.68;1.02;0.25|.	5.45|5.45	5.45|5.45	0.79879|0.79879	.|.	0.000000|.	0.64402|.	D|.	0.000001|.	T|T	0.74419|0.74419	0.3714|0.3714	M|M	0.70595|0.70595	2.14|2.14	0.37545|0.37545	D|D	0.918469|0.918469	D|.	0.89917|.	1.0|.	D|.	0.83275|.	0.996|.	T|T	0.76356|0.76356	-0.2989|-0.2989	10|5	0.32370|.	T|.	0.25|.	-0.5502|-0.5502	16.6407|16.6407	0.85098|0.85098	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	3|.	Q9GZT3|.	SLIRP_HUMAN|.	D|T	3|1	ENSP00000450909:A3D;ENSP00000238688:A3D;ENSP00000452057:A3D;ENSP00000450849:A3D|.	ENSP00000238688:A3D|.	A|P	+|+	2|1	0|0	SLIRP|SLIRP	77244215|77244215	0.984000|0.984000	0.35163|0.35163	0.959000|0.959000	0.39883|0.39883	0.159000|0.159000	0.22180|0.22180	3.389000|3.389000	0.52516|0.52516	2.732000|2.732000	0.93576|0.93576	0.650000|0.650000	0.86243|0.86243	GCC|CCT		0.567	SLIRP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000413901.1	NM_031210		A	78174462	C	A	78174462	3	1	613	1	0	0	0	0	1	0	0	0	1756	739	26	4	10	4	C14orf156	14	78174462	Missense_Mutation	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10		78174462	29175078	42	37388										
CLMN	79789	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	95670380	95670380	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	caggttcttactgcagaaagGatccttgtaggtgtcagcct	11	9	2	1			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr14:95670380G>A	ENST00000298912.4	-	9	1419	c.1306C>T	c.(1306-1308)Cct>Tct	p.P436S		NM_024734.3	NP_079010.2	Q96JQ2	CLMN_HUMAN	calmin (calponin-like, transmembrane)	436					negative regulation of cell proliferation (GO:0008285)|neuron projection development (GO:0031175)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)				central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(10)|lung(17)|prostate(3)|skin(3)	44				Epithelial(152;0.193)		CTGCAGAAAGGATCCTTGTAG	0.478																																																0													115	110	112					14																	95670380		2203	4300	6503	SO:0001583	missense	79789			AB033014	CCDS9933.1	14q32.13	2012-10-02			ENSG00000165959	ENSG00000165959			19972	protein-coding gene	gene with protein product		611121				11386753	Standard	NM_024734		Approved	FLJ12383, KIAA1188, KIAA0500	uc001yef.2	Q96JQ2	OTTHUMG00000171629	ENST00000298912.4:c.1306C>T	14.37:g.95670380G>A	ENSP00000298912:p.Pro436Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAR7|Q9H713|Q9HA23|Q9HA57|Q9UFP4|Q9ULN2	Missense_Mutation	SNP	ENST00000298912.4	37	CCDS9933.1	.	.	.	.	.	.	.	.	.	.	G	5.446	0.267351	0.10294	.	.	ENSG00000165959	ENST00000298912	D	0.91894	-2.93	5.91	3.07	0.35406	.	0.178386	0.27311	N	0.019959	T	0.81555	0.4847	N	0.08118	0	0.09310	N	0.999997	B	0.16802	0.019	B	0.14023	0.01	T	0.71755	-0.4497	10	0.62326	D	0.03	.	8.3135	0.32086	0.0:0.6159:0.3036:0.0805	.	436	Q96JQ2	CLMN_HUMAN	S	436	ENSP00000298912:P436S	ENSP00000298912:P436S	P	-	1	0	CLMN	94740133	0.051000	0.20477	0.007000	0.13788	0.002000	0.02628	0.554000	0.23407	0.388000	0.25054	-0.839000	0.03059	CCT		0.478	CLMN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414518.2			A	95670380	G	A	95670380	3	1	613	1	0	0	0	0	1	0	0	0	3544	1174	41	2	1722	2	CLMN	14	95670380	Missense_Mutation	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10	17495918	95670380	11679160	43	37389										
CHRFAM7A	89832	bcgsc.ca	37	chr15	30665219	30665220	+	Frame_Shift_Del	DEL	AT	AT	-													0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	cattggggatatagccactgAtatctgcctcctgcatctgc							TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	AT	AT	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr15:30665219_30665220delAT	ENST00000299847.2	-	6	742_743	c.289_290delAT	c.(289-291)atcfs	p.I97fs	CHRFAM7A_ENST00000397827.3_Frame_Shift_Del_p.I6fs|CHRFAM7A_ENST00000567722.1_5'Flank|CHRFAM7A_ENST00000401522.3_Frame_Shift_Del_p.I6fs	NM_139320.1	NP_647536.1	Q494W8	CRFM7_HUMAN	CHRNA7 (cholinergic receptor, nicotinic, alpha 7, exons 5-10) and FAM7A (family with sequence similarity 7A, exons A-E) fusion	97						integral component of membrane (GO:0016021)	extracellular ligand-gated ion channel activity (GO:0005230)			large_intestine(3)|lung(1)|skin(2)	6		all_lung(180;3.42e-11)|Breast(32;0.000153)		all cancers(64;1.9e-15)|Epithelial(43;3.59e-12)|GBM - Glioblastoma multiforme(186;9e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)|Lung(196;0.153)		ATAGCCACTGATATCTGCCTCC	0.5																																																0																																										SO:0001589	frameshift_variant	89832			AF029838	CCDS32184.1, CCDS42008.1	15q13.2	2013-04-24	2006-02-01		ENSG00000166664	ENSG00000166664			15781	protein-coding gene	gene with protein product		609756				11829490	Standard	NM_139320		Approved	D-10, CHRNA7-DR1	uc001zdt.1	Q494W8	OTTHUMG00000175645	ENST00000299847.2:c.289_290delAT	15.37:g.30665221_30665222delAT	ENSP00000299847:p.Ile97fs	Somatic		WXS	Illumina HiSeq	Phase_1	A8KAB9	Frame_Shift_Del	DEL	ENST00000299847.2	37	CCDS32184.1																																																																																				0.5	CHRFAM7A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000430700.1	NM_148911		-	30665220	AT	-	30665219	7	5	613	1	0	1	0	1	0	0	0	0	3377	333	12	0	968	0	CHRFAM7A	15	30665219	Frame_Shift_Del	DEL	AT	TCGA-IA-A40U-01A-11D-A25F-10		30665219	71866173	44	37390										
FAM82A2	55177	bcgsc.ca	37	chr15	41043764	41043764	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	ctctggttctcttccatgtgGcatctggaaagcaggcccca	10	13	3	0			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr15:41043764G>T	ENST00000260385.6	-	3	1451	c.384C>A	c.(382-384)tgC>tgA	p.C128*	RMDN3_ENST00000338376.3_Nonsense_Mutation_p.C128*|RMDN3_ENST00000558560.1_5'UTR			Q96TC7	RMD3_HUMAN	regulator of microtubule dynamics 3	128					apoptotic process (GO:0006915)|cell differentiation (GO:0030154)|cellular calcium ion homeostasis (GO:0006874)	integral component of membrane (GO:0016021)|microtubule (GO:0005874)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|nucleus (GO:0005634)											CTTCCATGTGGCATCTGGAAA	0.562																																																0													80	77	78					15																	41043764		2203	4300	6503	SO:0001587	stop_gained	55177			AK001441	CCDS10063.1	15q15.1	2013-01-11	2013-01-11	2013-01-11	ENSG00000137824	ENSG00000137824			25550	protein-coding gene	gene with protein product		611873	"family with sequence similarity 82, member A2"	FAM82C, FAM82A2		12975309	Standard	XM_005254531		Approved	FLJ10579, PTPIP51, RMD3	uc001zmp.1	Q96TC7	OTTHUMG00000130066	ENST00000260385.6:c.384C>A	15.37:g.41043764G>T	ENSP00000260385:p.Cys128*	Somatic		WXS	Illumina HiSeq	Phase_1	A9UMZ9|B3KRR3|Q6ZWE9|Q96H23|Q96SD6|Q9H6G1|Q9NVQ6	Nonsense_Mutation	SNP	ENST00000260385.6	37	CCDS10063.1	.	.	.	.	.	.	.	.	.	.	G	22.7	4.318354	0.81469	.	.	ENSG00000137824	ENST00000260385;ENST00000338376;ENST00000426872	.	.	.	4.93	-6.67	0.01783	.	0.173950	0.48286	D	0.000187	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.46703	T	0.11	-4.3853	0.9165	0.01305	0.3395:0.1799:0.2985:0.1821	.	.	.	.	X	128;128;65	.	ENSP00000260385:C128X	C	-	3	2	FAM82A2	38831056	0.443000	0.25641	0.715000	0.30552	0.868000	0.49771	-0.645000	0.05409	-1.259000	0.02468	0.484000	0.47621	TGC		0.562	RMDN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252357.1	NM_018145		T	41043764	G	T	41043764	4	4	613	1	0	0	0	0	0	1	0	0	5638	1195	42	4	1068	4	FAM82A2	15	41043764	Nonsense_Mutation	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10	10378545	41043764	61487628	45	37391										
CSPG4	1464	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	75968209	75968209	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	ctgaacatgttggcctcaagGaagctcaggaagcctccctt	10	12	2	1			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr15:75968209G>C	ENST00000308508.5	-	10	6743	c.6651C>G	c.(6649-6651)ttC>ttG	p.F2217L	CTD-2026K11.1_ENST00000569467.1_RNA|AC105020.1_ENST00000435356.1_5'Flank	NM_001897.4	NP_001888.2	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4	2217	Cysteine-containing.|Neurite growth inhibition. {ECO:0000250}.				activation of MAPK activity (GO:0000187)|angiogenesis (GO:0001525)|carbohydrate metabolic process (GO:0005975)|cell proliferation (GO:0008283)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|glial cell migration (GO:0008347)|glycosaminoglycan metabolic process (GO:0030203)|intracellular signal transduction (GO:0035556)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|small molecule metabolic process (GO:0044281)|tissue remodeling (GO:0048771)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cell projection (GO:0042995)|cell surface (GO:0009986)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi lumen (GO:0005796)|integral component of plasma membrane (GO:0005887)|lysosomal lumen (GO:0043202)	protein kinase binding (GO:0019901)|signal transducer activity (GO:0004871)			breast(1)|cervix(2)|endometrium(5)|kidney(5)|large_intestine(3)|liver(2)|lung(18)|ovary(2)|pancreas(2)|prostate(4)|skin(4)	48						TGGCCTCAAGGAAGCTCAGGA	0.622																																																0													80	78	79					15																	75968209		2197	4294	6491	SO:0001583	missense	1464			X96753, AY359468	CCDS10284.1	15q24.2	2010-04-19	2007-02-16		ENSG00000173546	ENSG00000173546		"Proteoglycans / Cell surface : Other"	2466	protein-coding gene	gene with protein product	"melanoma-associated chondroitin sulfate proteoglycan"	601172	"chondroitin sulfate proteoglycan 4 (melanoma-associated)"			8790396, 16407841	Standard	NM_001897		Approved	MCSPG, MEL-CSPG, MSK16, NG2, MCSP, HMW-MAA	uc002baw.3	Q6UVK1	OTTHUMG00000142836	ENST00000308508.5:c.6651C>G	15.37:g.75968209G>C	ENSP00000312506:p.Phe2217Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DW77|Q92675	Missense_Mutation	SNP	ENST00000308508.5	37	CCDS10284.1	.	.	.	.	.	.	.	.	.	.	G	12.42	1.931673	0.34096	.	.	ENSG00000173546	ENST00000308508;ENST00000537176	T	0.18657	2.2	5.33	2.43	0.29744	.	0.080794	0.52532	N	0.000076	T	0.15609	0.0376	L	0.50333	1.59	0.24930	N	0.991921	B	0.10296	0.003	B	0.08055	0.003	T	0.36261	-0.9755	10	0.09843	T	0.71	.	8.3535	0.32316	0.3053:0.0:0.6947:0.0	.	2217	Q6UVK1	CSPG4_HUMAN	L	2217;249	ENSP00000312506:F2217L	ENSP00000312506:F2217L	F	-	3	2	CSPG4	73755264	1.000000	0.71417	0.865000	0.33974	0.938000	0.57974	0.970000	0.29383	0.251000	0.21505	0.561000	0.74099	TTC		0.622	CSPG4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286472.1	NM_001897		C	75968209	G	C	75968209	3	2	613	1	0	0	0	0	1	0	0	0	3962	1165	41	4	321	4	CSPG4	15	75968209	Missense_Mutation	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10	34924445	75968209	26563183	46	37392										
RHCG	51458	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	90030138	90030138	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	acaggaagttgaagcccacgGcgctgaagccgtagcgctgc	14	12	0	2			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr15:90030138G>A	ENST00000268122.4	-	2	331	c.263C>T	c.(262-264)gCc>gTc	p.A88V	RHCG_ENST00000544600.1_Missense_Mutation_p.A88V	NM_016321.1	NP_057405.1	Q9UBD6	RHCG_HUMAN	Rh family, C glycoprotein	88					amine transport (GO:0015837)|ammonium transmembrane transport (GO:0072488)|ammonium transport (GO:0015696)|cellular ion homeostasis (GO:0006873)|epithelial cell differentiation (GO:0030855)|homeostatic process (GO:0042592)|regulation of pH (GO:0006885)|transepithelial ammonium transport (GO:0070634)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|cytoplasmic vesicle (GO:0031410)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	ammonium transmembrane transporter activity (GO:0008519)|ankyrin binding (GO:0030506)			breast(1)|endometrium(2)|kidney(2)|large_intestine(5)|lung(9)|upper_aerodigestive_tract(1)|urinary_tract(1)	21	Lung NSC(78;0.0237)|all_lung(78;0.0478)					GAAGCCCACGGCGCTGAAGCC	0.622																																																0													65	56	59					15																	90030138		2200	4299	6499	SO:0001583	missense	51458			AF081497	CCDS10351.1	15q25	2013-05-22	2006-02-23		ENSG00000140519	ENSG00000140519		"Solute carriers"	18140	protein-coding gene	gene with protein product		605381	"chromosome 15 open reading frame 6", "Rhesus blood group, C glycoprotein"	C15orf6		10852913	Standard	NM_016321		Approved	RHGK, PDRC2, SLC42A3	uc002bnz.2	Q9UBD6	OTTHUMG00000149647	ENST00000268122.4:c.263C>T	15.37:g.90030138G>A	ENSP00000268122:p.Ala88Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4D4|Q6X3Y4	Missense_Mutation	SNP	ENST00000268122.4	37	CCDS10351.1	.	.	.	.	.	.	.	.	.	.	g	17.75	3.466191	0.63625	.	.	ENSG00000140519	ENST00000544600;ENST00000268122;ENST00000536247	T;T	0.23552	1.9;1.9	4.76	2.79	0.32731	Ammonium transporter AmtB-like (3);	0.658388	0.16053	N	0.231841	T	0.49592	0.1566	M	0.88310	2.945	0.21386	N	0.99971	P	0.49358	0.923	P	0.53760	0.734	T	0.50021	-0.8876	9	.	.	.	-2.9237	14.3657	0.66805	0.0:0.4295:0.5705:0.0	.	88	Q9UBD6	RHCG_HUMAN	V	88;88;79	ENSP00000438123:A88V;ENSP00000268122:A88V	.	A	-	2	0	RHCG	87831142	0.691000	0.27709	0.099000	0.21106	0.817000	0.46193	2.392000	0.44433	0.397000	0.25310	0.479000	0.44913	GCC		0.622	RHCG-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000312855.2	NM_016321		A	90030138	G	A	90030138	3	1	613	1	0	0	0	0	1	0	0	0	13339	1203	42	2	1212	2	RHCG	15	90030138	Missense_Mutation	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10	14061929	90030138	12501254	47	37393										
STUB1	339123	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	732019	732019	+	3'UTR	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	acagcactcaactcttcacaGgacaagtacatggcggacat	8	12	3	0			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr16:732019G>T	ENST00000293882.4	-	0	1779				STUB1_ENST00000566181.2_Splice_Site|STUB1_ENST00000219548.4_Splice_Site|JMJD8_ENST00000454700.1_3'UTR|JMJD8_ENST00000609261.1_3'UTR|LA16c-313D11.9_ENST00000571933.1_RNA|LA16c-313D11.9_ENST00000567091.1_RNA|STUB1_ENST00000565677.1_Splice_Site|STUB1_ENST00000564370.1_Splice_Site|JMJD8_ENST00000412368.2_3'UTR			Q96S16	JMJD8_HUMAN	jumonji domain containing 8							extracellular vesicular exosome (GO:0070062)				breast(1)	1						ACTCTTCACAGGACAAGTACA	0.592																																																0													196	177	184					16																	732019		2201	4300	6501	SO:0001624	3_prime_UTR_variant	10273				CCDS45369.1	16p13.3	2008-07-28	2008-07-28	2008-07-28		ENSG00000161999			14148	protein-coding gene	gene with protein product			"chromosome 16 open reading frame 20"	C16orf20			Standard	NM_001005920		Approved		uc002ciw.1	Q96S16		ENST00000293882.4:c.*775C>A	16.37:g.732019G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RNS7|D3DU58|Q4PKE3|Q4VBY1|Q6GMW5|Q71RB8	Splice_Site	SNP	ENST00000293882.4	37		.	.	.	.	.	.	.	.	.	.	G	13.81	2.348521	0.41599	.	.	ENSG00000103266	ENST00000219548	.	.	.	4.81	4.81	0.61882	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.8172	0.85737	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	STUB1	672020	1.000000	0.71417	0.999000	0.59377	0.292000	0.27327	8.863000	0.92288	2.366000	0.80165	0.555000	0.69702	.		0.592	JMJD8-201	KNOWN	basic	protein_coding	protein_coding		NM_001005920		T	732019	G	T	732019	1	4	613	0	1	0	0	0	0	0	0	0	15347	1014	35	4		4	STUB1	16	732019	3'UTR	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10		732019	89622734	48	37394										
GLG1	2734	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	74505165	74505165	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	ccatcaggtccccagagtctAtctggttatctgccacatcc	7	15	4	1			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr16:74505165A>C	ENST00000422840.2	-	15	2134	c.2135T>G	c.(2134-2136)aTa>aGa	p.I712R	GLG1_ENST00000205061.5_Missense_Mutation_p.I712R|GLG1_ENST00000447066.2_Missense_Mutation_p.I701R	NM_001145667.1	NP_001139139.1	Q92896	GSLG1_HUMAN	golgi glycoprotein 1	712					blood coagulation (GO:0007596)|bone morphogenesis (GO:0060349)|leukocyte migration (GO:0050900)|negative regulation of protein processing (GO:0010955)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|regulation of chondrocyte differentiation (GO:0032330)	extracellular matrix (GO:0031012)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	receptor binding (GO:0005102)			breast(2)|cervix(2)|endometrium(6)|kidney(8)|large_intestine(6)|lung(28)|ovary(3)|prostate(1)|skin(1)	57						CCCAGAGTCTATCTGGTTATC	0.458																																																0													251	213	226					16																	74505165		2198	4300	6498	SO:0001583	missense	2734				CCDS32485.1, CCDS45526.1, CCDS45527.1	16q22-q23	2010-02-12	2010-02-12			ENSG00000090863			4316	protein-coding gene	gene with protein product		600753	"golgi apparatus protein 1"			8530051, 7531823	Standard	NM_012201		Approved	MG-160, ESL-1, CFR-1	uc002fcx.3	Q92896		ENST00000422840.2:c.2135T>G	16.37:g.74505165A>C	ENSP00000405984:p.Ile712Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8Y4|D3DUJ7|Q13221|Q6P9D1	Missense_Mutation	SNP	ENST00000422840.2	37	CCDS45527.1	.	.	.	.	.	.	.	.	.	.	A	13.05	2.122299	0.37436	.	.	ENSG00000090863	ENST00000205061;ENST00000447066;ENST00000422840	.	.	.	6.17	6.17	0.99709	.	0.000000	0.85682	D	0.000000	T	0.68559	0.3014	L	0.49350	1.555	0.80722	D	1	D;D;D	0.65815	0.984;0.995;0.97	D;P;P	0.65684	0.937;0.901;0.905	T	0.62595	-0.6821	9	0.16896	T	0.51	-0.9347	16.8222	0.85835	1.0:0.0:0.0:0.0	.	712;712;701	Q92896;Q92896-2;B7Z8Y4	GSLG1_HUMAN;.;.	R	712;701;712	.	ENSP00000205061:I712R	I	-	2	0	GLG1	73062666	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.923000	0.70045	2.371000	0.80710	0.533000	0.62120	ATA		0.458	GLG1-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000435750.1	NM_012201		C	74505165	A	C	74505165	3	2	613	1	0	0	0	0	1	0	0	0	6443	449	16	5	1532	5	GLG1	16	74505165	Missense_Mutation	SNP	A	TCGA-IA-A40U-01A-11D-A25F-10	73773146	74505165	15849588	49	37395										
C16orf46	123775	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	81094972	81094972	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	gctttgcactccccgtttctGcagaagctgcaaggcagcaa	10	13	1	1			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr16:81094972G>A	ENST00000299578.5	-	4	1217	c.982C>T	c.(982-984)Cag>Tag	p.Q328*	C16orf46_ENST00000378611.4_Nonsense_Mutation_p.Q328*|RP11-303E16.8_ENST00000564536.1_RNA|C16orf46_ENST00000444657.3_5'Flank	NM_152337.2	NP_689550.2	Q6P387	CP046_HUMAN	chromosome 16 open reading frame 46	328						cytoplasm (GO:0005737)|nucleus (GO:0005634)				NS(1)|endometrium(2)|large_intestine(3)|lung(9)|prostate(1)|stomach(1)|urinary_tract(1)	18						CCCCGTTTCTGCAGAAGCTGC	0.552																																																0													103	101	102					16																	81094972		2202	4300	6502	SO:0001587	stop_gained	123775			BC064143	CCDS10932.1, CCDS42201.1	16q23.2	2012-10-09			ENSG00000166455	ENSG00000166455			26525	protein-coding gene	gene with protein product							Standard	NM_152337		Approved	FLJ32702	uc002fgc.4	Q6P387	OTTHUMG00000137629	ENST00000299578.5:c.982C>T	16.37:g.81094972G>A	ENSP00000299578:p.Gln328*	Somatic		WXS	Illumina HiSeq	Phase_I	Q96MA7	Nonsense_Mutation	SNP	ENST00000299578.5	37	CCDS10932.1	.	.	.	.	.	.	.	.	.	.	G	14.52	2.561321	0.45590	.	.	ENSG00000166455	ENST00000378611;ENST00000444657;ENST00000299578	.	.	.	5.23	1.87	0.25490	.	0.466272	0.20153	N	0.098118	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.22109	T	0.4	.	14.4868	0.67622	0.0:0.414:0.5859:0.0	.	.	.	.	X	328;55;328	.	ENSP00000299578:Q328X	Q	-	1	0	C16orf46	79652473	1.000000	0.71417	0.998000	0.56505	0.073000	0.16967	1.093000	0.30939	0.653000	0.30826	0.563000	0.77884	CAG		0.552	C16orf46-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000269054.2	NM_152337		A	81094972	G	A	81094972	4	1	613	1	0	0	0	0	0	1	0	0	1817	1328	46	2	237	2	C16orf46	16	81094972	Nonsense_Mutation	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10	6589807	81094972	9259781	50	37396										
TRPV1	7442	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	3480482	3480482	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	aacggcacaggtctctcaggAtcatctgcaggagacagcag	12	11	4	1			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr17:3480482A>G	ENST00000571088.1	-	12	1931	c.1718T>C	c.(1717-1719)aTc>aCc	p.I573T	TRPV1_ENST00000425167.2_Missense_Mutation_p.I584T|TRPV1_ENST00000174621.6_Missense_Mutation_p.I571T|SHPK_ENST00000572705.1_Missense_Mutation_p.I573T|RP11-235E17.3_ENST00000573568.1_RNA|TRPV1_ENST00000576351.1_Missense_Mutation_p.I563T|TRPV1_ENST00000399756.4_Missense_Mutation_p.I573T|TRPV1_ENST00000310522.5_Missense_Mutation_p.I513T|TRPV1_ENST00000399759.3_Missense_Mutation_p.I573T	NM_018727.5	NP_061197.4	Q8NER1	TRPV1_HUMAN	transient receptor potential cation channel, subfamily V, member 1	573					calcium ion transmembrane transport (GO:0070588)|cell surface receptor signaling pathway (GO:0007166)|cellular response to alkaloid (GO:0071312)|cellular response to ATP (GO:0071318)|chemosensory behavior (GO:0007635)|ion transmembrane transport (GO:0034220)|thermoception (GO:0050955)|transmembrane transport (GO:0055085)|transport (GO:0006810)	cell junction (GO:0030054)|cell projection (GO:0042995)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|intrinsic component of plasma membrane (GO:0031226)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	ATP binding (GO:0005524)|calcium channel activity (GO:0005262)|calcium-release channel activity (GO:0015278)|excitatory extracellular ligand-gated ion channel activity (GO:0005231)|phosphoprotein binding (GO:0051219)|transmembrane signaling receptor activity (GO:0004888)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(5)|ovary(1)|prostate(1)|urinary_tract(1)	17				Lung(1;0.055)|COAD - Colon adenocarcinoma(5;0.0896)|LUAD - Lung adenocarcinoma(1115;0.131)	Alpha-Linolenic Acid(DB00132)|Aspartame(DB00168)|Icosapent(DB00159)	GTCTCTCAGGATCATCTGCAG	0.602																																					Melanoma(38;962 1762 15789)											0													34	34	34					17																	3480482		2044	4170	6214	SO:0001583	missense	7442			AJ272063	CCDS45576.1	17p13.2	2014-08-12	2002-01-29	2002-02-01	ENSG00000196689	ENSG00000262304		"Voltage-gated ion channels / Transient receptor potential cation channels", "Ankyrin repeat domain containing"	12716	protein-coding gene	gene with protein product		602076	"vanilloid receptor subtype 1"	VR1		9349813, 11549313, 16382100	Standard	NM_018727		Approved		uc010vrt.2	Q8NER1	OTTHUMG00000177649	ENST00000571088.1:c.1718T>C	17.37:g.3480482A>G	ENSP00000461007:p.Ile573Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A2RUA9|Q3LU47|Q9H0G9|Q9H303|Q9H304|Q9NQ74|Q9NY22	Missense_Mutation	SNP	ENST00000571088.1	37	CCDS45576.1	.	.	.	.	.	.	.	.	.	.	A	19.04	3.749434	0.69533	.	.	ENSG00000196689	ENST00000399759;ENST00000399756;ENST00000174621;ENST00000425167;ENST00000310522	D;D;D;D;D	0.90504	-2.68;-2.68;-2.68;-2.68;-2.68	5.15	5.15	0.70609	Ion transport (1);	0.045746	0.85682	D	0.000000	D	0.95007	0.8384	M	0.88842	2.985	0.58432	D	0.999999	P;D;D;P	0.63046	0.764;0.975;0.992;0.77	B;P;P;B	0.58660	0.394;0.717;0.843;0.282	D	0.95830	0.8857	10	0.87932	D	0	-0.9535	14.4569	0.67423	1.0:0.0:0.0:0.0	.	573;571;513;584	Q8NER1;E7EQ80;E7ESJ2;E7EQ78	TRPV1_HUMAN;.;.;.	T	573;573;571;584;513	ENSP00000382661:I573T;ENSP00000382659:I573T;ENSP00000174621:I571T;ENSP00000409627:I584T;ENSP00000311692:I513T	ENSP00000174621:I571T	I	-	2	0	TRPV1	3427231	1.000000	0.71417	1.000000	0.80357	0.693000	0.40251	6.734000	0.74801	2.072000	0.62099	0.460000	0.39030	ATC		0.602	TRPV1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438254.1	NM_018727		G	3480482	A	G	3480482	3	3	613	1	0	0	0	0	1	0	0	0	16607	333	12	3	494	3	TRPV1	17	3480482	Missense_Mutation	SNP	A	TCGA-IA-A40U-01A-11D-A25F-10		3480482	77714728	51	37397										
NCOR1	9611	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	15968952	15968952	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	cattgcgtaaagctgatactGacttgggtaacctggagttg	12	7	0	2			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr17:15968952G>T	ENST00000268712.3	-	33	5055	c.4798C>A	c.(4798-4800)Cag>Aag	p.Q1600K	NCOR1_ENST00000395857.3_Missense_Mutation_p.Q184K|NCOR1_ENST00000395851.1_Missense_Mutation_p.Q1616K	NM_006311.3	NP_006302.2	O75376	NCOR1_HUMAN	nuclear receptor corepressor 1	1600	Interaction with C1D. {ECO:0000250}.|Interaction with ETO.				CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation (GO:0002361)|cellular lipid metabolic process (GO:0044255)|cholesterol homeostasis (GO:0042632)|chromatin modification (GO:0016568)|circadian regulation of gene expression (GO:0032922)|definitive erythrocyte differentiation (GO:0060318)|gene expression (GO:0010467)|negative regulation of JNK cascade (GO:0046329)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|positive regulation of histone deacetylation (GO:0031065)|regulation of fatty acid transport (GO:2000191)|regulation of glycolytic process by negative regulation of transcription from RNA polymerase II promoter (GO:0072362)|regulation of lipid transport by negative regulation of transcription from RNA polymerase II promoter (GO:0072368)|regulation of multicellular organism growth (GO:0040014)|small molecule metabolic process (GO:0044281)|spindle assembly (GO:0051225)|thalamus development (GO:0021794)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle microtubule (GO:0005876)|transcription factor complex (GO:0005667)|transcriptional repressor complex (GO:0017053)	chromatin binding (GO:0003682)|histone deacetylase binding (GO:0042826)|histone deacetylase regulator activity (GO:0035033)|nuclear hormone receptor binding (GO:0035257)|RNA polymerase II activating transcription factor binding (GO:0001102)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)|transcription regulatory region DNA binding (GO:0044212)			NS(2)|breast(13)|central_nervous_system(2)|cervix(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(17)|lung(26)|ovary(1)|prostate(7)|skin(2)|upper_aerodigestive_tract(6)|urinary_tract(10)	107				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		AGCTGATACTGACTTGGGTAA	0.453																																																0													154	137	143					17																	15968952		2203	4300	6503	SO:0001583	missense	9611			AF044209	CCDS11175.1, CCDS54094.1, CCDS54095.1	17p11.2	2014-06-12	2010-06-10		ENSG00000141027	ENSG00000141027			7672	protein-coding gene	gene with protein product	"thyroid hormone- and retinoic acid receptor-associated corepressor 1", "protein phosphatase 1, regulatory subunit 109"	600849	"nuclear receptor co-repressor 1"			7566114, 9724795	Standard	NM_006311		Approved	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216, PPP1R109	uc002gpo.3	O75376	OTTHUMG00000059309	ENST00000268712.3:c.4798C>A	17.37:g.15968952G>T	ENSP00000268712:p.Gln1600Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B3DLF8|E9PGV6|Q86YY0|Q9UPV5|Q9UQ18	Missense_Mutation	SNP	ENST00000268712.3	37	CCDS11175.1	.	.	.	.	.	.	.	.	.	.	G	21.0	4.087095	0.76642	.	.	ENSG00000141027	ENST00000268712;ENST00000395851;ENST00000395849;ENST00000395857	T;T;T	0.47528	0.84;0.84;0.84	5.58	5.58	0.84498	.	0.104733	0.64402	D	0.000003	T	0.65964	0.2742	L	0.57536	1.79	0.40995	D	0.984889	D;D;P;P;P	0.59767	0.986;0.962;0.9;0.94;0.856	D;P;B;P;P	0.72338	0.977;0.53;0.366;0.57;0.501	T	0.63611	-0.6598	10	0.39692	T	0.17	-9.3223	18.5647	0.91113	0.0:0.0:1.0:0.0	.	410;1504;1600;1616;120	B4DZ48;E7EVK1;O75376;O75376-2;Q86YY1	.;.;NCOR1_HUMAN;.;.	K	1600;1616;1504;184	ENSP00000268712:Q1600K;ENSP00000379192:Q1616K;ENSP00000379198:Q184K	ENSP00000268712:Q1600K	Q	-	1	0	NCOR1	15909677	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	6.984000	0.76186	2.625000	0.88918	0.557000	0.71058	CAG		0.453	NCOR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131751.5	NM_006311		T	15968952	G	T	15968952	3	4	613	1	0	0	0	0	1	0	0	0	10242	1299	45	4	2580	4	NCOR1	17	15968952	Missense_Mutation	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10	12488470	15968952	65226258	52	37398										
KCNJ12	3768	broad.mit.edu;bcgsc.ca	37	chr17	21318895	21318895	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	cctgtgtggacatccgctggCggtacatgctgctcatcttc	11	13	2	0			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr17:21318895C>T	ENST00000583088.1	+	3	1136	c.241C>T	c.(241-243)Cgg>Tgg	p.R81W	KCNJ12_ENST00000331718.5_Missense_Mutation_p.R81W	NM_021012.4	NP_066292.2	Q14500	KCJ12_HUMAN	potassium inwardly-rectifying channel, subfamily J, member 12	81					muscle contraction (GO:0006936)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|protein homotetramerization (GO:0051289)|regulation of heart contraction (GO:0008016)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|intrinsic component of membrane (GO:0031224)|plasma membrane (GO:0005886)	inward rectifier potassium channel activity (GO:0005242)	p.R81G(1)		NS(1)|breast(4)|endometrium(4)|kidney(1)|large_intestine(5)|lung(39)|ovary(5)|skin(8)|stomach(3)	70				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)|Yohimbine(DB01392)	CATCCGCTGGCGGTACATGCT	0.577										Prostate(3;0.18)																																						1	Substitution - Missense(1)	lung(1)											205	126	153					17																	21318895		2203	4300	6503	SO:0001583	missense	100134444			L36069	CCDS11219.1	17p11.1	2011-07-05	2004-01-13		ENSG00000184185	ENSG00000184185		"Potassium channels", "Voltage-gated ion channels / Potassium channels, Inwardly rectifying"	6258	protein-coding gene	gene with protein product		602323	"potassium inwardly-rectifying channel, subfamily J, inhibitor 1"	KCNJN1		7859381, 12417321, 16382105	Standard	NM_021012		Approved	Kir2.2, Kir2.2v, IRK2, hIRK1	uc021tss.1	Q14500	OTTHUMG00000132039	ENST00000583088.1:c.241C>T	17.37:g.21318895C>T	ENSP00000463778:p.Arg81Trp	Somatic		WXS	Illumina HiSeq	Phase_I	O43401|Q15756|Q8NG63	Missense_Mutation	SNP	ENST00000583088.1	37	CCDS11219.1	.	.	.	.	.	.	.	.	.	.	C	19.52	3.843005	0.71488	.	.	ENSG00000184185	ENST00000331718	D	0.96011	-3.88	5.33	4.31	0.51392	Potassium channel, inwardly rectifying, Kir, conserved region 2 (2);	0.000000	0.85682	D	0.000000	D	0.98128	0.9382	H	0.95043	3.615	0.58432	D	0.999999	D	0.89917	1.0	D	0.97110	1.0	D	0.98223	1.0479	10	0.87932	D	0	.	10.7711	0.46323	0.4271:0.5729:0.0:0.0	.	81	Q14500	IRK12_HUMAN	W	81	ENSP00000328150:R81W	ENSP00000328150:R81W	R	+	1	2	KCNJ12	21259488	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	2.669000	0.46825	2.506000	0.84524	0.591000	0.81541	CGG		0.577	KCNJ12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255060.2	NM_021012		T	21318895	C	T	21318895	3	4	613	1	0	0	0	0	1	0	0	0	8053	759	27	1	243	1	KCNJ12	17	21318895	Missense_Mutation	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10	5349943	21318895	59876315	53	37399										
LRRC37A	9884	broad.mit.edu	37	chr17	44410017	44410018	+	Frame_Shift_Ins	INS	-	-	T													0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	gattatacttttctgcctcaINSttgtggtaaggacaataatt							TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr17:44410017_44410018insT	ENST00000320254.5	+	10	4807_4808	c.4804_4805insT	c.(4804-4806)attfs	p.I1602fs	ARL17B_ENST00000575960.1_Intron|LRRC37A_ENST00000393465.3_Frame_Shift_Ins_p.I1602fs|LRRC37A_ENST00000496930.1_Frame_Shift_Ins_p.I640fs|ARL17B_ENST00000434041.2_Intron|ARL17B_ENST00000570618.1_Intron|ARL17B_ENST00000575698.1_Intron	NM_014834.4	NP_055649.4	A6NMS7	L37A1_HUMAN	leucine rich repeat containing 37A	1602						integral component of membrane (GO:0016021)				endometrium(1)|lung(2)|pancreas(6)|prostate(1)|skin(1)	11		Melanoma(429;0.211)		BRCA - Breast invasive adenocarcinoma(366;0.232)		TTTCTGCCTCATTGTGGTAAGG	0.376																																																0																																										SO:0001589	frameshift_variant	9884			BC040501	CCDS11504.2	17q21.31	2014-04-01			ENSG00000176681	ENSG00000176681			29069	protein-coding gene	gene with protein product						9628581, 15533724	Standard	NM_014834		Approved	KIAA0563	uc031rbr.1	A6NMS7	OTTHUMG00000149841	ENST00000320254.5:c.4806dupT	17.37:g.44410019_44410019dupT	ENSP00000326324:p.Ile1602fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DY2|Q8IWC7	Frame_Shift_Ins	INS	ENST00000320254.5	37	CCDS11504.2																																																																																				0.376	LRRC37A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000313519.3	NM_014834		T	44410018	-	T	44410017	7	5	613	1	0	1	1	0	0	0	0	0	8998	217	8	0	4842	0	LRRC37A	17	44410017	Frame_Shift_Ins	INS	-	TCGA-IA-A40U-01A-11D-A25F-10	23091122	44410017	36785193	54	37400										
DNAH17	8632	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	76449535	76449535	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	tccgagatggcctgctcgatGacatccaggtagctgcgggc	14	12	0	2			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr17:76449535G>T	ENST00000585328.1	-	65	10528	c.10404C>A	c.(10402-10404)gtC>gtA	p.V3468V	DNAH17_ENST00000389840.5_Silent_p.V3459V|DNAH17_ENST00000586052.1_5'UTR	NM_173628.3	NP_775899.3	Q9UFH2	DYH17_HUMAN	dynein, axonemal, heavy chain 17	3459	AAA 5. {ECO:0000250}.				cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(2)|breast(7)|central_nervous_system(5)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(13)|large_intestine(8)|lung(37)|ovary(8)|prostate(7)|skin(4)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(3)	116			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			CCTGCTCGATGACATCCAGGT	0.617																																																0													112	76	88					17																	76449535		2203	4300	6503	SO:0001819	synonymous_variant	8632			AJ000522		17q25.3	2012-04-19	2006-09-04		ENSG00000187775	ENSG00000187775		"Axonemal dyneins"	2946	protein-coding gene	gene with protein product		610063	"dynein, axonemal, heavy polypeptide 17", "dynein, axonemal, heavy chain like 1", "dynein, axonemal, heavy like 1"	DNAHL1		9545504	Standard	NM_173628		Approved	DNEL2, FLJ40457	uc010dhp.2	Q9UFH2		ENST00000585328.1:c.10404C>A	17.37:g.76449535G>T		Somatic		WXS	Illumina HiSeq	Phase_I	O00431|O15206|Q2M2Y1|Q6ZRQ2|Q8N7Q7	Silent	SNP	ENST00000585328.1	37																																																																																					0.617	DNAH17-001	PUTATIVE	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000318962.2	NM_173628		T	76449535	G	T	76449535	2	4	613	1	0	0	0	0	0	0	0	1	4603	1277	45	4		4	DNAH17	17	76449535	Silent	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10	32039518	76449535	4745675	55	37401										
PTPRM	5797	hgsc.bcm.edu;bcgsc.ca	37	chr18	8314790	8314790	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	cctttgcagacgatcattccCgagtgaggctgcagacaata	10	11	1	3			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr18:8314790C>T	ENST00000332175.8	+	19	3852	c.2815C>T	c.(2815-2817)Cga>Tga	p.R939*	PTPRM_ENST00000580170.1_Nonsense_Mutation_p.R952*|PTPRM_ENST00000400053.4_Nonsense_Mutation_p.R877*|PTPRM_ENST00000444013.1_Nonsense_Mutation_p.R726*|PTPRM_ENST00000400060.4_Nonsense_Mutation_p.R953*	NM_002845.3	NP_002836.3	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	939	Tyrosine-protein phosphatase 1. {ECO:0000255|PROSITE-ProRule:PRU00160}.				homophilic cell adhesion (GO:0007156)|negative regulation of angiogenesis (GO:0016525)|negative regulation of endothelial cell migration (GO:0010596)|negative regulation of endothelial cell proliferation (GO:0001937)|neuron projection development (GO:0031175)|peptidyl-tyrosine dephosphorylation (GO:0035335)|positive regulation of vasodilation (GO:0045909)|protein dephosphorylation (GO:0006470)|response to drug (GO:0042493)|retina layer formation (GO:0010842)|retinal ganglion cell axon guidance (GO:0031290)|signal transduction (GO:0007165)	cell-cell adherens junction (GO:0005913)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|perinuclear region of cytoplasm (GO:0048471)	cadherin binding (GO:0045296)|identical protein binding (GO:0042802)|protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			breast(3)|central_nervous_system(1)|cervix(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(32)|lung(25)|ovary(2)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	90		Colorectal(10;0.234)				CGATCATTCCCGAGTGAGGCT	0.353																																																0													149	142	145					18																	8314790		2203	4300	6503	SO:0001587	stop_gained	5797			X58288	CCDS11840.1, CCDS58613.1	18p11.2	2013-02-11			ENSG00000173482	ENSG00000173482		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	9675	protein-coding gene	gene with protein product		176888		PTPRL1		1655529, 8404049	Standard	NM_002845		Approved	RPTPU, hR-PTPu	uc010dkv.3	P28827	OTTHUMG00000131575	ENST00000332175.8:c.2815C>T	18.37:g.8314790C>T	ENSP00000331418:p.Arg939*	Somatic		WXS	Illumina HiSeq	Phase_I	A7MBN1|D3DUH8|J3QL11	Nonsense_Mutation	SNP	ENST00000332175.8	37	CCDS11840.1	.	.	.	.	.	.	.	.	.	.	C	50	17.034461	0.99877	.	.	ENSG00000173482	ENST00000332175;ENST00000400060;ENST00000400053;ENST00000444013	.	.	.	5.86	5.86	0.93980	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	20.1802	0.98196	0.0:1.0:0.0:0.0	.	.	.	.	X	939;953;877;726	.	ENSP00000331418:R939X	R	+	1	2	PTPRM	8304790	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	3.775000	0.55349	2.777000	0.95525	0.655000	0.94253	CGA		0.353	PTPRM-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000254456.1			T	8314790	C	T	8314790	4	4	613	1	0	0	0	0	0	1	0	0	12819	644	23	1	2936	1	PTPRM	18	8314790	Nonsense_Mutation	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10		8314790	69762458	56	37402										
MAP4K1	11184	hgsc.bcm.edu;bcgsc.ca	37	chr19	39101749	39101755	+	Frame_Shift_Del	DEL	ATGAAGT	ATGAAGT	-													0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	tcttagtcagagtgactttgAtgaagttgtggaaggcagcc							TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	ATGAAGT	ATGAAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr19:39101749_39101755delATGAAGT	ENST00000591517.1	-	11	774_780	c.746_752delACTTCAT	c.(745-753)aacttcatcfs	p.NFI249fs	MAP4K1_ENST00000586296.1_Frame_Shift_Del_p.NFI249fs|MAP4K1_ENST00000396857.2_Frame_Shift_Del_p.NFI249fs|MAP4K1_ENST00000423454.2_Intron|MAP4K1_ENST00000589002.1_Intron|MAP4K1_ENST00000589130.1_Frame_Shift_Del_p.NFI245fs	NM_007181.4	NP_009112.1	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase kinase 1	249	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of JUN kinase activity (GO:0007257)|activation of MAPKKK activity (GO:0000185)|cell proliferation (GO:0008283)|intracellular signal transduction (GO:0035556)|peptidyl-serine phosphorylation (GO:0018105)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|response to stress (GO:0006950)	membrane (GO:0016020)	ATP binding (GO:0005524)|MAP kinase kinase kinase kinase activity (GO:0008349)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|small GTPase regulator activity (GO:0005083)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(3)|lung(24)|ovary(1)|prostate(1)|skin(5)|stomach(1)|urinary_tract(1)	44	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			AGTGACTTTGATGAAGTTGTGGAAGGC	0.575																																																0																																										SO:0001589	frameshift_variant	11184			U66464	CCDS42564.1, CCDS59385.1	19q13.1-q13.4	2011-06-09				ENSG00000104814	2.7.11.1	"Mitogen-activated protein kinase cascade / Kinase kinase kinase kinases"	6863	protein-coding gene	gene with protein product	"hematopoietic progenitor kinase 1"	601983				8824585	Standard	NM_001042600		Approved	HPK1	uc002oix.1	Q92918		ENST00000591517.1:c.746_752delACTTCAT	19.37:g.39101749_39101755delATGAAGT	ENSP00000465039:p.Asn249fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000591517.1	37	CCDS59385.1																																																																																				0.575	MAP4K1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000453390.1	NM_001042600		-	39101755	ATGAAGT	-	39101749	7	5	613	1	0	1	0	1	0	0	0	0	9266	333	12	0	1899	0	MAP4K1	19	39101749	Frame_Shift_Del	DEL	ATGAAGT	TCGA-IA-A40U-01A-11D-A25F-10		39101749	20027234	57	37403										
KLK14	43847	broad.mit.edu	37	chr19	51584905	51584905	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	tgccacggctgggagctccgGgtgcacgtatggccaccaat	14	13	0	0			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr19:51584905G>T	ENST00000156499.2	-	4	362	c.144C>A	c.(142-144)acC>acA	p.T48T	KLK14_ENST00000391802.1_Silent_p.T48T			Q9P0G3	KLK14_HUMAN	kallikrein-related peptidase 14	48	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				epidermis morphogenesis (GO:0048730)|fertilization (GO:0009566)|negative regulation of G-protein coupled receptor protein signaling pathway (GO:0045744)|positive regulation of G-protein coupled receptor protein signaling pathway (GO:0045745)|proteolysis (GO:0006508)|seminal clot liquefaction (GO:0070684)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	serine-type endopeptidase activity (GO:0004252)			kidney(4)|large_intestine(1)|lung(4)|skin(1)|urinary_tract(1)	11		all_neural(266;0.0199)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00422)		GGGAGCTCCGGGTGCACGTAT	0.617																																					GBM(117;2161 2172 2448 22911)											0													28	30	29					19																	51584905		1959	4087	6046	SO:0001819	synonymous_variant	43847			AF283670	CCDS12823.2	19q13.3-q13.4	2008-02-05	2006-10-27		ENSG00000129437	ENSG00000129437		"Kallikreins"	6362	protein-coding gene	gene with protein product		606135	"kallikrein 14"			16800724, 16800723	Standard	XM_006723224		Approved	KLK-L6	uc002pvs.1	Q9P0G3	OTTHUMG00000143721	ENST00000156499.2:c.144C>A	19.37:g.51584905G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7UNK5|Q1RMZ2|Q6B089	Silent	SNP	ENST00000156499.2	37	CCDS12823.2																																																																																				0.617	KLK14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000289774.2	NM_022046		T	51584905	G	T	51584905	2	4	613	1	0	0	0	0	0	0	0	1	8409	1219	43	4		4	KLK14	19	51584905	Silent	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10	12483156	51584905	7544078	58	37404										
MZF1	7593	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	59082699	59082699	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	gtcctctagcttcaccatgaCaggcccctcatcttctgggg	9	15	5	1			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr19:59082699C>T	ENST00000215057.2	-	2	618	c.58G>A	c.(58-60)Gtc>Atc	p.V20I	AC016629.8_ENST00000593642.1_RNA|MZF1_ENST00000594234.1_Missense_Mutation_p.V20I|MZF1_ENST00000599369.1_Missense_Mutation_p.V20I|MZF1_ENST00000594108.1_Missense_Mutation_p.V20I|AC016629.8_ENST00000600726.1_RNA|AC016629.8_ENST00000600534.1_RNA	NM_001267033.1|NM_198055.1	NP_001253962.1|NP_932172.1	P28698	MZF1_HUMAN	myeloid zinc finger 1	20					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(2)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0443)|all cancers(4;7.92e-14)|Epithelial(4;5.57e-11)|OV - Ovarian serous cystadenocarcinoma(4;1.13e-09)|GBM - Glioblastoma multiforme(193;0.0108)|Lung(386;0.182)		TTCACCATGACAGGCCCCTCA	0.627																																																0													32	37	35					19																	59082699		2200	4300	6500	SO:0001583	missense	7593			M58297	CCDS12988.1, CCDS59427.1	19q13.43	2014-08-22	2006-06-15	2006-06-15	ENSG00000099326	ENSG00000099326		"-", "Zinc fingers, C2H2-type"	13108	protein-coding gene	gene with protein product		194550	"zinc finger protein 42 (myeloid-specific retinoic acid-responsive)"	ZNF42		1860835	Standard	NM_198055		Approved	ZSCAN6, MZF1B, MZF-1, Zfp98	uc002qtn.3	P28698	OTTHUMG00000183550	ENST00000215057.2:c.58G>A	19.37:g.59082699C>T	ENSP00000215057:p.Val20Ile	Somatic		WXS	Illumina HiSeq	Phase_I	M0QXU0|Q7Z729|Q96I71|Q9NRY0|Q9UBW2	Missense_Mutation	SNP	ENST00000215057.2	37	CCDS12988.1	.	.	.	.	.	.	.	.	.	.	.	9.755	1.168475	0.21621	.	.	ENSG00000099326	ENST00000215057	T	0.06768	3.26	4.06	-3.61	0.04556	.	0.426572	0.17300	N	0.179278	T	0.02848	0.0085	N	0.08118	0	0.09310	N	1	B;B	0.06786	0.001;0.0	B;B	0.08055	0.003;0.001	T	0.42032	-0.9475	9	.	.	.	-14.6825	5.3908	0.16244	0.0:0.4053:0.1456:0.4491	.	20;20	Q7Z729;P28698	.;MZF1_HUMAN	I	20	ENSP00000215057:V20I	.	V	-	1	0	MZF1	63774511	0.000000	0.05858	0.000000	0.03702	0.004000	0.04260	-0.161000	0.10026	-0.559000	0.06110	-0.878000	0.02970	GTC		0.627	MZF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467112.1	NM_198055		T	59082699	C	T	59082699	3	4	613	1	0	0	0	0	1	0	0	0	10115	478	17	2	2166	2	MZF1	19	59082699	Missense_Mutation	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10	7497794	59082699	46284	59	37405										
SALL4	57167	bcgsc.ca	37	chr20	50406632	50406632	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	cgggagactttgacttgatgCtttcggcttgactattggcc	12	9	0	4			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr20:50406632C>T	ENST00000217086.4	-	2	2501	c.2390G>A	c.(2389-2391)aGc>aAc	p.S797N	SALL4_ENST00000395997.3_Intron|SALL4_ENST00000483130.1_5'Flank|SALL4_ENST00000371539.3_Intron	NM_020436.3	NP_065169.1	Q9UJQ4	SALL4_HUMAN	spalt-like transcription factor 4	797					embryonic limb morphogenesis (GO:0030326)|inner cell mass cell proliferation (GO:0001833)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neural tube closure (GO:0001843)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|stem cell maintenance (GO:0019827)|transcription, DNA-templated (GO:0006351)|ventricular septum development (GO:0003281)	cytoplasm (GO:0005737)|heterochromatin (GO:0000792)|nucleus (GO:0005634)|protein complex (GO:0043234)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(27)|ovary(5)|prostate(2)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	63						TGACTTGATGCTTTCGGCTTG	0.527																																																0													80	78	79					20																	50406632		2203	4300	6503	SO:0001583	missense	57167			AK001666	CCDS13438.1	20q13.2	2014-09-17	2013-10-17		ENSG00000101115	ENSG00000101115		"Zinc fingers, C2H2-type"	15924	protein-coding gene	gene with protein product		607343	"sal (Drosophila)-like 4", "sal-like 4 (Drosophila)"				Standard	NM_020436		Approved	dJ1112F19.1, ZNF797	uc002xwh.4	Q9UJQ4	OTTHUMG00000032752	ENST00000217086.4:c.2390G>A	20.37:g.50406632C>T	ENSP00000217086:p.Ser797Asn	Somatic		WXS	Illumina HiSeq	Phase_1	A2A2D8|Q540H3|Q6Y8G6	Missense_Mutation	SNP	ENST00000217086.4	37	CCDS13438.1	.	.	.	.	.	.	.	.	.	.	C	12.86	2.064014	0.36373	.	.	ENSG00000101115	ENST00000217086	T	0.10005	2.92	5.67	5.67	0.87782	.	0.000000	0.50627	D	0.000108	T	0.31513	0.0799	M	0.75777	2.31	0.80722	D	1	D	0.69078	0.997	P	0.60789	0.879	T	0.00950	-1.1503	10	0.27785	T	0.31	-29.5056	19.7711	0.96366	0.0:1.0:0.0:0.0	.	797	Q9UJQ4	SALL4_HUMAN	N	797	ENSP00000217086:S797N	ENSP00000217086:S797N	S	-	2	0	SALL4	49840039	0.910000	0.30920	0.792000	0.32020	0.831000	0.47069	1.873000	0.39558	2.654000	0.90174	0.655000	0.94253	AGC		0.527	SALL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079738.3			T	50406632	C	T	50406632	3	4	613	1	0	0	0	0	1	0	0	0	13826	797	28	2	783	2	SALL4	20	50406632	Missense_Mutation	SNP	C	TCGA-IA-A40U-01A-11D-A25F-10		50406632	12618888	60	37406										
TAB1	10454	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	39814795	39814795	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.05	3	1	0.943829787234043	1.96631205673759	0.749071259709558	1	1	0	gggttgcaggtgacacagctGaacgtggaccacaccacaga	13	11	0	3			TCGA-IA-A40U-01A-11D-A25F-10	TCGA-IA-A40U-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dd80d4b5-7825-4f99-b2e2-2559763b8661	384b9f8f-9231-4ab8-b556-8083ee51d965	g.chr22:39814795G>A	ENST00000216160.6	+	6	671	c.609G>A	c.(607-609)ctG>ctA	p.L203L	TAB1_ENST00000331454.3_Silent_p.L203L	NM_006116.2	NP_006107.1	Q15750	TAB1_HUMAN	TGF-beta activated kinase 1/MAP3K7 binding protein 1	203	PP2C-like.				activation of MAPK activity (GO:0000187)|activation of MAPKKK activity (GO:0000185)|Fc-epsilon receptor signaling pathway (GO:0038095)|heart morphogenesis (GO:0003007)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|in utero embryonic development (GO:0001701)|innate immune response (GO:0045087)|JNK cascade (GO:0007254)|lung development (GO:0030324)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transforming growth factor beta receptor signaling pathway (GO:0007179)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome membrane (GO:0010008)|nucleus (GO:0005634)|protein complex (GO:0043234)	catalytic activity (GO:0003824)|enzyme activator activity (GO:0008047)|kinase activator activity (GO:0019209)			breast(1)|endometrium(2)|large_intestine(2)|lung(8)|urinary_tract(1)	14						TGACACAGCTGAACGTGGACC	0.537																																																0													164	122	136					22																	39814795		2203	4300	6503	SO:0001819	synonymous_variant	10454			U49928	CCDS13992.1, CCDS13993.1	22q13.1	2010-02-05	2010-02-05	2010-02-05	ENSG00000100324	ENSG00000100324			18157	protein-coding gene	gene with protein product	"TAK1-binding protein 1", "mitogen-activated protein kinase kinase kinase 7 interacting protein 1"	602615	"mitogen-activated protein kinase kinase kinase 7 interacting protein 1"	MAP3K7IP1		8638164, 10187861	Standard	NM_153497		Approved		uc003axt.3	Q15750	OTTHUMG00000151102	ENST00000216160.6:c.609G>A	22.37:g.39814795G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2PP09|Q8IZW2	Silent	SNP	ENST00000216160.6	37	CCDS13993.1																																																																																				0.537	TAB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321313.1	NM_153497		A	39814795	G	A	39814795	2	1	613	1	0	0	0	0	0	0	0	1	15507	1277	45	2		2	TAB1	22	39814795	Silent	SNP	G	TCGA-IA-A40U-01A-11D-A25F-10		39814795	11489771	61	37407										
LRRC8B	23507	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	90048545	90048545	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	gatgccgtctgttacgagaaAcagctccattggtttgcaaa	10	9	1	1			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr1:90048545A>G	ENST00000330947.2	+	5	696	c.336A>G	c.(334-336)aaA>aaG	p.K112K	LRRC8B_ENST00000358200.4_Silent_p.K112K|RP5-1007M22.2_ENST00000443562.1_RNA|LRRC8B_ENST00000439853.1_Silent_p.K112K	NM_001134476.1	NP_001127948.1	Q6P9F7	LRC8B_HUMAN	leucine rich repeat containing 8 family, member B	112					ion transport (GO:0006811)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(1)|central_nervous_system(1)|endometrium(6)|kidney(5)|large_intestine(2)|lung(5)|ovary(2)|prostate(2)|skin(1)|urinary_tract(1)	26		all_lung(203;0.17)		all cancers(265;0.00515)|Epithelial(280;0.0241)		GTTACGAGAAACAGCTCCATT	0.512																																																0													158	154	155					1																	90048545		2203	4300	6503	SO:0001819	synonymous_variant	23507			AF385436	CCDS724.1	1p22.2	2008-02-05			ENSG00000197147	ENSG00000197147			30692	protein-coding gene	gene with protein product	"T cell activation leucine repeat rich protein"	612888				9039502	Standard	NM_015350		Approved	TA-LRRP, KIAA0231	uc001dni.3	Q6P9F7	OTTHUMG00000010129	ENST00000330947.2:c.336A>G	1.37:g.90048545A>G		Somatic		WXS	Illumina HiSeq	Phase_I	D3DT28|Q6UY21|Q8N106|Q92627	Silent	SNP	ENST00000330947.2	37	CCDS724.1																																																																																				0.512	LRRC8B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000028008.1	NM_015350		G	90048545	A	G	90048545	2	3	614	1	0	0	0	0	0	0	0	1	9029	40	2	3		3	LRRC8B	1	90048545	Silent	SNP	A	TCGA-IA-A40X-01A-11D-A25F-10		90048545	159202076	1	37408										
OTX1	5013	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	63282730	63282730	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	caagaagaagtcctctccagTgcgggagagctcgggctccg	14	12	1	3			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr2:63282730T>A	ENST00000282549.2	+	5	620	c.344T>A	c.(343-345)gTg>gAg	p.V115E	OTX1_ENST00000366671.3_Missense_Mutation_p.V115E	NM_014562.3	NP_055377.1	P32242	OTX1_HUMAN	orthodenticle homeobox 1	115					anterior/posterior pattern specification (GO:0009952)|diencephalon morphogenesis (GO:0048852)|inner ear morphogenesis (GO:0042472)|metencephalon development (GO:0022037)|midbrain development (GO:0030901)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			endometrium(1)|kidney(2)|large_intestine(6)|lung(6)|pancreas(2)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	20	Lung NSC(7;0.121)|all_lung(7;0.211)					TCCTCTCCAGTGCGGGAGAGC	0.647																																																0													37	38	38					2																	63282730		2203	4300	6503	SO:0001583	missense	5013				CCDS1873.1	2p15	2011-06-20	2007-02-15		ENSG00000115507	ENSG00000115507		"Homeoboxes / PRD class"	8521	protein-coding gene	gene with protein product		600036	"orthodenticle (Drosophila) homolog 1", "orthodenticle homolog 1 (Drosophila)"			7959790	Standard	NM_001199770		Approved		uc002scd.3	P32242	OTTHUMG00000129454	ENST00000282549.2:c.344T>A	2.37:g.63282730T>A	ENSP00000282549:p.Val115Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHA2|B3KTJ4|Q53TG6	Missense_Mutation	SNP	ENST00000282549.2	37	CCDS1873.1	.	.	.	.	.	.	.	.	.	.	T	17.88	3.497563	0.64186	.	.	ENSG00000115507	ENST00000366671;ENST00000282549	D;D	0.90385	-2.66;-2.66	3.69	2.55	0.30701	.	0.158837	0.42053	D	0.000765	T	0.79411	0.4441	N	0.19112	0.55	0.41015	D	0.985031	P	0.45531	0.86	P	0.45232	0.474	T	0.76572	-0.2910	10	0.06757	T	0.87	.	3.9166	0.09225	0.0:0.3229:0.0:0.6771	.	115	P32242	OTX1_HUMAN	E	115	ENSP00000355631:V115E;ENSP00000282549:V115E	ENSP00000282549:V115E	V	+	2	0	OTX1	63136234	0.998000	0.40836	1.000000	0.80357	0.945000	0.59286	3.890000	0.56220	1.676000	0.50930	0.460000	0.39030	GTG		0.647	OTX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251617.1			A	63282730	T	A	63282730	3	1	614	1	0	0	0	0	1	0	0	0	11327	1696	59	5	354	5	OTX1	2	63282730	Missense_Mutation	SNP	T	TCGA-IA-A40X-01A-11D-A25F-10		63282730	179916643	2	37409										
PNO1	56902	bcgsc.ca	37	chr2	68388842	68388842	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	aagaaaccaaggatgttagtGctctgacaaaagcagctgat	10	7	1	3	rs528399980		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr2:68388842G>T	ENST00000263657.2	+	3	476	c.385G>T	c.(385-387)Gct>Tct	p.A129S	RP11-474G23.1_ENST00000406334.3_Intron	NM_020143.2	NP_064528.1	Q9NRX1	PNO1_HUMAN	partner of NOB1 homolog (S. cerevisiae)	129						nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			endometrium(1)|large_intestine(1)|lung(2)	4						GGATGTTAGTGCTCTGACAAA	0.338													G|||	1	0.000199681	0.0	0.0	5008	,	,		19513	0.0		0.0	False		,,,				2504	0.001				NSCLC(83;642 1410 13044 32832 40058)											0													106	110	108					2																	68388842		2203	4300	6503	SO:0001583	missense	56902			AF164799	CCDS1885.1	2p14	2010-07-06			ENSG00000115946	ENSG00000115946			32790	protein-coding gene	gene with protein product	"RNA binding protein"		"KH-type RNA binding protein 1", "KH-type RNA-binding protein 1"	KHRBP1		15497447	Standard	NM_020143		Approved	RRP20	uc002seh.3	Q9NRX1	OTTHUMG00000129563	ENST00000263657.2:c.385G>T	2.37:g.68388842G>T	ENSP00000263657:p.Ala129Ser	Somatic		WXS	Illumina HiSeq	Phase_1	A8K6Q0|Q53G13|Q8WVB8	Missense_Mutation	SNP	ENST00000263657.2	37	CCDS1885.1	.	.	.	.	.	.	.	.	.	.	G	16.09	3.023360	0.54683	.	.	ENSG00000115946	ENST00000263657	T	0.41400	1.0	6.02	5.12	0.69794	.	0.100235	0.64402	N	0.000002	T	0.34919	0.0914	L	0.35487	1.065	0.58432	D	0.999999	B	0.12630	0.006	B	0.13407	0.009	T	0.06110	-1.0845	10	0.30078	T	0.28	1.5014	16.5765	0.84681	0.0:0.0:0.8687:0.1313	.	129	Q9NRX1	PNO1_HUMAN	S	129	ENSP00000263657:A129S	ENSP00000263657:A129S	A	+	1	0	PNO1	68242346	1.000000	0.71417	0.998000	0.56505	0.998000	0.95712	4.568000	0.60857	1.511000	0.48818	0.650000	0.86243	GCT		0.338	PNO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251756.1	NM_020143		T	68388842	G	T	68388842	3	4	614	1	0	0	0	0	1	0	0	0	12168	1319	46	4	395	4	PNO1	2	68388842	Missense_Mutation	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10	5106112	68388842	174810531	3	37410										
KCNJ3	3760	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	155555531	155555531	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	tggtggacctcaagtggcgcTggaacctcttcatcttcatt	10	11	5	0			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr2:155555531T>C	ENST00000295101.2	+	1	721	c.244T>C	c.(244-246)Tgg>Cgg	p.W82R	AC061961.2_ENST00000443901.1_RNA|KCNJ3_ENST00000544049.1_Missense_Mutation_p.W82R	NM_001260509.1|NM_002239.3	NP_001247438.1|NP_002230.1	P48549	KCNJ3_HUMAN	potassium inwardly-rectifying channel, subfamily J, member 3	82					potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|response to electrical stimulus (GO:0051602)|synaptic transmission (GO:0007268)	external side of plasma membrane (GO:0009897)|plasma membrane (GO:0005886)|T-tubule (GO:0030315)|voltage-gated potassium channel complex (GO:0008076)	G-protein activated inward rectifier potassium channel activity (GO:0015467)			breast(2)|endometrium(2)|kidney(3)|large_intestine(9)|lung(30)|pancreas(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	54					Halothane(DB01159)	CAAGTGGCGCTGGAACCTCTT	0.592																																																0													147	139	142					2																	155555531		2203	4300	6503	SO:0001583	missense	3760			U50964	CCDS2200.1, CCDS58733.1	2q24.1	2011-07-05			ENSG00000162989	ENSG00000162989		"Potassium channels", "Voltage-gated ion channels / Potassium channels, Inwardly rectifying"	6264	protein-coding gene	gene with protein product		601534				8088798, 16382105	Standard	NM_002239		Approved	Kir3.1, GIRK1, KGA	uc002tyv.2	P48549	OTTHUMG00000131937	ENST00000295101.2:c.244T>C	2.37:g.155555531T>C	ENSP00000295101:p.Trp82Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DEW7|Q8TBI0	Missense_Mutation	SNP	ENST00000295101.2	37	CCDS2200.1	.	.	.	.	.	.	.	.	.	.	T	18.26	3.585481	0.66105	.	.	ENSG00000162989	ENST00000295101;ENST00000544049	D;D	0.94184	-3.37;-3.37	5.16	5.16	0.70880	Potassium channel, inwardly rectifying, Kir, conserved region 2 (2);	0.063086	0.64402	D	0.000001	D	0.95717	0.8607	M	0.73430	2.235	0.80722	D	1	D;D	0.54207	0.965;0.965	P;P	0.60886	0.88;0.879	D	0.96140	0.9099	10	0.87932	D	0	.	13.8034	0.63216	0.0:0.0:0.0:1.0	.	82;82	B4DEW7;P48549	.;IRK3_HUMAN	R	82	ENSP00000295101:W82R;ENSP00000438410:W82R	ENSP00000295101:W82R	W	+	1	0	KCNJ3	155263777	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.981000	0.88123	1.946000	0.56461	0.454000	0.30748	TGG		0.592	KCNJ3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254890.2	NM_002239		C	155555531	T	C	155555531	3	2	614	1	0	0	0	0	1	0	0	0	8059	1580	55	3	246	3	KCNJ3	2	155555531	Missense_Mutation	SNP	T	TCGA-IA-A40X-01A-11D-A25F-10	87166689	155555531	87643842	4	37411										
TTN	7273	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr2	179615958	179615958	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	cttgagcttatttcagaagaCgtatctaaaagagataattt	7	5	2	4	rs145004106	byFrequency	TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr2:179615958C>T	ENST00000591111.1	-	45	10585				TTN_ENST00000342175.6_Intron|TTN_ENST00000342992.6_Intron|TTN_ENST00000359218.5_Intron|TTN_ENST00000460472.2_Intron|TTN_ENST00000360870.5_Silent_p.T3723T|TTN_ENST00000589042.1_Intron|TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000590773.1_RNA|TTN-AS1_ENST00000578746.1_RNA			Q8WZ42	TITIN_HUMAN	titin						adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTCAGAAGACGTATCTAAAA	0.358													C|||	2	0.000399361	0.0008	0.0	5008	,	,		20087	0.001		0.0	False		,,,				2504	0.0															0								C	,,,,	1,4403	2.1+/-5.4	0,1,2201	61	60	60		,,11169,,	-1.5	0	2	dbSNP_134	60	1,8593	1.2+/-3.3	0,1,4296	no	intron,intron,coding-synonymous,intron,intron	TTN	NM_003319.4,NM_133378.4,NM_133379.3,NM_133432.3,NM_133437.3	,,,,	0,2,6497	TT,TC,CC		0.0116,0.0227,0.0154	,,,,	,,3723/5605,,	179615958	2,12996	2202	4297	6499	SO:0001627	intron_variant	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.10360+1892G>A	2.37:g.179615958C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Silent	SNP	ENST00000591111.1	37																																																																																					0.358	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		T	179615958	C	T	179615958	1	4	614	0	1	0	0	0	0	0	0	0	16747	523	19	1		1	TTN	2	179615958	Intron	SNP	C	TCGA-IA-A40X-01A-11D-A25F-10	24060427	179615958	63583415	5	37412										
SLC11A1	6556	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	219249037	219249037	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	atgagcattgctttcctggaCccaggaaacatcgagtcaga	10	10	1	2			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr2:219249037C>A	ENST00000233202.6	+	3	562	c.222C>A	c.(220-222)gaC>gaA	p.D74E	SLC11A1_ENST00000473367.1_Intron|SLC11A1_ENST00000539932.1_5'UTR	NM_000578.3	NP_000569.3	P49279	NRAM1_HUMAN	solute carrier family 11 (proton-coupled divalent metal ion transporter), member 1	74	Pro/Ser-rich.				activation of protein kinase activity (GO:0032147)|antigen processing and presentation of peptide antigen (GO:0048002)|cadmium ion transmembrane transport (GO:0070574)|cellular cadmium ion homeostasis (GO:0006876)|cellular iron ion homeostasis (GO:0006879)|defense response to bacterium (GO:0042742)|defense response to Gram-negative bacterium (GO:0050829)|defense response to protozoan (GO:0042832)|divalent metal ion export (GO:0070839)|inflammatory response (GO:0006954)|interaction with host (GO:0051701)|interleukin-2 production (GO:0032623)|interleukin-3 production (GO:0032632)|iron ion homeostasis (GO:0055072)|iron ion transport (GO:0006826)|L-arginine import (GO:0043091)|macrophage activation (GO:0042116)|manganese ion transport (GO:0006828)|MHC class II biosynthetic process (GO:0045342)|mRNA stabilization (GO:0048255)|multicellular organismal iron ion homeostasis (GO:0060586)|negative regulation of cytokine production (GO:0001818)|nitrite transport (GO:0015707)|phagocytosis (GO:0006909)|phagosome maturation (GO:0090382)|positive regulation of cytokine production (GO:0001819)|positive regulation of dendritic cell antigen processing and presentation (GO:0002606)|positive regulation of gene expression (GO:0010628)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of phagocytosis (GO:0050766)|positive regulation of T-helper 1 type immune response (GO:0002827)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein import into nucleus, translocation (GO:0000060)|respiratory burst (GO:0045730)|response to bacterium (GO:0009617)|response to interferon-gamma (GO:0034341)|response to lipopolysaccharide (GO:0032496)|T cell cytokine production (GO:0002369)|T cell proliferation involved in immune response (GO:0002309)|transmembrane transport (GO:0055085)|vacuolar acidification (GO:0007035)|wound healing (GO:0042060)	cell outer membrane (GO:0009279)|integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|late endosome membrane (GO:0031902)|lysosome (GO:0005764)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)|tertiary granule membrane (GO:0070821)	manganese ion transmembrane transporter activity (GO:0005384)|metal ion:proton antiporter activity (GO:0051139)|protein homodimerization activity (GO:0042803)|transition metal ion transmembrane transporter activity (GO:0046915)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(3)|ovary(3)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	19		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)		CTTTCCTGGACCCAGGAAACA	0.592																																																0													116	112	113					2																	219249037		2203	4300	6503	SO:0001583	missense	6556			D38171	CCDS2415.1	2q35	2013-07-18	2013-07-18		ENSG00000018280	ENSG00000018280		"Solute carriers"	10907	protein-coding gene	gene with protein product	"natural resistance-associated macrophage protein 1"	600266		LSH, NRAMP, NRAMP1		7964458, 7980580	Standard	NM_000578		Approved		uc002vhv.3	P49279	OTTHUMG00000086747	ENST00000233202.6:c.222C>A	2.37:g.219249037C>A	ENSP00000233202:p.Asp74Glu	Somatic		WXS	Illumina HiSeq	Phase_I	C0H5Y3	Missense_Mutation	SNP	ENST00000233202.6	37	CCDS2415.1	.	.	.	.	.	.	.	.	.	.	C	20.8	4.050694	0.75960	.	.	ENSG00000018280	ENST00000233202	T	0.56103	0.48	5.06	0.964	0.19655	.	0.000000	0.85682	D	0.000000	T	0.78710	0.4326	H	0.97214	3.96	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.999	T	0.80641	-0.1292	10	0.87932	D	0	-45.4925	9.4926	0.38969	0.0:0.6108:0.0:0.3892	.	74;74;74	Q9HBK0;B4DQ73;P49279	.;.;NRAM1_HUMAN	E	74	ENSP00000233202:D74E	ENSP00000233202:D74E	D	+	3	2	SLC11A1	218957281	0.998000	0.40836	1.000000	0.80357	0.996000	0.88848	0.564000	0.23563	0.306000	0.22856	0.561000	0.74099	GAC		0.592	SLC11A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195076.2	NM_000578		A	219249037	C	A	219249037	3	1	614	1	0	0	0	0	1	0	0	0	14393	506	18	4	232	4	SLC11A1	2	219249037	Missense_Mutation	SNP	C	TCGA-IA-A40X-01A-11D-A25F-10	39633079	219249037	23950336	6	37413										
CRBN	51185	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	3209472	3209472	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	gaatttgcactttagcttgcTggattctaaaataaagagaa	8	5	1	1			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr3:3209472T>G	ENST00000231948.4	-	5	555	c.533A>C	c.(532-534)cAg>cCg	p.Q178P	CRBN_ENST00000432408.2_Missense_Mutation_p.Q177P	NM_016302.3	NP_057386.2	Q96SW2	CRBN_HUMAN	cereblon	178	Lon.				negative regulation of ion transmembrane transport (GO:0034766)|negative regulation of protein homooligomerization (GO:0032463)|positive regulation of protein homodimerization activity (GO:0090073)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein ubiquitination (GO:0016567)	Cul4A-RING E3 ubiquitin ligase complex (GO:0031464)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP-dependent peptidase activity (GO:0004176)			endometrium(1)|kidney(1)|large_intestine(4)|lung(1)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	11				Epithelial(13;0.00244)|OV - Ovarian serous cystadenocarcinoma(96;0.00617)|all cancers(10;0.0079)	Lenalidomide(DB00480)|Pomalidomide(DB08910)|Thalidomide(DB01041)	TTTAGCTTGCTGGATTCTAAA	0.333																																																0													90	89	89					3																	3209472		2203	4300	6503	SO:0001583	missense	51185			BC017419	CCDS2562.1, CCDS54547.1	3p26.3	2014-05-27			ENSG00000113851	ENSG00000113851			30185	protein-coding gene	gene with protein product		609262	"mental retardation, non-syndromic, autosomal recessive, 2A"	MRT2A		15557513	Standard	NM_016302		Approved	MRT2	uc003bpq.3	Q96SW2	OTTHUMG00000090261	ENST00000231948.4:c.533A>C	3.37:g.3209472T>G	ENSP00000231948:p.Gln178Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6H4|C9IZA9|C9JAH6|Q6AI62|Q6NVZ0|Q9UHW4	Missense_Mutation	SNP	ENST00000231948.4	37	CCDS2562.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	13.59|13.59	2.282820|2.282820	0.40394|0.40394	.|.	.|.	ENSG00000113851|ENSG00000113851	ENST00000231948;ENST00000432408;ENST00000546075|ENST00000424814;ENST00000450014	T;T|.	0.40225|.	1.04;1.04|.	5.1|5.1	5.1|5.1	0.69264|0.69264	Peptidase S16, lon N-terminal (2);PUA-like domain (1);|.	0.056186|.	0.64402|.	D|.	0.000001|.	T|T	0.38931|0.38931	0.1059|0.1059	N|N	0.08118|0.08118	0|0	0.54753|0.54753	D|D	0.999981|0.999981	B;B;B|.	0.06786|.	0.001;0.0;0.001|.	B;B;B|.	0.08055|.	0.003;0.002;0.003|.	T|T	0.31779|0.31779	-0.9931|-0.9931	10|5	0.29301|.	T|.	0.29|.	-13.9919|-13.9919	15.19|15.19	0.73035|0.73035	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	115;177;178|.	F5H3U1;Q96SW2-2;Q96SW2|.	.;.;CRBN_HUMAN|.	P|R	178;177;115|174	ENSP00000231948:Q178P;ENSP00000412499:Q177P|.	ENSP00000231948:Q178P|.	Q|S	-|-	2|1	0|0	CRBN|CRBN	3184472|3184472	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	3.567000|3.567000	0.53813|0.53813	2.045000|2.045000	0.60652|0.60652	0.533000|0.533000	0.62120|0.62120	CAG|AGC		0.333	CRBN-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000206579.3	NM_016302		G	3209472	T	G	3209472	3	3	614	1	0	0	0	0	1	0	0	0	3853	1580	55	5	823	5	CRBN	3	3209472	Missense_Mutation	SNP	T	TCGA-IA-A40X-01A-11D-A25F-10		3209472	194812958	7	37414										
ACVR2B	93	broad.mit.edu	37	chr3	38519723	38519723	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	ggcctttccctcatcgtcctGctggccttttggatgtaccg	10	14	1	0			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr3:38519723G>A	ENST00000352511.4	+	4	934	c.462G>A	c.(460-462)ctG>ctA	p.L154L		NM_001106.3	NP_001097.2	Q13705	AVR2B_HUMAN	activin A receptor, type IIB	154					activation of protein kinase activity (GO:0032147)|activin receptor signaling pathway (GO:0032924)|anterior/posterior pattern specification (GO:0009952)|artery development (GO:0060840)|blood vessel remodeling (GO:0001974)|BMP signaling pathway (GO:0030509)|determination of left/right symmetry (GO:0007368)|embryonic foregut morphogenesis (GO:0048617)|gastrulation with mouth forming second (GO:0001702)|heart development (GO:0007507)|insulin secretion (GO:0030073)|kidney development (GO:0001822)|lung development (GO:0030324)|lymphangiogenesis (GO:0001946)|lymphatic endothelial cell differentiation (GO:0060836)|mesoderm development (GO:0007498)|odontogenesis of dentin-containing tooth (GO:0042475)|organ growth (GO:0035265)|palate development (GO:0060021)|pancreas development (GO:0031016)|positive regulation of activin receptor signaling pathway (GO:0032927)|positive regulation of bone mineralization (GO:0030501)|positive regulation of osteoblast differentiation (GO:0045669)|post-embryonic development (GO:0009791)|regulation of transcription, DNA-templated (GO:0006355)|response to glucose (GO:0009749)|retina vasculature development in camera-type eye (GO:0061298)|signal transduction (GO:0007165)|skeletal system morphogenesis (GO:0048705)|transmembrane receptor protein serine/threonine kinase signaling pathway (GO:0007178)|venous blood vessel development (GO:0060841)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	ATP binding (GO:0005524)|growth factor binding (GO:0019838)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|receptor signaling protein serine/threonine kinase activity (GO:0004702)|transforming growth factor beta-activated receptor activity (GO:0005024)			lung(1)	1	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0565)|Kidney(284;0.071)		TCATCGTCCTGCTGGCCTTTT	0.642																																																0													70	70	70					3																	38519723		2203	4300	6503	SO:0001819	synonymous_variant	93			X77533	CCDS2679.1	3p22	2006-11-06			ENSG00000114739	ENSG00000114739			174	protein-coding gene	gene with protein product		602730				8161782, 9621519	Standard	NM_001106		Approved	ActR-IIB	uc003cif.3	Q13705	OTTHUMG00000131291	ENST00000352511.4:c.462G>A	3.37:g.38519723G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q4VAV0	Silent	SNP	ENST00000352511.4	37	CCDS2679.1																																																																																				0.642	ACVR2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254059.3	NM_001106		A	38519723	G	A	38519723	2	1	614	1	0	0	0	0	0	0	0	1	224	1306	46	2		2	ACVR2B	3	38519723	Silent	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10	35310251	38519723	159502707	8	37415										
KLHDC8B	200942	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	49212303	49212303	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	gcgccatggctgaaggcagcGtctttagcctgggtggcctg	16	11	1	1			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr3:49212303G>A	ENST00000332780.2	+	4	879	c.670G>A	c.(670-672)Gtc>Atc	p.V224I	KLHDC8B_ENST00000476495.2_3'UTR|C3orf84_ENST00000443990.1_5'Flank	NM_173546.2	NP_775817.1	Q8IXV7	KLD8B_HUMAN	kelch domain containing 8B	224						cytoplasm (GO:0005737)				endometrium(1)|kidney(1)|large_intestine(2)|lung(1)|skin(1)|stomach(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		TGAAGGCAGCGTCTTTAGCCT	0.592																																																0													50	51	51					3																	49212303		2203	4300	6503	SO:0001583	missense	200942				CCDS2791.1	3p21.31	2008-02-05			ENSG00000185909	ENSG00000185909			28557	protein-coding gene	gene with protein product		613169					Standard	NM_173546		Approved	MGC35097	uc003cwh.3	Q8IXV7	OTTHUMG00000156814	ENST00000332780.2:c.670G>A	3.37:g.49212303G>A	ENSP00000327468:p.Val224Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000332780.2	37	CCDS2791.1	.	.	.	.	.	.	.	.	.	.	G	10.82	1.459584	0.26248	.	.	ENSG00000185909	ENST00000332780	T	0.71222	-0.55	5.97	2.98	0.34508	Kelch-type beta propeller (1);	0.187468	0.46145	N	0.000320	T	0.44498	0.1296	N	0.12182	0.205	0.32968	D	0.521921	B;B	0.25272	0.103;0.122	B;B	0.16289	0.009;0.015	T	0.44590	-0.9318	10	0.14252	T	0.57	-25.1154	6.9162	0.24361	0.1603:0.0:0.608:0.2317	.	178;224	B4DFM2;Q8IXV7	.;KLD8B_HUMAN	I	224	ENSP00000327468:V224I	ENSP00000327468:V224I	V	+	1	0	KLHDC8B	49187307	0.897000	0.30589	0.786000	0.31890	0.987000	0.75469	1.471000	0.35365	0.874000	0.35823	0.655000	0.94253	GTC		0.592	KLHDC8B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345974.1	NM_173546		A	49212303	G	A	49212303	3	1	614	1	0	0	0	0	1	0	0	0	8370	1145	40	1	680	1	KLHDC8B	3	49212303	Missense_Mutation	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10	10692580	49212303	148810127	9	37416										
EPHA6	285220	broad.mit.edu	37	chr3	96533514	96533514	+	Frame_Shift_Del	DEL	A	A	-													0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	gaggagctccccggcgccgcAggcagcgtcctcctccgaag							TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr3:96533514delA	ENST00000389672.5	+	1	85	c.47delA	c.(46-48)cagfs	p.Q16fs	EPHA6_ENST00000470610.2_Frame_Shift_Del_p.Q16fs|EPHA6_ENST00000542517.1_5'Flank	NM_001080448.2	NP_001073917.2	Q9UF33	EPHA6_HUMAN	EPH receptor A6	0						integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ephrin receptor activity (GO:0005003)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(6)|liver(2)|lung(60)|ovary(3)|skin(11)|stomach(5)|upper_aerodigestive_tract(2)	101						CCGGCGCCGCAGGCAGCGTCC	0.711																																																0													17	21	20					3																	96533514		2057	4183	6240	SO:0001589	frameshift_variant	285220			AK092565	CCDS46876.1, CCDS54616.1, CCDS63697.1	3q12.1	2013-02-11	2004-10-28		ENSG00000080224	ENSG00000080224		"EPH receptors", "Sterile alpha motif (SAM) domain containing", "Fibronectin type III domain containing"	19296	protein-coding gene	gene with protein product		600066				12471243	Standard	NM_001080448		Approved	FLJ35246	uc010how.1	Q9UF33	OTTHUMG00000159208	ENST00000389672.5:c.47delA	3.37:g.96533514delA	ENSP00000374323:p.Gln16fs	Somatic		WXS	Illumina HiSeq	Phase_I	D6RAL5	Frame_Shift_Del	DEL	ENST00000389672.5	37	CCDS46876.1																																																																																				0.711	EPHA6-002	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353845.3	NM_001080448		-	96533514	A	-	96533514	7	5	614	1	0	1	0	1	0	0	0	0	5173	188	7	0	49	0	EPHA6	3	96533514	Frame_Shift_Del	DEL	A	TCGA-IA-A40X-01A-11D-A25F-10	47321211	96533514	101488916	10	37417										
CHRD	8646	bcgsc.ca	37	chr3	184106751	184106751	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	tggctcggggaaggagagtcGatgctgttcccgctgcacgg	17	10	0	1	rs200027250		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr3:184106751G>A	ENST00000204604.1	+	22	3026	c.2780G>A	c.(2779-2781)cGa>cAa	p.R927Q	CHRD_ENST00000545352.1_Missense_Mutation_p.R469Q|CHRD_ENST00000348986.3_Missense_Mutation_p.R887Q|EIF2B5_ENST00000444495.1_Intron|CHRD_ENST00000450923.1_Missense_Mutation_p.R927Q	NM_003741.2	NP_003732.2	Q9H2X0	CHRD_HUMAN	chordin	927	VWFC 4. {ECO:0000255|PROSITE- ProRule:PRU00220}.				BMP signaling pathway involved in spinal cord dorsal/ventral patterning (GO:0021919)|floor plate development (GO:0033504)|forebrain development (GO:0030900)|gastrulation with mouth forming second (GO:0001702)|mesoderm formation (GO:0001707)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of cell migration (GO:0030336)|negative regulation of osteoblast differentiation (GO:0045668)|osteoblast differentiation (GO:0001649)|positive regulation of cell adhesion (GO:0045785)|positive regulation of mesenchymal cell proliferation (GO:0002053)|skeletal system development (GO:0001501)	extracellular space (GO:0005615)	cytokine binding (GO:0019955)|heparin binding (GO:0008201)			NS(1)|biliary_tract(1)|breast(2)|endometrium(2)|kidney(3)|large_intestine(5)|lung(23)|ovary(2)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	48	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AAGGAGAGTCGATGCTGTTCC	0.622													G|||	1	0.000199681	0.0008	0.0	5008	,	,		16920	0.0		0.0	False		,,,				2504	0.0															0													93	78	83					3																	184106751		2203	4300	6503	SO:0001583	missense	8646			AF076612	CCDS3266.1	3q27	2008-07-18			ENSG00000090539	ENSG00000090539			1949	protein-coding gene	gene with protein product		603475				9782094, 11472837	Standard	NM_003741		Approved		uc003fov.3	Q9H2X0	OTTHUMG00000141267	ENST00000204604.1:c.2780G>A	3.37:g.184106751G>A	ENSP00000204604:p.Arg927Gln	Somatic		WXS	Illumina HiSeq	Phase_1	O95254|Q2M1I8|Q6UW83|Q9H2D3|Q9H2W8|Q9H2W9|Q9P0Z2|Q9P0Z3|Q9P0Z4|Q9P0Z5	Missense_Mutation	SNP	ENST00000204604.1	37	CCDS3266.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	G	16.82	3.229186	0.58777	.	.	ENSG00000090539	ENST00000204604;ENST00000450923;ENST00000348986;ENST00000545352	T;T;T;T	0.63580	-0.05;-0.05;-0.05;-0.05	4.93	3.09	0.35607	von Willebrand factor, type C (1);	0.295775	0.28109	N	0.016569	T	0.45518	0.1346	N	0.11064	0.09	0.18873	N	0.999989	P;D;P;D	0.67145	0.944;0.996;0.954;0.993	B;P;B;P	0.51385	0.201;0.668;0.262;0.57	T	0.30534	-0.9975	10	0.21540	T	0.41	-3.6881	6.6856	0.23144	0.098:0.18:0.722:0.0	.	469;887;927;927	B7Z6F4;Q9H2X0-5;E7ESX1;Q9H2X0	.;.;.;CHRD_HUMAN	Q	927;927;887;469	ENSP00000204604:R927Q;ENSP00000408972:R927Q;ENSP00000334036:R887Q;ENSP00000442948:R469Q	ENSP00000204604:R927Q	R	+	2	0	CHRD	185589445	0.823000	0.29233	0.936000	0.37596	0.526000	0.34562	2.487000	0.45268	0.456000	0.26937	0.655000	0.94253	CGA		0.622	CHRD-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000280432.1	NM_003741		A	184106751	G	A	184106751	3	1	614	1	0	0	0	0	1	0	0	0	3374	1058	37	1	2866	1	CHRD	3	184106751	Missense_Mutation	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10	87573237	184106751	13915679	11	37418										
MAML3	55534	hgsc.bcm.edu	37	chr4	140811102	140811102	+	Silent	SNP	C	C	T													0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	tgctgctgctgctgctgctgCtgctgctgctgctgctgctg							TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr4:140811102C>T	ENST00000509479.2	-	2	2344	c.1488G>A	c.(1486-1488)caG>caA	p.Q496Q	MAML3_ENST00000398940.1_Silent_p.Q35Q|MAML3_ENST00000327122.5_Silent_p.Q340Q	NM_018717.4	NP_061187			mastermind-like 3 (Drosophila)											breast(1)|endometrium(7)|kidney(2)|large_intestine(1)|lung(9)|ovary(1)|prostate(2)|urinary_tract(2)	25	all_hematologic(180;0.162)					gctgctgctgctgctgctgct	0.542																																																0													13	19	17					4																	140811102		2124	4242	6366	SO:0001819	synonymous_variant	55534			AB058719	CCDS54805.1	4q31.1	2014-08-12	2003-09-24		ENSG00000196782	ENSG00000196782			16272	protein-coding gene	gene with protein product	"mastermind (drosophila)-like 3"	608991	"trinucleotide repeat containing 3"	TNRC3		12370315, 12386158	Standard	NM_018717		Approved	KIAA1816, MAM2, CAGH3, GDN	uc021xsg.1	Q96JK9	OTTHUMG00000161441	ENST00000509479.2:c.1488G>A	4.37:g.140811102C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000509479.2	37	CCDS54805.1																																																																																				0.542	MAML3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364934.2			T	140811102	C	T	140811102	2	4	614	1	0	0	0	0	0	0	0	1	9214	796	28	2		2	MAML3	4	140811102	Silent	SNP	C	TCGA-IA-A40X-01A-11D-A25F-10		140811102	50343174	12	37419	290	2								
MAML3	55534	hgsc.bcm.edu	37	chr4	140811104	140811104	+	Missense_Mutation	SNP	G	G	T													0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	ctgctgctgctgctgctgctGctgctgctgctgctgctgtt							TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr4:140811104G>T	ENST00000509479.2	-	2	2342	c.1486C>A	c.(1486-1488)Cag>Aag	p.Q496K	MAML3_ENST00000398940.1_Missense_Mutation_p.Q35K|MAML3_ENST00000327122.5_Missense_Mutation_p.Q340K	NM_018717.4	NP_061187			mastermind-like 3 (Drosophila)											breast(1)|endometrium(7)|kidney(2)|large_intestine(1)|lung(9)|ovary(1)|prostate(2)|urinary_tract(2)	25	all_hematologic(180;0.162)					tgctgctgctgctgctgctgc	0.542																																																0													13	18	17					4																	140811104		2145	4254	6399	SO:0001583	missense	55534			AB058719	CCDS54805.1	4q31.1	2014-08-12	2003-09-24		ENSG00000196782	ENSG00000196782			16272	protein-coding gene	gene with protein product	"mastermind (drosophila)-like 3"	608991	"trinucleotide repeat containing 3"	TNRC3		12370315, 12386158	Standard	NM_018717		Approved	KIAA1816, MAM2, CAGH3, GDN	uc021xsg.1	Q96JK9	OTTHUMG00000161441	ENST00000509479.2:c.1486C>A	4.37:g.140811104G>T	ENSP00000421180:p.Gln496Lys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000509479.2	37	CCDS54805.1	.	.	.	.	.	.	.	.	.	.	g	6.502	0.460780	0.12342	.	.	ENSG00000196782	ENST00000509479;ENST00000327122;ENST00000398940	T;T	0.64260	0.89;-0.09	4.53	4.53	0.55603	.	0.116387	0.37577	N	0.002035	T	0.39937	0.1097	N	0.08118	0	0.32507	N	0.538137	B	0.22276	0.067	B	0.19391	0.025	T	0.35025	-0.9805	10	0.06494	T	0.89	.	17.2683	0.87093	0.0:0.0:1.0:0.0	.	496	Q96JK9	MAML3_HUMAN	K	496;340;35	ENSP00000421180:Q496K;ENSP00000313316:Q340K	ENSP00000313316:Q340K	Q	-	1	0	MAML3	141030554	0.998000	0.40836	0.988000	0.46212	0.665000	0.39181	0.180000	0.16860	2.038000	0.60285	0.455000	0.32223	CAG		0.542	MAML3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364934.2			T	140811104	G	T	140811104	3	4	614	1	0	0	0	0	1	0	0	0	9214	1328	46	4	1938	4	MAML3	4	140811104	Missense_Mutation	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10	2	140811104	50343172	13	37420	290	2								
SLC6A19	340024	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	1219218	1219218	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	aagtggcccaaggaggtgctCacaggtacgtgtgcagtcgg	16	9	1	0			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr5:1219218C>T	ENST00000304460.10	+	9	1430	c.1374C>T	c.(1372-1374)ctC>ctT	p.L458L		NM_001003841.2	NP_001003841.1	Q695T7	S6A19_HUMAN	solute carrier family 6 (neutral amino acid transporter), member 19	458					amino acid transport (GO:0006865)|ion transport (GO:0006811)|response to nutrient (GO:0007584)|transmembrane transport (GO:0055085)	brush border membrane (GO:0031526)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	neurotransmitter:sodium symporter activity (GO:0005328)|neutral amino acid transmembrane transporter activity (GO:0015175)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|lung(25)|prostate(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	44	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)			AGGAGGTGCTCACAGGTACGT	0.642																																																0													117	100	106					5																	1219218		2201	4298	6499	SO:0001819	synonymous_variant	340024			AK096054	CCDS34130.1	5p15	2013-07-19			ENSG00000174358	ENSG00000174358		"Solute carriers"	27960	protein-coding gene	gene with protein product	"Hartnup disease"	608893					Standard	NM_001003841		Approved		uc003jbw.4	Q695T7	OTTHUMG00000161636	ENST00000304460.10:c.1374C>T	5.37:g.1219218C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K446	Silent	SNP	ENST00000304460.10	37	CCDS34130.1																																																																																				0.642	SLC6A19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365557.1	XM_291120		T	1219218	C	T	1219218	2	4	614	1	0	0	0	0	0	0	0	1	14695	813	29	2		2	SLC6A19	5	1219218	Silent	SNP	C	TCGA-IA-A40X-01A-11D-A25F-10		1219218	179696042	14	37421										
LYRM4	57128	hgsc.bcm.edu	37	chr6	5260906	5260906	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	attgtaggcgctgaaacgctTgctctctctcagcatcgccc	9	14	2	1			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr6:5260906T>A	ENST00000330636.4	-	1	266	c.61A>T	c.(61-63)Aag>Tag	p.K21*	LYRM4_ENST00000464010.1_Nonsense_Mutation_p.K21*|LYRM4_ENST00000468929.1_Nonsense_Mutation_p.K21*|LYRM4_ENST00000500576.2_Nonsense_Mutation_p.K21*|LYRM4_ENST00000480566.1_Nonsense_Mutation_p.K21*|FARS2_ENST00000324331.6_5'Flank|FARS2_ENST00000274680.4_5'Flank	NM_020408.4	NP_065141.3	Q9HD34	LYRM4_HUMAN	LYR motif containing 4	21					small molecule metabolic process (GO:0044281)	mitochondrial matrix (GO:0005759)|nucleus (GO:0005634)				endometrium(1)	1	Ovarian(93;0.11)	all_hematologic(90;0.0901)				CTGAAACGCTTGCTCTCTCTC	0.627																																					NSCLC(130;1006 2426 17608 36797)											0													25	24	24					6																	5260906		2161	4232	6393	SO:0001587	stop_gained	57128			AF258559	CCDS4493.1, CCDS54961.1	6p25.1	2008-02-05	2006-09-19	2006-09-19	ENSG00000214113	ENSG00000214113		"LYR motif containing"	21365	protein-coding gene	gene with protein product		613311	"chromosome 6 open reading frame 149"	C6orf149			Standard	XM_005249239		Approved	CGI-203, ISD11	uc021ykw.1	Q9HD34	OTTHUMG00000014173	ENST00000330636.4:c.61A>T	6.37:g.5260906T>A	ENSP00000418787:p.Lys21*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K543|Q5XKP1	Nonsense_Mutation	SNP	ENST00000330636.4	37	CCDS4493.1	.	.	.	.	.	.	.	.	.	.	T	40	8.023762	0.98616	.	.	ENSG00000214113	ENST00000468929;ENST00000330636;ENST00000464010;ENST00000480566;ENST00000500576	.	.	.	5.04	1.08	0.20341	.	0.185374	0.32753	U	0.005684	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.05351	T	0.99	-6.0522	1.2294	0.01940	0.1825:0.1031:0.1903:0.5241	.	.	.	.	X	21	.	ENSP00000418787:K21X	K	-	1	0	LYRM4	5205905	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	0.725000	0.25970	1.898000	0.54952	0.533000	0.62120	AAG		0.627	LYRM4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000353461.3	NM_020408		A	5260906	T	A	5260906	4	1	614	1	0	0	0	0	0	1	0	0	9128	1821	63	5	504	5	LYRM4	6	5260906	Nonsense_Mutation	SNP	T	TCGA-IA-A40X-01A-11D-A25F-10		5260906	165854161	15	37422										
ABCF1	23	broad.mit.edu	37	chr6	30550906	30550906	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	cagctgaaaatgacttctccGtgtcccaggcggagatgtcc	11	12	1	3			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr6:30550906G>A	ENST00000326195.8	+	10	968	c.856G>A	c.(856-858)Gtg>Atg	p.V286M	ABCF1_ENST00000396515.4_Intron|ABCF1_ENST00000376545.3_Missense_Mutation_p.V248M|MIR877_ENST00000401282.1_RNA	NM_001025091.1	NP_001020262.1	Q8NE71	ABCF1_HUMAN	ATP-binding cassette, sub-family F (GCN20), member 1	286					inflammatory response (GO:0006954)|positive regulation of translation (GO:0045727)|translation (GO:0006412)|translational initiation (GO:0006413)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nuclear envelope (GO:0005635)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|polysomal ribosome (GO:0042788)|ribosome (GO:0005840)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|poly(A) RNA binding (GO:0044822)|ribosome binding (GO:0043022)|translation activator activity (GO:0008494)|translation factor activity, nucleic acid binding (GO:0008135)			breast(2)|endometrium(1)|kidney(2)|large_intestine(6)|lung(5)|ovary(3)|skin(2)	21						TGACTTCTCCGTGTCCCAGGC	0.498																																																0													89	93	92					6																	30550906		1509	2708	4217	SO:0001583	missense	23			AF027302	CCDS34380.1, CCDS34381.1	6p21.33	2012-03-14			ENSG00000204574	ENSG00000204574		"ATP binding cassette transporters / subfamily F"	70	protein-coding gene	gene with protein product		603429		ABC50		9790762	Standard	NM_001025091		Approved	EST123147	uc003nql.3	Q8NE71	OTTHUMG00000031094	ENST00000326195.8:c.856G>A	6.37:g.30550906G>A	ENSP00000313603:p.Val286Met	Somatic		WXS	Illumina HiSeq	Phase_I	A2BF75|O14897|Q69YP6	Missense_Mutation	SNP	ENST00000326195.8	37	CCDS34380.1	.	.	.	.	.	.	.	.	.	.	G	18.99	3.738855	0.69304	.	.	ENSG00000204574	ENST00000326195;ENST00000376545;ENST00000455943;ENST00000441867	T;T;T	0.55930	0.52;0.83;0.49	5.41	5.41	0.78517	.	0.280189	0.34002	N	0.004351	T	0.43942	0.1270	L	0.41573	1.285	0.80722	D	1	P;P;P	0.52692	0.905;0.955;0.955	P;P;P	0.51079	0.557;0.658;0.658	T	0.16453	-1.0402	10	0.22109	T	0.4	-26.4394	17.9672	0.89102	0.0:0.0:1.0:0.0	.	248;286;286	Q2L6I2;Q8NE71;A2BF75	.;ABCF1_HUMAN;.	M	286;248;287;287	ENSP00000313603:V286M;ENSP00000365728:V248M;ENSP00000405512:V287M	ENSP00000313603:V286M	V	+	1	0	ABCF1	30658885	1.000000	0.71417	0.997000	0.53966	0.953000	0.61014	5.478000	0.66806	2.553000	0.86117	0.313000	0.20887	GTG		0.498	ABCF1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000076137.3			A	30550906	G	A	30550906	3	1	614	1	0	0	0	0	1	0	0	0	65	1145	40	1	894	1	ABCF1	6	30550906	Missense_Mutation	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10	25290000	30550906	140564161	16	37423										
TNRC18	84629	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	5396874	5396874	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	cttgcttgccaactgctcctGgtcgctggccatcttcttct	8	15	3	0			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr7:5396874G>A	ENST00000430969.1	-	16	5215	c.4867C>T	c.(4867-4869)Cag>Tag	p.Q1623*	TNRC18_ENST00000399537.4_Nonsense_Mutation_p.Q1623*	NM_001080495.2	NP_001073964.2	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	1623							chromatin binding (GO:0003682)			central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(8)	11		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		AACTGCTCCTGGTCGCTGGCC	0.507																																																0													46	47	46					7																	5396874		2005	4189	6194	SO:0001587	stop_gained	84629			U80753	CCDS47534.1	7p22.1	2012-04-17			ENSG00000182095	ENSG00000182095		"Trinucleotide (CAG) repeat containing"	11962	protein-coding gene	gene with protein product						9225980	Standard	NM_001080495		Approved	CAGL79, TNRC18A, KIAA1856	uc003soi.4	O15417	OTTHUMG00000151831	ENST00000430969.1:c.4867C>T	7.37:g.5396874G>A	ENSP00000395538:p.Gln1623*	Somatic		WXS	Illumina HiSeq	Phase_I	A8MX41|Q96JH1|Q96K91	Nonsense_Mutation	SNP	ENST00000430969.1	37	CCDS47534.1	.	.	.	.	.	.	.	.	.	.	g	35	5.528361	0.96446	.	.	ENSG00000182095	ENST00000399537;ENST00000430969;ENST00000399544;ENST00000440081	.	.	.	5.25	5.25	0.73442	.	0.000000	0.37348	N	0.002123	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.40728	T	0.16	.	18.8572	0.92257	0.0:0.0:1.0:0.0	.	.	.	.	X	1623;1623;678;113	.	ENSP00000382452:Q1623X	Q	-	1	0	TNRC18	5363400	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	7.932000	0.87634	2.456000	0.83038	0.561000	0.74099	CAG		0.507	TNRC18-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding				A	5396874	G	A	5396874	4	1	614	1	0	0	0	0	0	1	0	0	16351	1357	47	2	4099	2	TNRC18	7	5396874	Nonsense_Mutation	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10		5396874	153741789	17	37424										
C7orf31	136895	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	25182389	25182389	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	ggagcgaaggttttaggaggTtttgggtagaatactggctt	16	3	0	1			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr7:25182389T>G	ENST00000409280.1	-	8	1037	c.729A>C	c.(727-729)aaA>aaC	p.K243N	C7orf31_ENST00000283905.3_Missense_Mutation_p.K243N			Q8N865	CG031_HUMAN	chromosome 7 open reading frame 31	243										autonomic_ganglia(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(6)|skin(2)|stomach(1)	14						TTTTAGGAGGTTTTGGGTAGA	0.378																																																0													91	98	95					7																	25182389		2203	4300	6503	SO:0001583	missense	136895			AK097248	CCDS5394.1	7p15.2	2011-11-24			ENSG00000153790	ENSG00000153790			21722	protein-coding gene	gene with protein product							Standard	NM_138811		Approved		uc003sxn.1	Q8N865	OTTHUMG00000128497	ENST00000409280.1:c.729A>C	7.37:g.25182389T>G	ENSP00000386604:p.Lys243Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A4D165|Q6MZV8|Q6P989|Q7LE28|Q86XK1|Q8N1H5|Q96BN4	Missense_Mutation	SNP	ENST00000409280.1	37	CCDS5394.1	.	.	.	.	.	.	.	.	.	.	T	16.47	3.131855	0.56828	.	.	ENSG00000153790	ENST00000409280;ENST00000283905	T;T	0.08720	3.06;3.06	5.51	3.06	0.35304	.	0.133847	0.47093	D	0.000247	T	0.21267	0.0512	M	0.65975	2.015	0.30063	N	0.810728	D	0.76494	0.999	D	0.74674	0.984	T	0.03597	-1.1021	10	0.40728	T	0.16	-1.5455	7.6462	0.28321	0.0:0.3231:0.0:0.6769	.	243	Q8N865	CG031_HUMAN	N	243	ENSP00000386604:K243N;ENSP00000283905:K243N	ENSP00000283905:K243N	K	-	3	2	C7orf31	25148914	0.998000	0.40836	1.000000	0.80357	0.986000	0.74619	0.178000	0.16820	0.357000	0.24183	0.397000	0.26171	AAA		0.378	C7orf31-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000326929.1	NM_138811		G	25182389	T	G	25182389	3	3	614	1	0	0	0	0	1	0	0	0	2389	1722	60	5	1055	5	C7orf31	7	25182389	Missense_Mutation	SNP	T	TCGA-IA-A40X-01A-11D-A25F-10	19785515	25182389	133956274	18	37425										
NOM1	64434	hgsc.bcm.edu	37	chr7	156742605	156742605	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	ttcgtgcacgcgacttcggaAggcgaggctcccgggggttg	17	11	0	0	rs149616380	byFrequency	TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr7:156742605A>G	ENST00000275820.3	+	1	189	c.174A>G	c.(172-174)gaA>gaG	p.E58E		NM_138400.1	NP_612409.1	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	58	Necessary for nucleolar localization and for targeting PPP1CA to the nucleolus.					nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			endometrium(5)|kidney(4)|large_intestine(9)|lung(7)|ovary(1)|prostate(2)|skin(2)|urinary_tract(1)	31	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		CGACTTCGGAAGGCGAGGCTC	0.706													.|||	55	0.0109824	0.0401	0.0029	5008	,	,		10993	0.0		0.0	False		,,,				2504	0.0															0								G		110,3692		1,108,1792	8	10	9		174	2.3	0	7	dbSNP_134	9	0,7382		0,0,3691	no	coding-synonymous	NOM1	NM_138400.1		1,108,5483	GG,GA,AA		0.0,2.8932,0.9835		58/861	156742605	110,11074	1901	3691	5592	SO:0001819	synonymous_variant	64434			AF107455	CCDS34787.1	7q36.3	2014-06-13	2005-03-30	2005-03-30	ENSG00000146909	ENSG00000146909			13244	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 113"	611269	"chromosome 7 open reading frame 3"	C7orf3		10329000	Standard	XM_005249560		Approved	SGD1, PPP1R113	uc003wmy.3	Q5C9Z4	OTTHUMG00000152639	ENST00000275820.3:c.174A>G	7.37:g.156742605A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q96I08	Silent	SNP	ENST00000275820.3	37	CCDS34787.1																																																																																				0.706	NOM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327098.1	NM_138400		G	156742605	A	G	156742605	2	3	614	1	0	0	0	0	0	0	0	1	10537	69	3	3		3	NOM1	7	156742605	Silent	SNP	A	TCGA-IA-A40X-01A-11D-A25F-10	131560216	156742605	2396058	19	37426										
KIAA1539	80256	ucsc.edu;bcgsc.ca	37	chr9	35106598	35106598	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	acaggggaggcactggggggGctcagcaggcctggcccctt	18	12	1	0			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr9:35106598G>T	ENST00000378561.1	-	4	4051	c.996C>A	c.(994-996)agC>agA	p.S332R	FAM214B_ENST00000378554.2_Missense_Mutation_p.S332R|FAM214B_ENST00000603301.1_Missense_Mutation_p.S332R|FAM214B_ENST00000378557.1_Missense_Mutation_p.S332R|FAM214B_ENST00000488109.2_Missense_Mutation_p.S332R|FAM214B_ENST00000605392.1_5'Flank|FAM214B_ENST00000378566.1_Missense_Mutation_p.S27R|FAM214B_ENST00000322813.5_Missense_Mutation_p.S332R|FAM214B_ENST00000605244.1_Missense_Mutation_p.S332R			Q7L5A3	F214B_HUMAN	family with sequence similarity 214, member B	332						nucleus (GO:0005634)											CACTGGGGGGGCTCAGCAGGC	0.622																																																0													11	13	13					9																	35106598		2179	4273	6452	SO:0001583	missense	80256			AB040972	CCDS6578.1	9p13.2	2011-12-01	2011-12-01	2011-12-01	ENSG00000005238	ENSG00000005238			25666	protein-coding gene	gene with protein product			"KIAA1539"	KIAA1539		10819331	Standard	NM_025182		Approved	FLJ11560, bA182N22.6	uc003zwo.3	Q7L5A3	OTTHUMG00000019847	ENST00000378561.1:c.996C>A	9.37:g.35106598G>T	ENSP00000367823:p.Ser332Arg	Somatic		WXS	Illumina HiSeq		B1AML4|B1AML5|D3DRN5|O60377|Q9BQ60|Q9HAI9|Q9P1Y9	Missense_Mutation	SNP	ENST00000378561.1	37	CCDS6578.1	.	.	.	.	.	.	.	.	.	.	G	14.13	2.442584	0.43326	.	.	ENSG00000005238	ENST00000378566;ENST00000322813;ENST00000378561;ENST00000378557;ENST00000378554	.	.	.	5.38	4.47	0.54385	.	0.226724	0.42821	D	0.000655	T	0.38612	0.1047	N	0.14661	0.345	0.45129	D	0.998147	B	0.25169	0.119	B	0.29440	0.102	T	0.16660	-1.0395	9	0.11485	T	0.65	-21.9657	13.3283	0.60473	0.0781:0.0:0.9219:0.0	.	332	Q7L5A3	K1539_HUMAN	R	27;332;332;332;332	.	ENSP00000319897:S332R	S	-	3	2	KIAA1539	35096598	0.008000	0.16893	0.996000	0.52242	0.978000	0.69477	0.174000	0.16743	2.813000	0.96785	0.655000	0.94253	AGC		0.622	FAM214B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052261.1	NM_025182		T	35106598	G	T	35106598	3	4	614	1	0	0	0	0	1	0	0	0	8249	1194	42	4	640	4	KIAA1539	9	35106598	Missense_Mutation	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10		35106598	106106833	20	37427										
C9orf153	389766	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	88844472	88844472	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	ctgaacattgaggaagggtgGcttctctattgtcctcagct	11	9	2	2			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr9:88844472G>A	ENST00000376001.3	-	2	127	c.47C>T	c.(46-48)gCc>gTc	p.A16V	C9orf153_ENST00000339137.3_Missense_Mutation_p.A16V|C9orf153_ENST00000469914.1_5'UTR	NM_001276366.1	NP_001263295.1	Q5TBE3	CI153_HUMAN	chromosome 9 open reading frame 153	16										breast(1)|lung(1)	2						AGGAAGGGTGGCTTCTCTATT	0.393																																																0													173	130	144					9																	88844472		2203	4300	6503	SO:0001583	missense	389766				CCDS35055.1, CCDS35055.2	9q22.1	2012-04-03			ENSG00000187753	ENSG00000187753			31456	protein-coding gene	gene with protein product							Standard	NM_001276366		Approved	bA507D14.1	uc031teh.1	Q5TBE3	OTTHUMG00000020134	ENST00000376001.3:c.47C>T	9.37:g.88844472G>A	ENSP00000365169:p.Ala16Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TBE4	Missense_Mutation	SNP	ENST00000376001.3	37	CCDS35055.1	.	.	.	.	.	.	.	.	.	.	G	13.20	2.166595	0.38217	.	.	ENSG00000187753	ENST00000339137;ENST00000376001	T;T	0.43294	0.95;0.95	3.33	-2.4	0.06583	.	1.675050	0.04061	N	0.306344	T	0.22704	0.0548	N	0.24115	0.695	0.09310	N	1	P;P	0.42584	0.784;0.642	B;B	0.33690	0.168;0.089	T	0.15093	-1.0449	10	0.52906	T	0.07	.	2.4955	0.04621	0.1061:0.1403:0.2414:0.5123	.	16;16	Q5TBE3;Q5TBE3-2	CI153_HUMAN;.	V	16	ENSP00000344865:A16V;ENSP00000365169:A16V	ENSP00000344865:A16V	A	-	2	0	C9orf153	88034292	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.853000	0.04303	-0.543000	0.06240	0.655000	0.94253	GCC		0.393	C9orf153-003	PUTATIVE	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000052913.1	NM_001010907		A	88844472	G	A	88844472	3	1	614	1	0	0	0	0	1	0	0	0	2466	1203	42	2	270	2	C9orf153	9	88844472	Missense_Mutation	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10	53737874	88844472	52368959	21	37428										
CTNNA3	29119	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	67726425	67726425	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	tctcagctttaacttgactgCagattttcagttggtgggag	11	7	2	2			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr10:67726425C>T	ENST00000433211.2	-	17	2519	c.2345G>A	c.(2344-2346)tGc>tAc	p.C782Y	CTNNA3_ENST00000373735.1_5'UTR|CTNNA3_ENST00000373744.4_Missense_Mutation_p.C782Y	NM_013266.2	NP_037398.2			catenin (cadherin-associated protein), alpha 3											breast(1)|central_nervous_system(1)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(14)|liver(1)|lung(50)|ovary(2)|pancreas(2)|prostate(2)|skin(7)|stomach(1)|urinary_tract(1)	95						AACTTGACTGCAGATTTTCAG	0.438																																																0													114	109	111					10																	67726425		2203	4300	6503	SO:0001583	missense	29119			AF091606	CCDS7269.1	10q21	2006-11-24			ENSG00000183230	ENSG00000183230			2511	protein-coding gene	gene with protein product		607667				12596047, 11590244	Standard	XM_005269717		Approved	VR22, MGC26194	uc001jmw.2	Q9UI47	OTTHUMG00000018334	ENST00000433211.2:c.2345G>A	10.37:g.67726425C>T	ENSP00000389714:p.Cys782Tyr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000433211.2	37	CCDS7269.1	.	.	.	.	.	.	.	.	.	.	C	19.15	3.771295	0.69992	.	.	ENSG00000183230	ENST00000433211;ENST00000373744;ENST00000373735	T;T;T	0.37915	1.17;1.17;1.17	5.41	3.56	0.40772	.	0.000000	0.64402	D	0.000004	T	0.39911	0.1096	M	0.75447	2.3	0.80722	D	1	P	0.37500	0.597	B	0.38562	0.276	T	0.36383	-0.9750	10	0.72032	D	0.01	-1.9994	10.42	0.44344	0.0:0.8383:0.0:0.1617	.	782	Q9UI47	CTNA3_HUMAN	Y	782;782;121	ENSP00000389714:C782Y;ENSP00000362849:C782Y;ENSP00000362840:C121Y	ENSP00000362840:C121Y	C	-	2	0	CTNNA3	67396431	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.776000	0.85560	0.771000	0.33359	0.650000	0.86243	TGC		0.438	CTNNA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048282.2	NM_013266		T	67726425	C	T	67726425	3	4	614	1	0	0	0	0	1	0	0	0	4016	710	25	2	350	2	CTNNA3	10	67726425	Missense_Mutation	SNP	C	TCGA-IA-A40X-01A-11D-A25F-10		67726425	67808322	22	37429										
NUP98	4928	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	3744474	3744474	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	aaaagacgtttcttcactgcTtccttccagcccatttcgca	5	14	2	1			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr11:3744474T>A	ENST00000324932.7	-	16	2479	c.2059A>T	c.(2059-2061)Agc>Tgc	p.S687C	NUP98_ENST00000397004.4_Missense_Mutation_p.S687C|NUP98_ENST00000355260.3_Missense_Mutation_p.S687C|NUP98_ENST00000397007.4_Missense_Mutation_p.S704C|NUP98_ENST00000359171.4_Missense_Mutation_p.S687C	NM_016320.4|NM_139132.3	NP_057404.2|NP_624358.2	P52948	NUP98_HUMAN	nucleoporin 98kDa	704					carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|DNA replication (GO:0006260)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|nuclear pore complex assembly (GO:0051292)|nuclear pore organization (GO:0006999)|nucleocytoplasmic transport (GO:0006913)|protein import into nucleus, docking (GO:0000059)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytosol (GO:0005829)|nuclear envelope (GO:0005635)|nuclear inclusion body (GO:0042405)|nuclear membrane (GO:0031965)|nuclear periphery (GO:0034399)|nuclear pore (GO:0005643)|nuclear pore nuclear basket (GO:0044615)|nuclear pore outer ring (GO:0031080)|nucleoplasm (GO:0005654)	peptide binding (GO:0042277)|structural constituent of nuclear pore (GO:0017056)|transporter activity (GO:0005215)			NS(1)|autonomic_ganglia(1)|breast(8)|central_nervous_system(1)|endometrium(5)|kidney(5)|large_intestine(13)|liver(1)|lung(15)|ovary(2)|prostate(2)|skin(9)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	66		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		TCTTCACTGCTTCCTTCCAGC	0.433			T	"HOXA9, NSD1, WHSC1L1, DDX10, TOP1, HOXD13, PMX1, HOXA13, HOXD11, HOXA11, RAP1GDS1, HOXC11"	AML																																		Dom	yes		11	11p15	4928	nucleoporin 98kDa		L	0													181	154	163					11																	3744474		2201	4298	6499	SO:0001583	missense	4928			AF071076, AF231130, BC012906, BG773331	CCDS7746.1, CCDS31347.1, CCDS41605.1, CCDS41606.1	11p15	2008-02-26	2002-08-29		ENSG00000110713	ENSG00000110713			8068	protein-coding gene	gene with protein product		601021	"nucleoporin 98kD"			9166830	Standard	NM_139131		Approved	NUP96	uc001lyh.3	P52948	OTTHUMG00000011846	ENST00000324932.7:c.2059A>T	11.37:g.3744474T>A	ENSP00000316032:p.Ser687Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUT2|Q8WYB0|Q96E54|Q9H3Q4|Q9NT02|Q9UF57|Q9UHX0|Q9Y6J4|Q9Y6J5	Missense_Mutation	SNP	ENST00000324932.7	37	CCDS7746.1	.	.	.	.	.	.	.	.	.	.	T	20.4	3.985170	0.74474	.	.	ENSG00000110713	ENST00000324932;ENST00000359171;ENST00000355260;ENST00000397004;ENST00000397007	.	.	.	4.73	4.73	0.59995	.	0.000000	0.85682	D	0.000000	T	0.77046	0.4073	M	0.70275	2.135	0.53005	D	0.999969	D;D;D;D	0.89917	1.0;0.999;1.0;1.0	D;D;D;D	0.85130	0.98;0.951;0.997;0.997	T	0.79546	-0.1759	9	0.62326	D	0.03	.	13.3986	0.60870	0.0:0.0:0.0:1.0	.	704;687;687;687	P52948-3;P52948-4;P52948-2;P52948-5	.;.;.;.	C	687;687;687;687;704	.	ENSP00000316032:S687C	S	-	1	0	NUP98	3701050	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.800000	0.62524	1.773000	0.52216	0.477000	0.44152	AGC		0.433	NUP98-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032766.3	NM_016320		A	3744474	T	A	3744474	3	1	614	1	0	0	0	0	1	0	0	0	10780	1609	56	5	3436	5	NUP98	11	3744474	Missense_Mutation	SNP	T	TCGA-IA-A40X-01A-11D-A25F-10		3744474	131262042	23	37430										
MTMR2	8898	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	95568462	95568462	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	tcttacagtcctttatacaaCagtttggacaggagtgacac	8	9	1	1			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr11:95568462C>T	ENST00000346299.5	-	15	2264	c.1924G>A	c.(1924-1926)Gtt>Att	p.V642I	MTMR2_ENST00000393223.3_Missense_Mutation_p.V570I|MTMR2_ENST00000409459.1_Missense_Mutation_p.V570I|MTMR2_ENST00000352297.7_Missense_Mutation_p.V570I	NM_016156.5	NP_057240.3	Q13614	MTMR2_HUMAN	myotubularin related protein 2	642					cell death (GO:0008219)|dendritic spine maintenance (GO:0097062)|inositol phosphate dephosphorylation (GO:0046855)|myelin assembly (GO:0032288)|negative regulation of endocytosis (GO:0045806)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|negative regulation of myelination (GO:0031642)|negative regulation of receptor catabolic process (GO:2000645)|negative regulation of receptor internalization (GO:0002091)|neuron development (GO:0048666)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phospholipid metabolic process (GO:0006644)|positive regulation of early endosome to late endosome transport (GO:2000643)|protein dephosphorylation (GO:0006470)|protein tetramerization (GO:0051262)|small molecule metabolic process (GO:0044281)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|dendritic spine (GO:0043197)|endosome (GO:0005768)|neuronal postsynaptic density (GO:0097481)|nucleus (GO:0005634)|synaptic membrane (GO:0097060)|synaptic vesicle (GO:0008021)|vacuolar membrane (GO:0005774)	phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity (GO:0052629)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)			autonomic_ganglia(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(6)|ovary(1)|pancreas(1)|prostate(1)|skin(1)	19		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CTTTATACAACAGTTTGGACA	0.438																																																0													103	91	95					11																	95568462		2201	4297	6498	SO:0001583	missense	8898			U58033	CCDS8305.1, CCDS8306.1	11q22	2014-09-17			ENSG00000087053	ENSG00000087053		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	7450	protein-coding gene	gene with protein product		603557		CMT4B		8640223, 9736772	Standard	NM_016156		Approved	KIAA1073	uc001pfu.3	Q13614	OTTHUMG00000153837	ENST00000346299.5:c.1924G>A	11.37:g.95568462C>T	ENSP00000345752:p.Val642Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NN98|Q9UPS9	Missense_Mutation	SNP	ENST00000346299.5	37	CCDS8305.1	.	.	.	.	.	.	.	.	.	.	C	16.57	3.159321	0.57368	.	.	ENSG00000087053	ENST00000346299;ENST00000393223;ENST00000409459;ENST00000352297	D;D;D;D	0.95756	-3.55;-3.8;-3.8;-3.8	6.17	6.17	0.99709	.	0.050299	0.85682	D	0.000000	D	0.89626	0.6769	N	0.08118	0	0.52501	D	0.99995	B	0.27229	0.172	B	0.22386	0.039	D	0.85343	0.1097	10	0.17369	T	0.5	.	20.8794	0.99867	0.0:1.0:0.0:0.0	.	642	Q13614	MTMR2_HUMAN	I	642;570;570;570	ENSP00000345752:V642I;ENSP00000376915:V570I;ENSP00000386882:V570I;ENSP00000343737:V570I	ENSP00000345752:V642I	V	-	1	0	MTMR2	95208110	1.000000	0.71417	0.221000	0.23827	0.035000	0.12851	4.526000	0.60566	2.941000	0.99782	0.655000	0.94253	GTT		0.438	MTMR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000332620.1	NM_016156		T	95568462	C	T	95568462	3	4	614	1	0	0	0	0	1	0	0	0	9951	478	17	2	11	2	MTMR2	11	95568462	Missense_Mutation	SNP	C	TCGA-IA-A40X-01A-11D-A25F-10	91823988	95568462	39438054	24	37431										
EFCAB4B	84766	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	3765545	3765545	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	cagtttctgctccagctcttGactgcgggcttgaaacctct	9	13	3	2			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr12:3765545G>T	ENST00000252322.1	-	9	1258	c.790C>A	c.(790-792)Caa>Aaa	p.Q264K	EFCAB4B_ENST00000440314.2_Missense_Mutation_p.Q264K|EFCAB4B_ENST00000444507.1_Missense_Mutation_p.Q264K	NM_032680.3	NP_116069.1	Q9BSW2	EFC4B_HUMAN		264					activation of store-operated calcium channel activity (GO:0032237)|immune system process (GO:0002376)|positive regulation of calcium ion transport (GO:0051928)|store-operated calcium entry (GO:0002115)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)			breast(1)|endometrium(3)|large_intestine(2)|liver(1)|lung(12)|ovary(1)|pancreas(2)|prostate(1)|upper_aerodigestive_tract(1)	24			OV - Ovarian serous cystadenocarcinoma(31;0.00287)|COAD - Colon adenocarcinoma(12;0.0264)			TCCAGCTCTTGACTGCGGGCT	0.517																																																0													117	98	105					12																	3765545		2203	4300	6503	SO:0001583	missense	84766																														ENST00000252322.1:c.790C>A	12.37:g.3765545G>T	ENSP00000252322:p.Gln264Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4E1X0|B9EK63	Missense_Mutation	SNP	ENST00000252322.1	37	CCDS8522.1	.	.	.	.	.	.	.	.	.	.	g	8.882	0.951842	0.18431	.	.	ENSG00000130038	ENST00000440314;ENST00000444507;ENST00000252322	T;T;T	0.21031	2.03;2.62;2.62	4.87	4.87	0.63330	.	0.650048	0.16394	N	0.216346	T	0.15003	0.0362	L	0.31294	0.92	0.27366	N	0.955823	B;B;B	0.22346	0.068;0.037;0.022	B;B;B	0.15484	0.006;0.013;0.006	T	0.10154	-1.0642	10	0.23302	T	0.38	-9.002	11.0361	0.47802	0.0:0.0:0.8142:0.1858	.	264;264;264	D7UEQ6;Q9BSW2-2;Q9BSW2	.;.;EFC4B_HUMAN	K	264	ENSP00000409382:Q264K;ENSP00000412496:Q264K;ENSP00000252322:Q264K	ENSP00000252322:Q264K	Q	-	1	0	EFCAB4B	3635806	1.000000	0.71417	1.000000	0.80357	0.953000	0.61014	3.957000	0.56730	2.385000	0.81259	0.556000	0.70494	CAA		0.517	EFCAB4B-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000398673.1			T	3765545	G	T	3765545	3	4	614	1	0	0	0	0	1	0	0	0	4939	1299	45	4	1645	4	EFCAB4B	12	3765545	Missense_Mutation	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10		3765545	130086350	25	37432										
GPR133	283383	hgsc.bcm.edu	37	chr12	131476916	131476917	+	Frame_Shift_Ins	INS	-	-	AC													0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	gtaagtccctctcggagcagINSacagccttgaatctcaccaa							TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr12:131476916_131476917insAC	ENST00000261654.5	+	8	1504_1505	c.945_946insAC	c.(946-948)acafs	p.T316fs	GPR133_ENST00000535015.1_Frame_Shift_Ins_p.T348fs|RP11-76C10.5_ENST00000542980.1_lincRNA	NM_198827.3	NP_942122.2	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133	316					G-protein coupled receptor signaling pathway (GO:0007186)|neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			NS(2)|breast(2)|endometrium(6)|kidney(1)|large_intestine(12)|lung(20)|ovary(3)|pancreas(6)|prostate(6)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(4)	67	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)		TCTCGGAGCAGACAGCCTTGAA	0.5																																																0																																										SO:0001589	frameshift_variant	283383			AY278561	CCDS9272.1	12q24.33	2014-08-08			ENSG00000111452	ENSG00000111452		"-", "GPCR / Class B : Orphans"	19893	protein-coding gene	gene with protein product		613639					Standard	NM_198827		Approved	DKFZp434B1272, PGR25	uc001uit.4	Q6QNK2	OTTHUMG00000168339	ENST00000261654.5:c.946_947dupAC	12.37:g.131476917_131476918dupAC	ENSP00000261654:p.Thr316fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2CKK9|B7ZLF7|Q2M1L3|Q6ZMQ1|Q7Z7M2|Q86SM4	Frame_Shift_Ins	INS	ENST00000261654.5	37	CCDS9272.1																																																																																				0.5	GPR133-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399356.1	NM_198827		AC	131476917	-	AC	131476916	7	5	614	1	0	1	1	0	0	0	0	0	6650	933	33	0	975	0	GPR133	12	131476916	Frame_Shift_Ins	INS	-	TCGA-IA-A40X-01A-11D-A25F-10	127711371	131476916	2374979	26	37433										
HECTD1	25831	broad.mit.edu	37	chr14	31604103	31604103	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	ttcattgagactgcagtcatCaacatgggtatacaaagaag	9	7	3	2			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr14:31604103C>T	ENST00000399332.1	-	22	4041	c.3553G>A	c.(3553-3555)Gat>Aat	p.D1185N	HECTD1_ENST00000553700.1_Missense_Mutation_p.D1185N	NM_015382.2	NP_056197.2	Q9ULT8	HECD1_HUMAN	HECT domain containing E3 ubiquitin protein ligase 1	1185					neural tube closure (GO:0001843)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ligase activity (GO:0016874)|metal ion binding (GO:0046872)|ubiquitin-protein transferase activity (GO:0004842)			breast(10)|endometrium(7)|kidney(5)|large_intestine(12)|lung(23)|ovary(4)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	70	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)		CTGCAGTCATCAACATGGGTA	0.388																																																0													72	65	67					14																	31604103		1855	4088	5943	SO:0001583	missense	25831			AB032957	CCDS41939.1	14q12	2013-01-10	2012-02-23		ENSG00000092148	ENSG00000092148		"Ankyrin repeat domain containing"	20157	protein-coding gene	gene with protein product			"HECT domain containing 1"			10574461	Standard	XM_005267502		Approved	KIAA1131	uc001wrc.1	Q9ULT8	OTTHUMG00000170670	ENST00000399332.1:c.3553G>A	14.37:g.31604103C>T	ENSP00000382269:p.Asp1185Asn	Somatic		WXS	Illumina HiSeq	Phase_I	D3DS86|Q6P445|Q86VJ1|Q96F34|Q9UFZ7	Missense_Mutation	SNP	ENST00000399332.1	37	CCDS41939.1	.	.	.	.	.	.	.	.	.	.	C	26.0	4.697335	0.88830	.	.	ENSG00000092148	ENST00000553700;ENST00000261312;ENST00000399332;ENST00000553957	T;T;T	0.17054	2.3;2.3;2.3	5.91	5.91	0.95273	Galactose-binding domain-like (1);Sad1/UNC-like, C-terminal (1);	0.000000	0.85682	U	0.000000	T	0.30103	0.0754	N	0.17800	0.525	0.80722	D	1	P;D	0.69078	0.743;0.997	P;D	0.79108	0.758;0.992	T	0.02639	-1.1130	10	0.38643	T	0.18	-13.5834	20.2983	0.98569	0.0:1.0:0.0:0.0	.	1185;1185	D3DS86;Q9ULT8	.;HECD1_HUMAN	N	1185;1187;1185;659	ENSP00000450697:D1185N;ENSP00000382269:D1185N;ENSP00000451860:D659N	ENSP00000261312:D1187N	D	-	1	0	HECTD1	30673854	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.800000	0.85949	2.802000	0.96397	0.655000	0.94253	GAT		0.388	HECTD1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409942.1			T	31604103	C	T	31604103	3	4	614	1	0	0	0	0	1	0	0	0	7046	826	29	2	4367	2	HECTD1	14	31604103	Missense_Mutation	SNP	C	TCGA-IA-A40X-01A-11D-A25F-10		31604103	75745437	27	37434										
IL21R	50615	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	27445763	27445763	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	tccaccccagcacgctcaccCttacctggtaagtagccggg	9	17	1	0			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr16:27445763C>G	ENST00000337929.3	+	3	618	c.145C>G	c.(145-147)Ctt>Gtt	p.L49V	IL21R_ENST00000395755.1_Missense_Mutation_p.L49V|IL21R_ENST00000564089.1_Missense_Mutation_p.L49V|IL21R_ENST00000395754.4_Missense_Mutation_p.L49V	NM_181078.2	NP_851564.1	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor	49	Fibronectin type-III 1. {ECO:0000255|PROSITE-ProRule:PRU00316}.				interleukin-21-mediated signaling pathway (GO:0038114)|natural killer cell activation (GO:0030101)	integral component of membrane (GO:0016021)	interleukin-21 receptor activity (GO:0001532)			breast(2)|large_intestine(3)|lung(1)|ovary(2)	8						CACGCTCACCCTTACCTGGTA	0.612			T	BCL6	NHL																																		Dom	yes		16	16p11	50615	interleukin 21 receptor		L	0													92	67	75					16																	27445763		2197	4300	6497	SO:0001583	missense	50615			AF254067	CCDS10630.1	16p11	2014-09-17			ENSG00000103522	ENSG00000103522		"Interleukins and interleukin receptors", "CD molecules"	6006	protein-coding gene	gene with protein product		605383				11081504	Standard	NM_181078		Approved	CD360	uc002dos.2	Q9HBE5	OTTHUMG00000131675	ENST00000337929.3:c.145C>G	16.37:g.27445763C>G	ENSP00000338010:p.Leu49Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9E8|D3DWF7|Q96HZ1|Q9HB91	Missense_Mutation	SNP	ENST00000337929.3	37	CCDS10630.1	.	.	.	.	.	.	.	.	.	.	c	3.641	-0.073506	0.07184	.	.	ENSG00000103522	ENST00000337929;ENST00000395755;ENST00000395754	D;D;D	0.97994	-4.65;-4.65;-4.65	4.39	0.877	0.19145	Fibronectin, type III (1);	55.521400	0.00166	N	0.000000	D	0.96272	0.8784	M	0.67953	2.075	0.80722	D	1	B	0.21225	0.053	B	0.17722	0.019	D	0.85799	0.1372	10	0.34782	T	0.22	-22.7421	6.3283	0.21257	0.3777:0.4383:0.184:0.0	.	49	Q9HBE5	IL21R_HUMAN	V	49	ENSP00000338010:L49V;ENSP00000379104:L49V;ENSP00000379103:L49V	ENSP00000338010:L49V	L	+	1	0	IL21R	27353264	0.011000	0.17503	0.032000	0.17829	0.011000	0.07611	0.263000	0.18478	0.530000	0.28619	0.555000	0.69702	CTT		0.612	IL21R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254578.2	NM_181078		G	27445763	C	G	27445763	3	3	614	1	0	0	0	0	1	0	0	0	7678	681	24	4	151	4	IL21R	16	27445763	Missense_Mutation	SNP	C	TCGA-IA-A40X-01A-11D-A25F-10		27445763	62908990	28	37435										
IL21R	50615	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	27459874	27459874	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	gaaatgggtgggtgcaccctTcactggctccagcctggagc	14	12	1	0			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr16:27459874T>C	ENST00000337929.3	+	9	1360	c.887T>C	c.(886-888)tTc>tCc	p.F296S	IL21R-AS1_ENST00000563191.1_RNA|IL21R_ENST00000395755.1_Missense_Mutation_p.F296S|IL21R_ENST00000564089.1_Missense_Mutation_p.F296S|IL21R_ENST00000395754.4_Missense_Mutation_p.F296S|IL21R_ENST00000564583.1_3'UTR	NM_181078.2	NP_851564.1	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor	296					interleukin-21-mediated signaling pathway (GO:0038114)|natural killer cell activation (GO:0030101)	integral component of membrane (GO:0016021)	interleukin-21 receptor activity (GO:0001532)			breast(2)|large_intestine(3)|lung(1)|ovary(2)	8						GGTGCACCCTTCACTGGCTCC	0.547			T	BCL6	NHL																																		Dom	yes		16	16p11	50615	interleukin 21 receptor		L	0													16	19	18					16																	27459874		2177	4255	6432	SO:0001583	missense	50615			AF254067	CCDS10630.1	16p11	2014-09-17			ENSG00000103522	ENSG00000103522		"Interleukins and interleukin receptors", "CD molecules"	6006	protein-coding gene	gene with protein product		605383				11081504	Standard	NM_181078		Approved	CD360	uc002dos.2	Q9HBE5	OTTHUMG00000131675	ENST00000337929.3:c.887T>C	16.37:g.27459874T>C	ENSP00000338010:p.Phe296Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9E8|D3DWF7|Q96HZ1|Q9HB91	Missense_Mutation	SNP	ENST00000337929.3	37	CCDS10630.1	.	.	.	.	.	.	.	.	.	.	T	10.95	1.495777	0.26774	.	.	ENSG00000103522	ENST00000337929;ENST00000395755;ENST00000395754	T;T;T	0.37411	1.2;1.2;1.2	5.24	2.9	0.33743	.	0.718376	0.13350	N	0.394470	T	0.26810	0.0656	M	0.64997	1.995	0.09310	N	1	P	0.41265	0.744	B	0.38327	0.271	T	0.17776	-1.0358	10	0.06365	T	0.9	-23.6851	4.7668	0.13135	0.1986:0.0:0.1808:0.6206	.	296	Q9HBE5	IL21R_HUMAN	S	296	ENSP00000338010:F296S;ENSP00000379104:F296S;ENSP00000379103:F296S	ENSP00000338010:F296S	F	+	2	0	IL21R	27367375	0.006000	0.16342	0.739000	0.30968	0.006000	0.05464	1.501000	0.35693	1.980000	0.57719	0.459000	0.35465	TTC		0.547	IL21R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254578.2	NM_181078		C	27459874	T	C	27459874	3	2	614	1	0	0	0	0	1	0	0	0	7678	1783	62	3	917	3	IL21R	16	27459874	Missense_Mutation	SNP	T	TCGA-IA-A40X-01A-11D-A25F-10	14111	27459874	62894879	29	37436										
TRIM37	4591	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	57134407	57134407	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	ggtgaaccatctctacacgaTattcatatctaaaattgaaa	5	8	3	2			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr17:57134407T>C	ENST00000262294.7	-	13	1287	c.1028A>G	c.(1027-1029)tAt>tGt	p.Y343C	TRIM37_ENST00000393066.3_Missense_Mutation_p.Y343C|RN7SL716P_ENST00000580539.1_RNA|TRIM37_ENST00000393065.2_Missense_Mutation_p.Y309C|TRIM37_ENST00000376149.3_Missense_Mutation_p.Y221C	NM_015294.3	NP_056109.1	O94972	TRI37_HUMAN	tripartite motif containing 37	343	MATH. {ECO:0000255|PROSITE- ProRule:PRU00129}.				aggresome assembly (GO:0070842)|negative regulation of centriole replication (GO:0046600)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|protein autoubiquitination (GO:0051865)	aggresome (GO:0016235)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|peroxisome (GO:0005777)	chromatin binding (GO:0003682)|ligase activity (GO:0016874)|protein homodimerization activity (GO:0042803)|tumor necrosis factor receptor binding (GO:0005164)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(13)|ovary(1)|pancreas(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	37	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					CTCTACACGATATTCATATCT	0.318									Mulibrey Nanism																																							0													63	61	62					17																	57134407		2203	4300	6503	SO:0001583	missense	4591	Familial Cancer Database	Perheentupa syndrome	AB020705	CCDS32694.1, CCDS45746.1	17q	2014-02-17	2011-01-25	2001-11-30		ENSG00000108395		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	7523	protein-coding gene	gene with protein product	"RING-B-box-coiled-coil protein"	605073	"tripartite motif-containing 37"	MUL		9106536, 10888877	Standard	NM_015294		Approved	KIAA0898, POB1, TEF3	uc002iwy.4	O94972		ENST00000262294.7:c.1028A>G	17.37:g.57134407T>C	ENSP00000262294:p.Tyr343Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z3E6|Q8IYF7|Q8WYF7	Missense_Mutation	SNP	ENST00000262294.7	37	CCDS32694.1	.	.	.	.	.	.	.	.	.	.	T	21.5	4.164224	0.78339	.	.	ENSG00000108395	ENST00000393066;ENST00000262294;ENST00000376149;ENST00000393065	T;T;T;T	0.65549	-0.16;-0.16;-0.16;-0.16	5.43	5.43	0.79202	TRAF-type (1);TRAF-like (1);MATH (3);	0.000000	0.85682	D	0.000000	T	0.81635	0.4864	M	0.86420	2.815	0.80722	D	1	D;D;P	0.89917	1.0;1.0;0.943	D;D;P	0.87578	0.998;0.998;0.896	D	0.84579	0.0660	10	0.56958	D	0.05	-9.1299	15.4842	0.75551	0.0:0.0:0.0:1.0	.	309;221;343	F8WEE6;O94972-2;O94972	.;.;TRI37_HUMAN	C	343;343;221;309	ENSP00000376785:Y343C;ENSP00000262294:Y343C;ENSP00000365319:Y221C;ENSP00000376784:Y309C	ENSP00000262294:Y343C	Y	-	2	0	TRIM37	54489189	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	8.036000	0.88901	2.048000	0.60808	0.482000	0.46254	TAT		0.318	TRIM37-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445930.1	NM_015294		C	57134407	T	C	57134407	3	2	614	1	0	0	0	0	1	0	0	0	16523	1406	49	3	1922	3	TRIM37	17	57134407	Missense_Mutation	SNP	T	TCGA-IA-A40X-01A-11D-A25F-10		57134407	24060803	30	37437										
HNRNPM	4670	ucsc.edu	37	chr19	8527467	8527467	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	cgctgaaggaaagtcaagggTaagtgtctgagagaatttct	13	5	3	3			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr19:8527467T>G	ENST00000325495.4	+	3	377		c.e3+2		HNRNPM_ENST00000348943.3_Splice_Site	NM_005968.4	NP_005959.2	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M						alternative mRNA splicing, via spliceosome (GO:0000380)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|extracellular matrix (GO:0031012)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|paraspeckles (GO:0042382)|spliceosomal complex (GO:0005681)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein domain specific binding (GO:0019904)|RNA binding (GO:0003723)			endometrium(5)|kidney(2)|large_intestine(7)|lung(10)|ovary(1)	25						AAGTCAAGGGTAAGTGTCTGA	0.428																																																0													241	220	227					19																	8527467		2203	4300	6503	SO:0001630	splice_region_variant	4670			L03532	CCDS12203.1, CCDS12204.1	19p13.2	2013-06-12		2008-04-18	ENSG00000099783	ENSG00000099783		"RNA binding motif (RRM) containing"	5046	protein-coding gene	gene with protein product	"CEA receptor"	160994		NAGR1, HNRPM		8441656, 7558047	Standard	NM_005968		Approved	HTGR1, HNRNPM4, HNRPM4, CEAR	uc010dwe.3	P52272	OTTHUMG00000182383	ENST00000325495.4:c.336+2T>G	19.37:g.8527467T>G		Somatic		WXS	Illumina HiSeq		Q15584|Q8WZ44|Q96H56|Q9BWL9|Q9Y492	Splice_Site	SNP	ENST00000325495.4	37	CCDS12203.1	.	.	.	.	.	.	.	.	.	.	T	18.24	3.580056	0.65992	.	.	ENSG00000099783	ENST00000325495;ENST00000348943	.	.	.	5.82	5.82	0.92795	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.0018	0.71479	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	HNRNPM	8433467	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.698000	0.84413	2.225000	0.72522	0.459000	0.35465	.		0.428	HNRNPM-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000460894.1		Intron	G	8527467	T	G	8527467	5	3	614	1	0	0	0	0	0	0	1	0	7278	1652	57	5	348	5	HNRNPM	19	8527467	Splice_Site	SNP	T	TCGA-IA-A40X-01A-11D-A25F-10		8527467	50601516	31	37438										
ZNF536	9745	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	30936011	30936011	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	gcggctgccaaggctgcggaGatggaccccgtgaacagcta	15	12	0	2			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr19:30936011G>C	ENST00000355537.3	+	2	1689	c.1542G>C	c.(1540-1542)gaG>gaC	p.E514D		NM_014717.1	NP_055532.1	O15090	ZN536_HUMAN	zinc finger protein 536	514					negative regulation of neuron differentiation (GO:0045665)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|retinoic acid-responsive element binding (GO:0044323)			NS(3)|breast(6)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(22)|lung(119)|ovary(7)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(3)	182	Esophageal squamous(110;0.0834)					AGGCTGCGGAGATGGACCCCG	0.632																																																0													38	43	42					19																	30936011		2202	4299	6501	SO:0001583	missense	9745				CCDS32984.1	19q13.11	2013-01-08				ENSG00000198597		"Zinc fingers, C2H2-type"	29025	protein-coding gene	gene with protein product						9205841	Standard	XM_005259445		Approved	KIAA0390	uc002nsu.1	O15090		ENST00000355537.3:c.1542G>C	19.37:g.30936011G>C	ENSP00000347730:p.Glu514Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU18	Missense_Mutation	SNP	ENST00000355537.3	37	CCDS32984.1	.	.	.	.	.	.	.	.	.	.	G	15.44	2.833785	0.50951	.	.	ENSG00000198597	ENST00000355537	T	0.16743	2.32	5.53	2.25	0.28309	.	0.000000	0.85682	D	0.000000	T	0.33962	0.0881	M	0.64404	1.975	0.41871	D	0.99027	D;D	0.69078	0.997;0.997	D;D	0.72625	0.978;0.978	T	0.02020	-1.1228	10	0.51188	T	0.08	-39.7837	9.9979	0.41911	0.2217:0.0:0.7783:0.0	.	514;514	A7E228;O15090	.;ZN536_HUMAN	D	514	ENSP00000347730:E514D	ENSP00000347730:E514D	E	+	3	2	ZNF536	35627851	1.000000	0.71417	0.993000	0.49108	0.967000	0.64934	1.738000	0.38207	0.276000	0.22118	0.655000	0.94253	GAG		0.632	ZNF536-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459667.2	NM_014717		C	30936011	G	C	30936011	3	2	614	1	0	0	0	0	1	0	0	0	17986	933	33	4	1544	4	ZNF536	19	30936011	Missense_Mutation	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10	22408544	30936011	28192972	32	37439										
CEACAM8	1088	broad.mit.edu	37	chr19	43098028	43098028	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	tgagctgagcagtggtgggcGggttccagaaggtgaaaagt	18	5	0	4			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr19:43098028G>A	ENST00000244336.5	-	2	190	c.89C>T	c.(88-90)cCg>cTg	p.P30L	LIPE-AS1_ENST00000594688.1_RNA|CEACAM8_ENST00000599005.1_Intron|LIPE-AS1_ENST00000594624.2_RNA	NM_001816.3	NP_001807.2	P31997	CEAM8_HUMAN	carcinoembryonic antigen-related cell adhesion molecule 8	30					immune response (GO:0006955)	anchored component of membrane (GO:0031225)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)				endometrium(1)|large_intestine(5)|lung(5)|ovary(1)|pancreas(1)|prostate(2)|skin(1)	16		Prostate(69;0.00899)				AGTGGTGGGCGGGTTCCAGAA	0.507																																																0													109	101	104					19																	43098028		2203	4300	6503	SO:0001583	missense	1088			D90064	CCDS12610.1	19q13.2	2013-01-29			ENSG00000124469	ENSG00000124469		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	1820	protein-coding gene	gene with protein product		615747		CGM6		2208113, 2306228	Standard	NM_001816		Approved	CD66b	uc002oud.2	P31997	OTTHUMG00000151124	ENST00000244336.5:c.89C>T	19.37:g.43098028G>A	ENSP00000244336:p.Pro30Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O60399|Q16574	Missense_Mutation	SNP	ENST00000244336.5	37	CCDS12610.1	.	.	.	.	.	.	.	.	.	.	g	4.232	0.042039	0.08196	.	.	ENSG00000124469	ENST00000244336	T	0.16897	2.31	1.63	0.565	0.17309	.	.	.	.	.	T	0.08626	0.0214	N	0.20445	0.575	0.09310	N	1	B	0.21147	0.052	B	0.23852	0.049	T	0.42327	-0.9458	9	0.14252	T	0.57	.	3.9174	0.09228	0.2332:0.0:0.7668:0.0	.	30	P31997	CEAM8_HUMAN	L	30	ENSP00000244336:P30L	ENSP00000244336:P30L	P	-	2	0	CEACAM8	47789868	0.002000	0.14202	0.021000	0.16686	0.463000	0.32649	-0.315000	0.08081	0.242000	0.21303	0.313000	0.20887	CCG		0.507	CEACAM8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321430.1			A	43098028	G	A	43098028	3	1	614	1	0	0	0	0	1	0	0	0	3200	1116	39	1	976	1	CEACAM8	19	43098028	Missense_Mutation	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10	12162017	43098028	16030955	33	37440										
KCNN4	3783	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	44278354	44278354	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	tcaccctcacctctcggccaCggacagcacccaggcggtgg	11	18	3	0			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr19:44278354C>T	ENST00000262888.3	-	3	1068	c.673G>A	c.(673-675)Gtg>Atg	p.V225M		NM_002250.2	NP_002241.1	O15554	KCNN4_HUMAN	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 4	225					calcium ion transport (GO:0006816)|cell volume homeostasis (GO:0006884)|defense response (GO:0006952)|immune system process (GO:0002376)|phospholipid translocation (GO:0045332)|positive regulation of protein secretion (GO:0050714)|positive regulation of T cell receptor signaling pathway (GO:0050862)|potassium ion export (GO:0071435)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|saliva secretion (GO:0046541)|stabilization of membrane potential (GO:0030322)|synaptic transmission (GO:0007268)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|membrane raft (GO:0045121)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	calcium-activated potassium channel activity (GO:0015269)|calmodulin binding (GO:0005516)|Intermediate conductance calcium-activated potassium channel activity (GO:0022894)|protein phosphatase binding (GO:0019903)			biliary_tract(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	15		Prostate(69;0.0352)			Clotrimazole(DB00257)|Enflurane(DB00228)|Halothane(DB01159)|Miconazole(DB01110)|Procaine(DB00721)|Quinine(DB00468)	CTCTCGGCCACGGACAGCACC	0.677											OREG0025535	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													17	19	18					19																	44278354		2196	4295	6491	SO:0001583	missense	3783			AF022797	CCDS12630.1	19q13.2	2012-07-05				ENSG00000104783		"Potassium channels", "Voltage-gated ion channels / Potassium channels, calcium-activated"	6293	protein-coding gene	gene with protein product		602754				9380751, 9407042, 16382103	Standard	NM_002250		Approved	KCa3.1, hSK4, hKCa4, hIKCa1	uc002oxl.3	O15554		ENST00000262888.3:c.673G>A	19.37:g.44278354C>T	ENSP00000262888:p.Val225Met	Somatic	922	WXS	Illumina HiSeq	Phase_I	Q53XR4	Missense_Mutation	SNP	ENST00000262888.3	37	CCDS12630.1	.	.	.	.	.	.	.	.	.	.	C	20.3	3.961648	0.74016	.	.	ENSG00000104783	ENST00000262888;ENST00000407385	T	0.24538	1.85	4.31	4.31	0.51392	Ion transport 2 (1);	0.149552	0.43416	D	0.000563	T	0.41834	0.1176	L	0.42245	1.32	0.40618	D	0.981731	D;D	0.76494	0.999;0.999	D;D	0.70487	0.969;0.961	T	0.36529	-0.9744	10	0.56958	D	0.05	-28.677	14.7241	0.69329	0.0:1.0:0.0:0.0	.	119;225	D1MQ10;O15554	.;KCNN4_HUMAN	M	225;93	ENSP00000262888:V225M	ENSP00000262888:V225M	V	-	1	0	KCNN4	48970194	0.982000	0.34865	0.985000	0.45067	0.977000	0.68977	2.272000	0.43373	2.104000	0.64026	0.478000	0.44815	GTG		0.677	KCNN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463598.1	NM_002250		T	44278354	C	T	44278354	3	4	614	1	0	0	0	0	1	0	0	0	8088	536	19	1	634	1	KCNN4	19	44278354	Missense_Mutation	SNP	C	TCGA-IA-A40X-01A-11D-A25F-10	1180326	44278354	14850629	34	37441										
C20orf185	359710	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	31660577	31660577	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	tcttaatatcaatttttccaAttcagttctggagatcgtag	6	7	4	1			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr20:31660577A>G	ENST00000375494.3	+	14	1379	c.1379A>G	c.(1378-1380)aAt>aGt	p.N460S		NM_182658.1	NP_872599.1	P59826	BPIB3_HUMAN	BPI fold containing family B, member 3	460					innate immune response (GO:0045087)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)	lipid binding (GO:0008289)										AATTTTTCCAATTCAGTTCTG	0.473																																																0													156	143	148					20																	31660577		2203	4300	6503	SO:0001583	missense	359710			AF549189	CCDS13212.1	20q11.21	2011-08-04	2011-07-29	2011-07-29	ENSG00000186190	ENSG00000186190		"BPI fold containing"	16178	protein-coding gene	gene with protein product		615717	"chromosome 20 open reading frame 185"	C20orf185		11971875, 21787333	Standard	NM_182658		Approved	dJ726C3.4, LPLUNC3, RYA3	uc002wym.1	P59826	OTTHUMG00000032234	ENST00000375494.3:c.1379A>G	20.37:g.31660577A>G	ENSP00000364643:p.Asn460Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TDX7	Missense_Mutation	SNP	ENST00000375494.3	37	CCDS13212.1	.	.	.	.	.	.	.	.	.	.	A	1.299	-0.605319	0.03717	.	.	ENSG00000186190	ENST00000375494	T	0.09255	3.0	4.64	-3.29	0.05017	.	0.321650	0.26258	N	0.025402	T	0.07638	0.0192	L	0.53561	1.675	0.24245	N	0.995343	B	0.02656	0.0	B	0.08055	0.003	T	0.41413	-0.9510	10	0.15499	T	0.54	0.023	6.6155	0.22774	0.4895:0.4045:0.106:0.0	.	460	P59826	BPIB3_HUMAN	S	460	ENSP00000364643:N460S	ENSP00000364643:N460S	N	+	2	0	BPIFB3	31124238	0.983000	0.35010	0.689000	0.30133	0.014000	0.08584	-0.057000	0.11768	-0.887000	0.03961	-1.064000	0.02280	AAT		0.473	BPIFB3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078654.2	NM_182658		G	31660577	A	G	31660577	3	3	614	1	0	0	0	0	1	0	0	0	2099	101	4	3	1433	3	C20orf185	20	31660577	Missense_Mutation	SNP	A	TCGA-IA-A40X-01A-11D-A25F-10		31660577	31364943	35	37442										
FAM83C	128876	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	33874582	33874582	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	ttagccgtttctcatccccaGacccagctccagccgtgcga	8	17	1	1			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr20:33874582G>C	ENST00000374408.3	-	4	2096	c.2000C>G	c.(1999-2001)tCt>tGt	p.S667C	EIF6_ENST00000374436.3_5'Flank|FAM83C-AS1_ENST00000429167.1_RNA|EIF6_ENST00000374443.3_5'Flank|EIF6_ENST00000462894.1_5'Flank|EIF6_ENST00000374450.3_5'Flank	NM_178468.5	NP_848563.1	Q9BQN1	FA83C_HUMAN	family with sequence similarity 83, member C	667										central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(6)|lung(19)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	40			BRCA - Breast invasive adenocarcinoma(18;0.00252)			CTCATCCCCAGACCCAGCTCC	0.617																																																0													54	48	50					20																	33874582		2203	4300	6503	SO:0001583	missense	128876			AL121753	CCDS13251.1	20q11.22	2011-04-01	2006-03-23	2006-03-23	ENSG00000125998	ENSG00000125998			16121	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 128"	C20orf128			Standard	NM_178468		Approved	dJ614O4.7	uc021wck.1	Q9BQN1	OTTHUMG00000032332	ENST00000374408.3:c.2000C>G	20.37:g.33874582G>C	ENSP00000363529:p.Ser667Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q14D67|Q5JWN6|Q8N276	Missense_Mutation	SNP	ENST00000374408.3	37	CCDS13251.1	.	.	.	.	.	.	.	.	.	.	G	9.533	1.111448	0.20714	.	.	ENSG00000125998	ENST00000374408	T	0.11385	2.78	4.93	3.99	0.46301	.	1.069840	0.07374	N	0.886296	T	0.15392	0.0371	L	0.59436	1.845	0.09310	N	1	P	0.50369	0.934	B	0.43916	0.436	T	0.23691	-1.0181	10	0.87932	D	0	-20.9594	6.8394	0.23955	0.0917:0.0:0.7235:0.1848	.	667	Q9BQN1	FA83C_HUMAN	C	667	ENSP00000363529:S667C	ENSP00000363529:S667C	S	-	2	0	FAM83C	33337996	0.485000	0.25972	0.025000	0.17156	0.218000	0.24690	2.726000	0.47302	1.235000	0.43724	0.462000	0.41574	TCT		0.617	FAM83C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078854.3			C	33874582	G	C	33874582	3	2	614	1	0	0	0	0	1	0	0	0	5642	942	33	4	247	4	FAM83C	20	33874582	Missense_Mutation	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10	2214005	33874582	29150938	36	37443										
TMPRSS3	64699	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	43802332	43802332	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	cctggatggtccatgacttgGggaggtacaagctgaaatga	14	7	0	3			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr21:43802332G>C	ENST00000291532.3	-	9	1749	c.794C>G	c.(793-795)cCc>cGc	p.P265R	TMPRSS3_ENST00000398397.3_Missense_Mutation_p.P265R|TMPRSS3_ENST00000474596.1_5'UTR|TMPRSS3_ENST00000398405.1_Missense_Mutation_p.P263R|TMPRSS3_ENST00000433957.2_Missense_Mutation_p.P265R|TMPRSS3_ENST00000380399.1_Missense_Mutation_p.P349R	NM_032404.2	NP_115780.1	P57727	TMPS3_HUMAN	transmembrane protease, serine 3	265	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cellular sodium ion homeostasis (GO:0006883)|proteolysis (GO:0006508)|sensory perception of sound (GO:0007605)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)	scavenger receptor activity (GO:0005044)|serine-type endopeptidase activity (GO:0004252)|sodium channel regulator activity (GO:0017080)			breast(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(2)|ovary(4)|skin(1)	13						CCATGACTTGGGGAGGTACAA	0.493																																																0													68	51	57					21																	43802332		2203	4300	6503	SO:0001583	missense	64699			AF201380	CCDS13686.1, CCDS42939.1, CCDS58790.1	21q22.3	2010-04-13			ENSG00000160183	ENSG00000160183		"Serine peptidases / Transmembrane"	11877	protein-coding gene	gene with protein product		605511		DFNB10, DFNB8		11462234, 11907649	Standard	NM_032405		Approved		uc002zbc.3	P57727	OTTHUMG00000086796	ENST00000291532.3:c.794C>G	21.37:g.43802332G>C	ENSP00000291532:p.Pro265Arg	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSJ6|Q5USC7|Q6ZMC3	Missense_Mutation	SNP	ENST00000291532.3	37	CCDS13686.1	.	.	.	.	.	.	.	.	.	.	G	19.58	3.853752	0.71719	.	.	ENSG00000160183	ENST00000291532;ENST00000433957;ENST00000398405;ENST00000380399;ENST00000398397	D;D;D;D;D	0.88586	-2.4;-2.4;-2.4;-2.4;-2.4	4.8	4.8	0.61643	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	0.000000	0.64402	D	0.000001	D	0.92984	0.7767	L	0.58428	1.81	0.53688	D	0.999975	D;D;P;D	0.76494	0.998;0.999;0.949;0.999	D;D;P;D	0.74348	0.977;0.983;0.803;0.982	D	0.92525	0.6028	9	.	.	.	.	17.8827	0.88845	0.0:0.0:1.0:0.0	.	265;265;265;263	P57727-3;P57727-5;P57727;B7WPR2	.;.;TMPS3_HUMAN;.	R	265;265;263;349;265	ENSP00000291532:P265R;ENSP00000411013:P265R;ENSP00000381442:P263R;ENSP00000369762:P349R;ENSP00000381434:P265R	.	P	-	2	0	TMPRSS3	42675401	1.000000	0.71417	1.000000	0.80357	0.757000	0.42996	7.925000	0.87563	2.213000	0.71641	0.655000	0.94253	CCC		0.493	TMPRSS3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000195347.1			C	43802332	G	C	43802332	3	2	614	1	0	0	0	0	1	0	0	0	16260	1232	43	4	673	4	TMPRSS3	21	43802332	Missense_Mutation	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10		43802332	4327563	37	37444										
MMP11	4320	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	24125618	24125618	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	gctatgcctacttcctgcgcGgccgcctctactggaagttt	10	14	1	0			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr22:24125618G>T	ENST00000215743.3	+	8	1406	c.1354G>T	c.(1354-1356)Ggc>Tgc	p.G452C	AP000349.1_ENST00000598975.1_Silent_p.A176A	NM_005940.3	NP_005931.2	P24347	MMP11_HUMAN	matrix metallopeptidase 11 (stromelysin 3)	452					basement membrane organization (GO:0071711)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|negative regulation of fat cell differentiation (GO:0045599)|proteolysis (GO:0006508)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(7)|liver(2)|lung(5)|prostate(1)|skin(7)|upper_aerodigestive_tract(1)	27		Medulloblastoma(6;9.86e-08)|all_neural(6;0.000318)			Marimastat(DB00786)	CTTCCTGCGCGGCCGCCTCTA	0.622																																																0													102	82	89					22																	24125618		2203	4300	6503	SO:0001583	missense	4320				CCDS13816.1	22q11.23	2008-06-11	2005-08-08		ENSG00000099953	ENSG00000099953			7157	protein-coding gene	gene with protein product		185261	"matrix metalloproteinase 11 (stromelysin 3)"	STMY3		1639418, 7657606, 12006591	Standard	NM_005940		Approved		uc002zxx.3	P24347	OTTHUMG00000150742	ENST00000215743.3:c.1354G>T	22.37:g.24125618G>T	ENSP00000215743:p.Gly452Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5FX24|Q6PEZ6|Q9UC26	Missense_Mutation	SNP	ENST00000215743.3	37	CCDS13816.1	.	.	.	.	.	.	.	.	.	.	G	23.2	4.383170	0.82792	.	.	ENSG00000099953	ENST00000215743	T	0.10382	2.88	4.73	4.73	0.59995	Hemopexin/matrixin (2);	0.049339	0.85682	D	0.000000	T	0.45915	0.1366	H	0.95004	3.61	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.61549	-0.7040	10	0.87932	D	0	.	17.3138	0.87217	0.0:0.0:1.0:0.0	.	452	P24347	MMP11_HUMAN	C	452	ENSP00000215743:G452C	ENSP00000215743:G452C	G	+	1	0	MMP11	22455618	1.000000	0.71417	0.971000	0.41717	0.995000	0.86356	7.028000	0.76470	2.649000	0.89929	0.650000	0.86243	GGC		0.622	MMP11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319891.2	NM_005940		T	24125618	G	T	24125618	3	4	614	1	0	0	0	0	1	0	0	0	9657	1116	39	4	1384	4	MMP11	22	24125618	Missense_Mutation	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10		24125618	27178948	38	37445										
NEFH	4744	hgsc.bcm.edu	37	chr22	29885562	29885562	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	ccaagtctccaacgaaggagGaagcaaagtcccctgagaag	11	11	1	1	rs370929798		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chr22:29885562G>A	ENST00000310624.6	+	4	1966	c.1933G>A	c.(1933-1935)Gaa>Aaa	p.E645K		NM_021076.3	NP_066554.2	P12036	NFH_HUMAN	neurofilament, heavy polypeptide	645	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.				axon development (GO:0061564)|axonogenesis (GO:0007409)|cell death (GO:0008219)|cell projection assembly (GO:0030031)|microtubule cytoskeleton organization (GO:0000226)|neurofilament bundle assembly (GO:0033693)|peripheral nervous system neuron axonogenesis (GO:0048936)|regulation of organelle transport along microtubule (GO:1902513)	axon (GO:0030424)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|neurofibrillary tangle (GO:0097418)|neurofilament (GO:0005883)	dynein binding (GO:0045502)|kinesin binding (GO:0019894)|microtubule binding (GO:0008017)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(12)|ovary(2)|skin(3)	30						AACGAAGGAGGAAGCAAAGTC	0.562																																																0													82	88	86					22																	29885562		2203	4300	6503	SO:0001583	missense	4744				CCDS13858.1	22q12.2	2013-01-16	2008-09-19		ENSG00000100285	ENSG00000100285		"Intermediate filaments type IV"	7737	protein-coding gene	gene with protein product		162230	"neurofilament, heavy polypeptide 200kDa"				Standard	NM_021076		Approved		uc003afo.3	P12036	OTTHUMG00000151155	ENST00000310624.6:c.1933G>A	22.37:g.29885562G>A	ENSP00000311997:p.Glu645Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYY4|Q96HF8|Q9UJS7|Q9UQ14	Missense_Mutation	SNP	ENST00000310624.6	37	CCDS13858.1	.	.	.	.	.	.	.	.	.	.	G	9.212	1.031217	0.19590	.	.	ENSG00000100285	ENST00000328842;ENST00000310624	D	0.83914	-1.78	4.97	4.97	0.65823	.	0.115504	0.38778	N	0.001569	D	0.87783	0.6264	L	0.61218	1.895	0.29104	N	0.881289	P	0.36712	0.566	P	0.52267	0.694	D	0.83526	0.0088	10	0.44086	T	0.13	.	16.1111	0.81263	0.0:0.0:1.0:0.0	.	645	P12036	NFH_HUMAN	K	645	ENSP00000311997:E645K	ENSP00000311997:E645K	E	+	1	0	NEFH	28215562	0.001000	0.12720	0.367000	0.25926	0.091000	0.18340	0.923000	0.28757	2.745000	0.94114	0.491000	0.48974	GAA		0.562	NEFH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321553.2	NM_021076		A	29885562	G	A	29885562	3	1	614	1	0	0	0	0	1	0	0	0	10321	1175	41	2	1947	2	NEFH	22	29885562	Missense_Mutation	SNP	G	TCGA-IA-A40X-01A-11D-A25F-10	5759944	29885562	21419004	39	37446										
VCX	26609	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	7811790	7811790	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	gaaccactgagtcaggagagCgaggtggaagaaccactgag	15	8	1	4	rs200229312		TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chrX:7811790C>T	ENST00000381059.3	+	3	573	c.354C>T	c.(352-354)agC>agT	p.S118S	VCX_ENST00000341408.4_Silent_p.S118S	NM_013452.2	NP_038480.2	Q9H320	VCX1_HUMAN	variable charge, X-linked	118	10 X 10 AA tandem repeats of L-S-Q-E-S- [EQ]-V-E-E-P.|Glu-rich.				chromatin organization (GO:0006325)|ribosome assembly (GO:0042255)|spermatogenesis (GO:0007283)	nucleolus (GO:0005730)|nucleus (GO:0005634)	chromatin binding (GO:0003682)	p.S118S(1)		NS(1)|endometrium(4)|large_intestine(2)|lung(1)|skin(1)|upper_aerodigestive_tract(1)	10		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)				GTCAGGAGAGCGAGGTGGAAG	0.637																																																1	Substitution - coding silent(1)	endometrium(1)											54	67	62					X																	7811790		2129	4090	6219	SO:0001819	synonymous_variant	26609			AF167081	CCDS14128.1	Xp22.31	2008-02-05	2003-09-12		ENSG00000182583	ENSG00000182583			12667	protein-coding gene	gene with protein product		300229	"variable charge, X chromosome"			10607842, 10903929	Standard	NM_013452		Approved	VCX1, VCX10R, VCX-10r, VCX-B1	uc004crz.3	Q9H320	OTTHUMG00000028608	ENST00000381059.3:c.354C>T	X.37:g.7811790C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0JNS5|Q4V774|Q9P0H3	Silent	SNP	ENST00000381059.3	37	CCDS14128.1																																																																																				0.637	VCX-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000071474.1	NM_013452		T	7811790	C	T	7811790	2	4	614	1	0	0	0	0	0	0	0	1	17154	767	27	1		1	VCX	23	7811790	Silent	SNP	C	TCGA-IA-A40X-01A-11D-A25F-10		7811790	147458770	40	37447										
FAM48B1	100130302	hgsc.bcm.edu	37	chrX	24382384	24382385	+	IGR	DNP	GC	GC	AT													0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	ctgctgctattgctgctgctGctgctgctgctgctgctgct							TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chrX:24382384_24382385GC>AT								AC004552.1 (15361 upstream) : PDK3 (100952 downstream)																							tgctgctgctgctgctgctgct	0.579																																																0																																										SO:0001628	intergenic_variant	100130302																															X.37:g.24382384_24382385delinsAT		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	DNP		37																																																																																				0	0.579									AT	24382385	GC	AT	24382384	1	1	614	0	1	0	0	0	0	0	0	0	5580	1319	46	2		2	FAM48B1	23	24382384	IGR	DNP	GC	TCGA-IA-A40X-01A-11D-A25F-10	16570594	24382384	130888176	41	37448										
GAB3	139716	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	153908429	153908429	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0975609756097561	4	1	1.55094157411878	3.68348623853211	0.982262996941896	1	1	0	ctgctgcatgggggctggtgAtgctgaattgaagtccaggg	17	7	0	3			TCGA-IA-A40X-01A-11D-A25F-10	TCGA-IA-A40X-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e1217ebe-1826-41a9-b6c4-702100a66f5e	611a2445-8df1-4abd-bb6b-4954ee1dc47d	g.chrX:153908429A>G	ENST00000369575.3	-	9	1655	c.1624T>C	c.(1624-1626)Tca>Cca	p.S542P	GAB3_ENST00000496390.1_5'UTR|GAB3_ENST00000424127.2_Missense_Mutation_p.S543P	NM_001081573.1|NM_080612.2	NP_001075042.1|NP_542179.1	Q8WWW8	GAB3_HUMAN	GRB2-associated binding protein 3	542					macrophage differentiation (GO:0030225)					NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(2)|large_intestine(7)|lung(6)|ovary(2)|prostate(1)|skin(1)	25	all_cancers(53;8.15e-17)|all_epithelial(53;1.1e-10)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GGGGCTGGTGATGCTGAATTG	0.488																																																0													205	201	202					X																	153908429		2203	4300	6503	SO:0001583	missense	139716			AY057989	CCDS14760.1, CCDS48198.1, CCDS65357.1	Xq28	2013-01-10			ENSG00000160219	ENSG00000160219		"Pleckstrin homology (PH) domain containing"	17515	protein-coding gene	gene with protein product	"DOS/Gab family member 3", "Gab3 scaffolding protein"	300482				11739737	Standard	XM_005274648		Approved		uc004fmk.1	Q8WWW8	OTTHUMG00000024245	ENST00000369575.3:c.1624T>C	X.37:g.153908429A>G	ENSP00000358588:p.Ser542Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHF8|E9PB44	Missense_Mutation	SNP	ENST00000369575.3	37	CCDS14760.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	17.60|17.60	3.430652|3.430652	0.62844|0.62844	.|.	.|.	ENSG00000160219|ENSG00000160219	ENST00000454973|ENST00000369575;ENST00000424127	.|T;T	.|0.28895	.|1.59;1.91	5.36|5.36	4.2|4.2	0.49525|0.49525	.|.	.|0.063412	.|0.64402	.|D	.|0.000004	T|T	0.54775|0.54775	0.1879|0.1879	M|M	0.84219|0.84219	2.685|2.685	0.52099|0.52099	D|D	0.999946|0.999946	.|D;D	.|0.76494	.|0.999;0.999	.|D;D	.|0.83275	.|0.996;0.996	T|T	0.55829|0.55829	-0.8079|-0.8079	5|10	.|0.72032	.|D	.|0.01	-5.3879|-5.3879	8.3095|8.3095	0.32062|0.32062	0.9048:0.0:0.0952:0.0|0.9048:0.0:0.0952:0.0	.|.	.|543;542	.|E9PB44;Q8WWW8	.|.;GAB3_HUMAN	T|P	23|542;543	.|ENSP00000358588:S542P;ENSP00000399588:S543P	.|ENSP00000358588:S542P	I|S	-|-	2|1	0|0	GAB3|GAB3	153561623|153561623	0.998000|0.998000	0.40836|0.40836	0.338000|0.338000	0.25549|0.25549	0.747000|0.747000	0.42532|0.42532	3.865000|3.865000	0.56033|0.56033	0.695000|0.695000	0.31675|0.31675	0.412000|0.412000	0.27726|0.27726	ATC|TCA		0.488	GAB3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000061192.2	NM_001081573		G	153908429	A	G	153908429	3	3	614	1	0	0	0	0	1	0	0	0	6157	333	12	3	144	3	GAB3	23	153908429	Missense_Mutation	SNP	A	TCGA-IA-A40X-01A-11D-A25F-10	129526045	153908429	1362131	42	37449										
TAS1R2	80834	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	19181215	19181215	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ggcgctggcgctcctctgacGtcatgttctggttgggctgc	15	12	3	1	rs79635934	byFrequency	TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr1:19181215G>A	ENST00000375371.3	-	3	770	c.749C>T	c.(748-750)aCg>aTg	p.T250M	RP13-279N23.2_ENST00000494072.3_3'UTR	NM_152232.2	NP_689418.2	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2	250					detection of chemical stimulus involved in sensory perception of sweet taste (GO:0001582)|G-protein coupled receptor signaling pathway (GO:0007186)|positive regulation of cytokinesis (GO:0032467)|sensory perception of sweet taste (GO:0050916)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	protein heterodimerization activity (GO:0046982)|taste receptor activity (GO:0008527)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(4)|large_intestine(10)|lung(14)|ovary(1)|pancreas(3)|prostate(1)|skin(3)|stomach(1)	45		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;3.56e-05)|Kidney(64;0.000177)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	Aspartame(DB00168)	CTCCTCTGACGTCATGTTCTG	0.657													G|||	2	0.000399361	0.0008	0.0	5008	,	,		20261	0.0		0.0	False		,,,				2504	0.001															0													57	51	53					1																	19181215		2203	4300	6503	SO:0001583	missense	80834				CCDS187.1	1p36.13	2012-08-22	2003-03-07		ENSG00000179002	ENSG00000179002		"Taste receptors / Type 1", "GPCR / Unclassified : Taste receptors"	14905	protein-coding gene	gene with protein product		606226	"G protein-coupled receptor 71"	GPR71			Standard	NM_152232		Approved	T1R2, TR2	uc001bba.1	Q8TE23	OTTHUMG00000002442	ENST00000375371.3:c.749C>T	1.37:g.19181215G>A	ENSP00000364520:p.Thr250Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TZ19	Missense_Mutation	SNP	ENST00000375371.3	37	CCDS187.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	G	4.948	0.176107	0.09443	.	.	ENSG00000179002	ENST00000375371	D	0.83335	-1.71	4.99	0.249	0.15531	Extracellular ligand-binding receptor (1);	0.889934	0.09444	N	0.801346	T	0.70894	0.3276	L	0.40543	1.245	0.09310	N	1	B	0.27679	0.185	B	0.29176	0.099	T	0.56950	-0.7894	10	0.32370	T	0.25	.	0.6727	0.00861	0.2718:0.2522:0.3128:0.1632	.	250	Q8TE23	TS1R2_HUMAN	M	250	ENSP00000364520:T250M	ENSP00000364520:T250M	T	-	2	0	TAS1R2	19053802	0.005000	0.15991	0.001000	0.08648	0.002000	0.02628	0.849000	0.27723	0.185000	0.20105	-0.254000	0.11334	ACG		0.657	TAS1R2-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000006953.1			A	19181215	G	A	19181215	3	1	615	1	0	0	0	0	1	0	0	0	15575	1145	40	1	1786	1	TAS1R2	1	19181215	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10		19181215	230069406	1	37450										
VCAM1	7412	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	101198018	101198018	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tggtcagcccttcctccatcCtggaggaaggcagttctgtg	12	12	2	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr1:101198018C>G	ENST00000294728.2	+	7	1671	c.1570C>G	c.(1570-1572)Ctg>Gtg	p.L524V	VCAM1_ENST00000347652.2_Missense_Mutation_p.L432V|VCAM1_ENST00000370115.1_Missense_Mutation_p.L325V|VCAM1_ENST00000370119.4_Missense_Mutation_p.L462V	NM_001078.3	NP_001069.1	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1	524	Ig-like C2-type 6.				acute inflammatory response (GO:0002526)|aging (GO:0007568)|amine metabolic process (GO:0009308)|B cell differentiation (GO:0030183)|cell adhesion (GO:0007155)|cell chemotaxis (GO:0060326)|cell-matrix adhesion (GO:0007160)|cellular response to glucose stimulus (GO:0071333)|cellular response to tumor necrosis factor (GO:0071356)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|chorio-allantoic fusion (GO:0060710)|chronic inflammatory response (GO:0002544)|cytokine-mediated signaling pathway (GO:0019221)|extracellular matrix organization (GO:0030198)|heart development (GO:0007507)|heterophilic cell-cell adhesion (GO:0007157)|interferon-gamma-mediated signaling pathway (GO:0060333)|leukocyte cell-cell adhesion (GO:0007159)|leukocyte tethering or rolling (GO:0050901)|membrane to membrane docking (GO:0022614)|oxidation-reduction process (GO:0055114)|positive regulation of T cell proliferation (GO:0042102)|regulation of immune response (GO:0050776)|response to ethanol (GO:0045471)|response to hypoxia (GO:0001666)|response to ionizing radiation (GO:0010212)|response to lipopolysaccharide (GO:0032496)|response to nicotine (GO:0035094)|response to nutrient (GO:0007584)|response to zinc ion (GO:0010043)|viral process (GO:0016032)	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex (GO:0071065)|apical part of cell (GO:0045177)|cell surface (GO:0009986)|early endosome (GO:0005769)|endoplasmic reticulum (GO:0005783)|external side of plasma membrane (GO:0009897)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|microvillus (GO:0005902)|plasma membrane (GO:0005886)|podosome (GO:0002102)|sarcolemma (GO:0042383)	cell adhesion molecule binding (GO:0050839)|integrin binding (GO:0005178)|primary amine oxidase activity (GO:0008131)			central_nervous_system(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|liver(1)|lung(27)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	56		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	TTCCTCCATCCTGGAGGAAGG	0.537																																																0													66	70	69					1																	101198018		2203	4300	6503	SO:0001583	missense	7412			M60335	CCDS773.1, CCDS774.1, CCDS55617.1	1p32-p31	2014-01-30			ENSG00000162692	ENSG00000162692		"CD molecules", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Endogenous ligands"	12663	protein-coding gene	gene with protein product		192225					Standard	NM_080682		Approved	CD106	uc001dti.3	P19320	OTTHUMG00000010982	ENST00000294728.2:c.1570C>G	1.37:g.101198018C>G	ENSP00000294728:p.Leu524Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6R7|B4DKS4|E9PDD1|Q6NUP8	Missense_Mutation	SNP	ENST00000294728.2	37	CCDS773.1	.	.	.	.	.	.	.	.	.	.	C	2.960	-0.214840	0.06101	.	.	ENSG00000162692	ENST00000370119;ENST00000347652;ENST00000294728;ENST00000370115	T;T;T;T	0.11712	2.75;2.75;2.75;2.75	5.57	-3.82	0.04281	Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.317042	0.32884	N	0.005531	T	0.00524	0.0017	N	0.01048	-1.04	0.09310	N	1	B;B;B	0.19706	0.001;0.038;0.0	B;B;B	0.23150	0.007;0.044;0.008	T	0.33675	-0.9859	10	0.02654	T	1	-0.0111	4.6967	0.12808	0.1001:0.1771:0.5014:0.2214	.	462;432;524	E9PDD1;P19320-2;P19320	.;.;VCAM1_HUMAN	V	462;432;524;325	ENSP00000359137:L462V;ENSP00000304611:L432V;ENSP00000294728:L524V;ENSP00000359133:L325V	ENSP00000294728:L524V	L	+	1	2	VCAM1	100970606	0.000000	0.05858	0.002000	0.10522	0.771000	0.43674	-1.681000	0.01937	-0.367000	0.08052	-0.140000	0.14226	CTG		0.537	VCAM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030213.1	NM_001078		G	101198018	C	G	101198018	3	3	615	1	0	0	0	0	1	0	0	0	17149	680	24	4	1596	4	VCAM1	1	101198018	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	82016803	101198018	148052603	2	37451										
CLCC1	23155	broad.mit.edu	37	chr1	109477463	109477464	+	Frame_Shift_Ins	INS	-	-	T													0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tgtcttggccagagacaggcINSttggccgactggctgctttc					rs371820348		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr1:109477463_109477464insT	ENST00000369971.2	-	11	1613_1614	c.1484_1485insA	c.(1483-1485)aagfs	p.K495fs	AKNAD1_ENST00000357393.4_Intron|CLCC1_ENST00000415331.1_Frame_Shift_Ins_p.K445fs|CLCC1_ENST00000369970.3_Frame_Shift_Ins_p.K445fs|CLCC1_ENST00000482889.1_Intron|CLCC1_ENST00000302500.4_Frame_Shift_Ins_p.K374fs|CLCC1_ENST00000356970.2_Frame_Shift_Ins_p.K495fs|CLCC1_ENST00000369968.2_Frame_Shift_Ins_p.K310fs|CLCC1_ENST00000348264.2_Frame_Shift_Ins_p.K310fs|CLCC1_ENST00000369976.1_Intron|CLCC1_ENST00000369969.2_Frame_Shift_Ins_p.K374fs	NM_001048210.1	NP_001041675.1	Q96S66	CLCC1_HUMAN	chloride channel CLIC-like 1	495						chloride channel complex (GO:0034707)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)	chloride channel activity (GO:0005254)			autonomic_ganglia(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(7)|liver(1)|skin(1)	14		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.231)		CAGAGACAGGCTTGGCCGACTG	0.55																																																0																																										SO:0001589	frameshift_variant	23155			AB018304	CCDS793.1, CCDS41362.1, CCDS60214.1, CCDS60215.1	1p13.3	2008-02-05			ENSG00000121940	ENSG00000121940			29675	protein-coding gene	gene with protein product	"Mid1-related chloride channel (yeast)"					9872452, 11279057	Standard	NM_001048210		Approved	MCLC	uc001dwf.2	Q96S66	OTTHUMG00000011732	ENST00000369971.2:c.1485dupA	1.37:g.109477465_109477465dupT	ENSP00000358988:p.Lys495fs	Somatic		WXS	Illumina HiSeq	Phase_I	O94861|Q8WYP8|Q8WYP9|Q9BU25	Frame_Shift_Ins	INS	ENST00000369971.2	37	CCDS41362.1																																																																																				0.55	CLCC1-203	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032405.1	NM_015127		T	109477464	-	T	109477463	7	5	615	1	0	1	1	0	0	0	0	0	3462	796	28	0	174	0	CLCC1	1	109477463	Frame_Shift_Ins	INS	-	TCGA-IA-A40Y-01A-11D-A25F-10	8279445	109477463	139773158	3	37452										
GON4L	54856	ucsc.edu	37	chr1	155726782	155726782	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tggaccccgatctcttttttCctcttgttctttgaggctgt	8	11	3	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr1:155726782C>T	ENST00000368331.1	-	27	5532	c.5484G>A	c.(5482-5484)agG>agA	p.R1828R	GON4L_ENST00000437809.1_Silent_p.R1828R|GON4L_ENST00000271883.5_Silent_p.R1828R	NM_001282858.1|NM_001282860.1	NP_001269787.1|NP_001269789.1	Q3T8J9	GON4L_HUMAN	gon-4-like (C. elegans)	1828					regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			NS(2)|breast(4)|cervix(1)|endometrium(7)|kidney(4)|large_intestine(7)|lung(10)|ovary(3)|prostate(3)|skin(2)|stomach(1)|urinary_tract(1)	45	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					TCTCTTTTTTCCTCTTGTTCT	0.438																																																0													120	114	116					1																	155726782		1859	4096	5955	SO:0001819	synonymous_variant	54856			AB046826	CCDS1121.1, CCDS44242.1, CCDS60296.1	1q22	2013-10-31	2006-11-08	2006-02-16	ENSG00000116580	ENSG00000116580			25973	protein-coding gene	gene with protein product		610393	"gon-4 homolog (C.elegans)"	GON4		16545939, 21454521	Standard	XM_005245283		Approved	FLJ20203, GON-4	uc001fly.1	Q3T8J9	OTTHUMG00000014106	ENST00000368331.1:c.5484G>A	1.37:g.155726782C>T		Somatic		WXS	Illumina HiSeq		B7ZBL4|Q14C93|Q3T8J8|Q5VYZ5|Q5W0D5|Q6AWA6|Q6P1Q6|Q7Z3L3|Q8IY79|Q9BQI1|Q9HCG6	Silent	SNP	ENST00000368331.1	37																																																																																					0.438	GON4L-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_032292		T	155726782	C	T	155726782	2	4	615	1	0	0	0	0	0	0	0	1	6579	854	30	2		2	GON4L	1	155726782	Silent	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	46249319	155726782	93523839	4	37453										
TTC24	164118	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	156552861	156552861	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ggggcagcggtgggagcaggGccggagctttggcagcctgg	22	9	0	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr1:156552861G>C	ENST00000368237.3	+	3	938	c.938G>C	c.(937-939)gGc>gCc	p.G313A	TTC24_ENST00000368236.3_Missense_Mutation_p.G313A|TTC24_ENST00000478081.1_Intron			A2A3L6	TTC24_HUMAN	tetratricopeptide repeat domain 24	313										breast(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(10)|pancreas(1)|prostate(1)	20	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TGGGAGCAGGGCCGGAGCTTT	0.657																																																0													33	39	37					1																	156552861		2031	4169	6200	SO:0001583	missense	164118				CCDS53379.1	1q22	2013-01-10			ENSG00000187862	ENSG00000187862		"Tetratricopeptide (TTC) repeat domain containing"	32348	protein-coding gene	gene with protein product							Standard	NM_001105669		Approved		uc021pbf.1	A2A3L6	OTTHUMG00000033202	ENST00000368237.3:c.938G>C	1.37:g.156552861G>C	ENSP00000357220:p.Gly313Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3H7	Missense_Mutation	SNP	ENST00000368237.3	37	CCDS53379.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	7.276|7.276	0.608179|0.608179	0.14002|0.14002	.|.	.|.	ENSG00000187862|ENSG00000187862	ENST00000340086;ENST00000413282|ENST00000368236;ENST00000368237	.|T;T	.|0.70869	.|-0.52;-0.52	4.72|4.72	4.72|4.72	0.59763|0.59763	.|Tetratricopeptide-like helical (1);Tetratricopeptide repeat-containing (1);	.|0.000000	.|0.48767	.|D	.|0.000175	T|T	0.56761|0.56761	0.2007|0.2007	L|L	0.33245|0.33245	0.995|0.995	0.37041|0.37041	D|D	0.897135|0.897135	.|D	.|0.62365	.|0.991	.|P	.|0.60541	.|0.876	T|T	0.59402|0.59402	-0.7461|-0.7461	5|10	.|0.02654	.|T	.|1	-14.4059|-14.4059	13.0458|13.0458	0.58925|0.58925	0.0:0.163:0.8369:0.0|0.0:0.163:0.8369:0.0	.|.	.|313	.|A2A3L6	.|TTC24_HUMAN	P|A	86;78|313	.|ENSP00000357219:G313A;ENSP00000357220:G313A	.|ENSP00000357219:G313A	A|G	+|+	1|2	0|0	TTC24|TTC24	154819485|154819485	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.997000|0.997000	0.91878|0.91878	4.445000|4.445000	0.60007|0.60007	2.474000|2.474000	0.83562|0.83562	0.455000|0.455000	0.32223|0.32223	GCC|GGC		0.657	TTC24-006	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000158547.1	XM_089384		C	156552861	G	C	156552861	3	2	615	1	0	0	0	0	1	0	0	0	16704	1203	42	4	948	4	TTC24	1	156552861	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	826079	156552861	92697760	5	37454										
SPTA1	6708	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	158596772	158596772	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ctatcttggaagaaatctctTtgttctgactttcctcctgc	6	11	3	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr1:158596772T>C	ENST00000368147.4	-	41	5870	c.5690A>G	c.(5689-5691)aAa>aGa	p.K1897R		NM_003126.2	NP_003117.2	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1897					actin filament capping (GO:0051693)|actin filament organization (GO:0007015)|axon guidance (GO:0007411)|hemopoiesis (GO:0030097)|lymphocyte homeostasis (GO:0002260)|plasma membrane organization (GO:0007009)|porphyrin-containing compound biosynthetic process (GO:0006779)|positive regulation of protein binding (GO:0032092)|positive regulation of T cell proliferation (GO:0042102)|regulation of cell shape (GO:0008360)	actin cytoskeleton (GO:0015629)|cuticular plate (GO:0032437)|cytosol (GO:0005829)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)|spectrin (GO:0008091)|spectrin-associated cytoskeleton (GO:0014731)	actin filament binding (GO:0051015)|calcium ion binding (GO:0005509)|structural constituent of cytoskeleton (GO:0005200)			NS(3)|breast(7)|cervix(1)|endometrium(22)|kidney(9)|large_intestine(29)|liver(2)|lung(183)|ovary(5)|prostate(18)|skin(11)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(9)|urinary_tract(6)	307	all_hematologic(112;0.0378)					AGAAATCTCTTTGTTCTGACT	0.413																																																0													127	125	126					1																	158596772		1849	4090	5939	SO:0001583	missense	6708			M61877	CCDS41423.1	1q21	2014-06-23	2014-06-23		ENSG00000163554	ENSG00000163554		"EF-hand domain containing"	11272	protein-coding gene	gene with protein product	"elliptocytosis 2"	182860	"spectrin, alpha, erythrocytic 1 (elliptocytosis 2)"				Standard	NM_003126		Approved	EL2	uc001fst.1	P02549	OTTHUMG00000019636	ENST00000368147.4:c.5690A>G	1.37:g.158596772T>C	ENSP00000357129:p.Lys1897Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q15514|Q5VYL1|Q5VYL2|Q6LDY5	Missense_Mutation	SNP	ENST00000368147.4	37	CCDS41423.1	.	.	.	.	.	.	.	.	.	.	T	12.07	1.827369	0.32329	.	.	ENSG00000163554	ENST00000368148;ENST00000368147	T;T	0.53640	0.61;0.61	4.87	3.73	0.42828	.	.	.	.	.	T	0.15435	0.0372	N	0.21448	0.665	0.29575	N	0.849575	B	0.02656	0.0	B	0.12837	0.008	T	0.14643	-1.0465	9	0.46703	T	0.11	.	8.4299	0.32750	0.3124:0.0:0.0:0.6876	.	1897	P02549	SPTA1_HUMAN	R	1897;1894	ENSP00000357130:K1897R;ENSP00000357129:K1894R	ENSP00000357129:K1894R	K	-	2	0	SPTA1	156863396	0.976000	0.34144	0.910000	0.35882	0.968000	0.65278	0.874000	0.28065	0.864000	0.35578	0.460000	0.39030	AAA		0.413	SPTA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051851.3	NM_003126		C	158596772	T	C	158596772	3	2	615	1	0	0	0	0	1	0	0	0	15128	1841	64	3	1617	3	SPTA1	1	158596772	Missense_Mutation	SNP	T	TCGA-IA-A40Y-01A-11D-A25F-10	2043911	158596772	90653849	6	37455										
OLFML2B	25903	broad.mit.edu;bcgsc.ca	37	chr1	161989778	161989778	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ccctcgcagggattgagggcCgatgggggtgctacacaggc	17	11	0	1	rs138821383		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr1:161989778C>G	ENST00000294794.3	-	2	792	c.369G>C	c.(367-369)tcG>tcC	p.S123S	OLFML2B_ENST00000367940.2_Silent_p.S123S	NM_015441.1	NP_056256.1	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B	123					extracellular matrix organization (GO:0030198)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)	extracellular matrix binding (GO:0050840)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(11)|lung(22)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	48	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			GATTGAGGGCCGATGGGGGTG	0.592																																																0													69	68	68					1																	161989778		2203	4300	6503	SO:0001819	synonymous_variant	25903			BX648975	CCDS1236.1, CCDS72966.1	1q23.1	2008-02-05			ENSG00000162745	ENSG00000162745			24558	protein-coding gene	gene with protein product							Standard	XM_005245075		Approved	DKFZP586L151	uc001gbu.3	Q68BL8	OTTHUMG00000024047	ENST00000294794.3:c.369G>C	1.37:g.161989778C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZA39|Q5VU96|Q6NX46|Q86X11|Q9Y3X6	Silent	SNP	ENST00000294794.3	37	CCDS1236.1																																																																																				0.592	OLFML2B-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000060552.2	NM_015441		G	161989778	C	G	161989778	2	3	615	1	0	0	0	0	0	0	0	1	10865	639	23	4		4	OLFML2B	1	161989778	Silent	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	3393006	161989778	87260843	7	37456										
HHIPL2	79802	broad.mit.edu;bcgsc.ca	37	chr1	222715413	222715413	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gcctgtcccccgtccccagtGaatatgtacatatagccatc	7	15	0	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr1:222715413G>A	ENST00000343410.6	-	3	1117	c.1059C>T	c.(1057-1059)ttC>ttT	p.F353F		NM_024746.3	NP_079022.2	Q6UWX4	HIPL2_HUMAN	HHIP-like 2	353					carbohydrate metabolic process (GO:0005975)	extracellular region (GO:0005576)	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor (GO:0016901)|quinone binding (GO:0048038)	p.F353F(1)		NS(2)|endometrium(8)|kidney(4)|large_intestine(7)|lung(28)|ovary(1)|prostate(3)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	59				GBM - Glioblastoma multiforme(131;0.0185)		CGTCCCCAGTGAATATGTACA	0.507																																																1	Substitution - coding silent(1)	stomach(1)											69	66	67					1																	222715413		2203	4300	6503	SO:0001819	synonymous_variant	79802			BC007638	CCDS1530.2	1q41	2008-02-05	2008-01-16	2008-01-16	ENSG00000143512	ENSG00000143512			25842	protein-coding gene	gene with protein product			"KIAA1822-like"	KIAA1822L		12975309	Standard	NM_024746		Approved	FLJ13840	uc001hnh.1	Q6UWX4	OTTHUMG00000037545	ENST00000343410.6:c.1059C>T	1.37:g.222715413G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6GU65|Q96BT4|Q96BU5|Q9H8A0	Silent	SNP	ENST00000343410.6	37	CCDS1530.2																																																																																				0.507	HHIPL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091499.2	NM_024746		A	222715413	G	A	222715413	2	1	615	1	0	0	0	0	0	0	0	1	7101	1281	45	2		2	HHIPL2	1	222715413	Silent	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	60725635	222715413	26535208	8	37457										
RYR2	6262	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	237993878	237993878	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	atgattacttcgacacagtgCcacatggctttgaaacccac	7	12	0	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr1:237993878C>T	ENST00000366574.2	+	103	15021	c.14704C>T	c.(14704-14706)Cca>Tca	p.P4902S	RYR2_ENST00000360064.6_Missense_Mutation_p.P4908S|RYR2_ENST00000542537.1_Missense_Mutation_p.P4886S	NM_001035.2	NP_001026.2	Q92736	RYR2_HUMAN	ryanodine receptor 2 (cardiac)	4902			P -> L (in CPVT1). {ECO:0000269|PubMed:14571276}.		BMP signaling pathway (GO:0030509)|calcium ion transport (GO:0006816)|calcium ion transport into cytosol (GO:0060402)|calcium-mediated signaling (GO:0019722)|calcium-mediated signaling using intracellular calcium source (GO:0035584)|canonical Wnt signaling pathway (GO:0060070)|cardiac muscle contraction (GO:0060048)|cardiac muscle hypertrophy (GO:0003300)|cell communication by electrical coupling involved in cardiac conduction (GO:0086064)|cellular calcium ion homeostasis (GO:0006874)|cellular response to caffeine (GO:0071313)|cellular response to epinephrine stimulus (GO:0071872)|cytosolic calcium ion homeostasis (GO:0051480)|detection of calcium ion (GO:0005513)|embryonic heart tube morphogenesis (GO:0003143)|establishment of protein localization to endoplasmic reticulum (GO:0072599)|ion transmembrane transport (GO:0034220)|left ventricular cardiac muscle tissue morphogenesis (GO:0003220)|positive regulation of calcium-transporting ATPase activity (GO:1901896)|positive regulation of heart rate (GO:0010460)|positive regulation of ryanodine-sensitive calcium-release channel activity by adrenergic receptor signaling pathway involved in positive regulation of cardiac muscle contraction (GO:0086094)|positive regulation of sequestering of calcium ion (GO:0051284)|Purkinje myocyte to ventricular cardiac muscle cell signaling (GO:0086029)|regulation of cardiac muscle contraction (GO:0055117)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of heart rate (GO:0002027)|release of sequestered calcium ion into cytosol (GO:0051209)|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0014808)|response to caffeine (GO:0031000)|response to hypoxia (GO:0001666)|response to redox state (GO:0051775)|sarcoplasmic reticulum calcium ion transport (GO:0070296)|transmembrane transport (GO:0055085)|type B pancreatic cell apoptotic process (GO:0097050)|ventricular cardiac muscle cell action potential (GO:0086005)	calcium channel complex (GO:0034704)|extracellular vesicular exosome (GO:0070062)|junctional sarcoplasmic reticulum membrane (GO:0014701)|membrane (GO:0016020)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|sarcoplasmic reticulum (GO:0016529)|sarcoplasmic reticulum membrane (GO:0033017)|smooth endoplasmic reticulum (GO:0005790)|Z disc (GO:0030018)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)|calcium-induced calcium release activity (GO:0048763)|calcium-release channel activity (GO:0015278)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|intracellular ligand-gated calcium channel activity (GO:0005218)|ion channel binding (GO:0044325)|protein kinase A catalytic subunit binding (GO:0034236)|protein kinase A regulatory subunit binding (GO:0034237)|ryanodine-sensitive calcium-release channel activity (GO:0005219)|suramin binding (GO:0043924)			NS(4)|breast(8)|central_nervous_system(11)|cervix(2)|endometrium(39)|haematopoietic_and_lymphoid_tissue(5)|kidney(17)|large_intestine(83)|liver(4)|lung(353)|ovary(18)|pancreas(5)|prostate(12)|skin(8)|stomach(1)|upper_aerodigestive_tract(12)|urinary_tract(4)	586	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)			CGACACAGTGCCACATGGCTT	0.433																																																0													213	200	204					1																	237993878		1968	4170	6138	SO:0001583	missense	6262			X91869	CCDS55691.1	1q43	2014-09-17			ENSG00000198626	ENSG00000198626		"Ion channels / Ryanodine receptors", "EF-hand domain containing"	10484	protein-coding gene	gene with protein product		180902	"arrhythmogenic right ventricular dysplasia 2"	ARVD2		2380170, 8406504, 11159936	Standard	NM_001035		Approved	ARVC2, VTSIP	uc001hyl.1	Q92736	OTTHUMG00000039543	ENST00000366574.2:c.14704C>T	1.37:g.237993878C>T	ENSP00000355533:p.Pro4902Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q15411|Q546N8|Q5T3P2	Missense_Mutation	SNP	ENST00000366574.2	37	CCDS55691.1	.	.	.	.	.	.	.	.	.	.	C	34	5.362728	0.95877	.	.	ENSG00000198626	ENST00000366574;ENST00000360064;ENST00000542537	D;D;D	0.96774	-4.12;-4.08;-4.11	5.39	5.39	0.77823	.	0.000000	0.64402	D	0.000007	D	0.97539	0.9194	L	0.56280	1.765	0.80722	D	1	D	0.89917	1.0	D	0.80764	0.994	D	0.98376	1.0556	10	0.87932	D	0	-8.5845	19.143	0.93452	0.0:1.0:0.0:0.0	.	4902	Q92736	RYR2_HUMAN	S	4902;4908;4886	ENSP00000355533:P4902S;ENSP00000353174:P4908S;ENSP00000443798:P4886S	ENSP00000353174:P4908S	P	+	1	0	RYR2	236060501	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.773000	0.85462	2.509000	0.84616	0.561000	0.74099	CCA		0.433	RYR2-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000095402.2	NM_001035		T	237993878	C	T	237993878	3	4	615	1	0	0	0	0	1	0	0	0	13782	739	26	2	15114	2	RYR2	1	237993878	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	15278465	237993878	11256743	9	37458										
CHRM3	1131	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	240072456	240072456	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	agtgtgacaaaaaaaagaggCgcaagcagcagtaccagcag	12	8	0	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr1:240072456C>T	ENST00000255380.4	+	5	2484	c.1705C>T	c.(1705-1707)Cgc>Tgc	p.R569C		NM_000740.2	NP_000731.1	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	569					cell proliferation (GO:0008283)|cellular protein modification process (GO:0006464)|energy reserve metabolic process (GO:0006112)|G-protein coupled acetylcholine receptor signaling pathway (GO:0007213)|G-protein coupled receptor signaling pathway (GO:0007186)|nervous system development (GO:0007399)|positive regulation of smooth muscle contraction (GO:0045987)|regulation of insulin secretion (GO:0050796)|regulation of vascular smooth muscle contraction (GO:0003056)|saliva secretion (GO:0046541)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|smooth muscle contraction (GO:0006939)	asymmetric synapse (GO:0032279)|axon terminus (GO:0043679)|cell junction (GO:0030054)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	acetylcholine binding (GO:0042166)|drug binding (GO:0008144)|G-protein coupled acetylcholine receptor activity (GO:0016907)|phosphatidylinositol phospholipase C activity (GO:0004435)|receptor activity (GO:0004872)			breast(3)|endometrium(5)|kidney(2)|large_intestine(4)|lung(19)|ovary(4)|prostate(1)|skin(12)|upper_aerodigestive_tract(1)	51	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Aclidinium(DB08897)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Anisotropine Methylbromide(DB00517)|Aripiprazole(DB01238)|Atropine(DB00572)|Brompheniramine(DB00835)|Cevimeline(DB00185)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Cryptenamine(DB00785)|Cyproheptadine(DB00434)|Darifenacin(DB00496)|Desipramine(DB01151)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Disopyramide(DB00280)|Doxepin(DB01142)|Fesoterodine(DB06702)|Glycopyrrolate(DB00986)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Imipramine(DB00458)|Ipratropium bromide(DB00332)|Isopropamide(DB01625)|Ketamine(DB01221)|Loxapine(DB00408)|Maprotiline(DB00934)|Mepenzolate(DB04843)|Methacholine(DB06709)|Methotrimeprazine(DB01403)|Methylscopolamine bromide(DB00462)|Metixene(DB00340)|Mivacurium(DB01226)|Nicardipine(DB00622)|Nortriptyline(DB00540)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pancuronium(DB01337)|Paroxetine(DB00715)|Pethidine(DB00454)|Pilocarpine(DB01085)|Pipecuronium(DB01338)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Scopolamine(DB00747)|Solifenacin(DB01591)|Succinylcholine(DB00202)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tramadol(DB00193)|Trihexyphenidyl(DB00376)|Trimipramine(DB00726)|Tropicamide(DB00809)|Ziprasidone(DB00246)	AAAAAAGAGGCGCAAGCAGCA	0.498																																																0													49	49	49					1																	240072456		2203	4300	6503	SO:0001583	missense	1131			U29589	CCDS1616.1	1q43	2012-09-20			ENSG00000133019	ENSG00000133019		"Cholinergic receptors", "GPCR / Class A : Cholinergic receptors, muscarinic"	1952	protein-coding gene	gene with protein product	"acetylcholine receptor, muscarinic 3"	118494					Standard	XM_005273032		Approved		uc001hyp.3	P20309	OTTHUMG00000039649	ENST00000255380.4:c.1705C>T	1.37:g.240072456C>T	ENSP00000255380:p.Arg569Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAJ8|Q4QRI3|Q5VXY2|Q9HB60	Missense_Mutation	SNP	ENST00000255380.4	37	CCDS1616.1	.	.	.	.	.	.	.	.	.	.	C	18.30	3.593426	0.66219	.	.	ENSG00000133019	ENST00000255380	T	0.38887	1.11	5.58	5.58	0.84498	.	0.120714	0.51477	D	0.000092	T	0.58637	0.2136	L	0.58101	1.795	0.80722	D	1	D	0.89917	1.0	P	0.57324	0.818	T	0.60459	-0.7259	10	0.72032	D	0.01	-16.0194	19.5758	0.95444	0.0:1.0:0.0:0.0	.	569	P20309	ACM3_HUMAN	C	569	ENSP00000255380:R569C	ENSP00000255380:R569C	R	+	1	0	CHRM3	238139079	0.996000	0.38824	0.992000	0.48379	0.986000	0.74619	3.339000	0.52135	2.632000	0.89209	0.655000	0.94253	CGC		0.498	CHRM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000095644.2	NM_000740		T	240072456	C	T	240072456	3	4	615	1	0	0	0	0	1	0	0	0	3380	768	27	1	1707	1	CHRM3	1	240072456	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	2078578	240072456	9178165	10	37459										
OR2L3	391192	broad.mit.edu	37	chr1	248224862	248224862	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	atcatctatagcctgaggaaCaaggaggtgatgggggccct	14	8	2	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr1:248224862C>A	ENST00000359959.3	+	1	879	c.879C>A	c.(877-879)aaC>aaA	p.N293K	OR2L13_ENST00000366478.2_Intron	NM_001004687.1	NP_001004687.1	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L, member 3	293						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			cervix(1)|endometrium(2)|large_intestine(7)|lung(28)|prostate(1)|skin(1)|urinary_tract(1)	41	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)			GCCTGAGGAACAAGGAGGTGA	0.498																																																0													57	58	58					1																	248224862		2203	4300	6503	SO:0001583	missense	391192			AB065950	CCDS31104.1	1q44	2012-08-09			ENSG00000198128	ENSG00000198128		"GPCR / Class A : Olfactory receptors"	15009	protein-coding gene	gene with protein product							Standard	NM_001004687		Approved		uc001idx.1	Q8NG85	OTTHUMG00000040195	ENST00000359959.3:c.879C>A	1.37:g.248224862C>A	ENSP00000353044:p.Asn293Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B9EH44	Missense_Mutation	SNP	ENST00000359959.3	37	CCDS31104.1	.	.	.	.	.	.	.	.	.	.	C	11.72	1.724007	0.30593	.	.	ENSG00000198128	ENST00000359959	T	0.50001	0.76	2.01	2.01	0.26516	.	.	.	.	.	T	0.71230	0.3315	H	0.96889	3.9	0.26668	N	0.971781	D	0.54601	0.967	P	0.53224	0.721	T	0.67534	-0.5646	9	0.87932	D	0	.	11.9452	0.52924	0.0:1.0:0.0:0.0	.	293	Q8NG85	OR2L3_HUMAN	K	293	ENSP00000353044:N293K	ENSP00000353044:N293K	N	+	3	2	OR2L3	246291485	0.000000	0.05858	0.983000	0.44433	0.575000	0.36095	-1.063000	0.03465	1.119000	0.41883	0.456000	0.33151	AAC		0.498	OR2L3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096852.1	NM_001004687		A	248224862	C	A	248224862	3	1	615	1	0	0	0	0	1	0	0	0	11015	477	17	4	881	4	OR2L3	1	248224862	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	8152406	248224862	1025759	11	37460										
RAD51AP2	729475	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	17699184	17699184	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ctcatttctaattccatgtaTatcgtgtatagaggtgctgg	9	7	2	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr2:17699184T>G	ENST00000399080.2	-	1	522	c.499A>C	c.(499-501)Ata>Cta	p.I167L		NM_001099218.2	NP_001092688.1	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	167										endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(10)|liver(1)|lung(17)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	49	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					ATTCCATGTATATCGTGTATA	0.423																																																0													64	62	63					2																	17699184		1913	4131	6044	SO:0001583	missense	729475			AK310498	CCDS42656.1	2p24.2	2009-01-13			ENSG00000214842	ENSG00000214842			34417	protein-coding gene	gene with protein product						16990250	Standard	NM_001099218		Approved	FLJ17540	uc002rcl.1	Q09MP3	OTTHUMG00000151761	ENST00000399080.2:c.499A>C	2.37:g.17699184T>G	ENSP00000382030:p.Ile167Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000399080.2	37	CCDS42656.1	.	.	.	.	.	.	.	.	.	.	T	10.22	1.291283	0.23564	.	.	ENSG00000214842	ENST00000399080	T	0.30182	1.54	3.6	-4.94	0.03057	.	.	.	.	.	T	0.18509	0.0444	N	0.19112	0.55	0.09310	N	1	B	0.16396	0.017	B	0.16289	0.015	T	0.21690	-1.0238	9	0.48119	T	0.1	.	12.4465	0.55653	0.0:0.7287:0.0:0.2713	.	167	Q09MP3	R51A2_HUMAN	L	167	ENSP00000382030:I167L	ENSP00000382030:I167L	I	-	1	0	RAD51AP2	17562665	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-2.991000	0.00657	-1.048000	0.03238	-0.290000	0.09829	ATA		0.423	RAD51AP2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323801.3	NM_001099218		G	17699184	T	G	17699184	3	3	615	1	0	0	0	0	1	0	0	0	13000	1406	49	5	2992	5	RAD51AP2	2	17699184	Missense_Mutation	SNP	T	TCGA-IA-A40Y-01A-11D-A25F-10		17699184	225500189	12	37461										
DNMT3A	1788	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	25458669	25458669	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gctttatggagtttgacctcGtagtaatggtcctcactttg	10	8	1	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr2:25458669G>A	ENST00000264709.3	-	22	2841	c.2504C>T	c.(2503-2505)aCg>aTg	p.T835M	DNMT3A_ENST00000380746.4_Missense_Mutation_p.T646M|DNMT3A_ENST00000321117.5_Missense_Mutation_p.T835M|DNMT3A_ENST00000402667.1_Missense_Mutation_p.T612M|DNMT3A_ENST00000474887.1_5'UTR	NM_175629.2	NP_783328.1	Q9Y6K1	DNM3A_HUMAN	DNA (cytosine-5-)-methyltransferase 3 alpha	835	SAM-dependent MTase C5-type. {ECO:0000255|PROSITE-ProRule:PRU01016}.				C-5 methylation of cytosine (GO:0090116)|cellular response to amino acid stimulus (GO:0071230)|DNA methylation (GO:0006306)|DNA methylation involved in embryo development (GO:0043045)|DNA methylation involved in gamete generation (GO:0043046)|DNA methylation on cytosine within a CG sequence (GO:0010424)|hypermethylation of CpG island (GO:0044027)|methylation-dependent chromatin silencing (GO:0006346)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of gene expression by genetic imprinting (GO:0006349)|S-adenosylhomocysteine metabolic process (GO:0046498)|S-adenosylmethioninamine metabolic process (GO:0046499)|spermatogenesis (GO:0007283)	chromosome, centromeric region (GO:0000775)|cytoplasm (GO:0005737)|euchromatin (GO:0000791)|nuclear heterochromatin (GO:0005720)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA (cytosine-5-)-methyltransferase activity (GO:0003886)|DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates (GO:0051718)|DNA binding (GO:0003677)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|unmethylated CpG binding (GO:0045322)			breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(964)|kidney(3)|large_intestine(10)|lung(29)|ovary(3)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)	1021	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTTTGACCTCGTAGTAATGGT	0.438			"Mis, F, N, S"		AML																																		Rec	yes		2	2p23	1788	DNA (cytosine-5-)-methyltransferase 3 alpha		L	0													171	155	160					2																	25458669		2203	4300	6503	SO:0001583	missense	1788				CCDS1718.2, CCDS33157.1, CCDS46232.1	2p23	2014-09-17			ENSG00000119772	ENSG00000119772			2978	protein-coding gene	gene with protein product		602769				9662389, 10433969	Standard	NM_175630		Approved		uc002rgc.4	Q9Y6K1	OTTHUMG00000094777	ENST00000264709.3:c.2504C>T	2.37:g.25458669G>A	ENSP00000264709:p.Thr835Met	Somatic		WXS	Illumina HiSeq	Phase_I	E9PEB8|Q86TE8|Q86XF5|Q8IZV0|Q8WXU9	Missense_Mutation	SNP	ENST00000264709.3	37	CCDS33157.1	.	.	.	.	.	.	.	.	.	.	G	28.8	4.953779	0.92660	.	.	ENSG00000119772	ENST00000380746;ENST00000321117;ENST00000264709;ENST00000402667	D;D;D;D	0.97089	-4.24;-4.24;-4.24;-4.24	5.42	5.42	0.78866	.	0.000000	0.85682	D	0.000000	D	0.98617	0.9537	M	0.87827	2.91	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.85130	0.991;0.997	D	0.99453	1.0941	10	0.72032	D	0.01	-6.841	18.1492	0.89669	0.0:0.0:1.0:0.0	.	835;646	Q9Y6K1;E9PEB8	DNM3A_HUMAN;.	M	646;835;835;612	ENSP00000370122:T646M;ENSP00000324375:T835M;ENSP00000264709:T835M;ENSP00000384237:T612M	ENSP00000264709:T835M	T	-	2	0	DNMT3A	25312173	1.000000	0.71417	0.993000	0.49108	0.988000	0.76386	9.697000	0.98697	2.717000	0.92951	0.650000	0.86243	ACG		0.438	DNMT3A-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000211587.1	NM_022552		A	25458669	G	A	25458669	3	1	615	1	0	0	0	0	1	0	0	0	4678	1145	40	1	242	1	DNMT3A	2	25458669	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	7759485	25458669	217740704	13	37462										
C2orf70	339778	broad.mit.edu	37	chr2	26785532	26785532	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ccgagttcaatgccgcctacGtgccccctggactcatgccc	9	18	2	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr2:26785532G>T	ENST00000329615.3	+	1	83	c.52G>T	c.(52-54)Gtg>Ttg	p.V18L	C2orf70_ENST00000409392.1_5'UTR	NM_001105519.1	NP_001098989.1	A6NJV1	CB070_HUMAN	chromosome 2 open reading frame 70	18						nucleus (GO:0005634)				breast(3)|endometrium(2)|large_intestine(1)|lung(4)|prostate(1)|skin(2)	13						TGCCGCCTACGTGCCCCCTGG	0.701																																																0													17	25	23					2																	26785532		2041	4159	6200	SO:0001583	missense	339778				CCDS42661.1	2p23.3	2011-05-09			ENSG00000173557	ENSG00000173557			27938	protein-coding gene	gene with protein product	"hypothetical protein LOC339778"						Standard	NM_001105519		Approved	LOC339778	uc010eyn.3	A6NJV1	OTTHUMG00000151994	ENST00000329615.3:c.52G>T	2.37:g.26785532G>T	ENSP00000332875:p.Val18Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000329615.3	37	CCDS42661.1	.	.	.	.	.	.	.	.	.	.	g	23.4	4.409415	0.83340	.	.	ENSG00000173557	ENST00000329615	T	0.32515	1.45	5.27	5.27	0.74061	.	0.000000	0.47455	D	0.000235	T	0.40979	0.1139	M	0.68317	2.08	0.80722	D	1	D	0.53312	0.959	P	0.51895	0.683	T	0.21415	-1.0246	10	0.41790	T	0.15	-16.9952	9.9347	0.41543	0.0921:0.0:0.9079:0.0	.	18	A6NJV1	CB070_HUMAN	L	18	ENSP00000332875:V18L	ENSP00000332875:V18L	V	+	1	0	C2orf70	26639036	1.000000	0.71417	1.000000	0.80357	0.971000	0.66376	3.156000	0.50708	2.462000	0.83206	0.558000	0.71614	GTG		0.701	C2orf70-004	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353258.1	NM_001105519		T	26785532	G	T	26785532	3	4	615	1	0	0	0	0	1	0	0	0	2192	1145	40	4	54	4	C2orf70	2	26785532	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	1326863	26785532	216413841	14	37463										
CEBPZ	10153	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	37430124	37430124	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	atacaaataggctggaatcaTttaagtttcttttctttttt	5	5	3	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr2:37430124T>A	ENST00000234170.5	-	14	3057	c.2912A>T	c.(2911-2913)aAt>aTt	p.N971I	AC007390.5_ENST00000397064.2_Intron|AC007390.5_ENST00000406711.1_Intron|AC007390.5_ENST00000392061.2_Intron|AC007390.5_ENST00000402297.1_3'UTR	NM_005760.2	NP_005751.2	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein (C/EBP), zeta	971					positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			breast(3)|endometrium(2)|large_intestine(7)|lung(12)|ovary(1)|pancreas(1)|prostate(1)|skin(1)	28		all_hematologic(82;0.21)				GCTGGAATCATTTAAGTTTCT	0.264																																																0													54	58	57					2																	37430124		2200	4294	6494	SO:0001583	missense	10153			M37197	CCDS1787.1	2p22.3	2008-09-03	2008-09-03		ENSG00000115816	ENSG00000115816			24218	protein-coding gene	gene with protein product		612828				2247079, 12534345	Standard	NM_005760		Approved	CBF2, CTF2	uc002rpz.3	Q03701	OTTHUMG00000100960	ENST00000234170.5:c.2912A>T	2.37:g.37430124T>A	ENSP00000234170:p.Asn971Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NE75	Missense_Mutation	SNP	ENST00000234170.5	37	CCDS1787.1	.	.	.	.	.	.	.	.	.	.	T	6.448	0.450836	0.12223	.	.	ENSG00000115816	ENST00000234170;ENST00000545744	T	0.14144	2.53	5.53	-1.96	0.07525	.	0.448282	0.25529	N	0.030057	T	0.11367	0.0277	L	0.44542	1.39	0.09310	N	1	B	0.26744	0.158	B	0.26517	0.07	T	0.16897	-1.0387	10	0.72032	D	0.01	.	11.4206	0.49978	0.0:0.2571:0.0:0.7429	.	971	Q03701	CEBPZ_HUMAN	I	971	ENSP00000234170:N971I	ENSP00000234170:N971I	N	-	2	0	CEBPZ	37283628	0.000000	0.05858	0.014000	0.15608	0.199000	0.23934	-0.102000	0.10956	-0.622000	0.05626	-0.400000	0.06385	AAT		0.264	CEBPZ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000218569.2	NM_005760		A	37430124	T	A	37430124	3	1	615	1	0	0	0	0	1	0	0	0	3206	1493	52	5	264	5	CEBPZ	2	37430124	Missense_Mutation	SNP	T	TCGA-IA-A40Y-01A-11D-A25F-10	10644592	37430124	205769249	15	37464										
PREPL	9581	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	44566372	44566372	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gtaaaggaccccatgtattcGcttctggataagtactggtg	11	8	1	0	rs145356495		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr2:44566372G>A	ENST00000409936.1	-	7	1320	c.883C>T	c.(883-885)Cga>Tga	p.R295*	PREPL_ENST00000378520.3_Nonsense_Mutation_p.R295*|PREPL_ENST00000378511.3_Nonsense_Mutation_p.R295*|PREPL_ENST00000409411.1_Nonsense_Mutation_p.R206*|PREPL_ENST00000260648.6_Nonsense_Mutation_p.R295*|PREPL_ENST00000409957.1_Nonsense_Mutation_p.R206*|PREPL_ENST00000541738.1_Nonsense_Mutation_p.R206*|PREPL_ENST00000409272.1_Nonsense_Mutation_p.R295*|PREPL_ENST00000410081.1_Nonsense_Mutation_p.R295*	NM_001171606.1	NP_001165077.1	Q4J6C6	PPCEL_HUMAN	prolyl endopeptidase-like	295						cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)	serine-type endopeptidase activity (GO:0004252)|serine-type exopeptidase activity (GO:0070008)			breast(1)|endometrium(4)|kidney(2)|large_intestine(3)|lung(19)|ovary(1)|prostate(1)|skin(2)	33		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CCATGTATTCGCTTCTGGATA	0.413																																																0								G	stop/ARG,stop/ARG,stop/ARG,stop/ARG,stop/ARG,stop/ARG,stop/ARG	0,4406		0,0,2203	113	109	110		883,883,883,883,616,616,883	3.4	1	2	dbSNP_134	110	1,8599	1.2+/-3.3	0,1,4299	no	stop-gained,stop-gained,stop-gained,stop-gained,stop-gained,stop-gained,stop-gained	PREPL	NM_001042385.2,NM_001042386.2,NM_001171603.1,NM_001171606.1,NM_001171613.1,NM_001171617.1,NM_006036.4	,,,,,,	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	,,,,,,	295/666,295/662,295/728,295/728,206/639,206/639,295/728	44566372	1,13005	2203	4300	6503	SO:0001587	stop_gained	9581			AB007896	CCDS33190.1, CCDS42675.1, CCDS42676.1, CCDS54353.1	2p22.1	2008-02-05			ENSG00000138078	ENSG00000138078			30228	protein-coding gene	gene with protein product		609557				11524703	Standard	NM_006036		Approved	KIAA0436	uc002ruk.2	Q4J6C6	OTTHUMG00000152791	ENST00000409936.1:c.883C>T	2.37:g.44566372G>A	ENSP00000386543:p.Arg295*	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2X6|D6W5A3|O43163|Q4J6C3|Q4J6C4|Q4ZG39|Q6ZMW7|Q96DW7	Nonsense_Mutation	SNP	ENST00000409936.1	37	CCDS33190.1	.	.	.	.	.	.	.	.	.	.	G	36	5.741979	0.96873	0.0	1.16E-4	ENSG00000138078	ENST00000541738;ENST00000409411;ENST00000409957;ENST00000409936;ENST00000260648;ENST00000409272;ENST00000410081;ENST00000378520;ENST00000378511	.	.	.	5.46	3.39	0.38822	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-9.5424	14.6218	0.68592	0.0:0.0:0.6226:0.3774	.	.	.	.	X	206;206;206;295;295;295;295;295;295	.	ENSP00000260648:R295X	R	-	1	2	PREPL	44419876	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	1.377000	0.34317	1.221000	0.43506	0.650000	0.86243	CGA		0.413	PREPL-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327900.1	NM_006036		A	44566372	G	A	44566372	4	1	615	1	0	0	0	0	0	1	0	0	12485	1095	38	1	1336	1	PREPL	2	44566372	Nonsense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	7136248	44566372	198633001	16	37465										
PREPL	9581	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	44566451	44566451	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gaagtagtcttgttcataatAtttatggtgaggaaacgact	10	4	2	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr2:44566451A>G	ENST00000409936.1	-	7	1241	c.804T>C	c.(802-804)aaT>aaC	p.N268N	PREPL_ENST00000378520.3_Silent_p.N268N|PREPL_ENST00000378511.3_Silent_p.N268N|PREPL_ENST00000409411.1_Silent_p.N179N|PREPL_ENST00000260648.6_Silent_p.N268N|PREPL_ENST00000409957.1_Silent_p.N179N|PREPL_ENST00000541738.1_Silent_p.N179N|PREPL_ENST00000409272.1_Silent_p.N268N|PREPL_ENST00000410081.1_Silent_p.N268N	NM_001171606.1	NP_001165077.1	Q4J6C6	PPCEL_HUMAN	prolyl endopeptidase-like	268						cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)	serine-type endopeptidase activity (GO:0004252)|serine-type exopeptidase activity (GO:0070008)			breast(1)|endometrium(4)|kidney(2)|large_intestine(3)|lung(19)|ovary(1)|prostate(1)|skin(2)	33		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TGTTCATAATATTTATGGTGA	0.413																																																0													84	79	81					2																	44566451		2203	4300	6503	SO:0001819	synonymous_variant	9581			AB007896	CCDS33190.1, CCDS42675.1, CCDS42676.1, CCDS54353.1	2p22.1	2008-02-05			ENSG00000138078	ENSG00000138078			30228	protein-coding gene	gene with protein product		609557				11524703	Standard	NM_006036		Approved	KIAA0436	uc002ruk.2	Q4J6C6	OTTHUMG00000152791	ENST00000409936.1:c.804T>C	2.37:g.44566451A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A7E2X6|D6W5A3|O43163|Q4J6C3|Q4J6C4|Q4ZG39|Q6ZMW7|Q96DW7	Silent	SNP	ENST00000409936.1	37	CCDS33190.1																																																																																				0.413	PREPL-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327900.1	NM_006036		G	44566451	A	G	44566451	2	3	615	1	0	0	0	0	0	0	0	1	12485	446	16	3		3	PREPL	2	44566451	Silent	SNP	A	TCGA-IA-A40Y-01A-11D-A25F-10	79	44566451	198632922	17	37466										
CCDC88A	55704	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	55561724	55561724	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tgttttcttgaaagatgcttTcaggagctccaaacccttct	7	10	3	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr2:55561724T>G	ENST00000436346.1	-	15	3074	c.2233A>C	c.(2233-2235)Aaa>Caa	p.K745Q	AC012358.8_ENST00000599475.1_RNA|AC012358.8_ENST00000608103.1_RNA|CCDC88A_ENST00000336838.6_Missense_Mutation_p.K745Q|AC012358.8_ENST00000600219.1_RNA|AC012358.8_ENST00000599352.1_RNA|CCDC88A_ENST00000263630.8_Missense_Mutation_p.K745Q|CCDC88A_ENST00000413716.2_Missense_Mutation_p.K745Q|AC012358.8_ENST00000594078.1_RNA	NM_001135597.1|NM_001254943.1	NP_001129069.1|NP_001241872.1	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A	745					activation of protein kinase B activity (GO:0032148)|cell migration (GO:0016477)|DNA replication (GO:0006260)|lamellipodium assembly (GO:0030032)|membrane organization (GO:0061024)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of cell proliferation (GO:0042127)|regulation of DNA replication (GO:0006275)|regulation of neuron projection development (GO:0010975)|regulation of protein phosphorylation (GO:0001932)|TOR signaling (GO:0031929)	cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|lamellipodium (GO:0030027)|membrane (GO:0016020)|plasma membrane (GO:0005886)	actin binding (GO:0003779)|microtubule binding (GO:0008017)|phosphatidylinositol binding (GO:0035091)|protein homodimerization activity (GO:0042803)|protein kinase B binding (GO:0043422)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(22)|lung(23)|ovary(3)|pancreas(1)|prostate(3)|skin(4)|stomach(1)|urinary_tract(1)	69						AAAGATGCTTTCAGGAGCTCC	0.363																																																0													91	93	92					2																	55561724		2202	4299	6501	SO:0001583	missense	55704			AB033038, AF112218	CCDS33203.1, CCDS46288.1, CCDS58710.1	2p16.3	2013-03-13	2007-05-31	2007-05-31	ENSG00000115355	ENSG00000115355			25523	protein-coding gene	gene with protein product	"Galpha-interacting vesicle-associated protein", "Akt-phosphorylation enhancer", "girdin", "girders of actin filaments"	609736	"KIAA1212"	KIAA1212		15749703, 15753085	Standard	NM_001135597		Approved	FLJ10392, APE, GIV, HkRP1, GRDN	uc002ryv.2	Q3V6T2	OTTHUMG00000151915	ENST00000436346.1:c.2233A>C	2.37:g.55561724T>G	ENSP00000410608:p.Lys745Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A1IGE7|B7ZM78|C9JG83|Q53SF1|Q581G3|Q5HYD0|Q7Z339|Q7Z3C5	Missense_Mutation	SNP	ENST00000436346.1	37		.	.	.	.	.	.	.	.	.	.	T	14.75	2.628283	0.46944	.	.	ENSG00000115355	ENST00000336838;ENST00000263630;ENST00000436346;ENST00000413716	T;T;T;T	0.17213	2.29;2.51;2.48;2.3	4.86	4.86	0.63082	.	0.126339	0.34725	U	0.003726	T	0.17238	0.0414	L	0.46885	1.475	0.80722	D	1	B;P;B;B;B	0.44478	0.061;0.836;0.018;0.009;0.031	B;B;B;B;B	0.40101	0.145;0.319;0.092;0.028;0.028	T	0.03130	-1.1069	10	0.29301	T	0.29	-11.7377	14.7941	0.69865	0.0:0.0:0.0:1.0	.	745;745;745;745;745	B7ZM78;Q3V6T2-2;Q3V6T2;Q3V6T2-3;Q3V6T2-4	.;.;GRDN_HUMAN;.;.	Q	745	ENSP00000338728:K745Q;ENSP00000263630:K745Q;ENSP00000410608:K745Q;ENSP00000404431:K745Q	ENSP00000263630:K745Q	K	-	1	0	CCDC88A	55415228	1.000000	0.71417	1.000000	0.80357	0.944000	0.59088	5.647000	0.67923	1.956000	0.56807	0.374000	0.22700	AAA		0.363	CCDC88A-203	KNOWN	basic	protein_coding	protein_coding		NM_017571		G	55561724	T	G	55561724	3	3	615	1	0	0	0	0	1	0	0	0	2865	1792	62	5	3454	5	CCDC88A	2	55561724	Missense_Mutation	SNP	T	TCGA-IA-A40Y-01A-11D-A25F-10	10995273	55561724	187637649	18	37467										
MBD5	55777	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	149247732	149247732	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gaactatgatgagttttaagGagagactagagaacactgtg	12	4	0	4			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr2:149247732G>A	ENST00000407073.1	+	12	4829	c.3832G>A	c.(3832-3834)Gag>Aag	p.E1278K	MBD5_ENST00000404807.1_Missense_Mutation_p.E1511K	NM_018328.4	NP_060798.2	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	1278					glucose homeostasis (GO:0042593)|nervous system development (GO:0007399)|positive regulation of growth hormone receptor signaling pathway (GO:0060399)|regulation of multicellular organism growth (GO:0040014)|single-organism behavior (GO:0044708)	chromocenter (GO:0010369)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	chromatin binding (GO:0003682)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(8)|kidney(1)|large_intestine(16)|lung(22)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(3)	62				BRCA - Breast invasive adenocarcinoma(221;0.0569)		GAGTTTTAAGGAGAGACTAGA	0.413																																																0													61	62	61					2																	149247732		2203	4300	6503	SO:0001583	missense	55777			AB040894	CCDS33302.1	2q23.2	2009-04-17			ENSG00000204406	ENSG00000204406			20444	protein-coding gene	gene with protein product		611472				12529184	Standard	NM_018328		Approved	FLJ11113, KIAA1461	uc002twm.4	Q9P267	OTTHUMG00000150440	ENST00000407073.1:c.3832G>A	2.37:g.149247732G>A	ENSP00000386049:p.Glu1278Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A5HMQ4|A7E2B1|Q53SR1|Q9NUV6	Missense_Mutation	SNP	ENST00000407073.1	37	CCDS33302.1	.	.	.	.	.	.	.	.	.	.	G	24.1	4.493136	0.84962	.	.	ENSG00000204406	ENST00000407073;ENST00000404807	T;T	0.63913	0.15;-0.07	5.89	5.89	0.94794	.	0.093845	0.46442	D	0.000287	T	0.68366	0.2993	N	0.24115	0.695	0.58432	D	0.999999	B;D	0.64830	0.302;0.994	B;P	0.61397	0.182;0.888	T	0.71421	-0.4598	10	0.87932	D	0	-2.9361	20.2363	0.98357	0.0:0.0:1.0:0.0	.	1511;1278	E9PHH0;Q9P267	.;MBD5_HUMAN	K	1278;1511	ENSP00000386049:E1278K;ENSP00000384672:E1511K	ENSP00000384672:E1511K	E	+	1	0	MBD5	148964202	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.039000	0.93777	2.789000	0.95967	0.655000	0.94253	GAG		0.413	MBD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318111.2			A	149247732	G	A	149247732	3	1	615	1	0	0	0	0	1	0	0	0	9354	1175	41	2	3858	2	MBD5	2	149247732	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	93686008	149247732	93951641	19	37468										
C2orf77	129881	hgsc.bcm.edu;bcgsc.ca	37	chr2	170506849	170506849	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	aattgtttaccacaatggctCgatattctgcaattgttttt	6	7	1	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr2:170506849C>T	ENST00000447353.1	-	7	1247	c.1142G>A	c.(1141-1143)cGa>cAa	p.R381Q		NM_001085447.1	NP_001078916.1	Q0VFZ6	CC173_HUMAN	coiled-coil domain containing 173	381																	CACAATGGCTCGATATTCTGC	0.338																																																0													86	76	79					2																	170506849		1811	4068	5879	SO:0001583	missense	129881			BC015980, BC117445	CCDS46445.1	2q31.1	2012-08-07	2012-08-07	2012-08-07	ENSG00000154479	ENSG00000154479			25064	protein-coding gene	gene with protein product	"hypothetical LOC129881"		"chromosome 2 open reading frame 77"	C2orf77		12477932	Standard	NM_001085447		Approved	LOC129881	uc002ufe.2	Q0VFZ6	OTTHUMG00000154116	ENST00000447353.1:c.1142G>A	2.37:g.170506849C>T	ENSP00000391504:p.Arg381Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PJF6	Missense_Mutation	SNP	ENST00000447353.1	37	CCDS46445.1	.	.	.	.	.	.	.	.	.	.	C	24.5	4.543115	0.86022	.	.	ENSG00000154479	ENST00000447353	T	0.15256	2.44	5.42	5.42	0.78866	.	.	.	.	.	T	0.41096	0.1144	M	0.71581	2.175	0.45946	D	0.998779	D	0.89917	1.0	D	0.87578	0.998	T	0.06267	-1.0836	9	0.30854	T	0.27	.	16.2096	0.82148	0.0:1.0:0.0:0.0	.	381	Q0VFZ6	CB077_HUMAN	Q	381	ENSP00000391504:R381Q	ENSP00000391504:R381Q	R	-	2	0	C2orf77	170215095	1.000000	0.71417	0.986000	0.45419	0.965000	0.64279	4.503000	0.60407	2.565000	0.86533	0.558000	0.71614	CGA		0.338	CCDC173-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333954.2	NM_001085447		T	170506849	C	T	170506849	3	4	615	1	0	0	0	0	1	0	0	0	2196	884	31	1	528	1	C2orf77	2	170506849	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	21259117	170506849	72692524	20	37469										
TTN	7273	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	179469564	179469564	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tcaagaggggcatcccatgtCaagtagcaagattcagcttt	10	9	3	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr2:179469564C>G	ENST00000591111.1	-	231	49553	c.49329G>C	c.(49327-49329)ttG>ttC	p.L16443F	TTN-AS1_ENST00000592630.1_RNA|TTN-AS1_ENST00000589487.1_RNA|TTN_ENST00000359218.5_Missense_Mutation_p.L9144F|TTN_ENST00000460472.2_Missense_Mutation_p.L9019F|TTN-AS1_ENST00000456053.1_RNA|TTN-AS1_ENST00000592750.1_RNA|TTN-AS1_ENST00000589234.1_RNA|TTN-AS1_ENST00000586452.1_RNA|TTN_ENST00000342992.6_Missense_Mutation_p.L15516F|TTN-AS1_ENST00000419746.1_RNA|TTN_ENST00000589042.1_Missense_Mutation_p.L18084F|TTN-AS1_ENST00000589830.1_RNA|TTN-AS1_ENST00000585451.1_RNA|TTN_ENST00000342175.6_Missense_Mutation_p.L9211F|TTN-AS1_ENST00000590807.1_RNA|TTN-AS1_ENST00000589907.1_RNA			Q8WZ42	TITIN_HUMAN	titin	16443	Fibronectin type-III 19. {ECO:0000255|PROSITE-ProRule:PRU00316}.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CATCCCATGTCAAGTAGCAAG	0.433																																																0													131	119	123					2																	179469564		1901	4143	6044	SO:0001583	missense	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.49329G>C	2.37:g.179469564C>G	ENSP00000465570:p.Leu16443Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	C	8.786	0.929337	0.18131	.	.	ENSG00000155657	ENST00000342992;ENST00000460472;ENST00000342175;ENST00000359218;ENST00000356127	T;T;T;T	0.66099	-0.19;-0.19;-0.19;-0.19	5.74	2.93	0.34026	Fibronectin, type III (4);Peptidase C2, calpain, large subunit, domain III (1);Ribonuclease H-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.81484	0.4832	M	0.93808	3.46	0.42388	D	0.992518	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.91635	0.999;0.999;0.999;0.999	T	0.81760	-0.0785	9	0.87932	D	0	.	8.5796	0.33621	0.0:0.6169:0.0:0.3831	.	9019;9144;9211;16443	D3DPF9;E7EQE6;E7ET18;Q8WZ42	.;.;.;TITIN_HUMAN	F	15516;9019;9211;9144;9019	ENSP00000343764:L15516F;ENSP00000434586:L9019F;ENSP00000340554:L9211F;ENSP00000352154:L9144F	ENSP00000340554:L9211F	L	-	3	2	TTN	179177809	0.812000	0.29077	0.999000	0.59377	0.928000	0.56348	-0.105000	0.10907	0.421000	0.25980	0.563000	0.77884	TTG		0.433	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		G	179469564	C	G	179469564	3	3	615	1	0	0	0	0	1	0	0	0	16747	825	29	4	53769	4	TTN	2	179469564	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	8962715	179469564	63729809	21	37470										
SF3B1	23451	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	198265617	198265617	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	caatcctggatataatttctGctgcacctactttgtttgcc	6	11	1	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr2:198265617G>A	ENST00000335508.6	-	18	2631	c.2540C>T	c.(2539-2541)gCa>gTa	p.A847V	SF3B1_ENST00000462613.1_5'Flank	NM_012433.2	NP_036565.2	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1, 155kDa	847					anterior/posterior pattern specification (GO:0009952)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)	catalytic step 2 spliceosome (GO:0071013)|intracellular membrane-bounded organelle (GO:0043231)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)|U12-type spliceosomal complex (GO:0005689)	chromatin binding (GO:0003682)|poly(A) RNA binding (GO:0044822)			NS(35)|breast(10)|central_nervous_system(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(524)|kidney(4)|large_intestine(10)|lung(19)|ovary(1)|pancreas(4)|prostate(6)|salivary_gland(1)|skin(4)|testis(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	633			OV - Ovarian serous cystadenocarcinoma(117;0.246)			TATAATTTCTGCTGCACCTAC	0.358			Mis		myelodysplastic syndrome																																		Dom	yes		2	2q33.1	23451	"splicing factor 3b, subunit 1, 155kDa"		L	0													99	97	98					2																	198265617		2203	4300	6503	SO:0001583	missense	23451			AF054284	CCDS33356.1, CCDS46479.1	2q33.1	2014-09-17	2002-08-29		ENSG00000115524	ENSG00000115524			10768	protein-coding gene	gene with protein product		605590	"splicing factor 3b, subunit 1, 155kD"			9585501	Standard	XM_005246428		Approved	SAP155, SF3b155, PRPF10, Prp10, Hsh155	uc002uue.3	O75533	OTTHUMG00000154447	ENST00000335508.6:c.2540C>T	2.37:g.198265617G>A	ENSP00000335321:p.Ala847Val	Somatic		WXS	Illumina HiSeq	Phase_I	E9PCH3	Missense_Mutation	SNP	ENST00000335508.6	37	CCDS33356.1	.	.	.	.	.	.	.	.	.	.	G	19.47	3.833082	0.71258	.	.	ENSG00000115524	ENST00000335508	T	0.65549	-0.16	5.77	5.77	0.91146	Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.59622	0.2207	L	0.41961	1.31	0.80722	D	1	B	0.14438	0.01	B	0.18561	0.022	T	0.52917	-0.8511	10	0.48119	T	0.1	.	20.3626	0.98863	0.0:0.0:1.0:0.0	.	847	O75533	SF3B1_HUMAN	V	847	ENSP00000335321:A847V	ENSP00000335321:A847V	A	-	2	0	SF3B1	197973862	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.737000	0.98831	2.885000	0.99019	0.655000	0.94253	GCA		0.358	SF3B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335245.2			A	198265617	G	A	198265617	3	1	615	1	0	0	0	0	1	0	0	0	14162	1319	46	2	1406	2	SF3B1	2	198265617	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	18796053	198265617	44933756	22	37471										
PLEKHM3	389072	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	208725904	208725904	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	cacagatgaaccccttctggCtacaaagactgcagctgtac	8	13	1	3			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr2:208725904C>G	ENST00000427836.2	-	7	2522	c.2033G>C	c.(2032-2034)aGc>aCc	p.S678T	PLEKHM3_ENST00000389247.4_Missense_Mutation_p.S678T	NM_001080475.2	NP_001073944.1	Q6ZWE6	PKHM3_HUMAN	pleckstrin homology domain containing, family M, member 3	678					intracellular signal transduction (GO:0035556)		metal ion binding (GO:0046872)			central_nervous_system(1)|cervix(1)|endometrium(2)|large_intestine(1)|lung(9)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	19						CCCCTTCTGGCTACAAAGACT	0.418																																																0													148	142	144					2																	208725904		1924	4136	6060	SO:0001583	missense	389072			AK057612	CCDS42808.1	2q33.3	2013-01-10	2008-04-03	2008-04-03	ENSG00000178385	ENSG00000178385		"Pleckstrin homology (PH) domain containing"	34006	protein-coding gene	gene with protein product	"differentiation associated protein"		"pleckstrin homology domain containing, family M, member 1-like"	PLEKHM1L		19028694	Standard	NM_001080475		Approved	DAPR	uc002vcl.2	Q6ZWE6	OTTHUMG00000154781	ENST00000427836.2:c.2033G>C	2.37:g.208725904C>G	ENSP00000417003:p.Ser678Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B9EKV2|Q8WW68	Missense_Mutation	SNP	ENST00000427836.2	37	CCDS42808.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	15.28|15.28	2.787482|2.787482	0.49997|0.49997	.|.	.|.	ENSG00000178385|ENSG00000178385	ENST00000427836;ENST00000389247|ENST00000447645	D;D|.	0.83163|.	-1.68;-1.69|.	5.06|5.06	5.06|5.06	0.68205|0.68205	Protein kinase C-like, phorbol ester/diacylglycerol binding (1);|.	0.045109|.	0.85682|.	D|.	0.000000|.	T|.	0.55321|.	0.1913|.	N|N	0.21194|0.21194	0.64|0.64	0.52501|0.52501	D|D	0.999957|0.999957	P|.	0.39060|.	0.657|.	P|.	0.46585|.	0.521|.	T|.	0.48875|.	-0.8996|.	10|.	0.09084|.	T|.	0.74|.	.|.	18.9822|18.9822	0.92758|0.92758	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	678|.	Q6ZWE6|.	PKHM3_HUMAN|.	T|Y	678|429	ENSP00000417003:S678T;ENSP00000373899:S678T|.	ENSP00000373899:S678T|.	S|X	-|-	2|3	0|2	PLEKHM3|PLEKHM3	208434149|208434149	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.999000|0.999000	0.98932|0.98932	5.870000|5.870000	0.69620|0.69620	2.763000|2.763000	0.94921|0.94921	0.655000|0.655000	0.94253|0.94253	AGC|TAG		0.418	PLEKHM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337036.1	NM_001080475		G	208725904	C	G	208725904	3	3	615	1	0	0	0	0	1	0	0	0	12089	797	28	4	260	4	PLEKHM3	2	208725904	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	10460287	208725904	34473469	23	37472										
DGKD	8527	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	234368474	234368474	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gtggacggagaggcctgggtCcagccgccagggtacattcg	17	11	0	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr2:234368474C>T	ENST00000264057.2	+	23	2778	c.2766C>T	c.(2764-2766)gtC>gtT	p.V922V	DGKD_ENST00000409813.3_Silent_p.V878V	NM_152879.2	NP_690618.2	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa	922					blood coagulation (GO:0007596)|cell growth (GO:0016049)|diacylglycerol metabolic process (GO:0046339)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|multicellular organismal development (GO:0007275)|platelet activation (GO:0030168)|protein homooligomerization (GO:0051260)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|protein transport (GO:0015031)|response to organic substance (GO:0010033)|second-messenger-mediated signaling (GO:0019932)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|diacylglycerol binding (GO:0019992)|diacylglycerol kinase activity (GO:0004143)|metal ion binding (GO:0046872)|NAD+ kinase activity (GO:0003951)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)			central_nervous_system(2)|endometrium(4)|kidney(1)|large_intestine(13)|lung(15)|ovary(1)|pancreas(1)|skin(1)	38		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	AGGCCTGGGTCCAGCCGCCAG	0.602																																																0													76	66	69					2																	234368474		2203	4300	6503	SO:0001819	synonymous_variant	8527			D63479	CCDS2504.1, CCDS46546.1	2q37	2013-01-10	2002-08-29		ENSG00000077044	ENSG00000077044		"Sterile alpha motif (SAM) domain containing", "Pleckstrin homology (PH) domain containing"	2851	protein-coding gene	gene with protein product	"diglyceride kinase"	601826	"diacylglycerol kinase, delta (130kD)"			8626538, 12810723	Standard	NM_003648		Approved	KIAA0145, DGKdelta	uc002vui.1	Q16760	OTTHUMG00000133290	ENST00000264057.2:c.2766C>T	2.37:g.234368474C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14158|Q6PK55|Q8NG53	Silent	SNP	ENST00000264057.2	37	CCDS2504.1																																																																																				0.602	DGKD-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257072.2	NM_003648		T	234368474	C	T	234368474	2	4	615	1	0	0	0	0	0	0	0	1	4469	842	30	2		2	DGKD	2	234368474	Silent	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	25642570	234368474	8830899	24	37473										
FANCD2	2177	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	10089633	10089633	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	atgtgttcatccattctgtcGctggctcagagtttgcttca	9	10	4	1	rs564577177		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr3:10089633G>A	ENST00000419585.1	+	16	1472	c.1311G>A	c.(1309-1311)tcG>tcA	p.S437S	FANCD2_ENST00000383806.1_Silent_p.S437S|FANCD2_ENST00000287647.3_Silent_p.S437S|FANCD2_ENST00000383807.1_Silent_p.S437S			Q9BXW9	FACD2_HUMAN	Fanconi anemia, complementation group D2	437					DNA repair (GO:0006281)|gamete generation (GO:0007276)|response to gamma radiation (GO:0010332)|synapsis (GO:0007129)	condensed chromosome (GO:0000793)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA polymerase binding (GO:0070182)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(10)|ovary(1)|prostate(3)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(3)	51				OV - Ovarian serous cystadenocarcinoma(96;0.148)		CCATTCTGTCGCTGGCTCAGA	0.408			"D, Mis, N, F"			"AML, leukemia"		Involved in tolerance or repair of DNA crosslinks	Fanconi Anemia																													yes	Rec		Fanconi anaemia D2	3	3p26	2177	"Fanconi anemia, complementation group D2"		L	0													171	174	173					3																	10089633		2203	4300	6503	SO:0001819	synonymous_variant	2177	Familial Cancer Database	Pancytopenia Dysmelia, FA (several complementation groups)	AF340183	CCDS2595.1, CCDS33696.1	3p25.3	2014-09-17		2001-10-05	ENSG00000144554	ENSG00000144554		"Fanconi anemia, complementation groups"	3585	protein-coding gene	gene with protein product		613984		FACD, FANCD		7581463, 11239453, 18475298	Standard	XM_005264946		Approved	FAD, FA-D2	uc003buw.3	Q9BXW9	OTTHUMG00000128670	ENST00000419585.1:c.1311G>A	3.37:g.10089633G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2LA86|Q69YP9|Q6PJN7|Q9BQ06|Q9H9T9	Silent	SNP	ENST00000419585.1	37	CCDS33696.1																																																																																				0.408	FANCD2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000339873.1			A	10089633	G	A	10089633	2	1	615	1	0	0	0	0	0	0	0	1	5672	1074	38	1		1	FANCD2	3	10089633	Silent	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10		10089633	187932797	25	37474										
SCN11A	11280	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	38962716	38962716	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tgaccagcttcttcacagagCgtagcaaggcccccacgatg	10	14	2	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr3:38962716C>T	ENST00000302328.3	-	6	941	c.743G>A	c.(742-744)cGc>cAc	p.R248H	SCN11A_ENST00000450244.1_Missense_Mutation_p.R248H|SCN11A_ENST00000444237.2_Missense_Mutation_p.R248H|SCN11A_ENST00000456224.3_Missense_Mutation_p.R248H	NM_014139.2	NP_054858.2	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha subunit	248					cell death (GO:0008219)|membrane depolarization during action potential (GO:0086010)|neuronal action potential (GO:0019228)|regulation of sensory perception of pain (GO:0051930)|response to drug (GO:0042493)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	C-fiber (GO:0044299)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)			NS(3)|biliary_tract(1)|breast(4)|cervix(2)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(29)|lung(29)|ovary(3)|pancreas(2)|prostate(12)|skin(14)|upper_aerodigestive_tract(5)|urinary_tract(3)	119				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)|Valproic Acid(DB00313)|Zonisamide(DB00909)	CTTCACAGAGCGTAGCAAGGC	0.542																																																0													115	111	112					3																	38962716		2203	4300	6503	SO:0001583	missense	11280			AF126739	CCDS33737.1	3p22.2	2012-02-26	2007-01-23		ENSG00000168356	ENSG00000168356		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10583	protein-coding gene	gene with protein product		604385	"sodium channel, voltage-gated, type XI, alpha polypeptide", "sodium channel, voltage-gated, type XII, alpha"	SCN12A		10444332, 16382098	Standard	NM_014139		Approved	Nav1.9, NaN, SNS-2	uc021wvy.1	Q9UI33	OTTHUMG00000048246	ENST00000302328.3:c.743G>A	3.37:g.38962716C>T	ENSP00000307599:p.Arg248His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NN05|C9JD48|C9JR31|Q68K15|Q8NDX3|Q9UHE0|Q9UHM0	Missense_Mutation	SNP	ENST00000302328.3	37	CCDS33737.1	.	.	.	.	.	.	.	.	.	.	C	12.93	2.085095	0.36758	.	.	ENSG00000168356	ENST00000302328;ENST00000450244;ENST00000456224;ENST00000444237	D;D;D;D	0.98701	-5.08;-5.08;-5.08;-5.08	4.67	3.79	0.43588	Ion transport (1);	0.217778	0.42964	D	0.000631	D	0.94729	0.8299	N	0.25332	0.735	0.32489	N	0.540524	B	0.26081	0.141	B	0.22880	0.042	D	0.92393	0.5923	10	0.16896	T	0.51	.	7.3286	0.26569	0.0:0.7983:0.0:0.2017	.	248	Q9UI33	SCNBA_HUMAN	H	248	ENSP00000307599:R248H;ENSP00000400945:R248H;ENSP00000416757:R248H;ENSP00000408028:R248H	ENSP00000307599:R248H	R	-	2	0	SCN11A	38937720	1.000000	0.71417	1.000000	0.80357	0.944000	0.59088	4.635000	0.61332	0.966000	0.38159	0.585000	0.79938	CGC		0.542	SCN11A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109746.4	NM_014139		T	38962716	C	T	38962716	3	4	615	1	0	0	0	0	1	0	0	0	13926	768	27	1	4716	1	SCN11A	3	38962716	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	28873083	38962716	159059714	26	37475										
ZBTB38	253461	broad.mit.edu	37	chr3	141162716	141162716	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	cttgccattactgcaacaaaGtatttgcattggctgagtac	8	9	0	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr3:141162716G>A	ENST00000514251.1	+	4	1765	c.1486G>A	c.(1486-1488)Gta>Ata	p.V496I	ZBTB38_ENST00000321464.5_Missense_Mutation_p.V497I|ZBTB38_ENST00000441582.2_Missense_Mutation_p.V496I					zinc finger and BTB domain containing 38											breast(3)|cervix(4)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(3)|lung(14)|ovary(3)|prostate(2)|skin(3)|urinary_tract(1)	41						CTGCAACAAAGTATTTGCATT	0.418																																																0													99	92	94					3																	141162716		1929	4124	6053	SO:0001583	missense	253461			BC015444	CCDS43157.1	3q23	2014-06-13			ENSG00000177311	ENSG00000177311		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	26636	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 171"	612218				12477932	Standard	NM_001080412		Approved	FLJ35036, CIBZ, ZNF921, PPP1R171	uc003etw.3	Q8NAP3	OTTHUMG00000160128	ENST00000514251.1:c.1486G>A	3.37:g.141162716G>A	ENSP00000426387:p.Val496Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000514251.1	37	CCDS43157.1	.	.	.	.	.	.	.	.	.	.	G	27.0	4.791622	0.90367	.	.	ENSG00000177311	ENST00000509883;ENST00000514251;ENST00000441582;ENST00000321464	T;T;T;T	0.60797	0.16;0.16;0.16;0.16	5.39	5.39	0.77823	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (2);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.64402	D	0.000001	T	0.64907	0.2641	N	0.21240	0.645	0.49213	D	0.999765	D;D	0.71674	0.998;0.998	D;D	0.81914	0.994;0.995	T	0.62714	-0.6796	9	.	.	.	-22.0045	19.1701	0.93574	0.0:0.0:1.0:0.0	.	497;496	B4DYR8;Q8NAP3	.;ZBT38_HUMAN	I	496;496;496;497	ENSP00000424254:V496I;ENSP00000426387:V496I;ENSP00000406955:V496I;ENSP00000372635:V497I	.	V	+	1	0	ZBTB38	142645406	1.000000	0.71417	0.999000	0.59377	0.997000	0.91878	9.476000	0.97823	2.543000	0.85770	0.650000	0.86243	GTA		0.418	ZBTB38-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359329.2			A	141162716	G	A	141162716	3	1	615	1	0	0	0	0	1	0	0	0	17551	1029	36	2	1488	2	ZBTB38	3	141162716	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	102200000	141162716	56859714	27	37476										
AADACL2	344752	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	151475280	151475280	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gttcatgaacatattgaggaTggaattcatggagctttatc	10	5	2	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr3:151475280T>C	ENST00000356517.3	+	5	1213	c.1104T>C	c.(1102-1104)gaT>gaC	p.D368D	RP11-454C18.2_ENST00000483843.2_RNA|RP11-454C18.2_ENST00000475855.1_RNA	NM_207365.3	NP_997248.2	Q6P093	ADCL2_HUMAN	arylacetamide deacetylase-like 2	368						extracellular region (GO:0005576)|integral component of membrane (GO:0016021)	carboxylic ester hydrolase activity (GO:0052689)			NS(1)|breast(1)|endometrium(2)|large_intestine(4)|liver(1)|lung(13)|skin(2)	24			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			ATATTGAGGATGGAATTCATG	0.338																																																0													97	95	96					3																	151475280		2203	4299	6502	SO:0001819	synonymous_variant	344752			BC065724	CCDS3161.2	3q25.1	2010-12-14			ENSG00000197953	ENSG00000197953			24427	protein-coding gene	gene with protein product							Standard	NM_207365		Approved	MGC72001	uc003ezc.3	Q6P093	OTTHUMG00000155914	ENST00000356517.3:c.1104T>C	3.37:g.151475280T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5HYJ4	Silent	SNP	ENST00000356517.3	37	CCDS3161.2																																																																																				0.338	AADACL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342288.3	NM_207365		C	151475280	T	C	151475280	2	2	615	1	0	0	0	0	0	0	0	1	11	1461	51	3		3	AADACL2	3	151475280	Silent	SNP	T	TCGA-IA-A40Y-01A-11D-A25F-10	10312564	151475280	46547150	28	37477										
SI	6476	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	164767590	164767590	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	aaattttaccaggagtaaacGgtggataattcaatttgttt	8	4	1	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr3:164767590G>A	ENST00000264382.3	-	14	1648	c.1586C>T	c.(1585-1587)cCg>cTg	p.P529L		NM_001041.3	NP_001032.2	P14410	SUIS_HUMAN	sucrase-isomaltase (alpha-glucosidase)	529	Isomaltase.				carbohydrate metabolic process (GO:0005975)|polysaccharide digestion (GO:0044245)|small molecule metabolic process (GO:0044281)	brush border (GO:0005903)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	alpha-1,4-glucosidase activity (GO:0004558)|carbohydrate binding (GO:0030246)|oligo-1,6-glucosidase activity (GO:0004574)|sucrose alpha-glucosidase activity (GO:0004575)			NS(4)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(6)|kidney(10)|large_intestine(18)|lung(124)|ovary(9)|pancreas(1)|prostate(6)|skin(6)|upper_aerodigestive_tract(16)|urinary_tract(1)	218		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)|Scopolamine(DB00747)	AGGAGTAAACGGTGGATAATT	0.279										HNSCC(35;0.089)																																						0													90	100	97					3																	164767590		2203	4289	6492	SO:0001583	missense	6476			X63597	CCDS3196.1	3q25.2-q26.2	2004-04-06	2004-04-06		ENSG00000090402	ENSG00000090402	3.2.1.10		10856	protein-coding gene	gene with protein product	"Oligosaccharide alpha-1,6-glucosidase"	609845	"sucrase-isomaltase"			2962903, 1353958	Standard	NM_001041		Approved		uc003fei.3	P14410	OTTHUMG00000158065	ENST00000264382.3:c.1586C>T	3.37:g.164767590G>A	ENSP00000264382:p.Pro529Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A2RUC3|Q1JQ80|Q1RMC2	Missense_Mutation	SNP	ENST00000264382.3	37	CCDS3196.1	.	.	.	.	.	.	.	.	.	.	G	19.18	3.778691	0.70107	.	.	ENSG00000090402	ENST00000264382	D	0.91686	-2.89	5.58	5.58	0.84498	Glycoside hydrolase, superfamily (1);	0.000000	0.85682	D	0.000000	D	0.97188	0.9081	M	0.93375	3.41	0.80722	D	1	D	0.89917	1.0	D	0.72625	0.978	D	0.97952	1.0332	10	0.87932	D	0	.	18.5615	0.91101	0.0:0.0:1.0:0.0	.	529	P14410	SUIS_HUMAN	L	529	ENSP00000264382:P529L	ENSP00000264382:P529L	P	-	2	0	SI	166250284	1.000000	0.71417	1.000000	0.80357	0.394000	0.30568	9.114000	0.94329	2.622000	0.88805	0.585000	0.79938	CCG		0.279	SI-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350116.1	NM_001041		A	164767590	G	A	164767590	3	1	615	1	0	0	0	0	1	0	0	0	14310	1116	39	1	4037	1	SI	3	164767590	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	13292310	164767590	33254840	29	37478										
KLB	152831	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	39439409	39439409	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ggtctctcctggatggctttGaatggcaggatgcttacacc	12	10	1	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr4:39439409G>C	ENST00000257408.4	+	3	1496	c.1399G>C	c.(1399-1401)Gaa>Caa	p.E467Q		NM_175737.3	NP_783864.1	Q86Z14	KLOTB_HUMAN	klotho beta	467	Glycosyl hydrolase-1 1.				carbohydrate metabolic process (GO:0005975)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell proliferation (GO:0008284)|positive regulation of MAPKKK cascade by fibroblast growth factor receptor signaling pathway (GO:0090080)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	fibroblast growth factor binding (GO:0017134)|hydrolase activity, hydrolyzing O-glycosyl compounds (GO:0004553)			NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(11)|skin(6)	29						GGATGGCTTTGAATGGCAGGA	0.428																																																0													189	178	182					4																	39439409		2203	4300	6503	SO:0001583	missense	152831			AB079373	CCDS3451.1	4p14	2008-02-05			ENSG00000134962	ENSG00000134962			15527	protein-coding gene	gene with protein product		611135					Standard	NM_175737		Approved		uc003gua.3	Q86Z14	OTTHUMG00000128577	ENST00000257408.4:c.1399G>C	4.37:g.39439409G>C	ENSP00000257408:p.Glu467Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3K8	Missense_Mutation	SNP	ENST00000257408.4	37	CCDS3451.1	.	.	.	.	.	.	.	.	.	.	G	28.9	4.956339	0.92726	.	.	ENSG00000134962	ENST00000257408	T	0.41065	1.01	6.03	5.19	0.71726	Glycoside hydrolase, subgroup, catalytic domain (1);Glycoside hydrolase, superfamily (1);	0.095361	0.64402	D	0.000001	T	0.77239	0.4101	H	0.98446	4.235	0.51767	D	0.999938	D;D	0.76494	0.999;0.999	D;D	0.66716	0.946;0.946	D	0.86716	0.1939	10	0.87932	D	0	-28.1831	15.0523	0.71885	0.0674:0.0:0.9326:0.0	.	467;467	B7ZL50;Q86Z14	.;KLOTB_HUMAN	Q	467	ENSP00000257408:E467Q	ENSP00000257408:E467Q	E	+	1	0	KLB	39115804	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.869000	0.99810	1.562000	0.49601	0.655000	0.94253	GAA		0.428	KLB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250429.1	NM_175737		C	39439409	G	C	39439409	3	2	615	1	0	0	0	0	1	0	0	0	8339	1291	45	4	1409	4	KLB	4	39439409	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10		39439409	151714867	30	37479										
FIP1L1	81608	broad.mit.edu	37	chr4	54244014	54244014	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ctcggggcggccatgtcggcCggcgaggtcgagcgcctagt	18	13	0	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr4:54244014C>T	ENST00000337488.6	+	1	203	c.9C>T	c.(7-9)gcC>gcT	p.A3A	FIP1L1_ENST00000358575.5_Silent_p.A3A|FIP1L1_ENST00000306932.6_Silent_p.A3A|FIP1L1_ENST00000507922.1_Silent_p.A3A|FIP1L1_ENST00000507166.1_Silent_p.A3A	NM_030917.3	NP_112179.2	Q6UN15	FIP1_HUMAN	factor interacting with PAPOLA and CPSF1	3	Necessary for stimulating PAPOLA activity.|Sufficient for interaction with PAPOLA.				mRNA processing (GO:0006397)	mRNA cleavage and polyadenylation specificity factor complex (GO:0005847)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			large_intestine(3)|liver(1)|ovary(1)|skin(1)	6			GBM - Glioblastoma multiforme(3;3.31e-36)|LUSC - Lung squamous cell carcinoma(32;0.0134)			CCATGTCGGCCGGCGAGGTCG	0.672			T	PDGFRA	idiopathic hypereosinophilic syndrome																																		Dom	yes		4	4q12	81608	FIP1 like 1 (S. cerevisiae)		L	0													39	55	50					4																	54244014		2191	4292	6483	SO:0001819	synonymous_variant	81608			AF161429	CCDS3491.1, CCDS47055.1, CCDS47056.1	4q12	2013-06-18	2013-06-18		ENSG00000145216	ENSG00000145216			19124	protein-coding gene	gene with protein product		607686	"FIP1 like 1 (S. cerevisiae)", "FIP1L1 cleavage and polyadenylation specific factor subunit"			11230166, 14749727	Standard	NM_030917		Approved	DKFZp586K0717, FIP1	uc003hae.3	Q6UN15	OTTHUMG00000128701	ENST00000337488.6:c.9C>T	4.37:g.54244014C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DIR3|G3XAD6|Q0VGE0|Q499Y4|Q49AU3|Q7Z608|Q8WVN3|Q96F80|Q9H077	Silent	SNP	ENST00000337488.6	37	CCDS3491.1																																																																																				0.672	FIP1L1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000250602.1	NM_030917		T	54244014	C	T	54244014	2	4	615	1	0	0	0	0	0	0	0	1	5903	639	23	1		1	FIP1L1	4	54244014	Silent	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	14804605	54244014	136910262	31	37480										
POLR2B	5431	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	57889646	57889646	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	caccaatagacgctataccaAgagagactgtagcacttttc	7	11	0	3			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr4:57889646A>T	ENST00000381227.1	+	20	3079	c.2666A>T	c.(2665-2667)aAg>aTg	p.K889M	POLR2B_ENST00000431623.2_Missense_Mutation_p.K814M|POLR2B_ENST00000441246.2_Missense_Mutation_p.K882M|POLR2B_ENST00000314595.5_Missense_Mutation_p.K889M			P30876	RPB2_HUMAN	polymerase (RNA) II (DNA directed) polypeptide B, 140kDa	889					7-methylguanosine mRNA capping (GO:0006370)|DNA repair (GO:0006281)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|nucleotide-excision repair (GO:0006289)|positive regulation of viral transcription (GO:0050434)|RNA splicing (GO:0008380)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription-coupled nucleotide-excision repair (GO:0006283)|viral process (GO:0016032)	DNA-directed RNA polymerase II, core complex (GO:0005665)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|ribonucleoside binding (GO:0032549)			breast(1)|central_nervous_system(2)|endometrium(6)|kidney(10)|large_intestine(9)|lung(17)|ovary(2)|prostate(4)|skin(1)	52	Glioma(25;0.08)|all_neural(26;0.181)					CGCTATACCAAGAGAGACTGT	0.413																																																0													108	104	105					4																	57889646		2203	4300	6503	SO:0001583	missense	5431				CCDS3511.1	4q12	2013-01-21	2002-08-29		ENSG00000047315	ENSG00000047315		"RNA polymerase subunits"	9188	protein-coding gene	gene with protein product		180661	"polymerase (RNA) II (DNA directed) polypeptide B (140kD)"			1518060, 8034326	Standard	NM_000938		Approved	RPB2	uc003hcl.1	P30876	OTTHUMG00000128771	ENST00000381227.1:c.2666A>T	4.37:g.57889646A>T	ENSP00000370625:p.Lys889Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1A8|Q8IZ61	Missense_Mutation	SNP	ENST00000381227.1	37	CCDS3511.1	.	.	.	.	.	.	.	.	.	.	A	27.5	4.834179	0.91036	.	.	ENSG00000047315	ENST00000381227;ENST00000431623;ENST00000441246;ENST00000314595	T;T;T;T	0.71817	-0.6;-0.6;-0.6;-0.6	6.04	6.04	0.98038	RNA polymerase Rpb2, OB-fold (1);DNA-directed RNA polymerase, subunit 2, domain 6 (1);	0.000000	0.85682	D	0.000000	D	0.88066	0.6337	M	0.93062	3.375	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.90731	0.4642	10	0.87932	D	0	.	16.5885	0.84745	1.0:0.0:0.0:0.0	.	814;889	C9J4M6;P30876	.;RPB2_HUMAN	M	889;814;882;889	ENSP00000370625:K889M;ENSP00000391096:K814M;ENSP00000391452:K882M;ENSP00000312735:K889M	ENSP00000312735:K889M	K	+	2	0	POLR2B	57584403	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.339000	0.96797	2.317000	0.78254	0.460000	0.39030	AAG		0.413	POLR2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250692.1	NM_000938		T	57889646	A	T	57889646	3	4	615	1	0	0	0	0	1	0	0	0	12222	72	3	5	2740	5	POLR2B	4	57889646	Missense_Mutation	SNP	A	TCGA-IA-A40Y-01A-11D-A25F-10	3645632	57889646	133264630	32	37481										
SMARCAD1	56916	broad.mit.edu	37	chr4	95174021	95174021	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gtagtggtgaagaagtgatgGaggatggctataaaggtaaa	16	1	0	3			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr4:95174021G>A	ENST00000354268.4	+	9	1217	c.1144G>A	c.(1144-1146)Gag>Aag	p.E382K	SMARCAD1_ENST00000509418.1_5'Flank|SMARCAD1_ENST00000457823.2_Missense_Mutation_p.E382K			Q9H4L7	SMRCD_HUMAN	SWI/SNF-related, matrix-associated actin-dependent regulator of chromatin, subfamily a, containing DEAD/H box 1	382					ATP-dependent chromatin remodeling (GO:0043044)|chromatin modification (GO:0016568)|chromatin remodeling (GO:0006338)|chromosome separation (GO:0051304)|DNA double-strand break processing (GO:0000729)|histone H3 deacetylation (GO:0070932)|histone H4 deacetylation (GO:0070933)|nucleotide metabolic process (GO:0009117)|positive regulation of transcription, DNA-templated (GO:0045893)|protein homooligomerization (GO:0051260)|regulation of DNA recombination (GO:0000018)	heterochromatin (GO:0000792)|nuclear matrix (GO:0016363)|nuclear replication fork (GO:0043596)|nucleus (GO:0005634)|site of double-strand break (GO:0035861)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|nucleic acid binding (GO:0003676)			breast(2)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(11)|liver(2)|lung(15)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	44				OV - Ovarian serous cystadenocarcinoma(123;4.33e-08)		AGAAGTGATGGAGGATGGCTA	0.378																																																0													97	94	95					4																	95174021		2203	4300	6503	SO:0001583	missense	56916			AB032948	CCDS3639.1, CCDS47101.1, CCDS58914.1	4q22-q23	2008-02-05			ENSG00000163104	ENSG00000163104			18398	protein-coding gene	gene with protein product		612761				11031099	Standard	NM_001128430		Approved	ETL1, DKFZP762K2015, KIAA1122, DKFZp762K2015	uc003htb.4	Q9H4L7	OTTHUMG00000130971	ENST00000354268.4:c.1144G>A	4.37:g.95174021G>A	ENSP00000346217:p.Glu382Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z799|Q05D56|Q96SX1|Q9H017|Q9H860|Q9NPU9|Q9ULU7	Missense_Mutation	SNP	ENST00000354268.4	37	CCDS3639.1	.	.	.	.	.	.	.	.	.	.	G	15.19	2.759725	0.49468	.	.	ENSG00000163104	ENST00000359052;ENST00000457823;ENST00000354268	D;D;D	0.88277	-2.36;-2.36;-2.35	5.58	5.58	0.84498	.	0.000000	0.50627	D	0.000119	D	0.85936	0.5813	L	0.54323	1.7	0.80722	D	1	P;B	0.41910	0.764;0.157	B;B	0.32762	0.152;0.077	D	0.86276	0.1664	10	0.42905	T	0.14	-9.6286	19.5837	0.95482	0.0:0.0:1.0:0.0	.	382;382	Q9H4L7;Q9H4L7-2	SMRCD_HUMAN;.	K	382	ENSP00000351947:E382K;ENSP00000415576:E382K;ENSP00000346217:E382K	ENSP00000346217:E382K	E	+	1	0	SMARCAD1	95393044	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.116000	0.77119	2.630000	0.89119	0.655000	0.94253	GAG		0.378	SMARCAD1-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000253583.1	NM_020159		A	95174021	G	A	95174021	3	1	615	1	0	0	0	0	1	0	0	0	14785	1175	41	2	1174	2	SMARCAD1	4	95174021	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	37284375	95174021	95980255	33	37482										
GUCY1B3	2983	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	156724870	156724870	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ctgccacctggccttggacaTgatggaaattgctggccagg	13	11	0	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr4:156724870T>G	ENST00000264424.8	+	11	1590	c.1508T>G	c.(1507-1509)aTg>aGg	p.M503R	GUCY1B3_ENST00000507146.1_Missense_Mutation_p.M478R|GUCY1B3_ENST00000513437.1_Missense_Mutation_p.M435R|GUCY1B3_ENST00000505764.1_Missense_Mutation_p.M483R|GUCY1B3_ENST00000502959.1_Missense_Mutation_p.M525R|GUCY1B3_ENST00000505154.1_Missense_Mutation_p.M435R|GUCY1B3_ENST00000503520.1_Missense_Mutation_p.M470R	NM_000857.2	NP_000848.1	Q02153	GCYB1_HUMAN	guanylate cyclase 1, soluble, beta 3	503	Guanylate cyclase. {ECO:0000255|PROSITE- ProRule:PRU00099}.				blood circulation (GO:0008015)|blood coagulation (GO:0007596)|nitric oxide mediated signal transduction (GO:0007263)	cytoplasm (GO:0005737)|guanylate cyclase complex, soluble (GO:0008074)|intracellular membrane-bounded organelle (GO:0043231)	GTP binding (GO:0005525)|guanylate cyclase activity (GO:0004383)|heme binding (GO:0020037)|metal ion binding (GO:0046872)|receptor activity (GO:0004872)			NS(1)|endometrium(2)|kidney(1)|large_intestine(9)|lung(8)|ovary(2)|pancreas(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	28	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.148)		GCCTTGGACATGATGGAAATT	0.423																																																0													76	79	78					4																	156724870		1960	4160	6120	SO:0001583	missense	2983			AF020340	CCDS47154.1, CCDS75203.1	4q31.3-q33	2008-03-18			ENSG00000061918	ENSG00000061918	4.6.1.2		4687	protein-coding gene	gene with protein product		139397		GUC1B3		1352257	Standard	XM_005262959		Approved	GC-SB3, GC-S-beta-1	uc003ipc.3	Q02153	OTTHUMG00000161698	ENST00000264424.8:c.1508T>G	4.37:g.156724870T>G	ENSP00000264424:p.Met503Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z426|Q86WY5	Missense_Mutation	SNP	ENST00000264424.8	37	CCDS47154.1	.	.	.	.	.	.	.	.	.	.	T	22.7	4.327658	0.81690	.	.	ENSG00000061918	ENST00000505154;ENST00000502959;ENST00000505764;ENST00000507146;ENST00000264424;ENST00000503520;ENST00000513437	D;D;D;D;D;D;D	0.83335	-1.71;-1.71;-1.71;-1.71;-1.71;-1.71;-1.71	5.61	5.61	0.85477	Adenylyl cyclase class-3/4/guanylyl cyclase (5);	0.000000	0.85682	D	0.000000	D	0.93848	0.8032	H	0.96576	3.845	0.80722	D	1	P;P;D;P;P	0.58970	0.94;0.941;0.984;0.875;0.867	P;P;D;P;P	0.65010	0.735;0.86;0.931;0.517;0.735	D	0.95757	0.8797	10	0.87932	D	0	.	16.1025	0.81194	0.0:0.0:0.0:1.0	.	483;525;478;470;503	B7Z426;E9PCN2;D6RC99;Q02153-2;Q02153	.;.;.;.;GCYB1_HUMAN	R	435;525;483;478;503;470;435	ENSP00000427226:M435R;ENSP00000426786:M525R;ENSP00000426319:M483R;ENSP00000422313:M478R;ENSP00000264424:M503R;ENSP00000420842:M470R;ENSP00000425065:M435R	ENSP00000264424:M503R	M	+	2	0	GUCY1B3	156944320	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.990000	0.88215	2.254000	0.74563	0.533000	0.62120	ATG		0.423	GUCY1B3-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365770.2			G	156724870	T	G	156724870	3	3	615	1	0	0	0	0	1	0	0	0	6902	1464	51	5	1550	5	GUCY1B3	4	156724870	Missense_Mutation	SNP	T	TCGA-IA-A40Y-01A-11D-A25F-10	61550849	156724870	34429406	34	37483										
SDHA	6389	ucsc.edu;bcgsc.ca	37	chr5	235358	235358	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ggcatttcagagacagccatGatcttcgctggcgtggacgt	13	10	2	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr5:235358G>A	ENST00000264932.6	+	9	1279	c.1164G>A	c.(1162-1164)atG>atA	p.M388I	SDHA_ENST00000504309.1_Missense_Mutation_p.M388I|SDHA_ENST00000510361.1_Missense_Mutation_p.M340I	NM_004168.2	NP_004159.2	P31040	SDHA_HUMAN	succinate dehydrogenase complex, subunit A, flavoprotein (Fp)	388					cellular metabolic process (GO:0044237)|nervous system development (GO:0007399)|oxidation-reduction process (GO:0055114)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)|succinate metabolic process (GO:0006105)|tricarboxylic acid cycle (GO:0006099)	mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain complex II (GO:0005749)|mitochondrion (GO:0005739)	flavin adenine dinucleotide binding (GO:0050660)|succinate dehydrogenase (ubiquinone) activity (GO:0008177)			NS(1)|breast(1)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(6)|liver(2)|lung(16)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	40			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	AGACAGCCATGATCTTCGCTG	0.602									Familial Paragangliomas																																							0													68	61	63					5																	235358		2203	4300	6503	SO:0001583	missense	6389	Familial Cancer Database	Hereditary Glomus Tumors, Familial Paragangliomas, Hereditary Paragangliomas, type 1-3: PGL1, PGL2, PGL3, incl. Familial Carotid Body Paraganglioma and Sensorineural Hearing Loss	BC001380	CCDS3853.1	5p15	2014-09-17			ENSG00000073578	ENSG00000073578		"Mitochondrial respiratory chain complex / Complex II"	10680	protein-coding gene	gene with protein product		600857		SDH2		7798181	Standard	XM_005248329		Approved	FP, SDHF	uc003jao.4	P31040	OTTHUMG00000090275	ENST00000264932.6:c.1164G>A	5.37:g.235358G>A	ENSP00000264932:p.Met388Ile	Somatic		WXS	Illumina HiSeq		A8K5J6|B4DJ60|E9PBJ5|Q16395|Q59GW8|Q8IW48|Q9UMY5	Missense_Mutation	SNP	ENST00000264932.6	37	CCDS3853.1	.	.	.	.	.	.	.	.	.	.	N	18.72	3.683429	0.68157	.	.	ENSG00000073578	ENST00000264932;ENST00000327872;ENST00000504309;ENST00000510361	T;T;T	0.68331	-0.32;-0.32;-0.32	5.12	5.12	0.69794	Fumarate reductase/succinate dehydrogenase flavoprotein, N-terminal (1);	0.000000	0.85682	U	0.000000	T	0.60353	0.2262	L	0.35542	1.07	0.80722	D	1	P;B;B;B;B	0.37276	0.589;0.005;0.121;0.024;0.024	B;B;B;B;B	0.39299	0.296;0.01;0.097;0.017;0.017	T	0.64605	-0.6368	10	0.56958	D	0.05	.	16.4201	0.83755	0.0:0.0:1.0:0.0	.	340;388;388;388;394	E9PBJ5;B4DYN5;D6RFM5;P31040;Q59GW8	.;.;.;DHSA_HUMAN;.	I	388;243;388;340	ENSP00000264932:M388I;ENSP00000426514:M388I;ENSP00000427703:M340I	ENSP00000264932:M388I	M	+	3	0	SDHA	288358	1.000000	0.71417	1.000000	0.80357	0.797000	0.45037	8.994000	0.93529	2.541000	0.85698	0.557000	0.71058	ATG		0.602	SDHA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206599.1	NM_004168		A	235358	G	A	235358	3	1	615	1	0	0	0	0	1	0	0	0	13976	1290	45	2	1198	2	SDHA	5	235358	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10		235358	180679902	35	37484										
DNAH5	1767	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	13771076	13771076	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tcaatatcataggaagtgagGaagtgttcagacactagaga	11	5	3	3			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr5:13771076G>T	ENST00000265104.4	-	56	9491	c.9387C>A	c.(9385-9387)ttC>ttA	p.F3129L	DNAH5_ENST00000504001.3_5'UTR	NM_001369.2	NP_001360.1	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3129	AAA 4. {ECO:0000250}.				cilium movement (GO:0003341)|lateral ventricle development (GO:0021670)|left/right axis specification (GO:0070986)	axonemal dynein complex (GO:0005858)|axoneme (GO:0005930)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(6)|breast(14)|central_nervous_system(4)|cervix(2)|endometrium(23)|haematopoietic_and_lymphoid_tissue(8)|kidney(11)|large_intestine(85)|liver(1)|lung(129)|ovary(16)|pancreas(2)|prostate(5)|skin(48)|stomach(5)|upper_aerodigestive_tract(11)|urinary_tract(8)	378	Lung NSC(4;0.00476)					AGGAAGTGAGGAAGTGTTCAG	0.388									Kartagener syndrome																																							0													63	60	61					5																	13771076		2203	4300	6503	SO:0001583	missense	1767	Familial Cancer Database	Ciliary Dyskinesia, Primary (CILD1 - CILD13), Immotile Cilia Syndrome	AJ132090	CCDS3882.1	5p15.2	2008-07-18	2006-09-04		ENSG00000039139	ENSG00000039139		"Axonemal dyneins"	2950	protein-coding gene	gene with protein product	"dynein heavy chain 5"	603335	"dynein, axonemal, heavy polypeptide 5"			9256245, 11788826	Standard	NM_001369		Approved	Dnahc5, HL1, PCD, CILD3, KTGNR	uc003jfd.2	Q8TE73	OTTHUMG00000090533	ENST00000265104.4:c.9387C>A	5.37:g.13771076G>T	ENSP00000265104:p.Phe3129Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q92860|Q96L74|Q9H5S7|Q9HCG9	Missense_Mutation	SNP	ENST00000265104.4	37	CCDS3882.1	.	.	.	.	.	.	.	.	.	.	G	14.39	2.521574	0.44866	.	.	ENSG00000039139	ENST00000265104	T	0.54071	0.59	5.71	2.58	0.30949	Dynein heavy chain, P-loop containing D4 domain (1);	0.000000	0.85682	D	0.000000	T	0.67268	0.2875	M	0.89601	3.045	0.80722	D	1	B	0.31989	0.35	P	0.46585	0.521	T	0.68792	-0.5315	10	0.72032	D	0.01	.	7.8099	0.29226	0.1782:0.0:0.6883:0.1335	.	3129	Q8TE73	DYH5_HUMAN	L	3129	ENSP00000265104:F3129L	ENSP00000265104:F3129L	F	-	3	2	DNAH5	13824076	1.000000	0.71417	1.000000	0.80357	0.201000	0.24016	2.368000	0.44222	0.759000	0.33084	-0.152000	0.13540	TTC		0.388	DNAH5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207057.2	NM_001369		T	13771076	G	T	13771076	3	4	615	1	0	0	0	0	1	0	0	0	4606	1165	41	4	4583	4	DNAH5	5	13771076	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	13535718	13771076	167144184	36	37485										
NNT	23530	broad.mit.edu	37	chr5	43677873	43677873	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	caataccccattgctgatttGgtaaagatgctcactgagca	8	10	1	3			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr5:43677873G>T	ENST00000264663.5	+	19	3062	c.2841G>T	c.(2839-2841)ttG>ttT	p.L947F	NNT_ENST00000512996.2_Missense_Mutation_p.L816F|NNT_ENST00000344920.4_Missense_Mutation_p.L947F	NM_012343.3	NP_036475.3	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	947					cellular metabolic process (GO:0044237)|hydrogen ion transmembrane transport (GO:1902600)|oxidation-reduction process (GO:0055114)|proton transport (GO:0015992)|reactive oxygen species metabolic process (GO:0072593)|small molecule metabolic process (GO:0044281)|tricarboxylic acid cycle (GO:0006099)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain (GO:0005746)|mitochondrion (GO:0005739)	NAD binding (GO:0051287)|NAD(P)+ transhydrogenase (AB-specific) activity (GO:0008750)|NAD(P)+ transhydrogenase (B-specific) activity (GO:0003957)|NAD(P)+ transhydrogenase activity (GO:0008746)|NADP binding (GO:0050661)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(7)|large_intestine(6)|liver(2)|lung(20)|ovary(3)|prostate(2)|skin(1)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	51	Lung NSC(6;2.58e-06)					TTGCTGATTTGGTAAAGATGC	0.403																																																0													158	153	155					5																	43677873		2203	4300	6503	SO:0001583	missense	23530			U40490	CCDS3949.1	5p12	2008-02-05			ENSG00000112992	ENSG00000112992	1.6.1.1		7863	protein-coding gene	gene with protein product		607878				9271681, 9524818	Standard	NM_182977		Approved		uc003jof.3	Q13423	OTTHUMG00000096961	ENST00000264663.5:c.2841G>T	5.37:g.43677873G>T	ENSP00000264663:p.Leu947Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q16796|Q2TB60|Q8N3V4	Missense_Mutation	SNP	ENST00000264663.5	37	CCDS3949.1	.	.	.	.	.	.	.	.	.	.	G	18.42	3.620944	0.66787	.	.	ENSG00000112992	ENST00000542759;ENST00000264663;ENST00000344920;ENST00000512996	D;D;D	0.90955	-2.76;-2.76;-2.76	5.19	4.32	0.51571	.	0.196995	0.43579	D	0.000550	D	0.90810	0.7114	M	0.65320	2	0.54753	D	0.999983	P	0.45634	0.863	P	0.49332	0.607	D	0.90075	0.4166	10	0.51188	T	0.08	-2.1643	10.6804	0.45811	0.2048:0.0:0.7952:0.0	.	947	Q13423	NNTM_HUMAN	F	462;947;947;816	ENSP00000264663:L947F;ENSP00000343873:L947F;ENSP00000426343:L816F	ENSP00000264663:L947F	L	+	3	2	NNT	43713630	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	3.031000	0.49728	1.311000	0.45024	0.558000	0.71614	TTG		0.403	NNT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214026.1	NM_182977		T	43677873	G	T	43677873	3	4	615	1	0	0	0	0	1	0	0	0	10517	1339	47	4	2911	4	NNT	5	43677873	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	29906797	43677873	137237387	37	37486										
DDX4	54514	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	55110902	55110902	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	atatgttcatcgaattgggcGtactggtcgttgtgggaata	13	5	1	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr5:55110902G>A	ENST00000505374.1	+	20	1981	c.1889G>A	c.(1888-1890)cGt>cAt	p.R630H	DDX4_ENST00000511853.1_Missense_Mutation_p.R481H|DDX4_ENST00000354991.5_Missense_Mutation_p.R596H|DDX4_ENST00000514278.2_Missense_Mutation_p.R610H|DDX4_ENST00000353507.5_Missense_Mutation_p.R596H	NM_024415.2	NP_077726.1	Q9NQI0	DDX4_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 4	630	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				male meiosis I (GO:0007141)|multicellular organismal development (GO:0007275)|regulation of protein localization (GO:0032880)|sperm motility (GO:0030317)|spermatogenesis (GO:0007283)	chromatoid body (GO:0033391)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|pi-body (GO:0071546)|piP-body (GO:0071547)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|nucleic acid binding (GO:0003676)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(4)|lung(8)|ovary(1)|skin(3)|upper_aerodigestive_tract(2)	24		Lung NSC(810;6.93e-05)|all_neural(839;0.00409)|Prostate(74;0.0107)|Breast(144;0.0544)|Ovarian(174;0.223)				CGAATTGGGCGTACTGGTCGT	0.393																																																0													183	179	180					5																	55110902		2203	4300	6503	SO:0001583	missense	54514			AF262962	CCDS3969.1, CCDS47208.1, CCDS54854.1, CCDS54855.1	5p15.2-p13.1	2008-02-05	2003-06-13		ENSG00000152670	ENSG00000152670		"DEAD-boxes"	18700	protein-coding gene	gene with protein product		605281	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 4"			10920202, 11850529	Standard	NM_001142549		Approved	VASA	uc003jqg.4	Q9NQI0	OTTHUMG00000097044	ENST00000505374.1:c.1889G>A	5.37:g.55110902G>A	ENSP00000424838:p.Arg630His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8Q2|B3KSF4|D6RDK4|E9PCD8|Q5M7Z3|Q86VX0|Q9NT92|Q9NYB1	Missense_Mutation	SNP	ENST00000505374.1	37	CCDS3969.1	.	.	.	.	.	.	.	.	.	.	G	16.38	3.106807	0.56291	.	.	ENSG00000152670	ENST00000353507;ENST00000514278;ENST00000505374;ENST00000354991;ENST00000511853	D;D;D;D;D	0.99143	-5.48;-5.48;-5.48;-5.48;-5.48	5.69	3.83	0.44106	Helicase, C-terminal (3);	0.000000	0.85682	D	0.000000	D	0.99576	0.9847	H	0.99042	4.41	0.47737	D	0.999505	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	1.0;1.0;1.0;1.0	D	0.97744	1.0210	10	0.87932	D	0	-18.9385	12.9225	0.58241	0.0:0.1242:0.7465:0.1293	.	610;481;596;630	D6RDK4;E9PCD8;Q9NQI0-2;Q9NQI0	.;.;.;DDX4_HUMAN	H	596;610;630;596;481	ENSP00000334167:R596H;ENSP00000425359:R610H;ENSP00000424838:R630H;ENSP00000347087:R596H;ENSP00000423123:R481H	ENSP00000334167:R596H	R	+	2	0	DDX4	55146659	1.000000	0.71417	0.997000	0.53966	0.125000	0.20455	7.630000	0.83225	1.390000	0.46547	-0.305000	0.09177	CGT		0.393	DDX4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214147.2	NM_024415		A	55110902	G	A	55110902	3	1	615	1	0	0	0	0	1	0	0	0	4362	1145	40	1	2004	1	DDX4	5	55110902	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	11433029	55110902	125804358	38	37487										
RASA1	5921	bcgsc.ca	37	chr5	86645138	86645138	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	agcgatttaaaatatgtccaAcgccaaacaatcagtttatg	6	8	1	0	rs560064316		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr5:86645138A>T	ENST00000274376.6	+	8	1774	c.1210A>T	c.(1210-1212)Acg>Tcg	p.T404S	RASA1_ENST00000506290.1_Missense_Mutation_p.T238S|RASA1_ENST00000512763.1_Missense_Mutation_p.T237S|RASA1_ENST00000456692.2_Missense_Mutation_p.T227S	NM_002890.2	NP_002881.1	P20936	RASA1_HUMAN	RAS p21 protein activator (GTPase activating protein) 1	404	SH2 2. {ECO:0000255|PROSITE- ProRule:PRU00191}.				blood vessel morphogenesis (GO:0048514)|embryo development (GO:0009790)|intracellular signal transduction (GO:0035556)|mitotic cytokinesis (GO:0000281)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of Ras protein signal transduction (GO:0046580)|positive regulation of Ras GTPase activity (GO:0032320)|regulation of actin filament polymerization (GO:0030833)|regulation of cell shape (GO:0008360)|regulation of RNA metabolic process (GO:0051252)|signal transduction (GO:0007165)|vasculogenesis (GO:0001570)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)|ruffle (GO:0001726)	glycoprotein binding (GO:0001948)|GTPase binding (GO:0051020)|potassium channel inhibitor activity (GO:0019870)|Ras GTPase activator activity (GO:0005099)|receptor binding (GO:0005102)			NS(1)|cervix(1)|endometrium(7)|kidney(4)|large_intestine(12)|lung(13)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	48		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		AATATGTCCAACGCCAAACAA	0.348																																																0													75	79	78					5																	86645138		2201	4298	6499	SO:0001583	missense	5921				CCDS34200.1, CCDS47243.1	5q13	2013-02-14			ENSG00000145715	ENSG00000145715		"Pleckstrin homology (PH) domain containing", "SH2 domain containing"	9871	protein-coding gene	gene with protein product	"capillary malformation-arteriovenous malformation"	139150		RASA		15917201	Standard	NM_022650		Approved	GAP, CM-AVM, p120GAP, p120RASGAP	uc003kiw.3	P20936	OTTHUMG00000162605	ENST00000274376.6:c.1210A>T	5.37:g.86645138A>T	ENSP00000274376:p.Thr404Ser	Somatic		WXS	Illumina HiSeq	Phase_1	B2R6W3|Q9UDI1	Missense_Mutation	SNP	ENST00000274376.6	37	CCDS34200.1	.	.	.	.	.	.	.	.	.	.	A	19.80	3.894664	0.72639	.	.	ENSG00000145715	ENST00000274376;ENST00000534133;ENST00000456692;ENST00000512763;ENST00000506290	D;D;D;D	0.88975	-2.45;-2.45;-2.45;-2.45	5.78	5.78	0.91487	SH2 motif (4);	0.000000	0.85682	D	0.000000	D	0.84170	0.5413	N	0.16656	0.425	0.58432	D	0.999999	P;B;P;B;P	0.39094	0.488;0.196;0.488;0.305;0.659	B;B;B;B;B	0.43889	0.357;0.254;0.357;0.298;0.435	D	0.83771	0.0220	10	0.32370	T	0.25	.	16.1143	0.81295	1.0:0.0:0.0:0.0	.	238;237;238;227;404	E9PGC0;B4DTL2;B4DTX4;P20936-2;P20936	.;.;.;.;RASA1_HUMAN	S	404;437;227;237;238	ENSP00000274376:T404S;ENSP00000411221:T227S;ENSP00000422008:T237S;ENSP00000420905:T238S	ENSP00000274376:T404S	T	+	1	0	RASA1	86680894	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.294000	0.78760	2.198000	0.70561	0.477000	0.44152	ACG		0.348	RASA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000369729.1	NM_002890		T	86645138	A	T	86645138	3	4	615	1	0	0	0	0	1	0	0	0	13073	43	2	5	1252	5	RASA1	5	86645138	Missense_Mutation	SNP	A	TCGA-IA-A40Y-01A-11D-A25F-10	31534236	86645138	94270122	39	37488										
SLCO6A1	133482	broad.mit.edu	37	chr5	101811427	101811427	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gcagaagtagtattctcaggGactttaactagtggtgctcc	11	8	1	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr5:101811427G>A	ENST00000506729.1	-	4	1044	c.873C>T	c.(871-873)gtC>gtT	p.V291V	SLCO6A1_ENST00000514551.1_5'UTR|SLCO6A1_ENST00000379810.1_Silent_p.V229V|SLCO6A1_ENST00000389019.3_Silent_p.V229V|SLCO6A1_ENST00000513675.1_Silent_p.V229V|SLCO6A1_ENST00000379807.3_Silent_p.V291V			Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family, member 6A1	291						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(17)|lung(22)|ovary(3)|prostate(4)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	60		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)		TATTCTCAGGGACTTTAACTA	0.333																																																0													114	109	111					5																	101811427		2203	4300	6503	SO:0001819	synonymous_variant	133482			AF505657	CCDS34206.1, CCDS75282.1	5q21.2	2013-05-22			ENSG00000205359	ENSG00000205359		"Solute carriers"	23613	protein-coding gene	gene with protein product	"cancer/testis antigen 48"	613365					Standard	XM_005271874		Approved	OATP6A1, OATPY, MGC26949, CT48	uc003knp.3	Q86UG4	OTTHUMG00000162759	ENST00000506729.1:c.873C>T	5.37:g.101811427G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NHC1|Q6ZMY5|Q86UV2|Q8IYU5	Silent	SNP	ENST00000506729.1	37	CCDS34206.1																																																																																				0.333	SLCO6A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370335.1	NM_173488		A	101811427	G	A	101811427	2	1	615	1	0	0	0	0	0	0	0	1	14745	1161	41	2		2	SLCO6A1	5	101811427	Silent	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	15166289	101811427	79103833	40	37489										
PCDHGA1	56114	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	140711698	140711698	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	cccacgacttggacagcaatGagaatgcacaaatcacttac	7	12	1	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr5:140711698G>A	ENST00000517417.1	+	1	1447	c.1447G>A	c.(1447-1449)Gag>Aag	p.E483K	AC005618.6_ENST00000606901.1_lincRNA|PCDHGA1_ENST00000378105.3_Missense_Mutation_p.E483K	NM_018912.2	NP_061735.1	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1	483	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(18)|lung(32)|ovary(1)|pancreas(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	78			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGACAGCAATGAGAATGCACA	0.537																																																0													113	121	119					5																	140711698		2203	4300	6503	SO:0001583	missense	56114			AF152318	CCDS54922.1	5q31	2010-01-26				ENSG00000204956		"Cadherins / Protocadherins : Clustered"	8696	other	protocadherin		606288				10380929	Standard	NM_018912		Approved	PCDH-GAMMA-A1		Q9Y5H4		ENST00000517417.1:c.1447G>A	5.37:g.140711698G>A	ENSP00000431083:p.Glu483Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M273|Q9Y5D6	Missense_Mutation	SNP	ENST00000517417.1	37	CCDS54922.1	.	.	.	.	.	.	.	.	.	.	G	6.770	0.511030	0.12883	.	.	ENSG00000204956	ENST00000517417;ENST00000378105	T;T	0.51574	4.68;0.7	3.82	2.91	0.33838	Cadherin (4);Cadherin-like (1);	0.321295	0.22123	N	0.064320	T	0.43523	0.1251	L	0.52266	1.64	0.09310	N	0.999999	B;B	0.14805	0.011;0.009	B;B	0.24701	0.049;0.055	T	0.42430	-0.9452	10	0.46703	T	0.11	.	12.8583	0.57899	0.0:0.3118:0.6881:0.0	.	483;483	Q9Y5H4-2;Q9Y5H4	.;PCDG1_HUMAN	K	483	ENSP00000431083:E483K;ENSP00000367345:E483K	ENSP00000367345:E483K	E	+	1	0	PCDHGA1	140691882	0.000000	0.05858	0.121000	0.21740	0.494000	0.33585	0.184000	0.16939	0.905000	0.36596	0.557000	0.71058	GAG		0.537	PCDHGA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000374737.1	NM_018912		A	140711698	G	A	140711698	3	1	615	1	0	0	0	0	1	0	0	0	11557	1291	45	2	1449	2	PCDHGA1	5	140711698	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	38900271	140711698	40203562	41	37490										
CLINT1	9685	broad.mit.edu	37	chr5	157285975	157285975	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gcgcaccttccacatgttcaAcatcgtgccccgcgcgggac	10	17	1	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr5:157285975A>T	ENST00000411809.2	-	1	208	c.4T>A	c.(4-6)Ttg>Atg	p.L2M	CLINT1_ENST00000296951.5_De_novo_Start_InFrame|CLINT1_ENST00000523908.1_Missense_Mutation_p.L2M|CLINT1_ENST00000523094.1_De_novo_Start_OutOfFrame|CLINT1_ENST00000530742.1_Intron	NM_014666.3	NP_055481.1	Q14677	EPN4_HUMAN	clathrin interactor 1	2					clathrin coat assembly (GO:0048268)|endocytosis (GO:0006897)|membrane organization (GO:0061024)|post-Golgi vesicle-mediated transport (GO:0006892)	clathrin-coated vesicle (GO:0030136)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)	clathrin binding (GO:0030276)|lipid binding (GO:0008289)			breast(1)|endometrium(2)|kidney(3)|large_intestine(2)|lung(9)|ovary(2)|pancreas(1)|urinary_tract(1)	21	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)			CACATGTTCAACATCGTGCCC	0.701																																					Colon(22;427 587 2170 6147 14291)											0													34	41	39					5																	157285975		2024	4177	6201	SO:0001583	missense	9685			AF434813	CCDS47330.1, CCDS56388.1, CCDS56389.1	5q33.3	2006-06-13			ENSG00000113282	ENSG00000113282			23186	protein-coding gene	gene with protein product		607265				12213833, 12429846	Standard	NM_014666		Approved	ENTH, KIAA0171, EPNR, CLINT	uc011ddv.2	Q14677	OTTHUMG00000163527	ENST00000411809.2:c.4T>A	5.37:g.157285975A>T	ENSP00000388340:p.Leu2Met	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6F8|D3DQJ6|Q8NAF1|Q96E05	Missense_Mutation	SNP	ENST00000411809.2	37	CCDS47330.1	.	.	.	.	.	.	.	.	.	.	A	14.97	2.694344	0.48202	.	.	ENSG00000113282	ENST00000411809;ENST00000523908	T;T	0.48836	0.8;0.8	5.11	3.95	0.45737	ENTH/VHS (1);	.	.	.	.	T	0.37237	0.0996	L	0.43152	1.355	0.80722	D	1	B;B	0.25105	0.118;0.118	B;B	0.25884	0.064;0.064	T	0.21245	-1.0251	9	0.54805	T	0.06	.	6.1994	0.20567	0.7953:0.0:0.2047:0.0	.	2;2	B7Z6F8;Q14677	.;EPN4_HUMAN	M	2	ENSP00000388340:L2M;ENSP00000429824:L2M	ENSP00000388340:L2M	L	-	1	2	CLINT1	157218553	1.000000	0.71417	1.000000	0.80357	0.935000	0.57460	1.819000	0.39022	0.789000	0.33779	0.533000	0.62120	TTG		0.701	CLINT1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000374001.1	NM_014666		T	157285975	A	T	157285975	3	4	615	1	0	0	0	0	1	0	0	0	3533	40	2	5	1921	5	CLINT1	5	157285975	Missense_Mutation	SNP	A	TCGA-IA-A40Y-01A-11D-A25F-10	16574277	157285975	23629285	42	37491										
FLT4	2324	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	180050943	180050943	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gctggcctgtaccttattctTtccctccacaaactcggtcc	6	16	1	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr5:180050943T>A	ENST00000261937.6	-	11	1618	c.1540A>T	c.(1540-1542)Aag>Tag	p.K514*	FLT4_ENST00000502649.1_Nonsense_Mutation_p.K514*|FLT4_ENST00000393347.3_Nonsense_Mutation_p.K514*|FLT4_ENST00000424276.2_5'UTR	NM_182925.4	NP_891555.2	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4	514	Ig-like C2-type 5.				blood vessel morphogenesis (GO:0048514)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|lymph vessel development (GO:0001945)|lymphangiogenesis (GO:0001946)|negative regulation of apoptotic process (GO:0043066)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of cell proliferation (GO:0008284)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of JNK cascade (GO:0046330)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of protein kinase C signaling (GO:0090037)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation vascular endothelial growth factor production (GO:0010575)|protein autophosphorylation (GO:0046777)|regulation of blood vessel remodeling (GO:0060312)|sprouting angiogenesis (GO:0002040)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)|vascular endothelial growth factor signaling pathway (GO:0038084)|vasculature development (GO:0001944)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|growth factor binding (GO:0019838)|protein phosphatase binding (GO:0019903)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)|vascular endothelial growth factor-activated receptor activity (GO:0005021)			NS(1)|breast(3)|central_nervous_system(2)|endometrium(1)|kidney(6)|large_intestine(5)|liver(2)|lung(37)|ovary(6)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	71	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)	Axitinib(DB06626)|Pazopanib(DB06589)|Regorafenib(DB08896)|Sorafenib(DB00398)|Sunitinib(DB01268)	ACCTTATTCTTTCCCTCCACA	0.602																																					Colon(97;1075 1466 27033 27547 35871)											0													95	82	87					5																	180050943		2203	4300	6503	SO:0001587	stop_gained	2324			X68203	CCDS4457.1, CCDS43412.1	5q34-q35	2013-01-29			ENSG00000037280	ENSG00000037280	2.7.10.1	"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	3767	protein-coding gene	gene with protein product		136352				1319394	Standard	NM_002020		Approved	VEGFR3, PCL	uc003mlz.4	P35916	OTTHUMG00000130931	ENST00000261937.6:c.1540A>T	5.37:g.180050943T>A	ENSP00000261937:p.Lys514*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6L4|B5A926|Q16067|Q86W07|Q86W08	Nonsense_Mutation	SNP	ENST00000261937.6	37	CCDS4457.1	.	.	.	.	.	.	.	.	.	.	T	39	7.440611	0.98286	.	.	ENSG00000037280	ENST00000261937;ENST00000393347;ENST00000502649;ENST00000376868	.	.	.	4.72	4.72	0.59763	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	10.8621	0.46833	0.0:0.0:0.2833:0.7166	.	.	.	.	X	514;514;514;324	.	ENSP00000261937:K514X	K	-	1	0	FLT4	179983549	1.000000	0.71417	0.996000	0.52242	0.985000	0.73830	3.078000	0.50096	1.906000	0.55180	0.459000	0.35465	AAG		0.602	FLT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253527.4			A	180050943	T	A	180050943	4	1	615	1	0	0	0	0	0	1	0	0	5951	1850	64	5	2639	5	FLT4	5	180050943	Nonsense_Mutation	SNP	T	TCGA-IA-A40Y-01A-11D-A25F-10	22764968	180050943	864317	43	37492										
HIST1H2AE	3012	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	26217223	26217223	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	atgtctggacgtggaaagcaAggcggcaaagctcgggcaaa	15	8	1	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr6:26217223A>T	ENST00000303910.2	+	1	59	c.21A>T	c.(19-21)caA>caT	p.Q7H	HIST1H2BG_ENST00000244601.3_5'Flank	NM_021052.2	NP_066390.1	P04908	H2A1B_HUMAN	histone cluster 1, H2ae	7						extracellular vesicular exosome (GO:0070062)|nucleosome (GO:0000786)|nucleus (GO:0005634)	DNA binding (GO:0003677)			central_nervous_system(1)|endometrium(2)|large_intestine(1)|lung(3)|ovary(1)|skin(2)	10		all_hematologic(11;0.196)				GTGGAAAGCAAGGCGGCAAAG	0.502																																																0													62	55	57					6																	26217223		2203	4300	6503	SO:0001583	missense	3012			M60752	CCDS4595.1	6p22.1	2011-01-27	2006-10-11	2003-02-21	ENSG00000168274	ENSG00000277075		"Histones / Replication-dependent"	4724	protein-coding gene	gene with protein product		602786	"H2A histone family, member A", "histone 1, H2ae"	H2AFA		9119399, 1916825, 12408966	Standard	NM_021052		Approved	H2A/a, H2A.1	uc003nha.1	P04908	OTTHUMG00000014440	ENST00000303910.2:c.21A>T	6.37:g.26217223A>T	ENSP00000303373:p.Gln7His	Somatic		WXS	Illumina HiSeq	Phase_I	P28001|Q76P63	Missense_Mutation	SNP	ENST00000303910.2	37	CCDS4595.1	.	.	.	.	.	.	.	.	.	.	.	11.14	1.551016	0.27739	.	.	ENSG00000168274	ENST00000303910	T	0.42900	0.96	4.08	-4.32	0.03688	.	0.000000	0.32640	U	0.005837	T	0.14830	0.0358	N	0.17474	0.49	0.34285	D	0.682566	.	.	.	.	.	.	T	0.14811	-1.0459	8	0.66056	D	0.02	.	10.9427	0.47283	0.6741:0.0:0.3259:0.0	.	.	.	.	H	7	ENSP00000303373:Q7H	ENSP00000303373:Q7H	Q	+	3	2	HIST1H2AE	26325202	0.014000	0.17966	0.774000	0.31636	0.857000	0.48899	-1.328000	0.02680	-1.206000	0.02641	0.533000	0.62120	CAA		0.502	HIST1H2AE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040103.1	NM_021052		T	26217223	A	T	26217223	3	4	615	1	0	0	0	0	1	0	0	0	7139	69	3	5	23	5	HIST1H2AE	6	26217223	Missense_Mutation	SNP	A	TCGA-IA-A40Y-01A-11D-A25F-10		26217223	144897844	44	37493										
PKHD1	5314	broad.mit.edu;bcgsc.ca	37	chr6	51889790	51889790	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	caggtctgctggtcaatataGactgacgtggtgttctgtcc	12	9	3	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr6:51889790G>A	ENST00000371117.3	-	32	5093	c.4818C>T	c.(4816-4818)gtC>gtT	p.V1606V	PKHD1_ENST00000340994.4_Silent_p.V1606V	NM_138694.3	NP_619639.3	P08F94	PKHD1_HUMAN	polycystic kidney and hepatic disease 1 (autosomal recessive)	1606	IPT/TIG 11.				cellular calcium ion homeostasis (GO:0006874)|cilium assembly (GO:0042384)|homeostatic process (GO:0042592)|kidney development (GO:0001822)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cellular component movement (GO:0051271)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of protein kinase B signaling (GO:0051898)|positive regulation of cell proliferation (GO:0008284)|regulation of centrosome duplication (GO:0010824)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of TOR signaling (GO:0032006)|single organismal cell-cell adhesion (GO:0016337)	anchored component of external side of plasma membrane (GO:0031362)|apical plasma membrane (GO:0016324)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|mitotic spindle (GO:0072686)|perinuclear region of cytoplasm (GO:0048471)|primary cilium (GO:0072372)	receptor activity (GO:0004872)			NS(1)|autonomic_ganglia(1)|breast(8)|central_nervous_system(5)|cervix(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(59)|lung(139)|ovary(16)|prostate(8)|skin(20)|soft_tissue(1)|stomach(2)|upper_aerodigestive_tract(7)|urinary_tract(5)	304	Lung NSC(77;0.0605)					GGTCAATATAGACTGACGTGG	0.507																																																0													148	133	138					6																	51889790		2203	4300	6503	SO:0001819	synonymous_variant	5314			AF480064	CCDS4935.1, CCDS4936.1	6p21.2-p12	2012-11-26	2003-04-16		ENSG00000170927	ENSG00000170927			9016	protein-coding gene	gene with protein product	"tigmin", "polyductin", "fibrocystin"	606702	"TIG multiple domains 1"	TIGM1		9503014	Standard	NM_138694		Approved	ARPKD, FCYT	uc003pah.1	P08F94	OTTHUMG00000014841	ENST00000371117.3:c.4818C>T	6.37:g.51889790G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUA2|Q5VUA3|Q5VWV1|Q86Z26|Q8TCZ9	Silent	SNP	ENST00000371117.3	37	CCDS4935.1																																																																																				0.507	PKHD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040893.1	NM_138694		A	51889790	G	A	51889790	2	1	615	1	0	0	0	0	0	0	0	1	11978	929	33	2		2	PKHD1	6	51889790	Silent	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	25672567	51889790	119225277	45	37494										
KIAA1009	22832	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	84911470	84911470	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tttaccattagcaagcatgcCagttttttcttcttcctaaa	4	10	2	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr6:84911470C>T	ENST00000403245.3	-	8	817	c.703G>A	c.(703-705)Ggc>Agc	p.G235S	KIAA1009_ENST00000257766.4_Missense_Mutation_p.G159S	NM_014895.2	NP_055710.2														breast(2)|central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(10)|lung(17)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	43		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		GCAAGCATGCCAGTTTTTTCT	0.264																																																0													14	15	15					6																	84911470		2167	4247	6414	SO:0001583	missense	22832																														ENST00000403245.3:c.703G>A	6.37:g.84911470C>T	ENSP00000385215:p.Gly235Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000403245.3	37	CCDS34494.2	.	.	.	.	.	.	.	.	.	.	C	21.2	4.111524	0.77210	.	.	ENSG00000135315	ENST00000257766;ENST00000403245	T;T	0.13538	2.58;2.58	5.26	4.38	0.52667	.	0.088446	0.49305	D	0.000147	T	0.20495	0.0493	M	0.78637	2.42	0.34708	D	0.72746	D;D	0.69078	0.994;0.997	P;P	0.60682	0.83;0.878	T	0.06180	-1.0841	10	0.40728	T	0.16	-2.3175	11.4271	0.50018	0.1804:0.8196:0.0:0.0	.	235;235	Q5TB80;C9JFM9	QN1_HUMAN;.	S	159;235	ENSP00000257766:G159S;ENSP00000385215:G235S	ENSP00000257766:G159S	G	-	1	0	KIAA1009	84968189	1.000000	0.71417	0.999000	0.59377	0.982000	0.71751	1.971000	0.40530	1.304000	0.44892	0.563000	0.77884	GGC		0.264	KIAA1009-004	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317315.1			T	84911470	C	T	84911470	3	4	615	1	0	0	0	0	1	0	0	0	8210	594	21	2	3588	2	KIAA1009	6	84911470	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	33021680	84911470	86203597	46	37495										
PM20D2	135293	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	89859124	89859124	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gcttatctaccagatatggcTgaacatgagtgagtaatcaa	9	7	2	4			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr6:89859124T>A	ENST00000275072.4	+	2	701	c.606T>A	c.(604-606)gcT>gcA	p.A202A		NM_001010853.1	NP_001010853.1	Q8IYS1	P20D2_HUMAN	peptidase M20 domain containing 2	202						extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	hydrolase activity (GO:0016787)			breast(1)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(3)|lung(2)|skin(1)	12		all_cancers(76;9.47e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00813)		CAGATATGGCTGAACATGAGT	0.373																																																0													135	136	135					6																	89859124		2203	4300	6503	SO:0001819	synonymous_variant	135293			BC035036	CCDS34499.1	6q15	2014-07-14	2007-11-14	2007-11-14	ENSG00000146281	ENSG00000146281			21408	protein-coding gene	gene with protein product	"&#946;-alanyl-lysine dipeptidase"	615913	"aminoacylase 1-like 2"	ACY1L2		24891507	Standard	NM_001010853		Approved	bA63L7.3	uc003pmz.4	Q8IYS1	OTTHUMG00000015193	ENST00000275072.4:c.606T>A	6.37:g.89859124T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DYJ2|Q5T7J9|Q6MZV2|Q86XD9	Silent	SNP	ENST00000275072.4	37	CCDS34499.1																																																																																				0.373	PM20D2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041477.1	NM_001010853		A	89859124	T	A	89859124	2	1	615	1	0	0	0	0	0	0	0	1	12136	1567	55	5		5	PM20D2	6	89859124	Silent	SNP	T	TCGA-IA-A40Y-01A-11D-A25F-10	4947654	89859124	81255943	47	37496										
HDDC2	51020	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	125619919	125619919	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tgctggtgctatgtccccaaCgatgcattctgccatatcat	8	12	2	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr6:125619919C>T	ENST00000398153.2	-	3	292	c.250G>A	c.(250-252)Gtt>Att	p.V84I	HDDC2_ENST00000368377.4_Intron|HDDC2_ENST00000608295.1_Missense_Mutation_p.V84I|HDDC2_ENST00000608284.1_Missense_Mutation_p.V84I	NM_016063.2	NP_057147.2	Q7Z4H3	HDDC2_HUMAN	HD domain containing 2	84	HD.					extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)				endometrium(1)|large_intestine(1)|lung(4)	6			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0186)		ATGTCCCCAACGATGCATTCT	0.413																																																0													190	168	175					6																	125619919		1925	4164	6089	SO:0001583	missense	51020			AF151888	CCDS43503.1	6q13-q24.3	2008-02-05	2005-08-22	2005-08-22	ENSG00000111906	ENSG00000111906			21078	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 74"	C6orf74		10810093	Standard	NM_016063		Approved	CGI-130, dJ167O5.2	uc003qaa.1	Q7Z4H3	OTTHUMG00000015506	ENST00000398153.2:c.250G>A	6.37:g.125619919C>T	ENSP00000381220:p.Val84Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TDQ4|Q6NZ49|Q9BTT2|Q9BV31|Q9Y3D1	Missense_Mutation	SNP	ENST00000398153.2	37	CCDS43503.1	.	.	.	.	.	.	.	.	.	.	C	29.8	5.039411	0.93630	.	.	ENSG00000111906	ENST00000398153	T	0.43688	0.94	5.62	4.76	0.60689	Metal-dependent phosphohydrolase, HD domain (1);Metal-dependent phosphohydrolase, HD subdomain (1);HD domain (1);	0.000000	0.64402	U	0.000001	T	0.35770	0.0943	L	0.48877	1.53	0.80722	D	1	D	0.60575	0.988	P	0.51895	0.683	T	0.28004	-1.0057	10	0.59425	D	0.04	.	13.6517	0.62314	0.0:0.9242:0.0:0.0758	.	84	Q7Z4H3	HDDC2_HUMAN	I	84	ENSP00000381220:V84I	ENSP00000381220:V84I	V	-	1	0	HDDC2	125661618	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.426000	0.80270	1.527000	0.49086	0.655000	0.94253	GTT		0.413	HDDC2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000472493.1	NM_016063		T	125619919	C	T	125619919	3	4	615	1	0	0	0	0	1	0	0	0	7023	536	19	1	380	1	HDDC2	6	125619919	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	35760795	125619919	45495148	48	37497										
SNX10	29887	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	26404687	26404687	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	acaactgccagaacttccatCtaaaaacctgtttttcaaca	3	12	2	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr7:26404687C>G	ENST00000338523.4	+	5	420	c.233C>G	c.(232-234)tCt>tGt	p.S78C	SNX10_ENST00000396376.1_Missense_Mutation_p.S78C|SNX10_ENST00000446848.2_Missense_Mutation_p.S104C|SNX10_ENST00000409367.1_Missense_Mutation_p.S38C|SNX10_ENST00000409838.1_5'UTR	NM_001199835.1|NM_013322.2	NP_001186764.1|NP_037454.2	Q9Y5X0	SNX10_HUMAN	sorting nexin 10	78	PX. {ECO:0000255|PROSITE- ProRule:PRU00147}.|Required for the interaction with ATP6V1D.				cilium assembly (GO:0042384)|endosome organization (GO:0007032)|intracellular protein transport (GO:0006886)|osteoclast differentiation (GO:0030316)|protein localization to centrosome (GO:0071539)|protein localization to cilium (GO:0061512)	cytoskeleton (GO:0005856)|endoplasmic reticulum (GO:0005783)|extrinsic component of endosome membrane (GO:0031313)|nucleus (GO:0005634)	1-phosphatidylinositol binding (GO:0005545)|ATPase binding (GO:0051117)			endometrium(1)|large_intestine(1)|lung(3)|upper_aerodigestive_tract(1)	6						GAACTTCCATCTAAAAACCTG	0.408											OREG0017908	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													58	61	60					7																	26404687		2203	4300	6503	SO:0001583	missense	29887			AF121860	CCDS5399.1, CCDS56470.1	7p15.2	2008-05-22			ENSG00000086300	ENSG00000086300		"Sorting nexins"	14974	protein-coding gene	gene with protein product		614780				17012226	Standard	NM_013322		Approved		uc010kuu.3	Q9Y5X0	OTTHUMG00000023650	ENST00000338523.4:c.233C>G	7.37:g.26404687C>G	ENSP00000343709:p.Ser78Cys	Somatic	786	WXS	Illumina HiSeq	Phase_I	E9PFH5|Q8IYT5	Missense_Mutation	SNP	ENST00000338523.4	37	CCDS5399.1	.	.	.	.	.	.	.	.	.	.	C	22.8	4.333040	0.81801	.	.	ENSG00000086300	ENST00000416246;ENST00000338523;ENST00000446848;ENST00000396376;ENST00000409367	T;T;T;T;T	0.37752	1.18;1.18;1.18;1.18;1.18	6.17	6.17	0.99709	Phox homologous domain (5);	0.052852	0.85682	D	0.000000	T	0.61540	0.2355	M	0.68952	2.095	0.47659	D	0.999481	D;D	0.76494	0.999;0.999	D;D	0.70487	0.969;0.917	T	0.57711	-0.7764	10	0.56958	D	0.05	.	20.8794	0.99867	0.0:1.0:0.0:0.0	.	104;78	B4DJM0;Q9Y5X0	.;SNX10_HUMAN	C	104;78;104;78;38	ENSP00000408164:S104C;ENSP00000343709:S78C;ENSP00000395474:S104C;ENSP00000379661:S78C;ENSP00000387274:S38C	ENSP00000343709:S78C	S	+	2	0	SNX10	26371212	1.000000	0.71417	1.000000	0.80357	0.937000	0.57800	6.525000	0.73795	2.941000	0.99782	0.655000	0.94253	TCT		0.408	SNX10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214120.1			G	26404687	C	G	26404687	3	3	615	1	0	0	0	0	1	0	0	0	14894	913	32	4	247	4	SNX10	7	26404687	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10		26404687	132733976	49	37498										
CCDC129	223075	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	31609394	31609394	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tctttgtatgaacaagggatGgttcaaatgactgtgaaaga	11	4	2	4			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr7:31609394G>T	ENST00000407970.3	+	5	317	c.279G>T	c.(277-279)atG>atT	p.M93I	CCDC129_ENST00000319386.3_Missense_Mutation_p.M93I|CCDC129_ENST00000451887.2_Missense_Mutation_p.M119I|CCDC129_ENST00000482748.1_3'UTR|CCDC129_ENST00000409210.1_Start_Codon_SNP_p.M1I	NM_001257967.1|NM_194300.3	NP_001244896.1|NP_919276.2	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	93										cervix(1)|endometrium(3)|kidney(3)|large_intestine(6)|lung(31)	44						AACAAGGGATGGTTCAAATGA	0.373																																																0													119	101	107					7																	31609394		2203	4300	6503	SO:0001583	missense	223075			AK128026	CCDS5435.2, CCDS59050.1, CCDS75577.1	7p14.3	2006-08-21			ENSG00000180347	ENSG00000180347			27363	protein-coding gene	gene with protein product						14702039	Standard	NM_001257967		Approved	FLJ38344	uc011kad.1	Q6ZRS4	OTTHUMG00000128611	ENST00000407970.3:c.279G>T	7.37:g.31609394G>T	ENSP00000384416:p.Met93Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU17|B3KTI9|B4DHB0|B4E2R1|F5H3V5	Missense_Mutation	SNP	ENST00000407970.3	37	CCDS5435.2	.	.	.	.	.	.	.	.	.	.	G	13.03	2.116871	0.37339	.	.	ENSG00000180347	ENST00000409717;ENST00000456011;ENST00000319386;ENST00000407970;ENST00000454513;ENST00000451887;ENST00000538406;ENST00000409210	T;T;T;T;T;T;T	0.39997	1.05;1.07;2.39;2.66;1.06;2.63;2.3	5.49	0.437	0.16555	.	0.576671	0.16859	N	0.196589	T	0.20373	0.0490	N	0.21448	0.665	0.20563	N	0.999888	B;B;B;B	0.20887	0.049;0.049;0.049;0.049	B;B;B;B	0.17433	0.008;0.018;0.018;0.018	T	0.18777	-1.0326	10	0.12766	T	0.61	-0.3883	3.0709	0.06230	0.1436:0.2578:0.4642:0.1344	.	119;103;93;93	F5H3V5;F5H2J8;Q6ZRS4;Q6ZRS4-2	.;.;CC129_HUMAN;.	I	93;93;93;93;93;119;103;1	ENSP00000387220:M93I;ENSP00000390544:M93I;ENSP00000313062:M93I;ENSP00000384416:M93I;ENSP00000413233:M93I;ENSP00000395835:M119I;ENSP00000387214:M1I	ENSP00000313062:M93I	M	+	3	0	CCDC129	31575919	0.999000	0.42202	0.971000	0.41717	0.937000	0.57800	0.316000	0.19469	-0.088000	0.12506	0.655000	0.94253	ATG		0.373	CCDC129-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318975.1	NM_194300		T	31609394	G	T	31609394	3	4	615	1	0	0	0	0	1	0	0	0	2766	1348	47	4	293	4	CCDC129	7	31609394	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	5204707	31609394	127529269	50	37499										
CFTR	1080	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	117267708	117267708	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	agaattcacacgtgaagaaaGatgacatctggccctcaggg	11	9	3	5			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr7:117267708G>T	ENST00000003084.6	+	22	3733	c.3601G>T	c.(3601-3603)Gat>Tat	p.D1201Y	AC000111.6_ENST00000456270.1_RNA|CFTR_ENST00000454343.1_Missense_Mutation_p.D1140Y	NM_000492.3	NP_000483.3	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance regulator (ATP-binding cassette sub-family C, member 7)	1201					cellular response to cAMP (GO:0071320)|cellular response to hormone stimulus (GO:0032870)|chloride transmembrane transport (GO:1902476)|cholesterol biosynthetic process (GO:0006695)|cholesterol transport (GO:0030301)|intracellular pH elevation (GO:0051454)|iodide transport (GO:0015705)|lung development (GO:0030324)|membrane hyperpolarization (GO:0060081)|positive regulation of vasodilation (GO:0045909)|positive regulation of voltage-gated chloride channel activity (GO:1902943)|respiratory gaseous exchange (GO:0007585)|response to cytokine (GO:0034097)|response to drug (GO:0042493)|response to estrogen (GO:0043627)|response to peptide hormone (GO:0043434)|sperm capacitation (GO:0048240)|transepithelial chloride transport (GO:0030321)|transmembrane transport (GO:0055085)|transport (GO:0006810)|vasodilation (GO:0042311)|water transport (GO:0006833)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|chloride channel complex (GO:0034707)|cytoplasmic vesicle membrane (GO:0030659)|early endosome (GO:0005769)|extracellular vesicular exosome (GO:0070062)|microvillus (GO:0005902)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	ATP binding (GO:0005524)|ATP-binding and phosphorylation-dependent chloride channel activity (GO:0005224)|bicarbonate transmembrane transporter activity (GO:0015106)|channel-conductance-controlling ATPase activity (GO:0005260)|chloride channel activity (GO:0005254)|chloride channel inhibitor activity (GO:0019869)|chloride transmembrane transporter activity (GO:0015108)|enzyme binding (GO:0019899)|PDZ domain binding (GO:0030165)			NS(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(5)|kidney(6)|large_intestine(15)|lung(22)|ovary(2)|pancreas(1)|prostate(3)|skin(9)	69	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Crofelemer(DB04941)|Glyburide(DB01016)|Ibuprofen(DB01050)|Ivacaftor(DB08820)	CGTGAAGAAAGATGACATCTG	0.413									Cystic Fibrosis																																							0													86	78	81					7																	117267708		2203	4300	6503	SO:0001583	missense	1080	Familial Cancer Database	CF	M28668	CCDS5773.1	7q31-q32	2014-09-17	2006-09-18		ENSG00000001626	ENSG00000001626		"Ion channels / Chloride channels : Cystic fibrosis transmembrane conductance regulators", "ATP binding cassette transporters / subfamily C"	1884	protein-coding gene	gene with protein product	"ATP-binding cassette sub-family C, member 7"	602421	"cystic fibrosis transmembrane conductance regulator, ATP-binding cassette (sub-family C, member 7)"	CF, ABCC7		2772657	Standard	XM_006715842		Approved	MRP7, ABC35, TNR-CFTR, dJ760C5.1, CFTR/MRP	uc003vjd.3	P13569	OTTHUMG00000023076	ENST00000003084.6:c.3601G>T	7.37:g.117267708G>T	ENSP00000003084:p.Asp1201Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q20BG8|Q20BH2|Q2I0A1|Q2I102	Missense_Mutation	SNP	ENST00000003084.6	37	CCDS5773.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	13.99|13.99	2.402264|2.402264	0.42613|0.42613	.|.	.|.	ENSG00000001626|ENSG00000001626	ENST00000003084;ENST00000454343;ENST00000426809|ENST00000468795	D;D;D|D	0.93366|0.93366	-3.15;-2.96;-3.21|-3.21	5.86|5.86	2.07|2.07	0.26955|0.26955	.|.	0.549977|.	0.20348|.	N|.	0.094112|.	D|D	0.91140|0.91140	0.7210|0.7210	L|L	0.45581|0.45581	1.43|1.43	0.34472|0.34472	D|D	0.702874|0.702874	P|.	0.47409|.	0.895|.	B|.	0.43536|.	0.423|.	D|D	0.89511|0.89511	0.3771|0.3771	10|7	0.72032|0.66056	D|D	0.01|0.02	-3.7623|-3.7623	5.6055|5.6055	0.17377|0.17377	0.261:0.0:0.6124:0.1266|0.261:0.0:0.6124:0.1266	.|.	1201|.	P13569|.	CFTR_HUMAN|.	Y|N	1201;1140;1171|142	ENSP00000003084:D1201Y;ENSP00000403677:D1140Y;ENSP00000389119:D1171Y|ENSP00000419254:K142N	ENSP00000003084:D1201Y|ENSP00000419254:K142N	D|K	+|+	1|3	0|2	CFTR|CFTR	117054944|117054944	1.000000|1.000000	0.71417|0.71417	0.997000|0.997000	0.53966|0.53966	0.591000|0.591000	0.36615|0.36615	2.668000|2.668000	0.46816|0.46816	0.177000|0.177000	0.19895|0.19895	-0.142000|-0.142000	0.14014|0.14014	GAT|AAG		0.413	CFTR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059397.3	NM_000492		T	117267708	G	T	117267708	3	4	615	1	0	0	0	0	1	0	0	0	3296	942	33	4	3687	4	CFTR	7	117267708	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	85658314	117267708	41870955	51	37500										
RNF133	168433	broad.mit.edu	37	chr7	122338189	122338189	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tatgtcattaggcttatagcGttcaaagcaaattacgcagc	8	8	2	0	rs137950690		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr7:122338189G>A	ENST00000340112.2	-	1	1021	c.784C>T	c.(784-786)Cgc>Tgc	p.R262C	CADPS2_ENST00000313070.7_Intron|CADPS2_ENST00000412584.2_Intron|CADPS2_ENST00000334010.7_Intron|CADPS2_ENST00000449022.2_Intron	NM_139175.1	NP_631914.1	Q8WVZ7	RN133_HUMAN	ring finger protein 133	262					protein autoubiquitination (GO:0051865)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	ligase activity (GO:0016874)|zinc ion binding (GO:0008270)			NS(1)|biliary_tract(1)|breast(1)|central_nervous_system(1)|large_intestine(3)|lung(11)|ovary(1)|skin(1)|urinary_tract(1)	21						GGCTTATAGCGTTCAAAGCAA	0.403																																					Colon(198;1778 2057 7449 19869 45985)											0								G	,,,CYS/ARG	0,4406		0,0,2203	159	148	152		,,,784	2.6	0.3	7	dbSNP_134	152	2,8598	2.2+/-6.3	0,2,4298	no	intron,intron,intron,missense	CADPS2,RNF133	NM_001009571.3,NM_001167940.1,NM_017954.10,NM_139175.1	,,,180	0,2,6501	AA,AG,GG		0.0233,0.0,0.0154	,,,benign	,,,262/377	122338189	2,13004	2203	4300	6503	SO:0001583	missense	168433			AF447589	CCDS5784.1	7q31.33	2013-01-09			ENSG00000188050	ENSG00000188050		"RING-type (C3HC4) zinc fingers"	21154	protein-coding gene	gene with protein product							Standard	NM_139175		Approved		uc003vkj.1	Q8WVZ7	OTTHUMG00000157092	ENST00000340112.2:c.784C>T	7.37:g.122338189G>A	ENSP00000344489:p.Arg262Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A4D0W2|Q8N7G7	Missense_Mutation	SNP	ENST00000340112.2	37	CCDS5784.1	.	.	.	.	.	.	.	.	.	.	G	0.871	-0.731875	0.03135	0.0	2.33E-4	ENSG00000188050	ENST00000340112	T	0.43294	0.95	5.53	2.62	0.31277	Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, RING-type (2);Zinc finger, RING-H2-type (1);	0.713262	0.12945	U	0.426283	T	0.26011	0.0634	N	0.21282	0.65	0.09310	N	0.999999	B	0.23891	0.093	B	0.20767	0.031	T	0.20306	-1.0279	10	0.62326	D	0.03	.	4.5179	0.11945	0.091:0.4253:0.36:0.1236	.	262	Q8WVZ7	RN133_HUMAN	C	262	ENSP00000344489:R262C	ENSP00000344489:R262C	R	-	1	0	RNF133	122125425	0.051000	0.20477	0.293000	0.24932	0.004000	0.04260	0.822000	0.27352	0.672000	0.31204	-0.424000	0.05967	CGC		0.403	RNF133-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347413.1	NM_139175		A	122338189	G	A	122338189	3	1	615	1	0	0	0	0	1	0	0	0	13452	1145	40	1	350	1	RNF133	7	122338189	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	5070481	122338189	36800474	52	37501										
CCNE2	9134	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	95906316	95906316	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gggggattccgtctggctggGctggggctgctgcttagctt	18	9	1	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr8:95906316G>A	ENST00000520509.1	-	3	298	c.46C>T	c.(46-48)Ccc>Tcc	p.P16S	NDUFAF6_ENST00000396113.1_5'Flank|CCNE2_ENST00000523476.1_5'Flank|CCNE2_ENST00000308108.4_Missense_Mutation_p.P16S|CCNE2_ENST00000396133.3_Missense_Mutation_p.P16S			O96020	CCNE2_HUMAN	cyclin E2	16					cell cycle checkpoint (GO:0000075)|cell division (GO:0051301)|DNA replication initiation (GO:0006270)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)	cyclin-dependent protein serine/threonine kinase regulator activity (GO:0016538)			cervix(1)|endometrium(2)|large_intestine(3)|lung(4)|prostate(1)	11	Breast(36;8.75e-07)					GTCTGGCTGGGCTGGGGCTGC	0.443																																																0													141	161	154					8																	95906316		2203	4300	6503	SO:0001583	missense	9134			AF091433	CCDS6264.1	8q22.1	2005-10-18			ENSG00000175305	ENSG00000175305			1590	protein-coding gene	gene with protein product		603775				9840927, 9840943	Standard	NM_057749		Approved	CYCE2	uc003yhc.3	O96020	OTTHUMG00000164696	ENST00000520509.1:c.46C>T	8.37:g.95906316G>A	ENSP00000429089:p.Pro16Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O95439	Missense_Mutation	SNP	ENST00000520509.1	37	CCDS6264.1	.	.	.	.	.	.	.	.	.	.	G	12.89	2.072843	0.36566	.	.	ENSG00000175305	ENST00000520509;ENST00000308108;ENST00000396133	T;T;T	0.30981	1.94;1.94;1.51	5.29	2.11	0.27256	.	0.268590	0.33980	N	0.004370	T	0.24470	0.0593	L	0.50333	1.59	0.30643	N	0.7563	B;B	0.06786	0.001;0.0	B;B	0.08055	0.003;0.001	T	0.24977	-1.0145	10	0.13853	T	0.58	.	11.6218	0.51121	0.0:0.1897:0.6789:0.1315	.	16;16	Q8WUE3;O96020	.;CCNE2_HUMAN	S	16	ENSP00000429089:P16S;ENSP00000309181:P16S;ENSP00000379437:P16S	ENSP00000309181:P16S	P	-	1	0	CCNE2	95975492	0.949000	0.32298	1.000000	0.80357	0.956000	0.61745	0.420000	0.21263	0.601000	0.29879	0.561000	0.74099	CCC		0.443	CCNE2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379808.1	NM_057749, NM_004702		A	95906316	G	A	95906316	3	1	615	1	0	0	0	0	1	0	0	0	2923	1203	42	2	1208	2	CCNE2	8	95906316	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10		95906316	50457706	53	37502										
DPYS	1807	broad.mit.edu	37	chr8	105478888	105478888	+	Frame_Shift_Del	DEL	G	G	-													0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	cgcggcggggcgggtaccttGgtgccctggtggaagtcgtc							TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr8:105478888delG	ENST00000351513.2	-	1	393	c.261delC	c.(259-261)accfs	p.T87fs		NM_001385.2	NP_001376.1	Q14117	DPYS_HUMAN	dihydropyrimidinase	87					beta-alanine metabolic process (GO:0019482)|nucleobase-containing small molecule metabolic process (GO:0055086)|protein homotetramerization (GO:0051289)|pyrimidine nucleobase catabolic process (GO:0006208)|pyrimidine nucleobase metabolic process (GO:0006206)|pyrimidine nucleoside catabolic process (GO:0046135)|small molecule metabolic process (GO:0044281)|thymine catabolic process (GO:0006210)|uracil catabolic process (GO:0006212)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	amino acid binding (GO:0016597)|dihydropyrimidinase activity (GO:0004157)|thymine binding (GO:0002059)|uracil binding (GO:0002058)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|endometrium(2)|kidney(2)|large_intestine(7)|lung(23)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	41			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			cgggTACCTTGGTGCCCTGGT	0.736																																																0													16	9	11					8																	105478888		1505	2849	4354	SO:0001589	frameshift_variant	1807			D78011	CCDS6302.1	8q22	2004-01-22			ENSG00000147647	ENSG00000147647			3013	protein-coding gene	gene with protein product		613326				8973361	Standard	NM_001385		Approved	DHPase	uc003yly.4	Q14117	OTTHUMG00000164891	ENST00000351513.2:c.261delC	8.37:g.105478888delG	ENSP00000276651:p.Thr87fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000351513.2	37	CCDS6302.1																																																																																				0.736	DPYS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380814.1	NM_001385		-	105478888	G	-	105478888	7	5	615	1	0	1	0	1	0	0	0	0	4748	1335	47	0	1334	0	DPYS	8	105478888	Frame_Shift_Del	DEL	G	TCGA-IA-A40Y-01A-11D-A25F-10	9572572	105478888	40885134	54	37503										
PARP10	84875	broad.mit.edu;bcgsc.ca	37	chr8	145059064	145059064	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gcccctcctgttcctgcaacCccacaggcctcaggcttacc	7	20	1	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr8:145059064C>G	ENST00000313028.7	-	5	1200	c.1106G>C	c.(1105-1107)gGg>gCg	p.G369A	PARP10_ENST00000533665.1_5'Flank|PARP10_ENST00000525773.1_Missense_Mutation_p.G381A|PARP10_ENST00000524918.1_Missense_Mutation_p.G369A	NM_032789.3	NP_116178.2	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	369					negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of gene expression (GO:0010629)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of protein import into nucleus, translocation (GO:0033159)|negative regulation of protein K63-linked ubiquitination (GO:1900045)|negative regulation of viral genome replication (GO:0045071)|protein ADP-ribosylation (GO:0006471)|protein auto-ADP-ribosylation (GO:0070213)|protein poly-ADP-ribosylation (GO:0070212)|regulation of chromatin assembly (GO:0010847)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)	K63-linked polyubiquitin binding (GO:0070530)|NAD+ ADP-ribosyltransferase activity (GO:0003950)			NS(1)|breast(2)|endometrium(2)|kidney(1)|large_intestine(5)|lung(9)|ovary(4)|pancreas(1)|upper_aerodigestive_tract(2)	27	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TTCCTGCAACCCCACAGGCCT	0.647																																																0													73	81	78					8																	145059064		2203	4300	6503	SO:0001583	missense	84875			AK027370	CCDS34960.1	8q24	2010-02-16				ENSG00000178685		"Poly (ADP-ribose) polymerases"	25895	protein-coding gene	gene with protein product		609564				15273990	Standard	NM_032789		Approved	FLJ14464	uc003zal.4	Q53GL7		ENST00000313028.7:c.1106G>C	8.37:g.145059064C>G	ENSP00000325618:p.Gly369Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N2I0|Q8WV05|Q96CH7|Q96K72	Missense_Mutation	SNP	ENST00000313028.7	37	CCDS34960.1	.	.	.	.	.	.	.	.	.	.	C	11.40	1.627392	0.28978	.	.	ENSG00000178685	ENST00000524918;ENST00000534861;ENST00000313028;ENST00000525773;ENST00000313059	T;T;T;T	0.75938	2.51;2.48;2.47;-0.98	3.68	-1.16	0.09678	.	1.065050	0.07452	U	0.899186	T	0.57301	0.2044	L	0.39898	1.24	0.09310	N	1	P;P;P	0.52842	0.884;0.956;0.884	B;B;B	0.38985	0.14;0.287;0.14	T	0.48514	-0.9029	10	0.08837	T	0.75	.	7.4919	0.27466	0.0:0.4833:0.0:0.5167	.	381;369;369	E9PNI7;E9PK67;Q53GL7	.;.;PAR10_HUMAN	A	369;75;369;381;284	ENSP00000431620:G369A;ENSP00000325618:G369A;ENSP00000434776:G381A;ENSP00000314320:G284A	ENSP00000325618:G369A	G	-	2	0	PARP10	145131052	0.000000	0.05858	0.001000	0.08648	0.018000	0.09664	-0.791000	0.04599	-0.164000	0.10927	-0.269000	0.10298	GGG		0.647	PARP10-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000383866.1	NM_032789		G	145059064	C	G	145059064	3	3	615	1	0	0	0	0	1	0	0	0	11462	623	22	4	1999	4	PARP10	8	145059064	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	39580176	145059064	1304958	55	37504										
IFT74	80173	hgsc.bcm.edu;bcgsc.ca	37	chr9	26962063	26962075	+	Frame_Shift_Del	DEL	GAAATATTCGAGT	GAAATATTCGAGT	-													0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tgggatacgacccctatcagGaaatattcgagtggcaactg					rs200556379|rs542289534		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	GAAATATTCGAGT	GAAATATTCGAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr9:26962063_26962075delGAAATATTCGAGT	ENST00000443698.1	+	2	269_281	c.98_110delGAAATATTCGAGT	c.(97-111)ggaaatattcgagtgfs	p.GNIRV33fs	IFT74_ENST00000380062.5_Frame_Shift_Del_p.GNIRV33fs|IFT74_ENST00000433700.1_Frame_Shift_Del_p.GNIRV33fs|IFT74_ENST00000429045.2_Frame_Shift_Del_p.GNIRV33fs	NM_001099222.1	NP_001092692.1	Q96LB3	IFT74_HUMAN	intraflagellar transport 74	33	Basic region.				cilium assembly (GO:0042384)|intraciliary transport involved in cilium morphogenesis (GO:0035735)|keratinocyte development (GO:0003334)|negative regulation of epithelial cell proliferation (GO:0050680)|Notch signaling pathway (GO:0007219)|positive regulation of cell adhesion mediated by integrin (GO:0033630)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	centrosome (GO:0005813)|cilium (GO:0005929)|cytoplasmic vesicle (GO:0031410)|intraciliary transport particle B (GO:0030992)|motile cilium (GO:0031514)|nucleus (GO:0005634)	beta-tubulin binding (GO:0048487)|chromatin binding (GO:0003682)			endometrium(1)|large_intestine(1)|lung(2)|prostate(1)|skin(1)	6		all_neural(11;2.36e-10)		Lung(218;1.4e-05)|LUSC - Lung squamous cell carcinoma(38;0.000114)		CCCCTATCAGGAAATATTCGAGTGGCAACTGCA	0.493																																																0																																										SO:0001589	frameshift_variant	80173			AK023707	CCDS43793.1, CCDS47955.1	9p21.1	2014-07-03	2014-07-03	2005-11-02	ENSG00000096872	ENSG00000096872		"Intraflagellar transport homologs"	21424	protein-coding gene	gene with protein product	"capillary morphogenesis protein 1"	608040	"coiled-coil domain containing 2", "intraflagellar transport 74 homolog (Chlamydomonas)"	CCDC2		11683410	Standard	NM_001099223		Approved	CMG1, CMG-1, FLJ22621	uc003zqg.4	Q96LB3	OTTHUMG00000021028	ENST00000443698.1:c.98_110delGAAATATTCGAGT	9.37:g.26962063_26962075delGAAATATTCGAGT	ENSP00000404122:p.Gly33fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q3B789|Q5VY34|Q6PGQ8|Q9H643|Q9H8G7	Frame_Shift_Del	DEL	ENST00000443698.1	37	CCDS43793.1																																																																																				0.493	IFT74-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055476.2	NM_025103		-	26962075	GAAATATTCGAGT	-	26962063	7	5	615	1	0	1	0	1	0	0	0	0	7570	1174	41	0	100	0	IFT74	9	26962063	Frame_Shift_Del	DEL	GAAATATTCGAGT	TCGA-IA-A40Y-01A-11D-A25F-10		26962063	114251368	56	37505										
ALAD	210	broad.mit.edu;bcgsc.ca	37	chr9	116153879	116153879	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tccaccaagggcctcagcatCtcttccagccgcttcacacc	6	19	3	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr9:116153879C>T	ENST00000409155.3	-	4	385	c.189G>A	c.(187-189)gaG>gaA	p.E63E	ALAD_ENST00000482001.1_5'UTR|ALAD_ENST00000277315.5_Silent_p.E46E	NM_000031.5	NP_000022.3	P13716	HEM2_HUMAN	aminolevulinate dehydratase	63					cellular response to interleukin-4 (GO:0071353)|heme biosynthetic process (GO:0006783)|porphyrin-containing compound metabolic process (GO:0006778)|protein homooligomerization (GO:0051260)|protoporphyrinogen IX biosynthetic process (GO:0006782)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	catalytic activity (GO:0003824)|identical protein binding (GO:0042802)|lead ion binding (GO:0032791)|porphobilinogen synthase activity (GO:0004655)|zinc ion binding (GO:0008270)			endometrium(1)|kidney(1)|large_intestine(2)|lung(3)|prostate(1)|stomach(1)	9					Aminolevulinic acid(DB00855)	GCCTCAGCATCTCTTCCAGCC	0.577																																																0													82	75	77					9																	116153879		2203	4300	6503	SO:0001819	synonymous_variant	210			M13928	CCDS6794.2	9q32	2010-04-29	2010-04-29		ENSG00000148218	ENSG00000148218	4.2.1.24		395	protein-coding gene	gene with protein product	"porphobilinogen synthase"	125270	"aminolevulinate, delta-, dehydratase"			6839527, 6378062	Standard	NM_000031		Approved	ALADH, PBGS	uc011lxf.2	P13716	OTTHUMG00000020522	ENST00000409155.3:c.189G>A	9.37:g.116153879C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K375|B2R6F2|Q16870|Q16871|Q9BVQ9	Silent	SNP	ENST00000409155.3	37	CCDS6794.2																																																																																				0.577	ALAD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053724.3	NM_001003945		T	116153879	C	T	116153879	2	4	615	1	0	0	0	0	0	0	0	1	483	912	32	2		2	ALAD	9	116153879	Silent	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	89191816	116153879	25059552	57	37506										
PHF19	26147	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	123620475	123620475	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	cactgctgtccgaggggcagCgtccatccagctcagctgcc	12	16	1	0	rs144405933		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr9:123620475C>T	ENST00000373896.3	-	15	1742	c.1490G>A	c.(1489-1491)cGc>cAc	p.R497H	PHF19_ENST00000419155.1_Missense_Mutation_p.R288H|PHF19_ENST00000487555.1_5'UTR	NM_015651.1	NP_056466.1	Q5T6S3	PHF19_HUMAN	PHD finger protein 19	497					chromatin modification (GO:0016568)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of histone H3-K27 methylation (GO:0061087)|stem cell maintenance (GO:0019827)|transcription, DNA-templated (GO:0006351)	ESC/E(Z) complex (GO:0035098)	methylated histone binding (GO:0035064)|zinc ion binding (GO:0008270)			NS(2)|breast(1)|endometrium(3)|large_intestine(1)|lung(8)|ovary(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	19						CGAGGGGCAGCGTCCATCCAG	0.597																																																0								C	HIS/ARG	1,4405	2.1+/-5.4	0,1,2202	79	71	74		1490	3	0.6	9	dbSNP_134	74	0,8600		0,0,4300	no	missense	PHF19	NM_015651.1	29	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging	497/581	123620475	1,13005	2203	4300	6503	SO:0001583	missense	26147			BX640713	CCDS35116.1, CCDS35117.1, CCDS69648.1, CCDS75889.1	9q34.11	2013-01-28			ENSG00000119403	ENSG00000119403		"Tudor domain containing", "Zinc fingers, PHD-type"	24566	protein-coding gene	gene with protein product	"polycomb-like 3", "tudor domain containing 19B"	609740				15563832	Standard	XM_005251906		Approved	DKFZP727G051, PCL3, MTF2L1, TDRD19B	uc004bks.1	Q5T6S3	OTTHUMG00000020577	ENST00000373896.3:c.1490G>A	9.37:g.123620475C>T	ENSP00000363003:p.Arg497His	Somatic		WXS	Illumina HiSeq	Phase_I	Q32NF2|Q5T6S4|Q6N038|Q8TBL6|Q9UFS9	Missense_Mutation	SNP	ENST00000373896.3	37	CCDS35116.1	.	.	.	.	.	.	.	.	.	.	C	20.9	4.059942	0.76074	2.27E-4	0.0	ENSG00000119403	ENST00000544082;ENST00000373896;ENST00000419155	T;T	0.49432	1.79;0.78	4.97	3.03	0.35002	.	0.659654	0.15009	N	0.285669	T	0.39627	0.1085	N	0.24115	0.695	0.36632	D	0.876372	D	0.67145	0.996	P	0.49502	0.613	T	0.36841	-0.9731	10	0.45353	T	0.12	-8.0699	9.2722	0.37679	0.0:0.8127:0.0:0.1873	.	497	Q5T6S3	PHF19_HUMAN	H	497;497;288	ENSP00000363003:R497H;ENSP00000407433:R288H	ENSP00000363003:R497H	R	-	2	0	PHF19	122660296	0.728000	0.28080	0.574000	0.28523	0.897000	0.52465	0.193000	0.17116	0.449000	0.26747	-0.367000	0.07326	CGC		0.597	PHF19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053838.3	XM_045308		T	123620475	C	T	123620475	3	4	615	1	0	0	0	0	1	0	0	0	11836	768	27	1	256	1	PHF19	9	123620475	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	7466596	123620475	17592956	58	37507										
CUBN	8029	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	16955917	16955917	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gattctccactcgcagatccGgccatgaggatttgggttcg	12	11	1	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr10:16955917G>A	ENST00000377833.4	-	48	7491	c.7426C>T	c.(7426-7428)Cgg>Tgg	p.R2476W		NM_001081.3	NP_001072.2	O60494	CUBN_HUMAN	cubilin (intrinsic factor-cobalamin receptor)	2476	CUB 18. {ECO:0000255|PROSITE- ProRule:PRU00059}.				cholesterol metabolic process (GO:0008203)|cobalamin metabolic process (GO:0009235)|cobalamin transport (GO:0015889)|lipoprotein metabolic process (GO:0042157)|lipoprotein transport (GO:0042953)|receptor-mediated endocytosis (GO:0006898)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|tissue homeostasis (GO:0001894)|vitamin D metabolic process (GO:0042359)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|coated pit (GO:0005905)|cytosol (GO:0005829)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|extrinsic component of external side of plasma membrane (GO:0031232)|Golgi apparatus (GO:0005794)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|cobalamin binding (GO:0031419)|protein homodimerization activity (GO:0042803)|receptor activity (GO:0004872)|transporter activity (GO:0005215)			breast(8)|central_nervous_system(4)|cervix(1)|endometrium(18)|haematopoietic_and_lymphoid_tissue(3)|kidney(12)|large_intestine(42)|liver(1)|lung(107)|ovary(9)|pancreas(2)|prostate(3)|skin(9)|stomach(3)|upper_aerodigestive_tract(11)|urinary_tract(8)	241					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TCGCAGATCCGGCCATGAGGA	0.532																																																0													113	107	109					10																	16955917		2203	4300	6503	SO:0001583	missense	8029			AF034611	CCDS7113.1	10p12	2014-09-17			ENSG00000107611	ENSG00000107611			2548	protein-coding gene	gene with protein product		602997		MGA1		9572993, 9478979	Standard	NM_001081		Approved	IFCR, gp280	uc001ioo.3	O60494	OTTHUMG00000017741	ENST00000377833.4:c.7426C>T	10.37:g.16955917G>A	ENSP00000367064:p.Arg2476Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B0YIZ4|Q5VTA6|Q96RU9	Missense_Mutation	SNP	ENST00000377833.4	37	CCDS7113.1	.	.	.	.	.	.	.	.	.	.	G	13.20	2.165155	0.38217	.	.	ENSG00000107611	ENST00000377833	T	0.28895	1.59	5.42	2.44	0.29823	CUB (5);	0.173875	0.27686	N	0.018262	T	0.32585	0.0834	M	0.76838	2.35	0.80722	D	1	B	0.20988	0.05	B	0.18561	0.022	T	0.11060	-1.0603	10	0.59425	D	0.04	.	8.2013	0.31426	0.0727:0.0:0.5311:0.3961	.	2476	O60494	CUBN_HUMAN	W	2476	ENSP00000367064:R2476W	ENSP00000367064:R2476W	R	-	1	2	CUBN	16995923	1.000000	0.71417	0.175000	0.22980	0.703000	0.40648	1.663000	0.37429	0.219000	0.20840	0.591000	0.81541	CGG		0.532	CUBN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047009.1	NM_001081		A	16955917	G	A	16955917	3	1	615	1	0	0	0	0	1	0	0	0	4053	1115	39	1	3525	1	CUBN	10	16955917	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10		16955917	118578830	59	37508										
BMI1	648	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	22618246	22618246	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gctggagaactggaaagtgaCtctgggagtgacaaggccaa	15	7	1	3			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr10:22618246C>G	ENST00000376663.3	+	10	1261	c.756C>G	c.(754-756)gaC>gaG	p.D252E	COMMD3-BMI1_ENST00000602390.1_Missense_Mutation_p.D395E	NM_005180.8	NP_005171.4	P35226	BMI1_HUMAN	BMI1 proto-oncogene, polycomb ring finger	252	Pro/Ser-rich.				chromatin modification (GO:0016568)|hemopoiesis (GO:0030097)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of ubiquitin-protein transferase activity (GO:0051443)|regulation of gene expression (GO:0010468)|segment specification (GO:0007379)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PcG protein complex (GO:0031519)|PRC1 complex (GO:0035102)|ubiquitin ligase complex (GO:0000151)	RING-like zinc finger domain binding (GO:0071535)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(1)|large_intestine(3)|lung(2)|ovary(1)|skin(2)|urinary_tract(1)	12						TGGAAAGTGACTCTGGGAGTG	0.493																																																0													92	86	88					10																	22618246		2203	4300	6503	SO:0001583	missense	0			BC011652	CCDS7138.1	10p13	2014-06-26	2014-06-26	2006-04-26	ENSG00000168283	ENSG00000168283		"RING-type (C3HC4) zinc fingers", "Polycomb group ring fingers"	1066	protein-coding gene	gene with protein product		164831	"polycomb group ring finger 4", "B lymphoma Mo-MLV insertion region 1 homolog (mouse)"	PCGF4		8268912	Standard	NM_005180		Approved	RNF51		P35226	OTTHUMG00000017807	ENST00000376663.3:c.756C>G	10.37:g.22618246C>G	ENSP00000365851:p.Asp252Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q16030|Q5T8Z3|Q96F37	Missense_Mutation	SNP	ENST00000376663.3	37	CCDS7138.1	.	.	.	.	.	.	.	.	.	.	C	2.210	-0.380859	0.05000	.	.	ENSG00000168283	ENST00000376691;ENST00000376663;ENST00000443519	T;T	0.46063	1.61;0.88	5.58	5.58	0.84498	.	0.045306	0.85682	D	0.000000	T	0.28532	0.0706	N	0.20328	0.56	0.49483	D	0.99979	B;B	0.26547	0.152;0.091	B;B	0.23275	0.03;0.045	T	0.11542	-1.0583	10	0.06891	T	0.86	-6.5673	19.1861	0.93644	0.0:1.0:0.0:0.0	.	252;252	Q5U0M5;P35226	.;BMI1_HUMAN	E	164;252;157	ENSP00000365851:D252E;ENSP00000390768:D157E	ENSP00000365851:D252E	D	+	3	2	BMI1	22658252	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	4.602000	0.61098	2.638000	0.89438	0.650000	0.86243	GAC		0.493	BMI1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047176.1	NM_005180		G	22618246	C	G	22618246	3	3	615	1	0	0	0	0	1	0	0	0	1455	564	20	4	790	4	BMI1	10	22618246	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	5662329	22618246	112916501	60	37509										
ABCC2	1244	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	101578919	101578919	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tgtagttctggggaatggaaCaattgtagagaaaggatcct	13	4	1	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr10:101578919C>A	ENST00000370449.4	+	19	2626	c.2513C>A	c.(2512-2514)aCa>aAa	p.T838K		NM_000392.3	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 2	838	ABC transporter 1. {ECO:0000255|PROSITE- ProRule:PRU00434}.				cellular chloride ion homeostasis (GO:0030644)|drug transmembrane transport (GO:0006855)|prostaglandin transport (GO:0015732)|response to arsenic-containing substance (GO:0046685)|response to estrogen (GO:0043627)|response to heat (GO:0009408)|response to methotrexate (GO:0031427)|response to oxidative stress (GO:0006979)|thyroid hormone transport (GO:0070327)|transmembrane transport (GO:0055085)|transport (GO:0006810)	apical plasma membrane (GO:0016324)|cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|intercellular canaliculus (GO:0046581)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|organic anion transmembrane transporter activity (GO:0008514)			NS(1)|breast(5)|endometrium(9)|kidney(2)|large_intestine(20)|liver(1)|lung(20)|ovary(2)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	67		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Aminohippurate(DB00345)|Arsenic trioxide(DB01169)|Atorvastatin(DB01076)|Canagliflozin(DB08907)|Carbamazepine(DB00564)|Carboplatin(DB00958)|Cisplatin(DB00515)|Clotrimazole(DB00257)|Conjugated Estrogens(DB00286)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dexamethasone(DB01234)|Docetaxel(DB01248)|Doxorubicin(DB00997)|Eprosartan(DB00876)|Ethinyl Estradiol(DB00977)|Etoposide(DB00773)|Ezetimibe(DB00973)|Furosemide(DB00695)|Fusidic Acid(DB02703)|Gadoxetate(DB08884)|Glutathione(DB00143)|Glyburide(DB01016)|Indinavir(DB00224)|Indomethacin(DB00328)|Irinotecan(DB00762)|Ivermectin(DB00602)|Lamivudine(DB00709)|Leucovorin(DB00650)|Levetiracetam(DB01202)|Lomefloxacin(DB00978)|Lovastatin(DB00227)|Methotrexate(DB00563)|Mycophenolate mofetil(DB00688)|Nifedipine(DB01115)|Norgestimate(DB00957)|Ofloxacin(DB01165)|Olmesartan(DB00275)|Oxaliplatin(DB00526)|Paclitaxel(DB01229)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Pitavastatin(DB08860)|Pranlukast(DB01411)|Pravastatin(DB00175)|Probenecid(DB01032)|Quinidine(DB00908)|Reserpine(DB00206)|Rifampicin(DB01045)|Ritonavir(DB00503)|Saquinavir(DB01232)|Simvastatin(DB00641)|Sorafenib(DB00398)|Sparfloxacin(DB01208)|Spironolactone(DB00421)|Sulfasalazine(DB00795)|Sulfinpyrazone(DB01138)|Sunitinib(DB01268)|Tamoxifen(DB00675)|Telmisartan(DB00966)|Tenofovir(DB00300)|Tetrahydrofolic acid(DB00116)|Ursodeoxycholic acid(DB01586)|Vasopressin(DB00067)|Verapamil(DB00661)|Vinblastine(DB00570)|Vincristine(DB00541)	GGGAATGGAACAATTGTAGAG	0.403																																																0													111	111	111					10																	101578919		2203	4300	6503	SO:0001583	missense	1244			U63970	CCDS7484.1	10q24	2012-03-14			ENSG00000023839	ENSG00000023839		"ATP binding cassette transporters / subfamily C"	53	protein-coding gene	gene with protein product		601107	"canalicular multispecific organic anion transporter 1"	CMOAT		8797578, 9284939	Standard	XM_006717630		Approved	DJS, MRP2, cMRP	uc001kqf.2	Q92887	OTTHUMG00000018895	ENST00000370449.4:c.2513C>A	10.37:g.101578919C>A	ENSP00000359478:p.Thr838Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMT8|Q14022|Q5T2B1|Q92500|Q92798|Q99663|Q9UMS2	Missense_Mutation	SNP	ENST00000370449.4	37	CCDS7484.1	.	.	.	.	.	.	.	.	.	.	C	0.012	-1.655317	0.00779	.	.	ENSG00000023839	ENST00000370449	T	0.75050	-0.9	5.6	2.69	0.31865	ATPase, AAA+ type, core (1);ABC transporter-like (1);	0.560580	0.20863	N	0.084313	T	0.43033	0.1229	N	0.04355	-0.22	0.09310	N	0.999999	B	0.11235	0.004	B	0.10450	0.005	T	0.25847	-1.0120	10	0.07813	T	0.8	-14.5155	3.6997	0.08378	0.1227:0.5036:0.2384:0.1353	.	838	Q92887	MRP2_HUMAN	K	838	ENSP00000359478:T838K	ENSP00000359478:T838K	T	+	2	0	ABCC2	101568909	0.000000	0.05858	0.950000	0.38849	0.198000	0.23893	-0.155000	0.10115	0.699000	0.31761	0.561000	0.74099	ACA		0.403	ABCC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049825.1	NM_000392		A	101578919	C	A	101578919	3	1	615	1	0	0	0	0	1	0	0	0	53	478	17	4	2587	4	ABCC2	10	101578919	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	78960673	101578919	33955828	61	37510										
TRIM8	81603	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	104404529	104404529	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ggacagcggcctcgtacgctGcccagagtgcaaccaggcct	13	15	0	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr10:104404529G>C	ENST00000302424.7	+	1	277	c.155G>C	c.(154-156)tGc>tCc	p.C52S	RP11-47A8.5_ENST00000607967.1_lincRNA	NM_030912.2	NP_112174.2	Q9BZR9	TRIM8_HUMAN	tripartite motif containing 8	52					innate immune response (GO:0045087)|negative regulation of viral entry into host cell (GO:0046597)|negative regulation of viral release from host cell (GO:1902187)|negative regulation of viral transcription (GO:0032897)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)|PML body (GO:0016605)	identical protein binding (GO:0042802)|ligase activity (GO:0016874)|protein homodimerization activity (GO:0042803)|zinc ion binding (GO:0008270)			endometrium(4)|kidney(1)|large_intestine(2)|lung(5)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	15		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		CTCGTACGCTGCCCAGAGTGC	0.612																																																0													33	37	35					10																	104404529		2202	4300	6502	SO:0001583	missense	81603			AF281046	CCDS31274.1	10q24.3	2013-01-09	2011-01-25	2002-06-14	ENSG00000171206	ENSG00000171206		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	15579	protein-coding gene	gene with protein product	"glioblastoma expressed ring finger protein"	606125	"ring finger protein 27", "tripartite motif-containing 8"	RNF27		11118312, 12163497	Standard	NM_030912		Approved	GERP	uc001kvz.2	Q9BZR9	OTTHUMG00000018964	ENST00000302424.7:c.155G>C	10.37:g.104404529G>C	ENSP00000302120:p.Cys52Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NI31|Q9C028	Missense_Mutation	SNP	ENST00000302424.7	37	CCDS31274.1	.	.	.	.	.	.	.	.	.	.	G	21.5	4.154435	0.78114	.	.	ENSG00000171206	ENST00000302424;ENST00000369896	T	0.54479	0.57	3.53	3.53	0.40419	Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, RING-type (2);Zinc finger, C3HC4 RING-type (1);	0.000000	0.85682	D	0.000000	D	0.84714	0.5533	H	0.99619	4.66	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.92169	0.5742	10	0.87932	D	0	.	16.3843	0.83500	0.0:0.0:1.0:0.0	.	52	Q9BZR9	TRIM8_HUMAN	S	52	ENSP00000302120:C52S	ENSP00000302120:C52S	C	+	2	0	TRIM8	104394519	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	9.361000	0.97122	2.277000	0.76020	0.561000	0.74099	TGC		0.612	TRIM8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050084.3	NM_030912		C	104404529	G	C	104404529	3	2	615	1	0	0	0	0	1	0	0	0	16560	1319	46	4	157	4	TRIM8	10	104404529	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	2825610	104404529	31130218	62	37511										
OR6A2	8590	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	6816105	6816105	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gacagcatacagtacagagaCcaacttgttggtgtcaaaag	10	8	1	1	rs369095527		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr11:6816105C>A	ENST00000332601.3	-	1	1023	c.835G>T	c.(835-837)Gtc>Ttc	p.V279F		NM_003696.2	NP_003687.2	O95222	OR6A2_HUMAN	olfactory receptor, family 6, subfamily A, member 2	279					detection of chemical stimulus involved in sensory perception of smell (GO:0050911)|sensory perception of smell (GO:0007608)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(2)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(4)|pancreas(1)|skin(1)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(2)	29		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		AGTACAGAGACCAACTTGTTG	0.468																																																0								C	PHE/VAL	0,4402		0,0,2201	139	130	133		835	4.1	0.9	11		133	1,8591	1.2+/-3.3	0,1,4295	no	missense	OR6A2	NM_003696.2	50	0,1,6496	AA,AC,CC		0.0116,0.0,0.0077	probably-damaging	279/328	6816105	1,12993	2201	4296	6497	SO:0001583	missense	8590			AB065822	CCDS7772.1	11p15.4	2012-08-09		2004-03-10	ENSG00000184933	ENSG00000184933		"GPCR / Class A : Olfactory receptors"	15301	protein-coding gene	gene with protein product		608495		OR6A2P, OR6A1			Standard	NM_003696		Approved	OR11-55	uc001mes.1	O95222	OTTHUMG00000165736	ENST00000332601.3:c.835G>T	11.37:g.6816105C>A	ENSP00000330384:p.Val279Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MJC7|Q6IF35|Q9H206	Missense_Mutation	SNP	ENST00000332601.3	37	CCDS7772.1	.	.	.	.	.	.	.	.	.	.	C	12.13	1.845132	0.32606	0.0	1.16E-4	ENSG00000184933	ENST00000332601	T	0.38722	1.12	5.04	4.13	0.48395	GPCR, rhodopsin-like superfamily (1);	0.000000	0.49916	D	0.000122	T	0.51719	0.1691	L	0.42632	1.34	0.33539	D	0.594625	D	0.89917	1.0	D	0.97110	1.0	T	0.63959	-0.6519	10	0.87932	D	0	.	7.3142	0.26491	0.0:0.7407:0.1697:0.0896	.	279	O95222	OR6A2_HUMAN	F	279	ENSP00000330384:V279F	ENSP00000330384:V279F	V	-	1	0	OR6A2	6772681	0.000000	0.05858	0.883000	0.34634	0.059000	0.15707	-0.095000	0.11077	1.508000	0.48769	0.655000	0.94253	GTC		0.468	OR6A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385981.1	NM_003696		A	6816105	C	A	6816105	3	1	615	1	0	0	0	0	1	0	0	0	11193	507	18	4	152	4	OR6A2	11	6816105	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10		6816105	128190411	63	37512										
IGSF22	283284	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	18738381	18738381	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ttaagcgtgtgcgtcagaccAtcttcggacaccgtgatttc	10	11	2	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr11:18738381A>G	ENST00000513874.1	-	10	1279	c.1140T>C	c.(1138-1140)gaT>gaC	p.D380D	RP11-1081L13.4_ENST00000527285.1_RNA	NM_173588.3	NP_775859	Q8N9C0	IGS22_HUMAN	immunoglobulin superfamily, member 22	380										NS(2)|autonomic_ganglia(1)|breast(3)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(20)|ovary(4)|prostate(4)|skin(3)	56						GCGTCAGACCATCTTCGGACA	0.522																																																0													242	237	238					11																	18738381		2077	4197	6274	SO:0001819	synonymous_variant	283284			AK095113	CCDS41625.1, CCDS41625.2	11p15.1	2014-06-06			ENSG00000179057	ENSG00000179057		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	26750	protein-coding gene	gene with protein product							Standard	NM_173588		Approved	FLJ37794	uc009yht.2	Q8N9C0	OTTHUMG00000160502	ENST00000513874.1:c.1140T>C	11.37:g.18738381A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NNA0|D6RGV7	Silent	SNP	ENST00000513874.1	37	CCDS41625.2																																																																																				0.522	IGSF22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360850.2	NM_173588		G	18738381	A	G	18738381	2	3	615	1	0	0	0	0	0	0	0	1	7607	214	8	3		3	IGSF22	11	18738381	Silent	SNP	A	TCGA-IA-A40Y-01A-11D-A25F-10	11922276	18738381	116268135	64	37513										
OR4S1	256148	broad.mit.edu;bcgsc.ca	37	chr11	48328626	48328626	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	cctttgctgaaccctttgatCtatacactaaggaacaacga	6	11	1	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr11:48328626C>G	ENST00000319988.1	+	1	852	c.852C>G	c.(850-852)atC>atG	p.I284M		NM_001004725.1	NP_001004725.1	Q8NGB4	OR4S1_HUMAN	olfactory receptor, family 4, subfamily S, member 1	284						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(1)|large_intestine(4)|lung(12)|ovary(1)|skin(3)	21						ACCCTTTGATCTATACACTAA	0.458																																																0													116	103	108					11																	48328626		2201	4298	6499	SO:0001583	missense	256148			AB065908	CCDS31488.1	11p11.2	2012-08-09			ENSG00000176555	ENSG00000176555		"GPCR / Class A : Olfactory receptors"	14705	protein-coding gene	gene with protein product							Standard	NM_001004725		Approved		uc010rhu.2	Q8NGB4	OTTHUMG00000166578	ENST00000319988.1:c.852C>G	11.37:g.48328626C>G	ENSP00000321447:p.Ile284Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFB4	Missense_Mutation	SNP	ENST00000319988.1	37	CCDS31488.1	.	.	.	.	.	.	.	.	.	.	C	12.07	1.826742	0.32329	.	.	ENSG00000176555	ENST00000319988	T	0.57273	0.41	5.02	-0.74	0.11115	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.72415	0.3457	M	0.91612	3.225	0.29229	N	0.87339	D	0.89917	1.0	D	0.91635	0.999	T	0.63633	-0.6593	9	0.87932	D	0	.	5.8325	0.18588	0.1251:0.5577:0.0:0.3173	.	284	Q8NGB4	OR4S1_HUMAN	M	284	ENSP00000321447:I284M	ENSP00000321447:I284M	I	+	3	3	OR4S1	48285202	0.001000	0.12720	0.255000	0.24374	0.385000	0.30292	-1.467000	0.02352	-0.015000	0.14150	0.655000	0.94253	ATC		0.458	OR4S1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390556.1	NM_001004725		G	48328626	C	G	48328626	3	3	615	1	0	0	0	0	1	0	0	0	11089	903	32	4	854	4	OR4S1	11	48328626	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	29590245	48328626	86677890	65	37514										
OR4D9	390199	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	59282746	59282746	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ctctctctgtgatggcgtttGaccgctatatagccatctcc	8	13	3	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr11:59282746G>C	ENST00000329328.3	+	1	361	c.361G>C	c.(361-363)Gac>Cac	p.D121H		NM_001004711.1	NP_001004711.1	Q8NGE8	OR4D9_HUMAN	olfactory receptor, family 4, subfamily D, member 9	121						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(1)|kidney(2)|large_intestine(3)|lung(14)|prostate(5)|upper_aerodigestive_tract(1)	26						GATGGCGTTTGACCGCTATAT	0.522																																																0													83	80	81					11																	59282746		2201	4295	6496	SO:0001583	missense	390199			AB065861	CCDS31564.1	11q12.1	2012-08-09	2003-12-15		ENSG00000172742	ENSG00000172742		"GPCR / Class A : Olfactory receptors"	15178	protein-coding gene	gene with protein product			"olfactory receptor, family 4, subfamily D, member 9 pseudogene"				Standard	NM_001004711		Approved		uc010rkv.2	Q8NGE8	OTTHUMG00000167343	ENST00000329328.3:c.361G>C	11.37:g.59282746G>C	ENSP00000328563:p.Asp121His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFF3	Missense_Mutation	SNP	ENST00000329328.3	37	CCDS31564.1	.	.	.	.	.	.	.	.	.	.	G	14.71	2.617776	0.46736	.	.	ENSG00000172742	ENST00000329328	T	0.55234	0.53	4.16	4.16	0.48862	GPCR, rhodopsin-like superfamily (1);	0.000000	0.42821	U	0.000643	T	0.80053	0.4553	H	0.95437	3.67	0.40769	D	0.983072	D	0.89917	1.0	D	0.81914	0.995	D	0.87427	0.2386	10	0.87932	D	0	-6.8922	15.3691	0.74548	0.0:0.0:1.0:0.0	.	121	Q8NGE8	OR4D9_HUMAN	H	121	ENSP00000328563:D121H	ENSP00000328563:D121H	D	+	1	0	OR4D9	59039322	1.000000	0.71417	0.849000	0.33467	0.015000	0.08874	9.723000	0.98772	2.002000	0.58637	0.563000	0.77884	GAC		0.522	OR4D9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394237.1	NM_001004711		C	59282746	G	C	59282746	3	2	615	1	0	0	0	0	1	0	0	0	11066	1290	45	4	363	4	OR4D9	11	59282746	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	10954120	59282746	75723770	66	37515										
SLCO2B1	11309	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	74875111	74875111	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gaagcgcttcggcctctccaGccagacgtcggggctgctgg	15	14	1	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr11:74875111G>T	ENST00000289575.5	+	3	646	c.251G>T	c.(250-252)aGc>aTc	p.S84I	SLCO2B1_ENST00000454962.2_Intron|SLCO2B1_ENST00000532236.1_Intron|SLCO2B1_ENST00000531756.1_Intron|SLCO2B1_ENST00000341411.4_5'UTR|SLCO2B1_ENST00000526660.1_Intron|SLCO2B1_ENST00000525650.1_Intron|SLCO2B1_ENST00000428359.2_Missense_Mutation_p.S62I	NM_007256.4	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family, member 2B1	84					liver development (GO:0001889)|sodium-independent icosanoid transport (GO:0071718)|sodium-independent organic anion transport (GO:0043252)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bile acid transmembrane transporter activity (GO:0015125)|organic anion transmembrane transporter activity (GO:0008514)|sodium-independent organic anion transmembrane transporter activity (GO:0015347)			breast(2)|endometrium(1)|large_intestine(7)|lung(20)|ovary(3)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	39					Acetic acid(DB03166)|Alprostadil(DB00770)|Atorvastatin(DB01076)|Benzylpenicillin(DB01053)|Conjugated Estrogens(DB00286)|Digoxin(DB00390)|Dinoprostone(DB00917)|Ergoloid mesylate(DB01049)|Estradiol(DB00783)|Estrone(DB00655)|Fexofenadine(DB00950)|Fluvastatin(DB01095)|Glyburide(DB01016)|Ibuprofen(DB01050)|Iloprost(DB01088)|Latanoprost(DB00654)|Montelukast(DB00471)|Niacin(DB00627)|Pitavastatin(DB08860)|Pravastatin(DB00175)|Rifampicin(DB01045)|Rosuvastatin(DB01098)|Salicylic acid(DB00936)|Tolbutamide(DB01124)	GGCCTCTCCAGCCAGACGTCG	0.637																																																0													26	22	23					11																	74875111		2200	4293	6493	SO:0001583	missense	11309			AB026256	CCDS8235.1, CCDS44683.1, CCDS53679.1	11q13	2013-05-22	2003-11-25	2003-11-26				"Solute carriers"	10962	protein-coding gene	gene with protein product		604988	"solute carrier family 21 (organic anion transporter), member 9"	SLC21A9			Standard	NM_007256		Approved	OATP-B, OATP2B1	uc001owb.3	O94956		ENST00000289575.5:c.251G>T	11.37:g.74875111G>T	ENSP00000289575:p.Ser84Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2G9|B4DGA9|B4DTB0|E7ERN5|E9PPU8|Q9H2Z0|Q9UFU1	Missense_Mutation	SNP	ENST00000289575.5	37	CCDS8235.1	.	.	.	.	.	.	.	.	.	.	G	24.6	4.547002	0.86022	.	.	ENSG00000137491	ENST00000531713;ENST00000289575;ENST00000527180;ENST00000534186;ENST00000428359	T;T;T;T;T	0.58060	0.36;0.36;0.36;0.36;0.36	4.82	4.82	0.62117	Major facilitator superfamily domain, general substrate transporter (1);	0.000000	0.85682	D	0.000000	T	0.80303	0.4598	H	0.95328	3.655	0.80722	D	1	D	0.89917	1.0	D	0.79784	0.993	D	0.86661	0.1904	10	0.87932	D	0	.	15.3904	0.74739	0.0:0.0:1.0:0.0	.	84	O94956	SO2B1_HUMAN	I	62;84;62;62;62	ENSP00000432889:S62I;ENSP00000289575:S84I;ENSP00000436513:S62I;ENSP00000433872:S62I;ENSP00000388912:S62I	ENSP00000289575:S84I	S	+	2	0	SLCO2B1	74552759	1.000000	0.71417	1.000000	0.80357	0.908000	0.53690	9.180000	0.94867	2.240000	0.73641	0.591000	0.81541	AGC		0.637	SLCO2B1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000383933.1	NM_007256		T	74875111	G	T	74875111	3	4	615	1	0	0	0	0	1	0	0	0	14740	971	34	4	261	4	SLCO2B1	11	74875111	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	15592365	74875111	60131405	67	37516										
ODZ4	26011	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	78413254	78413254	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	acagccaaagcggtggctgaCtccagggttgcgtggatggc	16	10	0	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr11:78413254C>A	ENST00000278550.7	-	28	4866	c.4404G>T	c.(4402-4404)gaG>gaT	p.E1468D		NM_001098816.2	NP_001092286.2	Q6N022	TEN4_HUMAN	teneurin transmembrane protein 4	1468					cardiac cell fate specification (GO:0060912)|cardiac muscle cell proliferation (GO:0060038)|central nervous system myelin formation (GO:0032289)|gastrulation with mouth forming second (GO:0001702)|neuron development (GO:0048666)|positive regulation of gastrulation (GO:2000543)|positive regulation of myelination (GO:0031643)|positive regulation of oligodendrocyte differentiation (GO:0048714)|self proteolysis (GO:0097264)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|neuron projection (GO:0043005)|nucleus (GO:0005634)	protein homodimerization activity (GO:0042803)										CGGTGGCTGACTCCAGGGTTG	0.567																																																0													59	60	60					11																	78413254		2071	4210	6281	SO:0001583	missense	26011			AB037723	CCDS44688.1	11q13	2012-10-02	2012-10-02	2012-10-02		ENSG00000149256			29945	protein-coding gene	gene with protein product		610084	"odz, odd Oz/ten-m homolog 4 (Drosophila)"	ODZ4		12000766, 10625539	Standard	NM_001098816		Approved	KIAA1302, Ten-M4	uc001ozl.4	Q6N022		ENST00000278550.7:c.4404G>T	11.37:g.78413254C>A	ENSP00000278550:p.Glu1468Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A6ND26|Q7Z3C7|Q96MS6|Q9P2P4|Q9Y4S2	Missense_Mutation	SNP	ENST00000278550.7	37	CCDS44688.1	.	.	.	.	.	.	.	.	.	.	C	17.59	3.428265	0.62844	.	.	ENSG00000149256	ENST00000278550	D	0.90004	-2.6	5.53	5.53	0.82687	Six-bladed beta-propeller, TolB-like (1);	0.000000	0.85682	D	0.000000	D	0.89636	0.6772	L	0.35593	1.075	0.50467	D	0.999876	D	0.64830	0.994	D	0.70716	0.97	D	0.87315	0.2314	9	.	.	.	.	10.0702	0.42328	0.0:0.8536:0.0:0.1464	.	1468	Q6N022	TEN4_HUMAN	D	1468	ENSP00000278550:E1468D	.	E	-	3	2	ODZ4	78090902	1.000000	0.71417	1.000000	0.80357	0.960000	0.62799	0.803000	0.27083	2.882000	0.98803	0.655000	0.94253	GAG		0.567	TENM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391406.2			A	78413254	C	A	78413254	3	1	615	1	0	0	0	0	1	0	0	0	10844	564	20	4	3933	4	ODZ4	11	78413254	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	3538143	78413254	56593262	68	37517										
A2M	2	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	9251341	9251341	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	agactttgtgatgggctgaaGctcaaatccacctgtgaaat	10	8	1	4			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr12:9251341G>C	ENST00000318602.7	-	15	2020	c.1713C>G	c.(1711-1713)agC>agG	p.S571R		NM_000014.4	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin	571					blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|negative regulation of complement activation, lectin pathway (GO:0001869)|negative regulation of endopeptidase activity (GO:0010951)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|stem cell differentiation (GO:0048863)	blood microparticle (GO:0072562)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|platelet alpha granule lumen (GO:0031093)	calcium-dependent protein binding (GO:0048306)|enzyme binding (GO:0019899)|growth factor binding (GO:0019838)|interleukin-1 binding (GO:0019966)|interleukin-8 binding (GO:0019959)|protease binding (GO:0002020)|receptor binding (GO:0005102)|serine-type endopeptidase inhibitor activity (GO:0004867)|tumor necrosis factor binding (GO:0043120)			breast(1)|central_nervous_system(6)|cervix(1)|endometrium(5)|kidney(6)|large_intestine(17)|lung(30)|ovary(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	77					Bacitracin(DB00626)|Becaplermin(DB00102)|Ocriplasmin(DB08888)	ATGGGCTGAAGCTCAAATCCA	0.527																																																0													45	46	46					12																	9251341		2203	4300	6503	SO:0001583	missense	2			BX647329, X68728, M11313	CCDS44827.1	12p13.31	2010-02-24			ENSG00000175899	ENSG00000175899			7	protein-coding gene	gene with protein product		103950					Standard	XM_006719056		Approved	FWP007, S863-7, CPAMD5	uc001qvk.1	P01023	OTTHUMG00000150267	ENST00000318602.7:c.1713C>G	12.37:g.9251341G>C	ENSP00000323929:p.Ser571Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q13677|Q59F47|Q5QTS0|Q68DN2|Q6PIY3|Q6PN97	Missense_Mutation	SNP	ENST00000318602.7	37	CCDS44827.1	.	.	.	.	.	.	.	.	.	.	G	11.71	1.720504	0.30503	.	.	ENSG00000175899	ENST00000318602;ENST00000540099	T	0.62232	0.04	5.55	3.61	0.41365	Alpha-2-macroglobulin, N-terminal 2 (1);	0.741044	0.13685	N	0.369887	T	0.55924	0.1951	L	0.60455	1.87	0.33904	D	0.638822	B	0.24092	0.097	B	0.30316	0.114	T	0.61574	-0.7035	10	0.36615	T	0.2	.	5.8923	0.18919	0.0783:0.135:0.6479:0.1387	.	571	P01023	A2MG_HUMAN	R	571;586	ENSP00000323929:S571R	ENSP00000323929:S571R	S	-	3	2	A2M	9142608	0.512000	0.26186	0.998000	0.56505	0.376000	0.30014	0.897000	0.28390	1.484000	0.48361	0.655000	0.94253	AGC		0.527	A2M-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317233.2	NM_000014		C	9251341	G	C	9251341	3	2	615	1	0	0	0	0	1	0	0	0	4	962	34	4	2799	4	A2M	12	9251341	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10		9251341	124600554	69	37518										
ABCD2	225	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr12	39973352	39973352	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	cttacttatgataaaacataCgagccatgcccattctttgc	5	11	1	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr12:39973352C>T	ENST00000308666.3	-	8	1997	c.1862G>A	c.(1861-1863)cGt>cAt	p.R621H		NM_005164.3	NP_005155.1	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D (ALD), member 2	621	ABC transporter. {ECO:0000255|PROSITE- ProRule:PRU00434}.				fatty acid beta-oxidation (GO:0006635)|positive regulation of fatty acid beta-oxidation (GO:0032000)|transmembrane transport (GO:0055085)|very long-chain fatty acid catabolic process (GO:0042760)|very long-chain fatty acid metabolic process (GO:0000038)	cytosol (GO:0005829)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|mitochondrion (GO:0005739)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|protein homodimerization activity (GO:0042803)	p.R621L(1)		breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(10)|lung(24)|ovary(2)|pancreas(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)	52						ATAAAACATACGAGCCATGCC	0.358																																																1	Substitution - Missense(1)	lung(1)											141	136	138					12																	39973352		2203	4300	6503	SO:0001583	missense	225			U28150	CCDS8734.1	12q12	2012-05-16			ENSG00000173208	ENSG00000173208		"ATP binding cassette transporters / subfamily D"	66	protein-coding gene	gene with protein product		601081		ALDL1		8577752	Standard	NM_005164		Approved	ALDR, ALDRP	uc001rmb.2	Q9UBJ2	OTTHUMG00000169337	ENST00000308666.3:c.1862G>A	12.37:g.39973352C>T	ENSP00000310688:p.Arg621His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAM3|Q13210|Q2M3H9	Missense_Mutation	SNP	ENST00000308666.3	37	CCDS8734.1	.	.	.	.	.	.	.	.	.	.	C	25.0	4.589233	0.86851	.	.	ENSG00000173208	ENST00000308666	D	0.99893	-7.57	5.08	5.08	0.68730	ABC transporter, conserved site (1);ATPase, AAA+ type, core (1);ABC transporter-like (2);	0.069130	0.56097	D	0.000022	D	0.99932	0.9969	H	0.98542	4.26	0.80722	D	1	D	0.89917	1.0	D	0.76575	0.988	D	0.95891	0.8907	9	.	.	.	-16.2697	18.5246	0.90967	0.0:1.0:0.0:0.0	.	621	Q9UBJ2	ABCD2_HUMAN	H	621	ENSP00000310688:R621H	.	R	-	2	0	ABCD2	38259619	1.000000	0.71417	0.983000	0.44433	0.666000	0.39218	7.520000	0.81821	2.381000	0.81170	0.579000	0.79373	CGT		0.358	ABCD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403591.1	NM_005164		T	39973352	C	T	39973352	3	4	615	1	0	0	0	0	1	0	0	0	61	536	19	1	372	1	ABCD2	12	39973352	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	30722011	39973352	93878543	70	37519										
MLL2	8085	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	49431988	49431988	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	cagctcaggatcagtatatgCcagcaggtcaaactcgtctc	9	12	4	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr12:49431988C>G	ENST00000301067.7	-	34	9150	c.9151G>C	c.(9151-9153)Gca>Cca	p.A3051P	KMT2D_ENST00000549743.1_5'Flank	NM_003482.3	NP_003473.3	O14686	KMT2D_HUMAN	lysine (K)-specific methyltransferase 2D	3051					chromatin silencing (GO:0006342)|histone H3-K4 methylation (GO:0051568)|oocyte growth (GO:0001555)|oogenesis (GO:0048477)|positive regulation of cell proliferation (GO:0008284)|positive regulation of intracellular estrogen receptor signaling pathway (GO:0033148)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|response to estrogen (GO:0043627)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)										TCAGTATATGCCAGCAGGTCA	0.517																																																0													97	95	95					12																	49431988		2015	4202	6217	SO:0001583	missense	8085			AF010403	CCDS44873.1	12q13.12	2013-05-09	2013-05-09	2013-05-09	ENSG00000167548	ENSG00000167548		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	7133	protein-coding gene	gene with protein product		602113	"trinucleotide repeat containing 21", "myeloid/lymphoid or mixed-lineage leukemia 2"	TNRC21, MLL2		9247308	Standard	NM_003482		Approved	ALR, MLL4, CAGL114		O14686	OTTHUMG00000166524	ENST00000301067.7:c.9151G>C	12.37:g.49431988C>G	ENSP00000301067:p.Ala3051Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O14687	Missense_Mutation	SNP	ENST00000301067.7	37	CCDS44873.1	.	.	.	.	.	.	.	.	.	.	C	13.32	2.202944	0.38905	.	.	ENSG00000167548	ENST00000301067	D	0.94457	-3.43	5.11	5.11	0.69529	.	0.000000	0.38272	N	0.001746	D	0.96284	0.8788	L	0.49126	1.545	0.58432	D	0.999999	D	0.89917	1.0	D	0.85130	0.997	D	0.96801	0.9589	10	0.87932	D	0	.	17.698	0.88286	0.0:1.0:0.0:0.0	.	3051	O14686	MLL2_HUMAN	P	3051	ENSP00000301067:A3051P	ENSP00000301067:A3051P	A	-	1	0	MLL2	47718255	1.000000	0.71417	0.972000	0.41901	0.971000	0.66376	7.707000	0.84623	2.549000	0.85964	0.655000	0.94253	GCA		0.517	KMT2D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390183.2			G	49431988	C	G	49431988	3	3	615	1	0	0	0	0	1	0	0	0	9628	739	26	4	7546	4	MLL2	12	49431988	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	9458636	49431988	84419907	71	37520										
SHMT2	6472	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	57625677	57625677	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	acgaccggatcatggggctgGacctgcccgatgggggccag	17	12	1	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr12:57625677G>C	ENST00000328923.3	+	4	945	c.493G>C	c.(493-495)Gac>Cac	p.D165H	SHMT2_ENST00000393827.4_Missense_Mutation_p.W59C|SHMT2_ENST00000449049.3_Missense_Mutation_p.D144H|SHMT2_ENST00000554600.1_3'UTR|SHMT2_ENST00000553474.1_Missense_Mutation_p.D144H|SHMT2_ENST00000557487.1_Missense_Mutation_p.D165H|SHMT2_ENST00000414700.3_Missense_Mutation_p.D144H	NM_001166356.1|NM_005412.5	NP_001159828.1|NP_005403.2	P34897	GLYM_HUMAN	serine hydroxymethyltransferase 2 (mitochondrial)	165					glycine biosynthetic process from serine (GO:0019264)|L-serine biosynthetic process (GO:0006564)|one-carbon metabolic process (GO:0006730)|positive regulation of cell proliferation (GO:0008284)|protein homotetramerization (GO:0051289)|tetrahydrofolate interconversion (GO:0035999)	extracellular vesicular exosome (GO:0070062)|microtubule cytoskeleton (GO:0015630)|mitochondrial inner membrane (GO:0005743)|mitochondrial intermembrane space (GO:0005758)|mitochondrial matrix (GO:0005759)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)	amino acid binding (GO:0016597)|chromatin binding (GO:0003682)|glycine hydroxymethyltransferase activity (GO:0004372)|L-allo-threonine aldolase activity (GO:0008732)|pyridoxal phosphate binding (GO:0030170)			breast(1)|central_nervous_system(1)|large_intestine(4)|liver(2)|lung(3)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	15					Glycine(DB00145)|Tetrahydrofolic acid(DB00116)	CATGGGGCTGGACCTGCCCGA	0.587																																					Esophageal Squamous(150;1369 2416 49071 49364)											0													30	27	28					12																	57625677		2203	4300	6503	SO:0001583	missense	6472			AK223555	CCDS8934.1, CCDS53805.1, CCDS55837.1	12q12-q14	2006-03-27				ENSG00000182199	2.1.2.1		10852	protein-coding gene	gene with protein product		138450		SHMT		8999870	Standard	NM_005412		Approved		uc001snf.2	P34897		ENST00000328923.3:c.493G>C	12.37:g.57625677G>C	ENSP00000333667:p.Asp165His	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z9F1|E7EQ19|E7EU43|O00740|Q8N1A5	Missense_Mutation	SNP	ENST00000328923.3	37	CCDS8934.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	24.6|24.6	4.546641|4.546641	0.86022|0.86022	.|.	.|.	ENSG00000182199|ENSG00000182199	ENST00000328923;ENST00000557487;ENST00000555634;ENST00000556689;ENST00000414700;ENST00000553529;ENST00000554310;ENST00000557427;ENST00000553474;ENST00000555773;ENST00000554975;ENST00000449049;ENST00000556737|ENST00000393827	T;T;T;T;T;T;T;T;T;T;T;T;T|T	0.50001|0.31510	1.39;0.76;0.76;0.76;1.39;1.39;1.39;1.39;1.39;1.39;1.39;1.39;1.39|1.49	4.53|4.53	4.53|4.53	0.55603|0.55603	Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (1);Pyridoxal phosphate-dependent transferase, major domain (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.57110|0.57110	0.2031|0.2031	M|M	0.89163|0.89163	3.01|3.01	0.58432|0.58432	D|D	0.999999|0.999999	D;D;D|D	0.71674|0.67145	0.998;0.993;0.997|0.996	D;D;P|P	0.66497|0.57371	0.944;0.925;0.815|0.819	T|T	0.68228|0.68228	-0.5464|-0.5464	10|9	0.87932|0.87932	D|D	0|0	-5.8122|-5.8122	16.58|16.58	0.84712|0.84712	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	174;165;165|59	B4DWA7;Q8N1A5;P34897|B4DLV4	.;.;GLYM_HUMAN|.	H|C	165;165;4;165;144;144;144;144;144;144;144;144;144|59	ENSP00000333667:D165H;ENSP00000452315:D165H;ENSP00000450930:D4H;ENSP00000452035:D165H;ENSP00000406881:D144H;ENSP00000452161:D144H;ENSP00000450893:D144H;ENSP00000452045:D144H;ENSP00000452419:D144H;ENSP00000451968:D144H;ENSP00000452404:D144H;ENSP00000413770:D144H;ENSP00000451495:D144H|ENSP00000377413:W59C	ENSP00000333667:D165H|ENSP00000377413:W59C	D|W	+|+	1|3	0|0	SHMT2|SHMT2	55911944|55911944	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.997000|0.997000	0.91878|0.91878	9.657000|9.657000	0.98554|0.98554	2.517000|2.517000	0.84864|0.84864	0.561000|0.561000	0.74099|0.74099	GAC|TGG		0.587	SHMT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412525.2	NM_005412		C	57625677	G	C	57625677	3	2	615	1	0	0	0	0	1	0	0	0	14299	1174	41	4	507	4	SHMT2	12	57625677	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	8193689	57625677	76226218	72	37521										
CYP27B1	1594	bcgsc.ca	37	chr12	58160674	58160674	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	cccccccttgcagaaaagttCggccagaaagctgggcgtag	12	13	0	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr12:58160674C>G	ENST00000228606.4	-	1	360	c.151G>C	c.(151-153)Gaa>Caa	p.E51Q	CYP27B1_ENST00000546496.1_5'Flank	NM_000785.3	NP_000776.1	O15528	CP27B_HUMAN	cytochrome P450, family 27, subfamily B, polypeptide 1	51					bone mineralization (GO:0030282)|calcitriol biosynthetic process from calciol (GO:0036378)|calcium ion homeostasis (GO:0055074)|calcium ion transport (GO:0006816)|decidualization (GO:0046697)|G1 to G0 transition (GO:0070314)|negative regulation of calcidiol 1-monooxygenase activity (GO:0010956)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|positive regulation of keratinocyte differentiation (GO:0045618)|positive regulation of vitamin D 24-hydroxylase activity (GO:0010980)|positive regulation of vitamin D receptor signaling pathway (GO:0070564)|regulation of bone mineralization (GO:0030500)|response to estrogen (GO:0043627)|response to interferon-gamma (GO:0034341)|response to lipopolysaccharide (GO:0032496)|response to vitamin D (GO:0033280)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|vitamin D catabolic process (GO:0042369)|vitamin D metabolic process (GO:0042359)|vitamin metabolic process (GO:0006766)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)	calcidiol 1-monooxygenase activity (GO:0004498)|heme binding (GO:0020037)|iron ion binding (GO:0005506)			central_nervous_system(3)|endometrium(1)|kidney(1)|large_intestine(3)|lung(5)|prostate(1)|urinary_tract(1)	15	all_cancers(7;8.09e-80)|Lung NSC(6;2.26e-27)|all_lung(6;1.99e-25)|all_epithelial(6;3.62e-18)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)		GBM - Glioblastoma multiforme(5;1.97e-113)|all cancers(5;1.54e-78)|BRCA - Breast invasive adenocarcinoma(9;0.0294)		Alfacalcidol(DB01436)|Calcidiol(DB00146)|Corticotropin(DB01285)|Ergocalciferol(DB00153)	CAGAAAAGTTCGGCCAGAAAG	0.632																																																0													65	73	70					12																	58160674		2203	4300	6503	SO:0001583	missense	1594			AB006987	CCDS8954.1	12q14.1	2013-11-13	2003-01-14		ENSG00000111012	ENSG00000111012		"Cytochrome P450s"	2606	protein-coding gene	gene with protein product	"VDDR I", "1alpha(OH)ase", "25-Hydroxyvitamin D3 1alpha-hydroxylase"	609506	"cytochrome P450, subfamily XXVIIB (25-hydroxyvitamin D-1-alpha-hydroxylase), polypeptide 1"	VDD1, PDDR		9295274, 9344864	Standard	NM_000785		Approved	CYP1, P450c1	uc001spz.1	O15528	OTTHUMG00000170457	ENST00000228606.4:c.151G>C	12.37:g.58160674C>G	ENSP00000228606:p.Glu51Gln	Somatic		WXS	Illumina HiSeq	Phase_1	B2RC61|Q548T3	Missense_Mutation	SNP	ENST00000228606.4	37	CCDS8954.1	.	.	.	.	.	.	.	.	.	.	C	24.3	4.516287	0.85495	.	.	ENSG00000111012	ENST00000228606	T	0.68479	-0.33	5.26	5.26	0.73747	.	0.059156	0.64402	D	0.000003	T	0.54127	0.1839	N	0.12920	0.275	0.49299	D	0.999778	B	0.30634	0.288	B	0.39094	0.29	T	0.48603	-0.9021	10	0.08837	T	0.75	.	17.7796	0.88519	0.0:1.0:0.0:0.0	.	51	O15528	CP27B_HUMAN	Q	51	ENSP00000228606:E51Q	ENSP00000228606:E51Q	E	-	1	0	CYP27B1	56446941	1.000000	0.71417	0.963000	0.40424	0.870000	0.49936	6.357000	0.73051	2.729000	0.93468	0.655000	0.94253	GAA		0.632	CYP27B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409248.1	NM_000785		G	58160674	C	G	58160674	3	3	615	1	0	0	0	0	1	0	0	0	4161	893	31	4	1411	4	CYP27B1	12	58160674	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	534997	58160674	75691221	73	37522										
TCP11L2	255394	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	106717360	106717360	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	attatgagtctcagaccgcaCcttcaacgccagttggtgga	10	11	2	2	rs138241328		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr12:106717360C>G	ENST00000299045.3	+	6	882	c.708C>G	c.(706-708)caC>caG	p.H236Q	TCP11L2_ENST00000547153.1_Missense_Mutation_p.H236Q|TCP11L2_ENST00000552690.1_3'UTR|TCP11L2_ENST00000546625.1_Missense_Mutation_p.H236Q	NM_152772.1	NP_689985.1	Q8N4U5	T11L2_HUMAN	t-complex 11, testis-specific-like 2	236										endometrium(2)|kidney(2)|large_intestine(5)|ovary(3)|prostate(1)|urinary_tract(2)	15						TCAGACCGCACCTTCAACGCC	0.343																																																0													55	60	58					12																	106717360		2203	4300	6503	SO:0001583	missense	255394			BC033617	CCDS9104.1, CCDS66456.1	12q23.3	2014-08-12	2012-09-20		ENSG00000166046	ENSG00000166046			28627	protein-coding gene	gene with protein product			"t-complex 11 (mouse) like 2", "t-complex 11 (mouse)-like 2"				Standard	XM_005268769		Approved	MGC40368	uc001tln.3	Q8N4U5	OTTHUMG00000170087	ENST00000299045.3:c.708C>G	12.37:g.106717360C>G	ENSP00000299045:p.His236Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RA65|G3V1Y9	Missense_Mutation	SNP	ENST00000299045.3	37	CCDS9104.1	.	.	.	.	.	.	.	.	.	.	C	16.09	3.024466	0.54683	.	.	ENSG00000166046	ENST00000547153;ENST00000299045;ENST00000546625	T;T;T	0.10960	2.82;2.82;2.82	5.76	2.51	0.30379	.	0.573213	0.19030	N	0.124583	T	0.07908	0.0198	N	0.25380	0.74	0.27925	N	0.938083	P;B;B	0.34815	0.47;0.13;0.138	B;B;B	0.39465	0.3;0.039;0.022	T	0.27020	-1.0086	10	0.25751	T	0.34	-14.6909	5.8057	0.18438	0.0:0.5201:0.1733:0.3066	.	236;236;236	Q8N4U5;G3V1Y9;G3V1Z2	T11L2_HUMAN;.;.	Q	236	ENSP00000448952:H236Q;ENSP00000299045:H236Q;ENSP00000449123:H236Q	ENSP00000299045:H236Q	H	+	3	2	TCP11L2	105241490	0.044000	0.20184	0.935000	0.37517	0.949000	0.60115	-0.293000	0.08320	0.588000	0.29660	0.655000	0.94253	CAC		0.343	TCP11L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407206.1	NM_152772		G	106717360	C	G	106717360	3	3	615	1	0	0	0	0	1	0	0	0	15727	506	18	4	726	4	TCP11L2	12	106717360	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	48556686	106717360	27134535	74	37523										
C12orf34	84915	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	110207030	110207030	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ctgggcaagggctatgagacGgtggccgtgccccggctact	16	12	0	1	rs138993259		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr12:110207030G>A	ENST00000538780.1	+	3	2012	c.1296G>A	c.(1294-1296)acG>acA	p.T432T	FAM222A_ENST00000358906.3_Silent_p.T432T|FAM222A-AS1_ENST00000541723.1_RNA|FAM222A-AS1_ENST00000541460.1_RNA	NM_032829.2	NP_116218.2	Q5U5X8	F222A_HUMAN	family with sequence similarity 222, member A	432																	GCTATGAGACGGTGGCCGTGC	0.627																																																0								G		0,4396		0,0,2198	22	18	19		1296	-6.8	0.9	12	dbSNP_134	19	1,8569		0,1,4284	no	coding-synonymous	C12orf34	NM_032829.2		0,1,6482	AA,AG,GG		0.0117,0.0,0.0077		432/453	110207030	1,12965	2198	4285	6483	SO:0001819	synonymous_variant	84915			AK027627	CCDS9133.1	12q24.11	2012-04-27	2012-04-27	2012-04-27	ENSG00000139438	ENSG00000139438			25915	protein-coding gene	gene with protein product			"chromosome 12 open reading frame 34"	C12orf34		12477932	Standard	NM_032829		Approved	FLJ14721	uc001tpd.2	Q5U5X8	OTTHUMG00000169260	ENST00000538780.1:c.1296G>A	12.37:g.110207030G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NCD5|Q96SP6	Silent	SNP	ENST00000538780.1	37	CCDS9133.1																																																																																				0.627	FAM222A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403175.1	NM_032829		A	110207030	G	A	110207030	2	1	615	1	0	0	0	0	0	0	0	1	1683	1103	39	1		1	C12orf34	12	110207030	Silent	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	3489670	110207030	23644865	75	37524										
TRPV4	59341	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	110234478	110234478	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ggtgccgtgtgtcctcatccGtcacctcccgccggatgatg	12	15	2	1	rs374197231		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr12:110234478G>A	ENST00000418703.2	-	6	1278	c.1184C>T	c.(1183-1185)aCg>aTg	p.T395M	TRPV4_ENST00000544971.1_Intron|TRPV4_ENST00000261740.2_Missense_Mutation_p.T395M|TRPV4_ENST00000541794.1_Missense_Mutation_p.T348M|TRPV4_ENST00000537083.1_Intron|TRPV4_ENST00000392719.2_Missense_Mutation_p.T348M|TRPV4_ENST00000536838.1_Missense_Mutation_p.T361M|TRPV4_ENST00000346520.2_Intron	NM_001177431.1	NP_001170902.1	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel, subfamily V, member 4	395					actin cytoskeleton reorganization (GO:0031532)|actin filament organization (GO:0007015)|calcium ion import (GO:0070509)|calcium ion transmembrane transport (GO:0070588)|calcium ion transport (GO:0006816)|cell death (GO:0008219)|cell volume homeostasis (GO:0006884)|cell-cell junction assembly (GO:0007043)|cellular calcium ion homeostasis (GO:0006874)|cellular hypotonic response (GO:0071476)|cellular response to heat (GO:0034605)|cellular response to osmotic stress (GO:0071470)|cortical microtubule organization (GO:0043622)|hyperosmotic salinity response (GO:0042538)|ion transmembrane transport (GO:0034220)|microtubule polymerization (GO:0046785)|negative regulation of neuron projection development (GO:0010977)|osmosensory signaling pathway (GO:0007231)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of microtubule depolymerization (GO:0031117)|regulation of response to osmotic stress (GO:0047484)|response to mechanical stimulus (GO:0009612)|transmembrane transport (GO:0055085)|vasopressin secretion (GO:0030103)	adherens junction (GO:0005912)|cell surface (GO:0009986)|cilium (GO:0005929)|cortical actin cytoskeleton (GO:0030864)|cytoplasmic microtubule (GO:0005881)|cytoplasmic vesicle (GO:0031410)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|growth cone (GO:0030426)|integral component of membrane (GO:0016021)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|alpha-tubulin binding (GO:0043014)|ATP binding (GO:0005524)|beta-tubulin binding (GO:0048487)|calcium channel activity (GO:0005262)|calmodulin binding (GO:0005516)|cation channel activity (GO:0005261)|microtubule binding (GO:0008017)|osmosensor activity (GO:0005034)|protein kinase binding (GO:0019901)|protein kinase C binding (GO:0005080)|SH2 domain binding (GO:0042169)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(7)|lung(7)|ovary(3)|prostate(2)|skin(4)|stomach(1)	35						GTCCTCATCCGTCACCTCCCG	0.627																																																0								G	MET/THR,MET/THR,,MET/THR,	0,4406		0,0,2203	102	85	91		1043,1082,,1184,	3.2	0.9	12		91	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,intron,missense,intron	TRPV4	NM_001177428.1,NM_001177431.1,NM_001177433.1,NM_021625.4,NM_147204.2	81,81,,81,	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging,probably-damaging,,probably-damaging,	348/825,361/838,,395/872,	110234478	1,13005	2203	4300	6503	SO:0001583	missense	59341			AF263523	CCDS9134.1, CCDS9135.1, CCDS53827.1, CCDS53828.1, CCDS53829.1	12q24.1	2014-09-17				ENSG00000111199		"Voltage-gated ion channels / Transient receptor potential cation channels", "Ankyrin repeat domain containing"	18083	protein-coding gene	gene with protein product	"osmosensitive transient receptor potential channel 4"	605427				11025659, 11081638, 16382100, 20037587	Standard	NM_147204		Approved	OTRPC4, TRP12, VROAC, VRL-2, VR-OAC, CMT2C	uc001tpk.2	Q9HBA0		ENST00000418703.2:c.1184C>T	12.37:g.110234478G>A	ENSP00000406191:p.Thr395Met	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKQ6|Q17R79|Q2Y122|Q2Y123|Q2Y124|Q86YZ6|Q8NDY7|Q8NG64|Q96Q92|Q96RS7|Q9HBC0	Missense_Mutation	SNP	ENST00000418703.2	37	CCDS9134.1	.	.	.	.	.	.	.	.	.	.	G	12.77	2.037326	0.35989	0.0	1.16E-4	ENSG00000111199	ENST00000418703;ENST00000261740;ENST00000392719;ENST00000541794;ENST00000536838	D;D;D;D;D	0.89552	-2.53;-2.53;-2.31;-2.31;-2.53	5.16	3.22	0.36961	.	0.149468	0.64402	D	0.000018	T	0.81631	0.4863	L	0.31476	0.935	0.80722	D	1	D;B;B	0.54772	0.968;0.184;0.32	P;B;B	0.45276	0.475;0.103;0.103	T	0.78386	-0.2224	10	0.38643	T	0.18	-9.8296	6.9524	0.24552	0.0814:0.0:0.6258:0.2927	.	395;348;361	Q9HBA0;Q9HBA0-4;Q9HBA0-5	TRPV4_HUMAN;.;.	M	395;395;348;348;361	ENSP00000406191:T395M;ENSP00000261740:T395M;ENSP00000376480:T348M;ENSP00000442167:T348M;ENSP00000444336:T361M	ENSP00000261740:T395M	T	-	2	0	TRPV4	108718861	0.916000	0.31088	0.919000	0.36401	0.863000	0.49368	1.418000	0.34782	1.181000	0.42912	-0.251000	0.11542	ACG		0.627	TRPV4-006	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403270.1	NM_021625		A	110234478	G	A	110234478	3	1	615	1	0	0	0	0	1	0	0	0	16610	1145	40	1	1471	1	TRPV4	12	110234478	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	27448	110234478	23617417	76	37525										
EP400	57634	broad.mit.edu	37	chr12	132522575	132522575	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gtcaaagctgaggagtttgtGgtgctttctcaggaaccttc	12	8	2	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr12:132522575G>A	ENST00000333577.4	+	33	6358	c.6249G>A	c.(6247-6249)gtG>gtA	p.V2083V	EP400_ENST00000332482.4_Silent_p.V2010V|EP400_ENST00000330386.6_Silent_p.V1966V|EP400_ENST00000389561.2_Silent_p.V2047V|EP400_ENST00000389562.2_Silent_p.V2046V			Q96L91	EP400_HUMAN	E1A binding protein p400	2083					chromatin organization (GO:0006325)|histone H2A acetylation (GO:0043968)|histone H4 acetylation (GO:0043967)	NuA4 histone acetyltransferase complex (GO:0035267)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|Swr1 complex (GO:0000812)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|helicase activity (GO:0004386)			NS(1)|breast(6)|central_nervous_system(10)|cervix(1)|endometrium(21)|kidney(13)|large_intestine(25)|lung(56)|ovary(5)|prostate(8)|skin(6)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(3)	161	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)		AGGAGTTTGTGGTGCTTTCTC	0.458																																																0													201	183	189					12																	132522575		2203	4300	6503	SO:0001819	synonymous_variant	57634			U80743	CCDS31929.1, CCDS31929.2	12q24.33	2008-02-01	2002-02-05	2002-02-08		ENSG00000183495			11958	protein-coding gene	gene with protein product		606265	"trinucleotide repeat containing 12"	TNRC12		9225980, 11509179	Standard	NM_015409		Approved	CAGH32, KIAA1498, P400, KIAA1818, DKFZP434I225	uc001ujn.3	Q96L91		ENST00000333577.4:c.6249G>A	12.37:g.132522575G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O15411|Q6P2F5|Q8N8Q7|Q8NE05|Q96JK7|Q9P230	Silent	SNP	ENST00000333577.4	37																																																																																					0.458	EP400-203	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_015409		A	132522575	G	A	132522575	2	1	615	1	0	0	0	0	0	0	0	1	5151	1335	47	2		2	EP400	12	132522575	Silent	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	22288097	132522575	1329320	77	37526										
RCBTB1	55213	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	50134123	50134123	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tccaccacttgcttgatcaaGagattggtacagacctggac	9	11	1	3			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr13:50134123G>C	ENST00000378302.2	-	5	635	c.375C>G	c.(373-375)ctC>ctG	p.L125L	RCBTB1_ENST00000546015.1_Silent_p.L125L|RCBTB1_ENST00000258646.3_Silent_p.L125L	NM_018191.3	NP_060661.3	Q8NDN9	RCBT1_HUMAN	regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 1	125					cell cycle (GO:0007049)|chromatin modification (GO:0016568)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				endometrium(1)|kidney(1)|large_intestine(3)|lung(7)|ovary(2)|prostate(1)|urinary_tract(1)	16		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;4.7e-09)		GCTTGATCAAGAGATTGGTAC	0.483																																																0													210	203	206					13																	50134123		2203	4300	6503	SO:0001819	synonymous_variant	55213			AF334406	CCDS9418.1	13q14	2013-01-08			ENSG00000136144	ENSG00000136144		"BTB/POZ domain containing"	18243	protein-coding gene	gene with protein product		607867				11306461	Standard	XM_005266441		Approved	FLJ10716, CLLD7, CLLL7	uc001vde.1	Q8NDN9	OTTHUMG00000016915	ENST00000378302.2:c.375C>G	13.37:g.50134123G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IY29|Q969U9	Silent	SNP	ENST00000378302.2	37	CCDS9418.1																																																																																				0.483	RCBTB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044912.2	NM_018191		C	50134123	G	C	50134123	2	2	615	1	0	0	0	0	0	0	0	1	13184	929	33	4		4	RCBTB1	13	50134123	Silent	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10		50134123	65035755	78	37527										
NALCN	259232	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	101881861	101881861	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	accaaactcccaagctttttTccaggaccaaatatcttgta	4	12	1	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr13:101881861T>C	ENST00000251127.6	-	13	1590	c.1509A>G	c.(1507-1509)ggA>ggG	p.G503G	NALCN_ENST00000470333.1_5'UTR|NALCN_ENST00000376196.3_Silent_p.G503G	NM_052867.2	NP_443099.1	Q8IZF0	NALCN_HUMAN	sodium leak channel, non-selective	503					calcium ion import (GO:0070509)|calcium ion transmembrane transport (GO:0070588)|cell death (GO:0008219)|ion transmembrane transport (GO:0034220)|membrane depolarization during action potential (GO:0086010)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	sodium channel activity (GO:0005272)|voltage-gated calcium channel activity (GO:0005245)			NS(1)|autonomic_ganglia(2)|breast(6)|central_nervous_system(2)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(3)|kidney(10)|large_intestine(33)|liver(2)|lung(81)|ovary(8)|pancreas(3)|prostate(5)|skin(6)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	177	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CAAGCTTTTTTCCAGGACCAA	0.398																																																0													104	112	110					13																	101881861		2203	4300	6503	SO:0001819	synonymous_variant	259232			AY141972	CCDS9498.1	13q32.3	2012-02-21	2007-04-26	2007-04-26	ENSG00000102452	ENSG00000102452		"Ion channels / Sodium leak channels, non-selective"	19082	protein-coding gene	gene with protein product		611549	"voltage gated channel like 1"	VGCNL1		17448995	Standard	XM_006719943		Approved	bA430M15.1, CanIon	uc001vox.1	Q8IZF0	OTTHUMG00000017295	ENST00000251127.6:c.1509A>G	13.37:g.101881861T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6P2S6|Q6ZMI7|Q8IZZ1|Q8TAH1	Silent	SNP	ENST00000251127.6	37	CCDS9498.1																																																																																				0.398	NALCN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045663.2	NM_052867		C	101881861	T	C	101881861	2	2	615	1	0	0	0	0	0	0	0	1	10155	1770	62	3		3	NALCN	13	101881861	Silent	SNP	T	TCGA-IA-A40Y-01A-11D-A25F-10	51747738	101881861	13288017	79	37528										
HECTD1	25831	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	31582629	31582629	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ttaaattaagaatatcactaCtttgaagagtagaaatggcc	7	5	1	4			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr14:31582629C>T	ENST00000399332.1	-	33	6406	c.5918G>A	c.(5917-5919)aGt>aAt	p.S1973N	HECTD1_ENST00000553700.1_Missense_Mutation_p.S1973N	NM_015382.2	NP_056197.2	Q9ULT8	HECD1_HUMAN	HECT domain containing E3 ubiquitin protein ligase 1	1973					neural tube closure (GO:0001843)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ligase activity (GO:0016874)|metal ion binding (GO:0046872)|ubiquitin-protein transferase activity (GO:0004842)			breast(10)|endometrium(7)|kidney(5)|large_intestine(12)|lung(23)|ovary(4)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	70	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)		AATATCACTACTTTGAAGAGT	0.388																																																0													167	164	165					14																	31582629		1831	4088	5919	SO:0001583	missense	25831			AB032957	CCDS41939.1	14q12	2013-01-10	2012-02-23		ENSG00000092148	ENSG00000092148		"Ankyrin repeat domain containing"	20157	protein-coding gene	gene with protein product			"HECT domain containing 1"			10574461	Standard	XM_005267502		Approved	KIAA1131	uc001wrc.1	Q9ULT8	OTTHUMG00000170670	ENST00000399332.1:c.5918G>A	14.37:g.31582629C>T	ENSP00000382269:p.Ser1973Asn	Somatic		WXS	Illumina HiSeq	Phase_I	D3DS86|Q6P445|Q86VJ1|Q96F34|Q9UFZ7	Missense_Mutation	SNP	ENST00000399332.1	37	CCDS41939.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	1.089|1.089	-0.664515|-0.664515	0.03428|0.03428	.|.	.|.	ENSG00000092148|ENSG00000092148	ENST00000553700;ENST00000261312;ENST00000399332;ENST00000553957|ENST00000554882	T;T;T|.	0.43294|.	0.95;0.95;1.2|.	5.94|5.94	2.88|2.88	0.33553|0.33553	.|.	0.115316|.	0.56097|.	U|.	0.000027|.	T|T	0.46112|0.46112	0.1376|0.1376	L|L	0.40543|0.40543	1.245|1.245	0.38847|0.38847	D|D	0.956199|0.956199	B;B|.	0.02656|.	0.0;0.0|.	B;B|.	0.01281|.	0.0;0.0|.	T|T	0.30679|0.30679	-0.9970|-0.9970	10|5	0.18276|.	T|.	0.48|.	-2.8194|-2.8194	6.637|6.637	0.22889|0.22889	0.0:0.4212:0.0:0.5788|0.0:0.4212:0.0:0.5788	.|.	1973;1973|.	D3DS86;Q9ULT8|.	.;HECD1_HUMAN|.	N|I	1973;1975;1973;1400|339	ENSP00000450697:S1973N;ENSP00000382269:S1973N;ENSP00000451860:S1400N|.	ENSP00000261312:S1975N|.	S|V	-|-	2|1	0|0	HECTD1|HECTD1	30652380|30652380	1.000000|1.000000	0.71417|0.71417	0.970000|0.970000	0.41538|0.41538	0.020000|0.020000	0.10135|0.10135	2.462000|2.462000	0.45049|0.45049	0.363000|0.363000	0.24346|0.24346	-0.145000|-0.145000	0.13849|0.13849	AGT|GTA		0.388	HECTD1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409942.1			T	31582629	C	T	31582629	3	4	615	1	0	0	0	0	1	0	0	0	7046	565	20	2	1958	2	HECTD1	14	31582629	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10		31582629	75766911	80	37529										
HEATR5A	25938	broad.mit.edu;bcgsc.ca	37	chr14	31763220	31763220	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ctgcagtttttccatgatacAggatgctaaagagtaaatgt	9	6	0	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr14:31763220A>G	ENST00000389961.3	-	34	5691	c.5692T>C	c.(5692-5694)Tgt>Cgt	p.C1898R	HEATR5A_ENST00000439727.1_Missense_Mutation_p.C1611R|HEATR5A_ENST00000543095.2_Missense_Mutation_p.C1904R|RP11-596D21.1_ENST00000551799.1_RNA|HEATR5A_ENST00000439348.1_Missense_Mutation_p.C1823R			Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A	1898										breast(1)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(5)|lung(13)|ovary(1)	26	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		TCCATGATACAGGATGCTAAA	0.398																																																0													119	103	108					14																	31763220		1848	4109	5957	SO:0001583	missense	25938			AB037737		14q12	2012-04-19	2007-01-02	2007-01-02	ENSG00000129493	ENSG00000129493			20276	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 125"	C14orf125			Standard	NM_015473		Approved	DKFZP434I1735	uc001wrf.4	Q86XA9	OTTHUMG00000169043	ENST00000389961.3:c.5692T>C	14.37:g.31763220A>G	ENSP00000374611:p.Cys1898Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DD8|Q6P3S5|Q6P5R9|Q9H8D7|Q9NXB7|Q9P2N0|Q9UFQ3	Missense_Mutation	SNP	ENST00000389961.3	37		.	.	.	.	.	.	.	.	.	.	A	0.006	-2.045063	0.00398	.	.	ENSG00000129493	ENST00000389961;ENST00000439348;ENST00000439727;ENST00000543095	T;T;T;T	0.67865	-0.07;-0.29;-0.07;-0.07	5.22	1.47	0.22746	.	0.352635	0.30227	N	0.010105	T	0.20129	0.0484	N	0.00237	-1.79	0.19575	N	0.999969	B	0.02656	0.0	B	0.01281	0.0	T	0.40683	-0.9550	10	0.02654	T	1	.	4.434	0.11542	0.6479:0.0:0.2188:0.1333	.	1823	Q86XA9-2	.	R	1898;1823;1611;1904	ENSP00000374611:C1898R;ENSP00000405407:C1823R;ENSP00000408681:C1611R;ENSP00000437968:C1904R	ENSP00000374611:C1898R	C	-	1	0	HEATR5A	30832971	0.000000	0.05858	0.277000	0.24703	0.168000	0.22595	0.567000	0.23608	0.317000	0.23160	-0.509000	0.04479	TGT		0.398	HEATR5A-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_015473		G	31763220	A	G	31763220	3	3	615	1	0	0	0	0	1	0	0	0	7038	188	7	3	438	3	HEATR5A	14	31763220	Missense_Mutation	SNP	A	TCGA-IA-A40Y-01A-11D-A25F-10	180591	31763220	75586320	81	37530										
SYNE2	23224	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	64519117	64519117	+	Nonsense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	aactcaaagatcacagcaatTagaatttaagttggaagaaa	7	5	2	3			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr14:64519117T>G	ENST00000344113.4	+	48	8698	c.8486T>G	c.(8485-8487)tTa>tGa	p.L2829*	SYNE2_ENST00000554584.1_Nonsense_Mutation_p.L2862*|SYNE2_ENST00000358025.3_Nonsense_Mutation_p.L2829*|SYNE2_ENST00000357395.3_5'UTR	NM_015180.4	NP_055995.4	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	2829					centrosome localization (GO:0051642)|cytoskeletal anchoring at nuclear membrane (GO:0090286)|establishment or maintenance of cell polarity (GO:0007163)|fibroblast migration (GO:0010761)|nuclear envelope organization (GO:0006998)|nuclear migration (GO:0007097)|nuclear migration along microfilament (GO:0031022)|positive regulation of cell migration (GO:0030335)|protein localization to nucleus (GO:0034504)	aggresome (GO:0016235)|cytoplasm (GO:0005737)|filopodium membrane (GO:0031527)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|intermediate filament cytoskeleton (GO:0045111)|lamellipodium membrane (GO:0031258)|mitochondrion (GO:0005739)|nuclear envelope (GO:0005635)|nuclear lumen (GO:0031981)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|sarcoplasmic reticulum (GO:0016529)|SUN-KASH complex (GO:0034993)|Z disc (GO:0030018)	actin binding (GO:0003779)			NS(5)|breast(17)|central_nervous_system(3)|cervix(8)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(21)|large_intestine(34)|lung(75)|ovary(10)|pancreas(2)|prostate(8)|skin(8)|stomach(1)|upper_aerodigestive_tract(9)|urinary_tract(4)	224				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		TCACAGCAATTAGAATTTAAG	0.343																																																0													43	41	42					14																	64519117		1811	4086	5897	SO:0001587	stop_gained	23224			AB023228	CCDS9761.2, CCDS41963.1, CCDS45124.1, CCDS45125.1	14q22.1-q22.3	2014-09-17			ENSG00000054654	ENSG00000054654			17084	protein-coding gene	gene with protein product	"nuclear envelope spectrin repeat-2", "nucleus and actin connecting element"	608442				10231032, 10878022	Standard	NM_182910		Approved	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2	uc001xgl.3	Q8WXH0	OTTHUMG00000140349	ENST00000344113.4:c.8486T>G	14.37:g.64519117T>G	ENSP00000341781:p.Leu2829*	Somatic		WXS	Illumina HiSeq	Phase_I	Q540G1|Q8N1S3|Q8NF49|Q8TER7|Q8WWW3|Q8WWW4|Q8WWW5|Q8WXH1|Q9NU50|Q9UFQ4|Q9Y2L4|Q9Y4R1	Nonsense_Mutation	SNP	ENST00000344113.4	37	CCDS41963.1	.	.	.	.	.	.	.	.	.	.	T	50	16.272729	0.99859	.	.	ENSG00000054654	ENST00000358025;ENST00000344113;ENST00000554584;ENST00000261678	.	.	.	5.27	5.27	0.74061	.	0.000000	0.38720	N	0.001585	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	13.7819	0.63087	0.0:0.0:0.0:1.0	.	.	.	.	X	2829;2829;2862;2862	.	ENSP00000261678:L2862X	L	+	2	0	SYNE2	63588870	0.992000	0.36948	0.998000	0.56505	0.933000	0.57130	5.172000	0.65003	2.004000	0.58718	0.260000	0.18958	TTA		0.343	SYNE2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276994.2	NM_182914		G	64519117	T	G	64519117	4	3	615	1	0	0	0	0	0	1	0	0	15458	1764	61	5	8672	5	SYNE2	14	64519117	Nonsense_Mutation	SNP	T	TCGA-IA-A40Y-01A-11D-A25F-10	32755897	64519117	42830423	82	37531										
CKB	1152	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	103988811	103988811	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	agcgcagcttcagtgcgttgTggctgttggagaagggcatg	17	7	1	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr14:103988811T>G	ENST00000348956.2	-	2	377	c.20A>C	c.(19-21)cAc>cCc	p.H7P	RP11-600F24.7_ENST00000568177.1_RNA	NM_001823.4	NP_001814.2	P12277	KCRB_HUMAN	creatine kinase, brain	7					cellular chloride ion homeostasis (GO:0030644)|cellular nitrogen compound metabolic process (GO:0034641)|creatine metabolic process (GO:0006600)|small molecule metabolic process (GO:0044281)|substantia nigra development (GO:0021762)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|creatine kinase activity (GO:0004111)			lung(2)|prostate(1)	3		Melanoma(154;0.155)	Epithelial(46;0.14)		Creatine(DB00148)	CAGTGCGTTGTGGCTGTTGGA	0.706																																					Esophageal Squamous(186;2492 2823 49929 50127)											0													49	43	45					14																	103988811		2201	4300	6501	SO:0001583	missense	1152				CCDS9981.1	14q32.32	2012-10-02			ENSG00000166165	ENSG00000166165	2.7.3.2		1991	protein-coding gene	gene with protein product		123280		CKBB			Standard	NM_001823		Approved		uc001ynf.2	P12277	OTTHUMG00000171786	ENST00000348956.2:c.20A>C	14.37:g.103988811T>G	ENSP00000299198:p.His7Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K236|B2R5R4|Q2LE07|Q6FG40|Q9UC66	Missense_Mutation	SNP	ENST00000348956.2	37	CCDS9981.1	.	.	.	.	.	.	.	.	.	.	T	14.98	2.696367	0.48202	.	.	ENSG00000166165	ENST00000348956;ENST00000428256;ENST00000553878	T;T	0.38240	1.82;1.15	4.17	4.17	0.49024	ATP:guanido phosphotransferase, N-terminal (2);	0.000000	0.85682	D	0.000000	T	0.56202	0.1969	M	0.82193	2.58	0.80722	D	1	P	0.48503	0.911	P	0.55112	0.769	T	0.64896	-0.6299	10	0.87932	D	0	.	13.5095	0.61504	0.0:0.0:0.0:1.0	.	7	P12277	KCRB_HUMAN	P	7	ENSP00000299198:H7P;ENSP00000451904:H7P	ENSP00000299198:H7P	H	-	2	0	CKB	103058564	1.000000	0.71417	1.000000	0.80357	0.800000	0.45204	6.860000	0.75473	1.783000	0.52377	0.246000	0.17985	CAC		0.706	CKB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415111.1			G	103988811	T	G	103988811	3	3	615	1	0	0	0	0	1	0	0	0	3448	1696	59	5	1153	5	CKB	14	103988811	Missense_Mutation	SNP	T	TCGA-IA-A40Y-01A-11D-A25F-10	39469694	103988811	3360729	83	37532										
SOLH	6650	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	598994	598994	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	atggccgtggtctctgcagaAcaatgtgagcttcgtggatg	14	8	1	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr16:598994A>G	ENST00000219611.2	+	5	1814	c.1451A>G	c.(1450-1452)aAc>aGc	p.N484S	LA16c-366D1.3_ENST00000565879.1_RNA	NM_005632.2	NP_005623.1	O75808	CAN15_HUMAN	calpain 15	484					proteolysis (GO:0006508)|regulation of transcription, DNA-templated (GO:0006355)	cytoplasm (GO:0005737)	calcium-dependent cysteine-type endopeptidase activity (GO:0004198)|cysteine-type peptidase activity (GO:0008234)|peptidase activity (GO:0008233)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)										TCTCTGCAGAACAATGTGAGC	0.662																																																0													112	92	99					16																	598994		2198	4297	6495	SO:0001630	splice_region_variant	6650			U85647	CCDS10410.1	16p13.3	2013-06-27	2013-06-27	2013-06-27	ENSG00000103326	ENSG00000103326			11182	protein-coding gene	gene with protein product		603267	"small optic lobes (Drosophila) homolog", "small optic lobes homolog (Drosophila)"	SOLH		9722942	Standard	NM_005632		Approved		uc002chi.3	O75808	OTTHUMG00000119059	ENST00000219611.2:c.1450-1A>G	16.37:g.598994A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B1B1M4|Q2KHS2|Q8WTY9|Q9BUW0	Missense_Mutation	SNP	ENST00000219611.2	37	CCDS10410.1	.	.	.	.	.	.	.	.	.	.	a	10.23	1.292148	0.23564	.	.	ENSG00000103326	ENST00000219611	T	0.40756	1.02	5.04	5.04	0.67666	Peptidase C2, calpain, catalytic domain (1);	0.090831	0.64402	D	0.000001	T	0.49372	0.1553	L	0.27053	0.805	0.58432	D	0.999994	D	0.71674	0.998	D	0.77004	0.989	T	0.43147	-0.9409	10	0.30854	T	0.27	.	13.6292	0.62186	1.0:0.0:0.0:0.0	.	484	O75808	CAN15_HUMAN	S	484	ENSP00000219611:N484S	ENSP00000219611:N484S	N	+	2	0	SOLH	538995	1.000000	0.71417	0.967000	0.41034	0.345000	0.29048	6.977000	0.76141	1.903000	0.55091	0.454000	0.30748	AAC		0.662	CAPN15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239271.1	NM_005632	Missense_Mutation	G	598994	A	G	598994	5	3	615	1	0	0	0	0	0	0	1	0	14938	57	2	3	1457	3	SOLH	16	598994	Splice_Site	SNP	A	TCGA-IA-A40Y-01A-11D-A25F-10		598994	89755759	84	37533										
TMEM219	124446	broad.mit.edu	37	chr16	29982731	29982731	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ccctgtacccctccctaggaGgagctggctctgtgtggctc	12	15	1	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr16:29982731G>A	ENST00000566848.1	+	4	1055	c.588G>A	c.(586-588)gaG>gaA	p.E196E	TAOK2_ENST00000308893.4_5'Flank|TAOK2_ENST00000543033.1_5'Flank|TMEM219_ENST00000561899.2_Silent_p.E196E|TMEM219_ENST00000279396.6_Silent_p.E196E|TAOK2_ENST00000279394.3_5'Flank|TMEM219_ENST00000414689.2_Silent_p.E196E			Q86XT9	TM219_HUMAN	transmembrane protein 219	196					apoptotic process (GO:0006915)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				large_intestine(1)|lung(1)|prostate(2)	4						CTCCCTAGGAGGAGCTGGCTC	0.582																																																0													114	118	117					16																	29982731		2037	4174	6211	SO:0001819	synonymous_variant	124446				CCDS42145.1	16p11.2	2008-08-08			ENSG00000149932	ENSG00000149932			25201	protein-coding gene	gene with protein product							Standard	NM_194280		Approved		uc010bzk.1	Q86XT9		ENST00000566848.1:c.588G>A	16.37:g.29982731G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D5FK14|Q8WVV8	Silent	SNP	ENST00000566848.1	37	CCDS42145.1																																																																																				0.582	TMEM219-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000435307.1	NM_001083613		A	29982731	G	A	29982731	2	1	615	1	0	0	0	0	0	0	0	1	16154	991	35	2		2	TMEM219	16	29982731	Silent	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	29383737	29982731	60372022	85	37534										
DNAH2	146754	broad.mit.edu;bcgsc.ca	37	chr17	7689597	7689597	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ggcaagactgcctcatggcgCattctacaggcctccctgtc	10	15	2	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr17:7689597C>T	ENST00000572933.1	+	40	7745	c.6285C>T	c.(6283-6285)cgC>cgT	p.R2095R	DNAH2_ENST00000389173.2_Silent_p.R2095R			Q9P225	DYH2_HUMAN	dynein, axonemal, heavy chain 2	2095	AAA 2. {ECO:0000250}.				cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(3)|breast(11)|central_nervous_system(1)|cervix(3)|endometrium(18)|haematopoietic_and_lymphoid_tissue(2)|kidney(16)|large_intestine(53)|liver(2)|lung(49)|ovary(7)|prostate(7)|skin(15)|upper_aerodigestive_tract(1)|urinary_tract(1)	189		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CCTCATGGCGCATTCTACAGG	0.582																																																0													63	59	61					17																	7689597		2203	4300	6503	SO:0001819	synonymous_variant	146754			U83570, AK128517	CCDS32551.1	17p13.1	2007-10-05	2006-09-04			ENSG00000183914		"Axonemal dyneins"	2948	protein-coding gene	gene with protein product		603333	"dynein, axonemal, heavy polypeptide 2", "dynein heavy chain domain 3"	DNHD3		9256245	Standard	XM_005256470		Approved	KIAA1503, FLJ46675	uc002giu.1	Q9P225		ENST00000572933.1:c.6285C>T	17.37:g.7689597C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K992|B5MDX5|O15434|Q6PIH3|Q6ZR42	Silent	SNP	ENST00000572933.1	37	CCDS32551.1																																																																																				0.582	DNAH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440241.1	NM_020877		T	7689597	C	T	7689597	2	4	615	1	0	0	0	0	0	0	0	1	4604	697	25	2		2	DNAH2	17	7689597	Silent	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10		7689597	73505613	86	37535										
MYH8	4626	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	10300168	10300168	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	agggctgcacaggctgcattAgacctttccacatcaagcat	9	12	1	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr17:10300168A>T	ENST00000403437.2	-	31	4408	c.4314T>A	c.(4312-4314)tcT>tcA	p.S1438S	CTC-297N7.11_ENST00000587182.2_RNA|RP11-799N11.1_ENST00000581304.1_RNA|RP11-799N11.1_ENST00000399342.2_RNA	NM_002472.2	NP_002463.2	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle, perinatal	1438					ATP catabolic process (GO:0006200)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|skeletal muscle contraction (GO:0003009)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|muscle myosin complex (GO:0005859)|myosin filament (GO:0032982)|sarcomere (GO:0030017)	actin filament binding (GO:0051015)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microfilament motor activity (GO:0000146)|myosin light chain binding (GO:0032027)|structural constituent of muscle (GO:0008307)			NS(3)|breast(8)|central_nervous_system(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(23)|lung(61)|ovary(3)|prostate(3)|skin(10)|upper_aerodigestive_tract(2)|urinary_tract(2)	134						AGGCTGCATTAGACCTTTCCA	0.463									Trismus-Pseudocamptodactyly Syndrome with Cardiac Myxoma and Freckling																																							0													110	100	103					17																	10300168		2203	4300	6503	SO:0001819	synonymous_variant	4626	Familial Cancer Database	Carney Complex Variant		CCDS11153.1	17p13.1	2013-09-19	2006-09-29		ENSG00000133020	ENSG00000133020		"Myosins / Myosin superfamily : Class II"	7578	protein-coding gene	gene with protein product		160741	"myosin, heavy polypeptide 8, skeletal muscle, perinatal"			2373371	Standard	NM_002472		Approved	MyHC-peri, MyHC-pn	uc002gmm.2	P13535	OTTHUMG00000130361	ENST00000403437.2:c.4314T>A	17.37:g.10300168A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14910	Silent	SNP	ENST00000403437.2	37	CCDS11153.1																																																																																				0.463	MYH8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252724.2	NM_002472		T	10300168	A	T	10300168	2	4	615	1	0	0	0	0	0	0	0	1	10048	407	15	5		5	MYH8	17	10300168	Silent	SNP	A	TCGA-IA-A40Y-01A-11D-A25F-10	2610571	10300168	70895042	87	37536										
TMEM132E	124842	broad.mit.edu;bcgsc.ca	37	chr17	32956104	32956104	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	tcaccagccagtcagtcaagCggaggatcatgtggcacatt	11	11	4	0	rs371393529		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr17:32956104C>G	ENST00000321639.5	+	5	1277	c.949C>G	c.(949-951)Cgg>Ggg	p.R317G		NM_207313.1	NP_997196.1	Q6IEE7	T132E_HUMAN	transmembrane protein 132E	317						integral component of membrane (GO:0016021)		p.R317W(1)		breast(1)|central_nervous_system(2)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(10)|lung(28)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	57				BRCA - Breast invasive adenocarcinoma(366;0.231)		GTCAGTCAAGCGGAGGATCAT	0.612																																																1	Substitution - Missense(1)	cervix(1)											100	93	95					17																	32956104		2203	4300	6503	SO:0001583	missense	124842			BN000149	CCDS11283.1	17q12	2012-11-01			ENSG00000181291	ENSG00000181291			26991	protein-coding gene	gene with protein product							Standard	NM_207313		Approved		uc002hif.3	Q6IEE7	OTTHUMG00000132927	ENST00000321639.5:c.949C>G	17.37:g.32956104C>G	ENSP00000316532:p.Arg317Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WUF4|Q8WVA5	Missense_Mutation	SNP	ENST00000321639.5	37	CCDS11283.1	.	.	.	.	.	.	.	.	.	.	c	9.345	1.063991	0.20067	.	.	ENSG00000181291	ENST00000321639	T	0.18960	2.18	4.51	3.53	0.40419	.	0.000000	0.85682	D	0.000000	T	0.31857	0.0810	L	0.39397	1.21	0.49130	D	0.999751	D	0.89917	1.0	D	0.85130	0.997	T	0.03514	-1.1029	10	0.15499	T	0.54	-29.8251	11.4588	0.50197	0.3265:0.6735:0.0:0.0	.	317	Q6IEE7	T132E_HUMAN	G	317	ENSP00000316532:R317G	ENSP00000316532:R317G	R	+	1	2	TMEM132E	29980217	0.995000	0.38212	0.984000	0.44739	0.044000	0.14063	1.296000	0.33389	1.236000	0.43740	0.447000	0.29281	CGG		0.612	TMEM132E-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256440.2	NM_207313		G	32956104	C	G	32956104	3	3	615	1	0	0	0	0	1	0	0	0	16060	759	27	4	967	4	TMEM132E	17	32956104	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	22655936	32956104	48239106	88	37537										
CLTC	1213	broad.mit.edu;bcgsc.ca	37	chr17	57728648	57728648	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	atgtcttctttcctccagaaGcacaaaatgattttcctgtt	5	10	2	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr17:57728648G>T	ENST00000269122.3	+	5	1040	c.766G>T	c.(766-768)Gca>Tca	p.A256S	CLTC_ENST00000579456.1_Intron|CLTC_ENST00000393043.1_Missense_Mutation_p.A256S	NM_004859.3	NP_004850.1	Q00610	CLH1_HUMAN	clathrin, heavy chain (Hc)	256	Globular terminal domain.|WD40-like repeat 5.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|intracellular protein transport (GO:0006886)|membrane organization (GO:0061024)|mitotic nuclear division (GO:0007067)|negative regulation of hyaluronan biosynthetic process (GO:1900126)|negative regulation of protein localization to plasma membrane (GO:1903077)|osteoblast differentiation (GO:0001649)|post-Golgi vesicle-mediated transport (GO:0006892)|receptor internalization (GO:0031623)|receptor-mediated endocytosis (GO:0006898)|transferrin transport (GO:0033572)	clathrin coat (GO:0030118)|clathrin coat of coated pit (GO:0030132)|clathrin coat of trans-Golgi network vesicle (GO:0030130)|clathrin complex (GO:0071439)|clathrin-coated endocytic vesicle membrane (GO:0030669)|clathrin-coated vesicle (GO:0030136)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|spindle (GO:0005819)|trans-Golgi network membrane (GO:0032588)|vesicle (GO:0031982)	clathrin light chain binding (GO:0032051)|double-stranded RNA binding (GO:0003725)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)|structural molecule activity (GO:0005198)		CLTC/ALK(44)|CLTC/TFE3(2)	breast(2)|large_intestine(6)|ovary(1)	9	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					TCCTCCAGAAGCACAAAATGA	0.353			T	"ALK, TFE3"	"ALCL, renal "																																		Dom	yes		17	17q11-qter	1213	"clathrin, heavy polypeptide (Hc)"		L	0													146	149	148					17																	57728648		2203	4300	6503	SO:0001583	missense	1213			X55878	CCDS32696.1, CCDS74115.1	17q23.1	2013-09-19	2006-09-29		ENSG00000141367	ENSG00000141367			2092	protein-coding gene	gene with protein product		118955	"clathrin, heavy polypeptide (Hc)", "clathrin, heavy chain", "clathrin, heavy polypeptide-like 2"	CLTCL2		1765375, 7584026	Standard	NM_004859		Approved	Hc	uc002ixq.1	Q00610	OTTHUMG00000134279	ENST00000269122.3:c.766G>T	17.37:g.57728648G>T	ENSP00000269122:p.Ala256Ser	Somatic		WXS	Illumina HiSeq	Phase_I	D3DU00|Q6N0A0|Q86TF2	Missense_Mutation	SNP	ENST00000269122.3	37	CCDS32696.1	.	.	.	.	.	.	.	.	.	.	G	35	5.556566	0.96514	.	.	ENSG00000141367	ENST00000269122;ENST00000393043	T;T	0.24350	1.86;1.86	5.62	5.62	0.85841	Clathrin, heavy chain, propeller, N-terminal (1);Clathrin, heavy chain, linker/propeller domain (1);	0.000000	0.85682	D	0.000000	T	0.63640	0.2528	M	0.93283	3.4	0.80722	D	1	D;P	0.58268	0.982;0.857	D;P	0.72338	0.977;0.876	T	0.68992	-0.5263	10	0.44086	T	0.13	.	20.0333	0.97547	0.0:0.0:1.0:0.0	.	256;256	Q00610;Q00610-2	CLH1_HUMAN;.	S	256	ENSP00000269122:A256S;ENSP00000376763:A256S	ENSP00000269122:A256S	A	+	1	0	CLTC	55083430	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.869000	0.99810	2.810000	0.96702	0.585000	0.79938	GCA		0.353	CLTC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258859.1	NM_004859		T	57728648	G	T	57728648	3	4	615	1	0	0	0	0	1	0	0	0	3568	971	34	4	784	4	CLTC	17	57728648	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	24772544	57728648	23466562	89	37538										
BPTF	2186	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	65960510	65960510	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ggggttgaagagggtgctccGttccttacaggtgagacccc	15	10	0	3	rs368469411		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr17:65960510G>T	ENST00000321892.4	+	27	8883	c.8822G>T	c.(8821-8823)cGt>cTt	p.R2941L	BPTF_ENST00000424123.3_Missense_Mutation_p.R2659L|BPTF_ENST00000335221.5_Missense_Mutation_p.R2798L|BPTF_ENST00000306378.6_Missense_Mutation_p.R2815L			Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2941					anterior/posterior pattern specification (GO:0009952)|ATP catabolic process (GO:0006200)|brain development (GO:0007420)|chromatin remodeling (GO:0006338)|embryonic placenta development (GO:0001892)|endoderm development (GO:0007492)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|microtubule cytoskeleton (GO:0015630)|nucleolus (GO:0005730)|nucleus (GO:0005634)|NURF complex (GO:0016589)	sequence-specific DNA binding (GO:0043565)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(16)|lung(23)|ovary(3)|pancreas(2)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	78	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)			AGGGTGCTCCGTTCCTTACAG	0.458																																																0													83	74	77					17																	65960510		2203	4300	6503	SO:0001583	missense	2186			AY282495	CCDS11673.1	17q24	2013-01-28	2006-12-01	2006-12-01	ENSG00000171634	ENSG00000171634		"Zinc fingers, PHD-type"	3581	protein-coding gene	gene with protein product		601819	"fetal Alzheimer antigen"	FALZ		8975731, 10662542, 16728976	Standard	NM_182641		Approved	FAC1, NURF301	uc002jgf.3	Q12830	OTTHUMG00000132254	ENST00000321892.4:c.8822G>T	17.37:g.65960510G>T	ENSP00000315454:p.Arg2941Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NX67|Q7Z7D6|Q9UIG2	Missense_Mutation	SNP	ENST00000321892.4	37		.	.	.	.	.	.	.	.	.	.	G	16.21	3.057919	0.55325	.	.	ENSG00000171634	ENST00000306378;ENST00000335221;ENST00000321892;ENST00000342579	T;T;T	0.30448	1.53;1.53;1.53	5.65	5.65	0.86999	.	.	.	.	.	T	0.52435	0.1734	L	0.49455	1.56	0.80722	D	1	P;P;D;D	0.76494	0.587;0.872;0.999;0.999	B;P;D;D	0.80764	0.187;0.773;0.994;0.994	T	0.45190	-0.9278	9	0.49607	T	0.09	-6.4917	19.7202	0.96139	0.0:0.0:1.0:0.0	.	146;619;2815;2798	E9PE19;B4DJV8;Q12830-2;Q12830-4	.;.;.;.	L	2815;2798;2941;146	ENSP00000307208:R2815L;ENSP00000334351:R2798L;ENSP00000315454:R2941L	ENSP00000307208:R2815L	R	+	2	0	BPTF	63390972	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	9.807000	0.99171	2.660000	0.90430	0.555000	0.69702	CGT		0.458	BPTF-201	KNOWN	basic	protein_coding	protein_coding		NM_182641, NM_004459		T	65960510	G	T	65960510	3	4	615	1	0	0	0	0	1	0	0	0	1497	1145	40	4	8928	4	BPTF	17	65960510	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	8231862	65960510	15234700	90	37539										
CBX4	8535	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	77807886	77807886	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ttcgtcctgggcctcggctgGaggcttctccgccgtcgtgg	15	14	1	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr17:77807886G>C	ENST00000269397.4	-	5	1732	c.1555C>G	c.(1555-1557)Cca>Gca	p.P519A		NM_003655.2	NP_003646.2	O00257	CBX4_HUMAN	chromobox homolog 4	519	Interaction with BMI1.				chromatin modification (GO:0016568)|negative regulation of apoptotic process (GO:0043066)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|protein sumoylation (GO:0016925)|transcription, DNA-templated (GO:0006351)	nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PcG protein complex (GO:0031519)|PRC1 complex (GO:0035102)	chromatin binding (GO:0003682)|enzyme binding (GO:0019899)|ligase activity (GO:0016874)|single-stranded RNA binding (GO:0003727)|SUMO binding (GO:0032183)|transcription corepressor activity (GO:0003714)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|cervix(1)|endometrium(1)|large_intestine(1)|lung(7)|ovary(1)|prostate(3)|skin(2)|urinary_tract(1)	18			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			GCCTCGGCTGGAGGCTTCTCC	0.672																																																0													36	45	42					17																	77807886		2201	4296	6497	SO:0001583	missense	8535			AF013956	CCDS32758.1	17q25.3	2010-07-06	2010-06-24		ENSG00000141582	ENSG00000141582			1554	protein-coding gene	gene with protein product	"NS5ATP1-binding protein 16", "Pc class 2 homolog (Drosophila)"	603079	"chromobox homolog 4 (Drosophila Pc class)"			9315667	Standard	NM_003655		Approved	hPC2, PC2, NBP16	uc002jxe.3	O00257	OTTHUMG00000150415	ENST00000269397.4:c.1555C>G	17.37:g.77807886G>C	ENSP00000269397:p.Pro519Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B1PJR7|Q6TPI8|Q96C04	Missense_Mutation	SNP	ENST00000269397.4	37	CCDS32758.1	.	.	.	.	.	.	.	.	.	.	g	8.387	0.838920	0.16891	.	.	ENSG00000141582	ENST00000269397;ENST00000343048	.	.	.	3.16	3.16	0.36331	.	3.167460	0.02836	N	0.127360	T	0.20251	0.0487	N	0.11560	0.145	0.19575	N	0.999969	B	0.20261	0.043	B	0.17433	0.018	T	0.25152	-1.0140	9	0.12103	T	0.63	-14.3825	5.4008	0.16295	0.1115:0.0:0.6877:0.2008	.	519	O00257	CBX4_HUMAN	A	519;249	.	ENSP00000269397:P519A	P	-	1	0	CBX4	75422481	0.931000	0.31567	0.470000	0.27216	0.496000	0.33645	2.539000	0.45718	1.796000	0.52611	0.299000	0.19835	CCA		0.672	CBX4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318007.1	NM_003655		C	77807886	G	C	77807886	3	2	615	1	0	0	0	0	1	0	0	0	2722	1174	41	4	131	4	CBX4	17	77807886	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	11847376	77807886	3387324	91	37540										
AZI1	22994	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	79165083	79165083	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gctcaatctccttgtcccggCctttccggatttcttccctc	6	17	3	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr17:79165083C>A	ENST00000269392.4	-	22	2931	c.2684G>T	c.(2683-2685)gGc>gTc	p.G895V	AZI1_ENST00000575907.1_Missense_Mutation_p.G859V|AZI1_ENST00000450824.2_Missense_Mutation_p.G892V|AZI1_ENST00000374782.3_Missense_Mutation_p.G856V	NM_014984.2	NP_055799.2	Q9UPN4	CP131_HUMAN		895					cell differentiation (GO:0030154)|G2/M transition of mitotic cell cycle (GO:0000086)|intraciliary transport involved in cilium morphogenesis (GO:0035735)|mitotic cell cycle (GO:0000278)|multicellular organismal development (GO:0007275)|positive regulation of cell proliferation (GO:0008284)|positive regulation of intracellular protein transport (GO:0090316)|regulation of centrosome duplication (GO:0010824)|spermatogenesis (GO:0007283)	BBSome (GO:0034464)|cell projection (GO:0042995)|centriolar satellite (GO:0034451)|centriole (GO:0005814)|centrosome (GO:0005813)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)	protein homodimerization activity (GO:0042803)			breast(1)|central_nervous_system(3)|endometrium(6)|kidney(3)|large_intestine(1)|lung(12)|ovary(2)|prostate(3)|urinary_tract(5)	36	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			CTTGTCCCGGCCTTTCCGGAT	0.667																																																0													84	79	81					17																	79165083		2203	4300	6503	SO:0001583	missense	22994																														ENST00000269392.4:c.2684G>T	17.37:g.79165083C>A	ENSP00000269392:p.Gly895Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHI8|B2RN11|Q96F50	Missense_Mutation	SNP	ENST00000269392.4	37		.	.	.	.	.	.	.	.	.	.	C	13.17	2.157738	0.38119	.	.	ENSG00000141577	ENST00000450824;ENST00000374782;ENST00000269392	T;T;T	0.14266	2.52;2.55;2.52	4.37	0.923	0.19413	.	0.413716	0.23832	N	0.044131	T	0.06690	0.0171	L	0.29908	0.895	0.54753	D	0.999988	B;B;P;P	0.37122	0.218;0.135;0.583;0.583	B;B;B;B	0.32090	0.081;0.055;0.14;0.14	T	0.35992	-0.9766	10	0.41790	T	0.15	-20.1739	1.6764	0.02823	0.1712:0.4525:0.148:0.2282	.	892;895;856;892	B2RN10;Q9UPN4;Q9UPN4-3;Q9UPN4-2	.;AZI1_HUMAN;.;.	V	892;856;895	ENSP00000393583:G892V;ENSP00000363914:G856V;ENSP00000269392:G895V	ENSP00000269392:G895V	G	-	2	0	AZI1	76779678	0.999000	0.42202	0.994000	0.49952	0.993000	0.82548	0.828000	0.27435	0.474000	0.27392	0.491000	0.48974	GGC		0.667	AZI1-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000256070.1			A	79165083	C	A	79165083	3	1	615	1	0	0	0	0	1	0	0	0	1240	739	26	4	587	4	AZI1	17	79165083	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	1357197	79165083	2030127	92	37541										
SERPINB3	6317	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	61322975	61322975	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	aggaaagggtgattacaatgGaactcttcattagttgaagt	11	4	2	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr18:61322975G>C	ENST00000283752.5	-	8	1232	c.1089C>G	c.(1087-1089)ttC>ttG	p.F363L	SERPINB3_ENST00000332821.8_Missense_Mutation_p.F311L|SERPINB11_ENST00000489748.1_RNA	NM_006919.2	NP_008850.1	P29508	SPB3_HUMAN	serpin peptidase inhibitor, clade B (ovalbumin), member 3	363					negative regulation of catalytic activity (GO:0043086)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of peptidase activity (GO:0010466)|negative regulation of proteolysis (GO:0045861)|regulation of proteolysis (GO:0030162)|response to virus (GO:0009615)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|vesicle (GO:0031982)	serine-type endopeptidase inhibitor activity (GO:0004867)|virus receptor activity (GO:0001618)			breast(2)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(14)|ovary(1)|skin(5)|upper_aerodigestive_tract(2)	36						GATTACAATGGAACTCTTCAT	0.458																																																0													171	168	169					18																	61322975		2203	4300	6503	SO:0001583	missense	6317			U19568	CCDS11987.1	18q21.3	2014-02-18	2005-08-18		ENSG00000057149	ENSG00000057149		"Serine (or cysteine) peptidase inhibitors"	10569	protein-coding gene	gene with protein product		600517	"serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 3"	SCC, SCCA1		7724531, 24172014	Standard	NM_006919		Approved	T4-A, HsT1196	uc002lji.3	P29508	OTTHUMG00000060403	ENST00000283752.5:c.1089C>G	18.37:g.61322975G>C	ENSP00000283752:p.Phe363Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDM2|B2RBT5|B3W5Y6|Q53H28|Q53YB5|Q86VF3|Q86W04|Q8IWL4|Q8IXI3|Q96J21|Q9BYF8	Missense_Mutation	SNP	ENST00000283752.5	37	CCDS11987.1	.	.	.	.	.	.	.	.	.	.	G	14.85	2.657623	0.47467	.	.	ENSG00000057149	ENST00000283752;ENST00000332821	D;D	0.87571	-2.27;-2.27	2.96	-2.58	0.06228	Serpin domain (3);Protease inhibitor I4, serpin, conserved site (1);	0.163773	0.28940	N	0.013642	D	0.82962	0.5151	M	0.74546	2.27	0.20403	N	0.999908	B;B	0.24651	0.02;0.108	B;B	0.28638	0.044;0.092	T	0.73372	-0.4003	10	0.62326	D	0.03	.	6.4823	0.22069	0.5376:0.1327:0.3296:0.0	.	311;363	P29508-2;P29508	.;SPB3_HUMAN	L	363;311	ENSP00000283752:F363L;ENSP00000329498:F311L	ENSP00000283752:F363L	F	-	3	2	SERPINB3	59473955	0.000000	0.05858	0.001000	0.08648	0.956000	0.61745	0.135000	0.15952	-0.655000	0.05387	0.449000	0.29647	TTC		0.458	SERPINB3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000133791.1	NM_006919		C	61322975	G	C	61322975	3	2	615	1	0	0	0	0	1	0	0	0	14115	1165	41	4	87	4	SERPINB3	18	61322975	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10		61322975	16754273	93	37542										
PGLYRP2	114770	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	15587343	15587343	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	cacgcagaagctgtgtgtctGgtcttggcagctggcacttt	13	10	2	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr19:15587343G>T	ENST00000340880.4	-	2	618	c.138C>A	c.(136-138)acC>acA	p.T46T	PGLYRP2_ENST00000292609.4_Silent_p.T46T	NM_052890.3	NP_443122.3	Q96PD5	PGRP2_HUMAN	peptidoglycan recognition protein 2	46			T -> A (in dbSNP:rs3813135). {ECO:0000269|PubMed:12975309}.		defense response to Gram-positive bacterium (GO:0050830)|detection of bacterium (GO:0016045)|growth of symbiont in host (GO:0044117)|innate immune response (GO:0045087)|negative regulation of interferon-gamma production (GO:0032689)|negative regulation of natural killer cell differentiation involved in immune response (GO:0032827)|pattern recognition receptor signaling pathway (GO:0002221)|peptide amidation (GO:0001519)|peptidoglycan catabolic process (GO:0009253)|regulation of inflammatory response (GO:0050727)	extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|membrane (GO:0016020)	N-acetylmuramoyl-L-alanine amidase activity (GO:0008745)|peptidoglycan binding (GO:0042834)|peptidoglycan receptor activity (GO:0016019)|zinc ion binding (GO:0008270)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(9)|ovary(3)|prostate(2)|skin(3)|stomach(2)|urinary_tract(1)	28						CTGTGTGTCTGGTCTTGGCAG	0.587																																																0													50	47	48					19																	15587343		2203	4300	6503	SO:0001819	synonymous_variant	114770			AY358156	CCDS12330.2	19p13.12	2010-04-27			ENSG00000161031	ENSG00000161031	3.5.1.28		30013	protein-coding gene	gene with protein product	"peptidoglycan recognition protein L precursor", "peptidoglycan recognition protein-like", "N-acetylmuramoyl-L-alanine amidase"	608199				11461926, 12669421, 14506276	Standard	NM_052890		Approved	PGRP-L, PGLYRPL, TAGL-like, tagL, tagL-alpha, tagl-beta, PGRPL	uc002nbf.4	Q96PD5	OTTHUMG00000150690	ENST00000340880.4:c.138C>A	19.37:g.15587343G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K050|A8K8C7|B2RMZ2|B7ZM33|Q68CK1|Q96N74|Q9UC60	Silent	SNP	ENST00000340880.4	37	CCDS12330.2																																																																																				0.587	PGLYRP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319626.1	NM_052890		T	15587343	G	T	15587343	2	4	615	1	0	0	0	0	0	0	0	1	11801	1335	47	4		4	PGLYRP2	19	15587343	Silent	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10		15587343	43541640	94	37543										
GRAMD1A	57655	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	35512474	35512474	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gtcgctcattgagaagaactCgtggagcggcattgaagact	13	8	1	4			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr19:35512474C>T	ENST00000317991.5	+	14	1736	c.1544C>T	c.(1543-1545)tCg>tTg	p.S515L	GRAMD1A_ENST00000504615.2_Missense_Mutation_p.S281L|GRAMD1A_ENST00000599564.1_Missense_Mutation_p.S602L|GRAMD1A_ENST00000411896.2_Missense_Mutation_p.S508L|CTD-2527I21.14_ENST00000605640.1_RNA	NM_020895.3	NP_065946.2	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A	515						integral component of membrane (GO:0016021)				NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(10)|prostate(1)|upper_aerodigestive_tract(1)	19	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			GAGAAGAACTCGTGGAGCGGC	0.582																																																0													70	73	72					19																	35512474		1948	4122	6070	SO:0001583	missense	57655			AK074864	CCDS42546.1, CCDS46046.1	19q13.13	2008-02-05	2005-11-02	2005-11-02		ENSG00000089351			29305	protein-coding gene	gene with protein product			"KIAA1533"	KIAA1533		10819331	Standard	NM_020895		Approved	FLJ90346	uc010xse.1	Q96CP6		ENST00000317991.5:c.1544C>T	19.37:g.35512474C>T	ENSP00000441032:p.Ser515Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKY7|Q8NC77|Q9P1Z5	Missense_Mutation	SNP	ENST00000317991.5	37	CCDS42546.1	.	.	.	.	.	.	.	.	.	.	C	16.65	3.182600	0.57800	.	.	ENSG00000089351	ENST00000453966;ENST00000504615;ENST00000317991;ENST00000411896	T;T;T	0.22336	1.96;1.96;1.96	4.33	4.33	0.51752	.	0.086126	0.48767	D	0.000164	T	0.29458	0.0734	L	0.60455	1.87	0.42985	D	0.994471	D;P;D;D	0.62365	0.971;0.83;0.991;0.968	B;B;P;P	0.48873	0.439;0.086;0.539;0.593	T	0.07635	-1.0762	10	0.51188	T	0.08	.	14.3583	0.66752	0.0:1.0:0.0:0.0	.	515;515;281;508	Q96CP6-3;Q96CP6;B3KQF7;Q96CP6-2	.;GRM1A_HUMAN;.;.	L	601;281;515;508	ENSP00000423728:S281L;ENSP00000441032:S515L;ENSP00000439267:S508L	ENSP00000441032:S515L	S	+	2	0	GRAMD1A	40204314	0.806000	0.28996	0.955000	0.39395	0.977000	0.68977	2.268000	0.43338	2.255000	0.74692	0.491000	0.48974	TCG		0.582	GRAMD1A-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000461557.1	NM_020895		T	35512474	C	T	35512474	3	4	615	1	0	0	0	0	1	0	0	0	6754	893	31	1	1598	1	GRAMD1A	19	35512474	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	19925131	35512474	23616509	95	37544										
ZNF585B	92285	broad.mit.edu;bcgsc.ca	37	chr19	37680577	37680577	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	actcacctgggcagctgtgaCgtggcctctcaccctgcagt	11	15	2	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr19:37680577C>T	ENST00000532828.2	-	4	529	c.278G>A	c.(277-279)cGt>cAt	p.R93H	ZNF585B_ENST00000312908.5_5'Flank|ZNF585B_ENST00000586320.1_Missense_Mutation_p.R78H|ZNF585B_ENST00000527838.1_Missense_Mutation_p.R93H|ZNF585B_ENST00000531805.1_Missense_Mutation_p.R38H|CTC-454I21.3_ENST00000585860.2_Missense_Mutation_p.R93H	NM_152279.3	NP_689492.3	Q52M93	Z585B_HUMAN	zinc finger protein 585B	93	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(3)|endometrium(1)|large_intestine(9)|lung(13)|ovary(1)|prostate(1)	29			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GCAGCTGTGACGTGGCCTCTC	0.498																																					Melanoma(93;882 1454 18863 28917 48427)											0													159	125	136					19																	37680577		2203	4300	6503	SO:0001583	missense	92285			AK027834	CCDS12500.1	19q13.13	2013-01-08				ENSG00000245680		"Zinc fingers, C2H2-type", "-"	30948	protein-coding gene	gene with protein product						12477932	Standard	NM_152279		Approved	FLJ14928, SZFP41	uc002ofq.3	Q52M93		ENST00000532828.2:c.278G>A	19.37:g.37680577C>T	ENSP00000433773:p.Arg93His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IZD3|Q96JW6	Missense_Mutation	SNP	ENST00000532828.2	37	CCDS12500.1	.	.	.	.	.	.	.	.	.	.	C	9.289	1.050057	0.19827	.	.	ENSG00000245680	ENST00000531805;ENST00000532828;ENST00000527838	T;T;T	0.09163	3.03;3.01;6.62	2.55	-1.74	0.08056	Krueppel-associated box (1);	1.911660	0.03152	N	0.168174	T	0.10937	0.0267	L	0.48218	1.51	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.35076	-0.9803	10	0.33940	T	0.23	.	6.7578	0.23524	0.0:0.6143:0.0:0.3857	.	93	Q52M93	Z585B_HUMAN	H	38;93;93	ENSP00000436774:R38H;ENSP00000433773:R93H;ENSP00000435268:R93H	ENSP00000435268:R93H	R	-	2	0	ZNF585B	42372417	0.000000	0.05858	0.000000	0.03702	0.268000	0.26511	-0.529000	0.06186	-0.421000	0.07416	0.305000	0.20034	CGT		0.498	ZNF585B-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388272.2	NM_152279		T	37680577	C	T	37680577	3	4	615	1	0	0	0	0	1	0	0	0	18030	536	19	1	2039	1	ZNF585B	19	37680577	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10	2168103	37680577	21448406	96	37545										
AHCY	191	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	32873337	32873337	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	cctggttggtgaaggagttaCtcatcacgaagctggggtgg	16	7	2	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr20:32873337C>T	ENST00000217426.2	-	9	1153	c.1076G>A	c.(1075-1077)aGt>aAt	p.S359N	CTD-3216D2.5_ENST00000609218.1_RNA|AHCY_ENST00000538132.1_Missense_Mutation_p.S331N	NM_000687.2	NP_000678.1	P23526	SAHH_HUMAN	adenosylhomocysteinase	359					cellular nitrogen compound metabolic process (GO:0034641)|chronic inflammatory response to antigenic stimulus (GO:0002439)|circadian sleep/wake cycle (GO:0042745)|homocysteine biosynthetic process (GO:0071268)|methylation (GO:0032259)|one-carbon metabolic process (GO:0006730)|response to hypoxia (GO:0001666)|response to nutrient (GO:0007584)|S-adenosylhomocysteine catabolic process (GO:0019510)|small molecule metabolic process (GO:0044281)|sulfur amino acid metabolic process (GO:0000096)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|neuron projection (GO:0043005)|nucleus (GO:0005634)	adenosylhomocysteinase activity (GO:0004013)|adenyl nucleotide binding (GO:0030554)|NAD binding (GO:0051287)			endometrium(6)|large_intestine(4)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	19						GAAGGAGTTACTCATCACGAA	0.587																																																0													91	78	82					20																	32873337		2203	4300	6503	SO:0001583	missense	191			M61832	CCDS13233.1, CCDS54457.1	20q11.22	2009-06-12	2009-06-12		ENSG00000101444	ENSG00000101444	3.3.1.1		343	protein-coding gene	gene with protein product		180960	"S-adenosylhomocysteine hydrolase"			7079734, 6580258	Standard	NM_001161766		Approved	SAHH	uc002xai.3	P23526	OTTHUMG00000140098	ENST00000217426.2:c.1076G>A	20.37:g.32873337C>T	ENSP00000217426:p.Ser359Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K307|B3KUN3|E1P5P2|F5H737|Q96A36	Missense_Mutation	SNP	ENST00000217426.2	37	CCDS13233.1	.	.	.	.	.	.	.	.	.	.	C	29.8	5.040615	0.93630	.	.	ENSG00000101444	ENST00000217426;ENST00000538132	T;T	0.79033	-1.23;-1.23	4.9	4.9	0.64082	.	0.000000	0.85682	D	0.000000	D	0.88952	0.6577	H	0.96777	3.88	0.80722	D	1	P	0.48589	0.912	P	0.48524	0.58	D	0.92976	0.6402	10	0.87932	D	0	.	18.522	0.90956	0.0:1.0:0.0:0.0	.	359	P23526	SAHH_HUMAN	N	359;331	ENSP00000217426:S359N;ENSP00000442820:S331N	ENSP00000217426:S359N	S	-	2	0	AHCY	32336998	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	7.701000	0.84566	2.457000	0.83068	0.650000	0.86243	AGT		0.587	AHCY-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078773.2	NM_000687		T	32873337	C	T	32873337	3	4	615	1	0	0	0	0	1	0	0	0	409	565	20	2	230	2	AHCY	20	32873337	Missense_Mutation	SNP	C	TCGA-IA-A40Y-01A-11D-A25F-10		32873337	30152183	97	37546										
SFRS6	6431	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	42089596	42089596	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	cgccgctacctgttccacccTcaaaggcccgttctgtgtcc	8	18	2	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr20:42089596T>G	ENST00000244020.3	+	6	1034	c.928T>G	c.(928-930)Tca>Gca	p.S310A		NM_006275.5	NP_006266.2	Q13247	SRSF6_HUMAN	serine/arginine-rich splicing factor 6	310	Arg/Ser-rich (RS domain).				alternative mRNA splicing, via spliceosome (GO:0000380)|gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA export from nucleus (GO:0006406)|mRNA splice site selection (GO:0006376)|mRNA splicing, via spliceosome (GO:0000398)|negative regulation of cell death (GO:0060548)|negative regulation of keratinocyte differentiation (GO:0045617)|negative regulation of mRNA splicing, via spliceosome (GO:0048025)|positive regulation of epithelial cell proliferation involved in lung morphogenesis (GO:0060501)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|regulation of keratinocyte proliferation (GO:0010837)|regulation of wound healing (GO:0061041)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|pre-mRNA binding (GO:0036002)|RNA binding (GO:0003723)			haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|upper_aerodigestive_tract(2)	5						TGTTCCACCCTCAAAGGCCCG	0.502																																																0													83	82	83					20																	42089596		2203	4300	6503	SO:0001583	missense	6431			U30883	CCDS13318.1	20q12-q13.1	2013-02-12	2010-06-22	2010-06-22	ENSG00000124193	ENSG00000124193		"Serine/arginine-rich splicing factors", "RNA binding motif (RRM) containing"	10788	protein-coding gene	gene with protein product	"pre-mRNA splicing factor SRP55", "SR splicing factor 6"	601944	"splicing factor, arginine/serine-rich 6"	SFRS6		7556075, 20516191	Standard	NM_006275		Approved	SRP55, B52	uc010zwg.2	Q13247	OTTHUMG00000032502	ENST00000244020.3:c.928T>G	20.37:g.42089596T>G	ENSP00000244020:p.Ser310Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6J3|E1P5W6|Q13244|Q13245|Q96J06|Q9UJB8|Q9Y3N7	Missense_Mutation	SNP	ENST00000244020.3	37	CCDS13318.1	.	.	.	.	.	.	.	.	.	.	T	11.56	1.674496	0.29693	.	.	ENSG00000124193	ENST00000244020	T	0.38722	1.12	5.64	4.47	0.54385	.	0.467630	0.22589	N	0.058110	T	0.22589	0.0545	N	0.08118	0	0.39375	D	0.966157	B	0.15141	0.012	B	0.06405	0.002	T	0.08764	-1.0706	10	0.25751	T	0.34	.	11.8146	0.52202	0.0:0.0:0.1463:0.8537	.	310	Q13247	SRSF6_HUMAN	A	310	ENSP00000244020:S310A	ENSP00000244020:S310A	S	+	1	0	SRSF6	41523010	.	.	1.000000	0.80357	0.919000	0.55068	.	.	2.265000	0.75225	0.482000	0.46254	TCA		0.502	SRSF6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079292.1	NM_006275		G	42089596	T	G	42089596	3	3	615	1	0	0	0	0	1	0	0	0	14194	1551	54	5	950	5	SFRS6	20	42089596	Missense_Mutation	SNP	T	TCGA-IA-A40Y-01A-11D-A25F-10	9216259	42089596	20935924	98	37547										
ZBP1	81030	broad.mit.edu;bcgsc.ca	37	chr20	56195329	56195329	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gtactgtaccttctctgcccGggtcagcaggagcctgggcc	13	14	2	0			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr20:56195329G>A	ENST00000371173.3	-	1	200	c.23C>T	c.(22-24)cCg>cTg	p.P8L	ZBP1_ENST00000538947.1_5'UTR|ZBP1_ENST00000395822.3_Missense_Mutation_p.P8L|ZBP1_ENST00000340462.4_Missense_Mutation_p.P8L|ZBP1_ENST00000541799.1_Missense_Mutation_p.P8L|ZBP1_ENST00000343535.4_Missense_Mutation_p.P8L	NM_001160417.1|NM_030776.2	NP_001153889.1|NP_110403.2	Q9H171	ZBP1_HUMAN	Z-DNA binding protein 1	8					innate immune response (GO:0045087)|positive regulation of type I interferon production (GO:0032481)|positive regulation of type I interferon-mediated signaling pathway (GO:0060340)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	DNA binding (GO:0003677)|double-stranded RNA adenosine deaminase activity (GO:0003726)|left-handed Z-DNA binding (GO:0003692)|RNA binding (GO:0003723)			large_intestine(11)|lung(8)|ovary(4)|prostate(1)|skin(2)|urinary_tract(1)	27	Lung NSC(12;0.000545)|all_lung(29;0.00195)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;7.87e-13)|Epithelial(14;3.26e-09)|all cancers(14;3.62e-08)			TTCTCTGCCCGGGTCAGCAGG	0.587																																																0													35	31	32					20																	56195329		2200	4298	6498	SO:0001583	missense	81030			AJ300575	CCDS13461.1, CCDS54477.1, CCDS54478.1	20q13.31	2009-08-21	2002-07-25	2002-07-26	ENSG00000124256	ENSG00000124256			16176	protein-coding gene	gene with protein product	"DNA-dependent activator of IRFs"	606750	"chromosome 20 open reading frame 183"	C20orf183		11842111	Standard	NM_030776		Approved	dJ718J7.3, DLM1, DLM-1, DAI	uc002xyo.3	Q9H171	OTTHUMG00000032824	ENST00000371173.3:c.23C>T	20.37:g.56195329G>A	ENSP00000360215:p.Pro8Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2F7|B3KVA1|F5GYT1|Q5JY39|Q9BYW4	Missense_Mutation	SNP	ENST00000371173.3	37	CCDS13461.1	.	.	.	.	.	.	.	.	.	.	G	1.396	-0.579487	0.03854	.	.	ENSG00000124256	ENST00000371173;ENST00000395822;ENST00000340462;ENST00000357677;ENST00000343535;ENST00000541799	T;T;T;T;T	0.17370	3.34;2.28;3.35;3.27;2.96	3.23	-2.64	0.06114	Winged helix-turn-helix transcription repressor DNA-binding (1);	1.393840	0.04956	N	0.461273	T	0.08044	0.0201	N	0.14661	0.345	0.09310	N	1	B;B;B;B	0.24426	0.103;0.006;0.02;0.006	B;B;B;B	0.21360	0.034;0.002;0.003;0.002	T	0.33420	-0.9869	10	0.02654	T	1	-0.6611	8.1512	0.31141	0.7008:0.0:0.2992:0.0	.	8;8;8;8	F5GYT1;A2RRL9;A2A2F7;Q9H171	.;.;.;ZBP1_HUMAN	L	8	ENSP00000360215:P8L;ENSP00000379167:P8L;ENSP00000344954:P8L;ENSP00000340584:P8L;ENSP00000440552:P8L	ENSP00000344954:P8L	P	-	2	0	ZBP1	55628735	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.330000	0.07925	-0.567000	0.06046	-1.141000	0.01876	CCG		0.587	ZBP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079849.1	NM_030776		A	56195329	G	A	56195329	3	1	615	1	0	0	0	0	1	0	0	0	17533	1116	39	1	1375	1	ZBP1	20	56195329	Missense_Mutation	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	14105733	56195329	6830191	99	37548										
SMTN	6525	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	31484747	31484747	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gctgccatccgccgtgtacgGgctcaggagattgagggtat	15	10	1	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr22:31484747G>C	ENST00000347557.2	+	5	575	c.357G>C	c.(355-357)cgG>cgC	p.R119R	SMTN_ENST00000358743.1_Silent_p.R119R|SMTN_ENST00000333137.7_Silent_p.R119R	NM_001207017.1|NM_006932.4	NP_001193946.1|NP_008863.3	P53814	SMTN_HUMAN	smoothelin	119					muscle organ development (GO:0007517)|smooth muscle contraction (GO:0006939)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)	actin binding (GO:0003779)|structural constituent of muscle (GO:0008307)			breast(2)|endometrium(2)|large_intestine(5)|lung(9)|ovary(3)|pancreas(1)|prostate(3)	25						GCCGTGTACGGGCTCAGGAGA	0.632											OREG0026472	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													75	63	67					22																	31484747		2202	4300	6502	SO:0001819	synonymous_variant	6525			AY061972	CCDS13886.1, CCDS13887.1, CCDS13888.1, CCDS74845.1, CCDS74846.1	22q12	2006-01-27			ENSG00000183963	ENSG00000183963			11126	protein-coding gene	gene with protein product		602127				9244445, 8707825	Standard	NM_006932		Approved		uc011ale.2	P53814	OTTHUMG00000151203	ENST00000347557.2:c.357G>C	22.37:g.31484747G>C		Somatic	825	WXS	Illumina HiSeq	Phase_I	O00569|O95769|O95937|Q8N4H8|Q8WWW1|Q8WWW2|Q9P1S8|Q9UIT1|Q9UIT2	Silent	SNP	ENST00000347557.2	37	CCDS13886.1	.	.	.	.	.	.	.	.	.	.	G	5.557	0.287703	0.10513	.	.	ENSG00000183963	ENST00000438223	.	.	.	4.79	1.3	0.21679	.	.	.	.	.	T	0.43055	0.1230	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.26744	-1.0094	4	.	.	.	-19.7875	1.9964	0.03457	0.2418:0.1338:0.4874:0.137	.	.	.	.	R	174	.	.	G	+	1	0	SMTN	29814747	1.000000	0.71417	0.975000	0.42487	0.527000	0.34593	0.687000	0.25407	0.543000	0.28864	0.655000	0.94253	GGC		0.632	SMTN-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000321766.1	NM_134270		C	31484747	G	C	31484747	2	2	615	1	0	0	0	0	0	0	0	1	14827	1219	43	4		4	SMTN	22	31484747	Silent	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10		31484747	19819819	100	37549										
RAC2	5880	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	37627391	37627391	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	cttggtgcccaccaggatgaTgggtgtgctggggcagtggt	18	8	0	1			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chr22:37627391T>A	ENST00000249071.6	-	5	449	c.328A>T	c.(328-330)Atc>Ttc	p.I110F	RAC2_ENST00000405484.1_Missense_Mutation_p.I103F|RAC2_ENST00000406508.1_Missense_Mutation_p.I66F	NM_002872.3	NP_002863.1	P15153	RAC2_HUMAN	ras-related C3 botulinum toxin substrate 2 (rho family, small GTP binding protein Rac2)	110					actin filament organization (GO:0007015)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|bone resorption (GO:0045453)|cell projection assembly (GO:0030031)|G-protein coupled receptor signaling pathway (GO:0007186)|lymphocyte aggregation (GO:0071593)|platelet activation (GO:0030168)|positive regulation of cell proliferation (GO:0008284)|positive regulation of lamellipodium assembly (GO:0010592)|positive regulation of neutrophil chemotaxis (GO:0090023)|regulation of cell-substrate adhesion (GO:0010810)|regulation of hydrogen peroxide metabolic process (GO:0010310)|regulation of neutrophil migration (GO:1902622)|regulation of respiratory burst (GO:0060263)|regulation of small GTPase mediated signal transduction (GO:0051056)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|nuclear envelope (GO:0005635)|plasma membrane (GO:0005886)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			breast(3)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|skin(2)|upper_aerodigestive_tract(1)	12					Dextromethorphan(DB00514)	ACCAGGATGATGGGTGTGCTG	0.632																																																0													91	78	83					22																	37627391		2203	4300	6503	SO:0001583	missense	5880			M64595	CCDS13945.1	22q13.1	2014-09-17			ENSG00000128340	ENSG00000128340		"Endogenous ligands"	9802	protein-coding gene	gene with protein product		602049				2674130	Standard	NM_002872		Approved	EN-7	uc003arc.3	P15153	OTTHUMG00000150540	ENST00000249071.6:c.328A>T	22.37:g.37627391T>A	ENSP00000249071:p.Ile110Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UDJ4	Missense_Mutation	SNP	ENST00000249071.6	37	CCDS13945.1	.	.	.	.	.	.	.	.	.	.	T	20.4	3.992414	0.74703	.	.	ENSG00000128340	ENST00000249071;ENST00000406508;ENST00000405484;ENST00000441619	T;T;T;T	0.72725	-0.68;-0.68;-0.68;-0.68	4.98	4.98	0.66077	Small GTP-binding protein domain (1);	0.000000	0.85682	D	0.000000	T	0.68467	0.3004	L	0.47190	1.495	0.80722	D	1	B	0.22746	0.074	B	0.36030	0.216	T	0.63554	-0.6611	10	0.22109	T	0.4	.	14.9666	0.71198	0.0:0.0:0.0:1.0	.	110	P15153	RAC2_HUMAN	F	110;66;103;110	ENSP00000249071:I110F;ENSP00000385270:I66F;ENSP00000385590:I103F;ENSP00000403778:I110F	ENSP00000249071:I110F	I	-	1	0	RAC2	35957337	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	8.040000	0.89188	2.003000	0.58678	0.459000	0.35465	ATC		0.632	RAC2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318812.1			A	37627391	T	A	37627391	3	1	615	1	0	0	0	0	1	0	0	0	12988	1464	51	5	258	5	RAC2	22	37627391	Missense_Mutation	SNP	T	TCGA-IA-A40Y-01A-11D-A25F-10	6142644	37627391	13677175	101	37550										
SEPT6	23157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	118797595	118797595	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	gctccccttcgaatttggtgTtgaacagggtgtccatgagg	13	9	0	2			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chrX:118797595T>A	ENST00000343984.5	-	3	455	c.191A>T	c.(190-192)aAc>aTc	p.N64I	SEPT6_ENST00000394610.1_Missense_Mutation_p.N64I|SEPT6_ENST00000354228.4_Missense_Mutation_p.N64I|SEPT6_ENST00000394617.2_Missense_Mutation_p.N94I|SEPT6_ENST00000394616.4_Missense_Mutation_p.N6I|SEPT6_ENST00000489216.1_Missense_Mutation_p.N64I|SEPT6_ENST00000360156.7_Missense_Mutation_p.N64I|SEPT6_ENST00000354416.3_Missense_Mutation_p.N64I	NM_015129.5	NP_055944.2	Q14141	SEPT6_HUMAN	septin 6	64	Septin-type G.				cytokinesis (GO:0000910)|viral process (GO:0016032)	axon terminus (GO:0043679)|kinetochore (GO:0000776)|septin complex (GO:0031105)|synaptic vesicle (GO:0008021)	GTP binding (GO:0005525)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(7)|ovary(1)|prostate(3)	17						GAATTTGGTGTTGAACAGGGT	0.502			T	MLL	AML																																		Dom	yes		X	Xq24	23157	septin 6		L	0													213	198	203					X																	118797595		2203	4300	6503	SO:0001583	missense	23157			D50918	CCDS14583.1, CCDS14584.1, CCDS14585.1	Xq24	2013-01-21			ENSG00000125354	ENSG00000125354		"Septins"	15848	protein-coding gene	gene with protein product		300683				8590280, 10744683	Standard	NM_015129		Approved	KIAA0128, SEP2, SEPT2, MGC16619, MGC20339	uc004erv.3	Q14141	OTTHUMG00000022280	ENST00000343984.5:c.191A>T	X.37:g.118797595T>A	ENSP00000341524:p.Asn64Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JTK0|Q969W5|Q96A13|Q96GR1|Q96P86|Q96P87	Missense_Mutation	SNP	ENST00000343984.5	37	CCDS14584.1	.	.	.	.	.	.	.	.	.	.	t	21.9	4.214865	0.79352	.	.	ENSG00000125354	ENST00000360156;ENST00000354228;ENST00000489216;ENST00000354416;ENST00000394610;ENST00000343984;ENST00000394616;ENST00000394617;ENST00000520510	T;T;T;T;T;T;D;T	0.81739	1.28;1.28;1.28;1.28;1.28;1.28;-1.53;1.28	4.47	4.47	0.54385	.	0.081767	0.85682	D	0.000000	D	0.91415	0.7291	H	0.94925	3.6	0.80722	D	1	D;P;D;D	0.60575	0.973;0.922;0.961;0.988	P;P;P;D	0.67548	0.894;0.908;0.864;0.952	D	0.93282	0.6661	10	0.72032	D	0.01	.	12.648	0.56746	0.0:0.0:0.0:1.0	.	94;6;64;64	F5H1J5;B4E049;Q14141;Q548C9	.;.;SEPT6_HUMAN;.	I	64;64;64;64;64;64;6;94;64	ENSP00000353278:N64I;ENSP00000346169:N64I;ENSP00000418715:N64I;ENSP00000346397:N64I;ENSP00000378108:N64I;ENSP00000341524:N64I;ENSP00000378114:N6I;ENSP00000378115:N94I	ENSP00000341524:N64I	N	-	2	0	SEPT6	118681623	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.649000	0.83500	1.736000	0.51660	0.483000	0.47432	AAC		0.502	SEPT6-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000058059.1	NM_145802		A	118797595	T	A	118797595	3	1	615	1	0	0	0	0	1	0	0	0	14081	1725	60	5	1167	5	SEPT6	23	118797595	Missense_Mutation	SNP	T	TCGA-IA-A40Y-01A-11D-A25F-10		118797595	36472965	102	37551										
FATE1	89885	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	150889896	150889896	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.116504854368932	12	1	1.45846367744178	2.08825481088255	1.12052697169307	1	1	0	ctgccaaagcccagaatgctGagagaatcaggccatgggga	13	10	1	3			TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	g.chrX:150889896G>A	ENST00000370350.3	+	3	349	c.264G>A	c.(262-264)ctG>ctA	p.L88L		NM_033085.2	NP_149076.1	Q969F0	FATE1_HUMAN	fetal and adult testis expressed 1	88						endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)				NS(1)|breast(1)|cervix(1)|endometrium(3)|large_intestine(2)|lung(6)|ovary(1)	15	Acute lymphoblastic leukemia(192;6.56e-05)					CCAGAATGCTGAGAGAATCAG	0.542																																																0													94	79	84					X																	150889896		2203	4300	6503	SO:0001819	synonymous_variant	89885			AF249872	CCDS14700.1	Xq28	2009-03-25			ENSG00000147378	ENSG00000147378			24683	protein-coding gene	gene with protein product	"cancer/testis antigen 43"	300450				11694338	Standard	NM_033085		Approved	FATE, CT43	uc004fex.3	Q969F0	OTTHUMG00000024172	ENST00000370350.3:c.264G>A	X.37:g.150889896G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000370350.3	37	CCDS14700.1																																																																																				0.542	FATE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060885.1	NM_033085		A	150889896	G	A	150889896	2	1	615	1	0	0	0	0	0	0	0	1	5700	1277	45	2		2	FATE1	23	150889896	Silent	SNP	G	TCGA-IA-A40Y-01A-11D-A25F-10	32092301	150889896	4380664	103	37552										
RSC1A1	6248	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	15987648	15987648	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tatcagtggagacagaaaaaTtaacaggtacttcatctgac	8	7	3	3			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr1:15987648T>C	ENST00000345034.1	+	1	1285	c.1285T>C	c.(1285-1287)Tta>Cta	p.L429L	DDI2_ENST00000480945.1_3'UTR	NM_006511.1	NP_006502.1	Q92681	RSCA1_HUMAN	regulatory solute carrier protein, family 1, member 1	429					intestinal absorption (GO:0050892)|negative regulation of transport (GO:0051051)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)|transport (GO:0006810)	brush border (GO:0005903)|cell junction (GO:0030054)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ion channel inhibitor activity (GO:0008200)			kidney(1)|large_intestine(3)|lung(6)|ovary(1)	11		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)		GACAGAAAAATTAACAGGTAC	0.433																																																0													51	51	51					1																	15987648		2203	4300	6503	SO:0001819	synonymous_variant	6248			BN000122, X82877	CCDS161.1	1p36.1	1998-08-25			ENSG00000215695	ENSG00000215695			10458	protein-coding gene	gene with protein product		601966					Standard	NM_006511		Approved	RS1	uc010obn.2	Q92681	OTTHUMG00000067830	ENST00000345034.1:c.1285T>C	1.37:g.15987648T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBP5	Silent	SNP	ENST00000345034.1	37	CCDS161.1																																																																																				0.433	RSC1A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000145500.1	NM_006511		C	15987648	T	C	15987648	2	2	616	1	0	0	0	0	0	0	0	1	13711	1490	52	3		3	RSC1A1	1	15987648	Silent	SNP	T	TCGA-IZ-8195-01A-31D-2396-08		15987648	233262973	1	37553										
NCDN	23154	hgsc.bcm.edu	37	chr1	36026434	36026444	+	Frame_Shift_Del	DEL	GATTTCCAGAA	GATTTCCAGAA	-													0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tgttgcggggcctcagtgagGatttccagaaagctgaggat							TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	GATTTCCAGAA	GATTTCCAGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr1:36026434_36026444delGATTTCCAGAA	ENST00000373243.2	+	3	1065_1075	c.682_692delGATTTCCAGAA	c.(682-693)gatttccagaaafs	p.DFQK228fs	NCDN_ENST00000356090.4_Frame_Shift_Del_p.DFQK228fs|NCDN_ENST00000459931.1_3'UTR|NCDN_ENST00000373253.3_Frame_Shift_Del_p.DFQK211fs	NM_014284.2	NP_055099.1	Q9UBB6	NCDN_HUMAN	neurochondrin	228					bone resorption (GO:0045453)|neuron projection development (GO:0031175)|regulation of neuronal synaptic plasticity (GO:0048168)	cytosol (GO:0005829)|dendrite (GO:0030425)|membrane (GO:0016020)|neuronal cell body (GO:0043025)				breast(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(3)|pancreas(1)|skin(2)	16		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CCTCAGTGAGGATTTCCAGAAAGCTGAGGAT	0.654																																																0																																										SO:0001589	frameshift_variant	23154			AB011179	CCDS392.1, CCDS30672.1	1p34.3	2008-02-05			ENSG00000020129	ENSG00000020129			17597	protein-coding gene	gene with protein product		608458				15007648	Standard	NM_014284		Approved	NCDN-1, NCDN-2	uc001bza.3	Q9UBB6	OTTHUMG00000059204	ENST00000373243.2:c.682_692delGATTTCCAGAA	1.37:g.36026434_36026444delGATTTCCAGAA	ENSP00000362340:p.Asp228fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPR9|Q9UBY2|Q9Y4A6|Q9Y4D9	Frame_Shift_Del	DEL	ENST00000373243.2	37	CCDS392.1																																																																																				0.654	NCDN-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131298.1	NM_014284		-	36026444	GATTTCCAGAA	-	36026434	7	5	616	1	0	1	0	1	0	0	0	0	10221	1174	41	0	692	0	NCDN	1	36026434	Frame_Shift_Del	DEL	GATTTCCAGAA	TCGA-IZ-8195-01A-31D-2396-08	20038786	36026434	213224187	2	37554										
PGM1	5236	hgsc.bcm.edu;broad.mit.edu	37	chr1	64117371	64117371	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	aggaggtggaagctgagggcGcaaacaaaatgatgaaggac	16	5	0	3	rs201303497		TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr1:64117371G>A	ENST00000371084.3	+	9	1525	c.1312G>A	c.(1312-1314)Gca>Aca	p.A438T	PGM1_ENST00000540265.1_Missense_Mutation_p.A241T|PGM1_ENST00000483707.1_3'UTR|PGM1_ENST00000371083.4_Missense_Mutation_p.A456T	NM_002633.2	NP_002624.2	P36871	PGM1_HUMAN	phosphoglucomutase 1	438					carbohydrate metabolic process (GO:0005975)|galactose catabolic process (GO:0019388)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|glycogen biosynthetic process (GO:0005978)|glycogen catabolic process (GO:0005980)|glycolytic process (GO:0006096)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	magnesium ion binding (GO:0000287)|phosphoglucomutase activity (GO:0004614)			breast(3)|endometrium(1)|kidney(1)|large_intestine(4)|lung(6)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	20						AGCTGAGGGCGCAAACAAAAT	0.512													G|||	1	0.000199681	0.0008	0.0	5008	,	,		17958	0.0		0.0	False		,,,				2504	0.0															0													136	130	132					1																	64117371		2203	4300	6503	SO:0001583	missense	5236			BC019920	CCDS625.1, CCDS53323.1, CCDS53324.1	1p22.1	2012-10-02			ENSG00000079739	ENSG00000079739	5.4.2.2		8905	protein-coding gene	gene with protein product		171900				4517931, 1530890	Standard	NM_002633		Approved		uc010ooz.2	P36871	OTTHUMG00000008968	ENST00000371084.3:c.1312G>A	1.37:g.64117371G>A	ENSP00000360125:p.Ala438Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5N9|B4DPV0|Q16105|Q16106|Q5BKZ9|Q6NW22|Q86U74|Q96J40|Q9NTY4	Missense_Mutation	SNP	ENST00000371084.3	37	CCDS625.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	G	27.4	4.830886	0.91036	.	.	ENSG00000079739	ENST00000538673;ENST00000371084;ENST00000540265;ENST00000371083	T;T;T	0.49139	0.79;0.79;0.79	5.69	4.78	0.61160	.	0.000000	0.85682	D	0.000000	T	0.64768	0.2628	M	0.92555	3.32	0.47037	D	0.999295	D;P	0.76494	0.999;0.94	P;B	0.57776	0.827;0.306	T	0.75422	-0.3323	10	0.56958	D	0.05	-42.0023	15.1823	0.72968	0.0679:0.0:0.9321:0.0	.	456;438	P36871-2;P36871	.;PGM1_HUMAN	T	414;438;241;456	ENSP00000360125:A438T;ENSP00000443449:A241T;ENSP00000360124:A456T	ENSP00000360124:A456T	A	+	1	0	PGM1	63889959	1.000000	0.71417	0.265000	0.24526	0.910000	0.53928	9.813000	0.99286	1.540000	0.49301	0.655000	0.94253	GCA		0.512	PGM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000024868.1	NM_002633		A	64117371	G	A	64117371	3	1	616	1	0	0	0	0	1	0	0	0	11804	1087	38	1	1650	1	PGM1	1	64117371	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	28090937	64117371	185133250	3	37555										
AMY1A	276	hgsc.bcm.edu	37	chr1	104203011	104203011	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	agaaggttggggtttcatgcCttctgacagagcgcttgtct	13	8	3	3			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr1:104203011C>T	ENST00000370083.4	+	7	1128	c.908C>T	c.(907-909)cCt>cTt	p.P303L		NM_001008221.1|NM_004038.3	NP_001008222.1|NP_004029.2	P04745	AMY1_HUMAN	amylase, alpha 1A (salivary)	303					carbohydrate metabolic process (GO:0005975)|digestion (GO:0007586)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	alpha-amylase activity (GO:0004556)|metal ion binding (GO:0046872)						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)		GGTTTCATGCCTTCTGACAGA	0.423																																					Pancreas(131;743 2392 43382 44986)											0													13	14	13					1																	104203011		1525	3443	4968	SO:0001583	missense	276				CCDS30782.1	1p21	2012-10-02	2007-05-03		ENSG00000237763	ENSG00000237763	3.2.1.1		474	protein-coding gene	gene with protein product		104700	"amylase, alpha 1A; salivary"	AMY1			Standard	XM_005270755		Approved		uc001duv.3	P04745	OTTHUMG00000011020	ENST00000370083.4:c.908C>T	1.37:g.104203011C>T	ENSP00000359100:p.Pro303Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJS5|A8K8H6|Q13763|Q5T083	Missense_Mutation	SNP	ENST00000370083.4	37	CCDS30782.1	.	.	.	.	.	.	.	.	.	.	c	16.08	3.022827	0.54683	.	.	ENSG00000237763	ENST00000370083	D	0.98012	-4.66	2.38	2.38	0.29361	Glycoside hydrolase, subgroup, catalytic domain (1);Glycosyl hydrolase, family 13, catalytic domain (1);Glycoside hydrolase, superfamily (1);Glycosyl hydrolase, family 13, subfamily, catalytic domain (1);	0.177118	0.51477	D	0.000100	D	0.97461	0.9169	.	.	.	0.80722	D	1	D	0.54772	0.968	P	0.56648	0.803	D	0.97391	0.9989	9	0.87932	D	0	.	12.3897	0.55352	0.0:1.0:0.0:0.0	.	303	P04745	AMY1_HUMAN	L	303	ENSP00000359100:P303L	ENSP00000359100:P303L	P	+	2	0	AMY1A	104004534	1.000000	0.71417	0.993000	0.49108	0.426000	0.31534	5.529000	0.67135	1.150000	0.42419	0.184000	0.17185	CCT		0.423	AMY1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030304.2	NM_001008221		T	104203011	C	T	104203011	3	4	616	1	0	0	0	0	1	0	0	0	591	681	24	2	930	2	AMY1A	1	104203011	Missense_Mutation	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	40085640	104203011	145047610	4	37556										
CELSR2	1952	hgsc.bcm.edu	37	chr1	109792762	109792762	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	cgccgccgctgctgctgctgTtgctgctgctgctgccgccg	14	17	0	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr1:109792762T>C	ENST00000271332.3	+	1	122	c.61T>C	c.(61-63)Ttg>Ctg	p.L21L		NM_001408.2	NP_001399.1	Q9HCU4	CELR2_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 2	21					cerebrospinal fluid secretion (GO:0033326)|cilium assembly (GO:0042384)|cilium movement (GO:0003341)|dendrite morphogenesis (GO:0048813)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|neural plate anterior/posterior regionalization (GO:0021999)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|regulation of cell-cell adhesion (GO:0022407)|regulation of protein localization (GO:0032880)|regulation of transcription, DNA-templated (GO:0006355)|ventricular system development (GO:0021591)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|cervix(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(14)|lung(27)|ovary(5)|prostate(1)|skin(3)|urinary_tract(2)	82		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)		gctgctgctgttgctgctgct	0.746																																					NSCLC(158;1285 2011 34800 34852 42084)											0													9	11	11					1																	109792762		1973	3925	5898	SO:0001819	synonymous_variant	1952			D87469	CCDS796.1	1p13.3	2014-08-08	2013-02-18		ENSG00000143126	ENSG00000143126		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	3231	protein-coding gene	gene with protein product		604265	"cadherin, EGF LAG seven-pass G-type receptor 2, flamingo (Drosophila) homolog"	EGFL2		9693030, 10907856	Standard	NM_001408		Approved	KIAA0279, MEGF3, Flamingo1, CDHF10	uc001dxa.4	Q9HCU4	OTTHUMG00000012003	ENST00000271332.3:c.61T>C	1.37:g.109792762T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T2Y7|Q92566	Silent	SNP	ENST00000271332.3	37	CCDS796.1																																																																																				0.746	CELSR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033200.1	NM_001408		C	109792762	T	C	109792762	2	2	616	1	0	0	0	0	0	0	0	1	3224	1722	60	3		3	CELSR2	1	109792762	Silent	SNP	T	TCGA-IZ-8195-01A-31D-2396-08	5589751	109792762	139457859	5	37557										
CAPZA1	829	hgsc.bcm.edu	37	chr1	113202331	113202331	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gtgttttaataggaatggtcGttggagatcagagtggaagt	15	2	1	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr1:113202331G>A	ENST00000263168.3	+	7	1187	c.515G>A	c.(514-516)cGt>cAt	p.R172H	CAPZA1_ENST00000476936.1_3'UTR	NM_006135.2	NP_006126.1	P52907	CAZA1_HUMAN	capping protein (actin filament) muscle Z-line, alpha 1	172					actin cytoskeleton organization (GO:0030036)|actin filament capping (GO:0051693)|blood coagulation (GO:0007596)|cellular component movement (GO:0006928)|innate immune response (GO:0045087)|protein complex assembly (GO:0006461)	actin cytoskeleton (GO:0015629)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|F-actin capping protein complex (GO:0008290)|WASH complex (GO:0071203)	actin binding (GO:0003779)			breast(1)|kidney(2)|large_intestine(2)|lung(3)|prostate(1)	9	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGGAATGGTCGTTGGAGATCA	0.438																																																0													95	88	91					1																	113202331		2203	4300	6503	SO:0001583	missense	829			U56637	CCDS30805.1	1p13.2	2014-05-09			ENSG00000116489	ENSG00000116489			1488	protein-coding gene	gene with protein product		601580				7665558, 9119363	Standard	NM_006135		Approved		uc001ecj.1	P52907	OTTHUMG00000011769	ENST00000263168.3:c.515G>A	1.37:g.113202331G>A	ENSP00000263168:p.Arg172His	Somatic		WXS	Illumina HiSeq	Phase_I	Q53FQ6|Q6FHD5	Missense_Mutation	SNP	ENST00000263168.3	37	CCDS30805.1	.	.	.	.	.	.	.	.	.	.	G	36	5.611435	0.96637	.	.	ENSG00000116489	ENST00000263168	.	.	.	5.49	5.49	0.81192	.	0.000000	0.85682	D	0.000000	T	0.73908	0.3647	M	0.68317	2.08	0.80722	D	1	D	0.76494	0.999	D	0.70935	0.971	T	0.72600	-0.4244	9	0.48119	T	0.1	-28.1951	19.3394	0.94335	0.0:0.0:1.0:0.0	.	172	P52907	CAZA1_HUMAN	H	172	.	ENSP00000263168:R172H	R	+	2	0	CAPZA1	113003854	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	9.776000	0.99001	2.739000	0.93911	0.655000	0.94253	CGT		0.438	CAPZA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032567.2	NM_006135		A	113202331	G	A	113202331	3	1	616	1	0	0	0	0	1	0	0	0	2642	1145	40	1	541	1	CAPZA1	1	113202331	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	3409569	113202331	136048290	6	37558										
KIAA1614	57710	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	180885553	180885553	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	acagggagtgagtccctgctCtgcttcccaagagtggtcat	12	11	2	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr1:180885553C>T	ENST00000367588.4	+	2	369	c.314C>T	c.(313-315)tCt>tTt	p.S105F		NM_020950.1	NP_066001.1	Q5VZ46	K1614_HUMAN	KIAA1614	105										NS(1)|endometrium(5)|kidney(2)|large_intestine(2)|lung(12)|ovary(5)|pancreas(1)|prostate(1)|skin(3)|urinary_tract(1)	33						AGTCCCTGCTCTGCTTCCCAA	0.587																																																0													80	89	86					1																	180885553		2038	4181	6219	SO:0001583	missense	57710			AB046834	CCDS41442.1	1q25.3	2008-02-05			ENSG00000135835	ENSG00000135835			29327	protein-coding gene	gene with protein product							Standard	NM_020950		Approved		uc001gok.2	Q5VZ46	OTTHUMG00000035183	ENST00000367588.4:c.314C>T	1.37:g.180885553C>T	ENSP00000356560:p.Ser105Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VZ45|Q9HCF8	Missense_Mutation	SNP	ENST00000367588.4	37	CCDS41442.1	.	.	.	.	.	.	.	.	.	.	C	9.289	1.050241	0.19827	.	.	ENSG00000135835	ENST00000367588	T	0.05580	3.42	4.87	1.69	0.24217	.	1.482150	0.04336	N	0.353230	T	0.03695	0.0105	N	0.08118	0	0.29690	N	0.841037	B	0.23735	0.09	B	0.20955	0.032	T	0.40905	-0.9538	9	0.37606	T	0.19	-0.5476	3.0596	0.06195	0.2088:0.5355:0.0:0.2557	.	105	Q5VZ46	K1614_HUMAN	F	105	ENSP00000356560:S105F	ENSP00000356560:S105F	S	+	2	0	KIAA1614	179152176	0.000000	0.05858	0.001000	0.08648	0.004000	0.04260	0.043000	0.13971	0.143000	0.18926	0.655000	0.94253	TCT		0.587	KIAA1614-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000085151.1	XM_046531		T	180885553	C	T	180885553	3	4	616	1	0	0	0	0	1	0	0	0	8255	913	32	2	320	2	KIAA1614	1	180885553	Missense_Mutation	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	67683222	180885553	68365068	7	37559										
C1orf25	81627	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	185094118	185094118	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tgcatgaattgaaaactgacTttgaggcgtacactctgatt	9	7	1	5			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr1:185094118T>A	ENST00000367506.5	-	12	1985	c.1717A>T	c.(1717-1719)Agt>Tgt	p.S573C	TRMT1L_ENST00000367504.3_3'UTR	NM_001202423.1|NM_030934.4	NP_001189352.1|NP_112196.3	Q7Z2T5	TRM1L_HUMAN	tRNA methyltransferase 1 homolog (S. cerevisiae)-like	573	Trm1 methyltransferase. {ECO:0000255|PROSITE-ProRule:PRU00958}.				adult locomotory behavior (GO:0008344)		metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|tRNA (guanine-N2-)-methyltransferase activity (GO:0004809)|tRNA binding (GO:0000049)			NS(1)|breast(1)|endometrium(3)|kidney(2)|large_intestine(2)|lung(8)|ovary(1)|pancreas(1)|skin(1)|urinary_tract(1)	21						GAAAACTGACTTTGAGGCGTA	0.358																																																0													143	134	137					1																	185094118		2203	4300	6503	SO:0001583	missense	81627			AF288399	CCDS1366.1	1q25.2	2012-06-29	2012-06-29	2011-01-24	ENSG00000121486	ENSG00000121486			16782	protein-coding gene	gene with protein product	"TRM1-like"	611673	"chromosome 1 open reading frame 25", "TRM1 tRNA methyltransferase 1-like"	C1orf25		11318611, 17198746	Standard	NM_030934		Approved		uc001grf.4	Q7Z2T5	OTTHUMG00000035389	ENST00000367506.5:c.1717A>T	1.37:g.185094118T>A	ENSP00000356476:p.Ser573Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TEN0|Q6ZMX0|Q8IWH5|Q8NC68|Q9BZQ1	Missense_Mutation	SNP	ENST00000367506.5	37	CCDS1366.1	.	.	.	.	.	.	.	.	.	.	T	18.22	3.575763	0.65878	.	.	ENSG00000121486	ENST00000367506;ENST00000458395	.	.	.	4.79	4.79	0.61399	.	0.178960	0.64402	D	0.000016	T	0.44829	0.1312	N	0.08118	0	0.80722	D	1	D	0.56287	0.975	P	0.53689	0.732	T	0.49818	-0.8899	9	0.38643	T	0.18	-18.1595	14.6174	0.68558	0.0:0.0:0.0:1.0	.	573	Q7Z2T5	TRM1L_HUMAN	C	573;197	.	ENSP00000356476:S573C	S	-	1	0	TRMT1L	183360741	1.000000	0.71417	1.000000	0.80357	0.953000	0.61014	6.348000	0.73009	1.935000	0.56089	0.477000	0.44152	AGT		0.358	TRMT1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085787.1	NM_030934		A	185094118	T	A	185094118	3	1	616	1	0	0	0	0	1	0	0	0	2036	1609	56	5	500	5	C1orf25	1	185094118	Missense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08	4208565	185094118	64156503	8	37560										
CABC1	56997	hgsc.bcm.edu	37	chr1	227169815	227169815	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gctctgcaaggtgcgtggtgCggcactcaagctgggccaga	16	11	2	1	rs368872986		TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr1:227169815C>T	ENST00000366779.1	+	11	3589	c.818C>T	c.(817-819)gCg>gTg	p.A273V	ADCK3_ENST00000458507.2_5'UTR|ADCK3_ENST00000366777.3_Missense_Mutation_p.A273V|ADCK3_ENST00000366778.1_Missense_Mutation_p.A221V|ADCK3_ENST00000478406.1_3'UTR|ADCK3_ENST00000433743.2_5'UTR			Q8NI60	ADCK3_HUMAN	aarF domain containing kinase 3	273					cell death (GO:0008219)|ubiquinone biosynthetic process (GO:0006744)	mitochondrion (GO:0005739)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			endometrium(1)|kidney(2)|large_intestine(1)|prostate(1)|skin(1)|stomach(1)|urinary_tract(2)	9						GTGCGTGGTGCGGCACTCAAG	0.682																																																0								C	VAL/ALA	0,4400		0,0,2200	25	23	24		818	5.1	0.9	1		24	1,8591		0,1,4295	no	missense	ADCK3	NM_020247.4	64	0,1,6495	TT,TC,CC		0.0116,0.0,0.0077	possibly-damaging	273/648	227169815	1,12991	2200	4296	6496	SO:0001583	missense	56997			AJ278126	CCDS1557.1	1q42.11	2011-05-03	2010-10-01	2010-10-01	ENSG00000163050	ENSG00000163050			16812	protein-coding gene	gene with protein product	"coenzyme Q8 homolog (yeast)"	606980	"chaperone-ABC1 (activity of bc1 complex, S.pombe)-like", "chaperone, ABC1 activity of bc1 complex like (S. pombe)", "chaperone, ABC1 activity of bc1 complex homolog (S. pombe)"	CABC1			Standard	NM_020247		Approved	COQ8, SCAR9	uc001hqn.1	Q8NI60	OTTHUMG00000037621	ENST00000366779.1:c.818C>T	1.37:g.227169815C>T	ENSP00000355741:p.Ala273Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T7A5|Q63HK0|Q8NCJ6|Q9HBQ1|Q9NQ67	Missense_Mutation	SNP	ENST00000366779.1	37	CCDS1557.1	.	.	.	.	.	.	.	.	.	.	C	33	5.203948	0.95033	0.0	1.16E-4	ENSG00000163050	ENST00000366779;ENST00000366778;ENST00000366777;ENST00000366776;ENST00000366775;ENST00000405743	T;T;T;T;T	0.76316	-0.88;-0.86;-0.88;-1.01;-1.0	5.1	5.1	0.69264	.	0.052474	0.85682	D	0.000000	D	0.89480	0.6727	M	0.89968	3.075	0.80722	D	1	D	0.76494	0.999	P	0.62184	0.899	D	0.91390	0.5134	10	0.59425	D	0.04	-27.9144	18.4947	0.90861	0.0:1.0:0.0:0.0	.	273	Q8NI60	ADCK3_HUMAN	V	273;221;273;198;118;224	ENSP00000355741:A273V;ENSP00000355740:A221V;ENSP00000355739:A273V;ENSP00000355738:A198V;ENSP00000355737:A118V	ENSP00000355737:A118V	A	+	2	0	ADCK3	225236438	1.000000	0.71417	0.941000	0.38009	0.495000	0.33615	7.705000	0.84606	2.378000	0.81104	0.491000	0.48974	GCG		0.682	ADCK3-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091712.1	NM_020247		T	227169815	C	T	227169815	3	4	616	1	0	0	0	0	1	0	0	0	2529	768	27	1	836	1	CABC1	1	227169815	Missense_Mutation	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	42075697	227169815	22080806	9	37561										
OBSCN	84033	hgsc.bcm.edu	37	chr1	228539078	228539078	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	caagttccagacactgagtgAgcctcgcagcggcctgctag	12	13	0	3			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr1:228539078A>G	ENST00000422127.1	+	78	18520	c.18476A>G	c.(18475-18477)gAg>gGg	p.E6159G	OBSCN_ENST00000366707.4_Missense_Mutation_p.E3793G|OBSCN_ENST00000570156.2_Missense_Mutation_p.E7116G|OBSCN_ENST00000284548.11_Missense_Mutation_p.E6159G|OBSCN_ENST00000366709.4_Missense_Mutation_p.E3278G	NM_001098623.2	NP_001092093.2	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF	6159	Ig-like 53.				apoptotic signaling pathway (GO:0097190)|multicellular organismal development (GO:0007275)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|protein localization to M-band (GO:0036309)|regulation of small GTPase mediated signal transduction (GO:0051056)|sarcomere organization (GO:0045214)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|M band (GO:0031430)|myofibril (GO:0030016)|Z disc (GO:0030018)	ankyrin binding (GO:0030506)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			NS(2)|breast(7)|central_nervous_system(5)|cervix(2)|endometrium(30)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(37)|lung(89)|ovary(8)|pancreas(3)|prostate(13)|skin(6)|stomach(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	223		Prostate(94;0.0405)				ACACTGAGTGAGCCTCGCAGC	0.652																																																0													30	37	35					1																	228539078		2092	4188	6280	SO:0001583	missense	84033			AJ002535	CCDS1570.2, CCDS58065.1, CCDS59204.1	1q42	2014-09-17			ENSG00000154358	ENSG00000154358		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	15719	protein-coding gene	gene with protein product		608616				11448995, 11814696	Standard	NM_001098623		Approved	KIAA1556, UNC89, KIAA1639, ARHGEF30	uc001hsq.2	Q5VST9	OTTHUMG00000039772	ENST00000422127.1:c.18476A>G	1.37:g.228539078A>G	ENSP00000409493:p.Glu6159Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q2A664|Q5T7G8|Q5T7G9|Q5VSU2|Q86YC7|Q8NHN0|Q8NHN1|Q8NHN2|Q8NHN3|Q8NHN4|Q8NHN5|Q8NHN6|Q8NHN7|Q8NHN8|Q8NHN9|Q96AA2|Q9HCD3|Q9HCL6	Missense_Mutation	SNP	ENST00000422127.1	37	CCDS58065.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	19.86|19.86	3.904910|3.904910	0.72868|0.72868	.|.	.|.	ENSG00000154358|ENSG00000154358	ENST00000284548;ENST00000422127;ENST00000366707;ENST00000366709|ENST00000441106	T;T;T;T|.	0.69306|.	-0.39;-0.39;-0.39;-0.39|.	5.34|5.34	5.34|5.34	0.76211|0.76211	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);|.	0.227351|.	0.34628|.	N|.	0.003818|.	T|.	0.59432|.	0.2193|.	L|L	0.39147|0.39147	1.195|1.195	0.53005|0.53005	D|D	0.999969|0.999969	D;D|.	0.56968|.	0.978;0.973|.	P;P|.	0.51974|.	0.686;0.559|.	T|.	0.56463|.	-0.7975|.	10|.	0.54805|.	T|.	0.06|.	.|.	15.305|15.305	0.73985|0.73985	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	6159;6159|.	Q5VST9;Q5VST9-3|.	OBSCN_HUMAN;.|.	G|W	6159;6159;3793;3278|775	ENSP00000284548:E6159G;ENSP00000409493:E6159G;ENSP00000355668:E3793G;ENSP00000355670:E3278G|.	ENSP00000284548:E6159G|.	E|X	+|+	2|3	0|0	OBSCN|OBSCN	226605701|226605701	1.000000|1.000000	0.71417|0.71417	0.912000|0.912000	0.35992|0.35992	0.006000|0.006000	0.05464|0.05464	8.760000|8.760000	0.91671|0.91671	2.040000|2.040000	0.60383|0.60383	0.402000|0.402000	0.26972|0.26972	GAG|TGA		0.652	OBSCN-204	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_052843		G	228539078	A	G	228539078	3	3	616	1	0	0	0	0	1	0	0	0	10819	304	11	3	18782	3	OBSCN	1	228539078	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	1369263	228539078	20711543	10	37562										
C1orf150	148823	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	247737622	247737622	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	aatatgcccttcttaggactTctgttagtaggccttgttcc	8	10	2	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr1:247737622T>C	ENST00000366488.4	+	5	450	c.346T>C	c.(346-348)Tct>Cct	p.S116P	GCSAML_ENST00000527541.1_Missense_Mutation_p.S84P|GCSAML_ENST00000536561.1_Missense_Mutation_p.S96P|GCSAML_ENST00000366491.2_Missense_Mutation_p.S96P|RP11-978I15.10_ENST00000446347.1_RNA|GCSAML_ENST00000527084.1_Missense_Mutation_p.S84P|RP11-978I15.10_ENST00000435333.1_RNA|GCSAML_ENST00000463359.1_Missense_Mutation_p.S84P|GCSAML_ENST00000366489.1_Missense_Mutation_p.S96P	NM_001281836.1|NM_001281837.1|NM_001281853.1|NM_145278.3	NP_001268765.1|NP_001268766.1|NP_001268782.1|NP_660321.1	Q5JQS6	GSAML_HUMAN	germinal center-associated, signaling and motility-like	116																	TCTTAGGACTTCTGTTAGTAG	0.433																																																0													154	129	137					1																	247737622		2203	4300	6503	SO:0001583	missense	148823			AK126682	CCDS1635.1, CCDS60470.1, CCDS73058.1	1q44	2012-08-23	2012-08-23	2012-08-23	ENSG00000169224	ENSG00000169224			29583	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 150"	C1orf150			Standard	NM_001281834		Approved	FLJ44728	uc001idf.3	Q5JQS6	OTTHUMG00000040648	ENST00000366488.4:c.346T>C	1.37:g.247737622T>C	ENSP00000355444:p.Ser116Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4Y5|B3KX46|Q5JQT3	Missense_Mutation	SNP	ENST00000366488.4	37	CCDS1635.1	.	.	.	.	.	.	.	.	.	.	T	10.44	1.350166	0.24512	.	.	ENSG00000169224	ENST00000527084;ENST00000527541;ENST00000366491;ENST00000366489;ENST00000463359;ENST00000366488;ENST00000536561	.	.	.	3.91	2.73	0.32206	.	1.484660	0.04639	N	0.405118	T	0.28830	0.0715	L	0.34521	1.04	0.09310	N	1	P	0.47677	0.899	P	0.45099	0.469	T	0.12091	-1.0561	9	0.02654	T	1	-1.0246	7.2357	0.26067	0.0:0.0:0.2272:0.7728	.	116	Q5JQS6	CA150_HUMAN	P	84;84;96;96;84;116;96	.	ENSP00000355444:S116P	S	+	1	0	C1orf150	245804245	0.001000	0.12720	0.001000	0.08648	0.338000	0.28826	0.818000	0.27295	0.638000	0.30545	0.482000	0.46254	TCT		0.433	GCSAML-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097745.4	NM_145278		C	247737622	T	C	247737622	3	2	616	1	0	0	0	0	1	0	0	0	2006	1783	62	3	364	3	C1orf150	1	247737622	Missense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08	19198544	247737622	1512999	11	37563										
OR2M2	391194	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	248344277	248344277	+	Frame_Shift_Del	DEL	A	A	-													0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gctaaattcttctttctaatAtccatctttttctatgatgt							TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr1:248344277delA	ENST00000359682.2	+	1	990	c.990delA	c.(988-990)atafs	p.I330fs		NM_001004688.1	NP_001004688.1	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M, member 2	330						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|autonomic_ganglia(1)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(45)|ovary(3)|prostate(1)|skin(3)	70	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)			TCTTTCTAATATCCATCTTTT	0.318																																																0													164	175	171					1																	248344277		2203	4300	6503	SO:0001589	frameshift_variant	391194			AF399616	CCDS31106.1	1q44	2012-08-09			ENSG00000198601	ENSG00000198601		"GPCR / Class A : Olfactory receptors"	8268	protein-coding gene	gene with protein product						12213199	Standard	NM_001004688		Approved	OST423, OR2M2Q	uc010pzf.2	Q96R28	OTTHUMG00000040460	ENST00000359682.2:c.990delA	1.37:g.248344277delA	ENSP00000352710:p.Ile330fs	Somatic		WXS	Illumina HiSeq	Phase_I	A3KFT4	Frame_Shift_Del	DEL	ENST00000359682.2	37	CCDS31106.1																																																																																				0.318	OR2M2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097356.2	NM_001004688		-	248344277	A	-	248344277	7	5	616	1	0	1	0	1	0	0	0	0	11017	439	16	0	992	0	OR2M2	1	248344277	Frame_Shift_Del	DEL	A	TCGA-IZ-8195-01A-31D-2396-08	606655	248344277	906344	12	37564										
ASAP2	8853	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	9528579	9528579	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gcatcttgcagaatgagactTacggagccctcctgagtggc	12	11	1	3			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr2:9528579T>C	ENST00000281419.3	+	22	2627	c.2287T>C	c.(2287-2289)Tac>Cac	p.Y763H	ASAP2_ENST00000315273.4_Missense_Mutation_p.Y763H|ASAP2_ENST00000491413.1_3'UTR	NM_003887.2	NP_003878.1	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH domain 2	763					positive regulation of catalytic activity (GO:0043085)|regulation of ARF GTPase activity (GO:0032312)	Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	ARF GTPase activator activity (GO:0008060)|enzyme activator activity (GO:0008047)|zinc ion binding (GO:0008270)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(6)|lung(15)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	36						GAATGAGACTTACGGAGCCCT	0.597																																																0													45	50	48					2																	9528579		2203	4300	6503	SO:0001583	missense	8853			AB007860	CCDS1661.1, CCDS46224.1	2p24	2013-01-10	2008-09-22	2008-09-22	ENSG00000151693	ENSG00000151693		"ADP-ribosylation factor GTPase activating proteins", "Pleckstrin homology (PH) domain containing", "Ankyrin repeat domain containing"	2721	protein-coding gene	gene with protein product	"centaurin, beta 3"	603817	"development and differentiation enhancing factor 2"	DDEF2		10022920, 9455477	Standard	NM_003887		Approved	KIAA0400, PAP, SHAG1, CENTB3	uc002qzh.2	O43150	OTTHUMG00000117485	ENST00000281419.3:c.2287T>C	2.37:g.9528579T>C	ENSP00000281419:p.Tyr763His	Somatic		WXS	Illumina HiSeq	Phase_I	D6W4Y8	Missense_Mutation	SNP	ENST00000281419.3	37	CCDS1661.1	.	.	.	.	.	.	.	.	.	.	T	19.33	3.806023	0.70682	.	.	ENSG00000151693	ENST00000281419;ENST00000315273	T;T	0.57436	0.41;0.4	5.58	5.58	0.84498	.	0.000000	0.85682	D	0.000000	T	0.66137	0.2759	L	0.49778	1.585	0.80722	D	1	D;D	0.89917	1.0;0.998	D;D	0.85130	0.997;0.915	T	0.61724	-0.7004	10	0.23891	T	0.37	.	15.7424	0.77910	0.0:0.0:0.0:1.0	.	763;763	O43150-2;O43150	.;ASAP2_HUMAN	H	763	ENSP00000281419:Y763H;ENSP00000316404:Y763H	ENSP00000281419:Y763H	Y	+	1	0	ASAP2	9446030	1.000000	0.71417	0.081000	0.20488	0.971000	0.66376	7.614000	0.82996	2.118000	0.64928	0.459000	0.35465	TAC		0.597	ASAP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000237522.1	NM_003887		C	9528579	T	C	9528579	3	2	616	1	0	0	0	0	1	0	0	0	1011	1754	61	3	2373	3	ASAP2	2	9528579	Missense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08		9528579	233670794	13	37565										
SLC4A1AP	22950	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	27888159	27888159	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	agatgggttgcacctggggaAtgggtaagaaattaaaattg	14	3	0	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr2:27888159A>G	ENST00000326019.6	+	2	1300	c.1018A>G	c.(1018-1020)Atg>Gtg	p.M340V	SUPT7L_ENST00000337768.5_5'Flank|SUPT7L_ENST00000406540.1_5'Flank|SUPT7L_ENST00000464789.2_5'Flank|SUPT7L_ENST00000404798.2_5'Flank|SUPT7L_ENST00000405491.1_5'Flank	NM_018158.2	NP_060628.2	Q9BWU0	NADAP_HUMAN	solute carrier family 4 (anion exchanger), member 1, adaptor protein	340						cytoplasm (GO:0005737)|nucleus (GO:0005634)				breast(2)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(6)|lung(9)|upper_aerodigestive_tract(1)	23	Acute lymphoblastic leukemia(172;0.155)					CACCTGGGGAATGGGTAAGAA	0.388																																																0													133	138	136					2																	27888159		2203	4300	6503	SO:0001583	missense	22950				CCDS33166.1	2p23.3	2010-03-11	2001-11-28		ENSG00000163798	ENSG00000163798			13813	protein-coding gene	gene with protein product	"lung cancer oncogene 3"	602655	"solute carrier family 4 (anion exchanger), member 1, adapter protein"			9422766	Standard	NM_018158		Approved	kanadaptin, HLC3	uc002rlk.4	Q9BWU0	OTTHUMG00000151944	ENST00000326019.6:c.1018A>G	2.37:g.27888159A>G	ENSP00000323837:p.Met340Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJ39|Q4KMT1|Q4KMX0|Q7Z5Q9|Q9NVN2	Missense_Mutation	SNP	ENST00000326019.6	37	CCDS33166.1	.	.	.	.	.	.	.	.	.	.	A	21.3	4.135945	0.77662	.	.	ENSG00000163798	ENST00000326019	T	0.51574	0.7	5.28	5.28	0.74379	.	0.000000	0.85682	D	0.000000	T	0.58921	0.2156	M	0.84948	2.725	0.80722	D	1	P	0.42010	0.768	B	0.43386	0.418	T	0.67821	-0.5571	10	0.72032	D	0.01	-17.2495	15.2303	0.73383	1.0:0.0:0.0:0.0	.	340	Q9BWU0	NADAP_HUMAN	V	340	ENSP00000323837:M340V	ENSP00000323837:M340V	M	+	1	0	SLC4A1AP	27741663	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	6.617000	0.74210	1.995000	0.58328	0.379000	0.24179	ATG		0.388	SLC4A1AP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324550.1	NM_018158		G	27888159	A	G	27888159	3	3	616	1	0	0	0	0	1	0	0	0	14666	101	4	3	1024	3	SLC4A1AP	2	27888159	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	18359580	27888159	215311214	14	37566										
GPR75	10936	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	54080607	54080607	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tttggagataacatgtaggcAgagtttgtttcatgatggga	13	3	1	3			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr2:54080607A>G	ENST00000394705.2	-	2	1557	c.1287T>C	c.(1285-1287)tcT>tcC	p.S429S	GPR75-ASB3_ENST00000352846.3_Intron|ASB3_ENST00000498475.2_Intron|ASB3_ENST00000406625.2_Intron	NM_006794.3	NP_006785.1	O95800	GPR75_HUMAN	G protein-coupled receptor 75	429					chemokine-mediated signaling pathway (GO:0070098)|G-protein coupled receptor signaling pathway (GO:0007186)|regulation of neuron death (GO:1901214)	integral component of plasma membrane (GO:0005887)	C-C chemokine receptor activity (GO:0016493)|G-protein coupled receptor activity (GO:0004930)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(4)|lung(3)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	18			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			ACATGTAGGCAGAGTTTGTTT	0.448																																																0													122	122	122					2																	54080607		2203	4300	6503	SO:0001819	synonymous_variant	10936			AF101472	CCDS1849.1	2p16	2012-08-21			ENSG00000119737	ENSG00000119737		"GPCR / Class A : Orphans"	4526	protein-coding gene	gene with protein product		606704				10381362	Standard	NM_006794		Approved	WI-31133	uc002rxo.3	O95800	OTTHUMG00000129280	ENST00000394705.2:c.1287T>C	2.37:g.54080607A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RC02|Q6NWR2	Silent	SNP	ENST00000394705.2	37	CCDS1849.1																																																																																				0.448	GPR75-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251403.2			G	54080607	A	G	54080607	2	3	616	1	0	0	0	0	0	0	0	1	6715	175	7	3		3	GPR75	2	54080607	Silent	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	26192448	54080607	189118766	15	37567										
USP39	10713	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	85875075	85875075	+	Nonsense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gacaggcaaatggtatgaatTacaagacctccaggtgactg	11	8	0	3			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr2:85875075T>G	ENST00000323701.6	+	12	1596	c.1586T>G	c.(1585-1587)tTa>tGa	p.L529*	USP39_ENST00000409766.3_Missense_Mutation_p.Y484D|USP39_ENST00000450066.2_Nonsense_Mutation_p.L426*|USP39_ENST00000459775.1_3'UTR|USP39_ENST00000409025.1_Intron|USP39_ENST00000409470.1_Nonsense_Mutation_p.L529*	NM_006590.3	NP_006581.2	Q53GS9	SNUT2_HUMAN	ubiquitin specific peptidase 39	529	USP.				cell cycle (GO:0007049)|cell division (GO:0051301)|mRNA processing (GO:0006397)|RNA splicing (GO:0008380)|spliceosomal complex assembly (GO:0000245)|ubiquitin-dependent protein catabolic process (GO:0006511)	spliceosomal complex (GO:0005681)	ubiquitinyl hydrolase activity (GO:0036459)|zinc ion binding (GO:0008270)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(7)|ovary(1)|prostate(1)|stomach(1)|urinary_tract(1)	19						TGGTATGAATTACAAGACCTC	0.478																																																0													98	91	93					2																	85875075		2203	4300	6503	SO:0001587	stop_gained	10713			AF132955	CCDS33234.1, CCDS58716.1, CCDS58717.1, CCDS74534.1	2p11.2	2009-01-06	2005-08-08		ENSG00000168883	ENSG00000168883		"Ubiquitin-specific peptidases"	20071	protein-coding gene	gene with protein product	"snRNP assembly defective 1 homolog (S.cerevisiae)", "small nuclear ribonucleoprotein 65kDa (U4/U6.U5)"	611594	"ubiquitin specific protease 39"			12838346	Standard	NM_006590		Approved	SAD1, CGI-21, SNRNP65	uc002sqg.4	Q53GS9	OTTHUMG00000153090	ENST00000323701.6:c.1586T>G	2.37:g.85875075T>G	ENSP00000312981:p.Leu529*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K086|B3KM40|B4DHT4|D6W5L4|G5E9H0|Q6NX47|Q96RK9|Q9BV89|Q9H381|Q9P050|Q9Y310	Nonsense_Mutation	SNP	ENST00000323701.6	37	CCDS33234.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	37|37	6.533352|6.533352	0.97641|0.97641	.|.	.|.	ENSG00000168883|ENSG00000168883	ENST00000450066;ENST00000409268;ENST00000409470;ENST00000323701|ENST00000409766	.|T	.|0.19105	.|2.17	5.93|5.93	5.93|5.93	0.95920|0.95920	.|.	0.065227|.	0.56097|.	D|.	0.000040|.	.|T	.|0.21145	.|0.0509	.|.	.|.	.|.	0.80722|0.80722	A|A	1|1	.|B	.|0.21905	.|0.062	.|B	.|0.21360	.|0.034	.|T	.|0.16129	.|-1.0413	.|7	0.14252|0.87932	T|D	0.57|0	-7.4979|-7.4979	14.3391|14.3391	0.66614|0.66614	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	.|484	.|G5E9H0	.|.	X|D	426;466;529;529|484	.|ENSP00000386803:Y484D	ENSP00000312981:L529X|ENSP00000386803:Y484D	L|Y	+|+	2|1	0|0	USP39|USP39	85728586|85728586	1.000000|1.000000	0.71417|0.71417	0.977000|0.977000	0.42913|0.42913	0.995000|0.995000	0.86356|0.86356	7.252000|7.252000	0.78309|0.78309	2.265000|2.265000	0.75225|0.75225	0.533000|0.533000	0.62120|0.62120	TTA|TAC		0.478	USP39-009	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329892.1	NM_006590		G	85875075	T	G	85875075	4	3	616	1	0	0	0	0	0	1	0	0	17082	1764	61	5	1632	5	USP39	2	85875075	Nonsense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08	31794468	85875075	157324298	16	37568										
MBD5	55777	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	149248040	149248040	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gaattgatacattatagaccAaggacgttcaatgttggcga	10	6	1	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr2:149248040A>C	ENST00000407073.1	+	12	5137	c.4140A>C	c.(4138-4140)ccA>ccC	p.P1380P	MBD5_ENST00000404807.1_Silent_p.P1613P	NM_018328.4	NP_060798.2	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	1380					glucose homeostasis (GO:0042593)|nervous system development (GO:0007399)|positive regulation of growth hormone receptor signaling pathway (GO:0060399)|regulation of multicellular organism growth (GO:0040014)|single-organism behavior (GO:0044708)	chromocenter (GO:0010369)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	chromatin binding (GO:0003682)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(8)|kidney(1)|large_intestine(16)|lung(22)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(3)	62				BRCA - Breast invasive adenocarcinoma(221;0.0569)		ATTATAGACCAAGGACGTTCA	0.453																																																0													77	78	78					2																	149248040		2203	4300	6503	SO:0001819	synonymous_variant	55777			AB040894	CCDS33302.1	2q23.2	2009-04-17			ENSG00000204406	ENSG00000204406			20444	protein-coding gene	gene with protein product		611472				12529184	Standard	NM_018328		Approved	FLJ11113, KIAA1461	uc002twm.4	Q9P267	OTTHUMG00000150440	ENST00000407073.1:c.4140A>C	2.37:g.149248040A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A5HMQ4|A7E2B1|Q53SR1|Q9NUV6	Silent	SNP	ENST00000407073.1	37	CCDS33302.1																																																																																				0.453	MBD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318111.2			C	149248040	A	C	149248040	2	2	616	1	0	0	0	0	0	0	0	1	9354	117	5	5		5	MBD5	2	149248040	Silent	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	63372965	149248040	93951333	17	37569										
PAX3	5077	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	223066673	223066673	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	caaggcttactttgtccataCtgcccatattggtagcctgt	8	11	0	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr2:223066673C>T	ENST00000350526.4	-	8	1546	c.1410G>A	c.(1408-1410)caG>caA	p.Q470Q	PAX3_ENST00000409551.3_Silent_p.Q469Q|PAX3_ENST00000392070.2_Silent_p.Q470Q|PAX3_ENST00000336840.6_Intron|PAX3_ENST00000392069.2_Silent_p.Q470Q|PAX3_ENST00000344493.4_Intron|PAX3_ENST00000464706.1_5'Flank	NM_181457.3	NP_852122.1	P23760	PAX3_HUMAN	paired box 3	470					apoptotic process (GO:0006915)|cell proliferation (GO:0008283)|developmental pigmentation (GO:0048066)|heart development (GO:0007507)|mammary gland specification (GO:0060594)|muscle organ development (GO:0007517)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neural crest cell migration (GO:0001755)|neural tube closure (GO:0001843)|neuron fate commitment (GO:0048663)|organ morphogenesis (GO:0009887)|positive regulation of cell proliferation (GO:0008284)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of somitogenesis (GO:0014807)|sensory perception of sound (GO:0007605)|spinal cord association neuron differentiation (GO:0021527)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)		PAX3/NCOA2(4)|PAX3/NCOA1(8)|PAX3/FOXO1(749)	NS(1)|endometrium(3)|kidney(1)|large_intestine(12)|lung(13)|ovary(4)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)	38		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;1.85e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TTTGTCCATACTGCCCATATT	0.468			T	"FOXO1A, NCOA1"	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome																																Dom	yes		2	2q35	5077	paired box gene 3	yes	M	0													99	93	95					2																	223066673		2203	4300	6503	SO:0001819	synonymous_variant	5077				CCDS2449.1, CCDS2450.1, CCDS2451.1, CCDS42825.1, CCDS2448.1, CCDS42826.1, CCDS46522.1, CCDS46523.1	2q36.1	2011-06-20	2007-07-12		ENSG00000135903	ENSG00000135903		"Paired boxes", "Homeoboxes / PRD class"	8617	protein-coding gene	gene with protein product		606597	"Waardenburg syndrome 1", "paired box gene 3 (Waardenburg syndrome 1)"	WS1		1347149	Standard	NM_181461		Approved	HUP2	uc002vmt.2	P23760	OTTHUMG00000133157	ENST00000350526.4:c.1410G>A	2.37:g.223066673C>T		Somatic		WXS	Illumina HiSeq	Phase_I	G5E9C1|Q16448|Q494Z3|Q494Z4|Q53T90|Q6GSJ9|Q86UQ2|Q86UQ3	Silent	SNP	ENST00000350526.4	37	CCDS42826.1																																																																																				0.468	PAX3-006	KNOWN	not_organism_supported|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000328670.1			T	223066673	C	T	223066673	2	4	616	1	0	0	0	0	0	0	0	1	11487	564	20	2		2	PAX3	2	223066673	Silent	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	73818633	223066673	20132700	18	37570										
DOCK10	55619	hgsc.bcm.edu	37	chr2	225630473	225630473	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	agatgagatggagaccgtggGtagggccggagttgctttgc	18	6	0	3			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr2:225630473G>C	ENST00000258390.7	-	56	6593	c.6526C>G	c.(6526-6528)Ccc>Gcc	p.P2176A	DOCK10_ENST00000409592.3_Missense_Mutation_p.P2170A	NM_014689.2	NP_055504.2	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	2176					regulation of cell migration (GO:0030334)|small GTPase mediated signal transduction (GO:0007264)	extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(1)|breast(3)|cervix(1)|endometrium(6)|kidney(10)|large_intestine(16)|lung(40)|ovary(2)|pancreas(1)|prostate(2)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	87		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)		GAGACCGTGGGTAGGGCCGGA	0.512																																																0													143	143	143					2																	225630473		1919	4127	6046	SO:0001583	missense	55619			AB014594	CCDS46528.1, CCDS74661.1	2q36.3	2013-01-10			ENSG00000135905	ENSG00000135905		"Pleckstrin homology (PH) domain containing"	23479	protein-coding gene	gene with protein product	"zizimin3"	611518				12432077	Standard	NM_014689		Approved	ZIZ3, KIAA0694	uc010fwz.1	Q96BY6	OTTHUMG00000153428	ENST00000258390.7:c.6526C>G	2.37:g.225630473G>C	ENSP00000258390:p.Pro2176Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B3FL70|O75178|Q9NW06|Q9NXI8	Missense_Mutation	SNP	ENST00000258390.7	37	CCDS46528.1	.	.	.	.	.	.	.	.	.	.	G	4.364	0.067136	0.08388	.	.	ENSG00000135905	ENST00000409592;ENST00000258390	T;T	0.18338	2.22;2.23	5.12	4.24	0.50183	.	1.033560	0.07661	N	0.933647	T	0.11196	0.0273	N	0.08118	0	0.09310	N	1	B;B	0.16603	0.018;0.003	B;B	0.14023	0.01;0.007	T	0.31971	-0.9924	10	0.37606	T	0.19	.	12.029	0.53388	0.0809:0.0:0.9191:0.0	.	2176;2170	Q96BY6;B3FL70	DOC10_HUMAN;.	A	2170;2176	ENSP00000386694:P2170A;ENSP00000258390:P2176A	ENSP00000258390:P2176A	P	-	1	0	DOCK10	225338717	0.970000	0.33590	0.027000	0.17364	0.009000	0.06853	3.388000	0.52509	1.162000	0.42619	0.561000	0.74099	CCC		0.512	DOCK10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331246.1			C	225630473	G	C	225630473	3	2	616	1	0	0	0	0	1	0	0	0	4687	1261	44	4	38	4	DOCK10	2	225630473	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	2563800	225630473	17568900	19	37571										
MYD88	30	hgsc.bcm.edu	37	chr3	38180515	38180515	+	5'Flank	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ctgctggagctgggacccagCattggtgaggacgtcccctt	14	12	0	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr3:38180515C>T	ENST00000333167.8	-	0	0				MYD88_ENST00000495303.1_Silent_p.S121S|ACAA1_ENST00000544624.1_5'Flank|MYD88_ENST00000424893.1_Silent_p.S121S|MYD88_ENST00000417037.2_Silent_p.S121S|MYD88_ENST00000396334.3_Silent_p.S121S|ACAA1_ENST00000450296.1_5'Flank|ACAA1_ENST00000301810.7_5'Flank|ACAA1_ENST00000444607.2_5'Flank|MYD88_ENST00000443433.2_Silent_p.S121S	NM_001607.3	NP_001598.1	P09110	THIK_HUMAN	acetyl-CoA acyltransferase 1						alpha-linolenic acid metabolic process (GO:0036109)|bile acid metabolic process (GO:0008206)|cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation (GO:0006635)|fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)|small molecule metabolic process (GO:0044281)|unsaturated fatty acid metabolic process (GO:0033559)|very long-chain fatty acid metabolic process (GO:0000038)	intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|peroxisomal matrix (GO:0005782)|peroxisome (GO:0005777)	acetyl-CoA C-acyltransferase activity (GO:0003988)|palmitoyl-CoA oxidase activity (GO:0016401)			endometrium(1)|large_intestine(4)|lung(2)|ovary(1)|prostate(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0523)|Kidney(284;0.0657)		TGGGACCCAGCATTGGTGAGG	0.662																																																0													27	30	29					3																	38180515		2203	4300	6503	SO:0001631	upstream_gene_variant	4615			X14813	CCDS2673.1, CCDS46794.1	3p22.2	2012-05-16	2010-04-30		ENSG00000060971	ENSG00000060971	2.3.1.16		82	protein-coding gene	gene with protein product	"peroxisomal 3-oxoacyl-Coenzyme A thiolase"	604054	"acetyl-Coenzyme A acyltransferase 1"				Standard	NM_001607		Approved		uc003cht.3	P09110	OTTHUMG00000131087		3.37:g.38180515C>T	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	G5E935|Q96CA6	Silent	SNP	ENST00000333167.8	37	CCDS2673.1																																																																																				0.662	ACAA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342980.1	NM_001607		T	38180515	C	T	38180515	1	4	616	0	1	0	0	0	0	0	0	0	10030	709	25	2		2	MYD88	3	38180515	5'Flank	SNP	C	TCGA-IZ-8195-01A-31D-2396-08		38180515	159841915	20	37572										
CELSR3	1951	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	48690562	48690562	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	cagtcacctggtccagaaggAgatgggaagcacggcccgag	15	11	1	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr3:48690562A>C	ENST00000164024.4	-	10	5787	c.5507T>G	c.(5506-5508)cTc>cGc	p.L1836R	CELSR3_ENST00000544264.1_Missense_Mutation_p.L1836R	NM_001407.2	NP_001398.2	Q9NYQ7	CELR3_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 3	1836	Laminin G-like 2. {ECO:0000255|PROSITE- ProRule:PRU00122}.				axonal fasciculation (GO:0007413)|cilium assembly (GO:0042384)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|regulation of protein localization (GO:0032880)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(1)|biliary_tract(1)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(23)|ovary(9)|prostate(6)|skin(7)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(5)	83				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GTCCAGAAGGAGATGGGAAGC	0.622																																																0													69	59	62					3																	48690562		2203	4300	6503	SO:0001583	missense	1951			AF231023	CCDS2775.1	3p21.31	2014-08-08	2013-02-18		ENSG00000008300	ENSG00000008300		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	3230	protein-coding gene	gene with protein product	"flamingo homolog 1 (Drosophila)"	604264	"cadherin EGF LAG seven-pass G-type receptor 3, flamingo (Drosophila) homolog"	EGFL1		9693030	Standard	NM_001407		Approved	MEGF2, HFMI1, FMI1, CDHF11	uc003cuf.1	Q9NYQ7	OTTHUMG00000133544	ENST00000164024.4:c.5507T>G	3.37:g.48690562A>C	ENSP00000164024:p.Leu1836Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O75092	Missense_Mutation	SNP	ENST00000164024.4	37	CCDS2775.1	.	.	.	.	.	.	.	.	.	.	A	26.0	4.699442	0.88830	.	.	ENSG00000008300	ENST00000164024;ENST00000544264	D;D	0.81821	-1.54;-1.54	5.33	5.33	0.75918	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (2);Laminin G, subdomain 2 (1);	.	.	.	.	D	0.88584	0.6476	M	0.70275	2.135	0.80722	D	1	D;D	0.89917	0.998;1.0	D;D	0.97110	0.988;1.0	D	0.88600	0.3149	9	0.45353	T	0.12	.	15.3149	0.74065	1.0:0.0:0.0:0.0	.	1836;1906	Q9NYQ7;Q5Y190	CELR3_HUMAN;.	R	1836	ENSP00000164024:L1836R;ENSP00000445694:L1836R	ENSP00000164024:L1836R	L	-	2	0	CELSR3	48665566	1.000000	0.71417	1.000000	0.80357	0.880000	0.50808	8.549000	0.90672	2.026000	0.59711	0.460000	0.39030	CTC		0.622	CELSR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257523.1	NM_001407		C	48690562	A	C	48690562	3	2	616	1	0	0	0	0	1	0	0	0	3225	304	11	5	4535	5	CELSR3	3	48690562	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	10510047	48690562	149331868	21	37573										
COL6A6	131873	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	130292932	130292932	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tgatgtcagcctcaacagagTgcgaataggagcggcccagt	13	10	2	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr3:130292932T>A	ENST00000358511.6	+	7	3141	c.3110T>A	c.(3109-3111)gTg>gAg	p.V1037E	COL6A6_ENST00000453409.2_Missense_Mutation_p.V1037E	NM_001102608.1	NP_001096078.1	A6NMZ7	CO6A6_HUMAN	collagen, type VI, alpha 6	1037	Nonhelical region.|VWFA 6. {ECO:0000255|PROSITE- ProRule:PRU00219}.				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)				NS(2)|breast(5)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(30)|lung(57)|ovary(8)|pancreas(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	134						CTCAACAGAGTGCGAATAGGA	0.418																																																0													67	62	64					3																	130292932		1868	4100	5968	SO:0001583	missense	131873			AL713792	CCDS46911.1	3q22.1	2013-01-16			ENSG00000206384	ENSG00000206384		"Collagens"	27023	protein-coding gene	gene with protein product							Standard	NM_001102608		Approved		uc010htl.3	A6NMZ7	OTTHUMG00000159653	ENST00000358511.6:c.3110T>A	3.37:g.130292932T>A	ENSP00000351310:p.Val1037Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A7DZQ0|A7DZQ1|A7DZQ2|Q69YT0	Missense_Mutation	SNP	ENST00000358511.6	37	CCDS46911.1	.	.	.	.	.	.	.	.	.	.	T	15.98	2.993314	0.54041	.	.	ENSG00000206384	ENST00000358511;ENST00000453409	D;D	0.85171	-1.95;-1.95	5.15	3.99	0.46301	von Willebrand factor, type A (3);	0.000000	0.52532	D	0.000074	D	0.92596	0.7648	M	0.92784	3.345	0.38839	D	0.956029	D	0.58268	0.982	P	0.62740	0.906	D	0.93390	0.6751	10	0.66056	D	0.02	.	10.6799	0.45809	0.0:0.0762:0.0:0.9238	.	1037	A6NMZ7	CO6A6_HUMAN	E	1037	ENSP00000351310:V1037E;ENSP00000399236:V1037E	ENSP00000351310:V1037E	V	+	2	0	COL6A6	131775622	0.928000	0.31464	0.677000	0.29947	0.260000	0.26232	3.286000	0.51724	0.919000	0.36945	0.459000	0.35465	GTG		0.418	COL6A6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000356705.5	NM_001102608		A	130292932	T	A	130292932	3	1	616	1	0	0	0	0	1	0	0	0	3705	1696	59	5	3136	5	COL6A6	3	130292932	Missense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08	81602370	130292932	67729498	22	37574										
ASTE1	28990	hgsc.bcm.edu	37	chr3	130743293	130743300	+	Frame_Shift_Del	DEL	TTCTCGAT	TTCTCGAT	-													0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	cagagaagttccttaacattTtctcgatccttttttgggag							TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	TTCTCGAT	TTCTCGAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr3:130743293_130743300delTTCTCGAT	ENST00000264992.3	-	3	1292_1299	c.851_858delATCGAGAA	c.(850-858)gatcgagaafs	p.DRE284fs	NEK11_ENST00000412440.2_5'Flank|NEK11_ENST00000510688.1_5'Flank|NEK11_ENST00000383366.4_5'Flank|NEK11_ENST00000356918.4_5'Flank|ASTE1_ENST00000514044.1_Frame_Shift_Del_p.DRE284fs|NEK11_ENST00000511262.1_5'Flank|NEK11_ENST00000510769.1_5'Flank|NEK11_ENST00000429253.2_5'Flank	NM_014065.2	NP_054784.2	Q2TB18	ASTE1_HUMAN	asteroid homolog 1 (Drosophila)	284					DNA repair (GO:0006281)		nuclease activity (GO:0004518)	p.R285*(1)		endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(6)|ovary(2)|prostate(1)	22						CCTTAACATTTTCTCGATCCTTTTTTGG	0.447																																																1	Substitution - Nonsense(1)	large_intestine(1)																																								SO:0001589	frameshift_variant	28990			AF113539	CCDS3068.1, CCDS75007.1	3q21.3	2005-11-17			ENSG00000034533	ENSG00000034533			25021	protein-coding gene	gene with protein product							Standard	NM_014065		Approved	HT001	uc003env.1	Q2TB18	OTTHUMG00000159644	ENST00000264992.3:c.851_858delATCGAGAA	3.37:g.130743293_130743300delTTCTCGAT	ENSP00000264992:p.Asp284fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFL9|Q3MIB6|Q8N6G4|Q96JY1|Q9UHX6	Frame_Shift_Del	DEL	ENST00000264992.3	37	CCDS3068.1																																																																																				0.447	ASTE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356659.1	NM_014065		-	130743300	TTCTCGAT	-	130743293	7	5	616	1	0	1	0	1	0	0	0	0	1062	1838	64	0	1197	0	ASTE1	3	130743293	Frame_Shift_Del	DEL	TTCTCGAT	TCGA-IZ-8195-01A-31D-2396-08	450361	130743293	67279137	23	37575										
LRPAP1	4043	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	3519768	3519768	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ggcgggcactcaccagcctcAgtgctgtagccctggtggct	14	14	2	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr4:3519768A>G	ENST00000500728.2	-	5	890	c.744T>C	c.(742-744)acT>acC	p.T248T	LRPAP1_ENST00000296325.5_5'UTR	NM_002337.3	NP_002328.1	P30533	AMRP_HUMAN	low density lipoprotein receptor-related protein associated protein 1	248	LDL receptor binding. {ECO:0000255}.				extracellular negative regulation of signal transduction (GO:1900116)|negative regulation of beta-amyloid clearance (GO:1900222)|negative regulation of protein binding (GO:0032091)|negative regulation of very-low-density lipoprotein particle clearance (GO:0010916)|protein folding (GO:0006457)|receptor-mediated endocytosis (GO:0006898)|vesicle-mediated transport (GO:0016192)	endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|rough endoplasmic reticulum lumen (GO:0048237)|vesicle (GO:0031982)	asialoglycoprotein receptor activity (GO:0004873)|heparin binding (GO:0008201)|low-density lipoprotein particle receptor binding (GO:0050750)|receptor antagonist activity (GO:0048019)|unfolded protein binding (GO:0051082)|very-low-density lipoprotein particle receptor binding (GO:0070326)			breast(1)|endometrium(2)|large_intestine(2)|lung(5)|ovary(1)|prostate(1)|skin(2)	14				UCEC - Uterine corpus endometrioid carcinoma (64;0.165)		CACCAGCCTCAGTGCTGTAGC	0.657																																																0													40	37	38					4																	3519768		2203	4300	6503	SO:0001819	synonymous_variant	4043				CCDS3371.1	4p16.3	2008-05-02	2003-03-17		ENSG00000163956	ENSG00000163956			6701	protein-coding gene	gene with protein product		104225	"low density lipoprotein-related protein-associated protein 1 (alpha-2-macroglobulin receptor-associated protein 1)"	A2MRAP		1712782	Standard	NM_002337		Approved	HBP44	uc003ghh.4	P30533	OTTHUMG00000090299	ENST00000500728.2:c.744T>C	4.37:g.3519768A>G		Somatic		WXS	Illumina HiSeq	Phase_I	D3DVR9|Q2M310|Q53HQ3|Q53HS6	Silent	SNP	ENST00000500728.2	37	CCDS3371.1																																																																																				0.657	LRPAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206659.4			G	3519768	A	G	3519768	2	3	616	1	0	0	0	0	0	0	0	1	8971	175	7	3		3	LRPAP1	4	3519768	Silent	SNP	A	TCGA-IZ-8195-01A-31D-2396-08		3519768	187634508	24	37576										
TBC1D19	55296	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr4	26737100	26737100	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ttatcccttttcatggatttTcaatgtatggtaagttgggc	9	6	2	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr4:26737100T>A	ENST00000264866.4	+	16	1386	c.1108T>A	c.(1108-1110)Tca>Aca	p.S370T	TBC1D19_ENST00000511789.1_Missense_Mutation_p.S305T	NM_018317.2	NP_060787.2	Q8N5T2	TBC19_HUMAN	TBC1 domain family, member 19	370	Rab-GAP TBC. {ECO:0000255|PROSITE- ProRule:PRU00163}.						Rab GTPase activator activity (GO:0005097)			breast(4)|endometrium(1)|kidney(1)|large_intestine(1)|lung(8)|skin(1)|upper_aerodigestive_tract(1)	17		Breast(46;0.0503)				TCATGGATTTTCAATGTATGG	0.264																																																0													40	36	38					4																	26737100		2186	4257	6443	SO:0001583	missense	55296			AK001944	CCDS3439.1, CCDS75115.1	4p15.2	2008-02-05			ENSG00000109680	ENSG00000109680			25624	protein-coding gene	gene with protein product							Standard	XM_006713967		Approved	FLJ11082	uc003gsf.4	Q8N5T2	OTTHUMG00000097797	ENST00000264866.4:c.1108T>A	4.37:g.26737100T>A	ENSP00000264866:p.Ser370Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B9A6M0|Q9NUX1	Missense_Mutation	SNP	ENST00000264866.4	37	CCDS3439.1	.	.	.	.	.	.	.	.	.	.	T	7.982	0.751339	0.15778	.	.	ENSG00000109680	ENST00000264866;ENST00000511789	T;T	0.12361	2.69;2.69	5.7	5.7	0.88788	Rab-GAP/TBC domain (3);	0.000000	0.85682	D	0.000000	T	0.21801	0.0525	L	0.31065	0.9	0.80722	D	1	B;D;D	0.53885	0.013;0.963;0.963	B;D;D	0.69824	0.02;0.966;0.966	T	0.01879	-1.1255	10	0.02654	T	1	-10.0854	15.9517	0.79843	0.0:0.0:0.0:1.0	.	305;370;370	B9A6M0;A8K0R6;Q8N5T2	.;.;TBC19_HUMAN	T	370;305	ENSP00000264866:S370T;ENSP00000425569:S305T	ENSP00000264866:S370T	S	+	1	0	TBC1D19	26346198	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.742000	0.74843	2.172000	0.68678	0.519000	0.50382	TCA		0.264	TBC1D19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215052.2	NM_018317		A	26737100	T	A	26737100	3	1	616	1	0	0	0	0	1	0	0	0	15619	1783	62	5	1170	5	TBC1D19	4	26737100	Missense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08	23217332	26737100	164417176	25	37577										
AFF1	4299	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	88029381	88029381	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	cagagtcagaaagcaccagtGactcagacagttcctcagac	9	12	3	5			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr4:88029381G>T	ENST00000307808.6	+	10	1846	c.1426G>T	c.(1426-1428)Gac>Tac	p.D476Y	AFF1_ENST00000395146.4_Missense_Mutation_p.D483Y|AFF1_ENST00000544085.1_Missense_Mutation_p.D114Y	NM_005935.2	NP_005926.1	P51825	AFF1_HUMAN	AF4/FMR2 family, member 1	476					positive regulation of transcription, DNA-templated (GO:0045893)	transcription elongation factor complex (GO:0008023)	sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|large_intestine(2)	3		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		AAGCACCAGTGACTCAGACAG	0.512																																																0													114	104	108					4																	88029381		2203	4300	6503	SO:0001583	missense	4299			L22179	CCDS3616.1, CCDS54775.1	4q21.3	2009-08-04	2005-06-27	2005-06-27	ENSG00000172493	ENSG00000172493			7135	protein-coding gene	gene with protein product		159557	"myeloid/lymphoid or mixed-lineage leukemia (trithorax (Drosophila) homolog); translocated to, 2", "pre-B-cell monocytic leukemia partner 1"	PBM1, MLLT2		7689231, 1423625, 8353274	Standard	NM_005935		Approved	AF-4, AF4	uc011ccz.2	P51825	OTTHUMG00000130603	ENST00000307808.6:c.1426G>T	4.37:g.88029381G>T	ENSP00000305689:p.Asp476Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTU1|E9PBM3	Missense_Mutation	SNP	ENST00000307808.6	37	CCDS3616.1	.	.	.	.	.	.	.	.	.	.	G	21.5	4.164359	0.78339	.	.	ENSG00000172493	ENST00000395146;ENST00000307808;ENST00000511722;ENST00000544085;ENST00000514970	T;T;T;T;T	0.66638	-0.22;-0.22;-0.22;-0.22;-0.22	5.5	5.5	0.81552	.	0.131246	0.52532	D	0.000065	T	0.80319	0.4601	L	0.59436	1.845	0.54753	D	0.999987	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.72338	0.977;0.977;0.977	T	0.80761	-0.1238	10	0.66056	D	0.02	-14.424	19.7664	0.96346	0.0:0.0:1.0:0.0	.	483;476;476	E9PBM3;Q14C88;P51825	.;.;AFF1_HUMAN	Y	483;476;114;114;167	ENSP00000378578:D483Y;ENSP00000305689:D476Y;ENSP00000424766:D114Y;ENSP00000440843:D114Y;ENSP00000424881:D167Y	ENSP00000305689:D476Y	D	+	1	0	AFF1	88248405	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	8.723000	0.91458	2.735000	0.93741	0.655000	0.94253	GAC		0.512	AFF1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000253053.3	NM_005935		T	88029381	G	T	88029381	3	4	616	1	0	0	0	0	1	0	0	0	356	1290	45	4	1506	4	AFF1	4	88029381	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	61292281	88029381	103124895	26	37578										
SEC24B	10427	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	110415933	110415933	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tccaacacttcagcctggttAtcagaatgctacagcaccac	6	14	2	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr4:110415933A>G	ENST00000265175.5	+	6	1464	c.1409A>G	c.(1408-1410)tAt>tGt	p.Y470C	SEC24B_ENST00000399100.2_Missense_Mutation_p.Y435C|SEC24B_ENST00000504968.2_Missense_Mutation_p.Y501C	NM_006323.2	NP_006314.2	O95487	SC24B_HUMAN	SEC24 family member B	470					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|aorta morphogenesis (GO:0035909)|auditory receptor cell stereocilium organization (GO:0060088)|cellular protein metabolic process (GO:0044267)|cochlear nucleus development (GO:0021747)|COPII vesicle coating (GO:0048208)|coronary artery morphogenesis (GO:0060982)|ER to Golgi vesicle-mediated transport (GO:0006888)|intracellular protein transport (GO:0006886)|lung lobe morphogenesis (GO:0060463)|membrane organization (GO:0061024)|neural tube closure (GO:0001843)|outflow tract morphogenesis (GO:0003151)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)|pulmonary artery morphogenesis (GO:0061156)|regulation of cargo loading into COPII-coated vesicle (GO:1901301)|regulation of establishment of planar polarity involved in neural tube closure (GO:0090178)|small molecule metabolic process (GO:0044281)|vesicle-mediated transport (GO:0016192)	COPII vesicle coat (GO:0030127)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|membrane (GO:0016020)	transporter activity (GO:0005215)|zinc ion binding (GO:0008270)			breast(1)|endometrium(7)|kidney(1)|large_intestine(10)|lung(12)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	36		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		CAGCCTGGTTATCAGAATGCT	0.473																																																0													116	117	117					4																	110415933		2080	4262	6342	SO:0001583	missense	10427			AJ131245	CCDS43260.1, CCDS47124.1, CCDS75179.1	4q25	2013-10-21	2013-10-21		ENSG00000138802	ENSG00000138802			10704	protein-coding gene	gene with protein product		607184	"SEC24 (S. cerevisiae) related gene family, member B", "SEC24 family, member B (S. cerevisiae)"			10075675, 10329445	Standard	XM_005262688		Approved		uc003hzk.3	O95487	OTTHUMG00000161372	ENST00000265175.5:c.1409A>G	4.37:g.110415933A>G	ENSP00000265175:p.Tyr470Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKM8|B7ZKN4|Q0VG08	Missense_Mutation	SNP	ENST00000265175.5	37	CCDS47124.1	.	.	.	.	.	.	.	.	.	.	A	19.06	3.754236	0.69648	.	.	ENSG00000138802	ENST00000504968;ENST00000399100;ENST00000265175	T;T;T	0.23754	1.89;1.89;1.89	5.47	5.47	0.80525	.	.	.	.	.	T	0.48943	0.1528	M	0.65975	2.015	0.54753	D	0.999987	D;P;D;D;D	0.89917	0.997;0.951;1.0;0.998;1.0	D;P;D;D;D	0.81914	0.926;0.759;0.995;0.947;0.995	T	0.50849	-0.8779	9	0.72032	D	0.01	2.3658	13.7816	0.63085	1.0:0.0:0.0:0.0	.	385;69;501;435;470	B4DTM6;B4E2E1;B7ZKM8;O95487-2;O95487	.;.;.;.;SC24B_HUMAN	C	501;435;470	ENSP00000428564:Y501C;ENSP00000382051:Y435C;ENSP00000265175:Y470C	ENSP00000265175:Y470C	Y	+	2	0	SEC24B	110635382	1.000000	0.71417	1.000000	0.80357	0.881000	0.50899	6.401000	0.73256	2.064000	0.61679	0.533000	0.62120	TAT		0.473	SEC24B-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000364693.2			G	110415933	A	G	110415933	3	3	616	1	0	0	0	0	1	0	0	0	14008	449	16	3	1431	3	SEC24B	4	110415933	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	22386552	110415933	80738343	27	37579										
SPATA5	166378	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	123848831	123848831	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	attccagaattcccttattcAtcttggactcaacactatga	4	11	3	2	rs201699296		TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr4:123848831A>G	ENST00000274008.4	+	2	275	c.206A>G	c.(205-207)cAt>cGt	p.H69R	SPATA5_ENST00000422835.2_3'UTR	NM_145207.2	NP_660208.2	Q8NB90	SPAT5_HUMAN	spermatogenesis associated 5	69					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)			endometrium(2)|kidney(2)|large_intestine(6)|lung(10)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	24						TCCCTTATTCATCTTGGACTC	0.338													A|||	1	0.000199681	0.0	0.0014	5008	,	,		18755	0.0		0.0	False		,,,				2504	0.0															0													116	116	116					4																	123848831		2203	4300	6503	SO:0001583	missense	166378			AF361489	CCDS3730.1	4q28.1	2010-04-21			ENSG00000145375	ENSG00000145375		"ATPases / AAA-type"	18119	protein-coding gene	gene with protein product	"ATPase family gene 2 homolog (S. cerevisiae)"	613940				16465403	Standard	NM_145207		Approved	SPAF, AFG2	uc003iez.4	Q8NB90	OTTHUMG00000133074	ENST00000274008.4:c.206A>G	4.37:g.123848831A>G	ENSP00000274008:p.His69Arg	Somatic		WXS	Illumina HiSeq	Phase_I	C9JT97|Q86XW1|Q8NI20|Q8TDL7	Missense_Mutation	SNP	ENST00000274008.4	37	CCDS3730.1	1	4.578754578754579E-4	0	0.0	1	0.0027624309392265192	0	0.0	0	0.0	A	14.82	2.648636	0.47258	.	.	ENSG00000145375	ENST00000274008	T	0.80480	-1.38	4.38	4.38	0.52667	Aspartate decarboxylase-like fold (1);	0.066103	0.64402	D	0.000008	T	0.64994	0.2649	N	0.11427	0.14	0.38412	D	0.945945	B;B	0.23249	0.049;0.082	B;B	0.25140	0.016;0.058	T	0.65084	-0.6254	10	0.38643	T	0.18	-13.2842	12.66	0.56809	1.0:0.0:0.0:0.0	.	69;69	Q8NB90;Q8NB90-3	SPAT5_HUMAN;.	R	69	ENSP00000274008:H69R	ENSP00000274008:H69R	H	+	2	0	SPATA5	124068281	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.210000	0.77924	1.992000	0.58205	0.533000	0.62120	CAT		0.338	SPATA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256714.2	NM_145207		G	123848831	A	G	123848831	3	3	616	1	0	0	0	0	1	0	0	0	15023	217	8	3	212	3	SPATA5	4	123848831	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	13432898	123848831	67305445	28	37580										
MAML3	55534	hgsc.bcm.edu	37	chr4	140811108	140811108	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tgctgctgctgctgctgctgCtgctgctgctgctgttgctg	14	12	0	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr4:140811108C>T	ENST00000509479.2	-	2	2338	c.1482G>A	c.(1480-1482)caG>caA	p.Q494Q	MAML3_ENST00000398940.1_Silent_p.Q33Q|MAML3_ENST00000327122.5_Silent_p.Q338Q	NM_018717.4	NP_061187			mastermind-like 3 (Drosophila)											breast(1)|endometrium(7)|kidney(2)|large_intestine(1)|lung(9)|ovary(1)|prostate(2)|urinary_tract(2)	25	all_hematologic(180;0.162)					gctgctgctgctgctgctgct	0.537																																																0													14	19	17					4																	140811108		2165	4272	6437	SO:0001819	synonymous_variant	55534			AB058719	CCDS54805.1	4q31.1	2014-08-12	2003-09-24		ENSG00000196782	ENSG00000196782			16272	protein-coding gene	gene with protein product	"mastermind (drosophila)-like 3"	608991	"trinucleotide repeat containing 3"	TNRC3		12370315, 12386158	Standard	NM_018717		Approved	KIAA1816, MAM2, CAGH3, GDN	uc021xsg.1	Q96JK9	OTTHUMG00000161441	ENST00000509479.2:c.1482G>A	4.37:g.140811108C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000509479.2	37	CCDS54805.1																																																																																				0.537	MAML3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364934.2			T	140811108	C	T	140811108	2	4	616	1	0	0	0	0	0	0	0	1	9214	796	28	2		2	MAML3	4	140811108	Silent	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	16962277	140811108	50343168	29	37581										
TRIM2	23321	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	154215496	154215496	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gctcttcagttcatctctgaAatcattcatcagttaaccaa	4	11	7	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr4:154215496A>T	ENST00000437508.2	+	5	765	c.564A>T	c.(562-564)gaA>gaT	p.E188D	TRIM2_ENST00000494872.1_3'UTR|TRIM2_ENST00000338700.5_Missense_Mutation_p.E215D	NM_001130067.1	NP_001123539.1	Q9C040	TRIM2_HUMAN	tripartite motif containing 2	188					cell death (GO:0008219)|regulation of neuron apoptotic process (GO:0043523)	cytoplasm (GO:0005737)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(7)|prostate(1)	19	all_hematologic(180;0.093)	Medulloblastoma(177;0.00225)		GBM - Glioblastoma multiforme(119;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0703)		TCATCTCTGAAATCATTCATC	0.413																																																0													108	103	104					4																	154215496		2203	4300	6503	SO:0001583	missense	23321			AF220018	CCDS3781.2, CCDS47147.1	4q31.3	2013-01-09	2011-01-25		ENSG00000109654	ENSG00000109654		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	15974	protein-coding gene	gene with protein product		614141	"tripartite motif-containing 2"			9628581, 11331580	Standard	NM_015271		Approved	KIAA0517, RNF86	uc003inh.2	Q9C040	OTTHUMG00000155991	ENST00000437508.2:c.564A>T	4.37:g.154215496A>T	ENSP00000415812:p.Glu188Asp	Somatic		WXS	Illumina HiSeq	Phase_I	D3DP09|O60272|Q9BSI9|Q9UFZ1	Missense_Mutation	SNP	ENST00000437508.2	37	CCDS47147.1	.	.	.	.	.	.	.	.	.	.	A	14.02	2.411858	0.42817	.	.	ENSG00000109654	ENST00000437508;ENST00000338700;ENST00000433687	T;T;T	0.71222	-0.54;-0.55;-0.23	6.17	5.0	0.66597	B-box, C-terminal (1);	0.041315	0.85682	D	0.000000	T	0.57829	0.2080	L	0.34521	1.04	0.54753	D	0.999982	B;B	0.12013	0.005;0.005	B;B	0.10450	0.005;0.005	T	0.50693	-0.8798	10	0.17369	T	0.5	-3.329	12.1877	0.54250	0.9342:0.0:0.0658:0.0	.	215;188	D3DP09;Q9C040	.;TRIM2_HUMAN	D	188;215;102	ENSP00000415812:E188D;ENSP00000339659:E215D;ENSP00000400375:E102D	ENSP00000339659:E215D	E	+	3	2	TRIM2	154434946	1.000000	0.71417	1.000000	0.80357	0.955000	0.61496	3.959000	0.56744	1.166000	0.42689	0.533000	0.62120	GAA		0.413	TRIM2-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342652.1			T	154215496	A	T	154215496	3	4	616	1	0	0	0	0	1	0	0	0	16506	11	1	5	663	5	TRIM2	4	154215496	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	13404388	154215496	36938780	30	37582										
DCHS2	54798	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	155225827	155225827	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	acaaacaaacttaccaattaTgtgatattcaacagctctgt	4	9	2	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr4:155225827T>C	ENST00000357232.4	-	17	4233	c.4234A>G	c.(4234-4236)Ata>Gta	p.I1412V		NM_017639.3	NP_060109.2	Q6V1P9	PCD23_HUMAN	dachsous cadherin-related 2	1412	Cadherin 12. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|central_nervous_system(1)|cervix(3)|endometrium(8)|kidney(5)|large_intestine(54)|lung(63)|ovary(4)|pancreas(1)|prostate(14)|skin(12)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	176	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TTACCAATTATGTGATATTCA	0.418																																																0													59	58	59					4																	155225827		2203	4300	6503	SO:0001583	missense	54798			BC140919	CCDS3785.1, CCDS47150.1	4q32.1	2014-06-04	2013-10-04	2004-09-03		ENSG00000197410		"Cadherins / Cadherin-related"	23111	protein-coding gene	gene with protein product	"cadherin-related family member 7"	612486	"cadherin-like 27", "dachsous 2 (Drosophila)"	CDH27, PCDH23		15003449	Standard	NM_017639		Approved	CDHJ, FLJ20047, PCDHJ, CDHR7	uc003inw.2	Q6V1P9		ENST00000357232.4:c.4234A>G	4.37:g.155225827T>C	ENSP00000349768:p.Ile1412Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RU14|E9PC11|Q4W5P9|Q6ZS61|Q9NXU8	Missense_Mutation	SNP	ENST00000357232.4	37	CCDS3785.1	.	.	.	.	.	.	.	.	.	.	T	7.389	0.630312	0.14257	.	.	ENSG00000197410	ENST00000357232	T	0.58797	0.31	5.09	3.91	0.45181	Cadherin (4);Cadherin-like (1);	0.000000	0.85682	D	0.000000	T	0.69160	0.3080	M	0.74258	2.255	0.80722	D	1	D	0.57899	0.981	P	0.58077	0.832	T	0.70784	-0.4778	10	0.56958	D	0.05	.	10.979	0.47483	0.0:0.074:0.0:0.926	.	1412	Q6V1P9	PCD23_HUMAN	V	1412	ENSP00000349768:I1412V	ENSP00000349768:I1412V	I	-	1	0	DCHS2	155445277	0.984000	0.35163	0.546000	0.28166	0.036000	0.12997	2.011000	0.40922	0.883000	0.36040	0.460000	0.39030	ATA		0.418	DCHS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365281.2	NM_001142552		C	155225827	T	C	155225827	3	2	616	1	0	0	0	0	1	0	0	0	4290	1464	51	3	4552	3	DCHS2	4	155225827	Missense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08	1010331	155225827	35928449	31	37583										
FAT1	2195	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	187539116	187539116	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tgtctctcttttcatggtcaAgttcctttaaagttgtaatc	6	8	4	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr4:187539116A>G	ENST00000441802.2	-	10	8833	c.8624T>C	c.(8623-8625)cTt>cCt	p.L2875P		NM_005245.3	NP_005236.2	Q14517	FAT1_HUMAN	FAT atypical cadherin 1	2875	Cadherin 26. {ECO:0000255|PROSITE- ProRule:PRU00043}.				actin filament organization (GO:0007015)|anatomical structure morphogenesis (GO:0009653)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|cell-cell signaling (GO:0007267)|establishment or maintenance of cell polarity (GO:0007163)|homophilic cell adhesion (GO:0007156)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(38)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(33)|lung(88)|ovary(13)|pancreas(2)|prostate(16)|skin(2)|upper_aerodigestive_tract(11)|urinary_tract(4)	228						TTCATGGTCAAGTTCCTTTAA	0.418										HNSCC(5;0.00058)																											Colon(197;1040 2055 4143 4984 49344)											0													175	154	161					4																	187539116		1930	4152	6082	SO:0001583	missense	2195			X87241	CCDS47177.1	4q35.2	2013-05-31	2013-05-31	2008-10-30	ENSG00000083857	ENSG00000083857		"Cadherins / Cadherin-related"	3595	protein-coding gene	gene with protein product	"cadherin-related family member 8"	600976	"FAT tumor suppressor (Drosophila) homolog", "FAT tumor suppressor homolog 1 (Drosophila)"	FAT		8586420	Standard	XM_005262834		Approved	CDHF7, CDHR8	uc003izf.3	Q14517	OTTHUMG00000160320	ENST00000441802.2:c.8624T>C	4.37:g.187539116A>G	ENSP00000406229:p.Leu2875Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000441802.2	37	CCDS47177.1	.	.	.	.	.	.	.	.	.	.	A	18.14	3.557734	0.65425	.	.	ENSG00000083857	ENST00000441802;ENST00000260147	T	0.75154	-0.91	4.86	4.86	0.63082	Cadherin (4);Cadherin-like (1);	0.000000	0.85682	D	0.000000	D	0.90256	0.6953	H	0.96269	3.795	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	D	0.93285	0.6663	10	0.87932	D	0	.	14.9179	0.70812	1.0:0.0:0.0:0.0	.	2875	Q14517	FAT1_HUMAN	P	2875;2877	ENSP00000406229:L2875P	ENSP00000260147:L2877P	L	-	2	0	FAT1	187776110	1.000000	0.71417	0.993000	0.49108	0.998000	0.95712	9.139000	0.94554	2.167000	0.68274	0.528000	0.53228	CTT		0.418	FAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360209.3	NM_005245		G	187539116	A	G	187539116	3	3	616	1	0	0	0	0	1	0	0	0	5696	72	3	3	5214	3	FAT1	4	187539116	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	32313289	187539116	3615160	32	37584										
SLC6A19	340024	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	1219640	1219640	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gcctcatctgcctggggacaTtcctcattggcttcatcttc	8	14	5	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr5:1219640T>C	ENST00000304460.10	+	10	1455	c.1399T>C	c.(1399-1401)Ttc>Ctc	p.F467L		NM_001003841.2	NP_001003841.1	Q695T7	S6A19_HUMAN	solute carrier family 6 (neutral amino acid transporter), member 19	467					amino acid transport (GO:0006865)|ion transport (GO:0006811)|response to nutrient (GO:0007584)|transmembrane transport (GO:0055085)	brush border membrane (GO:0031526)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	neurotransmitter:sodium symporter activity (GO:0005328)|neutral amino acid transmembrane transporter activity (GO:0015175)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|lung(25)|prostate(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	44	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)			CCTGGGGACATTCCTCATTGG	0.627																																																0													140	118	125					5																	1219640		2203	4300	6503	SO:0001583	missense	340024			AK096054	CCDS34130.1	5p15	2013-07-19			ENSG00000174358	ENSG00000174358		"Solute carriers"	27960	protein-coding gene	gene with protein product	"Hartnup disease"	608893					Standard	NM_001003841		Approved		uc003jbw.4	Q695T7	OTTHUMG00000161636	ENST00000304460.10:c.1399T>C	5.37:g.1219640T>C	ENSP00000305302:p.Phe467Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K446	Missense_Mutation	SNP	ENST00000304460.10	37	CCDS34130.1	.	.	.	.	.	.	.	.	.	.	T	8.371	0.835267	0.16820	.	.	ENSG00000174358	ENST00000304460	T	0.76316	-1.01	4.83	4.83	0.62350	.	0.341281	0.33691	N	0.004644	T	0.79311	0.4424	M	0.83603	2.65	0.09310	N	1	B	0.12630	0.006	B	0.17722	0.019	T	0.70128	-0.4957	10	0.41790	T	0.15	.	14.3784	0.66895	0.0:0.0:0.0:1.0	.	467	Q695T7	S6A19_HUMAN	L	467	ENSP00000305302:F467L	ENSP00000305302:F467L	F	+	1	0	SLC6A19	1272640	0.950000	0.32346	0.052000	0.19188	0.038000	0.13279	3.934000	0.56553	1.801000	0.52704	0.391000	0.25812	TTC		0.627	SLC6A19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365557.1	XM_291120		C	1219640	T	C	1219640	3	2	616	1	0	0	0	0	1	0	0	0	14695	1493	52	3	1437	3	SLC6A19	5	1219640	Missense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08		1219640	179695620	33	37585										
TRIO	7204	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	14497016	14497016	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	catcttggcacacagcactcCgtttaaggaaaaaatctgag	8	10	2	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr5:14497016C>A	ENST00000344204.4	+	50	7933	c.7909C>A	c.(7909-7911)Cgt>Agt	p.R2637S	TRIO_ENST00000537187.1_Missense_Mutation_p.R2461S|TRIO_ENST00000344135.5_Missense_Mutation_p.R136S	NM_007118.2	NP_009049.2	O75962	TRIO_HUMAN	trio Rho guanine nucleotide exchange factor	2637					apoptotic signaling pathway (GO:0097190)|axon guidance (GO:0007411)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	cytosol (GO:0005829)	ATP binding (GO:0005524)|guanyl-nucleotide exchange factor activity (GO:0005085)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(2)|breast(6)|central_nervous_system(4)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(21)|lung(34)|ovary(4)|prostate(2)|skin(11)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(4)	118	Lung NSC(4;0.000742)					CACAGCACTCCGTTTAAGGAA	0.448																																																0													121	112	115					5																	14497016		2203	4300	6503	SO:0001583	missense	7204			AF091395	CCDS3883.1	5p14-p15.1	2013-01-11	2012-07-12		ENSG00000038382	ENSG00000038382		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing"	12303	protein-coding gene	gene with protein product		601893	"triple functional domain (PTPRF interacting)"			8643598	Standard	NM_007118		Approved	ARHGEF23	uc003jff.3	O75962	OTTHUMG00000131057	ENST00000344204.4:c.7909C>A	5.37:g.14497016C>A	ENSP00000339299:p.Arg2637Ser	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTD1|Q13458|Q59EQ7|Q6PJC9|Q6ZN05|Q8IWK8	Missense_Mutation	SNP	ENST00000344204.4	37	CCDS3883.1	.	.	.	.	.	.	.	.	.	.	C	28.4	4.915239	0.92178	.	.	ENSG00000038382	ENST00000344204;ENST00000537187;ENST00000513206;ENST00000344135	T;T;T	0.71341	-0.56;-0.36;-0.53	5.18	5.18	0.71444	.	0.000000	0.85682	D	0.000000	D	0.82282	0.5003	M	0.65498	2.005	0.36519	D	0.87004	D	0.89917	1.0	D	0.79784	0.993	D	0.84372	0.0544	10	0.37606	T	0.19	.	16.8938	0.86094	0.0:1.0:0.0:0.0	.	2637	O75962	TRIO_HUMAN	S	2637;2461;2324;136	ENSP00000339299:R2637S;ENSP00000446348:R2461S;ENSP00000339291:R136S	ENSP00000339291:R136S	R	+	1	0	TRIO	14550016	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.596000	0.67570	2.414000	0.81942	0.655000	0.94253	CGT		0.448	TRIO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253711.2	NM_007118		A	14497016	C	A	14497016	3	1	616	1	0	0	0	0	1	0	0	0	16564	652	23	4	8107	4	TRIO	5	14497016	Missense_Mutation	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	13277376	14497016	166418244	34	37586										
POLK	51426	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	74892358	74892358	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	atgagaatttggaaatatcaGagaattcagatgactgtcag	10	4	3	4			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr5:74892358G>C	ENST00000241436.4	+	13	2012	c.1840G>C	c.(1840-1842)Gag>Cag	p.E614Q	POLK_ENST00000380481.3_Missense_Mutation_p.E524Q|CTC-366B18.2_ENST00000511329.1_RNA|POLK_ENST00000508526.1_Missense_Mutation_p.E416Q|POLK_ENST00000506928.1_3'UTR|POLK_ENST00000352007.5_Missense_Mutation_p.E416Q|POLK_ENST00000504026.1_Intron	NM_016218.2	NP_057302.1	Q9UBT6	POLK_HUMAN	polymerase (DNA directed) kappa	614					DNA repair (GO:0006281)|nucleotide-excision repair, DNA gap filling (GO:0006297)	nucleus (GO:0005634)	damaged DNA binding (GO:0003684)|DNA-directed DNA polymerase activity (GO:0003887)|metal ion binding (GO:0046872)			endometrium(1)|kidney(4)|large_intestine(5)|lung(11)|ovary(2)|prostate(2)|skin(1)|urinary_tract(1)	27		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;2.9e-54)|all cancers(79;1.27e-42)		GGAAATATCAGAGAATTCAGA	0.368								DNA polymerases (catalytic subunits)																																								0													106	108	107					5																	74892358		2203	4300	6503	SO:0001583	missense	51426			AB027564	CCDS4030.1	5q13	2012-05-18			ENSG00000122008	ENSG00000122008		"DNA polymerases"	9183	protein-coding gene	gene with protein product	"polymerase (DNA-directed) kappa", "DINB protein", "DNA polymerase kappa"	605650		DINB1		10887153, 10518552	Standard	NM_016218		Approved	POLQ, DINP	uc003kdw.3	Q9UBT6	OTTHUMG00000102107	ENST00000241436.4:c.1840G>C	5.37:g.74892358G>C	ENSP00000241436:p.Glu614Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBD2|Q5Q9G5|Q5Q9G6|Q5Q9G7|Q5Q9G8|Q86VJ8|Q8IZY0|Q8IZY1|Q8NB30|Q96L01|Q96Q86|Q96Q87|Q9UHC5	Missense_Mutation	SNP	ENST00000241436.4	37	CCDS4030.1	.	.	.	.	.	.	.	.	.	.	G	16.10	3.027552	0.54683	.	.	ENSG00000122008	ENST00000241436;ENST00000352007;ENST00000508526;ENST00000380481	T;T;T;T	0.58358	1.15;0.34;0.34;1.13	5.15	4.28	0.50868	.	0.893154	0.09986	N	0.730347	T	0.50480	0.1618	M	0.65498	2.005	0.22888	N	0.998601	B;B	0.28419	0.211;0.098	B;B	0.23275	0.045;0.021	T	0.43909	-0.9362	10	0.48119	T	0.1	-2.8619	9.5091	0.39065	0.0815:0.1534:0.7651:0.0	.	416;614	Q9UBT6-3;Q9UBT6	.;POLK_HUMAN	Q	614;416;416;524	ENSP00000241436:E614Q;ENSP00000342256:E416Q;ENSP00000426853:E416Q;ENSP00000369848:E524Q	ENSP00000241436:E614Q	E	+	1	0	POLK	74928114	0.025000	0.19082	0.097000	0.21041	0.978000	0.69477	0.423000	0.21313	1.148000	0.42385	0.655000	0.94253	GAG		0.368	POLK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219945.3	NM_016218		C	74892358	G	C	74892358	3	2	616	1	0	0	0	0	1	0	0	0	12211	943	33	4	1886	4	POLK	5	74892358	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	60395342	74892358	106022902	35	37587										
BHMT	635	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	78426847	78426847	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	cagatggctggggagtgaccAaaggaacagccgagctgatg	16	8	0	3			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr5:78426847A>G	ENST00000274353.5	+	8	1236	c.1129A>G	c.(1129-1131)Aaa>Gaa	p.K377E	BHMT_ENST00000524080.1_Missense_Mutation_p.K224E|DMGDH_ENST00000520388.1_Intron	NM_001713.2	NP_001704.2	Q93088	BHMT1_HUMAN	betaine--homocysteine S-methyltransferase	377					amino-acid betaine catabolic process (GO:0006579)|amino-acid betaine metabolic process (GO:0006577)|cellular nitrogen compound metabolic process (GO:0034641)|L-methionine salvage (GO:0071267)|protein methylation (GO:0006479)|regulation of homocysteine metabolic process (GO:0050666)|response to organonitrogen compound (GO:0010243)|small molecule metabolic process (GO:0044281)|sulfur amino acid metabolic process (GO:0000096)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|protein complex (GO:0043234)	betaine-homocysteine S-methyltransferase activity (GO:0047150)|S-adenosylmethionine-homocysteine S-methyltransferase activity (GO:0008898)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|kidney(2)|large_intestine(6)|lung(14)|ovary(1)|prostate(1)|skin(2)	29		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.88e-45)|Epithelial(54;8.07e-41)|all cancers(79;3.51e-36)	L-Methionine(DB00134)	GGGAGTGACCAAAGGAACAGC	0.493																																																0													113	126	121					5																	78426847		2203	4300	6503	SO:0001583	missense	635			BC012616	CCDS4046.1	5q14.1	2012-09-20	2010-04-28		ENSG00000145692	ENSG00000145692	2.1.1.5		1047	protein-coding gene	gene with protein product	"betaine homocysteine methyltransferase"	602888				8798461, 9281325	Standard	NM_001713		Approved	BHMT1	uc003kfu.4	Q93088	OTTHUMG00000108157	ENST00000274353.5:c.1129A>G	5.37:g.78426847A>G	ENSP00000274353:p.Lys377Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UNI9	Missense_Mutation	SNP	ENST00000274353.5	37	CCDS4046.1	.	.	.	.	.	.	.	.	.	.	A	18.22	3.574689	0.65878	.	.	ENSG00000145692	ENST00000274353;ENST00000524080	T;T	0.33865	1.42;1.39	5.55	4.38	0.52667	.	0.086125	0.85682	D	0.000000	T	0.28532	0.0706	M	0.70595	2.14	0.58432	D	0.999998	P;B	0.36599	0.56;0.182	B;B	0.24006	0.05;0.029	T	0.21621	-1.0240	10	0.02654	T	1	-19.2971	12.7653	0.57388	0.8628:0.1372:0.0:0.0	.	224;377	E5RJH0;Q93088	.;BHMT1_HUMAN	E	377;224	ENSP00000274353:K377E;ENSP00000428240:K224E	ENSP00000274353:K377E	K	+	1	0	BHMT	78462603	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.446000	0.80609	0.929000	0.37192	0.533000	0.62120	AAA		0.493	BHMT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000226961.1	NM_001713		G	78426847	A	G	78426847	3	3	616	1	0	0	0	0	1	0	0	0	1425	131	5	3	1159	3	BHMT	5	78426847	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	3534489	78426847	102488413	36	37588										
MSH3	4437	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	80040402	80040402	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tttgggagacggaagttaaaGaagtgggtgacccagccact	14	7	0	3			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr5:80040402G>A	ENST00000265081.6	+	12	1811	c.1731G>A	c.(1729-1731)aaG>aaA	p.K577K	MSH3_ENST00000512258.1_3'UTR	NM_002439.4	NP_002430.3	P20585	MSH3_HUMAN	mutS homolog 3	577					ATP catabolic process (GO:0006200)|DNA repair (GO:0006281)|maintenance of DNA repeat elements (GO:0043570)|meiotic mismatch repair (GO:0000710)|mismatch repair (GO:0006298)|negative regulation of DNA recombination (GO:0045910)|positive regulation of helicase activity (GO:0051096)|reciprocal meiotic recombination (GO:0007131)|somatic recombination of immunoglobulin gene segments (GO:0016447)	membrane (GO:0016020)|MutSbeta complex (GO:0032302)|nuclear chromosome (GO:0000228)|nucleus (GO:0005634)	ATP binding (GO:0005524)|centromeric DNA binding (GO:0019237)|damaged DNA binding (GO:0003684)|DNA-dependent ATPase activity (GO:0008094)|double-strand/single-strand DNA junction binding (GO:0000406)|enzyme binding (GO:0019899)|heteroduplex DNA loop binding (GO:0000404)|Y-form DNA binding (GO:0000403)			NS(1)|breast(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(12)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	29		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		GGAAGTTAAAGAAGTGGGTGA	0.338								Mismatch excision repair (MMR)																													Melanoma(88;1010 1399 13793 26548 36275)											0													22	25	24					5																	80040402		2200	4295	6495	SO:0001819	synonymous_variant	4437			U61981	CCDS34195.1	5q11-q12	2013-09-12	2013-09-12		ENSG00000113318	ENSG00000113318			7326	protein-coding gene	gene with protein product	"Divergent upstream protein", "Mismatch repair protein 1"	600887	"mutS (E. coli) homolog 3", "mutS homolog 3 (E. coli)"				Standard	NM_002439		Approved	DUP, MRP1	uc003kgz.4	P20585	OTTHUMG00000162540	ENST00000265081.6:c.1731G>A	5.37:g.80040402G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A1L480|A1L482|A6NMM6|Q6PJT5|Q86UQ6|Q92867	Silent	SNP	ENST00000265081.6	37	CCDS34195.1																																																																																				0.338	MSH3-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369471.1	NM_002439		A	80040402	G	A	80040402	2	1	616	1	0	0	0	0	0	0	0	1	9878	933	33	2		2	MSH3	5	80040402	Silent	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	1613555	80040402	100874858	37	37589										
DMXL1	1657	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	118500212	118500213	+	Frame_Shift_Ins	INS	-	-	AGTCATTT													0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tttcttcaggcctgtctacaINSagtcattttgcttgggcatt							TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr5:118500212_118500213insAGTCATTT	ENST00000311085.8	+	20	4793_4794	c.4713_4714insAGTCATTT	c.(4714-4716)agtfs	p.-1572fs	DMXL1_ENST00000539542.1_Frame_Shift_Ins_p.-1572fs	NM_005509.4	NP_005500.4	Q9Y485	DMXL1_HUMAN	Dmx-like 1											breast(3)|central_nervous_system(1)|endometrium(14)|kidney(4)|large_intestine(20)|liver(6)|lung(28)|ovary(2)|prostate(5)|skin(2)|upper_aerodigestive_tract(1)	86		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)		GCCTGTCTACAAGTCATTTTGC	0.342																																																0																																										SO:0001589	frameshift_variant	1657			AJ005821	CCDS4125.1, CCDS75289.1	5q22	2013-01-10			ENSG00000172869	ENSG00000172869		"WD repeat domain containing"	2937	protein-coding gene	gene with protein product		605671				10708522	Standard	NM_005509		Approved		uc003ksd.2	Q9Y485	OTTHUMG00000128898	ENST00000311085.8:c.4714_4721dupAGTCATTT	5.37:g.118500213_118500220dupAGTCATTT	ENSP00000309690:p.Ser1572fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000311085.8	37	CCDS4125.1																																																																																				0.342	DMXL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250862.1	NM_005509		AGTCATTT	118500213	-	AGTCATTT	118500212	7	5	616	1	0	1	1	0	0	0	0	0	4596	117	5	0	4791	0	DMXL1	5	118500212	Frame_Shift_Ins	INS	-	TCGA-IZ-8195-01A-31D-2396-08	38459810	118500212	62415048	38	37590										
SOX30	11063	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	157075894	157075894	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ctgtccttactgaagggagtAtctggtatgcctacatgaca	10	9	1	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr5:157075894A>T	ENST00000265007.6	-	2	1319	c.978T>A	c.(976-978)gaT>gaA	p.D326E	SOX30_ENST00000311371.5_Missense_Mutation_p.D326E|SOX30_ENST00000519442.1_Missense_Mutation_p.D21E	NM_178424.1	NP_848511.1	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30	326					regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|response to corticosteroid (GO:0031960)|spermatogenesis (GO:0007283)|transcription from RNA polymerase II promoter (GO:0006366)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(9)|ovary(1)|pancreas(1)|prostate(1)|urinary_tract(1)	23	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)			TGAAGGGAGTATCTGGTATGC	0.428																																					Esophageal Squamous(31;525 799 19355 21125 41744)											0													126	111	116					5																	157075894		2203	4300	6503	SO:0001583	missense	11063			AB022083	CCDS4339.1, CCDS4340.1	5q33	2010-10-21			ENSG00000039600	ENSG00000039600		"SRY (sex determining region Y)-boxes"	30635	protein-coding gene	gene with protein product		606698				15019997, 11678506	Standard	NM_178424		Approved		uc003lxb.1	O94993	OTTHUMG00000130247	ENST00000265007.6:c.978T>A	5.37:g.157075894A>T	ENSP00000265007:p.Asp326Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O94995|Q8IYX6	Missense_Mutation	SNP	ENST00000265007.6	37	CCDS4339.1	.	.	.	.	.	.	.	.	.	.	A	18.28	3.588194	0.66105	.	.	ENSG00000039600	ENST00000311371;ENST00000265007;ENST00000519442	D;D;D	0.97976	-4.64;-4.3;-4.57	5.72	-2.31	0.06765	High mobility group, superfamily (1);	0.152930	0.45867	D	0.000328	D	0.95793	0.8631	N	0.08118	0	0.30089	N	0.808462	D;D;D	0.76494	0.999;0.99;0.983	D;D;P	0.78314	0.991;0.933;0.858	D	0.92745	0.6211	10	0.66056	D	0.02	.	14.1885	0.65623	0.5913:0.0:0.4087:0.0	.	21;326;326	B4DXW7;O94993-2;O94993	.;.;SOX30_HUMAN	E	326;326;21	ENSP00000309343:D326E;ENSP00000265007:D326E;ENSP00000427984:D21E	ENSP00000265007:D326E	D	-	3	2	SOX30	157008472	0.992000	0.36948	0.971000	0.41717	0.971000	0.66376	0.280000	0.18790	-0.732000	0.04856	-1.477000	0.00996	GAT		0.428	SOX30-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252571.2	NM_007017		T	157075894	A	T	157075894	3	4	616	1	0	0	0	0	1	0	0	0	14965	446	16	5	1299	5	SOX30	5	157075894	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	38575682	157075894	23839366	39	37591										
NHP2	55651	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	177580732	177580732	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tgcgcgatggggttctggttGaccagcagctcctggtaggt	16	9	1	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr5:177580732G>T	ENST00000274606.3	-	1	236	c.87C>A	c.(85-87)gtC>gtA	p.V29V	NHP2_ENST00000314397.4_Silent_p.V29V	NM_017838.3	NP_060308.1	Q9NX24	NHP2_HUMAN	NHP2 ribonucleoprotein	29					rRNA pseudouridine synthesis (GO:0031118)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|small nucleolar ribonucleoprotein complex (GO:0005732)	poly(A) RNA binding (GO:0044822)|snoRNA binding (GO:0030515)			endometrium(1)|kidney(1)|ovary(2)	4						GGTTCTGGTTGACCAGCAGCT	0.662																																																0													22	26	25					5																	177580732		2202	4299	6501	SO:0001819	synonymous_variant	55651			AF161404	CCDS4432.1, CCDS34308.1	5q35.3	2014-09-17	2012-12-10	2008-10-13	ENSG00000145912	ENSG00000145912			14377	protein-coding gene	gene with protein product		606470	"nucleolar protein family A, member 2 (H/ACA small nucleolar RNPs)", "NHP2 ribonucleoprotein homolog (yeast)"	NOLA2		11074001	Standard	NM_017838		Approved	FLJ20479	uc003mir.2	Q9NX24	OTTHUMG00000130886	ENST00000274606.3:c.87C>A	5.37:g.177580732G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKY8|Q9P095	Silent	SNP	ENST00000274606.3	37	CCDS4432.1																																																																																				0.662	NHP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253471.1	NM_017838		T	177580732	G	T	177580732	2	4	616	1	0	0	0	0	0	0	0	1	10416	1277	45	4		4	NHP2	5	177580732	Silent	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	20504838	177580732	3334528	40	37592										
MAML1	9794	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	179193185	179193185	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	agggcccaggaggggcctcaGagctgtcctctgcccaccag	14	15	2	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr5:179193185G>T	ENST00000292599.3	+	2	1437	c.1174G>T	c.(1174-1176)Gag>Tag	p.E392*	MAML1_ENST00000503050.1_3'UTR	NM_014757.4	NP_055572.1			mastermind-like 1 (Drosophila)											central_nervous_system(1)|cervix(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(16)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	36	all_cancers(89;0.000197)|all_epithelial(37;6.7e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0308)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGGGGCCTCAGAGCTGTCCTC	0.657																																																0													42	46	45					5																	179193185		2203	4300	6503	SO:0001587	stop_gained	9794			D83785	CCDS34315.1	5q35	2008-07-18	2001-11-28			ENSG00000161021			13632	protein-coding gene	gene with protein product	"mastermind homolog"	605424	"mastermind (drosophila)-like 1"			11101851, 11390662	Standard	NM_014757		Approved	KIAA0200, Mam-1	uc003mkm.3	Q92585		ENST00000292599.3:c.1174G>T	5.37:g.179193185G>T	ENSP00000292599:p.Glu392*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000292599.3	37	CCDS34315.1	.	.	.	.	.	.	.	.	.	.	G	39	7.386389	0.98252	.	.	ENSG00000161021	ENST00000292599;ENST00000376951	.	.	.	4.88	4.88	0.63580	.	0.000000	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.29301	T	0.29	-25.6288	18.0213	0.89255	0.0:0.0:1.0:0.0	.	.	.	.	X	392;429	.	ENSP00000292599:E392X	E	+	1	0	MAML1	179125791	1.000000	0.71417	1.000000	0.80357	0.960000	0.62799	9.169000	0.94788	2.250000	0.74265	0.305000	0.20034	GAG		0.657	MAML1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372316.2	NM_014757		T	179193185	G	T	179193185	4	4	616	1	0	0	0	0	0	1	0	0	9212	943	33	4	1180	4	MAML1	5	179193185	Nonsense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	1612453	179193185	1722075	41	37593										
TBC1D9B	23061	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	179320371	179320371	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ggaacatggagaagaagagcTcctggtcgcgggtgtccaca	15	9	0	3			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr5:179320371T>A	ENST00000356834.3	-	5	711	c.674A>T	c.(673-675)gAg>gTg	p.E225V	TBC1D9B_ENST00000355235.3_Missense_Mutation_p.E225V	NM_198868.2	NP_942568.2	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	225						integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)|Rab GTPase activator activity (GO:0005097)			breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(9)|prostate(2)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	28	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)			GAAGAAGAGCTCCTGGTCGCG	0.607																																																0													86	76	79					5																	179320371		2203	4300	6503	SO:0001583	missense	23061			AB014576	CCDS4450.1, CCDS43408.1	5q35.3	2013-01-10			ENSG00000197226	ENSG00000197226		"EF-hand domain containing"	29097	protein-coding gene	gene with protein product						9734811	Standard	NM_198868		Approved	KIAA0676	uc003mlh.3	Q66K14	OTTHUMG00000130911	ENST00000356834.3:c.674A>T	5.37:g.179320371T>A	ENSP00000349291:p.Glu225Val	Somatic		WXS	Illumina HiSeq	Phase_I	D3DWQ5|D3DWQ6|O75163|Q53EY0|Q6MZI2|Q96H49	Missense_Mutation	SNP	ENST00000356834.3	37	CCDS43408.1	.	.	.	.	.	.	.	.	.	.	T	21.8	4.196607	0.79015	.	.	ENSG00000197226	ENST00000356834;ENST00000355235	T;T	0.11712	2.75;2.84	4.57	4.57	0.56435	.	0.000000	0.85682	D	0.000000	T	0.26304	0.0642	L	0.58810	1.83	0.80722	D	1	D;D;P	0.69078	0.997;0.995;0.79	P;P;B	0.62649	0.87;0.905;0.441	T	0.01087	-1.1456	10	0.59425	D	0.04	-27.504	14.075	0.64885	0.0:0.0:0.0:1.0	.	225;225;225	A1L3A9;Q66K14-2;Q66K14	.;.;TBC9B_HUMAN	V	225	ENSP00000349291:E225V;ENSP00000347375:E225V	ENSP00000347375:E225V	E	-	2	0	TBC1D9B	179252977	1.000000	0.71417	1.000000	0.80357	0.716000	0.41182	7.791000	0.85805	1.929000	0.55896	0.260000	0.18958	GAG		0.607	TBC1D9B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000253501.3	NM_015043		A	179320371	T	A	179320371	3	1	616	1	0	0	0	0	1	0	0	0	15640	1551	54	5	3150	5	TBC1D9B	5	179320371	Missense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08	127186	179320371	1594889	42	37594										
TBC1D7	51256	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	13307966	13307966	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tccagattcaagtattgttcAaacgcttttggctaaagatt	7	7	2	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr6:13307966A>C	ENST00000379300.3	-	6	774	c.531T>G	c.(529-531)ttT>ttG	p.F177L	TBC1D7_ENST00000343141.4_Missense_Mutation_p.F131L|TBC1D7_ENST00000607532.1_5'UTR|TBC1D7_ENST00000607658.1_Missense_Mutation_p.F150L|TBC1D7_ENST00000379307.2_Missense_Mutation_p.F150L|TBC1D7_ENST00000356436.4_Missense_Mutation_p.F177L	NM_001143964.2|NM_016495.4	NP_001137436.1|NP_057579.1	Q9P0N9	TBCD7_HUMAN	TBC1 domain family, member 7	177	Rab-GAP TBC. {ECO:0000255|PROSITE- ProRule:PRU00163}.				activation of Rho GTPase activity (GO:0032862)|negative regulation of cilium assembly (GO:1902018)|negative regulation of TOR signaling (GO:0032007)|positive regulation of GTP catabolic process (GO:0033126)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of Rab GTPase activity (GO:0032851)|response to growth factor (GO:0070848)	ciliary basal body (GO:0036064)|cytoplasmic vesicle (GO:0031410)	Rab GTPase activator activity (GO:0005097)|Rab GTPase binding (GO:0017137)			breast(1)|endometrium(1)|large_intestine(4)|lung(14)|ovary(1)|stomach(1)	22	Breast(50;0.0296)|Ovarian(93;0.0339)	all_hematologic(90;0.135)	Epithelial(50;0.0784)|BRCA - Breast invasive adenocarcinoma(129;0.13)|all cancers(50;0.21)			AGTATTGTTCAAACGCTTTTG	0.398																																																0													74	70	71					6																	13307966		2203	4300	6503	SO:0001583	missense	51256			AF151073	CCDS4523.1, CCDS47376.1, CCDS58995.1	6p23	2013-07-10			ENSG00000145979	ENSG00000145979			21066	protein-coding gene	gene with protein product		612655				11042152, 17646400	Standard	XM_005249163		Approved	dJ257A7.3, FLJ32666	uc003nan.3	Q9P0N9	OTTHUMG00000014272	ENST00000379300.3:c.531T>G	6.37:g.13307966A>C	ENSP00000368602:p.Phe177Leu	Somatic		WXS	Illumina HiSeq	Phase_I	E7EV96|Q2TU37|Q53F44|Q5SZL7|Q86VM8|Q96MB8	Missense_Mutation	SNP	ENST00000379300.3	37	CCDS4523.1	.	.	.	.	.	.	.	.	.	.	A	6.453	0.451648	0.12223	.	.	ENSG00000145979	ENST00000334971;ENST00000356436;ENST00000379300;ENST00000379307;ENST00000343141;ENST00000452989;ENST00000450347;ENST00000422136;ENST00000446018;ENST00000420456	T;T;T;T;T;T;T;T;T	0.26660	2.42;2.42;2.42;2.42;2.42;2.42;2.42;2.42;1.72	6.17	1.03	0.20045	Rab-GAP/TBC domain (3);	0.105355	0.64402	D	0.000003	T	0.02970	0.0088	N	0.11154	0.105	0.48236	D	0.999617	B;B;B;B	0.09022	0.0;0.0;0.0;0.002	B;B;B;B	0.08055	0.0;0.003;0.001;0.002	T	0.35450	-0.9788	10	0.08837	T	0.75	-16.1625	5.7639	0.18215	0.5313:0.2616:0.2071:0.0	.	131;150;150;177	Q2TU37;Q5SZL5;Q9P0N9-2;Q9P0N9	.;.;.;TBCD7_HUMAN	L	118;177;177;150;131;150;150;177;150;150	ENSP00000348813:F177L;ENSP00000368602:F177L;ENSP00000368609:F150L;ENSP00000343100:F131L;ENSP00000414292:F150L;ENSP00000404680:F150L;ENSP00000394425:F177L;ENSP00000417005:F150L;ENSP00000412102:F150L	ENSP00000334212:F118L	F	-	3	2	TBC1D7	13415945	0.997000	0.39634	1.000000	0.80357	0.901000	0.52897	0.600000	0.24104	0.165000	0.19558	0.533000	0.62120	TTT		0.398	TBC1D7-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039896.2	NM_016495		C	13307966	A	C	13307966	3	2	616	1	0	0	0	0	1	0	0	0	15636	127	5	5	362	5	TBC1D7	6	13307966	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08		13307966	157807101	43	37595										
ZNF292	23036	broad.mit.edu	37	chr6	87928395	87928395	+	Frame_Shift_Del	DEL	A	A	-													0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ctcaagagactggggtgtggAaaaacccggtactgtgcact							TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr6:87928395delA	ENST00000369577.3	+	4	527	c.484delA	c.(484-486)aaafs	p.K162fs	ZNF292_ENST00000369578.2_3'UTR|ZNF292_ENST00000339907.4_Frame_Shift_Del_p.K162fs	NM_015021.1	NP_055836.1	O60281	ZN292_HUMAN	zinc finger protein 292	162						nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(27)|lung(21)|ovary(4)|prostate(6)|upper_aerodigestive_tract(1)|urinary_tract(2)	89		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		TGGGGTGTGGAAAAACCCGGT	0.368																																																0													42	41	42					6																	87928395		1826	4076	5902	SO:0001589	frameshift_variant	23036			AB011102	CCDS47457.1	6q15	2008-10-23			ENSG00000188994	ENSG00000188994		"Zinc fingers, C2H2-type"	18410	protein-coding gene	gene with protein product						9628581	Standard	NM_015021		Approved	KIAA0530, ZFP292, bA393I2.3, Zn-15, Zn-16	uc003plm.4	O60281	OTTHUMG00000015164	ENST00000369577.3:c.484delA	6.37:g.87928395delA	ENSP00000358590:p.Lys162fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5W0B2|Q7Z3L7|Q9H8G3|Q9H8J4	Frame_Shift_Del	DEL	ENST00000369577.3	37	CCDS47457.1																																																																																				0.368	ZNF292-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000376192.2	NM_015021		-	87928395	A	-	87928395	7	5	616	1	0	1	0	1	0	0	0	0	17838	247	9	0	498	0	ZNF292	6	87928395	Frame_Shift_Del	DEL	A	TCGA-IZ-8195-01A-31D-2396-08	74620429	87928395	83186672	44	37596										
AIM1	202	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	106968989	106968991	+	In_Frame_Del	DEL	TCT	TCT	-													0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ttgaacaaagaacagtcaaaTcttctgcccgacaactcctt							TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	TCT	TCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr6:106968989_106968991delTCT	ENST00000369066.3	+	2	3169_3171	c.2682_2684delTCT	c.(2680-2685)aatctt>aat	p.L896del		NM_001624.2	NP_001615	Q9UMX9	S45A2_HUMAN	absent in melanoma 1	0					developmental pigmentation (GO:0048066)|melanin biosynthetic process (GO:0042438)|response to stimulus (GO:0050896)|visual perception (GO:0007601)	integral component of membrane (GO:0016021)				breast(8)|central_nervous_system(1)|cervix(2)|endometrium(6)|kidney(7)|large_intestine(13)|lung(20)|ovary(5)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	69	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		AACAGTCAAATCTTCTGCCCGAC	0.463																																																0																																										SO:0001651	inframe_deletion	202			U83115	CCDS34506.1	6q21	2014-01-29			ENSG00000112297	ENSG00000112297			356	protein-coding gene	gene with protein product	"suppression of tumorigenicity 4", "beta-gamma crystallin domain containing 1"	601797	"suppression of tumorigenicity 4 (malignant melanoma)"	ST4		1680551, 12693952	Standard	NM_001624		Approved	CRYBG1	uc003prh.3	Q9Y4K1	OTTHUMG00000015302	ENST00000369066.3:c.2682_2684delTCT	6.37:g.106968992_106968994delTCT	ENSP00000358062:p.Leu896del	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P2P0|Q9BTM3	In_Frame_Del	DEL	ENST00000369066.3	37	CCDS34506.1																																																																																				0.463	AIM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041669.1			-	106968991	TCT	-	106968989	7	5	616	1	0	1	0	1	0	0	0	0	430	1432	50	0	2688	0	AIM1	6	106968989	In_Frame_Del	DEL	TCT	TCGA-IZ-8195-01A-31D-2396-08	19040594	106968989	64146078	45	37597										
AHI1	54806	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	135644423	135644423	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tccgcgatggatggttagttCatctgatcgattcgctgtgt	12	8	2	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr6:135644423C>A	ENST00000367800.4	-	23	3421	c.3205G>T	c.(3205-3207)Gaa>Taa	p.E1069*	AHI1_ENST00000457866.2_Nonsense_Mutation_p.E1069*|AHI1_ENST00000417892.2_Nonsense_Mutation_p.E423*	NM_001134830.1	NP_001128302.1	Q8N157	AHI1_HUMAN	Abelson helper integration site 1	1069	SH3. {ECO:0000255|PROSITE- ProRule:PRU00192}.				cellular protein localization (GO:0034613)|central nervous system development (GO:0007417)|cilium assembly (GO:0042384)|cilium morphogenesis (GO:0060271)|cloaca development (GO:0035844)|heart looping (GO:0001947)|hindbrain development (GO:0030902)|Kupffer's vesicle development (GO:0070121)|left/right axis specification (GO:0070986)|morphogenesis of a polarized epithelium (GO:0001738)|negative regulation of apoptotic process (GO:0043066)|otic vesicle development (GO:0071599)|photoreceptor cell outer segment organization (GO:0035845)|positive regulation of polarized epithelial cell differentiation (GO:0030862)|positive regulation of receptor internalization (GO:0002092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|pronephric duct morphogenesis (GO:0039023)|pronephric nephron tubule morphogenesis (GO:0039008)|protein localization to organelle (GO:0033365)|regulation of behavior (GO:0050795)|retina layer formation (GO:0010842)|specification of axis polarity (GO:0065001)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|vesicle targeting (GO:0006903)|vesicle-mediated transport (GO:0016192)	adherens junction (GO:0005912)|cell-cell junction (GO:0005911)|centriole (GO:0005814)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cilium (GO:0005929)|nonmotile primary cilium (GO:0031513)|photoreceptor outer segment (GO:0001750)|primary cilium (GO:0072372)|TCTN-B9D complex (GO:0036038)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(6)|lung(18)|ovary(1)	37	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)		ATGGTTAGTTCATCTGATCGA	0.438																																																0													99	91	93					6																	135644423		1940	4132	6072	SO:0001587	stop_gained	54806			AJ459824	CCDS47483.1, CCDS47484.1	6q23.2	2013-01-10	2005-11-29		ENSG00000135541	ENSG00000135541		"WD repeat domain containing"	21575	protein-coding gene	gene with protein product	"Jouberin"	608894	"Abelson helper integration site"			15060101, 16240161	Standard	NM_017651		Approved	FLJ20069, ORF1, JBTS3	uc003qgj.3	Q8N157	OTTHUMG00000015631	ENST00000367800.4:c.3205G>T	6.37:g.135644423C>A	ENSP00000356774:p.Glu1069*	Somatic		WXS	Illumina HiSeq	Phase_I	E1P584|Q4FD35|Q504T3|Q5TCP9|Q6P098|Q6PIT6|Q8NDX0|Q9H0H2	Nonsense_Mutation	SNP	ENST00000367800.4	37	CCDS47483.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	39|39	7.418512|7.418512	0.98272|0.98272	.|.	.|.	ENSG00000135541|ENSG00000135541	ENST00000367800;ENST00000457866;ENST00000417892;ENST00000265602|ENST00000367799	.|.	.|.	.|.	6.06|6.06	6.06|6.06	0.98353|0.98353	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	.|T	.|0.72606	.|0.3481	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.68503	.|-0.5391	.|4	0.52906|.	T|.	0.07|.	-28.0524|-28.0524	20.6208|20.6208	0.99490|0.99490	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|.	.|.	.|.	X|I	1069;1069;423;1069|568	.|.	ENSP00000265602:E1069X|.	E|M	-|-	1|3	0|0	AHI1|AHI1	135686116|135686116	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.999000|0.999000	0.98932|0.98932	7.487000|7.487000	0.81328|0.81328	2.882000|2.882000	0.98803|0.98803	0.655000|0.655000	0.94253|0.94253	GAA|ATG		0.438	AHI1-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391948.1	NM_017651		A	135644423	C	A	135644423	4	1	616	1	0	0	0	0	0	1	0	0	413	835	29	4	405	4	AHI1	6	135644423	Nonsense_Mutation	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	28675434	135644423	35470644	46	37598										
REPS1	85021	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	139251190	139251190	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	acttgcttggaggagcttcaGcaggagagcctgaataacct	12	9	1	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr6:139251190G>C	ENST00000450536.2	-	9	1755	c.1181C>G	c.(1180-1182)gCt>gGt	p.A394G	REPS1_ENST00000367663.4_Missense_Mutation_p.A394G|REPS1_ENST00000415951.2_Missense_Mutation_p.A394G|REPS1_ENST00000258062.5_Missense_Mutation_p.A394G|REPS1_ENST00000409812.2_Missense_Mutation_p.A394G			Q96D71	REPS1_HUMAN	RALBP1 associated Eps domain containing 1	394					receptor-mediated endocytosis (GO:0006898)	coated pit (GO:0005905)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|SH3 domain binding (GO:0017124)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(8)|upper_aerodigestive_tract(2)	19				GBM - Glioblastoma multiforme(68;0.000434)|OV - Ovarian serous cystadenocarcinoma(155;0.000548)		AGGAGCTTCAGCAGGAGAGCC	0.418																																																0													146	123	131					6																	139251190		2203	4300	6503	SO:0001583	missense	85021				CCDS5193.2, CCDS47488.1, CCDS69212.1, CCDS69213.1	6q24.1	2013-01-10			ENSG00000135597	ENSG00000135597		"EF-hand domain containing"	15578	protein-coding gene	gene with protein product		614825					Standard	XM_005267177		Approved		uc011edr.2	Q96D71	OTTHUMG00000015685	ENST00000450536.2:c.1181C>G	6.37:g.139251190G>C	ENSP00000392065:p.Ala394Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBZ8|B7ZBZ9|B7ZC00|J3KP76|Q5JWJ5|Q5JWJ6|Q5JWJ7|Q8NDR7|Q8WU62|Q9BXY9	Missense_Mutation	SNP	ENST00000450536.2	37		.	.	.	.	.	.	.	.	.	.	G	14.17	2.454329	0.43634	.	.	ENSG00000135597	ENST00000450536;ENST00000367663;ENST00000529597;ENST00000409812;ENST00000258062;ENST00000415951;ENST00000367668	T;T;T;T;T;T	0.34667	1.37;1.35;1.37;1.37;1.37;1.36	5.72	5.72	0.89469	.	0.168464	0.53938	D	0.000060	T	0.17534	0.0421	L	0.36672	1.1	0.46749	D	0.999188	B;B;P;B;B	0.38504	0.005;0.007;0.634;0.002;0.361	B;B;B;B;B	0.33620	0.009;0.006;0.167;0.002;0.081	T	0.02691	-1.1123	10	0.24483	T	0.36	-10.4052	18.069	0.89399	0.0:0.0:1.0:0.0	.	394;342;394;394;394	Q96D71-3;B2R7D3;Q96D71-2;Q96D71;E9PMG1	.;.;.;REPS1_HUMAN;.	G	394;394;380;394;394;394;342	ENSP00000392065:A394G;ENSP00000356635:A394G;ENSP00000434251:A380G;ENSP00000386699:A394G;ENSP00000258062:A394G;ENSP00000397941:A394G	ENSP00000258062:A394G	A	-	2	0	REPS1	139292883	1.000000	0.71417	0.986000	0.45419	0.985000	0.73830	7.353000	0.79414	2.700000	0.92200	0.563000	0.77884	GCT		0.418	REPS1-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000042447.3			C	139251190	G	C	139251190	3	2	616	1	0	0	0	0	1	0	0	0	13241	971	34	4	1257	4	REPS1	6	139251190	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	3606767	139251190	31863877	47	37599										
UST	10090	hgsc.bcm.edu	37	chr6	149068615	149068615	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gcggcgcggatccctggcccCatggggcccctatggggggc	18	15	0	0	rs559911654		TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr6:149068615C>T	ENST00000367463.4	+	1	152	c.49C>T	c.(49-51)Cat>Tat	p.H17Y		NM_005715.2	NP_005706.1	Q9Y2C2	UST_HUMAN	uronyl-2-sulfotransferase	17					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|glycosaminoglycan metabolic process (GO:0030203)|protein sulfation (GO:0006477)|small molecule metabolic process (GO:0044281)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	sulfotransferase activity (GO:0008146)			breast(1)|endometrium(3)|large_intestine(4)|lung(2)|ovary(2)	12		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.78e-10)|GBM - Glioblastoma multiforme(68;0.138)		TCCCTGGCCCCATGGGGCCCC	0.706													C|||	1	0.000199681	0.0	0.0	5008	,	,		9452	0.001		0.0	False		,,,				2504	0.0															0													5	7	7					6																	149068615		2063	4069	6132	SO:0001583	missense	10090			AB020316	CCDS5213.1	6q25.1	2008-02-05			ENSG00000111962	ENSG00000111962		"Sulfotransferases, membrane-bound"	17223	protein-coding gene	gene with protein product		610752				10187838	Standard	NM_005715		Approved	2OST	uc003qmg.3	Q9Y2C2	OTTHUMG00000016135	ENST00000367463.4:c.49C>T	6.37:g.149068615C>T	ENSP00000356433:p.His17Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCX6	Missense_Mutation	SNP	ENST00000367463.4	37	CCDS5213.1	.	.	.	.	.	.	.	.	.	.	c	4.610	0.113276	0.08831	.	.	ENSG00000111962	ENST00000367463	T	0.47177	0.85	3.58	2.71	0.32032	.	0.732533	0.12547	N	0.459427	T	0.10551	0.0258	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.24657	-1.0154	10	0.87932	D	0	-3.7085	5.6822	0.17782	0.0:0.75:0.0:0.2499	.	17	Q9Y2C2	UST_HUMAN	Y	17	ENSP00000356433:H17Y	ENSP00000356433:H17Y	H	+	1	0	UST	149110308	1.000000	0.71417	0.941000	0.38009	0.005000	0.04900	3.877000	0.56123	0.694000	0.31654	-0.157000	0.13467	CAT		0.706	UST-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043363.1	NM_005715		T	149068615	C	T	149068615	3	4	616	1	0	0	0	0	1	0	0	0	17105	594	21	2	51	2	UST	6	149068615	Missense_Mutation	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	9817425	149068615	22046452	48	37600										
HOXA3	3200	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	27147884	27147884	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	cgcccctgccgccgtgtagcGcttctgtgggggtggcgggg	19	13	1	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr7:27147884G>A	ENST00000396352.4	-	3	1181	c.982C>T	c.(982-984)Cgc>Tgc	p.R328C	HOXA3_ENST00000521401.1_5'Flank|HOXA3_ENST00000317201.2_Missense_Mutation_p.R328C|HOXA-AS2_ENST00000518088.1_RNA	NM_030661.4	NP_109377.1	O43365	HXA3_HUMAN	homeobox A3	328					angiogenesis (GO:0001525)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|cervix(1)|endometrium(3)|large_intestine(4)|lung(18)|skin(1)	29						GCCGTGTAGCGCTTCTGTGGG	0.726																																					Esophageal Squamous(136;1368 1743 5685 7935 50360)											0													6	8	7					7																	27147884		2050	4012	6062	SO:0001583	missense	3200				CCDS5404.1	7p15.2	2011-06-20	2005-12-22		ENSG00000105997	ENSG00000105997		"Homeoboxes / ANTP class : HOXL subclass"	5104	protein-coding gene	gene with protein product		142954	"homeo box A3"	HOX1E, HOX1		1973146, 1358459	Standard	XM_005249730		Approved		uc011jzl.2	O43365	OTTHUMG00000023209	ENST00000396352.4:c.982C>T	7.37:g.27147884G>A	ENSP00000379640:p.Arg328Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A4D181	Missense_Mutation	SNP	ENST00000396352.4	37	CCDS5404.1	.	.	.	.	.	.	.	.	.	.	G	13.00	2.104964	0.37145	.	.	ENSG00000105997	ENST00000396352;ENST00000317201;ENST00000396350	D;D	0.86769	-2.17;-2.17	5.68	4.8	0.61643	.	0.046305	0.85682	D	0.000000	D	0.89842	0.6832	M	0.79123	2.44	0.80722	D	1	D	0.62365	0.991	P	0.50231	0.635	D	0.90827	0.4713	10	0.87932	D	0	.	13.1397	0.59428	0.0:0.0:0.5656:0.4344	.	328	O43365	HXA3_HUMAN	C	328;328;170	ENSP00000379640:R328C;ENSP00000324884:R328C	ENSP00000324884:R328C	R	-	1	0	HOXA3	27114409	1.000000	0.71417	1.000000	0.80357	0.869000	0.49853	3.812000	0.55628	1.395000	0.46643	0.655000	0.94253	CGC		0.726	HOXA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358708.2			A	27147884	G	A	27147884	3	1	616	1	0	0	0	0	1	0	0	0	7300	1087	38	1	353	1	HOXA3	7	27147884	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08		27147884	131990779	49	37601										
ABCA13	154664	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	48411809	48411809	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ccagtgatccatttcctggcCtggttcctggagaacatggc	11	12	0	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr7:48411809C>A	ENST00000435803.1	+	33	10872	c.10848C>A	c.(10846-10848)gcC>gcA	p.A3616A		NM_152701.3	NP_689914.2	Q86UQ4	ABCAD_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 13	3616					transport (GO:0006810)	integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)			breast(13)|central_nervous_system(8)|endometrium(25)|haematopoietic_and_lymphoid_tissue(4)|kidney(20)|large_intestine(51)|lung(100)|ovary(5)|pancreas(2)|prostate(22)|skin(10)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(4)	270						ATTTCCTGGCCTGGTTCCTGG	0.463																																																0													178	170	173					7																	48411809		2026	4187	6213	SO:0001819	synonymous_variant	154664			AY204751	CCDS47584.1	7p12.3	2012-03-14			ENSG00000179869	ENSG00000179869		"ATP binding cassette transporters / subfamily A"	14638	protein-coding gene	gene with protein product		607807				12697998	Standard	NM_152701		Approved	FLJ33876, FLJ33951	uc003toq.2	Q86UQ4	OTTHUMG00000155840	ENST00000435803.1:c.10848C>A	7.37:g.48411809C>A		Somatic		WXS	Illumina HiSeq	Phase_I	K9LC76|K9LC79|K9LCX7|K9LDK8|K9LDY4|Q6ZTT7|Q86WI2|Q8N248	Silent	SNP	ENST00000435803.1	37	CCDS47584.1																																																																																				0.463	ABCA13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341964.2	NM_152701		A	48411809	C	A	48411809	2	1	616	1	0	0	0	0	0	0	0	1	31	668	24	4		4	ABCA13	7	48411809	Silent	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	21263925	48411809	110726854	50	37602										
TMEM139	135932	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	142983611	142983611	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	agttggaccaaccaccccccTacagcactgttgtgataccc	7	16	0	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr7:142983611T>C	ENST00000359333.3	+	3	853	c.340T>C	c.(340-342)Tac>Cac	p.Y114H	TMEM139_ENST00000409102.1_Missense_Mutation_p.Y114H|CASP2_ENST00000392925.2_5'Flank|TMEM139_ENST00000471161.1_3'UTR|AC073342.12_ENST00000446192.1_RNA|TMEM139_ENST00000409244.1_Missense_Mutation_p.Y114H|TMEM139_ENST00000409541.1_Missense_Mutation_p.Y114H|TMEM139_ENST00000410004.1_Missense_Mutation_p.Y114H|CASP2_ENST00000310447.5_5'Flank|AC073342.12_ENST00000427392.1_RNA	NM_001242775.2|NM_001282876.1|NM_001282877.1	NP_001229704.1|NP_001269805.1|NP_001269806.1	Q8IV31	TM139_HUMAN	transmembrane protein 139	114						integral component of membrane (GO:0016021)				endometrium(1)|lung(4)|ovary(1)|prostate(1)	7	Melanoma(164;0.059)					ACCACCCCCCTACAGCACTGT	0.577																																																0													72	77	75					7																	142983611		2203	4300	6503	SO:0001583	missense	135932			AK075067	CCDS5878.1	7q34	2006-03-17			ENSG00000178826	ENSG00000178826			22058	protein-coding gene	gene with protein product							Standard	NM_153345		Approved	FLJ90586	uc003wck.4	Q8IV31	OTTHUMG00000152652	ENST00000359333.3:c.340T>C	7.37:g.142983611T>C	ENSP00000352284:p.Tyr114His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCL5|D3DXD4|Q6ZME2|Q8NC22|Q96AU8	Missense_Mutation	SNP	ENST00000359333.3	37	CCDS5878.1	.	.	.	.	.	.	.	.	.	.	T	17.45	3.391665	0.62066	.	.	ENSG00000178826	ENST00000409102;ENST00000359333;ENST00000409244;ENST00000409541;ENST00000410004	.	.	.	5.1	5.1	0.69264	.	0.000000	0.56097	D	0.000028	T	0.72423	0.3458	M	0.65498	2.005	0.36979	D	0.894208	D	0.89917	1.0	D	0.91635	0.999	T	0.79264	-0.1875	9	0.87932	D	0	-14.1344	11.6253	0.51142	0.0:0.0:0.0:1.0	.	114	Q8IV31	TM139_HUMAN	H	114	.	ENSP00000352284:Y114H	Y	+	1	0	TMEM139	142693733	0.999000	0.42202	0.998000	0.56505	0.511000	0.34104	3.868000	0.56055	2.076000	0.62316	0.456000	0.33151	TAC		0.577	TMEM139-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327145.1	NM_153345		C	142983611	T	C	142983611	3	2	616	1	0	0	0	0	1	0	0	0	16066	1522	53	3	346	3	TMEM139	7	142983611	Missense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08	94571802	142983611	16155052	51	37603										
CA8	767	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	61192348	61192348	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gagaggcggacatccaacagCgaggggtcatacctagcctc	13	12	1	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr8:61192348C>T	ENST00000317995.4	-	2	456	c.192G>A	c.(190-192)tcG>tcA	p.S64S		NM_004056.4	NP_004047.3	P35219	CAH8_HUMAN	carbonic anhydrase VIII	64					one-carbon metabolic process (GO:0006730)|phosphatidylinositol-mediated signaling (GO:0048015)	cytoplasm (GO:0005737)	carbonate dehydratase activity (GO:0004089)|zinc ion binding (GO:0008270)			endometrium(2)|large_intestine(5)|lung(6)|prostate(2)|skin(1)	16		all_cancers(86;0.172)|all_epithelial(80;0.0383)|all_lung(136;0.0413)|Lung NSC(129;0.0474)			Zonisamide(DB00909)	CATCCAACAGCGAGGGGTCAT	0.473																																																0													92	86	88					8																	61192348		2203	4300	6503	SO:0001819	synonymous_variant	767			L04656	CCDS6174.1	8q12.1	2012-08-21			ENSG00000178538	ENSG00000178538		"Carbonic anhydrases"	1382	protein-coding gene	gene with protein product		114815		CALS		17219437	Standard	NM_004056		Approved	CARP	uc003xtz.1	P35219	OTTHUMG00000165325	ENST00000317995.4:c.192G>A	8.37:g.61192348C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0A5|B3KQZ7|Q32MY2	Silent	SNP	ENST00000317995.4	37	CCDS6174.1																																																																																				0.473	CA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383445.1			T	61192348	C	T	61192348	2	4	616	1	0	0	0	0	0	0	0	1	2525	755	27	1		1	CA8	8	61192348	Silent	SNP	C	TCGA-IZ-8195-01A-31D-2396-08		61192348	85171674	52	37604										
ZC3H3	23144	hgsc.bcm.edu	37	chr8	144550696	144550696	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gccggatgatggccaggctgCgctgcactgcccggctgcag	16	14	0	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr8:144550696C>T	ENST00000262577.5	-	7	1992	c.1961G>A	c.(1960-1962)cGc>cAc	p.R654H		NM_015117.2	NP_055932.2	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	654					mRNA polyadenylation (GO:0006378)|poly(A)+ mRNA export from nucleus (GO:0016973)|regulation of mRNA export from nucleus (GO:0010793)	nucleus (GO:0005634)	metal ion binding (GO:0046872)			breast(1)|endometrium(2)|kidney(2)|large_intestine(1)|lung(13)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	23	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			GGCCAGGCTGCGCTGCACTGC	0.677																																																0													24	30	28					8																	144550696		2191	4297	6488	SO:0001583	missense	23144			D63484	CCDS6402.1	8q24.3	2012-07-05	2005-06-02	2005-06-02	ENSG00000014164	ENSG00000014164		"Zinc fingers, CCCH-type domain containing"	28972	protein-coding gene	gene with protein product			"zinc finger CCCH-type domain containing 3"	ZC3HDC3		8590280	Standard	NM_015117		Approved	KIAA0150	uc003yyd.2	Q8IXZ2	OTTHUMG00000165127	ENST00000262577.5:c.1961G>A	8.37:g.144550696C>T	ENSP00000262577:p.Arg654His	Somatic		WXS	Illumina HiSeq	Phase_I	Q14163|Q8N4E2|Q9BUS4	Missense_Mutation	SNP	ENST00000262577.5	37	CCDS6402.1	.	.	.	.	.	.	.	.	.	.	C	27.8	4.864699	0.91511	.	.	ENSG00000014164	ENST00000262577	T	0.04049	3.72	5.01	5.01	0.66863	.	0.000000	0.64402	D	0.000001	T	0.21267	0.0512	M	0.68952	2.095	0.58432	D	0.999999	D	0.89917	1.0	D	0.87578	0.998	T	0.00382	-1.1775	10	0.72032	D	0.01	-20.1301	18.3055	0.90179	0.0:1.0:0.0:0.0	.	654	Q8IXZ2	ZC3H3_HUMAN	H	654	ENSP00000262577:R654H	ENSP00000262577:R654H	R	-	2	0	ZC3H3	144621839	1.000000	0.71417	1.000000	0.80357	0.787000	0.44495	7.212000	0.77941	2.348000	0.79779	0.561000	0.74099	CGC		0.677	ZC3H3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382011.2	NM_015117		T	144550696	C	T	144550696	3	4	616	1	0	0	0	0	1	0	0	0	17581	768	27	1	909	1	ZC3H3	8	144550696	Missense_Mutation	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	83358348	144550696	1813326	53	37605										
MAPK15	225689	hgsc.bcm.edu	37	chr8	144802400	144802400	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	accaccttctgctgccccagAcctcctggctctcggctcag	8	19	3	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr8:144802400A>G	ENST00000338033.4	+	8	841	c.722A>G	c.(721-723)gAc>gGc	p.D241G	RP11-429J17.5_ENST00000527908.1_RNA|MAPK15_ENST00000395107.4_Splice_Site_p.D258G|MAPK15_ENST00000395108.2_Intron	NM_139021.2	NP_620590.2	Q8TD08	MK15_HUMAN	mitogen-activated protein kinase 15	241	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				MAPK cascade (GO:0000165)|negative regulation of DNA replication (GO:0008156)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein ubiquitination (GO:0031398)|protein autophosphorylation (GO:0046777)|response to estradiol (GO:0032355)	extracellular region (GO:0005576)|intracellular (GO:0005622)|nucleus (GO:0005634)	ATP binding (GO:0005524)|MAP kinase activity (GO:0004707)|SH3 domain binding (GO:0017124)			endometrium(1)|kidney(1)|large_intestine(1)|lung(6)|prostate(1)|skin(1)|stomach(1)	12	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;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			GCTGCCCCAGACCTCCTGGCT	0.682																																																0													25	24	24					8																	144802400		2195	4292	6487	SO:0001630	splice_region_variant	225689			AY065978	CCDS6409.2	8q24.3	2011-06-09			ENSG00000181085	ENSG00000181085		"Mitogen-activated protein kinase cascade / Kinases"	24667	protein-coding gene	gene with protein product	"extracellular signal regulated kinase 8"					11875070	Standard	XM_006716528		Approved	ERK8, ERK7	uc003yzj.3	Q8TD08	OTTHUMG00000146450	ENST00000338033.4:c.722-1A>G	8.37:g.144802400A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q2TCF9|Q8N362	Missense_Mutation	SNP	ENST00000338033.4	37	CCDS6409.2	.	.	.	.	.	.	.	.	.	.	a	18.12	3.553270	0.65425	.	.	ENSG00000181085	ENST00000338033;ENST00000395107	T;T	0.67698	-0.28;-0.28	3.64	3.64	0.41730	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.053347	0.64402	D	0.000001	T	0.76730	0.4028	M	0.63428	1.95	0.80722	D	1	D	0.76494	0.999	D	0.77557	0.99	T	0.78455	-0.2197	10	0.87932	D	0	.	10.1299	0.42672	1.0:0.0:0.0:0.0	.	241	Q8TD08	MK15_HUMAN	G	241;258	ENSP00000337691:D241G;ENSP00000378539:D258G	ENSP00000337691:D241G	D	+	2	0	MAPK15	144874388	0.998000	0.40836	0.996000	0.52242	0.669000	0.39330	1.934000	0.40163	1.521000	0.48983	0.397000	0.26171	GAC		0.682	MAPK15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000300348.1	NM_139021	Missense_Mutation	G	144802400	A	G	144802400	5	3	616	1	0	0	0	0	0	0	1	0	9284	289	10	3	752	3	MAPK15	8	144802400	Splice_Site	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	251704	144802400	1561622	54	37606										
GPT	2875	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	145732311	145732312	+	Frame_Shift_Ins	INS	-	-	A													0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ggatgaccattctgccccccINSttggagaaactgcggctgct							TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr8:145732311_145732312insA	ENST00000528431.1	+	12	1576_1577	c.1419_1420insA	c.(1420-1422)ttgfs	p.L474fs	MFSD3_ENST00000301327.4_5'Flank|GPT_ENST00000394955.2_Frame_Shift_Ins_p.L474fs			P24298	ALAT1_HUMAN	glutamic-pyruvate transaminase (alanine aminotransferase)	474					cellular amino acid biosynthetic process (GO:0008652)|cellular nitrogen compound metabolic process (GO:0034641)|L-alanine catabolic process (GO:0042853)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	L-alanine:2-oxoglutarate aminotransferase activity (GO:0004021)|pyridoxal phosphate binding (GO:0030170)			central_nervous_system(1)|endometrium(1)|lung(2)|ovary(1)	5	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)		L-Alanine(DB00160)|Phenelzine(DB00780)	TTCTGCCCCCCTTGGAGAAACT	0.629																																																0																																										SO:0001589	frameshift_variant	2875				CCDS6430.1	8q24.3	2013-09-19			ENSG00000167701	ENSG00000167701	2.6.1.2		4552	protein-coding gene	gene with protein product		138200					Standard	NM_005309		Approved	ALT1, GPT1	uc003zdh.4	P24298	OTTHUMG00000165176	Exception_encountered	8.37:g.145732311_145732312insA	ENSP00000433586:p.Leu474fs	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ18|D3DWM7|P78398|Q93076	Frame_Shift_Ins	INS	ENST00000528431.1	37	CCDS6430.1																																																																																				0.629	GPT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382471.1			A	145732312	-	A	145732311	7	5	616	1	0	1	1	0	0	0	0	0	6744	668	24	0	1461	0	GPT	8	145732311	Frame_Shift_Ins	INS	-	TCGA-IZ-8195-01A-31D-2396-08	929911	145732311	631711	55	37607										
FBXO10	26267	hgsc.bcm.edu	37	chr9	37537315	37537315	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gcagtgagttcagcactaggCagctgggcagctgaatggat	15	8	1	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr9:37537315C>A	ENST00000432825.2	-	3	1259	c.1211G>T	c.(1210-1212)tGc>tTc	p.C404F	FBXO10_ENST00000541829.1_Intron|FBXO10_ENST00000543968.1_5'Flank|RP11-613M10.8_ENST00000544475.1_5'UTR	NM_012166.2	NP_036298.2	Q9UK96	FBX10_HUMAN	F-box protein 10	404					apoptotic process (GO:0006915)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|regulation of apoptotic process (GO:0042981)	cytoplasm (GO:0005737)|ubiquitin ligase complex (GO:0000151)	ubiquitin-protein transferase activity (GO:0004842)			breast(1)|endometrium(5)|large_intestine(11)|lung(15)|prostate(1)|upper_aerodigestive_tract(1)	34				GBM - Glioblastoma multiforme(29;0.0107)		CAGCACTAGGCAGCTGGGCAG	0.592																																																0													20	23	22					9																	37537315		2001	4173	6174	SO:0001583	missense	26267			AF174598	CCDS47966.1	9p13.1	2014-01-29	2004-06-15		ENSG00000147912	ENSG00000147912		"F-boxes /  "other""	13589	protein-coding gene	gene with protein product		609092	"F-box only protein 10"			10531035, 10531037, 19300908	Standard	NM_012166		Approved	FBX10	uc004aab.3	Q9UK96	OTTHUMG00000019926	ENST00000432825.2:c.1211G>T	9.37:g.37537315C>A	ENSP00000403802:p.Cys404Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q08AL3|Q08AL4|Q5JRT8|Q9UKC3	Missense_Mutation	SNP	ENST00000432825.2	37	CCDS47966.1	.	.	.	.	.	.	.	.	.	.	C	12.23	1.876989	0.33162	.	.	ENSG00000147912	ENST00000432825	T	0.43294	0.95	5.46	3.59	0.41128	Carbohydrate-binding/sugar hydrolysis domain (1);	0.267734	0.36134	N	0.002765	T	0.21103	0.0508	N	0.14661	0.345	0.80722	D	1	B	0.26775	0.159	B	0.20955	0.032	T	0.10154	-1.0642	10	0.52906	T	0.07	-29.5035	4.512	0.11915	0.1905:0.6273:0.0:0.1822	.	404	Q9UK96	FBX10_HUMAN	F	404	ENSP00000403802:C404F	ENSP00000276960:C404F	C	-	2	0	FBXO10	37527315	0.998000	0.40836	1.000000	0.80357	0.998000	0.95712	1.381000	0.34362	2.543000	0.85770	0.655000	0.94253	TGC		0.592	FBXO10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052472.3			A	37537315	C	A	37537315	3	1	616	1	0	0	0	0	1	0	0	0	5733	710	25	4	1695	4	FBXO10	9	37537315	Missense_Mutation	SNP	C	TCGA-IZ-8195-01A-31D-2396-08		37537315	103676116	56	37608										
CBWD3	220869	hgsc.bcm.edu	37	chr9	70490003	70490003	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tgcgtcgtctcaatgggaacCaattcaggacaatcctcctc	8	13	2	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr9:70490003C>A	ENST00000382405.3	-	1	243	c.66G>T	c.(64-66)ttG>ttT	p.L22F	CBWD5_ENST00000429800.2_Missense_Mutation_p.L22F|CBWD5_ENST00000377392.5_5'Flank|CBWD5_ENST00000377395.4_Missense_Mutation_p.L22F|CBWD5_ENST00000377384.1_Missense_Mutation_p.L22F|CBWD5_ENST00000430059.2_Missense_Mutation_p.L22F			Q5RIA9	CBWD5_HUMAN	COBW domain containing 5	22							ATP binding (GO:0005524)								all cancers(8;0.00136)|Epithelial(8;0.0288)|GBM - Glioblastoma multiforme(74;0.0402)|OV - Ovarian serous cystadenocarcinoma(323;0.18)		CAATGGGAACCAATTCAGGAC	0.537																																																0													5	4	4					9																	70490003		1428	2636	4064	SO:0001583	missense	220869			BC067803, BC082271	CCDS75841.1, CCDS75843.1, CCDS75844.1	9q13	2005-08-23			ENSG00000147996	ENSG00000147996			24584	protein-coding gene	gene with protein product	"dopamine responsive protein"						Standard	XM_005272748		Approved		uc004ack.3	Q5RIA9	OTTHUMG00000013336	ENST00000382405.3:c.66G>T	9.37:g.70490003C>A	ENSP00000371842:p.Leu22Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N7U8	Missense_Mutation	SNP	ENST00000382405.3	37		.	.	.	.	.	.	.	.	.	.	.	17.81	3.480990	0.63849	.	.	ENSG00000147996	ENST00000382405;ENST00000377395;ENST00000430059;ENST00000429800;ENST00000377384	T;T;T;T;T	0.53206	2.83;2.76;2.82;2.79;0.63	3.14	3.14	0.36123	.	0.000000	0.64402	D	0.000001	T	0.63331	0.2502	M	0.75884	2.315	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.999	T	0.65166	-0.6234	10	0.62326	D	0.03	-15.2117	7.7474	0.28877	0.2503:0.7497:0.0:0.0	.	22;22;22	B4DNG9;Q5RIA9-3;Q5RIA9	.;.;CBWD5_HUMAN	F	22	ENSP00000371842:L22F;ENSP00000366612:L22F;ENSP00000397999:L22F;ENSP00000405076:L22F;ENSP00000366601:L22F	ENSP00000366601:L22F	L	-	3	2	CBWD5	69729823	1.000000	0.71417	1.000000	0.80357	0.962000	0.63368	3.362000	0.52314	1.738000	0.51689	0.393000	0.25936	TTG		0.537	CBWD5-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000037131.2			A	70490003	C	A	70490003	3	1	616	1	0	0	0	0	1	0	0	0	2716	593	21	4	1181	4	CBWD3	9	70490003	Missense_Mutation	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	32952688	70490003	70723428	57	37609										
C9orf5	23731	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	111853340	111853340	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	cgttcctatttcaggccttcGtctgcccagagtaggtgaag	11	11	2	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr9:111853340G>A	ENST00000374586.3	-	5	1043	c.1012C>T	c.(1012-1014)Cga>Tga	p.R338*		NM_032012.3	NP_114401.2	Q9H330	TM245_HUMAN	transmembrane protein 245	338						integral component of membrane (GO:0016021)											TCAGGCCTTCGTCTGCCCAGA	0.502																																																0													102	105	104					9																	111853340		1918	4124	6042	SO:0001587	stop_gained	23731			AF153415	CCDS43858.1	9q31	2012-03-06	2012-03-06	2012-03-06	ENSG00000106771	ENSG00000106771			1363	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 5"	C9orf5		10564813	Standard	NM_032012		Approved	CG-2	uc004bdt.4	Q9H330	OTTHUMG00000020469	ENST00000374586.3:c.1012C>T	9.37:g.111853340G>A	ENSP00000363714:p.Arg338*	Somatic		WXS	Illumina HiSeq	Phase_I	B4DSW7|Q5JTQ5|Q5SS43|Q6ZME3|Q8NDJ5|Q96CG6	Nonsense_Mutation	SNP	ENST00000374586.3	37	CCDS43858.1	.	.	.	.	.	.	.	.	.	.	G	36	5.709073	0.96821	.	.	ENSG00000106771	ENST00000374587;ENST00000374586;ENST00000223608	.	.	.	5.68	3.78	0.43462	.	0.612323	0.16965	N	0.192324	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	0.7849	16.3662	0.83325	0.0:0.2216:0.7784:0.0	.	.	.	.	X	338	.	ENSP00000223608:R338X	R	-	1	2	C9orf5	110893161	1.000000	0.71417	0.646000	0.29493	0.959000	0.62525	3.441000	0.52893	0.708000	0.31955	0.563000	0.77884	CGA		0.502	TMEM245-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053587.2	NM_032012		A	111853340	G	A	111853340	4	1	616	1	0	0	0	0	0	1	0	0	2488	1153	40	1	1683	1	C9orf5	9	111853340	Nonsense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	41363337	111853340	29360091	58	37610										
C9orf171	389799	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	135447853	135447853	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	cccaccgggaagagtgtgccGtgcgccaggggaccctgcgg	17	14	0	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr9:135447853G>A	ENST00000343036.2	+	7	967	c.919G>A	c.(919-921)Gtg>Atg	p.V307M	C9orf171_ENST00000393216.2_Missense_Mutation_p.V271M	NM_207417.1	NP_997300.1	Q6ZQR2	CI171_HUMAN	chromosome 9 open reading frame 171	307										large_intestine(7)|lung(9)|ovary(4)|prostate(3)	23						AGAGTGTGCCGTGCGCCAGGG	0.602																																																0													54	52	53					9																	135447853		2203	4300	6503	SO:0001583	missense	389799			AK128819	CCDS6949.1, CCDS65167.1	9q34.13	2012-04-03			ENSG00000188523	ENSG00000188523			33776	protein-coding gene	gene with protein product							Standard	NM_207417		Approved	FLJ46082	uc004cbn.3	Q6ZQR2	OTTHUMG00000131684	ENST00000343036.2:c.919G>A	9.37:g.135447853G>A	ENSP00000343290:p.Val307Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q147X1	Missense_Mutation	SNP	ENST00000343036.2	37	CCDS6949.1	.	.	.	.	.	.	.	.	.	.	G	18.55	3.648988	0.67358	.	.	ENSG00000188523	ENST00000343036;ENST00000393216	T;T	0.24350	1.87;1.86	5.53	4.62	0.57501	.	0.411149	0.21865	N	0.067979	T	0.34193	0.0889	L	0.36672	1.1	0.21897	N	0.999488	D;D	0.76494	0.995;0.999	P;P	0.60117	0.578;0.869	T	0.07195	-1.0785	10	0.56958	D	0.05	.	10.6586	0.45690	0.0906:0.0:0.9094:0.0	.	271;307	Q6ZQR2-2;Q6ZQR2	.;CI171_HUMAN	M	307;271	ENSP00000343290:V307M;ENSP00000376909:V271M	ENSP00000343290:V307M	V	+	1	0	C9orf171	134437674	0.997000	0.39634	0.952000	0.39060	0.875000	0.50365	3.331000	0.52075	2.617000	0.88574	0.542000	0.68232	GTG		0.602	C9orf171-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254589.1	NM_207417		A	135447853	G	A	135447853	3	1	616	1	0	0	0	0	1	0	0	0	2472	1145	40	1	945	1	C9orf171	9	135447853	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	23594513	135447853	5765578	59	37611										
SNAPC4	6621	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	139273027	139273027	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ggtacaggaacagggagaagCccctgggctgtgagcaccca	15	11	0	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr9:139273027C>G	ENST00000298532.2	-	21	3620	c.3252G>C	c.(3250-3252)ggG>ggC	p.G1084G		NM_003086.2	NP_003077.2			small nuclear RNA activating complex, polypeptide 4, 190kDa											biliary_tract(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(13)|ovary(1)|prostate(3)|skin(2)|urinary_tract(1)	33		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		CAGGGAGAAGCCCCTGGGCTG	0.687																																																0													6	7	7					9																	139273027		2086	4149	6235	SO:0001819	synonymous_variant	6621			AF032387	CCDS6998.1	9q34.3	2008-07-21	2002-08-29		ENSG00000165684	ENSG00000165684			11137	protein-coding gene	gene with protein product		602777	"small nuclear RNA activating complex, polypeptide 4, 190kD"			9418884	Standard	XM_005266096		Approved	SNAP190, PTFalpha, FLJ13451	uc004chh.3	Q5SXM2	OTTHUMG00000020929	ENST00000298532.2:c.3252G>C	9.37:g.139273027C>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000298532.2	37	CCDS6998.1																																																																																				0.687	SNAPC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055071.1	NM_003086		G	139273027	C	G	139273027	2	3	616	1	0	0	0	0	0	0	0	1	14850	726	26	4		4	SNAPC4	9	139273027	Silent	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	3825174	139273027	1940404	60	37612										
GTPBP4	23560	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	1061760	1061760	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	aagaaagcgggaagactctgCtcccccgtcctctgtggccc	11	15	2	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr10:1061760C>A	ENST00000360803.4	+	16	1758	c.1676C>A	c.(1675-1677)gCt>gAt	p.A559D	GTPBP4_ENST00000538293.1_Missense_Mutation_p.A443D|GTPBP4_ENST00000545048.1_Missense_Mutation_p.A512D	NM_012341.2	NP_036473.2	Q9BZE4	NOG1_HUMAN	GTP binding protein 4	559					GTP catabolic process (GO:0006184)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of collagen binding (GO:0033342)|negative regulation of DNA replication (GO:0008156)|negative regulation of protein ubiquitination (GO:0031397)|osteoblast differentiation (GO:0001649)|protein stabilization (GO:0050821)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|ribosome biogenesis (GO:0042254)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|nuclear membrane (GO:0031965)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|poly(A) RNA binding (GO:0044822)			endometrium(2)|kidney(1)|large_intestine(3)|lung(11)|ovary(1)|prostate(2)|skin(1)	21		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		GAAGACTCTGCTCCCCCGTCC	0.552																																																0													137	124	128					10																	1061760		2203	4300	6503	SO:0001583	missense	23560			AK001548	CCDS31132.1	10p15-p14	2007-07-27			ENSG00000107937	ENSG00000107937			21535	protein-coding gene	gene with protein product	"G protein-binding protein CRFG", " GTP-binding protein"					11316846	Standard	NM_012341		Approved	CRFG, NGB, FLJ10690, FLJ10686, NOG1	uc001ift.3	Q9BZE4	OTTHUMG00000017538	ENST00000360803.4:c.1676C>A	10.37:g.1061760C>A	ENSP00000354040:p.Ala559Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B3KMC5|B4DY13|B7Z7A3|O95446|Q5T3R8|Q9NVJ8	Missense_Mutation	SNP	ENST00000360803.4	37	CCDS31132.1	.	.	.	.	.	.	.	.	.	.	C	4.232	0.041906	0.08196	.	.	ENSG00000107937	ENST00000360803;ENST00000538293;ENST00000545048	T;T;T	0.32753	1.44;1.45;1.44	5.67	2.86	0.33363	.	0.344788	0.32868	N	0.005550	T	0.13628	0.0330	N	0.14661	0.345	0.34292	D	0.683401	B	0.10296	0.003	B	0.17098	0.017	T	0.20638	-1.0269	10	0.12103	T	0.63	-11.4058	4.131	0.10149	0.2318:0.1869:0.0:0.5813	.	559	Q9BZE4	NOG1_HUMAN	D	559;443;512	ENSP00000354040:A559D;ENSP00000444277:A443D;ENSP00000445473:A512D	ENSP00000354040:A559D	A	+	2	0	GTPBP4	1051760	0.537000	0.26386	0.749000	0.31150	0.005000	0.04900	0.845000	0.27668	0.256000	0.21614	-0.218000	0.12543	GCT		0.552	GTPBP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046412.1	NM_012341		A	1061760	C	A	1061760	3	1	616	1	0	0	0	0	1	0	0	0	6889	797	28	4	1738	4	GTPBP4	10	1061760	Missense_Mutation	SNP	C	TCGA-IZ-8195-01A-31D-2396-08		1061760	134472987	61	37613										
KLF6	1316	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	3822362	3822362	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tcggaagtgcctggttaactCatcacttcttgcaaaacgcc	8	12	3	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr10:3822362C>T	ENST00000497571.1	-	3	996	c.736G>A	c.(736-738)Gag>Aag	p.E246K	KLF6_ENST00000542957.1_Intron|KLF6_ENST00000173785.4_5'UTR	NM_001160124.1|NM_001300.5	NP_001153596.1|NP_001291.3	Q99612	KLF6_HUMAN	Kruppel-like factor 6	246					B cell differentiation (GO:0030183)|cytokine-mediated signaling pathway (GO:0019221)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(3)|endometrium(1)|large_intestine(1)|lung(6)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	16				Colorectal(1;0.238)		CTGGTTAACTCATCACTTCTT	0.542																																																0													222	168	186					10																	3822362		2203	4300	6503	SO:0001583	missense	1316			U51869	CCDS7060.1, CCDS53490.1	10p15	2013-01-08	2004-11-29	2004-12-01	ENSG00000067082	ENSG00000067082		"Kruppel-like transcription factors", "Zinc fingers, C2H2-type"	2235	protein-coding gene	gene with protein product	"GC-rich binding factor"	602053	"core promoter element binding protein"	BCD1, ST12, COPEB		9503030, 9685731	Standard	NM_001300		Approved	CPBP, GBF, Zf9, PAC1	uc001iha.3	Q99612	OTTHUMG00000017567	ENST00000497571.1:c.736G>A	10.37:g.3822362C>T	ENSP00000419923:p.Glu246Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE86|B4DDN0|D3DRR1|F5H3M5|Q5VUT7|Q5VUT8|Q9BT79	Missense_Mutation	SNP	ENST00000497571.1	37	CCDS7060.1	.	.	.	.	.	.	.	.	.	.	C	36	5.975022	0.97162	.	.	ENSG00000067082	ENST00000497571	T	0.51071	0.72	5.67	5.67	0.87782	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.053414	0.85682	D	0.000000	T	0.56156	0.1966	N	0.17379	0.485	0.80722	D	1	D;D	0.89917	0.999;1.0	D;D	0.87578	0.995;0.998	T	0.62234	-0.6897	10	0.87932	D	0	.	18.7705	0.91890	0.0:1.0:0.0:0.0	.	204;246	D3GC14;Q99612	.;KLF6_HUMAN	K	246	ENSP00000419923:E246K	ENSP00000419923:E246K	E	-	1	0	KLF6	3812362	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.702000	0.84576	2.677000	0.91161	0.561000	0.74099	GAG		0.542	KLF6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046495.1			T	3822362	C	T	3822362	3	4	616	1	0	0	0	0	1	0	0	0	8357	835	29	2	123	2	KLF6	10	3822362	Missense_Mutation	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	2760602	3822362	131712385	62	37614										
KIN	509	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	7829859	7829859	+	5'Flank	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ccttggacttgatcctgttgGcgatagccttgggagtaaga	13	8	0	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr10:7829859G>C	ENST00000356708.7	+	0	0				KIN_ENST00000535925.1_Missense_Mutation_p.A13G|KIN_ENST00000379562.4_Missense_Mutation_p.A13G|ATP5C1_ENST00000335698.4_5'Flank|ATP5C1_ENST00000541227.1_5'Flank|KIN_ENST00000543003.1_5'UTR	NM_001001973.1	NP_001001973.1	P36542	ATPG_HUMAN	ATP synthase, H+ transporting, mitochondrial F1 complex, gamma polypeptide 1						ATP biosynthetic process (GO:0006754)|ATP catabolic process (GO:0006200)|cellular metabolic process (GO:0044237)|mitochondrial ATP synthesis coupled proton transport (GO:0042776)|oxidative phosphorylation (GO:0006119)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrial proton-transporting ATP synthase complex (GO:0005753)|mitochondrial proton-transporting ATP synthase complex, catalytic core F(1) (GO:0000275)|mitochondrion (GO:0005739)	poly(A) RNA binding (GO:0044822)|proton-transporting ATP synthase activity, rotational mechanism (GO:0046933)|proton-transporting ATPase activity, rotational mechanism (GO:0046961)|transmembrane transporter activity (GO:0022857)			breast(2)|kidney(1)|large_intestine(4)|lung(6)|prostate(1)|skin(1)|urinary_tract(1)	16						GATCCTGTTGGCGATAGCCTT	0.612																																					Melanoma(143;1012 1820 16249 30920 33158)											0													108	107	108					10																	7829859		2203	4300	6503	SO:0001631	upstream_gene_variant	22944			D16561	CCDS7081.1, CCDS31142.1	10p14	2012-10-12			ENSG00000165629	ENSG00000165629		"Mitochondrial respiratory chain complex / Complex V", "ATPases / F-type"	833	protein-coding gene	gene with protein product		108729		ATP5CL1, ATP5C		8168843, 8227057	Standard	NM_005174		Approved		uc001iju.3	P36542	OTTHUMG00000017639		10.37:g.7829859G>C	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA31|Q5VYP3|Q6I9V2|Q96AS8	Missense_Mutation	SNP	ENST00000356708.7	37	CCDS31142.1	.	.	.	.	.	.	.	.	.	.	G	20.2	3.942900	0.73672	.	.	ENSG00000151657	ENST00000535925;ENST00000379562	.	.	.	5.97	5.97	0.96955	.	0.224004	0.45606	D	0.000341	T	0.48714	0.1515	L	0.41236	1.265	0.80722	D	1	P;P	0.40970	0.734;0.734	B;B	0.28991	0.097;0.097	T	0.53387	-0.8446	9	0.52906	T	0.07	-11.2701	20.4301	0.99081	0.0:0.0:1.0:0.0	.	13;13	B4DX32;O60870	.;KIN17_HUMAN	G	13	.	ENSP00000368881:A13G	A	-	2	0	KIN	7869865	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	2.909000	0.48758	2.834000	0.97654	0.557000	0.71058	GCC		0.612	ATP5C1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000046708.1	NM_005174		C	7829859	G	C	7829859	1	2	616	0	1	0	0	0	0	0	0	0	8322	1203	42	4		4	KIN	10	7829859	5'Flank	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	4007497	7829859	127704888	63	37615										
MGEA5	10724	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	103563517	103563517	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	actacatcttttctcactccAttcatgtttgatttgtacca	3	11	3	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr10:103563517A>G	ENST00000361464.3	-	7	1406	c.1011T>C	c.(1009-1011)aaT>aaC	p.N337N	MGEA5_ENST00000439817.1_Silent_p.N337N|MGEA5_ENST00000370094.3_Silent_p.N337N|MGEA5_ENST00000357797.5_Silent_p.N337N	NM_012215.3	NP_036347.1	O60502	OGA_HUMAN	meningioma expressed antigen 5 (hyaluronidase)	337					aging (GO:0007568)|dATP metabolic process (GO:0046060)|glycoprotein catabolic process (GO:0006516)|N-acetylglucosamine metabolic process (GO:0006044)|necrotic cell death (GO:0070265)|negative regulation of cardiac muscle adaptation (GO:0010616)|negative regulation of protein glycosylation (GO:0060051)|positive regulation of calcium ion transport into cytosol (GO:0010524)|positive regulation of cell killing (GO:0031343)|positive regulation of DNA metabolic process (GO:0051054)|positive regulation of glucose import (GO:0046326)|positive regulation of growth hormone secretion (GO:0060124)|positive regulation of insulin secretion (GO:0032024)|positive regulation of mitochondrial depolarization (GO:0051901)|positive regulation of protein complex disassembly (GO:0043243)|positive regulation of proteolysis (GO:0045862)|protein targeting to membrane (GO:0006612)|response to steroid hormone (GO:0048545)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	histone acetyltransferase activity (GO:0004402)|hyalurononglucosaminidase activity (GO:0004415)			central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(11)|ovary(2)|skin(1)|urinary_tract(1)	23		Colorectal(252;0.207)		Epithelial(162;4.67e-09)|all cancers(201;2.54e-07)		TTCTCACTCCATTCATGTTTG	0.438																																																0													113	107	109					10																	103563517		2203	4300	6503	SO:0001819	synonymous_variant	10724			AF036144	CCDS7520.1, CCDS44471.1	10q24.1-q24.3	2008-08-01			ENSG00000198408	ENSG00000198408			7056	protein-coding gene	gene with protein product	"nuclear cytoplasmic O-GlcNAcase and acetyltransferase"	604039				9811929, 16356930	Standard	NM_012215		Approved	MEA5, NCOAT, OGA	uc001ktv.2	O60502	OTTHUMG00000018939	ENST00000361464.3:c.1011T>C	10.37:g.103563517A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7WPB9|D3DR79|E9PGF9|O75166|Q86WV0|Q8IV98|Q9BVA5|Q9HAR0	Silent	SNP	ENST00000361464.3	37	CCDS7520.1																																																																																				0.438	MGEA5-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049987.1	NM_012215		G	103563517	A	G	103563517	2	3	616	1	0	0	0	0	0	0	0	1	9562	214	8	3		3	MGEA5	10	103563517	Silent	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	95733658	103563517	31971230	64	37616										
NPS	594857	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr10	129347639	129347639	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ttgggaagtccaaaatgattAggtaaaaggctacgtttttc	10	5	0	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr10:129347639A>G	ENST00000398023.1	+	1	27	c.7A>G	c.(7-9)Agc>Ggc	p.S3G		NM_001030013.1	NP_001025184.1	P0C0P6	NPS_HUMAN	neuropeptide S	3					neuropeptide signaling pathway (GO:0007218)|positive regulation of action potential (GO:0045760)|positive regulation of synaptic transmission, GABAergic (GO:0032230)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|visual learning (GO:0008542)	extracellular region (GO:0005576)				haematopoietic_and_lymphoid_tissue(1)|lung(4)	5						CAAAATGATTAGGTAAAAGGC	0.348																																																0													120	114	116					10																	129347639		1824	4084	5908	SO:0001630	splice_region_variant	594857			BC148465	CCDS41577.1	10q26.2	2013-02-26			ENSG00000214285	ENSG00000214285		"Endogenous ligands"	33940	protein-coding gene	gene with protein product	"prepro-neuropeptide S"	609513				18181564, 15312648	Standard	NM_001030013		Approved		uc001ljx.1	P0C0P6		ENST00000398023.1:c.8+1A>G	10.37:g.129347639A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000398023.1	37	CCDS41577.1	.	.	.	.	.	.	.	.	.	.	A	1.347	-0.592491	0.03799	.	.	ENSG00000214285	ENST00000398023	T	0.33216	1.42	5.72	0.828	0.18841	.	0.509696	0.13562	N	0.378760	T	0.14056	0.0340	.	.	.	0.21861	N	0.999501	B	0.14805	0.011	B	0.14578	0.011	T	0.34875	-0.9811	9	0.08599	T	0.76	2.0E-4	9.0261	0.36230	0.7136:0.0:0.2864:0.0	.	3	P0C0P6	NPS_HUMAN	G	3	ENSP00000381105:S3G	ENSP00000381105:S3G	S	+	1	0	NPS	129237629	0.925000	0.31364	0.777000	0.31699	0.054000	0.15201	1.856000	0.39389	-0.032000	0.13758	-0.899000	0.02877	AGC		0.348	NPS-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001030013	Missense_Mutation	G	129347639	A	G	129347639	5	3	616	1	0	0	0	0	0	0	1	0	10606	434	15	3	9	3	NPS	10	129347639	Splice_Site	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	25784122	129347639	6187108	65	37617										
DCHS1	8642	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	6662595	6662595	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tgtgcccacgccgctgccctCttgggcagagatgaagtaca	12	13	1	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr11:6662595C>G	ENST00000299441.3	-	2	661	c.250G>C	c.(250-252)Gag>Cag	p.E84Q		NM_003737.2	NP_003728.1	Q96JQ0	PCD16_HUMAN	dachsous cadherin-related 1	84	Cadherin 1. {ECO:0000255|PROSITE- ProRule:PRU00043}.				branching involved in ureteric bud morphogenesis (GO:0001658)|calcium-dependent cell-cell adhesion (GO:0016339)|cochlea development (GO:0090102)|digestive tract development (GO:0048565)|heart morphogenesis (GO:0003007)|heterophilic cell-cell adhesion (GO:0007157)|hippo signaling (GO:0035329)|homophilic cell adhesion (GO:0007156)|neural tube development (GO:0021915)|neurogenesis (GO:0022008)|ossification involved in bone maturation (GO:0043931)|post-anal tail morphogenesis (GO:0036342)	apical part of cell (GO:0045177)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(16)|liver(1)|lung(41)|ovary(4)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(6)|urinary_tract(4)	103		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCGCTGCCCTCTTGGGCAGAG	0.627																																																0													35	35	35					11																	6662595		2201	4296	6497	SO:0001583	missense	8642			AB000895	CCDS7771.1	11p15.4	2013-10-04	2013-10-04	2004-09-03	ENSG00000166341	ENSG00000166341		"Cadherins / Cadherin-related"	13681	protein-coding gene	gene with protein product	"cadherin-related family member 6"	603057	"protocadherin 16", "dachsous 1 (Drosophila)"	CDH25, PCDH16		9199196	Standard	XM_005253207		Approved	FIB1, KIAA1773, FLJ11790, CDHR6	uc001mem.1	Q96JQ0	OTTHUMG00000133398	ENST00000299441.3:c.250G>C	11.37:g.6662595C>G	ENSP00000299441:p.Glu84Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O15098	Missense_Mutation	SNP	ENST00000299441.3	37	CCDS7771.1	.	.	.	.	.	.	.	.	.	.	C	19.15	3.772553	0.69992	.	.	ENSG00000166341	ENST00000299441	T	0.38401	1.14	5.41	5.41	0.78517	Cadherin (3);Cadherin-like (1);	0.000000	0.47093	D	0.000243	T	0.50103	0.1596	L	0.33245	0.995	0.54753	D	0.999986	D	0.69078	0.997	D	0.75020	0.985	T	0.42344	-0.9457	10	0.40728	T	0.16	.	18.1884	0.89799	0.0:1.0:0.0:0.0	.	84	Q96JQ0	PCD16_HUMAN	Q	84	ENSP00000299441:E84Q	ENSP00000299441:E84Q	E	-	1	0	DCHS1	6619171	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.783000	0.85696	2.536000	0.85505	0.643000	0.83706	GAG		0.627	DCHS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257258.1	NM_003737		G	6662595	C	G	6662595	3	3	616	1	0	0	0	0	1	0	0	0	4289	922	32	4	9726	4	DCHS1	11	6662595	Missense_Mutation	SNP	C	TCGA-IZ-8195-01A-31D-2396-08		6662595	128343921	66	37618										
OR5F1	338674	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	55761615	55761615	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	acagaatgacaagctgctgaCatggcttgtgttgaccatga	11	8	0	5			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr11:55761615C>T	ENST00000278409.1	-	1	486	c.487G>A	c.(487-489)Gtc>Atc	p.V163I		NM_003697.1	NP_003688.1	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F, member 1	163					detection of chemical stimulus involved in sensory perception of smell (GO:0050911)|sensory perception of smell (GO:0007608)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(6)|kidney(1)|large_intestine(11)|liver(1)|lung(33)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	58	Esophageal squamous(21;0.00448)					AAGCTGCTGACATGGCTTGTG	0.483																																																0													73	69	71					11																	55761615		2201	4296	6497	SO:0001583	missense	338674			AF065863	CCDS31515.1	11q11	2012-08-09			ENSG00000149133	ENSG00000149133		"GPCR / Class A : Olfactory receptors"	8343	protein-coding gene	gene with protein product		608492				9787077	Standard	NM_003697		Approved	OR11-10	uc010riv.2	O95221	OTTHUMG00000166825	ENST00000278409.1:c.487G>A	11.37:g.55761615C>T	ENSP00000278409:p.Val163Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q495D1|Q6IFB9	Missense_Mutation	SNP	ENST00000278409.1	37	CCDS31515.1	.	.	.	.	.	.	.	.	.	.	C	1.364	-0.588052	0.03799	.	.	ENSG00000149133	ENST00000278409	T	0.00099	8.73	2.8	-5.6	0.02497	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.00073	0.0002	N	0.02111	-0.68	0.09310	N	1	B	0.14012	0.009	B	0.15870	0.014	T	0.02975	-1.1087	9	0.33141	T	0.24	.	7.0422	0.25027	0.1404:0.1464:0.0:0.7132	.	163	O95221	OR5F1_HUMAN	I	163	ENSP00000278409:V163I	ENSP00000278409:V163I	V	-	1	0	OR5F1	55518191	0.000000	0.05858	0.001000	0.08648	0.011000	0.07611	-2.797000	0.00763	-0.940000	0.03705	0.297000	0.19635	GTC		0.483	OR5F1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391532.1	NM_003697		T	55761615	C	T	55761615	3	4	616	1	0	0	0	0	1	0	0	0	11165	478	17	2	460	2	OR5F1	11	55761615	Missense_Mutation	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	49099020	55761615	79244901	67	37619			1	75		2	2	22	N	C_A	7.190426e-05
OR5F1	338674	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	55761636	55761636	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	atggcttgtgttgaccatgaAgttcagcaaccctgcagcaa	10	10	1	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr11:55761636A>C	ENST00000278409.1	-	1	465	c.466T>G	c.(466-468)Ttc>Gtc	p.F156V		NM_003697.1	NP_003688.1	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F, member 1	156					detection of chemical stimulus involved in sensory perception of smell (GO:0050911)|sensory perception of smell (GO:0007608)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(6)|kidney(1)|large_intestine(11)|liver(1)|lung(33)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	58	Esophageal squamous(21;0.00448)					TTGACCATGAAGTTCAGCAAC	0.507																																																0													56	55	55					11																	55761636		2201	4296	6497	SO:0001583	missense	338674			AF065863	CCDS31515.1	11q11	2012-08-09			ENSG00000149133	ENSG00000149133		"GPCR / Class A : Olfactory receptors"	8343	protein-coding gene	gene with protein product		608492				9787077	Standard	NM_003697		Approved	OR11-10	uc010riv.2	O95221	OTTHUMG00000166825	ENST00000278409.1:c.466T>G	11.37:g.55761636A>C	ENSP00000278409:p.Phe156Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q495D1|Q6IFB9	Missense_Mutation	SNP	ENST00000278409.1	37	CCDS31515.1	.	.	.	.	.	.	.	.	.	.	A	4.403	0.074536	0.08485	.	.	ENSG00000149133	ENST00000278409	T	0.36157	1.27	2.96	1.42	0.22433	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.15089	0.0364	N	0.02286	-0.61	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.19095	-1.0316	9	0.87932	D	0	.	7.3055	0.26445	0.7399:0.0:0.0:0.2601	.	156	O95221	OR5F1_HUMAN	V	156	ENSP00000278409:F156V	ENSP00000278409:F156V	F	-	1	0	OR5F1	55518212	0.000000	0.05858	0.976000	0.42696	0.068000	0.16541	-0.848000	0.04326	1.136000	0.42199	0.155000	0.16302	TTC		0.507	OR5F1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391532.1	NM_003697		C	55761636	A	C	55761636	3	2	616	1	0	0	0	0	1	0	0	0	11165	72	3	5	481	5	OR5F1	11	55761636	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	21	55761636	79244880	68	37620			1	75		2	2	22	N	C_A	7.190426e-05
B3GNT6	192134	hgsc.bcm.edu	37	chr11	76751585	76751585	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	cagcggccacgagggcatccTggcccttcggcgtgcagctt	14	15	0	0	rs11292199		TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr11:76751585T>G	ENST00000354301.5	+	4	1076	c.988T>G	c.(988-990)Tgg>Ggg	p.W330G	B3GNT6_ENST00000421061.1_Splice_Site|B3GNT6_ENST00000533140.1_Silent_p.P330P	NM_138706.3	NP_619651.3	O43505	B3GN1_HUMAN	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 6 (core 3 synthase)	0					axon guidance (GO:0007411)|carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate metabolic process (GO:0042339)|poly-N-acetyllactosamine biosynthetic process (GO:0030311)|protein glycosylation (GO:0006486)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)	N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase activity (GO:0008532)			central_nervous_system(1)|kidney(2)|lung(4)|prostate(1)	8						GAGGGCATCCTGGCCCTTCGG	0.697																																																0													6	5	6					11																	76751585		1175	2610	3785	SO:0001630	splice_region_variant	192134			AB073740	CCDS53681.1	11q13.4	2013-02-19			ENSG00000198488	ENSG00000198488		"Beta 3-glycosyltransferases"	24141	protein-coding gene	gene with protein product		615315				11821425	Standard	NM_138706		Approved	B3Gn-T6	uc021qnp.1	Q6ZMB0		ENST00000354301.5:c.988-1T>G	11.37:g.76751585T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q4TTN0	Splice_Site	SNP	ENST00000354301.5	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	-|-	7.627|7.627	0.677983|0.677983	0.14841|0.14841	.|.	.|.	ENSG00000198488|ENSG00000198488	ENST00000354301;ENST00000421061|ENST00000354301	.|T	.|0.27104	.|1.69	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.34308	.|0.0893	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.12142	.|-1.0559	.|4	.|0.54805	.|T	.|0.06	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|G	-1|330	.|ENSP00000346256:W330G	.|ENSP00000346256:W330G	.|W	+|+	.|1	.|0	B3GNT6|B3GNT6	76429233|76429233	0.988000|0.988000	0.35896|0.35896	1.000000|1.000000	0.80357|0.80357	0.975000|0.975000	0.68041|0.68041	0.000000|0.000000	0.12993|0.12993	0.000000|0.000000	0.14550|0.14550	0.000000|0.000000	0.15137|0.15137	.|TGG		0.697	B3GNT6-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_138706	Missense_Mutation	G	76751585	T	G	76751585	5	3	616	1	0	0	0	0	0	0	1	0	1261	1567	55	5	992	5	B3GNT6	11	76751585	Splice_Site	SNP	T	TCGA-IZ-8195-01A-31D-2396-08	20989949	76751585	58254931	69	37621										
MYO7A	4647	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	76903188	76903188	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	cagggcgcccaggagcgcaaCgccccctggaggctcttctt	13	16	2	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr11:76903188C>T	ENST00000409709.3	+	31	4289	c.4017C>T	c.(4015-4017)aaC>aaT	p.N1339N	MYO7A_ENST00000409619.2_Silent_p.N1328N|MYO7A_ENST00000458637.2_Silent_p.N1339N	NM_000260.3	NP_000251.3	Q13402	MYO7A_HUMAN	myosin VIIA	1339	FERM 1. {ECO:0000255|PROSITE- ProRule:PRU00084}.				actin filament-based movement (GO:0030048)|auditory receptor cell stereocilium organization (GO:0060088)|equilibrioception (GO:0050957)|eye photoreceptor cell development (GO:0042462)|intracellular protein transport (GO:0006886)|lysosome organization (GO:0007040)|metabolic process (GO:0008152)|phagolysosome assembly (GO:0001845)|pigment granule transport (GO:0051904)|post-embryonic organ morphogenesis (GO:0048563)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|lysosomal membrane (GO:0005765)|melanosome (GO:0042470)|myosin VII complex (GO:0031477)|photoreceptor connecting cilium (GO:0032391)|photoreceptor inner segment (GO:0001917)|photoreceptor outer segment (GO:0001750)|stereocilium (GO:0032420)|synapse (GO:0045202)	actin filament binding (GO:0051015)|actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|calmodulin binding (GO:0005516)|microfilament motor activity (GO:0000146)|spectrin binding (GO:0030507)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(10)|lung(32)|ovary(4)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	64						AGGAGCGCAACGCCCCCTGGA	0.662											OREG0021258	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													59	69	66					11																	76903188		2114	4216	6330	SO:0001819	synonymous_variant	4647			U39226	CCDS53683.1, CCDS53684.1, CCDS53685.1	11q13.5	2013-01-08	2005-09-12		ENSG00000137474	ENSG00000137474		"A-kinase anchor proteins", "Myosins / Myosin superfamily : Class VII"	7606	protein-coding gene	gene with protein product		276903	"myosin VIIA (Usher syndrome 1B (autosomal recessive, severe))"	USH1B, DFNB2, DFNA11		8884266	Standard	NM_000260		Approved	NSRD2	uc001oyb.2	Q13402	OTTHUMG00000152822	ENST00000409709.3:c.4017C>T	11.37:g.76903188C>T		Somatic	1171	WXS	Illumina HiSeq	Phase_I	B9A011|F8VUN5|P78427|Q13321|Q14785|Q92821|Q92822	Silent	SNP	ENST00000409709.3	37	CCDS53683.1																																																																																				0.662	MYO7A-001	KNOWN	non_canonical_conserved|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000328133.1	NM_000260		T	76903188	C	T	76903188	2	4	616	1	0	0	0	0	0	0	0	1	10089	535	19	1		1	MYO7A	11	76903188	Silent	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	151603	76903188	58103328	70	37622										
PRDM10	56980	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	129817185	129817185	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gcctccagtctgcctagaggGgtctgcagagttgccaaagg	14	11	2	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr11:129817185G>A	ENST00000360871.3	-	5	606	c.375C>T	c.(373-375)acC>acT	p.T125T	PRDM10_ENST00000358825.5_Silent_p.T125T|PRDM10_ENST00000528746.1_Silent_p.T99T|PRDM10_ENST00000423662.2_Silent_p.T39T|PRDM10_ENST00000526082.1_Silent_p.T39T|PRDM10_ENST00000304538.6_Silent_p.T39T	NM_199437.1	NP_955469.1	Q9NQV6	PRD10_HUMAN	PR domain containing 10	125					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|methyltransferase activity (GO:0008168)			breast(2)|endometrium(6)|kidney(3)|large_intestine(14)|lung(15)|pancreas(2)|skin(1)|stomach(3)|urinary_tract(2)	48	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)		TGCCTAGAGGGGTCTGCAGAG	0.547																																																0													202	123	150					11																	129817185		2201	4297	6498	SO:0001819	synonymous_variant	56980			AF275817	CCDS8484.1, CCDS8485.1, CCDS44771.1, CCDS44772.1	11q24.3	2013-01-08			ENSG00000170325	ENSG00000170325		"Zinc fingers, C2H2-type"	13995	protein-coding gene	gene with protein product	"PRDM zinc finger transcription factor", "PR-domain family member 7", "tristanin"					12175877	Standard	NM_020228		Approved	KIAA1231, PFM7, MGC131802	uc001qfm.3	Q9NQV6	OTTHUMG00000165762	ENST00000360871.3:c.375C>T	11.37:g.129817185G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZL71|G3XAE5|J3KP23|Q17R90|Q2KHR4|Q863Z2|Q9NXI4|Q9ULI9	Silent	SNP	ENST00000360871.3	37	CCDS8484.1																																																																																				0.547	PRDM10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386076.1	NM_199437		A	129817185	G	A	129817185	2	1	616	1	0	0	0	0	0	0	0	1	12461	1219	43	2		2	PRDM10	11	129817185	Silent	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	52913997	129817185	5189331	71	37623										
LRP1	4035	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	57573720	57573720	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tggagcagccccatggccttGtcgtccaccctctgcgtggg	13	15	1	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr12:57573720G>A	ENST00000243077.3	+	30	5588	c.5122G>A	c.(5122-5124)Gtc>Atc	p.V1708I		NM_002332.2	NP_002323.2	Q07954	LRP1_HUMAN	low density lipoprotein receptor-related protein 1	1708					aging (GO:0007568)|aorta morphogenesis (GO:0035909)|apoptotic cell clearance (GO:0043277)|beta-amyloid clearance (GO:0097242)|cell proliferation (GO:0008283)|cholesterol metabolic process (GO:0008203)|lipoprotein metabolic process (GO:0042157)|lipoprotein transport (GO:0042953)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of platelet-derived growth factor receptor-beta signaling pathway (GO:2000587)|negative regulation of smooth muscle cell migration (GO:0014912)|negative regulation of Wnt signaling pathway (GO:0030178)|phototransduction, visible light (GO:0007603)|positive regulation of cholesterol efflux (GO:0010875)|positive regulation of lipid transport (GO:0032370)|positive regulation of protein transport (GO:0051222)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|receptor-mediated endocytosis (GO:0006898)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of cholesterol transport (GO:0032374)|regulation of phospholipase A2 activity (GO:0032429)|retinoid metabolic process (GO:0001523)	clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|dendrite (GO:0030425)|endocytic vesicle membrane (GO:0030666)|endosome (GO:0005768)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	apolipoprotein binding (GO:0034185)|calcium ion binding (GO:0005509)|lipoprotein particle receptor binding (GO:0070325)|lipoprotein transporter activity (GO:0042954)|poly(A) RNA binding (GO:0044822)|protein complex binding (GO:0032403)|receptor activity (GO:0004872)			NS(1)|breast(9)|central_nervous_system(3)|cervix(3)|endometrium(33)|haematopoietic_and_lymphoid_tissue(4)|kidney(10)|large_intestine(26)|lung(58)|ovary(10)|pancreas(2)|prostate(11)|skin(7)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(5)	184				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CCATGGCCTTGTCGTCCACCC	0.622																																																0													80	84	82					12																	57573720		2203	4300	6503	SO:0001583	missense	4035			X13916	CCDS8932.1	12q13.3	2013-05-28	2010-01-26		ENSG00000123384	ENSG00000123384		"CD molecules", "Low density lipoprotein receptors"	6692	protein-coding gene	gene with protein product		107770	"alpha-2-macroglobulin receptor"	APR, A2MR		2548950	Standard	NM_002332		Approved	LRP, CD91, LRP1A, APOER	uc001snd.3	Q07954	OTTHUMG00000044412	ENST00000243077.3:c.5122G>A	12.37:g.57573720G>A	ENSP00000243077:p.Val1708Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q2PP12|Q86SW0|Q8IVG8	Missense_Mutation	SNP	ENST00000243077.3	37	CCDS8932.1	.	.	.	.	.	.	.	.	.	.	G	21.3	4.135943	0.77662	.	.	ENSG00000123384	ENST00000243077	D	0.91792	-2.91	5.01	5.01	0.66863	Six-bladed beta-propeller, TolB-like (1);	0.000000	0.64402	D	0.000008	D	0.94814	0.8325	L	0.58669	1.825	0.80722	D	1	D	0.58970	0.984	D	0.68192	0.956	D	0.94336	0.7566	10	0.46703	T	0.11	.	17.2551	0.87053	0.0:0.0:1.0:0.0	.	1708	Q07954	LRP1_HUMAN	I	1708	ENSP00000243077:V1708I	ENSP00000243077:V1708I	V	+	1	0	LRP1	55859987	1.000000	0.71417	0.994000	0.49952	0.978000	0.69477	9.622000	0.98378	2.606000	0.88127	0.655000	0.94253	GTC		0.622	LRP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412772.2	NM_002332		A	57573720	G	A	57573720	3	1	616	1	0	0	0	0	1	0	0	0	8958	1377	48	2	5240	2	LRP1	12	57573720	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08		57573720	76278175	72	37624										
C12orf51	283450	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	112668608	112668608	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gccacatgcccactgatgaaGggacgcacaggatcagtcct	11	13	1	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr12:112668608G>A	ENST00000430131.2	-	39	6098	c.4953C>T	c.(4951-4953)ccC>ccT	p.P1651P	HECTD4_ENST00000550722.1_Silent_p.P1927P|HECTD4_ENST00000377560.5_Silent_p.P1901P			Q9Y4D8	HECD4_HUMAN	HECT domain containing E3 ubiquitin protein ligase 4	1651					glucose homeostasis (GO:0042593)|glucose metabolic process (GO:0006006)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)										CACTGATGAAGGGACGCACAG	0.498																																																0													84	76	79					12																	112668608		2068	4230	6298	SO:0001819	synonymous_variant	283450			AK091473		12q24.13	2013-07-17	2012-08-14	2012-08-14	ENSG00000173064	ENSG00000173064			26611	protein-coding gene	gene with protein product			"chromosome 12 open reading frame 51"	C12orf51		21270382	Standard	NM_001109662		Approved	FLJ34154, KIAA0614	uc021reb.1	Q9Y4D8	OTTHUMG00000150719	ENST00000430131.2:c.4953C>T	12.37:g.112668608G>A		Somatic		WXS	Illumina HiSeq	Phase_I	L8B0P6|Q3MJD5|Q6P0A0|Q7L530|Q8NB70|Q8WU73|Q96NT9|Q9NZS4|Q9UFT6	Silent	SNP	ENST00000430131.2	37																																																																																					0.498	HECTD4-202	KNOWN	basic	protein_coding	protein_coding		NM_173813		A	112668608	G	A	112668608	2	1	616	1	0	0	0	0	0	0	0	1	1698	987	35	2		2	C12orf51	12	112668608	Silent	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	55094888	112668608	21183287	73	37625										
ZMYM5	9205	hgsc.bcm.edu	37	chr13	20398977	20398977	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ctccctgtattatcttttggAaagttaaaatttcttacttg	5	7	2	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr13:20398977A>G	ENST00000337963.4	-	8	1914	c.1650T>C	c.(1648-1650)ttT>ttC	p.F550F		NM_001142684.1	NP_001136156.1	Q9UJ78	ZMYM5_HUMAN	zinc finger, MYM-type 5	550						nucleus (GO:0005634)	zinc ion binding (GO:0008270)			kidney(1)|large_intestine(5)|lung(9)	15		all_cancers(29;2.96e-22)|all_epithelial(30;3.76e-20)|all_lung(29;4.38e-20)|Lung NSC(5;5.8e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.61e-05)|Epithelial(112;4.89e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00171)|Lung(94;0.00942)|LUSC - Lung squamous cell carcinoma(192;0.0431)		tatcttttggaaagttaaaat	0.378																																																0													23	21	22					13																	20398977		1568	3582	5150	SO:0001819	synonymous_variant	9205			AF161535	CCDS31942.1, CCDS31943.1	13q12	2013-01-08	2005-09-12	2005-09-12	ENSG00000132950	ENSG00000132950		"Zinc fingers, MYM type"	13029	protein-coding gene	gene with protein product			"zinc finger protein 237"	ZNF237			Standard	NM_001039650		Approved	ZNF198L1, MYM	uc010tcn.1	Q9UJ78	OTTHUMG00000016504	ENST00000337963.4:c.1650T>C	13.37:g.20398977A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R6V1|Q5T6E1|Q5T6E2|Q5T6E4|Q96IY6|Q9NZY5|Q9UBW0|Q9UJ77	Silent	SNP	ENST00000337963.4	37																																																																																					0.378	ZMYM5-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_014242		G	20398977	A	G	20398977	2	3	616	1	0	0	0	0	0	0	0	1	17715	243	9	3		3	ZMYM5	13	20398977	Silent	SNP	A	TCGA-IZ-8195-01A-31D-2396-08		20398977	94770901	74	37626										
MTMR6	9107	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	25823587	25823587	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ctgaatgtaacaattccttgGtgaggatgccatctgtttgc	10	8	1	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr13:25823587G>C	ENST00000381801.5	-	14	2410	c.1649C>G	c.(1648-1650)aCc>aGc	p.T550S	AL590787.1_ENST00000408397.1_RNA|MTMR6_ENST00000540661.1_Intron	NM_004685.3	NP_004676.3	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6	550					peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phospholipid metabolic process (GO:0006644)|potassium ion transmembrane transport (GO:0071805)|protein dephosphorylation (GO:0006470)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	calcium-activated potassium channel activity (GO:0015269)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)			breast(2)|endometrium(3)|kidney(3)|large_intestine(5)|lung(12)|ovary(2)|prostate(1)|skin(5)|stomach(3)	36		Lung SC(185;0.0225)|Breast(139;0.0351)		all cancers(112;0.00927)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.164)		CAATTCCTTGGTGAGGATGCC	0.353																																																0													145	137	139					13																	25823587		2203	4300	6503	SO:0001583	missense	9107			AF072928	CCDS9313.1	13q12	2011-06-09			ENSG00000139505	ENSG00000139505		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	7453	protein-coding gene	gene with protein product		603561				9736772	Standard	NM_004685		Approved		uc001uqf.4	Q9Y217	OTTHUMG00000016606	ENST00000381801.5:c.1649C>G	13.37:g.25823587G>C	ENSP00000371221:p.Thr550Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBB5|B3KSB4|Q5JRG6|Q86TB7|Q86YH4|Q96P80	Missense_Mutation	SNP	ENST00000381801.5	37	CCDS9313.1	.	.	.	.	.	.	.	.	.	.	G	10.08	1.252375	0.22880	.	.	ENSG00000139505	ENST00000381801;ENST00000319298	D	0.94092	-3.35	5.65	4.76	0.60689	.	0.280543	0.39210	N	0.001422	D	0.82701	0.5094	N	0.12182	0.205	0.80722	D	1	B	0.02656	0.0	B	0.04013	0.001	T	0.74551	-0.3628	10	0.15066	T	0.55	.	6.229	0.20724	0.0787:0.1336:0.6502:0.1375	.	550	Q9Y217	MTMR6_HUMAN	S	550;118	ENSP00000371221:T550S	ENSP00000317987:T118S	T	-	2	0	MTMR6	24721587	0.998000	0.40836	0.987000	0.45799	0.992000	0.81027	0.947000	0.29082	2.833000	0.97629	0.655000	0.94253	ACC		0.353	MTMR6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044225.1	NM_004685		C	25823587	G	C	25823587	3	2	616	1	0	0	0	0	1	0	0	0	9954	1261	44	4	220	4	MTMR6	13	25823587	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	5424610	25823587	89346291	75	37627										
C13orf23	80209	hgsc.bcm.edu	37	chr13	39588610	39588610	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gttgacttgctggggtggaaAatgctatatggaagggggaa	17	3	0	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr13:39588610A>C	ENST00000352251.3	-	11	1612	c.779T>G	c.(778-780)tTt>tGt	p.F260C	PROSER1_ENST00000350125.3_Missense_Mutation_p.F238C|PROSER1_ENST00000484434.3_Intron	NM_025138.4	NP_079414.3	Q86XN7	PRSR1_HUMAN	proline and serine rich 1	260	Pro-rich.																TGGGGTGGAAAATGCTATATG	0.378																																																0													57	54	55					13																	39588610		2203	4300	6503	SO:0001583	missense	80209			AK022723	CCDS9368.2	13q13.2	2011-08-09	2011-08-09	2011-08-09	ENSG00000120685	ENSG00000120685			20291	protein-coding gene	gene with protein product			"chromosome 13 open reading frame 23"	C13orf23			Standard	NM_025138		Approved	bA50D16.2, FLJ12661	uc001uwy.4	Q86XN7	OTTHUMG00000016764	ENST00000352251.3:c.779T>G	13.37:g.39588610A>C	ENSP00000332034:p.Phe260Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJ97|Q6P2S2|Q7Z3X5|Q8N3D2|Q8N3P1|Q9H9M1	Missense_Mutation	SNP	ENST00000352251.3	37	CCDS9368.2	.	.	.	.	.	.	.	.	.	.	A	17.32	3.359517	0.61403	.	.	ENSG00000120685	ENST00000352251;ENST00000350125	T;T	0.34472	1.37;1.36	5.09	5.09	0.68999	.	.	.	.	.	T	0.52435	0.1734	L	0.59436	1.845	0.38844	D	0.956135	D;D	0.69078	0.997;0.997	D;D	0.63192	0.912;0.912	T	0.55049	-0.8201	8	.	.	.	-18.4404	14.0355	0.64642	1.0:0.0:0.0:0.0	.	238;260	A6NJ97;Q86XN7	.;PRSR1_HUMAN	C	260;238	ENSP00000332034:F260C;ENSP00000339123:F238C	.	F	-	2	0	PROSER1	38486610	1.000000	0.71417	0.263000	0.24496	0.887000	0.51463	6.071000	0.71229	1.912000	0.55364	0.528000	0.53228	TTT		0.378	PROSER1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044607.5	NM_025138		C	39588610	A	C	39588610	3	2	616	1	0	0	0	0	1	0	0	0	1723	14	1	5	2067	5	C13orf23	13	39588610	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	13765023	39588610	75581268	76	37628										
IPO5	3843	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	98652854	98652854	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gcggacttggtggaaagctcGttctgccgatgatcaaggaa	14	8	2	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr13:98652854G>A	ENST00000490680.1	+	10	1128	c.1063G>A	c.(1063-1065)Gtt>Att	p.V355I	IPO5_ENST00000261574.5_Missense_Mutation_p.V373I|IPO5_ENST00000539640.1_Missense_Mutation_p.V230I			O00410	IPO5_HUMAN	importin 5	355	Ran-GTP binding. {ECO:0000250}.				cellular response to amino acid stimulus (GO:0071230)|negative regulation of catalytic activity (GO:0043086)|NLS-bearing protein import into nucleus (GO:0006607)|positive regulation of protein import into nucleus (GO:0042307)|ribosomal protein import into nucleus (GO:0006610)|viral process (GO:0016032)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nuclear membrane (GO:0031965)|nuclear pore (GO:0005643)|nucleus (GO:0005634)	GTPase inhibitor activity (GO:0005095)|poly(A) RNA binding (GO:0044822)|protein transporter activity (GO:0008565)|Ran GTPase binding (GO:0008536)			breast(2)|endometrium(2)|large_intestine(8)|lung(8)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	27						TGGAAAGCTCGTTCTGCCGAT	0.418																																																0													138	119	125					13																	98652854		2203	4300	6503	SO:0001583	missense	3843			U72761	CCDS31999.1	13q32.2	2012-05-02	2008-04-15	2008-04-15	ENSG00000065150	ENSG00000065150		"Importins"	6402	protein-coding gene	gene with protein product		602008	"karyopherin (importin) beta 3", "RAN binding protein 5"	KPNB3, RANBP5		9114010, 9271386, 17005651	Standard	NM_002271		Approved	IMB3, MGC2068, Pse1	uc001vne.3	O00410	OTTHUMG00000017244	ENST00000490680.1:c.1063G>A	13.37:g.98652854G>A	ENSP00000418393:p.Val355Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZA0|O15257|Q5T578|Q86XC7	Missense_Mutation	SNP	ENST00000490680.1	37		.	.	.	.	.	.	.	.	.	.	G	14.28	2.486959	0.44249	.	.	ENSG00000065150	ENST00000261574;ENST00000357602;ENST00000490680;ENST00000539640	T;T;T;T	0.18338	2.22;2.22;2.22;2.22	5.99	5.99	0.97316	Armadillo-like helical (1);Armadillo-type fold (1);	0.052583	0.85682	D	0.000000	T	0.10465	0.0256	N	0.05280	-0.08	0.58432	D	0.999996	B;B;B	0.17852	0.024;0.013;0.023	B;B;B	0.23716	0.021;0.013;0.048	T	0.21177	-1.0253	10	0.07644	T	0.81	-0.6551	20.4756	0.99175	0.0:0.0:1.0:0.0	.	230;355;373	B4E0R6;O00410;O00410-3	.;IPO5_HUMAN;.	I	373;355;355;230	ENSP00000261574:V373I;ENSP00000350219:V355I;ENSP00000418393:V355I;ENSP00000445126:V230I	ENSP00000261574:V373I	V	+	1	0	IPO5	97450855	1.000000	0.71417	0.795000	0.32087	0.974000	0.67602	6.319000	0.72871	2.847000	0.97988	0.655000	0.94253	GTT		0.418	IPO5-006	NOVEL	alternative_5_UTR|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000354655.1	NM_002271		A	98652854	G	A	98652854	3	1	616	1	0	0	0	0	1	0	0	0	7803	1145	40	1	1159	1	IPO5	13	98652854	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	59064244	98652854	16517024	77	37629										
FARP1	10160	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	99037979	99037979	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	agattgcccgtcggctagagAtgtatggaatccggttgcac	13	9	0	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr13:99037979A>C	ENST00000319562.6	+	8	935	c.670A>C	c.(670-672)Atg>Ctg	p.M224L	FARP1_ENST00000595437.1_Missense_Mutation_p.M224L|FARP1_ENST00000376586.2_Missense_Mutation_p.M224L	NM_005766.2	NP_005757.1	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF (ARHGEF) and pleckstrin domain protein 1 (chondrocyte-derived)	224	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.				dendrite morphogenesis (GO:0048813)|negative regulation of phosphatase activity (GO:0010923)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of Rho GTPase activity (GO:0032321)|synapse assembly (GO:0007416)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|dendrite (GO:0030425)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)|synapse (GO:0045202)	Rac guanyl-nucleotide exchange factor activity (GO:0030676)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(3)|endometrium(6)|kidney(6)|large_intestine(13)|lung(16)|ovary(1)|skin(3)|urinary_tract(1)	49	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			TCGGCTAGAGATGTATGGAAT	0.488																																																0													102	98	99					13																	99037979		2203	4300	6503	SO:0001583	missense	10160			AB008430	CCDS9487.1, CCDS32000.1, CCDS66572.1	13q32.2	2013-01-10			ENSG00000152767	ENSG00000152767		"Rho guanine nucleotide exchange factors", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits", "Pleckstrin homology (PH) domain containing"	3591	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 75"	602654				9425278	Standard	NM_005766		Approved	CDEP, PLEKHC2, MGC87400, PPP1R75	uc001vnj.3	Q9Y4F1	OTTHUMG00000017248	ENST00000319562.6:c.670A>C	13.37:g.99037979A>C	ENSP00000322926:p.Met224Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JVI9|Q6IQ29	Missense_Mutation	SNP	ENST00000319562.6	37	CCDS9487.1	.	.	.	.	.	.	.	.	.	.	A	15.46	2.839552	0.51057	.	.	ENSG00000152767	ENST00000376586;ENST00000319562	D;D	0.82619	-1.63;-1.63	5.85	4.63	0.57726	Band 4.1 domain (1);FERM central domain (2);FERM domain (1);	0.075237	0.85682	D	0.000000	D	0.88555	0.6468	M	0.63428	1.95	0.58432	D	0.999996	B;D	0.60575	0.019;0.988	B;D	0.77557	0.026;0.99	D	0.86464	0.1781	10	0.32370	T	0.25	.	12.9994	0.58666	0.8652:0.1348:0.0:0.0	.	224;224	Q9Y4F1;C9JME2	FARP1_HUMAN;.	L	224	ENSP00000365771:M224L;ENSP00000322926:M224L	ENSP00000322926:M224L	M	+	1	0	FARP1	97835980	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	6.144000	0.71762	0.994000	0.38892	0.533000	0.62120	ATG		0.488	FARP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045541.3	NM_005766		C	99037979	A	C	99037979	3	2	616	1	0	0	0	0	1	0	0	0	5683	333	12	5	919	5	FARP1	13	99037979	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	385125	99037979	16131899	78	37630										
MYO16	23026	hgsc.bcm.edu	37	chr13	109793009	109793009	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gcatcgccgcccctgctccaCcgcgcgccggaggacgaggc	14	19	0	0	rs141423536	byFrequency	TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr13:109793009C>T	ENST00000357550.2	+	31	4424	c.4383C>T	c.(4381-4383)caC>caT	p.H1461H	MYO16_ENST00000356711.2_Silent_p.H1461H	NM_001198950.1	NP_001185879.1			myosin XVI											NS(3)|breast(4)|central_nervous_system(2)|endometrium(10)|kidney(8)|large_intestine(27)|lung(51)|ovary(9)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	121	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)			CCCTGCTCCACCGCGCGCCGG	0.761													C|||	89	0.0177716	0.0023	0.0317	5008	,	,		6208	0.0		0.0527	False		,,,				2504	0.0112															0													1	2	2					13																	109793009		1243	2621	3864	SO:0001819	synonymous_variant	23026				CCDS32008.1, CCDS73598.1	13q33.3	2014-06-12			ENSG00000041515	ENSG00000041515		"Myosins / Myosin superfamily : Class XVI", "Ankyrin repeat domain containing"	29822	protein-coding gene	gene with protein product	"neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adaptor 3", "protein phosphatase 1, regulatory subunit 107"	615479				11588169, 17029291, 21946561	Standard	NM_001198950		Approved	MYR8, KIAA0865, Myo16b, NYAP3, PPP1R107	uc001vqt.1	Q9Y6X6	OTTHUMG00000017333	ENST00000357550.2:c.4383C>T	13.37:g.109793009C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000357550.2	37	CCDS32008.1																																																																																				0.761	MYO16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045746.1	NM_015011		T	109793009	C	T	109793009	2	4	616	1	0	0	0	0	0	0	0	1	10071	506	18	2		2	MYO16	13	109793009	Silent	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	10755030	109793009	5376869	79	37631										
C14orf73	91828	hgsc.bcm.edu	37	chr14	103569068	103569068	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gacgcccgcggctgcgagcaGctctatatcctgctggactg	13	14	1	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr14:103569068G>C	ENST00000380069.3	+	2	1084	c.1008G>C	c.(1006-1008)caG>caC	p.Q336H		NM_001077594.1	NP_001071062.1	Q17RC7	EX3L4_HUMAN	exocyst complex component 3-like 4	336					exocytosis (GO:0006887)	exocyst (GO:0000145)				cervix(2)|endometrium(2)|lung(4)|ovary(1)|skin(1)	10						GCTGCGAGCAGCTCTATATCC	0.711																																																0													3	5	4					14																	103569068		1976	3896	5872	SO:0001583	missense	91828			AK000671	CCDS32163.1	14q32.32	2011-01-31	2011-01-31	2011-01-31	ENSG00000205436	ENSG00000205436			20120	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 73"	C14orf73			Standard	NM_001077594		Approved		uc001ymk.3	Q17RC7		ENST00000380069.3:c.1008G>C	14.37:g.103569068G>C	ENSP00000369409:p.Gln336His	Somatic		WXS	Illumina HiSeq	Phase_I	Q14CR2	Missense_Mutation	SNP	ENST00000380069.3	37	CCDS32163.1	.	.	.	.	.	.	.	.	.	.	G	15.21	2.766182	0.49574	.	.	ENSG00000205436	ENST00000380069	T	0.06449	3.3	4.09	3.1	0.35709	.	0.178569	0.34853	N	0.003631	T	0.16514	0.0397	M	0.65975	2.015	0.35903	D	0.830539	D	0.89917	1.0	D	0.79108	0.992	T	0.05257	-1.0896	10	0.72032	D	0.01	-32.8675	3.7055	0.08398	0.1324:0.0:0.6206:0.247	.	336	Q17RC7	EX3L4_HUMAN	H	336	ENSP00000369409:Q336H	ENSP00000369409:Q336H	Q	+	3	2	EXOC3L4	102638821	0.999000	0.42202	1.000000	0.80357	0.611000	0.37282	0.218000	0.17622	2.124000	0.65301	0.491000	0.48974	CAG		0.711	EXOC3L4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415663.1	XM_941093		C	103569068	G	C	103569068	3	2	616	1	0	0	0	0	1	0	0	0	1781	962	34	4	1014	4	C14orf73	14	103569068	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08		103569068	3780472	80	37632										
RYR3	6263	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	33961646	33961646	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tgatttccatgaggaccttcTccttcactgtggtaagctgc	9	11	2	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr15:33961646T>C	ENST00000389232.4	+	37	5781	c.5711T>C	c.(5710-5712)cTc>cCc	p.L1904P	RYR3_ENST00000415757.3_Missense_Mutation_p.L1904P	NM_001036.3	NP_001027.3	Q15413	RYR3_HUMAN	ryanodine receptor 3	1904	4 X approximate repeats.				calcium ion transmembrane transport (GO:0070588)|calcium ion transport (GO:0006816)|cellular response to ATP (GO:0071318)|cellular response to caffeine (GO:0071313)|cellular response to calcium ion (GO:0071277)|cellular response to magnesium ion (GO:0071286)|ion transmembrane transport (GO:0034220)|negative regulation of cytosolic calcium ion concentration (GO:0051481)|protein homotetramerization (GO:0051289)|striated muscle contraction (GO:0006941)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|junctional membrane complex (GO:0030314)|perinuclear region of cytoplasm (GO:0048471)|sarcoplasmic reticulum membrane (GO:0033017)	calcium ion binding (GO:0005509)|calcium-induced calcium release activity (GO:0048763)|calcium-release channel activity (GO:0015278)|ryanodine-sensitive calcium-release channel activity (GO:0005219)			NS(3)|breast(9)|central_nervous_system(8)|cervix(2)|endometrium(29)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(55)|lung(148)|ovary(7)|pancreas(1)|prostate(13)|skin(4)|stomach(1)|upper_aerodigestive_tract(8)|urinary_tract(3)	311		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)		GAGGACCTTCTCCTTCACTGT	0.463																																																0													86	83	84					15																	33961646		1868	4102	5970	SO:0001583	missense	6263				CCDS45210.1, CCDS58351.1	15q14-q15	2013-01-10				ENSG00000198838		"Ion channels / Ryanodine receptors", "EF-hand domain containing"	10485	protein-coding gene	gene with protein product		180903				8276408	Standard	NM_001036		Approved		uc001zhi.3	Q15413		ENST00000389232.4:c.5711T>C	15.37:g.33961646T>C	ENSP00000373884:p.Leu1904Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O15175|Q15412	Missense_Mutation	SNP	ENST00000389232.4	37	CCDS45210.1	.	.	.	.	.	.	.	.	.	.	T	15.50	2.851326	0.51270	.	.	ENSG00000198838	ENST00000389232;ENST00000415757;ENST00000361728	T;T	0.71341	-0.54;-0.56	5.65	4.53	0.55603	.	0.156082	0.44097	D	0.000496	T	0.69771	0.3148	M	0.61703	1.905	0.54753	D	0.999987	P;P	0.44195	0.787;0.828	B;B	0.43413	0.419;0.296	T	0.72821	-0.4177	10	0.87932	D	0	.	11.6133	0.51074	0.0:0.0688:0.0:0.9312	.	1904;1904	Q15413-2;Q15413	.;RYR3_HUMAN	P	1904	ENSP00000373884:L1904P;ENSP00000399610:L1904P	ENSP00000354735:L1904P	L	+	2	0	RYR3	31748938	1.000000	0.71417	0.639000	0.29394	0.964000	0.63967	3.815000	0.55651	1.158000	0.42547	0.533000	0.62120	CTC		0.463	RYR3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000417514.1			C	33961646	T	C	33961646	3	2	616	1	0	0	0	0	1	0	0	0	13783	1551	54	3	5857	3	RYR3	15	33961646	Missense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08		33961646	68569746	81	37633										
ACTC1	70	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	35085735	35085735	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ctctgggcttcatcacctacGtaggagtccttctgacccat	8	14	4	1	rs149432225		TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr15:35085735G>A	ENST00000290378.4	-	3	820	c.165C>T	c.(163-165)taC>taT	p.Y55Y	ACTC1_ENST00000557860.1_5'Flank|RP11-814P5.1_ENST00000503496.1_RNA	NM_005159.4	NP_005150.1	P68032	ACTC_HUMAN	actin, alpha, cardiac muscle 1	55					actin filament-based movement (GO:0030048)|actin-myosin filament sliding (GO:0033275)|actomyosin structure organization (GO:0031032)|apoptotic process (GO:0006915)|ATP catabolic process (GO:0006200)|cardiac muscle contraction (GO:0060048)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|heart contraction (GO:0060047)|muscle filament sliding (GO:0030049)|negative regulation of apoptotic process (GO:0043066)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|skeletal muscle thin filament assembly (GO:0030240)	actin filament (GO:0005884)|actomyosin, actin portion (GO:0042643)|blood microparticle (GO:0072562)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|I band (GO:0031674)|membrane (GO:0016020)|sarcomere (GO:0030017)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|myosin binding (GO:0017022)			central_nervous_system(1)|endometrium(5)|kidney(1)|lung(14)|ovary(1)|prostate(2)|skin(4)|upper_aerodigestive_tract(3)	31		all_lung(180;2.3e-08)		all cancers(64;5.83e-19)|GBM - Glioblastoma multiforme(113;1.98e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		CATCACCTACGTAGGAGTCCT	0.473																																																0								G		3,4399	6.2+/-15.9	0,3,2198	64	53	57		165	-10.9	0.4	15	dbSNP_134	57	1,8595	1.2+/-3.3	0,1,4297	no	coding-synonymous	ACTC1	NM_005159.4		0,4,6495	AA,AG,GG		0.0116,0.0682,0.0308		55/378	35085735	4,12994	2201	4298	6499	SO:0001819	synonymous_variant	70			BC009978	CCDS10041.1	15q14	2014-09-17	2006-08-24	2006-08-24	ENSG00000159251	ENSG00000159251			143	protein-coding gene	gene with protein product		102540	"actin, alpha, cardiac muscle"	ACTC		1639426	Standard	NM_005159		Approved	CMD1R	uc001ziu.1	P68032	OTTHUMG00000129675	ENST00000290378.4:c.165C>T	15.37:g.35085735G>A		Somatic		WXS	Illumina HiSeq	Phase_I	P04270	Silent	SNP	ENST00000290378.4	37	CCDS10041.1																																																																																				0.473	ACTC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251876.3	NM_005159		A	35085735	G	A	35085735	2	1	616	1	0	0	0	0	0	0	0	1	195	1140	40	1		1	ACTC1	15	35085735	Silent	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	1124089	35085735	67445657	82	37634										
THBS1	7057	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	39885784	39885784	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ggctcagggatactcgggccTttctgtgaaagttgtaaact	12	8	2	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr15:39885784T>C	ENST00000260356.5	+	19	3347	c.3182T>C	c.(3181-3183)cTt>cCt	p.L1061P	CTD-2033D15.1_ENST00000560769.1_RNA	NM_003246.2	NP_003237.2	P07996	TSP1_HUMAN	thrombospondin 1	1061	TSP C-terminal. {ECO:0000255|PROSITE- ProRule:PRU00635}.				activation of MAPK activity (GO:0000187)|behavioral response to pain (GO:0048266)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cell migration (GO:0016477)|cellular response to growth factor stimulus (GO:0071363)|cellular response to heat (GO:0034605)|cellular response to tumor necrosis factor (GO:0071356)|chronic inflammatory response (GO:0002544)|endocardial cushion development (GO:0003197)|engulfment of apoptotic cell (GO:0043652)|extracellular matrix organization (GO:0030198)|growth plate cartilage development (GO:0003417)|immune response (GO:0006955)|negative regulation of angiogenesis (GO:0016525)|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II (GO:0002581)|negative regulation of apoptotic process (GO:0043066)|negative regulation of blood vessel endothelial cell migration (GO:0043537)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of cGMP-mediated signaling (GO:0010754)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of dendritic cell antigen processing and presentation (GO:0002605)|negative regulation of endothelial cell migration (GO:0010596)|negative regulation of endothelial cell proliferation (GO:0001937)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of fibrinolysis (GO:0051918)|negative regulation of fibroblast growth factor receptor signaling pathway (GO:0040037)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of interleukin-12 production (GO:0032695)|negative regulation of nitric oxide mediated signal transduction (GO:0010751)|negative regulation of plasma membrane long-chain fatty acid transport (GO:0010748)|negative regulation of plasminogen activation (GO:0010757)|outflow tract morphogenesis (GO:0003151)|peptide cross-linking (GO:0018149)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of angiogenesis (GO:0045766)|positive regulation of blood coagulation (GO:0030194)|positive regulation of blood vessel endothelial cell migration (GO:0043536)|positive regulation of cell migration (GO:0030335)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of chemotaxis (GO:0050921)|positive regulation of endothelial cell apoptotic process (GO:2000353)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902043)|positive regulation of fibroblast migration (GO:0010763)|positive regulation of macrophage activation (GO:0043032)|positive regulation of macrophage chemotaxis (GO:0010759)|positive regulation of phosphorylation (GO:0042327)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|positive regulation of transforming growth factor beta1 production (GO:0032914)|positive regulation of translation (GO:0045727)|positive regulation of tumor necrosis factor biosynthetic process (GO:0042535)|response to calcium ion (GO:0051592)|response to drug (GO:0042493)|response to endoplasmic reticulum stress (GO:0034976)|response to glucose (GO:0009749)|response to hypoxia (GO:0001666)|response to magnesium ion (GO:0032026)|response to mechanical stimulus (GO:0009612)|response to progesterone (GO:0032570)|response to testosterone (GO:0033574)|response to unfolded protein (GO:0006986)|sprouting angiogenesis (GO:0002040)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|external side of plasma membrane (GO:0009897)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|fibrinogen complex (GO:0005577)|platelet alpha granule (GO:0031091)|platelet alpha granule lumen (GO:0031093)|sarcoplasmic reticulum (GO:0016529)|secretory granule (GO:0030141)	calcium ion binding (GO:0005509)|collagen V binding (GO:0070052)|fibrinogen binding (GO:0070051)|fibroblast growth factor binding (GO:0017134)|fibronectin binding (GO:0001968)|glycoprotein binding (GO:0001948)|heparin binding (GO:0008201)|identical protein binding (GO:0042802)|integrin binding (GO:0005178)|laminin binding (GO:0043236)|low-density lipoprotein particle binding (GO:0030169)|phosphatidylserine binding (GO:0001786)|proteoglycan binding (GO:0043394)|transforming growth factor beta binding (GO:0050431)			breast(1)|central_nervous_system(3)|endometrium(8)|kidney(5)|large_intestine(15)|lung(9)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	53		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)		TACTCGGGCCTTTCTGTGAAA	0.582																																																0													107	105	106					15																	39885784		2200	4297	6497	SO:0001583	missense	7057				CCDS32194.1	15q15	2009-04-08			ENSG00000137801	ENSG00000137801			11785	protein-coding gene	gene with protein product	"thrombospondin-1p180"	188060				2341158, 2335352	Standard	NM_003246		Approved	TSP1, THBS, TSP, THBS-1, TSP-1	uc001zkh.3	P07996	OTTHUMG00000133665	ENST00000260356.5:c.3182T>C	15.37:g.39885784T>C	ENSP00000260356:p.Leu1061Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6H4|B4E3J7|B9EGH6|Q15667|Q59E99	Missense_Mutation	SNP	ENST00000260356.5	37	CCDS32194.1	.	.	.	.	.	.	.	.	.	.	T	24.3	4.514534	0.85389	.	.	ENSG00000137801	ENST00000260356	D	0.95853	-3.83	5.77	5.77	0.91146	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Thrombospondin, C-terminal (2);	0.000000	0.32357	N	0.006219	D	0.97049	0.9036	L	0.57536	1.79	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.989;1.0	D	0.97737	1.0206	10	0.87932	D	0	-8.1512	16.0747	0.80960	0.0:0.0:0.0:1.0	.	976;1061	B4E3J7;P07996	.;TSP1_HUMAN	P	1061	ENSP00000260356:L1061P	ENSP00000260356:L1061P	L	+	2	0	THBS1	37673076	1.000000	0.71417	1.000000	0.80357	0.944000	0.59088	8.036000	0.88901	2.190000	0.69967	0.533000	0.62120	CTT		0.582	THBS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257831.2	NM_003246		C	39885784	T	C	39885784	3	2	616	1	0	0	0	0	1	0	0	0	15865	1609	56	3	3252	3	THBS1	15	39885784	Missense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08	4800049	39885784	62645608	83	37635										
CGNL1	84952	hgsc.bcm.edu	37	chr15	57808995	57808995	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	cagaatgtcgaggtcttggcGagcaggagcaacacttcaga	13	9	2	2	rs76645518		TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr15:57808995G>T	ENST00000281282.5	+	9	2499	c.2421G>T	c.(2419-2421)gcG>gcT	p.A807A		NM_001252335.1|NM_032866.4	NP_001239264.1|NP_116255.2	Q0VF96	CGNL1_HUMAN	cingulin-like 1	807						myosin complex (GO:0016459)|tight junction (GO:0005923)	motor activity (GO:0003774)			autonomic_ganglia(1)|breast(1)|central_nervous_system(2)|endometrium(5)|kidney(4)|large_intestine(12)|lung(14)|ovary(4)|prostate(4)|skin(10)|stomach(2)|upper_aerodigestive_tract(1)	60				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		AGGTCTTGGCGAGCAGGAGCA	0.512																																																0													50	48	49					15																	57808995		2192	4292	6484	SO:0001819	synonymous_variant	84952			AY274808	CCDS10161.1	15q21.3	2011-06-10			ENSG00000128849	ENSG00000128849			25931	protein-coding gene	gene with protein product		607856				11214970	Standard	NM_001252335		Approved	FLJ14957, JACOP, KIAA1749, paracingulin	uc002aeg.3	Q0VF96	OTTHUMG00000166485	ENST00000281282.5:c.2421G>T	15.37:g.57808995G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q05BZ4|Q52LR0|Q695C7|Q7Z2L3|Q96JV2|Q96MN6|Q9C0B4	Silent	SNP	ENST00000281282.5	37	CCDS10161.1																																																																																				0.512	CGNL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255482.2	NM_032866		T	57808995	G	T	57808995	2	4	616	1	0	0	0	0	0	0	0	1	3306	1045	37	4		4	CGNL1	15	57808995	Silent	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	17923211	57808995	44722397	84	37636										
HMG20A	10363	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	77759508	77759508	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	cttcgagacagcaatgcaccCaaatccccccttacaggata	6	15	0	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr15:77759508C>A	ENST00000381714.3	+	5	737	c.309C>A	c.(307-309)ccC>ccA	p.P103P	HMG20A_ENST00000336216.4_Silent_p.P103P	NM_018200.2	NP_060670.1	Q9NP66	HM20A_HUMAN	high mobility group 20A	103					chromatin modification (GO:0016568)|chromatin organization (GO:0006325)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(4)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	18						GCAATGCACCCAAATCCCCCC	0.428																																																0													92	88	90					15																	77759508		2196	4294	6490	SO:0001819	synonymous_variant	10363			AF146222	CCDS10295.1	15q24	2011-07-01	2011-04-05		ENSG00000140382	ENSG00000140382		"High mobility group / Non-canonical"	5001	protein-coding gene	gene with protein product	"HMG box domain containing 1"	605534	"high-mobility group 20A"			10773667	Standard	NM_018200		Approved	HMGX1, FLJ10739, HMGXB1	uc002bcr.3	Q9NP66	OTTHUMG00000143729	ENST00000381714.3:c.309C>A	15.37:g.77759508C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NHY3|D3DW78|Q53G31|Q9NSF6	Silent	SNP	ENST00000381714.3	37	CCDS10295.1																																																																																				0.428	HMG20A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419512.2	NM_018200		A	77759508	C	A	77759508	2	1	616	1	0	0	0	0	0	0	0	1	7228	581	21	4		4	HMG20A	15	77759508	Silent	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	19950513	77759508	24771884	85	37637										
C15orf42	90381	broad.mit.edu	37	chr15	90118913	90118913	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gccgccctgcgcctcctcacCtatctgagttgccgattcgg	10	17	2	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr15:90118913C>A	ENST00000268138.7	+	1	201	c.96C>A	c.(94-96)acC>acA	p.T32T	TICRR_ENST00000560985.1_Silent_p.T32T|RP11-429B14.1_ENST00000559041.1_RNA			Q7Z2Z1	TICRR_HUMAN	TOPBP1-interacting checkpoint and replication regulator	32					cell cycle checkpoint (GO:0000075)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|formation of translation preinitiation complex (GO:0001731)|mitotic DNA replication checkpoint (GO:0033314)|regulation of DNA-dependent DNA replication initiation (GO:0030174)|response to ionizing radiation (GO:0010212)	nucleus (GO:0005634)	chromatin binding (GO:0003682)										GCCTCCTCACCTATCTGAGTT	0.687																																																0													6	7	6					15																	90118913		1706	3871	5577	SO:0001819	synonymous_variant	90381			AK123612	CCDS10352.2	15q26.1	2012-07-11	2012-07-11	2012-07-11	ENSG00000140534	ENSG00000140534			28704	protein-coding gene	gene with protein product	"TOPBP1-interacting replication-stimulating protein", "SLD3 homolog (S. cerevisiae)"	613298	"chromosome 15 open reading frame 42"	C15orf42		20116089, 20080954	Standard	NM_152259		Approved	MGC45866, FLJ41618, Treslin, SLD3	uc002boe.3	Q7Z2Z1	OTTHUMG00000149648	ENST00000268138.7:c.96C>A	15.37:g.90118913C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RE07|B3KVV9|D3IUT4|Q8N4X8|Q8NCH6|Q9BU55	Silent	SNP	ENST00000268138.7	37	CCDS10352.2																																																																																				0.687	TICRR-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000312856.1	NM_152259		A	90118913	C	A	90118913	2	1	616	1	0	0	0	0	0	0	0	1	1798	668	24	4		4	C15orf42	15	90118913	Silent	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	12359405	90118913	12412479	86	37638										
MLST8	64223	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	2258565	2258565	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	cccggggagtcctcccgcggCtggatgtggggctgcgcctt	17	14	0	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr16:2258565C>T	ENST00000569417.1	+	8	1167	c.813C>T	c.(811-813)ggC>ggT	p.G271G	MLST8_ENST00000382450.4_Silent_p.G270G|MLST8_ENST00000397124.1_Silent_p.G271G|MLST8_ENST00000564088.1_Silent_p.G271G|MLST8_ENST00000301725.7_3'UTR|MLST8_ENST00000301724.10_Silent_p.G271G|MLST8_ENST00000565250.1_Silent_p.G271G	NM_022372.4	NP_071767.3	Q9BVC4	LST8_HUMAN	MTOR associated protein, LST8 homolog (S. cerevisiae)	271					epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of actin filament polymerization (GO:0030838)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of TOR signaling (GO:0032008)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of Rac GTPase activity (GO:0032314)|T cell costimulation (GO:0031295)	cytoplasm (GO:0005737)|cytosol (GO:0005829)				large_intestine(3)|lung(2)|skin(1)	6						CCTCCCGCGGCTGGATGTGGG	0.677																																																0													61	74	70					16																	2258565		2030	4167	6197	SO:0001819	synonymous_variant	64223				CCDS10462.2, CCDS58409.1	16p13.3	2013-01-09			ENSG00000167965	ENSG00000167965		"WD repeat domain containing"	24825	protein-coding gene	gene with protein product	"G protein beta subunit like"	612190				12477932	Standard	NM_022372		Approved	Lst8, Pop3, GBL, GbetaL	uc002cpc.3	Q9BVC4	OTTHUMG00000128827	ENST00000569417.1:c.813C>T	16.37:g.2258565C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KMM4|B4DY00|D3DU88|Q5M800|Q86Y18|Q8WUI5|Q9HA66|Q9UJV6	Silent	SNP	ENST00000569417.1	37	CCDS10462.2																																																																																				0.677	MLST8-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000250763.2	NM_022372		T	2258565	C	T	2258565	2	4	616	1	0	0	0	0	0	0	0	1	9641	784	28	2		2	MLST8	16	2258565	Silent	SNP	C	TCGA-IZ-8195-01A-31D-2396-08		2258565	88096188	87	37639										
PPP4C	5531	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	30094761	30094761	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gatccggggcaaccatgagaGtcgccagatcacgcaggtct	13	12	2	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr16:30094761G>A	ENST00000279387.7	+	6	518	c.350G>A	c.(349-351)aGt>aAt	p.S117N	PPP4C_ENST00000561610.1_Missense_Mutation_p.S117N	NM_002720.1	NP_002711.1	P60510	PP4C_HUMAN	protein phosphatase 4, catalytic subunit	117					dephosphorylation (GO:0016311)|NIK/NF-kappaB signaling (GO:0038061)|regulation of double-strand break repair via homologous recombination (GO:0010569)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein phosphatase 4 complex (GO:0030289)	metal ion binding (GO:0046872)|NF-kappaB-inducing kinase activity (GO:0004704)|protein serine/threonine phosphatase activity (GO:0004722)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|liver(2)|lung(2)|pancreas(1)|skin(1)|urinary_tract(1)	9						AACCATGAGAGTCGCCAGATC	0.592																																																0													101	92	95					16																	30094761		2197	4300	6497	SO:0001583	missense	5531				CCDS10669.1	16p11.2	2010-03-17	2010-03-05		ENSG00000149923	ENSG00000149923	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatase, catalytic subunits"	9319	protein-coding gene	gene with protein product	"protein phosphatase X, catalytic subunit"	602035	"protein phosphatase 4 (formerly X), catalytic subunit"			9177794	Standard	NM_002720		Approved	PP4, PPX	uc002dwf.3	P60510	OTTHUMG00000132113	ENST00000279387.7:c.350G>A	16.37:g.30094761G>A	ENSP00000279387:p.Ser117Asn	Somatic		WXS	Illumina HiSeq	Phase_I	P33172	Missense_Mutation	SNP	ENST00000279387.7	37	CCDS10669.1	.	.	.	.	.	.	.	.	.	.	G	26.0	4.690325	0.88735	.	.	ENSG00000149923	ENST00000279387	D	0.85861	-2.04	5.83	5.83	0.93111	Serine/threonine-specific protein phosphatase/bis(5-nucleosyl)-tetraphosphatase (2);Metallophosphoesterase domain (1);	0.136138	0.64402	D	0.000003	D	0.94751	0.8306	H	0.97315	3.98	0.80722	D	1	P	0.44380	0.834	P	0.55785	0.784	D	0.95816	0.8845	10	0.87932	D	0	1.9966	18.8865	0.92379	0.0:0.0:1.0:0.0	.	117	P60510	PP4C_HUMAN	N	117	ENSP00000279387:S117N	ENSP00000279387:S117N	S	+	2	0	PPP4C	30002262	1.000000	0.71417	1.000000	0.80357	0.854000	0.48673	2.862000	0.48388	2.761000	0.94854	0.650000	0.86243	AGT		0.592	PPP4C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255155.2	NM_002720		A	30094761	G	A	30094761	3	1	616	1	0	0	0	0	1	0	0	0	12412	1029	36	2	368	2	PPP4C	16	30094761	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	27836196	30094761	60259992	88	37640										
ITFG1	81533	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	47189669	47189669	+	Frame_Shift_Del	DEL	T	T	-													0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	aaccggtgggcttcttgtcgTttttctctatcatctgcttt							TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr16:47189669delT	ENST00000320640.6	-	18	2028	c.1800delA	c.(1798-1800)aaafs	p.K600fs	RP11-329J18.2_ENST00000565694.1_RNA|RP11-329J18.2_ENST00000564705.1_RNA|ITFG1_ENST00000568047.1_5'UTR|ITFG1_ENST00000544001.2_3'UTR	NM_030790.3	NP_110417.2	Q8TB96	TIP_HUMAN	integrin alpha FG-GAP repeat containing 1	600						extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				breast(1)|central_nervous_system(2)|kidney(1)|large_intestine(2)|lung(7)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(1)	19		all_cancers(37;0.0613)|all_lung(18;0.0543)|Lung NSC(13;0.227)				CTTCTTGTCGTTTTTCTCTAT	0.328																																																0													158	171	167					16																	47189669		2202	4300	6502	SO:0001589	frameshift_variant	81533			AF503339	CCDS10728.1	16q12.1	2008-02-05			ENSG00000129636	ENSG00000129636			30697	protein-coding gene	gene with protein product	"T cell immunomodulatory protein"	611803				12598909	Standard	NM_030790		Approved	CDA08, TIP	uc002eet.3	Q8TB96	OTTHUMG00000133103	ENST00000320640.6:c.1800delA	16.37:g.47189669delT	ENSP00000319918:p.Lys600fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q96SR4|Q9BRE2|Q9H2V9	Frame_Shift_Del	DEL	ENST00000320640.6	37	CCDS10728.1																																																																																				0.328	ITFG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256768.3	NM_030790		-	47189669	T	-	47189669	7	5	616	1	0	1	0	1	0	0	0	0	7876	1722	60	0	42	0	ITFG1	16	47189669	Frame_Shift_Del	DEL	T	TCGA-IZ-8195-01A-31D-2396-08	17094908	47189669	43165084	89	37641										
MARVELD3	91862	broad.mit.edu;bcgsc.ca	37	chr16	71663293	71663293	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	acccccttcggagagatatcTgccctcgacccccaggcctg	9	18	1	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr16:71663293T>A	ENST00000268485.3	+	2	535	c.491T>A	c.(490-492)cTg>cAg	p.L164Q	MARVELD3_ENST00000565261.1_Missense_Mutation_p.C110S|MARVELD3_ENST00000567501.1_5'UTR|MARVELD3_ENST00000299952.4_Missense_Mutation_p.L164Q|RP11-432I5.2_ENST00000562763.1_RNA|MARVELD3_ENST00000567566.1_Missense_Mutation_p.L164Q	NM_052858.4	NP_443090.4	Q96A59	MALD3_HUMAN	MARVEL domain containing 3	164	Pro-rich.				cell-cell junction organization (GO:0045216)|tight junction assembly (GO:0070830)	cytoplasmic vesicle (GO:0031410)|integral component of membrane (GO:0016021)|tight junction (GO:0005923)				NS(1)|endometrium(3)|large_intestine(5)|lung(6)|skin(2)	17		Ovarian(137;0.125)				GAGAGATATCTGCCCTCGACC	0.502																																																0													97	90	92					16																	71663293		2198	4300	6498	SO:0001583	missense	91862			BC013376	CCDS10904.1, CCDS32478.1, CCDS59270.1	16q22.2	2008-02-05	2004-07-12	2004-07-14	ENSG00000140832	ENSG00000140832			30525	protein-coding gene	gene with protein product		614094	"MARVEL (membrane-associating) domain containing 3"	MRVLDC3			Standard	NM_001017967		Approved		uc002fat.4	Q96A59	OTTHUMG00000137591	ENST00000268485.3:c.491T>A	16.37:g.71663293T>A	ENSP00000268485:p.Leu164Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K820|H3BQM5|Q96MJ4	Missense_Mutation	SNP	ENST00000268485.3	37	CCDS10904.1	.	.	.	.	.	.	.	.	.	.	T	9.698	1.153699	0.21371	.	.	ENSG00000140832	ENST00000268485;ENST00000299952	T;T	0.49139	0.79;0.84	5.57	3.3	0.37823	.	0.821835	0.11320	N	0.576170	T	0.48857	0.1523	L	0.34521	1.04	0.09310	N	0.999993	D;D;D	0.71674	0.958;0.958;0.998	P;P;P	0.62560	0.66;0.66;0.904	T	0.28776	-1.0033	10	0.18276	T	0.48	-13.3398	6.9002	0.24279	0.0:0.1987:0.0:0.8013	.	164;164;187	Q96A59-2;Q96A59;Q9BSH2	.;MALD3_HUMAN;.	Q	164	ENSP00000268485:L164Q;ENSP00000299952:L164Q	ENSP00000268485:L164Q	L	+	2	0	MARVELD3	70220794	0.001000	0.12720	0.001000	0.08648	0.051000	0.14879	0.598000	0.24074	0.958000	0.37956	0.459000	0.35465	CTG		0.502	MARVELD3-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000268991.2	NM_052858		A	71663293	T	A	71663293	3	1	616	1	0	0	0	0	1	0	0	0	9326	1580	55	5	497	5	MARVELD3	16	71663293	Missense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08	24473624	71663293	18691460	90	37642										
ABR	29	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	916353	916353	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tccccggctcaccccgttcaTctcaatcacgtccgtgtgcc	7	19	4	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr17:916353T>C	ENST00000302538.5	-	17	1989	c.1843A>G	c.(1843-1845)Atg>Gtg	p.M615V	ABR_ENST00000574437.1_Missense_Mutation_p.M569V|ABR_ENST00000291107.2_Missense_Mutation_p.M578V|ABR_ENST00000572441.1_Missense_Mutation_p.M66V|ABR_ENST00000543210.2_Missense_Mutation_p.M66V|ABR_ENST00000536794.2_Missense_Mutation_p.M397V|ABR_ENST00000544583.2_Missense_Mutation_p.M569V	NM_001282149.1|NM_021962.3	NP_001269078.1|NP_068781.2	Q12979	ABR_HUMAN	active BCR-related	615					actin cytoskeleton organization (GO:0030036)|apoptotic signaling pathway (GO:0097190)|brain development (GO:0007420)|inner ear morphogenesis (GO:0042472)|negative regulation of cell migration (GO:0030336)|negative regulation of inflammatory response (GO:0050728)|negative regulation of neutrophil degranulation (GO:0043314)|neuromuscular process controlling balance (GO:0050885)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of phagocytosis (GO:0050766)|regulation of small GTPase mediated signal transduction (GO:0051056)|response to lipopolysaccharide (GO:0032496)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)|plasma membrane (GO:0005886)	GTPase activator activity (GO:0005096)|Rac GTPase activator activity (GO:0030675)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(6)|lung(12)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	39				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		ACCCCGTTCATCTCAATCACG	0.632																																					Esophageal Squamous(197;2016 2115 4129 29033 46447)											0													232	177	196					17																	916353		2203	4300	6503	SO:0001583	missense	29			L19704	CCDS10999.1, CCDS11000.1, CCDS54060.1, CCDS58497.1, CCDS73936.1	17p13	2013-01-10	2012-02-27		ENSG00000159842	ENSG00000159842		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	81	protein-coding gene	gene with protein product		600365	"active BCR-related gene"			2587217, 7479768	Standard	NM_001092		Approved	MDB	uc002fsd.4	Q12979	OTTHUMG00000090313	ENST00000302538.5:c.1843A>G	17.37:g.916353T>C	ENSP00000303909:p.Met615Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3KW89|B7Z6H7|D3DTH3|D3DTH4|F5H3S2|F5H8B3|Q13693|Q13694	Missense_Mutation	SNP	ENST00000302538.5	37	CCDS10999.1	.	.	.	.	.	.	.	.	.	.	T	16.54	3.152234	0.57259	.	.	ENSG00000159842	ENST00000302538;ENST00000544583;ENST00000291107;ENST00000536794;ENST00000543210	T;T;T;T;T	0.19532	2.17;2.18;2.14;3.39;3.13	5.77	5.77	0.91146	C2 calcium/lipid-binding domain, CaLB (1);	0.046264	0.85682	D	0.000000	T	0.39733	0.1089	M	0.65975	2.015	0.41941	D	0.990616	B;B;P;B	0.43578	0.128;0.452;0.811;0.129	B;P;P;B	0.60789	0.101;0.455;0.879;0.045	T	0.15037	-1.0451	10	0.16896	T	0.51	.	12.5258	0.56085	0.0:0.0:0.0:1.0	.	397;66;578;615	B7Z683;F5H3S2;Q12979-2;Q12979	.;.;.;ABR_HUMAN	V	615;569;578;397;66	ENSP00000303909:M615V;ENSP00000442048:M569V;ENSP00000291107:M578V;ENSP00000437429:M397V;ENSP00000445198:M66V	ENSP00000291107:M578V	M	-	1	0	ABR	863103	1.000000	0.71417	1.000000	0.80357	0.948000	0.59901	3.919000	0.56439	2.220000	0.72140	0.529000	0.55759	ATG		0.632	ABR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206675.4			C	916353	T	C	916353	3	2	616	1	0	0	0	0	1	0	0	0	99	1435	50	3	764	3	ABR	17	916353	Missense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08		916353	80278857	91	37643										
CTNS	1497	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	3550808	3550808	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	agctcgaccaacgtcagcctCaccctgcggtaagttcctgg	10	15	2	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr17:3550808C>T	ENST00000046640.3	+	4	725	c.132C>T	c.(130-132)ctC>ctT	p.L44L	CTNS_ENST00000441220.2_Intron|CTNS_ENST00000381870.3_Silent_p.L44L|CTNS_ENST00000414524.2_Intron|CTNS_ENST00000399306.2_Silent_p.L44L|CTNS_ENST00000488623.1_3'UTR	NM_004937.2	NP_004928.2	O60931	CTNS_HUMAN	cystinosin, lysosomal cystine transporter	44					adult walking behavior (GO:0007628)|ATP metabolic process (GO:0046034)|brain development (GO:0007420)|cellular amino acid metabolic process (GO:0006520)|cognition (GO:0050890)|glutathione metabolic process (GO:0006749)|grooming behavior (GO:0007625)|L-cystine transport (GO:0015811)|lens development in camera-type eye (GO:0002088)|long-term memory (GO:0007616)|visual learning (GO:0008542)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|intermediate filament cytoskeleton (GO:0045111)|intracellular membrane-bounded organelle (GO:0043231)|late endosome (GO:0005770)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|plasma membrane (GO:0005886)	L-cystine transmembrane transporter activity (GO:0015184)			NS(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(2)	10				COAD - Colon adenocarcinoma(5;0.0829)	L-Cystine(DB00138)	ACGTCAGCCTCACCCTGCGGT	0.602																																																0													135	100	112					17																	3550808		2203	4300	6503	SO:0001819	synonymous_variant	1497			AJ222967	CCDS11031.1, CCDS32530.1	17p13	2011-06-07	2011-06-07		ENSG00000040531	ENSG00000040531			2518	protein-coding gene	gene with protein product		606272	"cystinosis, nephropathic"			9537412, 15128704	Standard	NM_004937		Approved	CTNS-LSB, PQLC4	uc002fwa.3	O60931	OTTHUMG00000090693	ENST00000046640.3:c.132C>T	17.37:g.3550808C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DTJ5|Q8IZ01|Q9UNK6	Silent	SNP	ENST00000046640.3	37	CCDS11031.1																																																																																				0.602	CTNS-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317696.1	NM_004937		T	3550808	C	T	3550808	2	4	616	1	0	0	0	0	0	0	0	1	4023	813	29	2		2	CTNS	17	3550808	Silent	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	2634455	3550808	77644402	92	37644										
GPR179	440435	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	36486249	36486249	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ggctgtgggatttagggaagAtcttgggcctgtcttcgtcc	15	8	2	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr17:36486249A>C	ENST00000342292.4	-	11	3223	c.3203T>G	c.(3202-3204)aTc>aGc	p.I1068S	GPR179_ENST00000584976.1_5'Flank	NM_001004334.2	NP_001004334.2	Q6PRD1	GP179_HUMAN	G protein-coupled receptor 179	1068					visual perception (GO:0007601)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			breast(4)|cervix(2)|endometrium(9)|kidney(3)|large_intestine(16)|lung(15)|ovary(4)|pancreas(1)|prostate(1)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	60	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				TTTAGGGAAGATCTTGGGCCT	0.562																																																0													70	76	74					17																	36486249		2078	4209	6287	SO:0001583	missense	440435				CCDS42308.1	17q21.1	2014-05-06	2006-02-16	2006-02-16	ENSG00000188888	ENSG00000277399		"GPCR / Class C : Orphans"	31371	protein-coding gene	gene with protein product		614515	"GPR158-like 1", "GPR179"	GPR158L1			Standard	NM_001004334		Approved	CSNB1E	uc002hpz.3	Q6PRD1	OTTHUMG00000188545	ENST00000342292.4:c.3203T>G	17.37:g.36486249A>C	ENSP00000345060:p.Ile1068Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000342292.4	37	CCDS42308.1	.	.	.	.	.	.	.	.	.	.	A	0.624	-0.819832	0.02776	.	.	ENSG00000188888	ENST00000342292	T	0.52295	0.67	5.14	2.9	0.33743	.	0.633204	0.14796	N	0.297947	T	0.28200	0.0696	N	0.24115	0.695	0.18873	N	0.999981	B	0.15473	0.013	B	0.14023	0.01	T	0.17592	-1.0364	10	0.25106	T	0.35	-0.9541	3.9932	0.09546	0.6254:0.1793:0.1953:0.0	.	1068	Q6PRD1	GP179_HUMAN	S	1068	ENSP00000345060:I1068S	ENSP00000345060:I1068S	I	-	2	0	GPR179	33739775	0.000000	0.05858	0.494000	0.27515	0.138000	0.21146	-0.354000	0.07681	0.427000	0.26145	0.379000	0.24179	ATC		0.562	GPR179-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255329.2			C	36486249	A	C	36486249	3	2	616	1	0	0	0	0	1	0	0	0	6681	333	12	5	3904	5	GPR179	17	36486249	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	32935441	36486249	44708961	93	37645										
FOXK2	3607	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	80543893	80543893	+	Frame_Shift_Del	DEL	C	C	-													0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tgaccacctcgacctcccagCcacccgtcgtgcagacggtt							TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr17:80543893delC	ENST00000335255.5	+	7	1567	c.1393delC	c.(1393-1395)ccafs	p.P466fs	RP13-638C3.3_ENST00000575085.1_RNA	NM_004514.3	NP_004505.2	Q01167	FOXK2_HUMAN	forkhead box K2	466					positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)	intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	magnesium ion binding (GO:0000287)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(5)|prostate(1)|urinary_tract(1)	17	Breast(20;0.00106)|all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.0371)|BRCA - Breast invasive adenocarcinoma(99;0.0415)			GACCTCCCAGCCACCCGTCGT	0.632																																																0													69	56	60					17																	80543893		2200	4294	6494	SO:0001589	frameshift_variant	3607			U58196	CCDS11813.1	17q25	2006-12-15	2004-03-09	2004-03-10	ENSG00000141568	ENSG00000141568		"Forkhead boxes"	6036	protein-coding gene	gene with protein product		147685	"interleukin enhancer binding factor 1"	ILF, ILF1		3260003	Standard	NM_004514		Approved		uc002kfn.3	Q01167	OTTHUMG00000140374	ENST00000335255.5:c.1393delC	17.37:g.80543893delC	ENSP00000335677:p.Pro466fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEP5|Q13622|Q13623|Q13624	Frame_Shift_Del	DEL	ENST00000335255.5	37	CCDS11813.1																																																																																				0.632	FOXK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277099.2	NM_181430		-	80543893	C	-	80543893	7	5	616	1	0	1	0	1	0	0	0	0	6022	739	26	0	1419	0	FOXK2	17	80543893	Frame_Shift_Del	DEL	C	TCGA-IZ-8195-01A-31D-2396-08	44057644	80543893	651317	94	37646										
IL29	282618	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	39787490	39787490	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ggagttgcagctctcctgtcTtccccgggaattgggacctg	13	12	2	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr19:39787490T>G	ENST00000333625.2	+	2	314	c.217T>G	c.(217-219)Ttc>Gtc	p.F73V		NM_172140.1	NP_742152.1	Q8IU54	IFNL1_HUMAN	interferon, lambda 1	73					defense response to virus (GO:0051607)|JAK-STAT cascade (GO:0007259)|negative regulation of cell proliferation (GO:0008285)|negative regulation of interleukin-13 production (GO:0032696)|negative regulation of interleukin-5 production (GO:0032714)|negative regulation of memory T cell differentiation (GO:0043381)|negative regulation of T cell differentiation (GO:0045581)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of type 2 immune response (GO:0002829)|positive regulation of immune response (GO:0050778)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of JAK-STAT cascade (GO:0046427)|positive regulation of MHC class I biosynthetic process (GO:0045345)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of tyrosine phosphorylation of STAT protein (GO:0042531)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|interleukin-28 receptor complex (GO:0032002)	interleukin-28 receptor binding (GO:0032003)|receptor binding (GO:0005102)										CTCTCCTGTCTTCCCCGGGAA	0.572																																																0													91	86	88					19																	39787490		2203	4300	6503	SO:0001583	missense	282618			AY129150	CCDS12531.1	19q13.13	2014-05-22	2012-11-26	2012-11-26	ENSG00000182393	ENSG00000182393		"Interferons"	18363	protein-coding gene	gene with protein product		607403	"interleukin 29", "interleukin 29 (interferon, lambda 1)"	IL29			Standard	NM_172140		Approved	IL-29	uc002okv.3	Q8IU54		ENST00000333625.2:c.217T>G	19.37:g.39787490T>G	ENSP00000329991:p.Phe73Val	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV25|Q17R34	Missense_Mutation	SNP	ENST00000333625.2	37	CCDS12531.1	.	.	.	.	.	.	.	.	.	.	T	17.77	3.470360	0.63625	.	.	ENSG00000182393	ENST00000333625	T	0.35421	1.31	3.69	3.69	0.42338	.	0.094954	0.46758	D	0.000269	T	0.59770	0.2218	M	0.84846	2.72	0.25011	N	0.991407	D	0.71674	0.998	D	0.71870	0.975	T	0.54098	-0.8344	10	0.66056	D	0.02	-28.5284	10.3642	0.44012	0.0:0.0:0.0:1.0	.	73	Q8IU54	IL29_HUMAN	V	73	ENSP00000329991:F73V	ENSP00000329991:F73V	F	+	1	0	IL29	44479330	0.956000	0.32656	0.939000	0.37840	0.068000	0.16541	1.113000	0.31184	1.553000	0.49476	0.374000	0.22700	TTC		0.572	IFNL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463834.1	NM_172140		G	39787490	T	G	39787490	3	3	616	1	0	0	0	0	1	0	0	0	7692	1609	56	5	223	5	IL29	19	39787490	Missense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08		39787490	19341493	95	37647										
PRR19	284338	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	42814766	42814766	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ctgcctcagccttcatcaccCctgttgccccgaacctctgt	6	19	4	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr19:42814766C>T	ENST00000499536.2	+	2	1756	c.945C>T	c.(943-945)ccC>ccT	p.P315P	PRR19_ENST00000598490.1_3'UTR|TMEM145_ENST00000598766.1_5'Flank|TMEM145_ENST00000301204.3_5'Flank|PRR19_ENST00000341747.3_Silent_p.P315P			A6NJB7	PRR19_HUMAN	proline rich 19	315	Pro-rich.									NS(1)|kidney(1)|large_intestine(2)|lung(2)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	10		Prostate(69;0.00682)				CTTCATCACCCCTGTTGCCCC	0.652																																																0													71	82	78					19																	42814766		2203	4300	6503	SO:0001819	synonymous_variant	284338			AK124116	CCDS33036.1	19q13.2	2007-12-17				ENSG00000188368			33728	protein-coding gene	gene with protein product							Standard	NM_199285		Approved	MGC70924	uc002oti.3	A6NJB7		ENST00000499536.2:c.945C>T	19.37:g.42814766C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K663|B3KW48|Q6P584	Silent	SNP	ENST00000499536.2	37	CCDS33036.1																																																																																				0.652	PRR19-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463735.1	NM_199285		T	42814766	C	T	42814766	2	4	616	1	0	0	0	0	0	0	0	1	12601	610	22	2		2	PRR19	19	42814766	Silent	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	3027276	42814766	16314217	96	37648										
RSPH6A	81492	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	46317875	46317875	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gctcgggctcaggcacctggGcactgtagtgtgggaagccc	16	12	1	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr19:46317875G>C	ENST00000221538.3	-	1	702	c.560C>G	c.(559-561)gCc>gGc	p.A187G	RSPH6A_ENST00000597055.1_Missense_Mutation_p.A187G|SYMPK_ENST00000598155.1_5'Flank	NM_030785.3	NP_110412.1	Q9H0K4	RSH6A_HUMAN	radial spoke head 6 homolog A (Chlamydomonas)	187						intracellular (GO:0005622)				central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(6)|liver(1)|lung(14)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	32						AGGCACCTGGGCACTGTAGTG	0.612																																																0													41	42	42					19																	46317875		2203	4300	6503	SO:0001583	missense	81492			AL136761	CCDS12675.1	19q13.3	2010-02-17	2009-11-18	2009-11-18	ENSG00000104941	ENSG00000104941			14241	protein-coding gene	gene with protein product		607548	"radial spokehead-like 1"	RSHL1		11237735	Standard	NM_030785		Approved	RSP4, RSP6, RSPH4B	uc002pdm.3	Q9H0K4		ENST00000221538.3:c.560C>G	19.37:g.46317875G>C	ENSP00000221538:p.Ala187Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q53FE2|Q6PEZ9	Missense_Mutation	SNP	ENST00000221538.3	37	CCDS12675.1	.	.	.	.	.	.	.	.	.	.	G	7.970	0.748802	0.15710	.	.	ENSG00000104941	ENST00000221538	T	0.14022	2.54	4.76	-7.87	0.01183	.	1.573020	0.03646	N	0.240221	T	0.05273	0.0140	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.35822	-0.9773	10	0.12766	T	0.61	-6.7105	6.8603	0.24064	0.3005:0.342:0.3575:0.0	.	187	Q9H0K4	RSH6A_HUMAN	G	187	ENSP00000221538:A187G	ENSP00000221538:A187G	A	-	2	0	RSPH6A	51009715	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.503000	0.06383	-1.022000	0.03346	-0.274000	0.10170	GCC		0.612	RSPH6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000461657.1			C	46317875	G	C	46317875	3	2	616	1	0	0	0	0	1	0	0	0	13720	1203	42	4	1617	4	RSPH6A	19	46317875	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	3503109	46317875	12811108	97	37649										
MYPOP	339344	hgsc.bcm.edu	37	chr19	46394100	46394100	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gtgatctccaccttgggggcCggtgggggcaggacaggcct	18	11	1	1	rs142323830	byFrequency	TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr19:46394100C>T	ENST00000322217.5	-	3	1067	c.981G>A	c.(979-981)ccG>ccA	p.P327P		NM_001012643.2	NP_001012661.1	Q86VE0	MYPOP_HUMAN	Myb-related transcription factor, partner of profilin	327	Pro-rich.					nucleus (GO:0005634)	chromatin binding (GO:0003682)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)			large_intestine(2)|lung(1)|skin(1)	4						CCTTGGGGGCCGGTGGGGGCA	0.697													T|||	49	0.00978435	0.003	0.0159	5008	,	,		4018	0.0		0.0278	False		,,,				2504	0.0061															0								T		20,3674		0,20,1827	3	3	3		981	-5.3	0	19	dbSNP_134	3	242,7102		1,240,3431	no	coding-synonymous	MYPOP	NM_001012643.2		1,260,5258	TT,TC,CC		3.2952,0.5414,2.3736		327/400	46394100	262,10776	1847	3672	5519	SO:0001819	synonymous_variant	339344			BC044311	CCDS33055.1	19q13.32	2014-06-13			ENSG00000176182	ENSG00000176182			20178	protein-coding gene	gene with protein product	"p42 Myb-related transcription factor, partner of profilin"					15615774	Standard	NM_001012643		Approved	P42pop	uc002pdt.3	Q86VE0	OTTHUMG00000182486	ENST00000322217.5:c.981G>A	19.37:g.46394100C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000322217.5	37	CCDS33055.1																																																																																				0.697	MYPOP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000461684.1	NM_001012643		T	46394100	C	T	46394100	2	4	616	1	0	0	0	0	0	0	0	1	10106	639	23	1		1	MYPOP	19	46394100	Silent	SNP	C	TCGA-IZ-8195-01A-31D-2396-08	76225	46394100	12734883	98	37650										
PEG3	5178	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	57325186	57325186	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	acgttcgatgtagcctgagcActccccaaaggcatttgcag	10	12	0	1	rs530969342		TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr19:57325186A>G	ENST00000326441.9	-	10	4987	c.4624T>C	c.(4624-4626)Tgc>Cgc	p.C1542R	PEG3_ENST00000598410.1_Missense_Mutation_p.C1418R|ZIM2_ENST00000601070.1_Intron|ZIM2_ENST00000221722.5_Intron|PEG3_ENST00000423103.2_Missense_Mutation_p.C1542R|PEG3_ENST00000593695.1_Missense_Mutation_p.C1416R|ZIM2_ENST00000599935.1_Intron|ZIM2_ENST00000593711.1_Intron|ZIM2_ENST00000391708.3_Intron	NM_006210.2	NP_006201.1	Q9GZU2	PEG3_HUMAN	paternally expressed 3	1542					apoptotic process (GO:0006915)|genetic imprinting (GO:0071514)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)			NS(1)|biliary_tract(4)|breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(27)|lung(84)|ovary(8)|pancreas(5)|prostate(6)|skin(8)|stomach(2)|upper_aerodigestive_tract(6)	170		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TAGCCTGAGCACTCCCCAAAG	0.488													A|||	0	0.0	0.0	0.0	5008	,	,		21323	0.0		0.0	False		,,,				2504	0.0															0													158	137	144					19																	57325186		2203	4300	6503	SO:0001583	missense	5178			AB006625	CCDS12948.1, CCDS58684.1, CCDS58685.1	19q13.4	2013-01-09				ENSG00000198300		"Zinc fingers, C2H2-type", "-", "-", "-"	8826	protein-coding gene	gene with protein product		601483				9149948	Standard	NM_006210		Approved	ZKSCAN22, KIAA0287, ZNF904, ZSCAN24	uc010etr.2	Q9GZU2		ENST00000326441.9:c.4624T>C	19.37:g.57325186A>G	ENSP00000326581:p.Cys1542Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2B8|B4DIM4|C9JP50|P78418|Q5H9P9|Q7Z7H7|Q8TF75|Q9GZY2	Missense_Mutation	SNP	ENST00000326441.9	37	CCDS12948.1	.	.	.	.	.	.	.	.	.	.	A	10.68	1.417219	0.25552	.	.	ENSG00000198300	ENST00000326441;ENST00000423103	T;T	0.03330	3.97;3.97	3.95	-1.91	0.07641	.	0.139082	0.33712	N	0.004636	T	0.01800	0.0057	N	0.19112	0.55	.	.	.	B;B;B	0.29432	0.159;0.244;0.244	B;B;B	0.29176	0.031;0.047;0.099	T	0.41324	-0.9515	9	0.23302	T	0.38	-3.4232	0.998	0.01471	0.2243:0.3544:0.1312:0.2901	.	1418;1542;1477	A7E2B8;Q9GZU2;Q96Q96	.;PEG3_HUMAN;.	R	1542	ENSP00000326581:C1542R;ENSP00000403051:C1542R	ENSP00000326581:C1542R	C	-	1	0	ZIM2	62016998	0.001000	0.12720	0.008000	0.14137	0.951000	0.60555	0.315000	0.19451	-0.525000	0.06391	0.482000	0.46254	TGC		0.488	PEG3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416099.2			G	57325186	A	G	57325186	3	3	616	1	0	0	0	0	1	0	0	0	11727	159	6	3	146	3	PEG3	19	57325186	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08	10931086	57325186	1803797	99	37651										
ZNF814	730051	broad.mit.edu	37	chr19	58384658	58384660	+	In_Frame_Del	DEL	CTT	CTT	-													0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tggtgtacaaggaggtgagaCttcttcttaaataattttcc							TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr19:58384658_58384660delCTT	ENST00000435989.2	-	3	2332_2334	c.2098_2100delAAG	c.(2098-2100)aagdel	p.K700del	ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000595295.1_Intron|ZNF814_ENST00000597342.1_Intron|ZNF814_ENST00000597832.1_Intron|ZNF814_ENST00000596604.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	700					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						GGAGGTGAGACTTCTTCTTAAAT	0.384																																																0																																										SO:0001651	inframe_deletion	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.2098_2100delAAG	19.37:g.58384664_58384666delCTT	ENSP00000410545:p.Lys700del	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF35	In_Frame_Del	DEL	ENST00000435989.2	37	CCDS46212.1																																																																																				0.384	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		-	58384660	CTT	-	58384658	7	5	616	1	0	1	0	1	0	0	0	0	18188	564	20	0	471	0	ZNF814	19	58384658	In_Frame_Del	DEL	CTT	TCGA-IZ-8195-01A-31D-2396-08	1059472	58384658	744325	100	37652										
SAMHD1	25939	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	35532631	35532631	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tttagcactggcaacctcttTtggaagagattcatagtcct	8	9	2	1			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr20:35532631T>C	ENST00000262878.4	-	13	1631	c.1432A>G	c.(1432-1434)Aaa>Gaa	p.K478E		NM_015474.3	NP_056289.2	Q9Y3Z3	SAMH1_HUMAN	SAM domain and HD domain 1	478					dATP catabolic process (GO:0046061)|defense response to virus (GO:0051607)|dGTP catabolic process (GO:0006203)|immune response (GO:0006955)|innate immune response (GO:0045087)|protein homotetramerization (GO:0051289)|regulation of innate immune response (GO:0045088)	intracellular (GO:0005622)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	dGTP binding (GO:0032567)|dGTPase activity (GO:0008832)|nucleic acid binding (GO:0003676)|RNA binding (GO:0003723)|zinc ion binding (GO:0008270)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(8)|urinary_tract(1)	20		Myeloproliferative disorder(115;0.00878)				GCAACCTCTTTTGGAAGAGAT	0.388																																																0													167	160	163					20																	35532631		2203	4300	6503	SO:0001583	missense	25939			AF228421	CCDS13288.1	20q11.23	2014-09-17			ENSG00000101347	ENSG00000101347		"Sterile alpha motif (SAM) domain containing"	15925	protein-coding gene	gene with protein product	"HD domain containing 1", "monocyte protein 5", "Aicardi-Goutieres syndrome 5"	606754				11064105, 11230166	Standard	NM_015474		Approved	SBBI88, Mg11, HDDC1, MOP-5, AGS5	uc002xgh.2	Q9Y3Z3	OTTHUMG00000032402	ENST00000262878.4:c.1432A>G	20.37:g.35532631T>C	ENSP00000262878:p.Lys478Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2A5|E1P5V2|Q5JXG8|Q8N491|Q9H004|Q9H005|Q9H3U9	Missense_Mutation	SNP	ENST00000262878.4	37	CCDS13288.1	.	.	.	.	.	.	.	.	.	.	T	3.335	-0.135924	0.06711	.	.	ENSG00000101347	ENST00000262878	D	0.95035	-3.59	5.58	-1.17	0.09648	.	0.908554	0.09627	N	0.776782	T	0.81880	0.4916	N	0.05012	-0.13	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.70040	-0.4981	10	0.12103	T	0.63	-4.9058	2.7471	0.05270	0.1081:0.3573:0.2665:0.2681	.	478	Q9Y3Z3	SAMH1_HUMAN	E	478	ENSP00000262878:K478E	ENSP00000262878:K478E	K	-	1	0	SAMHD1	34966045	0.001000	0.12720	0.005000	0.12908	0.362000	0.29581	-0.100000	0.10990	-0.173000	0.10761	0.460000	0.39030	AAA		0.388	SAMHD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079062.2	NM_015474		C	35532631	T	C	35532631	3	2	616	1	0	0	0	0	1	0	0	0	13841	1850	64	3	464	3	SAMHD1	20	35532631	Missense_Mutation	SNP	T	TCGA-IZ-8195-01A-31D-2396-08		35532631	27492889	101	37653										
FITM2	128486	hgsc.bcm.edu	37	chr20	42939740	42939740	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	gtagcgccgcacggccgcccGcaccagcgttccccgcaaca	11	20	0	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr20:42939740G>A	ENST00000396825.3	-	1	69	c.49C>T	c.(49-51)Cgg>Tgg	p.R17W		NM_001080472.1	NP_001073941.1	Q8N6M3	FITM2_HUMAN	fat storage-inducing transmembrane protein 2	17					cellular triglyceride homeostasis (GO:0035356)|cytoskeleton organization (GO:0007010)|lipid particle organization (GO:0034389)|positive regulation of sequestering of triglyceride (GO:0010890)|regulation of cell morphogenesis (GO:0022604)|regulation of triglyceride biosynthetic process (GO:0010866)	endoplasmic reticulum membrane (GO:0005789)|integral component of endoplasmic reticulum membrane (GO:0030176)|mitochondrion (GO:0005739)				endometrium(2)|lung(2)|skin(2)	6						ACGGCCGCCCGCACCAGCGTT	0.692											OREG0025965	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													44	41	42					20																	42939740		2197	4298	6495	SO:0001583	missense	128486			BC029662	CCDS33473.1	20q13.12	2009-04-29	2009-04-29	2009-04-29	ENSG00000197296	ENSG00000197296			16135	protein-coding gene	gene with protein product	"fat inducing transcript 2"	612029	"chromosome 20 open reading frame 142"	C20orf142		18160536	Standard	NM_001080472		Approved	dJ881L22.2, FIT2	uc002xlr.1	Q8N6M3	OTTHUMG00000032522	ENST00000396825.3:c.49C>T	20.37:g.42939740G>A	ENSP00000380037:p.Arg17Trp	Somatic	912	WXS	Illumina HiSeq	Phase_I	A1L492|B9EGQ4|Q5TE59|Q9H3Y1	Missense_Mutation	SNP	ENST00000396825.3	37	CCDS33473.1	.	.	.	.	.	.	.	.	.	.	G	20.4	3.987782	0.74589	.	.	ENSG00000197296	ENST00000396825	.	.	.	5.21	4.17	0.49024	.	0.606331	0.16941	N	0.193271	T	0.46737	0.1408	N	0.24115	0.695	0.32924	D	0.516204	D	0.76494	0.999	P	0.57620	0.824	T	0.58098	-0.7696	9	0.66056	D	0.02	.	8.8643	0.35276	0.0:0.1241:0.3961:0.4799	.	17	Q8N6M3	FITM2_HUMAN	W	17	.	ENSP00000380037:R17W	R	-	1	2	FITM2	42373154	0.867000	0.29959	0.999000	0.59377	0.698000	0.40448	1.213000	0.32407	0.962000	0.38057	0.484000	0.47621	CGG		0.692	FITM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079342.2	XM_371399		A	42939740	G	A	42939740	3	1	616	1	0	0	0	0	1	0	0	0	5906	1086	38	1	747	1	FITM2	20	42939740	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08	7407109	42939740	20085780	102	37654										
SFRS15	57466	hgsc.bcm.edu	37	chr21	33057763	33057763	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ggaggaatggatactggtggAgttataggaggtgggggtcc	20	3	0	0			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr21:33057763A>G	ENST00000286835.7	-	18	2626	c.2244T>C	c.(2242-2244)acT>acC	p.T748T	SCAF4_ENST00000399804.1_Silent_p.T748T|SCAF4_ENST00000434667.3_Silent_p.T733T	NM_020706.2	NP_065757.1	O95104	SFR15_HUMAN	SR-related CTD-associated factor 4	748						nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(2)|endometrium(9)|kidney(9)|large_intestine(11)|lung(15)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	54						ATACTGGTGGAGTTATAGGAG	0.433																																																0													92	94	93					21																	33057763		2203	4300	6503	SO:0001819	synonymous_variant	57466			AB032998	CCDS33537.1, CCDS46644.1, CCDS54482.1	21q22.1	2013-02-12	2011-01-10	2011-01-10	ENSG00000156304	ENSG00000156304		"RNA binding motif (RRM) containing"	19304	protein-coding gene	gene with protein product			"splicing factor, arginine/serine-rich 15"	SFRS15		10574461	Standard	NM_020706		Approved	KIAA1172, DKFZp434E098, SRA4	uc002ypd.2	O95104	OTTHUMG00000084903	ENST00000286835.7:c.2244T>C	21.37:g.33057763A>G		Somatic		WXS	Illumina HiSeq	Phase_I	C9JLZ0|Q0P5W8|Q6P1M5|Q8N3I8|Q9UFM1|Q9ULP8	Silent	SNP	ENST00000286835.7	37	CCDS33537.1																																																																																				0.433	SCAF4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000192659.1	XM_047889		G	33057763	A	G	33057763	2	3	616	1	0	0	0	0	0	0	0	1	14184	291	11	3		3	SFRS15	21	33057763	Silent	SNP	A	TCGA-IZ-8195-01A-31D-2396-08		33057763	15072132	103	37655										
CACNA1I	8911	hgsc.bcm.edu	37	chr22	40080409	40080409	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	cagccagaaaggcccagaaaAgggcactggcactggaaccc	12	13	0	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chr22:40080409A>G	ENST00000402142.3	+	36	5933	c.5933A>G	c.(5932-5934)aAg>aGg	p.K1978R	CACNA1I_ENST00000400164.3_Missense_Mutation_p.K1943R|CACNA1I_ENST00000404898.1_Missense_Mutation_p.K1943R|CACNA1I_ENST00000336649.4_Missense_Mutation_p.K1984R|CACNA1I_ENST00000407673.1_Missense_Mutation_p.K1943R|CACNA1I_ENST00000401624.1_Missense_Mutation_p.K1978R	NM_021096.3	NP_066919.2	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type, alpha 1I subunit	1978					axon guidance (GO:0007411)|calcium ion import (GO:0070509)|membrane depolarization during action potential (GO:0086010)|neuronal action potential (GO:0019228)|signal transduction (GO:0007165)|sleep (GO:0030431)|transport (GO:0006810)	plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	voltage-gated calcium channel activity (GO:0005245)			breast(2)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|liver(2)|lung(27)|ovary(1)|pancreas(2)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	60	Melanoma(58;0.0749)				Cinnarizine(DB00568)|Flunarizine(DB04841)|Paramethadione(DB00617)|Spironolactone(DB00421)|Verapamil(DB00661)|Zonisamide(DB00909)	GGCCCAGAAAAGGGCACTGGC	0.642																																																0													41	46	44					22																	40080409		2027	4190	6217	SO:0001583	missense	8911			AF129133	CCDS46710.1, CCDS46711.1	22q13.1	2012-03-07	2007-02-16		ENSG00000100346	ENSG00000100346		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1396	protein-coding gene	gene with protein product		608230				10454147, 16382099	Standard	NM_021096		Approved	Cav3.3	uc003ayd.3	Q9P0X4	OTTHUMG00000151096	ENST00000402142.3:c.5933A>G	22.37:g.40080409A>G	ENSP00000385019:p.Lys1978Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B0QY12|B0QY13|B0QY14|O95504|Q5JZ88|Q7Z6S9|Q8NFX6|Q9NZC8|Q9UH15|Q9UH30|Q9ULU9|Q9UNE6	Missense_Mutation	SNP	ENST00000402142.3	37	CCDS46710.1	.	.	.	.	.	.	.	.	.	.	A	6.096	0.385972	0.11524	.	.	ENSG00000100346	ENST00000402142;ENST00000404898;ENST00000401624;ENST00000407673;ENST00000336649;ENST00000400164	D;D;D;D;D;D	0.96967	-4.17;-4.13;-4.16;-4.12;-4.19;-4.1	5.05	2.86	0.33363	.	2.583880	0.02234	U	0.065144	D	0.91523	0.7323	N	0.24115	0.695	0.09310	N	1	B;B;B;B	0.20459	0.045;0.0;0.0;0.0	B;B;B;B	0.18561	0.022;0.001;0.001;0.0	T	0.81258	-0.1014	10	0.19147	T	0.46	.	2.9533	0.05868	0.6285:0.1545:0.0779:0.139	.	1943;1978;1943;1978	Q9P0X4-3;Q9P0X4-2;Q9P0X4-4;Q9P0X4	.;.;.;CAC1I_HUMAN	R	1978;1943;1978;1943;1984;1943	ENSP00000385019:K1978R;ENSP00000384093:K1943R;ENSP00000383887:K1978R;ENSP00000385680:K1943R;ENSP00000337829:K1984R;ENSP00000383028:K1943R	ENSP00000337829:K1984R	K	+	2	0	CACNA1I	38410355	0.997000	0.39634	0.308000	0.25141	0.069000	0.16628	1.737000	0.38197	0.255000	0.21593	0.459000	0.35465	AAG		0.642	CACNA1I-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000321290.1	NM_001003406		G	40080409	A	G	40080409	3	3	616	1	0	0	0	0	1	0	0	0	2548	72	3	3	6075	3	CACNA1I	22	40080409	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08		40080409	11224157	104	37656										
CXorf59	286464	hgsc.bcm.edu	37	chrX	36103603	36103603	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	tacctgtagataaccatgaaAaaagggtaattcaactccat	6	8	1	2			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chrX:36103603A>G	ENST00000313548.4	+	5	775	c.589A>G	c.(589-591)Aaa>Gaa	p.K197E		NM_173695.2	NP_775966.1	Q8N9S7	CHDC2_HUMAN	calponin homology domain containing 2	197						integral component of membrane (GO:0016021)											TAACCATGAAAAAAGGGTAAT	0.368																																																0													77	71	73					X																	36103603		2202	4300	6502	SO:0001583	missense	286464			AK093920	CCDS14238.1	Xp21.1	2014-08-07	2012-11-28	2012-11-28	ENSG00000176034	ENSG00000176034			26708	protein-coding gene	gene with protein product			"chromosome X open reading frame 59"	CXorf59			Standard	NM_173695		Approved	FLJ36601, RP13-11B7.1	uc004ddk.1	Q8N9S7	OTTHUMG00000021351	ENST00000313548.4:c.589A>G	X.37:g.36103603A>G	ENSP00000324767:p.Lys197Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000313548.4	37	CCDS14238.1	.	.	.	.	.	.	.	.	.	.	A	0	-2.721792	0.00092	.	.	ENSG00000176034	ENST00000378660;ENST00000313548	.	.	.	0.158	0.158	0.14942	.	0.426104	0.20758	N	0.086213	T	0.16685	0.0401	N	0.14661	0.345	0.09310	N	1	P	0.34587	0.458	B	0.39152	0.292	T	0.31861	-0.9928	8	0.02654	T	1	.	.	.	.	.	197	Q8N9S7	CX059_HUMAN	E	197	.	ENSP00000324767:K197E	K	+	1	0	CXorf59	36013524	0.994000	0.37717	0.097000	0.21041	0.017000	0.09413	0.241000	0.18065	0.160000	0.19432	0.158000	0.16466	AAA		0.368	CHDC2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_173695		G	36103603	A	G	36103603	3	3	616	1	0	0	0	0	1	0	0	0	4117	15	1	3	603	3	CXorf59	23	36103603	Missense_Mutation	SNP	A	TCGA-IZ-8195-01A-31D-2396-08		36103603	119166957	105	37657										
ZFY	7544	broad.mit.edu	37	chrY	2843189	2843189	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0566037735849057	6	1	1.21011235955056	1.61348314606742	1.07565543071161	0.628482972136223	1	0	ccactggagtgaccatcgatGcagaatcagaaatggatcct	10	10	1	3			TCGA-IZ-8195-01A-31D-2396-08	TCGA-IZ-8195-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fcdb724c-08ad-42b7-9fef-e4d84edaf2fe	5d320b5a-a67a-4a11-908d-9c5e8c70e16a	g.chrY:2843189G>C	ENST00000155093.3	+	4	1009	c.688G>C	c.(688-690)Gca>Cca	p.A230P	ZFY_ENST00000449237.1_Missense_Mutation_p.A204P|ZFY-AS1_ENST00000417305.1_RNA|ZFY_ENST00000431102.1_Missense_Mutation_p.A39P|ZFY_ENST00000383052.1_Missense_Mutation_p.A230P	NM_003411.3	NP_003402.2	P08048	ZFY_HUMAN	zinc finger protein, Y-linked	230					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			biliary_tract(1)|kidney(3)|large_intestine(1)|lung(3)	8						GACCATCGATGCAGAATCAGA	0.398																																																0													103	103	103					Y																	2843189		614	1956	2570	SO:0001583	missense	7544			L10393	CCDS14774.1, CCDS48200.1, CCDS48201.1	Yp11.3	2013-01-08			ENSG00000067646	ENSG00000067646		"Zinc fingers, C2H2-type"	12870	protein-coding gene	gene with protein product		490000				2497060	Standard	NM_001145275		Approved	ZNF911	uc004fqj.3	P08048	OTTHUMG00000036159	ENST00000155093.3:c.688G>C	Y.37:g.2843189G>C	ENSP00000155093:p.Ala230Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DVF7|Q14021|Q15558|Q1RME9|Q24JR0|Q96TF3	Missense_Mutation	SNP	ENST00000155093.3	37	CCDS14774.1																																																																																				0.398	ZFY-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088063.1	NM_003411		C	2843189	G	C	2843189	3	2	616	1	0	0	0	0	1	0	0	0	17674	1319	46	4	698	4	ZFY	24	2843189	Missense_Mutation	SNP	G	TCGA-IZ-8195-01A-31D-2396-08		2843189	56530377	106	37658										
DDI2	84301	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	15956839	15956839	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gacttaccccgaatagatttCagtagtatagctgtgcctgg	10	9	1	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr1:15956839C>T	ENST00000480945.1	+	3	459	c.288C>T	c.(286-288)ttC>ttT	p.F96F		NM_032341.4	NP_115717.3	Q5TDH0	DDI2_HUMAN	DNA-damage inducible 1 homolog 2 (S. cerevisiae)	96							aspartic-type endopeptidase activity (GO:0004190)			breast(1)|central_nervous_system(2)|endometrium(2)|large_intestine(2)|lung(7)|pancreas(1)|prostate(1)|stomach(1)	17		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00327)|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;9.03e-07)|COAD - Colon adenocarcinoma(227;4.48e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00773)|READ - Rectum adenocarcinoma(331;0.0656)		GAATAGATTTCAGTAGTATAG	0.463																																																0													87	90	89					1																	15956839		2203	4300	6503	SO:0001819	synonymous_variant	84301				CCDS30607.1	1p36.13	2010-05-04	2010-05-04		ENSG00000197312	ENSG00000197312			24578	protein-coding gene	gene with protein product			"DDI1, DNA-damage inducible 1, homolog 2 (S. cerevisiae)"				Standard	NM_032341		Approved	MGC14844	uc001awx.2	Q5TDH0	OTTHUMG00000002381	ENST00000480945.1:c.288C>T	1.37:g.15956839C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8KAE1|Q7RTZ0|Q9BRT1	Silent	SNP	ENST00000480945.1	37	CCDS30607.1																																																																																				0.463	DDI2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006826.1	NM_032341		T	15956839	C	T	15956839	2	4	617	1	0	0	0	0	0	0	0	1	4331	825	29	2		2	DDI2	1	15956839	Silent	SNP	C	TCGA-IZ-8196-01A-11D-2396-08		15956839	233293782	1	37659										
PLA2G5	5322	hgsc.bcm.edu	37	chr1	20416294	20416294	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	acggacaggtgctgttgggcGcatgaccactgctatgggcg	16	10	0	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr1:20416294G>A	ENST00000375108.3	+	4	466	c.198G>A	c.(196-198)gcG>gcA	p.A66A	PLA2G5_ENST00000486277.1_3'UTR	NM_000929.2	NP_000920.1	P39877	PA2G5_HUMAN	phospholipase A2, group V	66					arachidonic acid secretion (GO:0050482)|glycerophospholipid biosynthetic process (GO:0046474)|leukotriene biosynthetic process (GO:0019370)|lipid catabolic process (GO:0016042)|phosphatidic acid biosynthetic process (GO:0006654)|phosphatidylcholine acyl-chain remodeling (GO:0036151)|phosphatidylethanolamine acyl-chain remodeling (GO:0036152)|phosphatidylglycerol acyl-chain remodeling (GO:0036148)|phosphatidylinositol acyl-chain remodeling (GO:0036149)|phosphatidylserine acyl-chain remodeling (GO:0036150)|phospholipid metabolic process (GO:0006644)|platelet activating factor biosynthetic process (GO:0006663)|response to cAMP (GO:0051591)|response to cytokine (GO:0034097)|small molecule metabolic process (GO:0044281)	cell surface (GO:0009986)|extracellular region (GO:0005576)|Golgi apparatus (GO:0005794)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|calcium-dependent phospholipase A2 activity (GO:0047498)|heparin binding (GO:0008201)			NS(1)|large_intestine(1)|lung(8)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	14		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000249)|Lung NSC(340;0.000287)|Breast(348;0.000812)|Ovarian(437;0.00328)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.22e-05)|BRCA - Breast invasive adenocarcinoma(304;8.15e-05)|Kidney(64;0.000184)|GBM - Glioblastoma multiforme(114;0.00089)|KIRC - Kidney renal clear cell carcinoma(64;0.0027)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0652)		GCTGTTGGGCGCATGACCACT	0.567																																																0													92	75	81					1																	20416294		2203	4300	6503	SO:0001819	synonymous_variant	5322			U03090	CCDS202.1	1p36-p34	2008-09-19			ENSG00000127472	ENSG00000127472	3.1.1.4		9038	protein-coding gene	gene with protein product		601192				8838795, 8300559	Standard	NM_000929		Approved		uc001bcy.3	P39877	OTTHUMG00000002698	ENST00000375108.3:c.198G>A	1.37:g.20416294G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N435	Silent	SNP	ENST00000375108.3	37	CCDS202.1																																																																																				0.567	PLA2G5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000007668.1	NM_000929		A	20416294	G	A	20416294	2	1	617	1	0	0	0	0	0	0	0	1	12014	1074	38	1		1	PLA2G5	1	20416294	Silent	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	4459455	20416294	228834327	2	37660										
MSH4	4438	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	76269502	76269502	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	caagctcatcttctgcacgaGatactaattatcctcaaaca	4	12	4	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr1:76269502G>A	ENST00000263187.3	+	2	435	c.331G>A	c.(331-333)Gat>Aat	p.D111N		NM_002440.3	NP_002431.2	O15457	MSH4_HUMAN	mutS homolog 4	111					ATP catabolic process (GO:0006200)|chiasma assembly (GO:0051026)|female gamete generation (GO:0007292)|homologous chromosome segregation (GO:0045143)|mismatch repair (GO:0006298)|ovarian follicle development (GO:0001541)|reciprocal meiotic recombination (GO:0007131)|spermatogenesis (GO:0007283)	nucleus (GO:0005634)|synaptonemal complex (GO:0000795)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA-dependent ATPase activity (GO:0008094)|mismatched DNA binding (GO:0030983)			breast(1)|endometrium(2)|kidney(4)|large_intestine(9)|lung(26)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	47						TTCTGCACGAGATACTAATTA	0.363								Mismatch excision repair (MMR)																																								0													97	101	100					1																	76269502		2203	4300	6503	SO:0001583	missense	4438			U89293	CCDS670.1	1p31	2013-09-12	2013-09-12		ENSG00000057468	ENSG00000057468			7327	protein-coding gene	gene with protein product		602105	"mutS (E. coli) homolog 4", "mutS homolog 4 (E. coli)"			9299235	Standard	NM_002440		Approved		uc001dhd.2	O15457	OTTHUMG00000009788	ENST00000263187.3:c.331G>A	1.37:g.76269502G>A	ENSP00000263187:p.Asp111Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T4U6|Q8NEB3|Q9UNP8	Missense_Mutation	SNP	ENST00000263187.3	37	CCDS670.1	.	.	.	.	.	.	.	.	.	.	G	10.35	1.326532	0.24080	.	.	ENSG00000057468	ENST00000263187	D	0.87256	-2.23	4.73	3.81	0.43845	.	0.591556	0.15780	N	0.245000	T	0.61776	0.2374	N	0.24115	0.695	0.09310	N	1	B	0.19817	0.039	B	0.11329	0.006	T	0.55392	-0.8148	10	0.49607	T	0.09	-16.9831	6.3049	0.21133	0.16:0.0:0.6929:0.147	.	111	O15457	MSH4_HUMAN	N	111	ENSP00000263187:D111N	ENSP00000263187:D111N	D	+	1	0	MSH4	76042090	0.920000	0.31207	0.889000	0.34880	0.806000	0.45545	3.225000	0.51246	0.984000	0.38629	-0.266000	0.10368	GAT		0.363	MSH4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026983.1	NM_002440		A	76269502	G	A	76269502	3	1	617	1	0	0	0	0	1	0	0	0	9879	942	33	2	337	2	MSH4	1	76269502	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	55853208	76269502	172981119	3	37661										
LRRC8C	84230	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	90180228	90180228	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tgacattcgatttatcccccCtgaaattggagttctacaaa	6	10	1	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr1:90180228C>A	ENST00000370454.4	+	3	2354	c.2099C>A	c.(2098-2100)cCt>cAt	p.P700H	RP11-302M6.4_ENST00000370453.5_Intron|LRRC8C_ENST00000479252.1_Intron	NM_032270.4	NP_115646	Q8TDW0	LRC8C_HUMAN	leucine rich repeat containing 8 family, member C	700					fat cell differentiation (GO:0045444)|ion transport (GO:0006811)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)				breast(1)|central_nervous_system(1)|large_intestine(5)|lung(10)|ovary(3)|pancreas(1)|prostate(1)|skin(5)|urinary_tract(1)	28		all_lung(203;0.126)		all cancers(265;0.00756)|Epithelial(280;0.0313)		TTTATCCCCCCTGAAATTGGA	0.383																																																0													68	63	65					1																	90180228		2203	4299	6502	SO:0001583	missense	84230				CCDS725.1	1p22.2	2011-02-10			ENSG00000171488	ENSG00000171488			25075	protein-coding gene	gene with protein product	"hypothetical protein AD158"	612889				11230166	Standard	NM_032270		Approved	AD158	uc001dnl.4	Q8TDW0	OTTHUMG00000010305	ENST00000370454.4:c.2099C>A	1.37:g.90180228C>A	ENSP00000359483:p.Pro700His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXS9|Q29RV6|Q9H075	Missense_Mutation	SNP	ENST00000370454.4	37	CCDS725.1	.	.	.	.	.	.	.	.	.	.	C	12.14	1.849986	0.32699	.	.	ENSG00000171488	ENST00000370454	T	0.25414	1.8	5.87	5.87	0.94306	.	0.000000	0.85682	D	0.000000	T	0.24353	0.0590	M	0.78049	2.395	0.80722	D	1	B	0.25351	0.124	B	0.24269	0.052	T	0.02789	-1.1110	10	0.35671	T	0.21	.	20.5827	0.99408	0.0:1.0:0.0:0.0	.	700	Q8TDW0	LRC8C_HUMAN	H	700	ENSP00000359483:P700H	ENSP00000359483:P700H	P	+	2	0	LRRC8C	89952816	1.000000	0.71417	0.801000	0.32222	0.989000	0.77384	6.050000	0.71063	2.941000	0.99782	0.655000	0.94253	CCT		0.383	LRRC8C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000028435.2	NM_032270		A	90180228	C	A	90180228	3	1	617	1	0	0	0	0	1	0	0	0	9030	681	24	4	2105	4	LRRC8C	1	90180228	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	13910726	90180228	159070393	4	37662										
RBM15	64783	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	110882978	110882978	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gctcttggccgcctgcccccTccacctccgccaccattgcc	7	23	1	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr1:110882978T>C	ENST00000369784.3	+	1	1851	c.951T>C	c.(949-951)ccT>ccC	p.P317P	RP5-1074L1.1_ENST00000449169.1_RNA|RBM15_ENST00000602849.1_Silent_p.P317P|RBM15_ENST00000487146.2_Silent_p.P317P	NM_022768.4	NP_073605.4	Q96T37	RBM15_HUMAN	RNA binding motif protein 15	317					negative regulation of myeloid cell differentiation (GO:0045638)|patterning of blood vessels (GO:0001569)|placenta blood vessel development (GO:0060674)|positive regulation of transcription of Notch receptor target (GO:0007221)|spleen development (GO:0048536)|ventricular septum morphogenesis (GO:0060412)|viral process (GO:0016032)	membrane (GO:0016020)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			ovary(3)	3		all_cancers(81;2.89e-06)|all_epithelial(167;2.96e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Breast(1374;0.0634)		BRCA - Breast invasive adenocarcinoma(282;0.000224)|Epithelial(280;0.000476)|Kidney(133;0.000539)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|all cancers(265;0.00144)|Lung(183;0.0238)|Colorectal(144;0.103)|LUSC - Lung squamous cell carcinoma(189;0.135)		GCCTGCCCCCTCCACCTCCGC	0.607			T	MKL1	acute megakaryocytic leukemia																																		Dom	yes		1	1p13	64783	RNA binding motif protein 15		L	0													46	52	50					1																	110882978		2203	4300	6503	SO:0001819	synonymous_variant	64783			AF368063	CCDS822.1, CCDS59198.1	1p13	2013-02-12			ENSG00000162775	ENSG00000162775		"RNA binding motif (RRM) containing"	14959	protein-coding gene	gene with protein product	"one twenty-two"	606077				11431691, 11344311	Standard	NM_001201545		Approved	OTT, OTT1	uc001dzl.1	Q96T37	OTTHUMG00000011284	ENST00000369784.3:c.951T>C	1.37:g.110882978T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A1A693|Q3ZB86|Q4V760|Q5D058|Q5T613|Q86VW9|Q96PE4|Q96SC5|Q96SC6|Q96SC9|Q96SD0|Q96T38|Q9BRA5|Q9H6R8|Q9H9Y0	Silent	SNP	ENST00000369784.3	37	CCDS822.1																																																																																				0.607	RBM15-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000031114.2	NM_022768		C	110882978	T	C	110882978	2	2	617	1	0	0	0	0	0	0	0	1	13129	1538	54	3		3	RBM15	1	110882978	Silent	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	20702750	110882978	138367643	5	37663										
ANKRD35	148741	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	145561688	145561688	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tggccctgatcatgctgaccAgctgcctgctggtcagaagg	13	12	2	3			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr1:145561688A>G	ENST00000355594.4	+	10	1463	c.1376A>G	c.(1375-1377)cAg>cGg	p.Q459R		NM_144698.3	NP_653299.4	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	459										NS(1)|biliary_tract(1)|central_nervous_system(1)|endometrium(7)|kidney(2)|large_intestine(9)|lung(16)|ovary(4)|prostate(3)|skin(2)|urinary_tract(1)	47	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CATGCTGACCAGCTGCCTGCT	0.592																																					Melanoma(9;127 754 22988 51047)											0													55	63	60					1																	145561688		2203	4300	6503	SO:0001583	missense	148741			AK091120	CCDS72867.1, CCDS72868.1	1q21.1	2013-01-10			ENSG00000198483	ENSG00000198483		"Ankyrin repeat domain containing"	26323	protein-coding gene	gene with protein product							Standard	NM_144698		Approved	FLJ25124	uc001eob.1	Q8N283	OTTHUMG00000013743	ENST00000355594.4:c.1376A>G	1.37:g.145561688A>G	ENSP00000347802:p.Gln459Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEU0|B4DL62|Q3MJ10|Q96LS3	Missense_Mutation	SNP	ENST00000355594.4	37	CCDS919.1	.	.	.	.	.	.	.	.	.	.	a	0.294	-0.978340	0.02197	.	.	ENSG00000198483	ENST00000453670;ENST00000355594	T	0.67698	-0.28	5.54	0.0734	0.14390	.	0.859396	0.09865	N	0.745663	T	0.33760	0.0874	M	0.63428	1.95	0.09310	N	1	B	0.26935	0.164	B	0.22601	0.04	T	0.16158	-1.0412	10	0.27785	T	0.31	-2.3373	2.517	0.04670	0.4852:0.2931:0.0804:0.1412	.	459	Q8N283	ANR35_HUMAN	R	368;459	ENSP00000347802:Q459R	ENSP00000347802:Q459R	Q	+	2	0	ANKRD35	144273045	0.003000	0.15002	0.000000	0.03702	0.002000	0.02628	1.054000	0.30455	0.044000	0.15775	-0.253000	0.11424	CAG		0.592	ANKRD35-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000038515.1	NM_144698		G	145561688	A	G	145561688	3	3	617	1	0	0	0	0	1	0	0	0	664	188	7	3	1414	3	ANKRD35	1	145561688	Missense_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	34678710	145561688	103688933	6	37664										
ATP8B2	57198	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	154314963	154314968	+	In_Frame_Del	DEL	GTTTGA	GTTTGA	-													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tggctgtatgtaggtgatgtGtttgacgtcctgggacacaa							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	GTTTGA	GTTTGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr1:154314963_154314968delGTTTGA	ENST00000368489.3	+	14	1350_1355	c.1350_1355delGTTTGA	c.(1348-1356)gtgtttgac>gtc	p.FD451del		NM_020452.3	NP_065185.1	P98198	AT8B2_HUMAN	ATPase, aminophospholipid transporter, class I, type 8B, member 2	437					ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)		IL6R/ATP8B2(2)	breast(2)|endometrium(4)|kidney(3)|large_intestine(7)|lung(25)|ovary(3)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	51	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TAGGTGATGTGTTTGACGTCCTGGGA	0.49																																																0																																										SO:0001651	inframe_deletion	57198			AB032963	CCDS1066.1, CCDS41405.1	1q21.3	2012-03-09	2012-03-09		ENSG00000143515	ENSG00000143515		"ATPases / P-type"	13534	protein-coding gene	gene with protein product		605867	"ATPase, class I, type 8B, member 2"			10574461, 11015572	Standard	NM_020452		Approved	ATPID, KIAA1137	uc001fex.3	P98198	OTTHUMG00000035979	ENST00000368489.3:c.1350_1355delGTTTGA	1.37:g.154314963_154314968delGTTTGA	ENSP00000357475:p.Phe451_Asp452del	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3P4|Q6NT69|Q7Z486|Q96I43|Q96NQ7	In_Frame_Del	DEL	ENST00000368489.3	37	CCDS1066.1																																																																																				0.49	ATP8B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087658.2	NM_020452		-	154314968	GTTTGA	-	154314963	7	5	617	1	0	1	0	1	0	0	0	0	1195	1364	48	0	1534	0	ATP8B2	1	154314963	In_Frame_Del	DEL	GTTTGA	TCGA-IZ-8196-01A-11D-2396-08	8753275	154314963	94935658	7	37665	291	3								
ATP8B2	57198	bcgsc.ca	37	chr1	154314970	154314970	+	Missense_Mutation	SNP	G	G	C													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	atgtaggtgatgtgtttgacGtcctgggacacaaagctgaa					rs201587979		TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr1:154314970G>C	ENST00000368489.3	+	14	1357	c.1357G>C	c.(1357-1359)Gtc>Ctc	p.V453L		NM_020452.3	NP_065185.1	P98198	AT8B2_HUMAN	ATPase, aminophospholipid transporter, class I, type 8B, member 2	439					ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)		IL6R/ATP8B2(2)	breast(2)|endometrium(4)|kidney(3)|large_intestine(7)|lung(25)|ovary(3)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	51	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TGTGTTTGACGTCCTGGGACA	0.488																																																0													218	191	200					1																	154314970		2203	4300	6503	SO:0001583	missense	57198			AB032963	CCDS1066.1, CCDS41405.1	1q21.3	2012-03-09	2012-03-09		ENSG00000143515	ENSG00000143515		"ATPases / P-type"	13534	protein-coding gene	gene with protein product		605867	"ATPase, class I, type 8B, member 2"			10574461, 11015572	Standard	NM_020452		Approved	ATPID, KIAA1137	uc001fex.3	P98198	OTTHUMG00000035979	ENST00000368489.3:c.1357G>C	1.37:g.154314970G>C	ENSP00000357475:p.Val453Leu	Somatic		WXS	Illumina HiSeq	Phase_1	B4E3P4|Q6NT69|Q7Z486|Q96I43|Q96NQ7	Missense_Mutation	SNP	ENST00000368489.3	37	CCDS1066.1	.	.	.	.	.	.	.	.	.	.	G	9.215	1.031832	0.19590	.	.	ENSG00000143515	ENST00000368489	T	0.62639	0.01	5.49	4.55	0.56014	.	0.196433	0.33382	N	0.004963	T	0.19485	0.0468	N	0.03294	-0.36	0.80722	D	1	B	0.02656	0.0	B	0.01281	0.0	T	0.07462	-1.0771	10	0.22109	T	0.4	.	12.1628	0.54113	0.0:0.1722:0.8278:0.0	.	453	P98198-3	.	L	453	ENSP00000357475:V453L	ENSP00000357475:V453L	V	+	1	0	ATP8B2	152581594	1.000000	0.71417	1.000000	0.80357	0.918000	0.54935	2.253000	0.43205	1.267000	0.44247	0.561000	0.74099	GTC		0.488	ATP8B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087658.2	NM_020452		C	154314970	G	C	154314970	3	2	617	1	0	0	0	0	1	0	0	0	1195	1145	40	4	1541	4	ATP8B2	1	154314970	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	7	154314970	94935651	8	37666	291	3								
ATP8B2	57198	bcgsc.ca	37	chr1	154314972	154314972	+	Silent	SNP	C	C	T													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gtaggtgatgtgtttgacgtCctgggacacaaagctgaatt							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr1:154314972C>T	ENST00000368489.3	+	14	1359	c.1359C>T	c.(1357-1359)gtC>gtT	p.V453V		NM_020452.3	NP_065185.1	P98198	AT8B2_HUMAN	ATPase, aminophospholipid transporter, class I, type 8B, member 2	439					ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)		IL6R/ATP8B2(2)	breast(2)|endometrium(4)|kidney(3)|large_intestine(7)|lung(25)|ovary(3)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	51	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TGTTTGACGTCCTGGGACACA	0.483																																																0													217	190	199					1																	154314972		2203	4300	6503	SO:0001819	synonymous_variant	57198			AB032963	CCDS1066.1, CCDS41405.1	1q21.3	2012-03-09	2012-03-09		ENSG00000143515	ENSG00000143515		"ATPases / P-type"	13534	protein-coding gene	gene with protein product		605867	"ATPase, class I, type 8B, member 2"			10574461, 11015572	Standard	NM_020452		Approved	ATPID, KIAA1137	uc001fex.3	P98198	OTTHUMG00000035979	ENST00000368489.3:c.1359C>T	1.37:g.154314972C>T		Somatic		WXS	Illumina HiSeq	Phase_1	B4E3P4|Q6NT69|Q7Z486|Q96I43|Q96NQ7	Silent	SNP	ENST00000368489.3	37	CCDS1066.1																																																																																				0.483	ATP8B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087658.2	NM_020452		T	154314972	C	T	154314972	2	4	617	1	0	0	0	0	0	0	0	1	1195	842	30	2		2	ATP8B2	1	154314972	Silent	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	2	154314972	94935649	9	37667	291	3								
MAEL	84944	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	166974561	166974561	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ggatctaccaacaaaaatttCtcaaggagccctctaagact	6	11	3	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr1:166974561C>A	ENST00000367872.4	+	8	1016	c.772C>A	c.(772-774)Ctc>Atc	p.L258I	MAEL_ENST00000491055.1_3'UTR|RNA5SP65_ENST00000363166.1_RNA|MAEL_ENST00000367870.2_Missense_Mutation_p.L227I	NM_032858.1	NP_116247.1	Q96JY0	MAEL_HUMAN	maelstrom spermatogenic transposon silencer	258					cell differentiation (GO:0030154)|cell morphogenesis (GO:0000902)|DNA methylation involved in gamete generation (GO:0043046)|fertilization (GO:0009566)|gene silencing by RNA (GO:0031047)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|male meiosis (GO:0007140)|multicellular organismal development (GO:0007275)|negative regulation of apoptotic process (GO:0043066)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|piRNA metabolic process (GO:0034587)|regulation of organ growth (GO:0046620)|spermatogenesis (GO:0007283)|synapsis (GO:0007129)	autosome (GO:0030849)|chromatin (GO:0000785)|chromatoid body (GO:0033391)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|P granule (GO:0043186)|perinuclear region of cytoplasm (GO:0048471)|piP-body (GO:0071547)|XY body (GO:0001741)	DNA binding (GO:0003677)			breast(2)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(12)|skin(4)	28						ACAAAAATTTCTCAAGGAGCC	0.398																																																0													73	78	76					1																	166974561		2203	4300	6503	SO:0001583	missense	84944			AK027810, DQ076156	CCDS1257.1, CCDS65712.1, CCDS72975.1	1q24.1	2013-10-11	2012-12-18		ENSG00000143194	ENSG00000143194			25929	protein-coding gene	gene with protein product	"cancer/testis antigen 128", "spermatogenesis associated 35"	611368	"maelstrom homolog (Drosophila)"			19693694, 18694567	Standard	NM_001286378		Approved	FLJ14904, CT128, SPATA35	uc001gdy.1	Q96JY0	OTTHUMG00000034432	ENST00000367872.4:c.772C>A	1.37:g.166974561C>A	ENSP00000356846:p.Leu258Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B4DY43|E9JVC3|Q49AP9|Q5VZP8|Q9UIW6	Missense_Mutation	SNP	ENST00000367872.4	37	CCDS1257.1	.	.	.	.	.	.	.	.	.	.	C	12.06	1.825645	0.32237	.	.	ENSG00000143194	ENST00000367872;ENST00000367870;ENST00000447624	T;T;T	0.47869	0.85;0.83;0.85	5.66	4.75	0.60458	.	0.324591	0.26193	N	0.025795	T	0.13927	0.0337	N	0.08118	0	0.23765	N	0.996906	B;B	0.32071	0.301;0.355	B;B	0.38225	0.209;0.268	T	0.05920	-1.0856	10	0.42905	T	0.14	.	7.8331	0.29355	0.0:0.7505:0.1634:0.086	.	227;258	E9JVC3;Q96JY0	.;MAEL_HUMAN	I	258;227;227	ENSP00000356846:L258I;ENSP00000356844:L227I;ENSP00000402143:L227I	ENSP00000356844:L227I	L	+	1	0	MAEL	165241185	0.611000	0.26992	0.982000	0.44146	0.989000	0.77384	1.344000	0.33941	1.389000	0.46526	0.591000	0.81541	CTC		0.398	MAEL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083239.1	NM_032858		A	166974561	C	A	166974561	3	1	617	1	0	0	0	0	1	0	0	0	9161	913	32	4	802	4	MAEL	1	166974561	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	12659589	166974561	82276060	10	37668										
CNTN2	6900	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	205028742	205028742	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tttgcacccagcatcaaggcCcggttcccagcagagaccta	9	15	1	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr1:205028742C>A	ENST00000331830.4	+	7	1013	c.729C>A	c.(727-729)gcC>gcA	p.A243A	AL583832.1_ENST00000515887.1_RNA	NM_005076.3	NP_005067.1	Q02246	CNTN2_HUMAN	contactin 2 (axonal)	243	Ig-like C2-type 3.				adult walking behavior (GO:0007628)|axon guidance (GO:0007411)|axonal fasciculation (GO:0007413)|cell adhesion (GO:0007155)|cellular protein localization (GO:0034613)|central nervous system myelination (GO:0022010)|cerebral cortex GABAergic interneuron migration (GO:0021853)|clustering of voltage-gated potassium channels (GO:0045163)|establishment of protein localization to juxtaparanode region of axon (GO:0071206)|learning (GO:0007612)|microtubule cytoskeleton organization (GO:0000226)|negative regulation of neuron differentiation (GO:0045665)|positive regulation of adenosine receptor signaling pathway (GO:0060168)|positive regulation of protein processing (GO:0010954)|presynaptic membrane organization (GO:0097090)|receptor internalization (GO:0031623)|regulation of astrocyte differentiation (GO:0048710)|regulation of axon diameter (GO:0031133)|regulation of neuronal synaptic plasticity (GO:0048168)	anchored component of membrane (GO:0031225)|cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|juxtaparanode region of axon (GO:0044224)|myelin sheath (GO:0043209)|neuronal cell body (GO:0043025)|node of Ranvier (GO:0033268)|plasma membrane (GO:0005886)|synapse (GO:0045202)|voltage-gated potassium channel complex (GO:0008076)	carbohydrate binding (GO:0030246)|identical protein binding (GO:0042802)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(11)|lung(23)|ovary(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)	54	all_cancers(21;0.144)|Breast(84;0.0437)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			GCATCAAGGCCCGGTTCCCAG	0.582																																					Melanoma(183;2548 2817 37099 41192)											0													90	91	91					1																	205028742		2203	4300	6503	SO:0001819	synonymous_variant	6900			X67734	CCDS1449.1	1q32.1	2013-02-11			ENSG00000184144	ENSG00000184144		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	2172	protein-coding gene	gene with protein product		190197		TAX, AXT		8307567, 8586965	Standard	NM_005076		Approved	TAG-1, TAX1	uc001hbr.3	Q02246	OTTHUMG00000037105	ENST00000331830.4:c.729C>A	1.37:g.205028742C>A		Somatic		WXS	Illumina HiSeq	Phase_I	P78432|Q5T054	Silent	SNP	ENST00000331830.4	37	CCDS1449.1																																																																																				0.582	CNTN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090080.3	NM_005076		A	205028742	C	A	205028742	2	1	617	1	0	0	0	0	0	0	0	1	3643	610	22	4		4	CNTN2	1	205028742	Silent	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	38054181	205028742	44221879	11	37669										
AHCTF1	25909	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	247070995	247070995	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ctggaaacacagatggcgccCttgtctcattacactttctc	7	13	2	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr1:247070995C>T	ENST00000391829.2	-	5	745	c.622G>A	c.(622-624)Ggg>Agg	p.G208R	AHCTF1_ENST00000326225.3_Missense_Mutation_p.G217R|AHCTF1_ENST00000366508.1_Missense_Mutation_p.G243R			Q8WYP5	ELYS_HUMAN	AT hook containing transcription factor 1	208	Necessary for cytoplasmic localization. {ECO:0000250}.|Seven-bladed beta propeller repeats. {ECO:0000250}.				cytokinesis (GO:0000910)|mitotic cell cycle (GO:0000278)|mRNA transport (GO:0051028)|nuclear pore complex assembly (GO:0051292)|protein transport (GO:0015031)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|kinetochore (GO:0000776)|nuclear matrix (GO:0016363)|nuclear membrane (GO:0031965)|nuclear pore (GO:0005643)|nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(6)|cervix(3)|endometrium(8)|kidney(6)|large_intestine(12)|liver(2)|lung(21)|ovary(5)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(2)	74	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			AGATGGCGCCCTTGTCTCATT	0.383																																					Colon(145;197 1800 4745 15099 26333)											0													135	127	130					1																	247070995		2203	4300	6503	SO:0001583	missense	25909				CCDS1629.1, CCDS1629.2	1q44	2008-09-09			ENSG00000153207	ENSG00000153207			24618	protein-coding gene	gene with protein product	"ELYS transcription factor like protein TMBS62"	610853				11952839	Standard	NM_015446		Approved	ELYS	uc001ibv.2	Q8WYP5	OTTHUMG00000040706	ENST00000391829.2:c.622G>A	1.37:g.247070995C>T	ENSP00000375705:p.Gly208Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGM0|A8MSG9|A8MZ86|Q7Z4E3|Q8IZA4|Q96EH9|Q9Y4Q6	Missense_Mutation	SNP	ENST00000391829.2	37		.	.	.	.	.	.	.	.	.	.	C	22.0	4.223797	0.79576	.	.	ENSG00000153207	ENST00000366508;ENST00000326225;ENST00000391829	T;T;T	0.20738	2.05;2.05;2.05	5.76	5.76	0.90799	.	0.051494	0.85682	D	0.000000	T	0.26195	0.0639	N	0.19112	0.55	0.58432	D	0.999999	D;D	0.59767	0.986;0.981	P;P	0.56474	0.799;0.706	T	0.00761	-1.1577	10	0.37606	T	0.19	-24.8597	15.7857	0.78300	0.0:0.8645:0.1355:0.0	.	243;208	Q8WYP5-2;Q8WYP5	.;ELYS_HUMAN	R	243;217;208	ENSP00000355464:G243R;ENSP00000355465:G217R;ENSP00000375705:G208R	ENSP00000355465:G217R	G	-	1	0	AHCTF1	245137618	1.000000	0.71417	0.982000	0.44146	0.994000	0.84299	5.686000	0.68211	2.880000	0.98712	0.650000	0.86243	GGG		0.383	AHCTF1-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_015446		T	247070995	C	T	247070995	3	4	617	1	0	0	0	0	1	0	0	0	408	681	24	2	6306	2	AHCTF1	1	247070995	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	42042253	247070995	2179626	12	37670										
OR2L8	391190	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	248112473	248112473	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tcagagtttcttcttcttggCattaggaggtgcagaagcac	11	8	4	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr1:248112473C>T	ENST00000357191.3	+	1	314	c.314C>T	c.(313-315)gCa>gTa	p.A105V	OR2L13_ENST00000366478.2_Intron	NM_001001963.1	NP_001001963.1	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L, member 8 (gene/pseudogene)	105						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(1)|kidney(3)|large_intestine(3)|lung(30)|ovary(1)|prostate(1)|skin(3)	42	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)			TTCTTCTTGGCATTAGGAGGT	0.433																																																0													335	270	292					1																	248112473		2203	4300	6503	SO:0001583	missense	391190			BK004459	CCDS31101.1	1q44	2013-10-10	2013-10-10		ENSG00000196936	ENSG00000196936		"GPCR / Class A : Olfactory receptors"	15014	protein-coding gene	gene with protein product			"olfactory receptor, family 2, subfamily L, member 8"				Standard	NM_001001963		Approved		uc001idt.1	Q8NGY9	OTTHUMG00000040196	ENST00000357191.3:c.314C>T	1.37:g.248112473C>T	ENSP00000349719:p.Ala105Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF03	Missense_Mutation	SNP	ENST00000357191.3	37	CCDS31101.1	.	.	.	.	.	.	.	.	.	.	.	8.579	0.881879	0.17467	.	.	ENSG00000196936	ENST00000357191	T	0.00349	7.99	1.64	1.64	0.23874	GPCR, rhodopsin-like superfamily (1);	0.542717	0.13750	U	0.365321	T	0.00178	0.0005	N	0.20483	0.58	0.09310	N	1	B	0.06786	0.001	B	0.06405	0.002	T	0.41805	-0.9488	10	0.87932	D	0	.	3.6931	0.08354	0.0:0.5144:0.0:0.4856	.	105	Q8NGY9	OR2L8_HUMAN	V	105	ENSP00000349719:A105V	ENSP00000349719:A105V	A	+	2	0	OR2L8	246179096	0.000000	0.05858	0.699000	0.30290	0.027000	0.11550	-0.195000	0.09546	0.905000	0.36596	0.479000	0.44913	GCA		0.433	OR2L8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096853.2			T	248112473	C	T	248112473	3	4	617	1	0	0	0	0	1	0	0	0	11016	710	25	2	316	2	OR2L8	1	248112473	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	1041478	248112473	1138148	13	37671										
MBOAT2	129642	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	9002791	9002791	+	Frame_Shift_Del	DEL	A	A	-													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tcctgggtataccccgtgccAaatggcagagagaatgaacg							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr2:9002791delA	ENST00000305997.3	-	11	1312	c.1114delT	c.(1114-1116)tggfs	p.W372fs	MBOAT2_ENST00000486484.1_5'UTR	NM_138799.2	NP_620154.2	Q6ZWT7	MBOA2_HUMAN	membrane bound O-acyltransferase domain containing 2	372					glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylcholine acyl-chain remodeling (GO:0036151)|phosphatidylethanolamine acyl-chain remodeling (GO:0036152)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	1-acylglycerol-3-phosphate O-acyltransferase activity (GO:0003841)		MBOAT2/PRKCE(2)	endometrium(2)|kidney(1)|large_intestine(9)|lung(2)|skin(1)	15	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					ACCCCGTGCCAAATGGCAGAG	0.408																																					Ovarian(194;1699 3813 22401)											0													96	91	93					2																	9002791		2203	4300	6503	SO:0001589	frameshift_variant	129642			BC016005	CCDS1660.1	2p25	2008-02-05	2006-06-29	2006-06-29	ENSG00000143797	ENSG00000143797			25193	protein-coding gene	gene with protein product		611949	"O-acyltransferase (membrane bound) domain containing 2"	OACT2			Standard	NM_138799		Approved	FLJ14415, FLJ90298	uc002qzg.1	Q6ZWT7	OTTHUMG00000090363	ENST00000305997.3:c.1114delT	2.37:g.9002791delA	ENSP00000302177:p.Trp372fs	Somatic		WXS	Illumina HiSeq	Phase_I	A9EDR2|Q8NCE7|Q96KY4	Frame_Shift_Del	DEL	ENST00000305997.3	37	CCDS1660.1																																																																																				0.408	MBOAT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206735.1	NM_138799		-	9002791	A	-	9002791	7	5	617	1	0	1	0	1	0	0	0	0	9364	130	5	0	460	0	MBOAT2	2	9002791	Frame_Shift_Del	DEL	A	TCGA-IZ-8196-01A-11D-2396-08		9002791	234196582	14	37672										
TAF1B	9014	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	10051000	10051000	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	agctgtagctatcattgtggTggtattgaaactgctctttc	10	7	2	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr2:10051000T>C	ENST00000263663.5	+	10	1279	c.1091T>C	c.(1090-1092)gTg>gCg	p.V364A	TAF1B_ENST00000396242.3_Missense_Mutation_p.V109A	NM_005680.2	NP_005671	Q53T94	TAF1B_HUMAN	TATA box binding protein (TBP)-associated factor, RNA polymerase I, B, 63kDa	364	C-terminal cyclin fold.				gene expression (GO:0010467)|RNA polymerase I transcriptional preinitiation complex assembly at the promoter for the nuclear large rRNA transcript (GO:0001189)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription from RNA polymerase I promoter (GO:0006360)|transcription initiation from RNA polymerase I promoter (GO:0006361)|transcription, DNA-templated (GO:0006351)	extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|RNA polymerase I core factor complex (GO:0070860)	metal ion binding (GO:0046872)|RNA polymerase I CORE element sequence-specific DNA binding (GO:0001164)|RNA polymerase I CORE element sequence-specific DNA binding transcription factor recruiting transcription factor activity (GO:0001187)|sequence-specific DNA binding transcription factor activity (GO:0003700)|TBP-class protein binding (GO:0017025)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(1)|lung(4)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	14	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					ATCATTGTGGTGGTATTGAAA	0.358																																																0													195	157	170					2																	10051000		2203	4300	6503	SO:0001583	missense	9014			L39061	CCDS33143.1	2p25	2008-06-02	2002-08-29		ENSG00000115750	ENSG00000115750			11533	protein-coding gene	gene with protein product		604904	"TATA box binding protein (TBP)-associated factor, RNA polymerase I, B, 63kD"			7801123	Standard	NM_005680		Approved	TAFI63, SL1, RAF1B, RAFI63	uc002qzz.3	Q53T94	OTTHUMG00000151673	ENST00000263663.5:c.1091T>C	2.37:g.10051000T>C	ENSP00000263663:p.Val364Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4DI42|F8WD72|Q15574|Q8WVC3	Missense_Mutation	SNP	ENST00000263663.5	37	CCDS33143.1	.	.	.	.	.	.	.	.	.	.	T	11.74	1.730164	0.30684	.	.	ENSG00000115750	ENST00000263663;ENST00000396242	T;T	0.04194	3.68;3.68	5.8	5.8	0.92144	.	0.235349	0.42821	D	0.000656	T	0.07188	0.0182	L	0.46885	1.475	0.24866	N	0.992313	B;P	0.46142	0.051;0.873	B;B	0.40782	0.02;0.34	T	0.25502	-1.0130	9	.	.	.	-9.4571	16.1464	0.81575	0.0:0.0:0.0:1.0	.	364;364	Q53T94;Q53T94-2	TAF1B_HUMAN;.	A	364;109	ENSP00000263663:V364A;ENSP00000379542:V109A	.	V	+	2	0	TAF1B	9968451	0.975000	0.34042	0.043000	0.18650	0.218000	0.24690	3.000000	0.49481	2.220000	0.72140	0.383000	0.25322	GTG		0.358	TAF1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323426.2	NM_005680		C	10051000	T	C	10051000	3	2	617	1	0	0	0	0	1	0	0	0	15532	1696	59	3	1129	3	TAF1B	2	10051000	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	1048209	10051000	233148373	15	37673										
LPIN1	23175	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	11960558	11960558	+	Missense_Mutation	SNP	G	G	C													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	atgtgtattcatacaagcaaGtaggagtgtctttgaataga							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr2:11960558G>C	ENST00000256720.2	+	19	2524	c.2431G>C	c.(2431-2433)Gta>Cta	p.V811L	LPIN1_ENST00000449576.2_Missense_Mutation_p.V896L|LPIN1_ENST00000396097.1_Missense_Mutation_p.V541L|LPIN1_ENST00000425416.2_Missense_Mutation_p.V817L|LPIN1_ENST00000404113.2_Missense_Mutation_p.V312L|LPIN1_ENST00000396099.1_Missense_Mutation_p.V853L	NM_145693.2	NP_663731.1	Q14693	LPIN1_HUMAN	lipin 1	811	C-LIP.				cellular lipid metabolic process (GO:0044255)|fatty acid catabolic process (GO:0009062)|glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylcholine biosynthetic process (GO:0006656)|phosphatidylethanolamine biosynthetic process (GO:0006646)|phospholipid metabolic process (GO:0006644)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)|triglyceride biosynthetic process (GO:0019432)|triglyceride mobilization (GO:0006642)	cytoplasm (GO:0005737)|endoplasmic reticulum membrane (GO:0005789)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)	phosphatidate phosphatase activity (GO:0008195)			autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(2)|kidney(5)|large_intestine(15)|liver(1)|lung(10)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	45	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		ATACAAGCAAGTAGGAGTGTC	0.348																																																0													117	110	112					2																	11960558		2203	4300	6503	SO:0001583	missense	23175			D80010	CCDS1682.1, CCDS58699.1, CCDS58700.1, CCDS58701.1	2p25.1	2008-05-23			ENSG00000134324	ENSG00000134324			13345	protein-coding gene	gene with protein product		605518				11138012, 8724849, 16950137	Standard	NM_145693		Approved	KIAA0188	uc010yjm.3	Q14693	OTTHUMG00000119082	ENST00000256720.2:c.2431G>C	2.37:g.11960558G>C	ENSP00000256720:p.Val811Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8MU38|B4DET9|B4DGS4|B4DGZ6|B5MC18|B7Z858|D6W506|E7ESE7|F5GY24|Q53T25	Missense_Mutation	SNP	ENST00000256720.2	37	CCDS1682.1	.	.	.	.	.	.	.	.	.	.	G	35	5.510636	0.96386	.	.	ENSG00000134324	ENST00000449576;ENST00000396099;ENST00000425416;ENST00000256720;ENST00000396097;ENST00000404113	T;T;T;T;T;T	0.79454	-1.27;-1.27;-1.27;-1.27;-1.27;-1.27	6.02	6.02	0.97574	HAD-like domain (2);LNS2, Lipin/Ned1/Smp2 (2);	0.055717	0.64402	D	0.000001	D	0.90007	0.6880	M	0.87682	2.9	0.80722	D	1	D;D;D	0.64830	0.994;0.988;0.975	D;P;P	0.68039	0.955;0.907;0.883	D	0.90458	0.4444	10	0.87932	D	0	-24.1549	20.5407	0.99260	0.0:0.0:1.0:0.0	.	312;896;811	B4DET9;F5GY24;Q14693	.;.;LPIN1_HUMAN	L	896;853;817;811;541;312	ENSP00000397908:V896L;ENSP00000379406:V853L;ENSP00000401522:V817L;ENSP00000256720:V811L;ENSP00000379404:V541L;ENSP00000386120:V312L	ENSP00000256720:V811L	V	+	1	0	LPIN1	11878009	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.357000	0.97099	2.865000	0.98341	0.655000	0.94253	GTA		0.348	LPIN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239296.3	NM_145693		C	11960558	G	C	11960558	3	2	617	1	0	0	0	0	1	0	0	0	8925	1029	36	4	2501	4	LPIN1	2	11960558	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	1909558	11960558	231238815	16	37674	292	2								
LPIN1	23175	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	11960560	11960560	+	Silent	SNP	A	A	G													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gtgtattcatacaagcaagtAggagtgtctttgaatagaat							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr2:11960560A>G	ENST00000256720.2	+	19	2526	c.2433A>G	c.(2431-2433)gtA>gtG	p.V811V	LPIN1_ENST00000449576.2_Silent_p.V896V|LPIN1_ENST00000396097.1_Silent_p.V541V|LPIN1_ENST00000425416.2_Silent_p.V817V|LPIN1_ENST00000404113.2_Silent_p.V312V|LPIN1_ENST00000396099.1_Silent_p.V853V	NM_145693.2	NP_663731.1	Q14693	LPIN1_HUMAN	lipin 1	811	C-LIP.				cellular lipid metabolic process (GO:0044255)|fatty acid catabolic process (GO:0009062)|glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylcholine biosynthetic process (GO:0006656)|phosphatidylethanolamine biosynthetic process (GO:0006646)|phospholipid metabolic process (GO:0006644)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)|triglyceride biosynthetic process (GO:0019432)|triglyceride mobilization (GO:0006642)	cytoplasm (GO:0005737)|endoplasmic reticulum membrane (GO:0005789)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)	phosphatidate phosphatase activity (GO:0008195)			autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(2)|kidney(5)|large_intestine(15)|liver(1)|lung(10)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	45	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		ACAAGCAAGTAGGAGTGTCTT	0.348																																																0													118	111	113					2																	11960560		2203	4300	6503	SO:0001819	synonymous_variant	23175			D80010	CCDS1682.1, CCDS58699.1, CCDS58700.1, CCDS58701.1	2p25.1	2008-05-23			ENSG00000134324	ENSG00000134324			13345	protein-coding gene	gene with protein product		605518				11138012, 8724849, 16950137	Standard	NM_145693		Approved	KIAA0188	uc010yjm.3	Q14693	OTTHUMG00000119082	ENST00000256720.2:c.2433A>G	2.37:g.11960560A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8MU38|B4DET9|B4DGS4|B4DGZ6|B5MC18|B7Z858|D6W506|E7ESE7|F5GY24|Q53T25	Silent	SNP	ENST00000256720.2	37	CCDS1682.1																																																																																				0.348	LPIN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239296.3	NM_145693		G	11960560	A	G	11960560	2	3	617	1	0	0	0	0	0	0	0	1	8925	407	15	3		3	LPIN1	2	11960560	Silent	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	2	11960560	231238813	17	37675	292	2								
KIF3C	3797	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	26178417	26178417	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tgcagcgtctcaccttcttgAgtttcttggttttgacctcc	8	12	3	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr2:26178417A>C	ENST00000264712.3	-	3	2342	c.1763T>G	c.(1762-1764)cTc>cGc	p.L588R	KIF3C_ENST00000405914.1_Missense_Mutation_p.L588R	NM_002254.6	NP_002245	O14782	KIF3C_HUMAN	kinesin family member 3C	588					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|blood coagulation (GO:0007596)|cytoskeleton-dependent intracellular transport (GO:0030705)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|organelle transport along microtubule (GO:0072384)	cytosol (GO:0005829)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)|motor activity (GO:0003774)			breast(3)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(8)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	29	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CACCTTCTTGAGTTTCTTGGT	0.587																																																0													229	186	200					2																	26178417		2203	4300	6503	SO:0001583	missense	3797				CCDS1719.1	2p23	2008-02-05			ENSG00000084731	ENSG00000084731		"Kinesins"	6321	protein-coding gene	gene with protein product		602845				9480755	Standard	NM_002254		Approved		uc002rgu.2	O14782	OTTHUMG00000094797	ENST00000264712.3:c.1763T>G	2.37:g.26178417A>C	ENSP00000264712:p.Leu588Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O43544|Q4ZG18|Q53SX5|Q562F7	Missense_Mutation	SNP	ENST00000264712.3	37	CCDS1719.1	.	.	.	.	.	.	.	.	.	.	A	18.30	3.593287	0.66219	.	.	ENSG00000084731	ENST00000264712;ENST00000542511;ENST00000405914	T;T	0.78481	-1.18;-1.18	5.24	5.24	0.73138	.	0.000000	0.85682	D	0.000000	T	0.81669	0.4871	M	0.92026	3.265	0.80722	D	1	B;B	0.30686	0.095;0.29	B;B	0.28638	0.037;0.092	D	0.83422	0.0033	10	0.72032	D	0.01	.	13.0867	0.59144	1.0:0.0:0.0:0.0	.	588;588	B7ZM25;O14782	.;KIF3C_HUMAN	R	588;394;588	ENSP00000264712:L588R;ENSP00000385030:L588R	ENSP00000264712:L588R	L	-	2	0	KIF3C	26031921	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	9.119000	0.94362	1.998000	0.58463	0.459000	0.35465	CTC		0.587	KIF3C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000211611.1			C	26178417	A	C	26178417	3	2	617	1	0	0	0	0	1	0	0	0	8309	304	11	5	642	5	KIF3C	2	26178417	Missense_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	14217857	26178417	217020956	18	37676										
RBKS	64080	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	28004505	28004506	+	Frame_Shift_Ins	INS	-	-	T													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	aacagagtaagcggaaggtcINSttttttgtaagggtaagatg							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr2:28004505_28004506insT	ENST00000302188.3	-	8	1697_1698	c.945_946insA	c.(943-948)aaagacfs	p.D316fs	AC110084.1_ENST00000601759.1_Intron	NM_022128.1	NP_071411.1	Q9H477	RBSK_HUMAN	ribokinase	316					D-ribose catabolic process (GO:0019303)	extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|ribokinase activity (GO:0004747)			haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(2)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	7	Acute lymphoblastic leukemia(172;0.155)					AGCGGAAGGTCTTTTTTGTAAG	0.421																																																0																																										SO:0001589	frameshift_variant	64080			BC017425	CCDS1762.1	2p23.3	2008-02-05			ENSG00000171174	ENSG00000171174	2.7.1.15		30325	protein-coding gene	gene with protein product		611132				8382990	Standard	NM_022128		Approved	DKFZp686G13268, RBSK	uc002rlo.1	Q9H477	OTTHUMG00000097833	ENST00000302188.3:c.946dupA	2.37:g.28004511_28004511dupT	ENSP00000306817:p.Asp316fs	Somatic		WXS	Illumina HiSeq	Phase_I	A9UK04|B4DV96	Frame_Shift_Ins	INS	ENST00000302188.3	37	CCDS1762.1																																																																																				0.421	RBKS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215118.1	NM_022128		T	28004506	-	T	28004505	7	5	617	1	0	1	1	0	0	0	0	0	13121	913	32	0	26	0	RBKS	2	28004505	Frame_Shift_Ins	INS	-	TCGA-IZ-8196-01A-11D-2396-08	1826088	28004505	215194868	19	37677										
PLEKHH2	130271	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	43953471	43953471	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	aagaggttgacagatcttgtGattcagatgaagattatgaa	11	3	2	8			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr2:43953471G>T	ENST00000282406.4	+	17	2712	c.2602G>T	c.(2602-2604)Gat>Tat	p.D868Y		NM_172069.3	NP_742066.2	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H (with MyTH4 domain) member 2	868	PH 2. {ECO:0000255|PROSITE- ProRule:PRU00145}.				negative regulation of actin filament depolymerization (GO:0030835)	cortical actin cytoskeleton (GO:0030864)|cytoplasm (GO:0005737)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)	actin binding (GO:0003779)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|kidney(4)|large_intestine(12)|lung(24)|pancreas(1)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	56		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				CAGATCTTGTGATTCAGATGA	0.388																																																0													108	102	104					2																	43953471		2203	4300	6503	SO:0001583	missense	130271			AB095948	CCDS1812.1	2p22	2013-01-10			ENSG00000152527	ENSG00000152527		"Pleckstrin homology (PH) domain containing"	30506	protein-coding gene	gene with protein product		612723					Standard	NM_172069		Approved	KIAA2028, PLEKHH1L	uc010yny.2	Q8IVE3	OTTHUMG00000128657	ENST00000282406.4:c.2602G>T	2.37:g.43953471G>T	ENSP00000282406:p.Asp868Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JPJ6|Q6P4Q1|Q8N3Q3	Missense_Mutation	SNP	ENST00000282406.4	37	CCDS1812.1	.	.	.	.	.	.	.	.	.	.	G	25.7	4.667945	0.88348	.	.	ENSG00000152527	ENST00000282406	T	0.77750	-1.12	5.57	5.57	0.84162	Pleckstrin homology-type (1);Pleckstrin homology domain (2);	0.049073	0.85682	D	0.000000	D	0.88887	0.6559	M	0.77313	2.365	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.85130	0.997;0.991	D	0.89680	0.3890	10	0.87932	D	0	-23.2912	19.5645	0.95388	0.0:0.0:1.0:0.0	.	868;305	Q8IVE3;Q8IVE3-2	PKHH2_HUMAN;.	Y	868	ENSP00000282406:D868Y	ENSP00000282406:D868Y	D	+	1	0	PLEKHH2	43806975	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.386000	0.97228	2.599000	0.87857	0.650000	0.86243	GAT		0.388	PLEKHH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250537.1	NM_172069		T	43953471	G	T	43953471	3	4	617	1	0	0	0	0	1	0	0	0	12084	1290	45	4	2664	4	PLEKHH2	2	43953471	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	15948966	43953471	199245902	20	37678										
RAB1A	5861	hgsc.bcm.edu	37	chr2	65318133	65318133	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ttacctgatctgtcacatcaTacacaactatgatgccatgg	6	11	3	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr2:65318133T>C	ENST00000409784.3	-	4	462	c.272A>G	c.(271-273)tAt>tGt	p.Y91C	RAB1A_ENST00000409892.1_Intron|RAB1A_ENST00000494188.1_Intron|RAB1A_ENST00000260638.8_Intron|RAB1A_ENST00000398529.3_Intron|RAB1A_ENST00000409751.1_Missense_Mutation_p.Y59C|RAB1A_ENST00000356214.7_Intron	NM_004161.4	NP_004152.1	P62820	RAB1A_HUMAN	RAB1A, member RAS oncogene family	91					autophagic vacuole assembly (GO:0000045)|autophagy (GO:0006914)|cargo loading into COPII-coated vesicle (GO:0090110)|cell migration (GO:0016477)|defense response to bacterium (GO:0042742)|endocytosis (GO:0006897)|ER to Golgi vesicle-mediated transport (GO:0006888)|Golgi organization (GO:0007030)|growth hormone secretion (GO:0030252)|GTP catabolic process (GO:0006184)|interleukin-8 secretion (GO:0072606)|melanosome transport (GO:0032402)|mitotic cell cycle (GO:0000278)|positive regulation of glycoprotein metabolic process (GO:1903020)|small GTPase mediated signal transduction (GO:0007264)|substrate adhesion-dependent cell spreading (GO:0034446)|vesicle transport along microtubule (GO:0047496)|vesicle-mediated transport (GO:0016192)|virion assembly (GO:0019068)	endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|melanosome (GO:0042470)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			endometrium(1)|kidney(1)|lung(3)|prostate(1)	6						TGTCACATCATACACAACTAT	0.393																																																0													99	94	95					2																	65318133		1908	4132	6040	SO:0001583	missense	5861			M28209	CCDS46305.1, CCDS46306.1	2p14	2008-02-05		2002-03-17	ENSG00000138069	ENSG00000138069		"RAB, member RAS oncogene"	9758	protein-coding gene	gene with protein product	"Rab GTPase YPT1 homolog (yeast)"	179508		RAB1		2501306	Standard	NM_004161		Approved	YPT1	uc002sdm.3	P62820	OTTHUMG00000152725	ENST00000409784.3:c.272A>G	2.37:g.65318133T>C	ENSP00000387286:p.Tyr91Cys	Somatic		WXS	Illumina HiSeq	Phase_I	P11476|Q6FIE7|Q96N61|Q9Y3T2	Missense_Mutation	SNP	ENST00000409784.3	37	CCDS46306.1	.	.	.	.	.	.	.	.	.	.	T	24.1	4.498528	0.85069	.	.	ENSG00000138069	ENST00000409784;ENST00000409751	D;D	0.84070	-1.8;-1.8	5.38	5.38	0.77491	Small GTP-binding protein domain (1);	0.000000	0.85682	D	0.000000	D	0.92564	0.7638	M	0.89904	3.07	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.94061	0.7326	10	0.87932	D	0	.	15.6846	0.77400	0.0:0.0:0.0:1.0	.	91	P62820	RAB1A_HUMAN	C	91;59	ENSP00000387286:Y91C;ENSP00000386672:Y59C	ENSP00000386672:Y59C	Y	-	2	0	RAB1A	65171637	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.997000	0.88414	2.161000	0.67846	0.454000	0.30748	TAT		0.393	RAB1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327572.1	NM_004161		C	65318133	T	C	65318133	3	2	617	1	0	0	0	0	1	0	0	0	12918	1406	49	3	357	3	RAB1A	2	65318133	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	21364662	65318133	177881240	21	37679										
DNAH6	1768	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	84777109	84777109	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	aaccatctcactgacaagctAaaacgaacaccttcagcaga	5	13	2	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr2:84777109A>T	ENST00000237449.6	+	8	1421	c.1413A>T	c.(1411-1413)ctA>ctT	p.L471L	DNAH6_ENST00000398278.2_Silent_p.L471L|DNAH6_ENST00000389394.3_Silent_p.L471L			Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy chain 6	471	Stem. {ECO:0000250}.				cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(2)|breast(9)|central_nervous_system(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(3)|lung(14)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	57						CTGACAAGCTAAAACGAACAC	0.358																																																0													94	83	87					2																	84777109		2203	4300	6503	SO:0001819	synonymous_variant	1768			U61736	CCDS46348.1	2p11.2	2011-05-24	2006-09-04		ENSG00000115423	ENSG00000115423		"Axonemal dyneins"	2951	protein-coding gene	gene with protein product		603336	"dynein, axonemal, heavy polypeptide 6", "dynein heavy chain-like 1"	DNHL1		8812413	Standard	NM_001370		Approved	Dnahc6, HL-2, FLJ37357	uc010fgb.3	Q9C0G6	OTTHUMG00000128957	ENST00000237449.6:c.1413A>T	2.37:g.84777109A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJN9|B5MEE0|B7ZL99|O95493|Q53QZ1|Q53TE5|Q8N1W6|Q92861|Q96BL6|Q9H030|Q9H5E1	Silent	SNP	ENST00000237449.6	37	CCDS46348.1																																																																																				0.358	DNAH6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328537.2	NM_001370		T	84777109	A	T	84777109	2	4	617	1	0	0	0	0	0	0	0	1	4607	349	13	5		5	DNAH6	2	84777109	Silent	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	19458976	84777109	158422264	22	37680										
POTEF	728378	hgsc.bcm.edu	37	chr2	130872496	130872496	+	Frame_Shift_Del	DEL	T	T	-													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gcaccatataagagcagtgcTttggccattaatttatcttc							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr2:130872496delT	ENST00000409914.2	-	5	1167	c.768delA	c.(766-768)aaafs	p.K256fs	POTEF_ENST00000361163.4_Frame_Shift_Del_p.K266fs|POTEF_ENST00000360967.5_Frame_Shift_Del_p.K256fs|POTEF_ENST00000357462.5_Frame_Shift_Del_p.K256fs	NM_001099771.2	NP_001093241.1	A5A3E0	POTEF_HUMAN	POTE ankyrin domain family, member F	256					retina homeostasis (GO:0001895)	blood microparticle (GO:0072562)|cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)				breast(1)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(4)|lung(28)|ovary(3)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)	53						AGAGCAGTGCTTTGGCCATTA	0.338																																																0													3	3	3					2																	130872496		1247	2882	4129	SO:0001589	frameshift_variant	728378			EF523384	CCDS46409.1	2q21.1	2013-01-10	2008-11-26	2008-11-26	ENSG00000196604	ENSG00000196604		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33905	protein-coding gene	gene with protein product			"ANKRD26-like family C, member 1B"	A26C1B		17101985	Standard	NM_001099771		Approved	POTEACTIN, POTE2alpha	uc010fmh.2	A5A3E0	OTTHUMG00000153628	ENST00000409914.2:c.768delA	2.37:g.130872496delT	ENSP00000386786:p.Lys256fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NC34	Frame_Shift_Del	DEL	ENST00000409914.2	37	CCDS46409.1																																																																																				0.338	POTEF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331889.2	NM_001099771		-	130872496	T	-	130872496	7	5	617	1	0	1	0	1	0	0	0	0	12272	1606	56	0	2511	0	POTEF	2	130872496	Frame_Shift_Del	DEL	T	TCGA-IZ-8196-01A-11D-2396-08	46095387	130872496	112326877	23	37681										
POTEE	445582	hgsc.bcm.edu	37	chr2	131981572	131981572	+	Frame_Shift_Del	DEL	A	A	-													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	atgaagataaattaatggccAaagcactgctcttatatggt							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr2:131981572delA	ENST00000356920.5	+	3	860	c.766delA	c.(766-768)aaafs	p.K256fs	POTEE_ENST00000358087.5_Frame_Shift_Del_p.K266fs|PLEKHB2_ENST00000404460.1_Intron|PLEKHB2_ENST00000303908.3_Intron	NM_001083538.1	NP_001077007.1	Q6S8J3	POTEE_HUMAN	POTE ankyrin domain family, member E	256					retina homeostasis (GO:0001895)|substantia nigra development (GO:0021762)	blood microparticle (GO:0072562)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)											ATTAATGGCCAAAGCACTGCT	0.338																																																0													1	1	1					2																	131981572		992	2313	3305	SO:0001589	frameshift_variant	445582			AY462868	CCDS46414.1	2q21.1	2014-04-10	2008-11-26	2008-11-26	ENSG00000188219	ENSG00000188219		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33895	protein-coding gene	gene with protein product	"cancer/testis antigen family 104, member 2"	608914	"ANKRD26-like family C, member 1A"	A26C1A			Standard	NM_001083538		Approved	POTE2, POTE-2, A26C1, POTE2gamma, CT104.2	uc002tsn.2	Q6S8J3	OTTHUMG00000186974	ENST00000356920.5:c.766delA	2.37:g.131981572delA	ENSP00000439189:p.Lys256fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6S8J4|Q6S8J5|Q6S8J8	Frame_Shift_Del	DEL	ENST00000356920.5	37	CCDS46414.1																																																																																				0.338	POTEE-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001083538		-	131981572	A	-	131981572	7	5	617	1	0	1	0	1	0	0	0	0	12271	131	5	0	776	0	POTEE	2	131981572	Frame_Shift_Del	DEL	A	TCGA-IZ-8196-01A-11D-2396-08	1109076	131981572	111217801	24	37682										
MCM6	4175	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	136620201	136620202	+	Missense_Mutation	DNP	CT	CT	AG													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gaaattggctcttagctgtaCttgggtcaccaacaatgcaa							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr2:136620201_136620202CT>AG	ENST00000264156.2	-	8	1255_1256	c.1195_1196AG>CT	c.(1195-1197)AGt>CTt	p.S399L	MCM6_ENST00000492091.1_5'UTR	NM_005915.5	NP_005906.2	Q14566	MCM6_HUMAN	minichromosome maintenance complex component 6	399	MCM.				DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA strand elongation involved in DNA replication (GO:0006271)|DNA unwinding involved in DNA replication (GO:0006268)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)	MCM complex (GO:0042555)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA helicase activity (GO:0003678)|identical protein binding (GO:0042802)|single-stranded DNA binding (GO:0003697)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(5)|liver(1)|lung(15)|prostate(2)|skin(1)	29				BRCA - Breast invasive adenocarcinoma(221;0.166)		CTTAGCTGTACTTGGGTCACCA	0.485																																					Ovarian(196;141 2104 8848 24991 25939)											0																																										SO:0001583	missense	4175				CCDS2179.1	2q14-q21	2008-02-05	2007-04-04		ENSG00000076003	ENSG00000076003			6949	protein-coding gene	gene with protein product	"MIS5 homolog (S.pombe)"	601806	"minichromosome maintenance deficient (mis5, S. pombe) 6", "MCM6 minichromosome maintenance deficient 6 (MIS5 homolog, S. pombe) (S. cerevisiae)", "minichromosome maintenance deficient 6 homolog (S. cerevisiae)"				Standard	NM_005915		Approved	Mis5	uc002tuw.4	Q14566	OTTHUMG00000131739	ENST00000264156.2:c.1195_1196delinsAG	2.37:g.136620201_136620202delinsAG	ENSP00000264156:p.Ser399Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6H2|Q13504|Q99859	Missense_Mutation	DNP	ENST00000264156.2	37	CCDS2179.1																																																																																				0.485	MCM6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254658.1	NM_005915		AG	136620202	CT	AG	136620201	3	1	617	1	0	0	0	0	1	0	0	0	9398	565	20	4	1309	4	MCM6	2	136620201	Missense_Mutation	DNP	CT	TCGA-IZ-8196-01A-11D-2396-08	4638629	136620201	106579172	25	37683										
HOXD8	3234	broad.mit.edu;bcgsc.ca	37	chr2	176995325	176995341	+	Frame_Shift_Del	DEL	GCCCTCCGGGACTGGGT	GCCCTCCGGGACTGGGT	-													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	cacccgcacccgtccccgccGccctccgggactgggtgcgg							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	GCCCTCCGGGACTGGGT	GCCCTCCGGGACTGGGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr2:176995325_176995341delGCCCTCCGGGACTGGGT	ENST00000313173.4	+	1	858_874	c.231_247delGCCCTCCGGGACTGGGT	c.(229-249)ccgccctccgggactgggtgcfs	p.PSGTGC78fs	HOXD-AS2_ENST00000440016.2_RNA|HOXD8_ENST00000429017.1_Intron|HOXD8_ENST00000544999.1_Frame_Shift_Del_p.PSGTGC78fs|HOXD8_ENST00000548663.1_Intron|HOXD8_ENST00000450510.2_Frame_Shift_Del_p.PSGTGC78fs	NM_001199746.1|NM_019558.3	NP_001186675.1|NP_062458.1	P13378	HXD8_HUMAN	homeobox D8	78					anterior/posterior axis specification, embryo (GO:0008595)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|skeletal system morphogenesis (GO:0048705)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|large_intestine(2)|lung(5)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.195)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)		CGTCCCCGCCGCCCTCCGGGACTGGGTGCGGCGGTAG	0.788																																																0																																										SO:0001589	frameshift_variant	3234				CCDS2268.1, CCDS56148.1, CCDS56149.1	2q31.1	2011-06-20	2005-12-22		ENSG00000175879	ENSG00000175879		"Homeoboxes / ANTP class : HOXL subclass"	5139	protein-coding gene	gene with protein product		142985	"homeo box D8"	HOX4, HOX4E		1973146, 1358459	Standard	NM_001199747		Approved		uc002uko.3	P13378	OTTHUMG00000132513	ENST00000313173.4:c.231_247delGCCCTCCGGGACTGGGT	2.37:g.176995325_176995341delGCCCTCCGGGACTGGGT	ENSP00000315949:p.Pro78fs	Somatic		WXS	Illumina HiSeq	Phase_I	F8WBG7|Q5BL00|Q8IXZ1	Frame_Shift_Del	DEL	ENST00000313173.4	37	CCDS2268.1																																																																																				0.788	HOXD8-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000255694.1			-	176995341	GCCCTCCGGGACTGGGT	-	176995325	7	5	617	1	0	1	0	1	0	0	0	0	7332	1074	38	0	233	0	HOXD8	2	176995325	Frame_Shift_Del	DEL	GCCCTCCGGGACTGGGT	TCGA-IZ-8196-01A-11D-2396-08	40375124	176995325	66204048	26	37684										
ATG9A	79065	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	220090289	220090289	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tgaaggcaaccacaaagaggAactgcctggggagttgggaa	15	7	0	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr2:220090289A>C	ENST00000409618.1	-	6	657	c.218T>G	c.(217-219)tTc>tGc	p.F73C	ATG9A_ENST00000488833.1_5'Flank|AC068946.1_ENST00000408417.1_RNA|ATG9A_ENST00000396761.2_Missense_Mutation_p.F73C|ATG9A_ENST00000409422.1_Missense_Mutation_p.F12C|ATG9A_ENST00000361242.4_Missense_Mutation_p.F73C			Q7Z3C6	ATG9A_HUMAN	autophagy related 9A	73					autophagic vacuole assembly (GO:0000045)|late nucleophagy (GO:0044805)|mitochondrion degradation (GO:0000422)|piecemeal microautophagy of nucleus (GO:0034727)|protein localization to pre-autophagosomal structure (GO:0034497)|protein transport (GO:0015031)	autophagic vacuole (GO:0005776)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|integral component of membrane (GO:0016021)|late endosome (GO:0005770)|membrane (GO:0016020)|pre-autophagosomal structure (GO:0000407)|recycling endosome (GO:0055037)|trans-Golgi network (GO:0005802)				endometrium(2)|large_intestine(5)|lung(3)|prostate(1)|skin(1)|stomach(1)	13		Renal(207;0.0474)		Epithelial(149;1.37e-06)|all cancers(144;0.000222)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CACAAAGAGGAACTGCCTGGG	0.532																																																0													71	74	73					2																	220090289		2019	4190	6209	SO:0001583	missense	79065			AK021732	CCDS42820.1	2q35	2014-02-12	2012-06-06	2005-09-11	ENSG00000198925	ENSG00000198925			22408	protein-coding gene	gene with protein product		612204	"APG9 autophagy 9-like 1 (S. cerevisiae)", "ATG9 autophagy related 9 homolog A (S. cerevisiae)"	APG9L1			Standard	NM_024085		Approved	FLJ22169	uc002vkf.1	Q7Z3C6	OTTHUMG00000154557	ENST00000409618.1:c.218T>G	2.37:g.220090289A>C	ENSP00000386710:p.Phe73Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q3ZAQ6|Q6P0N7|Q7Z317|Q7Z320|Q8NDK6|Q8WU65|Q9BVL5|Q9H6L1|Q9HAG7	Missense_Mutation	SNP	ENST00000409618.1	37	CCDS42820.1	.	.	.	.	.	.	.	.	.	.	A	17.32	3.360020	0.61403	.	.	ENSG00000198925	ENST00000396761;ENST00000409618;ENST00000361242;ENST00000409422;ENST00000436856;ENST00000457841;ENST00000428226;ENST00000432520;ENST00000439812;ENST00000443140;ENST00000434939	T;T;T;T;T;T;T;T;T;T;T	0.72942	-0.7;-0.7;-0.7;-0.7;-0.7;-0.7;-0.7;-0.7;-0.7;-0.7;-0.7	5.05	5.05	0.67936	.	0.057192	0.64402	D	0.000001	T	0.73513	0.3596	M	0.78916	2.43	0.58432	D	0.999995	D	0.58620	0.983	B	0.43783	0.431	T	0.79808	-0.1647	10	0.72032	D	0.01	.	15.2471	0.73513	1.0:0.0:0.0:0.0	.	73	Q7Z3C6	ATG9A_HUMAN	C	73;73;73;12;73;73;73;73;73;73;73	ENSP00000379983:F73C;ENSP00000386710:F73C;ENSP00000355173:F73C;ENSP00000386535:F12C;ENSP00000401530:F73C;ENSP00000404750:F73C;ENSP00000409164:F73C;ENSP00000406785:F73C;ENSP00000413569:F73C;ENSP00000416435:F73C;ENSP00000394345:F73C	ENSP00000355173:F73C	F	-	2	0	ATG9A	219798533	1.000000	0.71417	1.000000	0.80357	0.959000	0.62525	9.040000	0.93783	2.251000	0.74343	0.482000	0.46254	TTC		0.532	ATG9A-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335930.1	NM_024085		C	220090289	A	C	220090289	3	2	617	1	0	0	0	0	1	0	0	0	1102	246	9	5	2345	5	ATG9A	2	220090289	Missense_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	43094964	220090289	23109084	27	37685										
SPHKAP	80309	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	228860230	228860230	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gggaagagcaggtacctcatGgatcgctcactgagctggag	15	9	2	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr2:228860230G>C	ENST00000392056.3	-	8	4675	c.4629C>G	c.(4627-4629)tcC>tcG	p.S1543S	SPHKAP_ENST00000344657.5_Silent_p.S1543S	NM_001142644.1	NP_001136116.1	Q2M3C7	SPKAP_HUMAN	SPHK1 interactor, AKAP domain containing	1543						extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)|Z disc (GO:0030018)	protein kinase A binding (GO:0051018)			NS(5)|breast(5)|central_nervous_system(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(3)|kidney(12)|large_intestine(25)|lung(86)|ovary(6)|pancreas(1)|prostate(6)|skin(17)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	185		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)		GGTACCTCATGGATCGCTCAC	0.483																																																0													226	197	207					2																	228860230		2203	4300	6503	SO:0001819	synonymous_variant	80309				CCDS33389.1, CCDS46537.1	2q36.3	2010-08-20			ENSG00000153820	ENSG00000153820		"A-kinase anchor proteins"	30619	protein-coding gene	gene with protein product	"sphingosine kinase type 1-interacting protein"	611646				12080051, 11214970	Standard	NM_030623		Approved	SKIP	uc002vpq.2	Q2M3C7	OTTHUMG00000153584	ENST00000392056.3:c.4629C>G	2.37:g.228860230G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q68DA3|Q68DR8|Q9C0I5	Silent	SNP	ENST00000392056.3	37	CCDS46537.1																																																																																				0.483	SPHKAP-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000331750.1	NM_030623		C	228860230	G	C	228860230	2	2	617	1	0	0	0	0	0	0	0	1	15060	1335	47	4		4	SPHKAP	2	228860230	Silent	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	8769941	228860230	14339143	28	37686										
CAMK1	8536	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	9802445	9802445	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gtcatagaagggagggtaacCgcagagcctgggcagggaga	18	7	1	3			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr3:9802445C>T	ENST00000256460.3	-	8	817	c.640G>A	c.(640-642)Ggt>Agt	p.G214S	OGG1_ENST00000449570.2_Intron|OGG1_ENST00000302008.8_Intron|OGG1_ENST00000383826.5_Intron|OGG1_ENST00000302036.7_Intron|OGG1_ENST00000349503.5_Intron	NM_003656.4	NP_003647.1	Q14012	KCC1A_HUMAN	calcium/calmodulin-dependent protein kinase I	214	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cell cycle (GO:0007049)|nucleocytoplasmic transport (GO:0006913)|positive regulation of dendritic spine development (GO:0060999)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of neuron projection development (GO:0010976)|positive regulation of protein export from nucleus (GO:0046827)|positive regulation of protein serine/threonine kinase activity (GO:0071902)|positive regulation of synapse structural plasticity (GO:0051835)|protein phosphorylation (GO:0006468)|regulation of muscle cell differentiation (GO:0051147)|regulation of protein binding (GO:0043393)|regulation of protein localization (GO:0032880)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|calmodulin-dependent protein kinase activity (GO:0004683)	p.G214S(1)		endometrium(1)|large_intestine(3)|lung(6)|ovary(1)|skin(1)	12	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.0475)		GGAGGGTAACCGCAGAGCCTG	0.552																																																1	Substitution - Missense(1)	endometrium(1)											82	77	78					3																	9802445		2203	4300	6503	SO:0001583	missense	8536			L41816	CCDS2582.1	3p25.3	2004-02-27			ENSG00000134072	ENSG00000134072			1459	protein-coding gene	gene with protein product		604998				7641687	Standard	NM_003656		Approved	CaMKI	uc003bst.3	Q14012	OTTHUMG00000128419	ENST00000256460.3:c.640G>A	3.37:g.9802445C>T	ENSP00000256460:p.Gly214Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q3KPF6	Missense_Mutation	SNP	ENST00000256460.3	37	CCDS2582.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	33|33	5.258485|5.258485	0.95368|0.95368	.|.	.|.	ENSG00000134072|ENSG00000134072	ENST00000256460|ENST00000421120	T|.	0.58210|.	0.35|.	5.13|5.13	5.13|5.13	0.70059|0.70059	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	D|D	0.82962|0.82962	0.5151|0.5151	M|M	0.87269|0.87269	2.87|2.87	0.80722|0.80722	D|D	1|1	D|.	0.76494|.	0.999|.	D|.	0.80764|.	0.994|.	D|D	0.85554|0.85554	0.1223|0.1223	10|5	0.87932|.	D|.	0|.	-14.0937|-14.0937	17.3689|17.3689	0.87371|0.87371	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	214|.	Q14012|.	KCC1A_HUMAN|.	S|Q	214|60	ENSP00000256460:G214S|.	ENSP00000256460:G214S|.	G|R	-|-	1|2	0|0	CAMK1|CAMK1	9777445|9777445	1.000000|1.000000	0.71417|0.71417	0.999000|0.999000	0.59377|0.59377	0.793000|0.793000	0.44817|0.44817	7.648000|7.648000	0.83479|0.83479	2.384000|2.384000	0.81235|0.81235	0.655000|0.655000	0.94253|0.94253	GGT|CGG		0.552	CAMK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250206.1	NM_003656		T	9802445	C	T	9802445	3	4	617	1	0	0	0	0	1	0	0	0	2598	652	23	1	492	1	CAMK1	3	9802445	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08		9802445	188219985	29	37687										
C3orf71	646450	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	48956091	48956091	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	aacatctcgacgggagacgcTggtaggcgaatagtggctcc	14	10	1	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr3:48956091T>A	ENST00000408959.2	-	1	727	c.492A>T	c.(490-492)ccA>ccT	p.P164P	ARIH2_ENST00000356401.4_5'Flank|ARIH2_ENST00000449376.1_5'Flank	NM_001123040.1	NP_001116512.1	Q8N7S6	ARI2O_HUMAN	ariadne homolog 2 opposite strand	164						integral component of membrane (GO:0016021)											CGGGAGACGCTGGTAGGCGAA	0.587																																																0													47	49	49					3																	48956091		1568	3582	5150	SO:0001819	synonymous_variant	646450			DA461567	CCDS43088.1	3p21.31	2012-10-08	2012-10-08	2012-10-08	ENSG00000221883	ENSG00000221883			34425	protein-coding gene	gene with protein product			"chromosome 3 open reading frame 71"	C3orf71			Standard	NM_001123040		Approved		uc010hkk.1	Q8N7S6	OTTHUMG00000156672	ENST00000408959.2:c.492A>T	3.37:g.48956091T>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000408959.2	37	CCDS43088.1																																																																																				0.587	ARIH2OS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345247.1	NM_001123040		A	48956091	T	A	48956091	2	1	617	1	0	0	0	0	0	0	0	1	2245	1567	55	5		5	C3orf71	3	48956091	Silent	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	39153646	48956091	149066339	30	37688										
ARHGEF3	50650	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	56789065	56789065	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	attgacgcacacatcgaaggTctcactccacagcttgctat	7	13	1	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr3:56789065T>A	ENST00000296315.3	-	3	487	c.319A>T	c.(319-321)Acc>Tcc	p.T107S	ARHGEF3_ENST00000497267.1_Missense_Mutation_p.T78S|ARHGEF3_ENST00000413728.2_Missense_Mutation_p.T113S|ARHGEF3_ENST00000338458.4_Missense_Mutation_p.T139S|ARHGEF3_ENST00000495373.1_Missense_Mutation_p.T107S|ARHGEF3_ENST00000496106.1_Missense_Mutation_p.T113S|ARHGEF3_ENST00000498517.1_5'UTR	NM_019555.2	NP_062455.1	Q9NR81	ARHG3_HUMAN	Rho guanine nucleotide exchange factor (GEF) 3	107					apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of Rho GTPase activity (GO:0032321)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|intracellular (GO:0005622)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			cervix(1)|endometrium(3)|kidney(3)|large_intestine(4)|lung(11)|ovary(1)|prostate(1)|urinary_tract(1)	25				KIRC - Kidney renal clear cell carcinoma(284;0.0161)|Kidney(284;0.019)|OV - Ovarian serous cystadenocarcinoma(275;0.193)		ACATCGAAGGTCTCACTCCAC	0.587																																																0													165	147	153					3																	56789065		2203	4300	6503	SO:0001583	missense	50650			AB209661	CCDS2878.1, CCDS46854.1, CCDS46855.1, CCDS74948.1	3p14.3	2012-09-20			ENSG00000163947	ENSG00000163947		"Rho guanine nucleotide exchange factors"	683	protein-coding gene	gene with protein product	"exchange factor found in platelets and leukemic and neuronal tissues, XPLN", "RhoGEF protein"	612115				10873612	Standard	NM_019555		Approved	STA3, XPLN, GEF3, DKFZP434F2429	uc003dih.2	Q9NR81	OTTHUMG00000158857	ENST00000296315.3:c.319A>T	3.37:g.56789065T>A	ENSP00000296315:p.Thr107Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5U7|Q4FZB6|Q4QQI5|Q4QQQ0|Q59F00|Q6NUN3|Q7Z4U2|Q7Z5T2|Q9H7T4	Missense_Mutation	SNP	ENST00000296315.3	37	CCDS2878.1	.	.	.	.	.	.	.	.	.	.	T	35	5.460720	0.96240	.	.	ENSG00000163947	ENST00000296315;ENST00000338458;ENST00000413728;ENST00000496106;ENST00000497267;ENST00000495373;ENST00000468727;ENST00000473779	T;T;T;T;T;T;T;T	0.67345	1.6;1.6;1.6;1.6;1.6;1.6;-0.26;-0.26	5.32	5.32	0.75619	Dbl homology (DH) domain (1);	0.000000	0.85682	D	0.000000	T	0.79476	0.4452	M	0.74881	2.28	0.54753	D	0.999988	D;P;P;D;D;D	0.58268	0.969;0.938;0.882;0.982;0.982;0.982	P;P;P;P;P;P	0.60682	0.798;0.628;0.55;0.878;0.855;0.878	T	0.81760	-0.0785	10	0.59425	D	0.04	-11.4376	15.6104	0.76713	0.0:0.0:0.0:1.0	.	113;78;107;139;107;113	E9PG37;E7EU49;C9J586;Q9NR81-2;Q9NR81;Q9NR81-3	.;.;.;.;ARHG3_HUMAN;.	S	107;139;113;113;78;107;108;125	ENSP00000296315:T107S;ENSP00000341071:T139S;ENSP00000410922:T113S;ENSP00000420420:T113S;ENSP00000418826:T78S;ENSP00000417986:T107S;ENSP00000417087:T108S;ENSP00000420402:T125S	ENSP00000296315:T107S	T	-	1	0	ARHGEF3	56764105	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	7.991000	0.88244	2.156000	0.67533	0.533000	0.62120	ACC		0.587	ARHGEF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352431.2	NM_019555		A	56789065	T	A	56789065	3	1	617	1	0	0	0	0	1	0	0	0	904	1667	58	5	1293	5	ARHGEF3	3	56789065	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	7832974	56789065	141233365	31	37689										
RNF13	11342	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	149678575	149678575	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gctaactaaaaccaaaaaaaCctgtccagtgtgcaagcaaa	6	10	0	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr3:149678575C>G	ENST00000344229.3	+	11	1532	c.830C>G	c.(829-831)aCc>aGc	p.T277S	RNF13_ENST00000361785.6_Missense_Mutation_p.T158S|RNF13_ENST00000392894.3_Missense_Mutation_p.T277S	NM_007282.4	NP_009213.1	O43567	RNF13_HUMAN	ring finger protein 13	277					protein autoubiquitination (GO:0051865)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|late endosome membrane (GO:0031902)|lysosomal membrane (GO:0005765)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(2)|endometrium(1)|kidney(1)|large_intestine(1)|lung(3)|ovary(1)|skin(2)	11		all_neural(597;0.0138)|Myeloproliferative disorder(1037;0.0255)	LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			ACCAAAAAAACCTGTCCAGTG	0.398																																																0													67	66	66					3																	149678575		2203	4300	6503	SO:0001583	missense	11342			AF037204	CCDS3146.1	3q25.1	2013-01-09			ENSG00000082996	ENSG00000082996		"RING-type (C3HC4) zinc fingers"	10057	protein-coding gene	gene with protein product		609247					Standard	NM_183381		Approved	RZF	uc003exp.4	O43567	OTTHUMG00000150338	ENST00000344229.3:c.830C>G	3.37:g.149678575C>G	ENSP00000341361:p.Thr277Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NC87|B3KR12|Q05D66|Q6IBJ9	Missense_Mutation	SNP	ENST00000344229.3	37	CCDS3146.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	17.38|17.38	3.374025|3.374025	0.61735|0.61735	.|.	.|.	ENSG00000082996|ENSG00000082996	ENST00000468289|ENST00000392894;ENST00000344229;ENST00000491086;ENST00000543506;ENST00000361785;ENST00000482083	.|T;T;T;T;T	.|0.41065	.|1.01;1.01;1.01;1.01;1.01	6.06|6.06	6.06|6.06	0.98353|0.98353	.|Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, RING-type (2);Zinc finger, C3HC4 RING-type (1);	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.46852|0.46852	0.1414|0.1414	L|L	0.32530|0.32530	0.975|0.975	0.80722|0.80722	D|D	1|1	.|B;P	.|0.38565	.|0.213;0.637	.|B;P	.|0.46452	.|0.193;0.517	T|T	0.19745|0.19745	-1.0296|-1.0296	5|10	.|0.41790	.|T	.|0.15	-20.7775|-20.7775	20.6397|20.6397	0.99537|0.99537	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|158;277	.|B3KR12;O43567	.|.;RNF13_HUMAN	K|S	78|277;277;158;277;158;158	.|ENSP00000376628:T277S;ENSP00000341361:T277S;ENSP00000420667:T158S;ENSP00000355268:T158S;ENSP00000418863:T158S	.|ENSP00000341361:T277S	N|T	+|+	3|2	2|0	RNF13|RNF13	151161265|151161265	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.996000|0.996000	0.88848|0.88848	7.487000|7.487000	0.81328|0.81328	2.880000|2.880000	0.98712|0.98712	0.650000|0.650000	0.86243|0.86243	AAC|ACC		0.398	RNF13-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356876.1	NM_183384		G	149678575	C	G	149678575	3	3	617	1	0	0	0	0	1	0	0	0	13450	507	18	4	864	4	RNF13	3	149678575	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	92889510	149678575	48343855	32	37690										
PSMD2	5708	hgsc.bcm.edu	37	chr3	184019770	184019770	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	aatgcagagcatgaggcttgCgacctgcttatggaaattga	12	7	0	3			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr3:184019770C>T	ENST00000310118.4	+	5	1173	c.615C>T	c.(613-615)tgC>tgT	p.C205C	PSMD2_ENST00000435761.1_Silent_p.C46C|PSMD2_ENST00000439383.1_Silent_p.C75C|EIF2B5_ENST00000444495.1_Intron	NM_002808.3	NP_002799.3	Q13200	PSMD2_HUMAN	proteasome (prosome, macropain) 26S subunit, non-ATPase, 2	205					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|cellular nitrogen compound metabolic process (GO:0034641)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|negative regulation of apoptotic process (GO:0043066)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of protein catabolic process (GO:0042176)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|viral process (GO:0016032)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|proteasome accessory complex (GO:0022624)|proteasome complex (GO:0000502)|proteasome regulatory particle (GO:0005838)	enzyme regulator activity (GO:0030234)			breast(1)|central_nervous_system(1)|cervix(1)|kidney(1)|large_intestine(5)|liver(1)|lung(12)|prostate(3)|upper_aerodigestive_tract(2)	27	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	ATGAGGCTTGCGACCTGCTTA	0.507																																					Colon(24;313 636 6917 9932 15554)											0													115	106	109					3																	184019770		2203	4300	6503	SO:0001819	synonymous_variant	5708			AK095245	CCDS3258.1, CCDS63853.1, CCDS63854.1	3q27.3	2008-05-22			ENSG00000175166	ENSG00000175166		"Proteasome (prosome, macropain) subunits"	9559	protein-coding gene	gene with protein product		606223				8774743	Standard	NM_002808		Approved	S2, P97, TRAP2, MGC14274, Rpn1	uc003fnn.1	Q13200	OTTHUMG00000156796	ENST00000310118.4:c.615C>T	3.37:g.184019770C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DX07|B4DXY1|E7EW34|E9PCS3|Q12932|Q15321|Q53XQ4|Q96I12	Silent	SNP	ENST00000310118.4	37	CCDS3258.1																																																																																				0.507	PSMD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345843.1	NM_002808		T	184019770	C	T	184019770	2	4	617	1	0	0	0	0	0	0	0	1	12708	776	27	1		1	PSMD2	3	184019770	Silent	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	34341195	184019770	14002660	33	37691										
GABRA2	2555	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	46312218	46312218	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	aatttcagaggacatgaatgAgcatccattgggaaatcctc	9	8	1	3			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr4:46312218A>T	ENST00000510861.1	-	6	704	c.531T>A	c.(529-531)gcT>gcA	p.A177A	GABRA2_ENST00000381620.4_Silent_p.A177A|GABRA2_ENST00000515082.1_Silent_p.A177A|GABRA2_ENST00000507069.1_Silent_p.A177A|GABRA2_ENST00000356504.1_Silent_p.A177A|GABRA2_ENST00000514090.1_Silent_p.A177A|GABRA2_ENST00000540012.1_Silent_p.A122A			P47869	GBRA2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha 2	177					gamma-aminobutyric acid signaling pathway (GO:0007214)|ion transmembrane transport (GO:0034220)|neurotransmitter transport (GO:0006836)|regulation of neurotransmitter levels (GO:0001505)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	axon (GO:0030424)|cell junction (GO:0030054)|chloride channel complex (GO:0034707)|integral component of synaptic vesicle membrane (GO:0030285)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	benzodiazepine receptor activity (GO:0008503)|chloride channel activity (GO:0005254)|extracellular ligand-gated ion channel activity (GO:0005230)|GABA-A receptor activity (GO:0004890)			NS(1)|breast(1)|cervix(1)|endometrium(2)|large_intestine(9)|lung(33)|ovary(2)|prostate(2)|skin(4)|upper_aerodigestive_tract(1)	56					Acamprosate(DB00659)|Adinazolam(DB00546)|Alprazolam(DB00404)|Amobarbital(DB01351)|Amoxapine(DB00543)|Aprobarbital(DB01352)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Cinolazepam(DB01594)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Clotiazepam(DB01559)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Fludiazepam(DB01567)|Flumazenil(DB01205)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Heptabarbital(DB01354)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Quinidine barbiturate(DB01346)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Thiopental(DB00599)|Topiramate(DB00273)|Triazolam(DB00897)|Zolpidem(DB00425)|Zopiclone(DB01198)	GACATGAATGAGCATCCATTG	0.388																																																0													135	130	132					4																	46312218		2203	4300	6503	SO:0001819	synonymous_variant	2555				CCDS3471.1	4p12	2012-06-22			ENSG00000151834	ENSG00000151834		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4076	protein-coding gene	gene with protein product	"GABA(A) receptor, alpha 2"	137140					Standard	NM_000807		Approved		uc010igc.2	P47869	OTTHUMG00000044266	ENST00000510861.1:c.531T>A	4.37:g.46312218A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0U7|B7Z1H8|Q59G14	Silent	SNP	ENST00000510861.1	37	CCDS3471.1																																																																																				0.388	GABRA2-005	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360848.2			T	46312218	A	T	46312218	2	4	617	1	0	0	0	0	0	0	0	1	6168	291	11	5		5	GABRA2	4	46312218	Silent	SNP	A	TCGA-IZ-8196-01A-11D-2396-08		46312218	144842058	34	37692										
CLOCK	9575	hgsc.bcm.edu	37	chr4	56322462	56322462	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ttgggttcttcaacagtgcaCatttcctacaaataaataat	5	8	2	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr4:56322462C>G	ENST00000309964.4	-	11	1048	c.798G>C	c.(796-798)atG>atC	p.M266I	CLOCK_ENST00000381322.1_Missense_Mutation_p.M266I|CLOCK_ENST00000513440.1_Missense_Mutation_p.M266I	NM_004898.3	NP_004889.1	O15516	CLOCK_HUMAN	clock circadian regulator	266	PAS 2. {ECO:0000255|PROSITE- ProRule:PRU00140}.				cellular response to ionizing radiation (GO:0071479)|chromatin organization (GO:0006325)|circadian regulation of gene expression (GO:0032922)|circadian rhythm (GO:0007623)|DNA damage checkpoint (GO:0000077)|histone acetylation (GO:0016573)|negative regulation of glucocorticoid receptor signaling pathway (GO:2000323)|negative regulation of transcription, DNA-templated (GO:0045892)|photoperiodism (GO:0009648)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|regulation of hair cycle (GO:0042634)|regulation of insulin secretion (GO:0050796)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|regulation of type B pancreatic cell development (GO:2000074)|response to redox state (GO:0051775)|signal transduction (GO:0007165)|spermatogenesis (GO:0007283)	chromatoid body (GO:0033391)|chromosome (GO:0005694)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin DNA binding (GO:0031490)|core promoter binding (GO:0001047)|DNA binding (GO:0003677)|E-box binding (GO:0070888)|histone acetyltransferase activity (GO:0004402)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity (GO:0000982)|RNA polymerase II transcription factor binding transcription factor activity involved in positive regulation of transcription (GO:0001190)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(4)|kidney(5)|large_intestine(9)|lung(8)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	38	Lung NSC(11;0.00335)|Glioma(25;0.08)|all_epithelial(27;0.0992)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(4;1.62e-07)|Lung(4;1.34e-06)|Epithelial(7;0.0107)			CAACAGTGCACATTTCCTACa	0.294																																																0													28	29	29					4																	56322462		2196	4288	6484	SO:0001583	missense	9575			AF011568	CCDS3500.1	4q12	2012-12-07	2012-12-07		ENSG00000134852	ENSG00000134852		"Chromatin-modifying enzymes / K-acetyltransferases", "Basic helix-loop-helix proteins"	2082	protein-coding gene	gene with protein product		601851	"clock (mouse) homolog", "clock homolog (mouse)"			10198158	Standard	NM_001267843		Approved	KIAA0334, KAT13D, bHLHe8	uc003hba.2	O15516	OTTHUMG00000102141	ENST00000309964.4:c.798G>C	4.37:g.56322462C>G	ENSP00000308741:p.Met266Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV01|A2I2N9|O14516|Q9UIT8	Missense_Mutation	SNP	ENST00000309964.4	37	CCDS3500.1	.	.	.	.	.	.	.	.	.	.	C	26.3	4.724925	0.89298	.	.	ENSG00000134852	ENST00000309964;ENST00000381322;ENST00000513440	T;T;T	0.04015	3.73;3.73;3.73	5.5	5.5	0.81552	PAS (1);	0.069843	0.85682	D	0.000000	T	0.10937	0.0267	M	0.68952	2.095	0.80722	D	1	B	0.21520	0.057	B	0.27715	0.082	T	0.03566	-1.1024	10	0.72032	D	0.01	.	19.3891	0.94573	0.0:1.0:0.0:0.0	.	266	O15516	CLOCK_HUMAN	I	266	ENSP00000308741:M266I;ENSP00000370723:M266I;ENSP00000426983:M266I	ENSP00000308741:M266I	M	-	3	0	CLOCK	56017219	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	7.818000	0.86416	2.579000	0.87056	0.591000	0.81541	ATG		0.294	CLOCK-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361993.2	NM_004898		G	56322462	C	G	56322462	3	3	617	1	0	0	0	0	1	0	0	0	3551	478	17	4	1790	4	CLOCK	4	56322462	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	10010244	56322462	134831814	35	37693										
HERC5	51191	hgsc.bcm.edu	37	chr4	89408218	89408218	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ttattgtcatttccatttttAggacgcttcagaaaatgtac	6	7	2	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr4:89408218A>G	ENST00000264350.3	+	15	2004		c.e15-1		HERC5_ENST00000508159.1_Splice_Site	NM_016323.3	NP_057407.2	Q9UII4	HERC5_HUMAN	HECT and RLD domain containing E3 ubiquitin protein ligase 5						cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|innate immune response (GO:0045087)|ISG15-protein conjugation (GO:0032020)|negative regulation of type I interferon production (GO:0032480)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of defense response to virus (GO:0050688)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	ISG15 ligase activity (GO:0042296)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)			NS(2)|breast(3)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(11)|liver(2)|lung(17)|ovary(4)|prostate(1)|skin(4)	53		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		TTCCATTTTTAGGACGCTTCA	0.343																																					Esophageal Squamous(39;887 1012 34045 50514)											0													74	73	73					4																	89408218		2203	4298	6501	SO:0001630	splice_region_variant	51191			AB027289	CCDS3630.1	4q22.1-q23	2012-02-23	2012-02-23		ENSG00000138646	ENSG00000138646			24368	protein-coding gene	gene with protein product		608242	"hect domain and RLD 5"			10581175	Standard	NM_016323		Approved	CEB1	uc003hrt.4	Q9UII4	OTTHUMG00000130953	ENST00000264350.3:c.1852-1A>G	4.37:g.89408218A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RTQ1|Q69G20	Splice_Site	SNP	ENST00000264350.3	37	CCDS3630.1	.	.	.	.	.	.	.	.	.	.	A	12.50	1.955460	0.34471	.	.	ENSG00000138646	ENST00000264350;ENST00000508159	.	.	.	4.09	4.09	0.47781	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	11.6988	0.51558	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	HERC5	89627241	1.000000	0.71417	1.000000	0.80357	0.496000	0.33645	4.111000	0.57838	2.084000	0.62774	0.482000	0.46254	.		0.343	HERC5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253554.2	NM_016323	Intron	G	89408218	A	G	89408218	5	3	617	1	0	0	0	0	0	0	1	0	7068	434	15	3	1908	3	HERC5	4	89408218	Splice_Site	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	33085756	89408218	101746058	36	37694										
GALNTL6	442117	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	173269759	173269759	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	aaggttggacttcactcctgCggaccatacacagtataatt	8	10	1	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr4:173269759C>T	ENST00000506823.1	+	5	1129	c.472C>T	c.(472-474)Cgg>Tgg	p.R158W	GALNTL6_ENST00000508122.1_Missense_Mutation_p.R141W|GALNTL6_ENST00000457021.1_3'UTR	NM_001034845.2	NP_001030017.2	Q49A17	GLTL6_HUMAN	polypeptide N-acetylgalactosaminyltransferase-like 6	158	Catalytic subdomain A.				protein glycosylation (GO:0006486)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			breast(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|liver(2)|lung(21)|ovary(1)|pancreas(1)|prostate(1)|skin(2)	45						TTCACTCCTGCGGACCATACA	0.428																																																0													141	132	135					4																	173269759		2203	4300	6503	SO:0001583	missense	442117				CCDS34104.1	4q34.1	2014-03-13	2014-03-13		ENSG00000174473	ENSG00000174473		"Glycosyltransferase family 2 domain containing"	33844	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase-like 6"	615138	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase-like 6"				Standard	NM_001034845		Approved	GALNT17, GalNAc-T6L	uc003isv.3	Q49A17	OTTHUMG00000160807	ENST00000506823.1:c.472C>T	4.37:g.173269759C>T	ENSP00000423313:p.Arg158Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q2L4S6	Missense_Mutation	SNP	ENST00000506823.1	37	CCDS34104.1	.	.	.	.	.	.	.	.	.	.	C	17.39	3.376971	0.61735	.	.	ENSG00000174473	ENST00000506823;ENST00000404275;ENST00000508122	T;T	0.63913	-0.07;-0.07	5.38	1.32	0.21799	Glycosyl transferase, family 2 (1);	0.730958	0.11188	N	0.590274	D	0.88228	0.6380	H	0.99425	4.56	0.48341	D	0.999638	D	0.89917	1.0	D	0.97110	1.0	D	0.89622	0.3849	10	0.87932	D	0	.	14.8011	0.69916	0.6209:0.3791:0.0:0.0	.	158	Q49A17	GLTL6_HUMAN	W	158;158;141	ENSP00000423313:R158W;ENSP00000423827:R141W	ENSP00000385382:R158W	R	+	1	2	GALNTL6	173506334	0.987000	0.35691	1.000000	0.80357	0.979000	0.70002	0.342000	0.19926	0.212000	0.20703	-0.470000	0.05040	CGG		0.428	GALNTL6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362395.1	NM_001034845		T	173269759	C	T	173269759	3	4	617	1	0	0	0	0	1	0	0	0	6232	759	27	1	486	1	GALNTL6	4	173269759	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	83861541	173269759	17884517	37	37695										
SLC9A3	6550	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	476140	476140	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gggcccccagcgcacctttcTccttgatggtgaaattctgc	10	14	2	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr5:476140T>A	ENST00000264938.3	-	14	2144	c.2135A>T	c.(2134-2136)gAg>gTg	p.E712V	CTD-2228K2.7_ENST00000607005.1_RNA|CTD-2228K2.5_ENST00000342584.3_5'Flank|CTD-2228K2.7_ENST00000606288.1_RNA|SLC9A3_ENST00000514375.1_Missense_Mutation_p.E703V|CTD-2228K2.7_ENST00000607286.1_RNA|CTD-2228K2.7_ENST00000606319.1_RNA	NM_004174.2	NP_004165.2	P48764	SL9A3_HUMAN	solute carrier family 9, subfamily A (NHE3, cation proton antiporter 3), member 3	712					ion transport (GO:0006811)|regulation of pH (GO:0006885)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|brush border (GO:0005903)|brush border membrane (GO:0031526)|cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	PDZ domain binding (GO:0030165)|sodium:proton antiporter activity (GO:0015385)			NS(2)|biliary_tract(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(4)|liver(2)|lung(16)|prostate(3)|skin(2)|urinary_tract(1)	37			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			CGCACCTTTCTCCTTGATGGT	0.642																																																0													24	26	25					5																	476140		2203	4300	6503	SO:0001583	missense	6550				CCDS3855.1, CCDS64116.1	5p15.3	2013-05-22	2012-03-22		ENSG00000066230	ENSG00000066230		"Solute carriers"	11073	protein-coding gene	gene with protein product		182307	"solute carrier family 9 (sodium/hydrogen exchanger), isoform 3", "solute carrier family 9 (sodium/hydrogen exchanger), member 3"	NHE3		8096830	Standard	NM_004174		Approved		uc003jbe.2	P48764	OTTHUMG00000090315	ENST00000264938.3:c.2135A>T	5.37:g.476140T>A	ENSP00000264938:p.Glu712Val	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKR2|E9PF67|Q3MIW3	Missense_Mutation	SNP	ENST00000264938.3	37	CCDS3855.1	.	.	.	.	.	.	.	.	.	.	T	9.100	1.003901	0.19199	.	.	ENSG00000066230	ENST00000264938;ENST00000514375	T;T	0.72942	-0.7;-0.7	3.93	3.93	0.45458	.	11.221700	0.00508	N	0.000168	T	0.70360	0.3215	M	0.64997	1.995	0.30953	N	0.724513	B;P	0.35433	0.222;0.501	B;B	0.35470	0.059;0.203	T	0.57470	-0.7806	10	0.25106	T	0.35	.	9.4489	0.38714	0.0:0.0:0.0:1.0	.	703;712	E9PF67;P48764	.;SL9A3_HUMAN	V	712;703	ENSP00000264938:E712V;ENSP00000422983:E703V	ENSP00000264938:E712V	E	-	2	0	SLC9A3	529140	0.009000	0.17119	0.998000	0.56505	0.230000	0.25150	0.875000	0.28079	1.565000	0.49641	0.155000	0.16302	GAG		0.642	SLC9A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206677.2	NM_004174		A	476140	T	A	476140	3	1	617	1	0	0	0	0	1	0	0	0	14726	1551	54	5	385	5	SLC9A3	5	476140	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08		476140	180439120	38	37696										
ADAMTS16	170690	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	5235155	5235155	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	atggagggaagttctgtgagGgctccactcgcactctgaag	14	9	2	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr5:5235155G>C	ENST00000274181.7	+	13	2017	c.1879G>C	c.(1879-1881)Ggc>Cgc	p.G627R	ADAMTS16_ENST00000513709.1_3'UTR	NM_139056.2	NP_620687.2	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 16	627	TSP type-1 1. {ECO:0000255|PROSITE- ProRule:PRU00210}.				branching involved in ureteric bud morphogenesis (GO:0001658)	proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(72)|ovary(4)|pancreas(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	107						GTTCTGTGAGGGCTCCACTCG	0.443																																																0													66	69	68					5																	5235155		1926	4118	6044	SO:0001583	missense	170690			AJ315734	CCDS43299.1	5p15	2008-07-18	2005-08-19		ENSG00000145536	ENSG00000145536		"ADAM metallopeptidases with thrombospondin type 1 motif"	17108	protein-coding gene	gene with protein product		607510	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 16"			11867212	Standard	NM_139056		Approved	ADAMTS16s	uc003jdl.3	Q8TE57	OTTHUMG00000161663	ENST00000274181.7:c.1879G>C	5.37:g.5235155G>C	ENSP00000274181:p.Gly627Arg	Somatic		WXS	Illumina HiSeq	Phase_I	C6G490|Q8IVE2	Missense_Mutation	SNP	ENST00000274181.7	37	CCDS43299.1	.	.	.	.	.	.	.	.	.	.	G	17.23	3.337693	0.60963	.	.	ENSG00000145536	ENST00000274181;ENST00000536857	T	0.09163	3.01	4.91	4.91	0.64330	.	0.000000	0.85682	D	0.000000	T	0.54886	0.1886	H	0.99565	4.63	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.998;0.999	T	0.76984	-0.2756	10	0.72032	D	0.01	.	17.2614	0.87071	0.0:0.0:1.0:0.0	.	627;627	Q8TE57;Q8TE57-2	ATS16_HUMAN;.	R	627	ENSP00000274181:G627R	ENSP00000274181:G627R	G	+	1	0	ADAMTS16	5288155	1.000000	0.71417	0.963000	0.40424	0.056000	0.15407	9.323000	0.96364	2.446000	0.82766	0.655000	0.94253	GGC		0.443	ADAMTS16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365657.1	NM_139056		C	5235155	G	C	5235155	3	2	617	1	0	0	0	0	1	0	0	0	261	1232	43	4	1929	4	ADAMTS16	5	5235155	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	4759015	5235155	175680105	39	37697										
RNASEN	29102	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	31526783	31526783	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gagggccttgcgctgacggaGgcatgggtggggggaagggt	23	6	0	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr5:31526783G>T	ENST00000511367.2	-	4	501	c.257C>A	c.(256-258)cCt>cAt	p.P86H	DROSHA_ENST00000344624.3_Missense_Mutation_p.P86H|DROSHA_ENST00000504361.1_5'Flank|DROSHA_ENST00000513349.1_Missense_Mutation_p.P86H|DROSHA_ENST00000442743.1_Missense_Mutation_p.P86H	NM_013235.4	NP_037367.3	Q9NRR4	RNC_HUMAN	drosha, ribonuclease type III	86	Pro-rich.				defense response to Gram-negative bacterium (GO:0050829)|defense response to Gram-positive bacterium (GO:0050830)|gene expression (GO:0010467)|miRNA metabolic process (GO:0010586)|pre-miRNA processing (GO:0031054)|primary miRNA processing (GO:0031053)|ribosome biogenesis (GO:0042254)|RNA phosphodiester bond hydrolysis (GO:0090501)|RNA phosphodiester bond hydrolysis, endonucleolytic (GO:0090502)|rRNA catabolic process (GO:0016075)	nucleoplasm (GO:0005654)	lipopolysaccharide binding (GO:0001530)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|ribonuclease III activity (GO:0004525)			breast(4)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(19)|lung(33)|ovary(2)|skin(1)	66						CGCTGACGGAGGCATGGGTGG	0.592																																																0													29	33	32					5																	31526783		1994	4160	6154	SO:0001583	missense	29102			AF116910	CCDS47194.1, CCDS47195.1	5q11.2	2010-11-17	2010-10-28	2010-10-28	ENSG00000113360	ENSG00000113360	3.1.26.3		17904	protein-coding gene	gene with protein product	"drosha, ribonuclease type III", "drosha, double-stranded RNA-specific endoribonuclease"	608828	"ribonuclease type III, nuclear"	RNASEN		10713462, 10948199	Standard	NM_013235		Approved	RNASE3L, Etohi2, HSA242976, RN3	uc003jhg.2	Q9NRR4	OTTHUMG00000161976	ENST00000511367.2:c.257C>A	5.37:g.31526783G>T	ENSP00000425979:p.Pro86His	Somatic		WXS	Illumina HiSeq	Phase_I	E7EMP9|Q7Z5V2|Q86YH0|Q9NW73|Q9Y2V9|Q9Y4Y0	Missense_Mutation	SNP	ENST00000511367.2	37	CCDS47195.1	.	.	.	.	.	.	.	.	.	.	G	17.90	3.502885	0.64298	.	.	ENSG00000113360	ENST00000511367;ENST00000344624;ENST00000442743;ENST00000513349;ENST00000265075;ENST00000382188;ENST00000507438	T;T;T;T;T	0.48522	1.29;1.29;0.81;0.81;0.88	5.41	5.41	0.78517	.	0.192038	0.44902	D	0.000411	T	0.45816	0.1361	N	0.19112	0.55	0.39763	D	0.972056	P;D;D	0.63046	0.878;0.992;0.992	P;P;P	0.51355	0.575;0.667;0.667	T	0.38824	-0.9643	10	0.30078	T	0.28	-6.4282	19.2155	0.93776	0.0:0.0:1.0:0.0	.	86;86;86	Q9NRR4-2;E7EMP9;Q9NRR4	.;.;RNC_HUMAN	H	86;86;86;86;79;79;86	ENSP00000425979:P86H;ENSP00000339845:P86H;ENSP00000409335:P86H;ENSP00000424161:P86H;ENSP00000430921:P86H	ENSP00000265075:P79H	P	-	2	0	DROSHA	31562540	1.000000	0.71417	0.987000	0.45799	0.985000	0.73830	6.322000	0.72886	2.535000	0.85469	0.655000	0.94253	CCT		0.592	DROSHA-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366561.3	NM_013235		T	31526783	G	T	31526783	3	4	617	1	0	0	0	0	1	0	0	0	13430	1000	35	4	3995	4	RNASEN	5	31526783	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	26291628	31526783	149388477	40	37698										
IL7R	3575	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	35876145	35876145	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gccagattcatagggtggatGacattcaagctagagatgaa	12	6	2	4			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr5:35876145G>T	ENST00000303115.3	+	8	1066	c.937G>T	c.(937-939)Gac>Tac	p.D313Y	IL7R_ENST00000343305.4_3'UTR	NM_002185.3	NP_002176.2	P16871	IL7RA_HUMAN	interleukin 7 receptor	313					B cell proliferation (GO:0042100)|cell growth (GO:0016049)|cell morphogenesis (GO:0000902)|cell surface receptor signaling pathway (GO:0007166)|homeostasis of number of cells (GO:0048872)|immune response (GO:0006955)|immunoglobulin production (GO:0002377)|interleukin-7-mediated signaling pathway (GO:0038111)|lymph node development (GO:0048535)|negative regulation of T cell mediated cytotoxicity (GO:0001915)|positive regulation of gene expression (GO:0010628)|positive regulation of T cell differentiation in thymus (GO:0033089)|regulation of cell size (GO:0008361)|regulation of DNA recombination (GO:0000018)|signal transduction (GO:0007165)|T cell differentiation (GO:0030217)	external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	antigen binding (GO:0003823)|interleukin-7 receptor activity (GO:0004917)			NS(1)|breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(78)|kidney(2)|large_intestine(6)|lung(25)|ovary(3)|pancreas(1)|skin(5)|stomach(3)	126	all_lung(31;0.00015)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.187)|Colorectal(62;0.202)			TAGGGTGGATGACATTCAAGC	0.438			"Mis, O"		"ALL, ETP ALL"		Severe combined immune deficiency																																Dom	yes		5	5p13	146661	interleukin 7 receptor	yes	L	0													89	84	85					5																	35876145		2203	4300	6503	SO:0001583	missense	3575			M29696	CCDS3911.1	5p13	2014-09-17			ENSG00000168685	ENSG00000168685		"Interleukins and interleukin receptors", "CD molecules", "Fibronectin type III domain containing"	6024	protein-coding gene	gene with protein product		146661				2317865	Standard	NM_002185		Approved	CD127	uc003jjs.4	P16871	OTTHUMG00000090791	ENST00000303115.3:c.937G>T	5.37:g.35876145G>T	ENSP00000306157:p.Asp313Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCS6|B4DVT1|Q05CU8|Q6NSP4|Q6NWM0|Q6NWM1|Q6NWM2|Q6NWM3|Q6SV45|Q9UPC1	Missense_Mutation	SNP	ENST00000303115.3	37	CCDS3911.1	.	.	.	.	.	.	.	.	.	.	G	21.8	4.199424	0.79015	.	.	ENSG00000168685	ENST00000303115;ENST00000505875	T;T	0.35421	1.9;1.31	6.06	6.06	0.98353	.	0.458345	0.25467	N	0.030468	T	0.30854	0.0778	N	0.14661	0.345	0.80722	D	1	D	0.56521	0.976	P	0.46975	0.533	T	0.09885	-1.0654	10	0.72032	D	0.01	-1.5157	16.1283	0.81408	0.0:0.0:1.0:0.0	.	313	P16871	IL7RA_HUMAN	Y	313;79	ENSP00000306157:D313Y;ENSP00000420923:D79Y	ENSP00000306157:D313Y	D	+	1	0	IL7R	35911902	1.000000	0.71417	0.998000	0.56505	0.961000	0.63080	3.729000	0.54999	2.871000	0.98454	0.655000	0.94253	GAC		0.438	IL7R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207577.2			T	35876145	G	T	35876145	3	4	617	1	0	0	0	0	1	0	0	0	7712	1290	45	4	967	4	IL7R	5	35876145	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	4349362	35876145	145039115	41	37699										
TBCA	6902	hgsc.bcm.edu;broad.mit.edu	37	chr5	76987260	76987260	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gtttcaggcttctaacttcaCtgaatccagtactaaacgtg	7	10	3	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr5:76987260C>A	ENST00000380377.4	-	4	413	c.310G>T	c.(310-312)Gtg>Ttg	p.V104L	TBCA_ENST00000517881.1_5'UTR|TBCA_ENST00000306388.6_3'UTR|TBCA_ENST00000517679.1_Missense_Mutation_p.V115L|TBCA_ENST00000518338.2_Missense_Mutation_p.V127L|TBCA_ENST00000520361.1_Missense_Mutation_p.V75L|TBCA_ENST00000522370.1_Missense_Mutation_p.V80L	NM_004607.2	NP_004598.1	O75347	TBCA_HUMAN	tubulin folding cofactor A	104					'de novo' posttranslational protein folding (GO:0051084)|cellular protein metabolic process (GO:0044267)|post-chaperonin tubulin folding pathway (GO:0007023)|protein folding (GO:0006457)|tubulin complex assembly (GO:0007021)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|microtubule cytoskeleton (GO:0015630)|nucleolus (GO:0005730)	chaperone binding (GO:0051087)|poly(A) RNA binding (GO:0044822)			kidney(1)|large_intestine(2)|lung(1)|ovary(1)	5		all_lung(232;0.000511)|Lung NSC(167;0.000601)|Ovarian(174;0.0105)|Prostate(461;0.214)		OV - Ovarian serous cystadenocarcinoma(54;1.02e-49)|Epithelial(54;1.05e-44)|all cancers(79;4.08e-40)		TCTAACTTCACTGAATCCAGT	0.333																																																0													55	53	54					5																	76987260		2202	4292	6494	SO:0001583	missense	6902			AF038952	CCDS4040.1, CCDS75263.1	5q14.1	2008-02-05	2006-11-21		ENSG00000171530	ENSG00000171530			11579	protein-coding gene	gene with protein product		610058	"tubulin-specific chaperone a"			9653160, 8706133	Standard	XM_005248586		Approved		uc003kfh.1	O75347	OTTHUMG00000102173	ENST00000380377.4:c.310G>T	5.37:g.76987260C>A	ENSP00000369736:p.Val104Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DT30	Missense_Mutation	SNP	ENST00000380377.4	37	CCDS4040.1	.	.	.	.	.	.	.	.	.	.	C	14.89	2.671277	0.47781	.	.	ENSG00000171530	ENST00000380377;ENST00000517679;ENST00000520361;ENST00000522370	.	.	.	5.76	4.9	0.64082	.	0.056024	0.64402	D	0.000001	T	0.62913	0.2467	M	0.77820	2.39	0.80722	D	1	B	0.06786	0.001	B	0.04013	0.001	T	0.62553	-0.6830	9	0.54805	T	0.06	.	12.0348	0.53418	0.0:0.8608:0.0:0.1392	.	104	O75347	TBCA_HUMAN	L	104;115;75;80	.	ENSP00000369736:V104L	V	-	1	0	TBCA	77023016	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	3.282000	0.51693	1.442000	0.47568	-0.143000	0.13931	GTG		0.333	TBCA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000220021.3	NM_004607		A	76987260	C	A	76987260	3	1	617	1	0	0	0	0	1	0	0	0	15641	565	20	4	20	4	TBCA	5	76987260	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	41111115	76987260	103928000	42	37700										
PPIC	5480	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	122359696	122359696	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	agctctatggagtgcaccacTgtctggtgagagaaaagtag	13	7	2	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr5:122359696T>A	ENST00000306442.4	-	5	628	c.513A>T	c.(511-513)acA>acT	p.T171T	RN7SL689P_ENST00000577215.1_RNA	NM_000943.4	NP_000934.1	P45877	PPIC_HUMAN	peptidylprolyl isomerase C (cyclophilin C)	171	PPIase cyclophilin-type. {ECO:0000255|PROSITE-ProRule:PRU00156}.				protein folding (GO:0006457)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	cyclosporin A binding (GO:0016018)|peptidyl-prolyl cis-trans isomerase activity (GO:0003755)			endometrium(1)|kidney(1)|large_intestine(1)|lung(1)|ovary(1)|urinary_tract(1)	6		all_cancers(142;0.0168)|Prostate(80;0.0322)|Lung NSC(810;0.102)|all_lung(232;0.163)	KIRC - Kidney renal clear cell carcinoma(527;0.0897)|Kidney(363;0.137)	OV - Ovarian serous cystadenocarcinoma(64;0.000331)|Epithelial(69;0.000553)|all cancers(49;0.00505)	L-Proline(DB00172)	AGTGCACCACTGTCTGGTGAG	0.478																																					Ovarian(99;690 1502 20765 45543 49568)											0													203	187	192					5																	122359696		2203	4300	6503	SO:0001819	synonymous_variant	5480			S71018	CCDS4133.1	5q23.2	2008-02-05			ENSG00000168938	ENSG00000168938	5.2.1.8		9256	protein-coding gene	gene with protein product		123842				1383094, 8031755	Standard	NM_000943		Approved	CYPC	uc003kth.3	P45877	OTTHUMG00000128921	ENST00000306442.4:c.513A>T	5.37:g.122359696T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4LBB5	Silent	SNP	ENST00000306442.4	37	CCDS4133.1																																																																																				0.478	PPIC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250898.2	NM_000943		A	122359696	T	A	122359696	2	1	617	1	0	0	0	0	0	0	0	1	12330	1567	55	5		5	PPIC	5	122359696	Silent	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	45372436	122359696	58555564	43	37701										
PCDHA8	56140	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	140223201	140223201	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tgctctggtgaggggccaccGaagacggacctcatggcctt	14	12	2	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr5:140223201G>A	ENST00000531613.1	+	1	2295	c.2295G>A	c.(2293-2295)ccG>ccA	p.P765P	PCDHA2_ENST00000526136.1_Intron|PCDHA1_ENST00000394633.3_Intron|PCDHA5_ENST00000529619.1_Intron|PCDHA6_ENST00000527624.1_Intron|PCDHA7_ENST00000525929.1_Intron|PCDHA4_ENST00000512229.2_Intron|PCDHA5_ENST00000529859.1_Intron|PCDHA6_ENST00000529310.1_Intron|PCDHA3_ENST00000522353.2_Intron|PCDHA1_ENST00000504120.2_Intron|PCDHA8_ENST00000378123.3_Silent_p.P765P|PCDHA4_ENST00000530339.1_Intron	NM_018911.2	NP_061734.1	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8	765					cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			NS(2)|breast(3)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(10)|lung(31)|ovary(2)|prostate(2)|skin(4)|stomach(2)|upper_aerodigestive_tract(6)	78			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGGGCCACCGAAGACGGACC	0.592																																																0													59	60	60					5																	140223201		2196	4262	6458	SO:0001819	synonymous_variant	56140			AF152486	CCDS54919.1	5q31	2010-11-26				ENSG00000204962		"Cadherins / Protocadherins : Clustered"	8674	other	complex locus constituent	"KIAA0345-like 6"	606314				10380929	Standard	NM_018911		Approved			Q9Y5H6		ENST00000531613.1:c.2295G>A	5.37:g.140223201G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B9EGT7|O75281	Silent	SNP	ENST00000531613.1	37	CCDS54919.1																																																																																				0.592	PCDHA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372830.2	NM_018911		A	140223201	G	A	140223201	2	1	617	1	0	0	0	0	0	0	0	1	11537	1045	37	1		1	PCDHA8	5	140223201	Silent	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	17863505	140223201	40692059	44	37702										
PCDHGA12	26025	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	140811805	140811805	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	atcacttattccctggctgaGaacaccatccaaggggcaag	9	12	1	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr5:140811805G>A	ENST00000252085.3	+	1	1621	c.1479G>A	c.(1477-1479)gaG>gaA	p.E493E	PCDHGA5_ENST00000518069.1_Intron|PCDHGA6_ENST00000517434.1_Intron|PCDHGA8_ENST00000398604.2_Intron|PCDHGA11_ENST00000518882.1_Intron|PCDHGB7_ENST00000398594.2_Intron|PCDHGA10_ENST00000398610.2_Intron|PCDHGA9_ENST00000573521.1_Intron|PCDHGB6_ENST00000520790.1_Intron|PCDHGA11_ENST00000398587.2_Intron|PCDHGA3_ENST00000253812.6_Intron|PCDHGB3_ENST00000576222.1_Intron|PCDHGB4_ENST00000519479.1_Intron|PCDHGA7_ENST00000518325.1_Intron|PCDHGA2_ENST00000394576.2_Intron|PCDHGB1_ENST00000523390.1_Intron|PCDHGB2_ENST00000522605.1_Intron|PCDHGA1_ENST00000517417.1_Intron|PCDHGA4_ENST00000571252.1_Intron	NM_003735.2|NM_032094.1	NP_003726.1|NP_115265.1	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12	493	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(2)|cervix(1)|endometrium(7)|kidney(1)|large_intestine(10)|lung(23)|ovary(5)|pancreas(1)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)	58			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCTGGCTGAGAACACCATCC	0.557																																																0													75	81	79					5																	140811805		2203	4300	6503	SO:0001819	synonymous_variant	26025			AF152506	CCDS4260.1, CCDS75346.1	5q31	2010-01-26	2002-05-23		ENSG00000253159	ENSG00000253159		"Cadherins / Protocadherins : Clustered"	8699	other	protocadherin	"fibroblast cadherin FIB3"	603059	"cadherin 21"	CDH21		10380929	Standard	NM_003735		Approved	KIAA0588, FIB3, PCDH-GAMMA-A12		O60330	OTTHUMG00000129611	ENST00000252085.3:c.1479G>A	5.37:g.140811805G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O15100|Q6UW70|Q9Y5D7	Silent	SNP	ENST00000252085.3	37	CCDS4260.1																																																																																				0.557	PCDHGA12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251806.2	NM_003735		A	140811805	G	A	140811805	2	1	617	1	0	0	0	0	0	0	0	1	11560	933	33	2		2	PCDHGA12	5	140811805	Silent	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	588604	140811805	40103455	45	37703										
LARP1	23367	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	154183178	154183178	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ccgctctctaccaaccactgTcccagagtcaccaaactacc	4	19	2	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr5:154183178T>A	ENST00000336314.4	+	13	2105	c.2081T>A	c.(2080-2082)gTc>gAc	p.V694D		NM_015315.3	NP_056130.2	Q6PKG0	LARP1_HUMAN	La ribonucleoprotein domain family, member 1	771					cell proliferation (GO:0008283)|positive regulation of macroautophagy (GO:0016239)|positive regulation of translation (GO:0045727)|TOR signaling (GO:0031929)|translational initiation (GO:0006413)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	eukaryotic initiation factor 4E binding (GO:0008190)|mRNA 3'-UTR binding (GO:0003730)|mRNA 5'-UTR binding (GO:0048027)|poly(A) RNA binding (GO:0044822)|RNA cap binding (GO:0000339)|translation activator activity (GO:0008494)|translation initiation factor binding (GO:0031369)			breast(1)|endometrium(3)|kidney(2)|large_intestine(10)|lung(9)|ovary(3)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	33	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CCAACCACTGTCCCAGAGTCA	0.582																																																0													153	132	139					5																	154183178		2203	4300	6503	SO:0001583	missense	23367			AB018274	CCDS4328.1	5q33.2	2014-02-12			ENSG00000155506	ENSG00000155506		"La ribonucleoprotein domain containing"	29531	protein-coding gene	gene with protein product		612059				9872452, 10878606	Standard	NM_015315		Approved	LARP, KIAA0731, MGC19556	uc003lvo.4	Q6PKG0	OTTHUMG00000130191	ENST00000336314.4:c.2081T>A	5.37:g.154183178T>A	ENSP00000336721:p.Val694Asp	Somatic		WXS	Illumina HiSeq	Phase_I	O94836|Q8N4M2|Q8NB73|Q9UFD7	Missense_Mutation	SNP	ENST00000336314.4	37	CCDS4328.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	18.11|18.11	3.551818|3.551818	0.65311|0.65311	.|.	.|.	ENSG00000155506|ENSG00000155506	ENST00000518677|ENST00000336314;ENST00000518297;ENST00000524248	.|T;T;T	.|0.38240	.|1.67;1.15;1.22	5.67|5.67	5.67|5.67	0.87782|0.87782	.|.	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.59459|0.59459	0.2195|0.2195	M|M	0.72118|0.72118	2.19|2.19	0.80722|0.80722	D|D	1|1	.|D;D	.|0.71674	.|0.997;0.998	.|D;D	.|0.74348	.|0.92;0.983	T|T	0.60551|0.60551	-0.7241|-0.7241	5|10	.|0.48119	.|T	.|0.1	-16.9963|-16.9963	15.9212|15.9212	0.79575|0.79575	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	.|771;694	.|Q6PKG0;Q6PKG0-3	.|LARP1_HUMAN;.	T|D	85|694;771;566	.|ENSP00000336721:V694D;ENSP00000428589:V771D;ENSP00000429904:V566D	.|ENSP00000336721:V694D	S|V	+|+	1|2	0|0	LARP1|LARP1	154163371|154163371	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.186000|0.186000	0.23388|0.23388	7.633000|7.633000	0.83260|0.83260	2.155000|2.155000	0.67459|0.67459	0.460000|0.460000	0.39030|0.39030	TCC|GTC		0.582	LARP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252509.1	NM_033551		A	154183178	T	A	154183178	3	1	617	1	0	0	0	0	1	0	0	0	8635	1667	58	5	2131	5	LARP1	5	154183178	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	13371373	154183178	26732082	46	37704										
PANK3	79646	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	167995656	167995656	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gtaaaagatacctactgtgcGaaaatctttttcaaacttgt	6	7	2	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr5:167995656G>A	ENST00000239231.6	-	2	692	c.376C>T	c.(376-378)Cgc>Tgc	p.R126C	PANK3_ENST00000520504.1_5'Flank	NM_024594.3	NP_078870.1	Q9H999	PANK3_HUMAN	pantothenate kinase 3	126					coenzyme A biosynthetic process (GO:0015937)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|pantothenate kinase activity (GO:0004594)	p.R126C(1)		NS(1)|cervix(2)|endometrium(2)|large_intestine(3)|lung(4)|ovary(1)|pancreas(1)|skin(1)|urinary_tract(1)	16	Renal(175;0.000159)|Lung NSC(126;0.0441)|all_lung(126;0.0909)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0989)|OV - Ovarian serous cystadenocarcinoma(192;0.147)|Epithelial(171;0.188)		CCTACTGTGCGAAAATCTTTT	0.373																																																1	Substitution - Missense(1)	cervix(1)											80	77	78					5																	167995656		2203	4300	6503	SO:0001583	missense	79646			AK022961	CCDS4368.1	5q35.1	2008-02-05			ENSG00000120137	ENSG00000120137			19365	protein-coding gene	gene with protein product		606161				11479594	Standard	NM_024594		Approved	FLJ12899	uc003lzz.2	Q9H999	OTTHUMG00000130410	ENST00000239231.6:c.376C>T	5.37:g.167995656G>A	ENSP00000239231:p.Arg126Cys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQL1|Q53FJ9|Q7RTX4	Missense_Mutation	SNP	ENST00000239231.6	37	CCDS4368.1	.	.	.	.	.	.	.	.	.	.	G	20.6	4.021887	0.75275	.	.	ENSG00000120137	ENST00000239231;ENST00000522176	D;D	0.99582	-6.22;-6.22	5.81	5.81	0.92471	.	0.045054	0.85682	D	0.000000	D	0.99387	0.9784	M	0.72118	2.19	0.80722	D	1	D	0.61697	0.99	P	0.54856	0.762	D	0.99429	1.0935	10	0.54805	T	0.06	-7.4746	19.0666	0.93114	0.0:0.0:1.0:0.0	.	126	Q9H999	PANK3_HUMAN	C	126;111	ENSP00000239231:R126C;ENSP00000428631:R111C	ENSP00000239231:R126C	R	-	1	0	PANK3	167928234	1.000000	0.71417	1.000000	0.80357	0.954000	0.61252	5.446000	0.66600	2.736000	0.93811	0.655000	0.94253	CGC		0.373	PANK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252793.2	NM_024594		A	167995656	G	A	167995656	3	1	617	1	0	0	0	0	1	0	0	0	11425	1058	37	1	760	1	PANK3	5	167995656	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	13812478	167995656	12919604	47	37705										
DHX16	8449	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	30640454	30640454	+	Silent	SNP	G	G	T													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	aagtcccgggccggcccactGagatccaaggtatcagtgtc							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr6:30640454G>T	ENST00000376442.3	-	1	360	c.165C>A	c.(163-165)ctC>ctA	p.L55L		NM_001164239.1|NM_003587.4	NP_001157711.1|NP_003578.2	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	55					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|poly(A) RNA binding (GO:0044822)|RNA helicase activity (GO:0003724)			kidney(2)|ovary(2)	4						CCGGCCCACTGAGATCCAAGG	0.652																																																0													51	54	53					6																	30640454		1508	2709	4217	SO:0001819	synonymous_variant	8449			AB001601	CCDS4685.1	6p21.3	2010-02-17	2003-06-13	2003-06-20	ENSG00000204560	ENSG00000204560		"DEAH-boxes"	2739	protein-coding gene	gene with protein product		603405	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 16"	DDX16		9547260	Standard	NM_003587		Approved	DBP2, Prp2, PRPF2	uc003nqz.3	O60231	OTTHUMG00000031060	ENST00000376442.3:c.165C>A	6.37:g.30640454G>T		Somatic		WXS	Illumina HiSeq	Phase_I	O60322|Q5JP45|Q969X7|Q96QC1	Silent	SNP	ENST00000376442.3	37	CCDS4685.1																																																																																				0.652	DHX16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076076.2	NM_003587		T	30640454	G	T	30640454	2	4	617	1	0	0	0	0	0	0	0	1	4504	1277	45	4		4	DHX16	6	30640454	Silent	SNP	G	TCGA-IZ-8196-01A-11D-2396-08		30640454	140474613	48	37706	293	2								
DHX16	8449	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	30640464	30640464	+	Missense_Mutation	SNP	G	G	T													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ccggcccactgagatccaagGtatcagtgtctcgtaggcgc					rs375439029		TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr6:30640464G>T	ENST00000376442.3	-	1	350	c.155C>A	c.(154-156)aCc>aAc	p.T52N		NM_001164239.1|NM_003587.4	NP_001157711.1|NP_003578.2	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	52					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|poly(A) RNA binding (GO:0044822)|RNA helicase activity (GO:0003724)			kidney(2)|ovary(2)	4						GAGATCCAAGGTATCAGTGTC	0.647																																																0													52	55	54					6																	30640464		1509	2709	4218	SO:0001583	missense	8449			AB001601	CCDS4685.1	6p21.3	2010-02-17	2003-06-13	2003-06-20	ENSG00000204560	ENSG00000204560		"DEAH-boxes"	2739	protein-coding gene	gene with protein product		603405	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 16"	DDX16		9547260	Standard	NM_003587		Approved	DBP2, Prp2, PRPF2	uc003nqz.3	O60231	OTTHUMG00000031060	ENST00000376442.3:c.155C>A	6.37:g.30640464G>T	ENSP00000365625:p.Thr52Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O60322|Q5JP45|Q969X7|Q96QC1	Missense_Mutation	SNP	ENST00000376442.3	37	CCDS4685.1	.	.	.	.	.	.	.	.	.	.	G	14.67	2.604490	0.46423	.	.	ENSG00000204560	ENST00000376442	T	0.02709	4.19	4.61	4.61	0.57282	.	0.054721	0.64402	D	0.000001	T	0.01661	0.0053	L	0.52364	1.645	0.80722	D	1	P	0.41673	0.759	B	0.37267	0.245	T	0.63844	-0.6545	10	0.17832	T	0.49	.	16.3585	0.83245	0.0:0.0:1.0:0.0	.	52	O60231	DHX16_HUMAN	N	52	ENSP00000365625:T52N	ENSP00000365625:T52N	T	-	2	0	DHX16	30748443	1.000000	0.71417	0.876000	0.34364	0.601000	0.36947	7.517000	0.81783	2.395000	0.81488	0.400000	0.26472	ACC		0.647	DHX16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076076.2	NM_003587		T	30640464	G	T	30640464	3	4	617	1	0	0	0	0	1	0	0	0	4504	1261	44	4	3050	4	DHX16	6	30640464	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	10	30640464	140474603	49	37707	293	2								
TNF	7124	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	31545047	31545049	+	In_Frame_Del	DEL	CCC	CCC	-													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ctcttcaagggccaaggctgCccctccacccatgtgctcct							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	CCC	CCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr6:31545047_31545049delCCC	ENST00000449264.2	+	4	610_612	c.435_437delCCC	c.(433-438)tgcccc>tgc	p.P146del		NM_000594.3	NP_000585.2	P01375	TNFA_HUMAN	tumor necrosis factor	146					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|activation of MAPK activity (GO:0000187)|activation of MAPKKK activity (GO:0000185)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|calcium-mediated signaling (GO:0019722)|cell activation (GO:0001775)|cellular response to amino acid stimulus (GO:0071230)|cellular response to nicotine (GO:0071316)|cellular response to organic cyclic compound (GO:0071407)|chronic inflammatory response to antigenic stimulus (GO:0002439)|defense response to Gram-positive bacterium (GO:0050830)|embryonic digestive tract development (GO:0048566)|epithelial cell proliferation involved in salivary gland morphogenesis (GO:0060664)|extracellular matrix organization (GO:0030198)|extrinsic apoptotic signaling pathway (GO:0097191)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|glucose metabolic process (GO:0006006)|humoral immune response (GO:0006959)|inflammatory response (GO:0006954)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|JNK cascade (GO:0007254)|leukocyte tethering or rolling (GO:0050901)|lipopolysaccharide-mediated signaling pathway (GO:0031663)|MAPK cascade (GO:0000165)|necroptotic signaling pathway (GO:0097527)|negative regulation of alkaline phosphatase activity (GO:0010693)|negative regulation of branching involved in lung morphogenesis (GO:0061048)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cytokine secretion involved in immune response (GO:0002740)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of gene expression (GO:0010629)|negative regulation of glucose import (GO:0046325)|negative regulation of growth of symbiont in host (GO:0044130)|negative regulation of interleukin-6 production (GO:0032715)|negative regulation of L-glutamate transport (GO:0002037)|negative regulation of lipid catabolic process (GO:0050995)|negative regulation of lipid storage (GO:0010888)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of protein complex disassembly (GO:0043242)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of viral genome replication (GO:0045071)|organ morphogenesis (GO:0009887)|osteoclast differentiation (GO:0030316)|positive regulation of apoptotic process (GO:0043065)|positive regulation of calcidiol 1-monooxygenase activity (GO:0060559)|positive regulation of chemokine (C-X-C motif) ligand 2 production (GO:2000343)|positive regulation of chemokine biosynthetic process (GO:0045080)|positive regulation of chemokine production (GO:0032722)|positive regulation of chronic inflammatory response to antigenic stimulus (GO:0002876)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of cytokine production (GO:0001819)|positive regulation of cytokine secretion (GO:0050715)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of fever generation (GO:0031622)|positive regulation of gene expression (GO:0010628)|positive regulation of hair follicle development (GO:0051798)|positive regulation of heterotypic cell-cell adhesion (GO:0034116)|positive regulation of humoral immune response mediated by circulating immunoglobulin (GO:0002925)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interleukin-18 production (GO:0032741)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of interleukin-8 biosynthetic process (GO:0045416)|positive regulation of JNK cascade (GO:0046330)|positive regulation of JUN kinase activity (GO:0043507)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of membrane protein ectodomain proteolysis (GO:0051044)|positive regulation of mitosis (GO:0045840)|positive regulation of mononuclear cell migration (GO:0071677)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of NF-kappaB import into nucleus (GO:0042346)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of NFAT protein import into nucleus (GO:0051533)|positive regulation of nitric oxide biosynthetic process (GO:0045429)|positive regulation of osteoclast differentiation (GO:0045672)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of podosome assembly (GO:0071803)|positive regulation of programmed cell death (GO:0043068)|positive regulation of protein complex assembly (GO:0031334)|positive regulation of protein complex disassembly (GO:0043243)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of protein localization to cell surface (GO:2000010)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein transport (GO:0051222)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of smooth muscle cell proliferation (GO:0048661)|positive regulation of synaptic transmission (GO:0050806)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of translational initiation by iron (GO:0045994)|positive regulation of vitamin D biosynthetic process (GO:0060557)|protein import into nucleus, translocation (GO:0000060)|protein kinase B signaling (GO:0043491)|receptor biosynthetic process (GO:0032800)|regulation of branching involved in salivary gland morphogenesis (GO:0060693)|regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043122)|regulation of immunoglobulin secretion (GO:0051023)|regulation of insulin secretion (GO:0050796)|regulation of reactive oxygen species metabolic process (GO:2000377)|response to activity (GO:0014823)|response to drug (GO:0042493)|response to glucocorticoid (GO:0051384)|response to hypoxia (GO:0001666)|response to mechanical stimulus (GO:0009612)|response to salt stress (GO:0009651)|response to virus (GO:0009615)|sequestering of triglyceride (GO:0030730)|skeletal muscle contraction (GO:0003009)|transformed cell apoptotic process (GO:0006927)|tumor necrosis factor-mediated signaling pathway (GO:0033209)	cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)|membrane raft (GO:0045121)|phagocytic cup (GO:0001891)|plasma membrane (GO:0005886)|recycling endosome (GO:0055037)	cytokine activity (GO:0005125)|identical protein binding (GO:0042802)|protease binding (GO:0002020)|transcription regulatory region DNA binding (GO:0044212)|tumor necrosis factor receptor binding (GO:0005164)			large_intestine(1)|lung(2)|ovary(1)|pancreas(1)|skin(3)	8		Ovarian(999;0.00556)			Adalimumab(DB00051)|Amrinone(DB01427)|Certolizumab pegol(DB08904)|Chloroquine(DB00608)|Clenbuterol(DB01407)|Epinephrine(DB00668)|Etanercept(DB00005)|Glucosamine(DB01296)|golimumab(DB06674)|Infliximab(DB00065)|Pomalidomide(DB08910)|Pranlukast(DB01411)|Pseudoephedrine(DB00852)|Thalidomide(DB01041)	GCCAAGGCTGCCCCTCCACCCAT	0.611									Naso-/Oropharyngeal/Laryngeal Cancer, Familial Clustering of																																							0																																										SO:0001651	inframe_deletion	7124	Familial Cancer Database	incl.: Familial Head and Neck Cancer	X02910	CCDS4702.1	6p21.3	2013-05-22	2010-05-04		ENSG00000232810	ENSG00000232810		"Tumor necrosis factor (ligand) superfamily"	11892	protein-coding gene	gene with protein product	"TNF superfamily, member 2"	191160	"tumor necrosis factor (TNF superfamily, member 2)"	TNFA		2413547, 6392892	Standard	NM_000594		Approved	TNFSF2, DIF, TNF-alpha	uc003nui.4	P01375	OTTHUMG00000031194	ENST00000449264.2:c.435_437delCCC	6.37:g.31545047_31545049delCCC	ENSP00000398698:p.Pro146del	Somatic		WXS	Illumina HiSeq	Phase_I	O43647|Q9P1Q2|Q9UIV3	In_Frame_Del	DEL	ENST00000449264.2	37	CCDS4702.1																																																																																				0.611	TNF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076390.2			-	31545049	CCC	-	31545047	7	5	617	1	0	1	0	1	0	0	0	0	16283	747	26	0	449	0	TNF	6	31545047	In_Frame_Del	DEL	CCC	TCGA-IZ-8196-01A-11D-2396-08	904583	31545047	139570020	50	37708										
DAXX	1616	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	33287821	33287822	+	Frame_Shift_Ins	INS	-	-	A													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tcctcttcgtcctcctcttcINSatcatcctcctgaccctcct					rs145347312		TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr6:33287821_33287822insA	ENST00000374542.5	-	5	1635_1636	c.1431_1432insT	c.(1429-1434)gatgaafs	p.E478fs	ZBTB22_ENST00000431845.2_5'Flank|DAXX_ENST00000477162.1_5'UTR|DAXX_ENST00000414083.2_Frame_Shift_Ins_p.E403fs|DAXX_ENST00000266000.6_Frame_Shift_Ins_p.E478fs|ZBTB22_ENST00000418724.1_5'Flank	NM_001141969.1|NM_001141970.1|NM_001350.4	NP_001135441.1|NP_001135442.1|NP_001341.1	Q9UER7	DAXX_HUMAN	death-domain associated protein	478	Asp/Glu-rich (acidic).|Necessary for interaction with USP7.				activation of JUN kinase activity (GO:0007257)|androgen receptor signaling pathway (GO:0030521)|apoptotic process (GO:0006915)|chromatin remodeling (GO:0006338)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|mitotic cytokinesis (GO:0000281)|negative regulation of transcription, DNA-templated (GO:0045892)|nucleosome assembly (GO:0006334)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of neuron death (GO:1901216)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of protein phosphorylation (GO:0001934)|regulation of protein ubiquitination (GO:0031396)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	chromosome, centromeric region (GO:0000775)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|heterochromatin (GO:0000792)|nucleus (GO:0005634)|PML body (GO:0016605)|SWI/SNF superfamily-type complex (GO:0070603)	androgen receptor binding (GO:0050681)|enzyme binding (GO:0019899)|heat shock protein binding (GO:0031072)|histone binding (GO:0042393)|p53 binding (GO:0002039)|protein homodimerization activity (GO:0042803)|protein kinase activator activity (GO:0030295)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|receptor signaling protein activity (GO:0005057)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)|ubiquitin protein ligase binding (GO:0031625)			breast(1)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(5)|large_intestine(2)|lung(7)|ovary(3)|pancreas(18)|prostate(3)|skin(4)|upper_aerodigestive_tract(4)|urinary_tract(1)	55						tcctcctcttcatcatcctcct	0.505			"Mis, F, N"		Pancreatic neuroendocrine tumors. Paediatric GBM																																		Rec	yes		6	6p21.3	1616	death-domain associated protein		E	0																																										SO:0001589	frameshift_variant	1616			AF006041	CCDS4776.1, CCDS59008.1	6p21.3	2008-08-29	2008-08-29			ENSG00000204209			2681	protein-coding gene	gene with protein product		603186	"death-associated protein 6"			9407001, 9215629	Standard	NM_001141970		Approved	DAP6	uc011dre.2	Q9UER7		ENST00000374542.5:c.1432dupT	6.37:g.33287822_33287822dupA	ENSP00000363668:p.Glu478fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4E1I3|F5H082|O14747|O15141|O15208|Q5STK9|Q9BWI3	Nonsense_Mutation	INS	ENST00000374542.5	37	CCDS4776.1																																																																																				0.505	DAXX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076403.1			A	33287822	-	A	33287821	7	5	617	1	0	1	1	0	0	0	0	0	4245	835	29	0	806	0	DAXX	6	33287821	Frame_Shift_Ins	INS	-	TCGA-IZ-8196-01A-11D-2396-08	1742774	33287821	137827246	51	37709										
MDN1	23195	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	90426453	90426453	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tgtcaacccattcaaatgtgCcatggctatggccactggcc	9	13	2	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr6:90426453C>T	ENST00000369393.3	-	44	6774	c.6659G>A	c.(6658-6660)gGc>gAc	p.G2220D	MDN1_ENST00000428876.1_Missense_Mutation_p.G2220D			Q9NU22	MDN1_HUMAN	MDN1, midasin homolog (yeast)	2220					ATP catabolic process (GO:0006200)|protein complex assembly (GO:0006461)	cytoplasm (GO:0005737)|intermediate filament cytoskeleton (GO:0045111)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|unfolded protein binding (GO:0051082)			NS(1)|breast(13)|central_nervous_system(2)|cervix(3)|endometrium(22)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(52)|liver(1)|lung(83)|ovary(10)|pancreas(1)|prostate(10)|skin(6)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	218		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)		TTCAAATGTGCCATGGCTATG	0.473																																																0													114	95	101					6																	90426453		2203	4300	6503	SO:0001583	missense	23195			AF503925	CCDS5024.1	6q15	2014-01-28			ENSG00000112159	ENSG00000112159			18302	protein-coding gene	gene with protein product						9205841, 12102729	Standard	XM_005248699		Approved	KIAA0301	uc003pnn.1	Q9NU22	OTTHUMG00000015213	ENST00000369393.3:c.6659G>A	6.37:g.90426453C>T	ENSP00000358400:p.Gly2220Asp	Somatic		WXS	Illumina HiSeq	Phase_I	O15019|Q5T794	Missense_Mutation	SNP	ENST00000369393.3	37	CCDS5024.1	.	.	.	.	.	.	.	.	.	.	C	19.83	3.900696	0.72754	.	.	ENSG00000112159	ENST00000369393;ENST00000428876	T;T	0.58210	0.35;0.35	5.35	5.35	0.76521	ATPase, AAA+ type, core (1);ATPase, dynein-related, AAA domain (1);	0.000000	0.85682	D	0.000000	T	0.75428	0.3848	M	0.91768	3.24	0.80722	D	1	D	0.69078	0.997	D	0.77004	0.989	T	0.77640	-0.2512	10	0.42905	T	0.14	.	19.4391	0.94811	0.0:1.0:0.0:0.0	.	2220	Q9NU22	MDN1_HUMAN	D	2220	ENSP00000358400:G2220D;ENSP00000413970:G2220D	ENSP00000358400:G2220D	G	-	2	0	MDN1	90483174	1.000000	0.71417	1.000000	0.80357	0.822000	0.46500	7.600000	0.82769	2.660000	0.90430	0.557000	0.71058	GGC		0.473	MDN1-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041514.2			T	90426453	C	T	90426453	3	4	617	1	0	0	0	0	1	0	0	0	9422	739	26	2	10367	2	MDN1	6	90426453	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	57138632	90426453	80688614	52	37710										
SIM1	6492	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	100895187	100895187	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gatacagtgtggcctggaggAgcgactgttgtgcacgatgg	17	7	0	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr6:100895187A>T	ENST00000369208.3	-	9	1737	c.955T>A	c.(955-957)Tcc>Acc	p.S319T	SIM1_ENST00000262901.4_Missense_Mutation_p.S319T			P81133	SIM1_HUMAN	single-minded family bHLH transcription factor 1	319	PAC.				cell differentiation (GO:0030154)|nervous system development (GO:0007399)|transcription, DNA-templated (GO:0006351)|ureteric bud development (GO:0001657)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)			breast(1)|central_nervous_system(4)|endometrium(5)|kidney(1)|large_intestine(15)|lung(34)|ovary(4)|prostate(1)|skin(5)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(5)	79		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		GGCCTGGAGGAGCGACTGTTG	0.597																																																0													165	123	137					6																	100895187		2203	4300	6503	SO:0001583	missense	6492			U70212	CCDS5045.1	6q16.3	2013-10-17	2013-10-17		ENSG00000112246	ENSG00000112246		"Basic helix-loop-helix proteins"	10882	protein-coding gene	gene with protein product		603128	"single-minded (Drosophila) homolog 1", "single-minded homolog 1 (Drosophila)"			9199934, 11448938	Standard	NM_005068		Approved	bHLHe14	uc003pqj.4	P81133	OTTHUMG00000015275	ENST00000369208.3:c.955T>A	6.37:g.100895187A>T	ENSP00000358210:p.Ser319Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TDP7	Missense_Mutation	SNP	ENST00000369208.3	37	CCDS5045.1	.	.	.	.	.	.	.	.	.	.	A	26.8	4.772481	0.90108	.	.	ENSG00000112246	ENST00000369208;ENST00000262901	T;T	0.16457	2.34;2.34	6.17	6.17	0.99709	PAS fold-3 (1);	0.000000	0.85682	D	0.000000	T	0.23766	0.0575	L	0.39085	1.19	0.58432	D	0.999999	D	0.76494	0.999	D	0.73380	0.98	T	0.01273	-1.1399	10	0.49607	T	0.09	.	16.8222	0.85835	1.0:0.0:0.0:0.0	.	319	P81133	SIM1_HUMAN	T	319	ENSP00000358210:S319T;ENSP00000262901:S319T	ENSP00000262901:S319T	S	-	1	0	SIM1	101001908	1.000000	0.71417	0.998000	0.56505	0.971000	0.66376	7.296000	0.78790	2.371000	0.80710	0.533000	0.62120	TCC		0.597	SIM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041628.3	NM_005068		T	100895187	A	T	100895187	3	4	617	1	0	0	0	0	1	0	0	0	14336	304	11	5	1361	5	SIM1	6	100895187	Missense_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	10468734	100895187	70219880	53	37711										
REV3L	5980	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	111695488	111695488	+	Frame_Shift_Del	DEL	T	T	-													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gattggaaaggtcaaatataTttttttgaattaacgttgat							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr6:111695488delT	ENST00000358835.3	-	14	4524	c.4070delA	c.(4069-4071)aatfs	p.N1357fs	REV3L_ENST00000368805.1_Frame_Shift_Del_p.N1357fs|REV3L_ENST00000368802.3_Frame_Shift_Del_p.N1357fs|REV3L_ENST00000435970.1_Frame_Shift_Del_p.N1279fs			O60673	DPOLZ_HUMAN	REV3-like, polymerase (DNA directed), zeta, catalytic subunit	1357					DNA-dependent DNA replication (GO:0006261)|translesion synthesis (GO:0019985)	chromosome (GO:0005694)|nucleus (GO:0005634)|zeta DNA polymerase complex (GO:0016035)	4 iron, 4 sulfur cluster binding (GO:0051539)|DNA binding (GO:0003677)|DNA-directed DNA polymerase activity (GO:0003887)|metal ion binding (GO:0046872)|nucleotide binding (GO:0000166)			NS(2)|breast(1)|endometrium(6)|kidney(7)|large_intestine(30)|lung(25)|ovary(3)|prostate(5)|skin(8)|upper_aerodigestive_tract(1)	88		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		GTCAAATATATTTTTTTGAAT	0.308								DNA polymerases (catalytic subunits)																																								0													63	69	67					6																	111695488		2201	4296	6497	SO:0001589	frameshift_variant	5980			AF058701	CCDS5091.2, CCDS69177.1	6q22	2012-05-18	2012-05-18		ENSG00000009413	ENSG00000009413		"DNA polymerases"	9968	protein-coding gene	gene with protein product	"polymerase, DNA, zeta"	602776	"REV3 (yeast homolog)-like, catalytic subunit of DNA polymerase zeta", "REV3-like, catalytic subunit of DNA polymerase zeta (yeast)"			9618506, 9925914	Standard	NM_001286431		Approved	POLZ, REV3	uc003puy.4	O60673	OTTHUMG00000016318	ENST00000358835.3:c.4070delA	6.37:g.111695488delT	ENSP00000351697:p.Asn1357fs	Somatic		WXS	Illumina HiSeq	Phase_I	O43214|Q5TC33	Frame_Shift_Del	DEL	ENST00000358835.3	37	CCDS5091.2																																																																																				0.308	REV3L-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043695.1	NM_002912		-	111695488	T	-	111695488	7	5	617	1	0	1	0	1	0	0	0	0	13253	1493	52	0	5402	0	REV3L	6	111695488	Frame_Shift_Del	DEL	T	TCGA-IZ-8196-01A-11D-2396-08	10800301	111695488	59419579	54	37712										
AHR	196	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	17362177	17362177	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ggaggccaggataactgtagAgcagcaaatttcagagaagg	14	6	1	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr7:17362177A>T	ENST00000242057.4	+	3	949	c.306A>T	c.(304-306)agA>agT	p.R102S		NM_001621.4	NP_001612.1	P35869	AHR_HUMAN	aryl hydrocarbon receptor	102					apoptotic process (GO:0006915)|blood vessel development (GO:0001568)|cell cycle (GO:0007049)|circadian regulation of gene expression (GO:0032922)|intracellular receptor signaling pathway (GO:0030522)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of RNA polymerase II transcriptional preinitiation complex assembly (GO:0045899)|positive regulation of transcription, DNA-templated (GO:0045893)|prostate gland development (GO:0030850)|regulation of B cell proliferation (GO:0030888)|regulation of gene expression (GO:0010468)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|response to toxic substance (GO:0009636)|response to xenobiotic stimulus (GO:0009410)|transcription from RNA polymerase II promoter (GO:0006366)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|cytosolic aryl hydrocarbon receptor complex (GO:0034752)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|E-box binding (GO:0070888)|enhancer binding (GO:0035326)|Hsp90 protein binding (GO:0051879)|ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|protein dimerization activity (GO:0046983)|protein heterodimerization activity (GO:0046982)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			NS(1)|central_nervous_system(1)|endometrium(3)|kidney(4)|large_intestine(8)|lung(11)|ovary(1)|pancreas(1)|urinary_tract(3)	33	Lung NSC(10;0.0392)|all_lung(11;0.0754)				Atorvastatin(DB01076)|Flutamide(DB00499)|Ginseng(DB01404)|Leflunomide(DB01097)|Mexiletine(DB00379)|Nimodipine(DB00393)	ATAACTGTAGAGCAGCAAATT	0.333																																																0													67	68	68					7																	17362177		2203	4299	6502	SO:0001583	missense	196			L19872	CCDS5366.1	7p15	2013-05-21			ENSG00000106546	ENSG00000106546		"Basic helix-loop-helix proteins"	348	protein-coding gene	gene with protein product		600253				8125016	Standard	NM_001621		Approved	bHLHe76	uc011jxz.1	P35869	OTTHUMG00000149967	ENST00000242057.4:c.306A>T	7.37:g.17362177A>T	ENSP00000242057:p.Arg102Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A4D130|Q13728|Q13803|Q13804	Missense_Mutation	SNP	ENST00000242057.4	37	CCDS5366.1	.	.	.	.	.	.	.	.	.	.	A	2.672	-0.277392	0.05679	.	.	ENSG00000106546	ENST00000242057	T	0.05199	3.48	0.235	-0.47	0.12131	.	0.875214	0.10272	N	0.694599	T	0.07503	0.0189	M	0.69823	2.125	0.09310	N	1	B	0.29162	0.235	B	0.30401	0.115	T	0.42015	-0.9476	9	0.22706	T	0.39	.	.	.	.	.	102	P35869	AHR_HUMAN	S	102	ENSP00000242057:R102S	ENSP00000242057:R102S	R	+	3	2	AHR	17328702	0.648000	0.27313	0.005000	0.12908	0.666000	0.39218	-0.535000	0.06142	-0.797000	0.04450	-0.818000	0.03119	AGA		0.333	AHR-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000314620.2	NM_001621		T	17362177	A	T	17362177	3	4	617	1	0	0	0	0	1	0	0	0	416	301	11	5	316	5	AHR	7	17362177	Missense_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08		17362177	141776486	55	37713										
TWISTNB	221830	ucsc.edu	37	chr7	19738032	19738032	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tgttttcttttcttttttttCtttttatggtcactttggta	5	5	4	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr7:19738032C>T	ENST00000222567.5	-	4	994	c.924G>A	c.(922-924)aaG>aaA	p.K308K		NM_001002926.1	NP_001002926.1	Q3B726	RPA43_HUMAN	TWIST neighbor	308	Lys-rich.				transcription from RNA polymerase I promoter (GO:0006360)	DNA-directed RNA polymerase I complex (GO:0005736)|microtubule cytoskeleton (GO:0015630)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA-directed RNA polymerase activity (GO:0003899)			kidney(1)|large_intestine(3)|lung(13)|ovary(1)|prostate(2)	20						TCTTTTTTTTCTTTTTATGGT	0.378																																																0													113	126	122					7																	19738032		2200	4298	6498	SO:0001819	synonymous_variant	221830			AK090846	CCDS34606.1	7p21.1	2010-08-05			ENSG00000105849	ENSG00000105849			18027	protein-coding gene	gene with protein product		608312				12438708	Standard	NM_001002926		Approved		uc003sup.1	Q3B726	OTTHUMG00000152497	ENST00000222567.5:c.924G>A	7.37:g.19738032C>T		Somatic		WXS	Illumina HiSeq		A0PJ45|B7Z724	Silent	SNP	ENST00000222567.5	37	CCDS34606.1																																																																																				0.378	TWISTNB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000326463.1			T	19738032	C	T	19738032	2	4	617	1	0	0	0	0	0	0	0	1	16796	912	32	2		2	TWISTNB	7	19738032	Silent	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	2375855	19738032	139400631	56	37714										
CHN2	1124	ucsc.edu;bcgsc.ca	37	chr7	29519827	29519827	+	Intron	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	agaactgctggccgtagcctTcggggtgaaggtgggtgtca	17	8	1	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr7:29519827T>C	ENST00000222792.6	+	7	1106				CHN2_ENST00000435288.2_Intron|CHN2_ENST00000409041.4_Missense_Mutation_p.F34S|CHN2_ENST00000546235.1_Intron|CHN2_ENST00000439711.2_Missense_Mutation_p.F34S|CHN2_ENST00000539389.1_Intron|CHN2_ENST00000495789.2_Intron|CHN2_ENST00000539406.1_Intron|CHN2_ENST00000421775.2_Missense_Mutation_p.F34S|CHN2_ENST00000424025.2_Missense_Mutation_p.F34S	NM_004067.2	NP_004058.1	P52757	CHIO_HUMAN	chimerin 2						positive regulation of GTPase activity (GO:0043547)|positive regulation of signal transduction (GO:0009967)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)	GTPase activator activity (GO:0005096)|metal ion binding (GO:0046872)|SH3/SH2 adaptor activity (GO:0005070)			breast(2)|endometrium(3)|large_intestine(2)|lung(12)|ovary(2)|urinary_tract(2)	23						GCCGTAGCCTTCGGGGTGAAG	0.537																																					Ovarian(1;44 48 13232 18918 31480)											0													119	128	125					7																	29519827		1327	2309	3636	SO:0001627	intron_variant	1124			L29126	CCDS5420.1	7p15.3	2013-02-14	2012-10-17		ENSG00000106069	ENSG00000106069		"Rho GTPase activating proteins", "SH2 domain containing"	1944	protein-coding gene	gene with protein product	"beta chimerin", "chimaerin 2"	602857	"chimerin (chimaerin) 2"			8175705	Standard	XM_005249602		Approved	ARHGAP3, RhoGAP3	uc003szz.3	P52757	OTTHUMG00000023063	ENST00000222792.6:c.577-68T>C	7.37:g.29519827T>C		Somatic		WXS	Illumina HiSeq		A4D1A2|B3VCF1|B3VCF2|B3VCF3|B3VCF7|B3VCG1|C9J7B0|E9PGE0|F8QPL9|Q2M203|Q75MM2	Missense_Mutation	SNP	ENST00000222792.6	37	CCDS5420.1	.	.	.	.	.	.	.	.	.	.	T	10.72	1.428851	0.25726	.	.	ENSG00000106069	ENST00000409041;ENST00000424025;ENST00000439711;ENST00000421775	T;T;T;T	0.74737	-0.36;0.05;-0.87;0.26	5.64	3.21	0.36854	.	.	.	.	.	T	0.59459	0.2195	N	0.22421	0.69	0.22424	N	0.99911	P;B;B;B;B;B;B;B	0.34909	0.475;0.072;0.0;0.013;0.017;0.021;0.003;0.135	B;B;B;B;B;B;B;B	0.26202	0.067;0.029;0.0;0.006;0.022;0.007;0.001;0.058	T	0.49652	-0.8917	9	0.87932	D	0	.	12.6683	0.56853	0.0:0.0:0.2607:0.7393	.	34;34;34;34;34;34;34;34	B3VCF1;B3VCF2;B3VCF5;B3VCF4;B3VCF7;B3VCF3;B3VCF6;E9PGE0	.;.;.;.;.;.;.;.	S	34	ENSP00000386849:F34S;ENSP00000406337:F34S;ENSP00000387425:F34S;ENSP00000394284:F34S	ENSP00000386849:F34S	F	+	2	0	CHN2	29486352	1.000000	0.71417	0.308000	0.25141	0.080000	0.17528	4.766000	0.62279	0.475000	0.27415	-0.299000	0.09455	TTC		0.537	CHN2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000214228.2	NM_004067		C	29519827	T	C	29519827	1	2	617	0	1	0	0	0	0	0	0	0	3365	1783	62	3		3	CHN2	7	29519827	Intron	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	9781795	29519827	129618836	57	37715										
PDE1C	5137	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	31877507	31877507	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tctggctgctgcagagcagtCttcattgctttgatttgttg	11	8	3	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr7:31877507C>T	ENST00000396191.1	-	10	1514	c.1059G>A	c.(1057-1059)aaG>aaA	p.K353K	PDE1C_ENST00000396182.2_Silent_p.K353K|PDE1C_ENST00000396184.3_Silent_p.K353K|PDE1C_ENST00000396193.1_Silent_p.K413K|PDE1C_ENST00000321453.7_Silent_p.K353K	NM_001191057.1	NP_001177986.1	Q14123	PDE1C_HUMAN	phosphodiesterase 1C, calmodulin-dependent 70kDa	353	Catalytic. {ECO:0000250}.				activation of phospholipase C activity (GO:0007202)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|metabolic process (GO:0008152)|neurotrophin TRK receptor signaling pathway (GO:0048011)|signal transduction (GO:0007165)	cytosol (GO:0005829)	calmodulin-dependent cyclic-nucleotide phosphodiesterase activity (GO:0004117)|metal ion binding (GO:0046872)			NS(1)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(38)|prostate(4)|skin(8)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	81			GBM - Glioblastoma multiforme(11;0.216)		Caffeine(DB00201)	GCAGAGCAGTCTTCATTGCTT	0.433																																																0													194	187	189					7																	31877507		2203	4300	6503	SO:0001819	synonymous_variant	5137			U40371	CCDS5437.1, CCDS55099.1, CCDS55100.1	7p15.1-p14.3	2008-05-15	2002-08-29		ENSG00000154678	ENSG00000154678	3.1.4.17	"Phosphodiesterases"	8776	protein-coding gene	gene with protein product		602987	"phosphodiesterase 1C, calmodulin-dependent (70kD)"			8557689	Standard	XM_005249769		Approved	Hcam3	uc003tco.2	Q14123	OTTHUMG00000023836	ENST00000396191.1:c.1059G>A	7.37:g.31877507C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KPC6|E9PE92|Q14124|Q8NB10	Silent	SNP	ENST00000396191.1	37	CCDS55099.1																																																																																				0.433	PDE1C-006	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000328458.1			T	31877507	C	T	31877507	2	4	617	1	0	0	0	0	0	0	0	1	11642	912	32	2		2	PDE1C	7	31877507	Silent	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	2357680	31877507	127261156	58	37716										
PCLO	27445	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	82579067	82579067	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ggatttgggtggggaaggagCcagctgtactgtggaatctg	18	5	1	0	rs370030206		TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr7:82579067C>A	ENST00000333891.9	-	6	11174	c.10837G>T	c.(10837-10839)Gct>Tct	p.A3613S	PCLO_ENST00000437081.1_Missense_Mutation_p.A333S|PCLO_ENST00000423517.2_Missense_Mutation_p.A3613S	NM_033026.5	NP_149015.2			piccolo presynaptic cytomatrix protein											breast(3)|central_nervous_system(3)|cervix(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(3)|kidney(19)|large_intestine(35)|lung(145)|ovary(7)|prostate(4)|upper_aerodigestive_tract(14)|urinary_tract(2)	259						GGGGAAGGAGCCAGCTGTACT	0.483																																																0								C	SER/ALA,SER/ALA	1,4111		0,1,2055	106	107	106		10837,10837	5.6	1	7		106	1,8435		0,1,4217	no	missense,missense	PCLO	NM_033026.5,NM_014510.2	99,99	0,2,6272	AA,AC,CC		0.0119,0.0243,0.0159	benign,benign	3613/5143,3613/4936	82579067	2,12546	2056	4218	6274	SO:0001583	missense	27445			AB011131	CCDS47630.1, CCDS47631.1	7q11.23-q21.3	2013-01-07	2013-01-07		ENSG00000186472	ENSG00000186472			13406	protein-coding gene	gene with protein product	"aczonin"	604918	"piccolo (presynaptic cytomatrix protein)"			8900486, 9628581	Standard	NM_014510		Approved	KIAA0559, DKFZp779G1236, ACZ	uc003uhx.2	Q9Y6V0	OTTHUMG00000154853	ENST00000333891.9:c.10837G>T	7.37:g.82579067C>A	ENSP00000334319:p.Ala3613Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000333891.9	37	CCDS47630.1	.	.	.	.	.	.	.	.	.	.	C	11.09	1.536177	0.27475	2.43E-4	1.19E-4	ENSG00000186472	ENST00000431819;ENST00000333891;ENST00000423517;ENST00000437081	T;T	0.15603	2.41;2.41	5.61	5.61	0.85477	.	.	.	.	.	T	0.19327	0.0464	L	0.33485	1.01	0.30557	N	0.764896	B;B;B	0.28419	0.008;0.211;0.211	B;B;B	0.29716	0.004;0.106;0.106	T	0.09443	-1.0674	9	0.87932	D	0	.	19.6465	0.95778	0.0:1.0:0.0:0.0	.	3544;3613;3613	Q9Y6V0;Q9Y6V0-5;Q9Y6V0-6	PCLO_HUMAN;.;.	S	3544;3613;3613;333	ENSP00000334319:A3613S;ENSP00000388393:A3613S	ENSP00000334319:A3613S	A	-	1	0	PCLO	82417003	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	4.155000	0.58131	2.642000	0.89623	0.650000	0.86243	GCT		0.483	PCLO-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337368.5	NM_014510		A	82579067	C	A	82579067	3	1	617	1	0	0	0	0	1	0	0	0	11590	739	26	4	4688	4	PCLO	7	82579067	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	50701560	82579067	76559596	59	37717										
MET	4233	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	116422117	116422117	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	aatatcttgcaagcaaaaagTttgtccacagagacttggct	8	8	1	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr7:116422117T>A	ENST00000318493.6	+	18	3839	c.3652T>A	c.(3652-3654)Ttt>Att	p.F1218I	MET_ENST00000539704.1_Missense_Mutation_p.F70I|MET_ENST00000397752.3_Missense_Mutation_p.F1200I			Q9NWH9	SLTM_HUMAN	MET proto-oncogene, receptor tyrosine kinase	0					apoptotic process (GO:0006915)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)	p.F1218V(1)		NS(10)|breast(4)|central_nervous_system(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|kidney(25)|large_intestine(8)|liver(3)|lung(70)|ovary(10)|pleura(2)|prostate(4)|skin(5)|stomach(6)|testis(1)|thyroid(4)|upper_aerodigestive_tract(64)|urinary_tract(3)	233	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			AAGCAAAAAGTTTGTCCACAG	0.393			Mis		"papillary renal, head-neck squamous cell "	papillary renal			Hereditary Papillary Renal Carcinoma (type 1)																														Dom	yes	Familial Papillary Renal Cancer	7	7q31	4233	met proto-oncogene (hepatocyte growth factor receptor)		E	1	Substitution - Missense(1)	kidney(1)											57	55	56					7																	116422117		1836	4092	5928	SO:0001583	missense	4233	Familial Cancer Database	HPRC, Hereditary Papillary Renal Cell Cancer	M35073	CCDS43636.1, CCDS47689.1	7q31	2014-09-17	2014-06-26		ENSG00000105976	ENSG00000105976	2.7.10.1		7029	protein-coding gene	gene with protein product	"hepatocyte growth factor receptor"	164860	"met proto-oncogene"			1846706, 1611909	Standard	NM_001127500		Approved	HGFR, RCCP2	uc010lkh.3	P08581	OTTHUMG00000023299	ENST00000318493.6:c.3652T>A	7.37:g.116422117T>A	ENSP00000317272:p.Phe1218Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5V8|B2RTX3|Q2VPK7|Q52MB3|Q658J7|Q6ZNF2|Q86TK6|Q9H7C3|Q9H8U9	Missense_Mutation	SNP	ENST00000318493.6	37	CCDS47689.1	.	.	.	.	.	.	.	.	.	.	T	26.4	4.735740	0.89482	.	.	ENSG00000105976	ENST00000397752;ENST00000318493;ENST00000539704	T;T;T	0.25414	1.8;1.8;1.8	5.87	5.87	0.94306	Serine-threonine/tyrosine-protein kinase (2);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.37128	0.0992	N	0.16862	0.45	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.35201	-0.9798	10	0.87932	D	0	.	16.5764	0.84681	0.0:0.0:0.0:1.0	.	1218;1200	P08581-2;P08581	.;MET_HUMAN	I	1200;1218;70	ENSP00000380860:F1200I;ENSP00000317272:F1218I;ENSP00000445020:F70I	ENSP00000317272:F1218I	F	+	1	0	MET	116209353	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.972000	0.88022	2.371000	0.80710	0.533000	0.62120	TTT		0.393	MET-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059620.3			A	116422117	T	A	116422117	3	1	617	1	0	0	0	0	1	0	0	0	9492	1725	60	5	3718	5	MET	7	116422117	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	33843050	116422117	42716546	60	37718										
CTTNBP2	83992	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	117431390	117431391	+	Frame_Shift_Ins	INS	-	-	C													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	cacagcctgcaggtgccacaINSgttaaatctatggatggttt							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr7:117431390_117431391insC	ENST00000160373.3	-	4	1950_1951	c.1859_1860insG	c.(1858-1860)actfs	p.T620fs	CTTNBP2_ENST00000487820.1_5'Flank	NM_033427.2	NP_219499.1	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	620					brain development (GO:0007420)	cell projection (GO:0042995)|synaptic vesicle (GO:0008021)				breast(3)|central_nervous_system(3)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(13)|lung(36)|ovary(4)|prostate(5)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	83	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		CAGGTGCCACAGTTAAATCTAT	0.559																																																0																																										SO:0001589	frameshift_variant	83992				CCDS5774.1	7q31	2013-01-10	2004-06-08	2004-06-09	ENSG00000077063	ENSG00000077063		"Ankyrin repeat domain containing"	15679	protein-coding gene	gene with protein product		609772	"cortactin binding protein 2"	CORTBP2, C7orf8		11707066	Standard	XM_005250635		Approved	KIAA1758, Orf4	uc003vjf.3	Q8WZ74	OTTHUMG00000022880	ENST00000160373.3:c.1859_1860insG	7.37:g.117431390_117431391insC	ENSP00000160373:p.Thr620fs	Somatic		WXS	Illumina HiSeq	Phase_I	O43389|Q7LG11|Q9C0A5	Frame_Shift_Ins	INS	ENST00000160373.3	37	CCDS5774.1																																																																																				0.559	CTTNBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059201.4	NM_033427		C	117431391	-	C	117431390	7	5	617	1	0	1	1	0	0	0	0	0	4047	175	7	0	3211	0	CTTNBP2	7	117431390	Frame_Shift_Ins	INS	-	TCGA-IZ-8196-01A-11D-2396-08	1009273	117431390	41707273	61	37719	294	2								
CTTNBP2	83992	hgsc.bcm.edu;bcgsc.ca	37	chr7	117431391	117431391	+	Frame_Shift_Del	DEL	G	G	-													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	cacagcctgcaggtgccacaGttaaatctatggatggtttt							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr7:117431391delG	ENST00000160373.3	-	4	1950	c.1859delC	c.(1858-1860)actfs	p.T620fs	CTTNBP2_ENST00000487820.1_5'Flank	NM_033427.2	NP_219499.1	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	620					brain development (GO:0007420)	cell projection (GO:0042995)|synaptic vesicle (GO:0008021)				breast(3)|central_nervous_system(3)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(13)|lung(36)|ovary(4)|prostate(5)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	83	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		AGGTGCCACAGTTAAATCTAT	0.562																																																0													65	62	63					7																	117431391		2203	4300	6503	SO:0001589	frameshift_variant	83992				CCDS5774.1	7q31	2013-01-10	2004-06-08	2004-06-09	ENSG00000077063	ENSG00000077063		"Ankyrin repeat domain containing"	15679	protein-coding gene	gene with protein product		609772	"cortactin binding protein 2"	CORTBP2, C7orf8		11707066	Standard	XM_005250635		Approved	KIAA1758, Orf4	uc003vjf.3	Q8WZ74	OTTHUMG00000022880	ENST00000160373.3:c.1859delC	7.37:g.117431391delG	ENSP00000160373:p.Thr620fs	Somatic		WXS	Illumina HiSeq	Phase_I	O43389|Q7LG11|Q9C0A5	Frame_Shift_Del	DEL	ENST00000160373.3	37	CCDS5774.1																																																																																				0.562	CTTNBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059201.4	NM_033427		-	117431391	G	-	117431391	7	5	617	1	0	1	0	1	0	0	0	0	4047	1029	36	0	3212	0	CTTNBP2	7	117431391	Frame_Shift_Del	DEL	G	TCGA-IZ-8196-01A-11D-2396-08	1	117431391	41707272	62	37720	294	2								
CHRNB3	1142	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	42565553	42565553	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gatgaaaagaatcagctgatGacaaccaatgtgtggctcaa	10	7	2	4			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr8:42565553G>A	ENST00000289957.2	+	3	353	c.225G>A	c.(223-225)atG>atA	p.M75I	RP11-412B14.1_ENST00000527318.1_RNA	NM_000749.3	NP_000740.1	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta 3 (neuronal)	75					cation transmembrane transport (GO:0098655)|cation transport (GO:0006812)|protein heterooligomerization (GO:0051291)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|synaptic transmission, cholinergic (GO:0007271)|transmembrane transport (GO:0055085)|transport (GO:0006810)	acetylcholine-gated channel complex (GO:0005892)|cell junction (GO:0030054)|integral component of membrane (GO:0016021)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	acetylcholine binding (GO:0042166)|acetylcholine-activated cation-selective channel activity (GO:0004889)|channel activity (GO:0015267)|drug binding (GO:0008144)			endometrium(4)|large_intestine(7)|lung(7)|ovary(2)|prostate(1)|skin(2)|urinary_tract(2)	25	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)		Galantamine(DB00674)|Nicotine(DB00184)	ATCAGCTGATGACAACCAATG	0.313																																																0													72	73	72					8																	42565553		2203	4300	6503	SO:0001583	missense	1142			U62438	CCDS6134.1	8p11.21	2012-02-11	2012-02-07		ENSG00000147432	ENSG00000147432		"Cholinergic receptors", "Ligand-gated ion channels / Acetylcholine receptors, nicotinic"	1963	protein-coding gene	gene with protein product	"acetylcholine receptor, nicotinic, beta 3 (neuronal)"	118508	"cholinergic receptor, nicotinic, beta polypeptide 3"			1505988	Standard	NM_000749		Approved		uc003xpi.1	Q05901	OTTHUMG00000165262	ENST00000289957.2:c.225G>A	8.37:g.42565553G>A	ENSP00000289957:p.Met75Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q15827	Missense_Mutation	SNP	ENST00000289957.2	37	CCDS6134.1	.	.	.	.	.	.	.	.	.	.	g	19.35	3.810373	0.70797	.	.	ENSG00000147432	ENST00000534391;ENST00000289957	T	0.78816	-1.21	6.03	6.03	0.97812	Neurotransmitter-gated ion-channel ligand-binding (3);	0.000000	0.85682	D	0.000000	T	0.76702	0.4024	L	0.33624	1.015	0.80722	D	1	P	0.36712	0.566	B	0.43990	0.438	T	0.77763	-0.2466	10	0.87932	D	0	.	18.1139	0.89545	0.0:0.0:1.0:0.0	.	75	Q05901	ACHB3_HUMAN	I	1;75	ENSP00000289957:M75I	ENSP00000289957:M75I	M	+	3	0	CHRNB3	42684710	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	8.752000	0.91632	2.876000	0.98609	0.644000	0.83932	ATG		0.313	CHRNB3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383055.1			A	42565553	G	A	42565553	3	1	617	1	0	0	0	0	1	0	0	0	3394	1290	45	2	235	2	CHRNB3	8	42565553	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08		42565553	103798469	63	37721										
RBM12B	389677	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	94747484	94747484	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tgagagtatttttgtgaaacAtgtccgggcctatctctctc	9	9	2	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr8:94747484A>G	ENST00000399300.2	-	3	1368	c.1155T>C	c.(1153-1155)caT>caC	p.H385H	RBM12B_ENST00000520961.1_Intron|RP11-10N23.4_ENST00000517998.1_RNA|RBM12B_ENST00000517700.1_Silent_p.H385H	NM_203390.2	NP_976324.2	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	385							nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(1)|kidney(1)|large_intestine(10)|lung(7)|ovary(2)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)	30	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			TTTGTGAAACATGTCCGGGCC	0.368																																																0													124	121	122					8																	94747484		1836	4085	5921	SO:0001819	synonymous_variant	389677				CCDS43755.1	8q22	2014-05-20			ENSG00000183808	ENSG00000183808		"RNA binding motif (RRM) containing"	32310	protein-coding gene	gene with protein product							Standard	NM_203390		Approved		uc003yfz.3	Q8IXT5	OTTHUMG00000164317	ENST00000399300.2:c.1155T>C	8.37:g.94747484A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8MYB5	Silent	SNP	ENST00000399300.2	37	CCDS43755.1																																																																																				0.368	RBM12B-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383603.1	NM_203390		G	94747484	A	G	94747484	2	3	617	1	0	0	0	0	0	0	0	1	13127	214	8	3		3	RBM12B	8	94747484	Silent	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	52181931	94747484	51616538	64	37722										
VPS13B	157680	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	100514063	100514063	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tactataaagctctttgctcCagatcctgaaaataaaggca	6	9	1	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr8:100514063C>T	ENST00000358544.2	+	26	4130	c.4019C>T	c.(4018-4020)cCa>cTa	p.P1340L	VPS13B_ENST00000395996.1_Missense_Mutation_p.P1340L|VPS13B_ENST00000357162.2_Missense_Mutation_p.P1340L	NM_017890.4	NP_060360.3	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13 homolog B (yeast)	1340					protein transport (GO:0015031)					NS(1)|autonomic_ganglia(1)|breast(6)|central_nervous_system(4)|cervix(3)|endometrium(11)|haematopoietic_and_lymphoid_tissue(4)|kidney(10)|large_intestine(37)|lung(78)|ovary(8)|pancreas(3)|prostate(5)|skin(9)|upper_aerodigestive_tract(4)|urinary_tract(9)	193	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CTCTTTGCTCCAGATCCTGAA	0.483																																					Colon(161;2205 2542 7338 31318)											0													132	135	134					8																	100514063		2203	4300	6503	SO:0001583	missense	157680			AJ608772	CCDS6280.1, CCDS6281.1, CCDS6283.1, CCDS47903.1	8q22-q23	2014-09-17	2006-12-19	2005-04-08	ENSG00000132549	ENSG00000132549			2183	protein-coding gene	gene with protein product		607817	"Cohen syndrome 1"	CHS1, COH1		7920642, 15498460	Standard	NM_181661		Approved		uc003yiv.4	Q7Z7G8	OTTHUMG00000140383	ENST00000358544.2:c.4019C>T	8.37:g.100514063C>T	ENSP00000351346:p.Pro1340Leu	Somatic		WXS	Illumina HiSeq	Phase_I	C9JD30|Q709C6|Q709C7|Q7Z7G4|Q7Z7G5|Q7Z7G6|Q7Z7G7|Q8NB77|Q9NWV1|Q9Y4E7	Missense_Mutation	SNP	ENST00000358544.2	37	CCDS6280.1	.	.	.	.	.	.	.	.	.	.	C	14.34	2.507355	0.44558	.	.	ENSG00000132549	ENST00000357162;ENST00000358544;ENST00000395996	T;T;T	0.45276	0.9;0.9;0.9	5.22	5.22	0.72569	.	0.215869	0.38548	N	0.001641	T	0.32315	0.0825	L	0.34521	1.04	0.53688	D	0.999974	B;B;B;B	0.09022	0.001;0.002;0.001;0.001	B;B;B;B	0.10450	0.005;0.004;0.004;0.002	T	0.06807	-1.0806	10	0.31617	T	0.26	.	12.4938	0.55916	0.0:0.9229:0.0:0.0771	.	1339;1340;1340;1340	Q7Z7G8-6;Q7Z7G8-2;Q7Z7G8;Q7Z7G8-3	.;.;VP13B_HUMAN;.	L	1340	ENSP00000349685:P1340L;ENSP00000351346:P1340L;ENSP00000379318:P1340L	ENSP00000349685:P1340L	P	+	2	0	VPS13B	100583239	1.000000	0.71417	1.000000	0.80357	0.886000	0.51366	5.508000	0.67006	2.589000	0.87451	0.557000	0.71058	CCA		0.483	VPS13B-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000277138.1	NM_184042		T	100514063	C	T	100514063	3	4	617	1	0	0	0	0	1	0	0	0	17202	594	21	2	4240	2	VPS13B	8	100514063	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	5766579	100514063	45849959	65	37723										
DGAT1	8694	ucsc.edu	37	chr8	145540219	145540219	+	Nonstop_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	caggccctcaggtgcagctcAggcctctgccgctggggcct	14	16	3	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr8:145540219A>T	ENST00000332324.4	-	17	1738	c.1465T>A	c.(1465-1467)Tga>Aga	p.*489R	DGAT1_ENST00000527438.1_5'UTR|GS1-393G12.12_ENST00000525023.1_RNA	NM_012079.4	NP_036211.2	O75907	DGAT1_HUMAN	diacylglycerol O-acyltransferase 1	0					acylglycerol acyl-chain remodeling (GO:0036155)|cellular lipid metabolic process (GO:0044255)|diacylglycerol metabolic process (GO:0046339)|glycerophospholipid biosynthetic process (GO:0046474)|lipid storage (GO:0019915)|long-chain fatty-acyl-CoA metabolic process (GO:0035336)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)|triglyceride metabolic process (GO:0006641)|very-low-density lipoprotein particle assembly (GO:0034379)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	diacylglycerol O-acyltransferase activity (GO:0004144)|retinol O-fatty-acyltransferase activity (GO:0050252)|transferase activity, transferring acyl groups (GO:0016746)			breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(1)|lung(4)|prostate(1)	9	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;7.67e-40)|all cancers(56;7.88e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			GGTGCAGCTCAGGCCTCTGCC	0.632																																																0													45	37	39					8																	145540219		2190	4290	6480	SO:0001578	stop_lost	8694			AF059202	CCDS6420.1	8q24.3	2014-05-06	2010-06-24	2001-11-09	ENSG00000185000	ENSG00000185000	2.3.1.20		2843	protein-coding gene	gene with protein product		604900	"diacylglycerol O-acyltransferase homolog 1 (mouse)"			9756920	Standard	NM_012079		Approved	ARGP1, DGAT	uc003zbv.3	O75907	OTTHUMG00000174606	ENST00000332324.4:c.1465T>A	8.37:g.145540219A>T		Somatic		WXS	Illumina HiSeq		B2RWQ2|D3DWL6|Q96BB8	Missense_Mutation	SNP	ENST00000332324.4	37	CCDS6420.1	.	.	.	.	.	.	.	.	.	.	A	11.14	1.549930	0.27652	.	.	ENSG00000185000	ENST00000332324	.	.	.	3.37	3.37	0.38596	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	8.464	0.32944	1.0:0.0:0.0:0.0	.	.	.	.	R	489	.	.	X	-	1	0	DGAT1	145511027	0.544000	0.26441	0.972000	0.41901	0.034000	0.12701	0.494000	0.22467	1.800000	0.52685	0.459000	0.35465	TGA		0.632	DGAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382059.3	NM_012079		T	145540219	A	T	145540219	4	4	617	1	0	0	0	0	0	0	0	0	4459	201	7	5	5	5	DGAT1	8	145540219	Nonstop_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	45026156	145540219	823803	66	37724										
C10orf18	54906	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	5788364	5788364	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	agccagtgatatgtcagagcTctgtgtacggcacccttgaa	11	10	2	3			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr10:5788364T>C	ENST00000328090.5	+	15	3605	c.2980T>C	c.(2980-2982)Tct>Cct	p.S994P	RP11-336A10.2_ENST00000411512.2_RNA	NM_017782.4	NP_060252	Q5VWN6	F208B_HUMAN	family with sequence similarity 208, member B	994																	ATGTCAGAGCTCTGTGTACGG	0.483																																																0													102	100	100					10																	5788364		2007	4170	6177	SO:0001583	missense	54906			BX649177	CCDS41485.1	10p15.1	2011-09-14	2011-09-14	2011-09-14	ENSG00000108021	ENSG00000108021			23484	protein-coding gene	gene with protein product			"chromosome 10 open reading frame 18"	C10orf18		12477932	Standard	NM_017782		Approved	FLJ20360, bA318E3.2, KIAA2006	uc001iij.3	Q5VWN6	OTTHUMG00000017605	ENST00000328090.5:c.2980T>C	10.37:g.5788364T>C	ENSP00000328426:p.Ser994Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q2YD91|Q5VWN5|Q6ZRQ8|Q8IVG4|Q9BUZ7|Q9H5J9|Q9H7A4|Q9H996|Q9NXA1	Missense_Mutation	SNP	ENST00000328090.5	37	CCDS41485.1	.	.	.	.	.	.	.	.	.	.	T	5.833	0.337978	0.11013	.	.	ENSG00000108021	ENST00000328090	D	0.97811	-4.55	5.37	2.97	0.34412	.	0.115838	0.39407	N	0.001362	D	0.94601	0.8260	L	0.43701	1.375	0.09310	N	1	B	0.34161	0.439	B	0.37422	0.249	D	0.88914	0.3361	10	0.48119	T	0.1	.	4.643	0.12558	0.1675:0.0913:0.0:0.7412	.	994	Q5VWN6	F208B_HUMAN	P	994	ENSP00000328426:S994P	ENSP00000328426:S994P	S	+	1	0	C10orf18	5828370	0.079000	0.21365	0.210000	0.23637	0.008000	0.06430	0.877000	0.28106	0.304000	0.22809	0.460000	0.39030	TCT		0.483	FAM208B-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046571.2	NM_017782		C	5788364	T	C	5788364	3	2	617	1	0	0	0	0	1	0	0	0	1598	1551	54	3	3026	3	C10orf18	10	5788364	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08		5788364	129746383	67	37725										
C1QL3	389941	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	16556595	16556595	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gtttcctccatgggctttccCgccatctaatttgatataga	7	11	1	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr10:16556595C>T	ENST00000298943.3	-	2	1639	c.700G>A	c.(700-702)Ggg>Agg	p.G234R		NM_001010908.1	NP_001010908.1	Q5VWW1	C1QL3_HUMAN	complement component 1, q subcomponent-like 3	234	C1q. {ECO:0000255|PROSITE- ProRule:PRU00368}.				regulation of synapse organization (GO:0050807)	collagen trimer (GO:0005581)|extracellular region (GO:0005576)		p.G234W(1)		breast(1)|endometrium(3)|kidney(1)|lung(4)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	13						TGGGCTTTCCCGCCATCTAAT	0.393																																																1	Substitution - Missense(1)	lung(1)											148	137	141					10																	16556595		2203	4300	6503	SO:0001583	missense	389941				CCDS31156.1	10p13	2012-03-26			ENSG00000165985	ENSG00000165985			19359	protein-coding gene	gene with protein product		615227				21378161	Standard	NM_001010908		Approved	K100, C1ql, C1QTNF13, CTRP13	uc001ioj.1	Q5VWW1	OTTHUMG00000017738	ENST00000298943.3:c.700G>A	10.37:g.16556595C>T	ENSP00000298943:p.Gly234Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJY4|A0PJY5	Missense_Mutation	SNP	ENST00000298943.3	37	CCDS31156.1	.	.	.	.	.	.	.	.	.	.	C	24.0	4.486586	0.84854	.	.	ENSG00000165985	ENST00000298943;ENST00000448557	T	0.25749	1.78	5.71	5.71	0.89125	Tumour necrosis factor-like (2);Complement C1q protein (3);	0.000000	0.85682	D	0.000000	T	0.52322	0.1727	M	0.68317	2.08	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.44907	-0.9297	10	0.48119	T	0.1	.	19.8415	0.96690	0.0:1.0:0.0:0.0	.	234	Q5VWW1	C1QL3_HUMAN	R	234;211	ENSP00000298943:G234R	ENSP00000298943:G234R	G	-	1	0	C1QL3	16596601	1.000000	0.71417	0.999000	0.59377	0.998000	0.95712	7.818000	0.86416	2.700000	0.92200	0.655000	0.94253	GGG		0.393	C1QL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047003.1	XM_372305		T	16556595	C	T	16556595	3	4	617	1	0	0	0	0	1	0	0	0	1962	652	23	1	71	1	C1QL3	10	16556595	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	10768231	16556595	118978152	68	37726										
ITGB1	3688	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	33201013	33201013	+	Frame_Shift_Del	DEL	G	G	-													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tcactgttaacttcatctgtGctgcattcacaatgtctacc							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr10:33201013delG	ENST00000396033.2	-	12	1644	c.1509delC	c.(1507-1509)agcfs	p.S503fs	ITGB1_ENST00000374956.4_Frame_Shift_Del_p.S503fs|ITGB1_ENST00000423113.1_Frame_Shift_Del_p.S503fs|ITGB1_ENST00000302278.3_Frame_Shift_Del_p.S503fs	NM_133376.2	NP_596867.1	P05556	ITB1_HUMAN	integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)	503	Cysteine-rich tandem repeats.				axon extension (GO:0048675)|axon guidance (GO:0007411)|B cell differentiation (GO:0030183)|blood coagulation (GO:0007596)|calcium-independent cell-matrix adhesion (GO:0007161)|cardiac muscle cell differentiation (GO:0055007)|cell fate specification (GO:0001708)|cell junction assembly (GO:0034329)|cell migration (GO:0016477)|cell migration involved in sprouting angiogenesis (GO:0002042)|cell-cell adhesion mediated by integrin (GO:0033631)|cell-matrix adhesion (GO:0007160)|cell-substrate adhesion (GO:0031589)|cellular calcium ion homeostasis (GO:0006874)|cellular defense response (GO:0006968)|cellular response to ionizing radiation (GO:0071479)|cellular response to mechanical stimulus (GO:0071260)|cellular response to vitamin D (GO:0071305)|extracellular matrix organization (GO:0030198)|formation of radial glial scaffolds (GO:0021943)|G1/S transition of mitotic cell cycle (GO:0000082)|germ cell migration (GO:0008354)|heterotypic cell-cell adhesion (GO:0034113)|homophilic cell adhesion (GO:0007156)|in utero embryonic development (GO:0001701)|integrin-mediated signaling pathway (GO:0007229)|leukocyte cell-cell adhesion (GO:0007159)|leukocyte migration (GO:0050900)|leukocyte tethering or rolling (GO:0050901)|maternal process involved in female pregnancy (GO:0060135)|mesodermal cell differentiation (GO:0048333)|negative regulation of anoikis (GO:2000811)|negative regulation of cell projection organization (GO:0031345)|negative regulation of cell proliferation (GO:0008285)|negative regulation of neuron differentiation (GO:0045665)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of endocytosis (GO:0045807)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of neuron projection development (GO:0010976)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|protein transport within lipid bilayer (GO:0032594)|regulation of cell cycle (GO:0051726)|regulation of collagen catabolic process (GO:0010710)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|regulation of immune response (GO:0050776)|response to activity (GO:0014823)|response to drug (GO:0042493)|response to gonadotropin (GO:0034698)|response to transforming growth factor beta (GO:0071559)|sarcomere organization (GO:0045214)|tight junction assembly (GO:0070830)|tissue homeostasis (GO:0001894)|viral process (GO:0016032)	acrosomal vesicle (GO:0001669)|basement membrane (GO:0005604)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|endosome (GO:0005768)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|integrin alpha1-beta1 complex (GO:0034665)|integrin alpha10-beta1 complex (GO:0034680)|integrin alpha11-beta1 complex (GO:0034681)|integrin alpha2-beta1 complex (GO:0034666)|integrin alpha3-beta1 complex (GO:0034667)|integrin alpha7-beta1 complex (GO:0034677)|integrin alpha8-beta1 complex (GO:0034678)|integrin alpha9-beta1 complex (GO:0034679)|integrin complex (GO:0008305)|intercalated disc (GO:0014704)|invadopodium membrane (GO:0071438)|membrane (GO:0016020)|membrane raft (GO:0045121)|myelin sheath abaxonal region (GO:0035748)|neuromuscular junction (GO:0031594)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|ruffle (GO:0001726)|ruffle membrane (GO:0032587)|sarcolemma (GO:0042383)	actin binding (GO:0003779)|cell adhesion molecule binding (GO:0050839)|collagen binding involved in cell-matrix adhesion (GO:0098639)|metal ion binding (GO:0046872)|peptide binding (GO:0042277)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|virus receptor activity (GO:0001618)			autonomic_ganglia(1)|breast(2)|endometrium(5)|kidney(2)|large_intestine(8)|lung(11)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	37		Ovarian(717;1.34e-05)|Breast(68;0.0634)			Antithymocyte globulin(DB00098)	CTTCATCTGTGCTGCATTCAC	0.413																																																0													143	120	128					10																	33201013		2203	4300	6503	SO:0001589	frameshift_variant	3688			BC020057	CCDS7174.1	10p11.2	2010-10-13			ENSG00000150093	ENSG00000150093		"CD molecules", "Integrins"	6153	protein-coding gene	gene with protein product		135630		FNRB, MSK12, MDF2		2524991	Standard	NM_033668		Approved	CD29, GPIIA	uc001iwt.4	P05556	OTTHUMG00000017928	ENST00000396033.2:c.1509delC	10.37:g.33201013delG	ENSP00000379350:p.Ser503fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6N2|D3DRX9|D3DRY3|D3DRY4|D3DRY5|P78466|P78467|Q13089|Q13090|Q13091|Q13212|Q14622|Q14647|Q29RW2|Q7Z3V1|Q8WUM6	Frame_Shift_Del	DEL	ENST00000396033.2	37	CCDS7174.1																																																																																				0.413	ITGB1-202	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000047496.1	NM_002211		-	33201013	G	-	33201013	7	5	617	1	0	1	0	1	0	0	0	0	7897	1310	46	0	1145	0	ITGB1	10	33201013	Frame_Shift_Del	DEL	G	TCGA-IZ-8196-01A-11D-2396-08	16644418	33201013	102333734	69	37727										
RUFY2	55680	broad.mit.edu;ucsc.edu	37	chr10	70152941	70152941	+	Missense_Mutation	SNP	T	T	A													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ataattcttttggtctaataTggcagcaatttgaacattcc							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr10:70152941T>A	ENST00000602465.1	-	7	704	c.604A>T	c.(604-606)Ata>Tta	p.I202L	RUFY2_ENST00000388768.2_Missense_Mutation_p.I237L|RUFY2_ENST00000399200.2_Missense_Mutation_p.I168L|RUFY2_ENST00000472394.2_5'UTR|RUFY2_ENST00000454950.2_Missense_Mutation_p.I144L			Q8WXA3	RUFY2_HUMAN	RUN and FYVE domain containing 2	251	RUN. {ECO:0000255|PROSITE- ProRule:PRU00178}.					nucleus (GO:0005634)	metal ion binding (GO:0046872)			NS(1)|endometrium(2)|kidney(3)|large_intestine(1)|lung(10)|ovary(1)|upper_aerodigestive_tract(2)	20						TGGTCTAATATGGCAGCAATT	0.264																																																0													53	54	53					10																	70152941		1792	4056	5848	SO:0001583	missense	55680			AF461266	CCDS41534.1, CCDS44414.1, CCDS60544.1	10q22.2	2007-01-29			ENSG00000204130	ENSG00000204130		"Zinc fingers, FYVE domain containing"	19761	protein-coding gene	gene with protein product		610328				11877430	Standard	NM_001042417		Approved	RABIP4R, FLJ10063, KIAA1537, ZFYVE13	uc001job.3	Q8WXA3	OTTHUMG00000018353	ENST00000602465.1:c.604A>T	10.37:g.70152941T>A	ENSP00000473462:p.Ile202Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXB2|B4DFR0|Q5TC48|Q8IW33|Q96P51|Q9P1Z1	Missense_Mutation	SNP	ENST00000602465.1	37		.	.	.	.	.	.	.	.	.	.	T	13.22	2.171217	0.38315	.	.	ENSG00000204130	ENST00000388768;ENST00000399200;ENST00000454950	T;T;T	0.51325	0.71;1.91;1.56	5.17	4.04	0.47022	.	0.512339	0.22301	N	0.061872	T	0.38295	0.1035	L	0.43923	1.385	0.58432	D	0.999997	B;B;B;B	0.24963	0.006;0.004;0.004;0.115	B;B;B;B	0.24974	0.007;0.009;0.009;0.057	T	0.12400	-1.0549	10	0.25751	T	0.34	.	10.6902	0.45867	0.0:0.0746:0.0:0.9254	.	144;202;168;237	B4DFR0;Q8WXA3-2;Q8WXA3-4;Q8WXA3-3	.;.;.;.	L	237;168;144	ENSP00000373420:I237L;ENSP00000382151:I168L;ENSP00000404986:I144L	ENSP00000373420:I237L	I	-	1	0	RUFY2	69822947	1.000000	0.71417	0.974000	0.42286	0.914000	0.54420	6.053000	0.71089	0.988000	0.38734	0.482000	0.46254	ATA		0.264	RUFY2-010	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000467567.1	NM_017987		A	70152941	T	A	70152941	3	1	617	1	0	0	0	0	1	0	0	0	13752	1464	51	5	1377	5	RUFY2	10	70152941	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	36951928	70152941	65381806	70	37728	295	2								
RUFY2	55680	broad.mit.edu;ucsc.edu	37	chr10	70152944	70152944	+	Missense_Mutation	SNP	C	C	T													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	attcttttggtctaatatggCagcaatttgaacattcctaa							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr10:70152944C>T	ENST00000602465.1	-	7	701	c.601G>A	c.(601-603)Gcc>Acc	p.A201T	RUFY2_ENST00000388768.2_Missense_Mutation_p.A236T|RUFY2_ENST00000399200.2_Missense_Mutation_p.A167T|RUFY2_ENST00000472394.2_5'UTR|RUFY2_ENST00000454950.2_Missense_Mutation_p.A143T			Q8WXA3	RUFY2_HUMAN	RUN and FYVE domain containing 2	250	RUN. {ECO:0000255|PROSITE- ProRule:PRU00178}.					nucleus (GO:0005634)	metal ion binding (GO:0046872)			NS(1)|endometrium(2)|kidney(3)|large_intestine(1)|lung(10)|ovary(1)|upper_aerodigestive_tract(2)	20						TCTAATATGGCAGCAATTTGA	0.264																																																0													55	55	55					10																	70152944		1792	4057	5849	SO:0001583	missense	55680			AF461266	CCDS41534.1, CCDS44414.1, CCDS60544.1	10q22.2	2007-01-29			ENSG00000204130	ENSG00000204130		"Zinc fingers, FYVE domain containing"	19761	protein-coding gene	gene with protein product		610328				11877430	Standard	NM_001042417		Approved	RABIP4R, FLJ10063, KIAA1537, ZFYVE13	uc001job.3	Q8WXA3	OTTHUMG00000018353	ENST00000602465.1:c.601G>A	10.37:g.70152944C>T	ENSP00000473462:p.Ala201Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXB2|B4DFR0|Q5TC48|Q8IW33|Q96P51|Q9P1Z1	Missense_Mutation	SNP	ENST00000602465.1	37		.	.	.	.	.	.	.	.	.	.	C	16.07	3.019397	0.54576	.	.	ENSG00000204130	ENST00000388768;ENST00000399200;ENST00000454950	T;T;T	0.54279	0.58;1.81;1.42	5.17	5.17	0.71159	.	0.353403	0.32459	N	0.006069	T	0.50360	0.1611	L	0.55481	1.735	0.58432	D	0.999999	B;B;B;P	0.38827	0.131;0.206;0.419;0.649	B;B;B;B	0.36666	0.039;0.059;0.168;0.23	T	0.49303	-0.8954	10	0.31617	T	0.26	.	18.8515	0.92232	0.0:1.0:0.0:0.0	.	143;201;167;236	B4DFR0;Q8WXA3-2;Q8WXA3-4;Q8WXA3-3	.;.;.;.	T	236;167;143	ENSP00000373420:A236T;ENSP00000382151:A167T;ENSP00000404986:A143T	ENSP00000373420:A236T	A	-	1	0	RUFY2	69822950	1.000000	0.71417	1.000000	0.80357	0.923000	0.55619	4.829000	0.62737	2.671000	0.90904	0.591000	0.81541	GCC		0.264	RUFY2-010	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000467567.1	NM_017987		T	70152944	C	T	70152944	3	4	617	1	0	0	0	0	1	0	0	0	13752	710	25	2	1380	2	RUFY2	10	70152944	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	3	70152944	65381803	71	37729	295	2								
NOLC1	9221	hgsc.bcm.edu	37	chr10	103917063	103917063	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gaggaggaggaggaagttcaAgggcctccagcaaagaaggc	17	7	1	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr10:103917063A>G	ENST00000605788.1	+	3	529	c.294A>G	c.(292-294)caA>caG	p.Q98Q	NOLC1_ENST00000405356.1_Silent_p.Q98Q|NOLC1_ENST00000488254.2_Silent_p.Q99Q|NOLC1_ENST00000603742.1_Intron	NM_001284389.1|NM_004741.3	NP_001271318.1|NP_004732.2	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	98	11 X 12 AA approximate repeats of an acidic serine cluster.				cell cycle (GO:0007049)|mitotic nuclear division (GO:0007067)|nucleolus organization (GO:0007000)|rRNA processing (GO:0006364)	Cajal body (GO:0015030)|cytoplasm (GO:0005737)|nucleolus (GO:0005730)	ATP binding (GO:0005524)|GTP binding (GO:0005525)|poly(A) RNA binding (GO:0044822)			breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(12)|ovary(1)|upper_aerodigestive_tract(1)	31		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		AGGAAGTTCAAGGGCCTCCAG	0.512																																																0													76	72	74					10																	103917063		2203	4300	6503	SO:0001819	synonymous_variant	9221			Z34289	CCDS7530.1, CCDS65925.1, CCDS65926.1	10q24.32	2008-08-01			ENSG00000166197	ENSG00000166197			15608	protein-coding gene	gene with protein product		602394				7657714, 10567578	Standard	XM_005270273		Approved	P130, KIAA0035, NOPP140, NOPP130	uc001kuo.2	Q14978	OTTHUMG00000018944	ENST00000605788.1:c.294A>G	10.37:g.103917063A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q15030|Q5VV70|Q9BUV3	Silent	SNP	ENST00000605788.1	37	CCDS7530.1																																																																																				0.512	NOLC1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000050012.2	NM_004741		G	103917063	A	G	103917063	2	3	617	1	0	0	0	0	0	0	0	1	10536	69	3	3		3	NOLC1	10	103917063	Silent	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	33764119	103917063	31617684	72	37730										
LRDD	55367	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	803185	803185	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gctactcacccagagaggctGggaggctctgcagccggttg	15	12	2	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr11:803185G>T	ENST00000347755.5	-	3	839	c.698C>A	c.(697-699)cCa>cAa	p.P233Q	PIDD_ENST00000534649.1_5'Flank|PIDD_ENST00000411829.2_Missense_Mutation_p.P233Q	NM_145886.3|NM_145887.3	NP_665893.2|NP_665894.2																					CAGAGAGGCTGGGAGGCTCTG	0.657																																																0													17	22	20					11																	803185		2195	4277	6472	SO:0001583	missense	55367																														ENST00000347755.5:c.698C>A	11.37:g.803185G>T	ENSP00000337797:p.Pro233Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000347755.5	37	CCDS7716.1	.	.	.	.	.	.	.	.	.	.	G	23.3	4.400654	0.83120	.	.	ENSG00000177595	ENST00000411829;ENST00000347755	T;T	0.26518	1.73;1.73	4.55	4.55	0.56014	.	0.151531	0.45126	D	0.000399	T	0.66208	0.2766	H	0.96777	3.88	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;0.997;1.0	T	0.80084	-0.1530	10	0.87932	D	0	.	17.4818	0.87674	0.0:0.0:1.0:0.0	.	233;87;233	Q9HB75;Q9HB75-3;Q9HB75-2	PIDD_HUMAN;.;.	Q	233	ENSP00000416801:P233Q;ENSP00000337797:P233Q	ENSP00000337797:P233Q	P	-	2	0	PIDD	793185	1.000000	0.71417	0.936000	0.37596	0.623000	0.37688	5.191000	0.65110	2.369000	0.80426	0.555000	0.69702	CCA		0.657	PIDD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257103.1			T	803185	G	T	803185	3	4	617	1	0	0	0	0	1	0	0	0	8943	1348	47	4	2090	4	LRDD	11	803185	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08		803185	134203331	73	37731										
MUC2	4583	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	1097183	1097183	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	catggtgtgtcggccacaggTgcaggtgaacaggcaggcgg	18	9	0	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr11:1097183T>G	ENST00000441003.2	+	35	6626	c.6599T>G	c.(6598-6600)gTg>gGg	p.V2200G	MUC2_ENST00000361558.6_Splice_Site_p.V338G	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	4562					cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	CGGCCACAGGTGCAGGTGAAC	0.627																																																0													53	68	63					11																	1097183		2181	4273	6454	SO:0001630	splice_region_variant	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.6598-1T>G	11.37:g.1097183T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	t	14.27	2.484198	0.44147	.	.	ENSG00000198788	ENST00000441003;ENST00000361558	T;T	0.69561	-0.41;-0.41	3.72	3.72	0.42706	.	.	.	.	.	T	0.80884	0.4709	M	0.81239	2.535	0.53005	D	0.999963	D	0.89917	1.0	D	0.75484	0.986	D	0.83792	0.0231	9	0.87932	D	0	.	12.583	0.56401	0.0:0.0:0.0:1.0	.	2200	E7EUV1	.	G	2200;338	ENSP00000415183:V2200G;ENSP00000354885:V338G	ENSP00000354885:V338G	V	+	2	0	MUC2	1087183	1.000000	0.71417	0.986000	0.45419	0.327000	0.28475	4.611000	0.61162	1.555000	0.49500	0.459000	0.35465	GTG		0.627	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457	Missense_Mutation	G	1097183	T	G	1097183	5	3	617	1	0	0	0	0	0	0	1	0	9982	1710	59	5	6729	5	MUC2	11	1097183	Splice_Site	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	293998	1097183	133909333	74	37732										
TPP1	1200	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	6638089	6638089	+	Splice_Site	DEL	A	A	-													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	catggaaatactgctccaggAactatggagggagtcagagc							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr11:6638089delA	ENST00000299427.6	-	7	749	c.689delT	c.(688-690)ttc>tc	p.F230fs	RP11-732A19.9_ENST00000545572.1_RNA|TPP1_ENST00000534644.1_5'Flank|TPP1_ENST00000533371.1_5'UTR	NM_000391.3	NP_000382.3	P49638	TTPA_HUMAN	tripeptidyl peptidase I	0	CRAL-TRIO. {ECO:0000255|PROSITE- ProRule:PRU00056}.				embryonic placenta development (GO:0001892)|intermembrane transport (GO:0046909)|intracellular pH reduction (GO:0051452)|lipid metabolic process (GO:0006629)|negative regulation of cell death (GO:0060548)|negative regulation of establishment of blood-brain barrier (GO:0090212)|response to nutrient (GO:0007584)|response to pH (GO:0009268)|response to toxic substance (GO:0009636)|transport (GO:0006810)|vitamin E metabolic process (GO:0042360)|vitamin transport (GO:0051180)	cytosol (GO:0005829)|late endosome (GO:0005770)	phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|transporter activity (GO:0005215)|vitamin E binding (GO:0008431)			breast(2)|central_nervous_system(1)|endometrium(2)|large_intestine(6)|lung(9)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	23		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;3.45e-09)|BRCA - Breast invasive adenocarcinoma(625;0.131)	Vitamin E(DB00163)	CTGCTCCAGGAACTATGGAGG	0.567																																																0													84	82	83					11																	6638089		2201	4296	6497	SO:0001630	splice_region_variant	1200			AF017456	CCDS7770.1	11p15.4	2014-09-17	2004-12-09	2004-12-10	ENSG00000166340	ENSG00000166340			2073	protein-coding gene	gene with protein product	"TPP I"	607998	"ceroid-lipofuscinosis, neuronal 2, late infantile (Jansky-Bielschowsky disease)", "spinocerebellar ataxia, autosomal recessive 7"	CLN2, SCAR7		9653647, 23418007	Standard	NM_000391		Approved		uc001mel.1	O14773	OTTHUMG00000133404	ENST00000299427.6:c.688-1T>-	11.37:g.6638089delA		Somatic		WXS	Illumina HiSeq	Phase_I	Q71V64	Frame_Shift_Del	DEL	ENST00000299427.6	37	CCDS7770.1																																																																																				0.567	TPP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257261.2		Frame_Shift_Del	-	6638089	A	-	6638089	8	5	617	1	0	1	0	1	0	0	1	0	16423	260	9	0	1030	0	TPP1	11	6638089	Splice_Site	DEL	A	TCGA-IZ-8196-01A-11D-2396-08	5540906	6638089	128368427	75	37733										
API5	8539	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	43342441	43342441	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tcttcctcgagtggcagataTactaacgcaacttttgcaga	8	10	1	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr11:43342441T>C	ENST00000531273.1	+	3	441	c.302T>C	c.(301-303)aTa>aCa	p.I101T	API5_ENST00000378852.3_Missense_Mutation_p.I101T|API5_ENST00000455725.2_Missense_Mutation_p.I90T|API5_ENST00000420461.2_Missense_Mutation_p.I47T|API5_ENST00000534695.1_Intron|API5_ENST00000534600.1_Missense_Mutation_p.I101T			Q9BZZ5	API5_HUMAN	apoptosis inhibitor 5	101	ARM-like and Heat-like helical repeats.				apoptotic process (GO:0006915)|negative regulation of apoptotic process (GO:0043066)|negative regulation of fibroblast apoptotic process (GO:2000270)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)	fibroblast growth factor binding (GO:0017134)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(2)|lung(8)|ovary(1)|prostate(2)|urinary_tract(1)	20						GTGGCAGATATACTAACGCAA	0.343																																					Pancreas(1;98 122 5625 20895 49453)											0													83	85	84					11																	43342441		2203	4300	6503	SO:0001583	missense	8539			U83857	CCDS31465.1, CCDS44572.1, CCDS44573.1	11p12	2010-09-30			ENSG00000166181	ENSG00000166181			594	protein-coding gene	gene with protein product	"API5-like 1", "fibroblast growth factor 2-interacting factor 2", "migration-inducing protein MIG8"	609774				9307294	Standard	NR_024625		Approved	AAC-11, API5L1, AAC11	uc010rfh.1	Q9BZZ5	OTTHUMG00000166395	ENST00000531273.1:c.302T>C	11.37:g.43342441T>C	ENSP00000431391:p.Ile101Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DGR0|B4DRJ2|D3DR21|O15441|Q9Y4J7	Missense_Mutation	SNP	ENST00000531273.1	37	CCDS44572.1	.	.	.	.	.	.	.	.	.	.	T	20.3	3.975544	0.74360	.	.	ENSG00000166181	ENST00000455725;ENST00000531273;ENST00000420461;ENST00000378852;ENST00000534600	T;T;T;T;T	0.20738	2.05;2.05;2.05;2.05;2.05	6.13	6.13	0.99165	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.36220	0.0959	L	0.45422	1.42	0.58432	D	0.999999	P;P;D;P	0.61697	0.951;0.92;0.99;0.952	P;P;P;P	0.61722	0.675;0.551;0.893;0.6	T	0.01570	-1.1322	10	0.34782	T	0.22	-2.8866	16.4795	0.84153	0.0:0.0:0.0:1.0	.	47;101;90;101	B4DGR0;Q9BZZ5;B4E283;Q9BZZ5-2	.;API5_HUMAN;.;.	T	90;101;47;101;101	ENSP00000399341:I90T;ENSP00000431391:I101T;ENSP00000402540:I47T;ENSP00000368129:I101T;ENSP00000434462:I101T	ENSP00000368129:I101T	I	+	2	0	API5	43299017	1.000000	0.71417	1.000000	0.80357	0.856000	0.48823	7.981000	0.88123	2.367000	0.80283	0.529000	0.55759	ATA		0.343	API5-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000389545.1	NM_006595		C	43342441	T	C	43342441	3	2	617	1	0	0	0	0	1	0	0	0	773	1406	49	3	312	3	API5	11	43342441	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	36704352	43342441	91664075	76	37734										
OR8I2	120586	hgsc.bcm.edu;broad.mit.edu	37	chr11	55861616	55861616	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ggtggcatctgtattctataCgattgtcattcccatgctga	9	9	3	1	rs140206966	byFrequency	TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr11:55861616C>T	ENST00000302124.2	+	1	864	c.833C>T	c.(832-834)aCg>aTg	p.T278M		NM_001003750.1	NP_001003750.1	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I, member 2	278						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.T278M(1)		NS(1)|breast(2)|endometrium(16)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(4)|lung(24)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	53	Esophageal squamous(21;0.00693)					GTATTCTATACGATTGTCATT	0.408																																																1	Substitution - Missense(1)	endometrium(1)											62	61	62					11																	55861616		2201	4296	6497	SO:0001583	missense	120586			AB065656	CCDS31517.1	11q11	2012-08-09			ENSG00000172154	ENSG00000172154		"GPCR / Class A : Olfactory receptors"	15310	protein-coding gene	gene with protein product							Standard	NM_001003750		Approved		uc010rix.2	Q8N0Y5	OTTHUMG00000166831	ENST00000302124.2:c.833C>T	11.37:g.55861616C>T	ENSP00000303864:p.Thr278Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNN4|Q6IFC0|Q96RC5	Missense_Mutation	SNP	ENST00000302124.2	37	CCDS31517.1	.	.	.	.	.	.	.	.	.	.	C	12.23	1.876897	0.33162	.	.	ENSG00000172154	ENST00000302124	T	0.00262	8.4	4.33	4.33	0.51752	GPCR, rhodopsin-like superfamily (1);	0.000000	0.41605	U	0.000856	T	0.00608	0.0020	M	0.83118	2.625	0.32279	N	0.567785	D	0.89917	1.0	D	0.70935	0.971	T	0.50988	-0.8762	10	0.87932	D	0	-16.3432	15.8041	0.78481	0.0:1.0:0.0:0.0	.	278	Q8N0Y5	OR8I2_HUMAN	M	278	ENSP00000303864:T278M	ENSP00000303864:T278M	T	+	2	0	OR8I2	55618192	0.000000	0.05858	0.985000	0.45067	0.054000	0.15201	0.638000	0.24674	2.120000	0.65058	0.447000	0.29281	ACG		0.408	OR8I2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001003750		T	55861616	C	T	55861616	3	4	617	1	0	0	0	0	1	0	0	0	11247	536	19	1	835	1	OR8I2	11	55861616	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	12519175	55861616	79144900	77	37735										
HNRNPUL2	221092	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	62488862	62488862	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	aactaaaaggtctcggctttTggggtccatctctggctcct	10	11	2	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr11:62488862T>C	ENST00000301785.5	-	9	1708	c.1516A>G	c.(1516-1518)Aaa>Gaa	p.K506E	HNRNPUL2-BSCL2_ENST00000403734.2_Missense_Mutation_p.K506E	NM_001079559.2	NP_001073027.1	Q1KMD3	HNRL2_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 2	506						membrane (GO:0016020)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			NS(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(10)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	20						TCTCGGCTTTTGGGGTCCATC	0.428																																																0													153	158	157					11																	62488862		1846	4094	5940	SO:0001583	missense	221092				CCDS41659.1	11q12	2013-07-16		2008-04-18	ENSG00000214753	ENSG00000214753			25451	protein-coding gene	gene with protein product				HNRPUL2			Standard	NM_001079559		Approved	DKFZp762N1910	uc001nuw.3	Q1KMD3	OTTHUMG00000167773	ENST00000301785.5:c.1516A>G	11.37:g.62488862T>C	ENSP00000301785:p.Lys506Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3B3	Missense_Mutation	SNP	ENST00000301785.5	37	CCDS41659.1	.	.	.	.	.	.	.	.	.	.	T	18.84	3.709456	0.68730	.	.	ENSG00000214753	ENST00000301785	T	0.40756	1.02	5.99	5.99	0.97316	Zeta toxin domain (1);	0.158288	0.64402	D	0.000020	T	0.40719	0.1128	N	0.25286	0.73	0.35130	D	0.767875	P	0.51791	0.948	P	0.51866	0.682	T	0.49934	-0.8886	10	0.30854	T	0.27	-16.7044	14.4463	0.67352	0.0:0.0:0.0:1.0	.	506	Q1KMD3	HNRL2_HUMAN	E	506	ENSP00000301785:K506E	ENSP00000301785:K506E	K	-	1	0	HNRNPUL2	62245438	0.897000	0.30589	1.000000	0.80357	0.995000	0.86356	1.144000	0.31565	2.291000	0.77112	0.533000	0.62120	AAA		0.428	HNRNPUL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396208.2	XM_495877		C	62488862	T	C	62488862	3	2	617	1	0	0	0	0	1	0	0	0	7282	1821	63	3	751	3	HNRNPUL2	11	62488862	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	6627246	62488862	72517654	78	37736										
PCF11	51585	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	82877727	82877727	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	agttccaagtctgccaaaagAtggaaatctggttgggaaga	12	6	2	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr11:82877727A>G	ENST00000298281.4	+	5	2240	c.1788A>G	c.(1786-1788)agA>agG	p.R596R		NM_015885.3	NP_056969.2	O94913	PCF11_HUMAN	PCF11 cleavage and polyadenylation factor subunit	596					gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA cleavage (GO:0006379)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	mRNA cleavage factor complex (GO:0005849)|nucleoplasm (GO:0005654)				cervix(1)|endometrium(3)|kidney(4)|large_intestine(1)|lung(22)|ovary(1)|urinary_tract(1)	33						CTGCCAAAAGATGGAAATCTG	0.343																																																0													74	75	75					11																	82877727		1755	3854	5609	SO:0001819	synonymous_variant	51585			AB020631	CCDS44689.1	11q13	2013-07-02	2013-07-02		ENSG00000165494	ENSG00000165494			30097	protein-coding gene	gene with protein product		608876	"PCF11, cleavage and polyadenylation factor II subunit, homolog (S. cerevisiae)", "PCF11, cleavage and polyadenylation factor subunit, homolog (S. cerevisiae)"			11060040	Standard	NM_015885		Approved	KIAA0824	uc001ozx.4	O94913	OTTHUMG00000167031	ENST00000298281.4:c.1788A>G	11.37:g.82877727A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6H8W7|O43671|Q6P0X8	Silent	SNP	ENST00000298281.4	37	CCDS44689.1																																																																																				0.343	PCF11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392548.2	NM_015885		G	82877727	A	G	82877727	2	3	617	1	0	0	0	0	0	0	0	1	11580	330	12	3		3	PCF11	11	82877727	Silent	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	20388865	82877727	52128789	79	37737										
MAML2	84441	hgsc.bcm.edu	37	chr11	95825424	95825424	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ctgctgctgctgttgctgctGttgctgttgggtgtagtgta	15	7	0	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr11:95825424G>T	ENST00000524717.1	-	2	3055	c.1771C>A	c.(1771-1773)Cag>Aag	p.Q591K		NM_032427.1	NP_115803.1	Q8IZL2	MAML2_HUMAN	mastermind-like 2 (Drosophila)	591					gene expression (GO:0010467)|Notch signaling pathway (GO:0007219)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription initiation from RNA polymerase II promoter (GO:0006367)	Golgi apparatus (GO:0005794)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)		CRTC3/MAML2(26)|CRTC1/MAML2(516)	breast(2)|cervix(1)|endometrium(11)|kidney(4)|large_intestine(8)|lung(12)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	43		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				tgttgctgctgttgctgTTGG	0.517			T	"MECT1, CRTC3"	salivary gland mucoepidermoid																																		Dom	yes		11	11q22-q23	84441	mastermind-like 2 (Drosophila)		E	0													53	58	56					11																	95825424		2172	4257	6429	SO:0001583	missense	84441			AB058722	CCDS44714.1	11q	2008-02-05	2001-11-28		ENSG00000184384	ENSG00000184384			16259	protein-coding gene	gene with protein product		607537	"mastermind (Drosophila)-like 2"			12370315, 12386158	Standard	NM_032427		Approved	KIAA1819, MAM3	uc001pfw.1	Q8IZL2	OTTHUMG00000167677	ENST00000524717.1:c.1771C>A	11.37:g.95825424G>T	ENSP00000434552:p.Gln591Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A7MD26|Q6AI23|Q6Y3A3|Q8IUL3|Q96JK6	Missense_Mutation	SNP	ENST00000524717.1	37	CCDS44714.1	.	.	.	.	.	.	.	.	.	.	G	6.985	0.551899	0.13374	.	.	ENSG00000184384	ENST00000524717;ENST00000440572	T;T	0.75154	-0.91;-0.91	4.16	4.16	0.48862	.	0.641420	0.14538	N	0.313463	T	0.65719	0.2718	L	0.48642	1.525	0.36744	D	0.882387	B	0.23316	0.083	B	0.18871	0.023	T	0.62695	-0.6800	10	0.09084	T	0.74	-0.3554	14.8068	0.69962	0.0:0.0:1.0:0.0	.	591	Q8IZL2	MAML2_HUMAN	K	591	ENSP00000434552:Q591K;ENSP00000412394:Q591K	ENSP00000412394:Q591K	Q	-	1	0	MAML2	95465072	1.000000	0.71417	0.944000	0.38274	0.017000	0.09413	3.476000	0.53143	2.151000	0.67156	0.555000	0.69702	CAG		0.517	MAML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395540.1			T	95825424	G	T	95825424	3	4	617	1	0	0	0	0	1	0	0	0	9213	1386	48	4	1715	4	MAML2	11	95825424	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	12947697	95825424	39181092	80	37738										
NCAM1	4684	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	113078684	113078684	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	atctgcattgctgagaacaaGgctggcgagcaggatgcgac	14	9	1	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr11:113078684G>C	ENST00000533760.1	+	7	1121	c.522G>C	c.(520-522)aaG>aaC	p.K174N	NCAM1_ENST00000316851.7_Missense_Mutation_p.K282N|NCAM1_ENST00000397957.4_3'UTR|NCAM1_ENST00000401611.2_Missense_Mutation_p.K291N	NM_001242608.1	NP_001229537.1	P13591	NCAM1_HUMAN	neural cell adhesion molecule 1	292	Ig-like C2-type 2.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|cytokine-mediated signaling pathway (GO:0019221)|extracellular matrix organization (GO:0030198)|interferon-gamma-mediated signaling pathway (GO:0060333)	anchored component of membrane (GO:0031225)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	identical protein binding (GO:0042802)			breast(1)|endometrium(3)|kidney(1)|large_intestine(11)|lung(27)|ovary(3)|prostate(2)|upper_aerodigestive_tract(1)	49		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)		CTGAGAACAAGGCTGGCGAGC	0.532																																																0													61	61	61					11																	113078684		2078	4216	6294	SO:0001583	missense	4684				CCDS73384.1, CCDS73385.1, CCDS73386.1, CCDS73387.1, CCDS73388.1	11q23.2	2013-02-11			ENSG00000149294	ENSG00000149294		"CD molecules", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	7656	protein-coding gene	gene with protein product		116930					Standard	NM_000615		Approved	NCAM, CD56	uc021qqp.1	P13591	OTTHUMG00000167196	ENST00000533760.1:c.522G>C	11.37:g.113078684G>C	ENSP00000473281:p.Lys174Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8T8|P13592|P13593|Q05C58|Q15829|Q16180|Q16209|Q59FL7|Q86X47|Q96CJ3	Missense_Mutation	SNP	ENST00000533760.1	37		.	.	.	.	.	.	.	.	.	.	G	18.41	3.617792	0.66787	.	.	ENSG00000149294	ENST00000531044;ENST00000401611;ENST00000316851	T;T	0.68181	-0.31;-0.31	5.57	3.47	0.39725	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.041493	0.85682	D	0.000000	T	0.78400	0.4277	.	.	.	0.80722	D	1	D;D;D;D;D	0.76494	0.999;0.997;0.995;0.994;0.983	D;D;D;D;D	0.71870	0.963;0.917;0.975;0.952;0.925	T	0.79697	-0.1695	9	0.87932	D	0	-16.9107	8.6894	0.34258	0.2821:0.0:0.7179:0.0	.	292;292;292;292;292	P13591-5;P13591-1;P13591;P13591-3;P13591-6	.;.;NCAM1_HUMAN;.;.	N	174;291;282	ENSP00000384055:K291N;ENSP00000318472:K282N	ENSP00000318472:K282N	K	+	3	2	NCAM1	112583894	1.000000	0.71417	1.000000	0.80357	0.714000	0.41099	3.113000	0.50376	1.347000	0.45714	0.655000	0.94253	AAG		0.532	NCAM1-003	NOVEL	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000394068.2	NM_000615		C	113078684	G	C	113078684	3	2	617	1	0	0	0	0	1	0	0	0	10209	991	35	4	903	4	NCAM1	11	113078684	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	17253260	113078684	21927832	81	37739										
C3AR1	719	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	8211578	8211578	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gggagtttctgggtcagtaaGcaatgacaggactccaaaaa	12	7	2	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr12:8211578G>A	ENST00000307637.4	-	2	1407	c.1204C>T	c.(1204-1206)Ctt>Ttt	p.L402F		NM_004054.2	NP_004045.1	Q16581	C3AR_HUMAN	complement component 3a receptor 1	402					blood circulation (GO:0008015)|chemotaxis (GO:0006935)|complement receptor mediated signaling pathway (GO:0002430)|G-protein coupled receptor signaling pathway (GO:0007186)|inflammatory response (GO:0006954)|metabolic process (GO:0008152)|positive regulation of angiogenesis (GO:0045766)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of macrophage chemotaxis (GO:0010759)|positive regulation of neutrophil chemotaxis (GO:0090023)|positive regulation vascular endothelial growth factor production (GO:0010575)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	C3a anaphylatoxin receptor activity (GO:0004943)|complement component C3a receptor activity (GO:0004876)|G-protein coupled receptor activity (GO:0004930)|phosphatidylinositol phospholipase C activity (GO:0004435)			breast(1)|kidney(1)|large_intestine(7)|lung(10)|ovary(1)	20				Kidney(36;0.0893)		GGGTCAGTAAGCAATGACAGG	0.483																																																0													73	68	70					12																	8211578		2203	4300	6503	SO:0001583	missense	719			U28488	CCDS8588.1	12p13.31	2012-08-10				ENSG00000171860		"Complement system", "GPCR / Class A : Complement component receptors"	1319	protein-coding gene	gene with protein product		605246				8605247	Standard	NM_004054		Approved	C3AR, AZ3B	uc001qtv.1	Q16581		ENST00000307637.4:c.1204C>T	12.37:g.8211578G>A	ENSP00000302079:p.Leu402Phe	Somatic		WXS	Illumina HiSeq	Phase_I	O43771|Q92868	Missense_Mutation	SNP	ENST00000307637.4	37	CCDS8588.1	.	.	.	.	.	.	.	.	.	.	G	0.033	-1.321727	0.01320	.	.	ENSG00000171860	ENST00000307637	T	0.37235	1.21	5.26	0.103	0.14526	GPCR, rhodopsin-like superfamily (1);	1.231120	0.05729	N	0.599303	T	0.12518	0.0304	N	0.01800	-0.715	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.23332	-1.0191	10	0.15499	T	0.54	.	3.1161	0.06375	0.4472:0.0:0.2539:0.2989	.	402	Q16581	C3AR_HUMAN	F	402	ENSP00000302079:L402F	ENSP00000302079:L402F	L	-	1	0	C3AR1	8102845	0.000000	0.05858	0.002000	0.10522	0.001000	0.01503	-0.859000	0.04277	0.118000	0.18165	-0.238000	0.12139	CTT		0.483	C3AR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400254.1			A	8211578	G	A	8211578	3	1	617	1	0	0	0	0	1	0	0	0	2207	971	34	2	248	2	C3AR1	12	8211578	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08		8211578	125640317	82	37740										
KLRC1	3821	hgsc.bcm.edu	37	chr12	10602537	10602537	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ctgagttcttgtattcagggAagaattgttgtgcctctgta	11	6	3	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr12:10602537A>G	ENST00000359151.3	-	4	494	c.313T>C	c.(313-315)Tcc>Ccc	p.S105P	KLRC1_ENST00000544822.1_Missense_Mutation_p.S105P|KLRC1_ENST00000536188.1_Missense_Mutation_p.S105P|KLRC1_ENST00000347831.5_Intron|KLRC1_ENST00000408006.3_Intron	NM_002259.4	NP_002250	P26715	NKG2A_HUMAN	killer cell lectin-like receptor subfamily C, member 1	105					cell surface receptor signaling pathway (GO:0007166)|regulation of immune response (GO:0050776)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)|transmembrane signaling receptor activity (GO:0004888)			NS(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(2)|lung(8)|skin(1)	16						GTATTCAGGGAAGAATTGTTG	0.224																																																0													14	15	15					12																	10602537		2104	4159	6263	SO:0001583	missense	3821			U54782	CCDS8625.1, CCDS8626.1	12p13	2010-06-30			ENSG00000134545	ENSG00000134545		"Killer cell lectin-like receptors", "CD molecules"	6374	protein-coding gene	gene with protein product	"NKG2-1/B activating NK receptor"	161555		NKG2		9598306	Standard	NM_002259		Approved	NKG2-A, NKG2-B, CD159a	uc001qyl.3	P26715		ENST00000359151.3:c.313T>C	12.37:g.10602537A>G	ENSP00000352064:p.Ser105Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000359151.3	37	CCDS8625.1	.	.	.	.	.	.	.	.	.	.	A	8.768	0.925219	0.18056	.	.	ENSG00000134545	ENST00000536188;ENST00000359151;ENST00000544822	T;T;T	0.09630	2.96;2.96;2.96	2.63	2.63	0.31362	C-type lectin fold (1);	0.831025	0.10137	N	0.711294	T	0.33323	0.0859	M	0.91090	3.175	0.09310	N	1	D	0.63046	0.992	D	0.63381	0.914	T	0.14811	-1.0459	10	0.27082	T	0.32	.	7.1333	0.25515	1.0:0.0:0.0:0.0	.	105	P26715	NKG2A_HUMAN	P	105	ENSP00000441432:S105P;ENSP00000352064:S105P;ENSP00000438038:S105P	ENSP00000352064:S105P	S	-	1	0	KLRC1	10493804	0.002000	0.14202	0.009000	0.14445	0.043000	0.13939	1.323000	0.33701	1.461000	0.47929	0.383000	0.25322	TCC		0.224	KLRC1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000400115.1	NM_002259		G	10602537	A	G	10602537	3	3	617	1	0	0	0	0	1	0	0	0	8422	246	9	3	404	3	KLRC1	12	10602537	Missense_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	2390959	10602537	123249358	83	37741										
ESPL1	9700	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	53687232	53687232	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ttggggctgcacctatagccTatggcttgcctgtctctctg	11	12	2	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr12:53687232T>C	ENST00000257934.4	+	31	6428	c.6337T>C	c.(6337-6339)Tat>Cat	p.Y2113H	PFDN5_ENST00000551018.1_5'Flank|PFDN5_ENST00000351500.3_5'Flank|ESPL1_ENST00000552462.1_Missense_Mutation_p.Y2113H|PFDN5_ENST00000334478.4_5'Flank|PFDN5_ENST00000550846.1_5'Flank	NM_012291.4	NP_036423.4	Q14674	ESPL1_HUMAN	extra spindle pole bodies homolog 1 (S. cerevisiae)	2113					apoptotic process (GO:0006915)|cytokinesis (GO:0000910)|establishment of mitotic spindle localization (GO:0040001)|homologous chromosome segregation (GO:0045143)|meiotic spindle organization (GO:0000212)|mitotic cell cycle (GO:0000278)|mitotic sister chromatid segregation (GO:0000070)|negative regulation of sister chromatid cohesion (GO:0045875)|positive regulation of mitotic metaphase/anaphase transition (GO:0045842)	centrosome (GO:0005813)|cytosol (GO:0005829)|nucleus (GO:0005634)	catalytic activity (GO:0003824)|cysteine-type peptidase activity (GO:0008234)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(10)|large_intestine(12)|lung(21)|ovary(2)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(8)	70						ACCTATAGCCTATGGCTTGCC	0.527																																					Colon(53;1069 1201 2587 5382)											0													64	65	65					12																	53687232		2203	4300	6503	SO:0001583	missense	9700			D79987	CCDS8852.1	12q13.13	2014-08-04	2013-05-03		ENSG00000135476	ENSG00000135476	3.4.22.49		16856	protein-coding gene	gene with protein product	"separin", "separase", "separin, cysteine protease"	604143	"extra spindle poles like 1 (S. cerevisiae)"			8724849, 16258266	Standard	NM_012291		Approved	KIAA0165, ESP1, SEPA	uc001sck.2	Q14674	OTTHUMG00000169674	ENST00000257934.4:c.6337T>C	12.37:g.53687232T>C	ENSP00000257934:p.Tyr2113His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000257934.4	37	CCDS8852.1	.	.	.	.	.	.	.	.	.	.	T	22.0	4.234561	0.79800	.	.	ENSG00000135476	ENST00000257934;ENST00000552671;ENST00000552462	T;T	0.56444	0.46;0.46	4.88	4.88	0.63580	.	0.000000	0.85682	D	0.000000	T	0.76702	0.4024	M	0.90198	3.095	0.53688	D	0.999976	D	0.89917	1.0	D	0.87578	0.998	T	0.82204	-0.0573	10	0.87932	D	0	.	13.8969	0.63778	0.0:0.0:0.0:1.0	.	2113	Q14674	ESPL1_HUMAN	H	2113;1788;2113	ENSP00000257934:Y2113H;ENSP00000449831:Y2113H	ENSP00000257934:Y2113H	Y	+	1	0	ESPL1	51973499	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.612000	0.82975	2.178000	0.69098	0.460000	0.39030	TAT		0.527	ESPL1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406899.2	NM_012291		C	53687232	T	C	53687232	3	2	617	1	0	0	0	0	1	0	0	0	5255	1522	53	3	6455	3	ESPL1	12	53687232	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	43084695	53687232	80164663	84	37742										
DUSP6	1848	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	89743102	89743107	+	In_Frame_Del	DEL	CTGGAA	CTGGAA	-													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ggtaaaatacagctgctgtgCtggaaccctgttgtcacatg							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	CTGGAA	CTGGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr12:89743102_89743107delCTGGAA	ENST00000279488.7	-	3	2301_2306	c.1070_1075delTTCCAG	c.(1069-1077)gttccagca>gca	p.VP357del	DUSP6_ENST00000547140.1_5'Flank|DUSP6_ENST00000547291.1_In_Frame_Del_p.VP232del|DUSP6_ENST00000308385.6_In_Frame_Del_p.VP211del	NM_001946.2	NP_001937.2	Q16828	DUS6_HUMAN	dual specificity phosphatase 6	357	Tyrosine-protein phosphatase.				cell differentiation (GO:0030154)|dorsal/ventral pattern formation (GO:0009953)|inactivation of MAPK activity (GO:0000188)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of ERK1 and ERK2 cascade (GO:0070373)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine dephosphorylation (GO:0035335)|positive regulation of apoptotic process (GO:0043065)|regulation of endodermal cell fate specification (GO:0042663)|regulation of fibroblast growth factor receptor signaling pathway (GO:0040036)|regulation of heart growth (GO:0060420)|response to drug (GO:0042493)|response to nitrosative stress (GO:0051409)|response to organic cyclic compound (GO:0014070)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)	MAP kinase tyrosine/serine/threonine phosphatase activity (GO:0017017)|protein tyrosine phosphatase activity (GO:0004725)			large_intestine(5)|lung(8)|skin(2)|urinary_tract(1)	16						AGCTGCTGTGCTGGAACCCTGTTGTC	0.5																																					Colon(132;3456 5224)											0																																										SO:0001651	inframe_deletion	1848			BC037236	CCDS9033.1, CCDS9034.1	12q22-q23	2011-06-09				ENSG00000139318		"Protein tyrosine phosphatases / Class I Cys-based PTPs : MAP kinase phosphatases"	3072	protein-coding gene	gene with protein product		602748				8626780, 9205128	Standard	NM_001946		Approved	MKP-3, PYST1	uc001tay.3	Q16828		ENST00000279488.7:c.1070_1075delTTCCAG	12.37:g.89743102_89743107delCTGGAA	ENSP00000279488:p.Val357_Pro358del	Somatic		WXS	Illumina HiSeq	Phase_I	O75109|Q53Y75|Q9BSH6	In_Frame_Del	DEL	ENST00000279488.7	37	CCDS9033.1																																																																																				0.5	DUSP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406534.2	NM_001946, NM_022652		-	89743107	CTGGAA	-	89743102	7	5	617	1	0	1	0	1	0	0	0	0	4831	797	28	0	74	0	DUSP6	12	89743102	In_Frame_Del	DEL	CTGGAA	TCGA-IZ-8196-01A-11D-2396-08	36055870	89743102	44108793	85	37743										
ALDH2	217	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	112227694	112227694	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ttgacggagacttcttcagcTacacacgccatgaacctgtg	9	12	2	3			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr12:112227694T>C	ENST00000261733.2	+	5	569	c.508T>C	c.(508-510)Tac>Cac	p.Y170H	RP11-162P23.2_ENST00000546840.2_Silent_p.A166A|ALDH2_ENST00000416293.3_Missense_Mutation_p.Y123H	NM_000690.3	NP_000681.2	P05091	ALDH2_HUMAN	aldehyde dehydrogenase 2 family (mitochondrial)	170					alcohol metabolic process (GO:0006066)|carbohydrate metabolic process (GO:0005975)|ethanol catabolic process (GO:0006068)|ethanol oxidation (GO:0006069)|neurotransmitter biosynthetic process (GO:0042136)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|xenobiotic metabolic process (GO:0006805)	extracellular vesicular exosome (GO:0070062)|mitochondrial matrix (GO:0005759)	aldehyde dehydrogenase (NAD) activity (GO:0004029)|aldehyde dehydrogenase [NAD(P)+] activity (GO:0004030)|electron carrier activity (GO:0009055)			NS(1)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(3)|liver(1)|lung(6)|ovary(2)|prostate(1)|skin(2)|stomach(1)	22					Amyl Nitrite(DB01612)|Benzyl alcohol(DB06770)|Disulfiram(DB00822)|Guanidine(DB00536)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)	CTTCTTCAGCTACACACGCCA	0.527			T	HMGA2	leiomyoma																																		Dom	yes		12	12q24.2	217	aldehyde dehydrogenase 2 family (mitochondrial)		M	0													100	87	91					12																	112227694		2203	4300	6503	SO:0001583	missense	217			M26760	CCDS9155.1, CCDS55885.1	12q24.12	2007-12-14				ENSG00000111275	1.2.1.3	"Aldehyde dehydrogenases"	404	protein-coding gene	gene with protein product		100650				4015823, 2987944	Standard	NM_000690		Approved		uc001tst.3	P05091	OTTHUMG00000169603	ENST00000261733.2:c.508T>C	12.37:g.112227694T>C	ENSP00000261733:p.Tyr170His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DW54|E7EUE5|Q03639|Q6IB13|Q6IV71	Missense_Mutation	SNP	ENST00000261733.2	37	CCDS9155.1	.	.	.	.	.	.	.	.	.	.	T	27.0	4.792458	0.90453	.	.	ENSG00000257767;ENSG00000111275;ENSG00000111275;ENSG00000111275;ENSG00000111275	ENST00000546840;ENST00000416293;ENST00000261733;ENST00000553044;ENST00000552234	T;T	0.77620	-1.11;-1.11	5.17	5.17	0.71159	Aldehyde dehydrogenase domain (1);Aldehyde dehydrogenase, N-terminal (1);Aldehyde/histidinol dehydrogenase (1);	0.172373	0.53938	D	0.000059	D	0.89612	0.6765	M	0.88105	2.93	0.53688	D	0.999979	D;D;D	0.89917	0.999;1.0;1.0	D;D;D	0.87578	0.987;0.997;0.998	D	0.91609	0.5301	10	0.72032	D	0.01	.	15.3139	0.74059	0.0:0.0:0.0:1.0	.	123;170;170	E7EUE5;F8VXI5;P05091	.;.;ALDH2_HUMAN	H	151;123;170;170;30	ENSP00000403349:Y123H;ENSP00000261733:Y170H	ENSP00000261733:Y170H	Y	+	1	0	ALDH2;RP11-162P23.2	110712077	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	7.655000	0.83696	2.071000	0.62044	0.460000	0.39030	TAC		0.527	ALDH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405008.1	NM_000690		C	112227694	T	C	112227694	3	2	617	1	0	0	0	0	1	0	0	0	496	1522	53	3	526	3	ALDH2	12	112227694	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	22484592	112227694	21624201	86	37744										
HNF1A	6927	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	121437158	121437158	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	catcaccgacaccaccaaccTgagcgccctggccagcctca	7	20	2	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr12:121437158T>C	ENST00000257555.6	+	8	1815	c.1589T>C	c.(1588-1590)cTg>cCg	p.L530P	HNF1A_ENST00000544413.1_Missense_Mutation_p.L530P|HNF1A_ENST00000541395.1_Missense_Mutation_p.L530P|RP11-216P16.2_ENST00000606238.1_RNA			P20823	HNF1A_HUMAN	HNF1 homeobox A	530					glucose homeostasis (GO:0042593)|glucose import (GO:0046323)|insulin secretion (GO:0030073)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription initiation from RNA polymerase II promoter (GO:0060261)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|renal glucose absorption (GO:0035623)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|protein complex (GO:0043234)	DNA binding (GO:0003677)|protein dimerization activity (GO:0046983)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(3)|central_nervous_system(2)|cervix(1)|endometrium(8)|large_intestine(19)|liver(175)|lung(9)|ovary(2)|prostate(1)|urinary_tract(1)	221	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					ACCACCAACCTGAGCGCCCTG	0.687									Hepatic Adenoma, Familial Clustering of																																							0													83	85	84					12																	121437158		2203	4300	6503	SO:0001583	missense	6927	Familial Cancer Database	incl. Maturity-Onset Diabetes of the Young type 3, MODY3	M57732	CCDS9209.1	12q24.31	2014-09-17	2007-08-24	2007-08-24	ENSG00000135100	ENSG00000135100		"Homeoboxes / HNF class"	11621	protein-coding gene	gene with protein product		142410	"transcription factor 1, hepatic; LF-B1, hepatic nuclear factor (HNF1), albumin proximal factor"	MODY3, TCF1		1535333, 7795649	Standard	NM_000545		Approved	HNF1, LFB1	uc001tzg.3	P20823	OTTHUMG00000151015	ENST00000257555.6:c.1589T>C	12.37:g.121437158T>C	ENSP00000257555:p.Leu530Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A5Z2R8|E0YMJ5|E0YMK0|E0YMK1|E2I9R4|E2I9R5|F5H5U3|Q2M3H2|Q99861	Missense_Mutation	SNP	ENST00000257555.6	37	CCDS9209.1	.	.	.	.	.	.	.	.	.	.	T	26.7	4.760491	0.89932	.	.	ENSG00000135100	ENST00000257555;ENST00000535125;ENST00000537424;ENST00000543027;ENST00000541395;ENST00000544413	D;D;D	0.98617	-5.03;-5.03;-5.03	5.52	5.52	0.82312	Hepatocyte nuclear factor 1, beta isoform, C-terminal (1);	0.000000	0.48286	D	0.000189	D	0.98658	0.9550	L	0.52573	1.65	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.83275	0.993;0.996	D	0.99890	1.1133	10	0.72032	D	0.01	-15.5351	14.8565	0.70341	0.0:0.0:0.0:1.0	.	530;530	F5H0K0;P20823	.;HNF1A_HUMAN	P	530;422;530;351;530;530	ENSP00000257555:L530P;ENSP00000443112:L530P;ENSP00000438804:L530P	ENSP00000257555:L530P	L	+	2	0	HNF1A	119921541	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	7.616000	0.83018	2.104000	0.64026	0.528000	0.53228	CTG		0.687	HNF1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320957.5	NM_000545		C	121437158	T	C	121437158	3	2	617	1	0	0	0	0	1	0	0	0	7258	1580	55	3	1619	3	HNF1A	12	121437158	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	9209464	121437158	12414737	87	37745										
BRCA2	675	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	32907353	32907353	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ctttgaagaatgcaggtttaAtatccactttgaaaaagaaa	7	5	0	4			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr13:32907353A>C	ENST00000380152.3	+	10	1971	c.1738A>C	c.(1738-1740)Ata>Cta	p.I580L	BRCA2_ENST00000544455.1_Missense_Mutation_p.I580L			P51587	BRCA2_HUMAN	breast cancer 2, early onset	580					brain development (GO:0007420)|cell aging (GO:0007569)|centrosome duplication (GO:0051298)|cytokinesis (GO:0000910)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|female gonad development (GO:0008585)|hemopoiesis (GO:0030097)|histone H3 acetylation (GO:0043966)|histone H4 acetylation (GO:0043967)|inner cell mass cell proliferation (GO:0001833)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|male meiosis I (GO:0007141)|negative regulation of mammary gland epithelial cell proliferation (GO:0033600)|nucleotide-excision repair (GO:0006289)|oocyte maturation (GO:0001556)|positive regulation of mitotic cell cycle (GO:0045931)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cytokinesis (GO:0032465)|replication fork protection (GO:0048478)|response to gamma radiation (GO:0010332)|response to UV-C (GO:0010225)|response to X-ray (GO:0010165)|spermatogenesis (GO:0007283)	BRCA2-MAGE-D1 complex (GO:0033593)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|protein complex (GO:0043234)|secretory granule (GO:0030141)	gamma-tubulin binding (GO:0043015)|H3 histone acetyltransferase activity (GO:0010484)|H4 histone acetyltransferase activity (GO:0010485)|protease binding (GO:0002020)|single-stranded DNA binding (GO:0003697)			NS(3)|breast(13)|central_nervous_system(5)|cervix(2)|endometrium(24)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(32)|liver(1)|lung(41)|oesophagus(5)|ovary(22)|pancreas(4)|prostate(3)|salivary_gland(1)|skin(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	183		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)		TGCAGGTTTAATATCCACTTT	0.338			"D, Mis, N, F, S"		"breast, ovarian, pancreatic"	"breast, ovarian, pancreatic, leukemia  (FANCB, FANCD1)"		Homologous recombination	Pancreatic Cancer, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Prostate Cancer;Hereditary Breast-Ovarian Cancer, BRCA2 type;Fanconi Anemia type D1, bi-allelic BRCA2 mutations;Fanconi Anemia	TCGA Ovarian(8;0.087)																											Esophageal Squamous(138;838 1285 7957 30353 30468 36915 49332)	yes	Rec	yes	Hereditary breast/ovarian cancer	13	13q12	675	familial breast/ovarian cancer gene 2		"L, E"	0													44	49	47					13																	32907353		2203	4300	6503	SO:0001583	missense	675	Familial Cancer Database	incl.: Hereditary Pancreatic Adenocarcinoma, Insulin-Dependent Diabetes Mellitus - Exocrine Insufficiency - Familial Pancreatic Cancer, PNCA1;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;HPC; ;FANCD1;Pancytopenia Dysmelia, FA (several complementation groups)	U43746	CCDS9344.1	13q12-q13	2014-09-17	2003-10-14		ENSG00000139618	ENSG00000139618		"Fanconi anemia, complementation groups"	1101	protein-coding gene	gene with protein product	"BRCA1/BRCA2-containing complex, subunit 2"	600185	"Fanconi anemia, complementation group D1"	FANCD1, FACD, FANCD		8091231, 7581463, 15057823	Standard	NM_000059		Approved	FAD, FAD1, BRCC2	uc001uub.1	P51587	OTTHUMG00000017411	ENST00000380152.3:c.1738A>C	13.37:g.32907353A>C	ENSP00000369497:p.Ile580Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O00183|O15008|Q13879|Q5TBJ7	Missense_Mutation	SNP	ENST00000380152.3	37	CCDS9344.1	.	.	.	.	.	.	.	.	.	.	A	14.91	2.677622	0.47886	.	.	ENSG00000139618	ENST00000380152;ENST00000544455;ENST00000530893	T;T	0.00776	5.71;5.71	5.5	4.32	0.51571	.	0.150989	0.47093	D	0.000244	T	0.00906	0.0030	M	0.70275	2.135	0.25438	N	0.988123	P;B	0.39748	0.686;0.402	B;B	0.32211	0.088;0.142	T	0.45190	-0.9278	10	0.15952	T	0.53	.	5.4332	0.16464	0.7537:0.0:0.0834:0.1629	.	580;580	P51587;A1YBP1	BRCA2_HUMAN;.	L	580;580;578	ENSP00000369497:I580L;ENSP00000439902:I580L	ENSP00000369497:I580L	I	+	1	0	BRCA2	31805353	0.997000	0.39634	0.995000	0.50966	0.698000	0.40448	0.972000	0.29409	1.016000	0.39470	0.528000	0.53228	ATA		0.338	BRCA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046000.2	NM_000059		C	32907353	A	C	32907353	3	2	617	1	0	0	0	0	1	0	0	0	1501	101	4	5	1772	5	BRCA2	13	32907353	Missense_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08		32907353	82262525	88	37746										
ESD	2098	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	47354151	47354151	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	agtacagggttgcaaattggAgcaaatgctgacacagactt	11	7	0	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr13:47354151A>G	ENST00000378720.3	-	8	701	c.519T>C	c.(517-519)gcT>gcC	p.A173A	ESD_ENST00000495654.1_5'UTR|ESD_ENST00000378697.1_Silent_p.A144A	NM_001984.1	NP_001975.1	P10768	ESTD_HUMAN	esterase D	173					formaldehyde catabolic process (GO:0046294)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	carboxylic ester hydrolase activity (GO:0052689)|hydrolase activity, acting on ester bonds (GO:0016788)|methylumbelliferyl-acetate deacetylase activity (GO:0047374)|S-formylglutathione hydrolase activity (GO:0018738)			endometrium(1)|kidney(2)|large_intestine(1)|lung(4)|ovary(1)	9		all_lung(13;3.54e-08)|Lung NSC(96;9.1e-06)|Breast(56;0.000148)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)		GBM - Glioblastoma multiforme(144;2.66e-05)	Glutathione(DB00143)	TGCAAATTGGAGCAAATGCTG	0.333																																																0													91	91	91					13																	47354151		2203	4299	6502	SO:0001819	synonymous_variant	2098			M13450	CCDS9404.1	13q14.1-q14.2	2014-05-13	2010-05-07		ENSG00000139684	ENSG00000139684	3.1.2.12		3465	protein-coding gene	gene with protein product	"S-formylglutathione hydrolase"	133280	"esterase D/formylglutathione hydrolase"				Standard	NM_001984		Approved		uc001vbn.3	P10768	OTTHUMG00000016878	ENST00000378720.3:c.519T>C	13.37:g.47354151A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TBU8|Q5TBV0|Q5TBV2|Q9BVJ2	Silent	SNP	ENST00000378720.3	37	CCDS9404.1	.	.	.	.	.	.	.	.	.	.	A	9.962	1.223120	0.22457	.	.	ENSG00000139684	ENST00000412582	.	.	.	6.16	3.7	0.42460	.	.	.	.	.	T	0.57140	0.2033	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.50717	-0.8795	4	.	.	.	-8.9614	7.2303	0.26038	0.6488:0.2815:0.0697:0.0	.	.	.	.	P	121	.	.	L	-	2	0	ESD	46252152	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	1.509000	0.35780	0.536000	0.28733	-0.299000	0.09455	CTC		0.333	ESD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044826.1			G	47354151	A	G	47354151	2	3	617	1	0	0	0	0	0	0	0	1	5252	291	11	3		3	ESD	13	47354151	Silent	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	14446798	47354151	67815727	89	37747										
OR11G2	390439	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	20666034	20666034	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	atgaccagacgtctctgtacCaatcttgtggtcaattgctg	9	10	3	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr14:20666034C>T	ENST00000357366.3	+	1	540	c.540C>T	c.(538-540)acC>acT	p.T180T		NM_001005503.1	NP_001005503.1	Q8NGC1	O11G2_HUMAN	olfactory receptor, family 11, subfamily G, member 2	180						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(3)|kidney(1)|large_intestine(4)|lung(7)|ovary(3)|pancreas(1)|skin(1)|upper_aerodigestive_tract(2)	22	all_cancers(95;0.00108)		Epithelial(56;9.76e-07)|all cancers(55;5.61e-06)	GBM - Glioblastoma multiforme(265;0.0144)		GTCTCTGTACCAATCTTGTGG	0.448																																																0													111	94	100					14																	20666034		2203	4300	6503	SO:0001819	synonymous_variant	390439				CCDS32032.1	14q11.2	2013-09-24			ENSG00000196832	ENSG00000196832		"GPCR / Class A : Olfactory receptors"	15346	protein-coding gene	gene with protein product							Standard	NM_001005503		Approved		uc010tlb.2	Q8NGC1	OTTHUMG00000167700	ENST00000357366.3:c.540C>T	14.37:g.20666034C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF09|Q96R33	Silent	SNP	ENST00000357366.3	37	CCDS32032.1																																																																																				0.448	OR11G2-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395722.1			T	20666034	C	T	20666034	2	4	617	1	0	0	0	0	0	0	0	1	10932	581	21	2		2	OR11G2	14	20666034	Silent	SNP	C	TCGA-IZ-8196-01A-11D-2396-08		20666034	86683506	90	37748										
SLC22A17	51310	hgsc.bcm.edu	37	chr14	23816377	23816377	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ggcggcagcttgggaggagaAgagcccaaggacagagaaag	18	7	0	3			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr14:23816377A>G	ENST00000206544.8	-	8	1597	c.1261T>C	c.(1261-1263)Ttc>Ctc	p.F421L	SLC22A17_ENST00000397260.3_Missense_Mutation_p.F292L|SLC22A17_ENST00000354772.3_Missense_Mutation_p.F403L|SLC22A17_ENST00000397267.1_Missense_Mutation_p.F421L|SLC22A17_ENST00000474057.1_5'UTR	NM_020372.2	NP_065105.2	Q8WUG5	S22AH_HUMAN	solute carrier family 22, member 17	421					ion transport (GO:0006811)|iron ion homeostasis (GO:0055072)|siderophore transport (GO:0015891)	integral component of organelle membrane (GO:0031301)|integral component of plasma membrane (GO:0005887)|vacuole (GO:0005773)	transmembrane signaling receptor activity (GO:0004888)|transmembrane transporter activity (GO:0022857)			breast(1)|cervix(1)|endometrium(1)|large_intestine(3)|lung(3)|ovary(1)|pancreas(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	15	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00643)		TGGGAGGAGAAGAGCCCAAGG	0.612																																																0													81	59	66					14																	23816377		2203	4300	6503	SO:0001583	missense	51310			AJ243653	CCDS9593.1, CCDS9594.2	14q11.2	2013-05-22	2008-01-11		ENSG00000092096	ENSG00000092096		"Solute carriers"	23095	protein-coding gene	gene with protein product	"neutrophil gelatinase-associated lipocalin receptor"	611461				16377569	Standard	NM_016609		Approved	BOCT, BOIT, NGALR	uc001wjl.3	Q8WUG5	OTTHUMG00000028740	ENST00000206544.8:c.1261T>C	14.37:g.23816377A>G	ENSP00000206544:p.Phe421Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A4UA13|A8MUT0|Q2TAB0|Q5BKY8|Q86U04|Q9H1D3|Q9NQD5	Missense_Mutation	SNP	ENST00000206544.8	37	CCDS9593.1	.	.	.	.	.	.	.	.	.	.	A	12.93	2.086485	0.36855	.	.	ENSG00000092096	ENST00000354772;ENST00000397260;ENST00000206544;ENST00000397267	T;T;T;T	0.59364	0.27;0.27;0.27;0.27	5.36	5.36	0.76844	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.000000	0.85682	D	0.000000	T	0.39145	0.1067	N	0.21324	0.655	0.53688	D	0.999976	B;P	0.36909	0.114;0.573	B;B	0.36534	0.057;0.227	T	0.36939	-0.9727	10	0.02654	T	1	-21.8141	13.1705	0.59595	1.0:0.0:0.0:0.0	.	403;421	Q8WUG5-2;Q8WUG5	.;S22AH_HUMAN	L	403;292;421;421	ENSP00000346824:F403L;ENSP00000380430:F292L;ENSP00000206544:F421L;ENSP00000380437:F421L	ENSP00000206544:F421L	F	-	1	0	SLC22A17	22886217	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	2.295000	0.43576	2.163000	0.67991	0.460000	0.39030	TTC		0.612	SLC22A17-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000157223.3	NM_020372		G	23816377	A	G	23816377	3	3	617	1	0	0	0	0	1	0	0	0	14461	72	3	3	363	3	SLC22A17	14	23816377	Missense_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	3150343	23816377	83533163	91	37749										
C14orf37	145407	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	58563683	58563683	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tcttcttcatcctcttcatcCtcatcttcttgtccctctag	2	16	9	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr14:58563683C>G	ENST00000267485.7	-	5	2042	c.1848G>C	c.(1846-1848)gaG>gaC	p.E616D		NM_001001872.2	NP_001001872.2	Q86TY3	CN037_HUMAN	chromosome 14 open reading frame 37	616	Glu-rich.					integral component of membrane (GO:0016021)				breast(7)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(16)|pancreas(1)|skin(1)	33						cctcttcatcctcatcttctt	0.398																																																0													195	145	162					14																	58563683		2203	4300	6503	SO:0001583	missense	145407				CCDS32089.1	14q23.1	2012-09-03			ENSG00000139971	ENSG00000139971			19846	protein-coding gene	gene with protein product							Standard	NM_001001872		Approved		uc001xdc.3	Q86TY3	OTTHUMG00000171173	ENST00000267485.7:c.1848G>C	14.37:g.58563683C>G	ENSP00000267485:p.Glu616Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8Z8|Q6P5Q1|Q86TY1	Missense_Mutation	SNP	ENST00000267485.7	37	CCDS32089.1	.	.	.	.	.	.	.	.	.	.	C	12.96	2.093373	0.36952	.	.	ENSG00000139971	ENST00000267485;ENST00000438670	T	0.11063	2.81	4.97	-3.62	0.04543	Armadillo-like helical (1);	0.466239	0.19773	N	0.106394	T	0.07143	0.0181	L	0.38531	1.155	0.30330	N	0.786721	B;B;B	0.24576	0.106;0.106;0.106	B;B;B	0.26770	0.073;0.073;0.073	T	0.12016	-1.0564	10	0.87932	D	0	-0.7422	5.8628	0.18759	0.0:0.3161:0.242:0.4419	.	654;616;616	B4DMS4;A8K990;Q86TY3	.;.;CN037_HUMAN	D	616;654	ENSP00000267485:E616D	ENSP00000267485:E616D	E	-	3	2	C14orf37	57633436	0.186000	0.23225	0.976000	0.42696	0.636000	0.38137	-1.104000	0.03326	-0.558000	0.06118	0.561000	0.74099	GAG		0.398	C14orf37-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412059.1	NM_001001872		G	58563683	C	G	58563683	3	3	617	1	0	0	0	0	1	0	0	0	1773	680	24	4	492	4	C14orf37	14	58563683	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	34747306	58563683	48785857	92	37750										
SYNE2	23224	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	64596614	64596614	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tactccaggaggtttacaaaTtagaggtatgcctgagcaga	11	7	0	3			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr14:64596614T>A	ENST00000344113.4	+	75	14346	c.14134T>A	c.(14134-14136)Tta>Ata	p.L4712I	ESR2_ENST00000542956.1_Intron|SYNE2_ENST00000357395.3_Missense_Mutation_p.L1097I|SYNE2_ENST00000394768.2_Missense_Mutation_p.L1097I|SYNE2_ENST00000554584.1_Missense_Mutation_p.L4629I|SYNE2_ENST00000555002.1_Missense_Mutation_p.L1346I|SYNE2_ENST00000358025.3_Missense_Mutation_p.L4712I	NM_015180.4	NP_055995.4	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	4712					centrosome localization (GO:0051642)|cytoskeletal anchoring at nuclear membrane (GO:0090286)|establishment or maintenance of cell polarity (GO:0007163)|fibroblast migration (GO:0010761)|nuclear envelope organization (GO:0006998)|nuclear migration (GO:0007097)|nuclear migration along microfilament (GO:0031022)|positive regulation of cell migration (GO:0030335)|protein localization to nucleus (GO:0034504)	aggresome (GO:0016235)|cytoplasm (GO:0005737)|filopodium membrane (GO:0031527)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|intermediate filament cytoskeleton (GO:0045111)|lamellipodium membrane (GO:0031258)|mitochondrion (GO:0005739)|nuclear envelope (GO:0005635)|nuclear lumen (GO:0031981)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|sarcoplasmic reticulum (GO:0016529)|SUN-KASH complex (GO:0034993)|Z disc (GO:0030018)	actin binding (GO:0003779)			NS(5)|breast(17)|central_nervous_system(3)|cervix(8)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(21)|large_intestine(34)|lung(75)|ovary(10)|pancreas(2)|prostate(8)|skin(8)|stomach(1)|upper_aerodigestive_tract(9)|urinary_tract(4)	224				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GGTTTACAAATTAGAGGTATG	0.458																																																0													113	112	112					14																	64596614		2203	4300	6503	SO:0001583	missense	23224			AB023228	CCDS9761.2, CCDS41963.1, CCDS45124.1, CCDS45125.1	14q22.1-q22.3	2014-09-17			ENSG00000054654	ENSG00000054654			17084	protein-coding gene	gene with protein product	"nuclear envelope spectrin repeat-2", "nucleus and actin connecting element"	608442				10231032, 10878022	Standard	NM_182910		Approved	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2	uc001xgl.3	Q8WXH0	OTTHUMG00000140349	ENST00000344113.4:c.14134T>A	14.37:g.64596614T>A	ENSP00000341781:p.Leu4712Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q540G1|Q8N1S3|Q8NF49|Q8TER7|Q8WWW3|Q8WWW4|Q8WWW5|Q8WXH1|Q9NU50|Q9UFQ4|Q9Y2L4|Q9Y4R1	Missense_Mutation	SNP	ENST00000344113.4	37	CCDS41963.1	.	.	.	.	.	.	.	.	.	.	T	10.90	1.481904	0.26598	.	.	ENSG00000054654	ENST00000358025;ENST00000357395;ENST00000344113;ENST00000554584;ENST00000261678;ENST00000555002;ENST00000394768	T;T;T;T;T;T	0.71934	1.34;1.34;1.34;-0.61;1.34;1.34	5.23	1.55	0.23275	.	0.000000	0.40144	N	0.001175	T	0.76300	0.3968	M	0.72894	2.215	0.80722	D	1	D;D;D	0.69078	0.997;0.987;0.995	D;P;D	0.67231	0.95;0.841;0.926	T	0.70197	-0.4938	10	0.27785	T	0.31	.	5.4414	0.16511	0.0:0.2145:0.1349:0.6506	.	1097;4712;4712	Q8WXH0-7;Q8WXH0;Q8WXH0-2	.;SYNE2_HUMAN;.	I	4712;1097;4712;4629;4629;1346;1097	ENSP00000350719:L4712I;ENSP00000349969:L1097I;ENSP00000341781:L4712I;ENSP00000452570:L4629I;ENSP00000450831:L1346I;ENSP00000378249:L1097I	ENSP00000261678:L4629I	L	+	1	2	SYNE2	63666367	1.000000	0.71417	0.996000	0.52242	0.717000	0.41224	0.934000	0.28910	0.084000	0.17077	-0.274000	0.10170	TTA		0.458	SYNE2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276994.2	NM_182914		A	64596614	T	A	64596614	3	1	617	1	0	0	0	0	1	0	0	0	15458	1490	52	5	14428	5	SYNE2	14	64596614	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	6032931	64596614	42752926	93	37751										
TTC8	123016	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	89307438	89307438	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ctcaggcccagcacgcagagTggaaggccaggcactatgga	14	12	1	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr14:89307438T>A	ENST00000345383.5	+	4	441	c.357T>A	c.(355-357)agT>agA	p.S119R	TTC8_ENST00000358622.5_5'Flank|Y_RNA_ENST00000384612.1_RNA|TTC8_ENST00000346301.4_Missense_Mutation_p.S119R|TTC8_ENST00000380656.2_Missense_Mutation_p.S129R|TTC8_ENST00000536576.1_5'UTR|TTC8_ENST00000338104.6_Missense_Mutation_p.S119R|TTC8_ENST00000354441.6_Intron	NM_198309.2	NP_938051.1	Q8TAM2	TTC8_HUMAN	tetratricopeptide repeat domain 8	129					axon guidance (GO:0007411)|camera-type eye photoreceptor cell differentiation (GO:0060219)|cilium assembly (GO:0042384)|establishment of anatomical structure orientation (GO:0048560)|fat cell differentiation (GO:0045444)|multicellular organism growth (GO:0035264)|nonmotile primary cilium assembly (GO:0035058)|olfactory bulb development (GO:0021772)|protein transport (GO:0015031)|regulation of protein localization (GO:0032880)|renal tubule development (GO:0061326)|sensory perception of smell (GO:0007608)|sensory processing (GO:0050893)	BBSome (GO:0034464)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cilium (GO:0005929)|cytoplasm (GO:0005737)|photoreceptor connecting cilium (GO:0032391)|plasma membrane (GO:0005886)	RNA polymerase II repressing transcription factor binding (GO:0001103)			endometrium(2)|kidney(1)|large_intestine(4)|lung(7)|prostate(1)	15						GCACGCAGAGTGGAAGGCCAG	0.498																																																0													67	75	72					14																	89307438		2203	4300	6503	SO:0001583	missense	123016			AK093891	CCDS9885.1, CCDS9886.1, CCDS32137.1, CCDS73674.1, CCDS73675.1	14q31.3	2013-02-14				ENSG00000165533		"Tetratricopeptide (TTC) repeat domain containing"	20087	protein-coding gene	gene with protein product		608132				14520415, 20451172	Standard	NM_144596		Approved	BBS8, RP51	uc001xxi.3	Q8TAM2		ENST00000345383.5:c.357T>A	14.37:g.89307438T>A	ENSP00000339486:p.Ser119Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFG2|B3KWA5|Q67B97|Q86SY0|Q86TV9|Q86U26|Q8NDH9|Q96DG8	Missense_Mutation	SNP	ENST00000345383.5	37	CCDS9885.1	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	T|T|T	17.54|17.54|17.54	3.414274|3.414274|3.414274	0.62511|0.62511|0.62511	.|.|.	.|.|.	ENSG00000165533|ENSG00000165533|ENSG00000165533	ENST00000345383;ENST00000346301;ENST00000338104;ENST00000380656;ENST00000556651|ENST00000554686|ENST00000343648	T;T;T;T|.|.	0.80738|.|.	-1.3;-1.39;-1.41;-1.3|.|.	5.46|5.46|5.46	1.8|1.8|1.8	0.24995|0.24995|0.24995	.|.|.	0.153416|.|.	0.56097|.|.	D|.|.	0.000029|.|.	T|T|T	0.68613|0.68613|0.68613	0.3020|0.3020|0.3020	M|M|M	0.76574|0.76574|0.76574	2.34|2.34|2.34	0.80722|0.80722|0.80722	D|D|D	1|1|1	P;D;B;D;B|.|.	0.54601|.|.	0.808;0.967;0.012;0.967;0.012|.|.	B;P;B;P;B|.|.	0.51918|.|.	0.368;0.595;0.054;0.684;0.054|.|.	T|T|T	0.64045|0.64045|0.64045	-0.6499|-0.6499|-0.6499	10|5|5	0.66056|.|.	D|.|.	0.02|.|.	-16.3432|-16.3432|-16.3432	9.1746|9.1746|9.1746	0.37105|0.37105|0.37105	0.0:0.2088:0.0:0.7912|0.0:0.2088:0.0:0.7912|0.0:0.2088:0.0:0.7912	.|.|.	129;119;129;119;129|.|.	Q8TAM2;G3V2Z9;Q8TAM2-3;G3V324;Q8TAM2-4|.|.	TTC8_HUMAN;.;.;.;.|.|.	R|E|R	119;119;119;129;119|109|171	ENSP00000339486:S119R;ENSP00000298324:S119R;ENSP00000337653:S119R;ENSP00000370031:S129R|.|.	ENSP00000337653:S119R|.|.	S|V|W	+|+|+	3|2|1	2|0|0	TTC8|TTC8|TTC8	88377191|88377191|88377191	0.719000|0.719000|0.719000	0.27986|0.27986|0.27986	1.000000|1.000000|1.000000	0.80357|0.80357|0.80357	0.989000|0.989000|0.989000	0.77384|0.77384|0.77384	-0.225000|-0.225000|-0.225000	0.09151|0.09151|0.09151	0.065000|0.065000|0.065000	0.16485|0.16485|0.16485	0.460000|0.460000|0.460000	0.39030|0.39030|0.39030	AGT|GTG|TGG		0.498	TTC8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410861.1	NM_144596		A	89307438	T	A	89307438	3	1	617	1	0	0	0	0	1	0	0	0	16726	1693	59	5	405	5	TTC8	14	89307438	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	24710824	89307438	18042102	94	37752										
CDC42BPB	9578	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	103438368	103438368	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gctgccgggacaccttctgcTtctgggcacggagctctgcc	13	15	3	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr14:103438368T>A	ENST00000361246.2	-	13	2060	c.1772A>T	c.(1771-1773)aAg>aTg	p.K591M		NM_006035.3	NP_006026.3			CDC42 binding protein kinase beta (DMPK-like)											NS(1)|breast(4)|central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(11)|liver(1)|lung(14)|ovary(2)|prostate(2)|skin(3)|stomach(1)	49		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		CACCTTCTGCTTCTGGGCACG	0.617																																																0													112	95	100					14																	103438368		2203	4300	6503	SO:0001583	missense	9578			AF128625	CCDS9978.1	14q32.32	2010-05-12	2001-11-28		ENSG00000198752	ENSG00000198752			1738	protein-coding gene	gene with protein product		614062	"CDC42-binding protein kinase beta (DMPK-like)"			10198171	Standard	NM_006035		Approved	MRCKB, KIAA1124	uc001ymi.1	Q9Y5S2		ENST00000361246.2:c.1772A>T	14.37:g.103438368T>A	ENSP00000355237:p.Lys591Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000361246.2	37	CCDS9978.1	.	.	.	.	.	.	.	.	.	.	T	24.7	4.560047	0.86335	.	.	ENSG00000198752	ENST00000361246	D	0.82619	-1.63	5.31	4.15	0.48705	.	0.045881	0.85682	D	0.000000	D	0.90456	0.7011	M	0.84948	2.725	0.80722	D	1	D	0.76494	0.999	D	0.70935	0.971	D	0.90167	0.4232	10	0.56958	D	0.05	.	10.9197	0.47156	0.0:0.0743:0.0:0.9257	.	591	Q9Y5S2	MRCKB_HUMAN	M	591	ENSP00000355237:K591M	ENSP00000355237:K591M	K	-	2	0	CDC42BPB	102508121	1.000000	0.71417	1.000000	0.80357	0.964000	0.63967	6.228000	0.72288	0.860000	0.35481	0.460000	0.39030	AAG		0.617	CDC42BPB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415711.1	NM_006035		A	103438368	T	A	103438368	3	1	617	1	0	0	0	0	1	0	0	0	3075	1609	56	5	3463	5	CDC42BPB	14	103438368	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	14130930	103438368	3911172	95	37753										
KIAA0284	283638	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	105353612	105353612	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	cagtcctcagagaggcagcaTcacccacttggcccgacgga	11	15	2	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr14:105353612T>G	ENST00000414716.3	+	12	3264	c.3036T>G	c.(3034-3036)caT>caG	p.H1012Q	CEP170B_ENST00000418279.1_Missense_Mutation_p.H942Q|CEP170B_ENST00000453495.1_Missense_Mutation_p.H1013Q|CEP170B_ENST00000556508.1_Missense_Mutation_p.H942Q	NM_001112726.2	NP_001106197.1	Q9Y4F5	C170B_HUMAN	centrosomal protein 170B	1012						cytoplasm (GO:0005737)|microtubule (GO:0005874)											AGAGGCAGCATCACCCACTTG	0.687																																																0													11	15	14					14																	105353612		2073	4183	6256	SO:0001583	missense	283638			AB006622	CCDS45175.1, CCDS45176.1, CCDS45176.2	14q32.33	2014-02-20	2012-11-30	2012-11-30	ENSG00000099814	ENSG00000099814			20362	protein-coding gene	gene with protein product	"Cep170-related"		"KIAA0284"	KIAA0284		23087211	Standard	NM_015005		Approved	FAM68C, Cep170R	uc010axb.4	Q9Y4F5	OTTHUMG00000170763	ENST00000414716.3:c.3036T>G	14.37:g.105353612T>G	ENSP00000404151:p.His1012Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q2KHR7|Q86TI7	Missense_Mutation	SNP	ENST00000414716.3	37	CCDS45175.1	.	.	.	.	.	.	.	.	.	.	T	4.535	0.099232	0.08681	.	.	ENSG00000099814	ENST00000556508;ENST00000414716;ENST00000453495;ENST00000418279	T;T;T;T	0.40756	1.02;1.02;1.02;1.02	3.85	-6.94	0.01633	.	1.152450	0.06494	N	0.735156	T	0.24736	0.0600	N	0.22421	0.69	0.09310	N	1	B;B;B	0.23735	0.002;0.09;0.01	B;B;B	0.16722	0.008;0.016;0.014	T	0.31971	-0.9924	10	0.59425	D	0.04	-0.1639	8.1321	0.31033	0.0:0.3657:0.4378:0.1965	.	1012;1012;942	Q9Y4F5-2;Q9Y4F5;E9PFC1	.;K0284_HUMAN;.	Q	942;1012;1013;942	ENSP00000451249:H942Q;ENSP00000404151:H1012Q;ENSP00000407238:H1013Q;ENSP00000415006:H942Q	ENSP00000404151:H1012Q	H	+	3	2	KIAA0284	104424657	0.000000	0.05858	0.001000	0.08648	0.002000	0.02628	-3.141000	0.00586	-1.631000	0.01543	-0.537000	0.04273	CAT		0.687	CEP170B-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000410289.2	NM_001112726		G	105353612	T	G	105353612	3	3	617	1	0	0	0	0	1	0	0	0	8173	1432	50	5	3078	5	KIAA0284	14	105353612	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	1915244	105353612	1995928	96	37754										
CATSPER2	117155	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	43928412	43928412	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ctgttaccagggaattcgggAggtccctaaagaaaaagaca	11	8	0	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr15:43928412A>G	ENST00000321596.5	-	8	1047	c.848T>C	c.(847-849)cTc>cCc	p.L283P	CATSPER2_ENST00000355438.2_Missense_Mutation_p.L283P|CATSPER2_ENST00000354127.4_Missense_Mutation_p.L283P|CATSPER2_ENST00000381761.1_Missense_Mutation_p.L289P|CATSPER2_ENST00000396879.1_Missense_Mutation_p.L283P|RNU6-610P_ENST00000384264.1_RNA|STRC_ENST00000541030.1_Intron			Q96P56	CTSR2_HUMAN	cation channel, sperm associated 2	283					calcium ion import (GO:0070509)|cell differentiation (GO:0030154)|membrane depolarization during action potential (GO:0086010)|multicellular organism reproduction (GO:0032504)|multicellular organismal development (GO:0007275)|single fertilization (GO:0007338)|sperm motility (GO:0030317)|sperm-egg recognition (GO:0035036)|spermatogenesis (GO:0007283)	CatSper complex (GO:0036128)|motile cilium (GO:0031514)|plasma membrane (GO:0005886)	calcium activated cation channel activity (GO:0005227)|voltage-gated calcium channel activity (GO:0005245)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(1)|large_intestine(3)|lung(8)|ovary(1)|prostate(1)|skin(1)|urinary_tract(2)	22		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)		GGAATTCGGGAGGTCCCTAAA	0.413																																																0													53	54	53					15																	43928412		2199	4296	6495	SO:0001583	missense	117155			AF411817	CCDS10099.1, CCDS32216.1, CCDS73714.1	15q15.3	2011-07-05			ENSG00000166762	ENSG00000166762		"Voltage-gated ion channels / Cation channels, sperm associated"	18810	protein-coding gene	gene with protein product		607249				11675491, 16382101	Standard	NM_172095		Approved		uc001zsh.3	Q96P56	OTTHUMG00000059902	ENST00000321596.5:c.848T>C	15.37:g.43928412A>G	ENSP00000321463:p.Leu283Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHT9|Q96P54|Q96P55	Missense_Mutation	SNP	ENST00000321596.5	37	CCDS10099.1	.	.	.	.	.	.	.	.	.	.	A	5.296	0.239992	0.10023	.	.	ENSG00000166762	ENST00000396879;ENST00000299989;ENST00000381761;ENST00000321596;ENST00000354127;ENST00000355438	D;D;D;D;D	0.98585	-5.01;-5.01;-5.01;-5.01;-5.01	4.81	4.81	0.61882	Ion transport (1);	0.856615	0.09979	N	0.731205	D	0.97885	0.9305	M	0.82823	2.61	0.33841	D	0.631417	B;B	0.29481	0.206;0.245	B;B	0.35727	0.133;0.209	D	0.99974	1.2121	10	0.87932	D	0	.	10.6643	0.45721	1.0:0.0:0.0:0.0	.	289;283	F8W9H2;Q96P56	.;CTSR2_HUMAN	P	283;283;289;283;283;283	ENSP00000380088:L283P;ENSP00000371180:L289P;ENSP00000321463:L283P;ENSP00000339137:L283P;ENSP00000347613:L283P	ENSP00000299989:L283P	L	-	2	0	CATSPER2	41715704	0.211000	0.23529	0.127000	0.21898	0.013000	0.08279	3.770000	0.55310	2.013000	0.59113	0.533000	0.62120	CTC		0.413	CATSPER2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000133151.2	NM_054020		G	43928412	A	G	43928412	3	3	617	1	0	0	0	0	1	0	0	0	2690	304	11	3	768	3	CATSPER2	15	43928412	Missense_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08		43928412	58602980	97	37755										
NEO1	4756	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	73590713	73590713	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	cgttcgaaatacccccagcaCtgacaccatgccagcctctt	6	17	1	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr15:73590713C>T	ENST00000339362.5	+	28	4373	c.3926C>T	c.(3925-3927)aCt>aTt	p.T1309I	NEO1_ENST00000560262.1_Missense_Mutation_p.T1256I|NEO1_ENST00000261908.6_Missense_Mutation_p.T1309I|NEO1_ENST00000558964.1_Missense_Mutation_p.T1298I			Q92859	NEO1_HUMAN	neogenin 1	1309					axon guidance (GO:0007411)|cell adhesion (GO:0007155)|iron ion homeostasis (GO:0055072)|muscle cell differentiation (GO:0042692)|myoblast fusion (GO:0007520)|positive regulation of muscle cell differentiation (GO:0051149)|regulation of transcription, DNA-templated (GO:0006355)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	receptor activity (GO:0004872)			NS(1)|breast(2)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(3)|large_intestine(9)|lung(26)|pancreas(2)|prostate(1)|skin(3)|urinary_tract(2)	57						ACCCCCAGCACTGACACCATG	0.483																																																0													81	76	78					15																	73590713		2198	4297	6495	SO:0001583	missense	4756			U61262	CCDS10247.1, CCDS53957.1, CCDS58378.1	15q22.3-q23	2014-06-20	2010-06-24		ENSG00000067141	ENSG00000067141		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	7754	protein-coding gene	gene with protein product	"immunoglobulin superfamily, DCC subclass, member 2"	601907	"neogenin (chicken) homolog 1"			9121761	Standard	NM_002499		Approved	NGN, HsT17534, IGDCC2, NTN1R2	uc002avm.4	Q92859	OTTHUMG00000133509	ENST00000339362.5:c.3926C>T	15.37:g.73590713C>T	ENSP00000341198:p.Thr1309Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKM9|B7ZKN0|O00340|Q17RX1	Missense_Mutation	SNP	ENST00000339362.5	37	CCDS10247.1	.	.	.	.	.	.	.	.	.	.	C	19.96	3.924141	0.73213	.	.	ENSG00000067141	ENST00000339362;ENST00000379842;ENST00000261908	T	0.42900	0.96	5.28	5.28	0.74379	Neogenin, C-terminal (1);	0.294982	0.37857	N	0.001913	T	0.32704	0.0838	N	0.14661	0.345	0.41912	D	0.990476	B;B;B;P	0.37594	0.408;0.408;0.372;0.601	B;B;B;B	0.42959	0.304;0.324;0.295;0.403	T	0.16247	-1.0409	10	0.36615	T	0.2	-15.6613	14.1931	0.65652	0.0:0.8505:0.1495:0.0	.	1256;1298;1020;1309	B7ZKM9;B7ZKN0;E7EUX3;Q92859	.;.;.;NEO1_HUMAN	I	1256;1020;1309	ENSP00000261908:T1309I	ENSP00000261908:T1309I	T	+	2	0	NEO1	71377766	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	5.492000	0.66893	2.479000	0.83701	0.655000	0.94253	ACT		0.483	NEO1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257472.2	NM_002499		T	73590713	C	T	73590713	3	4	617	1	0	0	0	0	1	0	0	0	10343	565	20	2	4032	2	NEO1	15	73590713	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	29662301	73590713	28940679	98	37756										
IREB2	3658	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	78755356	78755356	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	aggaagatgttatgaacattTtagactggaaaaccaaacaa	8	5	0	3			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr15:78755356T>A	ENST00000258886.8	+	3	348	c.199T>A	c.(199-201)Tta>Ata	p.L67I	IREB2_ENST00000560440.1_Missense_Mutation_p.L67I	NM_004136.2	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	67					aging (GO:0007568)|cellular iron ion homeostasis (GO:0006879)|cellular response to hypoxia (GO:0071456)|erythrocyte homeostasis (GO:0034101)|intestinal absorption (GO:0050892)|iron ion transport (GO:0006826)|osteoclast differentiation (GO:0030316)|post-embryonic development (GO:0009791)|protoporphyrinogen IX biosynthetic process (GO:0006782)|response to iron(II) ion (GO:0010040)|response to retinoic acid (GO:0032526)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|mitochondrion (GO:0005739)	4 iron, 4 sulfur cluster binding (GO:0051539)|iron-responsive element binding (GO:0030350)|metal ion binding (GO:0046872)|RNA binding (GO:0003723)|translation repressor activity (GO:0030371)			central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(8)|liver(1)|lung(14)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	41				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		TATGAACATTTTAGACTGGAA	0.378																																					NSCLC(200;764 2208 35157 49871 50830)											0													214	201	205					15																	78755356		2196	4293	6489	SO:0001583	missense	3658			M58511	CCDS10302.1	15q25.1	2013-09-20			ENSG00000136381	ENSG00000136381			6115	protein-coding gene	gene with protein product		147582				2172968	Standard	NM_004136		Approved	IRP2	uc002bdr.2	P48200	OTTHUMG00000143861	ENST00000258886.8:c.199T>A	15.37:g.78755356T>A	ENSP00000258886:p.Leu67Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAC7|E1CJT9|H0YKU0|Q13095|Q1HE21|Q59FQ7|Q8WVK6|Q9UF17	Missense_Mutation	SNP	ENST00000258886.8	37	CCDS10302.1	.	.	.	.	.	.	.	.	.	.	T	20.6	4.018887	0.75275	.	.	ENSG00000136381	ENST00000258886	T	0.44881	0.91	5.87	3.57	0.40892	Aconitase/3-isopropylmalate dehydratase large subunit, alpha/beta/alpha, subdomain 1/3 (1);Aconitase/3-isopropylmalate dehydratase large subunit, alpha/beta/alpha (2);	0.000000	0.85682	D	0.000000	T	0.53254	0.1785	L	0.52573	1.65	0.51482	D	0.999929	D;P	0.69078	0.997;0.577	D;P	0.91635	0.999;0.774	T	0.42616	-0.9441	10	0.23891	T	0.37	.	10.2319	0.43260	0.0:0.1334:0.0:0.8666	.	67;67	P48200;Q8WVK6	IREB2_HUMAN;.	I	67	ENSP00000258886:L67I	ENSP00000258886:L67I	L	+	1	2	IREB2	76542411	0.998000	0.40836	1.000000	0.80357	0.998000	0.95712	0.725000	0.25970	0.574000	0.29417	0.533000	0.62120	TTA		0.378	IREB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000290109.3	NM_004136		A	78755356	T	A	78755356	3	1	617	1	0	0	0	0	1	0	0	0	7833	1838	64	5	209	5	IREB2	15	78755356	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	5164643	78755356	23776036	99	37757										
KIAA1199	57214	hgsc.bcm.edu	37	chr15	81166242	81166242	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tgggagctgctgggaggcagGacttcctcttcaaggccatg	15	10	2	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr15:81166242G>C	ENST00000394685.3	+	3	441	c.22G>C	c.(22-24)Gac>Cac	p.D8H	KIAA1199_ENST00000220244.3_Missense_Mutation_p.D8H|KIAA1199_ENST00000356249.5_Missense_Mutation_p.D8H			Q8WUJ3	CEMIP_HUMAN		8					hyaluronan catabolic process (GO:0030214)|positive regulation of cell migration (GO:0030335)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of protein kinase C activity (GO:1900020)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of release of sequestered calcium ion into cytosol (GO:0051281)|sensory perception of sound (GO:0007605)	clathrin-coated vesicle membrane (GO:0030665)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	clathrin heavy chain binding (GO:0032050)|ER retention sequence binding (GO:0046923)|hyaluronic acid binding (GO:0005540)|hyalurononglucosaminidase activity (GO:0004415)	p.D8N(1)		breast(4)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(10)|lung(14)|ovary(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	49						TGGGAGGCAGGACTTCCTCTT	0.577																																																1	Substitution - Missense(1)	kidney(1)											70	54	60					15																	81166242		2202	4298	6500	SO:0001583	missense	57214																														ENST00000394685.3:c.22G>C	15.37:g.81166242G>C	ENSP00000378177:p.Asp8His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6L9J5|Q9H1K5|Q9NPN9|Q9ULM1	Missense_Mutation	SNP	ENST00000394685.3	37	CCDS10315.1	.	.	.	.	.	.	.	.	.	.	G	8.342	0.828847	0.16749	.	.	ENSG00000103888	ENST00000220244;ENST00000394685;ENST00000356249;ENST00000394683	T;T;T	0.66460	-0.21;-0.21;-0.21	4.92	-2.97	0.05530	.	6.948940	0.00166	N	0.000000	T	0.48537	0.1505	L	0.27053	0.805	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.17806	-1.0357	10	0.14656	T	0.56	-8.0685	5.165	0.15081	0.3585:0.2796:0.3619:0.0	.	8	Q8WUJ3	K1199_HUMAN	H	8	ENSP00000220244:D8H;ENSP00000378177:D8H;ENSP00000348583:D8H	ENSP00000220244:D8H	D	+	1	0	KIAA1199	78953297	0.000000	0.05858	0.000000	0.03702	0.008000	0.06430	-1.356000	0.02609	-0.329000	0.08527	-0.165000	0.13383	GAC		0.577	KIAA1199-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000291389.1			C	81166242	G	C	81166242	3	2	617	1	0	0	0	0	1	0	0	0	8220	1174	41	4	24	4	KIAA1199	15	81166242	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	2410886	81166242	21365150	100	37758										
ADAMTSL3	57188	hgsc.bcm.edu	37	chr15	84592741	84592741	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tgtgatatggtccaccgtccTccagccatgagccaggcctg	11	14	0	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr15:84592741T>C	ENST00000286744.5	+	17	2297	c.2073T>C	c.(2071-2073)ccT>ccC	p.P691P	ADAMTSL3_ENST00000567476.1_Silent_p.P691P	NM_207517.2	NP_997400.2	P82987	ATL3_HUMAN	ADAMTS-like 3	691						proteinaceous extracellular matrix (GO:0005578)	metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(2)|breast(7)|central_nervous_system(6)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(24)|lung(51)|ovary(7)|pancreas(2)|prostate(2)|skin(8)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(4)	130			BRCA - Breast invasive adenocarcinoma(143;0.211)			TCCACCGTCCTCCAGCCATGA	0.542																																																0													114	82	93					15																	84592741		2203	4300	6503	SO:0001819	synonymous_variant	57188			AF237652	CCDS10326.1, CCDS73773.1	15q25.2	2013-01-29			ENSG00000156218	ENSG00000156218		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	14633	protein-coding gene	gene with protein product		609199				9628581, 10574462	Standard	NM_207517		Approved	KIAA1233, punctin-2	uc002bjz.4	P82987	OTTHUMG00000147363	ENST00000286744.5:c.2073T>C	15.37:g.84592741T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A1A566|A1A567|Q9ULI7	Silent	SNP	ENST00000286744.5	37	CCDS10326.1																																																																																				0.542	ADAMTSL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000304007.2	NM_207517		C	84592741	T	C	84592741	2	2	617	1	0	0	0	0	0	0	0	1	276	1538	54	3		3	ADAMTSL3	15	84592741	Silent	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	3426499	84592741	17938651	101	37759										
SCNN1B	6338	hgsc.bcm.edu	37	chr16	23366804	23366804	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	attcggagctgagccctgcaActaccggtgagagccacccc	11	15	0	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr16:23366804A>G	ENST00000343070.2	+	4	946	c.770A>G	c.(769-771)aAc>aGc	p.N257S	SCNN1B_ENST00000568923.1_Missense_Mutation_p.N230S|SCNN1B_ENST00000307331.5_Missense_Mutation_p.N302S|SCNN1B_ENST00000568085.1_Missense_Mutation_p.N257S	NM_000336.2	NP_000327.2	P51168	SCNNB_HUMAN	sodium channel, non-voltage-gated 1, beta subunit	257					excretion (GO:0007588)|ion transmembrane transport (GO:0034220)|multicellular organismal water homeostasis (GO:0050891)|response to stimulus (GO:0050896)|sensory perception of taste (GO:0050909)|sodium ion homeostasis (GO:0055078)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)	external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|sodium channel complex (GO:0034706)	ligand-gated sodium channel activity (GO:0015280)|WW domain binding (GO:0050699)			breast(2)|endometrium(3)|kidney(2)|large_intestine(5)|liver(2)|lung(8)|ovary(3)|pancreas(1)|prostate(3)|skin(1)|stomach(1)|urinary_tract(1)	32				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	GAGCCCTGCAACTACCGGTGA	0.617																																																0													54	50	51					16																	23366804		2197	4300	6497	SO:0001583	missense	6338			X87159	CCDS10609.1	16p12.2-p12.1	2012-02-28	2012-02-28		ENSG00000168447	ENSG00000168447		"Ion channels / Sodium channel, nonvoltage-gated", "Sodium channels"	10600	protein-coding gene	gene with protein product	"Liddle syndrome"	600760	"sodium channel, nonvoltage-gated 1, beta", "sodium channel, non-voltage-gated 1, beta"				Standard	NM_000336		Approved	ENaCbeta	uc002dln.3	P51168	OTTHUMG00000131608	ENST00000343070.2:c.770A>G	16.37:g.23366804A>G	ENSP00000345751:p.Asn257Ser	Somatic		WXS	Illumina HiSeq	Phase_I	C5HTZ2|O60891|Q96KG2|Q9UJ32|Q9UMU5	Missense_Mutation	SNP	ENST00000343070.2	37	CCDS10609.1	.	.	.	.	.	.	.	.	.	.	A	3.670	-0.067779	0.07228	.	.	ENSG00000168447	ENST00000343070;ENST00000307331	T;T	0.62105	0.05;0.05	5.15	-3.89	0.04193	.	0.496689	0.22488	N	0.059415	T	0.32224	0.0822	N	0.11789	0.175	0.20563	N	0.999889	B	0.06786	0.001	B	0.10450	0.005	T	0.27640	-1.0068	10	0.12103	T	0.63	-23.0248	7.6249	0.28206	0.603:0.1229:0.2741:0.0	.	257	P51168	SCNNB_HUMAN	S	257;302	ENSP00000345751:N257S;ENSP00000302874:N302S	ENSP00000302874:N302S	N	+	2	0	SCNN1B	23274305	0.021000	0.18746	0.394000	0.26270	0.652000	0.38707	-0.173000	0.09854	-0.587000	0.05890	-0.366000	0.07423	AAC		0.617	SCNN1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254495.2			G	23366804	A	G	23366804	3	3	617	1	0	0	0	0	1	0	0	0	13941	43	2	3	780	3	SCNN1B	16	23366804	Missense_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08		23366804	66987949	102	37760										
HS3ST4	9951	hgsc.bcm.edu	37	chr16	26147416	26147416	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ccagaagacagcagtgccccGaggtgcttaggcaagagcaa	13	11	0	3			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr16:26147416G>A	ENST00000331351.5	+	2	1610	c.1218G>A	c.(1216-1218)ccG>ccA	p.P406P	HS3ST4_ENST00000475436.1_3'UTR	NM_006040.2	NP_006031.2	Q9Y661	HS3S4_HUMAN	heparan sulfate (glucosamine) 3-O-sulfotransferase 4	406					heparan sulfate proteoglycan metabolic process (GO:0030201)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity (GO:0008467)			breast(2)|endometrium(3)|large_intestine(1)|lung(9)	15				GBM - Glioblastoma multiforme(48;0.0988)		GCAGTGCCCCGAGGTGCTTAG	0.463																																																0													52	48	49					16																	26147416		1568	3582	5150	SO:0001819	synonymous_variant	9951			AF105378	CCDS53995.1	16p11.2	2008-03-12			ENSG00000182601	ENSG00000182601	2.8.2.23	"Sulfotransferases, membrane-bound"	5200	protein-coding gene	gene with protein product		604059				9988767	Standard	NM_006040		Approved	3OST4	uc002dof.3	Q9Y661	OTTHUMG00000059978	ENST00000331351.5:c.1218G>A	16.37:g.26147416G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5QI42|Q8NDC2	Silent	SNP	ENST00000331351.5	37	CCDS53995.1																																																																																				0.463	HS3ST4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000133286.2	NM_006040		A	26147416	G	A	26147416	2	1	617	1	0	0	0	0	0	0	0	1	7374	1045	37	1		1	HS3ST4	16	26147416	Silent	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	2780612	26147416	64207337	103	37761										
SEPHS2	22928	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	30456715	30456715	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	cccgatgcccagggctggaaAggtggggctggggcccgctc	18	13	0	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr16:30456715A>G	ENST00000478753.2	-	1	787	c.334T>C	c.(334-336)Ttt>Ctt	p.F112L	SEPHS2_ENST00000500504.2_Missense_Mutation_p.F112L|SEPHS2_ENST00000542752.1_Missense_Mutation_p.F55L			Q99611	SPS2_HUMAN	selenophosphate synthetase 2	112					selenocysteine biosynthetic process (GO:0016260)		ATP binding (GO:0005524)|selenide, water dikinase activity (GO:0004756)			breast(3)|cervix(1)|kidney(1)|large_intestine(3)|lung(1)|upper_aerodigestive_tract(1)	10						AGGGCTGGAAAGGTGGGGCTG	0.711																																					Esophageal Squamous(81;1142 1261 11202 24614 35697)											0													11	13	12					16																	30456715		1861	4083	5944	SO:0001583	missense	22928			BC002381		16p11.2	2013-02-15			ENSG00000179918	ENSG00000179918			19686	protein-coding gene	gene with protein product		606218				10608886	Standard	NM_012248		Approved	SPS2, SPS2b	uc021tgl.1	Q99611	OTTHUMG00000176988	ENST00000478753.2:c.334T>C	16.37:g.30456715A>G	ENSP00000418669:p.Phe112Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BUQ2	Missense_Mutation	SNP	ENST00000478753.2	37		.	.	.	.	.	.	.	.	.	.	A	1.894	-0.454758	0.04540	.	.	ENSG00000179918	ENST00000478753;ENST00000542752;ENST00000418751;ENST00000500504	T;T;T	0.40476	1.03;1.06;1.04	5.4	-0.181	0.13291	PurM, N-terminal-like (1);	1.421770	0.04168	N	0.324249	T	0.19927	0.0479	N	0.08118	0	0.09310	N	0.999996	B;B	0.06786	0.001;0.0	B;B	0.06405	0.001;0.002	T	0.15752	-1.0426	10	0.08381	T	0.77	0.0554	5.092	0.14713	0.5253:0.1521:0.3225:0.0	.	112;55	Q99611;F5H8F9	SPS2_HUMAN;.	L	112;55;63;112	ENSP00000418669:F112L;ENSP00000443601:F55L;ENSP00000426234:F112L	ENSP00000390233:F63L	F	-	1	0	SEPHS2	30364216	0.000000	0.05858	0.000000	0.03702	0.148000	0.21650	-0.584000	0.05800	0.073000	0.16731	-0.408000	0.06270	TTT		0.711	SEPHS2-001	KNOWN	basic|seleno	protein_coding	protein_coding	OTTHUMT00000109640.11	NM_012248		G	30456715	A	G	30456715	3	3	617	1	0	0	0	0	1	0	0	0	14068	72	3	3	1016	3	SEPHS2	16	30456715	Missense_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	4309299	30456715	59898038	104	37762										
SRCAP	10847	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	30733503	30733503	+	Frame_Shift_Del	DEL	C	C	-													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	acaacgtccagtggctaatgCagggggaagcaaacctctca							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr16:30733503delC	ENST00000262518.4	+	22	3987	c.3602delC	c.(3601-3603)gcafs	p.A1201fs	SRCAP_ENST00000395059.2_Frame_Shift_Del_p.A1201fs|SRCAP_ENST00000344771.4_Frame_Shift_Del_p.A1105fs	NM_006662.2	NP_006653.2	Q6ZRS2	SRCAP_HUMAN	Snf2-related CREBBP activator protein	1201	Pro-rich.				histone acetylation (GO:0016573)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|protein complex (GO:0043234)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|histone acetyltransferase activity (GO:0004402)|transcription coactivator activity (GO:0003713)			NS(1)|breast(3)|cervix(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(22)|liver(3)|lung(62)|ovary(6)|pancreas(1)|prostate(4)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(5)	136			Colorectal(24;0.198)			GTGGCTAATGCAGGGGGAAGC	0.577																																																0													128	106	113					16																	30733503		2197	4300	6497	SO:0001589	frameshift_variant	10847			AB002307	CCDS10689.2	16p11.2	2009-08-06			ENSG00000080603	ENSG00000080603			16974	protein-coding gene	gene with protein product	"Swi2/Snf2-related ATPase homolog (S. cerevisiae)", "domino homolog 1 (Drosophila)"	611421				10347196, 9205841	Standard	NM_006662		Approved	KIAA0309, EAF1, SWR1, DOMO1	uc002dze.1	Q6ZRS2	OTTHUMG00000132393	ENST00000262518.4:c.3602delC	16.37:g.30733503delC	ENSP00000262518:p.Ala1201fs	Somatic		WXS	Illumina HiSeq	Phase_I	B0JZA6|O15026|Q7Z744|Q9Y5L9	Frame_Shift_Del	DEL	ENST00000262518.4	37	CCDS10689.2																																																																																				0.577	SRCAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255523.1	NM_006662		-	30733503	C	-	30733503	7	5	617	1	0	1	0	1	0	0	0	0	15147	710	25	0	3680	0	SRCAP	16	30733503	Frame_Shift_Del	DEL	C	TCGA-IZ-8196-01A-11D-2396-08	276788	30733503	59621250	105	37763	296	3								
SRCAP	10847	hgsc.bcm.edu;bcgsc.ca	37	chr16	30733505	30733505	+	Missense_Mutation	SNP	G	G	A													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	aacgtccagtggctaatgcaGggggaagcaaacctctcacc							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr16:30733505G>A	ENST00000262518.4	+	22	3989	c.3604G>A	c.(3604-3606)Ggg>Agg	p.G1202R	SRCAP_ENST00000395059.2_Missense_Mutation_p.G1202R|SRCAP_ENST00000344771.4_Missense_Mutation_p.G1106R	NM_006662.2	NP_006653.2	Q6ZRS2	SRCAP_HUMAN	Snf2-related CREBBP activator protein	1202	Pro-rich.				histone acetylation (GO:0016573)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|protein complex (GO:0043234)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|histone acetyltransferase activity (GO:0004402)|transcription coactivator activity (GO:0003713)			NS(1)|breast(3)|cervix(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(22)|liver(3)|lung(62)|ovary(6)|pancreas(1)|prostate(4)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(5)	136			Colorectal(24;0.198)			GGCTAATGCAGGGGGAAGCAA	0.572																																																0													129	107	114					16																	30733505		2197	4300	6497	SO:0001583	missense	10847			AB002307	CCDS10689.2	16p11.2	2009-08-06			ENSG00000080603	ENSG00000080603			16974	protein-coding gene	gene with protein product	"Swi2/Snf2-related ATPase homolog (S. cerevisiae)", "domino homolog 1 (Drosophila)"	611421				10347196, 9205841	Standard	NM_006662		Approved	KIAA0309, EAF1, SWR1, DOMO1	uc002dze.1	Q6ZRS2	OTTHUMG00000132393	ENST00000262518.4:c.3604G>A	16.37:g.30733505G>A	ENSP00000262518:p.Gly1202Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B0JZA6|O15026|Q7Z744|Q9Y5L9	Missense_Mutation	SNP	ENST00000262518.4	37	CCDS10689.2	.	.	.	.	.	.	.	.	.	.	G	15.91	2.973443	0.53614	.	.	ENSG00000080603	ENST00000262518;ENST00000395059;ENST00000344771	D;D;D	0.90900	-2.71;-2.68;-2.75	4.68	4.68	0.58851	.	0.000000	0.49305	D	0.000153	D	0.85961	0.5819	N	0.14661	0.345	0.20821	N	0.999846	P;D;P	0.53462	0.859;0.96;0.933	P;P;P	0.51229	0.572;0.663;0.462	T	0.78420	-0.2211	10	0.31617	T	0.26	-8.9406	12.9347	0.58307	0.0:0.1644:0.8356:0.0	.	1106;1202;1202	Q6ZRS2-3;Q6ZRS2-2;Q6ZRS2	.;.;SRCAP_HUMAN	R	1202;1202;1106	ENSP00000262518:G1202R;ENSP00000378499:G1202R;ENSP00000343042:G1106R	ENSP00000262518:G1202R	G	+	1	0	SRCAP	30641006	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	2.941000	0.49011	2.414000	0.81942	0.462000	0.41574	GGG		0.572	SRCAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255523.1	NM_006662		A	30733505	G	A	30733505	3	1	617	1	0	0	0	0	1	0	0	0	15147	1000	35	2	3682	2	SRCAP	16	30733505	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	2	30733505	59621248	106	37764	296	3								
SRCAP	10847	hgsc.bcm.edu	37	chr16	30733507	30733507	+	Frame_Shift_Del	DEL	G	G	-													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	cgtccagtggctaatgcaggGggaagcaaacctctcacctt							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr16:30733507delG	ENST00000262518.4	+	22	3991	c.3606delG	c.(3604-3606)gggfs	p.G1203fs	SRCAP_ENST00000395059.2_Frame_Shift_Del_p.G1203fs|SRCAP_ENST00000344771.4_Frame_Shift_Del_p.G1107fs	NM_006662.2	NP_006653.2	Q6ZRS2	SRCAP_HUMAN	Snf2-related CREBBP activator protein	1203	Pro-rich.				histone acetylation (GO:0016573)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|protein complex (GO:0043234)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|histone acetyltransferase activity (GO:0004402)|transcription coactivator activity (GO:0003713)			NS(1)|breast(3)|cervix(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(22)|liver(3)|lung(62)|ovary(6)|pancreas(1)|prostate(4)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(5)	136			Colorectal(24;0.198)			CTAATGCAGGGGGAAGCAAAC	0.572																																																0													129	107	114					16																	30733507		2197	4300	6497	SO:0001589	frameshift_variant	10847			AB002307	CCDS10689.2	16p11.2	2009-08-06			ENSG00000080603	ENSG00000080603			16974	protein-coding gene	gene with protein product	"Swi2/Snf2-related ATPase homolog (S. cerevisiae)", "domino homolog 1 (Drosophila)"	611421				10347196, 9205841	Standard	NM_006662		Approved	KIAA0309, EAF1, SWR1, DOMO1	uc002dze.1	Q6ZRS2	OTTHUMG00000132393	ENST00000262518.4:c.3606delG	16.37:g.30733507delG	ENSP00000262518:p.Gly1203fs	Somatic		WXS	Illumina HiSeq	Phase_I	B0JZA6|O15026|Q7Z744|Q9Y5L9	Frame_Shift_Del	DEL	ENST00000262518.4	37	CCDS10689.2																																																																																				0.572	SRCAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255523.1	NM_006662		-	30733507	G	-	30733507	7	5	617	1	0	1	0	1	0	0	0	0	15147	1219	43	0	3684	0	SRCAP	16	30733507	Frame_Shift_Del	DEL	G	TCGA-IZ-8196-01A-11D-2396-08	2	30733507	59621246	107	37765	296	3								
CDH8	1006	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	61851550	61851550	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gtcgccgtgtctttaaagggCcccctgccactgaagcgtgg	13	13	1	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr16:61851550C>T	ENST00000577390.1	-	7	2064	c.1110G>A	c.(1108-1110)ggG>ggA	p.G370G	CDH8_ENST00000584337.1_Silent_p.G370G|CDH8_ENST00000577730.1_Silent_p.G370G|CDH8_ENST00000299345.6_Silent_p.G370G	NM_001796.4	NP_001787.2	P55286	CADH8_HUMAN	cadherin 8, type 2	370	Cadherin 3. {ECO:0000255|PROSITE- ProRule:PRU00043}.				adherens junction organization (GO:0034332)|cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|homophilic cell adhesion (GO:0007156)|response to cold (GO:0009409)|synaptic transmission, glutamatergic (GO:0035249)	axon terminus (GO:0043679)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|synaptic cleft (GO:0043083)	calcium ion binding (GO:0005509)			biliary_tract(1)|breast(3)|cervix(1)|endometrium(7)|kidney(6)|large_intestine(22)|liver(2)|lung(49)|ovary(6)|pancreas(2)|prostate(5)|skin(4)|urinary_tract(4)	112		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)		CTTTAAAGGGCCCCCTGCCAC	0.468																																																0													86	68	74					16																	61851550		2203	4300	6503	SO:0001819	synonymous_variant	1006			L34060	CCDS10802.1	16q22.1	2010-01-26			ENSG00000150394	ENSG00000150394		"Cadherins / Major cadherins"	1767	protein-coding gene	gene with protein product		603008				9615235, 2059658	Standard	NM_001796		Approved		uc002eog.2	P55286	OTTHUMG00000137493	ENST00000577390.1:c.1110G>A	16.37:g.61851550C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KWC1|Q14DC6|Q9ULB2	Silent	SNP	ENST00000577390.1	37	CCDS10802.1																																																																																				0.468	CDH8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268754.3	NM_001796		T	61851550	C	T	61851550	2	4	617	1	0	0	0	0	0	0	0	1	3118	726	26	2		2	CDH8	16	61851550	Silent	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	31118043	61851550	28503203	108	37766										
NAE1	8883	hgsc.bcm.edu	37	chr16	66857505	66857505	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tggcagcttcagctcggttcTttttaaaaacaaagcattta	7	8	2	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr16:66857505T>C	ENST00000290810.3	-	5	347		c.e5-2		NAE1_ENST00000564040.2_Splice_Site|NAE1_ENST00000379463.2_Splice_Site|NAE1_ENST00000359087.4_Splice_Site|NAE1_ENST00000394074.2_Splice_Site			Q13564	ULA1_HUMAN	NEDD8 activating enzyme E1 subunit 1						mitotic DNA replication checkpoint (GO:0033314)|neuron apoptotic process (GO:0051402)|protein neddylation (GO:0045116)|regulation of apoptotic process (GO:0042981)|regulation of neuron apoptotic process (GO:0043523)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	catalytic activity (GO:0003824)|protein heterodimerization activity (GO:0046982)|ubiquitin protein ligase binding (GO:0031625)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(8)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	18		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0914)|Epithelial(162;0.214)	Adenosine triphosphate(DB00171)	AGCTCGGTTCTTTTTAAAAAC	0.328																																																0													54	53	53					16																	66857505		2199	4298	6497	SO:0001630	splice_region_variant	8883			U50939	CCDS10820.1, CCDS42171.1, CCDS42172.1, CCDS67050.1	16q22	2013-09-26	2007-12-11	2007-12-11	ENSG00000159593	ENSG00000159593		"Ubiquitin-like modifier activating enzymes"	621	protein-coding gene	gene with protein product		603385	"amyloid beta precursor protein binding protein 1, 59kDa"	APPBP1		8626687, 12740388	Standard	XM_005256215		Approved	ula-1	uc002eqf.3	Q13564	OTTHUMG00000137513	ENST00000290810.3:c.250-2A>G	16.37:g.66857505T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NCK0|A6NFN4|A8MU28|B2R700|B3KUP9	Splice_Site	SNP	ENST00000290810.3	37	CCDS10820.1	.	.	.	.	.	.	.	.	.	.	T	16.97	3.269067	0.59540	.	.	ENSG00000159593	ENST00000359087;ENST00000290810;ENST00000379463	.	.	.	5.16	5.16	0.70880	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.2991	0.73933	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	NAE1	65415006	1.000000	0.71417	1.000000	0.80357	0.963000	0.63663	6.688000	0.74557	2.075000	0.62263	0.383000	0.25322	.		0.328	NAE1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000268832.1	NM_003905	Intron	C	66857505	T	C	66857505	5	2	617	1	0	0	0	0	0	0	1	0	10146	1623	56	3	1420	3	NAE1	16	66857505	Splice_Site	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	5005955	66857505	23497248	109	37767										
CDT1	81620	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	88872437	88872437	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ctcgtcccacagaggctgacGgagcagccccccagctcacg	11	18	1	2	rs368718178		TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr16:88872437G>A	ENST00000301019.4	+	6	1460	c.841G>A	c.(841-843)Gga>Aga	p.G281R		NM_030928.3	NP_112190.2			chromatin licensing and DNA replication factor 1											central_nervous_system(1)|endometrium(2)|kidney(1)|lung(3)	7				BRCA - Breast invasive adenocarcinoma(80;0.0476)		AGAGGCTGACGGAGCAGCCCC	0.672																																					Melanoma(159;511 3380 30971)											0								G	ARG/GLY	1,4361		0,1,2180	15	17	16		841	-3.5	0	16		16	0,8566		0,0,4283	no	missense	CDT1	NM_030928.3	125	0,1,6463	AA,AG,GG		0.0,0.0229,0.0077	possibly-damaging	281/547	88872437	1,12927	2181	4283	6464	SO:0001583	missense	81620			AF070552	CCDS32510.1	16q24.3	2014-08-12			ENSG00000167513	ENSG00000167513			24576	protein-coding gene	gene with protein product		605525				11896191, 11555648	Standard	NM_030928		Approved	DUP, RIS2	uc002flu.3	Q9H211	OTTHUMG00000173467	ENST00000301019.4:c.841G>A	16.37:g.88872437G>A	ENSP00000301019:p.Gly281Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000301019.4	37	CCDS32510.1	.	.	.	.	.	.	.	.	.	.	G	13.49	2.253471	0.39797	2.29E-4	0.0	ENSG00000167513	ENST00000301019	T	0.23552	1.9	4.83	-3.49	0.04724	.	1.014200	0.07884	N	0.970068	T	0.13030	0.0316	L	0.35487	1.065	0.30312	N	0.788448	P	0.51351	0.944	B	0.38458	0.274	T	0.37033	-0.9723	10	0.20046	T	0.44	.	4.4942	0.11828	0.0996:0.2944:0.5056:0.1004	.	281	Q9H211	CDT1_HUMAN	R	281	ENSP00000301019:G281R	ENSP00000301019:G281R	G	+	1	0	CDT1	87399938	0.003000	0.15002	0.000000	0.03702	0.004000	0.04260	0.790000	0.26900	-0.552000	0.06167	0.462000	0.41574	GGA		0.672	CDT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000423215.1	NM_030928		A	88872437	G	A	88872437	3	1	617	1	0	0	0	0	1	0	0	0	3182	1117	39	1	863	1	CDT1	16	88872437	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	22014932	88872437	1482316	110	37768										
DLG4	1742	bcgsc.ca	37	chr17	7100206	7100206	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	agcccaggcccgtggagcccCggtggatcacaattcgcctc	12	16	1	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr17:7100206C>T	ENST00000399506.2	-	9	1144	c.953G>A	c.(952-954)cGg>cAg	p.R318Q	DLG4_ENST00000399510.2_Missense_Mutation_p.R361Q|DLG4_ENST00000302955.6_Missense_Mutation_p.R315Q			P78352	DLG4_HUMAN	discs, large homolog 4 (Drosophila)	318	PDZ 3. {ECO:0000255|PROSITE- ProRule:PRU00143}.				alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor clustering (GO:0097113)|axon guidance (GO:0007411)|dendritic spine morphogenesis (GO:0060997)|establishment of protein localization (GO:0045184)|learning (GO:0007612)|locomotory exploration behavior (GO:0035641)|negative regulation of receptor internalization (GO:0002091)|nervous system development (GO:0007399)|neuromuscular process controlling balance (GO:0050885)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of synaptic transmission (GO:0050806)|protein complex assembly (GO:0006461)|protein localization to synapse (GO:0035418)|receptor localization to synapse (GO:0097120)|regulation of grooming behavior (GO:2000821)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)|signal transduction (GO:0007165)|social behavior (GO:0035176)|synaptic transmission (GO:0007268)|synaptic vesicle maturation (GO:0016188)|vocalization behavior (GO:0071625)	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex (GO:0032281)|cell junction (GO:0030054)|cerebellar mossy fiber (GO:0044300)|cortical cytoskeleton (GO:0030863)|cytoplasm (GO:0005737)|dendrite cytoplasm (GO:0032839)|dendritic spine (GO:0043197)|endocytic vesicle membrane (GO:0030666)|endoplasmic reticulum (GO:0005783)|excitatory synapse (GO:0060076)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)|juxtaparanode region of axon (GO:0044224)|neuron projection terminus (GO:0044306)|neuron spine (GO:0044309)|neuronal postsynaptic density (GO:0097481)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)|synapse (GO:0045202)|synaptic vesicle (GO:0008021)	acetylcholine receptor binding (GO:0033130)|beta-1 adrenergic receptor binding (GO:0031697)|D1 dopamine receptor binding (GO:0031748)|ionotropic glutamate receptor binding (GO:0035255)|P2Y1 nucleotide receptor binding (GO:0031812)|PDZ domain binding (GO:0030165)|protein C-terminus binding (GO:0008022)|protein complex binding (GO:0032403)|protein phosphatase binding (GO:0019903)|scaffold protein binding (GO:0097110)			breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(8)|ovary(2)	18					Guanidine(DB00536)	CGTGGAGCCCCGGTGGATCAC	0.642																																																0													35	44	41					17																	7100206		2118	4260	6378	SO:0001583	missense	1742			U83192	CCDS45599.1, CCDS45600.1	17p13.1	2008-12-15	2001-12-04		ENSG00000132535	ENSG00000132535			2903	protein-coding gene	gene with protein product		602887				9286702	Standard	NM_001128827		Approved	PSD-95, PSD95, SAP90, SAP-90	uc010cly.3	P78352	OTTHUMG00000134327	ENST00000399506.2:c.953G>A	17.37:g.7100206C>T	ENSP00000382425:p.Arg318Gln	Somatic		WXS	Illumina HiSeq	Phase_1	B7Z1S1|G5E939|Q92941|Q9UKK8	Missense_Mutation	SNP	ENST00000399506.2	37		.	.	.	.	.	.	.	.	.	.	C	29.4	4.999950	0.93227	.	.	ENSG00000132535	ENST00000399506;ENST00000302955;ENST00000399510;ENST00000293813;ENST00000380912;ENST00000539674	T;T;T	0.55930	0.49;0.49;0.49	5.28	5.28	0.74379	PDZ/DHR/GLGF (3);	.	.	.	.	T	0.72342	0.3448	M	0.88570	2.965	0.58432	D	0.999997	P;P;D;D	0.76494	0.955;0.904;0.999;0.998	P;P;D;D	0.70716	0.802;0.758;0.955;0.97	T	0.72988	-0.4124	9	0.30078	T	0.28	.	9.9464	0.41611	0.0:0.9084:0.0:0.0916	.	358;318;315;361	B9EGL1;P78352;G5E939;P78352-2	.;DLG4_HUMAN;.;.	Q	318;315;361;361;258;361	ENSP00000382425:R318Q;ENSP00000307471:R315Q;ENSP00000382428:R361Q	ENSP00000293813:R361Q	R	-	2	0	DLG4	7040930	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.127000	0.50484	2.455000	0.83008	0.655000	0.94253	CGG		0.642	DLG4-002	KNOWN	non_canonical_TEC|not_organism_supported|basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000259419.2	NM_001365		T	7100206	C	T	7100206	3	4	617	1	0	0	0	0	1	0	0	0	4559	652	23	1	1269	1	DLG4	17	7100206	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08		7100206	74095004	111	37769										
MAP2K4	6416	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	12016635	12016635	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	agtggacagcttgtggactcTattgccaagacaagagatgc	12	8	1	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr17:12016635T>C	ENST00000353533.5	+	7	834	c.771T>C	c.(769-771)tcT>tcC	p.S257S	MAP2K4_ENST00000415385.3_Silent_p.S268S|MAP2K4_ENST00000581941.1_3'UTR	NM_003010.2	NP_003001.1	P45985	MP2K4_HUMAN	mitogen-activated protein kinase kinase 4	257	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				apoptotic process (GO:0006915)|cellular response to mechanical stimulus (GO:0071260)|cellular response to sorbitol (GO:0072709)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|JNK cascade (GO:0007254)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|positive regulation of DNA replication (GO:0045740)|positive regulation of neuron apoptotic process (GO:0043525)|signal transduction (GO:0007165)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytosol (GO:0005829)|dendrite cytoplasm (GO:0032839)|nucleus (GO:0005634)|perikaryon (GO:0043204)	ATP binding (GO:0005524)|JUN kinase kinase activity (GO:0008545)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|protein tyrosine kinase activity (GO:0004713)	p.0?(10)|p.?(1)		NS(1)|biliary_tract(2)|breast(22)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(26)|lung(15)|ovary(8)|pancreas(11)|skin(3)|stomach(2)|testis(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	100		all_cancers(5;0.0413)|Breast(5;0.000625)|all_epithelial(5;0.00978)|all_lung(20;0.0449)|Lung NSC(33;0.163)		Epithelial(2;4.12e-09)|all cancers(2;6.86e-07)|BRCA - Breast invasive adenocarcinoma(2;8.74e-07)|Colorectal(4;5.32e-05)|COAD - Colon adenocarcinoma(4;0.0039)|READ - Rectum adenocarcinoma(10;0.0681)		TTGTGGACTCTATTGCCAAGA	0.453			"D, Mis, N"		"pancreatic, breast, colorectal"																																		Rec	yes		17	17p11.2	6416	mitogen-activated protein kinase kinase 4		E	11	Whole gene deletion(10)|Unknown(1)	ovary(4)|breast(4)|biliary_tract(1)|large_intestine(1)|pancreas(1)											105	101	102					17																	12016635		2203	4300	6503	SO:0001819	synonymous_variant	6416			L36870	CCDS11162.1, CCDS62095.1	17p12	2012-03-23			ENSG00000065559	ENSG00000065559	2.7.12.2	"Mitogen-activated protein kinase cascade / Kinase kinases"	6844	protein-coding gene	gene with protein product		601335		SERK1		7716521	Standard	NM_003010		Approved	MEK4, JNKK1, PRKMK4, MKK4	uc002gnj.3	P45985		ENST00000353533.5:c.771T>C	17.37:g.12016635T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R7N7|B3KYB2|D3DTS5|Q5U0B8|Q6FHX4|Q6P9H2|Q6PIE6	Silent	SNP	ENST00000353533.5	37	CCDS11162.1																																																																																				0.453	MAP2K4-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000441226.1			C	12016635	T	C	12016635	2	2	617	1	0	0	0	0	0	0	0	1	9246	1509	53	3		3	MAP2K4	17	12016635	Silent	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	4916429	12016635	69178575	112	37770										
NAGLU	4669	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	40695935	40695935	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	agtgaggccgaggccgatttCtacgagcagaacagccgcta	13	11	1	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr17:40695935C>T	ENST00000225927.2	+	6	2012	c.1911C>T	c.(1909-1911)ttC>ttT	p.F637F	RP11-400F19.8_ENST00000585572.1_RNA	NM_000263.3	NP_000254.2	P54802	ANAG_HUMAN	N-acetylglucosaminidase, alpha	637					carbohydrate metabolic process (GO:0005975)|cerebellar Purkinje cell layer development (GO:0021680)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|inner ear receptor cell development (GO:0060119)|locomotor rhythm (GO:0045475)|lysosome organization (GO:0007040)|middle ear morphogenesis (GO:0042474)|nervous system development (GO:0007399)|retinal rod cell development (GO:0046548)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)|lysosome (GO:0005764)	alpha-N-acetylglucosaminidase activity (GO:0004561)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(1)|ovary(2)|skin(1)	12		all_cancers(22;1.58e-05)|Breast(137;0.000153)|all_epithelial(22;0.000344)		BRCA - Breast invasive adenocarcinoma(366;0.13)	N-Acetyl-D-glucosamine(DB00141)	AGGCCGATTTCTACGAGCAGA	0.627																																																0													25	21	22					17																	40695935		2202	4295	6497	SO:0001819	synonymous_variant	4669				CCDS11427.1	17q21.2	2010-07-27	2010-07-27		ENSG00000108784	ENSG00000108784	3.2.1.50		7632	protein-coding gene	gene with protein product	"Sanfilippo disease IIIB"	609701					Standard	XM_006721920		Approved	NAG	uc002hzv.3	P54802		ENST00000225927.2:c.1911C>T	17.37:g.40695935C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000225927.2	37	CCDS11427.1																																																																																				0.627	NAGLU-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450385.1	NM_000263		T	40695935	C	T	40695935	2	4	617	1	0	0	0	0	0	0	0	1	10150	912	32	2		2	NAGLU	17	40695935	Silent	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	28679300	40695935	40499275	113	37771										
LSM12	124801	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	42117589	42117589	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	attgcataggcctggctcagCttctcctccttctctgtccg	8	15	3	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr17:42117589C>T	ENST00000591247.1	-	4	616	c.294G>A	c.(292-294)aaG>aaA	p.K98K	LSM12_ENST00000585388.1_Silent_p.K98K|LSM12_ENST00000293406.3_Silent_p.K98K	NM_152344.3	NP_689557.1	Q3MHD2	LSM12_HUMAN	LSM12 homolog (S. cerevisiae)	98										NS(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(1)|prostate(1)	6		Breast(137;0.0313)|Prostate(33;0.0861)		BRCA - Breast invasive adenocarcinoma(366;0.115)		CCTGGCTCAGCTTCTCCTCCT	0.517																																																0													99	72	81					17																	42117589		2203	4300	6503	SO:0001819	synonymous_variant	124801			BC044587	CCDS11475.1	17q21.31	2007-08-21				ENSG00000161654			26407	protein-coding gene	gene with protein product		611793				15225602	Standard	NM_152344		Approved	FLJ30656	uc002iev.3	Q3MHD2		ENST00000591247.1:c.294G>A	17.37:g.42117589C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q86YB1|Q96NL5	Silent	SNP	ENST00000591247.1	37	CCDS11475.1																																																																																				0.517	LSM12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457672.1	NM_152344		T	42117589	C	T	42117589	2	4	617	1	0	0	0	0	0	0	0	1	9060	796	28	2		2	LSM12	17	42117589	Silent	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	1421654	42117589	39077621	114	37772										
HEATR6	63897	hgsc.bcm.edu	37	chr17	58156270	58156270	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gaaccgacaacttgcacagcAgccatcttttctacgggcgg	10	13	2	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr17:58156270A>G	ENST00000184956.6	-	1	22	c.6T>C	c.(4-6)gcT>gcC	p.A2A	HEATR6_ENST00000585976.1_Silent_p.A2A|HEATR6_ENST00000585712.1_5'UTR|CTD-2319I12.2_ENST00000589740.1_lincRNA	NM_022070.4	NP_071353.4	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	2							poly(A) RNA binding (GO:0044822)			NS(1)|breast(4)|endometrium(5)|kidney(2)|large_intestine(4)|lung(7)|ovary(2)|pancreas(1)|prostate(4)|skin(10)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	44	all_cancers(5;2.25e-13)|Breast(5;4.84e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		BRCA - Breast invasive adenocarcinoma(1;5.93e-19)|Epithelial(12;7.59e-12)|all cancers(12;1.26e-10)			CTTGCACAGCAGCCATCTTTT	0.622																																																0													11	10	10					17																	58156270		2183	4273	6456	SO:0001819	synonymous_variant	63897			BX640819	CCDS11623.1	17q23.2	2007-05-01				ENSG00000068097			24076	protein-coding gene	gene with protein product	"amplified in breast cancer 1"					12755490	Standard	NM_022070		Approved	ABC1, FLJ22087	uc002iyk.1	Q6AI08		ENST00000184956.6:c.6T>C	17.37:g.58156270A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KXP3|Q6MZX1|Q6MZY2|Q8TDM9|Q9H6B3|Q9H6M7	Silent	SNP	ENST00000184956.6	37	CCDS11623.1																																																																																				0.622	HEATR6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449165.1	NM_022070		G	58156270	A	G	58156270	2	3	617	1	0	0	0	0	0	0	0	1	7040	175	7	3		3	HEATR6	17	58156270	Silent	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	16038681	58156270	23038940	115	37773										
ERN1	2081	hgsc.bcm.edu	37	chr17	62133043	62133043	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	aactggctttacctccatcgTcttgttccagggaggggctg	12	11	1	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr17:62133043T>C	ENST00000433197.3	-	13	1759	c.1664A>G	c.(1663-1665)gAc>gGc	p.D555G		NM_001433.3	NP_001424.3			endoplasmic reticulum to nucleus signaling 1											central_nervous_system(4)|kidney(1)|lung(2)|ovary(1)|stomach(1)	9						ACCTCCATCGTCTTGTTCCAG	0.562																																																0													26	28	27					17																	62133043		2048	4218	6266	SO:0001583	missense	2081			AF059198	CCDS45762.1	17q23	2011-08-12	2007-08-14			ENSG00000178607			3449	protein-coding gene	gene with protein product	"inositol-requiring enzyme 1"	604033	"ER to nucleus signalling 1"			9637683	Standard	NM_001433		Approved	IRE1, IRE1P	uc002jdz.2	O75460		ENST00000433197.3:c.1664A>G	17.37:g.62133043T>C	ENSP00000401445:p.Asp555Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000433197.3	37	CCDS45762.1	.	.	.	.	.	.	.	.	.	.	T	11.48	1.650204	0.29336	.	.	ENSG00000178607	ENST00000433197	T	0.60797	0.16	5.01	5.01	0.66863	.	0.062618	0.64402	D	0.000008	T	0.35624	0.0938	N	0.08118	0	0.47511	D	0.999447	B	0.29037	0.231	B	0.19946	0.027	T	0.25257	-1.0137	10	0.36615	T	0.2	-24.8143	13.317	0.60413	0.0:0.0:0.0:1.0	.	555	O75460	ERN1_HUMAN	G	555	ENSP00000401445:D555G	ENSP00000401445:D555G	D	-	2	0	ERN1	59486775	1.000000	0.71417	0.377000	0.26055	0.153000	0.21895	5.452000	0.66638	1.880000	0.54463	0.334000	0.21626	GAC		0.562	ERN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443734.2	NM_001433		C	62133043	T	C	62133043	3	2	617	1	0	0	0	0	1	0	0	0	5239	1667	58	3	1309	3	ERN1	17	62133043	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	3976773	62133043	19062167	116	37774										
AMH	268	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	2249551	2249551	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gctcccccctgcgggtggtgGgggctctaagcgcctatgag	16	13	1	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr19:2249551G>T	ENST00000221496.4	+	1	242	c.220G>T	c.(220-222)Ggg>Tgg	p.G74W	MIR4321_ENST00000592276.1_RNA	NM_000479.3	NP_000470	P03971	MIS_HUMAN	anti-Mullerian hormone	74					aging (GO:0007568)|cell-cell signaling (GO:0007267)|gonadal mesoderm development (GO:0007506)|Mullerian duct regression (GO:0001880)|positive regulation of gene expression (GO:0010628)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|preantral ovarian follicle growth (GO:0001546)|response to drug (GO:0042493)|response to organic cyclic compound (GO:0014070)|sex determination (GO:0007530)|sex differentiation (GO:0007548)|urogenital system development (GO:0001655)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)	hormone activity (GO:0005179)|receptor binding (GO:0005102)			lung(2)	2		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)		GCGGGTGGTGGGGGCTCTAAG	0.692									Persistant Mullerian Duct Syndrome (type I and II)																																							0													8	11	10					19																	2249551		2163	4282	6445	SO:0001583	missense	268	Familial Cancer Database	PMDS, Persistent Oviduct Syndrome	K03474	CCDS12085.1	19p13.3	2014-01-30				ENSG00000104899		"Endogenous ligands"	464	protein-coding gene	gene with protein product		600957				3754790, 18784351	Standard	NM_000479		Approved	MIS	uc002lvh.2	P03971		ENST00000221496.4:c.220G>T	19.37:g.2249551G>T	ENSP00000221496:p.Gly74Trp	Somatic		WXS	Illumina HiSeq	Phase_I	O75246|Q6GTN3	Missense_Mutation	SNP	ENST00000221496.4	37	CCDS12085.1	.	.	.	.	.	.	.	.	.	.	G	11.06	1.527815	0.27299	.	.	ENSG00000104899	ENST00000221496	D	0.94687	-3.49	3.75	3.75	0.43078	.	0.168909	0.38548	U	0.001642	D	0.95010	0.8385	L	0.34521	1.04	0.44555	D	0.997518	D	0.89917	1.0	D	0.91635	0.999	D	0.95614	0.8675	10	0.87932	D	0	-23.8931	14.1364	0.65291	0.0:0.0:1.0:0.0	.	74	P03971	MIS_HUMAN	W	74	ENSP00000221496:G74W	ENSP00000221496:G74W	G	+	1	0	AMH	2200551	1.000000	0.71417	0.103000	0.21229	0.001000	0.01503	5.367000	0.66127	1.657000	0.50732	0.462000	0.41574	GGG		0.692	AMH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451276.3	NM_000479		T	2249551	G	T	2249551	3	4	617	1	0	0	0	0	1	0	0	0	572	1232	43	4	222	4	AMH	19	2249551	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08		2249551	56879432	117	37775										
CLEC4M	10332	hgsc.bcm.edu	37	chr19	7832420	7832420	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	agaacttcctacagctgcagActtccaggagtaaccgcttc	8	13	0	2			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr19:7832420A>T	ENST00000327325.5	+	6	1073	c.955A>T	c.(955-957)Act>Tct	p.T319S	CLEC4M_ENST00000595496.1_Missense_Mutation_p.T183S|CLEC4M_ENST00000596363.1_Intron|CLEC4M_ENST00000394122.2_Missense_Mutation_p.T307S|CLEC4M_ENST00000334806.5_Missense_Mutation_p.T268S|CLEC4M_ENST00000357361.2_Intron|CLEC4M_ENST00000597522.1_Intron|CLEC4M_ENST00000359059.5_Missense_Mutation_p.T252S|CLEC4M_ENST00000596707.1_Missense_Mutation_p.T252S|CLEC4M_ENST00000248228.4_Missense_Mutation_p.T297S	NM_001144909.1|NM_014257.4	NP_001138381.1|NP_055072.3	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M	319	C-type lectin. {ECO:0000255|PROSITE- ProRule:PRU00040}.				antigen processing and presentation (GO:0019882)|cell-cell recognition (GO:0009988)|endocytosis (GO:0006897)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|intracellular transport of virus (GO:0075733)|leukocyte cell-cell adhesion (GO:0007159)|modulation by virus of host morphology or physiology (GO:0019048)|peptide antigen transport (GO:0046968)|regulation of blood coagulation (GO:0030193)|regulation of gene expression (GO:0010468)|viral genome replication (GO:0019079)|virion attachment to host cell (GO:0019062)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	carbohydrate binding (GO:0030246)|ICAM-3 receptor activity (GO:0030369)|mannose binding (GO:0005537)|metal ion binding (GO:0046872)|peptide antigen binding (GO:0042605)|receptor activity (GO:0004872)|virion binding (GO:0046790)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(10)|pancreas(1)|prostate(1)|skin(1)	26						ACAGCTGCAGACTTCCAGGAG	0.552																																																0													102	89	94					19																	7832420		2203	4300	6503	SO:0001583	missense	10332			AB015629	CCDS12187.1, CCDS59346.1, CCDS59347.1, CCDS59348.1	19p13	2008-02-05	2005-02-04	2005-02-11		ENSG00000104938		"C-type lectin domain containing", "CD molecules"	13523	protein-coding gene	gene with protein product		605872	"CD299 antigen"	CD209L, CD299		10072769	Standard	NM_001144904		Approved	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2	uc010dvt.3	Q9H2X3		ENST00000327325.5:c.955A>T	19.37:g.7832420A>T	ENSP00000316228:p.Thr319Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKI4|A8K8B3|Q69F40|Q969M4|Q96QP3|Q96QP4|Q96QP5|Q96QP6|Q9BXS3|Q9H2Q9|Q9H8F0|Q9Y2A8	Missense_Mutation	SNP	ENST00000327325.5	37	CCDS12187.1	.	.	.	.	.	.	.	.	.	.	A	0.007	-1.947181	0.00475	.	.	ENSG00000104938	ENST00000327325;ENST00000394122;ENST00000248228;ENST00000334806;ENST00000359059	T;T;T;T;T	0.16897	2.31;2.31;2.31;2.31;2.31	2.42	-4.84	0.03151	C-type lectin fold (1);C-type lectin-like (1);C-type lectin (3);	.	.	.	.	T	0.08044	0.0201	N	0.25426	0.745	0.09310	N	0.999998	B;B;B;B;B;B	0.09022	0.002;0.0;0.001;0.0;0.001;0.001	B;B;B;B;B;B	0.13407	0.007;0.0;0.004;0.007;0.002;0.009	T	0.38735	-0.9647	9	0.13108	T	0.6	.	3.4919	0.07641	0.3644:0.0:0.3242:0.3114	.	268;252;319;307;296;183	B4E2Z5;Q9H2X3-5;Q9H2X3;E7ENS9;Q9H2X3-8;Q9H2X3-7	.;.;CLC4M_HUMAN;.;.;.	S	319;307;297;268;252	ENSP00000316228:T319S;ENSP00000377680:T307S;ENSP00000248228:T297S;ENSP00000335228:T268S;ENSP00000351954:T252S	ENSP00000248228:T297S	T	+	1	0	CLEC4M	7738420	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.311000	0.08124	-2.225000	0.00724	-2.665000	0.00146	ACT		0.552	CLEC4M-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000461161.1	NM_014257		T	7832420	A	T	7832420	3	4	617	1	0	0	0	0	1	0	0	0	3520	275	10	5	998	5	CLEC4M	19	7832420	Missense_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	5582869	7832420	51296563	118	37776										
ADAMTS10	81794	hgsc.bcm.edu	37	chr19	8645860	8645860	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tttgagcaccagggggcagtAggcgaccttgttcacatcct	12	11	1	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr19:8645860A>G	ENST00000597188.1	-	26	3499	c.3229T>C	c.(3229-3231)Tac>Cac	p.Y1077H	AC130469.2_ENST00000597256.1_RNA|ADAMTS10_ENST00000270328.4_Missense_Mutation_p.Y1077H|ADAMTS10_ENST00000595838.1_Missense_Mutation_p.Y564H	NM_030957.2	NP_112219.3	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 10	1077	PLAC. {ECO:0000255|PROSITE- ProRule:PRU00233}.					extracellular matrix (GO:0031012)|microfibril (GO:0001527)	metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(2)|kidney(16)|large_intestine(5)|lung(9)|ovary(1)|pancreas(2)|prostate(3)|skin(10)|urinary_tract(1)	53						AGGGGGCAGTAGGCGACCTTG	0.617											OREG0025220	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													51	42	45					19																	8645860		2203	4300	6503	SO:0001583	missense	81794			AF163762	CCDS12206.1, CCDS62529.1	19p13.2	2014-08-12	2005-08-19		ENSG00000142303	ENSG00000142303		"ADAM metallopeptidases with thrombospondin type 1 motif"	13201	protein-coding gene	gene with protein product		608990	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 10"				Standard	XM_005272499		Approved	ADAM-TS10	uc002mkj.1	Q9H324	OTTHUMG00000182216	ENST00000597188.1:c.3229T>C	19.37:g.8645860A>G	ENSP00000471851:p.Tyr1077His	Somatic	650	WXS	Illumina HiSeq	Phase_I	M0QZE4	Missense_Mutation	SNP	ENST00000597188.1	37	CCDS12206.1	.	.	.	.	.	.	.	.	.	.	A	28.3	4.904566	0.92035	.	.	ENSG00000142303	ENST00000270328	T	0.48836	0.8	5.47	5.47	0.80525	PLAC (2);	0.000000	0.64402	U	0.000001	T	0.61640	0.2363	L	0.43152	1.355	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.64769	-0.6329	10	0.87932	D	0	.	14.7435	0.69474	1.0:0.0:0.0:0.0	.	1077;564	Q9H324;E9PCI6	ATS10_HUMAN;.	H	1077	ENSP00000270328:Y1077H	ENSP00000270328:Y1077H	Y	-	1	0	ADAMTS10	8551860	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	8.849000	0.92178	2.075000	0.62263	0.448000	0.29417	TAC		0.617	ADAMTS10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460085.3	NM_030957		G	8645860	A	G	8645860	3	3	617	1	0	0	0	0	1	0	0	0	256	420	15	3	86	3	ADAMTS10	19	8645860	Missense_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	813440	8645860	50483123	119	37777										
CD97	976	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	14518917	14518918	+	Frame_Shift_Ins	INS	-	-	A													0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ctccaggccctcagggcatcINSagagtccggcatatgaaggc							TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr19:14518917_14518918insA	ENST00000242786.5	+	20	2572_2573	c.2492_2493insA	c.(2491-2496)tcagagfs	p.E832fs	DDX39A_ENST00000592927.1_5'Flank|CD97_ENST00000357355.3_Frame_Shift_Ins_p.E783fs|CTC-548K16.5_ENST00000590626.1_RNA|CD97_ENST00000358600.3_Frame_Shift_Ins_p.E739fs	NM_078481.3	NP_510966.1	P48960	CD97_HUMAN	CD97 molecule	832					cell adhesion (GO:0007155)|cell surface receptor signaling pathway (GO:0007166)|cell-cell signaling (GO:0007267)|cellular component movement (GO:0006928)|G-protein coupled receptor signaling pathway (GO:0007186)|immune response (GO:0006955)|inflammatory response (GO:0006954)|neuropeptide signaling pathway (GO:0007218)	extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)|transmembrane signaling receptor activity (GO:0004888)			breast(2)|endometrium(3)|kidney(1)|large_intestine(6)|liver(1)|lung(9)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	30						CTCAGGGCATCAGAGTCCGGCA	0.663																																																0																																										SO:0001589	frameshift_variant	976				CCDS32929.1, CCDS32930.1, CCDS32931.1	19p13	2014-08-08	2006-03-28			ENSG00000123146		"CD molecules", "-", "GPCR / Class B : Orphans"	1711	protein-coding gene	gene with protein product	"leukocyte antigen CD97", "seven-span transmembrane protein", "seven-transmembrane, heterodimeric receptor associated with inflammation", "seven transmembrane helix receptor"	601211	"CD97 antigen"			7636245, 8786105	Standard	NM_078481		Approved	TM7LN1	uc002myl.3	P48960		ENST00000242786.5:c.2493dupA	19.37:g.14518918_14518918dupA	ENSP00000242786:p.Glu832fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7Z4|B2RBJ9|O00718|O76101|Q8NG72|Q8TBQ7	Frame_Shift_Ins	INS	ENST00000242786.5	37	CCDS32929.1																																																																																				0.663	CD97-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459821.2	NM_078481		A	14518918	-	A	14518917	7	5	617	1	0	1	1	0	0	0	0	0	3051	838	29	0	2570	0	CD97	19	14518917	Frame_Shift_Ins	INS	-	TCGA-IZ-8196-01A-11D-2396-08	5873057	14518917	44610066	120	37778										
DHX34	9704	hgsc.bcm.edu	37	chr19	47856881	47856881	+	Nonsense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tccactcaggtgccccagtaCctgctggctgctggcttcag	11	15	2	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr19:47856881C>G	ENST00000328771.4	+	2	943	c.594C>G	c.(592-594)taC>taG	p.Y198*		NM_014681.5	NP_055496.2	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	198	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:2000623)|nuclear-transcribed mRNA catabolic process (GO:0000956)	membrane (GO:0016020)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|lung(8)|ovary(5)|prostate(5)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	36		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)		TGCCCCAGTACCTGCTGGCTG	0.637																																																0													22	25	24					19																	47856881		2203	4300	6503	SO:0001587	stop_gained	9704			D50924	CCDS12700.1	19q13.3	2003-06-13	2003-06-13	2003-06-13	ENSG00000134815	ENSG00000134815		"DEAH-boxes"	16719	protein-coding gene	gene with protein product		615475	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 34"	DDX34		10708517, 8590280	Standard	NM_014681		Approved	KIAA0134	uc010xyn.2	Q14147	OTTHUMG00000149959	ENST00000328771.4:c.594C>G	19.37:g.47856881C>G	ENSP00000331907:p.Tyr198*	Somatic		WXS	Illumina HiSeq	Phase_I	B4DMY8	Nonsense_Mutation	SNP	ENST00000328771.4	37	CCDS12700.1	.	.	.	.	.	.	.	.	.	.	C	40	8.010007	0.98607	.	.	ENSG00000134815	ENST00000328771;ENST00000257252	.	.	.	5.26	5.26	0.73747	.	0.000000	0.49305	D	0.000157	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-7.6164	17.6312	0.88108	0.0:1.0:0.0:0.0	.	.	.	.	X	198	.	ENSP00000257252:Y198X	Y	+	3	2	DHX34	52548721	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	1.207000	0.32333	2.461000	0.83175	0.555000	0.69702	TAC		0.637	DHX34-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000314313.3	NM_014681		G	47856881	C	G	47856881	4	3	617	1	0	0	0	0	0	1	0	0	4509	518	18	4	596	4	DHX34	19	47856881	Nonsense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	33337964	47856881	11272102	121	37779										
SNPH	9751	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	1286555	1286555	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	cctggctttgccgctcccagCggcgccagggccagcccatc	12	19	0	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr20:1286555C>T	ENST00000381873.3	+	6	1578	c.1342C>T	c.(1342-1344)Cgg>Tgg	p.R448W	SNPH_ENST00000381867.1_Missense_Mutation_p.R492W	NM_014723.2	NP_055538.2	O15079	SNPH_HUMAN	syntaphilin	448					brain development (GO:0007420)|neuron differentiation (GO:0030182)|neurotransmitter secretion (GO:0007269)|synaptic vesicle docking involved in exocytosis (GO:0016081)	cell junction (GO:0030054)|cytoplasmic microtubule (GO:0005881)|integral component of membrane (GO:0016021)|mitochondrial membrane (GO:0031966)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|presynaptic membrane (GO:0042734)	syntaxin-1 binding (GO:0017075)			endometrium(2)|large_intestine(4)|lung(10)|ovary(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	23						CCGCTCCCAGCGGCGCCAGGG	0.672																																																0													16	10	12					20																	1286555		2131	4210	6341	SO:0001583	missense	9751				CCDS13012.1	20p13	2008-07-02			ENSG00000101298	ENSG00000101298			15931	protein-coding gene	gene with protein product		604942				10707983	Standard	NM_014723		Approved	bA314N13.5	uc002wes.3	O15079	OTTHUMG00000031662	ENST00000381873.3:c.1342C>T	20.37:g.1286555C>T	ENSP00000371297:p.Arg448Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYI3	Missense_Mutation	SNP	ENST00000381873.3	37	CCDS13012.1	.	.	.	.	.	.	.	.	.	.	C	15.03	2.712880	0.48517	.	.	ENSG00000101298	ENST00000381873;ENST00000381867	.	.	.	4.24	1.16	0.20824	.	0.431073	0.21513	N	0.073349	T	0.59729	0.2215	M	0.62723	1.935	0.31113	N	0.709748	D;D	0.89917	1.0;1.0	D;D	0.79108	0.992;0.992	T	0.61088	-0.7133	9	0.87932	D	0	-28.0671	7.7271	0.28765	0.5262:0.3946:0.0:0.0791	.	492;448	O15079-2;O15079	.;SNPH_HUMAN	W	448;492	.	ENSP00000371291:R492W	R	+	1	2	SNPH	1234555	0.992000	0.36948	0.981000	0.43875	0.898000	0.52572	0.375000	0.20518	0.083000	0.17047	-0.268000	0.10319	CGG		0.672	SNPH-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000145240.2	NM_014723		T	1286555	C	T	1286555	3	4	617	1	0	0	0	0	1	0	0	0	14863	759	27	1	1356	1	SNPH	20	1286555	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08		1286555	61738965	122	37780										
LSM14B	149986	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	60705292	60705292	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tagatgtagtccagccggcaGctgtgcaagctcaagggcag	14	10	1	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr20:60705292G>A	ENST00000279068.6	+	5	773	c.613G>A	c.(613-615)Gct>Act	p.A205T	LSM14B_ENST00000253001.4_Intron	NM_144703.2	NP_653304.2	Q9BX40	LS14B_HUMAN	LSM14B, SCD6 homolog B (S. cerevisiae)	205					multicellular organismal development (GO:0007275)|regulation of translation (GO:0006417)	ribonucleoprotein complex (GO:0030529)	poly(A) RNA binding (GO:0044822)			endometrium(3)|kidney(1)|lung(4)	8	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			CCAGCCGGCAGCTGTGCAAGC	0.567																																																0													29	30	30					20																	60705292		2046	4199	6245	SO:0001583	missense	149986			AF172328	CCDS46626.1	20q13.33	2010-01-27	2006-12-21	2006-01-24	ENSG00000149657	ENSG00000149657			15887	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 40", "family with sequence similarity 61, member B", "LSM14 homolog B (SCD6, S. cerevisiae)"	C20orf40, FAM61B			Standard	NM_144703		Approved	FT005, bA11M20.3, FLJ25473, LSM13, RAP55B	uc010gjy.1	Q9BX40	OTTHUMG00000032901	ENST00000279068.6:c.613G>A	20.37:g.60705292G>A	ENSP00000279068:p.Ala205Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PFW8|Q96LH8	Missense_Mutation	SNP	ENST00000279068.6	37	CCDS46626.1	.	.	.	.	.	.	.	.	.	.	G	5.458	0.269581	0.10349	.	.	ENSG00000149657	ENST00000279068;ENST00000444156;ENST00000400318;ENST00000370906;ENST00000361670	T;T;T	0.45668	0.94;0.94;0.89	5.59	-1.32	0.09201	.	.	.	.	.	T	0.23846	0.0577	L	0.38531	1.155	0.54753	D	0.999981	B;B;B;B	0.22346	0.003;0.068;0.001;0.002	B;B;B;B	0.15484	0.002;0.013;0.002;0.002	T	0.10543	-1.0625	9	0.16896	T	0.51	.	4.4602	0.11663	0.1547:0.3504:0.4009:0.094	.	125;161;205;231	E9PG81;C9J454;Q9BX40;Q5TBQ0	.;.;LS14B_HUMAN;.	T	205;161;231;161;125	ENSP00000279068:A205T;ENSP00000383172:A231T;ENSP00000355209:A125T	ENSP00000279068:A205T	A	+	1	0	LSM14B	60138687	0.769000	0.28531	0.908000	0.35775	0.211000	0.24417	0.566000	0.23593	0.278000	0.22164	-0.324000	0.08512	GCT		0.567	LSM14B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079996.4	NM_144703		A	60705292	G	A	60705292	3	1	617	1	0	0	0	0	1	0	0	0	9062	971	34	2	631	2	LSM14B	20	60705292	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	59418737	60705292	2320228	123	37781										
CABLES2	81928	hgsc.bcm.edu	37	chr20	60982024	60982024	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	ggcacctgcgtggggctgagCaggccctggggcgcgggggt	22	11	0	1	rs146975578	byFrequency	TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr20:60982024C>T	ENST00000279101.5	-	1	317	c.309G>A	c.(307-309)ctG>ctA	p.L103L		NM_031215.2	NP_112492.2	Q9BTV7	CABL2_HUMAN	Cdk5 and Abl enzyme substrate 2	103	Pro-rich.				cell cycle (GO:0007049)|cell division (GO:0051301)|regulation of cell cycle (GO:0051726)|regulation of cell division (GO:0051302)		cyclin-dependent protein serine/threonine kinase regulator activity (GO:0016538)			endometrium(2)|kidney(1)|lung(6)|pancreas(1)|skin(1)	11	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			TGGGGCTGAGCAGGCCCTggg	0.816													C|||	637	0.127196	0.2095	0.17	5008	,	,		6090	0.001		0.2018	False		,,,				2504	0.0389															0								C		368,2140		30,308,916	3	3	3		309	0.7	1	20	dbSNP_134	3	899,4587		90,719,1934	no	coding-synonymous	CABLES2	NM_031215.2		120,1027,2850	TT,TC,CC		16.3872,14.673,15.8494		103/479	60982024	1267,6727	1254	2743	3997	SO:0001819	synonymous_variant	81928			BC003122	CCDS33503.1	20q13.33	2004-01-09	2004-01-09	2004-01-09	ENSG00000149679	ENSG00000149679			16143	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 150"	C20orf150		12477932	Standard	NM_031215		Approved	dJ908M14.2, ik3-2	uc002ycv.2	Q9BTV7	OTTHUMG00000032912	ENST00000279101.5:c.309G>A	20.37:g.60982024C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JWL0|Q9BYK0	Silent	SNP	ENST00000279101.5	37	CCDS33503.1																																																																																				0.816	CABLES2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080027.2	XM_037265		T	60982024	C	T	60982024	2	4	617	1	0	0	0	0	0	0	0	1	2532	697	25	2		2	CABLES2	20	60982024	Silent	SNP	C	TCGA-IZ-8196-01A-11D-2396-08	276732	60982024	2043496	124	37782										
DOPEY2	9980	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	37626086	37626086	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gcagattatcccaacggcaaGtgcatcccagctaacccttg	8	14	0	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr21:37626086G>A	ENST00000399151.3	+	23	5223	c.5138G>A	c.(5137-5139)aGt>aAt	p.S1713N		NM_005128.2	NP_005119.2	Q9Y3R5	DOP2_HUMAN	dopey family member 2	1713					cognition (GO:0050890)|endoplasmic reticulum organization (GO:0007029)|Golgi to endosome transport (GO:0006895)|multicellular organismal development (GO:0007275)|protein transport (GO:0015031)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)				autonomic_ganglia(1)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(5)|kidney(5)|large_intestine(6)|lung(25)|ovary(2)|prostate(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	58						CCAACGGCAAGTGCATCCCAG	0.468																																																0													139	136	137					21																	37626086		2203	4300	6503	SO:0001583	missense	9980			AJ237839	CCDS13643.1	21q22.2	2013-03-05	2006-02-02	2006-02-02	ENSG00000142197	ENSG00000142197			1291	protein-coding gene	gene with protein product		604803	"chromosome 21 open reading frame 5"	C21orf5		16301316, 16303751, 10931277	Standard	NM_005128		Approved	KIAA0933	uc002yvg.3	Q9Y3R5	OTTHUMG00000086619	ENST00000399151.3:c.5138G>A	21.37:g.37626086G>A	ENSP00000382104:p.Ser1713Asn	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSG5|Q6PJQ7|Q9UEZ3	Missense_Mutation	SNP	ENST00000399151.3	37	CCDS13643.1	.	.	.	.	.	.	.	.	.	.	G	12.59	1.982780	0.34942	.	.	ENSG00000142197	ENST00000399151	T	0.13778	2.56	5.5	1.28	0.21552	.	0.040315	0.85682	N	0.000000	T	0.12518	0.0304	L	0.50919	1.6	0.30386	N	0.781515	B;B	0.27192	0.171;0.107	B;B	0.24848	0.056;0.025	T	0.10177	-1.0641	10	0.31617	T	0.26	-7.5998	11.6148	0.51083	0.0646:0.3448:0.5907:0.0	.	1713;1713	Q9Y3R5-2;Q9Y3R5	.;DOP2_HUMAN	N	1713	ENSP00000382104:S1713N	ENSP00000382104:S1713N	S	+	2	0	DOPEY2	36547956	1.000000	0.71417	0.001000	0.08648	0.018000	0.09664	6.006000	0.70724	0.231000	0.21079	0.655000	0.94253	AGT		0.468	DOPEY2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000194636.1	NM_005128		A	37626086	G	A	37626086	3	1	617	1	0	0	0	0	1	0	0	0	4710	1029	36	2	5224	2	DOPEY2	21	37626086	Missense_Mutation	SNP	G	TCGA-IZ-8196-01A-11D-2396-08		37626086	10503809	125	37783										
BRWD1	54014	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	40641908	40641908	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	atgtcctgcagataacataaTtctggaatcaaagggatgtg	10	6	2	1	rs540249994		TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr21:40641908T>A	ENST00000333229.2	-	15	1774	c.1447A>T	c.(1447-1449)Att>Ttt	p.I483F	BRWD1_ENST00000380800.3_Missense_Mutation_p.I483F|BRWD1_ENST00000342449.3_Missense_Mutation_p.I483F	NM_018963.4	NP_061836.2	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	483					cytoskeleton organization (GO:0007010)|regulation of cell shape (GO:0008360)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				cervix(2)|endometrium(6)|kidney(8)|large_intestine(14)|liver(2)|lung(13)|ovary(1)|pancreas(1)|prostate(2)|skin(7)|urinary_tract(2)	58		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				GATAACATAATTCTGGAATCA	0.333																																					Melanoma(170;988 1986 4794 16843 39731)											0													105	99	101					21																	40641908		2203	4300	6503	SO:0001583	missense	54014			AJ002572	CCDS13662.1, CCDS13663.1, CCDS33557.1	21q22.2	2013-05-21	2005-05-13	2005-05-13	ENSG00000185658	ENSG00000185658		"WD repeat domain containing"	12760	protein-coding gene	gene with protein product			"chromosome 21 open reading frame 107", "WD repeat domain 9"	C21orf107, WDR9			Standard	NM_033656		Approved	FLJ11315, N143	uc002yxk.2	Q9NSI6	OTTHUMG00000066030	ENST00000333229.2:c.1447A>T	21.37:g.40641908T>A	ENSP00000330753:p.Ile483Phe	Somatic		WXS	Illumina HiSeq	Phase_I	C9JK25|O43721|Q5R2V0|Q5R2V1|Q6P2D1|Q8TCV3|Q96QG9|Q96QH0|Q9NUK1	Missense_Mutation	SNP	ENST00000333229.2	37	CCDS13662.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	25.9|25.9	4.681151|4.681151	0.88542|0.88542	.|.	.|.	ENSG00000185658|ENSG00000185658	ENST00000333229;ENST00000342449;ENST00000380800|ENST00000455867	T;T;T|.	0.59224|.	0.28;0.28;0.28|.	5.57|5.57	5.57|5.57	0.84162|0.84162	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);|.	0.080378|.	0.53938|.	D|.	0.000059|.	T|T	0.45337|0.45337	0.1337|0.1337	L|L	0.27944|0.27944	0.81|0.81	0.80722|0.80722	D|D	1|1	D;D;D|.	0.89917|.	0.999;0.999;1.0|.	D;D;D|.	0.91635|.	0.996;0.999;0.99|.	T|T	0.38200|0.38200	-0.9672|-0.9672	10|5	0.87932|.	D|.	0|.	-10.9067|-10.9067	10.1398|10.1398	0.42728|0.42728	0.0:0.0743:0.0:0.9257|0.0:0.0743:0.0:0.9257	.|.	194;483;483|.	Q5R2U6;Q9NSI6-2;Q9NSI6|.	.;.;BRWD1_HUMAN|.	F|I	483|194	ENSP00000330753:I483F;ENSP00000344333:I483F;ENSP00000370178:I483F|.	ENSP00000330753:I483F|.	I|N	-|-	1|2	0|0	BRWD1|BRWD1	39563778|39563778	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.994000|0.994000	0.84299|0.84299	3.879000|3.879000	0.56138|0.56138	2.130000|2.130000	0.65690|0.65690	0.455000|0.455000	0.32223|0.32223	ATT|AAT		0.333	BRWD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000141398.3	NM_033656		A	40641908	T	A	40641908	3	1	617	1	0	0	0	0	1	0	0	0	1527	1493	52	5	5866	5	BRWD1	21	40641908	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	3015822	40641908	7487987	126	37784										
PDE9A	5152	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	44152003	44152003	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	atttgaaagtggacaggtagAgcccaggcccagagagcccc	13	11	0	3			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr21:44152003A>G	ENST00000291539.6	+	5	446	c.386A>G	c.(385-387)gAg>gGg	p.E129G	PDE9A_ENST00000398234.3_Intron|PDE9A_ENST00000539837.1_Intron|PDE9A_ENST00000470987.1_Intron|PDE9A_ENST00000398229.3_Intron|PDE9A_ENST00000398225.3_Missense_Mutation_p.E88G|PDE9A_ENST00000398227.3_Intron|PDE9A_ENST00000398236.3_Intron|PDE9A_ENST00000328862.6_Missense_Mutation_p.E103G|PDE9A_ENST00000398224.3_Intron|PDE9A_ENST00000335440.6_Intron|PDE9A_ENST00000349112.3_Intron|PDE9A_ENST00000335512.4_Intron|PDE9A_ENST00000398232.3_Missense_Mutation_p.E62G|PDE9A_ENST00000380328.2_Intron|AP001627.1_ENST00000437426.1_RNA	NM_002606.2	NP_002597.1	O76083	PDE9A_HUMAN	phosphodiesterase 9A	129					blood coagulation (GO:0007596)|cGMP-mediated signaling (GO:0019934)|metabolic process (GO:0008152)|signal transduction (GO:0007165)	cell projection (GO:0042995)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)	3',5'-cyclic-GMP phosphodiesterase activity (GO:0047555)|3',5'-cyclic-nucleotide phosphodiesterase activity (GO:0004114)|metal ion binding (GO:0046872)			breast(1)|endometrium(4)|large_intestine(6)|lung(8)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	27					Caffeine(DB00201)	GGACAGGTAGAGCCCAGGCCC	0.652																																																0													56	59	58					21																	44152003		2203	4300	6503	SO:0001583	missense	5152			AF048837	CCDS13690.1, CCDS33567.1, CCDS33568.1, CCDS33569.1, CCDS33570.1, CCDS33571.1, CCDS42941.1, CCDS42942.1, CCDS42943.1, CCDS42944.1, CCDS42945.1, CCDS42946.1, CCDS42947.1	21q22.3	2005-11-29			ENSG00000160191	ENSG00000160191	3.1.4.17	"Phosphodiesterases"	8795	protein-coding gene	gene with protein product		602973				9624146	Standard	NM_001001584		Approved		uc002zbm.3	O76083	OTTHUMG00000086825	ENST00000291539.6:c.386A>G	21.37:g.44152003A>G	ENSP00000291539:p.Glu129Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBI5|B4DFI5|D3DSJ8|D3DSJ9|O75490|O75491|O95225|Q53Y40|Q5QD39|Q86SF7|Q86SI6|Q86SJ3|Q86WN3|Q86WN4|Q86WN5|Q86WN6|Q86WN7|Q86WN8|Q86WN9|Q86WP0	Missense_Mutation	SNP	ENST00000291539.6	37	CCDS13690.1	.	.	.	.	.	.	.	.	.	.	A	5.981	0.364909	0.11296	.	.	ENSG00000160191	ENST00000291539;ENST00000398232;ENST00000328862;ENST00000398225	T;T;T;T	0.69435	-0.37;-0.4;-0.39;-0.38	2.62	-5.23	0.02798	.	2.493450	0.01301	N	0.010305	T	0.41026	0.1141	N	0.08118	0	0.09310	N	1	B;B;B;B	0.19706	0.038;0.003;0.003;0.002	B;B;B;B	0.19391	0.025;0.001;0.001;0.0	T	0.17930	-1.0353	10	0.49607	T	0.09	.	0.789	0.01054	0.4523:0.1816:0.1307:0.2354	.	62;103;88;129	O76083-13;O76083-15;O76083-14;O76083	.;.;.;PDE9A_HUMAN	G	129;62;103;88	ENSP00000291539:E129G;ENSP00000381287:E62G;ENSP00000328699:E103G;ENSP00000381281:E88G	ENSP00000291539:E129G	E	+	2	0	PDE9A	43025072	0.000000	0.05858	0.000000	0.03702	0.011000	0.07611	0.271000	0.18626	-2.215000	0.00733	0.383000	0.25322	GAG		0.652	PDE9A-016	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000195466.1			G	44152003	A	G	44152003	3	3	617	1	0	0	0	0	1	0	0	0	11662	304	11	3	484	3	PDE9A	21	44152003	Missense_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	3510095	44152003	3977892	127	37785										
COL6A1	1291	hgsc.bcm.edu	37	chr21	47421874	47421874	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	accccggtgccggtcccacaGttcgagccagggcagtcgta	13	15	0	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr21:47421874G>A	ENST00000361866.3	+	31	2070		c.e31-1		COL6A1_ENST00000498614.1_Splice_Site	NM_001848.2	NP_001839.2	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1						axon guidance (GO:0007411)|cell adhesion (GO:0007155)|cellular response to amino acid stimulus (GO:0071230)|collagen catabolic process (GO:0030574)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|osteoblast differentiation (GO:0001649)|protein heterotrimerization (GO:0070208)	collagen type VI trimer (GO:0005589)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|protein complex (GO:0043234)|proteinaceous extracellular matrix (GO:0005578)|sarcolemma (GO:0042383)	platelet-derived growth factor binding (GO:0048407)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(18)|ovary(1)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	33	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)		CGGTCCCACAGTTCGAGCCAG	0.662																																																0													32	31	31					21																	47421874		2203	4300	6503	SO:0001630	splice_region_variant	1291			M20776	CCDS13727.1	21q22.3	2014-09-17			ENSG00000142156	ENSG00000142156		"Collagens"	2211	protein-coding gene	gene with protein product		120220					Standard	XM_006723964		Approved		uc002zhu.1	P12109	OTTHUMG00000090440	ENST00000361866.3:c.1957-1G>A	21.37:g.47421874G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O00117|O00118|Q14040|Q14041|Q16258|Q7Z645|Q9BSA8	Splice_Site	SNP	ENST00000361866.3	37	CCDS13727.1	.	.	.	.	.	.	.	.	.	.	G	9.648	1.140692	0.21205	.	.	ENSG00000142156	ENST00000361866	.	.	.	4.41	4.41	0.53225	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.9973	0.86371	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	COL6A1	46246302	1.000000	0.71417	0.966000	0.40874	0.032000	0.12392	5.447000	0.66606	2.020000	0.59435	0.462000	0.41574	.		0.662	COL6A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206877.1	NM_001848	Intron	A	47421874	G	A	47421874	5	1	617	1	0	0	0	0	0	0	1	0	3701	1043	36	2	2078	2	COL6A1	21	47421874	Splice_Site	SNP	G	TCGA-IZ-8196-01A-11D-2396-08	3269871	47421874	708021	128	37786										
CYTSA	23384	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	24734414	24734414	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	gagcccaagtcctatgaaaaCccctcctgcagcagctgtgt	9	14	0	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr22:24734414C>T	ENST00000314328.9	+	10	2906	c.2621C>T	c.(2620-2622)aCc>aTc	p.T874I	SPECC1L-ADORA2A_ENST00000358654.2_Missense_Mutation_p.T874I|SPECC1L_ENST00000541492.1_Missense_Mutation_p.T874I|SPECC1L_ENST00000437398.1_Missense_Mutation_p.T874I	NM_001254733.1|NM_015330.3	NP_001241662.1|NP_056145	Q69YQ0	CYTSA_HUMAN	sperm antigen with calponin homology and coiled-coil domains 1-like	874					actin cytoskeleton organization (GO:0030036)|cell cycle (GO:0007049)|cell division (GO:0051301)|cell migration (GO:0016477)|negative regulation of actin filament depolymerization (GO:0030835)|negative regulation of microtubule depolymerization (GO:0007026)	cytoplasm (GO:0005737)|filamentous actin (GO:0031941)|gap junction (GO:0005921)|microtubule organizing center (GO:0005815)				breast(1)|endometrium(1)|kidney(4)|large_intestine(7)|lung(6)|ovary(1)|prostate(1)|skin(3)|stomach(2)|urinary_tract(1)	27						CCTATGAAAACCCCTCCTGCA	0.498																																																0													162	158	160					22																	24734414		2203	4300	6503	SO:0001583	missense	23384			AK025531	CCDS33619.1, CCDS58797.1	22q11.23	2012-12-20	2010-09-17	2010-09-17	ENSG00000100014	ENSG00000100014			29022	protein-coding gene	gene with protein product	"cytokinesis and spindle organization A", "cytospin A"	614140	"SPECC1-like"			9205841	Standard	NM_001254733		Approved	KIAA0376, CYTSA	uc002zzv.4	Q69YQ0	OTTHUMG00000171450	ENST00000314328.9:c.2621C>T	22.37:g.24734414C>T	ENSP00000325785:p.Thr874Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z758|F5H1H6|O15081	Missense_Mutation	SNP	ENST00000314328.9	37	CCDS33619.1	.	.	.	.	.	.	.	.	.	.	c	29.1	4.976045	0.92982	.	.	ENSG00000100014	ENST00000398280;ENST00000437398;ENST00000314328;ENST00000541492	T;T;T	0.53640	0.61;0.61;0.61	5.69	5.69	0.88448	.	0.050156	0.85682	D	0.000000	T	0.69124	0.3076	M	0.68593	2.085	0.80722	D	1	D;P	0.89917	1.0;0.906	D;P	0.91635	0.999;0.521	T	0.69614	-0.5098	10	0.72032	D	0.01	-23.2113	19.1962	0.93690	0.0:1.0:0.0:0.0	.	874;874	F5H1H6;Q69YQ0	.;CYTSA_HUMAN	I	902;874;874;874	ENSP00000393363:T874I;ENSP00000325785:T874I;ENSP00000439633:T874I	ENSP00000325785:T874I	T	+	2	0	SPECC1L	23064414	1.000000	0.71417	0.982000	0.44146	0.996000	0.88848	5.103000	0.64578	2.865000	0.98341	0.655000	0.94253	ACC		0.498	SPECC1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319986.2	NM_015330		T	24734414	C	T	24734414	3	4	617	1	0	0	0	0	1	0	0	0	4211	507	18	2	2651	2	CYTSA	22	24734414	Missense_Mutation	SNP	C	TCGA-IZ-8196-01A-11D-2396-08		24734414	26570152	129	37787										
GGT1	2678	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	25023938	25023938	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	cccctcacctgccaatttcaTccagccaggtatggggtgga	10	14	2	0			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr22:25023938T>C	ENST00000400382.1	+	13	2083	c.1328T>C	c.(1327-1329)aTc>aCc	p.I443T	GGT1_ENST00000466310.1_3'UTR|GGT1_ENST00000403838.1_Missense_Mutation_p.I99T|GGT1_ENST00000248923.4_Missense_Mutation_p.I443T|GGT1_ENST00000401885.1_Missense_Mutation_p.I99T|GGT1_ENST00000406383.2_Missense_Mutation_p.I443T|GGT1_ENST00000404920.1_Missense_Mutation_p.I99T|GGT1_ENST00000404223.1_Missense_Mutation_p.I99T|GGT1_ENST00000400380.1_Missense_Mutation_p.I443T|GGT1_ENST00000400383.1_Missense_Mutation_p.I443T|GGT1_ENST00000404532.1_Missense_Mutation_p.I99T			P19440	GGT1_HUMAN	gamma-glutamyltransferase 1	443					arachidonic acid metabolic process (GO:0019369)|cellular amino acid metabolic process (GO:0006520)|cysteine biosynthetic process (GO:0019344)|glutamate metabolic process (GO:0006536)|glutathione biosynthetic process (GO:0006750)|glutathione catabolic process (GO:0006751)|glutathione derivative biosynthetic process (GO:1901687)|glutathione metabolic process (GO:0006749)|leukotriene biosynthetic process (GO:0019370)|leukotriene metabolic process (GO:0006691)|regulation of immune system process (GO:0002682)|regulation of inflammatory response (GO:0050727)|small molecule metabolic process (GO:0044281)|spermatogenesis (GO:0007283)|xenobiotic metabolic process (GO:0006805)|zymogen activation (GO:0031638)	anchored component of external side of plasma membrane (GO:0031362)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	gamma-glutamyltransferase activity (GO:0003840)|glutathione hydrolase activity (GO:0036374)			breast(1)|endometrium(2)|kidney(14)|large_intestine(2)|lung(6)|pancreas(1)|prostate(6)|skin(7)|upper_aerodigestive_tract(1)	40					Glutathione(DB00143)	GCCAATTTCATCCAGCCAGGT	0.617																																																0													42	50	47					22																	25023938		2202	4297	6499	SO:0001583	missense	2678			M24903	CCDS42992.1	22q11.23	2008-08-15			ENSG00000100031	ENSG00000100031	2.3.2.2	"CD molecules", "Gamma-glutamyltransferases"	4250	protein-coding gene	gene with protein product		612346		GGT		8104871, 18357469	Standard	NM_001288833		Approved	D22S672, D22S732, CD224	uc003aan.1	P19440	OTTHUMG00000030859	ENST00000400382.1:c.1328T>C	22.37:g.25023938T>C	ENSP00000383232:p.Ile443Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q08247|Q14404|Q8TBS1|Q9UMK1	Missense_Mutation	SNP	ENST00000400382.1	37	CCDS42992.1	.	.	.	.	.	.	.	.	.	.	.	13.53	2.265969	0.40095	.	.	ENSG00000100031	ENST00000248923;ENST00000412658;ENST00000400382;ENST00000400383;ENST00000400380;ENST00000406383;ENST00000401885;ENST00000404532;ENST00000403838;ENST00000404223;ENST00000404920	T;T;T;T;T;T;T;T;T;T;T	0.09073	3.02;3.02;3.02;3.02;3.02;3.02;3.02;3.02;3.02;3.02;3.02	3.49	3.49	0.39957	.	0.000000	0.85682	D	0.000000	T	0.42086	0.1187	H	0.98256	4.185	0.46901	D	0.999246	D	0.89917	1.0	D	0.79784	0.993	T	0.61232	-0.7104	10	0.87932	D	0	-34.9439	11.6793	0.51448	0.0:0.0:0.0:1.0	.	443	P19440	GGT1_HUMAN	T	443;443;443;443;443;443;99;99;99;99;99	ENSP00000248923:I443T;ENSP00000393537:I443T;ENSP00000383232:I443T;ENSP00000383233:I443T;ENSP00000383231:I443T;ENSP00000385975:I443T;ENSP00000384381:I99T;ENSP00000385445:I99T;ENSP00000384820:I99T;ENSP00000385016:I99T;ENSP00000385001:I99T	ENSP00000248923:I443T	I	+	2	0	GGT1	23353938	1.000000	0.71417	0.952000	0.39060	0.028000	0.11728	7.217000	0.77982	1.593000	0.50029	0.373000	0.22412	ATC		0.617	GGT1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250797.1	NM_013430		C	25023938	T	C	25023938	3	2	617	1	0	0	0	0	1	0	0	0	6368	1435	50	3	1362	3	GGT1	22	25023938	Missense_Mutation	SNP	T	TCGA-IZ-8196-01A-11D-2396-08	289524	25023938	26280628	130	37788										
CHKB	1120	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	51018475	51018475	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	tcctcgtgagtataatcataAacccactcacaaaaatggtt	5	10	2	1			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chr22:51018475A>C	ENST00000406938.2	-	8	1072	c.855T>G	c.(853-855)gtT>gtG	p.V285V	CPT1B_ENST00000395650.2_5'Flank|CPT1B_ENST00000434492.2_5'Flank|CHKB-CPT1B_ENST00000453634.1_5'Flank|CPT1B_ENST00000360719.2_5'Flank|CHKB-CPT1B_ENST00000452668.1_5'Flank|CHKB-AS1_ENST00000380711.3_RNA|CPT1B_ENST00000457250.1_5'Flank|CPT1B_ENST00000440709.1_5'Flank|CPT1B_ENST00000312108.7_5'Flank|CHKB_ENST00000463053.1_5'Flank|CPT1B_ENST00000405237.3_5'Flank	NM_005198.4	NP_005189.2	Q9Y259	CHKB_HUMAN	choline kinase beta	285					CDP-choline pathway (GO:0006657)|glycerophospholipid biosynthetic process (GO:0046474)|muscle organ development (GO:0007517)|phosphatidylcholine biosynthetic process (GO:0006656)|phosphatidylethanolamine biosynthetic process (GO:0006646)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	ATP binding (GO:0005524)|choline kinase activity (GO:0004103)|ethanolamine kinase activity (GO:0004305)			NS(1)|breast(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(5)|ovary(3)|skin(1)|urinary_tract(1)	15		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		all cancers(3;4.04e-77)|OV - Ovarian serous cystadenocarcinoma(4;5.79e-74)|Epithelial(4;6.17e-70)|GBM - Glioblastoma multiforme(4;5.68e-08)|LUAD - Lung adenocarcinoma(64;0.0016)|Lung(4;0.00942)|BRCA - Breast invasive adenocarcinoma(115;0.205)	Choline(DB00122)	TATAATCATAAACCCACTCAC	0.522																																																0													88	94	92					22																	51018475		2203	4300	6503	SO:0001819	synonymous_variant	1120			AB029886	CCDS14099.1	22q13.33	2011-02-16	2004-04-19	2004-04-19	ENSG00000100288	ENSG00000100288			1938	protein-coding gene	gene with protein product		612395	"choline kinase-like"	CHKL		9224698, 15003397	Standard	NM_005198		Approved	CHETK	uc003bmv.3	Q9Y259	OTTHUMG00000150275	ENST00000406938.2:c.855T>G	22.37:g.51018475A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJM6|Q13388	Silent	SNP	ENST00000406938.2	37	CCDS14099.1																																																																																				0.522	CHKB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317267.3	NM_005198		C	51018475	A	C	51018475	2	2	617	1	0	0	0	0	0	0	0	1	3350	1	1	5		5	CHKB	22	51018475	Silent	SNP	A	TCGA-IZ-8196-01A-11D-2396-08	25994537	51018475	286091	131	37789										
HUWE1	10075	hgsc.bcm.edu	37	chrX	53563131	53563131	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0564516129032258	7	1	1.26893664976254	0	1.57655765576558	0.00309597523219814	0.296410941999177	0	agtgctgaaggtgaggtcatAgcctagtgtggagacatcat	14	6	2	3			TCGA-IZ-8196-01A-11D-2396-08	TCGA-IZ-8196-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dccd5469-1539-42f2-9023-47320e9e4275	d5a2fa8f-8c51-4867-b806-5f49d4b33c1a	g.chrX:53563131A>G	ENST00000342160.3	-	79	12965	c.12508T>C	c.(12508-12510)Tat>Cat	p.Y4170H	HUWE1_ENST00000262854.6_Missense_Mutation_p.Y4170H			Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1, E3 ubiquitin protein ligase	4170	HECT. {ECO:0000255|PROSITE- ProRule:PRU00104}.				base-excision repair (GO:0006284)|cell differentiation (GO:0030154)|histone ubiquitination (GO:0016574)|protein monoubiquitination (GO:0006513)|protein polyubiquitination (GO:0000209)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	DNA binding (GO:0003677)|ligase activity (GO:0016874)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)			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						GTGAGGTCATAGCCTAGTGTG	0.428																																																0													187	126	147					X																	53563131		2203	4300	6503	SO:0001583	missense	10075			AB071605	CCDS35301.1	Xp11.22	2014-06-09	2012-02-23		ENSG00000086758	ENSG00000086758			30892	protein-coding gene	gene with protein product		300697	"HECT, UBA and WWE domain containing 1"			9205841, 10998601	Standard	NM_031407		Approved	Ib772, KIAA0312, UREB1	uc004dsp.4	Q7Z6Z7	OTTHUMG00000021617	ENST00000342160.3:c.12508T>C	X.37:g.53563131A>G	ENSP00000340648:p.Tyr4170His	Somatic		WXS	Illumina HiSeq	Phase_I	O15029|Q4G2Z2|Q5H961|Q6P4D0|Q8NG67|Q9BUI0|Q9HCJ4|Q9NSL6|Q9P0A9	Missense_Mutation	SNP	ENST00000342160.3	37	CCDS35301.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	11.03|11.03	1.517867|1.517867	0.27211|0.27211	.|.	.|.	ENSG00000086758|ENSG00000086758	ENST00000427052;ENST00000426907|ENST00000342160;ENST00000262854	.|T;T	.|0.57595	.|0.39;0.39	5.57|5.57	4.39|4.39	0.52855|0.52855	.|HECT (4);	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.65069|0.65069	0.2656|0.2656	M|M	0.75777|0.75777	2.31|2.31	0.58432|0.58432	D|D	0.999998|0.999998	.|P;P	.|0.47604	.|0.735;0.898	.|P;P	.|0.56648	.|0.646;0.803	T|T	0.64028|0.64028	-0.6503|-0.6503	5|10	.|0.44086	.|T	.|0.13	.|.	10.3659|10.3659	0.44024|0.44024	0.8507:0.0:0.0:0.1493|0.8507:0.0:0.0:0.1493	.|.	.|4170;4154	.|Q7Z6Z7;Q7Z6Z7-2	.|HUWE1_HUMAN;.	P|H	3203;992|4170	.|ENSP00000340648:Y4170H;ENSP00000262854:Y4170H	.|ENSP00000262854:Y4170H	L|Y	-|-	2|1	0|0	HUWE1|HUWE1	53579856|53579856	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.465000|0.465000	0.32709|0.32709	8.644000|8.644000	0.91044|0.91044	0.816000|0.816000	0.34421|0.34421	-0.415000|-0.415000	0.06103|0.06103	CTA|TAT		0.428	HUWE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056766.1	XM_497119		G	53563131	A	G	53563131	3	3	617	1	0	0	0	0	1	0	0	0	7468	420	15	3	636	3	HUWE1	23	53563131	Missense_Mutation	SNP	A	TCGA-IZ-8196-01A-11D-2396-08		53563131	101707429	132	37790										
PLCH2	9651	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	2418423	2418423	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ccagaaaacaagagtaagggGctgctgggcattgatggtga	15	6	0	4			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:2418423G>A	ENST00000419816.2	+	6	1168	c.894G>A	c.(892-894)ggG>ggA	p.G298G	PLCH2_ENST00000449969.1_Silent_p.G271G|PLCH2_ENST00000378486.3_Silent_p.G298G|PLCH2_ENST00000288766.5_Intron|PLCH2_ENST00000378488.3_Silent_p.G298G			O75038	PLCH2_HUMAN	phospholipase C, eta 2	298					inositol phosphate metabolic process (GO:0043647)|intracellular signal transduction (GO:0035556)|lipid catabolic process (GO:0016042)|phosphatidylinositol metabolic process (GO:0046488)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|phosphatidylinositol phospholipase C activity (GO:0004435)|signal transducer activity (GO:0004871)			central_nervous_system(4)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(8)|ovary(1)|prostate(3)|skin(1)	20	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)		AGAGTAAGGGGCTGCTGGGCA	0.632																																																0													55	59	57					1																	2418423		2096	4214	6310	SO:0001819	synonymous_variant	9651			AB007919	CCDS59959.1	1p36.32	2013-01-10	2006-03-16	2006-03-16	ENSG00000149527	ENSG00000149527	3.1.4.11	"EF-hand domain containing"	29037	protein-coding gene	gene with protein product		612836	"phospholipase C-like 4"	PLCL4		15899900	Standard	XM_006711054		Approved	KIAA0450, PLCeta2, RP3-395M20.1, PLC-eta2	uc001aji.1	O75038	OTTHUMG00000000719	ENST00000419816.2:c.894G>A	1.37:g.2418423G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2VCM3|B9DI80|Q3LUA8|Q86XJ2|Q86XU1|Q86YU7|Q8TEH5|Q8WUS6	Silent	SNP	ENST00000419816.2	37																																																																																					0.632	PLCH2-009	KNOWN	non_canonical_conserved|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000467514.1	NM_014638		A	2418423	G	A	2418423	2	1	618	1	0	0	0	0	0	0	0	1	12045	1190	42	2		2	PLCH2	1	2418423	Silent	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10		2418423	246832198	1	37791										
PER3	8863	broad.mit.edu	37	chr1	7854051	7854051	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gaatgtgctccggtgaaaccTtttttctgcaggatccggta	11	9	1	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:7854051T>C	ENST00000361923.2	+	5	799	c.624T>C	c.(622-624)ccT>ccC	p.P208P	PER3_ENST00000377541.1_Silent_p.P208P|PER3_ENST00000377532.3_Silent_p.P209P	NM_016831.1	NP_058515.1	P56645	PER3_HUMAN	period circadian clock 3	208					circadian regulation of gene expression (GO:0032922)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of circadian sleep/wake cycle, sleep (GO:0045187)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	signal transducer activity (GO:0004871)			breast(4)|central_nervous_system(3)|cervix(2)|endometrium(2)|kidney(2)|large_intestine(9)|lung(8)|ovary(1)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	39	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		CGGTGAAACCTTTTTTCTGCA	0.443																																																0													147	143	144					1																	7854051		2203	4300	6503	SO:0001819	synonymous_variant	8863			BC026102	CCDS89.1, CCDS72695.1	1p36.23	2012-12-13	2012-12-13		ENSG00000049246	ENSG00000049246			8847	protein-coding gene	gene with protein product		603427	"period (Drosophila) homolog 3", "period homolog 3 (Drosophila)"			9427249	Standard	XM_005263520		Approved		uc001aoo.3	P56645	OTTHUMG00000001216	ENST00000361923.2:c.624T>C	1.37:g.7854051T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5H8X4|Q5H8X5|Q969K6|Q96S77|Q96S78|Q9C0J3|Q9NSP9|Q9UGU8	Silent	SNP	ENST00000361923.2	37	CCDS89.1																																																																																				0.443	PER3-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000003607.1	NM_016831		C	7854051	T	C	7854051	2	2	618	1	0	0	0	0	0	0	0	1	11738	1596	56	3		3	PER3	1	7854051	Silent	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10	5435628	7854051	241396570	2	37792										
CASZ1	54897	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	10713663	10713663	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	acggcacccaggaggctgggGgtgcccacaggcagggaggt	19	11	0	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:10713663G>A	ENST00000377022.3	-	11	2768	c.2451C>T	c.(2449-2451)acC>acT	p.T817T	CASZ1_ENST00000344008.5_Silent_p.T817T|RP4-734G22.3_ENST00000606802.1_RNA	NM_001079843.2	NP_001073312.1	Q86V15	CASZ1_HUMAN	castor zinc finger 1	817					multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(9)|large_intestine(13)|lung(18)|ovary(2)|prostate(5)|skin(2)|urinary_tract(1)	54	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		GGAGGCTGGGGGTGCCCACAG	0.716																																																0													13	18	16					1																	10713663		2187	4276	6463	SO:0001819	synonymous_variant	54897			AK000328	CCDS120.2, CCDS41246.1	1p36.22	2013-01-07	2007-02-02		ENSG00000130940	ENSG00000130940		"Zinc fingers, C2H2-type"	26002	protein-coding gene	gene with protein product	"zinc finger protein 693", "survival related gene"	609895	"castor homolog 1, zinc finger (Drosophila)"			16631614, 21252912	Standard	NM_001079843		Approved	FLJ20321, ZNF693, castor, cst, SRG	uc001aro.4	Q86V15	OTTHUMG00000002035	ENST00000377022.3:c.2451C>T	1.37:g.10713663G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q078S9|Q2EN02|Q5T9S1|Q6ZNM8|Q8WX49|Q8WX50|Q9BT16|Q9NXC6	Silent	SNP	ENST00000377022.3	37	CCDS41246.1																																																																																				0.716	CASZ1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005673.2	NM_017766		A	10713663	G	A	10713663	2	1	618	1	0	0	0	0	0	0	0	1	2687	1219	43	2		2	CASZ1	1	10713663	Silent	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	2859612	10713663	238536958	3	37793										
CASZ1	54897	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	10714628	10714628	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	atcacgtcagacgtgctcgtGtacaccttgttacagcccac	8	14	2	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:10714628G>A	ENST00000377022.3	-	10	2003	c.1686C>T	c.(1684-1686)taC>taT	p.Y562Y	CASZ1_ENST00000344008.5_Silent_p.Y562Y|RP4-734G22.3_ENST00000606802.1_RNA	NM_001079843.2	NP_001073312.1	Q86V15	CASZ1_HUMAN	castor zinc finger 1	562					multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(9)|large_intestine(13)|lung(18)|ovary(2)|prostate(5)|skin(2)|urinary_tract(1)	54	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		ACGTGCTCGTGTACACCTTGT	0.597																																																0													210	193	199					1																	10714628		2203	4300	6503	SO:0001819	synonymous_variant	54897			AK000328	CCDS120.2, CCDS41246.1	1p36.22	2013-01-07	2007-02-02		ENSG00000130940	ENSG00000130940		"Zinc fingers, C2H2-type"	26002	protein-coding gene	gene with protein product	"zinc finger protein 693", "survival related gene"	609895	"castor homolog 1, zinc finger (Drosophila)"			16631614, 21252912	Standard	NM_001079843		Approved	FLJ20321, ZNF693, castor, cst, SRG	uc001aro.4	Q86V15	OTTHUMG00000002035	ENST00000377022.3:c.1686C>T	1.37:g.10714628G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q078S9|Q2EN02|Q5T9S1|Q6ZNM8|Q8WX49|Q8WX50|Q9BT16|Q9NXC6	Silent	SNP	ENST00000377022.3	37	CCDS41246.1																																																																																				0.597	CASZ1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005673.2	NM_017766		A	10714628	G	A	10714628	2	1	618	1	0	0	0	0	0	0	0	1	2687	1372	48	2		2	CASZ1	1	10714628	Silent	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	965	10714628	238535993	4	37794										
KDM1A	23028	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	23380289	23380289	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gataatccaaagattcagctGacatttgaggctactctcca	7	10	2	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:23380289G>A	ENST00000356634.3	+	4	836	c.687G>A	c.(685-687)ctG>ctA	p.L229L	KDM1A_ENST00000400181.4_Silent_p.L249L|RP1-184J9.2_ENST00000427154.1_RNA|KDM1A_ENST00000542151.1_Silent_p.L249L	NM_015013.3	NP_055828.2	O60341	KDM1A_HUMAN	lysine (K)-specific demethylase 1A	229	SWIRM. {ECO:0000255|PROSITE- ProRule:PRU00247}.				blood coagulation (GO:0007596)|cell proliferation (GO:0008283)|granulocyte differentiation (GO:0030851)|histone H3-K4 demethylation (GO:0034720)|histone H3-K9 demethylation (GO:0033169)|in utero embryonic development (GO:0001701)|muscle cell development (GO:0055001)|negative regulation of DNA binding (GO:0043392)|negative regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043518)|negative regulation of histone H3-K4 methylation (GO:0051572)|negative regulation of histone H3-K9 methylation (GO:0051573)|negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:1902166)|negative regulation of protein binding (GO:0032091)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|pituitary gland development (GO:0021983)|positive regulation of erythrocyte differentiation (GO:0045648)|positive regulation of hormone biosynthetic process (GO:0046886)|positive regulation of megakaryocyte differentiation (GO:0045654)|positive regulation of neural precursor cell proliferation (GO:2000179)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of stem cell proliferation (GO:2000648)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein demethylation (GO:0006482)|regulation of primitive erythrocyte differentiation (GO:0010725)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	androgen receptor binding (GO:0050681)|chromatin binding (GO:0003682)|demethylase activity (GO:0032451)|enzyme binding (GO:0019899)|flavin adenine dinucleotide binding (GO:0050660)|histone demethylase activity (GO:0032452)|histone demethylase activity (H3-dimethyl-K4 specific) (GO:0034648)|histone demethylase activity (H3-K4 specific) (GO:0032453)|histone demethylase activity (H3-K9 specific) (GO:0032454)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|MRF binding (GO:0043426)|oxidoreductase activity (GO:0016491)|p53 binding (GO:0002039)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|central_nervous_system(2)|endometrium(3)|large_intestine(5)|lung(8)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	23						AGATTCAGCTGACATTTGAGG	0.323																																																0													92	84	87					1																	23380289		2203	4300	6503	SO:0001819	synonymous_variant	23028			AL031428	CCDS30627.1, CCDS53278.1	1p36.12	2011-07-01	2009-09-29	2009-09-29	ENSG00000004487	ENSG00000004487		"Chromatin-modifying enzymes / K-demethylases"	29079	protein-coding gene	gene with protein product		609132	"amine oxidase (flavin containing) domain 2", "lysine (K)-specific demethylase 1"	AOF2, KDM1		9628581, 12493763	Standard	NM_015013		Approved	KIAA0601, BHC110, LSD1	uc001bgj.2	O60341	OTTHUMG00000003220	ENST00000356634.3:c.687G>A	1.37:g.23380289G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MWP9|Q5TH94|Q5TH95|Q86VT7|Q8IXK4|Q8NDP6|Q8TAZ3|Q96AW4	Silent	SNP	ENST00000356634.3	37	CCDS30627.1																																																																																				0.323	KDM1A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000008880.3	NM_015013		A	23380289	G	A	23380289	2	1	618	1	0	0	0	0	0	0	0	1	8129	1277	45	2		2	KDM1A	1	23380289	Silent	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	12665661	23380289	225870332	5	37795										
WDR65	149465	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	43675436	43675439	+	Frame_Shift_Del	DEL	TTGA	TTGA	-													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ccttcgagagatatcggcgtTtgatgtcacctacaccgcca							TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	TTGA	TTGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:43675436_43675439delTTGA	ENST00000372492.4	+	11	2102_2105	c.1778_1781delTTGA	c.(1777-1782)tttgatfs	p.FD593fs	WDR65_ENST00000528956.1_Frame_Shift_Del_p.FD593fs	NM_001195831.2	NP_001182760.2	Q96MR6	WDR65_HUMAN		593										NS(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(4)|lung(7)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	23	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				ATATCGGCGTTTGATGTCACCTAC	0.574																																																0																																										SO:0001589	frameshift_variant	149465																														ENST00000372492.4:c.1778_1781delTTGA	1.37:g.43675436_43675439delTTGA	ENSP00000361570:p.Phe593fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKQ3|Q17RI9|Q5TAI0	Frame_Shift_Del	DEL	ENST00000372492.4	37																																																																																					0.574	WDR65-002	NOVEL	not_organism_supported|basic|appris_principal|exp_conf	protein_coding	protein_coding	OTTHUMT00000384325.1			-	43675439	TTGA	-	43675436	7	5	618	1	0	1	0	1	0	0	0	0	17328	1841	64	0	1816	0	WDR65	1	43675436	Frame_Shift_Del	DEL	TTGA	TCGA-IZ-A6M8-01A-11D-A31X-10	20295147	43675436	205575185	6	37796										
TESK2	10420	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	45812448	45812448	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	agcatcatagtccagcccgaAattctgtggatgggtatgga	12	8	2	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:45812448A>T	ENST00000372086.3	-	9	1196	c.796T>A	c.(796-798)Ttc>Atc	p.F266I	TESK2_ENST00000538496.1_Missense_Mutation_p.F183I|TESK2_ENST00000341771.6_Intron|TESK2_ENST00000372084.1_Intron|TESK2_ENST00000486676.1_5'UTR	NM_007170.2	NP_009101.2	Q96S53	TESK2_HUMAN	testis-specific kinase 2	266	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				actin cytoskeleton organization (GO:0030036)|focal adhesion assembly (GO:0048041)|protein phosphorylation (GO:0006468)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|protein tyrosine kinase activity (GO:0004713)			breast(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|liver(1)|lung(9)|ovary(2)|pancreas(2)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	32	Acute lymphoblastic leukemia(166;0.155)					TCCAGCCCGAAATTCTGTGGA	0.502																																																0													79	82	81					1																	45812448		1949	4153	6102	SO:0001583	missense	10420			AJ132545	CCDS41323.1	1p32	2010-04-27			ENSG00000070759	ENSG00000070759	2.7.12.1		11732	protein-coding gene	gene with protein product		604746				10512679	Standard	NM_007170		Approved		uc001cns.1	Q96S53	OTTHUMG00000007680	ENST00000372086.3:c.796T>A	1.37:g.45812448A>T	ENSP00000361158:p.Phe266Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T422|Q5T423|Q8N520|Q9Y3Q6	Missense_Mutation	SNP	ENST00000372086.3	37	CCDS41323.1	.	.	.	.	.	.	.	.	.	.	A	34	5.297190	0.95574	.	.	ENSG00000070759	ENST00000372086;ENST00000372083;ENST00000538496	D;D	0.81579	-1.51;-1.51	6.08	6.08	0.98989	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.64402	D	0.000002	D	0.86573	0.5965	L	0.42581	1.335	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.87288	0.2297	10	0.62326	D	0.03	-8.8357	16.6438	0.85155	1.0:0.0:0.0:0.0	.	266	Q96S53	TESK2_HUMAN	I	266;250;183	ENSP00000361158:F266I;ENSP00000441746:F183I	ENSP00000361155:F250I	F	-	1	0	TESK2	45585035	1.000000	0.71417	0.999000	0.59377	0.995000	0.86356	9.317000	0.96327	2.333000	0.79357	0.533000	0.62120	TTC		0.502	TESK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000020523.1	NM_007170		T	45812448	A	T	45812448	3	4	618	1	0	0	0	0	1	0	0	0	15780	14	1	5	931	5	TESK2	1	45812448	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	2137012	45812448	203438173	7	37797										
IPP	3652	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	46206860	46206860	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	catggcaggcaatttgctcaGagaactgaaaaattccaatg	9	8	1	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:46206860G>A	ENST00000396478.3	-	3	539	c.437C>T	c.(436-438)tCt>tTt	p.S146F		NM_005897.2	NP_005888.1	Q9Y573	IPP_HUMAN	intracisternal A particle-promoted polypeptide	146						actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)	actin binding (GO:0003779)			central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(6)|lung(5)|ovary(1)|stomach(2)	20	Acute lymphoblastic leukemia(166;0.155)					AATTTGCTCAGAGAACTGAAA	0.413																																																0													85	84	84					1																	46206860		2203	4300	6503	SO:0001583	missense	3652			BC032544	CCDS30702.1, CCDS44132.1	1p34-p32	2013-01-30			ENSG00000197429	ENSG00000197429		"Kelch-like", "BTB/POZ domain containing"	6108	protein-coding gene	gene with protein product	"kelch-like family member 27"	147485				1905535, 8432546	Standard	NM_005897		Approved	KLHL27	uc001cou.3	Q9Y573	OTTHUMG00000008004	ENST00000396478.3:c.437C>T	1.37:g.46206860G>A	ENSP00000379739:p.Ser146Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A2A6V4|D3DQ11|Q8N5C3	Missense_Mutation	SNP	ENST00000396478.3	37	CCDS30702.1	.	.	.	.	.	.	.	.	.	.	G	15.45	2.838259	0.51057	.	.	ENSG00000197429	ENST00000359942;ENST00000396478	T;T	0.71461	-0.57;-0.57	5.19	4.21	0.49690	BTB/Kelch-associated (2);	0.352326	0.31949	N	0.006810	T	0.72875	0.3515	M	0.64997	1.995	0.40491	D	0.980549	P;P	0.44877	0.544;0.845	P;P	0.46110	0.467;0.504	T	0.78966	-0.1995	10	0.87932	D	0	.	15.4999	0.75691	0.0:0.1387:0.8613:0.0	.	146;146	Q9Y573;A2A6V3	IPP_HUMAN;.	F	146	ENSP00000353024:S146F;ENSP00000379739:S146F	ENSP00000353024:S146F	S	-	2	0	IPP	45979447	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	5.054000	0.64275	2.586000	0.87340	0.655000	0.94253	TCT		0.413	IPP-001	KNOWN	mRNA_end_NF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000021974.3	NM_005897		A	46206860	G	A	46206860	3	1	618	1	0	0	0	0	1	0	0	0	7807	942	33	2	1447	2	IPP	1	46206860	Missense_Mutation	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	394412	46206860	203043761	8	37798										
ELTD1	64123	hgsc.bcm.edu;bcgsc.ca	37	chr1	79470814	79470814	+	Frame_Shift_Del	DEL	C	C	-													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	tgcaatagcaggcttcaattCcattgcgtatttcacatttt							TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:79470814delC	ENST00000370742.3	-	2	176	c.113delG	c.(112-114)ggafs	p.G38fs		NM_022159.3	NP_071442.2	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain containing 1	38	EGF-like 1. {ECO:0000255|PROSITE- ProRule:PRU00076}.				G-protein coupled receptor signaling pathway (GO:0007186)|neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)	p.G38E(1)		NS(1)|breast(1)|endometrium(3)|kidney(2)|large_intestine(10)|lung(45)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	69				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		GGCTTCAATTCCATTGCGTAT	0.348																																																1	Substitution - Missense(1)	endometrium(1)											140	127	131					1																	79470814		1864	4103	5967	SO:0001589	frameshift_variant	64123			AF192403	CCDS41352.1	1p33-p32	2014-08-08			ENSG00000162618	ENSG00000162618		"-", "GPCR / Class B : Orphans"	20822	protein-coding gene	gene with protein product						11050079	Standard	NM_022159		Approved	ETL	uc001diq.4	Q9HBW9	OTTHUMG00000009738	ENST00000370742.3:c.113delG	1.37:g.79470814delC	ENSP00000359778:p.Gly38fs	Somatic		WXS	Illumina HiSeq	Phase_I	B1AR71|Q5KU34	Frame_Shift_Del	DEL	ENST00000370742.3	37	CCDS41352.1																																																																																				0.348	ELTD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026859.1	NM_022159		-	79470814	C	-	79470814	7	5	618	1	0	1	0	1	0	0	0	0	5086	855	30	0	2015	0	ELTD1	1	79470814	Frame_Shift_Del	DEL	C	TCGA-IZ-A6M8-01A-11D-A31X-10	33263954	79470814	169779807	9	37799										
MCOLN3	55283	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	85506767	85506767	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	atatgtgtcatccattcggtCcatatatccttttaggaaaa	6	8	1	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:85506767C>G	ENST00000370589.2	-	3	374	c.322G>C	c.(322-324)Gac>Cac	p.D108H	MCOLN3_ENST00000370587.1_Missense_Mutation_p.D108H|MCOLN3_ENST00000341115.4_Intron|WDR63_ENST00000370596.1_Intron	NM_018298.10	NP_060768.8	Q8TDD5	MCLN3_HUMAN	mucolipin 3	108					auditory receptor cell differentiation (GO:0042491)|calcium ion transmembrane transport (GO:0070588)|ion transmembrane transport (GO:0034220)|locomotory behavior (GO:0007626)|transmembrane transport (GO:0055085)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				endometrium(6)|kidney(3)|large_intestine(9)|lung(12)|prostate(3)|skin(1)	34				all cancers(265;0.00957)|Epithelial(280;0.0254)		TCCATTCGGTCCATATATCCT	0.378																																																0													235	209	217					1																	85506767		2203	4300	6503	SO:0001583	missense	55283			AF475085	CCDS701.1, CCDS58009.1	1p22.3	2011-12-16			ENSG00000055732	ENSG00000055732		"Voltage-gated ion channels / Transient receptor potential cation channels"	13358	protein-coding gene	gene with protein product		607400				16382100	Standard	NM_018298		Approved	TRPML3, FLJ11006, TRP-ML3	uc001dkp.3	Q8TDD5	OTTHUMG00000009955	ENST00000370589.2:c.322G>C	1.37:g.85506767C>G	ENSP00000359621:p.Asp108His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T4H5|Q5T4H6|Q9NV09	Missense_Mutation	SNP	ENST00000370589.2	37	CCDS701.1	.	.	.	.	.	.	.	.	.	.	C	18.86	3.712652	0.68730	.	.	ENSG00000055732	ENST00000370589;ENST00000302814;ENST00000370587	T;T	0.62364	0.03;0.03	5.76	5.76	0.90799	.	0.048278	0.85682	D	0.000000	T	0.77239	0.4101	M	0.77820	2.39	0.80722	D	1	D;D	0.89917	0.999;1.0	D;D	0.69824	0.966;0.965	T	0.77608	-0.2524	10	0.56958	D	0.05	-2.0809	19.9857	0.97347	0.0:1.0:0.0:0.0	.	108;108	B1ANB7;Q8TDD5	.;MCLN3_HUMAN	H	108	ENSP00000359621:D108H;ENSP00000359619:D108H	ENSP00000304843:D108H	D	-	1	0	MCOLN3	85279355	1.000000	0.71417	0.506000	0.27664	0.660000	0.38997	5.767000	0.68850	2.706000	0.92434	0.655000	0.94253	GAC		0.378	MCOLN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000027569.2	NM_018298		G	85506767	C	G	85506767	3	3	618	1	0	0	0	0	1	0	0	0	9404	855	30	4	1383	4	MCOLN3	1	85506767	Missense_Mutation	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	6035953	85506767	163743854	10	37800										
TRIM45	80263	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	117660955	117660955	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ccttctgcagctgcagggaaTtttccttctgggcccgtatg	11	12	2	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:117660955T>G	ENST00000256649.4	-	2	1449	c.923A>C	c.(922-924)aAt>aCt	p.N308T	TRIM45_ENST00000369464.3_Missense_Mutation_p.N308T|TRIM45_ENST00000369461.3_Missense_Mutation_p.N251T	NM_025188.3	NP_079464.2	Q9H8W5	TRI45_HUMAN	tripartite motif containing 45	308					bone development (GO:0060348)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(8)|lung(9)|prostate(1)	23	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)		CTGCAGGGAATTTTCCTTCTG	0.567																																																0													76	74	74					1																	117660955		2203	4300	6503	SO:0001583	missense	80263				CCDS893.1, CCDS44200.1	1p13.1	2011-04-20	2011-01-25		ENSG00000134253	ENSG00000134253		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	19018	protein-coding gene	gene with protein product		609318	"tripartite motif-containing 45"			15351693	Standard	NM_025188		Approved	FLJ13181, RNF99	uc001egz.2	Q9H8W5	OTTHUMG00000012119	ENST00000256649.4:c.923A>C	1.37:g.117660955T>G	ENSP00000256649:p.Asn308Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q53GN0|Q5T2K4|Q5T2K5|Q8IYV6	Missense_Mutation	SNP	ENST00000256649.4	37	CCDS893.1	.	.	.	.	.	.	.	.	.	.	T	10.44	1.352209	0.24512	.	.	ENSG00000134253	ENST00000256649;ENST00000369464;ENST00000369461	D;D;D	0.85629	-2.01;-2.01;-2.01	5.11	3.96	0.45880	.	0.242716	0.47852	N	0.000216	T	0.66557	0.2801	L	0.35723	1.085	0.44254	D	0.997108	B;B	0.16802	0.019;0.011	B;B	0.15870	0.014;0.006	T	0.63594	-0.6602	10	0.37606	T	0.19	-26.5032	11.6751	0.51425	0.0:0.0:0.1477:0.8522	.	308;308	Q9H8W5-2;Q9H8W5	.;TRI45_HUMAN	T	308;308;251	ENSP00000256649:N308T;ENSP00000358476:N308T;ENSP00000358473:N251T	ENSP00000256649:N308T	N	-	2	0	TRIM45	117462478	1.000000	0.71417	0.823000	0.32752	0.520000	0.34377	2.680000	0.46918	0.932000	0.37266	0.533000	0.62120	AAT		0.567	TRIM45-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033503.1	NM_025188		G	117660955	T	G	117660955	3	3	618	1	0	0	0	0	1	0	0	0	16532	1493	52	5	839	5	TRIM45	1	117660955	Missense_Mutation	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10	32154188	117660955	131589666	11	37801										
CHD1L	9557	hgsc.bcm.edu	37	chr1	146747129	146747130	+	Frame_Shift_Ins	INS	-	-	A													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ctcatcgcattggccaaaacINSaagtaagtgatttttttctg							TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:146747129_146747130insA	ENST00000369258.4	+	13	1403_1404	c.1383_1384insA	c.(1384-1386)aagfs	p.K462fs	CHD1L_ENST00000369259.3_Frame_Shift_Ins_p.K258fs|CHD1L_ENST00000431239.1_Frame_Shift_Ins_p.K368fs|CHD1L_ENST00000361293.5_Frame_Shift_Ins_p.K181fs|CHD1L_ENST00000467213.1_3'UTR	NM_001256336.1|NM_004284.4|NM_024568.2	NP_001243265.1|NP_004275.4|NP_078844.2	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein 1-like	462	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				ATP catabolic process (GO:0006200)|cellular response to DNA damage stimulus (GO:0006974)|chromatin remodeling (GO:0006338)|DNA duplex unwinding (GO:0032508)|DNA repair (GO:0006281)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|ATPase activity (GO:0016887)|DNA binding (GO:0003677)|nucleotide binding (GO:0000166)			breast(2)|endometrium(4)|kidney(1)|large_intestine(4)|lung(15)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	33	all_hematologic(923;0.0487)					TTGGCCAAAACAAGTAAGTGAT	0.45																																																0																																										SO:0001589	frameshift_variant	9557			AF054177	CCDS927.1, CCDS58021.1, CCDS58022.1, CCDS72882.1	1q21.1	2008-02-05			ENSG00000131778	ENSG00000131778			1916	protein-coding gene	gene with protein product		613039				9653160	Standard	NM_004284		Approved	ALC1	uc001epm.5	Q86WJ1	OTTHUMG00000150271	ENST00000369258.4:c.1385dupA	1.37:g.146747131_146747131dupA	ENSP00000358262:p.Lys462fs	Somatic		WXS	Illumina HiSeq	Phase_I	A5YM64|B4DDE1|B5MDZ7|Q53EZ3|Q5VXX7|Q6DD94|Q6PK83|Q86XH3|Q96HF7|Q96SP3|Q9BVJ1|Q9NVV8	Frame_Shift_Ins	INS	ENST00000369258.4	37	CCDS927.1																																																																																				0.45	CHD1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040377.1	NM_004284		A	146747130	-	A	146747129	7	5	618	1	0	1	1	0	0	0	0	0	3326	477	17	0	1433	0	CHD1L	1	146747129	Frame_Shift_Ins	INS	-	TCGA-IZ-A6M8-01A-11D-A31X-10	29086174	146747129	102503492	12	37802										
SETDB1	9869	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	150900339	150900347	+	In_Frame_Del	DEL	AGATGGATT	AGATGGATT	-													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	catcgatgaggaactggagaAgatggattgtgtacagcaac					rs201917860|rs200122173		TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	AGATGGATT	AGATGGATT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:150900339_150900347delAGATGGATT	ENST00000271640.5	+	2	339_347	c.149_157delAGATGGATT	c.(148-159)aagatggattgt>agt	p.50_53KMDC>S	SETDB1_ENST00000368962.2_In_Frame_Del_p.50_53KMDC>S|SETDB1_ENST00000368969.4_In_Frame_Del_p.50_53KMDC>S|SETDB1_ENST00000368963.1_In_Frame_Del_p.50_53KMDC>S|SETDB1_ENST00000459773.1_3'UTR	NM_001145415.1|NM_012432.3	NP_001138887.1|NP_036564.3	Q15047	SETB1_HUMAN	SET domain, bifurcated 1	50					bone development (GO:0060348)|histone H3-K9 trimethylation (GO:0036124)|inner cell mass cell proliferation (GO:0001833)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|zinc ion binding (GO:0008270)			NS(1)|large_intestine(5)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)	12	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;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			GAACTGGAGAAGATGGATTGTGTACAGCA	0.474																																																0																																										SO:0001651	inframe_deletion	9869			D31891	CCDS972.1, CCDS44217.1, CCDS58026.1	1q21	2013-01-23			ENSG00000143379	ENSG00000143379		"Chromatin-modifying enzymes / K-methyltransferases", "Tudor domain containing"	10761	protein-coding gene	gene with protein product	"tudor domain containing 21"	604396				10343109	Standard	NM_001145415		Approved	KG1T, KIAA0067, ESET, KMT1E, TDRD21	uc001evu.2	Q15047	OTTHUMG00000035003	ENST00000271640.5:c.149_157delAGATGGATT	1.37:g.150900339_150900347delAGATGGATT	ENSP00000271640:p.Lys50_Cys53delinsSer	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEW2|Q5SZD8|Q5SZD9|Q5SZE0|Q5SZE7|Q96GM9	In_Frame_Del	DEL	ENST00000271640.5	37	CCDS44217.1																																																																																				0.474	SETDB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000084717.2			-	150900347	AGATGGATT	-	150900339	7	5	618	1	0	1	0	1	0	0	0	0	14151	72	3	0	151	0	SETDB1	1	150900339	In_Frame_Del	DEL	AGATGGATT	TCGA-IZ-A6M8-01A-11D-A31X-10	4153210	150900339	98350282	13	37803										
ABL2	27	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	179076969	179076969	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ctgtagctcctgcaggctgaGttccagtttgctcacagcct	10	13	1	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:179076969G>T	ENST00000502732.1	-	12	3636	c.3433C>A	c.(3433-3435)Ctc>Atc	p.L1145I	ABL2_ENST00000344730.3_Missense_Mutation_p.L1027I|ABL2_ENST00000408940.3_Missense_Mutation_p.L1109I|ABL2_ENST00000367623.4_Missense_Mutation_p.L1124I|ABL2_ENST00000511413.1_Missense_Mutation_p.L1042I|ABL2_ENST00000507173.1_Missense_Mutation_p.L1021I|ABL2_ENST00000504405.1_Missense_Mutation_p.L1006I|ABL2_ENST00000512653.1_Missense_Mutation_p.L1130I	NM_001168236.1|NM_001168237.1|NM_001168238.1|NM_007314.3	NP_001161708.1|NP_001161709.1|NP_001161710.1|NP_009298.1	P42684	ABL2_HUMAN	ABL proto-oncogene 2, non-receptor tyrosine kinase	1145	F-actin-binding. {ECO:0000250}.				actin filament bundle assembly (GO:0051017)|axon guidance (GO:0007411)|cell adhesion (GO:0007155)|cellular protein modification process (GO:0006464)|cellular response to retinoic acid (GO:0071300)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of neuron projection development (GO:0010976)|positive regulation of oxidoreductase activity (GO:0051353)|positive regulation of phospholipase C activity (GO:0010863)|regulation of actin cytoskeleton reorganization (GO:2000249)|regulation of autophagy (GO:0010506)|regulation of cell adhesion (GO:0030155)|regulation of cell motility (GO:2000145)|regulation of endocytosis (GO:0030100)|signal transduction (GO:0007165)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)	actin filament binding (GO:0051015)|actin monomer binding (GO:0003785)|ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein kinase activity (GO:0004672)|protein tyrosine kinase activity (GO:0004713)			breast(8)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(9)|lung(32)|ovary(3)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	65					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	TGCAGGCTGAGTTCCAGTTTG	0.507			T	ETV6	AML																																		Dom	yes		1	1q24-q25	27	v-abl Abelson murine leukemia viral oncogene homolog 2		L	0													71	72	71					1																	179076969		2203	4300	6503	SO:0001583	missense	27			M14904	CCDS30947.1, CCDS41441.1, CCDS44282.1, CCDS44283.1, CCDS41441.2, CCDS53435.1, CCDS53436.1, CCDS53437.1, CCDS53438.1	1q25.2	2014-06-26	2014-06-26		ENSG00000143322	ENSG00000143322		"SH2 domain containing"	77	protein-coding gene	gene with protein product	"Abelson-related gene"	164690	"v-abl Abelson murine leukemia viral oncogene homolog 2 (arg, Abelson-related gene)", "v-abl Abelson murine leukemia viral oncogene homolog 2", "c-abl oncogene 2, non-receptor tyrosine kinase"	ABLL		3787260	Standard	NM_001136001		Approved	ARG	uc001gmi.4	P42684	OTTHUMG00000035199	ENST00000502732.1:c.3433C>A	1.37:g.179076969G>T	ENSP00000427562:p.Leu1145Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A0M8X0|B7UEF2|B7UEF3|B7UEF4|B7UEF5|Q5T0X6|Q5W0C5|Q6NZY6|Q7Z301	Missense_Mutation	SNP	ENST00000502732.1	37	CCDS30947.1	.	.	.	.	.	.	.	.	.	.	G	12.16	1.854385	0.32791	.	.	ENSG00000143322	ENST00000502732;ENST00000408940;ENST00000344730;ENST00000512653;ENST00000504405;ENST00000367623;ENST00000507173;ENST00000511413	T;T;T;T;T;T;T;T	0.30182	1.54;1.54;1.54;1.54;1.54;1.54;1.54;1.54	5.65	4.72	0.59763	F-actin binding (2);	0.142456	0.32068	N	0.006637	T	0.42877	0.1222	L	0.43152	1.355	0.37518	D	0.917409	D;B;B;D;D;D;D;B	0.76494	0.999;0.003;0.001;0.99;0.999;0.999;0.999;0.005	D;B;B;D;D;D;D;B	0.83275	0.993;0.004;0.004;0.979;0.996;0.993;0.996;0.006	T	0.38090	-0.9677	10	0.20046	T	0.44	.	10.5331	0.44988	0.0:0.1448:0.7048:0.1504	.	1124;1021;1042;1006;1145;1130;1109;1027	P42684-6;P42684-7;P42684-5;P42684-4;P42684;P42684-3;D1MPS6;P42684-10	.;.;.;.;ABL2_HUMAN;.;.;.	I	1145;1109;1027;1130;1006;1124;1021;1042	ENSP00000427562:L1145I;ENSP00000386152:L1109I;ENSP00000339209:L1027I;ENSP00000423578:L1130I;ENSP00000426831:L1006I;ENSP00000356595:L1124I;ENSP00000423413:L1021I;ENSP00000424697:L1042I	ENSP00000339209:L1027I	L	-	1	0	ABL2	177343592	0.997000	0.39634	0.993000	0.49108	0.835000	0.47333	2.092000	0.41700	1.326000	0.45319	0.655000	0.94253	CTC		0.507	ABL2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000085174.3	NM_005158		T	179076969	G	T	179076969	3	4	618	1	0	0	0	0	1	0	0	0	93	1029	36	4	119	4	ABL2	1	179076969	Missense_Mutation	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	28176630	179076969	70173652	14	37804										
ZNF281	23528	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	200378264	200378264	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	agtaatacgtcacggtggtgCtgggctggttgctgctggac	16	8	1	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:200378264C>T	ENST00000294740.3	-	2	694	c.570G>A	c.(568-570)caG>caA	p.Q190Q	ZNF281_ENST00000367353.1_Silent_p.Q190Q|ZNF281_ENST00000367352.3_Silent_p.Q154Q	NM_001281293.1|NM_001281294.1|NM_012482.4	NP_001268222.1|NP_001268223.1|NP_036614.1	Q9Y2X9	ZN281_HUMAN	zinc finger protein 281	190					embryonic body morphogenesis (GO:0010172)|negative regulation of gene expression (GO:0010629)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription, DNA-templated (GO:0045893)|stem cell differentiation (GO:0048863)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	core promoter binding (GO:0001047)|metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)|transcription regulatory region DNA binding (GO:0044212)			breast(4)|endometrium(3)|kidney(3)|large_intestine(6)|lung(7)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	27						CACGGTGGTGCTGGGCTGGTT	0.562																																																0													101	97	98					1																	200378264		2203	4300	6503	SO:0001819	synonymous_variant	23528			AF125158	CCDS1402.1, CCDS60384.1	1q32.1	2012-08-08			ENSG00000162702	ENSG00000162702		"Zinc fingers, C2H2-type"	13075	protein-coding gene	gene with protein product						10448078	Standard	NM_012482		Approved	ZBP-99	uc001gve.3	Q9Y2X9	OTTHUMG00000035724	ENST00000294740.3:c.570G>A	1.37:g.200378264C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NF48|B3KMX2|Q5RKW5|Q9NY92	Silent	SNP	ENST00000294740.3	37	CCDS1402.1																																																																																				0.562	ZNF281-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000086879.2	NM_012482		T	200378264	C	T	200378264	2	4	618	1	0	0	0	0	0	0	0	1	17830	796	28	2		2	ZNF281	1	200378264	Silent	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	21301295	200378264	48872357	15	37805										
LBR	3930	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	225600280	225600280	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	agaaaatgactgtacacgtaAtgaaactctacgccctggaa	8	9	1	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr1:225600280A>C	ENST00000338179.2	-	8	1085	c.960T>G	c.(958-960)caT>caG	p.H320Q	AC092811.1_ENST00000366845.2_5'Flank|LBR_ENST00000272163.4_Missense_Mutation_p.H320Q	NM_194442.2	NP_919424.1	Q14739	LBR_HUMAN	lamin B receptor	320					cholesterol biosynthetic process (GO:0006695)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|integral component of nuclear inner membrane (GO:0005639)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)	chromo shadow domain binding (GO:0070087)|DNA binding (GO:0003677)|lamin binding (GO:0005521)|oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor (GO:0016628)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(5)|ovary(2)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	22	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		TGTACACGTAATGAAACTCTA	0.413																																																0													79	80	80					1																	225600280		2203	4300	6503	SO:0001583	missense	3930			L25931	CCDS1545.1	1q42.1	2013-01-23			ENSG00000143815	ENSG00000143815		"Tudor domain containing"	6518	protein-coding gene	gene with protein product	"tudor domain containing 18"	600024				8157663, 9878250	Standard	NM_194442		Approved	DHCR14B, TDRD18	uc001hoy.3	Q14739	OTTHUMG00000037520	ENST00000338179.2:c.960T>G	1.37:g.225600280A>C	ENSP00000339883:p.His320Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5P3|Q14740|Q53GU7|Q59FE6	Missense_Mutation	SNP	ENST00000338179.2	37	CCDS1545.1	.	.	.	.	.	.	.	.	.	.	A	10.74	1.434732	0.25813	.	.	ENSG00000143815	ENST00000272163;ENST00000338179	D;D	0.97811	-4.55;-4.55	6.07	-0.357	0.12579	.	1.680490	0.02408	N	0.081343	D	0.92440	0.7600	N	0.04203	-0.255	0.09310	N	1	B	0.23128	0.08	B	0.18263	0.021	D	0.86742	0.1955	10	0.29301	T	0.29	3.4658	9.9056	0.41375	0.6743:0.0:0.3257:0.0	.	320	Q14739	LBR_HUMAN	Q	320	ENSP00000272163:H320Q;ENSP00000339883:H320Q	ENSP00000272163:H320Q	H	-	3	2	LBR	223666903	0.080000	0.21391	0.000000	0.03702	0.029000	0.11900	0.526000	0.22971	-0.299000	0.08909	0.533000	0.62120	CAT		0.413	LBR-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091398.1	NM_002296		C	225600280	A	C	225600280	3	2	618	1	0	0	0	0	1	0	0	0	8659	98	4	5	915	5	LBR	1	225600280	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	25222016	225600280	23650341	16	37806										
C2orf84	653140	ucsc.edu;bcgsc.ca	37	chr2	24413283	24413283	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ttctgcttttcttcacagtcCtgaaaagctcatctatgcag	6	11	5	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr2:24413283C>T	ENST00000295150.3	+	6	490	c.404C>T	c.(403-405)cCt>cTt	p.P135L	RP11-507M3.1_ENST00000584973.1_3'UTR	NM_001040710.1	NP_001035800.1	Q86W67	F228A_HUMAN	family with sequence similarity 228, member A	135																	CTTCACAGTCCTGAAAAGCTC	0.403																																																0													27	27	27					2																	24413283		1863	4086	5949	SO:0001583	missense	653140				CCDS42659.1	2p23.3	2012-07-04	2012-07-04	2012-07-04	ENSG00000186453	ENSG00000186453			34418	protein-coding gene	gene with protein product			"chromosome 2 open reading frame 84"	C2orf84			Standard	NM_001040710		Approved	FLJ30851	uc002rfc.3	Q86W67	OTTHUMG00000151903	ENST00000295150.3:c.404C>T	2.37:g.24413283C>T	ENSP00000295150:p.Pro135Leu	Somatic		WXS	Illumina HiSeq			Missense_Mutation	SNP	ENST00000295150.3	37	CCDS42659.1	.	.	.	.	.	.	.	.	.	.	C	15.53	2.859698	0.51376	.	.	ENSG00000186453	ENST00000295150;ENST00000415196	T;T	0.49432	0.79;0.78	3.64	2.77	0.32553	.	0.665350	0.13290	N	0.399077	T	0.31167	0.0788	N	0.19112	0.55	0.19300	N	0.99998	B	0.22683	0.073	B	0.25884	0.064	T	0.20638	-1.0269	10	0.46703	T	0.11	1.0E-4	7.0592	0.25115	0.0:0.8788:0.0:0.1212	.	135	Q86W67	CB084_HUMAN	L	135;36	ENSP00000295150:P135L;ENSP00000416595:P36L	ENSP00000295150:P135L	P	+	2	0	C2orf84	24266787	0.562000	0.26586	0.120000	0.21714	0.061000	0.15899	0.376000	0.20535	1.121000	0.41925	0.650000	0.86243	CCT		0.403	FAM228A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324342.1	NM_001040710		T	24413283	C	T	24413283	3	4	618	1	0	0	0	0	1	0	0	0	2201	681	24	2	422	2	C2orf84	2	24413283	Missense_Mutation	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10		24413283	218786090	17	37807										
SULT6B1	391365	hgsc.bcm.edu;bcgsc.ca	37	chr2	37414574	37414575	+	Frame_Shift_Ins	INS	-	-	T													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ttttttagaaacagcatataINSttaattcactgacaatgtgg							TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr2:37414574_37414575insT	ENST00000535679.1	-	2	234_235	c.235_236insA	c.(235-237)atafs	p.I79fs	SULT6B1_ENST00000407963.1_Frame_Shift_Ins_p.I41fs|SULT6B1_ENST00000379149.2_Frame_Shift_Ins_p.I79fs|SULT6B1_ENST00000260637.3_Frame_Shift_Ins_p.I41fs			Q6IMI4	ST6B1_HUMAN	sulfotransferase family, cytosolic, 6B, member 1	79						cytoplasm (GO:0005737)	sulfotransferase activity (GO:0008146)			NS(1)|breast(1)|central_nervous_system(1)|large_intestine(3)|lung(5)|ovary(1)	12		all_hematologic(82;0.248)				AACAGCATATATTAATTCACTG	0.327																																																0																																										SO:0001589	frameshift_variant	391365			AY289770, AY289774	CCDS33182.1	2p22.2	2007-07-26			ENSG00000138068	ENSG00000138068		"Sulfotransferases, cytosolic"	33433	protein-coding gene	gene with protein product						14676822	Standard	XM_005264307		Approved		uc002rpu.3	Q6IMI4	OTTHUMG00000152160	ENST00000535679.1:c.236dupA	2.37:g.37414576_37414576dupT	ENSP00000444081:p.Ile79fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTS7	Frame_Shift_Ins	INS	ENST00000535679.1	37																																																																																					0.327	SULT6B1-203	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_001032377		T	37414575	-	T	37414574	7	5	618	1	0	1	1	0	0	0	0	0	15396	449	16	0	699	0	SULT6B1	2	37414574	Frame_Shift_Ins	INS	-	TCGA-IZ-A6M8-01A-11D-A31X-10	13001291	37414574	205784799	18	37808										
SOS1	6654	bcgsc.ca	37	chr2	39284009	39284009	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ttttataacctaggacctccTgcaaaattaaaagaaaagca	5	8	0	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr2:39284009T>C	ENST00000426016.1	-	5	432		c.e5-2		SOS1_ENST00000395038.2_Splice_Site|SOS1_ENST00000402219.2_Splice_Site|SOS1_ENST00000428721.2_Splice_Site			Q07889	SOS1_HUMAN	son of sevenless homolog 1 (Drosophila)						apoptotic signaling pathway (GO:0097190)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|leukocyte migration (GO:0050900)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet activation (GO:0030168)|positive regulation of apoptotic process (GO:0043065)|positive regulation of epidermal growth factor receptor signaling pathway (GO:0045742)|positive regulation of Ras GTPase activity (GO:0032320)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of small GTPase mediated signal transduction (GO:0051057)|Ras protein signal transduction (GO:0007265)|regulation of small GTPase mediated signal transduction (GO:0051056)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)	DNA binding (GO:0003677)|Ras guanyl-nucleotide exchange factor activity (GO:0005088)|Rho GTPase activator activity (GO:0005100)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			autonomic_ganglia(1)|breast(6)|central_nervous_system(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(9)|liver(1)|lung(29)|ovary(4)|prostate(1)|skin(4)|stomach(1)|urinary_tract(2)	75		all_hematologic(82;0.21)				TAGGACCTCCTGCAAAATTAA	0.299									Noonan syndrome																																							0													101	117	111					2																	39284009		2198	4295	6493	SO:0001630	splice_region_variant	6654	Familial Cancer Database	Male Turner syndrome, Pterygium Colli syndrome, incl. Noonan-like/Multiple Giant Cell Lesion syndrome; Noonan s. with multiple lentigines/LEOPARD syndrome	L13857	CCDS1802.1	2p21	2014-09-17	2002-11-05		ENSG00000115904	ENSG00000115904		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	11187	protein-coding gene	gene with protein product		182530	"gingival fibromatosis, hereditary, 1"	GINGF		8276400, 10995566	Standard	NM_005633		Approved	HGF, GF1	uc002rrk.4	Q07889	OTTHUMG00000102109	ENST00000426016.1:c.346-2A>G	2.37:g.39284009T>C		Somatic		WXS	Illumina HiSeq	Phase_1	A8K2G3|B4DXG2	Splice_Site	SNP	ENST00000426016.1	37	CCDS1802.1	.	.	.	.	.	.	.	.	.	.	T	23.0	4.361515	0.82353	.	.	ENSG00000115904	ENST00000426016;ENST00000402219;ENST00000395038;ENST00000263879;ENST00000428721;ENST00000451331	.	.	.	5.57	5.57	0.84162	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.7191	0.77694	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	SOS1	39137513	1.000000	0.71417	0.998000	0.56505	0.968000	0.65278	7.904000	0.87408	2.118000	0.64928	0.377000	0.23210	.		0.299	SOS1-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219948.3	NM_005633	Intron	C	39284009	T	C	39284009	5	2	618	1	0	0	0	0	0	0	1	0	14949	1594	55	3	3737	3	SOS1	2	39284009	Splice_Site	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10	1869435	39284009	203915364	19	37809										
GMCL1	64395	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	70096993	70096993	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gcctcgaaggagcatagcatTtaggtaggatgagatttccc	12	8	0	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr2:70096993T>G	ENST00000282570.3	+	12	1612	c.1361T>G	c.(1360-1362)tTt>tGt	p.F454C		NM_178439.3	NP_848526.1	Q96IK5	GMCL1_HUMAN	germ cell-less, spermatogenesis associated 1	454					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|spermatogenesis (GO:0007283)	nuclear envelope (GO:0005635)|nuclear matrix (GO:0016363)				endometrium(2)|kidney(1)|large_intestine(3)|lung(4)|ovary(3)|skin(1)|upper_aerodigestive_tract(1)	15						AGCATAGCATTTAGGTAGGAT	0.398																																																0													138	118	125					2																	70096993		2203	4300	6503	SO:0001583	missense	64395			AK023119	CCDS1895.1	2p13.3	2013-01-09	2012-08-20		ENSG00000087338	ENSG00000087338		"BTB/POZ domain containing"	23843	protein-coding gene	gene with protein product	"spermatogenesis associated 29"		"germ cell-less homolog 1 (Drosophila)"				Standard	NM_178439		Approved	FLJ13057, BTBD13, GCL1, SPATA29	uc002sfu.3	Q96IK5	OTTHUMG00000129643	ENST00000282570.3:c.1361T>G	2.37:g.70096993T>G	ENSP00000282570:p.Phe454Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H826|Q9H8V7|Q9H927	Missense_Mutation	SNP	ENST00000282570.3	37	CCDS1895.1	.	.	.	.	.	.	.	.	.	.	T	15.07	2.723230	0.48728	.	.	ENSG00000087338	ENST00000282570	T	0.56103	0.48	5.22	5.22	0.72569	.	0.108148	0.64402	D	0.000004	T	0.63534	0.2519	L	0.44542	1.39	0.46113	D	0.99887	D	0.76494	0.999	D	0.70227	0.968	T	0.64478	-0.6398	10	0.51188	T	0.08	-38.9046	13.3387	0.60533	0.0:0.0:0.0:1.0	.	454	Q96IK5	GMCL1_HUMAN	C	454	ENSP00000282570:F454C	ENSP00000282570:F454C	F	+	2	0	GMCL1	69950497	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	3.799000	0.55529	2.090000	0.63153	0.533000	0.62120	TTT		0.398	GMCL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251841.2	NM_178439		G	70096993	T	G	70096993	3	3	618	1	0	0	0	0	1	0	0	0	6492	1841	64	5	1407	5	GMCL1	2	70096993	Missense_Mutation	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10	30812984	70096993	173102380	20	37810										
PCDP1	200373	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	120362785	120362785	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	cagggcactgaaatttcaaaAacgagacagatgaaggaggc	12	7	1	4			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr2:120362785A>C	ENST00000413369.3	+	11	1140	c.1053A>C	c.(1051-1053)aaA>aaC	p.K351N	PCDP1_ENST00000597189.1_3'UTR|PCDP1_ENST00000602047.1_Missense_Mutation_p.K65N	NM_001271049.1	NP_001257978																Colorectal(110;0.196)					AAATTTCAAAAACGAGACAGA	0.383																																																0													67	70	69					2																	120362785		2203	4300	6503	SO:0001583	missense	0																														ENST00000413369.3:c.1053A>C	2.37:g.120362785A>C	ENSP00000393222:p.Lys351Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000413369.3	37	CCDS33282.2	.	.	.	.	.	.	.	.	.	.	A	14.44	2.535164	0.45176	.	.	ENSG00000163075	ENST00000295220;ENST00000413369	T	0.19938	2.11	5.22	2.87	0.33458	.	0.239906	0.36338	N	0.002660	T	0.12433	0.0302	L	0.34521	1.04	0.80722	D	1	P;B	0.35011	0.48;0.291	B;B	0.27715	0.082;0.082	T	0.13872	-1.0493	10	0.27082	T	0.32	-25.951	8.4885	0.33086	0.8403:0.0:0.1597:0.0	.	195;351	Q4G0U5-3;Q4G0U5	.;PCDP1_HUMAN	N	65;351	ENSP00000393222:K351N	ENSP00000295220:K65N	K	+	3	2	AC069154.2	120079255	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	1.660000	0.37397	0.460000	0.27045	0.533000	0.62120	AAA		0.383	PCDP1-006	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464236.1			C	120362785	A	C	120362785	3	2	618	1	0	0	0	0	1	0	0	0	11579	11	1	5	205	5	PCDP1	2	120362785	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	50265792	120362785	122836588	21	37811										
MKI67IP	84365	bcgsc.ca	37	chr2	122494414	122494414	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gattggcccagccgggccagAaaaagtcgccatgccaaaag	12	12	0	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr2:122494414A>G	ENST00000285814.4	-	1	85	c.13T>C	c.(13-15)Tct>Cct	p.S5P		NM_032390.4	NP_115766.3	Q9BYG3	MK67I_HUMAN		5					negative regulation of phosphatase activity (GO:0010923)|protein complex assembly (GO:0006461)|rRNA metabolic process (GO:0016072)|rRNA transcription (GO:0009303)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			endometrium(1)|kidney(2)|large_intestine(1)|lung(6)|pancreas(1)|urinary_tract(1)	12						GCCGGGCCAGAAAAAGTCGCC	0.627																																																0													28	28	28					2																	122494414		2203	4300	6503	SO:0001583	missense	84365																														ENST00000285814.4:c.13T>C	2.37:g.122494414A>G	ENSP00000285814:p.Ser5Pro	Somatic		WXS	Illumina HiSeq	Phase_1	A8K788|Q8TB66|Q96ED4	Missense_Mutation	SNP	ENST00000285814.4	37	CCDS2135.1	.	.	.	.	.	.	.	.	.	.	A	10.34	1.324189	0.24080	.	.	ENSG00000155438	ENST00000285814;ENST00000409201;ENST00000451734	T;T	0.35973	2.19;1.28	3.13	-6.26	0.02033	.	2.322460	0.01768	N	0.030964	T	0.24509	0.0594	L	0.33485	1.01	0.09310	N	1	B;P	0.49961	0.013;0.93	B;B	0.41571	0.01;0.36	T	0.40869	-0.9540	10	0.49607	T	0.09	6.4386	3.9147	0.09217	0.2927:0.5044:0.0971:0.1058	.	5;5	B4DSM4;Q9BYG3	.;MK67I_HUMAN	P	5	ENSP00000285814:S5P;ENSP00000398116:S5P	ENSP00000285814:S5P	S	-	1	0	MKI67IP	122210884	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-1.354000	0.02614	-2.375000	0.00598	-0.489000	0.04712	TCT		0.627	MKI67IP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254239.2			G	122494414	A	G	122494414	3	3	618	1	0	0	0	0	1	0	0	0	9606	246	9	3	896	3	MKI67IP	2	122494414	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	2131629	122494414	120704959	22	37812										
SCN1A	6323	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	166908235	166908235	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	acaataattcttacttgaatCttgaatatatgacttccagt	4	7	2	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr2:166908235C>A	ENST00000303395.4	-	6	957	c.958G>T	c.(958-960)Gat>Tat	p.D320Y	AC010127.3_ENST00000595647.1_RNA|SCN1A_ENST00000409050.1_Missense_Mutation_p.D320Y|SCN1A_ENST00000423058.2_Missense_Mutation_p.D320Y|AC010127.3_ENST00000599041.1_RNA|AC010127.3_ENST00000595268.1_RNA|SCN1A_ENST00000375405.3_Missense_Mutation_p.D320Y			P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha subunit	320					adult walking behavior (GO:0007628)|membrane depolarization during action potential (GO:0086010)|neuromuscular process controlling posture (GO:0050884)|neuronal action potential (GO:0019228)|neuronal action potential propagation (GO:0019227)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	axon initial segment (GO:0043194)|intercalated disc (GO:0014704)|neuronal cell body (GO:0043025)|node of Ranvier (GO:0033268)|plasma membrane (GO:0005886)|T-tubule (GO:0030315)|voltage-gated sodium channel complex (GO:0001518)|Z disc (GO:0030018)	voltage-gated sodium channel activity (GO:0005248)			NS(4)|breast(5)|endometrium(16)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(33)|lung(87)|ovary(7)|pancreas(1)|prostate(9)|skin(23)|upper_aerodigestive_tract(2)|urinary_tract(1)	200					Dronedarone(DB04855)|Nitrazepam(DB01595)|Permethrin(DB04930)|Phenacemide(DB01121)|Phenazopyridine(DB01438)|Phenytoin(DB00252)|Topiramate(DB00273)|Valproic Acid(DB00313)|Zonisamide(DB00909)	TTACTTGAATCTTGAATATAT	0.299																																																0													39	40	40					2																	166908235		2201	4295	6496	SO:0001583	missense	6323			AB093548	CCDS33316.1, CCDS54413.1, CCDS54414.1	2q24.3	2014-09-17	2007-01-23		ENSG00000144285	ENSG00000144285		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10585	protein-coding gene	gene with protein product		182389	"febrile convulsions 3"	SCN1, FEB3		8062593, 16382098, 11823106	Standard	NM_006920		Approved	Nav1.1, GEFSP2, HBSCI, NAC1, SMEI	uc021vsb.1	P35498	OTTHUMG00000044173	ENST00000303395.4:c.958G>T	2.37:g.166908235C>A	ENSP00000303540:p.Asp320Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	E9PG49|Q16172|Q585T7|Q8IUJ6|Q96LA3|Q9C008	Missense_Mutation	SNP	ENST00000303395.4	37	CCDS54413.1	.	.	.	.	.	.	.	.	.	.	C	19.61	3.860340	0.71834	.	.	ENSG00000144285	ENST00000423058;ENST00000303395;ENST00000375405;ENST00000409050	D;D;D;D	0.96554	-4.05;-4.05;-4.01;-3.98	5.41	5.41	0.78517	Ion transport (1);	0.161043	0.43919	D	0.000516	D	0.97845	0.9292	M	0.67953	2.075	0.54753	D	0.999989	P;D;D	0.89917	0.841;0.998;1.0	P;D;D	0.87578	0.552;0.974;0.998	D	0.98223	1.0479	10	0.62326	D	0.03	.	19.5538	0.95333	0.0:1.0:0.0:0.0	.	320;320;320	P35498-2;E9PG49;P35498	.;.;SCN1A_HUMAN	Y	320	ENSP00000407030:D320Y;ENSP00000303540:D320Y;ENSP00000364554:D320Y;ENSP00000386312:D320Y	ENSP00000303540:D320Y	D	-	1	0	SCN1A	166616481	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	2.926000	0.48892	2.688000	0.91661	0.655000	0.94253	GAT		0.299	SCN1A-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000102661.1	NM_006920		A	166908235	C	A	166908235	3	1	618	1	0	0	0	0	1	0	0	0	13927	913	32	4	5155	4	SCN1A	2	166908235	Missense_Mutation	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	44413821	166908235	76291138	23	37813										
IHH	3549	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	219920296	219920296	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ggctggcaaatgtggcccggAagcgggctgccggctccgtg	18	12	0	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr2:219920296A>G	ENST00000295731.6	-	3	868	c.869T>C	c.(868-870)tTc>tCc	p.F290S		NM_002181.3	NP_002172.2	Q14623	IHH_HUMAN	indian hedgehog	290					bone resorption (GO:0045453)|camera-type eye photoreceptor cell fate commitment (GO:0060220)|cartilage development (GO:0051216)|cell fate specification (GO:0001708)|cell maturation (GO:0048469)|cell-cell signaling (GO:0007267)|chondrocyte proliferation (GO:0035988)|embryonic camera-type eye morphogenesis (GO:0048596)|embryonic digestive tract morphogenesis (GO:0048557)|embryonic pattern specification (GO:0009880)|embryonic skeletal joint development (GO:0072498)|epithelial cell morphogenesis (GO:0003382)|epithelial cell-cell adhesion (GO:0090136)|head morphogenesis (GO:0060323)|heart looping (GO:0001947)|in utero embryonic development (GO:0001701)|intein-mediated protein splicing (GO:0016539)|maternal process involved in female pregnancy (GO:0060135)|multicellular organism growth (GO:0035264)|negative regulation of alpha-beta T cell differentiation (GO:0046639)|negative regulation of apoptotic process (GO:0043066)|negative regulation of eye pigmentation (GO:0048074)|negative regulation of immature T cell proliferation in thymus (GO:0033088)|negative regulation of signal transduction (GO:0009968)|negative regulation of T cell differentiation in thymus (GO:0033085)|neuron development (GO:0048666)|osteoblast differentiation (GO:0001649)|pancreas development (GO:0031016)|patterning of blood vessels (GO:0001569)|positive regulation of alpha-beta T cell differentiation (GO:0046638)|positive regulation of chondrocyte differentiation (GO:0032332)|positive regulation of collagen biosynthetic process (GO:0032967)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of smoothened signaling pathway (GO:0045880)|positive regulation of T cell differentiation in thymus (GO:0033089)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|proteoglycan metabolic process (GO:0006029)|regulation of growth (GO:0040008)|response to estradiol (GO:0032355)|retinal pigment epithelium development (GO:0003406)|skeletal system development (GO:0001501)|smooth muscle tissue development (GO:0048745)|smoothened signaling pathway (GO:0007224)|somite development (GO:0061053)|vitelline membrane formation (GO:0030704)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|patched binding (GO:0005113)|peptidase activity (GO:0008233)			breast(1)|endometrium(2)|large_intestine(1)|lung(8)|skin(1)|upper_aerodigestive_tract(1)	14		Renal(207;0.0915)		Epithelial(149;1.13e-06)|all cancers(144;0.000188)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGTGGCCCGGAAGCGGGCTGC	0.667																																																0													24	28	26					2																	219920296		2202	4299	6501	SO:0001583	missense	3549			L38517	CCDS33380.1	2q33-q35	2013-02-15	2013-02-15		ENSG00000163501	ENSG00000163501			5956	protein-coding gene	gene with protein product		600726	"Indian hedgehog (Drosophila) homolog", "Indian hedgehog homolog (Drosophila)"			7590746, 14770182	Standard	NM_002181		Approved	HHG2, BDA1	uc002vjo.2	Q14623	OTTHUMG00000154631	ENST00000295731.6:c.869T>C	2.37:g.219920296A>G	ENSP00000295731:p.Phe290Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGM5|O43322|Q8N4B9	Missense_Mutation	SNP	ENST00000295731.6	37	CCDS33380.1	.	.	.	.	.	.	.	.	.	.	A	17.61	3.431635	0.62844	.	.	ENSG00000163501	ENST00000295731	D	0.98792	-5.14	5.16	5.16	0.70880	Hedgehog/intein hint, N-terminal (1);Peptidase C46, hedgehog protein, hint region (1);	0.051418	0.85682	D	0.000000	D	0.97626	0.9222	L	0.57536	1.79	0.45662	D	0.998585	P	0.49185	0.92	P	0.47744	0.556	D	0.97010	0.9735	10	0.20519	T	0.43	-0.671	13.8287	0.63366	1.0:0.0:0.0:0.0	.	290	Q14623	IHH_HUMAN	S	290	ENSP00000295731:F290S	ENSP00000295731:F290S	F	-	2	0	IHH	219628540	0.991000	0.36638	0.999000	0.59377	0.936000	0.57629	1.540000	0.36115	1.929000	0.55896	0.459000	0.35465	TTC		0.667	IHH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336408.2	NM_002181		G	219920296	A	G	219920296	3	3	618	1	0	0	0	0	1	0	0	0	7614	246	9	3	370	3	IHH	2	219920296	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	53012061	219920296	23279077	24	37814										
PER2	8864	broad.mit.edu	37	chr2	239186362	239186362	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	actcacctctggcgggcatcCggtggctccaccagcatccc	10	18	2	0	rs561050117		TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr2:239186362C>T	ENST00000254657.3	-	2	495	c.216G>A	c.(214-216)ccG>ccA	p.P72P	PER2_ENST00000254658.3_Silent_p.P72P|PER2_ENST00000440245.1_Silent_p.P72P|PER2_ENST00000355768.2_Silent_p.P72P	NM_022817.2	NP_073728.1	O15055	PER2_HUMAN	period circadian clock 2	72					circadian regulation of gene expression (GO:0032922)|circadian regulation of translation (GO:0097167)|circadian rhythm (GO:0007623)|fatty acid metabolic process (GO:0006631)|gluconeogenesis (GO:0006094)|glycogen biosynthetic process (GO:0005978)|histone H3 deacetylation (GO:0070932)|lactate biosynthetic process (GO:0019249)|negative regulation of circadian rhythm (GO:0042754)|negative regulation of DNA-templated transcription, termination (GO:0060567)|negative regulation of fat cell proliferation (GO:0070345)|negative regulation of protein ubiquitination (GO:0031397)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription regulatory region DNA binding (GO:2000678)|negative regulation of transcription, DNA-templated (GO:0045892)|regulation of cell cycle (GO:0051726)|regulation of circadian rhythm (GO:0042752)|regulation of glutamate uptake involved in transmission of nerve impulse (GO:0051946)|regulation of insulin secretion (GO:0050796)|regulation of neurogenesis (GO:0050767)|regulation of vasoconstriction (GO:0019229)|response to ischemia (GO:0002931)|transcription, DNA-templated (GO:0006351)|white fat cell differentiation (GO:0050872)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	pre-mRNA binding (GO:0036002)|signal transducer activity (GO:0004871)|transcription coactivator activity (GO:0003713)|transcription factor binding transcription factor activity (GO:0000989)|transcription regulatory region sequence-specific DNA binding (GO:0000976)|ubiquitin binding (GO:0043130)			NS(1)|breast(5)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(3)|lung(16)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	37		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)		GGCGGGCATCCGGTGGCTCCA	0.577													C|||	1	0.000199681	0.0	0.0	5008	,	,		16985	0.0		0.0	False		,,,				2504	0.001															0													47	48	48					2																	239186362		2203	4300	6503	SO:0001819	synonymous_variant	8864			AB002345	CCDS2528.1	2q37.3	2012-12-13	2012-12-13		ENSG00000132326	ENSG00000132326			8846	protein-coding gene	gene with protein product		603426	"period (Drosophila) homolog 2", "period homolog 2 (Drosophila)"			9427249, 17218255	Standard	NM_022817		Approved	KIAA0347	uc002vyc.3	O15055	OTTHUMG00000152884	ENST00000254657.3:c.216G>A	2.37:g.239186362C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2I2P7|Q4ZG49|Q6DT41|Q9UQ45	Silent	SNP	ENST00000254657.3	37	CCDS2528.1																																																																																				0.577	PER2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257167.1	NM_022817		T	239186362	C	T	239186362	2	4	618	1	0	0	0	0	0	0	0	1	11737	639	23	1		1	PER2	2	239186362	Silent	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	19266066	239186362	4013011	25	37815										
PTPN23	25930	hgsc.bcm.edu;bcgsc.ca	37	chr3	47452317	47452317	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gcctggggtcctggggcagcCgccaccccccctacacaccc	11	21	0	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr3:47452317C>G	ENST00000265562.4	+	20	3106	c.3029C>G	c.(3028-3030)cCg>cGg	p.P1010R	PTPN23_ENST00000431726.1_Missense_Mutation_p.P884R	NM_015466.2	NP_056281.1	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type 23	1010	His.|Pro-rich.				cilium morphogenesis (GO:0060271)|negative regulation of epithelial cell migration (GO:0010633)|peptidyl-tyrosine dephosphorylation (GO:0035335)|positive regulation of adherens junction organization (GO:1903393)|positive regulation of early endosome to late endosome transport (GO:2000643)|positive regulation of homophilic cell adhesion (GO:1903387)|protein transport (GO:0015031)|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway (GO:0043162)	ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|early endosome (GO:0005769)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	protein kinase binding (GO:0019901)|protein tyrosine phosphatase activity (GO:0004725)			breast(3)|central_nervous_system(1)|large_intestine(5)|lung(7)|prostate(2)|skin(4)|upper_aerodigestive_tract(1)	23				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CTGGGGCAGCCGCCACCCCCC	0.687																																																0													15	20	18					3																	47452317		2139	4247	6386	SO:0001583	missense	25930			AB025194	CCDS2754.1	3p21.3	2011-06-09			ENSG00000076201	ENSG00000076201		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Non-receptor"	14406	protein-coding gene	gene with protein product		606584				11095967	Standard	NM_015466		Approved	DKFZP564F0923, KIAA1471, HD-PTP	uc003crf.1	Q9H3S7	OTTHUMG00000133520	ENST00000265562.4:c.3029C>G	3.37:g.47452317C>G	ENSP00000265562:p.Pro1010Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0D7|Q7KZF8|Q8N6Z5|Q9BSR5|Q9P257|Q9UG03|Q9UMZ4	Missense_Mutation	SNP	ENST00000265562.4	37	CCDS2754.1	.	.	.	.	.	.	.	.	.	.	C	12.39	1.923200	0.33908	.	.	ENSG00000076201	ENST00000265562	T	0.02763	4.17	4.29	3.18	0.36537	.	0.362779	0.25154	N	0.032736	T	0.02342	0.0072	N	0.19112	0.55	0.41800	D	0.989917	P;P	0.37824	0.609;0.609	B;B	0.39738	0.308;0.308	T	0.62310	-0.6881	10	0.37606	T	0.19	-4.7843	6.2976	0.21095	0.0:0.6978:0.0:0.3022	.	884;1010	B4DST5;Q9H3S7	.;PTN23_HUMAN	R	1010	ENSP00000265562:P1010R	ENSP00000265562:P1010R	P	+	2	0	PTPN23	47427321	0.000000	0.05858	0.892000	0.35008	0.632000	0.37999	0.244000	0.18124	0.976000	0.38417	0.557000	0.71058	CCG		0.687	PTPN23-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257492.2	NM_015466		G	47452317	C	G	47452317	3	3	618	1	0	0	0	0	1	0	0	0	12801	652	23	4	3107	4	PTPN23	3	47452317	Missense_Mutation	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10		47452317	150570113	26	37816										
RNF123	63891	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	49737921	49737921	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ccaggactacgaggtacaagAttgcctcaagcagttgatga	11	9	1	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr3:49737921A>G	ENST00000327697.6	+	14	1271	c.1127A>G	c.(1126-1128)gAt>gGt	p.D376G	RNF123_ENST00000432042.1_Missense_Mutation_p.D230G	NM_022064.3	NP_071347.2	Q5XPI4	RN123_HUMAN	ring finger protein 123	376					protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)	ligase activity (GO:0016874)|zinc ion binding (GO:0008270)			NS(1)|breast(4)|cervix(2)|endometrium(4)|kidney(4)|large_intestine(6)|lung(11)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	38				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		GAGGTACAAGATTGCCTCAAG	0.572																																																0													103	93	97					3																	49737921		2203	4300	6503	SO:0001583	missense	63891			AK022627	CCDS33758.1	3p24.3	2008-02-05			ENSG00000164068	ENSG00000164068		"RING-type (C3HC4) zinc fingers"	21148	protein-coding gene	gene with protein product		614472					Standard	NM_022064		Approved	FLJ12565	uc003cxh.4	Q5XPI4	OTTHUMG00000156891	ENST00000327697.6:c.1127A>G	3.37:g.49737921A>G	ENSP00000328287:p.Asp376Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A1L4Q3|A6NLS5|Q5I022|Q6PFW4|Q71RH0|Q8IW18|Q9H0M8|Q9H5L8|Q9H9T2	Missense_Mutation	SNP	ENST00000327697.6	37	CCDS33758.1	.	.	.	.	.	.	.	.	.	.	A	16.23	3.064583	0.55432	.	.	ENSG00000164068	ENST00000327697;ENST00000389066;ENST00000432042	T;T	0.75589	-0.66;-0.95	5.15	5.15	0.70609	.	0.285942	0.32935	N	0.005472	T	0.55784	0.1942	N	0.08118	0	0.80722	D	1	B;P	0.34522	0.255;0.455	B;B	0.32465	0.031;0.146	T	0.61637	-0.7022	10	0.48119	T	0.1	-16.8059	14.1621	0.65452	1.0:0.0:0.0:0.0	.	230;376	C9J266;Q5XPI4	.;RN123_HUMAN	G	376;376;230	ENSP00000328287:D376G;ENSP00000392443:D230G	ENSP00000328287:D376G	D	+	2	0	RNF123	49712925	1.000000	0.71417	0.996000	0.52242	0.936000	0.57629	6.802000	0.75175	1.953000	0.56701	0.533000	0.62120	GAT		0.572	RNF123-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346475.2	NM_022064		G	49737921	A	G	49737921	3	3	618	1	0	0	0	0	1	0	0	0	13446	333	12	3	1177	3	RNF123	3	49737921	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	2285604	49737921	148284509	27	37817										
IL17RD	54756	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	57136553	57136553	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gtgaagagcgtcgcgaatgcCgatatgactaccagtggcac	13	10	0	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr3:57136553C>T	ENST00000296318.7	-	10	1021	c.933G>A	c.(931-933)tcG>tcA	p.S311S	IL17RD_ENST00000463523.1_Silent_p.S167S|IL17RD_ENST00000320057.5_Silent_p.S167S|IL17RD_ENST00000427856.2_Silent_p.S287S	NM_017563.3	NP_060033.3	Q8NFM7	I17RD_HUMAN	interleukin 17 receptor D	311					signal transduction (GO:0007165)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(1)|ovary(1)|pancreas(1)	16				KIRC - Kidney renal clear cell carcinoma(284;0.0173)|Kidney(284;0.0204)		TCGCGAATGCCGATATGACTA	0.547																																																0													70	69	69					3																	57136553		2203	4300	6503	SO:0001819	synonymous_variant	54756			AF494208	CCDS2880.2	3p21.1	2008-02-05			ENSG00000144730	ENSG00000144730		"Interleukins and interleukin receptors"	17616	protein-coding gene	gene with protein product		606807				11802164, 12604616	Standard	NM_017563		Approved	SEF, IL17RLM, FLJ35755, IL-17RD	uc003dil.3	Q8NFM7	OTTHUMG00000150171	ENST00000296318.7:c.933G>A	3.37:g.57136553C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKP7|Q58EZ7|Q6RVF4|Q6UWI5|Q8N113|Q8NFS0|Q9UFA0	Silent	SNP	ENST00000296318.7	37	CCDS2880.2																																																																																				0.547	IL17RD-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316680.1	NM_017563		T	57136553	C	T	57136553	2	4	618	1	0	0	0	0	0	0	0	1	7649	639	23	1		1	IL17RD	3	57136553	Silent	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	7398632	57136553	140885877	28	37818										
HSPBAP1	79663	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	122471457	122471457	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ccagttcaatccatgagtttAtactgacagtgacaggatca	8	9	2	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr3:122471457A>G	ENST00000306103.2	-	6	949	c.806T>C	c.(805-807)aTa>aCa	p.I269T	snoU13_ENST00000459192.1_RNA|HSPBAP1_ENST00000383659.1_3'UTR|HSPBAP1_ENST00000465044.1_5'Flank	NM_024610.5	NP_078886.2	Q96EW2	HBAP1_HUMAN	HSPB (heat shock 27kDa) associated protein 1	269	JmjC. {ECO:0000255|PROSITE- ProRule:PRU00538}.					cytoplasm (GO:0005737)				breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(8)|ovary(1)|urinary_tract(1)	16				GBM - Glioblastoma multiforme(114;0.0531)		CCATGAGTTTATACTGACAGT	0.348																																																0													94	87	89					3																	122471457		2203	4300	6503	SO:0001583	missense	79663			AF400663	CCDS3017.1	3q21.1	2008-07-18	2002-08-29		ENSG00000169087	ENSG00000169087			16389	protein-coding gene	gene with protein product		608263	"HSPB (heat shock 27kD) associated protein 1"			11978969	Standard	NM_024610		Approved	FLJ22623, PASS1	uc003efu.2	Q96EW2	OTTHUMG00000159550	ENST00000306103.2:c.806T>C	3.37:g.122471457A>G	ENSP00000302562:p.Ile269Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P476|Q8N8J4|Q8NHH6|Q8WWF0	Missense_Mutation	SNP	ENST00000306103.2	37	CCDS3017.1	.	.	.	.	.	.	.	.	.	.	A	23.0	4.359468	0.82353	.	.	ENSG00000169087	ENST00000306103	T	0.13196	2.61	5.3	5.3	0.74995	Cupin, JmjC-type (1);Transcription factor jumonji/aspartyl beta-hydroxylase (2);	0.153054	0.56097	D	0.000021	T	0.31358	0.0794	M	0.74467	2.265	0.80722	D	1	D	0.56035	0.974	P	0.55303	0.773	T	0.04708	-1.0932	10	0.66056	D	0.02	.	14.5845	0.68315	1.0:0.0:0.0:0.0	.	269	Q96EW2	HBAP1_HUMAN	T	269	ENSP00000302562:I269T	ENSP00000302562:I269T	I	-	2	0	HSPBAP1	123954147	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	8.442000	0.90317	2.232000	0.73038	0.528000	0.53228	ATA		0.348	HSPBAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356161.1	NM_024610		G	122471457	A	G	122471457	3	3	618	1	0	0	0	0	1	0	0	0	7432	449	16	3	672	3	HSPBAP1	3	122471457	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	65334904	122471457	75550973	29	37819										
DNAJC13	23317	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	132207851	132207851	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	acacacataccaaacaggctTtcaagtcagaagaggtaagc	8	10	2	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr3:132207851T>C	ENST00000260818.6	+	31	3702	c.3454T>C	c.(3454-3456)Ttc>Ctc	p.F1152L		NM_015268.3	NP_056083.3	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1152					osteoblast differentiation (GO:0001649)	extracellular vesicular exosome (GO:0070062)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)				breast(4)|endometrium(2)|kidney(2)|large_intestine(5)|lung(15)|ovary(1)|pancreas(2)|prostate(2)|urinary_tract(1)	34						CAAACAGGCTTTCAAGTCAGA	0.333																																																0													64	65	64					3																	132207851		2203	4300	6503	SO:0001583	missense	23317			AB014578	CCDS33857.1	3q22.1	2011-09-02			ENSG00000138246	ENSG00000138246		"Heat shock proteins / DNAJ (HSP40)"	30343	protein-coding gene	gene with protein product		614334				12438707	Standard	NM_015268		Approved	RME8, KIAA0678	uc003eor.3	O75165	OTTHUMG00000159674	ENST00000260818.6:c.3454T>C	3.37:g.132207851T>C	ENSP00000260818:p.Phe1152Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q3L0T1|Q6PI82|Q6UJ77|Q6ZSW1|Q6ZUT5|Q86XG3|Q96DC1|Q9BWK9	Missense_Mutation	SNP	ENST00000260818.6	37	CCDS33857.1	.	.	.	.	.	.	.	.	.	.	T	25.6	4.653771	0.88056	.	.	ENSG00000138246	ENST00000260818	T	0.18174	2.23	5.57	5.57	0.84162	Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.16171	0.0389	L	0.47716	1.5	0.80722	D	1	P	0.52463	0.953	B	0.39217	0.294	T	0.04708	-1.0932	10	0.25106	T	0.35	.	15.7007	0.77538	0.0:0.0:0.0:1.0	.	1152	O75165	DJC13_HUMAN	L	1152	ENSP00000260818:F1152L	ENSP00000260818:F1152L	F	+	1	0	DNAJC13	133690541	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	6.807000	0.75201	2.236000	0.73375	0.528000	0.53228	TTC		0.333	DNAJC13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356807.2	NM_015268		C	132207851	T	C	132207851	3	2	618	1	0	0	0	0	1	0	0	0	4634	1841	64	3	3572	3	DNAJC13	3	132207851	Missense_Mutation	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10	9736394	132207851	65814579	30	37820										
WHSC1	7468	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	1977074	1977074	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gtctgggcaatgaaaaaacgGtctgccggtgtggagcctcc	14	10	2	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr4:1977074G>C	ENST00000382895.3	+	22	3999	c.3568G>C	c.(3568-3570)Gtc>Ctc	p.V1190L	WHSC1_ENST00000508803.1_Missense_Mutation_p.V1190L|SCARNA22_ENST00000503991.1_RNA|WHSC1_ENST00000382888.3_Missense_Mutation_p.V538L|WHSC1_ENST00000382891.5_Missense_Mutation_p.V1190L|WHSC1_ENST00000482415.2_3'UTR|WHSC1_ENST00000382892.2_Missense_Mutation_p.V1190L	NM_133330.2	NP_579877.1	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1	1190	Post-SET. {ECO:0000255|PROSITE- ProRule:PRU00155}.				anatomical structure morphogenesis (GO:0009653)|atrial septum primum morphogenesis (GO:0003289)|atrial septum secundum morphogenesis (GO:0003290)|bone development (GO:0060348)|membranous septum morphogenesis (GO:0003149)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|nuclear membrane (GO:0031965)|nucleolus (GO:0005730)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(10)|lung(14)|ovary(4)|pancreas(1)|prostate(3)|skin(4)|urinary_tract(3)	48		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		TGAAAAAACGGTCTGCCGGTG	0.532			T	IGH@	MM																																		Dom	yes		4	4p16.3	7468	Wolf-Hirschhorn syndrome candidate 1(MMSET)		L	0													101	93	96					4																	1977074		2203	4300	6503	SO:0001583	missense	7468			AF083386	CCDS3356.1, CCDS33940.1, CCDS46999.1	4p16.3	2013-05-20			ENSG00000109685	ENSG00000109685		"Zinc fingers, PHD-type"	12766	protein-coding gene	gene with protein product		602952				9618163, 9787135	Standard	NM_133334		Approved	MMSET, NSD2	uc003gdz.4	O96028	OTTHUMG00000121147	ENST00000382895.3:c.3568G>C	4.37:g.1977074G>C	ENSP00000372351:p.Val1190Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2T2|A2A2T3|A2A2T4|A7MCZ1|D3DVQ2|O96031|Q4VBY8|Q672J1|Q6IS00|Q86V01|Q9BZB4|Q9UI92|Q9UPR2	Missense_Mutation	SNP	ENST00000382895.3	37	CCDS33940.1	.	.	.	.	.	.	.	.	.	.	G	14.75	2.627438	0.46944	.	.	ENSG00000109685	ENST00000508803;ENST00000382891;ENST00000382892;ENST00000382895;ENST00000382888	D;D;D;D;D	0.97066	-3.61;-3.61;-3.61;-3.61;-4.23	4.91	4.91	0.64330	Post-SET domain (2);	0.000000	0.49916	D	0.000140	D	0.93523	0.7933	L	0.42008	1.315	0.80722	D	1	B;B	0.30361	0.009;0.277	B;B	0.21151	0.012;0.033	D	0.91080	0.4899	10	0.30854	T	0.27	.	12.0537	0.53522	0.0793:0.0:0.9207:0.0	.	538;1190	A2A2T2;O96028	.;NSD2_HUMAN	L	1190;1190;1190;1190;538	ENSP00000423972:V1190L;ENSP00000372347:V1190L;ENSP00000372348:V1190L;ENSP00000372351:V1190L;ENSP00000372344:V538L	ENSP00000372344:V538L	V	+	1	0	WHSC1	1946872	1.000000	0.71417	0.974000	0.42286	0.874000	0.50279	5.102000	0.64572	2.719000	0.93026	0.655000	0.94253	GTC		0.532	WHSC1-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366269.2	NM_133330		C	1977074	G	C	1977074	3	2	618	1	0	0	0	0	1	0	0	0	17374	1261	44	4	3718	4	WHSC1	4	1977074	Missense_Mutation	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10		1977074	189177202	31	37821										
WDR19	57728	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	39205336	39205336	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gaccgaacctctgctgctgaAagcatggtaagaattctaat	9	9	2	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr4:39205336A>C	ENST00000399820.3	+	7	751	c.597A>C	c.(595-597)gaA>gaC	p.E199D	WDR19_ENST00000288634.7_Missense_Mutation_p.E39D|WDR19_ENST00000506503.1_Missense_Mutation_p.E199D	NM_025132.3	NP_079408.3	Q8NEZ3	WDR19_HUMAN	WD repeat domain 19	199					ciliary receptor clustering involved in smoothened signaling pathway (GO:0060830)|cilium assembly (GO:0042384)|digestive system development (GO:0055123)|ear morphogenesis (GO:0042471)|embryonic camera-type eye development (GO:0031076)|embryonic cranial skeleton morphogenesis (GO:0048701)|embryonic limb morphogenesis (GO:0030326)|in utero embryonic development (GO:0001701)|intraciliary retrograde transport (GO:0035721)|myotome development (GO:0061055)|neurological system process (GO:0050877)|smoothened signaling pathway involved in dorsal/ventral neural tube patterning (GO:0060831)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|intraciliary transport particle A (GO:0030991)|motile cilium (GO:0031514)|nonmotile primary cilium (GO:0031513)|photoreceptor connecting cilium (GO:0032391)				large_intestine(1)	1						CTGCTGCTGAAAGCATGGTAA	0.353																																																0													92	83	86					4																	39205336		1872	4111	5983	SO:0001583	missense	57728			AB046858, AY029257	CCDS47042.1	4p14	2014-02-21			ENSG00000157796	ENSG00000157796		"WD repeat domain containing", "Intraflagellar transport homologs"	18340	protein-coding gene	gene with protein product	"intraflagellar transport 144 homolog (Chlamydomonas)"	608151				12906858, 22019273	Standard	XM_005262658		Approved	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13	uc003gtv.3	Q8NEZ3	OTTHUMG00000160466	ENST00000399820.3:c.597A>C	4.37:g.39205336A>C	ENSP00000382717:p.Glu199Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B5MEF2|Q8N5B4|Q9H5S0|Q9HCD4	Missense_Mutation	SNP	ENST00000399820.3	37	CCDS47042.1	.	.	.	.	.	.	.	.	.	.	A	14.28	2.488399	0.44249	.	.	ENSG00000157796	ENST00000399820;ENST00000509560;ENST00000512112;ENST00000288634;ENST00000506503;ENST00000399836	T;T;T;T	0.66099	3.42;2.2;-0.19;3.42	5.64	1.62	0.23740	WD40 repeat-like-containing domain (1);	0.134922	0.64402	D	0.000003	T	0.51941	0.1704	M	0.64080	1.96	0.38720	D	0.953425	B;B	0.19445	0.002;0.036	B;B	0.20767	0.007;0.031	T	0.38714	-0.9648	10	0.23891	T	0.37	-17.3314	6.2227	0.20691	0.6749:0.1242:0.2008:0.0	.	199;199	Q8NEZ3;D6R9P6	WDR19_HUMAN;.	D	199;140;39;39;199;198	ENSP00000382717:E199D;ENSP00000426918:E140D;ENSP00000288634:E39D;ENSP00000423491:E199D	ENSP00000288634:E39D	E	+	3	2	WDR19	38881731	1.000000	0.71417	0.974000	0.42286	0.955000	0.61496	0.886000	0.28241	0.111000	0.17947	0.455000	0.32223	GAA		0.353	WDR19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360689.1			C	39205336	A	C	39205336	3	2	618	1	0	0	0	0	1	0	0	0	17291	11	1	5	623	5	WDR19	4	39205336	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	37228262	39205336	151948940	32	37822										
EXOC1	55763	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	56737307	56737307	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	aggtcatataaaggcccttcAggaaggagatcttgcttctt	10	8	4	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr4:56737307A>C	ENST00000381295.2	+	7	1220	c.872A>C	c.(871-873)cAg>cCg	p.Q291P	EXOC1_ENST00000349598.6_Missense_Mutation_p.Q291P|EXOC1_ENST00000346134.7_Missense_Mutation_p.Q291P	NM_001024924.1	NP_001020095.1	Q9NV70	EXOC1_HUMAN	exocyst complex component 1	291					cellular protein metabolic process (GO:0044267)|exocytosis (GO:0006887)|membrane organization (GO:0061024)|protein transport (GO:0015031)	exocyst (GO:0000145)|membrane (GO:0016020)|plasma membrane (GO:0005886)				breast(2)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(3)|lung(14)|ovary(2)|skin(4)|upper_aerodigestive_tract(1)	35	Glioma(25;0.08)|all_neural(26;0.101)					AAGGCCCTTCAGGAAGGAGAT	0.453																																																0													95	83	87					4																	56737307		2203	4300	6503	SO:0001583	missense	55763			AK027047	CCDS3502.1, CCDS3503.1	4q12	2013-01-22	2005-11-01	2005-11-01	ENSG00000090989	ENSG00000090989			30380	protein-coding gene	gene with protein product		607879	"SEC3-like 1 (S. cerevisiae)"	SEC3L1		11042152, 11406615	Standard	XM_005265747		Approved	SEC3, FLJ10893, BM-102, Sec3p	uc003hbf.1	Q9NV70	OTTHUMG00000102165	ENST00000381295.2:c.872A>C	4.37:g.56737307A>C	ENSP00000370695:p.Gln291Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q504V4|Q8WUE7|Q96T15|Q9NZE4	Missense_Mutation	SNP	ENST00000381295.2	37	CCDS3502.1	.	.	.	.	.	.	.	.	.	.	A	14.67	2.604708	0.46423	.	.	ENSG00000090989	ENST00000381295;ENST00000346134;ENST00000349598	.	.	.	5.97	4.77	0.60923	.	0.224009	0.46758	D	0.000269	T	0.57489	0.2057	L	0.53249	1.67	0.54753	D	0.999985	P;P	0.47191	0.891;0.626	P;P	0.46885	0.466;0.53	T	0.54200	-0.8329	9	0.30854	T	0.27	.	12.5014	0.55957	0.8746:0.0:0.0:0.1254	.	291;291	Q9NV70-2;Q9NV70	.;EXOC1_HUMAN	P	291	.	ENSP00000326514:Q291P	Q	+	2	0	EXOC1	56432064	1.000000	0.71417	1.000000	0.80357	0.819000	0.46315	5.837000	0.69381	1.053000	0.40415	-0.480000	0.04831	CAG		0.453	EXOC1-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361799.1	NM_018261		C	56737307	A	C	56737307	3	2	618	1	0	0	0	0	1	0	0	0	5303	188	7	5	894	5	EXOC1	4	56737307	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	17531971	56737307	134416969	33	37823										
DSPP	1834	bcgsc.ca	37	chr4	88536142	88536142	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	agcagtgacagcagtgatagTagtgacagcagcaacagcag	13	8	0	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr4:88536142T>C	ENST00000282478.7	+	4	2361	c.2328T>C	c.(2326-2328)agT>agC	p.S776S	DSPP_ENST00000399271.1_Silent_p.S776S|RP11-742B18.1_ENST00000506480.1_RNA			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	776	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		gcagtgatagtagtgacagca	0.507																																																0													85	96	92					4																	88536142		1664	2989	4653	SO:0001819	synonymous_variant	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.2328T>C	4.37:g.88536142T>C		Somatic		WXS	Illumina HiSeq	Phase_1	A8MUI0|O95815	Silent	SNP	ENST00000282478.7	37	CCDS43248.1																																																																																				0.507	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		C	88536142	T	C	88536142	2	2	618	1	0	0	0	0	0	0	0	1	4784	1635	57	3		3	DSPP	4	88536142	Silent	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10	31798835	88536142	102618134	34	37824										
SMARCA5	8467	broad.mit.edu	37	chr4	144445524	144445524	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	attttcatcttaacagttacCgacaccgtagaacagagcaa	6	10	2	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr4:144445524C>T	ENST00000283131.3	+	4	886	c.424C>T	c.(424-426)Cga>Tga	p.R142*		NM_003601.3	NP_003592.3	O60264	SMCA5_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5	142					ATP catabolic process (GO:0006200)|ATP-dependent chromatin remodeling (GO:0043044)|CENP-A containing nucleosome assembly (GO:0034080)|chromatin remodeling (GO:0006338)|chromatin silencing at rDNA (GO:0000183)|DNA-templated transcription, initiation (GO:0006352)|double-strand break repair (GO:0006302)|nucleosome assembly (GO:0006334)|nucleosome positioning (GO:0016584)|regulation of transcription from RNA polymerase II promoter (GO:0006357)	chromatin silencing complex (GO:0005677)|condensed chromosome (GO:0000793)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|NURF complex (GO:0016589)|RSF complex (GO:0031213)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|helicase activity (GO:0004386)		EWSR1/SMARCA5(2)	endometrium(2)|kidney(2)|large_intestine(9)|lung(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	21	all_hematologic(180;0.158)					TAACAGTTACCGACACCGTAG	0.383																																																0													88	87	87					4																	144445524		2203	4300	6503	SO:0001587	stop_gained	8467			AB010882	CCDS3761.1	4q31.1-q31.2	2011-04-20			ENSG00000153147	ENSG00000153147			11101	protein-coding gene	gene with protein product		603375				9730600	Standard	NM_003601		Approved	hSNF2H, hISWI, ISWI	uc003ijg.3	O60264	OTTHUMG00000161474	ENST00000283131.3:c.424C>T	4.37:g.144445524C>T	ENSP00000283131:p.Arg142*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000283131.3	37	CCDS3761.1	.	.	.	.	.	.	.	.	.	.	C	40	8.410910	0.98799	.	.	ENSG00000153147	ENST00000283131;ENST00000536484;ENST00000535006	.	.	.	5.75	3.81	0.43845	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-0.783	16.3196	0.82941	0.2523:0.7477:0.0:0.0	.	.	.	.	X	142;85;85	.	ENSP00000283131:R142X	R	+	1	2	SMARCA5	144664974	0.991000	0.36638	1.000000	0.80357	0.749000	0.42624	2.926000	0.48892	1.395000	0.46643	0.591000	0.81541	CGA		0.383	SMARCA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365077.3			T	144445524	C	T	144445524	4	4	618	1	0	0	0	0	0	1	0	0	14784	644	23	1	438	1	SMARCA5	4	144445524	Nonsense_Mutation	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	55909382	144445524	46708752	35	37825										
DDX60L	91351	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	169315621	169315621	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	aagaaatttacctaccctaaTaagcccttttacaaagagta	4	9	0	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr4:169315621T>A	ENST00000511577.1	-	28	4052	c.3805A>T	c.(3805-3807)Att>Ttt	p.I1269F	DDX60L_ENST00000505890.1_Missense_Mutation_p.I1270F|DDX60L_ENST00000260184.7_Missense_Mutation_p.I1269F			Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	1269	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.						ATP binding (GO:0005524)|helicase activity (GO:0004386)|RNA binding (GO:0003723)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(7)|lung(23)|ovary(2)|prostate(1)|skin(1)|stomach(1)	43		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		CCTACCCTAATAAGCCCTTTT	0.323																																																0													67	62	63					4																	169315621		1803	4068	5871	SO:0001583	missense	91351			AK092461	CCDS47161.1	4q32.3	2008-01-08				ENSG00000181381			26429	protein-coding gene	gene with protein product							Standard	XM_005263341		Approved	FLJ31033	uc003irq.4	Q5H9U9		ENST00000511577.1:c.3805A>T	4.37:g.169315621T>A	ENSP00000422423:p.Ile1269Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q96ND6	Missense_Mutation	SNP	ENST00000511577.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	13.62|13.62	2.293047|2.293047	0.40594|0.40594	.|.	.|.	ENSG00000181381|ENSG00000181381	ENST00000260184;ENST00000511577;ENST00000505890|ENST00000514580	T;T;T|.	0.59224|.	0.28;0.28;0.28|.	3.16|3.16	1.95|1.95	0.26073|0.26073	Helicase, C-terminal (3);|.	0.000000|.	0.36591|.	U|.	0.002501|.	T|T	0.60183|0.60183	0.2249|0.2249	M|M	0.87682|0.87682	2.9|2.9	0.09310|0.09310	N|N	0.999999|0.999999	D;D|.	0.71674|.	0.994;0.998|.	D;D|.	0.65773|.	0.922;0.938|.	T|T	0.52961|0.52961	-0.8505|-0.8505	10|5	0.66056|.	D|.	0.02|.	.|.	7.0872|7.0872	0.25264|0.25264	0.0:0.118:0.0:0.882|0.0:0.118:0.0:0.882	.|.	1270;1269|.	D6R906;Q5H9U9|.	.;DDX6L_HUMAN|.	F|F	1269;1269;1270|156	ENSP00000260184:I1269F;ENSP00000422423:I1269F;ENSP00000422202:I1270F|.	ENSP00000260184:I1269F|.	I|Y	-|-	1|2	0|0	DDX60L|DDX60L	169552196|169552196	0.721000|0.721000	0.28007|0.28007	0.002000|0.002000	0.10522|0.10522	0.093000|0.093000	0.18481|0.18481	1.244000|1.244000	0.32778|0.32778	0.248000|0.248000	0.21435|0.21435	0.383000|0.383000	0.25322|0.25322	ATT|TAT		0.323	DDX60L-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000364839.1	NM_001012967		A	169315621	T	A	169315621	3	1	618	1	0	0	0	0	1	0	0	0	4381	1406	49	5	1359	5	DDX60L	4	169315621	Missense_Mutation	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10	24870097	169315621	21838655	36	37826										
SSBP2	23635	ucsc.edu	37	chr5	80724477	80724477	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ttggagtgcccggttgattaCtcaggctcatattattggga	12	7	2	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr5:80724477C>T	ENST00000320672.4	-	16	1193	c.983G>A	c.(982-984)aGt>aAt	p.S328N	SSBP2_ENST00000509053.1_Intron|SSBP2_ENST00000505980.1_Missense_Mutation_p.S308N|SSBP2_ENST00000510060.1_5'UTR|SSBP2_ENST00000514493.1_Missense_Mutation_p.S298N|SSBP2_ENST00000515395.1_Missense_Mutation_p.S306N	NM_001256732.1|NM_001256733.1|NM_012446.3	NP_001243661.1|NP_001243662.1|NP_036578.2	P81877	SSBP2_HUMAN	single-stranded DNA binding protein 2	328					regulation of transcription, DNA-templated (GO:0006355)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	single-stranded DNA binding (GO:0003697)		SSBP2/JAK2(4)	central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(3)|skin(1)	10		Lung NSC(167;0.00154)|all_lung(232;0.00179)|Ovarian(174;0.0338)		OV - Ovarian serous cystadenocarcinoma(54;1.07e-41)|Epithelial(54;2.79e-35)|all cancers(79;1.18e-29)		CGGTTGATTACTCAGGCTCAT	0.368																																																0													78	79	79					5																	80724477		2203	4299	6502	SO:0001583	missense	23635			AF077048	CCDS4056.1, CCDS58960.1, CCDS58961.1, CCDS58962.1, CCDS58963.1, CCDS75268.1	5q14.1	2012-05-25	2001-11-28		ENSG00000145687	ENSG00000145687			15831	protein-coding gene	gene with protein product		607389	"single-stranded DNA-binding protein 2"			11230166, 11042152	Standard	NM_001256732		Approved	HSPC116	uc003khp.4	P81877	OTTHUMG00000119039	ENST00000320672.4:c.983G>A	5.37:g.80724477C>T	ENSP00000322977:p.Ser328Asn	Somatic		WXS	Illumina HiSeq		B2R5W1|B7Z1J2|B7Z2L9|B7Z665|D6RH18|E9PB74|E9PDA8|Q8N2Q2|Q9BWW6|Q9Y4T7	Missense_Mutation	SNP	ENST00000320672.4	37	CCDS4056.1	.	.	.	.	.	.	.	.	.	.	C	15.31	2.795107	0.50208	.	.	ENSG00000145687	ENST00000320672;ENST00000514493;ENST00000380182;ENST00000504985;ENST00000512923;ENST00000505980;ENST00000515395	.	.	.	5.65	5.65	0.86999	.	0.076218	0.85682	D	0.000000	T	0.39091	0.1065	N	0.05574	-0.02	0.42256	D	0.991994	B;B;B;B;B	0.20164	0.009;0.005;0.003;0.017;0.042	B;B;B;B;B	0.22880	0.032;0.042;0.014;0.018;0.026	T	0.33059	-0.9883	9	0.08179	T	0.78	-14.1851	20.096	0.97843	0.0:1.0:0.0:0.0	.	306;308;281;306;328	E9PB74;B7Z1J2;A6ND70;B7Z665;P81877	.;.;.;.;SSBP2_HUMAN	N	328;298;281;242;231;308;306	.	ENSP00000322977:S328N	S	-	2	0	SSBP2	80760233	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	3.017000	0.49615	2.819000	0.97034	0.650000	0.86243	AGT		0.368	SSBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239249.1	NM_012446		T	80724477	C	T	80724477	3	4	618	1	0	0	0	0	1	0	0	0	15192	565	20	2	110	2	SSBP2	5	80724477	Missense_Mutation	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10		80724477	100190783	37	37827										
DMXL1	1657	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	118479556	118479556	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	aaatatgttggtgaagtcttTaacatcgtcagtcaacaatc	7	7	3	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr5:118479556T>C	ENST00000311085.8	+	14	2477	c.2397T>C	c.(2395-2397)ttT>ttC	p.F799F	DMXL1_ENST00000539542.1_Silent_p.F799F	NM_005509.4	NP_005500.4	Q9Y485	DMXL1_HUMAN	Dmx-like 1	799										breast(3)|central_nervous_system(1)|endometrium(14)|kidney(4)|large_intestine(20)|liver(6)|lung(28)|ovary(2)|prostate(5)|skin(2)|upper_aerodigestive_tract(1)	86		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)		GTGAAGTCTTTAACATCGTCA	0.299																																																0													110	116	114					5																	118479556		2201	4299	6500	SO:0001819	synonymous_variant	1657			AJ005821	CCDS4125.1, CCDS75289.1	5q22	2013-01-10			ENSG00000172869	ENSG00000172869		"WD repeat domain containing"	2937	protein-coding gene	gene with protein product		605671				10708522	Standard	NM_005509		Approved		uc003ksd.2	Q9Y485	OTTHUMG00000128898	ENST00000311085.8:c.2397T>C	5.37:g.118479556T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000311085.8	37	CCDS4125.1																																																																																				0.299	DMXL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250862.1	NM_005509		C	118479556	T	C	118479556	2	2	618	1	0	0	0	0	0	0	0	1	4596	1751	61	3		3	DMXL1	5	118479556	Silent	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10	37755079	118479556	62435704	38	37828										
MEGF10	84466	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	126705695	126705695	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	agggaccaactgctccagtgGtaagtttccacctgctgttg	11	11	0	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr5:126705695G>T	ENST00000274473.6	+	6	679		c.e6+1		MEGF10_ENST00000508365.1_Splice_Site|MEGF10_ENST00000503335.2_Splice_Site|MEGF10_ENST00000418761.2_Splice_Site	NM_032446.2	NP_115822.1	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10						homotypic cell-cell adhesion (GO:0034109)|muscle cell development (GO:0055001)|recognition of apoptotic cell (GO:0043654)|regulation of muscle cell differentiation (GO:0051147)|regulation of skeletal muscle tissue development (GO:0048641)|skeletal muscle satellite cell activation (GO:0014719)|skeletal muscle satellite cell differentiation (GO:0014816)|skeletal muscle satellite cell proliferation (GO:0014841)	cell projection (GO:0042995)|integral component of membrane (GO:0016021)|phagocytic cup (GO:0001891)				breast(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(10)|lung(28)|ovary(4)|prostate(2)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	68		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)		TGCTCCAGTGGTAAGTTTCCA	0.537																																																0													176	140	152					5																	126705695		2203	4300	6503	SO:0001630	splice_region_variant	84466			AK021631	CCDS4142.1	5q33	2008-02-05			ENSG00000145794	ENSG00000145794			29634	protein-coding gene	gene with protein product		612453				11347906	Standard	NM_032446		Approved	KIAA1780	uc003kui.4	Q96KG7	OTTHUMG00000128984	ENST00000274473.6:c.412+1G>T	5.37:g.126705695G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q68DE5|Q8WUL3	Splice_Site	SNP	ENST00000274473.6	37	CCDS4142.1	.	.	.	.	.	.	.	.	.	.	G	26.6	4.749510	0.89753	.	.	ENSG00000145794	ENST00000503335;ENST00000508365;ENST00000418761;ENST00000274473	.	.	.	5.34	5.34	0.76211	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	19.1131	0.93326	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	MEGF10	126733594	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.844000	0.99494	2.506000	0.84524	0.558000	0.71614	.		0.537	MEGF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250973.2	NM_032446	Intron	T	126705695	G	T	126705695	5	4	618	1	0	0	0	0	0	0	1	0	9467	1275	44	4	427	4	MEGF10	5	126705695	Splice_Site	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	8226139	126705695	54209565	39	37829										
HFE	3077	broad.mit.edu;bcgsc.ca	37	chr6	26091332	26091332	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	aaaatcacaaccacagcaagGgtatgtggagagggggcctc	13	9	1	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr6:26091332G>C	ENST00000357618.5	+	2	462	c.340G>C	c.(340-342)Gag>Cag	p.E114Q	HFE_ENST00000488199.1_Intron|HFE_ENST00000470149.1_Splice_Site_p.E114Q|HFE_ENST00000336625.8_Splice_Site_p.V114L|HFE_ENST00000309234.6_Splice_Site_p.E114Q|HFE_ENST00000349999.4_Intron|HFE_ENST00000397022.3_Splice_Site_p.E91Q|HFE_ENST00000353147.5_Intron|HFE_ENST00000317896.7_Splice_Site_p.V114L|HFE_ENST00000461397.1_Splice_Site_p.E114Q|HFE_ENST00000352392.4_Intron	NM_000410.3|NM_139006.2	NP_000401.1|NP_620575.1	Q30201	HFE_HUMAN	hemochromatosis	114	Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular iron ion homeostasis (GO:0006879)|cellular response to iron ion starvation (GO:0010106)|female pregnancy (GO:0007565)|hormone biosynthetic process (GO:0042446)|immune response (GO:0006955)|iron ion import into cell (GO:0097459)|multicellular organismal iron ion homeostasis (GO:0060586)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|protein complex assembly (GO:0006461)	apical part of cell (GO:0045177)|basal part of cell (GO:0045178)|cytoplasmic vesicle (GO:0031410)|early endosome (GO:0005769)|integral component of plasma membrane (GO:0005887)|MHC class I protein complex (GO:0042612)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|recycling endosome (GO:0055037)	peptide antigen binding (GO:0042605)|receptor binding (GO:0005102)			endometrium(3)|large_intestine(3)|liver(2)|lung(7)|ovary(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	19						CCACAGCAAGGGTATGTGGAG	0.488									Hemochromatosis																																							0													104	106	105					6																	26091332		2203	4300	6503	SO:0001630	splice_region_variant	3077	Familial Cancer Database			CCDS4578.1, CCDS4579.1, CCDS4580.1, CCDS4581.1, CCDS4582.1, CCDS47386.1, CCDS47387.1, CCDS54974.1, CCDS54975.1, CCDS75412.1	6p21.3	2014-09-17			ENSG00000010704	ENSG00000010704		"Immunoglobulin superfamily / C1-set domain containing"	4886	protein-coding gene	gene with protein product	"high Fe"	613609				3460331	Standard	XR_241893		Approved	HLA-H	uc003nfx.1	Q30201	OTTHUMG00000016348	ENST00000357618.5:c.340+1G>C	6.37:g.26091332G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2CKL0|O75929|O75930|O75931|Q17RT0|Q96KU5|Q96KU6|Q96KU7|Q96KU8|Q9HC64|Q9HC68|Q9HC70|Q9HC83	Missense_Mutation	SNP	ENST00000357618.5	37	CCDS4578.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	13.68|13.68	2.309910|2.309910	0.40895|0.40895	.|.	.|.	ENSG00000010704|ENSG00000010704	ENST00000397022;ENST00000535098;ENST00000539147;ENST00000357618;ENST00000470149;ENST00000461397;ENST00000309234|ENST00000317896;ENST00000336625	D;D;D;D;D|T;T	0.89617|0.02737	-2.54;-2.54;-2.54;-2.54;-2.54|4.57;4.18	4.98|4.98	4.1|4.1	0.47936|0.47936	MHC class I, alpha chain, alpha1/alpha2 (2);MHC classes I/II-like antigen recognition protein (1);MHC class I-like antigen recognition (1);|.	0.860579|.	0.09959|.	N|.	0.733694|.	T|T	0.02047|0.02047	0.0064|0.0064	M|M	0.68317|0.68317	2.08|2.08	0.80722|0.80722	D|D	1|1	B;B;B;B|B;B	0.19817|0.27559	0.039;0.031;0.006;0.011|0.181;0.115	B;B;B;B|B;B	0.17979|0.30943	0.02;0.007;0.011;0.013|0.051;0.122	T|T	0.29027|0.29027	-1.0025|-1.0025	10|9	0.87932|0.54805	D|T	0|0.06	.|.	9.3734|9.3734	0.38268|0.38268	0.0977:0.0:0.9023:0.0|0.0977:0.0:0.9023:0.0	.|.	114;114;91;114|114;114	Q6B0J5;Q30201-3;Q30201-5;Q30201|Q30201-7;Q30201-10	.;.;.;HFE_HUMAN|.;.	Q|L	91;114;9;114;114;114;114|114	ENSP00000380217:E91Q;ENSP00000417404:E114Q;ENSP00000419725:E114Q;ENSP00000420802:E114Q;ENSP00000311698:E114Q|ENSP00000313776:V114L;ENSP00000337819:V114L	ENSP00000311698:E114Q|ENSP00000313776:V114L	E|V	+|+	1|1	0|0	HFE|HFE	26199311|26199311	0.978000|0.978000	0.34361|0.34361	0.984000|0.984000	0.44739|0.44739	0.976000|0.976000	0.68499|0.68499	0.989000|0.989000	0.29629|0.29629	1.308000|1.308000	0.44962|0.44962	0.655000|0.655000	0.94253|0.94253	GAG|GTG		0.488	HFE-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000356133.1		Missense_Mutation	C	26091332	G	C	26091332	5	2	618	1	0	0	0	0	0	0	1	0	7088	1246	43	4	346	4	HFE	6	26091332	Splice_Site	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10		26091332	145023735	40	37830										
ORC3L	23595	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	88362905	88362905	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ttttaagtcttattgtgaaaAccaccttggcagcacagcta	7	9	1	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr6:88362905A>T	ENST00000392844.3	+	14	1502	c.1454A>T	c.(1453-1455)aAc>aTc	p.N485I	ORC3_ENST00000257789.4_Missense_Mutation_p.N485I|ORC3_ENST00000417380.2_3'UTR|ORC3_ENST00000546266.1_Missense_Mutation_p.N342I	NM_012381.3|NM_181837.2	NP_036513.2|NP_862820.1	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3	485					DNA replication (GO:0006260)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|neural precursor cell proliferation (GO:0061351)	nuclear origin of replication recognition complex (GO:0005664)|nucleoplasm (GO:0005654)|origin recognition complex (GO:0000808)	DNA replication origin binding (GO:0003688)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|liver(1)|lung(9)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(3)	28						TATTGTGAAAACCACCTTGGC	0.418																																																0													102	101	101					6																	88362905		2203	4300	6503	SO:0001583	missense	23595			AF093535	CCDS5012.1, CCDS43486.1, CCDS56440.1	6q	2010-10-12	2010-10-12	2010-10-12	ENSG00000135336	ENSG00000135336			8489	protein-coding gene	gene with protein product		604972	"origin recognition complex, subunit 3 (yeast homolog)-like", "origin recognition complex, subunit 3-like (yeast)", "origin recognition complex, subunit 3 honolog (yeast)"	ORC3L		9829972, 10402192	Standard	NM_181837		Approved	IMAGE50150, LATHEO	uc003pmg.3	Q9UBD5	OTTHUMG00000015179	ENST00000392844.3:c.1454A>T	6.37:g.88362905A>T	ENSP00000376586:p.Asn485Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2T5|B4E025|Q13565|Q53GY6|Q5T159|Q6IUY7|Q86TN5|Q9UG44|Q9UNT6	Missense_Mutation	SNP	ENST00000392844.3	37	CCDS43486.1	.	.	.	.	.	.	.	.	.	.	A	16.29	3.081722	0.55861	.	.	ENSG00000135336	ENST00000392844;ENST00000257789;ENST00000546266	T;T;T	0.12147	3.07;3.07;2.71	5.71	5.71	0.89125	.	0.141687	0.64402	D	0.000009	T	0.03390	0.0098	N	0.14661	0.345	0.24464	N	0.994423	B;B;B;B;B	0.31290	0.009;0.318;0.009;0.004;0.029	B;B;B;B;B	0.28849	0.014;0.095;0.005;0.005;0.088	T	0.30851	-0.9964	10	0.36615	T	0.2	-12.2882	13.939	0.64043	1.0:0.0:0.0:0.0	.	485;485;423;485;485	B7ZAI3;B7Z8A5;B4E014;Q9UBD5;Q9UBD5-2	.;.;.;ORC3_HUMAN;.	I	485;485;342	ENSP00000376586:N485I;ENSP00000257789:N485I;ENSP00000444695:N342I	ENSP00000257789:N485I	N	+	2	0	ORC3	88419624	1.000000	0.71417	0.995000	0.50966	0.903000	0.53119	4.074000	0.57577	2.171000	0.68590	0.533000	0.62120	AAC		0.418	ORC3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000041452.2			T	88362905	A	T	88362905	3	4	618	1	0	0	0	0	1	0	0	0	11270	43	2	5	1508	5	ORC3L	6	88362905	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	62271573	88362905	82752162	41	37831										
PLEKHG1	57480	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	151161158	151161158	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ctatagtaatggagagttagCagatttctgtctcccaccag	9	9	2	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr6:151161158C>T	ENST00000358517.2	+	16	3495	c.3284C>T	c.(3283-3285)gCa>gTa	p.A1095V	PLEKHG1_ENST00000367328.1_Missense_Mutation_p.A1095V			Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G (with RhoGef domain) member 1	1095							Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(3)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(10)|lung(19)|ovary(5)|prostate(4)|stomach(1)|urinary_tract(3)	53			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		GGAGAGTTAGCAGATTTCTGT	0.488																																																0													63	63	63					6																	151161158		2203	4300	6503	SO:0001583	missense	57480			AB033035	CCDS34552.1	6q25.1	2013-01-11			ENSG00000120278	ENSG00000120278		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	20884	protein-coding gene	gene with protein product						10574462	Standard	XM_005267064		Approved	KIAA1209, ARHGEF41	uc003qny.1	Q9ULL1	OTTHUMG00000015824	ENST00000358517.2:c.3284C>T	6.37:g.151161158C>T	ENSP00000351318:p.Ala1095Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T1F2	Missense_Mutation	SNP	ENST00000358517.2	37	CCDS34552.1	.	.	.	.	.	.	.	.	.	.	C	15.34	2.803848	0.50315	.	.	ENSG00000120278	ENST00000367328;ENST00000358517	T;T	0.67345	-0.26;-0.26	5.81	4.91	0.64330	.	0.092382	0.85682	N	0.000000	T	0.44393	0.1291	L	0.41236	1.265	0.45541	D	0.998498	B;B	0.20052	0.041;0.041	B;B	0.17722	0.019;0.019	T	0.48570	-0.9024	10	0.52906	T	0.07	.	14.0507	0.64734	0.0:0.925:0.0:0.075	.	902;1095	Q5EBL9;Q9ULL1	.;PKHG1_HUMAN	V	1095	ENSP00000356297:A1095V;ENSP00000351318:A1095V	ENSP00000351318:A1095V	A	+	2	0	PLEKHG1	151202851	0.925000	0.31364	0.994000	0.49952	0.938000	0.57974	1.969000	0.40510	1.392000	0.46585	0.655000	0.94253	GCA		0.488	PLEKHG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042691.1			T	151161158	C	T	151161158	3	4	618	1	0	0	0	0	1	0	0	0	12075	710	25	2	3342	2	PLEKHG1	6	151161158	Missense_Mutation	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	62798253	151161158	19953909	42	37832										
HEATR2	54919	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	769345	769345	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	tctgatcgggcccctgatgcAgaccatctcccaccagcact	8	17	2	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr7:769345A>C	ENST00000297440.6	+	2	661	c.641A>C	c.(640-642)cAg>cCg	p.Q214P	PRKAR1B_ENST00000403562.1_5'Flank|PRKAR1B_ENST00000488474.1_5'Flank|HEATR2_ENST00000438961.1_3'UTR|PRKAR1B_ENST00000537384.1_5'Flank|HEATR2_ENST00000313147.5_Missense_Mutation_p.Q214P	NM_017802.3	NP_060272.3	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	214						cytoplasm (GO:0005737)				breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(3)|ovary(2)|prostate(4)|skin(1)	22		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		CCCCTGATGCAGACCATCTCC	0.622																																																0													79	63	69					7																	769345		2203	4300	6503	SO:0001583	missense	54919			AL832914, AK000404, NM_017802, AK056233	CCDS34580.1	7p22.3	2014-05-06	2006-05-19		ENSG00000164818	ENSG00000164818			26013	protein-coding gene	gene with protein product		614864				23040496	Standard	NM_017802		Approved	FLJ20397, FLJ31671, FLJ39381, FLJ25564, CILD18	uc010krz.1	Q86Y56	OTTHUMG00000151416	ENST00000297440.6:c.641A>C	7.37:g.769345A>C	ENSP00000297440:p.Gln214Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q69YL1|Q96FI9|Q9NX75	Missense_Mutation	SNP	ENST00000297440.6	37	CCDS34580.1	.	.	.	.	.	.	.	.	.	.	A	16.52	3.146749	0.57151	.	.	ENSG00000164818	ENST00000297440;ENST00000313147	T;T	0.18502	2.21;2.21	5.06	5.06	0.68205	Armadillo-like helical (1);Armadillo-type fold (1);	0.285236	0.28114	N	0.016547	T	0.18045	0.0433	L	0.45137	1.4	0.52501	D	0.99995	D	0.57899	0.981	B	0.44044	0.439	T	0.02774	-1.1112	10	0.27082	T	0.32	-19.4779	14.8182	0.70050	1.0:0.0:0.0:0.0	.	214	Q86Y56	HEAT2_HUMAN	P	214	ENSP00000297440:Q214P;ENSP00000321451:Q214P	ENSP00000297440:Q214P	Q	+	2	0	HEATR2	735871	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	5.233000	0.65337	1.904000	0.55121	0.460000	0.39030	CAG		0.622	HEATR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322542.1	NM_017802		C	769345	A	C	769345	3	2	618	1	0	0	0	0	1	0	0	0	7035	188	7	5	647	5	HEATR2	7	769345	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10		769345	158369318	43	37833										
SDK1	221935	broad.mit.edu;bcgsc.ca	37	chr7	4056809	4056809	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ccttcgtggcgcaggtaccgCctggctggccttcccggaga	14	15	0	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr7:4056809C>T	ENST00000404826.2	+	17	2566	c.2427C>T	c.(2425-2427)cgC>cgT	p.R809R	SDK1_ENST00000389531.3_Silent_p.R809R	NM_152744.3	NP_689957.3	Q7Z5N4	SDK1_HUMAN	sidekick cell adhesion molecule 1	809	Fibronectin type-III 2. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell adhesion (GO:0007155)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				NS(1)|breast(6)|central_nervous_system(3)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(42)|lung(55)|ovary(4)|pancreas(1)|prostate(4)|skin(6)|upper_aerodigestive_tract(4)|urinary_tract(4)	153		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GCAGGTACCGCCTGGCTGGCC	0.567																																																0													54	47	49					7																	4056809		2203	4300	6503	SO:0001819	synonymous_variant	221935			AK074077	CCDS34590.1	7p22.3	2013-02-11	2011-12-09		ENSG00000146555	ENSG00000146555		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	19307	protein-coding gene	gene with protein product		607216	"sidekick homolog 1 (chicken)", "sidekick homolog 1, cell adhesion molecule (chicken)"			12230981, 17307840, 15213259	Standard	NM_001079653		Approved	FLJ31425	uc003smx.3	Q7Z5N4	OTTHUMG00000151733	ENST00000404826.2:c.2427C>T	7.37:g.4056809C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TEN9|Q8TEP5|Q96N44	Silent	SNP	ENST00000404826.2	37	CCDS34590.1																																																																																				0.567	SDK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323702.1	NM_152744		T	4056809	C	T	4056809	2	4	618	1	0	0	0	0	0	0	0	1	13981	726	26	2		2	SDK1	7	4056809	Silent	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	3287464	4056809	155081854	44	37834										
CDK13	8621	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	40134339	40134339	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	tttgaatatagccatggtccTattgcagtcctggcaaacag	9	9	0	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr7:40134339T>C	ENST00000181839.4	+	14	4904	c.4299T>C	c.(4297-4299)ccT>ccC	p.P1433P	CDK13_ENST00000340829.5_Silent_p.P1373P	NM_003718.4|NM_031267.3	NP_003709.3|NP_112557.2	Q14004	CDK13_HUMAN	cyclin-dependent kinase 13	1433					alternative mRNA splicing, via spliceosome (GO:0000380)|hemopoiesis (GO:0030097)|multicellular organismal development (GO:0007275)|phosphorylation of RNA polymerase II C-terminal domain (GO:0070816)|positive regulation of cell proliferation (GO:0008284)|regulation of mitosis (GO:0007088)|viral process (GO:0016032)	cyclin K-CDK13 complex (GO:0002945)|extracellular space (GO:0005615)|nuclear cyclin-dependent protein kinase holoenzyme complex (GO:0019908)|nuclear speck (GO:0016607)	ATP binding (GO:0005524)|cyclin binding (GO:0030332)|cyclin-dependent protein serine/threonine kinase activity (GO:0004693)|poly(A) RNA binding (GO:0044822)|protein kinase activity (GO:0004672)|RNA polymerase II carboxy-terminal domain kinase activity (GO:0008353)			cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(19)|ovary(1)|pancreas(2)|prostate(2)|skin(5)|stomach(2)|urinary_tract(1)	49						GCCATGGTCCTATTGCAGTCC	0.463																																																0													125	110	115					7																	40134339		2203	4300	6503	SO:0001819	synonymous_variant	8621			M80629	CCDS5461.1, CCDS5462.1	7p14.1	2011-11-08	2009-12-16	2009-12-16	ENSG00000065883	ENSG00000065883		"Cyclin-dependent kinases"	1733	protein-coding gene	gene with protein product	"cholinesterase-related cell division controller"	603309	"cell division cycle 2-like 5 (cholinesterase-related cell division controller)"	CDC2L5		1731328, 19884882	Standard	NM_003718		Approved	CHED, CDC2L, KIAA1791	uc003thh.4	Q14004	OTTHUMG00000023726	ENST00000181839.4:c.4299T>C	7.37:g.40134339T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q53G78|Q6DKQ9|Q75MH4|Q75MH5|Q96JN4|Q9H4A0|Q9H4A1|Q9UDR4	Silent	SNP	ENST00000181839.4	37	CCDS5461.1																																																																																				0.463	CDK13-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000250726.2	NM_003718		C	40134339	T	C	40134339	2	2	618	1	0	0	0	0	0	0	0	1	3131	1509	53	3		3	CDK13	7	40134339	Silent	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10	36077530	40134339	119004324	45	37835										
PIK3CG	5294	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	106508582	106508582	+	Frame_Shift_Del	DEL	C	C	-													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gcggaggtggccagccgcgaCcccaagctctacgccatgca					rs377396894		TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr7:106508582delC	ENST00000359195.3	+	2	886	c.576delC	c.(574-576)gacfs	p.D192fs	PIK3CG_ENST00000440650.2_Frame_Shift_Del_p.D192fs|PIK3CG_ENST00000496166.1_Frame_Shift_Del_p.D192fs	NM_001282427.1|NM_002649.2	NP_001269356.1|NP_002640.2	P48736	PK3CG_HUMAN	phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit gamma	192					adaptive immune response (GO:0002250)|angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|cytokine production (GO:0001816)|dendritic cell chemotaxis (GO:0002407)|endocytosis (GO:0006897)|G-protein coupled receptor signaling pathway (GO:0007186)|hepatocyte apoptotic process (GO:0097284)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|mast cell degranulation (GO:0043303)|natural killer cell chemotaxis (GO:0035747)|negative regulation of cardiac muscle contraction (GO:0055118)|negative regulation of fibroblast apoptotic process (GO:2000270)|negative regulation of triglyceride catabolic process (GO:0010897)|neutrophil chemotaxis (GO:0030593)|neutrophil extravasation (GO:0072672)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol biosynthetic process (GO:0006661)|phospholipid metabolic process (GO:0006644)|platelet activation (GO:0030168)|platelet aggregation (GO:0070527)|positive regulation of acute inflammatory response (GO:0002675)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of protein kinase B signaling (GO:0051897)|regulation of cell adhesion mediated by integrin (GO:0033628)|respiratory burst involved in defense response (GO:0002679)|secretory granule localization (GO:0032252)|small molecule metabolic process (GO:0044281)|T cell activation (GO:0042110)|T cell chemotaxis (GO:0010818)|T cell proliferation (GO:0042098)	1-phosphatidylinositol-4-phosphate 3-kinase, class IB complex (GO:0005944)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|mast cell granule (GO:0042629)|membrane (GO:0016020)|plasma membrane (GO:0005886)	1-phosphatidylinositol-3-kinase activity (GO:0016303)|1-phosphatidylinositol-4-phosphate 3-kinase activity (GO:0035005)|ATP binding (GO:0005524)|ephrin receptor binding (GO:0046875)|phosphatidylinositol 3-kinase activity (GO:0035004)|phosphatidylinositol-4,5-bisphosphate 3-kinase activity (GO:0046934)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			breast(7)|central_nervous_system(9)|cervix(1)|endometrium(6)|kidney(4)|large_intestine(16)|liver(4)|lung(59)|ovary(4)|pancreas(4)|prostate(3)|skin(6)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	132						CCAGCCGCGACCCCAAGCTCT	0.617																																																0													70	74	73					7																	106508582		2203	4300	6503	SO:0001589	frameshift_variant	5294				CCDS5739.1	7q22	2012-07-13	2012-07-13		ENSG00000105851	ENSG00000105851	2.7.1.153		8978	protein-coding gene	gene with protein product		601232	"phosphoinositide-3-kinase, catalytic, gamma polypeptide"				Standard	XM_005250443		Approved		uc003vdw.3	P48736	OTTHUMG00000157641	ENST00000359195.3:c.576delC	7.37:g.106508582delC	ENSP00000352121:p.Asp192fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4D0Q6|Q8IV23|Q9BZC8	Frame_Shift_Del	DEL	ENST00000359195.3	37	CCDS5739.1																																																																																				0.617	PIK3CG-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349294.1			-	106508582	C	-	106508582	7	5	618	1	0	1	0	1	0	0	0	0	11923	506	18	0	578	0	PIK3CG	7	106508582	Frame_Shift_Del	DEL	C	TCGA-IZ-A6M8-01A-11D-A31X-10	66374243	106508582	52630081	46	37836										
ENTPD4	9583	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	23294705	23294705	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	tgctggatttcatctttaatGtctaggggtaggcaggggtc	14	6	3	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr8:23294705G>A	ENST00000358689.4	-	10	1351	c.1116C>T	c.(1114-1116)gaC>gaT	p.D372D	ENTPD4_ENST00000417069.2_Silent_p.D364D|ENTPD4_ENST00000521321.1_5'Flank|ENTPD4_ENST00000356206.6_Silent_p.D364D	NM_001128930.2|NM_004901.4	NP_001122402.1|NP_004892.1	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	372					UDP catabolic process (GO:0006256)	cytoplasmic vesicle (GO:0031410)|integral component of Golgi membrane (GO:0030173)|intracellular membrane-bounded organelle (GO:0043231)	uridine-diphosphatase activity (GO:0045134)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(6)|lung(6)|ovary(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	25		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		CATCTTTAATGTCTAGGGGTA	0.458																																																0													128	102	111					8																	23294705		2203	4300	6503	SO:0001819	synonymous_variant	9583			AJ131358	CCDS6041.1, CCDS47827.1	8p21.3	2014-05-16	2004-09-22	2004-09-22	ENSG00000197217	ENSG00000197217			14573	protein-coding gene	gene with protein product		607577	"lysosomal apyrase-like 1"	LYSAL1		10393803, 9205841	Standard	NM_001128930		Approved	LALP70, LAP70, KIAA0392, NTPDase-4, UDPase	uc003xdl.3	Q9Y227	OTTHUMG00000097852	ENST00000358689.4:c.1116C>T	8.37:g.23294705G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DSS3|O15092	Silent	SNP	ENST00000358689.4	37	CCDS6041.1																																																																																				0.458	ENTPD4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000215142.1	NM_004901		A	23294705	G	A	23294705	2	1	618	1	0	0	0	0	0	0	0	1	5143	1368	48	2		2	ENTPD4	8	23294705	Silent	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10		23294705	123069317	47	37837										
RAB11FIP1	80223	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	37729061	37729061	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	attgtccagggatgtgccagGaggcgggcttggactcccat	15	10	0	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr8:37729061G>C	ENST00000330843.4	-	4	3271	c.3259C>G	c.(3259-3261)Cct>Gct	p.P1087A	RAB11FIP1_ENST00000524118.1_Intron|RAB11FIP1_ENST00000523182.1_5'UTR|RAB11FIP1_ENST00000522727.1_Intron|RAB11FIP1_ENST00000287263.4_Intron	NM_001002814.2	NP_001002814.2	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 (class I)	1087					protein transport (GO:0015031)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|endosome (GO:0005768)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)				NS(1)|breast(1)|central_nervous_system(4)|endometrium(3)|large_intestine(6)|lung(20)|ovary(3)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	49		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			GATGTGCCAGGAGGCGGGCTT	0.552											OREG0018713	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													190	202	198					8																	37729061		2203	4300	6503	SO:0001583	missense	80223			AK092296	CCDS34881.1, CCDS34882.1	8p11.22	2005-10-04			ENSG00000156675	ENSG00000156675			30265	protein-coding gene	gene with protein product		608737				11786538, 11495908	Standard	NM_001002814		Approved	RCP, FLJ22622, FLJ22524, Rab11-FIP1	uc003xkm.2	Q6WKZ4	OTTHUMG00000164026	ENST00000330843.4:c.3259C>G	8.37:g.37729061G>C	ENSP00000331342:p.Pro1087Ala	Somatic	872	WXS	Illumina HiSeq	Phase_I	J3KNP0|Q307T1|Q6AZK4|Q6WKZ2|Q6WKZ6|Q86YV4|Q8TDL1|Q9H642	Missense_Mutation	SNP	ENST00000330843.4	37	CCDS34882.1	.	.	.	.	.	.	.	.	.	.	G	10.50	1.368051	0.24771	.	.	ENSG00000156675	ENST00000330843	T	0.11712	2.75	5.24	0.717	0.18196	.	0.271342	0.26499	N	0.024035	T	0.05823	0.0152	L	0.36672	1.1	0.09310	N	0.999994	P;B	0.37101	0.582;0.057	B;B	0.33392	0.163;0.02	T	0.32481	-0.9905	10	0.19590	T	0.45	-8.4888	3.2151	0.06696	0.4377:0.2192:0.3431:0.0	.	416;1087	Q67C35;Q6WKZ4	.;RFIP1_HUMAN	A	1087	ENSP00000331342:P1087A	ENSP00000331342:P1087A	P	-	1	0	RAB11FIP1	37848219	0.746000	0.28272	0.013000	0.15412	0.003000	0.03518	1.420000	0.34804	0.206000	0.20587	-0.136000	0.14681	CCT		0.552	RAB11FIP1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000376816.1	NM_025151		C	37729061	G	C	37729061	3	2	618	1	0	0	0	0	1	0	0	0	12906	1174	41	4	604	4	RAB11FIP1	8	37729061	Missense_Mutation	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	14434356	37729061	108634961	48	37838										
EFCAB1	79645	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	49647695	49647695	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ggtgtccgtcagcttctgcaGtttcttgcggttcatgtctg	12	10	5	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr8:49647695G>A	ENST00000262103.3	-	1	96	c.16C>T	c.(16-18)Ctg>Ttg	p.L6L	EFCAB1_ENST00000433756.1_Silent_p.L6L|EFCAB1_ENST00000523092.1_Silent_p.L6L|EFCAB1_ENST00000521002.1_5'UTR	NM_024593.3	NP_078869.1	Q9HAE3	EFCB1_HUMAN	EF-hand calcium binding domain 1	6							calcium ion binding (GO:0005509)			endometrium(1)|large_intestine(3)|lung(6)|pancreas(1)|prostate(1)|urinary_tract(2)	14		all_epithelial(80;0.0134)|Lung NSC(129;0.0207)|all_lung(136;0.0464)				AGCTTCTGCAGTTTCTTGCGG	0.627																																																0													171	157	162					8																	49647695		2203	4300	6503	SO:0001819	synonymous_variant	79645				CCDS6145.1, CCDS47853.1	8q11.21	2013-01-10			ENSG00000034239	ENSG00000034239		"EF-hand domain containing"	25678	protein-coding gene	gene with protein product						12477932	Standard	NM_024593		Approved	FLJ11767	uc003xqo.2	Q9HAE3	OTTHUMG00000164203	ENST00000262103.3:c.16C>T	8.37:g.49647695G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DSB4|E7EVN7	Silent	SNP	ENST00000262103.3	37	CCDS6145.1																																																																																				0.627	EFCAB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377778.1	NM_024593		A	49647695	G	A	49647695	2	1	618	1	0	0	0	0	0	0	0	1	4935	1020	36	2		2	EFCAB1	8	49647695	Silent	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	11918634	49647695	96716327	49	37839										
RUNX1T1	862	ucsc.edu;bcgsc.ca	37	chr8	93088202	93088202	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ctgttccttaccttgacaatAttcaaagttcccttttttcc	3	12	1	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr8:93088202A>G	ENST00000523629.1	-	2	533	c.79T>C	c.(79-81)Tat>Cat	p.Y27H	RUNX1T1_ENST00000265814.3_Missense_Mutation_p.Y27H|RUNX1T1_ENST00000520724.1_Intron|RUNX1T1_ENST00000518844.1_5'UTR|RUNX1T1_ENST00000522163.1_5'UTR|RUNX1T1_ENST00000436581.2_Intron|RUNX1T1_ENST00000360348.2_Intron	NM_001198626.1|NM_001198630.1|NM_001198633.1|NM_175634.2	NP_001185555.1|NP_001185559.1|NP_001185562.1|NP_783552.1	Q06455	MTG8_HUMAN	runt-related transcription factor 1; translocated to, 1 (cyclin D-related)	27					fat cell differentiation (GO:0045444)|generation of precursor metabolites and energy (GO:0006091)|regulation of DNA binding (GO:0051101)|transcription, DNA-templated (GO:0006351)	nuclear matrix (GO:0016363)	DNA binding (GO:0003677)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(17)|lung(54)|pancreas(1)|skin(3)|upper_aerodigestive_tract(2)	86			BRCA - Breast invasive adenocarcinoma(11;0.0141)			CCTTGACAATATTCAAAGTTC	0.323																																																0													148	143	145					8																	93088202		2203	4300	6503	SO:0001583	missense	862			D43638	CCDS6256.1, CCDS6257.1, CCDS47891.1, CCDS56544.1, CCDS75766.1, CCDS75767.1	8q22	2007-01-29	2005-01-20	2005-01-22	ENSG00000079102	ENSG00000079102		"Zinc fingers, MYND-type"	1535	protein-coding gene	gene with protein product		133435	"core-binding factor, runt domain, alpha subunit 2; translocated to, 1; cyclin D-related"	AML1T1, CBFA2T1		1391946, 9790752	Standard	NM_004349		Approved	CDR, ETO, MTG8, ZMYND2	uc011lgi.2	Q06455	OTTHUMG00000164066	ENST00000523629.1:c.79T>C	8.37:g.93088202A>G	ENSP00000428543:p.Tyr27His	Somatic		WXS	Illumina HiSeq		B7Z4P4|E7EPN4|O14784|Q06456|Q14873|Q16239|Q16346|Q16347|Q6IBL1|Q6NXH1|Q7Z4J5|Q92479|Q9BRZ0	Missense_Mutation	SNP	ENST00000523629.1	37	CCDS6256.1	.	.	.	.	.	.	.	.	.	.	A	13.29	2.192939	0.38707	.	.	ENSG00000079102	ENST00000523629;ENST00000265814;ENST00000518992;ENST00000519847;ENST00000522467;ENST00000517919;ENST00000520583;ENST00000523168;ENST00000521375;ENST00000520974;ENST00000518954;ENST00000520428;ENST00000518449	T;T;T	0.48201	1.46;1.46;0.82	5.48	5.48	0.80851	.	.	.	.	.	T	0.36524	0.0970	L	0.29908	0.895	0.33916	D	0.640263	B	0.30664	0.289	B	0.26094	0.066	T	0.50101	-0.8867	9	0.35671	T	0.21	33.7713	14.4227	0.67196	1.0:0.0:0.0:0.0	.	27	Q06455	MTG8_HUMAN	H	27	ENSP00000428543:Y27H;ENSP00000265814:Y27H;ENSP00000431094:Y27H	ENSP00000265814:Y27H	Y	-	1	0	RUNX1T1	93157378	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.070000	0.57548	2.210000	0.71456	0.460000	0.39030	TAT		0.323	RUNX1T1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000377045.3	NM_004349, NM_175635		G	93088202	A	G	93088202	3	3	618	1	0	0	0	0	1	0	0	0	13760	449	16	3	1790	3	RUNX1T1	8	93088202	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	43440507	93088202	53275820	50	37840										
GRINA	2907	broad.mit.edu	37	chr8	145065567	145065567	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	cggtcagccagggtacccccAtggccccagcccctaccccc	9	22	1	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr8:145065567A>C	ENST00000313269.5	+	2	454	c.176A>C	c.(175-177)cAt>cCt	p.H59P	GRINA_ENST00000395068.4_Missense_Mutation_p.H59P	NM_000837.1	NP_000828.1	Q7Z429	LFG1_HUMAN	glutamate receptor, ionotropic, N-methyl D-aspartate-associated protein 1 (glutamate binding)	59	Pro-rich.					integral component of membrane (GO:0016021)				central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|skin(1)|stomach(1)	9	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GGGTACCCCCATGGCCCCAGC	0.701																																																0													5	6	6					8																	145065567		2054	4104	6158	SO:0001583	missense	2907			NM_001009184	CCDS34961.1	8q24.3	2010-03-18	2008-04-01						4589	protein-coding gene	gene with protein product	"transmembrane BAX inhibitor motif containing 3"	138251		NMDARA1		1719427, 8406459	Standard	XM_005250899		Approved	HNRGW, TMBIM3, LFG1	uc003zao.1	Q7Z429		ENST00000313269.5:c.176A>C	8.37:g.145065567A>C	ENSP00000314380:p.His59Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXM7|O43836|Q8IVW7	Missense_Mutation	SNP	ENST00000313269.5	37	CCDS34961.1	.	.	.	.	.	.	.	.	.	.	A	9.808	1.182408	0.21870	.	.	ENSG00000178719	ENST00000313269;ENST00000529301;ENST00000395068;ENST00000530898;ENST00000537637	T;T;T	0.23552	1.92;1.9;1.92	4.86	4.86	0.63082	.	0.419238	0.23836	N	0.044091	T	0.12347	0.0300	N	0.03608	-0.345	0.27083	N	0.963048	B	0.02656	0.0	B	0.01281	0.0	T	0.13899	-1.0492	10	0.34782	T	0.22	-2.4157	12.7237	0.57156	1.0:0.0:0.0:0.0	.	59	Q7Z429	GRINA_HUMAN	P	59;59;59;59;40	ENSP00000314380:H59P;ENSP00000432706:H59P;ENSP00000378507:H59P	ENSP00000314380:H59P	H	+	2	0	GRINA	145137555	0.998000	0.40836	0.947000	0.38551	0.731000	0.41821	3.380000	0.52448	1.961000	0.56991	0.462000	0.41574	CAT		0.701	GRINA-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384048.1	NM_001009184		C	145065567	A	C	145065567	3	2	618	1	0	0	0	0	1	0	0	0	6792	217	8	5	178	5	GRINA	8	145065567	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	51977365	145065567	1298455	51	37841										
DOCK8	81704	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	441958	441958	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ttggatgaacaggagtttgtCtacaaagagcctgcaattac	10	7	1	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr9:441958C>T	ENST00000453981.1	+	42	5551	c.5439C>T	c.(5437-5439)gtC>gtT	p.V1813V	DOCK8_ENST00000469391.1_Silent_p.V1713V|DOCK8_ENST00000382329.1_Silent_p.V1280V|DOCK8_ENST00000432829.2_Silent_p.V1745V			Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	1813	DHR-2.				blood coagulation (GO:0007596)|dendritic cell migration (GO:0036336)|immunological synapse formation (GO:0001771)|memory T cell proliferation (GO:0061485)|negative regulation of T cell apoptotic process (GO:0070233)|small GTPase mediated signal transduction (GO:0007264)	cell leading edge (GO:0031252)|cytosol (GO:0005829)|membrane (GO:0016020)	guanyl-nucleotide exchange factor activity (GO:0005085)			breast(1)|central_nervous_system(5)|endometrium(2)|kidney(6)|large_intestine(13)|lung(22)|ovary(3)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(6)	65		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)		AGGAGTTTGTCTACAAAGAGC	0.403																																																0													111	106	108					9																	441958		2203	4300	6503	SO:0001819	synonymous_variant	81704			AK090429	CCDS6440.1, CCDS6440.2, CCDS55283.1, CCDS55284.1	9p24.3	2014-09-17			ENSG00000107099	ENSG00000107099			19191	protein-coding gene	gene with protein product		611432				11214971	Standard	NM_203447		Approved	FLJ00026, FLJ00152, ZIR8, FLJ00346	uc003zgf.2	Q8NF50	OTTHUMG00000078789	ENST00000453981.1:c.5439C>T	9.37:g.441958C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2A350|A2BDF2|A4FU78|B7ZLP0|E9PH09|Q3MV16|Q5JPJ1|Q8TEP1|Q8WUY2|Q9BYJ5|Q9H1Q2|Q9H1Q3|Q9H308|Q9H7P2	Silent	SNP	ENST00000453981.1	37	CCDS6440.2																																																																																				0.403	DOCK8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000171792.5	XM_036307		T	441958	C	T	441958	2	4	618	1	0	0	0	0	0	0	0	1	4695	900	32	2		2	DOCK8	9	441958	Silent	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10		441958	140771473	52	37842										
TAF1L	138474	ucsc.edu;bcgsc.ca	37	chr9	32632528	32632528	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gcttggcatttttcagggaaAggcgacgaaggtctgcatct	13	8	3	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr9:32632528A>G	ENST00000242310.4	-	1	3139	c.3050T>C	c.(3049-3051)cTt>cCt	p.L1017P	RP11-555J4.4_ENST00000430787.1_RNA	NM_153809.2	NP_722516.1	Q8IZX4	TAF1L_HUMAN	TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 210kDa-like	1017					DNA-templated transcription, initiation (GO:0006352)|histone acetylation (GO:0016573)|male meiosis (GO:0007140)|positive regulation of transcription, DNA-templated (GO:0045893)|protein phosphorylation (GO:0006468)|regulation of transcription from RNA polymerase II promoter (GO:0006357)	transcription factor TFIID complex (GO:0005669)	DNA binding (GO:0003677)|histone acetyltransferase activity (GO:0004402)|lysine-acetylated histone binding (GO:0070577)|protein serine/threonine kinase activity (GO:0004674)|TBP-class protein binding (GO:0017025)			breast(6)|central_nervous_system(4)|endometrium(14)|kidney(11)|large_intestine(32)|liver(2)|lung(68)|ovary(2)|pancreas(2)|prostate(7)|skin(9)|stomach(1)|upper_aerodigestive_tract(1)	159			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		TTTCAGGGAAAGGCGACGAAG	0.453																																																0													258	244	248					9																	32632528		2203	4298	6501	SO:0001583	missense	138474			AF390562	CCDS35003.1	9p12	2007-07-27	2007-07-27		ENSG00000122728	ENSG00000122728			18056	protein-coding gene	gene with protein product		607798	"TAF1-like RNA polymerase II, TATA box binding protein (TBP)-associated factor, 210kDa"			12217962	Standard	NM_153809		Approved		uc003zrg.1	Q8IZX4	OTTHUMG00000019747	ENST00000242310.4:c.3050T>C	9.37:g.32632528A>G	ENSP00000418379:p.Leu1017Pro	Somatic		WXS	Illumina HiSeq		Q0VG57	Missense_Mutation	SNP	ENST00000242310.4	37	CCDS35003.1	.	.	.	.	.	.	.	.	.	.	A	17.71	3.456647	0.63401	.	.	ENSG00000122728	ENST00000242310	T	0.16457	2.34	0.479	0.479	0.16796	Transcription initiation factor TFIID subunit 1, domain of unknown function (1);	0.117031	0.64402	D	0.000013	T	0.42877	0.1222	M	0.92268	3.29	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.34675	-0.9819	10	0.87932	D	0	.	5.1959	0.15236	0.9999:0.0:1.0E-4:0.0	.	1017	Q8IZX4	TAF1L_HUMAN	P	1017	ENSP00000418379:L1017P	ENSP00000418379:L1017P	L	-	2	0	TAF1L	32622528	1.000000	0.71417	0.965000	0.40720	0.794000	0.44872	5.776000	0.68924	0.426000	0.26116	0.164000	0.16699	CTT		0.453	TAF1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052012.2			G	32632528	A	G	32632528	3	3	618	1	0	0	0	0	1	0	0	0	15535	72	3	3	2434	3	TAF1L	9	32632528	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	32190570	32632528	108580903	53	37843										
SHB	6461	broad.mit.edu	37	chr9	37956019	37956019	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gtcccgcgaaggtgagggggAtgactgccgcttctcgttgc	16	11	1	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr9:37956019A>G	ENST00000377707.3	-	4	1652	c.1087T>C	c.(1087-1089)Tcc>Ccc	p.S363P	RP11-613M10.9_ENST00000540557.1_3'UTR	NM_003028.2	NP_003019.2	Q15464	SHB_HUMAN	Src homology 2 domain containing adaptor protein B	363	Mediates interaction with LAT, PTK2/FAK1, JAK1 and JAK3.				angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|cell differentiation (GO:0030154)|positive regulation of signal transduction (GO:0009967)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	SH3/SH2 adaptor activity (GO:0005070)			central_nervous_system(2)|endometrium(4)|lung(1)|prostate(1)|skin(1)|soft_tissue(1)|stomach(1)	11		all_epithelial(88;0.122)		GBM - Glioblastoma multiforme(29;3.27e-05)|Lung(182;0.0658)		GGTGAGGGGGATGACTGCCGC	0.602																																																0													39	33	35					9																	37956019		1990	4146	6136	SO:0001583	missense	6461				CCDS43806.1	9p13.2	2013-09-23	2005-05-24		ENSG00000107338	ENSG00000107338		"SH2 domain containing"	10838	protein-coding gene	gene with protein product		600314	"SHB adaptor protein (a Src homology 2 protein)", "SHB (Src homology 2 domain containing) adaptor protein B"			7713524	Standard	NM_003028		Approved		uc004aax.3	Q15464	OTTHUMG00000019936	ENST00000377707.3:c.1087T>C	9.37:g.37956019A>G	ENSP00000366936:p.Ser363Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGM0|D3DRQ5|Q504U5|Q5VUM8	Missense_Mutation	SNP	ENST00000377707.3	37	CCDS43806.1	.	.	.	.	.	.	.	.	.	.	A	15.42	2.827960	0.50845	.	.	ENSG00000107338	ENST00000377707	T	0.36520	1.25	5.68	5.68	0.88126	.	0.117982	0.39341	N	0.001400	T	0.33760	0.0874	N	0.12182	0.205	0.80722	D	1	D	0.61697	0.99	P	0.53649	0.731	T	0.24297	-1.0164	10	0.52906	T	0.07	-16.6295	13.8702	0.63615	1.0:0.0:0.0:0.0	.	363	Q15464	SHB_HUMAN	P	363	ENSP00000366936:S363P	ENSP00000366936:S363P	S	-	1	0	SHB	37946019	1.000000	0.71417	0.999000	0.59377	0.957000	0.61999	6.114000	0.71560	2.161000	0.67846	0.460000	0.39030	TCC		0.602	SHB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052490.1			G	37956019	A	G	37956019	3	3	618	1	0	0	0	0	1	0	0	0	14281	333	12	3	454	3	SHB	9	37956019	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	5323491	37956019	103257412	54	37844										
PRKACG	5568	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	71628289	71628289	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	atctggatgggctggtcggcGtagaagggtgggaagcccac	18	8	1	1	rs140133619		TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr9:71628289G>A	ENST00000377276.2	-	1	750	c.720C>T	c.(718-720)taC>taT	p.Y240Y		NM_002732.3	NP_002723.2	P22612	KAPCG_HUMAN	protein kinase, cAMP-dependent, catalytic, gamma	240	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|blood coagulation (GO:0007596)|carbohydrate metabolic process (GO:0005975)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|male gonad development (GO:0008584)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of insulin secretion (GO:0050796)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|spermatogenesis (GO:0007283)|transmembrane transport (GO:0055085)|triglyceride catabolic process (GO:0019433)|water transport (GO:0006833)	cytosol (GO:0005829)	ATP binding (GO:0005524)|cAMP-dependent protein kinase activity (GO:0004691)	p.Y240Y(1)		central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(3)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	22						GCTGGTCGGCGTAGAAGGGTG	0.602																																					Esophageal Squamous(110;2236 2623 32146)											1	Substitution - coding silent(1)	upper_aerodigestive_tract(1)											70	68	68					9																	71628289		2203	4300	6503	SO:0001819	synonymous_variant	5568			M34182	CCDS6625.1	9q13	2012-10-02			ENSG00000165059	ENSG00000165059	2.7.11.1		9382	protein-coding gene	gene with protein product		176893				2342480, 9598317	Standard	NM_002732		Approved	PKACg	uc004agy.3	P22612	OTTHUMG00000019974	ENST00000377276.2:c.720C>T	9.37:g.71628289G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60850|Q5VZ02|Q86YI1	Silent	SNP	ENST00000377276.2	37	CCDS6625.1																																																																																				0.602	PRKACG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052559.1			A	71628289	G	A	71628289	2	1	618	1	0	0	0	0	0	0	0	1	12509	1140	40	1		1	PRKACG	9	71628289	Silent	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	33672270	71628289	69585142	55	37845										
GDA	9615	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	74838062	74838062	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	agagtgaagcccatagtgacAccacgtttttccctctcctg	8	13	1	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr9:74838062A>G	ENST00000358399.3	+	7	726	c.633A>G	c.(631-633)acA>acG	p.T211T	GDA_ENST00000545168.1_Silent_p.T137T|GDA_ENST00000238018.4_Silent_p.T211T|GDA_ENST00000376986.1_Intron|GDA_ENST00000477618.1_3'UTR|GDA_ENST00000376989.3_Intron	NM_001242505.2|NM_001242506.2|NM_004293.4	NP_001229434.1|NP_001229435.1|NP_004284.1	Q9Y2T3	GUAD_HUMAN	guanine deaminase	211					guanine catabolic process (GO:0006147)|nervous system development (GO:0007399)|nucleobase-containing compound metabolic process (GO:0006139)|nucleobase-containing small molecule metabolic process (GO:0055086)|purine nucleobase metabolic process (GO:0006144)|purine nucleotide catabolic process (GO:0006195)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)	guanine deaminase activity (GO:0008892)|zinc ion binding (GO:0008270)			central_nervous_system(4)|endometrium(1)|kidney(1)|large_intestine(1)|lung(20)|ovary(2)|skin(2)|urinary_tract(1)	32		Myeloproliferative disorder(762;0.0122)		Lung(182;0.0583)		CCATAGTGACACCACGTTTTT	0.388																																																0													187	173	177					9																	74838062		2203	4300	6503	SO:0001819	synonymous_variant	9615			AF095286	CCDS6641.1, CCDS56576.1, CCDS56577.1	9q21.13	2008-05-14			ENSG00000119125	ENSG00000119125			4212	protein-coding gene	gene with protein product		139260				10075721, 3966794	Standard	NM_001242507		Approved		uc004air.3	Q9Y2T3	OTTHUMG00000020005	ENST00000358399.3:c.633A>G	9.37:g.74838062A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DTY5|Q5SZC7|Q9H335|Q9ULG2	Silent	SNP	ENST00000358399.3	37	CCDS6641.1																																																																																				0.388	GDA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052633.1			G	74838062	A	G	74838062	2	3	618	1	0	0	0	0	0	0	0	1	6313	146	6	3		3	GDA	9	74838062	Silent	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	3209773	74838062	66375369	56	37846										
ZNF462	58499	ucsc.edu;bcgsc.ca	37	chr9	109688639	109688639	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	atcaccaagtttccaatactGctctgctgaatacccaaact	4	13	2	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr9:109688639G>A	ENST00000277225.5	+	3	2735	c.2446G>A	c.(2446-2448)Gct>Act	p.A816T	ZNF462_ENST00000441147.2_5'Flank|ZNF462_ENST00000457913.1_Missense_Mutation_p.A816T			Q96JM2	ZN462_HUMAN	zinc finger protein 462	816					chromatin organization (GO:0006325)|negative regulation of DNA binding (GO:0043392)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(2)|autonomic_ganglia(2)|breast(5)|central_nervous_system(4)|cervix(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(17)|large_intestine(20)|lung(32)|ovary(5)|prostate(6)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	119						TTCCAATACTGCTCTGCTGAA	0.433																																																0													81	79	80					9																	109688639		2203	4300	6503	SO:0001583	missense	58499			AB058706	CCDS35096.1	9q31.3	2008-02-05			ENSG00000148143	ENSG00000148143		"Zinc fingers, C2H2-type"	21684	protein-coding gene	gene with protein product							Standard	NM_021224		Approved	DKFZP762N2316, KIAA1803, Zfp462	uc004bcz.3	Q96JM2	OTTHUMG00000020438	ENST00000277225.5:c.2446G>A	9.37:g.109688639G>A	ENSP00000277225:p.Ala816Thr	Somatic		WXS	Illumina HiSeq		Q5T0T4|Q8N408	Missense_Mutation	SNP	ENST00000277225.5	37	CCDS35096.1	.	.	.	.	.	.	.	.	.	.	G	10.29	1.310351	0.23821	.	.	ENSG00000148143	ENST00000277225;ENST00000457913	T;T	0.05996	3.36;3.81	5.87	3.01	0.34805	.	0.369247	0.28016	N	0.016934	T	0.03827	0.0108	N	0.19112	0.55	0.80722	D	1	B;B	0.20052	0.041;0.037	B;B	0.21360	0.016;0.034	T	0.48080	-0.9066	9	.	.	.	.	6.0149	0.19596	0.1469:0.0:0.4517:0.4014	.	816;816	Q96JM2-3;Q96JM2	.;ZN462_HUMAN	T	816	ENSP00000277225:A816T;ENSP00000414570:A816T	.	A	+	1	0	ZNF462	108728460	0.183000	0.23186	0.395000	0.26283	0.986000	0.74619	0.537000	0.23144	0.377000	0.24735	0.650000	0.86243	GCT		0.433	ZNF462-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000053532.2	NM_021224		A	109688639	G	A	109688639	3	1	618	1	0	0	0	0	1	0	0	0	17938	1319	46	2	2452	2	ZNF462	9	109688639	Missense_Mutation	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	34850577	109688639	31524792	57	37847										
DNM1	1759	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	130982346	130982346	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	cgtgatgtgctggagaacaaGctgctccccctgcgcagagg	14	12	0	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr9:130982346G>A	ENST00000372923.3	+	5	761	c.669G>A	c.(667-669)aaG>aaA	p.K223K	DNM1_ENST00000486160.1_Silent_p.K223K|DNM1_ENST00000393594.3_Silent_p.K223K|DNM1_ENST00000341179.7_Silent_p.K223K|DNM1_ENST00000475805.1_Silent_p.K223K	NM_004408.2	NP_004399.2	Q05193	DYN1_HUMAN	dynamin 1	223	Dynamin-type G.				endocytosis (GO:0006897)|endosome organization (GO:0007032)|GTP catabolic process (GO:0006184)|receptor internalization (GO:0031623)|receptor-mediated endocytosis (GO:0006898)	extracellular vesicular exosome (GO:0070062)|membrane coat (GO:0030117)|microtubule (GO:0005874)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|identical protein binding (GO:0042802)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(15)|lung(6)|ovary(2)|urinary_tract(2)	32						TGGAGAACAAGCTGCTCCCCC	0.647																																					GBM(113;146 1575 2722 28670 29921)											0													95	77	83					9																	130982346		2203	4300	6503	SO:0001819	synonymous_variant	1759			L07807	CCDS6895.1, CCDS43882.1, CCDS75911.1, CCDS75912.1	9q34	2013-01-10			ENSG00000106976	ENSG00000106976		"Pleckstrin homology (PH) domain containing"	2972	protein-coding gene	gene with protein product		602377		DNM		2144893, 9143509	Standard	XM_005251763		Approved		uc022bob.1	Q05193	OTTHUMG00000020733	ENST00000372923.3:c.669G>A	9.37:g.130982346G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NLM6|Q5SYX0|Q5SYX2|Q6P3T6|Q86VD2	Silent	SNP	ENST00000372923.3	37	CCDS6895.1																																																																																				0.647	DNM1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000054367.1	NM_004408		A	130982346	G	A	130982346	2	1	618	1	0	0	0	0	0	0	0	1	4672	962	34	2		2	DNM1	9	130982346	Silent	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	21293707	130982346	10231085	58	37848										
URM1	81605	broad.mit.edu	37	chr9	131151640	131151640	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	cccctgcccttgctgcttcaGtgggaaagcgttgggcctct	12	14	2	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr9:131151640G>T	ENST00000452446.1	+	4	351	c.289G>T	c.(289-291)Gtg>Ttg	p.V97L	URM1_ENST00000372850.1_3'UTR|URM1_ENST00000483206.1_3'UTR|URM1_ENST00000372853.4_Intron|RP11-339B21.11_ENST00000609303.1_lincRNA	NM_001135947.2	NP_001129419.1			ubiquitin related modifier 1											cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(1)	5						TGCTGCTTCAGTGGGAAAGCG	0.617																																																0													51	48	49					9																	131151640		1327	2309	3636	SO:0001583	missense	81605			AK097029	CCDS6900.1, CCDS48035.1, CCDS59148.1	9q34.13	2010-06-24	2010-06-24	2006-11-28	ENSG00000167118	ENSG00000167118			28378	protein-coding gene	gene with protein product		612693	"chromosome 9 open reading frame 74", "ubiquitin related modifier 1 homolog (S. cerevisiae)"	C9orf74		16046629, 16864801	Standard	NM_030914		Approved	MGC2668	uc011may.2	Q9BTM9	OTTHUMG00000020742	ENST00000452446.1:c.289G>T	9.37:g.131151640G>T	ENSP00000412922:p.Val97Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000452446.1	37	CCDS48035.1	.	.	.	.	.	.	.	.	.	.	G	12.42	1.932635	0.34096	.	.	ENSG00000167118	ENST00000452446	.	.	.	3.84	0.924	0.19418	.	.	.	.	.	T	0.23451	0.0567	.	.	.	0.09310	N	1	B	0.06786	0.001	B	0.08055	0.003	T	0.22626	-1.0211	6	.	.	.	.	6.151	0.20313	0.107:0.3997:0.4933:0.0	.	97	Q9BTM9-2	.	L	97	.	.	V	+	1	0	URM1	130191461	0.029000	0.19370	0.002000	0.10522	0.123000	0.20343	0.709000	0.25734	0.202000	0.20498	-0.947000	0.02670	GTG		0.617	URM1-201	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_030914		T	131151640	G	T	131151640	3	4	618	1	0	0	0	0	1	0	0	0	17039	1029	36	4	303	4	URM1	9	131151640	Missense_Mutation	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	169294	131151640	10061791	59	37849										
MAMDC4	158056	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	139748712	139748712	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	caccactgccagaacaaggtCtgcgtggagccccagcagct	11	15	1	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr9:139748712C>T	ENST00000317446.2	+	7	770	c.720C>T	c.(718-720)gtC>gtT	p.V240V	MAMDC4_ENST00000445819.1_Silent_p.V240V|MAMDC4_ENST00000485732.1_3'UTR	NM_206920.2	NP_996803.2			MAM domain containing 4											breast(4)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(1)|lung(4)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	19	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		AGAACAAGGTCTGCGTGGAGC	0.667																																																0													25	27	26					9																	139748712		2193	4296	6489	SO:0001819	synonymous_variant	158056			AL834531	CCDS7010.1	9q34.3	2013-10-21			ENSG00000177943	ENSG00000177943			24083	protein-coding gene	gene with protein product	"apical early endosomal glycoprotein precursor", "endotubin"					7829488	Standard	NM_206920		Approved	AEGP, DKFZp434M1411	uc004cjs.3	Q6UXC1	OTTHUMG00000020951	ENST00000317446.2:c.720C>T	9.37:g.139748712C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000317446.2	37	CCDS7010.1																																																																																				0.667	MAMDC4-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000254642.3	NM_206920		T	139748712	C	T	139748712	2	4	618	1	0	0	0	0	0	0	0	1	9211	900	32	2		2	MAMDC4	9	139748712	Silent	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	8597072	139748712	1464719	60	37850										
C10orf47	254427	broad.mit.edu;bcgsc.ca	37	chr10	11911626	11911626	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	cccccaggagggagctgcgcGccccctccccgccggtggag	15	19	0	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr10:11911626G>C	ENST00000277570.5	+	4	683	c.529G>C	c.(529-531)Gcc>Ccc	p.A177P	PROSER2-AS1_ENST00000445498.1_RNA|PROSER2-AS1_ENST00000453242.1_RNA|PROSER2_ENST00000379200.1_5'Flank	NM_153256.3	NP_694988.3	Q86WR7	PRSR2_HUMAN	proline and serine rich 2	177	Pro-rich.																GGAGCTGCGCGCCCCCTCCCC	0.692																																																0													11	13	12					10																	11911626		2186	4290	6476	SO:0001583	missense	254427			BC017269	CCDS7085.1	10p14	2014-02-19	2014-02-19	2012-12-05	ENSG00000148426	ENSG00000148426			23728	protein-coding gene	gene with protein product			"chromosome 10 open reading frame 47", "proline and serine-rich protein 2"	C10orf47		12477932	Standard	NM_153256		Approved	MGC35403	uc001ikx.3	Q86WR7	OTTHUMG00000017673	ENST00000277570.5:c.529G>C	10.37:g.11911626G>C	ENSP00000277570:p.Ala177Pro	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRR8|Q5W0J9|Q5W0K0|Q5W0K1|Q5W0K2|Q6PJC8|Q8N317	Missense_Mutation	SNP	ENST00000277570.5	37	CCDS7085.1	.	.	.	.	.	.	.	.	.	.	G	3.538	-0.094234	0.07053	.	.	ENSG00000148426	ENST00000379208;ENST00000277570;ENST00000379202	T	0.08008	3.14	4.4	-8.8	0.00817	.	0.716974	0.13006	N	0.421269	T	0.03305	0.0096	N	0.19112	0.55	0.09310	N	0.999999	B	0.09022	0.002	B	0.08055	0.003	T	0.34925	-0.9809	10	0.87932	D	0	3.0E-4	0.8901	0.01252	0.1745:0.2477:0.1899:0.3878	.	177	Q86WR7	CJ047_HUMAN	P	177	ENSP00000277570:A177P	ENSP00000277570:A177P	A	+	1	0	C10orf47	11951632	0.000000	0.05858	0.000000	0.03702	0.051000	0.14879	-0.577000	0.05847	-2.779000	0.00361	0.305000	0.20034	GCC		0.692	PROSER2-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090189.2	NM_153256		C	11911626	G	C	11911626	3	2	618	1	0	0	0	0	1	0	0	0	1607	1087	38	4	539	4	C10orf47	10	11911626	Missense_Mutation	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10		11911626	123623121	61	37851										
GPAM	57678	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	113913352	113913352	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	atattctagaagtttttgtcGgttgcattgaggtagaaaag	11	3	1	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr10:113913352G>A	ENST00000348367.4	-	22	2640	c.2443C>T	c.(2443-2445)Cga>Tga	p.R815*	GPAM_ENST00000423155.1_Nonsense_Mutation_p.R815*			Q9HCL2	GPAT1_HUMAN	glycerol-3-phosphate acyltransferase, mitochondrial	815					acyl-CoA metabolic process (GO:0006637)|CDP-diacylglycerol biosynthetic process (GO:0016024)|cellular lipid metabolic process (GO:0044255)|defense response to virus (GO:0051607)|fatty acid homeostasis (GO:0055089)|fatty acid metabolic process (GO:0006631)|glycerophospholipid biosynthetic process (GO:0046474)|interleukin-2 secretion (GO:0070970)|negative regulation of activation-induced cell death of T cells (GO:0070236)|phosphatidic acid biosynthetic process (GO:0006654)|phospholipid homeostasis (GO:0055091)|phospholipid metabolic process (GO:0006644)|positive regulation of activated T cell proliferation (GO:0042104)|positive regulation of multicellular organism growth (GO:0040018)|regulation of cytokine secretion (GO:0050707)|response to glucose (GO:0009749)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrial outer membrane (GO:0005741)|plasma membrane (GO:0005886)	glycerol-3-phosphate O-acyltransferase activity (GO:0004366)			breast(2)|central_nervous_system(2)|endometrium(8)|kidney(2)|large_intestine(5)|lung(8)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	31				Epithelial(162;0.0306)|all cancers(201;0.123)		AGTTTTTGTCGGTTGCATTGA	0.383																																					Ovarian(161;1017 2606 18293 52943)											0													126	131	129					10																	113913352		2203	4300	6503	SO:0001587	stop_gained	57678			AL832464	CCDS7570.1	10q25.3	2009-07-15			ENSG00000119927	ENSG00000119927			24865	protein-coding gene	gene with protein product	"glycerol-3-phosphate acyltransferase 1, mitochondrial"	602395				10997877, 8369314	Standard	NM_020918		Approved	KIAA1560, MGC26846, GPAT1	uc001kzp.3	Q9HCL2	OTTHUMG00000019055	ENST00000348367.4:c.2443C>T	10.37:g.113913352G>A	ENSP00000265276:p.Arg815*	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VW51|Q86TA3	Nonsense_Mutation	SNP	ENST00000348367.4	37	CCDS7570.1	.	.	.	.	.	.	.	.	.	.	G	40	8.137750	0.98672	.	.	ENSG00000119927	ENST00000348367;ENST00000423155	.	.	.	5.59	4.63	0.57726	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-17.7284	11.4195	0.49974	0.0:0.0:0.7192:0.2808	.	.	.	.	X	815	.	ENSP00000265276:R815X	R	-	1	2	GPAM	113903342	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	2.487000	0.45268	2.640000	0.89533	0.655000	0.94253	CGA		0.383	GPAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050377.1	NM_020918		A	113913352	G	A	113913352	4	1	618	1	0	0	0	0	0	1	0	0	6595	1124	39	1	47	1	GPAM	10	113913352	Nonsense_Mutation	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	102001726	113913352	21621395	62	37852										
DCHS1	8642	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	6652589	6652589	+	Frame_Shift_Del	DEL	T	T	-													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	tctccccctcatctggatccTtcgcctgcagagtcgtcacc							TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr11:6652589delT	ENST00000299441.3	-	8	4136	c.3725delA	c.(3724-3726)aagfs	p.K1242fs	RP11-732A19.6_ENST00000526633.1_RNA	NM_003737.2	NP_003728.1	Q96JQ0	PCD16_HUMAN	dachsous cadherin-related 1	1242	Cadherin 12. {ECO:0000255|PROSITE- ProRule:PRU00043}.				branching involved in ureteric bud morphogenesis (GO:0001658)|calcium-dependent cell-cell adhesion (GO:0016339)|cochlea development (GO:0090102)|digestive tract development (GO:0048565)|heart morphogenesis (GO:0003007)|heterophilic cell-cell adhesion (GO:0007157)|hippo signaling (GO:0035329)|homophilic cell adhesion (GO:0007156)|neural tube development (GO:0021915)|neurogenesis (GO:0022008)|ossification involved in bone maturation (GO:0043931)|post-anal tail morphogenesis (GO:0036342)	apical part of cell (GO:0045177)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(16)|liver(1)|lung(41)|ovary(4)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(6)|urinary_tract(4)	103		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATCTGGATCCTTCGCCTGCAG	0.552																																																0													206	169	181					11																	6652589		2201	4296	6497	SO:0001589	frameshift_variant	8642			AB000895	CCDS7771.1	11p15.4	2013-10-04	2013-10-04	2004-09-03	ENSG00000166341	ENSG00000166341		"Cadherins / Cadherin-related"	13681	protein-coding gene	gene with protein product	"cadherin-related family member 6"	603057	"protocadherin 16", "dachsous 1 (Drosophila)"	CDH25, PCDH16		9199196	Standard	XM_005253207		Approved	FIB1, KIAA1773, FLJ11790, CDHR6	uc001mem.1	Q96JQ0	OTTHUMG00000133398	ENST00000299441.3:c.3725delA	11.37:g.6652589delT	ENSP00000299441:p.Lys1242fs	Somatic		WXS	Illumina HiSeq	Phase_I	O15098	Frame_Shift_Del	DEL	ENST00000299441.3	37	CCDS7771.1																																																																																				0.552	DCHS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257258.1	NM_003737		-	6652589	T	-	6652589	7	5	618	1	0	1	0	1	0	0	0	0	4289	1609	56	0	6227	0	DCHS1	11	6652589	Frame_Shift_Del	DEL	T	TCGA-IZ-A6M8-01A-11D-A31X-10		6652589	128353927	63	37853										
IGSF22	283284	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	18731076	18731076	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	caggtgcctgagatggggatCtttgtgcacttggaccactc	13	10	1	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr11:18731076C>A	ENST00000513874.1	-	18	2995	c.2856G>T	c.(2854-2856)aaG>aaT	p.K952N	RP11-1081L13.4_ENST00000527285.1_RNA	NM_173588.3	NP_775859	Q8N9C0	IGS22_HUMAN	immunoglobulin superfamily, member 22	851										NS(2)|autonomic_ganglia(1)|breast(3)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(20)|ovary(4)|prostate(4)|skin(3)	56						AGATGGGGATCTTTGTGCACT	0.577																																																0													100	105	104					11																	18731076		1974	4152	6126	SO:0001583	missense	283284			AK095113	CCDS41625.1, CCDS41625.2	11p15.1	2014-06-06			ENSG00000179057	ENSG00000179057		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	26750	protein-coding gene	gene with protein product							Standard	NM_173588		Approved	FLJ37794	uc009yht.2	Q8N9C0	OTTHUMG00000160502	ENST00000513874.1:c.2856G>T	11.37:g.18731076C>A	ENSP00000421191:p.Lys952Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNA0|D6RGV7	Missense_Mutation	SNP	ENST00000513874.1	37	CCDS41625.2	.	.	.	.	.	.	.	.	.	.	C	13.80	2.345544	0.41498	.	.	ENSG00000179057	ENST00000513874	T	0.56776	0.44	4.39	2.46	0.29980	.	.	.	.	.	T	0.47948	0.1473	N	0.12182	0.205	0.09310	N	0.999997	D	0.69078	0.997	D	0.80764	0.994	T	0.34104	-0.9842	9	0.18276	T	0.48	.	7.069	0.25167	0.0:0.7288:0.1744:0.0969	.	952	D6RGV7	.	N	952	ENSP00000421191:K952N	ENSP00000322422:K851N	K	-	3	2	IGSF22	18687652	0.000000	0.05858	0.578000	0.28575	0.994000	0.84299	-0.453000	0.06778	0.464000	0.27142	0.655000	0.94253	AAG		0.577	IGSF22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360850.2	NM_173588		A	18731076	C	A	18731076	3	1	618	1	0	0	0	0	1	0	0	0	7607	912	32	4	1148	4	IGSF22	11	18731076	Missense_Mutation	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	12078487	18731076	116275440	64	37854										
GRIN2B	2904	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	13768093	13768093	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	cccattgctgcgtgacaccaTgacactgatgcctgtctcta	8	14	1	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr12:13768093T>C	ENST00000609686.1	-	7	1818	c.1609A>G	c.(1609-1611)Atg>Gtg	p.M537V		NM_000834.3	NP_000825.2	Q13224	NMDE2_HUMAN	glutamate receptor, ionotropic, N-methyl D-aspartate 2B	537					behavioral fear response (GO:0001662)|behavioral response to pain (GO:0048266)|detection of mechanical stimulus involved in sensory perception of pain (GO:0050966)|glutamate receptor signaling pathway (GO:0007215)|in utero embryonic development (GO:0001701)|ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|learning (GO:0007612)|learning or memory (GO:0007611)|memory (GO:0007613)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of synaptic plasticity (GO:0048167)|response to ethanol (GO:0045471)|sensory organ development (GO:0007423)|startle response (GO:0001964)|suckling behavior (GO:0001967)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transport (GO:0006810)	cell junction (GO:0030054)|cell surface (GO:0009986)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|N-methyl-D-aspartate selective glutamate receptor complex (GO:0017146)|neuron projection (GO:0043005)|neuronal postsynaptic density (GO:0097481)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|synaptic vesicle (GO:0008021)	calcium channel activity (GO:0005262)|extracellular-glutamate-gated ion channel activity (GO:0005234)|glycine binding (GO:0016594)|N-methyl-D-aspartate selective glutamate receptor activity (GO:0004972)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|central_nervous_system(5)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(3)|kidney(12)|large_intestine(12)|liver(1)|lung(70)|ovary(4)|prostate(6)|skin(10)|upper_aerodigestive_tract(5)|urinary_tract(1)	143					Acamprosate(DB00659)|Acetylcysteine(DB06151)|Atomoxetine(DB00289)|Felbamate(DB00949)|Gabapentin(DB00996)|Haloperidol(DB00502)|Ketobemidone(DB06738)|Memantine(DB01043)|Milnacipran(DB04896)|Pentobarbital(DB00312)|Pethidine(DB00454)|Phenobarbital(DB01174)|Secobarbital(DB00418)	CGTGACACCATGACACTGATG	0.517																																																0													195	151	166					12																	13768093		2203	4300	6503	SO:0001583	missense	2904				CCDS8662.1	12p13.1	2014-07-16			ENSG00000273079			"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4586	protein-coding gene	gene with protein product		138252		NMDAR2B		1350383	Standard	NM_000834		Approved	GluN2B	uc001rbt.2	Q13224	OTTHUMG00000137373	ENST00000609686.1:c.1609A>G	12.37:g.13768093T>C	ENSP00000477455:p.Met537Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q12919|Q13220|Q13225|Q14CU4|Q9UM56	Missense_Mutation	SNP	ENST00000609686.1	37	CCDS8662.1	.	.	.	.	.	.	.	.	.	.	T	22.3	4.266041	0.80358	.	.	ENSG00000150086	ENST00000279593	T	0.22134	1.97	6.17	6.17	0.99709	Extracellular solute-binding protein, family 3 (1);Ionotropic glutamate receptor (1);	0.000000	0.85682	D	0.000000	T	0.42720	0.1215	L	0.53780	1.695	0.80722	D	1	D	0.76494	0.999	D	0.67382	0.951	T	0.21655	-1.0239	10	0.87932	D	0	.	16.8222	0.85835	0.0:0.0:0.0:1.0	.	537	Q13224	NMDE2_HUMAN	V	537	ENSP00000279593:M537V	ENSP00000279593:M537V	M	-	1	0	GRIN2B	13659360	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	8.035000	0.88872	2.371000	0.80710	0.533000	0.62120	ATG		0.517	GRIN2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268014.2			C	13768093	T	C	13768093	3	2	618	1	0	0	0	0	1	0	0	0	6787	1464	51	3	2873	3	GRIN2B	12	13768093	Missense_Mutation	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10		13768093	120083802	65	37855										
AMHR2	269	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	53825014	53825014	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	tgttgggatgcagacccagaAgcacggctgacagctgagtg	15	9	0	4			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr12:53825014A>T	ENST00000257863.4	+	11	1559	c.1479A>T	c.(1477-1479)gaA>gaT	p.E493D	AMHR2_ENST00000550311.1_3'UTR|AMHR2_ENST00000379791.3_Missense_Mutation_p.E398D	NM_001164690.1|NM_020547.2	NP_001158162.1|NP_065434.1	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II	493	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				Mullerian duct regression (GO:0001880)|negative regulation of anti-Mullerian hormone signaling pathway (GO:1902613)|sex differentiation (GO:0007548)|signal transduction (GO:0007165)|transforming growth factor beta receptor signaling pathway (GO:0007179)	integral component of plasma membrane (GO:0005887)	anti-Mullerian hormone receptor activity (GO:1990272)|ATP binding (GO:0005524)|hormone binding (GO:0042562)|metal ion binding (GO:0046872)|receptor activity (GO:0004872)|receptor signaling protein serine/threonine kinase activity (GO:0004702)|transforming growth factor beta receptor activity, type II (GO:0005026)			breast(5)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(4)|lung(13)|ovary(2)|skin(2)	34					Adenosine triphosphate(DB00171)	CAGACCCAGAAGCACGGCTGA	0.607																																																0													88	84	86					12																	53825014		2203	4300	6503	SO:0001583	missense	269			AF172932	CCDS8858.1, CCDS53798.1, CCDS55829.1	12q13	2013-03-14							465	protein-coding gene	gene with protein product	"Muellerian inhibiting substance type II receptor"	600956				7493017	Standard	NM_001164690		Approved	MISR2, MISRII	uc001scx.2	Q16671	OTTHUMG00000170048	ENST00000257863.4:c.1479A>T	12.37:g.53825014A>T	ENSP00000257863:p.Glu493Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVE1|B9EGB7|E9PGD2|F8W1D2|Q13762|Q647K2	Missense_Mutation	SNP	ENST00000257863.4	37	CCDS8858.1	.	.	.	.	.	.	.	.	.	.	A	19.53	3.844229	0.71488	.	.	ENSG00000135409	ENST00000257863;ENST00000379791	T;D	0.93659	-0.22;-3.26	4.86	3.72	0.42706	Serine/threonine-protein kinase-like domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.38959	N	0.001503	D	0.92512	0.7622	N	0.25094	0.71	0.29470	N	0.857082	D	0.76494	0.999	D	0.80764	0.994	D	0.87493	0.2428	10	0.62326	D	0.03	.	8.3026	0.32023	0.9085:0.0:0.0915:0.0	.	493	Q16671	AMHR2_HUMAN	D	493;398	ENSP00000257863:E493D;ENSP00000369117:E398D	ENSP00000257863:E493D	E	+	3	2	AMHR2	52111281	0.998000	0.40836	0.998000	0.56505	0.971000	0.66376	0.443000	0.21644	0.998000	0.38996	0.460000	0.39030	GAA		0.607	AMHR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407048.1	NM_020547		T	53825014	A	T	53825014	3	4	618	1	0	0	0	0	1	0	0	0	573	69	3	5	1521	5	AMHR2	12	53825014	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	40056921	53825014	80026881	66	37856										
TARBP2	8620	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	53899840	53899840	+	IGR	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ccacccagccggccactgtgTgtcatggctctgcaaccacc	9	18	2	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr12:53899840T>C	ENST00000267017.3	-	0	592				TARBP2_ENST00000552857.1_3'UTR|TARBP2_ENST00000266987.2_Missense_Mutation_p.C337R|TARBP2_ENST00000456234.2_Missense_Mutation_p.C316R|TARBP2_ENST00000394357.2_Missense_Mutation_p.C316R	NM_003717.2	NP_003708.1	O15130	NPFF_HUMAN	neuropeptide FF-amide peptide precursor						acute inflammatory response to antigenic stimulus (GO:0002438)|maternal process involved in female pregnancy (GO:0060135)|negative regulation of appetite (GO:0032099)|negative regulation of heart rate (GO:0010459)|negative regulation of insulin secretion (GO:0046676)|neuropeptide signaling pathway (GO:0007218)|positive regulation of blood pressure (GO:0045777)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of membrane depolarization (GO:0003254)|regulation of sensory perception of pain (GO:0051930)|response to drug (GO:0042493)|response to morphine (GO:0043278)|somatostatin secretion (GO:0070253)|spinal cord development (GO:0021510)|synaptic transmission (GO:0007268)|vasopressin secretion (GO:0030103)	axon terminus (GO:0043679)|dendrite (GO:0030425)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|perikaryon (GO:0043204)|vesicle (GO:0031982)	receptor binding (GO:0005102)			haematopoietic_and_lymphoid_tissue(1)|prostate(1)|urinary_tract(1)	3						GGCCACTGTGTGTCATGGCTC	0.632																																																0													48	44	46					12																	53899840		2203	4300	6503	SO:0001628	intergenic_variant	6895			AF005271	CCDS8862.1	12q13.13	2013-02-26			ENSG00000139574	ENSG00000139574		"Endogenous ligands"	7901	protein-coding gene	gene with protein product		604643				9224703	Standard	NM_003717		Approved	FMRFAL	uc001sdw.1	O15130	OTTHUMG00000169856		12.37:g.53899840T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q3SXL4	Missense_Mutation	SNP	ENST00000267017.3	37	CCDS8862.1	.	.	.	.	.	.	.	.	.	.	T	23.6	4.437352	0.83885	.	.	ENSG00000139546	ENST00000266987;ENST00000456234;ENST00000394357	D;D;D	0.82255	-1.59;-1.59;-1.59	5.15	5.15	0.70609	Double-stranded RNA-binding (2);	0.000000	0.85682	D	0.000000	D	0.91047	0.7183	M	0.83223	2.63	0.80722	D	1	D	0.65815	0.995	D	0.72982	0.979	D	0.92199	0.5766	10	0.66056	D	0.02	-6.1074	14.2562	0.66053	0.0:0.0:0.0:1.0	.	337	Q15633	TRBP2_HUMAN	R	337;316;316	ENSP00000266987:C337R;ENSP00000416077:C316R;ENSP00000377885:C316R	ENSP00000266987:C337R	C	+	1	0	TARBP2	52186107	1.000000	0.71417	1.000000	0.80357	0.957000	0.61999	4.900000	0.63252	2.075000	0.62263	0.402000	0.26972	TGT		0.632	NPFF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406301.1	NM_003717		C	53899840	T	C	53899840	1	2	618	0	1	0	0	0	0	0	0	0	15568	1696	59	3		3	TARBP2	12	53899840	IGR	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10	74826	53899840	79952055	67	37857										
FAM119B	25895	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	58166555	58166555	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	tctgagtcggaatcggtgttCccgcgggaggtcgggctctt	16	10	2	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr12:58166555C>T	ENST00000300209.8	+	1	173	c.48C>T	c.(46-48)ttC>ttT	p.F16F	METTL1_ENST00000257848.7_5'Flank|METTL1_ENST00000548681.1_5'Flank|METTL21B_ENST00000548256.1_Intron|RP11-571M6.15_ENST00000471530.1_5'Flank|METTL1_ENST00000324871.7_5'UTR|AC025165.1_ENST00000582738.1_RNA|METTL21B_ENST00000552307.1_3'UTR|METTL21B_ENST00000333012.5_Silent_p.F16F|METTL21B_ENST00000551420.1_Intron	NM_015433.2	NP_056248.2	Q96AZ1	MT21B_HUMAN	methyltransferase like 21B	16						cytoplasm (GO:0005737)|intracellular (GO:0005622)	methyltransferase activity (GO:0008168)			endometrium(1)|lung(1)	2						AATCGGTGTTCCCGCGGGAGG	0.647																																																0													37	36	36					12																	58166555		2202	4300	6502	SO:0001819	synonymous_variant	25895			AL050100, AF455816	CCDS8957.1, CCDS31848.1	12q14.1	2011-03-03	2011-03-03	2011-03-03	ENSG00000123427	ENSG00000123427			24936	protein-coding gene	gene with protein product		615258	"family with sequence similarity 119, member B"	FAM119B		12477932	Standard	NM_015433		Approved	DKFZP586D0919	uc001sqg.3	Q96AZ1	OTTHUMG00000170459	ENST00000300209.8:c.48C>T	12.37:g.58166555C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H749|Q9Y3W2	Silent	SNP	ENST00000300209.8	37	CCDS8957.1																																																																																				0.647	METTL21B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409268.1	NM_015433		T	58166555	C	T	58166555	2	4	618	1	0	0	0	0	0	0	0	1	5418	854	30	2		2	FAM119B	12	58166555	Silent	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	4266715	58166555	75685340	68	37858										
MON2	23041	bcgsc.ca	37	chr12	62931886	62931886	+	Frame_Shift_Del	DEL	G	G	-													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	aattttacagcatcttgtgtGgattctgggattaaagccta							TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr12:62931886delG	ENST00000393632.2	+	17	2520	c.2129delG	c.(2128-2130)tggfs	p.W710fs	MON2_ENST00000546600.1_Frame_Shift_Del_p.W710fs|MON2_ENST00000552115.1_Frame_Shift_Del_p.W710fs|MON2_ENST00000393630.3_Frame_Shift_Del_p.W710fs|MON2_ENST00000552738.1_Frame_Shift_Del_p.W687fs|MON2_ENST00000393629.2_Frame_Shift_Del_p.W710fs|MON2_ENST00000280379.6_Frame_Shift_Del_p.W710fs	NM_015026.2	NP_055841.2	Q7Z3U7	MON2_HUMAN	MON2 homolog (S. cerevisiae)	710					actin cytoskeleton organization (GO:0030036)|Golgi to endosome transport (GO:0006895)|positive regulation of GTPase activity (GO:0043547)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	extracellular vesicular exosome (GO:0070062)|trans-Golgi network (GO:0005802)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(5)|kidney(3)|large_intestine(15)|lung(21)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	57			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		CATCTTGTGTGGATTCTGGGA	0.353																																																0													43	49	47					12																	62931886		2202	4300	6502	SO:0001589	frameshift_variant	23041				CCDS31849.1, CCDS61175.1, CCDS61177.1, CCDS61178.1	12q14.1	2014-08-12	2006-04-04		ENSG00000061987	ENSG00000061987			29177	protein-coding gene	gene with protein product			"MON2 homolog (yeast)"			16301316, 24285343	Standard	NM_015026		Approved	KIAA1040	uc001sre.3	Q7Z3U7	OTTHUMG00000169992	ENST00000393632.2:c.2129delG	12.37:g.62931886delG	ENSP00000377252:p.Trp710fs	Somatic		WXS	Illumina HiSeq	Phase_1	A5D8U7|A7E2Y0|B9EGP5|F8VWA6|F8W1Z6|Q86TA2|Q8N3I5|Q8NAI0|Q8NHE2|Q9UPW1	Nonsense_Mutation	DEL	ENST00000393632.2	37	CCDS31849.1																																																																																				0.353	MON2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406767.3	NM_015026		-	62931886	G	-	62931886	7	5	618	1	0	1	0	1	0	0	0	0	9707	1357	47	0	2195	0	MON2	12	62931886	Frame_Shift_Del	DEL	G	TCGA-IZ-A6M8-01A-11D-A31X-10	4765331	62931886	70920009	69	37859										
ATP2B1	490	broad.mit.edu	37	chr12	90029004	90029004	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	tttcaccttcaccttcttccTccccaacagaaacttctcca	1	18	4	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr12:90029004T>C	ENST00000428670.3	-	4	887	c.431A>G	c.(430-432)gAg>gGg	p.E144G	ATP2B1_ENST00000348959.3_Missense_Mutation_p.E144G|ATP2B1_ENST00000359142.3_Missense_Mutation_p.E144G|ATP2B1_ENST00000261173.2_Missense_Mutation_p.E144G			P20020	AT2B1_HUMAN	ATPase, Ca++ transporting, plasma membrane 1	144					blood coagulation (GO:0007596)|ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)|transport (GO:0006810)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|calcium-transporting ATPase activity (GO:0005388)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(13)|lung(15)|ovary(2)|prostate(2)|skin(3)|urinary_tract(1)	45						ACCTTCTTCCTCCCCAACAGA	0.383																																																0													81	70	74					12																	90029004		2203	4300	6503	SO:0001583	missense	490			J04027	CCDS9035.1, CCDS41817.1	12q21.33	2010-04-20			ENSG00000070961	ENSG00000070961	3.6.3.8	"ATPases / P-type"	814	protein-coding gene	gene with protein product	"plasma membrane calcium-transporting ATPase 1"	108731				1674727	Standard	NM_001682		Approved	PMCA1	uc001tbh.3	P20020		ENST00000428670.3:c.431A>G	12.37:g.90029004T>C	ENSP00000392043:p.Glu144Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q12992|Q12993|Q13819|Q13820|Q13821|Q16504|Q93082	Missense_Mutation	SNP	ENST00000428670.3	37	CCDS9035.1	.	.	.	.	.	.	.	.	.	.	T	15.53	2.860274	0.51482	.	.	ENSG00000070961	ENST00000261173;ENST00000348959;ENST00000359142;ENST00000428670	D;D;D;D	0.88896	-2.44;-2.44;-2.44;-2.44	5.86	5.86	0.93980	.	0.000000	0.85682	D	0.000000	D	0.85965	0.5820	L	0.54323	1.7	0.51012	D	0.999905	B;B	0.12013	0.001;0.005	B;B	0.25506	0.003;0.061	T	0.80513	-0.1349	9	.	.	.	-19.9952	11.6181	0.51102	0.1327:0.0:0.0:0.8673	.	144;144	P20020-3;P20020-2	.;.	G	144	ENSP00000261173:E144G;ENSP00000343599:E144G;ENSP00000352054:E144G;ENSP00000392043:E144G	.	E	-	2	0	ATP2B1	88553135	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.227000	0.58612	2.367000	0.80283	0.528000	0.53228	GAG		0.383	ATP2B1-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406653.1	NM_001682		C	90029004	T	C	90029004	3	2	618	1	0	0	0	0	1	0	0	0	1139	1551	54	3	3461	3	ATP2B1	12	90029004	Missense_Mutation	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10	27097118	90029004	43822891	70	37860										
SBNO1	55206	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	123815855	123815855	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ctgctatcgtccttccttttCctacaccggcaccatcacct	4	18	1	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr12:123815855C>G	ENST00000602398.1	-	8	1104	c.977G>C	c.(976-978)gGa>gCa	p.G326A	SBNO1_ENST00000602750.1_Missense_Mutation_p.G325A|SBNO1_ENST00000267176.4_Missense_Mutation_p.G325A|SBNO1_ENST00000420886.2_Missense_Mutation_p.G326A			A3KN83	SBNO1_HUMAN	strawberry notch homolog 1 (Drosophila)	326					regulation of transcription, DNA-templated (GO:0006355)					NS(2)|breast(6)|cervix(2)|endometrium(8)|kidney(3)|large_intestine(11)|lung(18)|ovary(2)|pancreas(1)|prostate(3)|skin(4)|stomach(2)	62	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		CCTTCCTTTTCCTACACCGGC	0.408																																																0													152	138	143					12																	123815855		2203	4300	6503	SO:0001583	missense	55206			AK001563	CCDS9246.1, CCDS53844.1	12q24.31	2006-10-06	2006-10-06			ENSG00000139697			22973	protein-coding gene	gene with protein product		614274	"sno, strawberry notch homolog 1 (Drosophila)"				Standard	NM_018183		Approved	MOP3, FLJ10701, FLJ10833, Sno	uc010tap.2	A3KN83		ENST00000602398.1:c.977G>C	12.37:g.123815855C>G	ENSP00000473665:p.Gly326Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q05C06|Q3ZTS3|Q9H3T8|Q9NVB2	Missense_Mutation	SNP	ENST00000602398.1	37	CCDS53844.1	.	.	.	.	.	.	.	.	.	.	C	32	5.164386	0.94727	.	.	ENSG00000139697	ENST00000420886;ENST00000267176;ENST00000442601	D;D	0.99940	-8.38;-8.38	5.83	5.83	0.93111	Helicase/UvrB domain (1);	0.000000	0.85682	D	0.000000	D	0.99955	0.9981	H	0.96015	3.755	0.80722	D	1	D;D;D	0.89917	1.0;0.998;0.999	D;D;D	0.91635	0.999;0.993;0.998	D	0.96352	0.9259	10	0.87932	D	0	-27.8907	20.1218	0.97964	0.0:1.0:0.0:0.0	.	326;325;324	A3KN83;A3KN83-2;A3KN83-3	SBNO1_HUMAN;.;.	A	326;325;325	ENSP00000387361:G326A;ENSP00000267176:G325A	ENSP00000267176:G325A	G	-	2	0	SBNO1	122381808	1.000000	0.71417	0.958000	0.39756	0.998000	0.95712	7.794000	0.85869	2.763000	0.94921	0.561000	0.74099	GGA		0.408	SBNO1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000467684.1	NM_018183		G	123815855	C	G	123815855	3	3	618	1	0	0	0	0	1	0	0	0	13875	855	30	4	3304	4	SBNO1	12	123815855	Missense_Mutation	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	33786851	123815855	10036040	71	37861										
ZMYM5	9205	bcgsc.ca	37	chr13	20413049	20413049	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	aaattctgcttacgaagtaaGgccactggtgataaagaatc	9	7	1	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr13:20413049G>T	ENST00000337963.4	-	5	927	c.663C>A	c.(661-663)gcC>gcA	p.A221A	RP11-61K9.2_ENST00000422148.2_RNA|ZMYM5_ENST00000382907.4_Intron|ZMYM5_ENST00000382905.4_Silent_p.A221A	NM_001142684.1	NP_001136156.1	Q9UJ78	ZMYM5_HUMAN	zinc finger, MYM-type 5	221						nucleus (GO:0005634)	zinc ion binding (GO:0008270)			kidney(1)|large_intestine(5)|lung(9)	15		all_cancers(29;2.96e-22)|all_epithelial(30;3.76e-20)|all_lung(29;4.38e-20)|Lung NSC(5;5.8e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.61e-05)|Epithelial(112;4.89e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00171)|Lung(94;0.00942)|LUSC - Lung squamous cell carcinoma(192;0.0431)		TACGAAGTAAGGCCACTGGTG	0.403																																																0													159	162	161					13																	20413049		2203	4300	6503	SO:0001819	synonymous_variant	9205			AF161535	CCDS31942.1, CCDS31943.1	13q12	2013-01-08	2005-09-12	2005-09-12	ENSG00000132950	ENSG00000132950		"Zinc fingers, MYM type"	13029	protein-coding gene	gene with protein product			"zinc finger protein 237"	ZNF237			Standard	NM_001039650		Approved	ZNF198L1, MYM	uc010tcn.1	Q9UJ78	OTTHUMG00000016504	ENST00000337963.4:c.663C>A	13.37:g.20413049G>T		Somatic		WXS	Illumina HiSeq	Phase_1	B2R6V1|Q5T6E1|Q5T6E2|Q5T6E4|Q96IY6|Q9NZY5|Q9UBW0|Q9UJ77	Silent	SNP	ENST00000337963.4	37																																																																																					0.403	ZMYM5-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_014242		T	20413049	G	T	20413049	2	4	618	1	0	0	0	0	0	0	0	1	17715	987	35	4		4	ZMYM5	13	20413049	Silent	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10		20413049	94756829	72	37862										
NBEA	26960	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	35731352	35731352	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	tttgtatcatgcaataaaatAtgaatggggaggctggagag	13	3	1	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr13:35731352A>G	ENST00000400445.3	+	21	3323	c.2789A>G	c.(2788-2790)tAt>tGt	p.Y930C	NBEA_ENST00000540320.1_Missense_Mutation_p.Y930C|NBEA_ENST00000379939.2_Missense_Mutation_p.Y930C|NBEA_ENST00000310336.4_Missense_Mutation_p.Y930C	NM_015678.4	NP_056493.3	Q8NFP9	NBEA_HUMAN	neurobeachin	930					protein localization (GO:0008104)	cytosol (GO:0005829)|endomembrane system (GO:0012505)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)				NS(1)|breast(1)|endometrium(14)|kidney(4)|large_intestine(29)|lung(40)|ovary(9)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	108		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)		GCAATAAAATATGAATGGGGA	0.383																																																0													71	73	72					13																	35731352		1826	4083	5909	SO:0001583	missense	26960			AF467288	CCDS45026.1, CCDS55894.1	13q13	2014-09-17			ENSG00000172915	ENSG00000172915		"A-kinase anchor proteins", "WD repeat domain containing"	7648	protein-coding gene	gene with protein product		604889				10501977	Standard	NM_015678		Approved	KIAA1544, BCL8B, FLJ10197	uc021ric.1	Q8NFP9	OTTHUMG00000016724	ENST00000400445.3:c.2789A>G	13.37:g.35731352A>G	ENSP00000383295:p.Tyr930Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2H9|Q5T320|Q9HCM8|Q9NSU1|Q9NW98|Q9Y6J1	Missense_Mutation	SNP	ENST00000400445.3	37	CCDS45026.1	.	.	.	.	.	.	.	.	.	.	A	23.4	4.414824	0.83449	.	.	ENSG00000172915	ENST00000540320;ENST00000400445;ENST00000379939;ENST00000310336	T;T;T;T	0.67345	-0.26;-0.26;-0.26;-0.26	5.37	5.37	0.77165	.	0.069707	0.64402	D	0.000014	T	0.75280	0.3828	M	0.67953	2.075	0.80722	D	1	D	0.63046	0.992	P	0.54499	0.754	T	0.77827	-0.2443	10	0.54805	T	0.06	.	15.6702	0.77267	1.0:0.0:0.0:0.0	.	930	Q5T321	.	C	930	ENSP00000440951:Y930C;ENSP00000383295:Y930C;ENSP00000369271:Y930C;ENSP00000308534:Y930C	ENSP00000308534:Y930C	Y	+	2	0	NBEA	34629352	1.000000	0.71417	0.998000	0.56505	0.988000	0.76386	9.287000	0.95975	2.171000	0.68590	0.528000	0.53228	TAT		0.383	NBEA-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_015678		G	35731352	A	G	35731352	3	3	618	1	0	0	0	0	1	0	0	0	10194	449	16	3	2871	3	NBEA	13	35731352	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	15318303	35731352	79438526	73	37863										
SERPINE3	647174	broad.mit.edu	37	chr13	51922450	51922450	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	tgctgccccgtgacaaagacAcccccctgagccacatcgag	9	17	0	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr13:51922450A>C	ENST00000521255.1	+	4	862	c.802A>C	c.(802-804)Acc>Ccc	p.T268P	SERPINE3_ENST00000400389.4_Missense_Mutation_p.T268P|MIR5693_ENST00000577722.1_RNA|SERPINE3_ENST00000524365.1_Missense_Mutation_p.T268P	NM_001101320.1	NP_001094790.1	A8MV23	SERP3_HUMAN	serpin peptidase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 3	268					negative regulation of endopeptidase activity (GO:0010951)|regulation of proteolysis (GO:0030162)	extracellular space (GO:0005615)	serine-type endopeptidase inhibitor activity (GO:0004867)			ovary(2)	2						TGACAAAGACACCCCCCTGAG	0.612																																																0													61	80	74					13																	51922450		2118	4246	6364	SO:0001583	missense	647174			AX772926	CCDS53870.1	13q14.3	2014-02-18			ENSG00000253309	ENSG00000253309		"Serine (or cysteine) peptidase inhibitors"	24774	protein-coding gene	gene with protein product						24172014	Standard	NM_001101320		Approved		uc001vfh.2	A8MV23	OTTHUMG00000016943	ENST00000521255.1:c.802A>C	13.37:g.51922450A>C	ENSP00000428316:p.Thr268Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B1V8P3	Missense_Mutation	SNP	ENST00000521255.1	37	CCDS53870.1	.	.	.	.	.	.	.	.	.	.	A	13.09	2.134471	0.37630	.	.	ENSG00000253309	ENST00000524365;ENST00000521255;ENST00000400389	D;D;D	0.84516	-1.86;-1.86;-1.86	5.19	-5.14	0.02875	Serpin domain (3);	0.090377	0.42964	U	0.000633	D	0.89767	0.6810	M	0.85197	2.74	0.09310	N	1	B;D	0.63046	0.18;0.992	B;D	0.63793	0.067;0.918	D	0.85624	0.1266	10	0.59425	D	0.04	.	12.8081	0.57626	0.492:0.0:0.508:0.0	.	268;268	A8MV23-2;A8MV23	.;SERP3_HUMAN	P	268	ENSP00000430755:T268P;ENSP00000428316:T268P;ENSP00000441468:T268P	ENSP00000441468:T268P	T	+	1	0	SERPINE3	50820451	0.393000	0.25237	0.000000	0.03702	0.099000	0.18886	2.777000	0.47717	-1.107000	0.03004	-0.242000	0.12053	ACC		0.612	SERPINE3-001	KNOWN	alternative_5_UTR|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000045021.2	NM_001101320		C	51922450	A	C	51922450	3	2	618	1	0	0	0	0	1	0	0	0	14126	159	6	5	816	5	SERPINE3	13	51922450	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	16191098	51922450	63247428	74	37864										
TPP2	7174	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	103271166	103271166	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	tcctggccctgtatatgactGcttggtatggcatgatggcg	13	9	0	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr13:103271166G>T	ENST00000376065.4	+	5	626	c.590G>T	c.(589-591)tGc>tTc	p.C197F	TPP2_ENST00000376052.3_Missense_Mutation_p.C197F	NM_003291.2	NP_003282.2	P29144	TPP2_HUMAN	tripeptidyl peptidase II	197	Peptidase S8.				antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|protein polyubiquitination (GO:0000209)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	aminopeptidase activity (GO:0004177)|endopeptidase activity (GO:0004175)|serine-type endopeptidase activity (GO:0004252)|tripeptidyl-peptidase activity (GO:0008240)			breast(2)|endometrium(5)|kidney(2)|large_intestine(12)|lung(21)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	52	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GTATATGACTGCTTGGTATGG	0.358																																																0													174	167	169					13																	103271166		2203	4300	6503	SO:0001583	missense	7174			M55169	CCDS9502.1	13q32-q33	2008-02-05			ENSG00000134900	ENSG00000134900	3.4.14.10		12016	protein-coding gene	gene with protein product		190470				1670990	Standard	NM_003291		Approved		uc001vpi.4	P29144	OTTHUMG00000017305	ENST00000376065.4:c.590G>T	13.37:g.103271166G>T	ENSP00000365233:p.Cys197Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VZU8	Missense_Mutation	SNP	ENST00000376065.4	37	CCDS9502.1	.	.	.	.	.	.	.	.	.	.	G	25.0	4.592962	0.86953	.	.	ENSG00000134900	ENST00000376065;ENST00000376052	.	.	.	5.69	5.69	0.88448	Peptidase S8/S53, subtilisin/kexin/sedolisin (2);	0.000000	0.85682	D	0.000000	D	0.84120	0.5402	M	0.83483	2.645	0.80722	D	1	D	0.76494	0.999	D	0.77557	0.99	D	0.85728	0.1329	9	0.87932	D	0	.	19.8131	0.96556	0.0:0.0:1.0:0.0	.	197	P29144	TPP2_HUMAN	F	197	.	ENSP00000365220:C197F	C	+	2	0	TPP2	102069167	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	9.476000	0.97823	2.682000	0.91365	0.585000	0.79938	TGC		0.358	TPP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045683.2			T	103271166	G	T	103271166	3	4	618	1	0	0	0	0	1	0	0	0	16424	1319	46	4	608	4	TPP2	13	103271166	Missense_Mutation	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	51348716	103271166	11898712	75	37865										
ABHD13	84945	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	108882148	108882149	+	Missense_Mutation	DNP	GG	GG	TT													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	tttctttttggccgttccttGggtggagcagtggctattca							TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr13:108882148_108882149GG>TT	ENST00000375898.3	+	2	883_884	c.582_583GG>TT	c.(580-585)ttGGgt>ttTTgt	p.194_195LG>FC		NM_032859.2	NP_116248.2	Q7L211	ABHDD_HUMAN	abhydrolase domain containing 13	194						integral component of membrane (GO:0016021)|membrane (GO:0016020)	hydrolase activity (GO:0016787)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(4)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	17	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					GCCGTTCCTTGGGTGGAGCAGT	0.406																																					Pancreas(22;506 789 38166 45896 51596)											0																																										SO:0001583	missense	84945			AK027812	CCDS32007.1	13q33.2	2007-04-03	2006-03-10	2006-03-10	ENSG00000139826	ENSG00000139826		"Abhydrolase domain containing"	20293	protein-coding gene	gene with protein product			"chromosome 13 open reading frame 6"	C13orf6			Standard	NM_032859		Approved	bA153I24.2, FLJ14906, BEM46L1	uc001vqq.3	Q7L211	OTTHUMG00000017330	Exception_encountered	13.37:g.108882148_108882149delinsTT	ENSP00000365063:p.L194_G195delinsFC	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWE7|Q8NBW1|Q96JX9	Missense_Mutation	DNP	ENST00000375898.3	37	CCDS32007.1																																																																																				0.406	ABHD13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045743.1	NM_032859		TT	108882149	GG	TT	108882148	3	4	618	1	0	0	0	0	1	0	0	0	78	1339	47	4	584	4	ABHD13	13	108882148	Missense_Mutation	DNP	GG	TCGA-IZ-A6M8-01A-11D-A31X-10	5610982	108882148	6287730	76	37866										
TTC5	91875	broad.mit.edu;ucsc.edu	37	chr14	20774052	20774052	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	atctacggccccacctgcaaTttctgcaagatcggcttgac	8	14	2	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr14:20774052T>C	ENST00000258821.3	-	1	101	c.45A>G	c.(43-45)aaA>aaG	p.K15K	CTD-2292M16.7_ENST00000553419.1_RNA	NM_138376.2	NP_612385.2	Q8N0Z6	TTC5_HUMAN	tetratricopeptide repeat domain 5	15					DNA repair (GO:0006281)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			endometrium(1)|kidney(2)|large_intestine(3)|lung(7)|ovary(1)|prostate(1)	15	all_cancers(95;0.00092)		Epithelial(56;1.1e-06)|all cancers(55;8.07e-06)	GBM - Glioblastoma multiforme(265;0.0106)		CCACCTGCAATTTCTGCAAGA	0.502											OREG0022552	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													135	118	124					14																	20774052		2203	4300	6503	SO:0001819	synonymous_variant	91875			BC008647	CCDS9546.1	14q11.2	2013-01-11			ENSG00000136319	ENSG00000136319		"Tetratricopeptide (TTC) repeat domain containing"	19274	protein-coding gene	gene with protein product						11511361	Standard	NM_138376		Approved	Strap	uc001vwt.3	Q8N0Z6	OTTHUMG00000029506	ENST00000258821.3:c.45A>G	14.37:g.20774052T>C		Somatic	743	WXS	Illumina HiSeq	Phase_I	A8MQ18|Q96HF9	Silent	SNP	ENST00000258821.3	37	CCDS9546.1	.	.	.	.	.	.	.	.	.	.	T	16.42	3.117697	0.56505	.	.	ENSG00000136319	ENST00000423949	.	.	.	4.95	3.72	0.42706	.	.	.	.	.	T	0.57489	0.2057	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.54636	-0.8264	4	.	.	.	.	8.3016	0.32017	0.0:0.0:0.2007:0.7993	.	.	.	.	V	15	.	.	I	-	1	0	TTC5	19843892	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	1.381000	0.34362	2.201000	0.70794	0.533000	0.62120	ATT		0.502	TTC5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000073529.4	NM_138376		C	20774052	T	C	20774052	2	2	618	1	0	0	0	0	0	0	0	1	16723	1490	52	3		3	TTC5	14	20774052	Silent	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10		20774052	86575488	77	37867										
SNX6	58533	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	35062293	35062293	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	atcagatttagcagatgcatCcttaactcggttatgatact	7	8	1	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr14:35062293C>A	ENST00000362031.4	-	8	742	c.712G>T	c.(712-714)Gat>Tat	p.D238Y	SNX6_ENST00000355110.5_Missense_Mutation_p.D114Y|SNX6_ENST00000396534.3_Missense_Mutation_p.D110Y|SNX6_ENST00000396526.3_Missense_Mutation_p.D110Y	NM_152233.2	NP_689419.2	Q9UNH7	SNX6_HUMAN	sorting nexin 6	226					intracellular protein transport (GO:0006886)|negative regulation of epidermal growth factor-activated receptor activity (GO:0007175)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|retrograde transport, endosome to Golgi (GO:0042147)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|early endosome membrane (GO:0031901)|intracellular (GO:0005622)|nucleus (GO:0005634)	phosphatidylinositol binding (GO:0035091)|protein homodimerization activity (GO:0042803)			endometrium(4)|lung(1)|ovary(1)	6	Breast(36;0.0473)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00199)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.0245)		GCAGATGCATCCTTAACTCGG	0.299																																																0													75	74	74					14																	35062293		2202	4298	6500	SO:0001583	missense	58533			AF121856	CCDS9648.1, CCDS41942.1	14q13	2010-08-05			ENSG00000129515	ENSG00000129515		"Sorting nexins"	14970	protein-coding gene	gene with protein product		606098				11279102	Standard	XM_006720224		Approved		uc001wsf.1	Q9UNH7	OTTHUMG00000140213	ENST00000362031.4:c.712G>T	14.37:g.35062293C>A	ENSP00000355217:p.Asp238Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	C0H5W9|Q9Y449	Missense_Mutation	SNP	ENST00000362031.4	37	CCDS41942.1	.	.	.	.	.	.	.	.	.	.	C	22.9	4.345615	0.82022	.	.	ENSG00000129515	ENST00000396526;ENST00000396534;ENST00000362031;ENST00000355110;ENST00000557265	T;T;T;T;T	0.54071	1.5;1.5;1.5;1.5;0.59	4.69	4.69	0.59074	Vps5 C-terminal (1);	0.000000	0.85682	D	0.000000	T	0.75317	0.3833	M	0.82630	2.6	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.998	T	0.80360	-0.1415	10	0.87932	D	0	-17.283	17.6053	0.88036	0.0:1.0:0.0:0.0	.	114;226	B4DJS7;Q9UNH7	.;SNX6_HUMAN	Y	110;110;238;114;201	ENSP00000379779:D110Y;ENSP00000379785:D110Y;ENSP00000355217:D238Y;ENSP00000347230:D114Y;ENSP00000452577:D201Y	ENSP00000347230:D114Y	D	-	1	0	SNX6	34132044	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.993000	0.76245	2.340000	0.79590	0.561000	0.74099	GAT		0.299	SNX6-002	KNOWN	downstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276642.3			A	35062293	C	A	35062293	3	1	618	1	0	0	0	0	1	0	0	0	14919	855	30	4	572	4	SNX6	14	35062293	Missense_Mutation	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	14288241	35062293	72287247	78	37868										
LTBP2	4053	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	75019017	75019017	+	Silent	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ataggcaggtggcagaacttCccggtggagttggcggggca	18	8	0	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr14:75019017C>G	ENST00000261978.4	-	6	1658	c.1272G>C	c.(1270-1272)ggG>ggC	p.G424G	LTBP2_ENST00000556690.1_Silent_p.G424G|LTBP2_ENST00000557425.1_Intron|CTD-2207P18.1_ENST00000554552.1_lincRNA	NM_000428.2	NP_000419.1	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding protein 2	424	EGF-like 2. {ECO:0000255|PROSITE- ProRule:PRU00076}.				protein secretion (GO:0009306)|protein targeting (GO:0006605)|transforming growth factor beta receptor signaling pathway (GO:0007179)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|heparin binding (GO:0008201)			breast(3)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(9)|liver(1)|lung(29)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	58				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		GGCAGAACTTCCCGGTGGAGT	0.652																																																0													39	41	40					14																	75019017		2203	4300	6503	SO:0001819	synonymous_variant	4053				CCDS9831.1	14q24.3	2011-10-20	2001-12-04			ENSG00000119681		"Latent transforming growth factor, beta binding proteins"	6715	protein-coding gene	gene with protein product		602091	"chromosome 14 open reading frame 141"	LTBP3, C14orf141		7798248	Standard	NM_000428		Approved		uc001xqa.3	Q14767		ENST00000261978.4:c.1272G>C	14.37:g.75019017C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q99907|Q9NS51	Silent	SNP	ENST00000261978.4	37	CCDS9831.1																																																																																				0.652	LTBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413595.1	NM_000428		G	75019017	C	G	75019017	2	3	618	1	0	0	0	0	0	0	0	1	9081	842	30	4		4	LTBP2	14	75019017	Silent	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	39956724	75019017	32330523	79	37869										
C14orf4	64207	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	77492877	77492877	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	agcccgtggggtactcaatgAacagcttcaattcgtagtcc	10	11	2	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr14:77492877A>G	ENST00000238647.3	-	1	2157	c.1259T>C	c.(1258-1260)tTc>tCc	p.F420S		NM_024496.3	NP_078772.1	Q9H1B7	I2BPL_HUMAN	interferon regulatory factor 2 binding protein-like	420					development of secondary female sexual characteristics (GO:0046543)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	extracellular space (GO:0005615)|nucleus (GO:0005634)	metal ion binding (GO:0046872)			endometrium(2)|kidney(1)|lung(3)|ovary(1)|prostate(1)|skin(1)|urinary_tract(2)	11						GTACTCAATGAACAGCTTCAA	0.592																																																0													46	39	42					14																	77492877		2203	4300	6503	SO:0001583	missense	64207			AJ277365	CCDS9854.1	14q24.3	2011-02-23	2011-02-23	2011-02-23	ENSG00000119669	ENSG00000119669			14282	protein-coding gene	gene with protein product	"enhanced at puberty 1"	611720	"chromosome 14 open reading frame 4"	C14orf4		11095982, 17627301	Standard	NM_024496		Approved	EAP1, KIAA1865	uc001xsy.4	Q9H1B7		ENST00000238647.3:c.1259T>C	14.37:g.77492877A>G	ENSP00000238647:p.Phe420Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NDQ2|Q96JG2|Q9H3I7	Missense_Mutation	SNP	ENST00000238647.3	37	CCDS9854.1	.	.	.	.	.	.	.	.	.	.	A	28.5	4.924484	0.92319	.	.	ENSG00000119669	ENST00000238647	T	0.17691	2.26	3.92	3.92	0.45320	.	0.000000	0.64402	U	0.000002	T	0.30916	0.0780	L	0.52573	1.65	0.53005	D	0.99996	D	0.71674	0.998	P	0.61874	0.895	T	0.03840	-1.0999	10	0.72032	D	0.01	0.109	11.7465	0.51823	1.0:0.0:0.0:0.0	.	420	Q9H1B7	I2BPL_HUMAN	S	420	ENSP00000238647:F420S	ENSP00000238647:F420S	F	-	2	0	IRF2BPL	76562630	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	8.290000	0.89925	1.638000	0.50547	0.379000	0.24179	TTC		0.592	IRF2BPL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414298.1	NM_024496		G	77492877	A	G	77492877	3	3	618	1	0	0	0	0	1	0	0	0	1775	246	9	3	1135	3	C14orf4	14	77492877	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	2473860	77492877	29856663	80	37870										
TJP1	7082	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	30019082	30019082	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ggacataacctcattctcatTgtttttactccttgcttaga	5	10	2	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr15:30019082T>G	ENST00000346128.6	-	17	2688	c.2214A>C	c.(2212-2214)acA>acC	p.T738T	TJP1_ENST00000400011.2_Silent_p.T742T|RP11-680F8.4_ENST00000560740.1_RNA|TJP1_ENST00000545208.2_Silent_p.T738T|TJP1_ENST00000356107.6_Silent_p.T738T	NM_003257.3|NM_175610.2	NP_003248.3|NP_783297.2	Q07157	ZO1_HUMAN	tight junction protein 1	738	Guanylate kinase-like. {ECO:0000255|PROSITE-ProRule:PRU00100}.				apoptotic process (GO:0006915)|blastocyst formation (GO:0001825)|cell-cell junction assembly (GO:0007043)|cell-cell signaling involved in cell-cell junction organization (GO:1901350)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular response to glucose stimulus (GO:0071333)|hippo signaling (GO:0035329)|membrane organization (GO:0061024)|negative regulation of vascular permeability (GO:0043116)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to lipopolysaccharide (GO:0032496)|response to magnetism (GO:0071000)|sensory perception of sound (GO:0007605)	apical junction complex (GO:0043296)|apical part of cell (GO:0045177)|apical plasma membrane (GO:0016324)|apicolateral plasma membrane (GO:0016327)|basolateral plasma membrane (GO:0016323)|cell junction (GO:0030054)|cell-cell adherens junction (GO:0005913)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|gap junction (GO:0005921)|intercalated disc (GO:0014704)|intercellular canaliculus (GO:0046581)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|tight junction (GO:0005923)				breast(4)|central_nervous_system(2)|endometrium(8)|kidney(3)|large_intestine(12)|liver(1)|lung(29)|ovary(4)|pancreas(1)|prostate(3)|urinary_tract(1)	68		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)		TCATTCTCATTGTTTTTACTC	0.363																																					Melanoma(77;681 1843 6309 6570)											0													161	147	151					15																	30019082		1861	4096	5957	SO:0001819	synonymous_variant	7082				CCDS42007.1, CCDS45199.1, CCDS73702.1	15q13	2012-07-12	2012-07-12		ENSG00000104067	ENSG00000104067			11827	protein-coding gene	gene with protein product	"zona occludens 1", "tight junction protein ZO-1"	601009				8825647	Standard	XM_005254616		Approved	ZO-1, MGC133289, DKFZp686M05161	uc001zcr.3	Q07157	OTTHUMG00000137397	ENST00000346128.6:c.2214A>C	15.37:g.30019082T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4E3K1|Q2NKP3|Q4ZGJ6	Silent	SNP	ENST00000346128.6	37	CCDS42007.1																																																																																				0.363	TJP1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000268237.3	NM_003257		G	30019082	T	G	30019082	2	3	618	1	0	0	0	0	0	0	0	1	15941	1799	63	5		5	TJP1	15	30019082	Silent	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10		30019082	72512310	81	37871										
TP53BP1	7158	ucsc.edu;bcgsc.ca	37	chr15	43748739	43748739	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	aggtgcaacggaacactctcCatattttcttctttgagttc	7	10	3	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr15:43748739C>T	ENST00000263801.3	-	12	2304	c.2052G>A	c.(2050-2052)atG>atA	p.M684I	TP53BP1_ENST00000382044.4_Missense_Mutation_p.M689I|TP53BP1_ENST00000450115.2_Missense_Mutation_p.M689I|TP53BP1_ENST00000382039.3_Missense_Mutation_p.M689I|TP53BP1_ENST00000605155.1_5'Flank	NM_005657.2	NP_005648.1	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1	684					cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|kinetochore (GO:0000776)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|replication fork (GO:0005657)	damaged DNA binding (GO:0003684)|methylated histone binding (GO:0035064)|p53 binding (GO:0002039)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II transcription cofactor activity (GO:0001104)|telomeric DNA binding (GO:0042162)			breast(4)|endometrium(5)|kidney(7)|large_intestine(22)|lung(13)|ovary(4)|pancreas(2)|prostate(1)|skin(10)|upper_aerodigestive_tract(1)|urinary_tract(3)	72		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		GAACACTCTCCATATTTTCTT	0.453								Other conserved DNA damage response genes																																								0													103	107	106					15																	43748739		2201	4298	6499	SO:0001583	missense	7158			U09477	CCDS10096.1, CCDS45250.1, CCDS45251.1	15q15-q21	2007-08-02	2007-08-02		ENSG00000067369	ENSG00000067369			11999	protein-coding gene	gene with protein product		605230	"tumor protein p53-binding protein, 1"			8016121, 9748285	Standard	NM_005657		Approved	53BP1, p202	uc001zrr.4	Q12888	OTTHUMG00000059757	ENST00000263801.3:c.2052G>A	15.37:g.43748739C>T	ENSP00000263801:p.Met684Ile	Somatic		WXS	Illumina HiSeq		F8VY86|Q2M1Z7|Q4LE46|Q5FWZ3|Q7Z3U4	Missense_Mutation	SNP	ENST00000263801.3	37	CCDS10096.1	.	.	.	.	.	.	.	.	.	.	C	4.757	0.140854	0.09083	.	.	ENSG00000067369	ENST00000263801;ENST00000382044;ENST00000382039;ENST00000450115;ENST00000413546	T;T;T;T;T	0.54071	0.59;0.59;0.59;0.59;0.59	4.94	4.02	0.46733	.	0.617223	0.16860	N	0.196566	T	0.34890	0.0913	N	0.19112	0.55	0.09310	N	1	B;B;B;B	0.02656	0.0;0.0;0.0;0.0	B;B;B;B	0.01281	0.0;0.0;0.0;0.0	T	0.17077	-1.0381	10	0.35671	T	0.21	-1.1578	8.3535	0.32316	0.0:0.7608:0.1558:0.0834	.	689;684;689;689	B7Z3E7;Q12888;Q12888-2;F8VY86	.;TP53B_HUMAN;.;.	I	684;689;689;689;689	ENSP00000263801:M684I;ENSP00000371475:M689I;ENSP00000371470:M689I;ENSP00000393497:M689I;ENSP00000388028:M689I	ENSP00000263801:M684I	M	-	3	0	TP53BP1	41536031	0.024000	0.19004	0.838000	0.33150	0.330000	0.28571	1.028000	0.30128	1.203000	0.43233	0.563000	0.77884	ATG		0.453	TP53BP1-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000132897.3			T	43748739	C	T	43748739	3	4	618	1	0	0	0	0	1	0	0	0	16395	594	21	2	3934	2	TP53BP1	15	43748739	Missense_Mutation	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	13729657	43748739	58782653	82	37872										
HMG20A	10363	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	77750833	77750833	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gagagtaatgatctggctacCactgggtaagcagctgcttt	12	8	1	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr15:77750833C>G	ENST00000381714.3	+	3	512	c.84C>G	c.(82-84)acC>acG	p.T28T	HMG20A_ENST00000336216.4_Silent_p.T28T	NM_018200.2	NP_060670.1	Q9NP66	HM20A_HUMAN	high mobility group 20A	28					chromatin modification (GO:0016568)|chromatin organization (GO:0006325)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(4)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	18						ATCTGGCTACCACTGGGTAAG	0.453																																																0													92	88	89					15																	77750833		2196	4294	6490	SO:0001819	synonymous_variant	10363			AF146222	CCDS10295.1	15q24	2011-07-01	2011-04-05		ENSG00000140382	ENSG00000140382		"High mobility group / Non-canonical"	5001	protein-coding gene	gene with protein product	"HMG box domain containing 1"	605534	"high-mobility group 20A"			10773667	Standard	NM_018200		Approved	HMGX1, FLJ10739, HMGXB1	uc002bcr.3	Q9NP66	OTTHUMG00000143729	ENST00000381714.3:c.84C>G	15.37:g.77750833C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NHY3|D3DW78|Q53G31|Q9NSF6	Silent	SNP	ENST00000381714.3	37	CCDS10295.1																																																																																				0.453	HMG20A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419512.2	NM_018200		G	77750833	C	G	77750833	2	3	618	1	0	0	0	0	0	0	0	1	7228	581	21	4		4	HMG20A	15	77750833	Silent	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	34002094	77750833	24780559	83	37873										
IREB2	3658	broad.mit.edu	37	chr15	78758793	78758793	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	tcttcgcagattgagaatacAcccatcctgtgtccttttca	6	12	2	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr15:78758793A>T	ENST00000258886.8	+	5	740	c.591A>T	c.(589-591)acA>acT	p.T197T	IREB2_ENST00000560440.1_Silent_p.T197T|IREB2_ENST00000559427.1_3'UTR	NM_004136.2	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	197					aging (GO:0007568)|cellular iron ion homeostasis (GO:0006879)|cellular response to hypoxia (GO:0071456)|erythrocyte homeostasis (GO:0034101)|intestinal absorption (GO:0050892)|iron ion transport (GO:0006826)|osteoclast differentiation (GO:0030316)|post-embryonic development (GO:0009791)|protoporphyrinogen IX biosynthetic process (GO:0006782)|response to iron(II) ion (GO:0010040)|response to retinoic acid (GO:0032526)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|mitochondrion (GO:0005739)	4 iron, 4 sulfur cluster binding (GO:0051539)|iron-responsive element binding (GO:0030350)|metal ion binding (GO:0046872)|RNA binding (GO:0003723)|translation repressor activity (GO:0030371)			central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(8)|liver(1)|lung(14)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	41				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		TTGAGAATACACCCATCCTGT	0.413																																					NSCLC(200;764 2208 35157 49871 50830)											0													129	125	126					15																	78758793		2196	4293	6489	SO:0001819	synonymous_variant	3658			M58511	CCDS10302.1	15q25.1	2013-09-20			ENSG00000136381	ENSG00000136381			6115	protein-coding gene	gene with protein product		147582				2172968	Standard	NM_004136		Approved	IRP2	uc002bdr.2	P48200	OTTHUMG00000143861	ENST00000258886.8:c.591A>T	15.37:g.78758793A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8KAC7|E1CJT9|H0YKU0|Q13095|Q1HE21|Q59FQ7|Q8WVK6|Q9UF17	Silent	SNP	ENST00000258886.8	37	CCDS10302.1																																																																																				0.413	IREB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000290109.3	NM_004136		T	78758793	A	T	78758793	2	4	618	1	0	0	0	0	0	0	0	1	7833	146	6	5		5	IREB2	15	78758793	Silent	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	1007960	78758793	23772599	84	37874										
MEFV	4210	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	3304171	3304171	+	Frame_Shift_Del	DEL	T	T	-													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	aatttaccggtgaccgaatgTtctggatttccagggccttc							TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr16:3304171delT	ENST00000219596.1	-	2	936	c.897delA	c.(895-897)gaafs	p.E299fs	MEFV_ENST00000536379.1_Intron|MEFV_ENST00000541159.1_Intron|MEFV_ENST00000339854.4_Intron	NM_000243.2	NP_000234.1	O15553	MEFV_HUMAN	Mediterranean fever	299					inflammatory response (GO:0006954)|innate immune response (GO:0045087)|negative regulation of inflammatory response (GO:0050728)|negative regulation of interleukin-1 beta production (GO:0032691)|negative regulation of interleukin-12 production (GO:0032695)|negative regulation of macrophage inflammatory protein 1 alpha production (GO:0071641)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|positive regulation of cysteine-type endopeptidase activity (GO:2001056)	cell projection (GO:0042995)|cytosol (GO:0005829)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|nucleus (GO:0005634)	actin binding (GO:0003779)|zinc ion binding (GO:0008270)			NS(2)|biliary_tract(1)|breast(5)|central_nervous_system(2)|endometrium(2)|kidney(3)|large_intestine(6)|lung(19)|ovary(3)|prostate(1)|skin(6)	50						tgacCGAATGTTCTGGATTTC	0.562																																																0													53	56	55					16																	3304171		2197	4300	6497	SO:0001589	frameshift_variant	4210			AF018080	CCDS10498.1, CCDS55981.1	16p13.3	2014-09-17			ENSG00000103313	ENSG00000103313		"Tripartite motif containing / Tripartite motif containing"	6998	protein-coding gene	gene with protein product	"pyrin"	608107		MEF		9288094	Standard	NM_000243		Approved	FMF, TRIM20	uc002cun.1	O15553	OTTHUMG00000129324	ENST00000219596.1:c.897delA	16.37:g.3304171delT	ENSP00000219596:p.Glu299fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUC0|F5H0Q3|Q3MJ84|Q96PN4|Q96PN5	Frame_Shift_Del	DEL	ENST00000219596.1	37	CCDS10498.1																																																																																				0.562	MEFV-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251464.1	NM_000243		-	3304171	T	-	3304171	7	5	618	1	0	1	0	1	0	0	0	0	9466	1722	60	0	1484	0	MEFV	16	3304171	Frame_Shift_Del	DEL	T	TCGA-IZ-A6M8-01A-11D-A31X-10		3304171	87050582	85	37875										
APOB48R	55911	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	28509637	28509637	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	tctgaggcatgatgggacccCggtgccagccaggagaaggc	16	11	1	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr16:28509637C>G	ENST00000431282.1	+	4	3174	c.3164C>G	c.(3163-3165)cCg>cGg	p.P1055R	APOBR_ENST00000564831.1_Missense_Mutation_p.P1064R|CLN3_ENST00000569430.1_5'Flank|CLN3_ENST00000567160.1_5'Flank|APOBR_ENST00000328423.5_Intron			Q0VD83	APOBR_HUMAN	apolipoprotein B receptor	1055					cholesterol metabolic process (GO:0008203)|lipid transport (GO:0006869)|triglyceride metabolic process (GO:0006641)	chylomicron (GO:0042627)|low-density lipoprotein particle (GO:0034362)|membrane (GO:0016020)|plasma membrane (GO:0005886)|very-low-density lipoprotein particle (GO:0034361)	very-low-density lipoprotein particle receptor activity (GO:0030229)			breast(1)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(11)|prostate(1)|skin(2)|stomach(1)	29						GATGGGACCCCGGTGCCAGCC	0.672																																																0													16	21	19					16																	28509637		1941	4148	6089	SO:0001583	missense	55911			AK025123	CCDS58442.1	16p11.2	2011-02-14			ENSG00000184730	ENSG00000184730			24087	protein-coding gene	gene with protein product	"apolipoprotein B48 receptor", "apolipoprotein B100 receptor"	605220				10852956	Standard	NM_018690		Approved	APOB48R, APOB100R	uc002dqb.2	Q0VD83		ENST00000431282.1:c.3164C>G	16.37:g.28509637C>G	ENSP00000416094:p.Pro1055Arg	Somatic		WXS	Illumina HiSeq	Phase_I	H3BU97|Q0VD81|Q8NC15|Q9NPJ9	Missense_Mutation	SNP	ENST00000431282.1	37		.	.	.	.	.	.	.	.	.	.	C	13.49	2.251925	0.39797	.	.	ENSG00000184730	ENST00000431282	T	0.61742	0.08	4.84	4.84	0.62591	.	.	.	.	.	T	0.62962	0.2471	L	0.34521	1.04	0.34997	D	0.755616	D;D	0.71674	0.998;0.998	D;D	0.64687	0.928;0.928	T	0.69026	-0.5254	8	.	.	.	-4.4525	13.4548	0.61193	0.0:1.0:0.0:0.0	.	1055;1055	Q0VD83;Q9NS13	APOBR_HUMAN;.	R	1055	ENSP00000416094:P1055R	.	P	+	2	0	APOBR	28417138	0.950000	0.32346	0.996000	0.52242	0.736000	0.42039	2.535000	0.45685	2.236000	0.73375	0.457000	0.33378	CCG		0.672	APOBR-202	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_182804		G	28509637	C	G	28509637	3	3	618	1	0	0	0	0	1	0	0	0	786	652	23	4	3178	4	APOB48R	16	28509637	Missense_Mutation	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	25205466	28509637	61845116	86	37876										
SF3B3	23450	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	70605581	70605581	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ttctccatatcttagaatgtGattgatggagacctctgtga	9	7	3	5			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr16:70605581G>A	ENST00000302516.5	+	26	3730	c.3519G>A	c.(3517-3519)gtG>gtA	p.V1173V		NM_012426.4	NP_036558.3	Q15393	SF3B3_HUMAN	splicing factor 3b, subunit 3, 130kDa	1173					gene expression (GO:0010467)|mRNA processing (GO:0006397)|mRNA splicing, via spliceosome (GO:0000398)|protein complex assembly (GO:0006461)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)	catalytic step 2 spliceosome (GO:0071013)|nucleoplasm (GO:0005654)|small nuclear ribonucleoprotein complex (GO:0030532)|spliceosomal complex (GO:0005681)|U12-type spliceosomal complex (GO:0005689)	nucleic acid binding (GO:0003676)			breast(2)|endometrium(8)|kidney(2)|large_intestine(8)|liver(3)|lung(21)|ovary(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	53		Ovarian(137;0.0694)				CTTAGAATGTGATTGATGGAG	0.428																																																0													51	48	49					16																	70605581		2198	4300	6498	SO:0001819	synonymous_variant	23450			AJ001443	CCDS10894.1	16q22	2008-08-01	2002-08-29		ENSG00000189091	ENSG00000189091			10770	protein-coding gene	gene with protein product		605592	"splicing factor 3b, subunit 3, 130kD"			10490618	Standard	NM_012426		Approved	SAP130, SF3b130, RSE1, KIAA0017	uc002ezf.3	Q15393	OTTHUMG00000137582	ENST00000302516.5:c.3519G>A	16.37:g.70605581G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6NTI8|Q96GC0|Q9BPY2|Q9UFX7|Q9UJ29	Silent	SNP	ENST00000302516.5	37	CCDS10894.1																																																																																				0.428	SF3B3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268972.1	NM_012426		A	70605581	G	A	70605581	2	1	618	1	0	0	0	0	0	0	0	1	14165	1277	45	2		2	SF3B3	16	70605581	Silent	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	42095944	70605581	19749172	87	37877										
TRPV3	162514	broad.mit.edu	37	chr17	3438998	3438998	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gctcgatggcgatgttcagcGccgtctgccctgcggagcgg	16	13	2	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr17:3438998G>T	ENST00000576742.1	-	7	974	c.653C>A	c.(652-654)gCg>gAg	p.A218E	TRPV3_ENST00000301365.4_Missense_Mutation_p.A218E|TRPV3_ENST00000572519.1_Missense_Mutation_p.A218E	NM_001258205.1|NM_145068.3	NP_001245134.1|NP_659505.1	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel, subfamily V, member 3	218					calcium ion transmembrane transport (GO:0070588)|ion transmembrane transport (GO:0034220)|negative regulation of hair cycle (GO:0042636)|positive regulation of calcium ion import (GO:0090280)|response to heat (GO:0009408)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium channel activity (GO:0005262)			breast(1)|endometrium(4)|kidney(1)|large_intestine(6)|lung(12)|ovary(5)|prostate(1)|skin(2)|stomach(1)|urinary_tract(2)	35					Menthol(DB00825)	GATGTTCAGCGCCGTCTGCCC	0.736																																																0													8	9	9					17																	3438998		2163	4231	6394	SO:0001583	missense	162514			AF514998	CCDS11029.1, CCDS58500.1	17p13.3	2013-01-10			ENSG00000167723	ENSG00000167723		"Voltage-gated ion channels / Transient receptor potential cation channels", "Ankyrin repeat domain containing"	18084	protein-coding gene	gene with protein product		607066				12016205, 12077606, 16382100	Standard	NM_001258205		Approved	VRL3	uc002fvr.3	Q8NET8	OTTHUMG00000090695	ENST00000576742.1:c.653C>A	17.37:g.3438998G>T	ENSP00000461518:p.Ala218Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NDW7|Q8NET9|Q8NFH2	Missense_Mutation	SNP	ENST00000576742.1	37	CCDS11029.1	.	.	.	.	.	.	.	.	.	.	G	36	5.688246	0.96784	.	.	ENSG00000167723	ENST00000381913;ENST00000301365;ENST00000430263	T	0.71341	-0.56	5.03	5.03	0.67393	Ankyrin repeat-containing domain (4);	0.000000	0.64402	D	0.000001	D	0.89491	0.6730	H	0.96111	3.77	0.80722	D	1	D;D;D;D;D;D;D	0.89917	0.998;0.999;0.997;0.999;1.0;1.0;0.997	D;D;D;D;D;D;P	0.91635	0.979;0.993;0.933;0.993;0.999;0.999;0.89	D	0.92506	0.6012	10	0.87932	D	0	-11.7793	18.2979	0.90153	0.0:0.0:1.0:0.0	.	202;202;218;202;218;218;218	E7EV24;B7ZKP9;Q2M3L1;B7ZKP6;Q8NET8-3;Q8NET8;Q8NET8-2	.;.;.;.;.;TRPV3_HUMAN;.	E	218;218;202	ENSP00000301365:A218E	ENSP00000301365:A218E	A	-	2	0	TRPV3	3385748	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	9.422000	0.97458	2.741000	0.93983	0.555000	0.69702	GCG		0.736	TRPV3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000207379.2	NM_145068		T	3438998	G	T	3438998	3	4	618	1	0	0	0	0	1	0	0	0	16609	1087	38	4	1767	4	TRPV3	17	3438998	Missense_Mutation	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10		3438998	77756212	88	37878										
C17orf39	79018	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	17962263	17962263	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	aagagctgaagaatggagacTacgtcttcatgaggtggaag	14	5	2	5			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr17:17962263T>A	ENST00000268719.4	+	4	861	c.688T>A	c.(688-690)Tac>Aac	p.Y230N		NM_024052.4	NP_076957.3	Q8IVV7	GID4_HUMAN	GID complex subunit 4	230																	GAATGGAGACTACGTCTTCAT	0.458																																																0													75	68	71					17																	17962263		2203	4300	6503	SO:0001583	missense	79018			AK127580	CCDS11190.1	17p11.2	2013-07-31	2013-07-31	2012-07-20	ENSG00000141034	ENSG00000141034			28453	protein-coding gene	gene with protein product	"vacuolar import and degradation 24"		"chromosome 17 open reading frame 39", "GID complex subunit 4, VID24 homolog (S. cerevisiae)"	C17orf39		11997338	Standard	NM_024052		Approved	VID24	uc002gsg.1	Q8IVV7	OTTHUMG00000059398	ENST00000268719.4:c.688T>A	17.37:g.17962263T>A	ENSP00000268719:p.Tyr230Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TEB5|Q9BW50	Missense_Mutation	SNP	ENST00000268719.4	37	CCDS11190.1	.	.	.	.	.	.	.	.	.	.	T	15.99	2.995621	0.54147	.	.	ENSG00000141034	ENST00000268719	.	.	.	5.8	5.8	0.92144	.	0.000000	0.85682	D	0.000000	T	0.55862	0.1947	L	0.48642	1.525	0.80722	D	1	B	0.24317	0.101	B	0.20184	0.028	T	0.51387	-0.8712	9	0.23302	T	0.38	-15.1166	16.1549	0.81657	0.0:0.0:0.0:1.0	.	230	Q8IVV7	CQ039_HUMAN	N	230	.	ENSP00000268719:Y230N	Y	+	1	0	C17orf39	17902988	1.000000	0.71417	1.000000	0.80357	0.943000	0.58893	7.797000	0.85911	2.209000	0.71365	0.533000	0.62120	TAC		0.458	GID4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132071.2	NM_024052		A	17962263	T	A	17962263	3	1	618	1	0	0	0	0	1	0	0	0	1857	1522	53	5	702	5	C17orf39	17	17962263	Missense_Mutation	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10	14523265	17962263	63232947	89	37879										
CORO6	84940	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	27948314	27948314	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	atggccaggaatttggggttGacggcacagaaggagctgtc	16	7	0	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr17:27948314G>A	ENST00000445145.2	-	1	127	c.126C>T	c.(124-126)gtC>gtT	p.V42V	CORO6_ENST00000580212.1_Silent_p.V42V|CORO6_ENST00000345068.5_Silent_p.V42V|RP11-68I3.10_ENST00000582367.1_RNA|RP11-68I3.2_ENST00000581474.1_RNA|CORO6_ENST00000577909.1_Intron|CORO6_ENST00000584969.1_Silent_p.V42V|CORO6_ENST00000388767.3_Silent_p.V42V			Q6QEF8	CORO6_HUMAN	coronin 6	42					actin cytoskeleton organization (GO:0030036)	actin cytoskeleton (GO:0015629)	actin filament binding (GO:0051015)			breast(1)|cervix(1)|endometrium(1)|large_intestine(4)|lung(4)|prostate(1)|urinary_tract(2)	14						ATTTGGGGTTGACGGCACAGA	0.592																																																0													75	80	78					17																	27948314		2187	4295	6482	SO:0001819	synonymous_variant	84940			AF193039	CCDS11252.2	17q11.2	2013-01-10			ENSG00000167549	ENSG00000167549		"Coronins", "WD repeat domain containing"	21356	protein-coding gene	gene with protein product							Standard	NM_032854		Approved	FLJ14871	uc002hel.2	Q6QEF8	OTTHUMG00000132732	ENST00000445145.2:c.126C>T	17.37:g.27948314G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KU26|Q71MF3|Q8WYH7|Q96K02	Silent	SNP	ENST00000445145.2	37																																																																																					0.592	CORO6-202	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000447831.1	NM_032854		A	27948314	G	A	27948314	2	1	618	1	0	0	0	0	0	0	0	1	3760	1277	45	2		2	CORO6	17	27948314	Silent	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	9986051	27948314	53246896	90	37880										
TOP2A	7153	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	38562843	38562844	+	Frame_Shift_Ins	INS	-	-	T													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ttcattacaaacctttgtaaINStatttgactttccatttttt							TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr17:38562843_38562844insT	ENST00000423485.1	-	15	1993_1994	c.1835_1836insA	c.(1834-1836)tatfs	p.Y612fs		NM_001067.3	NP_001058.2	P11388	TOP2A_HUMAN	topoisomerase (DNA) II alpha 170kDa	612					apoptotic chromosome condensation (GO:0030263)|ATP catabolic process (GO:0006200)|cellular response to DNA damage stimulus (GO:0006974)|chromosome segregation (GO:0007059)|DNA ligation (GO:0006266)|DNA topological change (GO:0006265)|DNA unwinding involved in DNA replication (GO:0006268)|embryonic cleavage (GO:0040016)|hematopoietic progenitor cell differentiation (GO:0002244)|mitotic cell cycle (GO:0000278)|mitotic DNA integrity checkpoint (GO:0044774)|mitotic recombination (GO:0006312)|positive regulation of apoptotic process (GO:0043065)|positive regulation of single stranded viral RNA replication via double stranded DNA intermediate (GO:0045870)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of viral genome replication (GO:0045070)|resolution of meiotic recombination intermediates (GO:0000712)|sister chromatid segregation (GO:0000819)	condensed chromosome (GO:0000793)|cytoplasm (GO:0005737)|DNA topoisomerase complex (ATP-hydrolyzing) (GO:0009330)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|protein complex (GO:0043234)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|DNA binding, bending (GO:0008301)|DNA topoisomerase type II (ATP-hydrolyzing) activity (GO:0003918)|DNA-dependent ATPase activity (GO:0008094)|drug binding (GO:0008144)|enzyme binding (GO:0019899)|histone deacetylase binding (GO:0042826)|magnesium ion binding (GO:0000287)|poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|protein kinase C binding (GO:0005080)|ubiquitin binding (GO:0043130)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(8)|lung(9)|ovary(5)|pancreas(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)	39		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00183)		Amsacrine(DB00276)|Ciprofloxacin(DB00537)|Dactinomycin(DB00970)|Daunorubicin(DB00694)|Dexrazoxane(DB00380)|Doxorubicin(DB00997)|Enoxacin(DB00467)|Epirubicin(DB00445)|Etoposide(DB00773)|Fleroxacin(DB04576)|Idarubicin(DB01177)|Levofloxacin(DB01137)|Lomefloxacin(DB00978)|Lucanthone(DB04967)|Mitoxantrone(DB01204)|Moxifloxacin(DB00218)|Norfloxacin(DB01059)|Ofloxacin(DB01165)|Pefloxacin(DB00487)|Podofilox(DB01179)|Sparfloxacin(DB01208)|Teniposide(DB00444)|Trovafloxacin(DB00685)|Valrubicin(DB00385)	AACCTTTGTAATATTTGACTTT	0.317																																																0																																										SO:0001589	frameshift_variant	7153				CCDS45672.1	17q21-q22	2008-08-06	2002-08-29		ENSG00000131747	ENSG00000131747	5.99.1.2		11989	protein-coding gene	gene with protein product		126430	"topoisomerase (DNA) II alpha (170kD)"	TOP2			Standard	NM_001067		Approved		uc002huq.3	P11388	OTTHUMG00000155008	ENST00000423485.1:c.1836dupA	17.37:g.38562844_38562844dupT	ENSP00000411532:p.Tyr612fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTS1|Q71UN1|Q71UQ5|Q9HB24|Q9HB25|Q9HB26|Q9UP44|Q9UQP9	Nonsense_Mutation	INS	ENST00000423485.1	37	CCDS45672.1																																																																																				0.317	TOP2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338035.1			T	38562844	-	T	38562843	7	5	618	1	0	1	1	0	0	0	0	0	16377	108	4	0	2843	0	TOP2A	17	38562843	Frame_Shift_Ins	INS	-	TCGA-IZ-A6M8-01A-11D-A31X-10	10614529	38562843	42632367	91	37881										
KRTAP3-2	83897	bcgsc.ca	37	chr17	39155883	39155883	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gttgagggtctccaggcccgGagttggctggcaggagttga	18	8	1	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr17:39155883G>C	ENST00000391587.1	-	1	255	c.223C>G	c.(223-225)Ccg>Gcg	p.P75A		NM_031959.2	NP_114165.1	Q9BYR7	KRA32_HUMAN	keratin associated protein 3-2	75						keratin filament (GO:0045095)	structural molecule activity (GO:0005198)			endometrium(1)|large_intestine(1)|lung(1)	3		Breast(137;0.00043)				TCCAGGCCCGGAGTTGGCTGG	0.622																																																0													61	79	73					17																	39155883		2201	4296	6497	SO:0001583	missense	83897			AJ406932	CCDS32644.1	17q21.2	2013-06-25			ENSG00000212900	ENSG00000212900		"Keratin associated proteins"	16779	protein-coding gene	gene with protein product						11279113	Standard	NM_031959		Approved	KAP3.2	uc002hvs.3	Q9BYR7	OTTHUMG00000133581	ENST00000391587.1:c.223C>G	17.37:g.39155883G>C	ENSP00000375429:p.Pro75Ala	Somatic		WXS	Illumina HiSeq	Phase_1		Missense_Mutation	SNP	ENST00000391587.1	37	CCDS32644.1	.	.	.	.	.	.	.	.	.	.	G	11.70	1.718303	0.30503	.	.	ENSG00000212900	ENST00000391587	T	0.34472	1.36	5.76	5.76	0.90799	.	0.000000	0.56097	D	0.000025	T	0.47154	0.1430	.	.	.	0.38317	D	0.943408	P	0.45348	0.856	P	0.48454	0.578	T	0.53222	-0.8469	9	0.72032	D	0.01	.	15.5326	0.75977	0.0:0.0:1.0:0.0	.	75	Q9BYR7	KRA32_HUMAN	A	75	ENSP00000375429:P75A	ENSP00000375429:P75A	P	-	1	0	KRTAP3-2	36409409	1.000000	0.71417	0.922000	0.36590	0.095000	0.18619	4.486000	0.60286	2.732000	0.93576	0.558000	0.71614	CCG		0.622	KRTAP3-2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257685.1			C	39155883	G	C	39155883	3	2	618	1	0	0	0	0	1	0	0	0	8553	1174	41	4	77	4	KRTAP3-2	17	39155883	Missense_Mutation	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	593040	39155883	42039327	92	37882										
TEX14	56155	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	56676917	56676918	+	Frame_Shift_Del	DEL	GA	GA	-													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	cataaatggagcagggcaagGagcatcttgattctgagtct							TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr17:56676917_56676918delGA	ENST00000240361.8	-	14	1891_1892	c.1806_1807delTC	c.(1804-1809)gctcctfs	p.P603fs	TEX14_ENST00000349033.5_Frame_Shift_Del_p.P597fs|TEX14_ENST00000389934.3_Frame_Shift_Del_p.P597fs			Q8IWB6	TEX14_HUMAN	testis expressed 14	603					attachment of spindle microtubules to kinetochore (GO:0008608)|intercellular bridge organization (GO:0043063)|male meiosis (GO:0007140)|mitotic sister chromatid separation (GO:0051306)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of cytokinesis (GO:0032466)|negative regulation of protein binding (GO:0032091)	cell (GO:0005623)|cytoplasm (GO:0005737)|intercellular bridge (GO:0045171)|kinetochore (GO:0000776)|midbody (GO:0030496)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)			breast(6)|endometrium(5)|kidney(3)|large_intestine(22)|liver(1)|lung(24)|ovary(4)|pancreas(1)|prostate(1)|skin(5)|stomach(5)|upper_aerodigestive_tract(1)|urinary_tract(3)	81	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GCAGGGCAAGGAGCATCTTGAT	0.53																																																0																																										SO:0001589	frameshift_variant	56155			AF285601	CCDS32692.1, CCDS32693.1, CCDS56042.1	17q22	2013-09-20	2007-03-13		ENSG00000121101	ENSG00000121101			11737	protein-coding gene	gene with protein product	"cancer/testis antigen 113"	605792	"testis expressed sequence 14"			11279525, 12711554	Standard	NM_031272		Approved	CT113	uc010dcz.2	Q8IWB6	OTTHUMG00000179245	ENST00000240361.8:c.1806_1807delTC	17.37:g.56676917_56676918delGA	ENSP00000240361:p.Pro603fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NH19|Q7RTP3|Q8ND97|Q9BXT9	Frame_Shift_Del	DEL	ENST00000240361.8	37	CCDS56042.1																																																																																				0.53	TEX14-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000445446.1			-	56676918	GA	-	56676917	7	5	618	1	0	1	0	1	0	0	0	0	15790	1174	41	0	2766	0	TEX14	17	56676917	Frame_Shift_Del	DEL	GA	TCGA-IZ-A6M8-01A-11D-A31X-10	17521034	56676917	24518293	93	37883										
ACOX1	51	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	73953542	73953542	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gctgaaaaattcacttacgcCcaccaggccaccatttaatg	6	13	1	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr17:73953542C>G	ENST00000301608.4	-	4	596	c.536G>C	c.(535-537)gGg>gCg	p.G179A	ACOX1_ENST00000293217.5_Missense_Mutation_p.G179A|ACOX1_ENST00000591857.1_5'UTR|ACOX1_ENST00000537812.1_Missense_Mutation_p.G141A	NM_007292.5	NP_009223.2	Q15067	ACOX1_HUMAN	acyl-CoA oxidase 1, palmitoyl	179					alpha-linolenic acid metabolic process (GO:0036109)|cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)|fatty acid oxidation (GO:0019395)|generation of precursor metabolites and energy (GO:0006091)|lipid homeostasis (GO:0055088)|lipid metabolic process (GO:0006629)|peroxisome fission (GO:0016559)|positive regulation of cholesterol homeostasis (GO:2000189)|prostaglandin metabolic process (GO:0006693)|small molecule metabolic process (GO:0044281)|spermatogenesis (GO:0007283)|unsaturated fatty acid metabolic process (GO:0033559)|very long-chain fatty acid metabolic process (GO:0000038)	membrane (GO:0016020)|mitochondrion (GO:0005739)|peroxisomal matrix (GO:0005782)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	acyl-CoA dehydrogenase activity (GO:0003995)|acyl-CoA oxidase activity (GO:0003997)|FAD binding (GO:0071949)|fatty acid binding (GO:0005504)|flavin adenine dinucleotide binding (GO:0050660)|palmitoyl-CoA oxidase activity (GO:0016401)|PDZ domain binding (GO:0030165)|protein N-terminus binding (GO:0047485)|receptor binding (GO:0005102)			large_intestine(2)|lung(7)|ovary(2)|prostate(2)|skin(1)	14					Flavin adenine dinucleotide(DB03147)	TCACTTACGCCCACCAGGCCA	0.443																																																0													112	106	108					17																	73953542		2203	4300	6503	SO:0001583	missense	51			U03254	CCDS11734.1, CCDS11735.1	17q25.1	2012-10-04	2010-04-30		ENSG00000161533	ENSG00000161533	1.3.3.6		119	protein-coding gene	gene with protein product		609751	"acyl-Coenzyme A oxidase 1, palmitoyl"			8159712	Standard	NM_007292		Approved	PALMCOX	uc002jqe.3	Q15067	OTTHUMG00000180027	ENST00000301608.4:c.536G>C	17.37:g.73953542C>G	ENSP00000301608:p.Gly179Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6X8|A8KAA0|B4DK61|F5GYQ8|Q12863|Q15068|Q15101|Q16131|Q7Z3W5|Q9UD31	Missense_Mutation	SNP	ENST00000301608.4	37	CCDS11735.1	.	.	.	.	.	.	.	.	.	.	C	16.05	3.012128	0.54468	.	.	ENSG00000161533	ENST00000301608;ENST00000293217;ENST00000537812;ENST00000539791;ENST00000538781	T;T;T	0.69685	-0.42;-0.42;-0.42	5.64	5.64	0.86602	Acyl-CoA dehydrogenase/oxidase (1);Acyl-CoA oxidase/dehydrogenase, central domain (2);	0.096704	0.64402	D	0.000001	T	0.69593	0.3128	L	0.60845	1.875	0.80722	D	1	P;P;B;B	0.35481	0.504;0.504;0.329;0.446	B;B;B;B	0.40285	0.117;0.232;0.325;0.107	T	0.67260	-0.5715	10	0.37606	T	0.19	-20.1018	19.7014	0.96054	0.0:1.0:0.0:0.0	.	111;141;179;179	F5H0M0;F5GYQ8;Q15067;Q15067-2	.;.;ACOX1_HUMAN;.	A	179;179;141;179;111	ENSP00000301608:G179A;ENSP00000293217:G179A;ENSP00000441257:G141A	ENSP00000293217:G179A	G	-	2	0	ACOX1	71465137	1.000000	0.71417	0.988000	0.46212	0.923000	0.55619	7.480000	0.81109	2.657000	0.90304	0.637000	0.83480	GGG		0.443	ACOX1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000439503.1			G	73953542	C	G	73953542	3	3	618	1	0	0	0	0	1	0	0	0	158	623	22	4	1490	4	ACOX1	17	73953542	Missense_Mutation	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	17276625	73953542	7241668	94	37884										
FASN	2194	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	80047603	80047603	+	Splice_Site	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	acactcctcccaggacaagcCtatggcagagccagcctcag	9	16	1	1			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr17:80047603C>G	ENST00000306749.2	-	12	2089		c.e12-1			NM_004104.4	NP_004095.4	P49327	FAS_HUMAN	fatty acid synthase						acetyl-CoA metabolic process (GO:0006084)|cellular lipid metabolic process (GO:0044255)|cellular response to interleukin-4 (GO:0071353)|energy reserve metabolic process (GO:0006112)|fatty acid biosynthetic process (GO:0006633)|fatty acid metabolic process (GO:0006631)|long-chain fatty-acyl-CoA biosynthetic process (GO:0035338)|osteoblast differentiation (GO:0001649)|pantothenate metabolic process (GO:0015939)|positive regulation of cellular metabolic process (GO:0031325)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|glycogen granule (GO:0042587)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity (GO:0047451)|3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity (GO:0004317)|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity (GO:0004316)|3-oxoacyl-[acyl-carrier-protein] synthase activity (GO:0004315)|[acyl-carrier-protein] S-acetyltransferase activity (GO:0004313)|[acyl-carrier-protein] S-malonyltransferase activity (GO:0004314)|drug binding (GO:0008144)|enoyl-[acyl-carrier-protein] reductase (NADPH, A-specific) activity (GO:0047117)|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity (GO:0004319)|fatty acid synthase activity (GO:0004312)|myristoyl-[acyl-carrier-protein] hydrolase activity (GO:0016295)|NADPH binding (GO:0070402)|oleoyl-[acyl-carrier-protein] hydrolase activity (GO:0004320)|palmitoyl-[acyl-carrier-protein] hydrolase activity (GO:0016296)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			central_nervous_system(3)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(12)|prostate(3)|skin(2)|urinary_tract(1)	34	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)	CAGGACAAGCCTATGGCAGAG	0.652																																					Colon(59;314 1043 11189 28578 32273)											0													16	15	16					17																	80047603		2171	4272	6443	SO:0001630	splice_region_variant	2194			U26644	CCDS11801.1	17q25	2012-01-31			ENSG00000169710	ENSG00000169710	2.3.1.85	"Short chain dehydrogenase/reductase superfamily / Atypical members"	3594	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 27X, member 1"	600212				7835891, 7567999, 19027726	Standard	NM_004104		Approved	FAS, SDR27X1	uc002kdu.3	P49327		ENST00000306749.2:c.1871-1G>C	17.37:g.80047603C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q13479|Q16702|Q4LE83|Q6P4U5|Q6SS02|Q969R1|Q96C68|Q96IT0	Splice_Site	SNP	ENST00000306749.2	37	CCDS11801.1	.	.	.	.	.	.	.	.	.	.	C	15.55	2.865470	0.51588	.	.	ENSG00000169710	ENST00000306749	.	.	.	4.4	4.4	0.53042	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.9623	0.86275	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	FASN	77640892	1.000000	0.71417	0.168000	0.22838	0.067000	0.16453	5.505000	0.66981	1.997000	0.58415	0.561000	0.74099	.		0.652	FASN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000442369.1	NM_004104	Intron	G	80047603	C	G	80047603	5	3	618	1	0	0	0	0	0	0	1	0	5690	695	24	4	5793	4	FASN	17	80047603	Splice_Site	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	6094061	80047603	1147607	95	37885										
ANKRD29	147463	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr18	21214112	21214112	+	Splice_Site	DEL	T	T	-													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ccaacagggcggtgcccccgTcctatggacatgcaaagtat							TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr18:21214112delT	ENST00000592179.1	-	5	486	c.332delA	c.(331-333)gac>gc	p.D111fs	ANKRD29_ENST00000284207.7_Splice_Site_p.D111fs|ANKRD29_ENST00000322980.9_Splice_Site_p.D111fs	NM_173505.2	NP_775776.2	Q8N6D5	ANR29_HUMAN	ankyrin repeat domain 29	111										breast(1)|kidney(1)|large_intestine(2)|lung(4)|ovary(3)|prostate(1)|skin(1)	13	all_cancers(21;5.07e-05)|all_epithelial(16;2.49e-07)|Lung NSC(20;0.00211)|all_lung(20;0.00676)|Colorectal(14;0.0202)|Ovarian(20;0.127)					GGTGCCCCCGTCCTATGGACA	0.498																																																0													74	59	64					18																	21214112		2203	4300	6503	SO:0001630	splice_region_variant	147463			AK057782	CCDS11879.1	18q11.2	2013-01-10			ENSG00000154065	ENSG00000154065		"Ankyrin repeat domain containing"	27110	protein-coding gene	gene with protein product							Standard	NM_173505		Approved	FLJ25053	uc002kun.3	Q8N6D5	OTTHUMG00000131875	ENST00000592179.1:c.331-1A>-	18.37:g.21214112delT		Somatic		WXS	Illumina HiSeq	Phase_I	B2R972|Q6ZWE8|Q96LU9	Frame_Shift_Del	DEL	ENST00000592179.1	37	CCDS11879.1																																																																																				0.498	ANKRD29-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254825.1	NM_173505	Frame_Shift_Del	-	21214112	T	-	21214112	8	5	618	1	0	1	0	1	0	0	1	0	657	1681	58	0	597	0	ANKRD29	18	21214112	Splice_Site	DEL	T	TCGA-IZ-A6M8-01A-11D-A31X-10		21214112	56863136	96	37886	297	2								
ANKRD29	147463	bcgsc.ca	37	chr18	21214114	21214114	+	Splice_Site	SNP	C	C	T													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	aacagggcggtgcccccgtcCtatggacatgcaaagtataa							TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr18:21214114C>T	ENST00000592179.1	-	5	485		c.e5-1		ANKRD29_ENST00000284207.7_Splice_Site|ANKRD29_ENST00000322980.9_Splice_Site	NM_173505.2	NP_775776.2	Q8N6D5	ANR29_HUMAN	ankyrin repeat domain 29											breast(1)|kidney(1)|large_intestine(2)|lung(4)|ovary(3)|prostate(1)|skin(1)	13	all_cancers(21;5.07e-05)|all_epithelial(16;2.49e-07)|Lung NSC(20;0.00211)|all_lung(20;0.00676)|Colorectal(14;0.0202)|Ovarian(20;0.127)					TGCCCCCGTCCTATGGACATG	0.502																																																0													72	58	63					18																	21214114		2203	4300	6503	SO:0001630	splice_region_variant	147463			AK057782	CCDS11879.1	18q11.2	2013-01-10			ENSG00000154065	ENSG00000154065		"Ankyrin repeat domain containing"	27110	protein-coding gene	gene with protein product							Standard	NM_173505		Approved	FLJ25053	uc002kun.3	Q8N6D5	OTTHUMG00000131875	ENST00000592179.1:c.331-1G>A	18.37:g.21214114C>T		Somatic		WXS	Illumina HiSeq	Phase_1	B2R972|Q6ZWE8|Q96LU9	Splice_Site	SNP	ENST00000592179.1	37	CCDS11879.1	.	.	.	.	.	.	.	.	.	.	C	13.64	2.298068	0.40694	.	.	ENSG00000154065	ENST00000322980;ENST00000284207	.	.	.	5.66	5.66	0.87406	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	18.8957	0.92423	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	ANKRD29	19468112	1.000000	0.71417	0.986000	0.45419	0.061000	0.15899	6.746000	0.74866	2.832000	0.97577	0.655000	0.94253	.		0.502	ANKRD29-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254825.1	NM_173505	Intron	T	21214114	C	T	21214114	5	4	618	1	0	0	0	0	0	0	1	0	657	695	24	2	599	2	ANKRD29	18	21214114	Splice_Site	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	2	21214114	56863134	97	37887	297	2								
MUC16	94025	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	9057871	9057871	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	cctagtctcagagaaggcagGatttgatgtgaaaacagtgg	13	6	1	3			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr19:9057871G>A	ENST00000397910.4	-	3	29778	c.29575C>T	c.(29575-29577)Cct>Tct	p.P9859S		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	9861	Ser-rich.|Thr-rich.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						GAGAAGGCAGGATTTGATGTG	0.478																																																0													147	138	141					19																	9057871		1987	4169	6156	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.29575C>T	19.37:g.9057871G>A	ENSP00000381008:p.Pro9859Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	g	3.787	-0.044427	0.07452	.	.	ENSG00000181143	ENST00000397910	T	0.26223	1.75	2.62	0.396	0.16309	.	.	.	.	.	T	0.23330	0.0564	N	0.14661	0.345	.	.	.	D	0.54207	0.965	P	0.59703	0.862	T	0.26503	-1.0101	8	0.87932	D	0	.	3.8274	0.08859	0.1494:0.2545:0.5961:0.0	.	9859	B5ME49	.	S	9859	ENSP00000381008:P9859S	ENSP00000381008:P9859S	P	-	1	0	MUC16	8918871	0.000000	0.05858	0.001000	0.08648	0.003000	0.03518	-1.124000	0.03260	0.181000	0.19994	-1.109000	0.02080	CCT		0.478	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		A	9057871	G	A	9057871	3	1	618	1	0	0	0	0	1	0	0	0	9980	1174	41	2	14276	2	MUC16	19	9057871	Missense_Mutation	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10		9057871	50071112	98	37888										
CARM1	10498	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	11019856	11019856	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	acctaccagcgcgccatcctGcaaaaccacaccgacttcaa	5	18	1	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr19:11019856G>A	ENST00000327064.4	+	4	721	c.531G>A	c.(529-531)ctG>ctA	p.L177L	CARM1_ENST00000344150.4_Silent_p.L177L	NM_199141.1	NP_954592.1	Q86X55	CARM1_HUMAN	coactivator-associated arginine methyltransferase 1	177	SAM-dependent MTase PRMT-type. {ECO:0000255|PROSITE-ProRule:PRU01015}.				cellular lipid metabolic process (GO:0044255)|endochondral bone morphogenesis (GO:0060350)|histone H3-R17 methylation (GO:0034971)|histone H3-R2 methylation (GO:0034970)|histone methylation (GO:0016571)|intracellular estrogen receptor signaling pathway (GO:0030520)|negative regulation of protein binding (GO:0032091)|pathogenesis (GO:0009405)|peptidyl-arginine methylation, to asymmetrical-dimethyl arginine (GO:0019919)|positive regulation of cell proliferation (GO:0008284)|positive regulation of fat cell differentiation (GO:0045600)|regulation of growth plate cartilage chondrocyte proliferation (GO:0003420)|regulation of intracellular estrogen receptor signaling pathway (GO:0033146)|regulation of transcription, DNA-templated (GO:0006355)|response to cAMP (GO:0051591)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	beta-catenin binding (GO:0008013)|histone methyltransferase activity (GO:0042054)|histone methyltransferase activity (H3-R17 specific) (GO:0035642)|histone-arginine N-methyltransferase activity (GO:0008469)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|lysine-acetylated histone binding (GO:0070577)|protein methyltransferase activity (GO:0008276)|protein-arginine N-methyltransferase activity (GO:0016274)|protein-arginine omega-N asymmetric methyltransferase activity (GO:0035242)|transcription coactivator activity (GO:0003713)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(4)|urinary_tract(1)	13						GCGCCATCCTGCAAAACCACA	0.517																																																0													102	77	86					19																	11019856		2203	4300	6503	SO:0001819	synonymous_variant	10498			AF055027	CCDS12250.1	19p13.2	2010-10-11			ENSG00000142453	ENSG00000142453		"Protein arginine methyltransferases"	23393	protein-coding gene	gene with protein product		603934				10381882, 11724789	Standard	NM_199141		Approved	PRMT4	uc002mpz.3	Q86X55		ENST00000327064.4:c.531G>A	19.37:g.11019856G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NN38	Silent	SNP	ENST00000327064.4	37	CCDS12250.1																																																																																				0.517	CARM1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000452625.1	XM_032719		A	11019856	G	A	11019856	2	1	618	1	0	0	0	0	0	0	0	1	2657	1306	46	2		2	CARM1	19	11019856	Silent	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10	1961985	11019856	48109127	99	37889										
FCGBP	8857	broad.mit.edu	37	chr19	40366441	40366444	+	Frame_Shift_Del	DEL	CGCA	CGCA	-													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	acgccgccggcacgcgcaggCgcacgaagctgtccccatcg					rs145808007	byFrequency	TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	CGCA	CGCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr19:40366441_40366444delCGCA	ENST00000221347.6	-	30	13797_13800	c.13790_13793delTGCG	c.(13789-13794)gtgcgcfs	p.VR4597fs		NM_003890.2	NP_003881.2	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein	4597	VWFD 11. {ECO:0000255|PROSITE- ProRule:PRU00580}.					extracellular vesicular exosome (GO:0070062)				NS(3)|autonomic_ganglia(1)|breast(7)|central_nervous_system(5)|endometrium(13)|kidney(9)|large_intestine(27)|lung(49)|ovary(8)|pancreas(3)|prostate(13)|skin(9)|stomach(9)|upper_aerodigestive_tract(6)|urinary_tract(3)	165	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)			CACGCGCAGGCGCACGAAGCTGTC	0.672																																																0																																										SO:0001589	frameshift_variant	8857			D84239		19q13.2	2013-09-20			ENSG00000090920	ENSG00000275395			13572	protein-coding gene	gene with protein product	"IgG Fc binding protein", "Human Fc gamma BP"					9182547	Standard	NM_003890		Approved	FC(GAMMA)BP	uc002omp.4	Q9Y6R7	OTTHUMG00000182580	ENST00000221347.6:c.13790_13793delTGCG	19.37:g.40366441_40366444delCGCA	ENSP00000221347:p.Val4597fs	Somatic		WXS	Illumina HiSeq	Phase_I	O95784	Frame_Shift_Del	DEL	ENST00000221347.6	37	CCDS12546.1																																																																																				0.672	FCGBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462507.1	NM_003890		-	40366444	CGCA	-	40366441	7	5	618	1	0	1	0	1	0	0	0	0	5785	768	27	0	2452	0	FCGBP	19	40366441	Frame_Shift_Del	DEL	CGCA	TCGA-IZ-A6M8-01A-11D-A31X-10	29346585	40366441	18762542	100	37890										
ZNF45	7596	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	44419046	44419046	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ctgcatgagccctttggttaAtttgaagatgagagctccag	11	8	0	4			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr19:44419046A>C	ENST00000269973.5	-	10	1632	c.542T>G	c.(541-543)aTt>aGt	p.I181S	RP11-15A1.2_ENST00000586247.1_RNA|ZNF45_ENST00000589703.1_Missense_Mutation_p.I181S	NM_003425.3	NP_003416.1	Q02386	ZNF45_HUMAN	zinc finger protein 45	181					gene expression (GO:0010467)|multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|transcription initiation from RNA polymerase II promoter (GO:0006367)	nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(4)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)	17						CCTTTGGTTAATTTGAAGATG	0.443																																																0													126	128	127					19																	44419046		2203	4300	6503	SO:0001583	missense	7596			M67509	CCDS12632.1	19q13.2	2013-01-08	2005-01-11			ENSG00000124459		"Zinc fingers, C2H2-type", "-"	13111	protein-coding gene	gene with protein product		194554	"zinc finger protein 45 (a Kruppel-associated box (KRAB) domain polypeptide)", "zinc finger protein 13"	ZNF13		9067431	Standard	NM_003425		Approved		uc002oxw.2	Q02386		ENST00000269973.5:c.542T>G	19.37:g.44419046A>C	ENSP00000269973:p.Ile181Ser	Somatic		WXS	Illumina HiSeq	Phase_I	P17016|P78472|Q9P1U9	Missense_Mutation	SNP	ENST00000269973.5	37	CCDS12632.1	.	.	.	.	.	.	.	.	.	.	A	6.279	0.419509	0.11928	.	.	ENSG00000124459	ENST00000269973;ENST00000328762	T	0.15139	2.45	3.91	-3.04	0.05412	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	2.004110	0.02863	N	0.130523	T	0.07279	0.0184	N	0.13299	0.325	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.18178	-1.0345	10	0.08179	T	0.78	0.9799	0.481	0.00547	0.3318:0.133:0.2741:0.2611	.	181	Q02386	ZNF45_HUMAN	S	181	ENSP00000269973:I181S	ENSP00000269973:I181S	I	-	2	0	ZNF45	49110886	0.000000	0.05858	0.000000	0.03702	0.251000	0.25915	-5.448000	0.00121	-0.856000	0.04120	0.260000	0.18958	ATT		0.443	ZNF45-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459919.1	NM_003425		C	44419046	A	C	44419046	3	2	618	1	0	0	0	0	1	0	0	0	17933	101	4	5	1510	5	ZNF45	19	44419046	Missense_Mutation	SNP	A	TCGA-IZ-A6M8-01A-11D-A31X-10	4052605	44419046	14709937	101	37891										
ZNF534	147658	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	52941044	52941044	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	cacttaaaaatcaacatggaTtaactcttcagttacatctg	4	9	4	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr19:52941044T>A	ENST00000332323.6	+	4	431	c.370T>A	c.(370-372)Tta>Ata	p.L124I	ZNF534_ENST00000433050.1_Missense_Mutation_p.L111I|ZNF534_ENST00000432303.2_Intron|ZNF534_ENST00000301085.4_Intron	NM_001143939.1	NP_001137411.1	Q76KX8	ZN534_HUMAN	zinc finger protein 534	124					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|lung(1)|prostate(1)|skin(1)	4						TCAACATGGATTAACTCTTCA	0.353																																																0													71	60	63					19																	52941044		1568	3582	5150	SO:0001583	missense	147658			AK058073	CCDS46165.1, CCDS46166.1	19q13.41	2013-01-08	2004-02-06	2004-02-11	ENSG00000198633	ENSG00000198633		"Zinc fingers, C2H2-type", "-"	26337	protein-coding gene	gene with protein product			"KRAB domain only 3"	KRBO3			Standard	NM_001143938		Approved	FLJ25344	uc002pzk.3	Q76KX8	OTTHUMG00000156493	ENST00000332323.6:c.370T>A	19.37:g.52941044T>A	ENSP00000327538:p.Leu124Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q76KX9	Missense_Mutation	SNP	ENST00000332323.6	37	CCDS46165.1	.	.	.	.	.	.	.	.	.	.	T	9.193	1.026520	0.19512	.	.	ENSG00000198633	ENST00000332323;ENST00000433050;ENST00000391790	T;T	0.07444	3.19;3.23	1.69	1.69	0.24217	.	.	.	.	.	T	0.11750	0.0286	M	0.62723	1.935	0.09310	N	1	P;P	0.44344	0.833;0.524	P;B	0.45276	0.475;0.095	T	0.14309	-1.0477	9	0.45353	T	0.12	.	6.6481	0.22947	0.0:0.0:0.0:1.0	.	111;124	Q76KX8-2;Q76KX8	.;ZN534_HUMAN	I	124;111;123	ENSP00000327538:L124I;ENSP00000391358:L111I	ENSP00000327538:L124I	L	+	1	2	ZNF534	57632856	0.001000	0.12720	0.012000	0.15200	0.302000	0.27658	-0.032000	0.12266	0.751000	0.32900	0.172000	0.16884	TTA		0.353	ZNF534-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000460877.1	NM_182512		A	52941044	T	A	52941044	3	1	618	1	0	0	0	0	1	0	0	0	17985	1490	52	5	384	5	ZNF534	19	52941044	Missense_Mutation	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10	8521998	52941044	6187939	102	37892										
CRNKL1	51340	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	20033152	20033152	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ctcgcttgagccgtgacggaGgcggcaccgtttccatggtg	15	12	0	2	rs140622884		TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr20:20033152G>A	ENST00000377340.2	-	2	349	c.318C>T	c.(316-318)gcC>gcT	p.A106A	C20orf26_ENST00000377309.2_5'Flank|C20orf26_ENST00000377306.1_5'Flank|C20orf26_ENST00000245957.5_5'Flank|CRNKL1_ENST00000377327.4_Silent_p.A94A|CRNKL1_ENST00000536226.1_5'Flank|C20orf26_ENST00000389656.3_5'Flank	NM_001278628.1|NM_016652.4	NP_001265557.1|NP_057736.4	Q9BZJ0	CRNL1_HUMAN	crooked neck pre-mRNA splicing factor 1	106					mRNA splicing, via spliceosome (GO:0000398)|spliceosomal complex assembly (GO:0000245)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|spliceosomal complex (GO:0005681)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			breast(2)|cervix(2)|endometrium(7)|large_intestine(11)|lung(12)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(6)	45						CCGTGACGGAGGCGGCACCGT	0.607																																																0								G		1,4405	2.1+/-5.4	0,1,2202	74	70	71		318	-9	0	20	dbSNP_134	71	0,8600		0,0,4300	no	coding-synonymous	CRNKL1	NM_016652.4		0,1,6502	AA,AG,GG		0.0,0.0227,0.0077		106/849	20033152	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	51340			AF255443	CCDS33446.1, CCDS63238.1, CCDS63239.1	20p11.2	2013-10-03	2013-10-03		ENSG00000101343	ENSG00000101343			15762	protein-coding gene	gene with protein product	"SYF3 pre-mRNA-splicing factor"	610952	"crooked neck (Drosophila Crn homolog)-like 1", "Crn, crooked neck-like 1 (Drosophila)", "crooked neck pre-mRNA splicing factor-like 1 (Drosophila)"				Standard	NM_016652		Approved	CRN, CLF, SYF3, Clf1	uc002wrs.3	Q9BZJ0	OTTHUMG00000032000	ENST00000377340.2:c.318C>T	20.37:g.20033152G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K9T4|Q5JY64|Q8WYI5|Q9BZI9|Q9BZJ1|Q9BZJ2|Q9GZW7|Q9H8F8|Q9NQH5|Q9NYD8	Silent	SNP	ENST00000377340.2	37	CCDS33446.1																																																																																				0.607	CRNKL1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000127787.1			A	20033152	G	A	20033152	2	1	618	1	0	0	0	0	0	0	0	1	3893	987	35	2		2	CRNKL1	20	20033152	Silent	SNP	G	TCGA-IZ-A6M8-01A-11D-A31X-10		20033152	42992368	103	37893										
TM9SF4	9777	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	30730877	30730877	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	acgtaccgtgtcgtccgcttCgaggtgattccccagagcat	11	13	0	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr20:30730877C>T	ENST00000398022.2	+	6	856	c.621C>T	c.(619-621)ttC>ttT	p.F207F	TM9SF4_ENST00000217315.5_Silent_p.F190F	NM_014742.3	NP_055557.2	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	207						integral component of membrane (GO:0016021)				central_nervous_system(2)|kidney(1)|large_intestine(4)|lung(8)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	20			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			TCGTCCGCTTCGAGGTGATTC	0.597																																																0													151	107	122					20																	30730877		2203	4300	6503	SO:0001819	synonymous_variant	9777			BC021107	CCDS13196.2	20q11.21	2004-04-19			ENSG00000101337	ENSG00000101337			30797	protein-coding gene	gene with protein product						9039502	Standard	NM_014742		Approved	KIAA0255, dJ836N17.2	uc002wxj.2	Q92544	OTTHUMG00000032206	ENST00000398022.2:c.621C>T	20.37:g.30730877C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0QYT7|Q9NUA3	Silent	SNP	ENST00000398022.2	37	CCDS13196.2																																																																																				0.597	TM9SF4-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323568.1	NM_014742		T	30730877	C	T	30730877	2	4	618	1	0	0	0	0	0	0	0	1	15992	883	31	1		1	TM9SF4	20	30730877	Silent	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	10697725	30730877	32294643	104	37894										
CDH4	1002	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	60427908	60427908	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	aatgacaaccgccctgagttCatcaaccaggtctacaacgg	8	13	3	2			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr20:60427908C>A	ENST00000360469.5	+	6	919	c.831C>A	c.(829-831)ttC>ttA	p.F277L	CDH4_ENST00000543233.1_Missense_Mutation_p.F203L	NM_001794.3	NP_001785.2	P55283	CADH4_HUMAN	cadherin 4, type 1, R-cadherin (retinal)	277	Cadherin 1. {ECO:0000255|PROSITE- ProRule:PRU00043}.				adherens junction organization (GO:0034332)|cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(2)|breast(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(17)|liver(2)|lung(25)|ovary(2)|prostate(1)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(1)	74			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GCCCTGAGTTCATCAACCAGG	0.582																																																0													219	174	189					20																	60427908		2203	4300	6503	SO:0001583	missense	1002			L34059	CCDS13488.1, CCDS58784.1	20q13.3	2010-01-26			ENSG00000179242	ENSG00000179242		"Cadherins / Major cadherins"	1763	protein-coding gene	gene with protein product	"R-Cadherin"	603006				10191097, 10516427	Standard	NM_001794		Approved		uc002ybn.2	P55283	OTTHUMG00000032890	ENST00000360469.5:c.831C>A	20.37:g.60427908C>A	ENSP00000353656:p.Phe277Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWB8|G3V1P8|Q2M208|Q5VZ44|Q9BZ05	Missense_Mutation	SNP	ENST00000360469.5	37	CCDS13488.1	.	.	.	.	.	.	.	.	.	.	C	15.29	2.789775	0.50102	.	.	ENSG00000179242	ENST00000360469;ENST00000536643;ENST00000543233	T;T	0.78707	-1.2;-1.2	4.76	3.7	0.42460	Cadherin (3);Cadherin-like (1);	0.110955	0.64402	D	0.000008	T	0.80204	0.4580	M	0.92880	3.355	0.58432	D	0.999995	B	0.25609	0.13	B	0.17433	0.018	T	0.80190	-0.1485	9	.	.	.	.	11.0665	0.47979	0.0:0.8229:0.0:0.1771	.	277	P55283	CADH4_HUMAN	L	277;185;203	ENSP00000353656:F277L;ENSP00000443301:F203L	.	F	+	3	2	CDH4	59861303	0.662000	0.27439	0.994000	0.49952	0.873000	0.50193	1.182000	0.32029	2.202000	0.70862	0.561000	0.74099	TTC		0.582	CDH4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079965.2	NM_001794		A	60427908	C	A	60427908	3	1	618	1	0	0	0	0	1	0	0	0	3114	825	29	4	853	4	CDH4	20	60427908	Missense_Mutation	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10	29697031	60427908	2597612	105	37895										
PRODH	5625	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	18909899	18909899	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	ctcagccctggatgcgatgcCcaactttgcgacactttcct	8	15	1	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chr22:18909899C>A	ENST00000357068.6	-	7	1133	c.868G>T	c.(868-870)Ggc>Tgc	p.G290C	PRODH_ENST00000420436.1_Missense_Mutation_p.G182C|PRODH_ENST00000334029.2_Missense_Mutation_p.G182C	NM_016335.4	NP_057419	O43272	PROD_HUMAN	proline dehydrogenase (oxidase) 1	290					4-hydroxyproline catabolic process (GO:0019470)|cellular nitrogen compound metabolic process (GO:0034641)|intrinsic apoptotic signaling pathway in response to oxidative stress (GO:0008631)|proline catabolic process (GO:0006562)|proline catabolic process to glutamate (GO:0010133)|proline metabolic process (GO:0006560)|small molecule metabolic process (GO:0044281)	mitochondrial inner membrane (GO:0005743)	FAD binding (GO:0071949)|proline dehydrogenase activity (GO:0004657)			breast(1)|endometrium(3)|lung(4)|upper_aerodigestive_tract(1)	9					L-Proline(DB00172)	GATGCGATGCCCAACTTTGCG	0.562																																																0													92	78	83					22																	18909899		2203	4300	6503	SO:0001583	missense	5625			AF010310	CCDS13754.1, CCDS56223.1	22q11.2	2014-07-10	2001-12-05		ENSG00000100033	ENSG00000100033	1.5.5.2		9453	protein-coding gene	gene with protein product		606810	"proline dehydrogenase (proline oxidase )"			9385373, 10192398	Standard	NM_001195226		Approved	HSPOX2, PRODH1, PIG6, PRODH2, TP53I6	uc002zok.4	O43272	OTTHUMG00000150163	ENST00000357068.6:c.868G>T	22.37:g.18909899C>A	ENSP00000349577:p.Gly290Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF53|O14680|Q0P507|Q147W8|Q504W1|Q59FI8|Q6NV86|Q9UF13	Missense_Mutation	SNP	ENST00000357068.6	37	CCDS13754.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	21.2|21.2	4.109058|4.109058	0.77096|0.77096	.|.	.|.	ENSG00000100033|ENSG00000100033	ENST00000357068;ENST00000399694;ENST00000450579|ENST00000438924	T;T|.	0.64803|.	-0.12;0.61|.	4.63|4.63	4.63|4.63	0.57726|0.57726	Proline dehydrogenase (1);|.	0.000000|0.000000	0.85682|0.85682	D|D	0.000000|0.000000	T|T	0.80210|0.80210	0.4581|0.4581	M|M	0.88105|0.88105	2.93|2.93	0.80722|0.80722	D|D	1|1	D;D;D|.	0.89917|.	1.0;1.0;1.0|.	D;D;D|.	0.97110|.	1.0;1.0;1.0|.	D|D	0.83981|0.83981	0.0332|0.0332	10|6	0.87932|.	D|.	0|.	-23.324|-23.324	15.5145|15.5145	0.75812|0.75812	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	206;290;182|.	O43272-1;O43272;E7EQL6|.	.;PROD_HUMAN;.|.	C|V	290;83;131|150	ENSP00000349577:G290C;ENSP00000396806:G131C|.	ENSP00000334726:G182C|.	G|G	-|-	1|2	0|0	PRODH|PRODH	17289899|17289899	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.860000|0.860000	0.49131|0.49131	6.925000|6.925000	0.75829|0.75829	2.316000|2.316000	0.78162|0.78162	0.638000|0.638000	0.83543|0.83543	GGC|GGG		0.562	PRODH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316637.2	NM_016335		A	18909899	C	A	18909899	3	1	618	1	0	0	0	0	1	0	0	0	12558	623	22	4	966	4	PRODH	22	18909899	Missense_Mutation	SNP	C	TCGA-IZ-A6M8-01A-11D-A31X-10		18909899	32394667	106	37896										
KDM6A	7403	hgsc.bcm.edu;bcgsc.ca	37	chrX	44918293	44918293	+	Frame_Shift_Del	DEL	T	T	-													0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	gttcaggatgcctttatatcTtacaggcagtctattgataa							TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chrX:44918293delT	ENST00000377967.4	+	11	959	c.918delT	c.(916-918)tctfs	p.S306fs	KDM6A_ENST00000543216.1_Frame_Shift_Del_p.S306fs|KDM6A_ENST00000382899.4_Frame_Shift_Del_p.S306fs|KDM6A_ENST00000536777.1_Frame_Shift_Del_p.S306fs	NM_021140.2	NP_066963.2	O15550	KDM6A_HUMAN	lysine (K)-specific demethylase 6A	306	Interaction with SUPT6H. {ECO:0000250}.				canonical Wnt signaling pathway (GO:0060070)|heart morphogenesis (GO:0003007)|histone H3-K4 methylation (GO:0051568)|in utero embryonic development (GO:0001701)|mesodermal cell differentiation (GO:0048333)|multicellular organism growth (GO:0035264)|neural tube closure (GO:0001843)|notochord morphogenesis (GO:0048570)|regulation of gene expression (GO:0010468)|respiratory system process (GO:0003016)|somite rostral/caudal axis specification (GO:0032525)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	dioxygenase activity (GO:0051213)|histone demethylase activity (H3-K27 specific) (GO:0071558)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)	p.0?(6)|p.0(2)		NS(1)|breast(7)|central_nervous_system(27)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(24)|kidney(24)|large_intestine(9)|liver(1)|lung(21)|oesophagus(11)|pancreas(2)|prostate(5)|skin(1)|soft_tissue(1)|urinary_tract(29)	170						CCTTTATATCTTACAGGCAGT	0.318			"D, N, F, S"		"renal, oesophageal SCC, MM"																																Colon(129;1273 1667 15230 27352 52914)		Rec	yes		X	Xp11.2	7403	"lysine (K)-specific demethylase 6A, UTX"		"E, L"	8	Whole gene deletion(6)|No detectable mRNA/protein(2)	haematopoietic_and_lymphoid_tissue(2)|oesophagus(2)|breast(2)|pancreas(2)											88	79	82					X																	44918293		2203	4300	6503	SO:0001589	frameshift_variant	7403			AF000992	CCDS14265.1	Xp11.2	2014-09-17	2009-04-17	2009-04-17	ENSG00000147050	ENSG00000147050		"Chromatin-modifying enzymes / K-demethylases", "Tetratricopeptide (TTC) repeat domain containing"	12637	protein-coding gene	gene with protein product		300128	"ubiquitously transcribed tetratricopeptide repeat, X chromosome"	UTX		9499428, 9381176	Standard	XM_005272655		Approved		uc004dge.4	O15550	OTTHUMG00000021402	ENST00000377967.4:c.918delT	X.37:g.44918293delT	ENSP00000367203:p.Ser306fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LL9|Q5JVQ7	Frame_Shift_Del	DEL	ENST00000377967.4	37	CCDS14265.1																																																																																				0.318	KDM6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056324.1	NM_021140		-	44918293	T	-	44918293	7	5	618	1	0	1	0	1	0	0	0	0	8144	1596	56	0	960	0	KDM6A	23	44918293	Frame_Shift_Del	DEL	T	TCGA-IZ-A6M8-01A-11D-A31X-10		44918293	110352267	107	37897										
ATP7A	538	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	77268391	77268391	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0560747663551402	6	1	1.06270447110142	0	1.53908923400895	0.0090497737556561	0.584578971511313	0	tgcagtttttcggaggctggTacttctacattcaggcttat	10	8	2	0			TCGA-IZ-A6M8-01A-11D-A31X-10	TCGA-IZ-A6M8-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4dfdbda6-c66f-4c67-8b66-e44364185d82	63f41eeb-2753-4768-a87a-f24b16256074	g.chrX:77268391T>A	ENST00000341514.6	+	10	2343	c.2188T>A	c.(2188-2190)Tac>Aac	p.Y730N	ATP7A_ENST00000350425.4_Intron|ATP7A_ENST00000343533.5_Intron	NM_000052.5	NP_000043.4	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	730					blood vessel development (GO:0001568)|blood vessel remodeling (GO:0001974)|cartilage development (GO:0051216)|catecholamine metabolic process (GO:0006584)|cellular copper ion homeostasis (GO:0006878)|central nervous system neuron development (GO:0021954)|cerebellar Purkinje cell differentiation (GO:0021702)|collagen fibril organization (GO:0030199)|copper ion export (GO:0060003)|copper ion import (GO:0015677)|copper ion transport (GO:0006825)|dendrite morphogenesis (GO:0048813)|detoxification of copper ion (GO:0010273)|dopamine metabolic process (GO:0042417)|elastic fiber assembly (GO:0048251)|elastin biosynthetic process (GO:0051542)|epinephrine metabolic process (GO:0042414)|extracellular matrix organization (GO:0030198)|hair follicle morphogenesis (GO:0031069)|in utero embryonic development (GO:0001701)|ion transmembrane transport (GO:0034220)|lactation (GO:0007595)|locomotory behavior (GO:0007626)|lung alveolus development (GO:0048286)|mitochondrion organization (GO:0007005)|negative regulation of metalloenzyme activity (GO:0048553)|negative regulation of neuron apoptotic process (GO:0043524)|neuron projection morphogenesis (GO:0048812)|norepinephrine biosynthetic process (GO:0042421)|norepinephrine metabolic process (GO:0042415)|peptidyl-lysine modification (GO:0018205)|pigmentation (GO:0043473)|positive regulation of catalytic activity (GO:0043085)|positive regulation of metalloenzyme activity (GO:0048554)|positive regulation of oxidoreductase activity (GO:0051353)|pyramidal neuron development (GO:0021860)|regulation of gene expression (GO:0010468)|regulation of oxidative phosphorylation (GO:0002082)|release of cytochrome c from mitochondria (GO:0001836)|removal of superoxide radicals (GO:0019430)|response to iron(III) ion (GO:0010041)|response to zinc ion (GO:0010043)|serotonin metabolic process (GO:0042428)|skin development (GO:0043588)|T-helper cell differentiation (GO:0042093)|transmembrane transport (GO:0055085)|tryptophan metabolic process (GO:0006568)|tyrosine metabolic process (GO:0006570)	basolateral plasma membrane (GO:0016323)|brush border membrane (GO:0031526)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|late endosome (GO:0005770)|membrane (GO:0016020)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|secretory granule (GO:0030141)|trans-Golgi network (GO:0005802)|trans-Golgi network transport vesicle (GO:0030140)	ATP binding (GO:0005524)|copper ion binding (GO:0005507)|copper ion transmembrane transporter activity (GO:0005375)|copper-dependent protein binding (GO:0032767)|copper-exporting ATPase activity (GO:0004008)|superoxide dismutase copper chaperone activity (GO:0016532)			breast(4)|central_nervous_system(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(26)|pancreas(1)|prostate(1)|urinary_tract(1)	53					Carboplatin(DB00958)|Cisplatin(DB00515)|Oxaliplatin(DB00526)	CGGAGGCTGGTACTTCTACAT	0.343																																																0													139	122	127					X																	77268391		2203	4296	6499	SO:0001583	missense	538			L06133	CCDS35339.1, CCDS75997.1	Xq21.1	2012-10-22	2008-07-31		ENSG00000165240	ENSG00000165240	3.6.3.4	"ATPases / P-type"	869	protein-coding gene	gene with protein product	"copper pump 1", "copper-transporting ATPase 1"	300011	"Menkes syndrome"	MNK		10079817	Standard	NM_000052		Approved		uc004ecx.4	Q04656	OTTHUMG00000021885	ENST00000341514.6:c.2188T>A	X.37:g.77268391T>A	ENSP00000345728:p.Tyr730Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B1AT72|O00227|O00745|Q9BYY8	Missense_Mutation	SNP	ENST00000341514.6	37	CCDS35339.1	.	.	.	.	.	.	.	.	.	.	T	17.13	3.309564	0.60414	.	.	ENSG00000165240	ENST00000341514	T	0.75938	-0.98	5.64	-1.38	0.09027	.	0.505078	0.21943	N	0.066860	T	0.73345	0.3575	L	0.51422	1.61	0.80722	D	1	P	0.38729	0.644	P	0.48654	0.585	T	0.71629	-0.4535	10	0.59425	D	0.04	-15.6701	11.7399	0.51786	0.0:0.5586:0.0:0.4414	.	730	Q04656	ATP7A_HUMAN	N	730	ENSP00000345728:Y730N	ENSP00000345728:Y730N	Y	+	1	0	ATP7A	77155047	1.000000	0.71417	0.995000	0.50966	0.993000	0.82548	0.785000	0.26830	-0.249000	0.09569	0.381000	0.24937	TAC		0.343	ATP7A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057306.1	NM_000052		A	77268391	T	A	77268391	3	1	618	1	0	0	0	0	1	0	0	0	1190	1638	57	5	2222	5	ATP7A	23	77268391	Missense_Mutation	SNP	T	TCGA-IZ-A6M8-01A-11D-A31X-10	32350098	77268391	78002169	108	37898										
CLSTN1	22883	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	9809529	9809529	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gtctccttaccacagagccgGtggagggacttctctgagta	12	11	2	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr1:9809529G>A	ENST00000377298.4	-	7	1767	c.975C>T	c.(973-975)caC>caT	p.H325H	CLSTN1_ENST00000361311.4_Silent_p.H315H|CLSTN1_ENST00000377288.3_Silent_p.H325H	NM_001009566.1	NP_001009566.1	O94985	CSTN1_HUMAN	calsyntenin 1	325					cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)	cell junction (GO:0030054)|cell projection (GO:0042995)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|postsynaptic membrane (GO:0045211)	beta-amyloid binding (GO:0001540)|calcium ion binding (GO:0005509)|kinesin binding (GO:0019894)|X11-like protein binding (GO:0042988)			breast(1)|endometrium(5)|kidney(2)|large_intestine(7)|liver(1)|lung(9)|prostate(5)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	36	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)		CACAGAGCCGGTGGAGGGACT	0.557																																																0													100	102	101					1																	9809529		2203	4300	6503	SO:0001819	synonymous_variant	22883			AB020718	CCDS105.1, CCDS30580.1	1p36.22	2011-07-01			ENSG00000171603	ENSG00000171603		"Cadherins / Cadherin-related"	17447	protein-coding gene	gene with protein product	"cadherin-related family member 12"	611321				10048485	Standard	XM_005263432		Approved	CSTN1, KIAA0911, CDHR12	uc001aqh.3	O94985	OTTHUMG00000001451	ENST00000377298.4:c.975C>T	1.37:g.9809529G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K183|Q5SR52|Q5UE58|Q71MN0|Q8N4K9	Silent	SNP	ENST00000377298.4	37	CCDS30580.1																																																																																				0.557	CLSTN1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000004239.1			A	9809529	G	A	9809529	2	1	619	1	0	0	0	0	0	0	0	1	3563	1252	44	2		2	CLSTN1	1	9809529	Silent	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10		9809529	239441092	1	37899										
CSDE1	7812	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	115277116	115277116	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ttgtttctttttcaacagcaTaatgttgcgagcacttacag	7	8	2	0	rs200868850		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr1:115277116T>A	ENST00000358528.4	-	7	955	c.529A>T	c.(529-531)Atg>Ttg	p.M177L	CSDE1_ENST00000438362.2_Missense_Mutation_p.M223L|CSDE1_ENST00000261443.5_Missense_Mutation_p.M146L|CSDE1_ENST00000530886.1_Missense_Mutation_p.M47L|CSDE1_ENST00000369530.1_Missense_Mutation_p.M192L|CSDE1_ENST00000534699.1_Missense_Mutation_p.M177L|CSDE1_ENST00000339438.6_Missense_Mutation_p.M146L	NM_001007553.2	NP_001007554.1	O75534	CSDE1_HUMAN	cold shock domain containing E1, RNA-binding	177	CSD 2; truncated.				male gonad development (GO:0008584)|nuclear-transcribed mRNA catabolic process, no-go decay (GO:0070966)|regulation of transcription, DNA-templated (GO:0006355)	CRD-mediated mRNA stability complex (GO:0070937)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(4)|endometrium(11)|kidney(2)|large_intestine(12)|lung(17)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	51	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;2.21e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTCAACAGCATAATGTTGCGA	0.388																																																0													80	80	80					1																	115277116		2203	4300	6503	SO:0001583	missense	7812				CCDS30811.1, CCDS30812.1, CCDS44197.1, CCDS55626.1	1p13.2	2011-11-02			ENSG00000009307	ENSG00000009307			29905	protein-coding gene	gene with protein product	"upstream of NRAS"	191510				2204029, 10048485	Standard	NM_007158		Approved	D1S155E, UNR	uc001efi.3	O75534	OTTHUMG00000012060	ENST00000358528.4:c.529A>T	1.37:g.115277116T>A	ENSP00000351329:p.Met177Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K281|E9PGZ0|G5E9Q2|O94961|Q5TF04|Q5TF05|Q68DF1|Q68DI9|Q9Y2S4	Missense_Mutation	SNP	ENST00000358528.4	37	CCDS30812.1	.	.	.	.	.	.	.	.	.	.	T	15.16	2.752407	0.49362	.	.	ENSG00000009307	ENST00000339438;ENST00000438362;ENST00000358528;ENST00000261443;ENST00000530886;ENST00000369530;ENST00000534699;ENST00000529046	.	.	.	5.82	4.67	0.58626	Nucleic acid-binding, OB-fold-like (1);	0.141721	0.64402	D	0.000006	T	0.42337	0.1198	L	0.29908	0.895	0.36744	D	0.882387	B;B;B	0.29805	0.04;0.0;0.257	B;B;P	0.44623	0.008;0.0;0.455	T	0.48198	-0.9056	9	0.42905	T	0.14	-0.4958	13.0463	0.58928	0.0:0.0:0.1344:0.8656	.	192;177;223	E9PGZ0;O75534;G5E9Q2	.;CSDE1_HUMAN;.	L	146;223;177;146;47;192;177;47	.	ENSP00000261443:M146L	M	-	1	0	CSDE1	115078639	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	3.781000	0.55394	0.999000	0.39023	0.460000	0.39030	ATG		0.388	CSDE1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033397.1	NM_007158		A	115277116	T	A	115277116	3	1	619	1	0	0	0	0	1	0	0	0	3931	1406	49	5	1923	5	CSDE1	1	115277116	Missense_Mutation	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10	105467587	115277116	133973505	2	37900										
POLR3C	10623	broad.mit.edu	37	chr1	145608259	145608259	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tctgccagtcgcacaaatgtGtttgatacttcagcatagtc	8	10	2	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr1:145608259G>T	ENST00000334163.3	-	4	598	c.438C>A	c.(436-438)aaC>aaA	p.N146K	POLR3C_ENST00000369294.1_Missense_Mutation_p.N146K|RNF115_ENST00000369291.5_5'Flank|POLR3C_ENST00000471254.1_5'UTR	NM_006468.6	NP_006459.3	Q9BUI4	RPC3_HUMAN	polymerase (RNA) III (DNA directed) polypeptide C (62kD)	146					defense response to virus (GO:0051607)|gene expression (GO:0010467)|innate immune response (GO:0045087)|positive regulation of innate immune response (GO:0045089)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of type I interferon production (GO:0032481)|regulation of transcription from RNA polymerase III promoter (GO:0006359)|termination of RNA polymerase III transcription (GO:0006386)|transcription elongation from RNA polymerase III promoter (GO:0006385)|transcription from RNA polymerase III promoter (GO:0006383)	cytosol (GO:0005829)|DNA-directed RNA polymerase III complex (GO:0005666)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)			breast(2)|endometrium(4)|kidney(1)|large_intestine(3)|liver(1)|lung(8)|ovary(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	25	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)		Epithelial(2;7.55e-13)			GCACAAATGTGTTTGATACTT	0.517																																																0													186	166	173					1																	145608259		2203	4300	6503	SO:0001583	missense	10623			AJ238234	CCDS72864.1	1q21	2013-01-21			ENSG00000186141	ENSG00000186141		"RNA polymerase subunits"	30076	protein-coding gene	gene with protein product						9171375, 12391170	Standard	NM_006468		Approved	RPC62, RPC3	uc001eoh.3	Q9BUI4	OTTHUMG00000013753	ENST00000334163.3:c.438C>A	1.37:g.145608259G>T	ENSP00000334564:p.Asn146Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O15317|Q9Y3R6	Missense_Mutation	SNP	ENST00000334163.3	37	CCDS921.1	.	.	.	.	.	.	.	.	.	.	G	5.188	0.220179	0.09863	.	.	ENSG00000186141	ENST00000334163;ENST00000369294	T;T	0.39229	1.09;1.09	5.41	3.53	0.40419	RNA polymerase III Rpc82, C -terminal (1);	0.652107	0.17151	N	0.185056	T	0.09468	0.0233	N	0.20986	0.625	0.40998	D	0.984907	B;B;B	0.11235	0.003;0.002;0.004	B;B;B	0.12156	0.002;0.002;0.007	T	0.16424	-1.0403	10	0.06236	T	0.91	-13.0953	9.1782	0.37125	0.1803:0.0:0.8197:0.0	.	146;146;146	E9PHH9;Q9BUI4;Q53F76	.;RPC3_HUMAN;.	K	146	ENSP00000334564:N146K;ENSP00000358300:N146K	ENSP00000334564:N146K	N	-	3	2	POLR3C	144319616	0.975000	0.34042	0.976000	0.42696	0.395000	0.30598	1.682000	0.37628	0.640000	0.30582	0.655000	0.94253	AAC		0.517	POLR3C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000038542.1	NM_006468		T	145608259	G	T	145608259	3	4	619	1	0	0	0	0	1	0	0	0	12237	1368	48	4	1214	4	POLR3C	1	145608259	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	30331143	145608259	103642362	3	37901										
ACP6	51205	broad.mit.edu	37	chr1	147142085	147142085	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cctgcagctcggccagggccAcccgccgctggtgcaggcag	15	17	0	0	rs201678741		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr1:147142085A>C	ENST00000369238.6	-	1	533	c.86T>G	c.(85-87)gTg>gGg	p.V29G	ACP6_ENST00000392988.2_Missense_Mutation_p.V29G	NM_016361.3	NP_057445.4	Q9NPH0	PPA6_HUMAN	acid phosphatase 6, lysophosphatidic	29					dephosphorylation (GO:0016311)|lysobisphosphatidic acid metabolic process (GO:2001311)|phospholipid metabolic process (GO:0006644)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)	acid phosphatase activity (GO:0003993)|lysophosphatidic acid phosphatase activity (GO:0052642)			breast(1)|cervix(2)|endometrium(1)|kidney(1)|large_intestine(2)|lung(4)|ovary(4)|prostate(1)	16	all_hematologic(923;0.0276)					GGCCAGGGCCACCCGCCGCTG	0.657																																																0													12	10	11					1																	147142085		2053	4027	6080	SO:0001583	missense	51205			BC009965	CCDS928.1	1q21	2008-02-05			ENSG00000162836	ENSG00000162836			29609	protein-coding gene	gene with protein product		611471				12010880, 10506173	Standard	NM_016361		Approved	LPAP, ACPL1	uc001epr.2	Q9NPH0	OTTHUMG00000014019	ENST00000369238.6:c.86T>G	1.37:g.147142085A>C	ENSP00000358241:p.Val29Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q59G61|Q5T490|Q6IAQ3|Q7LG81|Q9UIG6	Missense_Mutation	SNP	ENST00000369238.6	37	CCDS928.1	.	.	.	.	.	.	.	.	.	.	A	13.14	2.149393	0.37923	.	.	ENSG00000162836	ENST00000369238;ENST00000392988	T;T	0.48522	2.65;0.81	5.28	-5.16	0.02857	.	0.609019	0.16327	N	0.219309	T	0.09555	0.0235	L	0.34521	1.04	0.43385	D	0.99549	B;B	0.06786	0.001;0.0	B;B	0.09377	0.004;0.001	T	0.22730	-1.0208	10	0.19147	T	0.46	.	1.0577	0.01593	0.2021:0.3491:0.2212:0.2275	.	29;29	Q9NPH0-2;Q9NPH0	.;PPA6_HUMAN	G	29	ENSP00000358241:V29G;ENSP00000376714:V29G	ENSP00000358241:V29G	V	-	2	0	ACP6	145608709	0.001000	0.12720	0.927000	0.36925	0.947000	0.59692	-0.635000	0.05471	-0.919000	0.03803	-0.460000	0.05396	GTG		0.657	ACP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039420.2	NM_016361		C	147142085	A	C	147142085	3	2	619	1	0	0	0	0	1	0	0	0	165	159	6	5	1240	5	ACP6	1	147142085	Missense_Mutation	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10	1533826	147142085	102108536	4	37902										
RPRD2	23248	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	150443766	150443766	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	agatgaaagctacccccgagAgctctccaattctgtatcta	7	12	3	3			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr1:150443766A>C	ENST00000369068.4	+	11	2346	c.2342A>C	c.(2341-2343)gAg>gCg	p.E781A	RPRD2_ENST00000539519.1_Missense_Mutation_p.E755A|RPRD2_ENST00000492220.1_3'UTR|RPRD2_ENST00000401000.4_Missense_Mutation_p.E755A	NM_015203.3	NP_056018.2	Q5VT52	RPRD2_HUMAN	regulation of nuclear pre-mRNA domain containing 2	781	Ser-rich.					DNA-directed RNA polymerase II, holoenzyme (GO:0016591)				central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(4)|lung(20)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	37						TACCCCCGAGAGCTCTCCAAT	0.498																																																0													84	79	81					1																	150443766		1895	4111	6006	SO:0001583	missense	23248			BX641025	CCDS44216.1, CCDS72907.1	1q21.2	2012-02-09	2008-08-15	2008-07-28	ENSG00000163125	ENSG00000163125			29039	protein-coding gene	gene with protein product		614695	"KIAA0460"	KIAA0460		22231121	Standard	XM_005245033		Approved	FLJ32145, HSPC099	uc009wlr.3	Q5VT52	OTTHUMG00000012808	ENST00000369068.4:c.2342A>C	1.37:g.150443766A>C	ENSP00000358064:p.Glu781Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6N8|B3KPT1|B4E2Q6|O75048|Q5VT51|Q5VT53|Q6MZL4|Q86XD2|Q9P0D7	Missense_Mutation	SNP	ENST00000369068.4	37	CCDS44216.1	.	.	.	.	.	.	.	.	.	.	A	18.04	3.534839	0.64972	.	.	ENSG00000163125	ENST00000401000;ENST00000539519;ENST00000369068	T;T;T	0.53206	0.63;0.63;0.63	5.21	5.21	0.72293	.	0.000000	0.64402	D	0.000001	T	0.22781	0.0550	N	0.24115	0.695	0.32162	N	0.582853	B;P;P	0.46784	0.319;0.816;0.884	B;B;B	0.40477	0.048;0.177;0.33	T	0.14035	-1.0487	10	0.59425	D	0.04	-7.9453	15.2872	0.73835	1.0:0.0:0.0:0.0	.	755;781;755	B4E2Q6;Q5VT52;Q5VT52-3	.;RPRD2_HUMAN;.	A	755;755;781	ENSP00000383785:E755A;ENSP00000445482:E755A;ENSP00000358064:E781A	ENSP00000358064:E781A	E	+	2	0	RPRD2	148710390	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	6.543000	0.73874	2.194000	0.70268	0.529000	0.55759	GAG		0.498	RPRD2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000035844.1	NM_015203		C	150443766	A	C	150443766	3	2	619	1	0	0	0	0	1	0	0	0	13630	304	11	5	2384	5	RPRD2	1	150443766	Missense_Mutation	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10	3301681	150443766	98806855	5	37903										
RPTN	126638	broad.mit.edu	37	chr1	152128054	152128054	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gtctgaccatagtgggaactTtggccttgtccgtctggctg	13	10	2	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr1:152128054T>C	ENST00000316073.3	-	3	1585	c.1521A>G	c.(1519-1521)caA>caG	p.Q507Q		NM_001122965.1	NP_001116437.1	Q6XPR3	RPTN_HUMAN	repetin	507	Gln-rich.					cornified envelope (GO:0001533)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)	p.Q507Q(1)		breast(2)|central_nervous_system(1)|endometrium(14)|kidney(2)|large_intestine(1)|lung(32)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	59						AGTGGGAACTTTGGCCTTGTC	0.498																																																1	Substitution - coding silent(1)	central_nervous_system(1)											824	714	748					1																	152128054		1568	3582	5150	SO:0001819	synonymous_variant	126638			AK096436	CCDS41397.1	1q21.3	2013-01-10			ENSG00000215853	ENSG00000215853		"EF-hand domain containing"	26809	protein-coding gene	gene with protein product		613259				15854042	Standard	NM_001122965		Approved	FLJ39117	uc001ezs.1	Q6XPR3	OTTHUMG00000154095	ENST00000316073.3:c.1521A>G	1.37:g.152128054T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBZ3	Silent	SNP	ENST00000316073.3	37	CCDS41397.1																																																																																				0.498	RPTN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333867.1	XM_371312		C	152128054	T	C	152128054	2	2	619	1	0	0	0	0	0	0	0	1	13677	1838	64	3		3	RPTN	1	152128054	Silent	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10	1684288	152128054	97122567	6	37904										
KIAA1614	57710	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	180885446	180885457	+	In_Frame_Del	DEL	TCCCAGGGTATG	TCCCAGGGTATG	-													0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	agcctgatggccccccagccTcccagggtatggggagtaca					rs377550267		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	TCCCAGGGTATG	TCCCAGGGTATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr1:180885446_180885457delTCCCAGGGTATG	ENST00000367588.4	+	2	262_273	c.207_218delTCCCAGGGTATG	c.(205-219)cctcccagggtatgg>ccg	p.PRVW70del		NM_020950.1	NP_066001.1	Q5VZ46	K1614_HUMAN	KIAA1614	70										NS(1)|endometrium(5)|kidney(2)|large_intestine(2)|lung(12)|ovary(5)|pancreas(1)|prostate(1)|skin(3)|urinary_tract(1)	33						CCCCCCAGCCTCCCAGGGTATGGGGAGTACAG	0.599																																																0																																										SO:0001651	inframe_deletion	57710			AB046834	CCDS41442.1	1q25.3	2008-02-05			ENSG00000135835	ENSG00000135835			29327	protein-coding gene	gene with protein product							Standard	NM_020950		Approved		uc001gok.2	Q5VZ46	OTTHUMG00000035183	ENST00000367588.4:c.207_218delTCCCAGGGTATG	1.37:g.180885446_180885457delTCCCAGGGTATG	ENSP00000356560:p.Pro70_Trp73del	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VZ45|Q9HCF8	In_Frame_Del	DEL	ENST00000367588.4	37	CCDS41442.1																																																																																				0.599	KIAA1614-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000085151.1	XM_046531		-	180885457	TCCCAGGGTATG	-	180885446	7	5	619	1	0	1	0	1	0	0	0	0	8255	1538	54	0	213	0	KIAA1614	1	180885446	In_Frame_Del	DEL	TCCCAGGGTATG	TCGA-IZ-A6M9-01A-11D-A31X-10	28757392	180885446	68365175	7	37905										
KDM5B	10765	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	202701002	202701002	+	Nonsense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gttgagaagggggagtgcaaAtatgaggttctgttgtccca	15	5	1	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr1:202701002A>C	ENST00000367265.3	-	24	5139	c.3975T>G	c.(3973-3975)taT>taG	p.Y1325*	KDM5B_ENST00000367264.2_Nonsense_Mutation_p.Y1361*	NM_006618.3	NP_006609.3	Q9UGL1	KDM5B_HUMAN	lysine (K)-specific demethylase 5B	1325					histone H3-K4 demethylation (GO:0034720)|histone H3-K4 demethylation, trimethyl-H3-K4-specific (GO:0034721)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone demethylase activity (H3-dimethyl-K4 specific) (GO:0034648)|histone demethylase activity (H3-trimethyl-K4 specific) (GO:0034647)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			breast(2)|ovary(2)|skin(1)|urinary_tract(1)	6						GGGAGTGCAAATATGAGGTTC	0.408																																																0													111	106	108					1																	202701002		2203	4300	6503	SO:0001587	stop_gained	10765			AJ243706	CCDS30974.1	1q32.1	2014-06-12	2009-04-06	2009-04-06	ENSG00000117139	ENSG00000117139		"Chromatin-modifying enzymes / K-demethylases", "Zinc fingers, PHD-type"	18039	protein-coding gene	gene with protein product	"cancer/testis antigen 31", "protein phosphatase 1, regulatory subunit 98"	605393	"Jumonji, AT rich interactive domain 1B (RBP2-like)", "jumonji, AT rich interactive domain 1B"	JARID1B		11483573, 11478881	Standard	NM_006618		Approved	RBBP2H1A, PLU-1, CT31, PPP1R98	uc001gyf.3	Q9UGL1	OTTHUMG00000041401	ENST00000367265.3:c.3975T>G	1.37:g.202701002A>C	ENSP00000356234:p.Tyr1325*	Somatic		WXS	Illumina HiSeq	Phase_I	O95811|Q15752|Q9Y3Q5	Nonsense_Mutation	SNP	ENST00000367265.3	37	CCDS30974.1	.	.	.	.	.	.	.	.	.	.	A	47	13.303743	0.99733	.	.	ENSG00000117139	ENST00000367265;ENST00000538292;ENST00000367264;ENST00000235790	.	.	.	5.78	3.41	0.39046	.	0.229878	0.47093	D	0.000247	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-4.4004	7.269	0.26246	0.7476:0.1297:0.1226:0.0	.	.	.	.	X	1325;1167;1361;1167	.	ENSP00000235790:Y1167X	Y	-	3	2	KDM5B	200967625	0.999000	0.42202	0.375000	0.26029	0.998000	0.95712	1.112000	0.31172	1.096000	0.41439	0.533000	0.62120	TAT		0.408	KDM5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000099184.2	NM_006618		C	202701002	A	C	202701002	4	2	619	1	0	0	0	0	0	1	0	0	8141	108	4	5	675	5	KDM5B	1	202701002	Nonsense_Mutation	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10	21815556	202701002	46549619	8	37906										
PLXNA2	5362	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	208234136	208234136	+	Missense_Mutation	SNP	A	A	T													0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gacccaggttcacgccatggAtggtcactcgcgtccctcct							TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr1:208234136A>T	ENST00000367033.3	-	13	3390	c.2633T>A	c.(2632-2634)aTc>aAc	p.I878N		NM_025179.3	NP_079455.3	O75051	PLXA2_HUMAN	plexin A2	878	IPT/TIG 1.				axon guidance (GO:0007411)|centrosome localization (GO:0051642)|cerebellar granule cell precursor tangential migration (GO:0021935)|limb bud formation (GO:0060174)|neural tube development (GO:0021915)|pharyngeal system development (GO:0060037)|regulation of cell migration (GO:0030334)|semaphorin-plexin signaling pathway (GO:0071526)|somitogenesis (GO:0001756)	integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|semaphorin receptor complex (GO:0002116)	semaphorin receptor activity (GO:0017154)			NS(1)|breast(3)|central_nervous_system(5)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|liver(1)|lung(28)|ovary(3)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)	80				OV - Ovarian serous cystadenocarcinoma(81;0.199)		CACGCCATGGATGGTCACTCG	0.582																																																0													64	59	60					1																	208234136		2203	4300	6503	SO:0001583	missense	5362			X87831	CCDS31013.1	1q32.2	2008-07-18			ENSG00000076356	ENSG00000076356		"Plexins"	9100	protein-coding gene	gene with protein product	"plexin 2", "plexin-A2", "semaphorin receptor OCT", "transmembrane protein OCT"	601054		PLXN2		8570614	Standard	NM_025179		Approved	OCT, FLJ11751, FLJ30634, KIAA0463	uc001hgz.3	O75051	OTTHUMG00000036564	ENST00000367033.3:c.2633T>A	1.37:g.208234136A>T	ENSP00000356000:p.Ile878Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A2RTX9|B2RMX7|Q6UX61|Q96GN9|Q9BRL1|Q9UIW1	Missense_Mutation	SNP	ENST00000367033.3	37	CCDS31013.1	.	.	.	.	.	.	.	.	.	.	A	26.6	4.751914	0.89753	.	.	ENSG00000076356	ENST00000367033	T	0.70869	-0.52	4.75	4.75	0.60458	Cell surface receptor IPT/TIG (2);Immunoglobulin E-set (1);Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	D	0.87744	0.6254	H	0.94847	3.59	0.80722	D	1	D	0.76494	0.999	D	0.75020	0.985	D	0.91215	0.5002	10	0.87932	D	0	.	14.2819	0.66219	1.0:0.0:0.0:0.0	.	878	O75051	PLXA2_HUMAN	N	878	ENSP00000356000:I878N	ENSP00000356000:I878N	I	-	2	0	PLXNA2	206300759	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	8.956000	0.93066	1.787000	0.52448	0.533000	0.62120	ATC		0.582	PLXNA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088932.6	NM_025179		T	208234136	A	T	208234136	3	4	619	1	0	0	0	0	1	0	0	0	12127	333	12	5	3131	5	PLXNA2	1	208234136	Missense_Mutation	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10	5533134	208234136	41016485	9	37907	298	2								
PLXNA2	5362	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	208234142	208234142	+	Missense_Mutation	SNP	A	A	G													0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ggttcacgccatggatggtcActcgcgtccctccttccggc							TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr1:208234142A>G	ENST00000367033.3	-	13	3384	c.2627T>C	c.(2626-2628)gTg>gCg	p.V876A		NM_025179.3	NP_079455.3	O75051	PLXA2_HUMAN	plexin A2	876	IPT/TIG 1.				axon guidance (GO:0007411)|centrosome localization (GO:0051642)|cerebellar granule cell precursor tangential migration (GO:0021935)|limb bud formation (GO:0060174)|neural tube development (GO:0021915)|pharyngeal system development (GO:0060037)|regulation of cell migration (GO:0030334)|semaphorin-plexin signaling pathway (GO:0071526)|somitogenesis (GO:0001756)	integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|semaphorin receptor complex (GO:0002116)	semaphorin receptor activity (GO:0017154)			NS(1)|breast(3)|central_nervous_system(5)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|liver(1)|lung(28)|ovary(3)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)	80				OV - Ovarian serous cystadenocarcinoma(81;0.199)		ATGGATGGTCACTCGCGTCCC	0.587																																																0													62	57	59					1																	208234142		2203	4300	6503	SO:0001583	missense	5362			X87831	CCDS31013.1	1q32.2	2008-07-18			ENSG00000076356	ENSG00000076356		"Plexins"	9100	protein-coding gene	gene with protein product	"plexin 2", "plexin-A2", "semaphorin receptor OCT", "transmembrane protein OCT"	601054		PLXN2		8570614	Standard	NM_025179		Approved	OCT, FLJ11751, FLJ30634, KIAA0463	uc001hgz.3	O75051	OTTHUMG00000036564	ENST00000367033.3:c.2627T>C	1.37:g.208234142A>G	ENSP00000356000:p.Val876Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A2RTX9|B2RMX7|Q6UX61|Q96GN9|Q9BRL1|Q9UIW1	Missense_Mutation	SNP	ENST00000367033.3	37	CCDS31013.1	.	.	.	.	.	.	.	.	.	.	A	29.5	5.008254	0.93346	.	.	ENSG00000076356	ENST00000367033	T	0.66815	-0.23	4.75	4.75	0.60458	Cell surface receptor IPT/TIG (2);Immunoglobulin E-set (1);Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	T	0.81917	0.4924	M	0.91920	3.255	0.80722	D	1	D	0.54397	0.966	P	0.55824	0.785	D	0.86680	0.1916	10	0.87932	D	0	.	14.2819	0.66219	1.0:0.0:0.0:0.0	.	876	O75051	PLXA2_HUMAN	A	876	ENSP00000356000:V876A	ENSP00000356000:V876A	V	-	2	0	PLXNA2	206300765	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	8.956000	0.93066	1.787000	0.52448	0.533000	0.62120	GTG		0.587	PLXNA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088932.6	NM_025179		G	208234142	A	G	208234142	3	3	619	1	0	0	0	0	1	0	0	0	12127	159	6	3	3137	3	PLXNA2	1	208234142	Missense_Mutation	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10	6	208234142	41016479	10	37908	298	2								
PTPN14	5784	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	214557537	214557537	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tcttaagcatgtgggccgtgCtgtagttatggctgccctgc	13	10	1	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr1:214557537C>T	ENST00000366956.5	-	13	1855	c.1661G>A	c.(1660-1662)aGc>aAc	p.S554N	PTPN14_ENST00000543945.1_3'UTR	NM_005401.4	NP_005392.2	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type 14	554					lymphangiogenesis (GO:0001946)|negative regulation of cell proliferation (GO:0008285)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)|regulation of protein export from nucleus (GO:0046825)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)	protein tyrosine phosphatase activity (GO:0004725)|receptor tyrosine kinase binding (GO:0030971)|transcription cofactor activity (GO:0003712)			NS(2)|breast(3)|cervix(1)|endometrium(7)|kidney(2)|large_intestine(9)|liver(3)|lung(21)|ovary(1)|pancreas(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	58				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		GTGGGCCGTGCTGTAGTTATG	0.632																																					Colon(92;557 1424 24372 34121 40073)											0													67	69	68					1																	214557537		2203	4300	6503	SO:0001583	missense	5784			X82676	CCDS1514.1	1q32.2	2011-06-09			ENSG00000152104	ENSG00000152104		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Non-receptor"	9647	protein-coding gene	gene with protein product		603155				7733990	Standard	NM_005401		Approved	PEZ	uc001hkk.2	Q15678	OTTHUMG00000037039	ENST00000366956.5:c.1661G>A	1.37:g.214557537C>T	ENSP00000355923:p.Ser554Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VSI0	Missense_Mutation	SNP	ENST00000366956.5	37	CCDS1514.1	.	.	.	.	.	.	.	.	.	.	C	5.545	0.285458	0.10513	.	.	ENSG00000152104	ENST00000366956	T	0.67523	-0.27	5.51	-1.94	0.07571	.	0.544215	0.22141	N	0.064056	T	0.36635	0.0974	N	0.11560	0.145	0.28282	N	0.923954	B	0.02656	0.0	B	0.01281	0.0	T	0.21759	-1.0236	10	0.14252	T	0.57	.	6.8274	0.23891	0.113:0.4191:0.0:0.468	.	554	Q15678	PTN14_HUMAN	N	554	ENSP00000355923:S554N	ENSP00000355923:S554N	S	-	2	0	PTPN14	212624160	0.001000	0.12720	0.056000	0.19401	0.764000	0.43329	-0.747000	0.04823	-0.259000	0.09432	0.650000	0.86243	AGC		0.632	PTPN14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089918.2	NM_005401		T	214557537	C	T	214557537	3	4	619	1	0	0	0	0	1	0	0	0	12794	797	28	2	1930	2	PTPN14	1	214557537	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	6323395	214557537	34693084	11	37909										
DNAJC5G	285126	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	27500675	27500675	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gtatcacctgggtaggaaacTggccttgcggtatcatcccg	12	11	2	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr2:27500675T>A	ENST00000296097.3	+	4	585	c.167T>A	c.(166-168)cTg>cAg	p.L56Q	DNAJC5G_ENST00000404433.1_Missense_Mutation_p.L40Q|DNAJC5G_ENST00000402462.1_Missense_Mutation_p.L56Q|SLC30A3_ENST00000447008.2_5'Flank|DNAJC5G_ENST00000406962.1_Intron	NM_173650.1	NP_775921.1	Q8N7S2	DNJ5G_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5 gamma	56	J. {ECO:0000255|PROSITE- ProRule:PRU00286}.					membrane (GO:0016020)				cervix(1)|large_intestine(2)|lung(5)|skin(1)|urinary_tract(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGTAGGAAACTGGCCTTGCGG	0.488																																																0													107	102	104					2																	27500675		2203	4300	6503	SO:0001583	missense	285126			AF368277	CCDS1744.1	2p23	2011-09-02			ENSG00000163793	ENSG00000163793		"Heat shock proteins / DNAJ (HSP40)"	24844	protein-coding gene	gene with protein product		613946					Standard	NM_173650		Approved	FLJ40417, CSP-gamma	uc002rjl.1	Q8N7S2	OTTHUMG00000097079	ENST00000296097.3:c.167T>A	2.37:g.27500675T>A	ENSP00000296097:p.Leu56Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DY29|Q53SY5|Q8IYQ4|Q96RJ8	Missense_Mutation	SNP	ENST00000296097.3	37	CCDS1744.1	.	.	.	.	.	.	.	.	.	.	T	17.86	3.492169	0.64074	.	.	ENSG00000163793	ENST00000296097;ENST00000402462;ENST00000404433	T;T;T	0.46819	0.86;0.86;0.86	5.09	5.09	0.68999	Heat shock protein DnaJ, N-terminal (5);	0.000000	0.40554	N	0.001066	T	0.65780	0.2724	M	0.69248	2.105	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.69247	-0.5195	10	0.72032	D	0.01	.	12.8356	0.57771	0.0:0.0:0.0:1.0	.	56	Q8N7S2	DNJ5G_HUMAN	Q	56;56;40	ENSP00000296097:L56Q;ENSP00000384305:L56Q;ENSP00000385829:L40Q	ENSP00000296097:L56Q	L	+	2	0	DNAJC5G	27354179	1.000000	0.71417	1.000000	0.80357	0.243000	0.25628	7.834000	0.86773	1.926000	0.55796	0.455000	0.32223	CTG		0.488	DNAJC5G-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000214200.1	NM_173650		A	27500675	T	A	27500675	3	1	619	1	0	0	0	0	1	0	0	0	4654	1580	55	5	173	5	DNAJC5G	2	27500675	Missense_Mutation	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10		27500675	215698698	12	37910										
GPR39	2863	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	133403162	133403162	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ctgctgcagagaatggttttCaggagcatgaagtttgaatg	13	5	1	3			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr2:133403162C>A	ENST00000329321.3	+	2	1814	c.1345C>A	c.(1345-1347)Cag>Aag	p.Q449K	LYPD1_ENST00000397463.2_3'UTR|GPR39_ENST00000470071.1_3'UTR	NM_001508.2	NP_001499.1	O43194	GPR39_HUMAN	G protein-coupled receptor 39	449					G-protein coupled receptor signaling pathway (GO:0007186)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|metal ion binding (GO:0046872)			breast(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(8)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	22						GAATGGTTTTCAGGAGCATGA	0.532																																																0													54	58	57					2																	133403162		2203	4300	6503	SO:0001583	missense	2863			AF034633	CCDS2170.1	2q21-q22	2012-08-21			ENSG00000183840	ENSG00000183840		"GPCR / Class A : Orphans"	4496	protein-coding gene	gene with protein product		602886				9441746	Standard	NM_001508		Approved		uc002ttl.3	O43194	OTTHUMG00000131679	ENST00000329321.3:c.1345C>A	2.37:g.133403162C>A	ENSP00000327417:p.Gln449Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RC12|B6V9G4|Q08AS2|Q53R01	Missense_Mutation	SNP	ENST00000329321.3	37	CCDS2170.1	.	.	.	.	.	.	.	.	.	.	C	0.009	-1.834578	0.00579	.	.	ENSG00000183840	ENST00000329321	T	0.65178	-0.14	5.15	3.18	0.36537	.	3.248910	0.01165	N	0.006739	T	0.56992	0.2023	L	0.57536	1.79	0.37755	D	0.926099	B	0.02656	0.0	B	0.01281	0.0	T	0.51741	-0.8667	10	0.16896	T	0.51	.	4.3592	0.11194	0.4322:0.446:0.0:0.1219	.	449	O43194	GPR39_HUMAN	K	449	ENSP00000327417:Q449K	ENSP00000327417:Q449K	Q	+	1	0	GPR39	133119632	0.326000	0.24669	0.628000	0.29241	0.050000	0.14768	0.714000	0.25808	1.393000	0.46605	-0.188000	0.12872	CAG		0.532	GPR39-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254582.1			A	133403162	C	A	133403162	3	1	619	1	0	0	0	0	1	0	0	0	6700	827	29	4	1351	4	GPR39	2	133403162	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	105902487	133403162	109796211	13	37911										
NEB	4703	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	152382499	152382499	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	acatgcttggtcacttccttGacgtgaacagtgtcccgggt	11	11	1	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr2:152382499G>A	ENST00000172853.10	-	122	17178	c.17031C>T	c.(17029-17031)gtC>gtT	p.V5677V	NEB_ENST00000397345.3_Silent_p.V7378V|NEB_ENST00000409198.1_Silent_p.V5677V|NEB_ENST00000604864.1_Silent_p.V7378V|NEB_ENST00000603639.1_Silent_p.V7378V|NEB_ENST00000427231.2_Silent_p.V7378V			P20929	NEBU_HUMAN	nebulin	5677					muscle filament sliding (GO:0030049)|muscle organ development (GO:0007517)|regulation of actin filament length (GO:0030832)|somatic muscle development (GO:0007525)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|Z disc (GO:0030018)	structural constituent of muscle (GO:0008307)	p.V5677V(1)|p.V7378V(1)		NS(5)|autonomic_ganglia(3)|breast(9)|central_nervous_system(5)|cervix(3)|endometrium(35)|kidney(16)|large_intestine(77)|liver(1)|lung(99)|ovary(9)|pancreas(3)|prostate(13)|skin(7)|stomach(8)|upper_aerodigestive_tract(6)|urinary_tract(2)	301				BRCA - Breast invasive adenocarcinoma(221;0.219)		TCACTTCCTTGACGTGAACAG	0.483																																																2	Substitution - coding silent(2)	lung(2)											300	294	296					2																	152382499		2038	4201	6239	SO:0001819	synonymous_variant	4703			X83957	CCDS46424.1, CCDS54407.1, CCDS54408.1, CCDS74588.1	2q22	2014-09-17			ENSG00000183091	ENSG00000183091			7720	protein-coding gene	gene with protein product	"nemaline myopathy type 2"	161650		NEM2		10051637, 9359044	Standard	NM_001164507		Approved	NEB177D	uc010fnx.3	P20929	OTTHUMG00000153784	ENST00000172853.10:c.17031C>T	2.37:g.152382499G>A		Somatic		WXS	Illumina HiSeq	Phase_I	F8WCL5|F8WCP0|Q15346|Q53QQ2|Q53TG8	Silent	SNP	ENST00000172853.10	37		.	.	.	.	.	.	.	.	.	.	G	10.46	1.355381	0.24512	.	.	ENSG00000183091	ENST00000434685	.	.	.	6.07	5.2	0.72013	.	.	.	.	.	T	0.63885	0.2549	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.62756	-0.6787	4	.	.	.	.	12.0778	0.53653	0.0656:0.1214:0.813:0.0	.	.	.	.	L	1	.	.	S	-	2	0	NEB	152090745	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	4.792000	0.62467	1.582000	0.49881	0.655000	0.94253	TCA		0.483	NEB-201	KNOWN	basic	protein_coding	protein_coding		NM_004543		A	152382499	G	A	152382499	2	1	619	1	0	0	0	0	0	0	0	1	10309	1277	45	2		2	NEB	2	152382499	Silent	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	18979337	152382499	90816874	14	37912										
AGPS	8540	broad.mit.edu;bcgsc.ca	37	chr2	178301756	178301756	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cagggaaggaatgtttgagcGaattcctgatatagttttat	11	4	0	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr2:178301756G>T	ENST00000264167.4	+	5	757	c.611G>T	c.(610-612)cGa>cTa	p.R204L	AGPS_ENST00000409888.1_Intron	NM_003659.3	NP_003650.1	O00116	ADAS_HUMAN	alkylglycerone phosphate synthase	204	FAD-binding PCMH-type. {ECO:0000255|PROSITE-ProRule:PRU00718}.				cellular lipid metabolic process (GO:0044255)|ether lipid biosynthetic process (GO:0008611)|lipid biosynthetic process (GO:0008610)|small molecule metabolic process (GO:0044281)	intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|peroxisomal matrix (GO:0005782)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	alkylglycerone-phosphate synthase activity (GO:0008609)|FAD binding (GO:0071949)|UDP-N-acetylmuramate dehydrogenase activity (GO:0008762)	p.R204Q(1)		breast(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(8)|lung(12)|ovary(2)|skin(1)	32			OV - Ovarian serous cystadenocarcinoma(117;0.0018)|Epithelial(96;0.00919)|all cancers(119;0.0358)			ATGTTTGAGCGAATTCCTGAT	0.303																																																1	Substitution - Missense(1)	large_intestine(1)											125	132	130					2																	178301756		2203	4300	6503	SO:0001583	missense	8540			Y09443	CCDS2275.1	2q	2008-02-05			ENSG00000018510	ENSG00000018510	2.5.1.26		327	protein-coding gene	gene with protein product		603051				9187299, 9553082	Standard	NM_003659		Approved	ADHAPS, ADAS, ALDHPSY, ADPS, ADAP-S	uc002ull.2	O00116	OTTHUMG00000132530	ENST00000264167.4:c.611G>T	2.37:g.178301756G>T	ENSP00000264167:p.Arg204Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A5D8U9|Q2TU35	Missense_Mutation	SNP	ENST00000264167.4	37	CCDS2275.1	.	.	.	.	.	.	.	.	.	.	G	24.5	4.541251	0.85917	.	.	ENSG00000018510	ENST00000264167;ENST00000536686	D	0.81739	-1.53	5.52	4.64	0.57946	FAD-binding, type 2, subdomain 1 (1);FAD-binding, type 2 (2);	0.000000	0.85682	D	0.000000	D	0.89760	0.6808	M	0.83852	2.665	0.80722	D	1	D	0.76494	0.999	D	0.79108	0.992	D	0.91173	0.4970	10	0.87932	D	0	.	14.2952	0.66308	0.0719:0.0:0.9281:0.0	.	204	O00116	ADAS_HUMAN	L	204;74	ENSP00000264167:R204L	ENSP00000264167:R204L	R	+	2	0	AGPS	178010002	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	8.468000	0.90393	1.315000	0.45114	0.655000	0.94253	CGA		0.303	AGPS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255730.2			T	178301756	G	T	178301756	3	4	619	1	0	0	0	0	1	0	0	0	394	1058	37	4	629	4	AGPS	2	178301756	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	25919257	178301756	64897617	15	37913										
COL3A1	1281	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	189867767	189867767	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cctcctggagttgcaggaccCcctggaggttctggacctgc	13	14	1	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr2:189867767C>T	ENST00000304636.3	+	36	2702	c.2532C>T	c.(2530-2532)ccC>ccT	p.P844P	COL3A1_ENST00000317840.5_Intron	NM_000090.3	NP_000081	P02461	CO3A1_HUMAN	collagen, type III, alpha 1	844	Triple-helical region.				aging (GO:0007568)|axon guidance (GO:0007411)|blood vessel development (GO:0001568)|cell-matrix adhesion (GO:0007160)|cellular response to amino acid stimulus (GO:0071230)|cerebral cortex development (GO:0021987)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|digestive tract development (GO:0048565)|extracellular fibril organization (GO:0043206)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|heart development (GO:0007507)|integrin-mediated signaling pathway (GO:0007229)|negative regulation of immune response (GO:0050777)|negative regulation of neuron migration (GO:2001223)|peptide cross-linking (GO:0018149)|platelet activation (GO:0030168)|positive regulation of Rho protein signal transduction (GO:0035025)|response to cytokine (GO:0034097)|response to mechanical stimulus (GO:0009612)|response to radiation (GO:0009314)|skeletal system development (GO:0001501)|skin development (GO:0043588)|transforming growth factor beta receptor signaling pathway (GO:0007179)|wound healing (GO:0042060)	collagen type III trimer (GO:0005586)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)	extracellular matrix structural constituent (GO:0005201)|integrin binding (GO:0005178)|metal ion binding (GO:0046872)|platelet-derived growth factor binding (GO:0048407)			NS(2)|breast(1)|central_nervous_system(7)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(17)|lung(60)|ovary(4)|pancreas(1)|prostate(5)|skin(10)|upper_aerodigestive_tract(3)|urinary_tract(3)	126			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)	TTGCAGGACCCCCTGGAGGTT	0.493																																																0													51	61	58					2																	189867767		2068	4020	6088	SO:0001819	synonymous_variant	1281			X15332	CCDS2297.1	2q32.2	2014-09-17	2008-06-23		ENSG00000168542	ENSG00000168542		"Collagens"	2201	protein-coding gene	gene with protein product		120180	"Ehlers-Danlos syndrome type IV, autosomal dominant"	EDS4A		2780304, 2834369	Standard	NM_000090		Approved		uc002uqj.1	P02461	OTTHUMG00000132648	ENST00000304636.3:c.2532C>T	2.37:g.189867767C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D2JYH5|D3DPH4|P78429|Q15112|Q16403|Q53S91|Q541P8|Q6LDB3|Q6LDJ2|Q6LDJ3|Q7KZ56|Q8N6U4|Q9UC88|Q9UC89|Q9UC90|Q9UC91|R4N3C5|V9GZI1	Silent	SNP	ENST00000304636.3	37	CCDS2297.1																																																																																				0.493	COL3A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255899.3	NM_000090		T	189867767	C	T	189867767	2	4	619	1	0	0	0	0	0	0	0	1	3690	610	22	2		2	COL3A1	2	189867767	Silent	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	11566011	189867767	53331606	16	37914										
NBEAL1	65065	ucsc.edu;bcgsc.ca	37	chr2	204045155	204045155	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tattcctgctacctggcaagCtcttatggataatccatatg	7	10	1	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr2:204045155C>T	ENST00000449802.1	+	42	6761	c.6428C>T	c.(6427-6429)gCt>gTt	p.A2143V		NM_001114132.1	NP_001107604.1	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1	2143	BEACH. {ECO:0000255|PROSITE- ProRule:PRU00026}.									NS(1)|breast(3)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(8)|liver(1)|lung(8)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	37						ACCTGGCAAGCTCTTATGGAT	0.328																																																0													121	114	116					2																	204045155		1833	4088	5921	SO:0001583	missense	65065			AY172970	CCDS46495.1	2q33	2013-01-10			ENSG00000144426	ENSG00000144426		"WD repeat domain containing"	20681	protein-coding gene	gene with protein product		609816	"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 17", "amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 16"	ALS2CR17, ALS2CR16		15193433	Standard	NM_001114132		Approved	MGC164581	uc002uzt.3	Q6ZS30	OTTHUMG00000154129	ENST00000449802.1:c.6428C>T	2.37:g.204045155C>T	ENSP00000399903:p.Ala2143Val	Somatic		WXS	Illumina HiSeq		A6NHD5|Q6Y876|Q6ZP36|Q6ZQY5|Q8N8R4|Q96Q30|Q96Q31	Missense_Mutation	SNP	ENST00000449802.1	37	CCDS46495.1	.	.	.	.	.	.	.	.	.	.	C	34	5.404068	0.96051	.	.	ENSG00000144426	ENST00000449802;ENST00000340268;ENST00000414576	T;T	0.80033	-1.33;-1.33	5.85	5.85	0.93711	BEACH domain (4);	0.266934	0.43260	D	0.000585	D	0.86426	0.5930	M	0.72479	2.2	0.58432	D	0.999998	P;P	0.52692	0.907;0.955	P;P	0.51974	0.686;0.673	D	0.86616	0.1876	10	0.56958	D	0.05	.	19.7681	0.96350	0.0:1.0:0.0:0.0	.	2143;2132	Q6ZS30;C9JGK5	NBEL1_HUMAN;.	V	2143;2143;158	ENSP00000399903:A2143V;ENSP00000388466:A158V	ENSP00000344985:A2143V	A	+	2	0	NBEAL1	203753400	1.000000	0.71417	0.997000	0.53966	0.967000	0.64934	7.624000	0.83124	2.768000	0.95171	0.655000	0.94253	GCT		0.328	NBEAL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333982.4			T	204045155	C	T	204045155	3	4	619	1	0	0	0	0	1	0	0	0	10195	797	28	2	6590	2	NBEAL1	2	204045155	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	14177388	204045155	39154218	17	37915										
PRKAR2A	5576	broad.mit.edu	37	chr3	48884918	48884918	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gcgggcctcgcgcaggcgggTgaagtactccactgcgaatt	15	12	0	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr3:48884918T>G	ENST00000265563.8	-	1	361	c.112A>C	c.(112-114)Acc>Ccc	p.T38P	PRKAR2A-AS1_ENST00000435419.1_RNA|PRKAR2A-AS1_ENST00000431705.1_RNA|PRKAR2A-AS1_ENST00000416209.2_RNA|PRKAR2A_ENST00000296446.8_Missense_Mutation_p.T38P|PRKAR2A_ENST00000454963.1_Missense_Mutation_p.T38P|PRKAR2A-AS1_ENST00000412171.2_RNA	NM_004157.2	NP_004148.1	P13861	KAP2_HUMAN	protein kinase, cAMP-dependent, regulatory, type II, alpha	38	Dimerization and phosphorylation.				activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|blood coagulation (GO:0007596)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|negative regulation of cAMP-dependent protein kinase activity (GO:2000480)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of insulin secretion (GO:0050796)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	AMP-activated protein kinase complex (GO:0031588)|cAMP-dependent protein kinase complex (GO:0005952)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|plasma membrane (GO:0005886)	cAMP binding (GO:0030552)|cAMP-dependent protein kinase inhibitor activity (GO:0004862)|cAMP-dependent protein kinase regulator activity (GO:0008603)|protein kinase A catalytic subunit binding (GO:0034236)|ubiquitin protein ligase binding (GO:0031625)		SLC26A6/PRKAR2A(2)	breast(1)|endometrium(1)|kidney(1)|large_intestine(1)|liver(1)|ovary(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.000176)|Kidney(197;0.00246)|KIRC - Kidney renal clear cell carcinoma(197;0.00261)		CGCAGGCGGGTGAAGTACTCC	0.731																																																0																																										SO:0001583	missense	5576				CCDS2778.1	3p21.3-p21.2	2009-07-10			ENSG00000114302	ENSG00000114302	2.7.11.1		9391	protein-coding gene	gene with protein product		176910		PRKAR2		9676433	Standard	NM_004157		Approved		uc003cux.1	P13861	OTTHUMG00000133540	ENST00000265563.8:c.112A>C	3.37:g.48884918T>G	ENSP00000265563:p.Thr38Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q16823|Q9BUB1	Missense_Mutation	SNP	ENST00000265563.8	37	CCDS2778.1	.	.	.	.	.	.	.	.	.	.	T	17.06	3.292833	0.60086	.	.	ENSG00000114302	ENST00000265563;ENST00000454963;ENST00000296446;ENST00000419216	T;T;T;T	0.77877	-1.13;-1.13;-1.13;-1.13	3.86	3.86	0.44501	cAMP-dependent protein kinase, regulatory subunit, type I/II alpha/beta (3);	0.000000	0.56097	D	0.000034	D	0.87325	0.6149	M	0.88031	2.925	0.80722	D	1	D;D	0.61080	0.989;0.989	D;D	0.71656	0.974;0.974	D	0.86994	0.2112	10	0.45353	T	0.12	-0.0721	8.6605	0.34091	0.0:0.0973:0.0:0.9027	.	38;38	Q9BUB1;P13861	.;KAP2_HUMAN	P	38	ENSP00000265563:T38P;ENSP00000394041:T38P;ENSP00000296446:T38P;ENSP00000411432:T38P	ENSP00000265563:T38P	T	-	1	0	PRKAR2A	48859922	1.000000	0.71417	1.000000	0.80357	0.292000	0.27327	3.137000	0.50562	1.521000	0.48983	0.377000	0.23210	ACC		0.731	PRKAR2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257518.1			G	48884918	T	G	48884918	3	3	619	1	0	0	0	0	1	0	0	0	12515	1696	59	5	1146	5	PRKAR2A	3	48884918	Missense_Mutation	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10		48884918	149137512	18	37916										
GLT8D1	55830	bcgsc.ca	37	chr3	52731772	52731772	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gtattgttgagagtaacaatGtagaaaatcacattggagcg	11	4	1	2	rs370367748		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr3:52731772G>T	ENST00000407584.3	-	5	1144	c.294C>A	c.(292-294)taC>taA	p.Y98*	GLT8D1_ENST00000266014.5_Nonsense_Mutation_p.Y98*|GLT8D1_ENST00000394783.3_Nonsense_Mutation_p.Y98*|GLT8D1_ENST00000478968.2_Nonsense_Mutation_p.Y98*|GLT8D1_ENST00000463827.1_5'Flank|GLT8D1_ENST00000491606.1_Nonsense_Mutation_p.Y98*	NM_001010983.1|NM_001278280.1	NP_001010983.1|NP_001265209.1	Q68CQ7	GL8D1_HUMAN	glycosyltransferase 8 domain containing 1	98						integral component of membrane (GO:0016021)|membrane (GO:0016020)	transferase activity, transferring glycosyl groups (GO:0016757)			breast(1)|endometrium(1)|kidney(3)|large_intestine(3)	8				BRCA - Breast invasive adenocarcinoma(193;6.78e-05)|Kidney(197;0.000618)|KIRC - Kidney renal clear cell carcinoma(197;0.000779)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		GAGTAACAATGTAGAAAATCA	0.483																																																0													139	128	132					3																	52731772		2203	4300	6503	SO:0001587	stop_gained	55830			AY358579	CCDS2862.1	3p21.1	2013-02-22			ENSG00000016864	ENSG00000016864		"Glycosyltransferase family 8 domain containing"	24870	protein-coding gene	gene with protein product						12975309	Standard	NM_152932		Approved	AD-017, FLJ14611	uc003dfi.4	Q68CQ7	OTTHUMG00000158759	ENST00000407584.3:c.294C>A	3.37:g.52731772G>T	ENSP00000385730:p.Tyr98*	Somatic		WXS	Illumina HiSeq	Phase_1	Q7Z4D1|Q8N2J6|Q9P0I5	Nonsense_Mutation	SNP	ENST00000407584.3	37	CCDS2862.1	.	.	.	.	.	.	.	.	.	.	G	23.2	4.388865	0.82902	.	.	ENSG00000016864	ENST00000478968;ENST00000394783;ENST00000407584;ENST00000266014;ENST00000491606;ENST00000479553;ENST00000489119	.	.	.	5.89	5.89	0.94794	.	0.173276	0.51477	D	0.000086	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.19147	T	0.46	-11.4738	9.9543	0.41657	0.1851:0.0:0.8149:0.0	.	.	.	.	X	98	.	ENSP00000266014:Y98X	Y	-	3	2	GLT8D1	52706812	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	2.845000	0.48254	2.793000	0.96121	0.655000	0.94253	TAC		0.483	GLT8D1-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352065.3	NM_152932		T	52731772	G	T	52731772	4	4	619	1	0	0	0	0	0	1	0	0	6476	1372	48	4	849	4	GLT8D1	3	52731772	Nonsense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	3846854	52731772	145290658	19	37917										
MAGI1	9223	broad.mit.edu	37	chr3	66023695	66023695	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tctgacggccttgaaggtgaCggcctccttgcagctgtcga	13	12	1	3			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr3:66023695C>T	ENST00000497477.2	-	1	288	c.289G>A	c.(289-291)Gtc>Atc	p.V97I	MAGI1_ENST00000483466.1_Missense_Mutation_p.V97I|MAGI1_ENST00000402939.2_Missense_Mutation_p.V97I|MAGI1_ENST00000330909.8_Missense_Mutation_p.V97I			Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ domain containing 1	97	Guanylate kinase-like. {ECO:0000255|PROSITE-ProRule:PRU00100}.|PDZ 1. {ECO:0000255|PROSITE- ProRule:PRU00143}.				cell adhesion (GO:0007155)|cell surface receptor signaling pathway (GO:0007166)|neuron death (GO:0070997)|protein complex assembly (GO:0006461)	cell junction (GO:0030054)|cell projection (GO:0042995)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	alpha-actinin binding (GO:0051393)|ATP binding (GO:0005524)|protein C-terminus binding (GO:0008022)			breast(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|liver(1)|lung(21)|pancreas(1)|skin(5)	51		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		TTGAAGGTGACGGCCTCCTTG	0.652																																																0													65	76	72					3																	66023695		2197	4295	6492	SO:0001583	missense	9223			AB010894	CCDS33780.1, CCDS33781.1, CCDS2904.1	3p14.1	2009-10-06	2005-05-10	2005-05-10	ENSG00000151276	ENSG00000151276			946	protein-coding gene	gene with protein product		602625	"BAI1-associated protein 1"	BAIAP1		9647739, 9225980	Standard	XM_005265563		Approved	BAP1, MAGI-1, TNRC19, AIP3, WWP3	uc003dmn.3	Q96QZ7	OTTHUMG00000157554	ENST00000497477.2:c.289G>A	3.37:g.66023695C>T	ENSP00000424369:p.Val97Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K188|O00309|O43863|O75085|Q96QZ8|Q96QZ9	Missense_Mutation	SNP	ENST00000497477.2	37		.	.	.	.	.	.	.	.	.	.	C	9.397	1.077120	0.20227	.	.	ENSG00000151276	ENST00000402939;ENST00000330909;ENST00000483466;ENST00000497477	T;T;T;T	0.21932	2.54;2.12;2.12;1.98	5.77	5.77	0.91146	PDZ/DHR/GLGF (3);Guanylate kinase (1);	0.144117	0.46145	D	0.000305	T	0.09423	0.0232	N	0.16478	0.41	0.33586	D	0.600553	B;B;B;B;B	0.32526	0.066;0.015;0.015;0.374;0.042	B;B;B;B;B	0.20955	0.006;0.006;0.006;0.028;0.032	T	0.10177	-1.0641	10	0.02654	T	1	-14.5033	10.9889	0.47539	0.0:0.887:0.0:0.113	.	97;97;97;97;97	Q96QZ7;Q96QZ7-4;Q96QZ7-3;Q96QZ7-2;Q96QZ7-5	MAGI1_HUMAN;.;.;.;.	I	97	ENSP00000385450:V97I;ENSP00000331157:V97I;ENSP00000420323:V97I;ENSP00000424369:V97I	ENSP00000331157:V97I	V	-	1	0	MAGI1	65998735	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	2.773000	0.47686	2.724000	0.93272	0.655000	0.94253	GTC		0.652	MAGI1-007	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000349132.2	NM_004742		T	66023695	C	T	66023695	3	4	619	1	0	0	0	0	1	0	0	0	9197	536	19	1	4425	1	MAGI1	3	66023695	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	13291923	66023695	131998735	20	37918										
LRIG1	26018	broad.mit.edu	37	chr3	66433543	66433543	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tggtcccatccttcctgcagCctgctgcgggcaggacgctc	12	16	0	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr3:66433543C>T	ENST00000273261.3	-	15	2878	c.2354G>A	c.(2353-2355)gGc>gAc	p.G785D	LRIG1_ENST00000496559.2_5'UTR|SLC25A26_ENST00000536651.1_Intron|LRIG1_ENST00000383703.3_Missense_Mutation_p.G762D	NM_015541.2	NP_056356.2	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like domains 1	785					innervation (GO:0060384)|otolith morphogenesis (GO:0032474)|sensory perception of sound (GO:0007605)	integral component of membrane (GO:0016021)				NS(2)|breast(2)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(7)|lung(12)|ovary(3)|prostate(1)|skin(4)|stomach(4)|urinary_tract(1)	42		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		CTTCCTGCAGCCTGCTGCGGG	0.607																																																0													134	128	130					3																	66433543		2203	4300	6503	SO:0001583	missense	26018			AB050468	CCDS33783.1	3p14	2013-01-14			ENSG00000144749	ENSG00000144749		"Immunoglobulin superfamily / I-set domain containing"	17360	protein-coding gene	gene with protein product	"ortholog of mouse integral membrane glycoprotein LIG-1", "leucine-rich repeat protein LRIG1"	608868				11414704, 12234026	Standard	NM_015541		Approved	LIG-1, DKFZP586O1624, LIG1	uc003dmx.3	Q96JA1	OTTHUMG00000158727	ENST00000273261.3:c.2354G>A	3.37:g.66433543C>T	ENSP00000273261:p.Gly785Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IQ51|Q96CF9|Q9BYB8|Q9UFI4	Missense_Mutation	SNP	ENST00000273261.3	37	CCDS33783.1	.	.	.	.	.	.	.	.	.	.	C	11.61	1.689783	0.29962	.	.	ENSG00000144749	ENST00000273261;ENST00000383703;ENST00000383702	T;T	0.67345	-0.23;-0.26	5.88	5.88	0.94601	.	0.102414	0.64402	D	0.000002	T	0.62405	0.2425	L	0.50333	1.59	0.40098	D	0.976331	B;B;B	0.19445	0.036;0.004;0.021	B;B;B	0.25405	0.032;0.025;0.06	T	0.57608	-0.7782	10	0.33141	T	0.24	.	14.3978	0.67022	0.0:0.9299:0.0:0.0701	.	762;785;785	Q96JA1-2;Q5XWD3;Q96JA1	.;.;LRIG1_HUMAN	D	785;762;688	ENSP00000273261:G785D;ENSP00000373208:G762D	ENSP00000273261:G785D	G	-	2	0	LRIG1	66516233	0.997000	0.39634	0.995000	0.50966	0.199000	0.23934	1.418000	0.34782	2.782000	0.95742	0.655000	0.94253	GGC		0.607	LRIG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351930.1	NM_015541		T	66433543	C	T	66433543	3	4	619	1	0	0	0	0	1	0	0	0	8951	739	26	2	947	2	LRIG1	3	66433543	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	409848	66433543	131588887	21	37919										
FBXO40	51725	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	121345735	121345735	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ctccacctttagaatcagacCacgaggaagatacgtctcct	7	13	2	3			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr3:121345735C>T	ENST00000338040.4	+	4	2522	c.2108C>T	c.(2107-2109)cCa>cTa	p.P703L		NM_016298.3	NP_057382.2	Q9UH90	FBX40_HUMAN	F-box protein 40	703					muscle cell differentiation (GO:0042692)	cytoplasm (GO:0005737)	ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|central_nervous_system(1)|kidney(1)|large_intestine(11)|lung(19)|ovary(2)|prostate(2)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	46				GBM - Glioblastoma multiforme(114;0.189)		AGAATCAGACCACGAGGAAGA	0.478																																																0													77	77	77					3																	121345735		2203	4300	6503	SO:0001583	missense	51725			AF204674	CCDS33835.1	3q21.1	2004-08-24			ENSG00000163833	ENSG00000163833		"F-boxes /  "other""	29816	protein-coding gene	gene with protein product		609107				10574462	Standard	NM_016298		Approved	KIAA1195, Fbx40	uc003eeg.2	Q9UH90	OTTHUMG00000159410	ENST00000338040.4:c.2108C>T	3.37:g.121345735C>T	ENSP00000337510:p.Pro703Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAX7|Q32M70|Q9ULM5	Missense_Mutation	SNP	ENST00000338040.4	37	CCDS33835.1	.	.	.	.	.	.	.	.	.	.	C	10.86	1.468980	0.26335	.	.	ENSG00000163833	ENST00000338040	T	0.30448	1.53	6.17	4.36	0.52297	.	0.734910	0.13029	N	0.419516	T	0.27663	0.0680	L	0.44542	1.39	0.25676	N	0.985842	B	0.06786	0.001	B	0.08055	0.003	T	0.20907	-1.0261	10	0.66056	D	0.02	0.0962	9.7888	0.40692	0.1392:0.7879:0.0:0.0728	.	703	Q9UH90	FBX40_HUMAN	L	703	ENSP00000337510:P703L	ENSP00000337510:P703L	P	+	2	0	FBXO40	122828425	0.002000	0.14202	0.072000	0.20136	0.410000	0.31052	0.687000	0.25407	0.907000	0.36646	0.655000	0.94253	CCA		0.478	FBXO40-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355158.1	NM_016298		T	121345735	C	T	121345735	3	4	619	1	0	0	0	0	1	0	0	0	5756	594	21	2	2118	2	FBXO40	3	121345735	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	54912192	121345735	76676695	22	37920										
FAIM	55179	broad.mit.edu	37	chr3	138341182	138341182	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	aatgggaaaagtctcaagaaGtatatggaggacagatcaaa	11	4	2	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr3:138341182G>T	ENST00000393035.2	+	3	373	c.264G>T	c.(262-264)aaG>aaT	p.K88N	FAIM_ENST00000393034.2_Missense_Mutation_p.K88N|FAIM_ENST00000464668.1_Missense_Mutation_p.K88N|FAIM_ENST00000338446.4_Missense_Mutation_p.K122N|FAIM_ENST00000360570.3_Missense_Mutation_p.K110N	NM_001033032.1	NP_001028204.1	Q9NVQ4	FAIM1_HUMAN	Fas apoptotic inhibitory molecule	88					apoptotic process (GO:0006915)|negative regulation of apoptotic process (GO:0043066)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)	cytoplasm (GO:0005737)				kidney(1)|upper_aerodigestive_tract(1)	2						GTCTCAAGAAGTATATGGAGG	0.378																																																0													111	112	112					3																	138341182		2203	4300	6503	SO:0001583	missense	55179			AK001444	CCDS3103.1, CCDS33864.1, CCDS33865.1	3q23	2008-07-18			ENSG00000158234	ENSG00000158234			18703	protein-coding gene	gene with protein product						10075978	Standard	NM_018147		Approved	FLJ10582, FAIM1	uc003esq.3	Q9NVQ4	OTTHUMG00000159885	ENST00000393035.2:c.264G>T	3.37:g.138341182G>T	ENSP00000376755:p.Lys88Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IAN2	Missense_Mutation	SNP	ENST00000393035.2	37	CCDS3103.1	.	.	.	.	.	.	.	.	.	.	G	18.62	3.663788	0.67700	.	.	ENSG00000158234	ENST00000338446;ENST00000360570;ENST00000393035;ENST00000393034;ENST00000464668;ENST00000479848	T;T;T;T;T;T	0.35973	1.28;1.28;1.28;1.28;1.28;1.28	5.82	1.5	0.22942	.	0.045770	0.85682	N	0.000000	T	0.56978	0.2022	M	0.85945	2.785	0.80722	D	1	D;D;D;P	0.59767	0.986;0.985;0.985;0.934	D;P;D;P	0.64237	0.911;0.897;0.923;0.82	T	0.59579	-0.7428	10	0.52906	T	0.07	-9.3449	10.4652	0.44602	0.3213:0.0:0.6787:0.0	.	88;110;122;88	Q9NVQ4;Q9NVQ4-3;Q9NVQ4-2;C9JDZ2	FAIM1_HUMAN;.;.;.	N	122;110;88;88;88;88	ENSP00000342805:K122N;ENSP00000353775:K110N;ENSP00000376755:K88N;ENSP00000376754:K88N;ENSP00000417642:K88N;ENSP00000420543:K88N	ENSP00000342805:K122N	K	+	3	2	FAIM	139823872	1.000000	0.71417	0.999000	0.59377	0.974000	0.67602	1.529000	0.35996	0.370000	0.24538	0.650000	0.86243	AAG		0.378	FAIM-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357979.1	NM_001033032		T	138341182	G	T	138341182	3	4	619	1	0	0	0	0	1	0	0	0	5379	1020	36	4	424	4	FAIM	3	138341182	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	16995447	138341182	59681248	23	37921										
SCHIP1	100505385	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	159606614	159606614	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cctttgtatcttcagctgccAcacatgcctcatataagtga	6	12	3	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr3:159606614A>T	ENST00000460298.1	+	6	1321	c.1080A>T	c.(1078-1080)ccA>ccT	p.P360P	IQCJ-SCHIP1_ENST00000476809.1_Silent_p.P449P|IQCJ-SCHIP1_ENST00000337808.6_Silent_p.P400P|SCHIP1_ENST00000482804.1_Silent_p.P173P|SCHIP1_ENST00000445224.2_Silent_p.P157P|IQCJ-SCHIP1_ENST00000412423.2_Silent_p.P387P|IQCJ-SCHIP1_ENST00000527095.1_Silent_p.P168P|IQCJ-SCHIP1_ENST00000485419.1_Silent_p.P476P					IQCJ-SCHIP1 readthrough											central_nervous_system(1)|cervix(1)|endometrium(1)|large_intestine(2)|lung(7)	12						TTCAGCTGCCACACATGCCTC	0.433																																																0													138	130	132					3																	159606614		2203	4300	6503	SO:0001819	synonymous_variant	100505385				CCDS56289.1, CCDS56291.1	3q25.33	2011-03-24			ENSG00000250588	ENSG00000250588			38842	other	readthrough							Standard	NM_001197113		Approved		uc003fcq.2		OTTHUMG00000162426	ENST00000460298.1:c.1080A>T	3.37:g.159606614A>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000460298.1	37																																																																																					0.433	IQCJ-SCHIP1-011	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000352558.2	NM_001197113		T	159606614	A	T	159606614	2	4	619	1	0	0	0	0	0	0	0	1	13917	146	6	5		5	SCHIP1	3	159606614	Silent	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10	21265432	159606614	38415816	24	37922										
FGFRL1	53834	broad.mit.edu;bcgsc.ca	37	chr4	1018104	1018104	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gccacgttcccacagagcggAcccgttccaagcccgtgctc	10	18	0	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr4:1018104A>C	ENST00000398484.2	+	7	1304	c.724A>C	c.(724-726)Acc>Ccc	p.T242P	FGFRL1_ENST00000510644.1_Missense_Mutation_p.T242P|FGFRL1_ENST00000264748.6_Missense_Mutation_p.T242P|FGFRL1_ENST00000504138.1_Missense_Mutation_p.T242P			Q8N441	FGRL1_HUMAN	fibroblast growth factor receptor-like 1	242					diaphragm development (GO:0060539)|heart valve morphogenesis (GO:0003179)|negative regulation of cell proliferation (GO:0008285)|skeletal system development (GO:0001501)|ventricular septum morphogenesis (GO:0060412)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	fibroblast growth factor-activated receptor activity (GO:0005007)|heparin binding (GO:0008201)			endometrium(1)|lung(9)|ovary(1)|prostate(1)|skin(1)	13			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			CACAGAGCGGACCCGTTCCAA	0.706																																																0													39	37	38					4																	1018104		2199	4275	6474	SO:0001583	missense	53834				CCDS3344.1	4p16	2013-01-11			ENSG00000127418	ENSG00000127418		"Immunoglobulin superfamily / I-set domain containing"	3693	protein-coding gene	gene with protein product		605830					Standard	NM_021923		Approved		uc003gcg.3	Q8N441	OTTHUMG00000118998	ENST00000398484.2:c.724A>C	4.37:g.1018104A>C	ENSP00000381498:p.Thr242Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAU9|Q6PJN1|Q9BXN7|Q9H4D7	Missense_Mutation	SNP	ENST00000398484.2	37	CCDS3344.1	.	.	.	.	.	.	.	.	.	.	a	19.31	3.802814	0.70682	.	.	ENSG00000127418	ENST00000398484;ENST00000542622;ENST00000510644;ENST00000504138;ENST00000264748	T;T;T;T	0.71934	-0.61;-0.61;-0.61;-0.61	5.24	4.03	0.46877	.	0.049213	0.85682	N	0.000000	T	0.79730	0.4496	M	0.64260	1.97	0.80722	D	1	D	0.71674	0.998	D	0.67103	0.949	T	0.79990	-0.1570	10	0.66056	D	0.02	-28.2282	11.4565	0.50185	0.8487:0.1513:0.0:0.0	.	242	Q8N441	FGRL1_HUMAN	P	242;212;242;242;242	ENSP00000381498:T242P;ENSP00000425025:T242P;ENSP00000423091:T242P;ENSP00000264748:T242P	ENSP00000264748:T242P	T	+	1	0	FGFRL1	1008104	0.997000	0.39634	0.913000	0.36048	0.638000	0.38207	3.318000	0.51975	0.810000	0.34279	0.463000	0.42550	ACC		0.706	FGFRL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239195.2	NM_021923		C	1018104	A	C	1018104	3	2	619	1	0	0	0	0	1	0	0	0	5876	275	10	5	742	5	FGFRL1	4	1018104	Missense_Mutation	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10		1018104	190136172	25	37923										
FAM193A	8603	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	2632748	2632748	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ggagatgaaggtccgcctgcTccggcagctgtcggctgcgg	17	12	0	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr4:2632748T>A	ENST00000324666.5	+	3	368	c.17T>A	c.(16-18)cTc>cAc	p.L6H	FAM193A_ENST00000545951.1_Missense_Mutation_p.L6H|FAM193A_ENST00000505311.1_Missense_Mutation_p.L6H|FAM193A_ENST00000382839.3_Missense_Mutation_p.L6H|FAM193A_ENST00000502458.1_Missense_Mutation_p.L6H	NM_001256666.1	NP_001243595.1	P78312	F193A_HUMAN	family with sequence similarity 193, member A	6										NS(2)|breast(1)|endometrium(4)|kidney(4)|large_intestine(3)|lung(12)|ovary(4)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(3)	40						GTCCGCCTGCTCCGGCAGCTG	0.632																																																0													42	45	44					4																	2632748		2202	4300	6502	SO:0001583	missense	8603			AB000459	CCDS33943.1, CCDS58874.1, CCDS58875.1, CCDS58876.1	4p16.3	2009-09-04	2009-09-04	2009-09-04					16822	protein-coding gene	gene with protein product			"chromosome 4 open reading frame 8"	C4orf8		9734812	Standard	NR_046335		Approved	RES4-22	uc010ick.3	P78312		ENST00000324666.5:c.17T>A	4.37:g.2632748T>A	ENSP00000324587:p.Leu6His	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZM85|B9EGR0|E9PFA1|O43607|P78311|P78313|Q9UEG8	Missense_Mutation	SNP	ENST00000324666.5	37	CCDS58875.1	.	.	.	.	.	.	.	.	.	.	T	28.0	4.881897	0.91740	.	.	ENSG00000125386	ENST00000509050;ENST00000382839;ENST00000324666;ENST00000545951;ENST00000502458	T;T;T;T	0.53640	0.63;1.02;0.61;0.67	5.56	5.56	0.83823	.	0.000000	0.85682	D	0.000000	T	0.65460	0.2693	L	0.59436	1.845	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.91635	0.999;0.999;0.999;0.996;0.999	T	0.68534	-0.5383	10	0.87932	D	0	-27.2496	14.8927	0.70620	0.0:0.0:0.0:1.0	.	6;6;6;6;6	B9EGR0;E9PFA1;P78312;B7ZM85;P78312-2	.;.;F193A_HUMAN;.;.	H	6	ENSP00000372290:L6H;ENSP00000324587:L6H;ENSP00000443617:L6H;ENSP00000427505:L6H	ENSP00000324587:L6H	L	+	2	0	FAM193A	2602546	1.000000	0.71417	0.996000	0.52242	0.879000	0.50718	7.680000	0.84062	2.108000	0.64289	0.533000	0.62120	CTC		0.632	FAM193A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000360903.1	NM_003704		A	2632748	T	A	2632748	3	1	619	1	0	0	0	0	1	0	0	0	5528	1551	54	5	19	5	FAM193A	4	2632748	Missense_Mutation	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10	1614644	2632748	188521528	26	37924										
LNX1	84708	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	54343069	54343069	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ttgagtactatcgaggatgaTgttcttttcaataatgccac	8	7	2	2	rs151307935		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr4:54343069T>C	ENST00000263925.7	-	9	2057	c.1743A>G	c.(1741-1743)acA>acG	p.T581T	LNX1_ENST00000306888.2_Silent_p.T485T|FIP1L1_ENST00000507166.1_Intron	NM_001126328.2	NP_001119800.1	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1, E3 ubiquitin protein ligase	581	PDZ 3. {ECO:0000255|PROSITE- ProRule:PRU00143}.				protein homooligomerization (GO:0051260)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(1)|central_nervous_system(3)|endometrium(3)|large_intestine(11)|lung(6)|ovary(3)|urinary_tract(4)	32	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)			TCGAGGATGATGTTCTTTTCA	0.512																																																0													180	180	180					4																	54343069		2203	4300	6503	SO:0001819	synonymous_variant	84708			AF237782	CCDS3492.1, CCDS47057.1	4q12	2013-01-09	2012-02-23	2005-11-04	ENSG00000072201	ENSG00000072201		"RING-type (C3HC4) zinc fingers"	6657	protein-coding gene	gene with protein product		609732	"ligand of numb-protein X", "ligand of numb-protein X 1"	LNX		11521506, 11782429	Standard	NM_032622		Approved	MPDZ, PDZRN2	uc003hag.5	Q8TBB1	OTTHUMG00000102099	ENST00000263925.7:c.1743A>G	4.37:g.54343069T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5K7|Q8N4C2|Q96MJ7|Q9BY20	Silent	SNP	ENST00000263925.7	37	CCDS47057.1																																																																																				0.512	LNX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219934.2			C	54343069	T	C	54343069	2	2	619	1	0	0	0	0	0	0	0	1	8872	1451	51	3		3	LNX1	4	54343069	Silent	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10	51710321	54343069	136811207	27	37925										
CEP135	9662	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	56876035	56876035	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	taaggaaaacagaagactgcAagatgacctggctacaatgg	11	7	0	4	rs148279836		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr4:56876035A>G	ENST00000257287.4	+	19	2595	c.2471A>G	c.(2470-2472)cAa>cGa	p.Q824R		NM_025009.4	NP_079285.2	Q66GS9	CP135_HUMAN	centrosomal protein 135kDa	824					centriole replication (GO:0007099)|centriole-centriole cohesion (GO:0010457)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)	centriole (GO:0005814)|centrosome (GO:0005813)|cytosol (GO:0005829)	protein C-terminus binding (GO:0008022)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(9)|lung(26)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	50	Glioma(25;0.08)|all_neural(26;0.101)					AGAAGACTGCAAGATGACCTG	0.388																																																0								A	ARG/GLN	1,4405	2.1+/-5.4	0,1,2202	83	82	82		2471	5.5	1	4	dbSNP_134	82	0,8600		0,0,4300	no	missense	CEP135	NM_025009.3	43	0,1,6502	GG,GA,AA		0.0,0.0227,0.0077	probably-damaging	824/1141	56876035	1,13005	2203	4300	6503	SO:0001583	missense	9662			AB014535	CCDS33986.1	4q12	2014-02-20	2005-12-02	2005-12-02	ENSG00000174799	ENSG00000174799			29086	protein-coding gene	gene with protein product		611423	"KIAA0635", "centrosomal protein 4"	KIAA0635, CEP4		9734811, 14654843	Standard	NM_025009		Approved	FLJ13621	uc003hbi.4	Q66GS9	OTTHUMG00000160748	ENST00000257287.4:c.2471A>G	4.37:g.56876035A>G	ENSP00000257287:p.Gln824Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMY0|O75130|Q58F25|Q9H8H7	Missense_Mutation	SNP	ENST00000257287.4	37	CCDS33986.1	.	.	.	.	.	.	.	.	.	.	A	23.1	4.375961	0.82682	2.27E-4	0.0	ENSG00000174799	ENST00000257287	T	0.09911	2.93	5.49	5.49	0.81192	.	0.000000	0.85682	D	0.000000	T	0.30854	0.0778	M	0.66939	2.045	0.58432	D	0.999998	D	0.89917	1.0	D	0.85130	0.997	T	0.01508	-1.1337	10	0.28530	T	0.3	.	15.8895	0.79286	1.0:0.0:0.0:0.0	.	824	Q66GS9	CP135_HUMAN	R	824	ENSP00000257287:Q824R	ENSP00000257287:Q824R	Q	+	2	0	CEP135	56570792	1.000000	0.71417	0.999000	0.59377	0.951000	0.60555	8.565000	0.90730	2.207000	0.71202	0.533000	0.62120	CAA		0.388	CEP135-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362092.2	NM_025009		G	56876035	A	G	56876035	3	3	619	1	0	0	0	0	1	0	0	0	3249	130	5	3	2541	3	CEP135	4	56876035	Missense_Mutation	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10	2532966	56876035	134278241	28	37926										
CEP135	9662	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	56885619	56885619	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	aaacctcgaatcattgttggCtacaaacagagataaagaat	7	7	1	2	rs370534878		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr4:56885619C>T	ENST00000257287.4	+	23	3237	c.3113C>T	c.(3112-3114)gCt>gTt	p.A1038V		NM_025009.4	NP_079285.2	Q66GS9	CP135_HUMAN	centrosomal protein 135kDa	1038					centriole replication (GO:0007099)|centriole-centriole cohesion (GO:0010457)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)	centriole (GO:0005814)|centrosome (GO:0005813)|cytosol (GO:0005829)	protein C-terminus binding (GO:0008022)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(9)|lung(26)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	50	Glioma(25;0.08)|all_neural(26;0.101)					TCATTGTTGGCTACAAACAGA	0.363																																																0													82	77	79					4																	56885619		2203	4300	6503	SO:0001583	missense	9662			AB014535	CCDS33986.1	4q12	2014-02-20	2005-12-02	2005-12-02	ENSG00000174799	ENSG00000174799			29086	protein-coding gene	gene with protein product		611423	"KIAA0635", "centrosomal protein 4"	KIAA0635, CEP4		9734811, 14654843	Standard	NM_025009		Approved	FLJ13621	uc003hbi.4	Q66GS9	OTTHUMG00000160748	ENST00000257287.4:c.3113C>T	4.37:g.56885619C>T	ENSP00000257287:p.Ala1038Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMY0|O75130|Q58F25|Q9H8H7	Missense_Mutation	SNP	ENST00000257287.4	37	CCDS33986.1	.	.	.	.	.	.	.	.	.	.	C	12.63	1.995763	0.35226	.	.	ENSG00000174799	ENST00000257287	T	0.14022	2.54	4.96	4.12	0.48240	.	0.118380	0.56097	D	0.000024	T	0.17152	0.0412	L	0.43757	1.38	0.34364	D	0.69129	P	0.34864	0.473	B	0.42653	0.394	T	0.21655	-1.0239	10	0.29301	T	0.29	.	13.6448	0.62275	0.0:0.9246:0.0:0.0754	.	1038	Q66GS9	CP135_HUMAN	V	1038	ENSP00000257287:A1038V	ENSP00000257287:A1038V	A	+	2	0	CEP135	56580376	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.087000	0.57671	1.235000	0.43724	0.650000	0.86243	GCT		0.363	CEP135-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362092.2	NM_025009		T	56885619	C	T	56885619	3	4	619	1	0	0	0	0	1	0	0	0	3249	797	28	2	3199	2	CEP135	4	56885619	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	9584	56885619	134268657	29	37927										
LRRC14B	389257	broad.mit.edu;bcgsc.ca	37	chr5	194906	194906	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ggccttcttggcagactgtgCccacgctgcccacctggagg	13	15	1	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr5:194906C>T	ENST00000328278.3	+	2	1011	c.983C>T	c.(982-984)gCc>gTc	p.A328V	CTD-2083E4.7_ENST00000563761.1_RNA	NM_001080478.1	NP_001073947.1	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	328										endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|skin(1)|upper_aerodigestive_tract(2)	10						GCAGACTGTGCCCACGCTGCC	0.647																																																0													34	40	38					5																	194906		2151	4252	6403	SO:0001583	missense	389257				CCDS47184.1	5p15.33	2010-02-17			ENSG00000185028	ENSG00000185028			37268	protein-coding gene	gene with protein product							Standard	NM_001080478		Approved		uc003jal.1	A6NHZ5	OTTHUMG00000161578	ENST00000328278.3:c.983C>T	5.37:g.194906C>T	ENSP00000327675:p.Ala328Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000328278.3	37	CCDS47184.1	.	.	.	.	.	.	.	.	.	.	C	0.018	-1.469465	0.01044	.	.	ENSG00000185028	ENST00000328278	T	0.08193	3.12	5.82	-3.37	0.04898	.	1.007700	0.07960	N	0.982296	T	0.04907	0.0132	N	0.20986	0.625	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.47275	-0.9130	10	0.15952	T	0.53	.	7.6661	0.28432	0.1368:0.1683:0.0:0.6948	.	328	A6NHZ5	LR14B_HUMAN	V	328	ENSP00000327675:A328V	ENSP00000327675:A328V	A	+	2	0	LRRC14B	247906	0.013000	0.17824	0.001000	0.08648	0.145000	0.21501	0.399000	0.20916	-0.483000	0.06772	-0.367000	0.07326	GCC		0.647	LRRC14B-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000365393.2	NM_001080478		T	194906	C	T	194906	3	4	619	1	0	0	0	0	1	0	0	0	8976	739	26	2	989	2	LRRC14B	5	194906	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10		194906	180720354	30	37928										
PECI	10455	bcgsc.ca	37	chr6	4133832	4133832	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tcacttcgtttcctggatccTttttcaagagtttcacttga	6	10	3	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr6:4133832T>C	ENST00000380118.3	-	2	200	c.164A>G	c.(163-165)aAg>aGg	p.K55R	ECI2_ENST00000361538.2_Missense_Mutation_p.K25R|RP3-400B16.1_ENST00000427049.2_lincRNA|RP3-400B16.4_ENST00000527831.1_RNA|ECI2_ENST00000380125.2_Missense_Mutation_p.K25R|ECI2_ENST00000465828.1_Missense_Mutation_p.K25R|ECI2_ENST00000413766.2_5'UTR			O75521	ECI2_HUMAN	enoyl-CoA delta isomerase 2	55	ACB. {ECO:0000255|PROSITE- ProRule:PRU00573}.				fatty acid catabolic process (GO:0009062)	intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|peroxisomal matrix (GO:0005782)|peroxisome (GO:0005777)	dodecenoyl-CoA delta-isomerase activity (GO:0004165)|fatty-acyl-CoA binding (GO:0000062)|receptor binding (GO:0005102)			endometrium(2)|kidney(2)|large_intestine(2)|lung(4)|upper_aerodigestive_tract(1)	11						TCCTGGATCCTTTTTCAAGAG	0.398																																																0													217	201	206					6																	4133832		2203	4300	6503	SO:0001583	missense	10455			AF069301	CCDS4490.1, CCDS43420.1, CCDS43420.2	6p24.3	2011-03-15	2011-03-15	2011-03-15	ENSG00000198721	ENSG00000198721			14601	protein-coding gene	gene with protein product	"acyl-Coenzyme A binding domain containing 2", " Hepatocellular carcinoma-associated antigen 88"	608024	"peroxisomal D3,D2-enoyl-CoA isomerase"	PECI		10419495	Standard	NM_206836		Approved	ACBD2, DRS1, HCA88	uc003mwf.3	O75521	OTTHUMG00000014158	ENST00000380118.3:c.164A>G	6.37:g.4133832T>C	ENSP00000369461:p.Lys55Arg	Somatic		WXS	Illumina HiSeq	Phase_1	Q5JYK5|Q5JYK7|Q7L124|Q8N0X0|Q9BUE9|Q9H0T9|Q9NQH1|Q9NYH7|Q9UN55	Missense_Mutation	SNP	ENST00000380118.3	37	CCDS43420.2	.	.	.	.	.	.	.	.	.	.	T	21.7	4.191753	0.78902	.	.	ENSG00000198721	ENST00000380118;ENST00000380125;ENST00000361538;ENST00000465828;ENST00000495548	T;T;T;T;T	0.24908	1.83;1.83;1.83;1.83;1.83	5.98	5.98	0.97165	FERM/acyl-CoA-binding protein, 3-helical bundle (1);Acyl-CoA-binding protein, ACBP (4);	21.516500	0.00166	N	0.000000	T	0.31796	0.0808	M	0.78223	2.4	0.80722	D	1	B	0.20988	0.05	B	0.35899	0.213	T	0.34850	-0.9812	10	0.54805	T	0.06	.	14.4143	0.67139	0.0:0.0:0.0:1.0	.	55	O75521	ECI2_HUMAN	R	55;25;25;25;102	ENSP00000369461:K55R;ENSP00000369468:K25R;ENSP00000354737:K25R;ENSP00000420309:K25R;ENSP00000417459:K102R	ENSP00000354737:K25R	K	-	2	0	ECI2	4078831	0.659000	0.27411	0.999000	0.59377	0.997000	0.91878	3.003000	0.49505	2.289000	0.77006	0.533000	0.62120	AAG		0.398	ECI2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039716.4	NM_006117		C	4133832	T	C	4133832	3	2	619	1	0	0	0	0	1	0	0	0	11723	1609	56	3	1056	3	PECI	6	4133832	Missense_Mutation	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10		4133832	166981235	31	37929										
DNAH8	1769	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	38825504	38825504	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tccatgtgcatcagagagatAtttttgatgacttggtaagg	11	5	1	4			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr6:38825504A>G	ENST00000359357.3	+	40	5547	c.5293A>G	c.(5293-5295)Att>Gtt	p.I1765V	DNAH8_ENST00000449981.2_Missense_Mutation_p.I1982V|DNAH8_ENST00000441566.1_Missense_Mutation_p.I1765V			Q96JB1	DYH8_HUMAN	dynein, axonemal, heavy chain 8	1765					cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(7)|breast(9)|central_nervous_system(4)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(3)|kidney(16)|large_intestine(44)|liver(4)|lung(101)|ovary(7)|pancreas(2)|prostate(8)|skin(28)|stomach(4)|upper_aerodigestive_tract(6)|urinary_tract(4)	260						TCAGAGAGATATTTTTGATGA	0.308																																																0													110	106	107					6																	38825504		2203	4300	6503	SO:0001583	missense	1769			Z83806	CCDS75447.1	6p21.2	2012-04-19	2006-09-04		ENSG00000124721	ENSG00000124721		"Axonemal dyneins"	2952	protein-coding gene	gene with protein product		603337	"dynein, axonemal, heavy polypeptide 8"			9373155	Standard	NM_001206927		Approved	hdhc9	uc021yzh.1	Q96JB1	OTTHUMG00000016253	ENST00000359357.3:c.5293A>G	6.37:g.38825504A>G	ENSP00000352312:p.Ile1765Val	Somatic		WXS	Illumina HiSeq	Phase_I	O00438|Q5JYI2|Q5T2M3|Q5T2M4|Q5TG00|Q9UEM4	Missense_Mutation	SNP	ENST00000359357.3	37		.	.	.	.	.	.	.	.	.	.	A	21.7	4.181365	0.78677	.	.	ENSG00000124721	ENST00000449981;ENST00000327475;ENST00000359357;ENST00000441566	T;T;T	0.20332	2.09;2.09;2.08	5.75	5.75	0.90469	.	0.000000	0.85682	D	0.000000	T	0.21590	0.0520	L	0.46670	1.46	0.80722	D	1	D	0.76494	0.999	D	0.81914	0.995	T	0.06862	-1.0803	10	0.02654	T	1	.	16.0707	0.80928	1.0:0.0:0.0:0.0	.	1765	Q96JB1	DYH8_HUMAN	V	1970;1970;1765;1765	ENSP00000333363:I1970V;ENSP00000352312:I1765V;ENSP00000402294:I1765V	ENSP00000333363:I1970V	I	+	1	0	DNAH8	38933482	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	9.271000	0.95698	2.194000	0.70268	0.533000	0.62120	ATT		0.308	DNAH8-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000043574.1	NM_001206927		G	38825504	A	G	38825504	3	3	619	1	0	0	0	0	1	0	0	0	4609	449	16	3	5443	3	DNAH8	6	38825504	Missense_Mutation	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10	34691672	38825504	132289563	32	37930										
FBXO5	26271	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	153293427	153293427	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ctcagagaattcattgtgtcGactataagtagaacctttct	7	8	3	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr6:153293427G>A	ENST00000229758.3	-	4	1130	c.1072C>T	c.(1072-1074)Cga>Tga	p.R358*	FBXO5_ENST00000367241.3_Nonsense_Mutation_p.R312*|FBXO5_ENST00000477822.1_5'UTR	NM_012177.3	NP_036309.1	Q9UKT4	FBX5_HUMAN	F-box protein 5	358					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|G1/S transition of mitotic cell cycle (GO:0000082)|inhibition of mitotic anaphase-promoting complex activity (GO:0060565)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|microtubule polymerization (GO:0046785)|mitotic cell cycle (GO:0000278)|negative regulation of meiosis (GO:0045835)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|oocyte maturation (GO:0001556)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|regulation of mitotic cell cycle (GO:0007346)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|spindle assembly involved in female meiosis I (GO:0007057)|vesicle organization (GO:0016050)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle (GO:0005819)	metal ion binding (GO:0046872)|protein kinase binding (GO:0019901)			breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(3)|prostate(2)|upper_aerodigestive_tract(1)	15		Ovarian(120;0.125)		OV - Ovarian serous cystadenocarcinoma(155;4.38e-10)|BRCA - Breast invasive adenocarcinoma(81;0.0893)		TCATTGTGTCGACTATAAGTA	0.333																																					NSCLC(121;372 1757 17721 17977 29669)											0													100	97	98					6																	153293427		2203	4300	6503	SO:0001587	stop_gained	26271			AF129535	CCDS5242.1, CCDS47501.1	6q25-q26	2008-02-05	2004-06-15		ENSG00000112029	ENSG00000112029		"F-boxes /  "other""	13584	protein-coding gene	gene with protein product		606013	"F-box only protein 5"			10531035, 10531037	Standard	NM_012177		Approved	FBX5, Fbxo31, EMI1	uc003qpg.3	Q9UKT4	OTTHUMG00000015854	ENST00000229758.3:c.1072C>T	6.37:g.153293427G>A	ENSP00000229758:p.Arg358*	Somatic		WXS	Illumina HiSeq	Phase_I	B3KNX5|Q5TF47|Q8WV29|Q9UGC8	Nonsense_Mutation	SNP	ENST00000229758.3	37	CCDS5242.1	.	.	.	.	.	.	.	.	.	.	G	37	6.362282	0.97507	.	.	ENSG00000112029	ENST00000229758;ENST00000367241	.	.	.	5.75	5.75	0.90469	.	0.614218	0.15057	N	0.282948	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-10.7102	13.8697	0.63610	0.0:0.0:0.7458:0.2542	.	.	.	.	X	358;312	.	ENSP00000229758:R358X	R	-	1	2	FBXO5	153335120	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	2.898000	0.48672	2.696000	0.92011	0.655000	0.94253	CGA		0.333	FBXO5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042757.1			A	153293427	G	A	153293427	4	1	619	1	0	0	0	0	0	1	0	0	5765	1066	37	1	279	1	FBXO5	6	153293427	Nonsense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	114467923	153293427	17821640	33	37931										
EZR	7430	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	159188095	159188095	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ctcatctcgggcctgggacaGctcgctgctcagcgtctgta	12	14	4	0	rs367907031		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr6:159188095G>C	ENST00000367075.3	-	14	1780	c.1612C>G	c.(1612-1614)Ctg>Gtg	p.L538V	EZR_ENST00000337147.7_Missense_Mutation_p.L538V|EZR_ENST00000392177.4_Missense_Mutation_p.L506V|MIR3918_ENST00000581555.1_RNA	NM_001111077.1	NP_001104547.1	P15311	EZRI_HUMAN	ezrin	538	Interaction with SCYL3.				actin filament bundle assembly (GO:0051017)|axon guidance (GO:0007411)|cytoskeletal anchoring at plasma membrane (GO:0007016)|establishment of endothelial barrier (GO:0061028)|establishment or maintenance of apical/basal cell polarity (GO:0035088)|filopodium assembly (GO:0046847)|leukocyte cell-cell adhesion (GO:0007159)|membrane to membrane docking (GO:0022614)|positive regulation of gene expression (GO:0010628)|receptor internalization (GO:0031623)|regulation of cell shape (GO:0008360)	actin cytoskeleton (GO:0015629)|actin filament (GO:0005884)|apical part of cell (GO:0045177)|apical plasma membrane (GO:0016324)|astrocyte projection (GO:0097449)|basolateral plasma membrane (GO:0016323)|cell body (GO:0044297)|cell tip (GO:0051286)|ciliary basal body (GO:0036064)|cortical cytoskeleton (GO:0030863)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|membrane (GO:0016020)|membrane raft (GO:0045121)|microspike (GO:0044393)|microvillus (GO:0005902)|microvillus membrane (GO:0031528)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)|ruffle (GO:0001726)|Schwann cell microvillus (GO:0097454)|T-tubule (GO:0030315)|uropod (GO:0001931)|vesicle (GO:0031982)	actin filament binding (GO:0051015)|cell adhesion molecule binding (GO:0050839)|poly(A) RNA binding (GO:0044822)		EZR/ROS1(4)	breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(4)|large_intestine(2)|lung(1)|ovary(1)|prostate(2)	15		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.16e-17)|BRCA - Breast invasive adenocarcinoma(81;6.58e-06)		GCCTGGGACAGCTCGCTGCTC	0.562			T	ROS1	NSCLC																																		Dom	yes		6	6q25.3	7430	ezrin		E	0													180	157	165					6																	159188095		2203	4300	6503	SO:0001583	missense	7430			AF187552	CCDS5258.1	6q25.3	2010-12-10	2007-11-29	2007-11-29	ENSG00000092820	ENSG00000092820		"A-kinase anchor proteins"	12691	protein-coding gene	gene with protein product	"cytovillin 2"	123900	"villin 2 (ezrin)"	VIL2			Standard	NM_003379		Approved		uc003qrt.4	P15311	OTTHUMG00000015917	ENST00000367075.3:c.1612C>G	6.37:g.159188095G>C	ENSP00000356042:p.Leu538Val	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5A8|P23714|Q4VX75|Q96CU8|Q9NSJ4	Missense_Mutation	SNP	ENST00000367075.3	37	CCDS5258.1	.	.	.	.	.	.	.	.	.	.	G	19.03	3.747324	0.69533	.	.	ENSG00000092820	ENST00000337147;ENST00000367075;ENST00000392177	D;D;D	0.88586	-2.4;-2.4;-2.4	5.37	0.447	0.16608	Moesin (1);Ezrin/radixin/moesin, C-terminal (1);	0.067471	0.64402	D	0.000011	D	0.92074	0.7488	M	0.87617	2.895	0.58432	D	0.999996	D;D	0.71674	0.998;0.989	D;D	0.75484	0.986;0.976	D	0.91442	0.5174	10	0.87932	D	0	.	9.9553	0.41663	0.3142:0.0:0.6858:0.0	.	506;538	E7EQR4;P15311	.;EZRI_HUMAN	V	538;538;506	ENSP00000338934:L538V;ENSP00000356042:L538V;ENSP00000376016:L506V	ENSP00000338934:L538V	L	-	1	2	EZR	159108083	1.000000	0.71417	0.995000	0.50966	0.980000	0.70556	3.249000	0.51437	0.007000	0.14760	0.561000	0.74099	CTG		0.562	EZR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042878.1	NM_003379		C	159188095	G	C	159188095	3	2	619	1	0	0	0	0	1	0	0	0	5337	962	34	4	152	4	EZR	6	159188095	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	5894668	159188095	11926972	34	37932										
TBP	6908	hgsc.bcm.edu	37	chr6	170871004	170871004	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gagcaacaaaggcagcagcaGcaacaacaacagcagcagca	10	12	0	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr6:170871004G>A	ENST00000392092.2	+	3	459	c.180G>A	c.(178-180)caG>caA	p.Q60Q	TBP_ENST00000540980.1_Silent_p.Q40Q|TBP_ENST00000230354.6_Silent_p.Q60Q	NM_003194.4	NP_003185.1	P20226	TBP_HUMAN	TATA box binding protein	60	Poly-Gln.				cell death (GO:0008219)|gene expression (GO:0010467)|positive regulation of transcription, DNA-templated (GO:0045893)|spermatogenesis (GO:0007283)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase I promoter (GO:0006360)|transcription from RNA polymerase II promoter (GO:0006366)|transcription from RNA polymerase III promoter (GO:0006383)|transcription initiation from RNA polymerase I promoter (GO:0006361)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	cytoplasm (GO:0005737)|female pronucleus (GO:0001939)|male pronucleus (GO:0001940)|nuclear euchromatin (GO:0005719)|nucleoplasm (GO:0005654)|transcription factor TFIIA complex (GO:0005672)|transcription factor TFIID complex (GO:0005669)	repressing transcription factor binding (GO:0070491)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(2)|lung(9)|ovary(1)|prostate(4)|urinary_tract(1)	26		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;1.07e-22)|BRCA - Breast invasive adenocarcinoma(81;5.01e-06)|GBM - Glioblastoma multiforme(31;0.00591)		Ggcagcagcagcaacaacaac	0.542																																																0													43	45	44					6																	170871004		2203	4300	6503	SO:0001819	synonymous_variant	6908			M55654	CCDS5315.1, CCDS55077.1	6q27	2014-04-02			ENSG00000112592	ENSG00000112592		"General transcription factors"	11588	protein-coding gene	gene with protein product		600075		GTF2D1, SCA17		2194289, 11448935	Standard	NM_003194		Approved	TFIID	uc003qxu.3	P20226	OTTHUMG00000016084	ENST00000392092.2:c.180G>A	6.37:g.170871004G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4E3B3|F5H869|Q16845|Q6IBM6|Q9UC02	Silent	SNP	ENST00000392092.2	37	CCDS5315.1																																																																																				0.542	TBP-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000043271.2	NM_003194		A	170871004	G	A	170871004	2	1	619	1	0	0	0	0	0	0	0	1	15656	962	34	2		2	TBP	6	170871004	Silent	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	11682909	170871004	244063	35	37933										
DNAH11	8701	broad.mit.edu	37	chr7	21788203	21788203	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gcttcctttcctcaggtgtcGcatcagccggatcttacgaa	9	13	3	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr7:21788203G>A	ENST00000409508.3	+	52	8547	c.8516G>A	c.(8515-8517)cGc>cAc	p.R2839H	DNAH11_ENST00000328843.6_Missense_Mutation_p.R2846H	NM_001277115.1	NP_001264044.1	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2846	AAA 4. {ECO:0000250}.				microtubule-based movement (GO:0007018)	cilium (GO:0005929)|cytoplasm (GO:0005737)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(1)|autonomic_ganglia(1)|breast(13)|central_nervous_system(3)|cervix(4)|endometrium(18)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(50)|lung(101)|ovary(10)|pancreas(4)|prostate(7)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	230						CTCAGGTGTCGCATCAGCCGG	0.493									Kartagener syndrome																																							0													50	50	50					7																	21788203		1924	4134	6058	SO:0001583	missense	8701	Familial Cancer Database	Ciliary Dyskinesia, Primary (CILD1 - CILD13), Immotile Cilia Syndrome	U83569	CCDS64602.1	7p21	2008-07-18	2006-09-04					"Axonemal dyneins"	2942	protein-coding gene	gene with protein product	"dynein, ciliary, heavy chain 11", "dynein, heavy chain beta-like"	603339	"dynein, axonemal, heavy polypeptide 11"			9256245	Standard	NM_001277115		Approved	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL	uc031swp.1	Q96DT5		ENST00000409508.3:c.8516G>A	7.37:g.21788203G>A	ENSP00000475939:p.Arg2839His	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UJ82	Missense_Mutation	SNP	ENST00000409508.3	37		.	.	.	.	.	.	.	.	.	.	G	16.53	3.147816	0.57151	.	.	ENSG00000105877	ENST00000328843	T	0.48836	0.8	5.7	5.7	0.88788	Dynein heavy chain, P-loop containing D4 domain (1);	0.000000	0.64402	D	0.000016	T	0.69314	0.3097	.	.	.	0.58432	D	0.999999	D	0.89917	1.0	D	0.97110	1.0	T	0.71056	-0.4703	9	0.56958	D	0.05	.	15.0327	0.71720	0.0699:0.0:0.9301:0.0	.	2846	Q96DT5	DYH11_HUMAN	H	2846	ENSP00000330671:R2846H	ENSP00000330671:R2846H	R	+	2	0	DNAH11	21754728	1.000000	0.71417	0.863000	0.33907	0.063000	0.16089	6.315000	0.72853	2.705000	0.92388	0.650000	0.86243	CGC		0.493	DNAH11-001	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000326582.6	NM_003777		A	21788203	G	A	21788203	3	1	619	1	0	0	0	0	1	0	0	0	4601	1087	38	1	8744	1	DNAH11	7	21788203	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10		21788203	137350460	36	37934										
ZNF273	10793	broad.mit.edu;bcgsc.ca	37	chr7	64389208	64389214	+	Frame_Shift_Del	DEL	TTACTAA	TTACTAA	-													0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ctttaactggtcctcaactcTtactaaacataagagaattc					rs555033749		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	TTACTAA	TTACTAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr7:64389208_64389214delTTACTAA	ENST00000476120.1	+	4	1573_1579	c.1502_1508delTTACTAA	c.(1501-1509)cttactaaafs	p.LTK501fs	ZNF273_ENST00000527278.1_3'UTR|ZNF273_ENST00000319636.5_Frame_Shift_Del_p.LTK436fs	NM_021148.2	NP_066971.2	Q14593	ZN273_HUMAN	zinc finger protein 273	501					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(3)|prostate(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	16		Lung NSC(55;0.0295)|all_lung(88;0.0691)				TCCTCAACTCTTACTAAACATAAGAGA	0.386																																					Ovarian(154;605 895 6696 7659 15316 19321 21716 23848 32322 36932)											0																																										SO:0001589	frameshift_variant	10793			X78932	CCDS5528.2	7q11.21	2013-01-08				ENSG00000198039		"Zinc fingers, C2H2-type", "-"	13067	protein-coding gene	gene with protein product		604756				7865130	Standard	NR_003099		Approved	HZF9	uc003tto.3	Q14593		ENST00000476120.1:c.1502_1508delTTACTAA	7.37:g.64389208_64389214delTTACTAA	ENSP00000418719:p.Leu501fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQZ5|Q6P3V4	Frame_Shift_Del	DEL	ENST00000476120.1	37	CCDS5528.2																																																																																				0.386	ZNF273-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313502.1			-	64389214	TTACTAA	-	64389208	7	5	619	1	0	1	0	1	0	0	0	0	17820	1609	56	0	1516	0	ZNF273	7	64389208	Frame_Shift_Del	DEL	TTACTAA	TCGA-IZ-A6M9-01A-11D-A31X-10	42601005	64389208	94749455	37	37935	299	2								
ZNF273	10793	bcgsc.ca	37	chr7	64389216	64389216	+	Missense_Mutation	SNP	C	C	T													0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ggtcctcaactcttactaaaCataagagaattcatactgga							TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr7:64389216C>T	ENST00000476120.1	+	4	1581	c.1510C>T	c.(1510-1512)Cat>Tat	p.H504Y	ZNF273_ENST00000527278.1_3'UTR|ZNF273_ENST00000319636.5_Missense_Mutation_p.H439Y	NM_021148.2	NP_066971.2	Q14593	ZN273_HUMAN	zinc finger protein 273	504					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(3)|prostate(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	16		Lung NSC(55;0.0295)|all_lung(88;0.0691)				TCTTACTAAACATAAGAGAAT	0.383																																					Ovarian(154;605 895 6696 7659 15316 19321 21716 23848 32322 36932)											0													48	50	49					7																	64389216		2203	4297	6500	SO:0001583	missense	10793			X78932	CCDS5528.2	7q11.21	2013-01-08				ENSG00000198039		"Zinc fingers, C2H2-type", "-"	13067	protein-coding gene	gene with protein product		604756				7865130	Standard	NR_003099		Approved	HZF9	uc003tto.3	Q14593		ENST00000476120.1:c.1510C>T	7.37:g.64389216C>T	ENSP00000418719:p.His504Tyr	Somatic		WXS	Illumina HiSeq	Phase_1	B3KQZ5|Q6P3V4	Missense_Mutation	SNP	ENST00000476120.1	37	CCDS5528.2	.	.	.	.	.	.	.	.	.	.	.	19.11	3.764673	0.69878	.	.	ENSG00000198039	ENST00000476120;ENST00000319636	D;D	0.86769	-2.17;-2.17	1.16	1.16	0.20824	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	D	0.94301	0.8169	H	0.95328	3.655	0.26486	N	0.975022	D	0.89917	1.0	D	0.87578	0.998	D	0.85433	0.1150	9	0.72032	D	0.01	.	7.3527	0.26700	0.0:1.0:0.0:0.0	.	504	Q14593	ZN273_HUMAN	Y	504;439	ENSP00000418719:H504Y;ENSP00000324518:H439Y	ENSP00000324518:H439Y	H	+	1	0	ZNF273	64026651	0.997000	0.39634	0.806000	0.32338	0.805000	0.45488	5.366000	0.66122	0.202000	0.20498	0.205000	0.17691	CAT		0.383	ZNF273-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313502.1			T	64389216	C	T	64389216	3	4	619	1	0	0	0	0	1	0	0	0	17820	478	17	2	1524	2	ZNF273	7	64389216	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	8	64389216	94749447	38	37936	299	2								
AUTS2	26053	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	70255844	70255844	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ctcaacaagacccctccgacAgcagcgctgagcgcacctcc	8	19	1	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr7:70255844A>G	ENST00000342771.4	+	19	3963	c.3642A>G	c.(3640-3642)acA>acG	p.T1214T	AUTS2_ENST00000406775.2_Silent_p.T1190T	NM_015570.2	NP_056385.1	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2	1214										breast(2)|central_nervous_system(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(14)|ovary(4)|prostate(2)|skin(4)|urinary_tract(1)	50		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)		CCCCTCCGACAGCAGCGCTGA	0.672																																																0													41	45	43					7																	70255844		2203	4299	6502	SO:0001819	synonymous_variant	26053			AF326917	CCDS5539.1, CCDS47601.1, CCDS47602.1	7q11.22	2014-01-06			ENSG00000158321	ENSG00000158321			14262	protein-coding gene	gene with protein product		607270				12160723	Standard	XM_005250257		Approved	KIAA0442, FBRSL2	uc003tvw.4	Q8WXX7	OTTHUMG00000023865	ENST00000342771.4:c.3642A>G	7.37:g.70255844A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A4D1Y9|L7QET3|L7QF75|Q5D049|Q6PJU5|Q9Y4F2	Silent	SNP	ENST00000342771.4	37	CCDS5539.1																																																																																				0.672	AUTS2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251971.2			G	70255844	A	G	70255844	2	3	619	1	0	0	0	0	0	0	0	1	1225	175	7	3		3	AUTS2	7	70255844	Silent	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10	5866628	70255844	88882819	39	37937										
GTF2IRD2	84163	broad.mit.edu	37	chr7	74211898	74211898	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tccggatgaattatacaacaGatggacttcagttccgcacc	8	11	1	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr7:74211898G>C	ENST00000405086.2	-	16	2142	c.1953C>G	c.(1951-1953)atC>atG	p.I651M	GTF2IRD2_ENST00000451013.2_Missense_Mutation_p.I198M	NM_173537.2	NP_775808	Q86UP8	GTD2A_HUMAN	GTF2I repeat domain containing 2	651					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|endometrium(3)|large_intestine(2)|lung(2)|ovary(2)|skin(1)	11						ttatacaacagatggacttca	0.532																																					NSCLC(40;560 1096 7501 40315 49546)											0													4	5	5					7																	74211898		1559	3279	4838	SO:0001583	missense	84163			BC047706	CCDS5576.1, CCDS64682.1	7q11.23	2014-05-06			ENSG00000196275	ENSG00000196275			30775	protein-coding gene	gene with protein product	"transcription factor GTF2IRD2"	608899				15243160	Standard	NM_173537		Approved	FLJ37938, GTF2IRD2A	uc003ubd.1	Q86UP8	OTTHUMG00000181527	ENST00000405086.2:c.1953C>G	7.37:g.74211898G>C	ENSP00000385491:p.Ile651Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5W6|B3KUZ2|Q69G40|Q6EKI8|Q6EKI9|Q6NVW2|Q6P7N8|Q86WX4|Q8ND85|Q8NDE5	Missense_Mutation	SNP	ENST00000405086.2	37	CCDS5576.1	.	.	.	.	.	.	.	.	.	.	G	0.013	-1.616433	0.00828	.	.	ENSG00000196275	ENST00000405086;ENST00000451013	T;T	0.28255	1.62;1.62	1.74	-2.06	0.07298	Ribonuclease H-like (1);	.	.	.	.	T	0.20861	0.0502	L	0.35542	1.07	0.09310	N	0.999999	B	0.02656	0.0	B	0.01281	0.0	T	0.22800	-1.0206	9	0.33940	T	0.23	-2.7586	9.9695	0.41745	0.0:0.2899:0.7101:0.0	.	651	Q86UP8	GTD2A_HUMAN	M	651;198	ENSP00000385491:I651M;ENSP00000406723:I198M	ENSP00000385491:I651M	I	-	3	3	GTF2IRD2	73849834	0.000000	0.05858	0.005000	0.12908	0.021000	0.10359	-3.493000	0.00452	-0.542000	0.06249	-0.580000	0.04137	ATC		0.532	GTF2IRD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252712.3	NM_173537		C	74211898	G	C	74211898	3	2	619	1	0	0	0	0	1	0	0	0	6876	932	33	4	900	4	GTF2IRD2	7	74211898	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	3956054	74211898	84926765	40	37938										
NUP205	23165	broad.mit.edu	37	chr7	135307641	135307641	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ccctcatggaagtggtctgtCgagatgcttgtgatggtcat	13	8	3	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr7:135307641C>T	ENST00000285968.6	+	31	4473	c.4447C>T	c.(4447-4449)Cga>Tga	p.R1483*		NM_015135.2	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1483					carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|nuclear pore complex assembly (GO:0051292)|nucleocytoplasmic transport (GO:0006913)|protein import into nucleus, docking (GO:0000059)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	membrane (GO:0016020)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nuclear periphery (GO:0034399)|nuclear pore (GO:0005643)	structural constituent of nuclear pore (GO:0017056)	p.R1483*(1)		breast(4)|central_nervous_system(2)|endometrium(9)|kidney(7)|large_intestine(17)|liver(4)|lung(36)|ovary(5)|prostate(1)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(3)	93						AGTGGTCTGTCGAGATGCTTG	0.383																																																1	Substitution - Nonsense(1)	lung(1)											98	95	96					7																	135307641		2203	4300	6503	SO:0001587	stop_gained	23165			D86978	CCDS34759.1	7q31.32	2007-03-26	2004-01-06	2004-01-07	ENSG00000155561	ENSG00000155561			18658	protein-coding gene	gene with protein product		614352	"chromosome 7 open reading frame 14"	C7orf14		9039502, 9348540	Standard	NM_015135		Approved	KIAA0225	uc003vsw.3	Q92621	OTTHUMG00000155497	ENST00000285968.6:c.4447C>T	7.37:g.135307641C>T	ENSP00000285968:p.Arg1483*	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8X3|Q86YC1	Nonsense_Mutation	SNP	ENST00000285968.6	37	CCDS34759.1	.	.	.	.	.	.	.	.	.	.	C	44	10.870996	0.99481	.	.	ENSG00000155561	ENST00000285968	.	.	.	4.83	3.93	0.45458	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-33.0615	14.5921	0.68373	0.1474:0.8526:0.0:0.0	.	.	.	.	X	1483	.	ENSP00000285968:R1483X	R	+	1	2	NUP205	134958181	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	2.263000	0.43293	1.129000	0.42072	-0.293000	0.09583	CGA		0.383	NUP205-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340358.1			T	135307641	C	T	135307641	4	4	619	1	0	0	0	0	0	1	0	0	10766	876	31	1	4569	1	NUP205	7	135307641	Nonsense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	61095743	135307641	23831022	41	37939										
RP1L1	94137	broad.mit.edu	37	chr8	10470455	10470455	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gcatcccaccctgcagggccGgggtccccacaccccaggct	11	20	0	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr8:10470455G>A	ENST00000382483.3	-	4	1376	c.1153C>T	c.(1153-1155)Cgg>Tgg	p.R385W		NM_178857.5	NP_849188.4	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	385					cell projection organization (GO:0030030)|intracellular signal transduction (GO:0035556)|photoreceptor cell development (GO:0042461)|photoreceptor cell maintenance (GO:0045494)|visual perception (GO:0007601)	axoneme (GO:0005930)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|photoreceptor connecting cilium (GO:0032391)|photoreceptor outer segment (GO:0001750)				breast(5)|central_nervous_system(2)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(4)|kidney(5)|large_intestine(16)|lung(82)|ovary(8)|prostate(5)|skin(6)|upper_aerodigestive_tract(4)|urinary_tract(3)	148				COAD - Colon adenocarcinoma(149;0.0811)		CTGCAGGGCCGGGGTCCCCAC	0.657																																																0													43	49	47					8																	10470455		1876	4098	5974	SO:0001583	missense	94137			AY168346	CCDS43708.1	8p23.1	2011-12-06			ENSG00000183638	ENSG00000183638			15946	protein-coding gene	gene with protein product		608581				12634863	Standard	NM_178857		Approved	DCDC4B	uc003wtc.3	Q8IWN7	OTTHUMG00000163806	ENST00000382483.3:c.1153C>T	8.37:g.10470455G>A	ENSP00000371923:p.Arg385Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q86SQ1|Q8IWN8|Q8IWN9|Q8IWP0|Q8IWP1|Q8IWP2	Missense_Mutation	SNP	ENST00000382483.3	37	CCDS43708.1	.	.	.	.	.	.	.	.	.	.	G	15.20	2.762894	0.49574	.	.	ENSG00000183638	ENST00000382483	T	0.04275	3.66	4.78	-0.522	0.11928	.	0.688275	0.11554	U	0.552455	T	0.07413	0.0187	N	0.22421	0.69	0.09310	N	1	D	0.89917	1.0	P	0.61328	0.887	T	0.35847	-0.9772	10	0.62326	D	0.03	-5.29	5.6606	0.17667	0.0:0.1827:0.5552:0.2621	.	385	A6NKC6	.	W	385	ENSP00000371923:R385W	ENSP00000371923:R385W	R	-	1	2	RP1L1	10507865	0.000000	0.05858	0.000000	0.03702	0.038000	0.13279	0.052000	0.14163	0.116000	0.18110	-0.479000	0.04858	CGG		0.657	RP1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375673.1			A	10470455	G	A	10470455	3	1	619	1	0	0	0	0	1	0	0	0	13546	1115	39	1	6053	1	RP1L1	8	10470455	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10		10470455	135893567	42	37940										
MTFR1	9650	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	66617127	66617127	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ctcagagctcagattgccaaAattgtgacccagcaggagca	10	11	2	3			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr8:66617127A>C	ENST00000262146.4	+	5	606	c.480A>C	c.(478-480)aaA>aaC	p.K160N	MTFR1_ENST00000517944.1_3'UTR|MTFR1_ENST00000458689.2_Missense_Mutation_p.K127N	NM_014637.3	NP_055452.3	Q15390	MTFR1_HUMAN	mitochondrial fission regulator 1	160					aerobic respiration (GO:0009060)|mitochondrial fission (GO:0000266)|mitochondrion organization (GO:0007005)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)				cervix(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(1)|pancreas(1)|urinary_tract(1)	11			Epithelial(68;0.0526)|BRCA - Breast invasive adenocarcinoma(89;0.156)|all cancers(69;0.171)|OV - Ovarian serous cystadenocarcinoma(28;0.194)			AGATTGCCAAAATTGTGACCC	0.458																																																0													27	28	27					8																	66617127		2203	4300	6503	SO:0001583	missense	9650				CCDS6182.1, CCDS55240.1	8q13.1	2012-11-30							29510	protein-coding gene	gene with protein product	"likely ortholog of chicken chondrocyte protein with a poly proline region"					7584026, 7584028, 15389597	Standard	NM_014637		Approved	CHPPR, KIAA0009, FAM54A2	uc003xvn.2	Q15390		ENST00000262146.4:c.480A>C	8.37:g.66617127A>C	ENSP00000262146:p.Lys160Asn	Somatic		WXS	Illumina HiSeq	Phase_I	E7EP84|Q6IB94|Q7Z669|Q86XH5|Q8IVD7	Missense_Mutation	SNP	ENST00000262146.4	37	CCDS6182.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	19.72|19.72	3.879273|3.879273	0.72294|0.72294	.|.	.|.	ENSG00000066855|ENSG00000066855	ENST00000518609;ENST00000262146;ENST00000458689|ENST00000518800	T;T|T	0.50813|0.49432	0.73;0.73|0.78	5.24|5.24	1.59|1.59	0.23543|0.23543	.|.	0.095465|0.095465	0.64402|0.64402	D|D	0.000001|0.000001	T|T	0.59932|0.59932	0.2230|0.2230	M|M	0.84683|0.84683	2.71|2.71	0.44789|0.44789	D|D	0.997793|0.997793	P;D;D;D|.	0.76494|.	0.947;0.992;0.998;0.999|.	P;D;D;D|.	0.74674|.	0.905;0.954;0.94;0.984|.	T|T	0.56044|0.56044	-0.8044|-0.8044	10|8	0.42905|0.41790	T|T	0.14|0.15	-28.337|-28.337	7.9704|7.9704	0.30124|0.30124	0.6814:0.0:0.3186:0.0|0.6814:0.0:0.3186:0.0	.|.	160;144;127;160|.	B4E3G8;E5RJS5;E7EP84;Q15390|.	.;.;.;MTFR1_HUMAN|.	N|T	144;160;127|118	ENSP00000262146:K160N;ENSP00000391502:K127N|ENSP00000430621:K118T	ENSP00000262146:K160N|ENSP00000430621:K118T	K|K	+|+	3|2	2|0	MTFR1|MTFR1	66779681|66779681	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.987000|0.987000	0.75469|0.75469	1.601000|1.601000	0.36773|0.36773	0.035000|0.035000	0.15519|0.15519	0.460000|0.460000	0.39030|0.39030	AAA|AAA		0.458	MTFR1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378894.1	NM_014637		C	66617127	A	C	66617127	3	2	619	1	0	0	0	0	1	0	0	0	9932	11	1	5	494	5	MTFR1	8	66617127	Missense_Mutation	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10	56146672	66617127	79746895	43	37941										
SULF1	23213	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	70488224	70488224	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gggtccctgcaagtcatgaaCaaaacgagaaagattatgga	11	7	1	3			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr8:70488224C>G	ENST00000260128.4	+	6	909	c.192C>G	c.(190-192)aaC>aaG	p.N64K	SULF1_ENST00000419716.3_Missense_Mutation_p.N64K|SULF1_ENST00000458141.2_Missense_Mutation_p.N64K|SULF1_ENST00000402687.4_Missense_Mutation_p.N64K	NM_015170.2	NP_055985.2	Q8IWU6	SULF1_HUMAN	sulfatase 1	64					apoptotic process (GO:0006915)|bone development (GO:0060348)|cartilage development (GO:0051216)|chondrocyte development (GO:0002063)|embryonic skeletal system development (GO:0048706)|esophagus smooth muscle contraction (GO:0014846)|glial cell-derived neurotrophic factor receptor signaling pathway (GO:0035860)|glomerular basement membrane development (GO:0032836)|glomerular filtration (GO:0003094)|heparan sulfate proteoglycan metabolic process (GO:0030201)|innervation (GO:0060384)|kidney development (GO:0001822)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cell migration (GO:0030336)|negative regulation of endothelial cell proliferation (GO:0001937)|negative regulation of fibroblast growth factor receptor signaling pathway (GO:0040037)|negative regulation of prostatic bud formation (GO:0060686)|positive regulation of BMP signaling pathway (GO:0030513)|positive regulation of Wnt signaling pathway (GO:0030177)|positive regulation vascular endothelial growth factor production (GO:0010575)|regulation of fibroblast growth factor receptor signaling pathway (GO:0040036)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)	arylsulfatase activity (GO:0004065)|calcium ion binding (GO:0005509)|N-acetylglucosamine-6-sulfatase activity (GO:0008449)			breast(2)|central_nervous_system(3)|endometrium(5)|kidney(3)|large_intestine(10)|lung(15)|ovary(3)|pancreas(2)|prostate(2)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	52	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			AAGTCATGAACAAAACGAGAA	0.522																																																0													80	67	71					8																	70488224		2203	4300	6503	SO:0001583	missense	23213			AB029000	CCDS6204.1	8q13.2	2014-09-11			ENSG00000137573	ENSG00000137573			20391	protein-coding gene	gene with protein product		610012				12368295	Standard	NM_015170		Approved	KIAA1077, SULF-1	uc003xyd.2	Q8IWU6	OTTHUMG00000164466	ENST00000260128.4:c.192C>G	8.37:g.70488224C>G	ENSP00000260128:p.Asn64Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q86YV8|Q8NCA2|Q9UPS5	Missense_Mutation	SNP	ENST00000260128.4	37	CCDS6204.1	.	.	.	.	.	.	.	.	.	.	C	11.47	1.648999	0.29336	.	.	ENSG00000137573	ENST00000458141;ENST00000260128;ENST00000529134;ENST00000402687;ENST00000419716;ENST00000528783;ENST00000525999	D;D;D;D;D;T;D	0.96265	-3.96;-3.96;-3.23;-3.96;-3.96;0.86;-3.96	5.23	2.96	0.34315	Alkaline phosphatase-like, alpha/beta/alpha (1);Sulfatase (1);Alkaline-phosphatase-like, core domain (1);	0.000000	0.85682	D	0.000000	D	0.93861	0.8036	M	0.67397	2.05	0.53688	D	0.999974	B	0.06786	0.001	B	0.10450	0.005	D	0.89996	0.4111	10	0.22109	T	0.4	.	10.5049	0.44828	0.0:0.7019:0.0:0.2981	.	64	Q8IWU6	SULF1_HUMAN	K	64	ENSP00000403040:N64K;ENSP00000260128:N64K;ENSP00000432178:N64K;ENSP00000385704:N64K;ENSP00000390315:N64K;ENSP00000436949:N64K;ENSP00000431753:N64K	ENSP00000260128:N64K	N	+	3	2	SULF1	70650778	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	1.135000	0.31454	1.123000	0.41961	0.650000	0.86243	AAC		0.522	SULF1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378885.2	NM_015170		G	70488224	C	G	70488224	3	3	619	1	0	0	0	0	1	0	0	0	15382	477	17	4	198	4	SULF1	8	70488224	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	3871097	70488224	75875798	44	37942										
DPYS	1807	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	105393497	105393499	+	In_Frame_Del	DEL	CTT	CTT	-													0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tctggatttcagtgtggcgaCttctcccttatagggtgcac					rs148864394	byFrequency	TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr8:105393497_105393499delCTT	ENST00000351513.2	-	9	1619_1621	c.1487_1489delAAG	c.(1486-1491)gaagtc>gtc	p.E496del	DPYS_ENST00000521601.1_5'UTR	NM_001385.2	NP_001376.1	Q14117	DPYS_HUMAN	dihydropyrimidinase	496					beta-alanine metabolic process (GO:0019482)|nucleobase-containing small molecule metabolic process (GO:0055086)|protein homotetramerization (GO:0051289)|pyrimidine nucleobase catabolic process (GO:0006208)|pyrimidine nucleobase metabolic process (GO:0006206)|pyrimidine nucleoside catabolic process (GO:0046135)|small molecule metabolic process (GO:0044281)|thymine catabolic process (GO:0006210)|uracil catabolic process (GO:0006212)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	amino acid binding (GO:0016597)|dihydropyrimidinase activity (GO:0004157)|thymine binding (GO:0002059)|uracil binding (GO:0002058)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|endometrium(2)|kidney(2)|large_intestine(7)|lung(23)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	41			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			AGTGTGGCGACTTCTCCCTTATA	0.483																																																0																																										SO:0001651	inframe_deletion	1807			D78011	CCDS6302.1	8q22	2004-01-22			ENSG00000147647	ENSG00000147647			3013	protein-coding gene	gene with protein product		613326				8973361	Standard	NM_001385		Approved	DHPase	uc003yly.4	Q14117	OTTHUMG00000164891	ENST00000351513.2:c.1487_1489delAAG	8.37:g.105393497_105393499delCTT	ENSP00000276651:p.Glu496del	Somatic		WXS	Illumina HiSeq	Phase_I		In_Frame_Del	DEL	ENST00000351513.2	37	CCDS6302.1																																																																																				0.483	DPYS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380814.1	NM_001385		-	105393499	CTT	-	105393497	7	5	619	1	0	1	0	1	0	0	0	0	4748	565	20	0	74	0	DPYS	8	105393497	In_Frame_Del	DEL	CTT	TCGA-IZ-A6M9-01A-11D-A31X-10	34905273	105393497	40970525	45	37943										
CSMD3	114788	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	114326898	114326898	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tgaaaaacaatttgtattctAtttcgttcttctgctattat	4	6	3	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr8:114326898A>C	ENST00000297405.5	-	2	547	c.303T>G	c.(301-303)aaT>aaG	p.N101K	CSMD3_ENST00000455883.2_Missense_Mutation_p.N101K|CSMD3_ENST00000343508.3_Missense_Mutation_p.N61K|CSMD3_ENST00000352409.3_Missense_Mutation_p.N101K	NM_198123.1	NP_937756.1	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3	101	CUB 1. {ECO:0000255|PROSITE- ProRule:PRU00059}.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)		p.N101N(1)|p.N61N(1)		breast(7)|central_nervous_system(6)|endometrium(44)|haematopoietic_and_lymphoid_tissue(8)|kidney(36)|large_intestine(72)|liver(5)|lung(389)|ovary(24)|prostate(6)|skin(23)|upper_aerodigestive_tract(19)|urinary_tract(7)	646						TTTGTATTCTATTTCGTTCTT	0.353										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)																																						2	Substitution - coding silent(2)	lung(2)											171	162	165					8																	114326898		2203	4300	6503	SO:0001583	missense	114788			AY210419	CCDS6315.1, CCDS6316.2, CCDS6317.1	8q23.3	2007-01-06			ENSG00000164796	ENSG00000164796			19291	protein-coding gene	gene with protein product		608399					Standard	NM_052900		Approved		uc003ynu.3	Q7Z407	OTTHUMG00000157027	ENST00000297405.5:c.303T>G	8.37:g.114326898A>C	ENSP00000297405:p.Asn101Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q96PZ3	Missense_Mutation	SNP	ENST00000297405.5	37	CCDS6315.1	.	.	.	.	.	.	.	.	.	.	A	14.73	2.621352	0.46736	.	.	ENSG00000164796	ENST00000343508;ENST00000297405;ENST00000455883;ENST00000352409	T;T;T;T	0.27256	1.68;1.68;1.68;1.68	5.72	3.38	0.38709	CUB (5);	0.077066	0.47455	D	0.000223	T	0.24699	0.0599	L	0.28740	0.885	0.28547	N	0.911799	P;P;D;P;B	0.69078	0.827;0.93;0.997;0.77;0.395	B;P;P;B;B	0.61132	0.275;0.526;0.884;0.253;0.341	T	0.09796	-1.0658	10	0.09338	T	0.73	.	4.6113	0.12404	0.5913:0.0:0.4087:0.0	.	101;101;101;101;61	Q7Z407-3;Q7Z407-4;Q7Z407-5;Q7Z407;Q7Z407-2	.;.;.;CSMD3_HUMAN;.	K	61;101;101;101	ENSP00000345799:N61K;ENSP00000297405:N101K;ENSP00000412263:N101K;ENSP00000343124:N101K	ENSP00000297405:N101K	N	-	3	2	CSMD3	114396074	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	3.778000	0.55371	0.998000	0.38996	0.455000	0.32223	AAT		0.353	CSMD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347141.1	NM_052900		C	114326898	A	C	114326898	3	2	619	1	0	0	0	0	1	0	0	0	3948	446	16	5	11100	5	CSMD3	8	114326898	Missense_Mutation	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10	8933401	114326898	32037124	46	37944										
SIGMAR1	10280	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	34637563	34637563	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ccagcgtactgccgcgccaaCtgcgctatctcttcgcgctg	10	17	1	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr9:34637563C>G	ENST00000277010.4	-	1	205	c.132G>C	c.(130-132)caG>caC	p.Q44H	SIGMAR1_ENST00000477726.1_Missense_Mutation_p.Q44H|SIGMAR1_ENST00000461426.1_5'UTR|SIGMAR1_ENST00000378892.1_5'UTR	NM_001282208.1|NM_005866.2	NP_001269137.1|NP_005857.1	Q99720	SGMR1_HUMAN	sigma non-opioid intracellular receptor 1	44					cell death (GO:0008219)|lipid transport (GO:0006869)|nervous system development (GO:0007399)|regulation of neuron apoptotic process (GO:0043523)	cell junction (GO:0030054)|cell projection (GO:0042995)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|lipid particle (GO:0005811)|nuclear envelope (GO:0005635)	drug binding (GO:0008144)|opioid receptor activity (GO:0004985)			large_intestine(1)|lung(1)	2					Amitriptyline(DB00321)|Dextromethorphan(DB00514)|Nortriptyline(DB00540)|Pentazocine(DB00652)|Remoxipride(DB00409)	GCCGCGCCAACTGCGCTATCT	0.701																																																0													15	18	17					9																	34637563		2195	4292	6487	SO:0001583	missense	10280			BC004899	CCDS6562.1, CCDS6563.1	9p13.3	2008-12-18	2008-12-18	2008-12-18	ENSG00000147955	ENSG00000147955			8157	protein-coding gene	gene with protein product		601978	"opioid receptor, sigma 1"	OPRS1		8954936, 9453537	Standard	NM_005866		Approved	SR-BP1	uc003zvb.3	Q99720	OTTHUMG00000019829	ENST00000277010.4:c.132G>C	9.37:g.34637563C>G	ENSP00000277010:p.Gln44His	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRM7|O00673|O00725|Q0Z9W6|Q153Z1|Q2TSD1|Q53GN2|Q7Z653|Q8N7H3|Q9NYX0	Missense_Mutation	SNP	ENST00000277010.4	37	CCDS6562.1	.	.	.	.	.	.	.	.	.	.	C	14.79	2.641021	0.47153	.	.	ENSG00000147955	ENST00000277010;ENST00000477726	T;T	0.64618	-0.11;-0.11	4.7	3.8	0.43715	.	0.332724	0.31519	N	0.007517	T	0.63757	0.2538	L	0.52011	1.625	0.29794	N	0.832985	D;D;P	0.59357	0.958;0.985;0.879	P;P;P	0.52598	0.574;0.703;0.559	T	0.63897	-0.6533	10	0.56958	D	0.05	-7.6325	9.982	0.41819	0.3691:0.6309:0.0:0.0	.	44;44;44	B4DR71;A2A3U5;Q99720	.;.;SGMR1_HUMAN	H	44	ENSP00000277010:Q44H;ENSP00000420022:Q44H	ENSP00000277010:Q44H	Q	-	3	2	SIGMAR1	34627563	0.996000	0.38824	1.000000	0.80357	0.969000	0.65631	1.763000	0.38461	1.194000	0.43101	0.561000	0.74099	CAG		0.701	SIGMAR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052204.1	NM_005866		G	34637563	C	G	34637563	3	3	619	1	0	0	0	0	1	0	0	0	14329	564	20	4	555	4	SIGMAR1	9	34637563	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10		34637563	106575868	47	37945										
TMOD1	7111	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	100286582	100286582	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	aaaatgagctggatgagctgGaccctgatgtgagtaggtgc	15	6	0	4			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr9:100286582G>A	ENST00000259365.4	+	2	325	c.112G>A	c.(112-114)Gac>Aac	p.D38N	TMOD1_ENST00000395211.2_Missense_Mutation_p.D38N	NM_003275.3	NP_003266.1	P28289	TMOD1_HUMAN	tropomodulin 1	38					adult locomotory behavior (GO:0008344)|muscle filament sliding (GO:0030049)|myofibril assembly (GO:0030239)	cortical cytoskeleton (GO:0030863)|cytosol (GO:0005829)|membrane (GO:0016020)|myofibril (GO:0030016)		p.D38N(1)		breast(1)|central_nervous_system(1)|kidney(3)|large_intestine(3)|lung(2)|urinary_tract(1)	11		Acute lymphoblastic leukemia(62;0.154)		STAD - Stomach adenocarcinoma(157;0.105)		GGATGAGCTGGACCCTGATGT	0.512																																																1	Substitution - Missense(1)	kidney(1)											138	112	121					9																	100286582		2203	4300	6503	SO:0001583	missense	7111				CCDS6726.1	9q22	2008-07-21		2003-03-21	ENSG00000136842	ENSG00000136842			11871	protein-coding gene	gene with protein product		190930		D9S57E, TMOD		1370827, 8661028	Standard	NM_003275		Approved	ETMOD	uc004axl.2	P28289	OTTHUMG00000020325	ENST00000259365.4:c.112G>A	9.37:g.100286582G>A	ENSP00000259365:p.Asp38Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2RB77|Q5T7W3|Q9BUF1	Missense_Mutation	SNP	ENST00000259365.4	37	CCDS6726.1	.	.	.	.	.	.	.	.	.	.	G	27.3	4.821210	0.90873	.	.	ENSG00000136842	ENST00000395211;ENST00000259365	T;T	0.54279	0.58;0.58	5.05	5.05	0.67936	.	0.000000	0.85682	D	0.000000	T	0.76814	0.4040	M	0.87097	2.86	0.58432	D	0.999999	D	0.89917	1.0	D	0.97110	1.0	T	0.81468	-0.0919	10	0.87932	D	0	-31.3023	17.3565	0.87337	0.0:0.0:1.0:0.0	.	38	P28289	TMOD1_HUMAN	N	38	ENSP00000378637:D38N;ENSP00000259365:D38N	ENSP00000259365:D38N	D	+	1	0	TMOD1	99326403	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.283000	0.78640	2.534000	0.85438	0.585000	0.79938	GAC		0.512	TMOD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053320.2	NM_003275		A	100286582	G	A	100286582	3	1	619	1	0	0	0	0	1	0	0	0	16245	1174	41	2	114	2	TMOD1	9	100286582	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	65649019	100286582	40926849	48	37946										
CTNNAL1	8727	broad.mit.edu	37	chr9	111775718	111775718	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cggcgggtccgggagaggcgGccatggccctcggtctatcc	17	14	1	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr9:111775718G>T	ENST00000325551.4	-	1	91	c.5C>A	c.(4-6)gCc>gAc	p.A2D	CTNNAL1_ENST00000325580.6_Missense_Mutation_p.A2D|CTNNAL1_ENST00000374593.4_Missense_Mutation_p.A2D|CTNNAL1_ENST00000374595.4_Missense_Mutation_p.A2D	NM_003798.2	NP_003789.1	Q9UBT7	CTNL1_HUMAN	catenin (cadherin-associated protein), alpha-like 1	2					cell adhesion (GO:0007155)|Rho protein signal transduction (GO:0007266)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)|plasma membrane (GO:0005886)	structural molecule activity (GO:0005198)			cervix(1)|endometrium(2)|kidney(1)|large_intestine(9)|lung(5)|ovary(1)|prostate(4)|urinary_tract(2)	25				STAD - Stomach adenocarcinoma(157;0.0768)		GGGAGAGGCGGCCATGGCCCT	0.746																																																0													3	4	4					9																	111775718		1652	3413	5065	SO:0001583	missense	8727			AF030233	CCDS6775.1, CCDS69638.1	9q31.2	2008-07-21			ENSG00000119326	ENSG00000119326			2512	protein-coding gene	gene with protein product	"alpha-catulin", "alpha2-catulin"	604785				9806841	Standard	XM_005252291		Approved	CLLP, alpha-CATU	uc004bdo.1	Q9UBT7	OTTHUMG00000020466	ENST00000325551.4:c.5C>A	9.37:g.111775718G>T	ENSP00000320434:p.Ala2Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B5BU47|O76084|Q53FQ2|Q5JTQ7|Q5JTQ8|Q9Y401	Missense_Mutation	SNP	ENST00000325551.4	37	CCDS6775.1	.	.	.	.	.	.	.	.	.	.	G	14.12	2.439682	0.43326	.	.	ENSG00000119326	ENST00000374595;ENST00000325551;ENST00000325580;ENST00000374593	T;T;T;T	0.68765	1.53;1.64;1.52;-0.35	3.82	3.82	0.43975	.	0.000000	0.40144	N	0.001171	T	0.45677	0.1354	N	0.08118	0	0.37305	D	0.908868	B;B;B	0.23058	0.048;0.079;0.048	B;B;B	0.21546	0.015;0.035;0.015	T	0.54682	-0.8257	10	0.87932	D	0	-4.838	11.0862	0.48089	0.0:0.0:1.0:0.0	.	2;2;2	B2RBI4;Q9UBT7-2;Q9UBT7	.;.;CTNL1_HUMAN	D	2	ENSP00000363723:A2D;ENSP00000320434:A2D;ENSP00000323351:A2D;ENSP00000363721:A2D	ENSP00000320434:A2D	A	-	2	0	CTNNAL1	110815539	1.000000	0.71417	0.994000	0.49952	0.107000	0.19398	1.855000	0.39378	1.942000	0.56320	0.561000	0.74099	GCC		0.746	CTNNAL1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000053577.1	NM_003798		T	111775718	G	T	111775718	3	4	619	1	0	0	0	0	1	0	0	0	4017	1203	42	4	2275	4	CTNNAL1	9	111775718	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	11489136	111775718	29437713	49	37947										
PKN3	29941	broad.mit.edu	37	chr9	131469297	131469297	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cacaggaccgcaaggcactgGctgaggtcaggccccagccc	13	16	1	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr9:131469297G>A	ENST00000291906.4	+	5	1039	c.646G>A	c.(646-648)Gct>Act	p.A216T	RN7SL560P_ENST00000577943.1_RNA	NM_013355.3	NP_037487.2	Q6P5Z2	PKN3_HUMAN	protein kinase N3	216					epithelial cell migration (GO:0010631)|protein phosphorylation (GO:0006468)|signal transduction (GO:0007165)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein kinase C activity (GO:0004697)			breast(2)|endometrium(1)|kidney(3)|large_intestine(4)|lung(9)|pancreas(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)	24						CAAGGCACTGGCTGAGGTCAG	0.612																																																0													82	80	80					9																	131469297		2203	4300	6503	SO:0001583	missense	29941			AB019692	CCDS6908.1	9q34.13	2008-02-05			ENSG00000160447	ENSG00000160447			17999	protein-coding gene	gene with protein product		610714				10441506	Standard	NM_013355		Approved	PKNbeta	uc004bvw.3	Q6P5Z2	OTTHUMG00000020757	ENST00000291906.4:c.646G>A	9.37:g.131469297G>A	ENSP00000291906:p.Ala216Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UM03	Missense_Mutation	SNP	ENST00000291906.4	37	CCDS6908.1	.	.	.	.	.	.	.	.	.	.	G	15.68	2.905684	0.52333	.	.	ENSG00000160447	ENST00000291906	T	0.20069	2.1	5.05	4.11	0.48088	.	.	.	.	.	T	0.31451	0.0797	M	0.66939	2.045	0.54753	D	0.99998	P;P	0.44380	0.834;0.645	P;B	0.48189	0.57;0.371	T	0.04855	-1.0922	9	0.48119	T	0.1	.	12.6655	0.56840	0.0:0.0:0.835:0.165	.	216;216	Q05BU1;Q6P5Z2	.;PKN3_HUMAN	T	216	ENSP00000291906:A216T	ENSP00000291906:A216T	A	+	1	0	PKN3	130509118	1.000000	0.71417	0.096000	0.21009	0.046000	0.14306	4.414000	0.59802	2.345000	0.79718	0.555000	0.69702	GCT		0.612	PKN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054487.1	NM_013355		A	131469297	G	A	131469297	3	1	619	1	0	0	0	0	1	0	0	0	11988	1203	42	2	664	2	PKN3	9	131469297	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	19693579	131469297	9744134	50	37948										
PRDM12	59335	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	133556745	133556745	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tgcgctcgcacatgcgcatcCacacgctggacaagcccttc	9	17	0	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr9:133556745C>T	ENST00000253008.2	+	5	853	c.793C>T	c.(793-795)Cac>Tac	p.H265Y		NM_021619.2	NP_067632.2	Q9H4Q4	PRD12_HUMAN	PR domain containing 12	265					neurogenesis (GO:0022008)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|methyltransferase activity (GO:0008168)			kidney(2)|large_intestine(3)|lung(4)|ovary(1)|upper_aerodigestive_tract(1)	11		all_hematologic(13;0.0433)|Acute lymphoblastic leukemia(5;0.0534)		OV - Ovarian serous cystadenocarcinoma(145;0.000344)		CATGCGCATCCACACGCTGGA	0.711																																																0													11	13	12					9																	133556745		2188	4269	6457	SO:0001583	missense	59335			AY004252	CCDS6934.1	9q33-q34	2013-01-08			ENSG00000130711	ENSG00000130711		"Zinc fingers, C2H2-type"	13997	protein-coding gene	gene with protein product	"PR-domain containing protein 12", "PR-domain zinc finger protein 12"					14523459	Standard	NM_021619		Approved		uc004bzt.1	Q9H4Q4	OTTHUMG00000020808	ENST00000253008.2:c.793C>T	9.37:g.133556745C>T	ENSP00000253008:p.His265Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A3KFK9	Missense_Mutation	SNP	ENST00000253008.2	37	CCDS6934.1	.	.	.	.	.	.	.	.	.	.	C	35	5.424499	0.96111	.	.	ENSG00000130711	ENST00000253008	T	0.67523	-0.27	4.31	4.31	0.51392	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.85682	D	0.000000	D	0.84120	0.5402	M	0.89353	3.025	0.54753	D	0.999986	D	0.76494	0.999	D	0.87578	0.998	D	0.88039	0.2780	10	0.87932	D	0	-38.3997	15.763	0.78101	0.0:1.0:0.0:0.0	.	265	Q9H4Q4	PRD12_HUMAN	Y	265	ENSP00000253008:H265Y	ENSP00000253008:H265Y	H	+	1	0	PRDM12	132546566	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.432000	0.80349	1.954000	0.56735	0.561000	0.74099	CAC		0.711	PRDM12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054664.1	NM_021619		T	133556745	C	T	133556745	3	4	619	1	0	0	0	0	1	0	0	0	12463	594	21	2	811	2	PRDM12	9	133556745	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	2087448	133556745	7656686	51	37949										
GDI2	2665	hgsc.bcm.edu;bcgsc.ca	37	chr10	5855180	5855180	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tcagccctggcgcccaccgtCaggccggtgcccagcacgat	12	18	2	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr10:5855180C>A	ENST00000380191.4	-	1	332	c.42G>T	c.(40-42)ctG>ctT	p.L14L	RP11-318E3.9_ENST00000608273.1_lincRNA|GDI2_ENST00000380132.4_5'UTR|GDI2_ENST00000380181.3_Silent_p.L14L	NM_001115156.1|NM_001494.3	NP_001108628.1|NP_001485.2	P50395	GDIB_HUMAN	GDP dissociation inhibitor 2	14					protein transport (GO:0015031)|regulation of small GTPase mediated signal transduction (GO:0051056)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|vesicle (GO:0031982)	poly(A) RNA binding (GO:0044822)|Rab GDP-dissociation inhibitor activity (GO:0005093)|Rab GTPase activator activity (GO:0005097)			NS(1)|breast(1)|large_intestine(1)|lung(6)|urinary_tract(1)	10						CGCCCACCGTCAGGCCGGTGC	0.751																																																0													8	9	9					10																	5855180		2144	4238	6382	SO:0001819	synonymous_variant	2665			D13988	CCDS7071.1, CCDS44352.1	10p15	2010-03-16			ENSG00000057608	ENSG00000057608			4227	protein-coding gene	gene with protein product	"rab GDP-dissociation"	600767				9434952	Standard	NM_001494		Approved	RABGDIB	uc001iil.4	P50395	OTTHUMG00000017607	ENST00000380191.4:c.42G>T	10.37:g.5855180C>A		Somatic		WXS	Illumina HiSeq	Phase_I	O43928|Q5SX88|Q9UQM6	Silent	SNP	ENST00000380191.4	37	CCDS7071.1																																																																																				0.751	GDI2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046580.1	NM_001494		A	5855180	C	A	5855180	2	1	619	1	0	0	0	0	0	0	0	1	6328	813	29	4		4	GDI2	10	5855180	Silent	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10		5855180	129679567	52	37950										
ZNF33B	7582	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	43088707	43088707	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gttgagagagggttgacttaTggctaaagaatttcccacat	11	6	0	4			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr10:43088707T>C	ENST00000359467.3	-	5	1805	c.1691A>G	c.(1690-1692)cAt>cGt	p.H564R	ZNF33B_ENST00000486187.1_RNA	NM_006955.1	NP_008886.1	Q06732	ZN33B_HUMAN	zinc finger protein 33B	564					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(4)|kidney(1)|large_intestine(6)|lung(15)|skin(1)|stomach(1)	29						GGTTGACTTATGGCTAAAGAA	0.413																																					Melanoma(137;1247 1767 16772 25727 43810)											0													120	120	120					10																	43088707		2203	4300	6503	SO:0001583	missense	7582			X68688, AJ491697	CCDS7198.1	10q11.2	2013-01-08	2005-03-18		ENSG00000196693	ENSG00000196693		"Zinc fingers, C2H2-type", "-"	13097	protein-coding gene	gene with protein product		194522	"zinc finger protein 33b (KOX 31)", "zinc finger protein 11B"	ZNF11B		2014798	Standard	NM_006955		Approved	KOX31, KOX2	uc001jaf.1	Q06732	OTTHUMG00000018014	ENST00000359467.3:c.1691A>G	10.37:g.43088707T>C	ENSP00000352444:p.His564Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q06731|Q32MA2|Q86XY8|Q8NDW3	Missense_Mutation	SNP	ENST00000359467.3	37	CCDS7198.1	.	.	.	.	.	.	.	.	.	.	T	10.35	1.326415	0.24080	.	.	ENSG00000196693	ENST00000359467;ENST00000395836	T	0.17691	2.26	2.58	2.58	0.30949	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.37219	N	0.002197	T	0.05868	0.0153	N	0.01529	-0.815	0.27560	N	0.950226	P	0.40834	0.73	B	0.40782	0.34	T	0.27938	-1.0059	10	0.19590	T	0.45	.	9.0257	0.36227	0.0:0.0:0.0:1.0	.	564	Q06732	ZN33B_HUMAN	R	564;530	ENSP00000352444:H564R	ENSP00000352444:H564R	H	-	2	0	ZNF33B	42408713	0.000000	0.05858	1.000000	0.80357	0.980000	0.70556	-0.095000	0.11077	1.449000	0.47699	0.341000	0.21757	CAT		0.413	ZNF33B-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_006955		C	43088707	T	C	43088707	3	2	619	1	0	0	0	0	1	0	0	0	17867	1464	51	3	649	3	ZNF33B	10	43088707	Missense_Mutation	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10	37233527	43088707	92446040	53	37951										
COL17A1	1308	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	105795252	105795252	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ctcgcagcaaggagaggagcTcctcataggaggttcccggc	14	12	1	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr10:105795252T>G	ENST00000353479.5	-	49	3778	c.3488A>C	c.(3487-3489)gAg>gCg	p.E1163A	COL17A1_ENST00000369733.3_Missense_Mutation_p.E1118A	NM_000494.3	NP_000485.3	Q9UMD9	COHA1_HUMAN	collagen, type XVII, alpha 1	1163	Triple-helical region.				cell junction assembly (GO:0034329)|cell-matrix adhesion (GO:0007160)|collagen catabolic process (GO:0030574)|epidermis development (GO:0008544)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)	basement membrane (GO:0005604)|cell-cell junction (GO:0005911)|collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|hemidesmosome (GO:0030056)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)				NS(1)|breast(2)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(9)|liver(1)|lung(22)|ovary(5)|pancreas(1)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)	62		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		GGAGAGGAGCTCCTCATAGGA	0.627																																																0													29	33	32					10																	105795252		2203	4300	6503	SO:0001583	missense	1308			M91669	CCDS7554.1	10q24.3	2013-01-16			ENSG00000065618	ENSG00000065618		"Collagens"	2194	protein-coding gene	gene with protein product		113811		BPAG2		7916703	Standard	NM_000494		Approved	BP180	uc001kxr.3	Q9UMD9	OTTHUMG00000018998	ENST00000353479.5:c.3488A>C	10.37:g.105795252T>G	ENSP00000340937:p.Glu1163Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q02802|Q5JV36|Q99018|Q9NQK9|Q9UC14	Missense_Mutation	SNP	ENST00000353479.5	37	CCDS7554.1	.	.	.	.	.	.	.	.	.	.	T	10.22	1.290516	0.23478	.	.	ENSG00000065618	ENST00000353479;ENST00000369733	D;D	0.91740	-2.9;-2.8	4.83	3.68	0.42216	.	0.150217	0.30329	N	0.009864	D	0.84633	0.5515	L	0.34521	1.04	0.80722	D	1	B	0.30406	0.278	B	0.30179	0.112	T	0.76542	-0.2921	10	0.10902	T	0.67	-20.9225	9.6783	0.40054	0.1549:0.0:0.0:0.8451	.	1163	Q9UMD9	COHA1_HUMAN	A	1163;1118	ENSP00000340937:E1163A;ENSP00000358748:E1118A	ENSP00000340937:E1163A	E	-	2	0	COL17A1	105785242	1.000000	0.71417	1.000000	0.80357	0.007000	0.05969	2.356000	0.44116	0.845000	0.35118	-0.695000	0.03696	GAG		0.627	COL17A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050181.1	NM_130778, NM_000494		G	105795252	T	G	105795252	3	3	619	1	0	0	0	0	1	0	0	0	3676	1551	54	5	1037	5	COL17A1	10	105795252	Missense_Mutation	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10	62706545	105795252	29739495	54	37952										
MUC2	4583	broad.mit.edu	37	chr11	1092630	1092630	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cccagccctccaaccaccacTcccagccctccaacaaccac	2	25	0	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr11:1092630T>C	ENST00000441003.2	+	30	4476	c.4449T>C	c.(4447-4449)acT>acC	p.T1483T	MUC2_ENST00000359061.5_Silent_p.T1484T|MUC2_ENST00000361558.6_Intron|MUC2_ENST00000333592.6_5'Flank	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	4218	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	caaccaccactcccaGCCCTC	0.632																																																0													242	368	324					11																	1092630		1607	3000	4607	SO:0001819	synonymous_variant	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4449T>C	11.37:g.1092630T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Silent	SNP	ENST00000441003.2	37																																																																																					0.632	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		C	1092630	T	C	1092630	2	2	619	1	0	0	0	0	0	0	0	1	9982	1538	54	3		3	MUC2	11	1092630	Silent	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10		1092630	133913886	55	37953										
SMPD1	6609	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	6412728	6412728	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	acctctttgaggatgacatgGtggaggtgtggagacgctca	15	7	2	3			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr11:6412728G>A	ENST00000342245.4	+	2	601	c.433G>A	c.(433-435)Gtg>Atg	p.V145M	SMPD1_ENST00000356761.2_Missense_Mutation_p.V145M|SMPD1_ENST00000533196.1_Intron|SMPD1_ENST00000299397.3_Missense_Mutation_p.V145M|SMPD1_ENST00000527275.1_Missense_Mutation_p.V144M	NM_000543.4|NM_001007593.2	NP_000534.3|NP_001007594.2	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid lysosomal	143	Saposin B-type. {ECO:0000255|PROSITE- ProRule:PRU00415}.				cell death (GO:0008219)|ceramide biosynthetic process (GO:0046513)|glycosphingolipid metabolic process (GO:0006687)|negative regulation of MAP kinase activity (GO:0043407)|nervous system development (GO:0007399)|positive regulation of apoptotic process (GO:0043065)|positive regulation of protein dephosphorylation (GO:0035307)|response to cocaine (GO:0042220)|response to drug (GO:0042493)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)|sphingomyelin catabolic process (GO:0006685)|sphingomyelin metabolic process (GO:0006684)|termination of signal transduction (GO:0023021)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|lamellar body (GO:0042599)|lysosomal lumen (GO:0043202)	hydrolase activity, acting on glycosyl bonds (GO:0016798)|sphingomyelin phosphodiesterase activity (GO:0004767)			breast(1)|central_nervous_system(2)|kidney(1)|large_intestine(8)|lung(5)|ovary(1)|pancreas(1)|prostate(1)|urinary_tract(3)	23		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Amlodipine(DB00381)|Chlorpromazine(DB00477)|Desipramine(DB01151)	GGATGACATGGTGGAGGTGTG	0.582																																																0													76	63	68					11																	6412728		2201	4296	6497	SO:0001583	missense	6609			AB209775	CCDS31409.1, CCDS44531.1, CCDS31409.2	11p15.4-p15.1	2010-04-28	2008-02-04		ENSG00000166311	ENSG00000166311	3.1.4.12		11120	protein-coding gene	gene with protein product	"acid sphingomyelinase"	607608				1711683	Standard	NM_000543		Approved	ASM	uc001mcw.3	P17405	OTTHUMG00000165453	ENST00000342245.4:c.433G>A	11.37:g.6412728G>A	ENSP00000340409:p.Val145Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8M3|E9PKS3|P17406|Q13811|Q16837|Q16841	Missense_Mutation	SNP	ENST00000342245.4	37	CCDS44531.1	.	.	.	.	.	.	.	.	.	.	G	18.12	3.553731	0.65425	.	.	ENSG00000166311	ENST00000299397;ENST00000356761;ENST00000342245;ENST00000527275	D;D;D;D	0.97731	-4.51;-4.51;-4.51;-4.51	5.11	5.11	0.69529	Saposin-like (2);Saposin B (2);	0.178891	0.37857	N	0.001919	D	0.96892	0.8985	L	0.54323	1.7	0.42449	D	0.99274	P;P;P	0.46706	0.818;0.883;0.579	B;P;P	0.51516	0.366;0.672;0.472	D	0.96137	0.9097	10	0.49607	T	0.09	-7.0221	9.6331	0.39791	0.0956:0.0:0.9044:0.0	.	144;145;143	E9PKS3;G3XAB5;P17405	.;.;ASM_HUMAN	M	145;145;145;144	ENSP00000299397:V145M;ENSP00000349203:V145M;ENSP00000340409:V145M;ENSP00000435350:V144M	ENSP00000299397:V145M	V	+	1	0	SMPD1	6369304	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	2.869000	0.48444	2.382000	0.81193	0.650000	0.86243	GTG		0.582	SMPD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000384205.1	NM_000543		A	6412728	G	A	6412728	3	1	619	1	0	0	0	0	1	0	0	0	14817	1261	44	2	439	2	SMPD1	11	6412728	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	5320098	6412728	128593788	56	37954										
PEX16	9409	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	45936221	45936221	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ggactgctcatggttgccagGgctgtggtcaccatctagca	13	11	3	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr11:45936221G>A	ENST00000378750.5	-	6	718	c.475C>T	c.(475-477)Cct>Tct	p.P159S	PEX16_ENST00000532681.1_Missense_Mutation_p.P64S|PEX16_ENST00000241041.3_Missense_Mutation_p.P159S|PEX16_ENST00000532554.1_5'UTR			Q9Y5Y5	PEX16_HUMAN	peroxisomal biogenesis factor 16	159					ER-dependent peroxisome organization (GO:0032581)|peroxisome membrane biogenesis (GO:0016557)|peroxisome organization (GO:0007031)|protein import into peroxisome matrix (GO:0016558)|protein import into peroxisome membrane (GO:0045046)|protein localization to endoplasmic reticulum (GO:0070972)|protein targeting to peroxisome (GO:0006625)|protein to membrane docking (GO:0022615)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of peroxisomal membrane (GO:0005779)|membrane (GO:0016020)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	protein C-terminus binding (GO:0008022)	p.P159T(1)		large_intestine(2)|lung(2)|ovary(2)|skin(1)	7				GBM - Glioblastoma multiforme(35;0.223)		TGGTTGCCAGGGCTGTGGTCA	0.582																																																1	Substitution - Missense(1)	large_intestine(1)											154	129	137					11																	45936221		2203	4299	6502	SO:0001583	missense	9409			AF118240	CCDS7917.1, CCDS31472.1	11p	2007-12-14			ENSG00000121680	ENSG00000121680			8857	protein-coding gene	gene with protein product		603360				9922452	Standard	NM_057174		Approved		uc001nbt.3	Q9Y5Y5	OTTHUMG00000167005	ENST00000378750.5:c.475C>T	11.37:g.45936221G>A	ENSP00000368024:p.Pro159Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BWB9	Missense_Mutation	SNP	ENST00000378750.5	37	CCDS31472.1	.	.	.	.	.	.	.	.	.	.	G	0.052	-1.248308	0.01469	.	.	ENSG00000121680	ENST00000241041;ENST00000378750;ENST00000532681;ENST00000533151;ENST00000525192	T;T;T;T;T	0.19250	2.16;2.16;2.16;2.16;2.16	6.04	-5.2	0.02823	.	1.274680	0.04746	N	0.423709	T	0.05868	0.0153	N	0.03608	-0.345	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.06405	0.001;0.002	T	0.28744	-1.0034	10	0.06236	T	0.91	2.692	1.5964	0.02665	0.2746:0.3442:0.2067:0.1744	.	159;159	Q9Y5Y5;Q9Y5Y5-2	PEX16_HUMAN;.	S	159;159;64;55;64	ENSP00000241041:P159S;ENSP00000368024:P159S;ENSP00000434654:P64S;ENSP00000433045:P55S;ENSP00000431309:P64S	ENSP00000241041:P159S	P	-	1	0	PEX16	45892797	0.000000	0.05858	0.001000	0.08648	0.474000	0.32979	-1.251000	0.02882	-0.602000	0.05775	0.561000	0.74099	CCT		0.582	PEX16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392398.1	NM_057174		A	45936221	G	A	45936221	3	1	619	1	0	0	0	0	1	0	0	0	11750	1232	43	2	652	2	PEX16	11	45936221	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	39523493	45936221	89070295	57	37955										
OR5J2	282775	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	55944703	55944703	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tgttgctgttaaccttctccGgagtcattgccatggccacc	9	13	2	0	rs143728764	byFrequency	TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr11:55944703G>A	ENST00000312298.1	+	1	610	c.610G>A	c.(610-612)Gga>Aga	p.G204R		NM_001005492.1	NP_001005492.1	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J, member 2	204						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(30)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|stomach(1)	44	Esophageal squamous(21;0.00693)					AACCTTCTCCGGAGTCATTGC	0.468													.|||	2	0.000399361	0.0	0.0	5008	,	,		23855	0.0		0.002	False		,,,				2504	0.0															0								A	ARG/GLY	1,4401	2.1+/-5.4	0,1,2200	168	129	142		610	1.6	0	11	dbSNP_134	142	2,8590	3.0+/-9.4	0,2,4294	yes	missense	OR5J2	NM_001005492.1	125	0,3,6494	AA,AG,GG		0.0233,0.0227,0.0231	probably-damaging	204/313	55944703	3,12991	2201	4296	6497	SO:0001583	missense	282775			AB065595	CCDS31522.1	11q11	2012-08-09			ENSG00000174957	ENSG00000174957		"GPCR / Class A : Olfactory receptors"	19612	protein-coding gene	gene with protein product							Standard	NM_001005492		Approved		uc010rjb.2	Q8NH18	OTTHUMG00000166835	ENST00000312298.1:c.610G>A	11.37:g.55944703G>A	ENSP00000310788:p.Gly204Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEU5	Missense_Mutation	SNP	ENST00000312298.1	37	CCDS31522.1	2	9.157509157509158E-4	0	0.0	0	0.0	0	0.0	2	0.002638522427440633	g	9.690	1.151524	0.21371	2.27E-4	2.33E-4	ENSG00000174957	ENST00000312298	T	0.38401	1.14	4.55	1.59	0.23543	GPCR, rhodopsin-like superfamily (1);	0.240868	0.29059	N	0.013277	T	0.47710	0.1460	M	0.90977	3.165	0.09310	N	1	P	0.45569	0.861	P	0.45037	0.467	T	0.48811	-0.9002	10	0.72032	D	0.01	.	7.9468	0.29991	0.334:0.0:0.666:0.0	.	204	Q8NH18	OR5J2_HUMAN	R	204	ENSP00000310788:G204R	ENSP00000310788:G204R	G	+	1	0	OR5J2	55701279	0.000000	0.05858	0.034000	0.17996	0.001000	0.01503	0.042000	0.13949	0.497000	0.27926	-0.185000	0.12909	GGA		0.468	OR5J2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391544.1	NM_001005492		A	55944703	G	A	55944703	3	1	619	1	0	0	0	0	1	0	0	0	11172	1117	39	1	612	1	OR5J2	11	55944703	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	10008482	55944703	79061813	58	37956										
C11orf57	55216	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	111953315	111953315	+	Frame_Shift_Del	DEL	C	C	-													0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	aagcagaaaaaaaggtcacaCaaaaaacagaagaaaagcaa							TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr11:111953315delC	ENST00000280352.9	+	6	1134	c.498delC	c.(496-498)cacfs	p.H166fs	C11orf57_ENST00000420986.2_Frame_Shift_Del_p.H166fs|C11orf57_ENST00000393047.3_Frame_Shift_Del_p.H167fs|TIMM8B_ENST00000507614.1_5'Flank|C11orf57_ENST00000532163.1_Frame_Shift_Del_p.H138fs	NM_001082970.1|NM_018195.3	NP_001076439.1|NP_060665.3	Q6ZUT1	CK057_HUMAN	chromosome 11 open reading frame 57	166	Lys-rich.									autonomic_ganglia(1)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(1)|ovary(1)|prostate(1)	12		all_cancers(61;9.8e-15)|all_epithelial(67;6.57e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;3.6e-07)|BRCA - Breast invasive adenocarcinoma(274;6.17e-07)|all cancers(92;7.01e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0521)		AAAGGTCACACAAAAAACAGA	0.413																																																0													99	105	103					11																	111953315		2201	4297	6498	SO:0001589	frameshift_variant	55216			BX538107	CCDS8356.2, CCDS41715.1, CCDS73383.1	11q23.1	2006-03-09			ENSG00000150776	ENSG00000150776			25569	protein-coding gene	gene with protein product						12477932	Standard	NM_001082970		Approved	FLJ10726	uc001pmw.4	Q6ZUT1	OTTHUMG00000150213	ENST00000280352.9:c.498delC	11.37:g.111953315delC	ENSP00000339076:p.His166fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5RL41|Q6IN53|Q7Z357|Q8N2T3	Frame_Shift_Del	DEL	ENST00000280352.9	37	CCDS41715.1																																																																																				0.413	C11orf57-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000316852.1	NM_018195		-	111953315	C	-	111953315	7	5	619	1	0	1	0	1	0	0	0	0	1652	477	17	0	519	0	C11orf57	11	111953315	Frame_Shift_Del	DEL	C	TCGA-IZ-A6M9-01A-11D-A31X-10	56008612	111953315	23053201	59	37957										
VPS11	55823	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	118952015	118952015	+	Frame_Shift_Del	DEL	C	C	-													0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cgagatctccatgatcaattCcagcatcaggtggggatgag							TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr11:118952015delC	ENST00000300793.6	+	16	2691	c.2649delC	c.(2647-2649)ttcfs	p.F883fs	VPS11_ENST00000527798.1_3'UTR	NM_021729.4	NP_068375.3	Q9H270	VPS11_HUMAN	vacuolar protein sorting 11 homolog (S. cerevisiae)	884					intracellular protein transport (GO:0006886)|vesicle-mediated transport (GO:0016192)	endocytic vesicle (GO:0030139)|endosome (GO:0005768)|HOPS complex (GO:0030897)|lysosomal membrane (GO:0005765)	nucleotide binding (GO:0000166)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(6)|lung(7)|ovary(2)|prostate(1)|skin(2)|urinary_tract(2)	29	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)		ATGATCAATTCCAGCATCAGG	0.532																																																0													50	52	51					11																	118952015		1948	4151	6099	SO:0001589	frameshift_variant	55823			AB027508	CCDS73404.1	11q23	2008-02-05	2006-12-19			ENSG00000160695		"RING-type (C3HC4) zinc fingers"	14583	protein-coding gene	gene with protein product		608549	"vacuolar protein sorting 11 (yeast homolog)"				Standard	NM_021729		Approved	RNF108, PEP5	uc010ryx.2	Q9H270		ENST00000300793.6:c.2649delC	11.37:g.118952015delC	ENSP00000475301:p.Phe883fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WY89|Q96EP8|Q9H6D9|Q9HCS6	Targeted_Region	DEL	ENST00000300793.6	37																																																																																					0.532	VPS11-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_021729		-	118952015	C	-	118952015	7	5	619	1	0	1	0	1	0	0	0	0	17200	854	30	0	2709	0	VPS11	11	118952015	Frame_Shift_Del	DEL	C	TCGA-IZ-A6M9-01A-11D-A31X-10	6998700	118952015	16054501	60	37958										
ITPR2	3709	broad.mit.edu	37	chr12	26714818	26714818	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ctctgcaccatatttgaatgGctcttcatgaaaagagtatt	7	8	3	3			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr12:26714818G>T	ENST00000381340.3	-	35	5114	c.4698C>A	c.(4696-4698)agC>agA	p.S1566R		NM_002223.2	NP_002214.2	Q14571	ITPR2_HUMAN	inositol 1,4,5-trisphosphate receptor, type 2	1566					activation of phospholipase C activity (GO:0007202)|blood coagulation (GO:0007596)|cellular response to cAMP (GO:0071320)|cellular response to ethanol (GO:0071361)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|inositol phosphate-mediated signaling (GO:0048016)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet activation (GO:0030168)|regulation of insulin secretion (GO:0050796)|response to hypoxia (GO:0001666)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|transport (GO:0006810)	cell cortex (GO:0005938)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|platelet dense tubular network membrane (GO:0031095)|receptor complex (GO:0043235)|sarcoplasmic reticulum membrane (GO:0033017)	calcium ion transmembrane transporter activity (GO:0015085)|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0005220)|phosphatidylinositol binding (GO:0035091)		ETV6/ITPR2(2)	biliary_tract(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(16)|large_intestine(20)|liver(1)|lung(51)|ovary(5)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(5)|urinary_tract(3)	125	Colorectal(261;0.0847)				Caffeine(DB00201)	TATTTGAATGGCTCTTCATGA	0.433																																																0													58	58	58					12																	26714818		1879	4118	5997	SO:0001583	missense	3709			D26350	CCDS41764.1	12p11.23	2014-07-18	2011-04-28		ENSG00000123104	ENSG00000123104		"Ion channels / Inositol triphosphate receptors"	6181	protein-coding gene	gene with protein product	"cilia and flagella associated protein 48"	600144	"inositol 1,4,5-triphosphate receptor, type 2"			8081734	Standard	XM_006719064		Approved	IP3R2, CFAP48	uc001rhg.3	Q14571	OTTHUMG00000169181	ENST00000381340.3:c.4698C>A	12.37:g.26714818G>T	ENSP00000370744:p.Ser1566Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O94773	Missense_Mutation	SNP	ENST00000381340.3	37	CCDS41764.1	.	.	.	.	.	.	.	.	.	.	G	14.88	2.667994	0.47677	.	.	ENSG00000123104	ENST00000381340	T	0.68331	-0.32	4.59	0.0451	0.14228	.	0.401114	0.31233	N	0.008004	T	0.52451	0.1735	L	0.46819	1.47	0.80722	D	1	B	0.28933	0.228	B	0.29267	0.1	T	0.44498	-0.9324	10	0.72032	D	0.01	.	4.8656	0.13607	0.416:0.0:0.4445:0.1395	.	1566	Q14571	ITPR2_HUMAN	R	1566	ENSP00000370744:S1566R	ENSP00000370744:S1566R	S	-	3	2	ITPR2	26606085	1.000000	0.71417	0.992000	0.48379	0.998000	0.95712	1.059000	0.30517	0.105000	0.17753	0.655000	0.94253	AGC		0.433	ITPR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402732.1	NM_002223		T	26714818	G	T	26714818	3	4	619	1	0	0	0	0	1	0	0	0	7928	1194	42	4	3499	4	ITPR2	12	26714818	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10		26714818	107137077	61	37959										
DNAJC22	79962	bcgsc.ca	37	chr12	49745201	49745201	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cacaacctggaccagacagaGgaggcacagaggcacttcct	11	13	0	3			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr12:49745201G>T	ENST00000549441.2	+	4	2146	c.942G>T	c.(940-942)gaG>gaT	p.E314D	DNAJC22_ENST00000395069.3_Missense_Mutation_p.E314D			Q8N4W6	DJC22_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 22	314	J. {ECO:0000255|PROSITE- ProRule:PRU00286}.					integral component of membrane (GO:0016021)				breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(2)|liver(2)|lung(1)|ovary(1)|pancreas(1)	10						ACCAGACAGAGGAGGCACAGA	0.547																																																0													59	59	59					12																	49745201		2203	4300	6503	SO:0001583	missense	79962			AK055747	CCDS8785.1	12q13.12	2011-09-02		2008-07-08	ENSG00000178401	ENSG00000178401		"Heat shock proteins / DNAJ (HSP40)"	25802	protein-coding gene	gene with protein product	"wurst homolog (Drosophila)"					17558392	Standard	NM_024902		Approved	wus, FLJ13236	uc001rua.3	Q8N4W6		ENST00000549441.2:c.942G>T	12.37:g.49745201G>T	ENSP00000446830:p.Glu314Asp	Somatic		WXS	Illumina HiSeq	Phase_1	B3KP54	Missense_Mutation	SNP	ENST00000549441.2	37	CCDS8785.1	.	.	.	.	.	.	.	.	.	.	G	18.17	3.564963	0.65651	.	.	ENSG00000178401	ENST00000549441;ENST00000395069	T;T	0.33438	1.41;1.41	5.5	3.53	0.40419	Heat shock protein DnaJ, N-terminal (5);	0.154813	0.56097	D	0.000021	T	0.18882	0.0453	N	0.20357	0.565	0.47511	D	0.999446	P	0.36354	0.549	B	0.40038	0.317	T	0.05517	-1.0880	10	0.37606	T	0.19	-7.4243	4.2702	0.10783	0.1957:0.0:0.6268:0.1776	.	314	Q8N4W6	DJC22_HUMAN	D	314	ENSP00000446830:E314D;ENSP00000378508:E314D	ENSP00000378508:E314D	E	+	3	2	DNAJC22	48031468	1.000000	0.71417	0.997000	0.53966	0.996000	0.88848	0.731000	0.26058	0.748000	0.32831	0.555000	0.69702	GAG		0.547	DNAJC22-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404302.2	NM_024902		T	49745201	G	T	49745201	3	4	619	1	0	0	0	0	1	0	0	0	4643	991	35	4	948	4	DNAJC22	12	49745201	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	23030383	49745201	84106694	62	37960										
R3HDM2	22864	broad.mit.edu	37	chr12	57663626	57663626	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	aatagttggaagtggggaggGgctgacccgtggaagccatg	18	6	0	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr12:57663626G>T	ENST00000347140.3	-	15	1844	c.1454C>A	c.(1453-1455)cCc>cAc	p.P485H	R3HDM2_ENST00000546843.1_5'Flank|R3HDM2_ENST00000403821.2_Missense_Mutation_p.P519H|RP11-123K3.4_ENST00000548184.1_3'UTR|R3HDM2_ENST00000402412.1_Missense_Mutation_p.P499H|R3HDM2_ENST00000358907.2_Missense_Mutation_p.P485H|R3HDM2_ENST00000413953.2_Missense_Mutation_p.P212H|R3HDM2_ENST00000441731.2_Missense_Mutation_p.P180H			Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2	485	Gln-rich.					nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(3)|ovary(3)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(1)	22						AGTGGGGAGGGGCTGACCCGT	0.572																																																0													120	106	111					12																	57663626		2203	4300	6503	SO:0001583	missense	22864			AB023219	CCDS8937.2	12q13.3	2012-11-19			ENSG00000179912	ENSG00000179912			29167	protein-coding gene	gene with protein product							Standard	NM_014925		Approved	KIAA1002	uc009zpm.1	Q9Y2K5	OTTHUMG00000171568	ENST00000347140.3:c.1454C>A	12.37:g.57663626G>T	ENSP00000317903:p.Pro485His	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M1T9|Q3ZCT5	Missense_Mutation	SNP	ENST00000347140.3	37	CCDS8937.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	25.3|25.3	4.627176|4.627176	0.87560|0.87560	.|.	.|.	ENSG00000179912|ENSG00000179912	ENST00000413953;ENST00000393811;ENST00000347140;ENST00000402412;ENST00000358907;ENST00000441731;ENST00000429355;ENST00000403821|ENST00000466401	T;T;T;T;T;T;T;T|.	0.41400|.	1.0;1.0;1.0;1.0;1.0;1.0;1.0;1.0|.	5.21|5.21	5.21|5.21	0.72293|0.72293	.|.	0.058617|0.058617	0.64402|0.64402	D|D	0.000001|0.000001	T|T	0.69305|0.69305	0.3096|0.3096	L|L	0.42245|0.42245	1.32|1.32	0.54753|0.54753	D|D	0.999983|0.999983	D;D;D;D;D|.	0.76494|.	0.999;0.997;0.997;0.997;0.999|.	D;P;P;P;D|.	0.65874|.	0.939;0.817;0.817;0.817;0.939|.	T|T	0.70360|0.70360	-0.4893|-0.4893	10|7	0.87932|0.66056	D|D	0|0.02	-11.5485|-11.5485	18.0786|18.0786	0.89436|0.89436	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	212;519;499;485;212|.	B4DDZ2;B5MCG9;B5MCU0;Q9Y2K5;E9PAL1|.	.;.;.;R3HD2_HUMAN;.|.	H|T	212;212;485;499;485;180;250;519|83	ENSP00000409146:P212H;ENSP00000377400:P212H;ENSP00000317903:P485H;ENSP00000385839:P499H;ENSP00000351784:P485H;ENSP00000408536:P180H;ENSP00000394676:P250H;ENSP00000385169:P519H|.	ENSP00000317903:P485H|ENSP00000449326:P83T	P|P	-|-	2|1	0|0	R3HDM2|R3HDM2	55949893|55949893	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	8.841000|8.841000	0.92131|0.92131	2.890000|2.890000	0.99128|0.99128	0.650000|0.650000	0.86243|0.86243	CCC|CCC		0.572	R3HDM2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000326570.2	NM_014925		T	57663626	G	T	57663626	3	4	619	1	0	0	0	0	1	0	0	0	12901	1232	43	4	1516	4	R3HDM2	12	57663626	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	7918425	57663626	76188269	63	37961										
ARL6IP4	23457	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	123465766	123465770	+	5'UTR	DEL	AGAGC	AGAGC	-													0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gtcggaaaagagaaagaagaAgagcaggaaagacacctcga							TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	AGAGC	AGAGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr12:123465766_123465770delAGAGC	ENST00000542678.1	-	0	426_430				ARL6IP4_ENST00000412505.2_Frame_Shift_Del_p.KS27fs|RP11-197N18.2_ENST00000540866.2_RNA|ARL6IP4_ENST00000453766.2_Frame_Shift_Del_p.KS150fs|ARL6IP4_ENST00000315580.5_Frame_Shift_Del_p.KS150fs|ARL6IP4_ENST00000357866.4_Frame_Shift_Del_p.KS27fs|ARL6IP4_ENST00000426960.2_Frame_Shift_Del_p.KS27fs|ARL6IP4_ENST00000454885.2_Frame_Shift_Del_p.KS27fs|ARL6IP4_ENST00000439686.2_Frame_Shift_Del_p.KS27fs|ARL6IP4_ENST00000392435.2_Frame_Shift_Del_p.KS150fs|ARL6IP4_ENST00000543566.1_Frame_Shift_Del_p.KS150fs			Q9NP78	ABCB9_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP), member 9						peptide transport (GO:0015833)|protein transport (GO:0015031)|transmembrane transport (GO:0055085)	integral component of endoplasmic reticulum membrane (GO:0030176)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)	ATP binding (GO:0005524)|peptide-transporting ATPase activity (GO:0015440)|protein homodimerization activity (GO:0042803)|substrate-specific transmembrane transporter activity (GO:0022891)			central_nervous_system(1)|endometrium(2)|large_intestine(2)|lung(9)|ovary(2)|prostate(1)|skin(1)	18	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.84e-05)|Epithelial(86;0.000152)|BRCA - Breast invasive adenocarcinoma(302;0.111)		AGAAAGAAGAAGAGCAGGAAAGACA	0.683																																					Ovarian(49;786 1333 9175 38236)											0																																										SO:0001623	5_prime_UTR_variant	51329			U66676	CCDS9241.1, CCDS58286.1, CCDS58287.1, CCDS58288.1	12q24	2012-03-14			ENSG00000150967	ENSG00000150967		"ATP binding cassette transporters / subfamily B"	50	protein-coding gene	gene with protein product		605453				8894702	Standard	NM_019625		Approved	EST122234	uc001udm.4	Q9NP78		ENST00000542678.1:c.-2413GCTCT>-	12.37:g.123465766_123465770delAGAGC		Somatic		WXS	Illumina HiSeq	Phase_I	B4E2J0|Q5W9G7|Q769F3|Q769F4|Q96AB1|Q9P208	Frame_Shift_Del	DEL	ENST00000542678.1	37	CCDS9241.1																																																																																				0.683	ABCB9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400956.1	NM_019624		-	123465770	AGAGC	-	123465766	6	5	619	0	1	1	0	1	0	0	0	0	943	72	3	0		0	ARL6IP4	12	123465766	5'UTR	DEL	AGAGC	TCGA-IZ-A6M9-01A-11D-A31X-10	65802140	123465766	10386129	64	37962										
NUFIP1	26747	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr13	45563329	45563329	+	Frame_Shift_Del	DEL	G	G	-													0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ccgggaagaatctgggcgtcGaaggggggcggagccccggg							TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr13:45563329delG	ENST00000379161.4	-	1	289	c.243delC	c.(241-243)ttcfs	p.F81fs	RP11-321C24.1_ENST00000437748.2_lincRNA|GPALPP1_ENST00000361121.2_5'Flank|GPALPP1_ENST00000379151.4_5'Flank	NM_012345.2	NP_036477.2	Q9UHK0	NUFP1_HUMAN	nuclear fragile X mental retardation protein interacting protein 1	81	Pro-rich.				box C/D snoRNP assembly (GO:0000492)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|RNA processing (GO:0006396)	cytosolic ribosome (GO:0022626)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perichromatin fibrils (GO:0005726)|pre-snoRNP complex (GO:0070761)|presynaptic active zone (GO:0048786)|transcription elongation factor complex (GO:0008023)	DNA binding (GO:0003677)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|protein binding, bridging (GO:0030674)|RNA binding (GO:0003723)			breast(2)|cervix(1)|endometrium(2)|large_intestine(2)|lung(4)|prostate(4)|skin(3)	18		Lung NSC(96;8.23e-05)|Breast(139;0.00378)|Prostate(109;0.0107)|all_hematologic(4;0.014)|Lung SC(185;0.0262)|Hepatocellular(98;0.0524)|Acute lymphoblastic leukemia(4;0.143)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000306)|BRCA - Breast invasive adenocarcinoma(63;0.125)		TCTGGGCGTCGAAGGGGGGCG	0.657																																																0													14	17	16					13																	45563329		2189	4285	6474	SO:0001589	frameshift_variant	26747			AF159548	CCDS9393.1	13q14	2008-02-05			ENSG00000083635	ENSG00000083635			8057	protein-coding gene	gene with protein product		604354				10556305, 10894927	Standard	NM_012345		Approved	NUFIP	uc001uzp.2	Q9UHK0	OTTHUMG00000016842	ENST00000379161.4:c.243delC	13.37:g.45563329delG	ENSP00000368459:p.Phe81fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WVM5|Q96SG1	Frame_Shift_Del	DEL	ENST00000379161.4	37	CCDS9393.1																																																																																				0.657	NUFIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044755.2	NM_012345		-	45563329	G	-	45563329	7	5	619	1	0	1	0	1	0	0	0	0	10755	1049	37	0	1284	0	NUFIP1	13	45563329	Frame_Shift_Del	DEL	G	TCGA-IZ-A6M9-01A-11D-A31X-10		45563329	69606549	65	37963										
DACH1	1602	broad.mit.edu	37	chr13	72440446	72440446	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ctgctgctgctgctactactGctgctgctgctgctgctgct	11	14	0	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr13:72440446G>A	ENST00000359684.2	-	1	461	c.462C>T	c.(460-462)agC>agT	p.S154S	DACH1_ENST00000313174.7_Silent_p.S154S|DACH1_ENST00000354591.4_Silent_p.S154S|DACH1_ENST00000305425.4_Silent_p.S154S			Q9UI36	DACH1_HUMAN	dachshund family transcription factor 1	154	Poly-Ser.				cell proliferation (GO:0008283)|development of primary female sexual characteristics (GO:0046545)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation involved in contact inhibition (GO:0060244)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of transcription by competitive promoter binding (GO:0010944)|respiratory gaseous exchange (GO:0007585)|suckling behavior (GO:0001967)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity involved in preinitiation complex assembly (GO:0001075)			NS(1)|breast(2)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(23)|ovary(1)|pancreas(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	41		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)		tgctactactgctgctgctgc	0.662																																																0													3	4	4					13																	72440446		1701	3505	5206	SO:0001819	synonymous_variant	1602			AJ005670	CCDS41899.1, CCDS53874.1, CCDS53873.1	13q22	2014-02-03	2014-02-03	2004-04-02	ENSG00000165659	ENSG00000276644			2663	protein-coding gene	gene with protein product		603803	"dachshund homolog (Drosophila)", "dachshund homolog 1 (Drosophila)"	DACH		9933575, 10395809, 15057823	Standard	NM_004392		Approved		uc021rkj.1	Q9UI36	OTTHUMG00000017063	ENST00000359684.2:c.462C>T	13.37:g.72440446G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D0FY35|D0FY36|O75523|O75687|Q5VYY3|Q5VYY4|Q96SG3|Q96SG4|Q9H524|Q9UMH4	Silent	SNP	ENST00000359684.2	37																																																																																					0.662	DACH1-002	KNOWN	not_organism_supported|basic	protein_coding	protein_coding	OTTHUMT00000045240.1	NM_004392		A	72440446	G	A	72440446	2	1	619	1	0	0	0	0	0	0	0	1	4222	1310	46	2		2	DACH1	13	72440446	Silent	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	26877117	72440446	42729432	66	37964										
LMO7	4008	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr13	76395479	76395497	+	Frame_Shift_Del	DEL	AAAGAAGATTCTACCACTT	AAAGAAGATTCTACCACTT	-													0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cttatccttcagaaattcccAaagaagattctaccactttt					rs200351536|rs532984694|rs149099643	byFrequency	TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	AAAGAAGATTCTACCACTT	AAAGAAGATTCTACCACTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr13:76395479_76395497delAAAGAAGATTCTACCACTT	ENST00000321797.8	+	12	2396_2414	c.1675_1693delAAAGAAGATTCTACCACTT	c.(1675-1695)aaagaagattctaccacttttfs	p.KEDSTTF559fs	LMO7_ENST00000341547.4_Frame_Shift_Del_p.KEDSTTF510fs|LMO7_ENST00000526202.1_Frame_Shift_Del_p.KEDSTTF409fs|LMO7_ENST00000357063.3_Frame_Shift_Del_p.KEDSTTF844fs|LMO7_ENST00000465261.2_Frame_Shift_Del_p.KEDSTTF559fs|LMO7_ENST00000377534.3_Frame_Shift_Del_p.KEDSTTF844fs			Q8WWI1	LMO7_HUMAN	LIM domain 7	844					protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|nucleus (GO:0005634)|ubiquitin ligase complex (GO:0000151)	ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(2)|kidney(2)|large_intestine(20)|lung(15)|ovary(2)|prostate(5)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	56		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		AGAAATTCCCAAAGAAGATTCTACCACTTTTGCAAAAAG	0.457																																																0																																										SO:0001589	frameshift_variant	4008			AF092557	CCDS9454.1, CCDS53876.1	13q22.2	2008-02-05	2004-06-15		ENSG00000136153	ENSG00000136153			6646	protein-coding gene	gene with protein product	"F-box only protein 20"	604362	"LIM domain only 7"	FBXO20		9826547, 10531035	Standard	NM_005358		Approved	FBX20, KIAA0858	uc021rkq.1	Q8WWI1	OTTHUMG00000017093	ENST00000321797.8:c.1675_1693delAAAGAAGATTCTACCACTT	13.37:g.76395479_76395497delAAAGAAGATTCTACCACTT	ENSP00000317802:p.Lys559fs	Somatic		WXS	Illumina HiSeq	Phase_I	E9PLH4|O15462|O95346|Q5TBK6|Q9UKC1|Q9UQM5|Q9Y6A7	Frame_Shift_Del	DEL	ENST00000321797.8	37																																																																																					0.457	LMO7-005	PUTATIVE	alternative_5_UTR|not_organism_supported|basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000045301.3	NM_005358		-	76395497	AAAGAAGATTCTACCACTT	-	76395479	7	5	619	1	0	1	0	1	0	0	0	0	8862	131	5	0	2588	0	LMO7	13	76395479	Frame_Shift_Del	DEL	AAAGAAGATTCTACCACTT	TCGA-IZ-A6M9-01A-11D-A31X-10	3955033	76395479	38774399	67	37965										
TMTC4	84899	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	101287091	101287091	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gggacacacagacagagcacTtctgaaaagctgttcctcac	9	12	2	3			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr13:101287091T>G	ENST00000376234.3	-	11	1606	c.1417A>C	c.(1417-1419)Agt>Cgt	p.S473R	TMTC4_ENST00000342624.5_Missense_Mutation_p.S492R|TMTC4_ENST00000328767.5_Missense_Mutation_p.S362R|TMTC4_ENST00000462211.1_5'UTR	NM_001079669.1	NP_001073137.1	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat containing 4	473						integral component of membrane (GO:0016021)				breast(3)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(5)|liver(1)|lung(14)|ovary(2)|prostate(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	34	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					GACAGAGCACTTCTGAAAAGC	0.493																																																0													135	140	139					13																	101287091		2203	4300	6503	SO:0001583	missense	84899				CCDS9497.2, CCDS41904.1, CCDS66575.1	13q32.3	2013-01-10	2006-01-06		ENSG00000125247	ENSG00000125247		"Tetratricopeptide (TTC) repeat domain containing"	25904	protein-coding gene	gene with protein product							Standard	XM_005254082		Approved	FLJ14624, FLJ22153	uc001vot.3	Q5T4D3	OTTHUMG00000017289	ENST00000376234.3:c.1417A>C	13.37:g.101287091T>G	ENSP00000365408:p.Ser473Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLI7|B7Z666|Q5T4D4|Q5T4D5|Q5T4D6|Q8WV63|Q96SU8	Missense_Mutation	SNP	ENST00000376234.3	37	CCDS41904.1	.	.	.	.	.	.	.	.	.	.	T	23.5	4.428259	0.83667	.	.	ENSG00000125247	ENST00000376234;ENST00000342624;ENST00000328767	T;T;T	0.52526	0.66;0.66;0.66	5.55	5.55	0.83447	Tetratricopeptide-like helical (1);Tetratricopeptide repeat-containing (1);	0.000000	0.85682	D	0.000000	T	0.75406	0.3845	M	0.91663	3.23	0.80722	D	1	D;D;D;P	0.89917	1.0;0.999;1.0;0.737	D;D;D;P	0.97110	0.997;0.994;1.0;0.565	T	0.81901	-0.0720	10	0.87932	D	0	.	15.7439	0.77922	0.0:0.0:0.0:1.0	.	362;473;473;492	B7Z666;Q5T4D3-2;Q5T4D3;Q5T4D3-3	.;.;TMTC4_HUMAN;.	R	473;492;362	ENSP00000365408:S473R;ENSP00000343871:S492R;ENSP00000365409:S362R	ENSP00000365409:S362R	S	-	1	0	TMTC4	100085092	1.000000	0.71417	0.954000	0.39281	0.652000	0.38707	7.590000	0.82653	2.134000	0.65973	0.456000	0.33151	AGT		0.493	TMTC4-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045649.2	NM_032813		G	101287091	T	G	101287091	3	3	619	1	0	0	0	0	1	0	0	0	16275	1609	56	5	840	5	TMTC4	13	101287091	Missense_Mutation	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10	24891612	101287091	13882787	68	37966										
FBXO34	55030	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	55817793	55817793	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tagctagctgttcaaaaaacTgcacaaactcacctgcaatt	5	11	2	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr14:55817793T>A	ENST00000313833.4	+	2	930	c.685T>A	c.(685-687)Tgc>Agc	p.C229S	FBXO34_ENST00000440021.1_Missense_Mutation_p.C229S	NM_017943.3	NP_060413.2	Q9NWN3	FBX34_HUMAN	F-box protein 34	229										breast(2)|kidney(2)|large_intestine(4)|lung(5)|ovary(3)|pancreas(1)|skin(2)|stomach(3)	22						TTCAAAAAACTGCACAAACTC	0.512																																																0													83	76	79					14																	55817793		2203	4300	6503	SO:0001583	missense	55030			AK000732	CCDS32086.1	14q22.1	2004-08-24	2004-06-15			ENSG00000178974		"F-boxes /  "other""	20201	protein-coding gene	gene with protein product		609104	"F-box only protein 34"				Standard	NM_017943		Approved	FLJ20725, Fbx34	uc010aoo.3	Q9NWN3		ENST00000313833.4:c.685T>A	14.37:g.55817793T>A	ENSP00000313159:p.Cys229Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q2VPB5|Q4VBP5|Q86TY4	Missense_Mutation	SNP	ENST00000313833.4	37	CCDS32086.1	.	.	.	.	.	.	.	.	.	.	T	6.831	0.522583	0.13066	.	.	ENSG00000178974	ENST00000313833;ENST00000440021	T;T	0.46819	0.86;0.86	5.08	5.08	0.68730	.	0.167805	0.40818	N	0.001006	T	0.45836	0.1362	M	0.63428	1.95	0.47511	D	0.999442	B	0.12630	0.006	B	0.17722	0.019	T	0.37430	-0.9706	10	0.21014	T	0.42	-14.1611	15.0107	0.71547	0.0:0.0:0.0:1.0	.	229	Q9NWN3	FBX34_HUMAN	S	229	ENSP00000313159:C229S;ENSP00000394117:C229S	ENSP00000313159:C229S	C	+	1	0	FBXO34	54887546	1.000000	0.71417	0.967000	0.41034	0.171000	0.22731	4.380000	0.59581	2.136000	0.66102	0.528000	0.53228	TGC		0.512	FBXO34-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411322.1			A	55817793	T	A	55817793	3	1	619	1	0	0	0	0	1	0	0	0	5751	1580	55	5	687	5	FBXO34	14	55817793	Missense_Mutation	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10		55817793	51531747	69	37967										
ACOT4	122970	broad.mit.edu	37	chr14	74060593	74060593	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gaagaagccgtatgctacatGcttcaacatccccaggttct	8	12	2	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr14:74060593G>T	ENST00000326303.4	+	2	899	c.645G>T	c.(643-645)atG>atT	p.M215I		NM_152331.3	NP_689544.3	Q8N9L9	ACOT4_HUMAN	acyl-CoA thioesterase 4	215					acyl-CoA metabolic process (GO:0006637)|dicarboxylic acid catabolic process (GO:0043649)|dicarboxylic acid metabolic process (GO:0043648)|long-chain fatty acid metabolic process (GO:0001676)|saturated monocarboxylic acid metabolic process (GO:0032788)|short-chain fatty acid metabolic process (GO:0046459)|succinyl-CoA metabolic process (GO:0006104)|unsaturated monocarboxylic acid metabolic process (GO:0032789)|very long-chain fatty acid metabolic process (GO:0000038)	peroxisome (GO:0005777)	acyl-CoA hydrolase activity (GO:0047617)|carboxylic ester hydrolase activity (GO:0052689)|palmitoyl-CoA hydrolase activity (GO:0016290)|receptor binding (GO:0005102)|succinyl-CoA hydrolase activity (GO:0004778)			endometrium(1)|large_intestine(3)|lung(4)	8				BRCA - Breast invasive adenocarcinoma(234;0.00331)		TATGCTACATGCTTCAACATC	0.423																																																0													150	147	148					14																	74060593		2203	4300	6503	SO:0001583	missense	122970			BC031799	CCDS9817.1	14q24.1	2011-02-16			ENSG00000177465	ENSG00000177465		"Acyl CoA thioesterases"	19748	protein-coding gene	gene with protein product		614314				16103133, 16940157	Standard	NM_152331		Approved	FLJ31235, PTE-Ib, PTE2B	uc001xoo.3	Q8N9L9	OTTHUMG00000169485	ENST00000326303.4:c.645G>T	14.37:g.74060593G>T	ENSP00000323071:p.Met215Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RF4|Q5BKT6|Q86TX0|Q86TX1|Q96N88	Missense_Mutation	SNP	ENST00000326303.4	37	CCDS9817.1	.	.	.	.	.	.	.	.	.	.	G	16.92	3.254564	0.59212	.	.	ENSG00000177465	ENST00000326303	T	0.28069	1.63	5.39	4.47	0.54385	BAAT/Acyl-CoA thioester hydrolase C-terminal (1);	0.301034	0.37437	N	0.002098	T	0.37705	0.1013	M	0.65975	2.015	0.47183	D	0.999347	P	0.41313	0.745	B	0.42555	0.391	T	0.34551	-0.9824	10	0.72032	D	0.01	-12.828	13.8627	0.63571	0.0:0.153:0.847:0.0	.	215	Q8N9L9	ACOT4_HUMAN	I	215	ENSP00000323071:M215I	ENSP00000323071:M215I	M	+	3	0	ACOT4	73130346	0.997000	0.39634	0.990000	0.47175	0.742000	0.42306	2.664000	0.46783	1.215000	0.43411	0.561000	0.74099	ATG		0.423	ACOT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404298.2	NM_152331		T	74060593	G	T	74060593	3	4	619	1	0	0	0	0	1	0	0	0	153	1319	46	4	651	4	ACOT4	14	74060593	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	18242800	74060593	33288947	70	37968										
KIAA1409	57578	broad.mit.edu	37	chr14	94088804	94088804	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ctcctgcggtagcccactgaCgctgaagcaaaaacgagacc	10	14	0	3			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr14:94088804C>T	ENST00000393151.2	+	30	5225	c.5225C>T	c.(5224-5226)aCg>aTg	p.T1742M	UNC79_ENST00000555664.1_Missense_Mutation_p.T1742M|UNC79_ENST00000256339.4_Missense_Mutation_p.T1565M|UNC79_ENST00000553484.1_Missense_Mutation_p.T1764M			Q9P2D8	UNC79_HUMAN	unc-79 homolog (C. elegans)	1742					behavioral response to ethanol (GO:0048149)|ion transmembrane transport (GO:0034220)|multicellular organism growth (GO:0035264)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(3)|cervix(2)|endometrium(10)|kidney(7)|large_intestine(18)|liver(1)|lung(64)|ovary(1)|prostate(5)|skin(3)|urinary_tract(4)	118						AGCCCACTGACGCTGAAGCAA	0.582																																																0													67	71	70					14																	94088804		2203	4300	6503	SO:0001583	missense	57578			AB037830	CCDS9911.2	14q32.13	2011-08-18	2011-08-18	2011-08-18	ENSG00000133958	ENSG00000133958			19966	protein-coding gene	gene with protein product			"KIAA1409"	KIAA1409		20714347, 21040849	Standard	NM_020818		Approved		uc001ybs.1	Q9P2D8	OTTHUMG00000029783	ENST00000393151.2:c.5225C>T	14.37:g.94088804C>T	ENSP00000376858:p.Thr1742Met	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDL6|Q6ZUT7	Missense_Mutation	SNP	ENST00000393151.2	37		.	.	.	.	.	.	.	.	.	.	C	15.99	2.995180	0.54147	.	.	ENSG00000133958	ENST00000256339;ENST00000555664;ENST00000553484;ENST00000393151;ENST00000393153	T;T;T;T	0.27104	1.75;1.69;1.76;1.75	5.2	5.2	0.72013	.	0.000000	0.85682	D	0.000000	T	0.43100	0.1232	L	0.32530	0.975	0.52501	D	0.999953	D	0.89917	1.0	D	0.87578	0.998	T	0.39683	-0.9602	10	0.87932	D	0	-15.2232	18.72	0.91689	0.0:1.0:0.0:0.0	.	1764	C9JQL1	.	M	1565;1742;1764;1742;1764	ENSP00000256339:T1565M;ENSP00000450868:T1742M;ENSP00000451360:T1764M;ENSP00000376858:T1742M	ENSP00000256339:T1565M	T	+	2	0	KIAA1409	93158557	1.000000	0.71417	0.553000	0.28255	0.624000	0.37722	7.294000	0.78760	2.433000	0.82419	0.305000	0.20034	ACG		0.582	UNC79-006	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000412766.1	XM_028395		T	94088804	C	T	94088804	3	4	619	1	0	0	0	0	1	0	0	0	8237	536	19	1	4800	1	KIAA1409	14	94088804	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	20028211	94088804	13260736	71	37969										
SPTBN5	51332	broad.mit.edu	37	chr15	42143073	42143073	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tgcagtgctgcccagggctcGccaccagctctcagcctgct	11	17	1	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr15:42143073G>A	ENST00000320955.6	-	66	11127	c.10900C>T	c.(10900-10902)Cga>Tga	p.R3634*	RNA5SP393_ENST00000363423.1_RNA	NM_016642.2	NP_057726.4	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	3634	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				actin cytoskeleton organization (GO:0030036)|actin filament capping (GO:0051693)|axon guidance (GO:0007411)|Golgi organization (GO:0007030)|lysosomal transport (GO:0007041)|protein homooligomerization (GO:0051260)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|photoreceptor connecting cilium (GO:0032391)|photoreceptor disc membrane (GO:0097381)|spectrin (GO:0008091)	actin binding (GO:0003779)|dynactin binding (GO:0034452)|dynein intermediate chain binding (GO:0045505)|kinesin binding (GO:0019894)|myosin tail binding (GO:0032029)|protein self-association (GO:0043621)|spectrin binding (GO:0030507)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(6)|lung(18)|ovary(5)|prostate(8)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	62		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		CCCAGGGCTCGCCACCAGCTC	0.647																																																0													19	24	22					15																	42143073		2149	4252	6401	SO:0001587	stop_gained	51332			AF233523	CCDS61599.1	15q21	2010-08-17			ENSG00000137877	ENSG00000137877			15680	protein-coding gene	gene with protein product	"beta V spectrin"	605916				10764729	Standard	NM_016642		Approved	HUSPECV, BSPECV, HUBSPECV	uc001zos.4	Q9NRC6		ENST00000320955.6:c.10900C>T	15.37:g.42143073G>A	ENSP00000317790:p.Arg3634*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000320955.6	37		.	.	.	.	.	.	.	.	.	.	.	52	18.710897	0.99909	.	.	ENSG00000137877	ENST00000320955	.	.	.	3.79	1.91	0.25777	.	1.938660	0.03085	N	0.158980	.	.	.	.	.	.	0.44055	A	0.996793	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	7.1913	0.25826	0.0981:0.1862:0.7158:0.0	.	.	.	.	X	3634	.	ENSP00000317790:R3634X	R	-	1	2	SPTBN5	39930365	0.000000	0.05858	0.000000	0.03702	0.050000	0.14768	0.503000	0.22610	0.582000	0.29556	-0.119000	0.15052	CGA		0.647	SPTBN5-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000420237.1	NM_016642		A	42143073	G	A	42143073	4	1	619	1	0	0	0	0	0	1	0	0	15134	1095	38	1	136	1	SPTBN5	15	42143073	Nonsense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10		42143073	60388319	72	37970										
MEGF11	84465	broad.mit.edu	37	chr15	66250030	66250030	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gaccagaccagcctggctggCaggtacaagctccagttact	11	13	0	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr15:66250030C>T	ENST00000409699.2	-	10	1314	c.1142G>A	c.(1141-1143)tGc>tAc	p.C381Y	MEGF11_ENST00000288745.3_Missense_Mutation_p.C306Y|MEGF11_ENST00000422354.1_Missense_Mutation_p.C381Y|MEGF11_ENST00000395614.1_5'UTR|MEGF11_ENST00000395625.2_Missense_Mutation_p.C306Y|MEGF11_ENST00000360698.4_Missense_Mutation_p.C381Y			A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11	381					homotypic cell-cell adhesion (GO:0034109)|retina layer formation (GO:0010842)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(4)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	19						GCCTGGCTGGCAGGTACAAGC	0.587																																																0													49	44	45					15																	66250030		2201	4298	6499	SO:0001583	missense	84465			AB058677	CCDS10213.2	15q22.31	2006-03-31			ENSG00000157890	ENSG00000157890			29635	protein-coding gene	gene with protein product		612454				11347906	Standard	NM_032445		Approved	KIAA1781, DKFZp434L121	uc002apm.2	A6BM72	OTTHUMG00000133175	ENST00000409699.2:c.1142G>A	15.37:g.66250030C>T	ENSP00000386908:p.Cys381Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q17R86|Q6UXS5|Q8ND91|Q96KG6	Missense_Mutation	SNP	ENST00000409699.2	37	CCDS10213.2	.	.	.	.	.	.	.	.	.	.	C	23.0	4.356687	0.82243	.	.	ENSG00000157890	ENST00000409699;ENST00000288745;ENST00000422354;ENST00000395625;ENST00000360698;ENST00000455812	D;D;D;D;D;D	0.94330	-3.4;-3.4;-3.4;-3.4;-3.4;-3.4	4.87	4.87	0.63330	EGF-like, laminin (3);EGF-like region, conserved site (2);	0.000000	0.46442	U	0.000299	D	0.98582	0.9526	H	0.99894	4.905	0.80722	D	1	D;D	0.89917	0.999;1.0	D;D	0.97110	0.992;1.0	D	0.99544	1.0964	10	0.87932	D	0	.	17.3629	0.87356	0.0:1.0:0.0:0.0	.	381;306	A6BM72;A6BM72-2	MEG11_HUMAN;.	Y	381;306;381;306;381;85	ENSP00000386908:C381Y;ENSP00000288745:C306Y;ENSP00000414475:C381Y;ENSP00000378987:C306Y;ENSP00000353919:C381Y;ENSP00000401400:C85Y	ENSP00000288745:C306Y	C	-	2	0	MEGF11	64037084	1.000000	0.71417	1.000000	0.80357	0.930000	0.56654	7.684000	0.84104	2.420000	0.82092	0.561000	0.74099	TGC		0.587	MEGF11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329307.2	NM_032445		T	66250030	C	T	66250030	3	4	619	1	0	0	0	0	1	0	0	0	9468	710	25	2	2048	2	MEGF11	15	66250030	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	24106957	66250030	36281362	73	37971										
WDR90	197335	broad.mit.edu	37	chr16	707223	707223	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	catgtcctccgagtggcaggTtgggccccctgcagccactc	12	16	0	0	rs78538490		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr16:707223T>G	ENST00000293879.4	+	20	2473		c.e20+2		LA16c-349E10.1_ENST00000573609.1_RNA|WDR90_ENST00000549091.1_Splice_Site			Q96KV7	WDR90_HUMAN	WD repeat domain 90											endometrium(4)|kidney(3)|large_intestine(2)|lung(22)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	37		Hepatocellular(780;0.0218)				GAGTGGCAGGTTGGGCCCCCT	0.692																																																0													4	5	5					16																	707223		1769	3825	5594	SO:0001630	splice_region_variant	197335			AB067511	CCDS42092.1	16p13.3	2013-01-09			ENSG00000161996	ENSG00000161996		"WD repeat domain containing"	26960	protein-coding gene	gene with protein product			"chromosome 16 open reading frame 17", "chromosome 16 open reading frame 15", "chromosome 16 open reading frame 16", "chromosome 16 open reading frame 19", "chromosome 16 open reading frame 18"	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18		11572484, 11157797	Standard	XM_005255160		Approved	FLJ36483, KIAA1924	uc002cii.1	Q96KV7	OTTHUMG00000048040	ENST00000293879.4:c.2473+2T>G	16.37:g.707223T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q0VA87|Q0VA88|Q6P048|Q6ZMS1|Q6ZTH1|Q8N202|Q8N221|Q8NBB8|Q96PW4|Q96S18	Splice_Site	SNP	ENST00000293879.4	37	CCDS42092.1	.	.	.	.	.	.	.	.	.	.	T	14.78	2.637594	0.47049	.	.	ENSG00000161996	ENST00000549091;ENST00000293879	.	.	.	4.41	4.41	0.53225	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.127	0.59360	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	WDR90	647224	0.999000	0.42202	0.986000	0.45419	0.177000	0.22998	3.227000	0.51262	1.761000	0.52028	0.402000	0.26972	.		0.692	WDR90-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000404335.1	NM_145294	Intron	G	707223	T	G	707223	5	3	619	1	0	0	0	0	0	0	1	0	17349	1739	60	5	2553	5	WDR90	16	707223	Splice_Site	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10		707223	89647530	74	37972										
APOB48R	55911	hgsc.bcm.edu	37	chr16	28507452	28507452	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cctcaggaggggaggaggccGggacagcctcaggaggggac	20	10	2	0	rs370148393		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr16:28507452G>T	ENST00000431282.1	+	3	1073	c.1063G>T	c.(1063-1065)Ggg>Tgg	p.G355W	CLN3_ENST00000567160.1_5'Flank|APOBR_ENST00000564831.1_Missense_Mutation_p.G364W|CLN3_ENST00000569430.1_5'Flank|APOBR_ENST00000328423.5_Missense_Mutation_p.G355W			Q0VD83	APOBR_HUMAN	apolipoprotein B receptor	355	Glu-rich.				cholesterol metabolic process (GO:0008203)|lipid transport (GO:0006869)|triglyceride metabolic process (GO:0006641)	chylomicron (GO:0042627)|low-density lipoprotein particle (GO:0034362)|membrane (GO:0016020)|plasma membrane (GO:0005886)|very-low-density lipoprotein particle (GO:0034361)	very-low-density lipoprotein particle receptor activity (GO:0030229)			breast(1)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(11)|prostate(1)|skin(2)|stomach(1)	29						GGAGGAGGCCGGGACAGCCTC	0.672																																																0													14	17	16					16																	28507452		1944	4097	6041	SO:0001583	missense	55911			AK025123	CCDS58442.1	16p11.2	2011-02-14			ENSG00000184730	ENSG00000184730			24087	protein-coding gene	gene with protein product	"apolipoprotein B48 receptor", "apolipoprotein B100 receptor"	605220				10852956	Standard	NM_018690		Approved	APOB48R, APOB100R	uc002dqb.2	Q0VD83		ENST00000431282.1:c.1063G>T	16.37:g.28507452G>T	ENSP00000416094:p.Gly355Trp	Somatic		WXS	Illumina HiSeq	Phase_I	H3BU97|Q0VD81|Q8NC15|Q9NPJ9	Missense_Mutation	SNP	ENST00000431282.1	37		.	.	.	.	.	.	.	.	.	.	G	11.71	1.718826	0.30503	.	.	ENSG00000184730	ENST00000328423;ENST00000431282	T;T	0.60548	0.18;0.18	3.86	-2.49	0.06403	.	.	.	.	.	T	0.33059	0.0850	N	0.19112	0.55	0.09310	N	1	B	0.33777	0.425	B	0.27715	0.082	T	0.13980	-1.0489	9	0.72032	D	0.01	.	3.7884	0.08710	0.5999:0.0:0.2159:0.1841	.	355	Q9NS13	.	W	355	ENSP00000327669:G355W;ENSP00000416094:G355W	ENSP00000327669:G355W	G	+	1	0	APOBR	28414953	0.000000	0.05858	0.000000	0.03702	0.009000	0.06853	-0.825000	0.04433	-0.783000	0.04534	-0.487000	0.04747	GGG		0.672	APOBR-202	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_182804		T	28507452	G	T	28507452	3	4	619	1	0	0	0	0	1	0	0	0	786	1116	39	4	1073	4	APOB48R	16	28507452	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	27800229	28507452	61847301	75	37973										
ZNF689	115509	broad.mit.edu	37	chr16	30616114	30616114	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ggcgagaggaggaggagaagCgccgctcgcagtccgggcac	19	11	0	2	rs374687630		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr16:30616114C>T	ENST00000287461.3	-	3	1311	c.974G>A	c.(973-975)cGc>cAc	p.R325H	RP11-146F11.5_ENST00000563540.1_RNA|ZNF689_ENST00000566673.1_5'UTR	NM_138447.1	NP_612456.1	Q96CS4	ZN689_HUMAN	zinc finger protein 689	325					regulation of transcription, DNA-templated (GO:0006355)|skeletal muscle cell differentiation (GO:0035914)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(4)|prostate(1)|urinary_tract(1)	14			Colorectal(24;0.198)			GGAGGAGAAGCGCCGCTCGCA	0.697																																																0								C	HIS/ARG	1,4393	2.1+/-5.4	0,1,2196	37	31	33		974	5.2	1	16		33	0,8600		0,0,4300	no	missense	ZNF689	NM_138447.1	29	0,1,6496	TT,TC,CC		0.0,0.0228,0.0077	probably-damaging	325/501	30616114	1,12993	2197	4300	6497	SO:0001583	missense	115509			BC014000	CCDS10686.1	16p11.2	2013-01-08			ENSG00000156853	ENSG00000156853		"Zinc fingers, C2H2-type", "-"	25173	protein-coding gene	gene with protein product							Standard	NM_138447		Approved	FLJ90415	uc031qvq.1	Q96CS4	OTTHUMG00000132415	ENST00000287461.3:c.974G>A	16.37:g.30616114C>T	ENSP00000287461:p.Arg325His	Somatic		WXS	Illumina HiSeq	Phase_I	Q658J5	Missense_Mutation	SNP	ENST00000287461.3	37	CCDS10686.1	.	.	.	.	.	.	.	.	.	.	c	18.99	3.740643	0.69304	2.28E-4	0.0	ENSG00000156853	ENST00000287461;ENST00000443190	T	0.53640	0.61	5.18	5.18	0.71444	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.49916	D	0.000133	T	0.61286	0.2335	L	0.43757	1.38	0.34736	D	0.730231	D	0.89917	1.0	D	0.71414	0.973	T	0.69691	-0.5077	10	0.72032	D	0.01	-21.8329	16.5866	0.84728	0.0:1.0:0.0:0.0	.	325	Q96CS4	ZN689_HUMAN	H	325	ENSP00000287461:R325H	ENSP00000287461:R325H	R	-	2	0	ZNF689	30523615	0.001000	0.12720	0.977000	0.42913	0.544000	0.35116	1.554000	0.36266	2.868000	0.98415	0.555000	0.69702	CGC		0.697	ZNF689-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255552.1	NM_138447		T	30616114	C	T	30616114	3	4	619	1	0	0	0	0	1	0	0	0	18106	768	27	1	532	1	ZNF689	16	30616114	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	2108662	30616114	59738639	76	37974										
CNOT1	23019	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	58592566	58592570	+	Frame_Shift_Del	DEL	CAAGA	CAAGA	-													0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	actaagagatgtcattccagCaagagggtcaatctaaagaa							TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	CAAGA	CAAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr16:58592566_58592570delCAAGA	ENST00000317147.5	-	18	2471_2475	c.2139_2143delTCTTG	c.(2137-2145)cctcttgctfs	p.LA714fs	CNOT1_ENST00000569732.1_5'Flank|SNORA50_ENST00000384225.2_RNA|CNOT1_ENST00000569240.1_Frame_Shift_Del_p.LA714fs|CNOT1_ENST00000441024.2_Frame_Shift_Del_p.LA714fs	NM_001265612.1|NM_016284.4	NP_001252541.1|NP_057368.3	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	714					gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|negative regulation of intracellular estrogen receptor signaling pathway (GO:0033147)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of cytoplasmic mRNA processing body assembly (GO:0010606)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|regulation of stem cell maintenance (GO:2000036)|regulation of translation (GO:0006417)|RNA metabolic process (GO:0016070)|RNA phosphodiester bond hydrolysis, exonucleolytic (GO:0090503)|transcription, DNA-templated (GO:0006351)|trophectodermal cell differentiation (GO:0001829)	CCR4-NOT complex (GO:0030014)|cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|extracellular space (GO:0005615)|membrane (GO:0016020)|nucleus (GO:0005634)|peroxisomal membrane (GO:0005778)	estrogen receptor binding (GO:0030331)|poly(A) RNA binding (GO:0044822)|retinoic acid receptor binding (GO:0042974)			breast(1)|central_nervous_system(2)|endometrium(9)|haematopoietic_and_lymphoid_tissue(4)|kidney(7)|large_intestine(24)|lung(25)|ovary(4)|prostate(6)|skin(3)|upper_aerodigestive_tract(2)	87				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		GTCATTCCAGCAAGAGGGTCAATCT	0.4																																																0																																										SO:0001589	frameshift_variant	23019			AL833549	CCDS10799.1, CCDS45501.1, CCDS58468.1	16q21	2008-02-05			ENSG00000125107	ENSG00000125107			7877	protein-coding gene	gene with protein product		604917		NOT1		14702039	Standard	NM_016284		Approved	CDC39, NOT1H, KIAA1007, AD-005	uc002env.4	A5YKK6	OTTHUMG00000133487	ENST00000317147.5:c.2139_2143delTCTTG	16.37:g.58592566_58592570delCAAGA	ENSP00000320949:p.Leu714fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DX7|Q7Z3K2|Q8IWB8|Q8TB53|Q9BVZ6|Q9UFR8|Q9UI27|Q9Y2L0	Frame_Shift_Del	DEL	ENST00000317147.5	37	CCDS10799.1																																																																																				0.4	CNOT1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257385.3	NM_016284		-	58592570	CAAGA	-	58592566	7	5	619	1	0	1	0	1	0	0	0	0	3619	710	25	0	5337	0	CNOT1	16	58592566	Frame_Shift_Del	DEL	CAAGA	TCGA-IZ-A6M9-01A-11D-A31X-10	27976452	58592566	31762187	77	37975										
EDC4	23644	broad.mit.edu;bcgsc.ca	37	chr16	67913803	67913803	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ggtagcagcagcagcagcagCagtagcagcagctcccttac	12	13	0	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr16:67913803C>T	ENST00000358933.5	+	16	2111	c.1872C>T	c.(1870-1872)agC>agT	p.S624S	CTC-479C5.10_ENST00000572067.1_lincRNA|AC040162.1_ENST00000408599.1_RNA	NM_014329.4	NP_055144.3	Q6P2E9	EDC4_HUMAN	enhancer of mRNA decapping 4	624	Ser-rich.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay (GO:0043928)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|RNA metabolic process (GO:0016070)	cytoplasm (GO:0005737)|cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)				breast(3)|central_nervous_system(2)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(4)|lung(8)|ovary(4)|skin(2)|upper_aerodigestive_tract(4)|urinary_tract(2)	41		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		gcagcagcagcagtagcagca	0.602																																																0													36	33	34					16																	67913803		2193	4282	6475	SO:0001819	synonymous_variant	23644			U17474	CCDS10849.1	16q22.1	2008-02-05			ENSG00000038358	ENSG00000038358			17157	protein-coding gene	gene with protein product		606030				9067524	Standard	NM_014329		Approved	RCD-8, Ge-1, HEDLS	uc002eur.3	Q6P2E9	OTTHUMG00000137543	ENST00000358933.5:c.1872C>T	16.37:g.67913803C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NGM1|A8K4T4|Q13025|Q13826|Q6ZR12|Q7Z6H7	Silent	SNP	ENST00000358933.5	37	CCDS10849.1																																																																																				0.602	EDC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268874.2	NM_014329		T	67913803	C	T	67913803	2	4	619	1	0	0	0	0	0	0	0	1	4910	709	25	2		2	EDC4	16	67913803	Silent	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	9321237	67913803	22440950	78	37976										
PDPR	55066	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	70163023	70163023	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ggcaagtgctgcctcccaaaAtggtgagcaggtttttgcat	12	9	0	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr16:70163023A>T	ENST00000288050.4	+	6	1562	c.605A>T	c.(604-606)aAt>aTt	p.N202I	PDPR_ENST00000568530.1_Missense_Mutation_p.N202I|PDPR_ENST00000398122.3_Missense_Mutation_p.N102I	NM_017990.3	NP_060460.4	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory subunit	202					cellular metabolic process (GO:0044237)|glycine catabolic process (GO:0006546)|pyruvate metabolic process (GO:0006090)|regulation of acetyl-CoA biosynthetic process from pyruvate (GO:0010510)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|mitochondrial matrix (GO:0005759)	aminomethyltransferase activity (GO:0004047)|oxidoreductase activity (GO:0016491)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(2)|large_intestine(3)|lung(17)|skin(2)|stomach(3)	33				BRCA - Breast invasive adenocarcinoma(221;0.124)		GCCTCCCAAAATGGTGAGCAG	0.512																																																0													111	104	106					16																	70163023		1953	4159	6112	SO:0001583	missense	55066				CCDS45520.1	16q22.1	2010-08-24			ENSG00000090857	ENSG00000090857			30264	protein-coding gene	gene with protein product						9395502	Standard	NM_017990		Approved	PDP3	uc002eyf.1	Q8NCN5		ENST00000288050.4:c.605A>T	16.37:g.70163023A>T	ENSP00000288050:p.Asn202Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A7E298|A8K8Y7|B3KSE1|Q6AI20|Q6AWC9	Missense_Mutation	SNP	ENST00000288050.4	37	CCDS45520.1	.	.	.	.	.	.	.	.	.	.	A	13.30	2.196035	0.38806	.	.	ENSG00000090857	ENST00000288050;ENST00000398122	D;D	0.82167	-1.58;-1.58	4.5	3.4	0.38934	FAD dependent oxidoreductase (1);	0.236187	0.40385	N	0.001112	T	0.77765	0.4179	L	0.55213	1.73	0.80722	D	1	B	0.23806	0.091	B	0.28784	0.094	T	0.69224	-0.5201	10	0.31617	T	0.26	.	9.0915	0.36614	0.9111:0.0:0.0889:0.0	.	202	Q8NCN5	PDPR_HUMAN	I	202;102	ENSP00000288050:N202I;ENSP00000381190:N102I	ENSP00000288050:N202I	N	+	2	0	PDPR	68720524	1.000000	0.71417	0.967000	0.41034	0.965000	0.64279	5.368000	0.66133	0.581000	0.29539	0.455000	0.32223	AAT		0.512	PDPR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000434502.1	NM_017990		T	70163023	A	T	70163023	3	4	619	1	0	0	0	0	1	0	0	0	11696	101	4	5	619	5	PDPR	16	70163023	Missense_Mutation	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10	2249220	70163023	20191730	79	37977										
KARS	3735	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr16	75678300	75678300	+	Intron	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ttgcgcagggaccccctaacAagccttacagcagcttgcgt	10	14	0	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr16:75678300A>T	ENST00000302445.3	-	2	102				KARS_ENST00000319410.5_Silent_p.L9L|KARS_ENST00000568378.1_Silent_p.L9L	NM_005548.2	NP_005539.1	Q15046	SYK_HUMAN	lysyl-tRNA synthetase						cell death (GO:0008219)|diadenosine tetraphosphate biosynthetic process (GO:0015966)|gene expression (GO:0010467)|lysyl-tRNA aminoacylation (GO:0006430)|tRNA aminoacylation for protein translation (GO:0006418)|tRNA processing (GO:0008033)|viral process (GO:0016032)	aminoacyl-tRNA synthetase multienzyme complex (GO:0017101)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|microtubule cytoskeleton (GO:0015630)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	amino acid binding (GO:0016597)|ATP binding (GO:0005524)|lysine-tRNA ligase activity (GO:0004824)|metal ion binding (GO:0046872)|tRNA binding (GO:0000049)			kidney(1)|large_intestine(3)|lung(8)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)	18					L-Lysine(DB00123)	ACCCCCTAACAAGCCTTACAG	0.552																																																0													50	47	48					16																	75678300		1568	3582	5150	SO:0001627	intron_variant	3735			AF285758	CCDS10923.1, CCDS45532.1	16q23.1	2014-09-17			ENSG00000065427	ENSG00000065427	6.1.1.6	"Aminoacyl tRNA synthetases / Class II"	6215	protein-coding gene	gene with protein product	"lysine tRNA ligase"	601421	"deafness, autosomal recessive 89"	DFNB89		8812440, 9278442, 23768514	Standard	NM_005548		Approved	KARS2, KARS1	uc002fer.3	Q15046	OTTHUMG00000137609	ENST00000302445.3:c.63-2679T>A	16.37:g.75678300A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MSK1|D3DUK4|O14946|Q96J25|Q9HB23	Silent	SNP	ENST00000302445.3	37	CCDS10923.1																																																																																				0.552	KARS-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000269023.1	NM_005548		T	75678300	A	T	75678300	1	4	619	0	1	0	0	0	0	0	0	0	7987	117	5	5		5	KARS	16	75678300	Intron	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10	5515277	75678300	14676453	80	37978										
ANKRD11	29123	broad.mit.edu	37	chr16	89345819	89345819	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ggatgctgggcctgggcgtcGtcgtcctcggagccgcgggc	19	13	0	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr16:89345819G>A	ENST00000301030.4	-	9	7591	c.7131C>T	c.(7129-7131)gaC>gaT	p.D2377D	ANKRD11_ENST00000378330.2_Silent_p.D2377D	NM_001256183.1|NM_013275.5	NP_001243112.1|NP_037407.4	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	2377					bone development (GO:0060348)|face morphogenesis (GO:0060325)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|odontogenesis of dentin-containing tooth (GO:0042475)|skeletal system morphogenesis (GO:0048705)|tissue homeostasis (GO:0001894)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)		p.D2377D(1)		breast(4)|central_nervous_system(3)|endometrium(17)|kidney(2)|large_intestine(18)|lung(20)|ovary(6)|pancreas(1)|prostate(2)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	83		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		CCTGGGCGTCGTCGTCCTCGG	0.716																																																1	Substitution - coding silent(1)	large_intestine(1)											2	2	2					16																	89345819		1332	2736	4068	SO:0001819	synonymous_variant	29123			AY373756	CCDS32513.1	16q24.3	2013-01-10				ENSG00000167522		"Ankyrin repeat domain containing"	21316	protein-coding gene	gene with protein product		611192				11483580	Standard	NM_001256182		Approved	LZ16, T13	uc002fnc.2	Q6UB99		ENST00000301030.4:c.7131C>T	16.37:g.89345819G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6NTG1|Q6QMF8	Silent	SNP	ENST00000301030.4	37	CCDS32513.1																																																																																				0.716	ANKRD11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000430462.3	NM_013275		A	89345819	G	A	89345819	2	1	619	1	0	0	0	0	0	0	0	1	639	1136	40	1		1	ANKRD11	16	89345819	Silent	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	13667519	89345819	1008934	81	37979										
TSR1	55720	broad.mit.edu	37	chr17	2237906	2237906	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cctattgacattcagagtctGccctcgaacatagcctgaaa	7	12	2	3			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr17:2237906G>T	ENST00000301364.5	-	5	1920	c.841C>A	c.(841-843)Cag>Aag	p.Q281K	TSR1_ENST00000576112.2_Missense_Mutation_p.Q265K|SGSM2_ENST00000426855.2_5'Flank|SGSM2_ENST00000268989.3_5'Flank	NM_018128.4	NP_060598.3	Q2NL82	TSR1_HUMAN	TSR1, 20S rRNA accumulation, homolog (S. cerevisiae)	281					ribosome assembly (GO:0042255)	nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)			autonomic_ganglia(1)|breast(2)|endometrium(1)|kidney(2)|large_intestine(7)|lung(4)|ovary(1)|prostate(1)|urinary_tract(1)	20						TTCAGAGTCTGCCCTCGAACA	0.458																																																0													126	125	125					17																	2237906		2203	4300	6503	SO:0001583	missense	55720			AK026565	CCDS32525.1	17p13.3	2006-04-20	2006-04-20			ENSG00000167721			25542	protein-coding gene	gene with protein product		611214	"TSR1, 20S rRNA accumulation, homolog (yeast)"			10718198	Standard	NM_018128		Approved	FLJ10534	uc002fuj.3	Q2NL82		ENST00000301364.5:c.841C>A	17.37:g.2237906G>T	ENSP00000301364:p.Gln281Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WUY5|Q9NVT0|Q9P2E6	Missense_Mutation	SNP	ENST00000301364.5	37	CCDS32525.1	.	.	.	.	.	.	.	.	.	.	G	12.73	2.026899	0.35797	.	.	ENSG00000167721	ENST00000301364	T	0.40225	1.04	5.4	4.4	0.53042	AARP2CN (2);	0.317953	0.36374	N	0.002639	T	0.27731	0.0682	L	0.27053	0.805	0.38853	D	0.956327	B	0.13594	0.008	B	0.19666	0.026	T	0.11299	-1.0593	10	0.05525	T	0.97	-1.3011	14.1036	0.65072	0.0:0.0:0.8438:0.1562	.	281	Q2NL82	TSR1_HUMAN	K	281	ENSP00000301364:Q281K	ENSP00000301364:Q281K	Q	-	1	0	TSR1	2184656	0.996000	0.38824	0.778000	0.31720	0.919000	0.55068	4.100000	0.57762	1.207000	0.43291	0.655000	0.94253	CAG		0.458	TSR1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438180.2	NM_018128		T	2237906	G	T	2237906	3	4	619	1	0	0	0	0	1	0	0	0	16676	1328	46	4	1617	4	TSR1	17	2237906	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10		2237906	78957304	82	37980										
BCL6B	255877	broad.mit.edu	37	chr17	6927003	6927003	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	gtgtcgctatgggttcccccGccgccccggagggagcgctg	16	15	0	0	rs578215266		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr17:6927003G>T	ENST00000293805.5	+	2	105	c.13G>T	c.(13-15)Gcc>Tcc	p.A5S	BCL6B_ENST00000572216.1_3'UTR	NM_181844.3	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B	5					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			skin(1)	1						GGGTTCCCCCGCCGCCCCGGA	0.647																																																0													17	19	19					17																	6927003		1982	4123	6105	SO:0001583	missense	255877			AI672318	CCDS42248.1	17p13.1	2014-06-10	2010-04-14		ENSG00000161940	ENSG00000161940		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	1002	protein-coding gene	gene with protein product		608992	"zinc finger protein 62", "B-cell CLL/lymphoma 6, member B (zinc finger protein)"	ZNF62		9632807	Standard	NM_181844		Approved	ZBTB28, BAZF	uc010clt.1	Q8N143	OTTHUMG00000177882	ENST00000293805.5:c.13G>T	17.37:g.6927003G>T	ENSP00000293805:p.Ala5Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PCB4	Missense_Mutation	SNP	ENST00000293805.5	37	CCDS42248.1	.	.	.	.	.	.	.	.	.	.	G	29.6	5.016817	0.93404	.	.	ENSG00000161940	ENST00000293805	T	0.07567	3.18	5.78	3.81	0.43845	.	0.802457	0.11693	N	0.538677	T	0.09862	0.0242	L	0.46157	1.445	0.09310	N	1	B	0.23591	0.088	B	0.25506	0.061	T	0.25745	-1.0123	10	0.87932	D	0	.	8.4482	0.32856	0.1756:0.0:0.8244:0.0	.	5	Q8N143	BCL6B_HUMAN	S	5	ENSP00000293805:A5S	ENSP00000293805:A5S	A	+	1	0	BCL6B	6867727	0.119000	0.22226	0.002000	0.10522	0.548000	0.35241	2.746000	0.47467	0.803000	0.34113	0.655000	0.94253	GCC		0.647	BCL6B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000439455.2	NM_181844		T	6927003	G	T	6927003	3	4	619	1	0	0	0	0	1	0	0	0	1377	1087	38	4	15	4	BCL6B	17	6927003	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	4689097	6927003	74268207	83	37981										
PHF23	79142	broad.mit.edu	37	chr17	7139965	7139965	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cccttctcttggatgactttGctttcttaacaaaagtctgg	7	10	3	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr17:7139965G>T	ENST00000320316.3	-	4	507	c.281C>A	c.(280-282)gCa>gAa	p.A94E	DVL2_ENST00000005340.5_5'Flank|PHF23_ENST00000571362.1_Intron|PHF23_ENST00000454255.2_Missense_Mutation_p.A90E|PHF23_ENST00000576955.1_5'UTR|DVL2_ENST00000575458.1_5'Flank|PHF23_ENST00000570753.1_5'UTR	NM_001284518.1|NM_024297.2	NP_001271447.1|NP_077273.2	Q9BUL5	PHF23_HUMAN	PHD finger protein 23	94							zinc ion binding (GO:0008270)			breast(4)|kidney(2)|large_intestine(6)|lung(3)	15						GGATGACTTTGCTTTCTTAAC	0.587																																																0													100	110	106					17																	7139965		1945	4139	6084	SO:0001583	missense	79142			AK122791	CCDS42250.1, CCDS67143.1, CCDS67144.1	17p13.1	2014-08-13			ENSG00000040633	ENSG00000040633		"Zinc fingers, PHD-type"	28428	protein-coding gene	gene with protein product		612910					Standard	NM_024297		Approved	MGC2941, FLJ16355	uc002gfa.3	Q9BUL5	OTTHUMG00000177972	ENST00000320316.3:c.281C>A	17.37:g.7139965G>T	ENSP00000322579:p.Ala94Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A1DZ74|B3KVH8|B4DLK6|D3DTN4|Q8IZK0|Q96HG7|Q9H5X0	Missense_Mutation	SNP	ENST00000320316.3	37	CCDS42250.1	.	.	.	.	.	.	.	.	.	.	G	22.0	4.225605	0.79576	.	.	ENSG00000040633	ENST00000320316;ENST00000454255;ENST00000043410	T;T	0.35789	1.29;1.34	4.8	4.8	0.61643	.	0.000000	0.85682	D	0.000000	T	0.51041	0.1651	L	0.39898	1.24	0.58432	D	0.999998	D	0.89917	1.0	D	0.80764	0.994	T	0.52170	-0.8611	10	0.66056	D	0.02	-11.0369	15.399	0.74823	0.0:0.0:1.0:0.0	.	94	Q9BUL5	PHF23_HUMAN	E	94;90;94	ENSP00000322579:A94E;ENSP00000414607:A90E	ENSP00000043410:A94E	A	-	2	0	PHF23	7080689	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	7.954000	0.87848	2.488000	0.83962	0.557000	0.71058	GCA		0.587	PHF23-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440047.1	NM_024297		T	7139965	G	T	7139965	3	4	619	1	0	0	0	0	1	0	0	0	11842	1319	46	4	938	4	PHF23	17	7139965	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	212962	7139965	74055245	84	37982										
MYH4	4622	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	10358389	10358389	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cccagcaggccagctttgaaGaaaaccttatgaaagaacaa	8	10	0	4			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr17:10358389G>T	ENST00000255381.2	-	21	2414	c.2304C>A	c.(2302-2304)ttC>ttA	p.F768L	CTC-297N7.11_ENST00000587182.2_RNA|RP11-799N11.1_ENST00000399342.2_RNA|RP11-799N11.1_ENST00000581304.1_RNA	NM_017533.2	NP_060003.2	Q9Y623	MYH4_HUMAN	myosin, heavy chain 4, skeletal muscle	768	Actin-binding. {ECO:0000250}.|Myosin motor.				actin filament-based movement (GO:0030048)|ATP catabolic process (GO:0006200)|membrane organization (GO:0061024)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|response to activity (GO:0014823)	muscle myosin complex (GO:0005859)|myofibril (GO:0030016)|myosin filament (GO:0032982)|sarcomere (GO:0030017)	ATP binding (GO:0005524)|double-stranded RNA binding (GO:0003725)|microfilament motor activity (GO:0000146)			NS(4)|breast(8)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(13)|lung(72)|ovary(10)|prostate(7)|skin(9)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	149						CAGCTTTGAAGAAAACCTTAT	0.403																																																0													169	108	129					17																	10358389		2203	4300	6503	SO:0001583	missense	4622				CCDS11154.1	17p13.1	2013-09-19	2006-09-29		ENSG00000264424	ENSG00000264424		"Myosins / Myosin superfamily : Class II"	7574	protein-coding gene	gene with protein product		160742	"myosin, heavy polypeptide 4, skeletal muscle"			8518795	Standard	NM_017533		Approved	MYH2B, MyHC-2B, MyHC-IIb	uc002gmn.3	Q9Y623	OTTHUMG00000130365	ENST00000255381.2:c.2304C>A	17.37:g.10358389G>T	ENSP00000255381:p.Phe768Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000255381.2	37	CCDS11154.1	.	.	.	.	.	.	.	.	.	.	G	20.3	3.962237	0.74016	.	.	ENSG00000141048	ENST00000255381	D	0.94280	-3.39	5.04	5.04	0.67666	Myosin head, motor domain (2);	0.000000	0.39475	U	0.001344	D	0.97340	0.9130	H	0.96691	3.865	0.58432	D	0.999998	P	0.40794	0.729	P	0.51229	0.663	D	0.98383	1.0559	10	0.62326	D	0.03	.	18.7298	0.91731	0.0:0.0:1.0:0.0	.	768	Q9Y623	MYH4_HUMAN	L	768	ENSP00000255381:F768L	ENSP00000255381:F768L	F	-	3	2	MYH4	10299114	1.000000	0.71417	1.000000	0.80357	0.820000	0.46376	3.989000	0.56958	2.497000	0.84241	0.313000	0.20887	TTC		0.403	MYH4-001	KNOWN	NAGNAG_splice_site|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252731.1	NM_017533		T	10358389	G	T	10358389	3	4	619	1	0	0	0	0	1	0	0	0	10044	933	33	4	3595	4	MYH4	17	10358389	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	3218424	10358389	70836821	85	37983										
C17orf48	56985	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	10608594	10608594	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	catgaattctataacttcagTagagagtatttaacacactc	5	8	2	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr17:10608594T>G	ENST00000379774.4	+	2	442	c.351T>G	c.(349-351)agT>agG	p.S117R	ADPRM_ENST00000609540.1_Missense_Mutation_p.S117R	NM_020233.4	NP_064618.3	Q3LIE5	ADPRM_HUMAN	ADP-ribose/CDP-alcohol diphosphatase, manganese-dependent	117							ADP-ribose diphosphatase activity (GO:0047631)|CDP-glycerol diphosphatase activity (GO:0047734)|metal ion binding (GO:0046872)										ATAACTTCAGTAGAGAGTATT	0.358																																																0													83	78	80					17																	10608594		2203	4300	6503	SO:0001583	missense	56985			BC070155	CCDS11159.2	17p13.1	2012-07-20	2012-07-20	2012-07-20	ENSG00000170222	ENSG00000170222	3.6.1.13, 3.6.1.16, 3.6.1.53		30925	protein-coding gene	gene with protein product			"chromosome 17 open reading frame 48"	C17orf48		18352857	Standard	XM_005256738		Approved	MDS006	uc002gmt.3	Q3LIE5	OTTHUMG00000130366	ENST00000379774.4:c.351T>G	17.37:g.10608594T>G	ENSP00000369099:p.Ser117Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9B4|D3DTS4|Q9BVD4|Q9NRU8	Missense_Mutation	SNP	ENST00000379774.4	37	CCDS11159.2	.	.	.	.	.	.	.	.	.	.	T	13.35	2.211314	0.39102	.	.	ENSG00000170222	ENST00000379774	D	0.84800	-1.9	5.64	-3.05	0.05396	Metallophosphoesterase domain (1);	0.000000	0.85682	D	0.000000	T	0.80919	0.4716	M	0.65498	2.005	0.80722	D	1	B	0.22080	0.064	B	0.27380	0.079	T	0.67264	-0.5714	10	0.21014	T	0.42	-25.0558	14.2725	0.66159	0.0:0.7691:0.1179:0.113	.	117	Q3LIE5	ADPRM_HUMAN	R	117	ENSP00000369099:S117R	ENSP00000369099:S117R	S	+	3	2	C17orf48	10549319	0.999000	0.42202	0.983000	0.44433	0.902000	0.53008	0.629000	0.24538	-0.424000	0.07382	-0.299000	0.09455	AGT		0.358	ADPRM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252732.2	NM_020233		G	10608594	T	G	10608594	3	3	619	1	0	0	0	0	1	0	0	0	1861	1635	57	5	353	5	C17orf48	17	10608594	Missense_Mutation	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10	250205	10608594	70586616	86	37984										
CCDC144A	9720	ucsc.edu;bcgsc.ca	37	chr17	16612498	16612498	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	caaaaatatcatccatccatActatcatccatactctgggt	3	12	3	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr17:16612498A>G	ENST00000360524.8	+	5	1203	c.1127A>G	c.(1126-1128)tAc>tGc	p.Y376C	CCDC144A_ENST00000340621.5_Missense_Mutation_p.Y375C|CCDC144A_ENST00000399273.1_Missense_Mutation_p.Y376C|CCDC144A_ENST00000456009.1_Intron|RP11-219A15.1_ENST00000448331.3_Missense_Mutation_p.Y376C|CCDC144A_ENST00000443444.2_Missense_Mutation_p.Y376C|RN7SL620P_ENST00000580704.1_RNA	NM_014695.1	NP_055510.1	A2RUR9	C144A_HUMAN	coiled-coil domain containing 144A	376																	ATCCATCCATACTATCATCCA	0.378																																																0													107	100	102					17																	16612498		1830	4077	5907	SO:0001583	missense	9720			BC133019	CCDS45621.1	17p11.2	2008-10-23			ENSG00000170160	ENSG00000170160			29072	protein-coding gene	gene with protein product						9628581, 11997339	Standard	NM_014695		Approved	KIAA0565, FLJ43983	uc002gqk.1	A2RUR9	OTTHUMG00000059178	ENST00000360524.8:c.1127A>G	17.37:g.16612498A>G	ENSP00000353717:p.Tyr376Cys	Somatic		WXS	Illumina HiSeq		O60311|Q6ZU57	Missense_Mutation	SNP	ENST00000360524.8	37	CCDS45621.1	.	.	.	.	.	.	.	.	.	.	.	9.422	1.083342	0.20309	.	.	ENSG00000170160	ENST00000340621;ENST00000399273;ENST00000443444;ENST00000448331;ENST00000360524;ENST00000360495	T;T;T;T;T;T	0.20463	2.07;2.07;2.07;2.07;2.07;2.07	1.26	-2.52	0.06346	.	.	.	.	.	T	0.12390	0.0301	N	0.14661	0.345	0.09310	N	1	D	0.62365	0.991	P	0.49477	0.612	T	0.08534	-1.0717	8	.	.	.	.	2.6285	0.04937	0.4796:0.3278:0.0:0.1927	.	376	A2RUR9	C144A_HUMAN	C	375;376;376;376;376;376	ENSP00000344740:Y375C;ENSP00000382215:Y376C;ENSP00000439262:Y376C;ENSP00000440655:Y376C;ENSP00000353717:Y376C;ENSP00000353685:Y376C	.	Y	+	2	0	CCDC144A	16553223	0.024000	0.19004	0.000000	0.03702	0.076000	0.17211	0.184000	0.16939	-1.073000	0.03137	0.147000	0.16070	TAC		0.378	CCDC144A-013	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000444093.1			G	16612498	A	G	16612498	3	3	619	1	0	0	0	0	1	0	0	0	2779	391	14	3	1145	3	CCDC144A	17	16612498	Missense_Mutation	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10	6003904	16612498	64582712	87	37985										
SUPT6H	6830	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	27014486	27014486	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cggaaagggacccacctcctGaaggtaggattggagtgaat	14	8	0	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr17:27014486G>T	ENST00000314616.6	+	23	3286	c.3003G>T	c.(3001-3003)ctG>ctT	p.L1001L	SUPT6H_ENST00000347486.4_Silent_p.L1001L	NM_003170.3	NP_003161.2	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog (S. cerevisiae)	1001	Interaction with KDM6A. {ECO:0000250}.				chromatin remodeling (GO:0006338)|mRNA processing (GO:0006397)|mRNA transport (GO:0051028)|negative regulation of histone H3-K27 methylation (GO:0061086)|positive regulation of transcription elongation from RNA polymerase II promoter (GO:0032968)|regulation of isotype switching (GO:0045191)|regulation of mRNA export from nucleus (GO:0010793)|regulation of mRNA processing (GO:0050684)|regulation of muscle cell differentiation (GO:0051147)|regulation of transcription, DNA-templated (GO:0006355)|RNA splicing (GO:0008380)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone binding (GO:0042393)|hydrolase activity, acting on ester bonds (GO:0016788)|poly(A) RNA binding (GO:0044822)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(4)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(9)|kidney(2)|large_intestine(15)|lung(21)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	64	Lung NSC(42;0.00431)					CCCACCTCCTGAAGGTAGGAT	0.458																																																0													46	41	43					17																	27014486		2203	4300	6503	SO:0001819	synonymous_variant	6830			U38658	CCDS32596.1	17q11.2	2013-02-14	2001-11-28			ENSG00000109111		"SH2 domain containing"	11470	protein-coding gene	gene with protein product		601333	"suppressor of Ty (S.cerevisiae) 6 homolog"			8786132	Standard	XM_005258026		Approved	KIAA0162, SPT6H	uc002hby.3	Q7KZ85		ENST00000314616.6:c.3003G>T	17.37:g.27014486G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7E2B4|Q15737|Q6GMQ4|Q7KYW9|Q7LDK4|Q8N526|Q92775|Q96AH3|Q9BTH9|Q9BTI2	Silent	SNP	ENST00000314616.6	37	CCDS32596.1																																																																																				0.458	SUPT6H-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000446422.2	NM_003170		T	27014486	G	T	27014486	2	4	619	1	0	0	0	0	0	0	0	1	15412	1277	45	4		4	SUPT6H	17	27014486	Silent	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	10401988	27014486	54180724	88	37986										
CACNB1	782	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	37341119	37341119	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	aggggggcacatgctctgtcTggggggggaagcagggaggg	23	6	2	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr17:37341119T>A	ENST00000394303.3	-	8	856		c.e8-2		CACNB1_ENST00000344140.5_Splice_Site|CACNB1_ENST00000394310.3_Splice_Site|CACNB1_ENST00000582877.1_5'Flank	NM_000723.4	NP_000714.3	Q02641	CACB1_HUMAN	calcium channel, voltage-dependent, beta 1 subunit						axon guidance (GO:0007411)|protein targeting to membrane (GO:0006612)|transport (GO:0006810)	sarcoplasmic reticulum (GO:0016529)|T-tubule (GO:0030315)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|voltage-gated calcium channel activity (GO:0005245)			breast(1)|endometrium(3)|kidney(1)|large_intestine(4)|liver(1)|lung(3)|ovary(1)|prostate(1)|skin(1)	16					Dronedarone(DB04855)|Ibutilide(DB00308)|Magnesium Sulfate(DB00653)|Nimodipine(DB00393)|Spironolactone(DB00421)|Verapamil(DB00661)	ATGCTCTGTCTGGGGGGGGAA	0.627																																					Esophageal Squamous(5;100 366 38393 41452 45827)											0													33	30	31					17																	37341119		2203	4300	6503	SO:0001630	splice_region_variant	782				CCDS11334.1, CCDS42311.1, CCDS45665.1	17q21-q22	2013-03-20			ENSG00000067191	ENSG00000067191		"Calcium channel subunits"	1401	protein-coding gene	gene with protein product		114207		CACNLB1		8381767, 8395940	Standard	NM_000723		Approved		uc002hrm.2	Q02641	OTTHUMG00000133217	ENST00000394303.3:c.649-2A>T	17.37:g.37341119T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K114|O15331|Q02639|Q02640|Q8N3X9|Q9C085|Q9UD79	Splice_Site	SNP	ENST00000394303.3	37	CCDS42311.1	.	.	.	.	.	.	.	.	.	.	T	18.41	3.618558	0.66787	.	.	ENSG00000067191	ENST00000539338;ENST00000394303;ENST00000344140;ENST00000394310;ENST00000536613	.	.	.	5.28	5.28	0.74379	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.1992	0.65690	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	CACNB1	34594645	1.000000	0.71417	1.000000	0.80357	0.917000	0.54804	7.867000	0.87062	1.992000	0.58205	0.454000	0.30748	.		0.627	CACNB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256945.3		Intron	A	37341119	T	A	37341119	5	1	619	1	0	0	0	0	0	0	1	0	2554	1594	55	5	1282	5	CACNB1	17	37341119	Splice_Site	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10	10326633	37341119	43854091	89	37987										
ERBB2	2064	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	37883597	37883597	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ggagccctctgaagaggaggCccccaggtctccactggcac	13	15	2	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr17:37883597C>T	ENST00000269571.5	+	26	3368	c.3209C>T	c.(3208-3210)gCc>gTc	p.A1070V	MIEN1_ENST00000474210.1_5'Flank|ERBB2_ENST00000584450.1_Intron|ERBB2_ENST00000541774.1_Missense_Mutation_p.A1055V|ERBB2_ENST00000445658.2_Missense_Mutation_p.A794V|MIR4728_ENST00000580969.1_RNA|ERBB2_ENST00000406381.2_Missense_Mutation_p.A1040V|ERBB2_ENST00000540147.1_Missense_Mutation_p.A1040V|ERBB2_ENST00000584601.1_Missense_Mutation_p.A1040V			P04626	ERBB2_HUMAN	v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2	1070					axon guidance (GO:0007411)|cell proliferation (GO:0008283)|cell surface receptor signaling pathway (GO:0007166)|enzyme linked receptor protein signaling pathway (GO:0007167)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|motor neuron axon guidance (GO:0008045)|myelination (GO:0042552)|negative regulation of immature T cell proliferation in thymus (GO:0033088)|neuromuscular junction development (GO:0007528)|neurotrophin TRK receptor signaling pathway (GO:0048011)|oligodendrocyte differentiation (GO:0048709)|peptidyl-tyrosine phosphorylation (GO:0018108)|peripheral nervous system development (GO:0007422)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell adhesion (GO:0045785)|positive regulation of cell growth (GO:0030307)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of transcription from RNA polymerase I promoter (GO:0045943)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|positive regulation of translation (GO:0045727)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of angiogenesis (GO:0045765)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of microtubule-based process (GO:0032886)|signal transduction (GO:0007165)|signal transduction by phosphorylation (GO:0023014)|transcription, DNA-templated (GO:0006351)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|wound healing (GO:0042060)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|endosome membrane (GO:0010008)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|ErbB-3 class receptor binding (GO:0043125)|identical protein binding (GO:0042802)|protein C-terminus binding (GO:0008022)|protein dimerization activity (GO:0046983)|protein heterodimerization activity (GO:0046982)|protein phosphatase binding (GO:0019903)|protein tyrosine kinase activity (GO:0004713)|receptor signaling protein tyrosine kinase activity (GO:0004716)|RNA polymerase I core binding (GO:0001042)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)|transmembrane signaling receptor activity (GO:0004888)			NS(1)|breast(16)|central_nervous_system(17)|endometrium(6)|haematopoietic_and_lymphoid_tissue(8)|kidney(4)|large_intestine(16)|liver(3)|lung(125)|ovary(18)|pancreas(1)|prostate(4)|skin(1)|stomach(14)|upper_aerodigestive_tract(9)|urinary_tract(4)	247	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	ado-trastuzumab emtansine(DB05773)|Afatinib(DB08916)|Lapatinib(DB01259)|Pertuzumab(DB06366)|Trastuzumab(DB00072)	GAAGAGGAGGCCCCCAGGTCT	0.617		1	"A, Mis, O"		"breast, ovarian, other tumour types, NSCLC, gastric"					TCGA GBM(5;<1E-08)																													Dom	yes		17	17q21.1	2064	"v-erb-b2 erythroblastic leukemia viral oncogene homolog 2, neuro/glioblastoma derived oncogene homolog (avian)"		E	0													35	39	38					17																	37883597		2203	4300	6503	SO:0001583	missense	2064			X03363	CCDS32642.1, CCDS45667.1, CCDS74052.1	17q11.2-q12	2014-09-17	2013-07-09			ENSG00000141736		"CD molecules"	3430	protein-coding gene	gene with protein product	"neuro/glioblastoma derived oncogene homolog"	164870	"v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"	NGL			Standard	XM_005257140		Approved	NEU, HER-2, CD340, HER2	uc002hso.3	P04626		ENST00000269571.5:c.3209C>T	17.37:g.37883597C>T	ENSP00000269571:p.Ala1070Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RZG3|B4DHN3|Q14256|Q6LDV1|Q9UMK4|X5D2V5	Missense_Mutation	SNP	ENST00000269571.5	37	CCDS32642.1	.	.	.	.	.	.	.	.	.	.	C	12.57	1.978099	0.34942	.	.	ENSG00000141736	ENST00000406381;ENST00000541774;ENST00000445658;ENST00000269571;ENST00000540147	T;T;T;T;T	0.75704	-0.95;-0.95;-0.93;-0.96;-0.95	5.41	5.41	0.78517	.	.	.	.	.	T	0.63260	0.2496	L	0.29908	0.895	0.58432	D	0.99999	B;B;B	0.19817	0.017;0.019;0.039	B;B;B	0.18561	0.01;0.022;0.01	T	0.57854	-0.7739	9	0.17369	T	0.5	.	15.9084	0.79447	0.0:1.0:0.0:0.0	.	794;1055;1070	B4DTR1;P04626-4;P04626	.;.;ERBB2_HUMAN	V	1040;1055;794;1070;1040	ENSP00000385185:A1040V;ENSP00000446466:A1055V;ENSP00000404047:A794V;ENSP00000269571:A1070V;ENSP00000443562:A1040V	ENSP00000269571:A1070V	A	+	2	0	ERBB2	35137123	0.667000	0.27484	0.997000	0.53966	0.976000	0.68499	2.804000	0.47931	2.515000	0.84797	0.561000	0.74099	GCC		0.617	ERBB2-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445621.2			T	37883597	C	T	37883597	3	4	619	1	0	0	0	0	1	0	0	0	5208	739	26	2	3311	2	ERBB2	17	37883597	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	542478	37883597	43311613	90	37988										
C17orf77	146723	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	72588562	72588562	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cagtgtatgttgcaaggtgtGcccaaacttttgtgcatgtg	12	7	0	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr17:72588562G>T	ENST00000392620.1	+	3	739	c.377G>T	c.(376-378)tGc>tTc	p.C126F	CD300LD_ENST00000375352.1_5'Flank|C17orf77_ENST00000328023.2_Missense_Mutation_p.C126F	NM_152460.2	NP_689673.2	Q96MU5	CQ077_HUMAN	chromosome 17 open reading frame 77	126	Cys-rich.					extracellular region (GO:0005576)				breast(2)|large_intestine(2)|lung(5)|prostate(1)|stomach(1)	11						TGCAAGGTGTGCCCAAACTTT	0.458																																																0													151	143	145					17																	72588562		2203	4300	6503	SO:0001583	missense	146723				CCDS32721.1	17q25.1	2006-01-16			ENSG00000182352	ENSG00000182352			26480	protein-coding gene	gene with protein product							Standard	NM_152460		Approved	FLJ31882	uc002jla.1	Q96MU5	OTTHUMG00000067611	ENST00000392620.1:c.377G>T	17.37:g.72588562G>T	ENSP00000376396:p.Cys126Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000392620.1	37	CCDS32721.1	.	.	.	.	.	.	.	.	.	.	G	2.196	-0.384056	0.04966	.	.	ENSG00000182352	ENST00000392620;ENST00000328023	T;T	0.55760	0.5;0.5	2.64	1.62	0.23740	.	.	.	.	.	T	0.39436	0.1078	N	0.08118	0	0.09310	N	1	D	0.59767	0.986	P	0.53861	0.736	T	0.18650	-1.0330	8	.	.	.	.	7.2654	0.26227	0.0:0.2771:0.7229:0.0	.	126	Q96MU5	CQ077_HUMAN	F	126	ENSP00000376396:C126F;ENSP00000329353:C126F	.	C	+	2	0	C17orf77	70100157	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	0.150000	0.16263	0.651000	0.30788	0.609000	0.83330	TGC		0.458	C17orf77-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000145090.2	NM_152460		T	72588562	G	T	72588562	3	4	619	1	0	0	0	0	1	0	0	0	1884	1319	46	4	379	4	C17orf77	17	72588562	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	34704965	72588562	8606648	91	37989										
ZNF407	55628	broad.mit.edu	37	chr18	72775888	72775888	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cagccatggcctctcaggagCgggcacaggtggccttcaag	14	13	2	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr18:72775888C>T	ENST00000299687.5	+	8	6211	c.6211C>T	c.(6211-6213)Cgg>Tgg	p.R2071W		NM_017757.2	NP_060227.2	Q9C0G0	ZN407_HUMAN	zinc finger protein 407	2071					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(6)|kidney(7)|large_intestine(21)|lung(23)|ovary(4)|prostate(3)|upper_aerodigestive_tract(2)	67		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		CTCTCAGGAGCGGGCACAGGT	0.662																																																0													38	46	43					18																	72775888		2106	4222	6328	SO:0001583	missense	55628			AB051490	CCDS45885.1, CCDS54191.1, CCDS58634.1	18q23	2013-01-08			ENSG00000215421	ENSG00000215421		"Zinc fingers, C2H2-type"	19904	protein-coding gene	gene with protein product		615894				11214970	Standard	NM_017757		Approved	FLJ20307, FLJ13839, KIAA1703	uc002llw.2	Q9C0G0		ENST00000299687.5:c.6211C>T	18.37:g.72775888C>T	ENSP00000299687:p.Arg2071Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B5MD54|Q96MY0|Q9H8A1|Q9NXD4|Q9NXD7	Missense_Mutation	SNP	ENST00000299687.5	37	CCDS45885.1	.	.	.	.	.	.	.	.	.	.	C	13.05	2.122778	0.37436	.	.	ENSG00000215421	ENST00000299687	T	0.15372	2.43	4.42	2.43	0.29744	.	.	.	.	.	T	0.34019	0.0883	M	0.67953	2.075	0.80722	D	1	D	0.71674	0.998	P	0.61592	0.891	T	0.16600	-1.0397	9	0.87932	D	0	.	11.8945	0.52650	0.4417:0.5583:0.0:0.0	.	2071	Q9C0G0	ZN407_HUMAN	W	2071	ENSP00000299687:R2071W	ENSP00000299687:R2071W	R	+	1	2	ZNF407	70904876	0.715000	0.27946	0.648000	0.29521	0.838000	0.47535	1.314000	0.33597	0.866000	0.35629	-0.448000	0.05591	CGG		0.662	ZNF407-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444903.1	NM_017757		T	72775888	C	T	72775888	3	4	619	1	0	0	0	0	1	0	0	0	17899	759	27	1	6371	1	ZNF407	18	72775888	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10		72775888	5301360	92	37990										
TMPRSS9	360200	broad.mit.edu	37	chr19	2410353	2410353	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tcactcactgacaggatggtGtgcgctggctacctggacgg	14	11	2	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr19:2410353G>A	ENST00000332578.3	+	8	1113	c.1113G>A	c.(1111-1113)gtG>gtA	p.V371V		NM_182973.1	NP_892018.1	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	371	Peptidase S1 1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				plasminogen activation (GO:0031639)	integral component of plasma membrane (GO:0005887)	serine-type endopeptidase activity (GO:0004252)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(3)|large_intestine(3)|lung(12)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	29				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)		ACAGGATGGTGTGCGCTGGCT	0.577																																																0													90	76	81					19																	2410353		2203	4300	6503	SO:0001819	synonymous_variant	360200			AJ488946	CCDS12088.1	19p13.3	2010-04-13						"Serine peptidases / Transmembrane"	30079	protein-coding gene	gene with protein product	"polyserase 1"	610477				12886014	Standard	NM_182973		Approved		uc010xgx.2	Q7Z410		ENST00000332578.3:c.1113G>A	19.37:g.2410353G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZND6|Q7Z411	Silent	SNP	ENST00000332578.3	37	CCDS12088.1																																																																																				0.577	TMPRSS9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451330.3	NM_182973		A	2410353	G	A	2410353	2	1	619	1	0	0	0	0	0	0	0	1	16265	1364	48	2		2	TMPRSS9	19	2410353	Silent	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10		2410353	56718630	93	37991										
XAB2	56949	broad.mit.edu	37	chr19	7684501	7684501	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cttcaggctcccaaacactgCggctggcacgctctgctgct	10	16	2	0	rs538580383		TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr19:7684501C>T	ENST00000358368.4	-	19	2576	c.2539G>A	c.(2539-2541)Gca>Aca	p.A847T	XAB2_ENST00000534844.1_Missense_Mutation_p.A844T	NM_020196.2	NP_064581.2	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	847					blastocyst development (GO:0001824)|DNA repair (GO:0006281)|mRNA splicing, via spliceosome (GO:0000398)|nucleotide-excision repair (GO:0006289)|transcription, DNA-templated (GO:0006351)|transcription-coupled nucleotide-excision repair (GO:0006283)	catalytic step 2 spliceosome (GO:0071013)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				breast(1)|central_nervous_system(2)|cervix(2)|endometrium(2)|kidney(2)|large_intestine(2)|lung(11)|prostate(1)|skin(2)|urinary_tract(1)	26						CCAAACACTGCGGCTGGCACG	0.647								Direct reversal of damage;Nucleotide excision repair (NER)					c|||	1	0.000199681	0.0	0.0014	5008	,	,		8461	0.0		0.0	False		,,,				2504	0.0															0													25	24	24					19																	7684501		2201	4297	6498	SO:0001583	missense	56949			AB026111	CCDS32892.1	19p13.3	2013-08-21				ENSG00000076924			14089	protein-coding gene	gene with protein product	"SYF1 homolog, RNA splicing factor (S. cerevisiae)", "SYF1 pre-mRNA-splicing factor"	610850				10944529	Standard	NM_020196		Approved	HCNP, HCRN, SYF1, NTC90	uc002mgx.3	Q9HCS7		ENST00000358368.4:c.2539G>A	19.37:g.7684501C>T	ENSP00000351137:p.Ala847Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TET6|Q96HB0|Q96IW0|Q9NRG6|Q9ULP3	Missense_Mutation	SNP	ENST00000358368.4	37	CCDS32892.1	.	.	.	.	.	.	.	.	.	.	c	12.83	2.055385	0.36277	.	.	ENSG00000076924	ENST00000358368;ENST00000534844	T;T	0.23552	1.9;1.9	4.94	3.67	0.42095	.	0.076238	0.50627	U	0.000101	T	0.14056	0.0340	L	0.41415	1.275	0.24814	N	0.992626	P	0.45827	0.867	B	0.27796	0.083	T	0.29701	-1.0003	10	0.48119	T	0.1	-17.4672	8.1134	0.30928	0.1619:0.7401:0.0:0.098	.	847	Q9HCS7	SYF1_HUMAN	T	847;844	ENSP00000351137:A847T;ENSP00000438225:A844T	ENSP00000351137:A847T	A	-	1	0	XAB2	7590501	0.953000	0.32496	0.089000	0.20774	0.506000	0.33950	2.124000	0.42006	2.315000	0.78130	0.479000	0.44913	GCA		0.647	XAB2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000461021.1	NM_020196		T	7684501	C	T	7684501	3	4	619	1	0	0	0	0	1	0	0	0	17430	768	27	1	32	1	XAB2	19	7684501	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	5274148	7684501	51444482	94	37992										
MARCH2	51257	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	8503277	8503277	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	agggctgccccacaggtctcCttccgctaccactgccagct	9	18	1	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr19:8503277C>T	ENST00000602117.1	+	5	1043	c.588C>T	c.(586-588)tcC>tcT	p.S196S	MARCH2_ENST00000601283.1_Intron|MARCH2_ENST00000215555.2_Silent_p.S196S|MARCH2_ENST00000381035.4_Silent_p.S126S|MARCH2_ENST00000393944.1_Silent_p.S196S			Q9P0N8	MARH2_HUMAN	membrane-associated ring finger (C3HC4) 2, E3 ubiquitin protein ligase	196					endocytosis (GO:0006897)|protein ubiquitination (GO:0016567)	cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|integral component of membrane (GO:0016021)|lysosome (GO:0005764)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			endometrium(1)|large_intestine(1)|lung(3)|ovary(3)|skin(1)|urinary_tract(1)	10						CACAGGTCTCCTTCCGCTACC	0.637																																																0													54	54	54					19																	8503277		2203	4300	6503	SO:0001819	synonymous_variant	51257			AF151074	CCDS12202.1, CCDS32894.1	19p13.2	2013-01-09	2012-02-23			ENSG00000099785		"MARCH membrane-associated ring fingers", "RING-type (C3HC4) zinc fingers"	28038	protein-coding gene	gene with protein product		613332	"membrane-associated ring finger (C3HC4) 2"			11042152, 14722266	Standard	NM_016496		Approved	HSPC240, MARCH-II, RNF172	uc002mjw.3	Q9P0N8		ENST00000602117.1:c.588C>T	19.37:g.8503277C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NP10|Q5H785|Q8N5A3|Q96B78	Silent	SNP	ENST00000602117.1	37	CCDS12202.1																																																																																				0.637	MARCH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460361.2	NM_016496		T	8503277	C	T	8503277	2	4	619	1	0	0	0	0	0	0	0	1	9308	668	24	2		2	MARCH2	19	8503277	Silent	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	818776	8503277	50625706	95	37993										
FBL	2091	broad.mit.edu	37	chr19	40331279	40331279	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cctcttcctcctcctccaccGccgccgccgcctccacctcc	4	27	1	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr19:40331279G>A	ENST00000221801.3	-	2	272	c.159C>T	c.(157-159)ggC>ggT	p.G53G	FBL_ENST00000593503.1_5'Flank	NM_001436.3	NP_001427.2	P22087	FBRL_HUMAN	fibrillarin	53	DMA/Gly-rich.				histone glutamine methylation (GO:1990258)|osteoblast differentiation (GO:0001649)|rRNA processing (GO:0006364)|snoRNA metabolic process (GO:0016074)|tRNA processing (GO:0008033)	box C/D snoRNP complex (GO:0031428)|Cajal body (GO:0015030)|extracellular vesicular exosome (GO:0070062)|granular component (GO:0001652)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	histone-glutamine methyltransferase activity (GO:1990259)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			endometrium(1)|kidney(1)|large_intestine(4)|lung(2)|ovary(1)	9	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)	Renal(1328;0.000518)|Hepatocellular(1079;0.0893)	Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)	GBM - Glioblastoma multiforme(1328;0.000826)|STAD - Stomach adenocarcinoma(1328;0.138)		ctcctccaccgccgccgccgc	0.657																																																0													18	21	20					19																	40331279		2201	4299	6500	SO:0001819	synonymous_variant	2091			AC005393	CCDS12545.1	19q13.1	2010-02-17			ENSG00000105202	ENSG00000105202			3599	protein-coding gene	gene with protein product		134795				1846968, 2026646	Standard	NM_001436		Approved	RNU3IP1, FLRN, FIB	uc002omn.3	P22087		ENST00000221801.3:c.159C>T	19.37:g.40331279G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B5BUE8|O75259|Q6IAT5|Q9UPI6	Silent	SNP	ENST00000221801.3	37	CCDS12545.1																																																																																				0.657	FBL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462509.4	NM_001436		A	40331279	G	A	40331279	2	1	619	1	0	0	0	0	0	0	0	1	5703	1074	38	1		1	FBL	19	40331279	Silent	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	31828002	40331279	18797704	96	37994										
EPB41L1	2036	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	34765954	34765956	+	In_Frame_Del	DEL	CTT	CTT	-													0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	aaggactacttcggcctgacCttctgtgatgctgacagcca							TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr20:34765954_34765956delCTT	ENST00000338074.2	+	4	584_586	c.423_425delCTT	c.(421-426)accttc>acc	p.F142del	EPB41L1_ENST00000373946.3_In_Frame_Del_p.F111del|EPB41L1_ENST00000202028.5_In_Frame_Del_p.F80del|EPB41L1_ENST00000441639.1_In_Frame_Del_p.F80del|EPB41L1_ENST00000373941.1_In_Frame_Del_p.F142del|EPB41L1_ENST00000373950.2_Intron	NM_001258329.1|NM_012156.2	NP_001245258.1|NP_036288.2	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	142	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.				cortical actin cytoskeleton organization (GO:0030866)|synaptic transmission (GO:0007268)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extrinsic component of membrane (GO:0019898)|plasma membrane (GO:0005886)	structural molecule activity (GO:0005198)			breast(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(10)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	37	Breast(12;0.0239)					TCGGCCTGACCTTCTGTGATGCT	0.576																																																0																																										SO:0001651	inframe_deletion	2036			AB002336	CCDS13271.1, CCDS13272.1, CCDS58771.1	20q11.2-q12	2003-03-17			ENSG00000088367	ENSG00000088367			3378	protein-coding gene	gene with protein product		602879				9570967, 9828140	Standard	NM_012156		Approved	KIAA0338	uc002xfb.3	Q9H4G0	OTTHUMG00000032378	ENST00000338074.2:c.423_425delCTT	20.37:g.34765954_34765956delCTT	ENSP00000337168:p.Phe142del	Somatic		WXS	Illumina HiSeq	Phase_I	O15046|Q4VXM6|Q4VXM7|Q4VXM8|Q4VXN4|Q6ZT61|Q8IUU7|Q96CV5|Q96L65	In_Frame_Del	DEL	ENST00000338074.2	37	CCDS13271.1																																																																																				0.576	EPB41L1-008	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000078978.3	NM_012156		-	34765956	CTT	-	34765954	7	5	619	1	0	1	0	1	0	0	0	0	5154	668	24	0	433	0	EPB41L1	20	34765954	In_Frame_Del	DEL	CTT	TCGA-IZ-A6M9-01A-11D-A31X-10		34765954	28259566	97	37995										
ZNF335	63925	bcgsc.ca	37	chr20	44592465	44592465	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	atccgggcaggagggggctgCgttctctgcatctgactggc	16	11	2	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr20:44592465C>T	ENST00000322927.2	-	8	1367	c.1267G>A	c.(1267-1269)Gca>Aca	p.A423T	ZNF335_ENST00000426788.1_Missense_Mutation_p.A268T	NM_022095.3	NP_071378.1	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	423					brain development (GO:0007420)|brain morphogenesis (GO:0048854)|cerebral cortex neuron differentiation (GO:0021895)|histone H3-K4 trimethylation (GO:0080182)|in utero embryonic development (GO:0001701)|neuron projection morphogenesis (GO:0048812)|positive regulation of lymphocyte proliferation (GO:0050671)|positive regulation of neuroblast proliferation (GO:0002052)|positive regulation of neurogenesis (GO:0050769)|regulation of gene expression, epigenetic (GO:0040029)|regulation of histone H3-K4 methylation (GO:0051569)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|transcription regulatory region DNA binding (GO:0044212)			NS(1)|breast(2)|endometrium(3)|kidney(1)|large_intestine(13)|lung(17)|ovary(2)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	51		Myeloproliferative disorder(115;0.0122)				GAGGGGGCTGCGTTCTCTGCA	0.637																																																0													80	78	79					20																	44592465		2203	4300	6503	SO:0001583	missense	63925			AK026157	CCDS13389.1	20q13.12	2011-09-12			ENSG00000198026	ENSG00000198026		"Zinc fingers, C2H2-type"	15807	protein-coding gene	gene with protein product	"NRC-interacting factor 1"	610827				12215545, 19131338	Standard	NM_022095		Approved	bA465L10.2, NIF-1	uc002xqw.3	Q9H4Z2	OTTHUMG00000032637	ENST00000322927.2:c.1267G>A	20.37:g.44592465C>T	ENSP00000325326:p.Ala423Thr	Somatic		WXS	Illumina HiSeq	Phase_1	B4DLG7|Q548D0|Q9H684	Missense_Mutation	SNP	ENST00000322927.2	37	CCDS13389.1	.	.	.	.	.	.	.	.	.	.	C	12.82	2.051468	0.36181	.	.	ENSG00000198026	ENST00000322927;ENST00000243961;ENST00000426788	T;T	0.08102	3.24;3.13	4.81	1.61	0.23674	.	0.186864	0.45606	N	0.000356	T	0.03608	0.0103	N	0.12182	0.205	0.26398	N	0.976472	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.43163	-0.9408	10	0.17369	T	0.5	-4.5635	5.2985	0.15766	0.0:0.4872:0.0:0.5128	.	268;423	Q9H4Z2-2;Q9H4Z2	.;ZN335_HUMAN	T	423;200;268	ENSP00000325326:A423T;ENSP00000397098:A268T	ENSP00000243961:A200T	A	-	1	0	ZNF335	44025872	0.210000	0.23517	0.028000	0.17463	0.687000	0.40016	0.545000	0.23268	0.633000	0.30452	0.555000	0.69702	GCA		0.637	ZNF335-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079553.1	NM_022095		T	44592465	C	T	44592465	3	4	619	1	0	0	0	0	1	0	0	0	17864	768	27	1	2845	1	ZNF335	20	44592465	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	9826511	44592465	18433055	98	37996										
SYCP2	10388	bcgsc.ca	37	chr20	58475248	58475248	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tgtttttgatatattttgaaGgtttagcaaattcctttggg	9	3	0	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr20:58475248G>T	ENST00000357552.3	-	18	1574	c.1349C>A	c.(1348-1350)cCt>cAt	p.P450H	SYCP2_ENST00000371001.2_Missense_Mutation_p.P450H			Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	450					female meiotic division (GO:0007143)|fertilization (GO:0009566)|male genitalia morphogenesis (GO:0048808)|male meiosis (GO:0007140)|negative regulation of apoptotic process (GO:0043066)|synaptonemal complex assembly (GO:0007130)	lateral element (GO:0000800)|nucleus (GO:0005634)|synaptonemal complex (GO:0000795)	DNA binding (GO:0003677)			NS(4)|breast(2)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(14)|lung(12)|ovary(4)|prostate(1)|skin(2)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	53	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			ATATTTTGAAGGTTTAGCAAA	0.363																																																0													136	123	127					20																	58475248		2202	4299	6501	SO:0001583	missense	10388			Y08982	CCDS13482.1	20q13.33	2007-07-02			ENSG00000196074	ENSG00000196074			11490	protein-coding gene	gene with protein product		604105				10341103, 9592139	Standard	NM_014258		Approved	SCP2	uc002yaz.3	Q9BX26	OTTHUMG00000032872	ENST00000357552.3:c.1349C>A	20.37:g.58475248G>T	ENSP00000350162:p.Pro450His	Somatic		WXS	Illumina HiSeq	Phase_1	A2RUE5|O75763|Q5JX11|Q9NTX8|Q9UG27	Missense_Mutation	SNP	ENST00000357552.3	37	CCDS13482.1	.	.	.	.	.	.	.	.	.	.	G	11.05	1.525062	0.27299	.	.	ENSG00000196074	ENST00000371001;ENST00000357552;ENST00000446834	T;T;T	0.18502	2.46;2.46;2.21	5.37	2.19	0.27852	.	0.750306	0.11861	N	0.522405	T	0.28896	0.0717	M	0.62723	1.935	0.09310	N	1	D;P	0.58620	0.983;0.895	P;P	0.59825	0.864;0.606	T	0.08638	-1.0712	10	0.52906	T	0.07	-2.3323	4.4928	0.11822	0.0912:0.1516:0.6019:0.1552	.	450;450	A2A341;Q9BX26	.;SYCP2_HUMAN	H	450	ENSP00000360040:P450H;ENSP00000350162:P450H;ENSP00000402456:P450H	ENSP00000350162:P450H	P	-	2	0	SYCP2	57908643	0.019000	0.18553	0.057000	0.19452	0.155000	0.21991	1.388000	0.34442	1.258000	0.44101	0.650000	0.86243	CCT		0.363	SYCP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079930.3	NM_014258		T	58475248	G	T	58475248	3	4	619	1	0	0	0	0	1	0	0	0	15444	1000	35	4	3355	4	SYCP2	20	58475248	Missense_Mutation	SNP	G	TCGA-IZ-A6M9-01A-11D-A31X-10	13882783	58475248	4550272	99	37997										
CLTCL1	8218	broad.mit.edu	37	chr22	19213138	19213138	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	atcctccaccgataaggagcCaaagaaattgacaagccact	7	12	0	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr22:19213138C>A	ENST00000263200.10	-	13	2038	c.1966G>T	c.(1966-1968)Ggc>Tgc	p.G656C	CLTCL1_ENST00000353891.5_Missense_Mutation_p.G656C|CLTCL1_ENST00000427926.1_Missense_Mutation_p.G656C	NM_007098.3	NP_009029.3	P53675	CLH2_HUMAN	clathrin, heavy chain-like 1	656	Heavy chain arm.|Proximal segment.				anatomical structure morphogenesis (GO:0009653)|intracellular protein transport (GO:0006886)|mitotic nuclear division (GO:0007067)|positive regulation of glucose import (GO:0046326)|receptor-mediated endocytosis (GO:0006898)|signal transduction (GO:0007165)	clathrin coat of coated pit (GO:0030132)|clathrin coat of trans-Golgi network vesicle (GO:0030130)|clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|coated vesicle (GO:0030135)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|spindle (GO:0005819)|trans-Golgi network (GO:0005802)	signal transducer activity (GO:0004871)|structural molecule activity (GO:0005198)			breast(2)|central_nervous_system(3)|cervix(2)|endometrium(9)|kidney(3)|large_intestine(11)|lung(9)|ovary(5)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	49	Colorectal(54;0.0993)					GATAAGGAGCCAAAGAAATTG	0.473			T	?	ALCL																																		Dom	yes		22	22q11.21	8218	"clathrin, heavy polypeptide-like 1"		L	0																																										SO:0001583	missense	8218				CCDS46662.1, CCDS54497.1, CCDS46662.2, CCDS54497.2	22q11.2	2008-06-10	2006-09-29		ENSG00000070371	ENSG00000070371			2093	protein-coding gene	gene with protein product		601273	"clathrin, heavy polypeptide-like 1"	CLTCL		8844170, 15133132	Standard	NM_007098		Approved	CLTD, CLH22, CHC22	uc021wle.1	P53675	OTTHUMG00000150109	ENST00000263200.10:c.1966G>T	22.37:g.19213138C>A	ENSP00000445677:p.Gly656Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7U5|Q14017|Q15808|Q15809	Missense_Mutation	SNP	ENST00000263200.10	37	CCDS46662.1	.	.	.	.	.	.	.	.	.	.	C	20.7	4.027241	0.75390	.	.	ENSG00000070371	ENST00000353891;ENST00000263200;ENST00000427926	T;T;T	0.53857	0.6;0.6;0.6	4.0	4.0	0.46444	Tetratricopeptide-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.78755	0.4333	M	0.92738	3.34	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.85440	0.1154	10	0.87932	D	0	-20.3922	16.6486	0.85183	0.0:1.0:0.0:0.0	.	656;656	P53675-2;P53675	.;CLH2_HUMAN	C	656	ENSP00000439662:G656C;ENSP00000445677:G656C;ENSP00000441158:G656C	ENSP00000445677:G656C	G	-	1	0	CLTCL1	17593138	1.000000	0.71417	1.000000	0.80357	0.721000	0.41392	5.229000	0.65316	2.220000	0.72140	0.655000	0.94253	GGC		0.473	CLTCL1-001	KNOWN	non_canonical_genome_sequence_error|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316397.5	NM_007098		A	19213138	C	A	19213138	3	1	619	1	0	0	0	0	1	0	0	0	3569	594	21	4	3036	4	CLTCL1	22	19213138	Missense_Mutation	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10		19213138	32091428	100	37998										
MORC2	22880	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	31345772	31345772	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	cccgtactgcccaatctgagTagactcaggtgttcgcttgg	11	12	2	2			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr22:31345772T>G	ENST00000397641.3	-	5	691	c.283A>C	c.(283-285)Act>Cct	p.T95P	MORC2_ENST00000215862.4_Missense_Mutation_p.T33P			Q9Y6X9	MORC2_HUMAN	MORC family CW-type zinc finger 2	95						cytoplasm (GO:0005737)|nucleus (GO:0005634)	zinc ion binding (GO:0008270)			breast(2)|kidney(2)|large_intestine(5)|lung(4)|ovary(2)|pancreas(1)|skin(4)|upper_aerodigestive_tract(1)	21						CCAATCTGAGTAGACTCAGGT	0.463																																																0													139	127	131					22																	31345772		2203	4300	6503	SO:0001583	missense	22880			AB020659	CCDS33636.1	22q12.2	2005-06-15	2005-06-15	2005-06-15	ENSG00000133422	ENSG00000133422			23573	protein-coding gene	gene with protein product			"zinc finger, CW-type with coiled-coil domain 1", "zinc finger, CW type with coiled-coil domain 1"	ZCWCC1		14607086	Standard	XM_005261391		Approved	ZCW3, KIAA0852, AC004542.C22.1	uc003aje.1	Q9Y6X9	OTTHUMG00000151193	ENST00000397641.3:c.283A>C	22.37:g.31345772T>G	ENSP00000380763:p.Thr95Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNB1|Q9UF28|Q9Y6V2	Missense_Mutation	SNP	ENST00000397641.3	37		.	.	.	.	.	.	.	.	.	.	T	26.9	4.777606	0.90195	.	.	ENSG00000133422	ENST00000397641;ENST00000215862	D;D	0.95205	-3.64;-3.64	5.62	5.62	0.85841	ATPase-like, ATP-binding domain (4);	0.050861	0.85682	D	0.000000	D	0.94968	0.8372	L	0.35341	1.055	0.80722	D	1	D	0.89917	1.0	D	0.70487	0.969	D	0.94117	0.7376	10	0.30854	T	0.27	.	15.8169	0.78608	0.0:0.0:0.0:1.0	.	95	Q9Y6X9	MORC2_HUMAN	P	95;33	ENSP00000380763:T95P;ENSP00000215862:T33P	ENSP00000215862:T33P	T	-	1	0	MORC2	29675772	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	7.698000	0.84413	2.151000	0.67156	0.482000	0.46254	ACT		0.463	MORC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000321710.2	NM_014941		G	31345772	T	G	31345772	3	3	619	1	0	0	0	0	1	0	0	0	9709	1638	57	5	2903	5	MORC2	22	31345772	Missense_Mutation	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10	12132634	31345772	19958794	101	37999										
RRP7A	27341	broad.mit.edu;bcgsc.ca	37	chr22	42910736	42910736	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	atgaacgtgtccacttccacCctcagggcctcagggtcggg	12	14	2	1			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chr22:42910736C>T	ENST00000323013.6	-	5	525	c.510G>A	c.(508-510)agG>agA	p.R170R	SERHL_ENST00000359906.2_RNA	NM_015703.4	NP_056518.2	Q9Y3A4	RRP7A_HUMAN	ribosomal RNA processing 7 homolog A (S. cerevisiae)	170							nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			central_nervous_system(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|liver(2)|lung(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	10						CCACTTCCACCCTCAGGGCCT	0.637																																																0													35	36	36					22																	42910736		2202	4297	6499	SO:0001819	synonymous_variant	27341			BC035992	CCDS14036.1	22q13.2	2008-08-08			ENSG00000189306	ENSG00000189306			24286	protein-coding gene	gene with protein product						10810093, 12087473	Standard	NM_015703		Approved	CGI-96	uc003bcq.3	Q9Y3A4	OTTHUMG00000150891	ENST00000323013.6:c.510G>A	22.37:g.42910736C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4FTX2|B2RBG4|Q0VAD0|Q5JZ94|Q6P4B5|Q8IVR9|Q8IVY0|Q8N5Q3|Q8NEY6|Q9Y3H5	Silent	SNP	ENST00000323013.6	37	CCDS14036.1																																																																																				0.637	RRP7A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320451.1	NM_015703		T	42910736	C	T	42910736	2	4	619	1	0	0	0	0	0	0	0	1	13702	622	22	2		2	RRP7A	22	42910736	Silent	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10	11564964	42910736	8393830	102	38000										
MAGED2	10916	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	54841947	54841947	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	ggcagtgccagcactggtgcCagtaccagtaccaataacag	11	12	0	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chrX:54841947C>T	ENST00000375068.1	+	12	1886	c.1653C>T	c.(1651-1653)gcC>gcT	p.A551A	MAGED2_ENST00000375053.2_Silent_p.A551A|SNORA11_ENST00000408789.1_RNA|MAGED2_ENST00000375058.1_Silent_p.A551A|MAGED2_ENST00000218439.4_Silent_p.A551A|MAGED2_ENST00000375062.4_Silent_p.A466A|MAGED2_ENST00000396224.1_Silent_p.A551A|MAGED2_ENST00000347546.4_Silent_p.A533A|MAGED2_ENST00000375060.1_Silent_p.A466A			Q9UNF1	MAGD2_HUMAN	melanoma antigen family D, 2	551						membrane (GO:0016020)				breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(8)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	26						gcactggtgccagtaccagta	0.602																																																0													35	28	30					X																	54841947		2197	4291	6488	SO:0001819	synonymous_variant	10916			AF128527	CCDS14362.1	Xp11.2	2008-08-01			ENSG00000102316	ENSG00000102316			16353	protein-coding gene	gene with protein product	"hepatocellular carcinoma associated protein", "breast cancer associated gene 1", "melanoma-associated antigen D2", "hepatocellular carcinoma-associated protein HCA10"	300470					Standard	NM_014599		Approved	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386	uc004dtk.1	Q9UNF1	OTTHUMG00000021638	ENST00000375068.1:c.1653C>T	X.37:g.54841947C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NMX0|O76058|Q5BJF3|Q8NAL6|Q9H218|Q9P0U9|Q9UM52	Silent	SNP	ENST00000375068.1	37	CCDS14362.1																																																																																				0.602	MAGED2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000056821.2	NM_014599		T	54841947	C	T	54841947	2	4	619	1	0	0	0	0	0	0	0	1	9191	581	21	2		2	MAGED2	23	54841947	Silent	SNP	C	TCGA-IZ-A6M9-01A-11D-A31X-10		54841947	100428613	103	38001										
TCEAL4	79921	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	102841929	102841929	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	tgaaggagagccagggagtgAaacaagggctgcaggaaagc	17	6	0	3			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chrX:102841929A>T	ENST00000472745.1	+	3	878	c.326A>T	c.(325-327)gAa>gTa	p.E109V	TCEAL4_ENST00000472484.1_Missense_Mutation_p.E109V|TCEAL4_ENST00000372629.4_Missense_Mutation_p.E252V|TCEAL4_ENST00000494801.1_Missense_Mutation_p.E109V|TCEAL4_ENST00000415568.2_Missense_Mutation_p.E109V|TCEAL4_ENST00000468024.1_Missense_Mutation_p.E109V			Q96EI5	TCAL4_HUMAN	transcription elongation factor A (SII)-like 4	109	Glu-rich.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)				endometrium(1)|kidney(1)|large_intestine(2)|skin(2)	6						CCAGGGAGTGAAACAAGGGCT	0.507																																																0													67	67	67					X																	102841929		2203	4300	6503	SO:0001583	missense	79921			AF314542	CCDS14510.2, CCDS76004.1	Xq22.2	2014-03-21			ENSG00000133142	ENSG00000133142			26121	protein-coding gene	gene with protein product						14702039, 16221301	Standard	XM_005262192		Approved	FLJ21174, WEX7	uc004ekn.3	Q96EI5	OTTHUMG00000022103	ENST00000472745.1:c.326A>T	X.37:g.102841929A>T	ENSP00000424314:p.Glu109Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WY12|Q9H2H1|Q9H775	Missense_Mutation	SNP	ENST00000472745.1	37	CCDS14510.2	.	.	.	.	.	.	.	.	.	.	A	10.28	1.307826	0.23821	.	.	ENSG00000133142	ENST00000372629;ENST00000468024;ENST00000472484;ENST00000415568;ENST00000414064;ENST00000472745;ENST00000494801;ENST00000469586	T;T;T;T;T;T;T	0.35973	1.32;1.28;1.28;1.28;1.28;1.28;1.44	3.99	1.55	0.23275	.	0.216564	0.23312	N	0.049559	T	0.38214	0.1032	M	0.63843	1.955	0.09310	N	1	P	0.38250	0.624	P	0.45577	0.486	T	0.25187	-1.0139	10	0.56958	D	0.05	.	5.2758	0.15649	0.7556:0.0:0.2444:0.0	.	109	Q96EI5	TCAL4_HUMAN	V	252;109;109;109;80;109;109;109	ENSP00000361712:E252V;ENSP00000421857:E109V;ENSP00000421156:E109V;ENSP00000415564:E109V;ENSP00000424314:E109V;ENSP00000427494:E109V;ENSP00000427053:E109V	ENSP00000361712:E252V	E	+	2	0	TCEAL4	102728585	0.003000	0.15002	0.001000	0.08648	0.387000	0.30353	1.156000	0.31712	0.221000	0.20879	-0.681000	0.03757	GAA		0.507	TCEAL4-004	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000252339.2	NM_024863		T	102841929	A	T	102841929	3	4	619	1	0	0	0	0	1	0	0	0	15685	246	9	5	328	5	TCEAL4	23	102841929	Missense_Mutation	SNP	A	TCGA-IZ-A6M9-01A-11D-A31X-10	47999982	102841929	52428631	104	38002										
DOCK11	139818	ucsc.edu;bcgsc.ca	37	chrX	117786022	117786022	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	attatcaataattttgcaaaTagtgacagacctatgaaggt	7	5	1	3			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chrX:117786022T>C	ENST00000276202.7	+	42	4740	c.4677T>C	c.(4675-4677)aaT>aaC	p.N1559N	DOCK11_ENST00000276204.6_Silent_p.N1559N	NM_144658.3	NP_653259.3	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1559					blood coagulation (GO:0007596)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(4)|cervix(2)|endometrium(8)|kidney(5)|large_intestine(17)|liver(1)|lung(35)|ovary(4)|prostate(3)|skin(3)|stomach(1)|urinary_tract(1)	84						ATTTTGCAAATAGTGACAGAC	0.348																																																0													71	70	70					X																	117786022		2203	4295	6498	SO:0001819	synonymous_variant	139818			AK125641	CCDS35373.1	Xq24	2013-10-25			ENSG00000147251	ENSG00000147251		"Pleckstrin homology (PH) domain containing"	23483	protein-coding gene	gene with protein product	"zizimin2"	300681				12432077, 16968698	Standard	NM_144658		Approved	FLJ32122, FLJ43653, ZIZ2, ACG	uc004eqp.2	Q5JSL3	OTTHUMG00000022256	ENST00000276202.7:c.4677T>C	X.37:g.117786022T>C		Somatic		WXS	Illumina HiSeq		A6NMF0|Q66M66|Q6ZUJ5|Q86VU8|Q96MN3	Silent	SNP	ENST00000276202.7	37	CCDS35373.1																																																																																				0.348	DOCK11-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000356002.1	NM_144658		C	117786022	T	C	117786022	2	2	619	1	0	0	0	0	0	0	0	1	4688	1403	49	3		3	DOCK11	23	117786022	Silent	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10	14944093	117786022	37484538	105	38003										
SLC25A5	292	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	118603720	118603720	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0192307692307692	2	1	0.433834976647639	2.22340425531915	0.24036802760207	1	1	0	aggagcagggagttctgtccTtctggcgcggtaacctggcc	15	11	2	0			TCGA-IZ-A6M9-01A-11D-A31X-10	TCGA-IZ-A6M9-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0541b2e4-13f8-4845-a6ba-6dfde158bc09	558c1803-c4c2-42cb-82cb-f3e277bf9beb	g.chrX:118603720T>G	ENST00000317881.8	+	2	324	c.208T>G	c.(208-210)Ttc>Gtc	p.F70V	SLC25A5-AS1_ENST00000446986.1_RNA|SLC25A5_ENST00000460013.1_3'UTR	NM_001152.4	NP_001143.2	P05141	ADT2_HUMAN	solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 5	70					adenine transport (GO:0015853)|chromosome segregation (GO:0007059)|energy reserve metabolic process (GO:0006112)|negative regulation of mitochondrial outer membrane permeabilization involved in apoptotic signaling pathway (GO:1901029)|positive regulation of cell proliferation (GO:0008284)|regulation of insulin secretion (GO:0050796)|small molecule metabolic process (GO:0044281)|transport (GO:0006810)|viral process (GO:0016032)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)|MMXD complex (GO:0071817)|nucleus (GO:0005634)	adenine transmembrane transporter activity (GO:0015207)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|ovary(1)|prostate(1)|stomach(2)	12					Clodronate(DB00720)	AGTTCTGTCCTTCTGGCGCGG	0.498																																																0													166	157	160					X																	118603720		2203	4300	6503	SO:0001583	missense	292			BC068199	CCDS14578.1	Xq24	2013-08-09			ENSG00000005022	ENSG00000005022		"Solute carriers"	10991	protein-coding gene	gene with protein product		300150		ANT2		2168878, 2829183	Standard	NM_001152		Approved	T2, 2F1, T3	uc004erh.4	P05141	OTTHUMG00000022715	ENST00000317881.8:c.208T>G	X.37:g.118603720T>G	ENSP00000360671:p.Phe70Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCV1|O43350	Missense_Mutation	SNP	ENST00000317881.8	37	CCDS14578.1	.	.	.	.	.	.	.	.	.	.	T	20.6	4.010876	0.75046	.	.	ENSG00000005022	ENST00000317881	T	0.80214	-1.35	4.18	4.18	0.49190	Mitochondrial carrier domain (2);	0.000000	0.85682	D	0.000000	D	0.90290	0.6963	M	0.90198	3.095	0.58432	D	0.999999	D	0.63880	0.993	D	0.69824	0.966	D	0.91908	0.5537	10	0.87932	D	0	.	12.1849	0.54231	0.0:0.0:0.0:1.0	.	70	P05141	ADT2_HUMAN	V	70	ENSP00000360671:F70V	ENSP00000360671:F70V	F	+	1	0	SLC25A5	118487748	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.575000	0.82447	1.622000	0.50330	0.430000	0.28490	TTC		0.498	SLC25A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058952.2	NM_001152		G	118603720	T	G	118603720	3	3	619	1	0	0	0	0	1	0	0	0	14525	1609	56	5	214	5	SLC25A5	23	118603720	Missense_Mutation	SNP	T	TCGA-IZ-A6M9-01A-11D-A31X-10	817698	118603720	36666840	106	38004										
SFN	2810	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	27189915	27189915	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	tattgagcagaaaagcaacgAggagggctcggaggagaagg	17	5	0	3			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr1:27189915A>G	ENST00000339276.4	+	1	283	c.212A>G	c.(211-213)gAg>gGg	p.E71G		NM_006142.3	NP_006133.1	Q9Y3B8	ORN_HUMAN	stratifin	0	Exonuclease.				nucleic acid phosphodiester bond hydrolysis (GO:0090305)|nucleobase-containing compound metabolic process (GO:0006139)|nucleotide metabolic process (GO:0009117)	focal adhesion (GO:0005925)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|nucleus (GO:0005634)	3'-5' exonuclease activity (GO:0008408)|nucleic acid binding (GO:0003676)			breast(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|lung(3)|skin(2)	9		all_cancers(24;1.23e-26)|all_epithelial(13;1.19e-23)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Breast(348;0.00017)|Renal(390;0.0007)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.1e-52)|Epithelial(14;2.31e-52)|OV - Ovarian serous cystadenocarcinoma(117;8.22e-30)|Colorectal(126;1.31e-09)|COAD - Colon adenocarcinoma(152;3.45e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000501)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|READ - Rectum adenocarcinoma(331;0.0419)|GBM - Glioblastoma multiforme(114;0.0767)|Lung(427;0.215)		AAAAGCAACGAGGAGGGCTCG	0.627																																																0													69	74	72					1																	27189915		2203	4300	6503	SO:0001583	missense	2810			BC023552	CCDS288.1	1p36.11	2008-02-05			ENSG00000175793	ENSG00000175793			10773	protein-coding gene	gene with protein product	"14-3-3 sigma"	601290				8515476	Standard	NM_006142		Approved	YWHAS	uc001bnc.1	P31947	OTTHUMG00000004093	ENST00000339276.4:c.212A>G	1.37:g.27189915A>G	ENSP00000340989:p.Glu71Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2R532|Q32Q18|Q53FT1|Q6FIC6|Q9UFY7	Missense_Mutation	SNP	ENST00000339276.4	37	CCDS288.1	.	.	.	.	.	.	.	.	.	.	A	11.09	1.535187	0.27475	.	.	ENSG00000175793	ENST00000339276;ENST00000538651	T	0.39787	1.06	5.96	5.96	0.96718	14-3-3 domain (4);	0.106868	0.41396	D	0.000892	T	0.16938	0.0407	N	0.00873	-1.125	0.27459	N	0.9532	B	0.02656	0.0	B	0.04013	0.001	T	0.13818	-1.0495	10	0.54805	T	0.06	-27.1227	12.0125	0.53295	0.8558:0.1442:0.0:0.0	.	71	P31947	1433S_HUMAN	G	71	ENSP00000340989:E71G	ENSP00000340989:E71G	E	+	2	0	SFN	27062502	1.000000	0.71417	0.994000	0.49952	0.719000	0.41307	4.148000	0.58085	2.270000	0.75569	0.533000	0.62120	GAG		0.627	SFN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000011709.1	NM_006142		G	27189915	A	G	27189915	3	3	620	1	0	0	0	0	1	0	0	0	14172	304	11	3	214	3	SFN	1	27189915	Missense_Mutation	SNP	A	TCGA-J7-6720-01A-11D-2136-08		27189915	222060706	1	38005										
GPR3	2827	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	27720330	27720350	+	In_Frame_Del	DEL	GCCTGGCTCTCAGCTGGCTCA	GCCTGGCTCTCAGCTGGCTCA	-													0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	ggggtgcaggcagccctctgGcctggctctcagctggctca							TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	GCCTGGCTCTCAGCTGGCTCA	GCCTGGCTCTCAGCTGGCTCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr1:27720330_27720350delGCCTGGCTCTCAGCTGGCTCA	ENST00000374024.3	+	2	127_147	c.28_48delGCCTGGCTCTCAGCTGGCTCA	c.(28-48)gcctggctctcagctggctcadel	p.AWLSAGS10del		NM_005281.3	NP_005272.1	P46089	GPR3_HUMAN	G protein-coupled receptor 3	10					adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|regulation of meiosis (GO:0040020)	integral component of plasma membrane (GO:0005887)	G-protein coupled receptor activity (GO:0004930)			endometrium(3)|lung(3)|ovary(1)|skin(1)	8		Breast(348;1.53e-05)|Ovarian(437;0.0606)|all_lung(284;0.157)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;2.81e-26)|Colorectal(126;1.24e-08)|KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;4.45e-06)|Lung(427;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|LUSC - Lung squamous cell carcinoma(448;0.008)|READ - Rectum adenocarcinoma(331;0.0419)		CAGCCCTCTGGCCTGGCTCTCAGCTGGCTCAGGCAACGTGA	0.633																																																0																																										SO:0001651	inframe_deletion	2827			BC032702	CCDS303.1	1p36.1-p35	2012-08-21			ENSG00000181773	ENSG00000181773		"GPCR / Class A : Orphans"	4484	protein-coding gene	gene with protein product		600241				7851889	Standard	NM_005281		Approved	ACCA	uc001bod.4	P46089	OTTHUMG00000003397	ENST00000374024.3:c.28_48delGCCTGGCTCTCAGCTGGCTCA	1.37:g.27720330_27720350delGCCTGGCTCTCAGCTGGCTCA	ENSP00000363136:p.Ala10_Ser16del	Somatic		WXS	Illumina HiSeq	Phase_I	A8K570	In_Frame_Del	DEL	ENST00000374024.3	37	CCDS303.1																																																																																				0.633	GPR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000009522.1	NM_005281		-	27720350	GCCTGGCTCTCAGCTGGCTCA	-	27720330	7	5	620	1	0	1	0	1	0	0	0	0	6693	1203	42	0	30	0	GPR3	1	27720330	In_Frame_Del	DEL	GCCTGGCTCTCAGCTGGCTCA	TCGA-J7-6720-01A-11D-2136-08	530415	27720330	221530291	2	38006										
PIAS3	10401	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	145578967	145578967	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	cagagaggttctgccaggagCcaaatgtgattataccatac	10	9	1	2			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr1:145578967C>T	ENST00000393045.2	+	4	635	c.545C>T	c.(544-546)gCc>gTc	p.A182V	PIAS3_ENST00000369298.1_Missense_Mutation_p.A147V|PIAS3_ENST00000369299.3_Missense_Mutation_p.A173V	NM_006099.3	NP_006090.2	Q9Y6X2	PIAS3_HUMAN	protein inhibitor of activated STAT, 3	182	PINIT. {ECO:0000255|PROSITE- ProRule:PRU00799}.				positive regulation of gene expression (GO:0010628)|positive regulation of membrane potential (GO:0045838)|positive regulation of protein sumoylation (GO:0033235)|protein sumoylation (GO:0016925)|regulation of transcription, DNA-templated (GO:0006355)|response to hormone (GO:0009725)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|dendrite (GO:0030425)|nucleus (GO:0005634)|synapse (GO:0045202)	enzyme binding (GO:0019899)|nucleic acid binding (GO:0003676)|potassium channel regulator activity (GO:0015459)|protein C-terminus binding (GO:0008022)|SUMO ligase activity (GO:0019789)|zinc ion binding (GO:0008270)			cervix(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(14)|ovary(1)|prostate(2)	28	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CTGCCAGGAGCCAAATGTGAT	0.527																																																0													109	97	101					1																	145578967		2203	4300	6503	SO:0001583	missense	10401			AB021868	CCDS72866.1	1q21	2011-10-11			ENSG00000131788	ENSG00000131788		"Zinc fingers, MIZ-type"	16861	protein-coding gene	gene with protein product	"zinc finger, MIZ-type containing 5"	605987				10319586	Standard	NM_006099		Approved	FLJ14651, ZMIZ5	uc001eoc.1	Q9Y6X2	OTTHUMG00000013750	ENST00000393045.2:c.545C>T	1.37:g.145578967C>T	ENSP00000376765:p.Ala182Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UFI3	Missense_Mutation	SNP	ENST00000393045.2	37	CCDS920.2	.	.	.	.	.	.	.	.	.	.	C	14.25	2.478871	0.44044	.	.	ENSG00000131788	ENST00000393046;ENST00000369299;ENST00000393045;ENST00000369298	T;T;T;T	0.44881	0.93;0.91;1.54;1.51	4.33	4.33	0.51752	PINIT domain (1);	0.000000	0.49916	D	0.000123	T	0.13841	0.0335	N	0.17474	0.49	0.38130	D	0.938123	B;P	0.47841	0.024;0.901	B;B	0.41088	0.061;0.347	T	0.03240	-1.1057	10	0.13108	T	0.6	-12.7129	14.3972	0.67020	0.0:1.0:0.0:0.0	.	173;182	F8WA94;Q9Y6X2	.;PIAS3_HUMAN	V	173;173;182;147	ENSP00000376766:A173V;ENSP00000358305:A173V;ENSP00000376765:A182V;ENSP00000358304:A147V	ENSP00000358304:A147V	A	+	2	0	PIAS3	144290324	0.999000	0.42202	1.000000	0.80357	0.582000	0.36321	1.616000	0.36933	2.230000	0.72887	0.655000	0.94253	GCC		0.527	PIAS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000038533.4	NM_006099		T	145578967	C	T	145578967	3	4	620	1	0	0	0	0	1	0	0	0	11884	739	26	2	559	2	PIAS3	1	145578967	Missense_Mutation	SNP	C	TCGA-J7-6720-01A-11D-2136-08	117858637	145578967	103671654	3	38007										
C1orf182	128229	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	156309583	156309583	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	tagtcatcctaacagaaaagGtgtgtgttggaggccctgct	12	8	1	1	rs113369857		TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr1:156309583G>C	ENST00000368255.3	+	2	394		c.e2+1		TSACC_ENST00000368252.1_Splice_Site|TSACC_ENST00000470342.1_Splice_Site|TSACC_ENST00000466306.1_Splice_Site|CCT3_ENST00000295688.3_5'Flank|CCT3_ENST00000368259.2_5'Flank|CCT3_ENST00000472765.2_5'Flank|CCT3_ENST00000368256.3_5'Flank|CCT3_ENST00000368261.3_5'Flank|TSACC_ENST00000368253.2_Splice_Site|TSACC_ENST00000481479.1_Splice_Site|TSACC_ENST00000368251.1_Splice_Site|TSACC_ENST00000368254.1_Splice_Site	NM_144627.3	NP_653228.1	Q96A04	TSACC_HUMAN	TSSK6 activating co-chaperone							cytoplasm (GO:0005737)	chaperone binding (GO:0051087)										AACAGAAAAGGTGTGTGTTGG	0.483																																																0													147	127	134					1																	156309583		2203	4300	6503	SO:0001630	splice_region_variant	128229			AY048672	CCDS1141.1	1q22	2012-08-16	2012-08-16	2012-08-16	ENSG00000163467	ENSG00000163467			30636	protein-coding gene	gene with protein product	"SSTK-interacting protein"		"chromosome 1 open reading frame 182"	C1orf182		20829357	Standard	NM_144627		Approved	SSTK-IP, SIP	uc001foo.3	Q96A04	OTTHUMG00000024060	ENST00000368255.3:c.34+1G>C	1.37:g.156309583G>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DVB9	Splice_Site	SNP	ENST00000368255.3	37	CCDS1141.1	.	.	.	.	.	.	.	.	.	.	G	15.30	2.792835	0.50102	.	.	ENSG00000163467	ENST00000368255;ENST00000368254;ENST00000368253;ENST00000368252;ENST00000368251	.	.	.	2.76	2.76	0.32466	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	9.1866	0.37174	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	C1orf182	154576207	1.000000	0.71417	0.995000	0.50966	0.965000	0.64279	2.090000	0.41682	1.852000	0.53769	0.467000	0.42956	.		0.483	TSACC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060594.1	NM_144627	Intron	C	156309583	G	C	156309583	5	2	620	1	0	0	0	0	0	0	1	0	2020	1275	44	4	37	4	C1orf182	1	156309583	Splice_Site	SNP	G	TCGA-J7-6720-01A-11D-2136-08	10730616	156309583	92941038	4	38008										
HSPA6	3310	hgsc.bcm.edu	37	chr1	161495275	161495275	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	tgagcgcgccaagcgcacccTgtcctccagcacccaggcca	10	19	0	1	rs200790521		TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr1:161495275T>C	ENST00000309758.4	+	1	1240	c.827T>C	c.(826-828)cTg>cCg	p.L276P	RP11-25K21.6_ENST00000537821.2_RNA	NM_002155.3	NP_002146.2	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	276					ATP catabolic process (GO:0006200)|cellular response to heat (GO:0034605)|protein refolding (GO:0042026)|response to unfolded protein (GO:0006986)	blood microparticle (GO:0072562)|centriole (GO:0005814)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|ATPase activity, coupled (GO:0042623)|enzyme binding (GO:0019899)|heat shock protein binding (GO:0031072)|unfolded protein binding (GO:0051082)			endometrium(3)|large_intestine(5)|lung(9)|prostate(2)|skin(2)	21	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			AAGCGCACCCTGTCCTCCAGC	0.622																																																0													25	27	26					1																	161495275		2201	4300	6501	SO:0001583	missense	3310				CCDS1231.1	1q23.3	2011-09-02	2002-08-29		ENSG00000173110	ENSG00000173110		"Heat shock proteins / HSP70"	5239	protein-coding gene	gene with protein product		140555	"heat shock 70kD protein 6 (HSP70B')"			1346391	Standard	NM_002155		Approved		uc001gaq.3	P17066	OTTHUMG00000034461	ENST00000309758.4:c.827T>C	1.37:g.161495275T>C	ENSP00000310219:p.Leu276Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q1HBA8|Q8IYK7|Q9BT95	Missense_Mutation	SNP	ENST00000309758.4	37	CCDS1231.1	.	.	.	.	.	.	.	.	.	.	.	16.96	3.266320	0.59540	.	.	ENSG00000173110	ENST00000309758;ENST00000545155	T	0.02177	4.41	3.12	3.12	0.35913	.	0.000000	0.30920	U	0.008619	T	0.21145	0.0509	H	0.99996	5.455	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.47100	-0.9143	10	0.87932	D	0	.	9.3095	0.37895	0.0:0.0:0.0:1.0	.	276	P17066	HSP76_HUMAN	P	276;252	ENSP00000310219:L276P	ENSP00000310219:L276P	L	+	2	0	HSPA6	159761899	1.000000	0.71417	0.918000	0.36340	0.903000	0.53119	4.067000	0.57527	1.264000	0.44198	0.443000	0.29094	CTG		0.622	HSPA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083308.1	NM_002155		C	161495275	T	C	161495275	3	2	620	1	0	0	0	0	1	0	0	0	7422	1580	55	3	829	3	HSPA6	1	161495275	Missense_Mutation	SNP	T	TCGA-J7-6720-01A-11D-2136-08	5185692	161495275	87755346	5	38009										
LBR	3930	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	225598057	225598057	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	taactaaaatcatggccaagGatggaacagcgcggtcctgt	11	9	1	0			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr1:225598057G>C	ENST00000338179.2	-	10	1375	c.1250C>G	c.(1249-1251)tCc>tGc	p.S417C	AC092811.1_ENST00000366845.2_5'Flank|LBR_ENST00000272163.4_Missense_Mutation_p.S417C	NM_194442.2	NP_919424.1	Q14739	LBR_HUMAN	lamin B receptor	417					cholesterol biosynthetic process (GO:0006695)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|integral component of nuclear inner membrane (GO:0005639)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)	chromo shadow domain binding (GO:0070087)|DNA binding (GO:0003677)|lamin binding (GO:0005521)|oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor (GO:0016628)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(5)|ovary(2)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	22	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		CATGGCCAAGGATGGAACAGC	0.423																																																0													129	126	127					1																	225598057		2203	4300	6503	SO:0001583	missense	3930			L25931	CCDS1545.1	1q42.1	2013-01-23			ENSG00000143815	ENSG00000143815		"Tudor domain containing"	6518	protein-coding gene	gene with protein product	"tudor domain containing 18"	600024				8157663, 9878250	Standard	NM_194442		Approved	DHCR14B, TDRD18	uc001hoy.3	Q14739	OTTHUMG00000037520	ENST00000338179.2:c.1250C>G	1.37:g.225598057G>C	ENSP00000339883:p.Ser417Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5P3|Q14740|Q53GU7|Q59FE6	Missense_Mutation	SNP	ENST00000338179.2	37	CCDS1545.1	.	.	.	.	.	.	.	.	.	.	G	29.0	4.970100	0.92855	.	.	ENSG00000143815	ENST00000272163;ENST00000338179;ENST00000424022	D;D;D	0.98280	-4.84;-4.84;-4.84	5.87	5.87	0.94306	.	0.000000	0.85682	D	0.000000	D	0.99390	0.9785	H	0.96208	3.785	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	D	0.98628	1.0670	10	0.87932	D	0	-31.0258	20.5827	0.99408	0.0:0.0:1.0:0.0	.	417	Q14739	LBR_HUMAN	C	417;417;48	ENSP00000272163:S417C;ENSP00000339883:S417C;ENSP00000397817:S48C	ENSP00000272163:S417C	S	-	2	0	LBR	223664680	1.000000	0.71417	1.000000	0.80357	0.939000	0.58152	9.737000	0.98831	2.941000	0.99782	0.655000	0.94253	TCC		0.423	LBR-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091398.1	NM_002296		C	225598057	G	C	225598057	3	2	620	1	0	0	0	0	1	0	0	0	8659	1174	41	4	617	4	LBR	1	225598057	Missense_Mutation	SNP	G	TCGA-J7-6720-01A-11D-2136-08	64102782	225598057	23652564	6	38010										
ANKRD36B	0	hgsc.bcm.edu	37	chr2	98156684	98156684	+	IGR	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	cttcaaggctggtcgtctctGagaagacactgaaaagcaaa	10	9	2	3			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr2:98156684G>C								AC159540.1 (65635 upstream) : ANKRD36B (7343 downstream)																							GGTCGTCTCTGAGAAGACACT	0.313																																																0													67	53	58					2																	98156684		1550	2478	4028	SO:0001628	intergenic_variant	57730																															2.37:g.98156684G>C		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP		37																																																																																				0	0.313									C	98156684	G	C	98156684	1	2	620	0	1	0	0	0	0	0	0	0	666	1299	45	4		4	ANKRD36B	2	98156684	IGR	SNP	G	TCGA-J7-6720-01A-11D-2136-08		98156684	145042689	7	38011										
CALCRL	10203	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	188245425	188245425	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	tgatggatcaaagtcctgaaAgtaatcagggcagagctgca	12	7	2	3			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr2:188245425A>G	ENST00000409998.1	-	7	1055	c.274T>C	c.(274-276)Ttt>Ctt	p.F92L	CALCRL_ENST00000410068.1_Missense_Mutation_p.F92L|AC007319.1_ENST00000412276.1_RNA|AC007319.1_ENST00000453517.1_RNA|CALCRL_ENST00000392370.3_Missense_Mutation_p.F92L			Q16602	CALRL_HUMAN	calcitonin receptor-like	92					adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|angiogenesis (GO:0001525)|calcium ion transport (GO:0006816)|cAMP biosynthetic process (GO:0006171)|cellular response to sucrose stimulus (GO:0071329)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|heart development (GO:0007507)|negative regulation of inflammatory response (GO:0050728)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of smooth muscle cell proliferation (GO:0048661)|protein transport (GO:0015031)|receptor internalization (GO:0031623)|regulation of muscle contraction (GO:0006937)	endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|integral component of plasma membrane (GO:0005887)|lysosome (GO:0005764)|plasma membrane (GO:0005886)	adrenomedullin receptor activity (GO:0001605)|calcitonin gene-related polypeptide receptor activity (GO:0001635)|calcitonin receptor activity (GO:0004948)|G-protein coupled receptor activity (GO:0004930)|protein transporter activity (GO:0008565)			endometrium(1)|large_intestine(7)|lung(21)|ovary(1)|prostate(1)|skin(1)	32			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			AAGTCCTGAAAGTAATCAGGG	0.418																																																0													68	66	67					2																	188245425		2203	4300	6503	SO:0001583	missense	10203			U17473	CCDS2293.1	2q21.1-q21.3	2012-08-10			ENSG00000064989	ENSG00000064989		"GPCR / Class B : Calcitonin receptors"	16709	protein-coding gene	gene with protein product		114190				7818539, 8626685	Standard	NM_005795		Approved	CGRPR, CRLR	uc010frt.4	Q16602	OTTHUMG00000132636	ENST00000409998.1:c.274T>C	2.37:g.188245425A>G	ENSP00000386972:p.Phe92Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6G5|A8KAD3|Q53S02|Q53TS5	Missense_Mutation	SNP	ENST00000409998.1	37	CCDS2293.1	.	.	.	.	.	.	.	.	.	.	A	31	5.083990	0.94100	.	.	ENSG00000064989	ENST00000392370;ENST00000409998;ENST00000410068	T;T;T	0.64803	-0.12;-0.12;-0.12	5.29	5.29	0.74685	GPCR, family 2, extracellular hormone receptor domain (3);	0.000000	0.64402	D	0.000002	T	0.54886	0.1886	L	0.42008	1.315	0.80722	D	1	P	0.46220	0.874	B	0.42495	0.389	T	0.53041	-0.8494	10	0.25751	T	0.34	.	13.2254	0.59912	1.0:0.0:0.0:0.0	.	92	Q16602	CALRL_HUMAN	L	92	ENSP00000376177:F92L;ENSP00000386972:F92L;ENSP00000387190:F92L	ENSP00000376177:F92L	F	-	1	0	CALCRL	187953670	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	6.861000	0.75478	2.221000	0.72209	0.455000	0.32223	TTT		0.418	CALCRL-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000334648.1	NM_005795		G	188245425	A	G	188245425	3	3	620	1	0	0	0	0	1	0	0	0	2582	72	3	3	1151	3	CALCRL	2	188245425	Missense_Mutation	SNP	A	TCGA-J7-6720-01A-11D-2136-08	90088741	188245425	54953948	8	38012										
WDR12	55759	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	203762106	203762106	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	ttccttccaaggaccagatcCgagaagtcttatcataagaa	7	10	2	3			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr2:203762106C>T	ENST00000261015.4	-	5	1120	c.371G>A	c.(370-372)cGg>cAg	p.R124Q	WDR12_ENST00000477723.1_5'Flank	NM_018256.3	NP_060726.3			WD repeat domain 12											endometrium(3)|large_intestine(1)|liver(1)|lung(6)|prostate(1)|skin(1)	13						GGACCAGATCCGAGAAGTCTT	0.383																																																0													105	97	100					2																	203762106		2203	4300	6503	SO:0001583	missense	55759			AF242546	CCDS2356.1	2q33.1	2013-01-09			ENSG00000138442	ENSG00000138442		"WD repeat domain containing"	14098	protein-coding gene	gene with protein product						16043514, 17353269	Standard	NM_018256		Approved	YTM1, FLJ10881	uc002uzl.3	Q9GZL7	OTTHUMG00000132855	ENST00000261015.4:c.371G>A	2.37:g.203762106C>T	ENSP00000261015:p.Arg124Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000261015.4	37	CCDS2356.1	.	.	.	.	.	.	.	.	.	.	C	14.97	2.695498	0.48202	.	.	ENSG00000138442	ENST00000261015	T	0.67865	-0.29	5.33	4.45	0.53987	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.056455	0.64402	N	0.000001	T	0.70570	0.3239	M	0.87827	2.91	0.53688	D	0.999978	B;B	0.21753	0.06;0.06	B;B	0.13407	0.009;0.009	T	0.71034	-0.4709	10	0.56958	D	0.05	-7.5369	13.8674	0.63596	0.0:0.9263:0.0:0.0737	.	124;124	Q53T99;Q9GZL7	.;WDR12_HUMAN	Q	124	ENSP00000261015:R124Q	ENSP00000261015:R124Q	R	-	2	0	WDR12	203470351	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.869000	0.63028	1.229000	0.43630	-0.218000	0.12543	CGG		0.383	WDR12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256329.4	NM_018256		T	203762106	C	T	203762106	3	4	620	1	0	0	0	0	1	0	0	0	17286	652	23	1	936	1	WDR12	2	203762106	Missense_Mutation	SNP	C	TCGA-J7-6720-01A-11D-2136-08	15516681	203762106	39437267	9	38013										
COL4A3	1285	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	228145271	228145271	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	tggacttccaggtctccctgGaactccaggaaatgaagggc	12	11	1	1			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr2:228145271G>T	ENST00000396578.3	+	30	2501	c.2339G>T	c.(2338-2340)gGa>gTa	p.G780V	AC097662.2_ENST00000433324.1_RNA|AC097662.2_ENST00000396588.2_RNA|AC097662.2_ENST00000439598.2_RNA	NM_000091.4	NP_000082.2	Q01955	CO4A3_HUMAN	collagen, type IV, alpha 3 (Goodpasture antigen)	780	Triple-helical region.				activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|axon guidance (GO:0007411)|blood circulation (GO:0008015)|cell adhesion (GO:0007155)|cell proliferation (GO:0008283)|cell surface receptor signaling pathway (GO:0007166)|collagen catabolic process (GO:0030574)|endothelial cell apoptotic process (GO:0072577)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glomerular basement membrane development (GO:0032836)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cell proliferation (GO:0008285)|negative regulation of endopeptidase activity (GO:0010951)|sensory perception of sound (GO:0007605)	basement membrane (GO:0005604)|collagen type IV trimer (GO:0005587)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	extracellular matrix structural constituent (GO:0005201)|integrin binding (GO:0005178)|metalloendopeptidase inhibitor activity (GO:0008191)|structural molecule activity (GO:0005198)			NS(4)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(24)|ovary(1)|pancreas(1)|prostate(1)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	55		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)		GGTCTCCCTGGAACTCCAGGA	0.498																																																0			GRCh37	CM034405	COL4A3	M							102	104	103					2																	228145271		1895	4117	6012	SO:0001583	missense	1285				CCDS42829.1	2q36-q37	2014-09-17			ENSG00000169031	ENSG00000169031		"Collagens"	2204	protein-coding gene	gene with protein product	"tumstatin"	120070				1737849	Standard	NM_000091		Approved		uc002vom.2	Q01955	OTTHUMG00000149891	ENST00000396578.3:c.2339G>T	2.37:g.228145271G>T	ENSP00000379823:p.Gly780Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q53QQ1|Q53R14|Q53RW8|Q9BQT2|Q9NYC4|Q9UDJ9|Q9UDK9|Q9UDL0|Q9UDL1	Missense_Mutation	SNP	ENST00000396578.3	37	CCDS42829.1	.	.	.	.	.	.	.	.	.	.	G	16.90	3.249670	0.59212	.	.	ENSG00000169031	ENST00000396578;ENST00000328380;ENST00000335583;ENST00000396574;ENST00000315699	D	0.99353	-5.77	5.49	5.49	0.81192	.	0.000000	0.56097	D	0.000033	D	0.99542	0.9836	M	0.93016	3.37	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	1.0;1.0;1.0;1.0	D	0.98235	1.0485	10	0.87932	D	0	.	16.2931	0.82759	0.0:0.0:1.0:0.0	.	780;780;780;780	Q01955-5;Q01955-4;Q01955-2;Q01955	.;.;.;CO4A3_HUMAN	V	780	ENSP00000379823:G780V	ENSP00000323334:G780V	G	+	2	0	COL4A3	227853515	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	5.405000	0.66351	2.596000	0.87737	0.557000	0.71058	GGA		0.498	COL4A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331409.2	NM_000091		T	228145271	G	T	228145271	3	4	620	1	0	0	0	0	1	0	0	0	3693	1174	41	4	2457	4	COL4A3	2	228145271	Missense_Mutation	SNP	G	TCGA-J7-6720-01A-11D-2136-08	24383165	228145271	15054102	10	38014										
FBXO36	130888	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr2	230875429	230875429	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	cagctgtgcatgtctgataaActgtgggaacagatagtcca	11	8	1	2			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr2:230875429A>G	ENST00000283946.3	+	4	414	c.396A>G	c.(394-396)aaA>aaG	p.K132K	FBXO36_ENST00000409992.1_Silent_p.K112K|FBXO36_ENST00000373652.3_Silent_p.K101K	NM_174899.4	NP_777559.3	Q8NEA4	FBX36_HUMAN	F-box protein 36	132	F-box. {ECO:0000255|PROSITE- ProRule:PRU00080}.									endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(2)|ovary(1)	7		Renal(207;0.0112)|all_lung(227;0.0179)|Lung NSC(271;0.0804)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;7.56e-14)|all cancers(144;7.74e-11)|Lung(119;0.00488)|LUSC - Lung squamous cell carcinoma(224;0.008)		TGTCTGATAAACTGTGGGAAC	0.532																																																0													63	56	58					2																	230875429		2203	4300	6503	SO:0001819	synonymous_variant	130888			BC033935	CCDS2472.1	2q37.1	2008-02-05	2004-06-15		ENSG00000153832	ENSG00000153832		"F-boxes /  "other""	27020	protein-coding gene	gene with protein product		609105	"F-box only protein 36"			12477932	Standard	NM_174899		Approved	Fbx36, FLJ37592	uc002vqa.3	Q8NEA4	OTTHUMG00000133206	ENST00000283946.3:c.396A>G	2.37:g.230875429A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KVQ6|Q53TE6|Q8WWD4	Silent	SNP	ENST00000283946.3	37	CCDS2472.1																																																																																				0.532	FBXO36-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256919.2	NM_174899		G	230875429	A	G	230875429	2	3	620	1	0	0	0	0	0	0	0	1	5752	40	2	3		3	FBXO36	2	230875429	Silent	SNP	A	TCGA-J7-6720-01A-11D-2136-08	2730158	230875429	12323944	11	38015										
ACY1	95	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	52020519	52020519	+	Splice_Site	DEL	G	G	-													0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	gcaggctttgccctggatgaGggtgagcaggttggcaagcc							TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr3:52020519delG	ENST00000404366.2	+	7	671	c.525delG	c.(523-525)gag>ga	p.E175fs	ACY1_ENST00000476854.1_Splice_Site_p.E175fs|ABHD14A-ACY1_ENST00000463937.1_Splice_Site_p.E276fs|ACY1_ENST00000494103.1_Intron|ACY1_ENST00000458031.2_Splice_Site_p.E265fs|ACY1_ENST00000476351.1_Splice_Site_p.E140fs	NM_000666.2|NM_001198895.1	NP_000657.1|NP_001185824.1	Q03154	ACY1_HUMAN	aminoacylase 1	175					cellular amino acid metabolic process (GO:0006520)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	aminoacylase activity (GO:0004046)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)			breast(1)|endometrium(1)|large_intestine(3)|lung(4)|ovary(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acetylcysteine(DB06151)|L-Aspartic Acid(DB00128)	CCCTGGATGAGGGTGAGCAGG	0.612																																																0													60	60	60					3																	52020519		2203	4300	6503	SO:0001630	splice_region_variant	95			L07548	CCDS2844.1, CCDS56261.1, CCDS56262.1, CCDS56263.1	3p21.2	2006-02-02			ENSG00000243989	ENSG00000243989	3.5.1.14		177	protein-coding gene	gene with protein product		104620				1707030, 6948533	Standard	NM_000666		Approved		uc003dcq.3	Q03154	OTTHUMG00000157815	ENST00000404366.2:c.526+1G>-	3.37:g.52020519delG		Somatic		WXS	Illumina HiSeq	Phase_I	C9J6I6|C9J9D8|C9JWD4	Frame_Shift_Del	DEL	ENST00000404366.2	37	CCDS2844.1																																																																																				0.612	ACY1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349657.1	NM_000666	Frame_Shift_Del	-	52020519	G	-	52020519	8	5	620	1	0	1	0	1	0	0	1	0	226	1014	35	0	547	0	ACY1	3	52020519	Splice_Site	DEL	G	TCGA-J7-6720-01A-11D-2136-08		52020519	146001911	12	38016										
TWF2	11344	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	52269098	52269098	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	agccagcccgtgccttggcaAagaattccttcagctcttcc	8	15	2	1			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr3:52269098A>G	ENST00000305533.5	-	2	293	c.50T>C	c.(49-51)tTt>tCt	p.F17S	TLR9_ENST00000597542.1_5'UTR|TWF2_ENST00000499914.2_Missense_Mutation_p.F17S	NM_007284.3	NP_009215.1	Q6IBS0	TWF2_HUMAN	twinfilin actin-binding protein 2	17	ADF-H 1. {ECO:0000255|PROSITE- ProRule:PRU00599}.				barbed-end actin filament capping (GO:0051016)|cell projection organization (GO:0030030)|cellular response to growth factor stimulus (GO:0071363)|cellular response to retinoic acid (GO:0071300)|negative regulation of actin filament polymerization (GO:0030837)|positive regulation of axon extension (GO:0045773)|positive regulation of lamellipodium assembly (GO:0010592)|positive regulation of neuron projection development (GO:0010976)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of microvillus length (GO:0032532)|sequestering of actin monomers (GO:0042989)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|growth cone (GO:0030426)|lamellipodium (GO:0030027)|myofibril (GO:0030016)|perinuclear region of cytoplasm (GO:0048471)|stereocilium (GO:0032420)	actin monomer binding (GO:0003785)|ATP binding (GO:0005524)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|poly(A) RNA binding (GO:0044822)|protein kinase C binding (GO:0005080)			breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(3)|lung(6)|ovary(1)|stomach(1)|urinary_tract(1)	15				BRCA - Breast invasive adenocarcinoma(193;2.43e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		TGCCTTGGCAAAGAATTCCTT	0.572																																																0													112	98	103					3																	52269098		2203	4300	6503	SO:0001583	missense	11344			Y17169	CCDS2849.1	3p21.1	2013-04-25	2013-04-25	2006-11-13	ENSG00000247596	ENSG00000247596			9621	protein-coding gene	gene with protein product		607433	"protein tyrosine kinase 9-like (A6-related protein)", "PTK9L protein tyrosine kinase 9-like (A6-related protein)", "twinfilin, actin-binding protein, homolog 2 (Drosophila)"	PTK9L		10406962, 12807912	Standard	NM_007284		Approved	A6RP, A6r		Q6IBS0	OTTHUMG00000158105	ENST00000305533.5:c.50T>C	3.37:g.52269098A>G	ENSP00000303908:p.Phe17Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q9Y3F5	Missense_Mutation	SNP	ENST00000305533.5	37	CCDS2849.1	.	.	.	.	.	.	.	.	.	.	A	26.3	4.727062	0.89390	.	.	ENSG00000247596	ENST00000305533;ENST00000499914	T;T	0.46063	0.88;0.88	4.58	4.58	0.56647	Actin-binding, cofilin/tropomyosin type (2);	.	.	.	.	T	0.71863	0.3390	M	0.93375	3.41	0.48288	D	0.999623	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.80141	-0.1506	9	0.87932	D	0	.	13.2613	0.60106	1.0:0.0:0.0:0.0	.	17;17	D6RG15;Q6IBS0	.;TWF2_HUMAN	S	17	ENSP00000303908:F17S;ENSP00000426464:F17S	ENSP00000303908:F17S	F	-	2	0	TWF2	52244138	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.871000	0.92346	1.927000	0.55829	0.459000	0.35465	TTT		0.572	TWF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350199.2			G	52269098	A	G	52269098	3	3	620	1	0	0	0	0	1	0	0	0	16794	14	1	3	1031	3	TWF2	3	52269098	Missense_Mutation	SNP	A	TCGA-J7-6720-01A-11D-2136-08	248579	52269098	145753332	13	38017										
FNDC3B	64778	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	172025192	172025192	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	tccgtaaagggatcctgctcCgagcctgttagcttcaccac	9	14	1	0	rs145255541		TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr3:172025192C>G	ENST00000336824.4	+	10	1200	c.1101C>G	c.(1099-1101)tcC>tcG	p.S367S	FNDC3B_ENST00000416957.1_Silent_p.S367S|FNDC3B_ENST00000415807.2_Silent_p.S367S	NM_001135095.1	NP_001128567.1	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	367	Fibronectin type-III 1. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell migration (GO:0016477)|negative regulation of osteoblast differentiation (GO:0045668)|positive regulation of fat cell differentiation (GO:0045600)|positive regulation of fibroblast proliferation (GO:0048146)|substrate adhesion-dependent cell spreading (GO:0034446)|Type II pneumocyte differentiation (GO:0060510)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	poly(A) RNA binding (GO:0044822)			breast(3)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(12)|lung(26)|ovary(3)|prostate(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(4)|urinary_tract(1)	69	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		GATCCTGCTCCGAGCCTGTTA	0.502																																																0													154	129	138					3																	172025192		2203	4300	6503	SO:0001819	synonymous_variant	64778			AF543840	CCDS3217.1	3q26.31	2013-11-06			ENSG00000075420	ENSG00000075420		"Fibronectin type III domain containing"	24670	protein-coding gene	gene with protein product		611909				15527760	Standard	NM_022763		Approved	FAD104, DKFZp762K137, FLJ23399, PRO4979, YVTM2421	uc003fhy.3	Q53EP0	OTTHUMG00000156761	ENST00000336824.4:c.1101C>G	3.37:g.172025192C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RB36|B3KXR8|D3DNQ7|Q5U5T8|Q6PIJ3|Q6UXG1|Q6UXZ5|Q8IXB2|Q8NBU7|Q96D78|Q9H5I7|Q9NSQ8	Silent	SNP	ENST00000336824.4	37	CCDS3217.1																																																																																				0.502	FNDC3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345618.2	NM_022763		G	172025192	C	G	172025192	2	3	620	1	0	0	0	0	0	0	0	1	5977	639	23	4		4	FNDC3B	3	172025192	Silent	SNP	C	TCGA-J7-6720-01A-11D-2136-08	119756094	172025192	25997238	14	38018										
PPP2R2C	5522	hgsc.bcm.edu	37	chr4	6325301	6325301	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	catgcggaagaagttgttgtAggccccggtcatgatgacgc	14	9	1	3			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr4:6325301A>G	ENST00000382599.4	-	9	1288	c.1072T>C	c.(1072-1074)Tac>Cac	p.Y358H	PPP2R2C_ENST00000515571.1_Missense_Mutation_p.Y341H|PPP2R2C_ENST00000506140.1_Missense_Mutation_p.Y351H|PPP2R2C_ENST00000507294.1_Missense_Mutation_p.Y351H|PPP2R2C_ENST00000335585.5_Missense_Mutation_p.Y358H			Q9Y2T4	2ABG_HUMAN	protein phosphatase 2, regulatory subunit B, gamma	358					regulation of catalytic activity (GO:0050790)|signal transduction (GO:0007165)	protein phosphatase type 2A complex (GO:0000159)	protein phosphatase type 2A regulator activity (GO:0008601)			central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(7)|lung(7)|ovary(2)|prostate(2)|skin(3)|urinary_tract(1)	28						AAGTTGTTGTAGGCCCCGGTC	0.612																																																0													49	43	45					4																	6325301		2201	4300	6501	SO:0001583	missense	5522			AF086924	CCDS3388.1, CCDS56304.1, CCDS56305.1, CCDS3387.1	4p16.1	2013-01-10	2010-04-14		ENSG00000074211	ENSG00000074211	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatase 2, regulatory subunits", "WD repeat domain containing"	9306	protein-coding gene	gene with protein product	"PP2A subunit B isoform gamma"	605997	"protein phosphatase 2 (formerly 2A), regulatory subunit B (PR 52), gamma isoform", "protein phosphatase 2 (formerly 2A), regulatory subunit B, gamma isoform"			10574460, 10945473	Standard	NM_020416		Approved	PR52, IMYPNO, MGC33570, PR55G	uc003gja.3	Q9Y2T4	OTTHUMG00000090445	ENST00000382599.4:c.1072T>C	4.37:g.6325301A>G	ENSP00000372042:p.Tyr358His	Somatic		WXS	Illumina HiSeq	Phase_I	A8MSY7|B7Z3Y1|Q7Z4V7|Q8NEC4|Q9H3G7	Missense_Mutation	SNP	ENST00000382599.4	37		.	.	.	.	.	.	.	.	.	.	A	20.8	4.055114	0.75960	.	.	ENSG00000074211	ENST00000335585;ENST00000506140;ENST00000515571;ENST00000382599;ENST00000507294	T;T;T;T;T	0.29142	1.58;1.58;1.58;1.58;1.58	4.31	4.31	0.51392	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.61350	0.2340	M	0.91038	3.17	0.80722	D	1	D;D;D;D	0.69078	0.997;0.997;0.997;0.968	D;D;D;D	0.70935	0.971;0.971;0.971;0.96	T	0.71328	-0.4626	10	0.87932	D	0	-55.5355	12.7994	0.57578	1.0:0.0:0.0:0.0	.	351;358;341;358	B7Z3Y1;Q9Y2T4;Q9Y2T4-3;Q9Y2T4-2	.;2ABG_HUMAN;.;.	H	358;351;341;358;351	ENSP00000335083:Y358H;ENSP00000423649:Y351H;ENSP00000422374:Y341H;ENSP00000372042:Y358H;ENSP00000425247:Y351H	ENSP00000335083:Y358H	Y	-	1	0	PPP2R2C	6376202	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	8.018000	0.88722	1.803000	0.52742	0.454000	0.30748	TAC		0.612	PPP2R2C-001	NOVEL	overlapping_uORF|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000206889.2	NM_181876		G	6325301	A	G	6325301	3	3	620	1	0	0	0	0	1	0	0	0	12396	420	15	3	275	3	PPP2R2C	4	6325301	Missense_Mutation	SNP	A	TCGA-J7-6720-01A-11D-2136-08		6325301	184828975	15	38019										
TBC1D14	57533	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	7026865	7026865	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	gctgttcgaggacatcctgaCcaagatggacttcattcaca	9	11	2	2			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr4:7026865C>A	ENST00000409757.4	+	13	2016	c.1892C>A	c.(1891-1893)aCc>aAc	p.T631N	TBC1D14_ENST00000451522.2_Missense_Mutation_p.T351N|TBC1D14_ENST00000446947.2_Missense_Mutation_p.T278N|TBC1D14_ENST00000448507.1_Missense_Mutation_p.T631N|TBC1D14_ENST00000410031.1_Missense_Mutation_p.T403N	NM_020773.2	NP_065824.2	Q9P2M4	TBC14_HUMAN	TBC1 domain family, member 14	631					negative regulation of autophagy (GO:0010507)|recycling endosome to Golgi transport (GO:0071955)|regulation of autophagic vacuole assembly (GO:2000785)	autophagic vacuole (GO:0005776)|Golgi apparatus (GO:0005794)|recycling endosome (GO:0055037)	protein kinase binding (GO:0019901)|Rab GTPase activator activity (GO:0005097)			breast(1)|endometrium(5)|large_intestine(4)|lung(9)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	22						GACATCCTGACCAAGATGGAC	0.612																																																0													145	117	127					4																	7026865		2203	4300	6503	SO:0001583	missense	57533			AL833868	CCDS3394.2, CCDS47006.1, CCDS75104.1	4p16.1	2008-01-22			ENSG00000132405	ENSG00000132405			29246	protein-coding gene	gene with protein product		614855				10718198	Standard	NM_020773		Approved	KIAA1322	uc003gjs.4	Q9P2M4	OTTHUMG00000090493	ENST00000409757.4:c.1892C>A	4.37:g.7026865C>A	ENSP00000386921:p.Thr631Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B9A6L5|D3DVT4|E9PAZ6|Q8IW15|Q8NDK3	Missense_Mutation	SNP	ENST00000409757.4	37	CCDS3394.2	.	.	.	.	.	.	.	.	.	.	C	14.93	2.681226	0.47886	.	.	ENSG00000132405	ENST00000448507;ENST00000409757;ENST00000410031;ENST00000451522;ENST00000446947	T;T;T;T;T	0.22134	1.97;1.97;1.97;1.97;1.97	5.15	5.15	0.70609	Rab-GAP/TBC domain (2);	0.162937	0.53938	D	0.000045	T	0.19287	0.0463	N	0.08118	0	0.58432	D	0.999994	B;B;B	0.34372	0.451;0.02;0.187	B;B;B	0.43838	0.242;0.104;0.433	T	0.25082	-1.0142	10	0.66056	D	0.02	-12.687	17.6366	0.88124	0.0:1.0:0.0:0.0	.	278;351;631	F5GXK4;Q9P2M4-2;Q9P2M4	.;.;TBC14_HUMAN	N	631;631;403;351;278	ENSP00000404041:T631N;ENSP00000386921:T631N;ENSP00000386343:T403N;ENSP00000388886:T351N;ENSP00000405875:T278N	ENSP00000386921:T631N	T	+	2	0	TBC1D14	7077766	0.256000	0.24012	1.000000	0.80357	0.994000	0.84299	1.090000	0.30902	2.409000	0.81822	0.561000	0.74099	ACC		0.612	TBC1D14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206981.3	NM_020773		A	7026865	C	A	7026865	3	1	620	1	0	0	0	0	1	0	0	0	15615	507	18	4	1945	4	TBC1D14	4	7026865	Missense_Mutation	SNP	C	TCGA-J7-6720-01A-11D-2136-08	701564	7026865	184127411	16	38020										
CEP135	9662	hgsc.bcm.edu	37	chr4	56832006	56832006	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	agtgcttgagactgctgataAagagcttggggaagcaaagg	15	5	0	3			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr4:56832006A>G	ENST00000257287.4	+	8	1149	c.1025A>G	c.(1024-1026)aAa>aGa	p.K342R		NM_025009.4	NP_079285.2	Q66GS9	CP135_HUMAN	centrosomal protein 135kDa	342					centriole replication (GO:0007099)|centriole-centriole cohesion (GO:0010457)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)	centriole (GO:0005814)|centrosome (GO:0005813)|cytosol (GO:0005829)	protein C-terminus binding (GO:0008022)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(9)|lung(26)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	50	Glioma(25;0.08)|all_neural(26;0.101)					ACTGCTGATAAAGAGCTTGGG	0.373																																																0													93	93	93					4																	56832006		2203	4300	6503	SO:0001583	missense	9662			AB014535	CCDS33986.1	4q12	2014-02-20	2005-12-02	2005-12-02	ENSG00000174799	ENSG00000174799			29086	protein-coding gene	gene with protein product		611423	"KIAA0635", "centrosomal protein 4"	KIAA0635, CEP4		9734811, 14654843	Standard	NM_025009		Approved	FLJ13621	uc003hbi.4	Q66GS9	OTTHUMG00000160748	ENST00000257287.4:c.1025A>G	4.37:g.56832006A>G	ENSP00000257287:p.Lys342Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMY0|O75130|Q58F25|Q9H8H7	Missense_Mutation	SNP	ENST00000257287.4	37	CCDS33986.1	.	.	.	.	.	.	.	.	.	.	A	12.94	2.089853	0.36855	.	.	ENSG00000174799	ENST00000257287	T	0.41065	1.01	5.67	4.45	0.53987	.	0.451804	0.27486	N	0.019155	T	0.36908	0.0984	M	0.67953	2.075	0.25303	N	0.989268	B	0.11235	0.004	B	0.13407	0.009	T	0.30238	-0.9985	10	0.16896	T	0.51	.	7.8125	0.29239	0.7915:0.138:0.0705:0.0	.	342	Q66GS9	CP135_HUMAN	R	342	ENSP00000257287:K342R	ENSP00000257287:K342R	K	+	2	0	CEP135	56526763	1.000000	0.71417	1.000000	0.80357	0.929000	0.56500	2.985000	0.49362	0.948000	0.37687	0.377000	0.23210	AAA		0.373	CEP135-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362092.2	NM_025009		G	56832006	A	G	56832006	3	3	620	1	0	0	0	0	1	0	0	0	3249	14	1	3	1051	3	CEP135	4	56832006	Missense_Mutation	SNP	A	TCGA-J7-6720-01A-11D-2136-08	49805141	56832006	134322270	17	38021										
PDLIM5	10611	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	95496927	95496927	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	atcaccatcgtctgccttcaCcccagcccatgcgaccacct	5	20	3	0	rs200734812		TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr4:95496927C>G	ENST00000317968.4	+	5	588	c.452C>G	c.(451-453)aCc>aGc	p.T151S	PDLIM5_ENST00000437932.1_Intron|PDLIM5_ENST00000538141.1_Intron|PDLIM5_ENST00000542407.1_Missense_Mutation_p.T29S|PDLIM5_ENST00000514743.1_Intron|PDLIM5_ENST00000380180.3_Intron|PDLIM5_ENST00000318007.5_Intron|PDLIM5_ENST00000450793.1_Intron|PDLIM5_ENST00000508216.1_Intron	NM_001256428.1|NM_006457.4	NP_001243357.1|NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5	151					regulation of dendritic spine morphogenesis (GO:0061001)|regulation of synapse assembly (GO:0051963)	actin cytoskeleton (GO:0015629)|cell junction (GO:0030054)|cytosol (GO:0005829)|membrane (GO:0016020)|neuron projection (GO:0043005)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)	actin binding (GO:0003779)|actinin binding (GO:0042805)|protein kinase C binding (GO:0005080)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(5)|lung(3)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	22		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		TCTGCCTTCACCCCAGCCCAT	0.542																																																0													332	281	299					4																	95496927		2203	4300	6503	SO:0001583	missense	10611			AF061258	CCDS3641.1, CCDS47103.1, CCDS47104.1, CCDS58915.1, CCDS58916.1, CCDS58917.1, CCDS75166.1	4q22	2006-04-12			ENSG00000163110	ENSG00000163110			17468	protein-coding gene	gene with protein product		605904				15346770	Standard	NM_006457		Approved	LIM, Enh	uc003htk.4	Q96HC4	OTTHUMG00000130973	ENST00000317968.4:c.452C>G	4.37:g.95496927C>G	ENSP00000321746:p.Thr151Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6F9|D6RB78|E9PBF5|O60705|Q56VN4|Q5UW38|Q8WVK0	Missense_Mutation	SNP	ENST00000317968.4	37	CCDS3641.1	.	.	.	.	.	.	.	.	.	.	C	15.94	2.981800	0.53827	.	.	ENSG00000163110	ENST00000317968;ENST00000542407	T;T	0.58940	0.72;0.3	5.25	5.25	0.73442	.	0.106561	0.64402	D	0.000004	T	0.72566	0.3476	M	0.65975	2.015	0.80722	D	1	D	0.69078	0.997	D	0.70716	0.97	T	0.66337	-0.5949	10	0.13470	T	0.59	.	19.2104	0.93751	0.0:1.0:0.0:0.0	.	151	Q96HC4	PDLI5_HUMAN	S	151;29	ENSP00000321746:T151S;ENSP00000442187:T29S	ENSP00000321746:T151S	T	+	2	0	PDLIM5	95715950	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	4.993000	0.63895	2.590000	0.87494	0.655000	0.94253	ACC		0.542	PDLIM5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253586.1			G	95496927	C	G	95496927	3	3	620	1	0	0	0	0	1	0	0	0	11690	507	18	4	466	4	PDLIM5	4	95496927	Missense_Mutation	SNP	C	TCGA-J7-6720-01A-11D-2136-08	38664921	95496927	95657349	18	38022										
SH3RF1	57630	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	170028338	170028338	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	ggcgccagaaagcaacttcaAcaaaccctttttttctttct	5	12	3	1			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr4:170028338A>G	ENST00000284637.9	-	11	2499	c.2158T>C	c.(2158-2160)Ttg>Ctg	p.L720L		NM_020870.3	NP_065921.2	Q7Z6J0	SH3R1_HUMAN	SH3 domain containing ring finger 1	720					negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|protein ubiquitination (GO:0016567)|regulation of JNK cascade (GO:0046328)	cell projection (GO:0042995)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)	ligase activity (GO:0016874)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|endometrium(2)|kidney(2)|large_intestine(4)|lung(10)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(4)	31		Prostate(90;0.00267)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)		AGCAACTTCAACAAACCCTTT	0.468																																																0													26	30	29					4																	170028338		2196	4289	6485	SO:0001819	synonymous_variant	57630			BC033203	CCDS34099.1	4q32.3	2013-01-09	2006-02-13	2006-02-13	ENSG00000154447	ENSG00000154447		"RING-type (C3HC4) zinc fingers"	17650	protein-coding gene	gene with protein product	"plenty of SH3 domains"		"SH3 multiple domains 2"	SH3MD2		9482736	Standard	NM_020870		Approved	POSH, RNF142, KIAA1494	uc003isa.1	Q7Z6J0	OTTHUMG00000161010	ENST00000284637.9:c.2158T>C	4.37:g.170028338A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q05BT2|Q8IW46|Q9HAM2|Q9P234	Silent	SNP	ENST00000284637.9	37	CCDS34099.1																																																																																				0.468	SH3RF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363382.3	NM_020870		G	170028338	A	G	170028338	2	3	620	1	0	0	0	0	0	0	0	1	14271	40	2	3		3	SH3RF1	4	170028338	Silent	SNP	A	TCGA-J7-6720-01A-11D-2136-08	74531411	170028338	21125938	19	38023										
MYO10	4651	hgsc.bcm.edu	37	chr5	16877717	16877717	+	Splice_Site	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	gctgcagggacttgttctcaCctgaccatagtctgtccgga	11	12	2	1			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr5:16877717C>G	ENST00000513610.1	-	2	575		c.e2+1		MYO10_ENST00000507288.1_Splice_Site	NM_012334.2	NP_036466.2	Q9HD67	MYO10_HUMAN	myosin X						ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|cytoskeleton-dependent intracellular transport (GO:0030705)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|metabolic process (GO:0008152)|positive regulation of cell-cell adhesion (GO:0022409)|regulation of cell shape (GO:0008360)|regulation of filopodium assembly (GO:0051489)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|filopodium tip (GO:0032433)|myosin complex (GO:0016459)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)	actin filament binding (GO:0051015)|actin-dependent ATPase activity (GO:0030898)|ATP binding (GO:0005524)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|plus-end directed microfilament motor activity (GO:0060002)|spectrin binding (GO:0030507)			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(19)|lung(28)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	86						CTTGTTCTCACCTGACCATAG	0.527																																																0													98	100	99					5																	16877717		2024	4184	6208	SO:0001630	splice_region_variant	4651			AF247457	CCDS54834.1	5p15.1-p14.3	2013-01-10				ENSG00000145555		"Myosins / Myosin superfamily : Class X", "Pleckstrin homology (PH) domain containing"	7593	protein-coding gene	gene with protein product		601481				8884266	Standard	NM_012334		Approved	KIAA0799	uc003jft.4	Q9HD67		ENST00000513610.1:c.120+1G>C	5.37:g.16877717C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A7E2D1|O94893|Q8IVX5|Q9NYM7|Q9P110|Q9P111|Q9UHF6	Splice_Site	SNP	ENST00000513610.1	37	CCDS54834.1	.	.	.	.	.	.	.	.	.	.	C	16.26	3.073138	0.55646	.	.	ENSG00000145555	ENST00000513610;ENST00000513882;ENST00000507288	.	.	.	5.12	5.12	0.69794	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.0413	0.80683	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	MYO10	16930717	1.000000	0.71417	1.000000	0.80357	0.626000	0.37791	5.214000	0.65236	2.379000	0.81126	0.561000	0.74099	.		0.527	MYO10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366167.1	NM_012334	Intron	G	16877717	C	G	16877717	5	3	620	1	0	0	0	0	0	0	1	0	10069	521	18	4	6215	4	MYO10	5	16877717	Splice_Site	SNP	C	TCGA-J7-6720-01A-11D-2136-08		16877717	164037543	20	38024										
GIN1	54826	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	102444326	102444335	+	Frame_Shift_Del	DEL	AGTGTAGTTG	AGTGTAGTTG	-													0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	tgccacttctctcacttggcAgtgtagttgaatgatattca					rs371302288		TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	AGTGTAGTTG	AGTGTAGTTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr5:102444326_102444335delAGTGTAGTTG	ENST00000399004.2	-	2	171_180	c.77_86delCAACTACACT	c.(76-87)tcaactacactgfs	p.STTL26fs	GIN1_ENST00000508629.1_Frame_Shift_Del_p.STTL26fs	NM_017676.2	NP_060146.2	Q9NXP7	GIN1_HUMAN	gypsy retrotransposon integrase 1	26					DNA integration (GO:0015074)		nucleic acid binding (GO:0003676)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(8)|ovary(1)|prostate(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	25		all_cancers(142;3.23e-07)|all_epithelial(76;3.64e-10)|Prostate(80;0.00914)|Ovarian(225;0.0139)|Lung NSC(167;0.0212)|Colorectal(57;0.0249)|all_lung(232;0.0283)		Epithelial(69;3.57e-14)|COAD - Colon adenocarcinoma(37;0.00794)		CTCACTTGGCAGTGTAGTTGAATGATATTC	0.343																																																0																																										SO:0001589	frameshift_variant	54826			BC015325	CCDS43349.1	5q21.1	2008-02-11	2007-06-13	2007-06-13		ENSG00000145723			25959	protein-coding gene	gene with protein product	"gypsy integrase 1", "Ty3/Gypsy integrase 1"		"zinc finger, H2C2 domain containing"	ZH2C2		11470852	Standard	NM_017676		Approved	FLJ20125, GIN-1, TGIN1	uc003koa.1	Q9NXP7		ENST00000399004.2:c.77_86delCAACTACACT	5.37:g.102444326_102444335delAGTGTAGTTG	ENSP00000381970:p.Ser26fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RXF7|B4DIV4|Q6AI03|Q96BR2	Frame_Shift_Del	DEL	ENST00000399004.2	37	CCDS43349.1																																																																																				0.343	GIN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370478.3	NM_017676		-	102444335	AGTGTAGTTG	-	102444326	7	5	620	1	0	1	0	1	0	0	0	0	6393	188	7	0	1510	0	GIN1	5	102444326	Frame_Shift_Del	DEL	AGTGTAGTTG	TCGA-J7-6720-01A-11D-2136-08	85566609	102444326	78470934	21	38025										
LOX	4015	hgsc.bcm.edu	37	chr5	121413456	121413456	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	gcgttggctgcaccagggacGgcggcgcccgggtcccggcg	19	15	0	0	rs2278226	byFrequency	TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr5:121413456G>C	ENST00000231004.4	-	1	524	c.225C>G	c.(223-225)gcC>gcG	p.A75A	LOX_ENST00000513319.1_5'Flank	NM_001178102.1|NM_002317.5	NP_001171573.1|NP_002308.2	P28300	LYOX_HUMAN	lysyl oxidase	75					blood vessel development (GO:0001568)|cellular protein modification process (GO:0006464)|collagen fibril organization (GO:0030199)|elastic fiber assembly (GO:0048251)|extracellular matrix organization (GO:0030198)|lung development (GO:0030324)|response to drug (GO:0042493)|response to steroid hormone (GO:0048545)|wound healing (GO:0042060)	collagen trimer (GO:0005581)|extracellular region (GO:0005576)|nucleus (GO:0005634)|proteinaceous extracellular matrix (GO:0005578)	copper ion binding (GO:0005507)|protein-lysine 6-oxidase activity (GO:0004720)			endometrium(1)|lung(6)|prostate(1)	8		all_cancers(142;0.0124)|Prostate(80;0.0322)|Ovarian(225;0.0814)|Breast(839;0.143)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;2.14e-11)|OV - Ovarian serous cystadenocarcinoma(64;7.87e-10)|all cancers(49;2.49e-09)|COAD - Colon adenocarcinoma(49;0.02)		CACCAGGGACGGCGGCGCCCG	0.721													G|||	46	0.0091853	0.0008	0.0101	5008	,	,		11081	0.0367		0.0	False		,,,				2504	0.001															0													3	4	4					5																	121413456		1880	3759	5639	SO:0001819	synonymous_variant	4015				CCDS4129.1	5q23.3-q31.2	2008-02-05			ENSG00000113083	ENSG00000113083	1.4.3.13		6664	protein-coding gene	gene with protein product		153455				1685472	Standard	NM_002317		Approved		uc003ksu.3	P28300	OTTHUMG00000128914	ENST00000231004.4:c.225C>G	5.37:g.121413456G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R5Q3|Q5FWF0	Silent	SNP	ENST00000231004.4	37	CCDS4129.1																																																																																				0.721	LOX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250887.2			C	121413456	G	C	121413456	2	2	620	1	0	0	0	0	0	0	0	1	8905	1103	39	4		4	LOX	5	121413456	Silent	SNP	G	TCGA-J7-6720-01A-11D-2136-08	18969130	121413456	59501804	22	38026										
HINT1	3094	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	130500845	130500845	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	ttgcggatgatcttcccaaaGatcgtgtcgccaccaggccg	11	13	1	2			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr5:130500845G>T	ENST00000304043.5	-	1	333	c.54C>A	c.(52-54)atC>atA	p.I18I	HINT1_ENST00000508488.1_Silent_p.I18I|HINT1_ENST00000506207.1_Intron|HINT1_ENST00000513012.1_Silent_p.I18I|HINT1_ENST00000506908.1_Silent_p.I18I	NM_005340.6	NP_005331.1	P49773	HINT1_HUMAN	histidine triad nucleotide binding protein 1	18	HIT. {ECO:0000255|PROSITE- ProRule:PRU00464}.				intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|purine ribonucleotide catabolic process (GO:0009154)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|histone deacetylase complex (GO:0000118)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	hydrolase activity (GO:0016787)|nucleotide binding (GO:0000166)|protein kinase C binding (GO:0005080)			endometrium(1)|large_intestine(1)|lung(3)	5		all_cancers(142;0.0452)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		Adenosine monophosphate(DB00131)	TCTTCCCAAAGATCGTGTCGC	0.587																																																0													83	74	77					5																	130500845		2203	4300	6503	SO:0001819	synonymous_variant	3094			BC007090	CCDS4147.1	5q31.2	2010-03-30	2001-11-28	2002-03-08	ENSG00000169567	ENSG00000169567			4912	protein-coding gene	gene with protein product		601314	"histidine triad nucleotide-binding protein"	PRKCNH1, HINT		8812426	Standard	NM_005340		Approved	PKCI-1	uc003kve.4	P49773	OTTHUMG00000128995	ENST00000304043.5:c.54C>A	5.37:g.130500845G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H5W8	Silent	SNP	ENST00000304043.5	37	CCDS4147.1																																																																																				0.587	HINT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250984.1	NM_005340		T	130500845	G	T	130500845	2	4	620	1	0	0	0	0	0	0	0	1	7118	932	33	4		4	HINT1	5	130500845	Silent	SNP	G	TCGA-J7-6720-01A-11D-2136-08	9087389	130500845	50414415	23	38027										
TBC1D9B	23061	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	179326225	179326225	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	acgaaggtggtgatatcttcCtcactgtcgaagatggacag	12	8	2	2			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr5:179326225C>T	ENST00000356834.3	-	3	349	c.312G>A	c.(310-312)gaG>gaA	p.E104E	TBC1D9B_ENST00000355235.3_Silent_p.E104E	NM_198868.2	NP_942568.2	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	104						integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)|Rab GTPase activator activity (GO:0005097)			breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(9)|prostate(2)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	28	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)			TGATATCTTCCTCACTGTCGA	0.478																																																0													186	155	166					5																	179326225		2203	4300	6503	SO:0001819	synonymous_variant	23061			AB014576	CCDS4450.1, CCDS43408.1	5q35.3	2013-01-10			ENSG00000197226	ENSG00000197226		"EF-hand domain containing"	29097	protein-coding gene	gene with protein product						9734811	Standard	NM_198868		Approved	KIAA0676	uc003mlh.3	Q66K14	OTTHUMG00000130911	ENST00000356834.3:c.312G>A	5.37:g.179326225C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DWQ5|D3DWQ6|O75163|Q53EY0|Q6MZI2|Q96H49	Silent	SNP	ENST00000356834.3	37	CCDS43408.1																																																																																				0.478	TBC1D9B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000253501.3	NM_015043		T	179326225	C	T	179326225	2	4	620	1	0	0	0	0	0	0	0	1	15640	680	24	2		2	TBC1D9B	5	179326225	Silent	SNP	C	TCGA-J7-6720-01A-11D-2136-08	48825380	179326225	1589035	24	38028										
CDKAL1	54901	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	20846322	20846322	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	acaggtgtctcaatgcttgtAcctactgcaaaactaaacac	6	11	1	0			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr6:20846322A>G	ENST00000378610.1	+	7	665	c.655A>G	c.(655-657)Acc>Gcc	p.T219A	CDKAL1_ENST00000378624.4_Missense_Mutation_p.T149A|CDKAL1_ENST00000274695.4_Missense_Mutation_p.T219A			Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein 1-like 1	219					maintenance of translational fidelity (GO:1990145)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|rough endoplasmic reticulum (GO:0005791)	4 iron, 4 sulfur cluster binding (GO:0051539)|metal ion binding (GO:0046872)|N6-threonylcarbomyladenosine methylthiotransferase activity (GO:0035598)			breast(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(14)|ovary(2)|stomach(1)	29	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)			CAATGCTTGTACCTACTGCAA	0.343																																																0													75	75	75					6																	20846322		2203	4300	6503	SO:0001583	missense	54901			AK000349	CCDS4546.1	6p22.2	2008-02-05			ENSG00000145996	ENSG00000145996			21050	protein-coding gene	gene with protein product		611259					Standard	NM_017774		Approved	FLJ20342	uc003ndd.2	Q5VV42	OTTHUMG00000014340	ENST00000378610.1:c.655A>G	6.37:g.20846322A>G	ENSP00000367873:p.Thr219Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6S0|Q6P385|Q6ZR27|Q9NXB3	Missense_Mutation	SNP	ENST00000378610.1	37	CCDS4546.1	.	.	.	.	.	.	.	.	.	.	A	25.2	4.612488	0.87258	.	.	ENSG00000145996	ENST00000274695;ENST00000378624;ENST00000378610	T;T;T	0.24151	1.87;1.87;1.87	5.81	5.81	0.92471	Elongator protein 3/MiaB/NifB (1);Radical SAM, alpha/beta horseshoe (1);Methylthiotransferase, conserved site (1);Radical SAM (1);	0.000000	0.85682	D	0.000000	T	0.42607	0.1210	M	0.66378	2.025	0.80722	D	1	D;D	0.89917	1.0;0.998	D;D	0.97110	1.0;0.951	T	0.42378	-0.9455	10	0.87932	D	0	.	16.1616	0.81721	1.0:0.0:0.0:0.0	.	149;219	Q5VV42-2;Q5VV42	.;CDKAL_HUMAN	A	219;149;219	ENSP00000274695:T219A;ENSP00000367889:T149A;ENSP00000367873:T219A	ENSP00000274695:T219A	T	+	1	0	CDKAL1	20954301	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	6.971000	0.76105	2.218000	0.71995	0.377000	0.23210	ACC		0.343	CDKAL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039986.1	NM_017774		G	20846322	A	G	20846322	3	3	620	1	0	0	0	0	1	0	0	0	3154	391	14	3	681	3	CDKAL1	6	20846322	Missense_Mutation	SNP	A	TCGA-J7-6720-01A-11D-2136-08		20846322	150268745	25	38029										
TJAP1	93643	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	43472653	43472653	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	gccggagtctctactgctcaAttcagcccagtcaggcagcg	11	14	4	0			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr6:43472653A>G	ENST00000372445.5	+	11	1110	c.734A>G	c.(733-735)aAt>aGt	p.N245S	TJAP1_ENST00000483640.1_3'UTR|TJAP1_ENST00000372452.1_Missense_Mutation_p.N235S|TJAP1_ENST00000372449.1_Missense_Mutation_p.N245S|TJAP1_ENST00000259751.1_Missense_Mutation_p.N235S|TJAP1_ENST00000438588.2_Missense_Mutation_p.N245S|TJAP1_ENST00000372444.2_Missense_Mutation_p.N235S|TJAP1_ENST00000436109.2_Missense_Mutation_p.N235S	NM_001146016.1	NP_001139488.1	Q5JTD0	TJAP1_HUMAN	tight junction associated protein 1 (peripheral)	245					Golgi organization (GO:0007030)	endosome (GO:0005768)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|tight junction (GO:0005923)|trans-Golgi network (GO:0005802)				cervix(1)|endometrium(4)|kidney(1)|large_intestine(1)|lung(11)|ovary(1)|urinary_tract(2)	21	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0122)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CTACTGCTCAATTCAGCCCAG	0.637																																																0													88	89	88					6																	43472653		2203	4300	6503	SO:0001583	missense	93643			AK024269	CCDS4898.1, CCDS55004.1	6p21.1	2008-02-05	2005-07-05	2005-07-05	ENSG00000137221	ENSG00000137221			17949	protein-coding gene	gene with protein product		612658	"tight junction protein 4 (peripheral)"	TJP4		11602598	Standard	NM_001146016		Approved	PILT	uc011dvh.1	Q5JTD0	OTTHUMG00000014736	ENST00000372445.5:c.734A>G	6.37:g.43472653A>G	ENSP00000361522:p.Asn245Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q05BH9|Q5JTD1|Q5JWW1|Q68DB2|Q6P2P3|Q9H7V7	Missense_Mutation	SNP	ENST00000372445.5	37	CCDS55004.1	.	.	.	.	.	.	.	.	.	.	A	18.71	3.681816	0.68042	.	.	ENSG00000137221	ENST00000372444;ENST00000372445;ENST00000436109;ENST00000259751;ENST00000372454;ENST00000372452;ENST00000372449;ENST00000438588	T;T;T;T;T;T;T	0.20881	2.04;2.04;2.04;2.04;2.04;2.04;2.04	5.13	5.13	0.70059	.	0.000000	0.85682	D	0.000000	T	0.21022	0.0506	L	0.31664	0.95	0.58432	D	0.999999	D;D	0.89917	0.998;1.0	D;D	0.83275	0.987;0.996	T	0.05037	-1.0910	10	0.20046	T	0.44	-53.1615	14.9298	0.70906	1.0:0.0:0.0:0.0	.	245;235	Q5JTD0;Q5JTD0-2	TJAP1_HUMAN;.	S	235;245;235;235;235;235;245;245	ENSP00000361521:N235S;ENSP00000361522:N245S;ENSP00000407080:N235S;ENSP00000259751:N235S;ENSP00000361530:N235S;ENSP00000361527:N245S;ENSP00000408769:N245S	ENSP00000259751:N235S	N	+	2	0	TJAP1	43580631	1.000000	0.71417	0.995000	0.50966	0.806000	0.45545	8.900000	0.92551	1.912000	0.55364	0.459000	0.35465	AAT		0.637	TJAP1-202	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000040629.1	NM_080604		G	43472653	A	G	43472653	3	3	620	1	0	0	0	0	1	0	0	0	15940	101	4	3	764	3	TJAP1	6	43472653	Missense_Mutation	SNP	A	TCGA-J7-6720-01A-11D-2136-08	22626331	43472653	127642414	26	38030										
ZDHHC14	79683	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	158093775	158093785	+	Frame_Shift_Del	DEL	TTCAGAGCACC	TTCAGAGCACC	-													0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	gtgcgaccaagaccagtgcaTtcagagcaccaaattcgttt							TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	TTCAGAGCACC	TTCAGAGCACC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr6:158093775_158093785delTTCAGAGCACC	ENST00000359775.5	+	9	1977_1987	c.1088_1098delTTCAGAGCACC	c.(1087-1098)attcagagcaccfs	p.IQST363fs	ZDHHC14_ENST00000341375.8_3'UTR|ZDHHC14_ENST00000414563.2_Intron			Q8IZN3	ZDH14_HUMAN	zinc finger, DHHC-type containing 14	363					protein palmitoylation (GO:0018345)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	palmitoyltransferase activity (GO:0016409)|protein-cysteine S-palmitoyltransferase activity (GO:0019706)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(2)|large_intestine(4)|lung(8)|ovary(1)|skin(1)	17		Breast(66;0.00586)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.9e-17)|BRCA - Breast invasive adenocarcinoma(81;5.8e-05)		GACCAGTGCATTCAGAGCACCAAATTCGTTT	0.664																																																0																																										SO:0001589	frameshift_variant	79683			AF542388	CCDS5252.1, CCDS47510.1	6q25.3	2008-05-02			ENSG00000175048	ENSG00000175048		"Zinc fingers, DHHC-type"	20341	protein-coding gene	gene with protein product							Standard	NM_024630		Approved	FLJ20984, NEW1CP	uc003qqt.3	Q8IZN3	OTTHUMG00000015896	ENST00000359775.5:c.1088_1098delTTCAGAGCACC	6.37:g.158093775_158093785delTTCAGAGCACC	ENSP00000352821:p.Ile363fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDB7|Q5JS07|Q5JS08|Q6PHS4|Q8IZN2|Q9H7F1	Frame_Shift_Del	DEL	ENST00000359775.5	37	CCDS5252.1																																																																																				0.664	ZDHHC14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042841.2	NM_153746		-	158093785	TTCAGAGCACC	-	158093775	7	5	620	1	0	1	0	1	0	0	0	0	17616	1493	52	0	1122	0	ZDHHC14	6	158093775	Frame_Shift_Del	DEL	TTCAGAGCACC	TCGA-J7-6720-01A-11D-2136-08	114621122	158093775	13021292	27	38031										
THBS2	7058	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	169642014	169642014	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	tggtgacatgcggacccaggCgcagcgtctctgtgttctca	13	12	2	1			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr6:169642014C>G	ENST00000366787.3	-	6	983	c.734G>C	c.(733-735)cGc>cCc	p.R245P	XXyac-YX65C7_A.2_ENST00000444188.1_RNA	NM_003247.2	NP_003238.2	P35442	TSP2_HUMAN	thrombospondin 2	245					cell adhesion (GO:0007155)|negative regulation of angiogenesis (GO:0016525)|positive regulation of synapse assembly (GO:0051965)	basement membrane (GO:0005604)|extracellular region (GO:0005576)|platelet alpha granule (GO:0031091)	calcium ion binding (GO:0005509)|heparin binding (GO:0008201)			NS(3)|biliary_tract(1)|endometrium(8)|kidney(3)|large_intestine(23)|liver(1)|lung(56)|ovary(6)|prostate(1)|skin(3)|stomach(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	111		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)		CGGACCCAGGCGCAGCGTCTC	0.647																																					Esophageal Squamous(91;219 1934 18562 44706)											0													50	45	47					6																	169642014		2202	4300	6502	SO:0001583	missense	7058				CCDS34574.1	6q27	2008-07-28			ENSG00000186340	ENSG00000186340			11786	protein-coding gene	gene with protein product		188061				18455130	Standard	NM_003247		Approved	TSP2	uc003qwt.3	P35442	OTTHUMG00000045408	ENST00000366787.3:c.734G>C	6.37:g.169642014C>G	ENSP00000355751:p.Arg245Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8N1|A7E232|Q5RI52	Missense_Mutation	SNP	ENST00000366787.3	37	CCDS34574.1	.	.	.	.	.	.	.	.	.	.	C	6.539	0.467797	0.12402	.	.	ENSG00000186340	ENST00000366787	T	0.80994	-1.44	4.75	0.174	0.15040	.	0.371764	0.19184	U	0.120604	T	0.47525	0.1450	N	0.22421	0.69	0.22412	N	0.999129	B	0.26845	0.161	B	0.25506	0.061	T	0.44922	-0.9296	10	0.46703	T	0.11	-42.5921	9.6944	0.40147	0.0:0.2486:0.0:0.7513	.	245	P35442	TSP2_HUMAN	P	245	ENSP00000355751:R245P	ENSP00000355751:R245P	R	-	2	0	THBS2	169383939	0.998000	0.40836	0.177000	0.23020	0.004000	0.04260	0.342000	0.19926	0.182000	0.20032	-0.658000	0.03865	CGC		0.647	THBS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000105439.1	NM_003247		G	169642014	C	G	169642014	3	3	620	1	0	0	0	0	1	0	0	0	15866	768	27	4	2856	4	THBS2	6	169642014	Missense_Mutation	SNP	C	TCGA-J7-6720-01A-11D-2136-08	11548239	169642014	1473053	28	38032										
PURB	5814	broad.mit.edu	37	chr7	44924131	44924131	+	Frame_Shift_Del	DEL	A	A	-													0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	catctcatccgcataccggcAaaaggcgcctccgaacttgc							TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr7:44924131delA	ENST00000395699.2	-	1	829	c.817delT	c.(817-819)tgcfs	p.C273fs	MIR4657_ENST00000578157.1_RNA|RP4-673M15.1_ENST00000608450.1_RNA	NM_033224.3	NP_150093.1	Q96QR8	PURB_HUMAN	purine-rich element binding protein B	273					negative regulation of transcription, DNA-templated (GO:0045892)|regulation of myeloid cell differentiation (GO:0045637)|transcription, DNA-templated (GO:0006351)	DNA replication factor A complex (GO:0005662)|nucleus (GO:0005634)	double-stranded DNA binding (GO:0003690)|mRNA binding (GO:0003729)|poly(A) RNA binding (GO:0044822)|sequence-specific DNA binding transcription factor activity (GO:0003700)|single-stranded DNA binding (GO:0003697)|transcription factor binding (GO:0008134)			large_intestine(2)|lung(3)|prostate(1)|skin(1)	7						GCATACCGGCAAAAGGCGCCT	0.582																																																0													95	104	101					7																	44924131		2203	4300	6503	SO:0001589	frameshift_variant	5814				CCDS5499.1	7p13	2008-07-18			ENSG00000146676	ENSG00000146676			9702	protein-coding gene	gene with protein product		608887				1448097	Standard	NM_033224		Approved	PURBETA	uc003tme.3	Q96QR8	OTTHUMG00000023578	ENST00000395699.2:c.817delT	7.37:g.44924131delA	ENSP00000379051:p.Cys273fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2L7	Frame_Shift_Del	DEL	ENST00000395699.2	37	CCDS5499.1																																																																																				0.582	PURB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251332.2	NM_033224		-	44924131	A	-	44924131	7	5	620	1	0	1	0	1	0	0	0	0	12841	130	5	0	125	0	PURB	7	44924131	Frame_Shift_Del	DEL	A	TCGA-J7-6720-01A-11D-2136-08		44924131	114214532	29	38033										
ZNF679	168417	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	63726979	63726979	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	aattcatactggagagaaacCctacacatgtgaagaatgtg	9	7	1	3			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr7:63726979C>G	ENST00000421025.1	+	5	1237	c.968C>G	c.(967-969)cCc>cGc	p.P323R	ZNF679_ENST00000255746.4_Missense_Mutation_p.P323R	NM_001159524.1|NM_153363.2	NP_001152996.1|NP_699194.2	Q8IYX0	ZN679_HUMAN	zinc finger protein 679	323					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(2)|kidney(3)|lung(11)|skin(1)|stomach(1)	18						GGAGAGAAACCCTACACATGT	0.398																																																0													26	27	27					7																	63726979		692	1591	2283	SO:0001583	missense	168417			BC033523	CCDS47592.1	7q11.21	2013-01-08			ENSG00000197123	ENSG00000197123		"Zinc fingers, C2H2-type", "-"	28650	protein-coding gene	gene with protein product	"hypothetical protein MGC42415"					12477932	Standard	NM_153363		Approved	MGC42415	uc003tsx.3	Q8IYX0	OTTHUMG00000156486	ENST00000421025.1:c.968C>G	7.37:g.63726979C>G	ENSP00000416809:p.Pro323Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000421025.1	37	CCDS47592.1	.	.	.	.	.	.	.	.	.	.	C	11.23	1.576050	0.28092	.	.	ENSG00000197123	ENST00000421025;ENST00000255746	T;T	0.17213	2.29;2.29	0.81	0.81	0.18732	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.28962	0.0719	L	0.46819	1.47	0.37644	D	0.922144	D	0.89917	1.0	D	0.97110	1.0	T	0.11641	-1.0579	9	0.72032	D	0.01	.	6.9761	0.24677	0.0:1.0:0.0:0.0	.	323	Q8IYX0	ZN679_HUMAN	R	323	ENSP00000416809:P323R;ENSP00000255746:P323R	ENSP00000255746:P323R	P	+	2	0	ZNF679	63364414	0.775000	0.28604	0.437000	0.26809	0.440000	0.31957	3.755000	0.55197	0.181000	0.19994	0.184000	0.17185	CCC		0.398	ZNF679-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344317.2	NM_153363		G	63726979	C	G	63726979	3	3	620	1	0	0	0	0	1	0	0	0	18098	623	22	4	982	4	ZNF679	7	63726979	Missense_Mutation	SNP	C	TCGA-J7-6720-01A-11D-2136-08	18802848	63726979	95411684	30	38034										
KCTD7	154881	hgsc.bcm.edu	37	chr7	66094155	66094155	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	ggagccggccacgccgacggCcacgcaggcggggcacgcgc	18	17	0	0			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr7:66094155C>G	ENST00000275532.3	+	1	288	c.104C>G	c.(103-105)gCc>gGc	p.A35G	KCTD7_ENST00000443322.1_Missense_Mutation_p.A35G	NM_001167961.2|NM_153033.4	NP_001161433.1|NP_694578.1	Q96MP8	KCTD7_HUMAN	potassium channel tetramerization domain containing 7	35					cell death (GO:0008219)|protein homooligomerization (GO:0051260)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)				central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(5)|ovary(2)|urinary_tract(1)	16						ACGCCGACGGCCACGCAGGCG	0.761																																																0													11	12	11					7																	66094155		2154	4203	6357	SO:0001583	missense	154881			AK056631	CCDS5534.1, CCDS55117.1	7q11.21	2014-09-17	2013-06-20		ENSG00000243335	ENSG00000243335			21957	protein-coding gene	gene with protein product		611725	"potassium channel tetramerisation domain containing 7"			12477932	Standard	NM_001167961		Approved	FLJ32069, EPM3, CLN14	uc003tve.3	Q96MP8	OTTHUMG00000129543	ENST00000275532.3:c.104C>G	7.37:g.66094155C>G	ENSP00000275532:p.Ala35Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2M4|Q8IVR0	Missense_Mutation	SNP	ENST00000275532.3	37	CCDS5534.1	.	.	.	.	.	.	.	.	.	.	N	25.8	4.676338	0.88445	.	.	ENSG00000243335	ENST00000275532;ENST00000443322;ENST00000449064	T;T	0.65178	-0.14;-0.14	3.93	3.93	0.45458	.	.	.	.	.	T	0.47619	0.1455	N	0.19112	0.55	0.80722	D	1	B	0.25105	0.118	B	0.24006	0.05	T	0.44711	-0.9310	9	0.33940	T	0.23	.	15.2139	0.73247	0.0:1.0:0.0:0.0	.	35	Q96MP8	KCTD7_HUMAN	G	35	ENSP00000275532:A35G;ENSP00000411624:A35G	ENSP00000275532:A35G	A	+	2	0	KCTD7	65731590	1.000000	0.71417	1.000000	0.80357	0.499000	0.33736	5.266000	0.65525	2.056000	0.61249	0.154000	0.16183	GCC		0.761	KCTD7-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000251733.2	NM_153033		G	66094155	C	G	66094155	3	3	620	1	0	0	0	0	1	0	0	0	8121	739	26	4	106	4	KCTD7	7	66094155	Missense_Mutation	SNP	C	TCGA-J7-6720-01A-11D-2136-08	2367176	66094155	93044508	31	38035										
RELN	5649	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	103292216	103292216	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	accaggagcgcccatggttgGtagaaaattccaagctgaca	11	10	0	2			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr7:103292216G>C	ENST00000428762.1	-	15	1943	c.1784C>G	c.(1783-1785)aCc>aGc	p.T595S	RELN_ENST00000424685.2_Missense_Mutation_p.T595S|RELN_ENST00000343529.5_Missense_Mutation_p.T595S	NM_005045.3	NP_005036.2	P78509	RELN_HUMAN	reelin	595					associative learning (GO:0008306)|axon guidance (GO:0007411)|brain development (GO:0007420)|cell adhesion (GO:0007155)|cell morphogenesis involved in differentiation (GO:0000904)|central nervous system development (GO:0007417)|cerebral cortex tangential migration (GO:0021800)|dendrite development (GO:0016358)|glial cell differentiation (GO:0010001)|hippocampus development (GO:0021766)|lateral motor column neuron migration (GO:0097477)|layer formation in cerebral cortex (GO:0021819)|long-term memory (GO:0007616)|N-methyl-D-aspartate receptor clustering (GO:0097114)|neuron migration (GO:0001764)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:2000969)|positive regulation of CREB transcription factor activity (GO:0032793)|positive regulation of dendritic spine morphogenesis (GO:0061003)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of lateral motor column neuron migration (GO:1902078)|positive regulation of long-term synaptic potentiation (GO:1900273)|positive regulation of neuron projection development (GO:0010976)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of protein tyrosine kinase activity (GO:0061098)|positive regulation of small GTPase mediated signal transduction (GO:0051057)|positive regulation of synapse maturation (GO:0090129)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|positive regulation of TOR signaling (GO:0032008)|postsynaptic density protein 95 clustering (GO:0097119)|receptor localization to synapse (GO:0097120)|reelin-mediated signaling pathway (GO:0038026)|regulation of behavior (GO:0050795)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)|regulation of synaptic transmission (GO:0050804)|response to pain (GO:0048265)|spinal cord patterning (GO:0021511)|ventral spinal cord development (GO:0021517)	cytoplasm (GO:0005737)|dendrite (GO:0030425)|extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)	lipoprotein particle receptor binding (GO:0070325)|metal ion binding (GO:0046872)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|serine-type peptidase activity (GO:0008236)|very-low-density lipoprotein particle receptor binding (GO:0070326)			NS(3)|breast(8)|central_nervous_system(3)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(4)|kidney(6)|large_intestine(43)|lung(101)|ovary(9)|pancreas(2)|prostate(4)|skin(14)|stomach(2)|upper_aerodigestive_tract(12)|urinary_tract(2)	227				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCCATGGTTGGTAGAAAATTC	0.463																																					NSCLC(146;835 1944 15585 22231 52158)											0													64	52	56					7																	103292216		2203	4300	6503	SO:0001583	missense	5649				CCDS34722.1, CCDS47680.1	7q22	2008-07-18			ENSG00000189056	ENSG00000189056			9957	protein-coding gene	gene with protein product		600514				9049633	Standard	NM_005045		Approved	RL, PRO1598	uc010liz.3	P78509	OTTHUMG00000157247	ENST00000428762.1:c.1784C>G	7.37:g.103292216G>C	ENSP00000392423:p.Thr595Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A4D0P9|A4D0Q0|Q86UJ0|Q86UJ8|Q8NDV0|Q9UDQ2	Missense_Mutation	SNP	ENST00000428762.1	37	CCDS47680.1	.	.	.	.	.	.	.	.	.	.	G	26.8	4.770518	0.90108	.	.	ENSG00000189056	ENST00000428762;ENST00000343529;ENST00000424685;ENST00000448171	T;T;T	0.25085	1.82;1.82;1.82	5.8	5.8	0.92144	.	0.000000	0.85682	D	0.000000	T	0.47801	0.1465	L	0.46157	1.445	0.58432	D	0.999998	D;D	0.76494	0.999;0.982	D;D	0.77557	0.99;0.952	T	0.34279	-0.9835	10	0.66056	D	0.02	.	20.0693	0.97712	0.0:0.0:1.0:0.0	.	595;595	P78509-2;P78509	.;RELN_HUMAN	S	595	ENSP00000392423:T595S;ENSP00000345694:T595S;ENSP00000388446:T595S	ENSP00000345694:T595S	T	-	2	0	RELN	103079452	1.000000	0.71417	1.000000	0.80357	0.895000	0.52256	9.476000	0.97823	2.758000	0.94735	0.563000	0.77884	ACC		0.463	RELN-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000348148.1	NM_005045		C	103292216	G	C	103292216	3	2	620	1	0	0	0	0	1	0	0	0	13233	1261	44	4	8802	4	RELN	7	103292216	Missense_Mutation	SNP	G	TCGA-J7-6720-01A-11D-2136-08	37198061	103292216	55846447	32	38036										
JPH1	56704	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	75227665	75227665	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	aagttgagcacgaaaccgccGcgggtgccggccgggctgtc	16	13	0	1			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr8:75227665G>A	ENST00000342232.4	-	2	610	c.570C>T	c.(568-570)cgC>cgT	p.R190R		NM_020647.2	NP_065698.1	Q9HDC5	JPH1_HUMAN	junctophilin 1	190					calcium ion transport into cytosol (GO:0060402)|muscle organ development (GO:0007517)|regulation of ryanodine-sensitive calcium-release channel activity (GO:0060314)	integral component of membrane (GO:0016021)|junctional membrane complex (GO:0030314)|junctional sarcoplasmic reticulum membrane (GO:0014701)|plasma membrane (GO:0005886)|Z disc (GO:0030018)	structural constituent of muscle (GO:0008307)			endometrium(4)|kidney(1)|large_intestine(4)|lung(10)|ovary(2)|skin(1)|upper_aerodigestive_tract(2)	24	Breast(64;0.00576)		BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.0728)|all cancers(69;0.176)			CGAAACCGCCGCGGGTGCCGG	0.682																																																0													14	18	16					8																	75227665		2161	4223	6384	SO:0001819	synonymous_variant	56704			AB042634	CCDS6217.1	8q21	2008-07-03			ENSG00000104369	ENSG00000104369			14201	protein-coding gene	gene with protein product		605266				10891348, 10949023	Standard	XM_005251273		Approved	JP-1	uc003yae.3	Q9HDC5	OTTHUMG00000164524	ENST00000342232.4:c.570C>T	8.37:g.75227665G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RTZ0	Silent	SNP	ENST00000342232.4	37	CCDS6217.1																																																																																				0.682	JPH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379102.1			A	75227665	G	A	75227665	2	1	620	1	0	0	0	0	0	0	0	1	7967	1074	38	1		1	JPH1	8	75227665	Silent	SNP	G	TCGA-J7-6720-01A-11D-2136-08		75227665	71136357	33	38037										
FAM135B	51059	broad.mit.edu;bcgsc.ca	37	chr8	139180285	139180285	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	cagggacagctggctgtgcgTctgtatcctggggagcacat	15	10	1	0			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr8:139180285T>C	ENST00000395297.1	-	12	1281	c.1111A>G	c.(1111-1113)Acg>Gcg	p.T371A		NM_015912.3	NP_056996.2	Q49AJ0	F135B_HUMAN	family with sequence similarity 135, member B	371										NS(3)|breast(9)|endometrium(21)|kidney(5)|large_intestine(28)|liver(1)|lung(135)|ovary(9)|pancreas(1)|prostate(7)|skin(9)|stomach(1)|upper_aerodigestive_tract(8)|urinary_tract(1)	238	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)			TGGCTGTGCGTCTGTATCCTG	0.587										HNSCC(54;0.14)																																						0													84	91	89					8																	139180285		2108	4234	6342	SO:0001583	missense	51059			AB196635	CCDS6375.2	8q24.23	2008-11-05			ENSG00000147724	ENSG00000147724			28029	protein-coding gene	gene with protein product						8619474, 9110174	Standard	NM_015912		Approved	C8ORFK32	uc003yuy.3	Q49AJ0	OTTHUMG00000149864	ENST00000395297.1:c.1111A>G	8.37:g.139180285T>C	ENSP00000378710:p.Thr371Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDB3|O95879|Q2WGJ7|Q3KP46	Missense_Mutation	SNP	ENST00000395297.1	37	CCDS6375.2	.	.	.	.	.	.	.	.	.	.	T	12.75	2.032813	0.35893	.	.	ENSG00000147724	ENST00000395297	D	0.88201	-2.35	5.66	3.16	0.36331	.	0.611892	0.17190	N	0.183555	D	0.85852	0.5793	M	0.63428	1.95	0.27501	N	0.951993	B	0.19817	0.039	B	0.16722	0.016	T	0.75422	-0.3323	10	0.38643	T	0.18	-6.9288	10.1146	0.42583	0.2674:0.0:0.0:0.7326	.	371	Q49AJ0	F135B_HUMAN	A	371	ENSP00000378710:T371A	ENSP00000276737:T371A	T	-	1	0	FAM135B	139249467	0.993000	0.37304	0.963000	0.40424	0.275000	0.26752	2.562000	0.45914	0.433000	0.26313	0.533000	0.62120	ACG		0.587	FAM135B-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313590.3	NM_015912		C	139180285	T	C	139180285	3	2	620	1	0	0	0	0	1	0	0	0	5453	1667	58	3	3145	3	FAM135B	8	139180285	Missense_Mutation	SNP	T	TCGA-J7-6720-01A-11D-2136-08	63952620	139180285	7183737	34	38038										
CYP11B1	1584	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	143956729	143956729	+	Splice_Site	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	acagacccacagggtagagcCtggaggtgggggcatccata	15	10	0	2			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr8:143956729C>G	ENST00000292427.4	-	7	1154		c.e7-1		CYP11B1_ENST00000517471.1_Splice_Site|CYP11B1_ENST00000377675.3_Splice_Site	NM_000497.3	NP_000488.3	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B, polypeptide 1						aldosterone biosynthetic process (GO:0032342)|C21-steroid hormone biosynthetic process (GO:0006700)|cellular response to hormone stimulus (GO:0032870)|cellular response to potassium ion (GO:0035865)|cortisol biosynthetic process (GO:0034651)|glucocorticoid biosynthetic process (GO:0006704)|glucose homeostasis (GO:0042593)|immune response (GO:0006955)|mineralocorticoid biosynthetic process (GO:0006705)|regulation of blood pressure (GO:0008217)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|sterol metabolic process (GO:0016125)|xenobiotic metabolic process (GO:0006805)	mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	heme binding (GO:0020037)|iron ion binding (GO:0005506)|steroid 11-beta-monooxygenase activity (GO:0004507)			central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(10)|lung(36)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)	67	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Cimetidine(DB00501)|Clotrimazole(DB00257)|Etomidate(DB00292)|Fluconazole(DB00196)|Hydrocortisone(DB00741)|Ketoconazole(DB01026)|Metoclopramide(DB01233)|Metyrapone(DB01011)|Miconazole(DB01110)|Mitotane(DB00648)|Phenytoin(DB00252)|Spironolactone(DB00421)	AGGGTAGAGCCTGGAGGTGGG	0.602									Familial Hyperaldosteronism type I																																							0													39	43	41					8																	143956729		2203	4300	6503	SO:0001630	splice_region_variant	1584	Familial Cancer Database	Dexamethasone Sensitive Aldosteronism, FH-I	D16153	CCDS6392.1, CCDS34953.1	8q21-q22	2013-06-19	2003-01-14		ENSG00000160882	ENSG00000160882	1.14.15.4	"Cytochrome P450s"	2591	protein-coding gene	gene with protein product	"steroid 11-beta-monooxygenase"	610613	"cytochrome P450, subfamily XIB (steroid 11-beta-hydroxylase), polypeptide 1"	CYP11B		1303253	Standard	XM_005250807		Approved	P450C11, FHI, CPN1	uc003yxi.3	P15538	OTTHUMG00000164637	ENST00000292427.4:c.1122-1G>C	8.37:g.143956729C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q14095|Q4VAQ8|Q4VAQ9|Q9UML2	Splice_Site	SNP	ENST00000292427.4	37	CCDS6392.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	13.78|13.78	2.338412|2.338412	0.41398|0.41398	.|.	.|.	ENSG00000160882|ENSG00000160882	ENST00000292427;ENST00000517471;ENST00000377675|ENST00000519285	.|D	.|0.97480	.|-4.4	3.12|3.12	3.12|3.12	0.35913|0.35913	.|.	.|.	.|.	.|.	.|.	.|D	.|0.96836	.|0.8967	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	.|D	.|0.95728	.|0.8772	.|5	.|.	.|.	.|.	.|.	12.4777|12.4777	0.55823|0.55823	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|.	.|.	.|.	.|T	-1|52	.|ENSP00000430144:R52T	.|.	.|R	-|-	.|2	.|0	CYP11B1|CYP11B1	143953731|143953731	1.000000|1.000000	0.71417|0.71417	0.985000|0.985000	0.45067|0.45067	0.194000|0.194000	0.23727|0.23727	4.120000|4.120000	0.57897|0.57897	2.055000|2.055000	0.61198|0.61198	0.555000|0.555000	0.69702|0.69702	.|AGG		0.602	CYP11B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379475.2		Intron	G	143956729	C	G	143956729	5	3	620	1	0	0	0	0	0	0	1	0	4147	695	24	4	402	4	CYP11B1	8	143956729	Splice_Site	SNP	C	TCGA-J7-6720-01A-11D-2136-08	4776444	143956729	2407293	35	38039										
COL13A1	1305	hgsc.bcm.edu	37	chr10	71582134	71582134	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	tccttgtacagaaatggaagCtccactcaaggaggcgccgg	12	11	1	1	rs200528707	byFrequency	TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr10:71582134C>T	ENST00000398978.3	+	2	796	c.304C>T	c.(304-306)Ctc>Ttc	p.L102F	COL13A1_ENST00000398966.3_Missense_Mutation_p.L102F|COL13A1_ENST00000520133.1_Missense_Mutation_p.L102F|COL13A1_ENST00000517713.1_Missense_Mutation_p.L102F|COL13A1_ENST00000520267.1_Missense_Mutation_p.L102F|COL13A1_ENST00000398972.3_Missense_Mutation_p.L102F|COL13A1_ENST00000354547.3_Missense_Mutation_p.L102F|COL13A1_ENST00000356340.3_Missense_Mutation_p.L102F|COL13A1_ENST00000398973.3_Missense_Mutation_p.L102F|COL13A1_ENST00000398969.3_Missense_Mutation_p.L102F|COL13A1_ENST00000398971.3_Missense_Mutation_p.L102F|COL13A1_ENST00000522165.1_Missense_Mutation_p.L102F|COL13A1_ENST00000398968.3_Missense_Mutation_p.L102F|COL13A1_ENST00000398964.3_Missense_Mutation_p.L102F|COL13A1_ENST00000398974.3_Missense_Mutation_p.L102F|COL13A1_ENST00000357811.3_Missense_Mutation_p.L102F	NM_001130103.1	NP_001123575.1			collagen, type XIII, alpha 1											endometrium(5)|large_intestine(3)|lung(15)|ovary(1)|prostate(2)|skin(1)|urinary_tract(1)	28						GAAATGGAAGCTCCACTCAAG	0.572													C|||	20	0.00399361	0.0	0.0	5008	,	,		17666	0.0169		0.0	False		,,,				2504	0.0031															0													27	29	28					10																	71582134		1905	4130	6035	SO:0001583	missense	1305			AJ293624	CCDS44419.1, CCDS44423.1, CCDS44424.1, CCDS44425.1, CCDS44427.1, CCDS44428.1, CCDS44423.2, CCDS44424.2, CCDS44425.2, CCDS44427.2, CCDS44428.2	10q22	2013-01-16			ENSG00000197467	ENSG00000197467		"Collagens"	2190	protein-coding gene	gene with protein product		120350					Standard	NM_001130103		Approved		uc001jql.3	Q5TAT6	OTTHUMG00000018394	ENST00000398978.3:c.304C>T	10.37:g.71582134C>T	ENSP00000381949:p.Leu102Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000398978.3	37	CCDS44419.1	3	0.0013736263736263737	0	0.0	0	0.0	3	0.005244755244755245	0	0.0	C	11.24	1.578987	0.28180	.	.	ENSG00000197467	ENST00000398974;ENST00000398971;ENST00000398968;ENST00000398966;ENST00000398964;ENST00000398969;ENST00000356340;ENST00000398972;ENST00000398973;ENST00000398978;ENST00000354547;ENST00000357811;ENST00000520267;ENST00000517713;ENST00000522165;ENST00000520133	D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D	0.92595	-2.83;-2.86;-2.91;-2.94;-2.99;-2.85;-3.07;-2.86;-2.98;-2.99;-2.93;-2.94;-2.78;-2.84;-2.92;-2.79	5.56	4.65	0.58169	.	0.192295	0.25938	N	0.027325	T	0.72811	0.3507	N	0.02158	-0.66	0.24671	N	0.993418	B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B	0.21606	0.004;0.058;0.002;0.001;0.001;0.001;0.001;0.001;0.001;0.003;0.002;0.002;0.016;0.002;0.002;0.002;0.001;0.002	B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B	0.20184	0.005;0.028;0.011;0.005;0.005;0.005;0.005;0.005;0.005;0.005;0.011;0.011;0.011;0.011;0.011;0.011;0.005;0.011	T	0.67665	-0.5612	10	0.40728	T	0.16	-2.2423	9.5332	0.39207	0.0:0.9015:0.0:0.0985	.	102;102;102;102;102;102;102;102;102;102;102;102;102;102;102;102;102;102	Q5TAT6;Q5TAT6-5;Q5TAT6-6;E9PEG9;E7ES55;E7ES51;E7ES47;E7ES46;E7ES49;E7EWL8;Q5TAT6-3;Q5TAT6-4;E7EX21;Q5TAT6-7;Q5TAT6-8;Q5TAT6-2;E7ES56;G5E987	CODA1_HUMAN;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.	F	102	ENSP00000381946:L102F;ENSP00000381943:L102F;ENSP00000381940:L102F;ENSP00000381938:L102F;ENSP00000381936:L102F;ENSP00000381941:L102F;ENSP00000348695:L102F;ENSP00000381944:L102F;ENSP00000381945:L102F;ENSP00000381949:L102F;ENSP00000346553:L102F;ENSP00000350463:L102F;ENSP00000428057:L102F;ENSP00000430061:L102F;ENSP00000428342:L102F;ENSP00000430173:L102F	ENSP00000346553:L102F	L	+	1	0	COL13A1	71252140	0.998000	0.40836	1.000000	0.80357	0.992000	0.81027	0.275000	0.18698	1.327000	0.45338	0.561000	0.74099	CTC		0.572	COL13A1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048468.1	NM_005203		T	71582134	C	T	71582134	3	4	620	1	0	0	0	0	1	0	0	0	3672	797	28	2	310	2	COL13A1	10	71582134	Missense_Mutation	SNP	C	TCGA-J7-6720-01A-11D-2136-08		71582134	63952613	36	38040										
SFRP5	6425	hgsc.bcm.edu	37	chr10	99531063	99531063	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	acggcggcggcggcgctaccTggaggcgcggtggcgggcag	22	12	0	0			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr10:99531063T>C	ENST00000266066.3	-	1	646	c.528A>G	c.(526-528)ccA>ccG	p.P176P		NM_003015.3	NP_003006.2	Q5T4F7	SFRP5_HUMAN	secreted frizzled-related protein 5	176					anatomical structure morphogenesis (GO:0009653)|apoptotic process (GO:0006915)|brain development (GO:0007420)|cell differentiation (GO:0030154)|convergent extension involved in axis elongation (GO:0060028)|digestive tract morphogenesis (GO:0048546)|establishment or maintenance of cell polarity (GO:0007163)|gonad development (GO:0008406)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of catenin import into nucleus (GO:0035414)|negative regulation of cell proliferation (GO:0008285)|negative regulation of JUN kinase activity (GO:0043508)|negative regulation of planar cell polarity pathway involved in axis elongation (GO:2000041)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of Wnt signaling pathway involved in digestive tract morphogenesis (GO:2000057)|planar cell polarity pathway involved in neural tube closure (GO:0090179)|post-anal tail morphogenesis (GO:0036342)|signal transduction (GO:0007165)|vasculature development (GO:0001944)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|plasma membrane (GO:0005886)	PDZ domain binding (GO:0030165)|Wnt-activated receptor activity (GO:0042813)|Wnt-protein binding (GO:0017147)			large_intestine(1)|lung(4)	5		Colorectal(252;0.234)		Epithelial(162;4.98e-10)|all cancers(201;3.58e-08)		CGGCGCTACCTGGAGGCGCGG	0.721																																																0													6	6	6					10																	99531063		1857	3775	5632	SO:0001630	splice_region_variant	6425			AF017988	CCDS7472.1	10q24	2008-07-10			ENSG00000120057	ENSG00000120057		"Secreted frizzled-related proteins"	10779	protein-coding gene	gene with protein product	"secreted apoptosis related protein 3"	604158				9391078	Standard	NM_003015		Approved	SARP3	uc001kor.4	Q5T4F7	OTTHUMG00000018866	ENST00000266066.3:c.529+1A>G	10.37:g.99531063T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O14780|Q86TH7	Silent	SNP	ENST00000266066.3	37	CCDS7472.1																																																																																				0.721	SFRP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049742.1	NM_003015	Silent	C	99531063	T	C	99531063	5	2	620	1	0	0	0	0	0	0	1	0	14177	1594	55	3	437	3	SFRP5	10	99531063	Splice_Site	SNP	T	TCGA-J7-6720-01A-11D-2136-08	27948929	99531063	36003684	37	38041										
ING4	51147	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	6761549	6761549	+	Frame_Shift_Del	DEL	C	C	-													0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	catcagaggggtggacactgCcaaaggtcactgagggcatc							TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr12:6761549delC	ENST00000396807.4	-	6	574	c.536delG	c.(535-537)ggcfs	p.G179fs	ING4_ENST00000486287.1_Intron|ING4_ENST00000446105.2_Frame_Shift_Del_p.G175fs|ING4_ENST00000444704.2_Frame_Shift_Del_p.G155fs|ING4_ENST00000341550.4_Frame_Shift_Del_p.G178fs|ING4_ENST00000412586.2_Frame_Shift_Del_p.G176fs|ING4_ENST00000423703.2_Intron	NM_001127582.1|NM_001127585.1|NM_001127586.1|NM_016162.3	NP_001121054.1|NP_001121057.1|NP_001121058.1|NP_057246.2	Q9UNL4	ING4_HUMAN	inhibitor of growth family, member 4	179					apoptotic process (GO:0006915)|cell cycle arrest (GO:0007050)|chromatin organization (GO:0006325)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA replication (GO:0006260)|histone H3 acetylation (GO:0043966)|histone H4-K12 acetylation (GO:0043983)|histone H4-K5 acetylation (GO:0043981)|histone H4-K8 acetylation (GO:0043982)|negative regulation of cell proliferation (GO:0008285)|negative regulation of growth (GO:0045926)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of apoptotic process (GO:0043065)|protein acetylation (GO:0006473)	histone acetyltransferase complex (GO:0000123)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	methylated histone binding (GO:0035064)|transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)			central_nervous_system(3)|endometrium(1)|large_intestine(2)|lung(3)|ovary(1)	10						GTGGACACTGCCAAAGGTCAC	0.512																																																0													186	161	169					12																	6761549		2203	4300	6503	SO:0001589	frameshift_variant	51147			AF063594	CCDS8555.1, CCDS44812.1, CCDS44813.1, CCDS44814.1, CCDS44815.1, CCDS44816.1	12p13.32	2013-01-28			ENSG00000111653	ENSG00000111653		"Zinc fingers, PHD-type"	19423	protein-coding gene	gene with protein product		608524				12750254	Standard	NM_001127582		Approved	p29ING4, my036	uc001qpw.4	Q9UNL4	OTTHUMG00000141274	ENST00000396807.4:c.536delG	12.37:g.6761549delC	ENSP00000380024:p.Gly179fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4KYM4|A4KYM6|D3DUR8|Q0EF62|Q0EF63|Q4VBQ6|Q96E15|Q9H3J0	Frame_Shift_Del	DEL	ENST00000396807.4	37	CCDS44813.1																																																																																				0.512	ING4-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000280467.2	NM_198287		-	6761549	C	-	6761549	7	5	620	1	0	1	0	1	0	0	0	0	7745	739	26	0	225	0	ING4	12	6761549	Frame_Shift_Del	DEL	C	TCGA-J7-6720-01A-11D-2136-08		6761549	127090346	38	38042										
FGD4	121512	bcgsc.ca	37	chr12	32777967	32777968	+	In_Frame_Ins	INS	-	-	TTTTTT													0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	tgaaaccttcagaaatgcaaINSttgcaaaggataatgacatt							TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr12:32777967_32777968insTTTTTT	ENST00000427716.2	+	13	2024_2025	c.1600_1601insTTTTTT	c.(1600-1602)att>aTTTTTTtt	p.534_535insFF	FGD4_ENST00000531134.1_In_Frame_Ins_p.619_620insFF|FGD4_ENST00000266482.3_In_Frame_Ins_p.286_287insFF|FGD4_ENST00000525053.1_In_Frame_Ins_p.646_647insFF|FGD4_ENST00000534526.2_In_Frame_Ins_p.671_672insFF|FGD4_ENST00000546442.1_In_Frame_Ins_p.441_442insFF	NM_139241.2	NP_640334.2	Q96M96	FGD4_HUMAN	FYVE, RhoGEF and PH domain containing 4	534					actin cytoskeleton organization (GO:0030036)|apoptotic signaling pathway (GO:0097190)|cytoskeleton organization (GO:0007010)|filopodium assembly (GO:0046847)|lamellipodium assembly (GO:0030032)|microspike assembly (GO:0030035)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of Cdc42 GTPase activity (GO:0043088)|regulation of cell shape (GO:0008360)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|filopodium (GO:0030175)|Golgi apparatus (GO:0005794)|lamellipodium (GO:0030027)|ruffle (GO:0001726)	guanyl-nucleotide exchange factor activity (GO:0005085)|metal ion binding (GO:0046872)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|small GTPase binding (GO:0031267)			breast(1)|central_nervous_system(1)|cervix(1)|kidney(2)|large_intestine(5)|lung(7)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(3)	27	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					CAGAAATGCAATTGCAAAGGAT	0.347																																																0																																										SO:0001652	inframe_insertion	121512			AK057294	CCDS8727.1	12p11.1	2014-09-17	2004-08-24		ENSG00000139132	ENSG00000139132		"Zinc fingers, FYVE domain containing", "Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	19125	protein-coding gene	gene with protein product		611104	"FGD1 family, member 4"			11527409	Standard	NM_139241		Approved	FRABP, frabin, ZFYVE6, CMT4H	uc001rkz.3	Q96M96	OTTHUMG00000137374	Exception_encountered	12.37:g.32777967_32777968insTTTTTT	ENSP00000394487:p.Ile534_Ala535insPhePhe	Somatic		WXS	Illumina HiSeq	Phase_1	Q6ULS2|Q8TCP6	In_Frame_Ins	INS	ENST00000427716.2	37	CCDS8727.1																																																																																				0.347	FGD4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268017.1	NM_139241		TTTTTT	32777968	-	TTTTTT	32777967	7	5	620	1	0	1	1	0	0	0	0	0	5842	101	4	0	1642	0	FGD4	12	32777967	In_Frame_Ins	INS	-	TCGA-J7-6720-01A-11D-2136-08	26016418	32777967	101073928	39	38043										
TCTN2	79867	bcgsc.ca	37	chr12	124171453	124171453	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	cgtgtttggaggagacgtcaAtcctccttttgatcagctct	10	10	3	2	rs139927033		TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr12:124171453A>G	ENST00000303372.5	+	6	763	c.635A>G	c.(634-636)aAt>aGt	p.N212S	TCTN2_ENST00000426174.2_Missense_Mutation_p.N211S	NM_001143850.2|NM_024809.4	NP_001137322.1|NP_079085.2	Q96GX1	TECT2_HUMAN	tectonic family member 2	212					cilium assembly (GO:0042384)|cilium morphogenesis (GO:0060271)|smoothened signaling pathway (GO:0007224)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|integral component of membrane (GO:0016021)|TCTN-B9D complex (GO:0036038)				breast(2)|cervix(2)|endometrium(4)|kidney(1)|large_intestine(4)|lung(12)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	30	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000163)|Epithelial(86;0.000502)|all cancers(50;0.00451)		GGAGACGTCAATCCTCCTTTT	0.532																																																0								A	SER/ASN,SER/ASN	0,4406		0,0,2203	280	232	248		632,635	-2.3	0	12	dbSNP_134	248	4,8596	3.7+/-12.6	0,4,4296	yes	missense,missense	TCTN2	NM_001143850.1,NM_024809.3	46,46	0,4,6499	GG,GA,AA		0.0465,0.0,0.0308	benign,benign	211/697,212/698	124171453	4,13002	2203	4300	6503	SO:0001583	missense	79867			AK056924	CCDS9253.1, CCDS45007.1	12q24.31	2011-04-12	2007-08-20	2007-08-20	ENSG00000168778	ENSG00000168778		"Tectonic proteins"	25774	protein-coding gene	gene with protein product	"Meckel syndrome, type 8"	613846	"chromosome 12 open reading frame 38"	C12orf38		21462283	Standard	NM_024809		Approved	FLJ12975, TECT2, MKS8	uc001ufp.3	Q96GX1	OTTHUMG00000168700	ENST00000303372.5:c.635A>G	12.37:g.124171453A>G	ENSP00000304941:p.Asn212Ser	Somatic		WXS	Illumina HiSeq	Phase_1	A8K7Y8|B3KPW5|Q9H966	Missense_Mutation	SNP	ENST00000303372.5	37	CCDS9253.1	.	.	.	.	.	.	.	.	.	.	A	0.775	-0.764322	0.02996	0.0	4.65E-4	ENSG00000168778	ENST00000426174;ENST00000303372	D;D	0.82167	-1.58;-1.58	5.65	-2.33	0.06724	Domain of unknown function DUF1619 (1);	0.399950	0.26126	N	0.026184	T	0.62998	0.2474	N	0.21194	0.64	0.09310	N	1	B;B	0.10296	0.003;0.003	B;B	0.11329	0.006;0.006	T	0.52260	-0.8599	10	0.02654	T	1	-39.997	9.4511	0.38727	0.3983:0.1153:0.4864:0.0	.	211;212	A8K7Y8;Q96GX1	.;TECT2_HUMAN	S	211;212	ENSP00000395171:N211S;ENSP00000304941:N212S	ENSP00000304941:N212S	N	+	2	0	TCTN2	122737406	0.000000	0.05858	0.000000	0.03702	0.118000	0.20060	0.134000	0.15932	-0.787000	0.04510	-1.446000	0.01064	AAT		0.532	TCTN2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000400652.1	NM_024809		G	124171453	A	G	124171453	3	3	620	1	0	0	0	0	1	0	0	0	15735	101	4	3	657	3	TCTN2	12	124171453	Missense_Mutation	SNP	A	TCGA-J7-6720-01A-11D-2136-08	91393486	124171453	9680442	40	38044										
DGKH	160851	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	42742631	42742632	+	Missense_Mutation	DNP	GG	GG	AT													0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	ttcttgtttgtggaggcgatGgaagtgtaggttgggttttg							TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr13:42742631_42742632GG>AT	ENST00000337343.4	+	10	1195_1196	c.1174_1175GG>AT	c.(1174-1176)GGa>ATa	p.G392I	DGKH_ENST00000261491.5_Missense_Mutation_p.G392I|DGKH_ENST00000498255.2_3'UTR|DGKH_ENST00000540693.1_Missense_Mutation_p.G392I|DGKH_ENST00000536612.1_Missense_Mutation_p.G256I|DGKH_ENST00000538674.1_Missense_Mutation_p.G147I|DGKH_ENST00000379274.2_Missense_Mutation_p.G256I	NM_178009.3	NP_821077.1	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta	392	DAGKc. {ECO:0000255|PROSITE- ProRule:PRU00783}.				blood coagulation (GO:0007596)|intracellular signal transduction (GO:0035556)|platelet activation (GO:0030168)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|protein oligomerization (GO:0051259)	cytoplasm (GO:0005737)|endosome (GO:0005768)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|diacylglycerol kinase activity (GO:0004143)|metal ion binding (GO:0046872)|NAD+ kinase activity (GO:0003951)			breast(2)|endometrium(3)|kidney(5)|large_intestine(11)|lung(9)|ovary(4)|pancreas(1)|prostate(1)|skin(2)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	43		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		TGGAGGCGATGGAAGTGTAGGT	0.322																																																0																																										SO:0001583	missense	160851			AB078967	CCDS9381.1, CCDS9382.1, CCDS55898.1	13q13.3	2013-01-10			ENSG00000102780	ENSG00000102780		"Sterile alpha motif (SAM) domain containing", "Pleckstrin homology (PH) domain containing"	2854	protein-coding gene	gene with protein product		604071				8702685	Standard	XM_005266271		Approved	DGKeta	uc001uyl.2	Q86XP1	OTTHUMG00000016804	Exception_encountered	13.37:g.42742631_42742632delinsAT	ENSP00000337572:p.Gly392Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2W7|A6NFX7|B4DZ34|Q5VZW0|Q6PI56|Q86XP2|Q8N3N0|Q8N7J9	Missense_Mutation	DNP	ENST00000337343.4	37	CCDS9381.1																																																																																				0.322	DGKH-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044699.2	NM_178009		AT	42742632	GG	AT	42742631	3	1	620	1	0	0	0	0	1	0	0	0	4472	1349	47	2	1212	2	DGKH	13	42742631	Missense_Mutation	DNP	GG	TCGA-J7-6720-01A-11D-2136-08		42742631	72427247	41	38045										
RPGRIP1	57096	hgsc.bcm.edu	37	chr14	21769356	21769356	+	Silent	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	caagtgggacacagacagctCcacacagccggtgcaccggt	12	14	0	1	rs144585562	byFrequency	TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr14:21769356C>G	ENST00000400017.2	+	3	450	c.450C>G	c.(448-450)ctC>ctG	p.L150L	RPGRIP1_ENST00000206660.6_Silent_p.L150L|RPGRIP1_ENST00000556336.1_Silent_p.L150L|RPGRIP1_ENST00000557771.1_Silent_p.L150L	NM_020366.3	NP_065099.3	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator interacting protein 1	150					eye photoreceptor cell development (GO:0042462)|response to stimulus (GO:0050896)|retina development in camera-type eye (GO:0060041)|visual perception (GO:0007601)	axoneme (GO:0005930)|nonmotile primary cilium (GO:0031513)				breast(3)|endometrium(2)|kidney(4)|large_intestine(11)|lung(10)|ovary(4)|pancreas(1)|prostate(3)|stomach(1)	39	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		ACAGACAGCTCCACACAGCCG	0.642													c|||	38	0.00758786	0.0	0.0	5008	,	,		14975	0.0367		0.0	False		,,,				2504	0.001															0								C		1,4023		0,1,2011	14	19	17		450	-4.9	0	14	dbSNP_134	17	0,8274		0,0,4137	no	coding-synonymous	RPGRIP1	NM_020366.3		0,1,6148	GG,GC,CC		0.0,0.0249,0.0081		150/1287	21769356	1,12297	2012	4137	6149	SO:0001819	synonymous_variant	57096			AF227257	CCDS45080.1	14q11.2	2013-06-06			ENSG00000092200	ENSG00000092200			13436	protein-coding gene	gene with protein product		605446		RPGRIP		10958647, 10958648	Standard	NM_020366		Approved	RGI1, LCA6, CORD13	uc001wag.3	Q96KN7	OTTHUMG00000170758	ENST00000400017.2:c.450C>G	14.37:g.21769356C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z2W6|Q8IXV5|Q96QA8|Q9HB94|Q9HB95|Q9HBK6|Q9NR40	Silent	SNP	ENST00000400017.2	37	CCDS45080.1																																																																																				0.642	RPGRIP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410258.1	NM_020366		G	21769356	C	G	21769356	2	3	620	1	0	0	0	0	0	0	0	1	13562	842	30	4		4	RPGRIP1	14	21769356	Silent	SNP	C	TCGA-J7-6720-01A-11D-2136-08		21769356	85580184	42	38046										
HAUS4	54930	hgsc.bcm.edu;bcgsc.ca	37	chr14	23415759	23415759	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	ggtagaccttgctgaactccTggagggcccaccgcttgttc	12	13	0	2			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr14:23415759T>A	ENST00000206474.7	-	10	1319	c.1067A>T	c.(1066-1068)cAg>cTg	p.Q356L	RP11-298I3.5_ENST00000555074.1_Silent_p.P185P|HAUS4_ENST00000397409.4_Missense_Mutation_p.Q230L|HAUS4_ENST00000490506.1_Missense_Mutation_p.Q232L|HAUS4_ENST00000555986.1_Missense_Mutation_p.Q311L|HAUS4_ENST00000554446.1_5'UTR|RP11-298I3.1_ENST00000548819.1_RNA|HAUS4_ENST00000342454.8_Missense_Mutation_p.Q311L|HAUS4_ENST00000555367.1_Missense_Mutation_p.Q311L|RP11-298I3.1_ENST00000548322.1_RNA|HAUS4_ENST00000347758.2_Missense_Mutation_p.Q230L|HAUS4_ENST00000541587.1_Missense_Mutation_p.Q356L			Q9H6D7	HAUS4_HUMAN	HAUS augmin-like complex, subunit 4	356					centrosome organization (GO:0051297)|mitotic nuclear division (GO:0007067)|spindle assembly (GO:0051225)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|HAUS complex (GO:0070652)|microtubule (GO:0005874)				breast(3)|cervix(1)|endometrium(2)|lung(6)|ovary(1)|skin(1)	14						GCTGAACTCCTGGAGGGCCCA	0.562																																																0													71	64	66					14																	23415759		2203	4300	6503	SO:0001583	missense	54930			AK000431	CCDS9580.1, CCDS53886.1	14q11.1	2011-10-24	2009-04-20	2009-04-20	ENSG00000092036	ENSG00000092036		"HAUS augmin-like complex subunits"	20163	protein-coding gene	gene with protein product		613431	"chromosome 14 open reading frame 94"	C14orf94		19427217	Standard	NM_017815		Approved	FLJ20424	uc001wht.3	Q9H6D7	OTTHUMG00000028710	ENST00000206474.7:c.1067A>T	14.37:g.23415759T>A	ENSP00000206474:p.Gln356Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7WP17|D3DS34|Q86T15|Q86T16|Q86U43|Q9NX59	Missense_Mutation	SNP	ENST00000206474.7	37	CCDS9580.1	.	.	.	.	.	.	.	.	.	.	T	13.26	2.185415	0.38609	.	.	ENSG00000092036;ENSG00000092036;ENSG00000092036;ENSG00000092036;ENSG00000092036;ENSG00000092036;ENSG00000092036;ENSG00000092036;ENSG00000259132	ENST00000206474;ENST00000490506;ENST00000541587;ENST00000342454;ENST00000347758;ENST00000397409;ENST00000555367;ENST00000555986;ENST00000555074	.	.	.	5.8	3.46	0.39613	.	0.358284	0.32328	N	0.006245	T	0.33904	0.0879	L	0.50333	1.59	0.30627	N	0.757909	B;P;B	0.42518	0.0;0.782;0.001	B;B;B	0.40256	0.003;0.324;0.004	T	0.40136	-0.9579	9	0.52906	T	0.07	-10.115	5.9375	0.19173	0.1466:0.0786:0.0:0.7748	.	311;230;356	Q9H6D7-4;Q9H6D7-2;Q9H6D7	.;.;HAUS4_HUMAN	L	356;232;356;311;230;230;311;311;133	.	ENSP00000206474:Q356L	Q	-	2	0	RP11-298I3.5;HAUS4	22485599	1.000000	0.71417	1.000000	0.80357	0.718000	0.41266	0.712000	0.25779	1.014000	0.39417	-0.409000	0.06214	CAG		0.562	HAUS4-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071680.3			A	23415759	T	A	23415759	3	1	620	1	0	0	0	0	1	0	0	0	6975	1580	55	5	28	5	HAUS4	14	23415759	Missense_Mutation	SNP	T	TCGA-J7-6720-01A-11D-2136-08	1646403	23415759	83933781	43	38047										
ACIN1	22985	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	23549776	23549776	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	tccatcatctcctctggtttTactctaggtatctcttcccc	4	15	5	0			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr14:23549776T>C	ENST00000262710.1	-	6	1269	c.942A>G	c.(940-942)gtA>gtG	p.V314V	ACIN1_ENST00000555053.1_Silent_p.V314V|ACIN1_ENST00000457657.1_Silent_p.V274V|ACIN1_ENST00000605057.1_Silent_p.V256V|ACIN1_ENST00000555352.1_5'Flank	NM_001164814.1|NM_014977.3	NP_001158286.1|NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	314	Glu-rich.				apoptotic chromosome condensation (GO:0030263)|apoptotic process (GO:0006915)|ATP catabolic process (GO:0006200)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|erythrocyte differentiation (GO:0030218)|mRNA processing (GO:0006397)|negative regulation of mRNA splicing, via spliceosome (GO:0048025)|positive regulation of apoptotic process (GO:0043065)|positive regulation of monocyte differentiation (GO:0045657)|RNA splicing (GO:0008380)	ASAP complex (GO:0061574)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATPase activity (GO:0016887)|enzyme binding (GO:0019899)|nucleic acid binding (GO:0003676)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(6)|kidney(4)|large_intestine(9)|lung(10)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	37	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		CCTCTGGTTTTACTCTAGGTA	0.453																																																0													246	213	224					14																	23549776		2203	4300	6503	SO:0001819	synonymous_variant	22985			AB014570	CCDS9587.1, CCDS53887.1, CCDS53888.1, CCDS53889.1, CCDS55905.1	14q11.2	2008-11-25	2004-03-31	2004-04-01	ENSG00000100813	ENSG00000100813			17066	protein-coding gene	gene with protein product	"functional spliceosome-associated protein 152"	604562	"apoptotic chromatin condensation inducer in the nucleus"	ACINUS		9734811, 10490026	Standard	NM_014977		Approved	KIAA0670, fSAP152	uc001wit.4	Q9UKV3	OTTHUMG00000028716	ENST00000262710.1:c.942A>G	14.37:g.23549776T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RTT4|D3DS45|O75158|Q9UG91|Q9UKV1|Q9UKV2	Silent	SNP	ENST00000262710.1	37	CCDS9587.1																																																																																				0.453	ACIN1-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000071707.3	NM_014977		C	23549776	T	C	23549776	2	2	620	1	0	0	0	0	0	0	0	1	142	1741	61	3		3	ACIN1	14	23549776	Silent	SNP	T	TCGA-J7-6720-01A-11D-2136-08	134017	23549776	83799764	44	38048										
ADCY4	196883	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	24793367	24793367	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	accaggccagacagtgcaggCagccagtgcagcatcttggg	14	12	1	1			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr14:24793367C>A	ENST00000310677.4	-	17	2060	c.1947G>T	c.(1945-1947)ctG>ctT	p.L649L	ADCY4_ENST00000554068.2_Silent_p.L649L|ADCY4_ENST00000418030.2_Silent_p.L649L|ADCY4_ENST00000396747.3_Silent_p.L342L	NM_001198568.1|NM_001198592.1|NM_139247.3	NP_001185497.1|NP_001185521.1|NP_640340.2	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	649					activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|cAMP biosynthetic process (GO:0006171)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|neurotrophin TRK receptor signaling pathway (GO:0048011)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cytoplasm (GO:0005737)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	adenylate cyclase activity (GO:0004016)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)			cervix(1)|endometrium(1)|kidney(1)|large_intestine(10)|lung(13)|ovary(2)|pancreas(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	34				GBM - Glioblastoma multiforme(265;0.0192)		ACAGTGCAGGCAGCCAGTGCA	0.612																																																0													64	63	63					14																	24793367		2203	4300	6503	SO:0001819	synonymous_variant	196883			AF497516	CCDS9627.1	14q11.2	2013-02-04			ENSG00000129467	ENSG00000129467	4.6.1.1	"Adenylate cyclases"	235	protein-coding gene	gene with protein product		600292				7766992	Standard	NM_001198592		Approved	AC4	uc001woy.3	Q8NFM4	OTTHUMG00000029347	ENST00000310677.4:c.1947G>T	14.37:g.24793367C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KV74|D3DS75|Q17R40|Q6ZTM6|Q96ML7	Silent	SNP	ENST00000310677.4	37	CCDS9627.1																																																																																				0.612	ADCY4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000073200.4			A	24793367	C	A	24793367	2	1	620	1	0	0	0	0	0	0	0	1	296	697	25	4		4	ADCY4	14	24793367	Silent	SNP	C	TCGA-J7-6720-01A-11D-2136-08	1243591	24793367	82556173	45	38049										
JKAMP	51528	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	59965574	59965574	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	aaaagtatttatgctgcactTtacttcttcccaattttaac	3	9	1	0			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr14:59965574T>C	ENST00000261247.9	+	5	735	c.588T>C	c.(586-588)ctT>ctC	p.L196L	JKAMP_ENST00000554271.1_Silent_p.L210L|JKAMP_ENST00000425728.2_Silent_p.L190L|JKAMP_ENST00000356057.5_Silent_p.L204L|RP11-701B16.2_ENST00000554253.1_RNA	NM_001098625.1|NM_001284203.1|NM_016475.3	NP_001092095.1|NP_001271132.1|NP_057559.2	Q9P055	JKAMP_HUMAN	JNK1/MAPK8-associated membrane protein	211					ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|response to unfolded protein (GO:0006986)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	ubiquitin protein ligase binding (GO:0031625)			breast(1)|endometrium(1)|kidney(1)|lung(3)	6						ATGCTGCACTTTACTTCTTCC	0.373																																																0													125	113	117					14																	59965574		1831	4097	5928	SO:0001819	synonymous_variant	51528			AF212245	CCDS45116.1, CCDS45117.1, CCDS61462.1, CCDS61463.1	14q22.3	2014-02-14	2009-08-13	2009-08-13	ENSG00000050130	ENSG00000050130			20184	protein-coding gene	gene with protein product	"Jun N-terminal kinase 1-associated membrane protein"	611176	"chromosome 14 open reading frame 100"	C14orf100		16166642, 19269966	Standard	NM_001284202		Approved	HSPC213, JAMP, HSPC327, CDA06	uc001xef.4	Q9P055	OTTHUMG00000171054	ENST00000261247.9:c.588T>C	14.37:g.59965574T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DP67|Q6FIB6|Q6IAJ2|Q7Z5D4|Q86SY6|Q9H0Q6|Q9H2W0|Q9HAH5|Q9P0R3	Silent	SNP	ENST00000261247.9	37	CCDS45116.1																																																																																				0.373	JKAMP-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411430.1	NM_001098625		C	59965574	T	C	59965574	2	2	620	1	0	0	0	0	0	0	0	1	7956	1828	64	3		3	JKAMP	14	59965574	Silent	SNP	T	TCGA-J7-6720-01A-11D-2136-08	35172207	59965574	47383966	46	38050										
C15orf44	81556	bcgsc.ca	37	chr15	65871974	65871974	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	aggaaaccaaaggctagagcGgcctttcgcaaacggttcag	12	10	1	1			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr15:65871974G>T	ENST00000395644.4	-	12	1664	c.1329C>A	c.(1327-1329)gcC>gcA	p.A443A	VWA9_ENST00000442903.3_Silent_p.A407A|VWA9_ENST00000420799.2_Silent_p.A386A|VWA9_ENST00000569491.1_Silent_p.A393A|VWA9_ENST00000431261.2_Silent_p.A364A|VWA9_ENST00000313182.2_Silent_p.A443A|VWA9_ENST00000567744.1_Silent_p.A479A			Q96SY0	VWA9_HUMAN	von Willebrand factor A domain containing 9	443																	AGGCTAGAGCGGCCTTTCGCA	0.502																																																0													53	47	49					15																	65871974		2201	4299	6500	SO:0001819	synonymous_variant	81556			AL136662	CCDS55969.1, CCDS45283.1	15q22.31	2012-09-27	2012-09-27	2012-09-27	ENSG00000138614	ENSG00000138614			25372	protein-coding gene	gene with protein product			"chromosome 15 open reading frame 44"	C15orf44		11230166	Standard	NM_001136043		Approved	DKFZP564O1664	uc010uja.2	Q96SY0	OTTHUMG00000133159	ENST00000395644.4:c.1329C>A	15.37:g.65871974G>T		Somatic		WXS	Illumina HiSeq	Phase_1	B4DDI6|B4DVD5|Q49AH8|Q96HX5|Q9H0S5	Silent	SNP	ENST00000395644.4	37																																																																																					0.502	VWA9-201	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000420604.3	NM_030800		T	65871974	G	T	65871974	2	4	620	1	0	0	0	0	0	0	0	1	1800	1103	39	4		4	C15orf44	15	65871974	Silent	SNP	G	TCGA-J7-6720-01A-11D-2136-08		65871974	36659418	47	38051										
KIAA1199	57214	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr15	81221510	81221511	+	Frame_Shift_Del	DEL	AG	AG	-													0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	agcggaaggaccctccctatAggccagtaggtttgcaacca					rs201251202		TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr15:81221510_81221511delAG	ENST00000394685.3	+	21	3026_3027	c.2607_2608delAG	c.(2605-2610)ataggcfs	p.IG869fs	RP11-351M8.2_ENST00000560873.1_RNA|KIAA1199_ENST00000220244.3_Frame_Shift_Del_p.IG869fs|KIAA1199_ENST00000356249.5_Frame_Shift_Del_p.IG869fs			Q8WUJ3	CEMIP_HUMAN		869					hyaluronan catabolic process (GO:0030214)|positive regulation of cell migration (GO:0030335)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of protein kinase C activity (GO:1900020)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of release of sequestered calcium ion into cytosol (GO:0051281)|sensory perception of sound (GO:0007605)	clathrin-coated vesicle membrane (GO:0030665)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	clathrin heavy chain binding (GO:0032050)|ER retention sequence binding (GO:0046923)|hyaluronic acid binding (GO:0005540)|hyalurononglucosaminidase activity (GO:0004415)			breast(4)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(10)|lung(14)|ovary(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	49						CCCTCCCTATAGGCCAGTAGGT	0.51																																																0																																										SO:0001589	frameshift_variant	57214																														ENST00000394685.3:c.2607_2608delAG	15.37:g.81221510_81221511delAG	ENSP00000378177:p.Ile869fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6L9J5|Q9H1K5|Q9NPN9|Q9ULM1	Frame_Shift_Del	DEL	ENST00000394685.3	37	CCDS10315.1																																																																																				0.51	KIAA1199-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000291389.1			-	81221511	AG	-	81221510	7	5	620	1	0	1	0	1	0	0	0	0	8220	410	15	0	2681	0	KIAA1199	15	81221510	Frame_Shift_Del	DEL	AG	TCGA-J7-6720-01A-11D-2136-08	15349536	81221510	21309882	48	38052										
NLRC3	197358	bcgsc.ca	37	chr16	3594282	3594282	+	RNA	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	ctgtgttgaccttcagtgcaCgggccaccgcacacgctccg	11	16	1	1	rs371668578		TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr16:3594282C>T	ENST00000301749.7	-	0	3224				NLRC3_ENST00000448023.2_RNA|NLRC3_ENST00000419350.2_RNA|NLRC3_ENST00000359128.5_RNA|NLRC3_ENST00000603507.1_RNA|LA16c-390H2.4_ENST00000573820.1_RNA	NM_178844.2	NP_849172.2	Q7RTR2	NLRC3_HUMAN	NLR family, CARD domain containing 3						I-kappaB kinase/NF-kappaB signaling (GO:0007249)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|regulation of protein ubiquitination (GO:0031396)|response to lipopolysaccharide (GO:0032496)|T cell activation (GO:0042110)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)			breast(1)|central_nervous_system(2)|endometrium(1)|kidney(3)|large_intestine(1)|liver(1)|lung(16)|ovary(2)|pancreas(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	34						CTTCAGTGCACGGGCCACCGC	0.572																																																0								C	HIS/ARG	1,4171		0,1,2085	72	78	76		2820	2.2	0	16		76	3,8447		0,3,4222	no	missense	NLRC3	NM_178844.2	29	0,4,6307	TT,TC,CC		0.0355,0.024,0.0317	possibly-damaging	940/1066	3594282	4,12618	2086	4225	6311			197358			BK001112	CCDS73817.1	16p13.3	2014-03-25			ENSG00000167984	ENSG00000167984		"Nucleotide-binding domain and leucine rich repeat containing"	29889	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and CARD domain containing 3", "NOD-like receptor C3"	615648				15705585, 12766759	Standard	NM_178844		Approved	CLR16.2, FLJ00348, NOD3	uc010btn.3	Q7RTR2	OTTHUMG00000177561		16.37:g.3594282C>T		Somatic		WXS	Illumina HiSeq	Phase_1	Q5EY36|Q8NF48|Q8NI01|Q8NI02|Q8TEL3	Missense_Mutation	SNP	ENST00000301749.7	37		.	.	.	.	.	.	.	.	.	.	C	9.068	0.996164	0.19043	2.4E-4	3.55E-4	ENSG00000167984	ENST00000301749;ENST00000359128;ENST00000448023	T;T;T	0.53206	0.63;0.63;0.63	5.28	2.24	0.28232	.	0.730148	0.13751	N	0.365282	T	0.28101	0.0693	N	0.16602	0.42	0.09310	N	1	B	0.20887	0.049	B	0.10450	0.005	T	0.16364	-1.0405	10	0.45353	T	0.12	.	5.9625	0.19307	0.0:0.677:0.1533:0.1697	.	986	C9JLH9	.	H	940;911;986	ENSP00000301749:R940H;ENSP00000352039:R911H;ENSP00000414415:R986H	ENSP00000301749:R940H	R	-	2	0	NLRC3	3534283	0.000000	0.05858	0.008000	0.14137	0.346000	0.29079	-0.547000	0.06055	0.351000	0.24027	-0.208000	0.12717	CGT		0.572	NLRC3-201	KNOWN	basic|appris_principal	protein_coding	polymorphic_pseudogene		NM_178844		T	3594282	C	T	3594282	1	4	620	0	1	0	0	0	0	0	0	0	10475	536	19	1		1	NLRC3	16	3594282	RNA	SNP	C	TCGA-J7-6720-01A-11D-2136-08		3594282	86760471	49	38053										
SBK1	388228	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	28330355	28330355	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	gtttgtgaacaagagcaaaaCcaagctgaagaacttcctac	8	9	0	4			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr16:28330355C>T	ENST00000341901.4	+	3	1055	c.266C>T	c.(265-267)aCc>aTc	p.T89I		NM_001024401.2	NP_001019572.1	Q52WX2	SBK1_HUMAN	SH3 domain binding kinase 1	89	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.					cytoplasm (GO:0005737)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			kidney(1)|lung(3)|ovary(1)	5						AAGAGCAAAACCAAGCTGAAG	0.532																																																0													170	156	161					16																	28330355		2197	4300	6497	SO:0001583	missense	388228				CCDS32416.1	16p11.2	2013-09-27	2013-09-27			ENSG00000188322			17699	protein-coding gene	gene with protein product			"SH3-binding domain kinase 1"				Standard	XM_005255315		Approved	Sbk	uc002dpd.3	Q52WX2		ENST00000341901.4:c.266C>T	16.37:g.28330355C>T	ENSP00000343248:p.Thr89Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000341901.4	37	CCDS32416.1	.	.	.	.	.	.	.	.	.	.	c	20.4	3.991381	0.74703	.	.	ENSG00000188322	ENST00000341901	T	0.65549	-0.16	4.98	4.03	0.46877	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.62732	0.2452	L	0.33339	1.005	0.54753	D	0.999985	D	0.52996	0.957	P	0.57324	0.818	T	0.59958	-0.7356	10	0.35671	T	0.21	-23.5445	11.1208	0.48289	0.0:0.9084:0.0:0.0916	.	89	Q52WX2	SBK1_HUMAN	I	89	ENSP00000343248:T89I	ENSP00000343248:T89I	T	+	2	0	SBK1	28237856	1.000000	0.71417	0.989000	0.46669	0.901000	0.52897	7.769000	0.85360	1.089000	0.41292	-0.141000	0.14075	ACC		0.532	SBK1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000387677.1	XM_370948		T	28330355	C	T	28330355	3	4	620	1	0	0	0	0	1	0	0	0	13873	507	18	2	272	2	SBK1	16	28330355	Missense_Mutation	SNP	C	TCGA-J7-6720-01A-11D-2136-08	24736073	28330355	62024398	50	38054										
GLG1	2734	broad.mit.edu	37	chr16	74640708	74640708	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	ccccgccgggccggaggcccAcccgccgggaaaggcggctg	17	18	0	0			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr16:74640708A>C	ENST00000422840.2	-	1	284	c.285T>G	c.(283-285)ggT>ggG	p.G95G	GLG1_ENST00000205061.5_Silent_p.G95G|GLG1_ENST00000447066.2_Silent_p.G95G	NM_001145667.1	NP_001139139.1	Q92896	GSLG1_HUMAN	golgi glycoprotein 1	95					blood coagulation (GO:0007596)|bone morphogenesis (GO:0060349)|leukocyte migration (GO:0050900)|negative regulation of protein processing (GO:0010955)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|regulation of chondrocyte differentiation (GO:0032330)	extracellular matrix (GO:0031012)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	receptor binding (GO:0005102)			breast(2)|cervix(2)|endometrium(6)|kidney(8)|large_intestine(6)|lung(28)|ovary(3)|prostate(1)|skin(1)	57						CCGGAGGCCCACCCGCCGGGA	0.706																																																0													4	6	6					16																	74640708		1890	3823	5713	SO:0001819	synonymous_variant	2734				CCDS32485.1, CCDS45526.1, CCDS45527.1	16q22-q23	2010-02-12	2010-02-12			ENSG00000090863			4316	protein-coding gene	gene with protein product		600753	"golgi apparatus protein 1"			8530051, 7531823	Standard	NM_012201		Approved	MG-160, ESL-1, CFR-1	uc002fcx.3	Q92896		ENST00000422840.2:c.285T>G	16.37:g.74640708A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8Y4|D3DUJ7|Q13221|Q6P9D1	Silent	SNP	ENST00000422840.2	37	CCDS45527.1																																																																																				0.706	GLG1-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000435750.1	NM_012201		C	74640708	A	C	74640708	2	2	620	1	0	0	0	0	0	0	0	1	6443	146	6	5		5	GLG1	16	74640708	Silent	SNP	A	TCGA-J7-6720-01A-11D-2136-08	46310353	74640708	15714045	51	38055										
KRTAP1-1	81851	hgsc.bcm.edu	37	chr17	39197304	39197304	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	gtctgggcggcaccacctgaTacgggtgctcacagctccac	12	15	2	1			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr17:39197304T>C	ENST00000306271.4	-	1	409	c.346A>G	c.(346-348)Atc>Gtc	p.I116V		NM_030967.2	NP_112229.1	Q07627	KRA11_HUMAN	keratin associated protein 1-1	116						keratin filament (GO:0045095)		p.I116V(1)		NS(2)|endometrium(2)|kidney(5)|lung(4)|prostate(1)	14		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			CACCACCTGATACGGGTGCTC	0.662																																																1	Substitution - Missense(1)	NS(1)											22	27	25					17																	39197304		2019	4148	6167	SO:0001583	missense	81851			AJ406926	CCDS42324.1	17q21.2	2014-06-05			ENSG00000188581	ENSG00000188581		"Keratin associated proteins"	16772	protein-coding gene	gene with protein product		608819				11279113	Standard	NM_030967		Approved	KAP1.1B, HB2A, KAP1.1, KAP1.1A	uc002hvw.1	Q07627	OTTHUMG00000133592	ENST00000306271.4:c.346A>G	17.37:g.39197304T>C	ENSP00000305975:p.Ile116Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NC32|Q96S60|Q96S67	Missense_Mutation	SNP	ENST00000306271.4	37	CCDS42324.1	.	.	.	.	.	.	.	.	.	.	T	8.173	0.792133	0.16258	.	.	ENSG00000188581	ENST00000306271;ENST00000543328	T	0.29655	1.56	4.28	-1.23	0.09465	.	.	.	.	.	T	0.12135	0.0295	N	0.03253	-0.375	0.09310	N	1	B	0.02656	0.0	B	0.06405	0.002	T	0.34079	-0.9843	9	0.20046	T	0.44	.	9.4726	0.38851	0.0:0.573:0.0:0.427	.	116	Q07627	KRA11_HUMAN	V	116;106	ENSP00000305975:I116V	ENSP00000305975:I116V	I	-	1	0	KRTAP1-1	36450830	0.132000	0.22450	0.024000	0.17045	0.516000	0.34256	0.017000	0.13399	-0.199000	0.10317	0.529000	0.55759	ATC		0.662	KRTAP1-1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257696.1	NM_030967		C	39197304	T	C	39197304	3	2	620	1	0	0	0	0	1	0	0	0	8509	1406	49	3	191	3	KRTAP1-1	17	39197304	Missense_Mutation	SNP	T	TCGA-J7-6720-01A-11D-2136-08		39197304	41997906	52	38056										
FASN	2194	hgsc.bcm.edu	37	chr17	80041950	80041950	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	gatgagcagcgtctccccggGgcgcacccgcccacgcacca	12	19	1	1	rs45557233	byFrequency	TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr17:80041950G>A	ENST00000306749.2	-	29	5217	c.4999C>T	c.(4999-5001)Ccc>Tcc	p.P1667S	FASN_ENST00000579758.1_5'Flank	NM_004104.4	NP_004095.4	P49327	FAS_HUMAN	fatty acid synthase	1667	Enoyl reductase. {ECO:0000250}.				acetyl-CoA metabolic process (GO:0006084)|cellular lipid metabolic process (GO:0044255)|cellular response to interleukin-4 (GO:0071353)|energy reserve metabolic process (GO:0006112)|fatty acid biosynthetic process (GO:0006633)|fatty acid metabolic process (GO:0006631)|long-chain fatty-acyl-CoA biosynthetic process (GO:0035338)|osteoblast differentiation (GO:0001649)|pantothenate metabolic process (GO:0015939)|positive regulation of cellular metabolic process (GO:0031325)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|glycogen granule (GO:0042587)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity (GO:0047451)|3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity (GO:0004317)|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity (GO:0004316)|3-oxoacyl-[acyl-carrier-protein] synthase activity (GO:0004315)|[acyl-carrier-protein] S-acetyltransferase activity (GO:0004313)|[acyl-carrier-protein] S-malonyltransferase activity (GO:0004314)|drug binding (GO:0008144)|enoyl-[acyl-carrier-protein] reductase (NADPH, A-specific) activity (GO:0047117)|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity (GO:0004319)|fatty acid synthase activity (GO:0004312)|myristoyl-[acyl-carrier-protein] hydrolase activity (GO:0016295)|NADPH binding (GO:0070402)|oleoyl-[acyl-carrier-protein] hydrolase activity (GO:0004320)|palmitoyl-[acyl-carrier-protein] hydrolase activity (GO:0016296)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			central_nervous_system(3)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(12)|prostate(3)|skin(2)|urinary_tract(1)	34	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)	GTCTCCCCGGGGCGCACCCGC	0.726													.|||	142	0.0283546	0.0	0.0	5008	,	,		14181	0.1319		0.0	False		,,,				2504	0.0092				Colon(59;314 1043 11189 28578 32273)											0								G	SER/PRO	8,4182		0,8,2087	9	12	11		4999	2.4	0	17	dbSNP_127	11	0,8266		0,0,4133	yes	missense	FASN	NM_004104.4	74	0,8,6220	AA,AG,GG		0.0,0.1909,0.0642	benign	1667/2512	80041950	8,12448	2095	4133	6228	SO:0001583	missense	2194			U26644	CCDS11801.1	17q25	2012-01-31			ENSG00000169710	ENSG00000169710	2.3.1.85	"Short chain dehydrogenase/reductase superfamily / Atypical members"	3594	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 27X, member 1"	600212				7835891, 7567999, 19027726	Standard	NM_004104		Approved	FAS, SDR27X1	uc002kdu.3	P49327		ENST00000306749.2:c.4999C>T	17.37:g.80041950G>A	ENSP00000304592:p.Pro1667Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q13479|Q16702|Q4LE83|Q6P4U5|Q6SS02|Q969R1|Q96C68|Q96IT0	Missense_Mutation	SNP	ENST00000306749.2	37	CCDS11801.1	65	0.02976190476190476	0	0.0	0	0.0	65	0.11363636363636363	0	0.0	G	1.339	-0.594657	0.03771	0.001909	0.0	ENSG00000169710	ENST00000306749;ENST00000545909	T	0.32023	1.47	4.57	2.39	0.29439	GroES-like (1);Polyketide synthase, enoylreductase (1);NAD(P)-binding domain (1);	1.149520	0.06390	N	0.716872	T	0.00524	0.0017	L	0.48986	1.54	0.09310	N	1	B	0.23185	0.081	B	0.24701	0.055	T	0.16541	-1.0399	10	0.27082	T	0.32	-1.4574	5.5522	0.17097	0.112:0.0:0.4323:0.4557	rs45557233	1667	P49327	FAS_HUMAN	S	1667;632	ENSP00000304592:P1667S	ENSP00000304592:P1667S	P	-	1	0	FASN	77635239	0.586000	0.26782	0.003000	0.11579	0.003000	0.03518	3.926000	0.56491	0.903000	0.36546	0.491000	0.48974	CCC		0.726	FASN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000442369.1	NM_004104		A	80041950	G	A	80041950	3	1	620	1	0	0	0	0	1	0	0	0	5690	1232	43	2	2596	2	FASN	17	80041950	Missense_Mutation	SNP	G	TCGA-J7-6720-01A-11D-2136-08	40844646	80041950	1153260	53	38057										
PSG2	5670	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	43585217	43585217	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	attatttgaccgtctactacAtatgatgtaatgtaatggta	7	5	1	2			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr19:43585217A>T	ENST00000406487.1	-	2	344	c.246T>A	c.(244-246)taT>taA	p.Y82*	PSG2_ENST00000491995.1_5'Flank	NM_031246.3	NP_112536.2	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	82	Ig-like V-type.				cell migration (GO:0016477)|female pregnancy (GO:0007565)	extracellular region (GO:0005576)				central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(24)|ovary(1)|pancreas(2)|prostate(6)|stomach(2)|urinary_tract(2)	49		Prostate(69;0.00682)				CGTCTACTACATATGATGTAA	0.438																																																0													170	174	173					19																	43585217		2203	4298	6501	SO:0001587	stop_gained	5670				CCDS12616.1	19q13.1-q13.2	2013-01-29			ENSG00000242221	ENSG00000242221		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9519	protein-coding gene	gene with protein product	"pregnancy-specific beta-1 glycoprotein", "pregnancy-specific beta-1-glycoprotein 7", "carcinoembryonic antigen SG8"	176391		PSBG2		2377620	Standard	NM_031246		Approved	PSGGB, PSG1, CEA	uc002ovr.3	P11465	OTTHUMG00000151547	ENST00000406487.1:c.246T>A	19.37:g.43585217A>T	ENSP00000385706:p.Tyr82*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TCD9|Q9UEA4|Q9UQ78	Nonsense_Mutation	SNP	ENST00000406487.1	37	CCDS12616.1	.	.	.	.	.	.	.	.	.	.	N	10.75	1.438722	0.25900	.	.	ENSG00000242221	ENST00000406487;ENST00000329509;ENST00000401942;ENST00000406917	.	.	.	0.569	-0.723	0.11181	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	.	.	.	.	.	.	.	X	82	.	ENSP00000332984:Y82X	Y	-	3	2	PSG2	48277057	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.017000	0.12590	-0.394000	0.07727	0.155000	0.16302	TAT		0.438	PSG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323083.1	NM_031246		T	43585217	A	T	43585217	4	4	620	1	0	0	0	0	0	1	0	0	12665	224	8	5	777	5	PSG2	19	43585217	Nonsense_Mutation	SNP	A	TCGA-J7-6720-01A-11D-2136-08		43585217	15543766	54	38058										
PTGIR	5739	hgsc.bcm.edu	37	chr19	47126848	47126848	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	gcttctgctggcggtacatgCggcagaggctgagggtgacc	17	10	1	3	rs2229131	byFrequency	TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr19:47126848C>T	ENST00000291294.2	-	2	768	c.635G>A	c.(634-636)cGc>cAc	p.R212H	PTGIR_ENST00000598865.1_5'UTR|PTGIR_ENST00000596260.1_Missense_Mutation_p.R212H|PTGIR_ENST00000594275.1_Intron|PTGIR_ENST00000597185.1_Intron	NM_000960.3	NP_000951.1	P43119	PI2R_HUMAN	prostaglandin I2 (prostacyclin) receptor (IP)	212					adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|blood coagulation (GO:0007596)|cell-cell signaling (GO:0007267)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|negative regulation of platelet-derived growth factor receptor signaling pathway (GO:0010642)|negative regulation of smooth muscle cell proliferation (GO:0048662)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of cAMP-mediated signaling (GO:0043950)|positive regulation of GTPase activity (GO:0043547)|response to lipopolysaccharide (GO:0032496)	cytosol (GO:0005829)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|guanyl-nucleotide exchange factor activity (GO:0005085)			endometrium(1)|kidney(1)|large_intestine(1)|lung(5)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	13		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000327)|all cancers(93;0.000641)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0331)	Dinoprost Tromethamine(DB01160)|Epoprostenol(DB01240)|Iloprost(DB01088)|Treprostinil(DB00374)	GCGGTACATGCGGCAGAGGCT	0.701													C|||	37	0.00738818	0.0	0.0	5008	,	,		14423	0.0367		0.0	False		,,,				2504	0.0															0													11	12	12					19																	47126848		2113	4132	6245	SO:0001583	missense	5739				CCDS12686.1	19q13.3	2012-08-08				ENSG00000160013		"GPCR / Class A : Prostanoid receptors"	9602	protein-coding gene	gene with protein product		600022				7759114	Standard	NM_000960		Approved	IP	uc002pex.3	P43119		ENST00000291294.2:c.635G>A	19.37:g.47126848C>T	ENSP00000291294:p.Arg212His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000291294.2	37	CCDS12686.1	.	.	.	.	.	.	.	.	.	.	C	15.10	2.734063	0.48939	.	.	ENSG00000160013	ENST00000291294	T	0.43688	0.94	4.75	3.71	0.42584	GPCR, rhodopsin-like superfamily (1);	0.148074	0.46145	N	0.000314	T	0.30417	0.0764	L	0.33710	1.025	0.35614	D	0.808912	B	0.24533	0.105	B	0.21546	0.035	T	0.32295	-0.9912	10	0.39692	T	0.17	-13.5	9.867	0.41150	0.0:0.898:0.0:0.102	rs2229131	212	P43119	PI2R_HUMAN	H	212	ENSP00000291294:R212H	ENSP00000291294:R212H	R	-	2	0	PTGIR	51818688	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	2.343000	0.44001	1.184000	0.42957	0.563000	0.77884	CGC		0.701	PTGIR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466581.1			T	47126848	C	T	47126848	3	4	620	1	0	0	0	0	1	0	0	0	12762	768	27	1	533	1	PTGIR	19	47126848	Missense_Mutation	SNP	C	TCGA-J7-6720-01A-11D-2136-08	3541631	47126848	12002135	55	38059										
ZNF347	84671	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	53643573	53643575	+	In_Frame_Del	DEL	TGA	TGA	-													0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	tctctccactatgaattctgTgatggcttgcaaggtttgaa							TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	TGA	TGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr19:53643573_53643575delTGA	ENST00000334197.7	-	5	2574_2576	c.2506_2508delTCA	c.(2506-2508)tcadel	p.S836del	ZNF347_ENST00000601804.1_Intron|ZNF347_ENST00000601469.2_In_Frame_Del_p.S837del|ZNF347_ENST00000452676.2_In_Frame_Del_p.S837del	NM_032584.2	NP_115973.2	Q96SE7	ZN347_HUMAN	zinc finger protein 347	836					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(3)|kidney(2)|large_intestine(6)|lung(8)|prostate(3)|skin(1)	23				GBM - Glioblastoma multiforme(134;0.0179)		ATGAATTCTGTGATGGCTTGCAA	0.394																																					Melanoma(64;205 1597 17324 45721)											0																																										SO:0001651	inframe_deletion	84671			AY029765	CCDS33097.1, CCDS54314.1	19q13.3	2013-01-08				ENSG00000197937		"Zinc fingers, C2H2-type", "-"	16447	protein-coding gene	gene with protein product							Standard	NM_032584		Approved	ZNF1111	uc010eql.2	Q96SE7		ENST00000334197.7:c.2506_2508delTCA	19.37:g.53643573_53643575delTGA	ENSP00000334146:p.Ser836del	Somatic		WXS	Illumina HiSeq	Phase_I	B3KU77|B9EG59|G5E9N4|Q8TCN1	In_Frame_Del	DEL	ENST00000334197.7	37	CCDS33097.1																																																																																				0.394	ZNF347-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000464170.1	NM_032584		-	53643575	TGA	-	53643573	7	5	620	1	0	1	0	1	0	0	0	0	17873	1683	59	0	15	0	ZNF347	19	53643573	In_Frame_Del	DEL	TGA	TCGA-J7-6720-01A-11D-2136-08	6516725	53643573	5485410	56	38060										
TGM6	343641	broad.mit.edu;bcgsc.ca	37	chr20	2384361	2384361	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	tgtggcacgaggatgagagcCgggagcgtgtatactcaaac	15	8	1	1			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr20:2384361C>T	ENST00000202625.2	+	9	1289	c.1228C>T	c.(1228-1230)Cgg>Tgg	p.R410W	TGM6_ENST00000381423.1_Missense_Mutation_p.R410W	NM_198994.2	NP_945345.2	O95932	TGM3L_HUMAN	transglutaminase 6	410					cell death (GO:0008219)|peptide cross-linking (GO:0018149)	cytoplasm (GO:0005737)	metal ion binding (GO:0046872)|protein-glutamine gamma-glutamyltransferase activity (GO:0003810)			breast(1)|endometrium(6)|kidney(2)|large_intestine(2)|lung(32)|ovary(4)|prostate(1)|skin(4)	52					L-Glutamine(DB00130)	GGATGAGAGCCGGGAGCGTGT	0.582																																																0													117	102	107					20																	2384361		2203	4300	6503	SO:0001583	missense	343641			AF540970	CCDS13025.1, CCDS58761.1	20p13	2010-12-19	2004-07-05	2004-07-07	ENSG00000166948	ENSG00000166948		"Transglutaminases"	16255	protein-coding gene	gene with protein product	"spinocerebellar ataxia 35"	613900	"transglutaminase 3-like"	TGM3L		11390390, 21106500	Standard	NM_198994		Approved	dJ734P14.3, TGY, SCA35	uc002wfy.1	O95932	OTTHUMG00000031692	ENST00000202625.2:c.1228C>T	20.37:g.2384361C>T	ENSP00000202625:p.Arg410Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JXU4|Q5JXU5|Q719M2|Q719M3|Q9Y4U8	Missense_Mutation	SNP	ENST00000202625.2	37	CCDS13025.1	.	.	.	.	.	.	.	.	.	.	C	15.01	2.707089	0.48412	.	.	ENSG00000166948	ENST00000202625;ENST00000381423	T;T	0.74526	-0.85;-0.85	4.84	2.82	0.32997	.	0.503753	0.20705	N	0.087198	T	0.76905	0.4053	L	0.49126	1.545	0.25334	N	0.989007	D;D	0.71674	0.998;0.997	P;P	0.56916	0.809;0.628	T	0.67933	-0.5542	10	0.66056	D	0.02	-13.0667	10.1216	0.42623	0.3642:0.6358:0.0:0.0	.	410;410	O95932-2;O95932	.;TGM3L_HUMAN	W	410	ENSP00000202625:R410W;ENSP00000370831:R410W	ENSP00000202625:R410W	R	+	1	2	TGM6	2332361	0.001000	0.12720	0.983000	0.44433	0.361000	0.29550	0.639000	0.24690	0.711000	0.32018	0.549000	0.68633	CGG		0.582	TGM6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077581.2	NM_198994		T	2384361	C	T	2384361	3	4	620	1	0	0	0	0	1	0	0	0	15846	643	23	1	1262	1	TGM6	20	2384361	Missense_Mutation	SNP	C	TCGA-J7-6720-01A-11D-2136-08		2384361	60641159	57	38061										
COL6A2	1292	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	47542788	47542788	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	aacatgtgttccctgtcacaGggaggccgaggcgactttgg	14	10	1	0			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr21:47542788G>A	ENST00000300527.4	+	21	1712		c.e21-1		COL6A2_ENST00000397763.1_Splice_Site|COL6A2_ENST00000409416.1_Splice_Site|COL6A2_ENST00000357838.4_Splice_Site|COL6A2_ENST00000310645.5_Splice_Site	NM_001849.3	NP_001840.3	P12110	CO6A2_HUMAN	collagen, type VI, alpha 2						axon guidance (GO:0007411)|cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|protein heterotrimerization (GO:0070208)|response to glucose (GO:0009749)	collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|protein complex (GO:0043234)|proteinaceous extracellular matrix (GO:0005578)|sarcolemma (GO:0042383)|vesicle (GO:0031982)				NS(1)|breast(1)|central_nervous_system(7)|endometrium(7)|kidney(5)|liver(1)|lung(15)|ovary(2)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)	43	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		CCCTGTCACAGGGAGGCCGAG	0.547																																																0													86	75	79					21																	47542788		2203	4298	6501	SO:0001630	splice_region_variant	1292			M20777	CCDS13728.1, CCDS13729.1, CCDS13730.1	21q22.3	2014-09-17			ENSG00000142173	ENSG00000142173		"Collagens"	2212	protein-coding gene	gene with protein product		120240					Standard	NM_001849		Approved		uc002zia.1	P12110	OTTHUMG00000090489	ENST00000300527.4:c.1609-1G>A	21.37:g.47542788G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q13909|Q13910|Q13911|Q14048|Q14049|Q16259|Q16597|Q6P0Q1|Q9UML3|Q9Y4S8	Splice_Site	SNP	ENST00000300527.4	37	CCDS13728.1	.	.	.	.	.	.	.	.	.	.	G	12.89	2.073193	0.36566	.	.	ENSG00000142173	ENST00000300527;ENST00000357838;ENST00000310645;ENST00000409416;ENST00000397763;ENST00000413758	.	.	.	3.54	3.54	0.40534	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.9711	0.80019	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	COL6A2	46367216	1.000000	0.71417	0.991000	0.47740	0.337000	0.28794	7.524000	0.81866	1.909000	0.55274	0.491000	0.48974	.		0.547	COL6A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206971.1		Intron	A	47542788	G	A	47542788	5	1	620	1	0	0	0	0	0	0	1	0	3702	1014	35	2	1686	2	COL6A2	21	47542788	Splice_Site	SNP	G	TCGA-J7-6720-01A-11D-2136-08		47542788	587107	58	38062										
PCNT	5116	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	47809247	47809247	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	agctttctcatgagcccagaAagtgtgcgggagtgtgagca	14	8	1	3			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr21:47809247A>T	ENST00000359568.5	+	19	3848	c.3741A>T	c.(3739-3741)gaA>gaT	p.E1247D	PCNT_ENST00000480896.1_3'UTR	NM_006031.5	NP_006022.3	O95613	PCNT_HUMAN	pericentrin	1247					brain morphogenesis (GO:0048854)|cerebellar cortex morphogenesis (GO:0021696)|cilium assembly (GO:0042384)|G2/M transition of mitotic cell cycle (GO:0000086)|in utero embryonic development (GO:0001701)|limb morphogenesis (GO:0035108)|microtubule cytoskeleton organization (GO:0000226)|mitotic cell cycle (GO:0000278)|multicellular organism growth (GO:0035264)|negative regulation of apoptotic process (GO:0043066)|neural precursor cell proliferation (GO:0061351)|neuron migration (GO:0001764)|olfactory bulb development (GO:0021772)|positive regulation of intracellular protein transport (GO:0090316)|spindle organization (GO:0007051)	centriolar satellite (GO:0034451)|centriole (GO:0005814)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|intercellular bridge (GO:0045171)|membrane (GO:0016020)|microtubule (GO:0005874)|motile cilium (GO:0031514)|pericentriolar material (GO:0000242)				NS(1)|breast(5)|central_nervous_system(2)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(15)|liver(2)|lung(41)|ovary(5)|pancreas(3)|prostate(3)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(2)	104	Breast(49;0.112)					TGAGCCCAGAAAGTGTGCGGG	0.587																																																0													95	94	94					21																	47809247		2203	4300	6503	SO:0001583	missense	5116			AB007862	CCDS33592.1	21q22.3	2014-02-20	2008-01-30	2005-11-03	ENSG00000160299	ENSG00000160299			16068	protein-coding gene	gene with protein product	"kendrin", "Seckel syndrome 4"	605925	"pericentrin 2 (kendrin)"	PCNT2		8812505, 9455477	Standard	NM_006031		Approved	KEN, KIAA0402, PCN, PCNTB, SCKL4	uc002zji.4	O95613	OTTHUMG00000090665	ENST00000359568.5:c.3741A>T	21.37:g.47809247A>T	ENSP00000352572:p.Glu1247Asp	Somatic		WXS	Illumina HiSeq	Phase_I	O43152|Q7Z7C9	Missense_Mutation	SNP	ENST00000359568.5	37	CCDS33592.1	.	.	.	.	.	.	.	.	.	.	A	15.19	2.761428	0.49468	.	.	ENSG00000160299	ENST00000359568	T	0.02032	4.49	5.44	-10.3	0.00346	.	.	.	.	.	T	0.07279	0.0184	M	0.70275	2.135	0.09310	N	1	B;D	0.76494	0.193;0.999	B;D	0.78314	0.08;0.991	T	0.02269	-1.1185	9	0.66056	D	0.02	.	8.9466	0.35762	0.6619:0.2264:0.1118:0.0	.	1129;1247	O95613-2;O95613	.;PCNT_HUMAN	D	1247	ENSP00000352572:E1247D	ENSP00000352572:E1247D	E	+	3	2	PCNT	46633675	0.000000	0.05858	0.000000	0.03702	0.169000	0.22640	-1.857000	0.01660	-1.903000	0.01093	-0.456000	0.05471	GAA		0.587	PCNT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207336.1	NM_006031		T	47809247	A	T	47809247	3	4	620	1	0	0	0	0	1	0	0	0	11597	11	1	5	3815	5	PCNT	21	47809247	Missense_Mutation	SNP	A	TCGA-J7-6720-01A-11D-2136-08	266459	47809247	320648	59	38063										
OSBP2	23762	hgsc.bcm.edu	37	chr22	31137192	31137192	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	gtgccgtggaaccatcaaccTgtccaccgcgcacattgaca	9	15	1	1			TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr22:31137192T>A	ENST00000332585.6	+	2	793	c.689T>A	c.(688-690)cTg>cAg	p.L230Q	OSBP2_ENST00000403222.3_Missense_Mutation_p.L65Q|OSBP2_ENST00000382310.3_Missense_Mutation_p.L230Q|OSBP2_ENST00000407373.1_Missense_Mutation_p.L57Q|OSBP2_ENST00000446658.2_Missense_Mutation_p.L230Q	NM_001282739.1|NM_001282740.1|NM_001282741.1|NM_001282742.1|NM_030758.3	NP_001269668.1|NP_001269669.1|NP_001269670.1|NP_001269671.1|NP_110385.1	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2	230	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				lipid transport (GO:0006869)	membrane (GO:0016020)	cholesterol binding (GO:0015485)			breast(3)|central_nervous_system(1)|endometrium(2)|kidney(2)|lung(6)|ovary(1)|skin(3)|urinary_tract(1)	19						ACCATCAACCTGTCCACCGCG	0.567																																																0													51	53	53					22																	31137192		2028	4163	6191	SO:0001583	missense	23762				CCDS43002.1, CCDS63448.1, CCDS63449.1, CCDS63450.1, CCDS63451.1	22q12.2	2013-01-10			ENSG00000184792	ENSG00000184792		"Oxysterol binding proteins", "Pleckstrin homology (PH) domain containing"	8504	protein-coding gene	gene with protein product		606729		OSBPL1		10591208, 11278871, 11802775	Standard	NM_001282738		Approved	KIAA1664, ORP-4, ORP4	uc003aiy.1	Q969R2	OTTHUMG00000151153	ENST00000332585.6:c.689T>A	22.37:g.31137192T>A	ENSP00000332576:p.Leu230Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B0QYG1|B4DK24|B4DKE4|B4DTR3|F5H2A3|O60396|Q0VF99|Q8NA37|Q9BY96|Q9BZF0	Missense_Mutation	SNP	ENST00000332585.6	37	CCDS43002.1	.	.	.	.	.	.	.	.	.	.	T	25.7	4.662468	0.88251	.	.	ENSG00000184792	ENST00000438716;ENST00000403222;ENST00000407373;ENST00000332585;ENST00000382310;ENST00000446658	T;T;D;D;D	0.84146	-0.42;-0.41;-1.81;-1.81;-1.81	5.38	5.38	0.77491	Pleckstrin homology-type (1);Pleckstrin homology domain (3);	0.000000	0.64402	D	0.000005	D	0.95943	0.8679	H	0.99516	4.605	0.80722	D	1	D;D;D;D;D	0.89917	0.998;1.0;1.0;0.999;1.0	D;D;D;D;D	0.81914	0.989;0.98;0.98;0.995;0.995	D	0.97875	1.0288	10	0.87932	D	0	-22.7415	15.0591	0.71939	0.0:0.0:0.0:1.0	.	230;65;57;230;230	B4DFA8;B4DKE4;Q6ZN50;Q0VF99;Q969R2	.;.;.;.;OSBP2_HUMAN	Q	65;65;57;230;230;230	ENSP00000384213:L65Q;ENSP00000385237:L57Q;ENSP00000332576:L230Q;ENSP00000371747:L230Q;ENSP00000392080:L230Q	ENSP00000332576:L230Q	L	+	2	0	OSBP2	29467192	1.000000	0.71417	1.000000	0.80357	0.958000	0.62258	8.040000	0.89188	2.040000	0.60383	0.379000	0.24179	CTG		0.567	OSBP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000321547.2	NM_030758		A	31137192	T	A	31137192	3	1	620	1	0	0	0	0	1	0	0	0	11281	1580	55	5	695	5	OSBP2	22	31137192	Missense_Mutation	SNP	T	TCGA-J7-6720-01A-11D-2136-08		31137192	20167374	60	38064										
TTLL12	23170	broad.mit.edu;bcgsc.ca	37	chr22	43579135	43579149	+	In_Frame_Del	DEL	CACTTCCCCAGCGTC	CACTTCCCCAGCGTC	-													0.0163934426229508	1	1	0.378280839895013	0.698364627498486	0	1	1	0	tccacttgcatgatcccaaaCacttccccagcgtcgaaaac					rs146360108|rs571455195		TCGA-J7-6720-01A-11D-2136-08	TCGA-J7-6720-10A-01D-2136-08	CACTTCCCCAGCGTC	CACTTCCCCAGCGTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4f51e571-67b3-4e0a-a5b5-bdc9a788d1d1	ee153c70-16dc-47aa-b326-e5341dc09b2f	g.chr22:43579135_43579149delCACTTCCCCAGCGTC	ENST00000216129.6	-	2	247_261	c.184_198delGACGCTGGGGAAGTG	c.(184-198)gacgctggggaagtgdel	p.DAGEV62del		NM_015140.3	NP_055955.1	Q14166	TTL12_HUMAN	tubulin tyrosine ligase-like family, member 12	62					cellular protein modification process (GO:0006464)			p.D62D(1)		central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(7)|ovary(2)|prostate(1)	13		Ovarian(80;0.221)|Glioma(61;0.222)				TGATCCCAAACACTTCCCCAGCGTCGAAAACCTGG	0.637																																																1	Substitution - coding silent(1)	large_intestine(1)																																								SO:0001651	inframe_deletion	23170			D63487	CCDS14047.1	22q13.31	2013-02-14	2006-02-02		ENSG00000100304	ENSG00000100304		"Tubulin tyrosine ligase-like family"	28974	protein-coding gene	gene with protein product						15890843	Standard	NM_015140		Approved	KIAA0153	uc003bdp.3	Q14166	OTTHUMG00000150682	ENST00000216129.6:c.184_198delGACGCTGGGGAAGTG	22.37:g.43579135_43579149delCACTTCCCCAGCGTC	ENSP00000216129:p.Asp62_Val66del	Somatic		WXS	Illumina HiSeq	Phase_I	Q20WK5|Q9UGU3	In_Frame_Del	DEL	ENST00000216129.6	37	CCDS14047.1																																																																																				0.637	TTLL12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319611.1	NM_015140		-	43579149	CACTTCCCCAGCGTC	-	43579135	7	5	620	1	0	1	0	1	0	0	0	0	16737	465	17	0	1788	0	TTLL12	22	43579135	In_Frame_Del	DEL	CACTTCCCCAGCGTC	TCGA-J7-6720-01A-11D-2136-08	12441943	43579135	7725431	61	38065										
PRDM16	63976	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	3334451	3334451	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	tttgcagccatgaaggcggaCtcgggcagctccctgcagcc	13	14	0	1			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr1:3334451C>T	ENST00000270722.5	+	11	2800	c.2751C>T	c.(2749-2751)gaC>gaT	p.D917D	PRDM16_ENST00000378398.3_Silent_p.D917D|PRDM16_ENST00000378391.2_Silent_p.D917D|PRDM16_ENST00000511072.1_Silent_p.D918D|PRDM16_ENST00000514189.1_Silent_p.D917D|PRDM16_ENST00000441472.2_Silent_p.D916D|PRDM16_ENST00000442529.2_Silent_p.D916D|PRDM16_ENST00000512462.1_3'UTR			Q9HAZ2	PRD16_HUMAN	PR domain containing 16	917	Interaction with CTBP1 and CTBP2. {ECO:0000250}.|Mediates interaction with SKI and regulation of TGF-beta signaling.				brown fat cell differentiation (GO:0050873)|negative regulation of granulocyte differentiation (GO:0030853)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neurogenesis (GO:0022008)|palate development (GO:0060021)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cellular respiration (GO:0043457)|somatic stem cell maintenance (GO:0035019)|tongue development (GO:0043586)|transcription, DNA-templated (GO:0006351)|white fat cell differentiation (GO:0050872)	nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)|transcription coactivator activity (GO:0003713)			breast(4)|central_nervous_system(1)|endometrium(5)|kidney(4)|large_intestine(7)|lung(22)|ovary(2)|pancreas(1)|prostate(2)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(3)	59	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		TGAAGGCGGACTCGGGCAGCT	0.602			T	EVI1	"MDS, AML"																																		Dom	yes		1	1p36.23-p33	63976	PR domain containing 16		L	0													97	108	104					1																	3334451		2039	4191	6230	SO:0001819	synonymous_variant	63976			AF294278	CCDS41236.1, CCDS44048.1, CCDS41236.2, CCDS44048.2	1p36.23-p33	2013-01-08			ENSG00000142611	ENSG00000142611		"Zinc fingers, C2H2-type"	14000	protein-coding gene	gene with protein product	"MDS1/EVI1-like", "PR-domain zinc finger protein 16", "transcription factor MEL1"	605557				11050005	Standard	NM_199454		Approved	MEL1, PFM13, KIAA1675, MGC166915	uc001akf.3	Q9HAZ2	OTTHUMG00000000581	ENST00000270722.5:c.2751C>T	1.37:g.3334451C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NHQ8|B1AJP7|B1AJP8|B1AJP9|B1WB48|Q8WYJ9|Q9C0I8	Silent	SNP	ENST00000270722.5	37	CCDS41236.2																																																																																				0.602	PRDM16-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000001382.3	NM_022114		T	3334451	C	T	3334451	2	4	621	1	0	0	0	0	0	0	0	1	12467	564	20	2		2	PRDM16	1	3334451	Silent	SNP	C	TCGA-J7-8537-01A-11D-2396-08		3334451	245916170	1	38066										
PRAMEF16	654348	hgsc.bcm.edu	37	chr1	13497726	13497726	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	accaatcttgagccccttggAgctctgctagagaaagttgc	10	11	2	2			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr1:13497726A>C	ENST00000376121.3	+	3	1053	c.1023A>C	c.(1021-1023)ggA>ggC	p.G341G		NM_001045480.1	NP_001038945.1	Q5VWM1	PRA16_HUMAN	PRAME family member 16	341					negative regulation of apoptotic process (GO:0043066)|negative regulation of cell differentiation (GO:0045596)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)							Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AGCCCCTTGGAGCTCTGCTAG	0.527																																																0													75	55	62					1																	13497726		1972	3482	5454	SO:0001819	synonymous_variant	654348					1p36.21	2013-01-17			ENSG00000204488			"-"	25767	protein-coding gene	gene with protein product							Standard	NM_001045480		Approved	OTTHUMG00000002933	uc001aux.3	Q5VWM1	OTTHUMG00000002933	ENST00000376121.3:c.1023A>C	1.37:g.13497726A>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000376121.3	37	CCDS41259.1																																																																																				0.527	PRAMEF16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008178.1	NM_001045480		C	13497726	A	C	13497726	2	2	621	1	0	0	0	0	0	0	0	1	12441	291	11	5		5	PRAMEF16	1	13497726	Silent	SNP	A	TCGA-J7-8537-01A-11D-2396-08	10163275	13497726	235752895	2	38067										
TAS1R2	80834	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	19176018	19176018	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	tggtggtccaggagagtgaaGttgaccttccagatctcctc	12	10	1	4			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr1:19176018G>T	ENST00000375371.3	-	4	1305	c.1284C>A	c.(1282-1284)aaC>aaA	p.N428K	RP13-279N23.2_ENST00000494072.3_3'UTR	NM_152232.2	NP_689418.2	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2	428					detection of chemical stimulus involved in sensory perception of sweet taste (GO:0001582)|G-protein coupled receptor signaling pathway (GO:0007186)|positive regulation of cytokinesis (GO:0032467)|sensory perception of sweet taste (GO:0050916)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	protein heterodimerization activity (GO:0046982)|taste receptor activity (GO:0008527)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(4)|large_intestine(10)|lung(14)|ovary(1)|pancreas(3)|prostate(1)|skin(3)|stomach(1)	45		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;3.56e-05)|Kidney(64;0.000177)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	Aspartame(DB00168)	GGAGAGTGAAGTTGACCTTCC	0.552																																																0													64	59	61					1																	19176018		2203	4300	6503	SO:0001583	missense	80834				CCDS187.1	1p36.13	2012-08-22	2003-03-07		ENSG00000179002	ENSG00000179002		"Taste receptors / Type 1", "GPCR / Unclassified : Taste receptors"	14905	protein-coding gene	gene with protein product		606226	"G protein-coupled receptor 71"	GPR71			Standard	NM_152232		Approved	T1R2, TR2	uc001bba.1	Q8TE23	OTTHUMG00000002442	ENST00000375371.3:c.1284C>A	1.37:g.19176018G>T	ENSP00000364520:p.Asn428Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TZ19	Missense_Mutation	SNP	ENST00000375371.3	37	CCDS187.1	.	.	.	.	.	.	.	.	.	.	G	16.45	3.127587	0.56721	.	.	ENSG00000179002	ENST00000375371	D	0.86497	-2.13	5.16	2.1	0.27182	Extracellular ligand-binding receptor (1);	0.344112	0.24479	N	0.038174	D	0.87908	0.6296	L	0.48935	1.535	0.28764	N	0.900721	D	0.71674	0.998	D	0.66979	0.948	T	0.79815	-0.1644	10	0.52906	T	0.07	.	5.3671	0.16119	0.194:0.1632:0.6428:0.0	.	428	Q8TE23	TS1R2_HUMAN	K	428	ENSP00000364520:N428K	ENSP00000364520:N428K	N	-	3	2	TAS1R2	19048605	1.000000	0.71417	1.000000	0.80357	0.907000	0.53573	0.985000	0.29578	0.518000	0.28383	0.561000	0.74099	AAC		0.552	TAS1R2-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000006953.1			T	19176018	G	T	19176018	3	4	621	1	0	0	0	0	1	0	0	0	15575	1020	36	4	1247	4	TAS1R2	1	19176018	Missense_Mutation	SNP	G	TCGA-J7-8537-01A-11D-2396-08	5678292	19176018	230074603	3	38068										
ALDH4A1	8659	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	19201049	19201049	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	tgccggcagcattcctcagcAcctttgtggcctcctgcacg	10	16	1	0			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr1:19201049A>G	ENST00000375341.3	-	14	1744	c.1487T>C	c.(1486-1488)gTg>gCg	p.V496A	ALDH4A1_ENST00000290597.5_Missense_Mutation_p.V496A|ALDH4A1_ENST00000538839.1_Missense_Mutation_p.V445A|RP13-279N23.2_ENST00000494072.3_3'UTR|ALDH4A1_ENST00000538309.1_Missense_Mutation_p.V436A	NM_003748.3	NP_003739.2	P30038	AL4A1_HUMAN	aldehyde dehydrogenase 4 family, member A1	496					4-hydroxyproline catabolic process (GO:0019470)|cellular nitrogen compound metabolic process (GO:0034641)|glutamate biosynthetic process (GO:0006537)|proline biosynthetic process (GO:0006561)|proline catabolic process (GO:0006562)|proline catabolic process to glutamate (GO:0010133)|proline metabolic process (GO:0006560)|small molecule metabolic process (GO:0044281)	mitochondrial matrix (GO:0005759)	1-pyrroline-5-carboxylate dehydrogenase activity (GO:0003842)|aldehyde dehydrogenase (NAD) activity (GO:0004029)|electron carrier activity (GO:0009055)|identical protein binding (GO:0042802)			cervix(2)|endometrium(1)|large_intestine(3)|lung(8)|prostate(1)	15		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00479)|BRCA - Breast invasive adenocarcinoma(304;3.67e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		ATTCCTCAGCACCTTTGTGGC	0.617																																																0													183	149	160					1																	19201049		2203	4300	6503	SO:0001583	missense	8659			U24266	CCDS188.1, CCDS53272.1	1p36	2008-02-05			ENSG00000159423	ENSG00000159423	1.5.1.12	"Aldehyde dehydrogenases"	406	protein-coding gene	gene with protein product		606811		ALDH4		8621661	Standard	NM_003748		Approved	P5CDh	uc001bbc.3	P30038	OTTHUMG00000002443	ENST00000375341.3:c.1487T>C	1.37:g.19201049A>G	ENSP00000364490:p.Val496Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1Q7|B4DGE4|D2D4A3|Q16882|Q53HU4|Q5JNV6|Q8IZ38|Q96IF0|Q9UDI6	Missense_Mutation	SNP	ENST00000375341.3	37	CCDS188.1	.	.	.	.	.	.	.	.	.	.	A	0.577	-0.838870	0.02692	.	.	ENSG00000159423	ENST00000290597;ENST00000375341;ENST00000538839;ENST00000538309	T;T;T;T	0.74632	-0.86;-0.86;1.68;-0.86	5.36	4.24	0.50183	Aldehyde dehydrogenase domain (1);Aldehyde dehydrogenase, C-terminal (1);Aldehyde/histidinol dehydrogenase (1);	0.644592	0.17853	N	0.159761	T	0.42471	0.1204	N	0.02697	-0.525	0.23113	N	0.998271	B	0.02656	0.0	B	0.06405	0.002	T	0.33574	-0.9863	10	0.07644	T	0.81	-25.7928	5.0242	0.14376	0.7201:0.1868:0.0931:0.0	.	496	P30038	AL4A1_HUMAN	A	496;496;445;436	ENSP00000290597:V496A;ENSP00000364490:V496A;ENSP00000446071:V445A;ENSP00000442988:V436A	ENSP00000290597:V496A	V	-	2	0	ALDH4A1	19073636	0.387000	0.25188	0.907000	0.35723	0.356000	0.29392	3.436000	0.52856	2.025000	0.59659	0.459000	0.35465	GTG		0.617	ALDH4A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006954.1			G	19201049	A	G	19201049	3	3	621	1	0	0	0	0	1	0	0	0	501	159	6	3	212	3	ALDH4A1	1	19201049	Missense_Mutation	SNP	A	TCGA-J7-8537-01A-11D-2396-08	25031	19201049	230049572	4	38069										
ARID1A	8289	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	27106580	27106580	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ggaaaacaccttggttacacTcgccaacatctcggggcagt	10	12	1	0			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr1:27106580T>C	ENST00000324856.7	+	20	6562	c.6191T>C	c.(6190-6192)cTc>cCc	p.L2064P	ARID1A_ENST00000374152.2_Missense_Mutation_p.L1681P|ARID1A_ENST00000457599.2_Missense_Mutation_p.L1847P|ARID1A_ENST00000540690.1_Missense_Mutation_p.L392P	NM_006015.4	NP_006006.3	O14497	ARI1A_HUMAN	AT rich interactive domain 1A (SWI-like)	2064					androgen receptor signaling pathway (GO:0030521)|ATP-dependent chromatin remodeling (GO:0043044)|cardiac chamber development (GO:0003205)|chromatin remodeling (GO:0006338)|chromatin-mediated maintenance of transcription (GO:0048096)|forebrain development (GO:0030900)|glucocorticoid receptor signaling pathway (GO:0042921)|intracellular estrogen receptor signaling pathway (GO:0030520)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neural tube closure (GO:0001843)|nucleosome disassembly (GO:0006337)|nucleosome mobilization (GO:0042766)|optic cup formation involved in camera-type eye development (GO:0003408)|placenta blood vessel development (GO:0060674)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|SWI/SNF complex (GO:0016514)	DNA binding (GO:0003677)|ligand-dependent nuclear receptor binding (GO:0016922)|transcription coactivator activity (GO:0003713)		ARID1A/MAST2_ENST00000361297(2)	NS(1)|autonomic_ganglia(1)|biliary_tract(1)|breast(13)|central_nervous_system(6)|cervix(2)|endometrium(56)|haematopoietic_and_lymphoid_tissue(8)|kidney(10)|large_intestine(41)|liver(31)|lung(34)|ovary(130)|pancreas(18)|prostate(8)|skin(9)|stomach(14)|upper_aerodigestive_tract(4)|urinary_tract(24)	411		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)		TTGGTTACACTCGCCAACATC	0.557			"Mis, N, F, S, D"		"clear cell ovarian carcinoma, RCC"																																		Rec	yes		1	1p35.3	8289	AT rich interactive domain 1A (SWI-like)		E	0													136	137	137					1																	27106580		2203	4300	6503	SO:0001583	missense	8289			AB001895	CCDS285.1, CCDS44091.1	1p36.1-p35	2014-09-17	2006-11-08	2004-01-30	ENSG00000117713	ENSG00000117713		"-"	11110	protein-coding gene	gene with protein product		603024	"SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily f, member 1", "AT rich interactive domain 1A (SWI- like)"	C1orf4, SMARCF1		9630625, 9434167	Standard	NM_139135		Approved	B120, P270, C10rf4, BAF250, BAF250a	uc001bmv.1	O14497	OTTHUMG00000004004	ENST00000324856.7:c.6191T>C	1.37:g.27106580T>C	ENSP00000320485:p.Leu2064Pro	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPL1|Q53FK9|Q5T0W1|Q5T0W2|Q5T0W3|Q8NFD6|Q96T89|Q9BY33|Q9HBJ5|Q9UPZ1	Missense_Mutation	SNP	ENST00000324856.7	37	CCDS285.1	.	.	.	.	.	.	.	.	.	.	T	19.26	3.793741	0.70452	.	.	ENSG00000117713	ENST00000324856;ENST00000457599;ENST00000374152;ENST00000540690	T;T;T;T	0.71698	0.88;0.88;0.88;-0.59	5.1	5.1	0.69264	.	0.000000	0.85682	D	0.000000	D	0.84447	0.5474	M	0.81239	2.535	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.997;0.999;0.999	D	0.86848	0.2021	10	0.87932	D	0	-10.1896	15.3414	0.74300	0.0:0.0:0.0:1.0	.	1681;2064;1847	O14497-3;O14497;O14497-2	.;ARI1A_HUMAN;.	P	2064;1847;1681;392	ENSP00000320485:L2064P;ENSP00000387636:L1847P;ENSP00000363267:L1681P;ENSP00000442437:L392P	ENSP00000320485:L2064P	L	+	2	0	ARID1A	26979167	1.000000	0.71417	0.585000	0.28666	0.975000	0.68041	7.676000	0.84012	2.273000	0.75805	0.482000	0.46254	CTC		0.557	ARID1A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000011437.2	NM_139135		C	27106580	T	C	27106580	3	2	621	1	0	0	0	0	1	0	0	0	913	1551	54	3	6269	3	ARID1A	1	27106580	Missense_Mutation	SNP	T	TCGA-J7-8537-01A-11D-2396-08	7905531	27106580	222144041	5	38070										
MAP7D1	55700	hgsc.bcm.edu	37	chr1	36642065	36642065	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	tccgccagccccctgacgccGtgcagcgtcacccgaagcgt	11	19	1	1	rs139644057	byFrequency	TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr1:36642065G>A	ENST00000373151.2	+	7	1332	c.1116G>A	c.(1114-1116)ccG>ccA	p.P372P	MAP7D1_ENST00000474796.1_3'UTR|MAP7D1_ENST00000373150.4_Silent_p.P340P|MAP7D1_ENST00000373148.4_5'Flank|MAP7D1_ENST00000316156.4_Silent_p.P335P	NM_018067.3	NP_060537.3	Q3KQU3	MA7D1_HUMAN	MAP7 domain containing 1	372					microtubule cytoskeleton organization (GO:0000226)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|microtubule cytoskeleton (GO:0015630)				breast(2)|cervix(1)|endometrium(2)|large_intestine(3)|lung(3)|ovary(3)|prostate(3)|skin(1)|urinary_tract(1)	19		Myeloproliferative disorder(586;0.0393)				CCCTGACGCCGTGCAGCGTCA	0.801													G|||	234	0.0467252	0.0053	0.0533	5008	,	,		5421	0.1736		0.007	False		,,,				2504	0.0082															0								G		20,2340		0,20,1160	2	2	2		1116	-1.3	0.7	1	dbSNP_134	2	9,4939		0,9,2465	no	coding-synonymous	MAP7D1	NM_018067.3		0,29,3625	AA,AG,GG		0.1819,0.8475,0.3968		372/842	36642065	29,7279	1180	2474	3654	SO:0001819	synonymous_variant	55700			AK096341	CCDS30673.1, CCDS65492.1, CCDS65493.1	1p34.3	2008-02-05	2007-02-08	2007-02-08	ENSG00000116871	ENSG00000116871			25514	protein-coding gene	gene with protein product			"proline arginine rich coiled coil 1", "arginine/proline rich coiled-coil 1"	PARCC1, RPRC1		10574461	Standard	XM_005271024		Approved	FLJ10350, FLJ39022	uc001bzz.3	Q3KQU3	OTTHUMG00000007714	ENST00000373151.2:c.1116G>A	1.37:g.36642065G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DPS4|Q7L8J5|Q8N905|Q8TAK0|Q9HBQ2|Q9NW29|Q9ULN3	Silent	SNP	ENST00000373151.2	37	CCDS30673.1																																																																																				0.801	MAP7D1-009	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000382095.1	NM_018067		A	36642065	G	A	36642065	2	1	621	1	0	0	0	0	0	0	0	1	9274	1132	40	1		1	MAP7D1	1	36642065	Silent	SNP	G	TCGA-J7-8537-01A-11D-2396-08	9535485	36642065	212608556	6	38071										
HIVEP3	59269	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	42047804	42047804	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ctgggcaagtgtctggctgcGctggggccattggaactcct	15	11	1	0			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr1:42047804G>A	ENST00000372583.1	-	4	3550	c.2665C>T	c.(2665-2667)Cgc>Tgc	p.R889C	HIVEP3_ENST00000429157.2_Missense_Mutation_p.R889C|HIVEP3_ENST00000372584.1_Missense_Mutation_p.R889C|HIVEP3_ENST00000247584.5_Missense_Mutation_p.R889C|HIVEP3_ENST00000460604.1_5'Flank	NM_024503.4	NP_078779.2	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer binding protein 3	889	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN. {ECO:0000250}.				positive regulation of transcription, DNA-templated (GO:0045893)|skeletal muscle cell differentiation (GO:0035914)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)	p.R889C(1)		NS(2)|breast(3)|central_nervous_system(5)|endometrium(13)|kidney(3)|large_intestine(13)|lung(33)|ovary(4)|prostate(5)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	85	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				GTCTGGCTGCGCTGGGGCCAT	0.597																																																1	Substitution - Missense(1)	large_intestine(1)											54	63	60					1																	42047804		2203	4300	6503	SO:0001583	missense	59269			AF278765	CCDS463.1, CCDS44124.1	1p34	2013-01-08	2001-11-28		ENSG00000127124	ENSG00000127124		"Zinc fingers, C2H2-type"	13561	protein-coding gene	gene with protein product	"kappabinding protein-1"	606649	"human immunodeficiency virus type I enhancer-binding protein 3"			11161801	Standard	NR_038260		Approved	KRC, KBP1, KBP-1, SHN3, FLJ16752, KIAA1555, ZAS3, Schnurri-3, ZNF40C	uc001cha.4	Q5T1R4	OTTHUMG00000006361	ENST00000372583.1:c.2665C>T	1.37:g.42047804G>A	ENSP00000361664:p.Arg889Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A7YY91|Q5T1R5|Q9BZS0|Q9HCL7	Missense_Mutation	SNP	ENST00000372583.1	37	CCDS463.1	.	.	.	.	.	.	.	.	.	.	G	18.70	3.679130	0.68042	.	.	ENSG00000127124	ENST00000372584;ENST00000372583;ENST00000247584;ENST00000429157	T;T;T;T	0.61859	0.07;0.07;0.07;0.07	4.95	4.95	0.65309	.	0.000000	0.53938	D	0.000060	T	0.73466	0.3590	M	0.76727	2.345	0.58432	D	0.999998	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.996	T	0.76107	-0.3080	10	0.87932	D	0	2.8066	11.1037	0.48190	0.0:0.0:0.6936:0.3063	.	889;889	Q5T1R4-2;Q5T1R4	.;ZEP3_HUMAN	C	889	ENSP00000361665:R889C;ENSP00000361664:R889C;ENSP00000247584:R889C;ENSP00000410828:R889C	ENSP00000247584:R889C	R	-	1	0	HIVEP3	41820391	1.000000	0.71417	1.000000	0.80357	0.952000	0.60782	5.841000	0.69409	2.562000	0.86427	0.462000	0.41574	CGC		0.597	HIVEP3-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000016978.1	NM_024503		A	42047804	G	A	42047804	3	1	621	1	0	0	0	0	1	0	0	0	7195	1087	38	1	4579	1	HIVEP3	1	42047804	Missense_Mutation	SNP	G	TCGA-J7-8537-01A-11D-2396-08	5405739	42047804	207202817	7	38072										
YBX1	4904	hgsc.bcm.edu	37	chr1	43166460	43166460	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	cgttcattgcaggggccctcCtcgccaaagacagcctagag	11	14	1	2			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr1:43166460C>T	ENST00000321358.7	+	7	888	c.749C>T	c.(748-750)cCt>cTt	p.P250L		NM_004559.3	NP_004550.2	P67809	YBOX1_HUMAN	Y box binding protein 1	250					CRD-mediated mRNA stabilization (GO:0070934)|gene expression (GO:0010467)|in utero embryonic development (GO:0001701)|mRNA splicing, via spliceosome (GO:0000398)|negative regulation of striated muscle cell differentiation (GO:0051154)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of cell division (GO:0051781)|regulation of transcription, DNA-templated (GO:0006355)|RNA splicing (GO:0008380)|transcription from RNA polymerase II promoter (GO:0006366)	CRD-mediated mRNA stability complex (GO:0070937)|cytoplasm (GO:0005737)|cytoplasmic stress granule (GO:0010494)|extracellular vesicular exosome (GO:0070062)|histone pre-mRNA 3'end processing complex (GO:0071204)|intracellular membrane-bounded organelle (GO:0043231)|nuclear membrane (GO:0031965)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)|U12-type spliceosomal complex (GO:0005689)	DNA binding (GO:0003677)|double-stranded DNA binding (GO:0003690)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|sequence-specific DNA binding transcription factor activity (GO:0003700)|single-stranded DNA binding (GO:0003697)			large_intestine(2)|lung(4)|ovary(4)|prostate(4)|upper_aerodigestive_tract(2)	16	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				AGGGGCCCTCCTCGCCAAAGA	0.498																																																0													28	25	26					1																	43166460		2203	4300	6503	SO:0001583	missense	4904			BC013838	CCDS470.1	1p34	2008-02-05	2005-08-11	2005-08-11	ENSG00000065978	ENSG00000065978			8014	protein-coding gene	gene with protein product		154030	"nuclease sensitive element binding protein 1"	NSEP1		1891370, 3174636	Standard	NM_004559		Approved	YB-1, YB1, DBPB, NSEP-1, MDR-NF1, BP-8, CSDB, CSDA2	uc001chs.3	P67809	OTTHUMG00000007523	ENST00000321358.7:c.749C>T	1.37:g.43166460C>T	ENSP00000361626:p.Pro250Leu	Somatic		WXS	Illumina HiSeq	Phase_I	P16990|P16991|Q14972|Q15325|Q5FVF0	Missense_Mutation	SNP	ENST00000321358.7	37	CCDS470.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	17.49|17.49	3.403460|3.403460	0.62288|0.62288	.|.	.|.	ENSG00000065978|ENSG00000065978	ENST00000318612;ENST00000436427|ENST00000321358	.|T	.|0.36340	.|1.26	5.35|5.35	5.35|5.35	0.76521|0.76521	.|.	.|0.148105	.|0.64402	.|D	.|0.000006	T|T	0.41050|0.41050	0.1142|0.1142	M|M	0.65975|0.65975	2.015|2.015	0.80722|0.80722	D|D	1|1	.|B	.|0.29862	.|0.259	.|B	.|0.30179	.|0.112	T|T	0.36817|0.36817	-0.9732|-0.9732	6|10	0.30078|0.56958	T|D	0.28|0.05	-2.6639|-2.6639	16.6288|16.6288	0.85011|0.85011	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|250	.|P67809	.|YBOX1_HUMAN	F|L	241;300|250	.|ENSP00000361626:P250L	ENSP00000361621:L241F|ENSP00000361626:P250L	L|P	+|+	1|2	0|0	YBX1|YBX1	42939047|42939047	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.991000|0.991000	0.79684|0.79684	7.152000|7.152000	0.77419|0.77419	2.501000|2.501000	0.84356|0.84356	0.552000|0.552000	0.68991|0.68991	CTC|CCT		0.498	YBX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019786.2	NM_004559		T	43166460	C	T	43166460	3	4	621	1	0	0	0	0	1	0	0	0	17481	681	24	2	775	2	YBX1	1	43166460	Missense_Mutation	SNP	C	TCGA-J7-8537-01A-11D-2396-08	1118656	43166460	206084161	8	38073										
IPP	3652	broad.mit.edu	37	chr1	46184897	46184898	+	Frame_Shift_Del	DEL	AC	AC	-													0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	aaagcatagatagccccataAcacacacacactcctaagcc					rs144663569		TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr1:46184897_46184898delAC	ENST00000396478.3	-	6	1265_1266	c.1163_1164delGT	c.(1162-1164)tgtfs	p.C388fs		NM_005897.2	NP_005888.1	Q9Y573	IPP_HUMAN	intracisternal A particle-promoted polypeptide	388						actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)	actin binding (GO:0003779)			central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(6)|lung(5)|ovary(1)|stomach(2)	20	Acute lymphoblastic leukemia(166;0.155)					TAGCCCCATAACACACACACAC	0.347																																																0																																										SO:0001589	frameshift_variant	3652			BC032544	CCDS30702.1, CCDS44132.1	1p34-p32	2013-01-30			ENSG00000197429	ENSG00000197429		"Kelch-like", "BTB/POZ domain containing"	6108	protein-coding gene	gene with protein product	"kelch-like family member 27"	147485				1905535, 8432546	Standard	NM_005897		Approved	KLHL27	uc001cou.3	Q9Y573	OTTHUMG00000008004	ENST00000396478.3:c.1163_1164delGT	1.37:g.46184907_46184908delAC	ENSP00000379739:p.Cys388fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2A6V4|D3DQ11|Q8N5C3	Frame_Shift_Del	DEL	ENST00000396478.3	37	CCDS30702.1																																																																																				0.347	IPP-001	KNOWN	mRNA_end_NF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000021974.3	NM_005897		-	46184898	AC	-	46184897	7	5	621	1	0	1	0	1	0	0	0	0	7807	41	2	0	708	0	IPP	1	46184897	Frame_Shift_Del	DEL	AC	TCGA-J7-8537-01A-11D-2396-08	3018437	46184897	203065724	9	38074										
FNBP1L	54874	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	94009756	94009756	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	gaacttaacagagaactacaGaaagaatcagaccaaaagta	7	7	1	4			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr1:94009756G>A	ENST00000271234.7	+	12	1408	c.1257G>A	c.(1255-1257)caG>caA	p.Q419Q	FNBP1L_ENST00000370256.4_Silent_p.Q414Q|FNBP1L_ENST00000260506.8_Silent_p.Q361Q|FNBP1L_ENST00000370253.2_Silent_p.Q361Q|FNBP1L_ENST00000604705.1_Silent_p.Q419Q	NM_001164473.2	NP_001157945.1	Q5T0N5	FBP1L_HUMAN	formin binding protein 1-like	419	Interaction with CDC42.				autophagy (GO:0006914)|clathrin-mediated endocytosis (GO:0072583)|membrane budding (GO:0006900)|membrane invagination (GO:0010324)|membrane tubulation (GO:0097320)|positive regulation of filopodium assembly (GO:0051491)|vesicle organization (GO:0016050)|vesicle transport along actin filament (GO:0030050)	cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	lipid binding (GO:0008289)			breast(2)|kidney(2)|large_intestine(4)|lung(2)|urinary_tract(1)	11		all_lung(203;0.00206)|Lung NSC(277;0.00902)|Melanoma(281;0.155)		all cancers(265;0.00666)|GBM - Glioblastoma multiforme(16;0.0378)|Epithelial(280;0.111)		GAGAACTACAGAAAGAATCAG	0.373																																																0													71	67	68					1																	94009756		1827	4080	5907	SO:0001819	synonymous_variant	54874				CCDS53343.1, CCDS53344.1, CCDS60192.1	1p22.1	2008-02-05	2004-11-16	2004-11-17	ENSG00000137942	ENSG00000137942			20851	protein-coding gene	gene with protein product		608848	"chromosome 1 open reading frame 39"	C1orf39		14654988	Standard	NM_017737		Approved	TOCA1, FLJ20275	uc010otk.2	Q5T0N5	OTTHUMG00000010863	ENST00000271234.7:c.1257G>A	1.37:g.94009756G>A		Somatic		WXS	Illumina HiSeq	Phase_I	J3QSS4|Q5T0N6|Q6B097|Q6P653|Q6R4Q4|Q9NXG1	Silent	SNP	ENST00000271234.7	37	CCDS53343.1																																																																																				0.373	FNBP1L-202	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding		NM_017737		A	94009756	G	A	94009756	2	1	621	1	0	0	0	0	0	0	0	1	5973	933	33	2		2	FNBP1L	1	94009756	Silent	SNP	G	TCGA-J7-8537-01A-11D-2396-08	47824859	94009756	155240865	10	38075										
KCNC4	3749	bcgsc.ca	37	chr1	110754159	110754159	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	tgtctcctcctaccgcgggcGcaagtcggggaacaagcctc	12	15	1	0			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr1:110754159G>A	ENST00000369787.3	+	1	65	c.38G>A	c.(37-39)cGc>cAc	p.R13H	KCNC4_ENST00000413138.3_Missense_Mutation_p.R13H|KCNC4_ENST00000438661.2_Missense_Mutation_p.R13H|KCNC4-AS1_ENST00000455967.1_RNA	NM_004978.4	NP_004969.2	Q03721	KCNC4_HUMAN	potassium voltage-gated channel, Shaw-related subfamily, member 4	13	Inactivation gate.				potassium ion transport (GO:0006813)|protein homooligomerization (GO:0051260)|regulation of neurotransmitter secretion (GO:0046928)|synaptic transmission (GO:0007268)	axon terminus (GO:0043679)|neuromuscular junction (GO:0031594)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|potassium channel activity (GO:0005267)|voltage-gated potassium channel activity (GO:0005249)			central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|liver(2)|lung(11)|ovary(1)|skin(2)	32		all_cancers(81;9.88e-06)|all_epithelial(167;3.23e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0238)|all cancers(265;0.0693)|Epithelial(280;0.0748)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.135)		TACCGCGGGCGCAAGTCGGGG	0.637																																																0													42	44	43					1																	110754159		2202	4300	6502	SO:0001583	missense	3749			BC101769	CCDS821.1, CCDS44193.1	1p21	2012-07-05			ENSG00000116396	ENSG00000116396		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6236	protein-coding gene	gene with protein product		176265	"chromosome 1 open reading frame 30"	C1orf30		1920536, 1740329, 16382104	Standard	NM_004978		Approved	Kv3.4, HKSHIIIC	uc001dzh.3	Q03721	OTTHUMG00000011037	ENST00000369787.3:c.38G>A	1.37:g.110754159G>A	ENSP00000358802:p.Arg13His	Somatic		WXS	Illumina HiSeq	Phase_1	Q3MIM4|Q5TBI6	Missense_Mutation	SNP	ENST00000369787.3	37	CCDS821.1	.	.	.	.	.	.	.	.	.	.	G	23.7	4.441799	0.83993	.	.	ENSG00000116396	ENST00000369787;ENST00000413138;ENST00000438661	D;D;D	0.97710	-4.5;-4.49;-4.5	3.53	3.53	0.40419	Potassium channel, voltage dependent, Kv3, inactivation domain (1);	.	.	.	.	D	0.95661	0.8589	N	0.08118	0	0.58432	D	0.999995	D;D;D	0.76494	0.988;0.986;0.999	P;B;D	0.80764	0.611;0.36;0.994	D	0.97118	0.9809	9	0.62326	D	0.03	.	14.8461	0.70261	0.0:0.0:1.0:0.0	.	13;13;13	Q03721;Q03721-3;Q03721-2	KCNC4_HUMAN;.;.	H	13	ENSP00000358802:R13H;ENSP00000388029:R13H;ENSP00000393655:R13H	ENSP00000358802:R13H	R	+	2	0	KCNC4	110555682	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.313000	0.78978	1.812000	0.52913	0.462000	0.41574	CGC		0.637	KCNC4-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000052146.2	NM_001039574		A	110754159	G	A	110754159	3	1	621	1	0	0	0	0	1	0	0	0	8024	1087	38	1	40	1	KCNC4	1	110754159	Missense_Mutation	SNP	G	TCGA-J7-8537-01A-11D-2396-08	16744403	110754159	138496462	11	38076										
FLG	2312	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	152277075	152277075	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ccacgaatggtgtcctgaccCtcttgggacgctgagtgcct	12	13	1	2			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr1:152277075C>A	ENST00000368799.1	-	3	10322	c.10287G>T	c.(10285-10287)gaG>gaT	p.E3429D	FLG-AS1_ENST00000593011.1_RNA|FLG-AS1_ENST00000420707.1_RNA	NM_002016.1	NP_002007.1	P20930	FILA_HUMAN	filaggrin	3429	Ser-rich.				establishment of skin barrier (GO:0061436)|keratinocyte differentiation (GO:0030216)|multicellular organismal development (GO:0007275)	cytoplasmic membrane-bounded vesicle (GO:0016023)|intermediate filament (GO:0005882)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|structural molecule activity (GO:0005198)			autonomic_ganglia(1)|breast(13)|central_nervous_system(5)|cervix(2)|endometrium(38)|haematopoietic_and_lymphoid_tissue(1)|kidney(16)|large_intestine(57)|lung(211)|ovary(13)|pancreas(1)|prostate(15)|skin(24)|stomach(5)|upper_aerodigestive_tract(10)|urinary_tract(12)	424	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTCCTGACCCTCTTGGGACG	0.612									Ichthyosis																																							0													245	252	250					1																	152277075		2203	4299	6502	SO:0001583	missense	2312	Familial Cancer Database	X-linked Ichthyosis, Steroid Sulfatase Deficiency, Ichthyosis Vulgaris	XM_048104	CCDS30860.1	1q21.3	2013-01-10			ENSG00000143631	ENSG00000143631		"EF-hand domain containing"	3748	protein-coding gene	gene with protein product		135940				2740331, 2248957, 16444271	Standard	NM_002016		Approved		uc001ezu.1	P20930	OTTHUMG00000012202	ENST00000368799.1:c.10287G>T	1.37:g.152277075C>A	ENSP00000357789:p.Glu3429Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q01720|Q5T583|Q9UC71	Missense_Mutation	SNP	ENST00000368799.1	37	CCDS30860.1	.	.	.	.	.	.	.	.	.	.	C	13.64	2.296547	0.40594	.	.	ENSG00000143631	ENST00000368799	T	0.01705	4.68	4.17	-5.64	0.02466	.	.	.	.	.	T	0.00754	0.0025	L	0.41824	1.3	0.09310	N	1	P	0.44478	0.836	P	0.54499	0.754	T	0.31943	-0.9925	9	0.20046	T	0.44	.	0.6472	0.00820	0.3782:0.2562:0.1242:0.2414	.	3429	P20930	FILA_HUMAN	D	3429	ENSP00000357789:E3429D	ENSP00000357789:E3429D	E	-	3	2	FLG	150543699	0.000000	0.05858	0.000000	0.03702	0.031000	0.12232	-6.083000	0.00082	-1.572000	0.01661	0.454000	0.30748	GAG		0.612	FLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033742.1	NM_002016		A	152277075	C	A	152277075	3	1	621	1	0	0	0	0	1	0	0	0	5929	680	24	4	1902	4	FLG	1	152277075	Missense_Mutation	SNP	C	TCGA-J7-8537-01A-11D-2396-08	41522916	152277075	96973546	12	38077										
CEP350	9857	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	180047678	180047678	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ccattccagaagaattaggcAgccctgctgttgaatatgta	9	9	0	3			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr1:180047678A>T	ENST00000367607.3	+	29	6266	c.5848A>T	c.(5848-5850)Agc>Tgc	p.S1950C		NM_014810.4	NP_055625.4	Q5VT06	CE350_HUMAN	centrosomal protein 350kDa	1950					microtubule anchoring (GO:0034453)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)				central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(7)|lung(35)|ovary(4)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	66						AGAATTAGGCAGCCCTGCTGT	0.433																																																0													65	63	63					1																	180047678		2203	4300	6503	SO:0001583	missense	9857			AF287356	CCDS1336.1	1q25.2	2014-02-20			ENSG00000135837	ENSG00000135837			24238	protein-coding gene	gene with protein product	"centrosome associated protein 350"					16314388, 15615782	Standard	NM_014810		Approved	KIAA0480, CAP350	uc001gnt.3	Q5VT06	OTTHUMG00000035269	ENST00000367607.3:c.5848A>T	1.37:g.180047678A>T	ENSP00000356579:p.Ser1950Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O75068|Q8TDK3|Q8WY20	Missense_Mutation	SNP	ENST00000367607.3	37	CCDS1336.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	21.0|21.0	4.087658|4.087658	0.76642|0.76642	.|.	.|.	ENSG00000135837|ENSG00000135837	ENST00000429851|ENST00000367607	.|T	.|0.57907	.|0.37	5.31|5.31	5.31|5.31	0.75309|0.75309	.|.	.|0.000000	.|0.53938	.|D	.|0.000045	T|T	0.70254|0.70254	0.3203|0.3203	M|M	0.71581|0.71581	2.175|2.175	0.49299|0.49299	D|D	0.999774|0.999774	.|D;D	.|0.76494	.|0.999;0.999	.|D;D	.|0.79784	.|0.993;0.988	T|T	0.71573|0.71573	-0.4552|-0.4552	5|9	.|.	.|.	.|.	.|.	14.1282|14.1282	0.65235|0.65235	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	.|1950;1950	.|E7EU22;Q5VT06	.|.;CE350_HUMAN	L|C	124|1950	.|ENSP00000356579:S1950C	.|.	Q|S	+|+	2|1	0|0	CEP350|CEP350	178314301|178314301	1.000000|1.000000	0.71417|0.71417	0.993000|0.993000	0.49108|0.49108	0.777000|0.777000	0.43975|0.43975	4.336000|4.336000	0.59304|0.59304	2.140000|2.140000	0.66376|0.66376	0.482000|0.482000	0.46254|0.46254	CAG|AGC		0.433	CEP350-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085315.2	NM_014810		T	180047678	A	T	180047678	3	4	621	1	0	0	0	0	1	0	0	0	3256	188	7	5	5958	5	CEP350	1	180047678	Missense_Mutation	SNP	A	TCGA-J7-8537-01A-11D-2396-08	27770603	180047678	69202943	13	38078										
RYR2	6262	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	237617770	237617770	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ccgtaagcctaagtctgcagGatctcattggctacttccac	8	13	2	0			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr1:237617770G>T	ENST00000366574.2	+	15	1689	c.1372G>T	c.(1372-1374)Gat>Tat	p.D458Y	RYR2_ENST00000542537.1_Missense_Mutation_p.D442Y|RYR2_ENST00000360064.6_Missense_Mutation_p.D456Y	NM_001035.2	NP_001026.2	Q92736	RYR2_HUMAN	ryanodine receptor 2 (cardiac)	458					BMP signaling pathway (GO:0030509)|calcium ion transport (GO:0006816)|calcium ion transport into cytosol (GO:0060402)|calcium-mediated signaling (GO:0019722)|calcium-mediated signaling using intracellular calcium source (GO:0035584)|canonical Wnt signaling pathway (GO:0060070)|cardiac muscle contraction (GO:0060048)|cardiac muscle hypertrophy (GO:0003300)|cell communication by electrical coupling involved in cardiac conduction (GO:0086064)|cellular calcium ion homeostasis (GO:0006874)|cellular response to caffeine (GO:0071313)|cellular response to epinephrine stimulus (GO:0071872)|cytosolic calcium ion homeostasis (GO:0051480)|detection of calcium ion (GO:0005513)|embryonic heart tube morphogenesis (GO:0003143)|establishment of protein localization to endoplasmic reticulum (GO:0072599)|ion transmembrane transport (GO:0034220)|left ventricular cardiac muscle tissue morphogenesis (GO:0003220)|positive regulation of calcium-transporting ATPase activity (GO:1901896)|positive regulation of heart rate (GO:0010460)|positive regulation of ryanodine-sensitive calcium-release channel activity by adrenergic receptor signaling pathway involved in positive regulation of cardiac muscle contraction (GO:0086094)|positive regulation of sequestering of calcium ion (GO:0051284)|Purkinje myocyte to ventricular cardiac muscle cell signaling (GO:0086029)|regulation of cardiac muscle contraction (GO:0055117)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of heart rate (GO:0002027)|release of sequestered calcium ion into cytosol (GO:0051209)|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0014808)|response to caffeine (GO:0031000)|response to hypoxia (GO:0001666)|response to redox state (GO:0051775)|sarcoplasmic reticulum calcium ion transport (GO:0070296)|transmembrane transport (GO:0055085)|type B pancreatic cell apoptotic process (GO:0097050)|ventricular cardiac muscle cell action potential (GO:0086005)	calcium channel complex (GO:0034704)|extracellular vesicular exosome (GO:0070062)|junctional sarcoplasmic reticulum membrane (GO:0014701)|membrane (GO:0016020)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|sarcoplasmic reticulum (GO:0016529)|sarcoplasmic reticulum membrane (GO:0033017)|smooth endoplasmic reticulum (GO:0005790)|Z disc (GO:0030018)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)|calcium-induced calcium release activity (GO:0048763)|calcium-release channel activity (GO:0015278)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|intracellular ligand-gated calcium channel activity (GO:0005218)|ion channel binding (GO:0044325)|protein kinase A catalytic subunit binding (GO:0034236)|protein kinase A regulatory subunit binding (GO:0034237)|ryanodine-sensitive calcium-release channel activity (GO:0005219)|suramin binding (GO:0043924)			NS(4)|breast(8)|central_nervous_system(11)|cervix(2)|endometrium(39)|haematopoietic_and_lymphoid_tissue(5)|kidney(17)|large_intestine(83)|liver(4)|lung(353)|ovary(18)|pancreas(5)|prostate(12)|skin(8)|stomach(1)|upper_aerodigestive_tract(12)|urinary_tract(4)	586	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)			AAGTCTGCAGGATCTCATTGG	0.463																																																0													84	82	82					1																	237617770		1919	4125	6044	SO:0001583	missense	6262			X91869	CCDS55691.1	1q43	2014-09-17			ENSG00000198626	ENSG00000198626		"Ion channels / Ryanodine receptors", "EF-hand domain containing"	10484	protein-coding gene	gene with protein product		180902	"arrhythmogenic right ventricular dysplasia 2"	ARVD2		2380170, 8406504, 11159936	Standard	NM_001035		Approved	ARVC2, VTSIP	uc001hyl.1	Q92736	OTTHUMG00000039543	ENST00000366574.2:c.1372G>T	1.37:g.237617770G>T	ENSP00000355533:p.Asp458Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q15411|Q546N8|Q5T3P2	Missense_Mutation	SNP	ENST00000366574.2	37	CCDS55691.1	.	.	.	.	.	.	.	.	.	.	G	17.49	3.403612	0.62288	.	.	ENSG00000198626	ENST00000366574;ENST00000360064;ENST00000542537	D;D;D	0.91180	-2.8;-2.8;-2.8	5.8	5.8	0.92144	Intracellular calcium-release channel (1);	0.000000	0.64402	U	0.000006	D	0.96131	0.8739	M	0.87180	2.865	0.80722	D	1	D	0.76494	0.999	D	0.72982	0.979	D	0.96166	0.9119	10	0.87932	D	0	.	20.0679	0.97707	0.0:0.0:1.0:0.0	.	458	Q92736	RYR2_HUMAN	Y	458;456;442	ENSP00000355533:D458Y;ENSP00000353174:D456Y;ENSP00000443798:D442Y	ENSP00000353174:D456Y	D	+	1	0	RYR2	235684393	1.000000	0.71417	1.000000	0.80357	0.023000	0.10783	9.804000	0.99143	2.747000	0.94245	0.551000	0.68910	GAT		0.463	RYR2-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000095402.2	NM_001035		T	237617770	G	T	237617770	3	4	621	1	0	0	0	0	1	0	0	0	13782	1174	41	4	1430	4	RYR2	1	237617770	Missense_Mutation	SNP	G	TCGA-J7-8537-01A-11D-2396-08	57570092	237617770	11632851	14	38079										
OR2L3	391192	hgsc.bcm.edu	37	chr1	248224864	248224864	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	catctatagcctgaggaacaAggaggtgatgggggccctga	15	8	1	3	rs543066146		TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr1:248224864A>G	ENST00000359959.3	+	1	881	c.881A>G	c.(880-882)aAg>aGg	p.K294R	OR2L13_ENST00000366478.2_Intron	NM_001004687.1	NP_001004687.1	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L, member 3	294						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			cervix(1)|endometrium(2)|large_intestine(7)|lung(28)|prostate(1)|skin(1)|urinary_tract(1)	41	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)			CTGAGGAACAAGGAGGTGATG	0.502													a|||	1	0.000199681	0.0	0.0	5008	,	,		18589	0.001		0.0	False		,,,				2504	0.0															0													56	57	57					1																	248224864		2203	4300	6503	SO:0001583	missense	391192			AB065950	CCDS31104.1	1q44	2012-08-09			ENSG00000198128	ENSG00000198128		"GPCR / Class A : Olfactory receptors"	15009	protein-coding gene	gene with protein product							Standard	NM_001004687		Approved		uc001idx.1	Q8NG85	OTTHUMG00000040195	ENST00000359959.3:c.881A>G	1.37:g.248224864A>G	ENSP00000353044:p.Lys294Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B9EH44	Missense_Mutation	SNP	ENST00000359959.3	37	CCDS31104.1	.	.	.	.	.	.	.	.	.	.	A	9.463	1.093601	0.20471	.	.	ENSG00000198128	ENST00000359959	T	0.41065	1.01	2.01	-0.867	0.10655	.	.	.	.	.	T	0.36054	0.0953	M	0.63169	1.94	0.23762	N	0.996914	B	0.21821	0.061	B	0.23852	0.049	T	0.32348	-0.9910	9	0.37606	T	0.19	.	6.329	0.21259	0.7597:0.0:0.2403:0.0	.	294	Q8NG85	OR2L3_HUMAN	R	294	ENSP00000353044:K294R	ENSP00000353044:K294R	K	+	2	0	OR2L3	246291487	0.000000	0.05858	0.908000	0.35775	0.606000	0.37113	0.414000	0.21164	-0.373000	0.07979	-0.475000	0.04921	AAG		0.502	OR2L3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096852.1	NM_001004687		G	248224864	A	G	248224864	3	3	621	1	0	0	0	0	1	0	0	0	11015	72	3	3	883	3	OR2L3	1	248224864	Missense_Mutation	SNP	A	TCGA-J7-8537-01A-11D-2396-08	10607094	248224864	1025757	15	38080										
GEN1	348654	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	17962008	17962008	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	gaattccaagttaaattcggGgatttcccctgatcctacat	7	10	0	1			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr2:17962008G>A	ENST00000381254.2	+	14	1743	c.1529G>A	c.(1528-1530)gGg>gAg	p.G510E	SMC6_ENST00000402989.1_Intron|GEN1_ENST00000317402.7_Missense_Mutation_p.G510E	NM_001130009.1	NP_001123481.1	Q17RS7	GEN_HUMAN	GEN1 Holliday junction 5' flap endonuclease	510					DNA catabolic process, endonucleolytic (GO:0000737)|double-strand break repair via homologous recombination (GO:0000724)|positive regulation of mitotic cell cycle spindle assembly checkpoint (GO:0090267)|regulation of centrosome duplication (GO:0010824)|resolution of mitotic recombination intermediates (GO:0071140)|resolution of recombination intermediates (GO:0071139)	centrosome (GO:0005813)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	crossover junction endodeoxyribonuclease activity (GO:0008821)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(6)|central_nervous_system(1)|kidney(1)|large_intestine(3)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	16	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TTAAATTCGGGGATTTCCCCT	0.373								Homologous recombination																																								0													82	80	80					2																	17962008		2203	4300	6503	SO:0001583	missense	348654			AK098188	CCDS1691.1	2p24.2	2013-06-04	2013-06-04		ENSG00000178295	ENSG00000178295			26881	protein-coding gene	gene with protein product	"Holliday junction resolvase"	612449	"Gen endonuclease homolog 1 (Drosophila)"			15576351	Standard	NM_182625		Approved	FLJ40869, Gen	uc002rct.2	Q17RS7	OTTHUMG00000121173	ENST00000381254.2:c.1529G>A	2.37:g.17962008G>A	ENSP00000370653:p.Gly510Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RS9|Q6ZN37	Missense_Mutation	SNP	ENST00000381254.2	37	CCDS1691.1	.	.	.	.	.	.	.	.	.	.	G	0.005	-2.178672	0.00308	.	.	ENSG00000178295	ENST00000317402;ENST00000381254;ENST00000528873;ENST00000536097	T;T;T	0.38560	1.96;1.96;1.13	5.46	1.86	0.25419	.	0.276329	0.30742	N	0.008968	T	0.11196	0.0273	N	0.01048	-1.04	0.09310	N	0.999996	B	0.02656	0.0	B	0.01281	0.0	T	0.36939	-0.9727	10	0.02654	T	1	-9.6119	7.6912	0.28569	0.7505:0.0:0.2495:0.0	.	510	Q17RS7	GEN_HUMAN	E	510;510;281;147	ENSP00000318977:G510E;ENSP00000370653:G510E;ENSP00000431542:G281E	ENSP00000318977:G510E	G	+	2	0	GEN1	17825489	0.204000	0.23447	0.429000	0.26710	0.003000	0.03518	1.257000	0.32932	0.473000	0.27368	-0.469000	0.05056	GGG		0.373	GEN1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241661.2	NM_182625		A	17962008	G	A	17962008	3	1	621	1	0	0	0	0	1	0	0	0	6342	1232	43	2	1579	2	GEN1	2	17962008	Missense_Mutation	SNP	G	TCGA-J7-8537-01A-11D-2396-08		17962008	225237365	16	38081										
APOB	338	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	21238283	21238283	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	tggaaactgtggagccataaGctgtagcagatgagtccatt	12	7	0	2			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr2:21238283G>A	ENST00000233242.1	-	22	3594	c.3467C>T	c.(3466-3468)gCt>gTt	p.A1156V		NM_000384.2	NP_000375	P04114	APOB_HUMAN	apolipoprotein B	1156					artery morphogenesis (GO:0048844)|blood coagulation (GO:0007596)|cellular response to prostaglandin stimulus (GO:0071379)|cellular response to tumor necrosis factor (GO:0071356)|cholesterol efflux (GO:0033344)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|cholesterol transport (GO:0030301)|fertilization (GO:0009566)|in utero embryonic development (GO:0001701)|leukocyte migration (GO:0050900)|lipoprotein biosynthetic process (GO:0042158)|lipoprotein catabolic process (GO:0042159)|lipoprotein metabolic process (GO:0042157)|lipoprotein transport (GO:0042953)|low-density lipoprotein particle clearance (GO:0034383)|low-density lipoprotein particle remodeling (GO:0034374)|nervous system development (GO:0007399)|phototransduction, visible light (GO:0007603)|positive regulation of cholesterol storage (GO:0010886)|positive regulation of lipid storage (GO:0010884)|positive regulation of macrophage derived foam cell differentiation (GO:0010744)|post-embryonic development (GO:0009791)|receptor-mediated endocytosis (GO:0006898)|regulation of cholesterol biosynthetic process (GO:0045540)|response to carbohydrate (GO:0009743)|response to lipopolysaccharide (GO:0032496)|response to selenium ion (GO:0010269)|response to virus (GO:0009615)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)|sperm motility (GO:0030317)|spermatogenesis (GO:0007283)|triglyceride catabolic process (GO:0019433)|triglyceride mobilization (GO:0006642)|very-low-density lipoprotein particle assembly (GO:0034379)	actin cytoskeleton (GO:0015629)|chylomicron (GO:0042627)|chylomicron remnant (GO:0034360)|clathrin-coated endocytic vesicle membrane (GO:0030669)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|early endosome (GO:0005769)|endocytic vesicle lumen (GO:0071682)|endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum membrane (GO:0005789)|endosome lumen (GO:0031904)|endosome membrane (GO:0010008)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|intermediate-density lipoprotein particle (GO:0034363)|intracellular membrane-bounded organelle (GO:0043231)|low-density lipoprotein particle (GO:0034362)|mature chylomicron (GO:0034359)|plasma membrane (GO:0005886)|very-low-density lipoprotein particle (GO:0034361)	cholesterol transporter activity (GO:0017127)|heparin binding (GO:0008201)|lipase binding (GO:0035473)|low-density lipoprotein particle receptor binding (GO:0050750)|phospholipid binding (GO:0005543)			NS(5)|autonomic_ganglia(1)|breast(6)|central_nervous_system(4)|cervix(3)|endometrium(19)|kidney(10)|large_intestine(63)|liver(5)|lung(125)|ovary(16)|pancreas(1)|prostate(5)|skin(31)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(6)	305	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGAGCCATAAGCTGTAGCAGA	0.507																																																0													140	121	128					2																	21238283		2203	4300	6503	SO:0001583	missense	338			M14162	CCDS1703.1	2p24-p23	2013-05-29	2013-05-29		ENSG00000084674	ENSG00000084674		"Apolipoproteins"	603	protein-coding gene	gene with protein product		107730	"apolipoprotein B (including Ag(x) antigen)"				Standard	NM_000384		Approved		uc002red.3	P04114	OTTHUMG00000090785	ENST00000233242.1:c.3467C>T	2.37:g.21238283G>A	ENSP00000233242:p.Ala1156Val	Somatic		WXS	Illumina HiSeq	Phase_I	O00502|P78479|P78480|P78481|Q13779|Q13785|Q13786|Q13787|Q13788|Q4ZG63|Q53QC8|Q7Z600|Q9UMN0	Missense_Mutation	SNP	ENST00000233242.1	37	CCDS1703.1	.	.	.	.	.	.	.	.	.	.	G	15.43	2.830038	0.50845	.	.	ENSG00000084674	ENST00000233242;ENST00000535079	T	0.00686	5.85	5.49	5.49	0.81192	.	0.100022	0.44483	D	0.000457	T	0.01870	0.0059	M	0.67953	2.075	0.80722	D	1	D	0.58620	0.983	P	0.53313	0.723	T	0.63216	-0.6687	10	0.06099	T	0.92	.	13.2457	0.60022	0.0756:0.0:0.9244:0.0	.	1156	P04114	APOB_HUMAN	V	1156	ENSP00000233242:A1156V	ENSP00000233242:A1156V	A	-	2	0	APOB	21091788	0.822000	0.29219	0.991000	0.47740	0.903000	0.53119	1.269000	0.33074	2.767000	0.95098	0.655000	0.94253	GCT		0.507	APOB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207571.1			A	21238283	G	A	21238283	3	1	621	1	0	0	0	0	1	0	0	0	785	971	34	2	10256	2	APOB	2	21238283	Missense_Mutation	SNP	G	TCGA-J7-8537-01A-11D-2396-08	3276275	21238283	221961090	17	38082										
RNF103	7844	hgsc.bcm.edu	37	chr2	86832538	86832538	+	Nonsense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	acccagcctcttctcctgcaAtatctacaagagaggaaact	6	13	3	1	rs373749370		TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr2:86832538A>C	ENST00000237455.4	-	4	1454	c.486T>G	c.(484-486)taT>taG	p.Y162*	CHMP3_ENST00000439940.2_Intron|RNF103-CHMP3_ENST00000604011.1_Intron|AC015971.2_ENST00000426549.1_RNA|RNF103_ENST00000477307.1_5'UTR|AC015971.2_ENST00000597638.1_RNA|AC015971.2_ENST00000424788.1_RNA|AC015971.2_ENST00000439077.1_RNA	NM_001198951.1|NM_005667.3	NP_001185880.1|NP_005658.1	O00237	RN103_HUMAN	ring finger protein 103	162					central nervous system development (GO:0007417)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|protein ubiquitination (GO:0016567)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(7)|lung(7)|skin(2)	25						TTCTCCTGCAATATCTACAAG	0.408																																																0													69	67	68					2																	86832538		2203	4300	6503	SO:0001587	stop_gained	7844			D76444	CCDS33237.1	2p11.2	2013-01-09	2003-05-14	2003-05-16	ENSG00000239305	ENSG00000239305		"RING-type (C3HC4) zinc fingers"	12859	protein-coding gene	gene with protein product		602507	"zinc finger protein 103 homolog (mouse)"	ZFP103		9070305	Standard	NM_005667		Approved	hkf-1, KF1	uc021vkg.1	O00237	OTTHUMG00000153197	ENST00000237455.4:c.486T>G	2.37:g.86832538A>C	ENSP00000237455:p.Tyr162*	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFV6|B2RAG4|Q53SU6|Q8IVB9	Nonsense_Mutation	SNP	ENST00000237455.4	37	CCDS33237.1	.	.	.	.	.	.	.	.	.	.	A	44	11.057122	0.99509	.	.	ENSG00000239305	ENST00000237455	.	.	.	5.64	2.81	0.32909	.	0.059364	0.64402	D	0.000002	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-13.5564	10.5449	0.45054	0.2165:0.0:0.7835:0.0	.	.	.	.	X	162	.	ENSP00000237455:Y162X	Y	-	3	2	RNF103	86686049	1.000000	0.71417	1.000000	0.80357	0.768000	0.43524	1.451000	0.35145	0.714000	0.32081	-0.468000	0.05107	TAT		0.408	RNF103-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000330041.2	NM_005667		C	86832538	A	C	86832538	4	2	621	1	0	0	0	0	0	1	0	0	13436	108	4	5	1575	5	RNF103	2	86832538	Nonsense_Mutation	SNP	A	TCGA-J7-8537-01A-11D-2396-08	65594255	86832538	156366835	18	38083										
LRP1B	53353	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	141607702	141607702	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	acagtttctaacccagttccGttaataaaagctcgtttaat	5	9	1	0	rs368565366		TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr2:141607702G>A	ENST00000389484.3	-	29	5879	c.4908C>T	c.(4906-4908)aaC>aaT	p.N1636N		NM_018557.2	NP_061027.2	Q9NZR2	LRP1B_HUMAN	low density lipoprotein receptor-related protein 1B	1636					protein transport (GO:0015031)|receptor-mediated endocytosis (GO:0006898)	integral component of membrane (GO:0016021)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)|low-density lipoprotein receptor activity (GO:0005041)			NS(5)|autonomic_ganglia(1)|biliary_tract(1)|breast(3)|central_nervous_system(7)|endometrium(25)|haematopoietic_and_lymphoid_tissue(10)|kidney(27)|large_intestine(98)|liver(4)|lung(337)|ovary(15)|pancreas(6)|prostate(11)|skin(30)|stomach(2)|upper_aerodigestive_tract(19)|urinary_tract(5)	606		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)		ACCCAGTTCCGTTAATAAAAG	0.318										TSP Lung(27;0.18)																											Colon(99;50 2074 2507 20106)											0								A		1,4405	4.2+/-10.8	0,1,2202	162	169	167		4908	0.2	1	2		167	0,8600		0,0,4300	no	coding-synonymous	LRP1B	NM_018557.2		0,1,6502	AA,AG,GG		0.0,0.0227,0.0077		1636/4600	141607702	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	53353			AF176832	CCDS2182.1	2q21.2	2013-05-29	2010-01-26		ENSG00000168702	ENSG00000168702		"Low density lipoprotein receptors"	6693	protein-coding gene	gene with protein product	"LRP-deleted in tumors"	608766				10766186	Standard	NM_018557		Approved	LRP-DIT, LRPDIT	uc002tvj.1	Q9NZR2	OTTHUMG00000131799	ENST00000389484.3:c.4908C>T	2.37:g.141607702G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8WY29|Q8WY30|Q8WY31	Silent	SNP	ENST00000389484.3	37	CCDS2182.1																																																																																				0.318	LRP1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254736.2	NM_018557		A	141607702	G	A	141607702	2	1	621	1	0	0	0	0	0	0	0	1	8962	1136	40	1		1	LRP1B	2	141607702	Silent	SNP	G	TCGA-J7-8537-01A-11D-2396-08	54775164	141607702	101591671	19	38084										
ORC2L	4999	bcgsc.ca	37	chr2	201791481	201791490	+	Splice_Site	DEL	TGAAACTTAC	TGAAACTTAC	-													0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	gtttttccctttaacattttTgaaacttactgatttcacac							TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	TGAAACTTAC	TGAAACTTAC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr2:201791481_201791490delTGAAACTTAC	ENST00000234296.2	-	12	1300		c.e12+1		RN7SL694P_ENST00000584245.1_RNA	NM_006190.4	NP_006181.1	Q13416	ORC2_HUMAN	origin recognition complex, subunit 2						DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)	condensed chromosome inner kinetochore (GO:0000939)|heterochromatin (GO:0000792)|membrane (GO:0016020)|nuclear origin of replication recognition complex (GO:0005664)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|origin recognition complex (GO:0000808)|plasma membrane (GO:0005886)	DNA replication origin binding (GO:0003688)			breast(1)|endometrium(1)|large_intestine(2)|lung(10)|ovary(1)|skin(4)|upper_aerodigestive_tract(1)	20						TTAACATTTTTGAAACTTACTGATTTCACA	0.367																																																0																																										SO:0001630	splice_region_variant	4999				CCDS2334.1	2q33	2010-10-12	2010-10-12	2010-10-12	ENSG00000115942	ENSG00000115942			8488	protein-coding gene	gene with protein product		601182	"origin recognition complex, subunit 2 (yeast homolog)-like", "origin recognition complex, subunit 2-like (yeast)", "origin recognition complex, subunit 2 homolog (yeast)"	ORC2L		8808289	Standard	NM_006190		Approved		uc002uwr.3	Q13416	OTTHUMG00000132783	ENST00000234296.2:c.1050+1GTAAGTTTCA>-	2.37:g.201791481_201791490delTGAAACTTAC		Somatic		WXS	Illumina HiSeq	Phase_1	Q13204|Q53TX5	Splice_Site	DEL	ENST00000234296.2	37	CCDS2334.1																																																																																				0.367	ORC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256191.2	NM_006190	Intron	-	201791490	TGAAACTTAC	-	201791481	8	5	621	1	0	1	0	1	0	0	1	0	11269	1827	63	0		0	ORC2L	2	201791481	Splice_Site	DEL	TGAAACTTAC	TCGA-J7-8537-01A-11D-2396-08	60183779	201791481	41407892	20	38085										
IGSF10	285313	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	151161388	151161388	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ttctgagacaactgtttggtTtgcaagaatccaggtaactg	10	7	1	2			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr3:151161388T>A	ENST00000282466.3	-	5	5346	c.5347A>T	c.(5347-5349)Aac>Tac	p.N1783Y	IGSF10_ENST00000495443.1_5'Flank	NM_001178145.1|NM_001178146.1|NM_178822.4	NP_001171616.1|NP_001171617.1|NP_849144.2	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10	1783	Ig-like C2-type 4.				cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)	extracellular region (GO:0005576)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(24)|liver(4)|lung(43)|ovary(8)|prostate(4)|skin(9)|stomach(1)|urinary_tract(3)	116			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			ACTGTTTGGTTTGCAAGAATC	0.498																																																0													125	112	116					3																	151161388		2203	4300	6503	SO:0001583	missense	285313			AY273815	CCDS3160.1	3q25.1	2013-01-11			ENSG00000152580	ENSG00000152580		"Immunoglobulin superfamily / I-set domain containing"	26384	protein-coding gene	gene with protein product						12477932	Standard	NM_178822		Approved	FLJ25972, CMF608	uc011bod.2	Q6WRI0	OTTHUMG00000159856	ENST00000282466.3:c.5347A>T	3.37:g.151161388T>A	ENSP00000282466:p.Asn1783Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q86YJ9|Q8N772|Q8NA84	Missense_Mutation	SNP	ENST00000282466.3	37	CCDS3160.1	.	.	.	.	.	.	.	.	.	.	T	18.09	3.546893	0.65198	.	.	ENSG00000152580	ENST00000282466;ENST00000544042	T	0.80909	-1.43	5.25	5.25	0.73442	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.52532	D	0.000074	D	0.89522	0.6739	M	0.85099	2.735	0.58432	D	0.999991	D	0.89917	1.0	D	0.97110	1.0	D	0.90304	0.4332	9	.	.	.	.	11.1386	0.48390	0.0:0.0747:0.0:0.9253	.	1783	Q6WRI0	IGS10_HUMAN	Y	1783;410	ENSP00000282466:N1783Y	.	N	-	1	0	IGSF10	152644078	1.000000	0.71417	1.000000	0.80357	0.971000	0.66376	4.209000	0.58493	1.989000	0.58080	0.477000	0.44152	AAC		0.498	IGSF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357782.1	NM_178822		A	151161388	T	A	151161388	3	1	621	1	0	0	0	0	1	0	0	0	7604	1841	64	5	2580	5	IGSF10	3	151161388	Missense_Mutation	SNP	T	TCGA-J7-8537-01A-11D-2396-08		151161388	46861042	21	38086										
GOLIM4	27333	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	167742778	167742778	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	actttgtttttgctcttcatTttcatctggcaaattttctt	4	8	5	0			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr3:167742778T>C	ENST00000470487.1	-	13	2418	c.1729A>G	c.(1729-1731)Aat>Gat	p.N577D	GOLIM4_ENST00000309027.4_Missense_Mutation_p.N549D	NM_014498.3	NP_055313.1	O00461	GOLI4_HUMAN	golgi integral membrane protein 4	577	Glu-rich.				transport (GO:0006810)	cis-Golgi network (GO:0005801)|endocytic vesicle (GO:0030139)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)				breast(5)|endometrium(2)|large_intestine(8)|lung(26)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	47						TGCTCTTCATTTTCATCTGGC	0.408																																																0													220	192	202					3																	167742778		2203	4300	6503	SO:0001583	missense	27333			U55853	CCDS3204.1	3q26	2007-07-30	2007-07-30	2007-07-30	ENSG00000173905	ENSG00000173905			15448	protein-coding gene	gene with protein product		606805	"golgi phosphoprotein 4"	GOLPH4		9201717, 15004235	Standard	NM_014498		Approved	GPP130, GIMPC, P138	uc003ffe.2	O00461	OTTHUMG00000158554	ENST00000470487.1:c.1729A>G	3.37:g.167742778T>C	ENSP00000417354:p.Asn577Asp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000470487.1	37	CCDS3204.1	.	.	.	.	.	.	.	.	.	.	T	18.56	3.649660	0.67358	.	.	ENSG00000173905	ENST00000470487;ENST00000309027	.	.	.	6.0	6.0	0.97389	.	0.224151	0.53938	D	0.000046	T	0.55577	0.1929	M	0.69823	2.125	0.35647	D	0.811481	P;P	0.40875	0.731;0.731	B;B	0.36845	0.234;0.234	T	0.63937	-0.6524	9	0.15499	T	0.54	-6.4985	16.56	0.84537	0.0:0.0:0.0:1.0	.	549;577	F8W785;O00461	.;GOLI4_HUMAN	D	577;549	.	ENSP00000309893:N549D	N	-	1	0	GOLIM4	169225472	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	4.450000	0.60041	2.313000	0.78055	0.454000	0.30748	AAT		0.408	GOLIM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351278.2			C	167742778	T	C	167742778	3	2	621	1	0	0	0	0	1	0	0	0	6573	1841	64	3	377	3	GOLIM4	3	167742778	Missense_Mutation	SNP	T	TCGA-J7-8537-01A-11D-2396-08	16581390	167742778	30279652	22	38087										
BST1	683	hgsc.bcm.edu	37	chr4	15704874	15704874	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ggcgcgcgcgcggtggcgcgGggagggcaccagcgcacact	20	14	0	0	rs2302468	byFrequency	TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr4:15704874G>C	ENST00000265016.4	+	1	302	c.107G>C	c.(106-108)gGg>gCg	p.G36A	BST1_ENST00000382346.3_Missense_Mutation_p.G36A	NM_004334.2	NP_004325.2	Q10588	BST1_HUMAN	bone marrow stromal cell antigen 1	36				G -> A (in Ref. 1; BAA04885). {ECO:0000305}.	humoral immune response (GO:0006959)|multicellular organismal development (GO:0007275)	anchored component of membrane (GO:0031225)|extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|plasma membrane (GO:0005886)	NAD(P)+ nucleosidase activity (GO:0050135)|NAD+ nucleosidase activity (GO:0003953)|transferase activity (GO:0016740)			central_nervous_system(1)|large_intestine(1)|lung(2)|stomach(3)|urinary_tract(1)	8						cggtggcgcggggAGGGCACC	0.736													G|||	381	0.0760783	0.0212	0.0389	5008	,	,		9714	0.2103		0.008	False		,,,				2504	0.1084															0								G	ALA/GLY	23,3787		0,23,1882	3	4	4		107	3.4	1	4	dbSNP_100	4	19,7693		0,19,3837	no	missense	BST1	NM_004334.2	60	0,42,5719	CC,CG,GG		0.2464,0.6037,0.3645	possibly-damaging	36/319	15704874	42,11480	1905	3856	5761	SO:0001583	missense	683			D21878	CCDS3416.1	4p15	2010-05-04			ENSG00000109743	ENSG00000109743	3.2.2.5	"CD molecules"	1118	protein-coding gene	gene with protein product	"NAD(+) nucleosidase", "ADP-ribosyl cyclase 2"	600387				8202488	Standard	NM_004334		Approved	CD157	uc003goh.4	Q10588	OTTHUMG00000097739	ENST00000265016.4:c.107G>C	4.37:g.15704874G>C	ENSP00000265016:p.Gly36Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6A2|Q1XII0|Q5U0K0|Q96EN3	Missense_Mutation	SNP	ENST00000265016.4	37	CCDS3416.1	141	0.06456043956043957	13	0.026422764227642278	10	0.027624309392265192	112	0.1958041958041958	6	0.0079155672823219	G	14.40	2.524166	0.44866	0.006037	0.002464	ENSG00000109743	ENST00000265016;ENST00000382346	T;T	0.17370	2.28;2.28	3.39	3.39	0.38822	.	0.510528	0.20699	N	0.087320	T	0.00039	0.0001	M	0.63843	1.955	0.36618	P	0.12441999999999998	D	0.76494	0.999	D	0.80764	0.994	T	0.04005	-1.0985	9	0.62326	D	0.03	-9.3919	10.4016	0.44233	0.0:0.0:1.0:0.0	rs2302468	36	Q10588	BST1_HUMAN	A	36	ENSP00000265016:G36A;ENSP00000371783:G36A	ENSP00000265016:G36A	G	+	2	0	BST1	15313972	0.859000	0.29813	0.955000	0.39395	0.020000	0.10135	2.992000	0.49417	1.879000	0.54435	0.462000	0.41574	GGG		0.736	BST1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000214968.2	NM_004334		C	15704874	G	C	15704874	3	2	621	1	0	0	0	0	1	0	0	0	1535	1232	43	4	109	4	BST1	4	15704874	Missense_Mutation	SNP	G	TCGA-J7-8537-01A-11D-2396-08		15704874	175449402	23	38088										
CENPE	1062	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	104117119	104117119	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	tcatgaattgccctgggtatAactcccaaatgatcttctga	7	10	3	3			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr4:104117119A>C	ENST00000265148.3	-	4	404	c.315T>G	c.(313-315)gtT>gtG	p.V105V	CENPE_ENST00000380026.3_Silent_p.V105V	NM_001813.2	NP_001804.2	Q02224	CENPE_HUMAN	centromere protein E, 312kDa	105	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|blood coagulation (GO:0007596)|kinetochore assembly (GO:0051382)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|mitotic cell cycle (GO:0000278)|mitotic chromosome movement towards spindle pole (GO:0007079)|mitotic metaphase plate congression (GO:0007080)|multicellular organismal development (GO:0007275)|positive regulation of protein kinase activity (GO:0045860)|regulation of mitotic metaphase/anaphase transition (GO:0030071)	chromosome (GO:0005694)|chromosome, centromeric region (GO:0000775)|condensed chromosome outer kinetochore (GO:0000940)|condensed chromosome, centromeric region (GO:0000779)|condensed nuclear chromosome kinetochore (GO:0000778)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinesin complex (GO:0005871)|kinetochore (GO:0000776)|membrane (GO:0016020)|microtubule (GO:0005874)|microtubule cytoskeleton (GO:0015630)|midbody (GO:0030496)|mitotic spindle midzone (GO:1990023)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|kinetochore binding (GO:0043515)|microtubule motor activity (GO:0003777)			NS(3)|breast(6)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(20)|lung(34)|ovary(5)|pancreas(1)|prostate(2)|skin(3)|stomach(5)|urinary_tract(3)	101				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		CCCTGGGTATAACTCCCAAAT	0.358																																																0													106	101	103					4																	104117119		2202	4300	6502	SO:0001819	synonymous_variant	1062			Z15005	CCDS34042.1, CCDS68768.1	4q24-q25	2013-11-05	2002-08-29			ENSG00000138778		"Kinesins", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	1856	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 61"	117143	"centromere protein E (312kD)"			7851898	Standard	NM_001286734		Approved	KIF10, PPP1R61	uc003hxb.1	Q02224		ENST00000265148.3:c.315T>G	4.37:g.104117119A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKY9|A8K2U7|Q4LE75	Silent	SNP	ENST00000265148.3	37	CCDS34042.1																																																																																				0.358	CENPE-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding				C	104117119	A	C	104117119	2	2	621	1	0	0	0	0	0	0	0	1	3232	349	13	5		5	CENPE	4	104117119	Silent	SNP	A	TCGA-J7-8537-01A-11D-2396-08	88412245	104117119	87037157	24	38089										
MAML3	55534	broad.mit.edu	37	chr4	140810639	140810641	+	In_Frame_Del	DEL	GCT	GCT	-													0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ctggagctgtggaggtggcgGctgctgctgctgctgctgct					rs372496848		TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	GCT	GCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr4:140810639_140810641delGCT	ENST00000509479.2	-	2	2805_2807	c.1949_1951delAGC	c.(1948-1953)cagccg>ccg	p.Q650del	MAML3_ENST00000327122.5_In_Frame_Del_p.Q494del|MAML3_ENST00000398940.1_In_Frame_Del_p.Q178del	NM_018717.4	NP_061187			mastermind-like 3 (Drosophila)											breast(1)|endometrium(7)|kidney(2)|large_intestine(1)|lung(9)|ovary(1)|prostate(2)|urinary_tract(2)	25	all_hematologic(180;0.162)					GGAGGTGGCGgctgctgctgctg	0.586																																																0																																										SO:0001651	inframe_deletion	55534			AB058719	CCDS54805.1	4q31.1	2014-08-12	2003-09-24		ENSG00000196782	ENSG00000196782			16272	protein-coding gene	gene with protein product	"mastermind (drosophila)-like 3"	608991	"trinucleotide repeat containing 3"	TNRC3		12370315, 12386158	Standard	NM_018717		Approved	KIAA1816, MAM2, CAGH3, GDN	uc021xsg.1	Q96JK9	OTTHUMG00000161441	ENST00000509479.2:c.1949_1951delAGC	4.37:g.140810648_140810650delGCT	ENSP00000421180:p.Gln650del	Somatic		WXS	Illumina HiSeq	Phase_I		In_Frame_Del	DEL	ENST00000509479.2	37	CCDS54805.1																																																																																				0.586	MAML3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364934.2			-	140810641	GCT	-	140810639	7	5	621	1	0	1	0	1	0	0	0	0	9214	1203	42	0	1481	0	MAML3	4	140810639	In_Frame_Del	DEL	GCT	TCGA-J7-8537-01A-11D-2396-08	36693520	140810639	50343637	25	38090										
FAT1	2195	broad.mit.edu	37	chr4	187539365	187539365	+	Frame_Shift_Del	DEL	G	G	-													0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	cttggatactaacatctacaGaagccaccatctcatggtca							TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr4:187539365delG	ENST00000441802.2	-	10	8584	c.8375delC	c.(8374-8376)tctfs	p.S2792fs		NM_005245.3	NP_005236.2	Q14517	FAT1_HUMAN	FAT atypical cadherin 1	2792	Cadherin 25. {ECO:0000255|PROSITE- ProRule:PRU00043}.				actin filament organization (GO:0007015)|anatomical structure morphogenesis (GO:0009653)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|cell-cell signaling (GO:0007267)|establishment or maintenance of cell polarity (GO:0007163)|homophilic cell adhesion (GO:0007156)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(38)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(33)|lung(88)|ovary(13)|pancreas(2)|prostate(16)|skin(2)|upper_aerodigestive_tract(11)|urinary_tract(4)	228						AACATCTACAGAAGCCACCAT	0.443										HNSCC(5;0.00058)																											Colon(197;1040 2055 4143 4984 49344)											0													197	193	194					4																	187539365		1966	4163	6129	SO:0001589	frameshift_variant	2195			X87241	CCDS47177.1	4q35.2	2013-05-31	2013-05-31	2008-10-30	ENSG00000083857	ENSG00000083857		"Cadherins / Cadherin-related"	3595	protein-coding gene	gene with protein product	"cadherin-related family member 8"	600976	"FAT tumor suppressor (Drosophila) homolog", "FAT tumor suppressor homolog 1 (Drosophila)"	FAT		8586420	Standard	XM_005262834		Approved	CDHF7, CDHR8	uc003izf.3	Q14517	OTTHUMG00000160320	ENST00000441802.2:c.8375delC	4.37:g.187539365delG	ENSP00000406229:p.Ser2792fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000441802.2	37	CCDS47177.1																																																																																				0.443	FAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360209.3	NM_005245		-	187539365	G	-	187539365	7	5	621	1	0	1	0	1	0	0	0	0	5696	942	33	0	5463	0	FAT1	4	187539365	Frame_Shift_Del	DEL	G	TCGA-J7-8537-01A-11D-2396-08	46728726	187539365	3614911	26	38091										
TPPP	11076	hgsc.bcm.edu	37	chr5	678087	678087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	cctccgattccagcgacagcCtcttggctgcccggtccttc	9	18	1	0	rs570878136	byFrequency	TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr5:678087C>T	ENST00000360578.5	-	2	210	c.89G>A	c.(88-90)aGg>aAg	p.R30K	CTD-2589H19.6_ENST00000607068.1_RNA	NM_007030.2	NP_008961.1	O94811	TPPP_HUMAN	tubulin polymerization promoting protein	30	Mediates interaction with LIMK1.				microtubule bundle formation (GO:0001578)|microtubule polymerization (GO:0046785)|positive regulation of protein complex assembly (GO:0031334)|positive regulation of protein polymerization (GO:0032273)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	microtubule binding (GO:0008017)|tubulin binding (GO:0015631)	p.R30K(1)		kidney(1)|large_intestine(1)|lung(2)|prostate(1)	5		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)		CAGCGACAGCCTCTTGGCTGC	0.677													C|||	15	0.00299521	0.0061	0.0	5008	,	,		16462	0.0069		0.0	False		,,,				2504	0.0															1	Substitution - Missense(1)	prostate(1)											14	17	16					5																	678087		2199	4295	6494	SO:0001583	missense	11076			AB017016	CCDS3856.1	5p15.33	2008-02-05			ENSG00000171368	ENSG00000171368			24164	protein-coding gene	gene with protein product	"brain specific protein p25 alpha"	608773				10083737, 12093283, 15590652, 17105200	Standard	NM_007030		Approved	p25alpha, TPPP1, p25, TPPP/p25	uc003jbh.4	O94811	OTTHUMG00000131011	ENST00000360578.5:c.89G>A	5.37:g.678087C>T	ENSP00000353785:p.Arg30Lys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000360578.5	37	CCDS3856.1	.	.	.	.	.	.	.	.	.	.	c	14.67	2.605282	0.46423	.	.	ENSG00000171368	ENST00000360578	T	0.45276	0.9	5.23	5.23	0.72850	.	0.149935	0.44902	D	0.000407	T	0.29588	0.0738	L	0.29908	0.895	0.44635	D	0.997618	B	0.15141	0.012	B	0.13407	0.009	T	0.11867	-1.0570	10	0.05436	T	0.98	-54.1656	16.5545	0.84482	0.0:1.0:0.0:0.0	.	30	O94811	TPPP_HUMAN	K	30	ENSP00000353785:R30K	ENSP00000353785:R30K	R	-	2	0	TPPP	731087	1.000000	0.71417	0.998000	0.56505	0.405000	0.30901	4.081000	0.57627	2.437000	0.82529	0.491000	0.48974	AGG		0.677	TPPP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253645.3	NM_007030		T	678087	C	T	678087	3	4	621	1	0	0	0	0	1	0	0	0	16425	681	24	2	582	2	TPPP	5	678087	Missense_Mutation	SNP	C	TCGA-J7-8537-01A-11D-2396-08		678087	180237173	27	38092										
IL6ST	3572	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	55247844	55247844	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	aacaggaagttggtcccactCtaagacagcttcgtttttcc	8	11	1	1			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr5:55247844C>G	ENST00000381298.2	-	13	1924	c.1612G>C	c.(1612-1614)Gag>Cag	p.E538Q	IL6ST_ENST00000381287.4_3'UTR|IL6ST_ENST00000336909.5_Missense_Mutation_p.E538Q|IL6ST_ENST00000502326.3_Missense_Mutation_p.E538Q|IL6ST_ENST00000522633.2_3'UTR|IL6ST_ENST00000536319.1_3'UTR|IL6ST_ENST00000381294.3_Missense_Mutation_p.E477Q|IL6ST_ENST00000381286.3_Intron|IL6ST_ENST00000381293.2_Intron	NM_001190981.1|NM_002184.3|NM_175767.2	NP_001177910.1|NP_002175.2|NP_786943.1	P40189	IL6RB_HUMAN	interleukin 6 signal transducer	538	Fibronectin type-III 5. {ECO:0000255|PROSITE-ProRule:PRU00316}.				ciliary neurotrophic factor-mediated signaling pathway (GO:0070120)|cytokine-mediated signaling pathway (GO:0019221)|glycogen metabolic process (GO:0005977)|interleukin-27-mediated signaling pathway (GO:0070106)|interleukin-6-mediated signaling pathway (GO:0070102)|leukemia inhibitory factor signaling pathway (GO:0048861)|negative regulation of apoptotic process (GO:0043066)|negative regulation of interleukin-6-mediated signaling pathway (GO:0070104)|oncostatin-M-mediated signaling pathway (GO:0038165)|positive regulation of acute inflammatory response (GO:0002675)|positive regulation of adaptive immune response (GO:0002821)|positive regulation of astrocyte differentiation (GO:0048711)|positive regulation of cardiac muscle hypertrophy (GO:0010613)|positive regulation of cell proliferation (GO:0008284)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of T cell proliferation (GO:0042102)|positive regulation of tyrosine phosphorylation of Stat1 protein (GO:0042511)|positive regulation of tyrosine phosphorylation of Stat3 protein (GO:0042517)|positive regulation vascular endothelial growth factor production (GO:0010575)|regulation of Notch signaling pathway (GO:0008593)|response to cytokine (GO:0034097)|viral process (GO:0016032)	ciliary neurotrophic factor receptor complex (GO:0070110)|dendrite (GO:0030425)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|interleukin-6 receptor complex (GO:0005896)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|oncostatin-M receptor complex (GO:0005900)|plasma membrane (GO:0005886)	ciliary neurotrophic factor receptor activity (GO:0004897)|ciliary neurotrophic factor receptor binding (GO:0005127)|growth factor binding (GO:0019838)|interleukin-11 receptor activity (GO:0004921)|interleukin-27 receptor activity (GO:0045509)|protein homodimerization activity (GO:0042803)			breast(2)|endometrium(5)|kidney(5)|large_intestine(4)|liver(2)|lung(1)|ovary(1)|prostate(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	26		Lung NSC(810;8.69e-05)|Prostate(74;0.00308)|Breast(144;0.0544)|Ovarian(174;0.223)				TGGTCCCACTCTAAGACAGCT	0.348			O		hepatocellular ca																																		Dom	yes		5	5q11	3572	"interleukin 6 signal transducer (gp130, oncostatin M receptor)"		E	0													75	64	68					5																	55247844		2203	4300	6503	SO:0001583	missense	3572			M57230	CCDS3971.1, CCDS47209.1, CCDS54856.1	5q11.2	2014-04-04	2014-04-04		ENSG00000134352	ENSG00000134352		"Interleukins and interleukin receptors", "CD molecules", "Fibronectin type III domain containing"	6021	protein-coding gene	gene with protein product	"gp130, oncostatin M receptor"	600694	"interleukin 6 signal transducer (gp130, oncostatin M receptor)"			2261637	Standard	NM_002184		Approved	GP130, CD130	uc003jqq.3	P40189	OTTHUMG00000097043	ENST00000381298.2:c.1612G>C	5.37:g.55247844C>G	ENSP00000370698:p.Glu538Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A0N0L4|Q5FC04|Q9UQ41	Missense_Mutation	SNP	ENST00000381298.2	37	CCDS3971.1	.	.	.	.	.	.	.	.	.	.	C	12.30	1.897415	0.33535	.	.	ENSG00000134352	ENST00000381298;ENST00000336909;ENST00000381294	T;T;T	0.57273	0.41;0.41;0.41	5.83	5.83	0.93111	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.455228	0.26089	N	0.026407	T	0.22085	0.0532	N	0.01352	-0.895	0.80722	D	1	B;B;B	0.18610	0.008;0.029;0.008	B;B;B	0.21151	0.011;0.033;0.011	T	0.29181	-1.0020	10	0.13853	T	0.58	.	9.4221	0.38557	0.0:0.7741:0.1461:0.0799	.	538;477;538	Q17RA0;Q5FC04;P40189	.;.;IL6RB_HUMAN	Q	538;538;477	ENSP00000370698:E538Q;ENSP00000338799:E538Q;ENSP00000370694:E477Q	ENSP00000338799:E538Q	E	-	1	0	IL6ST	55283601	1.000000	0.71417	1.000000	0.80357	0.960000	0.62799	0.907000	0.28531	2.770000	0.95276	0.655000	0.94253	GAG		0.348	IL6ST-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000214146.3	NM_002184		G	55247844	C	G	55247844	3	3	621	1	0	0	0	0	1	0	0	0	7710	922	32	4	1164	4	IL6ST	5	55247844	Missense_Mutation	SNP	C	TCGA-J7-8537-01A-11D-2396-08	54569757	55247844	125667416	28	38093										
PCDHGA1	56114	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	140712677	140712677	+	Intron	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ggaaccattttctcaggtaaActtttgtgatgaatgtatca	8	6	2	2			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr5:140712677A>G	ENST00000517417.1	+	1	2421				PCDHGA1_ENST00000378105.3_Missense_Mutation_p.N809S	NM_018912.2	NP_061735.1	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1						homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(18)|lung(32)|ovary(1)|pancreas(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	78			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTCAGGTAAACTTTTGTGAT	0.388																																																0													50	53	52					5																	140712677		2203	4300	6503	SO:0001627	intron_variant	56114			AF152318	CCDS54922.1	5q31	2010-01-26				ENSG00000204956		"Cadherins / Protocadherins : Clustered"	8696	other	protocadherin		606288				10380929	Standard	NM_018912		Approved	PCDH-GAMMA-A1		Q9Y5H4		ENST00000517417.1:c.2421+5A>G	5.37:g.140712677A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M273|Q9Y5D6	Missense_Mutation	SNP	ENST00000517417.1	37	CCDS54922.1	.	.	.	.	.	.	.	.	.	.	.	2.192	-0.385092	0.04966	.	.	ENSG00000204956	ENST00000378105	T	0.47869	0.83	4.15	0.129	0.14739	.	0.924660	0.08888	U	0.879068	T	0.21427	0.0516	N	0.08118	0	0.09310	N	0.999996	B	0.13145	0.007	B	0.09377	0.004	T	0.20174	-1.0283	9	.	.	.	.	2.5439	0.04732	0.462:0.0:0.194:0.344	.	809	Q9Y5H4-2	.	S	809	ENSP00000367345:N809S	.	N	+	2	0	PCDHGA1	140692861	0.001000	0.12720	0.351000	0.25721	0.671000	0.39405	-0.689000	0.05144	-0.058000	0.13177	-0.468000	0.05107	AAC		0.388	PCDHGA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000374737.1	NM_018912		G	140712677	A	G	140712677	1	3	621	0	1	0	0	0	0	0	0	0	11557	43	2	3		3	PCDHGA1	5	140712677	Intron	SNP	A	TCGA-J7-8537-01A-11D-2396-08	85464833	140712677	40202583	29	38094										
CSF1R	1436	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	149433707	149433707	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	tcgcagcaggtcaggtgctcActagagctctcctcctccag	10	15	3	1			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr5:149433707A>T	ENST00000286301.3	-	22	3135	c.2844T>A	c.(2842-2844)agT>agA	p.S948R		NM_005211.3	NP_005202.2	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor	948					cell proliferation (GO:0008283)|cell-cell junction maintenance (GO:0045217)|cellular response to cytokine stimulus (GO:0071345)|cellular response to macrophage colony-stimulating factor stimulus (GO:0036006)|cytokine-mediated signaling pathway (GO:0019221)|hemopoiesis (GO:0030097)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|macrophage differentiation (GO:0030225)|mammary gland duct morphogenesis (GO:0060603)|monocyte differentiation (GO:0030224)|multicellular organismal development (GO:0007275)|osteoclast differentiation (GO:0030316)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphatidylinositol metabolic process (GO:0046488)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell migration (GO:0030335)|positive regulation of cell motility (GO:2000147)|positive regulation of cell proliferation (GO:0008284)|positive regulation of chemokine secretion (GO:0090197)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein serine/threonine kinase activity (GO:0071902)|positive regulation of protein tyrosine kinase activity (GO:0061098)|positive regulation of tyrosine phosphorylation of Stat3 protein (GO:0042517)|protein autophosphorylation (GO:0046777)|regulation of actin cytoskeleton reorganization (GO:2000249)|regulation of bone resorption (GO:0045124)|regulation of cell shape (GO:0008360)|ruffle organization (GO:0031529)|signal transduction (GO:0007165)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|cytokine binding (GO:0019955)|macrophage colony-stimulating factor receptor activity (GO:0005011)|protein homodimerization activity (GO:0042803)			NS(2)|breast(2)|central_nervous_system(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(38)|kidney(2)|large_intestine(6)|liver(3)|lung(23)|ovary(2)|pancreas(1)|prostate(3)|upper_aerodigestive_tract(2)|urinary_tract(3)	93			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	TCAGGTGCTCACTAGAGCTCT	0.602																																																0													38	35	36					5																	149433707		2203	4300	6503	SO:0001583	missense	1436			U63963	CCDS4302.1	5q32	2013-01-11	2008-08-01		ENSG00000182578	ENSG00000182578		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	2433	protein-coding gene	gene with protein product		164770	"McDonough feline sarcoma viral (v-fms) oncogene homolog"	FMS		1611909	Standard	NM_005211		Approved	C-FMS, CSFR, CD115	uc003lrm.3	P07333	OTTHUMG00000130050	ENST00000286301.3:c.2844T>A	5.37:g.149433707A>T	ENSP00000286301:p.Ser948Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B5A955|D3DQG2|Q6LDW5|Q6LDY4|Q86VW7	Missense_Mutation	SNP	ENST00000286301.3	37	CCDS4302.1	.	.	.	.	.	.	.	.	.	.	A	9.983	1.228611	0.22542	.	.	ENSG00000182578	ENST00000286301	T	0.30182	1.54	5.25	-4.77	0.03219	.	0.092077	0.47852	D	0.000212	T	0.23133	0.0559	L	0.50333	1.59	0.54753	D	0.999989	D	0.54397	0.966	B	0.44315	0.446	T	0.11792	-1.0573	10	0.51188	T	0.08	.	7.9653	0.30095	0.2777:0.0:0.6023:0.12	.	948	P07333	CSF1R_HUMAN	R	948	ENSP00000286301:S948R	ENSP00000286301:S948R	S	-	3	2	CSF1R	149413900	0.078000	0.21339	0.618000	0.29105	0.009000	0.06853	-0.609000	0.05635	-0.866000	0.04068	-0.490000	0.04691	AGT		0.602	CSF1R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252329.2	NM_005211		T	149433707	A	T	149433707	3	4	621	1	0	0	0	0	1	0	0	0	3934	156	6	5	78	5	CSF1R	5	149433707	Missense_Mutation	SNP	A	TCGA-J7-8537-01A-11D-2396-08	8721030	149433707	31481553	30	38095										
ZNF184	7738	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	27420221	27420223	+	In_Frame_Del	DEL	TGG	TGG	-													0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ttgagtaaggtgtgtgctccTggtgaaggttttatcacatt							TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	TGG	TGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr6:27420221_27420223delTGG	ENST00000211936.6	-	6	1399_1401	c.1115_1117delCCA	c.(1114-1119)accagg>agg	p.T372del	ZNF184_ENST00000377419.1_In_Frame_Del_p.T372del	NM_007149.2	NP_009080.2	Q99676	ZN184_HUMAN	zinc finger protein 184	372					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(4)|kidney(9)|large_intestine(13)|lung(14)|ovary(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	48						TGTGTGCTCCTGGTGAAGGTTTT	0.379																																																0																																										SO:0001651	inframe_deletion	7738			U66561	CCDS4624.1	6p21.3	2013-01-08	2006-06-28		ENSG00000096654	ENSG00000096654		"Zinc fingers, C2H2-type", "-"	12975	protein-coding gene	gene with protein product		602277	"zinc finger protein 184 (Kruppel-like)"				Standard	NM_007149		Approved		uc003nji.3	Q99676	OTTHUMG00000014478	ENST00000211936.6:c.1115_1117delCCA	6.37:g.27420221_27420223delTGG	ENSP00000211936:p.Thr372del	Somatic		WXS	Illumina HiSeq	Phase_I	B2R715|O60792|Q8TBA9	In_Frame_Del	DEL	ENST00000211936.6	37	CCDS4624.1																																																																																				0.379	ZNF184-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040146.1	NM_007149		-	27420223	TGG	-	27420221	7	5	621	1	0	1	0	1	0	0	0	0	17763	1579	55	0	1142	0	ZNF184	6	27420221	In_Frame_Del	DEL	TGG	TCGA-J7-8537-01A-11D-2396-08		27420221	143694846	31	38096										
HLA-G	3135	ucsc.edu	37	chr6	29797253	29797253	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	gactatgaggccaccctgagGtgctgggccctgggcttcta	14	12	1	2			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr6:29797253G>A	ENST00000360323.6	+	4	702	c.678G>A	c.(676-678)agG>agA	p.R226R	HLA-G_ENST00000376818.3_Silent_p.R134R|HLA-G_ENST00000376828.2_Silent_p.R231R|HLA-G_ENST00000428701.1_Silent_p.R226R|HLA-G_ENST00000376815.3_Intron			P17693	HLAG_HUMAN	major histocompatibility complex, class I, G	226	Alpha-3.|Ig-like C1-type.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular defense response (GO:0006968)|cytokine-mediated signaling pathway (GO:0019221)|immune response-inhibiting cell surface receptor signaling pathway (GO:0002767)|interferon-gamma-mediated signaling pathway (GO:0060333)|negative regulation of dendritic cell differentiation (GO:2001199)|negative regulation of T cell proliferation (GO:0042130)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of regulatory T cell differentiation (GO:0045591)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|positive regulation of T cell tolerance induction (GO:0002666)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)	early endosome membrane (GO:0031901)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|membrane (GO:0016020)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)	p.R226S(1)		central_nervous_system(1)|endometrium(1)|large_intestine(5)|lung(4)|ovary(3)|pancreas(1)|prostate(5)|skin(1)	21						CCACCCTGAGGTGCTGGGCCC	0.592																																																1	Substitution - Missense(1)	lung(1)											92	96	94					6																	29797253		2203	4300	6503	SO:0001819	synonymous_variant	3135				CCDS4668.1	6p21.3	2013-01-11	2007-12-12		ENSG00000204632	ENSG00000204632		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4964	protein-coding gene	gene with protein product	"b2 microglobulin"	142871	"HLA-G histocompatibility antigen, class I, G"				Standard	NM_002127		Approved		uc003nnw.2	P17693	OTTHUMG00000031157	ENST00000360323.6:c.678G>A	6.37:g.29797253G>A		Somatic		WXS	Illumina HiSeq			Silent	SNP	ENST00000360323.6	37	CCDS4668.1																																																																																				0.592	HLA-G-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076286.2	NM_002127		A	29797253	G	A	29797253	2	1	621	1	0	0	0	0	0	0	0	1	7219	1252	44	2		2	HLA-G	6	29797253	Silent	SNP	G	TCGA-J7-8537-01A-11D-2396-08	2377032	29797253	141317814	32	38097										
VARS	7407	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	31762754	31762754	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	tgggccccccaggcctgctgGccacagcagctgggccacag	14	17	0	0			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr6:31762754G>T	ENST00000375663.3	-	2	681	c.241C>A	c.(241-243)Cca>Aca	p.P81T	LSM2_ENST00000491421.1_5'Flank|VARS_ENST00000444930.2_Intron	NM_006295.2	NP_006286.1	P26640	SYVC_HUMAN	valyl-tRNA synthetase	81					gene expression (GO:0010467)|tRNA aminoacylation for protein translation (GO:0006418)|valyl-tRNA aminoacylation (GO:0006438)	cytosol (GO:0005829)|mitochondrion (GO:0005739)	aminoacyl-tRNA editing activity (GO:0002161)|ATP binding (GO:0005524)|valine-tRNA ligase activity (GO:0004832)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(18)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	30					L-Valine(DB00161)	AGGCCTGCTGGCCACAGCAGC	0.711																																																0													13	19	16					6																	31762754		1478	2637	4115	SO:0001583	missense	7407			BC012808	CCDS34412.1	6p21.3	2011-07-01		2005-07-05	ENSG00000204394	ENSG00000204394	6.1.1.9	"Aminoacyl tRNA synthetases / Class I"	12651	protein-coding gene	gene with protein product	"valine tRNA ligase 1, cytoplasmic"	192150	"valyl-tRNA synthetase 2"	VARS2		15779907	Standard	XM_005249362		Approved		uc003nxe.3	P26640	OTTHUMG00000031286	ENST00000375663.3:c.241C>A	6.37:g.31762754G>T	ENSP00000364815:p.Pro81Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B0V1N1|B4DZ61|Q5JQ90|Q96E77|Q9UQM2	Missense_Mutation	SNP	ENST00000375663.3	37	CCDS34412.1	.	.	.	.	.	.	.	.	.	.	G	14.34	2.505254	0.44558	.	.	ENSG00000204394	ENST00000375663;ENST00000440048	T;T	0.06849	3.25;3.25	5.24	5.24	0.73138	Glutathione S-transferase, N-terminal (1);	0.142308	0.47455	D	0.000231	T	0.04003	0.0112	N	0.24115	0.695	0.80722	D	1	P	0.44139	0.827	P	0.45276	0.475	T	0.29366	-1.0014	10	0.87932	D	0	-2.2071	9.8609	0.41114	0.0931:0.0:0.9069:0.0	.	81	P26640	SYVC_HUMAN	T	81	ENSP00000364815:P81T;ENSP00000413925:P81T	ENSP00000364815:P81T	P	-	1	0	VARS	31870733	1.000000	0.71417	0.999000	0.59377	0.392000	0.30506	2.707000	0.47143	2.461000	0.83175	0.462000	0.41574	CCA		0.711	VARS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076619.2	NM_006295		T	31762754	G	T	31762754	3	4	621	1	0	0	0	0	1	0	0	0	17135	1203	42	4	3669	4	VARS	6	31762754	Missense_Mutation	SNP	G	TCGA-J7-8537-01A-11D-2396-08	1965501	31762754	139352313	33	38098										
AARS2	57505	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	44272835	44272835	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	agtagttgtacttggggctgTcgtcagttgggggcactcct	15	8	1	0			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr6:44272835T>A	ENST00000244571.4	-	11	1537	c.1535A>T	c.(1534-1536)gAc>gTc	p.D512V	TMEM151B_ENST00000438774.2_Intron|RP11-444E17.6_ENST00000505802.1_Intron	NM_020745.3	NP_065796			alanyl-tRNA synthetase 2, mitochondrial											breast(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(1)|large_intestine(7)|lung(11)|ovary(3)|prostate(3)|skin(2)|stomach(1)	34	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CTTGGGGCTGTCGTCAGTTGG	0.607											OREG0017473	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													128	121	123					6																	44272835		2203	4300	6503	SO:0001583	missense	57505			AB033096	CCDS34464.1	6p21.1	2012-10-26	2012-10-26	2007-02-23	ENSG00000124608	ENSG00000124608	6.1.1.7	"Aminoacyl tRNA synthetases / Class II"	21022	protein-coding gene	gene with protein product	"alanine tRNA ligase 2, mitochondrial"	612035	"alanyl-tRNA synthetase like", "alanyl-tRNA synthetase 2, mitochondrial (putative)"	AARSL		15779907, 21549344	Standard	NM_020745		Approved	KIAA1270, bA444E17.1	uc010jza.1	Q5JTZ9	OTTHUMG00000014766	ENST00000244571.4:c.1535A>T	6.37:g.44272835T>A	ENSP00000244571:p.Asp512Val	Somatic	922	WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000244571.4	37	CCDS34464.1	.	.	.	.	.	.	.	.	.	.	T	13.94	2.385639	0.42308	.	.	ENSG00000124608	ENST00000244571	T	0.72725	-0.68	5.01	3.83	0.44106	Alanyl-tRNA synthetase, class IIc, anti-codon-binding domain (1);Alanyl-tRNA synthetase, class IIc, core domain (1);Alanyl-tRNA synthetase, class IIc, N-terminal (1);	0.096640	0.64402	D	0.000001	T	0.77478	0.4136	M	0.73598	2.24	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.79962	-0.1582	10	0.87932	D	0	-17.649	12.7414	0.57255	0.0:0.0715:0.0:0.9285	.	512	Q5JTZ9	SYAM_HUMAN	V	512	ENSP00000244571:D512V	ENSP00000244571:D512V	D	-	2	0	AARS2	44380813	1.000000	0.71417	0.925000	0.36789	0.052000	0.14988	5.622000	0.67750	0.272000	0.22027	-1.186000	0.01703	GAC		0.607	AARS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040741.2	NM_020745		A	44272835	T	A	44272835	3	1	621	1	0	0	0	0	1	0	0	0	20	1667	58	5	1470	5	AARS2	6	44272835	Missense_Mutation	SNP	T	TCGA-J7-8537-01A-11D-2396-08	12510081	44272835	126842232	34	38099										
FOXK1	221937	broad.mit.edu	37	chr7	4802068	4802068	+	Frame_Shift_Del	DEL	C	C	-													0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ggagtgatcgcagctgccggCccccaggggccaggcaccgg							TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr7:4802068delC	ENST00000328914.4	+	9	2175	c.2175delC	c.(2173-2175)ggcfs	p.G725fs	FOXK1_ENST00000446823.1_Frame_Shift_Del_p.G562fs	NM_001037165.1	NP_001032242.1			forkhead box K1											breast(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(9)|lung(7)|ovary(1)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	29		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;7.43e-15)		CAGCTGCCGGCCCCCAGGGGC	0.706																																																0													6	8	8					7																	4802068		2034	3968	6002	SO:0001589	frameshift_variant	221937			BK004104	CCDS34591.1	7p22	2006-12-15			ENSG00000164916	ENSG00000164916		"Forkhead boxes"	23480	protein-coding gene	gene with protein product						15202027	Standard	NM_001037165		Approved	IMAGE:5164497	uc003snc.1	P85037	OTTHUMG00000151739	ENST00000328914.4:c.2175delC	7.37:g.4802068delC	ENSP00000328720:p.Gly725fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000328914.4	37	CCDS34591.1																																																																																				0.706	FOXK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323729.2			-	4802068	C	-	4802068	7	5	621	1	0	1	0	1	0	0	0	0	6021	726	26	0	2209	0	FOXK1	7	4802068	Frame_Shift_Del	DEL	C	TCGA-J7-8537-01A-11D-2396-08		4802068	154336595	35	38100										
PUS7	54517	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	105099624	105099624	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	agtaaacttaccagaagcaaAaactggtggtgtcttccctt	8	9	1	1			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr7:105099624A>G	ENST00000356362.2	-	15	2054	c.1840T>C	c.(1840-1842)Ttt>Ctt	p.F614L	PUS7_ENST00000469408.1_Missense_Mutation_p.F614L	NM_019042.3	NP_061915.2	Q96PZ0	PUS7_HUMAN	pseudouridylate synthase 7 (putative)	614					pseudouridine synthesis (GO:0001522)|tRNA processing (GO:0008033)		enzyme binding (GO:0019899)|poly(A) RNA binding (GO:0044822)|pseudouridine synthase activity (GO:0009982)			breast(1)|endometrium(2)|kidney(1)|large_intestine(9)|lung(8)|pancreas(1)|skin(1)	23						CCAGAAGCAAAAACTGGTGGT	0.353																																					Colon(138;2387 3051 17860)											0													136	115	122					7																	105099624		2203	4300	6503	SO:0001583	missense	54517			AK128629	CCDS34725.1	7q22.3	2014-02-14	2014-02-14		ENSG00000091127	ENSG00000091127			26033	protein-coding gene	gene with protein product			"pseudouridylate synthase 7 homolog (S. cerevisiae)"			11572484	Standard	NM_019042		Approved	FLJ20485	uc003vcx.3	Q96PZ0	OTTHUMG00000157399	ENST00000356362.2:c.1840T>C	7.37:g.105099624A>G	ENSP00000348722:p.Phe614Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q75MG4|Q9NX19	Missense_Mutation	SNP	ENST00000356362.2	37	CCDS34725.1	.	.	.	.	.	.	.	.	.	.	A	10.52	1.372308	0.24857	.	.	ENSG00000091127	ENST00000356362;ENST00000544995;ENST00000469408	T;T	0.40756	1.02;1.02	5.28	5.28	0.74379	Pseudouridine synthase, catalytic domain (1);	0.171422	0.52532	N	0.000075	T	0.17831	0.0428	N	0.03608	-0.345	0.40339	D	0.979018	B;B	0.11235	0.004;0.004	B;B	0.14023	0.01;0.005	T	0.14699	-1.0463	10	0.10377	T	0.69	-1.6592	8.8965	0.35467	0.9072:0.0:0.0928:0.0	.	614;614	B3KY42;Q96PZ0	.;PUS7_HUMAN	L	614	ENSP00000348722:F614L;ENSP00000417402:F614L	ENSP00000348722:F614L	F	-	1	0	PUS7	104886860	1.000000	0.71417	0.993000	0.49108	0.860000	0.49131	5.995000	0.70631	1.995000	0.58328	0.460000	0.39030	TTT		0.353	PUS7-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348681.1	NM_019042		G	105099624	A	G	105099624	3	3	621	1	0	0	0	0	1	0	0	0	12846	14	1	3	153	3	PUS7	7	105099624	Missense_Mutation	SNP	A	TCGA-J7-8537-01A-11D-2396-08	100297556	105099624	54039039	36	38101										
RINT1	60561	hgsc.bcm.edu	37	chr7	105177143	105177143	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	accttaaatctttaaagaaaCttgataaactcatagaacag	4	7	2	3			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr7:105177143C>A	ENST00000257700.2	+	3	451	c.220C>A	c.(220-222)Ctt>Att	p.L74I		NM_021930.4	NP_068749.3	Q6NUQ1	RINT1_HUMAN	RAD50 interactor 1	74					G2 DNA damage checkpoint (GO:0031572)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)				central_nervous_system(1)|endometrium(2)|large_intestine(4)|lung(9)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	22						TTTAAAGAAACTTGATAAACT	0.323																																																0													91	91	91					7																	105177143		2203	4300	6503	SO:0001583	missense	60561			AF317622	CCDS34726.1	7q22.2	2007-05-03			ENSG00000135249	ENSG00000135249			21876	protein-coding gene	gene with protein product		610089				11096100, 15029241	Standard	NM_021930		Approved	FLJ11785, RINT-1	uc003vda.1	Q6NUQ1	OTTHUMG00000157400	ENST00000257700.2:c.220C>A	7.37:g.105177143C>A	ENSP00000257700:p.Leu74Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q75MG9|Q75MH0|Q96IW8|Q9H229|Q9HAD9	Missense_Mutation	SNP	ENST00000257700.2	37	CCDS34726.1	.	.	.	.	.	.	.	.	.	.	C	19.32	3.804297	0.70682	.	.	ENSG00000135249	ENST00000257700;ENST00000493041	T	0.25579	1.79	5.2	5.2	0.72013	.	0.130682	0.50627	D	0.000108	T	0.24699	0.0599	L	0.53249	1.67	0.38375	D	0.944982	B	0.26975	0.165	B	0.19391	0.025	T	0.07539	-1.0767	10	0.26408	T	0.33	-14.7993	13.9955	0.64397	0.0:0.8482:0.1518:0.0	.	74	Q6NUQ1	RINT1_HUMAN	I	74;43	ENSP00000257700:L74I	ENSP00000257700:L74I	L	+	1	0	RINT1	104964379	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	3.435000	0.52849	2.412000	0.81896	0.491000	0.48974	CTT		0.323	RINT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348686.1	NM_021930		A	105177143	C	A	105177143	3	1	621	1	0	0	0	0	1	0	0	0	13389	565	20	4	230	4	RINT1	7	105177143	Missense_Mutation	SNP	C	TCGA-J7-8537-01A-11D-2396-08	77519	105177143	53961520	37	38102										
C8orf79	57604	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	12879058	12879058	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	gtccagccttccagacactcTagtttagactttgatcacca	6	13	2	3			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr8:12879058T>C	ENST00000524591.2	+	5	1359	c.870T>C	c.(868-870)tcT>tcC	p.S290S	KIAA1456_ENST00000447063.2_Intron	NM_001099677.1|NM_020844.2	NP_001093147.1|NP_065895.2	Q9P272	K1456_HUMAN	KIAA1456	290							methyltransferase activity (GO:0008168)			endometrium(1)|kidney(1)|large_intestine(1)|lung(4)	7						CCAGACACTCTAGTTTAGACT	0.423																																																0													79	77	78					8																	12879058		1869	4097	5966	SO:0001819	synonymous_variant	57604			BC035082	CCDS47808.1	8p22	2013-10-04	2011-02-23	2011-02-23	ENSG00000250305	ENSG00000250305			26725	protein-coding gene	gene with protein product		615666	"chromosome 8 open reading frame 79"	C8orf79		23381944	Standard	NM_020844		Approved	FLJ36980	uc010lsq.3	Q8N9K7	OTTHUMG00000165477	ENST00000524591.2:c.870T>C	8.37:g.12879058T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q96AW6	Silent	SNP	ENST00000524591.2	37	CCDS47808.1																																																																																				0.423	KIAA1456-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383262.2	NM_001099677		C	12879058	T	C	12879058	2	2	621	1	0	0	0	0	0	0	0	1	2440	1509	53	3		3	C8orf79	8	12879058	Silent	SNP	T	TCGA-J7-8537-01A-11D-2396-08		12879058	133484964	38	38103										
ST8SIA6	338596	hgsc.bcm.edu;broad.mit.edu	37	chr10	17495608	17495608	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	gggctccggagcgtcctcagCgctgcgggggtgccgtgggt	20	12	1	0			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr10:17495608C>T	ENST00000377602.4	-	2	224	c.150G>A	c.(148-150)gcG>gcA	p.A50A		NM_001004470.1	NP_001004470.1	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 6	50					carbohydrate biosynthetic process (GO:0016051)|cellular protein metabolic process (GO:0044267)|ganglioside biosynthetic process (GO:0001574)|glycolipid biosynthetic process (GO:0009247)|glycoprotein metabolic process (GO:0009100)|oligosaccharide metabolic process (GO:0009311)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)|protein O-linked glycosylation (GO:0006493)|sialylation (GO:0097503)	Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)	sialyltransferase activity (GO:0008373)			endometrium(3)|kidney(3)|large_intestine(4)|liver(1)|lung(24)|ovary(1)|skin(1)	37						GCGTCCTCAGCGCTGCGGGGG	0.706																																																0													8	10	9					10																	17495608		2170	4271	6441	SO:0001819	synonymous_variant	338596				CCDS31158.1	10p13	2013-03-01	2005-02-07	2005-02-07	ENSG00000148488	ENSG00000148488		"Sialyltransferases"	23317	protein-coding gene	gene with protein product	"ST8Sia VI"	610139	"sialyltransferase 8F (alpha-2, 8-sialyltransferase)"	SIAT8F		11980897	Standard	XR_242697		Approved		uc001ipd.3	P61647	OTTHUMG00000017748	ENST00000377602.4:c.150G>A	10.37:g.17495608C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ97|B9EH72|Q5VZH4	Silent	SNP	ENST00000377602.4	37	CCDS31158.1																																																																																				0.706	ST8SIA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047036.1	NM_001004470		T	17495608	C	T	17495608	2	4	621	1	0	0	0	0	0	0	0	1	15248	755	27	1		1	ST8SIA6	10	17495608	Silent	SNP	C	TCGA-J7-8537-01A-11D-2396-08		17495608	118039139	39	38104										
DMBT1	1755	hgsc.bcm.edu	37	chr10	124361509	124361509	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	aatgcccggtttggccagggTtcaggacccattgtcctgga	13	11	1	0	rs547823770	byFrequency	TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr10:124361509T>C	ENST00000338354.3	+	29	3646	c.3540T>C	c.(3538-3540)ggT>ggC	p.G1180G	DMBT1_ENST00000368956.2_Silent_p.G681G|DMBT1_ENST00000344338.3_Silent_p.G1170G|DMBT1_ENST00000368955.3_Silent_p.G1170G|DMBT1_ENST00000368909.3_Silent_p.G1180G|DMBT1_ENST00000330163.4_Silent_p.G681G|DMBT1_ENST00000359586.6_Intron			Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1	1180	SRCR 9. {ECO:0000255|PROSITE- ProRule:PRU00196}.				defense response to virus (GO:0051607)|epithelial cell differentiation (GO:0030855)|induction of bacterial agglutination (GO:0043152)|innate immune response (GO:0045087)|inner cell mass cell proliferation (GO:0001833)|pattern recognition receptor signaling pathway (GO:0002221)|positive regulation of epithelial cell differentiation (GO:0030858)|protein transport (GO:0015031)|receptor-mediated endocytosis (GO:0006898)|viral process (GO:0016032)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|phagocytic vesicle membrane (GO:0030670)|proteinaceous extracellular matrix (GO:0005578)|zymogen granule membrane (GO:0042589)	calcium-dependent protein binding (GO:0048306)|scavenger receptor activity (GO:0005044)|signaling pattern recognition receptor activity (GO:0008329)|zymogen binding (GO:0035375)			breast(2)|central_nervous_system(7)|cervix(3)|endometrium(8)|kidney(1)|large_intestine(1)|lung(46)|prostate(1)|urinary_tract(3)	72		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TTGGCCAGGGTTCAGGACCCA	0.587													C|||	130	0.0259585	0.0378	0.0086	5008	,	,		10270	0.0635		0.001	False		,,,				2504	0.0092				Ovarian(182;93 2026 18125 22222 38972)											0													10	15	14					10																	124361509		507	2121	2628	SO:0001819	synonymous_variant	1755				CCDS44490.1, CCDS44491.1, CCDS44492.1	10q25.3-q26.1	2008-08-01			ENSG00000187908	ENSG00000187908			2926	protein-coding gene	gene with protein product		601969				9288095, 17548659	Standard	NM_004406		Approved	GP340, muclin	uc001lgk.1	Q9UGM3	OTTHUMG00000019185	ENST00000338354.3:c.3540T>C	10.37:g.124361509T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NDG4|A6NDJ5|A8E4R5|B1ARE7|B1ARE8|B1ARE9|B1ARF0|B7Z8Y2|F8WEF7|Q59EX0|Q5JR26|Q6MZN4|Q96DU4|Q9UGM2|Q9UJ57|Q9UKJ4|Q9Y211|Q9Y4V9	Silent	SNP	ENST00000338354.3	37																																																																																					0.587	DMBT1-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000050792.2	NM_004406		C	124361509	T	C	124361509	2	2	621	1	0	0	0	0	0	0	0	1	4579	1712	60	3		3	DMBT1	10	124361509	Silent	SNP	T	TCGA-J7-8537-01A-11D-2396-08	106865901	124361509	11173238	40	38105										
MKI67	4288	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	129910454	129910454	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ggaacatatcatctgtaaaaTatcatgttgacttcggctga	8	7	3	2			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr10:129910454T>G	ENST00000368654.3	-	9	2287	c.1912A>C	c.(1912-1914)Att>Ctt	p.I638L	MKI67_ENST00000484853.1_5'UTR|MKI67_ENST00000368653.3_Missense_Mutation_p.I278L	NM_002417.4	NP_002408.3	P46013	KI67_HUMAN	marker of proliferation Ki-67	638					cell proliferation (GO:0008283)|cellular response to heat (GO:0034605)|DNA metabolic process (GO:0006259)|hyaluronan metabolic process (GO:0030212)|meiotic nuclear division (GO:0007126)|organ regeneration (GO:0031100)|response to organic cyclic compound (GO:0014070)	chromosome, centromeric region (GO:0000775)|condensed chromosome (GO:0000793)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(5)|kidney(7)|large_intestine(30)|lung(64)|ovary(4)|pancreas(1)|prostate(4)|skin(2)|soft_tissue(1)|stomach(10)|upper_aerodigestive_tract(4)|urinary_tract(4)	159		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				ATCTGTAAAATATCATGTTGA	0.398																																																0													96	89	91					10																	129910454		2203	4300	6503	SO:0001583	missense	4288			X65550	CCDS7659.1, CCDS53588.1	10q26.2	2014-06-12	2013-10-10		ENSG00000148773	ENSG00000148773			7107	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 105"	176741	"antigen identified by monoclonal antibody Ki-67"			2571566, 16206250	Standard	NM_002417		Approved	MIB-, PPP1R105	uc001lke.3	P46013	OTTHUMG00000019255	ENST00000368654.3:c.1912A>C	10.37:g.129910454T>G	ENSP00000357643:p.Ile638Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VWH2	Missense_Mutation	SNP	ENST00000368654.3	37	CCDS7659.1	.	.	.	.	.	.	.	.	.	.	T	15.38	2.815996	0.50527	.	.	ENSG00000148773	ENST00000368654;ENST00000368653;ENST00000537609;ENST00000368652	T;T	0.01369	5.0;4.97	4.47	2.03	0.26663	.	0.382408	0.22081	N	0.064888	T	0.01765	0.0056	M	0.63428	1.95	0.09310	N	1	B;B;B	0.32573	0.376;0.376;0.259	B;B;B	0.36418	0.224;0.224;0.112	T	0.42137	-0.9469	10	0.35671	T	0.21	.	0.8729	0.01218	0.167:0.161:0.1731:0.4989	.	637;278;638	F5H4V4;P46013-2;P46013	.;.;KI67_HUMAN	L	638;278;637;213	ENSP00000357643:I638L;ENSP00000357642:I278L	ENSP00000357641:I213L	I	-	1	0	MKI67	129800444	0.000000	0.05858	0.002000	0.10522	0.491000	0.33493	-0.129000	0.10515	0.725000	0.32318	0.533000	0.62120	ATT		0.398	MKI67-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000050999.1	NM_002417		G	129910454	T	G	129910454	3	3	621	1	0	0	0	0	1	0	0	0	9605	1406	49	5	7886	5	MKI67	10	129910454	Missense_Mutation	SNP	T	TCGA-J7-8537-01A-11D-2396-08	5548945	129910454	5624293	41	38106										
TSG101	7251	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	18541141	18541142	+	Frame_Shift_Del	DEL	TG	TG	-													0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ttcacgtacagttaggtctcTgtatttgtactgaaaagcaa							TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr11:18541141_18541142delTG	ENST00000251968.3	-	2	466_467	c.51_52delCA	c.(49-54)tacagafs	p.YR17fs	TSG101_ENST00000536719.1_Frame_Shift_Del_p.YR17fs|TSG101_ENST00000357193.3_Intron	NM_006292.3	NP_006283.1	Q99816	TS101_HUMAN	tumor susceptibility 101	17	UEV. {ECO:0000255|PROSITE- ProRule:PRU00652}.				cell cycle arrest (GO:0007050)|cell division (GO:0051301)|cellular protein modification process (GO:0006464)|endosomal transport (GO:0016197)|intracellular transport of virus (GO:0075733)|keratinocyte differentiation (GO:0030216)|membrane organization (GO:0061024)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription, DNA-templated (GO:0045892)|protein transport (GO:0015031)|regulation of cell growth (GO:0001558)|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway (GO:0043162)|viral budding (GO:0046755)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral protein processing (GO:0019082)|virion assembly (GO:0019068)	cytoplasm (GO:0005737)|early endosome (GO:0005769)|endosome membrane (GO:0010008)|ESCRT I complex (GO:0000813)|extracellular vesicular exosome (GO:0070062)|late endosome (GO:0005770)|multivesicular body (GO:0005771)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)	calcium-dependent protein binding (GO:0048306)|DNA binding (GO:0003677)|protein homodimerization activity (GO:0042803)|transcription corepressor activity (GO:0003714)|ubiquitin binding (GO:0043130)|ubiquitin protein ligase binding (GO:0031625)			kidney(1)|large_intestine(4)|lung(9)|ovary(1)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	22						GTTAGGTCTCTGTATTTGTACT	0.307																																					GBM(99;1348 1396 8611 26475 50572)											0																																										SO:0001589	frameshift_variant	7251			U82130	CCDS7842.1	11p15	2013-08-22	2013-08-22		ENSG00000074319	ENSG00000074319			15971	protein-coding gene	gene with protein product		601387	"tumor susceptibility gene 10", "tumor susceptibility gene 101"	TSG10		9019400, 9241264	Standard	NM_006292		Approved	VPS23	uc001mor.3	Q99816	OTTHUMG00000167725	ENST00000251968.3:c.51_52delCA	11.37:g.18541141_18541142delTG	ENSP00000251968:p.Tyr17fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BUM5	Frame_Shift_Del	DEL	ENST00000251968.3	37	CCDS7842.1																																																																																				0.307	TSG101-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395906.1	NM_006292		-	18541142	TG	-	18541141	7	5	621	1	0	1	0	1	0	0	0	0	16628	1588	55	0	1156	0	TSG101	11	18541141	Frame_Shift_Del	DEL	TG	TCGA-J7-8537-01A-11D-2396-08		18541141	116465375	42	38107										
INCENP	3619	hgsc.bcm.edu	37	chr11	61914245	61914245	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	agagcagcgggagcaggagcGgcgggagcaggagcggcgcg	23	9	0	1	rs570082372	byFrequency	TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr11:61914245G>A	ENST00000394818.3	+	15	2277	c.2075G>A	c.(2074-2076)cGg>cAg	p.R692Q	INCENP_ENST00000278849.4_Missense_Mutation_p.R688Q	NM_001040694.1	NP_001035784.1	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	692					chromosome segregation (GO:0007059)|cytokinesis (GO:0000910)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	central element (GO:0000801)|chromocenter (GO:0010369)|chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|kinetochore (GO:0000776)|lateral element (GO:0000800)|microtubule (GO:0005874)|midbody (GO:0030496)|pericentric heterochromatin (GO:0005721)|protein complex (GO:0043234)|spindle (GO:0005819)				breast(1)|endometrium(1)|kidney(6)|large_intestine(2)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	19						gagcaggagcggcgggagcag	0.721													G|||	6	0.00119808	0.0008	0.0014	5008	,	,		11645	0.003		0.0	False		,,,				2504	0.001															0													5	6	6					11																	61914245		1771	3489	5260	SO:0001583	missense	3619			AF282265	CCDS31582.1, CCDS44624.1	11q12.3	2013-01-17	2002-08-29		ENSG00000149503	ENSG00000149503			6058	protein-coding gene	gene with protein product		604411	"inner centromere protein antigens (135kD, 155kD)"			1860899, 11453556	Standard	NM_001040694		Approved	FLJ31633	uc001nsw.1	Q9NQS7	OTTHUMG00000167470	ENST00000394818.3:c.2075G>A	11.37:g.61914245G>A	ENSP00000378295:p.Arg692Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8MQD2|Q5Y192	Missense_Mutation	SNP	ENST00000394818.3	37	CCDS44624.1	.	.	.	.	.	.	.	.	.	.	G	8.011	0.757448	0.15846	.	.	ENSG00000149503	ENST00000394818;ENST00000278849	T;T	0.15487	2.42;2.43	2.39	2.39	0.29439	.	0.179764	0.25894	N	0.027616	T	0.31231	0.0790	M	0.63843	1.955	0.32643	N	0.520424	D;D;D	0.64830	0.99;0.994;0.99	D;D;D	0.72982	0.953;0.979;0.953	T	0.26950	-1.0088	10	0.25106	T	0.35	.	8.5503	0.33447	0.0:0.0:1.0:0.0	.	688;688;692	B3KPD3;Q9NQS7-2;Q9NQS7	.;.;INCE_HUMAN	Q	692;688	ENSP00000378295:R692Q;ENSP00000278849:R688Q	ENSP00000278849:R688Q	R	+	2	0	INCENP	61670821	1.000000	0.71417	0.995000	0.50966	0.588000	0.36517	1.743000	0.38258	1.695000	0.51148	0.064000	0.15345	CGG		0.721	INCENP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000394723.2	NM_020238		A	61914245	G	A	61914245	3	1	621	1	0	0	0	0	1	0	0	0	7740	1116	39	1	2129	1	INCENP	11	61914245	Missense_Mutation	SNP	G	TCGA-J7-8537-01A-11D-2396-08	43373104	61914245	73092271	43	38108										
PUS7L	83448	hgsc.bcm.edu	37	chr12	44149019	44149019	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	aagaaacacaaagaactaaaCctgattctataatctgtatc	4	8	2	3	rs148928799		TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr12:44149019C>A	ENST00000416848.2	-	2	518	c.30G>T	c.(28-30)agG>agT	p.R10S	PUS7L_ENST00000431332.3_Intron|PUS7L_ENST00000553166.1_Missense_Mutation_p.R10S|PUS7L_ENST00000551923.1_Missense_Mutation_p.R10S|PUS7L_ENST00000344862.5_Missense_Mutation_p.R10S	NM_001098615.1|NM_001271826.1	NP_001092085.1|NP_001258755.1	Q9H0K6	PUS7L_HUMAN	pseudouridylate synthase 7 homolog (S. cerevisiae)-like	10					pseudouridine synthesis (GO:0001522)|tRNA processing (GO:0008033)		pseudouridine synthase activity (GO:0009982)|RNA binding (GO:0003723)			NS(1)|endometrium(1)|kidney(2)|large_intestine(9)|lung(15)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	32	all_cancers(12;0.00027)	Lung NSC(34;0.114)|all_lung(34;0.24)		GBM - Glioblastoma multiforme(48;0.0402)		AAGAACTAAACCTGATTCTAT	0.338																																																0													30	32	31					12																	44149019		2196	4283	6479	SO:0001583	missense	83448			BX647494	CCDS8743.1, CCDS61104.1	12q12	2006-02-07				ENSG00000129317			25276	protein-coding gene	gene with protein product						11230166	Standard	NM_001098615		Approved	DKFZP434G1415	uc001rnr.5	Q9H0K6	OTTHUMG00000169423	ENST00000416848.2:c.30G>T	12.37:g.44149019C>A	ENSP00000415899:p.Arg10Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KUJ1|Q05CU0|Q6AHZ3|Q6NUP2	Missense_Mutation	SNP	ENST00000416848.2	37	CCDS8743.1	.	.	.	.	.	.	.	.	.	.	C	8.447	0.852287	0.17106	.	.	ENSG00000129317	ENST00000416848;ENST00000344862;ENST00000551923;ENST00000553166;ENST00000549868	T;T;T;T;T	0.22134	1.97;1.97;1.97;1.97;1.97	5.03	-1.34	0.09143	Pseudouridine synthase, catalytic domain (1);	0.482336	0.21493	N	0.073657	T	0.15739	0.0379	M	0.63428	1.95	0.09310	N	0.999995	B	0.23128	0.08	B	0.22601	0.04	T	0.17653	-1.0362	10	0.42905	T	0.14	-4.2765	1.7427	0.02955	0.1104:0.3295:0.217:0.343	.	10	Q9H0K6	PUS7L_HUMAN	S	10	ENSP00000415899:R10S;ENSP00000343081:R10S;ENSP00000447706:R10S;ENSP00000446865:R10S;ENSP00000449502:R10S	ENSP00000343081:R10S	R	-	3	2	PUS7L	42435286	0.005000	0.15991	0.063000	0.19743	0.732000	0.41865	-0.177000	0.09796	-0.362000	0.08113	0.561000	0.74099	AGG		0.338	PUS7L-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403931.1	NM_031292		A	44149019	C	A	44149019	3	1	621	1	0	0	0	0	1	0	0	0	12847	506	18	4	2107	4	PUS7L	12	44149019	Missense_Mutation	SNP	C	TCGA-J7-8537-01A-11D-2396-08		44149019	89702876	44	38109										
ANAPC5	51433	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	121766167	121766168	+	Missense_Mutation	DNP	TC	TC	CA													0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ttttctgtgcgatgctgataTcgatgagctctgacaggctg							TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr12:121766167_121766168TC>CA	ENST00000261819.3	-	10	1376_1377	c.1255_1256GA>TG	c.(1255-1257)GAt>TGt	p.D419C	ANAPC5_ENST00000535482.1_Missense_Mutation_p.D85C|ANAPC5_ENST00000344395.4_Missense_Mutation_p.D307C|ANAPC5_ENST00000544314.1_5'UTR|ANAPC5_ENST00000541887.1_Missense_Mutation_p.D406C|ANAPC5_ENST00000441917.2_Missense_Mutation_p.D307C	NM_016237.4	NP_057321.2	Q9UJX4	APC5_HUMAN	anaphase promoting complex subunit 5	419					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K11-linked ubiquitination (GO:0070979)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	anaphase-promoting complex (GO:0005680)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	protein phosphatase binding (GO:0019903)			breast(6)|endometrium(3)|kidney(3)|large_intestine(5)|lung(10)|prostate(1)|skin(3)	31	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					GATGCTGATATCGATGAGCTCT	0.545																																																0																																										SO:0001583	missense	51433			AF191339	CCDS9220.1, CCDS45000.1	12q24.31	2014-08-12			ENSG00000089053	ENSG00000089053		"Anaphase promoting complex subunits"	15713	protein-coding gene	gene with protein product		606948				9469815	Standard	NM_016237		Approved	APC5	uc001uag.3	Q9UJX4	OTTHUMG00000169157	ENST00000261819.3:c.1255_1256delinsCA	12.37:g.121766167_121766168delinsCA	ENSP00000261819:p.Asp419Cys	Somatic		WXS	Illumina HiSeq	Phase_I	E9PFB2|Q8N4H7|Q9BQD4	Missense_Mutation	DNP	ENST00000261819.3	37	CCDS9220.1																																																																																				0.545	ANAPC5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402582.1			CA	121766168	TC	CA	121766167	3	2	621	1	0	0	0	0	1	0	0	0	605	1435	50	3	1043	3	ANAPC5	12	121766167	Missense_Mutation	DNP	TC	TCGA-J7-8537-01A-11D-2396-08	77617148	121766167	12085728	45	38110										
LATS2	26524	broad.mit.edu	37	chr13	21562482	21562483	+	In_Frame_Ins	INS	-	-	GGGGCG													0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	cgtccaagccctccgcagccINSggggcgggggcgggggcggg					rs56252009|rs550642106	byFrequency	TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr13:21562482_21562483insGGGGCG	ENST00000382592.4	-	4	1841_1842	c.1436_1437insCGCCCC	c.(1435-1437)ccg>ccCGCCCCg	p.479_479P>PAP	LATS2_ENST00000472754.1_5'Flank|LATS2_ENST00000542899.1_In_Frame_Ins_p.479_479P>PAP	NM_014572.2	NP_055387.2			large tumor suppressor kinase 2									p.P473_A480delPAPAPAPA(2)|p.P479_A480insGR(1)		breast(4)|central_nervous_system(3)|endometrium(2)|kidney(2)|large_intestine(7)|lung(19)|ovary(3)|pancreas(1)|prostate(2)|urinary_tract(2)	45		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)		CCTCCGCAgccggggcgggggc	0.787														1274	0.254393	0.1566	0.3429	5008	,	,		6446	0.2133		0.338	False		,,,				2504	0.2802															3	Deletion - In frame(2)|Insertion - In frame(1)	breast(2)|pancreas(1)								22,194		10,2,96						-10.2	0		dbSNP_119	2	119,543		56,7,268	no	coding	LATS2	NM_014572.2		66,9,364	A1A1,A1R,RR		17.9758,10.1852,16.0592				141,737				SO:0001652	inframe_insertion	26524			AB028019	CCDS9294.1	13q11-q12	2013-04-25	2013-04-25		ENSG00000150457	ENSG00000150457			6515	protein-coding gene	gene with protein product		604861	"LATS (large tumor suppressor, Drosophila) homolog 2", "LATS, large tumor suppressor, homolog 2 (Drosophila)"			10673337	Standard	NM_014572		Approved		uc001unr.4	Q9NRM7	OTTHUMG00000016531	ENST00000382592.4:c.1431_1436dupCGCCCC	13.37:g.21562483_21562488dupGGGGCG	ENSP00000372035:p.AlaPro479dup	Somatic		WXS	Illumina HiSeq	Phase_I		In_Frame_Ins	INS	ENST00000382592.4	37	CCDS9294.1																																																																																				0.787	LATS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044102.1			GGGGCG	21562483	-	GGGGCG	21562482	7	5	621	1	0	1	1	0	0	0	0	0	8654	639	23	0	1849	0	LATS2	13	21562482	In_Frame_Ins	INS	-	TCGA-J7-8537-01A-11D-2396-08		21562482	93607396	46	38111										
MCF2L	23263	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	113741757	113741757	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	agctccctcctacagctacaAgcagtccttaaacgtaagtg	7	13	0	0			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr13:113741757A>G	ENST00000375608.3	+	23	2730	c.2672A>G	c.(2671-2673)aAg>aGg	p.K891R	MCF2L_ENST00000375601.3_Missense_Mutation_p.K865R|MCF2L_ENST00000423482.2_Missense_Mutation_p.K859R|MCF2L_ENST00000442652.2_Missense_Mutation_p.K891R|MCF2L_ENST00000434480.2_Missense_Mutation_p.K867R|MCF2L_ENST00000421756.1_Missense_Mutation_p.K865R|MCF2L_ENST00000375604.2_Missense_Mutation_p.K918R|MCF2L_ENST00000375597.4_Missense_Mutation_p.K859R|MCF2L_ENST00000535094.2_Missense_Mutation_p.K861R|MCF2L_ENST00000397030.1_Missense_Mutation_p.K894R			O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming sequence-like	891	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|extracellular space (GO:0005615)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)	1-phosphatidylinositol binding (GO:0005545)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			kidney(1)|large_intestine(5)|ovary(1)|stomach(1)	8	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)				TACAGCTACAAGCAGTCCTTA	0.592																																																0													45	39	41					13																	113741757		2202	4299	6501	SO:0001583	missense	23263			AB002360	CCDS9527.2, CCDS45070.1, CCDS9527.3, CCDS45070.2	13q34	2013-01-10			ENSG00000126217	ENSG00000126217		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	14576	protein-coding gene	gene with protein product		609499				9205841	Standard	NM_001112732		Approved	KIAA0362, DBS, OST, ARHGEF14	uc010tjr.2	O15068	OTTHUMG00000017377	ENST00000375608.3:c.2672A>G	13.37:g.113741757A>G	ENSP00000364758:p.Lys891Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2X1|A2A2X2|A2A3G6|A2A3G8|B4DHD6|B4DIL6|E9PDN8|Q5JU56|Q5VXT1|Q6ZWD4|Q765G8|Q765G9|Q8N679	Missense_Mutation	SNP	ENST00000375608.3	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	19.93|19.93	3.918654|3.918654	0.73098|0.73098	.|.	.|.	ENSG00000126217|ENSG00000126217	ENST00000375608;ENST00000442652;ENST00000375604;ENST00000397030;ENST00000535094;ENST00000421756;ENST00000375601;ENST00000434480;ENST00000423482;ENST00000375597;ENST00000440749|ENST00000413354;ENST00000261963	T;T;T;T;T;T;T;T;T;T|.	0.21543|.	2.0;2.0;2.0;2.0;2.0;2.0;2.0;2.0;2.0;2.0|.	5.08|5.08	5.08|5.08	0.68730|0.68730	Pleckstrin homology-type (1);Pleckstrin homology domain (3);|.	0.000000|.	0.85682|.	D|.	0.000000|.	D|D	0.84678|0.84678	0.5525|0.5525	M|M	0.92367|0.92367	3.3|3.3	0.58432|0.58432	D|D	0.999999|0.999999	D;D;D;D;D|.	0.89917|.	1.0;1.0;1.0;0.999;1.0|.	D;D;D;D;D|.	0.91635|.	0.998;0.998;0.998;0.996;0.999|.	D|D	0.88684|0.88684	0.3204|0.3204	10|5	0.87932|.	D|.	0|.	.|.	14.8626|14.8626	0.70392|0.70392	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	859;861;918;859;891|.	E9PDN8;O15068-9;G5E9A1;O15068-4;O15068|.	.;.;.;.;MCF2L_HUMAN|.	R|G	891;891;918;894;861;865;865;867;859;859;702|91;32	ENSP00000364758:K891R;ENSP00000401422:K891R;ENSP00000364754:K918R;ENSP00000380225:K894R;ENSP00000440374:K861R;ENSP00000397285:K865R;ENSP00000364751:K865R;ENSP00000407722:K867R;ENSP00000405639:K859R;ENSP00000364747:K859R|.	ENSP00000364747:K859R|.	K|S	+|+	2|1	0|0	MCF2L|MCF2L	112789758|112789758	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.524000|0.524000	0.34500|0.34500	9.084000|9.084000	0.94076|0.94076	1.902000|1.902000	0.55061|0.55061	0.533000|0.533000	0.62120|0.62120	AAG|AGC		0.592	MCF2L-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000045849.4			G	113741757	A	G	113741757	3	3	621	1	0	0	0	0	1	0	0	0	9386	72	3	3	2934	3	MCF2L	13	113741757	Missense_Mutation	SNP	A	TCGA-J7-8537-01A-11D-2396-08	92179275	113741757	1428121	47	38112										
BAZ1A	11177	hgsc.bcm.edu	37	chr14	35269498	35269498	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	tctctcttcttcaacaatttTtttcaattcttccctctttt	0	12	7	0			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr14:35269498T>A	ENST00000382422.2	-	8	1387	c.1060A>T	c.(1060-1062)Aaa>Taa	p.K354*	BAZ1A_ENST00000358716.4_Nonsense_Mutation_p.K354*|BAZ1A_ENST00000360310.1_Nonsense_Mutation_p.K354*|AL355885.1_ENST00000581314.1_RNA			Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	354					chromatin remodeling (GO:0006338)|DNA-dependent DNA replication (GO:0006261)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	ACF complex (GO:0016590)|CHRAC (GO:0008623)|nuclear chromosome (GO:0000228)	zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(2)|cervix(2)|endometrium(6)|kidney(2)|large_intestine(7)|lung(19)|ovary(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	48	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)		tcaacaatttttttcaattct	0.299																																																0													29	27	28					14																	35269498		2174	4241	6415	SO:0001587	stop_gained	11177			AB032252	CCDS9651.1, CCDS41943.1	14q13.2	2013-01-28			ENSG00000198604	ENSG00000198604		"Zinc fingers, PHD-type"	960	protein-coding gene	gene with protein product		605680				10662543	Standard	NM_013448		Approved	hACF1, ACF1, WALp1, WCRF180	uc001wsk.3	Q9NRL2	OTTHUMG00000140216	ENST00000382422.2:c.1060A>T	14.37:g.35269498T>A	ENSP00000371859:p.Lys354*	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NZ15|Q9P065|Q9UIG1|Q9Y3V3	Nonsense_Mutation	SNP	ENST00000382422.2	37	CCDS9651.1	.	.	.	.	.	.	.	.	.	.	T	42	9.525045	0.99195	.	.	ENSG00000198604	ENST00000358716;ENST00000382422;ENST00000360310;ENST00000543083	.	.	.	4.96	4.96	0.65561	.	0.419939	0.27986	N	0.017055	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	11.5831	0.50902	0.0:0.0:0.0:1.0	.	.	.	.	X	354;354;354;38	.	ENSP00000351555:K354X	K	-	1	0	BAZ1A	34339249	1.000000	0.71417	1.000000	0.80357	0.897000	0.52465	3.925000	0.56484	2.168000	0.68352	0.482000	0.46254	AAA		0.299	BAZ1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276646.1			A	35269498	T	A	35269498	4	1	621	1	0	0	0	0	0	1	0	0	1329	1850	64	5	3686	5	BAZ1A	14	35269498	Nonsense_Mutation	SNP	T	TCGA-J7-8537-01A-11D-2396-08		35269498	72080042	48	38113										
HSPA2	3306	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	65009419	65009419	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	gcaaactttaccaaggtggtCctggcggcggcagcggcggc	16	12	0	0			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr14:65009419C>A	ENST00000394709.1	+	2	1928	c.1852C>A	c.(1852-1854)Cct>Act	p.P618T	HSPA2_ENST00000247207.6_Missense_Mutation_p.P618T|RP11-973N13.4_ENST00000554918.1_RNA			P54652	HSP72_HUMAN	heat shock 70kDa protein 2	618					male meiosis (GO:0007140)|male meiosis I (GO:0007141)|negative regulation of inclusion body assembly (GO:0090084)|positive regulation of cyclin-dependent protein serine/threonine kinase activity involved in G2/M transition of mitotic cell cycle (GO:0031662)|protein refolding (GO:0042026)|response to unfolded protein (GO:0006986)|spermatid development (GO:0007286)|synaptonemal complex disassembly (GO:0070194)	blood microparticle (GO:0072562)|CatSper complex (GO:0036128)|cell surface (GO:0009986)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|male germ cell nucleus (GO:0001673)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|synaptonemal complex (GO:0000795)	ATP binding (GO:0005524)|enzyme binding (GO:0019899)|glycolipid binding (GO:0051861)|unfolded protein binding (GO:0051082)			breast(1)|endometrium(4)|large_intestine(3)|lung(7)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	22				all cancers(60;0.00515)|OV - Ovarian serous cystadenocarcinoma(108;0.00584)|BRCA - Breast invasive adenocarcinoma(234;0.045)		CCAAGGTGGTCCTggcggcgg	0.552																																					Pancreas(136;1211 1835 24894 31984 38227)											0													48	50	50					14																	65009419		2203	4300	6503	SO:0001583	missense	3306			L26336, BC001752	CCDS9766.1	14q23	2012-10-02	2002-08-29		ENSG00000126803	ENSG00000126803		"Heat shock proteins / HSP70"	5235	protein-coding gene	gene with protein product		140560	"heat shock 70kD protein 2"				Standard	NM_021979		Approved		uc001xhk.4	P54652	OTTHUMG00000141311	ENST00000394709.1:c.1852C>A	14.37:g.65009419C>A	ENSP00000378199:p.Pro618Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q15508|Q53XM3|Q9UE78	Missense_Mutation	SNP	ENST00000394709.1	37	CCDS9766.1	.	.	.	.	.	.	.	.	.	.	C	3.079	-0.189353	0.06299	.	.	ENSG00000126803	ENST00000394709;ENST00000247207;ENST00000545222	T;T	0.13538	2.58;2.58	5.43	2.55	0.30701	.	1.329050	0.05831	U	0.617584	T	0.08447	0.0210	N	0.11201	0.11	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.40365	-0.9567	10	0.29301	T	0.29	0.1445	7.9468	0.29991	0.0:0.6354:0.2799:0.0847	.	618	P54652	HSP72_HUMAN	T	618;618;392	ENSP00000378199:P618T;ENSP00000247207:P618T	ENSP00000247207:P618T	P	+	1	0	HSPA2	64079172	1.000000	0.71417	0.954000	0.39281	0.732000	0.41865	2.213000	0.42844	0.254000	0.21573	-0.230000	0.12252	CCT		0.552	HSPA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280651.1			A	65009419	C	A	65009419	3	1	621	1	0	0	0	0	1	0	0	0	7418	855	30	4	1854	4	HSPA2	14	65009419	Missense_Mutation	SNP	C	TCGA-J7-8537-01A-11D-2396-08	29739921	65009419	42340121	49	38114										
EIF2AK4	440275	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	40324962	40324962	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ttgtgtgtattcacaggtggAtctacccaaagaaacaatat	8	7	2	1			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr15:40324962A>G	ENST00000263791.5	+	37	4776	c.4733A>G	c.(4732-4734)gAt>gGt	p.D1578G	EIF2AK4_ENST00000382727.2_Missense_Mutation_p.D1550G	NM_001013703.2	NP_001013725.2	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha kinase 4	1578					cellular response to starvation (GO:0009267)|endoplasmic reticulum unfolded protein response (GO:0030968)|negative regulation of translation (GO:0017148)|protein phosphorylation (GO:0006468)|regulation of translational initiation (GO:0006446)|regulation of translational initiation in response to stress (GO:0043558)	cytosolic ribosome (GO:0022626)	ATP binding (GO:0005524)|eukaryotic translation initiation factor 2alpha kinase activity (GO:0004694)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(2)|endometrium(1)|kidney(3)|large_intestine(8)|lung(18)|ovary(1)|prostate(3)|skin(2)|stomach(1)	40		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)		TCACAGGTGGATCTACCCAAA	0.388																																																0													110	106	107					15																	40324962		1929	4132	6061	SO:0001583	missense	440275			AB037759	CCDS42016.1	15q13.3	2008-08-18				ENSG00000128829			19687	protein-coding gene	gene with protein product		609280				10504407	Standard	XM_005254392		Approved	GCN2, KIAA1338	uc001zkm.1	Q9P2K8		ENST00000263791.5:c.4733A>G	15.37:g.40324962A>G	ENSP00000263791:p.Asp1578Gly	Somatic		WXS	Illumina HiSeq	Phase_I	C9JEC4|Q69YL7|Q6DC97|Q96GN6|Q9H5K1|Q9NSQ3|Q9NSZ5|Q9UJ56	Missense_Mutation	SNP	ENST00000263791.5	37	CCDS42016.1	.	.	.	.	.	.	.	.	.	.	A	20.7	4.042322	0.75732	.	.	ENSG00000128829	ENST00000263791;ENST00000382727	T;T	0.61742	0.08;0.08	5.89	5.89	0.94794	Serine/threonine-protein kinase GCN2, anticodon binding domain (1);	0.000000	0.85682	D	0.000000	T	0.65238	0.2672	N	0.24115	0.695	0.58432	D	0.999997	D;D	0.89917	1.0;1.0	D;D	0.91635	0.998;0.999	T	0.69577	-0.5108	10	0.72032	D	0.01	-24.8288	15.9741	0.80044	1.0:0.0:0.0:0.0	.	1550;1578	Q9P2K8-2;Q9P2K8	.;E2AK4_HUMAN	G	1578;1550	ENSP00000263791:D1578G;ENSP00000372174:D1550G	ENSP00000263791:D1578G	D	+	2	0	EIF2AK4	38112254	1.000000	0.71417	1.000000	0.80357	0.848000	0.48234	5.973000	0.70456	2.246000	0.74042	0.533000	0.62120	GAT		0.388	EIF2AK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418395.1			G	40324962	A	G	40324962	3	3	621	1	0	0	0	0	1	0	0	0	5001	333	12	3	4879	3	EIF2AK4	15	40324962	Missense_Mutation	SNP	A	TCGA-J7-8537-01A-11D-2396-08		40324962	62206430	50	38115										
TMC7	79905	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	19051691	19051691	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	atcacgctggccaattttatCaccccaatgatctttgccaa	5	13	3	1			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr16:19051691C>A	ENST00000304381.5	+	9	1390	c.1260C>A	c.(1258-1260)atC>atA	p.I420I	TMC7_ENST00000421369.3_Silent_p.I310I|TMC7_ENST00000569532.1_Silent_p.I420I	NM_024847.3	NP_079123.3	Q7Z402	TMC7_HUMAN	transmembrane channel-like 7	420					ion transport (GO:0006811)	integral component of membrane (GO:0016021)				breast(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(12)|ovary(1)|prostate(1)|skin(4)|urinary_tract(1)	28						CCAATTTTATCACCCCAATGA	0.418																																																0													142	121	128					16																	19051691		2197	4300	6497	SO:0001819	synonymous_variant	79905			AY263165	CCDS10573.1, CCDS53992.1, CCDS73837.1	16p13.11	2008-02-05			ENSG00000170537	ENSG00000170537			23000	protein-coding gene	gene with protein product						12812529, 12906855	Standard	XM_005255597		Approved	FLJ21240	uc002dfq.3	Q7Z402	OTTHUMG00000131456	ENST00000304381.5:c.1260C>A	16.37:g.19051691C>A		Somatic		WXS	Illumina HiSeq	Phase_I	E7ERB6|Q5H9Q8|Q7Z5M4|Q86WX0|Q9H766	Silent	SNP	ENST00000304381.5	37	CCDS10573.1																																																																																				0.418	TMC7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254276.3	NM_024847		A	19051691	C	A	19051691	2	1	621	1	0	0	0	0	0	0	0	1	16002	816	29	4		4	TMC7	16	19051691	Silent	SNP	C	TCGA-J7-8537-01A-11D-2396-08		19051691	71303062	51	38116										
NETO2	81831	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	47117430	47117430	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	agcgggaggcggtggaggagCgccgcatcttctggtagttg	19	8	2	0	rs372424394		TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr16:47117430C>T	ENST00000562435.1	-	9	1664	c.1280G>A	c.(1279-1281)cGc>cAc	p.R427H	NETO2_ENST00000303155.5_Missense_Mutation_p.R420H	NM_018092.4	NP_060562.3	Q8NC67	NETO2_HUMAN	neuropilin (NRP) and tolloid (TLL)-like 2	427					regulation of kainate selective glutamate receptor activity (GO:2000312)	kainate selective glutamate receptor complex (GO:0032983)|postsynaptic density (GO:0014069)				breast(1)|cervix(1)|endometrium(1)|large_intestine(8)|lung(11)|prostate(1)|skin(2)|upper_aerodigestive_tract(4)	29		all_cancers(37;0.00114)|all_lung(18;0.00432)|Lung NSC(13;0.0384)|Breast(268;0.174)				GGTGGAGGAGCGCCGCATCTT	0.537										HNSCC(25;0.065)			C|||	1	0.000199681	0.0	0.0014	5008	,	,		16407	0.0		0.0	False		,,,				2504	0.0															0								C	HIS/ARG,HIS/ARG	0,4406		0,0,2203	92	85	87		1280,1259	3.8	1	16		87	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense	NETO2	NM_018092.4,NM_001201477.1	29,29	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign,benign	427/526,420/519	47117430	1,13005	2203	4300	6503	SO:0001583	missense	81831			AK001292	CCDS10727.1, CCDS58460.1	16q11.2	2008-08-04			ENSG00000171208	ENSG00000171208			14644	protein-coding gene	gene with protein product		607974				11943477	Standard	NM_018092		Approved	FLJ10430, NEOT2	uc002eer.2	Q8NC67	OTTHUMG00000133101	ENST00000562435.1:c.1280G>A	16.37:g.47117430C>T	ENSP00000455169:p.Arg427His	Somatic		WXS	Illumina HiSeq	Phase_I	J3KNF1|Q7Z381|Q8ND51|Q96SP4|Q9NVY8	Missense_Mutation	SNP	ENST00000562435.1	37	CCDS10727.1	.	.	.	.	.	.	.	.	.	.	C	18.06	3.539890	0.65085	0.0	1.16E-4	ENSG00000171208	ENST00000303155	.	.	.	5.78	3.83	0.44106	.	0.048904	0.85682	N	0.000000	T	0.48677	0.1513	L	0.52126	1.63	0.53005	D	0.999961	P;B;B	0.37914	0.611;0.244;0.357	B;B;B	0.32022	0.139;0.033;0.072	T	0.51268	-0.8727	9	0.66056	D	0.02	.	12.2767	0.54739	0.0:0.8634:0.0:0.1366	.	284;427;103	B7Z4I7;Q8NC67;Q8NC67-2	.;NETO2_HUMAN;.	H	427	.	ENSP00000306726:R427H	R	-	2	0	NETO2	45674931	1.000000	0.71417	1.000000	0.80357	0.800000	0.45204	4.088000	0.57678	0.801000	0.34066	0.655000	0.94253	CGC		0.537	NETO2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256766.2	NM_018092		T	47117430	C	T	47117430	3	4	621	1	0	0	0	0	1	0	0	0	10347	768	27	1	301	1	NETO2	16	47117430	Missense_Mutation	SNP	C	TCGA-J7-8537-01A-11D-2396-08	28065739	47117430	43237323	52	38117										
EIF4A1	1973	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	7478578	7478578	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	tcgagaattggctcagcaggTaagagtggcttctattccct	11	9	2	2			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr17:7478578T>G	ENST00000293831.8	+	4	361		c.e4+2		SNORD10_ENST00000459579.1_RNA|SENP3-EIF4A1_ENST00000579777.1_RNA|EIF4A1_ENST00000380512.5_Missense_Mutation_p.V100G|SNORA48_ENST00000386847.1_RNA|EIF4A1_ENST00000582746.1_Splice_Site|SNORA67_ENST00000384423.1_RNA|EIF4A1_ENST00000577269.1_Splice_Site	NM_001416.3	NP_001407.1	P60842	IF4A1_HUMAN	eukaryotic translation initiation factor 4A1						cellular protein metabolic process (GO:0044267)|cytokine-mediated signaling pathway (GO:0019221)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|organ regeneration (GO:0031100)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)|viral process (GO:0016032)	cytosol (GO:0005829)|eukaryotic translation initiation factor 4F complex (GO:0016281)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|double-stranded RNA binding (GO:0003725)|helicase activity (GO:0004386)|mRNA binding (GO:0003729)|poly(A) RNA binding (GO:0044822)|RNA cap binding (GO:0000339)|translation factor activity, nucleic acid binding (GO:0008135)|translation initiation factor activity (GO:0003743)			NS(1)|breast(2)|cervix(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|lung(8)|ovary(2)|prostate(2)|upper_aerodigestive_tract(2)	22						GCTCAGCAGGTAAGAGTGGCT	0.488																																					Melanoma(120;278 1668 15796 27423 46368)											0													73	70	71					17																	7478578		2203	4300	6503	SO:0001630	splice_region_variant	1973			D13748	CCDS11113.1, CCDS58511.1	17p13	2012-02-23	2010-02-10		ENSG00000161960	ENSG00000161960		"DEAD-boxes"	3282	protein-coding gene	gene with protein product		602641	"eukaryotic translation initiation factor 4A, isoform 1"	EIF4A		8493113, 9790779	Standard	NM_001416		Approved	DDX2A, EIF-4A		P60842	OTTHUMG00000108149	ENST00000293831.8:c.345+2T>G	17.37:g.7478578T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R6L8|D3DTP9|J3QLC4|P04765|Q5U018|Q61516	Splice_Site	SNP	ENST00000293831.8	37	CCDS11113.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	20.7|20.7	4.031827|4.031827	0.75504|0.75504	.|.	.|.	ENSG00000161960|ENSG00000161960	ENST00000293831|ENST00000380512	.|T	.|0.17213	.|2.29	5.43|5.43	5.43|5.43	0.79202|0.79202	.|.	.|.	.|.	.|.	.|.	.|T	.|0.29749	.|0.0743	.|.	.|.	.|.	0.48511|0.48511	D|D	0.999669|0.999669	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.01195	.|-1.1422	.|5	.|.	.|.	.|.	.|.	13.4334|13.4334	0.61068|0.61068	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	.|.	.|.	.|.	.|G	-1|100	.|ENSP00000369881:V100G	.|.	.|V	+|+	.|2	.|0	EIF4A1|EIF4A1	7419302|7419302	1.000000|1.000000	0.71417|0.71417	0.999000|0.999000	0.59377|0.59377	0.957000|0.957000	0.61999|0.61999	7.698000|7.698000	0.84413|0.84413	2.077000|2.077000	0.62373|0.62373	0.459000|0.459000	0.35465|0.35465	.|GTA		0.488	EIF4A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000226952.6	NM_001416	Intron	G	7478578	T	G	7478578	5	3	621	1	0	0	0	0	0	0	1	0	5026	1652	57	5	361	5	EIF4A1	17	7478578	Splice_Site	SNP	T	TCGA-J7-8537-01A-11D-2396-08		7478578	73716632	53	38118										
MED24	9862	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	38187790	38187790	+	Splice_Site	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ggtgaccaggggagctcataCttgcagcgctggtcagcttt	14	10	2	1			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr17:38187790C>G	ENST00000394128.2	-	11	1149		c.e11+1		MED24_ENST00000501516.3_Splice_Site|MED24_ENST00000394126.1_Splice_Site|MED24_ENST00000394127.2_Splice_Site|MED24_ENST00000356271.3_Splice_Site|MED24_ENST00000479829.1_5'Flank	NM_014815.3	NP_055630.2	O75448	MED24_HUMAN	mediator complex subunit 24						androgen receptor signaling pathway (GO:0030521)|gene expression (GO:0010467)|intracellular steroid hormone receptor signaling pathway (GO:0030518)|positive regulation of transcription, DNA-templated (GO:0045893)|protein heterooligomerization (GO:0051291)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|stem cell maintenance (GO:0019827)|transcription initiation from RNA polymerase II promoter (GO:0006367)	mediator complex (GO:0016592)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	histone acetyltransferase activity (GO:0004402)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|receptor activity (GO:0004872)|RNA polymerase II transcription cofactor activity (GO:0001104)|thyroid hormone receptor binding (GO:0046966)|transcription cofactor activity (GO:0003712)|vitamin D receptor binding (GO:0042809)			autonomic_ganglia(1)|breast(2)|endometrium(9)|large_intestine(10)|lung(14)|ovary(1)|prostate(2)|skin(1)|urinary_tract(1)	41	Colorectal(19;0.000442)					GGAGCTCATACTTGCAGCGCT	0.557																																																0													84	82	82					17																	38187790		2203	4300	6503	SO:0001630	splice_region_variant	9862			AF055995	CCDS11359.1, CCDS42315.1	17q21.2	2007-07-30	2007-07-30	2007-07-30	ENSG00000008838	ENSG00000008838			22963	protein-coding gene	gene with protein product		607000	"thyroid hormone receptor associated protein 4", "cofactor required for Sp1 transcriptional activation, subunit 4, 100kDa"	THRAP4, CRSP4			Standard	NM_001079518		Approved	TRAP100, KIAA0130, DRIP100, CRSP100	uc002htt.3	O75448	OTTHUMG00000133329	ENST00000394128.2:c.1067+1G>C	17.37:g.38187790C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K4S5|B3KMR9|Q14143|Q9NNY5	Splice_Site	SNP	ENST00000394128.2	37	CCDS11359.1	.	.	.	.	.	.	.	.	.	.	C	20.2	3.948640	0.73787	.	.	ENSG00000008838	ENST00000394126;ENST00000356271;ENST00000394128;ENST00000535071;ENST00000394127;ENST00000536318;ENST00000431269	.	.	.	4.56	4.56	0.56223	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	17.4676	0.87638	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	MED24	35441316	1.000000	0.71417	1.000000	0.80357	0.904000	0.53231	3.743000	0.55104	2.533000	0.85409	0.561000	0.74099	.		0.557	MED24-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257147.2	NM_014815	Intron	G	38187790	C	G	38187790	5	3	621	1	0	0	0	0	0	0	1	0	9449	579	20	4	1965	4	MED24	17	38187790	Splice_Site	SNP	C	TCGA-J7-8537-01A-11D-2396-08	30709212	38187790	43007420	54	38119										
MPP3	4356	broad.mit.edu	37	chr17	41888202	41888203	+	Frame_Shift_Del	DEL	TT	TT	-													0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	tccacatccaccaaacaaacTttgtttttggccataacagc							TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr17:41888202_41888203delTT	ENST00000398389.4	-	18	1595_1596	c.1430_1431delAA	c.(1429-1431)aaafs	p.K477fs	MPP3_ENST00000398393.1_Frame_Shift_Del_p.K502fs	NM_001932.4	NP_001923.2	Q13368	MPP3_HUMAN	membrane protein, palmitoylated 3 (MAGUK p55 subfamily member 3)	477	Guanylate kinase-like. {ECO:0000255|PROSITE-ProRule:PRU00100}.				nucleotide phosphorylation (GO:0046939)|signal transduction (GO:0007165)	integral component of plasma membrane (GO:0005887)	guanylate kinase activity (GO:0004385)			endometrium(2)|kidney(2)|large_intestine(5)|lung(11)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	26		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		CCAAACAAACTTTGTTTTTGGC	0.45																																																0																																										SO:0001589	frameshift_variant	4356				CCDS42344.1	17q12-q21	2008-07-18			ENSG00000161647	ENSG00000161647			7221	protein-coding gene	gene with protein product	"MAGUK p55 subfamily member 3", "discs, large (Drosophila) homolog 3", "membrane protein palmitoylated 3"	601114		DLG3		8824795	Standard	NR_003562		Approved		uc002iei.4	Q13368	OTTHUMG00000133838	ENST00000398389.4:c.1430_1431delAA	17.37:g.41888202_41888203delTT	ENSP00000381425:p.Lys477fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7N0|D3DX47|Q4GX05|Q6PGR3|Q86SV1	Frame_Shift_Del	DEL	ENST00000398389.4	37	CCDS42344.1																																																																																				0.45	MPP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258371.1	NM_001932		-	41888203	TT	-	41888202	7	5	621	1	0	1	0	1	0	0	0	0	9742	1606	56	0	338	0	MPP3	17	41888202	Frame_Shift_Del	DEL	TT	TCGA-J7-8537-01A-11D-2396-08	3700412	41888202	39307008	55	38120										
NPEPPS	9520	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	45669357	45669357	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ccatctgaggttgatgagatAtttgatgctatatcatatag	9	5	2	4			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr17:45669357A>T	ENST00000322157.4	+	11	1533	c.1296A>T	c.(1294-1296)atA>atT	p.I432I	NPEPPS_ENST00000530173.1_Silent_p.I428I|NPEPPS_ENST00000525037.1_3'UTR|NPEPPS_ENST00000544660.1_Silent_p.I352I	NM_006310.3	NP_006301.3	P55786	PSA_HUMAN	aminopeptidase puromycin sensitive	432					antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular response to hypoxia (GO:0071456)|protein polyubiquitination (GO:0000209)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	aminopeptidase activity (GO:0004177)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(6)|lung(7)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	27						TTGATGAGATATTTGATGCTA	0.383																																																0													123	78	93					17																	45669357		2021	4151	6172	SO:0001819	synonymous_variant	9520			Y07701	CCDS45721.1	17q12-q21	2008-07-18			ENSG00000141279	ENSG00000141279	3.4.11.2		7900	protein-coding gene	gene with protein product	"puromycin-sensitive aminopeptidase", "metalloproteinase MP100"	606793				9048733, 10329370	Standard	NM_006310		Approved	PSA, MP100	uc002ilr.4	P55786	OTTHUMG00000165471	ENST00000322157.4:c.1296A>T	17.37:g.45669357A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z463|Q6P145|Q9NP16|Q9UEM2	Silent	SNP	ENST00000322157.4	37	CCDS45721.1																																																																																				0.383	NPEPPS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384269.1	NM_006310		T	45669357	A	T	45669357	2	4	621	1	0	0	0	0	0	0	0	1	10582	439	16	5		5	NPEPPS	17	45669357	Silent	SNP	A	TCGA-J7-8537-01A-11D-2396-08	3781155	45669357	35525853	56	38121										
CCDC45	90799	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	62532827	62532827	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	gaacaaaggagacgccaccaGgatgaactggactccatgga	12	10	0	2			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr17:62532827G>C	ENST00000556440.2	+	18	2688	c.2178G>C	c.(2176-2178)caG>caC	p.Q726H	CEP95_ENST00000553412.1_Missense_Mutation_p.Q562H	NM_138363.1	NP_612372.1	Q96GE4	CEP95_HUMAN	centrosomal protein 95kDa	726						centrosome (GO:0005813)|cytoplasm (GO:0005737)|spindle pole (GO:0000922)				endometrium(1)|kidney(3)|large_intestine(5)|lung(3)|ovary(1)	13						GACGCCACCAGGATGAACTGG	0.458																																																0													78	82	81					17																	62532827		2022	4184	6206	SO:0001583	missense	90799			AL832822	CCDS45763.1	17q24.1	2014-02-20	2011-05-06	2011-05-06	ENSG00000258890	ENSG00000258890			25141	protein-coding gene	gene with protein product			"coiled-coil domain containing 45"	CCDC45		21399614	Standard	NM_138363		Approved	DKFZp667E1824	uc002jem.3	Q96GE4	OTTHUMG00000179174	ENST00000556440.2:c.2178G>C	17.37:g.62532827G>C	ENSP00000450461:p.Gln726His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DMD2|Q96M81	Missense_Mutation	SNP	ENST00000556440.2	37	CCDS45763.1	.	.	.	.	.	.	.	.	.	.	G	16.52	3.146995	0.57151	.	.	ENSG00000258890	ENST00000553956;ENST00000556440;ENST00000553412	T;T	0.37411	1.25;1.2	5.48	3.5	0.40072	.	0.125921	0.53938	D	0.000047	T	0.51839	0.1698	L	0.59436	1.845	0.35792	D	0.822454	D	0.89917	1.0	D	0.73380	0.98	T	0.61964	-0.6954	10	0.72032	D	0.01	-13.7497	9.6268	0.39754	0.275:0.0:0.725:0.0	.	726	Q96GE4	CEP95_HUMAN	H	661;726;562	ENSP00000450461:Q726H;ENSP00000450906:Q562H	ENSP00000438458:Q661H	Q	+	3	2	CEP95	59963289	1.000000	0.71417	1.000000	0.80357	0.728000	0.41692	0.926000	0.28804	0.805000	0.34159	0.650000	0.86243	CAG		0.458	CEP95-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445100.2	NM_138363		C	62532827	G	C	62532827	3	2	621	1	0	0	0	0	1	0	0	0	2818	991	35	4	2248	4	CCDC45	17	62532827	Missense_Mutation	SNP	G	TCGA-J7-8537-01A-11D-2396-08	16863470	62532827	18662383	57	38122										
LINGO3	645191	hgsc.bcm.edu	37	chr19	2290499	2290499	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	cctcggcgcggcagaggaagCggacgtcttcgcccgcggtg	17	14	1	1	rs7258841	byFrequency	TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr19:2290499C>T	ENST00000585527.1	-	1	1524	c.1277G>A	c.(1276-1278)cGc>cAc	p.R426H	LINGO3_ENST00000404279.1_Missense_Mutation_p.R426H			P0C6S8	LIGO3_HUMAN	leucine rich repeat and Ig domain containing 3	426	Ig-like C2-type.		R -> H (in dbSNP:rs7258841).			integral component of membrane (GO:0016021)				lung(1)|urinary_tract(1)	2						GCAGAGGAAGCGGACGTCTTC	0.756													C|||	1440	0.28754	0.4017	0.2536	5008	,	,		9136	0.3363		0.1292	False		,,,				2504	0.2699															0													1	2	2					19																	2290499		1143	2693	3836	SO:0001583	missense	645191			AK091795	CCDS45905.1	19p13.3	2013-01-11	2007-02-01	2007-02-01		ENSG00000220008		"Immunoglobulin superfamily / I-set domain containing"	21206	protein-coding gene	gene with protein product		609792	"leucine rich repeat neuronal 6B"	LRRN6B		14686891	Standard	NM_001101391		Approved	LERN2	uc010dsx.1	P0C6S8		ENST00000585527.1:c.1277G>A	19.37:g.2290499C>T	ENSP00000467753:p.Arg426His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000585527.1	37	CCDS45905.1	581	0.266025641025641	199	0.40447154471544716	83	0.2292817679558011	203	0.3548951048951049	96	0.1266490765171504	c	8.925	0.961929	0.18583	.	.	ENSG00000220008	ENST00000404279	T	0.68624	-0.34	4.12	2.99	0.34606	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.00012	0.0000	N	0.12527	0.23	0.37498	P	0.08333100000000004	B	0.12013	0.005	B	0.12156	0.007	T	0.28744	-1.0034	8	0.10902	T	0.67	.	10.7018	0.45931	0.0:0.5797:0.4203:0.0	rs7258841	426	P0C6S8	LIGO3_HUMAN	H	426	ENSP00000384979:R426H	ENSP00000384979:R426H	R	-	2	0	LINGO3	2241499	0.985000	0.35326	1.000000	0.80357	0.779000	0.44077	0.931000	0.28871	1.852000	0.53769	0.462000	0.41574	CGC		0.756	LINGO3-001	KNOWN	upstream_ATG|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000451291.2	NM_001101391		T	2290499	C	T	2290499	3	4	621	1	0	0	0	0	1	0	0	0	8823	768	27	1	505	1	LINGO3	19	2290499	Missense_Mutation	SNP	C	TCGA-J7-8537-01A-11D-2396-08		2290499	56838484	58	38123										
ZNF682	91120	hgsc.bcm.edu	37	chr19	20117835	20117835	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ttatgttttctctatttagaTttgatgatttactaaagact	5	4	1	4			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr19:20117835T>C	ENST00000397165.2	-	4	636	c.476A>G	c.(475-477)aAt>aGt	p.N159S	ZNF682_ENST00000597972.1_Missense_Mutation_p.N165S|ZNF682_ENST00000358523.5_Missense_Mutation_p.N127S|ZNF682_ENST00000397162.1_Missense_Mutation_p.N127S|ZNF682_ENST00000595736.1_Missense_Mutation_p.N83S|ZNF682_ENST00000596019.1_Intron	NM_033196.2	NP_149973.1	O95780	ZN682_HUMAN	zinc finger protein 682	159					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|large_intestine(2)|lung(6)|ovary(1)|pancreas(1)|prostate(1)|stomach(1)|urinary_tract(1)	14						TCTATTTAGATTTGATGATTT	0.294																																																0													67	62	64					19																	20117835		1813	4079	5892	SO:0001583	missense	91120			AC006539	CCDS42533.1, CCDS42534.1	19p12	2014-02-13			ENSG00000197124	ENSG00000197124		"Zinc fingers, C2H2-type", "-"	28857	protein-coding gene	gene with protein product							Standard	NM_033196		Approved	BC39498_3	uc002noq.3	O95780	OTTHUMG00000182650	ENST00000397165.2:c.476A>G	19.37:g.20117835T>C	ENSP00000380351:p.Asn159Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KU64|E9PFJ5|Q96JV9	Missense_Mutation	SNP	ENST00000397165.2	37	CCDS42533.1	.	.	.	.	.	.	.	.	.	.	T	2.164	-0.391440	0.04932	.	.	ENSG00000197124	ENST00000397165;ENST00000397162;ENST00000358523	T;T;T	0.35973	1.28;1.28;1.28	1.23	-2.47	0.06442	Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.21962	0.0529	L	0.33245	0.995	0.09310	N	1	B	0.12630	0.006	B	0.18871	0.023	T	0.20571	-1.0271	9	0.39692	T	0.17	.	3.5569	0.07867	0.0:0.2275:0.2188:0.5538	.	159	O95780	ZN682_HUMAN	S	159;127;127	ENSP00000380351:N159S;ENSP00000380348:N127S;ENSP00000351324:N127S	ENSP00000351324:N127S	N	-	2	0	ZNF682	19978835	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.780000	0.04654	-0.909000	0.03852	-0.483000	0.04790	AAT		0.294	ZNF682-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462888.1	NM_033196		C	20117835	T	C	20117835	3	2	621	1	0	0	0	0	1	0	0	0	18101	1493	52	3	1024	3	ZNF682	19	20117835	Missense_Mutation	SNP	T	TCGA-J7-8537-01A-11D-2396-08	17827336	20117835	39011148	59	38124										
ZNF419	79744	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	58005060	58005060	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	agtgcagcgactgtgggaaaTtttttacccaatgctcaagc	10	9	1	0			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr19:58005060T>G	ENST00000221735.7	+	5	1321	c.1135T>G	c.(1135-1137)Ttt>Gtt	p.F379V	ZNF419_ENST00000442920.2_Missense_Mutation_p.F366V|ZNF419_ENST00000415379.2_Missense_Mutation_p.F333V|ZNF419_ENST00000426954.2_Missense_Mutation_p.F367V|AC003005.4_ENST00000601674.1_Intron|ZNF419_ENST00000354197.4_Missense_Mutation_p.F367V|ZNF419_ENST00000424930.2_Missense_Mutation_p.F380V|ZNF419_ENST00000347466.6_Missense_Mutation_p.F347V			Q96HQ0	ZN419_HUMAN	zinc finger protein 419	379					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(8)|lung(10)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	26		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Breast(46;0.0848)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0252)|Lung(386;0.171)		CTGTGGGAAATTTTTTACCCA	0.408																																																0													81	85	84					19																	58005060		2200	4297	6497	SO:0001583	missense	79744			AK026886	CCDS42637.1, CCDS46211.1, CCDS54325.1, CCDS54326.1, CCDS54327.1, CCDS54328.1	19q13.43	2013-01-08	2006-12-15	2006-12-15	ENSG00000105136	ENSG00000105136		"Zinc fingers, C2H2-type", "-"	20648	protein-coding gene	gene with protein product			"zinc finger protein 419A"	ZNF419A			Standard	NM_001098492		Approved		uc010ety.1	Q96HQ0	OTTHUMG00000037073	ENST00000221735.7:c.1135T>G	19.37:g.58005060T>G	ENSP00000221735:p.Phe379Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DXU7|B4E348|B7ZA41|E9PCP4|E9PED0|E9PET3|E9PFX9|Q9H5P0	Missense_Mutation	SNP	ENST00000221735.7	37	CCDS54326.1	.	.	.	.	.	.	.	.	.	.	T	10.63	1.405079	0.25378	.	.	ENSG00000105136	ENST00000284020;ENST00000424930;ENST00000426954;ENST00000354197;ENST00000442920;ENST00000517598;ENST00000347466;ENST00000415379;ENST00000221735	T;T;T;T;T;T;T	0.16743	3.25;3.25;3.25;3.25;3.25;2.32;3.25	2.26	1.16	0.20824	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.14614	0.0353	N	0.02539	-0.55	0.23454	N	0.997643	D;D;D;D;B;D;B	0.69078	0.985;0.991;0.997;0.991;0.292;0.996;0.292	D;D;D;D;B;D;B	0.79108	0.966;0.982;0.992;0.988;0.071;0.986;0.071	T	0.25222	-1.0138	9	0.38643	T	0.18	.	7.3178	0.26511	0.0:0.0:0.2246:0.7754	.	333;333;366;367;380;347;379	E9PFX9;B4DXU7;E9PCP4;E9PET3;E9PED0;Q96HQ0-2;Q96HQ0	.;.;.;.;.;.;ZN419_HUMAN	V	354;380;367;367;366;380;347;333;379	ENSP00000388864:F380V;ENSP00000390916:F367V;ENSP00000346136:F367V;ENSP00000414709:F366V;ENSP00000299860:F347V;ENSP00000392129:F333V;ENSP00000221735:F379V	ENSP00000221735:F379V	F	+	1	0	ZNF419	62696872	0.000000	0.05858	0.044000	0.18714	0.111000	0.19643	-1.253000	0.02877	0.101000	0.17610	0.260000	0.18958	TTT		0.408	ZNF419-006	KNOWN	NAGNAG_splice_site|non_canonical_polymorphism|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000378506.1	NM_024691		G	58005060	T	G	58005060	3	3	621	1	0	0	0	0	1	0	0	0	17908	1493	52	5	1156	5	ZNF419	19	58005060	Missense_Mutation	SNP	T	TCGA-J7-8537-01A-11D-2396-08	37887225	58005060	1123923	60	38125										
C20orf7	79133	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	13775537	13775537	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	agcgttttagctgatgaagaAttccttcccttcaaagaaaa	7	8	1	4			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr20:13775537A>T	ENST00000378106.5	+	5	548	c.429A>T	c.(427-429)gaA>gaT	p.E143D	NDUFAF5_ENST00000475968.1_Intron|NDUFAF5_ENST00000463598.1_Intron	NM_024120.4	NP_077025.2	Q5TEU4	NDUF5_HUMAN	NADH dehydrogenase (ubiquinone) complex I, assembly factor 5	143					mitochondrial respiratory chain complex I assembly (GO:0032981)	extrinsic component of mitochondrial inner membrane (GO:0031314)	methyltransferase activity (GO:0008168)										CTGATGAAGAATTCCTTCCCT	0.318																																																0													105	105	105					20																	13775537		2203	4300	6503	SO:0001583	missense	79133				CCDS13118.1, CCDS33441.1	20p12.1	2012-10-12	2012-05-08	2012-05-08	ENSG00000101247	ENSG00000101247		"Mitochondrial respiratory chain complex assembly factors"	15899	protein-coding gene	gene with protein product		612360	"chromosome 20 open reading frame 7"	C20orf7		18940309, 21607760	Standard	NM_024120		Approved	dJ842G6.1	uc002wom.3	Q5TEU4	OTTHUMG00000031909	ENST00000378106.5:c.429A>T	20.37:g.13775537A>T	ENSP00000367346:p.Glu143Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K166|Q6GPH3|Q9H6F4	Missense_Mutation	SNP	ENST00000378106.5	37	CCDS13118.1	.	.	.	.	.	.	.	.	.	.	A	22.4	4.282700	0.80692	.	.	ENSG00000101247	ENST00000378106;ENST00000536501	D	0.85484	-1.99	5.93	2.37	0.29283	Methyltransferase type 11 (1);	0.000000	0.85682	D	0.000000	D	0.88362	0.6416	L	0.49513	1.565	0.80722	D	1	D;D	0.89917	1.0;0.985	D;D	0.81914	0.995;0.951	D	0.86347	0.1708	10	0.72032	D	0.01	-15.2415	9.9234	0.41478	0.7238:0.0:0.2762:0.0	.	143;143	Q5TEU4;B3KR61	CT007_HUMAN;.	D	143	ENSP00000367346:E143D	ENSP00000437325:E143D	E	+	3	2	C20orf7	13723537	1.000000	0.71417	0.999000	0.59377	0.991000	0.79684	2.111000	0.41883	0.126000	0.18424	-0.408000	0.06270	GAA		0.318	NDUFAF5-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078057.2	NM_001039375		T	13775537	A	T	13775537	3	4	621	1	0	0	0	0	1	0	0	0	2117	98	4	5	467	5	C20orf7	20	13775537	Missense_Mutation	SNP	A	TCGA-J7-8537-01A-11D-2396-08		13775537	49249983	61	38126										
FAM83D	81610	hgsc.bcm.edu	37	chr20	37555364	37555364	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	gaggactcgttcggctcctcGcacgactgctcttcgggcac	12	15	1	0			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr20:37555364G>A	ENST00000217429.4	+	1	410	c.369G>A	c.(367-369)tcG>tcA	p.S123S		NM_030919.2	NP_112181.2	Q9H4H8	FA83D_HUMAN	family with sequence similarity 83, member D	93					mitotic nuclear division (GO:0007067)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)				endometrium(2)|kidney(2)|large_intestine(7)|lung(12)|ovary(4)|stomach(1)	28		Myeloproliferative disorder(115;0.00878)				TCGGCTCCTCGCACGACTGCT	0.721																																																0													3	4	4					20																	37555364		1771	3831	5602	SO:0001819	synonymous_variant	81610			AL023803	CCDS42872.1	20q11.23	2014-03-13	2006-03-23	2006-03-23	ENSG00000101447	ENSG00000101447			16122	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 129"	C20orf129		23205133	Standard	NM_030919		Approved	dJ616B8.3	uc002xjg.3	Q9H4H8	OTTHUMG00000032462	ENST00000217429.4:c.369G>A	20.37:g.37555364G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4E1I7|Q5THR2|Q68EN1|Q6P457|Q7Z6H0|Q96DF5|Q96N89|Q9BVM8	Silent	SNP	ENST00000217429.4	37	CCDS42872.1																																																																																				0.721	FAM83D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079211.1			A	37555364	G	A	37555364	2	1	621	1	0	0	0	0	0	0	0	1	5643	1074	38	1		1	FAM83D	20	37555364	Silent	SNP	G	TCGA-J7-8537-01A-11D-2396-08	23779827	37555364	25470156	62	38127										
GART	2618	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	34904710	34904710	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	gctctttgcaacaatcacccCttttccagctgcaagaccac	5	16	2	1			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr21:34904710C>T	ENST00000381831.3	-	5	732	c.469G>A	c.(469-471)Ggg>Agg	p.G157R	GART_ENST00000381839.3_Missense_Mutation_p.G157R|GART_ENST00000381815.4_Missense_Mutation_p.G157R|GART_ENST00000361093.5_Missense_Mutation_p.G157R|GART_ENST00000497313.1_5'UTR	NM_001136005.1	NP_001129477.1	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazole synthetase	157	ATP-grasp.				'de novo' IMP biosynthetic process (GO:0006189)|brainstem development (GO:0003360)|cerebellum development (GO:0021549)|cerebral cortex development (GO:0021987)|glycine metabolic process (GO:0006544)|nucleobase-containing small molecule metabolic process (GO:0055086)|purine nucleobase biosynthetic process (GO:0009113)|purine nucleobase metabolic process (GO:0006144)|purine ribonucleoside monophosphate biosynthetic process (GO:0009168)|response to inorganic substance (GO:0010035)|response to organic substance (GO:0010033)|small molecule metabolic process (GO:0044281)|tetrahydrofolate biosynthetic process (GO:0046654)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|methyltransferase activity (GO:0008168)|phosphoribosylamine-glycine ligase activity (GO:0004637)|phosphoribosylformylglycinamidine cyclo-ligase activity (GO:0004641)|phosphoribosylglycinamide formyltransferase activity (GO:0004644)			NS(2)|breast(1)|endometrium(3)|large_intestine(3)|lung(13)|ovary(3)|prostate(5)|urinary_tract(1)	31					Pemetrexed(DB00642)	ACAATCACCCCTTTTCCAGCT	0.428																																																0													213	227	222					21																	34904710		2203	4300	6503	SO:0001583	missense	2618			M32082	CCDS13627.1, CCDS13628.1	21q22.11	2012-10-02			ENSG00000159131	ENSG00000159131	2.1.2.2, 6.3.3.1, 6.3.4.13		4163	protein-coding gene	gene with protein product		138440		PRGS, PGFT		2050105	Standard	NM_001136005		Approved		uc002yrx.3	P22102	OTTHUMG00000065628	ENST00000381831.3:c.469G>A	21.37:g.34904710C>T	ENSP00000371253:p.Gly157Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K945|A8KA32|D3DSF3|D3DSF4|O14659|Q52M77	Missense_Mutation	SNP	ENST00000381831.3	37	CCDS13627.1	.	.	.	.	.	.	.	.	.	.	C	35	5.450836	0.96205	.	.	ENSG00000159131	ENST00000381815;ENST00000381831;ENST00000381839;ENST00000361093;ENST00000430874;ENST00000426819	T;T;T;T;T;T	0.67698	0.46;0.46;0.46;0.38;-0.15;-0.28	6.07	6.07	0.98685	ATP-grasp fold (1);ATP-grasp fold, subdomain 1 (1);Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain (1);	0.000000	0.85682	D	0.000000	D	0.87787	0.6265	H	0.94542	3.55	0.80722	D	1	D	0.89917	1.0	D	0.72625	0.978	D	0.89842	0.4003	10	0.87932	D	0	-20.8496	20.6593	0.99626	0.0:1.0:0.0:0.0	.	157	P22102	PUR2_HUMAN	R	157	ENSP00000371236:G157R;ENSP00000371253:G157R;ENSP00000371261:G157R;ENSP00000354388:G157R;ENSP00000413040:G157R;ENSP00000398631:G157R	ENSP00000354388:G157R	G	-	1	0	GART	33826580	1.000000	0.71417	1.000000	0.80357	0.948000	0.59901	7.487000	0.81328	2.885000	0.99019	0.655000	0.94253	GGG		0.428	GART-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140626.3	NM_000819		T	34904710	C	T	34904710	3	4	621	1	0	0	0	0	1	0	0	0	6250	681	24	2	2639	2	GART	21	34904710	Missense_Mutation	SNP	C	TCGA-J7-8537-01A-11D-2396-08		34904710	13225185	63	38128										
ADORA2A	135	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	24837246	24837246	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	ccgtctcaacggccacccgcCaggagtgtgggccaacggca	13	16	1	0			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chr22:24837246C>T	ENST00000337539.7	+	3	1487	c.1028C>T	c.(1027-1029)cCa>cTa	p.P343L	ADORA2A-AS1_ENST00000543438.1_RNA|ADORA2A-AS1_ENST00000427813.2_RNA|SPECC1L-ADORA2A_ENST00000358654.2_3'UTR|ADORA2A-AS1_ENST00000326341.4_RNA	NM_000675.4|NM_001278497.1|NM_001278498.1|NM_001278499.1|NM_001278500.1	NP_000666.2|NP_001265426.1|NP_001265427.1|NP_001265428.1|NP_001265429.1	P29274	AA2AR_HUMAN	adenosine A2a receptor	343					activation of adenylate cyclase activity (GO:0007190)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|apoptotic process (GO:0006915)|blood circulation (GO:0008015)|blood coagulation (GO:0007596)|cAMP biosynthetic process (GO:0006171)|cell-cell signaling (GO:0007267)|cellular defense response (GO:0006968)|central nervous system development (GO:0007417)|inflammatory response (GO:0006954)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phagocytosis (GO:0006909)|positive regulation of adenylate cyclase activity involved in G-protein coupled receptor signaling pathway (GO:0010579)|sensory perception (GO:0007600)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	enzyme binding (GO:0019899)|G-protein coupled adenosine receptor activity (GO:0001609)|identical protein binding (GO:0042802)			breast(1)|endometrium(2)|kidney(2)|large_intestine(7)|liver(1)|lung(7)|skin(1)	21	Colorectal(2;0.196)				Adenosine(DB00640)|Caffeine(DB00201)|Defibrotide(DB04932)|Dyphylline(DB00651)|Enprofylline(DB00824)|Mefloquine(DB00358)|Oxtriphylline(DB01303)|Pentoxifylline(DB00806)|Regadenoson(DB06213)|Theobromine(DB01412)|Theophylline(DB00277)	GGCCACCCGCCAGGAGTGTGG	0.662																																																0													25	22	23					22																	24837246		2202	4299	6501	SO:0001583	missense	135			X68486	CCDS13826.1	22q11.23	2012-08-08			ENSG00000128271	ENSG00000128271		"GPCR / Class A : Adenosine receptors"	263	protein-coding gene	gene with protein product		102776		ADORA2		1662665, 2541503	Standard	NM_001278497		Approved	RDC8	uc002zzy.4	P29274	OTTHUMG00000150761	ENST00000337539.7:c.1028C>T	22.37:g.24837246C>T	ENSP00000336630:p.Pro343Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7E0	Missense_Mutation	SNP	ENST00000337539.7	37	CCDS13826.1	.	.	.	.	.	.	.	.	.	.	C	1.893	-0.454933	0.04540	.	.	ENSG00000128271	ENST00000444262;ENST00000541988;ENST00000337539;ENST00000417596	T;T	0.62941	0.01;-0.01	4.95	0.288	0.15719	.	0.374401	0.24291	N	0.039802	T	0.37972	0.1023	N	0.24115	0.695	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.08722	-1.0708	10	0.26408	T	0.33	-1.5144	3.3452	0.07132	0.1839:0.3375:0.0:0.4785	.	343	P29274	AA2AR_HUMAN	L	343	ENSP00000414802:P343L;ENSP00000336630:P343L	ENSP00000336630:P343L	P	+	2	0	ADORA2A	23167246	0.000000	0.05858	0.000000	0.03702	0.511000	0.34104	0.577000	0.23758	0.177000	0.19895	0.462000	0.41574	CCA		0.662	ADORA2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319971.2	NM_000675		T	24837246	C	T	24837246	3	4	621	1	0	0	0	0	1	0	0	0	327	594	21	2	1034	2	ADORA2A	22	24837246	Missense_Mutation	SNP	C	TCGA-J7-8537-01A-11D-2396-08		24837246	26467320	64	38129										
GRPR	2925	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	16168549	16168550	+	Frame_Shift_Ins	INS	-	-	C													0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	cattccagaggccgtgttttINSctgacctccatcccttccat							TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chrX:16168549_16168550insC	ENST00000380289.2	+	2	933_934	c.535_536insC	c.(535-537)tctfs	p.S179fs	RP11-431J24.2_ENST00000422438.1_RNA|RP11-431J24.2_ENST00000435789.1_RNA|RP11-431J24.2_ENST00000454712.2_RNA	NM_005314.2	NP_005305.1	P30550	GRPR_HUMAN	gastrin-releasing peptide receptor	179					cell proliferation (GO:0008283)|G-protein coupled receptor signaling pathway (GO:0007186)|regulation of cell proliferation (GO:0042127)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	bombesin receptor activity (GO:0004946)|G-protein coupled peptide receptor activity (GO:0008528)			central_nervous_system(1)|endometrium(1)|large_intestine(4)|lung(12)|ovary(3)|stomach(1)|upper_aerodigestive_tract(3)	25	Hepatocellular(33;0.183)					GGCCGTGTTTTCTGACCTCCAT	0.505																																																0																																										SO:0001589	frameshift_variant	2925				CCDS14174.1	Xp22.2	2014-02-21			ENSG00000126010	ENSG00000126010		"GPCR / Class A : Bombesin receptors"	4609	protein-coding gene	gene with protein product	"bombesin receptor 2"	305670					Standard	NM_005314		Approved	BB2	uc004cxj.3	P30550	OTTHUMG00000021189	ENST00000380289.2:c.536dupC	X.37:g.16168550_16168550dupC	ENSP00000369643:p.Ser179fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R910	Frame_Shift_Ins	INS	ENST00000380289.2	37	CCDS14174.1																																																																																				0.505	GRPR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055901.1	NM_005314		C	16168550	-	C	16168549	7	5	621	1	0	1	1	0	0	0	0	0	6815	1783	62	0	541	0	GRPR	23	16168549	Frame_Shift_Ins	INS	-	TCGA-J7-8537-01A-11D-2396-08		16168549	139102011	65	38130										
CNKSR2	22866	broad.mit.edu	37	chrX	21627678	21627680	+	In_Frame_Del	DEL	GAG	GAG	-													0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	aacccccagaggtggaggaaGaggaggaggaggaggaggag							TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chrX:21627678_21627680delGAG	ENST00000379510.3	+	20	2671_2673	c.2635_2637delGAG	c.(2635-2637)gagdel	p.E886del	CNKSR2_ENST00000425654.2_In_Frame_Del_p.E856del|CNKSR2_ENST00000543067.1_In_Frame_Del_p.E837del|CNKSR2_ENST00000279451.4_In_Frame_Del_p.E886del	NM_014927.3	NP_055742.2	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras 2	886	Poly-Glu.				regulation of signal transduction (GO:0009966)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)				breast(3)|endometrium(8)|kidney(2)|large_intestine(15)|lung(28)|prostate(2)|upper_aerodigestive_tract(3)	61						ggtggaggaagaggaggaggagg	0.517																																																0																																										SO:0001651	inframe_deletion	22866			AB020709	CCDS14198.1, CCDS55387.1, CCDS55388.1, CCDS55389.1	Xp22.12	2013-01-10			ENSG00000149970	ENSG00000149970		"Sterile alpha motif (SAM) domain containing", "Pleckstrin homology (PH) domain containing"	19701	protein-coding gene	gene with protein product		300724					Standard	NM_014927		Approved	KIAA0902, CNK2, KSR2	uc004czx.2	Q8WXI2	OTTHUMG00000021233	ENST00000379510.3:c.2635_2637delGAG	X.37:g.21627687_21627689delGAG	ENSP00000368824:p.Glu886del	Somatic		WXS	Illumina HiSeq	Phase_I	B4DGR4|B7ZLJ1|B9EG83|E7ESA4|O94976|Q5JPK4|Q5JPN0|Q8WXI1	In_Frame_Del	DEL	ENST00000379510.3	37	CCDS14198.1																																																																																				0.517	CNKSR2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056019.1	NM_014927		-	21627680	GAG	-	21627678	7	5	621	1	0	1	0	1	0	0	0	0	3609	943	33	0	2713	0	CNKSR2	23	21627678	In_Frame_Del	DEL	GAG	TCGA-J7-8537-01A-11D-2396-08	5459129	21627678	133642882	66	38131										
RP2	6102	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	46713306	46713306	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	aaagatgcagggctaagtatCttcaacaatacatggagtaa	9	6	2	1			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chrX:46713306C>G	ENST00000218340.3	+	2	659	c.498C>G	c.(496-498)atC>atG	p.I166M		NM_006915.2	NP_008846.2	O75695	XRP2_HUMAN	retinitis pigmentosa 2 (X-linked recessive)	166	C-CAP/cofactor C-like. {ECO:0000255|PROSITE-ProRule:PRU00659}.				cell morphogenesis (GO:0000902)|CTP biosynthetic process (GO:0006241)|cytoskeleton organization (GO:0007010)|GTP biosynthetic process (GO:0006183)|positive regulation of GTPase activity (GO:0043547)|post-Golgi vesicle-mediated transport (GO:0006892)|protein folding (GO:0006457)|protein transport (GO:0015031)|UTP biosynthetic process (GO:0006228)|visual perception (GO:0007601)	centriole (GO:0005814)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|periciliary membrane compartment (GO:1990075)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|GTP binding (GO:0005525)|GTPase activator activity (GO:0005096)|nucleoside diphosphate kinase activity (GO:0004550)|unfolded protein binding (GO:0051082)			NS(1)|large_intestine(4)|lung(5)|stomach(1)	11						GGCTAAGTATCTTCAACAATA	0.403																																																0													111	97	101					X																	46713306		2203	4300	6503	SO:0001583	missense	6102			AJ007590	CCDS14270.1	Xp11.3	2013-01-08			ENSG00000102218	ENSG00000102218			10274	protein-coding gene	gene with protein product		300757				6325945, 9697692, 19852809	Standard	NM_006915		Approved	TBCCD2, NME10, NM23-H10	uc004dgw.4	O75695	OTTHUMG00000021430	ENST00000218340.3:c.498C>G	X.37:g.46713306C>G	ENSP00000218340:p.Ile166Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q86XJ7|Q9NU67	Missense_Mutation	SNP	ENST00000218340.3	37	CCDS14270.1	.	.	.	.	.	.	.	.	.	.	C	14.78	2.637203	0.47049	.	.	ENSG00000102218	ENST00000218340	D	0.86627	-2.15	5.64	3.89	0.44902	Tubulin binding cofactor C (1);C-CAP/cofactor C-like domain (1);	0.093345	0.64402	D	0.000001	D	0.89646	0.6775	M	0.65975	2.015	0.48632	D	0.999683	P	0.52316	0.952	P	0.57324	0.818	D	0.87427	0.2386	10	0.48119	T	0.1	-23.7323	9.0313	0.36260	0.0:0.7697:0.0:0.2303	.	166	O75695	XRP2_HUMAN	M	166	ENSP00000218340:I166M	ENSP00000218340:I166M	I	+	3	3	RP2	46598250	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	1.459000	0.35234	0.558000	0.29135	-0.191000	0.12829	ATC		0.403	RP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056375.1	NM_006915		G	46713306	C	G	46713306	3	3	621	1	0	0	0	0	1	0	0	0	13547	903	32	4	504	4	RP2	23	46713306	Missense_Mutation	SNP	C	TCGA-J7-8537-01A-11D-2396-08	25085628	46713306	108557254	67	38132										
SLITRK2	84631	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	144904238	144904238	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.986754966887417	3.15761589403973	0.415475775531544	1	1	0	acctaggtaacaacgggttaCaggagatccgaacgggggca	14	9	0	1			TCGA-J7-8537-01A-11D-2396-08	TCGA-J7-8537-10A-01D-2396-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3cf4b130-0aa3-407e-9fea-bd8ddd8b7d5b	56af51d5-45a7-4a64-ba3e-f810d95407f8	g.chrX:144904238C>T	ENST00000370490.1	+	1	4550	c.295C>T	c.(295-297)Cag>Tag	p.Q99*	SLITRK2_ENST00000434188.2_Nonsense_Mutation_p.Q99*|SLITRK2_ENST00000447897.2_Nonsense_Mutation_p.Q99*|SLITRK2_ENST00000428560.2_Nonsense_Mutation_p.Q99*|SLITRK2_ENST00000413937.2_Nonsense_Mutation_p.Q99*			Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2	99					axonogenesis (GO:0007409)	integral component of membrane (GO:0016021)				NS(1)|breast(3)|central_nervous_system(1)|endometrium(9)|kidney(1)|large_intestine(17)|lung(40)|ovary(5)|pancreas(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	86	Acute lymphoblastic leukemia(192;6.56e-05)					CAACGGGTTACAGGAGATCCG	0.458																																																0													77	69	72					X																	144904238		2203	4300	6503	SO:0001587	stop_gained	84631			Y19205	CCDS14680.1	Xq27.3	2008-02-05	2004-03-11		ENSG00000185985	ENSG00000185985			13449	protein-coding gene	gene with protein product		300561	"slit-like 1 (Drosophila)"	SLITL1		11347906, 14557068	Standard	NM_032539		Approved	KIAA1854, CXorf2	uc011mwr.2	Q9H156	OTTHUMG00000022595	ENST00000370490.1:c.295C>T	X.37:g.144904238C>T	ENSP00000359521:p.Gln99*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K117|Q2KHN3|Q5JXB1|Q8NBC7|Q96JH3	Nonsense_Mutation	SNP	ENST00000370490.1	37	CCDS14680.1	.	.	.	.	.	.	.	.	.	.	C	59	34.326611	0.99982	.	.	ENSG00000185985	ENST00000335565;ENST00000447897;ENST00000370490;ENST00000434188;ENST00000413937;ENST00000428560	.	.	.	4.88	4.01	0.46588	.	0.066024	0.64402	U	0.000007	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.27082	T	0.32	-7.1777	12.0035	0.53246	0.0:0.8284:0.1716:0.0	.	.	.	.	X	99	.	ENSP00000334374:Q99X	Q	+	1	0	SLITRK2	144711930	1.000000	0.71417	0.996000	0.52242	0.494000	0.33585	7.818000	0.86416	0.832000	0.34804	-0.218000	0.12543	CAG		0.458	SLITRK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058633.1	NM_032539		T	144904238	C	T	144904238	4	4	621	1	0	0	0	0	0	1	0	0	14756	479	17	2	297	2	SLITRK2	23	144904238	Nonsense_Mutation	SNP	C	TCGA-J7-8537-01A-11D-2396-08	98190932	144904238	10366322	68	38133										
UBR4	23352	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	19480348	19480349	+	Missense_Mutation	DNP	GC	GC	TA													0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	cagcggcacccctgtagtttGctggacacagcacaccaagc							TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr1:19480348_19480349GC>TA	ENST00000375254.3	-	45	6570_6571	c.6543_6544GC>TA	c.(6541-6546)caGCaa>caTAaa	p.2181_2182QQ>HK	UBR4_ENST00000375267.2_Missense_Mutation_p.2181_2182QQ>HK|UBR4_ENST00000375226.2_Missense_Mutation_p.2181_2182QQ>HK|UBR4_ENST00000375217.2_Missense_Mutation_p.2181_2182QQ>HK	NM_020765.2	NP_065816.2	Q5T4S7	UBR4_HUMAN	ubiquitin protein ligase E3 component n-recognin 4	2181					protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|viral process (GO:0016032)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(7)|central_nervous_system(1)|cervix(2)|endometrium(23)|kidney(25)|large_intestine(25)|liver(2)|lung(47)|ovary(10)|pancreas(2)|prostate(7)|skin(5)|stomach(5)|upper_aerodigestive_tract(4)|urinary_tract(6)	171		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CCTGTAGTTTGCTGGACACAGC	0.495																																																0																																										SO:0001583	missense	23352			AF348492	CCDS189.1	1p36.13	2008-06-23	2007-06-19	2007-06-19	ENSG00000127481	ENSG00000127481		"Ubiquitin protein ligase E3 component n-recognins"	30313	protein-coding gene	gene with protein product		609890	"zinc finger, UBR1 type 1"	ZUBR1		14702039, 10718198, 16055722	Standard	XM_005245802		Approved	KIAA1307, KIAA0462, RBAF600	uc001bbi.3	Q5T4S7	OTTHUMG00000002498	ENST00000375254.3:c.6543_6544delinsTA	1.37:g.19480348_19480349delinsTA	ENSP00000364403:p.Q2181_Q2182delinsHK	Somatic		WXS	Illumina HiSeq	Phase_I	A8MPT2|A8MQ33|A8MQB1|O60646|O75050|Q4QRK5|Q5T4S8|Q5T4S9|Q5TBN8|Q5TBP2|Q6DKH8|Q6P4A4|Q7L8P7|Q8IXJ4|Q8TDN5|Q8WV67|Q9HA46|Q9P2N9|Q9UG82	Missense_Mutation	DNP	ENST00000375254.3	37	CCDS189.1																																																																																				0.495	UBR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000007085.1	NM_020765		TA	19480349	GC	TA	19480348	3	4	622	1	0	0	0	0	1	0	0	0	16916	1328	46	4	9255	4	UBR4	1	19480348	Missense_Mutation	DNP	GC	TCGA-KL-8323-01A-21D-2310-10		19480348	229770273	1	38134										
AIM1L	55057	ucsc.edu	37	chr1	26664510	26664510	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	cccagactcttaccctgggcTcccctggcttctccacactt	6	19	2	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr1:26664510T>C	ENST00000308182.5	-	7	794	c.365A>G	c.(364-366)gAg>gGg	p.E122G	AIM1L_ENST00000522993.1_5'UTR|AIM1L_ENST00000527815.1_Missense_Mutation_p.E293G			Q8N1P7	AIM1L_HUMAN	absent in melanoma 1-like	122							carbohydrate binding (GO:0030246)			endometrium(2)|kidney(2)|large_intestine(1)|lung(4)|pancreas(1)|skin(2)	12		all_cancers(24;4.67e-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;1.51e-27)|Colorectal(126;1.61e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000792)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|STAD - Stomach adenocarcinoma(196;0.00154)|GBM - Glioblastoma multiforme(114;0.00858)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.165)|LUSC - Lung squamous cell carcinoma(448;0.239)		TACCCTGGGCTCCCCTGGCTT	0.577																																																0													48	39	42					1																	26664510		2203	4300	6503	SO:0001583	missense	55057					1p35	2010-07-14			ENSG00000176092	ENSG00000176092			17295	protein-coding gene	gene with protein product	"beta-gamma crystallin domain containing 2"						Standard	NM_001039775		Approved	CRYBG2, FLJ38020	uc001bmd.4	Q8N1P7	OTTHUMG00000003490	ENST00000308182.5:c.365A>G	1.37:g.26664510T>C	ENSP00000310435:p.Glu122Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNG3|Q5T137|Q5T150	Missense_Mutation	SNP	ENST00000308182.5	37		.	.	.	.	.	.	.	.	.	.	T	26.8	4.768605	0.90020	.	.	ENSG00000176092	ENST00000527815;ENST00000308182	T;T	0.76709	-1.04;-1.01	5.13	3.98	0.46160	Beta/gamma crystallin (1);Gamma-crystallin-related (1);	0.303860	0.35040	N	0.003481	D	0.84037	0.5384	M	0.76727	2.345	0.80722	D	1	D;D	0.63880	0.984;0.993	P;P	0.61328	0.829;0.887	T	0.83285	-0.0036	10	0.49607	T	0.09	.	9.4283	0.38595	0.159:0.0:0.0:0.841	.	39;122	Q9NTH7;Q8N1P7	.;AIM1L_HUMAN	G	293;122	ENSP00000433931:E293G;ENSP00000310435:E122G	ENSP00000310435:E122G	E	-	2	0	AIM1L	26537097	0.988000	0.35896	0.997000	0.53966	0.978000	0.69477	2.987000	0.49378	0.939000	0.37446	0.533000	0.62120	GAG		0.577	AIM1L-201	KNOWN	basic	protein_coding	protein_coding		NM_001039775.2		C	26664510	T	C	26664510	3	2	622	1	0	0	0	0	1	0	0	0	431	1551	54	3	1537	3	AIM1L	1	26664510	Missense_Mutation	SNP	T	TCGA-KL-8323-01A-21D-2310-10	7184162	26664510	222586111	2	38135										
ATF6	22926	ucsc.edu	37	chr1	161790871	161790871	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ttcctttagaaccagaggctTaaagtccctagtccaaagcg	8	11	0	2			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr1:161790871T>C	ENST00000367942.3	+	9	1174	c.1107T>C	c.(1105-1107)ctT>ctC	p.L369L		NM_007348.3	NP_031374.2	P18850	ATF6A_HUMAN	activating transcription factor 6	369	bZIP. {ECO:0000255|PROSITE- ProRule:PRU00978}.			NQRL -> LRNS (in Ref. 5; no nucleotide entry). {ECO:0000305}.	activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response (GO:0006990)|protein folding (GO:0006457)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to stress (GO:0006950)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)	endoplasmic reticulum membrane (GO:0005789)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|nuclear envelope (GO:0005635)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)			breast(2)|endometrium(3)|kidney(2)|large_intestine(8)|lung(14)|ovary(3)|skin(1)|stomach(1)	34	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.00953)		Pseudoephedrine(DB00852)	ACCAGAGGCTTAAAGTCCCTA	0.343																																																0													148	151	150					1																	161790871		2203	4300	6503	SO:0001819	synonymous_variant	22926			AB015856	CCDS1235.1	1q22-q23	2013-01-10			ENSG00000118217	ENSG00000118217		"basic leucine zipper proteins"	791	protein-coding gene	gene with protein product	"activating transcription factor 6 alpha"	605537				9837962, 9271374, 11256944	Standard	NM_007348		Approved	ATF6A	uc001gbs.3	P18850	OTTHUMG00000023961	ENST00000367942.3:c.1107T>C	1.37:g.161790871T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O15139|Q5VW62|Q6IPB5|Q9UEC9	Silent	SNP	ENST00000367942.3	37	CCDS1235.1																																																																																				0.343	ATF6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060304.2	NM_007348		C	161790871	T	C	161790871	2	2	622	1	0	0	0	0	0	0	0	1	1084	1741	61	3		3	ATF6	1	161790871	Silent	SNP	T	TCGA-KL-8323-01A-21D-2310-10	135126361	161790871	87459750	3	38136										
RC3H1	149041	broad.mit.edu	37	chr1	173912597	173912597	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	caccatactcagttcccgtgTtctcttcccgatttcccttt	4	16	2	0			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr1:173912597T>C	ENST00000367696.2	-	18	3469	c.3118A>G	c.(3118-3120)Aca>Gca	p.T1040A	RC3H1_ENST00000367694.2_Missense_Mutation_p.T1031A|RC3H1_ENST00000258349.4_Missense_Mutation_p.T1040A			Q5TC82	RC3H1_HUMAN	ring finger and CCCH-type domains 1	1040					B cell homeostasis (GO:0001782)|cytoplasmic mRNA processing body assembly (GO:0033962)|lymph node development (GO:0048535)|negative regulation of activated T cell proliferation (GO:0046007)|negative regulation of B cell proliferation (GO:0030889)|negative regulation of germinal center formation (GO:0002635)|negative regulation of T-helper cell differentiation (GO:0045623)|nuclear-transcribed mRNA catabolic process (GO:0000956)|positive regulation of NIK/NF-kappaB signaling (GO:1901224)|posttranscriptional regulation of gene expression (GO:0010608)|protein ubiquitination (GO:0016567)|regulation of germinal center formation (GO:0002634)|regulation of mRNA stability (GO:0043488)|regulation of T cell receptor signaling pathway (GO:0050856)|spleen development (GO:0048536)|T cell homeostasis (GO:0043029)|T cell proliferation (GO:0042098)|T follicular helper cell differentiation (GO:0061470)	cytoplasmic mRNA processing body (GO:0000932)|cytoplasmic stress granule (GO:0010494)	mRNA 3'-UTR binding (GO:0003730)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(7)|lung(20)|ovary(2)|pancreas(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(4)|urinary_tract(1)	50						AGTTCCCGTGTTCTCTTCCCG	0.498																																																0													230	214	219					1																	173912597		2203	4300	6503	SO:0001583	missense	149041			AK093501	CCDS30940.1, CCDS72987.1	1q25.1	2013-01-18	2010-09-15		ENSG00000135870	ENSG00000135870		"RING-type (C3HC4) zinc fingers", "Zinc fingers, CCCH-type domain containing"	29434	protein-coding gene	gene with protein product	"KIAA2025 protein"	609424	"ring finger and CCCH-type zinc finger domains 1"			15917799	Standard	XM_005244918		Approved	KIAA2025, roquin, RP5-1198E17.5, RNF198	uc001gju.4	Q5TC82	OTTHUMG00000037275	ENST00000367696.2:c.3118A>G	1.37:g.173912597T>C	ENSP00000356669:p.Thr1040Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVK1|Q5W180|Q5W181|Q8IVE6|Q8N9V1	Missense_Mutation	SNP	ENST00000367696.2	37	CCDS30940.1	.	.	.	.	.	.	.	.	.	.	T	16.61	3.172503	0.57584	.	.	ENSG00000135870	ENST00000367696;ENST00000258349;ENST00000367694	T;T;T	0.47869	0.89;0.89;0.83	5.24	5.24	0.73138	.	0.157302	0.56097	D	0.000030	T	0.40595	0.1123	L	0.50333	1.59	0.51767	D	0.999934	P;P;P;P	0.45126	0.767;0.767;0.851;0.767	B;B;P;B	0.47402	0.344;0.344;0.546;0.344	T	0.41734	-0.9492	10	0.56958	D	0.05	-11.204	15.1378	0.72583	0.0:0.0:0.0:1.0	.	1040;1031;1031;1040	B9EGU6;B7ZMB3;Q5TC82-2;Q5TC82	.;.;.;RC3H1_HUMAN	A	1040;1040;1031	ENSP00000356669:T1040A;ENSP00000258349:T1040A;ENSP00000356667:T1031A	ENSP00000258349:T1040A	T	-	1	0	RC3H1	172179220	1.000000	0.71417	1.000000	0.80357	0.950000	0.60333	5.837000	0.69381	1.978000	0.57642	0.533000	0.62120	ACA		0.498	RC3H1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090733.2	NM_172071		C	173912597	T	C	173912597	3	2	622	1	0	0	0	0	1	0	0	0	13179	1725	60	3	295	3	RC3H1	1	173912597	Missense_Mutation	SNP	T	TCGA-KL-8323-01A-21D-2310-10	12121726	173912597	75338024	4	38137										
RASAL2	9462	hgsc.bcm.edu	37	chr1	178421771	178421771	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ttgccaaggtcattcagaacCtggccaactttgccaagtag	9	11	2	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr1:178421771C>T	ENST00000462775.1	+	9	1674	c.1549C>T	c.(1549-1551)Ctg>Ttg	p.L517L	RASAL2_ENST00000367649.3_Silent_p.L665L|RASAL2_ENST00000448150.3_Silent_p.L647L	NM_004841.3	NP_004832.1	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2	517	Ras-GAP. {ECO:0000255|PROSITE- ProRule:PRU00167}.				negative regulation of Ras protein signal transduction (GO:0046580)|positive regulation of Ras GTPase activity (GO:0032320)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)	Ras GTPase activator activity (GO:0005099)			biliary_tract(1)|breast(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|liver(2)|lung(25)|ovary(2)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	54						CATTCAGAACCTGGCCAACTT	0.433																																																0													117	107	110					1																	178421771		2203	4299	6502	SO:0001819	synonymous_variant	9462			AF047711	CCDS1321.1, CCDS1322.1, CCDS1321.2	1q25	2013-01-10			ENSG00000075391	ENSG00000075391		"Pleckstrin homology (PH) domain containing"	9874	protein-coding gene	gene with protein product	"Ras GTPase activating protein-like", "Ras protein activator like 1"	606136				9877179	Standard	NM_004841		Approved	nGAP	uc001glq.3	Q9UJF2	OTTHUMG00000035022	ENST00000462775.1:c.1549C>T	1.37:g.178421771C>T		Somatic		WXS	Illumina HiSeq	Phase_I	F8W755|O95174|Q2TB22|Q5TFU9	Silent	SNP	ENST00000462775.1	37	CCDS1322.1	.	.	.	.	.	.	.	.	.	.	C	8.494	0.862639	0.17178	.	.	ENSG00000075391	ENST00000433130	.	.	.	5.15	3.29	0.37713	.	.	.	.	.	T	0.59293	0.2183	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.53351	-0.8451	4	.	.	.	.	9.6673	0.39992	0.0:0.7753:0.0:0.2247	.	.	.	.	L	67	.	.	P	+	2	0	RASAL2	176688394	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.876000	0.63079	0.567000	0.29293	0.557000	0.71058	CCT		0.433	RASAL2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000084758.3	NM_170692		T	178421771	C	T	178421771	2	4	622	1	0	0	0	0	0	0	0	1	13077	680	24	2		2	RASAL2	1	178421771	Silent	SNP	C	TCGA-KL-8323-01A-21D-2310-10	4509174	178421771	70828850	5	38138										
OBSCN	84033	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	228548164	228548164	+	Intron	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ggggcatgcactgggtccccGaggccctctcggcctcttta	13	15	2	0			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr1:228548164G>A	ENST00000422127.1	+	80	18705				OBSCN_ENST00000570156.2_Intron|OBSCN_ENST00000284548.11_Missense_Mutation_p.R6524Q|OBSCN_ENST00000366709.4_Missense_Mutation_p.R3643Q|OBSCN_ENST00000366707.4_Intron	NM_001098623.2	NP_001092093.2	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF						apoptotic signaling pathway (GO:0097190)|multicellular organismal development (GO:0007275)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|protein localization to M-band (GO:0036309)|regulation of small GTPase mediated signal transduction (GO:0051056)|sarcomere organization (GO:0045214)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|M band (GO:0031430)|myofibril (GO:0030016)|Z disc (GO:0030018)	ankyrin binding (GO:0030506)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			NS(2)|breast(7)|central_nervous_system(5)|cervix(2)|endometrium(30)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(37)|lung(89)|ovary(8)|pancreas(3)|prostate(13)|skin(6)|stomach(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	223		Prostate(94;0.0405)				CTGGGTCCCCGAGGCCCTCTC	0.692																																																0													16	20	19					1																	228548164		1950	4134	6084	SO:0001627	intron_variant	84033			AJ002535	CCDS1570.2, CCDS58065.1, CCDS59204.1	1q42	2014-09-17			ENSG00000154358	ENSG00000154358		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	15719	protein-coding gene	gene with protein product		608616				11448995, 11814696	Standard	NM_001098623		Approved	KIAA1556, UNC89, KIAA1639, ARHGEF30	uc001hsq.2	Q5VST9	OTTHUMG00000039772	ENST00000422127.1:c.18662-2113G>A	1.37:g.228548164G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2A664|Q5T7G8|Q5T7G9|Q5VSU2|Q86YC7|Q8NHN0|Q8NHN1|Q8NHN2|Q8NHN3|Q8NHN4|Q8NHN5|Q8NHN6|Q8NHN7|Q8NHN8|Q8NHN9|Q96AA2|Q9HCD3|Q9HCL6	Missense_Mutation	SNP	ENST00000422127.1	37	CCDS58065.1	.	.	.	.	.	.	.	.	.	.	G	17.77	3.471288	0.63625	.	.	ENSG00000154358	ENST00000284548;ENST00000366709	T;T	0.55760	0.5;0.65	4.06	0.729	0.18266	.	.	.	.	.	T	0.33990	0.0882	L	0.56769	1.78	0.09310	N	1	P	0.43633	0.813	B	0.31101	0.124	T	0.18967	-1.0320	9	0.19147	T	0.46	.	2.2287	0.03991	0.2401:0.0:0.2551:0.5048	.	6524	Q5VST9-3	.	Q	6524;3643	ENSP00000284548:R6524Q;ENSP00000355670:R3643Q	ENSP00000284548:R6524Q	R	+	2	0	OBSCN	226614787	0.001000	0.12720	0.000000	0.03702	0.021000	0.10359	1.314000	0.33597	0.340000	0.23745	-0.293000	0.09583	CGA		0.692	OBSCN-204	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_052843		A	228548164	G	A	228548164	1	1	622	0	1	0	0	0	0	0	0	0	10819	1058	37	1		1	OBSCN	1	228548164	Intron	SNP	G	TCGA-KL-8323-01A-21D-2310-10	50126393	228548164	20702457	6	38139										
OR2T8	343172	broad.mit.edu	37	chr1	248084369	248084369	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	cattctcctaggactctttaAccacaccagagcccaccaag	5	16	2	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr1:248084369A>G	ENST00000319968.4	+	1	50	c.50A>G	c.(49-51)aAc>aGc	p.N17S		NM_001005522.1	NP_001005522.1	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T, member 8	17						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(6)|lung(20)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	34	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0211)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GGACTCTTTAACCACACCAGA	0.428																																																0													104	101	102					1																	248084369		2203	4300	6503	SO:0001583	missense	343172				CCDS31100.1	1q44	2012-08-09		2004-03-10	ENSG00000177462	ENSG00000177462		"GPCR / Class A : Olfactory receptors"	15020	protein-coding gene	gene with protein product				OR2T8P			Standard	XM_005273117		Approved		uc010pzc.2	A6NH00	OTTHUMG00000040205	ENST00000319968.4:c.50A>G	1.37:g.248084369A>G	ENSP00000326225:p.Asn17Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000319968.4	37	CCDS31100.1	.	.	.	.	.	.	.	.	.	.	A	0.010	-1.744473	0.00675	.	.	ENSG00000177462	ENST00000319968	T	0.00316	8.13	3.51	-0.677	0.11357	.	1.231280	0.06234	U	0.689141	T	0.00144	0.0004	L	0.34521	1.04	0.09310	N	1	B	0.16396	0.017	B	0.15484	0.013	T	0.40175	-0.9577	10	0.02654	T	1	.	4.6608	0.12641	0.6428:0.1616:0.1956:0.0	.	17	A6NH00	OR2T8_HUMAN	S	17	ENSP00000326225:N17S	ENSP00000326225:N17S	N	+	2	0	OR2T8	246150992	0.000000	0.05858	0.037000	0.18230	0.018000	0.09664	0.097000	0.15168	0.027000	0.15297	-0.323000	0.08544	AAC		0.428	OR2T8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096862.1	NM_001005522		G	248084369	A	G	248084369	3	3	622	1	0	0	0	0	1	0	0	0	11037	43	2	3	52	3	OR2T8	1	248084369	Missense_Mutation	SNP	A	TCGA-KL-8323-01A-21D-2310-10	19536205	248084369	1166252	7	38140										
STRN	6801	ucsc.edu	37	chr2	37094995	37094995	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	tagataggttctacatcaagAgaagtgctcctaaatcagag	9	7	3	3			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr2:37094995A>G	ENST00000263918.4	-	12	1517	c.1509T>C	c.(1507-1509)tcT>tcC	p.S503S	STRN_ENST00000379213.2_Silent_p.S454S|RNU6-577P_ENST00000516947.1_RNA	NM_003162.3	NP_003153.2	O43815	STRN_HUMAN	striatin, calmodulin binding protein	503					dendrite development (GO:0016358)|locomotory behavior (GO:0007626)|negative regulation of cell proliferation (GO:0008285)|tight junction assembly (GO:0070830)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|dendritic spine (GO:0043197)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)|tight junction (GO:0005923)	armadillo repeat domain binding (GO:0070016)|calmodulin binding (GO:0005516)|estrogen receptor binding (GO:0030331)|protein complex binding (GO:0032403)|protein phosphatase 2A binding (GO:0051721)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(16)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	33		Ovarian(717;0.0129)|all_hematologic(82;0.21)				CTACATCAAGAGAAGTGCTCC	0.299																																																0													110	115	113					2																	37094995		2203	4292	6495	SO:0001819	synonymous_variant	6801			AJ223814	CCDS1784.1	2p22.2	2013-01-10	2001-11-28		ENSG00000115808	ENSG00000115808		"WD repeat domain containing"	11424	protein-coding gene	gene with protein product		614765	"striatin, calmodulin-binding protein"			9693043, 8769426	Standard	NM_003162		Approved	SG2NA	uc002rpn.3	O43815	OTTHUMG00000100959	ENST00000263918.4:c.1509T>C	2.37:g.37094995A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q3KP65|Q53TQ8|Q9NP38	Silent	SNP	ENST00000263918.4	37	CCDS1784.1																																																																																				0.299	STRN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000218568.1			G	37094995	A	G	37094995	2	3	622	1	0	0	0	0	0	0	0	1	15341	291	11	3		3	STRN	2	37094995	Silent	SNP	A	TCGA-KL-8323-01A-21D-2310-10		37094995	206104378	8	38141										
THADA	63892	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	43507026	43507026	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	acttccagagagcaagtgtaTcctgcaactctaagaagacc	8	11	1	3			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr2:43507026T>C	ENST00000405006.4	-	36	5525	c.5174A>G	c.(5173-5175)gAt>gGt	p.D1725G	THADA_ENST00000405975.2_Missense_Mutation_p.D1725G|THADA_ENST00000330266.7_Intron|THADA_ENST00000415080.2_Missense_Mutation_p.D1406G	NM_001083953.1|NM_001271643.1	NP_001077422.1|NP_001258572.1	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1725										breast(1)|endometrium(9)|kidney(5)|large_intestine(9)|liver(1)|lung(28)|ovary(4)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(5)	66		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				AGCAAGTGTATCCTGCAACTC	0.473																																																0													52	50	51					2																	43507026		1941	4148	6089	SO:0001583	missense	63892			AY149629	CCDS46268.1, CCDS62901.1, CCDS62902.1	2p21	2008-02-05			ENSG00000115970	ENSG00000115970			19217	protein-coding gene	gene with protein product		611800				12063398, 11214970	Standard	NM_022065		Approved	FLJ21877, KIAA1767, GITA	uc002rsx.4	Q6YHU6	OTTHUMG00000152398	ENST00000405006.4:c.5174A>G	2.37:g.43507026T>C	ENSP00000385995:p.Asp1725Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1V8|B7WNS6|Q3KR04|Q53RC6|Q53TB2|Q6YHU2|Q6ZU38|Q8IY32|Q8TAU8|Q96I88|Q9BZF7|Q9C096|Q9H6U0|Q9H6W7	Missense_Mutation	SNP	ENST00000405006.4	37	CCDS46268.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	13.26|13.26	2.182988|2.182988	0.38511|0.38511	.|.	.|.	ENSG00000115970|ENSG00000115970	ENST00000405975;ENST00000356975;ENST00000415080;ENST00000405006|ENST00000407351	T;T;T|.	0.12879|.	2.89;2.64;2.89|.	5.14|5.14	2.51|2.51	0.30379|0.30379	.|.	0.302295|.	0.30547|.	N|.	0.009382|.	T|T	0.34337|0.34337	0.0894|0.0894	L|L	0.41824|0.41824	1.3|1.3	0.25115|0.25115	N|N	0.990682|0.990682	B;B|.	0.26483|.	0.15;0.125|.	B;B|.	0.22601|.	0.04;0.026|.	T|T	0.22347|0.22347	-1.0219|-1.0219	10|5	0.22706|.	T|.	0.39|.	-25.4555|-25.4555	4.9913|4.9913	0.14216|0.14216	0.0:0.0963:0.1842:0.7195|0.0:0.0963:0.1842:0.7195	.|.	1652;1725|.	B6ZDQ0;Q6YHU6|.	.;THADA_HUMAN|.	G|V	1725;1652;1406;1725|965	ENSP00000386088:D1725G;ENSP00000416048:D1406G;ENSP00000385995:D1725G|.	ENSP00000349464:D1652G|.	D|I	-|-	2|1	0|0	THADA|THADA	43360530|43360530	0.992000|0.992000	0.36948|0.36948	0.997000|0.997000	0.53966|0.53966	0.998000|0.998000	0.95712|0.95712	0.517000|0.517000	0.22832|0.22832	0.761000|0.761000	0.33130|0.33130	0.533000|0.533000	0.62120|0.62120	GAT|ATA		0.473	THADA-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000326070.3	NM_022065		C	43507026	T	C	43507026	3	2	622	1	0	0	0	0	1	0	0	0	15852	1435	50	3	699	3	THADA	2	43507026	Missense_Mutation	SNP	T	TCGA-KL-8323-01A-21D-2310-10	6412031	43507026	199692347	9	38142										
SMYD1	150572	broad.mit.edu	37	chr2	88387571	88387571	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	gccagcagttcagcatgcagTacatctcgcacatcttcgga	9	13	3	0			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr2:88387571T>C	ENST00000419482.2	+	3	590	c.505T>C	c.(505-507)Tac>Cac	p.Y169H	SMYD1_ENST00000438570.1_Intron|SMYD1_ENST00000444564.2_Missense_Mutation_p.Y169H|SMYD1_ENST00000468008.1_3'UTR	NM_198274.3	NP_938015.1	Q8NB12	SMYD1_HUMAN	SET and MYND domain containing 1	169	SET. {ECO:0000255|PROSITE- ProRule:PRU00190}.				chromatin remodeling (GO:0006338)|heart development (GO:0007507)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of myoblast differentiation (GO:0045663)|positive regulation of myotube differentiation (GO:0010831)|skeletal muscle cell differentiation (GO:0035914)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|metal ion binding (GO:0046872)|transcription corepressor activity (GO:0003714)			NS(1)|breast(4)|central_nervous_system(1)|large_intestine(6)|lung(19)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	41						CAGCATGCAGTACATCTCGCA	0.612																																																0													113	74	87					2																	88387571		2203	4300	6503	SO:0001583	missense	150572			AF086123	CCDS33240.1	2p11.1	2011-07-01			ENSG00000115593	ENSG00000115593		"Zinc fingers, MYND-type", "Chromatin-modifying enzymes / K-methyltransferases"	20986	protein-coding gene	gene with protein product		606846				11923873	Standard	NM_198274		Approved	BOP, ZMYND22, KMT3D	uc002ssr.3	Q8NB12	OTTHUMG00000155045	ENST00000419482.2:c.505T>C	2.37:g.88387571T>C	ENSP00000393453:p.Tyr169His	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV30|A6NE13	Missense_Mutation	SNP	ENST00000419482.2	37	CCDS33240.1	.	.	.	.	.	.	.	.	.	.	T	17.71	3.457883	0.63401	.	.	ENSG00000115593	ENST00000419482;ENST00000444564;ENST00000295833	T;T	0.81415	-1.49;-1.49	5.04	5.04	0.67666	SET domain (2);	0.228496	0.46442	D	0.000286	D	0.82770	0.5109	L	0.36672	1.1	0.80722	D	1	D	0.60575	0.988	D	0.67103	0.949	T	0.83212	-0.0073	10	0.52906	T	0.07	-25.3302	10.3599	0.43987	0.0:0.0804:0.0:0.9196	.	169	Q8NB12	SMYD1_HUMAN	H	169;169;3	ENSP00000393453:Y169H;ENSP00000407888:Y169H	ENSP00000295833:Y3H	Y	+	1	0	SMYD1	88168686	1.000000	0.71417	1.000000	0.80357	0.966000	0.64601	3.230000	0.51286	2.007000	0.58848	0.459000	0.35465	TAC		0.612	SMYD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338229.2	XM_097915		C	88387571	T	C	88387571	3	2	622	1	0	0	0	0	1	0	0	0	14834	1638	57	3	515	3	SMYD1	2	88387571	Missense_Mutation	SNP	T	TCGA-KL-8323-01A-21D-2310-10	44880545	88387571	154811802	10	38143										
RGPD4	285190	ucsc.edu	37	chr2	108487266	108487266	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	aaccaggaaatcaagaaaagGaaagtgaaaagcctcttgaa	9	6	2	3			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr2:108487266G>A	ENST00000408999.3	+	20	2883	c.2806G>A	c.(2806-2808)Gaa>Aaa	p.E936K	RGPD4_ENST00000354986.4_Missense_Mutation_p.E936K	NM_182588.2	NP_872394.2	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	936					protein targeting to Golgi (GO:0000042)					breast(1)|endometrium(7)|kidney(4)|lung(23)|pancreas(1)|prostate(1)|skin(3)|urinary_tract(3)	43						TCAAGAAAAGGAAAGTGAAAA	0.408																																																0													198	153	167					2																	108487266		692	1586	2278	SO:0001583	missense	285190			BX537861	CCDS46381.1	2q12.3	2013-01-10			ENSG00000196862	ENSG00000196862		"Tetratricopeptide (TTC) repeat domain containing"	32417	protein-coding gene	gene with protein product		612707				15710750, 15815621	Standard	NM_182588		Approved	RGP4, DKFZp686P0288	uc010ywk.2	Q7Z3J3	OTTHUMG00000153208	ENST00000408999.3:c.2806G>A	2.37:g.108487266G>A	ENSP00000386810:p.Glu936Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B9A029	Missense_Mutation	SNP	ENST00000408999.3	37	CCDS46381.1	.	.	.	.	.	.	.	.	.	.	-	0.001	-3.008718	0.00043	.	.	ENSG00000196862	ENST00000354986;ENST00000408999;ENST00000439322	T;T	0.36878	1.23;1.23	2.33	1.17	0.20885	.	.	.	.	.	T	0.06872	0.0175	N	0.00197	-1.87	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.37244	-0.9714	9	0.02654	T	1	-1.0096	6.0551	0.19807	0.5942:0.0:0.4058:0.0	.	936	Q7Z3J3	RGPD4_HUMAN	K	936;936;694	ENSP00000347081:E936K;ENSP00000386810:E936K	ENSP00000347081:E936K	E	+	1	0	RGPD4	107853698	0.375000	0.25089	0.383000	0.26132	0.198000	0.23893	1.757000	0.38400	0.141000	0.18875	-1.867000	0.00556	GAA		0.408	RGPD4-001	NOVEL	not_best_in_genome_evidence|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000330096.2	XM_496581		A	108487266	G	A	108487266	3	1	622	1	0	0	0	0	1	0	0	0	13301	1175	41	2	2884	2	RGPD4	2	108487266	Missense_Mutation	SNP	G	TCGA-KL-8323-01A-21D-2310-10	20099695	108487266	134712107	11	38144										
CCDC74A	90557	broad.mit.edu;mdanderson.org	37	chr2	132290278	132290278	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	gatcctgccccttcccctgcGaaagcccaccacacttaggc	7	19	0	0	rs138310081	byFrequency	TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr2:132290278G>A	ENST00000295171.6	+	5	938	c.800G>A	c.(799-801)cGa>cAa	p.R267Q	CCDC74A_ENST00000467992.2_3'UTR|CCDC74A_ENST00000409856.3_Missense_Mutation_p.R201Q	NM_001258304.1|NM_001258305.1|NM_138770.2	NP_001245233.1|NP_001245234.1|NP_620125.1	Q96AQ1	CC74A_HUMAN	coiled-coil domain containing 74A	267										endometrium(4)|large_intestine(3)|lung(9)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	19						CTTCCCCTGCGAAAGCCCACC	0.642													g|||	15	0.00299521	0.0106	0.0	5008	,	,		18428	0.0		0.0	False		,,,				2504	0.001															0								G	GLN/ARG	34,4372		0,34,2169	76	79	78		800	1.7	1	2	dbSNP_134	78	0,8600		0,0,4300	no	missense	CCDC74A	NM_138770.1	43	0,34,6469	AA,AG,GG		0.0,0.7717,0.2614	probably-damaging	267/379	132290278	34,12972	2203	4300	6503	SO:0001583	missense	90557				CCDS2167.1, CCDS58732.1, CCDS74578.1	2q21.1	2008-02-05		2006-02-16	ENSG00000163040	ENSG00000163040			25197	protein-coding gene	gene with protein product						12477932	Standard	NM_138770		Approved	FLJ40345	uc002ttb.4	Q96AQ1	OTTHUMG00000131667	ENST00000295171.6:c.800G>A	2.37:g.132290278G>A	ENSP00000295171:p.Arg267Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P4I5	Missense_Mutation	SNP	ENST00000295171.6	37	CCDS2167.1	.	.	.	.	.	.	.	.	.	.	.	10.85	1.465782	0.26335	0.007717	0.0	ENSG00000163040	ENST00000295171;ENST00000409856	T;T	0.55052	0.54;0.54	2.66	1.72	0.24424	.	0.235784	0.21781	U	0.069216	T	0.50154	0.1599	L	0.46741	1.465	0.80722	D	1	D;P	0.89917	1.0;0.727	D;B	0.79108	0.992;0.035	T	0.56318	-0.7999	10	0.72032	D	0.01	.	4.841	0.13491	0.1891:0.0:0.8109:0.0	.	201;267	Q96AQ1-2;Q96AQ1	.;CC74A_HUMAN	Q	267;201	ENSP00000295171:R267Q;ENSP00000387009:R201Q	ENSP00000295171:R267Q	R	+	2	0	CCDC74A	132006748	1.000000	0.71417	0.991000	0.47740	0.057000	0.15508	1.217000	0.32455	1.192000	0.43071	0.194000	0.17425	CGA		0.642	CCDC74A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254570.2	NM_138770		A	132290278	G	A	132290278	3	1	622	1	0	0	0	0	1	0	0	0	2849	1058	37	1	818	1	CCDC74A	2	132290278	Missense_Mutation	SNP	G	TCGA-KL-8323-01A-21D-2310-10	23803012	132290278	110909095	12	38145										
CCDC74A	90557	broad.mit.edu;mdanderson.org	37	chr2	132290352	132290352	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ccaacctcctgcagacccaaGaggtgaggccctgggtggtg	14	13	0	3	rs376130814		TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr2:132290352G>C	ENST00000295171.6	+	5	1012	c.874G>C	c.(874-876)Gag>Cag	p.E292Q	CCDC74A_ENST00000467992.2_3'UTR|CCDC74A_ENST00000409856.3_Missense_Mutation_p.E226Q	NM_001258304.1|NM_001258305.1|NM_138770.2	NP_001245233.1|NP_001245234.1|NP_620125.1	Q96AQ1	CC74A_HUMAN	coiled-coil domain containing 74A	292										endometrium(4)|large_intestine(3)|lung(9)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	19						GCAGACCCAAGAGGTGAGGCC	0.652																																																0								G	GLN/GLU	0,4404		0,0,2202	32	35	34		874	2.7	1	2		34	2,8588		0,2,4293	no	missense	CCDC74A	NM_138770.1	29	0,2,6495	CC,CG,GG		0.0233,0.0,0.0154	probably-damaging	292/379	132290352	2,12992	2202	4295	6497	SO:0001583	missense	90557				CCDS2167.1, CCDS58732.1, CCDS74578.1	2q21.1	2008-02-05		2006-02-16	ENSG00000163040	ENSG00000163040			25197	protein-coding gene	gene with protein product						12477932	Standard	NM_138770		Approved	FLJ40345	uc002ttb.4	Q96AQ1	OTTHUMG00000131667	ENST00000295171.6:c.874G>C	2.37:g.132290352G>C	ENSP00000295171:p.Glu292Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P4I5	Missense_Mutation	SNP	ENST00000295171.6	37	CCDS2167.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	14.21|14.21	2.466460|2.466460	0.43839|0.43839	0.0|0.0	2.33E-4|2.33E-4	ENSG00000163040|ENSG00000163040	ENST00000295171;ENST00000409856|ENST00000434330	T;T|T	0.53206|0.55930	0.63;0.63|0.49	2.66|2.66	2.66|2.66	0.31614|0.31614	.|.	0.000000|.	0.36854|.	U|.	0.002376|.	T|T	0.60818|0.60818	0.2298|0.2298	M|M	0.72894|0.72894	2.215|2.215	0.80722|0.80722	D|D	1|1	D;D|.	0.76494|.	0.999;0.968|.	D;D|.	0.80764|.	0.994;0.969|.	T|T	0.61710|0.61710	-0.7007|-0.7007	10|7	0.87932|0.51188	D|T	0|0.08	.|.	9.0698|9.0698	0.36486|0.36486	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	226;292|.	Q96AQ1-2;Q96AQ1|.	.;CC74A_HUMAN|.	Q|N	292;226|180	ENSP00000295171:E292Q;ENSP00000387009:E226Q|ENSP00000406839:K180N	ENSP00000295171:E292Q|ENSP00000406839:K180N	E|K	+|+	1|3	0|2	CCDC74A|CCDC74A	132006822|132006822	1.000000|1.000000	0.71417|0.71417	0.993000|0.993000	0.49108|0.49108	0.289000|0.289000	0.27227|0.27227	4.189000|4.189000	0.58358|0.58358	1.192000|1.192000	0.43071|0.43071	0.194000|0.194000	0.17425|0.17425	GAG|AAG		0.652	CCDC74A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254570.2	NM_138770		C	132290352	G	C	132290352	3	2	622	1	0	0	0	0	1	0	0	0	2849	943	33	4	892	4	CCDC74A	2	132290352	Missense_Mutation	SNP	G	TCGA-KL-8323-01A-21D-2310-10	74	132290352	110909021	13	38146										
NEB	4703	broad.mit.edu	37	chr2	152350685	152350685	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	aagacaataccgagctaatgTtttcttgattgcgtttgact	8	7	1	3	rs200544122		TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr2:152350685T>C	ENST00000172853.10	-	141	19148	c.19001A>G	c.(19000-19002)aAc>aGc	p.N6334S	NEB_ENST00000409198.1_Missense_Mutation_p.N6334S|NEB_ENST00000397345.3_Missense_Mutation_p.N8190S|NEB_ENST00000509223.2_Missense_Mutation_p.N134S|NEB_ENST00000427231.2_Missense_Mutation_p.N8190S|NEB_ENST00000603639.1_Missense_Mutation_p.N8190S|NEB_ENST00000498015.2_Intron|RIF1_ENST00000457745.1_Intron|NEB_ENST00000604864.1_Missense_Mutation_p.N8190S|NEB_ENST00000397336.2_Missense_Mutation_p.N165S			P20929	NEBU_HUMAN	nebulin	6334					muscle filament sliding (GO:0030049)|muscle organ development (GO:0007517)|regulation of actin filament length (GO:0030832)|somatic muscle development (GO:0007525)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|Z disc (GO:0030018)	structural constituent of muscle (GO:0008307)			NS(5)|autonomic_ganglia(3)|breast(9)|central_nervous_system(5)|cervix(3)|endometrium(35)|kidney(16)|large_intestine(77)|liver(1)|lung(99)|ovary(9)|pancreas(3)|prostate(13)|skin(7)|stomach(8)|upper_aerodigestive_tract(6)|urinary_tract(2)	301				BRCA - Breast invasive adenocarcinoma(221;0.219)		CGAGCTAATGTTTTCTTGATT	0.428																																																0													109	90	96					2																	152350685		1881	4117	5998	SO:0001583	missense	4703			X83957	CCDS46424.1, CCDS54407.1, CCDS54408.1, CCDS74588.1	2q22	2014-09-17			ENSG00000183091	ENSG00000183091			7720	protein-coding gene	gene with protein product	"nemaline myopathy type 2"	161650		NEM2		10051637, 9359044	Standard	NM_001164507		Approved	NEB177D	uc010fnx.3	P20929	OTTHUMG00000153784	ENST00000172853.10:c.19001A>G	2.37:g.152350685T>C	ENSP00000172853:p.Asn6334Ser	Somatic		WXS	Illumina HiSeq	Phase_I	F8WCL5|F8WCP0|Q15346|Q53QQ2|Q53TG8	Missense_Mutation	SNP	ENST00000172853.10	37		0|0	0.0|0.0	0|0	0.0|0.0	0|0	0.0|0.0	0|0	0.0|0.0	0|0	0.0|0.0	T|T	15.08|15.08	2.728603|2.728603	0.48833|0.48833	.|.	.|.	ENSG00000183091|ENSG00000183091	ENST00000409198;ENST00000397345;ENST00000427231;ENST00000397342;ENST00000413693;ENST00000172853;ENST00000397336;ENST00000509223|ENST00000397337;ENST00000434685	T;T;T;T;T;T;T|.	0.51325|.	0.71;0.71;0.71;0.71;0.71;0.71;0.71|.	5.82|5.82	5.82|5.82	0.92795|0.92795	.|.	0.092478|.	0.46758|.	D|.	0.000265|.	D|D	0.83275|0.83275	0.5219|0.5219	M|M	0.88979|0.88979	2.995|2.995	0.50171|0.50171	D|D	0.999852|0.999852	B;B;B;P;P;D|.	0.69078|.	0.445;0.087;0.019;0.938;0.932;0.997|.	P;B;B;P;D;D|.	0.67103|.	0.497;0.232;0.05;0.785;0.949;0.93|.	D|D	0.86179|0.86179	0.1605|0.1605	10|5	0.29301|.	T|.	0.29|.	.|.	15.8312|15.8312	0.78752|0.78752	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	134;165;134;6334;2734;8190|.	B7Z6B9;B7Z6P9;B7Z6N8;P20929;Q14215;F8WCL5|.	.;.;.;NEBU_HUMAN;.;.|.	S|A	6334;8190;8190;2352;2734;6334;165;134|324;493	ENSP00000386259:N6334S;ENSP00000380505:N8190S;ENSP00000416578:N8190S;ENSP00000410961:N2734S;ENSP00000172853:N6334S;ENSP00000380497:N165S;ENSP00000427083:N134S|.	ENSP00000172853:N6334S|.	N|T	-|-	2|1	0|0	NEB|NEB	152058931|152058931	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.996000|0.996000	0.88848|0.88848	4.356000|4.356000	0.59430|0.59430	2.207000|2.207000	0.71202|0.71202	0.533000|0.533000	0.62120|0.62120	AAC|ACA		0.428	NEB-201	KNOWN	basic	protein_coding	protein_coding		NM_004543		C	152350685	T	C	152350685	3	2	622	1	0	0	0	0	1	0	0	0	10309	1725	60	3	1044	3	NEB	2	152350685	Missense_Mutation	SNP	T	TCGA-KL-8323-01A-21D-2310-10	20060333	152350685	90848688	14	38147										
DLX2	1746	hgsc.bcm.edu	37	chr2	172966928	172966928	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	gcgtaggaggtgtaggcggcGgtgtagcccaggtcatagct	18	8	1	0	rs143444914		TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr2:172966928G>T	ENST00000234198.4	-	1	700	c.339C>A	c.(337-339)acC>acA	p.T113T	DLX2_ENST00000466293.2_Silent_p.T113T|AC104801.1_ENST00000448117.1_lincRNA	NM_004405.3	NP_004396.1	Q07687	DLX2_HUMAN	distal-less homeobox 2	113					brain development (GO:0007420)|branching morphogenesis of a nerve (GO:0048755)|cartilage development (GO:0051216)|cerebral cortex GABAergic interneuron fate commitment (GO:0021893)|embryonic cranial skeleton morphogenesis (GO:0048701)|hippocampus development (GO:0021766)|negative regulation of Notch signaling pathway (GO:0045746)|negative regulation of oligodendrocyte differentiation (GO:0048715)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|odontogenesis of dentin-containing tooth (GO:0042475)|olfactory bulb development (GO:0021772)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|proximal/distal pattern formation (GO:0009954)|regulation of transcription from RNA polymerase II promoter involved in forebrain neuron fate commitment (GO:0021882)|subpallium development (GO:0021544)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|single-stranded RNA binding (GO:0003727)			endometrium(1)|large_intestine(1)|lung(6)|ovary(2)|urinary_tract(1)	11			OV - Ovarian serous cystadenocarcinoma(117;0.216)			TGTAGGCGGCGGTGTAGCCCA	0.602													G|||	1	0.000199681	0.0008	0.0	5008	,	,		15923	0.0		0.0	False		,,,				2504	0.0				GBM(188;775 2993 11256 23072)											0								G		1,4405	2.1+/-5.4	0,1,2202	139	132	134		339	0.3	1	2	dbSNP_134	134	0,8600		0,0,4300	no	coding-synonymous	DLX2	NM_004405.3		0,1,6502	TT,TG,GG		0.0,0.0227,0.0077		113/329	172966928	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	1746			U51003	CCDS2248.1	2q31.1	2011-06-20	2005-12-22		ENSG00000115844	ENSG00000115844		"Homeoboxes / ANTP class : NKL subclass"	2915	protein-coding gene	gene with protein product		126255	"distal-less homeo box 2"			1354641	Standard	NM_004405		Approved	TES-1	uc002uhn.3	Q07687	OTTHUMG00000132276	ENST00000234198.4:c.339C>A	2.37:g.172966928G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DMK4|B7ZA14	Silent	SNP	ENST00000234198.4	37	CCDS2248.1																																																																																				0.602	DLX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255368.3			T	172966928	G	T	172966928	2	4	622	1	0	0	0	0	0	0	0	1	4573	1103	39	4		4	DLX2	2	172966928	Silent	SNP	G	TCGA-KL-8323-01A-21D-2310-10	20616243	172966928	70232445	15	38148										
HDAC4	9759	ucsc.edu	37	chr2	240033259	240033259	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ttggtggggggctcctgcacAgacacggggaaggtggcaga	19	8	0	2			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr2:240033259A>G	ENST00000345617.3	-	14	2717	c.1926T>C	c.(1924-1926)tcT>tcC	p.S642S	HDAC4_ENST00000541256.1_Silent_p.S616S|HDAC4_ENST00000543185.1_Silent_p.S226S	NM_006037.3	NP_006028.2	P56524	HDAC4_HUMAN	histone deacetylase 4	642					B cell activation (GO:0042113)|B cell differentiation (GO:0030183)|cardiac muscle hypertrophy in response to stress (GO:0014898)|chromatin remodeling (GO:0006338)|histone deacetylation (GO:0016575)|histone H3 deacetylation (GO:0070932)|histone H4 deacetylation (GO:0070933)|inflammatory response (GO:0006954)|negative regulation of cell proliferation (GO:0008285)|negative regulation of glycolytic process (GO:0045820)|negative regulation of myotube differentiation (GO:0010832)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|nervous system development (GO:0007399)|osteoblast development (GO:0002076)|peptidyl-lysine deacetylation (GO:0034983)|positive regulation of cell proliferation (GO:0008284)|positive regulation of protein sumoylation (GO:0033235)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cardiac muscle contraction by calcium ion signaling (GO:0010882)|regulation of gene expression, epigenetic (GO:0040029)|regulation of protein binding (GO:0043393)|regulation of skeletal muscle fiber development (GO:0048742)|response to denervation involved in regulation of muscle adaptation (GO:0014894)|response to drug (GO:0042493)|response to interleukin-1 (GO:0070555)|skeletal system development (GO:0001501)|transcription, DNA-templated (GO:0006351)	A band (GO:0031672)|actomyosin (GO:0042641)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|histone deacetylase complex (GO:0000118)|neuromuscular junction (GO:0031594)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)|Z disc (GO:0030018)	activating transcription factor binding (GO:0033613)|core promoter binding (GO:0001047)|histone deacetylase activity (GO:0004407)|histone deacetylase binding (GO:0042826)|NAD-dependent histone deacetylase activity (H3-K14 specific) (GO:0032041)|NAD-dependent histone deacetylase activity (H3-K18 specific) (GO:0097372)|NAD-dependent histone deacetylase activity (H3-K9 specific) (GO:0046969)|NAD-dependent histone deacetylase activity (H4-K16 specific) (GO:0046970)|potassium ion binding (GO:0030955)|protein deacetylase activity (GO:0033558)|repressing transcription factor binding (GO:0070491)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			NS(1)|biliary_tract(1)|breast(4)|endometrium(5)|kidney(2)|large_intestine(7)|lung(27)|ovary(3)|pancreas(1)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(5)	62		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)		GCTCCTGCACAGACACGGGGA	0.701																																																0													26	23	24					2																	240033259		2199	4299	6498	SO:0001819	synonymous_variant	9759			AB006626	CCDS2529.1	2q37.3	2014-02-12			ENSG00000068024	ENSG00000068024			14063	protein-coding gene	gene with protein product		605314	"brachydactyly-mental retardation syndrome"	BDMR		10206986, 10220385, 20691407	Standard	NM_006037		Approved	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4	uc002vyk.4	P56524	OTTHUMG00000133344	ENST00000345617.3:c.1926T>C	2.37:g.240033259A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UND6	Silent	SNP	ENST00000345617.3	37	CCDS2529.1																																																																																				0.701	HDAC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257174.2	NM_006037		G	240033259	A	G	240033259	2	3	622	1	0	0	0	0	0	0	0	1	7016	175	7	3		3	HDAC4	2	240033259	Silent	SNP	A	TCGA-KL-8323-01A-21D-2310-10	67066331	240033259	3166114	16	38149										
GAL3ST2	64090	broad.mit.edu;ucsc.edu	37	chr2	242741375	242741375	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ctacccctggctcttcctggCgcgctacgtggaaggcgtgg	14	14	1	0	rs376256085		TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr2:242741375C>T	ENST00000192314.6	+	3	430	c.299C>T	c.(298-300)gCg>gTg	p.A100V	AC114730.5_ENST00000437438.1_RNA	NM_022134.2	NP_071417.2	Q9H3Q3	G3ST2_HUMAN	galactose-3-O-sulfotransferase 2	100					biosynthetic process (GO:0009058)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	galactosylceramide sulfotransferase activity (GO:0001733)|sulfotransferase activity (GO:0008146)			endometrium(1)|kidney(1)|large_intestine(1)|lung(9)|prostate(1)|skin(1)	14		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		CTCTTCCTGGCGCGCTACGTG	0.662																																																0													46	44	44					2																	242741375		2201	4300	6501	SO:0001583	missense	64090			AB040610	CCDS33427.1	2q37.2	2014-05-19			ENSG00000154252	ENSG00000154252		"Sulfotransferases, membrane-bound"	24869	protein-coding gene	gene with protein product		608237				11029462	Standard	NM_022134		Approved	GP3ST	uc002wcj.1	Q9H3Q3	OTTHUMG00000151473	ENST00000192314.6:c.299C>T	2.37:g.242741375C>T	ENSP00000192314:p.Ala100Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RK0|Q57Z52	Missense_Mutation	SNP	ENST00000192314.6	37	CCDS33427.1	.	.	.	.	.	.	.	.	.	.	C	15.32	2.797667	0.50208	.	.	ENSG00000154252	ENST00000192314	T	0.16897	2.31	3.8	3.8	0.43715	.	0.293227	0.29451	N	0.012115	T	0.16811	0.0404	L	0.31157	0.91	0.30871	N	0.732501	D	0.54207	0.965	P	0.47891	0.56	T	0.03514	-1.1029	10	0.25106	T	0.35	-12.4576	14.3673	0.66815	0.0:1.0:0.0:0.0	.	100	Q9H3Q3	G3ST2_HUMAN	V	100	ENSP00000192314:A100V	ENSP00000192314:A100V	A	+	2	0	GAL3ST2	242390048	0.290000	0.24343	0.957000	0.39632	0.024000	0.10985	3.739000	0.55075	2.118000	0.64928	0.306000	0.20318	GCG		0.662	GAL3ST2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322792.1	NM_022134		T	242741375	C	T	242741375	3	4	622	1	0	0	0	0	1	0	0	0	6205	768	27	1	309	1	GAL3ST2	2	242741375	Missense_Mutation	SNP	C	TCGA-KL-8323-01A-21D-2310-10	2708116	242741375	457998	17	38150										
VILL	50853	broad.mit.edu	37	chr3	38040855	38040855	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	tcgattcatgtaaagctggaCgtgggcaagctgcacaccca	11	11	1	0			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr3:38040855C>T	ENST00000283713.6	+	11	1373	c.1107C>T	c.(1105-1107)gaC>gaT	p.D369D	VILL_ENST00000465644.1_Silent_p.D87D|VILL_ENST00000383759.2_Silent_p.D369D			O15195	VILL_HUMAN	villin-like	369					actin filament capping (GO:0051693)|cytoskeleton organization (GO:0007010)	actin cytoskeleton (GO:0015629)	structural constituent of cytoskeleton (GO:0005200)			cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(5)|liver(1)|lung(7)|ovary(1)|pancreas(1)|prostate(3)|stomach(3)|urinary_tract(2)	28				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		TAAAGCTGGACGTGGGCAAGC	0.627																																																0													98	83	88					3																	38040855		2203	4300	6503	SO:0001819	synonymous_variant	50853				CCDS2670.2	3p21	2004-07-28			ENSG00000136059	ENSG00000136059			30906	protein-coding gene	gene with protein product						9179494	Standard	XM_005265191		Approved		uc003chl.3	O15195	OTTHUMG00000130814	ENST00000283713.6:c.1107C>T	3.37:g.38040855C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MZP1|Q9BT80|Q9BWH7	Silent	SNP	ENST00000283713.6	37	CCDS2670.2																																																																																				0.627	VILL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253360.3	NM_015873		T	38040855	C	T	38040855	2	4	622	1	0	0	0	0	0	0	0	1	17177	535	19	1		1	VILL	3	38040855	Silent	SNP	C	TCGA-KL-8323-01A-21D-2310-10		38040855	159981575	18	38151										
GPR27	2850	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	71804279	71804279	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	cccctgctgccagagcccccGgaccacccaggcgacccatc	9	22	0	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr3:71804279G>A	ENST00000304411.2	+	1	1079	c.1079G>A	c.(1078-1080)cGg>cAg	p.R360Q	EIF4E3_ENST00000448225.1_5'Flank|EIF4E3_ENST00000295612.3_5'Flank|EIF4E3_ENST00000421769.2_5'Flank	NM_018971.1	NP_061844.1	Q9NS67	GPR27_HUMAN	G protein-coupled receptor 27	360					signal transduction (GO:0007165)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			kidney(1)|lung(2)|ovary(1)|prostate(1)	5		Prostate(10;0.00899)		BRCA - Breast invasive adenocarcinoma(55;1.78e-05)|Epithelial(33;5.75e-05)|Lung(16;0.0012)|LUSC - Lung squamous cell carcinoma(21;0.00156)		CAGAGCCCCCGGACCACCCAG	0.642																																																0													12	12	12					3																	71804279		2103	4141	6244	SO:0001583	missense	2850			AB040799	CCDS2915.1	3p21-p14	2012-08-21			ENSG00000170837	ENSG00000170837		"GPCR / Class A : Orphans"	4482	protein-coding gene	gene with protein product		605187				10833454	Standard	NM_018971		Approved	SREB1	uc011bge.2	Q9NS67	OTTHUMG00000158810	ENST00000304411.2:c.1079G>A	3.37:g.71804279G>A	ENSP00000303149:p.Arg360Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000304411.2	37	CCDS2915.1	.	.	.	.	.	.	.	.	.	.	G	5.821	0.335788	0.11013	.	.	ENSG00000170837	ENST00000304411	T	0.38077	1.16	4.71	-0.255	0.12988	.	0.263235	0.31167	N	0.008121	T	0.12475	0.0303	N	0.04508	-0.205	0.22975	N	0.998484	B	0.06786	0.001	B	0.04013	0.001	T	0.33317	-0.9873	10	0.07482	T	0.82	-4.752	8.3324	0.32195	0.6664:0.0:0.3336:0.0	.	360	Q9NS67	GPR27_HUMAN	Q	360	ENSP00000303149:R360Q	ENSP00000303149:R360Q	R	+	2	0	GPR27	71886969	.	.	0.985000	0.45067	0.974000	0.67602	.	.	-0.052000	0.13311	-0.384000	0.06662	CGG		0.642	GPR27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352303.1	NM_018971		A	71804279	G	A	71804279	3	1	622	1	0	0	0	0	1	0	0	0	6692	1116	39	1	1081	1	GPR27	3	71804279	Missense_Mutation	SNP	G	TCGA-KL-8323-01A-21D-2310-10	33763424	71804279	126218151	19	38152										
VEPH1	79674	broad.mit.edu	37	chr3	157082297	157082297	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ttcaatttcagtgctgatttTtctcctaaaggaatataaat	5	6	3	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr3:157082297T>C	ENST00000362010.2	-	8	1439	c.1132A>G	c.(1132-1134)Aaa>Gaa	p.K378E	VEPH1_ENST00000543418.1_Missense_Mutation_p.K378E|VEPH1_ENST00000392832.2_Missense_Mutation_p.K378E|RP11-550I24.2_ENST00000487238.1_RNA|VEPH1_ENST00000392833.2_Missense_Mutation_p.K378E	NM_001167912.1	NP_001161384.1	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain-containing 1	378						plasma membrane (GO:0005886)				autonomic_ganglia(1)|breast(5)|cervix(1)|kidney(3)|large_intestine(9)|lung(22)|ovary(1)|pancreas(1)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	48			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			GTGCTGATTTTTCTCCTAAAG	0.353																																																0													95	91	92					3																	157082297		2203	4300	6503	SO:0001583	missense	79674			AL713656	CCDS3179.1, CCDS54661.1, CCDS54662.1, CCDS54663.1	3q24-q25	2013-01-10	2012-12-10		ENSG00000197415	ENSG00000197415		"Pleckstrin homology (PH) domain containing"	25735	protein-coding gene	gene with protein product		609594	"ventricular zone expressed PH domain homolog 1 (zebrafish)"			11214970, 15388229	Standard	NM_024621		Approved	FLJ12604, KIAA1692	uc003fbk.2	Q14D04	OTTHUMG00000158711	ENST00000362010.2:c.1132A>G	3.37:g.157082297T>C	ENSP00000354919:p.Lys378Glu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNL0|F5GZ91|Q2TAA9|Q3MIX2|Q6PEL3|Q86TL5|Q8TCR3|Q96SP7|Q9C0H1|Q9H9Q7	Missense_Mutation	SNP	ENST00000362010.2	37	CCDS3179.1	.	.	.	.	.	.	.	.	.	.	T	9.139	1.013384	0.19277	.	.	ENSG00000197415	ENST00000392833;ENST00000362010;ENST00000543418;ENST00000392832	T;T;T;T	0.08896	3.04;3.05;3.04;3.05	5.61	1.96	0.26148	.	0.275741	0.39341	N	0.001393	T	0.03390	0.0098	N	0.14661	0.345	0.58432	D	0.999997	B;B	0.06786	0.0;0.001	B;B	0.08055	0.003;0.002	T	0.40270	-0.9572	10	0.02654	T	1	0.0063	5.7345	0.18059	0.0:0.506:0.0:0.494	.	378;378	Q14D04-2;Q14D04	.;MELT_HUMAN	E	378	ENSP00000376578:K378E;ENSP00000354919:K378E;ENSP00000446258:K378E;ENSP00000376577:K378E	ENSP00000354919:K378E	K	-	1	0	VEPH1	158564991	1.000000	0.71417	0.716000	0.30569	0.861000	0.49209	3.419000	0.52728	0.420000	0.25954	0.528000	0.53228	AAA		0.353	VEPH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351845.3	NM_024621		C	157082297	T	C	157082297	3	2	622	1	0	0	0	0	1	0	0	0	17166	1850	64	3	1397	3	VEPH1	3	157082297	Missense_Mutation	SNP	T	TCGA-KL-8323-01A-21D-2310-10	85278018	157082297	40940133	20	38153										
ZBBX	79740	ucsc.edu	37	chr3	166960302	166960302	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	gcttaacttacctcaattccTcaactccacagggacccctc	4	17	2	0			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr3:166960302T>C	ENST00000392766.2	-	20	2607	c.2267A>G	c.(2266-2268)gAg>gGg	p.E756G	ZBBX_ENST00000455345.2_Missense_Mutation_p.E795G|ZBBX_ENST00000392767.2_Missense_Mutation_p.E756G|ZBBX_ENST00000307529.5_Missense_Mutation_p.E795G|ZBBX_ENST00000392764.1_Missense_Mutation_p.E727G	NM_001199201.1|NM_024687.3	NP_001186130.1|NP_078963.2	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	756						intracellular (GO:0005622)	zinc ion binding (GO:0008270)			NS(1)|breast(1)|endometrium(5)|kidney(5)|large_intestine(9)|liver(1)|lung(38)|ovary(2)|prostate(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)	70						CCTCAATTCCTCAACTCCACA	0.353																																																0													86	81	82					3																	166960302		1810	4064	5874	SO:0001583	missense	79740			AK026702	CCDS3199.2, CCDS56295.1, CCDS56296.1	3q26.1	2010-03-23			ENSG00000169064	ENSG00000169064			26245	protein-coding gene	gene with protein product						12477932	Standard	NM_024687		Approved	FLJ23049	uc011bpc.2	A8MT70	OTTHUMG00000133560	ENST00000392766.2:c.2267A>G	3.37:g.166960302T>C	ENSP00000376519:p.Glu756Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MV69|B3KSC1|B5MDJ6|F2Z370|Q9H5T8	Missense_Mutation	SNP	ENST00000392766.2	37	CCDS3199.2	.	.	.	.	.	.	.	.	.	.	T	11.65	1.702067	0.30232	.	.	ENSG00000169064	ENST00000392766;ENST00000392767;ENST00000455345;ENST00000307529;ENST00000392764	T;T;T;T;T	0.57107	0.42;0.42;0.42;0.42;0.42	5.01	2.62	0.31277	.	0.308843	0.27336	N	0.019836	T	0.41096	0.1144	L	0.44542	1.39	0.09310	N	1	B;B	0.13594	0.008;0.005	B;B	0.13407	0.009;0.004	T	0.38693	-0.9649	10	0.87932	D	0	-2.0389	6.6105	0.22749	0.0:0.1936:0.0:0.8064	.	795;756	A8MT70-2;A8MT70	.;ZBBX_HUMAN	G	756;756;795;795;727	ENSP00000376519:E756G;ENSP00000376520:E756G;ENSP00000390232:E795G;ENSP00000305065:E795G;ENSP00000376517:E727G	ENSP00000305065:E795G	E	-	2	0	ZBBX	168442996	0.098000	0.21812	0.067000	0.19924	0.024000	0.10985	1.233000	0.32648	0.268000	0.21939	0.482000	0.46254	GAG		0.353	ZBBX-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000257657.3	NM_024687		C	166960302	T	C	166960302	3	2	622	1	0	0	0	0	1	0	0	0	17528	1551	54	3	143	3	ZBBX	3	166960302	Missense_Mutation	SNP	T	TCGA-KL-8323-01A-21D-2310-10	9878005	166960302	31062128	21	38154										
AADAT	51166	broad.mit.edu	37	chr4	171009684	171009684	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	aagccaccagccaaggagatCatcgattttggtcctctgct	9	12	2	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr4:171009684C>T	ENST00000337664.4	-	2	375	c.99G>A	c.(97-99)atG>atA	p.M33I	AADAT_ENST00000353187.2_Missense_Mutation_p.M33I|AADAT_ENST00000509167.1_Missense_Mutation_p.M37I|AADAT_ENST00000515480.1_Missense_Mutation_p.M33I	NM_016228.3	NP_057312.1	Q8N5Z0	AADAT_HUMAN	aminoadipate aminotransferase	33					2-oxoglutarate metabolic process (GO:0006103)|biosynthetic process (GO:0009058)|cellular nitrogen compound metabolic process (GO:0034641)|glutamate metabolic process (GO:0006536)|kynurenine metabolic process (GO:0070189)|L-kynurenine metabolic process (GO:0097052)|L-lysine catabolic process to acetyl-CoA via saccharopine (GO:0033512)|lysine catabolic process (GO:0006554)|small molecule metabolic process (GO:0044281)|tryptophan catabolic process (GO:0006569)|tryptophan catabolic process to kynurenine (GO:0019441)	mitochondrial matrix (GO:0005759)	2-aminoadipate transaminase activity (GO:0047536)|kynurenine-oxoglutarate transaminase activity (GO:0016212)|protein homodimerization activity (GO:0042803)|pyridoxal phosphate binding (GO:0030170)			breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(3)|pancreas(1)|stomach(1)	11		Prostate(90;0.00601)|Renal(120;0.0183)|all_neural(102;0.122)|Melanoma(52;0.17)		GBM - Glioblastoma multiforme(119;0.0355)|LUSC - Lung squamous cell carcinoma(193;0.118)		CCAAGGAGATCATCGATTTTG	0.388																																																0													152	133	139					4																	171009684		2203	4300	6503	SO:0001583	missense	51166			AF097994	CCDS3814.1, CCDS75209.1	4q33	2010-12-09			ENSG00000109576	ENSG00000109576	2.6.1.39		17929	protein-coding gene	gene with protein product	"kynurenine aminotransferase II", "L kynurenine/alpha aminoadipate aminotransferase"	611754				12126930, 10441733	Standard	NM_182662		Approved	KATII, KAT2	uc003isr.3	Q8N5Z0	OTTHUMG00000160912	ENST00000337664.4:c.99G>A	4.37:g.171009684C>T	ENSP00000336808:p.Met33Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B3KP84|Q9UL02	Missense_Mutation	SNP	ENST00000337664.4	37	CCDS3814.1	.	.	.	.	.	.	.	.	.	.	C	0.137	-1.107192	0.01813	.	.	ENSG00000109576	ENST00000337664;ENST00000515480;ENST00000509167;ENST00000353187;ENST00000510340;ENST00000507375;ENST00000502392	T;T;T;T;T;T;T	0.38077	1.16;1.16;1.16;1.16;2.2;2.2;2.2	5.19	3.43	0.39272	Pyridoxal phosphate-dependent transferase, major domain (1);	0.671285	0.15651	N	0.251382	T	0.18002	0.0432	N	0.05510	-0.035	0.23425	N	0.9977	B;B	0.09022	0.002;0.001	B;B	0.09377	0.004;0.003	T	0.20042	-1.0287	10	0.29301	T	0.29	0.8926	8.1753	0.31278	0.0:0.2958:0.4236:0.2806	.	37;33	Q8N5Z0-2;Q8N5Z0	.;AADAT_HUMAN	I	33;33;37;33;24;33;33	ENSP00000336808:M33I;ENSP00000423341:M33I;ENSP00000423190:M37I;ENSP00000226840:M33I;ENSP00000425067:M24I;ENSP00000421389:M33I;ENSP00000423843:M33I	ENSP00000336808:M33I	M	-	3	0	AADAT	171246259	1.000000	0.71417	0.606000	0.28943	0.002000	0.02628	1.159000	0.31749	0.543000	0.28864	-0.165000	0.13383	ATG		0.388	AADAT-004	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000362952.1	NM_016228		T	171009684	C	T	171009684	3	4	622	1	0	0	0	0	1	0	0	0	14	826	29	2	1226	2	AADAT	4	171009684	Missense_Mutation	SNP	C	TCGA-KL-8323-01A-21D-2310-10		171009684	20144592	22	38155										
POU5F2	134187	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr5	93076393	93076393	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	tgggagccccagtcccaggtGaaagcacactggtgctcctg	13	13	0	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr5:93076393G>C	ENST00000510627.4	-	1	950	c.877C>G	c.(877-879)Cac>Gac	p.H293D	FAM172A_ENST00000395965.3_Intron|FAM172A_ENST00000505869.1_Intron|POU5F2_ENST00000606183.1_5'UTR|FAM172A_ENST00000509163.1_Intron|FAM172A_ENST00000509739.1_Intron|RP11-185E12.2_ENST00000606528.1_RNA	NM_153216.1	NP_694948.1	Q8N7G0	PO5F2_HUMAN	POU domain class 5, transcription factor 2	293					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)						all_cancers(142;3.87e-05)|all_epithelial(76;4.59e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0415)|all cancers(79;2.03e-19)		AGTCCCAGGTGAAAGCACACT	0.617																																																0													35	39	38					5																	93076393		1920	4110	6030	SO:0001583	missense	134187				CCDS59489.1	5q15	2011-06-20				ENSG00000248483		"Homeoboxes / POU class"	26367	protein-coding gene	gene with protein product						7908264	Standard	NM_153216		Approved	SPRM-1, FLJ25680	uc003kkl.1	Q8N7G0		ENST00000510627.4:c.877C>G	5.37:g.93076393G>C	ENSP00000464890:p.His293Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q15169|Q6MZL7|Q8N748	Missense_Mutation	SNP	ENST00000510627.4	37	CCDS59489.1																																																																																				0.617	POU5F2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369873.5	NM_153216		C	93076393	G	C	93076393	3	2	622	1	0	0	0	0	1	0	0	0	12290	1290	45	4	113	4	POU5F2	5	93076393	Missense_Mutation	SNP	G	TCGA-KL-8323-01A-21D-2310-10		93076393	87838867	23	38156										
MEGF10	84466	ucsc.edu	37	chr5	126755867	126755867	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	cctgcacgtgtgcacctggaTggcgcggggagaaatgcgaa	16	10	0	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr5:126755867T>C	ENST00000274473.6	+	13	1825	c.1558T>C	c.(1558-1560)Tgg>Cgg	p.W520R	MEGF10_ENST00000503335.2_Missense_Mutation_p.W520R|MEGF10_ENST00000418761.2_Missense_Mutation_p.W520R|MEGF10_ENST00000508365.1_Missense_Mutation_p.W520R	NM_032446.2	NP_115822.1	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10	520	EGF-like 9. {ECO:0000255|PROSITE- ProRule:PRU00076}.|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.				homotypic cell-cell adhesion (GO:0034109)|muscle cell development (GO:0055001)|recognition of apoptotic cell (GO:0043654)|regulation of muscle cell differentiation (GO:0051147)|regulation of skeletal muscle tissue development (GO:0048641)|skeletal muscle satellite cell activation (GO:0014719)|skeletal muscle satellite cell differentiation (GO:0014816)|skeletal muscle satellite cell proliferation (GO:0014841)	cell projection (GO:0042995)|integral component of membrane (GO:0016021)|phagocytic cup (GO:0001891)				breast(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(10)|lung(28)|ovary(4)|prostate(2)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	68		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)		TGCACCTGGATGGCGCGGGGA	0.562																																																0													84	72	76					5																	126755867		2203	4300	6503	SO:0001583	missense	84466			AK021631	CCDS4142.1	5q33	2008-02-05			ENSG00000145794	ENSG00000145794			29634	protein-coding gene	gene with protein product		612453				11347906	Standard	NM_032446		Approved	KIAA1780	uc003kui.4	Q96KG7	OTTHUMG00000128984	ENST00000274473.6:c.1558T>C	5.37:g.126755867T>C	ENSP00000274473:p.Trp520Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DE5|Q8WUL3	Missense_Mutation	SNP	ENST00000274473.6	37	CCDS4142.1	.	.	.	.	.	.	.	.	.	.	T	25.2	4.614955	0.87359	.	.	ENSG00000145794	ENST00000503335;ENST00000508365;ENST00000418761;ENST00000274473	T;T;T;T	0.55052	0.54;0.54;0.54;0.54	5.72	5.72	0.89469	Epidermal growth factor-like (1);EGF-like region, conserved site (2);Epidermal growth factor-like, type 3 (1);	0.000000	0.64402	D	0.000001	T	0.71409	0.3336	M	0.86097	2.795	0.80722	D	1	P;P	0.47034	0.55;0.889	B;P	0.54815	0.412;0.761	T	0.76255	-0.3026	10	0.66056	D	0.02	-22.1087	16.2962	0.82776	0.0:0.0:0.0:1.0	.	520;520	Q96KG7-2;Q96KG7	.;MEG10_HUMAN	R	520	ENSP00000423354:W520R;ENSP00000423195:W520R;ENSP00000416284:W520R;ENSP00000274473:W520R	ENSP00000274473:W520R	W	+	1	0	MEGF10	126783766	1.000000	0.71417	1.000000	0.80357	0.851000	0.48451	7.957000	0.87870	2.304000	0.77564	0.528000	0.53228	TGG		0.562	MEGF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250973.2	NM_032446		C	126755867	T	C	126755867	3	2	622	1	0	0	0	0	1	0	0	0	9467	1464	51	3	1600	3	MEGF10	5	126755867	Missense_Mutation	SNP	T	TCGA-KL-8323-01A-21D-2310-10	33679474	126755867	54159393	24	38157										
FAM153B	202134	broad.mit.edu	37	chr5	175530235	175530235	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	tttgtatcctcctagttctgAtcagggatgtacttcaggag	10	8	3	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr5:175530235A>C	ENST00000253490.4	+	13	727	c.670A>C	c.(670-672)Atc>Ctc	p.I224L	FAM153B_ENST00000515817.1_Missense_Mutation_p.I147L|FAM153B_ENST00000512862.1_Intron|FAM153B_ENST00000510151.1_Missense_Mutation_p.I147L			P0C7A2	F153B_HUMAN	family with sequence similarity 153, member B	224										endometrium(3)|kidney(2)|large_intestine(1)|lung(8)|ovary(1)|prostate(1)	16	all_cancers(89;0.00406)|Renal(175;0.000269)|Lung NSC(126;0.0103)|all_lung(126;0.0164)	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)	Kidney(146;0.0965)		CCTAGTTCTGATCAGGGATGT	0.507																																																0													165	174	171					5																	175530235		2203	4300	6503	SO:0001583	missense	202134			AK055006	CCDS43401.1, CCDS43401.2	5q35.2	2010-05-12			ENSG00000182230	ENSG00000182230			27323	protein-coding gene	gene with protein product							Standard	NM_001265615		Approved		uc031smb.1	P0C7A2	OTTHUMG00000163181	ENST00000253490.4:c.670A>C	5.37:g.175530235A>C	ENSP00000253490:p.Ile224Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8MTI1	Missense_Mutation	SNP	ENST00000253490.4	37		.	.	.	.	.	.	.	.	.	.	A	1.491	-0.554597	0.03996	.	.	ENSG00000182230	ENST00000515817;ENST00000253490	.	.	.	1.26	-2.53	0.06326	.	.	.	.	.	T	0.16557	0.0398	N	0.08118	0	0.09310	N	1	B	0.15141	0.012	B	0.08055	0.003	T	0.19614	-1.0300	8	0.87932	D	0	.	5.9593	0.19291	0.3919:0.6081:0.0:0.0	.	224	P0C7A2	F153B_HUMAN	L	147;224	.	ENSP00000253490:I224L	I	+	1	0	FAM153B	175462841	0.002000	0.14202	0.000000	0.03702	0.005000	0.04900	0.742000	0.26216	-0.649000	0.05430	0.145000	0.16022	ATC		0.507	FAM153B-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_001079529		C	175530235	A	C	175530235	3	2	622	1	0	0	0	0	1	0	0	0	5465	333	12	5	720	5	FAM153B	5	175530235	Missense_Mutation	SNP	A	TCGA-KL-8323-01A-21D-2310-10	48774368	175530235	5385025	25	38158										
RMND1	55005	ucsc.edu	37	chr6	151744763	151744763	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	cccctgtgaagttttgactgTcccctgtgaaaagcaaaaag	9	10	0	3			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr6:151744763T>C	ENST00000367303.4	-	7	956	c.834A>G	c.(832-834)ggA>ggG	p.G278G	RMND1_ENST00000336451.3_Silent_p.G67G	NM_017909.2	NP_060379.2	Q9NWS8	RMND1_HUMAN	required for meiotic nuclear division 1 homolog (S. cerevisiae)	278					translation (GO:0006412)	mitochondrion (GO:0005739)				central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	12		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.146)	OV - Ovarian serous cystadenocarcinoma(155;6.8e-11)		GTTTTGACTGTCCCCTGTGAA	0.358																																																0													103	104	104					6																	151744763		2203	4300	6503	SO:0001819	synonymous_variant	55005			AK000634	CCDS5232.1, CCDS75539.1	6q25.1	2008-02-05	2006-11-24	2006-11-24	ENSG00000155906	ENSG00000155906			21176	protein-coding gene	gene with protein product		614917	"chromosome 6 open reading frame 96"	C6orf96			Standard	NM_001271937		Approved	bA351K16.3, FLJ20627, RMD1	uc003qoi.3	Q9NWS8	OTTHUMG00000015837	ENST00000367303.4:c.834A>G	6.37:g.151744763T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K8H4|Q0VDG6|Q5SZ48|Q5SZ83|Q6NSC5|Q96EN7	Silent	SNP	ENST00000367303.4	37	CCDS5232.1																																																																																				0.358	RMND1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042718.2	NM_017909		C	151744763	T	C	151744763	2	2	622	1	0	0	0	0	0	0	0	1	13409	1654	58	3		3	RMND1	6	151744763	Silent	SNP	T	TCGA-KL-8323-01A-21D-2310-10		151744763	19370304	26	38159										
ACCN3	9311	broad.mit.edu;hgsc.bcm.edu	37	chr7	150746017	150746017	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	gaggcccggcggccagcctcGgacatccgcgtgttcgccag	15	16	0	0	rs369122567		TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr7:150746017G>A	ENST00000349064.5	+	1	243	c.45G>A	c.(43-45)tcG>tcA	p.S15S	ASIC3_ENST00000297512.8_Silent_p.S15S|ASIC3_ENST00000357922.4_Silent_p.S15S	NM_004769.3|NM_020321.3	NP_004760.1|NP_064717.1	Q9UHC3	ASIC3_HUMAN	acid-sensing (proton-gated) ion channel 3	15					cation transmembrane transport (GO:0098655)|detection of chemical stimulus involved in sensory perception of pain (GO:0050968)|detection of mechanical stimulus involved in sensory perception of pain (GO:0050966)|detection of temperature stimulus involved in sensory perception of pain (GO:0050965)|ion transmembrane transport (GO:0034220)|response to acid chemical (GO:0001101)|response to acidic pH (GO:0010447)|response to heat (GO:0009408)|sensory perception (GO:0007600)|sensory perception of sour taste (GO:0050915)|signal transduction (GO:0007165)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)|transport (GO:0006810)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cation channel activity (GO:0005261)|enterobactin transporter activity (GO:0042931)|ligand-gated sodium channel activity (GO:0015280)|sodium channel activity (GO:0005272)										GGCCAGCCTCGGACATCCGCG	0.687																																																0								G	,,	0,4404		0,0,2202	33	42	39		45,45,45	-5.2	0.7	7		39	1,8589		0,1,4294	no	coding-synonymous,coding-synonymous,coding-synonymous	ACCN3	NM_004769.2,NM_020321.2,NM_020322.2	,,	0,1,6496	AA,AG,GG		0.0116,0.0,0.0077	,,	15/532,15/550,15/544	150746017	1,12993	2202	4295	6497	SO:0001819	synonymous_variant	9311			AB010575	CCDS5914.1, CCDS5915.1, CCDS5916.1	7q35	2012-02-23	2012-02-22	2012-02-22	ENSG00000213199	ENSG00000213199		"Ion channels / Acid-sensing (proton-gated) ion channels"	101	protein-coding gene	gene with protein product	"testis sodium channel 1"	611741	"amiloride-sensitive cation channel 3, testis", "amiloride-sensitive cation channel 3"	ACCN3		9571199, 9744806	Standard	NM_004769		Approved	TNaC1, DRASIC	uc003wio.3	Q9UHC3	OTTHUMG00000158685	ENST00000349064.5:c.45G>A	7.37:g.150746017G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9V0|O60263|O75906|Q59FN9|Q9UER8|Q9UHC4	Silent	SNP	ENST00000349064.5	37	CCDS5916.1																																																																																				0.687	ASIC3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351725.1	NM_004769		A	150746017	G	A	150746017	2	1	622	1	0	0	0	0	0	0	0	1	130	1103	39	1		1	ACCN3	7	150746017	Silent	SNP	G	TCGA-KL-8323-01A-21D-2310-10		150746017	8392646	27	38160										
PTPRN2	5799	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	157931202	157931202	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	cttcaggagggtatgaatccGtgctcctaggggcacacaca	12	11	1	1	rs370624864		TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr7:157931202G>A	ENST00000389418.4	-	7	925	c.916C>T	c.(916-918)Cgg>Tgg	p.R306W	PTPRN2_ENST00000404321.2_Missense_Mutation_p.R329W|PTPRN2_ENST00000389416.4_Missense_Mutation_p.R289W|PTPRN2_ENST00000409483.1_Missense_Mutation_p.R268W|PTPRN2_ENST00000389413.3_Missense_Mutation_p.R306W	NM_002847.3	NP_002838.2	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N polypeptide 2	306					negative regulation of GTPase activity (GO:0034260)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)	endoplasmic reticulum lumen (GO:0005788)|integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)|secretory granule (GO:0030141)|terminal bouton (GO:0043195)	transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(1)|breast(1)|central_nervous_system(1)|cervix(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(11)|liver(1)|lung(42)|ovary(4)|pleura(1)|prostate(2)|skin(10)|upper_aerodigestive_tract(1)	86	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)		GTATGAATCCGTGCTCCTAGG	0.632																																																0									TRP/ARG,TRP/ARG,TRP/ARG	1,4405	2.1+/-5.4	0,1,2202	48	51	50		916,865,916	1.8	0	7		50	0,8600		0,0,4300	no	missense,missense,missense	PTPRN2	NM_002847.3,NM_130842.2,NM_130843.2	101,101,101	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	probably-damaging,probably-damaging,probably-damaging	306/1016,289/999,306/987	157931202	1,13005	2203	4300	6503	SO:0001583	missense	5799			AB002385	CCDS5947.1, CCDS5948.1, CCDS5949.1	7q36	2011-06-09			ENSG00000155093	ENSG00000155093		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like"	9677	protein-coding gene	gene with protein product	"IAR PTPRP"	601698				8954911, 9220540	Standard	NM_130842		Approved	KIAA0387, phogrin, ICAAR, IA-2beta	uc003wno.3	Q92932	OTTHUMG00000152646	ENST00000389418.4:c.916C>T	7.37:g.157931202G>A	ENSP00000374069:p.Arg306Trp	Somatic		WXS	Illumina HiSeq	Phase_I	E9PC57|Q8N4I5|Q92662|Q9Y4F8|Q9Y4I6	Missense_Mutation	SNP	ENST00000389418.4	37	CCDS5947.1	.	.	.	.	.	.	.	.	.	.	G	11.60	1.688479	0.29962	2.27E-4	0.0	ENSG00000155093	ENST00000409483;ENST00000389413;ENST00000389416;ENST00000389418;ENST00000404321	T;T;T;T;T	0.02944	4.12;4.1;4.11;4.11;4.1	4.11	1.83	0.25207	.	.	.	.	.	T	0.02380	0.0073	N	0.24115	0.695	0.09310	N	1	D;D;D;D;D	0.59767	0.986;0.975;0.986;0.975;0.975	B;B;B;B;B	0.43783	0.431;0.248;0.431;0.248;0.248	T	0.49753	-0.8906	9	0.39692	T	0.17	.	5.0987	0.14747	0.4449:0.0:0.5551:0.0	.	329;268;306;289;306	Q92932-3;E7EM83;Q92932-2;E9PC57;Q92932	.;.;.;.;PTPR2_HUMAN	W	268;306;289;306;329	ENSP00000387114:R268W;ENSP00000374064:R306W;ENSP00000374067:R289W;ENSP00000374069:R306W;ENSP00000385464:R329W	ENSP00000374064:R306W	R	-	1	2	PTPRN2	157623963	0.000000	0.05858	0.000000	0.03702	0.015000	0.08874	0.615000	0.24329	0.267000	0.21916	0.650000	0.86243	CGG		0.632	PTPRN2-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000353214.1			A	157931202	G	A	157931202	3	1	622	1	0	0	0	0	1	0	0	0	12821	1144	40	1	2199	1	PTPRN2	7	157931202	Missense_Mutation	SNP	G	TCGA-KL-8323-01A-21D-2310-10	7185185	157931202	1207461	28	38161										
ADAM32	203102	ucsc.edu	37	chr8	38965348	38965348	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	tgcggcctcctggcgtcaagAcccggtgagccagcccagac	13	16	1	3			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr8:38965348A>G	ENST00000379907.4	+	1	181	c.54A>G	c.(52-54)agA>agG	p.R18R	ADAM32_ENST00000437682.2_Missense_Mutation_p.D52G|ADAM32_ENST00000519315.1_Silent_p.R18R	NM_145004.5	NP_659441	Q8TC27	ADA32_HUMAN	ADAM metallopeptidase domain 32	18						integral component of membrane (GO:0016021)	metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			breast(1)|endometrium(4)|kidney(2)|large_intestine(7)|lung(14)|ovary(1)|skin(2)	31		all_cancers(7;3e-05)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00771)|Breast(189;0.0503)	LUSC - Lung squamous cell carcinoma(45;6.2e-07)|Colorectal(1;0.00699)|READ - Rectum adenocarcinoma(1;0.146)			TGGCGTCAAGACCCGGTGAGC	0.692																																																0													8	10	10					8																	38965348		1652	3666	5318	SO:0001819	synonymous_variant	203102			BC026085	CCDS47846.1	8p11.22	2005-08-18	2005-08-18		ENSG00000197140	ENSG00000197140		"ADAM metallopeptidase domain containing"	15479	protein-coding gene	gene with protein product			"a disintegrin and metalloproteinase domain 32"			12568724	Standard	NM_145004		Approved		uc003xmt.4	Q8TC27	OTTHUMG00000164071	ENST00000379907.4:c.54A>G	8.37:g.38965348A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TC42	Silent	SNP	ENST00000379907.4	37	CCDS47846.1	.	.	.	.	.	.	.	.	.	.	A	10.02	1.235989	0.22626	.	.	ENSG00000197140	ENST00000437682	T	0.05717	3.4	2.78	-3.24	0.05094	.	.	.	.	.	T	0.03434	0.0099	.	.	.	0.20403	N	0.999902	B	0.21688	0.059	B	0.26416	0.069	T	0.45848	-0.9233	8	0.31617	T	0.26	.	0.3329	0.00321	0.3506:0.1976:0.2584:0.1934	.	52	E7EPX8	.	G	52	ENSP00000405978:D52G	ENSP00000405978:D52G	D	+	2	0	ADAM32	39084505	0.000000	0.05858	0.001000	0.08648	0.001000	0.01503	0.152000	0.16302	-0.696000	0.05098	-0.466000	0.05196	GAC		0.692	ADAM32-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377089.1	NM_145004		G	38965348	A	G	38965348	2	3	622	1	0	0	0	0	0	0	0	1	249	272	10	3		3	ADAM32	8	38965348	Silent	SNP	A	TCGA-KL-8323-01A-21D-2310-10		38965348	107398674	29	38162										
C9orf95	54981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	77681741	77681741	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	agaggtcctcttcagattttGttccatccaggtacactacg	8	11	2	2			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr9:77681741G>T	ENST00000361092.4	-	8	748	c.512C>A	c.(511-513)aCa>aAa	p.T171K	NMRK1_ENST00000376811.1_Missense_Mutation_p.T175K|NMRK1_ENST00000376808.4_Missense_Mutation_p.T147K|NMRK1_ENST00000482537.1_5'UTR	NM_017881.2	NP_060351.1	Q9NWW6	NRK1_HUMAN	nicotinamide riboside kinase 1	171					NAD biosynthetic process (GO:0009435)		ATP binding (GO:0005524)|metal ion binding (GO:0046872)|ribosylnicotinamide kinase activity (GO:0050262)										TTCAGATTTTGTTCCATCCAG	0.363																																																0													132	126	128					9																	77681741		2203	4300	6503	SO:0001583	missense	54981			AK097144	CCDS6650.1, CCDS47981.1	9q21.31	2012-03-30	2012-03-30	2012-03-30	ENSG00000106733	ENSG00000106733			26057	protein-coding gene	gene with protein product		608704	"chromosome 9 open reading frame 95"	C9orf95		15137942	Standard	NM_017881		Approved	FLJ20559, NRK1, bA235O14.2	uc004ajr.4	Q9NWW6	OTTHUMG00000020034	ENST00000361092.4:c.512C>A	9.37:g.77681741G>T	ENSP00000354387:p.Thr171Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5W124|Q8N430	Missense_Mutation	SNP	ENST00000361092.4	37	CCDS6650.1	.	.	.	.	.	.	.	.	.	.	G	13.90	2.375440	0.42105	.	.	ENSG00000106733	ENST00000376811;ENST00000376794;ENST00000361092;ENST00000376808	T;T;T	0.36340	1.26;1.26;1.26	5.45	3.61	0.41365	.	0.360554	0.29159	N	0.012968	T	0.44726	0.1307	M	0.83953	2.67	0.43637	D	0.996032	D;P;D	0.59357	0.985;0.884;0.971	P;B;P	0.51999	0.687;0.106;0.614	T	0.54735	-0.8249	10	0.07030	T	0.85	-14.6147	8.1753	0.31278	0.2484:0.0:0.7516:0.0	.	147;175;171	Q9NWW6-2;Q5W125;Q9NWW6	.;.;NRK1_HUMAN	K	175;175;171;147	ENSP00000366007:T175K;ENSP00000354387:T171K;ENSP00000366004:T147K	ENSP00000354387:T171K	T	-	2	0	C9orf95	76871561	1.000000	0.71417	0.994000	0.49952	0.383000	0.30230	2.942000	0.49018	0.680000	0.31366	0.650000	0.86243	ACA		0.363	NMRK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052705.1	NM_017881		T	77681741	G	T	77681741	3	4	622	1	0	0	0	0	1	0	0	0	2509	1377	48	4	95	4	C9orf95	9	77681741	Missense_Mutation	SNP	G	TCGA-KL-8323-01A-21D-2310-10		77681741	63531690	30	38163										
NOXA1	377841	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	140327707	140327707	+	IGR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	gcccctgtgaggaccccgcgGgtgctggggtaagaggctct	17	12	1	2			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr9:140327707G>A	ENST00000472938.1	-	0	1749				NOXA1_ENST00000341349.2_Missense_Mutation_p.G301S|NOXA1_ENST00000392815.2_Missense_Mutation_p.G245S			Q5MY95	ENTP8_HUMAN	ectonucleoside triphosphate diphosphohydrolase 8						nucleoside diphosphate biosynthetic process (GO:0009133)|nucleoside monophosphate biosynthetic process (GO:0009124)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|nucleoside-diphosphatase activity (GO:0017110)|nucleoside-triphosphatase activity (GO:0017111)	p.G301C(1)		biliary_tract(1)|lung(4)|prostate(1)|skin(1)	7	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000224)|Epithelial(140;0.000898)		GGACCCCGCGGGTGCTGGGGT	0.652																																																1	Substitution - Missense(1)	cervix(1)											10	12	11					9																	140327707		2171	4281	6452	SO:0001628	intergenic_variant	10811			AY359088	CCDS7043.1, CCDS43913.1	9q34.3	2013-09-20			ENSG00000188833	ENSG00000188833			24860	protein-coding gene	gene with protein product	"GLSR2492"					12975309	Standard	NM_198585		Approved	UNQ2492, NTPDase-8	uc004cmw.3	Q5MY95	OTTHUMG00000131831		9.37:g.140327707G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2BG17|Q6UVZ0	Missense_Mutation	SNP	ENST00000472938.1	37	CCDS43913.1	.	.	.	.	.	.	.	.	.	.	G	4.715	0.132877	0.09032	.	.	ENSG00000188747	ENST00000341349;ENST00000392815	D;D	0.87029	-1.99;-2.2	2.27	-2.21	0.06973	.	1.949590	0.02659	N	0.107253	T	0.69333	0.3099	N	0.08118	0	0.09310	N	1	B;B;B	0.33318	0.408;0.01;0.007	B;B;B	0.31751	0.135;0.006;0.02	T	0.62959	-0.6743	10	0.09590	T	0.72	.	3.4659	0.07549	0.4195:0.2046:0.3759:0.0	.	245;301;301	Q86UR1-3;Q86UR1;Q86UR1-2	.;NOXA1_HUMAN;.	S	301;245	ENSP00000342848:G301S;ENSP00000376562:G245S	ENSP00000342848:G301S	G	+	1	0	NOXA1	139447528	0.000000	0.05858	0.000000	0.03702	0.111000	0.19643	-0.315000	0.08081	-0.611000	0.05709	0.561000	0.74099	GGT		0.652	ENTPD8-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355991.1	NM_198585		A	140327707	G	A	140327707	1	1	622	0	1	0	0	0	0	0	0	0	10567	1232	43	2		2	NOXA1	9	140327707	IGR	SNP	G	TCGA-KL-8323-01A-21D-2310-10	62645966	140327707	885724	31	38164										
CUBN	8029	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr10	16967262	16967262	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	aaactctttgcctcatatttGattttaaatccttgcccttc	3	11	2	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr10:16967262G>A	ENST00000377833.4	-	43	6689	c.6624C>T	c.(6622-6624)atC>atT	p.I2208I		NM_001081.3	NP_001072.2	O60494	CUBN_HUMAN	cubilin (intrinsic factor-cobalamin receptor)	2208	CUB 15. {ECO:0000255|PROSITE- ProRule:PRU00059}.				cholesterol metabolic process (GO:0008203)|cobalamin metabolic process (GO:0009235)|cobalamin transport (GO:0015889)|lipoprotein metabolic process (GO:0042157)|lipoprotein transport (GO:0042953)|receptor-mediated endocytosis (GO:0006898)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|tissue homeostasis (GO:0001894)|vitamin D metabolic process (GO:0042359)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|coated pit (GO:0005905)|cytosol (GO:0005829)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|extrinsic component of external side of plasma membrane (GO:0031232)|Golgi apparatus (GO:0005794)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|cobalamin binding (GO:0031419)|protein homodimerization activity (GO:0042803)|receptor activity (GO:0004872)|transporter activity (GO:0005215)			breast(8)|central_nervous_system(4)|cervix(1)|endometrium(18)|haematopoietic_and_lymphoid_tissue(3)|kidney(12)|large_intestine(42)|liver(1)|lung(107)|ovary(9)|pancreas(2)|prostate(3)|skin(9)|stomach(3)|upper_aerodigestive_tract(11)|urinary_tract(8)	241					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CCTCATATTTGATTTTAAATC	0.328																																																0													60	61	60					10																	16967262		2203	4300	6503	SO:0001819	synonymous_variant	8029			AF034611	CCDS7113.1	10p12	2014-09-17			ENSG00000107611	ENSG00000107611			2548	protein-coding gene	gene with protein product		602997		MGA1		9572993, 9478979	Standard	NM_001081		Approved	IFCR, gp280	uc001ioo.3	O60494	OTTHUMG00000017741	ENST00000377833.4:c.6624C>T	10.37:g.16967262G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B0YIZ4|Q5VTA6|Q96RU9	Silent	SNP	ENST00000377833.4	37	CCDS7113.1																																																																																				0.328	CUBN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047009.1	NM_001081		A	16967262	G	A	16967262	2	1	622	1	0	0	0	0	0	0	0	1	4053	1280	45	2		2	CUBN	10	16967262	Silent	SNP	G	TCGA-KL-8323-01A-21D-2310-10		16967262	118567485	32	38165										
PTEN	5728	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr10	89711966	89711966	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	tagaccagtggcactgttgtTtcacaagatgatgtttgaaa	10	6	1	4			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr10:89711966T>C	ENST00000371953.3	+	6	1941	c.584T>C	c.(583-585)tTt>tCt	p.F195S	PTEN_ENST00000472832.1_3'UTR	NM_000314.4	NP_000305.3	P60484	PTEN_HUMAN	phosphatase and tensin homolog	195	C2 tensin-type. {ECO:0000255|PROSITE- ProRule:PRU00589}.				activation of mitotic anaphase-promoting complex activity (GO:0007092)|aging (GO:0007568)|angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|brain morphogenesis (GO:0048854)|canonical Wnt signaling pathway (GO:0060070)|cardiac muscle tissue development (GO:0048738)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|central nervous system development (GO:0007417)|central nervous system myelin maintenance (GO:0032286)|central nervous system neuron axonogenesis (GO:0021955)|dendritic spine morphogenesis (GO:0060997)|dentate gyrus development (GO:0021542)|endothelial cell migration (GO:0043542)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|forebrain morphogenesis (GO:0048853)|heart development (GO:0007507)|innate immune response (GO:0045087)|inositol phosphate dephosphorylation (GO:0046855)|inositol phosphate metabolic process (GO:0043647)|learning or memory (GO:0007611)|locomotor rhythm (GO:0045475)|locomotory behavior (GO:0007626)|long term synaptic depression (GO:0060292)|long-term synaptic potentiation (GO:0060291)|male mating behavior (GO:0060179)|maternal behavior (GO:0042711)|memory (GO:0007613)|multicellular organismal response to stress (GO:0033555)|negative regulation of apoptotic process (GO:0043066)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell aging (GO:0090344)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031658)|negative regulation of dendritic spine morphogenesis (GO:0061002)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of myelination (GO:0031642)|negative regulation of organ growth (GO:0046621)|negative regulation of phagocytosis (GO:0050765)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of ribosome biogenesis (GO:0090071)|negative regulation of synaptic vesicle clustering (GO:2000808)|neuron-neuron synaptic transmission (GO:0007270)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell proliferation (GO:0008284)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|postsynaptic density assembly (GO:0097107)|prepulse inhibition (GO:0060134)|presynaptic membrane assembly (GO:0097105)|prostate gland growth (GO:0060736)|protein dephosphorylation (GO:0006470)|protein kinase B signaling (GO:0043491)|protein stabilization (GO:0050821)|regulation of B cell apoptotic process (GO:0002902)|regulation of cellular component size (GO:0032535)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of myeloid cell apoptotic process (GO:0033032)|regulation of neuron projection development (GO:0010975)|regulation of protein stability (GO:0031647)|response to arsenic-containing substance (GO:0046685)|response to ATP (GO:0033198)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to ethanol (GO:0045471)|response to glucose (GO:0009749)|response to nutrient (GO:0007584)|response to zinc ion (GO:0010043)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synapse maturation (GO:0060074)|T cell receptor signaling pathway (GO:0050852)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|extracellular region (GO:0005576)|mitochondrion (GO:0005739)|myelin sheath adaxonal region (GO:0035749)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|Schmidt-Lanterman incisure (GO:0043220)	anaphase-promoting complex binding (GO:0010997)|enzyme binding (GO:0019899)|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity (GO:0051717)|lipid binding (GO:0008289)|magnesium ion binding (GO:0000287)|PDZ domain binding (GO:0030165)|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity (GO:0016314)|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity (GO:0051800)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|phosphoprotein phosphatase activity (GO:0004721)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)	p.0?(37)|p.R55fs*1(5)|p.?(4)|p.G165fs*9(3)|p.Y27fs*1(2)|p.G165_*404del(1)		NS(28)|autonomic_ganglia(2)|biliary_tract(6)|bone(5)|breast(92)|central_nervous_system(676)|cervix(26)|endometrium(1068)|eye(8)|haematopoietic_and_lymphoid_tissue(137)|kidney(24)|large_intestine(98)|liver(20)|lung(91)|meninges(2)|oesophagus(2)|ovary(82)|pancreas(6)|prostate(129)|salivary_gland(5)|skin(127)|soft_tissue(19)|stomach(30)|testis(1)|thyroid(29)|upper_aerodigestive_tract(29)|urinary_tract(12)|vulva(17)	2771		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		GCACTGTTGTTTCACAAGATG	0.398		31	"D, Mis, N, F, S"		"glioma,  prostate, endometrial"	"harmartoma, glioma,  prostate, endometrial"			Proteus syndrome;Juvenile Polyposis;Hereditary Mixed Polyposis Syndrome type 1;Cowden syndrome;Bannayan-Riley-Ruvalcaba syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)																												yes	Rec	yes	"Cowden Syndrome, Bannayan-Riley-Ruvalcaba syndrome"	10	10q23.3	5728	phosphatase and tensin homolog gene		"L, E, M, O"	52	Whole gene deletion(37)|Deletion - Frameshift(10)|Unknown(4)|Deletion - In frame(1)	prostate(16)|central_nervous_system(13)|skin(8)|lung(4)|haematopoietic_and_lymphoid_tissue(3)|breast(3)|ovary(3)|soft_tissue(1)|urinary_tract(1)											154	152	153					10																	89711966		2203	4300	6503	SO:0001583	missense	5728	Familial Cancer Database	Incl.: Encephalocraniocutaneous Lipomatosis, ECCL, Proteus-like s.;incl.: Juvenile Polyposis of the Stomach;HMPS1, Colorectal Adenoma Carcinoma syndrome, CRAC, CRAC1;CS, Cowden disease, Multiple Hamartoma Syndrome, incl.: Lhermitte-Duclos; part of PTEN hamartoma tumour syndrome (PHTS) / PTEN-MATCHS, Cowden-like syndrome;subset of PTEN-Hamartoma Tumor Syndrome; incl.: Ruvalcaba-Myhre-Smith s.	U92436	CCDS31238.1	10q23	2014-09-17	2008-07-31		ENSG00000171862	ENSG00000171862		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs"	9588	protein-coding gene	gene with protein product	"mutated in multiple advanced cancers 1"	601728		BZS, MHAM		9090379	Standard	NM_000314		Approved	MMAC1, TEP1, PTEN1	uc001kfb.3	P60484	OTTHUMG00000018688	ENST00000371953.3:c.584T>C	10.37:g.89711966T>C	ENSP00000361021:p.Phe195Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2R904|F2YHV0|O00633|O02679|Q6ICT7	Missense_Mutation	SNP	ENST00000371953.3	37	CCDS31238.1	.	.	.	.	.	.	.	.	.	.	T	32	5.149283	0.94645	.	.	ENSG00000171862	ENST00000371953	D	0.85411	-1.98	5.85	5.85	0.93711	Tensin phosphatase, C2 domain (2);C2 calcium/lipid-binding domain, CaLB (1);	0.092703	0.85682	D	0.000000	D	0.90366	0.6985	L	0.60455	1.87	0.80722	D	1	D	0.76494	0.999	D	0.68483	0.958	D	0.89873	0.4024	9	.	.	.	-4.4487	16.2416	0.82411	0.0:0.0:0.0:1.0	.	195	P60484	PTEN_HUMAN	S	195	ENSP00000361021:F195S	.	F	+	2	0	PTEN	89701946	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.615000	0.83006	2.241000	0.73720	0.477000	0.44152	TTT		0.398	PTEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049241.1	NM_000314		C	89711966	T	C	89711966	3	2	622	1	0	0	0	0	1	0	0	0	12748	1841	64	3	606	3	PTEN	10	89711966	Missense_Mutation	SNP	T	TCGA-KL-8323-01A-21D-2310-10	72744704	89711966	45822781	33	38166										
C10orf28	27291	ucsc.edu;bcgsc.ca	37	chr10	99991273	99991273	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	gcttcttcctttctagttatCagggaataccaagagcagag	9	9	3	2			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr10:99991273C>T	ENST00000298999.3	+	6	2093	c.1790C>T	c.(1789-1791)tCa>tTa	p.S597L	R3HCC1L_ENST00000370586.2_Missense_Mutation_p.S3L|R3HCC1L_ENST00000370584.3_Missense_Mutation_p.S597L|R3HCC1L_ENST00000314594.5_Missense_Mutation_p.S13L	NM_014472.4	NP_055287	Q7Z5L2	R3HCL_HUMAN	R3H domain and coiled-coil containing 1-like	611							nucleotide binding (GO:0000166)										TTCTAGTTATCAGGGAATACC	0.383																																																0													99	90	93					10																	99991273		2203	4300	6503	SO:0001583	missense	27291			AF525304	CCDS31267.1, CCDS58093.1, CCDS73178.1	10q24.2	2012-05-23	2012-05-23	2012-05-23	ENSG00000166024	ENSG00000166024			23512	protein-coding gene	gene with protein product			"chromosome 10 open reading frame 28"	C10orf28			Standard	NM_014472		Approved	GIDRP86, PSORT	uc001kox.4	Q7Z5L2	OTTHUMG00000018873	ENST00000298999.3:c.1790C>T	10.37:g.99991273C>T	ENSP00000298999:p.Ser597Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O60598|Q5W0B4|Q5W0B5|Q86VT9|Q8N9H0	Missense_Mutation	SNP	ENST00000298999.3	37	CCDS31267.1	.	.	.	.	.	.	.	.	.	.	C	24.0	4.486925	0.84854	.	.	ENSG00000166024	ENST00000370584;ENST00000298999;ENST00000370586;ENST00000314594;ENST00000544834	T;T;T;T	0.32515	1.45;1.45;1.45;1.45	5.83	5.83	0.93111	.	0.351150	0.27971	N	0.017111	T	0.40619	0.1124	L	0.60455	1.87	0.39744	D	0.971786	B;P;P	0.52842	0.103;0.956;0.843	B;P;P	0.51016	0.058;0.656;0.487	T	0.18967	-1.0320	9	.	.	.	-8.6307	12.9136	0.58192	0.0:0.9218:0.0:0.0782	.	3;611;597	Q7Z5L2-3;Q7Z5L2;Q7Z5L2-2	.;GIDRP_HUMAN;.	L	597;597;3;13;4	ENSP00000359616:S597L;ENSP00000298999:S597L;ENSP00000359618:S3L;ENSP00000314018:S13L	.	S	+	2	0	C10orf28	99981263	0.994000	0.37717	1.000000	0.80357	0.845000	0.48019	1.536000	0.36072	2.744000	0.94065	0.655000	0.94253	TCA		0.383	R3HCC1L-001	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049764.1	NM_014472		T	99991273	C	T	99991273	3	4	622	1	0	0	0	0	1	0	0	0	1603	838	29	2	1796	2	C10orf28	10	99991273	Missense_Mutation	SNP	C	TCGA-KL-8323-01A-21D-2310-10	10279307	99991273	35543474	34	38167										
PHRF1	57661	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	605169	605169	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	cggacgctgggcctgcgcagGcctgttcacagcagctgcat	14	14	1	0			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr11:605169G>T	ENST00000264555.5	+	11	1331	c.1203G>T	c.(1201-1203)agG>agT	p.R401S	PHRF1_ENST00000533464.1_Missense_Mutation_p.R397S|PHRF1_ENST00000413872.2_Missense_Mutation_p.R400S|PHRF1_ENST00000416188.2_Missense_Mutation_p.R401S	NM_020901.2	NP_065952.2	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	401	Arg-rich.				mRNA processing (GO:0006397)|transcription from RNA polymerase II promoter (GO:0006366)	membrane (GO:0016020)	RNA polymerase binding (GO:0070063)|zinc ion binding (GO:0008270)			breast(1)|cervix(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(13)|urinary_tract(2)	28						GCCTGCGCAGGCCTGTTCACA	0.567																																																0													46	49	48					11																	605169		2071	4212	6283	SO:0001583	missense	57661			BC004950	CCDS44507.1, CCDS65987.1, CCDS65988.1, CCDS65989.1	11p15.5	2014-06-13			ENSG00000070047	ENSG00000070047		"RING-type (C3HC4) zinc fingers", "Zinc fingers, PHD-type"	24351	protein-coding gene	gene with protein product	"CTD binding SR like protein rA9", "protein phosphatase 1, regulatory subunit 125"	611780		RNF221			Standard	XM_005253027		Approved	KIAA1542, PPP1R125	uc010qwc.2	Q9P1Y6	OTTHUMG00000165141	ENST00000264555.5:c.1203G>T	11.37:g.605169G>T	ENSP00000264555:p.Arg401Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8W1|B7ZM64|B9EGP0|C9JS82|Q6PJP2|Q8IVY2|Q8N2Y7|Q9BSM2	Missense_Mutation	SNP	ENST00000264555.5	37		.	.	.	.	.	.	.	.	.	.	G	7.714	0.695759	0.15106	.	.	ENSG00000070047	ENST00000264555;ENST00000413872;ENST00000416188;ENST00000533464	D;D;D;D	0.92199	-2.99;-2.99;-2.99;-2.99	4.65	1.63	0.23807	.	0.620308	0.13443	N	0.387560	T	0.81545	0.4845	N	0.24115	0.695	0.28574	N	0.910468	B;B;B;B	0.24823	0.068;0.112;0.112;0.068	B;B;B;B	0.20955	0.014;0.032;0.032;0.014	T	0.69339	-0.5171	10	0.33141	T	0.24	-17.2271	1.0008	0.01476	0.2743:0.1627:0.397:0.166	.	397;400;401;401	E9PJ24;F8WEF5;Q9P1Y6-3;Q9P1Y6	.;.;.;PHRF1_HUMAN	S	401;400;401;397	ENSP00000264555:R401S;ENSP00000388589:R400S;ENSP00000410626:R401S;ENSP00000431870:R397S	ENSP00000264555:R401S	R	+	3	2	PHRF1	595169	1.000000	0.71417	0.260000	0.24451	0.024000	0.10985	1.285000	0.33261	0.551000	0.29008	0.563000	0.77884	AGG		0.567	PHRF1-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000382133.1	NM_020901		T	605169	G	T	605169	3	4	622	1	0	0	0	0	1	0	0	0	11868	1194	42	4	1241	4	PHRF1	11	605169	Missense_Mutation	SNP	G	TCGA-KL-8323-01A-21D-2310-10		605169	134401347	35	38168										
MUC5B	727897	broad.mit.edu	37	chr11	1270385	1270385	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	caccccgggccacaccacggCcacctccaggaccacggcca	9	22	0	0			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr11:1270385C>G	ENST00000529681.1	+	31	12333	c.12275C>G	c.(12274-12276)gCc>gGc	p.A4092G	MUC5B_ENST00000447027.1_Missense_Mutation_p.A4095G|RP11-532E4.2_ENST00000532061.2_RNA	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	4092	7 X Cys-rich subdomain repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		CACACCACGGCCACCTCCAGG	0.701																																																0													89	122	111					11																	1270385		2095	4203	6298	SO:0001583	missense	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.12275C>G	11.37:g.1270385C>G	ENSP00000436812:p.Ala4092Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Missense_Mutation	SNP	ENST00000529681.1	37	CCDS44515.2	.	.	.	.	.	.	.	.	.	.	c	5.394	0.257910	0.10239	.	.	ENSG00000117983	ENST00000529681;ENST00000447027;ENST00000349637;ENST00000406844	T;T	0.17528	2.27;2.46	1.88	-0.722	0.11184	.	.	.	.	.	T	0.17023	0.0409	M	0.67953	2.075	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.001	T	0.29305	-1.0016	9	0.87932	D	0	.	5.417	0.16380	0.0:0.4252:0.3955:0.1793	.	4565;4095	A7Y9J9;E9PBJ0	.;.	G	4092;4095;4036;3942	ENSP00000436812:A4092G;ENSP00000415793:A4095G	ENSP00000343037:A4036G	A	+	2	0	MUC5B	1226961	0.005000	0.15991	0.002000	0.10522	0.162000	0.22319	1.701000	0.37825	-0.378000	0.07918	0.393000	0.25936	GCC		0.701	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		G	1270385	C	G	1270385	3	3	622	1	0	0	0	0	1	0	0	0	9986	739	26	4	12406	4	MUC5B	11	1270385	Missense_Mutation	SNP	C	TCGA-KL-8323-01A-21D-2310-10	665216	1270385	133736131	36	38169										
MED17	9440	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	93517753	93517753	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ggtccatgaggtgggcctggAtggcaccgagacgtacctgc	16	11	0	2			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr11:93517753A>G	ENST00000251871.3	+	1	361	c.74A>G	c.(73-75)gAt>gGt	p.D25G	MED17_ENST00000530819.1_Missense_Mutation_p.D25G	NM_004268.4	NP_004259.3	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	25					androgen receptor signaling pathway (GO:0030521)|gene expression (GO:0010467)|intracellular steroid hormone receptor signaling pathway (GO:0030518)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|stem cell maintenance (GO:0019827)|transcription initiation from RNA polymerase II promoter (GO:0006367)	mediator complex (GO:0016592)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|receptor activity (GO:0004872)|RNA polymerase II transcription cofactor activity (GO:0001104)|thyroid hormone receptor binding (GO:0046966)|transcription coactivator activity (GO:0003713)|transcription cofactor activity (GO:0003712)|vitamin D receptor binding (GO:0042809)			large_intestine(2)|lung(11)|ovary(1)	14		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GTGGGCCTGGATGGCACCGAG	0.672																																																0													43	33	36					11																	93517753		2199	4298	6497	SO:0001583	missense	9440			AF104254	CCDS8295.1	11q21	2007-07-30	2007-07-30	2007-07-30	ENSG00000042429	ENSG00000042429			2375	protein-coding gene	gene with protein product		603810	"cofactor required for Sp1 transcriptional activation, subunit 6 (77kD)", "cofactor required for Sp1 transcriptional activation, subunit 6, 77kDa"	CRSP6		9989412, 10198638	Standard	NM_004268		Approved	CRSP77, TRAP80, DRIP80	uc001pem.4	Q9NVC6	OTTHUMG00000167497	ENST00000251871.3:c.74A>G	11.37:g.93517753A>G	ENSP00000251871:p.Asp25Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KN07|Q9HA81|Q9UNP7|Q9Y2W0|Q9Y660	Missense_Mutation	SNP	ENST00000251871.3	37	CCDS8295.1	.	.	.	.	.	.	.	.	.	.	A	34	5.386599	0.95967	.	.	ENSG00000042429	ENST00000251871;ENST00000530819;ENST00000427225;ENST00000533359	T;T;T	0.66995	-0.24;0.2;0.26	5.76	5.76	0.90799	.	0.102946	0.64402	D	0.000002	T	0.80798	0.4692	M	0.72118	2.19	0.80722	D	1	D;D	0.71674	0.998;0.974	D;P	0.71870	0.975;0.772	T	0.82839	-0.0259	10	0.72032	D	0.01	-26.298	16.0699	0.80919	1.0:0.0:0.0:0.0	.	25;25	Q9NVC6;Q9NVC6-2	MED17_HUMAN;.	G	25	ENSP00000251871:D25G;ENSP00000434459:D25G;ENSP00000431524:D25G	ENSP00000251871:D25G	D	+	2	0	MED17	93157401	1.000000	0.71417	1.000000	0.80357	0.874000	0.50279	8.563000	0.90723	2.200000	0.70718	0.459000	0.35465	GAT		0.672	MED17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394800.2	NM_004268		G	93517753	A	G	93517753	3	3	622	1	0	0	0	0	1	0	0	0	9442	333	12	3	76	3	MED17	11	93517753	Missense_Mutation	SNP	A	TCGA-KL-8323-01A-21D-2310-10	92247368	93517753	41488763	37	38170										
LIMA1	51474	broad.mit.edu	37	chr12	50575718	50575718	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	gttgcaataggagcaacggaAgcagctgatgtgaaacacct	12	8	0	2			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr12:50575718A>G	ENST00000341247.4	-	10	1392	c.1243T>C	c.(1243-1245)Ttc>Ctc	p.F415L	LIMA1_ENST00000552909.1_Missense_Mutation_p.F254L|LIMA1_ENST00000552783.1_Missense_Mutation_p.F256L|LIMA1_ENST00000394943.3_Missense_Mutation_p.F416L|LIMA1_ENST00000552823.1_Missense_Mutation_p.F255L|LIMA1_ENST00000547825.1_Missense_Mutation_p.F113L|LIMA1_ENST00000552491.1_Missense_Mutation_p.F112L	NM_001113546.1|NM_016357.4	NP_001107018.1|NP_057441.1	Q9UHB6	LIMA1_HUMAN	LIM domain and actin binding 1	415	LIM zinc-binding. {ECO:0000255|PROSITE- ProRule:PRU00125}.			F -> L (in Ref. 8; AAG17267). {ECO:0000305}.	actin filament bundle assembly (GO:0051017)|negative regulation of actin filament depolymerization (GO:0030835)|ruffle organization (GO:0031529)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|plasma membrane (GO:0005886)|stress fiber (GO:0001725)	actin filament binding (GO:0051015)|actin monomer binding (GO:0003785)|zinc ion binding (GO:0008270)			NS(1)|breast(4)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|lung(17)|ovary(1)|prostate(2)|skin(2)	44						GAGCAACGGAAGCAGCTGATG	0.488																																																0													110	99	103					12																	50575718		2203	4300	6503	SO:0001583	missense	51474			AF198454	CCDS8802.1, CCDS44877.1, CCDS55826.1, CCDS58230.1	12q13.12	2006-04-12				ENSG00000050405			24636	protein-coding gene	gene with protein product	"epithelial protein lost in neoplasm beta"	608364				10806352, 10618726, 12566430	Standard	NM_016357		Approved	EPLIN	uc001rwk.4	Q9UHB6		ENST00000341247.4:c.1243T>C	12.37:g.50575718A>G	ENSP00000340184:p.Phe415Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RB09|Q2TAN7|Q59FE8|Q9BVF2|Q9H8J1|Q9HBN5|Q9NX96|Q9NXC3|Q9NXU6|Q9P0H8|Q9UHB5	Missense_Mutation	SNP	ENST00000341247.4	37	CCDS8802.1	.	.	.	.	.	.	.	.	.	.	A	36	5.631391	0.96682	.	.	ENSG00000050405	ENST00000552491;ENST00000547825;ENST00000552823;ENST00000394943;ENST00000341247;ENST00000552783;ENST00000552909;ENST00000420992	D;D;D;D;D;D;D	0.92199	-2.99;-2.99;-2.99;-2.99;-2.99;-2.99;-2.99	5.49	5.49	0.81192	Zinc finger, LIM-type (5);	0.000000	0.85682	D	0.000000	D	0.95887	0.8661	M	0.77616	2.38	0.80722	D	1	D;D;D	0.89917	1.0;0.997;0.964	D;D;D	0.97110	1.0;0.991;0.978	D	0.96323	0.9238	10	0.72032	D	0.01	.	15.8844	0.79232	1.0:0.0:0.0:0.0	.	425;415;254	Q59FE8;Q9UHB6;F8VQE1	.;LIMA1_HUMAN;.	L	112;113;255;416;415;256;254;334	ENSP00000448463:F112L;ENSP00000448706:F113L;ENSP00000450266:F255L;ENSP00000378400:F416L;ENSP00000340184:F415L;ENSP00000448779:F256L;ENSP00000450087:F254L	ENSP00000340184:F415L	F	-	1	0	LIMA1	48861985	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	8.910000	0.92685	2.218000	0.71995	0.533000	0.62120	TTC		0.488	LIMA1-003	KNOWN	NAGNAG_splice_site|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000406235.2	NM_016357		G	50575718	A	G	50575718	3	3	622	1	0	0	0	0	1	0	0	0	8803	72	3	3	1044	3	LIMA1	12	50575718	Missense_Mutation	SNP	A	TCGA-KL-8323-01A-21D-2310-10		50575718	83276177	38	38171										
ALKBH2	121642	broad.mit.edu;ucsc.edu	37	chr12	109526037	109526037	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	tttagtaagcaaaattttacGaaaagtcagattcacccgtg	7	7	2	1	rs373220366		TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr12:109526037G>A	ENST00000429722.2	-	4	1123	c.760C>T	c.(760-762)Cgt>Tgt	p.R254C	ALKBH2_ENST00000440112.2_3'UTR|ALKBH2_ENST00000343075.3_Missense_Mutation_p.R254C	NM_001145374.1	NP_001138846.1	Q6NS38	ALKB2_HUMAN	alkB, alkylation repair homolog 2 (E. coli)	254	Alpha-ketoglutarate binding.|Fe2OG dioxygenase. {ECO:0000255|PROSITE- ProRule:PRU00805}.				DNA dealkylation involved in DNA repair (GO:0006307)|DNA demethylation (GO:0080111)|DNA repair (GO:0006281)|oxidative demethylation (GO:0070989)|oxidative DNA demethylation (GO:0035511)	nucleoplasm (GO:0005654)	cytosine C-5 DNA demethylase activity (GO:0051747)|DNA-N1-methyladenine dioxygenase activity (GO:0043734)|ferrous iron binding (GO:0008198)			endometrium(1)|kidney(3)|large_intestine(1)|lung(3)	8					Vitamin C(DB00126)	AAAATTTTACGAAAAGTCAGA	0.428								Direct reversal of damage																																								0								G	CYS/ARG,CYS/ARG,CYS/ARG,,	0,4406		0,0,2203	72	77	75		760,760,760,,	3.7	0.1	12		75	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,missense,utr-3,utr-3	ALKBH2	NM_001001655.2,NM_001145374.1,NM_001145375.1,NM_001205179.1,NM_001205180.1	180,180,180,,	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging,probably-damaging,probably-damaging,,	254/262,254/262,254/262,,	109526037	1,13005	2203	4300	6503	SO:0001583	missense	121642			AY754389	CCDS31897.1, CCDS55883.1	12q24.11	2008-04-24			ENSG00000189046	ENSG00000189046		"Alkylation repair homologs"	32487	protein-coding gene	gene with protein product		610602					Standard	NM_001145374		Approved	MGC90512, ABH2	uc010sxj.1	Q6NS38	OTTHUMG00000169246	ENST00000429722.2:c.760C>T	12.37:g.109526037G>A	ENSP00000398181:p.Arg254Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A4PET2|Q5XLE3	Missense_Mutation	SNP	ENST00000429722.2	37	CCDS31897.1	.	.	.	.	.	.	.	.	.	.	G	15.24	2.774679	0.49786	0.0	1.16E-4	ENSG00000189046	ENST00000429722;ENST00000343075;ENST00000435370	T;T	0.75260	-0.92;-0.92	5.62	3.74	0.42951	Oxoglutarate/iron-dependent oxygenase (2);	0.000000	0.85682	D	0.000000	D	0.91415	0.7291	H	0.98701	4.305	0.80722	D	1	D	0.89917	1.0	D	0.79784	0.993	D	0.93711	0.7024	10	0.87932	D	0	-10.7766	14.1155	0.65151	0.0:0.0:0.6126:0.3874	.	254	Q6NS38	ALKB2_HUMAN	C	254	ENSP00000398181:R254C;ENSP00000343021:R254C	ENSP00000343021:R254C	R	-	1	0	ALKBH2	108010420	1.000000	0.71417	0.126000	0.21872	0.478000	0.33099	3.442000	0.52900	0.670000	0.31165	0.655000	0.94253	CGT		0.428	ALKBH2-007	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403063.2	NM_001001655		A	109526037	G	A	109526037	3	1	622	1	0	0	0	0	1	0	0	0	527	1058	37	1	29	1	ALKBH2	12	109526037	Missense_Mutation	SNP	G	TCGA-KL-8323-01A-21D-2310-10	58950319	109526037	24325858	39	38172										
HERC2	8924	broad.mit.edu	37	chr15	28447318	28447318	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ctcgtcagaatactcgtcggAcaccgtgtctgcatctgaga	10	12	3	2			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr15:28447318A>G	ENST00000261609.7	-	47	7666	c.7558T>C	c.(7558-7560)Tcc>Ccc	p.S2520P		NM_004667.5	NP_004658.3			HECT and RLD domain containing E3 ubiquitin protein ligase 2											NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(3)|cervix(3)|endometrium(20)|kidney(11)|large_intestine(33)|lung(95)|ovary(7)|prostate(8)|skin(7)|upper_aerodigestive_tract(8)|urinary_tract(4)	204		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)		TACTCGTCGGACACCGTGTCT	0.612																																																0													12	12	12					15																	28447318		2183	4260	6443	SO:0001583	missense	8924			AF071172	CCDS10021.1	15q13	2012-02-23	2012-02-23		ENSG00000128731	ENSG00000128731			4868	protein-coding gene	gene with protein product		605837	"hect domain and RLD 2"			9949213	Standard	NM_004667		Approved	jdf2, p528, D15F37S1	uc001zbj.4	O95714	OTTHUMG00000129251	ENST00000261609.7:c.7558T>C	15.37:g.28447318A>G	ENSP00000261609:p.Ser2520Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000261609.7	37	CCDS10021.1	.	.	.	.	.	.	.	.	.	.	A	14.58	2.576880	0.45902	.	.	ENSG00000128731	ENST00000261609	T	0.41758	0.99	4.49	4.49	0.54785	.	0.121312	0.56097	D	0.000023	T	0.53546	0.1803	L	0.44542	1.39	0.80722	D	1	D	0.54601	0.967	D	0.65874	0.939	T	0.50617	-0.8807	10	0.37606	T	0.19	.	14.2901	0.66270	1.0:0.0:0.0:0.0	.	2520	O95714	HERC2_HUMAN	P	2520	ENSP00000261609:S2520P	ENSP00000261609:S2520P	S	-	1	0	HERC2	26120913	1.000000	0.71417	0.982000	0.44146	0.091000	0.18340	9.120000	0.94369	2.026000	0.59711	0.374000	0.22700	TCC		0.612	HERC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251358.2	NM_004667		G	28447318	A	G	28447318	3	3	622	1	0	0	0	0	1	0	0	0	7065	275	10	3	7134	3	HERC2	15	28447318	Missense_Mutation	SNP	A	TCGA-KL-8323-01A-21D-2310-10		28447318	74084074	40	38173										
MESDC1	59274	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	81295653	81295653	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	tctcaggctttaagggagagGtcttcgcccaggactttacc	11	11	2	1	rs527572667		TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr15:81295653G>A	ENST00000267984.2	+	1	2359	c.1041G>A	c.(1039-1041)agG>agA	p.R347R		NM_022566.2	NP_072088.1	Q9H1K6	MESD1_HUMAN	mesoderm development candidate 1	347										endometrium(1)|lung(2)	3						TAAGGGAGAGGTCTTCGCCCA	0.567																																																0													17	23	21					15																	81295653		2136	4266	6402	SO:0001819	synonymous_variant	59274			AY007810	CCDS10316.1	15q13	2008-07-18			ENSG00000140406	ENSG00000140406			13519	protein-coding gene	gene with protein product		615466				11247670	Standard	NM_022566		Approved	MGC99595	uc002bfz.3	Q9H1K6	OTTHUMG00000144185	ENST00000267984.2:c.1041G>A	15.37:g.81295653G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000267984.2	37	CCDS10316.1																																																																																				0.567	MESDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000291390.1	NM_022566		A	81295653	G	A	81295653	2	1	622	1	0	0	0	0	0	0	0	1	9487	1252	44	2		2	MESDC1	15	81295653	Silent	SNP	G	TCGA-KL-8323-01A-21D-2310-10	52848335	81295653	21235739	41	38174										
NTRK3	4916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	88727494	88727494	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	tagagctccatgtccacggcGttgagcgtgtgaagactgcg	14	10	0	4	rs536176882		TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr15:88727494G>A	ENST00000360948.2	-	3	446	c.285C>T	c.(283-285)aaC>aaT	p.N95N	NTRK3_ENST00000355254.2_Silent_p.N95N|NTRK3_ENST00000317501.3_Silent_p.N95N|NTRK3_ENST00000357724.2_Silent_p.N95N|NTRK3_ENST00000394480.2_Silent_p.N95N|NTRK3_ENST00000557856.1_Silent_p.N95N|NTRK3_ENST00000558676.1_Silent_p.N95N|NTRK3_ENST00000542733.2_De_novo_Start_OutOfFrame|NTRK3_ENST00000540489.2_Silent_p.N95N	NM_001012338.2	NP_001012338.1	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	95					activation of MAPK activity (GO:0000187)|activation of protein kinase B activity (GO:0032148)|activation of Ras GTPase activity (GO:0032856)|cellular response to retinoic acid (GO:0071300)|circadian rhythm (GO:0007623)|cochlea development (GO:0090102)|lens fiber cell differentiation (GO:0070306)|mechanoreceptor differentiation (GO:0042490)|modulation by virus of host transcription (GO:0019056)|negative regulation of astrocyte differentiation (GO:0048712)|negative regulation of cell death (GO:0060548)|negative regulation of protein phosphorylation (GO:0001933)|neuron fate specification (GO:0048665)|neuron migration (GO:0001764)|neurotrophin signaling pathway (GO:0038179)|positive regulation of actin cytoskeleton reorganization (GO:2000251)|positive regulation of axon extension involved in regeneration (GO:0048691)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of gene expression (GO:0010628)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of positive chemotaxis (GO:0050927)|protein autophosphorylation (GO:0046777)|response to axon injury (GO:0048678)|response to corticosterone (GO:0051412)|response to ethanol (GO:0045471)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|neurotrophin binding (GO:0043121)|neurotrophin receptor activity (GO:0005030)|p53 binding (GO:0002039)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)		ETV6/NTRK3(238)	breast(3)|central_nervous_system(3)|endometrium(6)|kidney(1)|large_intestine(22)|lung(63)|ovary(6)|pancreas(3)|prostate(1)|skin(4)|stomach(5)|upper_aerodigestive_tract(2)	119			BRCA - Breast invasive adenocarcinoma(143;0.211)			TGTCCACGGCGTTGAGCGTGT	0.577			T	ETV6	"congenital fibrosarcoma, Secretory breast "					TSP Lung(13;0.10)			G|||	1	0.000199681	0.0	0.0	5008	,	,		14678	0.0		0.0	False		,,,				2504	0.001						Dom	yes		15	15q25	4916	"neurotrophic tyrosine kinase, receptor, type 3"		"E, M"	0													106	78	87					15																	88727494		2201	4299	6500	SO:0001819	synonymous_variant	4916			U05012	CCDS10340.1, CCDS32322.1, CCDS32323.1, CCDS58399.1	15q24-q25	2013-01-11			ENSG00000140538	ENSG00000140538	2.7.10.1	"Immunoglobulin superfamily / I-set domain containing"	8033	protein-coding gene	gene with protein product		191316				7806211	Standard	NM_001012338		Approved	TRKC	uc002bme.2	Q16288	OTTHUMG00000148677	ENST00000360948.2:c.285C>T	15.37:g.88727494G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z4C5|E9PG56|H0YND1|O75682|Q12827|Q16289	Silent	SNP	ENST00000360948.2	37	CCDS32322.1																																																																																				0.577	NTRK3-204	KNOWN	basic|CCDS	protein_coding	protein_coding				A	88727494	G	A	88727494	2	1	622	1	0	0	0	0	0	0	0	1	10715	1136	40	1		1	NTRK3	15	88727494	Silent	SNP	G	TCGA-KL-8323-01A-21D-2310-10	7431841	88727494	13803898	42	38175										
KATNB1	10300	ucsc.edu	37	chr16	57788846	57788846	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ttccttttgcctccagacgcAgccacagcaaaggaggcagc	10	14	0	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr16:57788846A>G	ENST00000379661.3	+	14	1625	c.1233A>G	c.(1231-1233)gcA>gcG	p.A411A		NM_005886.2	NP_005877.2			katanin p80 (WD repeat containing) subunit B 1											cervix(1)|endometrium(3)|kidney(2)|large_intestine(1)|lung(6)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	16		all_neural(199;0.223)				CTCCAGACGCAGCCACAGCAA	0.612																																																0													123	128	126					16																	57788846		2198	4300	6498	SO:0001819	synonymous_variant	10300			AF052432	CCDS10788.1	16q12.2	2013-01-09	2003-03-13		ENSG00000140854	ENSG00000140854		"WD repeat domain containing"	6217	protein-coding gene	gene with protein product		602703	"katanin p80 (WD40-containing) subunit B 1"			9568719	Standard	XM_006721121		Approved		uc002eml.1	Q9BVA0	OTTHUMG00000133467	ENST00000379661.3:c.1233A>G	16.37:g.57788846A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000379661.3	37	CCDS10788.1																																																																																				0.612	KATNB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257343.3			G	57788846	A	G	57788846	2	3	622	1	0	0	0	0	0	0	0	1	7994	175	7	3		3	KATNB1	16	57788846	Silent	SNP	A	TCGA-KL-8323-01A-21D-2310-10		57788846	32565907	43	38176										
PRMT7	54496	ucsc.edu	37	chr16	68373380	68373380	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	gttgacgtggagagctgcccTggcgcaccctctgtctgtga	14	12	2	3			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr16:68373380T>C	ENST00000339507.5	+	8	1490	c.660T>C	c.(658-660)ccT>ccC	p.P220P	PRMT7_ENST00000449359.3_Silent_p.P170P|PRMT7_ENST00000348497.4_Silent_p.P146P|PRMT7_ENST00000564441.1_3'UTR|PRMT7_ENST00000441236.1_Silent_p.P170P			Q9NVM4	ANM7_HUMAN	protein arginine methyltransferase 7	220	SAM-dependent MTase PRMT-type 1. {ECO:0000255|PROSITE-ProRule:PRU01015}.				cell differentiation (GO:0030154)|DNA methylation involved in gamete generation (GO:0043046)|histone arginine methylation (GO:0034969)|histone methylation (GO:0016571)|peptidyl-arginine methylation (GO:0018216)|peptidyl-arginine methylation, to asymmetrical-dimethyl arginine (GO:0019919)|peptidyl-arginine methylation, to symmetrical-dimethyl arginine (GO:0019918)|regulation of gene expression by genetic imprinting (GO:0006349)|regulation of protein binding (GO:0043393)|regulation of transcription, DNA-templated (GO:0006355)|spliceosomal snRNP assembly (GO:0000387)|transcription, DNA-templated (GO:0006351)	cytosol (GO:0005829)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	[myelin basic protein]-arginine N-methyltransferase activity (GO:0016277)|histone binding (GO:0042393)|histone methyltransferase activity (H4-R3 specific) (GO:0044020)|histone-arginine N-methyltransferase activity (GO:0008469)|protein-arginine omega-N asymmetric methyltransferase activity (GO:0035242)|protein-arginine omega-N monomethyltransferase activity (GO:0035241)|protein-arginine omega-N symmetric methyltransferase activity (GO:0035243)|ribonucleoprotein complex binding (GO:0043021)|S-adenosylmethionine-dependent methyltransferase activity (GO:0008757)			endometrium(3)|kidney(2)|large_intestine(3)|lung(10)|pancreas(1)|urinary_tract(1)	20		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0155)|Epithelial(162;0.0629)		AGAGCTGCCCTGGCGCACCCT	0.592																																																0													113	88	96					16																	68373380		2198	4300	6498	SO:0001819	synonymous_variant	54496			AK001502	CCDS10866.1, CCDS54033.1	16q22.1	2008-02-05			ENSG00000132600	ENSG00000132600		"Protein arginine methyltransferases"	25557	protein-coding gene	gene with protein product		610087				15044439	Standard	NM_001184824		Approved	FLJ10640, KIAA1933	uc002evy.2	Q9NVM4	OTTHUMG00000137556	ENST00000339507.5:c.660T>C	16.37:g.68373380T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KPR0|B3KUG9|B4E379|Q96PV5|Q9H9L0	Silent	SNP	ENST00000339507.5	37	CCDS10866.1																																																																																				0.592	PRMT7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268892.3	NM_019023		C	68373380	T	C	68373380	2	2	622	1	0	0	0	0	0	0	0	1	12551	1567	55	3		3	PRMT7	16	68373380	Silent	SNP	T	TCGA-KL-8323-01A-21D-2310-10	10584534	68373380	21981373	44	38177										
TNFSF13	8741	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr17	7462433	7462433	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	gggcccagtcagagagccggCactctcagttgccctctggt	13	14	3	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr17:7462433C>T	ENST00000338784.4	+	1	520	c.77C>T	c.(76-78)gCa>gTa	p.A26V	SENP3_ENST00000321337.7_5'Flank|TNFSF13_ENST00000396542.1_Missense_Mutation_p.A9V|TNFSF12-TNFSF13_ENST00000293826.4_Intron|TNFSF13_ENST00000380535.4_Missense_Mutation_p.A26V|TNFSF13_ENST00000483039.1_Intron|TNFSF13_ENST00000396545.4_Missense_Mutation_p.A26V|TNFSF12_ENST00000557233.1_Intron|TNFSF13_ENST00000349228.4_Missense_Mutation_p.A26V	NM_003808.3	NP_003799.1	O75888	TNF13_HUMAN	tumor necrosis factor (ligand) superfamily, member 13	26					gene expression (GO:0010467)|immunoglobulin production in mucosal tissue (GO:0002426)|mRNA metabolic process (GO:0016071)|positive regulation of cell proliferation (GO:0008284)|positive regulation of germinal center formation (GO:0002636)|positive regulation of isotype switching to IgA isotypes (GO:0048298)|RNA metabolic process (GO:0016070)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|external side of plasma membrane (GO:0009897)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)	receptor binding (GO:0005102)			large_intestine(2)|lung(2)|skin(1)	5		Prostate(122;0.157)				AGAGAGCCGGCACTCTCAGTT	0.632																																																0													25	29	28					17																	7462433		2195	4289	6484	SO:0001583	missense	8741			AF046888	CCDS11111.1, CCDS11112.1, CCDS42256.1, CCDS56019.1, CCDS73957.1	17p13.1	2007-07-23			ENSG00000161955	ENSG00000161955		"Tumor necrosis factor (ligand) superfamily", "CD molecules"	11928	protein-coding gene	gene with protein product		604472				9743536	Standard	NM_172088		Approved	APRIL, CD256		O75888	OTTHUMG00000108145	ENST00000338784.4:c.77C>T	17.37:g.7462433C>T	ENSP00000343505:p.Ala26Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8MYD5|B4DVT2|Q541E1|Q5U0G8|Q96HV6|Q9P1M8|Q9P1M9	Missense_Mutation	SNP	ENST00000338784.4	37	CCDS11111.1	.	.	.	.	.	.	.	.	.	.	C	19.07	3.756550	0.69648	.	.	ENSG00000161955	ENST00000396542;ENST00000438470;ENST00000436057;ENST00000349228;ENST00000338784;ENST00000380535;ENST00000396545	D;T;T;D;D;D;D	0.98914	-5.18;0.9;0.9;-4.48;-4.29;-5.23;-4.3	5.17	4.18	0.49190	.	.	.	.	.	D	0.98738	0.9576	M	0.66939	2.045	0.33660	D	0.609558	D;D;D;D;D	0.71674	0.997;0.997;0.996;0.997;0.998	D;D;D;D;D	0.80764	0.985;0.985;0.99;0.985;0.994	D	0.99954	1.1603	9	0.72032	D	0.01	.	11.951	0.52954	0.0:0.8246:0.1754:0.0	.	26;26;26;26;26	B4DVT2;Q2QBA2;O75888-2;O75888;O75888-3	.;.;.;TNF13_HUMAN;.	V	9;9;9;26;26;26;26	ENSP00000379792:A9V;ENSP00000390771:A9V;ENSP00000410094:A9V;ENSP00000314455:A26V;ENSP00000343505:A26V;ENSP00000369908:A26V;ENSP00000379794:A26V	ENSP00000343505:A26V	A	+	2	0	TNFSF13	7403157	0.961000	0.32948	1.000000	0.80357	0.960000	0.62799	3.662000	0.54510	1.272000	0.44329	0.655000	0.94253	GCA		0.632	TNFSF13-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000226948.2	NM_003808		T	7462433	C	T	7462433	3	4	622	1	0	0	0	0	1	0	0	0	16317	710	25	2	79	2	TNFSF13	17	7462433	Missense_Mutation	SNP	C	TCGA-KL-8323-01A-21D-2310-10		7462433	73732777	45	38178										
MAPK7	5598	broad.mit.edu;mdanderson.org	37	chr17	19284374	19284374	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ctgggtaccccatcaccagcCgtgattcaggctgtgggggc	14	13	2	1	rs145605078		TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr17:19284374C>T	ENST00000308406.5	+	4	1238	c.852C>T	c.(850-852)gcC>gcT	p.A284A	MAPK7_ENST00000571657.1_Intron|B9D1_ENST00000477478.2_5'Flank|MFAP4_ENST00000574313.2_5'Flank|MAPK7_ENST00000395602.4_Silent_p.A284A|MAPK7_ENST00000299612.7_Silent_p.A145A|B9D1_ENST00000575403.1_5'Flank|MAPK7_ENST00000395604.3_Silent_p.A284A	NM_139033.2	NP_620602.2	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7	284	Necessary for oligomerization. {ECO:0000250}.|Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cAMP-mediated signaling (GO:0019933)|cell cycle (GO:0007049)|cell differentiation (GO:0030154)|cellular response to growth factor stimulus (GO:0071363)|cellular response to hydrogen peroxide (GO:0070301)|cellular response to laminar fluid shear stress (GO:0071499)|cellular response to transforming growth factor beta stimulus (GO:0071560)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of cAMP catabolic process (GO:0030821)|negative regulation of cyclic-nucleotide phosphodiesterase activity (GO:0051344)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of heterotypic cell-cell adhesion (GO:0034115)|negative regulation of inflammatory response (GO:0050728)|negative regulation of NFAT protein import into nucleus (GO:0051534)|negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902176)|negative regulation of response to cytokine stimulus (GO:0060761)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-serine phosphorylation (GO:0018105)|positive regulation of protein metabolic process (GO:0051247)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription from RNA polymerase II promoter in response to stress (GO:0036003)|regulation of angiogenesis (GO:0045765)|signal transduction (GO:0007165)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)	ATP binding (GO:0005524)|MAP kinase activity (GO:0004707)|mitogen-activated protein kinase binding (GO:0051019)			autonomic_ganglia(1)|central_nervous_system(4)|endometrium(5)|kidney(2)|large_intestine(4)|lung(9)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	30	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					CATCACCAGCCGTGATTCAGG	0.607																																																0								C	,,,	1,4405	2.1+/-5.4	0,1,2202	36	39	38		852,435,852,852	-5.6	0.4	17	dbSNP_134	38	0,8600		0,0,4300	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	MAPK7	NM_002749.3,NM_139032.2,NM_139033.2,NM_139034.2	,,,	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	,,,	284/817,145/678,284/817,284/817	19284374	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	5598			U25278	CCDS11206.1, CCDS11207.1	17p11.2	2011-06-09			ENSG00000166484	ENSG00000166484	2.7.11.24	"Mitogen-activated protein kinase cascade / Kinases"	6880	protein-coding gene	gene with protein product	"BMK1 kinase", "extracellular-signal-regulated kinase 5"	602521		PRKM7		10072598, 7759517	Standard	NM_139032		Approved	BMK1, ERK5	uc002gvp.3	Q13164	OTTHUMG00000059587	ENST00000308406.5:c.852C>T	17.37:g.19284374C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q16634|Q59F50|Q6QLU7|Q7L4P4|Q969G1|Q96G51	Silent	SNP	ENST00000308406.5	37	CCDS11206.1																																																																																				0.607	MAPK7-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132506.1	NM_139033		T	19284374	C	T	19284374	2	4	622	1	0	0	0	0	0	0	0	1	9289	639	23	1		1	MAPK7	17	19284374	Silent	SNP	C	TCGA-KL-8323-01A-21D-2310-10	11821941	19284374	61910836	46	38179										
SPAG5	10615	broad.mit.edu	37	chr17	26910630	26910630	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ccgtgttttctccagatcttGctcctggttatctgctatgg	9	11	3	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr17:26910630G>T	ENST00000321765.5	-	15	2916	c.2584C>A	c.(2584-2586)Caa>Aaa	p.Q862K		NM_006461.3	NP_006452.3	Q96R06	SPAG5_HUMAN	sperm associated antigen 5	862					chromosome segregation (GO:0007059)|mitotic sister chromatid segregation (GO:0000070)|regulation of attachment of spindle microtubules to kinetochore (GO:0051988)|spindle organization (GO:0007051)	cytoplasm (GO:0005737)|kinetochore (GO:0000776)|microtubule plus-end (GO:0035371)|mitotic spindle (GO:0072686)				NS(1)|breast(3)|central_nervous_system(1)|endometrium(5)|kidney(4)|large_intestine(8)|lung(17)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	43	Lung NSC(42;0.00431)					TCCAGATCTTGCTCCTGGTTA	0.463																																																0													166	145	152					17																	26910630		2203	4300	6503	SO:0001583	missense	10615			AF063308	CCDS32594.1	17q11.2	2008-07-18			ENSG00000076382	ENSG00000076382			13452	protein-coding gene	gene with protein product	"mitotic spindle coiled-coil related protein", "astrin", "mitotic spindle associated protein p126"	615562				11549262	Standard	NM_006461		Approved	DEEPEST, MAP126, hMAP126	uc002hbq.3	Q96R06	OTTHUMG00000166586	ENST00000321765.5:c.2584C>A	17.37:g.26910630G>T	ENSP00000323300:p.Gln862Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O95213|Q9BWE8|Q9NT17|Q9UFE6	Missense_Mutation	SNP	ENST00000321765.5	37	CCDS32594.1	.	.	.	.	.	.	.	.	.	.	G	12.42	1.933531	0.34096	.	.	ENSG00000076382;ENSG00000258472	ENST00000321765;ENST00000531839	T;T	0.32515	1.45;1.45	5.17	3.07	0.35406	.	0.687189	0.13323	N	0.396492	T	0.24774	0.0601	L	0.32530	0.975	0.21290	N	0.999732	B;B	0.11235	0.004;0.0	B;B	0.08055	0.003;0.001	T	0.22977	-1.0201	10	0.87932	D	0	0.2695	11.0107	0.47661	0.0:0.0:0.627:0.373	.	267;862	E9PMD0;Q96R06	.;SPAG5_HUMAN	K	862;267	ENSP00000323300:Q862K;ENSP00000431165:Q267K	ENSP00000431165:Q267K	Q	-	1	0	SPAG5;RP11-192H23.4	23934757	0.966000	0.33281	0.403000	0.26384	0.941000	0.58515	1.752000	0.38349	0.740000	0.32651	0.650000	0.86243	CAA		0.463	SPAG5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390564.2	NM_006461		T	26910630	G	T	26910630	3	4	622	1	0	0	0	0	1	0	0	0	14994	1328	46	4	1037	4	SPAG5	17	26910630	Missense_Mutation	SNP	G	TCGA-KL-8323-01A-21D-2310-10	7626256	26910630	54284580	47	38180										
SOCS7	30837	broad.mit.edu	37	chr17	36520640	36520640	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ccatgaatccctcaggtgaaActgtgtcgcttgtggatgtg	12	9	1	2			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr17:36520640A>G	ENST00000577233.1	+	3	859	c.859A>G	c.(859-861)Act>Gct	p.T287A	SOCS7_ENST00000331159.5_Missense_Mutation_p.T287A	NM_014598.2	NP_055413.1	O14512	SOCS7_HUMAN	suppressor of cytokine signaling 7	287	Mediates interaction with SORBS3.				fat cell differentiation (GO:0045444)|insulin receptor signaling pathway (GO:0008286)|intracellular signal transduction (GO:0035556)|negative regulation of signal transduction (GO:0009968)|protein ubiquitination (GO:0016567)|regulation of growth (GO:0040008)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	SH3 domain binding (GO:0017124)			central_nervous_system(1)|endometrium(1)|kidney(1)|prostate(1)|skin(5)	9	Breast(7;3.47e-17)					CTCAGGTGAAACTGTGTCGCT	0.572																																																0													145	123	130					17																	36520640		2203	4300	6503	SO:0001583	missense	30837			AB005216	CCDS32637.1	17q12	2014-08-12			ENSG00000274211	ENSG00000274211		"Suppressors of cytokine signaling", "SH2 domain containing"	29846	protein-coding gene	gene with protein product	"Nck, Ash and phospholipase C binding protein", "NCK-associated protein 4"	608788				9344857, 12076535	Standard	XM_005257264		Approved	NAP4, NCKAP4	uc002hqa.3	O14512	OTTHUMG00000188546	ENST00000577233.1:c.859A>G	17.37:g.36520640A>G	ENSP00000464034:p.Thr287Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A2VCU2|Q0IJ63	Missense_Mutation	SNP	ENST00000577233.1	37	CCDS32637.1	.	.	.	.	.	.	.	.	.	.	A	11.29	1.594183	0.28445	.	.	ENSG00000174111	ENST00000331159	T	0.66815	-0.23	6.06	4.96	0.65561	.	1.199420	0.05838	N	0.618771	T	0.67748	0.2926	L	0.58101	1.795	0.51233	D	0.999913	P;P	0.41393	0.748;0.748	B;B	0.38842	0.283;0.283	T	0.55617	-0.8113	10	0.54805	T	0.06	-6.8465	13.1442	0.59452	0.8664:0.1336:0.0:0.0	.	37;287	B5MDS8;O14512	.;SOCS7_HUMAN	A	287	ENSP00000330659:T287A	ENSP00000330659:T287A	T	+	1	0	SOCS7	33774166	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	8.858000	0.92256	1.077000	0.40990	0.533000	0.62120	ACT		0.572	SOCS7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440486.4	XM_371052		G	36520640	A	G	36520640	3	3	622	1	0	0	0	0	1	0	0	0	14932	43	2	3	869	3	SOCS7	17	36520640	Missense_Mutation	SNP	A	TCGA-KL-8323-01A-21D-2310-10	9610010	36520640	44674570	48	38181										
KRT20	54474	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr17	39041356	39041356	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	gctgggtgtcgtcccgaggcGctgcatgcccactgtactga	14	13	0	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr17:39041356G>A	ENST00000167588.3	-	1	123	c.82C>T	c.(82-84)Cgc>Tgc	p.R28C		NM_019010.2	NP_061883.1	P35900	K1C20_HUMAN	keratin 20	28	Head.				apoptotic process (GO:0006915)|cellular response to stress (GO:0033554)|intermediate filament organization (GO:0045109)|regulation of protein secretion (GO:0050708)	cytoplasm (GO:0005737)|intermediate filament (GO:0005882)	structural constituent of cytoskeleton (GO:0005200)			NS(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(5)|skin(1)	14		Breast(137;0.000301)|Ovarian(249;0.15)				GTCCCGAGGCGCTGCATGCCC	0.597																																																0													36	36	36					17																	39041356		2203	4300	6503	SO:0001583	missense	54474			BC031559	CCDS11379.1	17q21.2	2013-01-16			ENSG00000171431	ENSG00000171431		"-", "Intermediate filaments type I, keratins (acidic)"	20412	protein-coding gene	gene with protein product		608218				8359595, 12515621, 16831889	Standard	NM_019010		Approved	CK20, K20, MGC35423	uc002hvl.3	P35900	OTTHUMG00000133366	ENST00000167588.3:c.82C>T	17.37:g.39041356G>A	ENSP00000167588:p.Arg28Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6W7	Missense_Mutation	SNP	ENST00000167588.3	37	CCDS11379.1	.	.	.	.	.	.	.	.	.	.	G	16.28	3.077922	0.55753	.	.	ENSG00000171431	ENST00000167588	D	0.84070	-1.8	5.17	1.94	0.25998	.	1.630110	0.03448	N	0.210284	T	0.69842	0.3156	N	0.14661	0.345	0.09310	N	0.99999	B	0.10296	0.003	B	0.04013	0.001	T	0.58323	-0.7656	10	0.38643	T	0.18	.	4.8168	0.13371	0.0849:0.1149:0.5878:0.2124	.	28	P35900	K1C20_HUMAN	C	28	ENSP00000167588:R28C	ENSP00000167588:R28C	R	-	1	0	KRT20	36294882	0.999000	0.42202	0.609000	0.28983	0.014000	0.08584	1.653000	0.37323	1.332000	0.45431	0.655000	0.94253	CGC		0.597	KRT20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257202.2			A	39041356	G	A	39041356	3	1	622	1	0	0	0	0	1	0	0	0	8465	1087	38	1	1224	1	KRT20	17	39041356	Missense_Mutation	SNP	G	TCGA-KL-8323-01A-21D-2310-10	2520716	39041356	42153854	49	38182										
ITGA3	3675	bcgsc.ca	37	chr17	48165656	48165656	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	gaggcagaaggcggagatgaAgagccagccgtcagagacag	17	8	1	5			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr17:48165656A>G	ENST00000320031.8	+	25	3443	c.3113A>G	c.(3112-3114)aAg>aGg	p.K1038R	ITGA3_ENST00000007722.7_Intron	NM_002204.2|NM_005501.2	NP_002195.1|NP_005492.1	P26006	ITA3_HUMAN	integrin, alpha 3 (antigen CD49C, alpha 3 subunit of VLA-3 receptor)	1038					blood coagulation (GO:0007596)|cell-matrix adhesion (GO:0007160)|extracellular matrix organization (GO:0030198)|heart development (GO:0007507)|integrin-mediated signaling pathway (GO:0007229)|leukocyte migration (GO:0050900)|lung development (GO:0030324)|maternal process involved in female pregnancy (GO:0060135)|memory (GO:0007613)|mesodermal cell differentiation (GO:0048333)|negative regulation of cell projection organization (GO:0031345)|nephron development (GO:0072006)|neuron migration (GO:0001764)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of epithelial cell migration (GO:0010634)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of gene expression (GO:0010628)|positive regulation of neuron projection development (GO:0010976)|regulation of BMP signaling pathway (GO:0030510)|regulation of transforming growth factor beta receptor signaling pathway (GO:0017015)|regulation of Wnt signaling pathway (GO:0030111)|renal filtration (GO:0097205)|response to drug (GO:0042493)|response to gonadotropin (GO:0034698)|skin development (GO:0043588)	basolateral plasma membrane (GO:0016323)|cell periphery (GO:0071944)|cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|filopodium membrane (GO:0031527)|focal adhesion (GO:0005925)|growth cone (GO:0030426)|integrin alpha3-beta1 complex (GO:0034667)|integrin complex (GO:0008305)|invadopodium membrane (GO:0071438)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|synapse (GO:0045202)	glycoprotein binding (GO:0001948)|metal ion binding (GO:0046872)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)			endometrium(3)|kidney(2)|large_intestine(7)|lung(11)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|stomach(2)	31						GCGGAGATGAAGAGCCAGCCG	0.682																																																0													14	16	15					17																	48165656		2183	4271	6454	SO:0001583	missense	3675			M59911	CCDS11557.1, CCDS11558.1	17q21.33	2010-03-23	2003-10-13		ENSG00000005884	ENSG00000005884		"CD molecules", "Integrins"	6139	protein-coding gene	gene with protein product		605025	"antigen identified by monoclonal antibody J143"	MSK18		1655803, 9704023	Standard	NM_005501		Approved	CD49c, VLA3a, VCA-2, GAP-B3	uc010dbm.3	P26006	OTTHUMG00000161890	ENST00000320031.8:c.3113A>G	17.37:g.48165656A>G	ENSP00000315190:p.Lys1038Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A7E246|B7ZM80|B9EGQ1|D3DTX4|D3DTX5	Missense_Mutation	SNP	ENST00000320031.8	37	CCDS11558.1	.	.	.	.	.	.	.	.	.	.	A	7.011	0.556719	0.13436	.	.	ENSG00000005884	ENST00000538917;ENST00000320031	T	0.23348	1.91	5.1	1.61	0.23674	.	.	.	.	.	T	0.06462	0.0166	N	0.01352	-0.895	0.80722	D	1	B	0.18461	0.028	B	0.13407	0.009	T	0.36480	-0.9746	9	0.02654	T	1	.	7.2659	0.26229	0.7307:0.0:0.2693:0.0	.	1038	P26006	ITA3_HUMAN	R	1024;1038	ENSP00000315190:K1038R	ENSP00000315190:K1038R	K	+	2	0	ITGA3	45520655	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	3.238000	0.51352	0.264000	0.21851	0.379000	0.24179	AAG		0.682	ITGA3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000366298.1	NM_005501		G	48165656	A	G	48165656	3	3	622	1	0	0	0	0	1	0	0	0	7884	72	3	3	3211	3	ITGA3	17	48165656	Missense_Mutation	SNP	A	TCGA-KL-8323-01A-21D-2310-10	9124300	48165656	33029554	50	38183										
SMURF2	64750	bcgsc.ca	37	chr17	62579654	62579654	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ttccagaggcggttctccttTcttcccagcttaaataaaaa	6	11	2	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr17:62579654T>C	ENST00000262435.9	-	7	681	c.494A>G	c.(493-495)gAa>gGa	p.E165G	SMURF2_ENST00000578200.1_Intron	NM_022739.3	NP_073576.1	Q9HAU4	SMUF2_HUMAN	SMAD specific E3 ubiquitin protein ligase 2	165	WW 1. {ECO:0000255|PROSITE- ProRule:PRU00224}.				BMP signaling pathway (GO:0030509)|gene expression (GO:0010467)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|regulation of transforming growth factor beta receptor signaling pathway (GO:0017015)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|ubiquitin-dependent protein catabolic process (GO:0006511)|ubiquitin-dependent SMAD protein catabolic process (GO:0030579)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ubiquitin ligase complex (GO:0000151)	identical protein binding (GO:0042802)|ligase activity (GO:0016874)|SMAD binding (GO:0046332)|ubiquitin-protein transferase activity (GO:0004842)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(2)|lung(6)|prostate(1)|skin(4)	22	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;9.88e-12)			GGTTCTCCTTTCTTCCCAGCT	0.398																																																0													113	98	103					17																	62579654		2203	4300	6503	SO:0001583	missense	64750			AF301463	CCDS32707.1	17q22-q23	2012-10-05			ENSG00000108854	ENSG00000108854			16809	protein-coding gene	gene with protein product		605532				11016919	Standard	XM_005257585		Approved		uc002jep.1	Q9HAU4	OTTHUMG00000179189	ENST00000262435.9:c.494A>G	17.37:g.62579654T>C	ENSP00000262435:p.Glu165Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LL1|Q9H260	Missense_Mutation	SNP	ENST00000262435.9	37	CCDS32707.1	.	.	.	.	.	.	.	.	.	.	T	14.60	2.585245	0.46110	.	.	ENSG00000108854	ENST00000262435	D	0.85171	-1.95	5.06	5.06	0.68205	WW/Rsp5/WWP (5);	0.093513	0.64402	D	0.000001	D	0.88941	0.6574	M	0.93720	3.45	0.80722	D	1	B	0.22983	0.078	B	0.22880	0.042	D	0.87742	0.2586	10	0.44086	T	0.13	.	15.1061	0.72322	0.0:0.0:0.0:1.0	.	165	Q9HAU4	SMUF2_HUMAN	G	165	ENSP00000262435:E165G	ENSP00000262435:E165G	E	-	2	0	SMURF2	60010116	1.000000	0.71417	1.000000	0.80357	0.931000	0.56810	7.359000	0.79477	2.024000	0.59613	0.477000	0.44152	GAA		0.398	SMURF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445227.1	NM_022739		C	62579654	T	C	62579654	3	2	622	1	0	0	0	0	1	0	0	0	14833	1783	62	3	1804	3	SMURF2	17	62579654	Missense_Mutation	SNP	T	TCGA-KL-8323-01A-21D-2310-10	14413998	62579654	18615556	51	38184										
GAA	2548	broad.mit.edu	37	chr17	78082576	78082576	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	gatggcttccgggacttcccGgccatggtgcaggagctgca	15	12	0	0			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr17:78082576G>A	ENST00000302262.3	+	8	1494	c.1275G>A	c.(1273-1275)ccG>ccA	p.P425P	GAA_ENST00000390015.3_Silent_p.P425P	NM_000152.3	NP_000143.2	P10253	LYAG_HUMAN	glucosidase, alpha; acid	425					cardiac muscle contraction (GO:0060048)|diaphragm contraction (GO:0002086)|glucose metabolic process (GO:0006006)|glycogen catabolic process (GO:0005980)|heart morphogenesis (GO:0003007)|locomotory behavior (GO:0007626)|lysosome organization (GO:0007040)|maltose metabolic process (GO:0000023)|muscle cell cellular homeostasis (GO:0046716)|neuromuscular process controlling balance (GO:0050885)|neuromuscular process controlling posture (GO:0050884)|regulation of the force of heart contraction (GO:0002026)|sucrose metabolic process (GO:0005985)|tissue development (GO:0009888)|vacuolar sequestering (GO:0043181)	extracellular vesicular exosome (GO:0070062)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|membrane (GO:0016020)	alpha-1,4-glucosidase activity (GO:0004558)|carbohydrate binding (GO:0030246)|maltose alpha-glucosidase activity (GO:0032450)			autonomic_ganglia(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|lung(6)|ovary(2)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	21	all_neural(118;0.117)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.139)		Acarbose(DB00284)|Miglitol(DB00491)	GGGACTTCCCGGCCATGGTGC	0.647																																																0													25	21	23					17																	78082576		2198	4298	6496	SO:0001819	synonymous_variant	2548				CCDS32760.1	17q25.2-q25.3	2014-09-17	2008-08-01				3.2.1.20		4065	protein-coding gene	gene with protein product	"Pompe disease", "glycogen storage disease type II"	606800					Standard	NM_000152		Approved		uc002jxq.3	P10253		ENST00000302262.3:c.1275G>A	17.37:g.78082576G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q09GN4|Q14351|Q16302|Q8IWE7	Silent	SNP	ENST00000302262.3	37	CCDS32760.1																																																																																				0.647	GAA-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437441.1			A	78082576	G	A	78082576	2	1	622	1	0	0	0	0	0	0	0	1	6154	1103	39	1		1	GAA	17	78082576	Silent	SNP	G	TCGA-KL-8323-01A-21D-2310-10	15502922	78082576	3112634	52	38185										
LMAN1	3998	broad.mit.edu	37	chr18	57022610	57022610	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ccacagatcagctgatccaaAcacagggccctccaagcctt	7	16	1	2			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr18:57022610A>G	ENST00000251047.5	-	3	1129	c.412T>C	c.(412-414)Ttt>Ctt	p.F138L		NM_005570.3	NP_005561.1	P49257	LMAN1_HUMAN	lectin, mannose-binding, 1	138	L-type lectin-like. {ECO:0000255|PROSITE- ProRule:PRU00658}.				blood coagulation (GO:0007596)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum organization (GO:0007029)|ER to Golgi vesicle-mediated transport (GO:0006888)|Golgi organization (GO:0007030)|positive regulation of organelle organization (GO:0010638)|post-translational protein modification (GO:0043687)|protein folding (GO:0006457)|protein N-linked glycosylation via asparagine (GO:0018279)|protein transport (GO:0015031)	endoplasmic reticulum membrane (GO:0005789)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|ER to Golgi transport vesicle membrane (GO:0012507)|extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|sarcomere (GO:0030017)	mannose binding (GO:0005537)|metal ion binding (GO:0046872)|unfolded protein binding (GO:0051082)			breast(2)|endometrium(1)|kidney(2)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)|skin(1)	16		Colorectal(73;0.0946)			Antihemophilic Factor(DB00025)	GCTGATCCAAACACAGGGCCC	0.368																																																0													86	78	80					18																	57022610		2203	4300	6503	SO:0001583	missense	3998			X71661	CCDS11974.1	18q21.3-q22	2014-09-17	2002-08-30		ENSG00000074695	ENSG00000074695			6631	protein-coding gene	gene with protein product	"endoplasmic reticulum-golgi intermediate compartment protein 53"	601567	"coagulation factor V-factor VIII combined deficiency"	F5F8D		9546392, 8854877	Standard	NM_005570		Approved	MR60, ERGIC-53, ERGIC53, gp58, MCFD1, FMFD1	uc002lhz.3	P49257	OTTHUMG00000132758	ENST00000251047.5:c.412T>C	18.37:g.57022610A>G	ENSP00000251047:p.Phe138Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q12895|Q8N5I7|Q9UQG1|Q9UQG2|Q9UQG3|Q9UQG4|Q9UQG5|Q9UQG6|Q9UQG7|Q9UQG8|Q9UQG9|Q9UQH0|Q9UQH1|Q9UQH2	Missense_Mutation	SNP	ENST00000251047.5	37	CCDS11974.1	.	.	.	.	.	.	.	.	.	.	A	28.4	4.918353	0.92249	.	.	ENSG00000074695	ENST00000251047	T	0.75589	-0.95	5.52	5.52	0.82312	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);	0.060560	0.64402	D	0.000001	D	0.85331	0.5672	M	0.78344	2.41	0.58432	D	0.999999	P;B	0.36753	0.568;0.197	P;B	0.55871	0.786;0.413	D	0.85384	0.1121	10	0.49607	T	0.09	-15.3839	15.338	0.74273	1.0:0.0:0.0:0.0	.	138;138	B4DVV0;P49257	.;LMAN1_HUMAN	L	138	ENSP00000251047:F138L	ENSP00000251047:F138L	F	-	1	0	LMAN1	55173590	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.691000	0.91279	2.099000	0.63709	0.533000	0.62120	TTT		0.368	LMAN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256129.2	NM_005570		G	57022610	A	G	57022610	3	3	622	1	0	0	0	0	1	0	0	0	8843	43	2	3	1164	3	LMAN1	18	57022610	Missense_Mutation	SNP	A	TCGA-KL-8323-01A-21D-2310-10		57022610	21054638	53	38186										
HMHA1	23526	broad.mit.edu;mdanderson.org	37	chr19	1084344	1084344	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	gcggcggcggacgggtgcagAggtgagtgtgtggctgcccg	22	9	0	2			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr19:1084344A>G	ENST00000313093.2	+	22	3294	c.3063A>G	c.(3061-3063)agA>agG	p.R1021R	HMHA1_ENST00000590214.1_Splice_Site_p.R1048R|HMHA1_ENST00000543365.1_Splice_Site_p.R904R|HMHA1_ENST00000536472.1_Splice_Site_p.R889R|HMHA1_ENST00000586866.1_Splice_Site_p.R1025R|HMHA1_ENST00000539243.2_Splice_Site_p.R1037R|HMHA1_ENST00000590577.1_Splice_Site_p.R656R|HMHA1_ENST00000591169.1_3'UTR	NM_012292.3	NP_036424.2	Q92619	HMHA1_HUMAN	histocompatibility (minor) HA-1	1021					regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)	GTPase activator activity (GO:0005096)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|lung(7)|ovary(1)|prostate(2)	16		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACGGGTGCAGAGGTGAGTGTG	0.682																																																0													36	39	38					19																	1084344		2200	4299	6499	SO:0001630	splice_region_variant	23526			D86976	CCDS32863.1, CCDS58637.1, CCDS74242.1, CCDS74243.1	19p13.3	2011-09-07				ENSG00000180448		"Rho GTPase activating proteins"	17102	protein-coding gene	gene with protein product		601155				9820596, 9039502	Standard	NM_012292		Approved	KIAA0223, HA-1, ARHGAP45	uc010xgd.2	Q92619		ENST00000313093.2:c.3064+1A>G	19.37:g.1084344A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DTS4|F6QP70|Q6P189|Q7LE26|Q86WS1|Q8HX84|Q9GJN9|Q9GJP0|Q9GJP1|Q9MY24	Silent	SNP	ENST00000313093.2	37	CCDS32863.1																																																																																				0.682	HMHA1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458026.1		Silent	G	1084344	A	G	1084344	5	3	622	1	0	0	0	0	0	0	1	0	7247	318	11	3	3149	3	HMHA1	19	1084344	Splice_Site	SNP	A	TCGA-KL-8323-01A-21D-2310-10		1084344	58044639	54	38187										
CACNA1A	773	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	13476272	13476272	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	cttcatgatcgacttcaggaCgacttgtaaacctgggggga	12	9	2	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr19:13476272C>T	ENST00000360228.5	-	5	642	c.643G>A	c.(643-645)Gtc>Atc	p.V215I	CACNA1A_ENST00000573710.2_Missense_Mutation_p.V215I	NM_000068.3|NM_001127222.1|NM_001174080.1|NM_023035.2	NP_000059.3|NP_001120694.1|NP_001167551.1|NP_075461.2	O00555	CAC1A_HUMAN	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	215					adult walking behavior (GO:0007628)|behavioral response to pain (GO:0048266)|calcium ion import (GO:0070509)|calcium ion-dependent exocytosis (GO:0017156)|calcium ion-dependent exocytosis of neurotransmitter (GO:0048791)|cell death (GO:0008219)|cell growth (GO:0016049)|cellular chloride ion homeostasis (GO:0030644)|cerebellar molecular layer development (GO:0021679)|cerebellar Purkinje cell differentiation (GO:0021702)|cerebellum maturation (GO:0021590)|dendrite morphogenesis (GO:0048813)|energy reserve metabolic process (GO:0006112)|gamma-aminobutyric acid secretion (GO:0014051)|gamma-aminobutyric acid signaling pathway (GO:0007214)|glucose metabolic process (GO:0006006)|hormone metabolic process (GO:0042445)|membrane depolarization (GO:0051899)|membrane depolarization during action potential (GO:0086010)|musculoskeletal movement, spinal reflex action (GO:0050883)|negative regulation of hormone biosynthetic process (GO:0032353)|negative regulation of neuron apoptotic process (GO:0043524)|neuromuscular process controlling balance (GO:0050885)|neuromuscular synaptic transmission (GO:0007274)|neurotransmitter metabolic process (GO:0042133)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|receptor clustering (GO:0043113)|regulation of acetylcholine secretion, neurotransmission (GO:0014056)|regulation of axonogenesis (GO:0050770)|regulation of calcium ion-dependent exocytosis (GO:0017158)|regulation of insulin secretion (GO:0050796)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|spinal cord motor neuron differentiation (GO:0021522)|sulfur amino acid metabolic process (GO:0000096)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transmission of nerve impulse (GO:0019226)|vestibular nucleus development (GO:0021750)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|syntaxin binding (GO:0019905)|voltage-gated calcium channel activity (GO:0005245)			breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(25)|prostate(2)|urinary_tract(1)	42			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Loperamide(DB00836)|Pregabalin(DB00230)|Spironolactone(DB00421)|Verapamil(DB00661)	GACTTCAGGACGACTTGTAAA	0.502																																																0													47	47	47					19																	13476272		1920	4135	6055	SO:0001583	missense	773			U79666	CCDS45998.1, CCDS45999.1	19p13	2014-09-17			ENSG00000141837	ENSG00000141837		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1388	protein-coding gene	gene with protein product		601011		CACNL1A4, SCA6, MHP1, MHP		8825650, 16382099, 23827678	Standard	NM_000068		Approved	Cav2.1, EA2, APCA, HPCA, FHM	uc010xne.2	O00555	OTTHUMG00000044590	ENST00000360228.5:c.643G>A	19.37:g.13476272C>T	ENSP00000353362:p.Val215Ile	Somatic		WXS	Illumina HiSeq	Phase_I	J3KP41|P78510|P78511|Q16290|Q92690|Q99790|Q99791|Q99792|Q99793|Q9NS88|Q9UDC4	Missense_Mutation	SNP	ENST00000360228.5	37	CCDS45998.1	.	.	.	.	.	.	.	.	.	.	C	18.49	3.636162	0.67130	.	.	ENSG00000141837	ENST00000360228;ENST00000418012;ENST00000357018;ENST00000325084	D	0.98381	-4.9	5.55	4.52	0.55395	Ion transport (1);	0.000000	0.64402	D	0.000001	D	0.97303	0.9118	L	0.57536	1.79	0.46356	D	0.999	P;D	0.58268	0.951;0.982	B;P	0.47941	0.32;0.562	D	0.96952	0.9695	10	0.72032	D	0.01	.	13.3098	0.60374	0.0:0.9229:0.0:0.0771	.	215;215	O00555;Q9NS88	CAC1A_HUMAN;.	I	215	ENSP00000353362:V215I	ENSP00000317661:V215I	V	-	1	0	CACNA1A	13337272	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.585000	0.82584	1.347000	0.45714	-0.136000	0.14681	GTC		0.502	CACNA1A-001	KNOWN	non_canonical_U12|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000104062.2	NM_000068		T	13476272	C	T	13476272	3	4	622	1	0	0	0	0	1	0	0	0	2540	536	19	1	7163	1	CACNA1A	19	13476272	Missense_Mutation	SNP	C	TCGA-KL-8323-01A-21D-2310-10	12391928	13476272	45652711	55	38188										
ZNF257	113835	broad.mit.edu	37	chr19	22256335	22256335	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	ggaaaagagccctgtaatatGaagagacatgagatggtagc	13	5	0	4			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr19:22256335G>A	ENST00000594947.1	+	3	339	c.195G>A	c.(193-195)atG>atA	p.M65I	ZNF257_ENST00000600162.1_Missense_Mutation_p.M65I	NM_033468.2	NP_258429.2	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	65	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			haematopoietic_and_lymphoid_tissue(2)|lung(4)	6		all_lung(12;0.0961)|Lung NSC(12;0.103)				CCTGTAATATGAAGAGACATG	0.448																																																0													139	151	147					19																	22256335		2203	4300	6503	SO:0001583	missense	113835			AF070651	CCDS46030.1	19p12	2014-02-14			ENSG00000197134	ENSG00000197134		"Zinc fingers, C2H2-type", "-"	13498	protein-coding gene	gene with protein product		606957				10585455	Standard	NM_033468		Approved	BMZF-4	uc010ecx.3	Q9Y2Q1	OTTHUMG00000182927	ENST00000594947.1:c.195G>A	19.37:g.22256335G>A	ENSP00000470209:p.Met65Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPS4|E9PG34|Q8NE34	Missense_Mutation	SNP	ENST00000594947.1	37	CCDS46030.1	.	.	.	.	.	.	.	.	.	.	G	0.570	-0.841484	0.02692	.	.	ENSG00000197134	ENST00000435820;ENST00000397123	.	.	.	0.195	-0.39	0.12450	Krueppel-associated box (1);	.	.	.	.	T	0.14184	0.0343	N	0.04387	-0.21	0.09310	N	1	B	0.16396	0.017	B	0.13407	0.009	T	0.19224	-1.0312	7	0.35671	T	0.21	.	.	.	.	.	65	Q9Y2Q1	ZN257_HUMAN	I	65	.	ENSP00000380312:M65I	M	+	3	0	ZNF257	22048175	0.005000	0.15991	0.022000	0.16811	0.022000	0.10575	0.268000	0.18571	-0.697000	0.05092	-0.683000	0.03753	ATG		0.448	ZNF257-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464382.1			A	22256335	G	A	22256335	3	1	622	1	0	0	0	0	1	0	0	0	17812	1290	45	2	205	2	ZNF257	19	22256335	Missense_Mutation	SNP	G	TCGA-KL-8323-01A-21D-2310-10	8780063	22256335	36872648	56	38189										
FFAR1	2864	broad.mit.edu	37	chr19	35842701	35842701	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	cctcgctgtgccccgtcttcGcggtggcccacttcttccca	9	19	2	0			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr19:35842701G>A	ENST00000246553.2	+	1	257	c.247G>A	c.(247-249)Gcg>Acg	p.A83T		NM_005303.2	NP_005294.1	O14842	FFAR1_HUMAN	free fatty acid receptor 1	83					energy reserve metabolic process (GO:0006112)|G-protein coupled receptor signaling pathway (GO:0007186)|glucose homeostasis (GO:0042593)|insulin secretion (GO:0030073)|positive regulation of GTPase activity (GO:0043547)|regulation of insulin secretion (GO:0050796)|small molecule metabolic process (GO:0044281)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|guanyl-nucleotide exchange factor activity (GO:0005085)|lipid binding (GO:0008289)			central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(1)|lung(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	10	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;4.58e-20)|OV - Ovarian serous cystadenocarcinoma(14;6.67e-19)|all cancers(14;2.01e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)		Icosapent(DB00159)	CCCCGTCTTCGCGGTGGCCCA	0.701																																																0													13	13	13					19																	35842701		2192	4282	6474	SO:0001583	missense	2864			AF024687	CCDS12458.1	19q13.1	2012-08-08	2006-02-15	2006-02-15	ENSG00000126266	ENSG00000126266		"GPCR / Class A : Fatty acid receptors"	4498	protein-coding gene	gene with protein product		603820	"G protein-coupled receptor 40"	GPR40		15684720	Standard	NM_005303		Approved	FFA1R	uc002nzc.2	O14842		ENST00000246553.2:c.247G>A	19.37:g.35842701G>A	ENSP00000246553:p.Ala83Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAS2|Q4VBL4	Missense_Mutation	SNP	ENST00000246553.2	37	CCDS12458.1	.	.	.	.	.	.	.	.	.	.	G	9.563	1.119086	0.20877	.	.	ENSG00000126266	ENST00000246553	T	0.37411	1.2	4.6	4.6	0.57074	GPCR, rhodopsin-like superfamily (1);	0.409722	0.23997	U	0.042504	T	0.15435	0.0372	N	0.12569	0.235	0.09310	N	1	P	0.48162	0.906	B	0.37650	0.255	T	0.10753	-1.0616	10	0.09338	T	0.73	-4.6107	8.5191	0.33264	0.1038:0.0:0.8962:0.0	.	83	O14842	FFAR1_HUMAN	T	83	ENSP00000246553:A83T	ENSP00000246553:A83T	A	+	1	0	FFAR1	40534541	0.005000	0.15991	0.012000	0.15200	0.003000	0.03518	1.884000	0.39668	2.375000	0.81037	0.555000	0.69702	GCG		0.701	FFAR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466112.2	NM_005303		A	35842701	G	A	35842701	3	1	622	1	0	0	0	0	1	0	0	0	5834	1087	38	1	249	1	FFAR1	19	35842701	Missense_Mutation	SNP	G	TCGA-KL-8323-01A-21D-2310-10	13586366	35842701	23286282	57	38190										
WDR62	284403	broad.mit.edu;hgsc.bcm.edu	37	chr19	36558850	36558851	+	Frame_Shift_Ins	INS	-	-	AC													0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	cagtaccttctgtgtgtcctINSactcgggcctcctctgccag							TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr19:36558850_36558851insAC	ENST00000270301.7	+	7	820_821	c.820_821insAC	c.(820-822)tacfs	p.Y274fs	WDR62_ENST00000378860.4_3'UTR|WDR62_ENST00000401500.2_Frame_Shift_Ins_p.Y274fs|WDR62_ENST00000388999.3_Frame_Shift_Ins_p.Y274fs			O43379	WDR62_HUMAN	WD repeat domain 62	274					cerebral cortex development (GO:0021987)|neurogenesis (GO:0022008)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|spindle pole (GO:0000922)				cervix(1)|endometrium(8)|kidney(2)|large_intestine(8)|lung(15)|prostate(4)|stomach(2)|urinary_tract(3)	43	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CTGTGTGTCCTACTCGGGCCTC	0.599																																																0																																										SO:0001589	frameshift_variant	284403			BX647726	CCDS33001.1, CCDS46059.1	19q13.12	2013-01-09	2005-05-09	2005-05-09	ENSG00000075702	ENSG00000075702		"WD repeat domain containing"	24502	protein-coding gene	gene with protein product		613583	"chromosome 19 open reading frame 14", "microcephaly, primary autosomal recessive 2"	C19orf14, MCPH2		19910486, 20729831, 20890278, 21496009	Standard	NM_001083961		Approved	DKFZP434J046, FLJ33298	uc002odd.2	O43379	OTTHUMG00000048139	ENST00000270301.7:c.821_822dupAC	19.37:g.36558851_36558852dupAC	ENSP00000270301:p.Tyr274fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q63HP9|Q659D7|Q8NBF7|Q96AD9	Frame_Shift_Ins	INS	ENST00000270301.7	37	CCDS33001.1																																																																																				0.599	WDR62-006	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000457436.1	NM_015671		AC	36558851	-	AC	36558850	7	5	622	1	0	1	1	0	0	0	0	0	17325	1522	53	0	846	0	WDR62	19	36558850	Frame_Shift_Ins	INS	-	TCGA-KL-8323-01A-21D-2310-10	716149	36558850	22570133	58	38191	300	2								
WDR62	284403	bcgsc.ca	37	chr19	36558851	36558852	+	Frame_Shift_Ins	INS	-	-	AC													0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	agtaccttctgtgtgtcctaINSctcgggcctcctctgccagt							TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr19:36558851_36558852insAC	ENST00000270301.7	+	7	821_822	c.821_822insAC	c.(820-825)tactcgfs	p.YS274fs	WDR62_ENST00000378860.4_3'UTR|WDR62_ENST00000401500.2_Frame_Shift_Ins_p.YS274fs|WDR62_ENST00000388999.3_Frame_Shift_Ins_p.YS274fs			O43379	WDR62_HUMAN	WD repeat domain 62	274					cerebral cortex development (GO:0021987)|neurogenesis (GO:0022008)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|spindle pole (GO:0000922)				cervix(1)|endometrium(8)|kidney(2)|large_intestine(8)|lung(15)|prostate(4)|stomach(2)|urinary_tract(3)	43	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TGTGTGTCCTACTCGGGCCTCC	0.599																																																0																																										SO:0001589	frameshift_variant	284403			BX647726	CCDS33001.1, CCDS46059.1	19q13.12	2013-01-09	2005-05-09	2005-05-09	ENSG00000075702	ENSG00000075702		"WD repeat domain containing"	24502	protein-coding gene	gene with protein product		613583	"chromosome 19 open reading frame 14", "microcephaly, primary autosomal recessive 2"	C19orf14, MCPH2		19910486, 20729831, 20890278, 21496009	Standard	NM_001083961		Approved	DKFZP434J046, FLJ33298	uc002odd.2	O43379	OTTHUMG00000048139	Exception_encountered	19.37:g.36558851_36558852insAC	ENSP00000270301:p.Tyr274fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q63HP9|Q659D7|Q8NBF7|Q96AD9	Nonsense_Mutation	INS	ENST00000270301.7	37	CCDS33001.1																																																																																				0.599	WDR62-006	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000457436.1	NM_015671		AC	36558852	-	AC	36558851	7	5	622	1	0	1	1	0	0	0	0	0	17325	391	14	0	847	0	WDR62	19	36558851	Frame_Shift_Ins	INS	-	TCGA-KL-8323-01A-21D-2310-10	1	36558851	22570132	59	38192	300	2								
HM13	81502	bcgsc.ca	37	chr20	30149459	30149459	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	tgaagaagaatacccacaccTacttctacaccagctttgca	5	13	1	3			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr20:30149459T>C	ENST00000340852.5	+	10	992	c.868T>C	c.(868-870)Tac>Cac	p.Y290H	HM13-IT1_ENST00000421894.1_RNA|HM13_ENST00000398174.3_Missense_Mutation_p.Y290H|HM13_ENST00000492709.1_3'UTR|HM13_ENST00000335574.5_Missense_Mutation_p.Y290H|HM13_ENST00000376127.3_Missense_Mutation_p.Y248H	NM_030789.2	NP_110416.1	Q8TCT9	HM13_HUMAN	histocompatibility (minor) 13	290					membrane protein proteolysis (GO:0033619)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|integral component of cytoplasmic side of endoplasmic reticulum membrane (GO:0071458)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|membrane (GO:0016020)|plasma membrane (GO:0005886)|rough endoplasmic reticulum (GO:0005791)	aspartic endopeptidase activity, intramembrane cleaving (GO:0042500)|peptidase activity (GO:0008233)|protein homodimerization activity (GO:0042803)			breast(1)|endometrium(2)|large_intestine(2)|lung(4)|prostate(1)|skin(1)|urinary_tract(1)	12	all_cancers(5;3.44e-05)|Lung NSC(7;4.38e-06)|all_lung(7;7.65e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		all cancers(5;0.000479)|Colorectal(19;0.00202)|COAD - Colon adenocarcinoma(19;0.0264)			TACCCACACCTACTTCTACAC	0.502																																																0													240	168	192					20																	30149459		2203	4300	6503	SO:0001583	missense	81502			AL110115	CCDS13182.1, CCDS13183.1, CCDS42861.1	20q11.21	2012-02-21			ENSG00000101294	ENSG00000101294			16435	protein-coding gene	gene with protein product	"signal peptide peptidase beta", "presenilin-like protein 3", "intramembrane protease", "signal peptide peptidase like 1"	607106				12077416, 14704149	Standard	NM_030789		Approved	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1	uc002wwc.3	Q8TCT9	OTTHUMG00000032175	ENST00000340852.5:c.868T>C	20.37:g.30149459T>C	ENSP00000343032:p.Tyr290His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAY5|E1P5L3|Q15K36|Q540H8|Q5JWP2|Q5JWP3|Q5JWP4|Q5JWP5|Q7Z4F2|Q86Y35|Q95H87|Q9H110|Q9H111	Missense_Mutation	SNP	ENST00000340852.5	37	CCDS13182.1	.	.	.	.	.	.	.	.	.	.	T	28.5	4.926434	0.92319	.	.	ENSG00000101294	ENST00000335574;ENST00000340852;ENST00000398174;ENST00000376127;ENST00000344042	T;T;T;T;T	0.51071	0.72;0.72;0.72;0.72;0.72	5.84	5.84	0.93424	.	0.000000	0.85682	D	0.000000	T	0.81158	0.4764	H	0.98314	4.2	0.80722	D	1	D;D;D	0.89917	1.0;1.0;0.999	D;D;D	0.97110	1.0;1.0;0.988	D	0.88395	0.3011	10	0.72032	D	0.01	-23.9758	15.4114	0.74923	0.0:0.0:0.0:1.0	.	290;290;290	Q8TCT9;Q8TCT9-4;Q8TCT9-2	HM13_HUMAN;.;.	H	290;290;290;248;248	ENSP00000335294:Y290H;ENSP00000343032:Y290H;ENSP00000381237:Y290H;ENSP00000365296:Y248H;ENSP00000341347:Y248H	ENSP00000335294:Y290H	Y	+	1	0	HM13	29613120	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.387000	0.79785	2.228000	0.72767	0.533000	0.62120	TAC		0.502	HM13-011	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078527.2	NM_178580		C	30149459	T	C	30149459	3	2	622	1	0	0	0	0	1	0	0	0	7224	1522	53	3	973	3	HM13	20	30149459	Missense_Mutation	SNP	T	TCGA-KL-8323-01A-21D-2310-10		30149459	32876061	60	38193										
PATZ1	23598	broad.mit.edu	37	chr22	31741114	31741114	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	taccaggatctgtacgttggActgtttgatgacttcctggc	11	9	1	2			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr22:31741114A>G	ENST00000266269.5	-	1	1104	c.475T>C	c.(475-477)Tcc>Ccc	p.S159P	PATZ1_ENST00000215919.3_Missense_Mutation_p.S159P|PATZ1_ENST00000351933.4_Missense_Mutation_p.S159P|AC005003.1_ENST00000504184.2_5'Flank|PATZ1_ENST00000405309.3_Missense_Mutation_p.S159P	NM_014323.2	NP_055138.2	Q9HBE1	PATZ1_HUMAN	POZ (BTB) and AT hook containing zinc finger 1	159					male gonad development (GO:0008584)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription, DNA-templated (GO:0006355)|spermatogenesis (GO:0007283)|T cell differentiation (GO:0030217)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)		EWSR1/PATZ1(2)	NS(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(4)|skin(2)	12						TGTACGTTGGACTGTTTGATG	0.577																																																0													142	150	147					22																	31741114		2203	4300	6503	SO:0001583	missense	23598			AL096880	CCDS13894.1, CCDS13895.1, CCDS13896.1, CCDS46691.1	22q12.2	2013-01-09	2006-09-19	2006-09-19	ENSG00000100105	ENSG00000100105		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	13071	protein-coding gene	gene with protein product		605165	"zinc finger protein 278"	ZNF278		10591208, 18241078, 18401526	Standard	NM_014323		Approved	MAZR, dJ400N23, ZBTB19, ZSG, RIAZ, PATZ	uc003akq.3	Q9HBE1	OTTHUMG00000151254	ENST00000266269.5:c.475T>C	22.37:g.31741114A>G	ENSP00000266269:p.Ser159Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q9HBE2|Q9HBE3|Q9P1A9|Q9UDU0|Q9Y529	Missense_Mutation	SNP	ENST00000266269.5	37	CCDS13894.1	.	.	.	.	.	.	.	.	.	.	A	18.72	3.683389	0.68157	.	.	ENSG00000100105	ENST00000266269;ENST00000405309;ENST00000351933;ENST00000215919	T;T;T;T	0.70045	-0.45;-0.45;-0.45;-0.45	4.1	4.1	0.47936	BTB/POZ-like (1);BTB/POZ (1);BTB/POZ fold (1);	0.117336	0.64402	D	0.000013	T	0.78130	0.4235	M	0.62723	1.935	0.58432	D	0.999998	D;D;D;D	0.76494	0.994;0.994;0.999;0.994	P;P;D;P	0.83275	0.81;0.81;0.996;0.81	T	0.80190	-0.1485	10	0.66056	D	0.02	-16.0422	12.5937	0.56456	1.0:0.0:0.0:0.0	.	159;159;159;159	Q9HBE1-4;Q9HBE1-3;Q9HBE1;Q9HBE1-2	.;.;PATZ1_HUMAN;.	P	159	ENSP00000266269:S159P;ENSP00000384173:S159P;ENSP00000337520:S159P;ENSP00000215919:S159P	ENSP00000215919:S159P	S	-	1	0	PATZ1	30071114	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	5.863000	0.69568	1.635000	0.50512	0.459000	0.35465	TCC		0.577	PATZ1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321932.1	NM_032052		G	31741114	A	G	31741114	3	3	622	1	0	0	0	0	1	0	0	0	11483	275	10	3	1891	3	PATZ1	22	31741114	Missense_Mutation	SNP	A	TCGA-KL-8323-01A-21D-2310-10		31741114	19563452	61	38194										
SFI1	9814	broad.mit.edu;ucsc.edu	37	chr22	32000342	32000342	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	cagaagctgatgcgagcagaCctgcaccaccagcacagcgt	11	14	0	3			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chr22:32000342C>T	ENST00000400288.2	+	19	2034	c.1929C>T	c.(1927-1929)gaC>gaT	p.D643D	SFI1_ENST00000414585.1_Silent_p.D490D|SFI1_ENST00000443326.1_Silent_p.D561D|SFI1_ENST00000540643.1_Silent_p.D588D|SFI1_ENST00000400289.1_Silent_p.D561D|SFI1_ENST00000432498.1_Silent_p.D612D|SFI1_ENST00000443011.1_Silent_p.D490D	NM_001007467.2	NP_001007468.1	A8K8P3	SFI1_HUMAN	Sfi1 homolog, spindle assembly associated (yeast)	643	Interaction with CETN2.				G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|negative regulation of phosphatase activity (GO:0010923)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)	phosphatase binding (GO:0019902)			NS(2)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(5)|large_intestine(7)|liver(1)|lung(11)|ovary(1)|prostate(3)|upper_aerodigestive_tract(3)	38						TGCGAGCAGACCTGCACCACC	0.647											OREG0003526	type=REGULATORY REGION|Gene=SFI1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay																																				0													13	18	16					22																	32000342		2085	4216	6301	SO:0001819	synonymous_variant	9814			AB011114	CCDS43004.1, CCDS43005.1, CCDS58803.1, CCDS58804.1	22q12.2	2014-06-13			ENSG00000198089	ENSG00000198089			29064	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 139"	612765				14504268	Standard	NM_001007467		Approved	KIAA0542, PISD, PPP1R139	uc003ale.4	A8K8P3	OTTHUMG00000030249	ENST00000400288.2:c.1929C>T	22.37:g.32000342C>T		Somatic	829	WXS	Illumina HiSeq	Phase_I	A1L373|A1L387|A2A2L2|B1AKL9|B5MDB7|B7Z1V6|B7Z8G3|B7ZBE2|B7ZBE3|O60289|Q2TAN8|Q5W1B5|Q86TK0|Q8N4U8|Q8N8C1|Q8WU14	Silent	SNP	ENST00000400288.2	37	CCDS43004.1																																																																																				0.647	SFI1-023	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000337180.3	NM_014775		T	32000342	C	T	32000342	2	4	622	1	0	0	0	0	0	0	0	1	14169	506	18	2		2	SFI1	22	32000342	Silent	SNP	C	TCGA-KL-8323-01A-21D-2310-10	259228	32000342	19304224	62	38195										
CXorf59	286464	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	36117961	36117961	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	aatttgaagcctggagtaaaCgggcatggacagatgtattt	12	5	0	2			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chrX:36117961C>T	ENST00000313548.4	+	7	1003	c.817C>T	c.(817-819)Cgg>Tgg	p.R273W		NM_173695.2	NP_775966.1	Q8N9S7	CHDC2_HUMAN	calponin homology domain containing 2	273						integral component of membrane (GO:0016021)											CTGGAGTAAACGGGCATGGAC	0.333																																																0													101	111	108					X																	36117961		2202	4299	6501	SO:0001583	missense	286464			AK093920	CCDS14238.1	Xp21.1	2014-08-07	2012-11-28	2012-11-28	ENSG00000176034	ENSG00000176034			26708	protein-coding gene	gene with protein product			"chromosome X open reading frame 59"	CXorf59			Standard	NM_173695		Approved	FLJ36601, RP13-11B7.1	uc004ddk.1	Q8N9S7	OTTHUMG00000021351	ENST00000313548.4:c.817C>T	X.37:g.36117961C>T	ENSP00000324767:p.Arg273Trp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000313548.4	37	CCDS14238.1	.	.	.	.	.	.	.	.	.	.	C	14.43	2.532042	0.45073	.	.	ENSG00000176034	ENST00000378660;ENST00000313548	.	.	.	5.73	1.91	0.25777	.	0.000000	0.52532	D	0.000062	T	0.24661	0.0598	L	0.59436	1.845	0.23862	N	0.996633	P	0.47962	0.903	B	0.34722	0.188	T	0.33574	-0.9863	9	0.87932	D	0	-5.3905	3.2514	0.06815	0.1409:0.5656:0.1339:0.1596	.	273	Q8N9S7	CX059_HUMAN	W	273	.	ENSP00000324767:R273W	R	+	1	2	CXorf59	36027882	1.000000	0.71417	0.997000	0.53966	0.868000	0.49771	0.524000	0.22940	-0.049000	0.13379	0.506000	0.49869	CGG		0.333	CHDC2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_173695		T	36117961	C	T	36117961	3	4	622	1	0	0	0	0	1	0	0	0	4117	527	19	1	839	1	CXorf59	23	36117961	Missense_Mutation	SNP	C	TCGA-KL-8323-01A-21D-2310-10		36117961	119152599	63	38196										
USP9X	8239	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	41002593	41002593	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	catagtgttgcgagatagtcTtcatcagccacagtatgtag	10	8	3	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chrX:41002593T>G	ENST00000324545.8	+	10	1844	c.1211T>G	c.(1210-1212)cTt>cGt	p.L404R	USP9X_ENST00000378308.2_Missense_Mutation_p.L404R	NM_001039590.2|NM_001039591.2	NP_001034679.2|NP_001034680.2	Q93008	USP9X_HUMAN	ubiquitin specific peptidase 9, X-linked	404					axon extension (GO:0048675)|BMP signaling pathway (GO:0030509)|cerebellar cortex structural organization (GO:0021698)|chromosome segregation (GO:0007059)|female gamete generation (GO:0007292)|gene expression (GO:0010467)|hippocampus development (GO:0021766)|in utero embryonic development (GO:0001701)|mitotic nuclear division (GO:0007067)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron migration (GO:0001764)|post-embryonic development (GO:0009791)|protein deubiquitination (GO:0016579)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|ubiquitin-dependent protein catabolic process (GO:0006511)	apical part of cell (GO:0045177)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|growth cone (GO:0030426)|membrane (GO:0016020)	co-SMAD binding (GO:0070410)|cysteine-type endopeptidase activity (GO:0004197)|cysteine-type peptidase activity (GO:0008234)|ubiquitin thiolesterase activity (GO:0004221)			NS(3)|breast(6)|central_nervous_system(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(6)|large_intestine(16)|lung(29)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	87						CGAGATAGTCTTCATCAGCCA	0.338																																					Ovarian(172;1807 2695 35459 49286)											0													62	56	58					X																	41002593		2004	4199	6203	SO:0001583	missense	8239			X98296	CCDS43930.1, CCDS55403.1	Xp11.4	2010-08-03	2006-02-14		ENSG00000124486	ENSG00000124486		"Ubiquitin-specific peptidases"	12632	protein-coding gene	gene with protein product		300072	"ubiquitin specific protease 9, X chromosome (fat facets-like Drosophila)", "ubiquitin specific protease 9, X-linked (fat facets-like, Drosophila)", "ubiquitin specific peptidase 9, X-linked (fat facets-like, Drosophila)"			8922996	Standard	NM_001039590		Approved	DFFRX, FAF	uc004dfb.3	Q93008	OTTHUMG00000021367	ENST00000324545.8:c.1211T>G	X.37:g.41002593T>G	ENSP00000316357:p.Leu404Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O75550|Q8WWT3|Q8WX12	Missense_Mutation	SNP	ENST00000324545.8	37	CCDS43930.1	.	.	.	.	.	.	.	.	.	.	T	20.7	4.041996	0.75732	.	.	ENSG00000124486	ENST00000378308;ENST00000324545	T;T	0.76709	-1.04;-1.04	5.22	5.22	0.72569	.	0.000000	0.85682	D	0.000000	D	0.86851	0.6032	M	0.81341	2.54	0.80722	D	1	D;D	0.58620	0.964;0.983	P;P	0.61201	0.885;0.771	D	0.88730	0.3236	10	0.72032	D	0.01	.	14.3718	0.66846	0.0:0.0:0.0:1.0	.	404;404	Q93008-1;Q93008	.;USP9X_HUMAN	R	404	ENSP00000367558:L404R;ENSP00000316357:L404R	ENSP00000316357:L404R	L	+	2	0	USP9X	40887537	1.000000	0.71417	1.000000	0.80357	0.936000	0.57629	7.651000	0.83577	1.843000	0.53566	0.339000	0.21740	CTT		0.338	USP9X-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000056250.4	NM_004652		G	41002593	T	G	41002593	3	3	622	1	0	0	0	0	1	0	0	0	17102	1609	56	5	1245	5	USP9X	23	41002593	Missense_Mutation	SNP	T	TCGA-KL-8323-01A-21D-2310-10	4884632	41002593	114267967	64	38197										
PHF8	23133	hgsc.bcm.edu	37	chrX	54049206	54049206	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	cttactaatggagggcccatGcaagacttcacagttggggc	12	10	1	1			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chrX:54049206G>T	ENST00000357988.5	-	3	635	c.277C>A	c.(277-279)Cat>Aat	p.H93N	PHF8_ENST00000322659.8_Missense_Mutation_p.H57N|PHF8_ENST00000338946.6_Missense_Mutation_p.H57N|PHF8_ENST00000338154.6_Missense_Mutation_p.H57N	NM_001184896.1	NP_001171825.1	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	93					brain development (GO:0007420)|G1/S transition of mitotic cell cycle (GO:0000082)|histone H3-K27 demethylation (GO:0071557)|histone H3-K36 demethylation (GO:0070544)|histone H3-K9 demethylation (GO:0033169)|histone H4-K20 demethylation (GO:0035574)|mitotic cell cycle (GO:0000278)|negative regulation of chromatin silencing at rDNA (GO:0061188)|positive regulation of transcription from RNA polymerase I promoter (GO:0045943)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	microtubule cytoskeleton (GO:0015630)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|histone demethylase activity (GO:0032452)|histone demethylase activity (H3-K27 specific) (GO:0071558)|histone demethylase activity (H3-K36 specific) (GO:0051864)|histone demethylase activity (H3-K9 specific) (GO:0032454)|histone demethylase activity (H4-K20 specific) (GO:0035575)|iron ion binding (GO:0005506)|methylated histone binding (GO:0035064)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706)|zinc ion binding (GO:0008270)			endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(7)|lung(10)|ovary(4)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)	40						GAGGGCCCATGCAAGACTTCA	0.453																																																0													58	44	49					X																	54049206		2203	4300	6503	SO:0001583	missense	23133			AB029034	CCDS14355.1, CCDS55418.1, CCDS55419.1, CCDS55420.1	Xp11.22	2013-01-28			ENSG00000172943	ENSG00000172943		"Chromatin-modifying enzymes / K-demethylases", "Zinc fingers, PHD-type"	20672	protein-coding gene	gene with protein product	"jumonji C domain-containing histone demethylase 1F"	300560				10470851, 20023638, 20644565	Standard	NM_015107		Approved	ZNF422, KIAA1111, JHDM1F	uc004dsu.3	Q9UPP1	OTTHUMG00000021622	ENST00000357988.5:c.277C>A	X.37:g.54049206G>T	ENSP00000350676:p.His93Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B3KMV4|B7Z911|Q5H9U5|Q5JPR9|Q5JPS0|Q5JPS2|Q5JPS3|Q5VUJ4|Q7Z6D4|Q9HAH2	Missense_Mutation	SNP	ENST00000357988.5	37	CCDS55420.1	.	.	.	.	.	.	.	.	.	.	G	21.3	4.134979	0.77662	.	.	ENSG00000172943	ENST00000357988;ENST00000338154;ENST00000338946;ENST00000396277;ENST00000322659;ENST00000425862;ENST00000437224;ENST00000415025;ENST00000453905;ENST00000445025;ENST00000433120	T;T;T;T;T;T;T;T;T;T	0.62498	0.02;0.02;0.02;0.02;0.02;0.02;0.02;0.02;0.02;0.02	5.59	5.59	0.84812	Zinc finger, FYVE/PHD-type (1);	0.000000	0.85682	D	0.000000	T	0.66703	0.2816	M	0.82630	2.6	0.58432	D	0.999999	P;P	0.48407	0.91;0.861	B;B	0.39590	0.274;0.304	T	0.75039	-0.3458	10	0.62326	D	0.03	-5.8121	17.3188	0.87231	0.0:0.0:1.0:0.0	.	57;93	B7Z911;Q9UPP1	.;PHF8_HUMAN	N	93;57;57;87;57;57;57;57;93;57;57	ENSP00000350676:H93N;ENSP00000338868:H57N;ENSP00000340051:H57N;ENSP00000319473:H57N;ENSP00000408113:H57N;ENSP00000398995:H57N;ENSP00000404117:H57N;ENSP00000405897:H93N;ENSP00000416546:H57N;ENSP00000410100:H57N	ENSP00000319473:H57N	H	-	1	0	PHF8	54065931	1.000000	0.71417	1.000000	0.80357	0.743000	0.42351	9.802000	0.99131	2.357000	0.79964	0.538000	0.68166	CAT		0.453	PHF8-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000056784.2	NM_015107		T	54049206	G	T	54049206	3	4	622	1	0	0	0	0	1	0	0	0	11847	1319	46	4	3155	4	PHF8	23	54049206	Missense_Mutation	SNP	G	TCGA-KL-8323-01A-21D-2310-10	13046613	54049206	101221354	65	38198										
ZC4H2	55906	broad.mit.edu;bcgsc.ca	37	chrX	64137684	64137684	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	tattcatcctgcttccgtttCggctttttggggttccggga	11	10	1	0	rs149235340	byFrequency	TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chrX:64137684C>T	ENST00000374839.3	-	5	760	c.654G>A	c.(652-654)ccG>ccA	p.P218P	ZC4H2_ENST00000488608.1_5'UTR|ZC4H2_ENST00000337990.2_Silent_p.P195P|ZC4H2_ENST00000545618.1_Silent_p.P213P|ZC4H2_ENST00000447788.2_Missense_Mutation_p.R164Q	NM_018684.3	NP_061154.1	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	218					nervous system development (GO:0007399)|neuromuscular junction development (GO:0007528)|spinal cord motor neuron differentiation (GO:0021522)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|postsynaptic membrane (GO:0045211)	metal ion binding (GO:0046872)			endometrium(2)|large_intestine(4)|lung(13)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	24						GCTTCCGTTTCGGCTTTTTGG	0.488																																																0								C	,GLN/ARG,	1,3834		0,1,1631,571	167	104	126		585,491,654	-10.8	0.5	X	dbSNP_134	126	1,6727		0,1,2427,1872	no	coding-synonymous,missense,coding-synonymous	ZC4H2	NM_001178032.2,NM_001178033.2,NM_018684.3	,43,	0,2,4058,2443	TT,TC,CC,C		0.0149,0.0261,0.0189	,,	195/202,164/177,218/225	64137684	2,10561	2203	4300	6503	SO:0001819	synonymous_variant	55906			AF270491	CCDS14380.1, CCDS55431.1, CCDS55432.1	Xq11.1	2013-07-23	2008-10-01	2008-10-01	ENSG00000126970	ENSG00000126970		"Zinc fingers"	24931	protein-coding gene	gene with protein product		300897	"KIAA1166", "Wieacker-Wolff syndrome"	KIAA1166, WWS		10574461, 12097419, 23623388	Standard	NM_018684		Approved	HCA127	uc004dvu.3	Q9NQZ6	OTTHUMG00000021712	ENST00000374839.3:c.654G>A	X.37:g.64137684C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RDC2|B3KVZ5|B4DED0|E7EM74|G3V1L3|Q53H73|Q5JTF9|Q9H9C3|Q9H9H7|Q9ULQ4	Missense_Mutation	SNP	ENST00000374839.3	37	CCDS14380.1	.	.	.	.	.	.	.	.	.	.	C	14.06	2.421866	0.43020	2.61E-4	1.49E-4	ENSG00000126970	ENST00000447788	.	.	.	5.42	-10.8	0.00216	.	.	.	.	.	T	0.34658	0.0905	.	.	.	0.80722	D	1	B	0.02656	0.0	B	0.01281	0.0	T	0.16867	-1.0388	7	0.66056	D	0.02	.	3.2734	0.06889	0.0948:0.27:0.3669:0.2684	.	164	B4DED0	.	Q	164	.	ENSP00000399126:R164Q	R	-	2	0	ZC4H2	64054409	0.997000	0.39634	0.497000	0.27552	0.994000	0.84299	0.219000	0.17641	-2.224000	0.00725	-0.365000	0.07479	CGA		0.488	ZC4H2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056958.1	NM_018684		T	64137684	C	T	64137684	2	4	622	1	0	0	0	0	0	0	0	1	17590	884	31	1		1	ZC4H2	23	64137684	Silent	SNP	C	TCGA-KL-8323-01A-21D-2310-10	10088478	64137684	91132876	66	38199										
ATP11C	286410	broad.mit.edu	37	chrX	138823233	138823233	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.106060606060606	7	1	1.91733333333333	6.16285714285714	1.26417582417582	1	1	0	aagtgatttatccacgtccaGaatcgggtatccaaggcaag	10	9	0	2			TCGA-KL-8323-01A-21D-2310-10	TCGA-KL-8323-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	fae88d21-171c-4df4-b258-3c5948a1034b	f5c7fb67-5906-4db0-ad0d-129df8e065cb	g.chrX:138823233G>C	ENST00000327569.3	-	27	3158	c.3060C>G	c.(3058-3060)ttC>ttG	p.F1020L	ATP11C_ENST00000359686.2_Missense_Mutation_p.F1020L|ATP11C_ENST00000361648.2_Missense_Mutation_p.F1020L|ATP11C_ENST00000460773.1_5'UTR|ATP11C_ENST00000370557.1_Missense_Mutation_p.F1014L|ATP11C_ENST00000370543.1_Missense_Mutation_p.F1020L	NM_173694.4	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C	1020					ion transmembrane transport (GO:0034220)|phospholipid translocation (GO:0045332)|positive regulation of B cell differentiation (GO:0045579)|pre-B cell differentiation (GO:0002329)|transmembrane transport (GO:0055085)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			breast(2)|central_nervous_system(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(15)|lung(31)|ovary(5)|prostate(1)|skin(3)	75	Acute lymphoblastic leukemia(192;0.000127)					TCCACGTCCAGAATCGGGTAT	0.388																																																0													69	61	64					X																	138823233		2203	4300	6503	SO:0001583	missense	286410			AJ580094	CCDS14668.1, CCDS35410.1	Xq27.1	2011-06-09	2007-09-19		ENSG00000101974	ENSG00000101974		"ATPases / P-type"	13554	protein-coding gene	gene with protein product		300516	"ATPase, Class VI, type 11C"			11015572	Standard	NM_173694		Approved	ATPIG, ATPIQ	uc004faz.3	Q8NB49	OTTHUMG00000022538	ENST00000327569.3:c.3060C>G	X.37:g.138823233G>C	ENSP00000332756:p.Phe1020Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JT69|Q5JT70|Q5JT71|Q5JT72|Q5JT73|Q6ZND5|Q6ZU50|Q6ZUP7|Q70IJ9|Q70IK0|Q8WX24	Missense_Mutation	SNP	ENST00000327569.3	37	CCDS14668.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	21.9|21.9	4.220727|4.220727	0.79464|0.79464	.|.	.|.	ENSG00000101974|ENSG00000101974	ENST00000370557;ENST00000361648;ENST00000327569;ENST00000450801;ENST00000370543;ENST00000359686|ENST00000433868	T;T;T;T;T;T|.	0.59083|.	0.29;0.29;0.29;0.29;0.29;0.29|.	5.51|5.51	5.51|5.51	0.81932|0.81932	.|.	0.102643|.	0.64402|.	D|.	0.000002|.	T|T	0.57184|0.57184	0.2036|0.2036	L|L	0.28504|0.28504	0.86|0.86	0.58432|0.58432	D|D	0.999994|0.999994	B;B;B|.	0.31383|.	0.321;0.215;0.321|.	B;B;B|.	0.35550|.	0.205;0.101;0.205|.	T|T	0.52764|0.52764	-0.8532|-0.8532	10|5	0.49607|.	T|.	0.09|.	.|.	17.4019|17.4019	0.87463|0.87463	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	1020;1020;1020|.	Q8NB49-3;Q8NB49;Q8NB49-2|.	.;AT11C_HUMAN;.|.	L|V	1014;1020;1020;84;1020;1020|53	ENSP00000359588:F1014L;ENSP00000355165:F1020L;ENSP00000332756:F1020L;ENSP00000391259:F84L;ENSP00000359574:F1020L;ENSP00000352715:F1020L|.	ENSP00000332756:F1020L|.	F|L	-|-	3|1	2|2	ATP11C|ATP11C	138650899|138650899	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.982000|0.982000	0.71751|0.71751	7.578000|7.578000	0.82498|0.82498	2.323000|2.323000	0.78572|0.78572	0.600000|0.600000	0.82982|0.82982	TTC|CTG		0.388	ATP11C-008	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000354945.1	NM_173694		C	138823233	G	C	138823233	3	2	622	1	0	0	0	0	1	0	0	0	1121	933	33	4	417	4	ATP11C	23	138823233	Missense_Mutation	SNP	G	TCGA-KL-8323-01A-21D-2310-10	74685549	138823233	16447327	67	38200										
IL28RA	163702	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	24484160	24484160	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gaaggtggttcaatgtagggCtggaagctgacgccatcttc	14	8	2	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr1:24484160C>A	ENST00000327535.1	-	7	1035	c.1023G>T	c.(1021-1023)caG>caT	p.Q341H	IFNLR1_ENST00000327575.2_3'UTR|IFNLR1_ENST00000374421.3_Missense_Mutation_p.Q312H	NM_170743.3|NM_173064.2	NP_734464.1|NP_775087.1	Q8IU57	INLR1_HUMAN	interferon, lambda receptor 1	341					cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|mucosal immune response (GO:0002385)|negative regulation of cell proliferation (GO:0008285)|regulation of defense response to virus by host (GO:0050691)|response to type III interferon (GO:0034342)	integral component of membrane (GO:0016021)|interleukin-28 receptor complex (GO:0032002)											CAATGTAGGGCTGGAAGCTGA	0.612																																																0													147	136	140					1																	24484160		2203	4300	6503	SO:0001583	missense	163702			AY129153	CCDS248.1, CCDS249.1, CCDS250.1	1p36.11	2012-11-27	2012-11-26	2012-11-26	ENSG00000185436	ENSG00000185436		"Interferons"	18584	protein-coding gene	gene with protein product	"interferon lambda receptor 1"	607404	"interleukin 28 receptor, alpha", "interleukin 28 receptor, alpha (interferon, lambda receptor)"	IL28RA			Standard	NM_173064		Approved	CRF2/12, IFNLR, IL-28R1	uc001bis.3	Q8IU57	OTTHUMG00000003036	ENST00000327535.1:c.1023G>T	1.37:g.24484160C>A	ENSP00000327824:p.Gln341His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VTX5|Q5VTX7|Q5VTX8|Q6ZML8|Q8IV66|Q8IZI7|Q8IZI8	Missense_Mutation	SNP	ENST00000327535.1	37	CCDS248.1	.	.	.	.	.	.	.	.	.	.	C	14.35	2.510138	0.44660	.	.	ENSG00000185436	ENST00000327535;ENST00000374421	.	.	.	5.73	1.57	0.23409	.	2.259870	0.01080	N	0.004971	T	0.71745	0.3376	M	0.61703	1.905	0.53005	D	0.999961	D;B	0.76494	0.999;0.328	D;B	0.70716	0.97;0.085	T	0.57562	-0.7790	9	0.51188	T	0.08	-4.6758	4.9948	0.14233	0.2964:0.5395:0.0:0.1641	.	341;312	Q8IU57;Q8IU57-2	I28RA_HUMAN;.	H	341;312	.	ENSP00000327824:Q341H	Q	-	3	2	IL28RA	24356747	0.998000	0.40836	0.999000	0.59377	0.257000	0.26127	0.138000	0.16016	0.389000	0.25086	0.655000	0.94253	CAG		0.612	IFNLR1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000008402.1	NM_170743		A	24484160	C	A	24484160	3	1	623	1	0	0	0	0	1	0	0	0	7691	796	28	4	543	4	IL28RA	1	24484160	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10		24484160	224766461	1	38201										
TMEM61	199964	hgsc.bcm.edu;mdanderson.org	37	chr1	55457726	55457726	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ctgcggagacgacaccgagtGccacacgctcctgctcaggc	12	16	1	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr1:55457726G>T	ENST00000371268.3	+	3	857	c.583G>T	c.(583-585)Gcc>Tcc	p.A195S	RP11-12C17.2_ENST00000436960.1_RNA	NM_182532.1	NP_872338.1	Q8N0U2	TMM61_HUMAN	transmembrane protein 61	195						integral component of membrane (GO:0016021)				endometrium(1)|lung(1)|prostate(1)|upper_aerodigestive_tract(1)	4						GACACCGAGTGCCACACGCTC	0.602																																																0													109	110	109					1																	55457726		2203	4300	6503	SO:0001583	missense	199964			BC029775	CCDS601.1	1p32.3	2008-02-05			ENSG00000143001	ENSG00000143001			27296	protein-coding gene	gene with protein product						12477932	Standard	NM_182532		Approved		uc001cyd.3	Q8N0U2	OTTHUMG00000009991	ENST00000371268.3:c.583G>T	1.37:g.55457726G>T	ENSP00000360315:p.Ala195Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000371268.3	37	CCDS601.1	.	.	.	.	.	.	.	.	.	.	G	5.273	0.235726	0.10023	.	.	ENSG00000143001	ENST00000371268	T	0.46819	0.86	3.57	-0.174	0.13319	.	1.587460	0.04001	N	0.296491	T	0.29061	0.0722	N	0.14661	0.345	0.09310	N	1	B	0.25904	0.137	B	0.28709	0.093	T	0.14699	-1.0463	10	0.13108	T	0.6	0.0513	5.9693	0.19342	0.195:0.245:0.56:0.0	.	195	Q8N0U2	TMM61_HUMAN	S	195	ENSP00000360315:A195S	ENSP00000360315:A195S	A	+	1	0	TMEM61	55230314	0.001000	0.12720	0.000000	0.03702	0.000000	0.00434	0.158000	0.16422	-0.268000	0.09312	-1.598000	0.00824	GCC		0.602	TMEM61-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000027683.1	NM_182532		T	55457726	G	T	55457726	3	4	623	1	0	0	0	0	1	0	0	0	16200	1319	46	4	593	4	TMEM61	1	55457726	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10	30973566	55457726	193792895	2	38202										
AGL	178	broad.mit.edu	37	chr1	100353594	100353594	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ctttaccgatgtgaatcagaAgaaaaggaagatggtggagg	14	4	1	4			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr1:100353594A>G	ENST00000294724.4	+	21	3220	c.2742A>G	c.(2740-2742)gaA>gaG	p.E914E	AGL_ENST00000370161.2_Silent_p.E898E|AGL_ENST00000370163.3_Silent_p.E914E|AGL_ENST00000361915.3_Silent_p.E914E|AGL_ENST00000361522.4_Silent_p.E897E|AGL_ENST00000361302.3_Silent_p.E898E|AGL_ENST00000370165.3_Silent_p.E914E	NM_000028.2	NP_000019.2	P35573	GDE_HUMAN	amylo-alpha-1, 6-glucosidase, 4-alpha-glucanotransferase	914					carbohydrate metabolic process (GO:0005975)|glucose metabolic process (GO:0006006)|glycogen biosynthetic process (GO:0005978)|glycogen catabolic process (GO:0005980)|response to glucocorticoid (GO:0051384)|response to nutrient (GO:0007584)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|inclusion body (GO:0016234)|isoamylase complex (GO:0043033)|nucleus (GO:0005634)|sarcoplasmic reticulum (GO:0016529)	4-alpha-glucanotransferase activity (GO:0004134)|amylo-alpha-1,6-glucosidase activity (GO:0004135)|glycogen debranching enzyme activity (GO:0004133)|polysaccharide binding (GO:0030247)			NS(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(6)|large_intestine(9)|lung(35)|ovary(1)|prostate(4)|skin(3)|urinary_tract(1)	69		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		GTGAATCAGAAGAAAAGGAAG	0.393																																																0													118	112	114					1																	100353594		2203	4300	6503	SO:0001819	synonymous_variant	178			BC078663	CCDS759.1, CCDS760.1, CCDS761.1	1p21	2010-04-27	2010-04-27		ENSG00000162688	ENSG00000162688	2.4.1.25, 3.2.1.33		321	protein-coding gene	gene with protein product	"glycogen debranching enzyme", "glycogen storage disease type III"	610860	"amylo-1, 6-glucosidase, 4-alpha-glucanotransferase"			1505983	Standard	NM_000028		Approved		uc001dsi.1	P35573	OTTHUMG00000010803	ENST00000294724.4:c.2742A>G	1.37:g.100353594A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NCX7|A6NEK2|D3DT51|P78354|P78544|Q59H92|Q6AZ90|Q9UF08	Silent	SNP	ENST00000294724.4	37	CCDS759.1																																																																																				0.393	AGL-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029778.1	NM_000028		G	100353594	A	G	100353594	2	3	623	1	0	0	0	0	0	0	0	1	384	69	3	3		3	AGL	1	100353594	Silent	SNP	A	TCGA-KL-8324-01A-11D-2310-10	44895868	100353594	148897027	3	38203										
KIAA1324	57535	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	109731772	109731772	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gctgcccacaaacatggaaaCgaccgttctcagtgggatca	10	12	2	0	rs143784237		TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr1:109731772C>T	ENST00000369939.3	+	10	1487	c.1304C>T	c.(1303-1305)aCg>aTg	p.T435M	KIAA1324_ENST00000369938.1_3'UTR|KIAA1324_ENST00000529753.1_Missense_Mutation_p.T348M	NM_020775.4	NP_065826	Q6UXG2	K1324_HUMAN	KIAA1324	435					cellular response to starvation (GO:0009267)|macroautophagy (GO:0016236)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|positive regulation of autophagic vacuole assembly (GO:2000786)|positive regulation of vacuole organization (GO:0044090)	endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|lysosome (GO:0005764)	poly(A) RNA binding (GO:0044822)			NS(1)|breast(4)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(10)|lung(9)|ovary(2)|skin(3)|upper_aerodigestive_tract(1)	34		all_epithelial(167;0.000102)|all_lung(203;0.000323)|Lung NSC(277;0.00063)		Colorectal(144;0.0188)|Lung(183;0.0527)|COAD - Colon adenocarcinoma(174;0.14)|Epithelial(280;0.21)|all cancers(265;0.249)		AACATGGAAACGACCGTTCTC	0.537																																																0								C	MET/THR	0,4406		0,0,2203	108	88	95		1304	5.1	0.9	1	dbSNP_134	95	1,8599	1.2+/-3.3	0,1,4299	no	missense	KIAA1324	NM_020775.3	81	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	435/1014	109731772	1,13005	2203	4300	6503	SO:0001583	missense	57535			AK057647	CCDS794.1, CCDS58015.1	1p13.3	2008-09-18			ENSG00000116299	ENSG00000116299			29618	protein-coding gene	gene with protein product	"estrogen induced gene 121"	611298				10718198, 16322283	Standard	NM_020775		Approved	maba1, EIG121	uc021orb.1	Q6UXG2	OTTHUMG00000011725	ENST00000369939.3:c.1304C>T	1.37:g.109731772C>T	ENSP00000358955:p.Thr435Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q08AE6|Q5T5C9|Q5T5D0|Q5T5D1|Q9P2M2	Missense_Mutation	SNP	ENST00000369939.3	37	CCDS794.1	.	.	.	.	.	.	.	.	.	.	C	19.10	3.761923	0.69763	0.0	1.16E-4	ENSG00000116299	ENST00000369939;ENST00000457623;ENST00000529753	T;T;T	0.43294	0.95;0.95;0.95	5.12	5.12	0.69794	Growth factor, receptor (1);	0.044050	0.85682	D	0.000000	T	0.47600	0.1454	L	0.46157	1.445	0.47374	D	0.999404	D;D;D;D	0.89917	1.0;1.0;0.999;0.999	D;D;D;D	0.70716	0.97;0.969;0.959;0.959	T	0.46176	-0.9210	10	0.62326	D	0.03	-14.8291	13.2299	0.59936	0.0:0.8399:0.1601:0.0	.	435;348;435;435	Q6UXG2-4;Q6UXG2-3;C9J810;Q6UXG2	.;.;.;K1324_HUMAN	M	435;385;348	ENSP00000358955:T435M;ENSP00000393964:T385M;ENSP00000434595:T348M	ENSP00000358955:T435M	T	+	2	0	KIAA1324	109533295	1.000000	0.71417	0.927000	0.36925	0.929000	0.56500	4.981000	0.63819	2.669000	0.90835	0.561000	0.74099	ACG		0.537	KIAA1324-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032389.2	NM_020775		T	109731772	C	T	109731772	3	4	623	1	0	0	0	0	1	0	0	0	8230	536	19	1	1342	1	KIAA1324	1	109731772	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	9378178	109731772	139518849	4	38204										
MOV10	4343	ucsc.edu	37	chr1	113241049	113241049	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ccctcctccaagaagggcaaAgctcgcctgagccctcgaag	10	16	0	2			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr1:113241049A>G	ENST00000413052.2	+	16	2847	c.2457A>G	c.(2455-2457)aaA>aaG	p.K819K	MOV10_ENST00000357443.2_Silent_p.K819K|MOV10_ENST00000468624.1_3'UTR|MOV10_ENST00000369645.1_Silent_p.K819K|MOV10_ENST00000369644.1_Silent_p.K763K|RP11-426L16.3_ENST00000421943.1_RNA	NM_001130079.1|NM_020963.3	NP_001123551.1|NP_066014.1	Q9HCE1	MOV10_HUMAN	Mov10 RISC complex RNA helicase	819					epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|mRNA cleavage involved in gene silencing by miRNA (GO:0035279)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch signaling pathway (GO:0007219)|phosphatidylinositol-mediated signaling (GO:0048015)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|extracellular space (GO:0005615)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|poly(A) RNA binding (GO:0044822)			breast(1)|cervix(1)|endometrium(3)|large_intestine(6)|lung(15)|ovary(5)|prostate(1)|skin(3)|urinary_tract(3)	38	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)		AGAAGGGCAAAGCTCGCCTGA	0.607																																																0													60	48	52					1																	113241049		2203	4300	6503	SO:0001819	synonymous_variant	4343			AL833353	CCDS853.1, CCDS65615.1	1p13.2	2014-07-02	2014-07-02		ENSG00000155363	ENSG00000155363			7200	protein-coding gene	gene with protein product	"functional spliceosome-associated protein 113"	610742	"Mov10 (Moloney leukemia virus 10, mouse) homolog", "Mov10, Moloney leukemia virus 10, homolog (mouse)"			12226669	Standard	NM_001286072		Approved	gb110, MGC2948, fSAP113	uc001eck.3	Q9HCE1	OTTHUMG00000011906	ENST00000413052.2:c.2457A>G	1.37:g.113241049A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JR03|Q8TEF0|Q9BSY3|Q9BUJ9	Silent	SNP	ENST00000413052.2	37	CCDS853.1																																																																																				0.607	MOV10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032906.1	NM_020963		G	113241049	A	G	113241049	2	3	623	1	0	0	0	0	0	0	0	1	9725	69	3	3		3	MOV10	1	113241049	Silent	SNP	A	TCGA-KL-8324-01A-11D-2310-10	3509277	113241049	136009572	5	38205										
SPAG17	200162	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	118535252	118535252	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tccaaatctgagtaccaaacGgaggtcctggagtttttttc	9	9	1	1	rs147490539		TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr1:118535252G>A	ENST00000336338.5	-	36	5263	c.5198C>T	c.(5197-5199)cCg>cTg	p.P1733L		NM_206996.2	NP_996879.1	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1733						cytoplasm (GO:0005737)|microtubule (GO:0005874)|nucleus (GO:0005634)|sperm flagellum (GO:0036126)				NS(1)|biliary_tract(1)|breast(2)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(30)|liver(2)|lung(56)|ovary(3)|prostate(5)|skin(5)|upper_aerodigestive_tract(6)|urinary_tract(1)	123	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)		AGTACCAAACGGAGGTCCTGG	0.413													G|||	1	0.000199681	0.0	0.0	5008	,	,		16444	0.0		0.0	False		,,,				2504	0.001															0								G	LEU/PRO	1,4405	2.1+/-5.4	0,1,2202	59	60	60		5198	4.7	0.9	1	dbSNP_134	60	0,8600		0,0,4300	no	missense	SPAG17	NM_206996.2	98	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	benign	1733/2224	118535252	1,13005	2203	4300	6503	SO:0001583	missense	200162				CCDS899.1	1p12	2014-01-21			ENSG00000155761	ENSG00000155761			26620	protein-coding gene	gene with protein product							Standard	NM_206996		Approved	FLJ34497, PF6, RP4-776P7.2, CT143	uc001ehk.2	Q6Q759	OTTHUMG00000012198	ENST00000336338.5:c.5198C>T	1.37:g.118535252G>A	ENSP00000337804:p.Pro1733Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NAZ1|Q9NT21	Missense_Mutation	SNP	ENST00000336338.5	37	CCDS899.1	.	.	.	.	.	.	.	.	.	.	G	19.04	3.749133	0.69533	2.27E-4	0.0	ENSG00000155761	ENST00000336338;ENST00000437255	T	0.19532	2.14	5.6	4.69	0.59074	.	0.298320	0.36778	N	0.002404	T	0.25195	0.0612	M	0.61703	1.905	0.45342	D	0.998335	D	0.65815	0.995	P	0.53809	0.735	T	0.04454	-1.0950	10	0.66056	D	0.02	.	15.5732	0.76356	0.0:0.1386:0.8614:0.0	.	1733	Q6Q759	SPG17_HUMAN	L	1733;213	ENSP00000337804:P1733L	ENSP00000337804:P1733L	P	-	2	0	SPAG17	118336775	0.999000	0.42202	0.911000	0.35937	0.892000	0.51952	3.391000	0.52530	1.362000	0.46000	-0.150000	0.13652	CCG		0.413	SPAG17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033723.1	NM_206996		A	118535252	G	A	118535252	3	1	623	1	0	0	0	0	1	0	0	0	14992	1116	39	1	1525	1	SPAG17	1	118535252	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10	5294203	118535252	130715369	6	38206										
SLC9A11	284525	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	173506159	173506159	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tttcaagaattccattgttaCgctgtttttcaaagctactc	5	9	2	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr1:173506159C>T	ENST00000367714.3	-	14	1999	c.1577G>A	c.(1576-1578)cGt>cAt	p.R526H	SLC9C2_ENST00000466087.1_5'UTR|SLC9C2_ENST00000536496.1_Missense_Mutation_p.R424H	NM_178527.3	NP_848622.2	Q5TAH2	SL9C2_HUMAN	solute carrier family 9, member C2 (putative)	526					sodium ion transport (GO:0006814)	integral component of membrane (GO:0016021)	solute:proton antiporter activity (GO:0015299)										TCCATTGTTACGCTGTTTTTC	0.333																																																0													122	125	124					1																	173506159		2203	4300	6503	SO:0001583	missense	284525			AK128104	CCDS1308.1	1q25.1	2013-07-18	2013-07-18	2012-03-22	ENSG00000162753	ENSG00000162753		"Solute carriers"	28664	protein-coding gene	gene with protein product			"solute carrier family 9, isoform 11", "solute carrier family 9, member 11", "solute carrier family 9, member C2"	SLC9A11			Standard	NM_178527		Approved	MGC43026	uc001giz.2	Q5TAH2	OTTHUMG00000034800	ENST00000367714.3:c.1577G>A	1.37:g.173506159C>T	ENSP00000356687:p.Arg526His	Somatic		WXS	Illumina HiSeq	Phase_I	Q86UF3	Missense_Mutation	SNP	ENST00000367714.3	37	CCDS1308.1	.	.	.	.	.	.	.	.	.	.	C	11.63	1.694967	0.30052	.	.	ENSG00000162753	ENST00000367714;ENST00000536496	T;T	0.09350	3.68;2.99	5.52	2.16	0.27623	.	0.287004	0.30584	N	0.009306	T	0.01189	0.0039	N	0.08118	0	0.23882	N	0.996578	P	0.44986	0.847	B	0.28991	0.097	T	0.48917	-0.8992	10	0.42905	T	0.14	-10.8475	8.0928	0.30811	0.0:0.7038:0.0:0.2962	.	526	Q5TAH2	S9A11_HUMAN	H	526;424	ENSP00000356687:R526H;ENSP00000445437:R424H	ENSP00000356687:R526H	R	-	2	0	SLC9A11	171772782	0.794000	0.28838	0.774000	0.31636	0.801000	0.45260	0.297000	0.19101	0.691000	0.31592	0.508000	0.49915	CGT		0.333	SLC9C2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084205.1	NM_178527		T	173506159	C	T	173506159	3	4	623	1	0	0	0	0	1	0	0	0	14724	536	19	1	1857	1	SLC9A11	1	173506159	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	54970907	173506159	75744462	7	38207										
CR2	1380	bcgsc.ca	37	chr1	207644142	207644142	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ggaagatagacacatggtccGctttgaccctggaacatcta	10	10	1	3	rs183067414	byFrequency	TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr1:207644142G>A	ENST00000367058.3	+	7	1472	c.1283G>A	c.(1282-1284)cGc>cAc	p.R428H	CR2_ENST00000367059.3_Missense_Mutation_p.R428H|CR2_ENST00000367057.3_Missense_Mutation_p.R428H|CR2_ENST00000458541.2_Missense_Mutation_p.R428H	NM_001877.4	NP_001868.2	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus) receptor 2	428	Sushi 7. {ECO:0000255|PROSITE- ProRule:PRU00302}.				B cell differentiation (GO:0030183)|B cell proliferation (GO:0042100)|complement activation, classical pathway (GO:0006958)|immune response (GO:0006955)|innate immune response (GO:0045087)	external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	complement binding (GO:0001848)|complement receptor activity (GO:0004875)|DNA binding (GO:0003677)|protein homodimerization activity (GO:0042803)|transmembrane signaling receptor activity (GO:0004888)			NS(2)|breast(3)|endometrium(4)|kidney(3)|large_intestine(12)|lung(26)|ovary(1)|pancreas(1)|prostate(1)|skin(12)|upper_aerodigestive_tract(3)|urinary_tract(1)	69						CACATGGTCCGCTTTGACCCT	0.453													G|||	4	0.000798722	0.0015	0.0029	5008	,	,		19590	0.0		0.0	False		,,,				2504	0.0															0													85	84	85					1																	207644142		2203	4300	6503	SO:0001583	missense	1380			M26004	CCDS1478.1, CCDS31007.1	1q32	2014-09-17			ENSG00000117322	ENSG00000117322		"CD molecules", "Complement system"	2336	protein-coding gene	gene with protein product		120650					Standard	NM_001006658		Approved	CD21	uc001hfv.3	P20023	OTTHUMG00000036307	ENST00000367058.3:c.1283G>A	1.37:g.207644142G>A	ENSP00000356025:p.Arg428His	Somatic		WXS	Illumina HiSeq	Phase_I	C9JHD2|Q13866|Q14212|Q53EL2|Q5BKT9|Q5SR46|Q5SR48	Missense_Mutation	SNP	ENST00000367058.3	37	CCDS1478.1	2	9.157509157509158E-4	1	0.0020325203252032522	1	0.0027624309392265192	0	0.0	0	0.0	G	9.287	1.049735	0.19827	.	.	ENSG00000117322	ENST00000367058;ENST00000367057;ENST00000367059;ENST00000458541	T;T;T;T	0.65549	-0.16;-0.16;-0.16;-0.16	4.57	-0.802	0.10889	Complement control module (2);Sushi/SCR/CCP (3);	.	.	.	.	T	0.66307	0.2776	L	0.46741	1.465	0.09310	N	0.999996	P;D;D	0.69078	0.589;0.997;0.996	B;D;D	0.63877	0.141;0.919;0.912	T	0.56860	-0.7909	9	0.45353	T	0.12	.	8.0768	0.30720	0.48:0.0:0.52:0.0	.	428;428;428	Q5SR47;P20023;P20023-3	.;CR2_HUMAN;.	H	428	ENSP00000356025:R428H;ENSP00000356024:R428H;ENSP00000356026:R428H;ENSP00000404222:R428H	ENSP00000356024:R428H	R	+	2	0	CR2	205710765	0.001000	0.12720	0.124000	0.21820	0.035000	0.12851	-0.548000	0.06048	-0.243000	0.09653	-0.793000	0.03317	CGC		0.453	CR2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000088274.1	NM_001877		A	207644142	G	A	207644142	3	1	623	1	0	0	0	0	1	0	0	0	3844	1087	38	1	1309	1	CR2	1	207644142	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10	34137983	207644142	41606479	8	38208										
OR2T3	343173	broad.mit.edu	37	chr1	248637594	248637594	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gcatgatgcagtcaagaatgAaccaagaaaagtagtaaagg	11	5	1	4			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr1:248637594A>G	ENST00000359594.2	+	1	968	c.943A>G	c.(943-945)Aac>Gac	p.N315D		NM_001005495.1	NP_001005495.1	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T, member 3	315						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(2)|endometrium(5)|lung(19)|ovary(1)|prostate(1)|skin(3)	31	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)			GTCAAGAATGAACCAAGAAAA	0.488																																																0													208	227	220					1																	248637594		2201	4298	6499	SO:0001583	missense	343173				CCDS31117.1	1q44	2012-08-09			ENSG00000196539	ENSG00000196539		"GPCR / Class A : Olfactory receptors"	14727	protein-coding gene	gene with protein product							Standard	NM_001005495		Approved		uc001iel.1	Q8NH03	OTTHUMG00000040452	ENST00000359594.2:c.943A>G	1.37:g.248637594A>G	ENSP00000352604:p.Asn315Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNJ1	Missense_Mutation	SNP	ENST00000359594.2	37	CCDS31117.1	.	.	.	.	.	.	.	.	.	.	a	3.158	-0.172775	0.06421	.	.	ENSG00000196539	ENST00000359594	T	0.09911	2.93	1.24	-0.0673	0.13761	.	.	.	.	.	T	0.06005	0.0156	N	0.19112	0.55	0.09310	N	1	B	0.14012	0.009	B	0.12156	0.007	T	0.38373	-0.9664	9	0.44086	T	0.13	.	3.1863	0.06602	0.6196:0.0:0.0:0.3804	.	315	Q8NH03	OR2T3_HUMAN	D	315	ENSP00000352604:N315D	ENSP00000352604:N315D	N	+	1	0	OR2T3	246704217	0.007000	0.16637	0.005000	0.12908	0.163000	0.22366	1.757000	0.38400	-0.035000	0.13691	0.156000	0.16432	AAC		0.488	OR2T3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097348.1	NM_001005495		G	248637594	A	G	248637594	3	3	623	1	0	0	0	0	1	0	0	0	11030	246	9	3	945	3	OR2T3	1	248637594	Missense_Mutation	SNP	A	TCGA-KL-8324-01A-11D-2310-10	40993452	248637594	613027	9	38209										
LPIN1	23175	broad.mit.edu	37	chr2	11922578	11922578	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	atcgaggagctcaaacccccCtctgccagtgtagtccagac	9	15	2	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr2:11922578C>T	ENST00000256720.2	+	7	1194	c.1101C>T	c.(1099-1101)ccC>ccT	p.P367P	LPIN1_ENST00000396099.1_Silent_p.P409P|LPIN1_ENST00000425416.2_Silent_p.P373P|LPIN1_ENST00000396097.1_Silent_p.P97P|LPIN1_ENST00000449576.2_Silent_p.P452P|LPIN1_ENST00000396098.1_Silent_p.P409P	NM_145693.2	NP_663731.1	Q14693	LPIN1_HUMAN	lipin 1	367					cellular lipid metabolic process (GO:0044255)|fatty acid catabolic process (GO:0009062)|glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylcholine biosynthetic process (GO:0006656)|phosphatidylethanolamine biosynthetic process (GO:0006646)|phospholipid metabolic process (GO:0006644)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)|triglyceride biosynthetic process (GO:0019432)|triglyceride mobilization (GO:0006642)	cytoplasm (GO:0005737)|endoplasmic reticulum membrane (GO:0005789)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)	phosphatidate phosphatase activity (GO:0008195)			autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(2)|kidney(5)|large_intestine(15)|liver(1)|lung(10)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	45	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		TCAAACCCCCCTCTGCCAGTG	0.517																																																0													76	78	77					2																	11922578		2203	4300	6503	SO:0001819	synonymous_variant	23175			D80010	CCDS1682.1, CCDS58699.1, CCDS58700.1, CCDS58701.1	2p25.1	2008-05-23			ENSG00000134324	ENSG00000134324			13345	protein-coding gene	gene with protein product		605518				11138012, 8724849, 16950137	Standard	NM_145693		Approved	KIAA0188	uc010yjm.3	Q14693	OTTHUMG00000119082	ENST00000256720.2:c.1101C>T	2.37:g.11922578C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MU38|B4DET9|B4DGS4|B4DGZ6|B5MC18|B7Z858|D6W506|E7ESE7|F5GY24|Q53T25	Silent	SNP	ENST00000256720.2	37	CCDS1682.1																																																																																				0.517	LPIN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239296.3	NM_145693		T	11922578	C	T	11922578	2	4	623	1	0	0	0	0	0	0	0	1	8925	668	24	2		2	LPIN1	2	11922578	Silent	SNP	C	TCGA-KL-8324-01A-11D-2310-10		11922578	231276795	10	38210										
CCDC88A	55704	broad.mit.edu	37	chr2	55544911	55544911	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	attttctaaggaagactgctGgattaggagttgggcattct	12	5	2	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr2:55544911G>T	ENST00000436346.1	-	20	4232	c.3391C>A	c.(3391-3393)Cag>Aag	p.Q1131K	AC012358.8_ENST00000600219.1_RNA|AC012358.8_ENST00000594078.1_RNA|AC012358.8_ENST00000599475.1_RNA|CCDC88A_ENST00000413716.2_Missense_Mutation_p.Q1130K|AC012358.8_ENST00000599352.1_RNA|AC012358.8_ENST00000608103.1_RNA|CCDC88A_ENST00000263630.8_Missense_Mutation_p.Q1131K|CCDC88A_ENST00000336838.6_Missense_Mutation_p.Q1130K	NM_001135597.1|NM_001254943.1	NP_001129069.1|NP_001241872.1	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A	1131					activation of protein kinase B activity (GO:0032148)|cell migration (GO:0016477)|DNA replication (GO:0006260)|lamellipodium assembly (GO:0030032)|membrane organization (GO:0061024)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of cell proliferation (GO:0042127)|regulation of DNA replication (GO:0006275)|regulation of neuron projection development (GO:0010975)|regulation of protein phosphorylation (GO:0001932)|TOR signaling (GO:0031929)	cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|lamellipodium (GO:0030027)|membrane (GO:0016020)|plasma membrane (GO:0005886)	actin binding (GO:0003779)|microtubule binding (GO:0008017)|phosphatidylinositol binding (GO:0035091)|protein homodimerization activity (GO:0042803)|protein kinase B binding (GO:0043422)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(22)|lung(23)|ovary(3)|pancreas(1)|prostate(3)|skin(4)|stomach(1)|urinary_tract(1)	69						GAAGACTGCTGGATTAGGAGT	0.353																																																0													134	137	136					2																	55544911		2203	4300	6503	SO:0001583	missense	55704			AB033038, AF112218	CCDS33203.1, CCDS46288.1, CCDS58710.1	2p16.3	2013-03-13	2007-05-31	2007-05-31	ENSG00000115355	ENSG00000115355			25523	protein-coding gene	gene with protein product	"Galpha-interacting vesicle-associated protein", "Akt-phosphorylation enhancer", "girdin", "girders of actin filaments"	609736	"KIAA1212"	KIAA1212		15749703, 15753085	Standard	NM_001135597		Approved	FLJ10392, APE, GIV, HkRP1, GRDN	uc002ryv.2	Q3V6T2	OTTHUMG00000151915	ENST00000436346.1:c.3391C>A	2.37:g.55544911G>T	ENSP00000410608:p.Gln1131Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A1IGE7|B7ZM78|C9JG83|Q53SF1|Q581G3|Q5HYD0|Q7Z339|Q7Z3C5	Missense_Mutation	SNP	ENST00000436346.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	17.21|17.21	3.330910|3.330910	0.60853|0.60853	.|.	.|.	ENSG00000115355|ENSG00000115355	ENST00000456975|ENST00000336838;ENST00000263630;ENST00000436346;ENST00000412148;ENST00000413716;ENST00000426576	.|T;T;T;D;T;T	.|0.84873	.|2.35;2.59;2.58;-1.91;2.37;1.33	6.02|6.02	5.13|5.13	0.70059|0.70059	.|.	.|0.000000	.|0.45606	.|U	.|0.000351	D|D	0.91656|0.91656	0.7363|0.7363	M|M	0.75615|0.75615	2.305|2.305	0.80722|0.80722	D|D	1|1	.|B;D;B;P;P;B	.|0.59767	.|0.402;0.986;0.33;0.589;0.532;0.28	.|B;D;B;B;B;B	.|0.72338	.|0.258;0.977;0.132;0.325;0.259;0.323	D|D	0.91073|0.91073	0.4894|0.4894	5|10	.|0.37606	.|T	.|0.19	-11.3295|-11.3295	16.6928|16.6928	0.85326|0.85326	0.0:0.0:0.8693:0.1306|0.0:0.0:0.8693:0.1306	.|.	.|1130;1131;1076;1131;1130;1130	.|B7ZM78;Q3V6T2-2;D6W5D1;Q3V6T2;Q3V6T2-3;Q3V6T2-4	.|.;.;.;GRDN_HUMAN;.;.	Q|K	111|1130;1131;1131;176;1130;306	.|ENSP00000338728:Q1130K;ENSP00000263630:Q1131K;ENSP00000410608:Q1131K;ENSP00000390012:Q176K;ENSP00000404431:Q1130K;ENSP00000405080:Q306K	.|ENSP00000263630:Q1131K	P|Q	-|-	2|1	0|0	CCDC88A|CCDC88A	55398415|55398415	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.673000|0.673000	0.39480|0.39480	9.623000|9.623000	0.98386|0.98386	1.533000|1.533000	0.49186|0.49186	-0.188000|-0.188000	0.12872|0.12872	CCA|CAG		0.353	CCDC88A-203	KNOWN	basic	protein_coding	protein_coding		NM_017571		T	55544911	G	T	55544911	3	4	623	1	0	0	0	0	1	0	0	0	2865	1357	47	4	2276	4	CCDC88A	2	55544911	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10	43622333	55544911	187654462	11	38211										
FSIP2	401024	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr2	186689203	186689203	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gacccaagtgctaaaatattAgaaggttggactcctttttc	8	8	0	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr2:186689203A>G	ENST00000424728.1	+	20	20469	c.20469A>G	c.(20467-20469)ttA>ttG	p.L6823L	FSIP2_ENST00000343098.5_Silent_p.L6912L			Q5CZC0	FSIP2_HUMAN	fibrous sheath interacting protein 2	6823										NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(4)|kidney(1)|large_intestine(11)|lung(46)|pancreas(1)|urinary_tract(2)	69						CTAAAATATTAGAAGGTTGGA	0.289																																																0													114	102	105					2																	186689203		1796	4067	5863	SO:0001819	synonymous_variant	401024			AK092099	CCDS54426.1	2q32.1	2010-06-18			ENSG00000188738	ENSG00000188738			21675	protein-coding gene	gene with protein product		615796				14702039	Standard	NM_173651		Approved	FLJ34780	uc002upl.3	Q5CZC0	OTTHUMG00000153874	ENST00000424728.1:c.20469A>G	2.37:g.186689203A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q53TL3|Q53TN5|Q5HYH2|Q6ZTZ5|Q6ZU14|Q6ZU21	Silent	SNP	ENST00000424728.1	37																																																																																					0.289	FSIP2-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000332778.3	NM_173651		G	186689203	A	G	186689203	2	3	623	1	0	0	0	0	0	0	0	1	6082	417	15	3		3	FSIP2	2	186689203	Silent	SNP	A	TCGA-KL-8324-01A-11D-2310-10	131144292	186689203	56510170	12	38212										
HECW2	57520	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	197106878	197106878	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	aaagttcctcagtttggcttCgaaatcccgcttgtaagggg	11	9	1	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr2:197106878C>T	ENST00000260983.3	-	20	3762	c.3580G>A	c.(3580-3582)Gaa>Aaa	p.E1194K	HECW2_ENST00000409111.1_Missense_Mutation_p.E838K	NM_020760.1	NP_065811.1	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin protein ligase 2	1194					protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			biliary_tract(1)|breast(3)|central_nervous_system(4)|cervix(2)|endometrium(7)|kidney(4)|large_intestine(24)|lung(45)|ovary(5)|pancreas(2)|prostate(2)|skin(10)|upper_aerodigestive_tract(2)|urinary_tract(2)	113						AGTTTGGCTTCGAAATCCCGC	0.483																																																0													167	167	167					2																	197106878		2203	4300	6503	SO:0001583	missense	57520			AL390186	CCDS33354.1	2q32.3	2004-12-13			ENSG00000138411	ENSG00000138411			29853	protein-coding gene	gene with protein product						10718198, 12890487	Standard	NM_020760		Approved	KIAA1301, NEDL2	uc002utm.1	Q9P2P5	OTTHUMG00000154435	ENST00000260983.3:c.3580G>A	2.37:g.197106878C>T	ENSP00000260983:p.Glu1194Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B8ZZB4|Q17RT5|Q68DF8|Q9NPS9	Missense_Mutation	SNP	ENST00000260983.3	37	CCDS33354.1	.	.	.	.	.	.	.	.	.	.	C	26.2	4.713155	0.89112	.	.	ENSG00000138411	ENST00000409111;ENST00000260983	D;D	0.87412	-2.25;-2.25	4.75	4.75	0.60458	HECT (1);	0.059233	0.64402	D	0.000002	D	0.92437	0.7599	M	0.73217	2.22	0.80722	D	1	D	0.89917	1.0	D	0.73708	0.981	D	0.90986	0.4831	10	0.30854	T	0.27	.	17.9302	0.88994	0.0:1.0:0.0:0.0	.	1194	Q9P2P5	HECW2_HUMAN	K	838;1194	ENSP00000386775:E838K;ENSP00000260983:E1194K	ENSP00000260983:E1194K	E	-	1	0	HECW2	196815123	1.000000	0.71417	1.000000	0.80357	0.965000	0.64279	7.651000	0.83577	2.466000	0.83321	0.563000	0.77884	GAA		0.483	HECW2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335199.3	NM_020760		T	197106878	C	T	197106878	3	4	623	1	0	0	0	0	1	0	0	0	7050	893	31	1	1178	1	HECW2	2	197106878	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	10417675	197106878	46092495	13	38213										
SLC6A6	6533	broad.mit.edu;bcgsc.ca	37	chr3	14513818	14513818	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gcttctcttgcttggactggAtagccaggtgcgtataaggg	14	8	1	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr3:14513818A>G	ENST00000454876.2	+	10	1531	c.1202A>G	c.(1201-1203)gAt>gGt	p.D401G	SLC6A6_ENST00000360861.3_Missense_Mutation_p.D401G			P31641	SC6A6_HUMAN	solute carrier family 6 (neurotransmitter transporter), member 6	401					amino acid transport (GO:0006865)|cellular amino acid metabolic process (GO:0006520)|ion transport (GO:0006811)|taurine transport (GO:0015734)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	neurotransmitter:sodium symporter activity (GO:0005328)|taurine binding (GO:0030977)|taurine:sodium symporter activity (GO:0005369)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(11)|ovary(1)|prostate(1)|skin(2)	28						CTTGGACTGGATAGCCAGGTG	0.537																																																0													101	93	96					3																	14513818		2203	4300	6503	SO:0001583	missense	6533				CCDS33705.1, CCDS46765.1	3p25.1	2013-07-19	2013-07-19		ENSG00000131389	ENSG00000131389		"Solute carriers"	11052	protein-coding gene	gene with protein product	"taurine transporter"	186854	"solute carrier family 6 (neurotransmitter transporter, taurine), member 6"			8010975, 8382624	Standard	XM_006713307		Approved	TAUT	uc010heg.4	P31641	OTTHUMG00000155525	ENST00000454876.2:c.1202A>G	3.37:g.14513818A>G	ENSP00000398063:p.Asp401Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNU7|Q9BRI2|Q9BXB0	Missense_Mutation	SNP	ENST00000454876.2	37	CCDS33705.1	.	.	.	.	.	.	.	.	.	.	A	27.0	4.790541	0.90367	.	.	ENSG00000131389	ENST00000454876;ENST00000360861	T;T	0.74737	-0.87;-0.87	5.35	5.35	0.76521	.	0.000000	0.85682	D	0.000000	D	0.84160	0.5411	M	0.62209	1.925	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.85190	0.1009	10	0.54805	T	0.06	.	15.3455	0.74334	1.0:0.0:0.0:0.0	.	401	P31641	SC6A6_HUMAN	G	401	ENSP00000398063:D401G;ENSP00000354107:D401G	ENSP00000354107:D401G	D	+	2	0	SLC6A6	14488822	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	9.339000	0.96797	2.021000	0.59480	0.482000	0.46254	GAT		0.537	SLC6A6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340507.1	NM_003043		G	14513818	A	G	14513818	3	3	623	1	0	0	0	0	1	0	0	0	14701	333	12	3	1236	3	SLC6A6	3	14513818	Missense_Mutation	SNP	A	TCGA-KL-8324-01A-11D-2310-10		14513818	183508612	14	38214										
SCN10A	6336	broad.mit.edu;mdanderson.org	37	chr3	38739266	38739266	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ttcagagaatccaactccccGgattctcctaggacattctt	6	13	3	1	rs111535651	byFrequency	TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr3:38739266G>A	ENST00000449082.2	-	27	5444	c.5445C>T	c.(5443-5445)tcC>tcT	p.S1815S		NM_006514.2	NP_006505.2	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha subunit	1815					AV node cell to bundle of His cell communication (GO:0086067)|bundle of His cell to Purkinje myocyte communication (GO:0086069)|membrane depolarization during action potential (GO:0086010)|neuronal action potential (GO:0019228)|regulation of atrial cardiac muscle cell membrane depolarization (GO:0060371)|regulation of cardiac muscle contraction (GO:0055117)|regulation of heart rate (GO:0002027)|regulation of ion transmembrane transport (GO:0034765)|sensory perception (GO:0007600)|sensory perception of pain (GO:0019233)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	C-fiber (GO:0044299)|extracellular vesicular exosome (GO:0070062)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)			NS(5)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(14)|kidney(5)|large_intestine(33)|lung(54)|ovary(5)|pancreas(1)|prostate(5)|skin(13)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	150				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cinchocaine(DB00527)|Cocaine(DB00907)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Lacosamide(DB06218)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Orphenadrine(DB01173)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)|Valproic Acid(DB00313)	CCAACTCCCCGGATTCTCCTA	0.438																																																0													66	66	66					3																	38739266		2203	4300	6503	SO:0001819	synonymous_variant	6336			AF117907	CCDS33736.1	3p22.2	2012-02-26	2007-01-23		ENSG00000185313	ENSG00000185313		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10582	protein-coding gene	gene with protein product		604427	"sodium channel, voltage-gated, type X, alpha polypeptide"			9839820, 10198179, 16382098	Standard	NM_006514		Approved	Nav1.8, hPN3, SNS, PN3	uc003ciq.3	Q9Y5Y9	OTTHUMG00000048245	ENST00000449082.2:c.5445C>T	3.37:g.38739266G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NDQ1	Silent	SNP	ENST00000449082.2	37	CCDS33736.1																																																																																				0.438	SCN10A-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109745.3	NM_006514		A	38739266	G	A	38739266	2	1	623	1	0	0	0	0	0	0	0	1	13925	1103	39	1		1	SCN10A	3	38739266	Silent	SNP	G	TCGA-KL-8324-01A-11D-2310-10	24225448	38739266	159283164	15	38215										
LYZL4	131375	broad.mit.edu	37	chr3	42438812	42438812	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tatcggagtactggcagtacCgggaccaggtgggcctgtgg	17	9	0	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr3:42438812C>T	ENST00000287748.3	-	5	661	c.386G>A	c.(385-387)cGg>cAg	p.R129Q	LYZL4_ENST00000441172.1_Missense_Mutation_p.R129Q|LYZL4_ENST00000470991.1_5'UTR	NM_144634.2	NP_653235.1	Q96KX0	LYZL4_HUMAN	lysozyme-like 4	129					cell wall macromolecule catabolic process (GO:0016998)	extracellular region (GO:0005576)|nucleus (GO:0005634)	lysozyme activity (GO:0003796)			central_nervous_system(1)|endometrium(1)|lung(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.222)		CTGGCAGTACCGGGACCAGGT	0.577																																																0													36	33	34					3																	42438812		2199	4294	6493	SO:0001583	missense	131375			BC016747, AF326749	CCDS2697.1	3p21.33	2006-04-12			ENSG00000157093	ENSG00000157093			28387	protein-coding gene	gene with protein product		612750				12477932	Standard	NM_144634		Approved	MGC26768, LYC4	uc003cle.3	Q96KX0	OTTHUMG00000131793	ENST00000287748.3:c.386G>A	3.37:g.42438812C>T	ENSP00000287748:p.Arg129Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000287748.3	37	CCDS2697.1	.	.	.	.	.	.	.	.	.	.	C	9.139	1.013375	0.19277	.	.	ENSG00000157093	ENST00000287748;ENST00000441172	T;T	0.44482	0.92;0.92	4.69	-4.11	0.03928	Lysozyme-like domain (1);	1.384820	0.05121	N	0.490651	T	0.24470	0.0593	N	0.25144	0.715	0.20196	N	0.999924	B	0.13594	0.008	B	0.06405	0.002	T	0.18555	-1.0333	10	0.32370	T	0.25	-0.0566	4.8737	0.13646	0.3737:0.1913:0.0:0.4351	.	129	Q96KX0	LYZL4_HUMAN	Q	129	ENSP00000287748:R129Q;ENSP00000387897:R129Q	ENSP00000287748:R129Q	R	-	2	0	LYZL4	42413816	0.311000	0.24536	0.886000	0.34754	0.458000	0.32498	-0.153000	0.10144	-0.456000	0.07043	-0.269000	0.10298	CGG		0.577	LYZL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254729.2	NM_144634		T	42438812	C	T	42438812	3	4	623	1	0	0	0	0	1	0	0	0	9140	652	23	1	58	1	LYZL4	3	42438812	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	3699546	42438812	155583618	16	38216										
CELSR3	1951	hgsc.bcm.edu;mdanderson.org	37	chr3	48682486	48682486	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	acccagcagcacagcagggaCgccccagcccagggcatggt	13	16	0	0	rs147124288	byFrequency	TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr3:48682486C>A	ENST00000164024.4	-	25	8234	c.7954G>T	c.(7954-7956)Gtc>Ttc	p.V2652F	CELSR3_ENST00000544264.1_Missense_Mutation_p.V2657F|MIR4793_ENST00000577502.1_RNA	NM_001407.2	NP_001398.2	Q9NYQ7	CELR3_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 3	2652					axonal fasciculation (GO:0007413)|cilium assembly (GO:0042384)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|regulation of protein localization (GO:0032880)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(1)|biliary_tract(1)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(23)|ovary(9)|prostate(6)|skin(7)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(5)	83				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		ACAGCAGGGACGCCCCAGCCC	0.662																																																0													34	37	36					3																	48682486		2200	4297	6497	SO:0001583	missense	1951			AF231023	CCDS2775.1	3p21.31	2014-08-08	2013-02-18		ENSG00000008300	ENSG00000008300		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	3230	protein-coding gene	gene with protein product	"flamingo homolog 1 (Drosophila)"	604264	"cadherin EGF LAG seven-pass G-type receptor 3, flamingo (Drosophila) homolog"	EGFL1		9693030	Standard	NM_001407		Approved	MEGF2, HFMI1, FMI1, CDHF11	uc003cuf.1	Q9NYQ7	OTTHUMG00000133544	ENST00000164024.4:c.7954G>T	3.37:g.48682486C>A	ENSP00000164024:p.Val2652Phe	Somatic		WXS	Illumina HiSeq	Phase_I	O75092	Missense_Mutation	SNP	ENST00000164024.4	37	CCDS2775.1	.	.	.	.	.	.	.	.	.	.	C	20.5	4.001497	0.74818	.	.	ENSG00000008300	ENST00000164024;ENST00000544264	T;T	0.38722	1.12;1.12	5.15	3.36	0.38483	GPCR, family 2-like (1);	.	.	.	.	T	0.54663	0.1872	L	0.48986	1.54	0.58432	D	0.999996	D;D	0.65815	0.977;0.995	P;D	0.67382	0.896;0.951	T	0.54510	-0.8283	9	0.72032	D	0.01	.	11.4727	0.50280	0.0:0.8528:0.0:0.1472	.	2652;2749	Q9NYQ7;Q5Y190	CELR3_HUMAN;.	F	2652;2657	ENSP00000164024:V2652F;ENSP00000445694:V2657F	ENSP00000164024:V2652F	V	-	1	0	CELSR3	48657490	0.998000	0.40836	0.695000	0.30226	0.936000	0.57629	3.769000	0.55303	0.574000	0.29417	-0.339000	0.08088	GTC		0.662	CELSR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257523.1	NM_001407		A	48682486	C	A	48682486	3	1	623	1	0	0	0	0	1	0	0	0	3225	536	19	4	2028	4	CELSR3	3	48682486	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	6243674	48682486	149339944	17	38217										
CCDC80	151887	broad.mit.edu	37	chr3	112357042	112357042	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	cttgctctttttctcagactTcttcatttgcttttcactct	3	12	6	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr3:112357042T>C	ENST00000206423.3	-	2	2664	c.1711A>G	c.(1711-1713)Aag>Gag	p.K571E	CCDC80_ENST00000439685.2_Missense_Mutation_p.K571E|CCDC80_ENST00000475181.1_5'Flank	NM_199511.1|NM_199512.1	NP_955805.1|NP_955806.1	Q76M96	CCD80_HUMAN	coiled-coil domain containing 80	571	Lys-rich.				extracellular matrix organization (GO:0030198)|positive regulation of cell-substrate adhesion (GO:0010811)	basement membrane (GO:0005604)|interstitial matrix (GO:0005614)	heparin binding (GO:0008201)			breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(13)|liver(1)|lung(21)|ovary(3)|pancreas(2)|prostate(4)	51						ttctcagacttcttcatttgc	0.368																																																0													166	143	151					3																	112357042		2203	4300	6503	SO:0001583	missense	151887			AY333429	CCDS2968.1	3q13.2	2010-12-24			ENSG00000091986	ENSG00000091986			30649	protein-coding gene	gene with protein product	"steroid sensitive gene 1"	608298				15325258, 18178152	Standard	XM_005247135		Approved	URB, SSG1, DRO1	uc003dzf.3	Q76M96	OTTHUMG00000159265	ENST00000206423.3:c.1711A>G	3.37:g.112357042T>C	ENSP00000206423:p.Lys571Glu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DN67|Q5PR20|Q6GPG9|Q8IVT6|Q8NBV1|Q8NHY8	Missense_Mutation	SNP	ENST00000206423.3	37	CCDS2968.1	.	.	.	.	.	.	.	.	.	.	T	17.85	3.489827	0.64074	.	.	ENSG00000091986	ENST00000206423;ENST00000439685;ENST00000444594	T;T	0.51325	0.71;0.71	5.52	5.52	0.82312	.	0.201324	0.50627	D	0.000101	T	0.37598	0.1009	L	0.27053	0.805	0.36946	D	0.89262	P;P;B	0.42692	0.687;0.787;0.355	B;B;B	0.39503	0.301;0.158;0.1	T	0.46359	-0.9197	10	0.42905	T	0.14	-27.697	15.6438	0.77033	0.0:0.0:0.0:1.0	.	582;571;571	Q76M96-2;A3KC71;Q76M96	.;.;CCD80_HUMAN	E	571;571;199	ENSP00000206423:K571E;ENSP00000411814:K571E	ENSP00000206423:K571E	K	-	1	0	CCDC80	113839732	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	3.304000	0.51866	2.096000	0.63516	0.454000	0.30748	AAG		0.368	CCDC80-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354219.1	NM_199511		C	112357042	T	C	112357042	3	2	623	1	0	0	0	0	1	0	0	0	2856	1792	62	3	1169	3	CCDC80	3	112357042	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10	63674556	112357042	85665388	18	38218										
GRAMD1C	54762	ucsc.edu	37	chr3	113594422	113594422	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ttctatagcaacatcttcagAtgggaaactacagtaagaca	7	8	3	2			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr3:113594422A>G	ENST00000358160.4	+	4	843	c.351A>G	c.(349-351)agA>agG	p.R117R	GRAMD1C_ENST00000452134.2_5'UTR|GRAMD1C_ENST00000479212.1_3'UTR	NM_017577.4	NP_060047.3	Q8IYS0	GRM1C_HUMAN	GRAM domain containing 1C	117	GRAM.					integral component of membrane (GO:0016021)				NS(1)|endometrium(1)|large_intestine(6)|lung(13)|ovary(2)|skin(3)	26						ACATCTTCAGATGGGAAACTA	0.343																																																0													111	109	110					3																	113594422		2203	4300	6503	SO:0001819	synonymous_variant	54762				CCDS33826.1, CCDS54625.1	3q13.31	2005-11-02			ENSG00000178075	ENSG00000178075			25252	protein-coding gene	gene with protein product						12975309	Standard	NM_017577		Approved	DKFZp434C0328	uc003eaq.4	Q8IYS0	OTTHUMG00000159340	ENST00000358160.4:c.351A>G	3.37:g.113594422A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K9Y1|A8KA99|Q6AW94|Q6UWN1|Q8N6S0|Q9UF46	Silent	SNP	ENST00000358160.4	37	CCDS33826.1																																																																																				0.343	GRAMD1C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354733.1	NM_017577		G	113594422	A	G	113594422	2	3	623	1	0	0	0	0	0	0	0	1	6756	330	12	3		3	GRAMD1C	3	113594422	Silent	SNP	A	TCGA-KL-8324-01A-11D-2310-10	1237380	113594422	84428008	19	38219										
ATR	545	bcgsc.ca	37	chr3	142180902	142180902	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tgttcgaatatgaagttctcTtctacgagactctgcatctt	7	9	4	2			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr3:142180902T>C	ENST00000350721.4	-	42	7193	c.7072A>G	c.(7072-7074)Aga>Gga	p.R2358G	ATR_ENST00000383101.3_Missense_Mutation_p.R2294G	NM_001184.3	NP_001175.2	Q13535	ATR_HUMAN	ATR serine/threonine kinase	2358	PI3K/PI4K. {ECO:0000255|PROSITE- ProRule:PRU00269}.				cell cycle (GO:0007049)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to gamma radiation (GO:0071480)|cellular response to UV (GO:0034644)|DNA damage checkpoint (GO:0000077)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|multicellular organismal development (GO:0007275)|negative regulation of DNA replication (GO:0008156)|peptidyl-serine phosphorylation (GO:0018105)|positive regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043517)|protein autophosphorylation (GO:0046777)|regulation of protein binding (GO:0043393)|replicative senescence (GO:0090399)|response to drug (GO:0042493)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)|PML body (GO:0016605)|XY body (GO:0001741)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|MutLalpha complex binding (GO:0032405)|MutSalpha complex binding (GO:0032407)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(10)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(20)|liver(2)|lung(45)|ovary(3)|skin(10)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(4)	122						TGAAGTTCTCTTCTACGAGAC	0.308								Other conserved DNA damage response genes																																								0													106	107	107					3																	142180902		2203	4298	6501	SO:0001583	missense	545			U76308	CCDS3124.1	3q23	2014-06-17	2014-06-17		ENSG00000175054	ENSG00000175054			882	protein-coding gene	gene with protein product	"MEC1, mitosis entry checkpoint 1, homolog (S. cerevisiae)"	601215	"ataxia telangiectasia and Rad3 related"			8978690, 8610130	Standard	NM_001184		Approved	FRP1, SCKL, SCKL1, MEC1	uc003eux.4	Q13535	OTTHUMG00000159234	ENST00000350721.4:c.7072A>G	3.37:g.142180902T>C	ENSP00000343741:p.Arg2358Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q59HB2|Q7KYL3|Q93051|Q9BXK4	Missense_Mutation	SNP	ENST00000350721.4	37	CCDS3124.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	18.51|18.51	3.640205|3.640205	0.67244|0.67244	.|.	.|.	ENSG00000175054|ENSG00000175054	ENST00000513291|ENST00000350721;ENST00000383101	.|D;D	.|0.90788	.|-2.73;-2.73	5.34|5.34	2.85|2.85	0.33270|0.33270	.|Protein kinase-like domain (1);Phosphatidylinositol 3-/4-kinase, catalytic (3);	.|0.000000	.|0.85682	.|D	.|0.000000	D|D	0.95686|0.95686	0.8597|0.8597	M|M	0.89904|0.89904	3.07|3.07	0.80722|0.80722	D|D	1|1	.|D	.|0.89917	.|1.0	.|D	.|0.97110	.|1.0	D|D	0.95467|0.95467	0.8548|0.8548	5|10	.|0.87932	.|D	.|0	-19.2197|-19.2197	13.3797|13.3797	0.60761|0.60761	0.0:0.0:0.4616:0.5384|0.0:0.0:0.4616:0.5384	.|.	.|2358	.|Q13535	.|ATR_HUMAN	R|G	204|2358;2294	.|ENSP00000343741:R2358G;ENSP00000372581:R2294G	.|ENSP00000343741:R2358G	K|R	-|-	2|1	0|2	ATR|ATR	143663592|143663592	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.991000|0.991000	0.79684|0.79684	1.769000|1.769000	0.38522|0.38522	0.380000|0.380000	0.24823|0.24823	0.533000|0.533000	0.62120|0.62120	AAG|AGA		0.308	ATR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353995.2	NM_001184		C	142180902	T	C	142180902	3	2	623	1	0	0	0	0	1	0	0	0	1204	1617	56	3	886	3	ATR	3	142180902	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10	28586480	142180902	55841528	20	38220										
B3GALNT1	8706	broad.mit.edu	37	chr3	160804293	160804293	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	atctgaagggtgggaggtcaCcagaatgaccagaaatggat	14	6	2	4			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr3:160804293C>T	ENST00000392781.2	-	8	997	c.250G>A	c.(250-252)Gtg>Atg	p.V84M	B3GALNT1_ENST00000488170.1_Missense_Mutation_p.V84M|B3GALNT1_ENST00000392779.2_Missense_Mutation_p.V84M|B3GALNT1_ENST00000417187.1_Intron|B3GALNT1_ENST00000320474.4_Missense_Mutation_p.V84M|B3GALNT1_ENST00000392780.1_Missense_Mutation_p.V84M|B3GALNT1_ENST00000473285.1_Missense_Mutation_p.V84M	NM_001038628.1	NP_001033717.1	O75752	B3GL1_HUMAN	beta-1,3-N-acetylgalactosaminyltransferase 1 (globoside blood group)	84					oligosaccharide biosynthetic process (GO:0009312)|protein glycosylation (GO:0006486)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	galactosylgalactosylglucosylceramide beta-D-acetylgalactosaminyltransferase activity (GO:0047273)|UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity (GO:0008499)			breast(1)|large_intestine(4)|lung(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	13			LUSC - Lung squamous cell carcinoma(72;4.41e-05)|Lung(72;4.61e-05)			TGGGAGGTCACCAGAATGACC	0.428																																																0													89	91	90					3																	160804293		2203	4300	6503	SO:0001583	missense	8706			Y15062	CCDS3193.1	3q25	2014-07-18	2006-06-14	2006-05-09	ENSG00000169255	ENSG00000169255	2.4.1.79	"Blood group antigens", "Beta 3-glycosyltransferases"	918	protein-coding gene	gene with protein product	"globoside synthase", "P antigen synthase"	603094	"UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 3 (Globoside blood group)", "UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 1 (Globoside blood group)"	B3GALT3		9582303, 10993897	Standard	XM_005247861		Approved	beta3Gal-T3, galT3, P1, GLOB	uc003fdv.3	O75752	OTTHUMG00000159064	ENST00000392781.2:c.250G>A	3.37:g.160804293C>T	ENSP00000376532:p.Val84Met	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNM4|Q3Y531|Q6IAI5|Q8NFM8|Q8NFM9|Q9HA06	Missense_Mutation	SNP	ENST00000392781.2	37	CCDS3193.1	.	.	.	.	.	.	.	.	.	.	C	19.07	3.755841	0.69648	.	.	ENSG00000169255	ENST00000320474;ENST00000392779;ENST00000392780;ENST00000392781;ENST00000473285;ENST00000488170;ENST00000468268	T;T;T;T;T;T;T	0.62498	0.41;0.41;0.41;0.41;0.41;0.41;0.02	5.73	5.73	0.89815	.	0.000000	0.64402	D	0.000012	T	0.68742	0.3034	N	0.24115	0.695	0.41161	D	0.986093	D	0.76494	0.999	D	0.65987	0.94	T	0.72776	-0.4191	10	0.87932	D	0	.	18.8796	0.92351	0.0:1.0:0.0:0.0	.	84	O75752	B3GL1_HUMAN	M	84	ENSP00000323479:V84M;ENSP00000376530:V84M;ENSP00000376531:V84M;ENSP00000376532:V84M;ENSP00000418226:V84M;ENSP00000420163:V84M;ENSP00000419476:V84M	ENSP00000323479:V84M	V	-	1	0	B3GALNT1	162286987	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	3.252000	0.51461	2.701000	0.92244	0.561000	0.74099	GTG		0.428	B3GALNT1-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353125.1	NM_033167		T	160804293	C	T	160804293	3	4	623	1	0	0	0	0	1	0	0	0	1245	507	18	2	749	2	B3GALNT1	3	160804293	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	18623391	160804293	37218137	21	38221										
MUC20	200958	mdanderson.org	37	chr3	195453332	195453332	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ctacaaccaacagcagccgaGggacgaacagcaccttagcc	9	15	0	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr3:195453332G>A	ENST00000447234.2	+	2	1984	c.1858G>A	c.(1858-1860)Ggg>Agg	p.G620R	MUC20_ENST00000320736.6_Missense_Mutation_p.G449R|MUC20_ENST00000436408.1_Missense_Mutation_p.G620R|MUC20_ENST00000445522.2_Missense_Mutation_p.G585R	NM_001282506.1	NP_001269435.1	Q8N307	MUC20_HUMAN	mucin 20, cell surface associated	620	Involved in oligomerization.|Thr-rich.				activation of MAPK activity (GO:0000187)|cellular protein metabolic process (GO:0044267)|hepatocyte growth factor receptor signaling pathway (GO:0048012)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein homooligomerization (GO:0051260)	basal plasma membrane (GO:0009925)|cell projection (GO:0042995)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)				NS(1)|breast(1)|endometrium(3)|kidney(3)|large_intestine(3)|lung(4)|skin(4)|stomach(3)|upper_aerodigestive_tract(1)	23	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.191)	Epithelial(36;1e-21)|all cancers(36;9.02e-20)|OV - Ovarian serous cystadenocarcinoma(49;1.6e-18)|Lung(62;0.000104)|LUSC - Lung squamous cell carcinoma(58;0.000128)	GBM - Glioblastoma multiforme(46;1.66e-05)		CAGCAGCCGAGGGACGAACAG	0.612																																																0																																										SO:0001583	missense	200958			AB037780	CCDS63877.1	3q29	2008-08-07	2006-03-14		ENSG00000176945	ENSG00000176945		"Mucins"	23282	protein-coding gene	gene with protein product		610360				14565953	Standard	NM_001282506		Approved	FLJ14408, KIAA1359	uc010hzo.3	Q8N307	OTTHUMG00000155823	ENST00000447234.2:c.1858G>A	3.37:g.195453332G>A	ENSP00000414350:p.Gly620Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UX97|Q76I83|Q76I85|Q86ST8|Q8NBY6|Q96KA1|Q9P2I8	Missense_Mutation	SNP	ENST00000447234.2	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	11.15|11.15	1.553505|1.553505	0.27739|0.27739	.|.	.|.	ENSG00000176945|ENSG00000176945	ENST00000381954;ENST00000447234;ENST00000320736;ENST00000436408;ENST00000445522|ENST00000423938	T;T;T;T|T	0.13901|0.21932	2.97;2.98;3.15;2.55|1.98	4.83|4.83	2.02|2.02	0.26589|0.26589	.|.	1.113110|.	0.06939|.	N|.	0.812407|.	T|T	0.10981|0.10981	0.0268|0.0268	N|N	0.14661|0.14661	0.345|0.345	0.09310|0.09310	N|N	1|1	P|.	0.35844|.	0.524|.	B|.	0.38500|.	0.275|.	T|T	0.37407|0.37407	-0.9707|-0.9707	10|7	0.17369|0.19147	T|T	0.5|0.46	1.6052|1.6052	6.2028|6.2028	0.20585|0.20585	0.3217:0.0:0.6783:0.0|0.3217:0.0:0.6783:0.0	.|.	449|.	E9PH32|.	.|.	R|K	431;620;449;620;585|31	ENSP00000414350:G620R;ENSP00000325431:G449R;ENSP00000396774:G620R;ENSP00000405629:G585R|ENSP00000397774:R31K	ENSP00000325431:G449R|ENSP00000397774:R31K	G|R	+|+	1|2	0|0	MUC20|MUC20	196939003|196939003	0.024000|0.024000	0.19004|0.19004	0.002000|0.002000	0.10522|0.10522	0.002000|0.002000	0.02628|0.02628	1.013000|1.013000	0.29937|0.29937	0.320000|0.320000	0.23234|0.23234	-0.140000|-0.140000	0.14226|0.14226	GGG|AGG		0.612	MUC20-001	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000341835.1	NM_152673		A	195453332	G	A	195453332	3	1	623	1	0	0	0	0	1	0	0	0	9983	1000	35	2	1355	2	MUC20	3	195453332	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10	34649039	195453332	2569098	22	38222										
GABRA4	2557	broad.mit.edu;mdanderson.org	37	chr4	46976325	46976325	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	actaagctggaagactccttCggaacttcaactgatttctc	7	11	2	2			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr4:46976325C>T	ENST00000264318.3	-	6	1627	c.645G>A	c.(643-645)ccG>ccA	p.P215P		NM_000809.3|NM_001204266.1|NM_001204267.1	NP_000800.2|NP_001191195.1|NP_001191196.1	P48169	GBRA4_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha 4	215					central nervous system development (GO:0007417)|gamma-aminobutyric acid signaling pathway (GO:0007214)|ion transmembrane transport (GO:0034220)|regulation of response to drug (GO:2001023)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|transport (GO:0006810)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	benzodiazepine receptor activity (GO:0008503)|chloride channel activity (GO:0005254)|extracellular ligand-gated ion channel activity (GO:0005230)|GABA-A receptor activity (GO:0004890)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(9)|lung(17)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	45					Acamprosate(DB00659)|Alprazolam(DB00404)|Amobarbital(DB01351)|Amoxapine(DB00543)|Aprobarbital(DB01352)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Heptabarbital(DB01354)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Thiopental(DB00599)|Topiramate(DB00273)|Triazolam(DB00897)	AAGACTCCTTCGGAACTTCAA	0.398																																					Ovarian(6;283 369 8234 12290 33402)											0													118	109	112					4																	46976325		2203	4300	6503	SO:0001819	synonymous_variant	2557				CCDS3473.1	4p12	2012-06-22			ENSG00000109158	ENSG00000109158		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4078	protein-coding gene	gene with protein product	"GABA(A) receptor, alpha 4"	137141				7607683	Standard	NM_000809		Approved		uc021xnz.1	P48169	OTTHUMG00000099431	ENST00000264318.3:c.645G>A	4.37:g.46976325C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYR7	Silent	SNP	ENST00000264318.3	37	CCDS3473.1																																																																																				0.398	GABRA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216893.1			T	46976325	C	T	46976325	2	4	623	1	0	0	0	0	0	0	0	1	6170	871	31	1		1	GABRA4	4	46976325	Silent	SNP	C	TCGA-KL-8324-01A-11D-2310-10		46976325	144177951	23	38223										
PPAT	5471	broad.mit.edu;mdanderson.org	37	chr4	57265347	57265347	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tgttttaatattacttacctCttttgcaccagattctttga	4	8	2	2			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr4:57265347C>G	ENST00000264220.2	-	9	1371	c.1234G>C	c.(1234-1236)Gag>Cag	p.E412Q	RP11-646I6.6_ENST00000602749.1_lincRNA|PPAT_ENST00000507648.1_5'Flank	NM_002703.4	NP_002694.3	Q06203	PUR1_HUMAN	phosphoribosyl pyrophosphate amidotransferase	412					'de novo' IMP biosynthetic process (GO:0006189)|cellular response to drug (GO:0035690)|cellular response to insulin stimulus (GO:0032869)|G1/S transition of mitotic cell cycle (GO:0000082)|glutamine catabolic process (GO:0006543)|kidney development (GO:0001822)|lactation (GO:0007595)|maternal process involved in female pregnancy (GO:0060135)|nucleobase-containing small molecule metabolic process (GO:0055086)|nucleoside metabolic process (GO:0009116)|organ regeneration (GO:0031100)|protein homotetramerization (GO:0051289)|purine nucleobase biosynthetic process (GO:0009113)|purine nucleobase metabolic process (GO:0006144)|purine nucleotide biosynthetic process (GO:0006164)|purine ribonucleoside monophosphate biosynthetic process (GO:0009168)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	4 iron, 4 sulfur cluster binding (GO:0051539)|amidophosphoribosyltransferase activity (GO:0004044)|metal ion binding (GO:0046872)			cervix(1)|endometrium(2)|large_intestine(6)|lung(8)|prostate(2)|upper_aerodigestive_tract(1)	20	Glioma(25;0.08)|all_neural(26;0.101)				Fluorouracil(DB00544)|L-Glutamine(DB00130)|Mercaptopurine(DB01033)	TTACTTACCTCTTTTGCACCA	0.313																																																0													81	85	84					4																	57265347		2202	4300	6502	SO:0001583	missense	5471				CCDS3505.1	4q12	2012-10-02			ENSG00000128059	ENSG00000128059	2.4.2.14		9238	protein-coding gene	gene with protein product		172450					Standard	NM_002703		Approved	GPAT, PRAT	uc003hbr.3	Q06203	OTTHUMG00000128842	ENST00000264220.2:c.1234G>C	4.37:g.57265347C>G	ENSP00000264220:p.Glu412Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000264220.2	37	CCDS3505.1	.	.	.	.	.	.	.	.	.	.	C	26.5	4.740737	0.89573	.	.	ENSG00000128059	ENST00000264220	D	0.99462	-5.94	5.24	5.24	0.73138	Phosphoribosyltransferase (1);	0.000000	0.85682	D	0.000000	D	0.99594	0.9853	M	0.88775	2.98	0.80722	D	1	D	0.76494	0.999	D	0.77557	0.99	D	0.98200	1.0467	10	0.72032	D	0.01	-9.1068	19.1864	0.93645	0.0:1.0:0.0:0.0	.	412	Q06203	PUR1_HUMAN	Q	412	ENSP00000264220:E412Q	ENSP00000264220:E412Q	E	-	1	0	PPAT	56960104	1.000000	0.71417	1.000000	0.80357	0.930000	0.56654	7.776000	0.85560	2.606000	0.88127	0.650000	0.86243	GAG		0.313	PPAT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250781.2	NM_002703		G	57265347	C	G	57265347	3	3	623	1	0	0	0	0	1	0	0	0	12309	922	32	4	331	4	PPAT	4	57265347	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	10289022	57265347	133888929	24	38224										
PRDM8	56978	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	81124587	81124587	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gagtatgcgatggagcccttGgtgaagcggcggcgagagga	19	7	0	2			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr4:81124587G>C	ENST00000504452.1	+	8	2810	c.1971G>C	c.(1969-1971)ttG>ttC	p.L657F	PRDM8_ENST00000415738.2_Missense_Mutation_p.L657F|PRDM8_ENST00000339711.4_Missense_Mutation_p.L657F			Q9NQV8	PRDM8_HUMAN	PR domain containing 8	657					corpus callosum morphogenesis (GO:0021540)|corticospinal tract morphogenesis (GO:0021957)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|histone methyltransferase activity (H3-K9 specific) (GO:0046974)|metal ion binding (GO:0046872)|transcription corepressor activity (GO:0003714)			breast(2)|central_nervous_system(1)|endometrium(1)|large_intestine(2)|lung(2)|skin(2)	10						TGGAGCCCTTGGTGAAGCGGC	0.567																																																0													33	38	36					4																	81124587		2146	4274	6420	SO:0001583	missense	56978			AF275815	CCDS43243.1	4q21	2008-08-21				ENSG00000152784			13993	protein-coding gene	gene with protein product							Standard	NM_020226		Approved		uc003hmc.4	Q9NQV8		ENST00000504452.1:c.1971G>C	4.37:g.81124587G>C	ENSP00000423985:p.Leu657Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7X2|Q6IQ36	Missense_Mutation	SNP	ENST00000504452.1	37	CCDS43243.1	.	.	.	.	.	.	.	.	.	.	G	14.76	2.630137	0.46944	.	.	ENSG00000152784	ENST00000504452;ENST00000339711;ENST00000415738	T;T;T	0.68181	-0.31;-0.31;-0.31	4.63	3.79	0.43588	.	0.230621	0.29987	N	0.010690	T	0.69242	0.3089	L	0.40543	1.245	0.47949	D	0.999553	D	0.76494	0.999	D	0.68765	0.96	T	0.66893	-0.5808	10	0.40728	T	0.16	.	6.5614	0.22489	0.1613:0.1487:0.69:0.0	.	657	Q9NQV8	PRDM8_HUMAN	F	657	ENSP00000423985:L657F;ENSP00000339764:L657F;ENSP00000406998:L657F	ENSP00000339764:L657F	L	+	3	2	PRDM8	81343611	0.289000	0.24334	0.991000	0.47740	0.990000	0.78478	0.282000	0.18829	1.157000	0.42530	0.591000	0.81541	TTG		0.567	PRDM8-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362793.1			C	81124587	G	C	81124587	3	2	623	1	0	0	0	0	1	0	0	0	12472	1339	47	4	1981	4	PRDM8	4	81124587	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10	23859240	81124587	110029689	25	38225										
BBS12	166379	broad.mit.edu	37	chr4	123663959	123663959	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tgtgtgcaacaaggcaactgTacaaaaccatttatgtttga	8	7	0	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr4:123663959T>C	ENST00000314218.3	+	2	1105	c.912T>C	c.(910-912)tgT>tgC	p.C304C	BBS12_ENST00000542236.1_Silent_p.C304C	NM_152618.2	NP_689831.2	Q6ZW61	BBS12_HUMAN	Bardet-Biedl syndrome 12	304					cellular protein metabolic process (GO:0044267)|chaperone-mediated protein complex assembly (GO:0051131)|eating behavior (GO:0042755)|intraciliary transport (GO:0042073)|negative regulation of fat cell differentiation (GO:0045599)|photoreceptor cell maintenance (GO:0045494)	cilium (GO:0005929)	ATP binding (GO:0005524)			cervix(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(6)|ovary(2)|prostate(4)	21						AAGGCAACTGTACAAAACCAT	0.408									Bardet-Biedl syndrome																																							0													79	69	72					4																	123663959		2203	4300	6503	SO:0001819	synonymous_variant	166379	Familial Cancer Database	BBS, Bardet-Biedl syndrome, type 1-12: BBS1-12,Laurence-Moon-Biedl syndrome	AK123553	CCDS3728.1	4q27	2014-06-17	2006-12-13	2006-12-13	ENSG00000181004	ENSG00000181004		"Heat Shock Proteins / Chaperonins"	26648	protein-coding gene	gene with protein product		610683	"chromosome 4 open reading frame 24"	C4orf24		17160889	Standard	NM_001178007		Approved	FLJ35630, FLJ41559	uc003ieu.3	Q6ZW61	OTTHUMG00000133070	ENST00000314218.3:c.912T>C	4.37:g.123663959T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DNX5|Q7Z342|Q7Z482|Q8NAB8	Silent	SNP	ENST00000314218.3	37	CCDS3728.1																																																																																				0.408	BBS12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256710.1	NM_152618		C	123663959	T	C	123663959	2	2	623	1	0	0	0	0	0	0	0	1	1337	1644	57	3		3	BBS12	4	123663959	Silent	SNP	T	TCGA-KL-8324-01A-11D-2310-10	42539372	123663959	67490317	26	38226										
SORBS2	8470	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr4	186560084	186560084	+	Intron	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tggtgtgggggcgccactccGgggcggaggggaggggctac	23	9	0	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr4:186560084G>A	ENST00000284776.7	-	10	1194				SORBS2_ENST00000498125.1_5'UTR|SORBS2_ENST00000393528.3_Intron|SORBS2_ENST00000418609.1_Intron|SORBS2_ENST00000449407.2_Intron|SORBS2_ENST00000431808.1_Intron|SORBS2_ENST00000319471.9_Missense_Mutation_p.R350W|SORBS2_ENST00000437304.2_Missense_Mutation_p.R443W|SORBS2_ENST00000448662.2_Intron|SORBS2_ENST00000355634.5_Intron	NM_021069.4	NP_066547.1	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2						actin filament organization (GO:0007015)|cell adhesion (GO:0007155)|cell migration (GO:0016477)	actin cytoskeleton (GO:0015629)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|Z disc (GO:0030018)	cytoskeletal adaptor activity (GO:0008093)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|structural constituent of cytoskeleton (GO:0005200)|structural constituent of muscle (GO:0008307)			endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(9)|lung(21)|ovary(2)|prostate(2)|skin(4)|urinary_tract(1)	53		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)		GCGCCACTCCGGGGCGGAGGG	0.647																																					Esophageal Squamous(153;41 2433 9491 36028)											0													18	25	23					4																	186560084		692	1591	2283	SO:0001627	intron_variant	8470				CCDS3845.1, CCDS43289.2, CCDS47173.1, CCDS47174.1, CCDS47175.1, CCDS47176.1, CCDS54825.1, CCDS59482.1	4q35.1	2008-02-05			ENSG00000154556	ENSG00000154556			24098	protein-coding gene	gene with protein product	"Arg/Abl interacting protein"					9211900, 9872452	Standard	NM_021069		Approved	ARGBP2, KIAA0777	uc003iym.3	O94875	OTTHUMG00000157215	ENST00000284776.7:c.684+7737C>T	4.37:g.186560084G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NEK9|B3KPQ7|B7Z1G5|B7Z3X6|C9JKV9|D3DP62|D3DP63|E9PAS5|E9PAW4|G3XAI0|H7BXR4|J3KNZ5|O60592|O60593|Q96EX0	Missense_Mutation	SNP	ENST00000284776.7	37	CCDS3845.1	.	.	.	.	.	.	.	.	.	.	G	19.60	3.858296	0.71834	.	.	ENSG00000154556	ENST00000437304;ENST00000319471;ENST00000319454	T;T;T	0.37411	1.2;1.22;1.39	4.05	-3.11	0.05299	.	.	.	.	.	T	0.34658	0.0905	L	0.36672	1.1	0.80722	D	1	D;P;D;P	0.63880	0.993;0.894;0.99;0.894	P;B;B;B	0.53490	0.727;0.312;0.336;0.312	T	0.37407	-0.9707	9	0.66056	D	0.02	.	9.0398	0.36311	0.0:0.0982:0.6601:0.2417	.	168;310;443;310	B3KPU4;O94875-4;E9PAW4;O94875-5	.;.;.;.	W	443;350;310	ENSP00000396008:R443W;ENSP00000322182:R350W;ENSP00000321983:R310W	ENSP00000321983:R310W	R	-	1	2	SORBS2	186797078	0.987000	0.35691	0.915000	0.36163	0.979000	0.70002	-0.133000	0.10451	-0.532000	0.06332	0.561000	0.74099	CGG		0.647	SORBS2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000347944.3	NM_003603		A	186560084	G	A	186560084	1	1	623	0	1	0	0	0	0	0	0	0	14941	1115	39	1		1	SORBS2	4	186560084	Intron	SNP	G	TCGA-KL-8324-01A-11D-2310-10	62896125	186560084	4594192	27	38227										
FAT1	2195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr4	187527260	187527260	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tagtttcccctggagaagacGggcgcgttgtcattgacatc	12	10	1	3			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr4:187527260G>T	ENST00000441802.2	-	17	10523	c.10314C>A	c.(10312-10314)ccC>ccA	p.P3438P		NM_005245.3	NP_005236.2	Q14517	FAT1_HUMAN	FAT atypical cadherin 1	3438	Cadherin 31. {ECO:0000255|PROSITE- ProRule:PRU00043}.				actin filament organization (GO:0007015)|anatomical structure morphogenesis (GO:0009653)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|cell-cell signaling (GO:0007267)|establishment or maintenance of cell polarity (GO:0007163)|homophilic cell adhesion (GO:0007156)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)	p.P3441P(1)|p.P3438P(1)		NS(1)|breast(3)|central_nervous_system(3)|endometrium(38)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(33)|lung(88)|ovary(13)|pancreas(2)|prostate(16)|skin(2)|upper_aerodigestive_tract(11)|urinary_tract(4)	228						TGGAGAAGACGGGCGCGTTGT	0.522										HNSCC(5;0.00058)																											Colon(197;1040 2055 4143 4984 49344)											2	Substitution - coding silent(2)	endometrium(2)											141	138	139					4																	187527260		1990	4174	6164	SO:0001819	synonymous_variant	2195			X87241	CCDS47177.1	4q35.2	2013-05-31	2013-05-31	2008-10-30	ENSG00000083857	ENSG00000083857		"Cadherins / Cadherin-related"	3595	protein-coding gene	gene with protein product	"cadherin-related family member 8"	600976	"FAT tumor suppressor (Drosophila) homolog", "FAT tumor suppressor homolog 1 (Drosophila)"	FAT		8586420	Standard	XM_005262834		Approved	CDHF7, CDHR8	uc003izf.3	Q14517	OTTHUMG00000160320	ENST00000441802.2:c.10314C>A	4.37:g.187527260G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000441802.2	37	CCDS47177.1																																																																																				0.522	FAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360209.3	NM_005245		T	187527260	G	T	187527260	2	4	623	1	0	0	0	0	0	0	0	1	5696	1103	39	4		4	FAT1	4	187527260	Silent	SNP	G	TCGA-KL-8324-01A-11D-2310-10	967176	187527260	3627016	28	38228										
PCSK1	5122	broad.mit.edu	37	chr5	95746664	95746664	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ccgtttcccgaagcccagacGaagatggaccccttcccctg	9	17	0	2	rs376062034		TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr5:95746664G>A	ENST00000311106.3	-	8	1146	c.909C>T	c.(907-909)ttC>ttT	p.F303F	PCSK1_ENST00000513085.1_Intron|PCSK1_ENST00000508626.1_Silent_p.F256F|CTD-2337A12.1_ENST00000502645.2_RNA	NM_000439.4|NM_001177876.1	NP_000430.3|NP_001171347.1	P29120	NEC1_HUMAN	proprotein convertase subtilisin/kexin type 1	303	Peptidase S8.				cell-cell signaling (GO:0007267)|cellular protein metabolic process (GO:0044267)|metabolic process (GO:0008152)|peptide biosynthetic process (GO:0043043)|peptide hormone processing (GO:0016486)|proteolysis (GO:0006508)|regulation of insulin secretion (GO:0050796)	extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|secretory granule lumen (GO:0034774)	serine-type endopeptidase activity (GO:0004252)			NS(1)|endometrium(3)|kidney(3)|large_intestine(5)|lung(14)|ovary(2)|prostate(3)|skin(3)|urinary_tract(2)	36		all_cancers(142;2.67e-06)|all_epithelial(76;6.92e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0112)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;3.44e-16)	"""Insulin(DB00071)|Insulin Regular(DB00030)"	AAGCCCAGACGAAGATGGACC	0.498																																																0													142	136	138					5																	95746664		2203	4300	6503	SO:0001819	synonymous_variant	5122				CCDS4081.1, CCDS54881.1	5q15-q21	2008-07-18			ENSG00000175426	ENSG00000175426			8743	protein-coding gene	gene with protein product	"prohormone convertase 3", "prohormone convertase 1", "neuroendocrine convertase 1", "proprotein convertase 1"	162150		NEC1		1765368	Standard	NM_000439		Approved	PC1, PC3, SPC3	uc003kls.2	P29120	OTTHUMG00000122089	ENST00000311106.3:c.909C>T	5.37:g.95746664G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8T7|E9PHA1|P78478|Q92532	Silent	SNP	ENST00000311106.3	37	CCDS4081.1																																																																																				0.498	PCSK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000242851.1	NM_000439		A	95746664	G	A	95746664	2	1	623	1	0	0	0	0	0	0	0	1	11607	1049	37	1		1	PCSK1	5	95746664	Silent	SNP	G	TCGA-KL-8324-01A-11D-2310-10		95746664	85168596	29	38229										
FBXL17	64839	broad.mit.edu	37	chr5	107700539	107700539	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	caataatagaggtgtcagaaAgctgtttacacctgtaggct	10	7	1	2			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr5:107700539A>G	ENST00000542267.1	-	3	1680	c.1274T>C	c.(1273-1275)cTt>cCt	p.L425P	FBXL17_ENST00000496714.1_Missense_Mutation_p.L27P|FBXL17_ENST00000359660.5_Missense_Mutation_p.L27P	NM_001163315.2	NP_001156787.2	Q9UF56	FXL17_HUMAN	F-box and leucine-rich repeat protein 17	425										endometrium(1)|large_intestine(4)|lung(1)	6		all_cancers(142;0.00273)|all_epithelial(76;0.000362)|Prostate(80;0.0115)|Myeloproliferative disorder(839;0.0393)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;9.63e-11)|Epithelial(69;4.02e-10)		GGTGTCAGAAAGCTGTTTACA	0.423																																																0													128	124	125					5																	107700539		2202	4299	6501	SO:0001583	missense	64839			AL133602	CCDS54886.1	5q21.3	2011-06-09	2004-06-15	2004-06-16	ENSG00000145743	ENSG00000145743		"F-boxes / Leucine-rich repeats"	13615	protein-coding gene	gene with protein product		609083	"F-box only protein 13"	FBXO13			Standard	NM_001163315		Approved	DKFZP434C1715, Fbx13, Fbl17	uc011cvc.2	Q9UF56	OTTHUMG00000159785	ENST00000542267.1:c.1274T>C	5.37:g.107700539A>G	ENSP00000437464:p.Leu425Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4E3	Missense_Mutation	SNP	ENST00000542267.1	37	CCDS54886.1	.	.	.	.	.	.	.	.	.	.	A	23.3	4.404130	0.83230	.	.	ENSG00000145743	ENST00000359660;ENST00000542267;ENST00000496714	T;T;T	0.02737	4.18;4.18;4.18	5.34	5.34	0.76211	.	0.000000	0.85682	D	0.000000	T	0.14614	0.0353	M	0.71206	2.165	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.998;0.999	T	0.00139	-1.2001	10	0.87932	D	0	.	15.6111	0.76716	1.0:0.0:0.0:0.0	.	425;27	Q9UF56;Q9UF56-2	FXL17_HUMAN;.	P	27;425;27	ENSP00000352683:L27P;ENSP00000437464:L425P;ENSP00000418111:L27P	ENSP00000352683:L27P	L	-	2	0	FBXL17	107728438	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	8.870000	0.92336	2.136000	0.66102	0.477000	0.44152	CTT		0.423	FBXL17-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding				G	107700539	A	G	107700539	3	3	623	1	0	0	0	0	1	0	0	0	5720	72	3	3	859	3	FBXL17	5	107700539	Missense_Mutation	SNP	A	TCGA-KL-8324-01A-11D-2310-10	11953875	107700539	73214721	30	38230										
PCDHB9	56126	broad.mit.edu;mdanderson.org	37	chr5	140569001	140569001	+	5'Flank	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tgtcttcgctcttcctcctcTcggtgctcctgttcgtggcg	10	15	3	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr5:140569001T>C	ENST00000239446.4	+	0	0					NM_018930.3	NP_061753.1	Q9UN67	PCDBA_HUMAN	protocadherin beta 10						calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(14)|lung(30)|ovary(4)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	76			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTTCCTCCTCTCGGTGCTCCT	0.701																																																0													48	56	53					5																	140569001		2175	4215	6390	SO:0001631	upstream_gene_variant	56127			AF152489	CCDS4252.1	5q31.3	2010-06-15			ENSG00000120324	ENSG00000120324		"Cadherins / Protocadherins : Clustered"	8681	other	protocadherin		606336				10380929	Standard	NM_018930		Approved		uc003lix.3	Q9UN67	OTTHUMG00000129626		5.37:g.140569001T>C	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	Q96T99	Missense_Mutation	SNP	ENST00000239446.4	37	CCDS4252.1																																																																																				0.701	PCDHB10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251821.1	NM_018930		C	140569001	T	C	140569001	1	2	623	0	1	0	0	0	0	0	0	0	11556	1538	54	3		3	PCDHB9	5	140569001	5'Flank	SNP	T	TCGA-KL-8324-01A-11D-2310-10	32868462	140569001	40346259	31	38231										
FRK	2444	broad.mit.edu	37	chr6	116325094	116325094	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ttctctgattagaaaggaacCggtcttgttttctgaatata	8	6	3	3			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr6:116325094C>T	ENST00000606080.1	-	2	858	c.412G>A	c.(412-414)Ggt>Agt	p.G138S	FRK_ENST00000538210.1_5'Flank	NM_002031.2	NP_002022.1	P42685	FRK_HUMAN	fyn-related Src family tyrosine kinase	138	SH2. {ECO:0000255|PROSITE- ProRule:PRU00191}.				cell differentiation (GO:0030154)|negative regulation of cell proliferation (GO:0008285)|peptidyl-tyrosine phosphorylation (GO:0018108)|protein phosphorylation (GO:0006468)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)	p.G138R(1)		breast(1)|endometrium(4)|kidney(2)|large_intestine(4)|lung(10)|ovary(3)|pancreas(1)|skin(1)|urinary_tract(1)	27		all_cancers(87;0.00559)|all_epithelial(87;0.00738)|Colorectal(196;0.0465)		all cancers(137;0.0128)|OV - Ovarian serous cystadenocarcinoma(136;0.0209)|GBM - Glioblastoma multiforme(226;0.0459)|Epithelial(106;0.0625)	Regorafenib(DB08896)	AGAAAGGAACCGGTCTTGTTT	0.368																																																1	Substitution - Missense(1)	endometrium(1)											86	81	83					6																	116325094		2203	4300	6503	SO:0001583	missense	2444			U00803	CCDS5103.1	6q21-q22.3	2014-06-25	2014-06-25		ENSG00000111816	ENSG00000111816	2.7.10.1	"SH2 domain containing"	3955	protein-coding gene	gene with protein product		606573	"PTK5 protein tyrosine kinase 5", "fyn-related kinase"	PTK5		7510261	Standard	NM_002031		Approved	RAK, GTK	uc003pwi.1	P42685	OTTHUMG00000015424	ENST00000606080.1:c.412G>A	6.37:g.116325094C>T	ENSP00000476145:p.Gly138Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DY49|Q13128|Q9NTR5	Missense_Mutation	SNP	ENST00000606080.1	37	CCDS5103.1	.	.	.	.	.	.	.	.	.	.	C	23.0	4.361640	0.82353	.	.	ENSG00000111816	ENST00000368626	T	0.75704	-0.96	5.97	5.97	0.96955	SH2 motif (5);	0.000000	0.64402	D	0.000005	T	0.81093	0.4751	H	0.97023	3.925	0.80722	D	1	B	0.30114	0.269	B	0.28232	0.087	T	0.83070	-0.0143	10	0.72032	D	0.01	.	19.9934	0.97376	0.0:1.0:0.0:0.0	.	138	P42685	FRK_HUMAN	S	138	ENSP00000357615:G138S	ENSP00000357615:G138S	G	-	1	0	FRK	116431787	1.000000	0.71417	0.969000	0.41365	0.956000	0.61745	6.360000	0.73064	2.825000	0.97269	0.655000	0.94253	GGT		0.368	FRK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041924.2	NM_002031		T	116325094	C	T	116325094	3	4	623	1	0	0	0	0	1	0	0	0	6055	652	23	1	1133	1	FRK	6	116325094	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10		116325094	54789973	32	38232										
SYNE1	23345	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	152652931	152652931	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tatcattttctgcttttgatCtttcagatcttcaatagcat	4	8	6	2			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr6:152652931C>G	ENST00000367255.5	-	78	13490	c.12889G>C	c.(12889-12891)Gat>Cat	p.D4297H	SYNE1_ENST00000448038.1_Missense_Mutation_p.D4226H|SYNE1_ENST00000341594.5_Missense_Mutation_p.D4162H|SYNE1_ENST00000265368.4_Missense_Mutation_p.D4297H|SYNE1_ENST00000423061.1_Missense_Mutation_p.D4226H	NM_182961.3	NP_892006.3	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4297					cell death (GO:0008219)|cytoskeletal anchoring at nuclear membrane (GO:0090286)|establishment of nucleus localization (GO:0040023)|Golgi organization (GO:0007030)|muscle cell differentiation (GO:0042692)|nuclear matrix anchoring at nuclear membrane (GO:0090292)|nucleus organization (GO:0006997)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|postsynaptic membrane (GO:0045211)|sarcomere (GO:0030017)|SUN-KASH complex (GO:0034993)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|lamin binding (GO:0005521)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)			NS(3)|biliary_tract(1)|breast(17)|central_nervous_system(21)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(4)|kidney(16)|large_intestine(138)|liver(1)|lung(190)|ovary(11)|pancreas(5)|prostate(12)|skin(20)|stomach(3)|upper_aerodigestive_tract(33)|urinary_tract(19)	524		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TGCTTTTGATCTTTCAGATCT	0.398										HNSCC(10;0.0054)																																						0													100	99	99					6																	152652931		2203	4300	6503	SO:0001583	missense	23345			AB018339	CCDS5235.1, CCDS5236.1, CCDS5236.2	6q24.2-q25.3	2014-09-17			ENSG00000131018	ENSG00000131018			17089	protein-coding gene	gene with protein product	"myocyte nuclear envelope protein 1", "nuclear envelope spectrin repeat-1"	608441	"chromosome 6 open reading frame 98"	C6orf98		9872452, 10878022	Standard	NM_182961		Approved	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1	uc003qou.4	Q8NF91	OTTHUMG00000015841	ENST00000367255.5:c.12889G>C	6.37:g.152652931C>G	ENSP00000356224:p.Asp4297His	Somatic		WXS	Illumina HiSeq	Phase_I	E7EQI5|O94890|Q5JV19|Q5JV22|Q8N9P7|Q8TCP1|Q8WWW6|Q8WWW7|Q8WXF6|Q96N17|Q9C0A7|Q9H525|Q9H526|Q9NS36|Q9NU50|Q9UJ06|Q9UJ07|Q9ULF8	Missense_Mutation	SNP	ENST00000367255.5	37	CCDS5236.2	.	.	.	.	.	.	.	.	.	.	C	12.88	2.069699	0.36470	.	.	ENSG00000131018	ENST00000367255;ENST00000423061;ENST00000265368;ENST00000448038;ENST00000341594	T;T;T;T;T	0.36340	1.26;1.26;1.26;1.26;1.26	5.66	5.66	0.87406	.	0.414806	0.22380	N	0.060840	T	0.46756	0.1409	M	0.63428	1.95	0.80722	D	1	D;P;P;P	0.59767	0.986;0.668;0.668;0.776	P;P;P;P	0.56434	0.798;0.579;0.579;0.759	T	0.41431	-0.9509	10	0.56958	D	0.05	.	19.7449	0.96248	0.0:1.0:0.0:0.0	.	4297;4297;4297;4226	Q8NF91-7;Q8NF91;E7EQI5;Q8NF91-4	.;SYNE1_HUMAN;.;.	H	4297;4226;4297;4226;4162	ENSP00000356224:D4297H;ENSP00000396024:D4226H;ENSP00000265368:D4297H;ENSP00000390975:D4226H;ENSP00000341887:D4162H	ENSP00000265368:D4297H	D	-	1	0	SYNE1	152694624	1.000000	0.71417	0.981000	0.43875	0.947000	0.59692	3.922000	0.56462	2.677000	0.91161	0.591000	0.81541	GAT		0.398	SYNE1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000334755.2	NM_182961		G	152652931	C	G	152652931	3	3	623	1	0	0	0	0	1	0	0	0	15457	913	32	4	13853	4	SYNE1	6	152652931	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	36327837	152652931	18462136	33	38233										
WIPF3	644150	mdanderson.org	37	chr7	29923572	29923572	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gcctctcccaggctaggcaaTacctccgaggcgcatggcgc	12	16	1	0	rs28439342	byFrequency	TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr7:29923572T>C	ENST00000409290.1	+	4	462	c.462T>C	c.(460-462)aaT>aaC	p.N154N	WIPF3_ENST00000409123.1_Silent_p.N154N|WIPF3_ENST00000242140.5_Silent_p.N154N	NM_001080529.2	NP_001073998.2	A6NGB9	WIPF3_HUMAN	WAS/WASL interacting protein family, member 3	154					cell differentiation (GO:0030154)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	cytosol (GO:0005829)				breast(2)|large_intestine(3)|lung(6)|ovary(1)	12						GGCTAGGCAATACCTCCGAGG	0.721													T|||	805	0.160743	0.2859	0.1081	5008	,	,		5568	0.0308		0.1769	False		,,,				2504	0.1462															0								T		655,2473		59,537,968	3	4	4		462	-0.9	0	7	dbSNP_125	4	938,6434		63,812,2811	no	coding-synonymous	WIPF3	NM_001080529.2		122,1349,3779	CC,CT,TT		12.7238,20.9399,15.1714		154/484	29923572	1593,8907	1564	3686	5250	SO:0001819	synonymous_variant	644150			AK094250	CCDS56472.1	7p15.1	2006-10-12			ENSG00000122574	ENSG00000122574			22004	protein-coding gene	gene with protein product		612432					Standard	NM_001080529		Approved	CR16, FLJ36931	uc022aaz.1	A6NGB9	OTTHUMG00000152761	ENST00000409290.1:c.462T>C	7.37:g.29923572T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B8ZZV2	Silent	SNP	ENST00000409290.1	37	CCDS56472.1																																																																																				0.721	WIPF3-002	NOVEL	basic|appris_candidate_longest|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000327705.1			C	29923572	T	C	29923572	2	2	623	1	0	0	0	0	0	0	0	1	17381	1403	49	3		3	WIPF3	7	29923572	Silent	SNP	T	TCGA-KL-8324-01A-11D-2310-10		29923572	129215091	34	38234										
PCLO	27445	broad.mit.edu	37	chr7	82585926	82585926	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	aactctgagttttctcttggTctttaggctgttcaggagaa	10	7	4	2			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr7:82585926T>C	ENST00000333891.9	-	5	4680	c.4343A>G	c.(4342-4344)gAc>gGc	p.D1448G	PCLO_ENST00000423517.2_Missense_Mutation_p.D1448G	NM_033026.5	NP_149015.2			piccolo presynaptic cytomatrix protein											breast(3)|central_nervous_system(3)|cervix(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(3)|kidney(19)|large_intestine(35)|lung(145)|ovary(7)|prostate(4)|upper_aerodigestive_tract(14)|urinary_tract(2)	259						TTTCTCTTGGTCTTTAGGCTG	0.363																																																0													116	108	110					7																	82585926		1815	4078	5893	SO:0001583	missense	27445			AB011131	CCDS47630.1, CCDS47631.1	7q11.23-q21.3	2013-01-07	2013-01-07		ENSG00000186472	ENSG00000186472			13406	protein-coding gene	gene with protein product	"aczonin"	604918	"piccolo (presynaptic cytomatrix protein)"			8900486, 9628581	Standard	NM_014510		Approved	KIAA0559, DKFZp779G1236, ACZ	uc003uhx.2	Q9Y6V0	OTTHUMG00000154853	ENST00000333891.9:c.4343A>G	7.37:g.82585926T>C	ENSP00000334319:p.Asp1448Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000333891.9	37	CCDS47630.1	.	.	.	.	.	.	.	.	.	.	T	8.525	0.869716	0.17322	.	.	ENSG00000186472	ENST00000431819;ENST00000333891;ENST00000423517	T;T	0.16457	2.34;2.34	5.58	4.42	0.53409	.	.	.	.	.	T	0.16938	0.0407	L	0.42245	1.32	0.80722	D	1	B;B	0.20550	0.011;0.046	B;B	0.22601	0.018;0.04	T	0.02457	-1.1156	9	0.87932	D	0	.	11.5729	0.50845	0.0:0.0701:0.0:0.9299	.	1448;1448	Q9Y6V0-5;Q9Y6V0-6	.;.	G	1379;1448;1448	ENSP00000334319:D1448G;ENSP00000388393:D1448G	ENSP00000334319:D1448G	D	-	2	0	PCLO	82423862	0.998000	0.40836	0.045000	0.18777	0.354000	0.29330	2.943000	0.49026	0.952000	0.37798	0.529000	0.55759	GAC		0.363	PCLO-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337368.5	NM_014510		C	82585926	T	C	82585926	3	2	623	1	0	0	0	0	1	0	0	0	11590	1667	58	3	11186	3	PCLO	7	82585926	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10	52662354	82585926	76552737	35	38235										
MET	4233	broad.mit.edu	37	chr7	116411695	116411695	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ttcctgtggctgaaaaagagAaagcaaattaaaggtgcatt	10	5	0	2			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr7:116411695A>G	ENST00000318493.6	+	13	3115	c.2928A>G	c.(2926-2928)agA>agG	p.R976R	MET_ENST00000397752.3_Silent_p.R958R			Q9NWH9	SLTM_HUMAN	MET proto-oncogene, receptor tyrosine kinase	0					apoptotic process (GO:0006915)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(10)|breast(4)|central_nervous_system(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|kidney(25)|large_intestine(8)|liver(3)|lung(70)|ovary(10)|pleura(2)|prostate(4)|skin(5)|stomach(6)|testis(1)|thyroid(4)|upper_aerodigestive_tract(64)|urinary_tract(3)	233	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			TGAAAAAGAGAAAGCAAATTA	0.358			Mis		"papillary renal, head-neck squamous cell "	papillary renal			Hereditary Papillary Renal Carcinoma (type 1)																														Dom	yes	Familial Papillary Renal Cancer	7	7q31	4233	met proto-oncogene (hepatocyte growth factor receptor)		E	0													101	96	97					7																	116411695		1853	4093	5946	SO:0001819	synonymous_variant	4233	Familial Cancer Database	HPRC, Hereditary Papillary Renal Cell Cancer	M35073	CCDS43636.1, CCDS47689.1	7q31	2014-09-17	2014-06-26		ENSG00000105976	ENSG00000105976	2.7.10.1		7029	protein-coding gene	gene with protein product	"hepatocyte growth factor receptor"	164860	"met proto-oncogene"			1846706, 1611909	Standard	NM_001127500		Approved	HGFR, RCCP2	uc010lkh.3	P08581	OTTHUMG00000023299	ENST00000318493.6:c.2928A>G	7.37:g.116411695A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5V8|B2RTX3|Q2VPK7|Q52MB3|Q658J7|Q6ZNF2|Q86TK6|Q9H7C3|Q9H8U9	Silent	SNP	ENST00000318493.6	37	CCDS47689.1																																																																																				0.358	MET-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059620.3			G	116411695	A	G	116411695	2	3	623	1	0	0	0	0	0	0	0	1	9492	243	9	3		3	MET	7	116411695	Silent	SNP	A	TCGA-KL-8324-01A-11D-2310-10	33825769	116411695	42726968	36	38236										
SORBS3	10174	bcgsc.ca	37	chr8	22426778	22426778	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	acctggaggtggagctgtccTtccgcaaggtgggccaggcc	16	12	0	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr8:22426778T>C	ENST00000240123.7	+	17	1806	c.1423T>C	c.(1423-1425)Ttc>Ctc	p.F475L	SORBS3_ENST00000428103.1_Missense_Mutation_p.F133L|SORBS3_ENST00000523740.1_3'UTR|RP11-582J16.3_ENST00000517384.1_RNA	NM_005775.4	NP_005766.3	O60504	VINEX_HUMAN	sorbin and SH3 domain containing 3	475	Binds to vinculin.|SH3 2. {ECO:0000255|PROSITE- ProRule:PRU00192}.				actin filament organization (GO:0007015)|cell adhesion (GO:0007155)|cell-substrate adhesion (GO:0031589)|muscle contraction (GO:0006936)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of cytoskeleton organization (GO:0051495)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of stress fiber assembly (GO:0051496)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|nucleus (GO:0005634)	structural constituent of cytoskeleton (GO:0005200)|vinculin binding (GO:0017166)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(9)	18		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)		GGAGCTGTCCTTCCGCAAGGT	0.562																																																0													36	32	34					8																	22426778		2203	4300	6503	SO:0001583	missense	10174				CCDS6031.1	8p21.3	2008-02-05			ENSG00000120896	ENSG00000120896			30907	protein-coding gene	gene with protein product		610795				9885244, 12510380	Standard	NM_001018003		Approved	SCAM-1, SH3D4, vinexin	uc003xbv.3	O60504	OTTHUMG00000131728	ENST00000240123.7:c.1423T>C	8.37:g.22426778T>C	ENSP00000240123:p.Phe475Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BJE4|Q6NX54|Q96FY4|Q9UQE4	Missense_Mutation	SNP	ENST00000240123.7	37	CCDS6031.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	11.86|11.86	1.763286|1.763286	0.31228|0.31228	.|.	.|.	ENSG00000120896|ENSG00000120896	ENST00000240123;ENST00000523900;ENST00000428103;ENST00000518912;ENST00000523965;ENST00000523348|ENST00000521554	T;T;T;T;T;T|.	0.30981|.	1.51;1.51;1.51;1.62;1.51;1.51|.	5.57|5.57	5.57|5.57	0.84162|0.84162	Src homology-3 domain (4);|.	0.133145|.	0.34460|.	N|.	0.003955|.	T|T	0.42154|0.42154	0.1190|0.1190	N|N	0.16037|0.16037	0.36|0.36	0.49582|0.49582	D|D	0.999804|0.999804	P|.	0.38250|.	0.624|.	P|.	0.55161|.	0.77|.	T|T	0.34650|0.34650	-0.9820|-0.9820	10|5	0.25751|.	T|.	0.34|.	-20.2159|-20.2159	13.266|13.266	0.60133|0.60133	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	475|.	O60504|.	VINEX_HUMAN|.	L|P	475;133;133;133;133;86|146	ENSP00000240123:F475L;ENSP00000431128:F133L;ENSP00000408476:F133L;ENSP00000429887:F133L;ENSP00000429764:F133L;ENSP00000428678:F86L|.	ENSP00000240123:F475L|.	F|L	+|+	1|2	0|0	SORBS3|SORBS3	22482723|22482723	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.994000|0.994000	0.84299|0.84299	5.814000|5.814000	0.69208|0.69208	2.117000|2.117000	0.64856|0.64856	0.460000|0.460000	0.39030|0.39030	TTC|CTT		0.562	SORBS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254647.3	NM_005775		C	22426778	T	C	22426778	3	2	623	1	0	0	0	0	1	0	0	0	14942	1609	56	3	1485	3	SORBS3	8	22426778	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10		22426778	123937244	37	38237										
KCNS2	3788	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr8	99440360	99440360	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	cgcttgctgctctgccactcGcgcgaggccattctggagct	12	15	2	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr8:99440360G>A	ENST00000287042.4	+	2	503	c.153G>A	c.(151-153)tcG>tcA	p.S51S	KCNS2_ENST00000521839.1_Silent_p.S51S	NM_020697.2	NP_065748.1	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel, delayed-rectifier, subfamily S, member 2	51					protein homooligomerization (GO:0051260)|synaptic transmission (GO:0007268)	plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)			autonomic_ganglia(1)|breast(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(6)|lung(11)|ovary(1)|prostate(1)|skin(1)|urinary_tract(2)	31	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			TCTGCCACTCGCGCGAGGCCA	0.632																																					Pancreas(138;844 2489 9202 24627)											0													68	60	63					8																	99440360		2203	4300	6503	SO:0001819	synonymous_variant	3788			AB032970	CCDS6279.1	8q22	2011-07-05			ENSG00000156486	ENSG00000156486		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6301	protein-coding gene	gene with protein product		602906				9305895, 16382104	Standard	NM_020697		Approved	Kv9.2	uc003yin.3	Q9ULS6	OTTHUMG00000044337	ENST00000287042.4:c.153G>A	8.37:g.99440360G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8KAN1	Silent	SNP	ENST00000287042.4	37	CCDS6279.1																																																																																				0.632	KCNS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000103134.1	NM_020697		A	99440360	G	A	99440360	2	1	623	1	0	0	0	0	0	0	0	1	8096	1074	38	1		1	KCNS2	8	99440360	Silent	SNP	G	TCGA-KL-8324-01A-11D-2310-10	77013582	99440360	46923662	38	38238										
OXR1	55074	broad.mit.edu	37	chr8	107715150	107715150	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ttagggcacagtcagtggtgTgctgctagttacaccaaata	11	8	1	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr8:107715150T>C	ENST00000442977.2	+	7	794	c.695T>C	c.(694-696)gTg>gCg	p.V232A	OXR1_ENST00000312046.6_Missense_Mutation_p.V224A|OXR1_ENST00000445937.1_Missense_Mutation_p.V231A|OXR1_ENST00000517566.2_Missense_Mutation_p.V231A|OXR1_ENST00000497705.1_Missense_Mutation_p.V164A|OXR1_ENST00000531443.1_Missense_Mutation_p.V231A|OXR1_ENST00000452423.2_5'UTR	NM_001198532.1	NP_001185461.1	Q8N573	OXR1_HUMAN	oxidation resistance 1	232	GRAM.				adult walking behavior (GO:0007628)|cellular response to hydroperoxide (GO:0071447)|negative regulation of neuron apoptotic process (GO:0043524)|response to oxidative stress (GO:0006979)	mitochondrion (GO:0005739)|nucleolus (GO:0005730)	oxidoreductase activity (GO:0016491)			NS(2)|breast(2)|endometrium(2)|large_intestine(9)|lung(10)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(4)	31			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)			GTCAGTGGTGTGCTGCTAGTT	0.348																																																0													88	85	86					8																	107715150		2203	4300	6503	SO:0001583	missense	55074			AF309387	CCDS6304.2, CCDS47909.1, CCDS56547.1, CCDS56548.1, CCDS56549.1, CCDS56550.1	8q23	2013-03-14			ENSG00000164830	ENSG00000164830			15822	protein-coding gene	gene with protein product	"TBC/LysM-associated domain containing 3"	605609				11114193	Standard	NM_181354		Approved	TLDC3	uc011lht.2	Q8N573	OTTHUMG00000167682	ENST00000442977.2:c.695T>C	8.37:g.107715150T>C	ENSP00000405424:p.Val232Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6NK11|A8KA34|B3KXL1|B7Z402|B7Z8N5|D3HIS6|Q3LIB5|Q6ZVK9|Q8N8V0|Q9H266|Q9NWC7	Missense_Mutation	SNP	ENST00000442977.2	37	CCDS56548.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	25.3|25.3	4.626540|4.626540	0.87560|0.87560	.|.	.|.	ENSG00000164830|ENSG00000164830	ENST00000517455|ENST00000445937;ENST00000531443;ENST00000517566;ENST00000442977;ENST00000497705;ENST00000312046	.|T;T;T;T;T;T	.|0.34275	.|2.24;2.24;2.23;2.22;1.37;2.25	5.27|5.27	5.27|5.27	0.74061|0.74061	.|GRAM (1);	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.59715|0.59715	0.2214|0.2214	M|M	0.71036|0.71036	2.16|2.16	0.80722|0.80722	D|D	1|1	.|D;D;D;D	.|0.89917	.|1.0;1.0;1.0;1.0	.|D;D;D;D	.|0.91635	.|0.998;0.999;0.998;0.998	T|T	0.62397|0.62397	-0.6863|-0.6863	5|10	.|0.54805	.|T	.|0.06	-26.8986|-26.8986	15.4811|15.4811	0.75528|0.75528	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	.|224;232;164;231	.|Q8N573-2;Q8N573;Q8N573-3;Q8N573-5	.|.;OXR1_HUMAN;.;.	R|A	148|231;231;231;232;164;224	.|ENSP00000402918:V231A;ENSP00000431966:V231A;ENSP00000429205:V231A;ENSP00000405424:V232A;ENSP00000431014:V164A;ENSP00000311026:V224A	.|ENSP00000311026:V224A	C|V	+|+	1|2	0|0	OXR1|OXR1	107784326|107784326	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.997000|0.997000	0.91878|0.91878	7.945000|7.945000	0.87732|0.87732	2.116000|2.116000	0.64780|0.64780	0.528000|0.528000	0.53228|0.53228	TGC|GTG		0.348	OXR1-201	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_181354		C	107715150	T	C	107715150	3	2	623	1	0	0	0	0	1	0	0	0	11341	1696	59	3	921	3	OXR1	8	107715150	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10	8274790	107715150	38648872	39	38239										
ST3GAL1	6482	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr8	134474162	134474162	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gatgaccgagaggatgccggTagatgggtatcgcccgtgcc	16	10	0	3			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr8:134474162T>G	ENST00000319914.5	-	8	1832	c.805A>C	c.(805-807)Acc>Ccc	p.T269P	ST3GAL1_ENST00000522652.1_Missense_Mutation_p.T269P|ST3GAL1_ENST00000521180.1_Missense_Mutation_p.T269P|ST3GAL1_ENST00000399640.2_Missense_Mutation_p.T269P			Q11201	SIA4A_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase 1	269					carbohydrate metabolic process (GO:0005975)|cellular protein metabolic process (GO:0044267)|cellular protein modification process (GO:0006464)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate metabolic process (GO:0042339)|N-acetylneuraminate metabolic process (GO:0006054)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation (GO:0006487)|protein phosphorylation (GO:0006468)|sialylation (GO:0097503)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)|membrane (GO:0016020)	beta-galactoside (CMP) alpha-2,3-sialyltransferase activity (GO:0003836)			endometrium(3)|large_intestine(2)|lung(11)|prostate(1)	17	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)			AGGATGCCGGTAGATGGGTAT	0.587																																																0													171	140	151					8																	134474162		2203	4300	6503	SO:0001583	missense	6482			L29555	CCDS6373.1	8q24.22	2013-03-01	2003-01-14	2005-02-07	ENSG00000008513	ENSG00000008513	2.4.99.4	"Sialyltransferases"	10862	protein-coding gene	gene with protein product	"ST3Gal I"	607187	"sialyltransferase 4A (beta-galactosidase alpha-2,3-sialytransferase)"	SIAT4A		10504389, 7655169	Standard	NM_003033		Approved	ST3O, SIATFL, ST3GalA.1	uc003yuk.2	Q11201	OTTHUMG00000164534	ENST00000319914.5:c.805A>C	8.37:g.134474162T>G	ENSP00000318445:p.Thr269Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O60677|Q9UN51	Missense_Mutation	SNP	ENST00000319914.5	37	CCDS6373.1	.	.	.	.	.	.	.	.	.	.	T	26.1	4.709084	0.89018	.	.	ENSG00000008513	ENST00000319914;ENST00000399640;ENST00000521180;ENST00000522652	T;T;T;T	0.40476	1.03;1.03;1.03;1.03	5.01	5.01	0.66863	.	0.000000	0.85682	D	0.000000	T	0.74764	0.3759	H	0.96430	3.82	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	D	0.83404	0.0024	10	0.72032	D	0.01	-5.3127	14.1925	0.65646	0.0:0.0:0.0:1.0	.	269	Q11201	SIA4A_HUMAN	P	269	ENSP00000318445:T269P;ENSP00000414073:T269P;ENSP00000428540:T269P;ENSP00000430515:T269P	ENSP00000318445:T269P	T	-	1	0	ST3GAL1	134543344	1.000000	0.71417	0.995000	0.50966	0.856000	0.48823	7.996000	0.88334	2.018000	0.59344	0.533000	0.62120	ACC		0.587	ST3GAL1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379132.1	NM_003033		G	134474162	T	G	134474162	3	3	623	1	0	0	0	0	1	0	0	0	15226	1638	57	5	225	5	ST3GAL1	8	134474162	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10	26759012	134474162	11889860	40	38240										
CYP11B1	1584	mdanderson.org	37	chr8	143957129	143957129	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ggcctcagccagcacccaccGcaaggtctccttgagggccg	12	17	2	1	rs61752786	byFrequency	TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr8:143957129G>T	ENST00000292427.4	-	6	1152	c.1120C>A	c.(1120-1122)Cgg>Agg	p.R374R	CYP11B1_ENST00000377675.3_Splice_Site_p.R445R|CYP11B1_ENST00000517471.1_Splice_Site_p.R374R	NM_000497.3	NP_000488.3	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B, polypeptide 1	374			R -> Q (in AH4).		aldosterone biosynthetic process (GO:0032342)|C21-steroid hormone biosynthetic process (GO:0006700)|cellular response to hormone stimulus (GO:0032870)|cellular response to potassium ion (GO:0035865)|cortisol biosynthetic process (GO:0034651)|glucocorticoid biosynthetic process (GO:0006704)|glucose homeostasis (GO:0042593)|immune response (GO:0006955)|mineralocorticoid biosynthetic process (GO:0006705)|regulation of blood pressure (GO:0008217)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|sterol metabolic process (GO:0016125)|xenobiotic metabolic process (GO:0006805)	mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	heme binding (GO:0020037)|iron ion binding (GO:0005506)|steroid 11-beta-monooxygenase activity (GO:0004507)			central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(10)|lung(36)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)	67	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Cimetidine(DB00501)|Clotrimazole(DB00257)|Etomidate(DB00292)|Fluconazole(DB00196)|Hydrocortisone(DB00741)|Ketoconazole(DB01026)|Metoclopramide(DB01233)|Metyrapone(DB01011)|Miconazole(DB01110)|Mitotane(DB00648)|Phenytoin(DB00252)|Spironolactone(DB00421)	AGCACCCACCGCAAGGTCTCC	0.672									Familial Hyperaldosteronism type I																																							0								T	,	13,4393		0,13,2190	43	45	45		1120,1120	1.7	1	8	dbSNP_129	45	216,8384		3,210,4087	no	coding-synonymous-near-splice,coding-synonymous-near-splice	CYP11B1	NM_000497.3,NM_001026213.1	,	3,223,6277	TT,TG,GG		2.5116,0.2951,1.7607	,	374/504,374/438	143957129	229,12777	2203	4300	6503	SO:0001630	splice_region_variant	1584	Familial Cancer Database	Dexamethasone Sensitive Aldosteronism, FH-I	D16153	CCDS6392.1, CCDS34953.1	8q21-q22	2013-06-19	2003-01-14		ENSG00000160882	ENSG00000160882	1.14.15.4	"Cytochrome P450s"	2591	protein-coding gene	gene with protein product	"steroid 11-beta-monooxygenase"	610613	"cytochrome P450, subfamily XIB (steroid 11-beta-hydroxylase), polypeptide 1"	CYP11B		1303253	Standard	XM_005250807		Approved	P450C11, FHI, CPN1	uc003yxi.3	P15538	OTTHUMG00000164637	ENST00000292427.4:c.1121+1C>A	8.37:g.143957129G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14095|Q4VAQ8|Q4VAQ9|Q9UML2	Silent	SNP	ENST00000292427.4	37	CCDS6392.1																																																																																				0.672	CYP11B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379475.2		Silent	T	143957129	G	T	143957129	5	4	623	1	0	0	0	0	0	0	1	0	4147	1101	38	4	407	4	CYP11B1	8	143957129	Splice_Site	SNP	G	TCGA-KL-8324-01A-11D-2310-10	9482967	143957129	2406893	41	38241			1	76		2	2	23	N	G_A	7.603876e-05
CYP11B1	1584	mdanderson.org	37	chr8	143957151	143957151	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	aaggtctccttgagggccgcAcgcagcaagggcagctcggt	15	12	1	1	rs61752769	byFrequency	TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr8:143957151A>C	ENST00000292427.4	-	6	1130	c.1098T>G	c.(1096-1098)cgT>cgG	p.R366R	CYP11B1_ENST00000377675.3_Silent_p.R437R|CYP11B1_ENST00000517471.1_Silent_p.R366R	NM_000497.3	NP_000488.3	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B, polypeptide 1	366					aldosterone biosynthetic process (GO:0032342)|C21-steroid hormone biosynthetic process (GO:0006700)|cellular response to hormone stimulus (GO:0032870)|cellular response to potassium ion (GO:0035865)|cortisol biosynthetic process (GO:0034651)|glucocorticoid biosynthetic process (GO:0006704)|glucose homeostasis (GO:0042593)|immune response (GO:0006955)|mineralocorticoid biosynthetic process (GO:0006705)|regulation of blood pressure (GO:0008217)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|sterol metabolic process (GO:0016125)|xenobiotic metabolic process (GO:0006805)	mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	heme binding (GO:0020037)|iron ion binding (GO:0005506)|steroid 11-beta-monooxygenase activity (GO:0004507)			central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(10)|lung(36)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)	67	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Cimetidine(DB00501)|Clotrimazole(DB00257)|Etomidate(DB00292)|Fluconazole(DB00196)|Hydrocortisone(DB00741)|Ketoconazole(DB01026)|Metoclopramide(DB01233)|Metyrapone(DB01011)|Miconazole(DB01110)|Mitotane(DB00648)|Phenytoin(DB00252)|Spironolactone(DB00421)	TGAGGGCCGCACGCAGCAAGG	0.692									Familial Hyperaldosteronism type I				.|||	96	0.0191693	0.0613	0.0043	5008	,	,		16429	0.002		0.002	False		,,,				2504	0.0082															0													63	65	64					8																	143957151		2203	4300	6503	SO:0001819	synonymous_variant	1584	Familial Cancer Database	Dexamethasone Sensitive Aldosteronism, FH-I	D16153	CCDS6392.1, CCDS34953.1	8q21-q22	2013-06-19	2003-01-14		ENSG00000160882	ENSG00000160882	1.14.15.4	"Cytochrome P450s"	2591	protein-coding gene	gene with protein product	"steroid 11-beta-monooxygenase"	610613	"cytochrome P450, subfamily XIB (steroid 11-beta-hydroxylase), polypeptide 1"	CYP11B		1303253	Standard	XM_005250807		Approved	P450C11, FHI, CPN1	uc003yxi.3	P15538	OTTHUMG00000164637	ENST00000292427.4:c.1098T>G	8.37:g.143957151A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q14095|Q4VAQ8|Q4VAQ9|Q9UML2	Silent	SNP	ENST00000292427.4	37	CCDS6392.1																																																																																				0.692	CYP11B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379475.2			C	143957151	A	C	143957151	2	2	623	1	0	0	0	0	0	0	0	1	4147	146	6	5		5	CYP11B1	8	143957151	Silent	SNP	A	TCGA-KL-8324-01A-11D-2310-10	22	143957151	2406871	42	38242			1	76		2	2	23	N	G_A	7.603876e-05
ANKRD20A1	84210	mdanderson.org	37	chr9	67938655	67938655	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	agatacttaaaaaggagaaaTcaggtaagacttctgattgt	9	4	2	4	rs199656293	byFrequency	TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr9:67938655T>C	ENST00000377477.2	+	6	902	c.790T>C	c.(790-792)Tca>Cca	p.S264P	RNU6-368P_ENST00000391117.1_RNA	NM_032250.3	NP_115626.2	Q5TYW2	A20A1_HUMAN	ankyrin repeat domain 20 family, member A1	264						plasma membrane (GO:0005886)				kidney(1)|large_intestine(4)|lung(5)|urinary_tract(1)	11						AAAGGAGAAATCAGGTAAGAC	0.264																																																0													10	13	12					9																	67938655		1494	3078	4572	SO:0001583	missense	441425			AL136793	CCDS6620.1	9p12	2014-04-16	2005-08-23	2005-08-23	ENSG00000196774	ENSG00000260691		"Ankyrin repeat domain containing"	23665	protein-coding gene	gene with protein product			"ankyrin repeat domain 20A"	ANKRD20A			Standard	NM_032250		Approved	DKFZp434A171		Q5TYW2	OTTHUMG00000188594	ENST00000377477.2:c.790T>C	9.37:g.67938655T>C	ENSP00000366697:p.Ser264Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H0H6	Missense_Mutation	SNP	ENST00000377477.2	37	CCDS6620.1	.	.	.	.	.	.	.	.	.	.	.	3.407	-0.121042	0.06838	.	.	ENSG00000196774	ENST00000377477	T	0.37752	1.18	1.32	-1.45	0.08828	Ankyrin repeat-containing domain (1);	.	.	.	.	T	0.15089	0.0364	N	0.08118	0	0.09310	N	1	B	0.09022	0.002	B	0.04013	0.001	T	0.21211	-1.0252	9	0.29301	T	0.29	.	4.2684	0.10775	0.0:0.4658:0.0:0.5342	.	264	Q5TYW2	A20A1_HUMAN	P	264	ENSP00000366697:S264P	ENSP00000366697:S264P	S	+	1	0	ANKRD20A1	67528475	0.006000	0.16342	0.078000	0.20375	0.171000	0.22731	-0.450000	0.06803	-0.404000	0.07610	0.055000	0.15244	TCA		0.264	ANKRD20A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083800.1			C	67938655	T	C	67938655	3	2	623	1	0	0	0	0	1	0	0	0	648	1435	50	3	812	3	ANKRD20A1	9	67938655	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10		67938655	73274776	43	38243										
SETX	23064	broad.mit.edu;mdanderson.org	37	chr9	135203956	135203956	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	aaataataataacctgtccaCgggaggtatctccaacatta	6	9	1	0	rs370781594		TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr9:135203956C>T	ENST00000224140.5	-	10	3211	c.3029G>A	c.(3028-3030)cGt>cAt	p.R1010H	SETX_ENST00000372169.2_Missense_Mutation_p.R1010H|SETX_ENST00000393220.1_Missense_Mutation_p.R1010H	NM_015046.5	NP_055861.3	Q7Z333	SETX_HUMAN	senataxin	1010					cell death (GO:0008219)|circadian rhythm (GO:0007623)|DNA duplex unwinding (GO:0032508)|double-strand break repair (GO:0006302)|RNA processing (GO:0006396)|termination of RNA polymerase II transcription (GO:0006369)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)			breast(7)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(25)|liver(1)|lung(36)|ovary(2)|prostate(2)|skin(1)|stomach(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	97		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		AACCTGTCCACGGGAGGTATC	0.388																																																0								C	HIS/ARG	0,4406		0,0,2203	103	105	104		3029	-3.9	0	9		104	2,8598	2.2+/-6.3	0,2,4298	no	missense	SETX	NM_015046.5	29	0,2,6501	TT,TC,CC		0.0233,0.0,0.0154	benign	1010/2678	135203956	2,13004	2203	4300	6503	SO:0001583	missense	23064			AB014525	CCDS6947.1	9q34	2014-09-17	2005-11-29	2005-11-29	ENSG00000107290	ENSG00000107290			445	protein-coding gene	gene with protein product		608465	"amyotrophic lateral sclerosis 4", "spinocerebellar ataxia, recessive, non-Friedreich type 1"	ALS4, SCAR1		9497266, 11022012	Standard	NM_015046		Approved	KIAA0625, AOA2	uc004cbk.3	Q7Z333	OTTHUMG00000020834	ENST00000224140.5:c.3029G>A	9.37:g.135203956C>T	ENSP00000224140:p.Arg1010His	Somatic		WXS	Illumina HiSeq	Phase_I	A2A396|B2RPB2|B5ME16|C9JQ10|O75120|Q3KQX4|Q5JUJ1|Q68DW5|Q6AZD7|Q7Z3J6|Q8WX33|Q9H9D1|Q9NVP9	Missense_Mutation	SNP	ENST00000224140.5	37	CCDS6947.1	.	.	.	.	.	.	.	.	.	.	C	2.490	-0.317689	0.05386	0.0	2.33E-4	ENSG00000107290	ENST00000224140;ENST00000372169;ENST00000393220	D;D;D	0.86497	-2.04;-2.13;-1.74	5.31	-3.86	0.04230	.	9.273830	0.00166	N	0.000000	T	0.70806	0.3266	N	0.08118	0	0.09310	N	1	B;B;B	0.06786	0.001;0.0;0.001	B;B;B	0.04013	0.001;0.0;0.001	T	0.62148	-0.6915	10	0.15066	T	0.55	.	5.3226	0.15889	0.2176:0.3268:0.0:0.4556	.	1010;1010;1010	Q7Z333-3;Q7Z333;Q7Z333-4	.;SETX_HUMAN;.	H	1010	ENSP00000224140:R1010H;ENSP00000361242:R1010H;ENSP00000376913:R1010H	ENSP00000224140:R1010H	R	-	2	0	SETX	134193777	0.000000	0.05858	0.000000	0.03702	0.021000	0.10359	-1.513000	0.02256	-0.781000	0.04548	-0.768000	0.03414	CGT		0.388	SETX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054774.3	NM_015046		T	135203956	C	T	135203956	3	4	623	1	0	0	0	0	1	0	0	0	14154	536	19	1	5072	1	SETX	9	135203956	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	67265301	135203956	6009475	44	38244										
KIF5B	3799	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr10	32321694	32321694	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	agttgactttgctggttaatTtcttcatcctagaattgtga	8	6	2	3			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr10:32321694T>A	ENST00000302418.4	-	13	1771	c.1314A>T	c.(1312-1314)gaA>gaT	p.E438D		NM_004521.2	NP_004512.1	P33176	KINH_HUMAN	kinesin family member 5B	438					ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|cellular protein metabolic process (GO:0044267)|cytoplasm organization (GO:0007028)|cytoskeleton-dependent intracellular transport (GO:0030705)|microtubule-based movement (GO:0007018)|plus-end-directed vesicle transport along microtubule (GO:0072383)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of potassium ion transport (GO:0043268)|regulation of membrane potential (GO:0042391)|stress granule disassembly (GO:0035617)|vesicle transport along microtubule (GO:0047496)	ciliary rootlet (GO:0035253)|cytoplasm (GO:0005737)|endocytic vesicle (GO:0030139)|kinesin complex (GO:0005871)|membrane (GO:0016020)|microtubule (GO:0005874)|microtubule organizing center (GO:0005815)|neuron projection (GO:0043005)|perinuclear region of cytoplasm (GO:0048471)|vesicle (GO:0031982)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule binding (GO:0008017)|microtubule motor activity (GO:0003777)|plus-end-directed microtubule motor activity (GO:0008574)		KIF5B/ALK(8)|KIF5B/RET(79)	NS(2)|breast(1)|endometrium(5)|kidney(2)|large_intestine(12)|lung(11)|ovary(1)|prostate(1)	35		Prostate(175;0.0137)				GCTGGTTAATTTCTTCATCCT	0.393			T	"RET, ALK"	NSCLC																																		Dom	yes		10	10p11.22	3799	kinesin family member 5B		E	0													179	160	166					10																	32321694		2203	4300	6503	SO:0001583	missense	3799			X65873	CCDS7171.1	10p11.22	2007-02-13			ENSG00000170759	ENSG00000170759		"Kinesins"	6324	protein-coding gene	gene with protein product		602809		KNS1		1607388	Standard	NM_004521		Approved	KNS	uc001iwe.4	P33176	OTTHUMG00000017913	ENST00000302418.4:c.1314A>T	10.37:g.32321694T>A	ENSP00000307078:p.Glu438Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVB2|Q5VZ85	Missense_Mutation	SNP	ENST00000302418.4	37	CCDS7171.1	.	.	.	.	.	.	.	.	.	.	T	16.64	3.180248	0.57800	.	.	ENSG00000170759	ENST00000302418	D	0.82526	-1.62	5.47	4.34	0.51931	.	0.000000	0.85682	D	0.000000	T	0.78578	0.4305	L	0.56396	1.775	0.49582	D	0.999803	B	0.32010	0.351	B	0.36418	0.224	T	0.71163	-0.4673	10	0.24483	T	0.36	.	7.9369	0.29935	0.0:0.1602:0.0:0.8398	.	438	P33176	KINH_HUMAN	D	438	ENSP00000307078:E438D	ENSP00000307078:E438D	E	-	3	2	KIF5B	32361700	1.000000	0.71417	1.000000	0.80357	0.961000	0.63080	2.426000	0.44731	0.929000	0.37192	0.383000	0.25322	GAA		0.393	KIF5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047467.1	NM_004521		A	32321694	T	A	32321694	3	1	623	1	0	0	0	0	1	0	0	0	8313	1838	64	5	1629	5	KIF5B	10	32321694	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10		32321694	103213053	45	38245										
RRP12	23223	broad.mit.edu	37	chr10	99130534	99130534	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	agagcttcctcacgatgtgtAggaggcacttcaaacggggc	13	10	2	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr10:99130534A>G	ENST00000370992.4	-	22	2633	c.2522T>C	c.(2521-2523)cTa>cCa	p.L841P	RRP12_ENST00000536831.1_Missense_Mutation_p.L559P|RRP12_ENST00000414986.1_Missense_Mutation_p.L780P|RRP12_ENST00000479481.1_5'UTR|RRP12_ENST00000315563.6_Missense_Mutation_p.L741P	NM_015179.3	NP_055994.2	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog (S. cerevisiae)	841						integral component of membrane (GO:0016021)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)			NS(1)|breast(2)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(5)|large_intestine(2)|lung(13)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	37		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		CACGATGTGTAGGAGGCACTT	0.567																																																0													82	80	81					10																	99130534		2203	4300	6503	SO:0001583	missense	23223				CCDS7457.1, CCDS44467.1, CCDS60605.1	10q24.2	2006-11-06	2006-11-06	2006-11-06	ENSG00000052749	ENSG00000052749			29100	protein-coding gene	gene with protein product			"KIAA0690"	KIAA0690		9734811	Standard	NM_015179		Approved		uc001knf.3	Q5JTH9	OTTHUMG00000018855	ENST00000370992.4:c.2522T>C	10.37:g.99130534A>G	ENSP00000360031:p.Leu841Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DK00|E9PCK7|Q5JTH8|Q69YK4|Q96E87|Q9BUH3|Q9Y4C7	Missense_Mutation	SNP	ENST00000370992.4	37	CCDS7457.1	.	.	.	.	.	.	.	.	.	.	A	12.88	2.070355	0.36566	.	.	ENSG00000052749	ENST00000370992;ENST00000315563;ENST00000414986;ENST00000536831	T;T;T;T	0.64991	-0.13;-0.13;-0.13;-0.13	4.83	4.83	0.62350	Armadillo-like helical (1);Armadillo-type fold (1);	0.343967	0.31709	N	0.007181	T	0.46092	0.1375	N	0.08118	0	0.51482	D	0.999924	P;P;P;B	0.44195	0.661;0.496;0.828;0.079	B;B;B;B	0.43783	0.165;0.191;0.431;0.069	T	0.50625	-0.8806	10	0.36615	T	0.2	-8.0646	14.4025	0.67056	1.0:0.0:0.0:0.0	.	780;741;559;841	E9PCK7;Q5JTH9-2;F5H456;Q5JTH9	.;.;.;RRP12_HUMAN	P	841;741;780;559	ENSP00000360031:L841P;ENSP00000324315:L741P;ENSP00000414863:L780P;ENSP00000446184:L559P	ENSP00000324315:L741P	L	-	2	0	RRP12	99120524	1.000000	0.71417	0.974000	0.42286	0.491000	0.33493	4.326000	0.59241	1.801000	0.52704	0.260000	0.18958	CTA		0.567	RRP12-007	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049699.4	NM_015179		G	99130534	A	G	99130534	3	3	623	1	0	0	0	0	1	0	0	0	13699	420	15	3	1423	3	RRP12	10	99130534	Missense_Mutation	SNP	A	TCGA-KL-8324-01A-11D-2310-10	66808840	99130534	36404213	46	38246										
MKI67	4288	broad.mit.edu	37	chr10	129899864	129899864	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gaggtcttcatgggcttcttTtcatttctgtttatttctat	7	7	6	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr10:129899864T>C	ENST00000368654.3	-	14	9738	c.9363A>G	c.(9361-9363)gaA>gaG	p.E3121E	MKI67_ENST00000368653.3_Silent_p.E2761E	NM_002417.4	NP_002408.3	P46013	KI67_HUMAN	marker of proliferation Ki-67	3121					cell proliferation (GO:0008283)|cellular response to heat (GO:0034605)|DNA metabolic process (GO:0006259)|hyaluronan metabolic process (GO:0030212)|meiotic nuclear division (GO:0007126)|organ regeneration (GO:0031100)|response to organic cyclic compound (GO:0014070)	chromosome, centromeric region (GO:0000775)|condensed chromosome (GO:0000793)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(5)|kidney(7)|large_intestine(30)|lung(64)|ovary(4)|pancreas(1)|prostate(4)|skin(2)|soft_tissue(1)|stomach(10)|upper_aerodigestive_tract(4)|urinary_tract(4)	159		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TGGGCTTCTTTTCATTTCTGT	0.433																																																0													111	117	115					10																	129899864		2203	4300	6503	SO:0001819	synonymous_variant	4288			X65550	CCDS7659.1, CCDS53588.1	10q26.2	2014-06-12	2013-10-10		ENSG00000148773	ENSG00000148773			7107	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 105"	176741	"antigen identified by monoclonal antibody Ki-67"			2571566, 16206250	Standard	NM_002417		Approved	MIB-, PPP1R105	uc001lke.3	P46013	OTTHUMG00000019255	ENST00000368654.3:c.9363A>G	10.37:g.129899864T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VWH2	Silent	SNP	ENST00000368654.3	37	CCDS7659.1																																																																																				0.433	MKI67-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000050999.1	NM_002417		C	129899864	T	C	129899864	2	2	623	1	0	0	0	0	0	0	0	1	9605	1838	64	3		3	MKI67	10	129899864	Silent	SNP	T	TCGA-KL-8324-01A-11D-2310-10	30769330	129899864	5634883	47	38247										
MUC5B	727897	mdanderson.org	37	chr11	1268402	1268402	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	cacacctgcagccaccagcaGcacagtgactccctcctctg	7	19	1	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:1268402G>A	ENST00000529681.1	+	31	10350	c.10292G>A	c.(10291-10293)aGc>aAc	p.S3431N	RP11-532E4.2_ENST00000532061.2_RNA|MUC5B_ENST00000447027.1_Missense_Mutation_p.S3434N	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	3431	17 X approximate tandem repeats, Ser/Thr- rich.|7 X Cys-rich subdomain repeats.|Thr-rich.			Missing (in Ref. 6; AAB61398). {ECO:0000305}.	cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)		p.S3410N(1)		cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		gccaccagcagcacAGTGACT	0.682																																																1	Substitution - Missense(1)	prostate(1)											41	76	64					11																	1268402		2093	4144	6237	SO:0001583	missense	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.10292G>A	11.37:g.1268402G>A	ENSP00000436812:p.Ser3431Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Missense_Mutation	SNP	ENST00000529681.1	37	CCDS44515.2	.	.	.	.	.	.	.	.	.	.	G	3.121	-0.180464	0.06380	.	.	ENSG00000117983	ENST00000529681;ENST00000447027;ENST00000349637	T;T	0.20598	2.06;2.24	2.38	-2.65	0.06095	.	.	.	.	.	T	0.11965	0.0291	L	0.29908	0.895	0.09310	N	1	B	0.11235	0.004	B	0.01281	0.0	T	0.31888	-0.9927	9	0.87932	D	0	.	2.2793	0.04110	0.1745:0.3567:0.3457:0.1231	.	3434	E9PBJ0	.	N	3431;3434;3403	ENSP00000436812:S3431N;ENSP00000415793:S3434N	ENSP00000343037:S3403N	S	+	2	0	MUC5B	1224978	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-1.426000	0.02443	-0.630000	0.05567	-0.714000	0.03626	AGC		0.682	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		A	1268402	G	A	1268402	3	1	623	1	0	0	0	0	1	0	0	0	9986	971	34	2	10423	2	MUC5B	11	1268402	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10		1268402	133738114	48	38248										
OR52D1	390066	broad.mit.edu;mdanderson.org	37	chr11	5510050	5510050	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	atccctttctgtgccatgtaTcttgtagcactggttggaaa	9	9	2	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:5510050T>C	ENST00000322641.5	+	1	136	c.114T>C	c.(112-114)taT>taC	p.Y38Y	AC104389.28_ENST00000415970.1_RNA|HBE1_ENST00000380237.1_Intron|HBG2_ENST00000380252.1_Intron|HBG2_ENST00000380259.2_Intron	NM_001005163.2	NP_001005163.1	Q9H346	O52D1_HUMAN	olfactory receptor, family 52, subfamily D, member 1	38					detection of chemical stimulus involved in sensory perception of smell (GO:0050911)|sensory perception of smell (GO:0007608)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			central_nervous_system(1)|cervix(1)|endometrium(3)|large_intestine(5)|lung(8)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	22		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)		GTGCCATGTATCTTGTAGCAC	0.507																																																0													248	200	216					11																	5510050		2201	4297	6498	SO:0001819	synonymous_variant	390066			BK004276	CCDS31384.1	11p15.4	2012-08-09			ENSG00000181609	ENSG00000181609		"GPCR / Class A : Olfactory receptors"	15212	protein-coding gene	gene with protein product							Standard	NM_001005163		Approved		uc010qzg.2	Q9H346	OTTHUMG00000066895	ENST00000322641.5:c.114T>C	11.37:g.5510050T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B9EGY9|Q6IFI6	Silent	SNP	ENST00000322641.5	37	CCDS31384.1																																																																																				0.507	OR52D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000143372.1	NM_001005163		C	5510050	T	C	5510050	2	2	623	1	0	0	0	0	0	0	0	1	11121	1442	50	3		3	OR52D1	11	5510050	Silent	SNP	T	TCGA-KL-8324-01A-11D-2310-10	4241648	5510050	129496466	49	38249										
OR56A3	390083	broad.mit.edu	37	chr11	5969446	5969446	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	caccatgtcattcctgcagcCcttaaccccatcatttacgg	5	16	2	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:5969446C>A	ENST00000329564.6	+	1	877	c.870C>A	c.(868-870)gcC>gcA	p.A290A		NM_001003443.2	NP_001003443.2	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A, member 3	290						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(27)|stomach(1)|upper_aerodigestive_tract(1)	41		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)		TTCCTGCAGCCCTTAACCCCA	0.478																																																0													127	120	123					11																	5969446		2062	4221	6283	SO:0001819	synonymous_variant	390083				CCDS41614.1	11p15.4	2012-08-09		2004-03-10	ENSG00000184478	ENSG00000184478		"GPCR / Class A : Olfactory receptors"	14786	protein-coding gene	gene with protein product				OR56A6, OR56A3P			Standard	NM_001003443		Approved		uc010qzt.2	Q8NH54	OTTHUMG00000165373	ENST00000329564.6:c.870C>A	11.37:g.5969446C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NN77|Q6IFF7	Silent	SNP	ENST00000329564.6	37	CCDS41614.1																																																																																				0.478	OR56A3-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383753.1	NM_001003443		A	5969446	C	A	5969446	2	1	623	1	0	0	0	0	0	0	0	1	11141	610	22	4		4	OR56A3	11	5969446	Silent	SNP	C	TCGA-KL-8324-01A-11D-2310-10	459396	5969446	129037070	50	38250										
DNHD1	144132	broad.mit.edu	37	chr11	6566233	6566234	+	Frame_Shift_Ins	INS	-	-	C													0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ctctatggggtgtgtgctcaINScttcccccgcctcttcttcc							TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:6566233_6566234insC	ENST00000527990.2	+	19	4064_4065	c.4064_4065insC	c.(4063-4068)cacttcfs	p.F1356fs	DNHD1_ENST00000254579.6_Frame_Shift_Ins_p.F1356fs			Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1	1356					microtubule-based movement (GO:0007018)	dynein complex (GO:0030286)|extracellular vesicular exosome (GO:0070062)	microtubule motor activity (GO:0003777)			NS(1)|autonomic_ganglia(1)|breast(4)|endometrium(13)|kidney(6)|large_intestine(11)|lung(14)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	55		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		GTGTGTGCTCACTTCCCCCGCC	0.579																																																0																																										SO:0001589	frameshift_variant	144132			AK128064	CCDS44532.1, CCDS7767.1	11p15.4	2011-02-10		2005-11-28	ENSG00000179532	ENSG00000179532			26532	protein-coding gene	gene with protein product			"chromosome 11 open reading frame 47", "dynein heavy chain domain 1-like", "coiled-coil domain containing 35"	DHCD1, C11orf47, DNHD1L, CCDC35		12975309	Standard	NM_173589		Approved	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796	uc001mdw.4	Q96M86	OTTHUMG00000133403	ENST00000527990.2:c.4065dupC	11.37:g.6566234_6566234dupC	ENSP00000436180:p.Phe1356fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKK8|Q6UWI9|Q8NAA2|Q8TEE6|Q9NSZ9	Frame_Shift_Ins	INS	ENST00000527990.2	37	CCDS44532.1																																																																																				0.579	DNHD1-007	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384673.2	NM_144666		C	6566234	-	C	6566233	7	5	623	1	0	1	1	0	0	0	0	0	4670	159	6	0	4147	0	DNHD1	11	6566233	Frame_Shift_Ins	INS	-	TCGA-KL-8324-01A-11D-2310-10	596787	6566233	128440283	51	38251										
KCNJ11	3767	broad.mit.edu	37	chr11	17408682	17408682	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	taacgtccgtcctcctcagcTacaatgggcacaaagcgctg	9	14	1	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:17408682T>C	ENST00000339994.4	-	1	1524	c.957A>G	c.(955-957)gtA>gtG	p.V319V	KCNJ11_ENST00000528731.1_Silent_p.V232V|KCNJ11_ENST00000526747.1_5'Flank	NM_000525.3	NP_000516.3	Q14654	KCJ11_HUMAN	potassium inwardly-rectifying channel, subfamily J, member 11	319					cellular response to glucose stimulus (GO:0071333)|cellular response to nicotine (GO:0071316)|cellular response to tumor necrosis factor (GO:0071356)|energy reserve metabolic process (GO:0006112)|glucose metabolic process (GO:0006006)|negative regulation of insulin secretion (GO:0046676)|neurological system process (GO:0050877)|positive regulation of cation channel activity (GO:2001259)|potassium ion import (GO:0010107)|potassium ion transmembrane transport (GO:0071805)|regulation of insulin secretion (GO:0050796)|regulation of membrane potential (GO:0042391)|response to ATP (GO:0033198)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to ischemia (GO:0002931)|response to testosterone (GO:0033574)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)	ATP-sensitive potassium channel complex (GO:0008282)|axolemma (GO:0030673)|cell body fiber (GO:0070852)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|integral component of plasma membrane (GO:0005887)|intercalated disc (GO:0014704)|mitochondrion (GO:0005739)|myelin sheath (GO:0043209)|neuronal cell body (GO:0043025)|nuclear envelope (GO:0005635)|plasma membrane (GO:0005886)|T-tubule (GO:0030315)|voltage-gated potassium channel complex (GO:0008076)	ankyrin binding (GO:0030506)|ATP binding (GO:0005524)|ATP-activated inward rectifier potassium channel activity (GO:0015272)|ion channel binding (GO:0044325)|potassium ion binding (GO:0030955)|voltage-gated potassium channel activity (GO:0005249)			endometrium(2)|large_intestine(2)|lung(6)|ovary(1)|prostate(3)|skin(2)	16				READ - Rectum adenocarcinoma(2;0.0276)|Colorectal(2;0.0633)	Diazoxide(DB01119)|Glimepiride(DB00222)|Glyburide(DB01016)|Ibutilide(DB00308)|Levosimendan(DB00922)|Thiamylal(DB01154)|Verapamil(DB00661)|Yohimbine(DB01392)	CCTCCTCAGCTACAATGGGCA	0.612											OREG0020810	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													156	136	143					11																	17408682		2200	4293	6493	SO:0001819	synonymous_variant	3767			D50582	CCDS31436.1, CCDS53606.1	11p15.1	2011-07-05						"Potassium channels", "Voltage-gated ion channels / Potassium channels, Inwardly rectifying"	6257	protein-coding gene	gene with protein product		600937				7502040, 16382105	Standard	NM_001166290		Approved	Kir6.2, BIR	uc001mna.3	Q14654		ENST00000339994.4:c.957A>G	11.37:g.17408682T>C		Somatic	717	WXS	Illumina HiSeq	Phase_I	B4DWI4|E9PNK0|Q2M1H7|Q58EX3|Q8IW96	Silent	SNP	ENST00000339994.4	37	CCDS31436.1																																																																																				0.612	KCNJ11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387037.1	NM_000525		C	17408682	T	C	17408682	2	2	623	1	0	0	0	0	0	0	0	1	8052	1509	53	3		3	KCNJ11	11	17408682	Silent	SNP	T	TCGA-KL-8324-01A-11D-2310-10	10842449	17408682	117597834	52	38252										
TMEM86A	144110	broad.mit.edu	37	chr11	18723333	18723334	+	Frame_Shift_Ins	INS	-	-	G													0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gctatggcagggctgcggctINSggccggggcagactggcgct							TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:18723333_18723334insG	ENST00000280734.2	+	3	596_597	c.500_501insG	c.(499-504)ctggccfs	p.A168fs		NM_153347.1	NP_699178.1	Q8N2M4	TM86A_HUMAN	transmembrane protein 86A	168						integral component of membrane (GO:0016021)				endometrium(2)|kidney(1)|large_intestine(4)|lung(1)|ovary(1)|skin(2)	11						GGGCTGCGGCTGGCCGGGGCAG	0.594																																																0																																										SO:0001589	frameshift_variant	144110			BC035692	CCDS7844.1	11p15.1	2005-10-28				ENSG00000151117			26890	protein-coding gene	gene with protein product							Standard	NM_153347		Approved	FLJ90119	uc001moz.1	Q8N2M4		ENST00000280734.2:c.502dupG	11.37:g.18723335_18723335dupG	ENSP00000280734:p.Ala168fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q96AJ0	Frame_Shift_Ins	INS	ENST00000280734.2	37	CCDS7844.1																																																																																				0.594	TMEM86A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387812.1	NM_153347		G	18723334	-	G	18723333	7	5	623	1	0	1	1	0	0	0	0	0	16220	1580	55	0	510	0	TMEM86A	11	18723333	Frame_Shift_Ins	INS	-	TCGA-KL-8324-01A-11D-2310-10	1314651	18723333	116283183	53	38253										
MPPED2	744	broad.mit.edu	37	chr11	30601906	30601906	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gtaactttgccttgagaaggAatcccatgtgccatccttcc	8	12	0	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:30601906A>G	ENST00000358117.5	-	1	137	c.15T>C	c.(13-15)atT>atC	p.I5I	MPPED2_ENST00000448418.2_Silent_p.I5I	NM_001584.2	NP_001575.1	Q15777	MPPD2_HUMAN	metallophosphoesterase domain containing 2	5					nervous system development (GO:0007399)		hydrolase activity (GO:0016787)|metal ion binding (GO:0046872)			NS(1)|breast(2)|endometrium(4)|kidney(2)|large_intestine(4)|liver(1)|lung(15)|skin(2)|upper_aerodigestive_tract(2)	33						CTTGAGAAGGAATCCCATGTG	0.493																																																0													242	193	209					11																	30601906		2202	4299	6501	SO:0001819	synonymous_variant	744			U57911	CCDS7870.1, CCDS44560.1	11p13	2008-07-18	2005-10-10	2005-10-10	ENSG00000066382	ENSG00000066382			1180	protein-coding gene	gene with protein product		600911	"chromosome 11 open reading frame 8"	C11orf8		8666403, 9266672	Standard	NM_001584		Approved	239FB, D11S302E, Hs.46638, FAM1B, dJ873F21.1, dJ1024C24.1	uc001msr.3	Q15777	OTTHUMG00000166159	ENST00000358117.5:c.15T>C	11.37:g.30601906A>G		Somatic		WXS	Illumina HiSeq	Phase_I	D3DQZ5|E9PB10|Q59GE6	Silent	SNP	ENST00000358117.5	37	CCDS7870.1																																																																																				0.493	MPPED2-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388155.2	NM_001584		G	30601906	A	G	30601906	2	3	623	1	0	0	0	0	0	0	0	1	9749	242	9	3		3	MPPED2	11	30601906	Silent	SNP	A	TCGA-KL-8324-01A-11D-2310-10	11878573	30601906	104404610	54	38254										
OR4A5	81318	mdanderson.org	37	chr11	51412043	51412043	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	agatggccacatagcgatcaCaggccatcaccaccagaagg	10	13	2	2			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:51412043C>T	ENST00000319760.6	-	1	405	c.353G>A	c.(352-354)tGt>tAt	p.C118Y		NM_001005272.3	NP_001005272.3	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A, member 5	118						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(8)|lung(28)|ovary(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	49		all_lung(304;0.236)				ATAGCGATCACAGGCCATCAC	0.468																																																0													71	68	69					11																	51412043		2201	4296	6497	SO:0001583	missense	81318			AB065506	CCDS73289.1	11p11.12	2012-08-09			ENSG00000221840	ENSG00000221840		"GPCR / Class A : Olfactory receptors"	15162	protein-coding gene	gene with protein product							Standard	NM_001005272		Approved		uc001nhi.2	Q8NH83	OTTHUMG00000166764	ENST00000319760.6:c.353G>A	11.37:g.51412043C>T	ENSP00000367664:p.Cys118Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF84	Missense_Mutation	SNP	ENST00000319760.6	37	CCDS31497.1	.	.	.	.	.	.	.	.	.	.	.	0.001	-3.423436	0.00013	.	.	ENSG00000221840	ENST00000319760	T	0.02944	4.1	1.93	-0.94	0.10405	GPCR, rhodopsin-like superfamily (1);	0.337598	0.21438	N	0.074538	T	0.00384	0.0012	N	0.00009	-3.08	0.23107	N	0.998289	B	0.02656	0.0	B	0.01281	0.0	T	0.45804	-0.9236	10	0.02654	T	1	.	5.5659	0.17170	0.0:0.3083:0.0:0.6917	.	118	Q8NH83	OR4A5_HUMAN	Y	118	ENSP00000367664:C118Y	ENSP00000367664:C118Y	C	-	2	0	OR4A5	51268619	0.534000	0.26362	0.997000	0.53966	0.143000	0.21401	0.263000	0.18478	-0.164000	0.10927	-1.252000	0.01501	TGT		0.468	OR4A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391399.1	NM_001005272		T	51412043	C	T	51412043	3	4	623	1	0	0	0	0	1	0	0	0	11050	478	17	2	598	2	OR4A5	11	51412043	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	20810137	51412043	83594473	55	38255										
OR5M8	219484	mdanderson.org	37	chr11	56258310	56258310	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	agcttaatcagtggtgggtcCgcacagtagaagtgattaat	12	6	1	2	rs150358569	byFrequency	TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:56258310C>T	ENST00000327216.2	-	1	561	c.537G>A	c.(535-537)gcG>gcA	p.A179A		NM_001005282.1	NP_001005282.1	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M, member 8	179						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(4)|lung(22)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	37	Esophageal squamous(21;0.00352)					GTGGTGGGTCCGCACAGTAGA	0.473													C|||	2	0.000399361	0.0	0.0	5008	,	,		18449	0.0		0.002	False		,,,				2504	0.0															0													93	92	93					11																	56258310		2201	4296	6497	SO:0001819	synonymous_variant	219484			AB065744	CCDS31533.1	11q11	2012-08-09			ENSG00000181371	ENSG00000181371		"GPCR / Class A : Olfactory receptors"	14846	protein-coding gene	gene with protein product							Standard	NM_001005282		Approved		uc001nix.1	Q8NGP6	OTTHUMG00000166877	ENST00000327216.2:c.537G>A	11.37:g.56258310C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RNM5|Q6IEW3|Q96RB8	Silent	SNP	ENST00000327216.2	37	CCDS31533.1																																																																																				0.473	OR5M8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391641.1	NM_001005282		T	56258310	C	T	56258310	2	4	623	1	0	0	0	0	0	0	0	1	11183	639	23	1		1	OR5M8	11	56258310	Silent	SNP	C	TCGA-KL-8324-01A-11D-2310-10	4846267	56258310	78748206	56	38256										
EHBP1L1	254102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	65350193	65350193	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tgacccaggagatatctgggGatttagggccactgaagata	13	7	1	4			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:65350193G>T	ENST00000309295.4	+	9	2315	c.2050G>T	c.(2050-2052)Gat>Tat	p.D684Y		NM_001099409.1	NP_001092879.1	Q8N3D4	EH1L1_HUMAN	EH domain binding protein 1-like 1	684	Glu-rich.					membrane (GO:0016020)				central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(3)|lung(6)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	23						GATATCTGGGGATTTAGGGCC	0.507																																																0													58	60	59					11																	65350193		1891	4131	6022	SO:0001583	missense	254102			AL834433	CCDS44649.1	11q13.1	2008-02-05			ENSG00000173442	ENSG00000173442			30682	protein-coding gene	gene with protein product							Standard	NM_001099409		Approved	DKFZp762C186, TANGERIN	uc001oeo.4	Q8N3D4	OTTHUMG00000166520	ENST00000309295.4:c.2050G>T	11.37:g.65350193G>T	ENSP00000312671:p.Asp684Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TB89|Q9H7M7	Missense_Mutation	SNP	ENST00000309295.4	37	CCDS44649.1	.	.	.	.	.	.	.	.	.	.	G	13.93	2.383414	0.42207	.	.	ENSG00000173442	ENST00000309295	T	0.65916	-0.18	4.77	2.88	0.33553	.	0.436525	0.17052	N	0.188887	T	0.40423	0.1116	N	0.19112	0.55	0.09310	N	0.999999	P	0.51653	0.947	B	0.37601	0.254	T	0.24548	-1.0157	10	0.54805	T	0.06	.	7.5216	0.27631	0.0894:0.0:0.7458:0.1648	.	684	Q8N3D4	EH1L1_HUMAN	Y	684	ENSP00000312671:D684Y	ENSP00000312671:D684Y	D	+	1	0	EHBP1L1	65106769	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	0.315000	0.19451	0.436000	0.26393	0.655000	0.94253	GAT		0.507	EHBP1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390145.1	XM_170658		T	65350193	G	T	65350193	3	4	623	1	0	0	0	0	1	0	0	0	4978	1174	41	4	2084	4	EHBP1L1	11	65350193	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10	9091883	65350193	69656323	57	38257										
FAM86C	55199	mdanderson.org	37	chr11	71507083	71507083	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	acgtgctgtattgcccagaaGccatcgtgtcgctggtcggg	14	11	0	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:71507083G>A	ENST00000359244.4	+	4	305	c.282G>A	c.(280-282)aaG>aaA	p.K94K	FAM86C1_ENST00000346333.6_Silent_p.K60K|FAM86C1_ENST00000426628.2_Silent_p.K87K	NM_018172.2	NP_060642.2	Q9NVL1	FA86C_HUMAN	family with sequence similarity 86, member C1	94										lung(1)	1						TTGCCCAGAAGCCATCGTGTC	0.612																																																0													44	48	46					11																	71507083		2199	4288	6487	SO:0001819	synonymous_variant	55199			AK130709	CCDS8202.1, CCDS41686.1, CCDS44664.1	11q13.4	2011-07-07	2011-07-07	2011-07-07	ENSG00000158483	ENSG00000158483			25561	protein-coding gene	gene with protein product			"family with sequence similarity 86, member C"	FAM86C		12477932	Standard	NM_152563		Approved	FLJ10661, FLJ27199	uc001oqv.4	Q9NVL1	OTTHUMG00000160552	ENST00000359244.4:c.282G>A	11.37:g.71507083G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N5D3	Silent	SNP	ENST00000359244.4	37	CCDS41686.1																																																																																				0.612	FAM86C1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000361120.1	NM_152563		A	71507083	G	A	71507083	2	1	623	1	0	0	0	0	0	0	0	1	5653	962	34	2		2	FAM86C	11	71507083	Silent	SNP	G	TCGA-KL-8324-01A-11D-2310-10	6156890	71507083	63499433	58	38258										
CLPB	81570	hgsc.bcm.edu;bcgsc.ca	37	chr11	72028203	72028203	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	caatgatgtgctcctttagtCgctgctccagggggaagcgg	14	10	0	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:72028203C>T	ENST00000294053.3	-	8	1198	c.1025G>A	c.(1024-1026)cGa>cAa	p.R342Q	CLPB_ENST00000543042.1_Missense_Mutation_p.R141Q|CLPB_ENST00000340729.5_Missense_Mutation_p.R283Q|CLPB_ENST00000437826.2_Missense_Mutation_p.R297Q|CLPB_ENST00000538039.1_Missense_Mutation_p.R312Q	NM_001258394.1|NM_030813.4	NP_001245323.1|NP_110440.1	Q9H078	CLPB_HUMAN	ClpB caseinolytic peptidase B homolog (E. coli)	342					cellular response to heat (GO:0034605)	mitochondrion (GO:0005739)	ATP binding (GO:0005524)			endometrium(3)|kidney(3)|large_intestine(2)|lung(7)|ovary(1)|pancreas(1)|skin(1)|urinary_tract(1)	19						CTCCTTTAGTCGCTGCTCCAG	0.632																																																0													110	94	99					11																	72028203		2200	4293	6493	SO:0001583	missense	81570			BC006404	CCDS8215.1, CCDS58152.1, CCDS58153.1, CCDS58154.1	11q13.4	2013-01-10			ENSG00000162129	ENSG00000162129		"Ankyrin repeat domain containing"	30664	protein-coding gene	gene with protein product	"suppressor of potassium transport defect 3"					11230166, 7835694	Standard	NM_030813		Approved	HSP78, SKD3, FLJ13152	uc010rqy.3	Q9H078	OTTHUMG00000167902	ENST00000294053.3:c.1025G>A	11.37:g.72028203C>T	ENSP00000294053:p.Arg342Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DXJ7|B4DXP7|E7EWN6|F8W7P6|Q8ND11|Q9H8Y0	Missense_Mutation	SNP	ENST00000294053.3	37	CCDS8215.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	36|36	5.859350|5.859350	0.97036|0.97036	.|.	.|.	ENSG00000162129|ENSG00000162129	ENST00000544382|ENST00000294053;ENST00000538039;ENST00000535990;ENST00000340729;ENST00000437826;ENST00000543042	.|T;T;T;T;T;T	.|0.30182	.|1.54;1.54;1.54;1.54;1.54;1.54	5.7|5.7	5.7|5.7	0.88788|0.88788	.|.	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.59197|0.59197	0.2176|0.2176	M|M	0.78049|0.78049	2.395|2.395	0.52099|0.52099	D|D	0.999947|0.999947	.|D;D;D;D;D	.|0.89917	.|1.0;1.0;1.0;1.0;1.0	.|D;D;D;D;D	.|0.85130	.|0.974;0.995;0.946;0.976;0.997	T|T	0.59742|0.59742	-0.7397|-0.7397	5|10	.|0.54805	.|T	.|0.06	-13.1716|-13.1716	18.4028|18.4028	0.90522|0.90522	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|141;283;297;312;342	.|B4DXW4;F8W7P6;E7EWN6;Q9H078-2;Q9H078	.|.;.;.;.;CLPB_HUMAN	N|Q	120|342;312;347;283;297;141	.|ENSP00000294053:R342Q;ENSP00000441518:R312Q;ENSP00000443822:R347Q;ENSP00000340385:R283Q;ENSP00000407296:R297Q;ENSP00000439746:R141Q	.|ENSP00000294053:R342Q	D|R	-|-	1|2	0|0	CLPB|CLPB	71705851|71705851	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.982000|0.982000	0.71751|0.71751	6.903000|6.903000	0.75703|0.75703	2.696000|2.696000	0.92011|0.92011	0.655000|0.655000	0.94253|0.94253	GAC|CGA		0.632	CLPB-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000396889.1	NM_030813		T	72028203	C	T	72028203	3	4	623	1	0	0	0	0	1	0	0	0	3553	884	31	1	1138	1	CLPB	11	72028203	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	521120	72028203	62978313	59	38259										
ATM	472	broad.mit.edu	37	chr11	108216609	108216609	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tgagaagcgattggcttataCgcgcagtgtagctacttctt	11	8	1	1	rs141534716		TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:108216609C>T	ENST00000452508.2	+	59	8747	c.8558C>T	c.(8557-8559)aCg>aTg	p.T2853M	C11orf65_ENST00000526725.1_Intron|C11orf65_ENST00000525729.1_Intron|ATM_ENST00000278616.4_Missense_Mutation_p.T2853M			Q13315	ATM_HUMAN	ATM serine/threonine kinase	2853	PI3K/PI4K. {ECO:0000255|PROSITE- ProRule:PRU00269}.				brain development (GO:0007420)|cell cycle arrest (GO:0007050)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to gamma radiation (GO:0071480)|DNA damage induced protein phosphorylation (GO:0006975)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|heart development (GO:0007507)|histone mRNA catabolic process (GO:0071044)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|lipoprotein catabolic process (GO:0042159)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of B cell proliferation (GO:0030889)|neuron apoptotic process (GO:0051402)|oocyte development (GO:0048599)|peptidyl-serine phosphorylation (GO:0018105)|phosphatidylinositol-3-phosphate biosynthetic process (GO:0036092)|positive regulation of apoptotic process (GO:0043065)|positive regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043517)|positive regulation of neuron apoptotic process (GO:0043525)|pre-B cell allelic exclusion (GO:0002331)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|reciprocal meiotic recombination (GO:0007131)|replicative senescence (GO:0090399)|response to hypoxia (GO:0001666)|response to ionizing radiation (GO:0010212)|signal transduction (GO:0007165)|signal transduction involved in mitotic G2 DNA damage checkpoint (GO:0072434)|somitogenesis (GO:0001756)|telomere maintenance (GO:0000723)	cytoplasmic vesicle (GO:0031410)|nucleoplasm (GO:0005654)|spindle (GO:0005819)	1-phosphatidylinositol-3-kinase activity (GO:0016303)|ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA-dependent protein kinase activity (GO:0004677)|histone serine kinase activity (GO:0035174)|protein complex binding (GO:0032403)|protein dimerization activity (GO:0046983)|protein N-terminus binding (GO:0047485)|protein serine/threonine kinase activity (GO:0004674)	p.T2853M(2)|p.Y2852fs*4(1)		NS(4)|breast(23)|central_nervous_system(11)|endometrium(10)|haematopoietic_and_lymphoid_tissue(227)|kidney(19)|large_intestine(53)|liver(5)|lung(62)|ovary(6)|pancreas(4)|prostate(13)|skin(4)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	448		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)	Caffeine(DB00201)	TTGGCTTATACGCGCAGTGTA	0.368			"D, Mis, N, F, S"		T-PLL	"leukemia, lymphoma, medulloblastoma, glioma"		Genes defective in diseases associated with sensitivity to DNA damaging agents	Ataxia Telangiectasia	TSP Lung(14;0.12)																												yes	Rec	yes	Ataxia-telangiectasia	11	11q22.3	472	ataxia telangiectasia mutated		"L, O"	3	Substitution - Missense(2)|Deletion - Frameshift(1)	endometrium(2)|prostate(1)						C	MET/THR	1,4401	2.1+/-5.4	0,1,2200	141	144	143		8558	5.5	1	11	dbSNP_134	143	1,8595	1.2+/-3.3	0,1,4297	yes	missense	ATM	NM_000051.3	81	0,2,6497	TT,TC,CC		0.0116,0.0227,0.0154	probably-damaging	2853/3057	108216609	2,12996	2201	4298	6499	SO:0001583	missense	472	Familial Cancer Database	AT, Louis-Bar syndrome	AB209133	CCDS31669.1	11q22-q23	2014-09-17	2014-06-17		ENSG00000149311	ENSG00000149311			795	protein-coding gene	gene with protein product	"TEL1, telomere maintenance 1, homolog (S. cerevisiae)"	607585	"ataxia telangiectasia mutated (includes complementation groups A, C and D)", "ataxia telangiectasia mutated"	ATA, ATDC, ATC, ATD			Standard	XM_005271561		Approved	TEL1, TELO1	uc001pkb.1	Q13315	OTTHUMG00000166480	ENST00000452508.2:c.8558C>T	11.37:g.108216609C>T	ENSP00000388058:p.Thr2853Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNX5|O15429|Q12758|Q16551|Q93007|Q9NP02|Q9UCX7	Missense_Mutation	SNP	ENST00000452508.2	37	CCDS31669.1	.	.	.	.	.	.	.	.	.	.	C	31	5.069148	0.93950	2.27E-4	1.16E-4	ENSG00000149311	ENST00000278616;ENST00000452508	D;D	0.82433	-1.61;-1.61	5.54	5.54	0.83059	Protein kinase-like domain (1);Armadillo-type fold (1);Phosphatidylinositol 3-/4-kinase, catalytic (4);	0.000000	0.85682	D	0.000000	D	0.92642	0.7662	M	0.87827	2.91	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.93456	0.6806	10	0.87932	D	0	.	19.4688	0.94954	0.0:1.0:0.0:0.0	.	2853	Q13315	ATM_HUMAN	M	2853	ENSP00000278616:T2853M;ENSP00000388058:T2853M	ENSP00000278616:T2853M	T	+	2	0	ATM	107721819	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.802000	0.85969	2.594000	0.87642	0.650000	0.86243	ACG		0.368	ATM-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389938.1	NM_000051		T	108216609	C	T	108216609	3	4	623	1	0	0	0	0	1	0	0	0	1109	536	19	1	8784	1	ATM	11	108216609	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	36188406	108216609	26789907	60	38260										
OR8D4	338662	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr11	123777314	123777314	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tcgtcaacttcatacccccaTgtactatttcctgagtagtt	5	12	2	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:123777314T>A	ENST00000321355.2	+	1	206	c.176T>A	c.(175-177)aTg>aAg	p.M59K		NM_001005197.1	NP_001005197.1	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D, member 4	59						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.M59T(1)		large_intestine(1)|lung(16)|prostate(1)|skin(2)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	25		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;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		CATACCCCCATGTACTATTTC	0.398																																																1	Substitution - Missense(1)	lung(1)											246	235	239					11																	123777314		2202	4299	6501	SO:0001583	missense	338662			AB065761	CCDS31698.1	11q24.1	2012-08-09			ENSG00000181518	ENSG00000181518		"GPCR / Class A : Olfactory receptors"	14840	protein-coding gene	gene with protein product							Standard	NM_001005197		Approved		uc010saa.2	Q8NGM9	OTTHUMG00000165960	ENST00000321355.2:c.176T>A	11.37:g.123777314T>A	ENSP00000325381:p.Met59Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFE9	Missense_Mutation	SNP	ENST00000321355.2	37	CCDS31698.1	.	.	.	.	.	.	.	.	.	.	T	13.42	2.233122	0.39498	.	.	ENSG00000181518	ENST00000321355	T	0.09911	2.93	5.67	5.67	0.87782	GPCR, rhodopsin-like superfamily (1);	0.000000	0.64402	D	0.000019	T	0.48077	0.1480	H	0.97682	4.055	0.44098	D	0.996865	D	0.76494	0.999	D	0.69479	0.964	T	0.67280	-0.5710	10	0.87932	D	0	.	14.8892	0.70594	0.0:0.0:0.0:1.0	.	59	Q8NGM9	OR8D4_HUMAN	K	59	ENSP00000325381:M59K	ENSP00000325381:M59K	M	+	2	0	OR8D4	123282524	1.000000	0.71417	1.000000	0.80357	0.053000	0.15095	4.803000	0.62546	2.143000	0.66587	0.533000	0.62120	ATG		0.398	OR8D4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387262.1	NM_001005197		A	123777314	T	A	123777314	3	1	623	1	0	0	0	0	1	0	0	0	11240	1464	51	5	178	5	OR8D4	11	123777314	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10	15560705	123777314	11229202	61	38261										
VWA5A	4013	broad.mit.edu	37	chr11	124005629	124005629	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gtcctgttacaattgcaggtGtttctcatttggtattggag	11	6	1	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:124005629G>A	ENST00000456829.2	+	12	1498	c.1247G>A	c.(1246-1248)tGt>tAt	p.C416Y	VWA5A_ENST00000392748.1_Missense_Mutation_p.C416Y|VWA5A_ENST00000360334.4_Intron	NM_001130142.1	NP_001123614.1	O00534	VMA5A_HUMAN	von Willebrand factor A domain containing 5A	416	VWFA. {ECO:0000255|PROSITE- ProRule:PRU00219}.									autonomic_ganglia(1)|breast(3)|endometrium(5)|kidney(2)|large_intestine(11)|lung(17)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	47						AATTGCAGGTGTTTCTCATTT	0.408																																																0													60	59	59					11																	124005629		2201	4299	6500	SO:0001583	missense	4013			AF002672	CCDS8444.1, CCDS8445.1	11q24.1	2008-07-25	2008-07-25	2008-07-25	ENSG00000110002	ENSG00000110002			6658	protein-coding gene	gene with protein product		602929	"loss of heterozygosity, 11, chromosomal region 2, gene A"	LOH11CR2A		9417908, 14504409	Standard	NM_001130142		Approved	BCSC-1	uc001pzt.3	O00534	OTTHUMG00000165971	ENST00000456829.2:c.1247G>A	11.37:g.124005629G>A	ENSP00000407726:p.Cys416Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UN19|Q6UN20|Q9BVF8	Missense_Mutation	SNP	ENST00000456829.2	37	CCDS8444.1	.	.	.	.	.	.	.	.	.	.	G	18.50	3.637952	0.67130	.	.	ENSG00000110002	ENST00000456829;ENST00000392748	T;T	0.08546	3.08;3.08	5.86	5.86	0.93980	von Willebrand factor, type A (3);	0.000000	0.85682	D	0.000000	T	0.35128	0.0921	M	0.85945	2.785	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.06570	-1.0819	10	0.66056	D	0.02	-19.8932	17.6693	0.88212	0.0:0.0:1.0:0.0	.	416	O00534	VMA5A_HUMAN	Y	416	ENSP00000407726:C416Y;ENSP00000376504:C416Y	ENSP00000376504:C416Y	C	+	2	0	VWA5A	123510839	1.000000	0.71417	0.998000	0.56505	0.576000	0.36127	7.722000	0.84778	2.774000	0.95407	0.655000	0.94253	TGT		0.408	VWA5A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387273.1	NM_014622		A	124005629	G	A	124005629	3	1	623	1	0	0	0	0	1	0	0	0	17254	1377	48	2	1289	2	VWA5A	11	124005629	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10	228315	124005629	11000887	62	38262										
OR8B4	283162	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr11	124294671	124294671	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	cacagtgaacacatagatccCtaagaatagaaggaaaagag	9	7	0	5			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr11:124294671C>T	ENST00000356130.3	-	1	118	c.97G>A	c.(97-99)Ggg>Agg	p.G33R		NM_001005196.1	NP_001005196.1	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B, member 4	33						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(1)|large_intestine(7)|lung(15)|ovary(1)|skin(6)|stomach(1)|urinary_tract(1)	32		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;0.0279)		ACATAGATCCCTAAGAATAGA	0.453																																																0													61	60	60					11																	124294671		2201	4299	6500	SO:0001583	missense	283162			AB065831	CCDS31710.1	11q24	2012-08-09		2001-06-29	ENSG00000198657	ENSG00000198657		"GPCR / Class A : Olfactory receptors"	8473	protein-coding gene	gene with protein product				OR8B4P			Standard	NM_001005196		Approved		uc010sak.2	Q96RC9	OTTHUMG00000165916	ENST00000356130.3:c.97G>A	11.37:g.124294671C>T	ENSP00000348449:p.Gly33Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNF8|Q6IFQ7	Missense_Mutation	SNP	ENST00000356130.3	37	CCDS31710.1	.	.	.	.	.	.	.	.	.	.	c	10.08	1.252464	0.22880	.	.	ENSG00000198657	ENST00000356130	T	0.00441	7.41	4.06	3.1	0.35709	.	0.242372	0.28841	N	0.013974	T	0.00496	0.0016	M	0.75615	2.305	0.09310	N	1	P	0.41159	0.74	P	0.46543	0.52	T	0.41998	-0.9477	10	0.30854	T	0.27	.	4.0815	0.09929	0.1674:0.5804:0.1624:0.0898	.	33	Q96RC9	OR8B4_HUMAN	R	33	ENSP00000348449:G33R	ENSP00000348449:G33R	G	-	1	0	OR8B4	123799881	0.000000	0.05858	0.981000	0.43875	0.226000	0.24999	-2.237000	0.01200	1.238000	0.43771	0.655000	0.94253	GGG		0.453	OR8B4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387055.1	NM_001005196		T	124294671	C	T	124294671	3	4	623	1	0	0	0	0	1	0	0	0	11236	681	24	2	834	2	OR8B4	11	124294671	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	289042	124294671	10711845	63	38263										
FOXJ2	55810	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr12	8196571	8196571	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	cccaagactcaccagaacagGaggcaagcaagagcccacgg	11	14	1	3			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr12:8196571G>C	ENST00000162391.3	+	5	1647	c.502G>C	c.(502-504)Gag>Cag	p.E168Q	FOXJ2_ENST00000428177.2_Missense_Mutation_p.E168Q	NM_018416.2	NP_060886.1	Q9P0K8	FOXJ2_HUMAN	forkhead box J2	168					positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)	nucleolus (GO:0005730)|nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding (GO:0043565)			autonomic_ganglia(1)|large_intestine(2)|lung(6)|ovary(2)|skin(3)|upper_aerodigestive_tract(2)	16				Kidney(36;0.0944)		ACCAGAACAGGAGGCAAGCAA	0.542																																																0													81	80	81					12																	8196571		2203	4300	6503	SO:0001583	missense	55810			AF155132	CCDS8587.1	12p13.31	2006-12-15				ENSG00000065970		"Forkhead boxes"	24818	protein-coding gene	gene with protein product						10777590, 10966786	Standard	NM_018416		Approved	FHX	uc001qtu.3	Q9P0K8		ENST00000162391.3:c.502G>C	12.37:g.8196571G>C	ENSP00000162391:p.Glu168Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVK4|B2RMP3|Q96PS9|Q9NSN5	Missense_Mutation	SNP	ENST00000162391.3	37	CCDS8587.1	.	.	.	.	.	.	.	.	.	.	G	18.22	3.575239	0.65878	.	.	ENSG00000065970	ENST00000162391;ENST00000428177	D;D	0.94793	-3.35;-3.52	5.2	5.2	0.72013	.	0.562326	0.16897	N	0.195084	D	0.90466	0.7014	N	0.24115	0.695	0.41544	D	0.988532	B;B	0.29301	0.155;0.241	B;B	0.34931	0.039;0.192	D	0.87667	0.2538	10	0.30078	T	0.28	.	14.2723	0.66159	0.0:0.0:1.0:0.0	.	168;168	Q9P0K8;Q9P0K8-2	FOXJ2_HUMAN;.	Q	168	ENSP00000162391:E168Q;ENSP00000403411:E168Q	ENSP00000162391:E168Q	E	+	1	0	FOXJ2	8087838	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	6.332000	0.72934	2.423000	0.82170	0.561000	0.74099	GAG		0.542	FOXJ2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400088.1	NM_018416		C	8196571	G	C	8196571	3	2	623	1	0	0	0	0	1	0	0	0	6019	1175	41	4	516	4	FOXJ2	12	8196571	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10		8196571	125655324	64	38264										
TAS2R43	259289	mdanderson.org	37	chr12	11244435	11244435	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tagcaaaggccccaacaacaTcaccagaatgacactcttaa	5	13	2	2	rs11526470		TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr12:11244435T>C	ENST00000531678.1	-	1	477	c.394A>G	c.(394-396)Atg>Gtg	p.M132V	TAS2R14_ENST00000381852.4_Intron|PRR4_ENST00000536668.1_Intron	NM_176884.2	NP_795365.2	P59537	T2R43_HUMAN	taste receptor, type 2, member 43	132					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)|G-protein coupled receptor signaling pathway (GO:0007186)	integral component of membrane (GO:0016021)|motile cilium (GO:0031514)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)|taste receptor activity (GO:0008527)			endometrium(1)|ovary(1)|prostate(2)|urinary_tract(1)	5			OV - Ovarian serous cystadenocarcinoma(49;0.0344)	BRCA - Breast invasive adenocarcinoma(232;0.196)		CCCAACAACATCACCAGAATG	0.363																																																0								T	VAL/MET	408,3464		164,80,1692	64	58	60		394	2	0	12	dbSNP_132	60	1419,6771		564,291,3240	no	missense	TAS2R43	NM_176884.2	21	728,371,4932	CC,CT,TT		17.326,10.5372,15.1467	benign	132/310	11244435	1827,10235	1936	4095	6031	SO:0001583	missense	259289			AF494237	CCDS53749.1	12p13.2	2012-08-22				ENSG00000255374		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	18875	protein-coding gene	gene with protein product		612668				12379855	Standard	NM_176884		Approved	T2R52	uc001qzq.1	P59537		ENST00000531678.1:c.394A>G	12.37:g.11244435T>C	ENSP00000431719:p.Met132Val	Somatic		WXS	Illumina HiSeq	Phase_I	P59546|Q645X4	Missense_Mutation	SNP	ENST00000531678.1	37	CCDS53749.1	.	.	.	.	.	.	.	.	.	.	-	3.576	-0.086637	0.07097	0.105372	0.17326	ENSG00000255374	ENST00000531678	T	0.00737	5.76	1.97	1.97	0.26223	.	.	.	.	.	T	0.00012	0.0000	L	0.58510	1.815	0.80722	P	0.0	B	0.02656	0.0	B	0.06405	0.002	T	0.31364	-0.9946	8	0.35671	T	0.21	.	5.8653	0.18771	0.0:0.0:0.0:1.0	.	132	P59537	T2R43_HUMAN	V	132	ENSP00000431719:M132V	ENSP00000431719:M132V	M	-	1	0	TAS2R43	11135702	0.000000	0.05858	0.005000	0.12908	0.026000	0.11368	-0.179000	0.09768	0.902000	0.36520	0.155000	0.16302	ATG		0.363	TAS2R43-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383561.1	NM_176884		C	11244435	T	C	11244435	3	2	623	1	0	0	0	0	1	0	0	0	15593	1435	50	3	539	3	TAS2R43	12	11244435	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10	3047864	11244435	122607460	65	38265										
ATF7IP	55729	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	14589046	14589046	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gttttccttctcagatgaatTttctagacgaaaacgttcta	6	8	3	3			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr12:14589046T>G	ENST00000540793.1	+	3	1807	c.1652T>G	c.(1651-1653)tTt>tGt	p.F551C	ATF7IP_ENST00000541654.1_3'UTR|ATF7IP_ENST00000543189.1_Missense_Mutation_p.F550C|ATF7IP_ENST00000536444.1_Missense_Mutation_p.F550C|ATF7IP_ENST00000544627.1_Missense_Mutation_p.F559C|ATF7IP_ENST00000261168.4_Missense_Mutation_p.F551C			Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting protein	551	Glu-rich.				DNA methylation (GO:0006306)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of RNA polymerase II transcriptional preinitiation complex assembly (GO:0045898)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	nucleus (GO:0005634)				cervix(1)|endometrium(7)|kidney(5)|large_intestine(10)|liver(2)|lung(22)|ovary(1)|prostate(4)|skin(1)|urinary_tract(1)	54						TCAGATGAATTTTCTAGACGA	0.333																																																0													72	69	70					12																	14589046		2203	4300	6503	SO:0001583	missense	55729			AJ242978	CCDS8663.1, CCDS66326.1, CCDS66327.1, CCDS73449.1	12p13.1	2005-11-18				ENSG00000171681			20092	protein-coding gene	gene with protein product		613644				10976766, 10777215	Standard	XM_005253424		Approved	FLJ10688, p621	uc001rbw.3	Q6VMQ6		ENST00000540793.1:c.1652T>G	12.37:g.14589046T>G	ENSP00000444589:p.Phe551Cys	Somatic		WXS	Illumina HiSeq	Phase_I	F5GX74|G3V1U0|Q4G0T9|Q6P3T3|Q86XW5|Q9NVJ9|Q9NWC2|Q9Y4X8	Missense_Mutation	SNP	ENST00000540793.1	37	CCDS8663.1	.	.	.	.	.	.	.	.	.	.	T	12.78	2.041184	0.35989	.	.	ENSG00000171681	ENST00000261168;ENST00000543189;ENST00000536444;ENST00000544627;ENST00000540793	T;T;T;T;T	0.18810	2.19;2.19;2.19;2.19;2.19	5.48	1.68	0.24146	.	0.254035	0.28853	N	0.013940	T	0.30355	0.0762	L	0.51422	1.61	0.21897	N	0.999481	D;B;D;D;B;B	0.64830	0.994;0.005;0.981;0.981;0.004;0.004	P;B;P;P;B;B	0.61722	0.893;0.005;0.673;0.673;0.01;0.01	T	0.04522	-1.0945	10	0.66056	D	0.02	-10.5064	6.0815	0.19944	0.0:0.1288:0.2623:0.6089	.	559;550;550;551;550;162	B4E2A2;B4DRL6;G3V1U0;Q6VMQ6;Q6VMQ6-2;B3KQF8	.;.;.;MCAF1_HUMAN;.;.	C	551;550;550;559;551	ENSP00000261168:F551C;ENSP00000443179:F550C;ENSP00000445955:F550C;ENSP00000440440:F559C;ENSP00000444589:F551C	ENSP00000261168:F551C	F	+	2	0	ATF7IP	14480313	0.998000	0.40836	0.525000	0.27900	0.251000	0.25915	1.483000	0.35497	0.407000	0.25591	0.477000	0.44152	TTT		0.333	ATF7IP-024	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000401400.1	NM_018179		G	14589046	T	G	14589046	3	3	623	1	0	0	0	0	1	0	0	0	1087	1841	64	5	1662	5	ATF7IP	12	14589046	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10	3344611	14589046	119262849	66	38266										
DDX11	1663	mdanderson.org	37	chr12	31247692	31247692	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	catgtgtttgttctcagggaCggagctgaagaccatcaacg	12	9	2	2			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr12:31247692C>T	ENST00000407793.2	+	14	1669	c.1418C>T	c.(1417-1419)aCg>aTg	p.T473M	DDX11_ENST00000251758.5_3'UTR|DDX11_ENST00000228264.6_Missense_Mutation_p.T447M|DDX11_ENST00000542838.1_Missense_Mutation_p.T473M|DDX11_ENST00000350437.4_Missense_Mutation_p.T473M|DDX11_ENST00000545668.1_Missense_Mutation_p.T473M|DDX11_ENST00000539673.1_3'UTR	NM_030653.3|NM_152438.1	NP_085911.2|NP_689651.1	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11	473					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|ATP catabolic process (GO:0006200)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|sister chromatid cohesion (GO:0007062)|viral process (GO:0016032)	midbody (GO:0030496)|nuclear chromatin (GO:0000790)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle pole (GO:0000922)	4 iron, 4 sulfur cluster binding (GO:0051539)|ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA-dependent ATPase activity (GO:0008094)|double-stranded DNA binding (GO:0003690)|helicase activity (GO:0004386)|metal ion binding (GO:0046872)|RNA binding (GO:0003723)|single-stranded DNA binding (GO:0003697)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(11)|large_intestine(5)|lung(23)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	57	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					TTCTCAGGGACGGAGCTGAAG	0.512										Multiple Myeloma(12;0.14)																																						0													37	38	38					12																	31247692		2202	4280	6482	SO:0001583	missense	1663			U75969	CCDS8721.1, CCDS41767.1, CCDS44856.1, CCDS58224.1	12p11.21	2012-02-23	2012-02-23		ENSG00000013573	ENSG00000013573		"DEAD-boxes"	2736	protein-coding gene	gene with protein product	"CHL1-like helicase homolog (S. cerevisiae)"	601150	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11 (S.cerevisiae CHL1-like helicase)", "DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11"				Standard	NM_030653		Approved	CHLR1, KRG2, CHL1, ChlR1, WABS	uc001rjv.2	Q96FC9	OTTHUMG00000168435	ENST00000407793.2:c.1418C>T	12.37:g.31247692C>T	ENSP00000384703:p.Thr473Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q13333|Q86VQ4|Q86W62|Q92498|Q92770|Q92998|Q92999	Missense_Mutation	SNP	ENST00000407793.2	37	CCDS44856.1	.	.	.	.	.	.	.	.	.	.	C	13.17	2.158393	0.38119	.	.	ENSG00000013573	ENST00000542838;ENST00000407793;ENST00000404673;ENST00000228264;ENST00000545668;ENST00000350437	D;T;D;T;T	0.91740	-2.9;0.54;-2.9;0.54;0.54	3.23	2.33	0.28932	.	0.502768	0.22867	N	0.054667	D	0.94062	0.8097	.	.	.	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;0.999;1.0	D;D;D;D	0.66084	0.941;0.924;0.911;0.941	D	0.91770	0.5427	9	0.44086	T	0.13	.	8.1231	0.30982	0.0:0.8744:0.0:0.1256	.	447;473;473;473	Q96FC9-3;Q96FC9;Q96FC9-4;Q96FC9-2	.;DDX11_HUMAN;.;.	M	473;473;198;447;473;473	ENSP00000443426:T473M;ENSP00000384703:T473M;ENSP00000228264:T447M;ENSP00000440402:T473M;ENSP00000309965:T473M	ENSP00000228264:T447M	T	+	2	0	DDX11	31138959	0.936000	0.31750	0.959000	0.39883	0.636000	0.38137	1.961000	0.40432	0.556000	0.29098	-0.362000	0.07510	ACG		0.512	DDX11-202	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000399728.1	NM_030653		T	31247692	C	T	31247692	3	4	623	1	0	0	0	0	1	0	0	0	4345	536	19	1	1468	1	DDX11	12	31247692	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	16658646	31247692	102604203	67	38267										
OR10A7	121364	broad.mit.edu	37	chr12	55615316	55615316	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tgatggcccttcctttctgtGgaccaaatgccgtggaccac	10	13	1	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr12:55615316G>A	ENST00000326258.1	+	1	508	c.508G>A	c.(508-510)Gga>Aga	p.G170R		NM_001005280.1	NP_001005280.1	Q8NGE5	O10A7_HUMAN	olfactory receptor, family 10, subfamily A, member 7	170						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(3)|kidney(1)|lung(11)|ovary(4)|prostate(2)|skin(3)	24						TCCTTTCTGTGGACCAAATGC	0.498																																																0													179	153	162					12																	55615316		2203	4300	6503	SO:0001583	missense	121364			BK004327	CCDS31815.1	12q13.13	2012-08-09				ENSG00000179919		"GPCR / Class A : Olfactory receptors"	15329	protein-coding gene	gene with protein product							Standard	NM_001005280		Approved		uc010spf.2	Q8NGE5	OTTHUMG00000169860	ENST00000326258.1:c.508G>A	12.37:g.55615316G>A	ENSP00000326718:p.Gly170Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFD5|Q96R19	Missense_Mutation	SNP	ENST00000326258.1	37	CCDS31815.1	.	.	.	.	.	.	.	.	.	.	g	15.11	2.736040	0.49045	.	.	ENSG00000179919	ENST00000326258	T	0.38560	1.13	3.55	3.55	0.40652	GPCR, rhodopsin-like superfamily (1);	0.000000	0.40554	N	0.001068	T	0.53061	0.1773	M	0.69823	2.125	0.32695	N	0.513659	P	0.45768	0.866	P	0.50192	0.634	T	0.69558	-0.5113	10	0.59425	D	0.04	.	15.2909	0.73865	0.0:0.0:1.0:0.0	.	170	Q8NGE5	O10A7_HUMAN	R	170	ENSP00000326718:G170R	ENSP00000326718:G170R	G	+	1	0	OR10A7	53901583	1.000000	0.71417	0.943000	0.38184	0.753000	0.42808	3.279000	0.51670	2.002000	0.58637	0.637000	0.83480	GGA		0.498	OR10A7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406308.1			A	55615316	G	A	55615316	3	1	623	1	0	0	0	0	1	0	0	0	10902	1349	47	2	510	2	OR10A7	12	55615316	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10	24367624	55615316	78236579	68	38268										
IKBIP	121457	mdanderson.org	37	chr12	99019897	99019897	+	Intron	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tgcatctccattatttcagaCactgctttcagcatatcatc	4	12	4	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr12:99019897C>A	ENST00000342502.2	-	2	709				IKBIP_ENST00000420861.1_Intron|IKBIP_ENST00000299157.4_Silent_p.V315V|IKBIP_ENST00000393042.3_Intron	NM_201612.2	NP_963906.1	Q70UQ0	IKIP_HUMAN	IKBKB interacting protein						response to X-ray (GO:0010165)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)				NS(1)|kidney(1)|large_intestine(1)|lung(1)|prostate(2)	6						TTATTTCAGACACTGCTTTCA	0.338																																																0													82	78	79					12																	99019897		2203	4299	6502	SO:0001627	intron_variant	121457			AJ539425	CCDS9067.1, CCDS9068.1, CCDS41822.1	12q23.1	2010-02-17			ENSG00000166130	ENSG00000166130			26430	protein-coding gene	gene with protein product	"I kappa B kinase interacting protein"	609861				15389287	Standard	NM_153687		Approved	FLJ31051, IKIP	uc001tfx.4	Q70UQ0	OTTHUMG00000170213	ENST00000342502.2:c.297+8176G>T	12.37:g.99019897C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZWH4|Q70UP9|Q86V91|Q96ND2	Silent	SNP	ENST00000342502.2	37	CCDS9067.1																																																																																				0.338	IKBIP-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000408003.2	NM_153687		A	99019897	C	A	99019897	1	1	623	0	1	0	0	0	0	0	0	0	7616	465	17	4		4	IKBIP	12	99019897	Intron	SNP	C	TCGA-KL-8324-01A-11D-2310-10	43404581	99019897	34831998	69	38269										
CCDC64	92558	broad.mit.edu	37	chr12	120510407	120510407	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gctgactcagccgtctccacGgactcctccatggacgagtc	10	16	2	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr12:120510407G>A	ENST00000397558.2	+	6	1182	c.1182G>A	c.(1180-1182)acG>acA	p.T394T	CCDC64_ENST00000257583.4_Silent_p.T43T|CCDC64_ENST00000446727.2_Intron	NM_207311.2	NP_997194.2	Q6ZP65	BICR1_HUMAN	coiled-coil domain containing 64	394					Golgi to secretory granule transport (GO:0055107)|neuron projection development (GO:0031175)	centrosome (GO:0005813)|cytoplasm (GO:0005737)	dynactin binding (GO:0034452)|Rab GTPase binding (GO:0017137)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|liver(2)|lung(4)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	22	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CCGTCTCCACGGACTCCTCCA	0.572																																																0													62	65	64					12																	120510407		2108	4236	6344	SO:0001819	synonymous_variant	92558			U88834, AK129960	CCDS41845.1	12q24.23	2006-01-24				ENSG00000135127			28095	protein-coding gene	gene with protein product							Standard	NM_207311		Approved	FLJ26450	uc001txl.1	Q6ZP65	OTTHUMG00000169311	ENST00000397558.2:c.1182G>A	12.37:g.120510407G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MUC8|B4DWL0|B5MDJ0|O95000	Silent	SNP	ENST00000397558.2	37	CCDS41845.1																																																																																				0.572	CCDC64-001	NOVEL	not_organism_supported|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000403390.2	NM_207311		A	120510407	G	A	120510407	2	1	623	1	0	0	0	0	0	0	0	1	2837	1103	39	1		1	CCDC64	12	120510407	Silent	SNP	G	TCGA-KL-8324-01A-11D-2310-10	21490510	120510407	13341488	70	38270										
POLR1D	51082	broad.mit.edu;mdanderson.org	37	chr13	28197257	28197257	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tcagactcgaggtacccttcCagctgttgagccatttcaga	9	12	2	3			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr13:28197257C>T	ENST00000302979.3	+	3	1294	c.272C>T	c.(271-273)cCa>cTa	p.P91L	POLR1D_ENST00000399697.3_Intron|POLR1D_ENST00000465887.1_Intron|LNX2_ENST00000316334.3_5'Flank|POLR1D_ENST00000399696.1_Missense_Mutation_p.P91L	NM_015972.3	NP_057056.1	Q9Y2S0	RPAC2_HUMAN	polymerase (RNA) I polypeptide D, 16kDa	91					gene expression (GO:0010467)|innate immune response (GO:0045087)|positive regulation of type I interferon production (GO:0032481)|termination of RNA polymerase I transcription (GO:0006363)|termination of RNA polymerase III transcription (GO:0006386)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription elongation from RNA polymerase III promoter (GO:0006385)|transcription from RNA polymerase I promoter (GO:0006360)|transcription from RNA polymerase III promoter (GO:0006383)|transcription initiation from RNA polymerase I promoter (GO:0006361)	cytosol (GO:0005829)|DNA-directed RNA polymerase I complex (GO:0005736)|DNA-directed RNA polymerase III complex (GO:0005666)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)			endometrium(1)|large_intestine(1)|lung(4)|stomach(2)	8		Lung SC(185;0.0161)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.0758)|OV - Ovarian serous cystadenocarcinoma(117;0.1)|Epithelial(112;0.213)		GGTACCCTTCCAGCTGTTGAG	0.443																																																0													104	105	104					13																	28197257		2203	4300	6503	SO:0001583	missense	51082			AF077044, BC018528	CCDS9324.1, CCDS9325.1, CCDS73555.1	13q12.2	2013-01-21			ENSG00000186184	ENSG00000186184		"RNA polymerase subunits"	20422	protein-coding gene	gene with protein product		613715				11042152, 12391170	Standard	NM_015972		Approved	RPAC2, RPA16, RPO1-3, RPA9, MGC9850	uc001urp.3	Q9Y2S0	OTTHUMG00000016635	ENST00000302979.3:c.272C>T	13.37:g.28197257C>T	ENSP00000302478:p.Pro91Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TBX2|Q96BR3	Missense_Mutation	SNP	ENST00000302979.3	37	CCDS9325.1	.	.	.	.	.	.	.	.	.	.	C	19.08	3.757524	0.69648	.	.	ENSG00000186184	ENST00000302979;ENST00000399696	D;D	0.92495	-3.05;-3.05	5.08	5.08	0.68730	DNA-directed RNA polymerase, dimerisation (1);DNA-directed RNA polymerase, RBP11-like (1);	.	.	.	.	D	0.95050	0.8397	M	0.76574	2.34	0.58432	D	0.999998	D	0.69078	0.997	D	0.63703	0.917	D	0.94642	0.7831	9	0.52906	T	0.07	-7.0239	14.7727	0.69691	0.0:1.0:0.0:0.0	.	91	Q9Y2S0	RPAC2_HUMAN	L	91	ENSP00000302478:P91L;ENSP00000382603:P91L	ENSP00000302478:P91L	P	+	2	0	POLR1D	27095257	0.990000	0.36364	1.000000	0.80357	0.981000	0.71138	1.158000	0.31737	2.767000	0.95098	0.650000	0.86243	CCA		0.443	POLR1D-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000044305.1	NM_015972, NM_152705		T	28197257	C	T	28197257	3	4	623	1	0	0	0	0	1	0	0	0	12219	594	21	2	278	2	POLR1D	13	28197257	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10		28197257	86972621	71	38271										
NEK5	341676	broad.mit.edu	37	chr13	52686431	52686431	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tcactaaataacacaccccgTtgtctattgatccttttcat	3	12	3	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr13:52686431T>C	ENST00000355568.4	-	5	424	c.285A>G	c.(283-285)caA>caG	p.Q95Q		NM_199289.1	NP_954983.1	Q6P3R8	NEK5_HUMAN	NIMA-related kinase 5	95	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				positive regulation of cysteine-type endopeptidase activity (GO:2001056)|positive regulation of striated muscle cell differentiation (GO:0051155)		ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)			breast(5)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(2)|large_intestine(8)|lung(11)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	39		Breast(56;0.00173)|Lung NSC(96;0.0168)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;3.7e-08)		ACACACCCCGTTGTCTATTGA	0.348																																																0													132	121	125					13																	52686431		2203	4300	6503	SO:0001819	synonymous_variant	341676			BC063885	CCDS31979.1	13q14.2	2012-11-15	2012-11-15		ENSG00000197168	ENSG00000197168			7748	protein-coding gene	gene with protein product			"NIMA (never in mitosis gene a)-related kinase 5"			9552363	Standard	XM_006719807		Approved		uc001vge.3	Q6P3R8	OTTHUMG00000016957	ENST00000355568.4:c.285A>G	13.37:g.52686431T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TAP5	Silent	SNP	ENST00000355568.4	37	CCDS31979.1																																																																																				0.348	NEK5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045045.3	NM_199289		C	52686431	T	C	52686431	2	2	623	1	0	0	0	0	0	0	0	1	10334	1722	60	3		3	NEK5	13	52686431	Silent	SNP	T	TCGA-KL-8324-01A-11D-2310-10	24489174	52686431	62483447	72	38272										
GNPNAT1	64841	broad.mit.edu	37	chr14	53250171	53250172	+	Frame_Shift_Del	DEL	TC	TC	-													0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ttcagggctgacaactccagTctctgttagctgacccaata							TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr14:53250171_53250172delTC	ENST00000216410.3	-	3	373_374	c.186_187delGA	c.(184-189)gagactfs	p.ET62fs	GNPNAT1_ENST00000554230.1_5'UTR|RN7SL588P_ENST00000583393.1_RNA	NM_198066.3	NP_932332.1	Q96EK6	GNA1_HUMAN	glucosamine-phosphate N-acetyltransferase 1	62	N-acetyltransferase. {ECO:0000255|PROSITE-ProRule:PRU00532}.				cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|glucosamine metabolic process (GO:0006041)|liver development (GO:0001889)|N-acetylglucosamine metabolic process (GO:0006044)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)|UDP-N-acetylglucosamine biosynthetic process (GO:0006048)	cytosol (GO:0005829)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|Golgi apparatus (GO:0005794)|late endosome (GO:0005770)|membrane (GO:0016020)	glucosamine 6-phosphate N-acetyltransferase activity (GO:0004343)|monosaccharide binding (GO:0048029)			liver(1)|lung(1)|prostate(1)|skin(1)	4	Breast(41;0.176)					ACAACTCCAGTCTCTGTTAGCT	0.327																																																0																																										SO:0001589	frameshift_variant	64841			AK001469	CCDS9712.1	14q22.1	2011-11-16			ENSG00000100522	ENSG00000100522	2.3.1.4		19980	protein-coding gene	gene with protein product							Standard	NM_198066		Approved	Gpnat1, FLJ10607	uc001xab.3	Q96EK6	OTTHUMG00000152334	ENST00000216410.3:c.186_187delGA	14.37:g.53250173_53250174delTC	ENSP00000216410:p.Glu62fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000216410.3	37	CCDS9712.1																																																																																				0.327	GNPNAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276898.1			-	53250172	TC	-	53250171	7	5	623	1	0	1	0	1	0	0	0	0	6551	1667	58	0	383	0	GNPNAT1	14	53250171	Frame_Shift_Del	DEL	TC	TCGA-KL-8324-01A-11D-2310-10		53250171	54099369	73	38273										
AHSA1	10598	broad.mit.edu	37	chr14	77926107	77926111	+	Frame_Shift_Del	DEL	CTTAT	CTTAT	-													0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ttaacaatcgcaaagggaaaCttatcttcttttatgaatgg							TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	CTTAT	CTTAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr14:77926107_77926111delCTTAT	ENST00000216479.3	+	2	389_393	c.229_233delCTTAT	c.(229-234)cttatcfs	p.LI77fs	AHSA1_ENST00000535854.2_Frame_Shift_Del_p.LI77fs|VIPAS39_ENST00000556412.1_5'Flank|VIPAS39_ENST00000343765.2_5'Flank|VIPAS39_ENST00000448935.2_5'Flank|VIPAS39_ENST00000327028.4_5'Flank|VIPAS39_ENST00000553888.1_5'Flank|VIPAS39_ENST00000557658.1_5'Flank|AHSA1_ENST00000555517.1_Frame_Shift_Del_p.LI77fs|VIPAS39_ENST00000556909.1_5'Flank|AHSA1_ENST00000555457.1_3'UTR	NM_012111.2	NP_036243.1	O95433	AHSA1_HUMAN	AHA1, activator of heat shock 90kDa protein ATPase homolog 1 (yeast)	77					positive regulation of ATPase activity (GO:0032781)|response to stress (GO:0006950)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)	ATPase activator activity (GO:0001671)|chaperone binding (GO:0051087)			endometrium(1)|kidney(3)|large_intestine(1)|prostate(1)|skin(1)|stomach(1)	8			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)		CAAAGGGAAACTTATCTTCTTTTAT	0.429																																																0																																										SO:0001589	frameshift_variant	10598			AJ243310	CCDS9863.1	14q	2008-02-05	2003-04-04	2003-04-11		ENSG00000100591			1189	protein-coding gene	gene with protein product		608466	"chromosome 14 open reading frame 3"	C14orf3			Standard	NM_012111		Approved	p38	uc001xtw.3	O95433		ENST00000216479.3:c.229_233delCTTAT	14.37:g.77926107_77926111delCTTAT	ENSP00000216479:p.Leu77fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9L2|B4DUR9|Q96IL6|Q9P060	Frame_Shift_Del	DEL	ENST00000216479.3	37	CCDS9863.1																																																																																				0.429	AHSA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414017.1	NM_012111		-	77926111	CTTAT	-	77926107	7	5	623	1	0	1	0	1	0	0	0	0	418	565	20	0	235	0	AHSA1	14	77926107	Frame_Shift_Del	DEL	CTTAT	TCGA-KL-8324-01A-11D-2310-10	24675936	77926107	29423433	74	38274	301	2								
AHSA1	10598	bcgsc.ca	37	chr14	77926108	77926112	+	Frame_Shift_Del	DEL	CTTAT	CTTAT	-													0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	taacaatcgcaaagggaaacTtatcttcttttatgaatgga							TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	CTTAT	CTTAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr14:77926108_77926112delCTTAT	ENST00000216479.3	+	2	390_394	c.230_234delCTTAT	c.(229-234)ccttatfs	p.PY77fs	AHSA1_ENST00000535854.2_Frame_Shift_Del_p.PY77fs|VIPAS39_ENST00000556412.1_5'Flank|VIPAS39_ENST00000343765.2_5'Flank|VIPAS39_ENST00000448935.2_5'Flank|VIPAS39_ENST00000327028.4_5'Flank|VIPAS39_ENST00000553888.1_5'Flank|VIPAS39_ENST00000557658.1_5'Flank|AHSA1_ENST00000555517.1_Frame_Shift_Del_p.PY77fs|VIPAS39_ENST00000556909.1_5'Flank|AHSA1_ENST00000555457.1_3'UTR	NM_012111.2	NP_036243.1	O95433	AHSA1_HUMAN	AHA1, activator of heat shock 90kDa protein ATPase homolog 1 (yeast)	77					positive regulation of ATPase activity (GO:0032781)|response to stress (GO:0006950)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)	ATPase activator activity (GO:0001671)|chaperone binding (GO:0051087)			endometrium(1)|kidney(3)|large_intestine(1)|prostate(1)|skin(1)|stomach(1)	8			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)		AAAGGGAAACTTATCTTCTTTTATG	0.429																																																0																																										SO:0001589	frameshift_variant	10598			AJ243310	CCDS9863.1	14q	2008-02-05	2003-04-04	2003-04-11		ENSG00000100591			1189	protein-coding gene	gene with protein product		608466	"chromosome 14 open reading frame 3"	C14orf3			Standard	NM_012111		Approved	p38	uc001xtw.3	O95433		ENST00000216479.3:c.230_234delCTTAT	14.37:g.77926108_77926112delCTTAT	ENSP00000216479:p.Pro77fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9L2|B4DUR9|Q96IL6|Q9P060	Frame_Shift_Del	DEL	ENST00000216479.3	37	CCDS9863.1																																																																																				0.429	AHSA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414017.1	NM_012111		-	77926112	CTTAT	-	77926108	7	5	623	1	0	1	0	1	0	0	0	0	418	1609	56	0	236	0	AHSA1	14	77926108	Frame_Shift_Del	DEL	CTTAT	TCGA-KL-8324-01A-11D-2310-10	1	77926108	29423432	75	38275	301	2								
OTUD7A	161725	broad.mit.edu	37	chr15	31779681	31779681	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	agccgggcgttatcgttgtcGtctttcccccactcccagtc	9	16	1	0	rs200079505		TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr15:31779681G>A	ENST00000307050.4	-	9	1331	c.1239C>T	c.(1237-1239)gaC>gaT	p.D413D	OTUD7A_ENST00000382902.1_Silent_p.D420D	NM_130901.1	NP_570971.1	Q8TE49	OTU7A_HUMAN	OTU deubiquitinase 7A	413	Catalytic. {ECO:0000250}.				protein K11-linked deubiquitination (GO:0035871)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|ubiquitin-specific protease activity (GO:0004843)|zinc ion binding (GO:0008270)			endometrium(7)|large_intestine(4)|lung(11)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(4)	30		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		TATCGTTGTCGTCTTTCCCCC	0.612																																																0													109	92	98					15																	31779681		2202	4299	6501	SO:0001819	synonymous_variant	161725			AJ430383	CCDS10026.1	15q13.1	2014-02-24	2014-02-24	2006-07-07	ENSG00000169918	ENSG00000169918		"OTU domain containing"	20718	protein-coding gene	gene with protein product		612024	"chromosome 15 open reading frame 16", "OTU domain containing 7", "OTU domain containing 7A"	C15orf16, OTUD7		23827681	Standard	NM_130901		Approved	CEZANNE2	uc001zfq.3	Q8TE49	OTTHUMG00000129275	ENST00000307050.4:c.1239C>T	15.37:g.31779681G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IWK5	Silent	SNP	ENST00000307050.4	37	CCDS10026.1																																																																																				0.612	OTUD7A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251393.2	NM_130901		A	31779681	G	A	31779681	2	1	623	1	0	0	0	0	0	0	0	1	11325	1136	40	1		1	OTUD7A	15	31779681	Silent	SNP	G	TCGA-KL-8324-01A-11D-2310-10		31779681	70751711	76	38276										
FAM98B	283742	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	38773557	38773557	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tgctttgtcacccaagacaaCgattacaatggcacatctac	6	12	2	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr15:38773557C>T	ENST00000491535.1	+	7	802	c.794C>T	c.(793-795)aCg>aTg	p.T265M	FAM98B_ENST00000397609.2_Missense_Mutation_p.T265M	NM_001042429.1	NP_001035894.1	Q52LJ0	FA98B_HUMAN	family with sequence similarity 98, member B	265						cytoplasm (GO:0005737)|nucleus (GO:0005634)|tRNA-splicing ligase complex (GO:0072669)	poly(A) RNA binding (GO:0044822)			endometrium(2)|large_intestine(3)|lung(1)|ovary(1)|skin(1)	8		all_cancers(109;3.11e-17)|all_epithelial(112;2.64e-15)|Lung NSC(122;2.11e-11)|all_lung(180;5.61e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;9e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0209)		CCCAAGACAACGATTACAATG	0.408																																																0													103	91	95					15																	38773557		2200	4297	6497	SO:0001583	missense	283742				CCDS10047.2	15q14	2006-11-29		2005-11-20	ENSG00000171262	ENSG00000171262			26773	protein-coding gene	gene with protein product						12477932	Standard	NM_173611		Approved	FLJ38426	uc001zkc.3	Q52LJ0	OTTHUMG00000129831	ENST00000491535.1:c.794C>T	15.37:g.38773557C>T	ENSP00000453166:p.Thr265Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUW5|Q8N935	Missense_Mutation	SNP	ENST00000491535.1	37	CCDS42015.1	.	.	.	.	.	.	.	.	.	.	C	13.07	2.126754	0.37533	.	.	ENSG00000171262	ENST00000397609;ENST00000305752	T	0.45668	0.89	4.85	4.85	0.62838	.	0.204155	0.50627	D	0.000111	T	0.58892	0.2154	L	0.45581	1.43	0.47407	D	0.999411	D;P	0.89917	1.0;0.949	D;B	0.75484	0.986;0.387	T	0.56878	-0.7906	10	0.45353	T	0.12	-24.3977	18.5212	0.90952	0.0:1.0:0.0:0.0	.	265;265	A8MUW5;Q52LJ0	.;FA98B_HUMAN	M	265	ENSP00000380734:T265M	ENSP00000303412:T265M	T	+	2	0	FAM98B	36560849	0.172000	0.23043	0.931000	0.37212	0.092000	0.18411	0.935000	0.28924	2.675000	0.91044	0.467000	0.42956	ACG		0.408	FAM98B-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000252071.2	NM_173611		T	38773557	C	T	38773557	3	4	623	1	0	0	0	0	1	0	0	0	5664	536	19	1	820	1	FAM98B	15	38773557	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	6993876	38773557	63757835	77	38277										
CASC5	57082	broad.mit.edu	37	chr15	40943724	40943724	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	cccttgctcaaatagactttAtgcaaaaacaaagaaataga	5	8	1	3			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr15:40943724A>G	ENST00000346991.5	+	21	6736	c.6346A>G	c.(6346-6348)Atg>Gtg	p.M2116V	CASC5_ENST00000399668.2_Missense_Mutation_p.M2090V			Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5	2116	Necessary for kinetochore localization and for interaction with NSL1 and DSN1.				acrosome assembly (GO:0001675)|attachment of spindle microtubules to kinetochore (GO:0008608)|CENP-A containing nucleosome assembly (GO:0034080)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of phosphatase activity (GO:0010923)|nucleosome assembly (GO:0006334)|protein localization to kinetochore (GO:0034501)|spindle assembly checkpoint (GO:0071173)	acrosomal vesicle (GO:0001669)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|kinetochore (GO:0000776)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				NS(1)|breast(7)|central_nervous_system(1)|endometrium(6)|kidney(4)|large_intestine(13)|lung(16)|skin(3)|stomach(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	57		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		AATAGACTTTATGCAAAAACA	0.363																																																0													85	78	80					15																	40943724		1829	4095	5924	SO:0001583	missense	57082			AF173994	CCDS42023.1, CCDS42024.1	15q14	2013-07-03			ENSG00000137812	ENSG00000137812		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	24054	protein-coding gene	gene with protein product	"cancer/testis antigen 29", "kinetochore null 1 homolog (C. elegans)", "blinkin, bub-linking kinetochore protein", "protein phosphatase 1, regulatory subunit 55"	609173				10980622, 10780384, 18045986	Standard	NM_170589		Approved	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7	uc010bbt.1	Q8NG31	OTTHUMG00000166532	ENST00000346991.5:c.6346A>G	15.37:g.40943724A>G	ENSP00000335463:p.Met2116Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHE1|Q8WXA6|Q9HCK2|Q9NR92	Missense_Mutation	SNP	ENST00000346991.5	37	CCDS42023.1	.	.	.	.	.	.	.	.	.	.	A	9.506	1.104450	0.20632	.	.	ENSG00000137812	ENST00000346991;ENST00000399668	T;T	0.04502	3.61;3.61	5.05	-2.59	0.06209	.	1.055760	0.07421	N	0.893975	T	0.01222	0.0040	N	0.00926	-1.1	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.001	T	0.47787	-0.9090	10	0.08381	T	0.77	.	1.2805	0.02040	0.41:0.2947:0.1485:0.1468	.	2090;2116	Q8NG31-2;Q8NG31	.;CASC5_HUMAN	V	2116;2090	ENSP00000335463:M2116V;ENSP00000382576:M2090V	ENSP00000335463:M2116V	M	+	1	0	CASC5	38731016	0.000000	0.05858	0.118000	0.21660	0.947000	0.59692	0.346000	0.19997	-0.082000	0.12640	-0.313000	0.08912	ATG		0.363	CASC5-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000390224.2	NM_144508		G	40943724	A	G	40943724	3	3	623	1	0	0	0	0	1	0	0	0	2665	449	16	3	6424	3	CASC5	15	40943724	Missense_Mutation	SNP	A	TCGA-KL-8324-01A-11D-2310-10	2170167	40943724	61587668	78	38278										
AGBL1	123624	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr15	86808005	86808005	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	agatgatggcatttcctgatGtctggggacactgtccccct	11	11	1	3			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr15:86808005G>A	ENST00000441037.2	+	10	1560	c.1465G>A	c.(1465-1467)Gtc>Atc	p.V489I	AGBL1_ENST00000389298.3_Missense_Mutation_p.V220I|AGBL1_ENST00000421325.2_Missense_Mutation_p.V489I	NM_152336.2	NP_689549.2	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	489					C-terminal protein deglutamylation (GO:0035609)|protein side chain deglutamylation (GO:0035610)	cytoplasm (GO:0005737)	metallocarboxypeptidase activity (GO:0004181)|tubulin binding (GO:0015631)|zinc ion binding (GO:0008270)			NS(3)|breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(8)|liver(2)|lung(28)|ovary(2)|prostate(4)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	62						ATTTCCTGATGTCTGGGGACA	0.502																																																0													100	98	98					15																	86808005		1943	4140	6083	SO:0001583	missense	123624			AK056872	CCDS58398.1	15q25.3	2014-06-23			ENSG00000166748	ENSG00000166748			26504	protein-coding gene	gene with protein product	"cytosolic carboxypeptidase 4"	615496				21074048, 24094747	Standard	NM_152336		Approved	FLJ32310, CCP4	uc002blz.1	Q96MI9	OTTHUMG00000149978	ENST00000441037.2:c.1465G>A	15.37:g.86808005G>A	ENSP00000413001:p.Val489Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4X5|A6NJH6|C9JHL5	Missense_Mutation	SNP	ENST00000441037.2	37	CCDS58398.1	.	.	.	.	.	.	.	.	.	.	G	14.06	2.422678	0.43020	.	.	ENSG00000166748	ENST00000441037;ENST00000421325;ENST00000389298	T;T	0.27557	1.66;1.66	5.96	-7.53	0.01336	Armadillo-type fold (1);	0.396899	0.26875	N	0.022048	T	0.10723	0.0262	N	0.14661	0.345	0.09310	N	1	B;B;B	0.14438	0.01;0.01;0.0	B;B;B	0.14023	0.007;0.01;0.001	T	0.05818	-1.0862	10	0.37606	T	0.19	-3.0574	3.7427	0.08536	0.0996:0.1294:0.4062:0.3648	.	188;220;489	Q96MI9-2;Q96MI9-3;Q96MI9	.;.;CBPC4_HUMAN	I	518;489;220	ENSP00000397173:V489I;ENSP00000373949:V220I	ENSP00000373949:V220I	V	+	1	0	AGBL1	84609009	0.706000	0.27856	0.070000	0.20053	0.901000	0.52897	0.294000	0.19047	-0.795000	0.04462	-1.181000	0.01715	GTC		0.502	AGBL1-001	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000314929.5	NM_152336		A	86808005	G	A	86808005	3	1	623	1	0	0	0	0	1	0	0	0	375	1377	48	2	1499	2	AGBL1	15	86808005	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10	45864281	86808005	15723387	79	38279										
DCTPP1	79077	broad.mit.edu	37	chr16	30435593	30435593	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gtggagtcacagggaatgtcCgcaggccccacagcctggtc	14	13	1	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr16:30435593C>T	ENST00000319285.4	-	3	568	c.474G>A	c.(472-474)gcG>gcA	p.A158A	DCTPP1_ENST00000568434.1_Silent_p.A37A|DCTPP1_ENST00000568973.1_Silent_p.A37A|ZNF771_ENST00000566625.1_Intron|DCTPP1_ENST00000565758.1_Silent_p.A37A|DCTPP1_ENST00000567983.1_Silent_p.A59A	NM_024096.1	NP_077001.1	Q9H773	DCTP1_HUMAN	dCTP pyrophosphatase 1	158					nucleoside triphosphate catabolic process (GO:0009143)|protein homotetramerization (GO:0051289)	cytosol (GO:0005829)	dCTP diphosphatase activity (GO:0047840)|magnesium ion binding (GO:0000287)|nucleoside-triphosphate diphosphatase activity (GO:0047429)|pyrimidine deoxyribonucleotide binding (GO:0032556)			kidney(1)|large_intestine(3)|upper_aerodigestive_tract(1)	5						AGGGAATGTCCGCAGGCCCCA	0.607																																																0													41	38	39					16																	30435593		2197	4300	6497	SO:0001819	synonymous_variant	79077			BC001344	CCDS10680.1	16p11.2	2009-02-11			ENSG00000179958	ENSG00000179958	3.6.1.12		28777	protein-coding gene	gene with protein product	"XTP3-transactivated protein A"	615840				15740738	Standard	NM_024096		Approved	MGC5627, RS21C6, CDA03, XTP3TPA	uc002dyf.3	Q9H773	OTTHUMG00000132416	ENST00000319285.4:c.474G>A	16.37:g.30435593C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000319285.4	37	CCDS10680.1																																																																																				0.607	DCTPP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255553.2	NM_024096		T	30435593	C	T	30435593	2	4	623	1	0	0	0	0	0	0	0	1	4314	639	23	1		1	DCTPP1	16	30435593	Silent	SNP	C	TCGA-KL-8324-01A-11D-2310-10		30435593	59919160	80	38280										
ITGAM	3684	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	31283282	31283282	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	taacgcagctgcttgggcggAcacacacggccacgggcatc	13	14	0	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr16:31283282A>G	ENST00000287497.8	+	7	748	c.673A>G	c.(673-675)Aca>Gca	p.T225A	ITGAM_ENST00000544665.3_Missense_Mutation_p.T225A			P11215	ITAM_HUMAN	integrin, alpha M (complement component 3 receptor 3 subunit)	225	VWFA. {ECO:0000255|PROSITE- ProRule:PRU00219}.				activated T cell proliferation (GO:0050798)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cellular extravasation (GO:0045123)|ectodermal cell differentiation (GO:0010668)|extracellular matrix organization (GO:0030198)|innate immune response (GO:0045087)|integrin-mediated signaling pathway (GO:0007229)|leukocyte cell-cell adhesion (GO:0007159)|leukocyte migration (GO:0050900)|leukocyte migration involved in inflammatory response (GO:0002523)|microglia development (GO:0014005)|neutrophil chemotaxis (GO:0030593)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor signaling pathway (GO:0002224)	cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integrin complex (GO:0008305)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	glycoprotein binding (GO:0001948)|heparin binding (GO:0008201)|metal ion binding (GO:0046872)			endometrium(7)|kidney(1)|large_intestine(10)|lung(32)|ovary(1)|prostate(4)|skin(1)	56						GCTTGGGCGGACACACACGGC	0.507																																																0													94	92	92					16																	31283282		1990	4204	6194	SO:0001583	missense	3684			J03925	CCDS45470.1, CCDS54004.1	16p11.2	2010-03-23	2006-02-10			ENSG00000169896		"CD molecules", "Complement system", "Integrins"	6149	protein-coding gene	gene with protein product		120980	"integrin, alpha M (complement component receptor 3, alpha; also known as CD11b (p170), macrophage antigen alpha polypeptide)"	CR3A, CD11B			Standard	NM_001145808		Approved	MAC-1, CD11b	uc002ebr.3	P11215		ENST00000287497.8:c.673A>G	16.37:g.31283282A>G	ENSP00000287497:p.Thr225Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VAK0|Q4VAK1|Q4VAK2	Missense_Mutation	SNP	ENST00000287497.8	37	CCDS45470.1	.	.	.	.	.	.	.	.	.	.	A	19.61	3.859430	0.71834	.	.	ENSG00000169896	ENST00000544665;ENST00000287497	D;D	0.89123	-2.47;-2.47	5.5	5.5	0.81552	von Willebrand factor, type A (3);	.	.	.	.	D	0.95392	0.8504	M	0.91038	3.17	0.32039	N	0.598499	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.998	D	0.96123	0.9086	9	0.87932	D	0	.	13.4224	0.61005	1.0:0.0:0.0:0.0	.	225;225	Q4VAK1;P11215	.;ITAM_HUMAN	A	225	ENSP00000441691:T225A;ENSP00000287497:T225A	ENSP00000287497:T225A	T	+	1	0	ITGAM	31190783	0.993000	0.37304	0.134000	0.22075	0.006000	0.05464	5.684000	0.68197	2.226000	0.72624	0.459000	0.35465	ACA		0.507	ITGAM-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000432816.1	NM_000632		G	31283282	A	G	31283282	3	3	623	1	0	0	0	0	1	0	0	0	7894	275	10	3	699	3	ITGAM	16	31283282	Missense_Mutation	SNP	A	TCGA-KL-8324-01A-11D-2310-10	847689	31283282	59071471	81	38281										
ANKRD11	29123	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	89349348	89349348	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tctccttgtgcttttcaaagActttctcttttttgtctctc	4	11	4	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr16:89349348A>T	ENST00000301030.4	-	9	4062	c.3602T>A	c.(3601-3603)gTc>gAc	p.V1201D	ANKRD11_ENST00000378330.2_Missense_Mutation_p.V1201D	NM_001256183.1|NM_013275.5	NP_001243112.1|NP_037407.4	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1201	Lys-rich.				bone development (GO:0060348)|face morphogenesis (GO:0060325)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|odontogenesis of dentin-containing tooth (GO:0042475)|skeletal system morphogenesis (GO:0048705)|tissue homeostasis (GO:0001894)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(4)|central_nervous_system(3)|endometrium(17)|kidney(2)|large_intestine(18)|lung(20)|ovary(6)|pancreas(1)|prostate(2)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	83		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		CTTTTCAAAGACTTTCTCTTT	0.502																																																0													86	97	93					16																	89349348		2198	4300	6498	SO:0001583	missense	29123			AY373756	CCDS32513.1	16q24.3	2013-01-10				ENSG00000167522		"Ankyrin repeat domain containing"	21316	protein-coding gene	gene with protein product		611192				11483580	Standard	NM_001256182		Approved	LZ16, T13	uc002fnc.2	Q6UB99		ENST00000301030.4:c.3602T>A	16.37:g.89349348A>T	ENSP00000301030:p.Val1201Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NTG1|Q6QMF8	Missense_Mutation	SNP	ENST00000301030.4	37	CCDS32513.1	.	.	.	.	.	.	.	.	.	.	A	0.526	-0.860029	0.02610	.	.	ENSG00000167522	ENST00000301030;ENST00000378330	T;T	0.37235	1.21;1.21	4.85	-9.7	0.00521	.	1.943490	0.02494	N	0.089786	T	0.20129	0.0484	L	0.29908	0.895	0.09310	N	1	B	0.21071	0.051	B	0.16722	0.016	T	0.06285	-1.0835	10	0.18276	T	0.48	.	6.167	0.20396	0.1154:0.1856:0.5219:0.1771	.	1201	Q6UB99	ANR11_HUMAN	D	1201	ENSP00000301030:V1201D;ENSP00000367581:V1201D	ENSP00000301030:V1201D	V	-	2	0	ANKRD11	87876849	0.000000	0.05858	0.000000	0.03702	0.008000	0.06430	-0.493000	0.06459	-1.869000	0.01141	-0.379000	0.06801	GTC		0.502	ANKRD11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000430462.3	NM_013275		T	89349348	A	T	89349348	3	4	623	1	0	0	0	0	1	0	0	0	639	275	10	5	4409	5	ANKRD11	16	89349348	Missense_Mutation	SNP	A	TCGA-KL-8324-01A-11D-2310-10	58066066	89349348	1005405	82	38282										
ZZEF1	23140	ucsc.edu;bcgsc.ca	37	chr17	3981271	3981271	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	agcaggctgccttggacggaCcagaacagggagaagagcac	15	10	0	3			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr17:3981271C>T	ENST00000381638.2	-	19	3019	c.2895G>A	c.(2893-2895)tgG>tgA	p.W965*	ZZEF1_ENST00000574474.1_5'UTR	NM_015113.3	NP_055928.3	O43149	ZZEF1_HUMAN	zinc finger, ZZ-type with EF-hand domain 1	965							calcium ion binding (GO:0005509)|zinc ion binding (GO:0008270)			central_nervous_system(1)|cervix(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(17)|lung(19)|ovary(3)|pancreas(1)|prostate(3)|skin(8)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(3)	84						CTTGGACGGACCAGAACAGGG	0.547																																																0													81	74	77					17																	3981271		2203	4300	6503	SO:0001587	stop_gained	23140			BC035319	CCDS11043.1	17p13.3	2013-01-10	2004-11-03		ENSG00000074755	ENSG00000074755		"Zinc fingers, ZZ-type", "EF-hand domain containing"	29027	protein-coding gene	gene with protein product			"zinc finger, ZZ-type with EF hand domain 1"			9455477	Standard	XM_005256560		Approved	KIAA0399, ZZZ4, FLJ10821	uc002fxe.3	O43149	OTTHUMG00000090741	ENST00000381638.2:c.2895G>A	17.37:g.3981271C>T	ENSP00000371051:p.Trp965*	Somatic		WXS	Illumina HiSeq	Phase_I	A7MBM5|Q6NXG0|Q6ZRA1|Q6ZSF4|Q9NVB9	Nonsense_Mutation	SNP	ENST00000381638.2	37	CCDS11043.1	.	.	.	.	.	.	.	.	.	.	C	41	9.003988	0.99033	.	.	ENSG00000074755	ENST00000381638	.	.	.	5.98	5.01	0.66863	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-9.0904	15.0566	0.71917	0.0:0.9322:0.0:0.0678	.	.	.	.	X	965	.	ENSP00000371051:W965X	W	-	3	0	ZZEF1	3928020	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.276000	0.78559	1.537000	0.49254	0.591000	0.81541	TGG		0.547	ZZEF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207480.1	NM_015113		T	3981271	C	T	3981271	4	4	623	1	0	0	0	0	0	1	0	0	18267	508	18	2	6138	2	ZZEF1	17	3981271	Nonsense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10		3981271	77213939	83	38283										
POLR2A	5430	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	7400726	7400726	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tgaagatcaacaatcagctgCggcgcaatgagcagaacggc	12	10	2	4	rs201628232		TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr17:7400726C>T	ENST00000322644.6	+	6	1270	c.871C>T	c.(871-873)Cgg>Tgg	p.R291W	POLR2A_ENST00000572844.1_Missense_Mutation_p.R291W	NM_000937.4	NP_000928	P24928	RPB1_HUMAN	polymerase (RNA) II (DNA directed) polypeptide A, 220kDa	291					7-methylguanosine mRNA capping (GO:0006370)|DNA repair (GO:0006281)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|nucleotide-excision repair (GO:0006289)|positive regulation of viral transcription (GO:0050434)|regulation of transcription, DNA-templated (GO:0006355)|RNA splicing (GO:0008380)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription-coupled nucleotide-excision repair (GO:0006283)|viral process (GO:0016032)	DNA-directed RNA polymerase II, core complex (GO:0005665)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|RNA-directed RNA polymerase activity (GO:0003968)|ubiquitin protein ligase binding (GO:0031625)			breast(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(8)|lung(17)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	50		Prostate(122;0.173)				CAATCAGCTGCGGCGCAATGA	0.567													C|||	1	0.000199681	0.0008	0.0	5008	,	,		20780	0.0		0.0	False		,,,				2504	0.0															0													80	72	75					17																	7400726		2203	4300	6503	SO:0001583	missense	5430					17p13.1	2013-01-21	2002-08-29		ENSG00000181222	ENSG00000181222	2.7.7.6	"RNA polymerase subunits"	9187	protein-coding gene	gene with protein product	"DNA-directed RNA polymerase II largest subunit, RNA polymerase II 220 kd subunit", "RNA polymerase II subunit B1"	180660	"polymerase (RNA) II (DNA directed) polypeptide A (220kD)"	POLR2			Standard	NM_000937		Approved	POLRA, RPB1	uc002ghf.4	P24928	OTTHUMG00000177594	ENST00000322644.6:c.871C>T	17.37:g.7400726C>T	ENSP00000314949:p.Arg291Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NN93|B9EH88|Q6NX41	Missense_Mutation	SNP	ENST00000322644.6	37	CCDS32548.1	2	9.157509157509158E-4	2	0.0040650406504065045	0	0.0	0	0.0	0	0.0	C	19.45	3.830630	0.71258	.	.	ENSG00000181222	ENST00000535204;ENST00000322644	T	0.27402	1.67	5.55	4.56	0.56223	RNA polymerase, N-terminal (1);RNA polymerase Rpb1, domain 1 (1);	0.063343	0.64402	D	0.000010	T	0.64886	0.2639	H	0.95982	3.75	0.47584	D	0.999464	D;D	0.76494	0.998;0.999	D;P	0.64877	0.93;0.783	T	0.75703	-0.3225	10	0.66056	D	0.02	-8.6605	12.3677	0.55238	0.3066:0.6934:0.0:0.0	.	291;291	P24928;Q6NX41	RPB1_HUMAN;.	W	247;291	ENSP00000314949:R291W	ENSP00000314949:R291W	R	+	1	2	SLC35G6	7341450	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	2.127000	0.42035	1.297000	0.44761	0.557000	0.71058	CGG		0.567	POLR2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437967.1	NM_000937		T	7400726	C	T	7400726	3	4	623	1	0	0	0	0	1	0	0	0	12221	759	27	1	893	1	POLR2A	17	7400726	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	3419455	7400726	73794484	84	38284										
TP53	7157	broad.mit.edu;hgsc.bcm.edu	37	chr17	7578190	7578190	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	accagacctcaggcggctcaTagggcaccaccacactatgt	9	15	2	1	rs121912666		TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr17:7578190T>C	ENST00000269305.4	-	6	848	c.659A>G	c.(658-660)tAt>tGt	p.Y220C	TP53_ENST00000445888.2_Missense_Mutation_p.Y220C|TP53_ENST00000455263.2_Missense_Mutation_p.Y220C|TP53_ENST00000420246.2_Missense_Mutation_p.Y220C|TP53_ENST00000413465.2_Missense_Mutation_p.Y220C|TP53_ENST00000359597.4_Missense_Mutation_p.Y220C|TP53_ENST00000574684.1_Intron	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	220	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with FBXO42.|Required for interaction with ZNF385A.		Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation). {ECO:0000269|PubMed:7682763, ECO:0000269|PubMed:9450901}.|Y -> D (in sporadic cancers; somatic mutation).|Y -> F (in a sporadic cancer; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> N (in sporadic cancers; somatic mutation).|Y -> S (in a brain tumor with no family history; germline mutation and in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.Y220C(278)|p.Y127C(24)|p.Y220S(12)|p.?(11)|p.0?(8)|p.D208fs*1(1)|p.Y220_P223delYEPP(1)|p.V218_E224delVPYEPPE(1)|p.V218_E221delVPYE(1)|p.Y127S(1)|p.V218_Y220delVPY(1)|p.Y220fs*25(1)|p.V216_Y220delVVVPY(1)|p.Y220fs*2(1)|p.V218fs*26(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	AGGCGGCTCATAGGGCACCAC	0.557		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	343	Substitution - Missense(315)|Unknown(11)|Whole gene deletion(8)|Deletion - In frame(5)|Deletion - Frameshift(3)|Insertion - Frameshift(1)	ovary(55)|breast(54)|lung(37)|upper_aerodigestive_tract(35)|urinary_tract(19)|oesophagus(19)|large_intestine(17)|liver(17)|central_nervous_system(16)|stomach(15)|haematopoietic_and_lymphoid_tissue(15)|endometrium(14)|soft_tissue(8)|biliary_tract(6)|bone(5)|pancreas(4)|prostate(4)|peritoneum(2)|small_intestine(1)	GRCh37	CM015378|CM951227	TP53	M	rs121912666						102	94	97					17																	7578190		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.659A>G	17.37:g.7578190T>C	ENSP00000269305:p.Tyr220Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	T	22.1	4.248510	0.80024	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944	D;D;D;D;D;D;D;D	0.99840	-7.08;-7.08;-7.08;-7.08;-7.08;-7.08;-7.08;-7.08	5.28	5.28	0.74379	p53, DNA-binding domain (1);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.000000	0.85682	D	0.000000	D	0.99822	0.9921	M	0.89287	3.02	0.80722	D	1	D;D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D;D	0.97110	1.0;0.998;0.996;1.0;0.999;0.998;1.0	D	0.96735	0.9542	10	0.87932	D	0	-1.87	13.4753	0.61306	0.0:0.0:0.0:1.0	.	181;220;220;127;220;220;220	B4E095;P04637-2;P04637-3;E9PFT5;P04637;Q1MSW8;E7EQX7	.;.;.;.;P53_HUMAN;.;.	C	220;220;220;220;220;220;209;127;88;127	ENSP00000410739:Y220C;ENSP00000352610:Y220C;ENSP00000269305:Y220C;ENSP00000398846:Y220C;ENSP00000391127:Y220C;ENSP00000391478:Y220C;ENSP00000425104:Y88C;ENSP00000423862:Y127C	ENSP00000269305:Y220C	Y	-	2	0	TP53	7518915	1.000000	0.71417	0.585000	0.28666	0.993000	0.82548	6.232000	0.72313	2.128000	0.65567	0.460000	0.39030	TAT		0.557	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		C	7578190	T	C	7578190	3	2	623	1	0	0	0	0	1	0	0	0	16393	1406	49	3	635	3	TP53	17	7578190	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10	177464	7578190	73617020	85	38285										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	7578280	7578280	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ctcggataagatgctgaggaGgggccagacctaagagcaat	14	8	0	4			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr17:7578280G>A	ENST00000269305.4	-	6	758	c.569C>T	c.(568-570)cCt>cTt	p.P190L	TP53_ENST00000445888.2_Missense_Mutation_p.P190L|TP53_ENST00000455263.2_Missense_Mutation_p.P190L|TP53_ENST00000420246.2_Missense_Mutation_p.P190L|TP53_ENST00000413465.2_Missense_Mutation_p.P190L|TP53_ENST00000359597.4_Missense_Mutation_p.P190L|TP53_ENST00000574684.1_Intron	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	190	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with FBXO42.|Required for interaction with ZNF385A.		P -> A (in sporadic cancers; somatic mutation).|P -> H (in a sporadic cancer; somatic mutation).|P -> L (in sporadic cancers; somatic mutation).|P -> R (in sporadic cancers; somatic mutation).|P -> S (in sporadic cancers; somatic mutation).|P -> T (in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.P190L(21)|p.0?(8)|p.?(7)|p.P190fs*57(6)|p.P190del(6)|p.A189_V197delAPPQHLIRV(4)|p.P190R(2)|p.G187fs*16(2)|p.P190F(2)|p.D186_P191delDGLAPP(1)|p.P190H(1)|p.P58fs*>33(1)|p.P191fs*18(1)|p.A189_Q192>E(1)|p.L188_P191del(1)|p.A189_P190>X(1)|p.P97fs*57(1)|p.A189fs*53(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	ATGCTGAGGAGGGGCCAGACC	0.552		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	67	Substitution - Missense(27)|Deletion - In frame(12)|Deletion - Frameshift(11)|Whole gene deletion(8)|Unknown(6)|Complex - deletion inframe(2)|Insertion - Frameshift(1)	large_intestine(11)|upper_aerodigestive_tract(9)|skin(8)|haematopoietic_and_lymphoid_tissue(6)|breast(6)|biliary_tract(5)|bone(5)|central_nervous_system(4)|oesophagus(4)|stomach(2)|liver(2)|ovary(2)|kidney(1)|salivary_gland(1)|prostate(1)											89	80	83					17																	7578280		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.569C>T	17.37:g.7578280G>A	ENSP00000269305:p.Pro190Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	G	14.21	2.468425	0.43839	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944;ENST00000414315	D;D;D;D;D;D;D;D	0.99755	-6.64;-6.64;-6.64;-6.64;-6.64;-6.64;-6.64;-6.64	5.41	4.44	0.53790	p53, DNA-binding domain (1);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.110931	0.64402	D	0.000010	D	0.99622	0.9862	M	0.68593	2.085	0.80722	D	1	D;P;D;P;P;P;D	0.89917	0.987;0.484;0.972;0.765;0.676;0.921;1.0	D;B;P;P;P;P;D	0.91635	0.916;0.306;0.708;0.605;0.533;0.774;0.999	D	0.97802	1.0245	10	0.87932	D	0	-9.8058	12.4639	0.55747	0.0821:0.0:0.9179:0.0	.	151;190;190;97;190;190;190	B4E095;P04637-2;P04637-3;E9PFT5;P04637;Q1MSW8;E7EQX7	.;.;.;.;P53_HUMAN;.;.	L	190;190;190;190;190;190;179;97;58;97;58	ENSP00000410739:P190L;ENSP00000352610:P190L;ENSP00000269305:P190L;ENSP00000398846:P190L;ENSP00000391127:P190L;ENSP00000391478:P190L;ENSP00000425104:P58L;ENSP00000423862:P97L	ENSP00000269305:P190L	P	-	2	0	TP53	7519005	1.000000	0.71417	0.956000	0.39512	0.034000	0.12701	7.957000	0.87870	1.422000	0.47177	0.655000	0.94253	CCT		0.552	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		A	7578280	G	A	7578280	3	1	623	1	0	0	0	0	1	0	0	0	16393	1000	35	2	725	2	TP53	17	7578280	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10	90	7578280	73616930	86	38286										
KRTAP1-1	81851	mdanderson.org	37	chr17	39197485	39197485	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gttgagaagctaggaaatccAcagaagctggtctggcagca	13	8	1	2			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr17:39197485A>G	ENST00000306271.4	-	1	228	c.165T>C	c.(163-165)tgT>tgC	p.C55C		NM_030967.2	NP_112229.1	Q07627	KRA11_HUMAN	keratin associated protein 1-1	55			Missing (in allele KAP1.7). {ECO:0000269|PubMed:11841537}.|PSCSTSGTCGSSCCQPSCCETSSCQPRCCETSCCQPSCCQT SFCGFP -> R (in allele KAP1.6).			keratin filament (GO:0045095)				NS(2)|endometrium(2)|kidney(5)|lung(4)|prostate(1)	14		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			TAGGAAATCCACAGAAGCTGG	0.602																																																0													83	92	89					17																	39197485		2026	4210	6236	SO:0001819	synonymous_variant	81851			AJ406926	CCDS42324.1	17q21.2	2014-06-05			ENSG00000188581	ENSG00000188581		"Keratin associated proteins"	16772	protein-coding gene	gene with protein product		608819				11279113	Standard	NM_030967		Approved	KAP1.1B, HB2A, KAP1.1, KAP1.1A	uc002hvw.1	Q07627	OTTHUMG00000133592	ENST00000306271.4:c.165T>C	17.37:g.39197485A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NC32|Q96S60|Q96S67	Silent	SNP	ENST00000306271.4	37	CCDS42324.1																																																																																				0.602	KRTAP1-1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257696.1	NM_030967		G	39197485	A	G	39197485	2	3	623	1	0	0	0	0	0	0	0	1	8509	157	6	3		3	KRTAP1-1	17	39197485	Silent	SNP	A	TCGA-KL-8324-01A-11D-2310-10	31619205	39197485	41997725	87	38287										
CDC27	996	hgsc.bcm.edu	37	chr17	45232055	45232055	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	taccttttttgaaggggctcCggtggatggcacatcaatta	11	8	1	1	rs200268612		TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr17:45232055C>T	ENST00000066544.3	-	8	1033	c.940G>A	c.(940-942)Gga>Aga	p.G314R	CDC27_ENST00000528748.1_5'Flank|CDC27_ENST00000446365.2_Missense_Mutation_p.G253R|CDC27_ENST00000531206.1_Missense_Mutation_p.G314R|CDC27_ENST00000527547.1_Missense_Mutation_p.G314R	NM_001114091.1|NM_001256.3	NP_001107563.1|NP_001247.3	P30260	CDC27_HUMAN	cell division cycle 27	314					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|cell proliferation (GO:0008283)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|mitotic cell cycle (GO:0000278)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K11-linked ubiquitination (GO:0070979)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	anaphase-promoting complex (GO:0005680)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle (GO:0005819)	protein phosphatase binding (GO:0019903)			NS(1)|breast(5)|central_nervous_system(3)|cervix(1)|endometrium(2)|kidney(17)|large_intestine(18)|lung(11)|ovary(5)|pancreas(1)|prostate(19)|skin(5)|upper_aerodigestive_tract(2)	90						GAAGGGGCTCCGGTGGATGGC	0.373																																																0													42	42	42					17																	45232055		2203	4300	6503	SO:0001583	missense	996			U00001	CCDS11509.1, CCDS45720.1, CCDS74090.1	17q21.32	2013-01-17	2013-01-17		ENSG00000004897	ENSG00000004897		"Anaphase promoting complex subunits", "Tetratricopeptide (TTC) repeat domain containing"	1728	protein-coding gene	gene with protein product	"anaphase promoting complex subunit 3"	116946	"cell division cycle 27", "cell division cycle 27 homolog (S. cerevisiae)"	D0S1430E, D17S978E		8234252	Standard	XM_005257892		Approved	APC3, ANAPC3, NUC2	uc002ile.4	P30260	OTTHUMG00000166429	ENST00000066544.3:c.940G>A	17.37:g.45232055C>T	ENSP00000066544:p.Gly314Arg	Somatic		WXS	Illumina HiSeq	Phase_I	G3V1C4|Q16349|Q96F35	Missense_Mutation	SNP	ENST00000066544.3	37	CCDS11509.1	.	.	.	.	.	.	.	.	.	.	C	12.27	1.887899	0.33348	.	.	ENSG00000004897	ENST00000066544;ENST00000531206;ENST00000446365;ENST00000527547;ENST00000526866	T;T;T;T;T	0.66638	-0.2;-0.22;0.08;-0.2;0.98	5.92	5.92	0.95590	.	0.186621	0.46442	D	0.000293	T	0.42245	0.1194	N	0.02539	-0.55	0.52501	D	0.999951	B;B;B;B	0.14012	0.009;0.001;0.002;0.0	B;B;B;B	0.08055	0.003;0.002;0.002;0.001	T	0.41305	-0.9516	10	0.13853	T	0.58	-4.7594	17.8238	0.88658	0.0:1.0:0.0:0.0	.	253;314;314;314	B4DL80;G5EA36;G3V1C4;P30260	.;.;.;CDC27_HUMAN	R	314;314;253;314;314	ENSP00000066544:G314R;ENSP00000434614:G314R;ENSP00000392802:G253R;ENSP00000437339:G314R;ENSP00000432105:G314R	ENSP00000066544:G314R	G	-	1	0	CDC27	42587054	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.650000	0.67944	2.810000	0.96702	0.585000	0.79938	GGA		0.373	CDC27-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000389742.2			T	45232055	C	T	45232055	3	4	623	1	0	0	0	0	1	0	0	0	3068	661	23	1	1600	1	CDC27	17	45232055	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	6034570	45232055	35963155	88	38288										
PTRH2	51651	broad.mit.edu;mdanderson.org	37	chr17	57775085	57775085	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gaaacagcagcatgagagcaCtgggcagccactttcccttt	10	12	0	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr17:57775085C>T	ENST00000470557.2	-	1	3701	c.255G>A	c.(253-255)caG>caA	p.Q85Q	PTRH2_ENST00000393038.2_Silent_p.Q85Q|PTRH2_ENST00000579915.1_5'Flank|PTRH2_ENST00000409433.2_Silent_p.Q86Q|PTRH2_ENST00000537860.1_Silent_p.Q85Q			Q9Y3E5	PTH2_HUMAN	peptidyl-tRNA hydrolase 2	85					apoptotic process (GO:0006915)|negative regulation of anoikis (GO:2000811)|negative regulation of gene expression (GO:0010629)|positive regulation of anoikis (GO:2000210)	cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrion (GO:0005739)	aminoacyl-tRNA hydrolase activity (GO:0004045)			large_intestine(1)	1	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					CATGAGAGCACTGGGCAGCCA	0.473																																																0													170	153	159					17																	57775085		2203	4300	6503	SO:0001819	synonymous_variant	51651			AF151905	CCDS11618.1	17q23.2	2014-07-18			ENSG00000141378	ENSG00000141378			24265	protein-coding gene	gene with protein product	"Bcl-2 inhibitor of transcription", "cilia and flagella associated protein 37"	608625				10810093, 15006356, 14660562	Standard	XM_005257447		Approved	BIT1, CGI-147, PTH2, CFAP37	uc002ixt.3	Q9Y3E5	OTTHUMG00000154532	ENST00000470557.2:c.255G>A	17.37:g.57775085C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KUY4|Q9NTE5	Silent	SNP	ENST00000470557.2	37	CCDS11618.1																																																																																				0.473	PTRH2-003	PUTATIVE	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000448482.1	NM_016077		T	57775085	C	T	57775085	2	4	623	1	0	0	0	0	0	0	0	1	12830	564	20	2		2	PTRH2	17	57775085	Silent	SNP	C	TCGA-KL-8324-01A-11D-2310-10	12543030	57775085	23420125	89	38289										
DNAI2	64446	broad.mit.edu	37	chr17	72306262	72306262	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gctggaggtctcgcctgggcTctctaccctccagaggaatg	13	13	2	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr17:72306262T>C	ENST00000311014.6	+	11	1521	c.1454T>C	c.(1453-1455)cTc>cCc	p.L485P	DNAI2_ENST00000307504.5_Missense_Mutation_p.L342P|DNAI2_ENST00000582036.1_Missense_Mutation_p.L473P|AC103809.1_ENST00000516976.1_RNA|RP11-647F2.2_ENST00000585167.1_RNA|DNAI2_ENST00000579490.1_Missense_Mutation_p.L542P|DNAI2_ENST00000446837.2_Missense_Mutation_p.L485P			Q9GZS0	DNAI2_HUMAN	dynein, axonemal, intermediate chain 2	485					cilium assembly (GO:0042384)|metabolic process (GO:0008152)	axonemal dynein complex (GO:0005858)|axoneme (GO:0005930)|microtubule (GO:0005874)	microtubule motor activity (GO:0003777)			breast(1)|central_nervous_system(1)|endometrium(4)|large_intestine(6)|liver(2)|lung(19)|ovary(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	39						TCGCCTGGGCTCTCTACCCTC	0.642									Kartagener syndrome																																							0													48	44	45					17																	72306262		2203	4300	6503	SO:0001583	missense	64446	Familial Cancer Database	Ciliary Dyskinesia, Primary (CILD1 - CILD13), Immotile Cilia Syndrome	AF250288	CCDS11697.1, CCDS58589.1	17q25	2013-02-19	2006-09-04			ENSG00000171595		"Axonemal dyneins", "WD repeat domain containing"	18744	protein-coding gene	gene with protein product	"dynein intermediate chain 2"	605483	"dynein, axonemal, intermediate polypeptide 2"			11153919, 21953912	Standard	NM_023036		Approved	CILD9, DIC2	uc002jkf.3	Q9GZS0		ENST00000311014.6:c.1454T>C	17.37:g.72306262T>C	ENSP00000308312:p.Leu485Pro	Somatic		WXS	Illumina HiSeq	Phase_I	C9J0S6|Q8IUW4|Q9H179|Q9NT53	Missense_Mutation	SNP	ENST00000311014.6	37	CCDS11697.1	.	.	.	.	.	.	.	.	.	.	T	16.08	3.021966	0.54576	.	.	ENSG00000171595	ENST00000311014;ENST00000307504;ENST00000446837	T;T;T	0.38240	1.15;1.15;1.15	5.25	5.25	0.73442	.	0.000000	0.85682	D	0.000000	T	0.68742	0.3034	M	0.93283	3.4	0.80722	D	1	D	0.89917	1.0	D	0.71656	0.974	T	0.78526	-0.2170	10	0.87932	D	0	-37.7517	14.8647	0.70406	0.0:0.0:0.0:1.0	.	485	Q9GZS0	DNAI2_HUMAN	P	485;342;485	ENSP00000308312:L485P;ENSP00000302929:L342P;ENSP00000400252:L485P	ENSP00000302929:L342P	L	+	2	0	DNAI2	69817857	1.000000	0.71417	0.993000	0.49108	0.059000	0.15707	7.728000	0.84847	1.985000	0.57927	0.374000	0.22700	CTC		0.642	DNAI2-001	KNOWN	NMD_exception|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000442537.1	NM_023036		C	72306262	T	C	72306262	3	2	623	1	0	0	0	0	1	0	0	0	4612	1551	54	3	1492	3	DNAI2	17	72306262	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10	14531177	72306262	8888948	90	38290										
PIAS2	9063	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr18	44409771	44409771	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tcattggacaccaagaaccaTcttcttggaatttgatctca	6	10	4	2	rs201382502		TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr18:44409771T>A	ENST00000585916.1	-	10	1261	c.1262A>T	c.(1261-1263)gAt>gTt	p.D421V	PIAS2_ENST00000545673.1_Missense_Mutation_p.D131V|PIAS2_ENST00000324794.7_Missense_Mutation_p.D421V	NM_004671.3	NP_004662.2	O75928	PIAS2_HUMAN	protein inhibitor of activated STAT, 2	421					androgen receptor signaling pathway (GO:0030521)|negative regulation of androgen receptor signaling pathway (GO:0060766)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein sumoylation (GO:0016925)|regulation of osteoblast differentiation (GO:0045667)|transcription, DNA-templated (GO:0006351)	nuclear body (GO:0016604)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|DNA binding (GO:0003677)|SUMO ligase activity (GO:0019789)|transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(8)|ovary(2)|skin(3)|upper_aerodigestive_tract(1)	22						CCAAGAACCATCTTCTTGGAA	0.363																																																0													186	188	187					18																	44409771		2203	4300	6503	SO:0001583	missense	9063			AF077953	CCDS32824.1, CCDS32825.1	18q12.1-q12.3	2011-10-11				ENSG00000078043		"Zinc fingers, MIZ-type"	17311	protein-coding gene	gene with protein product	"zinc finger, MIZ-type containing 4"	603567				9724754, 9256341	Standard	NM_004671		Approved	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4	uc002lck.3	O75928		ENST00000585916.1:c.1262A>T	18.37:g.44409771T>A	ENSP00000465676:p.Asp421Val	Somatic		WXS	Illumina HiSeq	Phase_I	O75927|Q96BT5|Q96KE3	Missense_Mutation	SNP	ENST00000585916.1	37	CCDS32824.1	.	.	.	.	.	.	.	.	.	.	T	25.3	4.628276	0.87560	.	.	ENSG00000078043	ENST00000398654;ENST00000262161;ENST00000545673;ENST00000324794	T;T	0.60548	0.18;0.71	5.67	5.67	0.87782	.	0.044689	0.85682	D	0.000000	T	0.78317	0.4264	M	0.83603	2.65	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.87578	0.996;0.996;0.998;0.998	T	0.81961	-0.0693	10	0.87932	D	0	-12.8912	15.9171	0.79527	0.0:0.0:0.0:1.0	.	131;421;421;421	B4DGW0;Q2TA77;O75928-2;O75928	.;.;.;PIAS2_HUMAN	V	421;421;131;421	ENSP00000443238:D131V;ENSP00000317163:D421V	ENSP00000262161:D421V	D	-	2	0	PIAS2	42663769	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	8.040000	0.89188	2.152000	0.67230	0.455000	0.32223	GAT		0.363	PIAS2-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445656.2	NM_004671		A	44409771	T	A	44409771	3	1	623	1	0	0	0	0	1	0	0	0	11883	1435	50	5	698	5	PIAS2	18	44409771	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10		44409771	33667477	91	38291										
MUC16	94025	mdanderson.org	37	chr19	8999462	8999462	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	atgctgtgggtcagctggctCagctcccagtatagctgctc	12	12	2	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr19:8999462C>T	ENST00000397910.4	-	56	40916	c.40713G>A	c.(40711-40713)ctG>ctA	p.L13571L	MUC16_ENST00000380951.5_Silent_p.L212L	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13573	SEA 10. {ECO:0000255|PROSITE- ProRule:PRU00188}.			Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TCAGCTGGCTCAGCTCCCAGT	0.567																																																0													203	172	182					19																	8999462		2050	4202	6252	SO:0001819	synonymous_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.40713G>A	19.37:g.8999462C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Silent	SNP	ENST00000397910.4	37	CCDS54212.1																																																																																				0.567	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		T	8999462	C	T	8999462	2	4	623	1	0	0	0	0	0	0	0	1	9980	813	29	2		2	MUC16	19	8999462	Silent	SNP	C	TCGA-KL-8324-01A-11D-2310-10		8999462	50129521	92	38292										
NPHS1	4868	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	36340211	36340211	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gctccaagctctgtcctgccCgcacgtgcccctcatccagg	9	19	2	0	rs149649169		TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr19:36340211C>T	ENST00000378910.5	-	7	766	c.767G>A	c.(766-768)cGg>cAg	p.R256Q	NPHS1_ENST00000353632.6_Missense_Mutation_p.R256Q|NPHS1_ENST00000591817.1_5'Flank	NM_004646.3	NP_004637.1	O60500	NPHN_HUMAN	nephrosis 1, congenital, Finnish type (nephrin)	256	Ig-like C2-type 3.		R -> W (in NPHS1). {ECO:0000269|PubMed:18503012}.		cell adhesion (GO:0007155)|excretion (GO:0007588)|glomerular basement membrane development (GO:0032836)|glomerular visceral epithelial cell development (GO:0072015)|JNK cascade (GO:0007254)|myoblast fusion (GO:0007520)|positive regulation of actin filament polymerization (GO:0030838)|regulation of excretion (GO:0044062)|skeletal muscle tissue development (GO:0007519)	cell projection (GO:0042995)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|slit diaphragm (GO:0036057)	myosin binding (GO:0017022)			NS(2)|breast(1)|cervix(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(16)|liver(1)|lung(26)|ovary(5)|prostate(1)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(1)	74	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)			CTGTCCTGCCCGCACGTGCCC	0.642																																																0								C	GLN/ARG	1,4405	2.1+/-5.4	0,1,2202	26	25	26		767	1.6	0.6	19	dbSNP_134	26	1,8599	1.2+/-3.3	0,1,4299	no	missense	NPHS1	NM_004646.3	43	0,2,6501	TT,TC,CC		0.0116,0.0227,0.0154	probably-damaging	256/1242	36340211	2,13004	2203	4300	6503	SO:0001583	missense	4868				CCDS32996.1	19q12-q13.1	2014-09-17				ENSG00000161270		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	7908	protein-coding gene	gene with protein product		602716				9915943, 9660941	Standard	NM_004646		Approved	CNF, NPHN	uc002oby.3	O60500		ENST00000378910.5:c.767G>A	19.37:g.36340211C>T	ENSP00000368190:p.Arg256Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDH2|C3RX61	Missense_Mutation	SNP	ENST00000378910.5	37	CCDS32996.1	.	.	.	.	.	.	.	.	.	.	C	14.49	2.549572	0.45383	2.27E-4	1.16E-4	ENSG00000161270	ENST00000378910;ENST00000353632	D;D	0.85861	-2.04;-2.04	5.0	1.6	0.23607	Immunoglobulin subtype (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.264240	0.34002	N	0.004352	T	0.78786	0.4338	N	0.25485	0.75	0.09310	N	1	D	0.60575	0.988	P	0.51487	0.671	T	0.69533	-0.5120	10	0.59425	D	0.04	-20.3966	5.9921	0.19472	0.0:0.6721:0.0:0.3279	.	256	O60500	NPHN_HUMAN	Q	256	ENSP00000368190:R256Q;ENSP00000343634:R256Q	ENSP00000343634:R256Q	R	-	2	0	NPHS1	41032051	0.016000	0.18221	0.607000	0.28956	0.210000	0.24377	0.809000	0.27168	0.720000	0.32209	-0.191000	0.12829	CGG		0.642	NPHS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452553.1			T	36340211	C	T	36340211	3	4	623	1	0	0	0	0	1	0	0	0	10589	652	23	1	3050	1	NPHS1	19	36340211	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	27340749	36340211	22788772	93	38293										
NUCB1	4924	bcgsc.ca	37	chr19	49416771	49416771	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ggaggtgtgggaggagctggAtggactggaccccaacaggt	19	7	0	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr19:49416771A>G	ENST00000405315.4	+	7	1041	c.707A>G	c.(706-708)gAt>gGt	p.D236G	NUCB1_ENST00000263273.5_Missense_Mutation_p.D236G|NUCB1_ENST00000485798.1_Intron|NUCB1_ENST00000407032.1_Missense_Mutation_p.D236G|NUCB1-AS1_ENST00000416432.1_RNA	NM_006184.5	NP_006175.2	Q02818	NUCB1_HUMAN	nucleobindin 1	236	Binds to GNAI2 and GNAI3. {ECO:0000250}.					endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	calcium ion binding (GO:0005509)|DNA binding (GO:0003677)			cervix(1)|endometrium(4)|large_intestine(4)|lung(8)	17		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000171)|all cancers(93;0.000333)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0244)		GAGGAGCTGGATGGACTGGAC	0.557																																																0													113	91	99					19																	49416771		2203	4300	6503	SO:0001583	missense	4924			BC002356	CCDS12740.1	19q13.33	2013-01-10			ENSG00000104805	ENSG00000104805		"EF-hand domain containing"	8043	protein-coding gene	gene with protein product		601323				8661046	Standard	NM_006184		Approved	NUC, Calnuc	uc002plb.4	Q02818	OTTHUMG00000152514	ENST00000405315.4:c.707A>G	19.37:g.49416771A>G	ENSP00000385923:p.Asp236Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RD64|Q15838|Q7Z4J7|Q9BUR1	Missense_Mutation	SNP	ENST00000405315.4	37	CCDS12740.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	23.5|23.5	4.422159|4.422159	0.83559|0.83559	.|.	.|.	ENSG00000104805|ENSG00000104805	ENST00000405315;ENST00000407032;ENST00000452087;ENST00000263273|ENST00000424608	D;D;D|.	0.83914|.	-1.78;-1.78;-1.78|.	4.81|4.81	4.81|4.81	0.61882|0.61882	EF-hand-like domain (1);|.	0.044689|.	0.85682|.	D|.	0.000000|.	T|T	0.79215|0.79215	0.4408|0.4408	M|M	0.89095|0.89095	3.005|3.005	0.80722|0.80722	D|D	1|1	D;D|.	0.63046|.	0.992;0.992|.	P;P|.	0.62382|.	0.901;0.901|.	T|T	0.82892|0.82892	-0.0232|-0.0232	10|5	0.87932|.	D|.	0|.	.|.	13.0021|13.0021	0.58681|0.58681	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	236;236|.	Q02818;Q53GX6|.	NUCB1_HUMAN;.|.	G|V	236|206	ENSP00000385923:D236G;ENSP00000385211:D236G;ENSP00000263273:D236G|.	ENSP00000263273:D236G|.	D|M	+|+	2|1	0|0	NUCB1|NUCB1	54108583|54108583	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.985000|0.985000	0.73830|0.73830	8.805000|8.805000	0.91925|0.91925	2.124000|2.124000	0.65301|0.65301	0.444000|0.444000	0.29173|0.29173	GAT|ATG		0.557	NUCB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000326545.2	NM_006184		G	49416771	A	G	49416771	3	3	623	1	0	0	0	0	1	0	0	0	10725	333	12	3	729	3	NUCB1	19	49416771	Missense_Mutation	SNP	A	TCGA-KL-8324-01A-11D-2310-10	13076560	49416771	9712212	94	38294										
RCN3	57333	broad.mit.edu	37	chr19	50031830	50031830	+	Frame_Shift_Del	DEL	T	T	-													0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ccctcatggccaggggagggTgcaccaggcggcccccctga							TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr19:50031830delT	ENST00000270645.3	+	2	548	c.101delT	c.(100-102)gtgfs	p.V34fs	RCN3_ENST00000593644.1_3'UTR	NM_020650.2	NP_065701.2	Q96D15	RCN3_HUMAN	reticulocalbin 3, EF-hand calcium binding domain	34						endoplasmic reticulum (GO:0005783)	calcium ion binding (GO:0005509)			endometrium(2)|kidney(1)|large_intestine(2)|lung(4)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	12		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00295)|GBM - Glioblastoma multiforme(134;0.0159)		CAGGGGAGGGTGCACCAGGCG	0.642																																																0													71	76	74					19																	50031830		2203	4300	6503	SO:0001589	frameshift_variant	57333			AY195859	CCDS12771.1	19q13.33	2013-01-10				ENSG00000142552		"EF-hand domain containing"	21145	protein-coding gene	gene with protein product							Standard	NM_020650		Approved	RLP49	uc002poj.3	Q96D15		ENST00000270645.3:c.101delT	19.37:g.50031830delT	ENSP00000270645:p.Val34fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9HBZ8	Frame_Shift_Del	DEL	ENST00000270645.3	37	CCDS12771.1																																																																																				0.642	RCN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465261.1	NM_020650		-	50031830	T	-	50031830	7	5	623	1	0	1	0	1	0	0	0	0	13194	1696	59	0	103	0	RCN3	19	50031830	Frame_Shift_Del	DEL	T	TCGA-KL-8324-01A-11D-2310-10	615059	50031830	9097153	95	38295										
PRKCG	5582	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	54394940	54394940	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ccgtttagttggcgaggcccGtaacctaattcctatggacc	10	12	0	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr19:54394940G>A	ENST00000263431.3	+	6	824	c.542G>A	c.(541-543)cGt>cAt	p.R181H	PRKCG_ENST00000542049.1_Missense_Mutation_p.R68H|PRKCG_ENST00000536044.1_Missense_Mutation_p.R181H|PRKCG_ENST00000540413.1_Missense_Mutation_p.R181H	NM_002739.3	NP_002730.1	P05129	KPCG_HUMAN	protein kinase C, gamma	181	C2. {ECO:0000255|PROSITE- ProRule:PRU00041}.				activation of phospholipase C activity (GO:0007202)|blood coagulation (GO:0007596)|cell death (GO:0008219)|chemosensory behavior (GO:0007635)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|innervation (GO:0060384)|intracellular signal transduction (GO:0035556)|learning or memory (GO:0007611)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of protein catabolic process (GO:0042177)|negative regulation of protein ubiquitination (GO:0031397)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphorylation (GO:0016310)|platelet activation (GO:0030168)|positive regulation of mismatch repair (GO:0032425)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|response to morphine (GO:0043278)|response to pain (GO:0048265)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)	cell-cell junction (GO:0005911)|cytosol (GO:0005829)|dendrite (GO:0030425)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|synaptic membrane (GO:0097060)	ATP binding (GO:0005524)|calcium-dependent protein kinase C activity (GO:0004698)|protein kinase activity (GO:0004672)|protein kinase C activity (GO:0004697)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|zinc ion binding (GO:0008270)			large_intestine(1)|lung(4)|ovary(2)|pancreas(2)|skin(1)	10	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)	Tamoxifen(DB00675)	GGCGAGGCCCGTAACCTAATT	0.542																																																0													135	129	131					19																	54394940		2203	4300	6503	SO:0001583	missense	5582			M13977	CCDS12867.1	19q13.4	2014-09-17			ENSG00000126583	ENSG00000126583	2.7.11.1		9402	protein-coding gene	gene with protein product	"PKC-gamma"	176980		PKCG, SCA14		8432525, 3755548	Standard	NM_002739		Approved	PKCC, MGC57564	uc002qcq.1	P05129	OTTHUMG00000064846	ENST00000263431.3:c.542G>A	19.37:g.54394940G>A	ENSP00000263431:p.Arg181His	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8Q0	Missense_Mutation	SNP	ENST00000263431.3	37	CCDS12867.1	.	.	.	.	.	.	.	.	.	.	G	19.35	3.811604	0.70797	.	.	ENSG00000126583	ENST00000536044;ENST00000540413;ENST00000263431;ENST00000542049	T;T;T;T	0.71103	-0.54;-0.54;-0.54;-0.54	5.34	4.3	0.51218	C2 membrane targeting protein (1);C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);	.	.	.	.	T	0.73024	0.3534	L	0.46885	1.475	0.49915	D	0.99983	D;P;B;P;P	0.69078	0.997;0.47;0.433;0.526;0.563	P;B;B;B;B	0.55055	0.767;0.027;0.056;0.046;0.101	T	0.73471	-0.3972	9	0.45353	T	0.12	.	12.3369	0.55073	0.083:0.0:0.917:0.0	.	68;181;181;181;181	B7Z8Q0;F5H5C4;B7Z870;B7Z3W6;P05129	.;.;.;.;KPCG_HUMAN	H	181;181;181;68	ENSP00000440541:R181H;ENSP00000443493:R181H;ENSP00000263431:R181H;ENSP00000438090:R68H	ENSP00000263431:R181H	R	+	2	0	PRKCG	59086752	0.750000	0.28316	0.870000	0.34147	0.647000	0.38526	3.353000	0.52247	1.399000	0.46721	0.561000	0.74099	CGT		0.542	PRKCG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000139233.3	NM_002739		A	54394940	G	A	54394940	3	1	623	1	0	0	0	0	1	0	0	0	12522	1145	40	1	564	1	PRKCG	19	54394940	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10	4363110	54394940	4734043	96	38296										
LILRA4	23547	broad.mit.edu	37	chr19	54848817	54848817	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	agagcccagcctggggctgcCggccagggcgctgggggagg	21	12	0	1	rs368679017		TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr19:54848817C>T	ENST00000291759.4	-	5	862	c.806G>A	c.(805-807)cGg>cAg	p.R269Q	AC008984.2_ENST00000507363.1_RNA	NM_012276.3	NP_036408.3	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 4	269	Ig-like C2-type 3.				immune system process (GO:0002376)	integral component of membrane (GO:0016021)				NS(2)|breast(1)|central_nervous_system(2)|endometrium(2)|large_intestine(5)|lung(13)|prostate(3)|skin(1)|upper_aerodigestive_tract(3)	32	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		CTGGGGCTGCCGGCCAGGGCG	0.652													C|||	1	0.000199681	0.0	0.0014	5008	,	,		13012	0.0		0.0	False		,,,				2504	0.0															0								C	GLN/ARG	0,4404		0,0,2202	21	24	23		806	-4.7	0	19		23	1,8595		0,1,4297	no	missense	LILRA4	NM_012276.3	43	0,1,6499	TT,TC,CC		0.0116,0.0,0.0077	benign	269/500	54848817	1,12999	2202	4298	6500	SO:0001583	missense	23547			AF041261	CCDS12890.1	19q13.4	2013-01-11			ENSG00000239961	ENSG00000239961		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	15503	protein-coding gene	gene with protein product		607517				10941842	Standard	NM_012276		Approved	ILT7, CD85g	uc002qfj.3	P59901	OTTHUMG00000065355	ENST00000291759.4:c.806G>A	19.37:g.54848817C>T	ENSP00000291759:p.Arg269Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q32MC4	Missense_Mutation	SNP	ENST00000291759.4	37	CCDS12890.1	.	.	.	.	.	.	.	.	.	.	.	0.006	-2.028146	0.00410	0.0	1.16E-4	ENSG00000239961	ENST00000291759	T	0.11385	2.78	2.35	-4.7	0.03288	Immunoglobulin subtype (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	3.635280	0.00754	N	0.001089	T	0.03827	0.0108	N	0.04132	-0.27	0.09310	N	1	B	0.18166	0.026	B	0.09377	0.004	T	0.34900	-0.9810	10	0.02654	T	1	.	5.1701	0.15105	0.304:0.4924:0.0:0.2036	.	269	P59901	LIRA4_HUMAN	Q	269	ENSP00000291759:R269Q	ENSP00000291759:R269Q	R	-	2	0	LILRA4	59540629	0.007000	0.16637	0.000000	0.03702	0.002000	0.02628	0.647000	0.24812	-2.662000	0.00418	-1.532000	0.00920	CGG		0.652	LILRA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140229.2	NM_012276		T	54848817	C	T	54848817	3	4	623	1	0	0	0	0	1	0	0	0	8794	652	23	1	709	1	LILRA4	19	54848817	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	453877	54848817	4280166	97	38297										
NLRP8	126205	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	56466067	56466067	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tacagggagctcctgggatcGgaaaaacaatcctggccaaa	11	10	0	0	rs372844411		TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr19:56466067G>A	ENST00000291971.3	+	3	714	c.643G>A	c.(643-645)Gga>Aga	p.G215R	NLRP8_ENST00000590542.1_Missense_Mutation_p.G215R	NM_176811.2	NP_789781.2	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	215	NACHT. {ECO:0000255|PROSITE- ProRule:PRU00136}.				neuron death (GO:0070997)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)			breast(4)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(14)|ovary(5)|skin(2)|stomach(3)|upper_aerodigestive_tract(2)	35		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		TCCTGGGATCGGAAAAACAAT	0.527																																																0								G	ARG/GLY	0,4406		0,0,2203	86	70	75		643	0.9	0	19		75	1,8599	1.2+/-3.3	0,1,4299	no	missense	NLRP8	NM_176811.2	125	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	215/1049	56466067	1,13005	2203	4300	6503	SO:0001583	missense	126205			AY154463	CCDS12937.1	19q13.43	2008-02-05	2006-12-08	2006-12-08		ENSG00000179709		"Nucleotide-binding domain and leucine rich repeat containing"	22940	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 8"	609659	"NACHT, leucine rich repeat and PYD containing 8"	NALP8		12563287	Standard	NM_176811		Approved	NOD16, PAN4, CLR19.2	uc002qmh.3	Q86W28		ENST00000291971.3:c.643G>A	19.37:g.56466067G>A	ENSP00000291971:p.Gly215Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q7RTR4	Missense_Mutation	SNP	ENST00000291971.3	37	CCDS12937.1	.	.	.	.	.	.	.	.	.	.	G	13.57	2.275207	0.40194	0.0	1.16E-4	ENSG00000179709	ENST00000291971	D	0.90133	-2.62	2.04	0.899	0.19271	NACHT nucleoside triphosphatase (1);	.	.	.	.	D	0.94450	0.8214	M	0.87971	2.92	0.19775	N	0.999955	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.85201	0.1015	9	0.87932	D	0	.	5.4852	0.16745	0.0:0.0:0.6708:0.3292	.	215;215	Q86W28-2;Q86W28	.;NALP8_HUMAN	R	215	ENSP00000291971:G215R	ENSP00000291971:G215R	G	+	1	0	NLRP8	61157879	1.000000	0.71417	0.002000	0.10522	0.061000	0.15899	4.154000	0.58125	0.368000	0.24481	0.514000	0.50259	GGA		0.527	NLRP8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457462.1	NM_176811		A	56466067	G	A	56466067	3	1	623	1	0	0	0	0	1	0	0	0	10490	1117	39	1	653	1	NLRP8	19	56466067	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10	1617250	56466067	2662916	98	38298										
RASSF2	9770	bcgsc.ca	37	chr20	4773205	4773205	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ctgtggagcttggcatctggTcaccctccggcggggcatcc	14	14	2	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr20:4773205T>C	ENST00000379400.3	-	6	551	c.356A>G	c.(355-357)gAc>gGc	p.D119G	RASSF2_ENST00000379376.2_Missense_Mutation_p.D119G|RASSF2_ENST00000478553.1_5'UTR	NM_014737.2	NP_055552.1	P50749	RASF2_HUMAN	Ras association (RalGDS/AF-6) domain family member 2	119					bone remodeling (GO:0046849)|cell cycle (GO:0007049)|epidermal growth factor receptor signaling pathway via I-kappaB kinase/NF-kappaB cascade (GO:0038168)|homeostasis of number of cells (GO:0048872)|negative regulation of NIK/NF-kappaB signaling (GO:1901223)|ossification (GO:0001503)|regulation of osteoblast differentiation (GO:0045667)|regulation of osteoclast differentiation (GO:0045670)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				endometrium(3)|kidney(2)|large_intestine(8)|lung(12)|ovary(3)|pancreas(2)|prostate(2)|skin(2)	34						TGGCATCTGGTCACCCTCCGG	0.537																																					Melanoma(158;1891 3343 50738)											0													73	66	68					20																	4773205		2203	4300	6503	SO:0001583	missense	9770			D79990	CCDS13083.1	20p13	2011-08-12	2008-02-22		ENSG00000101265	ENSG00000101265			9883	protein-coding gene	gene with protein product	"centromere protein 34"	609492				8724849, 15806169	Standard	NM_014737		Approved	KIAA0168, CENP-34	uc002wld.3	P50749	OTTHUMG00000031790	ENST00000379400.3:c.356A>G	20.37:g.4773205T>C	ENSP00000368710:p.Asp119Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NIX9|A8K5Z3|Q17S06|Q53HD0|Q6AHZ2|Q8IZA5	Missense_Mutation	SNP	ENST00000379400.3	37	CCDS13083.1	.	.	.	.	.	.	.	.	.	.	T	9.762	1.170244	0.21621	.	.	ENSG00000101265	ENST00000379400;ENST00000379376	T;T	0.10099	2.91;2.91	5.29	4.16	0.48862	.	2.250110	0.01224	N	0.008198	T	0.07908	0.0198	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.29941	-0.9995	10	0.29301	T	0.29	.	8.9967	0.36057	0.1708:0.0:0.0:0.8292	.	119	P50749	RASF2_HUMAN	G	119	ENSP00000368710:D119G;ENSP00000368684:D119G	ENSP00000368684:D119G	D	-	2	0	RASSF2	4721205	0.074000	0.21230	0.007000	0.13788	0.022000	0.10575	1.774000	0.38573	0.990000	0.38787	0.482000	0.46254	GAC		0.537	RASSF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077828.1	NM_014737		C	4773205	T	C	4773205	3	2	623	1	0	0	0	0	1	0	0	0	13099	1667	58	3	652	3	RASSF2	20	4773205	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10		4773205	58252315	99	38299										
KIAA1755	85449	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr20	36859706	36859706	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ttgacaccagaagcaggggcCgcccggccctgtcccggcca	13	17	0	2			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr20:36859706C>T	ENST00000279024.4	-	5	2040	c.1769G>A	c.(1768-1770)cGg>cAg	p.R590Q		NM_001029864.1	NP_001025035.1	Q5JYT7	K1755_HUMAN	KIAA1755	590										breast(2)|endometrium(3)|kidney(1)|large_intestine(5)|lung(31)|ovary(5)|pancreas(2)|skin(4)|stomach(1)	54		Myeloproliferative disorder(115;0.00874)				AAGCAGGGGCCGCCCGGCCCT	0.637																																																0													46	44	44					20																	36859706		2203	4300	6503	SO:0001583	missense	85449			AB051542	CCDS33467.1	20q11.23	2007-12-07			ENSG00000149633	ENSG00000149633			29372	protein-coding gene	gene with protein product						11214970	Standard	NM_001029864		Approved	RP5-1054A22.3	uc002xhy.1	Q5JYT7	OTTHUMG00000032436	ENST00000279024.4:c.1769G>A	20.37:g.36859706C>T	ENSP00000279024:p.Arg590Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q9C0A8	Missense_Mutation	SNP	ENST00000279024.4	37	CCDS33467.1	.	.	.	.	.	.	.	.	.	.	C	27.2	4.812690	0.90707	.	.	ENSG00000149633	ENST00000279024;ENST00000373398	T	0.68903	-0.36	4.97	4.02	0.46733	.	0.163457	0.27473	N	0.019219	T	0.79718	0.4494	M	0.90019	3.08	0.43579	D	0.995916	D	0.69078	0.997	P	0.54629	0.757	T	0.83267	-0.0045	10	0.54805	T	0.06	.	12.3865	0.55335	0.0:0.9191:0.0:0.0809	.	590	Q5JYT7	K1755_HUMAN	Q	590;137	ENSP00000279024:R590Q	ENSP00000279024:R590Q	R	-	2	0	KIAA1755	36293120	0.995000	0.38212	0.993000	0.49108	0.985000	0.73830	2.737000	0.47393	1.307000	0.44944	0.655000	0.94253	CGG		0.637	KIAA1755-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079144.3	NM_001029864		T	36859706	C	T	36859706	3	4	623	1	0	0	0	0	1	0	0	0	8264	652	23	1	1873	1	KIAA1755	20	36859706	Missense_Mutation	SNP	C	TCGA-KL-8324-01A-11D-2310-10	32086501	36859706	26165814	100	38300										
NTSR1	4923	ucsc.edu	37	chr20	61340870	61340870	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gcagagcacggtgcattaccAcctgggcagcctggcgctgt	14	13	0	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr20:61340870A>G	ENST00000370501.3	+	1	682	c.311A>G	c.(310-312)cAc>cGc	p.H104R		NM_002531.2	NP_002522.2	P30989	NTR1_HUMAN	neurotensin receptor 1 (high affinity)	104					adult locomotory behavior (GO:0008344)|G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of apoptotic process (GO:0043066)|neuropeptide signaling pathway (GO:0007218)|synaptic transmission (GO:0007268)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)	G-protein coupled neurotensin receptor activity (GO:0016492)|G-protein coupled receptor activity (GO:0004930)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(16)|prostate(1)|skin(3)	27	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;3.63e-06)			GTGCATTACCACCTGGGCAGC	0.667																																					GBM(37;400 780 6403 19663 35669)											0													62	55	58					20																	61340870		2203	4300	6503	SO:0001583	missense	4923				CCDS13502.1	20q13	2012-08-08			ENSG00000101188	ENSG00000101188		"GPCR / Class A : Neurotensin receptors"	8039	protein-coding gene	gene with protein product		162651				8075503	Standard	NM_002531		Approved	NTR	uc002ydf.3	P30989	OTTHUMG00000032932	ENST00000370501.3:c.311A>G	20.37:g.61340870A>G	ENSP00000359532:p.His104Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H4H1|Q9H4T5	Missense_Mutation	SNP	ENST00000370501.3	37	CCDS13502.1	.	.	.	.	.	.	.	.	.	.	A	16.55	3.154838	0.57259	.	.	ENSG00000101188	ENST00000370501	T	0.72051	-0.62	4.93	4.93	0.64822	GPCR, rhodopsin-like superfamily (1);	0.115441	0.64402	D	0.000019	D	0.83566	0.5282	M	0.78456	2.415	0.58432	D	0.999999	D	0.89917	1.0	D	0.87578	0.998	D	0.85652	0.1283	10	0.62326	D	0.03	-41.695	14.2424	0.65966	1.0:0.0:0.0:0.0	.	104	P30989	NTR1_HUMAN	R	104	ENSP00000359532:H104R	ENSP00000359532:H104R	H	+	2	0	NTSR1	60811315	1.000000	0.71417	1.000000	0.80357	0.014000	0.08584	9.140000	0.94607	1.852000	0.53769	0.459000	0.35465	CAC		0.667	NTSR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080061.1			G	61340870	A	G	61340870	3	3	623	1	0	0	0	0	1	0	0	0	10717	159	6	3	313	3	NTSR1	20	61340870	Missense_Mutation	SNP	A	TCGA-KL-8324-01A-11D-2310-10	24481164	61340870	1684650	101	38301										
C21orf45	54069	ucsc.edu;bcgsc.ca	37	chr21	33642787	33642787	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gattcttgggcgtgcatctgTacacgtagccaagattgagt	12	8	2	2			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr21:33642787T>C	ENST00000290130.3	-	3	509	c.455A>G	c.(454-456)tAc>tGc	p.Y152C	MIS18A_ENST00000486363.1_5'UTR	NM_018944.2	NP_061817.1	Q9NYP9	MS18A_HUMAN	MIS18 kinetochore protein A	152					CENP-A containing nucleosome assembly (GO:0034080)|chromosome segregation (GO:0007059)|mitotic nuclear division (GO:0007067)|nucleosome assembly (GO:0006334)|regulation of DNA methylation (GO:0044030)	chromosome, centromeric region (GO:0000775)|cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				breast(1)|endometrium(1)|kidney(2)|large_intestine(1)|lung(2)	7						CGTGCATCTGTACACGTAGCC	0.428																																																0													91	79	83					21																	33642787		2203	4300	6503	SO:0001583	missense	54069			AF231921	CCDS13611.1	21q22.11	2013-10-21	2013-10-21	2011-02-23	ENSG00000159055	ENSG00000159055			1286	protein-coding gene	gene with protein product			"chromosome 21 open reading frame 46", "chromosome 21 open reading frame 45", "MIS18 kinetochore protein homolog A (S. pombe)"	C21orf46, C21orf45		17199038	Standard	NM_018944		Approved	B28, FASP1, hMis18alpha	uc002ypi.3	Q9NYP9	OTTHUMG00000085308	ENST00000290130.3:c.455A>G	21.37:g.33642787T>C	ENSP00000290130:p.Tyr152Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R562|Q542Z0	Missense_Mutation	SNP	ENST00000290130.3	37	CCDS13611.1	.	.	.	.	.	.	.	.	.	.	T	11.73	1.725511	0.30593	.	.	ENSG00000159055	ENST00000290130	.	.	.	5.78	1.86	0.25419	.	0.146850	0.47455	D	0.000238	T	0.69620	0.3131	M	0.78456	2.415	0.39383	D	0.966298	D	0.89917	1.0	D	0.91635	0.999	T	0.68387	-0.5422	9	0.87932	D	0	-18.7714	4.1683	0.10317	0.3142:0.0849:0.0:0.6008	.	152	Q9NYP9	MS18A_HUMAN	C	152	.	ENSP00000290130:Y152C	Y	-	2	0	MIS18A	32564658	1.000000	0.71417	0.190000	0.23270	0.002000	0.02628	1.856000	0.39389	0.428000	0.26173	-0.451000	0.05528	TAC		0.428	MIS18A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000193090.1	NM_018944		C	33642787	T	C	33642787	3	2	623	1	0	0	0	0	1	0	0	0	2128	1638	57	3	258	3	C21orf45	21	33642787	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10		33642787	14487108	102	38302										
GGT1	2678	mdanderson.org	37	chr22	25023406	25023406	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ggggtctcggcaggtggtccGcaacatgacctccgagttct	14	12	2	1	rs201401901	byFrequency	TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr22:25023406G>A	ENST00000400382.1	+	12	1783	c.1028G>A	c.(1027-1029)cGc>cAc	p.R343H	GGT1_ENST00000404532.1_5'UTR|GGT1_ENST00000404920.1_5'Flank|GGT1_ENST00000466310.1_3'UTR|GGT1_ENST00000400383.1_Missense_Mutation_p.R343H|GGT1_ENST00000401885.1_5'UTR|GGT1_ENST00000248923.4_Missense_Mutation_p.R343H|GGT1_ENST00000400380.1_Missense_Mutation_p.R343H|GGT1_ENST00000404223.1_5'UTR|GGT1_ENST00000403838.1_5'UTR|GGT1_ENST00000406383.2_Missense_Mutation_p.R343H			P19440	GGT1_HUMAN	gamma-glutamyltransferase 1	343					arachidonic acid metabolic process (GO:0019369)|cellular amino acid metabolic process (GO:0006520)|cysteine biosynthetic process (GO:0019344)|glutamate metabolic process (GO:0006536)|glutathione biosynthetic process (GO:0006750)|glutathione catabolic process (GO:0006751)|glutathione derivative biosynthetic process (GO:1901687)|glutathione metabolic process (GO:0006749)|leukotriene biosynthetic process (GO:0019370)|leukotriene metabolic process (GO:0006691)|regulation of immune system process (GO:0002682)|regulation of inflammatory response (GO:0050727)|small molecule metabolic process (GO:0044281)|spermatogenesis (GO:0007283)|xenobiotic metabolic process (GO:0006805)|zymogen activation (GO:0031638)	anchored component of external side of plasma membrane (GO:0031362)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	gamma-glutamyltransferase activity (GO:0003840)|glutathione hydrolase activity (GO:0036374)			breast(1)|endometrium(2)|kidney(14)|large_intestine(2)|lung(6)|pancreas(1)|prostate(6)|skin(7)|upper_aerodigestive_tract(1)	40					Glutathione(DB00143)	CAGGTGGTCCGCAACATGACC	0.642																																																0																																										SO:0001583	missense	2678			M24903	CCDS42992.1	22q11.23	2008-08-15			ENSG00000100031	ENSG00000100031	2.3.2.2	"CD molecules", "Gamma-glutamyltransferases"	4250	protein-coding gene	gene with protein product		612346		GGT		8104871, 18357469	Standard	NM_001288833		Approved	D22S672, D22S732, CD224	uc003aan.1	P19440	OTTHUMG00000030859	ENST00000400382.1:c.1028G>A	22.37:g.25023406G>A	ENSP00000383232:p.Arg343His	Somatic		WXS	Illumina HiSeq	Phase_I	Q08247|Q14404|Q8TBS1|Q9UMK1	Missense_Mutation	SNP	ENST00000400382.1	37	CCDS42992.1	.	.	.	.	.	.	.	.	.	.	.	10.59	1.391735	0.25118	.	.	ENSG00000100031	ENST00000248923;ENST00000412658;ENST00000400382;ENST00000400383;ENST00000400380;ENST00000406383	T;T;T;T;T;T	0.06933	3.24;3.24;3.24;3.24;3.24;3.24	3.4	-6.79	0.01715	.	0.600559	0.16428	N	0.214821	T	0.07143	0.0181	M	0.69463	2.115	0.21740	N	0.999564	B	0.24920	0.114	B	0.18561	0.022	T	0.16897	-1.0387	10	0.33141	T	0.24	-18.4417	7.7103	0.28673	0.5724:0.1197:0.3079:0.0	.	343	P19440	GGT1_HUMAN	H	343	ENSP00000248923:R343H;ENSP00000393537:R343H;ENSP00000383232:R343H;ENSP00000383233:R343H;ENSP00000383231:R343H;ENSP00000385975:R343H	ENSP00000248923:R343H	R	+	2	0	GGT1	23353406	0.007000	0.16637	0.525000	0.27900	0.904000	0.53231	-0.004000	0.12878	-1.203000	0.02652	-0.708000	0.03648	CGC		0.642	GGT1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250797.1	NM_013430		A	25023406	G	A	25023406	3	1	623	1	0	0	0	0	1	0	0	0	6368	1087	38	1	1058	1	GGT1	22	25023406	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10		25023406	26281160	103	38303										
TMEM184B	25829	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr22	38621520	38621520	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gcagctcccgggtggcgaagTagaagaggaagagggcgtag	19	7	0	3			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chr22:38621520T>C	ENST00000361906.3	-	7	906	c.698A>G	c.(697-699)tAc>tGc	p.Y233C	TMEM184B_ENST00000361684.4_Missense_Mutation_p.Y233C|TMEM184B_ENST00000504337.1_5'Flank	NM_001195072.1|NM_012264.4	NP_001182001.1|NP_036396.2	Q9Y519	T184B_HUMAN	transmembrane protein 184B	233						integral component of membrane (GO:0016021)				endometrium(1)|large_intestine(2)|lung(2)|skin(2)|upper_aerodigestive_tract(1)	8	Melanoma(58;0.045)					GGTGGCGAAGTAGAAGAGGAA	0.582																																																0													134	118	123					22																	38621520		2203	4300	6503	SO:0001583	missense	25829			AL096879	CCDS13969.2	22q12	2008-02-04	2007-07-11	2007-07-11	ENSG00000198792	ENSG00000198792			1310	protein-coding gene	gene with protein product			"chromosome 22 open reading frame 5"	C22orf5		10591208	Standard	NM_012264		Approved	HS5O6A, DKFZP586A1024, FM08	uc003avf.1	Q9Y519	OTTHUMG00000030557	ENST00000361906.3:c.698A>G	22.37:g.38621520T>C	ENSP00000355210:p.Tyr233Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9D7|Q63HM8|Q7Z421|Q8NBM5|Q9UGT8|Q9UGT9|Q9UGV5	Missense_Mutation	SNP	ENST00000361906.3	37	CCDS13969.2	.	.	.	.	.	.	.	.	.	.	T	28.2	4.899042	0.91962	.	.	ENSG00000198792	ENST00000361906;ENST00000361684	T;T	0.61980	0.06;0.06	5.85	5.85	0.93711	.	0.000000	0.85682	D	0.000000	D	0.86768	0.6012	H	0.97491	4.015	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.91444	0.5176	10	0.87932	D	0	-16.9921	16.2303	0.82332	0.0:0.0:0.0:1.0	.	233	Q9Y519	T184B_HUMAN	C	233	ENSP00000355210:Y233C;ENSP00000354441:Y233C	ENSP00000354441:Y233C	Y	-	2	0	TMEM184B	36951466	1.000000	0.71417	0.998000	0.56505	0.942000	0.58702	6.187000	0.72039	2.233000	0.73108	0.533000	0.62120	TAC		0.582	TMEM184B-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075445.4	NM_012264		C	38621520	T	C	38621520	3	2	623	1	0	0	0	0	1	0	0	0	16117	1638	57	3	537	3	TMEM184B	22	38621520	Missense_Mutation	SNP	T	TCGA-KL-8324-01A-11D-2310-10	13598114	38621520	12683046	104	38304										
VCX3A	51481	mdanderson.org	37	chrX	6451843	6451843	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ctcagtggttcctccacctgGctctcctgactcagtggttc	9	15	3	1	rs199720302		TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chrX:6451843G>A	ENST00000381089.3	-	3	810	c.504C>T	c.(502-504)agC>agT	p.S168S	VCX3A_ENST00000398729.1_Silent_p.S148S	NM_016379.3	NP_057463.2	Q9NNX9	VCX3_HUMAN	variable charge, X-linked 3A	168	8 X 10 AA tandem repeats of L-S-Q-E-S- [EQ]-V-E-E-P.|Glu-rich.				brain development (GO:0007420)	nucleolus (GO:0005730)|nucleus (GO:0005634)				NS(1)|lung(2)|pancreas(1)	4						CCTCCACCTGGCTCTCCTGAC	0.577																																																0													170	159	163					X																	6451843		2203	4292	6495	SO:0001819	synonymous_variant	51481			AF159128	CCDS35199.1	Xp22.31	2008-02-05	2005-01-11	2005-01-12	ENSG00000169059	ENSG00000169059			18159	protein-coding gene	gene with protein product		300533	"variable charge, X-linked 3"	VCX3		10607842	Standard	NM_016379		Approved	VCX-8r, VCX-8R, VCX-A	uc004crs.3	Q9NNX9	OTTHUMG00000021097	ENST00000381089.3:c.504C>T	X.37:g.6451843G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9P0H4	Silent	SNP	ENST00000381089.3	37	CCDS35199.1																																																																																				0.577	VCX3A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000055679.1	NM_016379		A	6451843	G	A	6451843	2	1	623	1	0	0	0	0	0	0	0	1	17156	1194	42	2		2	VCX3A	23	6451843	Silent	SNP	G	TCGA-KL-8324-01A-11D-2310-10		6451843	148818717	105	38305										
ARHGAP36	158763	broad.mit.edu;mdanderson.org	37	chrX	130219620	130219620	+	Silent	SNP	C	C	A													0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ctggtctacctgatgccaccCtgccacagtgataccctgga							TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chrX:130219620C>A	ENST00000276211.5	+	8	1359	c.1014C>A	c.(1012-1014)ccC>ccA	p.P338P	ARHGAP36_ENST00000370922.1_Silent_p.P326P|ARHGAP36_ENST00000370921.1_Silent_p.P202P	NM_144967.3	NP_659404.2	Q6ZRI8	RHG36_HUMAN	Rho GTPase activating protein 36	338	Rho-GAP. {ECO:0000255|PROSITE- ProRule:PRU00172}.				regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	GTPase activator activity (GO:0005096)			breast(1)|central_nervous_system(2)|endometrium(5)|kidney(3)|large_intestine(16)|lung(31)|ovary(4)|prostate(4)|skin(3)|urinary_tract(2)	71						TGATGCCACCCTGCCACAGTG	0.507																																																0													202	204	203					X																	130219620		2203	4300	6503	SO:0001819	synonymous_variant	158763				CCDS14628.1, CCDS65320.1	Xq26.1	2011-06-29			ENSG00000147256	ENSG00000147256		"Rho GTPase activating proteins"	26388	protein-coding gene	gene with protein product							Standard	NM_144967		Approved	FLJ30058	uc004evz.3	Q6ZRI8	OTTHUMG00000022402	ENST00000276211.5:c.1014C>A	X.37:g.130219620C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z234|B7Z439|Q5JRL9|Q5JRM0|Q5JRM1|Q96NU6	Silent	SNP	ENST00000276211.5	37	CCDS14628.1																																																																																				0.507	ARHGAP36-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355073.1	NM_144967		A	130219620	C	A	130219620	2	1	623	1	0	0	0	0	0	0	0	1	883	668	24	4		4	ARHGAP36	23	130219620	Silent	SNP	C	TCGA-KL-8324-01A-11D-2310-10	123767777	130219620	25050940	106	38306	302	2								
ARHGAP36	158763	broad.mit.edu	37	chrX	130219622	130219622	+	Missense_Mutation	SNP	G	G	T													0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	ggtctacctgatgccaccctGccacagtgataccctggagc							TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chrX:130219622G>T	ENST00000276211.5	+	8	1361	c.1016G>T	c.(1015-1017)tGc>tTc	p.C339F	ARHGAP36_ENST00000370922.1_Missense_Mutation_p.C327F|ARHGAP36_ENST00000370921.1_Missense_Mutation_p.C203F	NM_144967.3	NP_659404.2	Q6ZRI8	RHG36_HUMAN	Rho GTPase activating protein 36	339	Rho-GAP. {ECO:0000255|PROSITE- ProRule:PRU00172}.				regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	GTPase activator activity (GO:0005096)	p.C339Y(1)		breast(1)|central_nervous_system(2)|endometrium(5)|kidney(3)|large_intestine(16)|lung(31)|ovary(4)|prostate(4)|skin(3)|urinary_tract(2)	71						ATGCCACCCTGCCACAGTGAT	0.512																																																1	Substitution - Missense(1)	kidney(1)											199	200	200					X																	130219622		2203	4300	6503	SO:0001583	missense	158763				CCDS14628.1, CCDS65320.1	Xq26.1	2011-06-29			ENSG00000147256	ENSG00000147256		"Rho GTPase activating proteins"	26388	protein-coding gene	gene with protein product							Standard	NM_144967		Approved	FLJ30058	uc004evz.3	Q6ZRI8	OTTHUMG00000022402	ENST00000276211.5:c.1016G>T	X.37:g.130219622G>T	ENSP00000276211:p.Cys339Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z234|B7Z439|Q5JRL9|Q5JRM0|Q5JRM1|Q96NU6	Missense_Mutation	SNP	ENST00000276211.5	37	CCDS14628.1	.	.	.	.	.	.	.	.	.	.	G	17.92	3.507094	0.64410	.	.	ENSG00000147256	ENST00000276211;ENST00000370922;ENST00000412432;ENST00000370921	T;T;T;T	0.18338	2.22;2.22;2.22;2.22	4.88	4.88	0.63580	Rho GTPase-activating protein domain (4);Rho GTPase activation protein (1);	0.126831	0.36972	N	0.002302	T	0.36690	0.0976	M	0.84846	2.72	0.58432	D	0.999998	P;P;D	0.53462	0.95;0.95;0.96	P;P;P	0.59424	0.776;0.776;0.857	T	0.36456	-0.9747	10	0.10111	T	0.7	.	12.1001	0.53778	0.0:0.0:1.0:0.0	.	308;327;339	Q6ZRI8-2;Q6ZRI8-4;Q6ZRI8	.;.;RHG36_HUMAN	F	339;327;308;203	ENSP00000276211:C339F;ENSP00000359960:C327F;ENSP00000408515:C308F;ENSP00000359959:C203F	ENSP00000276211:C339F	C	+	2	0	ARHGAP36	130047303	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	8.348000	0.90064	2.243000	0.73865	0.600000	0.82982	TGC		0.512	ARHGAP36-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355073.1	NM_144967		T	130219622	G	T	130219622	3	4	623	1	0	0	0	0	1	0	0	0	883	1319	46	4	1042	4	ARHGAP36	23	130219622	Missense_Mutation	SNP	G	TCGA-KL-8324-01A-11D-2310-10	2	130219622	25050938	107	38307	302	2								
MCF2	4168	broad.mit.edu;mdanderson.org	37	chrX	138698453	138698453	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	gcctctaccttaagctcaggAgataatattacatcaaattc	5	10	3	1			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chrX:138698453A>G	ENST00000370576.4	-	9	1388	c.1179T>C	c.(1177-1179)tcT>tcC	p.S393S	MCF2_ENST00000370573.4_Silent_p.S393S|MCF2_ENST00000483690.1_5'Flank|MCF2_ENST00000370578.4_Silent_p.S538S|MCF2_ENST00000520602.1_Silent_p.S453S|MCF2_ENST00000536274.1_Silent_p.S354S|MCF2_ENST00000338585.6_Silent_p.S393S|MCF2_ENST00000414978.1_Silent_p.S453S|MCF2_ENST00000519895.1_Silent_p.S453S	NM_001171879.1|NM_005369.4	NP_001165350.1|NP_005360.3	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	393					apoptotic signaling pathway (GO:0097190)|dendrite development (GO:0016358)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(2)|cervix(2)|endometrium(4)|kidney(2)|large_intestine(15)|lung(34)|pancreas(1)|pleura(1)|prostate(1)	62	Acute lymphoblastic leukemia(192;0.000127)					TAAGCTCAGGAGATAATATTA	0.318																																																0													24	22	23					X																	138698453		2200	4275	6475	SO:0001819	synonymous_variant	4168				CCDS14667.1, CCDS48175.1, CCDS55514.1, CCDS55515.1, CCDS55516.1, CCDS55517.1	Xq26.3-q27.1	2012-07-24			ENSG00000101977	ENSG00000101977		"Rho guanine nucleotide exchange factors"	6940	protein-coding gene	gene with protein product	"Oncogene MCF2 (oncogene DBL)"	311030				2577874, 1611909	Standard	NM_001099855		Approved	DBL, ARHGEF21	uc011mwo.1	P10911	OTTHUMG00000022537	ENST00000370576.4:c.1179T>C	X.37:g.138698453A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3Y5|B7Z869|B7ZAV1|E9PH77|F5H091|P14919|Q5JYJ2|Q5JYJ3|Q5JYJ4|Q8IUF3|Q8IUF4|Q9UJB3	Silent	SNP	ENST00000370576.4	37	CCDS14667.1																																																																																				0.318	MCF2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000058560.1	NM_005369		G	138698453	A	G	138698453	2	3	623	1	0	0	0	0	0	0	0	1	9385	291	11	3		3	MCF2	23	138698453	Silent	SNP	A	TCGA-KL-8324-01A-11D-2310-10	8478831	138698453	16572107	108	38308										
SLC6A8	6535	broad.mit.edu	37	chrX	152956889	152956889	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0280373831775701	3	1	0.444206896551724	3.70172413793103	0.160944527736132	1	1	0	tgggccacatgtggccacacCtggaacactcccgactgcgt	11	15	0	0			TCGA-KL-8324-01A-11D-2310-10	TCGA-KL-8324-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	47e52141-87f5-4718-8497-950711774cd8	5831a933-9b5f-4f33-94d8-ba2a844f27ef	g.chrX:152956889C>T	ENST00000253122.5	+	3	1001	c.525C>T	c.(523-525)acC>acT	p.T175T	SLC6A8_ENST00000430077.2_Silent_p.T60T	NM_001142805.1|NM_005629.3	NP_001136277.1|NP_005620.1	P48029	SC6A8_HUMAN	solute carrier family 6 (neurotransmitter transporter), member 8	175					cellular nitrogen compound metabolic process (GO:0034641)|creatine metabolic process (GO:0006600)|creatine transmembrane transport (GO:1902598)|creatine transport (GO:0015881)|muscle contraction (GO:0006936)|small molecule metabolic process (GO:0044281)|transport (GO:0006810)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	creatine transmembrane transporter activity (GO:0005308)|creatine:sodium symporter activity (GO:0005309)|neurotransmitter:sodium symporter activity (GO:0005328)			breast(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(5)|pancreas(1)|upper_aerodigestive_tract(1)	13	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Creatine(DB00148)	GTGGCCACACCTGGAACACTC	0.592																																																0													72	66	68					X																	152956889		2203	4300	6503	SO:0001819	synonymous_variant	6535				CCDS14726.1, CCDS48190.1	Xq28	2013-07-19	2013-07-19		ENSG00000130821	ENSG00000130821		"Solute carriers"	11055	protein-coding gene	gene with protein product	"creatine transporter"	300036	"solute carrier family 6 (neurotransmitter transporter, creatine), member 8"			7774949	Standard	NM_001142805		Approved	CRTR, CT1	uc004fib.3	P48029	OTTHUMG00000024208	ENST00000253122.5:c.525C>T	X.37:g.152956889C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2KY47|B4DIA3|E9PFC0|Q13032|Q66I36	Silent	SNP	ENST00000253122.5	37	CCDS14726.1																																																																																				0.592	SLC6A8-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000061003.1			T	152956889	C	T	152956889	2	4	623	1	0	0	0	0	0	0	0	1	14703	668	24	2		2	SLC6A8	23	152956889	Silent	SNP	C	TCGA-KL-8324-01A-11D-2310-10	14258436	152956889	2313671	109	38309										
PRAMEF11	440560	mdanderson.org	37	chr1	12885127	12885127	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctcagggcaggcaggatggcGttgacttgggagtctatgat	16	7	2	2	rs201757978	byFrequency	TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr1:12885127G>A	ENST00000535591.1	-	4	1179	c.984C>T	c.(982-984)aaC>aaT	p.N328N	RP5-845O24.8_ENST00000438401.1_lincRNA	NM_001146344.1	NP_001139816.1	O60813	PRA11_HUMAN	PRAME family member 11	328					negative regulation of apoptotic process (GO:0043066)|negative regulation of cell differentiation (GO:0045596)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)					NS(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|lung(7)|pancreas(2)|skin(4)|urinary_tract(1)	27						GCAGGATGGCGTTGACTTGGG	0.517																																																0													11	8	9					1																	12885127		692	1569	2261	SO:0001819	synonymous_variant	440560			AL049680	CCDS53268.1	1p36.21	2013-01-17			ENSG00000204513	ENSG00000239810		"-"	14086	protein-coding gene	gene with protein product							Standard	XM_006710645		Approved		uc001auk.2	O60813	OTTHUMG00000001929	ENST00000535591.1:c.984C>T	1.37:g.12885127G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000535591.1	37	CCDS53268.1																																																																																				0.517	PRAMEF11-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		XM_496341		A	12885127	G	A	12885127	2	1	624	1	0	0	0	0	0	0	0	1	12437	1136	40	1		1	PRAMEF11	1	12885127	Silent	SNP	G	TCGA-KL-8325-01A-11D-2310-10		12885127	236365494	1	38310										
CROCC	9696	mdanderson.org	37	chr1	17277573	17277573	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	aggcctctctgcgggagcagCgggcagctcacgaggaggac	17	12	2	0	rs3969856		TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr1:17277573C>T	ENST00000375541.5	+	20	3031	c.2962C>T	c.(2962-2964)Cgg>Tgg	p.R988W	CROCC_ENST00000467938.1_Intron	NM_014675.3	NP_055490.3			ciliary rootlet coiled-coil, rootletin											breast(3)|central_nervous_system(2)|cervix(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(12)|large_intestine(1)|lung(20)|ovary(3)|prostate(9)|skin(3)|urinary_tract(1)	62		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)		GCGGGAGCAGCGGGCAGCTCA	0.592																																																0													15	16	16					1																	17277573		2201	4293	6494	SO:0001583	missense	9696			AB007914	CCDS30616.1	1p36.13	2010-06-04	2009-03-04	2009-03-04	ENSG00000058453	ENSG00000058453			21299	protein-coding gene	gene with protein product	"rootletin, ciliary rootlet protein"	615776				12427867, 17971504	Standard	XM_006711056		Approved	rootletin, ROLT	uc001azt.2	Q5TZA2	OTTHUMG00000002200	ENST00000375541.5:c.2962C>T	1.37:g.17277573C>T	ENSP00000364691:p.Arg988Trp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000375541.5	37	CCDS30616.1	.	.	.	.	.	.	.	.	.	.	C	16.66	3.183903	0.57800	.	.	ENSG00000058453	ENST00000375541;ENST00000445545	T	0.23147	1.92	4.83	3.91	0.45181	.	.	.	.	.	T	0.41581	0.1165	L	0.50333	1.59	0.32100	N	0.59074	D;D	0.76494	0.999;0.999	D;D	0.66196	0.942;0.942	T	0.51810	-0.8658	9	0.72032	D	0.01	.	11.1907	0.48683	0.1842:0.8158:0.0:0.0	rs3969856	291;988	Q5TZA2-2;Q5TZA2	.;CROCC_HUMAN	W	988;869	ENSP00000364691:R988W	ENSP00000364691:R988W	R	+	1	2	CROCC	17150160	0.999000	0.42202	1.000000	0.80357	0.970000	0.65996	1.759000	0.38420	1.347000	0.45714	0.556000	0.70494	CGG		0.592	CROCC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006249.2	NM_014675		T	17277573	C	T	17277573	3	4	624	1	0	0	0	0	1	0	0	0	3895	759	27	1	3040	1	CROCC	1	17277573	Missense_Mutation	SNP	C	TCGA-KL-8325-01A-11D-2310-10	4392446	17277573	231973048	2	38311										
CD52	1043	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	26644516	26644516	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	agatcctaccaaaatgaagcGcttcctcttcctcctactca	4	15	2	2	rs570039509		TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr1:26644516G>A	ENST00000374213.2	+	1	69	c.8G>A	c.(7-9)cGc>cAc	p.R3H	UBXN11_ENST00000374217.2_Intron|CD52_ENST00000492808.1_3'UTR|UBXN11_ENST00000374222.1_Intron	NM_001803.2	NP_001794.2	P31358	CD52_HUMAN	CD52 molecule	3					positive regulation of cytosolic calcium ion concentration (GO:0007204)|respiratory burst (GO:0045730)	anchored component of membrane (GO:0031225)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)				large_intestine(1)	1		all_cancers(24;5.02e-24)|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;7.56e-28)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000946)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0137)|READ - Rectum adenocarcinoma(331;0.0649)	Alemtuzumab(DB00087)	AAAATGAAGCGCTTCCTCTTC	0.517													G|||	1	0.000199681	0.0	0.0	5008	,	,		19805	0.0		0.0	False		,,,				2504	0.001															0													260	192	215					1																	26644516		2203	4300	6503	SO:0001583	missense	1043				CCDS30647.1	1p36	2008-02-05	2006-03-28	2005-02-07	ENSG00000169442	ENSG00000169442		"CD molecules"	1804	protein-coding gene	gene with protein product		114280	"CD52 antigen (CAMPATH-1 antigen)"	CDW52		1711975	Standard	NM_001803		Approved		uc001bmc.3	P31358	OTTHUMG00000003491	ENST00000374213.2:c.8G>A	1.37:g.26644516G>A	ENSP00000363330:p.Arg3His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T138|Q9BW46	Missense_Mutation	SNP	ENST00000374213.2	37	CCDS30647.1	.	.	.	.	.	.	.	.	.	.	G	11.30	1.597022	0.28445	.	.	ENSG00000169442	ENST00000374213	T	0.36340	1.26	4.05	2.14	0.27477	.	0.788204	0.10392	N	0.680354	T	0.34454	0.0898	.	.	.	0.23309	N	0.997936	D	0.62365	0.991	P	0.48982	0.597	T	0.13019	-1.0525	9	0.37606	T	0.19	.	5.8326	0.18588	0.1075:0.1951:0.6974:0.0	.	3	P31358	CD52_HUMAN	H	3	ENSP00000363330:R3H	ENSP00000363330:R3H	R	+	2	0	CD52	26517103	0.998000	0.40836	0.985000	0.45067	0.154000	0.21943	1.196000	0.32198	0.642000	0.30620	-0.324000	0.08512	CGC		0.517	CD52-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000009704.1	NM_001803		A	26644516	G	A	26644516	3	1	624	1	0	0	0	0	1	0	0	0	3024	1087	38	1	10	1	CD52	1	26644516	Missense_Mutation	SNP	G	TCGA-KL-8325-01A-11D-2310-10	9366943	26644516	222606105	3	38312										
SPTA1	6708	bcgsc.ca	37	chr1	158646033	158646033	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tctcctggatctgaggtgcaTctgaaggatgggaaagtgtc	14	7	3	2			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr1:158646033T>C	ENST00000368147.4	-	8	1190	c.1010A>G	c.(1009-1011)gAt>gGt	p.D337G		NM_003126.2	NP_003117.2	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	337					actin filament capping (GO:0051693)|actin filament organization (GO:0007015)|axon guidance (GO:0007411)|hemopoiesis (GO:0030097)|lymphocyte homeostasis (GO:0002260)|plasma membrane organization (GO:0007009)|porphyrin-containing compound biosynthetic process (GO:0006779)|positive regulation of protein binding (GO:0032092)|positive regulation of T cell proliferation (GO:0042102)|regulation of cell shape (GO:0008360)	actin cytoskeleton (GO:0015629)|cuticular plate (GO:0032437)|cytosol (GO:0005829)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)|spectrin (GO:0008091)|spectrin-associated cytoskeleton (GO:0014731)	actin filament binding (GO:0051015)|calcium ion binding (GO:0005509)|structural constituent of cytoskeleton (GO:0005200)			NS(3)|breast(7)|cervix(1)|endometrium(22)|kidney(9)|large_intestine(29)|liver(2)|lung(183)|ovary(5)|prostate(18)|skin(11)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(9)|urinary_tract(6)	307	all_hematologic(112;0.0378)					CTGAGGTGCATCTGAAGGATG	0.463																																																0													214	203	206					1																	158646033		1927	4146	6073	SO:0001583	missense	6708			M61877	CCDS41423.1	1q21	2014-06-23	2014-06-23		ENSG00000163554	ENSG00000163554		"EF-hand domain containing"	11272	protein-coding gene	gene with protein product	"elliptocytosis 2"	182860	"spectrin, alpha, erythrocytic 1 (elliptocytosis 2)"				Standard	NM_003126		Approved	EL2	uc001fst.1	P02549	OTTHUMG00000019636	ENST00000368147.4:c.1010A>G	1.37:g.158646033T>C	ENSP00000357129:p.Asp337Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q15514|Q5VYL1|Q5VYL2|Q6LDY5	Missense_Mutation	SNP	ENST00000368147.4	37	CCDS41423.1	.	.	.	.	.	.	.	.	.	.	T	22.2	4.264331	0.80358	.	.	ENSG00000163554	ENST00000368148;ENST00000368147	T;T	0.37584	1.19;1.19	4.91	4.91	0.64330	.	0.511732	0.14639	N	0.307348	T	0.22551	0.0544	L	0.28400	0.85	0.43381	D	0.995486	B	0.29115	0.233	B	0.39465	0.3	T	0.13442	-1.0509	10	0.56958	D	0.05	.	13.5333	0.61633	0.0:0.0:0.0:1.0	.	337	P02549	SPTA1_HUMAN	G	337	ENSP00000357130:D337G;ENSP00000357129:D337G	ENSP00000357129:D337G	D	-	2	0	SPTA1	156912657	1.000000	0.71417	0.373000	0.26003	0.971000	0.66376	6.818000	0.75257	2.033000	0.60031	0.533000	0.62120	GAT		0.463	SPTA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051851.3	NM_003126		C	158646033	T	C	158646033	3	2	624	1	0	0	0	0	1	0	0	0	15128	1435	50	3	6429	3	SPTA1	1	158646033	Missense_Mutation	SNP	T	TCGA-KL-8325-01A-11D-2310-10	132001517	158646033	90604588	4	38313										
C1orf129	80133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	170993854	170993854	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gtcaacatcacgtttgctcaAagatgaaaattacagttttg	7	7	3	2			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr1:170993854A>T	ENST00000367759.4	+	19	2280	c.2126A>T	c.(2125-2127)aAa>aTa	p.K709I		NM_001163629.1	NP_001157101.1	Q5TGP6	MROH9_HUMAN	maestro heat-like repeat family member 9	0																	CGTTTGCTCAAAGATGAAAAT	0.353																																																0													67	59	61					1																	170993854		692	1591	2283	SO:0001583	missense	80133			AK027203	CCDS41436.1, CCDS53429.1	1q24.3	2012-12-19	2012-12-19	2012-12-19	ENSG00000117501	ENSG00000117501		"maestro heat-like repeat containing"	26287	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 129"	C1orf129			Standard	NM_025063		Approved	FLJ23550, ARMC11	uc010plz.2	Q5TGP6	OTTHUMG00000041456	ENST00000367759.4:c.2126A>T	1.37:g.170993854A>T	ENSP00000356733:p.Lys709Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJM0|A0PJM2|F5GWX6|Q9H5D7	Missense_Mutation	SNP	ENST00000367759.4	37	CCDS53429.1	.	.	.	.	.	.	.	.	.	.	A	15.61	2.885530	0.51908	.	.	ENSG00000117501	ENST00000367759	T	0.67865	-0.29	5.51	0.0654	0.14356	.	.	.	.	.	T	0.22205	0.0535	L	0.27053	0.805	0.09310	N	1	P	0.41524	0.753	B	0.37304	0.246	T	0.07947	-1.0746	9	0.20519	T	0.43	.	2.082	0.03637	0.4381:0.3205:0.0867:0.1547	.	709	F5GWX6	.	I	709	ENSP00000356733:K709I	ENSP00000356733:K709I	K	+	2	0	C1orf129	169260478	0.000000	0.05858	0.000000	0.03702	0.041000	0.13682	0.386000	0.20702	0.100000	0.17581	0.533000	0.62120	AAA		0.353	MROH9-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_025063		T	170993854	A	T	170993854	3	4	624	1	0	0	0	0	1	0	0	0	1998	14	1	5	2322	5	C1orf129	1	170993854	Missense_Mutation	SNP	A	TCGA-KL-8325-01A-11D-2310-10	12347821	170993854	78256767	5	38314										
SOX13	9580	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	204092909	204092909	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	agccttcccagacatgcacaActccagcatcagcaagatcc	6	16	1	2			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr1:204092909A>G	ENST00000367204.1	+	12	1461	c.1352A>G	c.(1351-1353)aAc>aGc	p.N451S		NM_005686.2	NP_005677.2	Q9UN79	SOX13_HUMAN	SRY (sex determining region Y)-box 13	451					anatomical structure morphogenesis (GO:0009653)|regulation of gamma-delta T cell differentiation (GO:0045586)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(3)|lung(2)|ovary(2)|prostate(2)	13	all_cancers(21;0.0754)|Breast(84;0.116)|all_epithelial(62;0.189)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)			GACATGCACAACTCCAGCATC	0.572											OREG0014126	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													62	66	65					1																	204092909		2198	4300	6498	SO:0001583	missense	9580				CCDS44299.1	1q32	2008-07-18			ENSG00000143842	ENSG00000143842		"SRY (sex determining region Y)-boxes"	11192	protein-coding gene	gene with protein product	"islet cell antibody 12", "SRY-related HMG-box gene 13", "type 1 diabetes autoantigen", "SRY-box 13"	604748				10198172	Standard	NM_005686		Approved	Sox-13, ICA12, MGC117216	uc001ham.3	Q9UN79	OTTHUMG00000036050	ENST00000367204.1:c.1352A>G	1.37:g.204092909A>G	ENSP00000356172:p.Asn451Ser	Somatic	2142	WXS	Illumina HiSeq	Phase_I	B4E2B0|O95275|O95826|Q3KQV7|Q5SXX1|Q9UHW7	Missense_Mutation	SNP	ENST00000367204.1	37	CCDS44299.1	.	.	.	.	.	.	.	.	.	.	A	28.1	4.886738	0.91814	.	.	ENSG00000143842	ENST00000367204	D	0.98150	-4.75	5.26	5.26	0.73747	High mobility group, superfamily (1);High mobility group, HMG1/HMG2 (4);	0.000000	0.85682	D	0.000000	D	0.98535	0.9511	M	0.77406	2.37	0.80722	D	1	D;D;D	0.76494	0.999;0.999;0.999	D;D;D	0.83275	0.996;0.996;0.996	D	0.99795	1.1033	10	0.87932	D	0	.	14.8475	0.70270	1.0:0.0:0.0:0.0	.	318;318;451	B4DX26;B4E3N9;Q9UN79	.;.;SOX13_HUMAN	S	451	ENSP00000356172:N451S	ENSP00000356172:N451S	N	+	2	0	SOX13	202359532	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.339000	0.96797	1.991000	0.58162	0.533000	0.62120	AAC		0.572	SOX13-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087881.2	NM_005686		G	204092909	A	G	204092909	3	3	624	1	0	0	0	0	1	0	0	0	14957	43	2	3	1394	3	SOX13	1	204092909	Missense_Mutation	SNP	A	TCGA-KL-8325-01A-11D-2310-10	33099055	204092909	45157712	6	38315										
BIRC6	57448	hgsc.bcm.edu	37	chr2	32718631	32718631	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gtcctacagctacacaagctAtgcaagaatttcttactcga	6	11	1	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr2:32718631A>G	ENST00000421745.2	+	45	8499	c.8365A>G	c.(8365-8367)Atg>Gtg	p.M2789V		NM_016252.3	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat containing 6	2789					apoptotic process (GO:0006915)|labyrinthine layer development (GO:0060711)|mitotic nuclear division (GO:0007067)|negative regulation of apoptotic process (GO:0043066)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|positive regulation of cell proliferation (GO:0008284)|protein phosphorylation (GO:0006468)|protein ubiquitination (GO:0016567)|regulation of cell proliferation (GO:0042127)|regulation of cytokinesis (GO:0032465)|spongiotrophoblast layer development (GO:0060712)	endosome (GO:0005768)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)|midbody (GO:0030496)|spindle pole (GO:0000922)|trans-Golgi network (GO:0005802)	acid-amino acid ligase activity (GO:0016881)|cysteine-type endopeptidase inhibitor activity (GO:0004869)|ubiquitin-protein transferase activity (GO:0004842)			NS(4)|breast(8)|central_nervous_system(3)|endometrium(21)|haematopoietic_and_lymphoid_tissue(1)|kidney(15)|large_intestine(31)|lung(65)|ovary(7)|pancreas(1)|prostate(5)|skin(5)|stomach(1)|urinary_tract(5)	172	Acute lymphoblastic leukemia(172;0.155)					TACACAAGCTATGCAAGAATT	0.318																																					Pancreas(94;175 1509 16028 18060 45422)											0													167	167	167					2																	32718631		2203	4300	6503	SO:0001583	missense	57448			AF265555	CCDS33175.2	2p22.3	2011-01-25	2011-01-25		ENSG00000115760	ENSG00000115760		"Baculoviral IAP repeat containing", "Ubiquitin-conjugating enzymes E2"	13516	protein-coding gene	gene with protein product	"apollon"	605638	"baculoviral IAP repeat-containing 6"			10544019	Standard	NM_016252		Approved	BRUCE	uc010ezu.3	Q9NR09	OTTHUMG00000150528	ENST00000421745.2:c.8365A>G	2.37:g.32718631A>G	ENSP00000393596:p.Met2789Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9ULD1	Missense_Mutation	SNP	ENST00000421745.2	37	CCDS33175.2	.	.	.	.	.	.	.	.	.	.	A	12.11	1.838356	0.32513	.	.	ENSG00000115760	ENST00000421745	T	0.72835	-0.69	5.36	5.36	0.76844	.	0.000000	0.85682	D	0.000000	T	0.53981	0.1830	N	0.14661	0.345	0.45718	D	0.998624	B	0.15141	0.012	B	0.10450	0.005	T	0.50092	-0.8868	10	0.18710	T	0.47	.	15.6548	0.77124	1.0:0.0:0.0:0.0	.	2789	Q9NR09	BIRC6_HUMAN	V	2789	ENSP00000393596:M2789V	ENSP00000393596:M2789V	M	+	1	0	BIRC6	32572135	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	6.820000	0.75267	2.162000	0.67917	0.377000	0.23210	ATG		0.318	BIRC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318769.3	NM_016252		G	32718631	A	G	32718631	3	3	624	1	0	0	0	0	1	0	0	0	1438	449	16	3	8543	3	BIRC6	2	32718631	Missense_Mutation	SNP	A	TCGA-KL-8325-01A-11D-2310-10		32718631	210480742	7	38316										
NRP2	8828	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	206605324	206605324	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgacaaggtttgttagaatcCgccctcagacctggcactca	9	12	2	3			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr2:206605324C>T	ENST00000357785.5	+	8	1259	c.1228C>T	c.(1228-1230)Cgc>Tgc	p.R410C	NRP2_ENST00000540841.1_Missense_Mutation_p.R410C|NRP2_ENST00000355117.4_Missense_Mutation_p.R410C|NRP2_ENST00000412873.2_Missense_Mutation_p.R410C|NRP2_ENST00000357118.4_Missense_Mutation_p.R410C|NRP2_ENST00000360409.3_Missense_Mutation_p.R410C|NRP2_ENST00000540178.1_Missense_Mutation_p.R410C|NRP2_ENST00000417189.1_Missense_Mutation_p.R410C|NRP2_ENST00000272849.3_Missense_Mutation_p.R410C			Q99435	NELL2_HUMAN	neuropilin 2	0	EGF-like 1. {ECO:0000255|PROSITE- ProRule:PRU00076}.					extracellular region (GO:0005576)	calcium ion binding (GO:0005509)	p.R410C(1)		NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(14)|lung(19)|ovary(1)|pancreas(1)|prostate(4)|skin(2)|upper_aerodigestive_tract(2)	52						TGTTAGAATCCGCCCTCAGAC	0.557																																																1	Substitution - Missense(1)	prostate(1)											127	106	113					2																	206605324		2203	4300	6503	SO:0001583	missense	8828			AF016098	CCDS2364.1, CCDS2365.1, CCDS46496.1, CCDS46497.1, CCDS46498.1, CCDS46499.1	2q33.3	2008-05-23			ENSG00000118257	ENSG00000118257			8005	protein-coding gene	gene with protein product		602070				9529250, 9331348	Standard	NM_003872		Approved	VEGF165R2	uc002vaw.3	O60462	OTTHUMG00000132893	ENST00000357785.5:c.1228C>T	2.37:g.206605324C>T	ENSP00000350432:p.Arg410Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2U7|B7Z5Q4|B7Z9J5|B7Z9U3|Q96JS2	Missense_Mutation	SNP	ENST00000357785.5	37	CCDS46496.1	.	.	.	.	.	.	.	.	.	.	C	19.19	3.780182	0.70222	.	.	ENSG00000118257	ENST00000360409;ENST00000540178;ENST00000540841;ENST00000355117;ENST00000417189;ENST00000357118;ENST00000357785;ENST00000412873;ENST00000272849	D;D;D;D;D;D;D;D;D	0.97303	-4.33;-4.33;-4.33;-4.33;-4.33;-4.33;-4.33;-4.33;-4.33	5.97	5.1	0.69264	Coagulation factor 5/8 C-terminal type domain (3);Galactose-binding domain-like (1);	0.000000	0.85682	D	0.000000	D	0.97851	0.9294	L	0.60904	1.88	0.80722	D	1	D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D	0.91635	0.998;0.998;0.999;0.996;0.996;0.993	D	0.98708	1.0703	10	0.72032	D	0.01	-25.332	15.1719	0.72881	0.0:0.9326:0.0:0.0674	.	410;410;410;410;410;410	O60462-2;O60462-3;O60462;O60462-4;O60462-5;E9PF66	.;.;NRP2_HUMAN;.;.;.	C	410	ENSP00000353582:R410C;ENSP00000439658:R410C;ENSP00000439261:R410C;ENSP00000347238:R410C;ENSP00000387519:R410C;ENSP00000349632:R410C;ENSP00000350432:R410C;ENSP00000407626:R410C;ENSP00000272849:R410C	ENSP00000272849:R410C	R	+	1	0	NRP2	206313569	1.000000	0.71417	1.000000	0.80357	0.229000	0.25112	2.780000	0.47742	1.546000	0.49388	-0.136000	0.14681	CGC		0.557	NRP2-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000336467.1			T	206605324	C	T	206605324	3	4	624	1	0	0	0	0	1	0	0	0	10668	652	23	1	1258	1	NRP2	2	206605324	Missense_Mutation	SNP	C	TCGA-KL-8325-01A-11D-2310-10	173886693	206605324	36594049	8	38317										
ITGA9	3680	broad.mit.edu	37	chr3	37523097	37523097	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	acgctgatcccttgctatgaAggtgagcatggattgatttt	11	7	0	4			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr3:37523097A>G	ENST00000264741.5	+	4	799	c.543A>G	c.(541-543)gaA>gaG	p.E181E	ITGA9_ENST00000422441.1_Splice_Site_p.E181E	NM_002207.2	NP_002198.2	Q13797	ITA9_HUMAN	integrin, alpha 9	181					axon guidance (GO:0007411)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|integrin-mediated signaling pathway (GO:0007229)|neutrophil chemotaxis (GO:0030593)|wound healing (GO:0042060)	basal plasma membrane (GO:0009925)|integrin alpha9-beta1 complex (GO:0034679)|integrin complex (GO:0008305)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)			breast(3)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(9)|lung(17)|pancreas(1)|prostate(2)|skin(6)|stomach(1)|urinary_tract(1)	44				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		CTTGCTATGAAGGTGAGCATG	0.542																																																0													211	174	186					3																	37523097		2203	4300	6503	SO:0001630	splice_region_variant	3680			L24158	CCDS2669.1	3p21.3	2010-03-23			ENSG00000144668	ENSG00000144668		"Integrins"	6145	protein-coding gene	gene with protein product	"integrin, alpha 4-like"	603963				8245132, 8290272	Standard	NM_002207		Approved	RLC, ITGA4L, ALPHA-RLC	uc003chd.3	Q13797	OTTHUMG00000130815	ENST00000264741.5:c.544+1A>G	3.37:g.37523097A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q14638	Silent	SNP	ENST00000264741.5	37	CCDS2669.1																																																																																				0.542	ITGA9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253361.1	NM_002207	Silent	G	37523097	A	G	37523097	5	3	624	1	0	0	0	0	0	0	1	0	7890	86	3	3	557	3	ITGA9	3	37523097	Splice_Site	SNP	A	TCGA-KL-8325-01A-11D-2310-10		37523097	160499333	9	38318										
ROBO2	6092	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	77526693	77526693	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	actggaaaaaagacaaagttCgaattgatgacaaggaagaa	10	4	0	4			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr3:77526693C>T	ENST00000461745.1	+	3	1417	c.517C>T	c.(517-519)Cga>Tga	p.R173*	ROBO2_ENST00000487694.3_Nonsense_Mutation_p.R189*|ROBO2_ENST00000332191.8_Nonsense_Mutation_p.R173*	NM_002942.4	NP_002933.1	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2 (Drosophila)	173	Ig-like C2-type 2.				apoptotic process involved in luteolysis (GO:0061364)|axon guidance (GO:0007411)|axon midline choice point recognition (GO:0016199)|brain development (GO:0007420)|cellular response to hormone stimulus (GO:0032870)|central nervous system development (GO:0007417)|homophilic cell adhesion (GO:0007156)|metanephros development (GO:0001656)|negative regulation of negative chemotaxis (GO:0050925)|negative regulation of synapse assembly (GO:0051964)|olfactory bulb interneuron development (GO:0021891)|positive regulation of axonogenesis (GO:0050772)|retinal ganglion cell axon guidance (GO:0031290)|ureteric bud development (GO:0001657)	axolemma (GO:0030673)|cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	axon guidance receptor activity (GO:0008046)|identical protein binding (GO:0042802)			NS(1)|biliary_tract(5)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(23)|liver(1)|lung(52)|ovary(2)|pancreas(2)|prostate(5)|skin(8)|upper_aerodigestive_tract(1)	117				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		AGACAAAGTTCGAATTGATGA	0.423																																																0													66	66	66					3																	77526693		1826	4079	5905	SO:0001587	stop_gained	6092			AF040991	CCDS43109.1, CCDS54609.1	3p12.3	2013-02-11	2001-11-28		ENSG00000185008	ENSG00000185008		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	10250	protein-coding gene	gene with protein product		602431	"roundabout (axon guidance receptor, Drosophila) homolog 2"			9458045	Standard	NM_002942		Approved	KIAA1568	uc003dpy.4	Q9HCK4	OTTHUMG00000158935	ENST00000461745.1:c.517C>T	3.37:g.77526693C>T	ENSP00000417164:p.Arg173*	Somatic		WXS	Illumina HiSeq	Phase_I	O43608|Q19AB4|Q19AB5	Nonsense_Mutation	SNP	ENST00000461745.1	37	CCDS43109.1	.	.	.	.	.	.	.	.	.	.	C	37	6.079931	0.97267	.	.	ENSG00000185008	ENST00000487694;ENST00000403211;ENST00000343019;ENST00000461745;ENST00000332191	.	.	.	5.58	5.58	0.84498	.	0.000000	0.38164	N	0.001783	.	.	.	.	.	.	0.80722	A	1.000000	.	.	.	.	.	.	.	.	.	.	0.06625	T	0.88	.	14.7339	0.69402	0.1447:0.8552:0.0:0.0	.	.	.	.	X	189;189;189;173;173	.	ENSP00000327536:R173X	R	+	1	2	ROBO2	77609383	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.043000	0.49823	2.789000	0.95967	0.655000	0.94253	CGA		0.423	ROBO2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000352600.2	XM_031246		T	77526693	C	T	77526693	4	4	624	1	0	0	0	0	0	1	0	0	13527	876	31	1	529	1	ROBO2	3	77526693	Nonsense_Mutation	SNP	C	TCGA-KL-8325-01A-11D-2310-10	40003596	77526693	120495737	10	38319										
MCM2	4171	broad.mit.edu	37	chr3	127317314	127317314	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ggatcgtggtactgctatggCggtgagcgcgctggcgcgtg	19	9	0	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr3:127317314C>T	ENST00000265056.7	+	1	249	c.5C>T	c.(4-6)gCg>gTg	p.A2V		NM_004526.2	NP_004517.2	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	2	Interaction with KAT7. {ECO:0000250}.				cell cycle (GO:0007049)|cellular response to interleukin-4 (GO:0071353)|DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA strand elongation involved in DNA replication (GO:0006271)|DNA unwinding involved in DNA replication (GO:0006268)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|nucleosome assembly (GO:0006334)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|MCM complex (GO:0042555)|microtubule cytoskeleton (GO:0015630)|nuclear origin of replication recognition complex (GO:0005664)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)|DNA replication origin binding (GO:0003688)|metal ion binding (GO:0046872)			ovary(3)|skin(2)|stomach(1)	6						ACTGCTATGGCGGTGAGCGCG	0.692																																																0													68	62	64					3																	127317314		2201	4300	6501	SO:0001630	splice_region_variant	4171			X67334	CCDS3043.1	3q21	2007-04-04	2007-04-04		ENSG00000073111	ENSG00000073111			6944	protein-coding gene	gene with protein product	"mitotin"	116945	"minichromosome maintenance deficient (S. cerevisiae) 2 (mitotin)", "MCM2 minichromosome maintenance deficient 2, mitotin (S. cerevisiae)"	CCNL1, CDCL1		1710453, 8258304	Standard	NM_004526		Approved	D3S3194, KIAA0030, BM28, cdc19	uc003ejp.4	P49736	OTTHUMG00000159637	ENST00000265056.7:c.6+1C>T	3.37:g.127317314C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14577|Q15023|Q8N2V1|Q969W7|Q96AE1|Q9BRM7	Missense_Mutation	SNP	ENST00000265056.7	37	CCDS3043.1	.	.	.	.	.	.	.	.	.	.	C	19.84	3.902057	0.72754	.	.	ENSG00000073111	ENST00000265056;ENST00000539922;ENST00000543142	T	0.02345	4.33	4.09	4.09	0.47781	.	1.936480	0.03942	U	0.287041	T	0.06735	0.0172	N	0.08118	0	0.50171	D	0.999859	D	0.76494	0.999	D	0.65874	0.939	T	0.44065	-0.9352	10	0.59425	D	0.04	-0.0334	12.1747	0.54178	0.0:1.0:0.0:0.0	.	2	P49736	MCM2_HUMAN	V	2	ENSP00000265056:A2V	ENSP00000265056:A2V	A	+	2	0	MCM2	128800004	1.000000	0.71417	1.000000	0.80357	0.212000	0.24457	4.102000	0.57776	1.998000	0.58463	0.484000	0.47621	GCG		0.692	MCM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356612.1		Missense_Mutation	T	127317314	C	T	127317314	5	4	624	1	0	0	0	0	0	0	1	0	9393	782	27	1	7	1	MCM2	3	127317314	Splice_Site	SNP	C	TCGA-KL-8325-01A-11D-2310-10	49790621	127317314	70705116	11	38320										
MECOM	2122	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	168834235	168834235	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ggaaaggtaagaccagcaggAtgcctattggcgccaaaata	12	8	0	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr3:168834235A>C	ENST00000464456.1	-	7	2061	c.861T>G	c.(859-861)caT>caG	p.H287Q	MECOM_ENST00000468789.1_Missense_Mutation_p.H287Q|MECOM_ENST00000472280.1_Missense_Mutation_p.H288Q|MECOM_ENST00000460814.1_Missense_Mutation_p.H287Q|MECOM_ENST00000392736.3_Missense_Mutation_p.H287Q|MECOM_ENST00000494292.1_Missense_Mutation_p.H475Q|MECOM_ENST00000433243.2_Missense_Mutation_p.H288Q|MECOM_ENST00000264674.3_Missense_Mutation_p.H352Q	NM_001164000.1	NP_001157472.1	Q13465	MDS1_HUMAN	MDS1 and EVI1 complex locus	0					regulation of transcription, DNA-templated (GO:0006355)		sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(13)|liver(1)|lung(28)|ovary(2)|pancreas(1)|prostate(2)|skin(12)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(4)	85						GACCAGCAGGATGCCTATTGG	0.493																																																0													328	284	299					3																	168834235		2203	4300	6503	SO:0001583	missense	2122			S82592, AF164154	CCDS3205.1, CCDS54669.1, CCDS54670.1	3q26.2	2013-01-08	2009-08-07	2009-08-07	ENSG00000085276	ENSG00000085276		"Zinc fingers, C2H2-type"	3498	protein-coding gene	gene with protein product		165215	"myelodysplasia syndrome 1", "ecotropic viral integration site 1"	MDS1, EVI1		2115646, 8171026, 8643684	Standard	NM_001105077		Approved	MDS1-EVI1, PRDM3	uc011bpj.1	Q03112	OTTHUMG00000158596	ENST00000464456.1:c.861T>G	3.37:g.168834235A>C	ENSP00000419770:p.His287Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q13466|Q6FH90	Missense_Mutation	SNP	ENST00000464456.1	37	CCDS54669.1	.	.	.	.	.	.	.	.	.	.	A	13.02	2.111995	0.37242	.	.	ENSG00000085276	ENST00000264674;ENST00000392736;ENST00000464456;ENST00000472280;ENST00000494292;ENST00000468789;ENST00000460814;ENST00000433243	T;T;T;T;T;T;T;T	0.06449	3.36;3.34;3.31;3.45;3.3;3.34;3.3;3.45	6.03	2.42	0.29668	.	0.000000	0.64402	D	0.000001	T	0.17704	0.0425	L	0.57536	1.79	0.53688	D	0.999976	D;D;D;D;D	0.89917	1.0;1.0;0.999;1.0;0.999	D;D;D;D;D	0.83275	0.996;0.996;0.991;0.996;0.991	T	0.00119	-1.2031	10	0.49607	T	0.09	-13.3669	9.5611	0.39369	0.8039:0.0:0.1961:0.0	.	475;288;475;352;287	Q03112-3;Q03112-6;E7EQ57;Q03112-4;Q03112	.;.;.;.;EVI1_HUMAN	Q	352;287;287;288;475;287;287;288	ENSP00000264674:H352Q;ENSP00000376493:H287Q;ENSP00000419770:H287Q;ENSP00000420048:H288Q;ENSP00000417899:H475Q;ENSP00000419995:H287Q;ENSP00000420466:H287Q;ENSP00000394302:H288Q	ENSP00000264674:H352Q	H	-	3	2	MECOM	170316929	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	2.789000	0.47813	0.187000	0.20147	-0.250000	0.11733	CAT		0.493	MECOM-020	NOVEL	basic|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000351519.1	NM_005241, NM_004991		C	168834235	A	C	168834235	3	2	624	1	0	0	0	0	1	0	0	0	9429	330	12	5	2334	5	MECOM	3	168834235	Missense_Mutation	SNP	A	TCGA-KL-8325-01A-11D-2310-10	41516921	168834235	29188195	12	38321										
MCF2L2	23101	broad.mit.edu	37	chr3	183028733	183028733	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tcgtgctcaaaatgctgtagTtgtaggcactggttaagctt	11	7	1	0			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr3:183028733T>C	ENST00000328913.3	-	9	1260	c.963A>G	c.(961-963)caA>caG	p.Q321Q	MCF2L2_ENST00000447025.2_Silent_p.Q321Q|MCF2L2_ENST00000414362.2_Silent_p.Q321Q|MCF2L2_ENST00000473233.1_Silent_p.Q321Q	NM_015078.2	NP_055893	Q86YR7	MF2L2_HUMAN	MCF.2 cell line derived transforming sequence-like 2	321							Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(2)|endometrium(5)|kidney(4)|large_intestine(22)|lung(25)|ovary(3)|prostate(4)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	72	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			AATGCTGTAGTTGTAGGCACT	0.393																																																0													112	109	110					3																	183028733		2203	4300	6503	SO:0001819	synonymous_variant	23101			AB020668	CCDS3243.1	3q27	2012-07-24			ENSG00000053524	ENSG00000053524		"Rho guanine nucleotide exchange factors"	30319	protein-coding gene	gene with protein product							Standard	NM_015078		Approved	KIAA0861, ARHGEF22	uc003fli.1	Q86YR7	OTTHUMG00000158388	ENST00000328913.3:c.963A>G	3.37:g.183028733T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O94942|Q6P2B8|Q6ZVJ5|Q8N318	Silent	SNP	ENST00000328913.3	37	CCDS3243.1																																																																																				0.393	MCF2L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350868.1	NM_015078		C	183028733	T	C	183028733	2	2	624	1	0	0	0	0	0	0	0	1	9387	1722	60	3		3	MCF2L2	3	183028733	Silent	SNP	T	TCGA-KL-8325-01A-11D-2310-10	14194498	183028733	14993697	13	38322										
ETV5	2119	broad.mit.edu	37	chr3	185783822	185783822	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ccaggaactcctggctgaggAgggaaggggtggcagggttc	19	8	0	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr3:185783822A>G	ENST00000306376.5	-	8	936	c.690T>C	c.(688-690)ccT>ccC	p.P230P	ETV5_ENST00000480706.1_5'Flank|ETV5_ENST00000537818.1_Silent_p.P272P|ETV5_ENST00000434744.1_Silent_p.P230P	NM_004454.2	NP_004445.1	P41161	ETV5_HUMAN	ets variant 5	230					cell differentiation (GO:0030154)|cellular response to oxidative stress (GO:0034599)|locomotory behavior (GO:0007626)|male germ-line stem cell asymmetric division (GO:0048133)|neuromuscular synaptic transmission (GO:0007274)|positive regulation of glial cell proliferation (GO:0060252)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of branching involved in mammary gland duct morphogenesis (GO:0060762)|regulation of synapse organization (GO:0050807)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|skeletal muscle acetylcholine-gated channel clustering (GO:0071340)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|cervix(1)|large_intestine(7)|lung(9)|ovary(2)|prostate(1)|skin(4)|upper_aerodigestive_tract(2)	28	all_cancers(143;4.06e-12)|Ovarian(172;0.0386)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.62e-24)			CTGGCTGAGGAGGGAAGGGGT	0.488			T	"TMPRSS2, SCL45A3"	Prostate																																		Dom	yes		3	3q28	2119	ets variant gene 5		E	0													66	73	71					3																	185783822		2203	4300	6503	SO:0001819	synonymous_variant	2119			BC007333	CCDS33906.1	3q28	2008-09-12	2008-09-12		ENSG00000244405	ENSG00000244405			3494	protein-coding gene	gene with protein product	"ets-related molecule"	601600	"ets variant gene 5 (ets-related molecule)"			8152800	Standard	NM_004454		Approved	ERM	uc003fpz.3	P41161	OTTHUMG00000156639	ENST00000306376.5:c.690T>C	3.37:g.185783822A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NH46|B7Z7D7|Q6IBN5	Silent	SNP	ENST00000306376.5	37	CCDS33906.1																																																																																				0.488	ETV5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344947.1	NM_004454		G	185783822	A	G	185783822	2	3	624	1	0	0	0	0	0	0	0	1	5284	291	11	3		3	ETV5	3	185783822	Silent	SNP	A	TCGA-KL-8325-01A-11D-2310-10	2755089	185783822	12238608	14	38323										
ANKRD17	26057	hgsc.bcm.edu	37	chr4	73956951	73956951	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	aggaacagtcattctaacttCcgggggaggaacctgagact	12	9	2	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr4:73956951C>T	ENST00000358602.4	-	29	6510	c.6394G>A	c.(6394-6396)Gaa>Aaa	p.E2132K	ANKRD17_ENST00000330838.6_Missense_Mutation_p.E1881K|ANKRD17_ENST00000509867.2_Missense_Mutation_p.E2019K	NM_032217.3	NP_115593.3	O75179	ANR17_HUMAN	ankyrin repeat domain 17	2132					blood vessel maturation (GO:0001955)|negative regulation of smooth muscle cell differentiation (GO:0051151)|viral process (GO:0016032)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			NS(3)|breast(2)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(15)|lung(39)|ovary(6)|pancreas(1)|prostate(3)|skin(5)|upper_aerodigestive_tract(3)	96	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			ATTCTAACTTCCGGGGGAGGA	0.517																																																0													115	121	119					4																	73956951		2203	4300	6503	SO:0001583	missense	26057			AB014597	CCDS34003.1, CCDS34004.1, CCDS68721.1	4q21.1-q21.21	2013-01-10			ENSG00000132466	ENSG00000132466		"Ankyrin repeat domain containing"	23575	protein-coding gene	gene with protein product		615929				11165478	Standard	NM_032217		Approved	GTAR, KIAA0697, FLJ22206, NY-BR-16	uc003hgp.3	O75179	OTTHUMG00000160826	ENST00000358602.4:c.6394G>A	4.37:g.73956951C>T	ENSP00000351416:p.Glu2132Lys	Somatic		WXS	Illumina HiSeq	Phase_I	E7EUV3|G5E964|Q6PJ85|Q6PK85|Q6PKA2|Q86XI3|Q8NDR5|Q96I86|Q9H288|Q9H6J9	Missense_Mutation	SNP	ENST00000358602.4	37	CCDS34004.1	.	.	.	.	.	.	.	.	.	.	C	7.126	0.578957	0.13686	.	.	ENSG00000132466	ENST00000358602;ENST00000426990;ENST00000330838;ENST00000509867;ENST00000426917	T;T;T	0.65364	-0.15;-0.12;-0.12	5.17	5.17	0.71159	.	0.392312	0.24368	N	0.039137	T	0.42404	0.1201	N	0.08118	0	0.26174	N	0.979828	B;B;B;B	0.25809	0.135;0.135;0.083;0.008	B;B;B;B	0.21917	0.037;0.037;0.016;0.004	T	0.40421	-0.9564	10	0.48119	T	0.1	.	13.7865	0.63112	0.1532:0.8468:0.0:0.0	.	2131;1881;2132;2019	O75179-2;G5E964;O75179;E7EUV3	.;.;ANR17_HUMAN;.	K	2132;1539;1881;2019;516	ENSP00000351416:E2132K;ENSP00000332265:E1881K;ENSP00000427151:E2019K	ENSP00000332265:E1881K	E	-	1	0	ANKRD17	74175815	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	5.190000	0.65104	2.694000	0.91930	0.650000	0.86243	GAA		0.517	ANKRD17-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000362475.1	NM_032217		T	73956951	C	T	73956951	3	4	624	1	0	0	0	0	1	0	0	0	646	864	30	2	1441	2	ANKRD17	4	73956951	Missense_Mutation	SNP	C	TCGA-KL-8325-01A-11D-2310-10		73956951	117197325	15	38324										
IRX2	153572	ucsc.edu	37	chr5	2748604	2748604	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gcagagttgtaccgcaggagAccctggccctgcagcgccgc	14	15	0	2			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr5:2748604A>G	ENST00000382611.6	-	3	1466	c.1218T>C	c.(1216-1218)ggT>ggC	p.G406G	IRX2_ENST00000302057.5_Silent_p.G406G|IRX2_ENST00000502957.1_5'Flank	NM_001134222.1	NP_001127694.1	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	406					proximal/distal pattern formation involved in metanephric nephron development (GO:0072272)|regulation of transcription, DNA-templated (GO:0006355)|specification of loop of Henle identity (GO:0072086)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)			breast(1)|central_nervous_system(3)|endometrium(4)|kidney(1)|large_intestine(2)|lung(12)|prostate(1)|skin(2)	26				GBM - Glioblastoma multiforme(108;0.204)		ACCGCAGGAGACCCTGGCCCT	0.721																																																0													30	31	30					5																	2748604		2183	4282	6465	SO:0001819	synonymous_variant	153572			AF319967	CCDS3868.1	5p15.33	2011-06-20	2007-07-13		ENSG00000170561	ENSG00000170561		"Homeoboxes / TALE class"	14359	protein-coding gene	gene with protein product		606198				11435706	Standard	NM_033267		Approved		uc003jdb.3	Q9BZI1	OTTHUMG00000090377	ENST00000382611.6:c.1218T>C	5.37:g.2748604A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q68A19|Q7Z2I7	Silent	SNP	ENST00000382611.6	37	CCDS3868.1																																																																																				0.721	IRX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206749.2			G	2748604	A	G	2748604	2	3	624	1	0	0	0	0	0	0	0	1	7851	262	10	3		3	IRX2	5	2748604	Silent	SNP	A	TCGA-KL-8325-01A-11D-2310-10		2748604	178166656	16	38325										
NIPBL	25836	bcgsc.ca	37	chr5	37016193	37016193	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	accactgtttgaaaattttgTtcaagaccttctttcaacag	5	9	3	2			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr5:37016193T>C	ENST00000282516.8	+	23	5196	c.4697T>C	c.(4696-4698)gTt>gCt	p.V1566A	NIPBL_ENST00000448238.2_Missense_Mutation_p.V1566A	NM_015384.4|NM_133433.3	NP_056199.2|NP_597677.2	Q6KC79	NIPBL_HUMAN	Nipped-B homolog (Drosophila)	1566					brain development (GO:0007420)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to X-ray (GO:0071481)|cognition (GO:0050890)|developmental growth (GO:0048589)|ear morphogenesis (GO:0042471)|embryonic digestive tract morphogenesis (GO:0048557)|embryonic forelimb morphogenesis (GO:0035115)|embryonic viscerocranium morphogenesis (GO:0048703)|external genitalia morphogenesis (GO:0035261)|eye morphogenesis (GO:0048592)|face morphogenesis (GO:0060325)|fat cell differentiation (GO:0045444)|forelimb morphogenesis (GO:0035136)|gall bladder development (GO:0061010)|heart morphogenesis (GO:0003007)|maintenance of mitotic sister chromatid cohesion (GO:0034088)|metanephros development (GO:0001656)|mitotic cell cycle (GO:0000278)|mitotic sister chromatid cohesion (GO:0007064)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|outflow tract morphogenesis (GO:0003151)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of multicellular organism growth (GO:0040018)|positive regulation of ossification (GO:0045778)|regulation of developmental growth (GO:0048638)|regulation of embryonic development (GO:0045995)|regulation of hair cycle (GO:0042634)|sensory perception of sound (GO:0007605)|stem cell maintenance (GO:0019827)|uterus morphogenesis (GO:0061038)	extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SMC loading complex (GO:0032116)	chromatin binding (GO:0003682)|chromo shadow domain binding (GO:0070087)|histone deacetylase binding (GO:0042826)|protein C-terminus binding (GO:0008022)|protein N-terminus binding (GO:0047485)			autonomic_ganglia(1)|breast(4)|endometrium(9)|kidney(22)|large_intestine(21)|liver(1)|lung(47)|ovary(7)|pancreas(1)|prostate(1)|skin(7)|upper_aerodigestive_tract(3)|urinary_tract(4)	128	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			GAAAATTTTGTTCAAGACCTT	0.378																																																0													101	94	97					5																	37016193		2203	4300	6503	SO:0001583	missense	25836			AB019494	CCDS3920.1, CCDS47198.1	5p13.2	2009-08-28			ENSG00000164190	ENSG00000164190			28862	protein-coding gene	gene with protein product	"sister chromatid cohesion 2 homolog (yeast)"	608667				15146186, 15146185	Standard	NM_133433		Approved	IDN3, DKFZp434L1319, FLJ11203, FLJ12597, FLJ13354, FLJ13648, Scc2	uc003jkl.4	Q6KC79	OTTHUMG00000090795	ENST00000282516.8:c.4697T>C	5.37:g.37016193T>C	ENSP00000282516:p.Val1566Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6KCD6|Q6N080|Q6ZT92|Q7Z2E6|Q8N4M5|Q9Y6Y3|Q9Y6Y4	Missense_Mutation	SNP	ENST00000282516.8	37	CCDS3920.1	.	.	.	.	.	.	.	.	.	.	T	26.8	4.774543	0.90108	.	.	ENSG00000164190	ENST00000282516;ENST00000448238	T;T	0.67698	-0.28;-0.28	5.97	5.97	0.96955	Armadillo-like helical (1);Armadillo-type fold (1);	0.064966	0.64402	D	0.000012	T	0.72930	0.3522	M	0.81802	2.56	0.58432	D	0.999996	P;P	0.45212	0.77;0.853	B;B	0.43536	0.242;0.423	T	0.78275	-0.2267	10	0.87932	D	0	.	16.4534	0.84003	0.0:0.0:0.0:1.0	.	1566;1566	Q6KC79;Q6KC79-2	NIPBL_HUMAN;.	A	1566	ENSP00000282516:V1566A;ENSP00000406266:V1566A	ENSP00000282516:V1566A	V	+	2	0	NIPBL	37051950	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.694000	0.84235	2.285000	0.76669	0.477000	0.44152	GTT		0.378	NIPBL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207582.1	NM_015384		C	37016193	T	C	37016193	3	2	624	1	0	0	0	0	1	0	0	0	10435	1725	60	3	4783	3	NIPBL	5	37016193	Missense_Mutation	SNP	T	TCGA-KL-8325-01A-11D-2310-10	34267589	37016193	143899067	17	38326										
SKIV2L2	23517	broad.mit.edu	37	chr5	54654428	54654428	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctggtgaatacattcagatgTctggtcgtgctggaaggaga	14	6	2	3			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr5:54654428T>C	ENST00000230640.5	+	15	1815	c.1561T>C	c.(1561-1563)Tct>Cct	p.S521P	SKIV2L2_ENST00000545714.1_Missense_Mutation_p.S420P	NM_015360.4	NP_056175.3	P42285	SK2L2_HUMAN	superkiller viralicidic activity 2-like 2 (S. cerevisiae)	521	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				maturation of 5.8S rRNA (GO:0000460)|mRNA splicing, via spliceosome (GO:0000398)	catalytic step 2 spliceosome (GO:0071013)|nucleus (GO:0005634)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|poly(A) RNA binding (GO:0044822)			NS(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(5)|lung(12)|ovary(1)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	41		Lung NSC(810;0.000744)|Breast(144;0.181)|Prostate(74;0.194)				CATTCAGATGTCTGGTCGTGC	0.323																																					Melanoma(2;92 134 23744 29976 33782)											0													97	96	96					5																	54654428		2203	4300	6503	SO:0001583	missense	23517			D29641	CCDS3967.1	5q11.2	2008-11-25	2005-02-18	2005-02-18	ENSG00000039123	ENSG00000039123			18734	protein-coding gene	gene with protein product	"functional spliceosome-associated protein 118"		"KIAA0052"	KIAA0052			Standard	NM_015360		Approved	Mtr4, Dob1, fSAP118	uc003jpy.4	P42285	OTTHUMG00000097019	ENST00000230640.5:c.1561T>C	5.37:g.54654428T>C	ENSP00000230640:p.Ser521Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M386|Q6MZZ8|Q6P170|Q8N5R0|Q8TAG2	Missense_Mutation	SNP	ENST00000230640.5	37	CCDS3967.1	.	.	.	.	.	.	.	.	.	.	T	28.7	4.942479	0.92526	.	.	ENSG00000039123	ENST00000230640;ENST00000545714	T;T	0.44083	0.93;0.93	5.96	5.96	0.96718	Helicase, C-terminal (3);	0.000000	0.85682	D	0.000000	T	0.73860	0.3641	M	0.93898	3.47	0.80722	D	1	D;D	0.71674	0.997;0.998	D;D	0.79784	0.943;0.993	T	0.81473	-0.0917	10	0.87932	D	0	-16.8786	16.4484	0.83959	0.0:0.0:0.0:1.0	.	420;521	F5H7E2;P42285	.;SK2L2_HUMAN	P	521;420	ENSP00000230640:S521P;ENSP00000442583:S420P	ENSP00000230640:S521P	S	+	1	0	SKIV2L2	54690185	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.957000	0.87870	2.285000	0.76669	0.533000	0.62120	TCT		0.323	SKIV2L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214108.1			C	54654428	T	C	54654428	3	2	624	1	0	0	0	0	1	0	0	0	14373	1667	58	3	1619	3	SKIV2L2	5	54654428	Missense_Mutation	SNP	T	TCGA-KL-8325-01A-11D-2310-10	17638235	54654428	126260832	18	38327										
SFRS12IP1	285672	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr5	64023984	64023984	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tctttgcttttttctttcttCttttcctcttcttcatttat	1	10	7	0	rs578186041	byFrequency	TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr5:64023984C>A	ENST00000513458.4	-	4	395	c.228G>T	c.(226-228)aaG>aaT	p.K76N		NM_173829.3	NP_776190.1	Q8N9Q2	SR1IP_HUMAN	SREK1-interacting protein 1	76	Lys-rich.				mRNA processing (GO:0006397)|RNA splicing (GO:0008380)		nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)			breast(1)|endometrium(1)|large_intestine(3)|ovary(1)	6						tttctttcttcttttcctctt	0.274																																																0													18	21	20					5																	64023984		2157	4236	6393	SO:0001583	missense	285672			AK094073	CCDS34171.1	5q12.3	2010-09-20	2010-09-20	2010-09-20	ENSG00000153006	ENSG00000153006			26716	protein-coding gene	gene with protein product	"p18 splicing regulatory protein"		"SFRS12-interacting protein 1"	SFRS12IP1		15456940	Standard	NM_173829		Approved	FLJ36754, P18SRP	uc003jtk.3	Q8N9Q2	OTTHUMG00000162291	ENST00000513458.4:c.228G>T	5.37:g.64023984C>A	ENSP00000427401:p.Lys76Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q32NC8	Missense_Mutation	SNP	ENST00000513458.4	37	CCDS34171.1	.	.	.	.	.	.	.	.	.	.	C	14.11	2.437539	0.43224	.	.	ENSG00000153006	ENST00000513458	.	.	.	4.07	3.12	0.35913	.	0.194626	0.53938	D	0.000051	T	0.56963	0.2021	M	0.68593	2.085	0.40136	D	0.976778	B	0.22414	0.069	B	0.19946	0.027	T	0.63747	-0.6567	9	0.72032	D	0.01	-9.3035	9.1429	0.36914	0.0:0.7764:0.2236:0.0	.	76	Q8N9Q2	SR1IP_HUMAN	N	76	.	ENSP00000427401:K76N	K	-	3	2	SREK1IP1	64059740	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	1.683000	0.37638	2.266000	0.75297	0.655000	0.94253	AAG		0.274	SREK1IP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368457.4	NM_173829		A	64023984	C	A	64023984	3	1	624	1	0	0	0	0	1	0	0	0	14181	912	32	4	247	4	SFRS12IP1	5	64023984	Missense_Mutation	SNP	C	TCGA-KL-8325-01A-11D-2310-10	9369556	64023984	116891276	19	38328										
PCDHA8	56140	broad.mit.edu;mdanderson.org	37	chr5	140221819	140221819	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	atacgggagaaatagtgattCggggtaatttggattttgaa	13	2	0	3			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr5:140221819C>T	ENST00000531613.1	+	1	913	c.913C>T	c.(913-915)Cgg>Tgg	p.R305W	PCDHA6_ENST00000527624.1_Intron|PCDHA1_ENST00000394633.3_Intron|PCDHA1_ENST00000504120.2_Intron|PCDHA4_ENST00000530339.1_Intron|PCDHA5_ENST00000529619.1_Intron|PCDHA8_ENST00000378123.3_Missense_Mutation_p.R305W|PCDHA4_ENST00000512229.2_Intron|PCDHA2_ENST00000526136.1_Intron|PCDHA5_ENST00000529859.1_Intron|PCDHA6_ENST00000529310.1_Intron|PCDHA3_ENST00000522353.2_Intron|PCDHA7_ENST00000525929.1_Intron	NM_018911.2	NP_061734.1	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8	305	Cadherin 3. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			NS(2)|breast(3)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(10)|lung(31)|ovary(2)|prostate(2)|skin(4)|stomach(2)|upper_aerodigestive_tract(6)	78			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATAGTGATTCGGGGTAATTT	0.408																																																0													40	45	43					5																	140221819		2197	4296	6493	SO:0001583	missense	56140			AF152486	CCDS54919.1	5q31	2010-11-26				ENSG00000204962		"Cadherins / Protocadherins : Clustered"	8674	other	complex locus constituent	"KIAA0345-like 6"	606314				10380929	Standard	NM_018911		Approved			Q9Y5H6		ENST00000531613.1:c.913C>T	5.37:g.140221819C>T	ENSP00000434655:p.Arg305Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGT7|O75281	Missense_Mutation	SNP	ENST00000531613.1	37	CCDS54919.1	.	.	.	.	.	.	.	.	.	.	C	18.30	3.592776	0.66219	.	.	ENSG00000204962	ENST00000531613;ENST00000378123	T;T	0.01767	4.65;4.65	3.69	-3.36	0.04913	Cadherin (4);Cadherin-like (1);	3.067170	0.02200	U	0.062209	T	0.06826	0.0174	L	0.56769	1.78	0.09310	N	1	D;D	0.64830	0.994;0.993	P;P	0.61070	0.883;0.814	T	0.41980	-0.9478	10	0.38643	T	0.18	.	11.8028	0.52137	0.6764:0.2263:0.0973:0.0	.	305;305	Q9Y5H6;Q9Y5H6-2	PCDA8_HUMAN;.	W	305	ENSP00000434655:R305W;ENSP00000367363:R305W	ENSP00000367363:R305W	R	+	1	2	PCDHA8	140202003	0.000000	0.05858	0.000000	0.03702	0.488000	0.33401	-0.980000	0.03770	-0.560000	0.06102	0.456000	0.33151	CGG		0.408	PCDHA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372830.2	NM_018911		T	140221819	C	T	140221819	3	4	624	1	0	0	0	0	1	0	0	0	11537	875	31	1	915	1	PCDHA8	5	140221819	Missense_Mutation	SNP	C	TCGA-KL-8325-01A-11D-2310-10	76197835	140221819	40693441	20	38329										
FAM184A	79632	broad.mit.edu	37	chr6	119399412	119399413	+	Frame_Shift_Ins	INS	-	-	C													0	0	1	0	0	0	1	1	0	cggcgagggcgcgaatttggINSccgccgagccgccgtaatag							TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr6:119399412_119399413insC	ENST00000338891.7	-	1	495_496	c.52_53insG	c.(52-54)gccfs	p.A18fs	FAM184A_ENST00000521531.1_Frame_Shift_Ins_p.A18fs|FAM184A_ENST00000352896.5_Intron|FAM184A_ENST00000368475.4_Intron|FAM184A_ENST00000522284.1_Intron	NM_024581.4	NP_078857.5	Q8NB25	F184A_HUMAN	family with sequence similarity 184, member A	18						extracellular space (GO:0005615)				breast(2)|central_nervous_system(2)|endometrium(2)|kidney(5)|large_intestine(19)|lung(13)|ovary(2)|pancreas(1)|prostate(1)|skin(5)	52						CGCGAATTTGGCCGCCGAGCCG	0.658																																																0																																										SO:0001589	frameshift_variant	79632			BC009055	CCDS43499.1, CCDS43500.1, CCDS75508.1	6q22.31	2008-08-14	2008-08-14	2008-08-14	ENSG00000111879	ENSG00000111879			20991	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 60"	C6orf60		11230166	Standard	NM_024581		Approved	FLJ13942	uc003pyj.3	Q8NB25	OTTHUMG00000015471	ENST00000338891.7:c.53dupG	6.37:g.119399414_119399414dupC	ENSP00000342604:p.Ala18fs	Somatic		WXS	Illumina HiSeq	Phase_I	B9DI75|F8W8D6|Q5TBS9|Q7Z323|Q96GY8|Q9H0J8|Q9H851	Frame_Shift_Ins	INS	ENST00000338891.7	37	CCDS43499.1																																																																																				0.658	FAM184A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042009.3	NM_024581		C	119399413	-	C	119399412	7	5	624	1	0	1	1	0	0	0	0	0	5515	1203	42	0	3441	0	FAM184A	6	119399412	Frame_Shift_Ins	INS	-	TCGA-KL-8325-01A-11D-2310-10		119399412	51715655	21	38330										
FAM20C	56975	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	208958	208958	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cttccagaattacgggcaagCgctgttcaaacccatgaagt	9	11	1	2			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr7:208958C>T	ENST00000313766.5	+	3	1076	c.845C>T	c.(844-846)gCg>gTg	p.A282V		NM_020223.3	NP_064608.2	Q8IXL6	DMP4_HUMAN	family with sequence similarity 20, member C	282				MTFQNYGQALFKPMK -> FLSDKPFLFLSCFLR (in Ref. 6; CAB99089). {ECO:0000305}.	dentinogenesis (GO:0097187)|enamel mineralization (GO:0070166)|odontoblast differentiation (GO:0071895)|osteoclast maturation (GO:0036179)|positive regulation of bone mineralization (GO:0030501)|positive regulation of osteoblast differentiation (GO:0045669)|protein phosphorylation (GO:0006468)|regulation of fibroblast growth factor receptor signaling pathway (GO:0040036)|regulation of phosphorus metabolic process (GO:0051174)|skeletal system development (GO:0001501)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)	calcium ion binding (GO:0005509)|protein serine/threonine kinase activity (GO:0004674)			endometrium(1)|lung(2)|urinary_tract(1)	4		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)		TACGGGCAAGCGCTGTTCAAA	0.627																																																0													56	59	58					7																	208958		2062	4183	6245	SO:0001583	missense	56975			BC040074	CCDS47522.1	7p22.3	2012-11-29			ENSG00000177706	ENSG00000177706			22140	protein-coding gene	gene with protein product	"dentin matrix protein 4"	611061				17369251, 17924334	Standard	NM_020223		Approved	IMAGE:4942737, DKFZp547D065, DMP4	uc003sip.3	Q8IXL6	OTTHUMG00000151401	ENST00000313766.5:c.845C>T	7.37:g.208958C>T	ENSP00000322323:p.Ala282Val	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2Q5|L8B5W8|Q5I0W9|Q7Z4I0|Q9NPT2	Missense_Mutation	SNP	ENST00000313766.5	37	CCDS47522.1	.	.	.	.	.	.	.	.	.	.	C	17.88	3.496368	0.64186	.	.	ENSG00000177706	ENST00000313766	D	0.89617	-2.54	5.23	5.23	0.72850	.	0.300145	0.21112	N	0.079975	D	0.92668	0.7670	L	0.55990	1.75	0.80722	D	1	D	0.89917	1.0	D	0.69479	0.964	D	0.91794	0.5446	10	0.39692	T	0.17	.	17.5659	0.87919	0.0:1.0:0.0:0.0	.	282	Q8IXL6	DMP4_HUMAN	V	282	ENSP00000322323:A282V	ENSP00000322323:A282V	A	+	2	0	FAM20C	304041	1.000000	0.71417	0.958000	0.39756	0.536000	0.34869	4.838000	0.62803	2.439000	0.82584	0.655000	0.94253	GCG		0.627	FAM20C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322476.2	NM_020223		T	208958	C	T	208958	3	4	624	1	0	0	0	0	1	0	0	0	5543	768	27	1	855	1	FAM20C	7	208958	Missense_Mutation	SNP	C	TCGA-KL-8325-01A-11D-2310-10		208958	158929705	22	38331										
FKBP9	11328	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr7	33028128	33028128	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	ttcttttctagctactctcgGaaccgcacgtttgacacgta	7	12	3	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr7:33028128G>A	ENST00000242209.4	+	6	1072	c.903G>A	c.(901-903)cgG>cgA	p.R301R	FKBP9_ENST00000538336.1_Silent_p.R354R|FKBP9_ENST00000490776.2_Silent_p.R69R|AVL9_ENST00000404479.1_Intron|FKBP9_ENST00000489038.1_3'UTR|FKBP9_ENST00000538443.1_Silent_p.R163R	NM_001284343.1|NM_007270.3	NP_001271272.1|NP_009201.2	O95302	FKBP9_HUMAN	FK506 binding protein 9, 63 kDa	301	PPIase FKBP-type 3. {ECO:0000255|PROSITE- ProRule:PRU00277}.				chaperone-mediated protein folding (GO:0061077)|protein folding (GO:0006457)|protein peptidyl-prolyl isomerization (GO:0000413)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)	calcium ion binding (GO:0005509)|FK506 binding (GO:0005528)|peptidyl-prolyl cis-trans isomerase activity (GO:0003755)			central_nervous_system(13)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(6)|lung(9)|ovary(2)|upper_aerodigestive_tract(1)	39			GBM - Glioblastoma multiforme(11;0.0156)			GCTACTCTCGGAACCGCACGT	0.483																																																0													130	118	122					7																	33028128		2203	4300	6503	SO:0001819	synonymous_variant	11328			AF089745	CCDS5439.1, CCDS64622.1, CCDS64623.1	7p11.1	2013-01-10	2002-08-29		ENSG00000122642	ENSG00000122642		"EF-hand domain containing"	3725	protein-coding gene	gene with protein product			"FK506-binding protein 9 (63 kD)"			12036304	Standard	NM_007270		Approved	FKBP60, FKBP63	uc003tdh.3	O95302	OTTHUMG00000097847	ENST00000242209.4:c.903G>A	7.37:g.33028128G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KY35|B7Z1G9|B7Z6H3|Q2M2A1|Q3MIR7|Q6IN76|Q6P2N1|Q96EX5|Q96IJ9	Silent	SNP	ENST00000242209.4	37	CCDS5439.1																																																																																				0.483	FKBP9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215137.1	NM_007270		A	33028128	G	A	33028128	2	1	624	1	0	0	0	0	0	0	0	1	5922	1161	41	2		2	FKBP9	7	33028128	Silent	SNP	G	TCGA-KL-8325-01A-11D-2310-10	32819170	33028128	126110535	23	38332										
UPK3B	80761	hgsc.bcm.edu	37	chr7	76144557	76144557	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tggggctgggggagatggggCgctgggagtgagtgcatggt	24	4	0	2	rs376925113		TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr7:76144557C>G	ENST00000257632.5	+	4	1080	c.952C>G	c.(952-954)Cgc>Ggc	p.R318G	UPK3B_ENST00000394849.1_Missense_Mutation_p.R263G|UPK3B_ENST00000448265.3_Missense_Mutation_p.R318G|UPK3B_ENST00000443097.2_3'UTR|UPK3B_ENST00000334348.3_3'UTR|UPK3B_ENST00000419923.2_Missense_Mutation_p.R318G			Q9BT76	UPK3B_HUMAN	uroplakin 3B	318					negative regulation of gene expression (GO:0010629)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(1)|central_nervous_system(2)|kidney(1)|large_intestine(1)|lung(1)|skin(2)	8		Myeloproliferative disorder(862;0.204)				GGAGATGGGGCGCTGGGAGTG	0.697													.|||	1	0.000199681	0.0008	0.0	5008	,	,		14305	0.0		0.0	False		,,,				2504	0.0															0													12	13	13					7																	76144557		2193	4284	6477	SO:0001583	missense	80761			BC004304	CCDS5588.1, CCDS5589.1, CCDS64693.1	7q11.2	2003-07-29			ENSG00000243566	ENSG00000243566			21444	protein-coding gene	gene with protein product	"uroplakin IIIb"	611887				12446744	Standard	XM_005250612		Approved	MGC10902, p35, UPIIIb, FLJ32198	uc003ufq.3	Q9BT76	OTTHUMG00000149929	ENST00000257632.5:c.952C>G	7.37:g.76144557C>G	ENSP00000257632:p.Arg318Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHH5|A8K231|A8MZA8|B3KPU5|Q75MM5|Q86W06	Missense_Mutation	SNP	ENST00000257632.5	37	CCDS5588.1	.	.	.	.	.	.	.	.	.	.	.	6.900	0.535551	0.13188	.	.	ENSG00000243566	ENST00000419923;ENST00000448265;ENST00000257632;ENST00000394849	T;T;T;T	0.38560	1.13;1.13;1.13;1.21	2.57	-5.13	0.02884	.	1.939240	0.02462	N	0.086707	T	0.20333	0.0489	N	0.08118	0	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.12553	-1.0543	10	0.87932	D	0	-0.2282	1.9041	0.03273	0.1404:0.4598:0.1916:0.2082	.	263;318	Q9BT76-2;Q9BT76	.;UPK3B_HUMAN	G	318;318;318;263	ENSP00000441602:R318G;ENSP00000441284:R318G;ENSP00000257632:R318G;ENSP00000378319:R263G	ENSP00000257632:R318G	R	+	1	0	UPK3B	75982493	0.000000	0.05858	0.000000	0.03702	0.012000	0.07955	-1.998000	0.01469	-1.903000	0.01093	-0.676000	0.03789	CGC		0.697	UPK3B-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000313978.2	NM_030570		G	76144557	C	G	76144557	3	3	624	1	0	0	0	0	1	0	0	0	17023	768	27	4	1050	4	UPK3B	7	76144557	Missense_Mutation	SNP	C	TCGA-KL-8325-01A-11D-2310-10	43116429	76144557	82994106	24	38333										
NKX3-1	4824	broad.mit.edu	37	chr8	23538897	23538897	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	gctccgaggagagctgctttCgcttagtcttatagcgtctg	12	10	2	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr8:23538897C>T	ENST00000380871.4	-	2	579	c.542G>A	c.(541-543)cGa>cAa	p.R181Q	NKX3-1_ENST00000523261.1_Missense_Mutation_p.R106Q	NM_006167.3	NP_006158.2	Q99801	NKX31_HUMAN	NK3 homeobox 1	181					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|androgen receptor signaling pathway (GO:0030521)|branching involved in prostate gland morphogenesis (GO:0060442)|branching morphogenesis of an epithelial tube (GO:0048754)|cellular response to drug (GO:0035690)|cellular response to hypoxia (GO:0071456)|cellular response to interleukin-1 (GO:0071347)|cellular response to steroid hormone stimulus (GO:0071383)|cellular response to tumor necrosis factor (GO:0071356)|dorsal aorta development (GO:0035907)|epithelial cell proliferation involved in salivary gland morphogenesis (GO:0060664)|heart development (GO:0007507)|male gonad development (GO:0008584)|metanephros development (GO:0001656)|mitotic cell cycle arrest (GO:0071850)|multicellular organismal development (GO:0007275)|negative regulation of cell proliferation (GO:0008285)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of epithelial cell proliferation involved in prostate gland development (GO:0060770)|negative regulation of estrogen receptor binding (GO:0071899)|negative regulation of gene expression (GO:0010629)|negative regulation of insulin-like growth factor receptor signaling pathway (GO:0043569)|negative regulation of mitotic cell cycle (GO:0045930)|negative regulation of transcription, DNA-templated (GO:0045892)|pharyngeal system development (GO:0060037)|positive regulation of androgen secretion (GO:2000836)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell death (GO:0010942)|positive regulation of cell division (GO:0051781)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of gene expression (GO:0010628)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitotic cell cycle (GO:0045931)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of response to DNA damage stimulus (GO:2001022)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein kinase B signaling (GO:0043491)|regulation of transcription, DNA-templated (GO:0006355)|response to testosterone (GO:0033574)|salivary gland development (GO:0007431)|somitogenesis (GO:0001756)|steroid hormone mediated signaling pathway (GO:0043401)	intracellular (GO:0005622)|nucleus (GO:0005634)	androgen receptor activity (GO:0004882)|core promoter binding (GO:0001047)|estrogen receptor activity (GO:0030284)|estrogen receptor binding (GO:0030331)|histone deacetylase binding (GO:0042826)|protein kinase activator activity (GO:0030295)|protein self-association (GO:0043621)|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity (GO:0000983)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|transcription regulatory region sequence-specific DNA binding (GO:0000976)			large_intestine(3)|lung(4)|prostate(5)|skin(2)	14		Prostate(55;0.114)		Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)|BRCA - Breast invasive adenocarcinoma(99;0.0708)		GAGCTGCTTTCGCTTAGTCTT	0.582																																																0													152	150	151					8																	23538897		2203	4300	6503	SO:0001583	missense	4824				CCDS6042.1, CCDS59095.1	8p21.2	2012-03-09	2007-07-09	2002-10-04	ENSG00000167034	ENSG00000167034		"Homeoboxes / ANTP class : NKL subclass"	7838	protein-coding gene	gene with protein product		602041	"NK homeobox (Drosophila), family 3, A", "NK3 transcription factor related, locus 1 (Drosophila)"	NKX3A		9226374	Standard	NM_006167		Approved	NKX3.1, BAPX2	uc011kzx.2	Q99801	OTTHUMG00000097851	ENST00000380871.4:c.542G>A	8.37:g.23538897C>T	ENSP00000370253:p.Arg181Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O15465|Q9H2P4|Q9H2P5|Q9H2P6|Q9H2P7|Q9HBG0	Missense_Mutation	SNP	ENST00000380871.4	37	CCDS6042.1	.	.	.	.	.	.	.	.	.	.	C	29.6	5.017281	0.93404	.	.	ENSG00000167034	ENST00000380871;ENST00000300332;ENST00000523261	D;D	0.96396	-4.0;-4.0	5.87	5.87	0.94306	Homeodomain-related (1);Homeobox (3);Homeodomain-like (1);	0.000000	0.56097	D	0.000038	D	0.98353	0.9453	M	0.87269	2.87	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.98842	1.0755	10	0.87932	D	0	.	18.0718	0.89410	0.0:1.0:0.0:0.0	.	181	Q99801	NKX31_HUMAN	Q	181;137;106	ENSP00000370253:R181Q;ENSP00000429729:R106Q	ENSP00000300332:R137Q	R	-	2	0	NKX3-1	23594842	0.997000	0.39634	0.997000	0.53966	0.571000	0.35966	7.754000	0.85163	2.941000	0.99782	0.655000	0.94253	CGA		0.582	NKX3-1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215141.2			T	23538897	C	T	23538897	3	4	624	1	0	0	0	0	1	0	0	0	10462	884	31	1	166	1	NKX3-1	8	23538897	Missense_Mutation	SNP	C	TCGA-KL-8325-01A-11D-2310-10		23538897	122825125	25	38334										
SCARA5	286133	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr8	27779572	27779572	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ccctccagccgctgcactgcGcccgccagcgccagcaacga	10	21	0	0			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr8:27779572G>A	ENST00000354914.3	-	4	917	c.432C>T	c.(430-432)ggC>ggT	p.G144G	SCARA5_ENST00000524352.1_Silent_p.G144G|SCARA5_ENST00000518030.1_Silent_p.G101G|SCARA5_ENST00000301906.4_Silent_p.G101G|SCARA5_ENST00000380385.2_Intron	NM_173833.5	NP_776194.2	Q6ZMJ2	SCAR5_HUMAN	scavenger receptor class A, member 5	144					cellular iron ion homeostasis (GO:0006879)|cellular response to heat (GO:0034605)|endocytosis (GO:0006897)|iron ion transmembrane transport (GO:0034755)|protein homotrimerization (GO:0070207)|receptor-mediated endocytosis (GO:0006898)|regulation of blood coagulation (GO:0030193)|regulation of gene expression (GO:0010468)	cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)	ferritin receptor activity (GO:0070287)|scavenger receptor activity (GO:0005044)			central_nervous_system(1)|large_intestine(6)|lung(5)|prostate(3)|skin(3)	18		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)|Colorectal(74;0.228)		GCTGCACTGCGCCCGCCAGCG	0.726																																																0																																										SO:0001819	synonymous_variant	286133			AK172746	CCDS6064.1	8p21.1	2014-07-08	2014-07-08		ENSG00000168079	ENSG00000168079			28701	protein-coding gene	gene with protein product		611306	"scavenger receptor class A, member 5 (putative)"			19154717	Standard	NM_173833		Approved	FLJ23907, MGC45780, NET33	uc003xgj.3	Q6ZMJ2	OTTHUMG00000132172	ENST00000354914.3:c.432C>T	8.37:g.27779572G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXZ1|Q7Z4A1|Q8N4Z7	Silent	SNP	ENST00000354914.3	37	CCDS6064.1																																																																																				0.726	SCARA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255223.2	NM_173833		A	27779572	G	A	27779572	2	1	624	1	0	0	0	0	0	0	0	1	13893	1074	38	1		1	SCARA5	8	27779572	Silent	SNP	G	TCGA-KL-8325-01A-11D-2310-10	4240675	27779572	118584450	26	38335										
ADAM2	2515	bcgsc.ca	37	chr8	39694680	39694680	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	attcaattccttcctttattAttgaccgtattttctccgga	4	10	2	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr8:39694680A>T	ENST00000265708.4	-	2	210	c.107T>A	c.(106-108)aTa>aAa	p.I36K	ADAM2_ENST00000521880.1_Missense_Mutation_p.I36K|ADAM2_ENST00000379853.2_Missense_Mutation_p.I36K|ADAM2_ENST00000347580.4_Missense_Mutation_p.I36K|ADAM2_ENST00000523181.1_5'UTR	NM_001464.3	NP_001455.3	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2	36					adult behavior (GO:0030534)|binding of sperm to zona pellucida (GO:0007339)|cell adhesion (GO:0007155)|fusion of sperm to egg plasma membrane (GO:0007342)|multicellular organism reproduction (GO:0032504)|single fertilization (GO:0007338)|visual learning (GO:0008542)	cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	integrin binding (GO:0005178)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(11)|lung(29)|ovary(3)|prostate(1)|skin(5)|urinary_tract(1)	53		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		TTCCTTTATTATTGACCGTAT	0.303																																																0													75	75	75					8																	39694680		2203	4297	6500	SO:0001583	missense	2515			U52370	CCDS34884.1, CCDS64882.1, CCDS64883.1	8p11.2	2009-03-25	2008-07-31		ENSG00000104755	ENSG00000104755		"ADAM metallopeptidase domain containing"	198	protein-coding gene	gene with protein product	"cancer/testis antigen 15"	601533	"fertilin beta"	FTNB		8702389, 9070941	Standard	NM_001278113		Approved	PH-30b, PH30, CT15	uc003xnj.4	Q99965	OTTHUMG00000164041	ENST00000265708.4:c.107T>A	8.37:g.39694680A>T	ENSP00000265708:p.Ile36Lys	Somatic		WXS	Illumina HiSeq	Phase_I	P78326|Q9UQQ8	Missense_Mutation	SNP	ENST00000265708.4	37	CCDS34884.1	.	.	.	.	.	.	.	.	.	.	A	0.042	-1.282486	0.01398	.	.	ENSG00000104755	ENST00000347580;ENST00000379853;ENST00000265708;ENST00000521880	T;T;T;T	0.01963	5.15;4.53;5.4;5.36	3.83	-4.84	0.03151	.	.	.	.	.	T	0.01387	0.0045	N	0.16656	0.425	0.09310	N	1	B;B;B;B	0.14012	0.004;0.009;0.004;0.004	B;B;B;B	0.18263	0.021;0.005;0.006;0.021	T	0.48305	-0.9047	8	.	.	.	.	6.1222	0.20159	0.3043:0.0:0.5209:0.1748	.	36;36;36;36	B4DWY7;Q6P2G0;Q99965-2;Q99965	.;.;.;ADAM2_HUMAN	K	36	ENSP00000343854:I36K;ENSP00000369182:I36K;ENSP00000265708:I36K;ENSP00000429352:I36K	.	I	-	2	0	ADAM2	39813837	0.000000	0.05858	0.000000	0.03702	0.015000	0.08874	-1.291000	0.02775	-0.975000	0.03546	0.477000	0.44152	ATA		0.303	ADAM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376926.1	NM_001464		T	39694680	A	T	39694680	3	4	624	1	0	0	0	0	1	0	0	0	241	449	16	5	2176	5	ADAM2	8	39694680	Missense_Mutation	SNP	A	TCGA-KL-8325-01A-11D-2310-10	11915108	39694680	106669342	27	38336										
DPY19L4	286148	ucsc.edu	37	chr8	95793373	95793373	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	attctatgacccagatacagTggaacttatgacctggataa	8	8	1	3			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr8:95793373T>C	ENST00000414645.2	+	16	1793	c.1694T>C	c.(1693-1695)gTg>gCg	p.V565A		NM_181787.2	NP_861452.2	Q7Z388	D19L4_HUMAN	dpy-19-like 4 (C. elegans)	565						integral component of membrane (GO:0016021)	transferase activity, transferring glycosyl groups (GO:0016757)			breast(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(2)|lung(6)|ovary(2)|prostate(2)	21	Breast(36;3.85e-06)					CCAGATACAGTGGAACTTATG	0.308																																																0													70	74	72					8																	95793373		2203	4296	6499	SO:0001583	missense	286148				CCDS34924.1	8q22.1	2006-11-24			ENSG00000156162	ENSG00000156162			27829	protein-coding gene	gene with protein product		613895					Standard	NM_181787		Approved		uc003ygx.2	Q7Z388	OTTHUMG00000164589	ENST00000414645.2:c.1694T>C	8.37:g.95793373T>C	ENSP00000389630:p.Val565Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZW32|Q6ZW42|Q7Z329	Missense_Mutation	SNP	ENST00000414645.2	37	CCDS34924.1	.	.	.	.	.	.	.	.	.	.	T	21.0	4.076103	0.76415	.	.	ENSG00000156162	ENST00000414645	T	0.54675	0.56	5.34	4.16	0.48862	.	0.063541	0.64402	D	0.000008	T	0.67998	0.2953	M	0.76170	2.325	0.47214	D	0.999355	D	0.76494	0.999	D	0.73380	0.98	T	0.65175	-0.6232	10	0.20046	T	0.44	-13.497	12.3442	0.55111	0.0:0.0:0.1412:0.8588	.	565	Q7Z388	D19L4_HUMAN	A	565	ENSP00000389630:V565A	ENSP00000389630:V565A	V	+	2	0	DPY19L4	95862549	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.415000	0.66411	0.833000	0.34828	0.455000	0.32223	GTG		0.308	DPY19L4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379339.1	NM_181787		C	95793373	T	C	95793373	3	2	624	1	0	0	0	0	1	0	0	0	4745	1696	59	3	1756	3	DPY19L4	8	95793373	Missense_Mutation	SNP	T	TCGA-KL-8325-01A-11D-2310-10	56098693	95793373	50570649	28	38337										
PRSS3	5646	mdanderson.org	37	chr9	33796801	33796801	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gcagctcactgctacaagacGtaagtgtggggcccctgact	12	12	1	2	rs143707562		TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr9:33796801G>A	ENST00000361005.5	+	2	371		c.e2+1		PRSS3_ENST00000379405.3_Splice_Site|RP11-133O22.6_ENST00000454429.2_RNA|PRSS3_ENST00000342836.4_Splice_Site|PRSS3_ENST00000429677.3_Splice_Site	NM_007343.3	NP_031369	P35030	TRY3_HUMAN	protease, serine, 3						cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|endothelial cell migration (GO:0043542)|innate immune response (GO:0045087)|proteolysis (GO:0006508)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)|zymogen activation (GO:0031638)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			large_intestine(3)|lung(4)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	13			LUSC - Lung squamous cell carcinoma(29;0.0176)			GCTACAAGACGTAAGTGTGGG	0.597													G|||	1	0.000199681	0.0	0.0	5008	,	,		18879	0.001		0.0	False		,,,				2504	0.0															0													70	70	70					9																	33796801		2203	4300	6503	SO:0001630	splice_region_variant	5646				CCDS6545.1, CCDS47958.1, CCDS56570.1, CCDS56571.1	9p13	2010-05-07	2008-03-11		ENSG00000010438	ENSG00000010438	3.4.21.4	"Serine peptidases / Serine peptidases"	9486	protein-coding gene	gene with protein product	"mesotrypsin"	613578	"protease, serine, 4 (trypsin 4, brain)", "protease, serine, 3 (mesotrypsin)"	PRSS4		2326201, 8294000	Standard	NM_002771		Approved	TRY3, TRY4	uc003ztj.4	P35030	OTTHUMG00000019798	ENST00000361005.5:c.371+1G>A	9.37:g.33796801G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8CED1|A8CED3|A9Z1Y4|E7ES07|F8W7P3|P15951|Q15665|Q5VXV0|Q6ISJ4|Q9UQV3	Splice_Site	SNP	ENST00000361005.5	37	CCDS47958.1	.	.	.	.	.	.	.	.	.	.	G	7.509	0.654290	0.14580	.	.	ENSG00000010438	ENST00000361005;ENST00000457896;ENST00000342836;ENST00000429677;ENST00000379405	.	.	.	3.21	2.29	0.28610	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	8.1922	0.31374	0.1286:0.0:0.8714:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	PRSS3	33786801	1.000000	0.71417	0.775000	0.31657	0.032000	0.12392	8.277000	0.89896	0.482000	0.27582	0.306000	0.20318	.		0.597	PRSS3-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000052121.1	NM_002771	Intron	A	33796801	G	A	33796801	5	1	624	1	0	0	0	0	0	0	1	0	12632	1159	40	1	422	1	PRSS3	9	33796801	Splice_Site	SNP	G	TCGA-KL-8325-01A-11D-2310-10		33796801	107416630	29	38338										
UBQLN1	29979	broad.mit.edu	37	chr9	86322497	86322498	+	Frame_Shift_Ins	INS	-	-	C													0	0	1	0	0	0	1	1	0	gactttcatgattttgggctINSccgcggaggcagcggccgcg							TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr9:86322497_86322498insC	ENST00000376395.4	-	1	620_621	c.97_98insG	c.(97-99)gagfs	p.E33fs	UBQLN1_ENST00000257468.7_Frame_Shift_Ins_p.E33fs|RP11-522I20.3_ENST00000531661.1_RNA|RP11-522I20.3_ENST00000524818.1_RNA	NM_013438.4|NM_053067.2	NP_038466.2|NP_444295.1	Q9UMX0	UBQL1_HUMAN	ubiquilin 1	33					cellular response to hypoxia (GO:0071456)|regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902175)|regulation of protein ubiquitination (GO:0031396)|response to endoplasmic reticulum stress (GO:0034976)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|proteasome complex (GO:0000502)|protein complex (GO:0043234)	kinase binding (GO:0019900)			breast(4)|endometrium(2)|kidney(4)|large_intestine(6)|lung(10)|prostate(1)	27						GATTTTGGGCTCCGCGGAGGCA	0.673																																					Melanoma(186;1284 2073 12755 14558 18426)											0																																										SO:0001589	frameshift_variant	29979			AF176069	CCDS6663.1, CCDS6664.1	9q22	2013-02-12			ENSG00000135018	ENSG00000135018		"Ubiquilin family"	12508	protein-coding gene	gene with protein product		605046				9303440, 10807547	Standard	NM_013438		Approved	DSK2, PLIC-1, XDRP1, DA41	uc004amv.3	Q9UMX0	OTTHUMG00000020104	ENST00000376395.4:c.98dupG	9.37:g.86322499_86322499dupC	ENSP00000365576:p.Glu33fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6J5|Q5T6J9|Q8IXS9|Q8N2Q3|Q9H0T8|Q9H3R4|Q9HAZ5	Frame_Shift_Ins	INS	ENST00000376395.4	37	CCDS6663.1																																																																																				0.673	UBQLN1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000052834.1	NM_013438		C	86322498	-	C	86322497	7	5	624	1	0	1	1	0	0	0	0	0	16908	1551	54	0	1715	0	UBQLN1	9	86322497	Frame_Shift_Ins	INS	-	TCGA-KL-8325-01A-11D-2310-10	52525696	86322497	54890934	30	38339	303	5								
UBQLN1	29979	broad.mit.edu	37	chr9	86322500	86322500	+	Frame_Shift_Del	DEL	G	G	-													0	0	1	0	0	0	1	1	0	ctttcatgattttgggctccGcggaggcagcggccgcgggg							TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr9:86322500delG	ENST00000376395.4	-	1	618	c.95delC	c.(94-96)gcgfs	p.A32fs	UBQLN1_ENST00000257468.7_Frame_Shift_Del_p.A32fs|RP11-522I20.3_ENST00000531661.1_RNA|RP11-522I20.3_ENST00000524818.1_RNA	NM_013438.4|NM_053067.2	NP_038466.2|NP_444295.1	Q9UMX0	UBQL1_HUMAN	ubiquilin 1	32					cellular response to hypoxia (GO:0071456)|regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902175)|regulation of protein ubiquitination (GO:0031396)|response to endoplasmic reticulum stress (GO:0034976)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|proteasome complex (GO:0000502)|protein complex (GO:0043234)	kinase binding (GO:0019900)			breast(4)|endometrium(2)|kidney(4)|large_intestine(6)|lung(10)|prostate(1)	27						TTTGGGCTCCGCGGAGGCAGC	0.672																																					Melanoma(186;1284 2073 12755 14558 18426)											0													14	15	15					9																	86322500		2196	4288	6484	SO:0001589	frameshift_variant	29979			AF176069	CCDS6663.1, CCDS6664.1	9q22	2013-02-12			ENSG00000135018	ENSG00000135018		"Ubiquilin family"	12508	protein-coding gene	gene with protein product		605046				9303440, 10807547	Standard	NM_013438		Approved	DSK2, PLIC-1, XDRP1, DA41	uc004amv.3	Q9UMX0	OTTHUMG00000020104	ENST00000376395.4:c.95delC	9.37:g.86322500delG	ENSP00000365576:p.Ala32fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6J5|Q5T6J9|Q8IXS9|Q8N2Q3|Q9H0T8|Q9H3R4|Q9HAZ5	Frame_Shift_Del	DEL	ENST00000376395.4	37	CCDS6663.1																																																																																				0.672	UBQLN1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000052834.1	NM_013438		-	86322500	G	-	86322500	7	5	624	1	0	1	0	1	0	0	0	0	16908	1087	38	0	1718	0	UBQLN1	9	86322500	Frame_Shift_Del	DEL	G	TCGA-KL-8325-01A-11D-2310-10	3	86322500	54890931	31	38340	303	5								
UBQLN1	29979	bcgsc.ca	37	chr9	86322501	86322501	+	Frame_Shift_Del	DEL	G	G	-													0	0	1	0	0	0	1	1	0	tttcatgattttgggctccgCggaggcagcggccgcggggg							TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr9:86322501delG	ENST00000376395.4	-	1	617	c.94delC	c.(94-96)ccgfs	p.P32fs	UBQLN1_ENST00000257468.7_Frame_Shift_Del_p.P32fs|RP11-522I20.3_ENST00000531661.1_RNA|RP11-522I20.3_ENST00000524818.1_RNA	NM_013438.4|NM_053067.2	NP_038466.2|NP_444295.1	Q9UMX0	UBQL1_HUMAN	ubiquilin 1	32					cellular response to hypoxia (GO:0071456)|regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902175)|regulation of protein ubiquitination (GO:0031396)|response to endoplasmic reticulum stress (GO:0034976)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|proteasome complex (GO:0000502)|protein complex (GO:0043234)	kinase binding (GO:0019900)			breast(4)|endometrium(2)|kidney(4)|large_intestine(6)|lung(10)|prostate(1)	27						TTGGGCTCCGCGGAGGCAGCG	0.672																																					Melanoma(186;1284 2073 12755 14558 18426)											0													14	14	14					9																	86322501		2194	4287	6481	SO:0001589	frameshift_variant	29979			AF176069	CCDS6663.1, CCDS6664.1	9q22	2013-02-12			ENSG00000135018	ENSG00000135018		"Ubiquilin family"	12508	protein-coding gene	gene with protein product		605046				9303440, 10807547	Standard	NM_013438		Approved	DSK2, PLIC-1, XDRP1, DA41	uc004amv.3	Q9UMX0	OTTHUMG00000020104	ENST00000376395.4:c.94delC	9.37:g.86322501delG	ENSP00000365576:p.Pro32fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6J5|Q5T6J9|Q8IXS9|Q8N2Q3|Q9H0T8|Q9H3R4|Q9HAZ5	Frame_Shift_Del	DEL	ENST00000376395.4	37	CCDS6663.1																																																																																				0.672	UBQLN1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000052834.1	NM_013438		-	86322501	G	-	86322501	7	5	624	1	0	1	0	1	0	0	0	0	16908	768	27	0	1719	0	UBQLN1	9	86322501	Frame_Shift_Del	DEL	G	TCGA-KL-8325-01A-11D-2310-10	1	86322501	54890930	32	38341	303	5								
UBQLN1	29979	broad.mit.edu	37	chr9	86322502	86322505	+	Frame_Shift_Del	DEL	GGAG	GGAG	-													0	0	1	0	0	0	1	1	0	ttcatgattttgggctccgcGgaggcagcggccgcgggggc					rs201847758		TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	GGAG	GGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr9:86322502_86322505delGGAG	ENST00000376395.4	-	1	613_616	c.90_93delCTCC	c.(88-93)gcctccfs	p.AS30fs	UBQLN1_ENST00000257468.7_Frame_Shift_Del_p.AS30fs|RP11-522I20.3_ENST00000531661.1_RNA|RP11-522I20.3_ENST00000524818.1_RNA	NM_013438.4|NM_053067.2	NP_038466.2|NP_444295.1	Q9UMX0	UBQL1_HUMAN	ubiquilin 1	30					cellular response to hypoxia (GO:0071456)|regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902175)|regulation of protein ubiquitination (GO:0031396)|response to endoplasmic reticulum stress (GO:0034976)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|proteasome complex (GO:0000502)|protein complex (GO:0043234)	kinase binding (GO:0019900)			breast(4)|endometrium(2)|kidney(4)|large_intestine(6)|lung(10)|prostate(1)	27						TGGGCTCCGCGGAGGCAGCGGCCG	0.676																																					Melanoma(186;1284 2073 12755 14558 18426)											0																																										SO:0001589	frameshift_variant	29979			AF176069	CCDS6663.1, CCDS6664.1	9q22	2013-02-12			ENSG00000135018	ENSG00000135018		"Ubiquilin family"	12508	protein-coding gene	gene with protein product		605046				9303440, 10807547	Standard	NM_013438		Approved	DSK2, PLIC-1, XDRP1, DA41	uc004amv.3	Q9UMX0	OTTHUMG00000020104	ENST00000376395.4:c.90_93delCTCC	9.37:g.86322502_86322505delGGAG	ENSP00000365576:p.Ala30fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6J5|Q5T6J9|Q8IXS9|Q8N2Q3|Q9H0T8|Q9H3R4|Q9HAZ5	Frame_Shift_Del	DEL	ENST00000376395.4	37	CCDS6663.1																																																																																				0.676	UBQLN1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000052834.1	NM_013438		-	86322505	GGAG	-	86322502	7	5	624	1	0	1	0	1	0	0	0	0	16908	1103	39	0	1720	0	UBQLN1	9	86322502	Frame_Shift_Del	DEL	GGAG	TCGA-KL-8325-01A-11D-2310-10	1	86322502	54890929	33	38342	303	5								
UBQLN1	29979	bcgsc.ca	37	chr9	86322503	86322506	+	Frame_Shift_Del	DEL	GGAG	GGAG	-													0	0	1	0	0	0	1	1	0	tcatgattttgggctccgcgGaggcagcggccgcgggggcg							TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	GGAG	GGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr9:86322503_86322506delGGAG	ENST00000376395.4	-	1	612_615	c.89_92delCTCC	c.(88-93)gctcccfs	p.AP30fs	UBQLN1_ENST00000257468.7_Frame_Shift_Del_p.AP30fs|RP11-522I20.3_ENST00000531661.1_RNA|RP11-522I20.3_ENST00000524818.1_RNA	NM_013438.4|NM_053067.2	NP_038466.2|NP_444295.1	Q9UMX0	UBQL1_HUMAN	ubiquilin 1	30					cellular response to hypoxia (GO:0071456)|regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902175)|regulation of protein ubiquitination (GO:0031396)|response to endoplasmic reticulum stress (GO:0034976)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|proteasome complex (GO:0000502)|protein complex (GO:0043234)	kinase binding (GO:0019900)			breast(4)|endometrium(2)|kidney(4)|large_intestine(6)|lung(10)|prostate(1)	27						GGGCTCCGCGGAGGCAGCGGCCGC	0.676																																					Melanoma(186;1284 2073 12755 14558 18426)											0																																										SO:0001589	frameshift_variant	29979			AF176069	CCDS6663.1, CCDS6664.1	9q22	2013-02-12			ENSG00000135018	ENSG00000135018		"Ubiquilin family"	12508	protein-coding gene	gene with protein product		605046				9303440, 10807547	Standard	NM_013438		Approved	DSK2, PLIC-1, XDRP1, DA41	uc004amv.3	Q9UMX0	OTTHUMG00000020104	ENST00000376395.4:c.89_92delCTCC	9.37:g.86322503_86322506delGGAG	ENSP00000365576:p.Ala30fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6J5|Q5T6J9|Q8IXS9|Q8N2Q3|Q9H0T8|Q9H3R4|Q9HAZ5	Frame_Shift_Del	DEL	ENST00000376395.4	37	CCDS6663.1																																																																																				0.676	UBQLN1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000052834.1	NM_013438		-	86322506	GGAG	-	86322503	7	5	624	1	0	1	0	1	0	0	0	0	16908	1174	41	0	1721	0	UBQLN1	9	86322503	Frame_Shift_Del	DEL	GGAG	TCGA-KL-8325-01A-11D-2310-10	1	86322503	54890928	34	38343	303	5								
INVS	27130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr9	103004868	103004868	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	tcaggccatgcacagattgtCcatctccttttagaaagaaa	7	10	2	3			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr9:103004868C>T	ENST00000262457.2	+	7	998	c.813C>T	c.(811-813)gtC>gtT	p.V271V	INVS_ENST00000541287.1_Silent_p.V175V|INVS_ENST00000262456.2_Silent_p.V271V	NM_014425.3	NP_055240.2	Q9Y283	INVS_HUMAN	inversin	271					embryonic heart tube left/right pattern formation (GO:0060971)|kidney development (GO:0001822)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|pancreas development (GO:0031016)|post-embryonic development (GO:0009791)|Wnt signaling pathway (GO:0016055)	cilium (GO:0005929)|cytoplasm (GO:0005737)|membrane (GO:0016020)|microtubule (GO:0005874)|nucleus (GO:0005634)				breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(5)|ovary(4)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	31		Acute lymphoblastic leukemia(62;0.056)				CACAGATTGTCCATCTCCTTT	0.343																																																0													108	110	110					9																	103004868		2203	4300	6503	SO:0001819	synonymous_variant	27130			AF039217	CCDS6746.1, CCDS6747.1	9q31	2013-01-10	2003-08-11		ENSG00000119509	ENSG00000119509		"Ankyrin repeat domain containing"	17870	protein-coding gene	gene with protein product	"nephrocystin 2"	243305	"nephronophthisis 2 (infantile)"	NPHP2		12872123	Standard	NM_014425		Approved		uc004bap.2	Q9Y283	OTTHUMG00000020364	ENST00000262457.2:c.813C>T	9.37:g.103004868C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2A2Y2|Q2NKL0|Q5W0T6|Q8IVX8|Q9BRB9|Q9Y488|Q9Y498	Silent	SNP	ENST00000262457.2	37	CCDS6746.1																																																																																				0.343	INVS-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053407.1	NM_014425		T	103004868	C	T	103004868	2	4	624	1	0	0	0	0	0	0	0	1	7794	842	30	2		2	INVS	9	103004868	Silent	SNP	C	TCGA-KL-8325-01A-11D-2310-10	16682365	103004868	38208563	35	38344										
ITGA8	8516	broad.mit.edu;bcgsc.ca	37	chr10	15719635	15719635	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctcccacaataaggtctccaTtctacaaaacagaaacagca	4	13	2	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr10:15719635T>C	ENST00000378076.3	-	6	985	c.632A>G	c.(631-633)aAt>aGt	p.N211S		NM_003638.1	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8	211					brain development (GO:0007420)|cell projection organization (GO:0030030)|cell-matrix adhesion (GO:0007160)|establishment of protein localization (GO:0045184)|extracellular matrix organization (GO:0030198)|inner ear morphogenesis (GO:0042472)|integrin-mediated signaling pathway (GO:0007229)|kidney development (GO:0001822)|memory (GO:0007613)|mesodermal cell differentiation (GO:0048333)|metanephros development (GO:0001656)|positive regulation of transcription from RNA polymerase II promoter involved in smooth muscle cell differentiation (GO:2000721)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|single organismal cell-cell adhesion (GO:0016337)|smooth muscle tissue development (GO:0048745)|substrate adhesion-dependent cell spreading (GO:0034446)	apical part of cell (GO:0045177)|cell surface (GO:0009986)|dendritic spine membrane (GO:0032591)|endoplasmic reticulum (GO:0005783)|focal adhesion (GO:0005925)|integrin alpha8-beta1 complex (GO:0034678)|integrin complex (GO:0008305)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)	metal ion binding (GO:0046872)			NS(2)|breast(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(57)|ovary(3)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	96						AAGGTCTCCATTCTACAAAAC	0.368																																																0													116	107	110					10																	15719635		2203	4300	6503	SO:0001630	splice_region_variant	8516			L36531	CCDS31155.1	10p13	2010-03-23			ENSG00000077943	ENSG00000077943		"Integrins"	6144	protein-coding gene	gene with protein product		604063				7768999	Standard	XM_005252633		Approved		uc001ioc.1	P53708	OTTHUMG00000017733	ENST00000378076.3:c.631-1A>G	10.37:g.15719635T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ31|Q5VX94	Missense_Mutation	SNP	ENST00000378076.3	37	CCDS31155.1	.	.	.	.	.	.	.	.	.	.	T	13.60	2.285795	0.40394	.	.	ENSG00000077943	ENST00000378076;ENST00000538044	T	0.22134	1.97	5.58	4.45	0.53987	.	0.185108	0.64402	N	0.000019	T	0.18923	0.0454	N	0.24115	0.695	0.45035	D	0.998057	P;P	0.48694	0.914;0.86	P;B	0.46825	0.528;0.328	T	0.01464	-1.1348	10	0.49607	T	0.09	.	11.4986	0.50424	0.0:0.0704:0.0:0.9296	.	211;211	F5H818;P53708	.;ITA8_HUMAN	S	211	ENSP00000367316:N211S	ENSP00000367316:N211S	N	-	2	0	ITGA8	15759641	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	5.590000	0.67530	0.955000	0.37878	0.455000	0.32223	AAT		0.368	ITGA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046987.1	NM_003638	Missense_Mutation	C	15719635	T	C	15719635	5	2	624	1	0	0	0	0	0	0	1	0	7889	1507	52	3	2659	3	ITGA8	10	15719635	Splice_Site	SNP	T	TCGA-KL-8325-01A-11D-2310-10		15719635	119815112	36	38345										
ACTA2	59	ucsc.edu	37	chr10	90701565	90701565	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ttgtgcgtccagaggcatagAgagacagcaccgcctggata	13	10	0	3			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr10:90701565A>G	ENST00000458208.1	-	5	905	c.431T>C	c.(430-432)cTc>cCc	p.L144P	ACTA2-AS1_ENST00000437930.4_RNA|ACTA2_ENST00000224784.6_Missense_Mutation_p.L144P|STAMBPL1_ENST00000371927.3_Intron|ACTA2_ENST00000480297.1_5'UTR|ACTA2-AS1_ENST00000596007.1_RNA	NM_001141945.1	NP_001135417.1	P62736	ACTA_HUMAN	actin, alpha 2, smooth muscle, aorta	144					glomerular mesangial cell development (GO:0072144)|muscle contraction (GO:0006936)|regulation of blood pressure (GO:0008217)|response to virus (GO:0009615)|vascular smooth muscle contraction (GO:0014829)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|protein complex (GO:0043234)|smooth muscle contractile fiber (GO:0030485)	ATP binding (GO:0005524)|protein kinase binding (GO:0019901)			breast(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(3)|skin(1)|urinary_tract(2)	17		Colorectal(252;0.0161)		Colorectal(12;0.000123)|COAD - Colon adenocarcinoma(12;0.00018)		AGAGGCATAGAGAGACAGCAC	0.532																																																0													60	51	54					10																	90701565		2203	4300	6503	SO:0001583	missense	59			X13839	CCDS7392.1	10q23.31	2014-09-17			ENSG00000107796	ENSG00000107796			130	protein-coding gene	gene with protein product		102620				2398629	Standard	NM_001141945		Approved	ACTSA	uc001kfp.3	P62736	OTTHUMG00000018700	ENST00000458208.1:c.431T>C	10.37:g.90701565A>G	ENSP00000402373:p.Leu144Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8A4|P03996|P04108|Q6FI19	Missense_Mutation	SNP	ENST00000458208.1	37	CCDS7392.1	.	.	.	.	.	.	.	.	.	.	A	17.74	3.462891	0.63513	.	.	ENSG00000107796	ENST00000224784;ENST00000458208;ENST00000544901;ENST00000415557;ENST00000458159	D;D;D;D	0.97850	-4.57;-4.57;-3.65;-3.65	5.46	5.46	0.80206	.	0.000000	0.64402	D	0.000001	D	0.99420	0.9795	H	0.99940	5	0.80722	D	1	P	0.38642	0.641	P	0.57152	0.814	D	0.97506	1.0063	10	0.87932	D	0	.	14.628	0.68635	1.0:0.0:0.0:0.0	.	144	P62736	ACTA_HUMAN	P	144;144;99;144;144	ENSP00000224784:L144P;ENSP00000402373:L144P;ENSP00000396730:L144P;ENSP00000398239:L144P	ENSP00000224784:L144P	L	-	2	0	ACTA2	90691545	1.000000	0.71417	1.000000	0.80357	0.955000	0.61496	7.395000	0.79876	2.192000	0.70111	0.533000	0.62120	CTC		0.532	ACTA2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049264.1	NM_001613		G	90701565	A	G	90701565	3	3	624	1	0	0	0	0	1	0	0	0	192	304	11	3	722	3	ACTA2	10	90701565	Missense_Mutation	SNP	A	TCGA-KL-8325-01A-11D-2310-10	74981930	90701565	44833182	37	38346										
MUC6	4588	mdanderson.org	37	chr11	1017710	1017710	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gcatggtgtgtggaggaagtGtgtgaatgtagggatgtaga	19	1	0	2	rs113964902		TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr11:1017710G>T	ENST00000421673.2	-	31	5141	c.5091C>A	c.(5089-5091)caC>caA	p.H1697Q		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1697	Approximate repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		TGGAGGAAGTGTGTGAATGTA	0.552																																																0								T	GLN/HIS	175,4229	48.2+/-83.0	0,175,2027	827	810	816		5091	-2.9	0	11	dbSNP_132	816	52,8538	4.3+/-15.6	0,52,4243	yes	missense	MUC6	NM_005961.2	24	0,227,6270	TT,TG,GG		0.6054,3.9737,1.747	benign	1697/2440	1017710	227,12767	2202	4295	6497	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5091C>A	11.37:g.1017710G>T	ENSP00000406861:p.His1697Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	0.004	-2.248714	0.00268	0.039737	0.006054	ENSG00000184956	ENST00000421673	T	0.18657	2.2	1.46	-2.91	0.05631	.	.	.	.	.	T	0.01320	0.0043	N	0.04880	-0.145	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.13072	-1.0523	9	0.05525	T	0.97	.	3.8678	0.09024	0.2346:0.0:0.4719:0.2935	.	1697	Q6W4X9	MUC6_HUMAN	Q	1697	ENSP00000406861:H1697Q	ENSP00000406861:H1697Q	H	-	3	2	MUC6	1007710	0.000000	0.05858	0.000000	0.03702	0.007000	0.05969	-7.346000	0.00038	-4.248000	0.00062	-3.681000	0.00024	CAC		0.552	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		T	1017710	G	T	1017710	3	4	624	1	0	0	0	0	1	0	0	0	9987	1368	48	4	2240	4	MUC6	11	1017710	Missense_Mutation	SNP	G	TCGA-KL-8325-01A-11D-2310-10		1017710	133988806	38	38347										
MMP26	56547	ucsc.edu	37	chr11	5010912	5010912	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	atttttcctgaccaagaaggAgtcgccactccttacccagg	8	13	0	2			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr11:5010912A>G	ENST00000380390.1	+	3	350	c.134A>G	c.(133-135)gAg>gGg	p.E45G	MMP26_ENST00000300762.1_Missense_Mutation_p.E45G|MMP26_ENST00000477339.1_3'UTR			Q9NRE1	MMP26_HUMAN	matrix metallopeptidase 26	45					collagen catabolic process (GO:0030574)|proteolysis (GO:0006508)	proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(1)|large_intestine(3)|lung(11)|pancreas(1)|skin(3)|stomach(1)	22		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)	Marimastat(DB00786)	ACCAAGAAGGAGTCGCCACTC	0.463																																																0													58	50	53					11																	5010912		2201	4298	6499	SO:0001583	missense	56547			AF230354	CCDS7752.1	11p15	2008-07-18	2005-08-08		ENSG00000167346	ENSG00000167346	3.4.24.1		14249	protein-coding gene	gene with protein product	"matrilysin 2"	605470	"matrix metalloproteinase 26"			10801841, 10824119	Standard	NM_021801		Approved	endometase, MGC126590, MGC126592	uc001lzv.3	Q9NRE1	OTTHUMG00000066442	ENST00000380390.1:c.134A>G	11.37:g.5010912A>G	ENSP00000369753:p.Glu45Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MJ78|Q9GZS2|Q9NR87	Missense_Mutation	SNP	ENST00000380390.1	37	CCDS7752.1	.	.	.	.	.	.	.	.	.	.	A	14.73	2.621616	0.46736	.	.	ENSG00000167346	ENST00000380390;ENST00000300762	T;T	0.38077	1.16;1.16	3.73	2.56	0.30785	Metallopeptidase, catalytic domain (1);	40.292300	0.00166	U	0.000011	T	0.32734	0.0839	L	0.50333	1.59	0.09310	N	1	P	0.43477	0.808	B	0.33799	0.17	T	0.31641	-0.9936	10	0.59425	D	0.04	-8.2391	7.0247	0.24934	0.7669:0.2331:0.0:0.0	.	45	Q9NRE1	MMP26_HUMAN	G	45	ENSP00000369753:E45G;ENSP00000300762:E45G	ENSP00000300762:E45G	E	+	2	0	MMP26	4967488	0.446000	0.25665	0.120000	0.21714	0.348000	0.29142	0.970000	0.29383	0.309000	0.22966	0.455000	0.32223	GAG		0.463	MMP26-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000142058.3	NM_021801		G	5010912	A	G	5010912	3	3	624	1	0	0	0	0	1	0	0	0	9670	304	11	3	140	3	MMP26	11	5010912	Missense_Mutation	SNP	A	TCGA-KL-8325-01A-11D-2310-10	3993202	5010912	129995604	39	38348										
MRGPRX3	117195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	18159150	18159150	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	catctggtaccactgccgccGccccagatacctgtcatcag	8	17	3	1	rs139790666	byFrequency	TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr11:18159150G>A	ENST00000396275.2	+	3	762	c.401G>A	c.(400-402)cGc>cAc	p.R134H		NM_054031.3	NP_473372.3	Q96LB0	MRGX3_HUMAN	MAS-related GPR, member X3	134						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			NS(1)|breast(2)|endometrium(2)|kidney(1)|large_intestine(5)|lung(10)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	27						CACTGCCGCCGCCCCAGATAC	0.572													g|||	2	0.000399361	0.0	0.0	5008	,	,		19932	0.0		0.002	False		,,,				2504	0.0															0								G	HIS/ARG	1,4399	2.1+/-5.4	0,1,2199	118	111	113		401	-2.9	0	11	dbSNP_134	113	4,8582	3.7+/-12.6	0,4,4289	yes	missense	MRGPRX3	NM_054031.3	29	0,5,6488	AA,AG,GG		0.0466,0.0227,0.0385	probably-damaging	134/323	18159150	5,12981	2200	4293	6493	SO:0001583	missense	117195				CCDS7830.1	11p15.1	2013-10-10			ENSG00000179826	ENSG00000179826		"GPCR / Class A : Orphans"	17980	protein-coding gene	gene with protein product		607229				11551509	Standard	NM_054031		Approved	MRGX3	uc001mnu.3	Q96LB0	OTTHUMG00000166435	ENST00000396275.2:c.401G>A	11.37:g.18159150G>A	ENSP00000379571:p.Arg134His	Somatic		WXS	Illumina HiSeq	Phase_I	B0M0L1|Q8TDE0|Q8TDE1	Missense_Mutation	SNP	ENST00000396275.2	37	CCDS7830.1	2	9.157509157509158E-4	0	0.0	0	0.0	0	0.0	2	0.002638522427440633	G	13.44	2.237392	0.39498	2.27E-4	4.66E-4	ENSG00000179826	ENST00000396275;ENST00000531264	T;T	0.39787	1.06;1.06	1.46	-2.9	0.05648	GPCR, rhodopsin-like superfamily (1);	0.000000	0.64402	D	0.000005	T	0.58293	0.2112	M	0.90252	3.1	0.09310	N	0.999997	D	0.55800	0.973	P	0.60068	0.868	T	0.54649	-0.8262	10	0.62326	D	0.03	.	7.087	0.25264	0.3591:0.0:0.6409:0.0	.	134	Q96LB0	MRGX3_HUMAN	H	134	ENSP00000379571:R134H;ENSP00000436242:R134H	ENSP00000379571:R134H	R	+	2	0	MRGPRX3	18115726	0.029000	0.19370	0.002000	0.10522	0.003000	0.03518	2.129000	0.42055	-0.874000	0.04027	-1.179000	0.01719	CGC		0.572	MRGPRX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389767.1	NM_054031		A	18159150	G	A	18159150	3	1	624	1	0	0	0	0	1	0	0	0	9775	1087	38	1	403	1	MRGPRX3	11	18159150	Missense_Mutation	SNP	G	TCGA-KL-8325-01A-11D-2310-10	13148238	18159150	116847366	40	38349										
OR5M1	390168	broad.mit.edu	37	chr11	56380362	56380363	+	Frame_Shift_Del	DEL	TT	TT	-													0	0	1	0	0	0	1	1	0	tgaagagagagcttgagagaTtaaagcctgcaactacaaac					rs186713638	byFrequency	TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr11:56380362_56380363delTT	ENST00000526538.1	-	1	615_616	c.616_617delAA	c.(616-618)aatfs	p.N206fs		NM_001004740.1	NP_001004740.1	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M, member 1	206						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			central_nervous_system(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|lung(7)|upper_aerodigestive_tract(1)	12						GCTTGAGAGATTAAAGCCTGCA	0.441																																																0																																										SO:0001589	frameshift_variant	390168			AB065742	CCDS53631.1	11q11	2012-08-09				ENSG00000255012		"GPCR / Class A : Olfactory receptors"	8352	protein-coding gene	gene with protein product							Standard	NM_001004740		Approved	OST050	uc001nja.1	Q8NGP8		ENST00000526538.1:c.616_617delAA	11.37:g.56380362_56380363delTT	ENSP00000435416:p.Asn206fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF60|Q96RB6	Frame_Shift_Del	DEL	ENST00000526538.1	37	CCDS53631.1																																																																																				0.441	OR5M1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391610.1	NM_001004740		-	56380363	TT	-	56380362	7	5	624	1	0	1	0	1	0	0	0	0	11179	1493	52	0	334	0	OR5M1	11	56380362	Frame_Shift_Del	DEL	TT	TCGA-KL-8325-01A-11D-2310-10	38221212	56380362	78626154	41	38350										
NCAPD3	23310	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr11	134073605	134073605	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tggtaacagtcaactccagaCagtgtgcaaagctggacagt	11	9	1	1	rs146266771	byFrequency	TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr11:134073605C>T	ENST00000534548.2	-	11	1476	c.1412G>A	c.(1411-1413)tGt>tAt	p.C471Y		NM_015261.2	NP_056076.1	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	471					mitotic cell cycle (GO:0000278)|mitotic chromosome condensation (GO:0007076)	germinal vesicle (GO:0042585)|membrane (GO:0016020)|nuclear condensin complex (GO:0000799)|nuclear pericentric heterochromatin (GO:0031618)|nucleoplasm (GO:0005654)	methylated histone binding (GO:0035064)			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(10)|kidney(5)|large_intestine(9)|liver(1)|lung(28)|ovary(3)|prostate(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	71	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		CAACTCCAGACAGTGTGCAAA	0.488																																																0													62	61	62					11																	134073605		2201	4297	6498	SO:0001583	missense	23310			AK124878	CCDS31723.1	11q25	2008-02-04			ENSG00000151503	ENSG00000151503			28952	protein-coding gene	gene with protein product		609276				7584044, 8619474, 14532007	Standard	NM_015261		Approved	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6	uc001qhd.1	P42695	OTTHUMG00000167172	ENST00000534548.2:c.1412G>A	11.37:g.134073605C>T	ENSP00000433681:p.Cys471Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFS2|Q4KMQ9	Missense_Mutation	SNP	ENST00000534548.2	37	CCDS31723.1	.	.	.	.	.	.	.	.	.	.	C	17.36	3.369032	0.61624	.	.	ENSG00000151503	ENST00000534548	T	0.65178	-0.14	5.88	4.96	0.65561	Armadillo-like helical (1);Armadillo-type fold (1);	0.085655	0.85682	D	0.000000	T	0.70228	0.3200	M	0.76328	2.33	0.80722	D	1	D	0.59357	0.985	P	0.49528	0.614	T	0.72290	-0.4337	10	0.37606	T	0.19	-15.444	17.0555	0.86532	0.0:0.873:0.127:0.0	.	471	P42695	CNDD3_HUMAN	Y	471	ENSP00000433681:C471Y	ENSP00000431612:C471Y	C	-	2	0	NCAPD3	133578815	1.000000	0.71417	0.737000	0.30932	0.704000	0.40688	6.297000	0.72757	1.461000	0.47929	0.655000	0.94253	TGT		0.488	NCAPD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393575.2	NM_015261		T	134073605	C	T	134073605	3	4	624	1	0	0	0	0	1	0	0	0	10213	478	17	2	3184	2	NCAPD3	11	134073605	Missense_Mutation	SNP	C	TCGA-KL-8325-01A-11D-2310-10	77693243	134073605	932911	42	38351										
CACNA1C	775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	2783696	2783696	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	caaggggctgaggatcctttCcgccctgcagggaacctaga	13	12	0	2			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr12:2783696C>T	ENST00000344100.3	+	39	4839	c.4839C>T	c.(4837-4839)ttC>ttT	p.F1613F	CACNA1C_ENST00000399644.1_Intron|CACNA1C_ENST00000399601.1_Intron|CACNA1C_ENST00000347598.4_Intron|CACNA1C_ENST00000406454.3_Intron|CACNA1C_ENST00000399603.1_Intron|CACNA1C_ENST00000399655.1_Intron|CACNA1C_ENST00000399641.1_Intron|CACNA1C_ENST00000399637.1_Silent_p.F1591F|CACNA1C_ENST00000399629.1_Intron|CACNA1C_ENST00000402845.3_Silent_p.F1591F|CACNA1C_ENST00000399606.1_Intron|CACNA1C_ENST00000335762.5_Intron|CACNA1C_ENST00000399597.1_Intron|CACNA1C-AS2_ENST00000545526.1_RNA|CACNA1C_ENST00000399638.1_Intron|CACNA1C_ENST00000327702.7_Intron|CACNA1C_ENST00000399634.1_Intron|CACNA1C-AS1_ENST00000501371.1_RNA|CACNA1C_ENST00000399595.1_Silent_p.F1580F|CACNA1C_ENST00000399591.1_Silent_p.F1580F|CACNA1C_ENST00000399617.1_Intron|CACNA1C_ENST00000399649.1_Silent_p.F1578F|CACNA1C_ENST00000399621.1_Silent_p.F1591F			Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type, alpha 1C subunit	1623					adult walking behavior (GO:0007628)|axon guidance (GO:0007411)|calcium ion import (GO:0070509)|calcium ion transport into cytosol (GO:0060402)|calcium ion-dependent exocytosis (GO:0017156)|calcium-mediated signaling using extracellular calcium source (GO:0035585)|cell communication by electrical coupling involved in cardiac conduction (GO:0086064)|energy reserve metabolic process (GO:0006112)|glucose homeostasis (GO:0042593)|growth hormone secretion (GO:0030252)|insulin secretion (GO:0030073)|membrane depolarization during action potential (GO:0086010)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|regulation of blood pressure (GO:0008217)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of insulin secretion (GO:0050796)|regulation of organ growth (GO:0046620)|regulation of vasoconstriction (GO:0019229)|small molecule metabolic process (GO:0044281)|smooth muscle contraction involved in micturition (GO:0060083)|synaptic transmission (GO:0007268)|visual learning (GO:0008542)	caveolar macromolecular signaling complex (GO:0002095)|cytoplasm (GO:0005737)|dendritic shaft (GO:0043198)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|voltage-gated calcium channel complex (GO:0005891)|Z disc (GO:0030018)	alpha-actinin binding (GO:0051393)|calmodulin binding (GO:0005516)|high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)			NS(3)|breast(4)|central_nervous_system(4)|cervix(2)|endometrium(12)|kidney(9)|large_intestine(20)|lung(55)|ovary(10)|pancreas(1)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)	132			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Amlodipine(DB00381)|Cinnarizine(DB00568)|Clevidipine(DB04920)|Dronedarone(DB04855)|Drotaverine(DB06751)|Felodipine(DB01023)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Verapamil(DB00661)	AGGATCCTTTCCGCCCTGCAG	0.602																																																0													19	25	23					12																	2783696		2155	4255	6410	SO:0001819	synonymous_variant	775			AF070589	CCDS44787.1, CCDS44788.1, CCDS44789.1, CCDS44790.1, CCDS44791.1, CCDS44792.1, CCDS44793.1, CCDS44794.1, CCDS44795.1, CCDS44796.1, CCDS44797.1, CCDS44798.1, CCDS44799.1, CCDS44800.1, CCDS44801.1, CCDS53733.1, CCDS53734.1, CCDS53735.1, CCDS53736.1	12p13.3	2014-09-17			ENSG00000151067	ENSG00000151067		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1390	protein-coding gene	gene with protein product		114205		CCHL1A1, CACNL1A1		1650913, 16382099	Standard	NM_001129832		Approved	Cav1.2, CACH2, CACN2, TS, LQT8	uc001qjy.3	Q13936	OTTHUMG00000150243	ENST00000344100.3:c.4839C>T	12.37:g.2783696C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RUT3|E9PDJ0|Q13917|Q13918|Q13919|Q13920|Q13921|Q13922|Q13923|Q13924|Q13925|Q13926|Q13927|Q13928|Q13929|Q13930|Q13932|Q13933|Q14743|Q14744|Q15877|Q4VMI7|Q4VMI8|Q4VMI9|Q6PKM7|Q8N6C0|Q99025|Q99241|Q99875	Silent	SNP	ENST00000344100.3	37	CCDS44792.1																																																																																				0.602	CACNA1C-021	KNOWN	non_canonical_conserved|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000317040.1	NM_000719		T	2783696	C	T	2783696	2	4	624	1	0	0	0	0	0	0	0	1	2542	854	30	2		2	CACNA1C	12	2783696	Silent	SNP	C	TCGA-KL-8325-01A-11D-2310-10		2783696	131068199	43	38352										
APOBEC1	339	broad.mit.edu;mdanderson.org	37	chr12	7802197	7802197	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gtagctaaaaggatgtgtggCggaatcgtttggtaatggca	15	4	0	0			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr12:7802197C>T	ENST00000229304.4	-	5	677	c.657G>A	c.(655-657)ccG>ccA	p.P219P		NM_001644.3	NP_001635.2	P41238	ABEC1_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic polypeptide 1	219					cellular response to insulin stimulus (GO:0032869)|cytidine deamination (GO:0009972)|cytidine to uridine editing (GO:0016554)|defense response to virus (GO:0051607)|DNA demethylation (GO:0080111)|gene expression (GO:0010467)|lipid metabolic process (GO:0006629)|lipoprotein biosynthetic process (GO:0042158)|lipoprotein transport (GO:0042953)|mRNA modification (GO:0016556)|mRNA processing (GO:0006397)|mRNA stabilization (GO:0048255)|negative regulation of methylation-dependent chromatin silencing (GO:0090310)|regulation of cell proliferation (GO:0042127)|response to calcium ion (GO:0051592)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to gamma radiation (GO:0010332)|response to osmotic stress (GO:0006970)|response to zinc ion (GO:0010043)|RNA processing (GO:0006396)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)	AU-rich element binding (GO:0017091)|cytidine deaminase activity (GO:0004126)|RNA binding (GO:0003723)|zinc ion binding (GO:0008270)			kidney(2)|large_intestine(2)|lung(10)|prostate(1)|skin(1)|stomach(1)	17						GGATGTGTGGCGGAATCGTTT	0.408																																					Pancreas(135;929 1826 4531 10527 41012)											0													177	160	166					12																	7802197		2203	4300	6503	SO:0001819	synonymous_variant	339			U72891	CCDS8579.1	12p13.1	2007-02-01			ENSG00000111701	ENSG00000111701		"Apolipoprotein B mRNA editing enzymes"	604	protein-coding gene	gene with protein product		600130					Standard	XM_005253355		Approved	BEDP, CDAR1, APOBEC-1, HEPR	uc001qtb.3	P41238	OTTHUMG00000141288	ENST00000229304.4:c.657G>A	12.37:g.7802197C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UE64|Q9UM71	Silent	SNP	ENST00000229304.4	37	CCDS8579.1																																																																																				0.408	APOBEC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280523.1	NM_001644		T	7802197	C	T	7802197	2	4	624	1	0	0	0	0	0	0	0	1	787	755	27	1		1	APOBEC1	12	7802197	Silent	SNP	C	TCGA-KL-8325-01A-11D-2310-10	5018501	7802197	126049698	44	38353										
PRH2	5555	broad.mit.edu	37	chr12	11083460	11083461	+	Frame_Shift_Ins	INS	-	-	C													0	0	1	0	0	0	1	1	0	caccccaacagggaggccatINSccccctcctcctcaaggaag							TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr12:11083460_11083461insC	ENST00000396400.3	+	3	338_339	c.300_301insC	c.(301-303)cccfs	p.P101fs	PRR4_ENST00000536668.1_Intron|PRH2_ENST00000381847.3_Frame_Shift_Ins_p.P101fs	NM_001110213.1	NP_001103683.1	P02810	PRPC_HUMAN	proline-rich protein HaeIII subfamily 2	101						extracellular space (GO:0005615)				breast(1)|endometrium(5)|kidney(2)|large_intestine(1)|lung(3)|upper_aerodigestive_tract(1)	13						AGGGAGGCCATCCCCCTCCTCC	0.644																																																0																																										SO:0001589	frameshift_variant	5555				CCDS8636.1	12p13.2	2012-10-02				ENSG00000134551			9367	protein-coding gene	gene with protein product	"parotid proline-rich protein", "acidic salivary proline-rich protein, HaeIII type, 2"	168790				3009472	Standard	NM_005042		Approved	Pr	uc001qzi.4	P02810		ENST00000396400.3:c.305dupC	12.37:g.11083465_11083465dupC	ENSP00000379682:p.Pro101fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2VCM0|A3KN66|A5D902|B2RMW2|Q4VBP2|Q53XA2|Q6P2F6	Frame_Shift_Ins	INS	ENST00000396400.3	37	CCDS8636.1																																																																																				0.644	PRH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400231.1	NM_001110213		C	11083461	-	C	11083460	7	5	624	1	0	1	1	0	0	0	0	0	12493	1432	50	0	310	0	PRH2	12	11083460	Frame_Shift_Ins	INS	-	TCGA-KL-8325-01A-11D-2310-10	3281263	11083460	122768435	45	38354										
TAS2R30	259293	mdanderson.org	37	chr12	11286797	11286797	+	Missense_Mutation	SNP	A	A	G													0	0	1	0	0	0	1	1	0	caaaatttccaataacaaatAtaaccactattagaatggaa							TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr12:11286797A>G	ENST00000539585.1	-	1	446	c.47T>C	c.(46-48)aTa>aCa	p.I16T	PRR4_ENST00000536668.1_Intron|TAS2R14_ENST00000381852.4_Intron	NM_001097643.1	NP_001091112.1	P59541	T2R30_HUMAN	taste receptor, type 2, member 30	16					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			autonomic_ganglia(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(4)|skin(1)	13						AATAACAAATATAACCACTAT	0.328																																																0													37	36	36					12																	11286797		1857	4109	5966	SO:0001583	missense	259293			AX097746, AF494233	CCDS53750.1	12p13.2	2012-08-22				ENSG00000256188		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19112	protein-coding gene	gene with protein product		613963	"taste receptor, type 2, member 47"	TAS2R47			Standard	NM_001097643		Approved	T2R30	uc009zhs.1	P59541		ENST00000539585.1:c.47T>C	12.37:g.11286797A>G	ENSP00000444736:p.Ile16Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q645X7	Missense_Mutation	SNP	ENST00000539585.1	37	CCDS53750.1	.	.	.	.	.	.	.	.	.	.	-	3.387	-0.125111	0.06795	.	.	ENSG00000256188	ENST00000539585	T	0.43294	0.95	3.32	-6.27	0.02026	.	.	.	.	.	T	0.17323	0.0416	N	0.16307	0.4	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.20638	-1.0269	9	0.21540	T	0.41	.	1.1532	0.01790	0.4816:0.113:0.1571:0.2483	.	16	P59541	T2R30_HUMAN	T	16	ENSP00000444736:I16T	ENSP00000444736:I16T	I	-	2	0	TAS2R30	11178064	0.000000	0.05858	0.000000	0.03702	0.051000	0.14879	-0.252000	0.08806	-0.959000	0.03618	-0.756000	0.03474	ATA		0.328	TAS2R30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400238.1	NM_001097643		G	11286797	A	G	11286797	3	3	624	1	0	0	0	0	1	0	0	0	15585	449	16	3	916	3	TAS2R30	12	11286797	Missense_Mutation	SNP	A	TCGA-KL-8325-01A-11D-2310-10	203337	11286797	122565098	46	38355	304	2	1	77		3	2	24	N	T_A	4.903497e-05
TAS2R30	259293	mdanderson.org	37	chr12	11286807	11286807	+	Missense_Mutation	SNP	T	T	C													0	0	1	0	0	0	1	1	0	aataacaaatataaccactaTtagaatggaaaaaatgatgg					rs113282241		TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr12:11286807T>C	ENST00000539585.1	-	1	436	c.37A>G	c.(37-39)Ata>Gta	p.I13V	PRR4_ENST00000536668.1_Intron|TAS2R14_ENST00000381852.4_Intron	NM_001097643.1	NP_001091112.1	P59541	T2R30_HUMAN	taste receptor, type 2, member 30	13					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			autonomic_ganglia(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(4)|skin(1)	13						ATAACCACTATTAGAATGGAA	0.333																																																0													34	32	33					12																	11286807		1831	4096	5927	SO:0001583	missense	259293			AX097746, AF494233	CCDS53750.1	12p13.2	2012-08-22				ENSG00000256188		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19112	protein-coding gene	gene with protein product		613963	"taste receptor, type 2, member 47"	TAS2R47			Standard	NM_001097643		Approved	T2R30	uc009zhs.1	P59541		ENST00000539585.1:c.37A>G	12.37:g.11286807T>C	ENSP00000444736:p.Ile13Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q645X7	Missense_Mutation	SNP	ENST00000539585.1	37	CCDS53750.1	.	.	.	.	.	.	.	.	.	.	-	0.010	-1.759083	0.00657	.	.	ENSG00000256188	ENST00000539585	T	0.37058	1.22	3.32	-6.48	0.01896	.	.	.	.	.	T	0.11067	0.0270	N	0.10707	0.03	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.34254	-0.9836	9	0.05351	T	0.99	.	3.7014	0.08384	0.4494:0.2835:0.0:0.2671	.	13	P59541	T2R30_HUMAN	V	13	ENSP00000444736:I13V	ENSP00000444736:I13V	I	-	1	0	TAS2R30	11178074	0.000000	0.05858	0.000000	0.03702	0.005000	0.04900	-6.625000	0.00059	-0.746000	0.04766	-1.972000	0.00464	ATA		0.333	TAS2R30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400238.1	NM_001097643		C	11286807	T	C	11286807	3	2	624	1	0	0	0	0	1	0	0	0	15585	1493	52	3	926	3	TAS2R30	12	11286807	Missense_Mutation	SNP	T	TCGA-KL-8325-01A-11D-2310-10	10	11286807	122565088	47	38356	304	2	1	77		3	2	24	N	T_A	4.903497e-05
TAS2R30	259293	mdanderson.org	37	chr12	11286820	11286820	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	accactattagaatggaaaaAatgatgggcagaaaagttat	9	4	0	3	rs111958076		TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr12:11286820A>T	ENST00000539585.1	-	1	423	c.24T>A	c.(22-24)atT>atA	p.I8I	PRR4_ENST00000536668.1_Intron|TAS2R14_ENST00000381852.4_Intron	NM_001097643.1	NP_001091112.1	P59541	T2R30_HUMAN	taste receptor, type 2, member 30	8					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			autonomic_ganglia(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(4)|skin(1)	13						GAATGGAAAAAATGATGGGCA	0.328																																																0													30	28	29					12																	11286820		1816	4079	5895	SO:0001819	synonymous_variant	259293			AX097746, AF494233	CCDS53750.1	12p13.2	2012-08-22				ENSG00000256188		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19112	protein-coding gene	gene with protein product		613963	"taste receptor, type 2, member 47"	TAS2R47			Standard	NM_001097643		Approved	T2R30	uc009zhs.1	P59541		ENST00000539585.1:c.24T>A	12.37:g.11286820A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q645X7	Silent	SNP	ENST00000539585.1	37	CCDS53750.1																																																																																				0.328	TAS2R30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400238.1	NM_001097643		T	11286820	A	T	11286820	2	4	624	1	0	0	0	0	0	0	0	1	15585	10	1	5		5	TAS2R30	12	11286820	Silent	SNP	A	TCGA-KL-8325-01A-11D-2310-10	13	11286820	122565075	48	38357			1	77		3	2	24	N	T_A	4.903497e-05
PCDH20	64881	broad.mit.edu;mdanderson.org	37	chr13	61989199	61989199	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gtgctgctcctgggacgatgTagacgccccatatccaggcg	13	13	0	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr13:61989199T>G	ENST00000409186.1	-	4	2198	c.93A>C	c.(91-93)ctA>ctC	p.L31L	PCDH20_ENST00000409204.4_Silent_p.L31L			Q8N6Y1	PCD20_HUMAN	protocadherin 20	31					homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|poly(A) RNA binding (GO:0044822)			breast(3)|central_nervous_system(2)|endometrium(3)|kidney(4)|large_intestine(14)|liver(1)|lung(23)|ovary(5)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	58		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		TGGGACGATGTAGACGCCCCA	0.642																																																0													33	28	30					13																	61989199		2203	4298	6501	SO:0001819	synonymous_variant	64881			AF169693	CCDS9442.2	13q21	2010-01-26			ENSG00000197991	ENSG00000197991		"Cadherins / Protocadherins : Non-clustered"	14257	protein-coding gene	gene with protein product		614449					Standard	NM_022843		Approved	PCDH13, FLJ22218	uc001vid.4	Q8N6Y1	OTTHUMG00000017012	ENST00000409186.1:c.93A>C	13.37:g.61989199T>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1K9|B1AQU2|Q8NDN4|Q9NRT9	Silent	SNP	ENST00000409186.1	37	CCDS9442.2																																																																																				0.642	PCDH20-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333054.2	NM_022843		G	61989199	T	G	61989199	2	3	624	1	0	0	0	0	0	0	0	1	11522	1625	57	5		5	PCDH20	13	61989199	Silent	SNP	T	TCGA-KL-8325-01A-11D-2310-10		61989199	53180679	49	38358										
PLEKHH1	57475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	68052685	68052685	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cagcaagtgcacatcacttaCccctactcttcagtgacaac	5	15	3	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr14:68052685C>A	ENST00000329153.5	+	28	3936	c.3804C>A	c.(3802-3804)taC>taA	p.Y1268*	PLEKHH1_ENST00000417684.2_Nonsense_Mutation_p.Y133*	NM_020715.2	NP_065766.1	Q9ULM0	PKHH1_HUMAN	pleckstrin homology domain containing, family H (with MyTH4 domain) member 1	1268	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.					cytoskeleton (GO:0005856)				endometrium(2)|kidney(4)|lung(12)|urinary_tract(1)	19				all cancers(60;0.000771)|OV - Ovarian serous cystadenocarcinoma(108;0.00502)|BRCA - Breast invasive adenocarcinoma(234;0.011)		ACATCACTTACCCCTACTCTT	0.498																																																0													250	248	249					14																	68052685		2023	4187	6210	SO:0001587	stop_gained	57475			AB033026	CCDS45128.1	14q24.1	2013-01-10				ENSG00000054690		"Pleckstrin homology (PH) domain containing"	17733	protein-coding gene	gene with protein product						10574462	Standard	NM_020715		Approved	KIAA1200	uc001xjl.1	Q9ULM0		ENST00000329153.5:c.3804C>A	14.37:g.68052685C>A	ENSP00000330278:p.Tyr1268*	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8X6|Q6PJL4|Q6ZWC7	Nonsense_Mutation	SNP	ENST00000329153.5	37	CCDS45128.1	.	.	.	.	.	.	.	.	.	.	C	43	9.867434	0.99283	.	.	ENSG00000054690	ENST00000329153;ENST00000417684	.	.	.	5.53	1.65	0.23941	.	0.122742	0.56097	D	0.000022	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	9.8137	0.40840	0.0:0.5563:0.0:0.4437	.	.	.	.	X	1268;133	.	ENSP00000330278:Y1268X	Y	+	3	2	PLEKHH1	67122438	0.604000	0.26932	0.999000	0.59377	0.998000	0.95712	-0.064000	0.11636	0.132000	0.18615	0.655000	0.94253	TAC		0.498	PLEKHH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412730.3	XM_031054		A	68052685	C	A	68052685	4	1	624	1	0	0	0	0	0	1	0	0	12083	518	18	4	3910	4	PLEKHH1	14	68052685	Nonsense_Mutation	SNP	C	TCGA-KL-8325-01A-11D-2310-10		68052685	39296855	50	38359										
STON2	85439	broad.mit.edu	37	chr14	81737175	81737175	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	aggcacttcccggtcagagcCgagttcaaggtggcaaaaga	13	10	2	2			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr14:81737175C>T	ENST00000267540.2	-	5	2652	c.2452G>A	c.(2452-2454)Ggc>Agc	p.G818S	STON2_ENST00000555447.1_Missense_Mutation_p.G818S	NM_033104.3	NP_149095.2	Q8WXE9	STON2_HUMAN	stonin 2	818	MHD. {ECO:0000255|PROSITE- ProRule:PRU00404}.				hematopoietic progenitor cell differentiation (GO:0002244)|intracellular protein transport (GO:0006886)|regulation of endocytosis (GO:0030100)|synaptic vesicle endocytosis (GO:0048488)	cell junction (GO:0030054)|clathrin adaptor complex (GO:0030131)|clathrin-coated vesicle (GO:0030136)|cytoplasm (GO:0005737)|neuron projection (GO:0043005)|nucleolus (GO:0005730)|synaptic vesicle (GO:0008021)				breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(13)|pancreas(2)|prostate(1)|skin(5)	34				BRCA - Breast invasive adenocarcinoma(234;0.0348)		CGGTCAGAGCCGAGTTCAAGG	0.498																																																0													99	85	90					14																	81737175		2203	4300	6503	SO:0001583	missense	85439			AB208948	CCDS9875.1, CCDS58332.1	14q31.1	2007-08-01				ENSG00000140022			30652	protein-coding gene	gene with protein product	"stoned B homolog 2 (Drosophila)"	608467				11381094, 11454741	Standard	NM_033104		Approved	STNB2, STN2	uc001xvk.2	Q8WXE9		ENST00000267540.2:c.2452G>A	14.37:g.81737175C>T	ENSP00000267540:p.Gly818Ser	Somatic		WXS	Illumina HiSeq	Phase_I	G3V2T7|Q17R24|Q59H11|Q6NT47|Q96RI7|Q96RU6	Missense_Mutation	SNP	ENST00000267540.2	37	CCDS9875.1	.	.	.	.	.	.	.	.	.	.	C	34	5.381129	0.95945	.	.	ENSG00000140022	ENST00000555447;ENST00000546306;ENST00000267540	T;T	0.18338	2.22;2.22	5.79	5.79	0.91817	Clathrin adaptor, mu subunit, C-terminal (3);	0.000000	0.85682	D	0.000000	T	0.36580	0.0972	L	0.39633	1.23	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.999	T	0.01397	-1.1365	10	0.49607	T	0.09	-28.5503	20.0371	0.97565	0.0:1.0:0.0:0.0	.	818;818	Q8WXE9;G3V2T7	STON2_HUMAN;.	S	818;830;818	ENSP00000450857:G818S;ENSP00000267540:G818S	ENSP00000267540:G818S	G	-	1	0	STON2	80806928	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.231000	0.78106	2.734000	0.93682	0.655000	0.94253	GGC		0.498	STON2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000413317.1	NM_033104		T	81737175	C	T	81737175	3	4	624	1	0	0	0	0	1	0	0	0	15330	652	23	1	267	1	STON2	14	81737175	Missense_Mutation	SNP	C	TCGA-KL-8325-01A-11D-2310-10	13684490	81737175	25612365	51	38360										
MAP1A	4130	hgsc.bcm.edu;bcgsc.ca	37	chr15	43819747	43819747	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctcctatctcacccaagagcCtccagtctgacactccaacc	4	19	2	2			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr15:43819747C>T	ENST00000300231.5	+	4	6526	c.6076C>T	c.(6076-6078)Ctc>Ttc	p.L2026F	MAP1A_ENST00000382031.1_Missense_Mutation_p.L2264F|MAP1A_ENST00000399453.1_Missense_Mutation_p.L2026F			P78559	MAP1A_HUMAN	microtubule-associated protein 1A	2026					microtubule cytoskeleton organization (GO:0000226)|sensory perception of sound (GO:0007605)	cytosol (GO:0005829)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)	structural molecule activity (GO:0005198)			breast(5)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(11)|liver(2)|lung(19)|ovary(5)|pancreas(3)|prostate(2)|skin(6)|soft_tissue(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	66		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)	ACCCAAGAGCCTCCAGTCTGA	0.607																																																0													62	66	65					15																	43819747		2022	4187	6209	SO:0001583	missense	4130			U38292	CCDS42031.1	15q15.3	2006-06-15			ENSG00000166963	ENSG00000166963			6835	protein-coding gene	gene with protein product		600178		MAP1L		7806212, 7629894	Standard	XM_005254385		Approved		uc001zrt.3	P78559	OTTHUMG00000059756	ENST00000300231.5:c.6076C>T	15.37:g.43819747C>T	ENSP00000300231:p.Leu2026Phe	Somatic		WXS	Illumina HiSeq	Phase_I	O95643|Q12973|Q15882|Q9UJT4	Missense_Mutation	SNP	ENST00000300231.5	37	CCDS42031.1	.	.	.	.	.	.	.	.	.	.	C	12.73	2.025026	0.35701	.	.	ENSG00000166963	ENST00000382031;ENST00000399453;ENST00000300231	T;T;T	0.01446	4.88;4.88;4.88	4.9	2.89	0.33648	.	0.590783	0.12936	N	0.426958	T	0.02767	0.0083	L	0.32530	0.975	0.24938	N	0.991877	P	0.45176	0.852	P	0.50896	0.653	T	0.45469	-0.9259	10	0.12430	T	0.62	-5.1836	10.2687	0.43470	0.354:0.646:0.0:0.0	.	2026	P78559	MAP1A_HUMAN	F	2264;2026;2026	ENSP00000371462:L2264F;ENSP00000382380:L2026F;ENSP00000300231:L2026F	ENSP00000300231:L2026F	L	+	1	0	MAP1A	41607039	0.295000	0.24389	0.952000	0.39060	0.993000	0.82548	0.962000	0.29280	1.249000	0.43950	0.655000	0.94253	CTC		0.607	MAP1A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000132894.5	NM_002373		T	43819747	C	T	43819747	3	4	624	1	0	0	0	0	1	0	0	0	9234	681	24	2	6078	2	MAP1A	15	43819747	Missense_Mutation	SNP	C	TCGA-KL-8325-01A-11D-2310-10		43819747	58711645	52	38361										
GALK2	2585	broad.mit.edu	37	chr15	49493438	49493438	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ttcgagcaccaggaagagtcAacataataggtatttcaaaa	8	7	2	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr15:49493438A>G	ENST00000560031.1	+	2	440	c.133A>G	c.(133-135)Aac>Gac	p.N45D	RN7SL307P_ENST00000490342.2_RNA|GALK2_ENST00000543495.1_5'UTR|GALK2_ENST00000327171.3_Missense_Mutation_p.N34D|GALK2_ENST00000396509.2_Missense_Mutation_p.N21D|GALK2_ENST00000559454.1_Missense_Mutation_p.N21D|GALK2_ENST00000544523.1_Missense_Mutation_p.N21D			Q01415	GALK2_HUMAN	galactokinase 2	45					carbohydrate metabolic process (GO:0005975)|galactose metabolic process (GO:0006012)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|galactokinase activity (GO:0004335)|N-acetylgalactosamine kinase activity (GO:0033858)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|liver(2)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	19		all_lung(180;0.000325)		all cancers(107;3.71e-08)|GBM - Glioblastoma multiforme(94;7e-05)		AGGAAGAGTCAACATAATAGG	0.284																																																0													65	62	63					15																	49493438		2196	4293	6489	SO:0001583	missense	2585				CCDS32236.1, CCDS42034.1, CCDS73724.1	15q21.1-q21.2	2013-09-20			ENSG00000156958	ENSG00000156958	2.7.1.6		4119	protein-coding gene	gene with protein product		137028					Standard	XM_005254279		Approved	GK2	uc001zxj.1	Q01415	OTTHUMG00000172325	ENST00000560031.1:c.133A>G	15.37:g.49493438A>G	ENSP00000453129:p.Asn45Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z4Q4	Missense_Mutation	SNP	ENST00000560031.1	37	CCDS42034.1	.	.	.	.	.	.	.	.	.	.	A	21.0	4.075302	0.76415	.	.	ENSG00000156958	ENST00000327171;ENST00000396509;ENST00000544523	D;D	0.95238	-3.65;-3.65	5.17	5.17	0.71159	Ribosomal protein S5 domain 2-type fold (1);Galactokinase, conserved site (1);Galactokinase galactose-binding domain (1);Ribosomal protein S5 domain 2-type fold, subgroup (1);	0.000000	0.85682	D	0.000000	D	0.97841	0.9291	M	0.93328	3.405	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	D	0.98842	1.0755	10	0.72032	D	0.01	0.2608	14.2904	0.66273	1.0:0.0:0.0:0.0	.	45;34	Q01415;Q7Z4Q4	GALK2_HUMAN;.	D	34;45;21	ENSP00000316632:N34D;ENSP00000440312:N21D	ENSP00000316632:N34D	N	+	1	0	GALK2	47280730	1.000000	0.71417	1.000000	0.80357	0.907000	0.53573	5.522000	0.67092	2.077000	0.62373	0.379000	0.24179	AAC		0.284	GALK2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000417854.1			G	49493438	A	G	49493438	3	3	624	1	0	0	0	0	1	0	0	0	6211	130	5	3	163	3	GALK2	15	49493438	Missense_Mutation	SNP	A	TCGA-KL-8325-01A-11D-2310-10	5673691	49493438	53037954	53	38362										
ALDH1A3	220	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	101427815	101427815	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gtggaggctgcacaggttgcCttccagaggggctcgccatg	16	11	0	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr15:101427815C>A	ENST00000329841.5	+	3	775	c.243C>A	c.(241-243)gcC>gcA	p.A81A	ALDH1A3_ENST00000346623.6_Silent_p.A81A|ALDH1A3_ENST00000560555.1_3'UTR|RP11-66B24.8_ENST00000558568.1_lincRNA	NM_000693.2	NP_000684.2	P47895	AL1A3_HUMAN	aldehyde dehydrogenase 1 family, member A3	81					embryonic eye morphogenesis (GO:0048048)|face development (GO:0060324)|inner ear morphogenesis (GO:0042472)|locomotory behavior (GO:0007626)|neuromuscular process controlling balance (GO:0050885)|nucleus accumbens development (GO:0021768)|olfactory pit development (GO:0060166)|optic cup morphogenesis involved in camera-type eye development (GO:0002072)|positive regulation of apoptotic process (GO:0043065)|retinal metabolic process (GO:0042574)|retinoic acid biosynthetic process (GO:0002138)|retinoic acid metabolic process (GO:0042573)|retinol metabolic process (GO:0042572)|righting reflex (GO:0060013)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	aldehyde dehydrogenase (NAD) activity (GO:0004029)|aldehyde dehydrogenase [NAD(P)+] activity (GO:0004030)|NAD+ binding (GO:0070403)|protein homodimerization activity (GO:0042803)|thyroid hormone binding (GO:0070324)			NS(1)|central_nervous_system(2)|endometrium(3)|large_intestine(7)|lung(9)|pancreas(1)|prostate(2)|skin(1)|urinary_tract(1)	27	Lung NSC(78;0.00144)|all_lung(78;0.0018)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)		Vitamin A(DB00162)	CACAGGTTGCCTTCCAGAGGG	0.637																																																0													83	84	84					15																	101427815		2203	4300	6503	SO:0001819	synonymous_variant	220			U07919	CCDS10389.1	15q26	2010-05-07			ENSG00000184254	ENSG00000184254	1.2.1.5	"Aldehyde dehydrogenases"	409	protein-coding gene	gene with protein product	"retinaldehyde dehydrogenase 3"	600463		ALDH6		7698756	Standard	XR_111558		Approved	RALDH3	uc002bwn.4	P47895	OTTHUMG00000149870	ENST00000329841.5:c.243C>A	15.37:g.101427815C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6NT64	Silent	SNP	ENST00000329841.5	37	CCDS10389.1																																																																																				0.637	ALDH1A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313620.2			A	101427815	C	A	101427815	2	1	624	1	0	0	0	0	0	0	0	1	492	668	24	4		4	ALDH1A3	15	101427815	Silent	SNP	C	TCGA-KL-8325-01A-11D-2310-10	51934377	101427815	1103577	54	38363										
CLN3	1201	broad.mit.edu	37	chr16	28503050	28503051	+	Frame_Shift_Ins	INS	-	-	C													0	0	1	0	0	0	1	1	0	tcaccctcggaatccgaaaaINSgcgccgccgcgagcctgcac					rs374055075		TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr16:28503050_28503051insC	ENST00000569430.1	-	3	849_850	c.30_31insG	c.(28-33)cgctttfs	p.F11fs	APOBR_ENST00000564831.1_5'Flank|CLN3_ENST00000568224.1_5'UTR|CLN3_ENST00000357806.7_Frame_Shift_Ins_p.F11fs|CLN3_ENST00000355477.5_Frame_Shift_Ins_p.F11fs|CLN3_ENST00000360019.2_Frame_Shift_Ins_p.F11fs|CLN3_ENST00000354630.5_Frame_Shift_Ins_p.F11fs|CLN3_ENST00000567160.1_5'Flank|APOBR_ENST00000431282.1_5'Flank|CLN3_ENST00000395653.4_5'UTR|CLN3_ENST00000357857.9_5'UTR|CLN3_ENST00000357076.5_Frame_Shift_Ins_p.F11fs|CLN3_ENST00000565316.1_Frame_Shift_Ins_p.F11fs|CLN3_ENST00000359984.7_Frame_Shift_Ins_p.F11fs|CLN3_ENST00000567963.1_Frame_Shift_Ins_p.F11fs|APOBR_ENST00000328423.5_5'Flank|CLN3_ENST00000333496.9_Frame_Shift_Ins_p.F11fs|CLN3_ENST00000535392.1_5'UTR			Q13286	CLN3_HUMAN	ceroid-lipofuscinosis, neuronal 3	11					action potential (GO:0001508)|amyloid precursor protein catabolic process (GO:0042987)|arginine transport (GO:0015809)|associative learning (GO:0008306)|autophagic vacuole fusion (GO:0000046)|cell death (GO:0008219)|cellular amino acid metabolic process (GO:0006520)|ceramide metabolic process (GO:0006672)|cytosolic calcium ion homeostasis (GO:0051480)|galactosylceramide metabolic process (GO:0006681)|globoside metabolic process (GO:0001575)|glucosylceramide metabolic process (GO:0006678)|ionotropic glutamate receptor signaling pathway (GO:0035235)|lysosomal lumen acidification (GO:0007042)|lysosomal lumen pH elevation (GO:0035752)|lysosome organization (GO:0007040)|macroautophagy (GO:0016236)|membrane organization (GO:0061024)|negative regulation of apoptotic process (GO:0043066)|negative regulation of catalytic activity (GO:0043086)|negative regulation of macroautophagy (GO:0016242)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of proteolysis (GO:0045861)|neuromuscular process controlling balance (GO:0050885)|neurotransmitter metabolic process (GO:0042133)|protein catabolic process (GO:0030163)|protein processing (GO:0016485)|receptor-mediated endocytosis (GO:0006898)|sphingomyelin metabolic process (GO:0006684)|vacuolar transport (GO:0007034)|vesicle transport along microtubule (GO:0047496)	autophagic vacuole (GO:0005776)|caveola (GO:0005901)|cytoplasm (GO:0005737)|early endosome (GO:0005769)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi stack (GO:0005795)|integral component of endoplasmic reticulum membrane (GO:0030176)|integral component of membrane (GO:0016021)|late endosome (GO:0005770)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|membrane raft (GO:0045121)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)|trans-Golgi network (GO:0005802)	unfolded protein binding (GO:0051082)			breast(1)|large_intestine(2)|lung(11)|upper_aerodigestive_tract(1)	15						GAATCCGAAAAGCGCCGCCGCG	0.653											OREG0023706	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0																																										SO:0001589	frameshift_variant	1201			U32680	CCDS10632.1, CCDS73852.1, CCDS73853.1, CCDS73854.1, CCDS73855.1	16p12	2014-09-17	2008-07-29		ENSG00000188603	ENSG00000188603			2074	protein-coding gene	gene with protein product	"juvenile neuronal ceroid lipofuscinosis"	607042	"Batten, Spielmeyer-Vogt disease"	BTS		18317235	Standard	NM_001042432		Approved	JNCL	uc002dpp.3	Q13286	OTTHUMG00000097024	ENST00000569430.1:c.30_31insG	16.37:g.28503050_28503051insC	ENSP00000454229:p.Phe11fs	Somatic	802	WXS	Illumina HiSeq	Phase_I	B2R7J1|O00668|O95089|Q549S9|Q9UP09|Q9UP11|Q9UP12|Q9UP13|Q9UP14	Frame_Shift_Ins	INS	ENST00000569430.1	37	CCDS10632.1																																																																																				0.653	CLN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214115.2			C	28503051	-	C	28503050	7	5	624	1	0	1	1	0	0	0	0	0	3545	72	3	0	1345	0	CLN3	16	28503050	Frame_Shift_Ins	INS	-	TCGA-KL-8325-01A-11D-2310-10		28503050	61851703	55	38364										
HAS3	3038	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr16	69148916	69148916	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	atctggctggggcacctctgGccgaaaaaccattgtggtga	13	10	2	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr16:69148916G>A	ENST00000306560.1	+	4	1565	c.1409G>A	c.(1408-1410)gGc>gAc	p.G470D	HAS3_ENST00000569188.1_Missense_Mutation_p.G470D|HAS3_ENST00000219322.3_Intron	NM_005329.2	NP_005320.2	O00219	HYAS3_HUMAN	hyaluronan synthase 3	470					carbohydrate metabolic process (GO:0005975)|extracellular matrix assembly (GO:0085029)|extracellular polysaccharide biosynthetic process (GO:0045226)|glycosaminoglycan metabolic process (GO:0030203)|hyaluronan biosynthetic process (GO:0030213)|hyaluronan metabolic process (GO:0030212)|positive regulation of hyaluranon cable assembly (GO:1900106)|positive regulation of transcription, DNA-templated (GO:0045893)|small molecule metabolic process (GO:0044281)	hyaluranon cable (GO:0036117)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	hyaluronan synthase activity (GO:0050501)			cervix(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(5)|urinary_tract(2)	16		Ovarian(137;0.101)		OV - Ovarian serous cystadenocarcinoma(108;0.0694)		GGCACCTCTGGCCGAAAAACC	0.532																																																0													156	143	147					16																	69148916		2198	4300	6498	SO:0001583	missense	3038			BC021853	CCDS10870.1, CCDS10871.1	16q22.1	2013-02-22			ENSG00000103044	ENSG00000103044	2.4.1.212	"Glycosyltransferase family 2 domain containing"	4820	protein-coding gene	gene with protein product		602428				9169154, 9083017	Standard	NM_005329		Approved		uc010cfh.3	O00219	OTTHUMG00000137562	ENST00000306560.1:c.1409G>A	16.37:g.69148916G>A	ENSP00000304440:p.Gly470Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5T5|Q8WTZ0|Q9NYP0	Missense_Mutation	SNP	ENST00000306560.1	37	CCDS10871.1	.	.	.	.	.	.	.	.	.	.	G	23.6	4.438313	0.83885	.	.	ENSG00000103044	ENST00000306560	T	0.51071	0.72	5.76	5.76	0.90799	.	0.000000	0.85682	D	0.000000	T	0.74222	0.3688	M	0.85197	2.74	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.76634	-0.2887	10	0.72032	D	0.01	0.7811	19.9192	0.97079	0.0:0.0:1.0:0.0	.	470	O00219	HAS3_HUMAN	D	470	ENSP00000304440:G470D	ENSP00000304440:G470D	G	+	2	0	HAS3	67706417	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.751000	0.98889	2.882000	0.98803	0.655000	0.94253	GGC		0.532	HAS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268898.2	NM_138612		A	69148916	G	A	69148916	3	1	624	1	0	0	0	0	1	0	0	0	6970	1203	42	2	1419	2	HAS3	16	69148916	Missense_Mutation	SNP	G	TCGA-KL-8325-01A-11D-2310-10	40645866	69148916	21205837	56	38365										
LHX1	3975	broad.mit.edu	37	chr17	35297586	35297587	+	Splice_Site	INS	-	-	C													0	0	1	0	0	0	1	1	0	ccacccccacccccccgcagINSgtgtttcggtaccaaatgcg					rs199890217		TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr17:35297586_35297587insC	ENST00000254457.5	+	2	1581_1582		c.e2-1		RP11-445F12.2_ENST00000607336.1_RNA	NM_005568.3	NP_005559.2	P48742	LHX1_HUMAN	LIM homeobox 1						anatomical structure formation involved in morphogenesis (GO:0048646)|anatomical structure morphogenesis (GO:0009653)|anterior/posterior axis specification (GO:0009948)|anterior/posterior pattern specification (GO:0009952)|branching involved in ureteric bud morphogenesis (GO:0001658)|cell-cell signaling (GO:0007267)|cellular response to fibroblast growth factor stimulus (GO:0044344)|cerebellar Purkinje cell differentiation (GO:0021702)|cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation (GO:0021937)|cerebellum development (GO:0021549)|cervix development (GO:0060067)|comma-shaped body morphogenesis (GO:0072049)|dorsal/ventral pattern formation (GO:0009953)|ectoderm formation (GO:0001705)|embryonic pattern specification (GO:0009880)|embryonic retina morphogenesis in camera-type eye (GO:0060059)|embryonic viscerocranium morphogenesis (GO:0048703)|endoderm formation (GO:0001706)|epithelium development (GO:0060429)|forebrain regionalization (GO:0021871)|gastrulation with mouth forming second (GO:0001702)|head development (GO:0060322)|horizontal cell localization (GO:0035852)|kidney development (GO:0001822)|lateral motor column neuron migration (GO:0097477)|mesonephric duct development (GO:0072177)|metanephric comma-shaped body morphogenesis (GO:0072278)|metanephric glomerulus development (GO:0072224)|metanephric part of ureteric bud development (GO:0035502)|metanephric renal vesicle morphogenesis (GO:0072283)|metanephric S-shaped body morphogenesis (GO:0072284)|motor neuron axon guidance (GO:0008045)|negative regulation of transcription, DNA-templated (GO:0045892)|nephric duct elongation (GO:0035849)|nephric duct morphogenesis (GO:0072178)|nervous system development (GO:0007399)|organ morphogenesis (GO:0009887)|oviduct development (GO:0060066)|oviduct epithelium development (GO:0035846)|paramesonephric duct development (GO:0061205)|pattern specification process (GO:0007389)|positive regulation of anterior head development (GO:2000744)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|positive regulation of embryonic development (GO:0040019)|positive regulation of gastrulation (GO:2000543)|positive regulation of nephron tubule epithelial cell differentiation (GO:2000768)|positive regulation of transcription, DNA-templated (GO:0045893)|post-embryonic development (GO:0009791)|primitive streak formation (GO:0090009)|pronephros development (GO:0048793)|regulation of gene expression (GO:0010468)|renal vesicle morphogenesis (GO:0072077)|retina layer formation (GO:0010842)|S-shaped body morphogenesis (GO:0072050)|somite rostral/caudal axis specification (GO:0032525)|spinal cord association neuron differentiation (GO:0021527)|telencephalon development (GO:0021537)|transcription from RNA polymerase II promoter (GO:0006366)|ureteric bud development (GO:0001657)|urogenital system development (GO:0001655)|uterine epithelium development (GO:0035847)|uterus development (GO:0060065)|vagina development (GO:0060068)|ventral spinal cord development (GO:0021517)	nucleus (GO:0005634)|protein complex (GO:0043234)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			NS(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(1)|lung(5)|ovary(1)|prostate(1)|skin(1)	16		Breast(25;0.00607)				cccccCCGCAGGTGTTTCGGTA	0.644																																																0																																										SO:0001630	splice_region_variant	3975			U14755	CCDS11316.1	17q12	2014-04-11			ENSG00000132130	ENSG00000273706		"Homeoboxes / LIM class"	6593	protein-coding gene	gene with protein product		601999				9212161	Standard	NM_005568		Approved	LIM-1, LIM1	uc002hnh.2	P48742	OTTHUMG00000188456	ENST00000254457.5:c.171-1->C	17.37:g.35297586_35297587insC		Somatic		WXS	Illumina HiSeq	Phase_I	Q3MIW0	Splice_Site	INS	ENST00000254457.5	37	CCDS11316.1																																																																																				0.644	LHX1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000256704.3	NM_005568	Intron	C	35297587	-	C	35297586	8	5	624	1	0	1	1	0	0	0	1	0	8777	1014	35	0	176	0	LHX1	17	35297586	Splice_Site	INS	-	TCGA-KL-8325-01A-11D-2310-10		35297586	45897624	57	38366										
ACBD4	79777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	43215198	43215198	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	agcagctggagcctgagctgGtgagcccagtccccattccc	12	15	0	2			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr17:43215198G>A	ENST00000376955.4	+	7	870		c.e7+1		ACBD4_ENST00000321854.8_Splice_Site|ACBD4_ENST00000398322.3_Splice_Site|ACBD4_ENST00000431281.1_Splice_Site|ACBD4_ENST00000586346.1_Splice_Site|ACBD4_ENST00000592162.1_Splice_Site|ACBD4_ENST00000591136.1_Splice_Site|ACBD4_ENST00000591859.1_Splice_Site	NM_001135707.1	NP_001129179.1	Q8NC06	ACBD4_HUMAN	acyl-CoA binding domain containing 4								fatty-acyl-CoA binding (GO:0000062)|lipid binding (GO:0008289)			kidney(1)|lung(3)|ovary(1)	5						GCCTGAGCTGGTGAGCCCAGT	0.607																																																0													84	92	89					17																	43215198		2067	4211	6278	SO:0001630	splice_region_variant	79777			BC029164	CCDS42348.1, CCDS45710.1, CCDS45711.1	17q21.31	2012-10-02	2010-04-30		ENSG00000181513	ENSG00000181513			23337	protein-coding gene	gene with protein product			"acyl-Coenzyme A binding domain containing 4"				Standard	NM_001135704		Approved	FLJ13322	uc002iie.3	Q8NC06	OTTHUMG00000180111	ENST00000376955.4:c.573+1G>A	17.37:g.43215198G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DX64|Q8IUT1|Q9H8Q4	Splice_Site	SNP	ENST00000376955.4	37	CCDS45711.1	.	.	.	.	.	.	.	.	.	.	G	18.89	3.718556	0.68844	.	.	ENSG00000181513	ENST00000431281;ENST00000321854;ENST00000398322;ENST00000376955	.	.	.	4.93	4.93	0.64822	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.6437	0.77029	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	ACBD4	40570724	1.000000	0.71417	1.000000	0.80357	0.893000	0.52053	7.418000	0.80167	2.294000	0.77228	0.555000	0.69702	.		0.607	ACBD4-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000449816.1	NM_024722	Intron	A	43215198	G	A	43215198	5	1	624	1	0	0	0	0	0	0	1	0	124	1275	44	2	634	2	ACBD4	17	43215198	Splice_Site	SNP	G	TCGA-KL-8325-01A-11D-2310-10	7917612	43215198	37980012	58	38367										
TTLL6	284076	broad.mit.edu	37	chr17	46882179	46882179	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cttgctgctgggcattctgaAgtccgttttgtgcccctggg	13	11	1	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr17:46882179A>G	ENST00000393382.3	-	2	419	c.278T>C	c.(277-279)cTt>cCt	p.L93P	TTLL6_ENST00000470462.2_5'Flank	NM_001130918.1	NP_001124390.1			tubulin tyrosine ligase-like family, member 6											endometrium(1)|large_intestine(5)|lung(9)|prostate(1)|skin(2)	18						GGCATTCTGAAGTCCGTTTTG	0.498											OREG0024527	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													75	67	70					17																	46882179		692	1591	2283	SO:0001583	missense	284076			AK093127	CCDS11537.2, CCDS45724.1	17q21.32	2013-02-14			ENSG00000170703	ENSG00000170703		"Tubulin tyrosine ligase-like family"	26664	protein-coding gene	gene with protein product		610849				15890843	Standard	NM_173623		Approved	FLJ35808	uc021tzm.1	Q8N841	OTTHUMG00000156978	ENST00000393382.3:c.278T>C	17.37:g.46882179A>G	ENSP00000377043:p.Leu93Pro	Somatic	942	WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000393382.3	37	CCDS45724.1	.	.	.	.	.	.	.	.	.	.	A	1.864	-0.461996	0.04508	.	.	ENSG00000170703	ENST00000440941;ENST00000393382;ENST00000456415;ENST00000418322	.	.	.	5.08	1.37	0.22104	.	0.740636	0.10225	U	0.700467	T	0.41811	0.1175	M	0.65975	2.015	0.18873	N	0.999983	B	0.15141	0.012	B	0.15052	0.012	T	0.46830	-0.9163	9	0.87932	D	0	.	2.7808	0.05360	0.5947:0.0:0.2178:0.1875	.	45	Q8N841	TTLL6_HUMAN	P	93;45;45;95	.	ENSP00000365871:L45P	L	-	2	0	TTLL6	44237178	0.982000	0.34865	0.005000	0.12908	0.002000	0.02628	2.401000	0.44513	0.478000	0.27488	-0.290000	0.09829	CTT		0.498	TTLL6-003	KNOWN	downstream_ATG|non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346939.3	NM_173623		G	46882179	A	G	46882179	3	3	624	1	0	0	0	0	1	0	0	0	16743	72	3	3	2534	3	TTLL6	17	46882179	Missense_Mutation	SNP	A	TCGA-KL-8325-01A-11D-2310-10	3666981	46882179	34313031	59	38368										
SERPINB12	89777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	61223519	61223519	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cagctgcccttggtatggtaCgcttgggtgctagaagtgac	14	9	0	2	rs199538877	byFrequency	TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr18:61223519C>T	ENST00000269491.1	+	1	127	c.127C>T	c.(127-129)Cgc>Tgc	p.R43C	SERPINB12_ENST00000382768.1_Missense_Mutation_p.R43C	NM_080474.1	NP_536722.1	Q96P63	SPB12_HUMAN	serpin peptidase inhibitor, clade B (ovalbumin), member 12	43					hematopoietic progenitor cell differentiation (GO:0002244)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of protein catabolic process (GO:0042177)|regulation of proteolysis (GO:0030162)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	enzyme binding (GO:0019899)|serine-type endopeptidase inhibitor activity (GO:0004867)			kidney(1)|large_intestine(5)|lung(19)|skin(1)	26						TGGTATGGTACGCTTGGGTGC	0.453													C|||	2	0.000399361	0.0015	0.0	5008	,	,		22058	0.0		0.0	False		,,,				2504	0.0															0								C	CYS/ARG	2,4404	4.2+/-10.8	0,2,2201	196	184	188		127	3.1	1	18		188	0,8600		0,0,4300	yes	missense	SERPINB12	NM_080474.1	180	0,2,6501	TT,TC,CC		0.0,0.0454,0.0154	probably-damaging	43/406	61223519	2,13004	2203	4300	6503	SO:0001583	missense	89777			AF411191	CCDS11984.1	18q21.33	2014-02-18	2005-08-18		ENSG00000166634	ENSG00000166634		"Serine (or cysteine) peptidase inhibitors"	14220	protein-coding gene	gene with protein product		615662	"serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 12"			24172014	Standard	NM_080474		Approved	YUKOPIN	uc010xen.2	Q96P63	OTTHUMG00000132789	ENST00000269491.1:c.127C>T	18.37:g.61223519C>T	ENSP00000269491:p.Arg43Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q3SYB4	Missense_Mutation	SNP	ENST00000269491.1	37	CCDS11984.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	C	11.14	1.550237	0.27652	4.54E-4	0.0	ENSG00000166634	ENST00000269491;ENST00000382768	D;D	0.82711	-1.64;-1.64	5.13	3.09	0.35607	Serpin domain (3);	0.311822	0.28388	N	0.015534	D	0.86875	0.6038	M	0.70595	2.14	0.09310	N	1	D;D	0.89917	1.0;1.0	D;D	0.69824	0.963;0.966	T	0.76366	-0.2985	10	0.56958	D	0.05	.	4.0413	0.09753	0.1525:0.5687:0.1318:0.147	.	43;43	Q3SYB4;Q96P63	.;SPB12_HUMAN	C	43	ENSP00000269491:R43C;ENSP00000372218:R43C	ENSP00000269491:R43C	R	+	1	0	SERPINB12	59374499	0.002000	0.14202	0.969000	0.41365	0.134000	0.20937	1.015000	0.29963	1.139000	0.42245	0.655000	0.94253	CGC		0.453	SERPINB12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256197.1	NM_080474		T	61223519	C	T	61223519	3	4	624	1	0	0	0	0	1	0	0	0	14112	536	19	1	129	1	SERPINB12	18	61223519	Missense_Mutation	SNP	C	TCGA-KL-8325-01A-11D-2310-10		61223519	16853729	60	38369										
CNDP1	84735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	72238436	72238436	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgcaggtgaaatgcagagacCaggattttcactcaggaacc	11	9	2	2			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr18:72238436C>A	ENST00000358821.3	+	7	1000	c.772C>A	c.(772-774)Cag>Aag	p.Q258K	CNDP1_ENST00000582365.1_Missense_Mutation_p.Q215K	NM_032649.5	NP_116038	Q96KN2	CNDP1_HUMAN	carnosine dipeptidase 1 (metallopeptidase M20 family)	258						extracellular region (GO:0005576)	carboxypeptidase activity (GO:0004180)|dipeptidase activity (GO:0016805)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)|tripeptidase activity (GO:0034701)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(4)|lung(12)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	27		Esophageal squamous(42;0.129)|Prostate(75;0.157)|Melanoma(33;0.211)		BRCA - Breast invasive adenocarcinoma(31;0.109)		ATGCAGAGACCAGGATTTTCA	0.408																																					Melanoma(32;1029 1042 25286 38395 44237)											0													195	171	179					18																	72238436		2203	4300	6503	SO:0001583	missense	84735				CCDS12007.1	18q22.3	2014-07-14			ENSG00000150656	ENSG00000150656	3.4.13.20		20675	protein-coding gene	gene with protein product	"carnosinase 1", "glutamate carboxypeptidase-like protein 2"	609064				12473676	Standard	NM_032649		Approved	MGC10825, CN1, CPGL2, HsT2308	uc002llq.3	Q96KN2	OTTHUMG00000132852	ENST00000358821.3:c.772C>A	18.37:g.72238436C>A	ENSP00000351682:p.Gln258Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q14D40|Q17S05|Q2TBG0|Q6UWK2|Q9BT98	Missense_Mutation	SNP	ENST00000358821.3	37	CCDS12007.1	.	.	.	.	.	.	.	.	.	.	C	3.515	-0.098898	0.07010	.	.	ENSG00000150656	ENST00000358821	T	0.54279	0.58	5.82	5.82	0.92795	Peptidase M20, dimerisation (1);	0.177016	0.49916	D	0.000127	T	0.30510	0.0767	N	0.11000	0.08	0.44168	D	0.996974	B	0.32717	0.381	B	0.34242	0.178	T	0.22277	-1.0221	10	0.05620	T	0.96	-22.3205	12.8776	0.57999	0.2657:0.7343:0.0:0.0	.	258	Q96KN2	CNDP1_HUMAN	K	258	ENSP00000351682:Q258K	ENSP00000351682:Q258K	Q	+	1	0	CNDP1	70389416	0.926000	0.31397	0.996000	0.52242	0.822000	0.46500	1.507000	0.35758	2.765000	0.95021	0.591000	0.81541	CAG		0.408	CNDP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256326.1	NM_032649		A	72238436	C	A	72238436	3	1	624	1	0	0	0	0	1	0	0	0	3595	595	21	4	798	4	CNDP1	18	72238436	Missense_Mutation	SNP	C	TCGA-KL-8325-01A-11D-2310-10	11014917	72238436	5838812	61	38370										
MUC16	94025	broad.mit.edu	37	chr19	9054266	9054267	+	Frame_Shift_Ins	INS	-	-	G													0	0	1	0	0	0	1	1	0	caggcgaagtggatgtctgaINSgggcctttgactggtcttat							TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr19:9054266_9054267insG	ENST00000397910.4	-	4	31558_31559	c.31355_31356insC	c.(31354-31356)cctfs	p.P10452fs		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	10454	Thr-rich.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TGGATGTCTGAGGGCCTTTGAC	0.47																																																0																																										SO:0001589	frameshift_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.31356dupC	19.37:g.9054269_9054269dupG	ENSP00000381008:p.Pro10452fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Frame_Shift_Ins	INS	ENST00000397910.4	37	CCDS54212.1																																																																																				0.47	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		G	9054267	-	G	9054266	7	5	624	1	0	1	1	0	0	0	0	0	9980	291	11	0	12491	0	MUC16	19	9054266	Frame_Shift_Ins	INS	-	TCGA-KL-8325-01A-11D-2310-10		9054266	50074717	62	38371										
ZNF560	147741	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	9578613	9578613	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	taatgtgtgtttcaacatttAcagcatggcttgtggagtga	11	5	1	1			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr19:9578613A>T	ENST00000301480.4	-	10	1223	c.1010T>A	c.(1009-1011)gTa>gAa	p.V337E		NM_152476.2	NP_689689.2	Q96MR9	ZN560_HUMAN	zinc finger protein 560	337					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)	p.V337A(1)		NS(1)|breast(3)|endometrium(3)|kidney(2)|large_intestine(16)|liver(2)|lung(24)|ovary(2)|pancreas(1)|prostate(1)|skin(5)|stomach(1)|upper_aerodigestive_tract(4)	65						TTCAACATTTACAGCATGGCT	0.393																																																1	Substitution - Missense(1)	upper_aerodigestive_tract(1)											181	159	166					19																	9578613		2203	4300	6503	SO:0001583	missense	147741			AK056548	CCDS12214.1	19p13.2	2013-09-20			ENSG00000198028	ENSG00000198028		"Zinc fingers, C2H2-type", "-"	26484	protein-coding gene	gene with protein product							Standard	NM_152476		Approved	FLJ31986	uc002mlp.1	Q96MR9	OTTHUMG00000180130	ENST00000301480.4:c.1010T>A	19.37:g.9578613A>T	ENSP00000301480:p.Val337Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q495S9|Q495T1	Missense_Mutation	SNP	ENST00000301480.4	37	CCDS12214.1	.	.	.	.	.	.	.	.	.	.	A	10.41	1.342909	0.24339	.	.	ENSG00000198028	ENST00000301480	T	0.06933	3.24	1.68	-2.74	0.05932	.	.	.	.	.	T	0.03915	0.0110	L	0.32530	0.975	0.09310	N	1	B	0.30634	0.288	B	0.26416	0.069	T	0.42616	-0.9441	9	0.02654	T	1	.	3.5508	0.07845	0.4454:0.355:0.0:0.1996	.	337	Q96MR9	ZN560_HUMAN	E	337	ENSP00000301480:V337E	ENSP00000301480:V337E	V	-	2	0	ZNF560	9439613	0.000000	0.05858	0.000000	0.03702	0.170000	0.22686	-1.280000	0.02804	-0.728000	0.04882	0.402000	0.26972	GTA		0.393	ZNF560-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449901.1	NM_152476		T	9578613	A	T	9578613	3	4	624	1	0	0	0	0	1	0	0	0	18003	391	14	5	1366	5	ZNF560	19	9578613	Missense_Mutation	SNP	A	TCGA-KL-8325-01A-11D-2310-10	524347	9578613	49550370	63	38372										
ZNF561	93134	broad.mit.edu	37	chr19	9724753	9724753	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	accctgctgaagtgatgaccGtttggttctaggttgtattt	11	7	1	3	rs144117005	byFrequency	TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr19:9724753G>A	ENST00000302851.3	-	5	631	c.268C>T	c.(268-270)Cgg>Tgg	p.R90W	ZNF561_ENST00000354661.4_Intron|ZNF561_ENST00000495503.1_5'UTR|ZNF561_ENST00000424629.1_Missense_Mutation_p.R21W|ZNF561_ENST00000326044.5_Intron	NM_152289.2	NP_689502.2	Q8N587	ZN561_HUMAN	zinc finger protein 561	90	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|endometrium(1)|kidney(2)|large_intestine(3)|lung(5)|ovary(1)	14						AGTGATGACCGTTTGGTTCTA	0.313													g|||	5	0.000998403	0.0023	0.0	5008	,	,		17928	0.001		0.0	False		,,,				2504	0.001															0								G	TRP/ARG	2,4404	2.1+/-5.4	0,2,2201	124	125	125		268	-3.4	0	19	dbSNP_134	125	0,8600		0,0,4300	no	missense	ZNF561	NM_152289.2	101	0,2,6501	AA,AG,GG		0.0,0.0454,0.0154	benign	90/487	9724753	2,13004	2203	4300	6503	SO:0001583	missense	93134			AK074787	CCDS12216.2	19p13.2	2013-09-20			ENSG00000171469	ENSG00000171469		"Zinc fingers, C2H2-type", "-"	28684	protein-coding gene	gene with protein product						12477932	Standard	NM_152289		Approved	MGC45408	uc002mlu.3	Q8N587	OTTHUMG00000157054	ENST00000302851.3:c.268C>T	19.37:g.9724753G>A	ENSP00000303915:p.Arg90Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2Q8|Q6PJS0	Missense_Mutation	SNP	ENST00000302851.3	37	CCDS12216.2	3	0.0013736263736263737	3	0.006097560975609756	0	0.0	0	0.0	0	0.0	G	2.871	-0.233968	0.05983	4.54E-4	0.0	ENSG00000171469	ENST00000424629;ENST00000302851;ENST00000444611	T;T;T	0.08720	3.06;5.67;5.67	1.69	-3.38	0.04883	Krueppel-associated box (3);	.	.	.	.	T	0.04452	0.0122	L	0.47190	1.495	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.32798	-0.9893	9	0.36615	T	0.2	.	4.5719	0.12214	0.3643:0.2443:0.3914:0.0	.	90	Q8N587	ZN561_HUMAN	W	21;90;96	ENSP00000393074:R21W;ENSP00000303915:R90W;ENSP00000392013:R96W	ENSP00000303915:R90W	R	-	1	2	ZNF561	9585753	0.000000	0.05858	0.000000	0.03702	0.011000	0.07611	-4.901000	0.00172	-1.810000	0.01230	-1.011000	0.02470	CGG		0.313	ZNF561-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347272.2	NM_152289		A	9724753	G	A	9724753	3	1	624	1	0	0	0	0	1	0	0	0	18004	1144	40	1	1200	1	ZNF561	19	9724753	Missense_Mutation	SNP	G	TCGA-KL-8325-01A-11D-2310-10	146140	9724753	49404230	64	38373										
OCEL1	79629	mdanderson.org	37	chr19	17337557	17337557	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cgacgccccccgcaggacccGcccatcagcccggaaacccc	9	23	1	0	rs10425488	byFrequency	TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr19:17337557G>T	ENST00000215061.4	+	2	169	c.125G>T	c.(124-126)cGc>cTc	p.R42L	OCEL1_ENST00000601576.1_3'UTR|OCEL1_ENST00000597836.1_5'UTR|OCEL1_ENST00000601529.1_Missense_Mutation_p.R42L	NM_024578.1	NP_078854.1	Q9H607	OCEL1_HUMAN	occludin/ELL domain containing 1	42	Pro-rich.		R -> L (in dbSNP:rs10425488).							central_nervous_system(2)|endometrium(2)|kidney(1)|lung(2)	7						CGCAGGACCCGCCCATCAGCC	0.746													G|||	385	0.076877	0.115	0.0836	5008	,	,		10155	0.001		0.0755	False		,,,				2504	0.1002															0								G	LEU/ARG	300,3398		14,272,1563	4	6	6		125	3	0.1	19	dbSNP_119	6	480,6968		14,452,3258	no	missense	OCEL1	NM_024578.1	102	28,724,4821	TT,TG,GG		6.4447,8.1125,6.998	possibly-damaging	42/265	17337557	780,10366	1849	3724	5573	SO:0001583	missense	79629			BC029361	CCDS12351.1	19p13.11	2008-02-05				ENSG00000099330			26221	protein-coding gene	gene with protein product						12477932	Standard	NM_024578		Approved	FLJ22709	uc002nfp.3	Q9H607		ENST00000215061.4:c.125G>T	19.37:g.17337557G>T	ENSP00000215061:p.Arg42Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000215061.4	37	CCDS12351.1	142	0.06501831501831502	54	0.10975609756097561	30	0.08287292817679558	0	0.0	58	0.07651715039577836	G	16.23	3.063736	0.55432	0.081125	0.064447	ENSG00000099330	ENST00000215061	T	0.32988	1.43	3.01	3.01	0.34805	.	0.596543	0.14714	N	0.302724	T	0.00666	0.0022	N	0.19112	0.55	0.80722	P	0.0	D	0.76494	0.999	D	0.79108	0.992	T	0.04855	-1.0922	9	0.39692	T	0.17	-18.151	6.1073	0.20081	0.1412:0.0:0.8588:0.0	rs10425488	42	Q9H607	OCEL1_HUMAN	L	42	ENSP00000215061:R42L	ENSP00000215061:R42L	R	+	2	0	OCEL1	17198557	0.003000	0.15002	0.067000	0.19924	0.403000	0.30841	0.226000	0.17776	2.001000	0.58596	0.491000	0.48974	CGC		0.746	OCEL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463307.1	NM_024578		T	17337557	G	T	17337557	3	4	624	1	0	0	0	0	1	0	0	0	10823	1087	38	4	131	4	OCEL1	19	17337557	Missense_Mutation	SNP	G	TCGA-KL-8325-01A-11D-2310-10	7612804	17337557	41791426	65	38374										
PSG1	5669	mdanderson.org	37	chr19	43383680	43383680	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctctcctcacctgtgagcagGagccccttccatttgatgcg	9	15	2	2	rs1141653	byFrequency	TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr19:43383680G>T	ENST00000436291.2	-	1	170	c.54C>A	c.(52-54)ctC>ctA	p.L18L	PSG1_ENST00000403380.3_Silent_p.L18L|PSG1_ENST00000595124.1_Silent_p.L18L|PSG1_ENST00000244296.2_Silent_p.L18L|PSG1_ENST00000595356.1_Silent_p.L18L|PSG1_ENST00000312439.6_Silent_p.L18L|PSG1_ENST00000601073.1_5'UTR	NM_001184825.1|NM_001184826.1	NP_001171754.1|NP_001171755.1	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	18					female pregnancy (GO:0007565)	extracellular region (GO:0005576)				breast(2)|endometrium(4)|kidney(2)|large_intestine(5)|lung(9)|ovary(3)|prostate(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)	30		Prostate(69;0.00682)				CTGTGAGCAGGAGCCCCTTCC	0.552													.|||	1633	0.326078	0.4614	0.2046	5008	,	,		18648	0.4167		0.1014	False		,,,				2504	0.3671															0								G	,,	1275,1745		292,691,527	157	140	146		54,54,54	0.4	0.1	19	dbSNP_86	146	576,4838		45,486,2176	no	coding-synonymous,coding-synonymous,coding-synonymous	PSG1	NM_001184825.1,NM_001184826.1,NM_006905.2	,,	337,1177,2703	TT,TG,GG		10.6391,42.2185,21.9469	,,	18/420,18/418,18/427	43383680	1851,6583	1510	2707	4217	SO:0001819	synonymous_variant	5669				CCDS12612.1, CCDS54275.1, CCDS59392.1, CCDS74380.1	19q13.2	2013-01-29			ENSG00000231924	ENSG00000231924		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9514	protein-coding gene	gene with protein product		176390		PSBG1			Standard	NM_006905		Approved	PSGGA, CD66f, PBG1		P11464	OTTHUMG00000151123	ENST00000436291.2:c.54C>A	19.37:g.43383680G>T		Somatic		WXS	Illumina HiSeq	Phase_I	O75236|P11462|P11463|Q15231|Q15241|Q15243|Q16660|Q6ICR4|Q9P1W5|Q9UQ79	Silent	SNP	ENST00000436291.2	37	CCDS54275.1																																																																																				0.552	PSG1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000321426.1			T	43383680	G	T	43383680	2	4	624	1	0	0	0	0	0	0	0	1	12663	1161	41	4		4	PSG1	19	43383680	Silent	SNP	G	TCGA-KL-8325-01A-11D-2310-10	26046123	43383680	15745303	66	38375										
SYMPK	8189	bcgsc.ca	37	chr19	46319186	46319186	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gtcgtcatccatgctgatgaAgatgcccggggtctcgcact	12	12	2	3			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr19:46319186A>G	ENST00000245934.7	-	26	3854	c.3610T>C	c.(3610-3612)Ttc>Ctc	p.F1204L	RSPH6A_ENST00000597055.1_5'Flank|SYMPK_ENST00000598155.1_5'UTR|RSPH6A_ENST00000221538.3_5'Flank	NM_004819.2	NP_004810.2	Q92797	SYMPK_HUMAN	symplekin	1204					cell adhesion (GO:0007155)|mRNA polyadenylation (GO:0006378)|positive regulation of protein dephosphorylation (GO:0035307)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|tight junction (GO:0005923)				breast(3)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(7)|liver(1)|lung(25)|ovary(1)|urinary_tract(1)	45		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		ATGCTGATGAAGATGCCCGGG	0.687																																																0													16	17	17					19																	46319186		2185	4264	6449	SO:0001583	missense	8189			U49240	CCDS12676.2	19q13.3	2008-02-05			ENSG00000125755	ENSG00000125755			22935	protein-coding gene	gene with protein product		602388				9330635	Standard	NM_004819		Approved	SYM, SPK	uc002pdn.3	Q92797	OTTHUMG00000150151	ENST00000245934.7:c.3610T>C	19.37:g.46319186A>G	ENSP00000245934:p.Phe1204Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O00521|O00689|O00733|Q59GT5|Q8N2U5	Missense_Mutation	SNP	ENST00000245934.7	37	CCDS12676.2	.	.	.	.	.	.	.	.	.	.	A	23.8	4.463226	0.84425	.	.	ENSG00000125755	ENST00000245934	.	.	.	4.24	4.24	0.50183	.	0.360544	0.26163	N	0.025976	T	0.36552	0.0971	N	0.24115	0.695	0.39418	D	0.966874	B	0.29037	0.231	B	0.24701	0.055	T	0.40701	-0.9549	9	0.87932	D	0	.	9.7033	0.40200	1.0:0.0:0.0:0.0	.	1204	Q92797	SYMPK_HUMAN	L	1204	.	ENSP00000245934:F1204L	F	-	1	0	SYMPK	51011026	1.000000	0.71417	1.000000	0.80357	0.822000	0.46500	3.177000	0.50871	1.795000	0.52594	0.241000	0.17934	TTC		0.687	SYMPK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316581.1	NM_004819		G	46319186	A	G	46319186	3	3	624	1	0	0	0	0	1	0	0	0	15451	72	3	3	222	3	SYMPK	19	46319186	Missense_Mutation	SNP	A	TCGA-KL-8325-01A-11D-2310-10	2935506	46319186	12809797	67	38376										
GLTSCR2	29997	mdanderson.org	37	chr19	48258772	48258772	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gacaagccccgaaggctgggGcggctcaagtgagaaccagg	16	11	1	1	rs11083895	byFrequency	TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr19:48258772G>A	ENST00000246802.5	+	9	1259	c.1221G>A	c.(1219-1221)ggG>ggA	p.G407G	GLTSCR2_ENST00000598681.1_3'UTR|CTD-2571L23.6_ENST00000602048.1_RNA|SNORD23_ENST00000408876.1_RNA	NM_015710.4	NP_056525.2	Q9NZM5	GSCR2_HUMAN	glioma tumor suppressor candidate region gene 2	407						intracellular (GO:0005622)|intracellular membrane-bounded organelle (GO:0043231)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)			central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)	15		all_cancers(25;1.47e-06)|all_lung(116;6.89e-05)|all_epithelial(76;0.000108)|Lung NSC(112;0.000117)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000301)|OV - Ovarian serous cystadenocarcinoma(262;0.00031)|Epithelial(262;0.0149)|GBM - Glioblastoma multiforme(486;0.0278)		GAAGGCTGGGGCGGCTCAAGT	0.716													G|||	2618	0.522764	0.2315	0.5519	5008	,	,		7627	0.5575		0.672	False		,,,				2504	0.7065				Colon(58;613 1041 9473 10089 15241)											0								G		1117,1057		287,543,257	1	2	2		1221	2.9	1	19	dbSNP_120	2	4101,1193		1647,807,193	no	coding-synonymous	GLTSCR2	NM_015710.4		1934,1350,450	AA,AG,GG		22.5349,48.6201,30.1285		407/479	48258772	5218,2250	1087	2647	3734	SO:0001819	synonymous_variant	29997			AF182076	CCDS12705.1	19q13.3	2014-01-20				ENSG00000105373			4333	protein-coding gene	gene with protein product		605691				10708517, 16971513, 17657248	Standard	NM_015710		Approved	PICT-1	uc002phm.2	Q9NZM5		ENST00000246802.5:c.1221G>A	19.37:g.48258772G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BTC6|Q9HAX6|Q9NPP1|Q9NPR4|Q9UFI2	Silent	SNP	ENST00000246802.5	37	CCDS12705.1																																																																																				0.716	GLTSCR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464870.1	NM_015710		A	48258772	G	A	48258772	2	1	624	1	0	0	0	0	0	0	0	1	6482	1190	42	2		2	GLTSCR2	19	48258772	Silent	SNP	G	TCGA-KL-8325-01A-11D-2310-10	1939586	48258772	10870211	68	38377										
TOP1	7150	broad.mit.edu	37	chr20	39708803	39708803	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gatataaagccattaaagagAcctcgagatgaggatgagtg	12	5	0	4			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr20:39708803A>G	ENST00000361337.2	+	6	664	c.414A>G	c.(412-414)agA>agG	p.R138R		NM_003286.2	NP_003277.1	P11387	TOP1_HUMAN	topoisomerase (DNA) I	138	Lys-rich.				chromatin remodeling (GO:0006338)|chromosome segregation (GO:0007059)|DNA replication (GO:0006260)|DNA topological change (GO:0006265)|embryonic cleavage (GO:0040016)|phosphorylation (GO:0016310)|programmed cell death (GO:0012501)|response to drug (GO:0042493)|viral process (GO:0016032)	cytoplasmic mRNA processing body (GO:0000932)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perikaryon (GO:0043204)|replication fork protection complex (GO:0031298)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|DNA topoisomerase type I activity (GO:0003917)|DNA topoisomerase type II (ATP-hydrolyzing) activity (GO:0003918)|poly(A) RNA binding (GO:0044822)			breast(5)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(8)|lung(11)|ovary(3)|prostate(1)|skin(2)|urinary_tract(1)	37		Myeloproliferative disorder(115;0.00878)			Irinotecan(DB00762)|Lucanthone(DB04967)|Sodium stibogluconate(DB05630)|Topotecan(DB01030)	CATTAAAGAGACCTCGAGATG	0.318			T	NUP98	AML*																																		Dom	yes		20	20q12-q13.1	7150	topoisomerase (DNA) I		L	0													72	70	71					20																	39708803		2203	4299	6502	SO:0001819	synonymous_variant	7150				CCDS13312.1	20q12-q13.1	1990-06-22			ENSG00000198900	ENSG00000198900	5.99.1.2		11986	protein-coding gene	gene with protein product		126420					Standard	NM_003286		Approved		uc010ggd.1	P11387	OTTHUMG00000033057	ENST00000361337.2:c.414A>G	20.37:g.39708803A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8KA78|E1P5W3|O43256|Q12855|Q12856|Q15610|Q5TFY3|Q9UJN0	Silent	SNP	ENST00000361337.2	37	CCDS13312.1																																																																																				0.318	TOP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080397.2			G	39708803	A	G	39708803	2	3	624	1	0	0	0	0	0	0	0	1	16375	272	10	3		3	TOP1	20	39708803	Silent	SNP	A	TCGA-KL-8325-01A-11D-2310-10		39708803	23316717	69	38378										
MYT1	4661	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr20	62839675	62839675	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgcaggacatgatgacccggGgaaacctgggcctcctggag	15	11	0	2			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr20:62839675G>A	ENST00000328439.1	+	7	1490	c.1126G>A	c.(1126-1128)Gga>Aga	p.G376R	MYT1_ENST00000536311.1_Missense_Mutation_p.G376R|MYT1_ENST00000360149.4_Intron	NM_004535.2	NP_004526.1	Q99640	PMYT1_HUMAN	myelin transcription factor 1	0					G1/S transition of mitotic cell cycle (GO:0000082)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of phosphatase activity (GO:0010923)|regulation of cell cycle (GO:0051726)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of mitosis (GO:0007088)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|kinase activity (GO:0016301)|metal ion binding (GO:0046872)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(12)|liver(1)|lung(17)|ovary(5)|prostate(2)|skin(2)|soft_tissue(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	55	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					GATGACCCGGGGAAACCTGGG	0.637																																					GBM(59;481 1041 20555 21139 33705)											0													68	62	64					20																	62839675		2203	4300	6503	SO:0001583	missense	4661			M96980	CCDS13558.1	20q13.33	2014-03-24			ENSG00000196132	ENSG00000196132		"Zinc fingers, C2HC-type containing"	7622	protein-coding gene	gene with protein product	"neural zinc finger transcription factor 2"	600379		PLPB1		1280325, 9268380	Standard	NM_004535		Approved	MTF1, MYTI, ZC2HC4A, NZF2	uc002yii.3	Q01538	OTTHUMG00000149988	ENST00000328439.1:c.1126G>A	20.37:g.62839675G>A	ENSP00000327465:p.Gly376Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B3KUN8|B4DXD4|D3DUA4|F8W164|I3L1V2|O14731|Q7LE24|Q8TCM9	Missense_Mutation	SNP	ENST00000328439.1	37	CCDS13558.1	.	.	.	.	.	.	.	.	.	.	g	19.02	3.746509	0.69418	.	.	ENSG00000196132	ENST00000328439;ENST00000536311	T;T	0.28255	2.57;1.62	4.46	4.46	0.54185	.	0.000000	0.85682	D	0.000000	T	0.59074	0.2167	M	0.81112	2.525	0.80722	D	1	D;D	0.89917	1.0;0.996	D;D	0.97110	1.0;0.957	T	0.67245	-0.5719	10	0.87932	D	0	-33.6868	17.157	0.86794	0.0:0.0:1.0:0.0	.	376;376	F5H7M8;Q01538	.;MYT1_HUMAN	R	376	ENSP00000327465:G376R;ENSP00000442412:G376R	ENSP00000327465:G376R	G	+	1	0	MYT1	62310119	1.000000	0.71417	0.926000	0.36857	0.963000	0.63663	9.529000	0.98049	2.051000	0.60960	0.450000	0.29827	GGA		0.637	MYT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080297.1	NM_004535		A	62839675	G	A	62839675	3	1	624	1	0	0	0	0	1	0	0	0	10113	1233	43	2	1144	2	MYT1	20	62839675	Missense_Mutation	SNP	G	TCGA-KL-8325-01A-11D-2310-10	23130872	62839675	185845	70	38379										
PKDREJ	10343	broad.mit.edu	37	chr22	46657795	46657795	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	caatttaggaacaaagaaaaTctatcagagacaatgaagtt	7	5	2	3			TCGA-KL-8325-01A-11D-2310-10	TCGA-KL-8325-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fc0e0e8-1b0f-400c-b4cf-126193283695	4ff5a4a6-94f8-4f4c-ae7c-9b1ddb971fb7	g.chr22:46657795T>A	ENST00000253255.5	-	1	1424	c.1425A>T	c.(1423-1425)agA>agT	p.R475S		NM_006071.1	NP_006062.1	Q9NTG1	PKDRE_HUMAN	polycystin (PKD) family receptor for egg jelly	475	REJ. {ECO:0000255|PROSITE- ProRule:PRU00511}.				acrosome reaction (GO:0007340)|calcium ion transmembrane transport (GO:0070588)|detection of mechanical stimulus (GO:0050982)|neuropeptide signaling pathway (GO:0007218)|regulation of acrosome reaction (GO:0060046)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)			NS(2)|breast(7)|central_nervous_system(1)|cervix(3)|endometrium(4)|kidney(5)|large_intestine(21)|lung(16)|ovary(2)|prostate(6)|skin(4)|upper_aerodigestive_tract(2)	73		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		ACAAAGAAAATCTATCAGAGA	0.393																																																0													98	103	101					22																	46657795		2203	4300	6503	SO:0001583	missense	10343			AF116458	CCDS14073.1	22q13.31	2013-07-31	2013-07-31		ENSG00000130943	ENSG00000130943			9015	protein-coding gene	gene with protein product		604670	"polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly, sea urchin homolog)-like", "polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly homolog, sea urchin)-like", "polycystic kidney disease (polycystin) and REJ homolog (sperm receptor for egg jelly homolog, sea urchin)"			9949214, 10591208	Standard	NM_006071		Approved		uc003bhh.3	Q9NTG1	OTTHUMG00000150493	ENST00000253255.5:c.1425A>T	22.37:g.46657795T>A	ENSP00000253255:p.Arg475Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B1AJY3|O95850	Missense_Mutation	SNP	ENST00000253255.5	37	CCDS14073.1	.	.	.	.	.	.	.	.	.	.	T	12.93	2.084923	0.36758	.	.	ENSG00000130943	ENST00000253255	T	0.71461	-0.57	5.18	0.561	0.17285	Egg jelly receptor, REJ-like (1);PKD/REJ-like protein (1);	0.142710	0.31020	N	0.008419	T	0.77824	0.4188	M	0.62723	1.935	0.33455	D	0.584177	D	0.89917	1.0	D	0.91635	0.999	T	0.78079	-0.2344	10	0.27785	T	0.31	-15.3402	10.8303	0.46656	0.0:0.4797:0.0:0.5203	.	475	Q9NTG1	PKDRE_HUMAN	S	475	ENSP00000253255:R475S	ENSP00000253255:R475S	R	-	3	2	PKDREJ	45036459	0.928000	0.31464	0.128000	0.21923	0.007000	0.05969	-0.015000	0.12634	-0.159000	0.11021	-0.274000	0.10170	AGA		0.393	PKDREJ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318466.1	NM_006071		A	46657795	T	A	46657795	3	1	624	1	0	0	0	0	1	0	0	0	11977	1432	50	5	5340	5	PKDREJ	22	46657795	Missense_Mutation	SNP	T	TCGA-KL-8325-01A-11D-2310-10		46657795	4646771	71	38380										
SPEN	23013	broad.mit.edu	37	chr1	16260459	16260459	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	acatgaggccccgcccccgcCagttgactctaaaaagcctt	8	16	1	2			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr1:16260459C>T	ENST00000375759.3	+	11	7928	c.7724C>T	c.(7723-7725)cCa>cTa	p.P2575L		NM_015001.2	NP_055816.2	Q96T58	MINT_HUMAN	spen family transcriptional repressor	2575	RID.				negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|Notch signaling pathway (GO:0007219)|positive regulation of neurogenesis (GO:0050769)|positive regulation of transcription, DNA-templated (GO:0045893)|viral process (GO:0016032)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding transcription factor activity (GO:0003700)|single-stranded DNA binding (GO:0003697)|transcription corepressor activity (GO:0003714)			NS(1)|breast(13)|central_nervous_system(3)|cervix(5)|endometrium(16)|kidney(18)|large_intestine(27)|liver(2)|lung(37)|ovary(7)|prostate(7)|skin(7)|upper_aerodigestive_tract(5)|urinary_tract(1)	149		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)		CCGCCCCCGCCAGTTGACTCT	0.522																																																0													73	84	81					1																	16260459		2203	4300	6503	SO:0001583	missense	23013				CCDS164.1	1p36	2013-10-17	2013-10-17		ENSG00000065526	ENSG00000065526		"RNA binding motif (RRM) containing"	17575	protein-coding gene	gene with protein product		613484	"SPEN homolog, transcriptional regulator (Drosophila)", "spen homolog, transcriptional regulator (Drosophila)"			10451362, 11331609	Standard	NM_015001		Approved	KIAA0929, MINT, SHARP, RBM15C	uc001axk.1	Q96T58	OTTHUMG00000009376	ENST00000375759.3:c.7724C>T	1.37:g.16260459C>T	ENSP00000364912:p.Pro2575Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H9A8|Q9NWH5|Q9UQ01|Q9Y556	Missense_Mutation	SNP	ENST00000375759.3	37	CCDS164.1	.	.	.	.	.	.	.	.	.	.	C	6.140	0.394125	0.11638	.	.	ENSG00000065526	ENST00000375759	T	0.09350	2.99	5.38	3.46	0.39613	.	.	.	.	.	T	0.12561	0.0305	L	0.50333	1.59	0.20403	N	0.999907	B	0.24258	0.1	B	0.21708	0.036	T	0.16660	-1.0395	9	0.29301	T	0.29	-0.4291	14.2989	0.66334	0.2718:0.7282:0.0:0.0	.	2575	Q96T58	MINT_HUMAN	L	2575	ENSP00000364912:P2575L	ENSP00000364912:P2575L	P	+	2	0	SPEN	16133046	0.000000	0.05858	0.014000	0.15608	0.688000	0.40055	0.853000	0.27777	0.616000	0.30141	0.561000	0.74099	CCA		0.522	SPEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025993.1	NM_015001		T	16260459	C	T	16260459	3	4	625	1	0	0	0	0	1	0	0	0	15050	594	21	2	7766	2	SPEN	1	16260459	Missense_Mutation	SNP	C	TCGA-KL-8326-01A-11D-2310-10		16260459	232990162	1	38381										
SPATA21	374955	broad.mit.edu	37	chr1	16731518	16731518	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gggccagcgtcacagagaagCccattaggagcaggatattc	13	10	1	1	rs140528029		TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr1:16731518C>T	ENST00000335496.1	-	8	1237	c.755G>A	c.(754-756)gGc>gAc	p.G252D	SPATA21_ENST00000540400.1_Missense_Mutation_p.G229D|SPATA21_ENST00000466212.1_5'UTR	NM_198546.1	NP_940948.1	Q7Z572	SPT21_HUMAN	spermatogenesis associated 21	252							calcium ion binding (GO:0005509)			breast(1)|endometrium(2)|lung(8)|ovary(2)|pancreas(3)|stomach(1)|urinary_tract(2)	19		Colorectal(325;0.000147)|Renal(390;0.00145)|Lung NSC(340;0.00215)|Breast(348;0.00224)|all_lung(284;0.00351)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(227;1.15e-05)|BRCA - Breast invasive adenocarcinoma(304;4.2e-05)|Kidney(64;0.000183)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.0122)|READ - Rectum adenocarcinoma(331;0.0651)		CACAGAGAAGCCCATTAGGAG	0.587																																																0													109	91	97					1																	16731518		2203	4300	6503	SO:0001583	missense	374955				CCDS172.1	1p36.13	2013-01-10			ENSG00000187144	ENSG00000187144		"EF-hand domain containing"	28026	protein-coding gene	gene with protein product							Standard	NM_198546		Approved	spergen-2, spergen2	uc001ayn.3	Q7Z572	OTTHUMG00000002312	ENST00000335496.1:c.755G>A	1.37:g.16731518C>T	ENSP00000335612:p.Gly252Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B9EK40|F5GXP5	Missense_Mutation	SNP	ENST00000335496.1	37	CCDS172.1	.	.	.	.	.	.	.	.	.	.	C	15.88	2.962510	0.53400	.	.	ENSG00000187144	ENST00000335496;ENST00000540400	D;D	0.84298	-1.83;-1.83	4.53	4.53	0.55603	EF-hand-like domain (1);	0.000000	0.56097	D	0.000032	D	0.92799	0.7710	M	0.88979	2.995	0.40552	D	0.98112	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	D	0.93990	0.7266	10	0.87932	D	0	-17.4912	12.9323	0.58294	0.0:1.0:0.0:0.0	.	229;252	F5GXP5;Q7Z572	.;SPT21_HUMAN	D	252;229	ENSP00000335612:G252D;ENSP00000440046:G229D	ENSP00000335612:G252D	G	-	2	0	SPATA21	16604105	1.000000	0.71417	0.998000	0.56505	0.294000	0.27393	2.231000	0.43009	2.505000	0.84491	0.313000	0.20887	GGC		0.587	SPATA21-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000006677.2	NM_198546		T	16731518	C	T	16731518	3	4	625	1	0	0	0	0	1	0	0	0	15019	739	26	2	678	2	SPATA21	1	16731518	Missense_Mutation	SNP	C	TCGA-KL-8326-01A-11D-2310-10	471059	16731518	232519103	2	38382										
AKR7L	246181	mdanderson.org	37	chr1	19600376	19600377	+	RNA	DNP	TT	TT	GC													0	0	1	0	0	0	1	1	0	tctgcagtcgctgctgcccaTtcggagccccaggccgccaa					rs565823852|rs539454439	byFrequency	TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr1:19600376_19600377TT>GC	ENST00000429712.1	-	0	311_312				AKR7L_ENST00000420396.2_RNA			Q8NHP1	ARK74_HUMAN	aldo-keto reductase family 7-like							extracellular vesicular exosome (GO:0070062)	oxidoreductase activity (GO:0016491)			breast(1)|endometrium(2)|ovary(1)|prostate(1)|urinary_tract(1)	6						CTGCTGCCCATTCGGAGCCCCA	0.673																																																0																																												246181					1p36.1-p35	2008-12-09			ENSG00000211454	ENSG00000211454			24056	protein-coding gene	gene with protein product		608478				12879023	Standard	NR_040288		Approved	AFAR3	uc021ohn.1	Q8NHP1	OTTHUMG00000002520	ENST00000429712.1:c.192_193delinsGC	1.37:g.19600376_19600377delinsGC		Somatic		WXS	Illumina HiSeq	Phase_I	Q5U614	RNA	DNP	ENST00000429712.1	37																																																																																					0.673	AKR7L-001	KNOWN	basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000007163.3	NM_201252		GC	19600377	TT	GC	19600376	1	3	625	0	1	0	0	0	0	0	0	0	477	1493	52	5		5	AKR7L	1	19600376	RNA	DNP	TT	TCGA-KL-8326-01A-11D-2310-10	2868858	19600376	229650245	3	38383										
SYCP1	6847	broad.mit.edu	37	chr1	115418696	115418696	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	actttatatttcagaaaatgAtaacagcttttgaggaactt	6	5	1	3			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr1:115418696A>G	ENST00000369522.3	+	10	904	c.664A>G	c.(664-666)Ata>Gta	p.I222V	SYCP1_ENST00000369518.1_Missense_Mutation_p.I222V	NM_001282541.1|NM_003176.2	NP_001269470.1|NP_003167.2	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	222					chiasma assembly (GO:0051026)|lateral element assembly (GO:0051878)|meiotic DNA repair synthesis (GO:0000711)|reciprocal meiotic recombination (GO:0007131)|regulation of protein localization (GO:0032880)|sperm chromatin condensation (GO:0035092)|spermatogenesis (GO:0007283)|synaptonemal complex assembly (GO:0007130)	central element (GO:0000801)|male germ cell nucleus (GO:0001673)|transverse filament (GO:0000802)	DNA binding (GO:0003677)		RGS22/SYCP1(2)	NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(17)|lung(20)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	48	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCAGAAAATGATAACAGCTTT	0.274																																																0													46	49	48					1																	115418696		2203	4294	6497	SO:0001583	missense	6847			D67035	CCDS879.1, CCDS72840.1	1p13-p12	2009-03-12			ENSG00000198765	ENSG00000198765			11487	protein-coding gene	gene with protein product	"cancer/testis antigen 8"	602162				9560255	Standard	XM_005271154		Approved	HOM-TES-14, SCP1, CT8	uc001efr.3	Q15431	OTTHUMG00000012057	ENST00000369522.3:c.664A>G	1.37:g.115418696A>G	ENSP00000358535:p.Ile222Val	Somatic		WXS	Illumina HiSeq	Phase_I	O14963|Q5VXJ6	Missense_Mutation	SNP	ENST00000369522.3	37	CCDS879.1	.	.	.	.	.	.	.	.	.	.	A	4.011	-0.000587	0.07819	.	.	ENSG00000198765	ENST00000369522;ENST00000536734;ENST00000455987;ENST00000369518	T;T;T	0.52295	0.67;0.67;0.67	5.52	0.545	0.17190	.	0.270468	0.43260	N	0.000599	T	0.10594	0.0259	L	0.29908	0.895	0.26560	N	0.973751	B;B	0.19073	0.033;0.033	B;B	0.23574	0.047;0.047	T	0.40739	-0.9547	10	0.02654	T	1	-6.9164	10.4389	0.44452	0.6334:0.0:0.3666:0.0	.	222;222	B7ZLS9;Q15431	.;SYCP1_HUMAN	V	222	ENSP00000358535:I222V;ENSP00000410011:I222V;ENSP00000358531:I222V	ENSP00000358531:I222V	I	+	1	0	SYCP1	115220219	1.000000	0.71417	0.998000	0.56505	0.963000	0.63663	0.924000	0.28777	-0.093000	0.12396	-1.162000	0.01777	ATA		0.274	SYCP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033386.1	NM_003176		G	115418696	A	G	115418696	3	3	625	1	0	0	0	0	1	0	0	0	15443	333	12	3	698	3	SYCP1	1	115418696	Missense_Mutation	SNP	A	TCGA-KL-8326-01A-11D-2310-10	95818320	115418696	133831925	4	38384										
LCE3C	353144	broad.mit.edu	37	chr1	152573449	152573449	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	caggggcagtggtcagcaagGcgggggctcctgccgtggcc	19	12	1	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr1:152573449G>A	ENST00000333881.3	+	1	312	c.242G>A	c.(241-243)gGc>gAc	p.G81D		NM_178434.2	NP_848521.1	Q5T5A8	LCE3C_HUMAN	late cornified envelope 3C	81					keratinization (GO:0031424)					lung(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)	UCEC - Uterine corpus endometrioid carcinoma (5;0.153)|KIRC - Kidney renal clear cell carcinoma(4;0.0313)|Kidney(5;0.0367)		GGTCAGCAAGGCGGGGGCTCC	0.602																																																0													34	33	33					1																	152573449		1810	2679	4489	SO:0001583	missense	353144			BI670516	CCDS1015.1	1q21.3	2008-02-05		2004-10-15	ENSG00000244057	ENSG00000244057		"Late cornified envelopes"	16612	protein-coding gene	gene with protein product		612615	"small proline rich-like (epidermal differentiation complex) 3A"	SPRL3A		11698679	Standard	NM_178434		Approved	LEP15	uc001fac.2	Q5T5A8	OTTHUMG00000014403	ENST00000333881.3:c.242G>A	1.37:g.152573449G>A	ENSP00000334644:p.Gly81Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A1L420	Missense_Mutation	SNP	ENST00000333881.3	37	CCDS1015.1	.	.	.	.	.	.	.	.	.	.	G	1.076	-0.668510	0.03403	.	.	ENSG00000244057	ENST00000333881	T	0.03607	3.87	4.01	3.09	0.35607	.	.	.	.	.	T	0.00524	0.0017	.	.	.	0.09310	N	1	B	0.22146	0.065	B	0.17098	0.017	T	0.44019	-0.9355	8	0.02654	T	1	.	9.2689	0.37659	0.0:0.7629:0.2371:0.0	.	81	Q5T5A8	LCE3C_HUMAN	D	81	ENSP00000334644:G81D	ENSP00000334644:G81D	G	+	2	0	LCE3C	150840073	0.000000	0.05858	0.019000	0.16419	0.008000	0.06430	-0.101000	0.10973	0.876000	0.35872	0.313000	0.20887	GGC		0.602	LCE3C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040061.2	NM_178434		A	152573449	G	A	152573449	3	1	625	1	0	0	0	0	1	0	0	0	8678	1203	42	2	244	2	LCE3C	1	152573449	Missense_Mutation	SNP	G	TCGA-KL-8326-01A-11D-2310-10	37154753	152573449	96677172	5	38385										
SMYD1	150572	broad.mit.edu	37	chr2	88383883	88383883	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	ttcaagaggcaggagaagctCcatcgctgtgggcagtgcaa	14	9	1	2			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr2:88383883C>T	ENST00000419482.2	+	2	271	c.186C>T	c.(184-186)ctC>ctT	p.L62L	MIR4780_ENST00000584268.1_RNA|SMYD1_ENST00000444564.2_Silent_p.L62L|SMYD1_ENST00000438570.1_Silent_p.L62L|SMYD1_ENST00000468008.1_3'UTR	NM_198274.3	NP_938015.1	Q8NB12	SMYD1_HUMAN	SET and MYND domain containing 1	62	SET. {ECO:0000255|PROSITE- ProRule:PRU00190}.				chromatin remodeling (GO:0006338)|heart development (GO:0007507)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of myoblast differentiation (GO:0045663)|positive regulation of myotube differentiation (GO:0010831)|skeletal muscle cell differentiation (GO:0035914)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|metal ion binding (GO:0046872)|transcription corepressor activity (GO:0003714)	p.L62L(1)		NS(1)|breast(4)|central_nervous_system(1)|large_intestine(6)|lung(19)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	41						AGGAGAAGCTCCATCGCTGTG	0.512																																																1	Substitution - coding silent(1)	ovary(1)											107	91	97					2																	88383883		2203	4300	6503	SO:0001819	synonymous_variant	150572			AF086123	CCDS33240.1	2p11.1	2011-07-01			ENSG00000115593	ENSG00000115593		"Zinc fingers, MYND-type", "Chromatin-modifying enzymes / K-methyltransferases"	20986	protein-coding gene	gene with protein product		606846				11923873	Standard	NM_198274		Approved	BOP, ZMYND22, KMT3D	uc002ssr.3	Q8NB12	OTTHUMG00000155045	ENST00000419482.2:c.186C>T	2.37:g.88383883C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0AV30|A6NE13	Silent	SNP	ENST00000419482.2	37	CCDS33240.1																																																																																				0.512	SMYD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338229.2	XM_097915		T	88383883	C	T	88383883	2	4	625	1	0	0	0	0	0	0	0	1	14834	842	30	2		2	SMYD1	2	88383883	Silent	SNP	C	TCGA-KL-8326-01A-11D-2310-10		88383883	154815490	6	38386										
REV1	51455	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	100038086	100038086	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgtctaccagcgcttcatcaCaactgacagcttcaatgtta	6	12	4	1			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr2:100038086C>T	ENST00000258428.3	-	11	1934	c.1706G>A	c.(1705-1707)tGt>tAt	p.C569Y	REV1_ENST00000465835.1_5'UTR|REV1_ENST00000393445.3_Missense_Mutation_p.C568Y	NM_001037872.1|NM_016316.2	NP_001032961.1|NP_057400.1	Q9UBZ9	REV1_HUMAN	REV1, polymerase (DNA directed)	569	UmuC. {ECO:0000255|PROSITE- ProRule:PRU00216}.				DNA repair (GO:0006281)|DNA replication (GO:0006260)|DNA-dependent DNA replication (GO:0006261)|error-prone translesion synthesis (GO:0042276)|response to UV (GO:0009411)	nucleoplasm (GO:0005654)	damaged DNA binding (GO:0003684)|deoxycytidyl transferase activity (GO:0017125)|DNA-directed DNA polymerase activity (GO:0003887)|magnesium ion binding (GO:0000287)			NS(1)|breast(1)|endometrium(2)|kidney(1)|large_intestine(14)|lung(12)|ovary(2)|prostate(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	39						CGCTTCATCACAACTGACAGC	0.438								Direct reversal of damage																																								0													142	123	129					2																	100038086		2203	4300	6503	SO:0001583	missense	51455			AF206019	CCDS2045.1, CCDS42722.1	2q11.1-q11.2	2012-05-18	2012-05-18	2006-11-07	ENSG00000135945	ENSG00000135945		"DNA polymerases"	14060	protein-coding gene	gene with protein product		606134	"REV1 (yeast homolog)- like", "REV1-like (yeast)", "REV1 homolog (S. cerevisiae)"	REV1L		10536157	Standard	XM_005263968		Approved		uc002tad.3	Q9UBZ9	OTTHUMG00000130636	ENST00000258428.3:c.1706G>A	2.37:g.100038086C>T	ENSP00000258428:p.Cys569Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	O95941|Q53SI7|Q9C0J4|Q9NUP2	Missense_Mutation	SNP	ENST00000258428.3	37	CCDS2045.1	.	.	.	.	.	.	.	.	.	.	C	17.03	3.283368	0.59867	.	.	ENSG00000135945	ENST00000393445;ENST00000258428	T;T	0.75938	-0.98;-0.98	5.29	5.29	0.74685	DNA-repair protein, UmuC-like, N-terminal (1);DNA-repair protein, UmuC-like (1);	0.000000	0.85682	D	0.000000	D	0.88224	0.6379	M	0.85373	2.75	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	D	0.89663	0.3878	10	0.87932	D	0	.	19.2796	0.94048	0.0:1.0:0.0:0.0	.	569;568	Q9UBZ9;Q9UBZ9-2	REV1_HUMAN;.	Y	568;569	ENSP00000377091:C568Y;ENSP00000258428:C569Y	ENSP00000258428:C569Y	C	-	2	0	REV1	99404518	1.000000	0.71417	1.000000	0.80357	0.037000	0.13140	7.206000	0.77891	2.646000	0.89796	0.655000	0.94253	TGT		0.438	REV1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000253123.2	NM_016316		T	100038086	C	T	100038086	3	4	625	1	0	0	0	0	1	0	0	0	13252	478	17	2	2101	2	REV1	2	100038086	Missense_Mutation	SNP	C	TCGA-KL-8326-01A-11D-2310-10	11654203	100038086	143161287	7	38387										
CREG2	200407	hgsc.bcm.edu	37	chr2	102000023	102000024	+	Missense_Mutation	DNP	GC	GC	TA													0	0	1	0	0	0	1	1	0	ctccccttctgattctggcaGcatcagcgaggccatggggt							TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr2:102000023_102000024GC>TA	ENST00000324768.5	-	2	719_720	c.582_583GC>TA	c.(580-585)atGCtg>atTAtg	p.194_195ML>IM	CREG2_ENST00000495455.1_5'UTR	NM_153836.3	NP_722578.1	Q8IUH2	CREG2_HUMAN	cellular repressor of E1A-stimulated genes 2	194						endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|Golgi apparatus (GO:0005794)	FMN binding (GO:0010181)|oxidoreductase activity (GO:0016491)			endometrium(1)|large_intestine(3)|lung(4)|ovary(1)|skin(1)	10						GATTCTGGCAGCATCAGCGAGG	0.545																																																0																																										SO:0001583	missense	200407			AB046109	CCDS2052.1	2q12.1	2007-08-01			ENSG00000175874	ENSG00000175874			14272	protein-coding gene	gene with protein product						12408961	Standard	NM_153836		Approved		uc002tba.2	Q8IUH2	OTTHUMG00000130692	ENST00000324768.5:c.582_583delinsTA	2.37:g.102000023_102000024delinsTA	ENSP00000315203:p.M194_L195delinsIM	Somatic		WXS	Illumina HiSeq	Phase_I	Q86X03|Q8N540|Q8N9E3	Missense_Mutation	DNP	ENST00000324768.5	37	CCDS2052.1																																																																																				0.545	CREG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253188.2	NM_153836		TA	102000024	GC	TA	102000023	3	4	625	1	0	0	0	0	1	0	0	0	3867	962	34	4	301	4	CREG2	2	102000023	Missense_Mutation	DNP	GC	TCGA-KL-8326-01A-11D-2310-10	1961937	102000023	141199350	8	38388										
LYPD1	116372	ucsc.edu	37	chr2	133427465	133427465	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tattctcacctggaagcaagAacaatccgcaaaaagttgcc	7	11	1	1			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr2:133427465A>G	ENST00000397463.2	-	1	313	c.41T>C	c.(40-42)tTc>tCc	p.F14S	AC010974.3_ENST00000450509.1_RNA|LYPD1_ENST00000345008.6_Intron	NM_144586.5	NP_653187.3	Q8N2G4	LYPD1_HUMAN	LY6/PLAUR domain containing 1	14						anchored component of membrane (GO:0031225)|plasma membrane (GO:0005886)				lung(2)	2						TGGAAGCAAGAACAATCCGCA	0.642																																																0													49	57	54					2																	133427465		1998	4158	6156	SO:0001583	missense	116372			AK075487	CCDS42759.1, CCDS46416.1	2q21.2	2008-02-05		2005-08-30	ENSG00000150551	ENSG00000150551			28431	protein-coding gene	gene with protein product		610450		LYPDC1		12477932	Standard	NM_144586		Approved	MGC29643	uc002ttn.3	Q8N2G4	OTTHUMG00000153609	ENST00000397463.2:c.41T>C	2.37:g.133427465A>G	ENSP00000380605:p.Phe14Ser	Somatic		WXS	Illumina HiSeq	Phase_I	H7BXW6|Q6ZP52|Q6ZWI4|Q96AC2	Missense_Mutation	SNP	ENST00000397463.2	37	CCDS42759.1	.	.	.	.	.	.	.	.	.	.	A	14.19	2.461515	0.43736	.	.	ENSG00000150551	ENST00000409034;ENST00000397463	D	0.82167	-1.58	5.52	3.12	0.35913	.	0.117881	0.38381	N	0.001702	T	0.65312	0.2679	N	0.14661	0.345	0.80722	D	1	B;B	0.27732	0.187;0.018	B;B	0.21360	0.024;0.034	T	0.62329	-0.6877	10	0.87932	D	0	4.0E-4	5.4946	0.16795	0.5665:0.3455:0.088:0.0	.	14;30	Q8N2G4;Q8N2G4-3	LYPD1_HUMAN;.	S	37;14	ENSP00000380605:F14S	ENSP00000380605:F14S	F	-	2	0	LYPD1	133143935	1.000000	0.71417	1.000000	0.80357	0.718000	0.41266	1.260000	0.32968	0.896000	0.36366	0.260000	0.18958	TTC		0.642	LYPD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331821.1	NM_144586		G	133427465	A	G	133427465	3	3	625	1	0	0	0	0	1	0	0	0	9116	246	9	3	396	3	LYPD1	2	133427465	Missense_Mutation	SNP	A	TCGA-KL-8326-01A-11D-2310-10	31427442	133427465	109771908	9	38389										
ECEL1	9427	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr2	233347864	233347864	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tcagcaggaagtccgggtagCcgaccatcaccatcatgtac	10	13	3	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr2:233347864C>T	ENST00000304546.1	-	9	1742	c.1532G>A	c.(1531-1533)gGc>gAc	p.G511D	ECEL1_ENST00000409941.1_Missense_Mutation_p.G511D	NM_004826.2	NP_004817.2	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	511					neuropeptide signaling pathway (GO:0007218)|respiratory system process (GO:0003016)	integral component of plasma membrane (GO:0005887)	metal ion binding (GO:0046872)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(4)|lung(8)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	23		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;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000771)|Lung(119;0.00213)|LUSC - Lung squamous cell carcinoma(224;0.00746)		GTCCGGGTAGCCGACCATCAC	0.657																																																0													50	33	39					2																	233347864		2203	4299	6502	SO:0001583	missense	9427			Y16187	CCDS2493.1	2q37.1	2010-09-29			ENSG00000171551	ENSG00000171551			3147	protein-coding gene	gene with protein product	"damage induced neuronal endopeptidase"	605896				9931490, 11352565	Standard	NM_004826		Approved	XCE, DINE	uc002vsv.2	O95672	OTTHUMG00000133262	ENST00000304546.1:c.1532G>A	2.37:g.233347864C>T	ENSP00000302051:p.Gly511Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q45UD9|Q53RF9|Q6UW86|Q86TH4|Q9NY95	Missense_Mutation	SNP	ENST00000304546.1	37	CCDS2493.1	.	.	.	.	.	.	.	.	.	.	C	31	5.104234	0.94245	.	.	ENSG00000171551	ENST00000304546;ENST00000409941	D;D	0.90563	-2.69;-2.69	5.39	5.39	0.77823	Peptidase M13 (1);Metallopeptidase, catalytic domain (1);	0.000000	0.85682	D	0.000000	D	0.96103	0.8730	M	0.86343	2.81	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.999;1.0	D	0.96550	0.9407	10	0.87932	D	0	-10.712	19.1545	0.93504	0.0:1.0:0.0:0.0	.	511;511	O95672-2;O95672	.;ECEL1_HUMAN	D	511	ENSP00000302051:G511D;ENSP00000386333:G511D	ENSP00000302051:G511D	G	-	2	0	ECEL1	233056108	0.997000	0.39634	0.999000	0.59377	0.932000	0.56968	4.726000	0.61986	2.528000	0.85240	0.563000	0.77884	GGC		0.657	ECEL1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257039.2	NM_004826		T	233347864	C	T	233347864	3	4	625	1	0	0	0	0	1	0	0	0	4893	739	26	2	835	2	ECEL1	2	233347864	Missense_Mutation	SNP	C	TCGA-KL-8326-01A-11D-2310-10	99920399	233347864	9851509	10	38390										
ILKAP	80895	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr2	239090747	239090747	+	Nonsense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgtatcctcatccgctcttcAtactgagttggattatgctc	7	11	3	1			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr2:239090747A>C	ENST00000254654.3	-	9	970	c.795T>G	c.(793-795)taT>taG	p.Y265*		NM_030768.2	NP_110395.1	Q9H0C8	ILKAP_HUMAN	integrin-linked kinase-associated serine/threonine phosphatase	265	PP2C-like.				protein dephosphorylation (GO:0006470)|regulation of nuclear cell cycle DNA replication (GO:0033262)	cytoplasm (GO:0005737)	metal ion binding (GO:0046872)|protein serine/threonine phosphatase activity (GO:0004722)			endometrium(1)|kidney(3)|large_intestine(5)|lung(4)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	19		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_lung(227;0.152)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;5.49e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.93e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.82e-08)|BRCA - Breast invasive adenocarcinoma(100;0.00012)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0163)		TCCGCTCTTCATACTGAGTTG	0.483																																																0													322	282	295					2																	239090747		2203	4300	6503	SO:0001587	stop_gained	80895			AY024365	CCDS2526.1	2q37.3	2012-04-17	2010-10-25		ENSG00000132323	ENSG00000132323	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatases, Mg2+/Mn2+ dependent"	15566	protein-coding gene	gene with protein product			"integrin-linked kinase-associated serine/threonine phosphatase 2C"				Standard	NM_030768		Approved	DKFZP434J2031, FLJ10181	uc002vxv.3	Q9H0C8	OTTHUMG00000133334	ENST00000254654.3:c.795T>G	2.37:g.239090747A>C	ENSP00000254654:p.Tyr265*	Somatic		WXS	Illumina HiSeq	Phase_I	B3KM39	Nonsense_Mutation	SNP	ENST00000254654.3	37	CCDS2526.1	.	.	.	.	.	.	.	.	.	.	A	38	6.662059	0.97743	.	.	ENSG00000132323	ENST00000254654;ENST00000450411	.	.	.	5.37	-3.19	0.05171	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	5.6221	11.459	0.50199	0.5229:0.0:0.4771:0.0	.	.	.	.	X	265;82	.	ENSP00000254654:Y265X	Y	-	3	2	ILKAP	238755486	0.991000	0.36638	0.835000	0.33067	0.997000	0.91878	0.307000	0.19296	-0.906000	0.03866	0.533000	0.62120	TAT		0.483	ILKAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257163.2	NM_030768		C	239090747	A	C	239090747	4	2	625	1	0	0	0	0	0	1	0	0	7721	224	8	5	399	5	ILKAP	2	239090747	Nonsense_Mutation	SNP	A	TCGA-KL-8326-01A-11D-2310-10	5742883	239090747	4108626	11	38391										
OXTR	5021	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	8809619	8809619	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgaaacactgccaccaccagGtcggcgatgcttaggtgctt	11	12	0	1	rs200886854		TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr3:8809619G>T	ENST00000316793.3	-	3	879	c.255C>A	c.(253-255)gaC>gaA	p.D85E	CAV3_ENST00000472766.1_Intron	NM_000916.3	NP_000907.2	P30559	OXYR_HUMAN	oxytocin receptor	85					cell surface receptor signaling pathway (GO:0007166)|digestive tract development (GO:0048565)|eating behavior (GO:0042755)|ERK1 and ERK2 cascade (GO:0070371)|estrous cycle phase (GO:0060206)|female pregnancy (GO:0007565)|heart development (GO:0007507)|lactation (GO:0007595)|maternal behavior (GO:0042711)|maternal process involved in parturition (GO:0060137)|memory (GO:0007613)|muscle contraction (GO:0006936)|negative regulation of gastric acid secretion (GO:0060455)|positive regulation of blood pressure (GO:0045777)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of norepinephrine secretion (GO:0010701)|positive regulation of penile erection (GO:0060406)|positive regulation of synapse assembly (GO:0051965)|positive regulation of synaptic transmission, GABAergic (GO:0032230)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|positive regulation of uterine smooth muscle contraction (GO:0070474)|response to amphetamine (GO:0001975)|response to anoxia (GO:0034059)|response to cocaine (GO:0042220)|response to cytokine (GO:0034097)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to peptide hormone (GO:0043434)|response to progesterone (GO:0032570)|sleep (GO:0030431)|social behavior (GO:0035176)|sperm ejaculation (GO:0042713)|suckling behavior (GO:0001967)|telencephalon development (GO:0021537)	apical plasma membrane (GO:0016324)|cell-cell adherens junction (GO:0005913)|integral component of plasma membrane (GO:0005887)|microvillus (GO:0005902)|plasma membrane (GO:0005886)	oxytocin receptor activity (GO:0004990)|peptide hormone binding (GO:0017046)|vasopressin receptor activity (GO:0005000)			NS(1)|endometrium(2)|large_intestine(4)|lung(5)|urinary_tract(1)	13				OV - Ovarian serous cystadenocarcinoma(96;0.15)	Carbetocin(DB01282)|Oxytocin(DB00107)	CCACCACCAGGTCGGCGATGC	0.627																																																0													49	45	46					3																	8809619		2203	4300	6503	SO:0001583	missense	5021				CCDS2570.1	3p25	2012-08-08			ENSG00000180914	ENSG00000180914		"GPCR / Class A : Vasopressin and oxytocin receptors"	8529	protein-coding gene	gene with protein product		167055				1313946	Standard	NM_000916		Approved		uc003brc.3	P30559	OTTHUMG00000090537	ENST00000316793.3:c.255C>A	3.37:g.8809619G>T	ENSP00000324270:p.Asp85Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q15071	Missense_Mutation	SNP	ENST00000316793.3	37	CCDS2570.1	.	.	.	.	.	.	.	.	.	.	G	19.57	3.852767	0.71719	.	.	ENSG00000180914	ENST00000316793;ENST00000449615	D;T	0.87966	-2.32;-0.21	4.73	2.9	0.33743	GPCR, rhodopsin-like superfamily (1);	0.000000	0.85682	D	0.000000	D	0.93733	0.7997	M	0.91090	3.175	0.53688	D	0.999974	D	0.89917	1.0	D	0.97110	1.0	D	0.93640	0.6964	10	0.87932	D	0	-39.5606	10.1125	0.42572	0.1693:0.0:0.8307:0.0	.	85	P30559	OXYR_HUMAN	E	85	ENSP00000324270:D85E;ENSP00000389587:D85E	ENSP00000324270:D85E	D	-	3	2	OXTR	8784619	1.000000	0.71417	1.000000	0.80357	0.848000	0.48234	4.195000	0.58400	0.987000	0.38709	0.313000	0.20887	GAC		0.627	OXTR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207061.2			T	8809619	G	T	8809619	3	4	625	1	0	0	0	0	1	0	0	0	11345	1252	44	4	922	4	OXTR	3	8809619	Missense_Mutation	SNP	G	TCGA-KL-8326-01A-11D-2310-10		8809619	189212811	12	38392										
CELSR3	1951	broad.mit.edu	37	chr3	48694660	48694661	+	Frame_Shift_Ins	INS	-	-	G													0	0	1	0	0	0	1	1	0	cgaggaagcggcccagcagcINSggtgacaggaagcgctcctg							TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr3:48694660_48694661insG	ENST00000164024.4	-	2	4149_4150	c.3869_3870insC	c.(3868-3870)ccgfs	p.P1290fs	CELSR3_ENST00000544264.1_Frame_Shift_Ins_p.P1290fs	NM_001407.2	NP_001398.2	Q9NYQ7	CELR3_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 3	1290					axonal fasciculation (GO:0007413)|cilium assembly (GO:0042384)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|regulation of protein localization (GO:0032880)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(1)|biliary_tract(1)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(23)|ovary(9)|prostate(6)|skin(7)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(5)	83				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GGCCCAGCAGCGGTGACAGGAA	0.634																																																0																																										SO:0001589	frameshift_variant	1951			AF231023	CCDS2775.1	3p21.31	2014-08-08	2013-02-18		ENSG00000008300	ENSG00000008300		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	3230	protein-coding gene	gene with protein product	"flamingo homolog 1 (Drosophila)"	604264	"cadherin EGF LAG seven-pass G-type receptor 3, flamingo (Drosophila) homolog"	EGFL1		9693030	Standard	NM_001407		Approved	MEGF2, HFMI1, FMI1, CDHF11	uc003cuf.1	Q9NYQ7	OTTHUMG00000133544	ENST00000164024.4:c.3870dupC	3.37:g.48694662_48694662dupG	ENSP00000164024:p.Pro1290fs	Somatic		WXS	Illumina HiSeq	Phase_I	O75092	Frame_Shift_Ins	INS	ENST00000164024.4	37	CCDS2775.1																																																																																				0.634	CELSR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257523.1	NM_001407		G	48694661	-	G	48694660	7	5	625	1	0	1	1	0	0	0	0	0	3225	755	27	0	6204	0	CELSR3	3	48694660	Frame_Shift_Ins	INS	-	TCGA-KL-8326-01A-11D-2310-10	39885041	48694660	149327770	13	38393										
SIDT1	54847	broad.mit.edu	37	chr3	113342326	113342326	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	actttgcttcctacatgctgGgcatcttcatctgtaacctt	6	12	3	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr3:113342326G>T	ENST00000264852.4	+	22	2869	c.2143G>T	c.(2143-2145)Ggc>Tgc	p.G715C	SIDT1_ENST00000463226.1_3'UTR|SIDT1_ENST00000393830.3_Missense_Mutation_p.G720C	NM_017699.2	NP_060169.2	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1	715					dsRNA transport (GO:0033227)	integral component of membrane (GO:0016021)	RNA transmembrane transporter activity (GO:0051033)			breast(1)|central_nervous_system(1)|endometrium(9)|kidney(1)|large_intestine(11)|liver(2)|lung(15)|ovary(3)|pancreas(3)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	50						CTACATGCTGGGCATCTTCAT	0.567																																																0													136	138	138					3																	113342326		2203	4300	6503	SO:0001583	missense	54847			AK000181	CCDS2974.1	3q13.31	2009-11-26			ENSG00000072858	ENSG00000072858			25967	protein-coding gene	gene with protein product		606816					Standard	NM_017699		Approved	FLJ20174, SID-1	uc003eak.3	Q9NXL6	OTTHUMG00000159299	ENST00000264852.4:c.2143G>T	3.37:g.113342326G>T	ENSP00000264852:p.Gly715Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RR4	Missense_Mutation	SNP	ENST00000264852.4	37	CCDS2974.1	.	.	.	.	.	.	.	.	.	.	G	33	5.276712	0.95459	.	.	ENSG00000072858	ENST00000264852;ENST00000393830	T;T	0.23552	1.9;1.9	5.62	5.62	0.85841	.	0.085246	0.51477	D	0.000099	T	0.47192	0.1432	L	0.61218	1.895	0.80722	D	1	D;D	0.64830	0.99;0.994	P;P	0.62014	0.831;0.897	T	0.21211	-1.0252	10	0.39692	T	0.17	-10.785	18.4243	0.90604	0.0:0.0:1.0:0.0	.	720;715	Q9NXL6-2;Q9NXL6	.;SIDT1_HUMAN	C	715;720	ENSP00000264852:G715C;ENSP00000377416:G720C	ENSP00000264852:G715C	G	+	1	0	SIDT1	114825016	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.476000	0.97823	2.646000	0.89796	0.655000	0.94253	GGC		0.567	SIDT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317564.1	NM_017699		T	113342326	G	T	113342326	3	4	625	1	0	0	0	0	1	0	0	0	14315	1232	43	4	2229	4	SIDT1	3	113342326	Missense_Mutation	SNP	G	TCGA-KL-8326-01A-11D-2310-10	64647666	113342326	84680104	14	38394										
BOD1L	259282	broad.mit.edu	37	chr4	13615200	13615200	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	acttcctcctcagtatcttcTtcaaaagatgaaaggtcact	5	11	5	2			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr4:13615200T>C	ENST00000040738.5	-	5	1395	c.1260A>G	c.(1258-1260)gaA>gaG	p.E420E		NM_148894.2	NP_683692.2	Q8NFC6	BD1L1_HUMAN	biorientation of chromosomes in cell division 1-like 1	420	Lys-rich.					nucleus (GO:0005634)	DNA binding (GO:0003677)										CAGTATCTTCTTCAAAAGATG	0.388																																																0													134	128	130					4																	13615200		2203	4300	6503	SO:0001819	synonymous_variant	259282			AF528529	CCDS3411.2	4p16.1	2012-04-10	2012-04-10	2012-04-10	ENSG00000038219	ENSG00000038219			31792	protein-coding gene	gene with protein product			"family with sequence similarity 44, member A", "biorientation of chromosomes in cell division 1-like"	FAM44A, BOD1L			Standard	XM_005248150		Approved	FLJ33215, KIAA1327	uc003gmz.1	Q8NFC6	OTTHUMG00000090659	ENST00000040738.5:c.1260A>G	4.37:g.13615200T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6P0M8|Q96AL1|Q9H6G0|Q9NTD6|Q9P2L9	Silent	SNP	ENST00000040738.5	37	CCDS3411.2																																																																																				0.388	BOD1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207321.1	NM_148894		C	13615200	T	C	13615200	2	2	625	1	0	0	0	0	0	0	0	1	1483	1606	56	3		3	BOD1L	4	13615200	Silent	SNP	T	TCGA-KL-8326-01A-11D-2310-10		13615200	177539076	15	38395										
NHEDC1	150159	mdanderson.org	37	chr4	103822298	103822298	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgatgttctaatgttgacaaCtgcagttttattttgcttgg	9	5	1	2	rs3175325	byFrequency	TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr4:103822298C>T	ENST00000296422.7	-	12	1665	c.1524G>A	c.(1522-1524)caG>caA	p.Q508Q	SLC9B1_ENST00000512651.2_5'UTR|SLC9B1_ENST00000394789.3_Intron	NM_139173.3	NP_631912	Q4ZJI4	SL9B1_HUMAN	solute carrier family 9, subfamily B (NHA1, cation proton antiporter 1), member 1	508					ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	solute:proton antiporter activity (GO:0015299)										ATGTTGACAACTGCAGTTTTA	0.358																																																0													66	70	68					4																	103822298		1818	3378	5196	SO:0001819	synonymous_variant	150159			AF447585	CCDS34041.1, CCDS47119.1	4q24	2013-05-22	2012-03-22	2011-07-26	ENSG00000164037	ENSG00000164037		"Solute carriers"	24244	protein-coding gene	gene with protein product		611527	"Na+/H+ exchanger domain containing 1", "solute carrier family 9, subfamily B (cation proton antiporter 2), member 1"	NHEDC1		16850186	Standard	NM_139173		Approved	NHA1	uc003hww.3	Q4ZJI4	OTTHUMG00000161114	ENST00000296422.7:c.1524G>A	4.37:g.103822298C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A1KXV1|B9EH04|C9JBP7|Q49A30|Q8NCV2|Q8WVZ0	Silent	SNP	ENST00000296422.7	37	CCDS34041.1																																																																																				0.358	SLC9B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363841.1	NM_139173		T	103822298	C	T	103822298	2	4	625	1	0	0	0	0	0	0	0	1	10407	564	20	2		2	NHEDC1	4	103822298	Silent	SNP	C	TCGA-KL-8326-01A-11D-2310-10	90207098	103822298	87331978	16	38396										
FAT4	79633	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	126369744	126369744	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgaggggagccattatggccGccggaccactaaacggagct	14	11	0	1	rs201007539		TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr4:126369744G>A	ENST00000394329.3	+	9	7586	c.7573G>A	c.(7573-7575)Gcc>Acc	p.A2525T	FAT4_ENST00000335110.5_Missense_Mutation_p.A823T	NM_024582.4	NP_078858.4	Q6V0I7	FAT4_HUMAN	FAT atypical cadherin 4	2525	Cadherin 24. {ECO:0000255|PROSITE- ProRule:PRU00043}.				branching involved in ureteric bud morphogenesis (GO:0001658)|cerebral cortex development (GO:0021987)|digestive tract development (GO:0048565)|heart morphogenesis (GO:0003007)|heterophilic cell-cell adhesion (GO:0007157)|hippo signaling (GO:0035329)|homophilic cell adhesion (GO:0007156)|inner ear receptor stereocilium organization (GO:0060122)|neurogenesis (GO:0022008)|ossification involved in bone maturation (GO:0043931)|plasma membrane organization (GO:0007009)|regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072307)	apical part of cell (GO:0045177)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(6)|autonomic_ganglia(1)|breast(4)|central_nervous_system(3)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(3)|kidney(10)|large_intestine(93)|liver(3)|lung(120)|ovary(9)|pancreas(2)|prostate(21)|skin(31)|stomach(1)|upper_aerodigestive_tract(12)|urinary_tract(6)	355						CATTATGGCCGCCGGACCACT	0.418																																																0													65	67	66					4																	126369744		2203	4299	6502	SO:0001583	missense	79633			AY356402	CCDS3732.3	4q28.1	2013-05-31	2013-05-31		ENSG00000196159	ENSG00000196159		"Cadherins / Cadherin-related"	23109	protein-coding gene	gene with protein product	"cadherin-related family member 11"	612411	"FAT tumor suppressor homolog 4 (Drosophila)"			15003449	Standard	NM_024582		Approved	CDHF14, FAT-J, CDHR11	uc003ifj.4	Q6V0I7	OTTHUMG00000133100	ENST00000394329.3:c.7573G>A	4.37:g.126369744G>A	ENSP00000377862:p.Ala2525Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5Z6|B5MDG4|Q3LIA6|Q8TCK7|Q9H5T6	Missense_Mutation	SNP	ENST00000394329.3	37	CCDS3732.3	.	.	.	.	.	.	.	.	.	.	G	14.78	2.639072	0.47153	.	.	ENSG00000196159	ENST00000394329;ENST00000335110	T;T	0.48522	0.81;0.81	5.72	4.89	0.63831	Cadherin (4);Cadherin-like (1);	0.000000	0.34110	U	0.004241	T	0.40694	0.1127	L	0.37561	1.115	0.43338	D	0.995382	D;B;B	0.55605	0.972;0.004;0.003	P;B;B	0.45099	0.469;0.004;0.002	T	0.15521	-1.0434	10	0.15066	T	0.55	.	14.9437	0.71014	0.0685:0.0:0.9315:0.0	.	823;2525;2525	Q6V0I7-2;Q6V0I7;Q6V0I7-3	.;FAT4_HUMAN;.	T	2525;823	ENSP00000377862:A2525T;ENSP00000335169:A823T	ENSP00000335169:A823T	A	+	1	0	FAT4	126589194	1.000000	0.71417	1.000000	0.80357	0.909000	0.53808	3.440000	0.52886	1.441000	0.47550	-0.143000	0.13931	GCC		0.418	FAT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256765.2	NM_024582		A	126369744	G	A	126369744	3	1	625	1	0	0	0	0	1	0	0	0	5699	1087	38	1	7607	1	FAT4	4	126369744	Missense_Mutation	SNP	G	TCGA-KL-8326-01A-11D-2310-10	22547446	126369744	64784532	17	38397										
SPZ1	84654	mdanderson.org	37	chr5	79616400	79616400	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cttgacaaaatcaatgaaatGttatcaacaaacctgcctgt	5	9	2	2	rs200562315	byFrequency	TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr5:79616400G>A	ENST00000296739.4	+	1	611	c.366G>A	c.(364-366)atG>atA	p.M122I		NM_032567.3	NP_115956.3	Q9BXG8	SPZ1_HUMAN	spermatogenic leucine zipper 1	122					transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.M122I(1)		endometrium(2)|kidney(5)|large_intestine(4)|lung(12)|ovary(1)|skin(2)	26		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)		TCAATGAAATGTTATCAACAA	0.368																																																1	Substitution - Missense(1)	skin(1)											49	44	45					5																	79616400		1799	4058	5857	SO:0001583	missense	84654				CCDS43336.1	5q14.1	2014-06-13				ENSG00000164299			30721	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 148"					11165476, 12778315, 15226296, 15829580, 15899793	Standard	NM_032567		Approved	NYD-TSP1, FLJ25709, PPP1R148	uc003kgn.3	Q9BXG8		ENST00000296739.4:c.366G>A	5.37:g.79616400G>A	ENSP00000369611:p.Met122Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RA21|Q8N4P1|Q8N7E9	Missense_Mutation	SNP	ENST00000296739.4	37	CCDS43336.1	.	.	.	.	.	.	.	.	.	.	G	8.567	0.879064	0.17395	.	.	ENSG00000164299	ENST00000511881;ENST00000296739	T;T	0.39787	1.06;1.62	2.92	-2.42	0.06542	.	.	.	.	.	T	0.17238	0.0414	N	0.05078	-0.115	0.09310	N	1	B	0.20988	0.05	B	0.10450	0.005	T	0.15178	-1.0446	9	0.33940	T	0.23	.	4.398	0.11372	0.5786:0.0:0.2498:0.1716	.	122	Q9BXG8	SPZ1_HUMAN	I	122	ENSP00000426530:M122I;ENSP00000369611:M122I	ENSP00000369611:M122I	M	+	3	0	SPZ1	79652156	0.000000	0.05858	0.000000	0.03702	0.514000	0.34195	-1.754000	0.01816	-0.613000	0.05694	0.313000	0.20887	ATG		0.368	SPZ1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369322.1	NM_032567		A	79616400	G	A	79616400	3	1	625	1	0	0	0	0	1	0	0	0	15139	1377	48	2	368	2	SPZ1	5	79616400	Missense_Mutation	SNP	G	TCGA-KL-8326-01A-11D-2310-10		79616400	101298860	18	38398										
MEGF10	84466	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	126776527	126776527	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ttctgggcagtgtacttgccGcactggattcatgggacggc	14	10	2	0	rs565304206	byFrequency	TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr5:126776527G>A	ENST00000274473.6	+	19	2597	c.2330G>A	c.(2329-2331)cGc>cAc	p.R777H	MEGF10_ENST00000503335.2_Missense_Mutation_p.R777H	NM_032446.2	NP_115822.1	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10	777	EGF-like 14. {ECO:0000255|PROSITE- ProRule:PRU00076}.|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.				homotypic cell-cell adhesion (GO:0034109)|muscle cell development (GO:0055001)|recognition of apoptotic cell (GO:0043654)|regulation of muscle cell differentiation (GO:0051147)|regulation of skeletal muscle tissue development (GO:0048641)|skeletal muscle satellite cell activation (GO:0014719)|skeletal muscle satellite cell differentiation (GO:0014816)|skeletal muscle satellite cell proliferation (GO:0014841)	cell projection (GO:0042995)|integral component of membrane (GO:0016021)|phagocytic cup (GO:0001891)				breast(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(10)|lung(28)|ovary(4)|prostate(2)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	68		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)		TGTACTTGCCGCACTGGATTC	0.468													G|||	4	0.000798722	0.0008	0.0014	5008	,	,		21967	0.0		0.0	False		,,,				2504	0.002															0													146	131	136					5																	126776527		2203	4300	6503	SO:0001583	missense	84466			AK021631	CCDS4142.1	5q33	2008-02-05			ENSG00000145794	ENSG00000145794			29634	protein-coding gene	gene with protein product		612453				11347906	Standard	NM_032446		Approved	KIAA1780	uc003kui.4	Q96KG7	OTTHUMG00000128984	ENST00000274473.6:c.2330G>A	5.37:g.126776527G>A	ENSP00000274473:p.Arg777His	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DE5|Q8WUL3	Missense_Mutation	SNP	ENST00000274473.6	37	CCDS4142.1	.	.	.	.	.	.	.	.	.	.	G	34	5.326208	0.95708	.	.	ENSG00000145794	ENST00000503335;ENST00000274473	T;T	0.29397	1.57;1.57	6.03	6.03	0.97812	EGF-like, laminin (2);EGF-like region, conserved site (2);Epidermal growth factor-like, type 3 (1);	0.000000	0.85682	D	0.000000	T	0.55210	0.1906	L	0.56769	1.78	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.42378	-0.9455	10	0.42905	T	0.14	-41.3444	20.5752	0.99366	0.0:0.0:1.0:0.0	.	777	Q96KG7	MEG10_HUMAN	H	777	ENSP00000423354:R777H;ENSP00000274473:R777H	ENSP00000274473:R777H	R	+	2	0	MEGF10	126804426	1.000000	0.71417	1.000000	0.80357	0.588000	0.36517	9.869000	0.99810	2.868000	0.98415	0.557000	0.71058	CGC		0.468	MEGF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250973.2	NM_032446		A	126776527	G	A	126776527	3	1	625	1	0	0	0	0	1	0	0	0	9467	1087	38	1	2396	1	MEGF10	5	126776527	Missense_Mutation	SNP	G	TCGA-KL-8326-01A-11D-2310-10	47160127	126776527	54138733	19	38399										
TRIM15	89870	broad.mit.edu	37	chr6	30139748	30139748	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ggcctcccggcggttctgggCttcccgggcttctcctccgg	14	17	2	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr6:30139748C>T	ENST00000376694.4	+	7	1489	c.1020C>T	c.(1018-1020)ggC>ggT	p.G340G	TRIM15_ENST00000376688.1_Intron	NM_033229.2	NP_150232.2	Q9C019	TRI15_HUMAN	tripartite motif containing 15	340	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.				innate immune response (GO:0045087)|mesodermal cell fate determination (GO:0007500)|negative regulation of intracellular transport of viral material (GO:1901253)|negative regulation of viral release from host cell (GO:1902187)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of RIG-I signaling pathway (GO:1900246)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of type I interferon production (GO:0032481)	intracellular (GO:0005622)	zinc ion binding (GO:0008270)			large_intestine(2)|lung(8)|prostate(2)|skin(1)|urinary_tract(1)	14						CGGTTCTGGGCTTCCCGGGCT	0.701																																																0													6	7	7					6																	30139748		1498	2677	4175	SO:0001819	synonymous_variant	89870			AF220132, U34249	CCDS4677.1	6p21.33	2013-01-09	2011-01-25		ENSG00000204610	ENSG00000204610		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	16284	protein-coding gene	gene with protein product			"zinc finger protein 178", "tripartite motif-containing 15"	ZNF178		11331580, 8304341, 8812418	Standard	NM_033229		Approved	ZNFB7, RNF93	uc010jrx.3	Q9C019	OTTHUMG00000031031	ENST00000376694.4:c.1020C>T	6.37:g.30139748C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2BEC9|O95604|Q8IUX9|Q9C018	Silent	SNP	ENST00000376694.4	37	CCDS4677.1																																																																																				0.701	TRIM15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076026.2	NM_033229		T	30139748	C	T	30139748	2	4	625	1	0	0	0	0	0	0	0	1	16502	784	28	2		2	TRIM15	6	30139748	Silent	SNP	C	TCGA-KL-8326-01A-11D-2310-10		30139748	140975319	20	38400										
HLA-DRB5	3127	mdanderson.org	37	chr6	32497900	32497900	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	agcacccacaatgtgcacttAcgtcgggtgtccccagccaa	9	15	0	0	rs78612727	byFrequency	TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr6:32497900A>G	ENST00000374975.3	-	1	163		c.e1+1			NM_002125.3	NP_002116.2			major histocompatibility complex, class II, DR beta 5											NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|pancreas(1)|prostate(1)|stomach(2)	10						ATGTGCACTTACGTCGGGTGT	0.522																																																0													99	102	101					6																	32497900		2203	4300	6503	SO:0001630	splice_region_variant	3127				CCDS4751.1	6p21.3	2013-01-11			ENSG00000198502	ENSG00000198502		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4953	protein-coding gene	gene with protein product		604776					Standard	NM_002125		Approved		uc003obj.3	Q30154	OTTHUMG00000031027	ENST00000374975.3:c.100+1T>C	6.37:g.32497900A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Splice_Site	SNP	ENST00000374975.3	37	CCDS4751.1	.	.	.	.	.	.	.	.	.	.	.	8.839	0.941693	0.18281	.	.	ENSG00000198502	ENST00000374975	.	.	.	4.54	3.3	0.37823	.	.	.	.	.	.	.	.	.	.	.	0.35921	D	0.831832	.	.	.	.	.	.	.	.	.	.	.	.	.	.	7.4495	0.27229	0.8084:0.0:0.0:0.1916	.	.	.	.	.	-1	.	.	.	-	.	.	HLA-DRB5	32605878	0.985000	0.35326	0.199000	0.23439	0.019000	0.09904	2.123000	0.41996	1.909000	0.55274	0.397000	0.26171	.		0.522	HLA-DRB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076022.2	NM_002125	Intron	G	32497900	A	G	32497900	5	3	625	1	0	0	0	0	0	0	1	0	7216	405	14	3	722	3	HLA-DRB5	6	32497900	Splice_Site	SNP	A	TCGA-KL-8326-01A-11D-2310-10	2358152	32497900	138617167	21	38401										
HLA-DPB1	3115	broad.mit.edu	37	chr6	33048688	33048689	+	Frame_Shift_Ins	INS	-	-	A													0	0	1	0	0	0	1	1	0	acacaactacgagctgggcgINSggcccatgaccctgcagcgc					rs141530233|rs534577141	byFrequency	TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr6:33048688_33048689insA	ENST00000418931.2	+	2	456_457	c.340_341insA	c.(340-342)gggfs	p.G114fs	HLA-DPA1_ENST00000419277.1_5'Flank|HLA-DPB1_ENST00000535465.1_Frame_Shift_Ins_p.G114fs|HLA-DPB1_ENST00000471184.1_3'UTR	NM_002121.5	NP_002112.3	P04440	DPB1_HUMAN	major histocompatibility complex, class II, DP beta 1	114	Beta-1.		G -> E (in allele DPB1*01:01, allele DPB1*03:01, allele DPB1*03:02, allele DPB1*04:03, allele DPB1*05:01, allele DPB1*05:02, allele DPB1*06:01, allele DPB1*08:01, allele DPB1*08:02, allele DPB1*09:01, allele DPB1*09:02, allele DPB1*10:01, allele DPB1*11:01, allele DPB1*13:01, allele DPB1*13:02, allele DPB1*14:01, allele DPB1*14:02, allele DPB1*16:01, allele DPB1*17:01, allele DPB1*17:02, allele DPB1*19:01, allele DPB1*21:01, allele DPB1*21:02, allele DPB1*20:01, allele DPB1*22:01, allele DPB1*22:02, allele DPB1*25:01, allele DPB1*25:02, allele DPB1*26:01, allele DPB1*27:01, allele DPB1*29:01, allele DPB1*30:01, allele DPB1*31:01, allele DPB1*35:01, allele DPB1*36:01, allele DPB1*37:01, allele DPB1*38:01, allele DPB1*44:01, allele DPB1*45:01, allele DPB1*50:01, allele DPB1*52:01, allele DPB1*54:01, allele DPB1*55:01, allele DPB1*56:01, allele DPB1*57:01, allele DPB1*58:01, allele DPB1*63:01, allele DPB1*65:01, allele DPB1*67:01, allele DPB1*68:01, allele DPB1*69:01, allele DPB1*70:01, allele DPB1*76:01, allele DPB1*78:01, allele DPB1*79:01, allele DPB1*84:01, allele DPB1*85:01, allele DPB1*87:01, allele DPB1*88:01, allele DPB1*89:01, allele DPB1*90:01, allele DPB1*91:01, allele DPB1*92:01, allele DPB1*93:01, allele DPB1*97:01 and allele DPB1*98:01; dbSNP:rs9277354). {ECO:0000269|PubMed:6330724}.		antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of T cell activation (GO:0050870)|positive regulation of T cell proliferation (GO:0042102)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	cell surface (GO:0009986)|clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|endosome (GO:0005768)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)	peptide antigen binding (GO:0042605)			cervix(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(3)|ovary(1)|skin(1)	11						CGAGCTGGGCGGGCCCATGACC	0.708																																																0										2094,2108		551,992,558						-3.9	0		dbSNP_134	20	2192,6010		354,1484,2263	no	frameshift	HLA-DPB1	NM_002121.5		905,2476,2821	A1A1,A1R,RR		26.7252,49.8334,34.5534				4286,8118				SO:0001589	frameshift_variant	3115				CCDS4765.1	6p21.3	2013-01-11			ENSG00000223865	ENSG00000223865		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4940	protein-coding gene	gene with protein product		142858		HLA-DP1B			Standard	NM_002121		Approved		uc003ocu.2	P04440	OTTHUMG00000031076	Exception_encountered	6.37:g.33048688_33048689insA	ENSP00000408146:p.Gly114fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0PFJ7|A5I886|A8YPB3|B5U8B4|B7VF80|B7VF87|B8ZX68|B8ZYT0|B9W5S8|B9W6F7|B9W6F9|C0MPP5|C0MPQ2|C0MPQ3|C0MPQ5|C0MPQ6|C0MPQ7|C4R9J5|C5IZL1|O00259|O19698|O19700|O19702|O19749|O46884|O77952|O98215|O98216|O98217|O98218|O98219|O98222|O98223|P01916|P04232|P13763|P79493|P79608|Q0P0L4|Q0ZFN3|Q14279|Q27S71|Q29682|Q29684|Q29698|Q29714|Q29775|Q29776|Q29778|Q29779|Q29781|Q29827|Q29828|Q29879|Q29880|Q29898|Q29977|Q2MGW3|Q30015|Q30031|Q30032|Q30033|Q30034|Q30050|Q30051|Q30052|Q30053|Q30054|Q30055|Q30174|Q4GY31|Q4JHD8|Q5ENE0|Q5ENE1|Q5ENW3|Q5EP46|Q5EP47|Q5EP49|Q5EP51|Q5EP52|Q5EP53|Q5EP56|Q5I4H8|Q5I4H9|Q5ISH4|Q5ISH5|Q5SQ73|Q5STP2|Q5YLA6|Q6IVX1|Q6LBX2|Q6LBX3|Q6LBX4|Q6LBX5|Q6LBX6|Q6LBX7|Q6PWX6|Q6TAS4|Q714U1|Q714U2|Q7YQ10|Q860Z7|Q8HWL7|Q8HWT5|Q8SNC4|Q95HC1|Q95IT7|Q95IT8|Q9BD13|Q9GIM2|Q9GIM4|Q9GIX6|Q9GJ41|Q9MY67|Q9TNT7|Q9TQE2|Q9XS11|Q9XS12	Frame_Shift_Ins	INS	ENST00000418931.2	37	CCDS4765.1																																																																																				0.708	HLA-DPB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076106.2	NM_002121		A	33048689	-	A	33048688	7	5	625	1	0	1	1	0	0	0	0	0	7210	1116	39	0	346	0	HLA-DPB1	6	33048688	Frame_Shift_Ins	INS	-	TCGA-KL-8326-01A-11D-2310-10	550788	33048688	138066379	22	38402										
C6orf174	387104	ucsc.edu	37	chr6	127796985	127796985	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	agcgctgcatgttggacataAgcacgcggttctcgtactgc	12	11	1	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr6:127796985A>G	ENST00000525778.1	-	6	2931	c.2186T>C	c.(2185-2187)cTt>cCt	p.L729P	SOGA3_ENST00000368268.2_Missense_Mutation_p.L729P|SOGA3_ENST00000556132.1_Missense_Mutation_p.L729P|SOGA3_ENST00000465909.2_Missense_Mutation_p.L729P|SOGA3_ENST00000474293.2_5'Flank|SOGA3_ENST00000481848.2_Missense_Mutation_p.L729P			Q5TF21	SOGA3_HUMAN	SOGA family member 3	729					regulation of autophagy (GO:0010506)	extracellular space (GO:0005615)|integral component of membrane (GO:0016021)											GTTGGACATAAGCACGCGGTT	0.672																																																0													67	74	72					6																	127796985		2194	4296	6490	SO:0001583	missense	387104			AK096490	CCDS43505.1	6q22.33	2013-03-28	2012-02-27	2012-02-27	ENSG00000214338	ENSG00000214338			21494	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 174"	C6orf174			Standard	NM_001012279		Approved	dJ403A15.3	uc003qbd.3	Q5TF21	OTTHUMG00000166438	ENST00000525778.1:c.2186T>C	6.37:g.127796985A>G	ENSP00000434570:p.Leu729Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000525778.1	37	CCDS43505.1	.	.	.	.	.	.	.	.	.	.	A	20.4	3.983571	0.74474	.	.	ENSG00000214338	ENST00000556132;ENST00000368268;ENST00000525778;ENST00000465909	T;T;T;T	0.63417	-0.04;-0.04;-0.04;-0.04	5.16	5.16	0.70880	.	0.000000	0.85682	D	0.000000	T	0.74680	0.3748	M	0.78456	2.415	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.79645	-0.1717	10	0.87932	D	0	-13.174	14.9909	0.71387	1.0:0.0:0.0:0.0	.	729	Q5TF21	CF174_HUMAN	P	729	ENSP00000451768:L729P;ENSP00000357251:L729P;ENSP00000434570:L729P;ENSP00000435559:L729P	ENSP00000435559:L729P	L	-	2	0	C6orf174	127838678	1.000000	0.71417	1.000000	0.80357	0.920000	0.55202	9.051000	0.93849	1.952000	0.56665	0.379000	0.24179	CTT		0.672	SOGA3-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388246.1	NM_001012279		G	127796985	A	G	127796985	3	3	625	1	0	0	0	0	1	0	0	0	2347	72	3	3	665	3	C6orf174	6	127796985	Missense_Mutation	SNP	A	TCGA-KL-8326-01A-11D-2310-10	94748297	127796985	43318082	23	38403										
STXBP5	134957	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	147646106	147646106	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ttattttagagttaaaaactCaccacttaaacagtctccag	4	9	2	1			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr6:147646106C>A	ENST00000321680.6	+	17	1814	c.1814C>A	c.(1813-1815)tCa>tAa	p.S605*	STXBP5_ENST00000367480.3_Nonsense_Mutation_p.S605*|STXBP5_ENST00000367481.3_Nonsense_Mutation_p.S605*|STXBP5_ENST00000179882.6_Nonsense_Mutation_p.S276*	NM_001127715.2	NP_001121187.1	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn)	605					exocytosis (GO:0006887)|negative regulation of exocytosis (GO:0045920)|positive regulation of exocytosis (GO:0045921)|protein transport (GO:0015031)|regulation of blood coagulation (GO:0030193)|regulation of gene expression (GO:0010468)	acetylcholine-gated channel complex (GO:0005892)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|synapse (GO:0045202)	syntaxin-1 binding (GO:0017075)			breast(2)|endometrium(4)|kidney(3)|large_intestine(6)|lung(21)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	42		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		GTTAAAAACTCACCACTTAAA	0.333																																																0													56	60	59					6																	147646106		2203	4300	6503	SO:0001587	stop_gained	134957			AK055484	CCDS5211.1, CCDS47499.1	6q24.3	2013-01-10			ENSG00000164506	ENSG00000164506		"WD repeat domain containing"	19665	protein-coding gene	gene with protein product		604586				9620695, 14767561	Standard	NM_139244		Approved	tomosyn, LLGL3	uc010khz.2	Q5T5C0	OTTHUMG00000015766	ENST00000321680.6:c.1814C>A	6.37:g.147646106C>A	ENSP00000321826:p.Ser605*	Somatic		WXS	Illumina HiSeq	Phase_I	Q14DF3|Q5T5C1|Q5T5C2|Q8NBG8|Q96NG9	Nonsense_Mutation	SNP	ENST00000321680.6	37	CCDS47499.1	.	.	.	.	.	.	.	.	.	.	C	38	6.790862	0.97841	.	.	ENSG00000164506	ENST00000367481;ENST00000321680;ENST00000367480;ENST00000179882	.	.	.	4.94	4.94	0.65067	.	0.279933	0.35320	N	0.003284	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.18710	T	0.47	.	18.5225	0.90959	0.0:1.0:0.0:0.0	.	.	.	.	X	605;605;605;276	.	ENSP00000179882:S276X	S	+	2	0	STXBP5	147687799	1.000000	0.71417	0.985000	0.45067	0.994000	0.84299	5.657000	0.67996	2.438000	0.82558	0.655000	0.94253	TCA		0.333	STXBP5-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042606.1			A	147646106	C	A	147646106	4	1	625	1	0	0	0	0	0	1	0	0	15368	838	29	4	1880	4	STXBP5	6	147646106	Nonsense_Mutation	SNP	C	TCGA-KL-8326-01A-11D-2310-10	19849121	147646106	23468961	24	38404										
WBSCR17	64409	ucsc.edu	37	chr7	70800582	70800582	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gaaggttatggtgggcggggTaaagggggccttccggctac	19	7	0	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr7:70800582T>G	ENST00000333538.5	+	2	919	c.285T>G	c.(283-285)ggT>ggG	p.G95G	WBSCR17_ENST00000498380.2_3'UTR	NM_022479.1	NP_071924.1	Q6IS24	GLTL3_HUMAN	Williams-Beuren syndrome chromosome region 17	95					protein glycosylation (GO:0006486)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			NS(5)|breast(2)|central_nervous_system(1)|endometrium(7)|kidney(7)|large_intestine(22)|lung(45)|ovary(2)|pancreas(2)|prostate(1)|skin(4)|upper_aerodigestive_tract(2)	100		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				GTGGGCGGGGTAAAGGGGGCC	0.448																																																0																																										SO:0001819	synonymous_variant	64409			AF410457	CCDS5540.1	7q11.23	2014-03-13			ENSG00000185274	ENSG00000185274		"Glycosyltransferase family 2 domain containing"	16347	protein-coding gene	gene with protein product	"polypeptide N-acetylgalactosaminyltransferase-like 3", "polypeptide GalNAc transferase 3"	615137				12073013, 15744064, 22787146	Standard	NM_022479		Approved	GALNTL3, GalNAc-T5L	uc003tvy.4	Q6IS24	OTTHUMG00000129783	ENST00000333538.5:c.285T>G	7.37:g.70800582T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NFV9|Q9NTA8	Silent	SNP	ENST00000333538.5	37	CCDS5540.1																																																																																				0.448	WBSCR17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252006.1	NM_022479		G	70800582	T	G	70800582	2	3	625	1	0	0	0	0	0	0	0	1	17276	1625	57	5		5	WBSCR17	7	70800582	Silent	SNP	T	TCGA-KL-8326-01A-11D-2310-10		70800582	88338081	25	38405										
STEAP1	26872	mdanderson.org	37	chr7	89791240	89791240	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tctggtaggtccaacaaaatAaagaagatgcctggattgag	11	6	1	3	rs199817828		TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr7:89791240A>G	ENST00000297205.2	+	4	810	c.610A>G	c.(610-612)Aaa>Gaa	p.K204E	STEAP2-AS1_ENST00000478318.2_RNA	NM_012449.2	NP_036581.1	Q9UHE8	STEA1_HUMAN	six transmembrane epithelial antigen of the prostate 1	204	Ferric oxidoreductase.				ion transport (GO:0006811)|iron ion homeostasis (GO:0055072)|transmembrane transport (GO:0055085)	cell-cell junction (GO:0005911)|endosome (GO:0005768)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	channel activity (GO:0015267)|metal ion binding (GO:0046872)|oxidoreductase activity (GO:0016491)|transporter activity (GO:0005215)			kidney(2)|large_intestine(3)|lung(6)|skin(2)|upper_aerodigestive_tract(1)	14	all_hematologic(106;0.112)					CCAACAAAATAAAGAAGATGC	0.408																																																0													43	44	44					7																	89791240		2203	4296	6499	SO:0001583	missense	26872			AF186249	CCDS5614.1	7q21	2011-08-31	2005-02-21	2005-02-24	ENSG00000164647	ENSG00000164647		"Serine peptidases / Serine peptidases"	11378	protein-coding gene	gene with protein product		604415	"six transmembrane epithelial antigen of the prostate"	STEAP			Standard	NM_012449		Approved	PRSS24	uc003ujx.3	Q9UHE8	OTTHUMG00000023006	ENST00000297205.2:c.610A>G	7.37:g.89791240A>G	ENSP00000297205:p.Lys204Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1E0|O95034	Missense_Mutation	SNP	ENST00000297205.2	37	CCDS5614.1	38	0.0173992673992674	23	0.046747967479674794	1	0.0027624309392265192	0	0.0	14	0.018469656992084433	A	15.81	2.941792	0.53079	.	.	ENSG00000164647	ENST00000297205	T	0.07444	3.19	5.61	5.61	0.85477	Flavoprotein transmembrane component (1);	0.250346	0.33005	N	0.005400	T	0.01940	0.0061	L	0.51914	1.62	0.36302	D	0.857104	P;P	0.36683	0.565;0.477	B;B	0.41946	0.282;0.371	T	0.07558	-1.0766	10	0.48119	T	0.1	-6.2003	15.8022	0.78463	1.0:0.0:0.0:0.0	.	204;204	B4E221;Q9UHE8	.;STEA1_HUMAN	E	204	ENSP00000297205:K204E	ENSP00000297205:K204E	K	+	1	0	STEAP1	89629176	0.941000	0.31946	0.991000	0.47740	0.976000	0.68499	3.801000	0.55545	2.133000	0.65898	0.533000	0.62120	AAA		0.408	STEAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059327.3	NM_012449		G	89791240	A	G	89791240	3	3	625	1	0	0	0	0	1	0	0	0	15289	363	13	3	620	3	STEAP1	7	89791240	Missense_Mutation	SNP	A	TCGA-KL-8326-01A-11D-2310-10	18990658	89791240	69347423	26	38406										
DOCK4	9732	bcgsc.ca	37	chr7	111512561	111512561	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	atcaatttcttttaatttagAgagacagccagtgatcttgt	7	6	3	3			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr7:111512561A>G	ENST00000437633.1	-	18	2060	c.1804T>C	c.(1804-1806)Tct>Cct	p.S602P	DOCK4_ENST00000476846.1_5'UTR|DOCK4_ENST00000428084.1_Missense_Mutation_p.S602P	NM_014705.3	NP_055520.3	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	602					cell chemotaxis (GO:0060326)|positive regulation of Rac GTPase activity (GO:0032855)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)|stereocilium (GO:0032420)|stereocilium bundle (GO:0032421)	guanyl-nucleotide exchange factor activity (GO:0005085)|PDZ domain binding (GO:0030165)|Rac GTPase activator activity (GO:0030675)|Rac GTPase binding (GO:0048365)|receptor tyrosine kinase binding (GO:0030971)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(13)|lung(31)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(4)	72		Acute lymphoblastic leukemia(1;0.0441)				TTTAATTTAGAGAGACAGCCA	0.333																																																0													69	61	64					7																	111512561		1812	4078	5890	SO:0001583	missense	9732				CCDS47688.1	7q31.1	2007-08-07			ENSG00000128512	ENSG00000128512			19192	protein-coding gene	gene with protein product		607679				12432077, 12628187	Standard	XM_006716188		Approved	FLJ34238, KIAA0716	uc003vfx.3	Q8N1I0	OTTHUMG00000155077	ENST00000437633.1:c.1804T>C	7.37:g.111512561A>G	ENSP00000404179:p.Ser602Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O14584|O94824|Q8NB45	Missense_Mutation	SNP	ENST00000437633.1	37	CCDS47688.1	.	.	.	.	.	.	.	.	.	.	A	18.19	3.568056	0.65651	.	.	ENSG00000128512	ENST00000352877;ENST00000428084;ENST00000437633;ENST00000342288;ENST00000544250	T;T	0.19669	2.13;2.13	4.57	4.57	0.56435	.	0.000000	0.85682	D	0.000000	T	0.34395	0.0896	L	0.56769	1.78	0.80722	D	1	D;D;D;D	0.60575	0.979;0.979;0.979;0.988	P;P;P;P	0.54706	0.756;0.756;0.756;0.759	T	0.06445	-1.0826	10	0.44086	T	0.13	.	14.3959	0.67010	1.0:0.0:0.0:0.0	.	602;602;602;602	Q149N2;Q149N5;Q8N1I0;Q8N1I0-2	.;.;DOCK4_HUMAN;.	P	590;602;602;590;601	ENSP00000410746:S602P;ENSP00000404179:S602P	ENSP00000345432:S590P	S	-	1	0	DOCK4	111299797	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.484000	0.60271	2.048000	0.60808	0.528000	0.53228	TCT		0.333	DOCK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338369.4	NM_014705		G	111512561	A	G	111512561	3	3	625	1	0	0	0	0	1	0	0	0	4691	304	11	3	4236	3	DOCK4	7	111512561	Missense_Mutation	SNP	A	TCGA-KL-8326-01A-11D-2310-10	21721321	111512561	47626102	27	38407										
ST7	7982	broad.mit.edu	37	chr7	116759716	116759716	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ggaggggttgacaacaactcTtccaacaattctaattccag	8	10	2	1			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr7:116759716T>C	ENST00000393446.2	+	3	639	c.336T>C	c.(334-336)tcT>tcC	p.S112S	ST7_ENST00000393444.3_Silent_p.S69S|ST7_ENST00000265437.5_Silent_p.S112S|ST7-AS2_ENST00000442719.1_RNA|ST7_ENST00000487459.1_3'UTR|ST7-AS2_ENST00000434993.1_RNA|ST7-AS2_ENST00000432541.1_RNA|ST7_ENST00000393447.4_Silent_p.S69S|ST7_ENST00000465133.1_Silent_p.S69S|ST7_ENST00000422922.1_Silent_p.S66S|ST7_ENST00000393451.3_Silent_p.S112S|ST7_ENST00000393449.1_Silent_p.S112S|ST7_ENST00000432298.1_Silent_p.S66S|ST7_ENST00000393443.1_Silent_p.S62S|ST7_ENST00000323984.3_Silent_p.S112S			Q9Y561	LRP12_HUMAN	suppression of tumorigenicity 7	0	CUB 1. {ECO:0000255|PROSITE- ProRule:PRU00059}.				endocytosis (GO:0006897)|receptor-mediated endocytosis (GO:0006898)|regulation of growth (GO:0040008)|signal transduction (GO:0007165)	coated pit (GO:0005905)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)	low-density lipoprotein receptor activity (GO:0005041)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(4)|liver(2)|lung(5)|ovary(1)|skin(1)	21	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		ACAACAACTCTTCCAACAATT	0.413																																																0													103	105	104					7																	116759716		2203	4300	6503	SO:0001819	synonymous_variant	7982			AJ277291	CCDS5769.1, CCDS5770.1	7q31.2	2008-06-06			ENSG00000004866	ENSG00000004866			11351	protein-coding gene	gene with protein product		600833		FAM4A1		8105370, 8938430	Standard	NM_021908		Approved	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A	uc003vin.3	Q9NRC1	OTTHUMG00000023888	ENST00000393446.2:c.336T>C	7.37:g.116759716T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K137|B4DRQ2	Silent	SNP	ENST00000393446.2	37																																																																																					0.413	ST7-013	NOVEL	not_organism_supported|basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000319687.1	NM_021908		C	116759716	T	C	116759716	2	2	625	1	0	0	0	0	0	0	0	1	15241	1596	56	3		3	ST7	7	116759716	Silent	SNP	T	TCGA-KL-8326-01A-11D-2310-10	5247155	116759716	42378947	28	38408										
FLNC	2318	broad.mit.edu	37	chr7	128483327	128483327	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	atcaaggtggacccatcccaCgatgccagcaaagtcaaggc	10	13	2	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr7:128483327C>T	ENST00000325888.8	+	17	2856	c.2595C>T	c.(2593-2595)caC>caT	p.H865H	FLNC_ENST00000346177.6_Silent_p.H865H	NM_001458.4	NP_001449.3	Q14315	FLNC_HUMAN	filamin C, gamma	865					cell junction assembly (GO:0034329)	costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcoplasm (GO:0016528)	ankyrin binding (GO:0030506)|cytoskeletal protein binding (GO:0008092)			biliary_tract(1)|breast(7)|central_nervous_system(1)|cervix(1)|endometrium(19)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(19)|lung(59)|ovary(2)|pancreas(2)|prostate(1)|skin(6)|upper_aerodigestive_tract(2)	128						ACCCATCCCACGATGCCAGCA	0.642																																																0													33	38	36					7																	128483327		2075	4233	6308	SO:0001819	synonymous_variant	2318			AB208865	CCDS43644.1, CCDS47705.1	7q32-q35	2014-09-17	2009-07-23		ENSG00000128591	ENSG00000128591			3756	protein-coding gene	gene with protein product	"actin binding protein 280"	102565	"filamin C, gamma (actin binding protein 280)"	FLN2		7689010, 8088838	Standard	NM_001458		Approved	ABP-280, ABPL	uc003vnz.4	Q14315	OTTHUMG00000023627	ENST00000325888.8:c.2595C>T	7.37:g.128483327C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2ZZ88|O95303|Q07985|Q9NS12|Q9NYE5|Q9UMR8|Q9Y503	Silent	SNP	ENST00000325888.8	37	CCDS43644.1																																																																																				0.642	FLNC-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059948.3			T	128483327	C	T	128483327	2	4	625	1	0	0	0	0	0	0	0	1	5942	535	19	1		1	FLNC	7	128483327	Silent	SNP	C	TCGA-KL-8326-01A-11D-2310-10	11723611	128483327	30655336	29	38409										
KLRG2	346689	ucsc.edu;bcgsc.ca	37	chr7	139168253	139168253	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cccggccggacttgggctgcTttcgggaccttcaggttgtc	14	13	1	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr7:139168253T>C	ENST00000340940.4	-	1	205	c.136A>G	c.(136-138)Agc>Ggc	p.S46G	KLRG2_ENST00000393039.2_Missense_Mutation_p.S46G	NM_198508.2	NP_940910.1	A4D1S0	KLRG2_HUMAN	killer cell lectin-like receptor subfamily G, member 2	46	Pro-rich.					integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)			central_nervous_system(1)|large_intestine(2)|lung(3)	6	Melanoma(164;0.233)					CTTGGGCTGCTTTCGGGACCT	0.721																																																0													13	16	15					7																	139168253		1980	4042	6022	SO:0001583	missense	346689			AK126174	CCDS5854.1	7q34	2011-08-30			ENSG00000188883	ENSG00000188883		"Killer cell lectin-like receptors", "C-type lectin domain containing"	24778	protein-coding gene	gene with protein product	"C-type lectin domain family 15, member B"						Standard	XM_005250311		Approved	FLJ44186, CLEC15B	uc003vvb.3	A4D1S0	OTTHUMG00000157705	ENST00000340940.4:c.136A>G	7.37:g.139168253T>C	ENSP00000339356:p.Ser46Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NL79|Q6ZTV6	Missense_Mutation	SNP	ENST00000340940.4	37	CCDS5854.1	.	.	.	.	.	.	.	.	.	.	T	13.25	2.180967	0.38511	.	.	ENSG00000188883	ENST00000340940;ENST00000393039	T;T	0.48836	3.78;0.8	3.55	0.944	0.19537	.	1.345140	0.05333	U	0.528670	T	0.28962	0.0719	N	0.24115	0.695	0.09310	N	1	P;P	0.37500	0.597;0.597	B;B	0.31614	0.133;0.098	T	0.17623	-1.0363	10	0.45353	T	0.12	-3.6868	3.0292	0.06101	0.0:0.2195:0.3131:0.4674	.	46;46	A4D1S0-2;A4D1S0	.;KLRG2_HUMAN	G	46	ENSP00000339356:S46G;ENSP00000376759:S46G	ENSP00000339356:S46G	S	-	1	0	KLRG2	138818793	0.130000	0.22417	0.004000	0.12327	0.163000	0.22366	0.056000	0.14256	-0.008000	0.14320	0.254000	0.18369	AGC		0.721	KLRG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349433.1	NM_198508		C	139168253	T	C	139168253	3	2	625	1	0	0	0	0	1	0	0	0	8429	1609	56	3	1113	3	KLRG2	7	139168253	Missense_Mutation	SNP	T	TCGA-KL-8326-01A-11D-2310-10	10684926	139168253	19970410	30	38410										
MLL3	58508	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr7	151855973	151855973	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tcaagtgggtaaacgtgtcaGtgctagagtacatagcttgt	12	6	2	1			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr7:151855973G>A	ENST00000262189.6	-	44	11863	c.11645C>T	c.(11644-11646)aCt>aTt	p.T3882I	KMT2C_ENST00000355193.2_Missense_Mutation_p.T3882I	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	3882					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)										AAACGTGTCAGTGCTAGAGTA	0.488																																																0													404	372	383					7																	151855973		2203	4300	6503	SO:0001583	missense	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.11645C>T	7.37:g.151855973G>A	ENSP00000262189:p.Thr3882Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Missense_Mutation	SNP	ENST00000262189.6	37	CCDS5931.1	.	.	.	.	.	.	.	.	.	.	G	10.37	1.330519	0.24167	.	.	ENSG00000055609	ENST00000262189;ENST00000355193;ENST00000424877	D;D;D	0.88354	-1.73;-1.79;-2.37	5.56	1.33	0.21861	.	1.403890	0.05210	U	0.506622	D	0.86439	0.5933	L	0.38175	1.15	0.19300	N	0.999975	B;B;B	0.32526	0.201;0.374;0.374	B;B;B	0.36186	0.092;0.219;0.143	T	0.75274	-0.3375	10	0.62326	D	0.03	.	12.502	0.55960	0.0:0.3803:0.5009:0.1188	.	3882;2943;3882	Q8NEZ4;Q8NEZ4-2;Q8NEZ4-3	MLL3_HUMAN;.;.	I	3882;3882;468	ENSP00000262189:T3882I;ENSP00000347325:T3882I;ENSP00000410411:T468I	ENSP00000262189:T3882I	T	-	2	0	MLL3	151486906	0.028000	0.19301	0.000000	0.03702	0.023000	0.10783	1.857000	0.39399	0.347000	0.23924	0.591000	0.81541	ACT		0.488	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			A	151855973	G	A	151855973	3	1	625	1	0	0	0	0	1	0	0	0	9629	1029	36	2	3154	2	MLL3	7	151855973	Missense_Mutation	SNP	G	TCGA-KL-8326-01A-11D-2310-10	12687720	151855973	7282690	31	38411										
HSF1	3297	bcgsc.ca	37	chr8	145535243	145535243	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	attccatgcccaagtatagcCggcagttctccctggagcac	9	14	1	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr8:145535243C>T	ENST00000528838.1	+	7	839	c.679C>T	c.(679-681)Cgg>Tgg	p.R227W	HSF1_ENST00000400780.4_Missense_Mutation_p.R162W	NM_005526.2	NP_005517.1	Q00613	HSF1_HUMAN	heat shock transcription factor 1	227	Regulatory domain.				cellular response to heat (GO:0034605)|defense response (GO:0006952)|embryonic placenta development (GO:0001892)|embryonic process involved in female pregnancy (GO:0060136)|female meiotic division (GO:0007143)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of tumor necrosis factor production (GO:0032720)|positive regulation of multicellular organism growth (GO:0040018)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein phosphorylation (GO:0006468)|regulation of spindle checkpoint (GO:0090231)|response to lipopolysaccharide (GO:0032496)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|pronucleus (GO:0045120)|protein complex (GO:0043234)	chromatin binding (GO:0003682)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II intronic transcription regulatory region sequence-specific DNA binding (GO:0001162)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(1)|large_intestine(1)|lung(3)|prostate(3)|skin(1)|urinary_tract(2)	11	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;1.12e-39)|all cancers(56;9.11e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0547)|Colorectal(110;0.055)			CAAGTATAGCCGGCAGTTCTC	0.672																																																0													68	65	66					8																	145535243		2203	4296	6499	SO:0001583	missense	3297			M64673	CCDS6419.1	8q24.3	2014-04-10			ENSG00000185122	ENSG00000185122			5224	protein-coding gene	gene with protein product		140580				1871105	Standard	NM_005526		Approved	HSTF1	uc003zbt.4	Q00613	OTTHUMG00000174604	ENST00000528838.1:c.679C>T	8.37:g.145535243C>T	ENSP00000431512:p.Arg227Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4L0|A8MW26|Q53XT4	Missense_Mutation	SNP	ENST00000528838.1	37	CCDS6419.1	.	.	.	.	.	.	.	.	.	.	C	21.5	4.155959	0.78114	.	.	ENSG00000185122	ENST00000528838;ENST00000400780	.	.	.	5.14	4.26	0.50523	.	0.110120	0.56097	D	0.000040	T	0.77698	0.4169	M	0.77103	2.36	0.58432	D	0.999996	D	0.89917	1.0	D	0.72338	0.977	T	0.80643	-0.1291	9	0.72032	D	0.01	-17.3041	12.8206	0.57690	0.1646:0.8353:0.0:0.0	.	227	Q00613	HSF1_HUMAN	W	227;162	.	ENSP00000383590:R162W	R	+	1	2	HSF1	145506051	1.000000	0.71417	0.927000	0.36925	0.369000	0.29798	3.469000	0.53093	1.380000	0.46344	0.563000	0.77884	CGG		0.672	HSF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382053.1	NM_005526		T	145535243	C	T	145535243	3	4	625	1	0	0	0	0	1	0	0	0	7402	643	23	1	705	1	HSF1	8	145535243	Missense_Mutation	SNP	C	TCGA-KL-8326-01A-11D-2310-10		145535243	828779	32	38412										
KIAA1797	54914	ucsc.edu	37	chr9	20986432	20986432	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gatgattctgcacagcttatAccaggcacggattgtgagcc	11	10	1	2			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr9:20986432A>G	ENST00000380249.1	+	42	5238	c.4874A>G	c.(4873-4875)tAc>tGc	p.Y1625C	FOCAD_ENST00000605086.1_Missense_Mutation_p.Y1061C|FOCAD_ENST00000338382.6_Missense_Mutation_p.Y1625C	NM_017794.3	NP_060264.3	Q5VW36	FOCAD_HUMAN	focadhesin	1625						focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)											CACAGCTTATACCAGGCACGG	0.522																																																0													120	89	99					9																	20986432		2203	4300	6503	SO:0001583	missense	54914			AB058700	CCDS34993.1	9p21	2012-03-23	2012-03-23	2012-03-23	ENSG00000188352	ENSG00000188352			23377	protein-coding gene	gene with protein product		614606	"KIAA1797"	KIAA1797		22427331	Standard	XM_006716794		Approved	FLJ20375	uc003zog.1	Q5VW36	OTTHUMG00000066930	ENST00000380249.1:c.4874A>G	9.37:g.20986432A>G	ENSP00000369599:p.Tyr1625Cys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRJ9|Q6ZME1|Q8IZG0|Q96JM8|Q96MS9|Q9BVF3|Q9NX87	Missense_Mutation	SNP	ENST00000380249.1	37	CCDS34993.1	.	.	.	.	.	.	.	.	.	.	A	22.5	4.292997	0.80914	.	.	ENSG00000188352	ENST00000380249;ENST00000338382	T;T	0.26660	1.72;1.72	5.72	5.72	0.89469	.	0.064498	0.64402	D	0.000005	T	0.50905	0.1643	M	0.70595	2.14	0.80722	D	1	D	0.89917	1.0	D	0.79108	0.992	T	0.50346	-0.8839	10	0.49607	T	0.09	-8.4471	15.998	0.80265	1.0:0.0:0.0:0.0	.	1625	Q5VW36	K1797_HUMAN	C	1625	ENSP00000369599:Y1625C;ENSP00000344307:Y1625C	ENSP00000344307:Y1625C	Y	+	2	0	KIAA1797	20976432	1.000000	0.71417	0.998000	0.56505	0.997000	0.91878	5.436000	0.66538	2.183000	0.69458	0.455000	0.32223	TAC		0.522	FOCAD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000143442.1	NM_017794		G	20986432	A	G	20986432	3	3	625	1	0	0	0	0	1	0	0	0	8265	391	14	3	5028	3	KIAA1797	9	20986432	Missense_Mutation	SNP	A	TCGA-KL-8326-01A-11D-2310-10		20986432	120226999	33	38413										
MAPKAP1	79109	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr9	128246857	128246857	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctcaaaaaccccgtctgcccTtgaacctggggaggaaaagg	11	12	2	1			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr9:128246857T>G	ENST00000373498.1	-	8	1140	c.1072A>C	c.(1072-1074)Agg>Cgg	p.R358R	MAPKAP1_ENST00000373503.3_Silent_p.R166R|MAPKAP1_ENST00000394063.1_Silent_p.R166R|MAPKAP1_ENST00000265960.3_Silent_p.R358R|MAPKAP1_ENST00000373497.5_Silent_p.R71R|MAPKAP1_ENST00000350766.3_Silent_p.R322R|MAPKAP1_ENST00000373511.2_Intron			Q9BPZ7	SIN1_HUMAN	mitogen-activated protein kinase associated protein 1	358					epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|negative regulation of Ras protein signal transduction (GO:0046580)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|substantia nigra development (GO:0021762)|T cell costimulation (GO:0031295)	cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	phosphatidic acid binding (GO:0070300)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)|phosphatidylinositol-3,5-bisphosphate binding (GO:0080025)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|protein kinase binding (GO:0019901)|Ras GTPase binding (GO:0017016)			endometrium(2)|kidney(1)|large_intestine(2)|lung(15)|ovary(3)	23						CCGTCTGCCCTTGAACCTGGG	0.413																																																0													129	112	118					9																	128246857		2203	4300	6503	SO:0001819	synonymous_variant	79109			M37191	CCDS6864.1, CCDS35139.1, CCDS35140.1, CCDS35141.1, CCDS48020.1	9q34.11	2008-02-05			ENSG00000119487	ENSG00000119487			18752	protein-coding gene	gene with protein product	"stress-activated protein kinase-interacting 1"	610558				15363842	Standard	NM_001006620		Approved	MGC2745, SIN1, MIP1	uc004bpv.3	Q9BPZ7	OTTHUMG00000020683	ENST00000373498.1:c.1072A>C	9.37:g.128246857T>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1Z5|B1AMA4|B7Z309|Q00426|Q5JSV5|Q5JSV6|Q5JSV9|Q658R0|Q699U1|Q699U2|Q699U3|Q699U4|Q6GVJ0|Q6GVJ1|Q6GVJ2	Silent	SNP	ENST00000373498.1	37	CCDS35140.1																																																																																				0.413	MAPKAP1-009	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000054092.1			G	128246857	T	G	128246857	2	3	625	1	0	0	0	0	0	0	0	1	9295	1608	56	5		5	MAPKAP1	9	128246857	Silent	SNP	T	TCGA-KL-8326-01A-11D-2310-10	107260425	128246857	12966574	34	38414										
C9orf119	375757	broad.mit.edu	37	chr9	131046910	131046910	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gatctcccagttcgtatctgAgtaagtttcattgggttccc	9	10	3	1			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr9:131046910A>G	ENST00000320188.5	+	3	548	c.548A>G	c.(547-549)gAa>gGa	p.E183G	SWI5_ENST00000419867.2_Splice_Site_p.E118G|SWI5_ENST00000418976.1_Splice_Site_p.E78G|SWI5_ENST00000495313.1_Splice_Site_p.E87G|SWI5_ENST00000608796.1_Splice_Site_p.E118G	NM_001040011.1	NP_001035100.1	Q1ZZU3	SWI5_HUMAN	SWI5 recombination repair homolog (yeast)	183					cellular response to ionizing radiation (GO:0071479)|double-strand break repair via homologous recombination (GO:0000724)	nucleus (GO:0005634)|Swi5-Sfr1 complex (GO:0032798)											TTCGTATCTGAGTAAGTTTCA	0.512																																																0													102	108	106					9																	131046910		1979	4158	6137	SO:0001630	splice_region_variant	375757			BC029911	CCDS43883.1	9q34.13	2011-07-29	2011-07-29	2011-07-29	ENSG00000175854	ENSG00000175854			31412	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 119"	C9orf119		21252223, 20976249	Standard	NM_001040011		Approved	bA395P17.9	uc004bup.3	Q1ZZU3	OTTHUMG00000020729	ENST00000320188.5:c.548+1A>G	9.37:g.131046910A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SYX7|Q5SYX8|Q8N2W6	Missense_Mutation	SNP	ENST00000320188.5	37	CCDS43883.1	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	A|A|A	19.42|19.42|19.42	3.823333|3.823333|3.823333	0.71143|0.71143|0.71143	.|.|.	.|.|.	ENSG00000175854|ENSG00000175854|ENSG00000175854	ENST00000320188|ENST00000495313;ENST00000372898|ENST00000418976	.|.|.	.|.|.	.|.|.	5.32|5.32|5.32	4.18|4.18|4.18	0.49190|0.49190|0.49190	.|.|.	0.000000|.|.	0.85682|.|.	D|.|.	0.000000|.|.	T|T|.	0.73079|0.73079|.	0.3541|0.3541|.	M|M|M	0.83603|0.83603|0.83603	2.65|2.65|2.65	0.45342|0.45342|0.45342	D|D|D	0.998339|0.998339|0.998339	D|.|.	0.89917|.|.	1.0|.|.	D|.|.	0.91635|.|.	0.999|.|.	T|T|.	0.73235|0.73235|.	-0.4047|-0.4047|.	9|5|.	0.87932|.|.	D|.|.	0|.|.	.|.|.	8.945|8.945|8.945	0.35753|0.35753|0.35753	0.9143:0.0:0.0857:0.0|0.9143:0.0:0.0857:0.0|0.9143:0.0:0.0857:0.0	.|.|.	183|.|.	Q1ZZU3|.|.	SWI5_HUMAN|.|.	G|E|W	183|97;93|110	.|.|.	ENSP00000316609:E183G|.|.	E|K|X	+|+|+	2|1|3	0|0|0	SWI5|SWI5|SWI5	130086731|130086731|130086731	1.000000|1.000000|1.000000	0.71417|0.71417|0.71417	0.999000|0.999000|0.999000	0.59377|0.59377|0.59377	0.776000|0.776000|0.776000	0.43924|0.43924|0.43924	3.514000|3.514000|3.514000	0.53422|0.53422|0.53422	0.964000|0.964000|0.964000	0.38108|0.38108|0.38108	0.533000|0.533000|0.533000	0.62120|0.62120|0.62120	GAA|AAG|TGA		0.512	SWI5-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001040011	Missense_Mutation	G	131046910	A	G	131046910	5	3	625	1	0	0	0	0	0	0	1	0	2454	318	11	3	558	3	C9orf119	9	131046910	Splice_Site	SNP	A	TCGA-KL-8326-01A-11D-2310-10	2800053	131046910	10166521	35	38415										
TSC1	7248	broad.mit.edu	37	chr9	135797337	135797349	+	Frame_Shift_Del	DEL	CGAGATAGACTTC	CGAGATAGACTTC	-													0	0	1	0	0	0	1	1	0	cacactggcatggagatggaCgagatagacttccgccacgt					rs118203393|rs118203392|rs118203395|rs397514794|rs118203394		TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	CGAGATAGACTTC	CGAGATAGACTTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr9:135797337_135797349delCGAGATAGACTTC	ENST00000298552.3	-	7	741_753	c.520_532delGAAGTCTATCTCG	c.(520-534)gaagtctatctcgtcfs	p.EVYLV174fs	TSC1_ENST00000440111.2_Frame_Shift_Del_p.EVYLV174fs|TSC1_ENST00000545250.1_Frame_Shift_Del_p.EVYLV123fs|TSC1_ENST00000475903.1_5'UTR|TSC1_ENST00000403810.1_Frame_Shift_Del_p.EVYLV174fs	NM_000368.4|NM_001162426.1|NM_001162427.1	NP_000359.1|NP_001155898.1|NP_001155899.1	Q92574	TSC1_HUMAN	tuberous sclerosis 1	174					activation of Rho GTPase activity (GO:0032862)|cardiac muscle cell differentiation (GO:0055007)|cell cycle arrest (GO:0007050)|cell projection organization (GO:0030030)|cell-matrix adhesion (GO:0007160)|cerebral cortex development (GO:0021987)|hippocampus development (GO:0021766)|insulin receptor signaling pathway (GO:0008286)|kidney development (GO:0001822)|myelination (GO:0042552)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of TOR signaling (GO:0032007)|negative regulation of translation (GO:0017148)|neural tube closure (GO:0001843)|positive regulation of focal adhesion assembly (GO:0051894)|potassium ion transport (GO:0006813)|protein heterooligomerization (GO:0051291)|protein stabilization (GO:0050821)|regulation of cell cycle (GO:0051726)|regulation of cell-matrix adhesion (GO:0001952)|regulation of phosphoprotein phosphatase activity (GO:0043666)|regulation of protein kinase activity (GO:0045859)|regulation of stress fiber assembly (GO:0051492)|regulation of translation (GO:0006417)|response to insulin (GO:0032868)|rRNA export from nucleus (GO:0006407)|synapse organization (GO:0050808)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|growth cone (GO:0030426)|intracellular membrane-bounded organelle (GO:0043231)|lamellipodium (GO:0030027)|membrane (GO:0016020)|protein complex (GO:0043234)|TSC1-TSC2 complex (GO:0033596)	chaperone binding (GO:0051087)|GTPase regulator activity (GO:0030695)|protein N-terminus binding (GO:0047485)	p.E174*(1)|p.V178L(1)|p.?(1)		NS(1)|bone(1)|breast(3)|central_nervous_system(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(9)|lung(20)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(4)	65				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		TGGAGATGGACGAGATAGACTTCCGCCACGTGG	0.474			"D, Mis, N, F, S"			"hamartoma, renal cell"			Tuberous Sclerosis																													yes	Rec		Tuberous sclerosis 1	9	9q34	7248	tuberous sclerosis 1 gene		"E, O"	3	Substitution - Missense(1)|Unknown(1)|Substitution - Nonsense(1)	lung(2)|bone(1)	GRCh37	CD972479|CM090913	TSC1	D|M	rs118203392																																			SO:0001589	frameshift_variant	7248	Familial Cancer Database	TS, Tuberous Sclerosis Complex, TSC, Bourneville-Pringle disease	AF013168	CCDS6956.1, CCDS55350.1	9q34	2014-09-17			ENSG00000165699	ENSG00000165699			12362	protein-coding gene	gene with protein product		605284		TSC		9242607, 10806479	Standard	NM_000368		Approved	KIAA0243, LAM, hamartin	uc004cca.2	Q92574	OTTHUMG00000020844	ENST00000298552.3:c.520_532delGAAGTCTATCTCG	9.37:g.135797337_135797349delCGAGATAGACTTC	ENSP00000298552:p.Glu174fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z897|Q5VVN5	Frame_Shift_Del	DEL	ENST00000298552.3	37	CCDS6956.1																																																																																				0.474	TSC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054799.1			-	135797349	CGAGATAGACTTC	-	135797337	7	5	625	1	0	1	0	1	0	0	0	0	16617	536	19	0	3030	0	TSC1	9	135797337	Frame_Shift_Del	DEL	CGAGATAGACTTC	TCGA-KL-8326-01A-11D-2310-10	4750427	135797337	5416094	36	38416	305	2								
TSC1	7248	bcgsc.ca	37	chr9	135797338	135797350	+	Frame_Shift_Del	DEL	CGAGATAGACTTC	CGAGATAGACTTC	-													0	0	1	0	0	0	1	1	0	acactggcatggagatggacGagatagacttccgccacgtg					rs118203393|rs118203392|rs397514794|rs118203394		TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	CGAGATAGACTTC	CGAGATAGACTTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr9:135797338_135797350delCGAGATAGACTTC	ENST00000298552.3	-	7	740_752	c.519_531delGAAGTCTATCTCG	c.(517-531)gcgaagtctatctcgfs	p.AKSIS173fs	TSC1_ENST00000440111.2_Frame_Shift_Del_p.AKSIS173fs|TSC1_ENST00000545250.1_Frame_Shift_Del_p.AKSIS122fs|TSC1_ENST00000475903.1_5'UTR|TSC1_ENST00000403810.1_Frame_Shift_Del_p.AKSIS173fs	NM_000368.4|NM_001162426.1|NM_001162427.1	NP_000359.1|NP_001155898.1|NP_001155899.1	Q92574	TSC1_HUMAN	tuberous sclerosis 1	173					activation of Rho GTPase activity (GO:0032862)|cardiac muscle cell differentiation (GO:0055007)|cell cycle arrest (GO:0007050)|cell projection organization (GO:0030030)|cell-matrix adhesion (GO:0007160)|cerebral cortex development (GO:0021987)|hippocampus development (GO:0021766)|insulin receptor signaling pathway (GO:0008286)|kidney development (GO:0001822)|myelination (GO:0042552)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of TOR signaling (GO:0032007)|negative regulation of translation (GO:0017148)|neural tube closure (GO:0001843)|positive regulation of focal adhesion assembly (GO:0051894)|potassium ion transport (GO:0006813)|protein heterooligomerization (GO:0051291)|protein stabilization (GO:0050821)|regulation of cell cycle (GO:0051726)|regulation of cell-matrix adhesion (GO:0001952)|regulation of phosphoprotein phosphatase activity (GO:0043666)|regulation of protein kinase activity (GO:0045859)|regulation of stress fiber assembly (GO:0051492)|regulation of translation (GO:0006417)|response to insulin (GO:0032868)|rRNA export from nucleus (GO:0006407)|synapse organization (GO:0050808)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|growth cone (GO:0030426)|intracellular membrane-bounded organelle (GO:0043231)|lamellipodium (GO:0030027)|membrane (GO:0016020)|protein complex (GO:0043234)|TSC1-TSC2 complex (GO:0033596)	chaperone binding (GO:0051087)|GTPase regulator activity (GO:0030695)|protein N-terminus binding (GO:0047485)	p.E174*(1)|p.?(1)		NS(1)|bone(1)|breast(3)|central_nervous_system(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(9)|lung(20)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(4)	65				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		GGAGATGGACGAGATAGACTTCCGCCACGTGGC	0.479			"D, Mis, N, F, S"			"hamartoma, renal cell"			Tuberous Sclerosis																													yes	Rec		Tuberous sclerosis 1	9	9q34	7248	tuberous sclerosis 1 gene		"E, O"	2	Substitution - Nonsense(1)|Unknown(1)	lung(1)|bone(1)	GRCh37	CD972479|CM090913	TSC1	D|M	rs118203392																																			SO:0001589	frameshift_variant	7248	Familial Cancer Database	TS, Tuberous Sclerosis Complex, TSC, Bourneville-Pringle disease	AF013168	CCDS6956.1, CCDS55350.1	9q34	2014-09-17			ENSG00000165699	ENSG00000165699			12362	protein-coding gene	gene with protein product		605284		TSC		9242607, 10806479	Standard	NM_000368		Approved	KIAA0243, LAM, hamartin	uc004cca.2	Q92574	OTTHUMG00000020844	ENST00000298552.3:c.519_531delGAAGTCTATCTCG	9.37:g.135797338_135797350delCGAGATAGACTTC	ENSP00000298552:p.Ala173fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z897|Q5VVN5	Frame_Shift_Del	DEL	ENST00000298552.3	37	CCDS6956.1																																																																																				0.479	TSC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054799.1			-	135797350	CGAGATAGACTTC	-	135797338	7	5	625	1	0	1	0	1	0	0	0	0	16617	1045	37	0	3031	0	TSC1	9	135797338	Frame_Shift_Del	DEL	CGAGATAGACTTC	TCGA-KL-8326-01A-11D-2310-10	1	135797338	5416093	37	38417	305	2								
CUBN	8029	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr10	16941101	16941101	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gagtaatggccgtccaggaaCatctgctgttttcgggaaaa	12	8	1	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr10:16941101C>T	ENST00000377833.4	-	54	8557	c.8492G>A	c.(8491-8493)tGt>tAt	p.C2831Y		NM_001081.3	NP_001072.2	O60494	CUBN_HUMAN	cubilin (intrinsic factor-cobalamin receptor)	2831	CUB 21. {ECO:0000255|PROSITE- ProRule:PRU00059}.				cholesterol metabolic process (GO:0008203)|cobalamin metabolic process (GO:0009235)|cobalamin transport (GO:0015889)|lipoprotein metabolic process (GO:0042157)|lipoprotein transport (GO:0042953)|receptor-mediated endocytosis (GO:0006898)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|tissue homeostasis (GO:0001894)|vitamin D metabolic process (GO:0042359)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|coated pit (GO:0005905)|cytosol (GO:0005829)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|extrinsic component of external side of plasma membrane (GO:0031232)|Golgi apparatus (GO:0005794)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|cobalamin binding (GO:0031419)|protein homodimerization activity (GO:0042803)|receptor activity (GO:0004872)|transporter activity (GO:0005215)			breast(8)|central_nervous_system(4)|cervix(1)|endometrium(18)|haematopoietic_and_lymphoid_tissue(3)|kidney(12)|large_intestine(42)|liver(1)|lung(107)|ovary(9)|pancreas(2)|prostate(3)|skin(9)|stomach(3)|upper_aerodigestive_tract(11)|urinary_tract(8)	241					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CGTCCAGGAACATCTGCTGTT	0.428																																																0													159	145	150					10																	16941101		2203	4300	6503	SO:0001583	missense	8029			AF034611	CCDS7113.1	10p12	2014-09-17			ENSG00000107611	ENSG00000107611			2548	protein-coding gene	gene with protein product		602997		MGA1		9572993, 9478979	Standard	NM_001081		Approved	IFCR, gp280	uc001ioo.3	O60494	OTTHUMG00000017741	ENST00000377833.4:c.8492G>A	10.37:g.16941101C>T	ENSP00000367064:p.Cys2831Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B0YIZ4|Q5VTA6|Q96RU9	Missense_Mutation	SNP	ENST00000377833.4	37	CCDS7113.1	.	.	.	.	.	.	.	.	.	.	C	19.09	3.760183	0.69763	.	.	ENSG00000107611	ENST00000377833	T	0.66280	-0.2	5.63	5.63	0.86233	CUB (5);	0.000000	0.51477	D	0.000095	D	0.86029	0.5835	H	0.95917	3.74	0.80722	D	1	D	0.60160	0.987	D	0.66497	0.944	D	0.89731	0.3926	10	0.87932	D	0	.	20.0433	0.97601	0.0:1.0:0.0:0.0	.	2831	O60494	CUBN_HUMAN	Y	2831	ENSP00000367064:C2831Y	ENSP00000367064:C2831Y	C	-	2	0	CUBN	16981107	1.000000	0.71417	0.999000	0.59377	0.465000	0.32709	7.396000	0.79891	2.817000	0.96982	0.561000	0.74099	TGT		0.428	CUBN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047009.1	NM_001081		T	16941101	C	T	16941101	3	4	625	1	0	0	0	0	1	0	0	0	4053	478	17	2	2435	2	CUBN	10	16941101	Missense_Mutation	SNP	C	TCGA-KL-8326-01A-11D-2310-10		16941101	118593646	38	38418										
SIRT1	23411	broad.mit.edu	37	chr10	69644881	69644883	+	In_Frame_Del	DEL	GGC	GGC	-													0	0	1	0	0	0	1	1	0	gagggcgaggaggaggaagaGgcggcggcggcggcgattgg					rs561432931|rs36062014	byFrequency	TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	GGC	GGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr10:69644881_69644883delGGC	ENST00000212015.6	+	1	455_457	c.402_404delGGC	c.(400-405)gaggcg>gag	p.A139del	SIRT1_ENST00000432464.1_5'Flank	NM_012238.4	NP_036370.2	Q96EB6	SIR1_HUMAN	sirtuin 1	139	Interaction with CLOCK. {ECO:0000250|UniProtKB:Q923E4}.|Interaction with HIST1H1E.				angiogenesis (GO:0001525)|cell aging (GO:0007569)|cellular glucose homeostasis (GO:0001678)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to hydrogen peroxide (GO:0070301)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to starvation (GO:0009267)|cellular response to tumor necrosis factor (GO:0071356)|cellular triglyceride homeostasis (GO:0035356)|cholesterol homeostasis (GO:0042632)|chromatin organization (GO:0006325)|chromatin silencing (GO:0006342)|chromatin silencing at rDNA (GO:0000183)|circadian regulation of gene expression (GO:0032922)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|DNA synthesis involved in DNA repair (GO:0000731)|establishment of chromatin silencing (GO:0006343)|fatty acid homeostasis (GO:0055089)|histone deacetylation (GO:0016575)|histone H3 deacetylation (GO:0070932)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|maintenance of chromatin silencing (GO:0006344)|methylation-dependent chromatin silencing (GO:0006346)|muscle organ development (GO:0007517)|negative regulation of androgen receptor signaling pathway (GO:0060766)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cAMP-dependent protein kinase activity (GO:2000480)|negative regulation of cell growth (GO:0030308)|negative regulation of cellular response to testosterone stimulus (GO:2000655)|negative regulation of cellular senescence (GO:2000773)|negative regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043518)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of helicase activity (GO:0051097)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:1902166)|negative regulation of neuron death (GO:1901215)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902176)|negative regulation of peptidyl-lysine acetylation (GO:2000757)|negative regulation of phosphorylation (GO:0042326)|negative regulation of prostaglandin biosynthetic process (GO:0031393)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of TOR signaling (GO:0032007)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|ovulation from ovarian follicle (GO:0001542)|peptidyl-lysine acetylation (GO:0018394)|peptidyl-lysine deacetylation (GO:0034983)|positive regulation of adaptive immune response (GO:0002821)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cAMP-dependent protein kinase activity (GO:2000481)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cellular senescence (GO:2000774)|positive regulation of cholesterol efflux (GO:0010875)|positive regulation of chromatin silencing (GO:0031937)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of DNA repair (GO:0045739)|positive regulation of histone H3-K9 methylation (GO:0051574)|positive regulation of insulin receptor signaling pathway (GO:0046628)|positive regulation of macroautophagy (GO:0016239)|positive regulation of macrophage apoptotic process (GO:2000111)|positive regulation of MHC class II biosynthetic process (GO:0045348)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein deacetylation (GO:0006476)|protein destabilization (GO:0031648)|protein ubiquitination (GO:0016567)|pyrimidine dimer repair by nucleotide-excision repair (GO:0000720)|regulation of bile acid biosynthetic process (GO:0070857)|regulation of cell proliferation (GO:0042127)|regulation of endodeoxyribonuclease activity (GO:0032071)|regulation of glucose metabolic process (GO:0010906)|regulation of mitotic cell cycle (GO:0007346)|regulation of peroxisome proliferator activated receptor signaling pathway (GO:0035358)|regulation of protein import into nucleus, translocation (GO:0033158)|regulation of smooth muscle cell apoptotic process (GO:0034391)|response to hydrogen peroxide (GO:0042542)|response to insulin (GO:0032868)|response to oxidative stress (GO:0006979)|rRNA processing (GO:0006364)|single strand break repair (GO:0000012)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)|triglyceride mobilization (GO:0006642)|viral process (GO:0016032)|white fat cell differentiation (GO:0050872)	chromatin silencing complex (GO:0005677)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear envelope (GO:0005635)|nuclear euchromatin (GO:0005719)|nuclear heterochromatin (GO:0005720)|nuclear inner membrane (GO:0005637)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|rDNA heterochromatin (GO:0033553)	bHLH transcription factor binding (GO:0043425)|deacetylase activity (GO:0019213)|enzyme binding (GO:0019899)|histone binding (GO:0042393)|histone deacetylase activity (GO:0004407)|HLH domain binding (GO:0043398)|identical protein binding (GO:0042802)|keratin filament binding (GO:1990254)|metal ion binding (GO:0046872)|mitogen-activated protein kinase binding (GO:0051019)|NAD+ binding (GO:0070403)|NAD-dependent histone deacetylase activity (GO:0017136)|NAD-dependent histone deacetylase activity (H3-K9 specific) (GO:0046969)|NAD-dependent protein deacetylase activity (GO:0034979)|p53 binding (GO:0002039)|protein C-terminus binding (GO:0008022)|protein deacetylase activity (GO:0033558)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)			central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(6)|lung(3)|skin(1)	14						aggaggaagaggcggcggcggcg	0.7														4	0.000798722	0.0023	0.0	5008	,	,		11397	0.0		0.0	False		,,,				2504	0.001															0										22,2122		7,8,1057						2.8	1			3	14,4796		4,6,2395	no	coding	SIRT1	NM_012238.4		11,14,3452	A1A1,A1R,RR		0.2911,1.0261,0.5177				36,6918				SO:0001651	inframe_deletion	23411			AF083106	CCDS7273.1, CCDS44412.1	10q21	2010-06-25	2010-06-25		ENSG00000096717	ENSG00000096717			14929	protein-coding gene	gene with protein product		604479	"sirtuin (silent mating type information regulation 2, S. cerevisiae, homolog) 1", "sirtuin (silent mating type information regulation 2 homolog) 1 (S. cerevisiae)"			10381378	Standard	NM_012238		Approved	SIR2L1	uc001jnd.3	Q96EB6	OTTHUMG00000018340	ENST00000212015.6:c.402_404delGGC	10.37:g.69644890_69644892delGGC	ENSP00000212015:p.Ala139del	Somatic		WXS	Illumina HiSeq	Phase_I	Q2XNF6|Q5JVQ0|Q9GZR9|Q9Y6F0	In_Frame_Del	DEL	ENST00000212015.6	37	CCDS7273.1																																																																																				0.7	SIRT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048296.1			-	69644883	GGC	-	69644881	7	5	625	1	0	1	0	1	0	0	0	0	14350	991	35	0	404	0	SIRT1	10	69644881	In_Frame_Del	DEL	GGC	TCGA-KL-8326-01A-11D-2310-10	52703780	69644881	65889866	39	38419										
AIFM2	84883	ucsc.edu	37	chr10	71877654	71877654	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gctccttgtcagccagggccActtgggagtgaatgagagtg	15	9	1	2			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr10:71877654A>C	ENST00000307864.1	-	6	743	c.530T>G	c.(529-531)gTg>gGg	p.V177G	AIFM2_ENST00000373248.1_Missense_Mutation_p.V177G|AIFM2_ENST00000482166.1_5'UTR	NM_001198696.1|NM_032797.5	NP_001185625.1|NP_116186.1	Q9BRQ8	AIFM2_HUMAN	apoptosis-inducing factor, mitochondrion-associated, 2	177					apoptotic mitochondrial changes (GO:0008637)|positive regulation of apoptotic process (GO:0043065)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|lipid particle (GO:0005811)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)	DNA binding (GO:0003677)|electron-transferring-flavoprotein dehydrogenase activity (GO:0004174)|flavin adenine dinucleotide binding (GO:0050660)|NADH dehydrogenase (ubiquinone) activity (GO:0008137)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(3)|prostate(1)|skin(2)|urinary_tract(2)	16						AGCCAGGGCCACTTGGGAGTG	0.592																																																0													74	69	71					10																	71877654		2203	4300	6503	SO:0001583	missense	84883			AK027403	CCDS7297.1	10q22.2	2006-11-16	2006-11-16	2006-11-16	ENSG00000042286	ENSG00000042286			21411	protein-coding gene	gene with protein product		605159	"apoptosis-inducing factor (AIF)-like mitochondrion-associated inducer of death"	AMID		12135761, 11980907, 15958387	Standard	NM_001198696		Approved	FLJ14497, PRG3	uc001jqp.2	Q9BRQ8	OTTHUMG00000018398	ENST00000307864.1:c.530T>G	10.37:g.71877654A>C	ENSP00000312370:p.Val177Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXI0|Q63Z39	Missense_Mutation	SNP	ENST00000307864.1	37	CCDS7297.1	.	.	.	.	.	.	.	.	.	.	A	8.823	0.937925	0.18206	.	.	ENSG00000042286	ENST00000373248;ENST00000307864;ENST00000395039	T;T	0.56444	0.46;0.46	5.58	4.44	0.53790	Pyridine nucleotide-disulphide oxidoreductase, NAD-binding domain (1);Pyridine nucleotide-disulphide oxidoreductase, FAD/NAD(P)-binding domain (1);	0.538267	0.21743	N	0.069795	T	0.28863	0.0716	N	0.03324	-0.35	0.21627	N	0.999619	B	0.27166	0.17	B	0.32289	0.143	T	0.18493	-1.0335	10	0.23302	T	0.38	-12.9655	10.0053	0.41953	0.8647:0.0:0.1353:0.0	.	177	Q9BRQ8	AIFM2_HUMAN	G	177;177;137	ENSP00000362345:V177G;ENSP00000312370:V177G	ENSP00000312370:V177G	V	-	2	0	AIFM2	71547660	0.000000	0.05858	0.026000	0.17262	0.898000	0.52572	1.364000	0.34171	2.133000	0.65898	0.402000	0.26972	GTG		0.592	AIFM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048487.1	NM_032797		C	71877654	A	C	71877654	3	2	625	1	0	0	0	0	1	0	0	0	427	159	6	5	607	5	AIFM2	10	71877654	Missense_Mutation	SNP	A	TCGA-KL-8326-01A-11D-2310-10	2232773	71877654	63657093	40	38420										
CYP26C1	340665	ucsc.edu	37	chr10	94825774	94825774	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ggccagtgccagcacctcgcTcgtcctgctgctactgcagc	11	17	0	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr10:94825774T>C	ENST00000285949.5	+	5	923	c.923T>C	c.(922-924)cTc>cCc	p.L308P		NM_183374.2	NP_899230.2	Q6V0L0	CP26C_HUMAN	cytochrome P450, family 26, subfamily C, polypeptide 1	308					anterior/posterior pattern specification (GO:0009952)|central nervous system development (GO:0007417)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|neural crest cell development (GO:0014032)|organelle fusion (GO:0048284)|oxidation-reduction process (GO:0055114)|retinoic acid catabolic process (GO:0034653)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	heme binding (GO:0020037)|iron ion binding (GO:0005506)|retinoic acid 4-hydroxylase activity (GO:0008401)|retinoic acid binding (GO:0001972)			central_nervous_system(1)|lung(3)|ovary(1)	5		Colorectal(252;0.122)				AGCACCTCGCTCGTCCTGCTG	0.716																																																0													9	9	9					10																	94825774		2166	4233	6399	SO:0001583	missense	340665				CCDS7425.1	10q23.33	2003-11-20			ENSG00000187553	ENSG00000187553		"Cytochrome P450s"	20577	protein-coding gene	gene with protein product		608428					Standard	XR_246086		Approved		uc010qns.2	Q6V0L0	OTTHUMG00000018766	ENST00000285949.5:c.923T>C	10.37:g.94825774T>C	ENSP00000285949:p.Leu308Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VXH6	Missense_Mutation	SNP	ENST00000285949.5	37	CCDS7425.1	.	.	.	.	.	.	.	.	.	.	T	25.2	4.612459	0.87258	.	.	ENSG00000187553	ENST00000285949	T	0.69561	-0.41	5.27	5.27	0.74061	.	0.139535	0.49305	D	0.000149	D	0.82342	0.5016	M	0.80847	2.515	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.85090	0.0951	10	0.72032	D	0.01	-31.2296	15.2251	0.73345	0.0:0.0:0.0:1.0	.	308	Q6V0L0	CP26C_HUMAN	P	308	ENSP00000285949:L308P	ENSP00000285949:L308P	L	+	2	0	CYP26C1	94815764	1.000000	0.71417	0.965000	0.40720	0.836000	0.47400	7.973000	0.88032	1.997000	0.58415	0.397000	0.26171	CTC		0.716	CYP26C1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049409.2	NM_183374		C	94825774	T	C	94825774	3	2	625	1	0	0	0	0	1	0	0	0	4159	1551	54	3	941	3	CYP26C1	10	94825774	Missense_Mutation	SNP	T	TCGA-KL-8326-01A-11D-2310-10	22948120	94825774	40708973	41	38421										
BLNK	29760	broad.mit.edu;hgsc.bcm.edu	37	chr10	98006782	98006782	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	caccttcattgtttttaataTcatggaccatcttttgaagc	5	9	3	1			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr10:98006782T>C	ENST00000224337.5	-	2	212	c.71A>G	c.(70-72)gAt>gGt	p.D24G	BLNK_ENST00000495266.1_Missense_Mutation_p.D24G|BLNK_ENST00000371176.2_Missense_Mutation_p.D24G|BLNK_ENST00000427367.2_Missense_Mutation_p.D24G|BLNK_ENST00000413476.2_Missense_Mutation_p.D24G	NM_013314.3	NP_037446.1	Q8WV28	BLNK_HUMAN	B-cell linker	24					B cell differentiation (GO:0030183)|humoral immune response (GO:0006959)|inflammatory response (GO:0006954)|intracellular signal transduction (GO:0035556)|positive regulation of signal transduction (GO:0009967)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cytosol (GO:0005829)|intracellular (GO:0005622)|plasma membrane (GO:0005886)	SH3/SH2 adaptor activity (GO:0005070)|transmembrane receptor protein tyrosine kinase adaptor activity (GO:0005068)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(4)|pancreas(1)|skin(2)|stomach(1)	14		Colorectal(252;0.083)		Epithelial(162;7.89e-08)|all cancers(201;2.27e-06)		GTTTTTAATATCATGGACCAT	0.269																																																0													63	75	71					10																	98006782		2203	4296	6499	SO:0001583	missense	29760			AF068180	CCDS7446.1, CCDS44464.1, CCDS58091.1, CCDS73171.1	10q23.2-q23.33	2014-09-17			ENSG00000095585	ENSG00000095585		"SH2 domain containing"	14211	protein-coding gene	gene with protein product	"B-cell adapter containing a SH2 domain protein", "B-cell activation", "Src homology [SH2] domain-containing leukocyte protein of 65 kD", "B cell adaptor containing SH2 domain"	604515				9697839, 10583958	Standard	NM_013314		Approved	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca	uc001kls.4	Q8WV28	OTTHUMG00000018827	ENST00000224337.5:c.71A>G	10.37:g.98006782T>C	ENSP00000224337:p.Asp24Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O75498|O75499|Q2MD49	Missense_Mutation	SNP	ENST00000224337.5	37	CCDS7446.1	.	.	.	.	.	.	.	.	.	.	T	14.33	2.503963	0.44558	.	.	ENSG00000095585	ENST00000224337;ENST00000371176;ENST00000427367;ENST00000413476;ENST00000537049;ENST00000393894;ENST00000393889;ENST00000428924;ENST00000393898	.	.	.	5.85	4.52	0.55395	.	0.089414	0.85682	D	0.000000	T	0.60599	0.2281	M	0.78801	2.425	0.45662	D	0.998581	B;B;B;B;B	0.27997	0.004;0.197;0.096;0.004;0.153	B;B;B;B;B	0.27796	0.011;0.083;0.038;0.011;0.052	T	0.65450	-0.6165	9	0.72032	D	0.01	-28.8439	8.3876	0.32510	0.0:0.0998:0.0:0.9002	.	24;24;24;24;24	Q2MD54;Q2MD49;Q8WV28-2;Q2MD59;Q8WV28	.;.;.;.;BLNK_HUMAN	G	24;24;24;24;24;24;24;24;37	.	ENSP00000224337:D24G	D	-	2	0	BLNK	97996772	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	2.966000	0.49208	2.235000	0.73313	0.482000	0.46254	GAT		0.269	BLNK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049593.1	NM_013314		C	98006782	T	C	98006782	3	2	625	1	0	0	0	0	1	0	0	0	1447	1435	50	3	1363	3	BLNK	10	98006782	Missense_Mutation	SNP	T	TCGA-KL-8326-01A-11D-2310-10	3181008	98006782	37527965	42	38422										
C11orf20	25858	broad.mit.edu	37	chr11	64068336	64068336	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ggggctcgttggacgaggggTacaaggccagccacaagccg	17	11	0	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr11:64068336T>G	ENST00000328404.6	+	2	249	c.229T>G	c.(229-231)Tac>Gac	p.Y77D	RP11-783K16.10_ENST00000539086.1_RNA|TEX40_ENST00000539943.1_Missense_Mutation_p.Y35D	NM_001039496.1	NP_001034585.1	Q9NTU4	TEX40_HUMAN	testis expressed 40	77					cell differentiation (GO:0030154)|male meiosis (GO:0007140)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)											GGACGAGGGGTACAAGGCCAG	0.667											OREG0021050	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													7	10	9					11																	64068336		2013	4129	6142	SO:0001583	missense	25858					11q13.1	2013-01-11	2013-01-11	2013-01-11	ENSG00000219435	ENSG00000219435			19231	protein-coding gene	gene with protein product			"chromosome 11 open reading frame 20"	C11orf20			Standard	NM_001039496		Approved	DKFZP566E164	uc009ypm.3	Q9NTU4	OTTHUMG00000167820	ENST00000328404.6:c.229T>G	11.37:g.64068336T>G	ENSP00000330877:p.Tyr77Asp	Somatic	1073	WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000328404.6	37		.	.	.	.	.	.	.	.	.	.	T	9.160	1.018388	0.19355	.	.	ENSG00000219435	ENST00000328404;ENST00000539943	T;T	0.40756	1.02;1.08	4.02	-1.11	0.09840	.	.	.	.	.	T	0.14056	0.0340	N	0.01874	-0.695	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.19192	-1.0313	9	0.31617	T	0.26	.	3.455	0.07512	0.2683:0.0:0.2858:0.4459	.	77	Q9NTU4	CK020_HUMAN	D	77;35	ENSP00000330877:Y77D;ENSP00000443917:Y35D	ENSP00000330877:Y77D	Y	+	1	0	C11orf20	63824912	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.006000	0.12833	-0.195000	0.10382	-0.249000	0.11873	TAC		0.667	TEX40-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_001039496		G	64068336	T	G	64068336	3	3	625	1	0	0	0	0	1	0	0	0	1636	1638	57	5	235	5	C11orf20	11	64068336	Missense_Mutation	SNP	T	TCGA-KL-8326-01A-11D-2310-10		64068336	70938180	43	38423										
MTL5	9633	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	68514791	68514791	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tctgcaaagttgcttcttccGgattattacttgtagtagta	8	7	2	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr11:68514791G>A	ENST00000255087.5	-	3	698	c.515C>T	c.(514-516)cCg>cTg	p.P172L	MTL5_ENST00000540869.1_5'UTR|MTL5_ENST00000544963.1_Missense_Mutation_p.P172L|MTL5_ENST00000443940.2_Missense_Mutation_p.P172L	NM_004923.3	NP_004914.2	Q9Y4I5	MTL5_HUMAN	metallothionein-like 5, testis-specific (tesmin)	172					cell differentiation (GO:0030154)|cellular metal ion homeostasis (GO:0006875)|multicellular organismal development (GO:0007275)|response to metal ion (GO:0010038)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)	p.P172Q(1)		breast(2)|cervix(1)|kidney(1)|large_intestine(2)|lung(7)|ovary(2)	15	Esophageal squamous(3;4.37e-12)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.185)			TGCTTCTTCCGGATTATTACT	0.423																																																1	Substitution - Missense(1)	lung(1)											134	128	130					11																	68514791		2200	4294	6494	SO:0001583	missense	9633			U86074	CCDS8184.1, CCDS44661.1	11q13.2-q13.3	2007-01-03			ENSG00000132749	ENSG00000132749			7446	protein-coding gene	gene with protein product	"CXC domain containing 2"	604374				1091092	Standard	XR_428932		Approved	CXCDC2	uc001ooc.3	Q9Y4I5	OTTHUMG00000167891	ENST00000255087.5:c.515C>T	11.37:g.68514791G>A	ENSP00000255087:p.Pro172Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8J3|Q4G182|Q6P2E2|Q8NCC8	Missense_Mutation	SNP	ENST00000255087.5	37	CCDS8184.1	.	.	.	.	.	.	.	.	.	.	G	1.720	-0.496866	0.04291	.	.	ENSG00000132749	ENST00000255087;ENST00000443940;ENST00000544963	T;T;T	0.42131	1.59;0.98;1.57	5.1	-2.27	0.06846	.	1.095660	0.06919	N	0.809035	T	0.20700	0.0498	N	0.12746	0.255	0.09310	N	1	B;B;B	0.06786	0.0;0.0;0.001	B;B;B	0.04013	0.001;0.001;0.0	T	0.19943	-1.0290	10	0.26408	T	0.33	-1.9232	4.6009	0.12352	0.3337:0.0:0.385:0.2813	.	172;155;172	Q9Y4I5-3;Q6PHY4;Q9Y4I5	.;.;MTL5_HUMAN	L	172	ENSP00000255087:P172L;ENSP00000403086:P172L;ENSP00000440968:P172L	ENSP00000255087:P172L	P	-	2	0	MTL5	68271367	0.000000	0.05858	0.000000	0.03702	0.009000	0.06853	-0.165000	0.09968	-0.189000	0.10482	-0.215000	0.12644	CCG		0.423	MTL5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396844.1	NM_004923		A	68514791	G	A	68514791	3	1	625	1	0	0	0	0	1	0	0	0	9943	1116	39	1	1047	1	MTL5	11	68514791	Missense_Mutation	SNP	G	TCGA-KL-8326-01A-11D-2310-10	4446455	68514791	66491725	44	38424										
DYNC2H1	79659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	103153739	103153739	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	taattgcttttattaaaggaCtctcaacaaaaaatacgtga	5	6	1	1			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr11:103153739C>A	ENST00000375735.2	+	73	10959	c.10815C>A	c.(10813-10815)gaC>gaA	p.D3605E	DYNC2H1_ENST00000334267.7_Intron|DYNC2H1_ENST00000398093.3_Missense_Mutation_p.D3612E	NM_001080463.1|NM_001377.2	NP_001073932.1|NP_001368.2	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	3605					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|asymmetric protein localization (GO:0008105)|cilium assembly (GO:0042384)|determination of left/right symmetry (GO:0007368)|dorsal/ventral pattern formation (GO:0009953)|embryonic limb morphogenesis (GO:0030326)|forebrain development (GO:0030900)|Golgi organization (GO:0007030)|intraciliary retrograde transport (GO:0035721)|positive regulation of smoothened signaling pathway (GO:0045880)|protein processing (GO:0016485)|spinal cord motor neuron differentiation (GO:0021522)	apical part of cell (GO:0045177)|axoneme (GO:0005930)|cytosol (GO:0005829)|dynein complex (GO:0030286)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|motile primary cilium (GO:0031512)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)|motor activity (GO:0003774)			NS(1)|endometrium(4)|kidney(5)|large_intestine(9)|lung(9)|ovary(1)|prostate(2)|upper_aerodigestive_tract(2)	33		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TATTAAAGGACTCTCAACAAA	0.313																																																0													59	58	59					11																	103153739		1809	4063	5872	SO:0001583	missense	79659			AB082528	CCDS44717.1, CCDS53701.1	11q21-q22.1	2011-06-02	2005-11-24	2005-11-24	ENSG00000187240	ENSG00000187240		"Cytoplasmic dyneins"	2962	protein-coding gene	gene with protein product		603297	"dynein, cytoplasmic, heavy polypeptide 2"	DNCH2		9763680, 9373155	Standard	NM_001080463		Approved	hdhc11, DHC2, DHC1b, DYH1B	uc001phn.1	Q8NCM8	OTTHUMG00000165941	ENST00000375735.2:c.10815C>A	11.37:g.103153739C>A	ENSP00000364887:p.Asp3605Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O00432|Q16693|Q3C1U8|Q4AC93|Q6ZMX7|Q6ZUM6|Q7Z363|Q8N977|Q92815|Q9HAE4	Missense_Mutation	SNP	ENST00000375735.2	37	CCDS53701.1	.	.	.	.	.	.	.	.	.	.	C	7.276	0.608177	0.14002	.	.	ENSG00000187240	ENST00000375735;ENST00000398093	T;T	0.27890	1.64;1.64	5.05	-0.757	0.11054	.	0.224065	0.40818	N	0.001016	T	0.15609	0.0376	L	0.29908	0.895	0.58432	D	0.999999	B;B	0.19445	0.021;0.036	B;B	0.23852	0.022;0.049	T	0.30001	-0.9993	10	0.02654	T	1	.	8.4751	0.33007	0.0:0.3211:0.0:0.6789	.	3605;3612	Q8NCM8;Q8NCM8-2	DYHC2_HUMAN;.	E	3605;3612	ENSP00000364887:D3605E;ENSP00000381167:D3612E	ENSP00000364887:D3605E	D	+	3	2	DYNC2H1	102658949	0.970000	0.33590	0.998000	0.56505	0.978000	0.69477	-0.088000	0.11198	0.014000	0.14944	0.460000	0.39030	GAC		0.313	DYNC2H1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387196.1	XM_370652		A	103153739	C	A	103153739	3	1	625	1	0	0	0	0	1	0	0	0	4848	564	20	4	11130	4	DYNC2H1	11	103153739	Missense_Mutation	SNP	C	TCGA-KL-8326-01A-11D-2310-10	34638948	103153739	31852777	45	38425										
ZBTB16	7704	hgsc.bcm.edu;mdanderson.org	37	chr11	113934295	113934295	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gagtatgcatatacagccacGctgcaagccaaggcggagga	13	10	0	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr11:113934295G>T	ENST00000335953.4	+	2	653	c.273G>T	c.(271-273)acG>acT	p.T91T	ZBTB16_ENST00000392996.2_Silent_p.T91T	NM_006006.4	NP_005997.2	Q05516	ZBT16_HUMAN	zinc finger and BTB domain containing 16	91	BTB. {ECO:0000255|PROSITE- ProRule:PRU00037}.				anterior/posterior pattern specification (GO:0009952)|apoptotic process (GO:0006915)|cartilage development (GO:0051216)|central nervous system development (GO:0007417)|embryonic digit morphogenesis (GO:0042733)|embryonic hindlimb morphogenesis (GO:0035116)|embryonic pattern specification (GO:0009880)|forelimb morphogenesis (GO:0035136)|hemopoiesis (GO:0030097)|male germ-line stem cell asymmetric division (GO:0048133)|mesonephros development (GO:0001823)|myeloid cell differentiation (GO:0030099)|negative regulation of cell proliferation (GO:0008285)|negative regulation of myeloid cell differentiation (GO:0045638)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cartilage development (GO:0061036)|positive regulation of chondrocyte differentiation (GO:0032332)|positive regulation of fat cell differentiation (GO:0045600)|positive regulation of NK T cell differentiation (GO:0051138)|positive regulation of ossification (GO:0045778)|positive regulation of transcription, DNA-templated (GO:0045893)|protein localization to nucleus (GO:0034504)|protein ubiquitination (GO:0016567)|transcription, DNA-templated (GO:0006351)	cytosol (GO:0005829)|nuclear body (GO:0016604)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|PML body (GO:0016605)|transcriptional repressor complex (GO:0017053)	DNA binding (GO:0003677)|double-stranded DNA binding (GO:0003690)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|large_intestine(2)|skin(1)|upper_aerodigestive_tract(2)	6		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		ATACAGCCACGCTGCAAGCCA	0.527																																																0													72	62	66					11																	113934295		2201	4296	6497	SO:0001819	synonymous_variant	7704			Z19002	CCDS8367.1	11q23	2013-10-17	2004-07-16	2004-07-16	ENSG00000109906	ENSG00000109906		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	12930	protein-coding gene	gene with protein product	"promyelocytic leukaemia zinc finger"	176797	"zinc finger protein 145 (Kruppel-like, expressed in promyelocytic leukemia)"	ZNF145			Standard	XM_006718899		Approved	PLZF	uc001poq.3	Q05516	OTTHUMG00000168243	ENST00000335953.4:c.273G>T	11.37:g.113934295G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TAL4	Silent	SNP	ENST00000335953.4	37	CCDS8367.1																																																																																				0.527	ZBTB16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398940.1	NM_006006		T	113934295	G	T	113934295	2	4	625	1	0	0	0	0	0	0	0	1	17538	1074	38	4		4	ZBTB16	11	113934295	Silent	SNP	G	TCGA-KL-8326-01A-11D-2310-10	10780556	113934295	21072221	46	38426										
OR6T1	219874	broad.mit.edu	37	chr11	123814285	123814285	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	aatgagatggtgtgatccccCgtgaggatgacgacaagcat	13	8	0	4			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr11:123814285C>T	ENST00000321252.2	-	1	295	c.261G>A	c.(259-261)acG>acA	p.T87T		NM_001005187.1	NP_001005187.1	Q8NGN1	OR6T1_HUMAN	olfactory receptor, family 6, subfamily T, member 1	87						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.T87T(1)		breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(18)|ovary(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	40		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)		TGTGATCCCCCGTGAGGATGA	0.507																																																1	Substitution - coding silent(1)	lung(1)											122	99	107					11																	123814285		2202	4299	6501	SO:0001819	synonymous_variant	219874			AB065759	CCDS31700.1	11q24.1	2012-08-09			ENSG00000181499	ENSG00000181499		"GPCR / Class A : Olfactory receptors"	14848	protein-coding gene	gene with protein product							Standard	NM_001005187		Approved		uc010sab.2	Q8NGN1	OTTHUMG00000165962	ENST00000321252.2:c.261G>A	11.37:g.123814285C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFE7	Silent	SNP	ENST00000321252.2	37	CCDS31700.1																																																																																				0.507	OR6T1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387264.1	NM_001005187		T	123814285	C	T	123814285	2	4	625	1	0	0	0	0	0	0	0	1	11217	639	23	1		1	OR6T1	11	123814285	Silent	SNP	C	TCGA-KL-8326-01A-11D-2310-10	9879990	123814285	11192231	47	38427										
OR10G8	219869	mdanderson.org	37	chr11	123900382	123900382	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cctcatgggccttccccatgCcccagcgctggacgcccccc	9	22	1	0	rs73028928	byFrequency	TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr11:123900382C>T	ENST00000431524.1	+	1	86	c.53C>T	c.(52-54)gCc>gTc	p.A18V		NM_001004464.1	NP_001004464.1	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G, member 8	18						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(7)|large_intestine(2)|lung(21)|ovary(1)|prostate(5)|skin(1)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	44		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)		CTTCCCCATGCCCCAGCGCTG	0.572																																																0													180	171	174					11																	123900382		2201	4299	6500	SO:0001583	missense	219869			AB065755	CCDS31704.1	11q24.1	2012-08-09			ENSG00000234560	ENSG00000234560		"GPCR / Class A : Olfactory receptors"	14845	protein-coding gene	gene with protein product							Standard	NM_001004464		Approved		uc001pzp.1	Q8NGN5	OTTHUMG00000165968	ENST00000431524.1:c.53C>T	11.37:g.123900382C>T	ENSP00000389072:p.Ala18Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNJ3|Q6IEV2	Missense_Mutation	SNP	ENST00000431524.1	37	CCDS31704.1	.	.	.	.	.	.	.	.	.	.	C	10.35	1.326961	0.24080	.	.	ENSG00000234560	ENST00000431524	T	0.01099	5.34	2.95	2.95	0.34219	.	0.922077	0.09000	N	0.863091	T	0.00784	0.0026	N	0.04994	-0.135	0.09310	N	1	B	0.06786	0.001	B	0.10450	0.005	T	0.46555	-0.9183	10	0.39692	T	0.17	.	4.9369	0.13944	0.0:0.7325:0.0:0.2675	.	18	Q8NGN5	O10G8_HUMAN	V	18	ENSP00000389072:A18V	ENSP00000389072:A18V	A	+	2	0	OR10G8	123405592	0.000000	0.05858	0.047000	0.18901	0.004000	0.04260	-1.793000	0.01755	1.634000	0.50500	0.585000	0.79938	GCC		0.572	OR10G8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387270.1	NM_001004464		T	123900382	C	T	123900382	3	4	625	1	0	0	0	0	1	0	0	0	10910	739	26	2	55	2	OR10G8	11	123900382	Missense_Mutation	SNP	C	TCGA-KL-8326-01A-11D-2310-10	86097	123900382	11106134	48	38428										
LETMD1	25875	broad.mit.edu;bcgsc.ca	37	chr12	51449713	51449713	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0	0	1	0	0	0	1	1	0	tcatgctttccggaagcagtCccacccagaaattattagtt	7	11	1	1			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr12:51449713C>G	ENST00000262055.4	+	5	608	c.569C>G	c.(568-570)tCc>tGc	p.S190C	LETMD1_ENST00000547008.1_Intron|LETMD1_ENST00000418425.2_Missense_Mutation_p.S203C|LETMD1_ENST00000552739.1_Missense_Mutation_p.S73C|LETMD1_ENST00000550929.1_Missense_Mutation_p.S134C|LETMD1_ENST00000548516.1_Intron|LETMD1_ENST00000380123.2_3'UTR	NM_015416.4	NP_056231.3	Q6P1Q0	LTMD1_HUMAN	LETM1 domain containing 1	190	LETM1.					integral component of membrane (GO:0016021)|mitochondrial outer membrane (GO:0005741)				central_nervous_system(2)|endometrium(1)|kidney(3)|large_intestine(2)|lung(4)|skin(1)|urinary_tract(3)	16						CGGAAGCAGTCCCACCCAGAA	0.448																																																0													94	95	95					12																	51449713		2203	4300	6503	SO:0001583	missense	25875			AF195651	CCDS8806.1, CCDS58231.1, CCDS73469.1	12q13.13	2006-04-12				ENSG00000050426			24241	protein-coding gene	gene with protein product	"cervical cancer 1 protooncogene"					12879013, 12061725	Standard	NM_015416		Approved	HCCR1	uc009zlw.3	Q6P1Q0	OTTHUMG00000169538	ENST00000262055.4:c.569C>G	12.37:g.51449713C>G	ENSP00000262055:p.Ser190Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NER7|B3KXK7|Q6X2E4|Q6X2E5|Q7L2G9|Q7L690|Q8WXW6|Q96PK7|Q9BY59|Q9Y3X3	Missense_Mutation	SNP	ENST00000262055.4	37	CCDS8806.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	16.21|16.21	3.059884|3.059884	0.55325|0.55325	.|.	.|.	ENSG00000050426|ENSG00000050426	ENST00000551931|ENST00000551477;ENST00000550755;ENST00000550929;ENST00000262055;ENST00000549340;ENST00000418425;ENST00000448283;ENST00000552739	.|T;T;T;T;T;T	.|0.43294	.|0.95;0.95;0.95;0.95;0.95;0.95	5.08|5.08	5.08|5.08	0.68730|0.68730	.|LETM1-like (1);	.|0.296675	.|0.37437	.|N	.|0.002081	T|T	0.51398|0.51398	0.1672|0.1672	L|L	0.44542|0.44542	1.39|1.39	0.80722|0.80722	D|D	1|1	.|D;P;D;P	.|0.58268	.|0.982;0.936;0.975;0.794	.|P;P;P;P	.|0.56343	.|0.789;0.552;0.796;0.552	T|T	0.37549|0.37549	-0.9701|-0.9701	5|10	.|0.35671	.|T	.|0.21	-6.2246|-6.2246	17.7887|17.7887	0.88546|0.88546	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|140;203;73;190	.|F8VVQ3;B3KXK7;F8VP71;Q6P1Q0	.|.;.;.;LTMD1_HUMAN	A|C	8|157;96;134;190;140;203;140;73	.|ENSP00000446862:S157C;ENSP00000450163:S134C;ENSP00000262055:S190C;ENSP00000449896:S140C;ENSP00000389903:S203C;ENSP00000450333:S73C	.|ENSP00000262055:S190C	P|S	+|+	1|2	0|0	LETMD1|LETMD1	49735980|49735980	0.994000|0.994000	0.37717|0.37717	1.000000|1.000000	0.80357|0.80357	0.907000|0.907000	0.53573|0.53573	2.032000|2.032000	0.41127|0.41127	2.826000|2.826000	0.97356|0.97356	0.655000|0.655000	0.94253|0.94253	CCC|TCC		0.448	LETMD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404710.1	NM_015416		G	51449713	C	G	51449713	3	3	625	1	0	0	0	0	1	0	0	0	8743	855	30	4	587	4	LETMD1	12	51449713	Missense_Mutation	SNP	C	TCGA-KL-8326-01A-11D-2310-10		51449713	82402182	49	38429										
NR4A1	3164	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr12	52448851	52448851	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	ttgagggctcggggatactgGatacacccgtgacctcaacc	12	12	1	2			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr12:52448851G>A	ENST00000243050.1	+	3	1053	c.739G>A	c.(739-741)Gat>Aat	p.D247N	NR4A1_ENST00000394824.2_Missense_Mutation_p.D247N|NR4A1_ENST00000548232.1_Missense_Mutation_p.D247N|NR4A1_ENST00000394825.1_Missense_Mutation_p.D247N|NR4A1_ENST00000550082.1_Missense_Mutation_p.D260N|NR4A1_ENST00000360284.3_Missense_Mutation_p.D260N|NR4A1_ENST00000545748.1_Missense_Mutation_p.D301N	NM_002135.4	NP_002126.2	P22736	NR4A1_HUMAN	nuclear receptor subfamily 4, group A, member 1	247					cell migration involved in sprouting angiogenesis (GO:0002042)|cellular response to fibroblast growth factor stimulus (GO:0044344)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|endothelial cell chemotaxis (GO:0035767)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|innate immune response (GO:0045087)|intracellular receptor signaling pathway (GO:0030522)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of apoptotic process (GO:0043065)|positive regulation of endothelial cell proliferation (GO:0001938)|signal transduction (GO:0007165)|skeletal muscle cell differentiation (GO:0035914)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding (GO:0043565)|steroid hormone receptor activity (GO:0003707)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(2)|large_intestine(2)|lung(8)|upper_aerodigestive_tract(2)	16				BRCA - Breast invasive adenocarcinoma(357;0.0967)		GGGGATACTGGATACACCCGT	0.627																																																0													74	82	79					12																	52448851		2203	4300	6503	SO:0001583	missense	3164			L13740	CCDS8818.1, CCDS55828.1, CCDS73471.1	12q13	2013-01-16			ENSG00000123358	ENSG00000123358		"Nuclear hormone receptors"	7980	protein-coding gene	gene with protein product		139139		HMR, GFRP1		2626032	Standard	NM_002135		Approved	TR3, N10, NAK-1, NGFIB, NUR77	uc001rzt.3	P22736	OTTHUMG00000150393	ENST00000243050.1:c.739G>A	12.37:g.52448851G>A	ENSP00000243050:p.Asp247Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B4DML7|Q15627|Q53Y00|Q6IBU8	Missense_Mutation	SNP	ENST00000243050.1	37	CCDS8818.1	.	.	.	.	.	.	.	.	.	.	G	16.33	3.092444	0.55968	.	.	ENSG00000123358	ENST00000360284;ENST00000545748;ENST00000550082;ENST00000243050;ENST00000394825;ENST00000394824;ENST00000548232	D;D;D;D;D;D;D	0.92858	-3.09;-3.11;-3.09;-3.09;-3.09;-3.09;-3.12	4.93	4.04	0.47022	.	1.015660	0.07897	N	0.972056	D	0.83797	0.5332	N	0.08118	0	0.54753	D	0.999983	B;B;B	0.26876	0.115;0.093;0.162	B;B;B	0.23419	0.035;0.046;0.034	T	0.70684	-0.4804	10	0.24483	T	0.36	.	12.6278	0.56640	0.0818:0.0:0.9182:0.0	.	260;247;247	B4DML7;P22736;Q15627	.;NR4A1_HUMAN;.	N	260;301;260;247;247;247;247	ENSP00000353427:D260N;ENSP00000440864:D301N;ENSP00000449539:D260N;ENSP00000243050:D247N;ENSP00000378302:D247N;ENSP00000378301:D247N;ENSP00000449587:D247N	ENSP00000243050:D247N	D	+	1	0	NR4A1	50735118	1.000000	0.71417	0.964000	0.40570	0.521000	0.34408	3.150000	0.50662	1.451000	0.47736	0.561000	0.74099	GAT		0.627	NR4A1-201	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000317922.2			A	52448851	G	A	52448851	3	1	625	1	0	0	0	0	1	0	0	0	10639	1174	41	2	741	2	NR4A1	12	52448851	Missense_Mutation	SNP	G	TCGA-KL-8326-01A-11D-2310-10	999138	52448851	81403044	50	38430										
NBEA	26960	broad.mit.edu	37	chr13	36167554	36167554	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tccgttgcaaggtcttggagAactagtcagagagatacttc	11	8	2	3			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr13:36167554A>G	ENST00000400445.3	+	47	7800	c.7266A>G	c.(7264-7266)agA>agG	p.R2422R	NBEA_ENST00000537702.1_Silent_p.R215R|NBEA_ENST00000379922.3_5'UTR|NBEA_ENST00000310336.4_Silent_p.R2422R|NBEA_ENST00000379939.2_Silent_p.R2419R|NBEA_ENST00000540320.1_Silent_p.R2422R	NM_015678.4	NP_056493.3	Q8NFP9	NBEA_HUMAN	neurobeachin	2422	BEACH. {ECO:0000255|PROSITE- ProRule:PRU00026, ECO:0000305}.				protein localization (GO:0008104)	cytosol (GO:0005829)|endomembrane system (GO:0012505)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)				NS(1)|breast(1)|endometrium(14)|kidney(4)|large_intestine(29)|lung(40)|ovary(9)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	108		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)		GGTCTTGGAGAACTAGTCAGA	0.343																																																0													130	117	121					13																	36167554		1834	4082	5916	SO:0001819	synonymous_variant	26960			AF467288	CCDS45026.1, CCDS55894.1	13q13	2014-09-17			ENSG00000172915	ENSG00000172915		"A-kinase anchor proteins", "WD repeat domain containing"	7648	protein-coding gene	gene with protein product		604889				10501977	Standard	NM_015678		Approved	KIAA1544, BCL8B, FLJ10197	uc021ric.1	Q8NFP9	OTTHUMG00000016724	ENST00000400445.3:c.7266A>G	13.37:g.36167554A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2H9|Q5T320|Q9HCM8|Q9NSU1|Q9NW98|Q9Y6J1	Silent	SNP	ENST00000400445.3	37	CCDS45026.1																																																																																				0.343	NBEA-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_015678		G	36167554	A	G	36167554	2	3	625	1	0	0	0	0	0	0	0	1	10194	243	9	3		3	NBEA	13	36167554	Silent	SNP	A	TCGA-KL-8326-01A-11D-2310-10		36167554	79002324	51	38431										
FAM70B	348013	bcgsc.ca	37	chr13	114514867	114514867	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ggggagaagccacccccctaCgcaccctgatagaggcgtgg	14	14	0	3	rs9604467	byFrequency	TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr13:114514867C>A	ENST00000375353.3	+	9	999	c.972C>A	c.(970-972)taC>taA	p.Y324*	TMEM255B_ENST00000467169.1_3'UTR	NM_182614.2	NP_872420.1	Q8WV15	T255B_HUMAN	transmembrane protein 255B	324	Pro-rich.					integral component of membrane (GO:0016021)											CACCCCCCTACGCACCCTGAT	0.552																																																0													56	75	69					13																	114514867		2187	4287	6474	SO:0001587	stop_gained	348013			BC018995	CCDS45071.1	13q34	2012-11-30	2012-11-30	2012-11-30	ENSG00000184497	ENSG00000184497			28297	protein-coding gene	gene with protein product			"family with sequence similarity 70, member B"	FAM70B		12477932	Standard	NM_182614		Approved	MGC20579	uc001vuh.3	Q8WV15	OTTHUMG00000017398	ENST00000375353.3:c.972C>A	13.37:g.114514867C>A	ENSP00000364502:p.Tyr324*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000375353.3	37	CCDS45071.1	.	.	.	.	.	.	.	.	.	.	c	7.542	0.660962	0.14645	.	.	ENSG00000184497	ENST00000375353	.	.	.	4.72	-2.34	0.06704	.	.	.	.	.	.	.	.	.	.	.	0.25112	N	0.99071	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-23.5381	12.3595	0.55194	0.0:0.5423:0.0:0.4577	rs9604467	.	.	.	X	324	.	ENSP00000364502:Y324X	Y	+	3	2	FAM70B	113599076	0.000000	0.05858	0.026000	0.17262	0.031000	0.12232	-0.914000	0.04038	-0.444000	0.07170	-1.279000	0.01387	TAC		0.552	TMEM255B-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045953.4	NM_182614		A	114514867	C	A	114514867	4	1	625	1	0	0	0	0	0	1	0	0	5613	547	19	4	1006	4	FAM70B	13	114514867	Nonsense_Mutation	SNP	C	TCGA-KL-8326-01A-11D-2310-10	78347313	114514867	655011	52	38432										
RALGAPA1	253959	broad.mit.edu	37	chr14	36190999	36190999	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ttggccaggctgatcacgacTccatcctctagaaaatgact	8	12	2	3			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr14:36190999T>C	ENST00000389698.3	-	16	2551	c.2161A>G	c.(2161-2163)Agt>Ggt	p.S721G	RALGAPA1_ENST00000382366.3_Missense_Mutation_p.S721G|RALGAPA1_ENST00000258840.6_Missense_Mutation_p.S721G|RALGAPA1_ENST00000554704.1_5'UTR|RALGAPA1_ENST00000307138.6_Missense_Mutation_p.S721G	NM_014990.1	NP_055805.1	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1 (catalytic)	721					activation of Ral GTPase activity (GO:0032859)|regulation of transcription, DNA-templated (GO:0006355)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	protein heterodimerization activity (GO:0046982)|Ral GTPase activator activity (GO:0017123)			breast(4)|central_nervous_system(2)|cervix(1)|endometrium(7)|kidney(7)|large_intestine(14)|lung(21)|ovary(3)|prostate(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	67						TGATCACGACTCCATCCTCTA	0.433																																																0													102	95	98					14																	36190999		2203	4297	6500	SO:0001583	missense	253959			AK126975	CCDS32064.1, CCDS32065.1, CCDS61439.1	14q13.2	2012-01-26	2009-09-09	2009-09-09	ENSG00000174373	ENSG00000174373			17770	protein-coding gene	gene with protein product	"tuberin-like protein 1", "GAP-related interacting protein to E12"	608884	"GTPase activating RANGAP domain-like 1", "GTPase activating Rap/RanGAP domain-like 1"	GARNL1		19520869	Standard	NM_014990		Approved	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1	uc001wtj.3	Q6GYQ0	OTTHUMG00000170619	ENST00000389698.3:c.2161A>G	14.37:g.36190999T>C	ENSP00000374348:p.Ser721Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMA4|B9EK38|C5NU19|O94960|Q6GYP9|Q6ZT23|Q86YF3|Q86YF5|Q8ND69	Missense_Mutation	SNP	ENST00000389698.3	37	CCDS32065.1	.	.	.	.	.	.	.	.	.	.	T	26.3	4.724374	0.89298	.	.	ENSG00000174373	ENST00000389698;ENST00000307138;ENST00000335518;ENST00000258840;ENST00000382366;ENST00000553892	D;D;D;D;D	0.94828	-3.53;-3.53;-3.52;-3.53;-3.52	5.65	5.65	0.86999	.	0.000000	0.85682	D	0.000000	D	0.96163	0.8749	L	0.54323	1.7	0.80722	D	1	D;D;D;D;D	0.76494	0.996;0.994;0.999;0.976;0.965	D;D;D;P;P	0.83275	0.99;0.977;0.996;0.882;0.549	D	0.95302	0.8404	10	0.33141	T	0.24	-16.8152	16.1864	0.81955	0.0:0.0:0.0:1.0	.	721;721;721;721;721	Q6GYQ0-6;B9EK38;Q6GYQ0-3;Q6GYQ0-2;Q6GYQ0	.;.;.;.;RGPA1_HUMAN	G	721	ENSP00000374348:S721G;ENSP00000302647:S721G;ENSP00000258840:S721G;ENSP00000371803:S721G;ENSP00000451877:S721G	ENSP00000258840:S721G	S	-	1	0	RALGAPA1	35260750	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.803000	0.85983	2.281000	0.76405	0.528000	0.53228	AGT		0.433	RALGAPA1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000409829.1	XM_210022		C	36190999	T	C	36190999	3	2	625	1	0	0	0	0	1	0	0	0	13026	1551	54	3	4202	3	RALGAPA1	14	36190999	Missense_Mutation	SNP	T	TCGA-KL-8326-01A-11D-2310-10		36190999	71158541	53	38433										
YLPM1	56252	broad.mit.edu	37	chr14	75301975	75301975	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	atgttctttttaggtcagatGggcagacctggaagagaaga	13	5	2	4			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr14:75301975G>A	ENST00000552421.1	+	19	4308	c.4184G>A	c.(4183-4185)tGg>tAg	p.W1395*	YLPM1_ENST00000325680.7_Nonsense_Mutation_p.W2101*			P49750	YLPM1_HUMAN	YLP motif containing 1	1906					regulation of telomere maintenance (GO:0032204)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)			breast(4)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(12)|lung(24)|ovary(3)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(1)	62			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		TAGGTCAGATGGGCAGACCTG	0.458																																																0													90	89	89					14																	75301975		1885	4112	5997	SO:0001587	stop_gained	56252			AK090435	CCDS45135.1	14q24.3	2014-06-13	2004-07-15	2004-07-15	ENSG00000119596	ENSG00000119596			17798	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 169"		"chromosome 14 open reading frame 170"	C14orf170		7596406	Standard	NM_019589		Approved	ZAP, PPP1R169	uc001xqj.4	P49750	OTTHUMG00000172503	ENST00000552421.1:c.4184G>A	14.37:g.75301975G>A	ENSP00000447921:p.Trp1395*	Somatic		WXS	Illumina HiSeq	Phase_I	P49752|Q96I64|Q9P1V7	Nonsense_Mutation	SNP	ENST00000552421.1	37		.	.	.	.	.	.	.	.	.	.	G	47	13.313461	0.99734	.	.	ENSG00000119596	ENST00000552421;ENST00000325680	.	.	.	5.26	5.26	0.73747	.	0.000000	0.64402	D	0.000013	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-4.0283	18.8429	0.92192	0.0:0.0:1.0:0.0	.	.	.	.	X	1395;2101	.	ENSP00000324463:W2101X	W	+	2	0	YLPM1	74371728	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.869000	0.99810	2.446000	0.82766	0.563000	0.77884	TGG		0.458	YLPM1-008	NOVEL	not_organism_supported|basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000404450.1	NM_019589		A	75301975	G	A	75301975	4	1	625	1	0	0	0	0	0	1	0	0	17498	1357	47	2	6380	2	YLPM1	14	75301975	Nonsense_Mutation	SNP	G	TCGA-KL-8326-01A-11D-2310-10	39110976	75301975	32047565	54	38434										
JAG2	3714	ucsc.edu	37	chr14	105614515	105614515	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	agcggaaggtgtcgccgctgTcgtagcaggtgccaccgttg	16	11	0	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr14:105614515T>C	ENST00000331782.3	-	17	2589	c.2186A>G	c.(2185-2187)gAc>gGc	p.D729G	JAG2_ENST00000347004.2_Missense_Mutation_p.D691G	NM_002226.4	NP_002217.3	Q9Y219	JAG2_HUMAN	jagged 2	729	EGF-like 13. {ECO:0000255|PROSITE- ProRule:PRU00076}.				auditory receptor cell fate commitment (GO:0009912)|cell cycle (GO:0007049)|cell differentiation (GO:0030154)|epithelial cell apoptotic process involved in palatal shelf morphogenesis (GO:1990134)|gamma-delta T cell differentiation (GO:0042492)|in utero embryonic development (GO:0001701)|morphogenesis of embryonic epithelium (GO:0016331)|Notch receptor processing (GO:0007220)|Notch signaling pathway (GO:0007219)|odontogenesis of dentin-containing tooth (GO:0042475)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of cell proliferation (GO:0042127)|respiratory system process (GO:0003016)|skeletal system development (GO:0001501)|spermatogenesis (GO:0007283)|T cell differentiation (GO:0030217)|thymic T cell selection (GO:0045061)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|growth factor activity (GO:0008083)|Notch binding (GO:0005112)			breast(2)|endometrium(2)|kidney(3)|large_intestine(1)|lung(7)|prostate(2)|skin(5)	22		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		GTCGCCGCTGTCGTAGCAGGT	0.716																																																0													16	11	13					14																	105614515		2102	4139	6241	SO:0001583	missense	3714			AF020201	CCDS9998.1, CCDS9999.1	14q32	2008-08-01			ENSG00000184916	ENSG00000184916			6189	protein-coding gene	gene with protein product		602570				9315665, 10662552	Standard	NM_002226		Approved		uc001yqg.4	Q9Y219	OTTHUMG00000140172	ENST00000331782.3:c.2186A>G	14.37:g.105614515T>C	ENSP00000328169:p.Asp729Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UE17|Q9UE99|Q9UNK8|Q9Y6P9|Q9Y6Q0	Missense_Mutation	SNP	ENST00000331782.3	37	CCDS9998.1	.	.	.	.	.	.	.	.	.	.	t	16.98	3.270379	0.59540	.	.	ENSG00000184916	ENST00000331782;ENST00000347004	D;D	0.95554	-3.74;-3.74	4.67	4.67	0.58626	Epidermal growth factor-like (1);Epidermal growth factor-like, type 3 (1);	0.054503	0.64402	D	0.000001	D	0.97096	0.9051	M	0.75447	2.3	0.58432	D	0.999994	D;D	0.71674	0.998;0.997	D;D	0.69824	0.966;0.925	D	0.97501	1.0060	10	0.72032	D	0.01	.	12.926	0.58260	0.0:0.0:0.0:1.0	.	691;729	Q9Y219-2;Q9Y219	.;JAG2_HUMAN	G	729;691	ENSP00000328169:D729G;ENSP00000328566:D691G	ENSP00000328169:D729G	D	-	2	0	JAG2	104685560	1.000000	0.71417	0.974000	0.42286	0.013000	0.08279	4.099000	0.57755	1.745000	0.51790	0.254000	0.18369	GAC		0.716	JAG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276506.2			C	105614515	T	C	105614515	3	2	625	1	0	0	0	0	1	0	0	0	7942	1667	58	3	1570	3	JAG2	14	105614515	Missense_Mutation	SNP	T	TCGA-KL-8326-01A-11D-2310-10	30312540	105614515	1735025	55	38435										
CEP152	22995	broad.mit.edu	37	chr15	49052452	49052452	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cgctgatgagcattttgcacAgctatttctacctgtaggac	9	10	1	2			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr15:49052452A>T	ENST00000380950.2	-	19	2761	c.2574T>A	c.(2572-2574)gcT>gcA	p.A858A	CEP152_ENST00000399334.3_Silent_p.A858A|CEP152_ENST00000325747.5_Silent_p.A765A	NM_001194998.1|NM_014985.3	NP_001181927.1|NP_055800.2	O94986	CE152_HUMAN	centrosomal protein 152kDa	858					cell projection organization (GO:0030030)|centriole replication (GO:0007099)|centrosome duplication (GO:0051298)|de novo centriole assembly (GO:0098535)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)	centrosome (GO:0005813)|cytosol (GO:0005829)|deuterosome (GO:0098536)|nucleus (GO:0005634)	protein kinase binding (GO:0019901)			breast(3)|cervix(3)|endometrium(3)|kidney(3)|large_intestine(16)|lung(30)|ovary(1)|prostate(2)|skin(2)	63		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		CATTTTGCACAGCTATTTCTA	0.393																																																0													119	111	114					15																	49052452		1859	4106	5965	SO:0001819	synonymous_variant	22995			AB020719	CCDS42033.1, CCDS58361.1	15q21.1	2014-02-20							29298	protein-coding gene	gene with protein product	"asterless"	613529	"microcephaly, primary autosomal recessive 4"	MCPH4		14654843, 21131973	Standard	NM_014985		Approved	KIAA0912, SCKL5	uc001zwz.3	O94986		ENST00000380950.2:c.2574T>A	15.37:g.49052452A>T		Somatic		WXS	Illumina HiSeq	Phase_I	E7ER66|Q17RV1|Q6NTA0	Silent	SNP	ENST00000380950.2	37	CCDS58361.1																																																																																				0.393	CEP152-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000417365.1	NM_014985		T	49052452	A	T	49052452	2	4	625	1	0	0	0	0	0	0	0	1	3250	175	7	5		5	CEP152	15	49052452	Silent	SNP	A	TCGA-KL-8326-01A-11D-2310-10		49052452	53478940	56	38436										
RFX7	64864	ucsc.edu	37	chr15	56388045	56388045	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gtgaaagttaagttctgagaAgcaactgatagagtgatagt	12	3	1	5			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr15:56388045A>T	ENST00000559447.2	-	9	1861	c.1590T>A	c.(1588-1590)gcT>gcA	p.A530A	RFX7_ENST00000422057.1_Silent_p.A530A|RFX7_ENST00000317318.6_Silent_p.A627A|RFX7_ENST00000423270.1_Silent_p.A627A			Q2KHR2	RFX7_HUMAN	regulatory factor X, 7	530					regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	DNA binding (GO:0003677)			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(3)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	19						AGTTCTGAGAAGCAACTGATA	0.428																																																0													83	80	81					15																	56388045		1997	4171	6168	SO:0001819	synonymous_variant	64864					15q21.3	2008-08-04	2008-08-04	2008-08-04		ENSG00000181827			25777	protein-coding gene	gene with protein product		612660	"regulatory factor X domain containing 2"	RFXDC2			Standard	NM_022841		Approved	FLJ12994	uc010bfn.3	Q2KHR2		ENST00000559447.2:c.1590T>A	15.37:g.56388045A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZRR1|Q6ZTY6|Q8N3J0|Q9H7A9|Q9H956	Silent	SNP	ENST00000559447.2	37																																																																																					0.428	RFX7-001	KNOWN	non_canonical_U12|basic	protein_coding	protein_coding	OTTHUMT00000418841.3	NM_022841		T	56388045	A	T	56388045	2	4	625	1	0	0	0	0	0	0	0	1	13281	59	3	5		5	RFX7	15	56388045	Silent	SNP	A	TCGA-KL-8326-01A-11D-2310-10	7335593	56388045	46143347	57	38437										
NOX5	79400	broad.mit.edu	37	chr15	69320701	69320701	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	ctcttccaggtgtatgacatCgatggtaagggctcttcctg	11	10	2	1			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr15:69320701C>T	ENST00000388866.3	+	3	362	c.321C>T	c.(319-321)atC>atT	p.I107I	NOX5_ENST00000455873.3_Silent_p.I100I|NOX5_ENST00000260364.5_Silent_p.I89I|NOX5_ENST00000448182.3_Silent_p.I89I|RP11-809H16.2_ENST00000557966.1_RNA|NOX5_ENST00000530406.2_Silent_p.I107I	NM_001184779.1|NM_024505.3	NP_001171708.1|NP_078781.3	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	107	EF-hand 3; atypical; contains an insert of 28 residues. {ECO:0000255|PROSITE- ProRule:PRU00448}.|N-terminal regulatory region; interacts with the C-terminal catalytic region in a calcium-dependent manner.				angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|cell proliferation (GO:0008283)|cytokine secretion (GO:0050663)|cytokinesis (GO:0000910)|endothelial cell proliferation (GO:0001935)|oxidation-reduction process (GO:0055114)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|proton transport (GO:0015992)|regulation of fusion of sperm to egg plasma membrane (GO:0043012)|regulation of proton transport (GO:0010155)|superoxide anion generation (GO:0042554)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)|flavin adenine dinucleotide binding (GO:0050660)|heme binding (GO:0020037)|hydrogen ion channel activity (GO:0015252)|NADP binding (GO:0050661)|superoxide-generating NADPH oxidase activity (GO:0016175)			breast(3)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|liver(2)|lung(18)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	35						TGTATGACATCGATGGTAAGG	0.592																																																0													110	105	106					15																	69320701		2200	4298	6498	SO:0001819	synonymous_variant	79400			AF317889	CCDS32276.1, CCDS32276.2, CCDS53953.1, CCDS53954.1	15q22.31	2013-01-10			ENSG00000255346	ENSG00000255346		"EF-hand domain containing"	14874	protein-coding gene	gene with protein product		606572				11483596	Standard	NM_001184779		Approved	NOX5A, NOX5B	uc002ars.2	Q96PH1	OTTHUMG00000133320	ENST00000388866.3:c.321C>T	15.37:g.69320701C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBJ4|Q08AN2|Q08AN3|Q8TEQ1|Q8TER4|Q96PH2|Q96PJ8|Q96PJ9|Q9H6E0|Q9HAM8	Silent	SNP	ENST00000388866.3	37	CCDS32276.2																																																																																				0.592	NOX5-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000257124.2	NM_024505		T	69320701	C	T	69320701	2	4	625	1	0	0	0	0	0	0	0	1	10566	874	31	1		1	NOX5	15	69320701	Silent	SNP	C	TCGA-KL-8326-01A-11D-2310-10	12932656	69320701	33210691	58	38438										
MYH13	8735	broad.mit.edu	37	chr17	10263502	10263502	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0	0	1	0	0	0	1	1	0	tgaggatagactggttgtctCgatctagaaatgcagaggga	14	5	2	4			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr17:10263502C>G	ENST00000418404.3	-	5	672	c.509G>C	c.(508-510)cGa>cCa	p.R170P	MYH13_ENST00000252172.4_Missense_Mutation_p.R170P			Q9UKX3	MYH13_HUMAN	myosin, heavy chain 13, skeletal muscle	170	Myosin motor.				cellular response to starvation (GO:0009267)|metabolic process (GO:0008152)|muscle contraction (GO:0006936)	extracellular vesicular exosome (GO:0070062)|muscle myosin complex (GO:0005859)|myofibril (GO:0030016)|myosin filament (GO:0032982)	ATP binding (GO:0005524)|microfilament motor activity (GO:0000146)			breast(3)|cervix(2)|endometrium(11)|kidney(7)|large_intestine(21)|lung(48)|ovary(7)|skin(2)|upper_aerodigestive_tract(5)|urinary_tract(2)	108						CTGGTTGTCTCGATCTAGAAA	0.418																																																0													85	85	85					17																	10263502		2177	4294	6471	SO:0001583	missense	8735			AF075248	CCDS45613.1	17p13	2011-09-27	2006-09-29			ENSG00000006788		"Myosins / Myosin superfamily : Class II"	7571	protein-coding gene	gene with protein product	"extraocular muscle myosin heavy chain", "extraocular myosin heavy chain"	603487	"myosin, heavy polypeptide 13, skeletal muscle"			9806854	Standard	NM_003802		Approved	MyHC-eo	uc002gmk.1	Q9UKX3		ENST00000418404.3:c.509G>C	17.37:g.10263502C>G	ENSP00000404570:p.Arg170Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O95252|Q9P0U8	Missense_Mutation	SNP	ENST00000418404.3	37	CCDS45613.1	.	.	.	.	.	.	.	.	.	.	C	20.9	4.062811	0.76187	.	.	ENSG00000006788	ENST00000252172	T	0.72942	-0.7	3.94	2.96	0.34315	Myosin head, motor domain (2);	.	.	.	.	D	0.86100	0.5852	M	0.92507	3.315	0.41551	D	0.988576	D	0.59357	0.985	D	0.77557	0.99	D	0.89034	0.3444	9	0.87932	D	0	.	12.3249	0.55005	0.0:0.9118:0.0:0.0882	.	170	Q9UKX3	MYH13_HUMAN	P	170	ENSP00000252172:R170P	ENSP00000252172:R170P	R	-	2	0	MYH13	10204227	0.998000	0.40836	1.000000	0.80357	0.998000	0.95712	3.790000	0.55461	2.194000	0.70268	0.655000	0.94253	CGA		0.418	MYH13-003	KNOWN	alternative_3_UTR|alternative_5_UTR|NMD_exception|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000442255.1	NM_003802		G	10263502	C	G	10263502	3	3	625	1	0	0	0	0	1	0	0	0	10039	884	31	4	5451	4	MYH13	17	10263502	Missense_Mutation	SNP	C	TCGA-KL-8326-01A-11D-2310-10		10263502	70931708	59	38439										
ATP6V0A1	535	mdanderson.org	37	chr17	40666439	40666439	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ggccatcctcctgatcatggAgggcctctcggcctttctcc	10	16	3	1			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr17:40666439A>G	ENST00000343619.4	+	21	2504	c.2381A>G	c.(2380-2382)gAg>gGg	p.E794G	ATP6V0A1_ENST00000546249.1_Missense_Mutation_p.E794G|ATP6V0A1_ENST00000264649.6_Missense_Mutation_p.E795G|RP11-400F19.18_ENST00000591237.1_RNA|ATP6V0A1_ENST00000537728.1_Missense_Mutation_p.E745G|ATP6V0A1_ENST00000544137.1_Missense_Mutation_p.E440G|ATP6V0A1_ENST00000393829.2_Missense_Mutation_p.E788G|MIR5010_ENST00000582846.1_RNA|ATP6V0A1_ENST00000585525.1_Missense_Mutation_p.E751G	NM_001130021.1	NP_001123493.1	Q93050	VPP1_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit a1	794					ATP hydrolysis coupled proton transport (GO:0015991)|cellular iron ion homeostasis (GO:0006879)|insulin receptor signaling pathway (GO:0008286)|interaction with host (GO:0051701)|phagosome maturation (GO:0090382)|transferrin transport (GO:0033572)|transmembrane transport (GO:0055085)	cytoplasm (GO:0005737)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)|vacuolar proton-transporting V-type ATPase, V0 domain (GO:0000220)	ATPase binding (GO:0051117)|hydrogen ion transmembrane transporter activity (GO:0015078)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(4)|lung(8)|pancreas(1)|prostate(1)|urinary_tract(3)	26		all_cancers(22;1.18e-05)|Breast(137;0.000105)|all_epithelial(22;0.000254)		BRCA - Breast invasive adenocarcinoma(366;0.137)		CTGATCATGGAGGGCCTCTCG	0.622																																																0													163	138	147					17																	40666439		2203	4300	6503	SO:0001583	missense	535			U73006	CCDS11426.1, CCDS45683.1, CCDS45684.1	17q21	2010-04-21	2006-01-20	2002-05-10	ENSG00000033627	ENSG00000033627		"ATPases / V-type"	865	protein-coding gene	gene with protein product		192130	"ATPase, H+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 1A (110/116kD)", "ATPase, H+ transporting, lysosomal V0 subunit a isoform 1", "ATPase, H+ transporting, lysosomal V0 subunit A1"	VPP1, ATP6N1, ATP6N1A		7774924	Standard	NM_001130020		Approved	a1, Vph1, Stv1	uc002hzs.3	Q93050		ENST00000343619.4:c.2381A>G	17.37:g.40666439A>G	ENSP00000342951:p.Glu794Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3B7|Q8N5G7|Q9NSX0	Missense_Mutation	SNP	ENST00000343619.4	37	CCDS45684.1	.	.	.	.	.	.	.	.	.	.	A	29.1	4.977615	0.92982	.	.	ENSG00000033627	ENST00000343619;ENST00000546249;ENST00000393829;ENST00000264649;ENST00000537728;ENST00000544137	D;D;D;D;D;D	0.88201	-2.35;-2.35;-2.35;-2.35;-2.35;-2.35	4.57	4.57	0.56435	.	0.000000	0.85682	D	0.000000	D	0.96513	0.8862	H	0.97874	4.095	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.97110	1.0;1.0;1.0;0.999;1.0	D	0.97859	1.0279	10	0.87932	D	0	-20.7555	14.0846	0.64947	1.0:0.0:0.0:0.0	.	745;751;795;794;788	B7Z641;B7Z2A9;B7Z3B7;Q93050;Q93050-1	.;.;.;VPP1_HUMAN;.	G	794;794;788;795;745;440	ENSP00000342951:E794G;ENSP00000444676:E794G;ENSP00000377415:E788G;ENSP00000264649:E795G;ENSP00000443991:E745G;ENSP00000446377:E440G	ENSP00000264649:E795G	E	+	2	0	ATP6V0A1	37919965	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.139000	0.94554	1.936000	0.56123	0.459000	0.35465	GAG		0.622	ATP6V0A1-006	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000450364.1	NM_001130020		G	40666439	A	G	40666439	3	3	625	1	0	0	0	0	1	0	0	0	1168	304	11	3	2480	3	ATP6V0A1	17	40666439	Missense_Mutation	SNP	A	TCGA-KL-8326-01A-11D-2310-10	30402937	40666439	40528771	60	38440										
CARD14	79092	broad.mit.edu	37	chr17	78178060	78178060	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	accacagaagctggtccgcaTcgtcagtatggacaaagcca	10	12	1	1			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr17:78178060T>A	ENST00000573882.1	+	19	2854	c.2318T>A	c.(2317-2319)aTc>aAc	p.I773N	RP11-334C17.5_ENST00000570309.1_RNA|CARD14_ENST00000344227.2_Missense_Mutation_p.I773N|RP11-334C17.5_ENST00000572730.1_RNA|RP11-334C17.5_ENST00000573935.1_RNA|RP11-334C17.5_ENST00000573346.1_RNA|RP11-334C17.5_ENST00000576824.1_RNA			Q9BXL6	CAR14_HUMAN	caspase recruitment domain family, member 14	773					activation of NF-kappaB-inducing kinase activity (GO:0007250)|apoptotic process (GO:0006915)|negative regulation of apoptotic process (GO:0043066)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of protein phosphorylation (GO:0001934)|tumor necrosis factor-mediated signaling pathway (GO:0033209)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	CARD domain binding (GO:0050700)			NS(1)|cervix(1)|endometrium(1)|large_intestine(2)|lung(11)|ovary(5)|prostate(1)|skin(1)	23	all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.017)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			CTGGTCCGCATCGTCAGTATG	0.572																																																0													54	45	48					17																	78178060		2202	4299	6501	SO:0001583	missense	79092			AF322642	CCDS11768.1, CCDS58605.1	17q25.3	2014-09-04			ENSG00000141527	ENSG00000141527			16446	protein-coding gene	gene with protein product		607211	"psoriasis susceptibility 2"	PSORS2		11278692, 11356195, 22521418	Standard	NM_052819		Approved	CARMA2, BIMP2	uc031res.1	Q9BXL6	OTTHUMG00000177549	ENST00000573882.1:c.2318T>A	17.37:g.78178060T>A	ENSP00000458715:p.Ile773Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B8QQJ3|Q9BVB5	Missense_Mutation	SNP	ENST00000573882.1	37	CCDS11768.1	.	.	.	.	.	.	.	.	.	.	T	18.74	3.689183	0.68271	.	.	ENSG00000141527	ENST00000344227	T	0.05580	3.42	4.08	4.08	0.47627	.	0.520215	0.19019	N	0.124877	T	0.18467	0.0443	M	0.67953	2.075	0.80722	D	1	D	0.69078	0.997	D	0.63597	0.916	T	0.02015	-1.1229	10	0.27082	T	0.32	-21.5192	12.0436	0.53466	0.0:0.0:0.0:1.0	.	773	Q9BXL6	CAR14_HUMAN	N	773	ENSP00000344549:I773N	ENSP00000344549:I773N	I	+	2	0	CARD14	75792655	0.968000	0.33430	0.999000	0.59377	0.978000	0.69477	4.578000	0.60929	1.490000	0.48466	0.383000	0.25322	ATC		0.572	CARD14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437507.1			A	78178060	T	A	78178060	3	1	625	1	0	0	0	0	1	0	0	0	2648	1435	50	5	2545	5	CARD14	17	78178060	Missense_Mutation	SNP	T	TCGA-KL-8326-01A-11D-2310-10	37511621	78178060	3017150	61	38441										
ZNF676	163223	mdanderson.org	37	chr19	22363589	22363589	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gctttgccacattcttcacaCttgtagggtttctctccagt	7	12	3	0	rs80146743	byFrequency	TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr19:22363589C>T	ENST00000397121.2	-	3	1247	c.930G>A	c.(928-930)aaG>aaA	p.K310K		NM_001001411.2	NP_001001411.2	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	310					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(49)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	67		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				ATTCTTCACACTTGTAGGGTT	0.443																																																0													66	69	68					19																	22363589		2091	4235	6326	SO:0001819	synonymous_variant	163223			AK097798	CCDS42539.1	19p12	2013-01-08				ENSG00000196109		"Zinc fingers, C2H2-type"	20429	protein-coding gene	gene with protein product							Standard	NM_001001411		Approved		uc002nqs.1	Q8N7Q3		ENST00000397121.2:c.930G>A	19.37:g.22363589C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MVX5	Silent	SNP	ENST00000397121.2	37	CCDS42539.1																																																																																				0.443	ZNF676-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464392.1	NM_001001411		T	22363589	C	T	22363589	2	4	625	1	0	0	0	0	0	0	0	1	18095	564	20	2		2	ZNF676	19	22363589	Silent	SNP	C	TCGA-KL-8326-01A-11D-2310-10		22363589	36765394	62	38442										
FCGBP	8857	broad.mit.edu	37	chr19	40396331	40396332	+	Frame_Shift_Ins	INS	-	-	C													0	0	1	0	0	0	1	1	0	ccctcgggtgccgacaggctINScgggcagctcccaggacagg							TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr19:40396331_40396332insC	ENST00000221347.6	-	15	7072_7073	c.7065_7066insG	c.(7063-7068)ccgagcfs	p.S2356fs		NM_003890.2	NP_003881.2	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein	2356	Cys-rich.|TIL 5.					extracellular vesicular exosome (GO:0070062)				NS(3)|autonomic_ganglia(1)|breast(7)|central_nervous_system(5)|endometrium(13)|kidney(9)|large_intestine(27)|lung(49)|ovary(8)|pancreas(3)|prostate(13)|skin(9)|stomach(9)|upper_aerodigestive_tract(6)|urinary_tract(3)	165	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)			GCCGACAGGCTCGGGCAGCTCC	0.649																																																0																																										SO:0001589	frameshift_variant	8857			D84239		19q13.2	2013-09-20			ENSG00000090920	ENSG00000275395			13572	protein-coding gene	gene with protein product	"IgG Fc binding protein", "Human Fc gamma BP"					9182547	Standard	NM_003890		Approved	FC(GAMMA)BP	uc002omp.4	Q9Y6R7	OTTHUMG00000182580	ENST00000221347.6:c.7066dupG	19.37:g.40396332_40396332dupC	ENSP00000221347:p.Ser2356fs	Somatic		WXS	Illumina HiSeq	Phase_I	O95784	Frame_Shift_Ins	INS	ENST00000221347.6	37	CCDS12546.1																																																																																				0.649	FCGBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462507.1	NM_003890		C	40396332	-	C	40396331	7	5	625	1	0	1	1	0	0	0	0	0	5785	1551	54	0	9239	0	FCGBP	19	40396331	Frame_Shift_Ins	INS	-	TCGA-KL-8326-01A-11D-2310-10	18032742	40396331	18732652	63	38443										
C19orf41	126123	ucsc.edu	37	chr19	50666389	50666389	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	accaaggggtcgcactgcagGcagccccagcctccgggggc	15	16	0	0	rs61742305	byFrequency	TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr19:50666389G>A	ENST00000293405.3	-	1	63	c.63C>T	c.(61-63)tgC>tgT	p.C21C		NM_152358.2	NP_689571.2	Q6UXV1	IZUM2_HUMAN	IZUMO family member 2	21						integral component of membrane (GO:0016021)				cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|prostate(1)	7						CGCACTGCAGGCAGCCCCAGC	0.706													G|||	587	0.117212	0.0159	0.1643	5008	,	,		12810	0.0625		0.2485	False		,,,				2504	0.1421															0								G		174,3710		4,166,1772	10	14	13		63	2.4	1	19	dbSNP_129	13	1851,6415		214,1423,2496	no	coding-synonymous	IZUMO2	NM_152358.2		218,1589,4268	AA,AG,GG		22.3929,4.4799,16.6667		21/222	50666389	2025,10125	1942	4133	6075	SO:0001819	synonymous_variant	126123			AY358196	CCDS12792.2	19q13.33	2014-02-17	2010-07-29	2010-07-29	ENSG00000161652	ENSG00000161652		"-"	28518	protein-coding gene	gene with protein product			"chromosome 19 open reading frame 41"	C19orf41		19658160, 22957301	Standard	XM_006723007		Approved	MGC33947, SCRL	uc002prp.1	Q6UXV1	OTTHUMG00000074063	ENST00000293405.3:c.63C>T	19.37:g.50666389G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5GRG3|Q5GRG4|Q6ZNM5|Q8NHR8	Silent	SNP	ENST00000293405.3	37	CCDS12792.2																																																																																				0.706	IZUMO2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157232.1	NM_152358		A	50666389	G	A	50666389	2	1	625	1	0	0	0	0	0	0	0	1	1926	1195	42	2		2	C19orf41	19	50666389	Silent	SNP	G	TCGA-KL-8326-01A-11D-2310-10	10270058	50666389	8462594	64	38444										
JAG1	182	hgsc.bcm.edu;mdanderson.org	37	chr20	10626014	10626014	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	taccacttacgtgagtggcaGgtctttcctttccacccatt	7	13	1	1			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr20:10626014G>T	ENST00000254958.5	-	16	2618	c.2103C>A	c.(2101-2103)acC>acA	p.T701T	JAG1_ENST00000488480.1_RNA|JAG1_ENST00000423891.2_Silent_p.T542T	NM_000214.2	NP_000205.1	P78504	JAG1_HUMAN	jagged 1	701	EGF-like 12; calcium-binding. {ECO:0000255|PROSITE-ProRule:PRU00076}.				angiogenesis (GO:0001525)|aorta morphogenesis (GO:0035909)|auditory receptor cell differentiation (GO:0042491)|blood vessel remodeling (GO:0001974)|cardiac neural crest cell development involved in outflow tract morphogenesis (GO:0061309)|cardiac right ventricle morphogenesis (GO:0003215)|cardiac septum morphogenesis (GO:0060411)|cell fate determination (GO:0001709)|ciliary body morphogenesis (GO:0061073)|distal tubule development (GO:0072017)|endocardial cushion cell development (GO:0061444)|endothelial cell differentiation (GO:0045446)|hemopoiesis (GO:0030097)|keratinocyte differentiation (GO:0030216)|loop of Henle development (GO:0072070)|morphogenesis of an epithelial sheet (GO:0002011)|myoblast differentiation (GO:0045445)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of stem cell differentiation (GO:2000737)|nervous system development (GO:0007399)|neuronal stem cell maintenance (GO:0097150)|Notch receptor processing (GO:0007220)|Notch signaling involved in heart development (GO:0061314)|Notch signaling pathway (GO:0007219)|positive regulation of myeloid cell differentiation (GO:0045639)|positive regulation of Notch signaling pathway (GO:0045747)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|pulmonary artery morphogenesis (GO:0061156)|pulmonary valve morphogenesis (GO:0003184)|regulation of cell migration (GO:0030334)|regulation of cell proliferation (GO:0042127)|response to muramyl dipeptide (GO:0032495)|T cell mediated immunity (GO:0002456)	apical part of cell (GO:0045177)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|growth factor activity (GO:0008083)|Notch binding (GO:0005112)|structural molecule activity (GO:0005198)			biliary_tract(1)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(10)|lung(14)|ovary(2)|pancreas(1)|urinary_tract(1)	44						GTGAGTGGCAGGTCTTTCCTT	0.527									Alagille Syndrome																																							0			GRCh37	CD994168	JAG1	D							153	147	149					20																	10626014		2203	4300	6503	SO:0001819	synonymous_variant	182	Familial Cancer Database	ALGS1, ALGS2.Alagille-Watson syndrome	U61276	CCDS13112.1	20p12.1-p11.23	2011-05-12	2010-06-24		ENSG00000101384	ENSG00000101384		"CD molecules"	6188	protein-coding gene	gene with protein product		601920	"Alagille syndrome"	AGS, JAGL1		7697721, 9207788	Standard	NM_000214		Approved	AHD, AWS, HJ1, CD339	uc002wnw.2	P78504	OTTHUMG00000031872	ENST00000254958.5:c.2103C>A	20.37:g.10626014G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0AV43|B4DYR1|E9PCF9|O14902|O15122|Q15816	Silent	SNP	ENST00000254958.5	37	CCDS13112.1																																																																																				0.527	JAG1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_000214		T	10626014	G	T	10626014	2	4	625	1	0	0	0	0	0	0	0	1	7941	987	35	4		4	JAG1	20	10626014	Silent	SNP	G	TCGA-KL-8326-01A-11D-2310-10		10626014	52399506	65	38445										
KIAA1755	85449	broad.mit.edu;bcgsc.ca	37	chr20	36869241	36869241	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ttgtttcagaggctgcagctGcaggagaagctggggacagg	17	7	1	2			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr20:36869241G>T	ENST00000279024.4	-	3	1563	c.1292C>A	c.(1291-1293)gCa>gAa	p.A431E		NM_001029864.1	NP_001025035.1	Q5JYT7	K1755_HUMAN	KIAA1755	431										breast(2)|endometrium(3)|kidney(1)|large_intestine(5)|lung(31)|ovary(5)|pancreas(2)|skin(4)|stomach(1)	54		Myeloproliferative disorder(115;0.00874)				GGCTGCAGCTGCAGGAGAAGC	0.562																																																0													64	65	65					20																	36869241		2203	4300	6503	SO:0001583	missense	85449			AB051542	CCDS33467.1	20q11.23	2007-12-07			ENSG00000149633	ENSG00000149633			29372	protein-coding gene	gene with protein product						11214970	Standard	NM_001029864		Approved	RP5-1054A22.3	uc002xhy.1	Q5JYT7	OTTHUMG00000032436	ENST00000279024.4:c.1292C>A	20.37:g.36869241G>T	ENSP00000279024:p.Ala431Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9C0A8	Missense_Mutation	SNP	ENST00000279024.4	37	CCDS33467.1	.	.	.	.	.	.	.	.	.	.	G	0.336	-0.953363	0.02285	.	.	ENSG00000149633	ENST00000279024	T	0.05382	3.45	4.18	-5.42	0.02640	.	1.213520	0.06010	N	0.649274	T	0.03095	0.0091	N	0.22421	0.69	0.09310	N	1	B	0.27498	0.18	B	0.23716	0.048	T	0.44097	-0.9350	10	0.02654	T	1	.	6.1358	0.20233	0.4644:0.3157:0.2199:0.0	.	431	Q5JYT7	K1755_HUMAN	E	431	ENSP00000279024:A431E	ENSP00000279024:A431E	A	-	2	0	KIAA1755	36302655	0.000000	0.05858	0.000000	0.03702	0.020000	0.10135	-0.332000	0.07904	-0.796000	0.04456	-0.768000	0.03414	GCA		0.562	KIAA1755-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079144.3	NM_001029864		T	36869241	G	T	36869241	3	4	625	1	0	0	0	0	1	0	0	0	8264	1319	46	4	2358	4	KIAA1755	20	36869241	Missense_Mutation	SNP	G	TCGA-KL-8326-01A-11D-2310-10	26243227	36869241	26156279	66	38446										
SLC35C2	51006	broad.mit.edu	37	chr20	44984494	44984494	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	caagatgaagaggacagctgAggatttggtcattgtgtacc	13	6	1	4			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr20:44984494A>G	ENST00000372227.1	-	5	895	c.355T>C	c.(355-357)Tca>Cca	p.S119P	SLC35C2_ENST00000493599.1_5'Flank|SLC35C2_ENST00000372229.1_Intron|SLC35C2_ENST00000243896.2_Missense_Mutation_p.S119P|SLC35C2_ENST00000317734.8_Missense_Mutation_p.S119P|SLC35C2_ENST00000372230.5_Missense_Mutation_p.S119P|SLC35C2_ENST00000543605.1_Missense_Mutation_p.S148P	NM_001281458.1|NM_001281460.1	NP_001268387.1|NP_001268389.1	Q9NQQ7	S35C2_HUMAN	solute carrier family 35 (GDP-fucose transporter), member C2	119					negative regulation of gene expression (GO:0010629)|positive regulation of Notch signaling pathway (GO:0045747)|protein O-linked fucosylation (GO:0036066)|transport (GO:0006810)	cis-Golgi network (GO:0005801)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)				cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(4)|ovary(2)|prostate(1)	16		Myeloproliferative disorder(115;0.0122)				AGGACAGCTGAGGATTTGGTC	0.527																																																0													151	141	145					20																	44984494		2203	4300	6503	SO:0001583	missense	51006				CCDS13396.1, CCDS13397.1, CCDS63292.1	20q13.12	2013-07-17	2013-07-17	2003-10-10	ENSG00000080189	ENSG00000080189		"Solute carriers"	17117	protein-coding gene	gene with protein product			"ovarian cancer overexpressed 1", "solute carrier family 35, member C2"	C20orf5, OVCOV1		10810093, 11549316	Standard	NM_173179		Approved	CGI-15, bA394O2.1	uc002xrq.3	Q9NQQ7	OTTHUMG00000033050	ENST00000372227.1:c.355T>C	20.37:g.44984494A>G	ENSP00000361301:p.Ser119Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6V6|E1P5T0|Q53GK3|Q5JW05|Q96CJ8|Q9Y304	Missense_Mutation	SNP	ENST00000372227.1	37	CCDS13396.1	.	.	.	.	.	.	.	.	.	.	A	21.2	4.109718	0.77096	.	.	ENSG00000080189	ENST00000317734;ENST00000243896;ENST00000372227;ENST00000372230;ENST00000543605	D;D;D;D;D	0.87103	-2.21;-2.21;-2.21;-2.21;-2.21	4.98	4.98	0.66077	.	0.000000	0.85682	D	0.000000	D	0.94198	0.8138	M	0.89840	3.065	0.80722	D	1	D;D;D;D	0.89917	1.0;0.995;0.999;1.0	D;P;D;D	0.79108	0.992;0.763;0.991;0.963	D	0.94860	0.8021	10	0.56958	D	0.05	.	14.3057	0.66384	1.0:0.0:0.0:0.0	.	148;5;119;119	F5H4T9;B7Z6R4;Q9NQQ7-2;Q9NQQ7	.;.;.;S35C2_HUMAN	P	119;119;119;119;148	ENSP00000318960:S119P;ENSP00000243896:S119P;ENSP00000361301:S119P;ENSP00000361304:S119P;ENSP00000439974:S148P	ENSP00000243896:S119P	S	-	1	0	SLC35C2	44417901	1.000000	0.71417	0.998000	0.56505	0.998000	0.95712	6.269000	0.72558	2.217000	0.71921	0.533000	0.62120	TCA		0.527	SLC35C2-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080363.1	NM_015945		G	44984494	A	G	44984494	3	3	625	1	0	0	0	0	1	0	0	0	14593	304	11	3	766	3	SLC35C2	20	44984494	Missense_Mutation	SNP	A	TCGA-KL-8326-01A-11D-2310-10	8115253	44984494	18041026	67	38447										
ELFN2	114794	ucsc.edu	37	chr22	37769129	37769129	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gggtcacagcttctgctgggCggagacccccttccagtaat	12	13	2	1	rs61737924		TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr22:37769129C>T	ENST00000402918.2	-	3	3231	c.2446G>A	c.(2446-2448)Gcc>Acc	p.A816T	RP1-63G5.8_ENST00000609322.1_RNA|ELFN2_ENST00000435824.1_5'Flank|RP1-63G5.5_ENST00000430883.1_RNA	NM_052906.3	NP_443138.2	Q5R3F8	PPR29_HUMAN	extracellular leucine-rich repeat and fibronectin type III domain containing 2	816					negative regulation of phosphatase activity (GO:0010923)	extracellular space (GO:0005615)|integral component of membrane (GO:0016021)	phosphatase binding (GO:0019902)|protein phosphatase inhibitor activity (GO:0004864)			NS(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(13)|ovary(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	35	Melanoma(58;0.0574)					TTCTGCTGGGCGGAGACCCCC	0.662																																																0													57	52	54					22																	37769129		2203	4300	6503	SO:0001583	missense	114794			BC041596	CCDS33642.1	22q13.1	2013-02-11	2011-10-27	2011-10-27	ENSG00000166897	ENSG00000166897		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits", "Fibronectin type III domain containing"	29396	protein-coding gene	gene with protein product			"leucine rich repeat containing 62", "extracellular leucine-rich repeat and fibronectin type III containing 2", "extracellular leucine-rich repeat and fibronectin type III domain containing 2", "protein phosphatase 1, regulatory subunit 29"	LRRC62, PPP1R29		17868438	Standard	XR_244427		Approved	dJ63G5.3, KIAA1904	uc003asq.4	Q5R3F8	OTTHUMG00000150558	ENST00000402918.2:c.2446G>A	22.37:g.37769129C>T	ENSP00000385277:p.Ala816Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q96PY3	Missense_Mutation	SNP	ENST00000402918.2	37	CCDS33642.1	.	.	.	.	.	.	.	.	.	.	C	28.4	4.913449	0.92178	.	.	ENSG00000166897	ENST00000349653;ENST00000402918	T;T	0.67171	-0.25;-0.25	4.63	4.63	0.57726	.	0.000000	0.85682	D	0.000000	T	0.72542	0.3473	L	0.27053	0.805	0.80722	D	1	D	0.89917	1.0	D	0.68621	0.959	T	0.77422	-0.2594	10	0.87932	D	0	-33.9132	17.8461	0.88730	0.0:1.0:0.0:0.0	.	816	Q5R3F8	PPR29_HUMAN	T	816	ENSP00000300147:A816T;ENSP00000385277:A816T	ENSP00000300147:A816T	A	-	1	0	ELFN2	36099075	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	7.575000	0.82447	2.265000	0.75225	0.561000	0.74099	GCC		0.662	ELFN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318900.2	NM_052906		T	37769129	C	T	37769129	3	4	625	1	0	0	0	0	1	0	0	0	5060	768	27	1	20	1	ELFN2	22	37769129	Missense_Mutation	SNP	C	TCGA-KL-8326-01A-11D-2310-10		37769129	13535437	68	38448										
TYMP	1890	broad.mit.edu	37	chr22	50965605	50965605	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	accgctcaccagcgtctttgCcagctcccgggcctgctcct	9	19	2	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chr22:50965605C>T	ENST00000252029.3	-	6	916	c.754G>A	c.(754-756)Gca>Aca	p.A252T	TYMP_ENST00000395681.1_Missense_Mutation_p.A252T|SCO2_ENST00000543927.1_5'Flank|TYMP_ENST00000395678.3_Missense_Mutation_p.A252T|CTA-384D8.36_ENST00000608319.1_RNA|SCO2_ENST00000252785.3_5'Flank|SCO2_ENST00000535425.1_5'Flank|SCO2_ENST00000395693.3_5'Flank|TYMP_ENST00000395680.1_Missense_Mutation_p.A252T	NM_001113755.2|NM_001113756.2|NM_001257988.1|NM_001257989.1|NM_001953.4	NP_001107227.1|NP_001107228.1|NP_001244917.1|NP_001244918.1|NP_001944.1	P19971	TYPH_HUMAN	thymidine phosphorylase	252					angiogenesis (GO:0001525)|cell differentiation (GO:0030154)|chemotaxis (GO:0006935)|DNA replication (GO:0006260)|mitochondrial genome maintenance (GO:0000002)|nucleobase-containing small molecule metabolic process (GO:0055086)|pyrimidine nucleobase metabolic process (GO:0006206)|pyrimidine nucleoside catabolic process (GO:0046135)|pyrimidine nucleoside salvage (GO:0043097)|pyrimidine nucleotide metabolic process (GO:0006220)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	phosphorylase activity (GO:0004645)|platelet-derived growth factor receptor binding (GO:0005161)|pyrimidine-nucleoside phosphorylase activity (GO:0016154)|thymidine phosphorylase activity (GO:0009032)|transferase activity, transferring pentosyl groups (GO:0016763)			large_intestine(1)|lung(2)|ovary(1)|prostate(1)	5		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;0.206)|LUAD - Lung adenocarcinoma(64;0.247)	Capecitabine(DB01101)|Cidofovir(DB00369)|Floxuridine(DB00322)|Fluorouracil(DB00544)|Trifluridine(DB00432)	AGCGTCTTTGCCAGCTCCCGG	0.652																																																0													34	35	34					22																	50965605		2201	4300	6501	SO:0001583	missense	1890			M63193	CCDS14096.1, CCDS58811.1	22q13	2014-09-17	2008-01-21	2008-01-21	ENSG00000025708	ENSG00000025708	2.4.2.4		3148	protein-coding gene	gene with protein product	"gliostatin"	131222	"endothelial cell growth factor 1 (platelet-derived)"	MNGIE, ECGF1		1590793, 11733540	Standard	NM_001113755		Approved		uc003bme.5	P19971	OTTHUMG00000150249	ENST00000252029.3:c.754G>A	22.37:g.50965605C>T	ENSP00000252029:p.Ala252Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8MW15|H9KVA0|Q13390|Q8WVB7	Missense_Mutation	SNP	ENST00000252029.3	37	CCDS14096.1	.	.	.	.	.	.	.	.	.	.	C	24.2	4.503085	0.85176	.	.	ENSG00000025708	ENST00000395680;ENST00000395681;ENST00000252029;ENST00000395678;ENST00000425169	D;D;D;D;D	0.98617	-5.03;-5.03;-5.03;-5.03;-5.03	4.6	3.56	0.40772	Glycosyl transferase, family 3 (3);	0.126268	0.51477	D	0.000099	D	0.99396	0.9787	H	0.98218	4.175	0.46222	D	0.998934	D;D;D	0.76494	0.999;0.999;0.999	D;D;D	0.68943	0.961;0.961;0.961	D	0.98541	1.0632	10	0.87932	D	0	-1.5027	12.6632	0.56826	0.0:0.8318:0.1682:0.0	.	252;252;252	B2RBL3;E5KRG5;P19971	.;.;TYPH_HUMAN	T	252;252;252;252;219	ENSP00000379037:A252T;ENSP00000379038:A252T;ENSP00000252029:A252T;ENSP00000379036:A252T;ENSP00000395875:A219T	ENSP00000252029:A252T	A	-	1	0	TYMP	49312471	1.000000	0.71417	0.972000	0.41901	0.695000	0.40330	6.059000	0.71133	1.047000	0.40274	0.561000	0.74099	GCA		0.652	TYMP-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000317081.1	NM_001953		T	50965605	C	T	50965605	3	4	625	1	0	0	0	0	1	0	0	0	16823	739	26	2	714	2	TYMP	22	50965605	Missense_Mutation	SNP	C	TCGA-KL-8326-01A-11D-2310-10	13196476	50965605	338961	69	38449										
DUSP21	63904	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chrX	44703528	44703528	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tccagcaatcgcatcaccgcCattgtcaatgcctcggtgga	9	14	2	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chrX:44703528C>T	ENST00000339042.4	+	1	280	c.150C>T	c.(148-150)gcC>gcT	p.A50A		NM_022076.3	NP_071359.3	Q9H596	DUS21_HUMAN	dual specificity phosphatase 21	50	Sufficient for mitochondrial localization. {ECO:0000250}.|Tyrosine-protein phosphatase.				peptidyl-tyrosine dephosphorylation (GO:0035335)	cytoplasm (GO:0005737)|mitochondrial inner membrane (GO:0005743)|nucleus (GO:0005634)	MAP kinase tyrosine/serine/threonine phosphatase activity (GO:0017017)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)			breast(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(8)|skin(3)	19						GCATCACCGCCATTGTCAATG	0.512																																																0													169	131	144					X																	44703528		2203	4300	6503	SO:0001819	synonymous_variant	63904			AF143321	CCDS14264.1	Xp11.4-p11.23	2011-06-09			ENSG00000189037	ENSG00000189037		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Atypical dual specificity phosphatases"	20476	protein-coding gene	gene with protein product		300678				12408986	Standard	NM_022076		Approved		uc004dgd.3	Q9H596	OTTHUMG00000021401	ENST00000339042.4:c.150C>T	X.37:g.44703528C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q0VDA6|Q6IAJ6|Q6YDQ8	Silent	SNP	ENST00000339042.4	37	CCDS14264.1																																																																																				0.512	DUSP21-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056323.1	NM_022076		T	44703528	C	T	44703528	2	4	625	1	0	0	0	0	0	0	0	1	4822	581	21	2		2	DUSP21	23	44703528	Silent	SNP	C	TCGA-KL-8326-01A-11D-2310-10		44703528	110567032	70	38450										
PJA1	64219	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	68382228	68382228	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ccctccacctggaagtactgTgtggcatatcgtcatcatca	8	13	3	0			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chrX:68382228T>A	ENST00000361478.1	-	2	1231	c.854A>T	c.(853-855)cAc>cTc	p.H285L	PJA1_ENST00000477231.1_5'UTR|PJA1_ENST00000374571.4_Missense_Mutation_p.H230L|PJA1_ENST00000374584.3_Intron|PJA1_ENST00000374583.1_Missense_Mutation_p.H285L	NM_001032396.2|NM_022368.4|NM_145119.3	NP_001027568.1|NP_071763.2|NP_660095.1	Q8NG27	PJA1_HUMAN	praja ring finger 1, E3 ubiquitin protein ligase	285					protein catabolic process (GO:0030163)	cytoplasm (GO:0005737)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			endometrium(3)|large_intestine(5)|lung(12)|ovary(1)	21						GGAAGTACTGTGTGGCATATC	0.502																																																0													84	71	75					X																	68382228		2203	4300	6503	SO:0001583	missense	64219			AK021892	CCDS14392.1, CCDS14393.1, CCDS35316.1	Xq13.1	2013-01-09	2012-02-23		ENSG00000181191	ENSG00000181191		"RING-type (C3HC4) zinc fingers"	16648	protein-coding gene	gene with protein product		300420	"praja 1", "praja ring finger 1"			12036302	Standard	NM_001032396		Approved	FLJ11830, RNF70	uc004dxh.3	Q8NG27	OTTHUMG00000021753	ENST00000361478.1:c.854A>T	X.37:g.68382228T>A	ENSP00000355014:p.His285Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A2A322|Q5JUT8|Q5JUT9|Q8NG28|Q9HAC1	Missense_Mutation	SNP	ENST00000361478.1	37	CCDS14393.1	.	.	.	.	.	.	.	.	.	.	t	8.610	0.888911	0.17540	.	.	ENSG00000181191	ENST00000396010;ENST00000374583;ENST00000361478;ENST00000374571	T;T;T	0.05258	3.47;3.47;3.47	3.07	1.87	0.25490	.	0.649262	0.13314	U	0.397237	T	0.08403	0.0209	L	0.44542	1.39	0.09310	N	1	D	0.59357	0.985	P	0.49477	0.612	T	0.26018	-1.0115	10	0.66056	D	0.02	-2.1912	4.5018	0.11867	0.0:0.1598:0.0:0.8402	.	285	Q8NG27	PJA1_HUMAN	L	200;285;285;230	ENSP00000363711:H285L;ENSP00000355014:H285L;ENSP00000363699:H230L	ENSP00000355014:H285L	H	-	2	0	PJA1	68298953	0.984000	0.35163	0.168000	0.22838	0.721000	0.41392	1.590000	0.36654	0.433000	0.26313	0.299000	0.19835	CAC		0.502	PJA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000057031.2	NM_145119		A	68382228	T	A	68382228	3	1	625	1	0	0	0	0	1	0	0	0	11968	1696	59	5	1081	5	PJA1	23	68382228	Missense_Mutation	SNP	T	TCGA-KL-8326-01A-11D-2310-10	23678700	68382228	86888332	71	38451										
PCDH11X	27328	broad.mit.edu	37	chrX	91090725	91090725	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	aagaccggagatgtgccactGattcgaattgaagaggatac	12	7	0	5			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chrX:91090725G>T	ENST00000373094.1	+	1	1067	c.222G>T	c.(220-222)ctG>ctT	p.L74L	PCDH11X_ENST00000361724.1_Silent_p.L74L|PCDH11X_ENST00000298274.8_Silent_p.L74L|PCDH11X_ENST00000504220.2_Silent_p.L74L|PCDH11X_ENST00000373088.1_Silent_p.L74L|PCDH11X_ENST00000406881.1_Silent_p.L74L|PCDH11X_ENST00000361655.2_Silent_p.L74L|PCDH11X_ENST00000395337.2_Silent_p.L74L|PCDH11X_ENST00000373097.1_Silent_p.L74L	NM_032968.3	NP_116750.1	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked	74	Cadherin 1. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)|negative regulation of phosphatase activity (GO:0010923)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|autonomic_ganglia(1)|biliary_tract(1)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(30)|liver(4)|lung(92)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	159						ATGTGCCACTGATTCGAATTG	0.453																																					NSCLC(38;925 1092 2571 38200 45895)											0													190	159	169					X																	91090725		2203	4300	6503	SO:0001819	synonymous_variant	27328			AB026187	CCDS14461.1, CCDS14462.1, CCDS55458.1, CCDS55459.1, CCDS55460.1, CCDS55461.1	Xq21.3	2014-06-13	2002-05-22	2002-05-24	ENSG00000102290	ENSG00000102290		"Cadherins / Protocadherins : Non-clustered"	8656	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 119"	300246	"protocadherin 11"	PCDH11		10644456	Standard	NM_001168360		Approved	PCDH-X, PCDHX, PPP1R119	uc004efm.2	Q9BZA7	OTTHUMG00000021965	ENST00000373094.1:c.222G>T	X.37:g.91090725G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NIQ4|Q2TJH0|Q2TJH1|Q2TJH3|Q5JVZ0|Q70LR8|Q70LS7|Q70LS8|Q70LS9|Q70LT7|Q70LT8|Q70LT9|Q70LU0|Q70LU1|Q96RV4|Q96RW0|Q9BZA6|Q9H4E0|Q9P2M0|Q9P2X5	Silent	SNP	ENST00000373094.1	37	CCDS14461.1																																																																																				0.453	PCDH11X-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000057436.1	NM_032969		T	91090725	G	T	91090725	2	4	625	1	0	0	0	0	0	0	0	1	11515	1277	45	4		4	PCDH11X	23	91090725	Silent	SNP	G	TCGA-KL-8326-01A-11D-2310-10	22708497	91090725	64179835	72	38452										
CXorf66	347487	hgsc.bcm.edu;mdanderson.org	37	chrX	139038874	139038874	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	aatgatgttttagatgacttGgctgctatgccttttttctt	8	6	1	3			TCGA-KL-8326-01A-11D-2310-10	TCGA-KL-8326-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4729fe4b-c1ac-489b-a67e-91e5c5e3ff8c	5d6a5ba0-8213-4f89-85e0-021e4b4cc894	g.chrX:139038874G>A	ENST00000370540.1	-	3	290	c.267C>T	c.(265-267)gcC>gcT	p.A89A		NM_001013403.2	NP_001013421.1	Q5JRM2	CX066_HUMAN	chromosome X open reading frame 66	89						integral component of membrane (GO:0016021)				breast(1)|endometrium(2)|kidney(3)|large_intestine(5)|lung(13)|skin(1)|stomach(1)	26						TAGATGACTTGGCTGCTATGC	0.378																																																0													142	124	130					X																	139038874		2203	4300	6503	SO:0001819	synonymous_variant	347487				CCDS35411.1	Xq27.1	2014-05-30			ENSG00000203933	ENSG00000203933			33743	protein-coding gene	gene with protein product	"secreted glycoprotein, X-linked"					24709545	Standard	NM_001013403		Approved	RP11-35F15.2, SGPX	uc004fbb.3	Q5JRM2	OTTHUMG00000022539	ENST00000370540.1:c.267C>T	X.37:g.139038874G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000370540.1	37	CCDS35411.1																																																																																				0.378	CXorf66-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058572.1	NM_001013403		A	139038874	G	A	139038874	2	1	625	1	0	0	0	0	0	0	0	1	4120	1335	47	2		2	CXorf66	23	139038874	Silent	SNP	G	TCGA-KL-8326-01A-11D-2310-10	47948149	139038874	16231686	73	38453										
HOOK1	51361	broad.mit.edu	37	chr1	60314061	60314061	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	gaagctacaagatctgaatgAccttcgcaagcaggtgaaaa	10	8	1	4			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr1:60314061A>G	ENST00000371208.3	+	11	1261	c.1004A>G	c.(1003-1005)gAc>gGc	p.D335G	HOOK1_ENST00000395561.2_Missense_Mutation_p.D293G|HOOK1_ENST00000465876.1_3'UTR	NM_015888.4	NP_056972.1	Q9UJC3	HOOK1_HUMAN	hook microtubule-tethering protein 1	335	Sufficient for interaction with microtubules.				early endosome to late endosome transport (GO:0045022)|endosome organization (GO:0007032)|endosome to lysosome transport (GO:0008333)|lysosome organization (GO:0007040)|multicellular organismal development (GO:0007275)|protein transport (GO:0015031)|spermatid development (GO:0007286)	FHF complex (GO:0070695)|microtubule (GO:0005874)	identical protein binding (GO:0042802)			biliary_tract(1)|breast(2)|endometrium(3)|kidney(2)|large_intestine(5)|lung(14)|ovary(1)|urinary_tract(1)	29	all_cancers(7;0.000129)					GATCTGAATGACCTTCGCAAG	0.363																																																0													89	85	87					1																	60314061		2203	4300	6503	SO:0001583	missense	51361			AF044923	CCDS612.1	1p32.1	2013-08-21	2013-08-21		ENSG00000134709	ENSG00000134709			19884	protein-coding gene	gene with protein product		607820	"hook homolog 1 (Drosophila)"			9927460	Standard	XM_005270922		Approved	HK1	uc001czo.3	Q9UJC3	OTTHUMG00000008990	ENST00000371208.3:c.1004A>G	1.37:g.60314061A>G	ENSP00000360252:p.Asp335Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8E9|A8MU44|B4DX15|O60561|Q5TG44	Missense_Mutation	SNP	ENST00000371208.3	37	CCDS612.1	.	.	.	.	.	.	.	.	.	.	A	26.3	4.719856	0.89205	.	.	ENSG00000134709	ENST00000371208;ENST00000395561	T;T	0.27557	1.66;1.66	5.91	5.91	0.95273	.	0.000000	0.85682	D	0.000000	T	0.55878	0.1948	M	0.77486	2.375	0.80722	D	1	D	0.76494	0.999	D	0.76575	0.988	T	0.53019	-0.8497	10	0.22109	T	0.4	.	16.3432	0.83101	1.0:0.0:0.0:0.0	.	335	Q9UJC3	HOOK1_HUMAN	G	335;293	ENSP00000360252:D335G;ENSP00000378928:D293G	ENSP00000360252:D335G	D	+	2	0	HOOK1	60086649	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	8.730000	0.91510	2.263000	0.75096	0.377000	0.23210	GAC		0.363	HOOK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000024934.1	NM_015888		G	60314061	A	G	60314061	3	3	626	1	0	0	0	0	1	0	0	0	7289	275	10	3	1046	3	HOOK1	1	60314061	Missense_Mutation	SNP	A	TCGA-KL-8327-01A-11D-2310-10		60314061	188936560	1	38454										
FAM189B	10712	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	155221684	155221684	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	cagtgggcctgagactgaccGctcaggggccagctgctggg	17	12	1	2	rs534103219		TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr1:155221684G>A	ENST00000361361.2	-	6	1143	c.634C>T	c.(634-636)Cgg>Tgg	p.R212W	FAM189B_ENST00000350210.2_Missense_Mutation_p.R116W|FAM189B_ENST00000368368.3_Missense_Mutation_p.R194W|FAM189B_ENST00000472550.1_5'UTR	NM_006589.2	NP_006580.2	P81408	F189B_HUMAN	family with sequence similarity 189, member B	212						integral component of membrane (GO:0016021)	WW domain binding (GO:0050699)			breast(4)|central_nervous_system(1)|endometrium(3)|large_intestine(4)|lung(6)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	23						GAGACTGACCGCTCAGGGGCC	0.617													G|||	1	0.000199681	0.0008	0.0	5008	,	,		11922	0.0		0.0	False		,,,				2504	0.0															0																																										SO:0001583	missense	10712			AF070550	CCDS1103.1, CCDS1104.1, CCDS58035.1	1q21	2009-07-09	2009-07-09	2009-07-09	ENSG00000160767	ENSG00000160767			1233	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 2"	C1orf2		9331372	Standard	NM_006589		Approved	cote1	uc001fjm.3	P81408	OTTHUMG00000035844	ENST00000361361.2:c.634C>T	1.37:g.155221684G>A	ENSP00000354958:p.Arg212Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B1AVS5|Q8IXL3|Q9BR66	Missense_Mutation	SNP	ENST00000361361.2	37	CCDS1103.1	.	.	.	.	.	.	.	.	.	.	G	24.6	4.551615	0.86127	.	.	ENSG00000160767	ENST00000350210;ENST00000333966;ENST00000368368;ENST00000361361;ENST00000491082	T;T;T;T	0.03689	3.84;3.88;3.84;3.84	4.32	4.32	0.51571	.	0.229602	0.39146	N	0.001442	T	0.03827	0.0108	L	0.45352	1.415	0.40489	D	0.980527	D;D;D	0.64830	0.991;0.994;0.978	P;P;P	0.51016	0.549;0.656;0.451	T	0.40646	-0.9552	10	0.87932	D	0	.	12.5139	0.56021	0.0:0.0:1.0:0.0	.	194;116;212	B1AVS5;P81408-2;P81408	.;.;F189B_HUMAN	W	116;116;194;212;116	ENSP00000307128:R116W;ENSP00000357352:R194W;ENSP00000354958:R212W;ENSP00000427011:R116W	ENSP00000333944:R116W	R	-	1	2	FAM189B	153488308	1.000000	0.71417	0.995000	0.50966	0.990000	0.78478	7.671000	0.83941	2.403000	0.81681	0.561000	0.74099	CGG		0.617	FAM189B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087224.1	NM_006589		A	155221684	G	A	155221684	3	1	626	1	0	0	0	0	1	0	0	0	5521	1086	38	1	1400	1	FAM189B	1	155221684	Missense_Mutation	SNP	G	TCGA-KL-8327-01A-11D-2310-10	94907623	155221684	94028937	2	38455										
ASTN1	460	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	176915167	176915167	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	ggttcatgggaagctccctgCtttccccacagtcacttccc	8	16	2	0	rs202163703		TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr1:176915167C>T	ENST00000367654.3	-	13	2379	c.2168G>A	c.(2167-2169)aGc>aAc	p.S723N	ASTN1_ENST00000367657.3_Missense_Mutation_p.S715N|ASTN1_ENST00000424564.2_Missense_Mutation_p.S715N|ASTN1_ENST00000361833.2_Missense_Mutation_p.S715N|ASTN1_ENST00000281881.3_5'UTR	NM_004319.1	NP_004310.1	O14525	ASTN1_HUMAN	astrotactin 1	723					locomotory behavior (GO:0007626)|neuron cell-cell adhesion (GO:0007158)|neuron migration (GO:0001764)	endosome (GO:0005768)|external side of plasma membrane (GO:0009897)|integral component of membrane (GO:0016021)				NS(4)|breast(5)|central_nervous_system(2)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(23)|liver(1)|lung(81)|ovary(6)|prostate(5)|skin(10)|urinary_tract(3)	153						AAGCTCCCTGCTTTCCCCACA	0.537																																																0													114	106	109					1																	176915167		2203	4300	6503	SO:0001583	missense	460			AB006627	CCDS1319.1, CCDS44280.1, CCDS65732.1	1q25.2	2008-02-05	2006-08-24	2006-08-24	ENSG00000152092	ENSG00000152092			773	protein-coding gene	gene with protein product		600904	"astrotactin"	ASTN		9070947	Standard	NM_001286164		Approved		uc001glc.3	O14525	OTTHUMG00000035041	ENST00000367654.3:c.2168G>A	1.37:g.176915167C>T	ENSP00000356626:p.Ser723Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A5PL12|B4DHI9|E9PFR8|O60799|Q5W0V7|Q5W0V8	Missense_Mutation	SNP	ENST00000367654.3	37		.	.	.	.	.	.	.	.	.	.	C	12.15	1.852937	0.32699	.	.	ENSG00000152092	ENST00000367657;ENST00000361833;ENST00000367654;ENST00000424564;ENST00000541808	T;T;T;T	0.15256	2.44;2.86;2.86;2.44	5.25	4.34	0.51931	.	0.308242	0.40385	N	0.001120	T	0.06645	0.0170	N	0.03608	-0.345	0.26601	N	0.97302	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.04013	0.001;0.0;0.0	T	0.21793	-1.0235	10	0.34782	T	0.22	-11.2963	5.3714	0.16142	0.1496:0.629:0.1443:0.0771	.	723;715;715	O14525;O14525-2;B1AJS1	ASTN1_HUMAN;.;.	N	715;715;723;715;715	ENSP00000356629:S715N;ENSP00000354536:S715N;ENSP00000356626:S723N;ENSP00000395041:S715N	ENSP00000354536:S715N	S	-	2	0	ASTN1	175181790	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	1.890000	0.39728	1.212000	0.43366	0.655000	0.94253	AGC		0.537	ASTN1-201	KNOWN	basic	protein_coding	protein_coding		NM_004319		T	176915167	C	T	176915167	3	4	626	1	0	0	0	0	1	0	0	0	1064	797	28	2	1788	2	ASTN1	1	176915167	Missense_Mutation	SNP	C	TCGA-KL-8327-01A-11D-2310-10	21693483	176915167	72335454	3	38456										
LMOD1	25802	broad.mit.edu	37	chr1	201868999	201868999	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	tcttgttggccttgagcatgAtggcaatggcaaaggccacg	13	9	1	2			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr1:201868999A>G	ENST00000367288.4	-	2	1388	c.1142T>C	c.(1141-1143)aTc>aCc	p.I381T	RP11-307B6.3_ENST00000414927.1_RNA|RP11-307B6.3_ENST00000458139.1_RNA	NM_012134.2	NP_036266.2	P29536	LMOD1_HUMAN	leiomodin 1 (smooth muscle)	381					muscle contraction (GO:0006936)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|membrane (GO:0016020)				breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(3)|liver(1)|lung(12)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	26						CTTGAGCATGATGGCAATGGC	0.567																																																0													119	121	120					1																	201868999		2183	4265	6448	SO:0001583	missense	25802			X54162	CCDS53457.1	1q32.1	2008-05-22			ENSG00000163431	ENSG00000163431			6647	protein-coding gene	gene with protein product		602715					Standard	NM_012134		Approved	64kD, D1, 1D	uc021phl.1	P29536	OTTHUMG00000035802	ENST00000367288.4:c.1142T>C	1.37:g.201868999A>G	ENSP00000356257:p.Ile381Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B1APV6|C4AMB1|Q68EN2	Missense_Mutation	SNP	ENST00000367288.4	37	CCDS53457.1	.	.	.	.	.	.	.	.	.	.	A	14.47	2.545378	0.45280	.	.	ENSG00000163431	ENST00000367288;ENST00000400965;ENST00000412469	D	0.91237	-2.81	4.47	4.47	0.54385	.	0.000000	0.40818	N	0.001006	T	0.79730	0.4496	L	0.29908	0.895	0.37645	D	0.922186	P;P	0.39094	0.47;0.659	B;B	0.32211	0.105;0.142	T	0.77024	-0.2741	10	0.15499	T	0.54	-28.3589	6.7159	0.23302	0.8923:0.0:0.1077:0.0	.	330;381	B4E3S9;P29536	.;LMOD1_HUMAN	T	381;381;330	ENSP00000356257:I381T	ENSP00000356257:I381T	I	-	2	0	LMOD1	200135622	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	2.114000	0.41911	1.626000	0.50381	0.491000	0.48974	ATC		0.567	LMOD1-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087085.2			G	201868999	A	G	201868999	3	3	626	1	0	0	0	0	1	0	0	0	8863	333	12	3	668	3	LMOD1	1	201868999	Missense_Mutation	SNP	A	TCGA-KL-8327-01A-11D-2310-10	24953832	201868999	47381622	4	38457										
EXOC8	149371	broad.mit.edu;mdanderson.org	37	chr1	231471905	231471905	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	ccgatatcacccagttgctgGcaatgctccttagccacttt	7	14	1	0			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr1:231471905G>A	ENST00000360394.2	-	1	1673	c.1587C>T	c.(1585-1587)tgC>tgT	p.C529C	SPRTN_ENST00000391858.4_5'Flank|SPRTN_ENST00000008440.9_5'Flank|EXOC8_ENST00000366645.1_Silent_p.C525C|SPRTN_ENST00000295050.7_5'Flank	NM_175876.3	NP_787072.2	Q8IYI6	EXOC8_HUMAN	exocyst complex component 8	529					cellular protein localization (GO:0034613)|cellular protein metabolic process (GO:0044267)|exocytosis (GO:0006887)|membrane organization (GO:0061024)|protein transport (GO:0015031)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|exocyst (GO:0000145)|membrane (GO:0016020)|plasma membrane (GO:0005886)				cervix(2)|endometrium(1)|large_intestine(2)|liver(1)|lung(5)|prostate(1)|skin(1)|stomach(1)	14	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				CCAGTTGCTGGCAATGCTCCT	0.483																																																0													123	106	112					1																	231471905		2203	4300	6503	SO:0001819	synonymous_variant	149371			AL117352	CCDS1593.1	1q42.2	2013-01-22			ENSG00000116903	ENSG00000116903			24659	protein-coding gene	gene with protein product		615283				12477932	Standard	NM_175876		Approved	SEC84, EXO84, Exo84p	uc001huq.3	Q8IYI6	OTTHUMG00000038025	ENST00000360394.2:c.1587C>T	1.37:g.231471905G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KU33|Q5TE82	Silent	SNP	ENST00000360394.2	37	CCDS1593.1																																																																																				0.483	EXOC8-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_175876		A	231471905	G	A	231471905	2	1	626	1	0	0	0	0	0	0	0	1	5313	1195	42	2		2	EXOC8	1	231471905	Silent	SNP	G	TCGA-KL-8327-01A-11D-2310-10	29602906	231471905	17778716	5	38458										
SLC3A1	6519	ucsc.edu	37	chr2	44528268	44528268	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	cggagcccggcagatacaggTtgaccacggcatatgctctc	12	13	1	2	rs556841667|rs61179824	byFrequency	TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr2:44528268T>G	ENST00000260649.6	+	6	1212		c.e6+2		SLC3A1_ENST00000409741.1_Splice_Site|SLC3A1_ENST00000409229.3_Splice_Site|SLC3A1_ENST00000409294.1_Intron|SLC3A1_ENST00000410056.3_Missense_Mutation_p.L380V|SLC3A1_ENST00000409380.1_Splice_Site|SLC3A1_ENST00000409740.3_5'Flank|SLC3A1_ENST00000409387.1_Splice_Site	NM_000341.3	NP_000332.2	Q07837	SLC31_HUMAN	solute carrier family 3 (amino acid transporter heavy chain), member 1						amino acid transmembrane transport (GO:0003333)|amino acid transport (GO:0006865)|basic amino acid transport (GO:0015802)|carbohydrate metabolic process (GO:0005975)|cellular amino acid metabolic process (GO:0006520)|ion transport (GO:0006811)|L-cystine transport (GO:0015811)|transmembrane transport (GO:0055085)	brush border membrane (GO:0031526)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|plasma membrane (GO:0005886)|vacuolar membrane (GO:0005774)	amino acid transmembrane transporter activity (GO:0015171)|basic amino acid transmembrane transporter activity (GO:0015174)|catalytic activity (GO:0003824)|cation binding (GO:0043169)|L-cystine transmembrane transporter activity (GO:0015184)			breast(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(5)|lung(11)|prostate(1)|skin(3)	26		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	CAGATACAGGTTGACCACGGC	0.507																																																0			GRCh37	CS013629	SLC3A1	S	rs146125507						78	75	76					2																	44528268		2170	4288	6458	SO:0001630	splice_region_variant	6519				CCDS1819.1	2p16.3	2013-07-19	2013-07-19		ENSG00000138079	ENSG00000138079		"Solute carriers"	11025	protein-coding gene	gene with protein product		104614	"solute carrier family 3 (cystine, dibasic and neutral amino acid transporters, activator of cystine, dibasic and neutral amino acid transport), member 1"			8486766, 9186880	Standard	NM_000341		Approved	CSNU1, D2H, RBAT, ATR1, NBAT	uc002ruc.4	Q07837	OTTHUMG00000128759	ENST00000260649.6:c.1136+2T>G	2.37:g.44528268T>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0S1|O00658|Q15295|Q4J6B4|Q4J6B5|Q4J6B6|Q4J6B7|Q4J6B8|Q4J6B9|Q52M92|Q52M94	Splice_Site	SNP	ENST00000260649.6	37	CCDS1819.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	-|-	1.259|1.259	-0.616384|-0.616384	0.03663|0.03663	.|.	.|.	ENSG00000138079|ENSG00000138079	ENST00000260649;ENST00000409387;ENST00000540334;ENST00000409741;ENST00000409229;ENST00000541289;ENST00000409380|ENST00000410056	.|D	.|0.99176	.|-5.52	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|D	.|0.96204	.|0.8762	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|B	.|0.14438	.|0.01	.|B	.|0.21151	.|0.033	.|D	.|0.90530	.|0.4495	.|5	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|380	.|Q4J6B8	.|.	.|V	-1|380	.|ENSP00000387337:L380V	.|.	.|L	+|+	.|1	.|2	SLC3A1|SLC3A1	44381772|44381772	0.999000|0.999000	0.42202|0.42202	0.922000|0.922000	0.36590|0.36590	0.142000|0.142000	0.21351|0.21351	0.000000|0.000000	0.12993|0.12993	0.000000|0.000000	0.14550|0.14550	0.000000|0.000000	0.15137|0.15137	.|TTG		0.507	SLC3A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250676.1	NM_000341	Intron	G	44528268	T	G	44528268	5	3	626	1	0	0	0	0	0	0	1	0	14639	1739	60	5	1160	5	SLC3A1	2	44528268	Splice_Site	SNP	T	TCGA-KL-8327-01A-11D-2310-10		44528268	198671105	6	38459										
POTEF	728378	mdanderson.org	37	chr2	130833115	130833115	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	cgtactattttcatgcaagaTgtctttttctttcttacaac	4	9	4	1			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr2:130833115T>A	ENST00000409914.2	-	17	2329	c.1930A>T	c.(1930-1932)Atc>Ttc	p.I644F	POTEF_ENST00000360967.5_3'UTR|POTEF_ENST00000361163.4_3'UTR|POTEF_ENST00000357462.5_Missense_Mutation_p.I644F	NM_001099771.2	NP_001093241.1	A5A3E0	POTEF_HUMAN	POTE ankyrin domain family, member F	644					retina homeostasis (GO:0001895)	blood microparticle (GO:0072562)|cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)				breast(1)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(4)|lung(28)|ovary(3)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)	53						TCATGCAAGATGTCTTTTTCT	0.338																																																0													30	32	32					2																	130833115		1961	4180	6141	SO:0001583	missense	728378			EF523384	CCDS46409.1	2q21.1	2013-01-10	2008-11-26	2008-11-26	ENSG00000196604	ENSG00000196604		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33905	protein-coding gene	gene with protein product			"ANKRD26-like family C, member 1B"	A26C1B		17101985	Standard	NM_001099771		Approved	POTEACTIN, POTE2alpha	uc010fmh.2	A5A3E0	OTTHUMG00000153628	ENST00000409914.2:c.1930A>T	2.37:g.130833115T>A	ENSP00000386786:p.Ile644Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A6NC34	Missense_Mutation	SNP	ENST00000409914.2	37	CCDS46409.1	.	.	.	.	.	.	.	.	.	.	.	0	-2.630147	0.00115	.	.	ENSG00000196604	ENST00000357462;ENST00000409914	T;T	0.76709	-1.04;-1.04	0.993	0.0565	0.14319	.	.	.	.	.	T	0.51924	0.1703	N	0.08118	0	0.09310	N	1	B	0.13145	0.007	B	0.01281	0.0	T	0.30238	-0.9985	9	0.32370	T	0.25	.	2.5633	0.04777	0.1876:0.0:0.3253:0.487	.	644	A5A3E0	POTEF_HUMAN	F	644	ENSP00000350052:I644F;ENSP00000386786:I644F	ENSP00000350052:I644F	I	-	1	0	POTEF	130549585	0.002000	0.14202	0.001000	0.08648	0.000000	0.00434	0.017000	0.13399	-0.445000	0.07159	-3.433000	0.00037	ATC		0.338	POTEF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331889.2	NM_001099771		A	130833115	T	A	130833115	3	1	626	1	0	0	0	0	1	0	0	0	12272	1464	51	5	1301	5	POTEF	2	130833115	Missense_Mutation	SNP	T	TCGA-KL-8327-01A-11D-2310-10	86304847	130833115	112366258	7	38460										
DNAH1	25981	bcgsc.ca	37	chr3	52387428	52387428	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	tggccttggacatccgggccCgcatcgaggagttcaaacca	12	13	1	0	rs540247484		TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr3:52387428C>T	ENST00000420323.2	+	20	3520	c.3259C>T	c.(3259-3261)Cgc>Tgc	p.R1087C		NM_015512.4	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	1087	Stem. {ECO:0000250}.				cilium movement (GO:0003341)|cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|response to mechanical stimulus (GO:0009612)	axonemal dynein complex (GO:0005858)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			cervix(2)|endometrium(18)|kidney(6)|large_intestine(3)|lung(31)|prostate(1)|urinary_tract(1)	62				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)		CATCCGGGCCCGCATCGAGGA	0.617													C|||	1	0.000199681	0.0	0.0	5008	,	,		21226	0.0		0.001	False		,,,				2504	0.0															0													61	67	65					3																	52387428		2075	4190	6265	SO:0001583	missense	25981			U61738	CCDS46842.1	3p21-p14	2008-02-05	2006-09-04		ENSG00000114841	ENSG00000114841		"Axonemal dyneins"	2940	protein-coding gene	gene with protein product		603332	"dynein, axonemal, heavy polypeptide 1"			8812413, 9256245	Standard	NM_015512		Approved	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11	uc011bef.2	Q9P2D7	OTTHUMG00000158378	ENST00000420323.2:c.3259C>T	3.37:g.52387428C>T	ENSP00000401514:p.Arg1087Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1R6|O00436|O15435|O95491|Q6ZU48|Q86YK7|Q8TEJ4|Q92863|Q9H8E6|Q9UFW6|Q9Y4Z7	Missense_Mutation	SNP	ENST00000420323.2	37	CCDS46842.1	.	.	.	.	.	.	.	.	.	.	C	22.0	4.233992	0.79688	.	.	ENSG00000114841	ENST00000420323	T	0.61742	0.08	5.53	3.54	0.40534	.	0.124980	0.31936	N	0.006825	T	0.72455	0.3462	M	0.78285	2.405	0.46096	D	0.998864	D;D	0.69078	0.995;0.997	P;P	0.61658	0.892;0.827	T	0.77305	-0.2637	10	0.72032	D	0.01	.	14.6023	0.68450	0.2298:0.7702:0.0:0.0	.	1087;1087	C9JXH6;Q9P2D7-3	.;.	C	1087	ENSP00000401514:R1087C	ENSP00000401514:R1087C	R	+	1	0	DNAH1	52362468	0.909000	0.30893	0.999000	0.59377	0.995000	0.86356	1.956000	0.40382	2.597000	0.87782	0.655000	0.94253	CGC		0.617	DNAH1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350816.1	NM_015512		T	52387428	C	T	52387428	3	4	626	1	0	0	0	0	1	0	0	0	4599	652	23	1	3333	1	DNAH1	3	52387428	Missense_Mutation	SNP	C	TCGA-KL-8327-01A-11D-2310-10		52387428	145635002	8	38461										
CORIN	10699	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr4	47667069	47667069	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	ctgcaaggagggatatgctcGcctgtattcacatcacattt	9	10	2	0	rs61760489		TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr4:47667069G>A	ENST00000273857.4	-	11	1568	c.1569C>T	c.(1567-1569)ggC>ggT	p.G523G	CORIN_ENST00000508498.1_Silent_p.G384G|CORIN_ENST00000502252.1_Silent_p.G456G|CORIN_ENST00000504584.1_Silent_p.G486G|CORIN_ENST00000505909.1_Silent_p.G486G	NM_006587.2	NP_006578.2	Q9Y5Q5	CORIN_HUMAN	corin, serine peptidase	523	FZ 2. {ECO:0000255|PROSITE- ProRule:PRU00090}.				female pregnancy (GO:0007565)|peptide hormone processing (GO:0016486)|proteolysis (GO:0006508)|regulation of blood pressure (GO:0008217)|regulation of renal sodium excretion (GO:0035813)|regulation of systemic arterial blood pressure by atrial natriuretic peptide (GO:0003050)	cell surface (GO:0009986)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	serine-type endopeptidase activity (GO:0004252)|serine-type exopeptidase activity (GO:0070008)			NS(2)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(18)|lung(39)|ovary(1)|prostate(3)|skin(4)|upper_aerodigestive_tract(2)	79						GGATATGCTCGCCTGTATTCA	0.423																																																0								G		0,4406		0,0,2203	81	82	82		1569	1.5	0.1	4	dbSNP_129	82	2,8598	2.2+/-6.3	0,2,4298	no	coding-synonymous	CORIN	NM_006587.2		0,2,6501	AA,AG,GG		0.0233,0.0,0.0154		523/1043	47667069	2,13004	2203	4300	6503	SO:0001819	synonymous_variant	10699			AF133845	CCDS3477.1, CCDS63958.1, CCDS75122.1	4p13-p12	2011-08-31	2005-08-17		ENSG00000145244	ENSG00000145244		"Serine peptidases / Transmembrane"	19012	protein-coding gene	gene with protein product		605236	"corin, serine protease"			10329693	Standard	NM_006587		Approved	PRSC, CRN, ATC2, Lrp4, TMPRSS10	uc003gxm.3	Q9Y5Q5	OTTHUMG00000099441	ENST00000273857.4:c.1569C>T	4.37:g.47667069G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B0ZBE3|Q2TBD2|Q4W5E5|Q4W5G6|Q9UHY2	Silent	SNP	ENST00000273857.4	37	CCDS3477.1																																																																																				0.423	CORIN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216906.2			A	47667069	G	A	47667069	2	1	626	1	0	0	0	0	0	0	0	1	3754	1074	38	1		1	CORIN	4	47667069	Silent	SNP	G	TCGA-KL-8327-01A-11D-2310-10		47667069	143487207	9	38462										
DSPP	1834	bcgsc.ca	37	chr4	88536234	88536239	+	In_Frame_Del	DEL	AGTGAT	AGTGAT	-													0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	cagtgatagcagcaacagcaGtgatagcagtgatagcagtg					rs555978267	byFrequency	TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	AGTGAT	AGTGAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr4:88536234_88536239delAGTGAT	ENST00000282478.7	+	4	2453_2458	c.2420_2425delAGTGAT	c.(2419-2427)aagtgatgc>agc	p.807_809K*C>S	DSPP_ENST00000399271.1_In_Frame_Del_p.807_809K*C>S|RP11-742B18.1_ENST00000506480.1_RNA			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	807	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		agcaacagcagtgatagcagtgatag	0.49																																																0																																										SO:0001651	inframe_deletion	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.2420_2425delAGTGAT	4.37:g.88536234_88536239delAGTGAT	ENSP00000282478:p.Lys807_Cys809delinsSer	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	In_Frame_Del	DEL	ENST00000282478.7	37	CCDS43248.1																																																																																				0.49	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		-	88536239	AGTGAT	-	88536234	7	5	626	1	0	1	0	1	0	0	0	0	4784	1029	36	0	2434	0	DSPP	4	88536234	In_Frame_Del	DEL	AGTGAT	TCGA-KL-8327-01A-11D-2310-10	40869165	88536234	102618042	10	38463										
PCDHB10	56126	bcgsc.ca	37	chr5	140573754	140573754	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	ggctcccccgcgctgagcagAgaggcgctggtgcgcgtgct	17	14	0	2	rs702386		TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr5:140573754A>C	ENST00000239446.4	+	1	1813	c.1629A>C	c.(1627-1629)agA>agC	p.R543S		NM_018930.3	NP_061753.1	Q9UN67	PCDBA_HUMAN	protocadherin beta 10	543	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.			R -> S (in Ref. 2; AAK51616). {ECO:0000305}.	calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(14)|lung(30)|ovary(4)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	76			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCTGAGCAGAGAGGCGCTGG	0.701																																																0													37	53	47					5																	140573754		2191	4291	6482	SO:0001583	missense	56126			AF152489	CCDS4252.1	5q31.3	2010-06-15			ENSG00000120324	ENSG00000120324		"Cadherins / Protocadherins : Clustered"	8681	other	protocadherin		606336				10380929	Standard	NM_018930		Approved		uc003lix.3	Q9UN67	OTTHUMG00000129626	ENST00000239446.4:c.1629A>C	5.37:g.140573754A>C	ENSP00000239446:p.Arg543Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q96T99	Missense_Mutation	SNP	ENST00000239446.4	37	CCDS4252.1	1085	0.4967948717948718	272	0.5528455284552846	171	0.4723756906077348	330	0.5769230769230769	312	0.41160949868073876	a	3.278	-0.147626	0.06627	.	.	ENSG00000120324	ENST00000239446	T	0.46063	0.88	3.53	3.53	0.40419	Cadherin (5);Cadherin-like (1);	.	.	.	.	T	0.00012	0.0000	N	0.00005	-3.295	0.50467	P	1.2299999999998423E-4	B	0.02656	0.0	B	0.01281	0.0	T	0.47636	-0.9102	8	0.02654	T	1	.	7.2252	0.26012	0.1715:0.7353:0.0:0.0932	rs702386;rs17844583	543	Q9UN67	PCDBA_HUMAN	S	543	ENSP00000239446:R543S	ENSP00000239446:R543S	R	+	3	2	PCDHB10	140553938	0.001000	0.12720	1.000000	0.80357	0.970000	0.65996	0.307000	0.19296	0.852000	0.35287	-0.233000	0.12211	AGA		0.701	PCDHB10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251821.1	NM_018930		C	140573754	A	C	140573754	3	2	626	1	0	0	0	0	1	0	0	0	11542	301	11	5	1631	5	PCDHB10	5	140573754	Missense_Mutation	SNP	A	TCGA-KL-8327-01A-11D-2310-10		140573754	40341506	11	38464										
CSF1R	1436	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	149460495	149460495	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	tggggggccatcccattccaCgctgccattgcccacacatc	9	17	0	0			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr5:149460495C>T	ENST00000286301.3	-	3	433	c.142G>A	c.(142-144)Gtg>Atg	p.V48M	CSF1R_ENST00000543093.1_Missense_Mutation_p.V48M	NM_005211.3	NP_005202.2	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor	48	Ig-like C2-type 1.				cell proliferation (GO:0008283)|cell-cell junction maintenance (GO:0045217)|cellular response to cytokine stimulus (GO:0071345)|cellular response to macrophage colony-stimulating factor stimulus (GO:0036006)|cytokine-mediated signaling pathway (GO:0019221)|hemopoiesis (GO:0030097)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|macrophage differentiation (GO:0030225)|mammary gland duct morphogenesis (GO:0060603)|monocyte differentiation (GO:0030224)|multicellular organismal development (GO:0007275)|osteoclast differentiation (GO:0030316)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphatidylinositol metabolic process (GO:0046488)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell migration (GO:0030335)|positive regulation of cell motility (GO:2000147)|positive regulation of cell proliferation (GO:0008284)|positive regulation of chemokine secretion (GO:0090197)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein serine/threonine kinase activity (GO:0071902)|positive regulation of protein tyrosine kinase activity (GO:0061098)|positive regulation of tyrosine phosphorylation of Stat3 protein (GO:0042517)|protein autophosphorylation (GO:0046777)|regulation of actin cytoskeleton reorganization (GO:2000249)|regulation of bone resorption (GO:0045124)|regulation of cell shape (GO:0008360)|ruffle organization (GO:0031529)|signal transduction (GO:0007165)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|cytokine binding (GO:0019955)|macrophage colony-stimulating factor receptor activity (GO:0005011)|protein homodimerization activity (GO:0042803)			NS(2)|breast(2)|central_nervous_system(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(38)|kidney(2)|large_intestine(6)|liver(3)|lung(23)|ovary(2)|pancreas(1)|prostate(3)|upper_aerodigestive_tract(2)|urinary_tract(3)	93			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	TCCCATTCCACGCTGCCATTG	0.597																																																0													126	88	101					5																	149460495		2203	4300	6503	SO:0001583	missense	1436			U63963	CCDS4302.1	5q32	2013-01-11	2008-08-01		ENSG00000182578	ENSG00000182578		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	2433	protein-coding gene	gene with protein product		164770	"McDonough feline sarcoma viral (v-fms) oncogene homolog"	FMS		1611909	Standard	NM_005211		Approved	C-FMS, CSFR, CD115	uc003lrm.3	P07333	OTTHUMG00000130050	ENST00000286301.3:c.142G>A	5.37:g.149460495C>T	ENSP00000286301:p.Val48Met	Somatic		WXS	Illumina HiSeq	Phase_I	B5A955|D3DQG2|Q6LDW5|Q6LDY4|Q86VW7	Missense_Mutation	SNP	ENST00000286301.3	37	CCDS4302.1	.	.	.	.	.	.	.	.	.	.	C	14.64	2.594279	0.46214	.	.	ENSG00000182578	ENST00000286301;ENST00000543093	T;T	0.35236	1.32;1.32	5.76	4.88	0.63580	Immunoglobulin subtype (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.49305	D	0.000146	T	0.60612	0.2282	M	0.88704	2.975	0.49051	D	0.999749	D;D;D	0.89917	1.0;1.0;0.998	P;P;B	0.60609	0.876;0.877;0.435	T	0.68138	-0.5488	10	0.87932	D	0	.	11.0419	0.47835	0.0:0.9135:0.0:0.0865	.	48;48;48	B4DG86;B5A955;P07333	.;.;CSF1R_HUMAN	M	48	ENSP00000286301:V48M;ENSP00000445282:V48M	ENSP00000286301:V48M	V	-	1	0	CSF1R	149440688	0.882000	0.30256	0.871000	0.34182	0.140000	0.21249	1.419000	0.34793	1.432000	0.47375	0.655000	0.94253	GTG		0.597	CSF1R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252329.2	NM_005211		T	149460495	C	T	149460495	3	4	626	1	0	0	0	0	1	0	0	0	3934	536	19	1	2856	1	CSF1R	5	149460495	Missense_Mutation	SNP	C	TCGA-KL-8327-01A-11D-2310-10	8886741	149460495	31454765	12	38465										
BEND6	221336	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	56846621	56846621	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	ttgagaaaatgcagaagatcGtgcagacagatgaaattacc	10	6	0	6	rs199964177	byFrequency	TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr6:56846621G>A	ENST00000370746.3	+	2	282	c.13G>A	c.(13-15)Gtg>Atg	p.V5M	BEND6_ENST00000370748.3_Missense_Mutation_p.V5M|BEND6_ENST00000370745.1_Missense_Mutation_p.V5M|BEND6_ENST00000370750.2_Missense_Mutation_p.V5M	NM_152731.2	NP_689944.2	Q5SZJ8	BEND6_HUMAN	BEN domain containing 6	5					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)		RNA polymerase II transcription corepressor activity (GO:0001106)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(2)|lung(8)|ovary(1)|prostate(1)|skin(1)	17						GCAGAAGATCGTGCAGACAGA	0.368													T|||	3	0.000599042	0.0	0.0	5008	,	,		16669	0.0		0.003	False		,,,				2504	0.0															0								T	MET/VAL	1,3705		0,1,1852	142	139	140		13	3.9	1	6		140	5,8171		0,5,4083	yes	missense	BEND6	NM_152731.2	21	0,6,5935	AA,AG,GG		0.0612,0.027,0.0505	benign	5/280	56846621	6,11876	1853	4088	5941	SO:0001583	missense	221336			AK054724	CCDS43476.1	6p12.1	2012-11-22	2008-10-03	2008-10-03	ENSG00000151917	ENSG00000151917		"BEN domain containing"	20871	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 65"	C6orf65			Standard	NM_152731		Approved	FLJ30162, bA203B9.1	uc010kab.3	Q5SZJ8	OTTHUMG00000014914	ENST00000370746.3:c.13G>A	6.37:g.56846621G>A	ENSP00000359782:p.Val5Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0W8|Q8N662|Q96NS6	Missense_Mutation	SNP	ENST00000370746.3	37	CCDS43476.1	0	0.0	0	0.0	0	0.0	0	0.0	0	0.0	T	19.58	3.854945	0.71719	2.7E-4	6.12E-4	ENSG00000151917	ENST00000322055;ENST00000370750;ENST00000370748;ENST00000370746;ENST00000370745	.	.	.	5.04	3.87	0.44632	.	0.780519	0.11165	N	0.592652	T	0.14787	0.0357	N	0.08118	0	0.80722	D	1	B	0.06786	0.001	B	0.06405	0.002	T	0.10753	-1.0616	9	0.66056	D	0.02	0.6866	5.0573	0.14539	0.0:0.1493:0.165:0.6857	.	5	Q5SZJ8	BEND6_HUMAN	M	5	.	ENSP00000322773:V5M	V	+	1	0	BEND6	56954580	1.000000	0.71417	0.998000	0.56505	0.957000	0.61999	1.487000	0.35540	0.869000	0.35703	-0.264000	0.10439	GTG		0.368	BEND6-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041032.4	NM_152731		A	56846621	G	A	56846621	3	1	626	1	0	0	0	0	1	0	0	0	1402	1145	40	1	15	1	BEND6	6	56846621	Missense_Mutation	SNP	G	TCGA-KL-8327-01A-11D-2310-10		56846621	114268446	13	38466										
NT5DC1	221294	broad.mit.edu	37	chr6	116560197	116560197	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	ttcagttttgggactggaaaAtacagaagactccttggttt	10	6	1	2			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr6:116560197A>G	ENST00000319550.4	+	11	1245	c.1163A>G	c.(1162-1164)aAt>aGt	p.N388S		NM_152729.2	NP_689942.2	Q5TFE4	NT5D1_HUMAN	5'-nucleotidase domain containing 1	388							hydrolase activity (GO:0016787)|metal ion binding (GO:0046872)			large_intestine(2)|lung(2)|prostate(2)|skin(1)|stomach(1)	8		all_cancers(87;0.00367)|all_epithelial(87;0.00449)|Colorectal(196;0.0469)		all cancers(137;0.0327)|OV - Ovarian serous cystadenocarcinoma(136;0.0445)|GBM - Glioblastoma multiforme(226;0.0719)|Epithelial(106;0.112)		GGACTGGAAAATACAGAAGAC	0.363																																					Colon(128;1440 1664 38087 41475 42869)											0													88	94	92					6																	116560197		2203	4300	6503	SO:0001583	missense	221294			BC015138	CCDS5104.1	6q22.31	2008-02-05	2006-01-27	2006-01-27	ENSG00000178425	ENSG00000178425			21556	protein-coding gene	gene with protein product			"5'-nucleotidase, cytosolic II-like 1"	NT5C2L1			Standard	NM_152729		Approved	dJ486I3.1, MGC24302	uc003pwj.3	Q5TFE4	OTTHUMG00000015428	ENST00000319550.4:c.1163A>G	6.37:g.116560197A>G	ENSP00000326858:p.Asn388Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RND9|B3KR35|Q6XYD5	Missense_Mutation	SNP	ENST00000319550.4	37	CCDS5104.1	.	.	.	.	.	.	.	.	.	.	A	8.876	0.950369	0.18431	.	.	ENSG00000178425	ENST00000319550	T	0.21361	2.01	5.05	2.56	0.30785	HAD-like domain (1);	0.552002	0.21299	N	0.076821	T	0.06371	0.0164	L	0.55103	1.725	0.28488	N	0.914632	B;B;B	0.15473	0.013;0.003;0.003	B;B;B	0.12156	0.007;0.003;0.003	T	0.33727	-0.9857	10	0.30078	T	0.28	-11.7868	5.3704	0.16136	0.6976:0.1474:0.1549:0.0	.	338;388;388	B3KR35;A8K2Z3;Q5TFE4	.;.;NT5D1_HUMAN	S	388	ENSP00000326858:N388S	ENSP00000326858:N388S	N	+	2	0	NT5DC1	116666890	0.985000	0.35326	0.306000	0.25113	0.675000	0.39556	1.437000	0.34991	0.332000	0.23536	0.533000	0.62120	AAT		0.363	NT5DC1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041931.3	NM_152729		G	116560197	A	G	116560197	3	3	626	1	0	0	0	0	1	0	0	0	10697	101	4	3	1205	3	NT5DC1	6	116560197	Missense_Mutation	SNP	A	TCGA-KL-8327-01A-11D-2310-10	59713576	116560197	54554870	14	38467										
TNRC18	84629	mdanderson.org	37	chr7	5352659	5352659	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	gaggaggaggaggaggaggaGgaggatgaggaggaggagga	26	0	0	1	rs138591330	byFrequency	TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr7:5352659G>T	ENST00000430969.1	-	27	8211	c.7863C>A	c.(7861-7863)tcC>tcA	p.S2621S	TNRC18_ENST00000399537.4_Silent_p.S2621S	NM_001080495.2	NP_001073964.2	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2621	Ser-rich.						chromatin binding (GO:0003682)			central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(8)	11		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		aggaggaggaggaggatgagg	0.652													G|||	2190	0.4373	0.5076	0.5274	5008	,	,		5586	0.246		0.508	False		,,,				2504	0.4029															0													5	8	7					7																	5352659		1382	3171	4553	SO:0001819	synonymous_variant	84629			U80753	CCDS47534.1	7p22.1	2012-04-17			ENSG00000182095	ENSG00000182095		"Trinucleotide (CAG) repeat containing"	11962	protein-coding gene	gene with protein product						9225980	Standard	NM_001080495		Approved	CAGL79, TNRC18A, KIAA1856	uc003soi.4	O15417	OTTHUMG00000151831	ENST00000430969.1:c.7863C>A	7.37:g.5352659G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MX41|Q96JH1|Q96K91	Silent	SNP	ENST00000430969.1	37	CCDS47534.1	760	0.34798534798534797	201	0.40853658536585363	151	0.4171270718232044	104	0.18181818181818182	304	0.40105540897097625	N	0.009	-1.858244	0.00558	.	.	ENSG00000182095	ENST00000399544	.	.	.	4.17	-1.59	0.08453	.	0.589271	0.12916	N	0.428578	T	0.00012	0.0000	.	.	.	0.34255	P	0.32071700000000003	.	.	.	.	.	.	T	0.40776	-0.9545	5	0.87932	D	0	.	4.5564	0.12138	0.3329:0.0:0.5125:0.1546	.	.	.	.	H	1134	.	ENSP00000382459:P1134H	P	-	2	0	TNRC18	5319185	1.000000	0.71417	0.029000	0.17559	0.001000	0.01503	0.742000	0.26216	-0.333000	0.08476	-1.713000	0.00713	CCT		0.652	TNRC18-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding				T	5352659	G	T	5352659	2	4	626	1	0	0	0	0	0	0	0	1	16351	987	35	4		4	TNRC18	7	5352659	Silent	SNP	G	TCGA-KL-8327-01A-11D-2310-10		5352659	153786004	15	38468										
FAM86B1	85002	mdanderson.org	37	chr8	12043930	12043930	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	tgctacgtcccagtccagctGggccactgtcaccctggggc	12	16	1	0			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr8:12043930G>A	ENST00000448228.2	-	5	620	c.571C>T	c.(571-573)Cag>Tag	p.Q191*	FAM86B1_ENST00000533852.2_Nonsense_Mutation_p.Q225*|FAM86B1_ENST00000321602.8_Intron|FAM86B1_ENST00000534520.1_Intron	NM_001083537.1	NP_001077006.1	Q8N7N1	F86B1_HUMAN	family with sequence similarity 86, member B1	191										kidney(1)|prostate(1)|stomach(1)	3			STAD - Stomach adenocarcinoma(15;0.033)	COAD - Colon adenocarcinoma(149;0.0965)		CAGTCCAGCTGGGCCACTGTC	0.592																																																0													7	8	8					8																	12043930		1221	2229	3450	SO:0001587	stop_gained	85002			BC007983	CCDS59512.1	8p23.1	2014-02-12	2005-08-19		ENSG00000186523	ENSG00000186523			28268	protein-coding gene	gene with protein product						12477932	Standard	NM_001083537		Approved	MGC16279	uc010lse.3	Q8N7N1	OTTHUMG00000165298	ENST00000448228.2:c.571C>T	8.37:g.12043930G>A	ENSP00000407067:p.Gln191*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000448228.2	37	CCDS59512.1	.	.	.	.	.	.	.	.	.	.	-	16.62	3.173813	0.57692	.	.	ENSG00000186523	ENST00000431227;ENST00000448228;ENST00000526708	.	.	.	1.17	0.238	0.15480	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.30854	T	0.27	.	2.6938	0.05128	0.2202:0.3077:0.4722:0.0	.	.	.	.	X	225;191;225	.	ENSP00000444227:Q225X	Q	-	1	0	FAM86B1	12081339	1.000000	0.71417	0.887000	0.34795	0.409000	0.31022	1.640000	0.37186	0.068000	0.16574	0.173000	0.16961	CAG		0.592	FAM86B1-016	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000383317.1	NM_032916		A	12043930	G	A	12043930	4	1	626	1	0	0	0	0	0	1	0	0	5651	1357	47	2	331	2	FAM86B1	8	12043930	Nonsense_Mutation	SNP	G	TCGA-KL-8327-01A-11D-2310-10		12043930	134320092	16	38469										
SNX31	169166	broad.mit.edu	37	chr8	101661717	101661717	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	cgtcggaccgctgctgggacAccgggatacagaaatgcatc	13	12	0	1			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr8:101661717A>G	ENST00000311812.2	-	1	176	c.26T>C	c.(25-27)gTg>gCg	p.V9A		NM_152628.3	NP_689841.3	Q8N9S9	SNX31_HUMAN	sorting nexin 31	9	PX. {ECO:0000255|PROSITE- ProRule:PRU00147}.				protein transport (GO:0015031)	protein complex (GO:0043234)	phosphatidylinositol binding (GO:0035091)			NS(1)|breast(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(12)|prostate(1)|skin(3)|urinary_tract(1)	26	all_cancers(14;4.01e-05)|all_epithelial(15;1.26e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;1.21e-11)|all cancers(13;2.62e-09)|OV - Ovarian serous cystadenocarcinoma(57;3.22e-06)|STAD - Stomach adenocarcinoma(118;0.206)			CTGCTGGGACACCGGGATACA	0.692																																																0													11	14	13					8																	101661717		2094	4210	6304	SO:0001583	missense	169166				CCDS6288.1	8q22.3	2011-05-03			ENSG00000174226	ENSG00000174226		"Sorting nexins"	28605	protein-coding gene	gene with protein product						16782399	Standard	NM_152628		Approved	MGC39715	uc003yjr.3	Q8N9S9	OTTHUMG00000164725	ENST00000311812.2:c.26T>C	8.37:g.101661717A>G	ENSP00000312368:p.Val9Ala	Somatic		WXS	Illumina HiSeq	Phase_I	C9J6L9|Q8N0U9	Missense_Mutation	SNP	ENST00000311812.2	37	CCDS6288.1	.	.	.	.	.	.	.	.	.	.	A	18.00	3.526544	0.64860	.	.	ENSG00000174226	ENST00000311812	T	0.34859	1.34	4.5	3.29	0.37713	Phox homologous domain (4);	0.000000	0.53938	D	0.000051	T	0.42765	0.1217	L	0.57536	1.79	0.80722	D	1	D	0.61080	0.989	P	0.54815	0.761	T	0.17776	-1.0358	10	0.24483	T	0.36	-14.316	8.7769	0.34767	0.8085:0.1915:0.0:0.0	.	9	Q8N9S9	SNX31_HUMAN	A	9	ENSP00000312368:V9A	ENSP00000312368:V9A	V	-	2	0	SNX31	101730893	0.985000	0.35326	1.000000	0.80357	0.984000	0.73092	2.194000	0.42668	0.554000	0.29061	0.379000	0.24179	GTG		0.692	SNX31-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379910.1	NM_152628		G	101661717	A	G	101661717	3	3	626	1	0	0	0	0	1	0	0	0	14914	159	6	3	1352	3	SNX31	8	101661717	Missense_Mutation	SNP	A	TCGA-KL-8327-01A-11D-2310-10	89617787	101661717	44702305	17	38470										
PPRC1	23082	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr10	103899427	103899427	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	tagagactagttctgccttgCagctgcttatgcctacactg	9	11	1	1			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr10:103899427C>A	ENST00000278070.2	+	5	1201	c.1162C>A	c.(1162-1164)Cag>Aag	p.Q388K	PPRC1_ENST00000370012.1_5'Flank|PPRC1_ENST00000413464.2_Missense_Mutation_p.Q388K	NM_015062.3	NP_055877.3	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor gamma, coactivator-related 1	388					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			central_nervous_system(1)|cervix(1)|endometrium(9)|kidney(5)|large_intestine(10)|lung(19)|ovary(1)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	56		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		TTCTGCCTTGCAGCTGCTTAT	0.562																																																0													124	132	130					10																	103899427		2203	4300	6503	SO:0001583	missense	23082			AF325193	CCDS7529.1, CCDS73186.1	10q24.32	2013-02-12	2006-10-17		ENSG00000148840	ENSG00000148840		"RNA binding motif (RRM) containing"	30025	protein-coding gene	gene with protein product			"peroxisome proliferative activated receptor, gamma, coactivator-related 1"			9628581, 11340167	Standard	XM_005269656		Approved	PRC, KIAA0595, MGC74642	uc001kum.3	Q5VV67	OTTHUMG00000018948	ENST00000278070.2:c.1162C>A	10.37:g.103899427C>A	ENSP00000278070:p.Gln388Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VV66|Q6P3U5|Q6P3W1|Q76N31|Q9BUJ3|Q9BZE5|Q9Y4E0	Missense_Mutation	SNP	ENST00000278070.2	37	CCDS7529.1	.	.	.	.	.	.	.	.	.	.	C	9.753	1.168029	0.21621	.	.	ENSG00000148840	ENST00000278070;ENST00000413464	T;T	0.28666	1.6;1.6	5.93	4.01	0.46588	.	0.522486	0.19991	N	0.101562	T	0.16171	0.0389	N	0.17082	0.46	0.09310	N	0.999999	B;B;B	0.10296	0.003;0.003;0.002	B;B;B	0.09377	0.002;0.004;0.002	T	0.28618	-1.0038	10	0.09084	T	0.74	.	9.4455	0.38695	0.1607:0.5575:0.2817:0.0	.	388;268;388	E7EVG6;Q5VV67-2;Q5VV67	.;.;PPRC1_HUMAN	K	388	ENSP00000278070:Q388K;ENSP00000399743:Q388K	ENSP00000278070:Q388K	Q	+	1	0	PPRC1	103889417	1.000000	0.71417	1.000000	0.80357	0.660000	0.38997	0.680000	0.25306	0.771000	0.33359	0.555000	0.69702	CAG		0.562	PPRC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050021.1	NM_015062		A	103899427	C	A	103899427	3	1	626	1	0	0	0	0	1	0	0	0	12420	711	25	4	1180	4	PPRC1	10	103899427	Missense_Mutation	SNP	C	TCGA-KL-8327-01A-11D-2310-10		103899427	31635320	18	38471										
BTBD16	118663	ucsc.edu	37	chr10	124090744	124090744	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	tcttcccagagtcatggctcGaccaggttacagtcaaccat	8	13	3	1	rs201203665		TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr10:124090744G>C	ENST00000260723.4	+	12	1308	c.1057G>C	c.(1057-1059)Gac>Cac	p.D353H	BTBD16_ENST00000368994.2_Missense_Mutation_p.D354H	NM_144587.2	NP_653188.2	Q32M84	BTBDG_HUMAN	BTB (POZ) domain containing 16	353										breast(1)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(5)|lung(3)|skin(2)|stomach(1)|urinary_tract(1)	15		all_neural(114;0.107)|Lung NSC(174;0.175)|all_lung(145;0.222)|Breast(234;0.238)				GTCATGGCTCGACCAGGTTAC	0.468																																																0													102	92	96					10																	124090744		2203	4300	6503	SO:0001583	missense	118663			AK058088	CCDS31301.1	10q26.13	2013-01-24	2006-07-04	2006-07-04	ENSG00000138152	ENSG00000138152		"BTB/POZ domain containing"	26340	protein-coding gene	gene with protein product			"chromosome 10 open reading frame 87"	C10orf87			Standard	NM_144587		Approved	FLJ25359, Em:AC061711.1	uc001lgc.1	Q32M84	OTTHUMG00000019182	ENST00000260723.4:c.1057G>C	10.37:g.124090744G>C	ENSP00000260723:p.Asp353His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NM63|Q4VXL1|Q96LN0	Missense_Mutation	SNP	ENST00000260723.4	37	CCDS31301.1	.	.	.	.	.	.	.	.	.	.	G	0.020	-1.438838	0.01098	.	.	ENSG00000138152	ENST00000260723;ENST00000368994	T;T	0.16597	2.33;2.33	5.98	-11.7	0.00046	.	1.720820	0.02817	N	0.125135	T	0.05135	0.0137	N	0.02011	-0.69	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.19321	-1.0309	10	0.15066	T	0.55	-2.0894	10.4818	0.44698	0.5555:0.2319:0.2126:0.0	.	354;353	Q32M84-2;Q32M84	.;BTBDG_HUMAN	H	353;354	ENSP00000260723:D353H;ENSP00000357990:D354H	ENSP00000260723:D353H	D	+	1	0	BTBD16	124080734	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-1.195000	0.03043	-3.375000	0.00176	-2.827000	0.00107	GAC		0.468	BTBD16-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000050780.3	NM_144587		C	124090744	G	C	124090744	3	2	626	1	0	0	0	0	1	0	0	0	1543	1058	37	4	1099	4	BTBD16	10	124090744	Missense_Mutation	SNP	G	TCGA-KL-8327-01A-11D-2310-10	20191317	124090744	11444003	19	38472										
MRPL49	740	broad.mit.edu;bcgsc.ca	37	chr11	64889873	64889873	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	gatggagaaccggtgtccagCggggctgcgggctacggctg	19	10	0	1			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr11:64889873C>T	ENST00000279242.2	+	1	74	c.55C>T	c.(55-57)Cgg>Tgg	p.R19W	MRPL49_ENST00000524482.1_Intron|FAU_ENST00000529259.1_5'Flank|FAU_ENST00000527548.1_5'Flank|MRPL49_ENST00000534078.1_Missense_Mutation_p.R19W|FAU_ENST00000531743.1_5'Flank|MRPL49_ENST00000526171.1_Missense_Mutation_p.R19W|FAU_ENST00000434372.2_5'Flank|FAU_ENST00000529639.1_5'UTR|FAU_ENST00000525297.1_5'Flank|MRPL49_ENST00000531705.1_Missense_Mutation_p.R19W|FAU_ENST00000279259.3_5'Flank	NM_004927.3	NP_004918.1	Q13405	RM49_HUMAN	mitochondrial ribosomal protein L49	19					translation (GO:0006412)	mitochondrial ribosome (GO:0005761)	structural constituent of ribosome (GO:0003735)			endometrium(1)|ovary(1)	2						CGGTGTCCAGCGGGGCTGCGG	0.612																																																0													85	68	74					11																	64889873		2201	4297	6498	SO:0001583	missense	740				CCDS8096.1	11q13.1	2012-11-14	2001-10-16	2001-10-19	ENSG00000149792	ENSG00000149792		"Mitochondrial ribosomal proteins / large subunits"	1176	protein-coding gene	gene with protein product	"neighbor of FAU", "next to FAU"	606866	"chromosome 11 open reading frame 4"	C11orf4		8786148	Standard	NM_004927		Approved	NOF, NOF1, L49mt	uc001oda.2	Q13405	OTTHUMG00000165608	ENST00000279242.2:c.55C>T	11.37:g.64889873C>T	ENSP00000279242:p.Arg19Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4G6	Missense_Mutation	SNP	ENST00000279242.2	37	CCDS8096.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	7.263|7.263	0.605513|0.605513	0.14002|0.14002	.|.	.|.	ENSG00000149792|ENSG00000149792	ENST00000533943|ENST00000534078;ENST00000526171;ENST00000279242;ENST00000531705	.|T;T;T;T	.|0.55760	.|0.5;0.85;0.91;0.88	4.69|4.69	1.76|1.76	0.24704|0.24704	.|.	.|0.798202	.|0.11169	.|N	.|0.592275	T|T	0.35624|0.35624	0.0938|0.0938	N|N	0.22421|0.22421	0.69|0.69	0.09310|0.09310	N|N	1|1	.|B	.|0.06786	.|0.001	.|B	.|0.01281	.|0.0	T|T	0.23297|0.23297	-1.0192|-1.0192	5|10	.|0.44086	.|T	.|0.13	-6.5055|-6.5055	6.8572|6.8572	0.24048|0.24048	0.0:0.7067:0.0:0.2933|0.0:0.7067:0.0:0.2933	.|.	.|19	.|Q13405	.|RM49_HUMAN	V|W	16|19	.|ENSP00000434222:R19W;ENSP00000437177:R19W;ENSP00000279242:R19W;ENSP00000436740:R19W	.|ENSP00000279242:R19W	A|R	+|+	2|1	0|2	MRPL49|MRPL49	64646449|64646449	0.000000|0.000000	0.05858|0.05858	0.002000|0.002000	0.10522|0.10522	0.194000|0.194000	0.23727|0.23727	-0.182000|-0.182000	0.09726|0.09726	0.289000|0.289000	0.22422|0.22422	0.563000|0.563000	0.77884|0.77884	GCG|CGG		0.612	MRPL49-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385293.1	NM_004927		T	64889873	C	T	64889873	3	4	626	1	0	0	0	0	1	0	0	0	9820	759	27	1	57	1	MRPL49	11	64889873	Missense_Mutation	SNP	C	TCGA-KL-8327-01A-11D-2310-10		64889873	70116643	20	38473										
CACNA1C	775	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	2788865	2788865	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	gtcgcctccctcgccccgccGgctaccccagcacggtcagc	10	22	1	0			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr12:2788865G>A	ENST00000347598.4	+	44	5491	c.5491G>A	c.(5491-5493)Ggc>Agc	p.G1831S	CACNA1C_ENST00000399629.1_Missense_Mutation_p.G1800S|CACNA1C_ENST00000335762.5_Missense_Mutation_p.G1808S|CACNA1C_ENST00000399606.1_Missense_Mutation_p.G1803S|CACNA1C_ENST00000399638.1_Missense_Mutation_p.G1811S|CACNA1C_ENST00000399634.1_Missense_Mutation_p.G1783S|CACNA1C_ENST00000399597.1_Missense_Mutation_p.G1783S|CACNA1C_ENST00000406454.3_Missense_Mutation_p.G1783S|CACNA1C_ENST00000399601.1_Missense_Mutation_p.G1783S|CACNA1C_ENST00000399621.1_Missense_Mutation_p.G1802S|CACNA1C_ENST00000399644.1_Missense_Mutation_p.G1783S|CACNA1C_ENST00000399591.1_Missense_Mutation_p.G1791S|CACNA1C_ENST00000399649.1_Missense_Mutation_p.G1789S|CACNA1C_ENST00000344100.3_Missense_Mutation_p.G1824S|CACNA1C_ENST00000402845.3_Missense_Mutation_p.G1802S|CACNA1C_ENST00000327702.7_Missense_Mutation_p.G1783S|CACNA1C_ENST00000399617.1_Missense_Mutation_p.G1783S|CACNA1C_ENST00000399641.1_Missense_Mutation_p.G1783S|CACNA1C_ENST00000399655.1_Missense_Mutation_p.G1783S|CACNA1C_ENST00000399637.1_Missense_Mutation_p.G1802S|CACNA1C_ENST00000399595.1_Missense_Mutation_p.G1791S|CACNA1C_ENST00000399603.1_Missense_Mutation_p.G1783S|CACNA1C-AS1_ENST00000501371.1_RNA	NM_001129827.1|NM_199460.2	NP_001123299.1|NP_955630.2	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type, alpha 1C subunit	1831					adult walking behavior (GO:0007628)|axon guidance (GO:0007411)|calcium ion import (GO:0070509)|calcium ion transport into cytosol (GO:0060402)|calcium ion-dependent exocytosis (GO:0017156)|calcium-mediated signaling using extracellular calcium source (GO:0035585)|cell communication by electrical coupling involved in cardiac conduction (GO:0086064)|energy reserve metabolic process (GO:0006112)|glucose homeostasis (GO:0042593)|growth hormone secretion (GO:0030252)|insulin secretion (GO:0030073)|membrane depolarization during action potential (GO:0086010)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|regulation of blood pressure (GO:0008217)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of insulin secretion (GO:0050796)|regulation of organ growth (GO:0046620)|regulation of vasoconstriction (GO:0019229)|small molecule metabolic process (GO:0044281)|smooth muscle contraction involved in micturition (GO:0060083)|synaptic transmission (GO:0007268)|visual learning (GO:0008542)	caveolar macromolecular signaling complex (GO:0002095)|cytoplasm (GO:0005737)|dendritic shaft (GO:0043198)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|voltage-gated calcium channel complex (GO:0005891)|Z disc (GO:0030018)	alpha-actinin binding (GO:0051393)|calmodulin binding (GO:0005516)|high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)			NS(3)|breast(4)|central_nervous_system(4)|cervix(2)|endometrium(12)|kidney(9)|large_intestine(20)|lung(55)|ovary(10)|pancreas(1)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)	132			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Amlodipine(DB00381)|Cinnarizine(DB00568)|Clevidipine(DB04920)|Dronedarone(DB04855)|Drotaverine(DB06751)|Felodipine(DB01023)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Verapamil(DB00661)	TCGCCCCGCCGGCTACCCCAG	0.677																																																0													41	49	46					12																	2788865		2054	4198	6252	SO:0001583	missense	775			AF070589	CCDS44787.1, CCDS44788.1, CCDS44789.1, CCDS44790.1, CCDS44791.1, CCDS44792.1, CCDS44793.1, CCDS44794.1, CCDS44795.1, CCDS44796.1, CCDS44797.1, CCDS44798.1, CCDS44799.1, CCDS44800.1, CCDS44801.1, CCDS53733.1, CCDS53734.1, CCDS53735.1, CCDS53736.1	12p13.3	2014-09-17			ENSG00000151067	ENSG00000151067		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1390	protein-coding gene	gene with protein product		114205		CCHL1A1, CACNL1A1		1650913, 16382099	Standard	NM_001129832		Approved	Cav1.2, CACH2, CACN2, TS, LQT8	uc001qjy.3	Q13936	OTTHUMG00000150243	ENST00000347598.4:c.5491G>A	12.37:g.2788865G>A	ENSP00000266376:p.Gly1831Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RUT3|E9PDJ0|Q13917|Q13918|Q13919|Q13920|Q13921|Q13922|Q13923|Q13924|Q13925|Q13926|Q13927|Q13928|Q13929|Q13930|Q13932|Q13933|Q14743|Q14744|Q15877|Q4VMI7|Q4VMI8|Q4VMI9|Q6PKM7|Q8N6C0|Q99025|Q99241|Q99875	Missense_Mutation	SNP	ENST00000347598.4	37	CCDS44788.1	.	.	.	.	.	.	.	.	.	.	G	5.139	0.211285	0.09757	.	.	ENSG00000151067	ENST00000335762;ENST00000399655;ENST00000399644;ENST00000399638;ENST00000399597;ENST00000399621;ENST00000399637;ENST00000399591;ENST00000399641;ENST00000347598;ENST00000399606;ENST00000399601;ENST00000344100;ENST00000399629;ENST00000327702;ENST00000399649;ENST00000402845;ENST00000399603;ENST00000399634;ENST00000399617;ENST00000406454;ENST00000399595;ENST00000322367	D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D	0.95949	-3.8;-3.79;-3.79;-3.8;-3.79;-3.81;-3.7;-3.75;-3.79;-3.73;-3.72;-3.79;-3.85;-3.72;-3.63;-3.85;-3.8;-3.79;-3.78;-3.73;-3.78;-3.86	5.06	3.19	0.36642	.	2.241760	0.01598	N	0.021892	D	0.92051	0.7481	L	0.41573	1.285	0.26335	N	0.977457	B;P;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B	0.50710	0.003;0.938;0.0;0.004;0.005;0.004;0.003;0.008;0.001;0.003;0.004;0.0;0.003;0.012;0.001;0.003;0.003;0.001;0.004;0.003;0.001;0.004;0.004;0.0;0.001	B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B;B	0.43225	0.002;0.412;0.001;0.003;0.01;0.005;0.002;0.01;0.001;0.002;0.006;0.001;0.003;0.01;0.001;0.004;0.003;0.005;0.006;0.004;0.001;0.007;0.007;0.001;0.002	T	0.82649	-0.0353	10	0.15952	T	0.53	.	3.0471	0.06157	0.1067:0.3219:0.4061:0.1652	.	474;1824;1780;1831;1783;1802;1783;1800;1811;1783;1803;1783;1743;1831;1783;1783;1783;1791;1789;1791;1772;1802;1802;1783;1783	B7Z7Z5;Q13936-14;Q13936-35;Q13936;Q13936-33;Q13936-13;Q13936-22;Q13936-32;Q13936-31;Q13936-21;Q13936-30;Q13936-23;Q13936-28;Q13936-11;E9PDJ1;E9PDJ0;F5GY28;Q13936-25;Q13936-15;Q13936-29;Q13936-19;Q13936-24;Q13936-27;Q13936-20;Q13936-12	.;.;.;CAC1C_HUMAN;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.	S	1808;1783;1783;1811;1783;1802;1802;1791;1783;1831;1803;1783;1824;1800;1783;1789;1802;1783;1783;1783;1783;1791;1613	ENSP00000336982:G1808S;ENSP00000382563:G1783S;ENSP00000382552:G1783S;ENSP00000382547:G1811S;ENSP00000382506:G1783S;ENSP00000382530:G1802S;ENSP00000382546:G1802S;ENSP00000382500:G1791S;ENSP00000382549:G1783S;ENSP00000266376:G1831S;ENSP00000382515:G1803S;ENSP00000382510:G1783S;ENSP00000341092:G1824S;ENSP00000382537:G1800S;ENSP00000329877:G1783S;ENSP00000382557:G1789S;ENSP00000385724:G1802S;ENSP00000382512:G1783S;ENSP00000382542:G1783S;ENSP00000382526:G1783S;ENSP00000385896:G1783S;ENSP00000382504:G1791S	ENSP00000323129:G1613S	G	+	1	0	CACNA1C	2659126	0.981000	0.34729	0.048000	0.18961	0.022000	0.10575	2.143000	0.42187	0.506000	0.28125	0.305000	0.20034	GGC		0.677	CACNA1C-017	KNOWN	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000317035.1	NM_000719		A	2788865	G	A	2788865	3	1	626	1	0	0	0	0	1	0	0	0	2542	1116	39	1	5896	1	CACNA1C	12	2788865	Missense_Mutation	SNP	G	TCGA-KL-8327-01A-11D-2310-10		2788865	131063030	21	38474										
GRIN2B	2904	broad.mit.edu;bcgsc.ca	37	chr12	13906390	13906390	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	aattccatctctcactctggCggggaggccatagtcccatt	9	13	3	0			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr12:13906390C>T	ENST00000609686.1	-	3	1080	c.871G>A	c.(871-873)Gcc>Acc	p.A291T		NM_000834.3	NP_000825.2	Q13224	NMDE2_HUMAN	glutamate receptor, ionotropic, N-methyl D-aspartate 2B	291					behavioral fear response (GO:0001662)|behavioral response to pain (GO:0048266)|detection of mechanical stimulus involved in sensory perception of pain (GO:0050966)|glutamate receptor signaling pathway (GO:0007215)|in utero embryonic development (GO:0001701)|ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|learning (GO:0007612)|learning or memory (GO:0007611)|memory (GO:0007613)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of synaptic plasticity (GO:0048167)|response to ethanol (GO:0045471)|sensory organ development (GO:0007423)|startle response (GO:0001964)|suckling behavior (GO:0001967)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transport (GO:0006810)	cell junction (GO:0030054)|cell surface (GO:0009986)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|N-methyl-D-aspartate selective glutamate receptor complex (GO:0017146)|neuron projection (GO:0043005)|neuronal postsynaptic density (GO:0097481)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|synaptic vesicle (GO:0008021)	calcium channel activity (GO:0005262)|extracellular-glutamate-gated ion channel activity (GO:0005234)|glycine binding (GO:0016594)|N-methyl-D-aspartate selective glutamate receptor activity (GO:0004972)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|central_nervous_system(5)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(3)|kidney(12)|large_intestine(12)|liver(1)|lung(70)|ovary(4)|prostate(6)|skin(10)|upper_aerodigestive_tract(5)|urinary_tract(1)	143					Acamprosate(DB00659)|Acetylcysteine(DB06151)|Atomoxetine(DB00289)|Felbamate(DB00949)|Gabapentin(DB00996)|Haloperidol(DB00502)|Ketobemidone(DB06738)|Memantine(DB01043)|Milnacipran(DB04896)|Pentobarbital(DB00312)|Pethidine(DB00454)|Phenobarbital(DB01174)|Secobarbital(DB00418)	CTCACTCTGGCGGGGAGGCCA	0.537																																																0													98	87	91					12																	13906390		2203	4300	6503	SO:0001583	missense	2904				CCDS8662.1	12p13.1	2014-07-16			ENSG00000273079			"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4586	protein-coding gene	gene with protein product		138252		NMDAR2B		1350383	Standard	NM_000834		Approved	GluN2B	uc001rbt.2	Q13224	OTTHUMG00000137373	ENST00000609686.1:c.871G>A	12.37:g.13906390C>T	ENSP00000477455:p.Ala291Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q12919|Q13220|Q13225|Q14CU4|Q9UM56	Missense_Mutation	SNP	ENST00000609686.1	37	CCDS8662.1	.	.	.	.	.	.	.	.	.	.	C	15.92	2.974696	0.53720	.	.	ENSG00000150086	ENST00000279593	T	0.04970	3.52	5.86	5.86	0.93980	.	0.000000	0.85682	D	0.000000	T	0.07413	0.0187	L	0.39245	1.2	0.80722	D	1	P	0.35050	0.482	B	0.24701	0.055	T	0.31998	-0.9923	10	0.34782	T	0.22	.	20.1865	0.98220	0.0:1.0:0.0:0.0	.	291	Q13224	NMDE2_HUMAN	T	291	ENSP00000279593:A291T	ENSP00000279593:A291T	A	-	1	0	GRIN2B	13797657	1.000000	0.71417	1.000000	0.80357	0.972000	0.66771	4.627000	0.61276	2.775000	0.95449	0.655000	0.94253	GCC		0.537	GRIN2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268014.2			T	13906390	C	T	13906390	3	4	626	1	0	0	0	0	1	0	0	0	6787	768	27	1	3627	1	GRIN2B	12	13906390	Missense_Mutation	SNP	C	TCGA-KL-8327-01A-11D-2310-10	11117525	13906390	119945505	22	38475										
CSAD	51380	ucsc.edu	37	chr12	53565216	53565216	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	ttacagcatacatgttggagAtggagccacctgtcacaggg	12	9	1	1			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr12:53565216A>G	ENST00000444623.1	-	8	728	c.461T>C	c.(460-462)aTc>aCc	p.I154T	CSAD_ENST00000267085.4_Missense_Mutation_p.I181T|CSAD_ENST00000453446.2_Missense_Mutation_p.I154T|CSAD_ENST00000379843.3_Intron|CSAD_ENST00000491654.1_5'Flank|CSAD_ENST00000542115.1_3'UTR|CSAD_ENST00000379846.1_Intron	NM_001244705.1	NP_001231634.1	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	154					cellular nitrogen compound metabolic process (GO:0034641)|small molecule metabolic process (GO:0044281)|sulfur amino acid catabolic process (GO:0000098)|sulfur amino acid metabolic process (GO:0000096)|taurine biosynthetic process (GO:0042412)		pyridoxal phosphate binding (GO:0030170)|sulfinoalanine decarboxylase activity (GO:0004782)			kidney(1)|large_intestine(2)|lung(6)|ovary(1)|prostate(4)	14					L-Cysteine(DB00151)	CATGTTGGAGATGGAGCCACC	0.597																																					Ovarian(109;252 1546 16882 28524 44645)											0													45	43	44					12																	53565216		2203	4300	6503	SO:0001583	missense	51380			AB044561	CCDS8848.2, CCDS58235.1	12q13.11-q14.3	2008-08-04			ENSG00000139631	ENSG00000139631			18966	protein-coding gene	gene with protein product	"P-selectin cytoplasmic tail-associated protein"					15489334	Standard	NM_015989		Approved	PCAP, CSD	uc001sbz.3	Q9Y600	OTTHUMG00000048076	ENST00000444623.1:c.461T>C	12.37:g.53565216A>G	ENSP00000415485:p.Ile154Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0U4|Q4QQH9|Q9UNJ5|Q9Y601	Missense_Mutation	SNP	ENST00000444623.1	37	CCDS58235.1	.	.	.	.	.	.	.	.	.	.	A	21.2	4.108478	0.77096	.	.	ENSG00000139631	ENST00000308926;ENST00000267085;ENST00000544139;ENST00000444623;ENST00000453446;ENST00000454442;ENST00000437073	T;T;T;T	0.38887	1.11;1.11;1.11;1.11	5.36	5.36	0.76844	Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (1);Pyridoxal phosphate-dependent transferase, major domain (1);	0.260572	0.43260	D	0.000582	T	0.39989	0.1099	L	0.28740	0.885	0.80722	D	1	B;B	0.27971	0.163;0.196	B;B	0.39771	0.309;0.296	T	0.27773	-1.0064	10	0.33141	T	0.24	-19.1094	14.6573	0.68844	1.0:0.0:0.0:0.0	.	181;154	Q9Y600-3;Q9Y600	.;CSAD_HUMAN	T	243;181;154;154;154;48;154	ENSP00000267085:I181T;ENSP00000415485:I154T;ENSP00000410648:I154T;ENSP00000415314:I154T	ENSP00000267085:I181T	I	-	2	0	CSAD	51851483	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	5.657000	0.67996	2.166000	0.68216	0.533000	0.62120	ATC		0.597	CSAD-017	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000343697.1	NM_015989		G	53565216	A	G	53565216	3	3	626	1	0	0	0	0	1	0	0	0	3927	333	12	3	1060	3	CSAD	12	53565216	Missense_Mutation	SNP	A	TCGA-KL-8327-01A-11D-2310-10	39658826	53565216	80286679	23	38476										
SMARCC2	6601	broad.mit.edu	37	chr12	56578007	56578007	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	cacaacatgggaggcattgtTcttatcctcagtgactgttc	9	10	2	1			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr12:56578007T>C	ENST00000267064.4	-	6	600	c.514A>G	c.(514-516)Aac>Gac	p.N172D	SMARCC2_ENST00000347471.4_Missense_Mutation_p.N172D|SMARCC2_ENST00000550164.1_Missense_Mutation_p.N172D|RP11-977G19.5_ENST00000553176.1_RNA|SMARCC2_ENST00000550859.1_5'UTR|SMARCC2_ENST00000394023.3_Missense_Mutation_p.N172D	NM_003075.3	NP_003066.2	Q8TAQ2	SMRC2_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2	172					ATP-dependent chromatin remodeling (GO:0043044)|chromatin remodeling (GO:0006338)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|nucleosome disassembly (GO:0006337)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription from RNA polymerase II promoter involved in forebrain neuron fate commitment (GO:0021882)|transcription, DNA-templated (GO:0006351)	nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|protein complex (GO:0043234)|SWI/SNF complex (GO:0016514)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|transcription coactivator activity (GO:0003713)			breast(1)|central_nervous_system(3)|endometrium(6)|kidney(3)|large_intestine(3)|lung(20)|ovary(1)|skin(2)|soft_tissue(1)|upper_aerodigestive_tract(1)	41			OV - Ovarian serous cystadenocarcinoma(18;0.123)			GAGGCATTGTTCTTATCCTCA	0.493																																																0													115	92	100					12																	56578007		2203	4300	6503	SO:0001583	missense	6601			U66616	CCDS8907.1, CCDS8908.1, CCDS55835.1	12q13.2	2008-05-14				ENSG00000139613			11105	protein-coding gene	gene with protein product		601734				8804307, 9693044	Standard	NM_001130420		Approved	BAF170, Rsc8, CRACC2	uc001skb.3	Q8TAQ2	OTTHUMG00000170288	ENST00000267064.4:c.514A>G	12.37:g.56578007T>C	ENSP00000267064:p.Asn172Asp	Somatic		WXS	Illumina HiSeq	Phase_I	F8VTJ5|Q59GV3|Q92923|Q96E12|Q96GY4	Missense_Mutation	SNP	ENST00000267064.4	37	CCDS8907.1	.	.	.	.	.	.	.	.	.	.	T	13.73	2.324727	0.41197	.	.	ENSG00000139613	ENST00000394023;ENST00000550164;ENST00000347471;ENST00000267064	T;T;T;T	0.56776	0.44;0.44;0.44;0.44	5.38	4.24	0.50183	BRCT (1);	0.717108	0.14170	N	0.336810	T	0.25494	0.0620	N	0.02011	-0.69	0.22066	N	0.999386	B;B;B;B;B	0.18310	0.016;0.027;0.016;0.016;0.027	B;B;B;B;B	0.17098	0.007;0.017;0.007;0.007;0.017	T	0.17623	-1.0363	10	0.21014	T	0.42	-3.7705	10.4059	0.44256	0.0:0.0781:0.0:0.9219	.	61;172;177;172;172	B4DF22;F8VTJ5;Q59G16;Q8TAQ2;Q8TAQ2-2	.;.;.;SMRC2_HUMAN;.	D	172	ENSP00000377591:N172D;ENSP00000449396:N172D;ENSP00000302919:N172D;ENSP00000267064:N172D	ENSP00000267064:N172D	N	-	1	0	SMARCC2	54864274	0.111000	0.22076	0.997000	0.53966	0.994000	0.84299	0.392000	0.20801	1.002000	0.39104	0.459000	0.35465	AAC		0.493	SMARCC2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000408370.1			C	56578007	T	C	56578007	3	2	626	1	0	0	0	0	1	0	0	0	14789	1783	62	3	3319	3	SMARCC2	12	56578007	Missense_Mutation	SNP	T	TCGA-KL-8327-01A-11D-2310-10	3012791	56578007	77273888	24	38477										
NOC4L	79050	ucsc.edu	37	chr12	132632437	132632437	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	ctccgcaggtgccccccgccTtttggaacaatgccttcacg	9	17	1	0			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr12:132632437T>C	ENST00000330579.1	+	6	657	c.616T>C	c.(616-618)Ttt>Ctt	p.F206L	NOC4L_ENST00000535343.1_3'UTR|NOC4L_ENST00000538784.1_5'Flank	NM_024078.1	NP_076983.1	Q9BVI4	NOC4L_HUMAN	nucleolar complex associated 4 homolog (S. cerevisiae)	206					rRNA processing (GO:0006364)	integral component of membrane (GO:0016021)|nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			endometrium(2)|kidney(2)|large_intestine(1)|lung(7)|skin(2)	14	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.2e-08)|Epithelial(86;3.34e-07)|all cancers(50;1.97e-05)		GCCCCCCGCCTTTTGGAACAA	0.682																																																0													27	30	29					12																	132632437		2188	4296	6484	SO:0001583	missense	79050				CCDS9277.1	12q24.33	2011-08-12			ENSG00000184967	ENSG00000184967			28461	protein-coding gene	gene with protein product		612819				12446671	Standard	NM_024078		Approved	MGC3162, NET49, UTP19	uc001ujz.1	Q9BVI4	OTTHUMG00000168260	ENST00000330579.1:c.616T>C	12.37:g.132632437T>C	ENSP00000328854:p.Phe206Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N2S5|Q96I14	Missense_Mutation	SNP	ENST00000330579.1	37	CCDS9277.1	.	.	.	.	.	.	.	.	.	.	T	10.97	1.500413	0.26861	.	.	ENSG00000184967	ENST00000330579;ENST00000541954	T;T	0.63580	-0.05;1.51	5.1	3.9	0.45041	Armadillo-like helical (1);	0.170682	0.51477	N	0.000091	T	0.42787	0.1218	L	0.33485	1.01	0.80722	D	1	B	0.06786	0.001	B	0.04013	0.001	T	0.22626	-1.0211	10	0.05721	T	0.95	-28.2025	7.9495	0.30006	0.0:0.0957:0.0:0.9043	.	206	Q9BVI4	NOC4L_HUMAN	L	206;173	ENSP00000328854:F206L;ENSP00000438255:F173L	ENSP00000328854:F206L	F	+	1	0	NOC4L	131198390	0.988000	0.35896	0.481000	0.27354	0.018000	0.09664	2.192000	0.42649	0.731000	0.32448	0.496000	0.49642	TTT		0.682	NOC4L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398999.1	NM_024078		C	132632437	T	C	132632437	3	2	626	1	0	0	0	0	1	0	0	0	10522	1609	56	3	638	3	NOC4L	12	132632437	Missense_Mutation	SNP	T	TCGA-KL-8327-01A-11D-2310-10	76054430	132632437	1219458	25	38478										
SLC25A29	123096	ucsc.edu;mdanderson.org	37	chr14	100758955	100758955	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	tgacgtaccgcccgccaacaGcagcttgggcaccagcaggc	12	16	0	1			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr14:100758955G>A	ENST00000359232.3	-	4	877	c.577C>T	c.(577-579)Ctg>Ttg	p.L193L	RP11-638I2.6_ENST00000556458.1_lincRNA|SLC25A29_ENST00000555927.1_Silent_p.L127L|AL157871.2_ENST00000553954.1_RNA|SLC25A29_ENST00000539621.1_Silent_p.L127L|SLC25A29_ENST00000554912.1_Silent_p.L127L|SLC25A29_ENST00000392908.3_3'UTR|SLC25A29_ENST00000556505.1_Silent_p.L127L	NM_001039355.1	NP_001034444.1	Q8N8R3	MCATL_HUMAN	solute carrier family 25 (mitochondrial carnitine/acylcarnitine carrier), member 29	193						integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)	acyl carnitine transmembrane transporter activity (GO:0015227)			NS(1)|endometrium(1)|ovary(1)	3		Melanoma(154;0.152)			L-Carnitine(DB00583)	CCCGCCAACAGCAGCTTGGGC	0.692																																																0													26	18	21					14																	100758955		2186	4284	6470	SO:0001819	synonymous_variant	123096			AK095532	CCDS32156.1	14q32.2	2013-05-22	2012-03-29	2004-01-21	ENSG00000197119	ENSG00000197119		"Solute carriers"	20116	protein-coding gene	gene with protein product		615064	"chromosome 14 open reading frame 69", "solute carrier family 25, member 29"	C14orf69			Standard	XM_005267343		Approved	FLJ38975	uc010twx.2	Q8N8R3	OTTHUMG00000171569	ENST00000359232.3:c.577C>T	14.37:g.100758955G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A3KMR5|Q541V0	Silent	SNP	ENST00000359232.3	37	CCDS32156.1																																																																																				0.692	SLC25A29-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000072449.3			A	100758955	G	A	100758955	2	1	626	1	0	0	0	0	0	0	0	1	14505	962	34	2		2	SLC25A29	14	100758955	Silent	SNP	G	TCGA-KL-8327-01A-11D-2310-10		100758955	6590585	26	38479										
CSPG4	1464	mdanderson.org	37	chr15	75981944	75981944	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	gaacatttttcgtgcctgggCtcccgggatgtccagctcga	12	12	0	0	rs72732868	byFrequency	TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr15:75981944C>T	ENST00000308508.5	-	3	1554	c.1462G>A	c.(1462-1464)Gcc>Acc	p.A488T		NM_001897.4	NP_001888.2	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4	488	Globular or compact configuration stabilized by disulfide bonds.|Neurite growth inhibition. {ECO:0000250}.				activation of MAPK activity (GO:0000187)|angiogenesis (GO:0001525)|carbohydrate metabolic process (GO:0005975)|cell proliferation (GO:0008283)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|glial cell migration (GO:0008347)|glycosaminoglycan metabolic process (GO:0030203)|intracellular signal transduction (GO:0035556)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|small molecule metabolic process (GO:0044281)|tissue remodeling (GO:0048771)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cell projection (GO:0042995)|cell surface (GO:0009986)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi lumen (GO:0005796)|integral component of plasma membrane (GO:0005887)|lysosomal lumen (GO:0043202)	protein kinase binding (GO:0019901)|signal transducer activity (GO:0004871)			breast(1)|cervix(2)|endometrium(5)|kidney(5)|large_intestine(3)|liver(2)|lung(18)|ovary(2)|pancreas(2)|prostate(4)|skin(4)	48						CGTGCCTGGGCTCCCGGGATG	0.637													C|||	30	0.00599042	0.0023	0.0043	5008	,	,		21686	0.0119		0.004	False		,,,				2504	0.0082															0													59	55	57					15																	75981944		2197	4292	6489	SO:0001583	missense	1464			X96753, AY359468	CCDS10284.1	15q24.2	2010-04-19	2007-02-16		ENSG00000173546	ENSG00000173546		"Proteoglycans / Cell surface : Other"	2466	protein-coding gene	gene with protein product	"melanoma-associated chondroitin sulfate proteoglycan"	601172	"chondroitin sulfate proteoglycan 4 (melanoma-associated)"			8790396, 16407841	Standard	NM_001897		Approved	MCSPG, MEL-CSPG, MSK16, NG2, MCSP, HMW-MAA	uc002baw.3	Q6UVK1	OTTHUMG00000142836	ENST00000308508.5:c.1462G>A	15.37:g.75981944C>T	ENSP00000312506:p.Ala488Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DW77|Q92675	Missense_Mutation	SNP	ENST00000308508.5	37	CCDS10284.1	.	.	.	.	.	.	.	.	.	.	.	7.683	0.689502	0.14973	.	.	ENSG00000173546	ENST00000308508	T	0.19669	2.13	5.12	5.12	0.69794	.	0.093684	0.44902	D	0.000419	T	0.17323	0.0416	L	0.49350	1.555	0.40778	D	0.983141	P	0.38020	0.615	B	0.33196	0.159	T	0.04961	-1.0915	10	0.11794	T	0.64	.	13.061	0.59008	0.1615:0.8385:0.0:0.0	.	488	Q6UVK1	CSPG4_HUMAN	T	488	ENSP00000312506:A488T	ENSP00000312506:A488T	A	-	1	0	CSPG4	73768999	0.998000	0.40836	0.608000	0.28969	0.011000	0.07611	3.620000	0.54203	2.375000	0.81037	0.555000	0.69702	GCC		0.637	CSPG4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286472.1	NM_001897		T	75981944	C	T	75981944	3	4	626	1	0	0	0	0	1	0	0	0	3962	797	28	2	5538	2	CSPG4	15	75981944	Missense_Mutation	SNP	C	TCGA-KL-8327-01A-11D-2310-10		75981944	26549448	27	38480										
HYDIN	54768	broad.mit.edu	37	chr16	70884529	70884529	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	agttcacatctccttcctgcTttggtgtgaagaaaatatca	7	9	3	2			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr16:70884529T>C	ENST00000393567.2	-	74	12623	c.12473A>G	c.(12472-12474)aAg>aGg	p.K4158R	RNU6ATAC25P_ENST00000408798.1_RNA	NM_001270974.1	NP_001257903.1	Q4G0P3	HYDIN_HUMAN	HYDIN, axonemal central pair apparatus protein	4158					cilium assembly (GO:0042384)|cilium movement (GO:0003341)|epithelial cell development (GO:0002064)|trachea development (GO:0060438)|ventricular system development (GO:0021591)	cell projection (GO:0042995)				breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(17)|lung(12)|ovary(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)	43		Ovarian(137;0.0654)				TCCTTCCTGCTTTGGTGTGAA	0.408																																																0													75	64	67					16																	70884529		1855	4105	5960	SO:0001583	missense	54768			AK074472	CCDS10897.1, CCDS56004.1, CCDS56005.1, CCDS59269.1	16q22.2	2014-02-05	2012-01-06		ENSG00000157423	ENSG00000157423		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	19368	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 31"	610812	"hydrocephalus inducing", "hydrocephalus inducing homolog (mouse)"			12719380, 23022101	Standard	NM_001198542		Approved	DKFZp434D0513, KIAA1864, PPP1R31, CILD5	uc031qwy.1	Q4G0P3	OTTHUMG00000137584	ENST00000393567.2:c.12473A>G	16.37:g.70884529T>C	ENSP00000377197:p.Lys4158Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NC70|A6NLZ0|B4DQY4|B4DRN4|F5H6V3|Q8N3H8|Q8N3P6|Q8TC08|Q96JG3|Q96SS4|Q9H5U3|Q9H9B8|Q9NTI0|Q9UBE5	Missense_Mutation	SNP	ENST00000393567.2	37	CCDS59269.1	.	.	.	.	.	.	.	.	.	.	T	18.29	3.592091	0.66219	.	.	ENSG00000157423	ENST00000393567;ENST00000316490	T	0.01051	5.4	5.56	5.56	0.83823	.	0.515744	0.14146	U	0.338329	T	0.02267	0.0070	L	0.52126	1.63	0.80722	D	1	B	0.30193	0.272	B	0.40199	0.322	T	0.62210	-0.6902	10	0.20519	T	0.43	.	11.053	0.47901	0.0:0.0:0.2775:0.7225	.	4157	F8WD23	.	R	4158;4157	ENSP00000377197:K4158R	ENSP00000313052:K4157R	K	-	2	0	HYDIN	69442030	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	2.665000	0.46791	2.113000	0.64589	0.418000	0.28097	AAG		0.408	HYDIN-001	PUTATIVE	not_organism_supported|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000398624.3			C	70884529	T	C	70884529	3	2	626	1	0	0	0	0	1	0	0	0	7474	1609	56	3	2944	3	HYDIN	16	70884529	Missense_Mutation	SNP	T	TCGA-KL-8327-01A-11D-2310-10		70884529	19470224	28	38481										
COX4NB	10328	broad.mit.edu	37	chr16	85822626	85822626	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	ttgataataaccagcaatcaCgtagctatgatctttgcacc	6	10	2	2			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr16:85822626C>T	ENST00000253457.3	-	2	506	c.262G>A	c.(262-264)Gtg>Atg	p.V88M	RP11-568J23.5_ENST00000602706.1_RNA|EMC8_ENST00000435200.2_Missense_Mutation_p.V88M	NM_006067.4	NP_006058.1	O43402	EMC8_HUMAN	ER membrane protein complex subunit 8	88						cytoplasm (GO:0005737)|ER membrane protein complex (GO:0072546)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleus (GO:0005634)											CCAGCAATCACGTAGCTATGA	0.438																																																0													192	151	165					16																	85822626		2198	4300	6498	SO:0001583	missense	10328			AF005888	CCDS10954.1, CCDS45541.1	16q24	2012-05-30	2012-05-30	2012-05-30	ENSG00000131148	ENSG00000131148			7864	protein-coding gene	gene with protein product	"family with sequence similarity 158, member B"	604886	"chromosome 16 open reading frame 4", "neighbor of COX4", "chromosome 16 open reading frame 2", "COX4 neighbor"	C16orf4, NOC4, C16orf2, COX4NB		10337626, 22119785	Standard	NM_006067		Approved	FAM158B	uc002fjd.3	O43402	OTTHUMG00000137647	ENST00000253457.3:c.262G>A	16.37:g.85822626C>T	ENSP00000253457:p.Val88Met	Somatic		WXS	Illumina HiSeq	Phase_I	C9JB21	Missense_Mutation	SNP	ENST00000253457.3	37	CCDS10954.1	.	.	.	.	.	.	.	.	.	.	C	21.6	4.169822	0.78452	.	.	ENSG00000131148	ENST00000253457;ENST00000435200	T;T	0.46063	0.88;0.88	5.62	5.62	0.85841	.	0.114900	0.64402	D	0.000017	T	0.62036	0.2395	M	0.64567	1.98	0.58432	D	0.999997	D	0.76494	0.999	D	0.64237	0.923	T	0.59915	-0.7364	10	0.46703	T	0.11	-25.8182	19.6758	0.95932	0.0:1.0:0.0:0.0	.	88	O43402	CX4NB_HUMAN	M	88	ENSP00000253457:V88M;ENSP00000391730:V88M	ENSP00000253457:V88M	V	-	1	0	COX4NB	84380127	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	3.394000	0.52551	2.644000	0.89710	0.561000	0.74099	GTG		0.438	EMC8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269099.1	NM_006067		T	85822626	C	T	85822626	3	4	626	1	0	0	0	0	1	0	0	0	3773	536	19	1	386	1	COX4NB	16	85822626	Missense_Mutation	SNP	C	TCGA-KL-8327-01A-11D-2310-10	14938097	85822626	4532127	29	38482										
RCVRN	5957	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr17	9808240	9808240	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	gtcatgtgcagggcgatgacGtactccttgaagtccagggt	14	9	1	2			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr17:9808240G>A	ENST00000226193.5	-	1	698	c.258C>T	c.(256-258)taC>taT	p.Y86Y		NM_002903.2	NP_002894.1	P35243	RECO_HUMAN	recoverin	86	EF-hand 2. {ECO:0000255|PROSITE- ProRule:PRU00448}.				phototransduction, visible light (GO:0007603)|positive regulation of guanylate cyclase activity (GO:0031284)|regulation of calcium ion transport (GO:0051924)|regulation of rhodopsin mediated signaling pathway (GO:0022400)|rhodopsin mediated signaling pathway (GO:0016056)|signal transduction (GO:0007165)|visual perception (GO:0007601)	dendrite (GO:0030425)	calcium ion binding (GO:0005509)|calcium sensitive guanylate cyclase activator activity (GO:0008048)			endometrium(1)|kidney(1)|large_intestine(6)|lung(3)|upper_aerodigestive_tract(1)	12						GGGCGATGACGTACTCCTTGA	0.607																																																0													191	140	158					17																	9808240		2203	4300	6503	SO:0001819	synonymous_variant	5957			BC001720	CCDS11151.1	17p13.1	2013-01-10		2006-09-26	ENSG00000109047	ENSG00000109047		"EF-hand domain containing"	9937	protein-coding gene	gene with protein product		179618		RCV1		1387789, 12507501, 1467959, 12789533	Standard	NM_002903		Approved		uc002gme.1	P35243	OTTHUMG00000130268	ENST00000226193.5:c.258C>T	17.37:g.9808240G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q53XL0	Silent	SNP	ENST00000226193.5	37	CCDS11151.1																																																																																				0.607	RCVRN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252600.2	NM_002903		A	9808240	G	A	9808240	2	1	626	1	0	0	0	0	0	0	0	1	13199	1140	40	1		1	RCVRN	17	9808240	Silent	SNP	G	TCGA-KL-8327-01A-11D-2310-10		9808240	71386970	30	38483										
ELAC2	60528	bcgsc.ca	37	chr17	12908367	12908367	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	ttcatctggacattctaccaCcacaaaagcagcaccaggat	6	13	3	0			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr17:12908367C>T	ENST00000338034.4	-	11	1161	c.922G>A	c.(922-924)Gtg>Atg	p.V308M	ELAC2_ENST00000426905.3_Missense_Mutation_p.V268M|ELAC2_ENST00000609345.1_5'UTR|ELAC2_ENST00000395962.2_Missense_Mutation_p.V289M	NM_018127.6|NM_173717.1	NP_060597.4|NP_776065.1	Q9BQ52	RNZ2_HUMAN	elaC ribonuclease Z 2	308					mitochondrial tRNA 3'-trailer cleavage, endonucleolytic (GO:0072684)	mitochondrion (GO:0005739)|nucleus (GO:0005634)	endonuclease activity (GO:0004519)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(4)|kidney(2)|large_intestine(4)|lung(8)|skin(1)	23						CATTCTACCACCACAAAAGCA	0.512																																																0													201	193	196					17																	12908367		2203	4300	6503	SO:0001583	missense	60528			AF304370	CCDS11164.1, CCDS54093.1	17p11.2	2013-05-24	2013-05-24		ENSG00000006744	ENSG00000006744	3.1.26.11		14198	protein-coding gene	gene with protein product	"tRNase Z (long form)"	605367	"elaC (E. coli) homolog 2", "elaC homolog 2 (E. coli)"			10986046, 16636667, 21559454	Standard	NM_018127		Approved	FLJ10530, HPC2	uc010vvr.2	Q9BQ52	OTTHUMG00000058764	ENST00000338034.4:c.922G>A	17.37:g.12908367C>T	ENSP00000337445:p.Val308Met	Somatic		WXS	Illumina HiSeq	Phase_I	B4DPL9|Q6IA94|Q9HAS8|Q9HAS9|Q9NVT1	Missense_Mutation	SNP	ENST00000338034.4	37	CCDS11164.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	13.59|13.59	2.282467|2.282467	0.40394|0.40394	.|.	.|.	ENSG00000006744|ENSG00000006744	ENST00000446899|ENST00000426905;ENST00000338034;ENST00000395962;ENST00000457438	.|T;T;T	.|0.55930	.|0.49;0.49;0.49	4.78|4.78	4.78|4.78	0.61160|0.61160	.|.	.|0.202456	.|0.40818	.|N	.|0.001001	T|T	0.71904|0.71904	0.3395|0.3395	M|M	0.80183|0.80183	2.485|2.485	0.58432|0.58432	D|D	0.999992|0.999992	.|D;D;D;D;D;D	.|0.76494	.|0.996;0.999;0.997;0.999;0.998;0.996	.|P;D;D;D;D;D	.|0.71870	.|0.859;0.957;0.975;0.957;0.925;0.925	T|T	0.75825|0.75825	-0.3181|-0.3181	5|10	.|0.87932	.|D	.|0	-29.6091|-29.6091	13.501|13.501	0.61454|0.61454	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|268;291;289;131;308;68	.|B4DPL9;E9PGJ0;G5E9D5;E7ES68;Q9BQ52;B3KSU9	.|.;.;.;.;RNZ2_HUMAN;.	D|M	87|268;308;289;18	.|ENSP00000405223:V268M;ENSP00000337445:V308M;ENSP00000379291:V289M	.|ENSP00000337445:V308M	G|V	-|-	2|1	0|0	ELAC2|ELAC2	12849092|12849092	0.996000|0.996000	0.38824|0.38824	0.952000|0.952000	0.39060|0.39060	0.947000|0.947000	0.59692|0.59692	3.430000|3.430000	0.52807|0.52807	2.627000|2.627000	0.88993|0.88993	0.655000|0.655000	0.94253|0.94253	GGT|GTG		0.512	ELAC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000129934.5			T	12908367	C	T	12908367	3	4	626	1	0	0	0	0	1	0	0	0	5049	507	18	2	1614	2	ELAC2	17	12908367	Missense_Mutation	SNP	C	TCGA-KL-8327-01A-11D-2310-10	3100127	12908367	68286843	31	38484										
SLC5A10	125206	hgsc.bcm.edu	37	chr17	18923480	18923480	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	tcttacagattgagaaccttAcctggtggaccctggctcag	10	11	2	2			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr17:18923480A>G	ENST00000395645.3	+	14	1657	c.1639A>G	c.(1639-1641)Acc>Gcc	p.T547A	SLC5A10_ENST00000317977.6_Missense_Mutation_p.T517A|SLC5A10_ENST00000395643.2_Missense_Mutation_p.T520A|SLC5A10_ENST00000395647.2_Missense_Mutation_p.T563A|SLC5A10_ENST00000417251.2_Missense_Mutation_p.T511A|SLC5A10_ENST00000395642.1_Missense_Mutation_p.T517A	NM_001042450.2	NP_001035915.1	A0PJK1	SC5AA_HUMAN	solute carrier family 5 (sodium/sugar cotransporter), member 10	547					sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(3)|ovary(3)|prostate(3)|skin(3)	24						TGAGAACCTTACCTGGTGGAC	0.577																																																0													112	106	108					17																	18923480		2203	4300	6503	SO:0001583	missense	125206				CCDS11201.2, CCDS42275.1, CCDS59277.1, CCDS59278.1, CCDS74008.1	17p11.2	2013-07-19	2013-07-19		ENSG00000154025	ENSG00000154025		"Solute carriers"	23155	protein-coding gene	gene with protein product			"solute carrier family 5 (sodium/glucose cotransporter), member 10"				Standard	NM_152351		Approved	SGLT5	uc002gut.2	A0PJK1	OTTHUMG00000178143	ENST00000395645.3:c.1639A>G	17.37:g.18923480A>G	ENSP00000379007:p.Thr547Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUC9|B4DPI0|B7WPR4|Q6P5X0|Q8IXM4|Q96LQ1	Missense_Mutation	SNP	ENST00000395645.3	37	CCDS42275.1	.	.	.	.	.	.	.	.	.	.	A	17.47	3.398343	0.62177	.	.	ENSG00000154025	ENST00000317977;ENST00000395647;ENST00000395642;ENST00000417251;ENST00000395645;ENST00000395643	D;D;D;D;D;D	0.92048	-2.96;-2.43;-2.96;-2.45;-2.36;-2.47	5.43	5.43	0.79202	.	0.138064	0.64402	D	0.000003	D	0.94172	0.8130	M	0.87682	2.9	0.58432	D	0.999995	P;P;P;P;P	0.48911	0.773;0.917;0.864;0.917;0.859	B;P;B;P;P	0.47786	0.354;0.557;0.265;0.557;0.511	D	0.94730	0.7909	10	0.59425	D	0.04	.	14.6029	0.68453	1.0:0.0:0.0:0.0	.	511;520;547;563;517	B4DPI0;A0PJK1-2;A0PJK1;A0PJK1-4;A0PJK1-3	.;.;SC5AA_HUMAN;.;.	A	517;563;517;511;547;520	ENSP00000324346:T517A;ENSP00000379008:T563A;ENSP00000379004:T517A;ENSP00000401875:T511A;ENSP00000379007:T547A;ENSP00000379005:T520A	ENSP00000324346:T517A	T	+	1	0	SLC5A10	18864205	0.937000	0.31787	0.954000	0.39281	0.964000	0.63967	6.425000	0.73370	2.191000	0.70037	0.529000	0.55759	ACC		0.577	SLC5A10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132129.2	NM_152351		G	18923480	A	G	18923480	3	3	626	1	0	0	0	0	1	0	0	0	14675	391	14	3	1741	3	SLC5A10	17	18923480	Missense_Mutation	SNP	A	TCGA-KL-8327-01A-11D-2310-10	6015113	18923480	62271730	32	38485										
CDK12	51755	broad.mit.edu	37	chr17	37657501	37657501	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	attttttttcgtctttatgtAggtgccttttaccttgtatt	6	6	1	0			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr17:37657501A>G	ENST00000447079.4	+	6	2452		c.e6-1		CDK12_ENST00000430627.2_Splice_Site	NM_015083.1|NM_016507.2	NP_055898.1|NP_057591.2	Q9NYV4	CDK12_HUMAN	cyclin-dependent kinase 12						mRNA processing (GO:0006397)|phosphorylation of RNA polymerase II C-terminal domain (GO:0070816)|protein autophosphorylation (GO:0046777)|regulation of MAP kinase activity (GO:0043405)|RNA splicing (GO:0008380)	cyclin K-CDK12 complex (GO:0002944)|nuclear cyclin-dependent protein kinase holoenzyme complex (GO:0019908)|nuclear speck (GO:0016607)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|cyclin binding (GO:0030332)|cyclin-dependent protein serine/threonine kinase activity (GO:0004693)|protein kinase activity (GO:0004672)|RNA polymerase II carboxy-terminal domain kinase activity (GO:0008353)			NS(4)|breast(3)|endometrium(5)|kidney(4)|large_intestine(11)|lung(23)|ovary(11)|prostate(4)|skin(2)|urinary_tract(3)	70						GTCTTTATGTAGGTGCCTTTT	0.353			"Mis, N, F"		serous ovarian					TCGA Ovarian(9;0.13)																													Rec	yes		17	17q12	51755	cyclin-dependent kinase 12		E	0													97	96	96					17																	37657501		2203	4300	6503	SO:0001630	splice_region_variant	51755			AF227198	CCDS11337.1, CCDS45666.1	17q12	2011-10-25	2009-12-16	2009-12-16	ENSG00000167258	ENSG00000167258		"Cyclin-dependent kinases"	24224	protein-coding gene	gene with protein product	"CDC2 related protein kinase 7"	615514	"Cdc2-related kinase, arginine/serine-rich"	CRKRS		10048485, 11683387, 19884882	Standard	XM_005257456		Approved	CRK7, CRKR, KIAA0904	uc010cvv.3	Q9NYV4	OTTHUMG00000133214	ENST00000447079.4:c.2420-1A>G	17.37:g.37657501A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A7E2B2|B4DYX4|B9EIQ6|O94978	Splice_Site	SNP	ENST00000447079.4	37	CCDS11337.1	.	.	.	.	.	.	.	.	.	.	a	24.9	4.581417	0.86748	.	.	ENSG00000167258	ENST00000430627;ENST00000447079	.	.	.	5.83	5.83	0.93111	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.2004	0.82067	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	CDK12	34911027	1.000000	0.71417	0.966000	0.40874	0.957000	0.61999	9.206000	0.95056	2.233000	0.73108	0.529000	0.55759	.		0.353	CDK12-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256941.4	NM_016507	Intron	G	37657501	A	G	37657501	5	3	626	1	0	0	0	0	0	0	1	0	3130	434	15	3	2440	3	CDK12	17	37657501	Splice_Site	SNP	A	TCGA-KL-8327-01A-11D-2310-10	18734021	37657501	43537709	33	38486										
CDH2	1000	broad.mit.edu;mdanderson.org	37	chr18	25543442	25543442	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	ccacaggcttgatggcatcaGgctccacagtgtcaggctgc	12	13	2	1			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr18:25543442G>A	ENST00000269141.3	-	15	2816	c.2393C>T	c.(2392-2394)cCt>cTt	p.P798L	CDH2_ENST00000399380.3_Missense_Mutation_p.P767L|AC015933.2_ENST00000423367.1_RNA	NM_001792.3	NP_001783.2	P19022	CADH2_HUMAN	cadherin 2, type 1, N-cadherin (neuronal)	798					adherens junction organization (GO:0034332)|blood vessel morphogenesis (GO:0048514)|calcium-dependent cell-cell adhesion (GO:0016339)|cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|cell migration (GO:0016477)|cell-cell adhesion mediated by cadherin (GO:0044331)|cell-cell junction organization (GO:0045216)|glial cell differentiation (GO:0010001)|heterophilic cell-cell adhesion (GO:0007157)|homophilic cell adhesion (GO:0007156)|muscle cell differentiation (GO:0042692)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|neuronal stem cell maintenance (GO:0097150)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of muscle cell differentiation (GO:0051149)|striated muscle cell differentiation (GO:0051146)	apical plasma membrane (GO:0016324)|catenin complex (GO:0016342)|cell-cell adherens junction (GO:0005913)|cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|fascia adherens (GO:0005916)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|intercalated disc (GO:0014704)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)|synapse (GO:0045202)	alpha-catenin binding (GO:0045294)|beta-catenin binding (GO:0008013)|calcium ion binding (GO:0005509)|gamma-catenin binding (GO:0045295)			NS(1)|breast(5)|cervix(2)|endometrium(7)|kidney(3)|large_intestine(22)|lung(32)|ovary(4)|prostate(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	82						GATGGCATCAGGCTCCACAGT	0.532																																																0													84	68	73					18																	25543442		2203	4300	6503	SO:0001583	missense	1000			S42303	CCDS11891.1	18q12.1	2010-01-26			ENSG00000170558	ENSG00000170558		"CD molecules", "Cadherins / Major cadherins"	1759	protein-coding gene	gene with protein product	"N-cadherin"	114020		NCAD		2384753, 7731968, 2216790	Standard	NM_001792		Approved	CDHN, CD325	uc002kwg.2	P19022	OTTHUMG00000059940	ENST00000269141.3:c.2393C>T	18.37:g.25543442G>A	ENSP00000269141:p.Pro798Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8MWK3|B0YIY6|Q14923|Q8N173	Missense_Mutation	SNP	ENST00000269141.3	37	CCDS11891.1	.	.	.	.	.	.	.	.	.	.	G	33	5.283649	0.95489	.	.	ENSG00000170558	ENST00000269141;ENST00000399380	T;T	0.61158	0.17;0.13	6.16	6.16	0.99307	Cadherin, cytoplasmic domain (1);	0.000000	0.85682	D	0.000000	T	0.67942	0.2947	L	0.28694	0.88	0.80722	D	1	P;D	0.71674	0.866;0.998	P;D	0.69142	0.735;0.962	T	0.65631	-0.6121	10	0.48119	T	0.1	.	20.8598	0.99761	0.0:0.0:1.0:0.0	.	767;798	A8MWK3;P19022	.;CADH2_HUMAN	L	798;767	ENSP00000269141:P798L;ENSP00000382312:P767L	ENSP00000269141:P798L	P	-	2	0	CDH2	23797440	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	6.163000	0.71880	2.937000	0.99478	0.650000	0.86243	CCT		0.532	CDH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000133246.3	NM_001792		A	25543442	G	A	25543442	3	1	626	1	0	0	0	0	1	0	0	0	3107	1000	35	2	335	2	CDH2	18	25543442	Missense_Mutation	SNP	G	TCGA-KL-8327-01A-11D-2310-10		25543442	52533806	34	38487										
TCF4	6925	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	52937134	52937134	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	atggtttgtaccactacgatGgaaagtggacatcggaggaa	13	6	0	0			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr18:52937134G>A	ENST00000356073.4	-	11	1461	c.850C>T	c.(850-852)Cat>Tat	p.H284Y	TCF4_ENST00000570177.2_Missense_Mutation_p.H154Y|TCF4_ENST00000568740.1_Missense_Mutation_p.H259Y|TCF4_ENST00000561992.1_Missense_Mutation_p.H154Y|TCF4_ENST00000544241.2_Missense_Mutation_p.H213Y|TCF4_ENST00000537578.1_Missense_Mutation_p.H260Y|TCF4_ENST00000540999.1_Missense_Mutation_p.H260Y|TCF4_ENST00000564403.2_Missense_Mutation_p.H290Y|TCF4_ENST00000564999.1_Missense_Mutation_p.H284Y|TCF4_ENST00000537856.3_Missense_Mutation_p.H154Y|TCF4_ENST00000564228.1_Missense_Mutation_p.H213Y|TCF4_ENST00000563760.1_5'UTR|TCF4_ENST00000457482.3_Missense_Mutation_p.H124Y|TCF4_ENST00000543082.1_Missense_Mutation_p.H242Y|TCF4_ENST00000561831.3_Missense_Mutation_p.H124Y|TCF4_ENST00000567880.1_Missense_Mutation_p.H224Y|TCF4_ENST00000566279.1_Missense_Mutation_p.H224Y|TCF4_ENST00000566286.1_Missense_Mutation_p.H282Y|TCF4_ENST00000568673.1_Missense_Mutation_p.H260Y|TCF4_ENST00000354452.3_Missense_Mutation_p.H284Y|TCF4_ENST00000570287.2_Missense_Mutation_p.H124Y|TCF4_ENST00000398339.1_Missense_Mutation_p.H386Y|TCF4_ENST00000565018.2_Missense_Mutation_p.H284Y	NM_003199.2	NP_003190.1	P15884	ITF2_HUMAN	transcription factor 4	284					DNA-templated transcription, initiation (GO:0006352)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein-DNA complex assembly (GO:0065004)|transcription initiation from RNA polymerase II promoter (GO:0006367)	nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|E-box binding (GO:0070888)|protein C-terminus binding (GO:0008022)|protein heterodimerization activity (GO:0046982)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity (GO:0001011)|sequence-specific DNA binding transcription factor activity (GO:0003700)|TFIIB-class binding transcription factor activity (GO:0001087)|TFIIB-class transcription factor binding (GO:0001093)			breast(1)|central_nervous_system(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(15)|ovary(1)|prostate(1)|skin(5)|urinary_tract(1)	41				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)		CCACTACGATGGAAAGTGGAC	0.453																																																0													185	155	165					18																	52937134		2203	4300	6503	SO:0001583	missense	6925			M74719	CCDS11960.1, CCDS42438.1, CCDS58623.1, CCDS58624.1, CCDS58625.1, CCDS58626.1, CCDS58627.1, CCDS58628.1, CCDS58629.1, CCDS58630.1, CCDS58631.1, CCDS59321.1	18q21.1	2013-05-21			ENSG00000196628	ENSG00000196628		"Basic helix-loop-helix proteins"	11634	protein-coding gene	gene with protein product		602272				9302263, 2308860	Standard	NM_001083962		Approved	SEF2-1B, ITF2, bHLHb19, E2-2	uc002lga.3	P15884	OTTHUMG00000132713	ENST00000356073.4:c.850C>T	18.37:g.52937134G>A	ENSP00000348374:p.His284Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KT62|B3KUC0|B4DT37|B4DUG3|B7Z5M6|B7Z6Y1|G0LNT9|G0LNU0|G0LNU1|G0LNU2|G0LNU4|G0LNU5|G0LNU8|G0LNU9|G0LNV0|G0LNV1|G0LNV2|H3BPQ1|Q08AP2|Q08AP3|Q15439|Q15440|Q15441	Missense_Mutation	SNP	ENST00000356073.4	37	CCDS11960.1	.	.	.	.	.	.	.	.	.	.	G	20.6	4.011236	0.75046	.	.	ENSG00000196628	ENST00000354452;ENST00000457482;ENST00000356073;ENST00000543082;ENST00000540999;ENST00000537578;ENST00000544241;ENST00000537856;ENST00000398339	T;T;T;T;T;T;T;T;T	0.42513	0.97;0.97;0.97;0.97;0.97;0.97;0.97;0.97;0.97	5.8	5.8	0.92144	.	0.146061	0.64402	D	0.000009	T	0.47040	0.1424	L	0.55481	1.735	0.80722	D	1	B;P;B;B;B;B;B;B;B;B	0.42375	0.052;0.778;0.188;0.007;0.209;0.344;0.112;0.052;0.007;0.2	B;B;B;B;B;B;B;B;B;B	0.42827	0.056;0.399;0.1;0.017;0.084;0.053;0.038;0.038;0.009;0.069	T	0.47018	-0.9149	10	0.62326	D	0.03	-7.2002	18.8159	0.92076	0.0:0.0:1.0:0.0	.	260;284;260;124;386;284;242;213;124;282	B7Z5M6;G0LNT9;B7Z6Y1;G0LNV1;E9PH57;P15884;B3KUC0;B3KT62;G0LNU9;G0LNU5	.;.;.;.;.;ITF2_HUMAN;.;.;.;.	Y	284;124;284;242;260;260;213;154;386	ENSP00000346440:H284Y;ENSP00000409447:H124Y;ENSP00000348374:H284Y;ENSP00000439656:H242Y;ENSP00000445202:H260Y;ENSP00000440731:H260Y;ENSP00000441562:H213Y;ENSP00000439827:H154Y;ENSP00000381382:H386Y	ENSP00000346440:H284Y	H	-	1	0	TCF4	51088132	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	8.998000	0.93550	2.734000	0.93682	0.460000	0.39030	CAT		0.453	TCF4-002	KNOWN	upstream_uORF|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256014.1	NM_003199		A	52937134	G	A	52937134	3	1	626	1	0	0	0	0	1	0	0	0	15707	1348	47	2	1201	2	TCF4	18	52937134	Missense_Mutation	SNP	G	TCGA-KL-8327-01A-11D-2310-10	27393692	52937134	25140114	35	38488										
ALPK2	115701	hgsc.bcm.edu	37	chr18	56202992	56202992	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	gaatttgttcagcctcctgcTtcatactgccttcttggctt	7	12	3	0			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr18:56202992T>C	ENST00000361673.3	-	5	4640	c.4427A>G	c.(4426-4428)aAg>aGg	p.K1476R	RP11-1151B14.4_ENST00000591360.1_RNA	NM_052947.3	NP_443179.3	Q86TB3	ALPK2_HUMAN	alpha-kinase 2	1476			K -> T (in a melanoma metastatic sample; somatic mutation). {ECO:0000269|PubMed:17344846}.			nucleus (GO:0005634)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)	p.K837T(1)		NS(1)|central_nervous_system(3)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(13)|lung(33)|ovary(7)|prostate(1)|skin(10)|upper_aerodigestive_tract(2)	84						AGCCTCCTGCTTCATACTGCC	0.493																																																1	Substitution - Missense(1)	ovary(1)											57	59	58					18																	56202992		2203	4300	6503	SO:0001583	missense	115701			AY044450	CCDS11966.2	18q21.31	2013-01-11			ENSG00000198796	ENSG00000198796		"Immunoglobulin superfamily / I-set domain containing"	20565	protein-coding gene	gene with protein product	"heart alpha-kinase"					10021370	Standard	NM_052947		Approved	HAK	uc002lhj.4	Q86TB3	OTTHUMG00000132755	ENST00000361673.3:c.4427A>G	18.37:g.56202992T>C	ENSP00000354991:p.Lys1476Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZUX0|Q8NAT5|Q96L95	Missense_Mutation	SNP	ENST00000361673.3	37	CCDS11966.2	.	.	.	.	.	.	.	.	.	.	T	0.019	-1.456971	0.01071	.	.	ENSG00000198796	ENST00000361673	T	0.37411	1.2	3.9	2.0	0.26442	.	156.464000	0.00166	N	0.000000	T	0.19685	0.0473	N	0.13098	0.295	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.24225	-1.0166	10	0.02654	T	1	-0.5955	4.7766	0.13182	0.0:0.6527:0.222:0.1254	.	1471;1476	Q86TB3-2;Q86TB3	.;ALPK2_HUMAN	R	1476	ENSP00000354991:K1476R	ENSP00000354991:K1476R	K	-	2	0	ALPK2	54353972	0.000000	0.05858	0.001000	0.08648	0.001000	0.01503	-0.134000	0.10436	0.534000	0.28695	-0.456000	0.05471	AAG		0.493	ALPK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256126.1	NM_052947		C	56202992	T	C	56202992	3	2	626	1	0	0	0	0	1	0	0	0	545	1609	56	3	2121	3	ALPK2	18	56202992	Missense_Mutation	SNP	T	TCGA-KL-8327-01A-11D-2310-10	3265858	56202992	21874256	36	38489										
ZNF439	90594	hgsc.bcm.edu	37	chr19	11979212	11979212	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	accgtatcaatgtaaggaatGtgggaaagctttcagatctg	11	6	3	1			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr19:11979212G>A	ENST00000304030.2	+	3	1528	c.1328G>A	c.(1327-1329)tGt>tAt	p.C443Y	ZNF439_ENST00000455282.1_Missense_Mutation_p.C307Y|ZNF439_ENST00000592534.1_Intron	NM_152262.2	NP_689475.1	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	443					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(9)|lung(7)|pancreas(1)|skin(2)	27						TGTAAGGAATGTGGGAAAGCT	0.438																																																0													69	64	66					19																	11979212		2203	4300	6503	SO:0001583	missense	90594			AL833935	CCDS12268.1	19p13.13	2013-01-08			ENSG00000171291	ENSG00000171291		"Zinc fingers, C2H2-type", "-"	20873	protein-coding gene	gene with protein product							Standard	NM_152262		Approved	DKFZp571K0837	uc002mss.3	Q8NDP4	OTTHUMG00000156527	ENST00000304030.2:c.1328G>A	19.37:g.11979212G>A	ENSP00000305077:p.Cys443Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYZ7|Q96SU1	Missense_Mutation	SNP	ENST00000304030.2	37	CCDS12268.1	.	.	.	.	.	.	.	.	.	.	g	14.21	2.468878	0.43839	.	.	ENSG00000171291	ENST00000455282;ENST00000304030	D;D	0.85861	-2.04;-2.04	0.749	0.749	0.18381	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	D	0.93245	0.7848	H	0.95294	3.65	0.40313	D	0.978732	D	0.89917	1.0	D	0.97110	1.0	D	0.92639	0.6123	9	0.87932	D	0	.	9.0493	0.36367	0.0:0.0:1.0:0.0	.	443	Q8NDP4	ZN439_HUMAN	Y	307;443	ENSP00000395632:C307Y;ENSP00000305077:C443Y	ENSP00000305077:C443Y	C	+	2	0	ZNF439	11840212	1.000000	0.71417	0.008000	0.14137	0.080000	0.17528	7.315000	0.78998	0.716000	0.32124	0.194000	0.17425	TGT		0.438	ZNF439-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344513.1			A	11979212	G	A	11979212	3	1	626	1	0	0	0	0	1	0	0	0	17923	1377	48	2	1338	2	ZNF439	19	11979212	Missense_Mutation	SNP	G	TCGA-KL-8327-01A-11D-2310-10		11979212	47149771	37	38490										
CACNA1A	773	bcgsc.ca	37	chr19	13366015	13366015	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	ggtactggaagctctgcttgTtctgcggcatgtgtcgggtc	15	9	2	0			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr19:13366015T>C	ENST00000360228.5	-	29	4648	c.4649A>G	c.(4648-4650)aAc>aGc	p.N1550S	CACNA1A_ENST00000574822.1_5'Flank|CACNA1A_ENST00000573710.2_Missense_Mutation_p.N1551S	NM_000068.3|NM_001127222.1|NM_001174080.1|NM_023035.2	NP_000059.3|NP_001120694.1|NP_001167551.1|NP_075461.2	O00555	CAC1A_HUMAN	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	1551					adult walking behavior (GO:0007628)|behavioral response to pain (GO:0048266)|calcium ion import (GO:0070509)|calcium ion-dependent exocytosis (GO:0017156)|calcium ion-dependent exocytosis of neurotransmitter (GO:0048791)|cell death (GO:0008219)|cell growth (GO:0016049)|cellular chloride ion homeostasis (GO:0030644)|cerebellar molecular layer development (GO:0021679)|cerebellar Purkinje cell differentiation (GO:0021702)|cerebellum maturation (GO:0021590)|dendrite morphogenesis (GO:0048813)|energy reserve metabolic process (GO:0006112)|gamma-aminobutyric acid secretion (GO:0014051)|gamma-aminobutyric acid signaling pathway (GO:0007214)|glucose metabolic process (GO:0006006)|hormone metabolic process (GO:0042445)|membrane depolarization (GO:0051899)|membrane depolarization during action potential (GO:0086010)|musculoskeletal movement, spinal reflex action (GO:0050883)|negative regulation of hormone biosynthetic process (GO:0032353)|negative regulation of neuron apoptotic process (GO:0043524)|neuromuscular process controlling balance (GO:0050885)|neuromuscular synaptic transmission (GO:0007274)|neurotransmitter metabolic process (GO:0042133)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|receptor clustering (GO:0043113)|regulation of acetylcholine secretion, neurotransmission (GO:0014056)|regulation of axonogenesis (GO:0050770)|regulation of calcium ion-dependent exocytosis (GO:0017158)|regulation of insulin secretion (GO:0050796)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|spinal cord motor neuron differentiation (GO:0021522)|sulfur amino acid metabolic process (GO:0000096)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transmission of nerve impulse (GO:0019226)|vestibular nucleus development (GO:0021750)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|syntaxin binding (GO:0019905)|voltage-gated calcium channel activity (GO:0005245)			breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(25)|prostate(2)|urinary_tract(1)	42			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Loperamide(DB00836)|Pregabalin(DB00230)|Spironolactone(DB00421)|Verapamil(DB00661)	GCTCTGCTTGTTCTGCGGCAT	0.597																																																0													70	78	75					19																	13366015		2151	4247	6398	SO:0001583	missense	773			U79666	CCDS45998.1, CCDS45999.1	19p13	2014-09-17			ENSG00000141837	ENSG00000141837		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1388	protein-coding gene	gene with protein product		601011		CACNL1A4, SCA6, MHP1, MHP		8825650, 16382099, 23827678	Standard	NM_000068		Approved	Cav2.1, EA2, APCA, HPCA, FHM	uc010xne.2	O00555	OTTHUMG00000044590	ENST00000360228.5:c.4649A>G	19.37:g.13366015T>C	ENSP00000353362:p.Asn1550Ser	Somatic		WXS	Illumina HiSeq	Phase_I	J3KP41|P78510|P78511|Q16290|Q92690|Q99790|Q99791|Q99792|Q99793|Q9NS88|Q9UDC4	Missense_Mutation	SNP	ENST00000360228.5	37	CCDS45998.1	.	.	.	.	.	.	.	.	.	.	T	16.25	3.071462	0.55646	.	.	ENSG00000141837	ENST00000360228;ENST00000418012;ENST00000357018;ENST00000325084;ENST00000445042	D	0.96011	-3.88	4.79	4.79	0.61399	.	0.187057	0.43747	D	0.000533	D	0.96549	0.8874	M	0.93594	3.435	0.54753	D	0.999987	P;P;D;P	0.58268	0.745;0.835;0.982;0.745	B;P;P;B	0.45195	0.275;0.465;0.473;0.275	D	0.97011	0.9736	10	0.87932	D	0	.	13.388	0.60807	0.0:0.0:0.0:1.0	.	1551;1554;1550;1551	O00555;E9PD31;Q9NS88;E7EVF2	CAC1A_HUMAN;.;.;.	S	1550;1554;1551;1551;167	ENSP00000353362:N1550S	ENSP00000317661:N1551S	N	-	2	0	CACNA1A	13227015	1.000000	0.71417	1.000000	0.80357	0.824000	0.46624	6.206000	0.72154	1.805000	0.52779	0.524000	0.50904	AAC		0.597	CACNA1A-001	KNOWN	non_canonical_U12|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000104062.2	NM_000068		C	13366015	T	C	13366015	3	2	626	1	0	0	0	0	1	0	0	0	2540	1725	60	3	3049	3	CACNA1A	19	13366015	Missense_Mutation	SNP	T	TCGA-KL-8327-01A-11D-2310-10	1386803	13366015	45762968	38	38491										
ZNF14	7561	bcgsc.ca	37	chr19	19822268	19822268	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	aggtttctctccagtgtgagAcctttcatgaattcgaacag	9	9	2	2			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr19:19822268A>G	ENST00000344099.3	-	4	1960	c.1822T>C	c.(1822-1824)Tct>Cct	p.S608P		NM_021030.2	NP_066358.2	P17017	ZNF14_HUMAN	zinc finger protein 14	608					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|cervix(2)|endometrium(1)|large_intestine(9)|lung(8)|ovary(4)|prostate(2)|skin(2)|upper_aerodigestive_tract(3)	32		Renal(1328;0.0474)				CCAGTGTGAGACCTTTCATGA	0.418																																																0													80	78	79					19																	19822268		2203	4300	6503	SO:0001583	missense	7561			AA286756	CCDS12409.1	19p13.11	2013-01-08	2006-05-10					"Zinc fingers, C2H2-type", "-"	12924	protein-coding gene	gene with protein product		194556	"zinc finger protein 14 (KOX 6)"				Standard	NM_021030		Approved	KOX6, GIOT-4	uc002nnk.1	P17017		ENST00000344099.3:c.1822T>C	19.37:g.19822268A>G	ENSP00000340514:p.Ser608Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGA4|Q9ULZ5	Missense_Mutation	SNP	ENST00000344099.3	37	CCDS12409.1	.	.	.	.	.	.	.	.	.	.	A	15.75	2.926842	0.52759	.	.	ENSG00000105708	ENST00000344099	T	0.08193	3.12	1.8	0.667	0.17907	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.07369	0.0186	L	0.37800	1.135	0.21064	N	0.999794	P	0.48407	0.91	P	0.44772	0.46	T	0.28235	-1.0050	9	0.72032	D	0.01	.	2.241	0.04020	0.3263:0.0:0.2447:0.4291	.	608	P17017	ZNF14_HUMAN	P	608	ENSP00000340514:S608P	ENSP00000340514:S608P	S	-	1	0	ZNF14	19683268	0.007000	0.16637	0.089000	0.20774	0.983000	0.72400	1.471000	0.35365	-0.048000	0.13401	0.383000	0.25322	TCT		0.418	ZNF14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460775.1	NM_021030		G	19822268	A	G	19822268	3	3	626	1	0	0	0	0	1	0	0	0	17740	275	10	3	110	3	ZNF14	19	19822268	Missense_Mutation	SNP	A	TCGA-KL-8327-01A-11D-2310-10	6456253	19822268	39306715	39	38492										
LSM14A	26065	broad.mit.edu	37	chr19	34710315	34710315	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	gctccaggtgctccttcagcTccaaggagagggcgtggggg	17	11	1	1	rs201741862		TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr19:34710315T>G	ENST00000433627.5	+	7	876	c.801T>G	c.(799-801)gcT>gcG	p.A267A	LSM14A_ENST00000540746.2_Silent_p.A226A|LSM14A_ENST00000544216.3_Silent_p.A267A	NM_001114093.1	NP_001107565.1	Q8ND56	LS14A_HUMAN	LSM14A, SCD6 homolog A (S. cerevisiae)	267					cytoplasmic mRNA processing body assembly (GO:0033962)|multicellular organismal development (GO:0007275)|positive regulation of type I interferon-mediated signaling pathway (GO:0060340)|regulation of translation (GO:0006417)|RIG-I signaling pathway (GO:0039529)	cytoplasm (GO:0005737)|cytoplasmic mRNA processing body (GO:0000932)|cytoplasmic stress granule (GO:0010494)|intracellular membrane-bounded organelle (GO:0043231)	double-stranded DNA binding (GO:0003690)|double-stranded RNA binding (GO:0003725)|poly(A) RNA binding (GO:0044822)|single-stranded RNA binding (GO:0003727)	p.A267A(2)		breast(1)|endometrium(4)|kidney(1)|large_intestine(8)|lung(7)|skin(1)	22	Esophageal squamous(110;0.162)					CTCCTTCAGCTCCAAGGAGAG	0.438																																																2	Substitution - coding silent(2)	endometrium(1)|kidney(1)											64	74	71					19																	34710315		2203	4300	6503	SO:0001819	synonymous_variant	26065			AL834398	CCDS12435.1, CCDS46040.1	19q13.12	2010-01-27	2006-12-21	2006-01-24		ENSG00000257103			24489	protein-coding gene	gene with protein product		610677	"chromosome 19 open reading frame 13", "family with sequence similarity 61, member A", "LSM14 homolog A (SCD6, S. cerevisiae)"	C19orf13, FAM61A		12477932	Standard	NM_015578		Approved	DKFZP434D1335, RAP55A, RAP55	uc002nva.4	Q8ND56		ENST00000433627.5:c.801T>G	19.37:g.34710315T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DTG6|Q76LX7|Q96AR3|Q96K73|Q96SN5|Q9UFR3	Silent	SNP	ENST00000433627.5	37	CCDS46040.1																																																																																				0.438	LSM14A-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000451576.3	NM_015578		G	34710315	T	G	34710315	2	3	626	1	0	0	0	0	0	0	0	1	9061	1538	54	5		5	LSM14A	19	34710315	Silent	SNP	T	TCGA-KL-8327-01A-11D-2310-10	14888047	34710315	24418668	40	38493										
SIPA1L3	23094	broad.mit.edu	37	chr19	38655328	38655329	+	Frame_Shift_Ins	INS	-	-	C													0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	ccctggccaaggctccacggINScccgccaagccacacaagcc							TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr19:38655328_38655329insC	ENST00000222345.6	+	15	4499_4500	c.3990_3991insC	c.(3991-3993)cccfs	p.P1331fs		NM_015073.1	NP_055888.1	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like 3	1331					hematopoietic progenitor cell differentiation (GO:0002244)|regulation of small GTPase mediated signal transduction (GO:0051056)	extracellular space (GO:0005615)	GTPase activator activity (GO:0005096)	p.P1331S(1)		NS(1)|breast(3)|central_nervous_system(2)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(8)|lung(22)|ovary(2)|prostate(4)|skin(3)	59			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			AGGCTCCACGGCCCGCCAAGCC	0.673																																																1	Substitution - Missense(1)	large_intestine(1)																																								SO:0001589	frameshift_variant	23094			AB011117	CCDS33007.1	19q13.13	2008-02-05			ENSG00000105738	ENSG00000105738			23801	protein-coding gene	gene with protein product							Standard	XM_005258671		Approved	KIAA0545	uc002ohk.3	O60292	OTTHUMG00000073727	ENST00000222345.6:c.3993dupC	19.37:g.38655331_38655331dupC	ENSP00000222345:p.Pro1331fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q2TV87	Frame_Shift_Ins	INS	ENST00000222345.6	37	CCDS33007.1																																																																																				0.673	SIPA1L3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000156294.2	XM_032278		C	38655329	-	C	38655328	7	5	626	1	0	1	1	0	0	0	0	0	14344	1190	42	0	4040	0	SIPA1L3	19	38655328	Frame_Shift_Ins	INS	-	TCGA-KL-8327-01A-11D-2310-10	3945013	38655328	20473655	41	38494										
DBP	1628	hgsc.bcm.edu	37	chr19	49134133	49134155	+	Frame_Shift_Del	DEL	GGCGCGGTAGTGGGACAGCTCCT	GGCGCGGTAGTGGGACAGCTCCT	-													0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	gcctggtatcgggacagcacGgcgcggtagtgggacagctc							TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	GGCGCGGTAGTGGGACAGCTCCT	GGCGCGGTAGTGGGACAGCTCCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr19:49134133_49134155delGGCGCGGTAGTGGGACAGCTCCT	ENST00000222122.5	-	4	1360_1382	c.917_939delAGGAGCTGTCCCACTACCGCGCC	c.(916-939)caggagctgtcccactaccgcgccfs	p.QELSHYRA306fs	DBP_ENST00000599385.1_Frame_Shift_Del_p.QELSHYRA104fs|DBP_ENST00000593500.1_Frame_Shift_Del_p.QELSHYRA104fs	NM_001352.3	NP_001343.2	Q10586	DBP_HUMAN	D site of albumin promoter (albumin D-box) binding protein	306	bZIP. {ECO:0000255|PROSITE- ProRule:PRU00978}.				liver development (GO:0001889)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|rhythmic process (GO:0048511)	nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)			endometrium(1)|kidney(1)|large_intestine(1)|lung(1)|upper_aerodigestive_tract(1)	5		all_lung(116;0.000125)|Lung NSC(112;0.000202)|all_epithelial(76;0.000283)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;9.98e-05)|all cancers(93;0.000112)|GBM - Glioblastoma multiforme(486;0.00615)|Epithelial(262;0.0155)		GGGACAGCACGGCGCGGTAGTGGGACAGCTCCTGGCGCACGGC	0.682																																																0																																										SO:0001589	frameshift_variant	1628			U06936	CCDS12728.1	19q13.33	2013-09-20			ENSG00000105516	ENSG00000105516			2697	protein-coding gene	gene with protein product		124097				1535333, 7835883	Standard	XR_243907		Approved	DABP	uc002pjx.4	Q10586	OTTHUMG00000183319	ENST00000222122.5:c.917_939delAGGAGCTGTCCCACTACCGCGCC	19.37:g.49134133_49134155delGGCGCGGTAGTGGGACAGCTCCT	ENSP00000222122:p.Gln306fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2I2P4	Frame_Shift_Del	DEL	ENST00000222122.5	37	CCDS12728.1																																																																																				0.682	DBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466167.1	NM_001352		-	49134155	GGCGCGGTAGTGGGACAGCTCCT	-	49134133	7	5	626	1	0	1	0	1	0	0	0	0	4258	1103	39	0	42	0	DBP	19	49134133	Frame_Shift_Del	DEL	GGCGCGGTAGTGGGACAGCTCCT	TCGA-KL-8327-01A-11D-2310-10	10478805	49134133	9994850	42	38495	306	2								
DBP	1628	bcgsc.ca	37	chr19	49134134	49134156	+	Frame_Shift_Del	DEL	GGCGCGGTAGTGGGACAGCTCCT	GGCGCGGTAGTGGGACAGCTCCT	-													0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	cctggtatcgggacagcacgGcgcggtagtgggacagctcc							TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	GGCGCGGTAGTGGGACAGCTCCT	GGCGCGGTAGTGGGACAGCTCCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr19:49134134_49134156delGGCGCGGTAGTGGGACAGCTCCT	ENST00000222122.5	-	4	1359_1381	c.916_938delAGGAGCTGTCCCACTACCGCGCC	c.(916-939)aggagctgtcccactaccgcgcccfs	p.RSCPTTAP306fs	DBP_ENST00000599385.1_Frame_Shift_Del_p.RSCPTTAP104fs|DBP_ENST00000593500.1_Frame_Shift_Del_p.RSCPTTAP104fs	NM_001352.3	NP_001343.2	Q10586	DBP_HUMAN	D site of albumin promoter (albumin D-box) binding protein	306	bZIP. {ECO:0000255|PROSITE- ProRule:PRU00978}.				liver development (GO:0001889)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|rhythmic process (GO:0048511)	nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)			endometrium(1)|kidney(1)|large_intestine(1)|lung(1)|upper_aerodigestive_tract(1)	5		all_lung(116;0.000125)|Lung NSC(112;0.000202)|all_epithelial(76;0.000283)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;9.98e-05)|all cancers(93;0.000112)|GBM - Glioblastoma multiforme(486;0.00615)|Epithelial(262;0.0155)		GGACAGCACGGCGCGGTAGTGGGACAGCTCCTGGCGCACGGCC	0.686																																																0																																										SO:0001589	frameshift_variant	1628			U06936	CCDS12728.1	19q13.33	2013-09-20			ENSG00000105516	ENSG00000105516			2697	protein-coding gene	gene with protein product		124097				1535333, 7835883	Standard	XR_243907		Approved	DABP	uc002pjx.4	Q10586	OTTHUMG00000183319	ENST00000222122.5:c.916_938delAGGAGCTGTCCCACTACCGCGCC	19.37:g.49134134_49134156delGGCGCGGTAGTGGGACAGCTCCT	ENSP00000222122:p.Arg306fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2I2P4	Frame_Shift_Del	DEL	ENST00000222122.5	37	CCDS12728.1																																																																																				0.686	DBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466167.1	NM_001352		-	49134156	GGCGCGGTAGTGGGACAGCTCCT	-	49134134	7	5	626	1	0	1	0	1	0	0	0	0	4258	1203	42	0	43	0	DBP	19	49134134	Frame_Shift_Del	DEL	GGCGCGGTAGTGGGACAGCTCCT	TCGA-KL-8327-01A-11D-2310-10	1	49134134	9994849	43	38496	306	2								
SHANK1	50944	hgsc.bcm.edu;mdanderson.org	37	chr19	51169881	51169881	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	tggggctggtgggggtaacaGggtctcggagtcccccgctg	19	10	1	0			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr19:51169881G>A	ENST00000293441.1	-	22	5354	c.5336C>T	c.(5335-5337)cCt>cTt	p.P1779L	SHANK1_ENST00000359082.3_Missense_Mutation_p.P1770L|SHANK1_ENST00000391814.1_Missense_Mutation_p.P1787L|SYT3_ENST00000544769.1_Intron|SHANK1_ENST00000391813.1_Missense_Mutation_p.P1166L	NM_016148.2	NP_057232.2	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	1779					adult behavior (GO:0030534)|associative learning (GO:0008306)|cytoskeletal anchoring at plasma membrane (GO:0007016)|dendritic spine morphogenesis (GO:0060997)|determination of affect (GO:0050894)|habituation (GO:0046959)|long-term memory (GO:0007616)|negative regulation of actin filament bundle assembly (GO:0032232)|neuromuscular process controlling balance (GO:0050885)|olfactory behavior (GO:0042048)|positive regulation of dendritic spine development (GO:0060999)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|protein complex assembly (GO:0006461)|protein localization to synapse (GO:0035418)|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:2000311)|righting reflex (GO:0060013)|social behavior (GO:0035176)|synapse maturation (GO:0060074)|vocalization behavior (GO:0071625)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|dendritic spine (GO:0043197)|excitatory synapse (GO:0060076)|intracellular (GO:0005622)|membrane (GO:0016020)|N-methyl-D-aspartate selective glutamate receptor complex (GO:0017146)|neuron projection (GO:0043005)|neuronal postsynaptic density (GO:0097481)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	ankyrin repeat binding (GO:0071532)|GKAP/Homer scaffold activity (GO:0030160)|identical protein binding (GO:0042802)|ionotropic glutamate receptor binding (GO:0035255)|protein C-terminus binding (GO:0008022)|protein complex binding (GO:0032403)|scaffold protein binding (GO:0097110)|SH3 domain binding (GO:0017124)|somatostatin receptor binding (GO:0031877)			breast(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|kidney(5)|large_intestine(15)|liver(1)|lung(21)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(3)	64		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		GGGGGTAACAGGGTCTCGGAG	0.711																																																0													5	6	6					19																	51169881		1822	3762	5584	SO:0001583	missense	50944			AF163302	CCDS12799.1	19q13.3	2013-01-10			ENSG00000161681	ENSG00000161681		"Sterile alpha motif (SAM) domain containing", "Ankyrin repeat domain containing"	15474	protein-coding gene	gene with protein product	"somatostatin receptor-interacting protein"	604999				10551867	Standard	NM_016148		Approved	SSTRIP, SPANK-1, synamon	uc002psx.1	Q9Y566	OTTHUMG00000137380	ENST00000293441.1:c.5336C>T	19.37:g.51169881G>A	ENSP00000293441:p.Pro1779Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8MXP5|B7WNY6|Q9NYW9	Missense_Mutation	SNP	ENST00000293441.1	37	CCDS12799.1	.	.	.	.	.	.	.	.	.	.	G	7.206	0.594517	0.13875	.	.	ENSG00000161681	ENST00000293441;ENST00000391813;ENST00000359082;ENST00000391814	T;T;T;T	0.39592	1.2;1.33;1.16;1.07	2.35	2.35	0.29111	.	0.146929	0.25944	U	0.027299	T	0.37128	0.0992	L	0.58810	1.83	0.47862	D	0.999533	B;P	0.34639	0.197;0.461	B;B	0.33339	0.024;0.162	T	0.36648	-0.9739	10	0.41790	T	0.15	.	11.7963	0.52102	0.0:0.0:1.0:0.0	.	1779;1166	Q9Y566;Q9Y566-2	SHAN1_HUMAN;.	L	1779;1166;1770;1787	ENSP00000293441:P1779L;ENSP00000375689:P1166L;ENSP00000351984:P1770L;ENSP00000375690:P1787L	ENSP00000293441:P1779L	P	-	2	0	SHANK1	55861693	0.982000	0.34865	0.990000	0.47175	0.547000	0.35210	2.567000	0.45956	1.334000	0.45468	0.195000	0.17529	CCT		0.711	SHANK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268071.1	NM_016148		A	51169881	G	A	51169881	3	1	626	1	0	0	0	0	1	0	0	0	14277	1000	35	2	1157	2	SHANK1	19	51169881	Missense_Mutation	SNP	G	TCGA-KL-8327-01A-11D-2310-10	2035747	51169881	7959102	44	38497										
HSPA12B	116835	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr20	3730674	3730674	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	gagcagctgctgtgccgcatCttcggcgaggacttcatcgc	13	13	2	0			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr20:3730674C>G	ENST00000254963.2	+	11	1246	c.1101C>G	c.(1099-1101)atC>atG	p.I367M	HSPA12B_ENST00000542646.1_Missense_Mutation_p.I201M	NM_001197327.1|NM_052970.4	NP_001184256.1|NP_443202.3	Q96MM6	HS12B_HUMAN	heat shock 70kD protein 12B	367							ATP binding (GO:0005524)			NS(1)|breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(5)|ovary(1)|prostate(1)|skin(1)	14						TGTGCCGCATCTTCGGCGAGG	0.682																																																0													13	13	13					20																	3730674		2194	4299	6493	SO:0001583	missense	116835			AK056712	CCDS13061.1	20p13	2011-09-02	2003-04-10	2003-04-10	ENSG00000132622	ENSG00000132622		"Heat shock proteins / HSP70"	16193	protein-coding gene	gene with protein product		610702	"chromosome 20 open reading frame 60"	C20orf60		12552099	Standard	NM_052970		Approved	dJ1009E24.2	uc002wjd.3	Q96MM6	OTTHUMG00000031755	ENST00000254963.2:c.1101C>G	20.37:g.3730674C>G	ENSP00000254963:p.Ile367Met	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVX7|Q2TAK3|Q9BR52	Missense_Mutation	SNP	ENST00000254963.2	37	CCDS13061.1	.	.	.	.	.	.	.	.	.	.	C	18.75	3.689871	0.68271	.	.	ENSG00000132622	ENST00000254963;ENST00000542646;ENST00000399701	T;T;T	0.09538	2.97;2.97;2.97	5.18	2.07	0.26955	.	0.049499	0.85682	D	0.000000	T	0.19127	0.0459	L	0.48174	1.505	0.46376	D	0.999015	D;D	0.64830	0.994;0.991	D;D	0.71656	0.947;0.974	T	0.02015	-1.1229	10	0.34782	T	0.22	.	6.3321	0.21276	0.4965:0.4163:0.0:0.0872	.	366;367	B7ZLP2;Q96MM6	.;HS12B_HUMAN	M	367;201;281	ENSP00000254963:I367M;ENSP00000441506:I201M;ENSP00000382608:I281M	ENSP00000254963:I367M	I	+	3	3	HSPA12B	3678674	0.031000	0.19500	1.000000	0.80357	0.981000	0.71138	-0.739000	0.04866	0.647000	0.30713	-0.279000	0.10071	ATC		0.682	HSPA12B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077756.2	NM_052970		G	3730674	C	G	3730674	3	3	626	1	0	0	0	0	1	0	0	0	7412	903	32	4	1139	4	HSPA12B	20	3730674	Missense_Mutation	SNP	C	TCGA-KL-8327-01A-11D-2310-10		3730674	59294846	45	38498										
C20orf134	170487	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	32255643	32255643	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	gcgtgggtaacgggtgctgcGtctgcctcagcagtgagcgc	17	11	2	1	rs144190881	byFrequency	TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr20:32255643G>C	ENST00000330271.4	+	1	1340	c.340G>C	c.(340-342)Gtc>Ctc	p.V114L	NECAB3_ENST00000246190.6_Intron|NECAB3_ENST00000375238.4_Intron	NM_001024675.1	NP_001019846.1	Q5JWF8	ACL10_HUMAN	actin-like 10	114																	CGGGTGCTGCGTCTGCCTCAG	0.706																																																0													16	17	17					20																	32255643		2199	4290	6489	SO:0001583	missense	170487			AL121906	CCDS33463.1	20q11.22	2011-11-24	2011-11-24	2011-11-24	ENSG00000182584	ENSG00000182584			16127	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 134"	C20orf134			Standard	NM_001024675		Approved		uc002wzt.3	Q5JWF8	OTTHUMG00000032262	ENST00000330271.4:c.340G>C	20.37:g.32255643G>C	ENSP00000329647:p.Val114Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B9EH76	Missense_Mutation	SNP	ENST00000330271.4	37	CCDS33463.1	.	.	.	.	.	.	.	.	.	.	G	9.743	1.165517	0.21538	.	.	ENSG00000182584	ENST00000330271	T	0.06528	3.29	5.42	-1.13	0.09775	.	0.822137	0.10138	N	0.711191	T	0.04407	0.0121	L	0.31207	0.915	0.19775	N	0.99996	B	0.11235	0.004	B	0.17979	0.02	T	0.44081	-0.9351	10	0.87932	D	0	-6.4887	1.4132	0.02295	0.3262:0.2569:0.2981:0.1189	.	114	Q5JWF8	CT134_HUMAN	L	114	ENSP00000329647:V114L	ENSP00000329647:V114L	V	+	1	0	C20orf134	31719304	0.766000	0.28496	0.000000	0.03702	0.009000	0.06853	1.458000	0.35223	-0.441000	0.07201	-0.367000	0.07326	GTC		0.706	ACTL10-001	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078713.1			C	32255643	G	C	32255643	3	2	626	1	0	0	0	0	1	0	0	0	2089	1145	40	4	342	4	C20orf134	20	32255643	Missense_Mutation	SNP	G	TCGA-KL-8327-01A-11D-2310-10	28524969	32255643	30769877	46	38499										
MAP1LC3A	84557	broad.mit.edu	37	chr20	33147658	33147658	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	aggagaaagacgaggacggcTtcctctatatggtctacgcc	12	10	2	2			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr20:33147658T>C	ENST00000360668.3	+	4	1083	c.322T>C	c.(322-324)Ttc>Ctc	p.F108L	MAP1LC3A_ENST00000374837.3_Missense_Mutation_p.F112L|MAP1LC3A_ENST00000476428.1_3'UTR|MAP1LC3A_ENST00000397709.1_Missense_Mutation_p.F108L			Q9H492	MLP3A_HUMAN	microtubule-associated protein 1 light chain 3 alpha	108					autophagic vacuole assembly (GO:0000045)|mitochondrion degradation (GO:0000422)	autophagic vacuole (GO:0005776)|autophagic vacuole membrane (GO:0000421)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|late endosome (GO:0005770)|microtubule (GO:0005874)|organelle membrane (GO:0031090)	phosphatidylethanolamine binding (GO:0008429)|phospholipid binding (GO:0005543)			cervix(1)|kidney(1)|large_intestine(1)|upper_aerodigestive_tract(2)	5						CGAGGACGGCTTCCTCTATAT	0.647																																																0													45	48	47					20																	33147658		2203	4300	6503	SO:0001583	missense	84557				CCDS13237.1, CCDS13238.1	20q11.22	2014-02-12			ENSG00000101460	ENSG00000101460			6838	protein-coding gene	gene with protein product		601242				8833088, 17580304	Standard	NM_032514		Approved	MAP1BLC3, MAP1ALC3, LC3, LC3A, ATG8E	uc002xaq.2	Q9H492	OTTHUMG00000032306	ENST00000360668.3:c.322T>C	20.37:g.33147658T>C	ENSP00000353886:p.Phe108Leu	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5P4|E1P5P5|Q9BXW5	Missense_Mutation	SNP	ENST00000360668.3	37	CCDS13238.1	.	.	.	.	.	.	.	.	.	.	T	35	5.472232	0.96274	.	.	ENSG00000101460	ENST00000374837;ENST00000360668;ENST00000397709	T;T;T	0.58652	0.32;0.32;0.32	5.57	5.57	0.84162	.	0.043530	0.85682	D	0.000000	T	0.76364	0.3977	M	0.85630	2.765	0.80722	D	1	P;B	0.42620	0.785;0.057	P;B	0.56823	0.807;0.047	T	0.79974	-0.1577	10	0.72032	D	0.01	-4.7506	15.3706	0.74560	0.0:0.0:0.0:1.0	.	108;112	Q9H492;Q9H492-2	MLP3A_HUMAN;.	L	112;108;108	ENSP00000363970:F112L;ENSP00000353886:F108L;ENSP00000380821:F108L	ENSP00000353886:F108L	F	+	1	0	MAP1LC3A	32611319	1.000000	0.71417	1.000000	0.80357	0.895000	0.52256	7.967000	0.87967	2.115000	0.64714	0.260000	0.18958	TTC		0.647	MAP1LC3A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078801.2	NM_181509		C	33147658	T	C	33147658	3	2	626	1	0	0	0	0	1	0	0	0	9237	1609	56	3	392	3	MAP1LC3A	20	33147658	Missense_Mutation	SNP	T	TCGA-KL-8327-01A-11D-2310-10	892015	33147658	29877862	47	38500										
ASCC2	84164	mdanderson.org	37	chr22	30197985	30197985	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	cccacctgtctctcccacctGtctaggttgcggtccagctg	9	17	2	0			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chr22:30197985G>A	ENST00000397771.2	-	15	1743	c.1566C>T	c.(1564-1566)gaC>gaT	p.D522D	ASCC2_ENST00000542393.1_Silent_p.D446D|ASCC2_ENST00000307790.3_Silent_p.D522D			Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit 2	522					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)					endometrium(3)|large_intestine(3)|lung(9)|prostate(1)|skin(1)|urinary_tract(1)	18			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			TCTCCCACCTGTCTAGGTTGC	0.642																																																0													25	21	23					22																	30197985		2203	4298	6501	SO:0001819	synonymous_variant	84164			AY013289	CCDS13869.1, CCDS56226.1	22q12.1	2004-07-27			ENSG00000100325	ENSG00000100325			24103	protein-coding gene	gene with protein product	"ASC 1 complex subunit P100"	614216				12077347, 9847074	Standard	NM_032204		Approved	ASC1p100, FLJ21588, DKFZp586O0223	uc003agr.3	Q9H1I8	OTTHUMG00000067658	ENST00000397771.2:c.1566C>T	22.37:g.30197985G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8E0|F5H6J9|Q4TT54|Q8TAZ0|Q9H711|Q9H9D6	Silent	SNP	ENST00000397771.2	37	CCDS13869.1																																																																																				0.642	ASCC2-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322127.1	NM_032204		A	30197985	G	A	30197985	2	1	626	1	0	0	0	0	0	0	0	1	1032	1368	48	2		2	ASCC2	22	30197985	Silent	SNP	G	TCGA-KL-8327-01A-11D-2310-10		30197985	21106581	48	38501										
NHS	4810	broad.mit.edu	37	chrX	17745123	17745123	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	ttatagatctctatctaattCaagcaccgctacgggtacca	6	11	3	1			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chrX:17745123C>A	ENST00000380060.3	+	6	3172	c.2834C>A	c.(2833-2835)tCa>tAa	p.S945*	NHS_ENST00000398097.3_Nonsense_Mutation_p.S789*	NM_198270.2	NP_938011.1	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome (congenital cataracts and dental anomalies)	966					cell differentiation (GO:0030154)|lens development in camera-type eye (GO:0002088)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|plasma membrane (GO:0005886)|tight junction (GO:0005923)				breast(5)|central_nervous_system(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(17)|liver(1)|lung(26)|ovary(2)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	71	Hepatocellular(33;0.183)					CTATCTAATTCAAGCACCGCT	0.438																																																0													108	104	105					X																	17745123		2203	4300	6503	SO:0001587	stop_gained	4810				CCDS14181.1, CCDS48087.1	Xp22.3-p21.1	2014-06-18			ENSG00000188158	ENSG00000188158			7820	protein-coding gene	gene with protein product		300457					Standard	NM_001136024		Approved		uc004cxx.3	Q6T4R5	OTTHUMG00000022799	ENST00000380060.3:c.2834C>A	X.37:g.17745123C>A	ENSP00000369400:p.Ser945*	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZVX8|E2DH69|Q5J7Q0|Q5J7Q1|Q68DR5	Nonsense_Mutation	SNP	ENST00000380060.3	37	CCDS14181.1	.	.	.	.	.	.	.	.	.	.	C	43	10.066554	0.99329	.	.	ENSG00000188158	ENST00000380060;ENST00000398097;ENST00000380057	.	.	.	5.93	5.93	0.95920	.	0.055012	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-13.5647	19.2927	0.94108	0.0:1.0:0.0:0.0	.	.	.	.	X	945;789;787	.	ENSP00000369397:S787X	S	+	2	0	NHS	17655044	1.000000	0.71417	0.999000	0.59377	0.987000	0.75469	7.818000	0.86416	2.509000	0.84616	0.538000	0.68166	TCA		0.438	NHS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059120.1	NM_198270		A	17745123	C	A	17745123	4	1	626	1	0	0	0	0	0	1	0	0	10418	838	29	4	2961	4	NHS	23	17745123	Nonsense_Mutation	SNP	C	TCGA-KL-8327-01A-11D-2310-10		17745123	137525437	49	38502										
APOO	79135	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chrX	23874422	23874422	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	aaaaagatgctcctcaccttTtgaaagttctccttccacaa	4	12	2	2			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chrX:23874422T>C	ENST00000379226.4	-	7	789	c.558A>G	c.(556-558)caA>caG	p.Q186Q	APOO_ENST00000379220.3_Silent_p.Q167Q	NM_024122.4	NP_077027.1	Q9BUR5	APOO_HUMAN	apolipoprotein O	186					lipid transport (GO:0006869)	extracellular space (GO:0005615)|high-density lipoprotein particle (GO:0034364)|integral component of membrane (GO:0016021)|low-density lipoprotein particle (GO:0034362)|mitochondrion (GO:0005739)|very-low-density lipoprotein particle (GO:0034361)				breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(5)|prostate(1)	9						TCCTCACCTTTTGAAAGTTCT	0.333																																																0													149	153	151					X																	23874422		2203	4300	6503	SO:0001819	synonymous_variant	79135			BC016814	CCDS14208.1	Xp22.11	2013-01-24	2007-01-17	2007-01-17	ENSG00000184831	ENSG00000184831		"Apolipoproteins"	28727	protein-coding gene	gene with protein product		300753	"family with sequence similarity 121B"	FAM121B		12975309, 16956892	Standard	NR_026545		Approved	MGC4825, My025	uc004dax.3	Q9BUR5	OTTHUMG00000021259	ENST00000379226.4:c.558A>G	X.37:g.23874422T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R4K9|Q9H3J9	Silent	SNP	ENST00000379226.4	37	CCDS14208.1																																																																																				0.333	APOO-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056074.1	NM_024122		C	23874422	T	C	23874422	2	2	626	1	0	0	0	0	0	0	0	1	813	1838	64	3		3	APOO	23	23874422	Silent	SNP	T	TCGA-KL-8327-01A-11D-2310-10	6129299	23874422	131396138	50	38503										
ITIH5L	347365	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	54784436	54784436	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	cagggtatgagggctctctcCcaatggctccagctctttgg	12	12	2	1			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chrX:54784436C>T	ENST00000218436.6	-	8	2100	c.2071G>A	c.(2071-2073)Gga>Aga	p.G691R		NM_198510.2	NP_940912.1	Q6UXX5	ITIH6_HUMAN	inter-alpha-trypsin inhibitor heavy chain family, member 6	691					hyaluronan metabolic process (GO:0030212)	extracellular region (GO:0005576)	serine-type endopeptidase inhibitor activity (GO:0004867)										GGGCTCTCTCCCAATGGCTCC	0.498																																																0													144	119	128					X																	54784436		2203	4300	6503	SO:0001583	missense	347365			AY358170	CCDS14361.1	Xp11.22-p11.21	2011-10-26	2011-10-26	2011-10-26	ENSG00000102313	ENSG00000102313			28907	protein-coding gene	gene with protein product			"inter-alpha (globulin) inhibitor H5-like"	ITIH5L		12975309	Standard	NM_198510		Approved	UNQ6369	uc004dtj.2	Q6UXX5	OTTHUMG00000021634	ENST00000218436.6:c.2071G>A	X.37:g.54784436C>T	ENSP00000218436:p.Gly691Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NN03	Missense_Mutation	SNP	ENST00000218436.6	37	CCDS14361.1	.	.	.	.	.	.	.	.	.	.	C	0.413	-0.912511	0.02415	.	.	ENSG00000102313	ENST00000218436	T	0.02323	4.34	3.95	0.289	0.15723	.	2.233900	0.03836	U	0.269889	T	0.01835	0.0058	N	0.14661	0.345	0.09310	N	1	B	0.18310	0.027	B	0.13407	0.009	T	0.45920	-0.9228	10	0.14252	T	0.57	.	1.3401	0.02153	0.3194:0.379:0.1662:0.1354	.	691	Q6UXX5	ITH5L_HUMAN	R	691	ENSP00000218436:G691R	ENSP00000218436:G691R	G	-	1	0	ITIH5L	54801161	0.000000	0.05858	0.027000	0.17364	0.014000	0.08584	-0.070000	0.11523	0.434000	0.26340	0.597000	0.82753	GGA		0.498	ITIH6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056814.2	NM_198510		T	54784436	C	T	54784436	3	4	626	1	0	0	0	0	1	0	0	0	7915	632	22	2	1894	2	ITIH5L	23	54784436	Missense_Mutation	SNP	C	TCGA-KL-8327-01A-11D-2310-10	30910014	54784436	100486124	51	38504										
RBMX	27316	mdanderson.org	37	chrX	135957699	135957699	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.347446670976083	3.01120448179272	0	1	1	0	tacgagagggcagcggttccCttcgaggtggacctccataa	13	11	0	1			TCGA-KL-8327-01A-11D-2310-10	TCGA-KL-8327-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d72a7338-c144-4c62-a70e-2177a3b4b77e	15d4fbce-ae77-4500-ab53-a29ab6c75019	g.chrX:135957699C>T	ENST00000320676.7	-	6	741	c.587G>A	c.(586-588)aGg>aAg	p.R196K	RBMX_ENST00000496459.2_5'Flank|RBMX_ENST00000565438.1_Missense_Mutation_p.R68K|RBMX_ENST00000562646.1_Missense_Mutation_p.R196K|RBMX_ENST00000570135.1_Missense_Mutation_p.R61K|RBMX_ENST00000431446.3_Missense_Mutation_p.G88R	NM_002139.3	NP_002130.2	P38159	RBMX_HUMAN	RNA binding motif protein, X-linked	196	Necessary for the association to nascent RNAPII transcripts and nuclear localization.				cellular response to interleukin-1 (GO:0071347)|gene expression (GO:0010467)|membrane protein ectodomain proteolysis (GO:0006509)|mRNA splicing, via spliceosome (GO:0000398)|negative regulation of mRNA splicing, via spliceosome (GO:0048025)|osteoblast differentiation (GO:0001649)|positive regulation of mRNA splicing, via spliceosome (GO:0048026)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein homooligomerization (GO:0051260)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|RNA splicing (GO:0008380)|transcription from RNA polymerase II promoter (GO:0006366)	catalytic step 2 spliceosome (GO:0071013)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nuclear euchromatin (GO:0005719)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)|supraspliceosomal complex (GO:0044530)	chromatin binding (GO:0003682)|core promoter binding (GO:0001047)|mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			NS(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|large_intestine(2)|lung(12)|ovary(2)|pancreas(1)|prostate(2)|urinary_tract(1)	33	Acute lymphoblastic leukemia(192;0.000127)					CAGCGGTTCCCTTCGAGGTGG	0.378																																																0													73	71	72					X																	135957699		2203	4299	6502	SO:0001583	missense	27316				CCDS14661.1, CCDS55510.1	Xq26	2013-05-23	2003-09-12		ENSG00000147274	ENSG00000147274		"RNA binding motif (RRM) containing"	9910	protein-coding gene	gene with protein product	"heterogeneous nuclear ribonucleoprotein G"	300199	"RNA binding motif protein, X chromosome"			10391206, 10391207	Standard	NM_002139		Approved	RNMX, hnRNP-G, HNRNPG	uc004fae.2	P38159	OTTHUMG00000022517	ENST00000320676.7:c.587G>A	X.37:g.135957699C>T	ENSP00000359645:p.Arg196Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3U4|D3DWH0|E9PG86|Q5JQ67|Q8N8Y7|Q969R3	Missense_Mutation	SNP	ENST00000320676.7	37	CCDS14661.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	22.5|22.5	4.293036|4.293036	0.80914|0.80914	.|.	.|.	ENSG00000147274|ENSG00000147274	ENST00000431446|ENST00000320676;ENST00000449161	T|T	0.05925|0.77877	3.37|-1.13	5.6|5.6	5.6|5.6	0.85130|0.85130	.|RBM1CTR (1);	.|0.000000	.|0.85682	.|U	.|0.000000	D|D	0.88336|0.88336	0.6409|0.6409	.|.	.|.	.|.	0.58432|0.58432	D|D	0.999996|0.999996	B|D;D	0.23128|0.76494	0.08|0.999;0.979	B|D;D	0.12837|0.74023	0.008|0.976;0.982	D|D	0.88142|0.88142	0.2845|0.2845	7|8	.|.	.|.	.|.	.|.	18.8827|18.8827	0.92362|0.92362	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	88|196;183	B4E3U4|P38159;Q8N8Y7	.|HNRPG_HUMAN;.	R|K	88|196;183	ENSP00000411989:G88R|ENSP00000359645:R196K	.|.	G|R	-|-	1|2	0|0	RBMX|RBMX	135785365|135785365	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.480000|0.480000	0.33159|0.33159	7.445000|7.445000	0.80570|0.80570	2.493000|2.493000	0.84123|0.84123	0.600000|0.600000	0.82982|0.82982	GGG|AGG		0.378	RBMX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058507.1	NM_002139		T	135957699	C	T	135957699	3	4	626	1	0	0	0	0	1	0	0	0	13164	681	24	2	659	2	RBMX	23	135957699	Missense_Mutation	SNP	C	TCGA-KL-8327-01A-11D-2310-10	81173263	135957699	19312861	52	38505										
ZBTB17	7709	broad.mit.edu	37	chr1	16268583	16268583	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	agcctgcagcacctgcccggCaggccacgtgccacctggcc	12	19	0	0			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr1:16268583C>T	ENST00000375743.4	-	16	2525	c.2293G>A	c.(2293-2295)Gcc>Acc	p.A765T	ZBTB17_ENST00000375733.2_Missense_Mutation_p.A772T|ZBTB17_ENST00000537142.1_Missense_Mutation_p.A683T	NM_003443.2	NP_003434.2	Q13105	ZBT17_HUMAN	zinc finger and BTB domain containing 17	765	Interaction with HCFC1.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|ectoderm development (GO:0007398)|endoplasmic reticulum unfolded protein response (GO:0030968)|gastrulation with mouth forming second (GO:0001702)|negative regulation of cell cycle (GO:0045786)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|endometrium(4)|large_intestine(1)|lung(4)|ovary(2)|prostate(2)	15		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|Colorectal(212;4.12e-07)|COAD - Colon adenocarcinoma(227;2.43e-05)|BRCA - Breast invasive adenocarcinoma(304;9.97e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		ACCTGCCCGGCAGGCCACGTG	0.657																																																0													56	52	53					1																	16268583		2203	4300	6503	SO:0001583	missense	7709			U20647	CCDS165.1, CCDS55576.1, CCDS72712.1	1p36.13	2013-01-08	2004-07-16	2004-07-16	ENSG00000116809	ENSG00000116809		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	12936	protein-coding gene	gene with protein product		604084	"zinc finger protein 151 (pHZ-67)", "zinc finger protein 60"	ZNF151, ZNF60			Standard	NM_003443		Approved	MIZ1, pHZ-67	uc001axl.4	Q13105	OTTHUMG00000009377	ENST00000375743.4:c.2293G>A	1.37:g.16268583C>T	ENSP00000364895:p.Ala765Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV07|B4DXB4|B7ZLQ9|F5H411|Q15932|Q5JYB2|Q9NUC9	Missense_Mutation	SNP	ENST00000375743.4	37	CCDS165.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	8.427|8.427	0.847741|0.847741	0.17034|0.17034	.|.	.|.	ENSG00000116809|ENSG00000116809	ENST00000375743;ENST00000375733;ENST00000444654;ENST00000537142|ENST00000440560	T;T;T|.	0.13307|.	2.6;2.61;2.78|.	4.43|4.43	4.43|4.43	0.53597|0.53597	.|.	0.070862|.	0.56097|.	D|.	0.000028|.	T|T	0.31327|0.31327	0.0793|0.0793	N|N	0.04880|0.04880	-0.145|-0.145	0.80722|0.80722	D|D	1|1	P;B;B|.	0.37731|.	0.607;0.1;0.004|.	B;B;B|.	0.32465|.	0.146;0.038;0.005|.	T|T	0.12243|0.12243	-1.0555|-1.0555	10|5	0.11794|.	T|.	0.64|.	.|.	8.3812|8.3812	0.32472|0.32472	0.0:0.8123:0.0:0.1877|0.0:0.8123:0.0:0.1877	.|.	772;683;765|.	Q13105-2;F5H411;Q13105|.	.;.;ZBT17_HUMAN|.	T|Y	765;772;684;683|171	ENSP00000364895:A765T;ENSP00000364885:A772T;ENSP00000438529:A683T|.	ENSP00000364885:A772T|.	A|C	-|-	1|2	0|0	ZBTB17|ZBTB17	16141170|16141170	0.025000|0.025000	0.19082|0.19082	0.984000|0.984000	0.44739|0.44739	0.435000|0.435000	0.31806|0.31806	0.600000|0.600000	0.24104|0.24104	2.173000|2.173000	0.68751|0.68751	0.563000|0.563000	0.77884|0.77884	GCC|TGC		0.657	ZBTB17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025998.1	NM_003443		T	16268583	C	T	16268583	3	4	627	1	0	0	0	0	1	0	0	0	17539	710	25	2	122	2	ZBTB17	1	16268583	Missense_Mutation	SNP	C	TCGA-KL-8328-01A-11D-2310-10		16268583	232982038	1	38506										
PEF1	553115	broad.mit.edu	37	chr1	32101118	32101118	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gcttgtcctgcagctcctggGcagccctgcaggaagagcaa	13	13	0	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr1:32101118G>A	ENST00000373703.4	-	2	52	c.30C>T	c.(28-30)tgC>tgT	p.C10C	PEF1_ENST00000440872.2_Silent_p.C10C|PEF1_ENST00000492061.1_5'UTR	NM_012392.3	NP_036524.1	Q9UBV8	PEF1_HUMAN	penta-EF-hand domain containing 1	10					proteolysis (GO:0006508)|response to calcium ion (GO:0051592)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)|poly(A) RNA binding (GO:0044822)|protein dimerization activity (GO:0046983)|protein heterodimerization activity (GO:0046982)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|prostate(2)|upper_aerodigestive_tract(1)	7		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)|all_neural(195;0.186)		STAD - Stomach adenocarcinoma(196;0.0546)		CAGCTCCTGGGCAGCCCTGCA	0.562																																																0													18	20	19					1																	32101118		2189	4282	6471	SO:0001819	synonymous_variant	553115				CCDS345.1	1p34	2013-01-10			ENSG00000162517	ENSG00000162517		"EF-hand domain containing"	30009	protein-coding gene	gene with protein product	"peflin"	610033				10486255, 11883899	Standard	NM_012392		Approved	PEF1A	uc001bth.2	Q9UBV8	OTTHUMG00000003877	ENST00000373703.4:c.30C>T	1.37:g.32101118G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000373703.4	37	CCDS345.1																																																																																				0.562	PEF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000011046.1	NM_012392		A	32101118	G	A	32101118	2	1	627	1	0	0	0	0	0	0	0	1	11725	1195	42	2		2	PEF1	1	32101118	Silent	SNP	G	TCGA-KL-8328-01A-11D-2310-10	15832535	32101118	217149503	2	38507										
TAL1	6886	hgsc.bcm.edu	37	chr1	47685487	47685487	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ctcctccgtgtagctgtccgGgctggctgccccatccaggg	13	16	0	0			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr1:47685487G>T	ENST00000294339.3	-	4	1477	c.901C>A	c.(901-903)Ccg>Acg	p.P301T	TAL1_ENST00000371883.3_Missense_Mutation_p.P303T|TAL1_ENST00000459729.1_5'UTR|TAL1_ENST00000371884.2_Missense_Mutation_p.P301T	NM_003189.2	NP_003180.1	P17542	TAL1_HUMAN	T-cell acute lymphocytic leukemia 1	301					angiogenesis (GO:0001525)|astrocyte fate commitment (GO:0060018)|basophil differentiation (GO:0030221)|cell fate commitment (GO:0045165)|definitive hemopoiesis (GO:0060216)|embryonic hemopoiesis (GO:0035162)|erythrocyte differentiation (GO:0030218)|erythrocyte maturation (GO:0043249)|hemangioblast cell differentiation (GO:0060217)|hematopoietic stem cell differentiation (GO:0060218)|hemopoiesis (GO:0030097)|locomotory behavior (GO:0007626)|megakaryocyte development (GO:0035855)|megakaryocyte differentiation (GO:0030219)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|platelet formation (GO:0030220)|positive regulation of cell division (GO:0051781)|positive regulation of chromatin assembly or disassembly (GO:0045799)|positive regulation of erythrocyte differentiation (GO:0045648)|positive regulation of mitotic cell cycle (GO:0045931)|positive regulation of protein complex assembly (GO:0031334)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cell proliferation (GO:0042127)|regulation of mast cell differentiation (GO:0060375)|regulation of stem cell maintenance (GO:2000036)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|spinal cord association neuron differentiation (GO:0021527)	nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|E-box binding (GO:0070888)|enzyme binding (GO:0019899)|histone deacetylase binding (GO:0042826)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II transcription factor binding (GO:0001085)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			haematopoietic_and_lymphoid_tissue(1)|lung(12)|prostate(1)|upper_aerodigestive_tract(1)	15						TAGCTGTCCGGGCTGGCTGCC	0.711			T	"TRD@, SIL"	lymphoblastic leukemia/biphasic																																		Dom	yes		1	1p32	6886	T-cell acute lymphocytic leukemia 1 (SCL)		L	0													24	29	27					1																	47685487		2189	4280	6469	SO:0001583	missense	6886			M29038	CCDS547.1	1p32	2013-05-21	2001-12-04		ENSG00000162367	ENSG00000162367		"Basic helix-loop-helix proteins"	11556	protein-coding gene	gene with protein product		187040		TCL5		2740341	Standard	NM_001287347		Approved	SCL, bHLHa17	uc009vyq.2	P17542	OTTHUMG00000007847	ENST00000294339.3:c.901C>A	1.37:g.47685487G>T	ENSP00000294339:p.Pro301Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQ24	Missense_Mutation	SNP	ENST00000294339.3	37	CCDS547.1	.	.	.	.	.	.	.	.	.	.	G	19.08	3.758806	0.69763	.	.	ENSG00000162367	ENST00000371884;ENST00000371883;ENST00000294339	D;D;D	0.98633	-5.03;-5.04;-5.03	5.05	4.07	0.47477	.	0.000000	0.85682	D	0.000000	D	0.96420	0.8832	L	0.34521	1.04	0.58432	D	0.999998	P	0.48503	0.911	B	0.42282	0.382	D	0.96746	0.9550	10	0.66056	D	0.02	.	14.214	0.65781	0.0:0.0:0.85:0.15	.	301	P17542	TAL1_HUMAN	T	301;303;301	ENSP00000360951:P301T;ENSP00000360950:P303T;ENSP00000294339:P301T	ENSP00000294339:P301T	P	-	1	0	TAL1	47458074	1.000000	0.71417	1.000000	0.80357	0.763000	0.43281	7.404000	0.79996	2.363000	0.80096	0.478000	0.44815	CCG		0.711	TAL1-002	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000021640.1	NM_003189		T	47685487	G	T	47685487	3	4	627	1	0	0	0	0	1	0	0	0	15553	1232	43	4	98	4	TAL1	1	47685487	Missense_Mutation	SNP	G	TCGA-KL-8328-01A-11D-2310-10	15584369	47685487	201565134	3	38508										
NFIA	4774	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	61869880	61869880	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ccatccgctatcaccctcagGagacgctgaaagaatttgtc	8	13	2	3			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr1:61869880G>A	ENST00000403491.3	+	8	1664	c.1180G>A	c.(1180-1182)Gag>Aag	p.E394K	NFIA_ENST00000371184.2_Missense_Mutation_p.E265K|NFIA_ENST00000407417.3_Missense_Mutation_p.E386K|NFIA_ENST00000357977.5_Missense_Mutation_p.E42K|NFIA_ENST00000371185.2_Missense_Mutation_p.E372K|NFIA_ENST00000371191.1_Missense_Mutation_p.E417K|NFIA_ENST00000371189.4_Missense_Mutation_p.E439K|NFIA_ENST00000479364.1_3'UTR|NFIA_ENST00000371187.3_Missense_Mutation_p.E394K|NFIA_ENST00000485903.2_Missense_Mutation_p.E351K	NM_001134673.3|NM_005595.4	NP_001128145.1|NP_005586.1	Q12857	NFIA_HUMAN	nuclear factor I/A	394					DNA replication (GO:0006260)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|response to organic cyclic compound (GO:0014070)|viral genome replication (GO:0019079)	nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)		NFIA/EHF(2)	endometrium(1)|kidney(2)|large_intestine(8)|lung(20)|pancreas(1)|prostate(1)|skin(1)	34						TCACCCTCAGGAGACGCTGAA	0.512																																																0													107	96	100					1																	61869880		2203	4300	6503	SO:0001583	missense	4774			U07809	CCDS615.1, CCDS44156.1, CCDS53322.1, CCDS53321.1	1p31.3-p31.2	2008-02-05			ENSG00000162599	ENSG00000162599			7784	protein-coding gene	gene with protein product		600727				7590749	Standard	NM_001134673		Approved	NFI-L, KIAA1439	uc010oos.2	Q12857	OTTHUMG00000008618	ENST00000403491.3:c.1180G>A	1.37:g.61869880G>A	ENSP00000384523:p.Glu394Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRJ3|B4DS53|F5H0R0|F8W8W3|Q8TA97|Q9H3X9|Q9P2A9	Missense_Mutation	SNP	ENST00000403491.3	37	CCDS44156.1	.	.	.	.	.	.	.	.	.	.	G	20.3	3.967262	0.74131	.	.	ENSG00000162599	ENST00000371191;ENST00000407417;ENST00000371189;ENST00000403491;ENST00000485903;ENST00000371185;ENST00000371184;ENST00000371187	T;T;T;T;T;T	0.50813	0.73;0.73;0.73;0.73;0.73;0.73	5.62	5.62	0.85841	.	0.000000	0.85682	D	0.000000	T	0.42607	0.1210	N	0.19112	0.55	0.80722	D	1	D;P;B;P;B	0.54964	0.969;0.884;0.022;0.884;0.017	P;P;B;P;B	0.47673	0.554;0.482;0.015;0.482;0.008	T	0.14559	-1.0468	10	0.25751	T	0.34	-14.2049	20.0274	0.97527	0.0:0.0:1.0:0.0	.	439;417;372;394;394	F8W8W3;B1AKN8;B1AKN5;Q12857;Q12857-2	.;.;.;NFIA_HUMAN;.	K	417;386;439;394;394;372;265;351	ENSP00000360233:E417K;ENSP00000384680:E386K;ENSP00000360231:E439K;ENSP00000384523:E394K;ENSP00000360227:E372K;ENSP00000360226:E265K	ENSP00000360226:E265K	E	+	1	0	NFIA	61642468	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.379000	0.97198	2.798000	0.96311	0.557000	0.71058	GAG		0.512	NFIA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023799.3	NM_005595		A	61869880	G	A	61869880	3	1	627	1	0	0	0	0	1	0	0	0	10377	1175	41	2	1356	2	NFIA	1	61869880	Missense_Mutation	SNP	G	TCGA-KL-8328-01A-11D-2310-10	14184393	61869880	187380741	4	38509										
NBPF10	100132406	mdanderson.org	37	chr1	145304613	145304613	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	caactctcattggctcatccTctcatgttgaatgggaggat	9	10	3	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr1:145304613T>C	ENST00000369339.3	+	7	986	c.733T>C	c.(733-735)Tct>Cct	p.S245P	RP11-458D21.5_ENST00000468030.1_3'UTR|NBPF10_ENST00000369338.1_Missense_Mutation_p.S245P|NBPF10_ENST00000342960.5_Missense_Mutation_p.S516P			Q6P3W6	NBPFA_HUMAN	neuroblastoma breakpoint family, member 10	516	NBPF 1. {ECO:0000255|PROSITE- ProRule:PRU00647}.					cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(3)|breast(1)|central_nervous_system(3)|endometrium(12)|kidney(23)|lung(15)|ovary(1)|prostate(7)|skin(6)|urinary_tract(2)	73	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		TGGCTCATCCTCTCATGTTGA	0.428																																																0																																										SO:0001583	missense	100132406			BC021111		1q21.1	2013-01-17			ENSG00000163386	ENSG00000271425		"neuroblastoma breakpoint family"	31992	protein-coding gene	gene with protein product		614000				16079250	Standard	NM_001039703		Approved	AG1		Q6P3W6	OTTHUMG00000013757	ENST00000369339.3:c.733T>C	1.37:g.145304613T>C	ENSP00000358345:p.Ser245Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5RHC0|Q9NWN6	Missense_Mutation	SNP	ENST00000369339.3	37		.	.	.	.	.	.	.	.	.	.	.	7.591	0.670689	0.14776	.	.	ENSG00000163386	ENST00000448873;ENST00000369338;ENST00000369334;ENST00000342960;ENST00000449032	T;T	0.03607	3.87;3.91	0.745	0.745	0.18359	.	.	.	.	.	T	0.03695	0.0105	L	0.50333	1.59	0.09310	N	1	P;D;D;D	0.64830	0.676;0.994;0.962;0.985	B;D;P;P	0.64144	0.307;0.922;0.756;0.783	T	0.39542	-0.9609	9	0.72032	D	0.01	.	3.8102	0.08793	0.0:0.0:0.0:1.0	.	191;481;447;245	Q4VC10;Q3BBV7;Q5U227;A8MQ30	.;.;.;.	P	441;245;245;516;5	ENSP00000358344:S245P;ENSP00000345684:S516P	ENSP00000345684:S516P	S	+	1	0	NBPF10	144015970	0.001000	0.12720	0.003000	0.11579	0.041000	0.13682	1.237000	0.32695	0.571000	0.29365	0.136000	0.15936	TCT		0.428	NBPF10-001	KNOWN	not_best_in_genome_evidence|basic	protein_coding	protein_coding	OTTHUMT00000038550.3	NM_001039703		C	145304613	T	C	145304613	3	2	627	1	0	0	0	0	1	0	0	0	10200	1551	54	3	1584	3	NBPF10	1	145304613	Missense_Mutation	SNP	T	TCGA-KL-8328-01A-11D-2310-10	83434733	145304613	103946008	5	38510										
IQGAP3	128239	ucsc.edu;bcgsc.ca	37	chr1	156531643	156531643	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ggctaacctgtgccttctgcTctctgtctgagttcagctgc	10	13	4	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr1:156531643T>C	ENST00000361170.2	-	10	1038	c.1028A>G	c.(1027-1029)gAg>gGg	p.E343G		NM_178229.4	NP_839943.2	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	343					activation of MAPK activity (GO:0000187)|cellular response to organic substance (GO:0071310)|ERK1 and ERK2 cascade (GO:0070371)|G1/S transition of mitotic cell cycle (GO:0000082)|negative regulation of gene expression (GO:0010629)|positive regulation of gene expression (GO:0010628)|positive regulation of mammary gland epithelial cell proliferation (GO:0033601)|Ras protein signal transduction (GO:0007265)|regulation of cell size (GO:0008361)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|lateral plasma membrane (GO:0016328)	Ras GTPase activator activity (GO:0005099)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(8)|kidney(2)|large_intestine(14)|lung(29)|ovary(5)|prostate(5)|skin(5)|urinary_tract(3)	75	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TGCCTTCTGCTCTCTGTCTGA	0.552																																																0													99	78	85					1																	156531643		2203	4300	6503	SO:0001583	missense	128239			AY253300	CCDS1144.1	1q21.3	2008-02-05			ENSG00000183856	ENSG00000183856			20669	protein-coding gene	gene with protein product							Standard	NM_178229		Approved		uc001fpf.3	Q86VI3	OTTHUMG00000033114	ENST00000361170.2:c.1028A>G	1.37:g.156531643T>C	ENSP00000354451:p.Glu343Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3H8	Missense_Mutation	SNP	ENST00000361170.2	37	CCDS1144.1	.	.	.	.	.	.	.	.	.	.	T	20.2	3.946957	0.73672	.	.	ENSG00000183856	ENST00000361170	T	0.06449	3.3	5.41	5.41	0.78517	.	0.060400	0.64402	D	0.000004	T	0.06917	0.0176	M	0.69248	2.105	0.51233	D	0.999918	P	0.49090	0.919	P	0.45343	0.477	T	0.04635	-1.0937	10	0.62326	D	0.03	-28.6821	14.2677	0.66129	0.0:0.0:0.0:1.0	.	343	Q86VI3	IQGA3_HUMAN	G	343	ENSP00000354451:E343G	ENSP00000354451:E343G	E	-	2	0	IQGAP3	154798267	1.000000	0.71417	1.000000	0.80357	0.891000	0.51852	7.845000	0.86875	2.059000	0.61396	0.459000	0.35465	GAG		0.552	IQGAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080657.1	NM_178229		C	156531643	T	C	156531643	3	2	627	1	0	0	0	0	1	0	0	0	7823	1551	54	3	3983	3	IQGAP3	1	156531643	Missense_Mutation	SNP	T	TCGA-KL-8328-01A-11D-2310-10	11227030	156531643	92718978	6	38511										
RASAL2	9462	bcgsc.ca	37	chr1	178426034	178426034	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	atttgaagaccccactgacaGgtatgaaagagagaatttga	10	6	0	7			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr1:178426034G>T	ENST00000462775.1	+	11	2092	c.1967G>T	c.(1966-1968)aGt>aTt	p.S656I	RASAL2_ENST00000367649.3_Splice_Site_p.S797I|RASAL2_ENST00000448150.3_Splice_Site_p.S786I	NM_004841.3	NP_004832.1	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2	656					negative regulation of Ras protein signal transduction (GO:0046580)|positive regulation of Ras GTPase activity (GO:0032320)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)	Ras GTPase activator activity (GO:0005099)			biliary_tract(1)|breast(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|liver(2)|lung(25)|ovary(2)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	54						CCCACTGACAGGTATGAAAGA	0.388																																																0													61	64	63					1																	178426034		2203	4300	6503	SO:0001630	splice_region_variant	9462			AF047711	CCDS1321.1, CCDS1322.1, CCDS1321.2	1q25	2013-01-10			ENSG00000075391	ENSG00000075391		"Pleckstrin homology (PH) domain containing"	9874	protein-coding gene	gene with protein product	"Ras GTPase activating protein-like", "Ras protein activator like 1"	606136				9877179	Standard	NM_004841		Approved	nGAP	uc001glq.3	Q9UJF2	OTTHUMG00000035022	ENST00000462775.1:c.1967+1G>T	1.37:g.178426034G>T		Somatic		WXS	Illumina HiSeq	Phase_I	F8W755|O95174|Q2TB22|Q5TFU9	Missense_Mutation	SNP	ENST00000462775.1	37	CCDS1322.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	18.11|18.11	3.551036|3.551036	0.65311|0.65311	.|.	.|.	ENSG00000075391|ENSG00000075391	ENST00000433130|ENST00000448150;ENST00000367649;ENST00000462775	.|T;T;T	.|0.10477	.|2.87;2.87;2.87	5.26|5.26	5.26|5.26	0.73747|0.73747	.|.	.|0.110656	.|0.40144	.|N	.|0.001179	T|T	0.12944|0.12944	0.0314|0.0314	N|N	0.25485|0.25485	0.75|0.75	0.80722|0.80722	D|D	1|1	.|P;P;P	.|0.50528	.|0.57;0.57;0.936	.|P;B;B	.|0.45577	.|0.486;0.292;0.282	T|T	0.02009|0.02009	-1.1230|-1.1230	5|10	.|0.56958	.|D	.|0.05	.|.	18.8667|18.8667	0.92294|0.92294	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|786;656;797	.|B1AKC7;Q9UJF2;F8W755	.|.;NGAP_HUMAN;.	H|I	206|786;797;656	.|ENSP00000407768:S786I;ENSP00000356621:S797I;ENSP00000420558:S656I	.|ENSP00000356621:S797I	Q|S	+|+	3|2	2|0	RASAL2|RASAL2	176692657|176692657	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.992000|0.992000	0.81027|0.81027	9.024000|9.024000	0.93689|0.93689	2.438000|2.438000	0.82558|0.82558	0.655000|0.655000	0.94253|0.94253	CAG|AGT		0.388	RASAL2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000084758.3	NM_170692	Missense_Mutation	T	178426034	G	T	178426034	5	4	627	1	0	0	0	0	0	0	1	0	13077	1014	35	4	2478	4	RASAL2	1	178426034	Splice_Site	SNP	G	TCGA-KL-8328-01A-11D-2310-10	21894391	178426034	70824587	7	38512										
RBBP5	5929	bcgsc.ca	37	chr1	205070729	205070729	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	aaggtaagatctcactcaccTccccttccgggcaaactcaa	6	15	3	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr1:205070729T>C	ENST00000264515.6	-	6	772	c.631A>G	c.(631-633)Agt>Ggt	p.S211G	RBBP5_ENST00000367164.1_Splice_Site_p.S211G	NM_001193273.1|NM_005057.3	NP_001180202.1|NP_005048.2	Q15291	RBBP5_HUMAN	retinoblastoma binding protein 5	211					cellular response to DNA damage stimulus (GO:0006974)|histone H3-K4 methylation (GO:0051568)|regulation of transcription, DNA-templated (GO:0006355)|response to estrogen (GO:0043627)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|MLL1 complex (GO:0071339)|nucleolus (GO:0005730)|nucleus (GO:0005634)|Set1C/COMPASS complex (GO:0048188)	methylated histone binding (GO:0035064)|transcription regulatory region DNA binding (GO:0044212)			cervix(1)|kidney(3)|large_intestine(4)|lung(14)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)	27	Breast(84;0.0505)		BRCA - Breast invasive adenocarcinoma(75;0.0923)			CTCACTCACCTCCCCTTCCGG	0.383																																																0													194	192	192					1																	205070729		2203	4300	6503	SO:0001630	splice_region_variant	5929			BC053856	CCDS30983.1, CCDS53463.1	1q32	2013-01-10	2001-11-28		ENSG00000117222	ENSG00000117222		"WD repeat domain containing"	9888	protein-coding gene	gene with protein product	"SWD1, Set1c WD40 repeat protein, homolog (S. cerevisiae)"	600697	"retinoblastoma-binding protein 5"			7558034	Standard	NM_005057		Approved	RBQ3, SWD1	uc001hbu.2	Q15291	OTTHUMG00000037104	ENST00000264515.6:c.632+1A>G	1.37:g.205070729T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K272|Q7Z6D8|Q8NDZ7	Missense_Mutation	SNP	ENST00000264515.6	37	CCDS30983.1	.	.	.	.	.	.	.	.	.	.	T	16.53	3.149489	0.57151	.	.	ENSG00000117222	ENST00000264515;ENST00000367164	T;T	0.19105	2.17;2.17	5.83	5.83	0.93111	WD40/YVTN repeat-like-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.24005	0.0581	L	0.50333	1.59	0.80722	D	1	B;B;B;B	0.15141	0.005;0.007;0.007;0.012	B;B;B;B	0.16722	0.016;0.013;0.009;0.013	T	0.01661	-1.1301	10	0.49607	T	0.09	.	15.902	0.79384	0.0:0.0:0.0:1.0	.	84;246;211;211	B4DLF8;B4DMM7;Q15291-2;Q15291	.;.;.;RBBP5_HUMAN	G	211	ENSP00000264515:S211G;ENSP00000356132:S211G	ENSP00000264515:S211G	S	-	1	0	RBBP5	203337352	1.000000	0.71417	1.000000	0.80357	0.971000	0.66376	7.920000	0.87521	2.238000	0.73509	0.477000	0.44152	AGT		0.383	RBBP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090077.1	NM_005057	Missense_Mutation	C	205070729	T	C	205070729	5	2	627	1	0	0	0	0	0	0	1	0	13115	1565	54	3	1021	3	RBBP5	1	205070729	Splice_Site	SNP	T	TCGA-KL-8328-01A-11D-2310-10	26644695	205070729	44179892	8	38513										
C2orf43	60526	bcgsc.ca	37	chr2	20886772	20886772	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ttttctcacagagtcgaatgTctccttctggaaaatccttc	6	11	3	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr2:20886772T>C	ENST00000237822.3	-	7	948	c.869A>G	c.(868-870)gAc>gGc	p.D290G	C2orf43_ENST00000435420.2_Missense_Mutation_p.D242G|C2orf43_ENST00000381090.3_Missense_Mutation_p.D290G|C2orf43_ENST00000541941.1_Missense_Mutation_p.D160G|C2orf43_ENST00000440866.2_3'UTR|C2orf43_ENST00000403006.2_Missense_Mutation_p.D160G	NM_001282721.1|NM_021925.2	NP_001269650.1|NP_068744.1	Q9H6V9	CB043_HUMAN	chromosome 2 open reading frame 43	290										endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|stomach(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAGTCGAATGTCTCCTTCTGG	0.383																																																0													133	122	125					2																	20886772		2203	4300	6503	SO:0001583	missense	60526			AK025473	CCDS1702.1, CCDS62864.1, CCDS74488.1, CCDS74489.1	2p24.1	2014-02-07			ENSG00000118961	ENSG00000118961			26145	protein-coding gene	gene with protein product		613570				17135363, 24357060	Standard	NM_001282723		Approved	FLJ21820	uc002rec.3	Q9H6V9	OTTHUMG00000122097	ENST00000237822.3:c.869A>G	2.37:g.20886772T>C	ENSP00000237822:p.Asp290Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZA47|B7ZAJ5|D6W530|E7ESN0|Q53T37|Q53T58	Missense_Mutation	SNP	ENST00000237822.3	37	CCDS1702.1	.	.	.	.	.	.	.	.	.	.	T	29.2	4.981877	0.93044	.	.	ENSG00000118961	ENST00000403006;ENST00000381090;ENST00000237822;ENST00000435420;ENST00000541941	T;T;T	0.44881	0.91;1.54;0.91	6.08	6.08	0.98989	.	0.382752	0.28766	N	0.014219	T	0.57403	0.2051	L	0.58669	1.825	0.80722	D	1	D;D;P;P	0.89917	0.992;1.0;0.67;0.619	P;D;B;B	0.64506	0.85;0.926;0.232;0.178	T	0.51325	-0.8720	10	0.21540	T	0.41	-22.398	15.2149	0.73258	0.0:0.0:0.0:1.0	.	248;242;290;290	B4DS38;B7ZAJ5;Q9H6V9;B5MDU6	.;.;CB043_HUMAN;.	G	160;290;290;242;160	ENSP00000384267:D160G;ENSP00000388635:D242G;ENSP00000440570:D160G	ENSP00000237822:D290G	D	-	2	0	C2orf43	20750253	1.000000	0.71417	1.000000	0.80357	0.960000	0.62799	5.604000	0.67626	2.333000	0.79357	0.533000	0.62120	GAC		0.383	C2orf43-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000242861.1	NM_021925		C	20886772	T	C	20886772	3	2	627	1	0	0	0	0	1	0	0	0	2169	1667	58	3	112	3	C2orf43	2	20886772	Missense_Mutation	SNP	T	TCGA-KL-8328-01A-11D-2310-10		20886772	222312601	9	38514										
MSH6	2956	mdanderson.org	37	chr2	48010558	48010558	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gggcccaggcccttggcgcgCtccgcgtcaccgcccaaggc	14	19	1	0	rs1042820	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr2:48010558C>A	ENST00000234420.5	+	1	338	c.186C>A	c.(184-186)cgC>cgA	p.R62R	MSH6_ENST00000540021.1_Silent_p.R62R|MSH6_ENST00000538136.1_5'Flank|RNU6-688P_ENST00000516063.1_RNA	NM_000179.2	NP_000170.1	P52701	MSH6_HUMAN	mutS homolog 6	62					ATP catabolic process (GO:0006200)|determination of adult lifespan (GO:0008340)|DNA repair (GO:0006281)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|isotype switching (GO:0045190)|meiotic mismatch repair (GO:0000710)|mismatch repair (GO:0006298)|negative regulation of DNA recombination (GO:0045910)|positive regulation of helicase activity (GO:0051096)|reciprocal meiotic recombination (GO:0007131)|response to UV (GO:0009411)|somatic hypermutation of immunoglobulin genes (GO:0016446)|somatic recombination of immunoglobulin gene segments (GO:0016447)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|MutSalpha complex (GO:0032301)|nuclear chromatin (GO:0000790)|nuclear chromosome (GO:0000228)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|damaged DNA binding (GO:0003684)|DNA-dependent ATPase activity (GO:0008094)|guanine/thymine mispair binding (GO:0032137)|methylated histone binding (GO:0035064)|mismatched DNA binding (GO:0030983)	p.0?(2)		breast(8)|central_nervous_system(29)|cervix(1)|endometrium(32)|haematopoietic_and_lymphoid_tissue(12)|kidney(2)|large_intestine(75)|lung(25)|ovary(3)|prostate(3)|skin(10)|stomach(22)|thyroid(1)|upper_aerodigestive_tract(1)|urinary_tract(5)	229		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			CCTTGGCGCGCTCCGCGTCAC	0.756			"Mis, N, F, S"		colorectal	"colorectal, endometrial, ovarian"		Mismatch excision repair (MMR)	Turcot syndrome;Muir-Torre syndrome;Lynch syndrome;Constitutional Mismatch Repair Deficiency Syndrome				C|||	346	0.0690895	0.0204	0.1138	5008	,	,		8411	0.0		0.175	False		,,,				2504	0.0654					yes	Rec	yes	Hereditary non-polyposis colorectal cancer	2	2p16	2956	mutS homolog 6 (E. coli)		E	2	Whole gene deletion(2)	haematopoietic_and_lymphoid_tissue(2)						C		157,3307		7,143,1582	3	4	3	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	186	1.4	0	2	dbSNP_86	3	1075,6023		89,897,2563	no	coding-synonymous	MSH6	NM_000179.2		96,1040,4145	AA,AC,CC		15.1451,4.5323,11.6645		62/1361	48010558	1232,9330	1732	3549	5281	SO:0001819	synonymous_variant	2956	Familial Cancer Database	Brain tumor-colorectal polyp(osis) syndrome; ;Hereditary Non-Polyposis Colorectal Cancer, HNPCC, Lynch syndromes 1 and 2 (= Cancer Family Syndrome), Hereditary Mismatch Repair Deficiency syndrome, HMRDS;Mismatch Repair Cancer syndrome, MMRCS, Childhood Cancer Syndrome, CCS, Biallelic Mismatch Repair Gene Mutations Associated Early Onset Cancer, Lynch syndrome type III	U54777	CCDS1836.1, CCDS62906.1, CCDS62907.1	2p16	2014-09-17	2013-09-12		ENSG00000116062	ENSG00000116062			7329	protein-coding gene	gene with protein product		600678	"mutS (E. coli) homolog 6", "mutS homolog 6 (E. coli)"	GTBP		7604266	Standard	NM_000179		Approved		uc002rwd.4	P52701	OTTHUMG00000129129	ENST00000234420.5:c.186C>A	2.37:g.48010558C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DF41|B4E3I4|F5H2F9|O43706|O43917|Q8TCX4|Q9BTB5	Silent	SNP	ENST00000234420.5	37	CCDS1836.1																																																																																				0.756	MSH6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251180.4	NM_000179		A	48010558	C	A	48010558	2	1	627	1	0	0	0	0	0	0	0	1	9881	784	28	4		4	MSH6	2	48010558	Silent	SNP	C	TCGA-KL-8328-01A-11D-2310-10	27123786	48010558	195188815	10	38515										
EXOC6B	23233	ucsc.edu;bcgsc.ca	37	chr2	72725650	72725650	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	tctgatttctaacagcatgtCaaaaagctgatttacaggga	8	7	3	2			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr2:72725650C>T	ENST00000272427.6	-	13	1400	c.1270G>A	c.(1270-1272)Gac>Aac	p.D424N	EXOC6B_ENST00000410104.1_Missense_Mutation_p.D424N	NM_015189.1	NP_056004.1	Q9Y2D4	EXC6B_HUMAN	exocyst complex component 6B	424					protein transport (GO:0015031)|vesicle docking involved in exocytosis (GO:0006904)	exocyst (GO:0000145)		p.D424H(1)		breast(1)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(3)	10						AACAGCATGTCAAAAAGCTGA	0.338																																																1	Substitution - Missense(1)	NS(1)											87	78	81					2																	72725650		1821	4093	5914	SO:0001583	missense	23233			AB023136	CCDS46333.1	2p13.2	2013-01-22	2006-11-07	2006-11-07	ENSG00000144036	ENSG00000144036			17085	protein-coding gene	gene with protein product		607880	"SEC15-like 2 (S. cerevisiae)", "SEC15 homolog B (S. cerevisiae)"	SEC15L2, SEC15B		10231032, 11406615	Standard	NM_015189		Approved	KIAA0919	uc010fep.3	Q9Y2D4	OTTHUMG00000152723	ENST00000272427.6:c.1270G>A	2.37:g.72725650C>T	ENSP00000272427:p.Asp424Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B8ZZY3	Missense_Mutation	SNP	ENST00000272427.6	37	CCDS46333.1	.	.	.	.	.	.	.	.	.	.	C	28.9	4.957160	0.92726	.	.	ENSG00000144036	ENST00000272427;ENST00000410104;ENST00000290144	T;T	0.30714	1.52;1.52	5.13	5.13	0.70059	.	0.000000	0.85682	D	0.000000	T	0.49338	0.1551	L	0.54323	1.7	0.80722	D	1	D;P	0.63880	0.993;0.92	D;P	0.70935	0.971;0.73	T	0.25082	-1.0142	10	0.31617	T	0.26	.	16.1342	0.81471	0.0:1.0:0.0:0.0	.	424;424	Q9Y2D4;Q9Y2D4-2	EXC6B_HUMAN;.	N	424	ENSP00000272427:D424N;ENSP00000386698:D424N	ENSP00000272427:D424N	D	-	1	0	EXOC6B	72579158	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.434000	0.80377	2.693000	0.91896	0.650000	0.86243	GAC		0.338	EXOC6B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327558.1	XM_039570		T	72725650	C	T	72725650	3	4	627	1	0	0	0	0	1	0	0	0	5311	826	29	2	1205	2	EXOC6B	2	72725650	Missense_Mutation	SNP	C	TCGA-KL-8328-01A-11D-2310-10	24715092	72725650	170473723	11	38516										
IL1RL1	9173	ucsc.edu	37	chr2	102964403	102964403	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	tctttttctttcttttgaatAgttgatcatcatagcatcta	4	7	6	2			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr2:102964403A>G	ENST00000233954.1	+	9	1241		c.e9-1			NM_016232.4	NP_057316.3	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1						immune response (GO:0006955)|intracellular signal transduction (GO:0035556)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of interferon-gamma production (GO:0032689)|negative regulation of T-helper 1 type immune response (GO:0002826)|positive regulation of chemokine secretion (GO:0090197)|positive regulation of inflammatory response (GO:0050729)|positive regulation of interleukin-5 production (GO:0032754)|positive regulation of macrophage activation (GO:0043032)|signal transduction (GO:0007165)	external side of plasma membrane (GO:0009897)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)	cytokine receptor activity (GO:0004896)|interleukin-1 receptor activity (GO:0004908)|interleukin-33 receptor activity (GO:0002114)|receptor signaling protein activity (GO:0005057)			NS(1)|central_nervous_system(1)|kidney(1)|large_intestine(3)|lung(5)|ovary(1)|skin(3)|urinary_tract(1)	16						TCTTTTGAATAGTTGATCATC	0.313																																																0													74	72	72					2																	102964403		2203	4300	6503	SO:0001630	splice_region_variant	9173			D12764	CCDS2057.1, CCDS2058.1, CCDS74548.1	2q12	2013-01-29			ENSG00000115602	ENSG00000115602		"Interleukins and interleukin receptors", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5998	protein-coding gene	gene with protein product	"homolog of mouse growth stimulation-expressed"	601203				1482686, 10191101, 16286016	Standard	NM_016232		Approved	ST2, FIT-1, ST2L, ST2V, DER4, T1, IL33R	uc002tbu.1	Q01638	OTTHUMG00000130782	ENST00000233954.1:c.971-1A>G	2.37:g.102964403A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6B3|B4E0I3|Q53TU7|Q8NEJ3|Q9ULV7|Q9UQ44	Splice_Site	SNP	ENST00000233954.1	37	CCDS2057.1	.	.	.	.	.	.	.	.	.	.	a	13.35	2.212003	0.39102	.	.	ENSG00000115602	ENST00000233954	.	.	.	5.53	5.53	0.82687	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.3356	0.60516	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	IL1RL1	102330835	1.000000	0.71417	0.996000	0.52242	0.375000	0.29983	4.979000	0.63806	2.231000	0.72958	0.455000	0.32223	.		0.313	IL1RL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253296.1	NM_016232	Intron	G	102964403	A	G	102964403	5	3	627	1	0	0	0	0	0	0	1	0	7670	434	15	3	1016	3	IL1RL1	2	102964403	Splice_Site	SNP	A	TCGA-KL-8328-01A-11D-2310-10	30238753	102964403	140234970	12	38517										
MBD5	55777	broad.mit.edu;mdanderson.org	37	chr2	149226187	149226187	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ggaggcctgcccagcccagcGtcatcaggttcccagatata	11	14	2	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr2:149226187G>A	ENST00000407073.1	+	9	1672	c.675G>A	c.(673-675)gcG>gcA	p.A225A	MBD5_ENST00000404807.1_Silent_p.A225A	NM_018328.4	NP_060798.2	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	225					glucose homeostasis (GO:0042593)|nervous system development (GO:0007399)|positive regulation of growth hormone receptor signaling pathway (GO:0060399)|regulation of multicellular organism growth (GO:0040014)|single-organism behavior (GO:0044708)	chromocenter (GO:0010369)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	chromatin binding (GO:0003682)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(8)|kidney(1)|large_intestine(16)|lung(22)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(3)	62				BRCA - Breast invasive adenocarcinoma(221;0.0569)		CCAGCCCAGCGTCATCAGGTT	0.512																																																0													97	101	100					2																	149226187		2203	4300	6503	SO:0001819	synonymous_variant	55777			AB040894	CCDS33302.1	2q23.2	2009-04-17			ENSG00000204406	ENSG00000204406			20444	protein-coding gene	gene with protein product		611472				12529184	Standard	NM_018328		Approved	FLJ11113, KIAA1461	uc002twm.4	Q9P267	OTTHUMG00000150440	ENST00000407073.1:c.675G>A	2.37:g.149226187G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A5HMQ4|A7E2B1|Q53SR1|Q9NUV6	Silent	SNP	ENST00000407073.1	37	CCDS33302.1																																																																																				0.512	MBD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318111.2			A	149226187	G	A	149226187	2	1	627	1	0	0	0	0	0	0	0	1	9354	1132	40	1		1	MBD5	2	149226187	Silent	SNP	G	TCGA-KL-8328-01A-11D-2310-10	46261784	149226187	93973186	13	38518										
XIRP2	129446	broad.mit.edu	37	chr2	168100984	168100984	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ttgaaacaaggcccattgacCagtttgatgaaagcattcat	8	8	1	4			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr2:168100984C>T	ENST00000409195.1	+	9	3171	c.3082C>T	c.(3082-3084)Cag>Tag	p.Q1028*	XIRP2_ENST00000420519.1_Intron|XIRP2_ENST00000409273.1_Nonsense_Mutation_p.Q806*|XIRP2_ENST00000409043.1_Intron|XIRP2_ENST00000295237.9_Nonsense_Mutation_p.Q1028*|XIRP2_ENST00000409605.1_Intron|XIRP2_ENST00000409728.1_Intron|XIRP2_ENST00000409756.2_Intron	NM_152381.5	NP_689594.4	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2	853					actin cytoskeleton organization (GO:0030036)|cardiac muscle tissue morphogenesis (GO:0055008)|cell-cell junction organization (GO:0045216)|ventricular septum development (GO:0003281)	cell junction (GO:0030054)|Z disc (GO:0030018)				NS(3)|biliary_tract(2)|breast(5)|cervix(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(51)|lung(160)|ovary(7)|pancreas(3)|prostate(11)|skin(14)|stomach(5)|upper_aerodigestive_tract(8)|urinary_tract(7)	315						GCCCATTGACCAGTTTGATGA	0.363																																																0													62	58	59					2																	168100984		1836	4084	5920	SO:0001587	stop_gained	129446			AK056582	CCDS42768.1, CCDS42769.1, CCDS56143.1, CCDS56144.1, CCDS56145.1	2q31.1	2013-10-25	2007-06-27	2007-06-27	ENSG00000163092	ENSG00000163092			14303	protein-coding gene	gene with protein product	"myomaxin"	609778	"cardiomyopathy associated 3"	CMYA3		17046827, 12203715, 15454575	Standard	NM_001079810		Approved		uc002udx.3	A4UGR9	OTTHUMG00000154027	ENST00000409195.1:c.3082C>T	2.37:g.168100984C>T	ENSP00000386840:p.Gln1028*	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJ94|B2BBS0|B2BBS1|B2BBS4|B3KVH0|J3KNB1|Q53R52|Q5MJ67|Q702N7|Q86T36|Q86T38|Q86T46|Q86T51|Q86T53|Q86T55|Q86T79|Q86TB6|Q8N1M9|Q8N3R5|Q8TBV6	Nonsense_Mutation	SNP	ENST00000409195.1	37	CCDS42769.1	.	.	.	.	.	.	.	.	.	.	C	41	8.956275	0.99016	.	.	ENSG00000163092	ENST00000409195;ENST00000295237;ENST00000409273	.	.	.	6.08	6.08	0.98989	.	0.109913	0.64402	D	0.000007	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.72032	D	0.01	-10.9057	19.4349	0.94788	0.0:1.0:0.0:0.0	.	.	.	.	X	1028;1028;806	.	ENSP00000295237:Q1028X	Q	+	1	0	XIRP2	167809230	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.088000	0.50175	2.894000	0.99253	0.655000	0.94253	CAG		0.363	XIRP2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000333547.1	NM_152381		T	168100984	C	T	168100984	4	4	627	1	0	0	0	0	0	1	0	0	17442	595	21	2	3112	2	XIRP2	2	168100984	Nonsense_Mutation	SNP	C	TCGA-KL-8328-01A-11D-2310-10	18874797	168100984	75098389	14	38519										
LRP2	4036	hgsc.bcm.edu;ucsc.edu	37	chr2	170129474	170129474	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	tctgtatccagttggaagccGaatgtgcacttgcaacggaa	11	9	1	0	rs145709922	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr2:170129474G>A	ENST00000263816.3	-	15	2364	c.2079C>T	c.(2077-2079)ttC>ttT	p.F693F	LRP2_ENST00000443831.1_Silent_p.F624F	NM_004525.2	NP_004516.2	P98164	LRP2_HUMAN	low density lipoprotein receptor-related protein 2	693	EGF-like 3. {ECO:0000255|PROSITE- ProRule:PRU00076}.				cell proliferation (GO:0008283)|endocytosis (GO:0006897)|forebrain development (GO:0030900)|lipid metabolic process (GO:0006629)|phototransduction, visible light (GO:0007603)|protein glycosylation (GO:0006486)|receptor-mediated endocytosis (GO:0006898)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|vitamin D metabolic process (GO:0042359)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|coated pit (GO:0005905)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)			biliary_tract(1)|breast(16)|central_nervous_system(6)|cervix(2)|endometrium(24)|haematopoietic_and_lymphoid_tissue(2)|kidney(17)|large_intestine(70)|liver(1)|lung(117)|ovary(19)|pancreas(1)|prostate(2)|skin(17)|upper_aerodigestive_tract(7)|urinary_tract(13)	315				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	"""Insulin(DB00071)|Gentamicin(DB00798)|Insulin Regular(DB00030)|Urokinase(DB00013)"	GTTGGAAGCCGAATGTGCACT	0.488													G|||	2	0.000399361	0.0	0.0014	5008	,	,		20591	0.0		0.001	False		,,,				2504	0.0															0								G		4,4402	8.1+/-20.4	0,4,2199	249	233	239		2079	-11	0	2	dbSNP_134	239	35,8565	24.6+/-71.5	0,35,4265	no	coding-synonymous	LRP2	NM_004525.2		0,39,6464	AA,AG,GG		0.407,0.0908,0.2999		693/4656	170129474	39,12967	2203	4300	6503	SO:0001819	synonymous_variant	4036				CCDS2232.1	2q31.1	2013-05-28	2010-01-26		ENSG00000081479	ENSG00000081479		"Low density lipoprotein receptors"	6694	protein-coding gene	gene with protein product	"megalin"	600073				7959795	Standard	NM_004525		Approved	gp330, DBS	uc002ues.3	P98164	OTTHUMG00000132179	ENST00000263816.3:c.2079C>T	2.37:g.170129474G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O00711|Q16215	Silent	SNP	ENST00000263816.3	37	CCDS2232.1																																																																																				0.488	LRP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255231.2	NM_004525		A	170129474	G	A	170129474	2	1	627	1	0	0	0	0	0	0	0	1	8963	1049	37	1		1	LRP2	2	170129474	Silent	SNP	G	TCGA-KL-8328-01A-11D-2310-10	2028490	170129474	73069899	15	38520										
ABCA12	26154	ucsc.edu	37	chr2	215797365	215797365	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	tttgctggaagtgttaagacTccatctggtcatcttgtgag	11	7	3	2			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr2:215797365T>C	ENST00000272895.7	-	53	8000	c.7781A>G	c.(7780-7782)gAg>gGg	p.E2594G	ABCA12_ENST00000389661.4_Missense_Mutation_p.E2276G|AC072062.1_ENST00000607412.1_RNA	NM_173076.2	NP_775099.2	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 12	2594					cellular homeostasis (GO:0019725)|ceramide transport (GO:0035627)|establishment of skin barrier (GO:0061436)|keratinization (GO:0031424)|lipid homeostasis (GO:0055088)|lipid transport (GO:0006869)|lung alveolus development (GO:0048286)|phospholipid efflux (GO:0033700)|positive regulation of cholesterol efflux (GO:0010875)|positive regulation of protein localization to cell surface (GO:2000010)|protein localization to plasma membrane (GO:0072659)|regulated secretory pathway (GO:0045055)|secretion by cell (GO:0032940)|surfactant homeostasis (GO:0043129)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|epidermal lamellar body (GO:0097209)|integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|plasma membrane (GO:0005886)	apolipoprotein A-I receptor binding (GO:0034191)|ATP binding (GO:0005524)|lipid transporter activity (GO:0005319)|lipid-transporting ATPase activity (GO:0034040)|receptor binding (GO:0005102)			NS(3)|breast(5)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(45)|lung(44)|ovary(8)|pancreas(2)|prostate(4)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	139		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)		GTGTTAAGACTCCATCTGGTC	0.418																																					Ovarian(66;664 1488 5121 34295)											0													111	105	107					2																	215797365		2203	4300	6503	SO:0001583	missense	26154			AF418105	CCDS33372.1, CCDS33373.1	2q34	2012-03-14			ENSG00000144452	ENSG00000144452		"ATP binding cassette transporters / subfamily A"	14637	protein-coding gene	gene with protein product		607800	"ichthyosis congenita II, lamellar ichthyosis B"	ICR2B		11435397, 12915478, 8845852, 10094194	Standard	NM_015657		Approved	DKFZP434G232, LI2	uc002vew.3	Q86UK0	OTTHUMG00000154801	ENST00000272895.7:c.7781A>G	2.37:g.215797365T>C	ENSP00000272895:p.Glu2594Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q53QE2|Q53S55|Q8IZW6|Q96JT3|Q9Y4M5	Missense_Mutation	SNP	ENST00000272895.7	37	CCDS33372.1	.	.	.	.	.	.	.	.	.	.	T	14.33	2.503623	0.44558	.	.	ENSG00000144452	ENST00000272895;ENST00000389661	D;D	0.89746	-2.56;-2.53	5.8	5.8	0.92144	.	1.521370	0.04281	N	0.343875	D	0.85159	0.5633	N	0.24115	0.695	0.80722	D	1	B;B	0.30361	0.039;0.277	B;B	0.24394	0.024;0.053	T	0.64807	-0.6320	10	0.72032	D	0.01	.	15.1201	0.72434	0.0:0.0:0.0:1.0	.	2594;2276	Q86UK0;Q86UK0-2	ABCAC_HUMAN;.	G	2594;2276	ENSP00000272895:E2594G;ENSP00000374312:E2276G	ENSP00000272895:E2594G	E	-	2	0	ABCA12	215505610	0.024000	0.19004	0.003000	0.11579	0.966000	0.64601	2.645000	0.46621	2.214000	0.71695	0.455000	0.32223	GAG		0.418	ABCA12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337111.1	NM_173076		C	215797365	T	C	215797365	3	2	627	1	0	0	0	0	1	0	0	0	30	1551	54	3	10	3	ABCA12	2	215797365	Missense_Mutation	SNP	T	TCGA-KL-8328-01A-11D-2310-10	45667891	215797365	27402008	16	38521										
KAT2B	8850	mdanderson.org	37	chr3	20169035	20169035	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gctgtaacctcaaatgagcaAgtcaaggtaagggtaaaccc	10	9	2	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr3:20169035A>G	ENST00000263754.4	+	11	2198	c.1743A>G	c.(1741-1743)caA>caG	p.Q581Q		NM_003884.4	NP_003875.3	Q92831	KAT2B_HUMAN	K(lysine) acetyltransferase 2B	581	Acetyl-CoA binding. {ECO:0000269|PubMed:10393169}.|N-acetyltransferase. {ECO:0000250|UniProtKB:Q92830, ECO:0000255|PROSITE-ProRule:PRU00532}.				cell cycle arrest (GO:0007050)|cellular response to insulin stimulus (GO:0032869)|chromatin organization (GO:0006325)|chromatin remodeling (GO:0006338)|gene expression (GO:0010467)|histone H3 acetylation (GO:0043966)|histone H3-K9 acetylation (GO:0043970)|internal peptidyl-lysine acetylation (GO:0018393)|N-terminal peptidyl-lysine acetylation (GO:0018076)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045736)|Notch signaling pathway (GO:0007219)|peptidyl-lysine acetylation (GO:0018394)|positive regulation of gluconeogenesis (GO:0045722)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein acetylation (GO:0006473)|regulation of protein ADP-ribosylation (GO:0010835)|rhythmic process (GO:0048511)|transcription from RNA polymerase I promoter (GO:0006360)|transcription initiation from RNA polymerase I promoter (GO:0006361)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	A band (GO:0031672)|actomyosin (GO:0042641)|Ada2/Gcn5/Ada3 transcription activator complex (GO:0005671)|I band (GO:0031674)|kinetochore (GO:0000776)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PCAF complex (GO:0000125)	acetyltransferase activity (GO:0016407)|cyclin-dependent protein serine/threonine kinase inhibitor activity (GO:0004861)|histone acetyltransferase activity (GO:0004402)|histone deacetylase binding (GO:0042826)|lysine N-acetyltransferase activity, acting on acetyl phosphate as donor (GO:0004468)|protein complex binding (GO:0032403)|protein kinase binding (GO:0019901)|transcription coactivator activity (GO:0003713)|transcription cofactor activity (GO:0003712)|transcription factor binding (GO:0008134)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(10)|lung(15)|ovary(1)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	40						CAAATGAGCAAGTCAAGGTAA	0.458																																																0													161	142	149					3																	20169035		2203	4300	6503	SO:0001819	synonymous_variant	8850			U57316	CCDS2634.1	3p24	2011-07-01	2008-07-04	2008-07-04	ENSG00000114166	ENSG00000114166		"Chromatin-modifying enzymes / K-acetyltransferases"	8638	protein-coding gene	gene with protein product		602303	"p300/CBP-associated factor"	PCAF		8684459, 9722949	Standard	NM_003884		Approved	P/CAF, GCN5, GCN5L	uc003cbq.3	Q92831	OTTHUMG00000130481	ENST00000263754.4:c.1743A>G	3.37:g.20169035A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6NSK1	Silent	SNP	ENST00000263754.4	37	CCDS2634.1																																																																																				0.458	KAT2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252880.1	NM_003884		G	20169035	A	G	20169035	2	3	627	1	0	0	0	0	0	0	0	1	7989	69	3	3		3	KAT2B	3	20169035	Silent	SNP	A	TCGA-KL-8328-01A-11D-2310-10		20169035	177853395	17	38522										
CCDC66	285331	broad.mit.edu;mdanderson.org	37	chr3	56649272	56649272	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ttggcgcaaaagggacatgaCacttctagactgattaaaaa	9	7	1	3			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr3:56649272C>T	ENST00000394672.3	+	12	1753	c.1683C>T	c.(1681-1683)gaC>gaT	p.D561D	CCDC66_ENST00000326595.7_Silent_p.D527D|CCDC66_ENST00000436465.2_Silent_p.D561D	NM_001012506.4|NM_001141947.1	NP_001012524.4|NP_001135419.1	A2RUB6	CCD66_HUMAN	coiled-coil domain containing 66	561					post-embryonic retina morphogenesis in camera-type eye (GO:0060060)|retinal rod cell development (GO:0046548)					breast(1)|kidney(1)|large_intestine(2)|liver(1)|lung(4)|skin(2)|urinary_tract(1)	12				KIRC - Kidney renal clear cell carcinoma(284;0.0478)|Kidney(284;0.0597)|OV - Ovarian serous cystadenocarcinoma(275;0.233)		AGGGACATGACACTTCTAGAC	0.358																																																0													105	105	105					3																	56649272		2203	4300	6503	SO:0001819	synonymous_variant	285331			AL832692	CCDS33770.2, CCDS46852.1	3p14.3	2006-03-27			ENSG00000180376	ENSG00000180376			27709	protein-coding gene	gene with protein product						14702039	Standard	NR_024460		Approved	DKFZp686C0433	uc003dhz.3	A2RUB6	OTTHUMG00000155748	ENST00000394672.3:c.1683C>T	3.37:g.56649272C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KWL8|Q4VC34|Q8N949	Silent	SNP	ENST00000394672.3	37	CCDS46852.1																																																																																				0.358	CCDC66-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000341473.1	NM_001012506		T	56649272	C	T	56649272	2	4	627	1	0	0	0	0	0	0	0	1	2840	477	17	2		2	CCDC66	3	56649272	Silent	SNP	C	TCGA-KL-8328-01A-11D-2310-10	36480237	56649272	141373158	18	38523										
ROBO2	6092	broad.mit.edu;mdanderson.org	37	chr3	77571941	77571941	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	cacaggtatgacatcaaagaCgattacacactaagaattaa	6	8	1	3	rs201344460		TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr3:77571941C>T	ENST00000461745.1	+	6	1722	c.822C>T	c.(820-822)gaC>gaT	p.D274D	ROBO2_ENST00000332191.8_Silent_p.D274D|ROBO2_ENST00000487694.3_Silent_p.D290D	NM_002942.4	NP_002933.1	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2 (Drosophila)	274	Ig-like C2-type 3.				apoptotic process involved in luteolysis (GO:0061364)|axon guidance (GO:0007411)|axon midline choice point recognition (GO:0016199)|brain development (GO:0007420)|cellular response to hormone stimulus (GO:0032870)|central nervous system development (GO:0007417)|homophilic cell adhesion (GO:0007156)|metanephros development (GO:0001656)|negative regulation of negative chemotaxis (GO:0050925)|negative regulation of synapse assembly (GO:0051964)|olfactory bulb interneuron development (GO:0021891)|positive regulation of axonogenesis (GO:0050772)|retinal ganglion cell axon guidance (GO:0031290)|ureteric bud development (GO:0001657)	axolemma (GO:0030673)|cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	axon guidance receptor activity (GO:0008046)|identical protein binding (GO:0042802)			NS(1)|biliary_tract(5)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(23)|liver(1)|lung(52)|ovary(2)|pancreas(2)|prostate(5)|skin(8)|upper_aerodigestive_tract(1)	117				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		ACATCAAAGACGATTACACAC	0.333													C|||	1	0.000199681	0.0	0.0	5008	,	,		16147	0.0		0.001	False		,,,				2504	0.0															0								C	,	2,3668		0,2,1833	121	115	117		870,822	0.4	1	3		117	1,8145		0,1,4072	yes	coding-synonymous,coding-synonymous	ROBO2	NM_001128929.2,NM_002942.4	,	0,3,5905	TT,TC,CC		0.0123,0.0545,0.0254	,	290/1395,274/1379	77571941	3,11813	1835	4073	5908	SO:0001819	synonymous_variant	6092			AF040991	CCDS43109.1, CCDS54609.1	3p12.3	2013-02-11	2001-11-28		ENSG00000185008	ENSG00000185008		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	10250	protein-coding gene	gene with protein product		602431	"roundabout (axon guidance receptor, Drosophila) homolog 2"			9458045	Standard	NM_002942		Approved	KIAA1568	uc003dpy.4	Q9HCK4	OTTHUMG00000158935	ENST00000461745.1:c.822C>T	3.37:g.77571941C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O43608|Q19AB4|Q19AB5	Silent	SNP	ENST00000461745.1	37	CCDS43109.1																																																																																				0.333	ROBO2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000352600.2	XM_031246		T	77571941	C	T	77571941	2	4	627	1	0	0	0	0	0	0	0	1	13527	535	19	1		1	ROBO2	3	77571941	Silent	SNP	C	TCGA-KL-8328-01A-11D-2310-10	20922669	77571941	120450489	19	38524										
CRYBG3	131544	broad.mit.edu	37	chr3	97596465	97596468	+	Frame_Shift_Del	DEL	AGAG	AGAG	-													0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	tgaattttgatgaagatgacAgagaggcagctgatgaggaa							TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	AGAG	AGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr3:97596465_97596468delAGAG	ENST00000182096.4	+	1	647_650	c.583_586delAGAG	c.(583-588)agagagfs	p.RE195fs		NM_153605.3	NP_705833.3	Q68DQ2	CRBG3_HUMAN	beta-gamma crystallin domain containing 3	2143							carbohydrate binding (GO:0030246)			breast(1)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(9)|lung(10)|stomach(1)|upper_aerodigestive_tract(2)	32						TGAAGATGACAGAGAGGCAGCTGA	0.471																																																0																																										SO:0001589	frameshift_variant	131544					3q11.2	2008-09-30			ENSG00000080200	ENSG00000080200			34427	protein-coding gene	gene with protein product							Standard	NM_153605		Approved	DKFZp667G2110	uc021xbn.2	Q68DQ2	OTTHUMG00000159187	ENST00000182096.4:c.583_586delAGAG	3.37:g.97596465_97596468delAGAG	ENSP00000182096:p.Arg195fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DLE8|F6VHI2|Q4G0V8|Q7Z4R9|Q86VD0|Q8N262|Q8N7F1|Q8NDQ8	Frame_Shift_Del	DEL	ENST00000182096.4	37																																																																																					0.471	CRYBG3-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000353751.1	NM_153605		-	97596468	AGAG	-	97596465	7	5	627	1	0	1	0	1	0	0	0	0	3915	180	7	0	585	0	CRYBG3	3	97596465	Frame_Shift_Del	DEL	AGAG	TCGA-KL-8328-01A-11D-2310-10	20024524	97596465	100425965	20	38525										
TM4SF4	7104	broad.mit.edu	37	chr3	149192812	149192812	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	cccaagagatctggtttttcGgaggaatattaggaagcggt	13	6	1	1	rs556358999	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr3:149192812G>A	ENST00000305354.4	+	1	1052	c.148G>A	c.(148-150)Gga>Aga	p.G50R		NM_004617.3	NP_004608.1	P48230	T4S4_HUMAN	transmembrane 4 L six family member 4	50					tissue regeneration (GO:0042246)	integral component of membrane (GO:0016021)				large_intestine(3)|lung(4)|ovary(1)|prostate(1)	9			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			CTGGTTTTTCGGAGGAATATT	0.428													G|||	2	0.000399361	0.0	0.0	5008	,	,		18859	0.0		0.0	False		,,,				2504	0.002															0													63	58	59					3																	149192812		1833	4087	5920	SO:0001583	missense	7104				CCDS46932.1	3q25	2005-03-21	2005-03-21		ENSG00000169903	ENSG00000169903			11856	protein-coding gene	gene with protein product		606567	"transmembrane 4 superfamily member 4"			7665614	Standard	NM_004617		Approved	il-TMP	uc003exd.2	P48230	OTTHUMG00000159619	ENST00000305354.4:c.148G>A	3.37:g.149192812G>A	ENSP00000305852:p.Gly50Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDA4	Missense_Mutation	SNP	ENST00000305354.4	37	CCDS46932.1	.	.	.	.	.	.	.	.	.	.	G	26.1	4.704458	0.88924	.	.	ENSG00000169903	ENST00000305354;ENST00000465758	T;T	0.30182	1.54;1.54	5.08	5.08	0.68730	.	0.152366	0.64402	D	0.000015	T	0.64148	0.2572	M	0.90759	3.145	0.80722	D	1	D	0.89917	1.0	D	0.81914	0.995	T	0.69661	-0.5085	10	0.45353	T	0.12	-17.0483	18.8542	0.92244	0.0:0.0:1.0:0.0	.	50	P48230	T4S4_HUMAN	R	50	ENSP00000305852:G50R;ENSP00000419367:G50R	ENSP00000305852:G50R	G	+	1	0	TM4SF4	150675502	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.084000	0.94076	2.524000	0.85096	0.561000	0.74099	GGA		0.428	TM4SF4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356528.1			A	149192812	G	A	149192812	3	1	627	1	0	0	0	0	1	0	0	0	15982	1117	39	1	150	1	TM4SF4	3	149192812	Missense_Mutation	SNP	G	TCGA-KL-8328-01A-11D-2310-10	51596347	149192812	48829618	21	38526										
TACC3	10460	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	1729580	1729580	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ctggcccaggtgccctggctGacctggactgctcaagctct	12	15	2	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr4:1729580G>T	ENST00000313288.4	+	4	557	c.451G>T	c.(451-453)Gac>Tac	p.D151Y		NM_006342.2	NP_006333.1	Q9Y6A5	TACC3_HUMAN	transforming, acidic coiled-coil containing protein 3	151					astral microtubule organization (GO:0030953)|cerebral cortex development (GO:0021987)|cytoplasmic sequestering of transcription factor (GO:0042994)|hemopoiesis (GO:0030097)|interkinetic nuclear migration (GO:0022027)|neurogenesis (GO:0022008)|regulation of cell cycle (GO:0051726)|regulation of microtubule-based process (GO:0032886)|response to hypoxia (GO:0001666)	centrosome (GO:0005813)|cytoplasm (GO:0005737)				central_nervous_system(1)|endometrium(4)|large_intestine(1)|lung(10)|ovary(4)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	25		Breast(71;0.212)|all_epithelial(65;0.241)	OV - Ovarian serous cystadenocarcinoma(23;0.00765)|Epithelial(3;0.0126)			TGCCCTGGCTGACCTGGACTG	0.602																																					Ovarian(120;482 2294 11894 35824)											0													86	100	95					4																	1729580		2203	4300	6503	SO:0001583	missense	10460			AF093543	CCDS3352.1	4p16.3	2008-07-29			ENSG00000013810	ENSG00000013810			11524	protein-coding gene	gene with protein product		605303				17675670	Standard	NM_006342		Approved	ERIC1	uc003gdo.3	Q9Y6A5	OTTHUMG00000089535	ENST00000313288.4:c.451G>T	4.37:g.1729580G>T	ENSP00000326550:p.Asp151Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKK4|Q3KQS5|Q9UMQ1	Missense_Mutation	SNP	ENST00000313288.4	37	CCDS3352.1	.	.	.	.	.	.	.	.	.	.	G	13.70	2.315439	0.40996	.	.	ENSG00000013810	ENST00000313288;ENST00000493975;ENST00000458173	T;T;T	0.55930	2.46;0.49;0.49	4.0	-2.72	0.05968	.	3.916390	0.01690	N	0.026626	T	0.56992	0.2023	L	0.36672	1.1	0.09310	N	1	D;D	0.76494	0.999;0.997	D;P	0.66847	0.947;0.808	T	0.49504	-0.8933	10	0.72032	D	0.01	0.4971	1.7812	0.03032	0.1921:0.2484:0.4313:0.1282	.	151;151	B4DYJ1;Q9Y6A5	.;TACC3_HUMAN	Y	151	ENSP00000326550:D151Y;ENSP00000418095:D151Y;ENSP00000415914:D151Y	ENSP00000326550:D151Y	D	+	1	0	TACC3	1699378	0.000000	0.05858	0.000000	0.03702	0.009000	0.06853	-0.681000	0.05191	-1.111000	0.02988	0.563000	0.77884	GAC		0.602	TACC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000203730.2			T	1729580	G	T	1729580	3	4	627	1	0	0	0	0	1	0	0	0	15515	1290	45	4	461	4	TACC3	4	1729580	Missense_Mutation	SNP	G	TCGA-KL-8328-01A-11D-2310-10		1729580	189424696	22	38527										
ANKRD56	345079	hgsc.bcm.edu	37	chr4	77816688	77816690	+	In_Frame_Del	DEL	TTG	TTG	-													0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	actggttggccagtttccacTtgttgtgctgacttttgagt							TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr4:77816688_77816690delTTG	ENST00000334306.2	-	1	2312_2314	c.2313_2315delCAA	c.(2311-2316)aacaag>aag	p.N771del		NM_001029870.1	NP_001025041.1	A6NEL2	SWAHB_HUMAN	sosondowah ankyrin repeat domain family member B	771																	CAGTTTCCACTTGTTGTGCTGAC	0.473																																																0										5,4261		1,3,2129						0.5	1			240	0,8254		0,0,4127	no	coding	ANKRD56	NM_001029870.1		1,3,6256	A1A1,A1R,RR		0.0,0.1172,0.0399				5,12515				SO:0001651	inframe_deletion	345079				CCDS34017.1	4q21.1	2013-01-10	2012-01-12	2012-01-12	ENSG00000186212	ENSG00000186212		"Ankyrin repeat domain containing"	32958	protein-coding gene	gene with protein product			"ankyrin repeat domain 56"	ANKRD56		22234889	Standard	NM_001029870		Approved		uc003hki.3	A6NEL2	OTTHUMG00000160876	ENST00000334306.2:c.2313_2315delCAA	4.37:g.77816691_77816693delTTG	ENSP00000334879:p.Asn771del	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP29	In_Frame_Del	DEL	ENST00000334306.2	37	CCDS34017.1																																																																																				0.473	SOWAHB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362762.1	NM_001029870		-	77816690	TTG	-	77816688	7	5	627	1	0	1	0	1	0	0	0	0	682	1609	56	0	70	0	ANKRD56	4	77816688	In_Frame_Del	DEL	TTG	TCGA-KL-8328-01A-11D-2310-10	76087108	77816688	113337588	23	38528	307	2								
ANKRD56	345079	bcgsc.ca	37	chr4	77816689	77816691	+	In_Frame_Del	DEL	TTG	TTG	-													0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ctggttggccagtttccactTgttgtgctgacttttgagta							TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr4:77816689_77816691delTTG	ENST00000334306.2	-	1	2311_2313	c.2312_2314delCAA	c.(2311-2316)acaaag>aag	p.T771del		NM_001029870.1	NP_001025041.1	A6NEL2	SWAHB_HUMAN	sosondowah ankyrin repeat domain family member B	771																	AGTTTCCACTTGTTGTGCTGACT	0.473																																																0																																										SO:0001651	inframe_deletion	345079				CCDS34017.1	4q21.1	2013-01-10	2012-01-12	2012-01-12	ENSG00000186212	ENSG00000186212		"Ankyrin repeat domain containing"	32958	protein-coding gene	gene with protein product			"ankyrin repeat domain 56"	ANKRD56		22234889	Standard	NM_001029870		Approved		uc003hki.3	A6NEL2	OTTHUMG00000160876	ENST00000334306.2:c.2312_2314delCAA	4.37:g.77816689_77816691delTTG	ENSP00000334879:p.Thr771del	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP29	In_Frame_Del	DEL	ENST00000334306.2	37	CCDS34017.1																																																																																				0.473	SOWAHB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362762.1	NM_001029870		-	77816691	TTG	-	77816689	7	5	627	1	0	1	0	1	0	0	0	0	682	1821	63	0	71	0	ANKRD56	4	77816689	In_Frame_Del	DEL	TTG	TCGA-KL-8328-01A-11D-2310-10	1	77816689	113337587	24	38529	307	2								
PKD2	5311	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	88986631	88986631	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	agttaaactttgacgaacttCgacaagatctcaaagggtga	9	7	1	3	rs121918040		TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr4:88986631C>T	ENST00000508588.1	+	6	873	c.478C>T	c.(478-480)Cga>Tga	p.R160*	PKD2_ENST00000511337.1_3'UTR|PKD2_ENST00000502363.1_Nonsense_Mutation_p.R160*|PKD2_ENST00000237596.2_Nonsense_Mutation_p.R742*			Q9BZL6	KPCD2_HUMAN	polycystic kidney disease 2 (autosomal dominant)	0					angiogenesis (GO:0001525)|cell adhesion (GO:0007155)|cell death (GO:0008219)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|endothelial tube morphogenesis (GO:0061154)|intracellular signal transduction (GO:0035556)|peptidyl-serine phosphorylation (GO:0018105)|positive regulation of angiogenesis (GO:0045766)|positive regulation of blood vessel endothelial cell migration (GO:0043536)|positive regulation of cell adhesion (GO:0045785)|positive regulation of CREB transcription factor activity (GO:0032793)|positive regulation of DNA biosynthetic process (GO:2000573)|positive regulation of endothelial cell chemotaxis (GO:2001028)|positive regulation of endothelial cell chemotaxis by VEGF-activated vascular endothelial growth factor receptor signaling pathway (GO:0038033)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of fibroblast growth factor receptor signaling pathway (GO:0045743)|positive regulation of histone deacetylase activity (GO:1901727)|positive regulation of interleukin-2 production (GO:0032743)|positive regulation of interleukin-8 production (GO:0032757)|positive regulation of intracellular signal transduction (GO:1902533)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of T cell receptor signaling pathway (GO:0050862)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030949)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|T cell receptor signaling pathway (GO:0050852)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein kinase activity (GO:0004672)|protein kinase C activity (GO:0004697)|protein serine/threonine kinase activity (GO:0004674)	p.R742*(1)		breast(1)|endometrium(4)|kidney(1)|large_intestine(8)|liver(2)|lung(15)|skin(4)|upper_aerodigestive_tract(1)	36		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)		TGACGAACTTCGACAAGATCT	0.403																																																1	Substitution - Nonsense(1)	endometrium(1)	GRCh37	CM961124	PKD2	M	rs121918040						86	82	83					4																	88986631		2203	4300	6503	SO:0001587	stop_gained	5311			U50928	CCDS3627.1	4q22.1	2014-01-28			ENSG00000118762	ENSG00000118762		"Voltage-gated ion channels / Transient receptor potential cation channels", "EF-hand domain containing"	9009	protein-coding gene	gene with protein product	"transient receptor potential cation channel, subfamily P, member 2"	173910				8298643	Standard	NM_000297		Approved	PKD4, PC2, Pc-2, TRPP2	uc003hre.3	Q13563	OTTHUMG00000160982	ENST00000508588.1:c.478C>T	4.37:g.88986631C>T	ENSP00000427131:p.Arg160*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TB08|Q9P0T6|Q9Y3X8	Nonsense_Mutation	SNP	ENST00000508588.1	37		.	.	.	.	.	.	.	.	.	.	C	41	8.974909	0.99023	.	.	ENSG00000118762	ENST00000237596;ENST00000508588;ENST00000502363	.	.	.	5.89	5.05	0.67936	.	0.062020	0.64402	D	0.000003	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-9.2108	14.8891	0.70594	0.0:0.9315:0.0:0.0685	.	.	.	.	X	742;160;160	.	ENSP00000237596:R742X	R	+	1	2	PKD2	89205655	1.000000	0.71417	0.996000	0.52242	0.998000	0.95712	5.802000	0.69122	1.497000	0.48584	0.655000	0.94253	CGA		0.403	PKD2-002	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000363253.2	NM_000297		T	88986631	C	T	88986631	4	4	627	1	0	0	0	0	0	1	0	0	11973	876	31	1	2266	1	PKD2	4	88986631	Nonsense_Mutation	SNP	C	TCGA-KL-8328-01A-11D-2310-10	11169942	88986631	102167645	25	38530										
GRID2	2895	hgsc.bcm.edu;mdanderson.org	37	chr4	94411803	94411803	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	tctacaggcggggaagtcccGtacacgactctggctacccg	12	14	2	0	rs188016557	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr4:94411803G>A	ENST00000282020.4	+	12	2130	c.1872G>A	c.(1870-1872)ccG>ccA	p.P624P	GRID2_ENST00000510992.1_Silent_p.P529P	NM_001510.2	NP_001501.2	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	624					cellular protein localization (GO:0034613)|cerebellar granule cell differentiation (GO:0021707)|glutamate receptor signaling pathway (GO:0007215)|heterophilic cell-cell adhesion (GO:0007157)|ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|prepulse inhibition (GO:0060134)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of neuron apoptotic process (GO:0043523)|regulation of neuron projection development (GO:0010975)|synaptic transmission, glutamatergic (GO:0035249)|transport (GO:0006810)	cell junction (GO:0030054)|dendrite (GO:0030425)|dendritic spine (GO:0043197)|integral component of plasma membrane (GO:0005887)|ionotropic glutamate receptor complex (GO:0008328)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|synapse (GO:0045202)	extracellular-glutamate-gated ion channel activity (GO:0005234)|glutamate receptor activity (GO:0008066)|ionotropic glutamate receptor activity (GO:0004970)|PDZ domain binding (GO:0030165)|scaffold protein binding (GO:0097110)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(6)|kidney(4)|large_intestine(18)|lung(45)|ovary(3)|prostate(6)|skin(9)|upper_aerodigestive_tract(3)|urinary_tract(1)	100		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)		GGGAAGTCCCGTACACGACTC	0.423													G|||	12	0.00239617	0.0	0.0	5008	,	,		14519	0.0109		0.0	False		,,,				2504	0.001															0													114	124	120					4																	94411803		2203	4300	6503	SO:0001819	synonymous_variant	2895			AF009014	CCDS3637.1, CCDS68758.1	4q22	2012-08-29			ENSG00000152208	ENSG00000152208		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4576	protein-coding gene	gene with protein product		602368				9465309	Standard	NM_001510		Approved	GluD2, GluR-delta-2	uc011cdt.2	O43424	OTTHUMG00000130975	ENST00000282020.4:c.1872G>A	4.37:g.94411803G>A		Somatic		WXS	Illumina HiSeq	Phase_I	E9PH24|Q4KKU8|Q4KKU9|Q4KKV0|Q59FZ1	Silent	SNP	ENST00000282020.4	37	CCDS3637.1																																																																																				0.423	GRID2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253588.2			A	94411803	G	A	94411803	2	1	627	1	0	0	0	0	0	0	0	1	6779	1132	40	1		1	GRID2	4	94411803	Silent	SNP	G	TCGA-KL-8328-01A-11D-2310-10	5425172	94411803	96742473	26	38531										
FRG1	2483	mdanderson.org	37	chr4	190878552	190878552	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	tttgttatttgtttcacttaGgggaaaatggctttgttggc	11	4	1	0			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr4:190878552G>A	ENST00000226798.4	+	6	654		c.e6-1		FRG1_ENST00000514482.1_Splice_Site	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1						mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		GTTTCACTTAGGGGAAAATGG	0.353																																																0													10	16	14					4																	190878552		2087	4234	6321	SO:0001630	splice_region_variant	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.433-1G>A	4.37:g.190878552G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Splice_Site	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	N	14.16	2.452126	0.43531	.	.	ENSG00000109536	ENST00000226798;ENST00000524583;ENST00000531991	.	.	.	3.8	3.8	0.43715	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.6226	0.62146	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	FRG1	191115546	1.000000	0.71417	1.000000	0.80357	0.449000	0.32228	9.545000	0.98095	1.860000	0.53959	0.454000	0.30748	.		0.353	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477	Intron	A	190878552	G	A	190878552	5	1	627	1	0	0	0	0	0	0	1	0	6053	1014	35	2	454	2	FRG1	4	190878552	Splice_Site	SNP	G	TCGA-KL-8328-01A-11D-2310-10	96466749	190878552	275724	27	38532										
PROP1	5626	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr5	177421251	177421251	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	cggtggcggcgccgggagtgCgggcggcccctctgtcctcc	18	16	1	0			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr5:177421251C>T	ENST00000308304.2	-	2	506	c.198G>A	c.(196-198)ccG>ccA	p.P66P		NM_006261.4	NP_006252	O75360	PROP1_HUMAN	PROP paired-like homeobox 1	66					blood vessel development (GO:0001568)|canonical Wnt signaling pathway (GO:0060070)|cell migration (GO:0016477)|central nervous system development (GO:0007417)|dorsal/ventral pattern formation (GO:0009953)|hypophysis morphogenesis (GO:0048850)|hypothalamus cell differentiation (GO:0021979)|negative regulation of apoptotic process (GO:0043066)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|somatotropin secreting cell differentiation (GO:0060126)	nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|sequence-specific DNA binding (GO:0043565)	p.P66P(2)		endometrium(1)|large_intestine(2)|lung(9)|stomach(1)	13	all_cancers(89;0.00176)|Renal(175;0.000269)|Lung NSC(126;0.00858)|all_lung(126;0.0139)	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)			GCCGGGAGTGCGGGCGGCCCC	0.662																																																2	Substitution - coding silent(2)	large_intestine(1)|lung(1)											34	37	36					5																	177421251		2203	4300	6503	SO:0001819	synonymous_variant	5626			AF076215	CCDS4430.1	5q35.3	2011-06-20	2007-07-12		ENSG00000175325	ENSG00000175325		"Homeoboxes / PRD class"	9455	protein-coding gene	gene with protein product		601538	"prophet of Pit1, paired-like homeodomain transcription factor"			9462743	Standard	NM_006261		Approved		uc003mif.1	O75360	OTTHUMG00000130887	ENST00000308304.2:c.198G>A	5.37:g.177421251C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000308304.2	37	CCDS4430.1																																																																																				0.662	PROP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253472.1	NM_006261		T	177421251	C	T	177421251	2	4	627	1	0	0	0	0	0	0	0	1	12567	755	27	1		1	PROP1	5	177421251	Silent	SNP	C	TCGA-KL-8328-01A-11D-2310-10		177421251	3494009	28	38533										
ZNF354C	30832	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr5	178506374	178506374	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	agcctttagccagtgttcaaCcctcactgtacatcagagaa	7	12	3	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr5:178506374C>A	ENST00000315475.6	+	5	1247	c.941C>A	c.(940-942)aCc>aAc	p.T314N		NM_014594.1	NP_055409.1	Q86Y25	Z354C_HUMAN	zinc finger protein 354C	314					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(2)|kidney(1)|large_intestine(10)|lung(13)|ovary(1)|urinary_tract(3)	30	all_cancers(89;0.00065)|all_epithelial(37;0.000153)|Renal(175;0.000159)|Lung NSC(126;0.00175)|all_lung(126;0.00309)	all_cancers(40;0.19)|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;0.247)		CAGTGTTCAACCCTCACTGTA	0.428																																																0													174	175	175					5																	178506374		2203	4300	6503	SO:0001583	missense	30832				CCDS4443.1	5q35	2013-01-08			ENSG00000177932	ENSG00000177932		"Zinc fingers, C2H2-type", "-"	16736	protein-coding gene	gene with protein product						10786630	Standard	NM_014594		Approved	KID3	uc003mju.3	Q86Y25	OTTHUMG00000130888	ENST00000315475.6:c.941C>A	5.37:g.178506374C>A	ENSP00000324064:p.Thr314Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P4P9|Q8NFX1	Missense_Mutation	SNP	ENST00000315475.6	37	CCDS4443.1	.	.	.	.	.	.	.	.	.	.	C	13.34	2.209317	0.39003	.	.	ENSG00000177932	ENST00000315475	T	0.07800	3.16	4.04	4.04	0.47022	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.08358	0.0208	N	0.02315	-0.6	0.34396	D	0.694743	D	0.63880	0.993	D	0.64776	0.929	T	0.48151	-0.9060	9	0.15499	T	0.54	-13.1132	14.0864	0.64959	0.0:1.0:0.0:0.0	.	314	Q86Y25	Z354C_HUMAN	N	314	ENSP00000324064:T314N	ENSP00000324064:T314N	T	+	2	0	ZNF354C	178438980	0.000000	0.05858	0.999000	0.59377	0.860000	0.49131	-0.003000	0.12901	2.226000	0.72624	0.591000	0.81541	ACC		0.428	ZNF354C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253473.2			A	178506374	C	A	178506374	3	1	627	1	0	0	0	0	1	0	0	0	17878	507	18	4	955	4	ZNF354C	5	178506374	Missense_Mutation	SNP	C	TCGA-KL-8328-01A-11D-2310-10	1085123	178506374	2408886	29	38534										
ZNF187	0	broad.mit.edu;mdanderson.org	37	chr6	28240025	28240025	+	IGR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gcctaaggagctccaggcccGggtgcaggagcatcacccag	14	14	1	0			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr6:28240025G>A								NKAPL (11289 upstream) : PGBD1 (9288 downstream)																							CTCCAGGCCCGGGTGCAGGAG	0.567																																																0													20	20	20					6																	28240025		692	1591	2283	SO:0001628	intergenic_variant	7741																															6.37:g.28240025G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP		37																																																																																				0	0.567									A	28240025	G	A	28240025	1	1	627	0	1	0	0	0	0	0	0	0	17765	1116	39	1		1	ZNF187	6	28240025	IGR	SNP	G	TCGA-KL-8328-01A-11D-2310-10		28240025	142875042	30	38535										
HLA-C	3107	mdanderson.org	37	chr6	31238929	31238929	+	Silent	SNP	C	C	G													0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gtgccctccaggtaggctctCagctgctccgccgcacgggc					rs2308592	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr6:31238929C>G	ENST00000376228.5	-	3	554	c.540G>C	c.(538-540)ctG>ctC	p.L180L	HLA-C_ENST00000383329.3_Silent_p.L180L	NM_002117.5	NP_002108.4	Q95604	1C17_HUMAN	major histocompatibility complex, class I, C	180	Alpha-2.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(4)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)	17						GGTAGGCTCTCAGCTGCTCCG	0.692																																																0													44	31	36					6																	31238929		2196	4292	6488	SO:0001819	synonymous_variant	3107			M11886	CCDS34393.1	6p21.3	2014-01-30			ENSG00000204525	ENSG00000204525		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4933	protein-coding gene	gene with protein product		142840	"psoriasis susceptibility 1"	HLA-JY3, D6S204, PSORS1		3863816, 16642438	Standard	NM_001243042		Approved		uc003nsy.3	P04222	OTTHUMG00000031154	ENST00000376228.5:c.540G>C	6.37:g.31238929C>G		Somatic		WXS	Illumina HiSeq	Phase_I	O02864|O02958|Q29643|Q9MY30	Silent	SNP	ENST00000376228.5	37	CCDS34393.1	.	.	.	.	.	.	.	.	.	.	.	5.596	0.294742	0.10567	.	.	ENSG00000204525	ENST00000415537	.	.	.	2.81	-5.62	0.02481	.	.	.	.	.	T	0.06600	0.0169	.	.	.	0.09310	N	0.999998	.	.	.	.	.	.	T	0.26744	-1.0094	4	.	.	.	.	3.9618	0.09413	0.0987:0.4803:0.1638:0.2572	rs41547419	.	.	.	Q	180	.	.	E	-	1	0	HLA-C	31346908	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-2.653000	0.00856	-1.717000	0.01385	0.305000	0.20034	GAG		0.692	HLA-C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076281.3	NM_002117		G	31238929	C	G	31238929	2	3	627	1	0	0	0	0	0	0	0	1	7204	813	29	4		4	HLA-C	6	31238929	Silent	SNP	C	TCGA-KL-8328-01A-11D-2310-10	2998904	31238929	139876138	31	38536	308	2								
HLA-C	3107	mdanderson.org	37	chr6	31238931	31238931	+	Missense_Mutation	SNP	G	G	C													0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gccctccaggtaggctctcaGctgctccgccgcacgggccg					rs697743	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr6:31238931G>C	ENST00000376228.5	-	3	552	c.538C>G	c.(538-540)Ctg>Gtg	p.L180V	HLA-C_ENST00000383329.3_Missense_Mutation_p.L180V	NM_002117.5	NP_002108.4	Q95604	1C17_HUMAN	major histocompatibility complex, class I, C	180	Alpha-2.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)	p.L180L(2)		central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(4)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)	17						TAGGCTCTCAGCTGCTCCGCC	0.682																																																2	Substitution - coding silent(2)	prostate(2)											43	30	34					6																	31238931		2197	4291	6488	SO:0001583	missense	3107			M11886	CCDS34393.1	6p21.3	2014-01-30			ENSG00000204525	ENSG00000204525		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4933	protein-coding gene	gene with protein product		142840	"psoriasis susceptibility 1"	HLA-JY3, D6S204, PSORS1		3863816, 16642438	Standard	NM_001243042		Approved		uc003nsy.3	P04222	OTTHUMG00000031154	ENST00000376228.5:c.538C>G	6.37:g.31238931G>C	ENSP00000365402:p.Leu180Val	Somatic		WXS	Illumina HiSeq	Phase_I	O02864|O02958|Q29643|Q9MY30	Missense_Mutation	SNP	ENST00000376228.5	37	CCDS34393.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	0.115|0.115	-1.133170|-1.133170	0.01756|0.01756	.|.	.|.	ENSG00000204525|ENSG00000204525	ENST00000415537|ENST00000376228;ENST00000383329;ENST00000396254;ENST00000539307	.|T;T	.|0.00009	.|9.46;9.46	2.81|2.81	-5.62|-5.62	0.02481|0.02481	.|MHC class I, alpha chain, alpha1/alpha2 (1);MHC classes I/II-like antigen recognition protein (1);MHC class I-like antigen recognition (1);	.|115.764000	.|0.00166	.|U	.|0.000008	T|T	0.00012|0.00012	0.0000|0.0000	L|L	0.39514|0.39514	1.22|1.22	0.09310|0.09310	N|N	1|1	.|B;B;B;B	.|0.19331	.|0.035;0.01;0.005;0.01	.|B;B;B;B	.|0.31812	.|0.136;0.056;0.04;0.056	T|T	0.44065|0.44065	-0.9352|-0.9352	5|10	.|0.18710	.|T	.|0.47	.|.	2.8574|2.8574	0.05576|0.05576	0.25:0.4691:0.1066:0.1744|0.25:0.4691:0.1066:0.1744	rs697743;rs2308591;rs3176036;rs3179868;rs3200237;rs3204480;rs12721958;rs17839941;rs28732104|rs697743;rs2308591;rs3176036;rs3179868;rs3200237;rs3204480;rs12721958;rs17839941;rs28732104	.|180;180;180;180	.|A2AEA4;A6H578;A2AEA2;P10321	.|.;.;.;1C07_HUMAN	G|V	179|180;180;180;217	.|ENSP00000365402:L180V;ENSP00000372819:L180V	.|ENSP00000365402:L180V	A|L	-|-	2|1	0|2	HLA-C|HLA-C	31346910|31346910	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.000000|0.000000	0.00434|0.00434	-12.042000|-12.042000	0.00002|0.00002	-4.714000|-4.714000	0.00035|0.00035	-1.872000|-1.872000	0.00552|0.00552	GCT|CTG		0.682	HLA-C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076281.3	NM_002117		C	31238931	G	C	31238931	3	2	627	1	0	0	0	0	1	0	0	0	7204	962	34	4	586	4	HLA-C	6	31238931	Missense_Mutation	SNP	G	TCGA-KL-8328-01A-11D-2310-10	2	31238931	139876136	32	38537	308	2								
BCLAF1	9774	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr6	136599231	136599231	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	caggactatgctgaatggaaTgtgaatgctgagaaggagta	14	4	0	3			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr6:136599231T>A	ENST00000531224.1	-	4	1040	c.788A>T	c.(787-789)cAt>cTt	p.H263L	BCLAF1_ENST00000527759.1_Missense_Mutation_p.H261L|BCLAF1_ENST00000392348.2_Missense_Mutation_p.H261L|BCLAF1_ENST00000527536.1_Missense_Mutation_p.H263L|BCLAF1_ENST00000530767.1_Missense_Mutation_p.H263L|BCLAF1_ENST00000353331.4_Missense_Mutation_p.H261L	NM_001077441.1|NM_014739.2	NP_001070909.1|NP_055554.1	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1	263					apoptotic process (GO:0006915)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of apoptotic process (GO:0043065)|positive regulation of DNA-templated transcription, initiation (GO:2000144)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of response to DNA damage stimulus (GO:2001022)|regulation of DNA-templated transcription in response to stress (GO:0043620)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			haematopoietic_and_lymphoid_tissue(3)|large_intestine(4)|ovary(1)|skin(1)	9	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		CTGAATGGAATGTGAATGCTG	0.443																																					Colon(142;1534 1789 5427 7063 28491)											0													130	121	124					6																	136599231		2203	4300	6503	SO:0001583	missense	9774			AF249273	CCDS5177.1, CCDS47485.1, CCDS47486.1, CCDS75525.1	6q22-q23	2007-03-02			ENSG00000029363	ENSG00000029363			16863	protein-coding gene	gene with protein product		612588				8724849, 10330179	Standard	NM_001077440		Approved	KIAA0164, BTF	uc003qgx.1	Q9NYF8	OTTHUMG00000033323	ENST00000531224.1:c.788A>T	6.37:g.136599231T>A	ENSP00000435210:p.His263Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU75|B7ZM58|E1P586|Q14673|Q86WU6|Q86WY0	Missense_Mutation	SNP	ENST00000531224.1	37	CCDS5177.1	.	.	.	.	.	.	.	.	.	.	T	15.81	2.941948	0.53079	.	.	ENSG00000029363	ENST00000531224;ENST00000353331;ENST00000527536;ENST00000530767;ENST00000527759;ENST00000392348;ENST00000529826	T;T;T;T;T;T;T	0.14893	2.47;2.47;2.47;2.47;2.47;2.47;2.47	5.82	5.82	0.92795	.	0.000000	0.64402	D	0.000002	T	0.13500	0.0327	N	0.08118	0	0.80722	D	1	D;D;D;D	0.53462	0.96;0.96;0.96;0.96	D;D;D;D	0.64237	0.923;0.923;0.923;0.923	T	0.31558	-0.9939	10	0.48119	T	0.1	-13.1518	16.182	0.81915	0.0:0.0:0.0:1.0	.	261;261;263;263	Q9NYF8-2;Q9NYF8-3;Q9NYF8;Q9NYF8-4	.;.;BCLF1_HUMAN;.	L	263;261;263;263;261;261;263	ENSP00000435210:H263L;ENSP00000229446:H261L;ENSP00000435441:H263L;ENSP00000436501:H263L;ENSP00000434826:H261L;ENSP00000376159:H261L;ENSP00000431734:H263L	ENSP00000229446:H261L	H	-	2	0	BCLAF1	136640924	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.767000	0.68850	2.222000	0.72286	0.528000	0.53228	CAT		0.443	BCLAF1-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042375.2	NM_014739		A	136599231	T	A	136599231	3	1	627	1	0	0	0	0	1	0	0	0	1383	1464	51	5	2014	5	BCLAF1	6	136599231	Missense_Mutation	SNP	T	TCGA-KL-8328-01A-11D-2310-10	105360300	136599231	34515836	33	38538										
AKAP12	9590	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr6	151673069	151673069	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	acccccgtagccgactttgaCgcaccaggcacaacccagaa	8	17	0	2	rs573717108		TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr6:151673069C>T	ENST00000253332.1	+	3	3732	c.3543C>T	c.(3541-3543)gaC>gaT	p.D1181D	AKAP12_ENST00000402676.2_Silent_p.D1181D|AKAP12_ENST00000354675.6_Silent_p.D1083D|AKAP12_ENST00000359755.5_Silent_p.D1076D			Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12	1181					G-protein coupled receptor signaling pathway (GO:0007186)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of protein kinase A signaling (GO:0010739)|protein targeting (GO:0006605)|regulation of protein kinase C signaling (GO:0090036)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|focal adhesion (GO:0005925)	adenylate cyclase binding (GO:0008179)|protein kinase A binding (GO:0051018)	p.D1181D(1)		breast(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(22)|lung(22)|ovary(2)|pancreas(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	68		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		CCGACTTTGACGCACCAGGCA	0.552													C|||	1	0.000199681	0.0008	0.0	5008	,	,		19234	0.0		0.0	False		,,,				2504	0.0				Melanoma(141;1616 1805 10049 24534 51979)											1	Substitution - coding silent(1)	large_intestine(1)											110	107	108					6																	151673069		2203	4300	6503	SO:0001819	synonymous_variant	9590			U81607	CCDS5229.1, CCDS5230.1	6q24-q25	2011-07-01	2008-08-29		ENSG00000131016	ENSG00000131016		"A-kinase anchor proteins"	370	protein-coding gene	gene with protein product	"gravin", "Src-Suppressed C Kinase Substrate"	604698	"A kinase (PRKA) anchor protein (gravin) 12"			9000000	Standard	NM_144497		Approved	AKAP250, SSeCKS	uc011eep.2	Q02952	OTTHUMG00000015833	ENST00000253332.1:c.3543C>T	6.37:g.151673069C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O00310|O00498|Q4LE68|Q5SZ80|Q5TGN1|Q68D82|Q99970	Silent	SNP	ENST00000253332.1	37	CCDS5229.1																																																																																				0.552	AKAP12-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042712.1			T	151673069	C	T	151673069	2	4	627	1	0	0	0	0	0	0	0	1	448	535	19	1		1	AKAP12	6	151673069	Silent	SNP	C	TCGA-KL-8328-01A-11D-2310-10	15073838	151673069	19441998	34	38539										
FNDC1	84624	hgsc.bcm.edu;bcgsc.ca	37	chr6	159660825	159660825	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ccgccgcacgaccaccaggcGtccaacaaccacagtccgaa	8	19	0	0	rs547791202	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr6:159660825G>A	ENST00000297267.9	+	14	4657	c.4457G>A	c.(4456-4458)cGt>cAt	p.R1486H	FNDC1-IT1_ENST00000419703.1_RNA|FNDC1_ENST00000340366.6_Missense_Mutation_p.R1423H	NM_032532.2	NP_115921.2	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	1486	Thr-rich.				cellular response to hypoxia (GO:0071456)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of protein phosphorylation (GO:0001934)|regulation of protein transport (GO:0051223)	cell-cell junction (GO:0005911)|extracellular region (GO:0005576)|mitochondrial membrane (GO:0031966)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(29)|liver(2)|lung(23)|ovary(3)|pancreas(1)|prostate(5)|skin(1)|upper_aerodigestive_tract(3)	93		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)		accaccaggcgtccaacaacc	0.677													G|||	2	0.000399361	0.0	0.0	5008	,	,		11191	0.0		0.0	False		,,,				2504	0.002															0													68	96	86					6																	159660825		1826	3640	5466	SO:0001583	missense	84624			AB058769	CCDS47512.1	6q25	2013-02-11			ENSG00000164694	ENSG00000164694		"Fibronectin type III domain containing"	21184	protein-coding gene	gene with protein product		609991	"fibronectin type III domain containing 2"	FNDC2		11347906	Standard	NM_032532		Approved	bA243O10.1, KIAA1866, dJ322A24.1	uc010kjv.3	Q4ZHG4	OTTHUMG00000015927	ENST00000297267.9:c.4457G>A	6.37:g.159660825G>A	ENSP00000297267:p.Arg1486His	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8X2|B7ZBR4|B7ZBR5|B9EK49|Q5JPI0|Q5VU31|Q5VU32|Q5VXX4|Q70CQ6|Q96JG1	Missense_Mutation	SNP	ENST00000297267.9	37	CCDS47512.1	.	.	.	.	.	.	.	.	.	.	G	6.865	0.529009	0.13127	.	.	ENSG00000164694	ENST00000297267;ENST00000340366	T;T	0.08193	3.12;3.94	4.3	1.13	0.20643	.	0.377447	0.21663	N	0.070996	T	0.01254	0.0041	N	0.14661	0.345	0.09310	N	1	B;B	0.25521	0.128;0.029	B;B	0.14578	0.011;0.005	T	0.45848	-0.9233	10	0.46703	T	0.11	-4.7996	4.7665	0.13135	0.2001:0.3385:0.4614:0.0	.	1423;1486	Q4ZHG4-2;Q4ZHG4	.;FNDC1_HUMAN	H	1486;1423	ENSP00000297267:R1486H;ENSP00000342460:R1423H	ENSP00000297267:R1486H	R	+	2	0	FNDC1	159580815	1.000000	0.71417	0.011000	0.14972	0.021000	0.10359	1.459000	0.35234	0.506000	0.28125	0.655000	0.94253	CGT		0.677	FNDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042897.3	NM_032532		A	159660825	G	A	159660825	3	1	627	1	0	0	0	0	1	0	0	0	5975	1145	40	1	4511	1	FNDC1	6	159660825	Missense_Mutation	SNP	G	TCGA-KL-8328-01A-11D-2310-10	7987756	159660825	11454242	35	38540										
MLXIPL	51085	hgsc.bcm.edu;ucsc.edu	37	chr7	73020310	73020310	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	aagagagtgtctgagatgtcGgacaaaaagcaattgaggtc	13	5	1	3	rs578022743		TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr7:73020310G>A	ENST00000313375.3	-	6	797	c.750C>T	c.(748-750)tcC>tcT	p.S250S	MLXIPL_ENST00000354613.1_Silent_p.S250S|MLXIPL_ENST00000429400.2_Silent_p.S250S|MLXIPL_ENST00000395189.1_Intron|MLXIPL_ENST00000414749.2_Silent_p.S250S|MLXIPL_ENST00000434326.1_Intron	NM_032951.2|NM_032953.2	NP_116569.1|NP_116571.1	Q9NP71	MLXPL_HUMAN	MLX interacting protein-like	250					anatomical structure morphogenesis (GO:0009653)|energy reserve metabolic process (GO:0006112)|fatty acid homeostasis (GO:0055089)|glucose homeostasis (GO:0042593)|glucose mediated signaling pathway (GO:0010255)|intracellular signal transduction (GO:0035556)|negative regulation of cell cycle arrest (GO:0071157)|negative regulation of oxidative phosphorylation (GO:0090324)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cellular metabolic process (GO:0031325)|positive regulation of fatty acid biosynthetic process (GO:0045723)|positive regulation of glycolytic process (GO:0045821)|positive regulation of lipid biosynthetic process (GO:0046889)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of energy homeostasis (GO:2000505)|regulation of fatty acid biosynthetic process (GO:0042304)|regulation of transcription, DNA-templated (GO:0006355)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)|triglyceride homeostasis (GO:0070328)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	carbohydrate response element binding (GO:0035538)|DNA binding (GO:0003677)|protein heterodimerization activity (GO:0046982)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)			cervix(1)|kidney(1)|large_intestine(1)|lung(5)|ovary(1)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)	13		Lung NSC(55;0.0659)|all_lung(88;0.152)				CTGAGATGTCGGACAAAAAGC	0.627													G|||	1	0.000199681	0.0	0.0	5008	,	,		17309	0.001		0.0	False		,,,				2504	0.0															0													38	37	37					7																	73020310		2203	4300	6503	SO:0001819	synonymous_variant	51085			AK055029	CCDS5553.1, CCDS5554.1, CCDS47605.1, CCDS47606.1	7q11.23	2013-05-21	2005-10-31	2005-10-31	ENSG00000009950	ENSG00000009950			12744	protein-coding gene	gene with protein product	"carbohydrate response element binding protein"	605678	"Williams Beuren syndrome chromosome region 14"	WBSCR14		9860302	Standard	XM_005250399		Approved	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14	uc003tyn.1	Q9NP71	OTTHUMG00000129995	ENST00000313375.3:c.750C>T	7.37:g.73020310G>A		Somatic		WXS	Illumina HiSeq	Phase_I	C5HU02|C5HU03|C5HU04|Q96E48|Q9BY03|Q9BY04|Q9BY05|Q9BY06|Q9Y2P3	Silent	SNP	ENST00000313375.3	37	CCDS5553.1																																																																																				0.627	MLXIPL-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252262.1	NM_032951		A	73020310	G	A	73020310	2	1	627	1	0	0	0	0	0	0	0	1	9644	1103	39	1		1	MLXIPL	7	73020310	Silent	SNP	G	TCGA-KL-8328-01A-11D-2310-10		73020310	86118353	36	38541										
NPTX2	4885	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	98254299	98254299	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	cactccgcacaaactacctaTacggcaagatcaagaagacg	7	13	1	3			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr7:98254299T>G	ENST00000265634.3	+	3	874	c.709T>G	c.(709-711)Tac>Gac	p.Y237D		NM_002523.2	NP_002514.1	P47972	NPTX2_HUMAN	neuronal pentraxin II	237	Pentaxin.				synaptic transmission (GO:0007268)	extracellular region (GO:0005576)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(2)|endometrium(1)|large_intestine(5)|lung(5)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	18	all_cancers(62;2.28e-09)|all_epithelial(64;4.86e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0128)|all_lung(186;0.0142)		STAD - Stomach adenocarcinoma(171;0.215)			AAACTACCTATACGGCAAGAT	0.587																																																0													223	178	193					7																	98254299		2203	4300	6503	SO:0001583	missense	4885				CCDS5657.1	7q21.3-q22.1	2008-04-30			ENSG00000106236	ENSG00000106236			7953	protein-coding gene	gene with protein product	"apexin"	600750				8530029	Standard	NM_002523		Approved		uc003upl.2	P47972	OTTHUMG00000154369	ENST00000265634.3:c.709T>G	7.37:g.98254299T>G	ENSP00000265634:p.Tyr237Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A4D267|Q86XV7|Q96G70	Missense_Mutation	SNP	ENST00000265634.3	37	CCDS5657.1	.	.	.	.	.	.	.	.	.	.	T	17.95	3.514425	0.64522	.	.	ENSG00000106236	ENST00000265634	T	0.05925	3.37	5.57	5.57	0.84162	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);	0.053697	0.85682	D	0.000000	T	0.36220	0.0959	H	0.95151	3.63	0.80722	D	1	D	0.76494	0.999	D	0.71184	0.972	T	0.53229	-0.8468	10	0.87932	D	0	-18.2805	14.9047	0.70709	0.0:0.0:0.0:1.0	.	237	P47972	NPTX2_HUMAN	D	237	ENSP00000265634:Y237D	ENSP00000265634:Y237D	Y	+	1	0	NPTX2	98092235	1.000000	0.71417	0.916000	0.36221	0.244000	0.25665	7.997000	0.88414	2.116000	0.64780	0.459000	0.35465	TAC		0.587	NPTX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000334982.1	NM_002523		G	98254299	T	G	98254299	3	3	627	1	0	0	0	0	1	0	0	0	10610	1406	49	5	719	5	NPTX2	7	98254299	Missense_Mutation	SNP	T	TCGA-KL-8328-01A-11D-2310-10	25233989	98254299	60884364	37	38542										
CNTNAP2	26047	hgsc.bcm.edu;ucsc.edu	37	chr7	146829390	146829390	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	acggtgcctgtctttttcaaCgctacaagttacctggaggt	10	10	2	0	rs78543192	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr7:146829390C>T	ENST00000361727.3	+	8	1653	c.1137C>T	c.(1135-1137)aaC>aaT	p.N379N		NM_014141.5	NP_054860.1	Q9UHC6	CNTP2_HUMAN	contactin associated protein-like 2	379					adult behavior (GO:0030534)|brain development (GO:0007420)|cell adhesion (GO:0007155)|cellular protein localization (GO:0034613)|cerebral cortex development (GO:0021987)|clustering of voltage-gated potassium channels (GO:0045163)|learning (GO:0007612)|limbic system development (GO:0021761)|neuron projection development (GO:0031175)|neuron recognition (GO:0008038)|protein localization to juxtaparanode region of axon (GO:0071205)|social behavior (GO:0035176)|striatum development (GO:0021756)|superior temporal gyrus development (GO:0071109)|thalamus development (GO:0021794)|transmission of nerve impulse (GO:0019226)|vocalization behavior (GO:0071625)	axolemma (GO:0030673)|axon (GO:0030424)|cell surface (GO:0009986)|dendrite (GO:0030425)|early endosome (GO:0005769)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|juxtaparanode region of axon (GO:0044224)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|perikaryon (GO:0043204)|voltage-gated potassium channel complex (GO:0008076)	enzyme binding (GO:0019899)			NS(3)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(21)|lung(105)|ovary(9)|pancreas(2)|prostate(5)|skin(7)|stomach(3)|upper_aerodigestive_tract(6)|urinary_tract(3)	188	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)			TCTTTTTCAACGCTACAAGTT	0.458										HNSCC(39;0.1)			T|||	30	0.00599042	0.0219	0.0014	5008	,	,		20040	0.0		0.0	False		,,,				2504	0.0															0								T		66,4340	820.5+/-416.4	0,66,2137	126	121	122		1137	3.3	1	7	dbSNP_132	122	0,8600		0,0,4300	no	coding-synonymous	CNTNAP2	NM_014141.5		0,66,6437	TT,TC,CC		0.0,1.498,0.5075		379/1332	146829390	66,12940	2203	4300	6503	SO:0001819	synonymous_variant	26047			AF193613	CCDS5889.1	7q35	2008-02-04			ENSG00000174469	ENSG00000174469			13830	protein-coding gene	gene with protein product		604569				10624965, 10048485	Standard	NM_014141		Approved	Caspr2, KIAA0868, NRXN4	uc003weu.2	Q9UHC6	OTTHUMG00000152743	ENST00000361727.3:c.1137C>T	7.37:g.146829390C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DWG2|Q14DG2|Q52LV1|Q5H9Q7|Q9UQ12	Silent	SNP	ENST00000361727.3	37	CCDS5889.1																																																																																				0.458	CNTNAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327668.1			T	146829390	C	T	146829390	2	4	627	1	0	0	0	0	0	0	0	1	3649	535	19	1		1	CNTNAP2	7	146829390	Silent	SNP	C	TCGA-KL-8328-01A-11D-2310-10	48575091	146829390	12309273	38	38543										
CHPF2	54480	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	150932432	150932432	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	tgcaggatgacacatatgtgCaggccccccgcctggcagcc	12	15	0	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr7:150932432C>T	ENST00000035307.2	+	2	2075	c.562C>T	c.(562-564)Cag>Tag	p.Q188*	CHPF2_ENST00000495645.1_Nonsense_Mutation_p.Q180*	NM_019015.1	NP_061888.1	Q9P2E5	CHPF2_HUMAN	chondroitin polymerizing factor 2	188					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|glycosaminoglycan metabolic process (GO:0030203)|small molecule metabolic process (GO:0044281)	Golgi cisterna membrane (GO:0032580)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	acetylgalactosaminyltransferase activity (GO:0008376)|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity (GO:0050510)			breast(1)|endometrium(2)|large_intestine(3)|lung(3)|ovary(4)|prostate(1)|skin(3)	17						CACATATGTGCAGGCCCCCCG	0.627																																																0													92	94	93					7																	150932432		2203	4300	6503	SO:0001587	stop_gained	54480			AB037823	CCDS34779.1, CCDS64803.1	7q36.1	2013-02-19			ENSG00000033100	ENSG00000033100	2.4.1.226	"Beta 3-glycosyltransferases", "Beta 4-glycosyltransferases"	29270	protein-coding gene	gene with protein product		608037				10718198, 12145278, 18316376	Standard	NM_019015		Approved	KIAA1402, ChSy-3, CSGlcA-T	uc003wjr.1	Q9P2E5	OTTHUMG00000157380	ENST00000035307.2:c.562C>T	7.37:g.150932432C>T	ENSP00000035307:p.Gln188*	Somatic		WXS	Illumina HiSeq	Phase_I	B2DBD8|Q6P2I4|Q6UXD2	Nonsense_Mutation	SNP	ENST00000035307.2	37	CCDS34779.1	.	.	.	.	.	.	.	.	.	.	C	38	7.243506	0.98161	.	.	ENSG00000033100	ENST00000495645;ENST00000035307;ENST00000377851	.	.	.	5.43	5.43	0.79202	.	0.155451	0.64402	D	0.000014	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-28.4784	13.2489	0.60039	0.1585:0.8415:0.0:0.0	.	.	.	.	X	180;188;188	.	.	Q	+	1	0	CHPF2	150563365	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	3.180000	0.50895	2.547000	0.85894	0.591000	0.81541	CAG		0.627	CHPF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348648.2	NM_019015		T	150932432	C	T	150932432	4	4	627	1	0	0	0	0	0	1	0	0	3371	711	25	2	568	2	CHPF2	7	150932432	Nonsense_Mutation	SNP	C	TCGA-KL-8328-01A-11D-2310-10	4103042	150932432	8206231	39	38544										
MTBP	27085	ucsc.edu;bcgsc.ca	37	chr8	121467780	121467780	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	aaaacatttgagagaatggtAttcagcaaagatcactatag	8	5	2	3			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr8:121467780A>G	ENST00000305949.1	+	6	635	c.590A>G	c.(589-591)tAt>tGt	p.Y197C		NM_022045.4	NP_071328.2	Q96DY7	MTBP_HUMAN	MDM2 binding protein	197					cell cycle arrest (GO:0007050)|mitotic spindle checkpoint (GO:0071174)|negative regulation of cell proliferation (GO:0008285)|protein localization to kinetochore (GO:0034501)|traversing start control point of mitotic cell cycle (GO:0007089)	chromatin (GO:0000785)|kinetochore (GO:0000776)				NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(10)|ovary(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	30	Lung NSC(37;5.68e-08)|Ovarian(258;0.00769)|all_neural(195;0.0804)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00503)			AGAGAATGGTATTCAGCAAAG	0.328																																																0													148	148	148					8																	121467780		2203	4296	6499	SO:0001583	missense	27085				CCDS6333.1	8q24.1-q24.2	2014-03-03	2014-03-03		ENSG00000172167	ENSG00000172167			7417	protein-coding gene	gene with protein product		605927	"MDM2 (mouse double minute 2)-binding protein, 104kD", "Mdm2, transformed 3T3 cell double minute 2, p53 binding protein (mouse) binding protein, 104kDa"			10906133, 11060448	Standard	NM_022045		Approved		uc003ypc.2	Q96DY7	OTTHUMG00000165040	ENST00000305949.1:c.590A>G	8.37:g.121467780A>G	ENSP00000303398:p.Tyr197Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DUR5|Q9HA89	Missense_Mutation	SNP	ENST00000305949.1	37	CCDS6333.1	.	.	.	.	.	.	.	.	.	.	A	19.13	3.767765	0.69878	.	.	ENSG00000172167	ENST00000305949	.	.	.	5.58	5.58	0.84498	.	0.111345	0.64402	D	0.000014	T	0.60431	0.2268	L	0.51422	1.61	0.33018	D	0.528502	D	0.60575	0.988	P	0.53360	0.724	T	0.73228	-0.4049	9	0.87932	D	0	-6.7991	15.7325	0.77817	1.0:0.0:0.0:0.0	.	197	Q96DY7	MTBP_HUMAN	C	197	.	ENSP00000303398:Y197C	Y	+	2	0	MTBP	121536961	1.000000	0.71417	1.000000	0.80357	0.911000	0.54048	6.919000	0.75793	2.128000	0.65567	0.391000	0.25812	TAT		0.328	MTBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381530.1	NM_022045		G	121467780	A	G	121467780	3	3	627	1	0	0	0	0	1	0	0	0	9919	449	16	3	612	3	MTBP	8	121467780	Missense_Mutation	SNP	A	TCGA-KL-8328-01A-11D-2310-10		121467780	24896242	40	38545										
SMARCA2	6595	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr9	2056812	2056812	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ctggagaagcagcagaagatTgagcaggagaggaaacgccg	16	7	0	5			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr9:2056812T>A	ENST00000382203.1	+	7	1523	c.1314T>A	c.(1312-1314)atT>atA	p.I438I	SMARCA2_ENST00000382194.1_Silent_p.I438I|SMARCA2_ENST00000349721.2_Silent_p.I438I|SMARCA2_ENST00000357248.2_Silent_p.I438I			P51531	SMCA2_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	438	HSA. {ECO:0000255|PROSITE- ProRule:PRU00549}.				aortic smooth muscle cell differentiation (GO:0035887)|ATP catabolic process (GO:0006200)|chromatin remodeling (GO:0006338)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|nervous system development (GO:0007399)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)	intermediate filament cytoskeleton (GO:0045111)|intracellular membrane-bounded organelle (GO:0043231)|nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SWI/SNF complex (GO:0016514)	ATP binding (GO:0005524)|DNA-dependent ATPase activity (GO:0008094)|helicase activity (GO:0004386)|RNA polymerase II transcription coactivator activity (GO:0001105)|transcription coactivator activity (GO:0003713)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(3)|large_intestine(11)|liver(2)|lung(19)|ovary(3)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	56		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		AGCAGAAGATTGAGCAGGAGA	0.532																																																0													83	77	79					9																	2056812		2203	4300	6503	SO:0001819	synonymous_variant	6595			D26155	CCDS34977.1, CCDS34978.1, CCDS75807.1, CCDS75808.1	9p24.3	2008-11-11	2006-11-09		ENSG00000080503	ENSG00000080503			11098	protein-coding gene	gene with protein product		600014		SNF2L2		8012116	Standard	NM_003070		Approved	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2	uc003zhc.3	P51531	OTTHUMG00000019445	ENST00000382203.1:c.1314T>A	9.37:g.2056812T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B1ALG3|B1ALG4|D3DRH4|D3DRH5	Silent	SNP	ENST00000382203.1	37	CCDS34977.1																																																																																				0.532	SMARCA2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000051505.1	NM_003070		A	2056812	T	A	2056812	2	1	627	1	0	0	0	0	0	0	0	1	14782	1800	63	5		5	SMARCA2	9	2056812	Silent	SNP	T	TCGA-KL-8328-01A-11D-2310-10		2056812	139156619	41	38546										
OR13C2	392376	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr9	107367649	107367649	+	Nonsense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gggaaatggtctttctttctGaaaggaagctcactagcgtg	12	7	4	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr9:107367649G>C	ENST00000542196.1	-	1	302	c.260C>G	c.(259-261)tCa>tGa	p.S87*		NM_001004481.1	NP_001004481.1	Q8NGS9	O13C2_HUMAN	olfactory receptor, family 13, subfamily C, member 2	87						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			cervix(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(10)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	22						CTTTCTTTCTGAAAGGAAGCT	0.517																																																0													49	52	51					9																	107367649		2195	4295	6490	SO:0001587	stop_gained	392376				CCDS35092.1	9q31.1	2012-10-03			ENSG00000257019	ENSG00000276119		"GPCR / Class A : Olfactory receptors"	14701	protein-coding gene	gene with protein product							Standard	NM_001004481		Approved		uc011lvq.2	Q8NGS9	OTTHUMG00000020415	ENST00000542196.1:c.260C>G	9.37:g.107367649G>C	ENSP00000438815:p.Ser87*	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGV8|Q6IF54	Nonsense_Mutation	SNP	ENST00000542196.1	37	CCDS35092.1	.	.	.	.	.	.	.	.	.	.	G	11.13	1.547621	0.27652	.	.	ENSG00000257019	ENST00000542196	.	.	.	3.39	3.39	0.38822	.	0.000000	0.32055	U	0.006658	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.59425	D	0.04	.	12.3016	0.54878	0.0:0.0:1.0:0.0	.	.	.	.	X	87	.	ENSP00000438815:S87X	S	-	2	0	OR13C2	106407470	0.000000	0.05858	0.011000	0.14972	0.201000	0.24016	0.721000	0.25911	1.723000	0.51488	0.462000	0.41574	TCA		0.517	OR13C2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053489.2	NM_001004481		C	107367649	G	C	107367649	4	2	627	1	0	0	0	0	0	1	0	0	10941	1294	45	4	699	4	OR13C2	9	107367649	Nonsense_Mutation	SNP	G	TCGA-KL-8328-01A-11D-2310-10	105310837	107367649	33845782	42	38547										
MUSK	4593	broad.mit.edu;mdanderson.org	37	chr9	113563201	113563201	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gctgcctgcagacagacccaGtttcaccagtattcaccgaa	8	14	2	2			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr9:113563201G>A	ENST00000374448.4	+	15	2677	c.2543G>A	c.(2542-2544)aGt>aAt	p.S848N	MUSK_ENST00000416899.2_Missense_Mutation_p.S840N|MUSK_ENST00000189978.5_Missense_Mutation_p.S848N	NM_001166281.1|NM_005592.3	NP_001159753.1|NP_005583.1	O15146	MUSK_HUMAN	muscle, skeletal, receptor tyrosine kinase	848	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cell differentiation (GO:0030154)|extracellular matrix organization (GO:0030198)|memory (GO:0007613)|multicellular organismal development (GO:0007275)|neuromuscular junction development (GO:0007528)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of gene expression (GO:0010628)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of protein geranylgeranylation (GO:2000541)|positive regulation of protein phosphorylation (GO:0001934)|protein autophosphorylation (GO:0046777)|regulation of synaptic growth at neuromuscular junction (GO:0008582)|regulation of transcription, DNA-templated (GO:0006355)|skeletal muscle acetylcholine-gated channel clustering (GO:0071340)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cell junction (GO:0030054)|integral component of plasma membrane (GO:0005887)|neuromuscular junction (GO:0031594)|postsynaptic membrane (GO:0045211)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|protein tyrosine kinase activity (GO:0004713)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(3)|large_intestine(7)|lung(23)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)	49						GACAGACCCAGTTTCACCAGT	0.507																																																0													41	39	40					9																	113563201		2021	4185	6206	SO:0001583	missense	4593			AF006464	CCDS48005.1, CCDS75874.1	9q31.3-q32	2013-01-29			ENSG00000030304	ENSG00000030304		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	7525	protein-coding gene	gene with protein product		601296				7546737	Standard	NM_005592		Approved		uc022blv.1	O15146	OTTHUMG00000020485	ENST00000374448.4:c.2543G>A	9.37:g.113563201G>A	ENSP00000363571:p.Ser848Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q32MJ8|Q32MJ9|Q5VZW7|Q5VZW8	Missense_Mutation	SNP	ENST00000374448.4	37	CCDS48005.1	.	.	.	.	.	.	.	.	.	.	G	17.18	3.323273	0.60634	.	.	ENSG00000030304	ENST00000189978;ENST00000374448;ENST00000543335;ENST00000374447;ENST00000545907;ENST00000416899	T	0.53857	0.6	5.62	5.62	0.85841	Serine-threonine/tyrosine-protein kinase (2);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.125544	0.64402	D	0.000001	T	0.58323	0.2114	L	0.41492	1.28	0.80722	D	1	P	0.34743	0.466	P	0.46339	0.513	T	0.55939	-0.8061	10	0.48119	T	0.1	.	19.0078	0.92859	0.0:0.0:1.0:0.0	.	848	O15146	MUSK_HUMAN	N	854;848;848;762;762;846	ENSP00000363571:S848N	ENSP00000189978:S854N	S	+	2	0	MUSK	112603022	1.000000	0.71417	0.989000	0.46669	0.975000	0.68041	9.813000	0.99286	2.809000	0.96659	0.557000	0.71058	AGT		0.507	MUSK-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding				A	113563201	G	A	113563201	3	1	627	1	0	0	0	0	1	0	0	0	9996	1029	36	2	2633	2	MUSK	9	113563201	Missense_Mutation	SNP	G	TCGA-KL-8328-01A-11D-2310-10	6195552	113563201	27650230	43	38548										
PI4K2A	55361	broad.mit.edu	37	chr10	99400542	99400542	+	Frame_Shift_Del	DEL	C	C	-													0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	tgtcccccgagcgggcccaaCccccggactacaccttcccg							TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr10:99400542delC	ENST00000370631.3	+	1	100	c.43delC	c.(43-45)cccfs	p.P16fs	PI4K2A_ENST00000370649.3_Intron|PI4K2A_ENST00000555577.1_Intron	NM_018425.2	NP_060895.1	Q9BTU6	P4K2A_HUMAN	phosphatidylinositol 4-kinase type 2 alpha	16					basophil degranulation (GO:0002561)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol phosphorylation (GO:0046854)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	cell junction (GO:0030054)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|dendrite (GO:0030425)|early endosome membrane (GO:0031901)|endosome (GO:0005768)|exocytic vesicle (GO:0070382)|Golgi apparatus (GO:0005794)|growing cell tip (GO:0035838)|host cell presynaptic membrane (GO:0044231)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|membrane raft (GO:0045121)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|perikaryon (GO:0043204)|presynaptic membrane (GO:0042734)|protein complex (GO:0043234)|synaptic vesicle membrane (GO:0030672)	1-phosphatidylinositol 4-kinase activity (GO:0004430)|AP-3 adaptor complex binding (GO:0035651)|ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)			endometrium(2)|kidney(1)|large_intestine(3)|lung(3)|ovary(1)|prostate(1)|skin(1)	12		Colorectal(252;0.162)		Epithelial(162;1.24e-10)|all cancers(201;1.2e-08)		GCGGGCCCAACCCCCGGACTA	0.766																																																0													11	13	12					10																	99400542		2163	4274	6437	SO:0001589	frameshift_variant	55361			AF070611	CCDS7469.1	10q24	2011-02-09			ENSG00000155252	ENSG00000155252			30031	protein-coding gene	gene with protein product		609763				11244087, 11279162	Standard	NM_018425		Approved	PI4KII, DKFZP761G1923, PIK42A	uc001kog.1	Q9BTU6	OTTHUMG00000018863	ENST00000370631.3:c.43delC	10.37:g.99400542delC	ENSP00000359665:p.Pro16fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DR59|Q9NSG8	Frame_Shift_Del	DEL	ENST00000370631.3	37	CCDS7469.1																																																																																				0.766	PI4K2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049735.1	NM_018425		-	99400542	C	-	99400542	7	5	627	1	0	1	0	1	0	0	0	0	11878	507	18	0	45	0	PI4K2A	10	99400542	Frame_Shift_Del	DEL	C	TCGA-KL-8328-01A-11D-2310-10		99400542	36134205	44	38549										
C10orf120	399814	hgsc.bcm.edu;bcgsc.ca	37	chr10	124457697	124457697	+	Missense_Mutation	SNP	T	T	G													0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	atgaggagcgtgtaaaccttTcaatgtagggtaaaggctga							TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr10:124457697T>G	ENST00000329446.4	-	3	591	c.560A>C	c.(559-561)gAa>gCa	p.E187A		NM_001010912.1	NP_001010912.1	Q5SQS8	CJ120_HUMAN	chromosome 10 open reading frame 120	187										endometrium(1)|kidney(1)|large_intestine(6)|lung(9)|skin(2)|stomach(1)|urinary_tract(1)	21		all_neural(114;0.169)|Glioma(114;0.222)				TGTAAACCTTTCAATGTAGGG	0.473																																																0													137	122	127					10																	124457697		2203	4300	6503	SO:0001583	missense	399814				CCDS31302.1	10q26.13	2012-06-12			ENSG00000183559	ENSG00000183559			25707	protein-coding gene	gene with protein product							Standard	NM_001010912		Approved	bA318C4.1	uc001lgn.3	Q5SQS8	OTTHUMG00000019187	ENST00000329446.4:c.560A>C	10.37:g.124457697T>G	ENSP00000331012:p.Glu187Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RU17	Missense_Mutation	SNP	ENST00000329446.4	37	CCDS31302.1	.	.	.	.	.	.	.	.	.	.	T	11.58	1.680512	0.29872	.	.	ENSG00000183559	ENST00000329446	T	0.31510	1.49	4.57	0.639	0.17747	.	0.393246	0.21776	N	0.069282	T	0.23532	0.0569	L	0.43152	1.355	0.09310	N	1	P	0.34639	0.461	B	0.39562	0.303	T	0.12016	-1.0564	10	0.40728	T	0.16	-12.4131	4.0837	0.09937	0.0:0.1945:0.1776:0.6279	.	187	Q5SQS8	CJ120_HUMAN	A	187	ENSP00000331012:E187A	ENSP00000331012:E187A	E	-	2	0	C10orf120	124447687	0.011000	0.17503	0.003000	0.11579	0.008000	0.06430	0.943000	0.29030	0.003000	0.14656	0.491000	0.48974	GAA		0.473	C10orf120-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050803.1	NM_001010912		G	124457697	T	G	124457697	3	3	627	1	0	0	0	0	1	0	0	0	1592	1783	62	5	451	5	C10orf120	10	124457697	Missense_Mutation	SNP	T	TCGA-KL-8328-01A-11D-2310-10	25057155	124457697	11077050	45	38550	309	2								
C10orf120	399814	broad.mit.edu;bcgsc.ca	37	chr10	124457698	124457698	+	Nonsense_Mutation	SNP	C	C	A													0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	tgaggagcgtgtaaacctttCaatgtagggtaaaggctgat							TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr10:124457698C>A	ENST00000329446.4	-	3	590	c.559G>T	c.(559-561)Gaa>Taa	p.E187*		NM_001010912.1	NP_001010912.1	Q5SQS8	CJ120_HUMAN	chromosome 10 open reading frame 120	187										endometrium(1)|kidney(1)|large_intestine(6)|lung(9)|skin(2)|stomach(1)|urinary_tract(1)	21		all_neural(114;0.169)|Glioma(114;0.222)				GTAAACCTTTCAATGTAGGGT	0.473																																																0													137	122	127					10																	124457698		2203	4300	6503	SO:0001587	stop_gained	399814				CCDS31302.1	10q26.13	2012-06-12			ENSG00000183559	ENSG00000183559			25707	protein-coding gene	gene with protein product							Standard	NM_001010912		Approved	bA318C4.1	uc001lgn.3	Q5SQS8	OTTHUMG00000019187	ENST00000329446.4:c.559G>T	10.37:g.124457698C>A	ENSP00000331012:p.Glu187*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RU17	Nonsense_Mutation	SNP	ENST00000329446.4	37	CCDS31302.1	.	.	.	.	.	.	.	.	.	.	C	16.92	3.256243	0.59321	.	.	ENSG00000183559	ENST00000329446	.	.	.	4.57	4.57	0.56435	.	0.393246	0.21776	N	0.069282	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.33141	T	0.24	-12.4131	13.0518	0.58958	0.0:1.0:0.0:0.0	.	.	.	.	X	187	.	ENSP00000331012:E187X	E	-	1	0	C10orf120	124447688	0.008000	0.16893	0.007000	0.13788	0.007000	0.05969	0.897000	0.28390	2.507000	0.84556	0.603000	0.83216	GAA		0.473	C10orf120-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050803.1	NM_001010912		A	124457698	C	A	124457698	4	1	627	1	0	0	0	0	0	1	0	0	1592	835	29	4	452	4	C10orf120	10	124457698	Nonsense_Mutation	SNP	C	TCGA-KL-8328-01A-11D-2310-10	1	124457698	11077049	46	38551	309	2								
AMBRA1	55626	ucsc.edu;bcgsc.ca	37	chr11	46515749	46515749	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ggtgcctggatctgtcaccaTtgtccctgaaaaaaataaaa	8	9	2	1	rs147544015	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr11:46515749T>C	ENST00000458649.2	-	10	2763	c.2345A>G	c.(2344-2346)aAt>aGt	p.N782S	AMBRA1_ENST00000529963.1_5'UTR|AMBRA1_ENST00000533727.1_Missense_Mutation_p.N663S|AMBRA1_ENST00000314845.3_Missense_Mutation_p.N692S|AMBRA1_ENST00000426438.1_Missense_Mutation_p.N753S|AMBRA1_ENST00000528950.1_Missense_Mutation_p.N753S|AMBRA1_ENST00000298834.3_Missense_Mutation_p.N722S|AMBRA1_ENST00000534300.1_Missense_Mutation_p.N722S			Q9C0C7	AMRA1_HUMAN	autophagy/beclin-1 regulator 1	782					autophagy (GO:0006914)|cell differentiation (GO:0030154)|negative regulation of cell proliferation (GO:0008285)|negative regulation of neuron apoptotic process (GO:0043524)|neural tube development (GO:0021915)	axoneme (GO:0005930)|cytoplasm (GO:0005737)|phagocytic vesicle (GO:0045335)				NS(1)|breast(3)|central_nervous_system(1)|endometrium(10)|kidney(2)|large_intestine(6)|lung(10)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	39				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		TCTGTCACCATTGTCCCTGAA	0.468													T|||	3	0.000599042	0.0	0.0043	5008	,	,		18258	0.0		0.0	False		,,,				2504	0.0															0								T	SER/ASN	0,4402		0,0,2201	49	43	45		2075	2.4	1	11	dbSNP_134	45	1,8597	1.2+/-3.3	0,1,4298	yes	missense	AMBRA1	NM_017749.2	46	0,1,6499	CC,CT,TT		0.0116,0.0,0.0077	benign	692/1209	46515749	1,12999	2201	4299	6500	SO:0001583	missense	55626			AB051523	CCDS31475.1, CCDS58132.1, CCDS73281.1	11p11.2	2013-01-09			ENSG00000110497	ENSG00000110497		"WD repeat domain containing", "DDB1 and CUL4 associated factors"	25990	protein-coding gene	gene with protein product	"WD repeat domain 94", "DDB1 and CUL4 associated factor 3"	611359				17622796, 17603510, 17589504	Standard	NM_001267782		Approved	FLJ20294, KIAA1736, WDR94, DCAF3	uc001ncv.3	Q9C0C7	OTTHUMG00000166500	ENST00000458649.2:c.2345A>G	11.37:g.46515749T>C	ENSP00000415327:p.Asn782Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6XN33|D3DQP8|G3V193|Q86XD6|Q9H8Z0|Q9NXE7	Missense_Mutation	SNP	ENST00000458649.2	37		2	9.157509157509158E-4	0	0.0	2	0.0055248618784530384	0	0.0	0	0.0	T	16.46	3.130274	0.56721	0.0	1.16E-4	ENSG00000110497	ENST00000314845;ENST00000533727;ENST00000534300;ENST00000426438;ENST00000298834;ENST00000458649;ENST00000528950	D;D;D;D;D;D;D	0.90732	-2.72;-2.72;-2.72;-2.72;-2.72;-2.72;-2.72	4.78	2.43	0.29744	.	0.178269	0.64402	N	0.000016	T	0.75547	0.3864	L	0.27053	0.805	0.27935	N	0.937725	P;B;B;B;B;B	0.48764	0.915;0.002;0.002;0.002;0.003;0.0	B;B;B;B;B;B	0.39465	0.3;0.002;0.002;0.002;0.004;0.002	T	0.70626	-0.4820	10	0.27082	T	0.32	.	8.2757	0.31871	0.0:0.1603:0.0:0.8397	.	782;753;722;663;785;692	Q9C0C7;Q9C0C7-3;Q9C0C7-2;G3V193;Q9C0C7-5;Q9C0C7-4	AMRA1_HUMAN;.;.;.;.;.	S	692;663;722;753;722;782;753	ENSP00000318313:N692S;ENSP00000433372:N663S;ENSP00000431926:N722S;ENSP00000410899:N753S;ENSP00000298834:N722S;ENSP00000415327:N782S;ENSP00000433945:N753S	ENSP00000298834:N722S	N	-	2	0	AMBRA1	46472325	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	1.842000	0.39250	0.396000	0.25283	0.529000	0.55759	AAT		0.468	AMBRA1-005	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000390103.1	NM_017749		C	46515749	T	C	46515749	3	2	627	1	0	0	0	0	1	0	0	0	565	1493	52	3	1587	3	AMBRA1	11	46515749	Missense_Mutation	SNP	T	TCGA-KL-8328-01A-11D-2310-10		46515749	88490767	47	38552										
RPS6KA4	8986	mdanderson.org	37	chr11	64127744	64127744	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gtgcagcgcgccaagacgcaAgagcacacgcgcaccgagcg	14	15	0	2	rs521950	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr11:64127744A>G	ENST00000334205.4	+	3	302	c.237A>G	c.(235-237)caA>caG	p.Q79Q	RPS6KA4_ENST00000528057.1_Silent_p.Q79Q|RPS6KA4_ENST00000294261.4_Silent_p.Q79Q	NM_003942.2	NP_003933.1	O75676	KS6A4_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide 4	79	Protein kinase 1. {ECO:0000255|PROSITE- ProRule:PRU00159}.				axon guidance (GO:0007411)|histone H3-S10 phosphorylation (GO:0043987)|histone H3-S28 phosphorylation (GO:0043988)|histone phosphorylation (GO:0016572)|inflammatory response (GO:0006954)|interleukin-1-mediated signaling pathway (GO:0070498)|intracellular signal transduction (GO:0035556)|negative regulation of cytokine production (GO:0001818)|positive regulation of CREB transcription factor activity (GO:0032793)|positive regulation of histone acetylation (GO:0035066)|positive regulation of histone phosphorylation (GO:0033129)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein phosphorylation (GO:0006468)|regulation of transcription, DNA-templated (GO:0006355)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|mitogen-activated protein kinase p38 binding (GO:0048273)|protein serine/threonine kinase activity (GO:0004674)|ribosomal protein S6 kinase activity (GO:0004711)			breast(1)|endometrium(3)|lung(7)|ovary(1)|prostate(1)	13						CCAAGACGCAAGAGCACACGC	0.687													G|||	1350	0.269569	0.0499	0.4078	5008	,	,		15083	0.2083		0.4324	False		,,,				2504	0.364															0								G	,	434,3564		35,364,1600	12	10	10		237,237	3.1	1	11	dbSNP_83	10	2989,4947		559,1871,1538	no	coding-synonymous,coding-synonymous	RPS6KA4	NM_001006944.1,NM_003942.2	,	594,2235,3138	GG,GA,AA		37.6638,10.8554,28.6828	,	79/767,79/773	64127744	3423,8511	1999	3968	5967	SO:0001819	synonymous_variant	8986			AJ010119	CCDS8073.1, CCDS73313.1	11q11-q13	2011-04-05	2002-08-29		ENSG00000162302	ENSG00000162302			10433	protein-coding gene	gene with protein product		603606	"ribosomal protein S6 kinase, 90kD, polypeptide 4"			9792677, 9687510	Standard	XM_005274379		Approved	RSK-B, MSK2	uc001oae.3	O75676	OTTHUMG00000046094	ENST00000334205.4:c.237A>G	11.37:g.64127744A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7Z8|O75585|Q53ES8	Silent	SNP	ENST00000334205.4	37	CCDS8073.1																																																																																				0.687	RPS6KA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000106246.2	NM_003942		G	64127744	A	G	64127744	2	3	627	1	0	0	0	0	0	0	0	1	13666	69	3	3		3	RPS6KA4	11	64127744	Silent	SNP	A	TCGA-KL-8328-01A-11D-2310-10	17611995	64127744	70878772	48	38553										
RAB1B	81876	ucsc.edu	37	chr11	66043329	66043329	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	agattgaccgctatgccagcGagaacgtcaataagctcctg	10	11	1	3			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr11:66043329G>A	ENST00000311481.6	+	5	481	c.334G>A	c.(334-336)Gag>Aag	p.E112K	RP11-867G23.3_ENST00000501708.1_lincRNA|RAB1B_ENST00000527397.1_Missense_Mutation_p.E80K|CNIH2_ENST00000528852.1_5'Flank|RP11-867G23.4_ENST00000528650.1_RNA|CNIH2_ENST00000311445.6_5'Flank|RP11-867G23.4_ENST00000526951.1_RNA	NM_030981.2	NP_112243.1	Q9H0U4	RAB1B_HUMAN	RAB1B, member RAS oncogene family	112					ER to Golgi vesicle-mediated transport (GO:0006888)|positive regulation of glycoprotein metabolic process (GO:1903020)|protein transport (GO:0015031)|small GTPase mediated signal transduction (GO:0007264)|virion assembly (GO:0019068)	endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|mitochondrion (GO:0005739)	GTP binding (GO:0005525)			large_intestine(2)|lung(1)|ovary(1)|prostate(1)	5						CTATGCCAGCGAGAACGTCAA	0.577																																																0													32	31	31					11																	66043329		2199	4291	6490	SO:0001583	missense	81876			AJ245875	CCDS31613.1	11q13.1	2008-02-05			ENSG00000174903	ENSG00000174903		"RAB, member RAS oncogene"	18370	protein-coding gene	gene with protein product		612565				9030196	Standard	NM_030981		Approved		uc001ohf.3	Q9H0U4	OTTHUMG00000166916	ENST00000311481.6:c.334G>A	11.37:g.66043329G>A	ENSP00000310226:p.Glu112Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7S1	Missense_Mutation	SNP	ENST00000311481.6	37	CCDS31613.1	.	.	.	.	.	.	.	.	.	.	G	16.99	3.273458	0.59649	.	.	ENSG00000174903	ENST00000311481;ENST00000527397;ENST00000394080	T;T	0.76839	-1.05;-1.05	4.53	4.53	0.55603	Small GTP-binding protein domain (1);	0.000000	0.85682	D	0.000000	T	0.62804	0.2458	N	0.12637	0.245	0.80722	D	1	B	0.23891	0.093	B	0.18561	0.022	T	0.64305	-0.6439	10	0.72032	D	0.01	.	14.731	0.69383	0.0:0.0:1.0:0.0	.	112	Q9H0U4	RAB1B_HUMAN	K	112;80;112	ENSP00000310226:E112K;ENSP00000435195:E80K	ENSP00000310226:E112K	E	+	1	0	RAB1B	65799905	1.000000	0.71417	0.997000	0.53966	0.380000	0.30137	9.678000	0.98647	2.068000	0.61886	0.313000	0.20887	GAG		0.577	RAB1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391886.2	NM_030981		A	66043329	G	A	66043329	3	1	627	1	0	0	0	0	1	0	0	0	12919	1059	37	1	352	1	RAB1B	11	66043329	Missense_Mutation	SNP	G	TCGA-KL-8328-01A-11D-2310-10	1915585	66043329	68963187	49	38554										
DSCAML1	57453	broad.mit.edu	37	chr11	117392079	117392079	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gatgaccgtgctgccaatgcCggtcttcagcttctttggtg	12	11	3	1	rs373292920		TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr11:117392079C>T	ENST00000321322.6	-	6	1160	c.1159G>A	c.(1159-1161)Ggc>Agc	p.G387S	DSCAML1_ENST00000527706.1_Missense_Mutation_p.G117S	NM_020693.2	NP_065744.2	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	327	Ig-like C2-type 4.				axonogenesis (GO:0007409)|brain development (GO:0007420)|cell fate determination (GO:0001709)|central nervous system development (GO:0007417)|dendrite self-avoidance (GO:0070593)|dorsal/ventral pattern formation (GO:0009953)|embryonic skeletal system morphogenesis (GO:0048704)|homophilic cell adhesion (GO:0007156)|negative regulation of cell adhesion (GO:0007162)	cell surface (GO:0009986)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	protein homodimerization activity (GO:0042803)			breast(3)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|large_intestine(24)|lung(49)|ovary(6)|pancreas(1)|prostate(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	110	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)		CTGCCAATGCCGGTCTTCAGC	0.607													C|||	1	0.000199681	0.0008	0.0	5008	,	,		17278	0.0		0.0	False		,,,				2504	0.0															0								C	SER/GLY	0,4402		0,0,2201	41	38	39		1159	4.5	1	11		39	4,8588	3.7+/-12.6	0,4,4292	no	missense	DSCAML1	NM_020693.2	56	0,4,6493	TT,TC,CC		0.0466,0.0,0.0308	possibly-damaging	387/2114	117392079	4,12990	2201	4296	6497	SO:0001583	missense	57453				CCDS8384.1	11q22.2-q22.3	2013-02-11			ENSG00000177103	ENSG00000177103		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	14656	protein-coding gene	gene with protein product		611782				11453658	Standard	NM_020693		Approved	KIAA1132	uc001prh.1	Q8TD84	OTTHUMG00000167071	ENST00000321322.6:c.1159G>A	11.37:g.117392079C>T	ENSP00000315465:p.Gly387Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q76MU9|Q8IZY3|Q8IZY4|Q8WXU7|Q9ULT7	Missense_Mutation	SNP	ENST00000321322.6	37	CCDS8384.1	.	.	.	.	.	.	.	.	.	.	C	11.38	1.622344	0.28889	0.0	4.66E-4	ENSG00000177103	ENST00000527706;ENST00000321322;ENST00000446508	T;T	0.63744	-0.06;-0.06	4.5	4.5	0.54988	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.36441	0.0967	N	0.01576	-0.805	0.58432	D	0.999999	P;P	0.48089	0.607;0.905	B;B	0.43386	0.217;0.418	T	0.42258	-0.9462	9	0.11182	T	0.66	.	17.3845	0.87413	0.0:1.0:0.0:0.0	.	117;327	G3V1B5;Q8TD84	.;DSCL1_HUMAN	S	117;387;94	ENSP00000434335:G117S;ENSP00000315465:G387S	ENSP00000315465:G387S	G	-	1	0	DSCAML1	116897289	1.000000	0.71417	0.997000	0.53966	0.998000	0.95712	4.734000	0.62043	2.333000	0.79357	0.609000	0.83330	GGC		0.607	DSCAML1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392907.2	NM_020693		T	117392079	C	T	117392079	3	4	627	1	0	0	0	0	1	0	0	0	4771	652	23	1	5294	1	DSCAML1	11	117392079	Missense_Mutation	SNP	C	TCGA-KL-8328-01A-11D-2310-10	51348750	117392079	17614437	50	38555										
CHD4	1108	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	6701640	6701640	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	acacatcggctttgagccgcCgcaacatgtgcggccccagc	11	16	0	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr12:6701640C>A	ENST00000357008.2	-	19	3030	c.2867G>T	c.(2866-2868)cGg>cTg	p.R956L	CHD4_ENST00000544040.1_Missense_Mutation_p.R949L|CHD4_ENST00000544484.1_Missense_Mutation_p.R953L|CHD4_ENST00000309577.6_Missense_Mutation_p.R956L	NM_001273.2	NP_001264.2	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	956					ATP-dependent chromatin remodeling (GO:0043044)|DNA duplex unwinding (GO:0032508)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|spindle assembly (GO:0051225)|transcription, DNA-templated (GO:0006351)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|NuRD complex (GO:0016581)|protein complex (GO:0043234)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA binding (GO:0003677)|RNA polymerase II repressing transcription factor binding (GO:0001103)|zinc ion binding (GO:0008270)			central_nervous_system(2)	2						TTTGAGCCGCCGCAACATGTG	0.498																																					Colon(32;586 792 4568 16848 45314)											0													89	89	89					12																	6701640		2203	4300	6503	SO:0001583	missense	1108			X86691	CCDS8552.1	12p13	2013-01-28				ENSG00000111642		"Zinc fingers, PHD-type"	1919	protein-coding gene	gene with protein product		603277				7575689, 8843877	Standard	XM_006718958		Approved	Mi-2b, Mi2-BETA	uc001qpo.3	Q14839		ENST00000357008.2:c.2867G>T	12.37:g.6701640C>A	ENSP00000349508:p.Arg956Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IXZ5	Missense_Mutation	SNP	ENST00000357008.2	37	CCDS8552.1	.	.	.	.	.	.	.	.	.	.	C	28.4	4.918904	0.92249	.	.	ENSG00000111642	ENST00000544484;ENST00000544040;ENST00000309577;ENST00000357008;ENST00000537464	D;D;D;D	0.96967	-4.19;-4.19;-4.19;-4.19	5.4	5.4	0.78164	SNF2-related (1);	0.056531	0.64402	D	0.000002	D	0.99077	0.9683	H	0.98769	4.325	0.80722	D	1	D;D;P	0.89917	0.999;1.0;0.932	D;D;P	0.97110	0.996;1.0;0.675	D	0.99047	1.0826	10	0.87932	D	0	.	19.1812	0.93623	0.0:1.0:0.0:0.0	.	956;956;949	Q14839-2;Q14839;F5GWX5	.;CHD4_HUMAN;.	L	953;949;956;956;930	ENSP00000440392:R953L;ENSP00000440542:R949L;ENSP00000312419:R956L;ENSP00000349508:R956L	ENSP00000312419:R956L	R	-	2	0	CHD4	6571901	1.000000	0.71417	1.000000	0.80357	0.802000	0.45316	7.792000	0.85828	2.530000	0.85305	0.563000	0.77884	CGG		0.498	CHD4-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001273		A	6701640	C	A	6701640	3	1	627	1	0	0	0	0	1	0	0	0	3329	652	23	4	2959	4	CHD4	12	6701640	Missense_Mutation	SNP	C	TCGA-KL-8328-01A-11D-2310-10		6701640	127150255	51	38556										
DUSP16	80824	broad.mit.edu	37	chr12	12630273	12630273	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	atgcagtggagataaaagggAcctctgggcggtgccactgc	15	9	1	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr12:12630273A>G	ENST00000228862.2	-	7	2123	c.1492T>C	c.(1492-1494)Tcc>Ccc	p.S498P	DUSP16_ENST00000298573.4_3'UTR|DUSP16_ENST00000545864.1_5'Flank	NM_030640.2	NP_085143.1	Q9BY84	DUS16_HUMAN	dual specificity phosphatase 16	498					dephosphorylation (GO:0016311)|inactivation of MAPK activity (GO:0000188)|MAPK export from nucleus (GO:0045204)|MAPK phosphatase export from nucleus, leptomycin B sensitive (GO:0045209)|protein dephosphorylation (GO:0006470)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|nucleus (GO:0005634)	MAP kinase tyrosine/serine/threonine phosphatase activity (GO:0017017)|phosphoprotein phosphatase activity (GO:0004721)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)			endometrium(7)|kidney(2)|large_intestine(6)|lung(6)|pancreas(1)|prostate(1)|urinary_tract(3)	26		Prostate(47;0.0687)		BRCA - Breast invasive adenocarcinoma(232;0.0203)		GATAAAAGGGACCTCTGGGCG	0.582																																					Ovarian(158;443 1896 15437 36069 46477)											0													71	71	71					12																	12630273		2203	4300	6503	SO:0001583	missense	80824			AB052156	CCDS8650.1	12p13	2011-06-09				ENSG00000111266		"Protein tyrosine phosphatases / Class I Cys-based PTPs : MAP kinase phosphatases"	17909	protein-coding gene	gene with protein product	"MAPK phosphatase-7"	607175				11359773, 11489891, 15888437	Standard	NM_030640		Approved	MKP-7, KIAA1700, MKP7	uc001rao.2	Q9BY84		ENST00000228862.2:c.1492T>C	12.37:g.12630273A>G	ENSP00000228862:p.Ser498Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q547C7|Q96QS2|Q9C0G3	Missense_Mutation	SNP	ENST00000228862.2	37	CCDS8650.1	.	.	.	.	.	.	.	.	.	.	A	2.707	-0.269691	0.05716	.	.	ENSG00000111266	ENST00000228862	T	0.02015	4.5	5.27	-9.11	0.00711	.	1.150150	0.06307	N	0.702034	T	0.01061	0.0035	N	0.03324	-0.35	0.43902	D	0.996538	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.49390	-0.8945	10	0.20046	T	0.44	.	10.3793	0.44101	0.2491:0.4277:0.3233:0.0	.	498;498	Q9BY84;Q96N49	DUS16_HUMAN;.	P	498	ENSP00000228862:S498P	ENSP00000228862:S498P	S	-	1	0	DUSP16	12521540	0.000000	0.05858	0.004000	0.12327	0.035000	0.12851	-2.226000	0.01211	-1.560000	0.01686	-0.250000	0.11733	TCC		0.582	DUSP16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400311.1	NM_030640		G	12630273	A	G	12630273	3	3	627	1	0	0	0	0	1	0	0	0	4818	275	10	3	509	3	DUSP16	12	12630273	Missense_Mutation	SNP	A	TCGA-KL-8328-01A-11D-2310-10	5928633	12630273	121221622	52	38557										
ANO6	196527	mdanderson.org	37	chr12	45725162	45725162	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ttctagtatatgaggatgaaAgcagaaaagagaccaataaa	9	4	1	4			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr12:45725162A>G	ENST00000320560.8	+	3	437	c.235A>G	c.(235-237)Agc>Ggc	p.S79G	ANO6_ENST00000435642.1_Missense_Mutation_p.S79G|ANO6_ENST00000423947.3_Missense_Mutation_p.S100G|ANO6_ENST00000426898.2_3'UTR|ANO6_ENST00000425752.2_Missense_Mutation_p.S79G|ANO6_ENST00000441606.2_Missense_Mutation_p.S61G	NM_001025356.2	NP_001020527.2	Q4KMQ2	ANO6_HUMAN	anoctamin 6	79					activation of blood coagulation via clotting cascade (GO:0002543)|blood coagulation (GO:0007596)|bone mineralization involved in bone maturation (GO:0035630)|calcium activated galactosylceramide scrambling (GO:0061591)|calcium activated phosphatidylcholine scrambling (GO:0061590)|calcium activated phosphatidylserine scrambling (GO:0061589)|cation transmembrane transport (GO:0098655)|cation transport (GO:0006812)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|dendritic cell chemotaxis (GO:0002407)|ion transmembrane transport (GO:0034220)|phosphatidylserine exposure on blood platelet (GO:0097045)|phospholipid scrambling (GO:0017121)|positive regulation of endothelial cell apoptotic process (GO:2000353)|regulation of anion transport (GO:0044070)|transmembrane transport (GO:0055085)	cell surface (GO:0009986)|chloride channel complex (GO:0034707)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium activated cation channel activity (GO:0005227)|intracellular calcium activated chloride channel activity (GO:0005229)|phospholipid scramblase activity (GO:0017128)|voltage-gated chloride channel activity (GO:0005247)|voltage-gated ion channel activity (GO:0005244)			central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(8)|lung(23)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	46						TGAGGATGAAAGCAGAAAAGA	0.303																																																0													76	80	78					12																	45725162		2203	4299	6502	SO:0001583	missense	196527			AL832340	CCDS31782.1, CCDS44865.1, CCDS44866.1, CCDS55819.1	12q12-q13.11	2014-09-17	2008-08-28	2008-08-28				"Ion channels / Chloride channels : Calcium activated : Anoctamins"	25240	protein-coding gene	gene with protein product		608663	"transmembrane protein 16F"	TMEM16F		15067359, 24692353	Standard	NM_001025356		Approved	DKFZp313M0720	uc010slf.2	Q4KMQ2	OTTHUMG00000169564	ENST00000320560.8:c.235A>G	12.37:g.45725162A>G	ENSP00000320087:p.Ser79Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNM6|B9EGG0|E7ENK4|E9PB30|E9PCT2|Q8N3Q2	Missense_Mutation	SNP	ENST00000320560.8	37	CCDS31782.1	.	.	.	.	.	.	.	.	.	.	A	10.45	1.352937	0.24512	.	.	ENSG00000177119	ENST00000425752;ENST00000423947;ENST00000435642;ENST00000320560;ENST00000441606	T;T;T;T;T	0.68903	-0.36;-0.36;-0.36;-0.36;-0.36	5.17	1.24	0.21308	.	0.364642	0.32416	N	0.006135	T	0.51702	0.1690	L	0.50333	1.59	0.31878	N	0.618855	B;B;B;B	0.26672	0.004;0.01;0.156;0.008	B;B;B;B	0.17098	0.017;0.017;0.016;0.005	T	0.49679	-0.8914	10	0.22706	T	0.39	.	7.1651	0.25685	0.6484:0.2749:0.0767:0.0	.	61;100;79;79	E9PB30;B9EGG0;E9PCT2;Q4KMQ2	.;.;.;ANO6_HUMAN	G	79;100;79;79;61	ENSP00000391417:S79G;ENSP00000409126:S100G;ENSP00000413840:S79G;ENSP00000320087:S79G;ENSP00000413137:S61G	ENSP00000320087:S79G	S	+	1	0	ANO6	44011429	0.998000	0.40836	0.935000	0.37517	0.905000	0.53344	2.285000	0.43487	0.483000	0.27608	0.482000	0.46254	AGC		0.303	ANO6-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000404822.1	XM_113743		G	45725162	A	G	45725162	3	3	627	1	0	0	0	0	1	0	0	0	701	72	3	3	265	3	ANO6	12	45725162	Missense_Mutation	SNP	A	TCGA-KL-8328-01A-11D-2310-10	33094889	45725162	88126733	53	38558										
GALNT6	11226	broad.mit.edu	37	chr12	51752937	51752937	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	tcttgggccatctttgctgcCtgcagatttctcctatagaa	8	11	3	2			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr12:51752937C>G	ENST00000543196.2	-	7	1552	c.1347G>C	c.(1345-1347)caG>caC	p.Q449H	GALNT6_ENST00000356317.3_Missense_Mutation_p.Q449H			Q8NCL4	GALT6_HUMAN	polypeptide N-acetylgalactosaminyltransferase 6	449					cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein O-linked glycosylation (GO:0006493)	Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			endometrium(2)|large_intestine(6)|lung(7)|ovary(3)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	27						TCTTTGCTGCCTGCAGATTTC	0.522																																																0													179	199	192					12																	51752937		2203	4300	6503	SO:0001583	missense	11226			Y08565	CCDS8813.1	12q13	2014-03-13	2014-03-13		ENSG00000139629	ENSG00000139629		"Glycosyltransferase family 2 domain containing"	4128	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 6"	605148	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 6 (GalNAc-T6)"			10464263	Standard	NM_007210		Approved	GalNAc-T6	uc001ryl.1	Q8NCL4		ENST00000543196.2:c.1347G>C	12.37:g.51752937C>G	ENSP00000444171:p.Gln449His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYH4|Q9H6G2|Q9UIV5	Missense_Mutation	SNP	ENST00000543196.2	37	CCDS8813.1	.	.	.	.	.	.	.	.	.	.	C	11.78	1.739970	0.30865	.	.	ENSG00000139629	ENST00000543196;ENST00000356317;ENST00000546163	T;T	0.59083	0.29;0.29	4.26	-0.848	0.10727	.	0.836851	0.10439	N	0.674486	T	0.43765	0.1262	N	0.25825	0.765	0.38323	D	0.943575	B	0.32543	0.375	B	0.40534	0.332	T	0.35400	-0.9790	10	0.31617	T	0.26	.	5.315	0.15850	0.131:0.4741:0.0:0.395	.	449	Q8NCL4	GALT6_HUMAN	H	449;449;430	ENSP00000444171:Q449H;ENSP00000348668:Q449H	ENSP00000348668:Q449H	Q	-	3	2	GALNT6	50039204	0.001000	0.12720	0.665000	0.29768	0.965000	0.64279	-1.549000	0.02182	-0.156000	0.11079	-0.258000	0.10820	CAG		0.522	GALNT6-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000469735.1	NM_007210		G	51752937	C	G	51752937	3	3	627	1	0	0	0	0	1	0	0	0	6224	680	24	4	541	4	GALNT6	12	51752937	Missense_Mutation	SNP	C	TCGA-KL-8328-01A-11D-2310-10	6027775	51752937	82098958	54	38559										
E2F7	144455	broad.mit.edu	37	chr12	77419489	77419490	+	Frame_Shift_Del	DEL	TT	TT	-													0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	cagaagggagtgtggacgacTttggattaaccacagctgtg							TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr12:77419489_77419490delTT	ENST00000322886.7	-	12	2648_2649	c.2413_2414delAA	c.(2413-2415)aagfs	p.K805fs	E2F7_ENST00000416496.2_Intron	NM_203394.2	NP_976328.2	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	805					chorionic trophoblast cell differentiation (GO:0060718)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|hepatocyte differentiation (GO:0070365)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cytokinesis (GO:0032466)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0071930)|placenta development (GO:0001890)|positive regulation of DNA endoreduplication (GO:0032877)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|sprouting angiogenesis (GO:0002040)|trophoblast giant cell differentiation (GO:0060707)	nucleus (GO:0005634)|transcription factor complex (GO:0005667)	core promoter binding (GO:0001047)|identical protein binding (GO:0042802)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001227)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			central_nervous_system(1)|endometrium(3)|kidney(4)|large_intestine(15)|lung(14)|ovary(3)|upper_aerodigestive_tract(2)	42						TGTGGACGACTTTGGATTAACC	0.53																																																0																																										SO:0001589	frameshift_variant	144455			BC016658	CCDS9016.1	12q21.1	2008-02-05				ENSG00000165891			23820	protein-coding gene	gene with protein product		612046				12893818	Standard	NM_203394		Approved		uc001sym.4	Q96AV8	OTTHUMG00000169969	ENST00000322886.7:c.2413_2414delAA	12.37:g.77419489_77419490delTT	ENSP00000323246:p.Lys805fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NC74|B2RMR7|B3KTZ5|B3KUP8|B5MED9	Frame_Shift_Del	DEL	ENST00000322886.7	37	CCDS9016.1																																																																																				0.53	E2F7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406716.1	XM_084871		-	77419490	TT	-	77419489	7	5	627	1	0	1	0	1	0	0	0	0	4874	1609	56	0	329	0	E2F7	12	77419489	Frame_Shift_Del	DEL	TT	TCGA-KL-8328-01A-11D-2310-10	25666552	77419489	56432406	55	38560										
IKBIP	121457	mdanderson.org	37	chr12	99020139	99020139	+	Intron	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	taacttttcaattgcctttgTatcagagcctagctgctcct	6	11	2	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr12:99020139T>C	ENST00000342502.2	-	2	709				IKBIP_ENST00000420861.1_Intron|IKBIP_ENST00000393042.3_Intron|IKBIP_ENST00000299157.4_Missense_Mutation_p.T235A	NM_201612.2	NP_963906.1	Q70UQ0	IKIP_HUMAN	IKBKB interacting protein						response to X-ray (GO:0010165)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)				NS(1)|kidney(1)|large_intestine(1)|lung(1)|prostate(2)	6						ATTGCCTTTGTATCAGAGCCT	0.398																																																0													141	135	137					12																	99020139		2203	4300	6503	SO:0001627	intron_variant	121457			AJ539425	CCDS9067.1, CCDS9068.1, CCDS41822.1	12q23.1	2010-02-17			ENSG00000166130	ENSG00000166130			26430	protein-coding gene	gene with protein product	"I kappa B kinase interacting protein"	609861				15389287	Standard	NM_153687		Approved	FLJ31051, IKIP	uc001tfx.4	Q70UQ0	OTTHUMG00000170213	ENST00000342502.2:c.297+7934A>G	12.37:g.99020139T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZWH4|Q70UP9|Q86V91|Q96ND2	Missense_Mutation	SNP	ENST00000342502.2	37	CCDS9067.1	.	.	.	.	.	.	.	.	.	.	T	10.48	1.362014	0.24684	.	.	ENSG00000166130	ENST00000299157	T	0.49432	0.78	5.59	0.294	0.15747	.	0.465264	0.24143	N	0.041153	T	0.26810	0.0656	.	.	.	0.80722	D	1	B	0.09022	0.002	B	0.11329	0.006	T	0.04593	-1.0940	9	0.19590	T	0.45	-3.0795	5.3045	0.15795	0.128:0.3427:0.0:0.5293	.	235	Q70UQ0-4	.	A	235	ENSP00000299157:T235A	ENSP00000299157:T235A	T	-	1	0	IKBIP	97544270	0.968000	0.33430	0.788000	0.31933	0.518000	0.34316	0.767000	0.26575	0.086000	0.17137	0.528000	0.53228	ACA		0.398	IKBIP-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000408003.2	NM_153687		C	99020139	T	C	99020139	1	2	627	0	1	0	0	0	0	0	0	0	7616	1638	57	3		3	IKBIP	12	99020139	Intron	SNP	T	TCGA-KL-8328-01A-11D-2310-10	21600650	99020139	34831756	56	38561										
FREM2	341640	broad.mit.edu	37	chr13	39446906	39446906	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	acctagtgcagtcctatgtgAcccttcgagtccctctgtat	8	13	1	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr13:39446906A>G	ENST00000280481.7	+	17	8227	c.8011A>G	c.(8011-8013)Acc>Gcc	p.T2671A		NM_207361.4	NP_997244.3	Q5SZK8	FREM2_HUMAN	FRAS1 related extracellular matrix protein 2	2671					cell communication (GO:0007154)|homophilic cell adhesion (GO:0007156)|inner ear development (GO:0048839)|morphogenesis of an epithelium (GO:0002009)	basement membrane (GO:0005604)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(35)|lung(39)|ovary(9)|pancreas(2)|prostate(12)|skin(11)|upper_aerodigestive_tract(7)|urinary_tract(2)	148		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GTCCTATGTGACCCTTCGAGT	0.443																																																0													165	154	158					13																	39446906		2203	4300	6503	SO:0001583	missense	341640			BX538150	CCDS31960.1	13q13.3	2004-12-15			ENSG00000150893	ENSG00000150893			25396	protein-coding gene	gene with protein product		608945				15345741	Standard	NM_207361		Approved	DKFZp686J0811	uc001uwv.3	Q5SZK8	OTTHUMG00000016759	ENST00000280481.7:c.8011A>G	13.37:g.39446906A>G	ENSP00000280481:p.Thr2671Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q4QQG1|Q5H9N8|Q5T6Q1|Q6N057|Q6ZSB4|Q7Z305|Q7Z341	Missense_Mutation	SNP	ENST00000280481.7	37	CCDS31960.1	.	.	.	.	.	.	.	.	.	.	A	27.1	4.802831	0.90623	.	.	ENSG00000150893	ENST00000280481	T	0.28895	1.59	5.78	5.78	0.91487	.	0.000000	0.85682	D	0.000000	T	0.44350	0.1289	M	0.83012	2.62	0.80722	D	1	P	0.45212	0.853	B	0.43052	0.406	T	0.54084	-0.8346	10	0.87932	D	0	.	16.1146	0.81295	1.0:0.0:0.0:0.0	.	2671	Q5SZK8	FREM2_HUMAN	A	2671	ENSP00000280481:T2671A	ENSP00000280481:T2671A	T	+	1	0	FREM2	38344906	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.309000	0.96252	2.200000	0.70718	0.460000	0.39030	ACC		0.443	FREM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044599.2	NM_207361		G	39446906	A	G	39446906	3	3	627	1	0	0	0	0	1	0	0	0	6052	275	10	3	8077	3	FREM2	13	39446906	Missense_Mutation	SNP	A	TCGA-KL-8328-01A-11D-2310-10		39446906	75722972	57	38562										
POTEG	404785	mdanderson.org	37	chr14	19553653	19553653	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	agggggagcagcaagagcaaCgtgggcacttctggagacca	16	9	1	2	rs201360940		TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr14:19553653C>T	ENST00000409832.3	+	1	289	c.237C>T	c.(235-237)aaC>aaT	p.N79N		NM_001005356.2	NP_001005356.1	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	79										cervix(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(31)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	47						GCAAGAGCAACGTGGGCACTT	0.602																																																0													100	129	119					14																	19553653		1939	3935	5874	SO:0001819	synonymous_variant	404785				CCDS73610.1	14q11.2	2013-01-10	2008-11-26	2008-11-26	ENSG00000222036	ENSG00000222036		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33896	protein-coding gene	gene with protein product	"cancer/testis antigen family 104, member 4"	608916	"ANKRD26-like family C, member 2"	A26C2			Standard	NR_027480		Approved	POTE14, POTE-14, POTE14alpha, CT104.4	uc001vuz.1	Q6S5H5	OTTHUMG00000170340	ENST00000409832.3:c.237C>T	14.37:g.19553653C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A1L153|A6NMI9|Q6S5H6|Q6S8J2	Silent	SNP	ENST00000409832.3	37	CCDS32018.1																																																																																				0.602	POTEG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408579.1	NM_001005356		T	19553653	C	T	19553653	2	4	627	1	0	0	0	0	0	0	0	1	12273	535	19	1		1	POTEG	14	19553653	Silent	SNP	C	TCGA-KL-8328-01A-11D-2310-10		19553653	87795887	58	38563										
PNP	4860	broad.mit.edu;bcgsc.ca	37	chr14	20944680	20944680	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	atgaagaagtcttagcagctGgcaaacaagctgcacagaaa	10	8	1	3			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr14:20944680G>A	ENST00000361505.5	+	6	936	c.790G>A	c.(790-792)Ggc>Agc	p.G264S	RP11-203M5.8_ENST00000554678.1_lincRNA	NM_000270.3	NP_000261.2	P01298	PAHO_HUMAN	purine nucleoside phosphorylase	0					digestion (GO:0007586)|protein secretion (GO:0009306)	extracellular region (GO:0005576)	hormone activity (GO:0005179)|receptor binding (GO:0005102)			cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(1)|ovary(2)|stomach(2)	10						CTTAGCAGCTGGCAAACAAGC	0.483																																																0													106	97	100					14																	20944680		2203	4300	6503	SO:0001583	missense	4860				CCDS9552.1	14q11.2	2014-09-17	2009-12-02	2009-12-02	ENSG00000198805	ENSG00000198805	2.4.2.1		7892	protein-coding gene	gene with protein product		164050	"nucleoside phosphorylase"	NP		6087295	Standard	NM_000270		Approved	PUNP	uc001vxo.4	P00491	OTTHUMG00000029546	ENST00000361505.5:c.790G>A	14.37:g.20944680G>A	ENSP00000354532:p.Gly264Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000361505.5	37	CCDS9552.1	.	.	.	.	.	.	.	.	.	.	G	8.277	0.814701	0.16607	.	.	ENSG00000198805	ENST00000361505	D	0.93189	-3.18	4.88	3.99	0.46301	Nucleoside phosphorylase domain (1);	0.212230	0.48767	D	0.000161	D	0.88306	0.6401	L	0.42632	1.34	0.49915	D	0.999834	B	0.02656	0.0	B	0.11329	0.006	T	0.81837	-0.0749	10	0.18710	T	0.47	-14.0071	9.415	0.38517	0.1721:0.0:0.8279:0.0	.	264	P00491	PNPH_HUMAN	S	264	ENSP00000354532:G264S	ENSP00000354532:G264S	G	+	1	0	PNP	20014520	1.000000	0.71417	0.593000	0.28771	0.128000	0.20619	3.182000	0.50910	1.281000	0.44480	-0.137000	0.14449	GGC		0.483	PNP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000073646.2	NM_000270.2		A	20944680	G	A	20944680	3	1	627	1	0	0	0	0	1	0	0	0	12170	1348	47	2	812	2	PNP	14	20944680	Missense_Mutation	SNP	G	TCGA-KL-8328-01A-11D-2310-10	1391027	20944680	86404860	59	38564										
ISM2	145501	mdanderson.org	37	chr14	77942316	77942316	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	aagctgcggccctggtgctcGtcctgtaggctcacagggct	14	13	1	0	rs3742732	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr14:77942316G>A	ENST00000342219.4	-	7	1394	c.1338C>T	c.(1336-1338)gaC>gaT	p.D446D	ISM2_ENST00000493585.1_3'UTR|ISM2_ENST00000429906.1_Silent_p.D365D|ISM2_ENST00000393684.3_Silent_p.D358D|ISM2_ENST00000412904.1_Silent_p.D365D	NM_199296.2	NP_954993.1	Q6H9L7	ISM2_HUMAN	isthmin 2	446	AMOP. {ECO:0000255|PROSITE- ProRule:PRU00347}.					extracellular region (GO:0005576)				endometrium(3)|large_intestine(4)|lung(11)|prostate(1)|skin(1)|urinary_tract(1)	21						CCTGGTGCTCGTCCTGTAGGC	0.652													G|||	322	0.0642971	0.0363	0.1571	5008	,	,		17437	0.0149		0.0765	False		,,,				2504	0.0746															0								G	,	210,4196	127.8+/-164.7	6,198,1999	36	38	37		,1338	-3	0.3	14	dbSNP_107	37	775,7825	179.2+/-228.4	32,711,3557	no	utr-3,coding-synonymous	ISM2	NM_182509.3,NM_199296.2	,	38,909,5556	AA,AG,GG		9.0116,4.7662,7.5734	,	,446/572	77942316	985,12021	2203	4300	6503	SO:0001819	synonymous_variant	145501			AK056709	CCDS9864.1, CCDS45143.1	14q24.3	2013-05-15	2013-05-15	2008-12-23	ENSG00000100593	ENSG00000100593			23176	protein-coding gene	gene with protein product	"thrombospondin and AMOP containing isthmin-like 1"	612684	"thrombospondin, type I domain-containing 3", "thrombospondin, type I, domain containing 3", "isthmin 2 homolog (zebrafish)"	THSD3		15194193	Standard	NM_199296		Approved	FLJ32147, TAIL1	uc001xtz.3	Q6H9L7	OTTHUMG00000158563	ENST00000342219.4:c.1338C>T	14.37:g.77942316G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6D5|O95432|Q495U5|Q68CN3|Q86TQ7|Q86TW3|Q86TW4|Q8N501|Q8NBL0	Silent	SNP	ENST00000342219.4	37	CCDS9864.1																																																																																				0.652	ISM2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000351309.1	NM_182509		A	77942316	G	A	77942316	2	1	627	1	0	0	0	0	0	0	0	1	7868	1136	40	1		1	ISM2	14	77942316	Silent	SNP	G	TCGA-KL-8328-01A-11D-2310-10	56997636	77942316	29407224	60	38565										
SPATA7	55812	bcgsc.ca	37	chr14	88892586	88892586	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	atgttcttagccctcaggcgAaccgcaaattgaggatgaca	10	10	2	2			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr14:88892586A>G	ENST00000393545.4	+	6	672	c.383A>G	c.(382-384)gAa>gGa	p.E128G	SPATA7_ENST00000556553.1_Missense_Mutation_p.E96G|SPATA7_ENST00000356583.5_Missense_Mutation_p.E96G|SPATA7_ENST00000045347.7_Missense_Mutation_p.E128G	NM_018418.4	NP_060888.2	Q9P0W8	SPAT7_HUMAN	spermatogenesis associated 7	128					response to stimulus (GO:0050896)|visual perception (GO:0007601)					cervix(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(9)|ovary(1)	18						CCCTCAGGCGAACCGCAAATT	0.373																																																0													43	41	42					14																	88892586		2203	4300	6503	SO:0001583	missense	55812			AF144487	CCDS9883.1, CCDS32132.1	14q31.3	2011-02-17				ENSG00000042317			20423	protein-coding gene	gene with protein product		609868	"Leber congenital amaurosis 3"	LCA3		9799089, 19268277	Standard	NM_018418		Approved	HSD3	uc001xwq.3	Q9P0W8		ENST00000393545.4:c.383A>G	14.37:g.88892586A>G	ENSP00000377176:p.Glu128Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKY5|Q8WX30|Q96HF3|Q9H0X0|Q9P0W7	Missense_Mutation	SNP	ENST00000393545.4	37	CCDS9883.1	.	.	.	.	.	.	.	.	.	.	A	15.18	2.757492	0.49468	.	.	ENSG00000042317	ENST00000556553;ENST00000393545;ENST00000356583;ENST00000555401;ENST00000553885;ENST00000045347	T;T;T;T;T;T	0.20738	2.05;2.05;2.05;2.05;2.05;2.05	5.38	5.38	0.77491	.	0.062767	0.64402	D	0.000006	T	0.45418	0.1341	M	0.70595	2.14	0.37018	D	0.896074	D;D	0.89917	1.0;0.999	D;D	0.87578	0.998;0.974	T	0.53913	-0.8371	10	0.56958	D	0.05	-24.6762	13.6381	0.62233	1.0:0.0:0.0:0.0	.	96;128	Q9P0W8-2;Q9P0W8	.;SPAT7_HUMAN	G	96;128;96;71;114;128	ENSP00000451128:E96G;ENSP00000377176:E128G;ENSP00000348991:E96G;ENSP00000452435:E71G;ENSP00000450606:E114G;ENSP00000045347:E128G	ENSP00000045347:E128G	E	+	2	0	SPATA7	87962339	0.995000	0.38212	0.959000	0.39883	0.072000	0.16883	4.827000	0.62723	2.159000	0.67721	0.528000	0.53228	GAA		0.373	SPATA7-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410172.1			G	88892586	A	G	88892586	3	3	627	1	0	0	0	0	1	0	0	0	15026	246	9	3	405	3	SPATA7	14	88892586	Missense_Mutation	SNP	A	TCGA-KL-8328-01A-11D-2310-10	10950270	88892586	18456954	61	38566										
C14orf142	84520	broad.mit.edu;mdanderson.org	37	chr14	93670052	93670052	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gttaagacggtgtttttggcCgttttgcagatggtccatcg	13	7	0	2			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr14:93670052C>T	ENST00000306954.4	-	2	340	c.284G>A	c.(283-285)cGg>cAg	p.R95Q	RP11-371E8.4_ENST00000557574.1_Intron|RP11-371E8.4_ENST00000557048.1_Intron	NM_032490.4	NP_115879.2	Q9BXV9	CN142_HUMAN	chromosome 14 open reading frame 142	95										endometrium(1)|skin(1)	2		all_cancers(154;0.00528)|Acute lymphoblastic leukemia(33;0.0497)|all_epithelial(191;0.125)|all_neural(303;0.13)		Epithelial(152;0.177)|all cancers(159;0.198)|COAD - Colon adenocarcinoma(157;0.203)		TGTTTTTGGCCGTTTTGCAGA	0.338																																																0													260	242	248					14																	93670052		1921	4144	6065	SO:0001583	missense	84520			AF277185	CCDS41981.1	14q32.12	2012-09-25			ENSG00000170270	ENSG00000170270			20356	protein-coding gene	gene with protein product							Standard	NM_032490		Approved		uc001ybl.1	Q9BXV9	OTTHUMG00000171267	ENST00000306954.4:c.284G>A	14.37:g.93670052C>T	ENSP00000306320:p.Arg95Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q0D2N1|Q0P6C4|Q3B7W5	Missense_Mutation	SNP	ENST00000306954.4	37	CCDS41981.1	.	.	.	.	.	.	.	.	.	.	C	23.6	4.441495	0.83993	.	.	ENSG00000170270	ENST00000306954;ENST00000556566	.	.	.	5.33	4.44	0.53790	.	.	.	.	.	T	0.24198	0.0586	N	0.24115	0.695	0.26450	N	0.97563	P	0.51057	0.941	B	0.39027	0.288	T	0.06881	-1.0802	8	0.62326	D	0.03	-0.4036	10.2431	0.43324	0.0:0.9089:0.0:0.0911	.	95	Q9BXV9	CN142_HUMAN	Q	95;66	.	ENSP00000306320:R95Q	R	-	2	0	C14orf142	92739805	0.994000	0.37717	0.992000	0.48379	0.989000	0.77384	2.733000	0.47360	1.389000	0.46526	0.655000	0.94253	CGG		0.338	C14orf142-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412691.1	NM_032490		T	93670052	C	T	93670052	3	4	627	1	0	0	0	0	1	0	0	0	1749	652	23	1	22	1	C14orf142	14	93670052	Missense_Mutation	SNP	C	TCGA-KL-8328-01A-11D-2310-10	4777466	93670052	13679488	62	38567										
KIAA0284	283638	mdanderson.org	37	chr14	105349388	105349388	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ccagagcgccccaagggaccAgtgcagcaggacggggagct	16	13	0	1	rs2028414	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr14:105349388A>C	ENST00000414716.3	+	8	822	c.594A>C	c.(592-594)ccA>ccC	p.P198P	CEP170B_ENST00000556508.1_Silent_p.P128P|CEP170B_ENST00000453495.1_Silent_p.P199P|CEP170B_ENST00000418279.1_Silent_p.P128P	NM_001112726.2	NP_001106197.1	Q9Y4F5	C170B_HUMAN	centrosomal protein 170B	198						cytoplasm (GO:0005737)|microtubule (GO:0005874)											CCAAGGGACCAGTGCAGCAGG	0.672													g|||	2589	0.516973	0.5174	0.5865	5008	,	,		12916	0.2302		0.669	False		,,,				2504	0.6063															0									,	2039,1829		591,857,486	5	7	7		594,384	-5.3	0	14	dbSNP_94	7	5324,2774		1859,1606,584	no	coding-synonymous,coding-synonymous	KIAA0284	NM_001112726.2,NM_015005.2	,	2450,2463,1070	CC,CA,AA		34.2554,47.2854,38.4673	,	198/1555,128/1520	105349388	7363,4603	1934	4049	5983	SO:0001819	synonymous_variant	283638			AB006622	CCDS45175.1, CCDS45176.1, CCDS45176.2	14q32.33	2014-02-20	2012-11-30	2012-11-30	ENSG00000099814	ENSG00000099814			20362	protein-coding gene	gene with protein product	"Cep170-related"		"KIAA0284"	KIAA0284		23087211	Standard	NM_015005		Approved	FAM68C, Cep170R	uc010axb.4	Q9Y4F5	OTTHUMG00000170763	ENST00000414716.3:c.594A>C	14.37:g.105349388A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q2KHR7|Q86TI7	Silent	SNP	ENST00000414716.3	37	CCDS45175.1																																																																																				0.672	CEP170B-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000410289.2	NM_001112726		C	105349388	A	C	105349388	2	2	627	1	0	0	0	0	0	0	0	1	8173	175	7	5		5	KIAA0284	14	105349388	Silent	SNP	A	TCGA-KL-8328-01A-11D-2310-10	11679336	105349388	2000152	63	38568										
AHNAK2	113146	mdanderson.org	37	chr14	105418155	105418155	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gcggaagggggctgaatgctGaggtcagtggtcttgaggtc	19	6	2	3	rs141600524		TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr14:105418155G>C	ENST00000333244.5	-	7	3752	c.3633C>G	c.(3631-3633)ctC>ctG	p.L1211L	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1211						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			GCTGAATGCTGAGGTCAGTGG	0.647																																																0								G		80,3750		19,42,1854	104	78	86		3633	-6	0	14	dbSNP_134	86	913,6543		290,333,3105	no	coding-synonymous	AHNAK2	NM_138420.2		309,375,4959	CC,CG,GG		12.2452,2.0888,8.7985		1211/5796	105418155	993,10293	1915	3728	5643	SO:0001819	synonymous_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.3633C>G	14.37:g.105418155G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Silent	SNP	ENST00000333244.5	37	CCDS45177.1																																																																																				0.647	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		C	105418155	G	C	105418155	2	2	627	1	0	0	0	0	0	0	0	1	415	1277	45	4		4	AHNAK2	14	105418155	Silent	SNP	G	TCGA-KL-8328-01A-11D-2310-10	68767	105418155	1931385	64	38569										
MYO1E	4643	mdanderson.org	37	chr15	59466112	59466112	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	cttgttcaataagaggtctgAggctacaattcccaagaggg	11	8	2	3			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr15:59466112A>G	ENST00000288235.4	-	21	2566	c.2167T>C	c.(2167-2169)Tca>Cca	p.S723P	MIR2116_ENST00000517221.1_RNA	NM_004998.3	NP_004989.2	Q12965	MYO1E_HUMAN	myosin IE	723	IQ. {ECO:0000255|PROSITE- ProRule:PRU00116}.|Myosin tail. {ECO:0000255}.				actin filament-based movement (GO:0030048)|ATP catabolic process (GO:0006200)|endocytosis (GO:0006897)|glomerular basement membrane development (GO:0032836)|glomerular filtration (GO:0003094)|glomerular visceral epithelial cell development (GO:0072015)|in utero embryonic development (GO:0001701)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|post-embryonic hemopoiesis (GO:0035166)|vasculogenesis (GO:0001570)	actin cytoskeleton (GO:0015629)|adherens junction (GO:0005912)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|myosin complex (GO:0016459)	actin filament binding (GO:0051015)|ATP binding (GO:0005524)|ATPase activity, coupled (GO:0042623)|calmodulin binding (GO:0005516)|microfilament motor activity (GO:0000146)|motor activity (GO:0003774)|phosphatidylinositol binding (GO:0035091)			breast(1)|central_nervous_system(3)|endometrium(5)|kidney(4)|large_intestine(6)|lung(10)|pancreas(2)|prostate(1)|urinary_tract(1)	33				all cancers(107;0.207)		AAGAGGTCTGAGGCTACAATT	0.403																																																0													135	145	142					15																	59466112		2191	4291	6482	SO:0001583	missense	4643			U14391	CCDS32254.1	15q21-q22	2011-09-27				ENSG00000157483		"Myosins / Myosin superfamily : Class I"	7599	protein-coding gene	gene with protein product	"myosin-IC"	601479				8884266	Standard	NM_004998		Approved	MYO1C, HuncM-IC, MGC104638	uc002aga.4	Q12965		ENST00000288235.4:c.2167T>C	15.37:g.59466112A>G	ENSP00000288235:p.Ser723Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q14778	Missense_Mutation	SNP	ENST00000288235.4	37	CCDS32254.1	.	.	.	.	.	.	.	.	.	.	A	19.19	3.779860	0.70222	.	.	ENSG00000157483	ENST00000288235	T	0.39229	1.09	5.18	5.18	0.71444	Myosin tail 2 (1);	0.000000	0.85682	D	0.000000	T	0.69548	0.3123	M	0.90814	3.15	0.80722	D	1	D	0.61697	0.99	D	0.69142	0.962	T	0.76022	-0.3111	10	0.54805	T	0.06	.	15.1913	0.73047	1.0:0.0:0.0:0.0	.	723	Q12965	MYO1E_HUMAN	P	723	ENSP00000288235:S723P	ENSP00000288235:S723P	S	-	1	0	MYO1E	57253404	1.000000	0.71417	1.000000	0.80357	0.428000	0.31595	9.126000	0.94411	2.165000	0.68154	0.533000	0.62120	TCA		0.403	MYO1E-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416024.1	NM_004998		G	59466112	A	G	59466112	3	3	627	1	0	0	0	0	1	0	0	0	10079	304	11	3	1191	3	MYO1E	15	59466112	Missense_Mutation	SNP	A	TCGA-KL-8328-01A-11D-2310-10		59466112	43065280	65	38570										
USP3	9960	broad.mit.edu;mdanderson.org	37	chr15	63866525	63866525	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ctctctctccttttaagaccTttcattagatattccaagtc	3	12	3	2			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr15:63866525T>C	ENST00000380324.3	+	11	1148	c.1019T>C	c.(1018-1020)cTt>cCt	p.L340P	USP3-AS1_ENST00000559357.1_RNA|USP3-AS1_ENST00000560350.1_RNA|USP3_ENST00000559711.1_Missense_Mutation_p.L251P|USP3_ENST00000540797.1_Missense_Mutation_p.L296P|USP3_ENST00000268049.7_Missense_Mutation_p.L318P|USP3-AS1_ENST00000559861.1_RNA|USP3_ENST00000558285.1_Missense_Mutation_p.L323P|USP3_ENST00000539772.1_Missense_Mutation_p.L91P|USP3_ENST00000536001.1_3'UTR	NM_006537.3	NP_006528.2	Q9Y6I4	UBP3_HUMAN	ubiquitin specific peptidase 3	340	USP.				DNA repair (GO:0006281)|histone deubiquitination (GO:0016578)|mitotic cell cycle (GO:0000278)|regulation of protein stability (GO:0031647)|ubiquitin-dependent protein catabolic process (GO:0006511)	nuclear chromatin (GO:0000790)	histone binding (GO:0042393)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)|zinc ion binding (GO:0008270)			endometrium(3)|large_intestine(7)|lung(4)	14				GBM - Glioblastoma multiforme(80;0.0187)		TTTTAAGACCTTTCATTAGAT	0.338																																																0													109	108	108					15																	63866525		2203	4300	6503	SO:0001583	missense	9960			AF073344	CCDS32265.1, CCDS58370.1	15q22.3	2008-04-11	2005-08-08			ENSG00000140455		"Ubiquitin-specific peptidases"	12626	protein-coding gene	gene with protein product		604728	"ubiquitin specific protease 3"			12838346	Standard	NM_006537		Approved		uc002amf.4	Q9Y6I4		ENST00000380324.3:c.1019T>C	15.37:g.63866525T>C	ENSP00000369681:p.Leu340Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DVU5|F5H1A6|Q8WVD0	Missense_Mutation	SNP	ENST00000380324.3	37	CCDS32265.1	.	.	.	.	.	.	.	.	.	.	T	24.8	4.567491	0.86439	.	.	ENSG00000140455	ENST00000540797;ENST00000380324;ENST00000268049;ENST00000539772;ENST00000536848;ENST00000538686	T;T;T;T	0.05025	3.51;3.51;3.51;3.51	5.84	5.84	0.93424	Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2 (2);	0.000000	0.85682	D	0.000000	T	0.36110	0.0955	M	0.93197	3.39	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.91635	0.998;0.999;0.999;0.999	T	0.49214	-0.8963	10	0.87932	D	0	.	16.2055	0.82126	0.0:0.0:0.0:1.0	.	296;296;318;340	F5H1A6;B4DVU5;Q6JHV3;Q9Y6I4	.;.;.;UBP3_HUMAN	P	296;340;318;91;255;171	ENSP00000445828:L296P;ENSP00000369681:L340P;ENSP00000268049:L318P;ENSP00000445642:L91P	ENSP00000268049:L318P	L	+	2	0	USP3	61653578	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.698000	0.84413	2.226000	0.72624	0.482000	0.46254	CTT		0.338	USP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000417773.1			C	63866525	T	C	63866525	3	2	627	1	0	0	0	0	1	0	0	0	17072	1609	56	3	1061	3	USP3	15	63866525	Missense_Mutation	SNP	T	TCGA-KL-8328-01A-11D-2310-10	4400413	63866525	38664867	66	38571										
ANP32A	8125	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr15	69079816	69079816	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	aatttagatgcgtgaggttcGgacacttttctgccaatact	9	8	1	2			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr15:69079816G>A	ENST00000465139.2	-	3	406	c.263C>T	c.(262-264)cCg>cTg	p.P88L	ANP32A_ENST00000560303.1_Missense_Mutation_p.P88L|ANP32A_ENST00000483551.2_5'UTR	NM_006305.3	NP_006296.1	P39687	AN32A_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32 family, member A	88					gene expression (GO:0010467)|intracellular signal transduction (GO:0035556)|mRNA metabolic process (GO:0016071)|nucleocytoplasmic transport (GO:0006913)|regulation of transcription, DNA-templated (GO:0006355)|RNA metabolic process (GO:0016070)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	poly(A) RNA binding (GO:0044822)			endometrium(1)|large_intestine(1)|lung(2)	4						CGTGAGGTTCGGACACTTTTC	0.453																																																0													107	115	112					15																	69079816		2200	4298	6498	SO:0001583	missense	8125			AF025684	CCDS45292.1	15q23	2008-05-14			ENSG00000140350	ENSG00000140350		"ANP32 acidic nuclear phosphoproteins"	13233	protein-coding gene	gene with protein product		600832		C15orf1		8970164, 9144194	Standard	NM_006305		Approved	LANP, PP32, I1PP2A, PHAPI, MAPM, mapmodulin	uc002arl.3	P39687	OTTHUMG00000154502	ENST00000465139.2:c.263C>T	15.37:g.69079816G>A	ENSP00000417864:p.Pro88Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6T4|Q53FK4|Q5J8L8|Q7M4N6	Missense_Mutation	SNP	ENST00000465139.2	37	CCDS45292.1	.	.	.	.	.	.	.	.	.	.	G	37	6.477195	0.97598	.	.	ENSG00000140350	ENST00000358235;ENST00000465139	T	0.64085	-0.08	5.6	5.6	0.85130	.	0.000000	0.85682	D	0.000000	T	0.80476	0.4630	M	0.92268	3.29	0.80722	D	1	D	0.59767	0.986	P	0.53360	0.724	D	0.85654	0.1284	10	0.87932	D	0	.	18.6073	0.91271	0.0:0.0:1.0:0.0	.	88	P39687	AN32A_HUMAN	L	88	ENSP00000417864:P88L	ENSP00000350970:P88L	P	-	2	0	ANP32A	66866870	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.611000	0.98342	2.640000	0.89533	0.655000	0.94253	CCG		0.453	ANP32A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335525.2			A	69079816	G	A	69079816	3	1	627	1	0	0	0	0	1	0	0	0	705	1116	39	1	506	1	ANP32A	15	69079816	Missense_Mutation	SNP	G	TCGA-KL-8328-01A-11D-2310-10	5213291	69079816	33451576	67	38572										
KIAA1199	57214	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr15	81216982	81216982	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gctggcatgatcatagacaaCggagtcaaaaccaccgaggc	11	11	2	2			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr15:81216982C>T	ENST00000394685.3	+	18	2642	c.2223C>T	c.(2221-2223)aaC>aaT	p.N741N	KIAA1199_ENST00000220244.3_Silent_p.N741N|RP11-351M8.2_ENST00000560873.1_RNA|KIAA1199_ENST00000356249.5_Silent_p.N741N			Q8WUJ3	CEMIP_HUMAN		741					hyaluronan catabolic process (GO:0030214)|positive regulation of cell migration (GO:0030335)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of protein kinase C activity (GO:1900020)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of release of sequestered calcium ion into cytosol (GO:0051281)|sensory perception of sound (GO:0007605)	clathrin-coated vesicle membrane (GO:0030665)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	clathrin heavy chain binding (GO:0032050)|ER retention sequence binding (GO:0046923)|hyaluronic acid binding (GO:0005540)|hyalurononglucosaminidase activity (GO:0004415)			breast(4)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(10)|lung(14)|ovary(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	49						TCATAGACAACGGAGTCAAAA	0.527																																																0													116	96	102					15																	81216982		2203	4300	6503	SO:0001819	synonymous_variant	57214																														ENST00000394685.3:c.2223C>T	15.37:g.81216982C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6L9J5|Q9H1K5|Q9NPN9|Q9ULM1	Silent	SNP	ENST00000394685.3	37	CCDS10315.1																																																																																				0.527	KIAA1199-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000291389.1			T	81216982	C	T	81216982	2	4	627	1	0	0	0	0	0	0	0	1	8220	535	19	1		1	KIAA1199	15	81216982	Silent	SNP	C	TCGA-KL-8328-01A-11D-2310-10	12137166	81216982	21314410	68	38573										
MEF2A	4205	hgsc.bcm.edu	37	chr15	100250958	100250958	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	taggacaagcagccctcagcTctcttgtgtgagtaactaga	10	10	2	2			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr15:100250958T>C	ENST00000557785.1	+	10	1454	c.1105T>C	c.(1105-1107)Tct>Cct	p.S369P	MEF2A_ENST00000354410.5_Missense_Mutation_p.S371P|MEF2A_ENST00000453228.2_Missense_Mutation_p.S369P|MEF2A_ENST00000449277.2_Missense_Mutation_p.S301P|MEF2A_ENST00000557942.1_Missense_Mutation_p.S377P|MEF2A_ENST00000558812.1_Missense_Mutation_p.S309P|MEF2A_ENST00000338042.6_Missense_Mutation_p.S378P	NM_001171894.1	NP_001165365.1	Q02078	MEF2A_HUMAN	myocyte enhancer factor 2A	379					apoptotic process (GO:0006915)|cardiac conduction (GO:0061337)|cellular response to calcium ion (GO:0071277)|dendrite morphogenesis (GO:0048813)|ERK5 cascade (GO:0070375)|heart development (GO:0007507)|innate immune response (GO:0045087)|MAPK cascade (GO:0000165)|mitochondrial genome maintenance (GO:0000002)|mitochondrion distribution (GO:0048311)|muscle cell differentiation (GO:0042692)|muscle organ development (GO:0007517)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transcription from RNA polymerase II promoter (GO:0006366)|transcription, DNA-templated (GO:0006351)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)|ventricular cardiac myofibril assembly (GO:0055005)	cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	activating transcription factor binding (GO:0033613)|chromatin binding (GO:0003682)|histone acetyltransferase binding (GO:0035035)|histone deacetylase binding (GO:0042826)|protein heterodimerization activity (GO:0046982)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription coactivator activity (GO:0001105)|RNA polymerase II transcription factor binding (GO:0001085)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)|SMAD binding (GO:0046332)	p.S379T(1)		endometrium(2)|large_intestine(2)|lung(7)|ovary(1)	12	Lung NSC(78;0.00335)|all_lung(78;0.00659)|Melanoma(26;0.00778)|Medulloblastoma(229;0.163)		OV - Ovarian serous cystadenocarcinoma(32;0.00085)			AGCCCTCAGCTCTCTTGTGTG	0.527																																																1	Substitution - Missense(1)	ovary(1)											45	47	46					15																	100250958		2051	4204	6255	SO:0001583	missense	4205				CCDS45362.1, CCDS45363.1, CCDS53978.1, CCDS58401.1	15q26	2008-02-05	2007-04-24			ENSG00000068305		"Myocyte enhancer factors"	6993	protein-coding gene	gene with protein product		600660				1516833	Standard	NM_005587		Approved	RSRFC4, RSRFC9	uc002bvf.3	Q02078		ENST00000557785.1:c.1105T>C	15.37:g.100250958T>C	ENSP00000453441:p.Ser369Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFQ7|F6XG23|O43814|Q14223|Q14224|Q59GX4|Q7Z6C9|Q96D14	Missense_Mutation	SNP	ENST00000557785.1	37	CCDS53978.1	.	.	.	.	.	.	.	.	.	.	T	25.3	4.619364	0.87460	.	.	ENSG00000068305	ENST00000453228;ENST00000354410;ENST00000338042;ENST00000449277	T;T;T;T	0.10763	2.84;2.84;2.84;3.1	5.65	5.65	0.86999	.	0.000000	0.85682	D	0.000000	T	0.23806	0.0576	L	0.34521	1.04	0.43377	D	0.995477	D;D;D;D;D;D	0.89917	0.998;0.998;0.99;1.0;0.999;0.997	D;D;D;D;D;D	0.87578	0.995;0.981;0.972;0.997;0.998;0.991	T	0.00931	-1.1510	10	0.49607	T	0.09	-20.8248	15.8544	0.78965	0.0:0.0:0.0:1.0	.	379;309;290;369;371;377	Q02078;B4DFQ7;Q7Z6C9;Q02078-6;Q02078-5;Q02078-2	MEF2A_HUMAN;.;.;.;.;.	P	369;371;378;309	ENSP00000404110:S369P;ENSP00000346389:S371P;ENSP00000337202:S378P;ENSP00000399460:S309P	ENSP00000337202:S378P	S	+	1	0	MEF2A	98068481	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.651000	0.83577	2.147000	0.66899	0.460000	0.39030	TCT		0.527	MEF2A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415985.1			C	100250958	T	C	100250958	3	2	627	1	0	0	0	0	1	0	0	0	9462	1551	54	3	1305	3	MEF2A	15	100250958	Missense_Mutation	SNP	T	TCGA-KL-8328-01A-11D-2310-10	19033976	100250958	2280434	69	38574										
LRRK1	79705	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	101606197	101606197	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ctcatccccaccccgccaggCtgccaggtccccctcaagcc	7	23	2	0			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr15:101606197C>T	ENST00000388948.3	+	32	5914	c.5555C>T	c.(5554-5556)gCt>gTt	p.A1852V	RP11-505E24.2_ENST00000559857.1_RNA|LRRK1_ENST00000284395.5_Missense_Mutation_p.A1849V|LRRK1_ENST00000532145.1_3'UTR	NM_024652.3	NP_078928.3			leucine-rich repeat kinase 1											breast(2)|central_nervous_system(6)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(14)|lung(25)|ovary(4)|prostate(1)|skin(1)	72	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)			CCCCGCCAGGCTGCCAGGTCC	0.597																																																0													78	90	86					15																	101606197		2116	4230	6346	SO:0001583	missense	79705			AB058693	CCDS42086.1	15q26.3	2007-01-29			ENSG00000154237	ENSG00000154237			18608	protein-coding gene	gene with protein product		610986				11347906, 14654223	Standard	XM_005254979		Approved	FLJ23119, KIAA1790, Roco1, RIPK6	uc002bwr.3	Q38SD2	OTTHUMG00000165514	ENST00000388948.3:c.5555C>T	15.37:g.101606197C>T	ENSP00000373600:p.Ala1852Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000388948.3	37	CCDS42086.1	.	.	.	.	.	.	.	.	.	.	C	0.125	-1.121064	0.01785	.	.	ENSG00000154237	ENST00000388948;ENST00000284395;ENST00000529762;ENST00000542170	T;T	0.71698	-0.57;-0.59	5.61	-3.26	0.05064	.	1.306490	0.05010	N	0.470847	T	0.38188	0.1031	N	0.01705	-0.755	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.14364	-1.0475	10	0.21540	T	0.41	.	4.1954	0.10441	0.0988:0.4295:0.0936:0.378	.	1852	Q38SD2	LRRK1_HUMAN	V	1852;1849;543;406	ENSP00000373600:A1852V;ENSP00000284395:A1849V	ENSP00000284395:A1849V	A	+	2	0	LRRK1	99423720	0.000000	0.05858	0.000000	0.03702	0.182000	0.23217	0.101000	0.15251	-0.464000	0.06963	-0.136000	0.14681	GCT		0.597	LRRK1-003	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384567.2	NM_024652		T	101606197	C	T	101606197	3	4	627	1	0	0	0	0	1	0	0	0	9039	797	28	2	5677	2	LRRK1	15	101606197	Missense_Mutation	SNP	C	TCGA-KL-8328-01A-11D-2310-10	1355239	101606197	925195	70	38575										
NPRL3	8131	bcgsc.ca	37	chr16	169144	169144	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	cctgccccagagcatgctgtAgcagtgttgggtgcccaaca	12	13	0	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr16:169144A>G	ENST00000399953.3	-	3	701	c.299T>C	c.(298-300)cTa>cCa	p.L100P	NPRL3_ENST00000399951.3_Intron|NPRL3_ENST00000405960.3_5'UTR	NM_001077350.2|NM_001243247.1|NM_001243248.1|NM_001243249.1	NP_001070818.1|NP_001230176.1|NP_001230177.1|NP_001230178.1	Q12980	NPRL3_HUMAN	nitrogen permease regulator-like 3 (S. cerevisiae)	100					aorta morphogenesis (GO:0035909)|cardiac muscle tissue development (GO:0048738)|palate development (GO:0060021)|ventricular septum development (GO:0003281)		GTPase activator activity (GO:0005096)			endometrium(1)|large_intestine(3)|ovary(2)	6						AGCATGCTGTAGCAGTGTTGG	0.532																																																0													78	83	81					16																	169144		2013	4162	6175	SO:0001583	missense	8131				CCDS73794.1, CCDS73795.1	16p13.3	2011-01-06	2010-03-30	2010-03-30	ENSG00000103148	ENSG00000103148			14124	protein-coding gene	gene with protein product	"conserved gene telomeric to alpha globin cluster"	600928	"chromosome 16 open reading frame 35"	C16orf35		8575760	Standard	NM_001243247		Approved	CGTHBA, RMD11, NPR3, MARE, HS-40	uc002cfr.3	Q12980	OTTHUMG00000047792	ENST00000399953.3:c.299T>C	16.37:g.169144A>G	ENSP00000382834:p.Leu100Pro	Somatic		WXS	Illumina HiSeq	Phase_I	D3DU40|Q1W6H0|Q4TT56|Q92469	Missense_Mutation	SNP	ENST00000399953.3	37		.	.	.	.	.	.	.	.	.	.	A	13.35	2.211931	0.39102	.	.	ENSG00000103148	ENST00000399953;ENST00000262313;ENST00000419636	.	.	.	5.18	4.06	0.47325	Galactose-binding domain-like (1);	0.137738	0.50627	D	0.000116	T	0.75968	0.3922	.	.	.	0.80722	D	1	D;D;D;D	0.89917	1.0;0.999;0.997;0.986	D;D;D;P	0.74348	0.972;0.983;0.952;0.9	T	0.75519	-0.3289	8	0.45353	T	0.12	-14.1353	11.5109	0.50492	0.8495:0.1505:0.0:0.0	.	22;100;100;100	B7Z220;Q4TT55;B7Z6Q0;Q12980	.;.;.;NPRL3_HUMAN	P	100;100;113	.	ENSP00000262313:L100P	L	-	2	0	NPRL3	109144	1.000000	0.71417	0.999000	0.59377	0.964000	0.63967	8.948000	0.93006	0.877000	0.35895	0.533000	0.62120	CTA		0.532	NPRL3-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_001039476		G	169144	A	G	169144	3	3	627	1	0	0	0	0	1	0	0	0	10605	420	15	3	1453	3	NPRL3	16	169144	Missense_Mutation	SNP	A	TCGA-KL-8328-01A-11D-2310-10		169144	90185609	71	38576										
CACNA1H	8912	mdanderson.org	37	chr16	1250389	1250389	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ccggccgccgcgagctgcgcAtgccctgcaccctgggctgg	15	18	0	0	rs36117280	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr16:1250389A>G	ENST00000348261.5	+	7	1185	c.937A>G	c.(937-939)Atg>Gtg	p.M313V	CACNA1H_ENST00000358590.4_Missense_Mutation_p.M313V|CACNA1H_ENST00000565831.1_Missense_Mutation_p.M313V	NM_021098.2	NP_066921.2	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type, alpha 1H subunit	313			M -> V (in dbSNP:rs36117280). {ECO:0000269|PubMed:11157797, ECO:0000269|PubMed:12891677, ECO:0000269|PubMed:15616553}.		aldosterone biosynthetic process (GO:0032342)|axon guidance (GO:0007411)|calcium ion import (GO:0070509)|cellular response to hormone stimulus (GO:0032870)|cellular response to potassium ion (GO:0035865)|cortisol biosynthetic process (GO:0034651)|membrane depolarization during action potential (GO:0086010)|muscle contraction (GO:0006936)|muscle organ development (GO:0007517)|myoblast fusion (GO:0007520)|positive regulation of acrosome reaction (GO:2000344)|regulation of heart contraction (GO:0008016)|regulation of membrane potential (GO:0042391)|transport (GO:0006810)	caveola (GO:0005901)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|voltage-gated calcium channel complex (GO:0005891)	low voltage-gated calcium channel activity (GO:0008332)|metal ion binding (GO:0046872)|scaffold protein binding (GO:0097110)			breast(4)|endometrium(5)|kidney(2)|lung(23)	34		Hepatocellular(780;0.00369)			Amiodarone(DB01118)|Bepridil(DB01244)|Cinnarizine(DB00568)|Felodipine(DB01023)|Flunarizine(DB04841)|Isradipine(DB00270)|Nifedipine(DB01115)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Zonisamide(DB00909)	CGAGCTGCGCATGCCCTGCAC	0.672													g|||	514	0.102636	0.0651	0.0965	5008	,	,		17775	0.0625		0.1392	False		,,,				2504	0.1616															0									VAL/MET,VAL/MET	286,3770		8,270,1750	21	23	23		937,937	1.3	0.8	16	dbSNP_126	23	1201,7121		95,1011,3055	yes	missense,missense	CACNA1H	NM_001005407.1,NM_021098.2	21,21	103,1281,4805	GG,GA,AA		14.4316,7.0513,12.0132	benign,benign	313/2348,313/2354	1250389	1487,10891	2028	4161	6189	SO:0001583	missense	8912			AL031703	CCDS45375.1, CCDS45376.1	16p13.3	2012-03-07	2007-02-16					"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1395	protein-coding gene	gene with protein product		607904				9670923, 16382099	Standard	NM_021098		Approved	Cav3.2	uc002cks.3	O95180		ENST00000348261.5:c.937A>G	16.37:g.1250389A>G	ENSP00000334198:p.Met313Val	Somatic		WXS	Illumina HiSeq	Phase_I	B5ME00|F8WFD1|O95802|Q8WWI6|Q96QI6|Q96RZ9|Q9NYY4|Q9NYY5	Missense_Mutation	SNP	ENST00000348261.5	37	CCDS45375.1	212	0.09706959706959707	34	0.06910569105691057	37	0.10220994475138122	29	0.050699300699300696	112	0.14775725593667546	G	0.522	-0.861845	0.02610	0.070513	0.144316	ENSG00000196557	ENST00000348261;ENST00000358590	D;D	0.95821	-3.82;-3.76	4.4	1.31	0.21738	Ion transport (1);	3.577580	0.00786	N	0.001311	T	0.02047	0.0064	N	0.00742	-1.23	0.53688	P	2.6999999999999247E-5	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.65249	-0.6214	9	0.15499	T	0.54	.	5.2097	0.15310	0.2553:0.1716:0.5731:0.0	rs36117280;rs58100776	313;313	O95180-2;O95180	.;CAC1H_HUMAN	V	313	ENSP00000334198:M313V;ENSP00000351401:M313V	ENSP00000334198:M313V	M	+	1	0	CACNA1H	1190390	0.025000	0.19082	0.832000	0.32986	0.360000	0.29518	0.078000	0.14761	-0.083000	0.12618	-0.195000	0.12781	ATG		0.672	CACNA1H-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000421601.1	NM_001005407		G	1250389	A	G	1250389	3	3	627	1	0	0	0	0	1	0	0	0	2547	217	8	3	959	3	CACNA1H	16	1250389	Missense_Mutation	SNP	A	TCGA-KL-8328-01A-11D-2310-10	1081245	1250389	89104364	72	38577										
C16orf3	2622	hgsc.bcm.edu	37	chr16	90095603	90095604	+	Intron	INS	-	-	GGCTGCGGGGCA													0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	acggggcaggctatggggcaINSgcctacggggcaggctacgg							TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr16:90095603_90095604insGGCTGCGGGGCA	ENST00000268699.4	+	2	212				C16orf3_ENST00000408886.2_In_Frame_Ins_p.50_51insPAAC|GAS8_ENST00000540721.1_Intron|GAS8_ENST00000536122.1_Intron	NM_001481.2	NP_001472.1	O95995	GAS8_HUMAN	growth arrest-specific 8						cellular protein localization (GO:0034613)|negative regulation of cell proliferation (GO:0008285)|sperm motility (GO:0030317)	Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|motile cilium (GO:0031514)				endometrium(3)|large_intestine(2)|lung(6)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	14		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)		gctatggggcagcctacggggc	0.658																																																0																																										SO:0001627	intron_variant	750			AF050079	CCDS10992.1, CCDS67101.1, CCDS73932.1	16q24.3	2014-07-18	2003-01-16	2003-01-17	ENSG00000141013	ENSG00000141013			4166	protein-coding gene	gene with protein product		605178	"growth arrest-specific 11"	GAS11		9790751	Standard	NM_001481		Approved		uc002fqi.1	O95995	OTTHUMG00000138988	ENST00000268699.4:c.90+1473->GGCTGCGGGGCA	16.37:g.90095603_90095604insGGCTGCGGGGCA		Somatic		WXS	Illumina HiSeq	Phase_I	B2RCT1|B7Z4U1|G3V1L5|Q2M234	In_Frame_Ins	INS	ENST00000268699.4	37	CCDS10992.1																																																																																				0.658	GAS8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000272877.2			GGCTGCGGGGCA	90095604	-	GGCTGCGGGGCA	90095603	6	5	627	0	1	1	1	0	0	0	0	0	1814	188	7	0		0	C16orf3	16	90095603	Intron	INS	-	TCGA-KL-8328-01A-11D-2310-10	88845214	90095603	259150	73	38578										
OR1A2	26189	bcgsc.ca	37	chr17	3101590	3101590	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	caacgatgggcatgtatttcCgccctctgaccagttacagc	9	13	1	1	rs2469791	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr17:3101590C>T	ENST00000381951.1	+	1	778	c.778C>T	c.(778-780)Cgc>Tgc	p.R260C		NM_012352.1	NP_036484.1	Q9Y585	OR1A2_HUMAN	olfactory receptor, family 1, subfamily A, member 2	260			R -> C (in dbSNP:rs2469791). {ECO:0000269|PubMed:15489334}.		positive regulation of cytokinesis (GO:0032467)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(4)|large_intestine(2)|lung(5)|skin(4)|stomach(2)	18						CATGTATTTCCGCCCTCTGAC	0.438													C|||	740	0.147764	0.2194	0.1571	5008	,	,		18666	0.001		0.2406	False		,,,				2504	0.1002															0								C	CYS/ARG	932,3474	356.4+/-313.5	100,732,1371	115	110	112		778	-0.6	0	17	dbSNP_100	112	2170,6430	370.0+/-335.7	279,1612,2409	yes	missense	OR1A2	NM_012352.1	180	379,2344,3780	TT,TC,CC		25.2326,21.153,23.8505	probably-damaging	260/310	3101590	3102,9904	2203	4300	6503	SO:0001583	missense	26189			AF155225	CCDS11021.1	17p13.3	2012-08-09			ENSG00000172150	ENSG00000172150		"GPCR / Class A : Olfactory receptors"	8180	protein-coding gene	gene with protein product						10673334	Standard	NM_012352		Approved	OR17-6	uc002fvd.1	Q9Y585	OTTHUMG00000090638	ENST00000381951.1:c.778C>T	17.37:g.3101590C>T	ENSP00000371377:p.Arg260Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q3KPH3|Q6IFM0|Q6NTD8|Q96R86	Missense_Mutation	SNP	ENST00000381951.1	37	CCDS11021.1	338	0.15476190476190477	104	0.21138211382113822	61	0.1685082872928177	0	0.0	173	0.22823218997361477	C	1.569	-0.534700	0.04082	0.21153	0.252326	ENSG00000172150	ENST00000381951	T	0.35789	1.29	4.0	-0.599	0.11645	GPCR, rhodopsin-like superfamily (1);	0.135982	0.34268	N	0.004118	T	0.00012	0.0000	L	0.52573	1.65	0.80722	P	0.0	P	0.36535	0.557	B	0.34093	0.175	T	0.28713	-1.0035	9	0.23302	T	0.38	.	4.6096	0.12395	0.157:0.5721:0.0:0.2709	rs2469791;rs52812308;rs56722735;rs2469791	260	Q9Y585	OR1A2_HUMAN	C	260	ENSP00000371377:R260C	ENSP00000371377:R260C	R	+	1	0	OR1A2	3048340	0.000000	0.05858	0.012000	0.15200	0.177000	0.22998	-1.119000	0.03276	-0.147000	0.11254	0.543000	0.68304	CGC		0.438	OR1A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207293.1	NM_012352		T	3101590	C	T	3101590	3	4	627	1	0	0	0	0	1	0	0	0	10957	652	23	1	780	1	OR1A2	17	3101590	Missense_Mutation	SNP	C	TCGA-KL-8328-01A-11D-2310-10		3101590	78093620	74	38579										
SDK2	54549	ucsc.edu	37	chr17	71468293	71468293	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ccgctgcagcagggcccccaTtcggttccgcacgatgcaac	11	17	0	0			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr17:71468293T>C	ENST00000392650.3	-	3	289	c.289A>G	c.(289-291)Atg>Gtg	p.M97V	SDK2_ENST00000388726.3_Missense_Mutation_p.M97V	NM_001144952.1	NP_001138424.1	Q58EX2	SDK2_HUMAN	sidekick cell adhesion molecule 2	97	Ig-like C2-type 1.				cell adhesion (GO:0007155)	integral component of membrane (GO:0016021)				breast(4)|central_nervous_system(2)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(15)|lung(31)|ovary(3)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	86						AGGGCCCCCATTCGGTTCCGC	0.632																																																0													31	33	32					17																	71468293		692	1591	2283	SO:0001583	missense	54549			AB040947	CCDS45769.1	17q21.31	2013-02-11	2011-12-09		ENSG00000069188	ENSG00000069188		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	19308	protein-coding gene	gene with protein product		607217	"sidekick homolog 2 (chicken)"			12230981, 15213259	Standard	NM_001144952		Approved	FLJ10832, KIAA1514	uc010dfm.3	Q58EX2	OTTHUMG00000152726	ENST00000392650.3:c.289A>G	17.37:g.71468293T>C	ENSP00000376421:p.Met97Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMR8|C9JA57|Q86VY3|Q9NTD2|Q9NVB3|Q9P214	Missense_Mutation	SNP	ENST00000392650.3	37	CCDS45769.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	5.042|5.042	0.193439|0.193439	0.09599|0.09599	.|.	.|.	ENSG00000069188|ENSG00000069188	ENST00000392650;ENST00000388726;ENST00000316893|ENST00000416616	T;T|.	0.35973|.	1.28;1.28|.	4.76|4.76	4.76|4.76	0.60689|0.60689	Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);|.	0.084158|.	0.47455|.	U|.	0.000221|.	T|T	0.31888|0.31888	0.0811|0.0811	N|N	0.02802|0.02802	-0.49|-0.49	0.43326|0.43326	D|D	0.995352|0.995352	B|.	0.06786|.	0.001|.	B|.	0.11329|.	0.006|.	T|T	0.24297|0.24297	-1.0164|-1.0164	10|5	0.08599|.	T|.	0.76|.	.|.	14.2239|14.2239	0.65845|0.65845	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	97|.	Q58EX2|.	SDK2_HUMAN|.	V|S	97|1	ENSP00000376421:M97V;ENSP00000373378:M97V|.	ENSP00000324967:M97V|.	M|N	-|-	1|2	0|0	SDK2|SDK2	68979888|68979888	1.000000|1.000000	0.71417|0.71417	0.999000|0.999000	0.59377|0.59377	0.404000|0.404000	0.30871|0.30871	4.217000|4.217000	0.58547|0.58547	1.907000|1.907000	0.55213|0.55213	0.247000|0.247000	0.18012|0.18012	ATG|AAT		0.632	SDK2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327598.2	NM_019064		C	71468293	T	C	71468293	3	2	627	1	0	0	0	0	1	0	0	0	13982	1493	52	3	6401	3	SDK2	17	71468293	Missense_Mutation	SNP	T	TCGA-KL-8328-01A-11D-2310-10	68366703	71468293	9726917	75	38580										
CNDP1	84735	broad.mit.edu;mdanderson.org	37	chr18	72234590	72234590	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ggtgtggactacattgtaatTtcagataacctgtggatcag	11	6	2	1			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr18:72234590T>C	ENST00000358821.3	+	6	906	c.678T>C	c.(676-678)atT>atC	p.I226I	CNDP1_ENST00000582365.1_Silent_p.I183I	NM_032649.5	NP_116038	Q96KN2	CNDP1_HUMAN	carnosine dipeptidase 1 (metallopeptidase M20 family)	226						extracellular region (GO:0005576)	carboxypeptidase activity (GO:0004180)|dipeptidase activity (GO:0016805)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)|tripeptidase activity (GO:0034701)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(4)|lung(12)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	27		Esophageal squamous(42;0.129)|Prostate(75;0.157)|Melanoma(33;0.211)		BRCA - Breast invasive adenocarcinoma(31;0.109)		ACATTGTAATTTCAGATAACC	0.493																																					Melanoma(32;1029 1042 25286 38395 44237)											0													115	120	118					18																	72234590		2203	4300	6503	SO:0001819	synonymous_variant	84735				CCDS12007.1	18q22.3	2014-07-14			ENSG00000150656	ENSG00000150656	3.4.13.20		20675	protein-coding gene	gene with protein product	"carnosinase 1", "glutamate carboxypeptidase-like protein 2"	609064				12473676	Standard	NM_032649		Approved	MGC10825, CN1, CPGL2, HsT2308	uc002llq.3	Q96KN2	OTTHUMG00000132852	ENST00000358821.3:c.678T>C	18.37:g.72234590T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q14D40|Q17S05|Q2TBG0|Q6UWK2|Q9BT98	Silent	SNP	ENST00000358821.3	37	CCDS12007.1																																																																																				0.493	CNDP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256326.1	NM_032649		C	72234590	T	C	72234590	2	2	627	1	0	0	0	0	0	0	0	1	3595	1829	64	3		3	CNDP1	18	72234590	Silent	SNP	T	TCGA-KL-8328-01A-11D-2310-10		72234590	5842658	76	38581										
RFX2	5990	broad.mit.edu;mdanderson.org	37	chr19	6004252	6004252	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gtgggaagtcactcatggcaTttgtcaaccagccttccaag	10	11	3	0			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr19:6004252T>C	ENST00000303657.5	-	13	1609	c.1460A>G	c.(1459-1461)aAt>aGt	p.N487S	RFX2_ENST00000592546.1_Missense_Mutation_p.N462S|RFX2_ENST00000359161.3_Missense_Mutation_p.N487S|CTC-232P5.1_ENST00000587836.1_RNA	NM_000635.3	NP_000626.2	P48378	RFX2_HUMAN	regulatory factor X, 2 (influences HLA class II expression)	487					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(4)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(4)|ovary(1)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	21						ACTCATGGCATTTGTCAACCA	0.577																																					Colon(38;171 817 19800 47433 48051)											0													201	172	182					19																	6004252		2203	4300	6503	SO:0001583	missense	5990				CCDS12157.1, CCDS12158.1	19p13.3	2011-11-23			ENSG00000087903	ENSG00000087903			9983	protein-coding gene	gene with protein product	"trans-acting regulatory factor 2", "DNA binding protein RFX2", "HLA class II regulatory factor RFX2"	142765				1505960	Standard	NM_000635		Approved	FLJ14226	uc002meb.3	P48378		ENST00000303657.5:c.1460A>G	19.37:g.6004252T>C	ENSP00000306335:p.Asn487Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K581|B3KNC4|Q6IQ44|Q8SNA2	Missense_Mutation	SNP	ENST00000303657.5	37	CCDS12157.1	.	.	.	.	.	.	.	.	.	.	T	10.08	1.253017	0.22965	.	.	ENSG00000087903	ENST00000303657;ENST00000359161;ENST00000537791	T	0.06608	3.28	5.14	5.14	0.70334	.	0.098858	0.64402	D	0.000003	T	0.03263	0.0095	N	0.03948	-0.315	0.49687	D	0.999812	B;B	0.12630	0.006;0.004	B;B	0.17979	0.02;0.004	T	0.48927	-0.8991	10	0.11794	T	0.64	-30.9915	14.0709	0.64858	0.0:0.0:0.0:1.0	.	462;487	P48378-2;P48378	.;RFX2_HUMAN	S	487;462;274	ENSP00000306335:N487S	ENSP00000306335:N487S	N	-	2	0	RFX2	5955252	0.972000	0.33761	0.542000	0.28115	0.634000	0.38068	1.682000	0.37628	2.057000	0.61298	0.533000	0.62120	AAT		0.577	RFX2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000452687.1	NM_000635		C	6004252	T	C	6004252	3	2	627	1	0	0	0	0	1	0	0	0	13276	1493	52	3	735	3	RFX2	19	6004252	Missense_Mutation	SNP	T	TCGA-KL-8328-01A-11D-2310-10		6004252	53124731	77	38582										
ZNF763	284390	mdanderson.org	37	chr19	12087921	12087921	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	tgggctttgctggatatttcGcagaggaaactctacaggga	13	7	1	1	rs376310072	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr19:12087921G>C	ENST00000358987.3	+	2	199	c.72G>C	c.(70-72)tcG>tcC	p.S24S	ZNF763_ENST00000545530.1_Intron|ZNF763_ENST00000592625.1_Silent_p.S24S|ZNF763_ENST00000538752.1_Silent_p.S44S|ZNF763_ENST00000591944.1_Silent_p.S93S|ZNF763_ENST00000590798.1_Silent_p.S44S|ZNF763_ENST00000343949.5_Silent_p.S27S			Q0D2J5	ZN763_HUMAN	zinc finger protein 763	24	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(9)	15						TGGATATTTCGCAGAGGAAAC	0.493													N|||	4	0.000798722	0.0023	0.0	5008	,	,		18630	0.0		0.001	False		,,,				2504	0.0															0													150	152	151					19																	12087921		2203	4300	6503	SO:0001819	synonymous_variant	284390			AK092240	CCDS45982.1	19p13.2	2014-02-12	2006-08-14		ENSG00000197054	ENSG00000197054		"Zinc fingers, C2H2-type", "-"	27614	protein-coding gene	gene with protein product							Standard	NM_001012753		Approved	ZNF440L		Q0D2J5	OTTHUMG00000156430	ENST00000358987.3:c.72G>C	19.37:g.12087921G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KRU3|B4DRE7	Silent	SNP	ENST00000358987.3	37																																																																																					0.493	ZNF763-002	KNOWN	basic|appris_candidate|exp_conf	protein_coding	protein_coding	OTTHUMT00000344158.1	NM_001012753		C	12087921	G	C	12087921	2	2	627	1	0	0	0	0	0	0	0	1	18149	1074	38	4		4	ZNF763	19	12087921	Silent	SNP	G	TCGA-KL-8328-01A-11D-2310-10	6083669	12087921	47041062	78	38583										
LSM14A	26065	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	34712450	34712450	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ggctgaagaaagaagattaaAtgctgaaacatttggaatcc	10	5	0	5			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr19:34712450A>G	ENST00000433627.5	+	9	1250	c.1175A>G	c.(1174-1176)aAt>aGt	p.N392S	LSM14A_ENST00000544216.3_Missense_Mutation_p.N392S|LSM14A_ENST00000540746.2_Missense_Mutation_p.N351S	NM_001114093.1	NP_001107565.1	Q8ND56	LS14A_HUMAN	LSM14A, SCD6 homolog A (S. cerevisiae)	392					cytoplasmic mRNA processing body assembly (GO:0033962)|multicellular organismal development (GO:0007275)|positive regulation of type I interferon-mediated signaling pathway (GO:0060340)|regulation of translation (GO:0006417)|RIG-I signaling pathway (GO:0039529)	cytoplasm (GO:0005737)|cytoplasmic mRNA processing body (GO:0000932)|cytoplasmic stress granule (GO:0010494)|intracellular membrane-bounded organelle (GO:0043231)	double-stranded DNA binding (GO:0003690)|double-stranded RNA binding (GO:0003725)|poly(A) RNA binding (GO:0044822)|single-stranded RNA binding (GO:0003727)	p.N392S(1)		breast(1)|endometrium(4)|kidney(1)|large_intestine(8)|lung(7)|skin(1)	22	Esophageal squamous(110;0.162)					AGAAGATTAAATGCTGAAACA	0.463																																																1	Substitution - Missense(1)	lung(1)											82	69	74					19																	34712450		2203	4300	6503	SO:0001583	missense	26065			AL834398	CCDS12435.1, CCDS46040.1	19q13.12	2010-01-27	2006-12-21	2006-01-24		ENSG00000257103			24489	protein-coding gene	gene with protein product		610677	"chromosome 19 open reading frame 13", "family with sequence similarity 61, member A", "LSM14 homolog A (SCD6, S. cerevisiae)"	C19orf13, FAM61A		12477932	Standard	NM_015578		Approved	DKFZP434D1335, RAP55A, RAP55	uc002nva.4	Q8ND56		ENST00000433627.5:c.1175A>G	19.37:g.34712450A>G	ENSP00000413964:p.Asn392Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTG6|Q76LX7|Q96AR3|Q96K73|Q96SN5|Q9UFR3	Missense_Mutation	SNP	ENST00000433627.5	37	CCDS46040.1	.	.	.	.	.	.	.	.	.	.	a	27.6	4.844127	0.91197	.	.	ENSG00000257103	ENST00000544216;ENST00000433627;ENST00000540746	T;T;T	0.58210	0.35;0.36;0.39	5.96	5.96	0.96718	FFD/TFG box motif (1);	0.000000	0.85682	D	0.000000	T	0.78991	0.4371	M	0.91717	3.235	0.80722	D	1	D;D;D	0.89917	1.0;0.997;1.0	D;D;D	0.85130	0.995;0.989;0.997	D	0.83929	0.0305	10	0.87932	D	0	-17.9772	16.4277	0.83824	1.0:0.0:0.0:0.0	.	351;392;392	B4DTG6;Q8ND56;Q8ND56-2	.;LS14A_HUMAN;.	S	392;392;351	ENSP00000446271:N392S;ENSP00000413964:N392S;ENSP00000446451:N351S	ENSP00000314768:N392S	N	+	2	0	LSM14A	39404290	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	8.874000	0.92363	2.279000	0.76181	0.533000	0.62120	AAT		0.463	LSM14A-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000451576.3	NM_015578		G	34712450	A	G	34712450	3	3	627	1	0	0	0	0	1	0	0	0	9061	101	4	3	1209	3	LSM14A	19	34712450	Missense_Mutation	SNP	A	TCGA-KL-8328-01A-11D-2310-10	22624529	34712450	24416533	79	38584										
IRGC	56269	mdanderson.org	37	chr19	44223180	44223180	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ccgcctggccgctgagatccTgtgccagggcaagaagttct	13	13	1	2	rs142490244		TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr19:44223180T>C	ENST00000244314.5	+	2	669	c.470T>C	c.(469-471)cTg>cCg	p.L157P		NM_019612.3	NP_062558.1	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	157	IRG-type G.					membrane (GO:0016020)	GTP binding (GO:0005525)|hydrolase activity, acting on acid anhydrides (GO:0016817)			central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(16)|ovary(1)|prostate(1)|skin(2)	25		Prostate(69;0.0435)				GCTGAGATCCTGTGCCAGGGC	0.652																																					Colon(189;350 2037 11447 13433 38914)											0								T	PRO/LEU	0,4366		0,0,2183	16	16	16		470	-0.9	0.6	19	dbSNP_134	16	6,8528		0,6,4261	yes	missense	IRGC	NM_019612.3	98	0,6,6444	CC,CT,TT		0.0703,0.0,0.0465	probably-damaging	157/464	44223180	6,12894	2183	4267	6450	SO:0001583	missense	56269			BC066939	CCDS12629.1	19q13.32	2008-02-05	2005-10-31	2005-10-31	ENSG00000124449	ENSG00000124449			28835	protein-coding gene	gene with protein product			"immunity-related GTPase family, cinema 1"	IRGC1		12477932	Standard	NM_019612		Approved	Iigp5, CINEMA	uc002oxh.3	Q6NXR0	OTTHUMG00000154587	ENST00000244314.5:c.470T>C	19.37:g.44223180T>C	ENSP00000244314:p.Leu157Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q05BR8	Missense_Mutation	SNP	ENST00000244314.5	37	CCDS12629.1	.	.	.	.	.	.	.	.	.	.	T	12.02	1.813862	0.32053	0.0	7.03E-4	ENSG00000124449	ENST00000244314	T	0.21932	1.98	5.71	-0.933	0.10431	.	0.560197	0.15908	N	0.238733	T	0.14527	0.0351	N	0.19112	0.55	0.33327	D	0.568032	D	0.53312	0.959	P	0.49421	0.61	T	0.34378	-0.9831	10	0.30854	T	0.27	.	6.4041	0.21654	0.4974:0.0:0.1315:0.3711	.	157	Q6NXR0	IIGP5_HUMAN	P	157	ENSP00000244314:L157P	ENSP00000244314:L157P	L	+	2	0	IRGC	48915020	1.000000	0.71417	0.615000	0.29064	0.582000	0.36321	2.781000	0.47750	0.065000	0.16485	0.454000	0.30748	CTG		0.652	IRGC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336191.1	NM_019612		C	44223180	T	C	44223180	3	2	627	1	0	0	0	0	1	0	0	0	7845	1580	55	3	472	3	IRGC	19	44223180	Missense_Mutation	SNP	T	TCGA-KL-8328-01A-11D-2310-10	9510730	44223180	14905803	80	38585										
ZNF235	9310	mdanderson.org	37	chr19	44791618	44791618	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	attctttcccacattcctcaCatttaaatggtttctctcca	2	13	3	0			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr19:44791618C>T	ENST00000291182.4	-	5	2072	c.1970G>A	c.(1969-1971)tGt>tAt	p.C657Y	ZNF235_ENST00000589248.1_Intron|ZNF235_ENST00000589799.1_Intron	NM_004234.4	NP_004225.3	Q14590	ZN235_HUMAN	zinc finger protein 235	657					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(15)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	29		Prostate(69;0.0352)|all_neural(266;0.116)				ACATTCCTCACATTTAAATGG	0.458																																																0													107	100	103					19																	44791618		2203	4300	6503	SO:0001583	missense	9310			X78929	CCDS33048.1	19q13.2	2013-01-08	2002-11-04	2002-11-08	ENSG00000159917	ENSG00000159917		"Zinc fingers, C2H2-type", "-"	12866	protein-coding gene	gene with protein product		604749	"zinc finger protein homologous to Zfp93 in mouse"	ZNF270, ZFP93		7865130, 9570955	Standard	NM_004234		Approved	HZF6, ANF270	uc002oza.4	Q14590		ENST00000291182.4:c.1970G>A	19.37:g.44791618C>T	ENSP00000291182:p.Cys657Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTQ7|O14898|O14899|Q17RR8	Missense_Mutation	SNP	ENST00000291182.4	37	CCDS33048.1	.	.	.	.	.	.	.	.	.	.	C	20.5	3.995989	0.74703	.	.	ENSG00000159917	ENST00000391957;ENST00000291182;ENST00000359844	D	0.85088	-1.94	4.96	4.96	0.65561	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.44688	D	0.000432	D	0.94788	0.8317	H	0.95745	3.715	0.58432	D	0.999994	D;D	0.89917	1.0;1.0	D;D	0.97110	0.999;1.0	D	0.96269	0.9197	10	0.87932	D	0	-20.7433	17.3494	0.87318	0.0:1.0:0.0:0.0	.	653;657	Q14590-2;Q14590	.;ZN235_HUMAN	Y	657;657;549	ENSP00000291182:C657Y	ENSP00000291182:C657Y	C	-	2	0	ZNF235	49483458	1.000000	0.71417	0.974000	0.42286	0.927000	0.56198	7.446000	0.80609	2.469000	0.83416	0.305000	0.20034	TGT		0.458	ZNF235-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460732.1			T	44791618	C	T	44791618	3	4	627	1	0	0	0	0	1	0	0	0	17800	478	17	2	250	2	ZNF235	19	44791618	Missense_Mutation	SNP	C	TCGA-KL-8328-01A-11D-2310-10	568438	44791618	14337365	81	38586										
KLC3	147700	mdanderson.org	37	chr19	45849909	45849909	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	aacgtgtggctgcgggaggaActggaggagacgcagcggcg	20	8	0	1	rs9749618	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr19:45849909A>G	ENST00000391946.2	+	3	468	c.366A>G	c.(364-366)gaA>gaG	p.E122E	KLC3_ENST00000470402.1_Silent_p.E136E|KLC3_ENST00000585434.1_Silent_p.E122E	NM_177417.2	NP_803136.2	Q6P597	KLC3_HUMAN	kinesin light chain 3	122					axon cargo transport (GO:0008088)	ciliary rootlet (GO:0035253)|cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)|motile cilium (GO:0031514)|neuron projection (GO:0043005)	microtubule motor activity (GO:0003777)			breast(1)|central_nervous_system(2)|endometrium(2)|large_intestine(1)|lung(1)|ovary(1)	8		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)		TGCGGGAGGAACTGGAGGAGA	0.701													A|||	983	0.196286	0.0809	0.1873	5008	,	,		11388	0.0873		0.334	False		,,,				2504	0.3292															0								A		444,3498		44,356,1571	5	7	6		366	1.9	1	19	dbSNP_119	6	2326,5724		403,1520,2102	no	coding-synonymous	KLC3	NM_177417.2		447,1876,3673	GG,GA,AA		28.8944,11.2633,23.0987		122/505	45849909	2770,9222	1971	4025	5996	SO:0001819	synonymous_variant	147700			AK092481	CCDS12660.2	19q13	2013-01-10			ENSG00000104892	ENSG00000104892		"Tetratricopeptide (TTC) repeat domain containing"	20717	protein-coding gene	gene with protein product		601334					Standard	XM_005258536		Approved	KLC2L, KNS2B, KLCt	uc002pbf.1	Q6P597	OTTHUMG00000143722	ENST00000391946.2:c.366A>G	19.37:g.45849909A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0AVM3|A2RUT6|Q6GMU2|Q8NAL1|Q8WWJ9	Silent	SNP	ENST00000391946.2	37	CCDS12660.2																																																																																				0.701	KLC3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000289776.1	NM_145275		G	45849909	A	G	45849909	2	3	627	1	0	0	0	0	0	0	0	1	8342	40	2	3		3	KLC3	19	45849909	Silent	SNP	A	TCGA-KL-8328-01A-11D-2310-10	1058291	45849909	13279074	82	38587										
PPP5C	5536	mdanderson.org	37	chr19	46878881	46878881	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gtggtcaaggtgaagccccaTgacaaggatgccaaaatgaa	12	8	1	3	rs576127473	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr19:46878881T>C	ENST00000012443.4	+	3	487	c.384T>C	c.(382-384)caT>caC	p.H128H	PPP5C_ENST00000391919.1_Silent_p.H22H	NM_006247.3	NP_006238.1	P53041	PPP5_HUMAN	protein phosphatase 5, catalytic subunit	128					cell death (GO:0008219)|DNA repair (GO:0006281)|mitotic nuclear division (GO:0007067)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|protein dephosphorylation (GO:0006470)|protein heterooligomerization (GO:0051291)|response to morphine (GO:0043278)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)	identical protein binding (GO:0042802)|lipid binding (GO:0008289)|metal ion binding (GO:0046872)|phosphoprotein phosphatase activity (GO:0004721)|protein serine/threonine phosphatase activity (GO:0004722)|RNA binding (GO:0003723)|signal transducer activity (GO:0004871)			endometrium(4)|kidney(1)|large_intestine(5)|liver(2)|lung(4)|ovary(1)|pancreas(1)	18		Ovarian(192;0.0731)|all_neural(266;0.196)		OV - Ovarian serous cystadenocarcinoma(262;0.000196)|all cancers(93;0.00192)|GBM - Glioblastoma multiforme(486;0.0499)|Epithelial(262;0.0504)		TGAAGCCCCATGACAAGGATG	0.632													C|||	2	0.000399361	0.0008	0.0	5008	,	,		17659	0.0		0.0	False		,,,				2504	0.001															0													74	57	63					19																	46878881		2203	4300	6503	SO:0001819	synonymous_variant	5536				CCDS12684.1	19q13.3	2013-01-10			ENSG00000011485	ENSG00000011485	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatase, catalytic subunits", "Tetratricopeptide (TTC) repeat domain containing"	9322	protein-coding gene	gene with protein product		600658		PPP5		8666404	Standard	NM_006247		Approved	PP5	uc002pem.3	P53041	OTTHUMG00000134287	ENST00000012443.4:c.384T>C	19.37:g.46878881T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q16722|Q53XV2	Silent	SNP	ENST00000012443.4	37	CCDS12684.1																																																																																				0.632	PPP5C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258969.2	NM_006247		C	46878881	T	C	46878881	2	2	627	1	0	0	0	0	0	0	0	1	12416	1461	51	3		3	PPP5C	19	46878881	Silent	SNP	T	TCGA-KL-8328-01A-11D-2310-10	1028972	46878881	12250102	83	38588										
LILRA2	11027	mdanderson.org	37	chr19	55086955	55086955	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	gggggccagtacagatgctaCagtgcacacaacctctcctc	10	14	1	1	rs145792151	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr19:55086955C>T	ENST00000251377.3	+	6	1021	c.888C>T	c.(886-888)taC>taT	p.Y296Y	LILRA2_ENST00000391737.1_Silent_p.Y284Y|LILRB1_ENST00000448689.1_Intron|LILRA2_ENST00000251376.3_Silent_p.Y296Y|LILRB1_ENST00000396321.2_Intron|LILRB1_ENST00000418536.2_Intron|LILRA2_ENST00000391738.3_Silent_p.Y296Y			Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 2	296	Ig-like C2-type 3.				defense response (GO:0006952)|immune system process (GO:0002376)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)	antigen binding (GO:0003823)|receptor activity (GO:0004872)			breast(1)|endometrium(2)|kidney(4)|large_intestine(2)|lung(33)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	50				GBM - Glioblastoma multiforme(193;0.0963)		ACAGATGCTACAGTGCACACA	0.672													c|||	52	0.0103834	0.0363	0.0043	5008	,	,		15740	0.001		0.0	False		,,,				2504	0.0															0													50	53	52					19																	55086955		2203	4299	6502	SO:0001819	synonymous_variant	11027			U82275	CCDS12900.1, CCDS46179.1, CCDS74453.1	19q13.4	2013-01-11			ENSG00000239998	ENSG00000239998		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6603	protein-coding gene	gene with protein product		604812				9079806, 9548455	Standard	XM_005258452		Approved	LIR-7, ILT1, CD85h, LIR7		Q8N149	OTTHUMG00000065703	ENST00000251377.3:c.888C>T	19.37:g.55086955C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O75020	Silent	SNP	ENST00000251377.3	37	CCDS46179.1																																																																																				0.672	LILRA2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000140813.2			T	55086955	C	T	55086955	2	4	627	1	0	0	0	0	0	0	0	1	8792	489	17	2		2	LILRA2	19	55086955	Silent	SNP	C	TCGA-KL-8328-01A-11D-2310-10	8208074	55086955	4042028	84	38589										
RFPL3	10738	mdanderson.org	37	chr22	32756407	32756407	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	ctttacctgtggccgccactActgggaggtggacgtgggaa	15	10	0	0	rs5749408	byFrequency	TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chr22:32756407A>G	ENST00000249007.4	+	2	747	c.542A>G	c.(541-543)tAc>tGc	p.Y181C	RFPL3_ENST00000382088.3_Missense_Mutation_p.Y152C|RFPL3S_ENST00000461833.1_5'Flank|RFPL3S_ENST00000400234.1_3'UTR|RFPL3_ENST00000397468.1_Missense_Mutation_p.Y152C|RFPL3S_ENST00000382084.4_3'UTR	NM_001098535.1	NP_001092005.1	O75679	RFPL3_HUMAN	ret finger protein-like 3	181	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.		Y -> C (in dbSNP:rs5749408).				zinc ion binding (GO:0008270)	p.Y152C(1)|p.Y181C(1)		cervix(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(5)|ovary(1)|skin(2)|stomach(1)	15						GGCCGCCACTACTGGGAGGTG	0.562													a|||	851	0.169928	0.1059	0.1124	5008	,	,		18743	0.4583		0.0467	False		,,,				2504	0.1268															2	Substitution - Missense(2)	stomach(2)						A	CYS/TYR,CYS/TYR	499,3907	228.1+/-243.1	40,419,1744	85	86	85		542,455	0.7	0.2	22	dbSNP_114	85	479,8117	140.3+/-196.8	11,457,3830	no	missense,missense	RFPL3	NM_001098535.1,NM_006604.2	194,194	51,876,5574	GG,GA,AA		5.5724,11.3255,7.5219	benign,benign	181/318,152/289	32756407	978,12024	2203	4298	6501	SO:0001583	missense	10738			AJ010232	CCDS13904.1, CCDS43011.1	22q12	2006-04-25			ENSG00000128276	ENSG00000128276			9980	protein-coding gene	gene with protein product		605970				10508838	Standard	NM_006604		Approved		uc010gwn.3	O75679	OTTHUMG00000030290	ENST00000249007.4:c.542A>G	22.37:g.32756407A>G	ENSP00000249007:p.Tyr181Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A2A279|Q6IC03|Q6IC04|Q6NSX3|Q8N5R4	Missense_Mutation	SNP	ENST00000249007.4	37	CCDS43011.1	386	0.17673992673992675	52	0.10569105691056911	46	0.1270718232044199	254	0.44405594405594406	34	0.044854881266490766	A	8.527	0.870091	0.17322	0.113255	0.055724	ENSG00000128276	ENST00000397468;ENST00000249007;ENST00000382088	T;T;T	0.74947	-0.89;-0.89;-0.89	0.704	0.704	0.18121	Concanavalin A-like lectin/glucanase (1);SPla/RYanodine receptor subgroup (1);Butyrophylin-like (1);B30.2/SPRY domain (1);SPla/RYanodine receptor SPRY (1);	.	.	.	.	T	0.00012	0.0000	M	0.81497	2.545	0.09310	P	0.999999999404185	B	0.33413	0.411	B	0.28709	0.093	T	0.22556	-1.0213	8	0.54805	T	0.06	.	5.601	0.17353	0.9999:0.0:1.0E-4:0.0	rs5749408	181	O75679	RFPL3_HUMAN	C	152;181;152	ENSP00000380609:Y152C;ENSP00000249007:Y181C;ENSP00000371520:Y152C	ENSP00000249007:Y181C	Y	+	2	0	RFPL3	31086407	0.989000	0.36119	0.246000	0.24233	0.050000	0.14768	1.786000	0.38694	0.528000	0.28580	0.172000	0.16884	TAC		0.562	RFPL3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000075172.3	NM_006604		G	32756407	A	G	32756407	3	3	627	1	0	0	0	0	1	0	0	0	13268	391	14	3	548	3	RFPL3	22	32756407	Missense_Mutation	SNP	A	TCGA-KL-8328-01A-11D-2310-10		32756407	18548159	85	38590										
TMEM27	57393	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chrX	15657840	15657840	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.036144578313253	3	1	0.579251740823793	3.57205240174673	0.216488024348286	1	1	0	aaaaattccagagtttggtcAtttagaaagaaggcattgtt	9	4	1	3			TCGA-KL-8328-01A-11D-2310-10	TCGA-KL-8328-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ccd028d-e7e0-4f77-a512-f658a31819a4	f468e484-9121-46a5-90cf-abe4cf4e7335	g.chrX:15657840A>G	ENST00000380342.3	-	5	612	c.357T>C	c.(355-357)aaT>aaC	p.N119N		NM_020665.4	NP_065716.1	Q9HBJ8	TMM27_HUMAN	transmembrane protein 27	119					positive regulation of amino acid transport (GO:0051957)|positive regulation of calcium ion-dependent exocytosis (GO:0045956)|positive regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0035774)|positive regulation of SNARE complex assembly (GO:0035543)	brush border membrane (GO:0031526)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	metallopeptidase activity (GO:0008237)|peptidyl-dipeptidase activity (GO:0008241)			endometrium(3)|lung(4)|ovary(1)	8	Hepatocellular(33;0.183)					GAGTTTGGTCATTTAGAAAGA	0.328																																																0													136	140	139					X																	15657840		2203	4300	6503	SO:0001819	synonymous_variant	57393			AF229179	CCDS14170.1	Xp22	2012-04-13			ENSG00000147003	ENSG00000147003			29437	protein-coding gene	gene with protein product	"collectrin"	300631				11278314	Standard	NM_020665		Approved	NX17	uc004cxc.2	Q9HBJ8	OTTHUMG00000021181	ENST00000380342.3:c.357T>C	X.37:g.15657840A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9M1|Q6UW07	Silent	SNP	ENST00000380342.3	37	CCDS14170.1																																																																																				0.328	TMEM27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055879.1	NM_020665		G	15657840	A	G	15657840	2	3	627	1	0	0	0	0	0	0	0	1	16164	214	8	3		3	TMEM27	23	15657840	Silent	SNP	A	TCGA-KL-8328-01A-11D-2310-10		15657840	139612720	86	38591										
KIF1B	23095	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	10364647	10364647	+	Intron	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ccagtttgtgacacctccgcGgatgaggagacagttctcag	12	11	1	3			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr1:10364647G>T	ENST00000377086.1	+	22	2317				RN7SL731P_ENST00000584329.1_RNA|KIF1B_ENST00000263934.6_Intron|KIF1B_ENST00000377083.1_Missense_Mutation_p.R1135L|KIF1B_ENST00000377093.4_Missense_Mutation_p.R1135L|KIF1B_ENST00000377081.1_Intron			O60333	KIF1B_HUMAN	kinesin family member 1B						anterograde axon cargo transport (GO:0008089)|apoptotic process (GO:0006915)|cytoskeleton-dependent intracellular transport (GO:0030705)|microtubule-based movement (GO:0007018)|mitochondrion transport along microtubule (GO:0047497)|neuromuscular synaptic transmission (GO:0007274)|neuron-neuron synaptic transmission (GO:0007270)|vesicle-mediated transport (GO:0016192)	cytoplasmic vesicle (GO:0031410)|cytoplasmic vesicle membrane (GO:0030659)|kinesin complex (GO:0005871)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|kinesin binding (GO:0019894)|microtubule motor activity (GO:0003777)|plus-end-directed microtubule motor activity (GO:0008574)			breast(2)|endometrium(7)|kidney(8)|large_intestine(9)|lung(29)|ovary(3)|prostate(3)|skin(5)|stomach(3)|upper_aerodigestive_tract(2)	71	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)		ACACCTCCGCGGATGAGGAGA	0.468																																																0													45	43	44					1																	10364647		2203	4300	6503	SO:0001627	intron_variant	23095			AF257176	CCDS111.1, CCDS112.1	1p36.22	2014-09-17			ENSG00000054523	ENSG00000054523		"Kinesins", "Pleckstrin homology (PH) domain containing"	16636	protein-coding gene	gene with protein product		605995		CMT2A, CMT2		11389829, 10762626	Standard	NM_015074		Approved	KIAA0591, KLP, HMSNII	uc001aqw.4	O60333	OTTHUMG00000001817	ENST00000377086.1:c.2115+7343G>T	1.37:g.10364647G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NFS8|A6NKQ4|Q4VXC3|Q4VXC4|Q4VXC5|Q4VXC6|Q96Q94|Q9BV80|Q9P280	Missense_Mutation	SNP	ENST00000377086.1	37		.	.	.	.	.	.	.	.	.	.	G	25.9	4.680881	0.88542	.	.	ENSG00000054523	ENST00000377093;ENST00000377083	T;T	0.77750	-1.12;-1.12	5.99	5.99	0.97316	.	.	.	.	.	D	0.89389	0.6701	.	.	.	0.80722	D	1	D	0.71674	0.998	D	0.80764	0.994	D	0.89498	0.3762	8	0.87932	D	0	.	20.4777	0.99188	0.0:0.0:1.0:0.0	.	1135	O60333-3	.	L	1135	ENSP00000366297:R1135L;ENSP00000366287:R1135L	ENSP00000366287:R1135L	R	+	2	0	KIF1B	10287234	1.000000	0.71417	0.964000	0.40570	0.989000	0.77384	9.131000	0.94446	2.840000	0.97914	0.655000	0.94253	CGG		0.468	KIF1B-001	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000005102.1			T	10364647	G	T	10364647	1	4	628	0	1	0	0	0	0	0	0	0	8291	1116	39	4		4	KIF1B	1	10364647	Intron	SNP	G	TCGA-KL-8329-01A-11D-2310-10		10364647	238885974	1	38592										
NBPF3	84224	mdanderson.org	37	chr1	21806667	21806667	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tgccagccctacagaagtgaCttttactcattgcaggaaca	8	11	1	2	rs12043777	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr1:21806667C>G	ENST00000318249.5	+	11	1682	c.1332C>G	c.(1330-1332)gaC>gaG	p.D444E	NBPF3_ENST00000342104.5_Missense_Mutation_p.D432E|NBPF3_ENST00000454000.2_Missense_Mutation_p.D374E|NBPF3_ENST00000318220.6_Missense_Mutation_p.D388E	NM_032264.3	NP_115640.1	Q9H094	NBPF3_HUMAN	neuroblastoma breakpoint family, member 3	444	NBPF 3. {ECO:0000255|PROSITE- ProRule:PRU00647}.		D -> E (in dbSNP:rs12043777). {ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:15489334}.			cytoplasm (GO:0005737)		p.D444E(1)		breast(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(4)|ovary(2)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)	20		all_lung(284;2.16e-05)|Lung NSC(340;2.19e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00432)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|OV - Ovarian serous cystadenocarcinoma(117;7.53e-27)|COAD - Colon adenocarcinoma(152;1.18e-05)|GBM - Glioblastoma multiforme(114;3.47e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000143)|STAD - Stomach adenocarcinoma(196;0.00306)|KIRC - Kidney renal clear cell carcinoma(1967;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		ACAGAAGTGACTTTTACTCAT	0.453																																																1	Substitution - Missense(1)	prostate(1)						C	GLU/ASP	128,4248		35,58,2095	87	47	61		1332	-1.3	0	1	dbSNP_120	61	1540,6608		435,670,2969	no	missense	NBPF3	NM_032264.2	45	470,728,5064	GG,GC,CC		18.9003,2.925,13.3184	benign	444/634	21806667	1668,10856	2188	4074	6262	SO:0001583	missense	84224			BC024011	CCDS216.1, CCDS57976.1, CCDS57977.1	1p36.12	2013-01-17			ENSG00000142794	ENSG00000142794		"neuroblastoma breakpoint family"	25076	protein-coding gene	gene with protein product		612992				11230166, 16079250	Standard	NM_032264		Approved	AE2	uc001ber.4	Q9H094	OTTHUMG00000002944	ENST00000318249.5:c.1332C>G	1.37:g.21806667C>G	ENSP00000316782:p.Asp444Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K965|B4DSP2|I3L0I8|Q3BBW1|Q5VTG2|Q5VTG3|Q5VTG4|Q8IX78|Q8ND86|Q8TC96	Silent	SNP	ENST00000318249.5	37	CCDS216.1	705	0.3228021978021978	55	0.11178861788617886	140	0.3867403314917127	235	0.41083916083916083	275	0.3627968337730871	.	1.891	-0.455414	0.04540	0.02925	0.189003	ENSG00000142794	ENST00000454000;ENST00000318220;ENST00000318249;ENST00000342104;ENST00000434838	T;T;T;T;T	0.06294	3.32;3.32;3.32;3.32;3.32	0.658	-1.32	0.09201	DUF1220 (2);	.	.	.	.	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	B;B	0.24823	0.0;0.112	B;B	0.25140	0.001;0.058	T	0.45279	-0.9272	7	0.52906	T	0.07	.	.	.	.	rs56119644	432;444	Q9H094-3;Q9H094	.;NBPF3_HUMAN	E	374;388;444;432;388	ENSP00000415711:D374E;ENSP00000316739:D388E;ENSP00000316782:D444E;ENSP00000340336:D432E;ENSP00000391865:D388E	ENSP00000316739:D388E	D	+	3	2	NBPF3	21679254	0.000000	0.05858	0.000000	0.03702	0.020000	0.10135	0.088000	0.14979	-0.800000	0.04433	0.121000	0.15741	GAC		0.453	NBPF3-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_032264		G	21806667	C	G	21806667	3	3	628	1	0	0	0	0	1	0	0	0	10204	564	20	4	1370	4	NBPF3	1	21806667	Missense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10	11442020	21806667	227443954	2	38593										
BAT2L2	23215	broad.mit.edu	37	chr1	171484936	171484936	+	Frame_Shift_Del	DEL	A	A	-													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gcaggcagctggggatcaggAaaaaaaagaaaaggaaacaa							TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr1:171484936delA	ENST00000338920.4	+	5	695	c.458delA	c.(457-459)gaafs	p.E153fs	PRRC2C_ENST00000426496.2_Frame_Shift_Del_p.E153fs|PRRC2C_ENST00000392078.3_Frame_Shift_Del_p.E155fs|PRRC2C_ENST00000367742.3_Frame_Shift_Del_p.E155fs|PRRC2C_ENST00000476522.1_3'UTR	NM_015172.3	NP_055987.2	Q9Y520	PRC2C_HUMAN	proline-rich coiled-coil 2C	153					hematopoietic progenitor cell differentiation (GO:0002244)	membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)										GGGGATCAGGAAAAAAAAGAA	0.358																																																0													66	67	66					1																	171484936		2203	4300	6503	SO:0001589	frameshift_variant	23215			AL096857	CCDS1296.2	1q24.3	2012-07-18	2010-12-09	2010-12-09	ENSG00000117523	ENSG00000117523			24903	protein-coding gene	gene with protein product			"BAT2 domain containing 1", "HLA-B associated transcript 2-like 2"	BAT2D1, BAT2L2		10470851, 12443540	Standard	NM_015172		Approved	KIAA1096, XTP2	uc010pmg.2	Q9Y520	OTTHUMG00000034665	ENST00000338920.4:c.458delA	1.37:g.171484936delA	ENSP00000343629:p.Glu153fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q05DM8|Q49A39|Q6PD54|Q9H2N2|Q9HA05|Q9NSM8|Q9NXL3|Q9UF29|Q9UPQ6	Frame_Shift_Del	DEL	ENST00000338920.4	37	CCDS1296.2																																																																																				0.358	PRRC2C-010	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000314826.4	NM_015172		-	171484936	A	-	171484936	7	5	628	1	0	1	0	1	0	0	0	0	1321	246	9	0	472	0	BAT2L2	1	171484936	Frame_Shift_Del	DEL	A	TCGA-KL-8329-01A-11D-2310-10	149678269	171484936	77765685	3	38594										
KIAA1614	57710	ucsc.edu	37	chr1	180905800	180905800	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	agccgcccctggagaacagcAgagatggtaaggggctgccg	16	11	0	2			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr1:180905800A>G	ENST00000367588.4	+	5	2810	c.2755A>G	c.(2755-2757)Aga>Gga	p.R919G	KIAA1614_ENST00000367587.1_Missense_Mutation_p.R540G	NM_020950.1	NP_066001.1	Q5VZ46	K1614_HUMAN	KIAA1614	919										NS(1)|endometrium(5)|kidney(2)|large_intestine(2)|lung(12)|ovary(5)|pancreas(1)|prostate(1)|skin(3)|urinary_tract(1)	33						GGAGAACAGCAGAGATGGTAA	0.677																																																0													3	4	4					1																	180905800		1708	3808	5516	SO:0001583	missense	57710			AB046834	CCDS41442.1	1q25.3	2008-02-05			ENSG00000135835	ENSG00000135835			29327	protein-coding gene	gene with protein product							Standard	NM_020950		Approved		uc001gok.2	Q5VZ46	OTTHUMG00000035183	ENST00000367588.4:c.2755A>G	1.37:g.180905800A>G	ENSP00000356560:p.Arg919Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VZ45|Q9HCF8	Missense_Mutation	SNP	ENST00000367588.4	37	CCDS41442.1	.	.	.	.	.	.	.	.	.	.	A	10.96	1.499426	0.26861	.	.	ENSG00000135835	ENST00000367588;ENST00000367587	T;T	0.27256	2.26;1.68	4.19	-0.27	0.12926	.	0.983219	0.08287	N	0.969066	T	0.12178	0.0296	N	0.19112	0.55	0.27723	N	0.945076	B	0.02656	0.0	B	0.04013	0.001	T	0.34551	-0.9824	9	0.21540	T	0.41	0.2422	0.4181	0.00452	0.3213:0.1535:0.2979:0.2274	.	919	Q5VZ46	K1614_HUMAN	G	919;540	ENSP00000356560:R919G;ENSP00000356559:R540G	ENSP00000356559:R540G	R	+	1	2	KIAA1614	179172423	0.000000	0.05858	0.000000	0.03702	0.708000	0.40852	-1.619000	0.02048	-0.279000	0.09167	0.459000	0.35465	AGA		0.677	KIAA1614-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000085151.1	XM_046531		G	180905800	A	G	180905800	3	3	628	1	0	0	0	0	1	0	0	0	8255	180	7	3	2773	3	KIAA1614	1	180905800	Missense_Mutation	SNP	A	TCGA-KL-8329-01A-11D-2310-10	9420864	180905800	68344821	4	38595										
LPIN1	23175	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	11955246	11955246	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	atttctctactgttctgcccGtgccatcgggatggcggaca	11	12	2	0	rs398124543		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr2:11955246G>A	ENST00000256720.2	+	17	2267	c.2174G>A	c.(2173-2175)cGt>cAt	p.R725H	LPIN1_ENST00000396097.1_Missense_Mutation_p.R455H|LPIN1_ENST00000404113.2_Missense_Mutation_p.R226H|LPIN1_ENST00000425416.2_Missense_Mutation_p.R731H|LPIN1_ENST00000449576.2_Missense_Mutation_p.R810H|LPIN1_ENST00000396099.1_Missense_Mutation_p.R767H	NM_145693.2	NP_663731.1	Q14693	LPIN1_HUMAN	lipin 1	725	C-LIP.				cellular lipid metabolic process (GO:0044255)|fatty acid catabolic process (GO:0009062)|glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylcholine biosynthetic process (GO:0006656)|phosphatidylethanolamine biosynthetic process (GO:0006646)|phospholipid metabolic process (GO:0006644)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)|triglyceride biosynthetic process (GO:0019432)|triglyceride mobilization (GO:0006642)	cytoplasm (GO:0005737)|endoplasmic reticulum membrane (GO:0005789)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)	phosphatidate phosphatase activity (GO:0008195)			autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(2)|kidney(5)|large_intestine(15)|liver(1)|lung(10)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	45	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		TGTTCTGCCCGTGCCATCGGG	0.527																																																0													56	55	55					2																	11955246		2203	4300	6503	SO:0001583	missense	23175			D80010	CCDS1682.1, CCDS58699.1, CCDS58700.1, CCDS58701.1	2p25.1	2008-05-23			ENSG00000134324	ENSG00000134324			13345	protein-coding gene	gene with protein product		605518				11138012, 8724849, 16950137	Standard	NM_145693		Approved	KIAA0188	uc010yjm.3	Q14693	OTTHUMG00000119082	ENST00000256720.2:c.2174G>A	2.37:g.11955246G>A	ENSP00000256720:p.Arg725His	Somatic		WXS	Illumina HiSeq	Phase_I	A8MU38|B4DET9|B4DGS4|B4DGZ6|B5MC18|B7Z858|D6W506|E7ESE7|F5GY24|Q53T25	Missense_Mutation	SNP	ENST00000256720.2	37	CCDS1682.1	.	.	.	.	.	.	.	.	.	.	G	32	5.149073	0.94645	.	.	ENSG00000134324	ENST00000449576;ENST00000396099;ENST00000425416;ENST00000256720;ENST00000396097;ENST00000404113	D;D;D;D;D;D	0.85955	-2.05;-2.05;-2.05;-2.05;-2.05;-2.05	4.69	4.69	0.59074	HAD-like domain (2);LNS2, Lipin/Ned1/Smp2 (2);	0.000000	0.85682	D	0.000000	D	0.94611	0.8263	H	0.94847	3.59	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	0.999;1.0;0.999	D	0.96308	0.9226	10	0.87932	D	0	-14.9771	17.6508	0.88163	0.0:0.0:1.0:0.0	.	226;810;725	B4DET9;F5GY24;Q14693	.;.;LPIN1_HUMAN	H	810;767;731;725;455;226	ENSP00000397908:R810H;ENSP00000379406:R767H;ENSP00000401522:R731H;ENSP00000256720:R725H;ENSP00000379404:R455H;ENSP00000386120:R226H	ENSP00000256720:R725H	R	+	2	0	LPIN1	11872697	1.000000	0.71417	0.494000	0.27515	0.982000	0.71751	9.282000	0.95840	2.156000	0.67533	0.655000	0.94253	CGT		0.527	LPIN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239296.3	NM_145693		A	11955246	G	A	11955246	3	1	628	1	0	0	0	0	1	0	0	0	8925	1145	40	1	2236	1	LPIN1	2	11955246	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10		11955246	231244127	5	38596										
C2orf55	343990	broad.mit.edu	37	chr2	99449445	99449445	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gaaagggcccggctgcccagCgtgcccctcgactccctagg	13	17	0	0	rs373720213		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr2:99449445C>T	ENST00000397899.2	-	4	586	c.255G>A	c.(253-255)acG>acA	p.T85T	KIAA1211L_ENST00000462314.1_Intron	NM_207362.2	NP_997245.2	Q6NV74	K121L_HUMAN	KIAA1211-like	85																	GGCTGCCCAGCGTGCCCCTCG	0.562													C|||	1	0.000199681	0.0008	0.0	5008	,	,		15890	0.0		0.0	False		,,,				2504	0.0															0								C		4,3854		0,4,1925	77	86	83		255	-9.9	0	2		83	0,8258		0,0,4129	no	coding-synonymous	C2orf55	NM_207362.2		0,4,6054	TT,TC,CC		0.0,0.1037,0.033		85/963	99449445	4,12112	1929	4129	6058	SO:0001819	synonymous_variant	343990			BC068277	CCDS42720.1	2q11.2	2012-08-03	2012-08-03	2012-08-03	ENSG00000196872	ENSG00000196872			33454	protein-coding gene	gene with protein product			"chromosome 2 open reading frame 55"	C2orf55			Standard	NM_207362		Approved	MGC42367	uc002szf.1	Q6NV74	OTTHUMG00000153171	ENST00000397899.2:c.255G>A	2.37:g.99449445C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000397899.2	37	CCDS42720.1																																																																																				0.562	KIAA1211L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329933.1	NM_207362		T	99449445	C	T	99449445	2	4	628	1	0	0	0	0	0	0	0	1	2178	755	27	1		1	C2orf55	2	99449445	Silent	SNP	C	TCGA-KL-8329-01A-11D-2310-10	87494199	99449445	143749928	6	38597										
RBMS3	27303	broad.mit.edu	37	chr3	29925685	29925685	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ttgacctatgaccccacagcTgccatacagaatgggtaagt	9	11	0	3			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr3:29925685T>G	ENST00000383767.2	+	8	1113	c.777T>G	c.(775-777)gcT>gcG	p.A259A	RBMS3_ENST00000445033.1_Silent_p.A259A|RBMS3_ENST00000434693.2_Silent_p.A258A|RBMS3_ENST00000456853.1_Silent_p.A272A|RBMS3_ENST00000383766.2_Silent_p.A258A|RBMS3_ENST00000396583.3_Silent_p.A272A|RBMS3_ENST00000273139.9_Silent_p.A259A|RBMS3_ENST00000452462.1_Silent_p.A259A			Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting protein 3	259					positive regulation of translation (GO:0045727)	cytoplasm (GO:0005737)	mRNA 3'-UTR binding (GO:0003730)|nucleotide binding (GO:0000166)			breast(1)|central_nervous_system(1)|large_intestine(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)	11		Ovarian(412;0.0956)				ACCCCACAGCTGCCATACAGA	0.353																																																0													109	102	105					3																	29925685		2203	4300	6503	SO:0001819	synonymous_variant	27303			AF023259	CCDS33724.1, CCDS33725.1, CCDS33726.1, CCDS54557.1, CCDS54558.1	3p24-p23	2013-02-12	2010-04-20		ENSG00000144642	ENSG00000144642		"RNA binding motif (RRM) containing"	13427	protein-coding gene	gene with protein product	"RNA-binding protein"	605786	"RNA binding motif, single stranded interacting protein"			10675610	Standard	NM_001003793		Approved		uc003cel.3	Q6XE24	OTTHUMG00000155699	ENST00000383767.2:c.777T>G	3.37:g.29925685T>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K9S4|B7ZL17|G5E9J9|O75876|Q17RI0|Q6XE23	Silent	SNP	ENST00000383767.2	37	CCDS33724.1																																																																																				0.353	RBMS3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000341306.1	NM_001003792		G	29925685	T	G	29925685	2	3	628	1	0	0	0	0	0	0	0	1	13163	1567	55	5		5	RBMS3	3	29925685	Silent	SNP	T	TCGA-KL-8329-01A-11D-2310-10		29925685	168096745	7	38598										
OR5H15	403274	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	97888186	97888186	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tattcagcattgtgactattCttatatcttacacatttgtt	4	7	3	1			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr3:97888186C>G	ENST00000356526.2	+	1	643	c.643C>G	c.(643-645)Ctt>Gtt	p.L215V		NM_001005515.1	NP_001005515.1	A6NDH6	O5H15_HUMAN	olfactory receptor, family 5, subfamily H, member 15	215						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|endometrium(5)|kidney(2)|large_intestine(2)|lung(20)|ovary(1)|prostate(1)|skin(2)|stomach(1)	35						TGTGACTATTCTTATATCTTA	0.343																																																0													58	65	62					3																	97888186		2203	4300	6503	SO:0001583	missense	403274				CCDS33799.1	3q11.2	2013-09-23			ENSG00000233412	ENSG00000233412		"GPCR / Class A : Olfactory receptors"	31287	protein-coding gene	gene with protein product							Standard	NM_001005515		Approved		uc011bgu.2	A6NDH6	OTTHUMG00000160076	ENST00000356526.2:c.643C>G	3.37:g.97888186C>G	ENSP00000373195:p.Leu215Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000356526.2	37	CCDS33799.1	.	.	.	.	.	.	.	.	.	.	-	4.264	0.048137	0.08243	.	.	ENSG00000233412	ENST00000356526;ENST00000454529	T	0.00051	8.81	2.48	0.494	0.16884	GPCR, rhodopsin-like superfamily (1);	0.171635	0.28026	N	0.016891	T	0.00144	0.0004	L	0.52759	1.655	0.09310	N	1	B	0.29671	0.254	B	0.37387	0.248	T	0.26360	-1.0105	10	0.59425	D	0.04	.	5.0095	0.14304	0.0:0.631:0.2238:0.1452	.	215	A6NDH6	O5H15_HUMAN	V	215	ENSP00000373195:L215V	ENSP00000373195:L215V	L	+	1	0	OR5H15	99370876	0.000000	0.05858	0.004000	0.12327	0.012000	0.07955	-1.111000	0.03303	0.344000	0.23847	0.184000	0.17185	CTT		0.343	OR5H15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359109.1			G	97888186	C	G	97888186	3	3	628	1	0	0	0	0	1	0	0	0	11168	913	32	4	645	4	OR5H15	3	97888186	Missense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10	67962501	97888186	100134244	8	38599										
A4GNT	51146	mdanderson.org	37	chr3	137850003	137850003	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tgggacttgaaagaaggcaaAcagaagaggcagctggactt	14	6	0	4	rs2724691	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr3:137850003A>G	ENST00000236709.3	-	2	297	c.96T>C	c.(94-96)tgT>tgC	p.C32C		NM_016161.2	NP_057245.1	Q9UNA3	A4GCT_HUMAN	alpha-1,4-N-acetylglucosaminyltransferase	32					carbohydrate metabolic process (GO:0005975)|glycoprotein biosynthetic process (GO:0009101)|negative regulation of epithelial cell proliferation (GO:0050680)|protein O-linked glycosylation (GO:0006493)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	acetylglucosaminyltransferase activity (GO:0008375)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(3)|lung(7)	16						AAGAAGGCAAACAGAAGAGGC	0.557													G|||	3075	0.614018	0.5946	0.719	5008	,	,		16574	0.5476		0.662	False		,,,				2504	0.5849															0								G		2648,1758	521.2+/-370.5	794,1060,349	85	84	84		96	3.6	0	3	dbSNP_100	84	5754,2846	447.4+/-361.5	1918,1918,464	no	coding-synonymous	A4GNT	NM_016161.2		2712,2978,813	GG,GA,AA		33.093,39.9001,35.399		32/341	137850003	8402,4604	2203	4300	6503	SO:0001819	synonymous_variant	51146			AF141315	CCDS3097.1	3p14.3	2010-12-14			ENSG00000118017	ENSG00000118017			17968	protein-coding gene	gene with protein product						10430883	Standard	NM_016161		Approved	alpha4GnT	uc003ers.2	Q9UNA3	OTTHUMG00000159820	ENST00000236709.3:c.96T>C	3.37:g.137850003A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q0VDK1|Q0VDK2	Silent	SNP	ENST00000236709.3	37	CCDS3097.1																																																																																				0.557	A4GNT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357557.1	NM_016161		G	137850003	A	G	137850003	2	3	628	1	0	0	0	0	0	0	0	1	7	41	2	3		3	A4GNT	3	137850003	Silent	SNP	A	TCGA-KL-8329-01A-11D-2310-10	39961817	137850003	60172427	9	38600										
PRR23A	729627	hgsc.bcm.edu;mdanderson.org	37	chr3	138724463	138724463	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	agaaggcggaattccgggtcGaagaaggggcctggagagtg	19	6	0	3			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr3:138724463G>A	ENST00000383163.2	-	1	647	c.648C>T	c.(646-648)ttC>ttT	p.F216F	MRPS22_ENST00000495075.1_5'Flank	NM_001134659.1	NP_001128131.1	A6NEV1	PR23A_HUMAN	proline rich 23A	216	Pro-rich.									endometrium(3)|kidney(1)|lung(7)	11						ATTCCGGGTCGAAGAAGGGGC	0.662																																																0													32	39	37					3																	138724463		692	1591	2283	SO:0001819	synonymous_variant	729627				CCDS46923.1	3q22.3	2014-06-03				ENSG00000206260			37172	protein-coding gene	gene with protein product							Standard	NM_001134659		Approved		uc011bms.2	A6NEV1		ENST00000383163.2:c.648C>T	3.37:g.138724463G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000383163.2	37	CCDS46923.1																																																																																				0.662	PRR23A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361503.1	NM_001134659		A	138724463	G	A	138724463	2	1	628	1	0	0	0	0	0	0	0	1	12604	1049	37	1		1	PRR23A	3	138724463	Silent	SNP	G	TCGA-KL-8329-01A-11D-2310-10	874460	138724463	59297967	10	38601										
PAK2	5062	mdanderson.org	37	chr3	196529978	196529978	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ctcaggctgtgctggatgtcCtaaagttctacgactccaac	9	12	2	0	rs79726945		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr3:196529978C>T	ENST00000327134.3	+	4	701	c.379C>T	c.(379-381)Cta>Tta	p.L127L		NM_002577.4	NP_002568.2	Q13177	PAK2_HUMAN	p21 protein (Cdc42/Rac)-activated kinase 2	127	Autoregulatory region. {ECO:0000250}.				apoptotic process (GO:0006915)|axon guidance (GO:0007411)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in execution phase of apoptosis (GO:2001271)|negative regulation of protein kinase activity (GO:0006469)|peptidyl-serine phosphorylation (GO:0018105)|phosphorylation (GO:0016310)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein tyrosine kinase activity (GO:0061098)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of apoptotic process (GO:0042981)|regulation of defense response to virus by virus (GO:0050690)|regulation of growth (GO:0040008)|signal transduction (GO:0007165)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)|protein tyrosine kinase activator activity (GO:0030296)			breast(1)|cervix(1)|kidney(2)|large_intestine(1)|lung(4)|ovary(1)|prostate(2)	12	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;6.38e-22)|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;0.00405)		GCTGGATGTCCTAAAGTTCTA	0.453																																																0													106	93	98					3																	196529978		2203	4300	6503	SO:0001819	synonymous_variant	5062			U24153	CCDS3321.1	3q29	2008-06-17	2008-06-17			ENSG00000180370	2.7.11.1		8591	protein-coding gene	gene with protein product	"S6/H4 kinase"	605022	"p21 (CDKN1A)-activated kinase 2"			7744004, 7618083	Standard	NM_002577		Approved	PAK65, PAKgamma	uc003fwy.4	Q13177		ENST00000327134.3:c.379C>T	3.37:g.196529978C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q13154|Q6ISC3	Silent	SNP	ENST00000327134.3	37	CCDS3321.1																																																																																				0.453	PAK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340548.1	NM_002577		T	196529978	C	T	196529978	2	4	628	1	0	0	0	0	0	0	0	1	11408	680	24	2		2	PAK2	3	196529978	Silent	SNP	C	TCGA-KL-8329-01A-11D-2310-10	57805515	196529978	1492452	11	38602										
NOP14	8602	broad.mit.edu	37	chr4	2952919	2952919	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tctgctgacatatgttttggTttcttaacattttcatcctc	5	9	3	1			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr4:2952919T>C	ENST00000314262.6	-	7	972	c.924A>G	c.(922-924)aaA>aaG	p.K308K	NOP14-AS1_ENST00000503709.1_RNA|NOP14_ENST00000416614.2_Silent_p.K308K|NOP14-AS1_ENST00000515194.1_RNA|NOP14_ENST00000502735.1_Silent_p.K308K|NOP14_ENST00000398071.4_Silent_p.K308K	NM_003703.1	NP_003694.1	P78316	NOP14_HUMAN	NOP14 nucleolar protein	308					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000480)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000447)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000472)|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000462)|ribosomal small subunit biogenesis (GO:0042274)|rRNA processing (GO:0006364)	90S preribosome (GO:0030686)|membrane (GO:0016020)|mitochondrion (GO:0005739)|Noc4p-Nop14p complex (GO:0030692)|nucleolus (GO:0005730)|nucleus (GO:0005634)|small-subunit processome (GO:0032040)	enzyme binding (GO:0019899)|poly(A) RNA binding (GO:0044822)|snoRNA binding (GO:0030515)			NS(1)|endometrium(2)|kidney(3)|large_intestine(9)|lung(12)|pancreas(1)|skin(1)|urinary_tract(1)	30						TATGTTTTGGTTTCTTAACAT	0.403																																																0													251	241	244					4																	2952919		2203	4300	6503	SO:0001819	synonymous_variant	8602			AB000467	CCDS33945.1	4p16.3	2012-12-10	2012-12-10	2008-10-13	ENSG00000087269	ENSG00000087269			16821	protein-coding gene	gene with protein product	"NOP14 homolog (S. cerevisiae)"	611526	"chromosome 4 open reading frame 9", "nucleolar protein 14", "nucleolar protein 14 homolog (yeast)", "NOP14 nucleolar protein homolog (yeast)"	C4orf9, NOL14		9734812, 11694595	Standard	XR_241655		Approved	RES4-25, UTP2	uc003ggj.1	P78316	OTTHUMG00000159911	ENST00000314262.6:c.924A>G	4.37:g.2952919T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DVR6|Q7LGI5|Q7Z6K0|Q8TBR6	Silent	SNP	ENST00000314262.6	37	CCDS33945.1																																																																																				0.403	NOP14-002	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000358135.2	NM_003703		C	2952919	T	C	2952919	2	2	628	1	0	0	0	0	0	0	0	1	10543	1722	60	3		3	NOP14	4	2952919	Silent	SNP	T	TCGA-KL-8329-01A-11D-2310-10		2952919	188201357	12	38603										
UGT2B28	54490	broad.mit.edu	37	chr4	70146674	70146674	+	Frame_Shift_Del	DEL	T	T	-													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gacatcatttttgcagatgcTttttttccttgtggtgagct							TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr4:70146674delT	ENST00000335568.5	+	1	458	c.456delT	c.(454-456)gctfs	p.A152fs	UGT2B28_ENST00000511240.1_Frame_Shift_Del_p.A152fs	NM_053039.1	NP_444267.1	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family, polypeptide B28	152					metabolic process (GO:0008152)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	glucuronosyltransferase activity (GO:0015020)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(16)|pancreas(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	31						TTGCAGATGCTTTTTTTCCTT	0.378																																																0													101	112	108					4																	70146674		2037	4235	6272	SO:0001589	frameshift_variant	54490			AF177272	CCDS3528.1, CCDS56330.1	4q13.3	2011-02-09	2005-07-20		ENSG00000135226	ENSG00000135226		"UDP glucuronosyltransferases"	13479	protein-coding gene	gene with protein product		606497	"UDP glycosyltransferase 2 family, polypeptide B28"			11300766	Standard	NM_053039		Approved		uc003hej.3	Q9BY64	OTTHUMG00000129401	ENST00000335568.5:c.456delT	4.37:g.70146674delT	ENSP00000334276:p.Ala152fs	Somatic		WXS	Illumina HiSeq	Phase_I	B5BUM0|Q9BY62|Q9BY63	Frame_Shift_Del	DEL	ENST00000335568.5	37	CCDS3528.1																																																																																				0.378	UGT2B28-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251557.2	NM_053039		-	70146674	T	-	70146674	7	5	628	1	0	1	0	1	0	0	0	0	16972	1596	56	0	458	0	UGT2B28	4	70146674	Frame_Shift_Del	DEL	T	TCGA-KL-8329-01A-11D-2310-10	67193755	70146674	121007602	13	38604										
CNOT6L	246175	mdanderson.org	37	chr4	78650048	78650048	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	agatctgcacatagcaccagCgggatggaattaggatctgc	12	9	2	1	rs199946358	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr4:78650048C>T	ENST00000504123.1	-	10	1342	c.1212G>A	c.(1210-1212)ccG>ccA	p.P404P	CNOT6L_ENST00000264903.4_Silent_p.P404P			Q96LI5	CNO6L_HUMAN	CCR4-NOT transcription complex, subunit 6-like	404	Nuclease domain.				gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA destabilization (GO:0061157)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cytoplasmic mRNA processing body assembly (GO:0010606)|regulation of transcription, DNA-templated (GO:0006355)|regulation of translation (GO:0006417)|RNA metabolic process (GO:0016070)|transcription, DNA-templated (GO:0006351)	CCR4-NOT complex (GO:0030014)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|poly(A)-specific ribonuclease activity (GO:0004535)			kidney(1)|large_intestine(1)|lung(6)|urinary_tract(1)	9						ATAGCACCAGCGGGATGGAAT	0.423													C|||	3	0.000599042	0.0023	0.0	5008	,	,		19748	0.0		0.0	False		,,,				2504	0.0															0								C		8,3758		0,8,1875	122	120	121		1212	4.7	1	4		121	0,8220		0,0,4110	no	coding-synonymous	CNOT6L	NM_144571.2		0,8,5985	TT,TC,CC		0.0,0.2124,0.0667		404/556	78650048	8,11978	1883	4110	5993	SO:0001819	synonymous_variant	246175			AL133112	CCDS68731.1	4q13.3	2014-06-17				ENSG00000138767			18042	protein-coding gene	gene with protein product							Standard	NM_144571		Approved	DKFZp434K098, Ccr4b	uc003hks.3	Q96LI5		ENST00000504123.1:c.1212G>A	4.37:g.78650048C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UF92	Silent	SNP	ENST00000504123.1	37		3	0.0013736263736263737	3	0.006097560975609756	0	0.0	0	0.0	0	0.0	C	8.699	0.909296	0.17833	0.002124	0.0	ENSG00000138767	ENST00000515506	.	.	.	5.56	4.71	0.59529	.	.	.	.	.	T	0.41073	0.1143	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.43278	-0.9401	4	.	.	.	-2.3006	4.5793	0.12252	0.192:0.5099:0.2233:0.0748	.	.	.	.	T	433	.	.	A	-	1	0	CNOT6L	78869072	0.930000	0.31532	1.000000	0.80357	0.998000	0.95712	0.063000	0.14410	2.627000	0.88993	0.563000	0.77884	GCT		0.423	CNOT6L-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000362515.1			T	78650048	C	T	78650048	2	4	628	1	0	0	0	0	0	0	0	1	3625	755	27	1		1	CNOT6L	4	78650048	Silent	SNP	C	TCGA-KL-8329-01A-11D-2310-10	8503374	78650048	112504228	14	38605										
HERC5	51191	mdanderson.org	37	chr4	89380519	89380519	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	atgcattaaattaggaaaaaAcatgaagatacattccgtgg	8	5	0	2			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr4:89380519A>G	ENST00000264350.3	+	2	440	c.287A>G	c.(286-288)aAc>aGc	p.N96S	HERC5_ENST00000508695.1_3'UTR	NM_016323.3	NP_057407.2	Q9UII4	HERC5_HUMAN	HECT and RLD domain containing E3 ubiquitin protein ligase 5	96					cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|innate immune response (GO:0045087)|ISG15-protein conjugation (GO:0032020)|negative regulation of type I interferon production (GO:0032480)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of defense response to virus (GO:0050688)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	ISG15 ligase activity (GO:0042296)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)			NS(2)|breast(3)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(11)|liver(2)|lung(17)|ovary(4)|prostate(1)|skin(4)	53		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		TTAGGAAAAAACATGAAGATA	0.353																																					Esophageal Squamous(39;887 1012 34045 50514)											0													122	120	121					4																	89380519		2203	4300	6503	SO:0001583	missense	51191			AB027289	CCDS3630.1	4q22.1-q23	2012-02-23	2012-02-23		ENSG00000138646	ENSG00000138646			24368	protein-coding gene	gene with protein product		608242	"hect domain and RLD 5"			10581175	Standard	NM_016323		Approved	CEB1	uc003hrt.4	Q9UII4	OTTHUMG00000130953	ENST00000264350.3:c.287A>G	4.37:g.89380519A>G	ENSP00000264350:p.Asn96Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTQ1|Q69G20	Missense_Mutation	SNP	ENST00000264350.3	37	CCDS3630.1	.	.	.	.	.	.	.	.	.	.	a	9.031	0.987277	0.18889	.	.	ENSG00000138646	ENST00000264350	T	0.80824	-1.42	3.62	3.62	0.41486	Regulator of chromosome condensation/beta-lactamase-inhibitor protein II (2);	0.233755	0.27595	N	0.018671	T	0.67268	0.2875	L	0.31371	0.925	0.80722	D	1	B	0.10296	0.003	B	0.04013	0.001	T	0.60835	-0.7184	10	0.19147	T	0.46	.	10.6203	0.45476	1.0:0.0:0.0:0.0	.	96	Q9UII4	HERC5_HUMAN	S	96	ENSP00000264350:N96S	ENSP00000264350:N96S	N	+	2	0	HERC5	89599542	0.786000	0.28738	0.999000	0.59377	0.700000	0.40528	2.129000	0.42055	1.894000	0.54839	0.529000	0.55759	AAC		0.353	HERC5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253554.2	NM_016323		G	89380519	A	G	89380519	3	3	628	1	0	0	0	0	1	0	0	0	7068	43	2	3	293	3	HERC5	4	89380519	Missense_Mutation	SNP	A	TCGA-KL-8329-01A-11D-2310-10	10730471	89380519	101773757	15	38606										
DCHS2	54798	broad.mit.edu;ucsc.edu	37	chr4	155219313	155219313	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	acagttgtctggtttgtaggCgactcgggggaaagaaacac	14	7	1	1	rs142512414		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr4:155219313C>T	ENST00000357232.4	-	18	4787	c.4788G>A	c.(4786-4788)tcG>tcA	p.S1596S		NM_017639.3	NP_060109.2	Q6V1P9	PCD23_HUMAN	dachsous cadherin-related 2	1596	Cadherin 14. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|central_nervous_system(1)|cervix(3)|endometrium(8)|kidney(5)|large_intestine(54)|lung(63)|ovary(4)|pancreas(1)|prostate(14)|skin(12)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	176	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GGTTTGTAGGCGACTCGGGGG	0.423																																																0								C		1,4405	2.1+/-5.4	0,1,2202	87	89	88		4788	-8.5	0	4	dbSNP_134	88	0,8600		0,0,4300	no	coding-synonymous	DCHS2	NM_017639.3		0,1,6502	TT,TC,CC		0.0,0.0227,0.0077		1596/2917	155219313	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	54798			BC140919	CCDS3785.1, CCDS47150.1	4q32.1	2014-06-04	2013-10-04	2004-09-03		ENSG00000197410		"Cadherins / Cadherin-related"	23111	protein-coding gene	gene with protein product	"cadherin-related family member 7"	612486	"cadherin-like 27", "dachsous 2 (Drosophila)"	CDH27, PCDH23		15003449	Standard	NM_017639		Approved	CDHJ, FLJ20047, PCDHJ, CDHR7	uc003inw.2	Q6V1P9		ENST00000357232.4:c.4788G>A	4.37:g.155219313C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RU14|E9PC11|Q4W5P9|Q6ZS61|Q9NXU8	Silent	SNP	ENST00000357232.4	37	CCDS3785.1																																																																																				0.423	DCHS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365281.2	NM_001142552		T	155219313	C	T	155219313	2	4	628	1	0	0	0	0	0	0	0	1	4290	755	27	1		1	DCHS2	4	155219313	Silent	SNP	C	TCGA-KL-8329-01A-11D-2310-10	65838794	155219313	35934963	16	38607										
SDHA	6389	mdanderson.org	37	chr5	236628	236628	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ctgtgcctcggtacatggtgCcaaccgcctcggggcaaact	12	14	0	0	rs201139275	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr5:236628C>T	ENST00000264932.6	+	10	1461	c.1346C>T	c.(1345-1347)gCc>gTc	p.A449V	SDHA_ENST00000510361.1_Missense_Mutation_p.A401V|SDHA_ENST00000504309.1_Missense_Mutation_p.A449V	NM_004168.2	NP_004159.2	P31040	SDHA_HUMAN	succinate dehydrogenase complex, subunit A, flavoprotein (Fp)	449					cellular metabolic process (GO:0044237)|nervous system development (GO:0007399)|oxidation-reduction process (GO:0055114)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)|succinate metabolic process (GO:0006105)|tricarboxylic acid cycle (GO:0006099)	mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain complex II (GO:0005749)|mitochondrion (GO:0005739)	flavin adenine dinucleotide binding (GO:0050660)|succinate dehydrogenase (ubiquinone) activity (GO:0008177)			NS(1)|breast(1)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(6)|liver(2)|lung(16)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	40			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	GTACATGGTGCCAACCGCCTC	0.592									Familial Paragangliomas				C|||	9	0.00179712	0.003	0.0014	5008	,	,		17830	0.002		0.001	False		,,,				2504	0.001															0													81	74	77					5																	236628		2203	4300	6503	SO:0001583	missense	6389	Familial Cancer Database	Hereditary Glomus Tumors, Familial Paragangliomas, Hereditary Paragangliomas, type 1-3: PGL1, PGL2, PGL3, incl. Familial Carotid Body Paraganglioma and Sensorineural Hearing Loss	BC001380	CCDS3853.1	5p15	2014-09-17			ENSG00000073578	ENSG00000073578		"Mitochondrial respiratory chain complex / Complex II"	10680	protein-coding gene	gene with protein product		600857		SDH2		7798181	Standard	XM_005248329		Approved	FP, SDHF	uc003jao.4	P31040	OTTHUMG00000090275	ENST00000264932.6:c.1346C>T	5.37:g.236628C>T	ENSP00000264932:p.Ala449Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5J6|B4DJ60|E9PBJ5|Q16395|Q59GW8|Q8IW48|Q9UMY5	Missense_Mutation	SNP	ENST00000264932.6	37	CCDS3853.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	t|t	21.6|21.6	4.176378|4.176378	0.78564|0.78564	.|.	.|.	ENSG00000073578|ENSG00000073578	ENST00000264932;ENST00000327872;ENST00000504309;ENST00000510361|ENST00000515815	T;T;T|.	0.70986|.	-0.53;-0.53;-0.53|.	4.9|4.9	4.9|4.9	0.64082|0.64082	Fumarate reductase/succinate dehydrogenase flavoprotein, N-terminal (1);|.	0.142014|.	0.46758|.	U|.	0.000265|.	D|D	0.92519|0.92519	0.7624|0.7624	H|H	0.99971|0.99971	5.125|5.125	0.80722|0.80722	D|D	1|1	D;D;P;P;D|.	0.63046|.	0.96;0.992;0.881;0.955;0.99|.	P;P;P;P;P|.	0.54924|.	0.764;0.675;0.448;0.548;0.585|.	D|D	0.96100|0.96100	0.9068|0.9068	10|5	0.87932|.	D|.	0|.	.|.	15.9089|15.9089	0.79456|0.79456	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	401;449;43;449;449|.	E9PBJ5;B4DYN5;B3KYA5;D6RFM5;P31040|.	.;.;.;.;DHSA_HUMAN|.	V|S	449;304;449;401|1	ENSP00000264932:A449V;ENSP00000426514:A449V;ENSP00000427703:A401V|.	ENSP00000264932:A449V|.	A|P	+|+	2|1	0|0	SDHA|SDHA	289628|289628	1.000000|1.000000	0.71417|0.71417	0.997000|0.997000	0.53966|0.53966	0.230000|0.230000	0.25150|0.25150	5.793000|5.793000	0.69060|0.69060	2.411000|2.411000	0.81874|0.81874	0.650000|0.650000	0.86243|0.86243	GCC|CCA		0.592	SDHA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206599.1	NM_004168		T	236628	C	T	236628	3	4	628	1	0	0	0	0	1	0	0	0	13976	739	26	2	1384	2	SDHA	5	236628	Missense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10		236628	180678632	17	38608										
SCAMP1	9522	broad.mit.edu;mdanderson.org	37	chr5	77745782	77745782	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	acagttcatttagattctttGtattcttcttcgtctatatt	4	7	5	1			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr5:77745782G>T	ENST00000538629.1	+	7	815	c.658G>T	c.(658-660)Gta>Tta	p.V220L	SCAMP1_ENST00000339292.4_3'UTR	NM_004866.4	NP_004857.4	O15126	SCAM1_HUMAN	secretory carrier membrane protein 1	220					endocytosis (GO:0006897)|exocytosis (GO:0006887)|post-Golgi vesicle-mediated transport (GO:0006892)|protein transport (GO:0015031)	clathrin-coated vesicle (GO:0030136)|integral component of membrane (GO:0016021)|recycling endosome membrane (GO:0055038)|synaptic vesicle membrane (GO:0030672)|trans-Golgi network (GO:0005802)|zymogen granule membrane (GO:0042589)							all_lung(232;0.000397)|Lung NSC(167;0.00105)|Ovarian(174;0.0105)|Prostate(461;0.214)		OV - Ovarian serous cystadenocarcinoma(54;1.9e-46)|Epithelial(54;9.4e-43)|all cancers(79;1.12e-37)		TAGATTCTTTGTATTCTTCTT	0.343																																																0													154	146	149					5																	77745782		1817	4070	5887	SO:0001583	missense	9522			AF038966	CCDS75264.1	5q14.1	2013-02-21			ENSG00000085365	ENSG00000085365		"Secretory carrier membrane proteins"	10563	protein-coding gene	gene with protein product		606911				9378760	Standard	NM_004866		Approved	SCAMP37	uc003kfl.3	O15126	OTTHUMG00000162479	ENST00000538629.1:c.658G>T	5.37:g.77745782G>T	ENSP00000475496:p.Val220Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O43587|Q6FG23|Q96BX1|Q96QK5	Missense_Mutation	SNP	ENST00000538629.1	37																																																																																					0.343	SCAMP1-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_004866		T	77745782	G	T	77745782	3	4	628	1	0	0	0	0	1	0	0	0	13883	1377	48	4	684	4	SCAMP1	5	77745782	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10	77509154	77745782	103169478	18	38609										
TTC37	9652	broad.mit.edu	37	chr5	94830430	94830430	+	Frame_Shift_Del	DEL	T	T	-													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gaatggtctttagtgcagtaTttttttcatcttctgctgaa							TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr5:94830430delT	ENST00000358746.2	-	36	4056	c.3758delA	c.(3757-3759)aatfs	p.N1253fs		NM_014639.3	NP_055454.1	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	1253						cytoplasm (GO:0005737)|nucleus (GO:0005634)|Ski complex (GO:0055087)|transcriptionally active chromatin (GO:0035327)				breast(2)|endometrium(6)|kidney(3)|large_intestine(13)|liver(1)|lung(15)|ovary(4)|pancreas(1)|prostate(1)|skin(1)	47						TAGTGCAGTATTTTTTTCATC	0.343																																																0													191	191	191					5																	94830430		2203	4300	6503	SO:0001589	frameshift_variant	9652			AB002370	CCDS4072.1	5q15	2014-09-17	2008-06-11	2008-06-11	ENSG00000198677	ENSG00000198677		"Tetratricopeptide (TTC) repeat domain containing"	23639	protein-coding gene	gene with protein product		614589	"KIAA0372"	KIAA0372		9205841	Standard	NM_014639		Approved		uc003klb.3	Q6PGP7	OTTHUMG00000121165	ENST00000358746.2:c.3758delA	5.37:g.94830430delT	ENSP00000351596:p.Asn1253fs	Somatic		WXS	Illumina HiSeq	Phase_I	O15077|Q6PJI3	Frame_Shift_Del	DEL	ENST00000358746.2	37	CCDS4072.1																																																																																				0.343	TTC37-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241651.1	NM_014639		-	94830430	T	-	94830430	7	5	628	1	0	1	0	1	0	0	0	0	16717	1493	52	0	968	0	TTC37	5	94830430	Frame_Shift_Del	DEL	T	TCGA-KL-8329-01A-11D-2310-10	17084648	94830430	86084830	19	38610										
FAM13B	51306	broad.mit.edu	37	chr5	137278834	137278834	+	Frame_Shift_Del	DEL	A	A	-													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	aggattaccttgatttcttcAaaaaaatgtgcagtttctcc							TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr5:137278834delA	ENST00000033079.3	-	20	2797	c.2346delT	c.(2344-2346)tttfs	p.F782fs	FAM13B_ENST00000425075.2_Frame_Shift_Del_p.F658fs|FAM13B_ENST00000420893.2_Frame_Shift_Del_p.F754fs	NM_016603.2	NP_057687.2	Q9NYF5	FA13B_HUMAN	family with sequence similarity 13, member B	782					regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	GTPase activator activity (GO:0005096)			endometrium(4)|kidney(2)|lung(5)	11						TGATTTCTTCAAAAAAATGTG	0.353																																																0													100	102	101					5																	137278834		2203	4300	6503	SO:0001589	frameshift_variant	51306			AF251038	CCDS4195.1, CCDS47269.1, CCDS47270.1	5q31	2011-09-07	2009-01-20	2009-01-20	ENSG00000031003	ENSG00000031003		"Rho GTPase activating proteins"	1335	protein-coding gene	gene with protein product		609371	"chromosome 5 open reading frame 5", "family with sequence similarity 13, member B1"	C5orf5, FAM13B1		11087669, 11161817	Standard	NM_016603		Approved	N61, KHCHP, ARHGAP49	uc003lbz.2	Q9NYF5	OTTHUMG00000129202	ENST00000033079.3:c.2346delT	5.37:g.137278834delA	ENSP00000033079:p.Phe782fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQB5|G3V0H9|Q3ZCR0|Q6PGQ2|Q9P0I7	Frame_Shift_Del	DEL	ENST00000033079.3	37	CCDS4195.1																																																																																				0.353	FAM13B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251279.1			-	137278834	A	-	137278834	7	5	628	1	0	1	0	1	0	0	0	0	5457	127	5	0	417	0	FAM13B	5	137278834	Frame_Shift_Del	DEL	A	TCGA-KL-8329-01A-11D-2310-10	42448404	137278834	43636426	20	38611										
PCDHA8	56140	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr5	140221090	140221090	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	agctggcggagctggtgccgCgcctgttccgggtggcgtcc	18	13	0	0			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr5:140221090C>T	ENST00000531613.1	+	1	184	c.184C>T	c.(184-186)Cgc>Tgc	p.R62C	PCDHA1_ENST00000504120.2_Intron|PCDHA6_ENST00000529310.1_Intron|PCDHA4_ENST00000512229.2_Intron|PCDHA2_ENST00000526136.1_Intron|PCDHA1_ENST00000394633.3_Intron|PCDHA5_ENST00000529619.1_Intron|PCDHA4_ENST00000530339.1_Intron|PCDHA6_ENST00000527624.1_Intron|PCDHA3_ENST00000522353.2_Intron|PCDHA5_ENST00000529859.1_Intron|PCDHA8_ENST00000378123.3_Missense_Mutation_p.R62C|PCDHA7_ENST00000525929.1_Intron	NM_018911.2	NP_061734.1	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8	62	Cadherin 1. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			NS(2)|breast(3)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(10)|lung(31)|ovary(2)|prostate(2)|skin(4)|stomach(2)|upper_aerodigestive_tract(6)	78			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTGGTGCCGCGCCTGTTCCG	0.637																																																0													38	52	47					5																	140221090		2203	4296	6499	SO:0001583	missense	56140			AF152486	CCDS54919.1	5q31	2010-11-26				ENSG00000204962		"Cadherins / Protocadherins : Clustered"	8674	other	complex locus constituent	"KIAA0345-like 6"	606314				10380929	Standard	NM_018911		Approved			Q9Y5H6		ENST00000531613.1:c.184C>T	5.37:g.140221090C>T	ENSP00000434655:p.Arg62Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGT7|O75281	Missense_Mutation	SNP	ENST00000531613.1	37	CCDS54919.1	.	.	.	.	.	.	.	.	.	.	C	16.68	3.191550	0.58017	.	.	ENSG00000204962	ENST00000531613;ENST00000378123	T;T	0.42131	0.98;0.98	3.95	3.0	0.34707	Cadherin, N-terminal (1);Cadherin (3);Cadherin-like (1);	0.000000	0.34411	U	0.003997	T	0.69097	0.3073	H	0.98965	4.385	0.24184	N	0.995573	D;D	0.65815	0.995;0.994	P;P	0.52454	0.699;0.574	T	0.69691	-0.5077	10	0.87932	D	0	.	11.4118	0.49929	0.3094:0.6906:0.0:0.0	.	62;62	Q9Y5H6;Q9Y5H6-2	PCDA8_HUMAN;.	C	62	ENSP00000434655:R62C;ENSP00000367363:R62C	ENSP00000367363:R62C	R	+	1	0	PCDHA8	140201274	0.010000	0.17322	1.000000	0.80357	0.983000	0.72400	0.201000	0.17276	1.905000	0.55150	0.557000	0.71058	CGC		0.637	PCDHA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372830.2	NM_018911		T	140221090	C	T	140221090	3	4	628	1	0	0	0	0	1	0	0	0	11537	768	27	1	186	1	PCDHA8	5	140221090	Missense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10	2942256	140221090	40694170	21	38612										
LARP1	23367	bcgsc.ca	37	chr5	154173805	154173820	+	Frame_Shift_Del	DEL	ACTACATCAAGCGCCA	ACTACATCAAGCGCCA	-													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gatcaggaactgctcaaagaCtacatcaagcgccagatgtg					rs144538564		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	ACTACATCAAGCGCCA	ACTACATCAAGCGCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr5:154173805_154173820delACTACATCAAGCGCCA	ENST00000336314.4	+	7	1008_1023	c.984_999delACTACATCAAGCGCCA	c.(982-999)gaactacatcaagcgccafs	p.ELHQAP328fs		NM_015315.3	NP_056130.2	Q6PKG0	LARP1_HUMAN	La ribonucleoprotein domain family, member 1	405					cell proliferation (GO:0008283)|positive regulation of macroautophagy (GO:0016239)|positive regulation of translation (GO:0045727)|TOR signaling (GO:0031929)|translational initiation (GO:0006413)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	eukaryotic initiation factor 4E binding (GO:0008190)|mRNA 3'-UTR binding (GO:0003730)|mRNA 5'-UTR binding (GO:0048027)|poly(A) RNA binding (GO:0044822)|RNA cap binding (GO:0000339)|translation activator activity (GO:0008494)|translation initiation factor binding (GO:0031369)			breast(1)|endometrium(3)|kidney(2)|large_intestine(10)|lung(9)|ovary(3)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	33	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TGCTCAAAGACTACATCAAGCGCCAGATGTGAGTGT	0.519																																																0																																										SO:0001589	frameshift_variant	23367			AB018274	CCDS4328.1	5q33.2	2014-02-12			ENSG00000155506	ENSG00000155506		"La ribonucleoprotein domain containing"	29531	protein-coding gene	gene with protein product		612059				9872452, 10878606	Standard	NM_015315		Approved	LARP, KIAA0731, MGC19556	uc003lvo.4	Q6PKG0	OTTHUMG00000130191	ENST00000336314.4:c.984_999delACTACATCAAGCGCCA	5.37:g.154173805_154173820delACTACATCAAGCGCCA	ENSP00000336721:p.Glu328fs	Somatic		WXS	Illumina HiSeq	Phase_I	O94836|Q8N4M2|Q8NB73|Q9UFD7	Frame_Shift_Del	DEL	ENST00000336314.4	37	CCDS4328.1																																																																																				0.519	LARP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252509.1	NM_033551		-	154173820	ACTACATCAAGCGCCA	-	154173805	7	5	628	1	0	1	0	1	0	0	0	0	8635	564	20	0	1010	0	LARP1	5	154173805	Frame_Shift_Del	DEL	ACTACATCAAGCGCCA	TCGA-KL-8329-01A-11D-2310-10	13952715	154173805	26741455	22	38613										
HLA-B	3106	mdanderson.org	37	chr6	31324911	31324911	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	cgccgagagcagcaggaggaCggttcggggcgccatgacca	17	12	0	2	rs1050462	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr6:31324911C>G	ENST00000412585.2	-	1	53	c.25G>C	c.(25-27)Gtc>Ctc	p.V9L		NM_005514.6	NP_005505.2	P30486	1B48_HUMAN	major histocompatibility complex, class I, B	9			V -> L (in dbSNP:rs1050462).		antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|immune response (GO:0006955)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|viral process (GO:0016032)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|MHC class I protein complex (GO:0042612)	peptide antigen binding (GO:0042605)			endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(4)|lung(4)|prostate(1)|upper_aerodigestive_tract(2)	27						AGCAGGAGGACGGTTCGGGGC	0.692									Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of				.|||	1155	0.230631	0.1233	0.245	5008	,	,		8959	0.25		0.3062	False		,,,				2504	0.2679															0								C	LEU/VAL	238,3960		11,216,1872	13	12	12	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	25	2.5	0.1	6	dbSNP_86	12	981,7141		59,863,3139	yes	missense	HLA-B	NM_005514.6	32	70,1079,5011	GG,GC,CC		12.0783,5.6694,9.8945		9/363	31324911	1219,11101	2099	4061	6160	SO:0001583	missense	3106	Familial Cancer Database	;Lichen Sclerosis, Familial	M15470	CCDS34394.1	6p21.3	2013-01-11			ENSG00000234745	ENSG00000234745		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4932	protein-coding gene	gene with protein product		142830	"ankylosing spondylitis"	AS		3459708	Standard	NM_005514		Approved		uc011imz.2	P01889	OTTHUMG00000031153	ENST00000412585.2:c.25G>C	6.37:g.31324911C>G	ENSP00000399168:p.Val9Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q29764	Missense_Mutation	SNP	ENST00000412585.2	37	CCDS34394.1	494	0.2261904761904762	61	0.12398373983739837	84	0.23204419889502761	135	0.23601398601398602	214	0.28232189973614774	N	8.101	0.776701	0.16120	0.056694	0.120783	ENSG00000234745	ENST00000412585	T	0.00597	6.31	3.34	2.47	0.30058	.	0.330918	0.16642	N	0.205609	T	0.00109	0.0003	.	.	.	0.80722	P	0.0	B	0.02656	0.0	B	0.06405	0.002	T	0.12400	-1.0549	8	0.02654	T	1	.	8.6444	0.33996	0.0:0.237:0.763:0.0	rs1050462;rs2308334;rs3177903;rs3190781;rs9266204;rs17416898;rs17840061	9	P01889	1B07_HUMAN	L	9	ENSP00000399168:V9L	ENSP00000399168:V9L	V	-	1	0	HLA-B	31432890	0.007000	0.16637	0.054000	0.19295	0.040000	0.13550	0.447000	0.21710	0.756000	0.33013	-0.435000	0.05868	GTC		0.692	HLA-B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076280.4	NM_005514		G	31324911	C	G	31324911	3	3	628	1	0	0	0	0	1	0	0	0	7203	536	19	4	1091	4	HLA-B	6	31324911	Missense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10		31324911	139790156	23	38614			1	78		2	2	21	N	C_A	6.525025e-05
HLA-B	3106	bcgsc.ca	37	chr6	31324931	31324931	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	cggttcggggcgccatgaccAgcatctcggcgtctgaggag	16	12	2	2	rs151341074|rs9266206	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr6:31324931A>C	ENST00000412585.2	-	1	33	c.5T>G	c.(4-6)cTg>cGg	p.L2R		NM_005514.6	NP_005505.2	P30486	1B48_HUMAN	major histocompatibility complex, class I, B	2					antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|immune response (GO:0006955)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|viral process (GO:0016032)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|MHC class I protein complex (GO:0042612)	peptide antigen binding (GO:0042605)			endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(4)|lung(4)|prostate(1)|upper_aerodigestive_tract(2)	27						CGCCATGACCAGCATCTCGGC	0.647									Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of				.|||	3976	0.79393	0.7958	0.732	5008	,	,		9657	0.8462		0.7197	False		,,,				2504	0.8579															0													14	12	13					6																	31324931		2093	4077	6170	SO:0001583	missense	3106	Familial Cancer Database	;Lichen Sclerosis, Familial	M15470	CCDS34394.1	6p21.3	2013-01-11			ENSG00000234745	ENSG00000234745		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4932	protein-coding gene	gene with protein product		142830	"ankylosing spondylitis"	AS		3459708	Standard	NM_005514		Approved		uc011imz.2	P01889	OTTHUMG00000031153	ENST00000412585.2:c.5T>G	6.37:g.31324931A>C	ENSP00000399168:p.Leu2Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q29764	Missense_Mutation	SNP	ENST00000412585.2	37	CCDS34394.1	1641	0.7513736263736264	370	0.7520325203252033	254	0.7016574585635359	484	0.8461538461538461	533	0.7031662269129287	N	5.499	0.276991	0.10403	.	.	ENSG00000234745	ENST00000412585	T	0.00612	6.22	3.34	-2.25	0.06888	.	.	.	.	.	T	0.00109	0.0003	.	.	.	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.14727	-1.0462	7	0.16896	T	0.51	.	3.3191	0.07044	0.4438:0.2616:0.0:0.2946	rs9266206	2	P01889	1B07_HUMAN	R	2	ENSP00000399168:L2R	ENSP00000399168:L2R	L	-	2	0	HLA-B	31432910	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.210000	0.02999	-1.187000	0.02709	-1.627000	0.00785	CTG		0.647	HLA-B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076280.4	NM_005514		C	31324931	A	C	31324931	3	2	628	1	0	0	0	0	1	0	0	0	7203	188	7	5	1111	5	HLA-B	6	31324931	Missense_Mutation	SNP	A	TCGA-KL-8329-01A-11D-2310-10	20	31324931	139790136	24	38615			1	78		2	2	21	N	C_A	6.525025e-05
HLA-DRB5	3127	mdanderson.org	37	chr6	32497931	32497931	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ccccagccaaagccagtgggGagctcagcaccatcagtgtc	11	15	2	0	rs147565130	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr6:32497931G>A	ENST00000374975.3	-	1	133	c.71C>T	c.(70-72)tCc>tTc	p.S24F		NM_002125.3	NP_002116.2			major histocompatibility complex, class II, DR beta 5											NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|pancreas(1)|prostate(1)|stomach(2)	10						AGCCAGTGGGGAGCTCAGCAC	0.557																																																0													96	100	99					6																	32497931		2203	4300	6503	SO:0001583	missense	3127				CCDS4751.1	6p21.3	2013-01-11			ENSG00000198502	ENSG00000198502		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4953	protein-coding gene	gene with protein product		604776					Standard	NM_002125		Approved		uc003obj.3	Q30154	OTTHUMG00000031027	ENST00000374975.3:c.71C>T	6.37:g.32497931G>A	ENSP00000364114:p.Ser24Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000374975.3	37	CCDS4751.1	.	.	.	.	.	.	.	.	.	.	.	11.29	1.594048	0.28445	.	.	ENSG00000198502	ENST00000374975	T	0.00267	8.38	4.32	1.46	0.22682	MHC classes I/II-like antigen recognition protein (1);	.	.	.	.	T	0.00073	0.0002	L	0.52905	1.665	0.09310	N	1	B	0.09022	0.002	B	0.12837	0.008	T	0.37454	-0.9705	9	0.62326	D	0.03	.	6.5543	0.22452	0.3227:0.0:0.6773:0.0	.	24	Q30154	DRB5_HUMAN	F	24	ENSP00000364114:S24F	ENSP00000364114:S24F	S	-	2	0	HLA-DRB5	32605909	0.001000	0.12720	0.035000	0.18076	0.177000	0.22998	1.003000	0.29809	0.461000	0.27071	0.485000	0.47835	TCC		0.557	HLA-DRB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076022.2	NM_002125		A	32497931	G	A	32497931	3	1	628	1	0	0	0	0	1	0	0	0	7216	1174	41	2	753	2	HLA-DRB5	6	32497931	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10	1173000	32497931	138617136	25	38616										
CDKN1A	1026	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	36652171	36652171	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	aggcaggcggcctggcacctCacctgctctgctgcagggga	15	14	2	0			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr6:36652171C>A	ENST00000405375.1	+	2	528	c.293C>A	c.(292-294)tCa>tAa	p.S98*	CDKN1A_ENST00000478800.1_3'UTR|CDKN1A_ENST00000448526.2_Nonsense_Mutation_p.S132*|CDKN1A_ENST00000244741.5_Nonsense_Mutation_p.S98*|CDKN1A_ENST00000373711.2_Nonsense_Mutation_p.S98*	NM_001220778.1	NP_001207707.1	P38936	CDN1A_HUMAN	cyclin-dependent kinase inhibitor 1A (p21, Cip1)	98					cell cycle arrest (GO:0007050)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to extracellular stimulus (GO:0031668)|cellular response to ionizing radiation (GO:0071479)|cellular senescence (GO:0090398)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|G1/S transition of mitotic cell cycle (GO:0000082)|G2/M transition of mitotic cell cycle (GO:0000086)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle (GO:0000278)|mitotic cell cycle arrest (GO:0071850)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045736)|negative regulation of gene expression (GO:0010629)|negative regulation of phosphorylation (GO:0042326)|neurotrophin TRK receptor signaling pathway (GO:0048011)|organ regeneration (GO:0031100)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of programmed cell death (GO:0043068)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|protein phosphorylation (GO:0006468)|Ras protein signal transduction (GO:0007265)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of DNA biosynthetic process (GO:2000278)|regulation of protein import into nucleus, translocation (GO:0033158)|response to arsenic-containing substance (GO:0046685)|response to corticosterone (GO:0051412)|response to drug (GO:0042493)|response to hyperoxia (GO:0055093)|response to organonitrogen compound (GO:0010243)|response to toxic substance (GO:0009636)|response to UV (GO:0009411)|stress-induced premature senescence (GO:0090400)	cyclin-dependent protein kinase holoenzyme complex (GO:0000307)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PCNA-p21 complex (GO:0070557)	cyclin-dependent protein kinase activating kinase activity (GO:0019912)|cyclin-dependent protein serine/threonine kinase inhibitor activity (GO:0004861)|metal ion binding (GO:0046872)|ubiquitin protein ligase binding (GO:0031625)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|liver(1)|lung(3)|ovary(1)|urinary_tract(5)	15						CCTGGCACCTCACCTGCTCTG	0.672																																																0													32	32	32					6																	36652171		2203	4300	6503	SO:0001587	stop_gained	1026			U03106	CCDS4824.1	6p21.1	2009-01-21			ENSG00000124762	ENSG00000124762			1784	protein-coding gene	gene with protein product		116899		CDKN1			Standard	NM_000389		Approved	P21, CIP1, WAF1, SDI1, CAP20, p21CIP1, p21Cip1/Waf1	uc021yzb.1	P38936	OTTHUMG00000014603	ENST00000405375.1:c.293C>A	6.37:g.36652171C>A	ENSP00000384849:p.Ser98*	Somatic		WXS	Illumina HiSeq	Phase_I	Q14010|Q6FI05|Q9BUT4	Nonsense_Mutation	SNP	ENST00000405375.1	37	CCDS4824.1	.	.	.	.	.	.	.	.	.	.	C	13.70	2.316242	0.40996	.	.	ENSG00000124762	ENST00000448526;ENST00000244741;ENST00000405375;ENST00000373711	.	.	.	5.23	5.23	0.72850	.	0.000000	0.47852	D	0.000212	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.07325	T	0.83	-11.3875	14.1752	0.65537	0.0:1.0:0.0:0.0	.	.	.	.	X	132;98;98;98	.	ENSP00000244741:S98X	S	+	2	0	CDKN1A	36760149	0.052000	0.20516	0.063000	0.19743	0.107000	0.19398	2.394000	0.44450	2.724000	0.93272	0.561000	0.74099	TCA		0.672	CDKN1A-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040354.1	NM_078467		A	36652171	C	A	36652171	4	1	628	1	0	0	0	0	0	1	0	0	3160	838	29	4	295	4	CDKN1A	6	36652171	Nonsense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10	4154240	36652171	134462896	26	38617										
AKAP12	9590	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr6	151671482	151671482	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	accgagagcacagcctctgaAatgcaagaagaaatgaaagg	11	8	1	5			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr6:151671482A>G	ENST00000253332.1	+	3	2145	c.1956A>G	c.(1954-1956)gaA>gaG	p.E652E	AKAP12_ENST00000354675.6_Silent_p.E554E|AKAP12_ENST00000359755.5_Silent_p.E547E|AKAP12_ENST00000402676.2_Silent_p.E652E			Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12	652					G-protein coupled receptor signaling pathway (GO:0007186)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of protein kinase A signaling (GO:0010739)|protein targeting (GO:0006605)|regulation of protein kinase C signaling (GO:0090036)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|focal adhesion (GO:0005925)	adenylate cyclase binding (GO:0008179)|protein kinase A binding (GO:0051018)			breast(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(22)|lung(22)|ovary(2)|pancreas(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	68		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		CAGCCTCTGAAATGCAAGAAG	0.493																																					Melanoma(141;1616 1805 10049 24534 51979)											0													73	71	72					6																	151671482		2203	4300	6503	SO:0001819	synonymous_variant	9590			U81607	CCDS5229.1, CCDS5230.1	6q24-q25	2011-07-01	2008-08-29		ENSG00000131016	ENSG00000131016		"A-kinase anchor proteins"	370	protein-coding gene	gene with protein product	"gravin", "Src-Suppressed C Kinase Substrate"	604698	"A kinase (PRKA) anchor protein (gravin) 12"			9000000	Standard	NM_144497		Approved	AKAP250, SSeCKS	uc011eep.2	Q02952	OTTHUMG00000015833	ENST00000253332.1:c.1956A>G	6.37:g.151671482A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O00310|O00498|Q4LE68|Q5SZ80|Q5TGN1|Q68D82|Q99970	Silent	SNP	ENST00000253332.1	37	CCDS5229.1																																																																																				0.493	AKAP12-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042712.1			G	151671482	A	G	151671482	2	3	628	1	0	0	0	0	0	0	0	1	448	11	1	3		3	AKAP12	6	151671482	Silent	SNP	A	TCGA-KL-8329-01A-11D-2310-10	115019311	151671482	19443585	27	38618										
FAM120B	84498	broad.mit.edu;hgsc.bcm.edu	37	chr6	170627576	170627576	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gaatccaggcgagaagttccCgtgtatacagattctgaacc	10	10	1	3	rs542443578		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr6:170627576C>T	ENST00000476287.1	+	2	1206	c.1098C>T	c.(1096-1098)ccC>ccT	p.P366P	FAM120B_ENST00000252510.9_Intron|FAM120B_ENST00000537664.1_Silent_p.P389P|FAM120B_ENST00000540480.1_Silent_p.P378P	NM_032448.1	NP_115824.1	Q96EK7	F120B_HUMAN	family with sequence similarity 120B	366					cell differentiation (GO:0030154)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)				endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(11)|liver(1)|lung(15)|ovary(1)|prostate(2)|skin(2)	44		Breast(66;0.000338)|Esophageal squamous(34;0.241)		OV - Ovarian serous cystadenocarcinoma(33;3.94e-22)|BRCA - Breast invasive adenocarcinoma(81;6.47e-06)|GBM - Glioblastoma multiforme(31;0.0899)		GAGAAGTTCCCGTGTATACAG	0.532																																																0													154	163	160					6																	170627576		2203	4300	6503	SO:0001819	synonymous_variant	84498			AB058741	CCDS5314.1, CCDS75555.1	6q27	2011-04-13	2006-07-04	2006-07-04	ENSG00000112584	ENSG00000112584			21109	protein-coding gene	gene with protein product	"PPARgamma constitutive coactivator 1", "constitutive coactivator of PPAR-gamma"	612266	"KIAA1838"	KIAA1838		14585507	Standard	NM_032448		Approved	PGCC1, CCPG	uc003qxp.3	Q96EK7	OTTHUMG00000016080	ENST00000476287.1:c.1098C>T	6.37:g.170627576C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DL34|Q86V68|Q96JI9	Silent	SNP	ENST00000476287.1	37	CCDS5314.1																																																																																				0.532	FAM120B-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000043259.2	NM_032448		T	170627576	C	T	170627576	2	4	628	1	0	0	0	0	0	0	0	1	5421	639	23	1		1	FAM120B	6	170627576	Silent	SNP	C	TCGA-KL-8329-01A-11D-2310-10	18956094	170627576	487491	28	38619										
HIBADH	11112	broad.mit.edu	37	chr7	27672041	27672041	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	attctgtcagctttttcagcAacatctgctggggaagatac	9	9	4	1			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr7:27672041A>G	ENST00000265395.2	-	3	482	c.276T>C	c.(274-276)gtT>gtC	p.V92V		NM_152740.3	NP_689953.1	P31937	3HIDH_HUMAN	3-hydroxyisobutyrate dehydrogenase	92					branched-chain amino acid catabolic process (GO:0009083)|cellular nitrogen compound metabolic process (GO:0034641)|pentose-phosphate shunt (GO:0006098)|small molecule metabolic process (GO:0044281)|valine catabolic process (GO:0006574)	mitochondrial matrix (GO:0005759)	3-hydroxyisobutyrate dehydrogenase activity (GO:0008442)|NAD binding (GO:0051287)|phosphogluconate dehydrogenase (decarboxylating) activity (GO:0004616)			endometrium(4)|kidney(2)|lung(3)|ovary(2)|prostate(1)	12			GBM - Glioblastoma multiforme(3;0.0368)			CTTTTTCAGCAACATCTGCTG	0.353																																																0													127	121	123					7																	27672041		2203	4300	6503	SO:0001819	synonymous_variant	11112			AF529362	CCDS5414.1	7p15	2009-06-12			ENSG00000106049	ENSG00000106049	1.1.1.31		4907	protein-coding gene	gene with protein product		608475					Standard	NM_152740		Approved	NS5ATP1	uc003szf.3	P31937	OTTHUMG00000097035	ENST00000265395.2:c.276T>C	7.37:g.27672041A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q546Z2|Q9UDN3	Silent	SNP	ENST00000265395.2	37	CCDS5414.1	.	.	.	.	.	.	.	.	.	.	A	9.560	1.118239	0.20877	.	.	ENSG00000106049	ENST00000425715	.	.	.	5.8	3.36	0.38483	.	.	.	.	.	T	0.47002	0.1422	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.32745	-0.9895	4	.	.	.	-15.8862	3.5762	0.07936	0.1389:0.07:0.1355:0.6556	.	.	.	.	S	35	.	.	L	-	2	0	HIBADH	27638566	0.885000	0.30320	1.000000	0.80357	0.995000	0.86356	-0.081000	0.11321	0.424000	0.26061	-0.347000	0.07816	TTG		0.353	HIBADH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214132.1	NM_152740		G	27672041	A	G	27672041	2	3	628	1	0	0	0	0	0	0	0	1	7106	117	5	3		3	HIBADH	7	27672041	Silent	SNP	A	TCGA-KL-8329-01A-11D-2310-10		27672041	131466622	29	38620										
KRIT1	889	hgsc.bcm.edu;ucsc.edu	37	chr7	91851360	91851360	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ggtttatgatatggtttgagTtgaaggcctgaaaaacatca	11	4	1	4			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr7:91851360T>C	ENST00000340022.2	-	14	2437	c.1419A>G	c.(1417-1419)caA>caG	p.Q473Q	KRIT1_ENST00000394503.2_Silent_p.Q425Q|KRIT1_ENST00000394505.2_Silent_p.Q473Q|KRIT1_ENST00000394507.1_Silent_p.Q473Q|KRIT1_ENST00000412043.2_Silent_p.Q473Q	NM_004912.3|NM_194455.1	NP_004903.2|NP_919437.1	O00522	KRIT1_HUMAN	KRIT1, ankyrin repeat containing	473	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.				angiogenesis (GO:0001525)|cell redox homeostasis (GO:0045454)|negative regulation of angiogenesis (GO:0016525)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of endothelial cell migration (GO:0010596)|negative regulation of endothelial cell proliferation (GO:0001937)|positive regulation of protein binding (GO:0032092)|regulation of catalytic activity (GO:0050790)|regulation of establishment of cell polarity (GO:2000114)|small GTPase mediated signal transduction (GO:0007264)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|extracellular space (GO:0005615)|microtubule (GO:0005874)|plasma membrane (GO:0005886)	microtubule binding (GO:0008017)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|protein complex binding (GO:0032403)|small GTPase regulator activity (GO:0005083)			autonomic_ganglia(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(9)|ovary(2)|stomach(1)	22	all_cancers(62;1.04e-09)|all_epithelial(64;5.75e-09)|Breast(17;0.00206)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			ATGGTTTGAGTTGAAGGCCTG	0.348																																																0													101	101	101					7																	91851360		2203	4300	6503	SO:0001819	synonymous_variant	889			AJ294850	CCDS5624.1, CCDS34679.1	7q21.2	2014-09-17	2005-03-15	2005-03-17	ENSG00000001631	ENSG00000001631		"Ankyrin repeat domain containing"	1573	protein-coding gene	gene with protein product		604214	"cerebral cavernous malformations 1"	CCM1		7604043, 11342228	Standard	NM_194455		Approved	CAM	uc003ulu.1	O00522	OTTHUMG00000131187	ENST00000340022.2:c.1419A>G	7.37:g.91851360T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NNU0|O43894|Q506L6|Q6U276|Q75N19|Q9H180|Q9H264|Q9HAX5	Silent	SNP	ENST00000340022.2	37	CCDS5624.1																																																																																				0.348	KRIT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253910.1			C	91851360	T	C	91851360	2	2	628	1	0	0	0	0	0	0	0	1	8452	1722	60	3		3	KRIT1	7	91851360	Silent	SNP	T	TCGA-KL-8329-01A-11D-2310-10	64179319	91851360	67287303	30	38621										
MUC17	140453	mdanderson.org	37	chr7	100684573	100684573	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	atgcctgtcagcaccacaacGgtggccagttctgaaacgag	11	12	2	1	rs144023476	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr7:100684573G>A	ENST00000306151.4	+	3	9940	c.9876G>A	c.(9874-9876)acG>acA	p.T3292T		NM_001040105.1	NP_001035194.1	Q685J3	MUC17_HUMAN	mucin 17, cell surface associated	3292	59 X approximate tandem repeats.|Ser-rich.				cellular homeostasis (GO:0019725)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	apical plasma membrane (GO:0016324)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)	extracellular matrix constituent, lubricant activity (GO:0030197)|PDZ domain binding (GO:0030165)			NS(3)|breast(14)|central_nervous_system(2)|cervix(2)|endometrium(27)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(28)|lung(179)|ovary(19)|pancreas(1)|prostate(13)|skin(26)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(4)	343	Lung NSC(181;0.136)|all_lung(186;0.182)					GCACCACAACGGTGGCCAGTT	0.512													G|||	172	0.034345	0.0688	0.0072	5008	,	,		27204	0.0298		0.0149	False		,,,				2504	0.0317															0								G		35,4371	28.1+/-56.4	2,31,2170	331	330	330		9876	-2.6	0	7	dbSNP_134	330	5,8595	2.2+/-6.3	0,5,4295	no	coding-synonymous	MUC17	NM_001040105.1		2,36,6465	AA,AG,GG		0.0581,0.7944,0.3076		3292/4494	100684573	40,12966	2203	4300	6503	SO:0001819	synonymous_variant	140453			AJ606307	CCDS34711.1	7q22	2007-01-17	2006-03-14		ENSG00000169876	ENSG00000169876		"Mucins"	16800	protein-coding gene	gene with protein product		608424				11855812	Standard	NM_001040105		Approved		uc003uxp.1	Q685J3	OTTHUMG00000157030	ENST00000306151.4:c.9876G>A	7.37:g.100684573G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O14761|Q685J2|Q8TDH7	Silent	SNP	ENST00000306151.4	37	CCDS34711.1																																																																																				0.512	MUC17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347161.1	NM_001040105		A	100684573	G	A	100684573	2	1	628	1	0	0	0	0	0	0	0	1	9981	1103	39	1		1	MUC17	7	100684573	Silent	SNP	G	TCGA-KL-8329-01A-11D-2310-10	8833213	100684573	58454090	31	38622										
PRSS1	5644	mdanderson.org	37	chr7	142458542	142458542	+	Silent	SNP	A	A	G													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	atcaacgaacagtgggtggtAtcagcaggccactgctacaa							TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr7:142458542A>G	ENST00000311737.7	+	2	183	c.177A>G	c.(175-177)gtA>gtG	p.V59V	PRSS1_ENST00000486171.1_Silent_p.V59V	NM_002769.4	NP_002760.1	P07477	TRY1_HUMAN	protease, serine, 1 (trypsin 1)	59	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	metal ion binding (GO:0046872)|serine-type endopeptidase activity (GO:0004252)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(24)|prostate(2)	38	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)		Aprotinin(DB06692)	AGTGGGTGGTATCAGCAGGCC	0.582																																																0													83	86	85					7																	142458542		2203	4300	6503	SO:0001819	synonymous_variant	5644			M22612	CCDS5872.1	7q34	2012-10-02			ENSG00000204983	ENSG00000204983	3.4.21.4	"Serine peptidases / Serine peptidases"	9475	protein-coding gene	gene with protein product		276000		TRY1			Standard	NM_002769		Approved		uc003wak.2	P07477	OTTHUMG00000158923	ENST00000311737.7:c.177A>G	7.37:g.142458542A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A1A509|A6NJ71|B2R5I5|Q5NV57|Q7M4N3|Q7M4N4|Q92955|Q9HAN4|Q9HAN5|Q9HAN6|Q9HAN7	Silent	SNP	ENST00000311737.7	37	CCDS5872.1																																																																																				0.582	PRSS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352538.2			G	142458542	A	G	142458542	2	3	628	1	0	0	0	0	0	0	0	1	12624	436	16	3		3	PRSS1	7	142458542	Silent	SNP	A	TCGA-KL-8329-01A-11D-2310-10	41773969	142458542	16680121	32	38623	310	2								
PRSS1	5644	mdanderson.org	37	chr7	142458551	142458551	+	Silent	SNP	C	C	T													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	cagtgggtggtatcagcaggCcactgctacaagtcgtaagt					rs199713773		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr7:142458551C>T	ENST00000311737.7	+	2	192	c.186C>T	c.(184-186)ggC>ggT	p.G62G	PRSS1_ENST00000486171.1_Silent_p.G62G	NM_002769.4	NP_002760.1	P07477	TRY1_HUMAN	protease, serine, 1 (trypsin 1)	62	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	metal ion binding (GO:0046872)|serine-type endopeptidase activity (GO:0004252)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(24)|prostate(2)	38	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)		Aprotinin(DB06692)	TATCAGCAGGCCACTGCTACA	0.582																																																0																																										SO:0001819	synonymous_variant	5644			M22612	CCDS5872.1	7q34	2012-10-02			ENSG00000204983	ENSG00000204983	3.4.21.4	"Serine peptidases / Serine peptidases"	9475	protein-coding gene	gene with protein product		276000		TRY1			Standard	NM_002769		Approved		uc003wak.2	P07477	OTTHUMG00000158923	ENST00000311737.7:c.186C>T	7.37:g.142458551C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A1A509|A6NJ71|B2R5I5|Q5NV57|Q7M4N3|Q7M4N4|Q92955|Q9HAN4|Q9HAN5|Q9HAN6|Q9HAN7	Silent	SNP	ENST00000311737.7	37	CCDS5872.1																																																																																				0.582	PRSS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352538.2			T	142458551	C	T	142458551	2	4	628	1	0	0	0	0	0	0	0	1	12624	726	26	2		2	PRSS1	7	142458551	Silent	SNP	C	TCGA-KL-8329-01A-11D-2310-10	9	142458551	16680112	33	38624	310	2								
PABPC1	26986	mdanderson.org	37	chr8	101724606	101724606	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ttacctttgcactagtgattGtaccaaatggagaaaactct	7	8	1	2	rs202060459		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr8:101724606G>A	ENST00000318607.5	-	7	2084	c.956C>T	c.(955-957)aCa>aTa	p.T319I	PABPC1_ENST00000522387.1_Missense_Mutation_p.T287I|PABPC1_ENST00000519596.1_5'UTR|PABPC1_ENST00000519004.1_Missense_Mutation_p.T274I	NM_002568.3	NP_002559.2	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	319	RRM 4. {ECO:0000255|PROSITE- ProRule:PRU00176}.				cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|mRNA polyadenylation (GO:0006378)|mRNA splicing, via spliceosome (GO:0000398)|mRNA stabilization (GO:0048255)|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:2000623)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|positive regulation of translation (GO:0045727)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)|poly(U) RNA binding (GO:0008266)|protein C-terminus binding (GO:0008022)|translation activator activity (GO:0008494)	p.T319I(2)		breast(2)|endometrium(4)|kidney(15)|large_intestine(4)|lung(13)|prostate(1)|skin(1)	40	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			ACTAGTGATTGTACCAAATGG	0.284																																																2	Substitution - Missense(2)	kidney(1)|endometrium(1)											154	166	162					8																	101724606		2203	4298	6501	SO:0001583	missense	26986			Y00345	CCDS6289.1	8q22.2-q23	2013-02-12	2004-04-20		ENSG00000070756	ENSG00000070756		"RNA binding motif (RRM) containing"	8554	protein-coding gene	gene with protein product		604679	"poly(A)-binding protein, cytoplasmic 2"	PAB1, PABPC2		2885805	Standard	XM_005250861		Approved	PABP1, PABPL1	uc003yjs.1	P11940	OTTHUMG00000164779	ENST00000318607.5:c.956C>T	8.37:g.101724606G>A	ENSP00000313007:p.Thr319Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q15097|Q93004	Missense_Mutation	SNP	ENST00000318607.5	37	CCDS6289.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	26.8|26.8	4.768189|4.768189	0.90020|0.90020	.|.	.|.	ENSG00000070756|ENSG00000070756	ENST00000519100|ENST00000318607;ENST00000347137;ENST00000519004;ENST00000522387	.|T;T;T	.|0.16196	.|2.36;2.36;2.36	5.65|5.65	5.65|5.65	0.86999|0.86999	.|Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	.|0.000000	.|0.64402	.|D	.|0.000009	.|T	.|0.37652	.|0.1011	M|M	0.62154|0.62154	1.92|1.92	0.80722|0.80722	D|D	1|1	.|P;P;D	.|0.54964	.|0.917;0.784;0.969	.|P;B;P	.|0.56916	.|0.747;0.442;0.809	.|T	.|0.03784	.|-1.1004	.|10	.|0.87932	.|D	.|0	.|.	20.0919|20.0919	0.97823|0.97823	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|287;319;319	.|E7ERJ7;B3KT93;P11940	.|.;.;PABP1_HUMAN	X|I	188|319;319;274;287	.|ENSP00000313007:T319I;ENSP00000429594:T274I;ENSP00000429395:T287I	.|ENSP00000313007:T319I	Q|T	-|-	1|2	0|0	PABPC1|PABPC1	101793782|101793782	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.999000|0.999000	0.98932|0.98932	9.776000|9.776000	0.99001|0.99001	2.824000|2.824000	0.97209|0.97209	0.655000|0.655000	0.94253|0.94253	CAA|ACA		0.284	PABPC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380217.1	NM_002568		A	101724606	G	A	101724606	3	1	628	1	0	0	0	0	1	0	0	0	11370	1377	48	2	986	2	PABPC1	8	101724606	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10		101724606	44639416	34	38625										
SPATC1	375686	broad.mit.edu	37	chr8	145095684	145095685	+	Frame_Shift_Ins	INS	-	-	C													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tgtccccacctcccccaccaINScctcccccacggtcaccgtc					rs564781160	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr8:145095684_145095685insC	ENST00000377470.3	+	3	1084_1085	c.982_983insC	c.(982-984)accfs	p.T328fs	SPATC1_ENST00000447830.2_Frame_Shift_Ins_p.T328fs	NM_198572.2	NP_940974.2	Q76KD6	SPERI_HUMAN	spermatogenesis and centriole associated 1	328						centrosome (GO:0005813)|cytoplasm (GO:0005737)				NS(1)|central_nervous_system(1)|kidney(1)|large_intestine(1)|lung(8)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	15	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;3.67e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			ctcccccaccacctcccccacg	0.668																																																0																																										SO:0001589	frameshift_variant	375686			BC053547	CCDS6413.2, CCDS47937.1	8q24.3	2005-01-11			ENSG00000186583	ENSG00000186583			30510	protein-coding gene	gene with protein product		610874				15280373	Standard	NM_198572		Approved	MGC61633, SPATA15, SPERIOLIN	uc011lkw.2	Q76KD6	OTTHUMG00000156976	ENST00000377470.3:c.984dupC	8.37:g.145095686_145095686dupC	ENSP00000366690:p.Thr328fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DWW9|Q5U5I8|Q7Z6L7	Frame_Shift_Ins	INS	ENST00000377470.3	37	CCDS6413.2																																																																																				0.668	SPATC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000346926.1	NM_198572		C	145095685	-	C	145095684	7	5	628	1	0	1	1	0	0	0	0	0	15029	159	6	0	992	0	SPATC1	8	145095684	Frame_Shift_Ins	INS	-	TCGA-KL-8329-01A-11D-2310-10	43371078	145095684	1268338	35	38626										
PLAA	9373	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr9	26905845	26905845	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ttcagttctattgcatgggaCatcagtgattccctctggga	10	9	4	1			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr9:26905845C>T	ENST00000397292.3	-	14	2469	c.2052G>A	c.(2050-2052)atG>atA	p.M684I		NM_001031689.2	NP_001026859.1	Q9Y263	PLAP_HUMAN	phospholipase A2-activating protein	684	PUL. {ECO:0000255|PROSITE- ProRule:PRU00729}.				inflammatory response (GO:0006954)|phospholipid metabolic process (GO:0006644)|signal transduction (GO:0007165)	extracellular vesicular exosome (GO:0070062)	phospholipase A2 activator activity (GO:0016005)			breast(1)|endometrium(7)|kidney(2)|large_intestine(3)|lung(3)|prostate(1)	17		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(218;1.32e-05)|LUSC - Lung squamous cell carcinoma(38;0.00011)		TTGCATGGGACATCAGTGATT	0.433																																					Melanoma(175;2670 2735 14091 35526)											0													108	99	102					9																	26905845		2203	4300	6503	SO:0001583	missense	9373			AF083395	CCDS35000.1	9p21	2013-01-10			ENSG00000137055	ENSG00000137055		"WD repeat domain containing"	9043	protein-coding gene	gene with protein product	"DOA1 homolog (S. cerevisiae)"	603873				9931468, 10644453	Standard	NM_001031689		Approved	PLAP, PLA2P, FLJ11281, FLJ12699, DOA1	uc003zqd.3	Q9Y263	OTTHUMG00000019708	ENST00000397292.3:c.2052G>A	9.37:g.26905845C>T	ENSP00000380460:p.Met684Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q53EU5|Q5VY33|Q9NUL8|Q9NVE9|Q9UF53|Q9Y5L1	Missense_Mutation	SNP	ENST00000397292.3	37	CCDS35000.1	.	.	.	.	.	.	.	.	.	.	C	11.37	1.618083	0.28801	.	.	ENSG00000137055	ENST00000397292	T	0.39997	1.05	6.07	2.18	0.27775	PUL (2);	0.415874	0.33419	N	0.004929	T	0.14570	0.0352	N	0.02011	-0.69	0.80722	D	1	B	0.02656	0.0	B	0.01281	0.0	T	0.04017	-1.0984	10	0.30854	T	0.27	-1.6509	5.2914	0.15729	0.1323:0.6012:0.0:0.2664	.	684	Q9Y263	PLAP_HUMAN	I	684	ENSP00000380460:M684I	ENSP00000380460:M684I	M	-	3	0	PLAA	26895845	0.996000	0.38824	0.994000	0.49952	0.995000	0.86356	0.479000	0.22228	0.435000	0.26365	-0.140000	0.14226	ATG		0.433	PLAA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051958.2	NM_001031689		T	26905845	C	T	26905845	3	4	628	1	0	0	0	0	1	0	0	0	12018	478	17	2	339	2	PLAA	9	26905845	Missense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10		26905845	114307586	36	38627										
KIF24	347240	mdanderson.org	37	chr9	34310782	34310782	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	catgagagattctttgaataAtgggaatatcacaatccccc	7	9	2	3			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr9:34310782A>G	ENST00000402558.2	-	1	587	c.563T>C	c.(562-564)aTt>aCt	p.I188T	KIF24_ENST00000345050.2_Missense_Mutation_p.I188T|KIF24_ENST00000379166.2_Missense_Mutation_p.I188T|KIF24_ENST00000379174.3_Missense_Mutation_p.I188T			Q5T7B8	KIF24_HUMAN	kinesin family member 24	188					ATP catabolic process (GO:0006200)|cilium assembly (GO:0042384)|metabolic process (GO:0008152)|microtubule depolymerization (GO:0007019)|microtubule-based movement (GO:0007018)	centriole (GO:0005814)|kinesin complex (GO:0005871)|microtubule (GO:0005874)|protein complex (GO:0043234)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			breast(1)|central_nervous_system(1)|endometrium(5)|large_intestine(4)|liver(1)|lung(13)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	32			LUSC - Lung squamous cell carcinoma(29;0.0107)			TCTTTGAATAATGGGAATATC	0.368																																																0													140	134	136					9																	34310782		1844	4097	5941	SO:0001583	missense	347240			AK001795	CCDS6551.2	9p13.3	2013-01-10			ENSG00000186638	ENSG00000186638		"Kinesins", "Sterile alpha motif (SAM) domain containing"	19916	protein-coding gene	gene with protein product		613747	"chromosome 9 open reading frame 48"	C9orf48		12477932	Standard	NM_194313		Approved	bA571F15.4, FLJ10933, FLJ43884	uc003zua.4	Q5T7B8	OTTHUMG00000019810	ENST00000402558.2:c.563T>C	9.37:g.34310782A>G	ENSP00000384433:p.Ile188Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q2TB93|Q5T7B5|Q5T7B7|Q6ZU97|Q6ZUZ2|Q86XZ0|Q9NV43	Missense_Mutation	SNP	ENST00000402558.2	37	CCDS6551.2	.	.	.	.	.	.	.	.	.	.	A	12.13	1.845864	0.32606	.	.	ENSG00000186638	ENST00000402558;ENST00000379174;ENST00000379166;ENST00000345050;ENST00000420188	T;T;T;T	0.72394	-0.41;-0.65;-0.41;-0.65	5.48	1.37	0.22104	.	0.756495	0.11337	N	0.574500	T	0.61261	0.2333	L	0.50333	1.59	0.21841	N	0.999512	B;B	0.02656	0.0;0.0	B;B	0.08055	0.003;0.001	T	0.52961	-0.8505	10	0.49607	T	0.09	.	6.6848	0.23138	0.7316:0.0:0.1496:0.1188	.	188;188	Q5T7B8-4;Q5T7B8	.;KIF24_HUMAN	T	188	ENSP00000384433:I188T;ENSP00000368472:I188T;ENSP00000368464:I188T;ENSP00000340179:I188T	ENSP00000340179:I188T	I	-	2	0	KIF24	34300782	0.691000	0.27709	0.986000	0.45419	0.971000	0.66376	1.175000	0.31944	0.368000	0.24481	-0.280000	0.10049	ATT		0.368	KIF24-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052150.5			G	34310782	A	G	34310782	3	3	628	1	0	0	0	0	1	0	0	0	8299	101	4	3	3591	3	KIF24	9	34310782	Missense_Mutation	SNP	A	TCGA-KL-8329-01A-11D-2310-10	7404937	34310782	106902649	37	38628										
CNTNAP3	79937	broad.mit.edu	37	chr9	39178299	39178299	+	Frame_Shift_Del	DEL	T	T	-													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tctcttattggttttaaaggTtttttatcaagtctatacag							TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr9:39178299delT	ENST00000297668.6	-	5	670	c.597delA	c.(595-597)aaafs	p.K199fs	CNTNAP3_ENST00000358144.2_Frame_Shift_Del_p.K111fs|CNTNAP3_ENST00000377653.2_5'UTR|CNTNAP3_ENST00000323947.7_Frame_Shift_Del_p.K199fs|CNTNAP3_ENST00000377656.2_Frame_Shift_Del_p.K199fs|CNTNAP3_ENST00000377659.1_Frame_Shift_Del_p.K199fs	NM_033655.3	NP_387504.2	Q9BZ76	CNTP3_HUMAN	contactin associated protein-like 3	199	Laminin G-like 1. {ECO:0000255|PROSITE- ProRule:PRU00122}.				cell adhesion (GO:0007155)|cell recognition (GO:0008037)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(1)|endometrium(3)|kidney(2)|large_intestine(5)|liver(2)|lung(8)|ovary(1)|upper_aerodigestive_tract(2)	24				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		GTTTTAAAGGTTTTTTATCAA	0.313																																																0													83	92	89					9																	39178299		2202	4294	6496	SO:0001589	frameshift_variant	79937			AF333769	CCDS6616.1	9q12	2008-02-05			ENSG00000106714	ENSG00000106714			13834	protein-coding gene	gene with protein product	"cell recognition molecule CASPR3 (FLJ14195, KIAA1714)"	610517				12093160	Standard	NM_033655		Approved	CASPR3, KIAA1714, FLJ14195, CNTNAP3A	uc004abi.3	Q9BZ76	OTTHUMG00000019954	ENST00000297668.6:c.597delA	9.37:g.39178299delT	ENSP00000297668:p.Lys199fs	Somatic		WXS	Illumina HiSeq	Phase_I	B1AMA0|Q9C0E9	Frame_Shift_Del	DEL	ENST00000297668.6	37	CCDS6616.1																																																																																				0.313	CNTNAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052511.1	NM_033655		-	39178299	T	-	39178299	7	5	628	1	0	1	0	1	0	0	0	0	3650	1722	60	0	3349	0	CNTNAP3	9	39178299	Frame_Shift_Del	DEL	T	TCGA-KL-8329-01A-11D-2310-10	4867517	39178299	102035132	38	38629										
C9orf79	286234	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr9	90502738	90502738	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gtggactcagaggagcagctGccaggccgtgccccgggcat	16	13	1	1			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr9:90502738G>T	ENST00000325643.5	+	4	3402	c.3336G>T	c.(3334-3336)ctG>ctT	p.L1112L		NM_178828.4	NP_849150.3	Q6ZUB1	S31E1_HUMAN	SPATA31 subfamily E, member 1	1112					cell differentiation (GO:0030154)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)											AGGAGCAGCTGCCAGGCCGTG	0.637																																																0													36	39	38					9																	90502738		2203	4300	6503	SO:0001819	synonymous_variant	286234			AK093185	CCDS6676.1	9q22.1-q22.2	2012-10-12	2012-10-12	2012-10-12	ENSG00000177992	ENSG00000177992			26672	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 79", "family with sequence similarity 75, member E1"	C9orf79, FAM75E1			Standard	NM_178828		Approved	FLJ35866	uc004app.4	Q6ZUB1	OTTHUMG00000020157	ENST00000325643.5:c.3336G>T	9.37:g.90502738G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RPB1|Q5SQC9|Q8NA41|Q8ND27	Silent	SNP	ENST00000325643.5	37	CCDS6676.1																																																																																				0.637	SPATA31E1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052954.2	NM_178828		T	90502738	G	T	90502738	2	4	628	1	0	0	0	0	0	0	0	1	2499	1306	46	4		4	C9orf79	9	90502738	Silent	SNP	G	TCGA-KL-8329-01A-11D-2310-10	51324439	90502738	50710693	39	38630										
KIAA1529	100499483	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	100126382	100126382	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tggagagaaagtaccgggtgCttggggacaagcctccccct	14	11	0	1			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr9:100126382C>T	ENST00000357054.1	+	41	4854	c.3919C>T	c.(3919-3921)Ctt>Ttt	p.L1307F	CCDC180_ENST00000529487.1_Missense_Mutation_p.L1362F|MIR1302-8_ENST00000408342.1_RNA|CCDC180_ENST00000375202.2_Missense_Mutation_p.L1362F|CCDC180_ENST00000395220.1_3'UTR|RP11-23J9.4_ENST00000534123.1_RNA			Q9P1Z9	CC180_HUMAN	coiled-coil domain containing 180	1307						extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)											GTACCGGGTGCTTGGGGACAA	0.557																																																0													58	51	54					9																	100126382		2203	4300	6503	SO:0001583	missense	100499483			AK123391	CCDS35077.1, CCDS35077.2	9q22.33	2013-03-08	2013-03-08	2013-03-08		ENSG00000197816			29303	protein-coding gene	gene with protein product	"Behcet's Disease Associated Gene 1"		"KIAA1529", "chromosome 9 open reading frame 174"	KIAA1529, C9orf174		10819331	Standard	NM_020893		Approved	DKFZp434I2420, BDAG1	uc004axg.2	Q9P1Z9	OTTHUMG00000167001	ENST00000357054.1:c.3919C>T	9.37:g.100126382C>T	ENSP00000349562:p.Leu1307Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q2KHR6|Q5VV25|Q68DP5|Q69YV9|Q6AHY0	Missense_Mutation	SNP	ENST00000357054.1	37		.	.	.	.	.	.	.	.	.	.	C	6.712	0.500137	0.12762	.	.	ENSG00000197816	ENST00000357054;ENST00000375202;ENST00000529487	T;T;T	0.05717	3.4;3.46;3.46	4.72	3.81	0.43845	.	0.225624	0.34362	N	0.004021	T	0.04407	0.0121	L	0.35288	1.05	0.80722	D	1	B;B	0.23854	0.043;0.092	B;B	0.20184	0.019;0.028	T	0.35351	-0.9792	10	0.10111	T	0.7	-12.1648	7.8778	0.29603	0.0:0.8917:0.0:0.1083	.	1501;1307	B7ZMG3;Q9P1Z9	.;CI174_HUMAN	F	1307;1362;1362	ENSP00000349562:L1307F;ENSP00000364348:L1362F;ENSP00000434727:L1362F	ENSP00000349562:L1307F	L	+	1	0	C9orf174	99166203	0.981000	0.34729	0.992000	0.48379	0.518000	0.34316	1.281000	0.33214	2.560000	0.86352	0.655000	0.94253	CTT		0.557	CCDC180-201	KNOWN	basic	protein_coding	protein_coding		NM_020893		T	100126382	C	T	100126382	3	4	628	1	0	0	0	0	1	0	0	0	8247	797	28	2	4037	2	KIAA1529	9	100126382	Missense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10	9623644	100126382	41087049	40	38631										
OR13C5	138799	mdanderson.org	37	chr9	107361111	107361111	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tcacaagcaggatgaactcaTtgcctgagatgtcagcacag	10	10	3	2	rs6479259	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr9:107361111T>C	ENST00000374779.2	-	1	677	c.584A>G	c.(583-585)aAt>aGt	p.N195S		NM_001004482.1	NP_001004482.1	Q8NGS8	O13C5_HUMAN	olfactory receptor, family 13, subfamily C, member 5	195			N -> S (in dbSNP:rs6479259).			integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(4)|kidney(1)|large_intestine(2)|lung(11)|ovary(2)|pancreas(2)|prostate(2)|skin(4)	28						GATGAACTCATTGCCTGAGAT	0.373													T|||	669	0.133586	0.3676	0.0504	5008	,	,		24620	0.0704		0.007	False		,,,				2504	0.0716															0								T	SER/ASN	1329,3077	446.5+/-348.0	197,935,1071	191	175	180		584	-4.1	0	9	dbSNP_116	180	35,8565	24.0+/-70.4	0,35,4265	yes	missense	OR13C5	NM_001004482.1	46	197,970,5336	CC,CT,TT		0.407,30.1634,10.4875	probably-damaging	195/319	107361111	1364,11642	2203	4300	6503	SO:0001583	missense	138799				CCDS35091.1	9q31.1	2012-10-03			ENSG00000255800	ENSG00000277556		"GPCR / Class A : Olfactory receptors"	15100	protein-coding gene	gene with protein product							Standard	NM_001004482		Approved		uc011lvp.2	Q8NGS8	OTTHUMG00000020408	ENST00000374779.2:c.584A>G	9.37:g.107361111T>C	ENSP00000363911:p.Asn195Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNE5|B9EGW5|Q6IF53	Missense_Mutation	SNP	ENST00000374779.2	37	CCDS35091.1	202	0.0924908424908425	155	0.3150406504065041	8	0.022099447513812154	35	0.06118881118881119	4	0.005277044854881266	T	15.48	2.846604	0.51164	0.301634	0.00407	ENSG00000255800	ENST00000374779	T	0.00211	8.54	4.17	-4.11	0.03928	GPCR, rhodopsin-like superfamily (1);	0.000000	0.39407	U	0.001380	T	0.00012	0.0000	L	0.58101	1.795	0.80722	P	0.0	D	0.59357	0.985	D	0.63283	0.913	T	0.43442	-0.9391	9	0.62326	D	0.03	.	10.4853	0.44717	0.6686:0.0:0.0:0.3314	rs6479259;rs52801984;rs6479259	195	Q8NGS8	O13C5_HUMAN	S	195	ENSP00000363911:N195S	ENSP00000363911:N195S	N	-	2	0	OR13C5	106400932	0.000000	0.05858	0.000000	0.03702	0.315000	0.28087	-0.658000	0.05329	-1.031000	0.03308	0.433000	0.28618	AAT		0.373	OR13C5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053479.2	NM_001004482		C	107361111	T	C	107361111	3	2	628	1	0	0	0	0	1	0	0	0	10944	1493	52	3	374	3	OR13C5	9	107361111	Missense_Mutation	SNP	T	TCGA-KL-8329-01A-11D-2310-10	7234729	107361111	33852320	41	38632										
ZNF462	58499	broad.mit.edu	37	chr9	109690574	109690575	+	Frame_Shift_Ins	INS	-	-	C													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	aagcctgcagctagcttcagINSccaaccccgccatatcctcc					rs76760064		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr9:109690574_109690575insC	ENST00000277225.5	+	3	4670_4671	c.4381_4382insC	c.(4381-4383)gccfs	p.A1461fs	ZNF462_ENST00000457913.1_Frame_Shift_Ins_p.A1461fs|ZNF462_ENST00000441147.2_Frame_Shift_Ins_p.A306fs			Q96JM2	ZN462_HUMAN	zinc finger protein 462	1461					chromatin organization (GO:0006325)|negative regulation of DNA binding (GO:0043392)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(2)|autonomic_ganglia(2)|breast(5)|central_nervous_system(4)|cervix(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(17)|large_intestine(20)|lung(32)|ovary(5)|prostate(6)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	119						GCTAGCTTCAGCCAACCCCGCC	0.52																																																0																																										SO:0001589	frameshift_variant	58499			AB058706	CCDS35096.1	9q31.3	2008-02-05			ENSG00000148143	ENSG00000148143		"Zinc fingers, C2H2-type"	21684	protein-coding gene	gene with protein product							Standard	NM_021224		Approved	DKFZP762N2316, KIAA1803, Zfp462	uc004bcz.3	Q96JM2	OTTHUMG00000020438	ENST00000277225.5:c.4383dupC	9.37:g.109690576_109690576dupC	ENSP00000277225:p.Ala1461fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T0T4|Q8N408	Frame_Shift_Ins	INS	ENST00000277225.5	37	CCDS35096.1																																																																																				0.52	ZNF462-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000053532.2	NM_021224		C	109690575	-	C	109690574	7	5	628	1	0	1	1	0	0	0	0	0	17938	971	34	0	4387	0	ZNF462	9	109690574	Frame_Shift_Ins	INS	-	TCGA-KL-8329-01A-11D-2310-10	2329463	109690574	31522857	42	38633										
COL27A1	85301	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr9	117052528	117052528	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tgcaggggctgccagggcccCggggcgtggtggggagacag	22	10	0	1	rs200170613		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr9:117052528C>T	ENST00000356083.3	+	47	4676	c.4285C>T	c.(4285-4287)Cgg>Tgg	p.R1429W		NM_032888.2	NP_116277.2	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1	1429	Collagen-like 13.|Pro-rich.|Triple-helical region.				extracellular matrix organization (GO:0030198)	endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|fibrillar collagen trimer (GO:0005583)	extracellular matrix structural constituent (GO:0005201)|metal ion binding (GO:0046872)			central_nervous_system(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(17)|lung(30)|ovary(4)|prostate(6)|skin(3)|soft_tissue(1)|stomach(1)|urinary_tract(3)	80						GCCAGGGCCCCGGGGCGTGGT	0.692													C|||	1	0.000199681	0.0	0.0	5008	,	,		12464	0.0		0.0	False		,,,				2504	0.001															0								C	TRP/ARG	0,4344		0,0,2172	11	11	11		4285	3.4	0.9	9		11	2,8506		0,2,4252	no	missense	COL27A1	NM_032888.2	101	0,2,6424	TT,TC,CC		0.0235,0.0,0.0156	probably-damaging	1429/1861	117052528	2,12850	2172	4254	6426	SO:0001583	missense	85301			AB058773	CCDS6802.1	9q33.1	2013-01-16			ENSG00000196739	ENSG00000196739		"Collagens"	22986	protein-coding gene	gene with protein product		608461				12766169	Standard	NM_032888		Approved	KIAA1870, MGC11337, FLJ11895	uc011lxl.2	Q8IZC6	OTTHUMG00000020537	ENST00000356083.3:c.4285C>T	9.37:g.117052528C>T	ENSP00000348385:p.Arg1429Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q66K43|Q96JF7	Missense_Mutation	SNP	ENST00000356083.3	37	CCDS6802.1	.	.	.	.	.	.	.	.	.	.	C	17.31	3.357598	0.61293	0.0	2.35E-4	ENSG00000196739	ENST00000356083;ENST00000357257	D	0.96200	-3.94	5.32	3.4	0.38934	.	.	.	.	.	D	0.97232	0.9095	M	0.92507	3.315	0.40675	D	0.982257	D	0.76494	0.999	P	0.54856	0.762	D	0.96917	0.9671	9	0.72032	D	0.01	.	11.5638	0.50794	0.5039:0.4961:0.0:0.0	.	1429	Q8IZC6	CORA1_HUMAN	W	1429	ENSP00000348385:R1429W	ENSP00000348385:R1429W	R	+	1	2	COL27A1	116092349	0.123000	0.22298	0.933000	0.37362	0.691000	0.40173	0.324000	0.19610	0.537000	0.28751	0.491000	0.48974	CGG		0.692	COL27A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053763.1	NM_032888		T	117052528	C	T	117052528	3	4	628	1	0	0	0	0	1	0	0	0	3687	643	23	1	4471	1	COL27A1	9	117052528	Missense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10	7361954	117052528	24160903	43	38634										
TNC	3371	broad.mit.edu	37	chr9	117838693	117838694	+	Frame_Shift_Ins	INS	-	-	T													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	agtgtggttttggttgtggcINSttgttggctctttggaacat							TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr9:117838693_117838694insT	ENST00000350763.4	-	8	3246_3247	c.2835_2836insA	c.(2833-2838)caagccfs	p.A946fs	TNC_ENST00000346706.3_Frame_Shift_Ins_p.A946fs|TNC_ENST00000345230.3_Frame_Shift_Ins_p.A946fs|TNC_ENST00000341037.4_Frame_Shift_Ins_p.A946fs|TNC_ENST00000535648.1_Frame_Shift_Ins_p.A946fs|TNC_ENST00000537320.1_Frame_Shift_Ins_p.A946fs|TNC_ENST00000423613.2_Frame_Shift_Ins_p.A946fs|TNC_ENST00000340094.3_Frame_Shift_Ins_p.A946fs|TNC_ENST00000542877.1_Frame_Shift_Ins_p.A946fs	NM_002160.3	NP_002151.2	P24821	TENA_HUMAN	tenascin C	946	Fibronectin type-III 4. {ECO:0000255|PROSITE-ProRule:PRU00316}.				bud outgrowth involved in lung branching (GO:0060447)|cell adhesion (GO:0007155)|cellular response to prostaglandin D stimulus (GO:0071799)|cellular response to retinoic acid (GO:0071300)|cellular response to vitamin D (GO:0071305)|extracellular matrix organization (GO:0030198)|mesenchymal-epithelial cell signaling involved in prostate gland development (GO:0060739)|negative regulation of cell adhesion (GO:0007162)|neuromuscular junction development (GO:0007528)|odontogenesis of dentin-containing tooth (GO:0042475)|osteoblast differentiation (GO:0001649)|peripheral nervous system axon regeneration (GO:0014012)|positive regulation of cell proliferation (GO:0008284)|positive regulation of gene expression (GO:0010628)|prostate gland epithelium morphogenesis (GO:0060740)|response to ethanol (GO:0045471)|response to fibroblast growth factor (GO:0071774)|response to mechanical stimulus (GO:0009612)|response to wounding (GO:0009611)|wound healing (GO:0042060)	basement membrane (GO:0005604)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|focal adhesion (GO:0005925)|interstitial matrix (GO:0005614)|membrane (GO:0016020)	syndecan binding (GO:0045545)			NS(3)|breast(5)|central_nervous_system(4)|endometrium(8)|kidney(6)|large_intestine(32)|liver(1)|lung(39)|ovary(1)|pancreas(2)|prostate(5)|skin(5)|stomach(5)|upper_aerodigestive_tract(2)|urinary_tract(2)	120						TTGGTTGTGGCTTGTTGGCTCT	0.535																																																0																																										SO:0001589	frameshift_variant	3371				CCDS6811.1	9q33.1	2014-01-28	2008-07-31	2002-06-07	ENSG00000041982	ENSG00000041982		"Fibrinogen C domain containing", "Fibronectin type III domain containing"	5318	protein-coding gene	gene with protein product	"hexabrachion (tenascin)"	187380	"hexabrachion (tenascin C, cytotactin)", "deafness, autosomal dominant 56"	HXB, DFNA56		1704365, 1707164, 23936043	Standard	NM_002160		Approved	TN, MGC167029	uc004bjj.4	P24821	OTTHUMG00000021010	ENST00000350763.4:c.2836dupA	9.37:g.117838695_117838695dupT	ENSP00000265131:p.Ala946fs	Somatic		WXS	Illumina HiSeq	Phase_I	C9IYT7|C9J575|C9J6D9|C9J848|Q14583|Q15567|Q5T7S3	Frame_Shift_Ins	INS	ENST00000350763.4	37	CCDS6811.1																																																																																				0.535	TNC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055418.2	NM_002160		T	117838694	-	T	117838693	7	5	628	1	0	1	1	0	0	0	0	0	16282	797	28	0	3853	0	TNC	9	117838693	Frame_Shift_Ins	INS	-	TCGA-KL-8329-01A-11D-2310-10	786165	117838693	23374738	44	38635										
OR1Q1	158131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	125377830	125377830	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gctattcagtgaccaagggtCgcattataacagtcgtgtac	10	9	1	1			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr9:125377830C>T	ENST00000297913.2	+	1	883	c.814C>T	c.(814-816)Cgc>Tgc	p.R272C	RP11-64P14.7_ENST00000431442.1_RNA	NM_012364.1	NP_036496.1	Q15612	OR1Q1_HUMAN	olfactory receptor, family 1, subfamily Q, member 1	272					detection of chemical stimulus involved in sensory perception of smell (GO:0050911)|sensory perception of smell (GO:0007608)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(9)|ovary(1)|prostate(1)|skin(2)	17						GACCAAGGGTCGCATTATAAC	0.527																																																0													66	64	65					9																	125377830		2203	4300	6503	SO:0001583	missense	158131				CCDS35125.1	9q33.2	2013-09-20			ENSG00000165202	ENSG00000165202		"GPCR / Class A : Olfactory receptors"	8223	protein-coding gene	gene with protein product				OR1Q2, OR1Q3			Standard	NM_012364		Approved	OST226, OR9-A, HSTPCR106, OST226OR9-A, TPCR106	uc011lyy.2	Q15612	OTTHUMG00000020615	ENST00000297913.2:c.814C>T	9.37:g.125377830C>T	ENSP00000297913:p.Arg272Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFN4|Q8NGR7|Q96R82	Missense_Mutation	SNP	ENST00000297913.2	37	CCDS35125.1	.	.	.	.	.	.	.	.	.	.	C	11.21	1.572804	0.28092	.	.	ENSG00000165202	ENST00000297913	T	0.00130	8.69	5.57	4.67	0.58626	GPCR, rhodopsin-like superfamily (1);	0.000000	0.50627	D	0.000117	T	0.00552	0.0018	M	0.88640	2.97	0.19300	N	0.99997	D	0.89917	1.0	D	0.78314	0.991	T	0.29397	-1.0013	10	0.66056	D	0.02	-7.5851	13.5884	0.61944	0.1563:0.8437:0.0:0.0	.	272	Q15612	OR1Q1_HUMAN	C	272	ENSP00000297913:R272C	ENSP00000297913:R272C	R	+	1	0	OR1Q1	124417651	0.000000	0.05858	0.103000	0.21229	0.226000	0.24999	0.473000	0.22132	1.569000	0.49696	0.650000	0.86243	CGC		0.527	OR1Q1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053946.1			T	125377830	C	T	125377830	3	4	628	1	0	0	0	0	1	0	0	0	10978	884	31	1	816	1	OR1Q1	9	125377830	Missense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10	7539137	125377830	15835601	45	38636										
NR5A1	2516	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr9	127262905	127262905	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gaagccattggcccgaatctGtgccttcttctgctgtttca	9	12	4	0			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr9:127262905G>T	ENST00000373588.4	-	4	530	c.334C>A	c.(334-336)Cag>Aag	p.Q112K		NM_004959.4	NP_004950.2	Q13285	STF1_HUMAN	nuclear receptor subfamily 5, group A, member 1	112					adrenal gland development (GO:0030325)|cell differentiation (GO:0030154)|cell-cell signaling (GO:0007267)|gene expression (GO:0010467)|hormone metabolic process (GO:0042445)|intracellular receptor signaling pathway (GO:0030522)|luteinization (GO:0001553)|maintenance of protein location in nucleus (GO:0051457)|male gonad development (GO:0008584)|multicellular organismal aging (GO:0010259)|negative regulation of female gonad development (GO:2000195)|positive regulation of male gonad development (GO:2000020)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|primary sex determination (GO:0007538)|regulation of steroid biosynthetic process (GO:0050810)|tissue development (GO:0009888)|transcription initiation from RNA polymerase II promoter (GO:0006367)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|double-stranded DNA binding (GO:0003690)|enzyme binding (GO:0019899)|ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|phospholipid binding (GO:0005543)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding (GO:0043565)|steroid hormone receptor activity (GO:0003707)|transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)			lung(1)|upper_aerodigestive_tract(1)	2						GCCCGAATCTGTGCCTTCTTC	0.677																																																0													38	41	40					9																	127262905		2138	4122	6260	SO:0001583	missense	2516			D88155	CCDS6856.1	9q33	2013-01-16			ENSG00000136931	ENSG00000136931		"Nuclear hormone receptors"	7983	protein-coding gene	gene with protein product		184757		FTZF1		7789992	Standard	NM_004959		Approved	FTZ1, SF-1, ELP, AD4BP	uc004boo.1	Q13285	OTTHUMG00000020655	ENST00000373588.4:c.334C>A	9.37:g.127262905G>T	ENSP00000362690:p.Gln112Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O15196|Q5T6F5	Missense_Mutation	SNP	ENST00000373588.4	37	CCDS6856.1	.	.	.	.	.	.	.	.	.	.	G	12.56	1.974805	0.34848	.	.	ENSG00000136931	ENST00000373588;ENST00000455734	D;D	0.93906	-3.31;-3.31	4.54	2.67	0.31697	Nuclear hormone receptor, ligand-binding (1);	0.218465	0.38778	N	0.001565	D	0.84151	0.5409	L	0.29908	0.895	0.28408	N	0.91831	B	0.06786	0.001	B	0.04013	0.001	T	0.67405	-0.5679	10	0.05525	T	0.97	.	7.0038	0.24826	0.2787:0.0:0.7213:0.0	.	112	Q13285	STF1_HUMAN	K	112	ENSP00000362690:Q112K;ENSP00000393245:Q112K	ENSP00000362690:Q112K	Q	-	1	0	NR5A1	126302726	1.000000	0.71417	0.998000	0.56505	0.998000	0.95712	2.343000	0.44001	0.897000	0.36392	0.561000	0.74099	CAG		0.677	NR5A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054029.1	NM_004959		T	127262905	G	T	127262905	3	4	628	1	0	0	0	0	1	0	0	0	10642	1386	48	4	1067	4	NR5A1	9	127262905	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10	1885075	127262905	13950526	46	38637										
OBP2B	29989	mdanderson.org	37	chr9	136083528	136083528	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ggaggggctcacaggcgctgTatttgccaggctcctccgtc	14	13	1	0	rs3192921	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr9:136083528T>A	ENST00000372034.3	-	3	310	c.269A>T	c.(268-270)tAc>tTc	p.Y90F	OBP2B_ENST00000461961.1_5'UTR|OBP2B_ENST00000372032.2_Silent_p.I45I	NM_014581.2	NP_055396.1	Q9NPH6	OBP2B_HUMAN	odorant binding protein 2B	90					chemosensory behavior (GO:0007635)|sensory perception of smell (GO:0007608)|transport (GO:0006810)	extracellular region (GO:0005576)	odorant binding (GO:0005549)			central_nervous_system(2)|large_intestine(1)|lung(3)|skin(1)	7				OV - Ovarian serous cystadenocarcinoma(145;3.41e-06)|Epithelial(140;1.88e-05)		ACAGGCGCTGTATTTGCCAGG	0.642																																																0													60	58	59					9																	136083528		2203	4300	6503	SO:0001583	missense	29989			AJ251026	CCDS6961.1	9q34	2014-01-22			ENSG00000171102	ENSG00000171102		"Lipocalins"	23381	protein-coding gene	gene with protein product		604606					Standard	NM_001288987		Approved	hOBPIIb, LCN14	uc004ccz.3	Q9NPH6	OTTHUMG00000020860	ENST00000372034.3:c.269A>T	9.37:g.136083528T>A	ENSP00000361104:p.Tyr90Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VSP6|Q9NY51|Q9NY52	Missense_Mutation	SNP	ENST00000372034.3	37	CCDS6961.1	.	.	.	.	.	.	.	.	.	.	A	0.025	-1.376984	0.01214	.	.	ENSG00000171102	ENST00000372034	T	0.06849	3.25	1.91	0.679	0.17975	Calycin-like (1);Lipocalin/cytosolic fatty-acid binding protein domain (1);Calycin (1);	0.188123	0.26062	N	0.026576	T	0.04543	0.0124	N	0.24115	0.695	0.19945	N	0.999945	B	0.33000	0.393	B	0.37731	0.257	T	0.39881	-0.9592	10	0.02654	T	1	-47.8449	5.6514	0.17618	0.2549:0.0:0.0:0.7451	rs3192921;rs17417803	90	Q9NPH6	OBP2B_HUMAN	F	90	ENSP00000361104:Y90F	ENSP00000361104:Y90F	Y	-	2	0	OBP2B	135073349	0.001000	0.12720	0.123000	0.21794	0.003000	0.03518	-0.353000	0.07691	-0.219000	0.10003	-1.992000	0.00449	TAC		0.642	OBP2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054851.1	NM_014581		A	136083528	T	A	136083528	3	1	628	1	0	0	0	0	1	0	0	0	10818	1638	57	5	259	5	OBP2B	9	136083528	Missense_Mutation	SNP	T	TCGA-KL-8329-01A-11D-2310-10	8820623	136083528	5129903	47	38638										
CSGALNACT2	55454	mdanderson.org	37	chr10	43659338	43659339	+	Missense_Mutation	DNP	CT	CT	TG													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tctaattttcacaattacacCttggtctcattgaatgaaga					rs114078794|rs78146682	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr10:43659338_43659339CT>TG	ENST00000374466.3	+	5	1340_1341	c.1005_1006CT>TG	c.(1003-1008)acCTtg>acTGtg	p.L336V		NM_018590.3	NP_061060.3	Q8N6G5	CGAT2_HUMAN	chondroitin sulfate N-acetylgalactosaminyltransferase 2	336					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|chondroitin sulfate proteoglycan biosynthetic process (GO:0050650)|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050653)|dermatan sulfate proteoglycan biosynthetic process (GO:0050651)|dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050652)|glycosaminoglycan metabolic process (GO:0030203)|proteoglycan biosynthetic process (GO:0030166)|small molecule metabolic process (GO:0044281)	Golgi cisterna membrane (GO:0032580)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)|membrane (GO:0016020)	acetylgalactosaminyltransferase activity (GO:0008376)|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity (GO:0047237)|metal ion binding (GO:0046872)	p.T335T(3)		endometrium(12)|kidney(3)|large_intestine(5)|lung(16)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	42						ACAATTACACCTTGGTCTCATT	0.401																																																3	Substitution - coding silent(3)	endometrium(3)																																								SO:0001583	missense	55454			AF116646	CCDS7201.1	10q11.21	2013-02-19			ENSG00000169826	ENSG00000169826		"Beta 4-glycosyltransferases"	24292	protein-coding gene	gene with protein product	"chondroitin beta1,4 N-acetylgalactosaminyltransferase 2"					12446672	Standard	NM_018590		Approved	GALNACT2, MGC40204, PRO0082, GALNACT-2	uc001jan.4	Q8N6G5	OTTHUMG00000018023	Exception_encountered	10.37:g.43659338_43659339delinsTG	ENSP00000363590:p.Leu336Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWL7|Q6MZJ5|Q6MZP6|Q8TCH4|Q9P1I6	Missense_Mutation	DNP	ENST00000374466.3	37	CCDS7201.1																																																																																				0.401	CSGALNACT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047693.1	NM_018590		TG	43659339	CT	TG	43659338	3	4	628	1	0	0	0	0	1	0	0	0	3941	668	24	2	1019	2	CSGALNACT2	10	43659338	Missense_Mutation	DNP	CT	TCGA-KL-8329-01A-11D-2310-10		43659338	91875409	48	38639										
CSGALNACT2	55454	mdanderson.org	37	chr10	43659372	43659372	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	atgaagaatttaatcgtggaCgaggactaaatgtgggtgcc	13	5	0	2	rs76607193	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr10:43659372C>T	ENST00000374466.3	+	5	1374	c.1039C>T	c.(1039-1041)Cga>Tga	p.R347*		NM_018590.3	NP_061060.3	Q8N6G5	CGAT2_HUMAN	chondroitin sulfate N-acetylgalactosaminyltransferase 2	347					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|chondroitin sulfate proteoglycan biosynthetic process (GO:0050650)|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050653)|dermatan sulfate proteoglycan biosynthetic process (GO:0050651)|dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050652)|glycosaminoglycan metabolic process (GO:0030203)|proteoglycan biosynthetic process (GO:0030166)|small molecule metabolic process (GO:0044281)	Golgi cisterna membrane (GO:0032580)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)|membrane (GO:0016020)	acetylgalactosaminyltransferase activity (GO:0008376)|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity (GO:0047237)|metal ion binding (GO:0046872)	p.R347*(1)		endometrium(12)|kidney(3)|large_intestine(5)|lung(16)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	42						TAATCGTGGACGAGGACTAAA	0.408																																																1	Substitution - Nonsense(1)	skin(1)											191	181	184					10																	43659372		2203	4300	6503	SO:0001587	stop_gained	55454			AF116646	CCDS7201.1	10q11.21	2013-02-19			ENSG00000169826	ENSG00000169826		"Beta 4-glycosyltransferases"	24292	protein-coding gene	gene with protein product	"chondroitin beta1,4 N-acetylgalactosaminyltransferase 2"					12446672	Standard	NM_018590		Approved	GALNACT2, MGC40204, PRO0082, GALNACT-2	uc001jan.4	Q8N6G5	OTTHUMG00000018023	ENST00000374466.3:c.1039C>T	10.37:g.43659372C>T	ENSP00000363590:p.Arg347*	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWL7|Q6MZJ5|Q6MZP6|Q8TCH4|Q9P1I6	Nonsense_Mutation	SNP	ENST00000374466.3	37	CCDS7201.1	.	.	.	.	.	.	.	.	.	.	C	41	8.712957	0.98925	.	.	ENSG00000169826	ENST00000374466	.	.	.	6.08	4.19	0.49359	.	0.110120	0.64402	D	0.000005	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.08599	T	0.76	-3.2438	15.5126	0.75795	0.253:0.747:0.0:0.0	.	.	.	.	X	347	.	ENSP00000363590:R347X	R	+	1	2	CSGALNACT2	42979378	0.998000	0.40836	1.000000	0.80357	0.999000	0.98932	1.226000	0.32563	0.852000	0.35287	0.591000	0.81541	CGA		0.408	CSGALNACT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047693.1	NM_018590		T	43659372	C	T	43659372	4	4	628	1	0	0	0	0	0	1	0	0	3941	528	19	1	1053	1	CSGALNACT2	10	43659372	Nonsense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10	34	43659372	91875375	49	38640										
ZNF365	22891	hgsc.bcm.edu;ucsc.edu	37	chr10	64415147	64415147	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tcaacacatctaaagaagccActgatgaaacaggctccccc	6	14	2	3			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr10:64415147A>T	ENST00000395251.1	+	4	481	c.147A>T	c.(145-147)ccA>ccT	p.P49P	ZNF365_ENST00000395249.1_Intron|ZNF365_ENST00000410046.3_Intron|AC067751.1_ENST00000579246.1_RNA	NM_199452.3	NP_955524	Q70YC4	TALAN_HUMAN	zinc finger protein 365	49										breast(1)|endometrium(6)|kidney(1)|large_intestine(5)|lung(7)|ovary(2)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	27	Prostate(12;0.0297)|all_hematologic(501;0.228)					TAAAGAAGCCACTGATGAAAC	0.478																																																0													72	68	70					10																	64415147		2203	4300	6503	SO:0001819	synonymous_variant	22891			AB020651	CCDS7264.1, CCDS7265.1, CCDS31209.1, CCDS41531.1	10q21.2	2008-10-28			ENSG00000138311	ENSG00000138311		"Zinc fingers, C2H2-type"	18194	protein-coding gene	gene with protein product	"Talanin"	607818				10048485, 12740763	Standard	NM_199450		Approved	KIAA0844, UAN	uc001jmc.2	Q70YC4	OTTHUMG00000018302	ENST00000395251.1:c.147A>T	10.37:g.64415147A>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000395251.1	37	CCDS7265.1																																																																																				0.478	ZNF365-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000277036.1	NM_014951		T	64415147	A	T	64415147	2	4	628	1	0	0	0	0	0	0	0	1	17881	146	6	5		5	ZNF365	10	64415147	Silent	SNP	A	TCGA-KL-8329-01A-11D-2310-10	20755775	64415147	71119600	50	38641										
PTEN	5728	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr10	89717769	89717769	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ccacaaacagaacaagatgcTaaaaaaggtttgtactttac	6	8	0	2	rs121913289		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr10:89717769T>A	ENST00000371953.3	+	7	2151	c.794T>A	c.(793-795)cTa>cAa	p.L265Q	PTEN_ENST00000472832.1_3'UTR	NM_000314.4	NP_000305.3	P60484	PTEN_HUMAN	phosphatase and tensin homolog	265	C2 tensin-type. {ECO:0000255|PROSITE- ProRule:PRU00589}.				activation of mitotic anaphase-promoting complex activity (GO:0007092)|aging (GO:0007568)|angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|brain morphogenesis (GO:0048854)|canonical Wnt signaling pathway (GO:0060070)|cardiac muscle tissue development (GO:0048738)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|central nervous system development (GO:0007417)|central nervous system myelin maintenance (GO:0032286)|central nervous system neuron axonogenesis (GO:0021955)|dendritic spine morphogenesis (GO:0060997)|dentate gyrus development (GO:0021542)|endothelial cell migration (GO:0043542)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|forebrain morphogenesis (GO:0048853)|heart development (GO:0007507)|innate immune response (GO:0045087)|inositol phosphate dephosphorylation (GO:0046855)|inositol phosphate metabolic process (GO:0043647)|learning or memory (GO:0007611)|locomotor rhythm (GO:0045475)|locomotory behavior (GO:0007626)|long term synaptic depression (GO:0060292)|long-term synaptic potentiation (GO:0060291)|male mating behavior (GO:0060179)|maternal behavior (GO:0042711)|memory (GO:0007613)|multicellular organismal response to stress (GO:0033555)|negative regulation of apoptotic process (GO:0043066)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell aging (GO:0090344)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031658)|negative regulation of dendritic spine morphogenesis (GO:0061002)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of myelination (GO:0031642)|negative regulation of organ growth (GO:0046621)|negative regulation of phagocytosis (GO:0050765)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of ribosome biogenesis (GO:0090071)|negative regulation of synaptic vesicle clustering (GO:2000808)|neuron-neuron synaptic transmission (GO:0007270)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell proliferation (GO:0008284)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|postsynaptic density assembly (GO:0097107)|prepulse inhibition (GO:0060134)|presynaptic membrane assembly (GO:0097105)|prostate gland growth (GO:0060736)|protein dephosphorylation (GO:0006470)|protein kinase B signaling (GO:0043491)|protein stabilization (GO:0050821)|regulation of B cell apoptotic process (GO:0002902)|regulation of cellular component size (GO:0032535)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of myeloid cell apoptotic process (GO:0033032)|regulation of neuron projection development (GO:0010975)|regulation of protein stability (GO:0031647)|response to arsenic-containing substance (GO:0046685)|response to ATP (GO:0033198)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to ethanol (GO:0045471)|response to glucose (GO:0009749)|response to nutrient (GO:0007584)|response to zinc ion (GO:0010043)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synapse maturation (GO:0060074)|T cell receptor signaling pathway (GO:0050852)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|extracellular region (GO:0005576)|mitochondrion (GO:0005739)|myelin sheath adaxonal region (GO:0035749)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|Schmidt-Lanterman incisure (GO:0043220)	anaphase-promoting complex binding (GO:0010997)|enzyme binding (GO:0019899)|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity (GO:0051717)|lipid binding (GO:0008289)|magnesium ion binding (GO:0000287)|PDZ domain binding (GO:0030165)|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity (GO:0016314)|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity (GO:0051800)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|phosphoprotein phosphatase activity (GO:0004721)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)	p.0?(37)|p.R55fs*1(5)|p.N212fs*1(2)|p.Y27fs*1(2)|p.M264fs*8(2)|p.G165_*404del(1)|p.?(1)|p.D268fs*30(1)		NS(28)|autonomic_ganglia(2)|biliary_tract(6)|bone(5)|breast(92)|central_nervous_system(676)|cervix(26)|endometrium(1068)|eye(8)|haematopoietic_and_lymphoid_tissue(137)|kidney(24)|large_intestine(98)|liver(20)|lung(91)|meninges(2)|oesophagus(2)|ovary(82)|pancreas(6)|prostate(129)|salivary_gland(5)|skin(127)|soft_tissue(19)|stomach(30)|testis(1)|thyroid(29)|upper_aerodigestive_tract(29)|urinary_tract(12)|vulva(17)	2771		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		AACAAGATGCTAAAAAAGGTT	0.348		31	"D, Mis, N, F, S"		"glioma,  prostate, endometrial"	"harmartoma, glioma,  prostate, endometrial"			Proteus syndrome;Juvenile Polyposis;Hereditary Mixed Polyposis Syndrome type 1;Cowden syndrome;Bannayan-Riley-Ruvalcaba syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)																												yes	Rec	yes	"Cowden Syndrome, Bannayan-Riley-Ruvalcaba syndrome"	10	10q23.3	5728	phosphatase and tensin homolog gene		"L, E, M, O"	51	Whole gene deletion(37)|Deletion - Frameshift(11)|Deletion - In frame(1)|Insertion - Frameshift(1)|Unknown(1)	prostate(16)|central_nervous_system(10)|skin(6)|lung(4)|ovary(4)|haematopoietic_and_lymphoid_tissue(3)|breast(3)|endometrium(2)|urinary_tract(2)|soft_tissue(1)											83	77	79					10																	89717769		2203	4300	6503	SO:0001583	missense	5728	Familial Cancer Database	Incl.: Encephalocraniocutaneous Lipomatosis, ECCL, Proteus-like s.;incl.: Juvenile Polyposis of the Stomach;HMPS1, Colorectal Adenoma Carcinoma syndrome, CRAC, CRAC1;CS, Cowden disease, Multiple Hamartoma Syndrome, incl.: Lhermitte-Duclos; part of PTEN hamartoma tumour syndrome (PHTS) / PTEN-MATCHS, Cowden-like syndrome;subset of PTEN-Hamartoma Tumor Syndrome; incl.: Ruvalcaba-Myhre-Smith s.	U92436	CCDS31238.1	10q23	2014-09-17	2008-07-31		ENSG00000171862	ENSG00000171862		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs"	9588	protein-coding gene	gene with protein product	"mutated in multiple advanced cancers 1"	601728		BZS, MHAM		9090379	Standard	NM_000314		Approved	MMAC1, TEP1, PTEN1	uc001kfb.3	P60484	OTTHUMG00000018688	ENST00000371953.3:c.794T>A	10.37:g.89717769T>A	ENSP00000361021:p.Leu265Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2R904|F2YHV0|O00633|O02679|Q6ICT7	Missense_Mutation	SNP	ENST00000371953.3	37	CCDS31238.1	.	.	.	.	.	.	.	.	.	.	T	17.38	3.374547	0.61735	.	.	ENSG00000171862	ENST00000371953	D	0.85339	-1.97	5.15	5.15	0.70609	Tensin phosphatase, C2 domain (2);C2 calcium/lipid-binding domain, CaLB (1);	0.111163	0.64402	D	0.000012	D	0.82346	0.5017	L	0.34521	1.04	0.48040	D	0.999571	B	0.33826	0.427	B	0.42827	0.399	T	0.79605	-0.1734	9	.	.	.	-6.9851	14.9657	0.71193	0.0:0.0:0.0:1.0	.	265	P60484	PTEN_HUMAN	Q	265	ENSP00000361021:L265Q	.	L	+	2	0	PTEN	89707749	1.000000	0.71417	0.998000	0.56505	0.994000	0.84299	7.661000	0.83786	1.928000	0.55862	0.477000	0.44152	CTA		0.348	PTEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049241.1	NM_000314		A	89717769	T	A	89717769	3	1	628	1	0	0	0	0	1	0	0	0	12748	1522	53	5	820	5	PTEN	10	89717769	Missense_Mutation	SNP	T	TCGA-KL-8329-01A-11D-2310-10	25302622	89717769	45816978	51	38642										
PDCD4	27250	ucsc.edu	37	chr10	112657808	112657808	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gcagaaagcgttttgtaagcGaaggagatggaggtcgtctt	15	5	1	2	rs148548339		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr10:112657808G>C	ENST00000280154.7	+	12	1646	c.1372G>C	c.(1372-1374)Gaa>Caa	p.E458Q	PDCD4_ENST00000393104.2_Missense_Mutation_p.E447Q|BBIP1_ENST00000605265.1_5'Flank|MIR4680_ENST00000580906.1_RNA	NM_001199492.1|NM_014456.4	NP_001186421.1|NP_055271.2	Q53EL6	PDCD4_HUMAN	programmed cell death 4 (neoplastic transformation inhibitor)	458					apoptotic process (GO:0006915)|cell aging (GO:0007569)|negative regulation of cell cycle (GO:0045786)|negative regulation of JUN kinase activity (GO:0043508)|negative regulation of transcription, DNA-templated (GO:0045892)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	RNA binding (GO:0003723)			breast(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(5)|ovary(1)|skin(1)	13		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.000526)|all cancers(201;0.00794)|BRCA - Breast invasive adenocarcinoma(275;0.125)		TTTTGTAAGCGAAGGAGATGG	0.303																																					Ovarian(115;1498 1603 9363 40056 40885)											0													86	90	89					10																	112657808		2203	4300	6503	SO:0001583	missense	27250			U83908	CCDS7567.1, CCDS44478.1	10q24	2008-08-01			ENSG00000150593	ENSG00000150593			8763	protein-coding gene	gene with protein product	"nuclear antigen H731"	608610				9759869	Standard	NM_014456		Approved	H731	uc001kzh.3	Q53EL6	OTTHUMG00000019048	ENST00000280154.7:c.1372G>C	10.37:g.112657808G>C	ENSP00000280154:p.Glu458Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCV4|B5ME91|O15501|Q5VZS6|Q6PJI5|Q8TAR5|Q99834	Missense_Mutation	SNP	ENST00000280154.7	37	CCDS7567.1	.	.	.	.	.	.	.	.	.	.	G	25.5	4.639851	0.87760	.	.	ENSG00000150593	ENST00000280154;ENST00000393104	T;T	0.58060	0.36;0.4	6.03	6.03	0.97812	.	0.000000	0.85682	D	0.000000	T	0.77253	0.4103	M	0.83384	2.64	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.999	T	0.78590	-0.2145	10	0.87932	D	0	-25.6209	20.5568	0.99304	0.0:0.0:1.0:0.0	.	444;458;447	B4DKX4;Q53EL6;B5ME91	.;PDCD4_HUMAN;.	Q	458;447	ENSP00000280154:E458Q;ENSP00000376816:E447Q	ENSP00000280154:E458Q	E	+	1	0	PDCD4	112647798	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.003000	0.93577	2.861000	0.98227	0.655000	0.94253	GAA		0.303	PDCD4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050361.1	NM_014456		C	112657808	G	C	112657808	3	2	628	1	0	0	0	0	1	0	0	0	11628	1059	37	4	1428	4	PDCD4	10	112657808	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10	22940039	112657808	22876939	52	38643										
MUC6	4588	mdanderson.org	37	chr11	1017966	1017966	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	aaggtggaacgtgagtgggaAgtgtggtctgagggtgtgat	20	2	1	3			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr11:1017966A>G	ENST00000421673.2	-	31	4885	c.4835T>C	c.(4834-4836)cTt>cCt	p.L1612P		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1612	Approximate repeats.|Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GTGAGTGGGAAGTGTGGTCTG	0.547																																																0													475	445	455					11																	1017966		2191	4283	6474	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4835T>C	11.37:g.1017966A>G	ENSP00000406861:p.Leu1612Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	A	5.280	0.237104	0.10023	.	.	ENSG00000184956	ENST00000421673	T	0.20738	2.05	2.39	-4.77	0.03219	.	.	.	.	.	T	0.15003	0.0362	L	0.49126	1.545	0.09310	N	1	B	0.26081	0.141	B	0.28305	0.088	T	0.34750	-0.9816	9	0.30078	T	0.28	.	4.2322	0.10608	0.4312:0.3355:0.2332:0.0	.	1612	Q6W4X9	MUC6_HUMAN	P	1612	ENSP00000406861:L1612P	ENSP00000406861:L1612P	L	-	2	0	MUC6	1007966	0.000000	0.05858	0.000000	0.03702	0.026000	0.11368	-1.263000	0.02850	-0.760000	0.04677	0.247000	0.18012	CTT		0.547	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		G	1017966	A	G	1017966	3	3	628	1	0	0	0	0	1	0	0	0	9987	72	3	3	2496	3	MUC6	11	1017966	Missense_Mutation	SNP	A	TCGA-KL-8329-01A-11D-2310-10		1017966	133988550	53	38644										
MUC5B	727897	broad.mit.edu	37	chr11	1264086	1264087	+	Frame_Shift_Ins	INS	-	-	C													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	cctccctgggcaccacctggINSacccgcctatcacagaccac							TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr11:1264086_1264087insC	ENST00000529681.1	+	31	6034_6035	c.5976_5977insC	c.(5977-5979)accfs	p.T1993fs	MUC5B_ENST00000447027.1_Frame_Shift_Ins_p.T1996fs|RP11-532E4.2_ENST00000532061.2_RNA	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	1993	11 X approximate tandem repeats, Ser/Thr- rich.|7 X Cys-rich subdomain repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		GCACCACCTGGACCCGCCTATC	0.634																																																0																																										SO:0001589	frameshift_variant	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		Exception_encountered	11.37:g.1264086_1264087insC	ENSP00000436812:p.Thr1993fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Frame_Shift_Ins	INS	ENST00000529681.1	37	CCDS44515.2																																																																																				0.634	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		C	1264087	-	C	1264086	7	5	628	1	0	1	1	0	0	0	0	0	9986	1183	41	0	6107	0	MUC5B	11	1264086	Frame_Shift_Ins	INS	-	TCGA-KL-8329-01A-11D-2310-10	246120	1264086	133742430	54	38645										
PIK3C2A	5286	broad.mit.edu	37	chr11	17121508	17121508	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gtaagttctggtaaccctgaAggaatcatctgtagaagaaa	10	6	3	3			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr11:17121508A>G	ENST00000265970.7	-	25	4016	c.4017T>C	c.(4015-4017)ccT>ccC	p.P1339P	PIK3C2A_ENST00000540361.1_Silent_p.P959P|PIK3C2A_ENST00000531428.1_5'UTR	NM_002645.2	NP_002636.2	O00443	P3C2A_HUMAN	phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 alpha	1339	PI3K/PI4K. {ECO:0000255|PROSITE- ProRule:PRU00269}.				clathrin coat assembly (GO:0048268)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|exocytosis (GO:0006887)|insulin receptor signaling pathway (GO:0008286)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|small molecule metabolic process (GO:0044281)|vascular smooth muscle contraction (GO:0014829)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|nucleus (GO:0005634)|phosphatidylinositol 3-kinase complex (GO:0005942)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	1-phosphatidylinositol-3-kinase activity (GO:0016303)|1-phosphatidylinositol-4-phosphate 3-kinase activity (GO:0035005)|ATP binding (GO:0005524)|phosphatidylinositol 3-kinase activity (GO:0035004)|phosphatidylinositol binding (GO:0035091)			central_nervous_system(4)|endometrium(5)|kidney(5)|large_intestine(7)|lung(24)|ovary(3)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	58						GTAACCCTGAAGGAATCATCT	0.358																																																0													80	81	81					11																	17121508		2200	4291	6491	SO:0001819	synonymous_variant	5286			Y13367	CCDS7824.1	11p15.5-p14	2012-07-13	2012-07-13			ENSG00000011405	2.7.1.154		8971	protein-coding gene	gene with protein product		603601	"phosphoinositide-3-kinase, class 2, alpha polypeptide"			9337861	Standard	NM_002645		Approved	PI3K-C2alpha	uc001mmq.4	O00443		ENST00000265970.7:c.4017T>C	11.37:g.17121508A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0LPH2|B4E2G4|Q14CQ9	Silent	SNP	ENST00000265970.7	37	CCDS7824.1																																																																																				0.358	PIK3C2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387553.1	NM_002645		G	17121508	A	G	17121508	2	3	628	1	0	0	0	0	0	0	0	1	11916	59	3	3		3	PIK3C2A	11	17121508	Silent	SNP	A	TCGA-KL-8329-01A-11D-2310-10	15857422	17121508	117885008	55	38646										
OR5M8	219484	broad.mit.edu	37	chr11	56258238	56258239	+	Frame_Shift_Ins	INS	-	-	C													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gagaaaaagaaaggttccagINSccagccacaataaacattga							TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr11:56258238_56258239insC	ENST00000327216.2	-	1	632_633	c.608_609insG	c.(607-609)ggcfs	p.G203fs		NM_001005282.1	NP_001005282.1	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M, member 8	203						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(4)|lung(22)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	37	Esophageal squamous(21;0.00352)					AAAGGTTCCAGCCAGCCACAAT	0.411																																																0																																										SO:0001589	frameshift_variant	219484			AB065744	CCDS31533.1	11q11	2012-08-09			ENSG00000181371	ENSG00000181371		"GPCR / Class A : Olfactory receptors"	14846	protein-coding gene	gene with protein product							Standard	NM_001005282		Approved		uc001nix.1	Q8NGP6	OTTHUMG00000166877	ENST00000327216.2:c.609dupG	11.37:g.56258240_56258240dupC	ENSP00000323354:p.Gly203fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNM5|Q6IEW3|Q96RB8	Frame_Shift_Ins	INS	ENST00000327216.2	37	CCDS31533.1																																																																																				0.411	OR5M8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391641.1	NM_001005282		C	56258239	-	C	56258238	7	5	628	1	0	1	1	0	0	0	0	0	11183	958	34	0	330	0	OR5M8	11	56258238	Frame_Shift_Ins	INS	-	TCGA-KL-8329-01A-11D-2310-10	39136730	56258238	78748278	56	38647										
P2RX3	5024	broad.mit.edu;mdanderson.org	37	chr11	57137381	57137381	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	atgagactacgctgaaaatcGcggctttgaccaacccagtg	10	11	0	3	rs201360035		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr11:57137381G>A	ENST00000263314.2	+	12	1139	c.1105G>A	c.(1105-1107)Gcg>Acg	p.A369T		NM_002559.3	NP_002550.2	P56373	P2RX3_HUMAN	purinergic receptor P2X, ligand-gated ion channel, 3	369					behavioral response to pain (GO:0048266)|cation transmembrane transport (GO:0098655)|neuromuscular synaptic transmission (GO:0007274)|neuronal action potential (GO:0019228)|peristalsis (GO:0030432)|positive regulation of calcium ion transport into cytosol (GO:0010524)|positive regulation of calcium-mediated signaling (GO:0050850)|protein homooligomerization (GO:0051260)|purinergic nucleotide receptor signaling pathway (GO:0035590)|regulation of synaptic plasticity (GO:0048167)|response to ATP (GO:0033198)|response to carbohydrate (GO:0009743)|response to cold (GO:0009409)|response to heat (GO:0009408)|response to hypoxia (GO:0001666)|response to mechanical stimulus (GO:0009612)|sensory perception of taste (GO:0050909)|signal transduction (GO:0007165)|transport (GO:0006810)|urinary bladder smooth muscle contraction (GO:0014832)	dendritic spine (GO:0043197)|Golgi apparatus (GO:0005794)|integral component of nuclear inner membrane (GO:0005639)|integral component of plasma membrane (GO:0005887)|membrane raft (GO:0045121)|neuronal cell body (GO:0043025)|receptor complex (GO:0043235)|rough endoplasmic reticulum (GO:0005791)|terminal bouton (GO:0043195)	ATP binding (GO:0005524)|extracellular ATP-gated cation channel activity (GO:0004931)|purinergic nucleotide receptor activity (GO:0001614)			endometrium(4)|kidney(2)|large_intestine(4)|lung(15)|prostate(1)	26						GCTGAAAATCGCGGCTTTGAC	0.547													G|||	1	0.000199681	0.0	0.0	5008	,	,		20104	0.0		0.0	False		,,,				2504	0.001															0								G	THR/ALA	0,4402		0,0,2201	109	90	96		1105	-5.1	0	11		96	1,8591	1.2+/-3.3	0,1,4295	no	missense	P2RX3	NM_002559.3	58	0,1,6496	AA,AG,GG		0.0116,0.0,0.0077	benign	369/398	57137381	1,12993	2201	4296	6497	SO:0001583	missense	5024			Y07683	CCDS7953.1	11q12	2012-01-17			ENSG00000109991	ENSG00000109991		"Purinergic receptors", "Ligand-gated ion channels / Purinergic receptors, ionotropic"	8534	protein-coding gene	gene with protein product		600843				9221902	Standard	NM_002559		Approved	P2X3	uc001nju.3	P56373	OTTHUMG00000167025	ENST00000263314.2:c.1105G>A	11.37:g.57137381G>A	ENSP00000263314:p.Ala369Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6DK37|Q9UQB6	Missense_Mutation	SNP	ENST00000263314.2	37	CCDS7953.1	.	.	.	.	.	.	.	.	.	.	G	0.496	-0.873163	0.02570	0.0	1.16E-4	ENSG00000109991	ENST00000439993;ENST00000263314	T	0.04275	3.66	5.2	-5.1	0.02911	.	0.835048	0.10764	N	0.636768	T	0.01940	0.0061	N	0.04959	-0.14	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.48375	-0.9041	10	0.13853	T	0.58	-0.0127	8.327	0.32162	0.6906:0.1285:0.181:0.0	.	369	P56373	P2RX3_HUMAN	T	368;369	ENSP00000263314:A369T	ENSP00000263314:A369T	A	+	1	0	P2RX3	56893957	0.001000	0.12720	0.000000	0.03702	0.003000	0.03518	0.118000	0.15605	-1.177000	0.02744	-0.251000	0.11542	GCG		0.547	P2RX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392465.1	NM_002559		A	57137381	G	A	57137381	3	1	628	1	0	0	0	0	1	0	0	0	11348	1087	38	1	1151	1	P2RX3	11	57137381	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10	879143	57137381	77869135	57	38648										
POLA2	23649	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	65048558	65048558	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ggagaccgggaacattcctcGggtgctcaaattccagtgga	13	10	1	1	rs372693281		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr11:65048558G>A	ENST00000265465.3	+	8	1371	c.840G>A	c.(838-840)tcG>tcA	p.S280S	POLA2_ENST00000541089.1_Silent_p.S72S	NM_002689.2	NP_002680.2	Q14181	DPOA2_HUMAN	polymerase (DNA directed), alpha 2, accessory subunit	280					DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA strand elongation involved in DNA replication (GO:0006271)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|protein import into nucleus, translocation (GO:0000060)|telomere maintenance (GO:0000723)|telomere maintenance via recombination (GO:0000722)|telomere maintenance via semi-conservative replication (GO:0032201)	alpha DNA polymerase:primase complex (GO:0005658)|cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA-directed DNA polymerase activity (GO:0003887)|protein heterodimerization activity (GO:0046982)			endometrium(1)|large_intestine(2)|lung(7)|urinary_tract(1)	11					Dacarbazine(DB00851)	AACATTCCTCGGGTGCTCAAA	0.512																																																0								G		2,4400	4.2+/-10.8	0,2,2199	152	145	148		840	-10.2	0.2	11		148	0,8594		0,0,4297	no	coding-synonymous	POLA2	NM_002689.2		0,2,6496	AA,AG,GG		0.0,0.0454,0.0154		280/599	65048558	2,12994	2201	4297	6498	SO:0001819	synonymous_variant	23649			BC002990	CCDS8098.1	11q13	2012-05-18	2012-05-18		ENSG00000014138	ENSG00000014138		"DNA polymerases"	30073	protein-coding gene	gene with protein product	"DNA polymerase alpha subunit B", "DNA polymerase alpha 70 kDa subunit"		"polymerase (DNA directed), alpha 2 (70kD subunit)"			8223465, 11433027	Standard	NM_002689		Approved	FLJ21662	uc001odj.3	Q14181	OTTHUMG00000165951	ENST00000265465.3:c.840G>A	11.37:g.65048558G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DNB4|Q9BPV3	Silent	SNP	ENST00000265465.3	37	CCDS8098.1																																																																																				0.512	POLA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387223.1	NM_002689		A	65048558	G	A	65048558	2	1	628	1	0	0	0	0	0	0	0	1	12195	1103	39	1		1	POLA2	11	65048558	Silent	SNP	G	TCGA-KL-8329-01A-11D-2310-10	7911177	65048558	69957958	58	38649										
DHCR7	1717	broad.mit.edu	37	chr11	71152273	71152273	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	acccgctgctaagaacatacCagtctctggcgctggtgggg	13	12	1	1			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr11:71152273C>T	ENST00000355527.3	-	6	902	c.626G>A	c.(625-627)tGc>tAc	p.C209Y	DHCR7_ENST00000407721.2_Splice_Site_p.C209Y	NM_001163817.1|NM_001360.2	NP_001157289.1|NP_001351.2	Q9UBM7	DHCR7_HUMAN	7-dehydrocholesterol reductase	209					blood vessel development (GO:0001568)|cell differentiation (GO:0030154)|cholesterol biosynthetic process (GO:0006695)|lung development (GO:0030324)|multicellular organism growth (GO:0035264)|post-embryonic development (GO:0009791)|regulation of cell proliferation (GO:0042127)|regulation of cholesterol biosynthetic process (GO:0045540)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nuclear outer membrane (GO:0005640)	7-dehydrocholesterol reductase activity (GO:0047598)			endometrium(2)|kidney(1)|large_intestine(3)|liver(1)|lung(10)|ovary(1)|skin(1)	19						AAGAACATACCAGTCTCTGGC	0.572									Smith-Lemli-Opitz syndrome																																							0													88	76	80					11																	71152273		2200	4294	6494	SO:0001630	splice_region_variant	1717	Familial Cancer Database	SLOS type I & II	AF034544	CCDS8200.1	11q13.4	2014-09-17	2004-02-13				1.3.1.21		2860	protein-coding gene	gene with protein product		602858	"Smith-Lemli-Opitz syndrome"	SLOS		9465114, 9634533	Standard	NM_001360		Approved		uc001oql.3	Q9UBM7		ENST00000355527.3:c.626+1G>A	11.37:g.71152273C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R6Z2|O60492|O60717	Missense_Mutation	SNP	ENST00000355527.3	37	CCDS8200.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	36|36	5.794386|5.794386	0.96952|0.96952	.|.	.|.	ENSG00000172893|ENSG00000172893	ENST00000407721;ENST00000355527;ENST00000527316|ENST00000524694	D;D;D|.	0.97870|.	-4.58;-4.58;-4.58|.	4.14|4.14	4.14|4.14	0.48551|0.48551	.|.	0.096169|.	0.64402|.	D|.	0.000001|.	T|.	0.72179|.	0.3428|.	M|M	0.70275|0.70275	2.135|2.135	0.58432|0.58432	D|D	0.999999|0.999999	P|.	0.40660|.	0.726|.	B|.	0.40410|.	0.328|.	T|.	0.73142|.	-0.4076|.	9|.	.|.	.|.	.|.	-30.5458|-30.5458	14.271|14.271	0.66152|0.66152	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	209|.	Q9UBM7|.	DHCR7_HUMAN|.	Y|X	209;209;177|221	ENSP00000384739:C209Y;ENSP00000347717:C209Y;ENSP00000435047:C177Y|.	.|.	C|W	-|-	2|2	0|0	DHCR7|DHCR7	70829921|70829921	1.000000|1.000000	0.71417|0.71417	0.996000|0.996000	0.52242|0.52242	0.639000|0.639000	0.38242|0.38242	6.765000|6.765000	0.74965|0.74965	2.035000|2.035000	0.60131|0.60131	0.313000|0.313000	0.20887|0.20887	TGC|TGG		0.572	DHCR7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394243.1	NM_001360	Missense_Mutation	T	71152273	C	T	71152273	5	4	628	1	0	0	0	0	0	0	1	0	4479	608	21	2	817	2	DHCR7	11	71152273	Splice_Site	SNP	C	TCGA-KL-8329-01A-11D-2310-10	6103715	71152273	63854243	59	38650										
C12orf35	55196	mdanderson.org	37	chr12	32138691	32138691	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	catttctctcaccaaattagAaagttcacccaggaagcttc	5	12	3	1			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr12:32138691A>G	ENST00000312561.4	+	4	5216	c.4802A>G	c.(4801-4803)gAa>gGa	p.E1601G	KIAA1551_ENST00000535596.1_Intron	NM_018169.3	NP_060639	Q9HCM1	K1551_HUMAN	KIAA1551	1601																	ACCAAATTAGAAAGTTCACCC	0.368																																																0													67	73	71					12																	32138691		2202	4300	6502	SO:0001583	missense	55196			AK001514	CCDS8725.2	12p11.21	2012-08-14	2012-08-14	2012-08-14	ENSG00000174718	ENSG00000174718			25559	protein-coding gene	gene with protein product			"chromosome 12 open reading frame 35"	C12orf35		10997877	Standard	NM_018169		Approved	FLJ20696, FLJ10652	uc001rks.3	Q9HCM1	OTTHUMG00000128501	ENST00000312561.4:c.4802A>G	12.37:g.32138691A>G	ENSP00000310338:p.Glu1601Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTU5|Q4KN17|Q9NVL6|Q9NWP9	Missense_Mutation	SNP	ENST00000312561.4	37	CCDS8725.2	.	.	.	.	.	.	.	.	.	.	A	10.82	1.459493	0.26248	.	.	ENSG00000174718	ENST00000312561	T	0.15017	2.46	5.44	4.27	0.50696	.	0.695490	0.13932	N	0.352814	T	0.12987	0.0315	N	0.19112	0.55	0.22330	N	0.999195	P	0.39480	0.675	B	0.40940	0.344	T	0.15983	-1.0418	9	.	.	.	.	10.8893	0.46986	0.8422:0.1578:0.0:0.0	.	1601	Q9HCM1	CL035_HUMAN	G	1601	ENSP00000310338:E1601G	.	E	+	2	0	C12orf35	32029958	0.990000	0.36364	0.056000	0.19401	0.258000	0.26162	3.724000	0.54962	0.855000	0.35359	0.455000	0.32223	GAA		0.368	KIAA1551-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250307.2	NM_018169		G	32138691	A	G	32138691	3	3	628	1	0	0	0	0	1	0	0	0	1684	246	9	3	4804	3	C12orf35	12	32138691	Missense_Mutation	SNP	A	TCGA-KL-8329-01A-11D-2310-10		32138691	101713204	60	38651										
SILV	6490	broad.mit.edu	37	chr12	56348043	56348043	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gggctgttctcaccaatgggAcaagagcagaagatgcgggg	16	8	1	3			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr12:56348043A>G	ENST00000548747.1	-	11	2603	c.1941T>C	c.(1939-1941)tgT>tgC	p.C647C	PMEL_ENST00000539511.1_Silent_p.C561C|PMEL_ENST00000552882.1_Silent_p.C647C|PMEL_ENST00000449260.2_Silent_p.C654C|PMEL_ENST00000550447.1_Silent_p.C276C|PMEL_ENST00000536427.1_Silent_p.C612C|PMEL_ENST00000548493.1_Silent_p.C647C|PMEL_ENST00000550464.1_Silent_p.C561C|PMEL_ENST00000360714.4_Silent_p.C654C			P40967	PMEL_HUMAN	premelanosome protein	647					melanin biosynthetic process (GO:0042438)|melanosome organization (GO:0032438)	endoplasmic reticulum membrane (GO:0005789)|extracellular region (GO:0005576)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|melanosome (GO:0042470)|multivesicular body membrane (GO:0032585)|plasma membrane (GO:0005886)				NS(1)|breast(2)|endometrium(2)|large_intestine(4)|lung(4)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	21						CACCAATGGGACAAGAGCAGA	0.512																																																0													126	111	116					12																	56348043		2203	4300	6503	SO:0001819	synonymous_variant	6490			AK092881	CCDS8897.1, CCDS55833.1, CCDS55834.1	12q13-q14	2010-12-17	2010-12-17	2010-12-17	ENSG00000185664	ENSG00000185664			10880	protein-coding gene	gene with protein product		155550	"silver (mouse homolog) like", "silver homolog (mouse)"	SIL, SILV		8739560	Standard	NM_001200053		Approved	D12S53E, SI, Pmel17, gp100	uc001siq.3	P40967		ENST00000548747.1:c.1941T>C	12.37:g.56348043A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KS57|B7Z6D7|Q12763|Q14448|Q14817|Q16565	Silent	SNP	ENST00000548747.1	37	CCDS8897.1																																																																																				0.512	PMEL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409626.1	NM_006928		G	56348043	A	G	56348043	2	3	628	1	0	0	0	0	0	0	0	1	14335	273	10	3		3	SILV	12	56348043	Silent	SNP	A	TCGA-KL-8329-01A-11D-2310-10	24209352	56348043	77503852	61	38652										
B4GALNT1	2583	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	58022926	58022926	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	catgtccctcggtggagaacCggactgggaagaaaggacat	14	9	0	2			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr12:58022926C>T	ENST00000341156.4	-	7	1300	c.716G>A	c.(715-717)cGg>cAg	p.R239Q	B4GALNT1_ENST00000550943.1_5'Flank|B4GALNT1_ENST00000449184.3_Intron|B4GALNT1_ENST00000418555.2_Missense_Mutation_p.R184Q	NM_001478.3	NP_001469.1	Q00973	B4GN1_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 1	239					carbohydrate metabolic process (GO:0005975)|cell death (GO:0008219)|ganglioside biosynthetic process (GO:0001574)|glycosphingolipid metabolic process (GO:0006687)|lipid glycosylation (GO:0030259)|lipid storage (GO:0019915)|protein glycosylation (GO:0006486)|spermatogenesis (GO:0007283)	integral component of Golgi membrane (GO:0030173)|membrane (GO:0016020)|plasma membrane (GO:0005886)	(N-acetylneuraminyl)-galactosylglucosylceramide N-acetylgalactosaminyltransferase activity (GO:0003947)			breast(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(4)|lung(6)|prostate(1)|stomach(1)|urinary_tract(1)	20	Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)			GGTGGAGAACCGGACTGGGAA	0.532																																																0													62	57	58					12																	58022926		2203	4300	6503	SO:0001583	missense	2583			M83651	CCDS8950.1, CCDS61170.1, CCDS61171.1	12q13.3	2013-09-11	2006-01-08	2006-01-08	ENSG00000135454	ENSG00000135454	2.4.1.92	"Beta 4-glycosyltransferases", "Glycosyltransferase family 2 domain containing"	4117	protein-coding gene	gene with protein product	"GD2 synthase, GM2 synthase"	601873	"UDP-N-acetyl-alpha-D-galactosamine:(N-acetylneuraminyl)-galactosylglucosylceramide N-acetylgalactosaminyltransferase (GalNAc-T)", "UDP-Gal:betaGlcNAc beta-1,4-N-acetylgalactosaminyltransferase transferase 1", "spastic paraplegia 26"	GALGT, SPG26		1601877, 23746551	Standard	NM_001478		Approved	beta1-4GalNAc-T	uc001spg.2	Q00973	OTTHUMG00000170190	ENST00000341156.4:c.716G>A	12.37:g.58022926C>T	ENSP00000341562:p.Arg239Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DE26|Q8N636	Missense_Mutation	SNP	ENST00000341156.4	37	CCDS8950.1	.	.	.	.	.	.	.	.	.	.	.	11.97	1.797113	0.31777	.	.	ENSG00000135454	ENST00000341156;ENST00000418555	T;T	0.17528	2.27;2.29	5.34	5.34	0.76211	.	0.210000	0.41097	D	0.000952	T	0.07007	0.0178	N	0.10916	0.065	0.80722	D	1	B;B	0.30439	0.279;0.085	B;B	0.17979	0.02;0.007	T	0.25257	-1.0137	10	0.07482	T	0.82	-3.0107	10.1216	0.42623	0.0:0.9087:0.0:0.0913	.	184;239	B4DE26;Q00973	.;B4GN1_HUMAN	Q	239;184	ENSP00000341562:R239Q;ENSP00000401601:R184Q	ENSP00000341562:R239Q	R	-	2	0	B4GALNT1	56309193	0.945000	0.32115	1.000000	0.80357	0.992000	0.81027	1.769000	0.38522	2.522000	0.85027	0.655000	0.94253	CGG		0.532	B4GALNT1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407853.1	NM_001478		T	58022926	C	T	58022926	3	4	628	1	0	0	0	0	1	0	0	0	1266	652	23	1	905	1	B4GALNT1	12	58022926	Missense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10	1674883	58022926	75828969	62	38653										
KIAA1033	23325	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	105504982	105504982	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	caactgagaagaattgaggaCgctctggatgactcaattgg	12	7	2	4	rs368178226		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr12:105504982C>T	ENST00000332180.5	+	2	228	c.141C>T	c.(139-141)gaC>gaT	p.D47D		NM_015275.1	NP_056090.1			KIAA1033											breast(3)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(8)|lung(15)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	41						GAATTGAGGACGCTCTGGATG	0.303																																																0								C		1,3617		0,1,1808	77	72	74		141	-10.7	0.4	12		74	0,8136		0,0,4068	no	coding-synonymous	KIAA1033	NM_015275.1		0,1,5876	TT,TC,CC		0.0,0.0276,0.0085		47/1174	105504982	1,11753	1809	4068	5877	SO:0001819	synonymous_variant	23325			AB028956	CCDS41826.1, CCDS73514.1	12q24.11	2014-05-09				ENSG00000136051			29174	protein-coding gene	gene with protein product		615748				20376207, 20498093, 21498477	Standard	XM_005268742		Approved	SWIP	uc001tld.3	Q2M389		ENST00000332180.5:c.141C>T	12.37:g.105504982C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000332180.5	37	CCDS41826.1																																																																																				0.303	KIAA1033-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406138.4	NM_015275		T	105504982	C	T	105504982	2	4	628	1	0	0	0	0	0	0	0	1	8213	535	19	1		1	KIAA1033	12	105504982	Silent	SNP	C	TCGA-KL-8329-01A-11D-2310-10	47482056	105504982	28346913	63	38654										
TCTN2	79867	broad.mit.edu	37	chr12	124180975	124180976	+	Frame_Shift_Ins	INS	-	-	A													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gtctaggttaccaacttggcINSaagcctgtccgagctctaaa							TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr12:124180975_124180976insA	ENST00000303372.5	+	12	1454_1455	c.1326_1327insA	c.(1327-1329)aagfs	p.K443fs	TCTN2_ENST00000426174.2_Frame_Shift_Ins_p.K442fs	NM_001143850.2|NM_024809.4	NP_001137322.1|NP_079085.2	Q96GX1	TECT2_HUMAN	tectonic family member 2	443					cilium assembly (GO:0042384)|cilium morphogenesis (GO:0060271)|smoothened signaling pathway (GO:0007224)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|integral component of membrane (GO:0016021)|TCTN-B9D complex (GO:0036038)				breast(2)|cervix(2)|endometrium(4)|kidney(1)|large_intestine(4)|lung(12)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	30	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000163)|Epithelial(86;0.000502)|all cancers(50;0.00451)		ACCAACTTGGCAAGCCTGTCCG	0.431																																																0																																										SO:0001589	frameshift_variant	79867			AK056924	CCDS9253.1, CCDS45007.1	12q24.31	2011-04-12	2007-08-20	2007-08-20	ENSG00000168778	ENSG00000168778		"Tectonic proteins"	25774	protein-coding gene	gene with protein product	"Meckel syndrome, type 8"	613846	"chromosome 12 open reading frame 38"	C12orf38		21462283	Standard	NM_024809		Approved	FLJ12975, TECT2, MKS8	uc001ufp.3	Q96GX1	OTTHUMG00000168700	ENST00000303372.5:c.1328dupA	12.37:g.124180977_124180977dupA	ENSP00000304941:p.Lys443fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7Y8|B3KPW5|Q9H966	Frame_Shift_Ins	INS	ENST00000303372.5	37	CCDS9253.1																																																																																				0.431	TCTN2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000400652.1	NM_024809		A	124180976	-	A	124180975	7	5	628	1	0	1	1	0	0	0	0	0	15735	697	25	0	1372	0	TCTN2	12	124180975	Frame_Shift_Ins	INS	-	TCGA-KL-8329-01A-11D-2310-10	18675993	124180975	9670920	64	38655										
POTEG	404785	mdanderson.org	37	chr14	19553760	19553760	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ctgcagggggagcggcaagaGcaaagtgggcccttggggag	20	8	0	1	rs375902660		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr14:19553760G>A	ENST00000409832.3	+	1	396	c.344G>A	c.(343-345)aGc>aAc	p.S115N		NM_001005356.2	NP_001005356.1	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	115										cervix(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(31)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	47						AGCGGCAAGAGCAAAGTGGGC	0.597																																																0													391	424	413					14																	19553760		2201	4298	6499	SO:0001583	missense	404785				CCDS73610.1	14q11.2	2013-01-10	2008-11-26	2008-11-26	ENSG00000222036	ENSG00000222036		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33896	protein-coding gene	gene with protein product	"cancer/testis antigen family 104, member 4"	608916	"ANKRD26-like family C, member 2"	A26C2			Standard	NR_027480		Approved	POTE14, POTE-14, POTE14alpha, CT104.4	uc001vuz.1	Q6S5H5	OTTHUMG00000170340	ENST00000409832.3:c.344G>A	14.37:g.19553760G>A	ENSP00000386971:p.Ser115Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A1L153|A6NMI9|Q6S5H6|Q6S8J2	Missense_Mutation	SNP	ENST00000409832.3	37	CCDS32018.1	.	.	.	.	.	.	.	.	.	.	g	0.049	-1.256079	0.01457	.	.	ENSG00000222036	ENST00000409832	T	0.27256	1.68	.	.	.	.	.	.	.	.	T	0.12263	0.0298	L	0.37630	1.12	0.09310	N	1	B	0.21147	0.052	B	0.21708	0.036	T	0.41805	-0.9488	7	0.02654	T	1	.	.	.	.	.	115	Q6S5H5	POTEG_HUMAN	N	115	ENSP00000386971:S115N	ENSP00000386971:S115N	S	+	2	0	POTEG	18623760	0.000000	0.05858	0.001000	0.08648	0.003000	0.03518	-2.058000	0.01394	-1.485000	0.01854	-1.526000	0.00926	AGC		0.597	POTEG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408579.1	NM_001005356		A	19553760	G	A	19553760	3	1	628	1	0	0	0	0	1	0	0	0	12273	971	34	2	346	2	POTEG	14	19553760	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10		19553760	87795780	65	38656										
KIAA1409	57578	broad.mit.edu	37	chr14	94156610	94156610	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ggctcccacgttgcagaccaTcttattgttatcctgattgg	9	11	1	2	rs182301730	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr14:94156610T>C	ENST00000393151.2	+	46	7350	c.7350T>C	c.(7348-7350)caT>caC	p.H2450H	UNC79_ENST00000553484.1_Silent_p.H2472H|UNC79_ENST00000555664.1_Silent_p.H2411H|UNC79_ENST00000256339.4_Silent_p.H2273H			Q9P2D8	UNC79_HUMAN	unc-79 homolog (C. elegans)	2450					behavioral response to ethanol (GO:0048149)|ion transmembrane transport (GO:0034220)|multicellular organism growth (GO:0035264)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(3)|cervix(2)|endometrium(10)|kidney(7)|large_intestine(18)|liver(1)|lung(64)|ovary(1)|prostate(5)|skin(3)|urinary_tract(4)	118						TTGCAGACCATCTTATTGTTA	0.488													T|||	2	0.000399361	0.0	0.0	5008	,	,		20460	0.002		0.0	False		,,,				2504	0.0															0													142	122	129					14																	94156610		2203	4300	6503	SO:0001819	synonymous_variant	57578			AB037830	CCDS9911.2	14q32.13	2011-08-18	2011-08-18	2011-08-18	ENSG00000133958	ENSG00000133958			19966	protein-coding gene	gene with protein product			"KIAA1409"	KIAA1409		20714347, 21040849	Standard	NM_020818		Approved		uc001ybs.1	Q9P2D8	OTTHUMG00000029783	ENST00000393151.2:c.7350T>C	14.37:g.94156610T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B5MDL6|Q6ZUT7	Silent	SNP	ENST00000393151.2	37																																																																																					0.488	UNC79-006	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000412766.1	XM_028395		C	94156610	T	C	94156610	2	2	628	1	0	0	0	0	0	0	0	1	8237	1432	50	3		3	KIAA1409	14	94156610	Silent	SNP	T	TCGA-KL-8329-01A-11D-2310-10	74602850	94156610	13192930	66	38657										
AHNAK2	113146	mdanderson.org	37	chr14	105416872	105416872	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gggacaggtccccctccagcTgcgcaccatccagctttgct	10	17	0	0	rs148787429	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr14:105416872T>C	ENST00000333244.5	-	7	5035	c.4916A>G	c.(4915-4917)cAg>cGg	p.Q1639R	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1639						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			CCCCTCCAGCTGCGCACCATC	0.592													.|||	704	0.140575	0.1566	0.0778	5008	,	,		17132	0.2401		0.0358	False		,,,				2504	0.1687															0								C	ARG/GLN	378,3456		58,262,1597	148	168	162		4916	-1.8	0	14	dbSNP_134	162	270,7886		40,190,3848	no	missense	AHNAK2	NM_138420.2	43	98,452,5445	CC,CT,TT		3.3104,9.8592,5.4045	benign	1639/5796	105416872	648,11342	1917	4078	5995	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.4916A>G	14.37:g.105416872T>C	ENSP00000353114:p.Gln1639Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	214	0.09798534798534798	54	0.10975609756097561	36	0.09944751381215469	106	0.1853146853146853	18	0.023746701846965697	N	0.418	-0.909540	0.02434	0.098592	0.033104	ENSG00000185567	ENST00000333244	T	0.00659	5.94	3.11	-1.82	0.07857	.	.	.	.	.	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	B	0.06786	0.001	B	0.08055	0.003	T	0.37619	-0.9698	8	0.24483	T	0.36	.	5.9125	0.19037	0.0:0.2565:0.1368:0.6067	.	1639	Q8IVF2	AHNK2_HUMAN	R	1639	ENSP00000353114:Q1639R	ENSP00000353114:Q1639R	Q	-	2	0	AHNAK2	104487917	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.109000	0.10840	-2.238000	0.00712	-3.443000	0.00036	CAG		0.592	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		C	105416872	T	C	105416872	3	2	628	1	0	0	0	0	1	0	0	0	415	1580	55	3	12475	3	AHNAK2	14	105416872	Missense_Mutation	SNP	T	TCGA-KL-8329-01A-11D-2310-10	11260262	105416872	1932668	67	38658										
MTA1	9112	ucsc.edu	37	chr14	105931063	105931063	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gagccccaagtttgccatgaAgaccaggcaggctttctatc	10	12	1	2			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr14:105931063A>G	ENST00000331320.7	+	15	1611	c.1397A>G	c.(1396-1398)aAg>aGg	p.K466R	MTA1_ENST00000405646.1_Missense_Mutation_p.K449R|MTA1_ENST00000406191.1_Missense_Mutation_p.K466R|MTA1_ENST00000435036.2_Missense_Mutation_p.K2R	NM_001203258.1|NM_004689.3	NP_001190187.1|NP_004680.2	Q13330	MTA1_HUMAN	metastasis associated 1	466					circadian regulation of gene expression (GO:0032922)|double-strand break repair (GO:0006302)|entrainment of circadian clock by photoperiod (GO:0043153)|locomotor rhythm (GO:0045475)|positive regulation of protein autoubiquitination (GO:1902499)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|regulation of gene expression, epigenetic (GO:0040029)|regulation of inflammatory response (GO:0050727)|response to ionizing radiation (GO:0010212)|response to lipopolysaccharide (GO:0032496)|secretory granule organization (GO:0033363)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|intracellular membrane-bounded organelle (GO:0043231)|microtubule (GO:0005874)|nuclear envelope (GO:0005635)|nucleus (GO:0005634)|NuRD complex (GO:0016581)	chromatin binding (GO:0003682)|core promoter binding (GO:0001047)|core promoter sequence-specific DNA binding (GO:0001046)|RNA polymerase II repressing transcription factor binding (GO:0001103)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(1)|lung(5)|stomach(1)	14		all_cancers(154;0.0293)|all_epithelial(191;0.128)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.19)		TTTGCCATGAAGACCAGGCAG	0.706																																																0													32	26	28					14																	105931063		2198	4293	6491	SO:0001583	missense	9112			U35113	CCDS32169.1, CCDS55954.1	14q32.33	2013-01-25			ENSG00000182979	ENSG00000182979		"GATA zinc finger domain containing"	7410	protein-coding gene	gene with protein product		603526				8083195, 7607577	Standard	NM_004689		Approved		uc001yqx.3	Q13330	OTTHUMG00000150362	ENST00000331320.7:c.1397A>G	14.37:g.105931063A>G	ENSP00000333633:p.Lys466Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A5PLK4|Q86SW2|Q8NFI8|Q96GI8	Missense_Mutation	SNP	ENST00000331320.7	37	CCDS32169.1	.	.	.	.	.	.	.	.	.	.	A	24.4	4.532901	0.85812	.	.	ENSG00000182979	ENST00000414153;ENST00000331320;ENST00000406191;ENST00000405646;ENST00000434050;ENST00000435036	T;T;T;T;T	0.75050	0.89;0.83;0.88;0.86;-0.9	4.56	4.56	0.56223	.	0.000000	0.85682	D	0.000000	D	0.86151	0.5864	M	0.82517	2.595	0.58432	D	0.999999	D;P	0.76494	0.999;0.949	D;P	0.85130	0.997;0.725	D	0.88270	0.2929	10	0.87932	D	0	-34.481	13.0096	0.58724	1.0:0.0:0.0:0.0	.	258;466	Q59FW1;Q13330	.;MTA1_HUMAN	R	375;466;466;449;258;2	ENSP00000333633:K466R;ENSP00000385702:K466R;ENSP00000384180:K449R;ENSP00000394106:K258R;ENSP00000389425:K2R	ENSP00000333633:K466R	K	+	2	0	MTA1	105002108	1.000000	0.71417	1.000000	0.80357	0.854000	0.48673	7.273000	0.78527	1.827000	0.53221	0.379000	0.24179	AAG		0.706	MTA1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000317849.15			G	105931063	A	G	105931063	3	3	628	1	0	0	0	0	1	0	0	0	9915	72	3	3	1455	3	MTA1	14	105931063	Missense_Mutation	SNP	A	TCGA-KL-8329-01A-11D-2310-10	514191	105931063	1418477	68	38659										
MTMR10	54893	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr15	31234179	31234179	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tggatctggctttggttttaAtatcaatgaatttctccttg	8	6	3	1	rs377638176		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr15:31234179A>T	ENST00000435680.1	-	16	1925	c.1828T>A	c.(1828-1830)Tta>Ata	p.L610I	FAN1_ENST00000362065.4_3'UTR|MTMR10_ENST00000314404.8_Intron|MTMR10_ENST00000425768.1_3'UTR	NM_017762.2	NP_060232.2	Q9NXD2	MTMRA_HUMAN	myotubularin related protein 10	610	Myotubularin phosphatase. {ECO:0000255|PROSITE-ProRule:PRU00669}.						phosphatase activity (GO:0016791)			autonomic_ganglia(1)|breast(1)|endometrium(1)|kidney(2)|large_intestine(2)|ovary(1)|upper_aerodigestive_tract(1)	9		all_lung(180;2.81e-11)		all cancers(64;7.26e-15)|Epithelial(43;7.2e-11)|GBM - Glioblastoma multiforme(186;0.000158)|BRCA - Breast invasive adenocarcinoma(123;0.00426)|Lung(196;0.174)		TTTGGTTTTAATATCAATGAA	0.438																																																0													175	180	178					15																	31234179		1939	4133	6072	SO:0001583	missense	54893			AK000320	CCDS45204.1	15q13.3	2011-06-09				ENSG00000166912		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	25999	protein-coding gene	gene with protein product						12495846	Standard	NM_017762		Approved	FLJ20313	uc001zfh.1	Q9NXD2		ENST00000435680.1:c.1828T>A	15.37:g.31234179A>T	ENSP00000402537:p.Leu610Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P4Q6	Missense_Mutation	SNP	ENST00000435680.1	37	CCDS45204.1	.	.	.	.	.	.	.	.	.	.	A	15.43	2.831740	0.50845	.	.	ENSG00000166912	ENST00000435680	T	0.50813	0.73	5.67	-11.3	0.00108	Myotubularin phosphatase domain (1);	.	.	.	.	T	0.52597	0.1744	M	0.67953	2.075	0.22719	N	0.998815	D	0.53312	0.959	P	0.53224	0.721	T	0.67507	-0.5653	9	0.33141	T	0.24	.	17.8796	0.88837	0.1273:0.1655:0.7071:0.0	.	610	Q9NXD2	MTMRA_HUMAN	I	610	ENSP00000402537:L610I	ENSP00000402537:L610I	L	-	1	2	MTMR10	29021471	0.000000	0.05858	0.000000	0.03702	0.806000	0.45545	-0.907000	0.04067	-2.442000	0.00549	0.533000	0.62120	TTA		0.438	MTMR10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000430747.1	NM_017762		T	31234179	A	T	31234179	3	4	628	1	0	0	0	0	1	0	0	0	9946	98	4	5	509	5	MTMR10	15	31234179	Missense_Mutation	SNP	A	TCGA-KL-8329-01A-11D-2310-10		31234179	71297213	69	38660										
OTUD7A	161725	mdanderson.org;bcgsc.ca	37	chr15	31779425	31779425	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	cggaggggatccggatccacGtcacgttcatgtagctgtgc	14	11	2	0			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr15:31779425G>A	ENST00000307050.4	-	10	1414	c.1322C>T	c.(1321-1323)aCg>aTg	p.T441M	OTUD7A_ENST00000382902.1_Missense_Mutation_p.T448M	NM_130901.1	NP_570971.1	Q8TE49	OTU7A_HUMAN	OTU deubiquitinase 7A	441	Catalytic. {ECO:0000250}.				protein K11-linked deubiquitination (GO:0035871)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|ubiquitin-specific protease activity (GO:0004843)|zinc ion binding (GO:0008270)			endometrium(7)|large_intestine(4)|lung(11)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(4)	30		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		CCGGATCCACGTCACGTTCAT	0.582																																																0													123	96	105					15																	31779425		2202	4300	6502	SO:0001583	missense	161725			AJ430383	CCDS10026.1	15q13.1	2014-02-24	2014-02-24	2006-07-07	ENSG00000169918	ENSG00000169918		"OTU domain containing"	20718	protein-coding gene	gene with protein product		612024	"chromosome 15 open reading frame 16", "OTU domain containing 7", "OTU domain containing 7A"	C15orf16, OTUD7		23827681	Standard	NM_130901		Approved	CEZANNE2	uc001zfq.3	Q8TE49	OTTHUMG00000129275	ENST00000307050.4:c.1322C>T	15.37:g.31779425G>A	ENSP00000305926:p.Thr441Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IWK5	Missense_Mutation	SNP	ENST00000307050.4	37	CCDS10026.1	.	.	.	.	.	.	.	.	.	.	G	23.5	4.429639	0.83776	.	.	ENSG00000169918	ENST00000307050;ENST00000382902	T;T	0.32988	1.43;1.43	4.59	4.59	0.56863	.	0.000000	0.85682	D	0.000000	T	0.51244	0.1663	L	0.51422	1.61	0.50467	D	0.999874	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.996	T	0.54200	-0.8329	10	0.62326	D	0.03	-25.3487	17.7878	0.88543	0.0:0.0:1.0:0.0	.	448;441	Q8TE49-2;Q8TE49	.;OTU7A_HUMAN	M	441;448	ENSP00000305926:T441M;ENSP00000372358:T448M	ENSP00000305926:T441M	T	-	2	0	OTUD7A	29566717	1.000000	0.71417	0.950000	0.38849	0.888000	0.51559	8.825000	0.92029	2.234000	0.73211	0.561000	0.74099	ACG		0.582	OTUD7A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251393.2	NM_130901		A	31779425	G	A	31779425	3	1	628	1	0	0	0	0	1	0	0	0	11325	1145	40	1	1466	1	OTUD7A	15	31779425	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10	545246	31779425	70751967	70	38661										
IQGAP1	8826	broad.mit.edu;hgsc.bcm.edu	37	chr15	91030265	91030277	+	Frame_Shift_Del	DEL	GTTCGACGTGCCT	GTTCGACGTGCCT	-													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tctctcaccctgaccaacaaGttcgacgtgcctggagatga					rs368968167|rs528193427|rs181919733|rs201241538		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	GTTCGACGTGCCT	GTTCGACGTGCCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr15:91030265_91030277delGTTCGACGTGCCT	ENST00000268182.5	+	32	4228_4240	c.4104_4116delGTTCGACGTGCCT	c.(4102-4116)aagttcgacgtgcctfs	p.KFDVP1368fs	IQGAP1_ENST00000560738.1_Frame_Shift_Del_p.KFDVP796fs	NM_003870.3	NP_003861.1	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	1368	C2.				cellular response to calcium ion (GO:0071277)|cellular response to epidermal growth factor stimulus (GO:0071364)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|glomerular visceral epithelial cell development (GO:0072015)|negative regulation of catalytic activity (GO:0043086)|negative regulation of dephosphorylation (GO:0035305)|neuron projection extension (GO:1990138)|positive regulation of GTPase activity (GO:0043547)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of protein serine/threonine kinase activity (GO:0071902)|regulation of cytokine production (GO:0001817)|regulation of insulin secretion (GO:0050796)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)|small molecule metabolic process (GO:0044281)	actin filament (GO:0005884)|axon (GO:0030424)|cell junction (GO:0030054)|cell leading edge (GO:0031252)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|extracellular vesicular exosome (GO:0070062)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)|focal adhesion (GO:0005925)|growth cone (GO:0030426)|lateral plasma membrane (GO:0016328)|microtubule (GO:0005874)|midbody (GO:0030496)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|slit diaphragm (GO:0036057)	calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|GTPase activator activity (GO:0005096)|GTPase inhibitor activity (GO:0005095)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|protein kinase binding (GO:0019901)|protein phosphatase binding (GO:0019903)|protein serine/threonine kinase activator activity (GO:0043539)|Ras GTPase activator activity (GO:0005099)	p.D1370D(1)		breast(2)|central_nervous_system(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(14)|liver(1)|lung(18)|ovary(2)|pancreas(1)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	59	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)			TGACCAACAAGTTCGACGTGCCTGGAGATGAGA	0.451																																																1	Substitution - coding silent(1)	endometrium(1)																																								SO:0001589	frameshift_variant	8826			D29640	CCDS10362.1	15q26.1	2008-07-18			ENSG00000140575	ENSG00000140575			6110	protein-coding gene	gene with protein product	"RasGAP-like with IQ motifs"	603379				8051149, 8670801	Standard	XM_005254984		Approved	p195, KIAA0051, SAR1, HUMORFA01	uc002bpl.1	P46940	OTTHUMG00000149832	ENST00000268182.5:c.4104_4116delGTTCGACGTGCCT	15.37:g.91030265_91030277delGTTCGACGTGCCT	ENSP00000268182:p.Lys1368fs	Somatic		WXS	Illumina HiSeq	Phase_I	A7MBM3	Frame_Shift_Del	DEL	ENST00000268182.5	37	CCDS10362.1																																																																																				0.451	IQGAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313493.1	NM_003870		-	91030277	GTTCGACGTGCCT	-	91030265	7	5	628	1	0	1	0	1	0	0	0	0	7821	1020	36	0	4230	0	IQGAP1	15	91030265	Frame_Shift_Del	DEL	GTTCGACGTGCCT	TCGA-KL-8329-01A-11D-2310-10	59250840	91030265	11501127	71	38662	311	2								
IQGAP1	8826	bcgsc.ca	37	chr15	91030266	91030278	+	Frame_Shift_Del	DEL	GTTCGACGTGCCT	GTTCGACGTGCCT	-													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ctctcaccctgaccaacaagTtcgacgtgcctggagatgag					rs368968167|rs528193427|rs181919733|rs201241538		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	GTTCGACGTGCCT	GTTCGACGTGCCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr15:91030266_91030278delGTTCGACGTGCCT	ENST00000268182.5	+	32	4229_4241	c.4105_4117delGTTCGACGTGCCT	c.(4105-4119)gttcgacgtgcctgafs	p.VRRA*1369fs	IQGAP1_ENST00000560738.1_Frame_Shift_Del_p.VRRA*797fs	NM_003870.3	NP_003861.1	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	1369	C2.				cellular response to calcium ion (GO:0071277)|cellular response to epidermal growth factor stimulus (GO:0071364)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|glomerular visceral epithelial cell development (GO:0072015)|negative regulation of catalytic activity (GO:0043086)|negative regulation of dephosphorylation (GO:0035305)|neuron projection extension (GO:1990138)|positive regulation of GTPase activity (GO:0043547)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of protein serine/threonine kinase activity (GO:0071902)|regulation of cytokine production (GO:0001817)|regulation of insulin secretion (GO:0050796)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)|small molecule metabolic process (GO:0044281)	actin filament (GO:0005884)|axon (GO:0030424)|cell junction (GO:0030054)|cell leading edge (GO:0031252)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|extracellular vesicular exosome (GO:0070062)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)|focal adhesion (GO:0005925)|growth cone (GO:0030426)|lateral plasma membrane (GO:0016328)|microtubule (GO:0005874)|midbody (GO:0030496)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|slit diaphragm (GO:0036057)	calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|GTPase activator activity (GO:0005096)|GTPase inhibitor activity (GO:0005095)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|protein kinase binding (GO:0019901)|protein phosphatase binding (GO:0019903)|protein serine/threonine kinase activator activity (GO:0043539)|Ras GTPase activator activity (GO:0005099)	p.D1370D(1)		breast(2)|central_nervous_system(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(14)|liver(1)|lung(18)|ovary(2)|pancreas(1)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	59	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)			GACCAACAAGTTCGACGTGCCTGGAGATGAGAA	0.451																																																1	Substitution - coding silent(1)	endometrium(1)																																								SO:0001589	frameshift_variant	8826			D29640	CCDS10362.1	15q26.1	2008-07-18			ENSG00000140575	ENSG00000140575			6110	protein-coding gene	gene with protein product	"RasGAP-like with IQ motifs"	603379				8051149, 8670801	Standard	XM_005254984		Approved	p195, KIAA0051, SAR1, HUMORFA01	uc002bpl.1	P46940	OTTHUMG00000149832	ENST00000268182.5:c.4105_4117delGTTCGACGTGCCT	15.37:g.91030266_91030278delGTTCGACGTGCCT	ENSP00000268182:p.Val1369fs	Somatic		WXS	Illumina HiSeq	Phase_I	A7MBM3	Frame_Shift_Del	DEL	ENST00000268182.5	37	CCDS10362.1																																																																																				0.451	IQGAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313493.1	NM_003870		-	91030278	GTTCGACGTGCCT	-	91030266	7	5	628	1	0	1	0	1	0	0	0	0	7821	1725	60	0	4231	0	IQGAP1	15	91030266	Frame_Shift_Del	DEL	GTTCGACGTGCCT	TCGA-KL-8329-01A-11D-2310-10	1	91030266	11501126	72	38663	311	2								
TPSD1	23430	mdanderson.org	37	chr16	1306355	1306355	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	cctggcgagcccggcctacgTggcccctggtgagtcccagc	14	17	0	1	rs1800984	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr16:1306355T>C	ENST00000211076.3	+	1	222	c.74T>C	c.(73-75)gTg>gCg	p.V25A	TPSD1_ENST00000397534.2_Missense_Mutation_p.V18A|RP11-616M22.5_ENST00000566997.1_RNA	NM_012217.2	NP_036349.1	Q9BZJ3	TRYD_HUMAN	tryptase delta 1	25			V -> A (in dbSNP:rs1800984).	V -> G (in Ref. 1; AAD17861). {ECO:0000305}.		extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(9)|skin(1)|stomach(2)|upper_aerodigestive_tract(3)	20		Hepatocellular(780;0.00369)				CCGGCCTACGTGGCCCCTGGT	0.721													-|||	3599	0.71865	0.7564	0.6542	5008	,	,		14753	0.9484		0.5577	False		,,,				2504	0.6421															0								T	ALA/VAL	3121,1271		1094,933,169	29	37	34		74	-3.1	0	16	dbSNP_89	34	4690,3906		1125,2440,733	no	missense	TPSD1	NM_012217.2	64	2219,3373,902	CC,CT,TT		45.4397,28.939,39.8599	benign	25/243	1306355	7811,5177	2196	4298	6494	SO:0001583	missense	23430			AF206664	CCDS10432.1	16p13.3	2008-07-29			ENSG00000095917	ENSG00000095917	3.4.21.59		14118	protein-coding gene	gene with protein product	"mMCP-7-like II", "mMCP-7-like I", "MMCP-7-LIKE-2"	609272				9920877	Standard	NM_012217		Approved		uc002clb.1	Q9BZJ3	OTTHUMG00000128511	ENST00000211076.3:c.74T>C	16.37:g.1306355T>C	ENSP00000211076:p.Val25Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O95824|Q8TDI6|Q96L36|Q96RZ5|Q9H2Y6|Q9UQI8	Missense_Mutation	SNP	ENST00000211076.3	37	CCDS10432.1	1558	0.7133699633699634	388	0.7886178861788617	208	0.574585635359116	556	0.972027972027972	406	0.5356200527704486	-	0.855	-0.737258	0.03111	0.71061	0.545603	ENSG00000095917	ENST00000397534;ENST00000211076	T;T	0.81247	-1.47;-1.47	2.55	-3.13	0.05266	.	0.813971	0.10635	N	0.651704	T	0.00012	0.0000	N	0.01874	-0.695	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.35076	-0.9803	9	0.02654	T	1	.	3.4489	0.07491	0.0:0.375:0.2043:0.4206	rs1800984;rs3865206;rs4083416	25	Q9BZJ3	TRYD_HUMAN	A	18;25	ENSP00000380668:V18A;ENSP00000211076:V25A	ENSP00000211076:V25A	V	+	2	0	TPSD1	1246356	0.000000	0.05858	0.000000	0.03702	0.008000	0.06430	-1.814000	0.01723	-0.826000	0.04284	-1.137000	0.01932	GTG		0.721	TPSD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250320.2			C	1306355	T	C	1306355	3	2	628	1	0	0	0	0	1	0	0	0	16437	1696	59	3	76	3	TPSD1	16	1306355	Missense_Mutation	SNP	T	TCGA-KL-8329-01A-11D-2310-10		1306355	89048398	73	38664										
ADCY9	115	broad.mit.edu	37	chr16	4016581	4016581	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	caaagtccccgatgagctcgTtgaggacccggtagcactcc	11	14	0	2			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr16:4016581T>A	ENST00000294016.3	-	11	3795	c.3257A>T	c.(3256-3258)aAc>aTc	p.N1086I		NM_001116.3	NP_001107.2	O60503	ADCY9_HUMAN	adenylate cyclase 9	1086	Guanylate cyclase 2. {ECO:0000255|PROSITE-ProRule:PRU00099}.				activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|neurotrophin TRK receptor signaling pathway (GO:0048011)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	axon (GO:0030424)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	adenylate cyclase activity (GO:0004016)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)			breast(4)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(3)|large_intestine(11)|lung(9)|ovary(5)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	47						GATGAGCTCGTTGAGGACCCG	0.582																																																0													124	120	121					16																	4016581		2197	4300	6497	SO:0001583	missense	115			AF036927	CCDS32382.1	16p13.3	2013-02-04				ENSG00000162104	4.6.1.1	"Adenylate cyclases"	240	protein-coding gene	gene with protein product		603302				9628827	Standard	NM_001116		Approved	AC9	uc002cvx.3	O60503		ENST00000294016.3:c.3257A>T	16.37:g.4016581T>A	ENSP00000294016:p.Asn1086Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2V5|A7E2X2|D3DUD1|O60273|Q4ZHT9|Q4ZIR5|Q9BWT4|Q9UGP2	Missense_Mutation	SNP	ENST00000294016.3	37	CCDS32382.1	.	.	.	.	.	.	.	.	.	.	T	23.2	4.389093	0.82902	.	.	ENSG00000162104	ENST00000294016	T	0.40225	1.04	5.52	5.52	0.82312	Adenylyl cyclase class-3/4/guanylyl cyclase (5);	0.000000	0.85682	D	0.000000	T	0.75102	0.3804	H	0.95679	3.705	0.58432	D	0.999995	D	0.89917	1.0	D	0.97110	1.0	D	0.83486	0.0067	10	0.87932	D	0	.	15.9238	0.79597	0.0:0.0:0.0:1.0	.	1086	O60503	ADCY9_HUMAN	I	1086	ENSP00000294016:N1086I	ENSP00000294016:N1086I	N	-	2	0	ADCY9	3956582	1.000000	0.71417	0.998000	0.56505	0.996000	0.88848	7.997000	0.88414	2.221000	0.72209	0.533000	0.62120	AAC		0.582	ADCY9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438076.1			A	4016581	T	A	4016581	3	1	628	1	0	0	0	0	1	0	0	0	301	1725	60	5	808	5	ADCY9	16	4016581	Missense_Mutation	SNP	T	TCGA-KL-8329-01A-11D-2310-10	2710226	4016581	86338172	74	38665										
CSNK2A2	1459	broad.mit.edu	37	chr16	58199559	58199559	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gatctagggcctcagggctgAcaaggtgtctgttctcacta	12	10	4	1			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr16:58199559A>G	ENST00000262506.3	-	10	1064	c.881T>C	c.(880-882)gTc>gCc	p.V294A	CSNK2A2_ENST00000566813.1_5'UTR	NM_001896.2	NP_001887.1	P19784	CSK22_HUMAN	casein kinase 2, alpha prime polypeptide	294	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				apoptotic process (GO:0006915)|axon guidance (GO:0007411)|mitotic cell cycle (GO:0000278)|mitotic spindle checkpoint (GO:0071174)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)|Wnt signaling pathway (GO:0016055)	cytosol (GO:0005829)|nucleus (GO:0005634)	ATP binding (GO:0005524)|protein N-terminus binding (GO:0047485)|protein serine/threonine kinase activity (GO:0004674)			central_nervous_system(1)	1						CTCAGGGCTGACAAGGTGTCT	0.453																																					Melanoma(54;119 1219 18349 35700 39738)											0													136	120	125					16																	58199559		2198	4300	6498	SO:0001583	missense	1459			M55268	CCDS10794.1	16q21	2013-01-17			ENSG00000070770	ENSG00000070770			2459	protein-coding gene	gene with protein product		115442				2174700, 1766873	Standard	NM_001896		Approved	CSNK2A1	uc002enc.3	P19784	OTTHUMG00000133488	ENST00000262506.3:c.881T>C	16.37:g.58199559A>G	ENSP00000262506:p.Val294Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000262506.3	37	CCDS10794.1	.	.	.	.	.	.	.	.	.	.	A	16.41	3.115752	0.56505	.	.	ENSG00000070770	ENST00000262506	T	0.06849	3.25	5.75	5.75	0.90469	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.15176	0.0366	N	0.25825	0.765	0.80722	D	1	B	0.21452	0.056	P	0.48141	0.568	T	0.41233	-0.9520	10	0.17832	T	0.49	-14.6529	15.5278	0.75925	1.0:0.0:0.0:0.0	.	294	P19784	CSK22_HUMAN	A	294	ENSP00000262506:V294A	ENSP00000262506:V294A	V	-	2	0	CSNK2A2	56757060	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.287000	0.95975	2.320000	0.78422	0.528000	0.53228	GTC		0.453	CSNK2A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257386.2	NM_001896		G	58199559	A	G	58199559	3	3	628	1	0	0	0	0	1	0	0	0	3960	275	10	3	179	3	CSNK2A2	16	58199559	Missense_Mutation	SNP	A	TCGA-KL-8329-01A-11D-2310-10	54182978	58199559	32155194	75	38666										
MNT	4335	ucsc.edu	37	chr17	2290424	2290424	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gctgcgggtacaagggcagcTgggagcccaggtgggccaca	18	11	0	0			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr17:2290424T>C	ENST00000174618.4	-	6	1925	c.1520A>G	c.(1519-1521)cAg>cGg	p.Q507R	RP1-59D14.1_ENST00000571775.1_RNA|MNT_ENST00000575374.1_5'Flank	NM_020310.2	NP_064706.1	Q99583	MNT_HUMAN	MAX network transcriptional repressor	507					cell aging (GO:0007569)|multicellular organismal development (GO:0007275)|negative regulation of apoptotic signaling pathway (GO:2001234)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of cell cycle (GO:0051726)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001227)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)			endometrium(4)|large_intestine(5)|lung(1)|skin(1)|upper_aerodigestive_tract(1)	12				Colorectal(2;1.37e-05)|READ - Rectum adenocarcinoma(2;8.68e-05)		CAAGGGCAGCTGGGAGCCCAG	0.701																																																0													28	28	28					17																	2290424		2198	4292	6490	SO:0001583	missense	4335			Y13444	CCDS11018.1	17p13.3	2013-11-15	2013-11-15		ENSG00000070444	ENSG00000070444		"MAX dimerization proteins", "Basic helix-loop-helix proteins"	7188	protein-coding gene	gene with protein product	"myc antagonist", "Max-interacting protein"	603039	"MAX binding protein", "MNT, MAX dimerization protein"			9598315	Standard	NM_020310		Approved	ROX, MXD6, MAD6, bHLHd3	uc002fur.3	Q99583	OTTHUMG00000090603	ENST00000174618.4:c.1520A>G	17.37:g.2290424T>C	ENSP00000174618:p.Gln507Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6D1|D3DTI7|Q1ED38	Missense_Mutation	SNP	ENST00000174618.4	37	CCDS11018.1	.	.	.	.	.	.	.	.	.	.	T	14.53	2.561493	0.45590	.	.	ENSG00000070444	ENST00000174618;ENST00000404961	D	0.82984	-1.67	4.91	4.91	0.64330	.	0.111581	0.39909	N	0.001235	T	0.72211	0.3432	N	0.14661	0.345	0.45035	D	0.99805	P	0.42827	0.791	B	0.41236	0.351	T	0.76135	-0.3070	10	0.51188	T	0.08	-13.646	13.709	0.62656	0.0:0.0:0.0:1.0	.	507	Q99583	MNT_HUMAN	R	507	ENSP00000174618:Q507R	ENSP00000174618:Q507R	Q	-	2	0	MNT	2237174	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.652000	0.83633	1.844000	0.53588	0.482000	0.46254	CAG		0.701	MNT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207158.1	NM_020310		C	2290424	T	C	2290424	3	2	628	1	0	0	0	0	1	0	0	0	9685	1580	55	3	232	3	MNT	17	2290424	Missense_Mutation	SNP	T	TCGA-KL-8329-01A-11D-2310-10		2290424	78904786	76	38667										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	7577594	7577594	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tagttgtagtggatggtggtAcagtcagagccaacctagga	14	6	1	1			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr17:7577594A>T	ENST00000269305.4	-	7	876	c.687T>A	c.(685-687)tgT>tgA	p.C229*	TP53_ENST00000359597.4_Nonsense_Mutation_p.C229*|TP53_ENST00000445888.2_Nonsense_Mutation_p.C229*|TP53_ENST00000413465.2_Nonsense_Mutation_p.C229*|TP53_ENST00000574684.1_5'UTR|TP53_ENST00000455263.2_Nonsense_Mutation_p.C229*|TP53_ENST00000420246.2_Nonsense_Mutation_p.C229*	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	229	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with FBXO42.|Required for interaction with ZNF385A.		C -> G (in a sporadic cancer; somatic mutation).|C -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|C -> R (in sporadic cancers; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> Y (in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.C229fs*10(9)|p.0?(8)|p.?(5)|p.C229*(3)|p.C229_H233delCTTIH(2)|p.T230fs*9(1)|p.C229fs*1(1)|p.C229_T230insX(1)|p.C229C(1)|p.V225fs*23(1)|p.D228fs*12(1)|p.C229_I232del(1)|p.S227_I232delSDCTTI(1)|p.C136fs*10(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	GGATGGTGGTACAGTCAGAGC	0.527		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	36	Deletion - Frameshift(13)|Whole gene deletion(8)|Unknown(5)|Deletion - In frame(4)|Substitution - Nonsense(3)|Insertion - In frame(1)|Complex - frameshift(1)|Substitution - coding silent(1)	ovary(7)|biliary_tract(6)|breast(4)|bone(4)|haematopoietic_and_lymphoid_tissue(3)|oesophagus(3)|central_nervous_system(2)|upper_aerodigestive_tract(1)|stomach(1)|thymus(1)|large_intestine(1)|urinary_tract(1)|lung(1)|liver(1)	GRCh37	CD076915	TP53	D							104	85	91					17																	7577594		2203	4300	6503	SO:0001587	stop_gained	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.687T>A	17.37:g.7577594A>T	ENSP00000269305:p.Cys229*	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Nonsense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	A	26.5	4.745334	0.89663	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944	.	.	.	4.48	-0.453	0.12201	.	0.350628	0.33346	N	0.005002	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.07325	T	0.83	-0.3974	8.2175	0.31521	0.612:0.0:0.388:0.0	.	.	.	.	X	229;229;229;229;229;229;218;136;97;136	.	ENSP00000269305:C229X	C	-	3	2	TP53	7518319	0.331000	0.24713	0.231000	0.23993	0.944000	0.59088	0.148000	0.16224	-0.212000	0.10109	0.379000	0.24179	TGT		0.527	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		T	7577594	A	T	7577594	4	4	628	1	0	0	0	0	0	1	0	0	16393	389	14	5	603	5	TP53	17	7577594	Nonsense_Mutation	SNP	A	TCGA-KL-8329-01A-11D-2310-10	5287170	7577594	73617616	77	38668			2	79		3	3	1719	N	T_C_A	1.564135e-05
TP53	7157	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	7578235	7578235	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	aagtgtttctgtcatccaaaTactccacacgcaaatttcct	4	12	2	0			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr17:7578235T>C	ENST00000269305.4	-	6	803	c.614A>G	c.(613-615)tAt>tGt	p.Y205C	TP53_ENST00000359597.4_Missense_Mutation_p.Y205C|TP53_ENST00000445888.2_Missense_Mutation_p.Y205C|TP53_ENST00000413465.2_Missense_Mutation_p.Y205C|TP53_ENST00000574684.1_Intron|TP53_ENST00000455263.2_Missense_Mutation_p.Y205C|TP53_ENST00000420246.2_Missense_Mutation_p.Y205C	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	205	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with FBXO42.|Required for interaction with ZNF385A.		Y -> C (in sporadic cancers; somatic mutation). {ECO:0000269|PubMed:1459726}.|Y -> D (in sporadic cancers; somatic mutation).|Y -> F (in sporadic cancers; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> N (in sporadic cancers; somatic mutation).|Y -> S (in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.Y205C(68)|p.Y205S(14)|p.Y205F(8)|p.0?(8)|p.Y112C(5)|p.?(5)|p.Y73C(5)|p.Y73S(1)|p.Y112S(1)|p.E204fs*39(1)|p.E204_N210delEYLDDRN(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	GTCATCCAAATACTCCACACG	0.542		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	117	Substitution - Missense(102)|Whole gene deletion(8)|Unknown(5)|Deletion - In frame(1)|Deletion - Frameshift(1)	lung(20)|upper_aerodigestive_tract(19)|central_nervous_system(10)|large_intestine(9)|biliary_tract(8)|breast(6)|ovary(6)|haematopoietic_and_lymphoid_tissue(5)|endometrium(5)|urinary_tract(5)|bone(5)|soft_tissue(4)|oesophagus(4)|stomach(3)|liver(3)|pancreas(2)|vulva(1)|skin(1)|prostate(1)											136	121	126					17																	7578235		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.614A>G	17.37:g.7578235T>C	ENSP00000269305:p.Tyr205Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	T	17.85	3.490024	0.64074	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944;ENST00000414315	D;D;D;D;D;D;D;D	0.99872	-7.36;-7.36;-7.36;-7.36;-7.36;-7.36;-7.36;-7.36	5.41	4.33	0.51752	p53, DNA-binding domain (1);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.000000	0.85682	D	0.000000	D	0.99840	0.9927	M	0.88906	2.99	0.58432	D	0.999999	D;D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D;D	0.91635	0.995;0.998;0.995;0.997;0.999;0.997;0.996	D	0.97320	0.9943	10	0.87932	D	0	-5.8058	9.707	0.40222	0.0:0.0827:0.0:0.9173	.	166;205;205;112;205;205;205	B4E095;P04637-2;P04637-3;E9PFT5;P04637;Q1MSW8;E7EQX7	.;.;.;.;P53_HUMAN;.;.	C	205;205;205;205;205;205;194;112;73;112;73	ENSP00000410739:Y205C;ENSP00000352610:Y205C;ENSP00000269305:Y205C;ENSP00000398846:Y205C;ENSP00000391127:Y205C;ENSP00000391478:Y205C;ENSP00000425104:Y73C;ENSP00000423862:Y112C	ENSP00000269305:Y205C	Y	-	2	0	TP53	7518960	1.000000	0.71417	0.137000	0.22149	0.045000	0.14185	7.996000	0.88334	1.001000	0.39076	-0.256000	0.11100	TAT		0.542	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		C	7578235	T	C	7578235	3	2	628	1	0	0	0	0	1	0	0	0	16393	1406	49	3	680	3	TP53	17	7578235	Missense_Mutation	SNP	T	TCGA-KL-8329-01A-11D-2310-10	641	7578235	73616975	78	38669			2	79		3	3	1719	N	T_C_A	1.564135e-05
TP53	7157	hgsc.bcm.edu;mdanderson.org	37	chr17	7579312	7579312	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	agcccctcagggcaactgacCgtgcaagtcacagacttggc	11	14	2	2	rs55863639		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr17:7579312C>T	ENST00000269305.4	-	4	564	c.375G>A	c.(373-375)acG>acA	p.T125T	TP53_ENST00000359597.4_Splice_Site_p.T125T|TP53_ENST00000445888.2_Splice_Site_p.T125T|TP53_ENST00000413465.2_Splice_Site_p.T125T|TP53_ENST00000574684.1_5'Flank|TP53_ENST00000455263.2_Splice_Site_p.T125T|TP53_ENST00000420246.2_Splice_Site_p.T125T	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	125	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with FBXO42.|Required for interaction with ZNF385A.		T -> A (in a sporadic cancer; somatic mutation).|T -> K (in sporadic cancers; somatic mutation).|T -> M (in sporadic cancers; somatic mutation).|T -> P (in a sporadic cancer; somatic mutation).|T -> R (in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.T125T(51)|p.0?(8)|p.?(2)|p.V73fs*9(1)|p.G105_T125del21(1)|p.Y126fs*11(1)|p.P13fs*18(1)|p.T125_Y126insX(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	GGCAACTGACCGTGCAAGTCA	0.537		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	66	Substitution - coding silent(51)|Whole gene deletion(8)|Deletion - Frameshift(3)|Unknown(2)|Deletion - In frame(1)|Insertion - In frame(1)	lung(21)|haematopoietic_and_lymphoid_tissue(14)|large_intestine(8)|upper_aerodigestive_tract(7)|bone(4)|central_nervous_system(3)|biliary_tract(3)|stomach(1)|liver(1)|urinary_tract(1)|kidney(1)|ovary(1)|pancreas(1)	GRCh37	CS004351|CS011573|CS971913	TP53	S	rs55863639						66	61	63					17																	7579312		2203	4300	6503	SO:0001630	splice_region_variant	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.375+1G>A	17.37:g.7579312C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Silent	SNP	ENST00000269305.4	37	CCDS11118.1																																																																																				0.537	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546	Silent	T	7579312	C	T	7579312	5	4	628	1	0	0	0	0	0	0	1	0	16393	666	23	1	927	1	TP53	17	7579312	Splice_Site	SNP	C	TCGA-KL-8329-01A-11D-2310-10	1077	7579312	73615898	79	38670			2	79		3	3	1719	N	T_C_A	1.564135e-05
RAB11FIP4	84440	ucsc.edu	37	chr17	29844874	29844874	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gaaggacgggggacttggggGcctgtttctgccagaagaca	17	8	1	2			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr17:29844874G>T	ENST00000325874.8	+	4	771	c.542G>T	c.(541-543)gGc>gTc	p.G181V	RN7SL45P_ENST00000578050.1_RNA|RAB11FIP4_ENST00000394744.2_Missense_Mutation_p.G79V	NM_032932.3	NP_116321.2	Q86YS3	RFIP4_HUMAN	RAB11 family interacting protein 4 (class II)	181	Necessary for interaction with RAB11A, subcellular location, homo- or heterooligomerization.				cytokinesis (GO:0000910)|transport (GO:0006810)|viral process (GO:0016032)	cleavage furrow (GO:0032154)|endocytic vesicle (GO:0030139)|endosome (GO:0005768)|extracellular space (GO:0005615)|midbody (GO:0030496)|recycling endosome membrane (GO:0055038)	ADP-ribosylation factor binding (GO:0030306)|calcium ion binding (GO:0005509)|protein homodimerization activity (GO:0042803)|Rab GTPase binding (GO:0017137)			endometrium(2)|kidney(1)|large_intestine(5)|lung(3)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	19		all_cancers(10;3.62e-13)|all_epithelial(10;0.000387)|all_lung(9;0.0132)|Breast(31;0.014)|all_hematologic(16;0.015)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0259)|Ovarian(249;0.0423)|Lung NSC(157;0.066)				GGACTTGGGGGCCTGTTTCTG	0.567																																																0													13	16	15					17																	29844874		1993	3892	5885	SO:0001583	missense	84440			AB058724	CCDS11267.1	17q11.2	2013-01-10			ENSG00000131242	ENSG00000131242		"EF-hand domain containing"	30267	protein-coding gene	gene with protein product		611999				11347906, 11468690	Standard	NM_032932		Approved	RAB11-FIP4, KIAA1821, MGC11316, FLJ00131	uc002hgn.1	Q86YS3	OTTHUMG00000132787	ENST00000325874.8:c.542G>T	17.37:g.29844874G>T	ENSP00000312837:p.Gly181Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LI1|Q8N829|Q8NDT7|Q969D8	Missense_Mutation	SNP	ENST00000325874.8	37	CCDS11267.1	.	.	.	.	.	.	.	.	.	.	G	9.799	1.180141	0.21787	.	.	ENSG00000131242	ENST00000325874;ENST00000394744	.	.	.	5.55	2.41	0.29592	.	0.349613	0.32769	N	0.005677	T	0.43033	0.1229	L	0.29908	0.895	0.58432	D	0.999993	B;B	0.06786	0.001;0.001	B;B	0.08055	0.003;0.001	T	0.16482	-1.0401	8	.	.	.	-19.5212	13.7733	0.63038	0.0:0.4485:0.5515:0.0	.	79;181	Q86YS3-2;Q86YS3	.;RFIP4_HUMAN	V	181	.	.	G	+	2	0	RAB11FIP4	26868994	1.000000	0.71417	0.722000	0.30670	0.925000	0.55904	2.658000	0.46733	0.290000	0.22444	-0.438000	0.05819	GGC		0.567	RAB11FIP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256195.2	NM_032932		T	29844874	G	T	29844874	3	4	628	1	0	0	0	0	1	0	0	0	12909	1203	42	4	556	4	RAB11FIP4	17	29844874	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10	22265562	29844874	51350336	80	38671										
TLK2	11011	mdanderson.org	37	chr17	60637441	60637441	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gctagagaaatacaaggaacGattaaatagatgtgtgacaa	10	4	0	3			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr17:60637441G>A	ENST00000326270.9	+	10	1053	c.785G>A	c.(784-786)cGa>cAa	p.R262Q	TLK2_ENST00000343388.7_Missense_Mutation_p.R230Q|TLK2_ENST00000582809.1_Missense_Mutation_p.R113Q|TLK2_ENST00000346027.5_Missense_Mutation_p.R262Q|TLK2_ENST00000542523.1_Missense_Mutation_p.R230Q	NM_001284333.1	NP_001271262.1	Q86UE8	TLK2_HUMAN	tousled-like kinase 2	262			R -> Q. {ECO:0000269|PubMed:17344846}.		cell cycle (GO:0007049)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to gamma radiation (GO:0071480)|chromatin modification (GO:0016568)|chromosome segregation (GO:0007059)|intracellular signal transduction (GO:0035556)|negative regulation of autophagy (GO:0010507)|negative regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032435)|peptidyl-serine phosphorylation (GO:0018105)|protein phosphorylation (GO:0006468)|regulation of chromatin assembly or disassembly (GO:0001672)	intermediate filament (GO:0005882)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)	p.R262Q(17)|p.R261Q(9)		NS(1)|breast(2)|central_nervous_system(1)|endometrium(10)|kidney(4)|large_intestine(6)|liver(2)|lung(10)|prostate(1)|stomach(1)|urinary_tract(1)	39						TACAAGGAACGATTAAATAGA	0.358																																																26	Substitution - Missense(26)	endometrium(15)|kidney(9)|central_nervous_system(2)											72	74	73					17																	60637441		2203	4298	6501	SO:0001583	missense	11011			AB004884	CCDS11633.1, CCDS45753.1, CCDS62283.1	17q23	2008-07-18							11842	protein-coding gene	gene with protein product		608439				9427565, 10523312	Standard	NM_006852		Approved	PKU-ALPHA, MGC44450	uc002izz.4	Q86UE8		ENST00000326270.9:c.785G>A	17.37:g.60637441G>A	ENSP00000316512:p.Arg262Gln	Somatic		WXS	Illumina HiSeq	Phase_I	D3DU07|Q9UKI7|Q9Y4F7	Missense_Mutation	SNP	ENST00000326270.9	37		.	.	.	.	.	.	.	.	.	.	G	17.31	3.356600	0.61293	.	.	ENSG00000146872	ENST00000346027;ENST00000343388;ENST00000326270;ENST00000542523	T;T;T;T	0.66460	-0.16;-0.21;-0.13;-0.21	4.53	4.53	0.55603	.	0.000000	0.85682	D	0.000000	T	0.70474	0.3228	N	0.26092	0.79	0.80722	D	1	D;B;B;B	0.89917	1.0;0.369;0.031;0.135	D;B;B;B	0.85130	0.997;0.074;0.016;0.012	T	0.64896	-0.6299	10	0.17369	T	0.5	.	16.8221	0.85835	0.0:0.0:1.0:0.0	.	262;230;262;262	Q86UE8;Q86UE8-3;Q86UE8-2;D3DU05	TLK2_HUMAN;.;.;.	Q	262;230;262;230	ENSP00000275780:R262Q;ENSP00000340800:R230Q;ENSP00000316512:R262Q;ENSP00000442311:R230Q	ENSP00000316512:R262Q	R	+	2	0	TLK2	57991173	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	9.504000	0.97986	2.516000	0.84829	0.655000	0.94253	CGA		0.358	TLK2-004	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000445140.1	NM_006852		A	60637441	G	A	60637441	3	1	628	1	0	0	0	0	1	0	0	0	15956	1058	37	1	819	1	TLK2	17	60637441	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10	30792567	60637441	20557769	81	38672										
CASKIN2	57513	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	73502411	73502411	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gaagcagccgcaccacctcgGtcttgccatacagtgcggcc	11	16	1	0			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr17:73502411G>A	ENST00000321617.3	-	8	1287	c.701C>T	c.(700-702)aCc>aTc	p.T234I	CASKIN2_ENST00000581870.1_Missense_Mutation_p.T234I|CASKIN2_ENST00000433559.2_Missense_Mutation_p.T152I	NM_020753.3	NP_065804.2	Q8WXE0	CSKI2_HUMAN	CASK interacting protein 2	234						cytoplasm (GO:0005737)				endometrium(1)|kidney(3)|lung(7)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	18	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			CACCACCTCGGTCTTGCCATA	0.667																																																0													50	44	46					17																	73502411		2203	4299	6502	SO:0001583	missense	57513			AB032965	CCDS11723.1, CCDS45775.1	17q25.1	2014-09-04			ENSG00000177303	ENSG00000177303		"Sterile alpha motif (SAM) domain containing", "Ankyrin repeat domain containing"	18200	protein-coding gene	gene with protein product		612185				12040031	Standard	NM_020753		Approved	KIAA1139, FLJ21609, ANKS5B	uc002joc.4	Q8WXE0	OTTHUMG00000179683	ENST00000321617.3:c.701C>T	17.37:g.73502411G>A	ENSP00000325355:p.Thr234Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTT3|B7Z9H1|Q7LG69|Q9ULT1	Missense_Mutation	SNP	ENST00000321617.3	37	CCDS11723.1	.	.	.	.	.	.	.	.	.	.	G	35	5.596620	0.96602	.	.	ENSG00000177303	ENST00000321617;ENST00000433559	T;T	0.52057	0.68;0.68	5.46	5.46	0.80206	Ankyrin repeat-containing domain (4);	0.000000	0.48286	D	0.000200	T	0.53626	0.1808	N	0.12637	0.245	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.80764	0.994;0.988	T	0.61163	-0.7118	10	0.54805	T	0.06	.	19.3138	0.94204	0.0:0.0:1.0:0.0	.	152;234	Q8WXE0-2;Q8WXE0	.;CSKI2_HUMAN	I	234;152	ENSP00000325355:T234I;ENSP00000406963:T152I	ENSP00000325355:T234I	T	-	2	0	CASKIN2	71014006	1.000000	0.71417	0.985000	0.45067	0.982000	0.71751	9.807000	0.99171	2.561000	0.86390	0.655000	0.94253	ACC		0.667	CASKIN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447609.1	NM_020753		A	73502411	G	A	73502411	3	1	628	1	0	0	0	0	1	0	0	0	2669	1261	44	2	2959	2	CASKIN2	17	73502411	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10	12864970	73502411	7692799	82	38673										
SERPINB5	5268	mdanderson.org	37	chr18	61170782	61170782	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gagtggccctatcaaatgttAtccacaaagtgtgcttagaa	9	8	1	1	rs1455555	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr18:61170782A>G	ENST00000382771.4	+	7	1247	c.955A>G	c.(955-957)Atc>Gtc	p.I319V		NM_002639.4	NP_002630.2	P36952	SPB5_HUMAN	serpin peptidase inhibitor, clade B (ovalbumin), member 5	319			I -> V (in dbSNP:rs1455555). {ECO:0000269|PubMed:17974005}.		cellular component movement (GO:0006928)|extracellular matrix organization (GO:0030198)|morphogenesis of an epithelium (GO:0002009)|negative regulation of endopeptidase activity (GO:0010951)|prostate gland morphogenesis (GO:0060512)|regulation of epithelial cell proliferation (GO:0050678)|regulation of proteolysis (GO:0030162)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	serine-type endopeptidase inhibitor activity (GO:0004867)			kidney(3)|large_intestine(2)|lung(5)|ovary(1)|prostate(1)	12						ATCAAATGTTATCCACAAAGT	0.458													A|||	1827	0.364816	0.1884	0.4092	5008	,	,		19831	0.4871		0.4662	False		,,,				2504	0.3415															0								A	VAL/ILE	1023,3383	378.5+/-322.9	133,757,1313	92	76	81		955	0.5	0.4	18	dbSNP_88	81	4244,4356	573.4+/-389.9	1069,2106,1125	yes	missense	SERPINB5	NM_002639.4	29	1202,2863,2438	GG,GA,AA		49.3488,23.2183,40.4967	benign	319/376	61170782	5267,7739	2203	4300	6503	SO:0001583	missense	5268			U04313	CCDS32839.1	18q21.33	2014-02-18	2005-08-18		ENSG00000206075	ENSG00000206075		"Serine (or cysteine) peptidase inhibitors"	8949	protein-coding gene	gene with protein product	"protease inhibitor 5 (maspin)"	154790	"serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 5"	PI5		8290962, 7724531, 16720730, 24172014	Standard	NM_002639		Approved	maspin	uc002liz.4	P36952	OTTHUMG00000141307	ENST00000382771.4:c.955A>G	18.37:g.61170782A>G	ENSP00000372221:p.Ile319Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6Y4|Q6N0B4|Q8WW89	Missense_Mutation	SNP	ENST00000382771.4	37	CCDS32839.1	872	0.3992673992673993	82	0.16666666666666666	155	0.4281767955801105	263	0.4597902097902098	372	0.49076517150395776	A	0.603	-0.828305	0.02734	0.232183	0.493488	ENSG00000206075	ENST00000382771	D	0.83075	-1.68	5.95	0.527	0.17084	Serpin domain (3);	0.270437	0.36409	N	0.002601	T	0.00012	0.0000	N	0.20357	0.565	0.23271	P	0.99800098	B	0.02656	0.0	B	0.06405	0.002	T	0.24728	-1.0152	9	0.02654	T	1	.	9.8568	0.41090	0.723:0.0:0.277:0.0	rs1455555;rs3744947;rs52802635;rs60882957;rs1455555	319	P36952	SPB5_HUMAN	V	319	ENSP00000372221:I319V	ENSP00000372221:I319V	I	+	1	0	SERPINB5	59321762	0.957000	0.32711	0.446000	0.26920	0.819000	0.46315	1.402000	0.34600	0.088000	0.17205	-0.290000	0.09829	ATC		0.458	SERPINB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280629.1	NM_002639		G	61170782	A	G	61170782	3	3	628	1	0	0	0	0	1	0	0	0	14117	449	16	3	977	3	SERPINB5	18	61170782	Missense_Mutation	SNP	A	TCGA-KL-8329-01A-11D-2310-10		61170782	16906466	83	38674										
PLIN5	440503	ucsc.edu;bcgsc.ca	37	chr19	4534034	4534034	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gggcagccctcacctgctggTcctgctcccacacactggat	10	17	1	0			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr19:4534034T>C	ENST00000381848.3	-	2	133	c.53A>G	c.(52-54)gAc>gGc	p.D18G	PLIN5_ENST00000592610.1_Missense_Mutation_p.D18G|PLIN5_ENST00000586133.1_Missense_Mutation_p.D18G|CTB-50L17.14_ENST00000586020.1_Missense_Mutation_p.T36A	NM_001013706.2	NP_001013728.2	Q00G26	PLIN5_HUMAN	perilipin 5	18	Essential for lipid droplet targeting. {ECO:0000250}.|Interaction with LIPE. {ECO:0000250}.				lipid particle organization (GO:0034389)|lipid storage (GO:0019915)|mitochondrion localization (GO:0051646)|negative regulation of fatty acid beta-oxidation (GO:0031999)|negative regulation of lipase activity (GO:0060192)|negative regulation of peroxisome proliferator activated receptor signaling pathway (GO:0035359)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of triglyceride catabolic process (GO:0010897)|positive regulation of fatty acid beta-oxidation (GO:0032000)|positive regulation of lipase activity (GO:0060193)|positive regulation of lipid storage (GO:0010884)|positive regulation of sequestering of triglyceride (GO:0010890)|positive regulation of triglyceride biosynthetic process (GO:0010867)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|lipid particle (GO:0005811)|mitochondrion (GO:0005739)				endometrium(4)|lung(3)|skin(2)|upper_aerodigestive_tract(1)	10						CACCTGCTGGTCCTGCTCCCA	0.607																																																0													35	39	37					19																	4534034		2027	4181	6208	SO:0001583	missense	440503			DQ839131	CCDS42473.1	19p13.3	2009-08-12			ENSG00000214456	ENSG00000214456		"Perilipins"	33196	protein-coding gene	gene with protein product	"lipid storage droplet protein 5"	613248				17234449, 19638644	Standard	NM_001013706		Approved	LSDP5, LSDA5, OXPAT, MLDP	uc002mas.3	Q00G26		ENST00000381848.3:c.53A>G	19.37:g.4534034T>C	ENSP00000371272:p.Asp18Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRC1|Q6ZS68	Missense_Mutation	SNP	ENST00000381848.3	37	CCDS42473.1	.	.	.	.	.	.	.	.	.	.	.	2.952	-0.216591	0.06101	.	.	ENSG00000214456	ENST00000381848	T	0.05855	3.38	2.48	1.45	0.22620	.	0.840776	0.09839	U	0.749059	T	0.07279	0.0184	L	0.50333	1.59	0.09310	N	1	B;B	0.19200	0.034;0.017	B;B	0.19946	0.027;0.025	T	0.40213	-0.9575	10	0.32370	T	0.25	.	7.4427	0.27192	0.0:0.0:0.2189:0.7811	.	18;18	Q00G26-2;Q00G26	.;PLIN5_HUMAN	G	18	ENSP00000371272:D18G	ENSP00000371272:D18G	D	-	2	0	PLIN5	4485034	0.004000	0.15560	0.216000	0.23742	0.025000	0.11179	0.827000	0.27421	-0.006000	0.14370	-1.788000	0.00630	GAC		0.607	PLIN5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458647.1	NM_001013706		C	4534034	T	C	4534034	3	2	628	1	0	0	0	0	1	0	0	0	12100	1667	58	3	1366	3	PLIN5	19	4534034	Missense_Mutation	SNP	T	TCGA-KL-8329-01A-11D-2310-10		4534034	54594949	84	38675										
EMR2	30817	mdanderson.org	37	chr19	14877799	14877799	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ggggcctctacctgtgcagaGcttcgggtcctcaggtttga	14	11	2	2	rs12976472	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr19:14877799G>C	ENST00000315576.3	-	6	929	c.478C>G	c.(478-480)Ctc>Gtc	p.L160V	EMR2_ENST00000599423.1_5'Flank|EMR2_ENST00000392967.2_Missense_Mutation_p.L160V|EMR2_ENST00000353876.1_Intron|EMR2_ENST00000346057.1_Missense_Mutation_p.L160V|EMR2_ENST00000601345.1_Missense_Mutation_p.L160V|EMR2_ENST00000596991.2_Missense_Mutation_p.L160V|EMR2_ENST00000353005.1_Intron|EMR2_ENST00000392965.3_Missense_Mutation_p.L160V|EMR2_ENST00000594294.1_Missense_Mutation_p.L160V|EMR2_ENST00000392964.3_5'UTR|EMR2_ENST00000595839.1_Intron|EMR2_ENST00000594076.1_Intron	NM_013447.3	NP_038475.2	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone receptor-like 2	160	EGF-like 3; calcium-binding. {ECO:0000255|PROSITE-ProRule:PRU00076}.				cell adhesion (GO:0007155)|cell migration (GO:0016477)|G-protein coupled receptor signaling pathway (GO:0007186)|granulocyte chemotaxis (GO:0071621)|inflammatory response (GO:0006954)|neuropeptide signaling pathway (GO:0007218)	cell projection (GO:0042995)|integral component of membrane (GO:0016021)|leading edge membrane (GO:0031256)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|chondroitin sulfate binding (GO:0035374)|G-protein coupled receptor activity (GO:0004930)			breast(1)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(8)|lung(19)|ovary(1)|prostate(2)|skin(6)|upper_aerodigestive_tract(1)	48						CCTGTGCAGAGCTTCGGGTCC	0.617																																																0								G	VAL/LEU,VAL/LEU,,,VAL/LEU,VAL/LEU,	1741,2609		740,261,1174	36	42	40		478,478,,,478,478,	-1.3	0	19	dbSNP_121	40	2362,6160		964,434,2863	yes	missense,missense,intron,intron,missense,missense,intron	EMR2	NM_013447.2,NM_152916.1,NM_152917.1,NM_152918.1,NM_152919.1,NM_152920.1,NM_152921.1	32,32,,,32,32,	1704,695,4037	CC,CG,GG		27.7165,40.023,31.8754	benign,benign,,,benign,benign,	160/824,160/775,,,160/813,160/764,	14877799	4103,8769	2175	4261	6436	SO:0001583	missense	30817			AF114491	CCDS32935.1, CCDS59361.1	19p13.1	2014-08-08	2003-11-26			ENSG00000127507		"CD molecules", "-", "GPCR / Class B : Orphans"	3337	protein-coding gene	gene with protein product		606100	"egf-like module containing, mucin-like, hormone receptor-like sequence 2"				Standard	NM_013447		Approved	CD312	uc002mzp.2	Q9UHX3		ENST00000315576.3:c.478C>G	19.37:g.14877799G>C	ENSP00000319883:p.Leu160Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DQ96|E7ESD7|E9PBR1|E9PEL6|E9PFQ5|E9PG91|Q8NG96|Q9Y4B1	Missense_Mutation	SNP	ENST00000315576.3	37	CCDS32935.1	839	0.3841575091575092	243	0.49390243902439024	152	0.4198895027624309	169	0.29545454545454547	275	0.3627968337730871	G	0.563	-0.844360	0.02671	0.40023	0.277165	ENSG00000127507	ENST00000315576;ENST00000392967;ENST00000346057;ENST00000360222;ENST00000392965;ENST00000392962	T;T;T;T;T	0.78364	-0.86;-0.99;-1.17;-1.15;-1.04	3.06	-1.28	0.09318	EGF-like calcium-binding (1);Epidermal growth factor-like, type 3 (1);	.	.	.	.	T	0.00012	0.0000	N	0.14661	0.345	0.80722	P	0.0	P;B;B;B	0.42757	0.789;0.008;0.097;0.019	B;B;B;B	0.40940	0.344;0.019;0.046;0.015	T	0.30297	-0.9983	8	0.09590	T	0.72	.	4.8562	0.13561	0.0:0.2107:0.3614:0.4279	rs12976472	160;160;160;160	E7ESD7;Q9UHX3-3;Q9UHX3;Q9UHX3-2	.;.;EMR2_HUMAN;.	V	160	ENSP00000319883:L160V;ENSP00000376694:L160V;ENSP00000263380:L160V;ENSP00000376692:L160V;ENSP00000376689:L160V	ENSP00000319883:L160V	L	-	1	0	EMR2	14738799	0.000000	0.05858	0.000000	0.03702	0.034000	0.12701	-0.286000	0.08399	0.069000	0.16605	0.508000	0.49915	CTC		0.617	EMR2-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000466502.2			C	14877799	G	C	14877799	3	2	628	1	0	0	0	0	1	0	0	0	5107	971	34	4	2057	4	EMR2	19	14877799	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10	10343765	14877799	44251184	85	38676										
ZNF676	163223	mdanderson.org	37	chr19	22363737	22363737	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gggttgagacgctactaaatCctttgccacattcttcacat	7	11	2	1	rs572031376	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr19:22363737C>G	ENST00000397121.2	-	3	1099	c.782G>C	c.(781-783)gGa>gCa	p.G261A		NM_001001411.2	NP_001001411.2	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	261					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(49)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	67		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				GCTACTAAATCCTTTGCCACA	0.393													G|||	17	0.00339457	0.0015	0.0029	5008	,	,		24868	0.0089		0.003	False		,,,				2504	0.001															0													89	96	93					19																	22363737		2158	4274	6432	SO:0001583	missense	163223			AK097798	CCDS42539.1	19p12	2013-01-08				ENSG00000196109		"Zinc fingers, C2H2-type"	20429	protein-coding gene	gene with protein product							Standard	NM_001001411		Approved		uc002nqs.1	Q8N7Q3		ENST00000397121.2:c.782G>C	19.37:g.22363737C>G	ENSP00000380310:p.Gly261Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8MVX5	Missense_Mutation	SNP	ENST00000397121.2	37	CCDS42539.1	.	.	.	.	.	.	.	.	.	.	.	0.001	-3.455683	0.00012	.	.	ENSG00000196109	ENST00000397121	T	0.35236	1.32	0.81	-1.62	0.08372	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.09247	0.0228	N	0.00788	-1.185	0.09310	N	1	B	0.11235	0.004	B	0.14023	0.01	T	0.28996	-1.0026	9	0.02654	T	1	.	8.4431	0.32826	0.0:0.685:0.315:0.0	.	261	Q8N7Q3	ZN676_HUMAN	A	261	ENSP00000380310:G261A	ENSP00000380310:G261A	G	-	2	0	ZNF676	22155577	0.000000	0.05858	0.002000	0.10522	0.002000	0.02628	-0.024000	0.12435	-1.409000	0.02038	-1.398000	0.01145	GGA		0.393	ZNF676-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464392.1	NM_001001411		G	22363737	C	G	22363737	3	3	628	1	0	0	0	0	1	0	0	0	18095	855	30	4	988	4	ZNF676	19	22363737	Missense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10	7485938	22363737	36765246	86	38677										
ANKRD27	84079	broad.mit.edu;mdanderson.org	37	chr19	33113410	33113410	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ctccgttctgcagcaatgtcTctatgacgccttggtagccc	9	14	2	1			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr19:33113410T>C	ENST00000306065.4	-	18	1903	c.1745A>G	c.(1744-1746)gAg>gGg	p.E582G		NM_032139.2	NP_115515.2	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	582					early endosome to late endosome transport (GO:0045022)|positive regulation of GTPase activity (GO:0043547)	cytoplasm (GO:0005737)|early endosome (GO:0005769)|lysosome (GO:0005764)|membrane (GO:0016020)	GTPase activator activity (GO:0005096)|guanyl-nucleotide exchange factor activity (GO:0005085)			breast(3)|endometrium(7)|kidney(2)|large_intestine(6)|lung(15)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(2)	42	Esophageal squamous(110;0.137)					CAGCAATGTCTCTATGACGCC	0.527																																																0													204	184	191					19																	33113410		2203	4300	6503	SO:0001583	missense	84079			AK054561	CCDS32986.1	19q13.12	2013-01-10				ENSG00000105186		"Ankyrin repeat domain containing"	25310	protein-coding gene	gene with protein product	"Vps9 domain and ankyrin-repeat-containing protein"					11230166, 16525121	Standard	NM_032139		Approved	FLJ00040, DKFZp434L0718, VARP	uc002ntn.1	Q96NW4		ENST00000306065.4:c.1745A>G	19.37:g.33113410T>C	ENSP00000304292:p.Glu582Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q71MF5|Q86UC3|Q8ND80|Q9H0I4	Missense_Mutation	SNP	ENST00000306065.4	37	CCDS32986.1	.	.	.	.	.	.	.	.	.	.	T	15.95	2.984865	0.53934	.	.	ENSG00000105186	ENST00000306065	T	0.68025	-0.3	5.31	5.31	0.75309	Ankyrin repeat-containing domain (3);	0.098841	0.43919	D	0.000519	T	0.67069	0.2854	M	0.71206	2.165	0.80722	D	1	P	0.40332	0.713	B	0.37731	0.257	T	0.73183	-0.4063	10	0.72032	D	0.01	-27.6989	15.5369	0.76011	0.0:0.0:0.0:1.0	.	582	Q96NW4	ANR27_HUMAN	G	582	ENSP00000304292:E582G	ENSP00000304292:E582G	E	-	2	0	ANKRD27	37805250	1.000000	0.71417	1.000000	0.80357	0.639000	0.38242	4.630000	0.61297	2.135000	0.66039	0.533000	0.62120	GAG		0.527	ANKRD27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450329.1	NM_032139		C	33113410	T	C	33113410	3	2	628	1	0	0	0	0	1	0	0	0	655	1551	54	3	1455	3	ANKRD27	19	33113410	Missense_Mutation	SNP	T	TCGA-KL-8329-01A-11D-2310-10	10749673	33113410	26015573	87	38678										
CEACAM5	1048	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr19	42222091	42222091	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ccccctcatacacctattacCgtccaggggtgaacctcagc	7	17	2	1	rs368617829		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr19:42222091C>T	ENST00000221992.6	+	6	1396	c.1282C>T	c.(1282-1284)Cgt>Tgt	p.R428C	CEACAM5_ENST00000398599.4_Missense_Mutation_p.R427C|CEA_ENST00000598976.1_Intron|CEACAM5_ENST00000405816.1_Missense_Mutation_p.R428C	NM_004363.2	NP_004354.2	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion molecule 5	428	Ig-like 5.				homotypic cell-cell adhesion (GO:0034109)|negative regulation of anoikis (GO:2000811)|negative regulation of apoptotic process (GO:0043066)|negative regulation of myotube differentiation (GO:0010832)	anchored component of membrane (GO:0031225)|basolateral plasma membrane (GO:0016323)|extracellular vesicular exosome (GO:0070062)|integral component of external side of plasma membrane (GO:0071575)|integral component of plasma membrane (GO:0005887)	GPI anchor binding (GO:0034235)|identical protein binding (GO:0042802)|protein homodimerization activity (GO:0042803)			breast(1)|endometrium(3)|kidney(5)|large_intestine(4)|lung(10)|ovary(2)|skin(7)|stomach(1)|urinary_tract(1)	34				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		CACCTATTACCGTCCAGGGGT	0.537																																																0								C	CYS/ARG	0,4406		0,0,2203	117	104	108		1282	-4.8	0	19		108	1,8599	1.2+/-3.3	0,1,4299	no	missense	CEACAM5	NM_004363.2	180	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	428/703	42222091	1,13005	2203	4300	6503	SO:0001583	missense	1048			M17303	CCDS12584.1	19q13.1-q13.2	2013-01-29			ENSG00000105388	ENSG00000105388		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	1817	protein-coding gene	gene with protein product		114890		CEA			Standard	XM_005258413		Approved	CD66e	uc002orl.3	P06731	OTTHUMG00000151061	ENST00000221992.6:c.1282C>T	19.37:g.42222091C>T	ENSP00000221992:p.Arg428Cys	Somatic		WXS	Illumina HiSeq	Phase_I	H9KVA7	Missense_Mutation	SNP	ENST00000221992.6	37	CCDS12584.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	9.391|9.391	1.075422|1.075422	0.20227|0.20227	0.0|0.0	1.16E-4|1.16E-4	ENSG00000105388|ENSG00000105388	ENST00000398599|ENST00000221992;ENST00000405816;ENST00000378181	.|T;T	.|0.13901	.|2.55;2.55	2.39|2.39	-4.78|-4.78	0.03209|0.03209	.|Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.|.	.|.	.|.	.|.	T|T	0.36496|0.36496	0.0969|0.0969	H|H	0.94847|0.94847	3.59|3.59	0.09310|0.09310	N|N	1|1	.|D;D	.|0.89917	.|1.0;0.994	.|D;P	.|0.74348	.|0.983;0.903	T|T	0.10706|0.10706	-1.0618|-1.0618	5|9	.|0.39692	.|T	.|0.17	.|.	3.1996|3.1996	0.06645|0.06645	0.4898:0.232:0.0:0.2782|0.4898:0.232:0.0:0.2782	.|.	.|428;428	.|P06731;Q53G30	.|CEAM5_HUMAN;.	L|C	423|428;428;146	.|ENSP00000221992:R428C;ENSP00000385072:R428C	.|ENSP00000221992:R428C	P|R	+|+	2|1	0|0	CEACAM5|CEACAM5	46913931|46913931	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.000000|0.000000	0.00434|0.00434	-1.139000|-1.139000	0.03213|0.03213	-1.408000|-1.408000	0.02040|0.02040	-1.948000|-1.948000	0.00487|0.00487	CCG|CGT		0.537	CEACAM5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000321132.2	NM_004363		T	42222091	C	T	42222091	3	4	628	1	0	0	0	0	1	0	0	0	3197	652	23	1	1304	1	CEACAM5	19	42222091	Missense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10	9108681	42222091	16906892	88	38679										
ZNF225	7768	broad.mit.edu;hgsc.bcm.edu	37	chr19	44635141	44635142	+	Frame_Shift_Ins	INS	-	-	CAAA													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gtaaacagctttcagttctcINScaaacaagatgatatgccct							TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr19:44635141_44635142insCAAA	ENST00000262894.6	+	5	654_655	c.374_375insCAAA	c.(373-378)tccaaafs	p.-127fs	ZNF225_ENST00000592780.1_3'UTR|ZNF225_ENST00000590612.1_Frame_Shift_Ins_p.-127fs	NM_013362.2	NP_037494.2	Q9UK10	ZN225_HUMAN	zinc finger protein 225						regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(7)|skin(1)|stomach(1)	16		Prostate(69;0.0352)|all_neural(266;0.202)				TTTCAGTTCTCCAAACAAGATG	0.421																																																0																																										SO:0001589	frameshift_variant	7768			AF187991	CCDS46100.1	19q13.31	2013-01-08				ENSG00000256294		"Zinc fingers, C2H2-type", "-"	13018	protein-coding gene	gene with protein product							Standard	NM_013362		Approved		uc002oyj.1	Q9UK10		ENST00000262894.6:c.375_378dupCAAA	19.37:g.44635142_44635145dupCAAA	ENSP00000262894:p.Gln127fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8S2|Q53F12|Q9NS46|Q9UID8	Frame_Shift_Ins	INS	ENST00000262894.6	37	CCDS46100.1																																																																																				0.421	ZNF225-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460581.1			CAAA	44635142	-	CAAA	44635141	7	5	628	1	0	1	1	0	0	0	0	0	17791	855	30	0	388	0	ZNF225	19	44635141	Frame_Shift_Ins	INS	-	TCGA-KL-8329-01A-11D-2310-10	2413050	44635141	14493842	89	38680	312	2								
ZNF225	7768	bcgsc.ca	37	chr19	44635142	44635143	+	Frame_Shift_Ins	INS	-	-	CAAA													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	taaacagctttcagttctccINSaaacaagatgatatgccctg					rs184915163	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr19:44635142_44635143insCAAA	ENST00000262894.6	+	5	655_656	c.375_376insCAAA	c.(376-378)aaafs	p.-125fs	ZNF225_ENST00000592780.1_3'UTR|ZNF225_ENST00000590612.1_Frame_Shift_Ins_p.-125fs	NM_013362.2	NP_037494.2	Q9UK10	ZN225_HUMAN	zinc finger protein 225						regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(7)|skin(1)|stomach(1)	16		Prostate(69;0.0352)|all_neural(266;0.202)				TTCAGTTCTCCAAACAAGATGA	0.421																																																0																																										SO:0001589	frameshift_variant	7768			AF187991	CCDS46100.1	19q13.31	2013-01-08				ENSG00000256294		"Zinc fingers, C2H2-type", "-"	13018	protein-coding gene	gene with protein product							Standard	NM_013362		Approved		uc002oyj.1	Q9UK10		Exception_encountered	19.37:g.44635142_44635143insCAAA	ENSP00000262894:p.Ser125fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8S2|Q53F12|Q9NS46|Q9UID8	Frame_Shift_Ins	INS	ENST00000262894.6	37	CCDS46100.1																																																																																				0.421	ZNF225-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460581.1			CAAA	44635143	-	CAAA	44635142	7	5	628	1	0	1	1	0	0	0	0	0	17791	581	21	0	389	0	ZNF225	19	44635142	Frame_Shift_Ins	INS	-	TCGA-KL-8329-01A-11D-2310-10	1	44635142	14493841	90	38681	312	2								
ZNF285	26974	mdanderson.org	37	chr19	44890685	44890685	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tgatgagtcagaaggtccttTccacgctcacaatgtgtgta	10	9	2	3	rs73039936	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr19:44890685T>G	ENST00000330997.4	-	4	1786	c.1722A>C	c.(1720-1722)ggA>ggC	p.G574G	ZNF285_ENST00000544719.2_Silent_p.G574G|ZNF285_ENST00000591679.1_Silent_p.G581G|CTC-512J12.6_ENST00000588212.1_Intron	NM_152354.3	NP_689567.3	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	574					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(15)|ovary(2)|prostate(5)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(2)	44						GAAGGTCCTTTCCACGCTCAC	0.418													T|||	491	0.0980431	0.0446	0.0821	5008	,	,		24509	0.1696		0.0646	False		,,,				2504	0.1421															0													161	129	140					19																	44890685		2203	4300	6503	SO:0001819	synonymous_variant	26974			AK055309	CCDS12638.1, CCDS74389.1	19q13.32	2013-01-08	2010-04-14	2010-04-14		ENSG00000267508		"Zinc fingers, C2H2-type", "-"	13079	protein-coding gene	gene with protein product			"zinc finger protein 285A"	ZNF285A			Standard	XM_005258734		Approved			Q96NJ3	OTTHUMG00000178848	ENST00000330997.4:c.1722A>C	19.37:g.44890685T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q17RJ3|Q6B0A8|Q6ISR5	Silent	SNP	ENST00000330997.4	37	CCDS12638.1																																																																																				0.418	ZNF285-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443600.1	NM_152354		G	44890685	T	G	44890685	2	3	628	1	0	0	0	0	0	0	0	1	17834	1770	62	5		5	ZNF285	19	44890685	Silent	SNP	T	TCGA-KL-8329-01A-11D-2310-10	255543	44890685	14238298	91	38682										
LILRB5	10990	mdanderson.org	37	chr19	54758897	54758897	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gggcgggtatgtcagggatcAgtcctggagagaagaaggat	18	5	2	2	rs201754865		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr19:54758897A>T	ENST00000316219.5	-	6	1063	c.956T>A	c.(955-957)cTg>cAg	p.L319Q	LILRB5_ENST00000449561.2_Missense_Mutation_p.L319Q|LILRB5_ENST00000345866.6_Missense_Mutation_p.L219Q|LILRB5_ENST00000450632.1_Missense_Mutation_p.L310Q	NM_001081442.1|NM_006840.3	NP_001074911.1|NP_006831.1	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 5	319					cell surface receptor signaling pathway (GO:0007166)|defense response (GO:0006952)|immune system process (GO:0002376)	integral component of membrane (GO:0016021)	transmembrane signaling receptor activity (GO:0004888)			NS(1)|breast(1)|endometrium(3)|kidney(5)|large_intestine(12)|lung(25)|ovary(1)|pancreas(1)|prostate(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	56	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)		GTCAGGGATCAGTCCTGGAGA	0.597																																																0													21	21	21					19																	54758897		2202	4300	6502	SO:0001583	missense	10990			AF025534	CCDS12885.1, CCDS42611.1, CCDS46176.1	19q13.4	2013-01-11			ENSG00000105609	ENSG00000105609		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6609	protein-coding gene	gene with protein product		604814				9548455	Standard	NM_006840		Approved	LIR-8, LIR8, CD85c	uc002qey.3	O75023	OTTHUMG00000066636	ENST00000316219.5:c.956T>A	19.37:g.54758897A>T	ENSP00000320390:p.Leu319Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N760	Missense_Mutation	SNP	ENST00000316219.5	37	CCDS12885.1	.	.	.	.	.	.	.	.	.	.	A	0.011	-1.693568	0.00731	.	.	ENSG00000105609	ENST00000316219;ENST00000450632;ENST00000449561;ENST00000345866	T;T;T;T	0.00476	7.2;7.15;7.19;7.18	3.32	-4.58	0.03410	.	1.425370	0.05061	N	0.479896	T	0.00109	0.0003	N	0.00277	-1.72	0.09310	N	1	B;B;B;B;B	0.12630	0.001;0.006;0.003;0.001;0.0	B;B;B;B;B	0.12837	0.004;0.008;0.007;0.002;0.002	T	0.43458	-0.9390	10	0.02654	T	1	.	0.9412	0.01355	0.3013:0.1143:0.3475:0.2369	.	310;210;219;319;319	C9JMK7;Q8NF80;O75023-2;O75023-3;O75023	.;.;.;.;LIRB5_HUMAN	Q	319;310;319;219	ENSP00000320390:L319Q;ENSP00000414225:L310Q;ENSP00000406478:L319Q;ENSP00000263430:L219Q	ENSP00000320390:L319Q	L	-	2	0	LILRB5	59450709	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-3.550000	0.00434	-0.714000	0.04975	-0.460000	0.05396	CTG		0.597	LILRB5-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000142877.2			T	54758897	A	T	54758897	3	4	628	1	0	0	0	0	1	0	0	0	8801	188	7	5	851	5	LILRB5	19	54758897	Missense_Mutation	SNP	A	TCGA-KL-8329-01A-11D-2310-10	9868212	54758897	4370086	92	38683			3	80		3	3	394	N	G_C_A	8.19239e-07
LILRB5	10990	mdanderson.org	37	chr19	54759241	54759241	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tgtactggcccccgtgggagCggctcacagggcccagggtg	17	13	1	0	rs146167320		TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr19:54759241C>G	ENST00000316219.5	-	5	967	c.860G>C	c.(859-861)cGc>cCc	p.R287P	LILRB5_ENST00000449561.2_Missense_Mutation_p.R287P|LILRB5_ENST00000345866.6_Missense_Mutation_p.R187P|LILRB5_ENST00000450632.1_Missense_Mutation_p.R278P	NM_001081442.1|NM_006840.3	NP_001074911.1|NP_006831.1	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 5	287	Ig-like C2-type 3.				cell surface receptor signaling pathway (GO:0007166)|defense response (GO:0006952)|immune system process (GO:0002376)	integral component of membrane (GO:0016021)	transmembrane signaling receptor activity (GO:0004888)			NS(1)|breast(1)|endometrium(3)|kidney(5)|large_intestine(12)|lung(25)|ovary(1)|pancreas(1)|prostate(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	56	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)		CCCGTGGGAGCGGCTCACAGG	0.662																																																0													42	43	42					19																	54759241		2203	4299	6502	SO:0001583	missense	10990			AF025534	CCDS12885.1, CCDS42611.1, CCDS46176.1	19q13.4	2013-01-11			ENSG00000105609	ENSG00000105609		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6609	protein-coding gene	gene with protein product		604814				9548455	Standard	NM_006840		Approved	LIR-8, LIR8, CD85c	uc002qey.3	O75023	OTTHUMG00000066636	ENST00000316219.5:c.860G>C	19.37:g.54759241C>G	ENSP00000320390:p.Arg287Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N760	Missense_Mutation	SNP	ENST00000316219.5	37	CCDS12885.1	.	.	.	.	.	.	.	.	.	.	C	0.152	-1.090490	0.01873	.	.	ENSG00000105609	ENST00000316219;ENST00000450632;ENST00000449561;ENST00000345866	T;T;T;T	0.11277	2.79;2.79;2.79;2.79	2.35	-4.71	0.03279	Immunoglobulin subtype (1);Immunoglobulin-like fold (1);	3.187420	0.01181	N	0.007095	T	0.04272	0.0118	N	0.03294	-0.36	0.09310	N	1	B;B;B;B;B	0.23185	0.012;0.081;0.034;0.066;0.003	B;B;B;B;B	0.27500	0.036;0.033;0.045;0.08;0.018	T	0.27226	-1.0080	10	0.23302	T	0.38	.	0.448	0.00497	0.3596:0.2013:0.2366:0.2026	.	278;178;187;287;287	C9JMK7;Q8NF80;O75023-2;O75023-3;O75023	.;.;.;.;LIRB5_HUMAN	P	287;278;287;187	ENSP00000320390:R287P;ENSP00000414225:R278P;ENSP00000406478:R287P;ENSP00000263430:R187P	ENSP00000320390:R287P	R	-	2	0	LILRB5	59451053	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-4.171000	0.00281	-3.550000	0.00142	-0.827000	0.03088	CGC		0.662	LILRB5-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000142877.2			G	54759241	C	G	54759241	3	3	628	1	0	0	0	0	1	0	0	0	8801	768	27	4	951	4	LILRB5	19	54759241	Missense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10	344	54759241	4369742	93	38684			3	80		3	3	394	N	G_C_A	8.19239e-07
LILRB5	10990	mdanderson.org	37	chr19	54759290	54759290	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ctgggagagcccagcctgggGctgctggccagagccctgga	17	13	0	2			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr19:54759290G>A	ENST00000316219.5	-	5	918	c.811C>T	c.(811-813)Ccc>Tcc	p.P271S	LILRB5_ENST00000449561.2_Missense_Mutation_p.P271S|LILRB5_ENST00000345866.6_Missense_Mutation_p.P171S|LILRB5_ENST00000450632.1_Missense_Mutation_p.P262S	NM_001081442.1|NM_006840.3	NP_001074911.1|NP_006831.1	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 5	271	Ig-like C2-type 3.				cell surface receptor signaling pathway (GO:0007166)|defense response (GO:0006952)|immune system process (GO:0002376)	integral component of membrane (GO:0016021)	transmembrane signaling receptor activity (GO:0004888)			NS(1)|breast(1)|endometrium(3)|kidney(5)|large_intestine(12)|lung(25)|ovary(1)|pancreas(1)|prostate(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	56	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)		CCAGCCTGGGGCTGCTGGCCA	0.627																																																0													45	46	46					19																	54759290		2203	4300	6503	SO:0001583	missense	10990			AF025534	CCDS12885.1, CCDS42611.1, CCDS46176.1	19q13.4	2013-01-11			ENSG00000105609	ENSG00000105609		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6609	protein-coding gene	gene with protein product		604814				9548455	Standard	NM_006840		Approved	LIR-8, LIR8, CD85c	uc002qey.3	O75023	OTTHUMG00000066636	ENST00000316219.5:c.811C>T	19.37:g.54759290G>A	ENSP00000320390:p.Pro271Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N760	Missense_Mutation	SNP	ENST00000316219.5	37	CCDS12885.1	.	.	.	.	.	.	.	.	.	.	G	8.086	0.773447	0.16051	.	.	ENSG00000105609	ENST00000316219;ENST00000450632;ENST00000449561;ENST00000345866	T;T;T;T	0.00675	5.88;5.88;5.88;5.88	2.19	-4.38	0.03622	Immunoglobulin subtype (1);Immunoglobulin-like fold (1);	1.405960	0.04922	N	0.455206	T	0.01156	0.0038	L	0.29908	0.895	0.09310	N	1	B;P;P;P;P	0.47302	0.437;0.586;0.544;0.88;0.893	B;B;B;P;P	0.53689	0.349;0.389;0.353;0.583;0.732	T	0.36480	-0.9746	10	0.36615	T	0.2	.	4.0167	0.09647	0.1434:0.0:0.2763:0.5803	.	262;162;171;271;271	C9JMK7;Q8NF80;O75023-2;O75023-3;O75023	.;.;.;.;LIRB5_HUMAN	S	271;262;271;171	ENSP00000320390:P271S;ENSP00000414225:P262S;ENSP00000406478:P271S;ENSP00000263430:P171S	ENSP00000320390:P271S	P	-	1	0	LILRB5	59451102	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.421000	0.07053	-0.890000	0.03945	-0.493000	0.04662	CCC		0.627	LILRB5-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000142877.2			A	54759290	G	A	54759290	3	1	628	1	0	0	0	0	1	0	0	0	8801	1203	42	2	1000	2	LILRB5	19	54759290	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10	49	54759290	4369693	94	38685			3	80		3	3	394	N	G_C_A	8.19239e-07
LILRA4	23547	mdanderson.org	37	chr19	54845018	54845018	+	Missense_Mutation	SNP	T	T	C													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ggatgagattctccactgtgTaatcctggaggtgtggggct							TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr19:54845018T>C	ENST00000291759.4	-	8	1381	c.1325A>G	c.(1324-1326)tAc>tGc	p.Y442C	AC008984.2_ENST00000507363.1_RNA	NM_012276.3	NP_036408.3	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 4	442					immune system process (GO:0002376)	integral component of membrane (GO:0016021)				NS(2)|breast(1)|central_nervous_system(2)|endometrium(2)|large_intestine(5)|lung(13)|prostate(3)|skin(1)|upper_aerodigestive_tract(3)	32	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		CTCCACTGTGTAATCCTGGAG	0.562																																																0													104	94	97					19																	54845018		2203	4300	6503	SO:0001583	missense	23547			AF041261	CCDS12890.1	19q13.4	2013-01-11			ENSG00000239961	ENSG00000239961		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	15503	protein-coding gene	gene with protein product		607517				10941842	Standard	NM_012276		Approved	ILT7, CD85g	uc002qfj.3	P59901	OTTHUMG00000065355	ENST00000291759.4:c.1325A>G	19.37:g.54845018T>C	ENSP00000291759:p.Tyr442Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q32MC4	Missense_Mutation	SNP	ENST00000291759.4	37	CCDS12890.1	.	.	.	.	.	.	.	.	.	.	.	12.61	1.990687	0.35131	.	.	ENSG00000239961	ENST00000291759	T	0.00644	6.01	3.08	2.05	0.26809	.	4.632680	0.00961	N	0.003108	T	0.03520	0.0101	M	0.80616	2.505	0.09310	N	1	D	0.76494	0.999	D	0.70487	0.969	T	0.30446	-0.9978	10	0.66056	D	0.02	.	4.8432	0.13501	0.0:0.1453:0.0:0.8547	.	442	P59901	LIRA4_HUMAN	C	442	ENSP00000291759:Y442C	ENSP00000291759:Y442C	Y	-	2	0	LILRA4	59536830	0.515000	0.26210	0.046000	0.18839	0.038000	0.13279	0.744000	0.26245	0.581000	0.29539	0.460000	0.39030	TAC		0.562	LILRA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140229.2	NM_012276		C	54845018	T	C	54845018	3	2	628	1	0	0	0	0	1	0	0	0	8794	1638	57	3	178	3	LILRA4	19	54845018	Missense_Mutation	SNP	T	TCGA-KL-8329-01A-11D-2310-10	85728	54845018	4283965	95	38686	313	2								
LILRA4	23547	mdanderson.org	37	chr19	54845027	54845027	+	Missense_Mutation	SNP	A	A	T													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tctccactgtgtaatcctggAggtgtggggctagggatggt					rs534532199	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr19:54845027A>T	ENST00000291759.4	-	8	1372	c.1316T>A	c.(1315-1317)cTc>cAc	p.L439H	AC008984.2_ENST00000507363.1_RNA	NM_012276.3	NP_036408.3	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 4	439					immune system process (GO:0002376)	integral component of membrane (GO:0016021)				NS(2)|breast(1)|central_nervous_system(2)|endometrium(2)|large_intestine(5)|lung(13)|prostate(3)|skin(1)|upper_aerodigestive_tract(3)	32	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		GTAATCCTGGAGGTGTGGGGC	0.562													A|||	38	0.00758786	0.0	0.0	5008	,	,		20088	0.002		0.004	False		,,,				2504	0.0327															0													106	95	99					19																	54845027		2203	4300	6503	SO:0001583	missense	23547			AF041261	CCDS12890.1	19q13.4	2013-01-11			ENSG00000239961	ENSG00000239961		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	15503	protein-coding gene	gene with protein product		607517				10941842	Standard	NM_012276		Approved	ILT7, CD85g	uc002qfj.3	P59901	OTTHUMG00000065355	ENST00000291759.4:c.1316T>A	19.37:g.54845027A>T	ENSP00000291759:p.Leu439His	Somatic		WXS	Illumina HiSeq	Phase_I	Q32MC4	Missense_Mutation	SNP	ENST00000291759.4	37	CCDS12890.1	.	.	.	.	.	.	.	.	.	.	.	0.637	-0.815062	0.02776	.	.	ENSG00000239961	ENST00000291759	T	0.00514	6.88	2.96	-5.63	0.02474	.	.	.	.	.	T	0.00328	0.0010	L	0.31578	0.945	0.09310	N	1	B	0.06786	0.001	B	0.06405	0.002	T	0.35400	-0.9790	9	0.45353	T	0.12	.	4.9614	0.14068	0.3711:0.0:0.4882:0.1407	.	439	P59901	LIRA4_HUMAN	H	439	ENSP00000291759:L439H	ENSP00000291759:L439H	L	-	2	0	LILRA4	59536839	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-4.301000	0.00257	-1.097000	0.03042	-2.427000	0.00216	CTC		0.562	LILRA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140229.2	NM_012276		T	54845027	A	T	54845027	3	4	628	1	0	0	0	0	1	0	0	0	8794	304	11	5	187	5	LILRA4	19	54845027	Missense_Mutation	SNP	A	TCGA-KL-8329-01A-11D-2310-10	9	54845027	4283956	96	38687	313	2								
CSRP2BP	57325	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr20	18162415	18162415	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	caagtttttgtatcgcttggTaggatcagaagatatggctg	12	5	1	2			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr20:18162415T>C	ENST00000435364.3	+	7	2074	c.1733T>C	c.(1732-1734)gTa>gCa	p.V578A	CSRP2BP_ENST00000377681.3_Missense_Mutation_p.V577A|CSRP2BP_ENST00000489634.2_Missense_Mutation_p.V450A	NM_020536.4	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	578					chromatin organization (GO:0006325)|G2/M transition of mitotic cell cycle (GO:0000086)|histone H3 acetylation (GO:0043966)	Ada2/Gcn5/Ada3 transcription activator complex (GO:0005671)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	histone acetyltransferase activity (GO:0004402)|LIM domain binding (GO:0030274)			NS(1)|breast(1)|endometrium(3)|kidney(3)|large_intestine(7)|lung(12)|ovary(2)|prostate(3)|skin(1)|stomach(1)	34						TATCGCTTGGTAGGATCAGAA	0.418																																																0													144	137	139					20																	18162415		2203	4300	6503	SO:0001583	missense	57325			AF252257	CCDS13133.1	20p11.23	2012-06-06			ENSG00000149474	ENSG00000149474			15904	protein-coding gene	gene with protein product	"cysteine rich protein 2 binding protein", "ATAC component 2 homolog (Drosophila)"					9286703, 10924333, 19103755	Standard	NR_028402		Approved	CRP2BP, dJ717M23.1, PRO1194, ATAC2, KAT14	uc021wbb.1	Q9H8E8	OTTHUMG00000031962	ENST00000435364.3:c.1733T>C	20.37:g.18162415T>C	ENSP00000392318:p.Val578Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2I5|Q96GW6|Q96IH3|Q9HBF0|Q9UIY5	Missense_Mutation	SNP	ENST00000435364.3	37	CCDS13133.1	.	.	.	.	.	.	.	.	.	.	T	14.55	2.568250	0.45798	.	.	ENSG00000149474	ENST00000278816;ENST00000377681;ENST00000435364;ENST00000489634	T;T;T;T	0.15139	2.45;2.45;2.45;2.45	5.49	5.49	0.81192	.	0.051941	0.85682	D	0.000000	T	0.13286	0.0322	L	0.28115	0.83	0.39638	D	0.970282	B;B	0.21821	0.061;0.036	B;B	0.23275	0.045;0.006	T	0.07635	-1.0762	10	0.42905	T	0.14	-19.0827	11.5629	0.50788	0.0:0.0:0.1492:0.8508	.	450;578	Q9H8E8-2;Q9H8E8	.;CSR2B_HUMAN	A	578;577;578;450	ENSP00000278816:V578A;ENSP00000366909:V577A;ENSP00000392318:V578A;ENSP00000425909:V450A	ENSP00000278816:V578A	V	+	2	0	CSRP2BP	18110415	1.000000	0.71417	0.998000	0.56505	0.909000	0.53808	4.268000	0.58883	2.088000	0.63022	0.460000	0.39030	GTA		0.418	CSRP2BP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000078152.5	NM_020536		C	18162415	T	C	18162415	3	2	628	1	0	0	0	0	1	0	0	0	3970	1638	57	3	1759	3	CSRP2BP	20	18162415	Missense_Mutation	SNP	T	TCGA-KL-8329-01A-11D-2310-10		18162415	44863105	97	38688										
EEF1A2	1917	broad.mit.edu;mdanderson.org	37	chr20	62127325	62127325	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ggagatgtcgatggtgatgcCgcgctcacgctccgccttca	13	13	2	2			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr20:62127325C>T	ENST00000298049.7	-	2	278	c.208G>A	c.(208-210)Ggc>Agc	p.G70S	EEF1A2_ENST00000217182.3_Missense_Mutation_p.G70S			Q05639	EF1A2_HUMAN	eukaryotic translation elongation factor 1 alpha 2	70	G2. {ECO:0000250}.|tr-type G.		G -> S (found in a patient with mental retardation, severe delay of psychomotor development, very limited speech, autistic features and aggressive behaviors). {ECO:0000269|PubMed:23033978}.		positive regulation of apoptotic process (GO:0043065)|response to inorganic substance (GO:0010035)	eukaryotic translation elongation factor 1 complex (GO:0005853)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|translation elongation factor activity (GO:0003746)|translation factor activity, nucleic acid binding (GO:0008135)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(14)|stomach(1)	20	all_cancers(38;9.45e-12)		BRCA - Breast invasive adenocarcinoma(10;1.22e-05)			ATGGTGATGCCGCGCTCACGC	0.597											OREG0026129	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													239	187	205					20																	62127325		2203	4299	6502	SO:0001583	missense	1917			AF163763	CCDS13522.1	20q13.3	2010-06-03			ENSG00000101210	ENSG00000101210			3192	protein-coding gene	gene with protein product		602959	"statin-like", "statin"	STNL, STN		8354261, 8812466	Standard	NM_001958		Approved	EEF1AL, HS1	uc002yfe.2	Q05639	OTTHUMG00000033076	ENST00000298049.7:c.208G>A	20.37:g.62127325C>T	ENSP00000298049:p.Gly70Ser	Somatic	1058	WXS	Illumina HiSeq	Phase_I	B5BUF3|E1P5J1|P54266|Q0VGC7	Missense_Mutation	SNP	ENST00000298049.7	37	CCDS13522.1	.	.	.	.	.	.	.	.	.	.	C	34	5.304450	0.95601	.	.	ENSG00000101210	ENST00000298049;ENST00000217182	T;T	0.77877	-1.13;-1.13	4.01	4.01	0.46588	Protein synthesis factor, GTP-binding (3);	0.057240	0.64402	D	0.000002	D	0.91673	0.7368	H	0.96301	3.8	0.80722	D	1	D;D	0.89917	1.0;0.998	D;D	0.87578	0.998;0.98	D	0.94708	0.7889	10	0.87932	D	0	-3.5841	16.4593	0.84031	0.0:1.0:0.0:0.0	.	46;70	Q59GP5;Q05639	.;EF1A2_HUMAN	S	70	ENSP00000298049:G70S;ENSP00000217182:G70S	ENSP00000217182:G70S	G	-	1	0	EEF1A2	61597769	1.000000	0.71417	0.979000	0.43373	0.893000	0.52053	7.663000	0.83820	1.954000	0.56735	0.313000	0.20887	GGC		0.597	EEF1A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080495.1	NM_001958		T	62127325	C	T	62127325	3	4	628	1	0	0	0	0	1	0	0	0	4926	652	23	1	1207	1	EEF1A2	20	62127325	Missense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10	43964910	62127325	898195	98	38689										
KRTAP26-1	388818	broad.mit.edu	37	chr21	31692295	31692296	+	Frame_Shift_Ins	INS	-	-	G													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ggaggtgagaggaatatggcINSgggaggttctgagagatcct							TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr21:31692295_31692296insG	ENST00000360542.3	-	1	311_312	c.58_59insC	c.(58-60)cgcfs	p.R20fs		NM_203405.1	NP_981950.1	Q6PEX3	KR261_HUMAN	keratin associated protein 26-1	20						intermediate filament (GO:0005882)				endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(7)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	16						AGGAATATGGCGGGAGGTTCTG	0.53																																																0																																										SO:0001589	frameshift_variant	388818			AB096936	CCDS13588.1	21q22.11	2007-11-23			ENSG00000197683	ENSG00000197683		"Keratin associated proteins"	33760	protein-coding gene	gene with protein product							Standard	NM_203405		Approved		uc002ynw.3	Q6PEX3	OTTHUMG00000057766	ENST00000360542.3:c.59dupC	21.37:g.31692298_31692298dupG	ENSP00000353742:p.Arg20fs	Somatic		WXS	Illumina HiSeq	Phase_I	B0RZD3	Frame_Shift_Ins	INS	ENST00000360542.3	37	CCDS13588.1																																																																																				0.53	KRTAP26-1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128218.1	NM_203405		G	31692296	-	G	31692295	7	5	628	1	0	1	1	0	0	0	0	0	8550	768	27	0	577	0	KRTAP26-1	21	31692295	Frame_Shift_Ins	INS	-	TCGA-KL-8329-01A-11D-2310-10		31692295	16437600	99	38690										
TIAM1	7074	broad.mit.edu;hgsc.bcm.edu	37	chr21	32624265	32624265	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	gtgcgccgagccggcctcctCcaggctctcgctgttggtgg	15	15	1	0			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr21:32624265C>T	ENST00000286827.3	-	6	1675	c.1204G>A	c.(1204-1206)Gag>Aag	p.E402K	TIAM1_ENST00000469412.1_5'UTR|TIAM1_ENST00000541036.1_Missense_Mutation_p.E402K	NM_003253.2	NP_003244.2	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	402					apoptotic signaling pathway (GO:0097190)|cell migration (GO:0016477)|cell-matrix adhesion (GO:0007160)|ephrin receptor signaling pathway (GO:0048013)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of axonogenesis (GO:0050772)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of Rho GTPase activity (GO:0032321)|Rac protein signal transduction (GO:0016601)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cell-cell contact zone (GO:0044291)|cell-cell junction (GO:0005911)|cytosol (GO:0005829)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)	phospholipid binding (GO:0005543)|Rac guanyl-nucleotide exchange factor activity (GO:0030676)|receptor signaling protein activity (GO:0005057)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			autonomic_ganglia(3)|breast(7)|central_nervous_system(2)|endometrium(13)|kidney(4)|large_intestine(33)|lung(44)|ovary(2)|prostate(3)|skin(2)|urinary_tract(2)	115						CCGGCCTCCTCCAGGCTCTCG	0.697																																																0													34	40	38					21																	32624265		2203	4299	6502	SO:0001583	missense	7074				CCDS13609.1	21q22.1	2013-01-10			ENSG00000156299	ENSG00000156299		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	11805	protein-coding gene	gene with protein product		600687				8595894, 15340013	Standard	NM_003253		Approved		uc002yow.1	Q13009	OTTHUMG00000084869	ENST00000286827.3:c.1204G>A	21.37:g.32624265C>T	ENSP00000286827:p.Glu402Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLR6|F5GZ53|Q17RT7	Missense_Mutation	SNP	ENST00000286827.3	37	CCDS13609.1	.	.	.	.	.	.	.	.	.	.	C	24.6	4.545166	0.86022	.	.	ENSG00000156299	ENST00000286827;ENST00000399841;ENST00000541036	T;T	0.46451	0.87;0.88	4.86	4.86	0.63082	.	0.000000	0.85682	D	0.000000	T	0.46795	0.1411	M	0.62723	1.935	0.80722	D	1	P;P;P;P	0.42456	0.649;0.518;0.78;0.518	B;B;B;B	0.41510	0.359;0.197;0.265;0.197	T	0.54289	-0.8316	10	0.62326	D	0.03	.	18.1782	0.89768	0.0:1.0:0.0:0.0	.	402;402;243;402	F5GZ53;B7ZLR6;E9PD83;Q13009	.;.;.;TIAM1_HUMAN	K	402;243;402	ENSP00000286827:E402K;ENSP00000441570:E402K	ENSP00000286827:E402K	E	-	1	0	TIAM1	31546136	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.190000	0.77755	2.497000	0.84241	0.655000	0.94253	GAG		0.697	TIAM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000192552.1	NM_003253		T	32624265	C	T	32624265	3	4	628	1	0	0	0	0	1	0	0	0	15902	864	30	2	3667	2	TIAM1	21	32624265	Missense_Mutation	SNP	C	TCGA-KL-8329-01A-11D-2310-10	931970	32624265	15505630	100	38691										
GCFC1	94104	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr21	34134451	34134451	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tttgtgacttttctttcacaGaaaaaactatccggcgtttc	6	9	2	2			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr21:34134451G>T	ENST00000331923.4	-	4	1016	c.827C>A	c.(826-828)tCt>tAt	p.S276Y	PAXBP1_ENST00000472588.1_5'UTR|PAXBP1_ENST00000290178.4_Missense_Mutation_p.S276Y	NM_016631.3	NP_057715.2	Q9Y5B6	PAXB1_HUMAN	PAX3 and PAX7 binding protein 1	276					muscle organ development (GO:0007517)|positive regulation of histone methylation (GO:0031062)|positive regulation of myoblast proliferation (GO:2000288)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of satellite cell proliferation (GO:0014842)|transcription, DNA-templated (GO:0006351)	cytosol (GO:0005829)|nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)										TTCTTTCACAGAAAAAACTAT	0.368																																																0													119	121	120					21																	34134451		2203	4300	6503	SO:0001583	missense	94104			AF231920	CCDS13619.1, CCDS33541.1	21q22.11	2014-01-23	2013-01-08	2013-01-08	ENSG00000159086	ENSG00000159086			13579	protein-coding gene	gene with protein product	"functional spliceosome-associated protein 105", "GC-rich sequence DNA-binding factor candidate"		"chromosome 21 open reading frame 66", "GC-rich sequence DNA-binding factor 1"	C21orf66, GCFC1		11707072, 22862948	Standard	NM_016631		Approved	GCFC, fSAP105	uc002yqn.3	Q9Y5B6	OTTHUMG00000064980	ENST00000331923.4:c.827C>A	21.37:g.34134451G>T	ENSP00000328992:p.Ser276Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSE7|Q96DU8|Q9NYQ0	Missense_Mutation	SNP	ENST00000331923.4	37	CCDS13619.1	.	.	.	.	.	.	.	.	.	.	G	32	5.119781	0.94385	.	.	ENSG00000159086	ENST00000331923;ENST00000290178	T;T	0.31510	1.92;1.49	5.98	5.98	0.97165	.	0.162808	0.56097	D	0.000027	T	0.55689	0.1936	M	0.70595	2.14	0.54753	D	0.999981	D;P	0.63880	0.993;0.956	D;P	0.63192	0.912;0.459	T	0.51795	-0.8660	10	0.52906	T	0.07	-16.743	20.0532	0.97636	0.0:0.0:1.0:0.0	.	276;276	Q9Y5B6-2;Q9Y5B6	.;GCFC1_HUMAN	Y	276	ENSP00000328992:S276Y;ENSP00000290178:S276Y	ENSP00000290178:S276Y	S	-	2	0	GCFC1	33056322	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	7.592000	0.82676	2.835000	0.97688	0.650000	0.86243	TCT		0.368	PAXBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000139563.1	NM_013329		T	34134451	G	T	34134451	3	4	628	1	0	0	0	0	1	0	0	0	6296	942	33	4	2104	4	GCFC1	21	34134451	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10	1510186	34134451	13995444	101	38692										
SIK1	150094	broad.mit.edu	37	chr21	44837550	44837551	+	Frame_Shift_Ins	INS	-	-	G													0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	cccctgctggcccggctggcINSgggggcctggcacacctggc					rs430552	byFrequency	TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr21:44837550_44837551insG	ENST00000270162.6	-	13	1980_1981	c.1848_1849insC	c.(1846-1851)cccgccfs	p.A617fs		NM_173354.3	NP_775490.2	P57059	SIK1_HUMAN	salt-inducible kinase 1	617					cardiac muscle cell differentiation (GO:0055007)|cell cycle (GO:0007049)|entrainment of circadian clock by photoperiod (GO:0043153)|intracellular signal transduction (GO:0035556)|negative regulation of CREB transcription factor activity (GO:0032792)|negative regulation of gluconeogenesis (GO:0045721)|negative regulation of triglyceride biosynthetic process (GO:0010868)|positive regulation of anoikis (GO:2000210)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of cell differentiation (GO:0045595)|regulation of mitotic cell cycle (GO:0007346)|regulation of myotube differentiation (GO:0010830)|regulation of sodium ion transport (GO:0002028)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	14-3-3 protein binding (GO:0071889)|ATP binding (GO:0005524)|cAMP response element binding protein binding (GO:0008140)|magnesium ion binding (GO:0000287)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(6)|ovary(1)|prostate(1)|skin(2)|testis(2)|urinary_tract(1)	21					Dabrafenib(DB08912)	GCCCGGCTGGCGGGGGCCTGGC	0.703																																																0																																										SO:0001589	frameshift_variant	150094			BC038504	CCDS33575.1	21q22.3	2008-12-23	2008-12-23	2008-12-23	ENSG00000142178	ENSG00000142178			11142	protein-coding gene	gene with protein product	"myocardial SNF1-like kinase"	605705	"SNF1-like kinase"	SNF1LK		7893599	Standard	NM_173354		Approved	msk	uc002zdf.2	P57059	OTTHUMG00000086874	ENST00000270162.6:c.1849dupC	21.37:g.44837555_44837555dupG	ENSP00000270162:p.Ala617fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NC84|Q5R2V5|Q6ZNL8|Q86YJ2	Frame_Shift_Ins	INS	ENST00000270162.6	37	CCDS33575.1																																																																																				0.703	SIK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195654.1	NM_173354		G	44837551	-	G	44837550	7	5	628	1	0	1	1	0	0	0	0	0	14330	768	27	0	510	0	SIK1	21	44837550	Frame_Shift_Ins	INS	-	TCGA-KL-8329-01A-11D-2310-10	10703099	44837550	3292345	102	38693										
MCM3AP	8888	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr21	47705096	47705096	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ttttgtccaaaaagagaaggTtgaccaaatcgaaatggcgg	11	6	0	2			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr21:47705096T>A	ENST00000397708.1	-	2	359	c.105A>T	c.(103-105)caA>caT	p.Q35H	YBEY_ENST00000397692.1_5'Flank|YBEY_ENST00000329319.3_5'Flank|YBEY_ENST00000397691.1_5'Flank|MCM3AP_ENST00000291688.1_Missense_Mutation_p.Q35H|YBEY_ENST00000397694.1_5'Flank|YBEY_ENST00000397701.4_5'Flank|YBEY_ENST00000339195.6_5'Flank			O60318	GANP_HUMAN	minichromosome maintenance complex component 3 associated protein	35	FG-repeats.				DNA replication (GO:0006260)|immune system process (GO:0002376)|mRNA transport (GO:0051028)|protein import into nucleus (GO:0006606)	cytosol (GO:0005829)|nuclear pore (GO:0005643)|nucleus (GO:0005634)	DNA binding (GO:0003677)|transferase activity, transferring acyl groups (GO:0016746)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(10)|kidney(5)|large_intestine(17)|lung(24)|ovary(4)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	72	Breast(49;0.112)					AAAGAGAAGGTTGACCAAATC	0.458																																																0													74	76	75					21																	47705096		2203	4300	6503	SO:0001583	missense	8888			AB005543	CCDS13734.1	21q22.3	2012-12-19	2007-04-04		ENSG00000160294	ENSG00000160294			6946	protein-coding gene	gene with protein product	"germinal-centre associated nuclear protein"	603294	"minichromosome maintenance deficient (S. cerevisiae) 3-associated protein", "MCM3 minichromosome maintenance deficient 3 (S. cerevisiae) associated protein"			9712829, 16914116, 21195085	Standard	XM_005261205		Approved	Map80, KIAA0572, GANP, SAC3	uc002zir.1	O60318	OTTHUMG00000090630	ENST00000397708.1:c.105A>T	21.37:g.47705096T>A	ENSP00000380820:p.Gln35His	Somatic		WXS	Illumina HiSeq	Phase_I	C9JL56|Q2M3C1|Q6PJP6|Q9BSY5|Q9UMT4	Missense_Mutation	SNP	ENST00000397708.1	37	CCDS13734.1	.	.	.	.	.	.	.	.	.	.	T	18.44	3.624840	0.66901	.	.	ENSG00000160294	ENST00000397708;ENST00000291688;ENST00000426537	T;T	0.08984	3.03;3.03	5.04	1.0	0.19881	.	0.194568	0.45606	D	0.000358	T	0.10551	0.0258	L	0.29908	0.895	0.34028	D	0.653468	P	0.50710	0.938	P	0.54499	0.754	T	0.17868	-1.0355	10	0.87932	D	0	-14.0114	7.4203	0.27067	0.0:0.4632:0.0:0.5368	.	35	O60318	MCM3A_HUMAN	H	35	ENSP00000380820:Q35H;ENSP00000291688:Q35H	ENSP00000291688:Q35H	Q	-	3	2	MCM3AP	46529524	1.000000	0.71417	0.969000	0.41365	0.973000	0.67179	0.443000	0.21644	-0.005000	0.14395	0.459000	0.35465	CAA		0.458	MCM3AP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207254.1	NM_003906		A	47705096	T	A	47705096	3	1	628	1	0	0	0	0	1	0	0	0	9395	1722	60	5	5949	5	MCM3AP	21	47705096	Missense_Mutation	SNP	T	TCGA-KL-8329-01A-11D-2310-10	2867546	47705096	424799	103	38694										
TRIOBP	11078	mdanderson.org	37	chr22	38120095	38120095	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	tgcccagcgggacaatcccaGagcctccagaacctcctctc	8	18	1	2			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chr22:38120095G>A	ENST00000406386.3	+	7	1787	c.1532G>A	c.(1531-1533)aGa>aAa	p.R511K		NM_001039141.2	NP_001034230.1	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein	511					actin modification (GO:0030047)|barbed-end actin filament capping (GO:0051016)|mitotic nuclear division (GO:0007067)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|nucleus (GO:0005634)	actin filament binding (GO:0051015)|GTP-Rho binding (GO:0017049)|myosin II binding (GO:0045159)|ubiquitin protein ligase binding (GO:0031625)	p.R511K(2)		central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(3)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	12	Melanoma(58;0.0574)					GACAATCCCAGAGCCTCCAGA	0.592																																																2	Substitution - Missense(2)	kidney(1)|skin(1)											16	27	24					22																	38120095		1746	3975	5721	SO:0001583	missense	11078			AB051449	CCDS33644.1, CCDS43015.1, CCDS43016.1	22q13.1	2014-06-03			ENSG00000100106	ENSG00000100106		"Pleckstrin homology (PH) domain containing"	17009	protein-coding gene	gene with protein product		609761		DFNB28		11148140, 16385457, 16385458	Standard	NM_001039141		Approved	HRIHFB2122, KIAA1662, Tara, TAP68	uc003atr.3	Q9H2D6	OTTHUMG00000150657	ENST00000406386.3:c.1532G>A	22.37:g.38120095G>A	ENSP00000384312:p.Arg511Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B1AHD4|B1AHD7|F2Z2W0|F8W6V6|O94797|Q2PZW8|Q2Q3Z9|Q2Q400|Q5R3M6|Q96DW1|Q9BT77|Q9BTL7|Q9BY98|Q9Y3L4	Missense_Mutation	SNP	ENST00000406386.3	37	CCDS43015.1	.	.	.	.	.	.	.	.	.	.	-	12.91	2.079188	0.36662	.	.	ENSG00000100106	ENST00000406386;ENST00000417174	T	0.20200	2.09	0.725	0.725	0.18242	.	.	.	.	.	T	0.14442	0.0349	L	0.44542	1.39	0.80722	D	1	.	.	.	.	.	.	T	0.10894	-1.0610	7	0.05620	T	0.96	.	4.9132	0.13833	0.0:0.0:1.0:0.0	.	511	Q9H2D6	TARA_HUMAN	K	511	ENSP00000384312:R511K	ENSP00000384312:R511K	R	+	2	0	TRIOBP	36450041	0.001000	0.12720	0.176000	0.23000	0.248000	0.25809	0.139000	0.16036	0.721000	0.32231	0.289000	0.19496	AGA		0.592	TRIOBP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000319439.2			A	38120095	G	A	38120095	3	1	628	1	0	0	0	0	1	0	0	0	16565	942	33	2	1550	2	TRIOBP	22	38120095	Missense_Mutation	SNP	G	TCGA-KL-8329-01A-11D-2310-10		38120095	13184471	104	38695										
KDM5C	8242	broad.mit.edu	37	chrX	53222786	53222786	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0198019801980198	2	1	0.397931110377462	1.10852237890864	0.242489270386266	1	1	0	ttccaacacagggccagtcaActgtggcaacagcgaggaca	11	12	1	0			TCGA-KL-8329-01A-11D-2310-10	TCGA-KL-8329-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9453974-c7a0-4ace-8a46-2047f3328711	fe78c18d-8b68-4d67-bdae-07e288693c0f	g.chrX:53222786A>G	ENST00000375401.3	-	25	4682	c.4150T>C	c.(4150-4152)Ttg>Ctg	p.L1384L	KDM5C_ENST00000404049.3_Silent_p.L1383L|KDM5C_ENST00000375383.3_Silent_p.L1340L|KDM5C_ENST00000452825.3_Silent_p.L1314L|KDM5C_ENST00000375379.3_Silent_p.L1381L	NM_001282622.1|NM_004187.3	NP_001269551.1|NP_004178.2	P41229	KDM5C_HUMAN	lysine (K)-specific demethylase 5C	1384					histone H3-K4 demethylation (GO:0034720)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone demethylase activity (H3-K4 specific) (GO:0032453)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(4)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(30)|large_intestine(9)|lung(17)|oesophagus(1)|ovary(6)|prostate(1)|salivary_gland(1)|skin(1)|upper_aerodigestive_tract(2)	82						GGGCCAGTCAACTGTGGCAAC	0.592			"N, F, S"		clear cell renal carcinoma																																		Rec	yes		X	Xp11.22-p11.21	8242	lysine (K)-specific demethylase 5C (JARID1C)		E	0													60	45	50					X																	53222786		2203	4300	6503	SO:0001819	synonymous_variant	8242			Z29650	CCDS14351.1, CCDS55417.1, CCDS65269.1	Xp11.22-p11.21	2014-01-31	2009-04-06	2009-04-06	ENSG00000126012	ENSG00000126012		"Chromatin-modifying enzymes / K-demethylases", "Zinc fingers, PHD-type"	11114	protein-coding gene	gene with protein product		314690	"Jumonji, AT rich interactive domain 1C (RBP2-like)", "Smcy homolog, X-linked (mouse)", "jumonji, AT rich interactive domain 1C", "mental retardation, X-linked 13"	SMCX, JARID1C, MRX13		7951230, 8162017, 19826449	Standard	NM_004187		Approved	DXS1272E, XE169	uc004drz.3	P41229	OTTHUMG00000021606	ENST00000375401.3:c.4150T>C	X.37:g.53222786A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0QZ44|B4E3I2|F5H3T1|Q5JUX3|Q5JUX4|Q5JUX5|Q7Z5S5	Silent	SNP	ENST00000375401.3	37	CCDS14351.1																																																																																				0.592	KDM5C-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000056737.2	NM_004187		G	53222786	A	G	53222786	2	3	628	1	0	0	0	0	0	0	0	1	8142	40	2	3		3	KDM5C	23	53222786	Silent	SNP	A	TCGA-KL-8329-01A-11D-2310-10		53222786	102047774	105	38696										
SKI	6497	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	2235813	2235813	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	cctgggctccccgggtgcgcGtgccctgccctcggccgtcc	14	20	0	0	rs376322470		TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr1:2235813G>T	ENST00000378536.4	+	5	1628	c.1556G>T	c.(1555-1557)cGt>cTt	p.R519L		NM_003036.3	NP_003027.1	P12755	SKI_HUMAN	SKI proto-oncogene	519					anterior/posterior axis specification (GO:0009948)|BMP signaling pathway (GO:0030509)|bone morphogenesis (GO:0060349)|camera-type eye development (GO:0043010)|camera-type eye morphogenesis (GO:0048593)|cell motility (GO:0048870)|cell proliferation (GO:0008283)|embryonic limb morphogenesis (GO:0030326)|face morphogenesis (GO:0060325)|gene expression (GO:0010467)|lens morphogenesis in camera-type eye (GO:0002089)|myelination in peripheral nervous system (GO:0022011)|myotube differentiation (GO:0014902)|negative regulation of activin receptor signaling pathway (GO:0032926)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of cell proliferation (GO:0008285)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of Schwann cell proliferation (GO:0010626)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neural tube closure (GO:0001843)|nose morphogenesis (GO:0043585)|olfactory bulb development (GO:0021772)|palate development (GO:0060021)|positive regulation of DNA binding (GO:0043388)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of Wnt signaling pathway (GO:0030177)|protein homotrimerization (GO:0070207)|regulation of apoptotic process (GO:0042981)|retina development in camera-type eye (GO:0060041)|skeletal muscle fiber development (GO:0048741)|SMAD protein signal transduction (GO:0060395)|somatic stem cell maintenance (GO:0035019)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|transcription factor complex (GO:0005667)|transcriptional repressor complex (GO:0017053)	chromatin binding (GO:0003682)|histone deacetylase inhibitor activity (GO:0046811)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)|repressing transcription factor binding (GO:0070491)|SMAD binding (GO:0046332)|transcription corepressor activity (GO:0003714)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)			central_nervous_system(1)|kidney(2)|lung(5)|prostate(1)|stomach(1)	10	all_cancers(77;0.000139)|all_epithelial(69;4.45e-05)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)			Epithelial(90;2.14e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.72e-29)|GBM - Glioblastoma multiforme(42;2.45e-08)|Colorectal(212;5.33e-05)|COAD - Colon adenocarcinoma(227;0.000228)|Kidney(185;0.00268)|BRCA - Breast invasive adenocarcinoma(365;0.00471)|STAD - Stomach adenocarcinoma(132;0.0147)|KIRC - Kidney renal clear cell carcinoma(229;0.0385)|Lung(427;0.207)		CCGGGTGCGCGTGCCCTGCCC	0.706																																					Ovarian(177;144 1678 13697 20086 27838 40755)											0													80	62	68					1																	2235813		2075	4070	6145	SO:0001583	missense	6497			X15218	CCDS39.1	1p36.33	2014-06-25	2014-06-25		ENSG00000157933	ENSG00000157933		"SKI transcriptional corepressors"	10896	protein-coding gene	gene with protein product		164780	"v-ski avian sarcoma viral oncogene homolog"			2762147	Standard	NM_003036		Approved		uc001aja.4	P12755	OTTHUMG00000001407	ENST00000378536.4:c.1556G>T	1.37:g.2235813G>T	ENSP00000367797:p.Arg519Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SYT7	Missense_Mutation	SNP	ENST00000378536.4	37	CCDS39.1	.	.	.	.	.	.	.	.	.	.	G	0.567	-0.842773	0.02671	.	.	ENSG00000157933	ENST00000378536	D	0.95518	-3.73	4.37	0.75	0.18387	.	0.561044	0.18536	N	0.138348	T	0.81635	0.4864	N	0.02011	-0.69	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.71925	-0.4445	10	0.19147	T	0.46	-1.0583	2.8354	0.05513	0.4735:0.0:0.1886:0.3379	.	519	P12755	SKI_HUMAN	L	519	ENSP00000367797:R519L	ENSP00000367797:R519L	R	+	2	0	SKI	2225673	0.250000	0.23951	0.007000	0.13788	0.021000	0.10359	1.320000	0.33666	-0.040000	0.13580	-0.367000	0.07326	CGT		0.706	SKI-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004070.1	NM_003036		T	2235813	G	T	2235813	3	4	629	1	0	0	0	0	1	0	0	0	14370	1145	40	4	1574	4	SKI	1	2235813	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10		2235813	247014808	1	38697										
PLK3	1263	broad.mit.edu	37	chr1	45270133	45270133	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gccgccgtgtggctgtgctcTtcaacgatggcacacatatg	12	12	2	0			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr1:45270133T>C	ENST00000372201.4	+	12	1704	c.1465T>C	c.(1465-1467)Ttc>Ctc	p.F489L	PLK3_ENST00000465443.1_3'UTR	NM_004073.2	NP_004064.2	Q9H4B4	PLK3_HUMAN	polo-like kinase 3	489	POLO box 1. {ECO:0000255|PROSITE- ProRule:PRU00154}.				apoptotic process (GO:0006915)|cellular response to DNA damage stimulus (GO:0006974)|cytoplasmic microtubule organization (GO:0031122)|endomitotic cell cycle (GO:0007113)|G1/S transition of mitotic cell cycle (GO:0000082)|G2/M transition of mitotic cell cycle (GO:0000086)|Golgi disassembly (GO:0090166)|mitotic cell cycle checkpoint (GO:0007093)|mitotic G1/S transition checkpoint (GO:0044819)|negative regulation of apoptotic process (GO:0043066)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process involved in cellular response to hypoxia (GO:2000777)|protein kinase B signaling (GO:0043491)|protein phosphorylation (GO:0006468)|regulation of cell division (GO:0051302)|regulation of cytokinesis (GO:0032465)|response to osmotic stress (GO:0006970)|response to radiation (GO:0009314)|response to reactive oxygen species (GO:0000302)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|Golgi stack (GO:0005795)|neuronal cell body (GO:0043025)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|p53 binding (GO:0002039)|protein serine/threonine kinase activity (GO:0004674)			endometrium(4)|large_intestine(2)|lung(8)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	19	Acute lymphoblastic leukemia(166;0.155)					GGCTGTGCTCTTCAACGATGG	0.567																																																0													67	72	70					1																	45270133		2203	4300	6503	SO:0001583	missense	1263			AJ293866	CCDS515.1	1p34.1	2013-01-18	2010-06-24	2004-01-28	ENSG00000173846	ENSG00000173846			2154	protein-coding gene	gene with protein product		602913	"cytokine-inducible kinase", "polo-like kinase 3 (Drosophila)"	CNK		8702627	Standard	NM_004073		Approved	FNK, PRK	uc001cmn.3	Q9H4B4	OTTHUMG00000008491	ENST00000372201.4:c.1465T>C	1.37:g.45270133T>C	ENSP00000361275:p.Phe489Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q15767|Q5JR99|Q96CV1	Missense_Mutation	SNP	ENST00000372201.4	37	CCDS515.1	.	.	.	.	.	.	.	.	.	.	t	21.3	4.124835	0.77436	.	.	ENSG00000173846	ENST00000372201;ENST00000543983	T	0.58358	0.34	5.22	5.22	0.72569	POLO box duplicated domain (2);	.	.	.	.	T	0.63177	0.2489	M	0.83692	2.655	0.80722	D	1	P	0.44659	0.84	P	0.46685	0.524	T	0.67503	-0.5654	9	0.42905	T	0.14	-18.8092	14.6063	0.68481	0.0:0.0:0.0:1.0	.	489	Q9H4B4	PLK3_HUMAN	L	489;464	ENSP00000361275:F489L	ENSP00000361275:F489L	F	+	1	0	PLK3	45042720	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	6.284000	0.72652	2.105000	0.64084	0.529000	0.55759	TTC		0.567	PLK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023429.1	NM_004073		C	45270133	T	C	45270133	3	2	629	1	0	0	0	0	1	0	0	0	12104	1609	56	3	1511	3	PLK3	1	45270133	Missense_Mutation	SNP	T	TCGA-KL-8330-01A-11D-2310-10	43034320	45270133	203980488	2	38698										
C1orf52	148423	broad.mit.edu	37	chr1	85718363	85718363	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	tctactttgcgctttttagaAgtatgctcatctttttcatc	5	9	4	1	rs111657378		TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr1:85718363A>G	ENST00000471115.1	-	3	506	c.498T>C	c.(496-498)acT>acC	p.T166T	C1orf52_ENST00000294661.4_5'UTR	NM_198077.3	NP_932343.1	Q8N6N3	CA052_HUMAN	chromosome 1 open reading frame 52	166							poly(A) RNA binding (GO:0044822)			endometrium(1)|kidney(1)|large_intestine(4)|lung(3)|ovary(1)	10				all cancers(265;0.0105)|Epithelial(280;0.0293)		GCTTTTTAGAAGTATGCTCAT	0.318																																																0													131	118	122					1																	85718363		2202	4297	6499	SO:0001819	synonymous_variant	148423			BC029538	CCDS703.1	1p22.3	2008-02-05			ENSG00000162642	ENSG00000162642			24871	protein-coding gene	gene with protein product						11891061	Standard	NM_198077		Approved	gm117, FLJ44982	uc001dkv.3	Q8N6N3	OTTHUMG00000009966	ENST00000471115.1:c.498T>C	1.37:g.85718363A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KX89|Q8TDK5|Q8TDK6	Silent	SNP	ENST00000471115.1	37	CCDS703.1																																																																																				0.318	C1orf52-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000027616.2	NM_198077		G	85718363	A	G	85718363	2	3	629	1	0	0	0	0	0	0	0	1	2046	59	3	3		3	C1orf52	1	85718363	Silent	SNP	A	TCGA-KL-8330-01A-11D-2310-10	40448230	85718363	163532258	3	38699										
NOTCH2	4853	broad.mit.edu	37	chr1	120462211	120462211	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gagctgcctcctcggagagaAgccaacatcaatggggtgca	13	11	1	1			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr1:120462211A>G	ENST00000256646.2	-	31	5724	c.5505T>C	c.(5503-5505)gcT>gcC	p.A1835A	NOTCH2_ENST00000493703.1_5'Flank	NM_024408.3	NP_077719.2	Q04721	NOTC2_HUMAN	notch 2	1835					apoptotic process (GO:0006915)|atrial septum morphogenesis (GO:0060413)|bone remodeling (GO:0046849)|cell cycle arrest (GO:0007050)|cell fate determination (GO:0001709)|cell growth (GO:0016049)|ciliary body morphogenesis (GO:0061073)|determination of left/right symmetry (GO:0007368)|embryonic limb morphogenesis (GO:0030326)|gene expression (GO:0010467)|hemopoiesis (GO:0030097)|humoral immune response (GO:0006959)|in utero embryonic development (GO:0001701)|inflammatory response to antigenic stimulus (GO:0002437)|interleukin-4 secretion (GO:0072602)|intracellular receptor signaling pathway (GO:0030522)|morphogenesis of an epithelial sheet (GO:0002011)|multicellular organismal development (GO:0007275)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nervous system development (GO:0007399)|Notch receptor processing (GO:0007220)|Notch signaling involved in heart development (GO:0061314)|Notch signaling pathway (GO:0007219)|organ morphogenesis (GO:0009887)|placenta blood vessel development (GO:0060674)|positive regulation of apoptotic process (GO:0043065)|positive regulation of BMP signaling pathway (GO:0030513)|positive regulation of cell proliferation (GO:0008284)|positive regulation of Ras protein signal transduction (GO:0046579)|pulmonary valve morphogenesis (GO:0003184)|regulation of transcription, DNA-templated (GO:0006355)|stem cell maintenance (GO:0019827)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cell surface (GO:0009986)|cilium (GO:0005929)|endoplasmic reticulum membrane (GO:0005789)|extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)|ligand-activated RNA polymerase II transcription factor binding transcription factor activity (GO:0038049)|receptor activity (GO:0004872)			breast(4)|central_nervous_system(6)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(9)|kidney(9)|large_intestine(19)|liver(1)|lung(57)|ovary(4)|pancreas(1)|prostate(7)|skin(24)|stomach(2)|upper_aerodigestive_tract(5)|urinary_tract(1)	158	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)		CTCGGAGAGAAGCCAACATCA	0.463			"N, F, Mis"		"marginal zone lymphoma, DLBCL"				Alagille Syndrome																														Dom	yes		1	1p13-p11	4853	Notch homolog 2		L	0													39	34	36					1																	120462211		2203	4300	6503	SO:0001819	synonymous_variant	4853	Familial Cancer Database	ALGS1, ALGS2.Alagille-Watson syndrome	AF315356	CCDS908.1	1p13-p11	2013-01-10	2010-06-24		ENSG00000134250	ENSG00000134250		"Ankyrin repeat domain containing"	7882	protein-coding gene	gene with protein product		600275	"Notch (Drosophila) homolog 2", "Notch homolog 2 (Drosophila)"			7698746	Standard	NM_001200001		Approved		uc001eik.3	Q04721	OTTHUMG00000012177	ENST00000256646.2:c.5505T>C	1.37:g.120462211A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3X7|Q99734|Q9H240	Silent	SNP	ENST00000256646.2	37	CCDS908.1																																																																																				0.463	NOTCH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033679.1	NM_024408		G	120462211	A	G	120462211	2	3	629	1	0	0	0	0	0	0	0	1	10555	59	3	3		3	NOTCH2	1	120462211	Silent	SNP	A	TCGA-KL-8330-01A-11D-2310-10	34743848	120462211	128788410	4	38700										
FLG	2312	bcgsc.ca	37	chr1	152283467	152283467	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gccatctcttgactgctcccGagaagatccatgatggtttc	9	12	1	4	rs200557207		TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr1:152283467G>C	ENST00000368799.1	-	3	3930	c.3895C>G	c.(3895-3897)Cgg>Ggg	p.R1299G	FLG-AS1_ENST00000392688.2_RNA|FLG-AS1_ENST00000593011.1_RNA|FLG-AS1_ENST00000420707.1_RNA	NM_002016.1	NP_002007.1	P20930	FILA_HUMAN	filaggrin	1299	Ser-rich.				establishment of skin barrier (GO:0061436)|keratinocyte differentiation (GO:0030216)|multicellular organismal development (GO:0007275)	cytoplasmic membrane-bounded vesicle (GO:0016023)|intermediate filament (GO:0005882)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|structural molecule activity (GO:0005198)			autonomic_ganglia(1)|breast(13)|central_nervous_system(5)|cervix(2)|endometrium(38)|haematopoietic_and_lymphoid_tissue(1)|kidney(16)|large_intestine(57)|lung(211)|ovary(13)|pancreas(1)|prostate(15)|skin(24)|stomach(5)|upper_aerodigestive_tract(10)|urinary_tract(12)	424	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			gactgctcccgagaagatcca	0.552									Ichthyosis																																							0													177	177	177					1																	152283467		2203	4300	6503	SO:0001583	missense	2312	Familial Cancer Database	X-linked Ichthyosis, Steroid Sulfatase Deficiency, Ichthyosis Vulgaris	XM_048104	CCDS30860.1	1q21.3	2013-01-10			ENSG00000143631	ENSG00000143631		"EF-hand domain containing"	3748	protein-coding gene	gene with protein product		135940				2740331, 2248957, 16444271	Standard	NM_002016		Approved		uc001ezu.1	P20930	OTTHUMG00000012202	ENST00000368799.1:c.3895C>G	1.37:g.152283467G>C	ENSP00000357789:p.Arg1299Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q01720|Q5T583|Q9UC71	Missense_Mutation	SNP	ENST00000368799.1	37	CCDS30860.1	.	.	.	.	.	.	.	.	.	.	G	4.999	0.185600	0.09495	.	.	ENSG00000143631	ENST00000368799	T	0.01705	4.68	2.98	2.05	0.26809	.	.	.	.	.	T	0.00637	0.0021	L	0.54323	1.7	0.09310	N	1	P	0.43094	0.799	B	0.36464	0.225	T	0.44050	-0.9353	9	0.14252	T	0.57	.	5.2509	0.15521	0.1614:0.0:0.8386:0.0	.	1299	P20930	FILA_HUMAN	G	1299	ENSP00000357789:R1299G	ENSP00000357789:R1299G	R	-	1	2	FLG	150550091	0.005000	0.15991	0.002000	0.10522	0.023000	0.10783	1.776000	0.38594	1.670000	0.50864	0.299000	0.19835	CGG		0.552	FLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033742.1	NM_002016		C	152283467	G	C	152283467	3	2	629	1	0	0	0	0	1	0	0	0	5929	1057	37	4	8294	4	FLG	1	152283467	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10	31821256	152283467	96967154	5	38701										
AQP10	89872	mdanderson.org	37	chr1	154294464	154294464	+	Missense_Mutation	SNP	A	A	G													0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	cagtggagaaaccaaaggcaActtcttcaccatgtttctgg					rs201824170	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr1:154294464A>G	ENST00000324978.3	+	2	201	c.161A>G	c.(160-162)aAc>aGc	p.N54S	AQP10_ENST00000355197.4_Intron|AQP10_ENST00000484864.1_Missense_Mutation_p.N54S	NM_080429.2	NP_536354.2	Q96PS8	AQP10_HUMAN	aquaporin 10	54					response to toxic substance (GO:0009636)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			central_nervous_system(1)|endometrium(1)|large_intestine(4)|lung(14)|stomach(2)|upper_aerodigestive_tract(1)	23	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			ACCAAAGGCAACTTCTTCACC	0.572																																																0													71	60	64					1																	154294464		2202	4279	6481	SO:0001583	missense	89872			AF159174	CCDS1065.1	1q21.3	2008-02-05			ENSG00000143595	ENSG00000143595		"Ion channels / Aquaporins"	16029	protein-coding gene	gene with protein product		606578				11573934	Standard	NM_080429		Approved		uc001feu.3	Q96PS8	OTTHUMG00000035980	ENST00000324978.3:c.161A>G	1.37:g.154294464A>G	ENSP00000318355:p.Asn54Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VYD3|Q5VYD4|Q8NG70	Missense_Mutation	SNP	ENST00000324978.3	37	CCDS1065.1	.	.	.	.	.	.	.	.	.	.	A	13.19	2.164492	0.38217	.	.	ENSG00000143595	ENST00000324978;ENST00000484864	T;T	0.10860	2.83;2.83	5.1	5.1	0.69264	Aquaporin-like (2);	0.222920	0.46145	D	0.000305	T	0.04952	0.0133	L	0.28556	0.865	0.33946	D	0.643832	B;P	0.48162	0.04;0.906	B;P	0.49085	0.032;0.6	T	0.22347	-1.0219	10	0.08837	T	0.75	.	13.834	0.63398	1.0:0.0:0.0:0.0	.	54;54	Q96PS8-2;Q96PS8	.;AQP10_HUMAN	S	54	ENSP00000318355:N54S;ENSP00000420341:N54S	ENSP00000318355:N54S	N	+	2	0	AQP10	152561088	0.994000	0.37717	1.000000	0.80357	0.994000	0.84299	5.326000	0.65875	2.142000	0.66516	0.418000	0.28097	AAC		0.572	AQP10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087661.1	NM_080429		G	154294464	A	G	154294464	3	3	629	1	0	0	0	0	1	0	0	0	822	43	2	3	167	3	AQP10	1	154294464	Missense_Mutation	SNP	A	TCGA-KL-8330-01A-11D-2310-10	2010997	154294464	94956157	6	38702	314	2								
AQP10	89872	mdanderson.org	37	chr1	154294471	154294471	+	Silent	SNP	C	C	T													0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gaaaccaaaggcaacttcttCaccatgtttctggctggctc					rs200279756	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr1:154294471C>T	ENST00000324978.3	+	2	208	c.168C>T	c.(166-168)ttC>ttT	p.F56F	AQP10_ENST00000355197.4_Intron|AQP10_ENST00000484864.1_Silent_p.F56F	NM_080429.2	NP_536354.2	Q96PS8	AQP10_HUMAN	aquaporin 10	56					response to toxic substance (GO:0009636)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			central_nervous_system(1)|endometrium(1)|large_intestine(4)|lung(14)|stomach(2)|upper_aerodigestive_tract(1)	23	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			GCAACTTCTTCACCATGTTTC	0.577																																																0													70	59	63					1																	154294471		2202	4278	6480	SO:0001819	synonymous_variant	89872			AF159174	CCDS1065.1	1q21.3	2008-02-05			ENSG00000143595	ENSG00000143595		"Ion channels / Aquaporins"	16029	protein-coding gene	gene with protein product		606578				11573934	Standard	NM_080429		Approved		uc001feu.3	Q96PS8	OTTHUMG00000035980	ENST00000324978.3:c.168C>T	1.37:g.154294471C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VYD3|Q5VYD4|Q8NG70	Silent	SNP	ENST00000324978.3	37	CCDS1065.1																																																																																				0.577	AQP10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087661.1	NM_080429		T	154294471	C	T	154294471	2	4	629	1	0	0	0	0	0	0	0	1	822	825	29	2		2	AQP10	1	154294471	Silent	SNP	C	TCGA-KL-8330-01A-11D-2310-10	7	154294471	94956150	7	38703	314	2								
FMN2	56776	mdanderson.org	37	chr1	240371328	240371328	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	ccaccccctctacccggagcGggcataccccctccgccccc	7	25	1	0	rs71646895	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr1:240371328G>A	ENST00000319653.9	+	5	3446	c.3216G>A	c.(3214-3216)gcG>gcA	p.A1072A		NM_020066.4	NP_064450.3	Q9NZ56	FMN2_HUMAN	formin 2	1072	FH1.|Pro-rich.				cellular response to DNA damage stimulus (GO:0006974)|cellular response to hypoxia (GO:0071456)|establishment of meiotic spindle localization (GO:0051295)|formin-nucleated actin cable assembly (GO:0070649)|homologous chromosome movement towards spindle pole involved in homologous chromosome segregation (GO:0051758)|intracellular signal transduction (GO:0035556)|intracellular transport (GO:0046907)|multicellular organismal development (GO:0007275)|negative regulation of apoptotic process (GO:0043066)|negative regulation of protein catabolic process (GO:0042177)|oogenesis (GO:0048477)|polar body extrusion after meiotic divisions (GO:0040038)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	cell cortex (GO:0005938)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|microvillus (GO:0005902)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)|spindle (GO:0005819)	actin binding (GO:0003779)			NS(1)|breast(7)|central_nervous_system(6)|cervix(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(13)|lung(87)|ovary(6)|pancreas(3)|prostate(12)|skin(7)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(2)	178	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TACCCGGAGCGGGCATACCCC	0.736																																																0													2	3	3					1																	240371328		1326	2694	4020	SO:0001819	synonymous_variant	56776			AF218942	CCDS31069.2	1q43	2008-02-05			ENSG00000155816	ENSG00000155816			14074	protein-coding gene	gene with protein product		606373				10781961	Standard	NM_020066		Approved		uc010pyd.2	Q9NZ56	OTTHUMG00000039883	ENST00000319653.9:c.3216G>A	1.37:g.240371328G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B0QZA7|B4DP05|Q59GF6|Q5VU37|Q9NZ55	Silent	SNP	ENST00000319653.9	37	CCDS31069.2																																																																																				0.736	FMN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096217.2	XM_371352		A	240371328	G	A	240371328	2	1	629	1	0	0	0	0	0	0	0	1	5957	1103	39	1		1	FMN2	1	240371328	Silent	SNP	G	TCGA-KL-8330-01A-11D-2310-10	86076857	240371328	8879293	8	38704										
PPM1G	5496	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	27607890	27607890	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gtgacagttctgcccgtagcGtgtcagcagctcttcaatag	11	11	4	1			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr2:27607890G>A	ENST00000344034.4	-	5	739	c.475C>T	c.(475-477)Cgc>Tgc	p.R159C	PPM1G_ENST00000350803.4_Missense_Mutation_p.R159C	NM_177983.2	NP_817092.1	O15355	PPM1G_HUMAN	protein phosphatase, Mg2+/Mn2+ dependent, 1G	159					cell cycle arrest (GO:0007050)|peptidyl-threonine dephosphorylation (GO:0035970)|protein dephosphorylation (GO:0006470)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|protein serine/threonine phosphatase activity (GO:0004722)			endometrium(2)|kidney(1)|large_intestine(2)|lung(9)|ovary(1)|prostate(2)|urinary_tract(2)	19	Acute lymphoblastic leukemia(172;0.155)					TGCCCGTAGCGTGTCAGCAGC	0.597																																																0													143	144	144					2																	27607890		2203	4300	6503	SO:0001583	missense	5496			Y13936	CCDS1752.1	2p23.3	2012-04-17	2010-03-05		ENSG00000115241	ENSG00000115241	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatases, Mg2+/Mn2+ dependent"	9278	protein-coding gene	gene with protein product	"PP2C, gamma", "protein phosphatase 2C, gamma isoform"	605119	"protein phosphatase 1G (formerly 2C), magnesium-dependent, gamma isoform"			9276438	Standard	NM_177983		Approved	PP2CG, PP2Cgamma	uc002rkl.4	O15355	OTTHUMG00000097788	ENST00000344034.4:c.475C>T	2.37:g.27607890G>A	ENSP00000342778:p.Arg159Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000344034.4	37	CCDS1752.1	.	.	.	.	.	.	.	.	.	.	G	23.3	4.398817	0.83120	.	.	ENSG00000115241	ENST00000344034;ENST00000350803;ENST00000544412;ENST00000395543	T;T	0.54279	0.58;0.58	5.75	5.75	0.90469	Protein phosphatase 2C-like (3);	0.000000	0.85682	D	0.000000	T	0.71451	0.3341	M	0.64997	1.995	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.77557	0.985;0.99	T	0.72792	-0.4186	10	0.87932	D	0	-7.4083	18.4871	0.90833	0.0:0.0:1.0:0.0	.	29;159	Q59GB2;O15355	.;PPM1G_HUMAN	C	159;159;142;29	ENSP00000342778:R159C;ENSP00000264714:R159C	ENSP00000342778:R159C	R	-	1	0	PPM1G	27461394	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	6.309000	0.72825	2.728000	0.93425	0.655000	0.94253	CGC		0.597	PPM1G-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215032.1	NM_002707		A	27607890	G	A	27607890	3	1	629	1	0	0	0	0	1	0	0	0	12350	1145	40	1	1189	1	PPM1G	2	27607890	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10		27607890	215591483	9	38705										
TIA1	7072	bcgsc.ca	37	chr2	70463215	70463215	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	agtaaaatacccttacatccAtaatcattttgcagttttta	3	8	1	0			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr2:70463215A>G	ENST00000433529.2	-	2	329	c.119T>C	c.(118-120)aTg>aCg	p.M40T	TIA1_ENST00000416149.2_Missense_Mutation_p.M40T|TIA1_ENST00000445587.1_Missense_Mutation_p.M40T|TIA1_ENST00000282574.4_Missense_Mutation_p.M40T|C2orf42_ENST00000470096.1_Intron|TIA1_ENST00000415783.2_Missense_Mutation_p.M40T	NM_022173.2	NP_071505.2	P31483	TIA1_HUMAN	TIA1 cytotoxic granule-associated RNA binding protein	40	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				apoptotic process (GO:0006915)|negative regulation of cytokine biosynthetic process (GO:0042036)|negative regulation of translation (GO:0017148)|regulation of mRNA splicing, via spliceosome (GO:0048024)	cytoplasmic stress granule (GO:0010494)|nuclear stress granule (GO:0097165)	AU-rich element binding (GO:0017091)|nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)			endometrium(3)|kidney(2)|large_intestine(2)|lung(8)|skin(1)|urinary_tract(1)	17						CCTTACATCCATAATCATTTT	0.338																																																0													72	73	72					2																	70463215		2203	4300	6503	SO:0001583	missense	7072				CCDS1900.1, CCDS1901.1	2p13	2013-02-12	2001-11-28		ENSG00000116001	ENSG00000116001		"RNA binding motif (RRM) containing"	11802	protein-coding gene	gene with protein product	"T-cell-restricted intracellular antigen-1", "nucleolysin TIA-1 isoform p40"	603518	"TIA1 cytotoxic granule-associated RNA-binding protein"			8176212, 12486009	Standard	NM_022173		Approved		uc002sgj.4	P31483	OTTHUMG00000129644	ENST00000433529.2:c.119T>C	2.37:g.70463215A>G	ENSP00000401371:p.Met40Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q53SS9	Missense_Mutation	SNP	ENST00000433529.2	37	CCDS1901.1	.	.	.	.	.	.	.	.	.	.	A	9.479	1.097619	0.20552	.	.	ENSG00000116001	ENST00000433529;ENST00000415783;ENST00000477807;ENST00000282574;ENST00000445587;ENST00000416149	T;T;T;T;T	0.73363	-0.74;-0.74;-0.74;-0.74;-0.74	5.21	5.21	0.72293	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.048795	0.85682	D	0.000000	T	0.53433	0.1796	N	0.05306	-0.075	0.80722	D	1	B;B;B;B	0.10296	0.003;0.001;0.0;0.0	B;B;B;B	0.09377	0.004;0.001;0.004;0.0	T	0.50759	-0.8790	10	0.20046	T	0.44	-11.1683	14.1969	0.65677	1.0:0.0:0.0:0.0	.	40;78;40;40	B4E0E5;Q59G98;P31483-2;P31483	.;.;.;TIA1_HUMAN	T	40;40;78;40;40;40	ENSP00000401371:M40T;ENSP00000404023:M40T;ENSP00000282574:M40T;ENSP00000399567:M40T;ENSP00000413751:M40T	ENSP00000282574:M40T	M	-	2	0	TIA1	70316719	1.000000	0.71417	1.000000	0.80357	0.964000	0.63967	2.636000	0.46545	2.097000	0.63578	0.454000	0.30748	ATG		0.338	TIA1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000251842.2	NM_022037		G	70463215	A	G	70463215	3	3	629	1	0	0	0	0	1	0	0	0	15899	217	8	3	1089	3	TIA1	2	70463215	Missense_Mutation	SNP	A	TCGA-KL-8330-01A-11D-2310-10	42855325	70463215	172736158	10	38706										
ATP6V1B1	525	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr2	71192114	71192114	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	acgagaaccgctcggtgttcGagtcgctggacctgggctgg	16	11	0	1	rs140980255		TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr2:71192114G>A	ENST00000234396.4	+	14	1478	c.1405G>A	c.(1405-1407)Gag>Aag	p.E469K	AC007040.11_ENST00000606025.1_Intron|RN7SL160P_ENST00000468558.2_RNA|ATP6V1B1_ENST00000412314.1_Missense_Mutation_p.E452K	NM_001692.3	NP_001683.2	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B1	469					ATP hydrolysis coupled proton transport (GO:0015991)|ATP metabolic process (GO:0046034)|calcium ion homeostasis (GO:0055074)|cellular iron ion homeostasis (GO:0006879)|excretion (GO:0007588)|inner ear morphogenesis (GO:0042472)|insulin receptor signaling pathway (GO:0008286)|interaction with host (GO:0051701)|ossification (GO:0001503)|pH reduction (GO:0045851)|phagosome maturation (GO:0090382)|proton transport (GO:0015992)|regulation of pH (GO:0006885)|sensory perception of sound (GO:0007605)|transferrin transport (GO:0033572)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|lateral plasma membrane (GO:0016328)|microvillus (GO:0005902)|proton-transporting V-type ATPase, V1 domain (GO:0033180)|vacuolar proton-transporting V-type ATPase complex (GO:0016471)	ATP binding (GO:0005524)|hydrogen ion transmembrane transporter activity (GO:0015078)|hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances (GO:0016820)			endometrium(5)|kidney(1)|large_intestine(5)|liver(1)|lung(5)|prostate(1)|skin(1)	19						CTCGGTGTTCGAGTCGCTGGA	0.617											OREG0014686	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0								G	LYS/GLU	0,4406		0,0,2203	47	48	48		1405	3.8	1	2	dbSNP_134	48	1,8599	1.2+/-3.3	0,1,4299	no	missense	ATP6V1B1	NM_001692.3	56	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	benign	469/514	71192114	1,13005	2203	4300	6503	SO:0001583	missense	525			AF107466	CCDS1912.1	2p13	2010-04-21	2008-07-31	2002-05-10	ENSG00000116039	ENSG00000116039	3.6.3.14	"ATPases / V-type"	853	protein-coding gene	gene with protein product	"Renal tubular acidosis with deafness"	192132	"vacuolar proton pump 3"	VPP3, ATP6B1		9916796, 2527371	Standard	XM_005264368		Approved	VATB, RTA1B, Vma2	uc002shj.3	P15313	OTTHUMG00000129711	ENST00000234396.4:c.1405G>A	2.37:g.71192114G>A	ENSP00000234396:p.Glu469Lys	Somatic	1128	WXS	Illumina HiSeq	Phase_I	Q53FY0|Q6P4H6	Missense_Mutation	SNP	ENST00000234396.4	37	CCDS1912.1	.	.	.	.	.	.	.	.	.	.	G	23.7	4.448704	0.84101	0.0	1.16E-4	ENSG00000116039	ENST00000234396;ENST00000483246;ENST00000412314;ENST00000433895	T;T;T	0.77098	-1.07;-1.07;-1.07	3.81	3.81	0.43845	ATPase, F1/V1/A1 complex, alpha/beta subunit, C-terminal (1);	0.000000	0.52532	D	0.000064	T	0.76737	0.4029	M	0.81942	2.565	0.58432	D	0.999999	P;B;B	0.45212	0.853;0.067;0.141	B;B;B	0.38428	0.273;0.074;0.14	T	0.81990	-0.0679	10	0.62326	D	0.03	-34.01	13.2521	0.60057	0.0:0.0:1.0:0.0	.	444;452;469	B4DWH7;C9JL73;P15313	.;.;VATB1_HUMAN	K	469;444;452;74	ENSP00000234396:E469K;ENSP00000388353:E452K;ENSP00000407840:E74K	ENSP00000234396:E469K	E	+	1	0	ATP6V1B1	71045622	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.657000	0.98554	1.958000	0.56883	0.455000	0.32223	GAG		0.617	ATP6V1B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251920.2	NM_001692		A	71192114	G	A	71192114	3	1	629	1	0	0	0	0	1	0	0	0	1178	1059	37	1	1459	1	ATP6V1B1	2	71192114	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10	728899	71192114	172007259	11	38707										
DUSP11	8446	ucsc.edu;bcgsc.ca	37	chr2	73996401	73996401	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	tggcaacttacctgcaaatgAggtagccagtcctgtttaaa	9	9	0	1			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr2:73996401A>G	ENST00000272444.3	-	5	667	c.626T>C	c.(625-627)cTc>cCc	p.L209P	DUSP11_ENST00000377706.4_Missense_Mutation_p.L162P|DUSP11_ENST00000443070.1_Missense_Mutation_p.L209P|DUSP11_ENST00000480948.1_5'UTR	NM_003584.2	NP_003575.2	O75319	DUS11_HUMAN	dual specificity phosphatase 11 (RNA/RNP complex 1-interacting)	162					peptidyl-tyrosine dephosphorylation (GO:0035335)|polynucleotide 5' dephosphorylation (GO:0098507)|RNA metabolic process (GO:0016070)|RNA processing (GO:0006396)	nucleus (GO:0005634)	nucleotide phosphatase activity, acting on free nucleotides (GO:0098519)|phosphatase activity (GO:0016791)|poly(A) RNA binding (GO:0044822)|polynucleotide 5'-phosphatase activity (GO:0004651)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)|RNA binding (GO:0003723)			breast(1)|cervix(1)|endometrium(1)|large_intestine(4)|lung(4)|skin(1)	12						CCTGCAAATGAGGTAGCCAGT	0.358																																																0													98	99	99					2																	73996401		2203	4300	6503	SO:0001583	missense	8446			AF023917	CCDS1928.2	2p13.1	2011-06-09			ENSG00000144048	ENSG00000144048		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Atypical dual specificity phosphatases"	3066	protein-coding gene	gene with protein product		603092				9685386	Standard	NM_003584		Approved	PIR1	uc002sjp.3	O75319	OTTHUMG00000129816	ENST00000272444.3:c.626T>C	2.37:g.73996401A>G	ENSP00000272444:p.Leu209Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCT8|Q6AI47|Q9BWE3	Missense_Mutation	SNP	ENST00000272444.3	37	CCDS1928.2	.	.	.	.	.	.	.	.	.	.	A	16.31	3.086515	0.55861	.	.	ENSG00000144048	ENST00000272444;ENST00000443070;ENST00000377706	D;D;D	0.90563	-2.69;-2.69;-2.69	4.8	3.63	0.41609	Dual specificity phosphatase, catalytic domain (1);Protein-tyrosine/Dual-specificity phosphatase (1);	0.000000	0.85682	D	0.000000	D	0.95671	0.8592	M	0.92970	3.365	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.996	D	0.95180	0.8298	10	0.87932	D	0	-4.4581	9.4108	0.38491	0.8408:0.0:0.0:0.1592	.	209;162	C9JYA6;O75319	.;DUS11_HUMAN	P	209;209;162	ENSP00000272444:L209P;ENSP00000413444:L209P;ENSP00000366935:L162P	ENSP00000272444:L209P	L	-	2	0	DUSP11	73849909	1.000000	0.71417	1.000000	0.80357	0.734000	0.41952	6.789000	0.75110	0.953000	0.37825	0.528000	0.53228	CTC		0.358	DUSP11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252047.3			G	73996401	A	G	73996401	3	3	629	1	0	0	0	0	1	0	0	0	4813	304	11	3	527	3	DUSP11	2	73996401	Missense_Mutation	SNP	A	TCGA-KL-8330-01A-11D-2310-10	2804287	73996401	169202972	12	38708										
SCG2	7857	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr2	224462648	224462648	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	ttatatggattgggaaaataCgacgttttctgatttgctgc	10	5	1	1	rs143843249	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr2:224462648C>T	ENST00000305409.2	-	2	1585	c.1353G>A	c.(1351-1353)tcG>tcA	p.S451S		NM_003469.4	NP_003460.2	O00255	MEN1_HUMAN	secretogranin II	0					brain development (GO:0007420)|cell cycle arrest (GO:0007050)|cellular response to DNA damage stimulus (GO:0006974)|chromatin remodeling (GO:0006338)|DNA repair (GO:0006281)|embryonic skeletal system morphogenesis (GO:0048704)|gene expression (GO:0010467)|hemopoiesis (GO:0030097)|histone lysine methylation (GO:0034968)|leukocyte homeostasis (GO:0001776)|MAPK cascade (GO:0000165)|maternal process involved in female pregnancy (GO:0060135)|negative regulation of cell cycle (GO:0045786)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045736)|negative regulation of JNK cascade (GO:0046329)|negative regulation of organ growth (GO:0046621)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of telomerase activity (GO:0051974)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|osteoblast development (GO:0002076)|osteoblast fate commitment (GO:0002051)|palate development (GO:0060021)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cell division (GO:0051781)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of histone methylation (GO:0031062)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of protein binding (GO:0032092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|regulation of activin receptor signaling pathway (GO:0032925)|response to gamma radiation (GO:0010332)|response to UV (GO:0009411)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	chromatin (GO:0000785)|cleavage furrow (GO:0032154)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|histone methyltransferase complex (GO:0035097)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|protein complex (GO:0043234)	chromatin binding (GO:0003682)|double-stranded DNA binding (GO:0003690)|four-way junction DNA binding (GO:0000400)|protein binding, bridging (GO:0030674)|protein N-terminus binding (GO:0047485)|R-SMAD binding (GO:0070412)|sequence-specific DNA binding (GO:0043565)|transcription regulatory region DNA binding (GO:0044212)|Y-form DNA binding (GO:0000403)			NS(1)|breast(1)|endometrium(1)|kidney(6)|large_intestine(10)|liver(1)|lung(16)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(4)	44		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)		TGGGAAAATACGACGTTTTCT	0.488													C|||	2	0.000399361	0.0015	0.0	5008	,	,		19932	0.0		0.0	False		,,,				2504	0.0															0								C		4,4402	8.1+/-20.4	0,4,2199	106	107	107		1353	-2.9	0.5	2	dbSNP_134	107	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	SCG2	NM_003469.4		0,5,6498	TT,TC,CC		0.0116,0.0908,0.0384		451/618	224462648	5,13001	2203	4300	6503	SO:0001819	synonymous_variant	7857			M25756	CCDS2457.1	2q35-q36	2010-04-27	2010-04-27		ENSG00000171951	ENSG00000171951			10575	protein-coding gene	gene with protein product	"secretoneurin", "chromogranin C"	118930				8617499, 16101435	Standard	NM_003469		Approved	CHGC, SgII, SN	uc002vnm.3	P13521	OTTHUMG00000133166	ENST00000305409.2:c.1353G>A	2.37:g.224462648C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A5HBC6|A5HBC7|A5HBC8|A5HBC9|A5HBD0|A5HBD1|A5HBD2|O00632|Q9BUF0|Q9BUK2	Silent	SNP	ENST00000305409.2	37	CCDS2457.1																																																																																				0.488	SCG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256870.2	NM_003469		T	224462648	C	T	224462648	2	4	629	1	0	0	0	0	0	0	0	1	13904	523	19	1		1	SCG2	2	224462648	Silent	SNP	C	TCGA-KL-8330-01A-11D-2310-10	150466247	224462648	18736725	13	38709										
ZNF445	353274	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	44488434	44488434	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	tcctctggtgactggaaaggGtatgtctcccaatgaactct	10	10	3	2			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr3:44488434G>C	ENST00000396077.2	-	8	3076	c.2729C>G	c.(2728-2730)aCc>aGc	p.T910S	ZNF445_ENST00000425708.2_Missense_Mutation_p.T910S	NM_181489.5	NP_852466.1	P59923	ZN445_HUMAN	zinc finger protein 445	910					transcription, DNA-templated (GO:0006351)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(5)|kidney(3)|large_intestine(8)|lung(8)|ovary(2)|pancreas(1)|skin(3)	31				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		ACTGGAAAGGGTATGTCTCCC	0.483																																																0													102	100	100					3																	44488434		2203	4300	6503	SO:0001583	missense	353274			AY262260	CCDS2713.1	3p21.32	2013-01-09	2003-10-07		ENSG00000185219	ENSG00000185219		"Zinc fingers, C2H2-type", "-", "-", "-"	21018	protein-coding gene	gene with protein product			"zinc finger protein 168"	ZNF168		7814019	Standard	NM_181489		Approved	ZKSCAN15, ZSCAN47	uc003cnf.2	P59923	OTTHUMG00000133042	ENST00000396077.2:c.2729C>G	3.37:g.44488434G>C	ENSP00000379387:p.Thr910Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MJD1	Missense_Mutation	SNP	ENST00000396077.2	37	CCDS2713.1	.	.	.	.	.	.	.	.	.	.	G	4.922	0.171299	0.09391	.	.	ENSG00000185219	ENST00000425708;ENST00000396077	T;T	0.49432	0.78;0.78	4.06	4.06	0.47325	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.539313	0.17082	N	0.187728	T	0.22513	0.0543	N	0.05230	-0.09	0.09310	N	1	P;P	0.45176	0.852;0.852	B;B	0.39217	0.294;0.294	T	0.04333	-1.0959	10	0.15499	T	0.54	.	9.5794	0.39479	0.0:0.0:0.6833:0.3167	.	898;910	B7ZKX2;P59923	.;ZN445_HUMAN	S	910	ENSP00000413073:T910S;ENSP00000379387:T910S	ENSP00000379387:T910S	T	-	2	0	ZNF445	44463438	0.000000	0.05858	0.017000	0.16124	0.031000	0.12232	-2.107000	0.01337	2.559000	0.86315	0.563000	0.77884	ACC		0.483	ZNF445-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256647.2	NM_181489		C	44488434	G	C	44488434	3	2	629	1	0	0	0	0	1	0	0	0	17930	1261	44	4	370	4	ZNF445	3	44488434	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10		44488434	153533996	14	38710										
TMEM108	66000	mdanderson.org	37	chr3	133098856	133098856	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	cgcacaccatctccaccatcGctgcgacagtaaccgccccc	6	21	1	0			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr3:133098856G>A	ENST00000321871.6	+	4	511	c.301G>A	c.(301-303)Gct>Act	p.A101T	TMEM108_ENST00000508711.1_Intron|TMEM108_ENST00000515826.1_Missense_Mutation_p.A101T|TMEM108_ENST00000393130.3_Missense_Mutation_p.A101T	NM_001136469.1|NM_023943.2	NP_001129941.1|NP_076432.1	Q6UXF1	TM108_HUMAN	transmembrane protein 108	101	Pro-rich.					integral component of membrane (GO:0016021)				endometrium(3)|kidney(1)|large_intestine(5)|lung(22)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	38						CTCCACCATCGCTGCGACAGT	0.662																																																0													79	66	71					3																	133098856		2203	4299	6502	SO:0001583	missense	66000			AL136578	CCDS33858.1, CCDS75012.1	3q22.1	2014-04-07			ENSG00000144868	ENSG00000144868			28451	protein-coding gene	gene with protein product	"cancer/testis antigen 124"					11214970	Standard	XM_005247726		Approved	MGC3040, CT124	uc003epi.3	Q6UXF1	OTTHUMG00000159685	ENST00000321871.6:c.301G>A	3.37:g.133098856G>A	ENSP00000324651:p.Ala101Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNC9|Q9BQH1|Q9BW81|Q9C0H3	Missense_Mutation	SNP	ENST00000321871.6	37	CCDS33858.1	.	.	.	.	.	.	.	.	.	.	g	0.318	-0.963467	0.02249	.	.	ENSG00000144868	ENST00000321871;ENST00000393130;ENST00000514894;ENST00000512662;ENST00000512137;ENST00000515826;ENST00000510183	T;T;T;T;T;T;T	0.45276	0.9;0.9;0.9;0.9;0.9;0.9;0.9	2.99	-3.43	0.04810	.	1.088120	0.07306	N	0.874970	T	0.13628	0.0330	N	0.02011	-0.69	0.09310	N	1	B;B	0.09022	0.002;0.001	B;B	0.04013	0.001;0.001	T	0.23762	-1.0179	10	0.13470	T	0.59	0.1393	5.1788	0.15148	0.6526:0.1673:0.1802:0.0	.	101;101	E9PB58;Q6UXF1	.;TM108_HUMAN	T	101;101;52;52;101;101;101	ENSP00000324651:A101T;ENSP00000376838:A101T;ENSP00000422072:A52T;ENSP00000427447:A52T;ENSP00000426301:A101T;ENSP00000423338:A101T;ENSP00000421486:A101T	ENSP00000324651:A101T	A	+	1	0	TMEM108	134581546	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-1.257000	0.02866	-0.768000	0.04626	-0.230000	0.12252	GCT		0.662	TMEM108-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356907.2	NM_023943		A	133098856	G	A	133098856	3	1	629	1	0	0	0	0	1	0	0	0	16036	1087	38	1	307	1	TMEM108	3	133098856	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10	88610422	133098856	64923574	15	38711										
RBM47	54502	broad.mit.edu;hgsc.bcm.edu	37	chr4	40438607	40438608	+	Frame_Shift_Ins	INS	-	-	T													0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	tcccccgaggtaggaaccccINStaggccctggggctctgttg							TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr4:40438607_40438608insT	ENST00000381793.2	-	4	1576_1577	c.1180_1181insA	c.(1180-1182)aggfs	p.R394fs	RBM47_ENST00000381795.6_Intron|RBM47_ENST00000295971.7_Frame_Shift_Ins_p.R394fs|RBM47_ENST00000319592.4_Intron|RBM47_ENST00000514014.1_Frame_Shift_Ins_p.R356fs|RBM47_ENST00000515809.1_Intron			A0AV96	RBM47_HUMAN	RNA binding motif protein 47	394					hematopoietic progenitor cell differentiation (GO:0002244)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(5)|endometrium(1)|kidney(3)|large_intestine(2)|lung(9)|ovary(1)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)	29						GTAGGAACCCCTAGGCCCTGGG	0.515																																																0																																										SO:0001589	frameshift_variant	54502			AK000280	CCDS3460.1, CCDS43223.1	4p14	2013-02-12			ENSG00000163694	ENSG00000163694		"RNA binding motif (RRM) containing"	30358	protein-coding gene	gene with protein product							Standard	NM_019027		Approved	FLJ20273, NET18	uc003gvc.2	A0AV96	OTTHUMG00000128598	ENST00000381793.2:c.1181dupA	4.37:g.40438608_40438608dupT	ENSP00000371212:p.Arg394fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJK2|B5MED4|Q8NI52|Q8NI53|Q9NXG3	Frame_Shift_Ins	INS	ENST00000381793.2	37	CCDS43223.1																																																																																				0.515	RBM47-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250456.2	NM_019027		T	40438608	-	T	40438607	7	5	629	1	0	1	1	0	0	0	0	0	13154	681	24	0	612	0	RBM47	4	40438607	Frame_Shift_Ins	INS	-	TCGA-KL-8330-01A-11D-2310-10		40438607	150715669	16	38712	315	2								
RBM47	54502	bcgsc.ca	37	chr4	40438608	40438609	+	Frame_Shift_Ins	INS	-	-	T													0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	cccccgaggtaggaacccctINSaggccctggggctctgttgc							TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr4:40438608_40438609insT	ENST00000381793.2	-	4	1575_1576	c.1179_1180insA	c.(1177-1182)cctaggfs	p.R394fs	RBM47_ENST00000381795.6_Intron|RBM47_ENST00000295971.7_Frame_Shift_Ins_p.R394fs|RBM47_ENST00000319592.4_Intron|RBM47_ENST00000514014.1_Frame_Shift_Ins_p.R356fs|RBM47_ENST00000515809.1_Intron			A0AV96	RBM47_HUMAN	RNA binding motif protein 47	394					hematopoietic progenitor cell differentiation (GO:0002244)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(5)|endometrium(1)|kidney(3)|large_intestine(2)|lung(9)|ovary(1)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)	29						TAGGAACCCCTAGGCCCTGGGG	0.515																																																0																																										SO:0001589	frameshift_variant	54502			AK000280	CCDS3460.1, CCDS43223.1	4p14	2013-02-12			ENSG00000163694	ENSG00000163694		"RNA binding motif (RRM) containing"	30358	protein-coding gene	gene with protein product							Standard	NM_019027		Approved	FLJ20273, NET18	uc003gvc.2	A0AV96	OTTHUMG00000128598	ENST00000381793.2:c.1179dupA	4.37:g.40438608_40438608dupT	ENSP00000371212:p.Arg394fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJK2|B5MED4|Q8NI52|Q8NI53|Q9NXG3	Frame_Shift_Ins	INS	ENST00000381793.2	37	CCDS43223.1																																																																																				0.515	RBM47-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250456.2	NM_019027		T	40438609	-	T	40438608	7	5	629	1	0	1	1	0	0	0	0	0	13154	1521	53	0	613	0	RBM47	4	40438608	Frame_Shift_Ins	INS	-	TCGA-KL-8330-01A-11D-2310-10	1	40438608	150715668	17	38713	315	2								
UGT2B7	7364	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	69978239	69978239	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	aaccagtgaagcccctggatCgagcagtcttctggattgaa	11	10	2	2			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr4:69978239C>T	ENST00000305231.7	+	6	1421	c.1375C>T	c.(1375-1377)Cga>Tga	p.R459*	UGT2B7_ENST00000508661.1_3'UTR|UGT2B7_ENST00000509763.1_3'UTR	NM_001074.2	NP_001065.2	P16662	UD2B7_HUMAN	UDP glucuronosyltransferase 2 family, polypeptide B7	459					androgen metabolic process (GO:0008209)|cellular glucuronidation (GO:0052695)|lipid metabolic process (GO:0006629)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	glucuronosyltransferase activity (GO:0015020)			autonomic_ganglia(1)|endometrium(3)|kidney(4)|large_intestine(6)|lung(16)|ovary(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	38					Atorvastatin(DB01076)|Carbamazepine(DB00564)|Chenodeoxycholic acid(DB06777)|Codeine(DB00318)|Dabigatran etexilate(DB06695)|Dapagliflozin(DB06292)|Diclofenac(DB00586)|Epirubicin(DB00445)|Etodolac(DB00749)|Ezetimibe(DB00973)|Flunitrazepam(DB01544)|Flurbiprofen(DB00712)|Fluvastatin(DB01095)|Ibuprofen(DB01050)|Indomethacin(DB00328)|Losartan(DB00678)|Lovastatin(DB00227)|Mitiglinide(DB01252)|Morphine(DB00295)|Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|Naproxen(DB00788)|Oxazepam(DB00842)|Pitavastatin(DB08860)|Silodosin(DB06207)|Simvastatin(DB00641)|Suprofen(DB00870)|Tapentadol(DB06204)|Valproic Acid(DB00313)|Zidovudine(DB00495)	GCCCCTGGATCGAGCAGTCTT	0.423																																																0													109	111	111					4																	69978239		2203	4297	6500	SO:0001587	stop_gained	7364			BC030974	CCDS3526.1	4q13	2008-02-05	2005-07-20		ENSG00000171234	ENSG00000171234		"UDP glucuronosyltransferases"	12554	protein-coding gene	gene with protein product		600068	"UDP glycosyltransferase 2 family, polypeptide B7"			2159463, 7835904	Standard	NM_001074		Approved	UGT2B9	uc003heg.4	P16662	OTTHUMG00000129404	ENST00000305231.7:c.1375C>T	4.37:g.69978239C>T	ENSP00000304811:p.Arg459*	Somatic		WXS	Illumina HiSeq	Phase_I	B2R810|Q6GTW0	Nonsense_Mutation	SNP	ENST00000305231.7	37	CCDS3526.1	.	.	.	.	.	.	.	.	.	.	C	17.07	3.295865	0.60086	.	.	ENSG00000171234	ENST00000305231	.	.	.	2.13	0.0314	0.14171	.	0.339461	0.24645	U	0.036762	.	.	.	.	.	.	0.26224	N	0.979115	.	.	.	.	.	.	.	.	.	.	.	.	.	.	7.7846	0.29085	0.6381:0.3619:0.0:0.0	.	.	.	.	X	459	.	.	R	+	1	2	UGT2B7	70012828	0.842000	0.29525	0.479000	0.27329	0.846000	0.48090	0.072000	0.14617	-0.197000	0.10350	0.306000	0.20318	CGA		0.423	UGT2B7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251560.1	NM_001074		T	69978239	C	T	69978239	4	4	629	1	0	0	0	0	0	1	0	0	16974	876	31	1	1397	1	UGT2B7	4	69978239	Nonsense_Mutation	SNP	C	TCGA-KL-8330-01A-11D-2310-10	29539631	69978239	121176037	18	38714										
RUFY3	22902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	71588442	71588442	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gctggatgacatctcacttaCacctgacccagagcctaccc	7	16	1	3			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr4:71588442C>A	ENST00000226328.4	+	1	715	c.152C>A	c.(151-153)aCa>aAa	p.T51K	RUFY3_ENST00000381006.3_Missense_Mutation_p.T51K|RUFY3_ENST00000536664.1_Missense_Mutation_p.T17K|RUFY3_ENST00000417478.2_Intron	NM_014961.3	NP_055776.1	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3	51					negative regulation of axonogenesis (GO:0050771)	filopodium (GO:0030175)|growth cone (GO:0030426)				endometrium(1)|kidney(3)|large_intestine(4)|lung(6)|prostate(1)|stomach(1)	16		all_hematologic(202;0.248)	Lung(101;0.235)			ATCTCACTTACACCTGACCCA	0.532																																																0													166	136	146					4																	71588442		2203	4300	6503	SO:0001583	missense	22902			AF112221	CCDS3547.1, CCDS34001.1, CCDS47068.1, CCDS75138.1	4q13.3	2009-05-29			ENSG00000018189	ENSG00000018189		"Zinc fingers, FYVE domain containing"	30285	protein-coding gene	gene with protein product	"single axon-related 1"	611194				17439943	Standard	NM_001130709		Approved	RIPx, KIAA0871, Singar1	uc003hfr.3	Q7L099	OTTHUMG00000129910	ENST00000226328.4:c.152C>A	4.37:g.71588442C>A	ENSP00000226328:p.Thr51Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KM25|B4DYW7|D9N163|O94948|Q9UI00	Missense_Mutation	SNP	ENST00000226328.4	37	CCDS3547.1	.	.	.	.	.	.	.	.	.	.	C	26.6	4.755538	0.89843	.	.	ENSG00000018189	ENST00000381006;ENST00000226328;ENST00000536664	T;T;T	0.11821	3.11;2.74;2.77	5.51	5.51	0.81932	.	0.806005	0.11213	N	0.587473	T	0.26195	0.0639	N	0.14661	0.345	0.58432	D	0.999998	D;D;D	0.76494	0.982;0.999;0.981	D;D;D	0.80764	0.939;0.994;0.95	T	0.29150	-1.0021	10	0.56958	D	0.05	-2.8095	19.4131	0.94683	0.0:1.0:0.0:0.0	.	17;51;51	B4DKC2;Q7L099-3;Q7L099	.;.;RUFY3_HUMAN	K	51;51;17	ENSP00000370394:T51K;ENSP00000226328:T51K;ENSP00000443652:T17K	ENSP00000226328:T51K	T	+	2	0	RUFY3	71807306	1.000000	0.71417	1.000000	0.80357	0.884000	0.51177	7.487000	0.81328	2.590000	0.87494	0.555000	0.69702	ACA		0.532	RUFY3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000252161.2	NM_014961		A	71588442	C	A	71588442	3	1	629	1	0	0	0	0	1	0	0	0	13753	478	17	4	516	4	RUFY3	4	71588442	Missense_Mutation	SNP	C	TCGA-KL-8330-01A-11D-2310-10	1610203	71588442	119565834	19	38715										
AGPAT9	84803	broad.mit.edu	37	chr4	84518658	84518658	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	tggaggaaccatacatccagTtgcaattaaggtaaaacaga	9	7	0	1			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr4:84518658T>C	ENST00000395226.2	+	10	1204	c.986T>C	c.(985-987)gTt>gCt	p.V329A	AGPAT9_ENST00000264409.4_Missense_Mutation_p.V329A	NM_001256421.1	NP_001243350.1	Q53EU6	GPAT3_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 9	329					CDP-diacylglycerol biosynthetic process (GO:0016024)|cellular lipid metabolic process (GO:0044255)|glycerophospholipid biosynthetic process (GO:0046474)|phosphatidic acid biosynthetic process (GO:0006654)|phospholipid metabolic process (GO:0006644)|regulation of TOR signaling (GO:0032006)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	1-acylglycerol-3-phosphate O-acyltransferase activity (GO:0003841)|glycerol-3-phosphate O-acyltransferase activity (GO:0004366)			endometrium(1)|kidney(1)|large_intestine(4)|lung(4)|skin(3)	13		Hepatocellular(203;0.114)				ATACATCCAGTTGCAATTAAG	0.333																																																0													54	56	55					4																	84518658		2203	4300	6503	SO:0001583	missense	84803			AK055749	CCDS3606.1	4q21.23	2014-02-13	2008-01-29		ENSG00000138678	ENSG00000138678	2.3.1.15	"1-acylglycerol-3-phosphate O-acyltransferases"	28157	protein-coding gene	gene with protein product	"lysophosphatidic acid acyltransferase, theta"	610958	"1-acylglycerol-3-phosphate O-acyltransferase 9 (lysophosphatidic acid acyltransferase, theta)"			12975309	Standard	NM_001256421		Approved	MGC11324, LPAAT-theta, MAG1, HMFN0839	uc003how.4	Q53EU6	OTTHUMG00000130431	ENST00000395226.2:c.986T>C	4.37:g.84518658T>C	ENSP00000378651:p.Val329Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q68CJ4|Q6GPI6|Q96NA3	Missense_Mutation	SNP	ENST00000395226.2	37	CCDS3606.1	.	.	.	.	.	.	.	.	.	.	T	21.1	4.103293	0.76983	.	.	ENSG00000138678	ENST00000395226;ENST00000264409	D;D	0.96011	-3.88;-3.88	5.32	5.32	0.75619	Phospholipid/glycerol acyltransferase (2);	0.000000	0.85682	D	0.000000	D	0.97554	0.9199	M	0.80183	2.485	0.80722	D	1	D	0.76494	0.999	D	0.80764	0.994	D	0.98221	1.0478	10	0.66056	D	0.02	-20.1272	15.2947	0.73894	0.0:0.0:0.0:1.0	.	329	Q53EU6	GPAT3_HUMAN	A	329	ENSP00000378651:V329A;ENSP00000264409:V329A	ENSP00000264409:V329A	V	+	2	0	AGPAT9	84737682	1.000000	0.71417	0.993000	0.49108	0.830000	0.47004	7.958000	0.87877	2.005000	0.58758	0.460000	0.39030	GTT		0.333	AGPAT9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252821.3	NM_032717		C	84518658	T	C	84518658	3	2	629	1	0	0	0	0	1	0	0	0	392	1725	60	3	1020	3	AGPAT9	4	84518658	Missense_Mutation	SNP	T	TCGA-KL-8330-01A-11D-2310-10	12930216	84518658	106635618	20	38716										
NHEDC1	150159	mdanderson.org	37	chr4	103826757	103826757	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	aaagcacatcaatagatatgTggttaaaattcgaacacata	6	6	1	1			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr4:103826757T>C	ENST00000296422.7	-	11	1387	c.1246A>G	c.(1246-1248)Aca>Gca	p.T416A	SLC9B1_ENST00000394789.3_Missense_Mutation_p.T416A|SLC9B1_ENST00000512651.2_Intron	NM_139173.3	NP_631912	Q4ZJI4	SL9B1_HUMAN	solute carrier family 9, subfamily B (NHA1, cation proton antiporter 1), member 1	416					ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	solute:proton antiporter activity (GO:0015299)										AATAGATATGTGGTTAAAATT	0.323																																																0													39	43	42					4																	103826757		2198	4292	6490	SO:0001583	missense	150159			AF447585	CCDS34041.1, CCDS47119.1	4q24	2013-05-22	2012-03-22	2011-07-26	ENSG00000164037	ENSG00000164037		"Solute carriers"	24244	protein-coding gene	gene with protein product		611527	"Na+/H+ exchanger domain containing 1", "solute carrier family 9, subfamily B (cation proton antiporter 2), member 1"	NHEDC1		16850186	Standard	NM_139173		Approved	NHA1	uc003hww.3	Q4ZJI4	OTTHUMG00000161114	ENST00000296422.7:c.1246A>G	4.37:g.103826757T>C	ENSP00000296422:p.Thr416Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A1KXV1|B9EH04|C9JBP7|Q49A30|Q8NCV2|Q8WVZ0	Missense_Mutation	SNP	ENST00000296422.7	37	CCDS34041.1	.	.	.	.	.	.	.	.	.	.	T	5.018	0.188936	0.09547	.	.	ENSG00000164037	ENST00000394789;ENST00000296422	T;T	0.13657	2.57;2.57	3.47	2.27	0.28462	.	0.060197	0.64402	N	0.000003	T	0.04407	0.0121	N	0.01048	-1.04	0.34123	D	0.664367	B;B;B	0.28350	0.123;0.208;0.025	B;B;B	0.37304	0.076;0.246;0.108	T	0.28713	-1.0035	10	0.25106	T	0.35	-18.6579	3.8532	0.08963	0.1863:0.1077:0.0:0.7059	.	184;416;416	Q4ZJI4-2;Q4ZJI4;Q4ZJI4-3	.;SL9B1_HUMAN;.	A	416	ENSP00000378269:T416A;ENSP00000296422:T416A	ENSP00000296422:T416A	T	-	1	0	SLC9B1	104046206	1.000000	0.71417	0.206000	0.23566	0.010000	0.07245	3.032000	0.49736	0.514000	0.28300	0.397000	0.26171	ACA		0.323	SLC9B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363841.1	NM_139173		C	103826757	T	C	103826757	3	2	629	1	0	0	0	0	1	0	0	0	10407	1696	59	3	409	3	NHEDC1	4	103826757	Missense_Mutation	SNP	T	TCGA-KL-8330-01A-11D-2310-10	19308099	103826757	87327519	21	38717										
LARP7	51574	broad.mit.edu	37	chr4	113568911	113568911	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	aagatagctctctcttgaaaAcaaaaaggaaacataagaaa	6	6	2	3			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr4:113568911A>G	ENST00000344442.5	+	8	1341	c.1063A>G	c.(1063-1065)Aca>Gca	p.T355A	MIR302B_ENST00000362188.1_RNA|MIR302D_ENST00000362275.1_RNA|LARP7_ENST00000324052.6_Missense_Mutation_p.T355A|MIR302C_ENST00000362232.1_RNA|MIR367_ENST00000362299.1_RNA|MIR302A_ENST00000385192.1_RNA|LARP7_ENST00000509061.1_Missense_Mutation_p.T362A|MIR302B_ENST00000505215.1_RNA|MIR302B_ENST00000510655.1_RNA|MIR302B_ENST00000509938.1_RNA	NM_016648.3	NP_057732.2	Q4G0J3	LARP7_HUMAN	La ribonucleoprotein domain family, member 7	355	Lys-rich.				RNA processing (GO:0006396)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			endometrium(2)|large_intestine(2)|lung(8)|ovary(4)|skin(1)	17		Ovarian(17;0.0443)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		TCTCTTGAAAACAAAAAGGAA	0.308																																																0													32	34	33					4																	113568911		2201	4294	6495	SO:0001583	missense	51574			AF068284	CCDS3701.2, CCDS58924.1	4q25	2013-02-12			ENSG00000174720	ENSG00000174720		"La ribonucleoprotein domain containing", "RNA binding motif (RRM) containing"	24912	protein-coding gene	gene with protein product	"P-TEFb-interaction protein for 7SK stability"	612026				18191186, 18249148, 18281698, 22865833, 22488152	Standard	NM_016648		Approved	HDCMA18P, PIP7S, DKFZP564K112	uc003ibb.4	Q4G0J3	OTTHUMG00000132909	ENST00000344442.5:c.1063A>G	4.37:g.113568911A>G	ENSP00000344950:p.Thr355Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2ZHN6|Q3B7A9|Q9P1S7|Q9Y3Z8	Missense_Mutation	SNP	ENST00000344442.5	37	CCDS3701.2	.	.	.	.	.	.	.	.	.	.	A	5.077	0.199948	0.09652	.	.	ENSG00000174720	ENST00000344442;ENST00000509061;ENST00000513553;ENST00000324052	T;T;T;T	0.42900	0.96;0.96;0.96;0.96	5.89	-4.82	0.03171	.	0.593004	0.18744	N	0.132376	T	0.08935	0.0221	N	0.00972	-1.085	0.20764	N	0.999853	B	0.02656	0.0	B	0.01281	0.0	T	0.35549	-0.9784	10	0.02654	T	1	-9.5667	6.2703	0.20951	0.2366:0.0:0.3856:0.3779	.	355	Q4G0J3	LARP7_HUMAN	A	355;362;23;355	ENSP00000344950:T355A;ENSP00000422626:T362A;ENSP00000422013:T23A;ENSP00000314311:T355A	ENSP00000314311:T355A	T	+	1	0	LARP7	113788360	0.729000	0.28090	0.041000	0.18516	0.910000	0.53928	0.480000	0.22244	-0.602000	0.05775	0.533000	0.62120	ACA		0.308	LARP7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256417.2	NM_016648		G	113568911	A	G	113568911	3	3	629	1	0	0	0	0	1	0	0	0	8640	43	2	3	1089	3	LARP7	4	113568911	Missense_Mutation	SNP	A	TCGA-KL-8330-01A-11D-2310-10	9742154	113568911	77585365	22	38718										
ANK2	287	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr4	114275928	114275928	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	cagagaatcagacaatcaaaCgaggccagagactcccggta	10	11	2	3			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr4:114275928C>T	ENST00000357077.4	+	38	6207	c.6154C>T	c.(6154-6156)Cga>Tga	p.R2052*	ANK2_ENST00000506722.1_Intron|ANK2_ENST00000509550.1_Intron|ANK2_ENST00000394537.3_Intron|ANK2_ENST00000510275.2_Intron|ANK2_ENST00000264366.6_Nonsense_Mutation_p.R2019*	NM_001148.4	NP_001139.3	Q01484	ANK2_HUMAN	ankyrin 2, neuronal	2052					atrial cardiac muscle cell action potential (GO:0086014)|atrial cardiac muscle cell to AV node cell communication (GO:0086066)|atrial septum development (GO:0003283)|axon guidance (GO:0007411)|cardiac muscle contraction (GO:0060048)|cellular calcium ion homeostasis (GO:0006874)|cellular protein localization (GO:0034613)|membrane depolarization during SA node cell action potential (GO:0086046)|paranodal junction assembly (GO:0030913)|positive regulation of calcium ion transmembrane transporter activity (GO:1901021)|positive regulation of calcium ion transport (GO:0051928)|positive regulation of cation channel activity (GO:2001259)|positive regulation of gene expression (GO:0010628)|positive regulation of potassium ion transmembrane transporter activity (GO:1901018)|positive regulation of potassium ion transport (GO:0043268)|protein localization to cell surface (GO:0034394)|protein localization to endoplasmic reticulum (GO:0070972)|protein localization to M-band (GO:0036309)|protein localization to organelle (GO:0033365)|protein localization to plasma membrane (GO:0072659)|protein localization to T-tubule (GO:0036371)|protein stabilization (GO:0050821)|protein targeting to plasma membrane (GO:0072661)|regulation of calcium ion transmembrane transporter activity (GO:1901019)|regulation of calcium ion transport (GO:0051924)|regulation of cardiac muscle cell contraction (GO:0086004)|regulation of cardiac muscle cell membrane potential (GO:0086036)|regulation of cardiac muscle contraction (GO:0055117)|regulation of cardiac muscle contraction by calcium ion signaling (GO:0010882)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of heart rate (GO:0002027)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of protein stability (GO:0031647)|regulation of release of sequestered calcium ion into cytosol (GO:0051279)|regulation of ventricular cardiac muscle cell membrane repolarization (GO:0060307)|response to methylmercury (GO:0051597)|SA node cell action potential (GO:0086015)|SA node cell to atrial cardiac muscle cell communication (GO:0086070)|sarcoplasmic reticulum calcium ion transport (GO:0070296)|T-tubule organization (GO:0033292)|ventricular cardiac muscle cell action potential (GO:0086005)	A band (GO:0031672)|basolateral plasma membrane (GO:0016323)|costamere (GO:0043034)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|integral component of plasma membrane (GO:0005887)|intercalated disc (GO:0014704)|intracellular (GO:0005622)|M band (GO:0031430)|membrane raft (GO:0045121)|neuron projection (GO:0043005)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)	ATPase binding (GO:0051117)|enzyme binding (GO:0019899)|ion channel binding (GO:0044325)|potassium channel regulator activity (GO:0015459)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|biliary_tract(1)|breast(9)|central_nervous_system(10)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(54)|liver(2)|lung(112)|ovary(8)|pancreas(1)|prostate(7)|skin(11)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(10)	248		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GACAATCAAACGAGGCCAGAG	0.468																																																0													70	81	78					4																	114275928		2203	4300	6503	SO:0001587	stop_gained	287			M37123	CCDS3702.1, CCDS43261.1, CCDS54796.1	4q25-q26	2014-09-17	2003-03-12		ENSG00000145362	ENSG00000145362		"Ankyrin repeat domain containing"	493	protein-coding gene	gene with protein product		106410	"long (electrocardiographic) QT syndrome 4"	LQT4		7485162, 12571597	Standard	NM_001148		Approved		uc003ibe.4	Q01484	OTTHUMG00000132912	ENST00000357077.4:c.6154C>T	4.37:g.114275928C>T	ENSP00000349588:p.Arg2052*	Somatic		WXS	Illumina HiSeq	Phase_I	Q01485|Q08AC7|Q08AC8|Q7Z3L5	Nonsense_Mutation	SNP	ENST00000357077.4	37	CCDS3702.1	.	.	.	.	.	.	.	.	.	.	C	42	9.343468	0.99143	.	.	ENSG00000145362	ENST00000357077;ENST00000264366	.	.	.	5.53	3.77	0.43336	.	0.299436	0.24096	N	0.041583	.	.	.	.	.	.	0.09310	N	0.999996	.	.	.	.	.	.	.	.	.	.	.	.	.	.	8.535	0.33357	0.2778:0.6531:0.0:0.0691	.	.	.	.	X	2052;2019	.	.	R	+	1	2	ANK2	114495377	0.938000	0.31826	0.705000	0.30386	0.131000	0.20780	0.989000	0.29629	0.767000	0.33267	-0.311000	0.09066	CGA		0.468	ANK2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256422.2	NM_001148		T	114275928	C	T	114275928	4	4	629	1	0	0	0	0	0	1	0	0	621	528	19	1	6369	1	ANK2	4	114275928	Nonsense_Mutation	SNP	C	TCGA-KL-8330-01A-11D-2310-10	707017	114275928	76878348	23	38719										
SPEF2	79925	ucsc.edu	37	chr5	35774017	35774017	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	aaatcaccacctatggcagaAgcaactcctgtcatagtaac	6	12	2	1			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr5:35774017A>G	ENST00000356031.3	+	28	4126	c.3972A>G	c.(3970-3972)gaA>gaG	p.E1324E	CTD-2113L7.1_ENST00000510433.1_RNA|SPEF2_ENST00000440995.2_Silent_p.E1319E	NM_024867.3	NP_079143.3	Q9C093	SPEF2_HUMAN	sperm flagellar 2	1324					axoneme assembly (GO:0035082)|brain morphogenesis (GO:0048854)|embryonic neurocranium morphogenesis (GO:0048702)|fertilization (GO:0009566)|immune system development (GO:0002520)|multicellular organismal aging (GO:0010259)|respiratory system development (GO:0060541)|spermatogenesis (GO:0007283)	Golgi apparatus (GO:0005794)|manchette (GO:0002177)|sperm midpiece (GO:0097225)				breast(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(15)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	37	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CTATGGCAGAAGCAACTCCTG	0.393																																																0													81	73	75					5																	35774017		1853	4092	5945	SO:0001819	synonymous_variant	79925			AB051557	CCDS3910.1, CCDS43309.1	5p13.2	2010-05-04			ENSG00000152582	ENSG00000152582			26293	protein-coding gene	gene with protein product	"cancer/testis antigen 122"	610172				11214970, 16549801, 17610085	Standard	NM_024867		Approved	KPL2, FLJ23577, CT122	uc003jjo.3	Q9C093	OTTHUMG00000131111	ENST00000356031.3:c.3972A>G	5.37:g.35774017A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q2TAC9|Q96LL6|Q9H5C7|Q9H5Q7	Silent	SNP	ENST00000356031.3	37	CCDS43309.1																																																																																				0.393	SPEF2-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367199.1	NM_144722		G	35774017	A	G	35774017	2	3	629	1	0	0	0	0	0	0	0	1	15047	69	3	3		3	SPEF2	5	35774017	Silent	SNP	A	TCGA-KL-8330-01A-11D-2310-10		35774017	145141243	24	38720										
CAMK4	814	bcgsc.ca	37	chr5	110820081	110820081	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	agctgaagactgtggaggagGcagcagctcccagagaaggg	17	8	0	3			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr5:110820081G>A	ENST00000282356.4	+	11	1737	c.1339G>A	c.(1339-1341)Gca>Aca	p.A447T	CAMK4_ENST00000512890.1_3'UTR|CAMK4_ENST00000512453.1_Missense_Mutation_p.A447T	NM_001744.4	NP_001735.1	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	447					activation of phospholipase C activity (GO:0007202)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|long-term memory (GO:0007616)|myeloid dendritic cell differentiation (GO:0043011)|neuron-neuron synaptic transmission (GO:0007270)|neurotrophin TRK receptor signaling pathway (GO:0048011)|nucleocytoplasmic transport (GO:0006913)|positive regulation of protein export from nucleus (GO:0046827)|positive regulation of transcription, DNA-templated (GO:0045893)|protein phosphorylation (GO:0006468)|regulation of osteoclast differentiation (GO:0045670)|regulation of T cell differentiation in thymus (GO:0033081)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|calmodulin-dependent protein kinase activity (GO:0004683)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(13)|ovary(3)|prostate(2)|skin(1)|urinary_tract(1)	30		all_cancers(142;1.49e-05)|all_epithelial(76;1.82e-07)|Prostate(80;0.00964)|all_lung(232;0.0181)|Lung NSC(167;0.0298)|Ovarian(225;0.0446)|Colorectal(57;0.0478)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;3.79e-08)|Epithelial(69;5.29e-08)|all cancers(49;1.1e-05)|COAD - Colon adenocarcinoma(37;0.109)		TGTGGAGGAGGCAGCAGCTCC	0.542																																																0													54	53	54					5																	110820081		2202	4300	6502	SO:0001583	missense	814			D30742	CCDS4103.1	5q22.1	2012-09-20			ENSG00000152495	ENSG00000152495	2.7.11.17		1464	protein-coding gene	gene with protein product	"brain Ca++-calmodulin-dependent protein kinase type IV", "calcium/calmodulin-dependent protein kinase type IV catalytic chain", "CAM kinase IV", "CAM kinase- GR"	114080				2536634	Standard	NM_001744		Approved	CaMK-GR	uc003kpf.3	Q16566	OTTHUMG00000128792	ENST00000282356.4:c.1339G>A	5.37:g.110820081G>A	ENSP00000282356:p.Ala447Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSZ7	Missense_Mutation	SNP	ENST00000282356.4	37	CCDS4103.1	.	.	.	.	.	.	.	.	.	.	G	12.82	2.052040	0.36181	.	.	ENSG00000152495	ENST00000512453;ENST00000282356	T;T	0.68025	-0.3;-0.3	4.84	-0.624	0.11552	.	0.774566	0.10590	N	0.656924	T	0.43743	0.1261	N	0.14661	0.345	0.09310	N	1	B	0.09022	0.002	B	0.09377	0.004	T	0.34354	-0.9832	10	0.66056	D	0.02	.	4.2987	0.10915	0.0911:0.4521:0.3025:0.1544	.	447	Q16566	KCC4_HUMAN	T	447	ENSP00000422634:A447T;ENSP00000282356:A447T	ENSP00000282356:A447T	A	+	1	0	CAMK4	110847980	0.021000	0.18746	0.006000	0.13384	0.041000	0.13682	0.406000	0.21032	0.204000	0.20548	0.585000	0.79938	GCA		0.542	CAMK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250719.2	NM_001744		A	110820081	G	A	110820081	3	1	629	1	0	0	0	0	1	0	0	0	2607	1203	42	2	1381	2	CAMK4	5	110820081	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10	75046064	110820081	70095179	25	38721										
SRFBP1	153443	ucsc.edu	37	chr5	121309892	121309892	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	attgctttattcttcaaaggTtgtgaagatgagaaaagaag	10	3	2	4			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr5:121309892T>C	ENST00000339397.4	+	2	110	c.38T>C	c.(37-39)gTt>gCt	p.V13A		NM_152546.2	NP_689759.2			serum response factor binding protein 1											central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(6)|skin(1)	15		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)		TCTTCAAAGGTTGTGAAGATG	0.333																																																0													67	63	64					5																	121309892		1820	4072	5892	SO:0001630	splice_region_variant	153443			AK058015	CCDS43354.1	5q23.1	2006-12-21				ENSG00000151304			26333	protein-coding gene	gene with protein product	"BUD22 homolog (S. cerevisiae)"	610479				15492011	Standard	NM_152546		Approved	FLJ25286, p49, STRAP, BUD22, Rlb1	uc003kst.1	Q8NEF9		ENST00000339397.4:c.37-1T>C	5.37:g.121309892T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000339397.4	37	CCDS43354.1	.	.	.	.	.	.	.	.	.	.	T	21.1	4.095015	0.76870	.	.	ENSG00000151304	ENST00000339397	.	.	.	5.94	5.94	0.96194	.	0.000000	0.85682	D	0.000000	T	0.77025	0.4070	M	0.77103	2.36	0.53688	D	0.999974	D	0.67145	0.996	P	0.59948	0.866	T	0.80405	-0.1396	9	0.87932	D	0	-16.2291	14.9786	0.71296	0.0:0.0:0.0:1.0	.	13	Q8NEF9	SRFB1_HUMAN	A	13	.	ENSP00000341324:V13A	V	+	2	0	SRFBP1	121337791	1.000000	0.71417	1.000000	0.80357	0.796000	0.44982	5.385000	0.66231	2.275000	0.75901	0.528000	0.53228	GTT		0.333	SRFBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371200.1	NM_152546	Missense_Mutation	C	121309892	T	C	121309892	5	2	629	1	0	0	0	0	0	0	1	0	15156	1739	60	3	44	3	SRFBP1	5	121309892	Splice_Site	SNP	T	TCGA-KL-8330-01A-11D-2310-10	10489811	121309892	59605368	26	38722										
PCDHGC3	5098	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr5	140857474	140857474	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	tcacgggtggtaggctgggaCgcggatgcagggcacaatgc	18	9	1	0			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr5:140857474C>T	ENST00000308177.3	+	1	1895	c.1791C>T	c.(1789-1791)gaC>gaT	p.D597D	PCDHGA7_ENST00000518325.1_Intron|PCDHGA3_ENST00000253812.6_Intron|PCDHGA1_ENST00000517417.1_Intron|PCDHGA2_ENST00000394576.2_Intron|PCDHGA6_ENST00000517434.1_Intron|PCDHGA5_ENST00000518069.1_Intron|PCDHGB3_ENST00000576222.1_Intron|PCDHGA8_ENST00000398604.2_Intron|PCDHGB1_ENST00000523390.1_Intron|PCDHGB4_ENST00000519479.1_Intron|PCDHGA4_ENST00000571252.1_Intron|RN7SL68P_ENST00000488078.2_RNA|PCDHGB2_ENST00000522605.1_Intron|PCDHGA11_ENST00000518882.1_Intron|PCDHGB7_ENST00000398594.2_Intron|PCDHGA10_ENST00000398610.2_Intron|PCDHGA9_ENST00000573521.1_Intron|PCDHGB6_ENST00000520790.1_Intron|PCDHGA12_ENST00000252085.3_Intron|PCDHGA11_ENST00000398587.2_Intron	NM_002588.2|NM_032402.1	NP_002579.2|NP_115778.1	Q9UN70	PCDGK_HUMAN	protocadherin gamma subfamily C, 3	597	Cadherin 6. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(8)|lung(8)|ovary(2)|skin(2)|urinary_tract(1)	29			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAGGCTGGGACGCGGATGCAG	0.602											OREG0016865	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													50	55	53					5																	140857474		2203	4300	6503	SO:0001819	synonymous_variant	5098			AF152337	CCDS4261.1, CCDS75347.1, CCDS75348.1	5q31	2010-01-26			ENSG00000240184	ENSG00000240184		"Cadherins / Protocadherins : Clustered"	8716	other	protocadherin	"cadherin-like 2", "protocadherin 2", "protocadherin 43"	603627		PCDH2		9360932, 8508762	Standard	NM_032402		Approved	PC-43, PC43, PCDH-GAMMA-C3		Q9UN70	OTTHUMG00000129613	ENST00000308177.3:c.1791C>T	5.37:g.140857474C>T		Somatic	1659	WXS	Illumina HiSeq	Phase_I	O60622|Q08192|Q9Y5C4	Silent	SNP	ENST00000308177.3	37	CCDS4261.1																																																																																				0.602	PCDHGC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251808.2	NM_002588		T	140857474	C	T	140857474	2	4	629	1	0	0	0	0	0	0	0	1	11576	535	19	1		1	PCDHGC3	5	140857474	Silent	SNP	C	TCGA-KL-8330-01A-11D-2310-10	19547582	140857474	40057786	27	38723										
FAM8A1	51439	mdanderson.org	37	chr6	17608519	17608519	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	tttcagcataatcgaacagcTtatgacattgtagcaggaac	8	8	1	1			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr6:17608519T>C	ENST00000259963.3	+	5	1246	c.1191T>C	c.(1189-1191)gcT>gcC	p.A397A		NM_016255.2	NP_057339.1	Q9UBU6	FA8A1_HUMAN	family with sequence similarity 8, member A1	397	RDD.					integral component of membrane (GO:0016021)				endometrium(1)|large_intestine(2)|lung(3)	6	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.143)	all cancers(50;0.176)|Epithelial(50;0.204)			ATCGAACAGCTTATGACATTG	0.383																																																0													100	95	97					6																	17608519		2203	4300	6503	SO:0001819	synonymous_variant	51439			AF097027	CCDS4540.1	6p23	2010-11-22			ENSG00000137414	ENSG00000137414			16372	protein-coding gene	gene with protein product						11707071	Standard	NM_016255		Approved	AHCP	uc003ncc.3	Q9UBU6	OTTHUMG00000014309	ENST00000259963.3:c.1191T>C	6.37:g.17608519T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R725	Silent	SNP	ENST00000259963.3	37	CCDS4540.1																																																																																				0.383	FAM8A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039950.1			C	17608519	T	C	17608519	2	2	629	1	0	0	0	0	0	0	0	1	5656	1596	56	3		3	FAM8A1	6	17608519	Silent	SNP	T	TCGA-KL-8330-01A-11D-2310-10		17608519	153506548	28	38724										
HLA-C	3107	mdanderson.org	37	chr6	31238970	31238970	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	cgcctccaacttgcgctgggTgatctgagccgcggtgtccg	14	14	1	2	rs281860499|rs142570222	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr6:31238970T>A	ENST00000376228.5	-	3	513	c.499A>T	c.(499-501)Acc>Tcc	p.T167S	HLA-C_ENST00000383329.3_Missense_Mutation_p.T167S	NM_002117.5	NP_002108.4	Q95604	1C17_HUMAN	major histocompatibility complex, class I, C	167	Alpha-2.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(4)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)	17						TTGCGCTGGGTGATCTGAGCC	0.672													t|||	168	0.0335463	0.0809	0.0202	5008	,	,		10400	0.0188		0.0199	False		,,,				2504	0.0082															0													29	20	23					6																	31238970		2137	4174	6311	SO:0001583	missense	3107			M11886	CCDS34393.1	6p21.3	2014-01-30			ENSG00000204525	ENSG00000204525		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4933	protein-coding gene	gene with protein product		142840	"psoriasis susceptibility 1"	HLA-JY3, D6S204, PSORS1		3863816, 16642438	Standard	NM_001243042		Approved		uc003nsy.3	P04222	OTTHUMG00000031154	ENST00000376228.5:c.499A>T	6.37:g.31238970T>A	ENSP00000365402:p.Thr167Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O02864|O02958|Q29643|Q9MY30	Missense_Mutation	SNP	ENST00000376228.5	37	CCDS34393.1	170|170	0.07783882783882784|0.07783882783882784	55|55	0.11178861788617886|0.11178861788617886	13|13	0.03591160220994475|0.03591160220994475	58|58	0.10139860139860139|0.10139860139860139	44|44	0.05804749340369393|0.05804749340369393	.|.	11.47|11.47	1.647923|1.647923	0.29336|0.29336	.|.	.|.	ENSG00000204525|ENSG00000204525	ENST00000415537|ENST00000376228;ENST00000383329;ENST00000396254;ENST00000539307	.|T;T	.|0.00940	.|5.52;5.52	2.81|2.81	2.81|2.81	0.32909|0.32909	.|MHC class I, alpha chain, alpha1/alpha2 (1);MHC classes I/II-like antigen recognition protein (1);MHC class I-like antigen recognition (1);	.|0.377560	.|0.18473	.|U	.|0.140159	T|T	0.00552|0.00552	0.0018|0.0018	L|L	0.55834|0.55834	1.745|1.745	0.09310|0.09310	N|N	1|1	.|B;B;B;B	.|0.18166	.|0.005;0.005;0.003;0.026	.|B;B;B;B	.|0.22753	.|0.03;0.021;0.021;0.041	T|T	0.45220|0.45220	-0.9276|-0.9276	5|10	.|0.87932	.|D	.|0	.|.	9.364|9.364	0.38212|0.38212	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	rs1050367;rs1050668;rs2308587;rs3177938|rs1050367;rs1050668;rs2308587;rs3177938	.|167;167;167;167	.|A2AEA4;A6H578;A2AEA2;P10321	.|.;.;.;1C07_HUMAN	L|S	166|167;167;167;204	.|ENSP00000365402:T167S;ENSP00000372819:T167S	.|ENSP00000365402:T167S	H|T	-|-	2|1	0|0	HLA-C|HLA-C	31346949|31346949	0.745000|0.745000	0.28261|0.28261	0.005000|0.005000	0.12908|0.12908	0.011000|0.011000	0.07611|0.07611	1.002000|1.002000	0.29796|0.29796	1.536000|1.536000	0.49237|0.49237	0.254000|0.254000	0.18369|0.18369	CAC|ACC		0.672	HLA-C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076281.3	NM_002117		A	31238970	T	A	31238970	3	1	629	1	0	0	0	0	1	0	0	0	7204	1696	59	5	625	5	HLA-C	6	31238970	Missense_Mutation	SNP	T	TCGA-KL-8330-01A-11D-2310-10	13630451	31238970	139876097	29	38725										
DST	667	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	56417258	56417258	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gctaacatcatcttgcaggtTttattggcattgtcattgct	8	8	3	0			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr6:56417258T>A	ENST00000361203.3	-	57	15706	c.15699A>T	c.(15697-15699)aaA>aaT	p.K5233N	DST_ENST00000370754.5_Missense_Mutation_p.K5413N|DST_ENST00000312431.6_3'UTR|DST_ENST00000244364.6_Missense_Mutation_p.K2821N|DST_ENST00000421834.2_Missense_Mutation_p.K3147N|DST_ENST00000370769.4_Missense_Mutation_p.K5235N|DST_ENST00000446842.2_Missense_Mutation_p.K4909N|DST_ENST00000370788.2_Missense_Mutation_p.K3147N			Q03001	DYST_HUMAN	dystonin	5233					axonogenesis (GO:0007409)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cell motility (GO:0048870)|cytoplasmic microtubule organization (GO:0031122)|cytoskeleton organization (GO:0007010)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)|integrin-mediated signaling pathway (GO:0007229)|intermediate filament cytoskeleton organization (GO:0045104)|maintenance of cell polarity (GO:0030011)|microtubule cytoskeleton organization (GO:0000226)|regulation of microtubule polymerization or depolymerization (GO:0031110)|response to wounding (GO:0009611)|retrograde axon cargo transport (GO:0008090)	actin cytoskeleton (GO:0015629)|axon (GO:0030424)|basal plasma membrane (GO:0009925)|basement membrane (GO:0005604)|cell leading edge (GO:0031252)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|integral component of membrane (GO:0016021)|intermediate filament (GO:0005882)|intermediate filament cytoskeleton (GO:0045111)|microtubule cytoskeleton (GO:0015630)|microtubule plus-end (GO:0035371)|neurofilament cytoskeleton (GO:0060053)|nucleus (GO:0005634)|Z disc (GO:0030018)	calcium ion binding (GO:0005509)|integrin binding (GO:0005178)|microtubule plus-end binding (GO:0051010)|protein C-terminus binding (GO:0008022)|protein homodimerization activity (GO:0042803)			NS(1)|breast(5)|central_nervous_system(8)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(22)|lung(43)|ovary(7)|prostate(1)|skin(4)|upper_aerodigestive_tract(3)	105	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TCTTGCAGGTTTTATTGGCAT	0.418																																																0													70	67	68					6																	56417258		1903	4119	6022	SO:0001583	missense	667			M22942, M69225	CCDS4959.1, CCDS47443.1, CCDS75474.1	6p12.1	2013-01-10	2004-06-25	2004-07-01	ENSG00000151914	ENSG00000151914		"EF-hand domain containing"	1090	protein-coding gene	gene with protein product		113810	"bullous pemphigoid antigen 1, 230/240kDa"	BPAG1		2461961, 2276744	Standard	NM_001144770		Approved	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2	uc021zba.2	Q03001	OTTHUMG00000014913	ENST00000361203.3:c.15699A>T	6.37:g.56417258T>A	ENSP00000354508:p.Lys5233Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3H1|O94833|Q12825|Q13266|Q13267|Q13775|Q5TBT0|Q5TBT2|Q5TF23|Q5TF24|Q8N1T8|Q8N8J3|Q8WXK8|Q8WXK9|Q96AK9|Q96DQ5|Q96J76|Q96QT5|Q9H555|Q9UGD7|Q9UGD8|Q9UN10	Missense_Mutation	SNP	ENST00000361203.3	37		.	.	.	.	.	.	.	.	.	.	T	13.73	2.322902	0.41096	.	.	ENSG00000151914	ENST00000244364;ENST00000370754;ENST00000370769;ENST00000421834;ENST00000446842;ENST00000370788;ENST00000361203	T;T;T;T;T;T;T	0.36157	1.27;1.27;1.27;1.27;1.27;1.27;1.27	6.17	2.29	0.28610	.	0.207502	0.33290	N	0.005076	T	0.36054	0.0953	M	0.65975	2.015	0.28083	N	0.932106	D;P;D;B;B	0.89917	1.0;0.749;0.965;0.181;0.352	D;P;P;B;B	0.83275	0.996;0.515;0.854;0.036;0.138	T	0.26849	-1.0091	9	0.16896	T	0.51	.	9.5559	0.39339	0.0:0.3696:0.0:0.6304	.	3147;5235;5413;5233;2821	Q5TBT1;E7ERU2;E9PEB9;Q03001;Q03001-8	.;.;.;DYST_HUMAN;.	N	2821;5413;5235;3147;4909;3147;5233	ENSP00000244364:K2821N;ENSP00000359790:K5413N;ENSP00000359805:K5235N;ENSP00000400883:K3147N;ENSP00000393645:K4909N;ENSP00000359824:K3147N;ENSP00000354508:K5233N	ENSP00000244364:K2821N	K	-	3	2	DST	56525217	1.000000	0.71417	0.999000	0.59377	0.994000	0.84299	0.907000	0.28531	0.144000	0.18951	-0.290000	0.09829	AAA		0.418	DST-004	NOVEL	not_organism_supported|basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000041021.3	NM_001723		A	56417258	T	A	56417258	3	1	629	1	0	0	0	0	1	0	0	0	4785	1838	64	5	7224	5	DST	6	56417258	Missense_Mutation	SNP	T	TCGA-KL-8330-01A-11D-2310-10	25178288	56417258	114697809	30	38726										
SYNJ2	8871	mdanderson.org	37	chr6	158507981	158507981	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	tctctgtcggtccccaaccgGcctcggccacctcaaccccc	7	22	2	0	rs2296506	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr6:158507981G>A	ENST00000355585.4	+	23	3378	c.3303G>A	c.(3301-3303)cgG>cgA	p.R1101R	SYNJ2_ENST00000367121.3_Silent_p.R1101R|SYNJ2_ENST00000367122.2_Intron|SYNJ2_ENST00000367112.1_Silent_p.R186R	NM_001178088.1|NM_003898.3	NP_001171559.1|NP_003889.1	O15056	SYNJ2_HUMAN	synaptojanin 2	1101	Pro-rich.				phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|membrane (GO:0016020)	nucleotide binding (GO:0000166)|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity (GO:0004439)|RNA binding (GO:0003723)			biliary_tract(1)|endometrium(9)|kidney(3)|large_intestine(11)|lung(14)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	46				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		TCCCCAACCGGCCTCGGCCAC	0.652													G|||	2644	0.527955	0.5719	0.3386	5008	,	,		14003	0.5913		0.5099	False		,,,				2504	0.5562															0								G	,	2440,1966	615.6+/-392.6	668,1104,431	40	43	42		2592,3303	4.8	1	6	dbSNP_100	42	4371,4229	576.2+/-390.3	1097,2177,1026	no	coding-synonymous,coding-synonymous	SYNJ2	NM_001178088.1,NM_003898.3	,	1765,3281,1457	AA,AG,GG		49.1744,44.621,47.6319	,	864/1260,1101/1497	158507981	6811,6195	2203	4300	6503	SO:0001819	synonymous_variant	8871			AB002346	CCDS5254.1	6q25.3	2008-05-15			ENSG00000078269	ENSG00000078269			11504	protein-coding gene	gene with protein product		609410					Standard	NM_003898		Approved	INPP5H	uc003qqx.2	O15056	OTTHUMG00000015904	ENST00000355585.4:c.3303G>A	6.37:g.158507981G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TA13|Q5TA16|Q5TA19|Q86XK0|Q8IZA8|Q9H226	Silent	SNP	ENST00000355585.4	37	CCDS5254.1																																																																																				0.652	SYNJ2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042858.2			A	158507981	G	A	158507981	2	1	629	1	0	0	0	0	0	0	0	1	15465	1190	42	2		2	SYNJ2	6	158507981	Silent	SNP	G	TCGA-KL-8330-01A-11D-2310-10	102090723	158507981	12607086	31	38727										
DOCK4	9732	broad.mit.edu;ucsc.edu	37	chr7	111368593	111368593	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gctcggcacgggcaccggcaCtggcaccggcaggggggccg	19	15	0	0			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr7:111368593C>G	ENST00000437633.1	-	52	5894	c.5638G>C	c.(5638-5640)Gtg>Ctg	p.V1880L	DOCK4_ENST00000494651.2_Missense_Mutation_p.V763L|DOCK4_ENST00000428084.1_Missense_Mutation_p.V1889L	NM_014705.3	NP_055520.3	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1880	Pro-rich.				cell chemotaxis (GO:0060326)|positive regulation of Rac GTPase activity (GO:0032855)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)|stereocilium (GO:0032420)|stereocilium bundle (GO:0032421)	guanyl-nucleotide exchange factor activity (GO:0005085)|PDZ domain binding (GO:0030165)|Rac GTPase activator activity (GO:0030675)|Rac GTPase binding (GO:0048365)|receptor tyrosine kinase binding (GO:0030971)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(13)|lung(31)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(4)	72		Acute lymphoblastic leukemia(1;0.0441)				GGCACCGGCACTGGCACCGGC	0.647																																																0													34	42	39					7																	111368593		2073	4198	6271	SO:0001583	missense	9732				CCDS47688.1	7q31.1	2007-08-07			ENSG00000128512	ENSG00000128512			19192	protein-coding gene	gene with protein product		607679				12432077, 12628187	Standard	XM_006716188		Approved	FLJ34238, KIAA0716	uc003vfx.3	Q8N1I0	OTTHUMG00000155077	ENST00000437633.1:c.5638G>C	7.37:g.111368593C>G	ENSP00000404179:p.Val1880Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O14584|O94824|Q8NB45	Missense_Mutation	SNP	ENST00000437633.1	37	CCDS47688.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	0.032|0.032	-1.328806|-1.328806	0.01298|0.01298	.|.	.|.	ENSG00000128512|ENSG00000128512	ENST00000423057;ENST00000445943|ENST00000352877;ENST00000428084;ENST00000494651;ENST00000437633;ENST00000342288	.|T;T;T	.|0.05513	.|4.16;3.43;4.16	4.59|4.59	1.55|1.55	0.23275|0.23275	.|.	.|0.478701	.|0.18768	.|U	.|0.131682	T|T	0.01523|0.01523	0.0049|0.0049	N|N	0.00538|0.00538	-1.39|-1.39	0.09310|0.09310	N|N	1|1	.|B;B;B;B;B;B	.|0.02656	.|0.0;0.0;0.0;0.0;0.0;0.0	.|B;B;B;B;B;B	.|0.01281	.|0.0;0.0;0.0;0.0;0.0;0.0	T|T	0.47649|0.47649	-0.9101|-0.9101	5|10	.|0.10902	.|T	.|0.67	.|.	6.9688|6.9688	0.24637|0.24637	0.0:0.4797:0.4192:0.101|0.0:0.4797:0.4192:0.101	.|.	.|749;763;1925;1880;1851;193	.|B7Z2K9;F5GXW1;Q149N5;Q8N1I0;Q8N1I0-2;Q8N1I0-4	.|.;.;.;DOCK4_HUMAN;.;.	H|L	1302;1912|1868;1889;763;1880;1839	.|ENSP00000410746:V1889L;ENSP00000440944:V763L;ENSP00000404179:V1880L	.|ENSP00000345432:V1839L	Q|V	-|-	3|1	2|0	DOCK4|DOCK4	111155829|111155829	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.001000|0.001000	0.01503|0.01503	0.421000|0.421000	0.21280|0.21280	0.054000|0.054000	0.16065|0.16065	0.561000|0.561000	0.74099|0.74099	CAG|GTG		0.647	DOCK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338369.4	NM_014705		G	111368593	C	G	111368593	3	3	629	1	0	0	0	0	1	0	0	0	4691	565	20	4	266	4	DOCK4	7	111368593	Missense_Mutation	SNP	C	TCGA-KL-8330-01A-11D-2310-10		111368593	47770070	32	38728										
BHLHE22	27319	mdanderson.org	37	chr8	65493429	65493429	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	agagcctgagcgcctccaccTccaagcgcttggaagcggct	12	15	0	2	rs7016250	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr8:65493429T>G	ENST00000321870.1	+	1	616	c.82T>G	c.(82-84)Tcc>Gcc	p.S28A	RP11-21C4.1_ENST00000517909.1_RNA	NM_152414.4	NP_689627.1	Q8NFJ8	BHE22_HUMAN	basic helix-loop-helix family, member e22	28			S -> A (in dbSNP:rs7016250).		anterior commissure morphogenesis (GO:0021960)|cerebral cortex regionalization (GO:0021796)|corpus callosum morphogenesis (GO:0021540)|corticospinal tract morphogenesis (GO:0021957)|negative regulation of transcription, DNA-templated (GO:0045892)|retinal bipolar neuron differentiation (GO:0060040)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)			NS(1)|central_nervous_system(1)|lung(1)|prostate(1)|skin(1)	5						CGCCTCCACCTCCAAGCGCTT	0.741													G|||	2648	0.528754	0.77	0.4452	5008	,	,		7262	0.5546		0.326	False		,,,				2504	0.4438				Colon(113;104 1586 2865 9855 18065)											0								G	ALA/SER	2630,1430		896,838,296	8	8	8		82	2.5	1	8	dbSNP_116	8	2053,6051		317,1419,2316	yes	missense	BHLHE22	NM_152414.4	99	1213,2257,2612	GG,GT,TT		25.3332,35.2217,38.4988	benign	28/382	65493429	4683,7481	2030	4052	6082	SO:0001583	missense	27319			U80755	CCDS6179.1	8q12.1	2009-01-12	2009-01-12	2009-01-12		ENSG00000180828		"Basic helix-loop-helix proteins"	11963	protein-coding gene	gene with protein product		613483	"trinucleotide repeat containing 20", "basic helix-loop-helix domain containing, class B, 5"	TNRC20, BHLHB5		9225980, 12213201, 18557763	Standard	NM_152414		Approved	CAGL85, Beta3, bHLHe22	uc003xvi.3	Q8NFJ8		ENST00000321870.1:c.82T>G	8.37:g.65493429T>G	ENSP00000318799:p.Ser28Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000321870.1	37	CCDS6179.1	1097	0.5022893772893773	369	0.75	153	0.42265193370165743	335	0.5856643356643356	240	0.316622691292876	t	0.020	-1.436684	0.01108	0.647783	0.253332	ENSG00000180828	ENST00000321870	D	0.94537	-3.45	3.39	2.5	0.30297	.	0.179067	0.36374	N	0.002635	T	0.00012	0.0000	N	0.04880	-0.145	0.49051	P	2.590000000000092E-4	B	0.02656	0.0	B	0.01281	0.0	T	0.42649	-0.9439	9	0.02654	T	1	-14.5881	7.3158	0.26499	0.0929:0.0:0.7396:0.1674	rs7016250	28	Q8NFJ8	BHE22_HUMAN	A	28	ENSP00000318799:S28A	ENSP00000318799:S28A	S	+	1	0	BHLHE22	65655983	1.000000	0.71417	0.993000	0.49108	0.580000	0.36256	3.146000	0.50631	0.272000	0.22027	-0.399000	0.06403	TCC		0.741	BHLHE22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378549.1	NM_152414		G	65493429	T	G	65493429	3	3	629	1	0	0	0	0	1	0	0	0	1421	1551	54	5	84	5	BHLHE22	8	65493429	Missense_Mutation	SNP	T	TCGA-KL-8330-01A-11D-2310-10		65493429	80870593	33	38729										
CHMP4C	92421	broad.mit.edu	37	chr8	82644910	82644911	+	Frame_Shift_Ins	INS	-	-	G													0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gggcggctcttctaagagccINSgagccgctcccagtccccag							TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr8:82644910_82644911insG	ENST00000297265.4	+	1	242_243	c.49_50insG	c.(49-51)cgafs	p.R17fs		NM_152284.3	NP_689497.1	Q96CF2	CHM4C_HUMAN	charged multivesicular body protein 4C	17	Intramolecular interaction with C- terminus. {ECO:0000250}.				abscission (GO:0009838)|cytokinesis checkpoint (GO:0031565)|endosomal transport (GO:0016197)|membrane organization (GO:0061024)|negative regulation of cytokinesis (GO:0032466)|positive regulation of viral release from host cell (GO:1902188)|protein transport (GO:0015031)|regulation of viral process (GO:0050792)|viral life cycle (GO:0019058)|viral process (GO:0016032)	cytosol (GO:0005829)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|Flemming body (GO:0090543)|membrane (GO:0016020)|midbody (GO:0030496)	protein homodimerization activity (GO:0042803)			NS(1)|breast(2)|endometrium(2)|large_intestine(1)|lung(1)|ovary(2)|skin(1)	10						TTCTAAGAGCCGAGCCGCTCCC	0.599																																																0																																										SO:0001589	frameshift_variant	92421			AK000049	CCDS6233.1	8q21.13	2011-09-21	2011-09-21		ENSG00000164695	ENSG00000164695		"Charged multivesicular body proteins"	30599	protein-coding gene	gene with protein product	"Snf7 homologue associated with Alix 3"	610899	"chromatin modifying protein 4C"			12860994 , 14678797	Standard	NM_152284		Approved	MGC22825, Shax3, VPS32C	uc003ycl.3	Q96CF2	OTTHUMG00000164726	ENST00000297265.4:c.50dupG	8.37:g.82644911_82644911dupG	ENSP00000297265:p.Arg17fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBZ1	Frame_Shift_Ins	INS	ENST00000297265.4	37	CCDS6233.1																																																																																				0.599	CHMP4C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379927.1	NM_152284		G	82644911	-	G	82644910	7	5	629	1	0	1	1	0	0	0	0	0	3360	644	23	0	51	0	CHMP4C	8	82644910	Frame_Shift_Ins	INS	-	TCGA-KL-8330-01A-11D-2310-10	17151481	82644910	63719112	34	38730										
CSMD3	114788	mdanderson.org	37	chr8	113237129	113237129	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	ttgttattttcatgaactgaAcatcctgtatactgtgtttt	6	6	1	2			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr8:113237129A>G	ENST00000297405.5	-	71	11239	c.10995T>C	c.(10993-10995)tgT>tgC	p.C3665C	CSMD3_ENST00000455883.2_Silent_p.C3496C|CSMD3_ENST00000343508.3_Silent_p.C3625C|CSMD3_ENST00000352409.3_Silent_p.C3595C	NM_198123.1	NP_937756.1	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3	3665						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(7)|central_nervous_system(6)|endometrium(44)|haematopoietic_and_lymphoid_tissue(8)|kidney(36)|large_intestine(72)|liver(5)|lung(389)|ovary(24)|prostate(6)|skin(23)|upper_aerodigestive_tract(19)|urinary_tract(7)	646						CATGAACTGAACATCCTGTAT	0.413										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)																																						0													335	304	314					8																	113237129		2203	4300	6503	SO:0001819	synonymous_variant	114788			AY210419	CCDS6315.1, CCDS6316.2, CCDS6317.1	8q23.3	2007-01-06			ENSG00000164796	ENSG00000164796			19291	protein-coding gene	gene with protein product		608399					Standard	NM_052900		Approved		uc003ynu.3	Q7Z407	OTTHUMG00000157027	ENST00000297405.5:c.10995T>C	8.37:g.113237129A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q96PZ3	Silent	SNP	ENST00000297405.5	37	CCDS6315.1																																																																																				0.413	CSMD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347141.1	NM_052900		G	113237129	A	G	113237129	2	3	629	1	0	0	0	0	0	0	0	1	3948	41	2	3		3	CSMD3	8	113237129	Silent	SNP	A	TCGA-KL-8330-01A-11D-2310-10	30592219	113237129	33126893	35	38731										
ZNF696	79943	mdanderson.org	37	chr8	144378277	144378277	+	Silent	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	tcggacgcggcaaagcaccgGagcatccactcgggggagaa	15	12	0	1	rs61729412	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr8:144378277G>C	ENST00000330143.3	+	3	841	c.432G>C	c.(430-432)cgG>cgC	p.R144R		NM_030895.2	NP_112157.2	Q9H7X3	ZN696_HUMAN	zinc finger protein 696	144					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			lung(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	8	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)			CAAAGCACCGGAGCATCCACT	0.716													G|||	111	0.0221645	0.0794	0.0072	5008	,	,		13683	0.0		0.001	False		,,,				2504	0.0															0								G		247,4149		8,231,1959	22	16	18		432	1.4	0.1	8	dbSNP_129	18	4,8586		0,4,4291	no	coding-synonymous	ZNF696	NM_030895.2		8,235,6250	CC,CG,GG		0.0466,5.6187,1.9329		144/375	144378277	251,12735	2198	4295	6493	SO:0001819	synonymous_variant	79943			AK024191	CCDS6399.1	8q24.3	2013-01-08				ENSG00000185730		"Zinc fingers, C2H2-type"	25872	protein-coding gene	gene with protein product							Standard	NM_030895		Approved	FLJ14129	uc003yxy.4	Q9H7X3		ENST00000330143.3:c.432G>C	8.37:g.144378277G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A0AVE2	Silent	SNP	ENST00000330143.3	37	CCDS6399.1																																																																																				0.716	ZNF696-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381164.2	NM_030895		C	144378277	G	C	144378277	2	2	629	1	0	0	0	0	0	0	0	1	18111	1161	41	4		4	ZNF696	8	144378277	Silent	SNP	G	TCGA-KL-8330-01A-11D-2310-10	31141148	144378277	1985745	36	38732										
NFKBIL2	4796	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr8	145661996	145661996	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	atggccctggccttctgccgCgtctccaggtccaggtccct	11	17	2	0			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr8:145661996C>T	ENST00000409379.3	-	16	1988	c.1959G>A	c.(1957-1959)acG>acA	p.T653T	AC084125.4_ENST00000544423.1_RNA|AC084125.4_ENST00000442850.1_RNA	NM_013432.4	NP_038460.4	Q96HA7	TONSL_HUMAN	tonsoku-like, DNA repair protein	653					cytoplasmic sequestering of transcription factor (GO:0042994)|double-strand break repair via homologous recombination (GO:0000724)|regulation of RNA biosynthetic process (GO:2001141)|replication fork processing (GO:0031297)	cytoplasm (GO:0005737)|nuclear replication fork (GO:0043596)|nucleus (GO:0005634)	histone binding (GO:0042393)|transcription corepressor activity (GO:0003714)			biliary_tract(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|lung(14)|ovary(3)|prostate(1)|skin(1)	26						CCTTCTGCCGCGTCTCCAGGT	0.672																																																0													46	48	47					8																	145661996		2203	4300	6503	SO:0001819	synonymous_variant	4796				CCDS34968.2	8q24.3	2013-01-10	2010-12-02	2010-11-30	ENSG00000160949	ENSG00000160949		"Ankyrin repeat domain containing"	7801	protein-coding gene	gene with protein product		604546	"nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor-like 2"	NFKBIL2		7738005, 11246458	Standard	NM_013432		Approved	IKBR	uc011llg.2	Q96HA7	OTTHUMG00000153122	ENST00000409379.3:c.1959G>A	8.37:g.145661996C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B5MDP0|C9JKB1|C9JNV8|Q13006|Q9UGJ2	Silent	SNP	ENST00000409379.3	37	CCDS34968.2																																																																																				0.672	TONSL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329668.2	NM_013432		T	145661996	C	T	145661996	2	4	629	1	0	0	0	0	0	0	0	1	10389	755	27	1		1	NFKBIL2	8	145661996	Silent	SNP	C	TCGA-KL-8330-01A-11D-2310-10	1283719	145661996	702026	37	38733										
ZCCHC6	79670	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	88937294	88937294	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	taaaaacttgggtgttaatgGtggcagaggttctagctgga	14	4	1	1			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr9:88937294G>A	ENST00000375963.3	-	14	3146	c.2974C>T	c.(2974-2976)Cca>Tca	p.P992S	ZCCHC6_ENST00000469004.1_5'Flank|ZCCHC6_ENST00000375957.1_5'Flank|ZCCHC6_ENST00000375960.2_Intron|ZCCHC6_ENST00000277141.6_Missense_Mutation_p.P281S|ZCCHC6_ENST00000375961.2_Missense_Mutation_p.P992S	NM_001185059.1|NM_024617.3	NP_001171988.1|NP_078893.2	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	992					RNA 3'-end processing (GO:0031123)		poly(A) RNA binding (GO:0044822)|RNA uridylyltransferase activity (GO:0050265)|zinc ion binding (GO:0008270)			breast(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(10)|liver(1)|lung(14)|ovary(2)|prostate(1)|skin(2)|urinary_tract(1)	46						GGTGTTAATGGTGGCAGAGGT	0.373																																																0													121	122	121					9																	88937294		2203	4300	6503	SO:0001583	missense	79670			AL832026	CCDS35057.1, CCDS55323.1	9q21	2014-03-05			ENSG00000083223	ENSG00000083223		"Zinc fingers, CCHC domain containing"	25817	protein-coding gene	gene with protein product	"TUTase7"					11214970	Standard	NM_001185059		Approved	KIAA1711, FLJ13409, PAPD6, TUT7	uc004aoq.3	Q5VYS8	OTTHUMG00000020137	ENST00000375963.3:c.2974C>T	9.37:g.88937294G>A	ENSP00000365130:p.Pro992Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5H9T0|Q5VYS5|Q5VYS7|Q658Z9|Q659A2|Q6MZJ3|Q8N5F0|Q96N57|Q96NE8|Q9C0F2|Q9H8M6	Missense_Mutation	SNP	ENST00000375963.3	37	CCDS35057.1	.	.	.	.	.	.	.	.	.	.	G	17.11	3.305275	0.60305	.	.	ENSG00000083223	ENST00000277141;ENST00000375961;ENST00000375963	T;T;T	0.58210	0.35;0.75;0.81	5.48	5.48	0.80851	.	0.109012	0.64402	D	0.000007	T	0.51958	0.1705	L	0.52126	1.63	0.52099	D	0.999946	P	0.45672	0.864	B	0.41332	0.354	T	0.53078	-0.8489	10	0.44086	T	0.13	-48.2633	19.5559	0.95347	0.0:0.0:1.0:0.0	.	992	Q5VYS8	TUT7_HUMAN	S	281;992;992	ENSP00000277141:P281S;ENSP00000365128:P992S;ENSP00000365130:P992S	ENSP00000277141:P281S	P	-	1	0	ZCCHC6	88127114	1.000000	0.71417	0.995000	0.50966	0.827000	0.46813	4.036000	0.57304	2.861000	0.98227	0.650000	0.86243	CCA		0.373	ZCCHC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052918.1	NM_024617		A	88937294	G	A	88937294	3	1	629	1	0	0	0	0	1	0	0	0	17604	1261	44	2	1569	2	ZCCHC6	9	88937294	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10		88937294	52276137	38	38734										
OR13C2	392376	mdanderson.org	37	chr9	107367674	107367674	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gaagctcactagcgtggaggGaatagaggtggtggtgtagc	18	5	1	1	rs41312234	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr9:107367674G>A	ENST00000542196.1	-	1	277	c.235C>T	c.(235-237)Ccc>Tcc	p.P79S		NM_001004481.1	NP_001004481.1	Q8NGS9	O13C2_HUMAN	olfactory receptor, family 13, subfamily C, member 2	79						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			cervix(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(10)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	22						AGCGTGGAGGGAATAGAGGTG	0.502																																																0													23	25	25					9																	107367674		2197	4290	6487	SO:0001583	missense	392376				CCDS35092.1	9q31.1	2012-10-03			ENSG00000257019	ENSG00000276119		"GPCR / Class A : Olfactory receptors"	14701	protein-coding gene	gene with protein product							Standard	NM_001004481		Approved		uc011lvq.2	Q8NGS9	OTTHUMG00000020415	ENST00000542196.1:c.235C>T	9.37:g.107367674G>A	ENSP00000438815:p.Pro79Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGV8|Q6IF54	Missense_Mutation	SNP	ENST00000542196.1	37	CCDS35092.1	.	.	.	.	.	.	.	.	.	.	G	8.276	0.814512	0.16607	.	.	ENSG00000257019	ENST00000542196	T	0.01854	4.6	3.39	2.49	0.30216	GPCR, rhodopsin-like superfamily (1);	0.000000	0.36740	U	0.002425	T	0.08088	0.0202	H	0.96365	3.81	0.26847	N	0.968253	B	0.33739	0.422	B	0.36134	0.218	T	0.05273	-1.0895	10	0.72032	D	0.01	.	8.5547	0.33474	0.1183:0.0:0.8817:0.0	rs41312234	79	Q8NGS9	O13C2_HUMAN	S	79	ENSP00000438815:P79S	ENSP00000438815:P79S	P	-	1	0	OR13C2	106407495	1.000000	0.71417	0.002000	0.10522	0.171000	0.22731	3.742000	0.55097	0.635000	0.30488	-0.369000	0.07265	CCC		0.502	OR13C2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053489.2	NM_001004481		A	107367674	G	A	107367674	3	1	629	1	0	0	0	0	1	0	0	0	10941	1174	41	2	724	2	OR13C2	9	107367674	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10	18430380	107367674	33845757	39	38735										
CDHR5	53841	broad.mit.edu	37	chr11	618824	618824	+	Frame_Shift_Del	DEL	A	A	-													0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	actggggggcatcggctgagAggttcctggctctggggtct							TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr11:618824delA	ENST00000358353.3	-	14	2057	c.1735delT	c.(1735-1737)tctfs	p.S579fs	IRF7_ENST00000330243.5_5'Flank|CDHR5_ENST00000349570.7_Intron|IRF7_ENST00000397562.3_5'Flank|IRF7_ENST00000397570.1_5'Flank|IRF7_ENST00000397574.2_5'Flank|CDHR5_ENST00000397542.2_Frame_Shift_Del_p.S579fs			Q9HBB8	CDHR5_HUMAN	cadherin-related family member 5	579	4 X 31 AA approximate tandem repeats.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	beta-catenin binding (GO:0008013)|calcium ion binding (GO:0005509)			NS(1)|breast(1)|endometrium(4)|kidney(1)|large_intestine(6)|lung(7)|ovary(1)|skin(2)	23						ATCGGCTGAGAGGTTCCTGGC	0.667																																																0													110	116	114					11																	618824		2203	4300	6503	SO:0001589	frameshift_variant	53841			AF258675	CCDS7707.1, CCDS7708.1	11p15.5	2011-07-01	2010-01-25	2010-01-25	ENSG00000099834	ENSG00000099834		"Cadherins / Cadherin-related"	7521	protein-coding gene	gene with protein product		606839	"mucin and cadherin-like", "mucin-like protocadherin"	MUCDHL, MUPCDH		11031102, 10801787	Standard	NM_021924		Approved	FLJ20219, MU-PCDH	uc001lqj.3	Q9HBB8	OTTHUMG00000132018	ENST00000358353.3:c.1735delT	11.37:g.618824delA	ENSP00000351118:p.Ser579fs	Somatic		WXS	Illumina HiSeq	Phase_I	C9J7X1|Q9H746|Q9HAU3|Q9HBB5|Q9HBB6|Q9HBB7|Q9NX86|Q9NXI9	Frame_Shift_Del	DEL	ENST00000358353.3	37	CCDS7707.1																																																																																				0.667	CDHR5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000255023.2	NM_021924		-	618824	A	-	618824	7	5	629	1	0	1	0	1	0	0	0	0	3124	304	11	0	814	0	CDHR5	11	618824	Frame_Shift_Del	DEL	A	TCGA-KL-8330-01A-11D-2310-10		618824	134387692	40	38736	316	2								
CDHR5	53841	broad.mit.edu	37	chr11	618827	618827	+	Frame_Shift_Del	DEL	T	T	-													0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	ggggggcatcggctgagaggTtcctggctctggggtctgtg							TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr11:618827delT	ENST00000358353.3	-	14	2054	c.1732delA	c.(1732-1734)accfs	p.T578fs	IRF7_ENST00000330243.5_5'Flank|CDHR5_ENST00000349570.7_Intron|IRF7_ENST00000397562.3_5'Flank|IRF7_ENST00000397570.1_5'Flank|IRF7_ENST00000397574.2_5'Flank|CDHR5_ENST00000397542.2_Frame_Shift_Del_p.T578fs			Q9HBB8	CDHR5_HUMAN	cadherin-related family member 5	578	4 X 31 AA approximate tandem repeats.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	beta-catenin binding (GO:0008013)|calcium ion binding (GO:0005509)			NS(1)|breast(1)|endometrium(4)|kidney(1)|large_intestine(6)|lung(7)|ovary(1)|skin(2)	23						GGCTGAGAGGTTCCTGGCTCT	0.667																																																0													110	117	115					11																	618827		2203	4300	6503	SO:0001589	frameshift_variant	53841			AF258675	CCDS7707.1, CCDS7708.1	11p15.5	2011-07-01	2010-01-25	2010-01-25	ENSG00000099834	ENSG00000099834		"Cadherins / Cadherin-related"	7521	protein-coding gene	gene with protein product		606839	"mucin and cadherin-like", "mucin-like protocadherin"	MUCDHL, MUPCDH		11031102, 10801787	Standard	NM_021924		Approved	FLJ20219, MU-PCDH	uc001lqj.3	Q9HBB8	OTTHUMG00000132018	ENST00000358353.3:c.1732delA	11.37:g.618827delT	ENSP00000351118:p.Thr578fs	Somatic		WXS	Illumina HiSeq	Phase_I	C9J7X1|Q9H746|Q9HAU3|Q9HBB5|Q9HBB6|Q9HBB7|Q9NX86|Q9NXI9	Frame_Shift_Del	DEL	ENST00000358353.3	37	CCDS7707.1																																																																																				0.667	CDHR5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000255023.2	NM_021924		-	618827	T	-	618827	7	5	629	1	0	1	0	1	0	0	0	0	3124	1725	60	0	817	0	CDHR5	11	618827	Frame_Shift_Del	DEL	T	TCGA-KL-8330-01A-11D-2310-10	3	618827	134387689	41	38737	316	2								
MUC6	4588	bcgsc.ca	37	chr11	1017280	1017280	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	caaggaggtggagaaagatgGaacgtgagtgggaagtgtgg	20	2	0	3	rs199539548		TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr11:1017280G>T	ENST00000421673.2	-	31	5571	c.5521C>A	c.(5521-5523)Cca>Aca	p.P1841T		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1841	Approximate repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GAGAAAGATGGAACGTGAGTG	0.537																																																0													652	616	628					11																	1017280		2199	4282	6481	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5521C>A	11.37:g.1017280G>T	ENSP00000406861:p.Pro1841Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	7.317	0.616153	0.14129	.	.	ENSG00000184956	ENST00000421673	T	0.57595	0.39	3.21	-3.93	0.04143	.	.	.	.	.	T	0.56963	0.2021	M	0.68317	2.08	0.09310	N	1	D	0.89917	1.0	D	0.91635	0.999	T	0.50092	-0.8868	9	0.16420	T	0.52	.	1.0186	0.01513	0.1779:0.254:0.3105:0.2576	.	1841	Q6W4X9	MUC6_HUMAN	T	1841	ENSP00000406861:P1841T	ENSP00000406861:P1841T	P	-	1	0	MUC6	1007280	0.000000	0.05858	0.000000	0.03702	0.005000	0.04900	-0.710000	0.05024	-1.011000	0.03391	0.313000	0.20887	CCA		0.537	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		T	1017280	G	T	1017280	3	4	629	1	0	0	0	0	1	0	0	0	9987	1174	41	4	1810	4	MUC6	11	1017280	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10	398453	1017280	133989236	42	38738										
MUC6	4588	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	1024889	1024889	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	tggctgttgatgacgctgcaCttgcgctcggcccaggagcg	15	12	0	2			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr11:1024889C>G	ENST00000421673.2	-	24	3230	c.3180G>C	c.(3178-3180)aaG>aaC	p.K1060N		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1060	VWFD 3. {ECO:0000255|PROSITE- ProRule:PRU00580}.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		TGACGCTGCACTTGCGCTCGG	0.657																																																0													30	36	34					11																	1024889		2089	4220	6309	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.3180G>C	11.37:g.1024889C>G	ENSP00000406861:p.Lys1060Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	C	14.71	2.617761	0.46736	.	.	ENSG00000184956	ENST00000421673	T	0.76578	-1.03	4.03	1.02	0.19986	von Willebrand factor, type D domain (1);Uncharacterised domain, cysteine-rich (2);	0.920448	0.08636	U	0.916343	T	0.78773	0.4336	L	0.39397	1.21	0.29948	N	0.820519	D	0.57257	0.979	P	0.60236	0.871	T	0.68682	-0.5344	10	0.66056	D	0.02	.	5.5361	0.17011	0.0:0.5723:0.1467:0.281	.	1060	Q6W4X9	MUC6_HUMAN	N	1060	ENSP00000406861:K1060N	ENSP00000406861:K1060N	K	-	3	2	MUC6	1014889	0.931000	0.31567	0.991000	0.47740	0.966000	0.64601	0.648000	0.24828	0.112000	0.17975	0.561000	0.74099	AAG		0.657	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		G	1024889	C	G	1024889	3	3	629	1	0	0	0	0	1	0	0	0	9987	564	20	4	4179	4	MUC6	11	1024889	Missense_Mutation	SNP	C	TCGA-KL-8330-01A-11D-2310-10	7609	1024889	133981627	43	38739										
MUC5B	727897	mdanderson.org	37	chr11	1270382	1270382	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gaccaccccgggccacaccaCggccacctccaggaccacgg	10	21	0	0	rs199736618	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr11:1270382C>G	ENST00000529681.1	+	31	12330	c.12272C>G	c.(12271-12273)aCg>aGg	p.T4091R	MUC5B_ENST00000447027.1_Missense_Mutation_p.T4094R|RP11-532E4.2_ENST00000532061.2_RNA	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	4091	7 X Cys-rich subdomain repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		GGCCACACCACGGCCACCTCC	0.701																																																0													96	131	120					11																	1270382		2100	4206	6306	SO:0001583	missense	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.12272C>G	11.37:g.1270382C>G	ENSP00000436812:p.Thr4091Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Missense_Mutation	SNP	ENST00000529681.1	37	CCDS44515.2	.	.	.	.	.	.	.	.	.	.	c	6.921	0.539550	0.13250	.	.	ENSG00000117983	ENST00000529681;ENST00000447027;ENST00000349637;ENST00000406844	T;T	0.22945	1.93;2.11	2.44	0.0226	0.14133	.	.	.	.	.	T	0.29061	0.0722	M	0.67953	2.075	0.19575	N	0.999965	P;P	0.47302	0.825;0.893	B;P	0.45681	0.257;0.49	T	0.18085	-1.0348	9	0.87932	D	0	.	6.5051	0.22190	0.0:0.6987:0.1834:0.118	.	4564;4094	A7Y9J9;E9PBJ0	.;.	R	4091;4094;4035;3941	ENSP00000436812:T4091R;ENSP00000415793:T4094R	ENSP00000343037:T4035R	T	+	2	0	MUC5B	1226958	0.000000	0.05858	0.001000	0.08648	0.141000	0.21300	-0.528000	0.06193	0.333000	0.23563	0.393000	0.25936	ACG		0.701	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		G	1270382	C	G	1270382	3	3	629	1	0	0	0	0	1	0	0	0	9986	536	19	4	12403	4	MUC5B	11	1270382	Missense_Mutation	SNP	C	TCGA-KL-8330-01A-11D-2310-10	245493	1270382	133736134	44	38740										
FUT4	2526	ucsc.edu;mdanderson.org	37	chr11	94278062	94278062	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	actggcccccgccctggggcAtccaggcgcacactgccgag	13	18	0	0	rs2230273	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr11:94278062A>G	ENST00000358752.2	+	1	1046	c.763A>G	c.(763-765)Atc>Gtc	p.I255V	RP11-867G2.8_ENST00000536540.1_RNA|RP11-867G2.8_ENST00000537874.1_RNA	NM_002033.3	NP_002024.1	P22083	FUT4_HUMAN	fucosyltransferase 4 (alpha (1,3) fucosyltransferase, myeloid-specific)	255			I -> V (in dbSNP:rs2230273).		carbohydrate metabolic process (GO:0005975)|fucosylation (GO:0036065)|L-fucose catabolic process (GO:0042355)|protein glycosylation (GO:0006486)	cell periphery (GO:0071944)|cell surface (GO:0009986)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	alpha-(1->3)-fucosyltransferase activity (GO:0046920)|fucosyltransferase activity (GO:0008417)			central_nervous_system(2)|endometrium(2)|lung(1)|skin(2)|upper_aerodigestive_tract(1)	8		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GCCCTGGGGCATCCAGGCGCA	0.726													G|||	517	0.103235	0.32	0.0317	5008	,	,		9733	0.0139		0.0139	False		,,,				2504	0.045															0								G	VAL/ILE	801,3091		86,629,1231	7	8	8		763	2	0	11	dbSNP_98	8	62,7852		1,60,3896	yes	missense	FUT4	NM_002033.3	29	87,689,5127	GG,GA,AA		0.7834,20.5807,7.3098	benign	255/531	94278062	863,10943	1946	3957	5903	SO:0001583	missense	2526				CCDS8301.1	11q21	2013-02-26			ENSG00000196371	ENSG00000196371		"CD molecules", "Fucosyltransferases"	4015	protein-coding gene	gene with protein product	"ELAM ligand fucosyltransferase", "galactoside 3-L-fucosyltransferase"	104230		CD15, FCT3A, ELFT		1702034	Standard	NM_002033		Approved	FUC-TIV	uc001pez.3	P22083	OTTHUMG00000167795	ENST00000358752.2:c.763A>G	11.37:g.94278062A>G	ENSP00000351602:p.Ile255Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMS0	Missense_Mutation	SNP	ENST00000358752.2	37	CCDS8301.1	173	0.07921245421245421	148	0.3008130081300813	12	0.03314917127071823	5	0.008741258741258742	8	0.010554089709762533	g	0.006	-2.069712	0.00382	0.205807	0.007834	ENSG00000196371	ENST00000358752	T	0.30182	1.54	4.0	2.01	0.26516	.	.	.	.	.	T	0.00012	0.0000	N	0.00436	-1.5	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.43475	-0.9389	8	0.02654	T	1	.	6.5473	0.22412	0.3539:0.0:0.6461:0.0	rs2230273;rs2230273	255	P22083	FUT4_HUMAN	V	255	ENSP00000351602:I255V	ENSP00000351602:I255V	I	+	1	0	FUT4	93917710	0.343000	0.24818	0.012000	0.15200	0.047000	0.14425	1.265000	0.33027	0.061000	0.16311	-0.374000	0.07098	ATC		0.726	FUT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396327.2	NM_002033		G	94278062	A	G	94278062	3	3	629	1	0	0	0	0	1	0	0	0	6113	217	8	3	765	3	FUT4	11	94278062	Missense_Mutation	SNP	A	TCGA-KL-8330-01A-11D-2310-10	93007680	94278062	40728454	45	38741										
MMP3	4314	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr11	102709283	102709283	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	catttctcttgcatctcaccTccagtatttgtcctctacaa	3	14	3	0			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr11:102709283T>G	ENST00000299855.5	-	8	1484	c.1228A>C	c.(1228-1230)Aga>Cga	p.R410R	WTAPP1_ENST00000525739.2_RNA	NM_002422.3	NP_002413.1	P08254	MMP3_HUMAN	matrix metallopeptidase 3 (stromelysin 1, progelatinase)	410					cellular response to amino acid stimulus (GO:0071230)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|negative regulation of hydrogen peroxide metabolic process (GO:0010727)|positive regulation of oxidative stress-induced cell death (GO:1903209)|proteolysis (GO:0006508)|regulation of cell migration (GO:0030334)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|endopeptidase activity (GO:0004175)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(3)|large_intestine(3)|liver(1)|lung(7)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	22		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.0142)	Marimastat(DB00786)	GCATCTCACCTCCAGTATTTG	0.423																																																0													156	153	154					11																	102709283		2203	4299	6502	SO:0001630	splice_region_variant	4314			X05232	CCDS8323.1	11q22.3	2012-10-02	2005-08-08		ENSG00000149968	ENSG00000149968	3.4.24.17		7173	protein-coding gene	gene with protein product		185250	"matrix metalloproteinase 3 (stromelysin 1, progelatinase)"	STMY1, STMY			Standard	NM_002422		Approved		uc001phj.1	P08254	OTTHUMG00000048254	ENST00000299855.5:c.1229+1A>C	11.37:g.102709283T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R8B8|Q3B7S0|Q6GRF8	Silent	SNP	ENST00000299855.5	37	CCDS8323.1																																																																																				0.423	MMP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109758.2	NM_002422	Silent	G	102709283	T	G	102709283	5	3	629	1	0	0	0	0	0	0	1	0	9673	1565	54	5	217	5	MMP3	11	102709283	Splice_Site	SNP	T	TCGA-KL-8330-01A-11D-2310-10	8431221	102709283	32297233	46	38742										
GLB1L2	89944	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	134214285	134214285	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	atcatttctgttgcagctatGttccgtggaacctgcatgag	10	9	2	1			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr11:134214285G>T	ENST00000535456.2	+	3	477	c.289G>T	c.(289-291)Gtt>Ttt	p.V97F	GLB1L2_ENST00000339772.7_Missense_Mutation_p.V97F|GLB1L2_ENST00000389881.3_Missense_Mutation_p.V97F	NM_138342.3	NP_612351.2	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2	97					carbohydrate metabolic process (GO:0005975)	extracellular region (GO:0005576)	beta-galactosidase activity (GO:0004565)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(6)|liver(1)|lung(20)|ovary(1)|pancreas(1)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	41	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)		TTGCAGCTATGTTCCGTGGAA	0.453																																																0													203	195	198					11																	134214285		2201	4297	6498	SO:0001583	missense	89944				CCDS31724.1	11q25	2008-01-29			ENSG00000149328	ENSG00000149328			25129	protein-coding gene	gene with protein product						12975309	Standard	NM_138342		Approved		uc001qhp.3	Q8IW92	OTTHUMG00000167179	ENST00000535456.2:c.289G>T	11.37:g.134214285G>T	ENSP00000444628:p.Val97Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A6NCE6|Q6UX60|Q8NC62|Q8NCB3|Q8NCJ1|Q96HP3	Missense_Mutation	SNP	ENST00000535456.2	37	CCDS31724.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	18.26|18.26	3.585501|3.585501	0.66105|0.66105	.|.	.|.	ENSG00000149328|ENSG00000149328	ENST00000525089|ENST00000339772;ENST00000535456;ENST00000389881	.|D;D;D	.|0.98996	.|-5.31;-5.31;-5.31	5.05|5.05	1.97|1.97	0.26223|0.26223	.|Glycoside hydrolase, subgroup, catalytic domain (1);Glycoside hydrolase, superfamily (1);	.|0.138414	.|0.48286	.|D	.|0.000194	D|D	0.99111|0.99111	0.9694|0.9694	M|M	0.85630|0.85630	2.765|2.765	0.50171|0.50171	D|D	0.999851|0.999851	.|D	.|0.76494	.|0.999	.|D	.|0.79784	.|0.993	D|D	0.99486|0.99486	1.0949|1.0949	5|10	.|0.87932	.|D	.|0	-11.9247|-11.9247	10.8771|10.8771	0.46917|0.46917	0.2379:0.0:0.7621:0.0|0.2379:0.0:0.7621:0.0	.|.	.|97	.|Q8IW92	.|GLBL2_HUMAN	F|F	35|97	.|ENSP00000344659:V97F;ENSP00000444628:V97F;ENSP00000374531:V97F	.|ENSP00000344659:V97F	C|V	+|+	2|1	0|0	GLB1L2|GLB1L2	133719495|133719495	1.000000|1.000000	0.71417|0.71417	0.878000|0.878000	0.34440|0.34440	0.879000|0.879000	0.50718|0.50718	5.692000|5.692000	0.68256|0.68256	0.716000|0.716000	0.32124|0.32124	0.563000|0.563000	0.77884|0.77884	TGT|GTT		0.453	GLB1L2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393629.2	NM_138342		T	134214285	G	T	134214285	3	4	629	1	0	0	0	0	1	0	0	0	6436	1377	48	4	299	4	GLB1L2	11	134214285	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10	31505002	134214285	792231	47	38743										
CD163	9332	mdanderson.org;bcgsc.ca	37	chr12	7649507	7649507	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	caggttcatgtccctggcaaGaaacgctgtcaagccagatg	11	11	2	2			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr12:7649507G>T	ENST00000359156.4	-	5	1203	c.1001C>A	c.(1000-1002)tCt>tAt	p.S334Y	CD163_ENST00000396620.3_Missense_Mutation_p.S334Y|CD163_ENST00000541972.1_Missense_Mutation_p.S322Y|CD163_ENST00000432237.2_Missense_Mutation_p.S334Y	NM_004244.5	NP_004235.4	Q86VB7	C163A_HUMAN	CD163 molecule	334	SRCR 3. {ECO:0000255|PROSITE- ProRule:PRU00196}.	Cleavage; in calcium-free condition.			acute-phase response (GO:0006953)|receptor-mediated endocytosis (GO:0006898)	endocytic vesicle membrane (GO:0030666)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	scavenger receptor activity (GO:0005044)			breast(1)|cervix(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(14)|lung(33)|ovary(6)|pancreas(2)|prostate(1)|skin(5)|urinary_tract(4)	76					WF10(DB05389)	TCCCTGGCAAGAAACGCTGTC	0.493																																																0													145	100	115					12																	7649507		2203	4300	6503	SO:0001583	missense	9332			Z22968	CCDS8578.1, CCDS53742.1	12p13	2006-03-28	2006-03-28		ENSG00000177575	ENSG00000177575		"CD molecules"	1631	protein-coding gene	gene with protein product		605545	"CD163 antigen"			10403791, 8370408	Standard	NM_004244		Approved	M130, MM130	uc001qsz.3	Q86VB7	OTTHUMG00000168353	ENST00000359156.4:c.1001C>A	12.37:g.7649507G>T	ENSP00000352071:p.Ser334Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	C9JIG2|Q07898|Q07899|Q07900|Q07901|Q2VLH7	Missense_Mutation	SNP	ENST00000359156.4	37	CCDS8578.1	.	.	.	.	.	.	.	.	.	.	G	7.150	0.583528	0.13749	.	.	ENSG00000177575	ENST00000359156;ENST00000541972;ENST00000396620;ENST00000432237	T;T;T;T	0.36878	1.23;1.23;1.23;1.23	5.03	3.05	0.35203	Speract/scavenger receptor (2);Speract/scavenger receptor-related (2);	0.810546	0.11502	N	0.557572	T	0.51261	0.1664	L	0.56124	1.755	0.09310	N	0.99999	D;P;D	0.71674	0.998;0.919;0.998	D;B;D	0.71184	0.972;0.42;0.972	T	0.28299	-1.0048	10	0.66056	D	0.02	.	8.374	0.32432	0.0:0.1458:0.5555:0.2987	.	334;334;334	C9JHR8;Q86VB7-3;Q86VB7	.;.;C163A_HUMAN	Y	334;322;334;334	ENSP00000352071:S334Y;ENSP00000444071:S322Y;ENSP00000379863:S334Y;ENSP00000403885:S334Y	ENSP00000352071:S334Y	S	-	2	0	CD163	7540774	0.000000	0.05858	0.454000	0.27019	0.714000	0.41099	-0.478000	0.06575	1.229000	0.43630	0.561000	0.74099	TCT		0.493	CD163-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000399396.2	NM_004244, NM_203416		T	7649507	G	T	7649507	3	4	629	1	0	0	0	0	1	0	0	0	2969	942	33	4	2517	4	CD163	12	7649507	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10		7649507	126202388	48	38744										
KCNJ8	3764	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	21918737	21918737	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gagggaagaattgttccttcGgatagaattgttcctcctca	10	8	1	2			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr12:21918737G>T	ENST00000240662.2	-	3	1540	c.1195C>A	c.(1195-1197)Cga>Aga	p.R399R	RP11-59N23.1_ENST00000542489.1_RNA	NM_004982.3	NP_004973.1	Q15842	KCNJ8_HUMAN	potassium inwardly-rectifying channel, subfamily J, member 8	399					defense response to virus (GO:0051607)|heart development (GO:0007507)|kidney development (GO:0001822)|potassium ion import (GO:0010107)|potassium ion transport (GO:0006813)|response to exogenous dsRNA (GO:0043330)|response to lipopolysaccharide (GO:0032496)|response to pH (GO:0009268)|synaptic transmission (GO:0007268)|vasodilation (GO:0042311)	ATP-sensitive potassium channel complex (GO:0008282)|mitochondrion (GO:0005739)|myofibril (GO:0030016)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|voltage-gated potassium channel complex (GO:0008076)	ATP binding (GO:0005524)|ATP-activated inward rectifier potassium channel activity (GO:0015272)|inward rectifier potassium channel activity (GO:0005242)	p.R399*(1)		cervix(1)|endometrium(1)|kidney(2)|large_intestine(6)|lung(10)|ovary(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)	28					Gliquidone(DB01251)|Glisoxepide(DB01289)|Glyburide(DB01016)|Levosimendan(DB00922)|Phenformin(DB00914)|Thiamylal(DB01154)|Yohimbine(DB01392)	TTGTTCCTTCGGATAGAATTG	0.418																																																1	Substitution - Nonsense(1)	large_intestine(1)											144	139	140					12																	21918737		2203	4300	6503	SO:0001819	synonymous_variant	3764			BC000544	CCDS8692.1	12p12.1	2011-07-05			ENSG00000121361	ENSG00000121361		"Potassium channels", "Voltage-gated ion channels / Potassium channels, Inwardly rectifying"	6269	protein-coding gene	gene with protein product		600935				8595887, 16382105	Standard	NM_004982		Approved	Kir6.1	uc001rff.4	Q15842	OTTHUMG00000169093	ENST00000240662.2:c.1195C>A	12.37:g.21918737G>T		Somatic		WXS	Illumina HiSeq	Phase_I	O00657	Silent	SNP	ENST00000240662.2	37	CCDS8692.1																																																																																				0.418	KCNJ8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402226.1	NM_004982		T	21918737	G	T	21918737	2	4	629	1	0	0	0	0	0	0	0	1	8063	1124	39	4		4	KCNJ8	12	21918737	Silent	SNP	G	TCGA-KL-8330-01A-11D-2310-10	14269230	21918737	111933158	49	38745										
KRT85	3891	mdanderson.org	37	chr12	52760938	52760938	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	ctgggtccgcacacgcccccGgagcggtagccgaagctgcg	15	16	0	0			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr12:52760938G>A	ENST00000257901.3	-	1	327	c.252C>T	c.(250-252)tcC>tcT	p.S84S	KRT85_ENST00000544265.1_5'Flank	NM_002283.3	NP_002274.1	P78386	KRT85_HUMAN	keratin 85	84	Head.				epidermis development (GO:0008544)	extracellular space (GO:0005615)|keratin filament (GO:0045095)	structural molecule activity (GO:0005198)			NS(1)|breast(1)|endometrium(6)|kidney(1)|large_intestine(7)|liver(1)|lung(15)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	36	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		ACACGCCCCCGGAGCGGTAGC	0.687																																																0													39	48	45					12																	52760938		2203	4300	6503	SO:0001819	synonymous_variant	3891			X99140	CCDS8824.1, CCDS73472.1	12q13.13	2013-06-20	2006-07-17	2006-07-17	ENSG00000135443	ENSG00000135443		"-", "Intermediate filaments type II, keratins (basic)"	6462	protein-coding gene	gene with protein product	"hard keratin type II"	602767	"keratin, hair, basic, 5"	KRTHB5		9084137, 16831889	Standard	NM_002283		Approved	Hb-5	uc001sag.3	P78386	OTTHUMG00000169633	ENST00000257901.3:c.252C>T	12.37:g.52760938G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NSB1	Silent	SNP	ENST00000257901.3	37	CCDS8824.1																																																																																				0.687	KRT85-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405184.1	NM_002283		A	52760938	G	A	52760938	2	1	629	1	0	0	0	0	0	0	0	1	8506	1103	39	1		1	KRT85	12	52760938	Silent	SNP	G	TCGA-KL-8330-01A-11D-2310-10	30842201	52760938	81090957	50	38746										
RPH3A	22895	hgsc.bcm.edu;mdanderson.org	37	chr12	113303275	113303275	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	cgtggctggagatggggtgaAccgctgcatactgtgtggag	18	7	0	2			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr12:113303275A>G	ENST00000389385.4	+	6	784	c.287A>G	c.(286-288)aAc>aGc	p.N96S	RPH3A_ENST00000420983.2_Missense_Mutation_p.N96S|RPH3A_ENST00000543106.2_Missense_Mutation_p.N96S|RPH3A_ENST00000551052.1_Missense_Mutation_p.N92S|RPH3A_ENST00000415485.3_Missense_Mutation_p.N96S|RPH3A_ENST00000548866.1_Missense_Mutation_p.N47S|RPH3A_ENST00000447659.2_Missense_Mutation_p.N47S	NM_001143854.1|NM_014954.3	NP_001137326.1|NP_055769.2	Q9Y2J0	RP3A_HUMAN	rabphilin 3A	96	RabBD. {ECO:0000255|PROSITE- ProRule:PRU00234}.				intracellular protein transport (GO:0006886)	cell junction (GO:0030054)|membrane (GO:0016020)|synaptic vesicle (GO:0008021)	calcium ion binding (GO:0005509)|calcium-dependent phospholipid binding (GO:0005544)|phosphatidylinositol phosphate binding (GO:1901981)|transporter activity (GO:0005215)			breast(1)|central_nervous_system(3)|cervix(2)|endometrium(2)|kidney(1)|large_intestine(8)|lung(16)|ovary(3)|prostate(4)|skin(6)|urinary_tract(1)	47				BRCA - Breast invasive adenocarcinoma(302;0.00453)		GATGGGGTGAACCGCTGCATA	0.527																																																0													204	178	187					12																	113303275		2203	4300	6503	SO:0001583	missense	22895			AB023202	CCDS31904.1, CCDS44979.1	12q24.13	2014-07-02	2014-07-02		ENSG00000089169	ENSG00000089169		"Synaptotagmins"	17056	protein-coding gene	gene with protein product		612159	"rabphilin 3A homolog (mouse)"			10231032, 7822236	Standard	NM_014954		Approved	KIAA0985, rabphilin, exophilin-1	uc001ttz.3	Q9Y2J0	OTTHUMG00000169713	ENST00000389385.4:c.287A>G	12.37:g.113303275A>G	ENSP00000374036:p.Asn96Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3C3|Q96AE0	Missense_Mutation	SNP	ENST00000389385.4	37	CCDS44979.1	.	.	.	.	.	.	.	.	.	.	A	5.941	0.357590	0.11239	.	.	ENSG00000089169	ENST00000548197;ENST00000543106;ENST00000551593;ENST00000547840;ENST00000547728;ENST00000549769;ENST00000552667;ENST00000389385;ENST00000447659;ENST00000550901;ENST00000551198;ENST00000551052;ENST00000415485;ENST00000553114;ENST00000548866;ENST00000420983	T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.75260	-0.92;-0.92;-0.92;-0.92;-0.92;-0.92;-0.92;-0.92;-0.92;-0.92;-0.92;-0.92;-0.92;-0.92;-0.92;-0.92	5.61	4.47	0.54385	Zinc finger, RING/FYVE/PHD-type (1);Rab-binding domain (1);Zinc finger, FYVE-related (1);Rabphilin-3A effector, zinc-binding (1);Zinc finger, FYVE/PHD-type (1);	0.080012	0.50627	D	0.000101	T	0.59321	0.2185	N	0.25332	0.735	0.41201	D	0.986372	B;B;B;B	0.06786	0.001;0.0;0.0;0.0	B;B;B;B	0.09377	0.004;0.001;0.001;0.001	T	0.51403	-0.8710	10	0.21540	T	0.41	.	10.5859	0.45282	0.9234:0.0:0.0766:0.0	.	47;96;96;92	F8VP47;B7Z9Z7;Q9Y2J0;Q9Y2J0-2	.;.;RP3A_HUMAN;.	S	96;96;96;96;96;96;96;96;47;29;96;92;96;96;47;96	ENSP00000446570:N96S;ENSP00000440384:N96S;ENSP00000446780:N96S;ENSP00000450382:N96S;ENSP00000449613:N96S;ENSP00000447505:N96S;ENSP00000449650:N96S;ENSP00000374036:N96S;ENSP00000413254:N47S;ENSP00000448100:N29S;ENSP00000447083:N96S;ENSP00000448297:N92S;ENSP00000405357:N96S;ENSP00000450216:N96S;ENSP00000450347:N47S;ENSP00000408889:N96S	ENSP00000374036:N96S	N	+	2	0	RPH3A	111787658	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.592000	0.46171	0.958000	0.37956	0.533000	0.62120	AAC		0.527	RPH3A-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000405561.1	NM_014954		G	113303275	A	G	113303275	3	3	629	1	0	0	0	0	1	0	0	0	13564	43	2	3	301	3	RPH3A	12	113303275	Missense_Mutation	SNP	A	TCGA-KL-8330-01A-11D-2310-10	60542337	113303275	20548620	51	38747										
KIAA1704	55425	broad.mit.edu;bcgsc.ca	37	chr13	45582989	45582989	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	atctacacagaaaagtgacaAgggcagagatgatccaggac	11	8	1	4			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr13:45582989A>G	ENST00000379151.4	+	4	486	c.383A>G	c.(382-384)aAg>aGg	p.K128R	GPALPP1_ENST00000361121.2_Missense_Mutation_p.K128R|RP11-321C24.1_ENST00000437748.2_lincRNA|GPALPP1_ENST00000357537.3_5'UTR	NM_018559.2	NP_061029.2	Q8IXQ4	GPAM1_HUMAN	GPALPP motifs containing 1	128																	AAAAGTGACAAGGGCAGAGAT	0.368																																																0													84	75	78					13																	45582989		2203	4300	6503	SO:0001583	missense	55425			AB051491	CCDS9394.1	13q14.12	2013-08-13	2013-08-12	2013-08-12	ENSG00000133114	ENSG00000133114			20298	protein-coding gene	gene with protein product			"KIAA1704"	KIAA1704		11214970	Standard	NM_018559		Approved	bA245H20.2, AD029, LSR7	uc001uzq.3	Q8IXQ4	OTTHUMG00000016841	ENST00000379151.4:c.383A>G	13.37:g.45582989A>G	ENSP00000368447:p.Lys128Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8X8|Q05BX8|Q05D87|Q5T3Z3|Q5T3Z5|Q9C0F9|Q9H2R0|Q9P0W6	Missense_Mutation	SNP	ENST00000379151.4	37	CCDS9394.1	.	.	.	.	.	.	.	.	.	.	A	12.10	1.836425	0.32421	.	.	ENSG00000133114	ENST00000379151;ENST00000361121	T;T	0.55234	0.53;0.53	5.31	1.59	0.23543	.	0.778085	0.12671	N	0.448776	T	0.32912	0.0845	N	0.22421	0.69	0.23043	N	0.99838	B	0.02656	0.0	B	0.04013	0.001	T	0.21552	-1.0242	10	0.16896	T	0.51	-13.9596	7.2745	0.26275	0.6279:0.0:0.3721:0.0	.	128	Q8IXQ4	K1704_HUMAN	R	128	ENSP00000368447:K128R;ENSP00000355211:K128R	ENSP00000355211:K128R	K	+	2	0	KIAA1704	44480989	0.234000	0.23783	0.997000	0.53966	0.938000	0.57974	-0.169000	0.09911	0.133000	0.18654	0.528000	0.53228	AAG		0.368	GPALPP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044749.2	NM_018559		G	45582989	A	G	45582989	3	3	629	1	0	0	0	0	1	0	0	0	8259	72	3	3	397	3	KIAA1704	13	45582989	Missense_Mutation	SNP	A	TCGA-KL-8330-01A-11D-2310-10		45582989	69586889	52	38748										
LTB4R2	56413	mdanderson.org	37	chr14	24780364	24780364	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	ctaccgccacctgtggagggAccgcgtatgccagctgtgcc	13	15	0	0	rs1950504	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr14:24780364A>G	ENST00000528054.1	+	1	2204	c.587A>G	c.(586-588)gAc>gGc	p.D196G	LTB4R2_ENST00000533293.1_Missense_Mutation_p.D165G|CIDEB_ENST00000336557.5_5'UTR|CIDEB_ENST00000554411.1_5'Flank|LTB4R_ENST00000396789.4_5'Flank|CIDEB_ENST00000555817.1_Intron|LTB4R_ENST00000345363.3_5'Flank|LTB4R2_ENST00000543919.1_Missense_Mutation_p.D165G|CIDEB_ENST00000258807.5_5'UTR			Q9NPC1	LT4R2_HUMAN	leukotriene B4 receptor 2	196					chemotaxis (GO:0006935)|keratinocyte migration (GO:0051546)|negative regulation of adenylate cyclase activity (GO:0007194)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	leukotriene B4 receptor activity (GO:0001632)|leukotriene receptor activity (GO:0004974)			endometrium(1)|lung(1)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.018)		CTGTGGAGGGACCGCGTATGC	0.731													a|||	190	0.0379393	0.1399	0.0072	5008	,	,		13130	0.0		0.0	False		,,,				2504	0.0															0								G	GLY/ASP,,GLY/ASP	450,3898		24,402,1748	17	16	16		494,,494	-1.7	0	14	dbSNP_92	16	2,8500		0,2,4249	no	missense,utr-5,missense	CIDEB,LTB4R2	NM_001164692.2,NM_014430.2,NM_019839.4	94,,94	24,404,5997	GG,GA,AA		0.0235,10.3496,3.5175	benign,,benign	165/359,,165/359	24780364	452,12398	2174	4251	6425	SO:0001583	missense	56413			AB008193	CCDS9625.1, CCDS9625.2	14q12	2014-04-11			ENSG00000213906	ENSG00000213906		"GPCR / Class A : Leukotriene receptors"	19260	protein-coding gene	gene with protein product		605773				11006272, 10934229	Standard	NM_001164692		Approved	BLTR2, BLT2, JULF2, NOP9	uc001wor.3	Q9NPC1	OTTHUMG00000186500	ENST00000528054.1:c.587A>G	14.37:g.24780364A>G	ENSP00000432146:p.Asp196Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5KU28|Q9NPE5	Missense_Mutation	SNP	ENST00000528054.1	37		85	0.03891941391941392	80	0.16260162601626016	5	0.013812154696132596	0	0.0	0	0.0	A	8.771	0.925972	0.18056	0.103496	2.35E-4	ENSG00000213906	ENST00000528054;ENST00000533293;ENST00000543919;ENST00000530080	T;T;T;T	0.72394	-0.65;-0.65;-0.65;-0.65	4.88	-1.74	0.08056	GPCR, rhodopsin-like superfamily (1);	1.111770	0.06947	N	0.813820	T	0.00210	0.0006	N	0.05574	-0.02	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.02539	-1.1144	9	0.21014	T	0.42	.	6.262	0.20905	0.4321:0.1466:0.4212:0.0	rs1950504	196	Q9NPC1	LT4R2_HUMAN	G	196;165;165;165	ENSP00000432146:D196G;ENSP00000433290:D165G;ENSP00000445772:D165G;ENSP00000434760:D165G	ENSP00000337731:D196G	D	+	2	0	LTB4R2	23850204	0.000000	0.05858	0.014000	0.15608	0.878000	0.50629	-0.091000	0.11146	-0.069000	0.12931	-0.441000	0.05720	GAC		0.731	LTB4R2-001	KNOWN	basic|appris_principal|readthrough_transcript	protein_coding	protein_coding	OTTHUMT00000073194.4			G	24780364	A	G	24780364	3	3	629	1	0	0	0	0	1	0	0	0	9079	275	10	3	496	3	LTB4R2	14	24780364	Missense_Mutation	SNP	A	TCGA-KL-8330-01A-11D-2310-10		24780364	82569176	53	38749										
AHNAK2	113146	mdanderson.org	37	chr14	105413649	105413649	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	tggccctctgggagtttcacAtccacctggccagcctggac	11	15	2	0	rs201545349	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr14:105413649A>G	ENST00000333244.5	-	7	8258	c.8139T>C	c.(8137-8139)gaT>gaC	p.D2713D	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2713						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			GGAGTTTCACATCCACCTGGC	0.612													.|||	29	0.00579073	0.0174	0.0	5008	,	,		17337	0.0		0.0	False		,,,				2504	0.0061															0													130	144	139					14																	105413649		1936	4121	6057	SO:0001819	synonymous_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.8139T>C	14.37:g.105413649A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Silent	SNP	ENST00000333244.5	37	CCDS45177.1																																																																																				0.612	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		G	105413649	A	G	105413649	2	3	629	1	0	0	0	0	0	0	0	1	415	214	8	3		3	AHNAK2	14	105413649	Silent	SNP	A	TCGA-KL-8330-01A-11D-2310-10	80633285	105413649	1935891	54	38750			1	81		4	4	2013	N	T_C_A	1.920509e-08
AHNAK2	113146	mdanderson.org	37	chr14	105413682	105413682	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gcctggacctccagttgggcAgaggggggctgaatgctgat	17	9	0	3	rs200358766	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr14:105413682A>G	ENST00000333244.5	-	7	8225	c.8106T>C	c.(8104-8106)tcT>tcC	p.S2702S	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2702						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			CCAGTTGGGCAGAGGGGGGCT	0.617																																																0													140	156	151					14																	105413682		1966	4150	6116	SO:0001819	synonymous_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.8106T>C	14.37:g.105413682A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Silent	SNP	ENST00000333244.5	37	CCDS45177.1																																																																																				0.617	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		G	105413682	A	G	105413682	2	3	629	1	0	0	0	0	0	0	0	1	415	175	7	3		3	AHNAK2	14	105413682	Silent	SNP	A	TCGA-KL-8330-01A-11D-2310-10	33	105413682	1935858	55	38751			1	81		4	4	2013	N	T_C_A	1.920509e-08
AHNAK2	113146	mdanderson.org	37	chr14	105413702	105413702	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	agaggggggctgaatgctgaTgtcagtggtcttaaggtccc	16	7	2	3	rs373727930	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr14:105413702T>G	ENST00000333244.5	-	7	8205	c.8086A>C	c.(8086-8088)Atc>Ctc	p.I2696L	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2696						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			TGAATGCTGATGTCAGTGGTC	0.622													.|||	5	0.000998403	0.0038	0.0	5008	,	,		18132	0.0		0.0	False		,,,				2504	0.0															0								G	LEU/ILE	6,4002		0,6,1998	155	169	164		8086	-6.6	0	14		164	0,8354		0,0,4177	no	missense	AHNAK2	NM_138420.2	5	0,6,6175	GG,GT,TT		0.0,0.1497,0.0485	benign	2696/5796	105413702	6,12356	2004	4177	6181	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.8086A>C	14.37:g.105413702T>G	ENSP00000353114:p.Ile2696Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	.	.	.	.	.	.	.	.	.	.	N	1.766	-0.485464	0.04352	0.001497	0.0	ENSG00000185567	ENST00000333244	T	0.01215	5.16	3.28	-6.57	0.01842	.	.	.	.	.	T	0.00356	0.0011	N	0.00278	-1.715	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.48422	-0.9037	9	0.27082	T	0.32	.	4.7288	0.12954	0.0859:0.4868:0.2062:0.2212	.	2696	Q8IVF2	AHNK2_HUMAN	L	2696	ENSP00000353114:I2696L	ENSP00000353114:I2696L	I	-	1	0	AHNAK2	104484747	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-3.340000	0.00506	-5.115000	0.00021	-4.489000	0.00005	ATC		0.622	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		G	105413702	T	G	105413702	3	3	629	1	0	0	0	0	1	0	0	0	415	1464	51	5	9305	5	AHNAK2	14	105413702	Missense_Mutation	SNP	T	TCGA-KL-8330-01A-11D-2310-10	20	105413702	1935838	56	38752			1	81		4	4	2013	N	T_C_A	1.920509e-08
AHNAK2	113146	mdanderson.org	37	chr14	105415661	105415661	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	agtctggaccttcaggtcggCagaagggggctgaatgctga	16	8	2	3	rs200010377	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr14:105415661C>T	ENST00000333244.5	-	7	6246	c.6127G>A	c.(6127-6129)Gcc>Acc	p.A2043T	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2043						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			TTCAGGTCGGCAGAAGGGGGC	0.647													.|||	82	0.0163738	0.0129	0.0086	5008	,	,		12118	0.0079		0.008	False		,,,				2504	0.044															0													100	60	73					14																	105415661		1902	3958	5860	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.6127G>A	14.37:g.105415661C>T	ENSP00000353114:p.Ala2043Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	.	.	.	.	.	.	.	.	.	.	-	14.22	2.469010	0.43839	.	.	ENSG00000185567	ENST00000333244	T	0.00912	5.55	3.87	0.935	0.19483	.	.	.	.	.	T	0.02571	0.0078	M	0.64080	1.96	0.09310	N	1	D	0.76494	0.999	D	0.68483	0.958	T	0.44757	-0.9307	9	0.14252	T	0.57	.	5.0829	0.14666	0.1662:0.6467:0.0:0.1871	.	2043	Q8IVF2	AHNK2_HUMAN	T	2043	ENSP00000353114:A2043T	ENSP00000353114:A2043T	A	-	1	0	AHNAK2	104486706	0.001000	0.12720	0.000000	0.03702	0.001000	0.01503	0.432000	0.21461	0.149000	0.19098	0.485000	0.47835	GCC		0.647	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		T	105415661	C	T	105415661	3	4	629	1	0	0	0	0	1	0	0	0	415	710	25	2	11264	2	AHNAK2	14	105415661	Missense_Mutation	SNP	C	TCGA-KL-8330-01A-11D-2310-10	1959	105415661	1933879	57	38753			1	81		4	4	2013	N	T_C_A	1.920509e-08
PPIP5K1	9677	broad.mit.edu	37	chr15	43827440	43827440	+	Frame_Shift_Del	DEL	A	A	-													0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	cgtatggctggctggtttccAtaggtggcacctgtggggac							TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr15:43827440delA	ENST00000396923.3	-	30	3855	c.3734delT	c.(3733-3735)atgfs	p.M1245fs	PPIP5K1_ENST00000420765.1_Frame_Shift_Del_p.M1245fs|PPIP5K1_ENST00000334933.4_Frame_Shift_Del_p.M1220fs|PPIP5K1_ENST00000381879.4_Frame_Shift_Del_p.M1221fs|PPIP5K1_ENST00000381885.1_Frame_Shift_Del_p.M1241fs|PPIP5K1_ENST00000360135.4_Frame_Shift_Del_p.M1218fs|PPIP5K1_ENST00000360301.4_Frame_Shift_Del_p.M1220fs|PPIP5K1_ENST00000348806.6_Frame_Shift_Del_p.M1218fs			Q6PFW1	VIP1_HUMAN	diphosphoinositol pentakisphosphate kinase 1	1245					inositol metabolic process (GO:0006020)|inositol phosphate metabolic process (GO:0043647)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|plasma membrane (GO:0005886)	acid phosphatase activity (GO:0003993)|ATP binding (GO:0005524)|diphosphoinositol-pentakisphosphate kinase activity (GO:0033857)|inositol hexakisphosphate 1-kinase activity (GO:0052723)|inositol hexakisphosphate 3-kinase activity (GO:0052724)|inositol hexakisphosphate 5-kinase activity (GO:0000832)|inositol-1,3,4,5,6-pentakisphosphate kinase activity (GO:0000827)			large_intestine(1)	1						GCTGGTTTCCATAGGTGGCAC	0.587																																																0													86	87	87					15																	43827440		2201	4298	6499	SO:0001589	frameshift_variant	9677			AF502586	CCDS32215.1, CCDS45252.1, CCDS53937.1	15q15.3	2010-01-27	2010-01-26	2010-01-26	ENSG00000168781	ENSG00000168781	2.7.4.24		29023	protein-coding gene	gene with protein product		610979	"histidine acid phosphatase domain containing 2A"	HISPPD2A		17412958, 17690096, 18981179	Standard	NM_001190214		Approved	KIAA0377, IPS1, VIP1	uc001zrw.3	Q6PFW1	OTTHUMG00000059758	ENST00000396923.3:c.3734delT	15.37:g.43827440delA	ENSP00000380129:p.Met1245fs	Somatic		WXS	Illumina HiSeq	Phase_I	O15082|Q5HYF8|Q7Z3A7|Q86TE7|Q86UV3|Q86UV4|Q86XW8|Q8IZN0	Frame_Shift_Del	DEL	ENST00000396923.3	37	CCDS45252.1																																																																																				0.587	PPIP5K1-002	NOVEL	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000132907.1	NM_014659		-	43827440	A	-	43827440	7	5	629	1	0	1	0	1	0	0	0	0	12342	217	8	0	571	0	PPIP5K1	15	43827440	Frame_Shift_Del	DEL	A	TCGA-KL-8330-01A-11D-2310-10		43827440	58703952	58	38754										
MYO5C	55930	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	52562050	52562050	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	cttgtataattaaattcttcGgcactccctgaaatcaaaaa	4	9	2	1			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr15:52562050G>A	ENST00000261839.7	-	8	1001	c.840C>T	c.(838-840)gcC>gcT	p.A280A	MYO5C_ENST00000541028.1_Intron|MYO5C_ENST00000443683.2_Silent_p.A223A	NM_018728.3	NP_061198.2	Q9NQX4	MYO5C_HUMAN	myosin VC	280	Myosin motor.					extracellular vesicular exosome (GO:0070062)|myosin complex (GO:0016459)	ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(8)|kidney(7)|large_intestine(15)|lung(12)|ovary(7)|prostate(3)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	66				all cancers(107;0.0137)		TAAATTCTTCGGCACTCCCTG	0.378																																																0													167	151	156					15																	52562050		1859	4100	5959	SO:0001819	synonymous_variant	55930			AF272390	CCDS42036.1	15q21	2011-09-27				ENSG00000128833		"Myosins / Myosin superfamily : Class V"	7604	protein-coding gene	gene with protein product	"myosin 5C"	610022				11870218	Standard	NM_018728		Approved	MGC74969	uc010bff.3	Q9NQX4		ENST00000261839.7:c.840C>T	15.37:g.52562050G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6P1W8	Silent	SNP	ENST00000261839.7	37	CCDS42036.1																																																																																				0.378	MYO5C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419562.1	NM_018728		A	52562050	G	A	52562050	2	1	629	1	0	0	0	0	0	0	0	1	10087	1103	39	1		1	MYO5C	15	52562050	Silent	SNP	G	TCGA-KL-8330-01A-11D-2310-10	8734610	52562050	49969342	59	38755										
WHAMM	123720	mdanderson.org	37	chr15	83478545	83478545	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gggagggcctcttcgccgagCccgagaggcaccggctgcgc	17	15	1	1			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr15:83478545C>G	ENST00000286760.4	+	1	166	c.67C>G	c.(67-69)Ccc>Gcc	p.P23A		NM_001080435.1	NP_001073904.1	Q8TF30	WHAMM_HUMAN	WAS protein homolog associated with actin, golgi membranes and microtubules	23	Mediates association with membranes. {ECO:0000269|PubMed:18614018}.				actin filament organization (GO:0007015)|actin filament reorganization (GO:0090527)|ER to Golgi vesicle-mediated transport (GO:0006888)|focal adhesion assembly (GO:0048041)|lamellipodium assembly (GO:0030032)|membrane tubulation (GO:0097320)|positive regulation of actin nucleation (GO:0051127)	cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum-Golgi intermediate compartment membrane (GO:0033116)|Golgi membrane (GO:0000139)	Arp2/3 complex binding (GO:0071933)|GTP-Rho binding (GO:0017049)|microtubule binding (GO:0008017)			endometrium(6)|large_intestine(5)|lung(1)|prostate(1)	13						CTTCGCCGAGCCCGAGAGGCA	0.726																																																0													10	11	11					15																	83478545		1590	3625	5215	SO:0001583	missense	123720			AK126887	CCDS45333.1	15q25.2	2009-02-18	2009-02-18	2009-02-18	ENSG00000156232	ENSG00000156232			30493	protein-coding gene	gene with protein product		612393	"WAS protein homology region 2 domain containing 1"	WHDC1		11853319, 18226259, 18614018, 18812086	Standard	XM_005272422		Approved	KIAA1971	uc002bje.3	Q8TF30		ENST00000286760.4:c.67C>G	15.37:g.83478545C>G	ENSP00000286760:p.Pro23Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N1J9	Missense_Mutation	SNP	ENST00000286760.4	37	CCDS45333.1	.	.	.	.	.	.	.	.	.	.	C	15.19	2.760084	0.49468	.	.	ENSG00000156232	ENST00000286760;ENST00000234505	T	0.07021	3.23	5.44	3.56	0.40772	.	0.583381	0.18376	N	0.143118	T	0.10637	0.0260	M	0.66939	2.045	0.37618	D	0.921205	B	0.32753	0.383	B	0.28849	0.095	T	0.06881	-1.0802	10	0.44086	T	0.13	.	10.6106	0.45419	0.0:0.8451:0.0:0.1549	.	23	Q8TF30	WHAMM_HUMAN	A	23	ENSP00000286760:P23A	ENSP00000234505:P23A	P	+	1	0	WHAMM	81275599	0.925000	0.31364	0.628000	0.29241	0.970000	0.65996	0.721000	0.25911	0.671000	0.31185	0.585000	0.79938	CCC		0.726	WHAMM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418463.1			G	83478545	C	G	83478545	3	3	629	1	0	0	0	0	1	0	0	0	17373	739	26	4	69	4	WHAMM	15	83478545	Missense_Mutation	SNP	C	TCGA-KL-8330-01A-11D-2310-10	30916495	83478545	19052847	60	38756										
SULT1A1	6817	mdanderson.org	37	chr16	28620121	28620121	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	ctgcaaagtacttgatgagcGggacccccttcacgtactcc	9	14	1	2	rs200542791	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr16:28620121G>A	ENST00000395607.1	-	2	329	c.56C>T	c.(55-57)cCg>cTg	p.P19L	SULT1A1_ENST00000350842.4_Intron|SULT1A1_ENST00000569554.1_Missense_Mutation_p.P19L|SULT1A1_ENST00000395609.1_Missense_Mutation_p.P19L|SULT1A1_ENST00000314752.7_Missense_Mutation_p.P19L	NM_177530.2|NM_177534.2	NP_803566.1|NP_803878.1	P50225	ST1A1_HUMAN	sulfotransferase family, cytosolic, 1A, phenol-preferring, member 1	19					3'-phosphoadenosine 5'-phosphosulfate metabolic process (GO:0050427)|amine metabolic process (GO:0009308)|catecholamine metabolic process (GO:0006584)|estrogen metabolic process (GO:0008210)|flavonoid metabolic process (GO:0009812)|small molecule metabolic process (GO:0044281)|sulfation (GO:0051923)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)	aryl sulfotransferase activity (GO:0004062)|flavonol 3-sulfotransferase activity (GO:0047894)|steroid sulfotransferase activity (GO:0050294)|sulfotransferase activity (GO:0008146)	p.P19L(2)		endometrium(2)|kidney(7)|large_intestine(2)|lung(2)|ovary(1)|stomach(2)	16					Acetaminophen(DB00316)|Tamoxifen(DB00675)	CTTGATGAGCGGGACCCCCTT	0.632																																																2	Substitution - Missense(2)	kidney(2)											36	36	36					16																	28620121		2197	4293	6490	SO:0001583	missense	6817			U52852	CCDS10637.1, CCDS32420.1	16p12.1	2008-02-05			ENSG00000196502	ENSG00000196502	2.8.2.1	"Sulfotransferases, cytosolic"	11453	protein-coding gene	gene with protein product		171150		STP, STP1		8288252, 8912648	Standard	NM_177534		Approved	P-PST	uc002dqj.3	P50225	OTTHUMG00000131765	ENST00000395607.1:c.56C>T	16.37:g.28620121G>A	ENSP00000378971:p.Pro19Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NL71|Q86U58|Q92818|Q9BVU6|Q9UGG7	Missense_Mutation	SNP	ENST00000395607.1	37	CCDS32420.1	.	.	.	.	.	.	.	.	.	.	.	10.83	1.461115	0.26248	.	.	ENSG00000196502	ENST00000314752;ENST00000395609;ENST00000395607	T;T;T	0.01560	4.77;4.77;4.77	2.5	1.49	0.22878	.	0.000000	0.64402	D	0.000001	T	0.02807	0.0084	N	0.24115	0.695	0.47037	D	0.999295	D	0.89917	1.0	D	0.76071	0.987	T	0.57225	-0.7848	10	0.06625	T	0.88	.	7.8438	0.29414	0.1395:0.0:0.8605:0.0	.	19	P50225	ST1A1_HUMAN	L	19	ENSP00000321988:P19L;ENSP00000378972:P19L;ENSP00000378971:P19L	ENSP00000321988:P19L	P	-	2	0	SULT1A1	28527622	0.990000	0.36364	0.082000	0.20525	0.073000	0.16967	2.174000	0.42482	0.605000	0.29947	0.306000	0.20318	CCG		0.632	SULT1A1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254694.2	NM_001055		A	28620121	G	A	28620121	3	1	629	1	0	0	0	0	1	0	0	0	15384	1116	39	1	859	1	SULT1A1	16	28620121	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10		28620121	61734632	61	38757										
NECAB2	54550	broad.mit.edu;mdanderson.org	37	chr16	84024120	84024120	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	tatatgagggtgggagcaacGtggaccagtttgtgacccgc	15	8	0	2	rs531002237		TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr16:84024120G>A	ENST00000305202.4	+	6	498	c.481G>A	c.(481-483)Gtg>Atg	p.V161M	NECAB2_ENST00000565691.1_Missense_Mutation_p.V78M	NM_019065.2	NP_061938.2	Q7Z6G3	NECA2_HUMAN	N-terminal EF-hand calcium binding protein 2	161						cytoplasm (GO:0005737)	calcium ion binding (GO:0005509)			endometrium(1)|large_intestine(3)|lung(9)|ovary(2)|prostate(1)|stomach(2)|urinary_tract(1)	19						TGGGAGCAACGTGGACCAGTT	0.582																																																0													88	80	83					16																	84024120		2200	4300	6500	SO:0001583	missense	54550			AY299331	CCDS10940.1	16q23.3-q24.1	2013-01-10	2007-12-06	2007-12-06	ENSG00000103154	ENSG00000103154		"N-terminal EF-hand calcium binding proteins", "EF-hand domain containing"	23746	protein-coding gene	gene with protein product			"EF-hand calcium binding protein 2"	EFCBP2		12044471	Standard	NM_019065		Approved		uc002fhd.3	Q7Z6G3	OTTHUMG00000137636	ENST00000305202.4:c.481G>A	16.37:g.84024120G>A	ENSP00000307449:p.Val161Met	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRG3|O75547|Q6ZSK0	Missense_Mutation	SNP	ENST00000305202.4	37	CCDS10940.1	.	.	.	.	.	.	.	.	.	.	G	11.61	1.690055	0.29962	.	.	ENSG00000103154	ENST00000305202	T	0.21191	2.02	5.14	4.17	0.49024	.	0.000000	0.85682	D	0.000000	T	0.27169	0.0666	M	0.70842	2.15	0.49687	D	0.999815	D	0.57257	0.979	P	0.44518	0.452	T	0.07139	-1.0788	10	0.41790	T	0.15	-13.0244	13.1299	0.59375	0.0796:0.0:0.9204:0.0	.	161	Q7Z6G3	NECA2_HUMAN	M	161	ENSP00000307449:V161M	ENSP00000307449:V161M	V	+	1	0	NECAB2	82581621	1.000000	0.71417	0.989000	0.46669	0.271000	0.26615	3.193000	0.50997	2.388000	0.81334	0.549000	0.68633	GTG		0.582	NECAB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269077.2	NM_019065		A	84024120	G	A	84024120	3	1	629	1	0	0	0	0	1	0	0	0	10312	1145	40	1	503	1	NECAB2	16	84024120	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10	55403999	84024120	6330633	62	38758										
CACNB1	782	ucsc.edu	37	chr17	37331681	37331681	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	ctgaggggtcagtctccatgTccacacatgagtctcccagc	10	14	3	2			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr17:37331681T>C	ENST00000394303.3	-	14	1769	c.1562A>G	c.(1561-1563)gAc>gGc	p.D521G	RP5-906A24.2_ENST00000579256.1_RNA	NM_000723.4	NP_000714.3	Q02641	CACB1_HUMAN	calcium channel, voltage-dependent, beta 1 subunit	521					axon guidance (GO:0007411)|protein targeting to membrane (GO:0006612)|transport (GO:0006810)	sarcoplasmic reticulum (GO:0016529)|T-tubule (GO:0030315)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|voltage-gated calcium channel activity (GO:0005245)			breast(1)|endometrium(3)|kidney(1)|large_intestine(4)|liver(1)|lung(3)|ovary(1)|prostate(1)|skin(1)	16					Dronedarone(DB04855)|Ibutilide(DB00308)|Magnesium Sulfate(DB00653)|Nimodipine(DB00393)|Spironolactone(DB00421)|Verapamil(DB00661)	AGTCTCCATGTCCACACATGA	0.657											OREG0024371	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																									Esophageal Squamous(5;100 366 38393 41452 45827)											0													97	109	105					17																	37331681		1956	4143	6099	SO:0001583	missense	782				CCDS11334.1, CCDS42311.1, CCDS45665.1	17q21-q22	2013-03-20			ENSG00000067191	ENSG00000067191		"Calcium channel subunits"	1401	protein-coding gene	gene with protein product		114207		CACNLB1		8381767, 8395940	Standard	NM_000723		Approved		uc002hrm.2	Q02641	OTTHUMG00000133217	ENST00000394303.3:c.1562A>G	17.37:g.37331681T>C	ENSP00000377840:p.Asp521Gly	Somatic	869	WXS	Illumina HiSeq	Phase_I	A8K114|O15331|Q02639|Q02640|Q8N3X9|Q9C085|Q9UD79	Missense_Mutation	SNP	ENST00000394303.3	37	CCDS42311.1	.	.	.	.	.	.	.	.	.	.	T	24.5	4.538855	0.85917	.	.	ENSG00000067191	ENST00000539338;ENST00000394303	T	0.79554	-1.28	5.67	4.6	0.57074	.	0.053621	0.64402	D	0.000001	T	0.74496	0.3724	L	0.51422	1.61	0.80722	D	1	B	0.15141	0.012	B	0.10450	0.005	T	0.73310	-0.4023	10	0.66056	D	0.02	-27.8644	10.2001	0.43077	0.0:0.0791:0.0:0.9209	.	521	Q02641	CACB1_HUMAN	G	471;521	ENSP00000377840:D521G	ENSP00000377840:D521G	D	-	2	0	CACNB1	34585207	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.651000	0.61447	2.169000	0.68431	0.459000	0.35465	GAC		0.657	CACNB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256945.3			C	37331681	T	C	37331681	3	2	629	1	0	0	0	0	1	0	0	0	2554	1667	58	3	238	3	CACNB1	17	37331681	Missense_Mutation	SNP	T	TCGA-KL-8330-01A-11D-2310-10		37331681	43863529	63	38759										
RNF213	57674	ucsc.edu	37	chr17	78326830	78326830	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gcagcatgtcaccatcagccAgctgttcgcgcccggagact	11	15	2	1			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr17:78326830A>G	ENST00000582970.1	+	33	10537	c.10394A>G	c.(10393-10395)cAg>cGg	p.Q3465R	CTD-2047H16.4_ENST00000575034.1_RNA|CTD-2047H16.4_ENST00000572151.1_RNA|RNF213_ENST00000508628.2_Missense_Mutation_p.Q3514R|RNF213_ENST00000336301.6_Missense_Mutation_p.Q1538R	NM_001256071.1	NP_001243000.1	Q63HN8	RN213_HUMAN	ring finger protein 213	3465					ATP catabolic process (GO:0006200)|protein autoubiquitination (GO:0051865)|protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)|membrane (GO:0016020)	ATPase activity (GO:0016887)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(7)|central_nervous_system(1)|cervix(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(23)|lung(36)|ovary(11)|pancreas(2)|prostate(4)|skin(3)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	130	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			ACCATCAGCCAGCTGTTCGCG	0.627																																																0													74	68	70					17																	78326830		2203	4300	6503	SO:0001583	missense	57674			AK074030	CCDS58606.1	17q25.3	2013-01-09	2007-02-08	2007-02-08		ENSG00000173821		"RING-type (C3HC4) zinc fingers"	14539	protein-coding gene	gene with protein product		613768	"chromosome 17 open reading frame 27", "KIAA1618", "moyamoya disease 2", "Moyamoya disease 2"	C17orf27, KIAA1618, MYMY2		10997877, 21048783, 21799892	Standard	NM_020954		Approved	KIAA1554, NET57	uc021uen.2	Q63HN8		ENST00000582970.1:c.10394A>G	17.37:g.78326830A>G	ENSP00000464087:p.Gln3465Arg	Somatic		WXS	Illumina HiSeq	Phase_I	C9JCP4|D6RI12|F8WKS1|Q658P6|Q69YK7|Q6MZR1|Q8IWF4|Q8IZX1|Q8IZX2|Q8N406|Q8TEU0|Q9H6C9|Q9H6H9|Q9H6P3|Q9H8A9|Q9HCF4|Q9HCL8	Missense_Mutation	SNP	ENST00000582970.1	37	CCDS58606.1	.	.	.	.	.	.	.	.	.	.	A	15.66	2.898988	0.52227	.	.	ENSG00000173821	ENST00000508628;ENST00000411702;ENST00000336301	T	0.24151	1.87	5.68	5.68	0.88126	.	0.000000	0.85682	D	0.000000	T	0.51058	0.1652	M	0.81239	2.535	0.38732	D	0.953683	D	0.71674	0.998	D	0.63283	0.913	T	0.60969	-0.7157	10	0.87932	D	0	.	14.5041	0.67741	1.0:0.0:0.0:0.0	.	1538	Q63HN8	RN213_HUMAN	R	3465;3514;1538	ENSP00000338218:Q1538R	ENSP00000338218:Q1538R	Q	+	2	0	RNF213	75941425	1.000000	0.71417	1.000000	0.80357	0.793000	0.44817	8.238000	0.89809	2.157000	0.67596	0.533000	0.62120	CAG		0.627	RNF213-020	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000443298.1	NM_020914		G	78326830	A	G	78326830	3	3	629	1	0	0	0	0	1	0	0	0	13490	188	7	3	10839	3	RNF213	17	78326830	Missense_Mutation	SNP	A	TCGA-KL-8330-01A-11D-2310-10	40995149	78326830	2868380	64	38760										
MIB1	57534	broad.mit.edu	37	chr18	19379923	19379923	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gtggaagatttgcttaaaagAccagatgtggatgtgagcat	13	4	0	4			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr18:19379923A>G	ENST00000261537.6	+	9	1623	c.1359A>G	c.(1357-1359)agA>agG	p.R453R	MIB1_ENST00000578646.1_3'UTR	NM_020774.2	NP_065825.1	Q86YT6	MIB1_HUMAN	mindbomb E3 ubiquitin protein ligase 1	453					blood vessel development (GO:0001568)|heart looping (GO:0001947)|in utero embryonic development (GO:0001701)|negative regulation of neuron differentiation (GO:0045665)|neural tube formation (GO:0001841)|Notch signaling pathway (GO:0007219)|positive regulation of endocytosis (GO:0045807)|somitogenesis (GO:0001756)	centrosome (GO:0005813)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(13)|ovary(5)	27			STAD - Stomach adenocarcinoma(5;0.212)			TGCTTAAAAGACCAGATGTGG	0.333																																																0													93	93	93					18																	19379923		2203	4300	6503	SO:0001819	synonymous_variant	57534			AB037744	CCDS11871.1	18q11.2	2014-09-17	2012-02-23		ENSG00000101752	ENSG00000101752		"Zinc fingers, ZZ-type", "Ankyrin repeat domain containing"	21086	protein-coding gene	gene with protein product		608677	"mindbomb homolog 1 (Drosophila)"				Standard	NM_020774		Approved	DIP-1, MIB, KIAA1323, ZZANK2, ZZZ6	uc002ktq.3	Q86YT6	OTTHUMG00000131753	ENST00000261537.6:c.1359A>G	18.37:g.19379923A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ38|Q2TB37|Q68D01|Q6YI51|Q8NBY0|Q8TCB5|Q8TCL7|Q9P2M3	Silent	SNP	ENST00000261537.6	37	CCDS11871.1																																																																																				0.333	MIB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254675.1	NM_020774		G	19379923	A	G	19379923	2	3	629	1	0	0	0	0	0	0	0	1	9573	272	10	3		3	MIB1	18	19379923	Silent	SNP	A	TCGA-KL-8330-01A-11D-2310-10		19379923	58697325	65	38761										
ABCA7	10347	ucsc.edu	37	chr19	1047002	1047002	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	cccttcctgctcagcgccgcActgctggttctggtgctcaa	10	16	3	0	rs3752234	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr19:1047002A>G	ENST00000263094.6	+	14	2055	c.1824A>G	c.(1822-1824)gcA>gcG	p.A608A	ABCA7_ENST00000533574.1_Intron|ABCA7_ENST00000433129.1_Silent_p.A608A|ABCA7_ENST00000435683.2_Silent_p.A470A	NM_019112.3	NP_061985.2	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 7	608					apolipoprotein A-I-mediated signaling pathway (GO:0038027)|ATP catabolic process (GO:0006200)|cholesterol efflux (GO:0033344)|high-density lipoprotein particle assembly (GO:0034380)|memory (GO:0007613)|negative regulation of amyloid precursor protein biosynthetic process (GO:0042985)|negative regulation of ATPase activity (GO:0032780)|negative regulation of beta-amyloid formation (GO:1902430)|peptide cross-linking (GO:0018149)|phagocytosis (GO:0006909)|phospholipid efflux (GO:0033700)|phospholipid scrambling (GO:0017121)|positive regulation of ATPase activity (GO:0032781)|positive regulation of beta-amyloid clearance (GO:1900223)|positive regulation of cholesterol efflux (GO:0010875)|positive regulation of engulfment of apoptotic cell (GO:1901076)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of phagocytosis (GO:0050766)|positive regulation of phospholipid efflux (GO:1902995)|protein localization to nucleus (GO:0034504)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|ATP-binding cassette (ABC) transporter complex (GO:0043190)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|phagocytic cup (GO:0001891)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)	apolipoprotein A-I receptor activity (GO:0034188)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|phospholipid transporter activity (GO:0005548)|transporter activity (GO:0005215)			NS(1)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(7)|lung(22)|ovary(1)|pancreas(7)|prostate(4)|skin(3)|upper_aerodigestive_tract(1)	65		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCAGCGCCGCACTGCTGGTTC	0.726													G|||	2899	0.578874	0.4637	0.7104	5008	,	,		13766	0.75		0.5199	False		,,,				2504	0.5256															0										2219,2141		606,1007,567	14	13	13		1824	-2.7	0.3	19	dbSNP_107	13	4663,3873		1348,1967,953	no	coding-synonymous	ABCA7	NM_019112.3		1954,2974,1520	GG,GA,AA		45.3725,49.1055,46.6346		608/2147	1047002	6882,6014	2180	4268	6448	SO:0001819	synonymous_variant	10347			AF328787	CCDS12055.1	19p13.3	2012-03-14			ENSG00000064687	ENSG00000064687		"ATP binding cassette transporters / subfamily A"	37	protein-coding gene	gene with protein product		605414					Standard	NM_019112		Approved	ABCX	uc002lqw.4	Q8IZY2	OTTHUMG00000167547	ENST00000263094.6:c.1824A>G	19.37:g.1047002A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q96S58|Q9BZC4|Q9NR73|Q9UKP8	Silent	SNP	ENST00000263094.6	37	CCDS12055.1																																																																																				0.726	ABCA7-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000394993.1	NM_019112		G	1047002	A	G	1047002	2	3	629	1	0	0	0	0	0	0	0	1	37	146	6	3		3	ABCA7	19	1047002	Silent	SNP	A	TCGA-KL-8330-01A-11D-2310-10		1047002	58081981	66	38762										
MUC16	94025	mdanderson.org	37	chr19	9054242	9054242	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	aagttaaacctacctttaggActggcaggcgaagtggatgt	12	7	0	0			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr19:9054242A>G	ENST00000397910.4	-	4	31583	c.31380T>C	c.(31378-31380)agT>agC	p.S10460S		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	10462	Thr-rich.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TACCTTTAGGACTGGCAGGCG	0.443																																																0													135	147	143					19																	9054242		1950	4152	6102	SO:0001819	synonymous_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.31380T>C	19.37:g.9054242A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Silent	SNP	ENST00000397910.4	37	CCDS54212.1																																																																																				0.443	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		G	9054242	A	G	9054242	2	3	629	1	0	0	0	0	0	0	0	1	9980	272	10	3		3	MUC16	19	9054242	Silent	SNP	A	TCGA-KL-8330-01A-11D-2310-10	8007240	9054242	50074741	67	38763										
PSG2	5670	mdanderson.org	37	chr19	43585274	43585274	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	cctttgtaccagatgtagccAgtaagattctggggcaaatt	10	8	1	2			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr19:43585274A>G	ENST00000406487.1	-	2	287	c.189T>C	c.(187-189)acT>acC	p.T63T	PSG2_ENST00000491995.1_5'Flank	NM_031246.3	NP_112536.2	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	63	Ig-like V-type.				cell migration (GO:0016477)|female pregnancy (GO:0007565)	extracellular region (GO:0005576)				central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(24)|ovary(1)|pancreas(2)|prostate(6)|stomach(2)|urinary_tract(2)	49		Prostate(69;0.00682)				AGATGTAGCCAGTAAGATTCT	0.453																																																0													112	115	114					19																	43585274		2203	4296	6499	SO:0001819	synonymous_variant	5670				CCDS12616.1	19q13.1-q13.2	2013-01-29			ENSG00000242221	ENSG00000242221		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9519	protein-coding gene	gene with protein product	"pregnancy-specific beta-1 glycoprotein", "pregnancy-specific beta-1-glycoprotein 7", "carcinoembryonic antigen SG8"	176391		PSBG2		2377620	Standard	NM_031246		Approved	PSGGB, PSG1, CEA	uc002ovr.3	P11465	OTTHUMG00000151547	ENST00000406487.1:c.189T>C	19.37:g.43585274A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TCD9|Q9UEA4|Q9UQ78	Silent	SNP	ENST00000406487.1	37	CCDS12616.1																																																																																				0.453	PSG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323083.1	NM_031246		G	43585274	A	G	43585274	2	3	629	1	0	0	0	0	0	0	0	1	12665	175	7	3		3	PSG2	19	43585274	Silent	SNP	A	TCGA-KL-8330-01A-11D-2310-10	34531032	43585274	15543709	68	38764										
ELSPBP1	64100	mdanderson.org;bcgsc.ca	37	chr19	48525507	48525507	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	attattttaactgcactaacGaaggatcaaaggagaacctt	7	7	1	1	rs2303690	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr19:48525507G>A	ENST00000339841.2	+	6	773	c.595G>A	c.(595-597)Gaa>Aaa	p.E199K	ELSPBP1_ENST00000597519.1_Missense_Mutation_p.E51K	NM_022142.4	NP_071425.3	Q96BH3	ESPB1_HUMAN	epididymal sperm binding protein 1	199	Fibronectin type-II 4. {ECO:0000255|PROSITE-ProRule:PRU00479}.		E -> K (in dbSNP:rs2303690). {ECO:0000269|PubMed:11144225, ECO:0000269|PubMed:15489334, ECO:0000269|Ref.2}.		single fertilization (GO:0007338)	extracellular region (GO:0005576)				NS(1)|breast(1)|kidney(1)|large_intestine(1)|lung(6)	10		all_cancers(25;8.7e-09)|all_lung(116;1.15e-06)|all_epithelial(76;1.17e-06)|Lung NSC(112;2.56e-06)|all_neural(266;0.0138)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000253)|all cancers(93;0.00129)|Epithelial(262;0.0314)|GBM - Glioblastoma multiforme(486;0.0606)		CTGCACTAACGAAGGATCAAA	0.458													a|||	3432	0.685304	0.6672	0.719	5008	,	,		21670	0.8671		0.5696	False		,,,				2504	0.6176															0								A	LYS/GLU	2699,1707	514.5+/-368.7	854,991,358	172	160	164		595	1.5	0	19	dbSNP_100	164	4879,3721	530.3+/-381.8	1393,2093,814	yes	missense	ELSPBP1	NM_022142.4	56	2247,3084,1172	AA,AG,GG		43.2674,38.7426,41.7346	benign	199/224	48525507	7578,5428	2203	4300	6503	SO:0001583	missense	64100			AJ278478	CCDS12708.1	19q13.33	2009-09-17							14417	protein-coding gene	gene with protein product	"epididymal protein 12"	607443					Standard	NM_022142		Approved	HE12, E12, EDDM12	uc002pht.3	Q96BH3		ENST00000339841.2:c.595G>A	19.37:g.48525507G>A	ENSP00000340660:p.Glu199Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q96RT0|Q9H4C8	Missense_Mutation	SNP	ENST00000339841.2	37	CCDS12708.1	1512	0.6923076923076923	325	0.6605691056910569	242	0.6685082872928176	497	0.8688811188811189	448	0.5910290237467019	A	1.554	-0.538579	0.04053	0.612574	0.567326	ENSG00000169393	ENST00000339841	T	0.52295	0.67	3.66	1.54	0.23209	Fibronectin, type II, collagen-binding (5);Kringle-like fold (1);	0.248846	0.28031	N	0.016863	T	0.00012	0.0000	N	0.20401	0.57	0.80722	P	0.0	B	0.14805	0.011	B	0.15870	0.014	T	0.44651	-0.9314	9	0.02654	T	1	.	3.8049	0.08773	0.4456:0.2051:0.3493:0.0	rs2303690;rs17845467;rs17858345;rs59769918;rs2303690	199	Q96BH3	ESPB1_HUMAN	K	199	ENSP00000340660:E199K	ENSP00000340660:E199K	E	+	1	0	ELSPBP1	53217319	0.439000	0.25610	0.044000	0.18714	0.012000	0.07955	0.521000	0.22893	0.108000	0.17862	-0.308000	0.09152	GAA		0.458	ELSPBP1-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465207.1			A	48525507	G	A	48525507	3	1	629	1	0	0	0	0	1	0	0	0	5085	1059	37	1	613	1	ELSPBP1	19	48525507	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10	4940233	48525507	10603476	69	38765										
ZNF415	55786	broad.mit.edu	37	chr19	53619570	53619570	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	agaaaattatcctcacccagGgagaccaggttcctgtagtt	9	10	1	2			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr19:53619570G>T	ENST00000455735.2	-	4	390	c.70C>A	c.(70-72)Cct>Act	p.P24T	ZNF415_ENST00000448501.1_Missense_Mutation_p.P24T|ZNF415_ENST00000595813.1_Silent_p.S44S|ZNF415_ENST00000596683.1_5'UTR|ZNF415_ENST00000440291.1_5'UTR|ZNF415_ENST00000601493.1_Intron|ZNF415_ENST00000597748.1_Silent_p.S44S|ZNF415_ENST00000597503.1_Silent_p.S44S|ZNF415_ENST00000243643.4_Silent_p.S44S|ZNF415_ENST00000601215.1_Intron|ZNF415_ENST00000500065.4_Silent_p.S44S|ZNF415_ENST00000595193.1_Silent_p.S44S|ZNF415_ENST00000599261.1_Silent_p.S44S|ZNF415_ENST00000594011.1_Silent_p.S44S|ZNF415_ENST00000600574.1_Silent_p.S44S|ZNF415_ENST00000421033.1_Missense_Mutation_p.P24T			Q09FC8	ZN415_HUMAN	zinc finger protein 415	24					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|microtubule cytoskeleton (GO:0015630)|nucleolus (GO:0005730)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|kidney(3)|large_intestine(8)|lung(11)|ovary(2)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	31				GBM - Glioblastoma multiforme(134;0.0191)		CCTCACCCAGGGAGACCAGGT	0.468																																																0													112	113	113					19																	53619570		2203	4300	6503	SO:0001583	missense	55786			AK002053	CCDS12860.1, CCDS54313.1	19q13.42	2014-03-18			ENSG00000170954	ENSG00000170954		"Zinc fingers, C2H2-type", "-"	20636	protein-coding gene	gene with protein product						14702039	Standard	NM_001136038		Approved		uc002qaw.3	Q09FC8	OTTHUMG00000182865	ENST00000455735.2:c.70C>A	19.37:g.53619570G>T	ENSP00000388787:p.Pro24Thr	Somatic		WXS	Illumina HiSeq	Phase_I	F5H287|Q09FC7|Q09FC9|Q09FD0|Q6NSZ2|Q6P3S0|Q9NUR2	Silent	SNP	ENST00000455735.2	37		.	.	.	.	.	.	.	.	.	.	G	15.11	2.736104	0.49045	.	.	ENSG00000170954	ENST00000448501;ENST00000421033;ENST00000455735	T;T;T	0.21191	2.51;2.02;2.51	2.95	-0.803	0.10886	.	.	.	.	.	T	0.12689	0.0308	.	.	.	0.28510	N	0.913607	P;P;P	0.46512	0.808;0.808;0.879	B;B;B	0.36885	0.118;0.118;0.235	T	0.19321	-1.0309	8	0.87932	D	0	.	5.3206	0.15879	0.4892:0.0:0.5108:0.0	.	24;24;24	B3KTG1;Q09FC8;Q09FC8-2	.;ZN415_HUMAN;.	T	24	ENSP00000396492:P24T;ENSP00000395055:P24T;ENSP00000388787:P24T	ENSP00000395055:P24T	P	-	1	0	ZNF415	58311382	0.000000	0.05858	0.866000	0.34008	0.950000	0.60333	-2.807000	0.00757	0.056000	0.16144	0.462000	0.41574	CCT		0.468	ZNF415-204	KNOWN	basic	protein_coding	protein_coding		NM_018355		T	53619570	G	T	53619570	3	4	629	1	0	0	0	0	1	0	0	0	17904	1219	43	4	1543	4	ZNF415	19	53619570	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10	5094063	53619570	5509413	70	38766										
EPS8L1	54869	hgsc.bcm.edu;bcgsc.ca	37	chr19	55598783	55598783	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gtgtgtacagccaggtcaccGtgcagcgctcgctgctggag	15	12	1	0			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr19:55598783G>T	ENST00000201647.6	+	19	2121	c.2065G>T	c.(2065-2067)Gtg>Ttg	p.V689L	EPS8L1_ENST00000588359.1_Missense_Mutation_p.V375L|EPS8L1_ENST00000245618.5_Missense_Mutation_p.V562L|EPS8L1_ENST00000540810.1_Missense_Mutation_p.V625L|EPS8L1_ENST00000586329.1_Intron	NM_133180.2	NP_573441.2	Q8TE68	ES8L1_HUMAN	EPS8-like 1	689					positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of ruffle assembly (GO:1900029)|regulation of Rho protein signal transduction (GO:0035023)|Rho protein signal transduction (GO:0007266)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|protein complex (GO:0043234)|ruffle membrane (GO:0032587)	actin binding (GO:0003779)|T cell receptor binding (GO:0042608)			NS(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|liver(2)|lung(3)|ovary(1)|prostate(1)	12			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		CCAGGTCACCGTGCAGCGCTC	0.677																																					Ovarian(149;255 1863 3636 27051 29647)											0													59	61	60					19																	55598783		2203	4299	6502	SO:0001583	missense	54869			AK057052	CCDS12914.1, CCDS12915.1	19q13.42	2008-02-05				ENSG00000131037			21295	protein-coding gene	gene with protein product		614987				12620401	Standard	NM_133180		Approved	FLJ20258, DRC3, MGC23164, MGC4642	uc002qis.4	Q8TE68		ENST00000201647.6:c.2065G>T	19.37:g.55598783G>T	ENSP00000201647:p.Val689Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q71RE2|Q8NC10|Q96BB7|Q9BSQ2|Q9GZQ2|Q9NXH0	Missense_Mutation	SNP	ENST00000201647.6	37	CCDS12914.1	.	.	.	.	.	.	.	.	.	.	G	26.6	4.754167	0.89843	.	.	ENSG00000131037	ENST00000201647;ENST00000540810;ENST00000245618;ENST00000539118	T;T;T	0.27720	1.65;1.65;1.65	3.79	3.79	0.43588	.	0.073437	0.52532	D	0.000063	T	0.47173	0.1431	L	0.51914	1.62	0.58432	D	0.999999	D;D;P	0.67145	0.996;0.992;0.941	D;P;P	0.79108	0.992;0.875;0.72	T	0.37526	-0.9702	10	0.37606	T	0.19	-25.4363	13.9264	0.63966	0.0:0.0:1.0:0.0	.	468;562;689	Q8TE68-4;Q8TE68-2;Q8TE68	.;.;ES8L1_HUMAN	L	689;625;562;375	ENSP00000201647:V689L;ENSP00000437541:V625L;ENSP00000245618:V562L	ENSP00000201647:V689L	V	+	1	0	EPS8L1	60290595	1.000000	0.71417	0.910000	0.35882	0.600000	0.36913	5.846000	0.69444	2.060000	0.61445	0.313000	0.20887	GTG		0.677	EPS8L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451713.1	NM_017729		T	55598783	G	T	55598783	3	4	629	1	0	0	0	0	1	0	0	0	5197	1145	40	4	2187	4	EPS8L1	19	55598783	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10	1979213	55598783	3530200	71	38767										
B4GALT5	9334	ucsc.edu	37	chr20	48330133	48330133	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	ctatgccgggcgccacatagAcgaagtacagcagcgaggac	13	12	0	1			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr20:48330133A>G	ENST00000371711.4	-	1	282	c.95T>C	c.(94-96)gTc>gCc	p.V32A		NM_004776.3	NP_004767.1	O43286	B4GT5_HUMAN	UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 5	32					carbohydrate metabolic process (GO:0005975)|cellular protein metabolic process (GO:0044267)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate metabolic process (GO:0042339)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	galactosyltransferase activity (GO:0008378)|metal ion binding (GO:0046872)			breast(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(8)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	20			BRCA - Breast invasive adenocarcinoma(9;2.51e-06)			CGCCACATAGACGAAGTACAG	0.706																																																0													9	12	11					20																	48330133		2165	4274	6439	SO:0001583	missense	9334			AB004550	CCDS13420.1	20q13.1-q13.2	2013-02-19			ENSG00000158470	ENSG00000158470		"Beta 4-glycosyltransferases"	928	protein-coding gene	gene with protein product	"beta4-GalT IV"	604016				9597550, 9435216	Standard	NM_004776		Approved	beta4GalT-V	uc002xuu.4	O43286	OTTHUMG00000033086	ENST00000371711.4:c.95T>C	20.37:g.48330133A>G	ENSP00000360776:p.Val32Ala	Somatic		WXS	Illumina HiSeq	Phase_I	E1P625|Q2M394|Q9UJQ8	Missense_Mutation	SNP	ENST00000371711.4	37	CCDS13420.1	.	.	.	.	.	.	.	.	.	.	A	12.88	2.071871	0.36566	.	.	ENSG00000158470	ENST00000371711	T	0.43688	0.94	2.7	2.7	0.31948	.	0.229171	0.36854	U	0.002371	T	0.30479	0.0766	L	0.36672	1.1	0.35194	D	0.773674	B	0.09022	0.002	B	0.08055	0.003	T	0.32666	-0.9898	10	0.39692	T	0.17	-1.105	9.6737	0.40028	1.0:0.0:0.0:0.0	.	32	O43286	B4GT5_HUMAN	A	32	ENSP00000360776:V32A	ENSP00000360776:V32A	V	-	2	0	B4GALT5	47763540	1.000000	0.71417	1.000000	0.80357	0.556000	0.35491	1.967000	0.40491	1.098000	0.41479	0.164000	0.16699	GTC		0.706	B4GALT5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080543.3	NM_004776		G	48330133	A	G	48330133	3	3	629	1	0	0	0	0	1	0	0	0	1274	275	10	3	1107	3	B4GALT5	20	48330133	Missense_Mutation	SNP	A	TCGA-KL-8330-01A-11D-2310-10		48330133	14695387	72	38768										
SLCO4A1	28231	broad.mit.edu	37	chr20	61292501	61292501	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gaggcgagcaacccggacttTgggaaaaccatcagagacct	12	11	1	1			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr20:61292501T>G	ENST00000370507.1	+	4	1191	c.1095T>G	c.(1093-1095)ttT>ttG	p.F365L	RP11-93B14.5_ENST00000451648.1_RNA|RP11-93B14.5_ENST00000411824.1_RNA|RP11-93B14.5_ENST00000433126.1_RNA|SLCO4A1_ENST00000217159.1_Missense_Mutation_p.F365L			Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family, member 4A1	365					sodium-independent organic anion transport (GO:0043252)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			endometrium(6)|kidney(2)|large_intestine(1)|lung(7)|ovary(3)|prostate(2)	21	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)		Benzylpenicillin(DB01053)|Conjugated Estrogens(DB00286)|Dextrothyroxine(DB00509)|Digoxin(DB00390)|Dinoprostone(DB00917)|Estradiol(DB00783)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Liotrix(DB01583)	ACCCGGACTTTGGGAAAACCA	0.597																																					Pancreas(168;741 2006 10379 40139 45334)											0													79	71	74					20																	61292501		2203	4300	6503	SO:0001583	missense	28231			AB031051	CCDS13501.1	20q13.1	2013-05-22	2003-11-25	2003-11-26	ENSG00000101187	ENSG00000101187		"Solute carriers"	10953	protein-coding gene	gene with protein product		612436	"solute carrier family 21 (organic anion transporter), member 12"	SLC21A12		10873595	Standard	NM_016354		Approved	OATP-E, OATP4A1	uc002ydb.1	Q96BD0	OTTHUMG00000032923	ENST00000370507.1:c.1095T>G	20.37:g.61292501T>G	ENSP00000359538:p.Phe365Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H4T7|Q9H4T8|Q9H8P2|Q9NWX8|Q9UI35|Q9UIG7	Missense_Mutation	SNP	ENST00000370507.1	37	CCDS13501.1	.	.	.	.	.	.	.	.	.	.	t	10.30	1.313437	0.23908	.	.	ENSG00000101187	ENST00000217159;ENST00000370512;ENST00000370507	T;T	0.38077	1.16;1.16	4.25	0.186	0.15105	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.000000	0.85682	D	0.000000	T	0.22513	0.0543	L	0.28694	0.88	0.44092	D	0.996859	B	0.09022	0.002	B	0.20384	0.029	T	0.10660	-1.0620	10	0.16896	T	0.51	.	10.1154	0.42587	0.0:0.169:0.0:0.831	.	365	Q96BD0	SO4A1_HUMAN	L	365	ENSP00000217159:F365L;ENSP00000359538:F365L	ENSP00000217159:F365L	F	+	3	2	SLCO4A1	60762946	0.985000	0.35326	0.380000	0.26093	0.056000	0.15407	0.095000	0.15127	-0.276000	0.09206	-0.404000	0.06349	TTT		0.597	SLCO4A1-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080048.2	NM_016354		G	61292501	T	G	61292501	3	3	629	1	0	0	0	0	1	0	0	0	14742	1809	63	5	1109	5	SLCO4A1	20	61292501	Missense_Mutation	SNP	T	TCGA-KL-8330-01A-11D-2310-10	12962368	61292501	1733019	73	38769										
GSC2	2928	hgsc.bcm.edu;mdanderson.org	37	chr22	19137290	19137290	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gcctgcagctgctcttcgctGaagatggtgcggtggcgcct	15	12	1	2	rs201641909	byFrequency	TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chr22:19137290G>A	ENST00000086933.2	-	2	398	c.399C>T	c.(397-399)ttC>ttT	p.F133F		NM_005315.1	NP_005306.1	O15499	GSC2_HUMAN	goosecoid homeobox 2	133					anatomical structure morphogenesis (GO:0009653)|regulation of transcription from RNA polymerase II promoter (GO:0006357)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|large_intestine(1)|lung(2)	4	Colorectal(54;0.0993)					GCTCTTCGCTGAAGATGGTGC	0.716													g|||	8	0.00159744	0.0053	0.0014	5008	,	,		8606	0.0		0.0	False		,,,				2504	0.0															0										4,4216		0,4,2106	8	10	10		399	3.5	1	22		10	0,8348		0,0,4174	no	coding-synonymous	GSC2	NM_005315.1		0,4,6280	AA,AG,GG		0.0,0.0948,0.0318		133/206	19137290	4,12564	2110	4174	6284	SO:0001819	synonymous_variant	2928				CCDS13757.1	22q11.21	2011-06-20	2007-08-28	2007-08-28	ENSG00000063515	ENSG00000063515		"Homeoboxes / PRD class"	4613	protein-coding gene	gene with protein product		601845	"goosecoid-like"	GSCL		9150167	Standard	NM_005315		Approved		uc011ags.2	O15499	OTTHUMG00000150122	ENST00000086933.2:c.399C>T	22.37:g.19137290G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000086933.2	37	CCDS13757.1																																																																																				0.716	GSC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316440.2	NM_005315		A	19137290	G	A	19137290	2	1	629	1	0	0	0	0	0	0	0	1	6822	1281	45	2		2	GSC2	22	19137290	Silent	SNP	G	TCGA-KL-8330-01A-11D-2310-10		19137290	32167276	74	38770										
DMD	1756	broad.mit.edu;bcgsc.ca	37	chrX	32408279	32408279	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	ctaaactgatctcatgacttGtcaaatcagattggattttc	6	8	3	3			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chrX:32408279G>T	ENST00000357033.4	-	31	4459	c.4253C>A	c.(4252-4254)aCa>aAa	p.T1418K	DMD_ENST00000378677.2_Missense_Mutation_p.T1414K	NM_000109.3|NM_004006.2|NM_004011.3|NM_004012.3|NM_004014.2	NP_000100.2|NP_003997|NP_004002.2|NP_004003.1|NP_004005.1	P11532	DMD_HUMAN	dystrophin	1418	Interaction with SYNM. {ECO:0000250}.				cardiac muscle cell action potential (GO:0086001)|cardiac muscle contraction (GO:0060048)|cellular protein complex assembly (GO:0043623)|cellular protein localization (GO:0034613)|extracellular matrix organization (GO:0030198)|motile cilium assembly (GO:0044458)|muscle filament sliding (GO:0030049)|muscle organ development (GO:0007517)|negative regulation of peptidyl-cysteine S-nitrosylation (GO:1902083)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|peptide biosynthetic process (GO:0043043)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of neuron projection development (GO:0010976)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of cellular response to growth factor stimulus (GO:0090287)|regulation of heart rate (GO:0002027)|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0010880)|regulation of ryanodine-sensitive calcium-release channel activity (GO:0060314)|regulation of skeletal muscle contraction (GO:0014819)|regulation of skeletal muscle contraction by regulation of release of sequestered calcium ion (GO:0014809)|regulation of voltage-gated calcium channel activity (GO:1901385)	cell junction (GO:0030054)|cell surface (GO:0009986)|costamere (GO:0043034)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|dystrophin-associated glycoprotein complex (GO:0016010)|filopodium (GO:0030175)|filopodium membrane (GO:0031527)|membrane raft (GO:0045121)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|protein complex (GO:0043234)|sarcolemma (GO:0042383)|syntrophin complex (GO:0016013)	actin binding (GO:0003779)|calcium ion binding (GO:0005509)|dystroglycan binding (GO:0002162)|myosin binding (GO:0017022)|nitric-oxide synthase binding (GO:0050998)|structural constituent of cytoskeleton (GO:0005200)|structural constituent of muscle (GO:0008307)|vinculin binding (GO:0017166)|zinc ion binding (GO:0008270)	p.T1414R(1)|p.T77R(1)|p.T1418R(1)|p.T1413R(1)		NS(2)|breast(3)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(17)|liver(1)|lung(25)|ovary(3)|pancreas(3)|prostate(2)|skin(1)|urinary_tract(2)	77		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)				CTCATGACTTGTCAAATCAGA	0.388																																																4	Substitution - Missense(4)	lung(4)											133	106	115					X																	32408279		2202	4300	6502	SO:0001583	missense	1756			AF047505	CCDS14231.1, CCDS14232.1, CCDS14233.1, CCDS14234.1, CCDS48091.1, CCDS55394.1, CCDS55395.1, CCDS75965.1	Xp21.2	2014-09-17	2008-08-01		ENSG00000198947	ENSG00000198947			2928	protein-coding gene	gene with protein product	"muscular dystrophy, Duchenne and Becker types"	300377	"dystrophin (muscular dystrophy, Duchenne and Becker types), includes DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272", "mental retardation, X-linked 85"	MRX85		3282674, 3607877, 23900271	Standard	NM_004019		Approved	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272	uc004dda.1	P11532	OTTHUMG00000021336	ENST00000357033.4:c.4253C>A	X.37:g.32408279G>T	ENSP00000354923:p.Thr1418Lys	Somatic		WXS	Illumina HiSeq	Phase_I	E9PDN1|Q02295|Q14169|Q14170|Q5JYU0|Q6NSJ9|Q7KZ48|Q8N754|Q9UCW3|Q9UCW4	Missense_Mutation	SNP	ENST00000357033.4	37	CCDS14233.1	.	.	.	.	.	.	.	.	.	.	G	15.62	2.887785	0.52014	.	.	ENSG00000198947	ENST00000534884;ENST00000378682;ENST00000378684;ENST00000378677;ENST00000357033;ENST00000542849;ENST00000535280	T;T	0.20738	2.05;2.05	5.77	5.77	0.91146	.	0.000000	0.38058	U	0.001840	T	0.19446	0.0467	L	0.44542	1.39	0.80722	D	1	P;B;P;P;P	0.45827	0.867;0.014;0.791;0.596;0.596	B;B;B;B;B	0.42282	0.382;0.008;0.212;0.154;0.154	T	0.02484	-1.1152	10	0.19147	T	0.46	.	12.5325	0.56124	0.0781:0.0:0.9219:0.0	.	1410;1418;1414;77;74	P11532-4;P11532;E9PDN5;E7EQS7;E7EQS6	.;DMD_HUMAN;.;.;.	K	1410;77;74;1414;1418;1418;1295	ENSP00000367948:T1414K;ENSP00000354923:T1418K	ENSP00000354923:T1418K	T	-	2	0	DMD	32318200	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	3.241000	0.51376	2.557000	0.86248	0.594000	0.82650	ACA		0.388	DMD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056182.2	NM_004006		T	32408279	G	T	32408279	3	4	629	1	0	0	0	0	1	0	0	0	4582	1377	48	4	7148	4	DMD	23	32408279	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10		32408279	122862281	75	38771										
THOC2	57187	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	122759902	122759902	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gctgtagaaattttgtgatgGtctcatttttggtagattct	10	4	2	3			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chrX:122759902G>A	ENST00000245838.8	-	25	2949	c.2918C>T	c.(2917-2919)aCc>aTc	p.T973I	THOC2_ENST00000491737.1_Missense_Mutation_p.T858I|THOC2_ENST00000355725.4_Missense_Mutation_p.T973I	NM_001081550.1	NP_001075019.1	Q8NI27	THOC2_HUMAN	THO complex 2	973					mRNA export from nucleus (GO:0006406)|mRNA processing (GO:0006397)|poly(A)+ mRNA export from nucleus (GO:0016973)|RNA splicing (GO:0008380)|viral mRNA export from host cell nucleus (GO:0046784)	THO complex (GO:0000347)|THO complex part of transcription export complex (GO:0000445)|transcription export complex (GO:0000346)	RNA binding (GO:0003723)			breast(2)|endometrium(13)|kidney(4)|large_intestine(11)|lung(26)|ovary(3)|skin(1)|upper_aerodigestive_tract(3)	63						TTTTGTGATGGTCTCATTTTT	0.343																																																0													68	59	62					X																	122759902		1805	4069	5874	SO:0001583	missense	57187			AF441770	CCDS43988.1	Xq25-q26.3	2013-02-11	2004-08-09		ENSG00000125676	ENSG00000125676		"THO complex subunits"	19073	protein-coding gene	gene with protein product		300395	"chromosome X open reading frame 3"	CXorf3		11979277	Standard	NM_001081550		Approved	THO2, dJ506G2.1	uc004etu.3	Q8NI27	OTTHUMG00000022334	ENST00000245838.8:c.2918C>T	X.37:g.122759902G>A	ENSP00000245838:p.Thr973Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NM50|Q5JZ12|Q6IN92|Q9H8I6	Missense_Mutation	SNP	ENST00000245838.8	37	CCDS43988.1	.	.	.	.	.	.	.	.	.	.	G	21.9	4.220729	0.79464	.	.	ENSG00000125676	ENST00000245838;ENST00000355725;ENST00000491737	T;T;T	0.22539	1.95;1.95;1.95	5.83	5.83	0.93111	THO complex, subunitTHOC2, C-terminal (1);	0.000000	0.64402	D	0.000001	T	0.41949	0.1181	L	0.61036	1.89	0.80722	D	1	D	0.59767	0.986	P	0.60609	0.877	T	0.04900	-1.0919	10	0.27785	T	0.31	-5.9519	19.0992	0.93266	0.0:0.0:1.0:0.0	.	973	Q8NI27	THOC2_HUMAN	I	973;973;858	ENSP00000245838:T973I;ENSP00000347959:T973I;ENSP00000419795:T858I	ENSP00000245838:T973I	T	-	2	0	THOC2	122587583	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.810000	0.99221	2.460000	0.83146	0.600000	0.82982	ACC		0.343	THOC2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058153.3			A	122759902	G	A	122759902	3	1	629	1	0	0	0	0	1	0	0	0	15877	1261	44	2	1919	2	THOC2	23	122759902	Missense_Mutation	SNP	G	TCGA-KL-8330-01A-11D-2310-10	90351623	122759902	32510658	76	38772										
RBMX	27316	hgsc.bcm.edu	37	chrX	135956574	135956574	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	ctgcttccaccataagatggCgggggccctcgtgtaggtgg	15	11	0	1			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chrX:135956574C>G	ENST00000320676.7	-	9	1057	c.903G>C	c.(901-903)ccG>ccC	p.P301P	RBMX_ENST00000562646.1_3'UTR|RBMX_ENST00000565438.1_Silent_p.P173P|RBMX_ENST00000570135.1_Silent_p.P166P|RBMX_ENST00000431446.3_Intron|RBMX_ENST00000496459.2_5'Flank	NM_002139.3	NP_002130.2	P38159	RBMX_HUMAN	RNA binding motif protein, X-linked	301					cellular response to interleukin-1 (GO:0071347)|gene expression (GO:0010467)|membrane protein ectodomain proteolysis (GO:0006509)|mRNA splicing, via spliceosome (GO:0000398)|negative regulation of mRNA splicing, via spliceosome (GO:0048025)|osteoblast differentiation (GO:0001649)|positive regulation of mRNA splicing, via spliceosome (GO:0048026)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein homooligomerization (GO:0051260)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|RNA splicing (GO:0008380)|transcription from RNA polymerase II promoter (GO:0006366)	catalytic step 2 spliceosome (GO:0071013)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nuclear euchromatin (GO:0005719)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)|supraspliceosomal complex (GO:0044530)	chromatin binding (GO:0003682)|core promoter binding (GO:0001047)|mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			NS(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|large_intestine(2)|lung(12)|ovary(2)|pancreas(1)|prostate(2)|urinary_tract(1)	33	Acute lymphoblastic leukemia(192;0.000127)					CATAAGATGGCGGGGGCCCTC	0.463																																																0													92	86	88					X																	135956574		2203	4300	6503	SO:0001819	synonymous_variant	27316				CCDS14661.1, CCDS55510.1	Xq26	2013-05-23	2003-09-12		ENSG00000147274	ENSG00000147274		"RNA binding motif (RRM) containing"	9910	protein-coding gene	gene with protein product	"heterogeneous nuclear ribonucleoprotein G"	300199	"RNA binding motif protein, X chromosome"			10391206, 10391207	Standard	NM_002139		Approved	RNMX, hnRNP-G, HNRNPG	uc004fae.2	P38159	OTTHUMG00000022517	ENST00000320676.7:c.903G>C	X.37:g.135956574C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4E3U4|D3DWH0|E9PG86|Q5JQ67|Q8N8Y7|Q969R3	Silent	SNP	ENST00000320676.7	37	CCDS14661.1																																																																																				0.463	RBMX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058507.1	NM_002139		G	135956574	C	G	135956574	2	3	629	1	0	0	0	0	0	0	0	1	13164	755	27	4		4	RBMX	23	135956574	Silent	SNP	C	TCGA-KL-8330-01A-11D-2310-10	13196672	135956574	19313986	77	38773										
MTM1	4534	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	149764981	149764981	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0133333333333333	1	1	0.290027958993476	0	0.400514800514801	1	1	0	gacgtctcgagatggagtcaAtcgagatctcactgaggctg	13	9	3	3			TCGA-KL-8330-01A-11D-2310-10	TCGA-KL-8330-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	09537dce-c797-4b60-962a-d4c3cd6ab00a	1d82038a-3a67-4b82-8e8d-5ba2c855b563	g.chrX:149764981A>G	ENST00000370396.2	+	3	137	c.83A>G	c.(82-84)aAt>aGt	p.N28S	MTM1_ENST00000542741.1_5'UTR|MTM1_ENST00000306167.7_3'UTR|MTM1_ENST00000543350.1_5'UTR|MTM1_ENST00000413012.2_Missense_Mutation_p.N28S	NM_000252.2	NP_000243.1	Q13496	MTM1_HUMAN	myotubularin 1	28					endosome to lysosome transport (GO:0008333)|intermediate filament organization (GO:0045109)|mitochondrion distribution (GO:0048311)|mitochondrion morphogenesis (GO:0070584)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phospholipid metabolic process (GO:0006644)|protein dephosphorylation (GO:0006470)|protein transport (GO:0015031)|regulation of vacuole organization (GO:0044088)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|late endosome (GO:0005770)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	intermediate filament binding (GO:0019215)|phosphatidylinositol binding (GO:0035091)|phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity (GO:0052629)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|phosphoprotein phosphatase activity (GO:0004721)|protein tyrosine phosphatase activity (GO:0004725)			breast(2)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(4)|liver(1)|lung(10)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	26	Acute lymphoblastic leukemia(192;6.56e-05)					GATGGAGTCAATCGAGATCTC	0.418																																																0													143	113	123					X																	149764981		2203	4300	6503	SO:0001583	missense	4534			U46024	CCDS14694.1	Xq27.3-q28	2014-09-17			ENSG00000171100	ENSG00000171100		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	7448	protein-coding gene	gene with protein product		300415	"myotubular myopathy 1"				Standard	NM_000252		Approved		uc004fef.4	Q13496	OTTHUMG00000024158	ENST00000370396.2:c.83A>G	X.37:g.149764981A>G	ENSP00000359423:p.Asn28Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDB1|B7Z491|F2Z330|Q8NEL1	Missense_Mutation	SNP	ENST00000370396.2	37	CCDS14694.1	.	.	.	.	.	.	.	.	.	.	A	9.073	0.997307	0.19043	.	.	ENSG00000171100	ENST00000370396;ENST00000424519;ENST00000413012	D;D;D	0.95821	-3.82;-3.5;-3.82	5.68	-4.87	0.03123	.	0.547300	0.21719	N	0.070141	D	0.85186	0.5639	N	0.13235	0.315	0.19575	N	0.999969	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.001	T	0.74569	-0.3622	10	0.27785	T	0.31	.	5.7616	0.18203	0.4035:0.4309:0.0684:0.0973	.	28;28	B7Z491;Q13496	.;MTM1_HUMAN	S	28	ENSP00000359423:N28S;ENSP00000400699:N28S;ENSP00000389157:N28S	ENSP00000359423:N28S	N	+	2	0	MTM1	149515639	0.414000	0.25408	0.000000	0.03702	0.693000	0.40251	1.427000	0.34881	-0.704000	0.05042	-0.508000	0.04489	AAT		0.418	MTM1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060847.3	NM_000252		G	149764981	A	G	149764981	3	3	629	1	0	0	0	0	1	0	0	0	9944	101	4	3	89	3	MTM1	23	149764981	Missense_Mutation	SNP	A	TCGA-KL-8330-01A-11D-2310-10	13808407	149764981	5505579	78	38774										
C1orf177	163747	hgsc.bcm.edu	37	chr1	55273584	55273584	+	Frame_Shift_Del	DEL	C	C	-													0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gcaaaagctgggccccggctCctacaacctcaaagacttct							TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr1:55273584delC	ENST00000371273.3	+	4	395	c.380delC	c.(379-381)tccfs	p.S127fs	C1orf177_ENST00000358193.3_Frame_Shift_Del_p.S127fs	NM_001110533.1	NP_001104003	Q3ZCV2	CA177_HUMAN	chromosome 1 open reading frame 177	127										breast(1)|cervix(1)|kidney(1)|large_intestine(6)|lung(6)|prostate(2)	17						GGCCCCGGCTCCTACAACCTC	0.552																																																0													71	81	78					1																	55273584		2203	4300	6503	SO:0001589	frameshift_variant	163747			AK097520	CCDS599.1, CCDS44153.1	1p32.3	2012-07-25			ENSG00000162398	ENSG00000162398			26854	protein-coding gene	gene with protein product							Standard	NM_152607		Approved	FLJ40201	uc001cyb.4	Q3ZCV2	OTTHUMG00000009986	ENST00000371273.3:c.380delC	1.37:g.55273584delC	ENSP00000360320:p.Ser127fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7WPL2|Q8N7Y9	Frame_Shift_Del	DEL	ENST00000371273.3	37	CCDS44153.1																																																																																				0.552	C1orf177-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000027674.1	NM_152607		-	55273584	C	-	55273584	7	5	630	1	0	1	0	1	0	0	0	0	2019	855	30	0	394	0	C1orf177	1	55273584	Frame_Shift_Del	DEL	C	TCGA-KL-8331-01A-11D-2310-10		55273584	193977037	1	38775										
PDE4DIP	9659	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	144931626	144931626	+	Intron	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gcgaaagcagaacctggagaTtgagcttggacgccgtgtgg	16	8	0	3	rs79158320	byFrequency	TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr1:144931626T>C	ENST00000369354.3	-	6	826				PDE4DIP_ENST00000369351.3_Intron|PDE4DIP_ENST00000369349.3_Intron|PDE4DIP_ENST00000313431.9_Missense_Mutation_p.N28S|PDE4DIP_ENST00000369356.4_Intron|PDE4DIP_ENST00000313382.9_Intron|PDE4DIP_ENST00000479408.2_Intron|PDE4DIP_ENST00000369359.4_Intron|PDE4DIP_ENST00000530740.1_Intron|PDE4DIP_ENST00000529945.1_Missense_Mutation_p.N28S			Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein						cellular protein complex assembly (GO:0043623)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|myofibril (GO:0030016)|nucleus (GO:0005634)	enzyme binding (GO:0019899)			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(12)|lung(106)|ovary(8)|prostate(7)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	176				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		AACCTGGAGATTGAGCTTGGA	0.567			T	PDGFRB	MPD								T|||	49	0.00978435	0.0325	0.0058	5008	,	,		34556	0.002		0.0	False		,,,				2504	0.0						Dom	yes		1	1q12	9659	phosphodiesterase 4D interacting protein (myomegalin)		L	0								T	SER/ASN,,,,	128,4278	84.4+/-122.9	0,128,2075	65	65	65		83,,,,	5.3	1	1	dbSNP_131	65	3,8597	2.2+/-6.3	0,3,4297	yes	missense,intron,intron,intron,intron	PDE4DIP	NM_001002811.1,NM_001002812.1,NM_001198832.1,NM_001198834.2,NM_014644.4	46,,,,	0,131,6372	CC,CT,TT		0.0349,2.9051,1.0072	,,,,	28/1133,,,,	144931626	131,12875	2203	4300	6503	SO:0001627	intron_variant	9659			AB007923, AB007946	CCDS72887.1, CCDS72888.1, CCDS72889.1, CCDS72890.1, CCDS72891.1, CCDS72892.1, CCDS72893.1, CCDS72894.1	1q21.1	2008-07-31	2008-07-31		ENSG00000178104	ENSG00000178104			15580	protein-coding gene	gene with protein product	"myomegalin"	608117	"cardiomyopathy associated 2"	CMYA2		9455484, 11134006	Standard	NM_022359		Approved	KIAA0477, KIAA0454, MMGL	uc021ouh.1	Q5VU43	OTTHUMG00000013846	ENST00000369354.3:c.637-7805A>G	1.37:g.144931626T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2RU15|O75042|O75065|Q2YDC1|Q5VU42|Q5VU44|Q5VU45|Q5VU46|Q5VU47|Q5VU48|Q5VU49|Q68DU2|Q6AZ93|Q6PK88|Q86T40|Q86TB2|Q8N3W0|Q8TAY9|Q9HCP2|Q9HCP3|Q9HCP4|Q9HCP5	Missense_Mutation	SNP	ENST00000369354.3	37	CCDS30824.1	22	0.010073260073260074	19	0.03861788617886179	1	0.0027624309392265192	2	0.0034965034965034965	0	0.0	T	14.81	2.646949	0.47258	0.029051	3.49E-4	ENSG00000178104	ENST00000369353;ENST00000313431;ENST00000529945	T;T	0.14144	2.53;2.53	5.3	5.3	0.74995	.	.	.	.	.	T	0.08846	0.0219	L	0.42245	1.32	0.80722	D	1	P	0.51537	0.946	P	0.50270	0.636	T	0.19712	-1.0297	9	0.12103	T	0.63	.	13.1866	0.59684	0.0:0.0:0.0:1.0	.	28	Q5VU43-2	.	S	28	ENSP00000316434:N28S;ENSP00000433392:N28S	ENSP00000316434:N28S	N	-	2	0	PDE4DIP	143642983	1.000000	0.71417	1.000000	0.80357	0.947000	0.59692	4.031000	0.57267	1.996000	0.58369	0.379000	0.24179	AAT		0.567	PDE4DIP-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000038858.2	NM_022359		C	144931626	T	C	144931626	1	2	630	0	1	0	0	0	0	0	0	0	11650	1493	52	3		3	PDE4DIP	1	144931626	Intron	SNP	T	TCGA-KL-8331-01A-11D-2310-10	89658042	144931626	104318995	2	38776										
DTL	51514	ucsc.edu	37	chr1	212254059	212254059	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	tttccacggtgggttgggccTctcagaagaaaaaagagtca	12	8	2	3			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr1:212254059T>C	ENST00000366991.4	+	13	1542	c.1228T>C	c.(1228-1230)Tct>Cct	p.S410P	DTL_ENST00000542077.1_Missense_Mutation_p.S368P|DTL_ENST00000475419.1_3'UTR	NM_016448.2	NP_057532.2	Q9NZJ0	DTL_HUMAN	denticleless E3 ubiquitin protein ligase homolog (Drosophila)	410					cellular response to DNA damage stimulus (GO:0006974)|DNA replication (GO:0006260)|G2 DNA damage checkpoint (GO:0031572)|protein monoubiquitination (GO:0006513)|protein polyubiquitination (GO:0000209)|regulation of cell cycle (GO:0051726)|response to UV (GO:0009411)|translesion synthesis (GO:0019985)|ubiquitin-dependent protein catabolic process (GO:0006511)	centrosome (GO:0005813)|chromosome (GO:0005694)|Cul4A-RING E3 ubiquitin ligase complex (GO:0031464)|Cul4B-RING E3 ubiquitin ligase complex (GO:0031465)|cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)				breast(3)|central_nervous_system(1)|endometrium(3)|large_intestine(6)|lung(6)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	23				OV - Ovarian serous cystadenocarcinoma(81;0.00796)|all cancers(67;0.0385)|Epithelial(68;0.102)		GGGTTGGGCCTCTCAGAAGAA	0.418																																																0													123	134	131					1																	212254059		2203	4300	6503	SO:0001583	missense	51514			AF195765	CCDS1502.1, CCDS65778.1	1q32	2013-01-10	2012-02-23		ENSG00000143476	ENSG00000143476		"DDB1 and CUL4 associated factors", "WD repeat domain containing"	30288	protein-coding gene	gene with protein product	"RA regulated nuclear matrix associated protein", "DDB1 and CUL4 associated factor 2"	610617	"denticleless homolog (Drosophila)"			11278750	Standard	NM_001286229		Approved	RAMP, L2DTL, DCAF2	uc009xdc.3	Q9NZJ0	OTTHUMG00000037133	ENST00000366991.4:c.1228T>C	1.37:g.212254059T>C	ENSP00000355958:p.Ser410Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8H8|D3DT98|Q5VT77|Q96SN0|Q9NW03|Q9NW34|Q9NWM5	Missense_Mutation	SNP	ENST00000366991.4	37	CCDS1502.1	.	.	.	.	.	.	.	.	.	.	T	17.64	3.439703	0.63067	.	.	ENSG00000143476	ENST00000366991;ENST00000542077;ENST00000420235	T;T	0.71341	-0.49;-0.56	5.27	5.27	0.74061	.	0.659654	0.16073	N	0.230900	T	0.57198	0.2037	L	0.36672	1.1	0.32356	N	0.557877	P;P;P	0.39717	0.684;0.682;0.627	B;B;B	0.37144	0.242;0.239;0.184	T	0.59611	-0.7422	10	0.02654	T	1	-39.257	14.4635	0.67467	0.0:0.0:0.0:1.0	.	368;410;368	F5GZ90;Q9NZJ0;B4E0E6	.;DTL_HUMAN;.	P	410;368;89	ENSP00000355958:S410P;ENSP00000443870:S368P	ENSP00000355958:S410P	S	+	1	0	DTL	210320682	0.999000	0.42202	1.000000	0.80357	0.977000	0.68977	2.100000	0.41777	2.124000	0.65301	0.529000	0.55759	TCT		0.418	DTL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090182.1	NM_016448		C	212254059	T	C	212254059	3	2	630	1	0	0	0	0	1	0	0	0	4789	1551	54	3	1278	3	DTL	1	212254059	Missense_Mutation	SNP	T	TCGA-KL-8331-01A-11D-2310-10	67322433	212254059	36996562	3	38777										
POTEF	728378	hgsc.bcm.edu;mdanderson.org	37	chr2	130832597	130832597	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	atgatctgggtcatcttctcGcggttggccttagggttcag	13	9	5	1	rs562326654		TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr2:130832597G>A	ENST00000409914.2	-	17	2847	c.2448C>T	c.(2446-2448)cgC>cgT	p.R816R	POTEF_ENST00000357462.5_Silent_p.R816R	NM_001099771.2	NP_001093241.1	A5A3E0	POTEF_HUMAN	POTE ankyrin domain family, member F	816	Actin-like.				retina homeostasis (GO:0001895)	blood microparticle (GO:0072562)|cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)				breast(1)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(4)|lung(28)|ovary(3)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)	53						TCATCTTCTCGCGGTTGGCCT	0.592													.|||	1	0.000199681	0.0	0.0	5008	,	,		20870	0.001		0.0	False		,,,				2504	0.0															0													117	129	125					2																	130832597		2203	4300	6503	SO:0001819	synonymous_variant	728378			EF523384	CCDS46409.1	2q21.1	2013-01-10	2008-11-26	2008-11-26	ENSG00000196604	ENSG00000196604		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33905	protein-coding gene	gene with protein product			"ANKRD26-like family C, member 1B"	A26C1B		17101985	Standard	NM_001099771		Approved	POTEACTIN, POTE2alpha	uc010fmh.2	A5A3E0	OTTHUMG00000153628	ENST00000409914.2:c.2448C>T	2.37:g.130832597G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NC34	Silent	SNP	ENST00000409914.2	37	CCDS46409.1																																																																																				0.592	POTEF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331889.2	NM_001099771		A	130832597	G	A	130832597	2	1	630	1	0	0	0	0	0	0	0	1	12272	1074	38	1		1	POTEF	2	130832597	Silent	SNP	G	TCGA-KL-8331-01A-11D-2310-10		130832597	112366776	4	38778										
SCN2A	6326	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	166211041	166211041	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gcagtgtagaaaaatatgtcGtggatgaaagtgattacatg	12	3	0	3			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr2:166211041G>A	ENST00000375437.2	+	17	3549	c.3259G>A	c.(3259-3261)Gtg>Atg	p.V1087M	SCN2A_ENST00000375427.2_Missense_Mutation_p.V1087M|SCN2A_ENST00000283256.6_Missense_Mutation_p.V1087M|SCN2A_ENST00000357398.3_Missense_Mutation_p.V1087M	NM_001040142.1	NP_001035232.1	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha subunit	1087					intrinsic apoptotic signaling pathway in response to osmotic stress (GO:0008627)|membrane depolarization during action potential (GO:0086010)|myelination (GO:0042552)|neuron apoptotic process (GO:0051402)|neuronal action potential (GO:0019228)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	axon (GO:0030424)|integral component of plasma membrane (GO:0005887)|intercalated disc (GO:0014704)|intrinsic component of plasma membrane (GO:0031226)|node of Ranvier (GO:0033268)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)|sodium channel complex (GO:0034706)|T-tubule (GO:0030315)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)			NS(1)|breast(7)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(27)|liver(2)|lung(49)|ovary(6)|pancreas(1)|prostate(2)|skin(8)|upper_aerodigestive_tract(1)|urinary_tract(2)	118					Lamotrigine(DB00555)|Propofol(DB00818)|Valproic Acid(DB00313)|Zonisamide(DB00909)	AAAATATGTCGTGGATGAAAG	0.378																																																0													112	110	110					2																	166211041		2203	4300	6503	SO:0001583	missense	6326			AB208888	CCDS33313.1, CCDS33314.1	2q24.3	2012-02-26	2007-01-23	2007-01-23	ENSG00000136531	ENSG00000136531		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10588	protein-coding gene	gene with protein product		182390	"sodium channel, voltage-gated, type II, alpha 2 polypeptide", "sodium channel, voltage-gated, type II, alpha 1 polypeptide"	SCN2A1, SCN2A2		1317301, 16382098	Standard	XM_005246753		Approved	Nav1.2, HBSCII, HBSCI	uc002ude.3	Q99250	OTTHUMG00000044172	ENST00000375437.2:c.3259G>A	2.37:g.166211041G>A	ENSP00000364586:p.Val1087Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NC14|A6NIQ5|Q14472|Q53T77|Q9BZC9|Q9BZD0	Missense_Mutation	SNP	ENST00000375437.2	37	CCDS33314.1	.	.	.	.	.	.	.	.	.	.	G	7.286	0.610124	0.14066	.	.	ENSG00000136531	ENST00000375437;ENST00000357398;ENST00000283256;ENST00000375427	D;D;D;D	0.83419	-1.72;-1.72;-1.72;-1.72	5.26	4.26	0.50523	Sodium ion transport-associated (1);	0.221616	0.30979	N	0.008492	T	0.61874	0.2382	N	0.02765	-0.5	0.35063	D	0.761745	B;B	0.14012	0.009;0.008	B;B	0.19391	0.012;0.025	T	0.64188	-0.6466	10	0.25751	T	0.34	.	10.2776	0.43519	0.1701:0.0:0.8299:0.0	.	1087;1087	Q99250-2;Q99250	.;SCN2A_HUMAN	M	1087	ENSP00000364586:V1087M;ENSP00000349973:V1087M;ENSP00000283256:V1087M;ENSP00000364576:V1087M	ENSP00000283256:V1087M	V	+	1	0	SCN2A	165919287	0.995000	0.38212	0.987000	0.45799	0.994000	0.84299	2.576000	0.46033	2.447000	0.82792	0.591000	0.81541	GTG		0.378	SCN2A-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000102659.2	NM_021007		A	166211041	G	A	166211041	3	1	630	1	0	0	0	0	1	0	0	0	13929	1145	40	1	3417	1	SCN2A	2	166211041	Missense_Mutation	SNP	G	TCGA-KL-8331-01A-11D-2310-10	35378444	166211041	76988332	5	38779										
ZFYVE28	57732	ucsc.edu;mdanderson.org	37	chr4	2307125	2307125	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gagagtggcccctcagggggGagaggggcagagagggcagg	23	7	1	3	rs143836367	byFrequency	TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr4:2307125G>A	ENST00000290974.2	-	8	1281	c.942C>T	c.(940-942)ctC>ctT	p.L314L	RP11-478C1.7_ENST00000510632.1_RNA|ZFYVE28_ENST00000511071.1_Silent_p.L284L|ZFYVE28_ENST00000515312.1_Silent_p.L244L	NM_020972.2	NP_066023.2	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	314					negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|negative regulation of epidermal growth factor-activated receptor activity (GO:0007175)	cytosol (GO:0005829)|early endosome membrane (GO:0031901)	metal ion binding (GO:0046872)|phosphatidylinositol-3-phosphate binding (GO:0032266)			NS(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(17)|ovary(1)|pancreas(1)|prostate(1)|skin(4)	31						CCTCAGGGGGGAGAGGGGCAG	0.662																																																0													39	42	41					4																	2307125		2203	4298	6501	SO:0001819	synonymous_variant	57732			AK126692	CCDS33942.1, CCDS54708.1, CCDS54709.1, CCDS54710.1, CCDS54711.1, CCDS54712.1	4p16.3	2008-05-02			ENSG00000159733	ENSG00000159733		"Zinc fingers, FYVE domain containing"	29334	protein-coding gene	gene with protein product		614176				10997877	Standard	NM_020972		Approved	KIAA1643	uc003gex.2	Q9HCC9	OTTHUMG00000160292	ENST00000290974.2:c.942C>T	4.37:g.2307125G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RP83|B3KX50|B7Z1Q7|B7Z2G9|B7Z2M2|B7ZB19|E9PB54|E9PB64|E9PG77|Q7Z6J3	Silent	SNP	ENST00000290974.2	37	CCDS33942.1																																																																																				0.662	ZFYVE28-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000360078.1	XM_035371		A	2307125	G	A	2307125	2	1	630	1	0	0	0	0	0	0	0	1	17682	1161	41	2		2	ZFYVE28	4	2307125	Silent	SNP	G	TCGA-KL-8331-01A-11D-2310-10		2307125	188847151	6	38780										
FGG	2266	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	155529663	155529663	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gttccactcttaatgcatatGggatggcagactgtgtgctt	11	8	1	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr4:155529663G>A	ENST00000336098.3	-	7	844	c.806C>T	c.(805-807)cCa>cTa	p.P269L	FGG_ENST00000405164.1_Missense_Mutation_p.P277L|FGG_ENST00000407946.1_Missense_Mutation_p.P277L|FGG_ENST00000404648.3_Missense_Mutation_p.P269L	NM_021870.2	NP_068656.2	P02679	FIBG_HUMAN	fibrinogen gamma chain	269	Fibrinogen C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00739}.				blood coagulation (GO:0007596)|cell-matrix adhesion (GO:0007160)|cellular protein complex assembly (GO:0043623)|extracellular matrix organization (GO:0030198)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|platelet activation (GO:0030168)|platelet aggregation (GO:0070527)|platelet degranulation (GO:0002576)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of exocytosis (GO:0045921)|positive regulation of heterotypic cell-cell adhesion (GO:0034116)|positive regulation of peptide hormone secretion (GO:0090277)|positive regulation of protein secretion (GO:0050714)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|positive regulation of vasoconstriction (GO:0045907)|protein polymerization (GO:0051258)|response to calcium ion (GO:0051592)|signal transduction (GO:0007165)	blood microparticle (GO:0072562)|cell cortex (GO:0005938)|cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|fibrinogen complex (GO:0005577)|plasma membrane (GO:0005886)|platelet alpha granule (GO:0031091)|platelet alpha granule lumen (GO:0031093)	cell adhesion molecule binding (GO:0050839)|metal ion binding (GO:0046872)|receptor binding (GO:0005102)|structural molecule activity (GO:0005198)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(9)|prostate(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	27	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	TAATGCATATGGGATGGCAGA	0.403																																																0													93	84	87					4																	155529663		2203	4300	6503	SO:0001583	missense	2266				CCDS3788.1, CCDS47153.1	4q28	2014-09-17			ENSG00000171557	ENSG00000171557		"Fibrinogen C domain containing", "Endogenous ligands"	3694	protein-coding gene	gene with protein product		134850	"fibrinogen, gamma polypeptide"				Standard	NM_000509		Approved		uc003ioj.3	P02679	OTTHUMG00000150329	ENST00000336098.3:c.806C>T	4.37:g.155529663G>A	ENSP00000336829:p.Pro269Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K057|P04469|P04470|Q53Y18|Q96A14|Q96KJ3|Q9UC62|Q9UC63|Q9UCF3	Missense_Mutation	SNP	ENST00000336098.3	37	CCDS3788.1	.	.	.	.	.	.	.	.	.	.	G	33	5.268247	0.95429	.	.	ENSG00000171557	ENST00000404648;ENST00000405164;ENST00000336098;ENST00000407946	D;D;D;D	0.97303	-4.33;-4.33;-4.33;-4.33	6.17	6.17	0.99709	Fibrinogen, alpha/beta/gamma chain, C-terminal globular (4);Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1 (1);	0.000000	0.85682	D	0.000000	D	0.98513	0.9504	M	0.78344	2.41	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.97110	1.0;0.999;1.0;1.0;1.0	D	0.98818	1.0746	10	0.87932	D	0	.	20.8794	0.99867	0.0:0.0:1.0:0.0	.	166;277;269;277;269	D3DP16;C9JC84;P02679;C9JEU5;P02679-2	.;.;FIBG_HUMAN;.;.	L	269;277;269;277	ENSP00000384860:P269L;ENSP00000384101:P277L;ENSP00000336829:P269L;ENSP00000384552:P277L	ENSP00000336829:P269L	P	-	2	0	FGG	155749113	1.000000	0.71417	0.998000	0.56505	0.892000	0.51952	9.199000	0.95003	2.941000	0.99782	0.655000	0.94253	CCA		0.403	FGG-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000317581.1	NM_021870		A	155529663	G	A	155529663	3	1	630	1	0	0	0	0	1	0	0	0	5877	1348	47	2	586	2	FGG	4	155529663	Missense_Mutation	SNP	G	TCGA-KL-8331-01A-11D-2310-10	153222538	155529663	35624613	7	38781										
LMBRD2	92255	broad.mit.edu	37	chr5	36123063	36123063	+	Splice_Site	DEL	A	A	-													0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	ttcctgatactctgtagggcActaaaaaaaaaaaaaagtag							TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr5:36123063delA	ENST00000296603.4	-	8	1285	c.823delT	c.(823-825)tgc>gc	p.C275fs		NM_001007527.1	NP_001007528.1	Q68DH5	LMBD2_HUMAN	LMBR1 domain containing 2	275						integral component of membrane (GO:0016021)|membrane (GO:0016020)				breast(2)|endometrium(4)|kidney(3)|large_intestine(7)|lung(12)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	35	all_lung(31;0.000146)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TCTGTAGGGCACtaaaaaaaa	0.249																																																0													40	43	42					5																	36123063		2200	4285	6485	SO:0001630	splice_region_variant	92255				CCDS34145.1	5p13.2	2008-02-05			ENSG00000164187	ENSG00000164187			25287	protein-coding gene	gene with protein product							Standard	NM_001007527		Approved	DKFZp434H2226	uc003jkb.1	Q68DH5	OTTHUMG00000162150	ENST00000296603.4:c.823-1T>-	5.37:g.36123063delA		Somatic		WXS	Illumina HiSeq	Phase_I	B3KRB6|Q9NTC7	Frame_Shift_Del	DEL	ENST00000296603.4	37	CCDS34145.1																																																																																				0.249	LMBRD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367552.1	NM_001007527	Frame_Shift_Del	-	36123063	A	-	36123063	8	5	630	1	0	1	0	1	0	0	1	0	8850	173	6	0	1308	0	LMBRD2	5	36123063	Splice_Site	DEL	A	TCGA-KL-8331-01A-11D-2310-10		36123063	144792197	8	38782										
SLC30A5	64924	broad.mit.edu	37	chr5	68390134	68390134	+	Frame_Shift_Del	DEL	G	G	-													0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	ccggccccggcggcggcggcGgccttgggccggtggacgta							TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr5:68390134delG	ENST00000396591.3	+	1	662	c.52delG	c.(52-54)ggcfs	p.G18fs	SLC30A5_ENST00000502979.1_Frame_Shift_Del_p.G18fs|SLC30A5_ENST00000380860.4_Frame_Shift_Del_p.G18fs	NM_022902.4	NP_075053.2	Q8TAD4	ZNT5_HUMAN	solute carrier family 30 (zinc transporter), member 5	18	Poly-Gly.				cellular protein metabolic process (GO:0044267)|cellular zinc ion homeostasis (GO:0006882)|cobalt ion transport (GO:0006824)|regulation of proton transport (GO:0010155)|response to zinc ion (GO:0010043)|transmembrane transport (GO:0055085)|zinc ion transmembrane transport (GO:0071577)|zinc ion transport (GO:0006829)	apical plasma membrane (GO:0016324)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)|secretory granule (GO:0030141)|secretory granule membrane (GO:0030667)	zinc ion binding (GO:0008270)|zinc ion transmembrane transporter activity (GO:0005385)			breast(3)|central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(6)|lung(6)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	25		Lung NSC(167;0.000986)|Prostate(74;0.00809)|Colorectal(97;0.0508)|Ovarian(174;0.16)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)		cggcggcggcggccTTGGGCC	0.741																																																0													2	4	3					5																	68390134		1267	2522	3789	SO:0001589	frameshift_variant	64924			AF212235	CCDS3996.1, CCDS34173.1, CCDS58955.1	5q13.1	2013-05-22			ENSG00000145740	ENSG00000145740		"Solute carriers"	19089	protein-coding gene	gene with protein product		607819				11937503, 11904301	Standard	NM_022902		Approved	ZTL1, ZnT-5, FLJ12496, FLJ12756, ZNT5, MGC5499, ZNTL1	uc003jvh.3	Q8TAD4	OTTHUMG00000131253	ENST00000396591.3:c.52delG	5.37:g.68390134delG	ENSP00000379836:p.Gly18fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZM89|Q6UX54|Q7L4M4|Q8TDG3|Q9BVY8|Q9H9H1	Frame_Shift_Del	DEL	ENST00000396591.3	37	CCDS3996.1																																																																																				0.741	SLC30A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254017.2			-	68390134	G	-	68390134	7	5	630	1	0	1	0	1	0	0	0	0	14571	1116	39	0	54	0	SLC30A5	5	68390134	Frame_Shift_Del	DEL	G	TCGA-KL-8331-01A-11D-2310-10	32267071	68390134	112525126	9	38783										
HAPLN1	1404	bcgsc.ca	37	chr5	82937410	82937410	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	agcctcagtaggactgcagcGccttcttggcctagagatgg	13	11	2	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr5:82937410G>A	ENST00000274341.4	-	5	1820	c.970C>T	c.(970-972)Cgc>Tgc	p.R324C		NM_001884.3	NP_001875.1	P10915	HPLN1_HUMAN	hyaluronan and proteoglycan link protein 1	324	Link 2. {ECO:0000255|PROSITE- ProRule:PRU00323}.				cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)	extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	hyaluronic acid binding (GO:0005540)			breast(1)|endometrium(1)|kidney(1)|large_intestine(12)|liver(1)|lung(15)|ovary(1)|prostate(1)|skin(1)	34		Lung NSC(167;0.0484)|all_lung(232;0.0522)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;7.82e-42)|Epithelial(54;5.88e-35)|all cancers(79;1.14e-29)	Hyaluronan(DB08818)	GGACTGCAGCGCCTTCTTGGC	0.532																																																0													107	113	111					5																	82937410		2203	4300	6503	SO:0001583	missense	1404				CCDS4061.1	5q14.3	2013-01-11	2004-03-16	2004-03-17	ENSG00000145681	ENSG00000145681		"Immunoglobulin superfamily / V-set domain containing"	2380	protein-coding gene	gene with protein product	"Cartilage link protein", "hyaluronan and proteoglycan link protein 1"	115435	"cartilage linking protein 1"	CRTL1		2286376, 2320422	Standard	NM_001884		Approved		uc003kin.3	P10915	OTTHUMG00000119045	ENST00000274341.4:c.970C>T	5.37:g.82937410G>A	ENSP00000274341:p.Arg324Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9A9	Missense_Mutation	SNP	ENST00000274341.4	37	CCDS4061.1	.	.	.	.	.	.	.	.	.	.	G	13.37	2.215621	0.39102	.	.	ENSG00000145681	ENST00000274341	T	0.31769	1.48	5.22	5.22	0.72569	C-type lectin fold (1);Link (4);C-type lectin-like (1);	0.000000	0.85682	D	0.000000	T	0.60077	0.2241	M	0.80982	2.52	0.80722	D	1	D	0.89917	1.0	D	0.74023	0.982	T	0.65228	-0.6219	10	0.87932	D	0	.	19.1617	0.93535	0.0:0.0:1.0:0.0	.	324	P10915	HPLN1_HUMAN	C	324	ENSP00000274341:R324C	ENSP00000274341:R324C	R	-	1	0	HAPLN1	82973166	0.997000	0.39634	1.000000	0.80357	0.169000	0.22640	2.513000	0.45494	2.581000	0.87130	0.655000	0.94253	CGC		0.532	HAPLN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239256.2	NM_001884		A	82937410	G	A	82937410	3	1	630	1	0	0	0	0	1	0	0	0	6961	1087	38	1	98	1	HAPLN1	5	82937410	Missense_Mutation	SNP	G	TCGA-KL-8331-01A-11D-2310-10	14547276	82937410	97977850	10	38784										
ANKRD43	134548	broad.mit.edu	37	chr5	132150835	132150835	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	ccttcagcaagttcttgagcGcctcgcccatggctccacgt	9	16	2	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr5:132150835G>A	ENST00000378693.2	+	1	1803	c.1522G>A	c.(1522-1524)Gcc>Acc	p.A508T	AC004775.5_ENST00000607389.1_lincRNA	NM_175873.4	NP_787069.3	Q2M3V2	SWAHA_HUMAN	sosondowah ankyrin repeat domain family member A	508																	GTTCTTGAGCGCCTCGCCCAT	0.582																																																0													44	49	48					5																	132150835		2203	4300	6503	SO:0001583	missense	134548			AK090823	CCDS43361.1	5q23.3	2013-01-10	2012-01-12	2012-01-12	ENSG00000198944	ENSG00000198944		"Ankyrin repeat domain containing"	27033	protein-coding gene	gene with protein product			"ankyrin repeat domain 43"	ANKRD43		22234889	Standard	NM_175873		Approved		uc003kxw.3	Q2M3V2	OTTHUMG00000059844	ENST00000378693.2:c.1522G>A	5.37:g.132150835G>A	ENSP00000367965:p.Ala508Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NAE7	Missense_Mutation	SNP	ENST00000378693.2	37	CCDS43361.1	.	.	.	.	.	.	.	.	.	.	G	16.41	3.116714	0.56505	.	.	ENSG00000198944	ENST00000378693	T	0.21932	1.98	6.15	4.3	0.51218	.	0.395022	0.20050	N	0.100303	T	0.14313	0.0346	L	0.46157	1.445	0.33529	D	0.593311	P	0.42456	0.78	B	0.27887	0.084	T	0.16837	-1.0389	10	0.30854	T	0.27	-23.571	11.5851	0.50914	0.0677:0.126:0.8062:0.0	.	508	Q2M3V2	ANR43_HUMAN	T	508	ENSP00000367965:A508T	ENSP00000367965:A508T	A	+	1	0	ANKRD43	132178734	0.972000	0.33761	0.998000	0.56505	0.496000	0.33645	1.574000	0.36482	2.932000	0.99384	0.643000	0.83706	GCC		0.582	SOWAHA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000133062.1	NM_175873		A	132150835	G	A	132150835	3	1	630	1	0	0	0	0	1	0	0	0	671	1087	38	1	1524	1	ANKRD43	5	132150835	Missense_Mutation	SNP	G	TCGA-KL-8331-01A-11D-2310-10	49213425	132150835	48764425	11	38785										
DHX16	8449	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr6	30623374	30623374	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	atctcctctgaacagctgtaCctgggacaggaaggggaaag	13	9	2	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr6:30623374C>T	ENST00000376442.3	-	17	2694	c.2499G>A	c.(2497-2499)aaG>aaA	p.K833K	DHX16_ENST00000376437.5_Splice_Site_p.K352K	NM_001164239.1|NM_003587.4	NP_001157711.1|NP_003578.2	O60231	DHX16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 16	833					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|poly(A) RNA binding (GO:0044822)|RNA helicase activity (GO:0003724)			kidney(2)|ovary(2)	4						AACAGCTGTACCTGGGACAGG	0.498																																																0													65	62	63					6																	30623374		1510	2709	4219	SO:0001630	splice_region_variant	8449			AB001601	CCDS4685.1	6p21.3	2010-02-17	2003-06-13	2003-06-20	ENSG00000204560	ENSG00000204560		"DEAH-boxes"	2739	protein-coding gene	gene with protein product		603405	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 16"	DDX16		9547260	Standard	NM_003587		Approved	DBP2, Prp2, PRPF2	uc003nqz.3	O60231	OTTHUMG00000031060	ENST00000376442.3:c.2499-1G>A	6.37:g.30623374C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O60322|Q5JP45|Q969X7|Q96QC1	Silent	SNP	ENST00000376442.3	37	CCDS4685.1																																																																																				0.498	DHX16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076076.2	NM_003587	Silent	T	30623374	C	T	30623374	5	4	630	1	0	0	0	0	0	0	1	0	4504	521	18	2	642	2	DHX16	6	30623374	Splice_Site	SNP	C	TCGA-KL-8331-01A-11D-2310-10		30623374	140491693	12	38786										
MUC21	394263	mdanderson.org	37	chr6	30954600	30954600	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gccaccaactctgagtccagAacgacctccaatggggctgg	11	14	1	2	rs552812759	byFrequency	TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr6:30954600A>C	ENST00000376296.3	+	2	889	c.648A>C	c.(646-648)agA>agC	p.R216S	MUC21_ENST00000486149.2_5'UTR	NM_001010909.2	NP_001010909.2	Q5SSG8	MUC21_HUMAN	mucin 21, cell surface associated	216	28 X 15 AA approximate tandem repeats.|Ser-rich.				cellular protein metabolic process (GO:0044267)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-substrate adhesion (GO:0010812)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(4)|breast(1)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(3)|prostate(4)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	42						CTGAGTCCAGAACGACCTCCA	0.617													a|||	17	0.00339457	0.0023	0.0101	5008	,	,		23080	0.003		0.003	False		,,,				2504	0.001															0													154	152	153					6																	30954600		2203	4300	6503	SO:0001583	missense	394263			AK056612	CCDS34388.1	6p21.33	2008-05-14	2008-05-14	2008-05-14	ENSG00000204544	ENSG00000204544		"Mucins"	21661	protein-coding gene	gene with protein product	"epiglycanin"		"chromosome 6 open reading frame 205"	C6orf205		17977904	Standard	NM_001010909		Approved	bCX31G15.2	uc003nsh.2	Q5SSG8	OTTHUMG00000031216	ENST00000376296.3:c.648A>C	6.37:g.30954600A>C	ENSP00000365473:p.Arg216Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B0UZT7|B4DQ55|C9JMK2|D9N007|Q0VGF1|Q3B7T2|Q5SS94|Q6UXC5	Missense_Mutation	SNP	ENST00000376296.3	37	CCDS34388.1	.	.	.	.	.	.	.	.	.	.	a	0.015	-1.570408	0.00895	.	.	ENSG00000204544	ENST00000376296	T	0.01165	5.24	3.65	-7.29	0.01451	.	.	.	.	.	T	0.00109	0.0003	N	0.01352	-0.895	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.39035	-0.9633	8	.	.	.	0.2248	6.4041	0.21654	0.4184:0.1401:0.0:0.4415	.	216	Q5SSG8	MUC21_HUMAN	S	216	ENSP00000365473:R216S	.	R	+	3	2	MUC21	31062579	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-6.119000	0.00080	-3.816000	0.00103	-1.775000	0.00657	AGA		0.617	MUC21-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000128579.3	NM_001010909		C	30954600	A	C	30954600	3	2	630	1	0	0	0	0	1	0	0	0	9984	243	9	5	654	5	MUC21	6	30954600	Missense_Mutation	SNP	A	TCGA-KL-8331-01A-11D-2310-10	331226	30954600	140160467	13	38787										
C4A	720	broad.mit.edu	37	chr6	31963559	31963559	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	tgcggcttggttgtcacgggAcagcagcacctggtgagctt	15	10	1	1	rs147162052		TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr6:31963559A>G	ENST00000428956.2	+	25	3302	c.3218A>G	c.(3217-3219)gAc>gGc	p.D1073G	C4A_ENST00000498271.1_Missense_Mutation_p.D1073G	NM_007293.2	NP_009224.2	P0C0L4	CO4A_HUMAN	complement component 4A (Rodgers blood group)	1073			D -> G (in allotype C4A1, allotype C4A2; dbSNP:rs147162052). {ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:3696167, ECO:0000269|Ref.8}.		complement activation (GO:0006956)|complement activation, classical pathway (GO:0006958)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|positive regulation of apoptotic cell clearance (GO:2000427)|regulation of complement activation (GO:0030449)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	complement component C1q binding (GO:0001849)|endopeptidase inhibitor activity (GO:0004866)									Intravenous Immunoglobulin(DB00028)	TTGTCACGGGACAGCAGCACC	0.612																																																0													101	86	91					6																	31963559		1499	2656	4155	SO:0001583	missense	720			L26261, M14823, X77491, AY224378	CCDS47404.1, CCDS59005.1	6p21.3	2014-09-17	2006-01-19		ENSG00000244731	ENSG00000244731		"Blood group antigens", "Complement system"	1323	protein-coding gene	gene with protein product		120810	"complement component 4A"				Standard	NM_001252204		Approved	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG		P0C0L4	OTTHUMG00000031186	ENST00000428956.2:c.3218A>G	6.37:g.31963559A>G	ENSP00000396688:p.Asp1073Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8M8|A6NHJ5|A7E2V2|B0QZR6|B0V2C8|B2RUT6|B7ZVZ6|P01028|P78445|Q13160|Q13906|Q14033|Q14835|Q4LE82|Q5JNX2|Q5JQM8|Q6P4R1|Q6U2E5|Q6U2E8|Q6U2F0|Q6U2F3|Q6U2F4|Q6U2F6|Q6U2F8|Q6U2G0|Q96EG2|Q96SA8|Q9NPK5|Q9UIP5	Silent	SNP	ENST00000428956.2	37	CCDS47404.1	.	.	.	.	.	.	.	.	.	.	A	1.712	-0.498842	0.04291	.	.	ENSG00000244731	ENST00000428956;ENST00000498271	T;T	0.37915	1.17;1.17	3.11	1.88	0.25563	Terpenoid cylases/protein prenyltransferase alpha-alpha toroid (1);A-macroglobulin complement component (1);	.	.	.	.	T	0.16642	0.0400	M	0.64170	1.965	0.80722	D	1	B;B	0.19200	0.015;0.034	B;B	0.23150	0.026;0.044	T	0.04885	-1.0920	9	0.46703	T	0.11	.	5.4739	0.16686	0.8606:0.0:0.1394:0.0	.	1073;1073	A6H8M8;P0C0L4	.;CO4A_HUMAN	G	1073	ENSP00000396688:D1073G;ENSP00000420212:D1073G	ENSP00000396688:D1073G	D	+	2	0	C4A	32071538	0.168000	0.22989	0.910000	0.35882	0.043000	0.13939	0.471000	0.22100	0.399000	0.25367	-1.226000	0.01582	GAC		0.612	C4A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076364.3	NM_007293		G	31963559	A	G	31963559	3	3	630	1	0	0	0	0	1	0	0	0	2249	275	10	3	3316	3	C4A	6	31963559	Missense_Mutation	SNP	A	TCGA-KL-8331-01A-11D-2310-10	1008959	31963559	139151508	14	38788										
TNXB	7148	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	32052298	32052298	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	ggaggtgatgacggccgagcGctggggtccttccacgggca	18	11	0	2	rs367775946		TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr6:32052298G>A	ENST00000375244.3	-	8	3538	c.3337C>T	c.(3337-3339)Cgc>Tgc	p.R1113C	TNXB_ENST00000375247.2_Missense_Mutation_p.R1113C			P22105	TENX_HUMAN	tenascin XB	1200	Fibronectin type-III 3. {ECO:0000255|PROSITE-ProRule:PRU00316}.				actin cytoskeleton organization (GO:0030036)|cell adhesion (GO:0007155)|cell-matrix adhesion (GO:0007160)|collagen fibril organization (GO:0030199)|collagen metabolic process (GO:0032963)|elastic fiber assembly (GO:0048251)|extracellular fibril organization (GO:0043206)|fatty acid metabolic process (GO:0006631)|regulation of JUN kinase activity (GO:0043506)|single organismal cell-cell adhesion (GO:0016337)|triglyceride metabolic process (GO:0006641)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|proteinaceous extracellular matrix (GO:0005578)	heparin binding (GO:0008201)|integrin binding (GO:0005178)			endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|prostate(1)	8						ACGGCCGAGCGCTGGGGTCCT	0.617																																																0								G	CYS/ARG	0,2602		0,0,1301	42	46	45		3337	4.2	1	6		45	1,5097		0,1,2548	no	missense	TNXB	NM_019105.6	180	0,1,3849	AA,AG,GG		0.0196,0.0,0.013	probably-damaging	1113/4243	32052298	1,7699	1301	2549	3850	SO:0001583	missense	7148			X71923	CCDS4736.1	6p21.3	2013-02-11			ENSG00000168477	ENSG00000168477		"Fibrinogen C domain containing", "Fibronectin type III domain containing"	11976	protein-coding gene	gene with protein product		600985		TNXB1, TNXB2		8530023	Standard	NM_019105		Approved	TNXBS, XBS, XB	uc021yvf.2	P22105	OTTHUMG00000031088	ENST00000375244.3:c.3337C>T	6.37:g.32052298G>A	ENSP00000364393:p.Arg1113Cys	Somatic		WXS	Illumina HiSeq	Phase_I	P78530|P78531|Q08424|Q08AM0|Q08AM1|Q59GU7|Q5SQD3|Q5ST74|Q7L8Q4|Q8N4R1|Q9NPK9|Q9UC10|Q9UC11|Q9UC12|Q9UC13|Q9UMG7	Missense_Mutation	SNP	ENST00000375244.3	37		.	.	.	.	.	.	.	.	.	.	G	18.00	3.524889	0.64747	0.0	1.96E-4	ENSG00000168477	ENST00000375244;ENST00000375247	T;T	0.55052	0.54;0.54	4.23	4.23	0.50019	.	0.157128	0.30383	N	0.009750	T	0.73032	0.3535	M	0.91038	3.17	0.47037	D	0.99929	D	0.89917	1.0	D	0.74348	0.983	T	0.80339	-0.1424	10	0.66056	D	0.02	.	15.5671	0.76303	0.0:0.0:1.0:0.0	.	1113	P22105-3	.	C	1113	ENSP00000364393:R1113C;ENSP00000364396:R1113C	ENSP00000364393:R1113C	R	-	1	0	TNXB	32160276	1.000000	0.71417	0.995000	0.50966	0.591000	0.36615	6.136000	0.71703	2.200000	0.70718	0.655000	0.94253	CGC		0.617	TNXB-001	PUTATIVE	not_organism_supported|basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000268927.2	NM_019105		A	32052298	G	A	32052298	3	1	630	1	0	0	0	0	1	0	0	0	16358	1087	38	1	11524	1	TNXB	6	32052298	Missense_Mutation	SNP	G	TCGA-KL-8331-01A-11D-2310-10	88739	32052298	139062769	15	38789										
CDKN1A	1026	broad.mit.edu;hgsc.bcm.edu	37	chr6	36652011	36652012	+	Frame_Shift_Ins	INS	-	-	C													0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	ggcgggctgcatccaggaggINScccgtgagcgatggaacttc							TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr6:36652011_36652012insC	ENST00000405375.1	+	2	368_369	c.133_134insC	c.(133-135)gccfs	p.A45fs	CDKN1A_ENST00000448526.2_Frame_Shift_Ins_p.A79fs|CDKN1A_ENST00000244741.5_Frame_Shift_Ins_p.A45fs|CDKN1A_ENST00000478800.1_3'UTR|CDKN1A_ENST00000373711.2_Frame_Shift_Ins_p.A45fs	NM_001220778.1	NP_001207707.1	P38936	CDN1A_HUMAN	cyclin-dependent kinase inhibitor 1A (p21, Cip1)	45					cell cycle arrest (GO:0007050)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to extracellular stimulus (GO:0031668)|cellular response to ionizing radiation (GO:0071479)|cellular senescence (GO:0090398)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|G1/S transition of mitotic cell cycle (GO:0000082)|G2/M transition of mitotic cell cycle (GO:0000086)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle (GO:0000278)|mitotic cell cycle arrest (GO:0071850)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045736)|negative regulation of gene expression (GO:0010629)|negative regulation of phosphorylation (GO:0042326)|neurotrophin TRK receptor signaling pathway (GO:0048011)|organ regeneration (GO:0031100)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of programmed cell death (GO:0043068)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|protein phosphorylation (GO:0006468)|Ras protein signal transduction (GO:0007265)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of DNA biosynthetic process (GO:2000278)|regulation of protein import into nucleus, translocation (GO:0033158)|response to arsenic-containing substance (GO:0046685)|response to corticosterone (GO:0051412)|response to drug (GO:0042493)|response to hyperoxia (GO:0055093)|response to organonitrogen compound (GO:0010243)|response to toxic substance (GO:0009636)|response to UV (GO:0009411)|stress-induced premature senescence (GO:0090400)	cyclin-dependent protein kinase holoenzyme complex (GO:0000307)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PCNA-p21 complex (GO:0070557)	cyclin-dependent protein kinase activating kinase activity (GO:0019912)|cyclin-dependent protein serine/threonine kinase inhibitor activity (GO:0004861)|metal ion binding (GO:0046872)|ubiquitin protein ligase binding (GO:0031625)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|liver(1)|lung(3)|ovary(1)|urinary_tract(5)	15						CATCCAGGAGGCCCGTGAGCGA	0.658																																																0																																										SO:0001589	frameshift_variant	1026			U03106	CCDS4824.1	6p21.1	2009-01-21			ENSG00000124762	ENSG00000124762			1784	protein-coding gene	gene with protein product		116899		CDKN1			Standard	NM_000389		Approved	P21, CIP1, WAF1, SDI1, CAP20, p21CIP1, p21Cip1/Waf1	uc021yzb.1	P38936	OTTHUMG00000014603	ENST00000405375.1:c.136dupC	6.37:g.36652014_36652014dupC	ENSP00000384849:p.Ala45fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q14010|Q6FI05|Q9BUT4	Frame_Shift_Ins	INS	ENST00000405375.1	37	CCDS4824.1																																																																																				0.658	CDKN1A-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040354.1	NM_078467		C	36652012	-	C	36652011	7	5	630	1	0	1	1	0	0	0	0	0	3160	1203	42	0	135	0	CDKN1A	6	36652011	Frame_Shift_Ins	INS	-	TCGA-KL-8331-01A-11D-2310-10	4599713	36652011	134463056	16	38790	317	2								
CDKN1A	1026	bcgsc.ca	37	chr6	36652012	36652013	+	Frame_Shift_Ins	INS	-	-	C													0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gcgggctgcatccaggaggcINSccgtgagcgatggaacttcg							TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr6:36652012_36652013insC	ENST00000405375.1	+	2	369_370	c.134_135insC	c.(133-138)gcccgtfs	p.R46fs	CDKN1A_ENST00000448526.2_Frame_Shift_Ins_p.R80fs|CDKN1A_ENST00000244741.5_Frame_Shift_Ins_p.R46fs|CDKN1A_ENST00000478800.1_3'UTR|CDKN1A_ENST00000373711.2_Frame_Shift_Ins_p.R46fs	NM_001220778.1	NP_001207707.1	P38936	CDN1A_HUMAN	cyclin-dependent kinase inhibitor 1A (p21, Cip1)	46					cell cycle arrest (GO:0007050)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to extracellular stimulus (GO:0031668)|cellular response to ionizing radiation (GO:0071479)|cellular senescence (GO:0090398)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|G1/S transition of mitotic cell cycle (GO:0000082)|G2/M transition of mitotic cell cycle (GO:0000086)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle (GO:0000278)|mitotic cell cycle arrest (GO:0071850)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045736)|negative regulation of gene expression (GO:0010629)|negative regulation of phosphorylation (GO:0042326)|neurotrophin TRK receptor signaling pathway (GO:0048011)|organ regeneration (GO:0031100)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of programmed cell death (GO:0043068)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|protein phosphorylation (GO:0006468)|Ras protein signal transduction (GO:0007265)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of DNA biosynthetic process (GO:2000278)|regulation of protein import into nucleus, translocation (GO:0033158)|response to arsenic-containing substance (GO:0046685)|response to corticosterone (GO:0051412)|response to drug (GO:0042493)|response to hyperoxia (GO:0055093)|response to organonitrogen compound (GO:0010243)|response to toxic substance (GO:0009636)|response to UV (GO:0009411)|stress-induced premature senescence (GO:0090400)	cyclin-dependent protein kinase holoenzyme complex (GO:0000307)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PCNA-p21 complex (GO:0070557)	cyclin-dependent protein kinase activating kinase activity (GO:0019912)|cyclin-dependent protein serine/threonine kinase inhibitor activity (GO:0004861)|metal ion binding (GO:0046872)|ubiquitin protein ligase binding (GO:0031625)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|liver(1)|lung(3)|ovary(1)|urinary_tract(5)	15						ATCCAGGAGGCCCGTGAGCGAT	0.658																																																0																																										SO:0001589	frameshift_variant	1026			U03106	CCDS4824.1	6p21.1	2009-01-21			ENSG00000124762	ENSG00000124762			1784	protein-coding gene	gene with protein product		116899		CDKN1			Standard	NM_000389		Approved	P21, CIP1, WAF1, SDI1, CAP20, p21CIP1, p21Cip1/Waf1	uc021yzb.1	P38936	OTTHUMG00000014603	ENST00000405375.1:c.136dupC	6.37:g.36652014_36652014dupC	ENSP00000384849:p.Arg46fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q14010|Q6FI05|Q9BUT4	Frame_Shift_Ins	INS	ENST00000405375.1	37	CCDS4824.1																																																																																				0.658	CDKN1A-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040354.1	NM_078467		C	36652013	-	C	36652012	7	5	630	1	0	1	1	0	0	0	0	0	3160	739	26	0	136	0	CDKN1A	6	36652012	Frame_Shift_Ins	INS	-	TCGA-KL-8331-01A-11D-2310-10	1	36652012	134463055	17	38791	317	2								
BCLAF1	9774	hgsc.bcm.edu	37	chr6	136596668	136596668	+	Splice_Site	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	atactaaacatactaagcatAcctttaacatgatgaaccaa	3	9	0	2			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr6:136596668A>C	ENST00000531224.1	-	6	2105		c.e6+1		BCLAF1_ENST00000530767.1_Splice_Site|BCLAF1_ENST00000353331.4_Splice_Site|BCLAF1_ENST00000392348.2_Splice_Site|BCLAF1_ENST00000527759.1_Splice_Site|BCLAF1_ENST00000527536.1_Splice_Site	NM_001077441.1|NM_014739.2	NP_001070909.1|NP_055554.1	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1						apoptotic process (GO:0006915)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of apoptotic process (GO:0043065)|positive regulation of DNA-templated transcription, initiation (GO:2000144)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of response to DNA damage stimulus (GO:2001022)|regulation of DNA-templated transcription in response to stress (GO:0043620)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			haematopoietic_and_lymphoid_tissue(3)|large_intestine(4)|ovary(1)|skin(1)	9	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TACTAAGCATACCTTTAACAT	0.358																																					Colon(142;1534 1789 5427 7063 28491)											0													146	131	136					6																	136596668		2203	4300	6503	SO:0001630	splice_region_variant	9774			AF249273	CCDS5177.1, CCDS47485.1, CCDS47486.1, CCDS75525.1	6q22-q23	2007-03-02			ENSG00000029363	ENSG00000029363			16863	protein-coding gene	gene with protein product		612588				8724849, 10330179	Standard	NM_001077440		Approved	KIAA0164, BTF	uc003qgx.1	Q9NYF8	OTTHUMG00000033323	ENST00000531224.1:c.1852+1T>G	6.37:g.136596668A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2RU75|B7ZM58|E1P586|Q14673|Q86WU6|Q86WY0	Splice_Site	SNP	ENST00000531224.1	37	CCDS5177.1	.	.	.	.	.	.	.	.	.	.	A	15.37	2.813243	0.50527	.	.	ENSG00000029363	ENST00000531224;ENST00000353331;ENST00000527536;ENST00000530767;ENST00000527759;ENST00000392348;ENST00000529826	.	.	.	5.14	5.14	0.70334	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.6834	0.62502	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	BCLAF1	136638361	1.000000	0.71417	1.000000	0.80357	0.866000	0.49608	7.987000	0.88182	2.149000	0.67028	0.377000	0.23210	.		0.358	BCLAF1-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042375.2	NM_014739	Intron	C	136596668	A	C	136596668	5	2	630	1	0	0	0	0	0	0	1	0	1383	405	14	5	940	5	BCLAF1	6	136596668	Splice_Site	SNP	A	TCGA-KL-8331-01A-11D-2310-10	99944656	136596668	34518399	18	38792										
KIAA0415	9907	broad.mit.edu	37	chr7	4830447	4830447	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gctgccctgcccaggtgtccCccccaggtggtcaccgtgct	12	18	1	0			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr7:4830447C>A	ENST00000348624.4	+	16	2176	c.2082C>A	c.(2080-2082)ccC>ccA	p.P694P	AP5Z1_ENST00000490487.1_3'UTR|MIR4656_ENST00000579503.1_RNA	NM_014855.2	NP_055670.1	O43299	AP5Z1_HUMAN	adaptor-related protein complex 5, zeta 1 subunit	694					cell death (GO:0008219)|double-strand break repair via homologous recombination (GO:0000724)|endosomal transport (GO:0016197)|protein transport (GO:0015031)	AP-5 adaptor complex (GO:0044599)|AP-type membrane coat adaptor complex (GO:0030119)|cytoplasm (GO:0005737)|nucleus (GO:0005634)											CCAGGTGTCCCCCCCAGGTGG	0.642																																																0													31	35	34					7																	4830447		2027	4172	6199	SO:0001819	synonymous_variant	9907			AB007875	CCDS47528.1	7p22.1	2012-03-20	2012-03-20	2012-03-20	ENSG00000242802	ENSG00000242802			22197	protein-coding gene	gene with protein product		613653	"KIAA0415"	KIAA0415		20613862, 22022230	Standard	NM_014855		Approved	SPG48, zeta	uc003sne.3	O43299	OTTHUMG00000151754	ENST00000348624.4:c.2082C>A	7.37:g.4830447C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3X2|Q96H80	Silent	SNP	ENST00000348624.4	37	CCDS47528.1																																																																																				0.642	AP5Z1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323771.1			A	4830447	C	A	4830447	2	1	630	1	0	0	0	0	0	0	0	1	8182	610	22	4		4	KIAA0415	7	4830447	Silent	SNP	C	TCGA-KL-8331-01A-11D-2310-10		4830447	154308216	19	38793										
SLC29A4	222962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr7	5342510	5342510	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	acctacagcctcacccgcgaCgctcacggcagctgcctgca	9	19	2	0			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr7:5342510C>T	ENST00000396872.3	+	11	1694	c.1533C>T	c.(1531-1533)gaC>gaT	p.D511D	SLC29A4_ENST00000297195.4_Silent_p.D511D|SLC29A4_ENST00000406453.3_Silent_p.D497D|SLC29A4_ENST00000439491.2_Intron			Q7RTT9	S29A4_HUMAN	solute carrier family 29 (equilibrative nucleoside transporter), member 4	511					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	nucleoside transmembrane transporter activity (GO:0005337)			breast(1)|cervix(2)|kidney(7)|large_intestine(1)|liver(1)|lung(7)|urinary_tract(1)	20		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)	Metformin(DB00331)	TCACCCGCGACGCTCACGGCA	0.682																																																0													33	26	28					7																	5342510		2198	4293	6491	SO:0001819	synonymous_variant	222962			AK075422	CCDS5340.1, CCDS75561.1	7p22.2	2013-07-17	2013-07-17		ENSG00000164638	ENSG00000164638		"Solute carriers"	23097	protein-coding gene	gene with protein product		609149	"solute carrier family 29 (nucleoside transporters), member 4"			12838422	Standard	NM_153247		Approved	FLJ34923, ENT4	uc003soc.3	Q7RTT9	OTTHUMG00000023797	ENST00000396872.3:c.1533C>T	7.37:g.5342510C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6PJ08|Q86WY8|Q8NAR3|Q8NBM2	Silent	SNP	ENST00000396872.3	37	CCDS5340.1																																																																																				0.682	SLC29A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060118.6	NM_153247		T	5342510	C	T	5342510	2	4	630	1	0	0	0	0	0	0	0	1	14550	535	19	1		1	SLC29A4	7	5342510	Silent	SNP	C	TCGA-KL-8331-01A-11D-2310-10	512063	5342510	153796153	20	38794										
GRM3	2913	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr7	86479790	86479790	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	atcctgtttcaaccccagaaGaatgttgtcacacacagact	6	12	2	3			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr7:86479790G>T	ENST00000361669.2	+	5	3595	c.2496G>T	c.(2494-2496)aaG>aaT	p.K832N	GRM3_ENST00000536043.1_Missense_Mutation_p.K704N|GRM3_ENST00000394720.2_Nonsense_Mutation_p.E475*|GRM3_ENST00000546348.1_Missense_Mutation_p.K424N|GRM3_ENST00000439827.1_Nonsense_Mutation_p.E477*	NM_000840.2	NP_000831.2	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3	832					adenylate cyclase-inhibiting G-protein coupled glutamate receptor signaling pathway (GO:0007196)|negative regulation of adenylate cyclase activity (GO:0007194)|regulation of synaptic transmission, glutamatergic (GO:0051966)|synaptic transmission (GO:0007268)	astrocyte projection (GO:0097449)|axon (GO:0030424)|dendritic spine (GO:0043197)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)|presynaptic membrane (GO:0042734)	calcium channel regulator activity (GO:0005246)|G-protein coupled receptor activity (GO:0004930)|glutamate receptor activity (GO:0008066)|group II metabotropic glutamate receptor activity (GO:0001641)			NS(2)|breast(6)|central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(9)|lung(43)|ovary(3)|pancreas(2)|prostate(4)|skin(25)|upper_aerodigestive_tract(5)	109	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)					AACCCCAGAAGAATGTTGTCA	0.488																																					GBM(52;969 1098 3139 52280)											0													200	152	168					7																	86479790		2203	4300	6503	SO:0001583	missense	2913				CCDS5600.1	7q21.1-q21.2	2012-08-29			ENSG00000198822	ENSG00000198822		"GPCR / Class C : Glutamate receptors, metabotropic", "Glutamate receptors"	4595	protein-coding gene	gene with protein product		601115				8824806	Standard	NM_000840		Approved	GPRC1C, mGlu3, MGLUR3	uc003uid.3	Q14832	OTTHUMG00000022884	ENST00000361669.2:c.2496G>T	7.37:g.86479790G>T	ENSP00000355316:p.Lys832Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q2PNZ6|Q75MV4|Q75N17|Q86YG6|Q8TBH9	Missense_Mutation	SNP	ENST00000361669.2	37	CCDS5600.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	38|38	7.249934|7.249934	0.98164|0.98164	.|.	.|.	ENSG00000198822|ENSG00000198822	ENST00000439827;ENST00000394720|ENST00000361669;ENST00000546348;ENST00000536043	.|D;D;D	.|0.89485	.|-2.52;-2.41;-2.29	6.08|6.08	5.2|5.2	0.72013|0.72013	.|GPCR, family 3, C-terminal (1);	.|0.000000	.|0.85682	.|D	.|0.000000	.|D	.|0.90277	.|0.6959	L|L	0.34521|0.34521	1.04|1.04	0.80722|0.80722	A|A	1|1	.|D;D;D	.|0.89917	.|1.0;0.999;0.999	.|D;D;D	.|0.79108	.|0.989;0.992;0.982	.|D	.|0.92864	.|0.6308	.|9	0.05721|0.72032	T|D	0.95|0.01	.|.	10.395|10.395	0.44196|0.44196	0.1466:0.0:0.8534:0.0|0.1466:0.0:0.8534:0.0	.|.	.|424;704;832	.|B7Z204;F5GYZ2;Q14832	.|.;.;GRM3_HUMAN	X|N	477;475|832;424;704	.|ENSP00000355316:K832N;ENSP00000444064:K424N;ENSP00000441407:K704N	ENSP00000378209:E475X|ENSP00000355316:K832N	E|K	+|+	1|3	0|2	GRM3|GRM3	86317726|86317726	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.989000|0.989000	0.77384|0.77384	5.834000|5.834000	0.69361|0.69361	1.590000|1.590000	0.49995|0.49995	0.655000|0.655000	0.94253|0.94253	GAA|AAG		0.488	GRM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253362.2			T	86479790	G	T	86479790	3	4	630	1	0	0	0	0	1	0	0	0	6805	933	33	4	2510	4	GRM3	7	86479790	Missense_Mutation	SNP	G	TCGA-KL-8331-01A-11D-2310-10	81137280	86479790	72658873	21	38795										
PON3	5446	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	95024006	95024006	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gttctactggctccacttctCgagaggcattcaccctttct	7	14	4	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr7:95024006C>T	ENST00000265627.5	-	2	105	c.95G>A	c.(94-96)cGa>cAa	p.R32Q	PON3_ENST00000475439.1_5'UTR|PON3_ENST00000451904.1_Missense_Mutation_p.R32Q|PON3_ENST00000427422.1_Missense_Mutation_p.R32Q|PON1_ENST00000542556.1_Missense_Mutation_p.R32Q	NM_000940.2	NP_000931.1	Q15166	PON3_HUMAN	paraoxonase 3	32				R -> Q (in Ref. 8; AAC41996). {ECO:0000305}.	aromatic compound catabolic process (GO:0019439)|carboxylic acid catabolic process (GO:0046395)|coumarin catabolic process (GO:0046226)|phenylacetate catabolic process (GO:0010124)|response to external stimulus (GO:0009605)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|intracellular membrane-bounded organelle (GO:0043231)	3,4-dihydrocoumarin hydrolase activity (GO:0018733)|aryldialkylphosphatase activity (GO:0004063)|arylesterase activity (GO:0004064)|dihydrocoumarin hydrolase activity (GO:0047856)|metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)			breast(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(8)|ovary(1)|pancreas(1)|prostate(2)|skin(2)	24	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0151)		Edetic Acid(DB00974)|Lovastatin(DB00227)	CTCCACTTCTCGAGAGGCATT	0.443																																																0													148	119	129					7																	95024006		2203	4300	6503	SO:0001583	missense	5446			L48516, AF320003	CCDS5639.1	7q21.3	2014-03-14			ENSG00000105852	ENSG00000105852	3.1.1.2	"Paraoxonases"	9206	protein-coding gene	gene with protein product	"arylesterase 3"	602720				8661009	Standard	NM_000940		Approved			Q15166	OTTHUMG00000153917	ENST00000265627.5:c.95G>A	7.37:g.95024006C>T	ENSP00000265627:p.Arg32Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1H8|O75855|O76060|Q6IRU9|Q8IX97|Q9BZH9	Missense_Mutation	SNP	ENST00000265627.5	37	CCDS5639.1	.	.	.	.	.	.	.	.	.	.	C	14.52	2.560643	0.45590	.	.	ENSG00000005421;ENSG00000105852;ENSG00000105852	ENST00000542556;ENST00000265627;ENST00000427422	T;T;T	0.42513	0.97;0.97;0.97	4.75	1.89	0.25635	Six-bladed beta-propeller, TolB-like (1);	0.194041	0.42682	D	0.000671	T	0.33206	0.0855	M	0.70108	2.13	0.23198	N	0.998135	B;D;P	0.56968	0.287;0.978;0.625	B;B;B	0.38562	0.016;0.276;0.034	T	0.38373	-0.9664	10	0.56958	D	0.05	-5.999	3.9929	0.09545	0.1878:0.6158:0.0:0.1963	.	32;32;32	B4E2I0;F5H4W9;Q15166	.;.;PON3_HUMAN	Q	32	ENSP00000444854:R32Q;ENSP00000265627:R32Q;ENSP00000413276:R32Q	ENSP00000444854:R32Q	R	-	2	0	PON1;PON3	94861942	0.004000	0.15560	0.809000	0.32408	0.023000	0.10783	0.491000	0.22419	0.706000	0.31912	-0.188000	0.12872	CGA		0.443	PON3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333007.1	NM_000940		T	95024006	C	T	95024006	3	4	630	1	0	0	0	0	1	0	0	0	12257	884	31	1	1001	1	PON3	7	95024006	Missense_Mutation	SNP	C	TCGA-KL-8331-01A-11D-2310-10	8544216	95024006	64114657	22	38796										
PTPRZ1	5803	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	121699937	121699937	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	tgaggccaggagtctttgctGacattgtaagtaacaaggca	12	7	1	2			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr7:121699937G>T	ENST00000393386.2	+	29	7213	c.6802G>T	c.(6802-6804)Gac>Tac	p.D2268Y	PTPRZ1_ENST00000449182.1_Missense_Mutation_p.D1401Y	NM_001206838.1|NM_002851.2	NP_001193767.1|NP_002842.2	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type, Z polypeptide 1	2268	Tyrosine-protein phosphatase 2. {ECO:0000255|PROSITE-ProRule:PRU00160}.				axonogenesis (GO:0007409)|central nervous system development (GO:0007417)|hematopoietic progenitor cell differentiation (GO:0002244)|learning or memory (GO:0007611)|oligodendrocyte differentiation (GO:0048709)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)|regulation of oligodendrocyte progenitor proliferation (GO:0070445)	integral component of plasma membrane (GO:0005887)|perineuronal net (GO:0072534)|proteinaceous extracellular matrix (GO:0005578)	protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(1)|breast(3)|central_nervous_system(4)|cervix(1)|endometrium(4)|kidney(12)|large_intestine(17)|liver(1)|lung(42)|ovary(4)|prostate(5)|skin(8)|upper_aerodigestive_tract(2)|urinary_tract(2)	106						AGTCTTTGCTGACATTGTAAG	0.393																																																0													99	90	93					7																	121699937		2203	4300	6503	SO:0001583	missense	5803			M93426	CCDS34740.1, CCDS56505.1	7q31.3	2013-02-11			ENSG00000106278	ENSG00000106278		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Fibronectin type III domain containing"	9685	protein-coding gene	gene with protein product		176891		PTPZ, PTPRZ		7736789, 8387522	Standard	NM_001206838		Approved	PTP18, RPTPB, phosphacan	uc003vjy.3	P23471	OTTHUMG00000157057	ENST00000393386.2:c.6802G>T	7.37:g.121699937G>T	ENSP00000377047:p.Asp2268Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A4D0W5|C9JFM0|O76043|Q9UDR6	Missense_Mutation	SNP	ENST00000393386.2	37	CCDS34740.1	.	.	.	.	.	.	.	.	.	.	G	21.0	4.076232	0.76415	.	.	ENSG00000106278	ENST00000393386;ENST00000449182	T;T	0.11495	2.77;2.77	6.07	6.07	0.98685	Protein-tyrosine phosphatase, receptor/non-receptor type (3);Protein-tyrosine/Dual-specificity phosphatase (1);	0.000000	0.85682	D	0.000000	T	0.36744	0.0978	M	0.71581	2.175	0.52099	D	0.999941	P;D;D	0.89917	0.937;0.994;1.0	P;D;D	0.87578	0.628;0.953;0.998	T	0.01405	-1.1363	10	0.87932	D	0	.	20.6593	0.99626	0.0:0.0:1.0:0.0	.	1407;1401;2268	P23471-2;C9JFM0;P23471	.;.;PTPRZ_HUMAN	Y	2268;1401	ENSP00000377047:D2268Y;ENSP00000410000:D1401Y	ENSP00000377047:D2268Y	D	+	1	0	PTPRZ1	121487173	1.000000	0.71417	0.993000	0.49108	0.956000	0.61745	4.146000	0.58072	2.885000	0.99019	0.655000	0.94253	GAC		0.393	PTPRZ1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347288.1	NM_002851		T	121699937	G	T	121699937	3	4	630	1	0	0	0	0	1	0	0	0	12827	1290	45	4	6916	4	PTPRZ1	7	121699937	Missense_Mutation	SNP	G	TCGA-KL-8331-01A-11D-2310-10	26675931	121699937	37438726	23	38797										
STRA8	346673	broad.mit.edu	37	chr7	134925328	134925328	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	atgacagagcaacaccccagCtgccagcacagctgcaggag	11	14	0	2			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr7:134925328C>A	ENST00000275764.3	+	2	118	c.118C>A	c.(118-120)Ctg>Atg	p.L40M		NM_182489.1	NP_872295.1			stimulated by retinoic acid 8									p.L40M(1)		breast(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(5)|skin(1)|urinary_tract(1)	16						AACACCCCAGCTGCCAGCACA	0.537																																																1	Substitution - Missense(1)	endometrium(1)											49	56	53					7																	134925328		2203	4300	6503	SO:0001583	missense	346673			AF513502	CCDS5839.1	7q33	2012-12-07	2012-12-07		ENSG00000146857	ENSG00000146857			30653	protein-coding gene	gene with protein product		609987	"stimulated by retinoic acid gene 8 homolog (mouse)", "stimulated by retinoic acid 8 homolog (mouse)"			12489526	Standard	NM_182489		Approved		uc011kpx.2	Q7Z7C7	OTTHUMG00000155415	ENST00000275764.3:c.118C>A	7.37:g.134925328C>A	ENSP00000275764:p.Leu40Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000275764.3	37	CCDS5839.1	.	.	.	.	.	.	.	.	.	.	C	10.87	1.471636	0.26423	.	.	ENSG00000146857	ENST00000275764	.	.	.	4.44	0.198	0.15168	.	0.882556	0.09763	N	0.759043	T	0.28499	0.0705	L	0.34521	1.04	0.09310	N	1	P	0.43094	0.799	B	0.42386	0.386	T	0.17107	-1.0380	9	0.35671	T	0.21	2.1207	8.9823	0.35972	0.2614:0.3107:0.4279:0.0	.	40	Q7Z7C7	STRA8_HUMAN	M	40	.	ENSP00000275764:L40M	L	+	1	2	STRA8	134575868	0.000000	0.05858	0.000000	0.03702	0.006000	0.05464	-0.211000	0.09332	-0.150000	0.11195	0.455000	0.32223	CTG		0.537	STRA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340028.1	NM_182489		A	134925328	C	A	134925328	3	1	630	1	0	0	0	0	1	0	0	0	15335	796	28	4	124	4	STRA8	7	134925328	Missense_Mutation	SNP	C	TCGA-KL-8331-01A-11D-2310-10	13225391	134925328	24213335	24	38798										
ABCF2	10061	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr7	150921103	150921103	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	acacaatgcaagggtgtcttGtcactagggggcatctctcg	12	10	3	0			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr7:150921103G>T	ENST00000287844.2	-	4	574	c.465C>A	c.(463-465)gaC>gaA	p.D155E	ABCF2_ENST00000473874.1_5'Flank|ABCF2_ENST00000222388.2_Missense_Mutation_p.D155E	NM_007189.1	NP_009120.1	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F (GCN20), member 2	155	ABC transporter 1. {ECO:0000255|PROSITE- ProRule:PRU00434}.				transport (GO:0006810)	ATP-binding cassette (ABC) transporter complex (GO:0043190)|membrane (GO:0016020)|mitochondrial envelope (GO:0005740)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|transporter activity (GO:0005215)			breast(1)|central_nervous_system(1)|large_intestine(4)|lung(15)|ovary(1)|skin(2)	24			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AGGGTGTCTTGTCACTAGGGG	0.562																																																0													122	103	109					7																	150921103		2203	4300	6503	SO:0001583	missense	10061			AJ005016	CCDS5922.1, CCDS5923.1	7q36.1	2012-03-14			ENSG00000033050	ENSG00000033050		"ATP binding cassette transporters / subfamily F"	71	protein-coding gene	gene with protein product		612510				8894702	Standard	NM_007189		Approved	EST133090, ABC28, M-ABC1, HUSSY-18	uc003wjo.1	Q9UG63	OTTHUMG00000154570	ENST00000287844.2:c.465C>A	7.37:g.150921103G>T	ENSP00000287844:p.Asp155Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O60864|Q75MJ0|Q75MJ1|Q96TE8	Missense_Mutation	SNP	ENST00000287844.2	37	CCDS5923.1	.	.	.	.	.	.	.	.	.	.	G	12.09	1.833471	0.32421	.	.	ENSG00000033050	ENST00000222388;ENST00000287844;ENST00000468073;ENST00000441774	D;D;T;T	0.91996	-2.9;-2.95;3.92;3.92	5.81	-1.61	0.08399	ATPase, AAA+ type, core (1);ABC transporter-like (1);	0.220386	0.53938	N	0.000048	T	0.81489	0.4833	L	0.32530	0.975	0.38767	D	0.954457	B;B	0.06786	0.001;0.001	B;B	0.16289	0.008;0.015	T	0.62728	-0.6793	10	0.25751	T	0.34	-3.7129	1.7619	0.02994	0.24:0.1044:0.4416:0.214	.	155;155	Q9UG63;Q75MJ1	ABCF2_HUMAN;.	E	155	ENSP00000222388:D155E;ENSP00000287844:D155E;ENSP00000419720:D155E;ENSP00000395785:D155E	ENSP00000222388:D155E	D	-	3	2	ABCF2	150552036	0.781000	0.28676	0.995000	0.50966	0.993000	0.82548	-0.353000	0.07691	-0.121000	0.11787	0.655000	0.94253	GAC		0.562	ABCF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336086.1	NM_005692		T	150921103	G	T	150921103	3	4	630	1	0	0	0	0	1	0	0	0	66	1368	48	4	1495	4	ABCF2	7	150921103	Missense_Mutation	SNP	G	TCGA-KL-8331-01A-11D-2310-10	15995775	150921103	8217560	25	38799										
RP1L1	94137	hgsc.bcm.edu;ucsc.edu	37	chr8	10467237	10467237	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gcacttgggtccgtctcgctGagatgactagggggctctgt	15	10	2	2			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr8:10467237G>T	ENST00000382483.3	-	4	4594	c.4371C>A	c.(4369-4371)ctC>ctA	p.L1457L		NM_178857.5	NP_849188.4	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1537					cell projection organization (GO:0030030)|intracellular signal transduction (GO:0035556)|photoreceptor cell development (GO:0042461)|photoreceptor cell maintenance (GO:0045494)|visual perception (GO:0007601)	axoneme (GO:0005930)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|photoreceptor connecting cilium (GO:0032391)|photoreceptor outer segment (GO:0001750)				breast(5)|central_nervous_system(2)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(4)|kidney(5)|large_intestine(16)|lung(82)|ovary(8)|prostate(5)|skin(6)|upper_aerodigestive_tract(4)|urinary_tract(3)	148				COAD - Colon adenocarcinoma(149;0.0811)		CCGTCTCGCTGAGATGACTAG	0.632																																																0													76	85	82					8																	10467237		1999	4191	6190	SO:0001819	synonymous_variant	94137			AY168346	CCDS43708.1	8p23.1	2011-12-06			ENSG00000183638	ENSG00000183638			15946	protein-coding gene	gene with protein product		608581				12634863	Standard	NM_178857		Approved	DCDC4B	uc003wtc.3	Q8IWN7	OTTHUMG00000163806	ENST00000382483.3:c.4371C>A	8.37:g.10467237G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q86SQ1|Q8IWN8|Q8IWN9|Q8IWP0|Q8IWP1|Q8IWP2	Silent	SNP	ENST00000382483.3	37	CCDS43708.1																																																																																				0.632	RP1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375673.1			T	10467237	G	T	10467237	2	4	630	1	0	0	0	0	0	0	0	1	13546	1277	45	4		4	RP1L1	8	10467237	Silent	SNP	G	TCGA-KL-8331-01A-11D-2310-10		10467237	135896785	26	38800										
KIF13B	23303	ucsc.edu	37	chr8	29035051	29035051	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	ttcgttgctcgttcactgccAgctaaatccaccaggctgag	9	13	1	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr8:29035051A>G	ENST00000524189.1	-	9	803	c.765T>C	c.(763-765)gcT>gcC	p.A255A	KIF13B_ENST00000521515.1_Silent_p.A255A	NM_015254.3	NP_056069.2	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	255	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|protein targeting (GO:0006605)|regulation of axonogenesis (GO:0050770)|signal transduction (GO:0007165)|T cell activation (GO:0042110)	axon (GO:0030424)|cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	14-3-3 protein binding (GO:0071889)|ATP binding (GO:0005524)|microtubule motor activity (GO:0003777)|protein kinase binding (GO:0019901)			endometrium(6)|kidney(1)|lung(20)|urinary_tract(1)	28		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		GTTCACTGCCAGCTAAATCCA	0.473																																																0													143	144	144					8																	29035051		1949	4158	6107	SO:0001819	synonymous_variant	23303			AB014539	CCDS55217.1	8p21	2008-07-30				ENSG00000197892		"Kinesins"	14405	protein-coding gene	gene with protein product		607350				9734811, 10859302, 16864656	Standard	NM_015254		Approved	GAKIN, KIAA0639	uc003xhh.4	Q9NQT8		ENST00000524189.1:c.765T>C	8.37:g.29035051A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DGY5|B5MC45|F8VPJ2|O75134|Q9BYJ6	Silent	SNP	ENST00000524189.1	37	CCDS55217.1																																																																																				0.473	KIF13B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376878.1			G	29035051	A	G	29035051	2	3	630	1	0	0	0	0	0	0	0	1	8282	175	7	3		3	KIF13B	8	29035051	Silent	SNP	A	TCGA-KL-8331-01A-11D-2310-10	18567814	29035051	117328971	27	38801										
TMC1	117531	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	75309495	75309495	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	ggtggaagataagctacctcGaagagagagcttgagaccaa	13	7	0	4			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr9:75309495G>A	ENST00000297784.5	+	7	641	c.101G>A	c.(100-102)cGa>cAa	p.R34Q	TMC1_ENST00000340019.3_Missense_Mutation_p.R34Q|TMC1_ENST00000396237.3_Missense_Mutation_p.R34Q	NM_138691.2	NP_619636.2	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	34	Arg/Asp/Glu/Lys-rich (highly charged).				auditory receptor cell development (GO:0060117)|detection of mechanical stimulus involved in sensory perception of sound (GO:0050910)|vestibular reflex (GO:0060005)	external side of plasma membrane (GO:0009897)|integral component of membrane (GO:0016021)|stereocilium bundle tip (GO:0032426)	voltage-gated calcium channel activity (GO:0005245)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(4)|lung(21)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	36						AAGCTACCTCGAAGAGAGAGC	0.448																																					Pancreas(75;173 1345 14232 34245 43413)											0													133	121	125					9																	75309495		2202	4300	6502	SO:0001583	missense	117531			AF417578	CCDS6643.1	9q21	2014-01-28			ENSG00000165091	ENSG00000165091			16513	protein-coding gene	gene with protein product		606706	"transmembrane, cochlear expressed, 1"	DFNA36, DFNB7, DFNB11		11850618, 11850623	Standard	NM_138691		Approved		uc004aiz.1	Q8TDI8	OTTHUMG00000020014	ENST00000297784.5:c.101G>A	9.37:g.75309495G>A	ENSP00000297784:p.Arg34Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8MVZ2|B1AM91	Missense_Mutation	SNP	ENST00000297784.5	37	CCDS6643.1	.	.	.	.	.	.	.	.	.	.	G	25.2	4.608970	0.87258	.	.	ENSG00000165091	ENST00000297784;ENST00000340019;ENST00000396235;ENST00000537917;ENST00000538054;ENST00000542143;ENST00000396237	T;T;T	0.13420	2.59;2.59;2.59	5.33	5.33	0.75918	.	0.068124	0.56097	D	0.000022	T	0.25121	0.0610	L	0.36672	1.1	0.26515	N	0.974527	D;D	0.58620	0.983;0.983	P;P	0.61201	0.885;0.885	T	0.03025	-1.1081	10	0.40728	T	0.16	-12.3627	15.7578	0.78051	0.0:0.0:1.0:0.0	.	43;34	A4FUA6;Q8TDI8	.;TMC1_HUMAN	Q	34;34;43;43;43;28;34	ENSP00000297784:R34Q;ENSP00000341433:R34Q;ENSP00000379538:R34Q	ENSP00000297784:R34Q	R	+	2	0	TMC1	74499315	0.994000	0.37717	0.976000	0.42696	0.990000	0.78478	4.741000	0.62095	2.484000	0.83849	0.650000	0.86243	CGA		0.448	TMC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052655.1			A	75309495	G	A	75309495	3	1	630	1	0	0	0	0	1	0	0	0	15996	1058	37	1	111	1	TMC1	9	75309495	Missense_Mutation	SNP	G	TCGA-KL-8331-01A-11D-2310-10		75309495	65903936	28	38802										
CRB2	286204	ucsc.edu;bcgsc.ca	37	chr9	126137497	126137497	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	agcccccctccctctccaggTgtcaggtccccactctcccc	6	23	3	0			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr9:126137497T>C	ENST00000373631.3	+	12	3509	c.3508T>C	c.(3508-3510)Tgt>Cgt	p.C1170R	CRB2_ENST00000373629.2_Splice_Site_p.C838R	NM_173689.5	NP_775960.4	Q5IJ48	CRUM2_HUMAN	crumbs family member 2	1170	EGF-like 14. {ECO:0000255|PROSITE- ProRule:PRU00076}.				cardiovascular system development (GO:0072358)|maintenance of epithelial cell apical/basal polarity (GO:0045199)|mesoderm formation (GO:0001707)|negative regulation of endopeptidase activity (GO:0010951)|notochord formation (GO:0014028)|positive regulation of BMP signaling pathway (GO:0030513)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|somitogenesis (GO:0001756)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	calcium ion binding (GO:0005509)|enzyme binding (GO:0019899)	p.C1170S(1)		NS(2)|breast(1)|cervix(1)|endometrium(2)|lung(11)|ovary(1)|prostate(2)|skin(3)	23						CCTCTCCAGGTGTCAGGTCCC	0.617																																																1	Substitution - Missense(1)	lung(1)											60	65	63					9																	126137497		2203	4300	6503	SO:0001630	splice_region_variant	286204			AK095783	CCDS6852.2	9q33.2	2014-02-06	2014-02-06		ENSG00000148204	ENSG00000148204			18688	protein-coding gene	gene with protein product		609720	"crumbs homolog 2 (Drosophila)"			14767562	Standard	XM_005251934		Approved	FLJ38464, FLJ16786	uc004bnx.1	Q5IJ48	OTTHUMG00000020638	ENST00000373631.3:c.3507-1T>C	9.37:g.126137497T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2A3N4|Q0QD46|Q5JS41|Q5JS43|Q6ZTA9|Q6ZWI6	Missense_Mutation	SNP	ENST00000373631.3	37	CCDS6852.2	.	.	.	.	.	.	.	.	.	.	.	21.2	4.106936	0.77096	.	.	ENSG00000148204	ENST00000373631;ENST00000373629	D;D	0.95656	-2.67;-3.77	4.87	4.87	0.63330	Epidermal growth factor-like (1);EGF-like region, conserved site (1);Epidermal growth factor-like, type 3 (1);	0.000000	0.48286	D	0.000189	D	0.98280	0.9430	H	0.94423	3.535	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.99552	1.0966	10	0.87932	D	0	.	14.6481	0.68774	0.0:0.0:0.0:1.0	.	1170	Q5IJ48	CRUM2_HUMAN	R	1170;838	ENSP00000362734:C1170R;ENSP00000362732:C838R	ENSP00000362732:C838R	C	+	1	0	CRB2	125177318	1.000000	0.71417	0.997000	0.53966	0.218000	0.24690	4.723000	0.61965	2.052000	0.61016	0.459000	0.35465	TGT		0.617	CRB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053990.3	NM_173689	Missense_Mutation	C	126137497	T	C	126137497	5	2	630	1	0	0	0	0	0	0	1	0	3851	1710	59	3	3554	3	CRB2	9	126137497	Splice_Site	SNP	T	TCGA-KL-8331-01A-11D-2310-10	50828002	126137497	15075934	29	38803										
MLLT10	8028	bcgsc.ca	37	chr10	21884308	21884308	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	tattccagaggtacaatttgCcaatgtttccacaatggaac	7	9	0	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr10:21884308C>T	ENST00000307729.7	+	5	522	c.344C>T	c.(343-345)gCc>gTc	p.A115V	MLLT10_ENST00000377059.3_Missense_Mutation_p.A115V|MLLT10_ENST00000377072.3_Missense_Mutation_p.A115V|MLLT10_ENST00000446906.2_Missense_Mutation_p.A115V|MLLT10_ENST00000495130.1_3'UTR			P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 10	115	Self-association.				positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			NS(1)|large_intestine(2)|lung(1)|skin(1)|upper_aerodigestive_tract(1)	6						GTACAATTTGCCAATGTTTCC	0.328			T	"MLL, PICALM, CDK6"	AL																																		Dom	yes		10	10p12	8028	"myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 10 (AF10)"		L	0													114	105	108					10																	21884308		2203	4300	6503	SO:0001583	missense	8028			U13948	CCDS7135.1, CCDS55706.1, CCDS55707.1, CCDS55708.1	10p12	2013-01-28	2001-11-28		ENSG00000078403	ENSG00000078403		"Zinc fingers, PHD-type"	16063	protein-coding gene	gene with protein product		602409	"myeloid/lymphoid or mixed-lineage leukemia (trithorax (Drosophila) homolog); translocated to, 10"			7888665	Standard	NM_004641		Approved	AF10	uc021pny.1	P55197	OTTHUMG00000017799	ENST00000307729.7:c.344C>T	10.37:g.21884308C>T	ENSP00000307411:p.Ala115Val	Somatic		WXS	Illumina HiSeq	Phase_I	B1ANA8|Q5JT37|Q5VX90|Q66K63	Missense_Mutation	SNP	ENST00000307729.7	37	CCDS55708.1	.	.	.	.	.	.	.	.	.	.	C	28.7	4.939134	0.92526	.	.	ENSG00000078403	ENST00000377072;ENST00000446906;ENST00000307729;ENST00000377059	T;T;T;T	0.13778	2.56;2.56;2.56;2.56	4.1	4.1	0.47936	.	0.147655	0.44688	U	0.000437	T	0.13713	0.0332	L	0.33624	1.015	0.80722	D	1	P;P;P	0.41188	0.741;0.643;0.741	B;B;B	0.39771	0.309;0.187;0.309	T	0.06935	-1.0799	10	0.87932	D	0	.	16.4955	0.84242	0.0:1.0:0.0:0.0	.	115;115;115	E9PBP4;Q5VX90;P55197	.;.;AF10_HUMAN	V	115	ENSP00000366272:A115V;ENSP00000401406:A115V;ENSP00000307411:A115V;ENSP00000366258:A115V	ENSP00000307411:A115V	A	+	2	0	MLLT10	21924314	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	7.647000	0.83462	2.098000	0.63641	0.313000	0.20887	GCC		0.328	MLLT10-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000047136.1			T	21884308	C	T	21884308	3	4	630	1	0	0	0	0	1	0	0	0	9633	739	26	2	358	2	MLLT10	10	21884308	Missense_Mutation	SNP	C	TCGA-KL-8331-01A-11D-2310-10		21884308	113650439	30	38804										
CHST3	9469	mdanderson.org	37	chr10	73767859	73767859	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gtccgcggagctggggctgcGgcagcccgcctggctgcggg	20	14	0	0	rs3740129	byFrequency	TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr10:73767859G>A	ENST00000373115.4	+	3	1507	c.1070G>A	c.(1069-1071)cGg>cAg	p.R357Q		NM_004273.4	NP_004264.2	Q7LGC8	CHST3_HUMAN	carbohydrate (chondroitin 6) sulfotransferase 3	357			R -> Q (in dbSNP:rs3740129). {ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:18513679}.		carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|glycosaminoglycan metabolic process (GO:0030203)|small molecule metabolic process (GO:0044281)|sulfur compound metabolic process (GO:0006790)|T cell homeostasis (GO:0043029)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	chondroitin 6-sulfotransferase activity (GO:0008459)|proteoglycan sulfotransferase activity (GO:0050698)|sulfotransferase activity (GO:0008146)			endometrium(1)|lung(5)	6						CTGGGGCTGCGGCAGCCCGCC	0.731													G|||	1372	0.273962	0.2474	0.3804	5008	,	,		13396	0.0893		0.4314	False		,,,				2504	0.2628															0								G	GLN/ARG	926,2546		181,564,991	5	4	5		1070	1.5	1	10	dbSNP_107	5	2693,3941		661,1371,1285	no	missense	CHST3	NM_004273.4	43	842,1935,2276	AA,AG,GG		40.5939,26.6705,35.8104	benign	357/480	73767859	3619,6487	1736	3317	5053	SO:0001583	missense	9469			AB017915	CCDS7312.1	10q22.1	2007-03-14			ENSG00000122863	ENSG00000122863		"Sulfotransferases, membrane-bound"	1971	protein-coding gene	gene with protein product		603799				9883891, 9714738	Standard	NM_004273		Approved	C6ST, C6ST1	uc001jsn.3	Q7LGC8	OTTHUMG00000018431	ENST00000373115.4:c.1070G>A	10.37:g.73767859G>A	ENSP00000362207:p.Arg357Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O75099|Q52M30	Missense_Mutation	SNP	ENST00000373115.4	37	CCDS7312.1	626	0.2866300366300366	130	0.26422764227642276	137	0.3784530386740331	53	0.09265734265734266	306	0.40369393139841686	G	11.05	1.523657	0.27299	0.266705	0.405939	ENSG00000122863	ENST00000373115	D	0.82344	-1.6	5.55	1.52	0.23074	Sulfotransferase domain (1);	0.352881	0.31554	N	0.007455	T	0.00012	0.0000	N	0.11789	0.175	0.80722	P	0.0	B	0.09022	0.002	B	0.12837	0.008	T	0.27806	-1.0063	9	0.17369	T	0.5	-21.3549	8.2168	0.31516	0.403:0.0:0.597:0.0	rs3740129	357	Q7LGC8	CHST3_HUMAN	Q	357	ENSP00000362207:R357Q	ENSP00000362207:R357Q	R	+	2	0	CHST3	73437865	0.005000	0.15991	0.982000	0.44146	0.988000	0.76386	0.338000	0.19858	0.021000	0.15133	-0.258000	0.10820	CGG		0.731	CHST3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048563.1	NM_004273		A	73767859	G	A	73767859	3	1	630	1	0	0	0	0	1	0	0	0	3407	1116	39	1	1076	1	CHST3	10	73767859	Missense_Mutation	SNP	G	TCGA-KL-8331-01A-11D-2310-10	51883551	73767859	61766888	31	38805										
MARCH5	54708	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	94071001	94071001	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	ttcaccaggcctgtctacaaCgctgggtggatgaaaagcaa	11	10	2	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr10:94071001C>T	ENST00000358935.2	+	2	477	c.145C>T	c.(145-147)Cgc>Tgc	p.R49C	MARCH5_ENST00000467521.2_3'UTR	NM_017824.4	NP_060294.1	Q9NX47	MARH5_HUMAN	membrane-associated ring finger (C3HC4) 5	49					negative regulation of cell aging (GO:0090344)|positive regulation of mitochondrial fission (GO:0090141)|protein autoubiquitination (GO:0051865)|protein localization to mitochondrion (GO:0070585)|protein polyubiquitination (GO:0000209)|regulation of mitochondrial fission (GO:0090140)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|mitochondrial outer membrane (GO:0005741)	GTPase binding (GO:0051020)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			endometrium(1)|kidney(2)|large_intestine(1)|lung(3)|skin(1)|urinary_tract(1)	9						CTGTCTACAACGCTGGGTGGA	0.448																																																0													88	76	80					10																	94071001		2203	4300	6503	SO:0001583	missense	54708			BC015480	CCDS7420.1	10q23.32-q23.33	2013-01-09	2005-01-26	2005-01-27	ENSG00000198060	ENSG00000198060		"MARCH membrane-associated ring fingers", "RING-type (C3HC4) zinc fingers"	26025	protein-coding gene	gene with protein product		610637	"ring finger protein 153"	RNF153		14722266	Standard	XM_005269923		Approved	FLJ20445, MARCH-V	uc001khx.1	Q9NX47	OTTHUMG00000018757	ENST00000358935.2:c.145C>T	10.37:g.94071001C>T	ENSP00000351813:p.Arg49Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000358935.2	37	CCDS7420.1	.	.	.	.	.	.	.	.	.	.	C	23.6	4.438339	0.83885	.	.	ENSG00000198060	ENST00000358935	T	0.47177	0.85	5.46	5.46	0.80206	Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, RING-CH-type (2);	0.000000	0.85682	D	0.000000	T	0.76716	0.4026	H	0.94847	3.59	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	T	0.83125	-0.0116	10	0.87932	D	0	-0.4	14.182	0.65580	0.1497:0.8503:0.0:0.0	.	49	Q9NX47	MARH5_HUMAN	C	49	ENSP00000351813:R49C	ENSP00000351813:R49C	R	+	1	0	MARCH5	94060981	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	3.540000	0.53611	2.559000	0.86315	0.655000	0.94253	CGC		0.448	MARCH5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049388.1	NM_017824		T	94071001	C	T	94071001	3	4	630	1	0	0	0	0	1	0	0	0	9311	536	19	1	151	1	MARCH5	10	94071001	Missense_Mutation	SNP	C	TCGA-KL-8331-01A-11D-2310-10	20303142	94071001	41463746	32	38806										
DMBT1	1755	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr10	124399735	124399735	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gctaataacaccatccaggtCgaggaagtccagtatggcaa	10	10	0	0			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr10:124399735C>T	ENST00000338354.3	+	52	6841	c.6735C>T	c.(6733-6735)gtC>gtT	p.V2245V	DMBT1_ENST00000359586.6_Silent_p.V965V|DMBT1_ENST00000368955.3_Silent_p.V2235V|DMBT1_ENST00000368956.2_Silent_p.V1617V|DMBT1_ENST00000330163.4_Silent_p.V1617V|DMBT1_ENST00000344338.3_Silent_p.V2235V|DMBT1_ENST00000368909.3_Silent_p.V2245V			Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1	2245	ZP. {ECO:0000255|PROSITE- ProRule:PRU00375}.				defense response to virus (GO:0051607)|epithelial cell differentiation (GO:0030855)|induction of bacterial agglutination (GO:0043152)|innate immune response (GO:0045087)|inner cell mass cell proliferation (GO:0001833)|pattern recognition receptor signaling pathway (GO:0002221)|positive regulation of epithelial cell differentiation (GO:0030858)|protein transport (GO:0015031)|receptor-mediated endocytosis (GO:0006898)|viral process (GO:0016032)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|phagocytic vesicle membrane (GO:0030670)|proteinaceous extracellular matrix (GO:0005578)|zymogen granule membrane (GO:0042589)	calcium-dependent protein binding (GO:0048306)|scavenger receptor activity (GO:0005044)|signaling pattern recognition receptor activity (GO:0008329)|zymogen binding (GO:0035375)			breast(2)|central_nervous_system(7)|cervix(3)|endometrium(8)|kidney(1)|large_intestine(1)|lung(46)|prostate(1)|urinary_tract(3)	72		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				CCATCCAGGTCGAGGAAGTCC	0.468																																					Ovarian(182;93 2026 18125 22222 38972)											0													270	253	259					10																	124399735		2060	4205	6265	SO:0001819	synonymous_variant	1755				CCDS44490.1, CCDS44491.1, CCDS44492.1	10q25.3-q26.1	2008-08-01			ENSG00000187908	ENSG00000187908			2926	protein-coding gene	gene with protein product		601969				9288095, 17548659	Standard	NM_004406		Approved	GP340, muclin	uc001lgk.1	Q9UGM3	OTTHUMG00000019185	ENST00000338354.3:c.6735C>T	10.37:g.124399735C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NDG4|A6NDJ5|A8E4R5|B1ARE7|B1ARE8|B1ARE9|B1ARF0|B7Z8Y2|F8WEF7|Q59EX0|Q5JR26|Q6MZN4|Q96DU4|Q9UGM2|Q9UJ57|Q9UKJ4|Q9Y211|Q9Y4V9	Silent	SNP	ENST00000338354.3	37																																																																																					0.468	DMBT1-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000050792.2	NM_004406		T	124399735	C	T	124399735	2	4	630	1	0	0	0	0	0	0	0	1	4579	871	31	1		1	DMBT1	10	124399735	Silent	SNP	C	TCGA-KL-8331-01A-11D-2310-10	30328734	124399735	11135012	33	38807										
KCNQ1	3784	ucsc.edu	37	chr11	2797283	2797283	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gcatcaaggagctgcagaggAggtgggcacggccaaacggc	17	10	1	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr11:2797283A>G	ENST00000155840.5	+	13	1792	c.1684A>G	c.(1684-1686)Agg>Ggg	p.R562G	KCNQ1_ENST00000335475.5_Splice_Site_p.R435G	NM_000218.2	NP_000209.2	P51787	KCNQ1_HUMAN	potassium voltage-gated channel, KQT-like subfamily, member 1	562					atrial cardiac muscle cell action potential (GO:0086014)|cardiac muscle contraction (GO:0060048)|cardiovascular system development (GO:0072358)|cellular response to cAMP (GO:0071320)|cellular response to drug (GO:0035690)|cellular response to epinephrine stimulus (GO:0071872)|gene silencing (GO:0016458)|male gonad development (GO:0008584)|membrane repolarization during action potential (GO:0086011)|membrane repolarization during cardiac muscle cell action potential (GO:0086013)|negative regulation of insulin secretion (GO:0046676)|positive regulation of gastric acid secretion (GO:0060454)|positive regulation of potassium ion transmembrane transport (GO:1901381)|potassium ion export (GO:0071435)|potassium ion transmembrane transport (GO:0071805)|regulation of atrial cardiac muscle cell membrane repolarization (GO:0060372)|regulation of gene expression by genetic imprinting (GO:0006349)|regulation of heart contraction (GO:0008016)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of membrane repolarization (GO:0060306)|regulation of ventricular cardiac muscle cell membrane repolarization (GO:0060307)|sensory perception of sound (GO:0007605)|synaptic transmission (GO:0007268)|ventricular cardiac muscle cell action potential (GO:0086005)	basolateral plasma membrane (GO:0016323)|early endosome (GO:0005769)|late endosome (GO:0005770)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|voltage-gated potassium channel complex (GO:0008076)|zymogen granule membrane (GO:0042589)	calmodulin binding (GO:0005516)|delayed rectifier potassium channel activity (GO:0005251)|ion channel binding (GO:0044325)|outward rectifier potassium channel activity (GO:0015271)|protein kinase A catalytic subunit binding (GO:0034236)|protein kinase A regulatory subunit binding (GO:0034237)|protein phosphatase 1 binding (GO:0008157)|scaffold protein binding (GO:0097110)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated potassium channel activity involved in atrial cardiac muscle cell action potential repolarization (GO:0086089)|voltage-gated potassium channel activity involved in cardiac muscle cell action potential repolarization (GO:0086008)|voltage-gated potassium channel activity involved in ventricular cardiac muscle cell action potential repolarization (GO:1902282)			endometrium(1)|kidney(1)|large_intestine(2)|lung(9)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|stomach(2)	21		all_epithelial(84;3.26e-05)|Breast(177;0.001)|Medulloblastoma(188;0.00111)|Ovarian(85;0.00158)|all_neural(188;0.00725)|all_lung(207;0.11)|Lung NSC(207;0.159)		BRCA - Breast invasive adenocarcinoma(625;0.00251)|Lung(200;0.131)	Bepridil(DB01244)|Indapamide(DB00808)	GCTGCAGAGGAGGTGGGCACG	0.677																																																0			GRCh37	CD044138	KCNQ1	D							59	45	50					11																	2797283		2179	4266	6445	SO:0001630	splice_region_variant	3784			AF000571	CCDS7736.1	11p15.5	2014-09-17			ENSG00000053918	ENSG00000053918		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6294	protein-coding gene	gene with protein product	"Jervell and Lange-Nielsen syndrome 1"	607542		LQT, KCNA9		8528244, 16382104	Standard	NM_181798		Approved	Kv7.1, KCNA8, KVLQT1, JLNS1, LQT1	uc001lwn.3	P51787	OTTHUMG00000009900	ENST00000155840.5:c.1685+1A>G	11.37:g.2797283A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O00347|O60607|O94787|Q14D14|Q7Z6G9|Q92960|Q9UMN8|Q9UMN9	Missense_Mutation	SNP	ENST00000155840.5	37	CCDS7736.1	.	.	.	.	.	.	.	.	.	.	A	20.7	4.041555	0.75732	.	.	ENSG00000053918	ENST00000155840;ENST00000335475	D;D	0.99882	-7.48;-7.48	3.78	3.78	0.43462	Potassium channel, voltage dependent, KCNQ, C-terminal (1);	0.279693	0.34700	N	0.003753	D	0.99859	0.9934	M	0.86178	2.8	0.58432	D	0.999997	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;0.998	D	0.96474	0.9351	10	0.87932	D	0	-37.0564	10.783	0.46388	1.0:0.0:0.0:0.0	.	435;435;562	P51787-2;Q14D14;P51787	.;.;KCNQ1_HUMAN	G	562;435	ENSP00000155840:R562G;ENSP00000334497:R435G	ENSP00000155840:R562G	R	+	1	2	KCNQ1	2753859	1.000000	0.71417	0.999000	0.59377	0.898000	0.52572	2.557000	0.45871	1.720000	0.51447	0.459000	0.35465	AGG		0.677	KCNQ1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000027382.2	NM_000218	Missense_Mutation	G	2797283	A	G	2797283	5	3	630	1	0	0	0	0	0	0	1	0	8089	318	11	3	1743	3	KCNQ1	11	2797283	Splice_Site	SNP	A	TCGA-KL-8331-01A-11D-2310-10		2797283	132209233	34	38808										
CDC42BPG	55561	ucsc.edu	37	chr11	64601933	64601933	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	agctgggcctcctgcacctgTgtcagccgctcctgcaggcc	12	17	1	0	rs7933683	byFrequency	TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr11:64601933T>C	ENST00000342711.5	-	19	2291	c.2292A>G	c.(2290-2292)acA>acG	p.T764T	CDC42BPG_ENST00000491280.1_5'Flank	NM_017525.2	NP_059995.2			CDC42 binding protein kinase gamma (DMPK-like)											central_nervous_system(1)|lung(3)	4						CCTGCACCTGTGTCAGCCGCT	0.706													C|||	1376	0.27476	0.0424	0.2147	5008	,	,		15170	0.4921		0.2575	False		,,,				2504	0.4254															0								C		284,3850		12,260,1795	6	7	6		2292	-6.1	0.8	11	dbSNP_116	6	1681,6531		171,1339,2596	no	coding-synonymous	CDC42BPG	NM_017525.2		183,1599,4391	CC,CT,TT		20.47,6.8699,15.9161		764/1552	64601933	1965,10381	2067	4106	6173	SO:0001819	synonymous_variant	55561			AY648038	CCDS31601.1	11q13	2013-01-10			ENSG00000171219	ENSG00000171219		"Pleckstrin homology (PH) domain containing"	29829	protein-coding gene	gene with protein product		613991				9341881, 15194684	Standard	NM_017525		Approved	HSMDPKIN, MRCKgamma, DMPK2, kappa-200	uc001obs.4	Q6DT37	OTTHUMG00000045365	ENST00000342711.5:c.2292A>G	11.37:g.64601933T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000342711.5	37	CCDS31601.1																																																																																				0.706	CDC42BPG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000105352.4	XM_290516		C	64601933	T	C	64601933	2	2	630	1	0	0	0	0	0	0	0	1	3076	1683	59	3		3	CDC42BPG	11	64601933	Silent	SNP	T	TCGA-KL-8331-01A-11D-2310-10	61804650	64601933	70404583	35	38809										
SLC6A13	6540	ucsc.edu	37	chr12	332318	332318	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	cgtaaacccaagccacacagAgggactcgaagatggccacg	11	13	0	2			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr12:332318A>G	ENST00000343164.4	-	12	1446	c.1394T>C	c.(1393-1395)cTc>cCc	p.L465P	SLC6A13_ENST00000445055.2_Missense_Mutation_p.L373P|SLC6A13_ENST00000539668.1_5'UTR	NM_016615.4	NP_057699.2	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter transporter), member 13	465					neurotransmitter secretion (GO:0007269)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	gamma-aminobutyric acid:sodium symporter activity (GO:0005332)|neurotransmitter:sodium symporter activity (GO:0005328)			NS(1)|autonomic_ganglia(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(7)|lung(11)|prostate(1)|urinary_tract(1)	28	all_cancers(10;0.0416)|all_epithelial(11;0.0537)|all_lung(10;0.0989)|Lung NSC(10;0.139)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00153)|BRCA - Breast invasive adenocarcinoma(9;0.239)			AGCCACACAGAGGGACTCGAA	0.547																																																0													151	118	129					12																	332318		2203	4300	6503	SO:0001583	missense	6540			U76343	CCDS8502.1, CCDS53729.1, CCDS58198.1	12p13.33	2013-07-19	2013-07-19		ENSG00000010379	ENSG00000010379		"Solute carriers"	11046	protein-coding gene	gene with protein product	"GABA transporter 2"	615097	"solute carrier family 6 (neurotransmitter transporter, GABA), member 13"				Standard	NM_001243392		Approved	GAT2	uc001qic.2	Q9NSD5	OTTHUMG00000168053	ENST00000343164.4:c.1394T>C	12.37:g.332318A>G	ENSP00000339260:p.Leu465Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DJL1|Q8TCC2|Q8WW56	Missense_Mutation	SNP	ENST00000343164.4	37	CCDS8502.1	.	.	.	.	.	.	.	.	.	.	A	23.9	4.471544	0.84533	.	.	ENSG00000010379	ENST00000445055;ENST00000313154;ENST00000343164	T;T	0.77229	-1.08;-1.08	4.8	4.8	0.61643	.	0.646127	0.16228	N	0.223738	D	0.87402	0.6168	M	0.76433	2.335	0.80722	D	1	P;P;P	0.52463	0.779;0.953;0.953	P;D;D	0.70487	0.718;0.969;0.924	D	0.88156	0.2854	10	0.87932	D	0	.	14.3492	0.66688	1.0:0.0:0.0:0.0	.	373;444;465	B4DJL1;B4DJS3;Q9NSD5	.;.;S6A13_HUMAN	P	373;444;465	ENSP00000407104:L373P;ENSP00000339260:L465P	ENSP00000318097:L444P	L	-	2	0	SLC6A13	202579	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.519000	0.81809	1.796000	0.52611	0.459000	0.35465	CTC		0.547	SLC6A13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397801.1	NM_016615		G	332318	A	G	332318	3	3	630	1	0	0	0	0	1	0	0	0	14689	304	11	3	430	3	SLC6A13	12	332318	Missense_Mutation	SNP	A	TCGA-KL-8331-01A-11D-2310-10		332318	133519577	36	38810										
AICDA	57379	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	8759502	8759502	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gtccagtgaaaaggatgtagCactgtcacgcctcttcacta	9	11	3	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr12:8759502C>T	ENST00000229335.6	-	2	218	c.115G>A	c.(115-117)Gct>Act	p.A39T	AICDA_ENST00000537228.1_Missense_Mutation_p.A39T	NM_020661.2	NP_065712.1	Q9GZX7	AICDA_HUMAN	activation-induced cytidine deaminase	39	Important for interaction with CTNNBL1.				B cell differentiation (GO:0030183)|cellular response to lipopolysaccharide (GO:0071222)|DNA demethylation (GO:0080111)|isotype switching (GO:0045190)|mRNA processing (GO:0006397)|negative regulation of methylation-dependent chromatin silencing (GO:0090310)|somatic diversification of immunoglobulins (GO:0016445)|somatic hypermutation of immunoglobulin genes (GO:0016446)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	cytidine deaminase activity (GO:0004126)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(4)|ovary(2)|pancreas(1)	16	Lung SC(5;0.184)					AAGGATGTAGCACTGTCACGC	0.453																																					GBM(62;896 1067 5527 26594 30137)											0													92	89	90					12																	8759502		1990	4153	6143	SO:0001583	missense	57379			AB040430	CCDS41747.1	12p13	2014-09-17			ENSG00000111732	ENSG00000111732		"Apolipoprotein B mRNA editing enzymes"	13203	protein-coding gene	gene with protein product		605257					Standard	NM_020661		Approved	HIGM2, CDA2, ARP2, AID	uc001qur.2	Q9GZX7	OTTHUMG00000168676	ENST00000229335.6:c.115G>A	12.37:g.8759502C>T	ENSP00000229335:p.Ala39Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6QJ81|Q8NFC1	Missense_Mutation	SNP	ENST00000229335.6	37	CCDS41747.1	.	.	.	.	.	.	.	.	.	.	C	15.21	2.764473	0.49574	.	.	ENSG00000111732	ENST00000229335;ENST00000537228	T;T	0.65549	-0.16;-0.16	5.36	4.46	0.54185	APOBEC-like, N-terminal (1);	0.155473	0.64402	D	0.000017	T	0.47764	0.1463	N	0.19112	0.55	0.41782	D	0.989827	P;B;P	0.39352	0.454;0.042;0.669	B;B;B	0.41374	0.192;0.089;0.355	T	0.46386	-0.9195	10	0.38643	T	0.18	-18.6958	9.9657	0.41723	0.1563:0.6929:0.1508:0.0	.	39;39;39	Q9GZX7;Q6QJ80;Q6QJ81	AICDA_HUMAN;.;.	T	39	ENSP00000229335:A39T;ENSP00000445691:A39T	ENSP00000229335:A39T	A	-	1	0	AICDA	8650769	1.000000	0.71417	0.991000	0.47740	0.872000	0.50106	3.930000	0.56522	1.239000	0.43787	0.467000	0.42956	GCT		0.453	AICDA-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000400575.1	NM_020661		T	8759502	C	T	8759502	3	4	630	1	0	0	0	0	1	0	0	0	422	710	25	2	497	2	AICDA	12	8759502	Missense_Mutation	SNP	C	TCGA-KL-8331-01A-11D-2310-10	8427184	8759502	125092393	37	38811										
TAS2R31	259290	bcgsc.ca	37	chr12	11183042	11183042	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	tctctcctttcacccagtacCtcacttgccgcaaaactgaa	4	16	3	1	rs3759246	byFrequency	TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr12:11183042C>G	ENST00000390675.2	-	1	964	c.893G>C	c.(892-894)aGg>aCg	p.R298T	PRR4_ENST00000536668.1_Intron|TAS2R14_ENST00000381852.4_Intron	NM_176885.2	NP_795366.2	P59538	T2R31_HUMAN	taste receptor, type 2, member 31	298					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			kidney(1)|lung(6)	7						CACCCAGTACCTCACTTGCCG	0.418																																																0													200	202	201					12																	11183042		1968	4187	6155	SO:0001583	missense	259290			AX097748, AF494228	CCDS53747.1	12p13.2	2012-08-22				ENSG00000256436		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19113	protein-coding gene	gene with protein product		612669	"taste receptor, type 2, member 44"	TAS2R44			Standard	NM_176885		Approved	T2R31, T2R53	uc001qzo.1	P59538		ENST00000390675.2:c.893G>C	12.37:g.11183042C>G	ENSP00000375093:p.Arg298Thr	Somatic		WXS	Illumina HiSeq	Phase_I	P59547|Q17R84|Q645X5	Missense_Mutation	SNP	ENST00000390675.2	37	CCDS53747.1	.	.	.	.	.	.	.	.	.	.	.	10.34	1.323373	0.24080	.	.	ENSG00000256436	ENST00000390675	T	0.38077	1.16	2.61	-0.464	0.12160	.	.	.	.	.	T	0.32285	0.0824	L	0.33792	1.035	0.09310	N	1	P	0.40681	0.727	P	0.49085	0.6	T	0.23440	-1.0188	9	0.44086	T	0.13	.	5.1028	0.14768	0.0:0.5087:0.0:0.4913	rs3759246	298	P59538	T2R31_HUMAN	T	298	ENSP00000375093:R298T	ENSP00000375093:R298T	R	-	2	0	TAS2R31	11074309	0.000000	0.05858	0.001000	0.08648	0.043000	0.13939	-2.166000	0.01273	-0.264000	0.09365	0.184000	0.17185	AGG		0.418	TAS2R31-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400233.1	NM_176885		G	11183042	C	G	11183042	3	3	630	1	0	0	0	0	1	0	0	0	15586	681	24	4	40	4	TAS2R31	12	11183042	Missense_Mutation	SNP	C	TCGA-KL-8331-01A-11D-2310-10	2423540	11183042	122668853	38	38812										
TAS2R43	259289	mdanderson.org	37	chr12	11244369	11244369	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	tccttcaaattcttttgtccGcacaatctcattcatgttta	3	11	4	0	rs200586631	byFrequency	TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr12:11244369G>A	ENST00000531678.1	-	1	543	c.460C>T	c.(460-462)Cgg>Tgg	p.R154W	PRR4_ENST00000536668.1_Intron|TAS2R14_ENST00000381852.4_Intron	NM_176884.2	NP_795365.2	P59537	T2R43_HUMAN	taste receptor, type 2, member 43	154					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)|G-protein coupled receptor signaling pathway (GO:0007186)	integral component of membrane (GO:0016021)|motile cilium (GO:0031514)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)|taste receptor activity (GO:0008527)			endometrium(1)|ovary(1)|prostate(2)|urinary_tract(1)	5			OV - Ovarian serous cystadenocarcinoma(49;0.0344)	BRCA - Breast invasive adenocarcinoma(232;0.196)		TCTTTTGTCCGCACAATCTCA	0.368													.|||	2	0.000399361	0.0015	0.0	5008	,	,		14006	0.0		0.0	False		,,,				2504	0.0															0													76	68	71					12																	11244369		1796	3334	5130	SO:0001583	missense	259289			AF494237	CCDS53749.1	12p13.2	2012-08-22				ENSG00000255374		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	18875	protein-coding gene	gene with protein product		612668				12379855	Standard	NM_176884		Approved	T2R52	uc001qzq.1	P59537		ENST00000531678.1:c.460C>T	12.37:g.11244369G>A	ENSP00000431719:p.Arg154Trp	Somatic		WXS	Illumina HiSeq	Phase_I	P59546|Q645X4	Missense_Mutation	SNP	ENST00000531678.1	37	CCDS53749.1	.	.	.	.	.	.	.	.	.	.	-	0.004	-2.315340	0.00235	.	.	ENSG00000255374	ENST00000531678	T	0.37584	1.19	2.01	1.05	0.20165	.	.	.	.	.	T	0.09069	0.0224	N	0.01009	-1.055	0.09310	N	1	B	0.06786	0.001	B	0.06405	0.002	T	0.35500	-0.9786	9	0.02654	T	1	.	4.5717	0.12214	0.2129:0.0:0.7871:0.0	.	154	P59537	T2R43_HUMAN	W	154	ENSP00000431719:R154W	ENSP00000431719:R154W	R	-	1	2	TAS2R43	11135636	0.000000	0.05858	0.001000	0.08648	0.013000	0.08279	-0.836000	0.04382	0.165000	0.19558	0.195000	0.17529	CGG		0.368	TAS2R43-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383561.1	NM_176884		A	11244369	G	A	11244369	3	1	630	1	0	0	0	0	1	0	0	0	15593	1086	38	1	473	1	TAS2R43	12	11244369	Missense_Mutation	SNP	G	TCGA-KL-8331-01A-11D-2310-10	61327	11244369	122607526	39	38813										
TAS2R30	259293	broad.mit.edu	37	chr12	11286136	11286137	+	Frame_Shift_Ins	INS	-	-	A													0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gaaagtaaatggcacataacINSagaagaaaggaggtcacagt							TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr12:11286136_11286137insA	ENST00000539585.1	-	1	1106_1107	c.707_708insT	c.(706-708)ctgfs	p.L236fs	PRR4_ENST00000536668.1_Intron|TAS2R14_ENST00000381852.4_Intron	NM_001097643.1	NP_001091112.1	P59541	T2R30_HUMAN	taste receptor, type 2, member 30	236					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			autonomic_ganglia(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(4)|skin(1)	13						TGGCACATAACAGAAGAAAGGA	0.411																																																0																																										SO:0001589	frameshift_variant	259293			AX097746, AF494233	CCDS53750.1	12p13.2	2012-08-22				ENSG00000256188		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19112	protein-coding gene	gene with protein product		613963	"taste receptor, type 2, member 47"	TAS2R47			Standard	NM_001097643		Approved	T2R30	uc009zhs.1	P59541		ENST00000539585.1:c.708dupT	12.37:g.11286137_11286137dupA	ENSP00000444736:p.Leu236fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q645X7	Frame_Shift_Ins	INS	ENST00000539585.1	37	CCDS53750.1																																																																																				0.411	TAS2R30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400238.1	NM_001097643		A	11286137	-	A	11286136	7	5	630	1	0	1	1	0	0	0	0	0	15585	465	17	0	255	0	TAS2R30	12	11286136	Frame_Shift_Ins	INS	-	TCGA-KL-8331-01A-11D-2310-10	41767	11286136	122565759	40	38814										
SOAT2	8435	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	53517645	53517645	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	tggtacgcacggcggcactgCcccttaccccaggtaagaga	12	14	0	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr12:53517645C>T	ENST00000301466.3	+	14	1566	c.1506C>T	c.(1504-1506)tgC>tgT	p.C502C		NM_003578.3	NP_003569.1	O75908	SOAT2_HUMAN	sterol O-acyltransferase 2	502					cholesterol efflux (GO:0033344)|cholesterol esterification (GO:0034435)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|intestinal cholesterol absorption (GO:0030299)|macrophage derived foam cell differentiation (GO:0010742)|very-low-density lipoprotein particle assembly (GO:0034379)	brush border (GO:0005903)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	cholesterol binding (GO:0015485)|cholesterol O-acyltransferase activity (GO:0034736)|fatty-acyl-CoA binding (GO:0000062)|transferase activity, transferring acyl groups (GO:0016746)			endometrium(5)|kidney(3)|large_intestine(2)|liver(1)|lung(5)|ovary(1)|skin(1)	18					Hesperetin(DB01094)	GGCGGCACTGCCCCTTACCCC	0.612																																																0													98	79	85					12																	53517645		2203	4300	6503	SO:0001819	synonymous_variant	8435			AF059203	CCDS8847.1	12q13.13	2012-09-20			ENSG00000167780	ENSG00000167780	2.3.1.26		11178	protein-coding gene	gene with protein product		601311				9756920	Standard	NM_003578		Approved	ACAT2	uc001sbv.3	O75908	OTTHUMG00000169774	ENST00000301466.3:c.1506C>T	12.37:g.53517645C>T		Somatic		WXS	Illumina HiSeq	Phase_I	F5H7W4|I6L9H9|Q4VB99|Q4VBA1|Q96TD4|Q9UNR2	Silent	SNP	ENST00000301466.3	37	CCDS8847.1																																																																																				0.612	SOAT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405817.1			T	53517645	C	T	53517645	2	4	630	1	0	0	0	0	0	0	0	1	14924	747	26	2		2	SOAT2	12	53517645	Silent	SNP	C	TCGA-KL-8331-01A-11D-2310-10	42231509	53517645	80334250	41	38815										
ATP8A2	51761	bcgsc.ca	37	chr13	26133897	26133897	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	aagagagccgtcttcagatgActtctggtaagtagattcta	10	7	4	4			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr13:26133897A>G	ENST00000381655.2	+	15	1533	c.1391A>G	c.(1390-1392)gAc>gGc	p.D464G	ATP8A2_ENST00000255283.8_Missense_Mutation_p.D424G	NM_016529.4	NP_057613.4	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter, class I, type 8A, member 2	424					aging (GO:0007568)|axonogenesis (GO:0007409)|detection of light stimulus involved in visual perception (GO:0050908)|eating behavior (GO:0042755)|inner ear morphogenesis (GO:0042472)|involuntary skeletal muscle contraction (GO:0003011)|negative regulation of cell proliferation (GO:0008285)|neurofilament cytoskeleton organization (GO:0060052)|neuromuscular process controlling posture (GO:0050884)|positive regulation of multicellular organism growth (GO:0040018)|positive regulation of neuron projection development (GO:0010976)|positive regulation of phospholipid translocation (GO:0061092)|response to auditory stimulus (GO:0010996)|retina layer formation (GO:0010842)|skin development (GO:0043588)	cell projection (GO:0042995)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			breast(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(17)|lung(31)|ovary(4)|skin(3)|stomach(1)|urinary_tract(1)	72		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		TCTTCAGATGACTTCTGGTAA	0.373																																																0													109	101	103					13																	26133897		1813	4076	5889	SO:0001583	missense	51761			AL137256	CCDS41873.1	13q12	2010-04-20	2010-03-31		ENSG00000132932	ENSG00000132932	3.6.3.1	"ATPases / P-type"	13533	protein-coding gene	gene with protein product		605870	"ATPase, aminophospholipid transporter-like, Class I, type 8A, member 2", "ATPase, aminophospholipid transporter-like, class I, type 8A, member 2"			11015572, 19778899	Standard	NM_016529		Approved	ATPIB, ML-1	uc001uqk.3	Q9NTI2	OTTHUMG00000016611	ENST00000381655.2:c.1391A>G	13.37:g.26133897A>G	ENSP00000371070:p.Asp464Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H527|Q9NPU6|Q9NTL2|Q9NYM3	Missense_Mutation	SNP	ENST00000381655.2	37	CCDS41873.1	.	.	.	.	.	.	.	.	.	.	a	15.21	2.765965	0.49574	.	.	ENSG00000132932	ENST00000381655;ENST00000255283;ENST00000544544	T;T	0.67345	-0.26;-0.26	5.03	5.03	0.67393	ATPase, cation-transporting, domain N (1);HAD-like domain (1);ATPase, P-type, cytoplasmic domain N (1);	0.113760	0.64402	D	0.000015	T	0.66015	0.2747	L	0.42632	1.34	0.58432	D	0.999999	B;P;B	0.48503	0.126;0.911;0.126	B;P;B	0.48227	0.096;0.571;0.138	T	0.68051	-0.5511	10	0.48119	T	0.1	.	14.4278	0.67227	1.0:0.0:0.0:0.0	.	424;424;424	B7Z880;Q9NTI2-3;Q9NTI2	.;.;AT8A2_HUMAN	G	464;424;244	ENSP00000371070:D464G;ENSP00000255283:D424G	ENSP00000255283:D424G	D	+	2	0	ATP8A2	25031897	1.000000	0.71417	1.000000	0.80357	0.866000	0.49608	6.997000	0.76270	1.883000	0.54544	0.363000	0.22086	GAC		0.373	ATP8A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044236.2	NM_016529		G	26133897	A	G	26133897	3	3	630	1	0	0	0	0	1	0	0	0	1193	275	10	3	1449	3	ATP8A2	13	26133897	Missense_Mutation	SNP	A	TCGA-KL-8331-01A-11D-2310-10		26133897	89035981	42	38816										
PAN3	255967	hgsc.bcm.edu;ucsc.edu	37	chr13	28840991	28840991	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	aacagcaaagatgatctgccAtattgccttcggaggataca	9	9	1	2			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr13:28840991A>G	ENST00000380958.3	+	10	1703	c.1551A>G	c.(1549-1551)ccA>ccG	p.P517P	PAN3_ENST00000282391.5_Silent_p.P205P|PAN3_ENST00000399613.1_Silent_p.P317P	NM_175854.7	NP_787050.6			PAN3 poly(A) specific ribonuclease subunit											endometrium(1)|kidney(3)|large_intestine(7)|lung(9)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		ATGATCTGCCATATTGCCTTC	0.353																																																0													64	60	62					13																	28840991		2203	4300	6503	SO:0001819	synonymous_variant	255967			AK091307	CCDS9329.1, CCDS9329.2	13q12.2	2014-03-27	2014-03-27		ENSG00000152520	ENSG00000152520			29991	protein-coding gene	gene with protein product			"PAN3 poly(A) specific ribonuclease subunit homolog (S. cerevisiae)"			14583602	Standard	NM_175854		Approved		uc001urz.3	Q58A45	OTTHUMG00000016645	ENST00000380958.3:c.1551A>G	13.37:g.28840991A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000380958.3	37	CCDS9329.2																																																																																				0.353	PAN3-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000044318.4	NM_175854		G	28840991	A	G	28840991	2	3	630	1	0	0	0	0	0	0	0	1	11422	204	8	3		3	PAN3	13	28840991	Silent	SNP	A	TCGA-KL-8331-01A-11D-2310-10	2707094	28840991	86328887	43	38817										
EAPP	55837	bcgsc.ca	37	chr14	34998579	34998579	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	cttacccccttctctgtgcaTcaacccaggcctgatctctg	6	17	3	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr14:34998579T>C	ENST00000250454.3	-	4	536	c.455A>G	c.(454-456)gAt>gGt	p.D152G		NM_018453.3	NP_060923.2	Q56P03	EAPP_HUMAN	E2F-associated phosphoprotein	152					negative regulation of transcription elongation from RNA polymerase II promoter (GO:0034244)|positive regulation of cell proliferation (GO:0008284)|positive regulation of transcription elongation from RNA polymerase II promoter (GO:0032968)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)				breast(1)|endometrium(1)|large_intestine(3)|lung(4)|ovary(1)|urinary_tract(2)	12	Breast(36;0.0473)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00342)|Epithelial(34;0.18)	GBM - Glioblastoma multiforme(112;0.0196)		TCTCTGTGCATCAACCCAGGC	0.318																																																0													156	138	143					14																	34998579		1824	4080	5904	SO:0001583	missense	55837			AF217512	CCDS41941.1	14q13	2007-03-26	2007-03-26	2007-03-26		ENSG00000129518			19312	protein-coding gene	gene with protein product		609486	"chromosome 14 open reading frame 11"	C14orf11		15716352	Standard	NM_018453		Approved	BM036, FLJ20578	uc001wsd.1	Q56P03		ENST00000250454.3:c.455A>G	14.37:g.34998579T>C	ENSP00000250454:p.Asp152Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BVF4|Q9NWV5|Q9NZ86	Missense_Mutation	SNP	ENST00000250454.3	37	CCDS41941.1	.	.	.	.	.	.	.	.	.	.	T	22.8	4.336998	0.81801	.	.	ENSG00000129518	ENST00000250454;ENST00000554792	T;T	0.45276	0.9;0.9	5.38	5.38	0.77491	.	0.000000	0.85682	D	0.000000	T	0.69296	0.3095	M	0.86953	2.85	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.74982	-0.3478	10	0.59425	D	0.04	-21.4515	15.7004	0.77538	0.0:0.0:0.0:1.0	.	152	Q56P03	EAPP_HUMAN	G	152;131	ENSP00000250454:D152G;ENSP00000450908:D131G	ENSP00000250454:D152G	D	-	2	0	EAPP	34068330	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.040000	0.76551	2.183000	0.69458	0.477000	0.44152	GAT		0.318	EAPP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409847.1	NM_018453		C	34998579	T	C	34998579	3	2	630	1	0	0	0	0	1	0	0	0	4879	1435	50	3	414	3	EAPP	14	34998579	Missense_Mutation	SNP	T	TCGA-KL-8331-01A-11D-2310-10		34998579	72350961	44	38818										
PSMC6	5706	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	53175080	53175080	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	atgaaaagtctgaaaatgatCtgaaggccctacagagtgtt	10	6	2	5			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr14:53175080C>G	ENST00000606149.1	+	2	155	c.139C>G	c.(139-141)Ctg>Gtg	p.L47V	PSMC6_ENST00000445930.2_Missense_Mutation_p.L61V	NM_002806.3	NP_002797.3	P62333	PRS10_HUMAN	proteasome (prosome, macropain) 26S subunit, ATPase, 6	47					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|ATP catabolic process (GO:0006200)|cellular nitrogen compound metabolic process (GO:0034641)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|negative regulation of apoptotic process (GO:0043066)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|ubiquitin-dependent protein catabolic process (GO:0006511)|viral process (GO:0016032)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|proteasome accessory complex (GO:0022624)|proteasome complex (GO:0000502)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|protein binding, bridging (GO:0030674)			breast(2)|endometrium(3)|kidney(2)|large_intestine(4)|lung(6)|prostate(1)|stomach(1)	19	Breast(41;0.176)					TGAAAATGATCTGAAGGCCCT	0.353																																																0													121	120	120					14																	53175080		2203	4300	6503	SO:0001583	missense	5706				CCDS9710.2	14q22.1	2010-04-21			ENSG00000100519	ENSG00000100519		"Proteasome (prosome, macropain) subunits", "ATPases / AAA-type"	9553	protein-coding gene	gene with protein product		602708				8674546, 9473509	Standard	NM_002806		Approved	p42	uc010tqx.2	P62333	OTTHUMG00000152333	ENST00000606149.1:c.139C>G	14.37:g.53175080C>G	ENSP00000475721:p.Leu47Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R975|P49719|Q6IBU3|Q92524	Missense_Mutation	SNP	ENST00000606149.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	15.78|15.78	2.934302|2.934302	0.52866|0.52866	.|.	.|.	ENSG00000100519|ENSG00000100519	ENST00000445930|ENST00000556813	D|.	0.94092|.	-3.35|.	5.17|5.17	2.33|2.33	0.28932|0.28932	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.53802|0.53802	0.1819|0.1819	L|L	0.41906|0.41906	1.305|1.305	0.80722|0.80722	D|D	1|1	B|.	0.17852|.	0.024|.	B|.	0.22386|.	0.039|.	T|T	0.41431|0.41431	-0.9509|-0.9509	10|5	0.56958|.	D|.	0.05|.	.|.	10.8766|10.8766	0.46915|0.46915	0.0:0.791:0.0:0.209|0.0:0.791:0.0:0.209	.|.	47|.	P62333|.	PRS10_HUMAN|.	V|C	61|46	ENSP00000401802:L61V|.	ENSP00000401802:L61V|.	L|S	+|+	1|2	2|0	PSMC6|PSMC6	52244830|52244830	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.978000|0.978000	0.69477|0.69477	3.033000|3.033000	0.49743|0.49743	0.276000|0.276000	0.22118|0.22118	0.561000|0.561000	0.74099|0.74099	CTG|TCT		0.353	PSMC6-018	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000470741.1	NM_002806		G	53175080	C	G	53175080	3	3	630	1	0	0	0	0	1	0	0	0	12701	912	32	4	187	4	PSMC6	14	53175080	Missense_Mutation	SNP	C	TCGA-KL-8331-01A-11D-2310-10	18176501	53175080	54174460	45	38819										
EIF2AK4	440275	ucsc.edu	37	chr15	40268998	40268998	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	ccgggctccagcgatgacgaGgacgacgacgaggacgagca	16	12	0	1	rs200699205|rs377237751	byFrequency	TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr15:40268998G>C	ENST00000263791.5	+	12	2245	c.2202G>C	c.(2200-2202)gaG>gaC	p.E734D	EIF2AK4_ENST00000382727.2_Missense_Mutation_p.E734D	NM_001013703.2	NP_001013725.2	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha kinase 4	734	Protein kinase 2. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cellular response to starvation (GO:0009267)|endoplasmic reticulum unfolded protein response (GO:0030968)|negative regulation of translation (GO:0017148)|protein phosphorylation (GO:0006468)|regulation of translational initiation (GO:0006446)|regulation of translational initiation in response to stress (GO:0043558)	cytosolic ribosome (GO:0022626)	ATP binding (GO:0005524)|eukaryotic translation initiation factor 2alpha kinase activity (GO:0004694)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(2)|endometrium(1)|kidney(3)|large_intestine(8)|lung(18)|ovary(1)|prostate(3)|skin(2)|stomach(1)	40		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)		GCGATGACGAGGACGACGACG	0.682																																																0													48	51	50					15																	40268998		1792	3898	5690	SO:0001583	missense	440275			AB037759	CCDS42016.1	15q13.3	2008-08-18				ENSG00000128829			19687	protein-coding gene	gene with protein product		609280				10504407	Standard	XM_005254392		Approved	GCN2, KIAA1338	uc001zkm.1	Q9P2K8		ENST00000263791.5:c.2202G>C	15.37:g.40268998G>C	ENSP00000263791:p.Glu734Asp	Somatic		WXS	Illumina HiSeq	Phase_I	C9JEC4|Q69YL7|Q6DC97|Q96GN6|Q9H5K1|Q9NSQ3|Q9NSZ5|Q9UJ56	Missense_Mutation	SNP	ENST00000263791.5	37	CCDS42016.1	.	.	.	.	.	.	.	.	.	.	G	5.494	0.276174	0.10403	.	.	ENSG00000128829	ENST00000263791;ENST00000382727	T;T	0.70749	-0.51;-0.41	5.34	1.05	0.20165	Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.232344	0.43579	D	0.000550	T	0.38772	0.1053	N	0.11201	0.11	0.43330	D	0.995364	B	0.02656	0.0	B	0.01281	0.0	T	0.31668	-0.9935	10	0.02654	T	1	-11.3049	3.9743	0.09467	0.0737:0.2643:0.3683:0.2937	.	734	Q9P2K8	E2AK4_HUMAN	D	734	ENSP00000263791:E734D;ENSP00000372174:E734D	ENSP00000263791:E734D	E	+	3	2	EIF2AK4	38056290	0.212000	0.23540	0.997000	0.53966	0.175000	0.22909	-0.226000	0.09139	0.323000	0.23307	-0.196000	0.12772	GAG		0.682	EIF2AK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418395.1			C	40268998	G	C	40268998	3	2	630	1	0	0	0	0	1	0	0	0	5001	991	35	4	2248	4	EIF2AK4	15	40268998	Missense_Mutation	SNP	G	TCGA-KL-8331-01A-11D-2310-10		40268998	62262394	46	38820										
MEF2A	4205	mdanderson.org	37	chr15	100252741	100252741	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gcagcagcagcagcagcagcAgccgccgccaccaccgcagc	12	19	0	0	rs560400205|rs199811207	byFrequency	TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr15:100252741A>C	ENST00000557785.1	+	11	1608	c.1259A>C	c.(1258-1260)cAg>cCg	p.Q420P	MEF2A_ENST00000558812.1_Missense_Mutation_p.Q360P|MEF2A_ENST00000453228.2_Missense_Mutation_p.Q420P|MEF2A_ENST00000557942.1_Missense_Mutation_p.Q428P|MEF2A_ENST00000338042.6_Missense_Mutation_p.Q429P|MEF2A_ENST00000354410.5_Missense_Mutation_p.Q422P|MEF2A_ENST00000449277.2_Missense_Mutation_p.Q352P	NM_001171894.1	NP_001165365.1	Q02078	MEF2A_HUMAN	myocyte enhancer factor 2A	430	Gln/Pro-rich.				apoptotic process (GO:0006915)|cardiac conduction (GO:0061337)|cellular response to calcium ion (GO:0071277)|dendrite morphogenesis (GO:0048813)|ERK5 cascade (GO:0070375)|heart development (GO:0007507)|innate immune response (GO:0045087)|MAPK cascade (GO:0000165)|mitochondrial genome maintenance (GO:0000002)|mitochondrion distribution (GO:0048311)|muscle cell differentiation (GO:0042692)|muscle organ development (GO:0007517)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transcription from RNA polymerase II promoter (GO:0006366)|transcription, DNA-templated (GO:0006351)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)|ventricular cardiac myofibril assembly (GO:0055005)	cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	activating transcription factor binding (GO:0033613)|chromatin binding (GO:0003682)|histone acetyltransferase binding (GO:0035035)|histone deacetylase binding (GO:0042826)|protein heterodimerization activity (GO:0046982)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription coactivator activity (GO:0001105)|RNA polymerase II transcription factor binding (GO:0001085)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)|SMAD binding (GO:0046332)			endometrium(2)|large_intestine(2)|lung(7)|ovary(1)	12	Lung NSC(78;0.00335)|all_lung(78;0.00659)|Melanoma(26;0.00778)|Medulloblastoma(229;0.163)		OV - Ovarian serous cystadenocarcinoma(32;0.00085)			cagcagcagcagcCGCCGCCA	0.637																																																0													4	8	7					15																	100252741		1603	3215	4818	SO:0001583	missense	4205				CCDS45362.1, CCDS45363.1, CCDS53978.1, CCDS58401.1	15q26	2008-02-05	2007-04-24			ENSG00000068305		"Myocyte enhancer factors"	6993	protein-coding gene	gene with protein product		600660				1516833	Standard	NM_005587		Approved	RSRFC4, RSRFC9	uc002bvf.3	Q02078		ENST00000557785.1:c.1259A>C	15.37:g.100252741A>C	ENSP00000453441:p.Gln420Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFQ7|F6XG23|O43814|Q14223|Q14224|Q59GX4|Q7Z6C9|Q96D14	Missense_Mutation	SNP	ENST00000557785.1	37	CCDS53978.1	.	.	.	.	.	.	.	.	.	.	A	0.005	-2.206880	0.00292	.	.	ENSG00000068305	ENST00000453228;ENST00000354410;ENST00000338042;ENST00000449277	T;T;T;T	0.36340	2.91;2.91;2.91;1.26	3.68	-5.59	0.02505	.	.	.	.	.	T	0.14098	0.0341	N	0.02011	-0.69	0.09310	N	1	B;B;B;B;B;B	0.02656	0.0;0.0;0.0;0.0;0.0;0.0	B;B;B;B;B;B	0.01281	0.0;0.0;0.0;0.0;0.0;0.0	T	0.29119	-1.0022	9	0.27785	T	0.31	.	15.1199	0.72434	0.7463:0.2537:0.0:0.0	.	430;360;341;420;422;428	Q02078;B4DFQ7;Q7Z6C9;Q02078-6;Q02078-5;Q02078-2	MEF2A_HUMAN;.;.;.;.;.	P	420;422;429;360	ENSP00000404110:Q420P;ENSP00000346389:Q422P;ENSP00000337202:Q429P;ENSP00000399460:Q360P	ENSP00000337202:Q429P	Q	+	2	0	MEF2A	98070264	0.968000	0.33430	0.000000	0.03702	0.025000	0.11179	-0.272000	0.08560	-1.152000	0.02832	-2.562000	0.00173	CAG		0.637	MEF2A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415985.1			C	100252741	A	C	100252741	3	2	630	1	0	0	0	0	1	0	0	0	9462	188	7	5	1463	5	MEF2A	15	100252741	Missense_Mutation	SNP	A	TCGA-KL-8331-01A-11D-2310-10	59983743	100252741	2278651	47	38821										
TNRC6A	27327	broad.mit.edu	37	chr16	24817998	24817998	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	accatctcagcagcagccacTccatcagccagccatgaagt	7	16	2	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr16:24817998T>C	ENST00000395799.3	+	17	4562	c.4433T>C	c.(4432-4434)cTc>cCc	p.L1478P	TNRC6A_ENST00000432286.2_5'Flank|TNRC6A_ENST00000315183.7_Missense_Mutation_p.L1429P|CTD-2515A14.1_ENST00000568895.1_RNA	NM_014494.2	NP_055309.2	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1478					cellular response to starvation (GO:0009267)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|innate immune response (GO:0045087)|negative regulation of translation involved in gene silencing by miRNA (GO:0035278)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch signaling pathway (GO:0007219)|phosphatidylinositol-mediated signaling (GO:0048015)	cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|micro-ribonucleoprotein complex (GO:0035068)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|cervix(1)|endometrium(13)|kidney(5)|large_intestine(13)|liver(1)|lung(20)|ovary(3)|skin(2)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	64				GBM - Glioblastoma multiforme(48;0.0394)		CAGCAGCCACTCCATCAGCCA	0.493																																																0													133	113	120					16																	24817998		2197	4300	6497	SO:0001583	missense	27327			U80739	CCDS10624.2	16p11.2	2009-09-22	2004-12-17	2004-12-17	ENSG00000090905	ENSG00000090905		"Trinucleotide (CAG) repeat containing"	11969	protein-coding gene	gene with protein product		610739	"trinucleotide repeat containing 6"	TNRC6		9225980	Standard	NM_014494		Approved	CAGH26, KIAA1460, GW182	uc002dmm.3	Q8NDV7	OTTHUMG00000096999	ENST00000395799.3:c.4433T>C	16.37:g.24817998T>C	ENSP00000379144:p.Leu1478Pro	Somatic		WXS	Illumina HiSeq	Phase_I	C9JAR8|O15408|Q658L5|Q6NVB5|Q8NEZ0|Q8TBT8|Q8TCR0|Q9NV59|Q9P268	Missense_Mutation	SNP	ENST00000395799.3	37	CCDS10624.2	.	.	.	.	.	.	.	.	.	.	T	19.35	3.810610	0.70797	.	.	ENSG00000090905	ENST00000315183;ENST00000395799	T;T	0.14022	2.57;2.54	6.06	6.06	0.98353	.	0.162970	0.43579	D	0.000553	T	0.35799	0.0944	M	0.68317	2.08	0.80722	D	1	B;D;B;D	0.89917	0.012;1.0;0.009;1.0	B;D;B;D	0.74023	0.016;0.982;0.02;0.963	T	0.01982	-1.1235	10	0.32370	T	0.25	-3.8091	16.6154	0.84909	0.0:0.0:0.0:1.0	.	145;617;1429;1478	B3KSX2;C9JA83;Q8NDV7-6;Q8NDV7	.;.;.;TNR6A_HUMAN	P	1429;1478	ENSP00000326900:L1429P;ENSP00000379144:L1478P	ENSP00000326900:L1429P	L	+	2	0	TNRC6A	24725499	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.239000	0.43079	2.315000	0.78130	0.533000	0.62120	CTC		0.493	TNRC6A-001	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000214081.1	NM_020847		C	24817998	T	C	24817998	3	2	630	1	0	0	0	0	1	0	0	0	16352	1551	54	3	4499	3	TNRC6A	16	24817998	Missense_Mutation	SNP	T	TCGA-KL-8331-01A-11D-2310-10		24817998	65536755	48	38822										
SETD1A	9739	hgsc.bcm.edu;ucsc.edu	37	chr16	30991933	30991933	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gagaaggacaagtacctggaCgtgtgcccagtctcggcccg	14	12	1	1	rs56788559	byFrequency	TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr16:30991933C>T	ENST00000262519.8	+	15	5222	c.4536C>T	c.(4534-4536)gaC>gaT	p.D1512D		NM_014712.1	NP_055527.1	O15047	SET1A_HUMAN	SET domain containing 1A	1512	Interaction with ASH2L, RBBP5 and WDR5.				histone H3-K4 methylation (GO:0051568)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)|Set1C/COMPASS complex (GO:0048188)	histone methyltransferase activity (H3-K4 specific) (GO:0042800)|nucleotide binding (GO:0000166)|RNA binding (GO:0003723)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(9)|lung(21)|ovary(3)|prostate(2)|skin(4)|upper_aerodigestive_tract(4)|urinary_tract(1)	59						AGTACCTGGACGTGTGCCCAG	0.682													C|||	85	0.0169728	0.0582	0.0101	5008	,	,		12515	0.0		0.001	False		,,,				2504	0.0															0								C		209,4185	127.0+/-164.0	6,197,1994	68	54	59		4536	-1.8	1	16	dbSNP_129	59	13,8587	8.4+/-32.0	0,13,4287	no	coding-synonymous	SETD1A	NM_014712.1		6,210,6281	TT,TC,CC		0.1512,4.7565,1.7085		1512/1708	30991933	222,12772	2197	4300	6497	SO:0001819	synonymous_variant	9739			AB002337	CCDS32435.1	16p11.2	2013-02-12			ENSG00000099381	ENSG00000099381		"Chromatin-modifying enzymes / K-methyltransferases", "RNA binding motif (RRM) containing"	29010	protein-coding gene	gene with protein product		611052				9205841, 12670868	Standard	XM_005255723		Approved	KIAA0339, Set1, KMT2F	uc002ead.1	O15047	OTTHUMG00000150474	ENST00000262519.8:c.4536C>T	16.37:g.30991933C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NP62|Q6PIF3|Q8TAJ6	Silent	SNP	ENST00000262519.8	37	CCDS32435.1																																																																																				0.682	SETD1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318244.2	NM_014712		T	30991933	C	T	30991933	2	4	630	1	0	0	0	0	0	0	0	1	14143	535	19	1		1	SETD1A	16	30991933	Silent	SNP	C	TCGA-KL-8331-01A-11D-2310-10	6173935	30991933	59362820	49	38823										
NOB1	28987	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr16	69786144	69786144	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	aacccatcctcttgatttacCttctgtggttcttgttttag	6	10	3	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr16:69786144C>T	ENST00000268802.5	-	3	356	c.327G>A	c.(325-327)aaG>aaA	p.K109K		NM_014062.1	NP_054781.1	Q9ULX3	NOB1_HUMAN	NIN1/RPN12 binding protein 1 homolog (S. cerevisiae)	109					visual perception (GO:0007601)	nucleus (GO:0005634)	metal ion binding (GO:0046872)			breast(2)|cervix(1)|endometrium(1)|large_intestine(1)|lung(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11						CTTGATTTACCTTCTGTGGTT	0.453																																																0													167	160	162					16																	69786144		2198	4300	6498	SO:0001630	splice_region_variant	28987			AB026125	CCDS10884.1	16q22.1	2008-02-05	2006-04-20	2006-04-20	ENSG00000141101	ENSG00000141101			29540	protein-coding gene	gene with protein product	"nin one binding protein"	613586	"PSMD8 binding protein 1"	PSMD8BP1		16172919	Standard	NM_014062		Approved	NOB1P, ART-4, MST158	uc002exs.4	Q9ULX3	OTTHUMG00000137576	ENST00000268802.5:c.327+1G>A	16.37:g.69786144C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q7L6B7|Q7M4M4|Q7Z4B5|Q9NWB0	Silent	SNP	ENST00000268802.5	37	CCDS10884.1																																																																																				0.453	NOB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268958.2	NM_014062	Silent	T	69786144	C	T	69786144	5	4	630	1	0	0	0	0	0	0	1	0	10518	695	24	2	939	2	NOB1	16	69786144	Splice_Site	SNP	C	TCGA-KL-8331-01A-11D-2310-10	38794211	69786144	20568609	50	38824										
CPNE7	27132	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr16	89650494	89650494	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	ggagctctccttccgggccaGgaagctggacgacaaggtga	15	11	1	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr16:89650494G>A	ENST00000268720.5	+	6	846	c.716G>A	c.(715-717)aGg>aAg	p.R239K	CPNE7_ENST00000319518.8_Missense_Mutation_p.R164K	NM_014427.4	NP_055242.1	Q9UBL6	CPNE7_HUMAN	copine VII	239	C2 2. {ECO:0000255|PROSITE- ProRule:PRU00041}.				lipid metabolic process (GO:0006629)|transport (GO:0006810)	extracellular vesicular exosome (GO:0070062)	transporter activity (GO:0005215)			breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(8)|ovary(2)	17		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)		TTCCGGGCCAGGAAGCTGGAC	0.687																																																0													57	54	55					16																	89650494		2197	4300	6497	SO:0001583	missense	27132			AJ133798	CCDS10980.1, CCDS10981.1	16q24.3	2008-07-03			ENSG00000178773	ENSG00000178773			2320	protein-coding gene	gene with protein product		605689					Standard	NM_014427		Approved		uc002fnq.3	Q9UBL6	OTTHUMG00000138051	ENST00000268720.5:c.716G>A	16.37:g.89650494G>A	ENSP00000268720:p.Arg239Lys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000268720.5	37	CCDS10980.1	.	.	.	.	.	.	.	.	.	.	G	13.76	2.332841	0.41297	.	.	ENSG00000178773	ENST00000319518;ENST00000268720	T;T	0.67345	-0.26;-0.26	3.85	-4.18	0.03846	C2 membrane targeting protein (1);C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);	0.886047	0.09884	N	0.743348	T	0.43144	0.1234	N	0.21508	0.67	0.30051	N	0.811796	B;B	0.14805	0.001;0.011	B;B	0.17979	0.003;0.02	T	0.29397	-1.0013	10	0.45353	T	0.12	2.4518	2.2349	0.04005	0.5547:0.1444:0.1562:0.1447	.	164;239	Q9UBL6-2;Q9UBL6	.;CPNE7_HUMAN	K	164;239	ENSP00000317374:R164K;ENSP00000268720:R239K	ENSP00000268720:R239K	R	+	2	0	CPNE7	88177995	1.000000	0.71417	0.974000	0.42286	0.882000	0.50991	1.392000	0.34486	-0.429000	0.07329	0.491000	0.48974	AGG		0.687	CPNE7-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000269929.2			A	89650494	G	A	89650494	3	1	630	1	0	0	0	0	1	0	0	0	3819	1000	35	2	738	2	CPNE7	16	89650494	Missense_Mutation	SNP	G	TCGA-KL-8331-01A-11D-2310-10	19864350	89650494	704259	51	38825										
TRIM16	10626	ucsc.edu	37	chr17	15539560	15539560	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	ccaaactgcatttcagccacCgctttgacctctgacaccga	6	16	2	2	rs9911397	byFrequency	TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr17:15539560C>T	ENST00000578237.1	-	8	1494	c.639G>A	c.(637-639)gcG>gcA	p.A213A	TRIM16_ENST00000416464.2_Silent_p.A83A|TRIM16_ENST00000581224.1_5'UTR|TRIM16_ENST00000577886.1_5'UTR|TRIM16_ENST00000579219.1_5'UTR|TRIM16_ENST00000336708.7_Silent_p.A213A|RP11-385D13.1_ENST00000455584.2_Silent_p.A213A			O95361	TRI16_HUMAN	tripartite motif containing 16	213					histone H3 acetylation (GO:0043966)|histone H4 acetylation (GO:0043967)|positive regulation of interleukin-1 beta secretion (GO:0050718)|positive regulation of keratinocyte differentiation (GO:0045618)|positive regulation of retinoic acid receptor signaling pathway (GO:0048386)|positive regulation of transcription, DNA-templated (GO:0045893)|response to growth hormone (GO:0060416)|response to organophosphorus (GO:0046683)|response to retinoic acid (GO:0032526)	cytoplasm (GO:0005737)|PML body (GO:0016605)	DNA binding (GO:0003677)|interleukin-1 binding (GO:0019966)|NACHT domain binding (GO:0032089)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(4)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|stomach(1)	19				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		TTTCAGCCACCGCTTTGACCT	0.542													T|||	103	0.0205671	0.056	0.0058	5008	,	,		18784	0.0159		0.0	False		,,,				2504	0.0092															0								T		128,4238		10,108,2065	88	87	87		639	-2.5	0	17	dbSNP_119	87	7,8585		0,7,4289	no	coding-synonymous	TRIM16	NM_006470.3		10,115,6354	TT,TC,CC		0.0815,2.9317,1.0418		213/565	15539560	135,12823	2183	4296	6479	SO:0001819	synonymous_variant	10626			AF096870	CCDS11171.1	17p11.2	2011-04-20	2011-01-25		ENSG00000221926	ENSG00000221926		"Tripartite motif containing / Tripartite motif containing"	17241	protein-coding gene	gene with protein product	"estrogen-responsive B box protein"	609505	"tripartite motif-containing 16"			11331580	Standard	NM_006470		Approved	EBBP	uc002gor.1	O95361	OTTHUMG00000059067	ENST00000578237.1:c.639G>A	17.37:g.15539560C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IAL8|Q7Z6I2|Q96BE8|Q96J43	Silent	SNP	ENST00000578237.1	37	CCDS11171.1	75	0.034340659340659344	26	0.052845528455284556	2	0.0055248618784530384	17	0.02972027972027972	30	0.0395778364116095	N	2.714	-0.268218	0.05716	0.029317	8.15E-4	ENSG00000251537	ENST00000455584	.	.	.	3.97	-2.49	0.06403	.	.	.	.	.	T	0.05318	0.0141	.	.	.	0.29227	P	0.8735310000000001	.	.	.	.	.	.	T	0.29761	-1.0001	3	.	.	.	.	5.9626	0.19308	0.1152:0.4782:0.3216:0.0851	rs9911397	.	.	.	Q	228	.	.	R	-	2	0	RP11-385D13.1	15480285	0.014000	0.17966	0.006000	0.13384	0.385000	0.30292	0.258000	0.18387	-0.436000	0.07254	-1.246000	0.01523	CGG		0.542	TRIM16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130700.2	NM_006470		T	15539560	C	T	15539560	2	4	630	1	0	0	0	0	0	0	0	1	16503	639	23	1		1	TRIM16	17	15539560	Silent	SNP	C	TCGA-KL-8331-01A-11D-2310-10		15539560	65655650	52	38826										
AKAP10	11216	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr17	19823386	19823386	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	tcaggttcaggctcagattcTcggatgaattgccccaagtc	10	11	4	2	rs1049591		TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr17:19823386T>C	ENST00000225737.6	-	12	1954	c.1797A>G	c.(1795-1797)cgA>cgG	p.R599R	AKAP10_ENST00000395536.3_Silent_p.R541R	NM_007202.3	NP_009133.2	O43572	AKA10_HUMAN	A kinase (PRKA) anchor protein 10	599					blood coagulation (GO:0007596)|protein localization (GO:0008104)|signal transduction (GO:0007165)|termination of G-protein coupled receptor signaling pathway (GO:0038032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)				NS(1)|endometrium(3)|kidney(1)|large_intestine(4)|liver(1)|lung(3)|ovary(1)|prostate(1)|skin(3)|stomach(1)|urinary_tract(2)	21	all_cancers(12;2.08e-05)|all_epithelial(12;0.00158)|Breast(13;0.165)					GCTCAGATTCTCGGATGAATT	0.348																																																0													119	110	113					17																	19823386		2203	4300	6503	SO:0001819	synonymous_variant	11216			AF037439	CCDS11214.1	17p11.1	2008-07-18			ENSG00000108599	ENSG00000108599		"A-kinase anchor proteins"	368	protein-coding gene	gene with protein product	"dual-specificity A-kinase anchoring protein 2", "protein kinase A anchoring protein 10", "mitochondrial A kinase PPKA anchor protein 10"	604694				9326583	Standard	NM_007202		Approved	D-AKAP2, PRKA10, MGC9414	uc002gwo.4	O43572	OTTHUMG00000059515	ENST00000225737.6:c.1797A>G	17.37:g.19823386T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R650|Q96AJ7	Silent	SNP	ENST00000225737.6	37	CCDS11214.1																																																																																				0.348	AKAP10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132380.2	NM_007202		C	19823386	T	C	19823386	2	2	630	1	0	0	0	0	0	0	0	1	446	1538	54	3		3	AKAP10	17	19823386	Silent	SNP	T	TCGA-KL-8331-01A-11D-2310-10	4283826	19823386	61371824	53	38827										
TRIM37	4591	ucsc.edu;bcgsc.ca	37	chr17	57153067	57153067	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	tgtttcttgggttagagatgTcttctgacctgatgaaaaat	10	5	3	4			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr17:57153067T>C	ENST00000262294.7	-	8	884	c.625A>G	c.(625-627)Aca>Gca	p.T209A	TRIM37_ENST00000376149.3_Missense_Mutation_p.T87A|TRIM37_ENST00000393066.3_Missense_Mutation_p.T209A|TRIM37_ENST00000393065.2_Missense_Mutation_p.T175A	NM_015294.3	NP_056109.1	O94972	TRI37_HUMAN	tripartite motif containing 37	209					aggresome assembly (GO:0070842)|negative regulation of centriole replication (GO:0046600)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|protein autoubiquitination (GO:0051865)	aggresome (GO:0016235)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|peroxisome (GO:0005777)	chromatin binding (GO:0003682)|ligase activity (GO:0016874)|protein homodimerization activity (GO:0042803)|tumor necrosis factor receptor binding (GO:0005164)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(13)|ovary(1)|pancreas(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	37	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					GTTAGAGATGTCTTCTGACCT	0.323									Mulibrey Nanism																																							0													93	88	90					17																	57153067		2203	4300	6503	SO:0001583	missense	4591	Familial Cancer Database	Perheentupa syndrome	AB020705	CCDS32694.1, CCDS45746.1	17q	2014-02-17	2011-01-25	2001-11-30		ENSG00000108395		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	7523	protein-coding gene	gene with protein product	"RING-B-box-coiled-coil protein"	605073	"tripartite motif-containing 37"	MUL		9106536, 10888877	Standard	NM_015294		Approved	KIAA0898, POB1, TEF3	uc002iwy.4	O94972		ENST00000262294.7:c.625A>G	17.37:g.57153067T>C	ENSP00000262294:p.Thr209Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z3E6|Q8IYF7|Q8WYF7	Missense_Mutation	SNP	ENST00000262294.7	37	CCDS32694.1	.	.	.	.	.	.	.	.	.	.	T	15.43	2.832688	0.50845	.	.	ENSG00000108395	ENST00000393066;ENST00000262294;ENST00000376149;ENST00000393065	T;T;T;T	0.64438	1.67;1.67;-0.1;1.25	5.4	5.4	0.78164	B-box, C-terminal (1);	0.000000	0.85682	D	0.000000	T	0.63390	0.2507	N	0.19112	0.55	0.58432	D	0.999991	B;D;B	0.71674	0.175;0.998;0.011	B;D;B	0.63283	0.088;0.913;0.024	T	0.62581	-0.6824	10	0.30078	T	0.28	-0.6	14.5977	0.68419	0.0:0.0:0.0:1.0	.	175;87;209	F8WEE6;O94972-2;O94972	.;.;TRI37_HUMAN	A	209;209;87;175	ENSP00000376785:T209A;ENSP00000262294:T209A;ENSP00000365319:T87A;ENSP00000376784:T175A	ENSP00000262294:T209A	T	-	1	0	TRIM37	54507849	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	7.847000	0.86896	2.043000	0.60533	0.477000	0.44152	ACA		0.323	TRIM37-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445930.1	NM_015294		C	57153067	T	C	57153067	3	2	630	1	0	0	0	0	1	0	0	0	16523	1667	58	3	2345	3	TRIM37	17	57153067	Missense_Mutation	SNP	T	TCGA-KL-8331-01A-11D-2310-10	37329681	57153067	24042143	54	38828										
PTPRM	5797	ucsc.edu	37	chr18	8376084	8376084	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	agagatcagacagtttcactTcactggctggccggatcatg	11	10	4	2			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr18:8376084T>C	ENST00000332175.8	+	23	4210	c.3173T>C	c.(3172-3174)tTc>tCc	p.F1058S	PTPRM_ENST00000580170.1_Missense_Mutation_p.F1071S|PTPRM_ENST00000400060.4_Missense_Mutation_p.F1072S|PTPRM_ENST00000400053.4_Missense_Mutation_p.F996S|PTPRM_ENST00000444013.1_Missense_Mutation_p.F845S	NM_002845.3	NP_002836.3	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1058	Tyrosine-protein phosphatase 1. {ECO:0000255|PROSITE-ProRule:PRU00160}.				homophilic cell adhesion (GO:0007156)|negative regulation of angiogenesis (GO:0016525)|negative regulation of endothelial cell migration (GO:0010596)|negative regulation of endothelial cell proliferation (GO:0001937)|neuron projection development (GO:0031175)|peptidyl-tyrosine dephosphorylation (GO:0035335)|positive regulation of vasodilation (GO:0045909)|protein dephosphorylation (GO:0006470)|response to drug (GO:0042493)|retina layer formation (GO:0010842)|retinal ganglion cell axon guidance (GO:0031290)|signal transduction (GO:0007165)	cell-cell adherens junction (GO:0005913)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|perinuclear region of cytoplasm (GO:0048471)	cadherin binding (GO:0045296)|identical protein binding (GO:0042802)|protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			breast(3)|central_nervous_system(1)|cervix(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(32)|lung(25)|ovary(2)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	90		Colorectal(10;0.234)				CAGTTTCACTTCACTGGCTGG	0.547																																																0													85	83	84					18																	8376084		2203	4300	6503	SO:0001583	missense	5797			X58288	CCDS11840.1, CCDS58613.1	18p11.2	2013-02-11			ENSG00000173482	ENSG00000173482		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	9675	protein-coding gene	gene with protein product		176888		PTPRL1		1655529, 8404049	Standard	NM_002845		Approved	RPTPU, hR-PTPu	uc010dkv.3	P28827	OTTHUMG00000131575	ENST00000332175.8:c.3173T>C	18.37:g.8376084T>C	ENSP00000331418:p.Phe1058Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A7MBN1|D3DUH8|J3QL11	Missense_Mutation	SNP	ENST00000332175.8	37	CCDS11840.1	.	.	.	.	.	.	.	.	.	.	T	34	5.315556	0.95655	.	.	ENSG00000173482	ENST00000332175;ENST00000400060;ENST00000400053;ENST00000444013	T;T;T;T	0.33865	1.39;1.39;1.39;1.39	6.04	6.04	0.98038	Protein-tyrosine phosphatase, receptor/non-receptor type (4);	0.094058	0.85682	D	0.000000	T	0.70753	0.3260	M	0.93150	3.385	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	T	0.79200	-0.1901	10	0.87932	D	0	.	16.6349	0.85050	0.0:0.0:0.0:1.0	.	845;1071;1058	E7EVX9;A7MBN1;P28827	.;.;PTPRM_HUMAN	S	1058;1072;996;845	ENSP00000331418:F1058S;ENSP00000382933:F1072S;ENSP00000382927:F996S;ENSP00000387608:F845S	ENSP00000331418:F1058S	F	+	2	0	PTPRM	8366084	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.040000	0.89188	2.330000	0.79161	0.477000	0.44152	TTC		0.547	PTPRM-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000254456.1			C	8376084	T	C	8376084	3	2	630	1	0	0	0	0	1	0	0	0	12819	1783	62	3	3310	3	PTPRM	18	8376084	Missense_Mutation	SNP	T	TCGA-KL-8331-01A-11D-2310-10		8376084	69701164	55	38829										
MAPK4	5596	ucsc.edu	37	chr18	48248403	48248403	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	tgctcagggtgatgccttccTttgtcagcagcacctgggag	13	11	2	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr18:48248403T>C	ENST00000400384.2	+	4	1823	c.787T>C	c.(787-789)Ttt>Ctt	p.F263L	MAPK4_ENST00000592595.1_Intron|MAPK4_ENST00000540640.1_Missense_Mutation_p.F52L	NM_002747.3	NP_002738.2	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	263	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cell cycle (GO:0007049)|MAPK cascade (GO:0000165)|protein phosphorylation (GO:0006468)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|MAP kinase activity (GO:0004707)|protein homodimerization activity (GO:0042803)|protein kinase binding (GO:0019901)			lung(4)|skin(3)|upper_aerodigestive_tract(1)	8		Colorectal(6;0.0297)		Colorectal(21;0.156)		GATGCCTTCCTTTGTCAGCAG	0.597																																																0													73	82	79					18																	48248403		2074	4217	6291	SO:0001583	missense	5596			X59727	CCDS42437.1	18q21.1	2012-10-02			ENSG00000141639	ENSG00000141639		"Mitogen-activated protein kinase cascade / Kinases"	6878	protein-coding gene	gene with protein product		176949		PRKM4		8290275	Standard	XM_005258299		Approved	Erk3-related, Erk4	uc002lev.3	P31152	OTTHUMG00000179853	ENST00000400384.2:c.787T>C	18.37:g.48248403T>C	ENSP00000383234:p.Phe263Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4C4|Q0VG04	Missense_Mutation	SNP	ENST00000400384.2	37	CCDS42437.1	.	.	.	.	.	.	.	.	.	.	T	15.84	2.953295	0.53293	.	.	ENSG00000141639	ENST00000400384;ENST00000540640	T;T	0.40756	1.02;1.02	5.24	5.24	0.73138	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.64402	D	0.000001	T	0.31040	0.0784	L	0.35542	1.07	0.80722	D	1	B	0.15719	0.014	B	0.21360	0.034	T	0.10086	-1.0645	10	0.08381	T	0.77	-8.0962	14.108	0.65104	0.0:0.0:0.0:1.0	.	263	P31152	MK04_HUMAN	L	263;52	ENSP00000383234:F263L;ENSP00000439231:F52L	ENSP00000383234:F263L	F	+	1	0	MAPK4	46502401	1.000000	0.71417	0.692000	0.30179	0.993000	0.82548	5.037000	0.64170	1.982000	0.57802	0.459000	0.35465	TTT		0.597	MAPK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000448631.2	NM_002747		C	48248403	T	C	48248403	3	2	630	1	0	0	0	0	1	0	0	0	9287	1609	56	3	797	3	MAPK4	18	48248403	Missense_Mutation	SNP	T	TCGA-KL-8331-01A-11D-2310-10	39872319	48248403	29828845	56	38830										
ZNF676	163223	mdanderson.org	37	chr19	22363631	22363631	+	Silent	SNP	G	G	A													0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	tgaattctcttatgttccatGagctttgaggacgagttgga					rs75683199	byFrequency	TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr19:22363631G>A	ENST00000397121.2	-	3	1205	c.888C>T	c.(886-888)ctC>ctT	p.L296L		NM_001001411.2	NP_001001411.2	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	296					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(49)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	67		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				TATGTTCCATGAGCTTTGAGG	0.438																																																0													96	100	98					19																	22363631		2141	4270	6411	SO:0001819	synonymous_variant	163223			AK097798	CCDS42539.1	19p12	2013-01-08				ENSG00000196109		"Zinc fingers, C2H2-type"	20429	protein-coding gene	gene with protein product							Standard	NM_001001411		Approved		uc002nqs.1	Q8N7Q3		ENST00000397121.2:c.888C>T	19.37:g.22363631G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MVX5	Silent	SNP	ENST00000397121.2	37	CCDS42539.1																																																																																				0.438	ZNF676-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464392.1	NM_001001411		A	22363631	G	A	22363631	2	1	630	1	0	0	0	0	0	0	0	1	18095	1277	45	2		2	ZNF676	19	22363631	Silent	SNP	G	TCGA-KL-8331-01A-11D-2310-10		22363631	36765352	57	38831	318	2								
ZNF676	163223	mdanderson.org	37	chr19	22363634	22363634	+	Missense_Mutation	SNP	C	C	A													0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	attctcttatgttccatgagCtttgaggacgagttggaagc					rs76456473	byFrequency	TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr19:22363634C>A	ENST00000397121.2	-	3	1202	c.885G>T	c.(883-885)aaG>aaT	p.K295N		NM_001001411.2	NP_001001411.2	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	295					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(49)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	67		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				GTTCCATGAGCTTTGAGGACG	0.433																																																0													98	102	100					19																	22363634		2149	4273	6422	SO:0001583	missense	163223			AK097798	CCDS42539.1	19p12	2013-01-08				ENSG00000196109		"Zinc fingers, C2H2-type"	20429	protein-coding gene	gene with protein product							Standard	NM_001001411		Approved		uc002nqs.1	Q8N7Q3		ENST00000397121.2:c.885G>T	19.37:g.22363634C>A	ENSP00000380310:p.Lys295Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8MVX5	Missense_Mutation	SNP	ENST00000397121.2	37	CCDS42539.1	.	.	.	.	.	.	.	.	.	.	.	0.001	-3.874663	0.00003	.	.	ENSG00000196109	ENST00000397121	T	0.07908	3.15	0.85	-1.7	0.08159	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (2);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.02156	0.0067	N	0.02775	-0.495	0.09310	N	1	P	0.40731	0.728	B	0.37833	0.259	T	0.20940	-1.0260	9	0.08381	T	0.77	.	0.8725	0.01217	0.1932:0.2181:0.3753:0.2135	.	295	Q8N7Q3	ZN676_HUMAN	N	295	ENSP00000380310:K295N	ENSP00000380310:K295N	K	-	3	2	ZNF676	22155474	0.000000	0.05858	0.001000	0.08648	0.001000	0.01503	-1.885000	0.01620	-1.157000	0.02815	-1.151000	0.01829	AAG		0.433	ZNF676-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464392.1	NM_001001411		A	22363634	C	A	22363634	3	1	630	1	0	0	0	0	1	0	0	0	18095	796	28	4	885	4	ZNF676	19	22363634	Missense_Mutation	SNP	C	TCGA-KL-8331-01A-11D-2310-10	3	22363634	36765349	58	38832	318	2								
IRGQ	126298	ucsc.edu	37	chr19	44099393	44099393	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	cctcgggggcctcgagcgtcTccacatccttgtcgcacagc	11	17	1	0			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr19:44099393T>C	ENST00000602269.1	-	1	283	c.98A>G	c.(97-99)gAg>gGg	p.E33G	ZNF576_ENST00000528387.1_5'Flank|ZNF576_ENST00000525771.1_5'Flank|L34079.2_ENST00000594374.1_5'Flank|ZNF576_ENST00000533118.1_5'Flank|ZNF576_ENST00000529930.1_5'Flank|ZNF576_ENST00000336564.4_5'Flank|SRRM5_ENST00000526798.1_5'Flank|IRGQ_ENST00000422989.1_Missense_Mutation_p.E33G|SRRM5_ENST00000607544.1_5'Flank|IRGQ_ENST00000601520.1_5'Flank|ZNF576_ENST00000391965.2_5'Flank			Q8WZA9	IRGQ_HUMAN	immunity-related GTPase family, Q	33										endometrium(2)|large_intestine(4)|lung(6)|ovary(2)|pancreas(1)|prostate(3)	18		Prostate(69;0.0199)				CTCGAGCGTCTCCACATCCTT	0.701																																																0													21	21	21					19																	44099393		2150	4193	6343	SO:0001583	missense	126298			AF322648	CCDS33040.1	19q13.31	2013-07-03	2005-10-31	2005-10-31		ENSG00000167378			24868	protein-coding gene	gene with protein product			"immunity-related GTPase family, Q1"	IRGQ1		16277747	Standard	NM_001007561		Approved	FKSG27	uc010eiv.2	Q8WZA9		ENST00000602269.1:c.98A>G	19.37:g.44099393T>C	ENSP00000472250:p.Glu33Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNP3	Missense_Mutation	SNP	ENST00000602269.1	37	CCDS33040.1	.	.	.	.	.	.	.	.	.	.	T	16.15	3.041069	0.55003	.	.	ENSG00000167378	ENST00000422989	T	0.53857	0.6	4.0	4.0	0.46444	.	0.317825	0.23060	N	0.052388	T	0.34919	0.0914	N	0.24115	0.695	0.26975	N	0.965488	P	0.40731	0.728	B	0.36186	0.219	T	0.28459	-1.0043	10	0.52906	T	0.07	-6.2115	9.4967	0.38993	0.0:0.0:0.0:1.0	.	33	Q8WZA9	IRGQ_HUMAN	G	33	ENSP00000387535:E33G	ENSP00000387535:E33G	E	-	2	0	IRGQ	48791233	0.971000	0.33674	0.921000	0.36526	0.587000	0.36485	1.979000	0.40608	1.802000	0.52723	0.459000	0.35465	GAG		0.701	IRGQ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463205.1	NM_001007561		C	44099393	T	C	44099393	3	2	630	1	0	0	0	0	1	0	0	0	7846	1551	54	3	1781	3	IRGQ	19	44099393	Missense_Mutation	SNP	T	TCGA-KL-8331-01A-11D-2310-10	21735759	44099393	15029590	59	38833										
CD33	945	broad.mit.edu	37	chr19	51738423	51738423	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	tgtctgcagggaaacaagagAccagagcaggagtggttcat	14	7	2	2			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr19:51738423A>G	ENST00000262262.4	+	5	778	c.757A>G	c.(757-759)Acc>Gcc	p.T253A	CD33_ENST00000421133.2_Missense_Mutation_p.T126A|CD33_ENST00000436584.2_Missense_Mutation_p.T126A|CD33_ENST00000391796.3_Missense_Mutation_p.T253A	NM_001772.3	NP_001763.3	P20138	CD33_HUMAN	CD33 molecule	253					cell adhesion (GO:0007155)|cell-cell signaling (GO:0007267)|negative regulation of cell proliferation (GO:0008285)|signal transduction (GO:0007165)	external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)|receptor activity (GO:0004872)			NS(1)|breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(3)|lung(15)|skin(1)|stomach(1)	24		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000224)|OV - Ovarian serous cystadenocarcinoma(262;0.00468)	Gemtuzumab ozogamicin(DB00056)	GAAACAAGAGACCAGAGCAGG	0.478																																																0													115	101	106					19																	51738423		2203	4300	6503	SO:0001583	missense	945			M23197	CCDS33084.1, CCDS46157.1, CCDS54299.1	19q13.3	2013-01-29	2006-03-28		ENSG00000105383	ENSG00000105383		"CD molecules", "Sialic acid binding Ig-like lectins", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	1659	protein-coding gene	gene with protein product	"sialic acid binding Ig-like lectin 3"	159590	"CD33 antigen (gp67)"			3139766, 9465907	Standard	NM_001772		Approved	SIGLEC3, SIGLEC-3, p67, FLJ00391	uc002pwa.2	P20138		ENST00000262262.4:c.757A>G	19.37:g.51738423A>G	ENSP00000262262:p.Thr253Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3P8|C9JEN7|F8WAL2|Q8TD24	Missense_Mutation	SNP	ENST00000262262.4	37	CCDS33084.1	.	.	.	.	.	.	.	.	.	.	.	0.579	-0.837998	0.02692	.	.	ENSG00000105383	ENST00000436584;ENST00000262262;ENST00000421133;ENST00000391796	T;T;T;T	0.36699	1.24;3.53;3.53;2.3	3.94	-2.66	0.06077	.	.	.	.	.	T	0.23806	0.0576	L	0.54323	1.7	0.09310	N	1	B;B;B	0.17667	0.006;0.023;0.022	B;B;B	0.12837	0.002;0.007;0.008	T	0.31888	-0.9927	9	0.20519	T	0.43	.	0.8704	0.01213	0.3285:0.3269:0.1846:0.16	.	126;253;253	C9JEN7;F8WAL2;P20138	.;.;CD33_HUMAN	A	126;253;126;253	ENSP00000403331:T126A;ENSP00000262262:T253A;ENSP00000410126:T126A;ENSP00000375673:T253A	ENSP00000262262:T253A	T	+	1	0	CD33	56430235	0.000000	0.05858	0.000000	0.03702	0.008000	0.06430	-2.492000	0.00973	-0.322000	0.08615	-0.496000	0.04628	ACC		0.478	CD33-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000464199.2	NM_001772		G	51738423	A	G	51738423	3	3	630	1	0	0	0	0	1	0	0	0	3007	275	10	3	775	3	CD33	19	51738423	Missense_Mutation	SNP	A	TCGA-KL-8331-01A-11D-2310-10	7639030	51738423	7390560	60	38834										
IGLON5	402665	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr19	51828628	51828628	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	cgcattgtgaacatctcgtcGcctgtgacggtgaatgaggg	14	9	1	4			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr19:51828628G>A	ENST00000270642.8	+	4	420	c.420G>A	c.(418-420)tcG>tcA	p.S140S		NM_001101372.1	NP_001094842.1	A6NGN9	IGLO5_HUMAN	IgLON family member 5	140	Ig-like C2-type 2.					extracellular region (GO:0005576)				large_intestine(5)|lung(6)|prostate(1)	12						ACATCTCGTCGCCTGTGACGG	0.647																																																0													36	40	39					19																	51828628		2099	4214	6313	SO:0001819	synonymous_variant	402665				CCDS46158.1	19q13.33	2013-01-29			ENSG00000142549	ENSG00000142549		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	34550	protein-coding gene	gene with protein product							Standard	NM_001101372		Approved	LOC402665	uc002pwc.2	A6NGN9	OTTHUMG00000154422	ENST00000270642.8:c.420G>A	19.37:g.51828628G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000270642.8	37	CCDS46158.1																																																																																				0.647	IGLON5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335149.1	NM_001101372		A	51828628	G	A	51828628	2	1	630	1	0	0	0	0	0	0	0	1	7602	1074	38	1		1	IGLON5	19	51828628	Silent	SNP	G	TCGA-KL-8331-01A-11D-2310-10	90205	51828628	7300355	61	38835										
CSNK2A1	1457	mdanderson.org	37	chr20	464702	464702	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gaggtccaaggggtgaagggGttggcactgaagaaatccct	16	7	0	3	rs61747403		TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr20:464702G>A	ENST00000217244.3	-	14	1454	c.1079C>T	c.(1078-1080)aCc>aTc	p.T360I	CSNK2A1_ENST00000400227.3_Intron|CSNK2A1_ENST00000349736.5_Missense_Mutation_p.T360I|CSNK2A1_ENST00000400217.2_Missense_Mutation_p.T224I	NM_177559.2	NP_808227.1	P68400	CSK21_HUMAN	casein kinase 2, alpha 1 polypeptide	360					axon guidance (GO:0007411)|chaperone-mediated protein folding (GO:0061077)|mitotic cell cycle (GO:0000278)|mitotic spindle checkpoint (GO:0071174)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|positive regulation of cell growth (GO:0030307)|positive regulation of cell proliferation (GO:0008284)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of Wnt signaling pathway (GO:0030177)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of transcription, DNA-templated (GO:0006355)|rhythmic process (GO:0048511)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)|Wnt signaling pathway (GO:0016055)	cytosol (GO:0005829)|nucleus (GO:0005634)|NuRD complex (GO:0016581)|plasma membrane (GO:0005886)|Sin3 complex (GO:0016580)	ATP binding (GO:0005524)|Hsp90 protein binding (GO:0051879)|protein N-terminus binding (GO:0047485)|protein phosphatase regulator activity (GO:0019888)|protein serine/threonine kinase activity (GO:0004674)			autonomic_ganglia(1)|central_nervous_system(2)|endometrium(1)|large_intestine(4)|lung(5)|ovary(1)|prostate(2)|urinary_tract(1)	17		Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.0969)			GGGTGAAGGGGTTGGCACTGA	0.547																																																0													30	28	28					20																	464702		2202	4300	6502	SO:0001583	missense	1457			M55265	CCDS13003.1, CCDS13004.1	20p13	2013-01-17			ENSG00000101266	ENSG00000101266			2457	protein-coding gene	gene with protein product		115440				2174700, 1766873	Standard	NM_177559		Approved		uc002wdx.1	P68400	OTTHUMG00000031636	ENST00000217244.3:c.1079C>T	20.37:g.464702G>A	ENSP00000217244:p.Thr360Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYS6|D3DVV8|P19138|P20426|Q14013|Q5U065	Missense_Mutation	SNP	ENST00000217244.3	37	CCDS13003.1	.	.	.	.	.	.	.	.	.	.	G	9.824	1.186681	0.21870	.	.	ENSG00000101266	ENST00000349736;ENST00000217244;ENST00000381973;ENST00000400217	T;T;T	0.63096	0.37;0.37;-0.02	5.29	5.29	0.74685	.	0.330353	0.37178	N	0.002217	T	0.48840	0.1522	N	0.19112	0.55	0.53688	D	0.999978	B	0.19583	0.037	B	0.14578	0.011	T	0.36212	-0.9757	10	0.25751	T	0.34	-23.4981	18.1087	0.89528	0.0:0.0:1.0:0.0	.	360	P68400	CSK21_HUMAN	I	360;360;360;224	ENSP00000339247:T360I;ENSP00000217244:T360I;ENSP00000383076:T224I	ENSP00000217244:T360I	T	-	2	0	CSNK2A1	412702	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	5.856000	0.69518	2.749000	0.94314	0.655000	0.94253	ACC		0.547	CSNK2A1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077466.1	NM_001895		A	464702	G	A	464702	3	1	630	1	0	0	0	0	1	0	0	0	3959	1261	44	2	100	2	CSNK2A1	20	464702	Missense_Mutation	SNP	G	TCGA-KL-8331-01A-11D-2310-10		464702	62560818	62	38836										
NCOA3	8202	broad.mit.edu;bcgsc.ca	37	chr20	46266522	46266522	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	ggtgtttcaaggaactaattCtctgggtaagaatgaactag	11	5	2	2			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr20:46266522C>A	ENST00000371998.3	+	13	2698	c.2507C>A	c.(2506-2508)tCt>tAt	p.S836Y	NCOA3_ENST00000371997.3_Missense_Mutation_p.S846Y|NCOA3_ENST00000372004.3_Missense_Mutation_p.S836Y|NCOA3_ENST00000341724.6_Missense_Mutation_p.S846Y			Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3	836					androgen receptor signaling pathway (GO:0030521)|developmental growth (GO:0048589)|histone acetylation (GO:0016573)|labyrinthine layer morphogenesis (GO:0060713)|mammary gland branching involved in thelarche (GO:0060744)|multicellular organism growth (GO:0035264)|positive regulation of gene expression (GO:0010628)|positive regulation of keratinocyte differentiation (GO:0045618)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|receptor transactivation (GO:0035624)|regulation of RNA biosynthetic process (GO:2001141)|transcription, DNA-templated (GO:0006351)|vagina development (GO:0060068)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|chromatin binding (GO:0003682)|histone acetyltransferase activity (GO:0004402)|ligand-dependent nuclear receptor binding (GO:0016922)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|nuclear hormone receptor binding (GO:0035257)|protein N-terminus binding (GO:0047485)|signal transducer activity (GO:0004871)|thyroid hormone receptor binding (GO:0046966)|transcription coactivator activity (GO:0003713)			breast(3)|endometrium(3)|kidney(4)|large_intestine(12)|lung(19)|ovary(4)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	52						GGAACTAATTCTCTGGGTAAG	0.358																																																0													148	146	147					20																	46266522		2203	4300	6503	SO:0001583	missense	8202			AF012108	CCDS13406.1, CCDS13407.1, CCDS54472.1	20q12	2011-07-01			ENSG00000124151	ENSG00000124151		"Chromatin-modifying enzymes / K-acetyltransferases", "Basic helix-loop-helix proteins"	7670	protein-coding gene	gene with protein product	"receptor-associated coactivator 3", "thyroid hormone receptor activator molecule 1"	601937				9252329, 9346901	Standard	NM_181659		Approved	RAC3, AIB1, ACTR, p/CIP, TRAM-1, CAGH16, TNRC16, KAT13B, bHLHe42, SRC-3, SRC3	uc002xtk.3	Q9Y6Q9	OTTHUMG00000033061	ENST00000371998.3:c.2507C>A	20.37:g.46266522C>A	ENSP00000361066:p.Ser836Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A4LAZ5|Q0VF45|Q5JYD9|Q5JYE0|Q9BR49|Q9UPC9|Q9UPG4|Q9UPG7	Missense_Mutation	SNP	ENST00000371998.3	37	CCDS13407.1	.	.	.	.	.	.	.	.	.	.	C	13.61	2.289393	0.40494	.	.	ENSG00000124151	ENST00000340189;ENST00000341724;ENST00000372004;ENST00000371998;ENST00000371997	T;T;T;T	0.02345	4.36;4.49;4.48;4.33	5.38	5.38	0.77491	.	0.328975	0.30383	N	0.009756	T	0.06826	0.0174	L	0.59436	1.845	0.40523	D	0.98085	P;P;B;P;P;P	0.50272	0.823;0.933;0.437;0.823;0.573;0.732	B;P;B;B;B;B	0.44477	0.321;0.451;0.223;0.321;0.397;0.321	T	0.11470	-1.0586	10	0.56958	D	0.05	-11.602	19.0809	0.93180	0.0:1.0:0.0:0.0	.	836;846;840;836;836;836	A8K0W8;Q9Y6Q9-3;Q59EE8;Q0IIN7;Q9Y6Q9-5;Q9Y6Q9	.;.;.;.;.;NCOA3_HUMAN	Y	836;846;836;836;846	ENSP00000342123:S846Y;ENSP00000361073:S836Y;ENSP00000361066:S836Y;ENSP00000361065:S846Y	ENSP00000345671:S836Y	S	+	2	0	NCOA3	45699929	0.310000	0.24527	0.995000	0.50966	0.367000	0.29736	2.668000	0.46816	2.680000	0.91292	0.655000	0.94253	TCT		0.358	NCOA3-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000080405.1	NM_006534		A	46266522	C	A	46266522	3	1	630	1	0	0	0	0	1	0	0	0	10237	913	32	4	2579	4	NCOA3	20	46266522	Missense_Mutation	SNP	C	TCGA-KL-8331-01A-11D-2310-10	45801820	46266522	16758998	63	38837										
ZNF831	128611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	57768140	57768140	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	ggacatatccgcaggggcaaCgccagagccttggggaaatc	14	11	0	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr20:57768140C>T	ENST00000371030.2	+	1	2066	c.2066C>T	c.(2065-2067)aCg>aTg	p.T689M		NM_178457.1	NP_848552.1	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	689							metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(15)|lung(71)|ovary(2)|pancreas(1)|prostate(4)|skin(16)|upper_aerodigestive_tract(2)|urinary_tract(3)	125	all_lung(29;0.0085)					GCAGGGGCAACGCCAGAGCCT	0.617																																																0													29	36	34					20																	57768140		2050	4184	6234	SO:0001583	missense	128611			AL121919	CCDS42894.1	20q13.32	2008-10-20	2008-03-25	2008-03-25	ENSG00000124203	ENSG00000124203			16167	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 174"	C20orf174			Standard	NM_178457		Approved	dJ492J12.1	uc002yan.3	Q5JPB2	OTTHUMG00000032864	ENST00000371030.2:c.2066C>T	20.37:g.57768140C>T	ENSP00000360069:p.Thr689Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TDR4|Q8TCP0	Missense_Mutation	SNP	ENST00000371030.2	37	CCDS42894.1	.	.	.	.	.	.	.	.	.	.	C	10.39	1.337178	0.24253	.	.	ENSG00000124203	ENST00000371030	T	0.04454	3.62	4.54	-9.07	0.00724	.	1.784740	0.02778	N	0.120580	T	0.01835	0.0058	N	0.08118	0	0.09310	N	1	D	0.53151	0.958	B	0.35182	0.197	T	0.44862	-0.9300	10	0.66056	D	0.02	-0.8026	4.1301	0.10146	0.304:0.1204:0.4648:0.1108	.	689	Q5JPB2	ZN831_HUMAN	M	689	ENSP00000360069:T689M	ENSP00000360069:T689M	T	+	2	0	ZNF831	57201535	0.000000	0.05858	0.000000	0.03702	0.007000	0.05969	-1.345000	0.02637	-2.321000	0.00641	-0.902000	0.02854	ACG		0.617	ZNF831-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000079916.2	NM_178457		T	57768140	C	T	57768140	3	4	630	1	0	0	0	0	1	0	0	0	18197	536	19	1	2068	1	ZNF831	20	57768140	Missense_Mutation	SNP	C	TCGA-KL-8331-01A-11D-2310-10	11501618	57768140	5257380	64	38838										
GRIK1	2897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr21	30963507	30963507	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gacttgtctttgttgctgtcCgtcatgttaagcccactgtt	9	10	2	0	rs144528849		TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chr21:30963507C>T	ENST00000399907.1	-	10	1701	c.1290G>A	c.(1288-1290)acG>acA	p.T430T	GRIK1_ENST00000327783.4_Silent_p.T430T|GRIK1_ENST00000399913.1_Silent_p.T430T|GRIK1_ENST00000535441.1_Silent_p.T432T|GRIK1_ENST00000399914.1_Silent_p.T415T|GRIK1_ENST00000399909.1_Silent_p.T415T|GRIK1_ENST00000389124.2_Silent_p.T430T|GRIK1_ENST00000309434.7_Silent_p.T432T|GRIK1_ENST00000389125.3_Silent_p.T415T	NM_000830.3	NP_000821.1	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	430					adult behavior (GO:0030534)|behavioral response to pain (GO:0048266)|central nervous system development (GO:0007417)|glutamate receptor signaling pathway (GO:0007215)|ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|negative regulation of synaptic transmission, glutamatergic (GO:0051967)|nervous system development (GO:0007399)|positive regulation of gamma-aminobutyric acid secretion (GO:0014054)|positive regulation of synaptic transmission, GABAergic (GO:0032230)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of inhibitory postsynaptic membrane potential (GO:0060080)|regulation of synaptic transmission, glutamatergic (GO:0051966)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transport (GO:0006810)	cell junction (GO:0030054)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|kainate selective glutamate receptor complex (GO:0032983)|neuronal postsynaptic density (GO:0097481)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|presynaptic membrane (GO:0042734)	extracellular-glutamate-gated ion channel activity (GO:0005234)|kainate selective glutamate receptor activity (GO:0015277)	p.T430T(1)|p.T415T(1)		NS(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(11)|lung(18)|ovary(1)|prostate(4)|skin(1)|stomach(1)|urinary_tract(1)	45					Topiramate(DB00273)	TGTTGCTGTCCGTCATGTTAA	0.448																																																2	Substitution - coding silent(2)	large_intestine(2)						C	,	2,4404	4.2+/-10.8	0,2,2201	397	313	341		1290,1245	-10.1	0.1	21	dbSNP_134	341	0,8600		0,0,4300	no	coding-synonymous,coding-synonymous	GRIK1	NM_000830.3,NM_175611.2	,	0,2,6501	TT,TC,CC		0.0,0.0454,0.0154	,	430/919,415/906	30963507	2,13004	2203	4300	6503	SO:0001819	synonymous_variant	2897				CCDS33530.1, CCDS42913.1	21q22	2012-08-29			ENSG00000171189	ENSG00000171189		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4579	protein-coding gene	gene with protein product		138245		GLUR5		8468067	Standard	XM_005260942		Approved	GluK1	uc002yno.1	P39086	OTTHUMG00000078879	ENST00000399907.1:c.1290G>A	21.37:g.30963507C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q13001|Q86SU9	Silent	SNP	ENST00000399907.1	37	CCDS42913.1																																																																																				0.448	GRIK1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000171979.1			T	30963507	C	T	30963507	2	4	630	1	0	0	0	0	0	0	0	1	6780	639	23	1		1	GRIK1	21	30963507	Silent	SNP	C	TCGA-KL-8331-01A-11D-2310-10		30963507	17166388	65	38839										
ARSF	416	broad.mit.edu	37	chrX	2986145	2986145	+	Frame_Shift_Del	DEL	A	A	-													0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gtattccaagctgcacaatgAggcccaggtaggtaaagcca							TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chrX:2986145delA	ENST00000381127.1	+	2	225	c.4delA	c.(4-6)aggfs	p.R2fs	ARSF_ENST00000537104.1_Intron|ARSF_ENST00000359361.2_Frame_Shift_Del_p.R2fs	NM_001201538.1|NM_001201539.1	NP_001188467.1|NP_001188468.1	P54793	ARSF_HUMAN	arylsulfatase F	2					cellular protein metabolic process (GO:0044267)|glycosphingolipid metabolic process (GO:0006687)|post-translational protein modification (GO:0043687)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum lumen (GO:0005788)|extracellular vesicular exosome (GO:0070062)	arylsulfatase activity (GO:0004065)|metal ion binding (GO:0046872)			NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(15)|ovary(2)|prostate(3)|skin(3)|urinary_tract(2)	38		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)				CTGCACAATGAGGCCCAGGTA	0.363																																																0													112	91	98					X																	2986145		2203	4300	6503	SO:0001589	frameshift_variant	416			X97868	CCDS14123.1	Xp22.3	2013-02-14			ENSG00000062096	ENSG00000062096		"Arylsulfatase family"	721	protein-coding gene	gene with protein product		300003				7720070	Standard	NM_004042		Approved		uc022brz.1	P54793	OTTHUMG00000021081	ENST00000381127.1:c.4delA	X.37:g.2986145delA	ENSP00000370519:p.Arg2fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TCC5	Frame_Shift_Del	DEL	ENST00000381127.1	37	CCDS14123.1																																																																																				0.363	ARSF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055652.1			-	2986145	A	-	2986145	7	5	630	1	0	1	0	1	0	0	0	0	991	295	11	0	6	0	ARSF	23	2986145	Frame_Shift_Del	DEL	A	TCGA-KL-8331-01A-11D-2310-10		2986145	152284415	66	38840										
USP9X	8239	broad.mit.edu	37	chrX	41029423	41029423	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	aaattgagctctttgtgggcGgtgagctgatagatcctgca	13	7	1	4			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chrX:41029423G>A	ENST00000324545.8	+	19	3445	c.2812G>A	c.(2812-2814)Ggt>Agt	p.G938S	USP9X_ENST00000378308.2_Missense_Mutation_p.G938S	NM_001039590.2|NM_001039591.2	NP_001034679.2|NP_001034680.2	Q93008	USP9X_HUMAN	ubiquitin specific peptidase 9, X-linked	938					axon extension (GO:0048675)|BMP signaling pathway (GO:0030509)|cerebellar cortex structural organization (GO:0021698)|chromosome segregation (GO:0007059)|female gamete generation (GO:0007292)|gene expression (GO:0010467)|hippocampus development (GO:0021766)|in utero embryonic development (GO:0001701)|mitotic nuclear division (GO:0007067)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron migration (GO:0001764)|post-embryonic development (GO:0009791)|protein deubiquitination (GO:0016579)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|ubiquitin-dependent protein catabolic process (GO:0006511)	apical part of cell (GO:0045177)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|growth cone (GO:0030426)|membrane (GO:0016020)	co-SMAD binding (GO:0070410)|cysteine-type endopeptidase activity (GO:0004197)|cysteine-type peptidase activity (GO:0008234)|ubiquitin thiolesterase activity (GO:0004221)			NS(3)|breast(6)|central_nervous_system(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(6)|large_intestine(16)|lung(29)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	87						CTTTGTGGGCGGTGAGCTGAT	0.343																																					Ovarian(172;1807 2695 35459 49286)											0													80	73	75					X																	41029423		2109	4244	6353	SO:0001583	missense	8239			X98296	CCDS43930.1, CCDS55403.1	Xp11.4	2010-08-03	2006-02-14		ENSG00000124486	ENSG00000124486		"Ubiquitin-specific peptidases"	12632	protein-coding gene	gene with protein product		300072	"ubiquitin specific protease 9, X chromosome (fat facets-like Drosophila)", "ubiquitin specific protease 9, X-linked (fat facets-like, Drosophila)", "ubiquitin specific peptidase 9, X-linked (fat facets-like, Drosophila)"			8922996	Standard	NM_001039590		Approved	DFFRX, FAF	uc004dfb.3	Q93008	OTTHUMG00000021367	ENST00000324545.8:c.2812G>A	X.37:g.41029423G>A	ENSP00000316357:p.Gly938Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O75550|Q8WWT3|Q8WX12	Missense_Mutation	SNP	ENST00000324545.8	37	CCDS43930.1	.	.	.	.	.	.	.	.	.	.	G	30	5.052267	0.93793	.	.	ENSG00000124486	ENST00000378308;ENST00000324545	T;T	0.03468	3.93;3.92	5.85	5.85	0.93711	.	0.092526	0.85682	D	0.000000	T	0.16896	0.0406	M	0.66939	2.045	0.80722	D	1	D;D	0.89917	0.998;1.0	P;D	0.65140	0.706;0.932	T	0.00052	-1.2191	10	0.54805	T	0.06	.	19.0483	0.93030	0.0:0.0:1.0:0.0	.	938;938	Q93008-1;Q93008	.;USP9X_HUMAN	S	938	ENSP00000367558:G938S;ENSP00000316357:G938S	ENSP00000316357:G938S	G	+	1	0	USP9X	40914367	1.000000	0.71417	0.996000	0.52242	0.997000	0.91878	7.863000	0.87023	2.448000	0.82819	0.594000	0.82650	GGT		0.343	USP9X-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000056250.4	NM_004652		A	41029423	G	A	41029423	3	1	630	1	0	0	0	0	1	0	0	0	17102	1116	39	1	2882	1	USP9X	23	41029423	Missense_Mutation	SNP	G	TCGA-KL-8331-01A-11D-2310-10	38043278	41029423	114241137	67	38841										
PCDH19	57526	broad.mit.edu;mdanderson.org	37	chrX	99661925	99661925	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gtgatgaccggggtgttgtcGttgacgtcgaggatgatgac	17	6	0	5	rs267606933		TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chrX:99661925G>A	ENST00000373034.4	-	1	3346	c.1671C>T	c.(1669-1671)aaC>aaT	p.N557N	PCDH19_ENST00000255531.7_Silent_p.N557N|PCDH19_ENST00000420881.2_Silent_p.N557N	NM_001184880.1	NP_001171809.1	Q8TAB3	PCD19_HUMAN	protocadherin 19	557	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.		N -> K (in EIEE9). {ECO:0000269|PubMed:18469813, ECO:0000269|PubMed:19752159}.		homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(5)|endometrium(11)|kidney(1)|large_intestine(14)|liver(1)|lung(23)|ovary(3)|prostate(2)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(2)	68						GGGTGTTGTCGTTGACGTCGA	0.582																																																0			GRCh37	CM081730	PCDH19	M							125	122	123					X																	99661925		2158	4240	6398	SO:0001819	synonymous_variant	57526			AB037734	CCDS43976.1, CCDS48141.1, CCDS55462.1	Xq22.1	2014-06-28			ENSG00000165194	ENSG00000165194		"Cadherins / Protocadherins : Non-clustered"	14270	protein-coding gene	gene with protein product		300460	"epilepsy, female restricted, with mental retardation (Juberg-Hellman syndrome)"	EFMR		11549318, 18469813, 19752159	Standard	NM_020766		Approved	KIAA1313, EIEE9	uc010nmz.3	Q8TAB3	OTTHUMG00000022000	ENST00000373034.4:c.1671C>T	X.37:g.99661925G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B0LDS4|E9PAM6|Q5JTG1|Q5JTG2|Q68DT7|Q9P2N3	Silent	SNP	ENST00000373034.4	37	CCDS55462.1																																																																																				0.582	PCDH19-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000057479.2	NM_020766		A	99661925	G	A	99661925	2	1	630	1	0	0	0	0	0	0	0	1	11521	1136	40	1		1	PCDH19	23	99661925	Silent	SNP	G	TCGA-KL-8331-01A-11D-2310-10	58632502	99661925	55608635	68	38842										
HS6ST2	90161	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	132091342	132091342	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	agcttgttggatttctcatcCatgttcccgacgctggggga	12	10	1	0			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chrX:132091342C>A	ENST00000370836.2	-	3	856	c.441G>T	c.(439-441)atG>atT	p.M147I	HS6ST2_ENST00000521489.1_Missense_Mutation_p.M147I|HS6ST2_ENST00000370833.2_Start_Codon_SNP_p.M1I	NM_147175.3	NP_671704.3	Q96MM7	H6ST2_HUMAN	heparan sulfate 6-O-sulfotransferase 2	147					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan metabolic process (GO:0030203)|heparan sulfate proteoglycan biosynthetic process, enzymatic modification (GO:0015015)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	heparan sulfate 6-O-sulfotransferase activity (GO:0017095)			central_nervous_system(1)|endometrium(3)|large_intestine(3)|lung(2)	9	Acute lymphoblastic leukemia(192;0.000127)					ATTTCTCATCCATGTTCCCGA	0.617																																																0													40	41	41					X																	132091342		2044	4167	6211	SO:0001583	missense	90161			AB067776	CCDS48169.1, CCDS48170.1	Xq26.2	2008-02-05			ENSG00000171004	ENSG00000171004		"Sulfotransferases, membrane-bound"	19133	protein-coding gene	gene with protein product		300545				10644753	Standard	NM_147175		Approved		uc011mvd.1	Q96MM7	OTTHUMG00000022430	ENST00000370836.2:c.441G>T	X.37:g.132091342C>A	ENSP00000359873:p.Met147Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B9WRT4|B9WRT5|E9PDY5|Q2TB13|Q4VC07|Q6PIC4|Q86SM9|Q8N3T4|Q8NBN4|Q96SJ4	Missense_Mutation	SNP	ENST00000370836.2	37	CCDS48169.1	.	.	.	.	.	.	.	.	.	.	C	15.26	2.781470	0.49891	.	.	ENSG00000171004	ENST00000370837;ENST00000370836;ENST00000521489;ENST00000370833	T;T;T;T	0.79749	-1.2;-0.83;-0.98;-1.3	5.48	4.56	0.56223	.	0.466802	0.24211	N	0.040537	T	0.68210	0.2976	N	0.08118	0	0.80722	D	1	D;D	0.59357	0.985;0.985	P;P	0.47251	0.542;0.542	T	0.74791	-0.3545	10	0.87932	D	0	-13.3626	11.6659	0.51372	0.1775:0.8225:0.0:0.0	.	147;147	Q96MM7;E9PDY5	H6ST2_HUMAN;.	I	1;147;147;1	ENSP00000359874:M1I;ENSP00000359873:M147I;ENSP00000429473:M147I;ENSP00000359870:M1I	ENSP00000359870:M1I	M	-	3	0	HS6ST2	131919024	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	5.358000	0.66064	2.292000	0.77174	0.529000	0.55759	ATG		0.617	HS6ST2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000058332.3	NM_147174		A	132091342	C	A	132091342	3	1	630	1	0	0	0	0	1	0	0	0	7378	594	21	4	1512	4	HS6ST2	23	132091342	Missense_Mutation	SNP	C	TCGA-KL-8331-01A-11D-2310-10	32429417	132091342	23179218	69	38843										
PASD1	139135	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	150817086	150817086	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	tctcttttttcctatttataGtagctctcaaggtcaaagag	6	8	3	1			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chrX:150817086G>A	ENST00000370357.4	+	9	874		c.e9-1			NM_173493.2	NP_775764.2	Q8IV76	PASD1_HUMAN	PAS domain containing 1							nucleus (GO:0005634)	signal transducer activity (GO:0004871)			breast(2)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(3)|liver(1)|lung(25)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	48	Acute lymphoblastic leukemia(192;6.56e-05)					CCTATTTATAGTAGCTCTCAA	0.383																																																0													140	134	136					X																	150817086		2203	4300	6503	SO:0001630	splice_region_variant	139135			AY270020	CCDS35431.1	Xq28	2009-08-06			ENSG00000166049	ENSG00000166049			20686	protein-coding gene	gene with protein product	"cancer/testis antigen 63"					15122589, 15162151	Standard	NM_173493		Approved	CT63	uc004fev.4	Q8IV76	OTTHUMG00000024169	ENST00000370357.4:c.630-1G>A	X.37:g.150817086G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q3MNE0|Q69HD7|Q8N7X9	Splice_Site	SNP	ENST00000370357.4	37	CCDS35431.1	.	.	.	.	.	.	.	.	.	.	G	12.08	1.830713	0.32329	.	.	ENSG00000166049	ENST00000370357	.	.	.	4.14	4.14	0.48551	.	.	.	.	.	.	.	.	.	.	.	0.53688	D	0.999971	.	.	.	.	.	.	.	.	.	.	.	.	.	.	11.5831	0.50902	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	PASD1	150567742	0.038000	0.19896	0.028000	0.17463	0.176000	0.22953	1.554000	0.36266	2.014000	0.59158	0.422000	0.28245	.		0.383	PASD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060879.2	NM_173493	Intron	A	150817086	G	A	150817086	5	1	630	1	0	0	0	0	0	0	1	0	11478	1043	36	2	659	2	PASD1	23	150817086	Splice_Site	SNP	G	TCGA-KL-8331-01A-11D-2310-10	18725744	150817086	4453474	70	38844										
MAGEA10	4109	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chrX	151303811	151303811	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	ggaagggaagcaacgaccgaGggggaggagcaggctatctg	19	7	1	0			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chrX:151303811G>A	ENST00000370323.4	-	4	598	c.282C>T	c.(280-282)ccC>ccT	p.P94P	MAGEA10_ENST00000244096.3_Silent_p.P94P|RP11-1007I13.4_ENST00000509345.2_RNA	NM_001251828.1|NM_021048.4	NP_001238757.1|NP_066386	P43363	MAGAA_HUMAN	melanoma antigen family A, 10	94						nucleus (GO:0005634)				endometrium(2)|kidney(2)|large_intestine(4)|lung(11)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	23	Acute lymphoblastic leukemia(192;6.56e-05)					CAACGACCGAGGGGGAGGAGC	0.547																																																0													172	174	174					X																	151303811		2203	4300	6503	SO:0001819	synonymous_variant	4109				CCDS14705.1	Xq28	2009-03-13			ENSG00000124260	ENSG00000124260			6797	protein-coding gene	gene with protein product	"MAGE-10 antigen", "melanoma-associated antigen 10", "cancer/testis antigen family 1, member 10"	300343		MAGE10		8575766	Standard	NM_001011543		Approved	MGC10599, CT1.10	uc004ffl.3	P43363	OTTHUMG00000024180	ENST00000370323.4:c.282C>T	X.37:g.151303811G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000370323.4	37	CCDS14705.1																																																																																				0.547	MAGEA10-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060916.3	NM_021048		A	151303811	G	A	151303811	2	1	630	1	0	0	0	0	0	0	0	1	9171	987	35	2		2	MAGEA10	23	151303811	Silent	SNP	G	TCGA-KL-8331-01A-11D-2310-10	486725	151303811	3966749	71	38845										
ZNF185	7739	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	152091354	152091354	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0142857142857143	1	1	0.219078540507112	2.40986394557823	0	1	1	0	gctgggagccaggagctcagGtgggtgccgagagctgactc	18	10	1	2			TCGA-KL-8331-01A-11D-2310-10	TCGA-KL-8331-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	7087a2b6-7fc4-45b0-8c48-248864f03deb	2ca67854-9fef-4b3e-a4e0-0432df5a5800	g.chrX:152091354G>T	ENST00000370268.4	+	11	864		c.e11+1		ZNF185_ENST00000370270.2_Splice_Site|ZNF185_ENST00000539731.1_Splice_Site|ZNF185_ENST00000318529.8_Intron|ZNF185_ENST00000324823.6_Intron|ZNF185_ENST00000318504.7_Intron|ZNF185_ENST00000535861.1_Splice_Site|ZNF185_ENST00000449285.2_Splice_Site			O15231	ZN185_HUMAN	zinc finger protein 185 (LIM domain)							actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|plasma membrane (GO:0005886)	zinc ion binding (GO:0008270)			NS(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(3)|ovary(3)	12	Acute lymphoblastic leukemia(192;6.56e-05)					AGGAGCTCAGGTGGGTGCCGA	0.637																																																0													26	28	28					X																	152091354		2165	4249	6414	SO:0001630	splice_region_variant	7739			AK056517	CCDS48184.1, CCDS55528.1, CCDS55529.1, CCDS55530.1, CCDS55531.1, CCDS55532.1, CCDS69832.1	Xq28	2012-08-08			ENSG00000147394	ENSG00000147394		"Zinc fingers, C2H2-type"	12976	protein-coding gene	gene with protein product		300381				9268636	Standard	NM_001178106		Approved		uc011myg.2	O15231	OTTHUMG00000024187	ENST00000370268.4:c.827+1G>T	X.37:g.152091354G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4FTV3|A6NME5|B4DLE9|B7Z771|B8K2L9|B8K2M0|B8K2M1|B8K2M2|E9PFR6|F5GXF7|F5GZL4|F8W8V7|H0Y4M8|O00345|Q8N1R8|Q9NSD2	Splice_Site	SNP	ENST00000370268.4	37	CCDS48184.1	.	.	.	.	.	.	.	.	.	.	G	13.96	2.394119	0.42410	.	.	ENSG00000147394	ENST00000535861;ENST00000539731;ENST00000449285;ENST00000433245;ENST00000370268;ENST00000447088;ENST00000447792	.	.	.	3.57	3.57	0.40892	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	9.7633	0.40545	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	ZNF185	151842010	1.000000	0.71417	0.819000	0.32651	0.323000	0.28346	3.518000	0.53451	2.051000	0.60960	0.436000	0.28706	.		0.637	ZNF185-007	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000377480.1	NM_007150	Intron	T	152091354	G	T	152091354	5	4	630	1	0	0	0	0	0	0	1	0	17764	1275	44	4	888	4	ZNF185	23	152091354	Splice_Site	SNP	G	TCGA-KL-8331-01A-11D-2310-10	787543	152091354	3179206	72	38846										
AGRN	375790	broad.mit.edu	37	chr1	983491	983493	+	In_Frame_Del	DEL	TGA	TGA	-													0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	gcgcctgccgtcctctgctgTgacccctcgggccccgcacc							TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	TGA	TGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr1:983491_983493delTGA	ENST00000379370.2	+	23	3901_3903	c.3851_3853delTGA	c.(3850-3855)gtgacc>gcc	p.1284_1285VT>A		NM_198576.3	NP_940978.2	O00468	AGRIN_HUMAN	agrin	1284	Ser/Thr-rich.				axon guidance (GO:0007411)|carbohydrate metabolic process (GO:0005975)|chondroitin sulfate metabolic process (GO:0030204)|clustering of voltage-gated sodium channels (GO:0045162)|extracellular matrix organization (GO:0030198)|G-protein coupled acetylcholine receptor signaling pathway (GO:0007213)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|neuromuscular junction development (GO:0007528)|neurotransmitter receptor metabolic process (GO:0045213)|phototransduction, visible light (GO:0007603)|plasma membrane organization (GO:0007009)|positive regulation of filopodium assembly (GO:0051491)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of synaptic growth at neuromuscular junction (GO:0045887)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|receptor clustering (GO:0043113)|retinoid metabolic process (GO:0001523)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synapse organization (GO:0050808)	basal lamina (GO:0005605)|cell junction (GO:0030054)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|lysosomal lumen (GO:0043202)|plasma membrane (GO:0005886)|synapse (GO:0045202)	acetylcholine receptor regulator activity (GO:0030548)|calcium ion binding (GO:0005509)|chondroitin sulfate binding (GO:0035374)|dystroglycan binding (GO:0002162)|heparan sulfate proteoglycan binding (GO:0043395)|laminin binding (GO:0043236)|sialic acid binding (GO:0033691)|structural constituent of cytoskeleton (GO:0005200)			breast(1)|central_nervous_system(2)|endometrium(8)|kidney(3)|large_intestine(2)|lung(20)|ovary(1)|prostate(1)|skin(3)|urinary_tract(1)	42	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		TCCTCTGCTGTGACCCCTCGGGC	0.695																																																0																																										SO:0001651	inframe_deletion	375790			XM_372195	CCDS30551.1	1p36.33	2014-09-17		2007-02-16	ENSG00000188157	ENSG00000188157		"Proteoglycans / Extracellular Matrix : Other"	329	protein-coding gene	gene with protein product	"agrin proteoglycan"	103320				1851019, 12270958	Standard	NM_198576		Approved	AGRIN	uc001ack.2	O00468	OTTHUMG00000040778	ENST00000379370.2:c.3851_3853delTGA	1.37:g.983491_983493delTGA	ENSP00000368678:p.Val1284_Thr1285delinsAla	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SVA1|Q5SVA2|Q60FE1|Q7KYS8|Q8N4J5|Q96IC1|Q9BTD4	In_Frame_Del	DEL	ENST00000379370.2	37	CCDS30551.1																																																																																				0.695	AGRN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097990.2	NM_198576		-	983493	TGA	-	983491	7	5	631	1	0	1	0	1	0	0	0	0	397	1696	59	0	3941	0	AGRN	1	983491	In_Frame_Del	DEL	TGA	TCGA-KL-8332-01A-11D-2310-10		983491	248267130	1	38847										
TMEM201	199953	ucsc.edu	37	chr1	9661448	9661448	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	cctttgggcagagccaccagAcgggcgtcgtggcactgggc	16	13	0	2			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr1:9661448A>G	ENST00000340381.6	+	5	901	c.892A>G	c.(892-894)Acg>Gcg	p.T298A	TMEM201_ENST00000340305.5_Missense_Mutation_p.T298A|TMEM201_ENST00000377376.4_Missense_Mutation_p.T298A	NM_001130924.2	NP_001124396.2	Q5SNT2	TM201_HUMAN	transmembrane protein 201	298					fibroblast migration (GO:0010761)|nuclear migration (GO:0007097)	integral component of membrane (GO:0016021)|nuclear membrane (GO:0031965)				lung(3)|upper_aerodigestive_tract(1)	4	all_lung(157;0.222)	all_epithelial(116;2.09e-14)|Renal(390;0.000469)|all_lung(118;0.000521)|Lung NSC(185;0.000744)|Colorectal(325;0.0062)|Breast(348;0.0157)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.5e-08)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|STAD - Stomach adenocarcinoma(132;0.00345)|READ - Rectum adenocarcinoma(331;0.0419)		GAGCCACCAGACGGGCGTCGT	0.697																																																0													47	52	50					1																	9661448		2203	4298	6501	SO:0001583	missense	199953				CCDS30579.1, CCDS44055.1, CCDS44055.2	1p36.22	2009-11-06			ENSG00000188807	ENSG00000188807			33719	protein-coding gene	gene with protein product							Standard	NM_001130924		Approved	RP13-15M17.2, NET5	uc021ofy.1	Q5SNT2	OTTHUMG00000057457	ENST00000340381.6:c.892A>G	1.37:g.9661448A>G	ENSP00000344503:p.Thr298Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B9EH90|Q5SNT3	Missense_Mutation	SNP	ENST00000340381.6	37	CCDS44055.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	9.936|9.936	1.216223|1.216223	0.22373|0.22373	.|.	.|.	ENSG00000188807|ENSG00000188807	ENST00000416541|ENST00000377376;ENST00000340305;ENST00000340381	.|.	.|.	.|.	4.92|4.92	2.56|2.56	0.30785|0.30785	.|.	.|0.709593	.|0.13717	.|N	.|0.367656	T|T	0.20210|0.20210	0.0486|0.0486	N|N	0.14661|0.14661	0.345|0.345	0.09310|0.09310	N|N	0.999997|0.999997	.|B;B	.|0.25206	.|0.12;0.041	.|B;B	.|0.27262	.|0.078;0.047	T|T	0.18650|0.18650	-1.0330|-1.0330	5|9	.|0.35671	.|T	.|0.21	-0.5121|-0.5121	6.1404|6.1404	0.20257|0.20257	0.7205:0.0:0.2795:0.0|0.7205:0.0:0.2795:0.0	.|.	.|298;298	.|E9PBR6;Q5SNT2-2	.|.;.	G|A	207|298	.|.	.|ENSP00000344772:T298A	D|T	+|+	2|1	0|0	TMEM201|TMEM201	9584035|9584035	0.020000|0.020000	0.18652|0.18652	0.722000|0.722000	0.30670|0.30670	0.762000|0.762000	0.43233|0.43233	-0.055000|-0.055000	0.11807|0.11807	0.734000|0.734000	0.32515|0.32515	0.460000|0.460000	0.39030|0.39030	GAC|ACG		0.697	TMEM201-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000127672.1	NM_001010866		G	9661448	A	G	9661448	3	3	631	1	0	0	0	0	1	0	0	0	16138	275	10	3	910	3	TMEM201	1	9661448	Missense_Mutation	SNP	A	TCGA-KL-8332-01A-11D-2310-10	8677957	9661448	239589173	2	38848										
HSPG2	3339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	22176895	22176895	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	ctcaatggtgaccaggacagAggcctctagaggcacggagc	14	11	2	3			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr1:22176895A>T	ENST00000374695.3	-	56	7334	c.7255T>A	c.(7255-7257)Tct>Act	p.S2419T	HSPG2_ENST00000430507.1_3'UTR	NM_005529.5	NP_005520.4	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2	2419	Ig-like C2-type 9.				angiogenesis (GO:0001525)|brain development (GO:0007420)|carbohydrate metabolic process (GO:0005975)|cardiac muscle tissue development (GO:0048738)|cartilage development involved in endochondral bone morphogenesis (GO:0060351)|chondrocyte differentiation (GO:0002062)|chondroitin sulfate metabolic process (GO:0030204)|embryonic skeletal system morphogenesis (GO:0048704)|endochondral ossification (GO:0001958)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|lipoprotein metabolic process (GO:0042157)|phototransduction, visible light (GO:0007603)|protein localization (GO:0008104)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)	basal lamina (GO:0005605)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi lumen (GO:0005796)|lysosomal lumen (GO:0043202)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|protein C-terminus binding (GO:0008022)			breast(6)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(15)|liver(1)|lung(44)|ovary(10)|pancreas(1)|prostate(10)|skin(9)|upper_aerodigestive_tract(3)|urinary_tract(3)	127		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)	Palifermin(DB00039)	ACCAGGACAGAGGCCTCTAGA	0.677																																																0													28	28	28					1																	22176895		2202	4299	6501	SO:0001583	missense	3339			M85289	CCDS30625.1	1p36.1-p35	2013-01-29	2007-02-16	2007-02-16	ENSG00000142798	ENSG00000142798		"Proteoglycans / Extracellular Matrix : Other", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5273	protein-coding gene	gene with protein product	"perlecan proteoglycan"	142461	"Schwartz-Jampel syndrome 1 (chondrodystrophic myotonia)"	SJS1		1685141, 11941538	Standard	XM_005245863		Approved	perlecan, PRCAN	uc001bfj.3	P98160	OTTHUMG00000002674	ENST00000374695.3:c.7255T>A	1.37:g.22176895A>T	ENSP00000363827:p.Ser2419Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q16287|Q5SZI3|Q9H3V5	Missense_Mutation	SNP	ENST00000374695.3	37	CCDS30625.1	.	.	.	.	.	.	.	.	.	.	A	14.04	2.416217	0.42918	.	.	ENSG00000142798	ENST00000374695	T	0.67171	-0.25	5.45	5.45	0.79879	Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.38217	N	0.001776	T	0.74038	0.3664	L	0.49455	1.56	0.41410	D	0.987733	D;D	0.64830	0.965;0.994	P;D	0.78314	0.775;0.991	T	0.69525	-0.5122	10	0.10902	T	0.67	.	13.4578	0.61210	1.0:0.0:0.0:0.0	.	359;2419	Q59EG0;P98160	.;PGBM_HUMAN	T	2419	ENSP00000363827:S2419T	ENSP00000363827:S2419T	S	-	1	0	HSPG2	22049482	1.000000	0.71417	0.948000	0.38648	0.410000	0.31052	3.281000	0.51685	2.077000	0.62373	0.459000	0.35465	TCT		0.677	HSPG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000007598.1	NM_005529		T	22176895	A	T	22176895	3	4	631	1	0	0	0	0	1	0	0	0	7437	304	11	5	6088	5	HSPG2	1	22176895	Missense_Mutation	SNP	A	TCGA-KL-8332-01A-11D-2310-10	12515447	22176895	227073726	3	38849										
SLC9A1	6548	bcgsc.ca	37	chr1	27436145	27436146	+	Frame_Shift_Ins	INS	-	-	A													0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	gtgaaggctgcgatgaccccINSgtagaccacgcccacaagca					rs529383211		TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr1:27436145_27436146insA	ENST00000263980.3	-	3	1511_1512	c.936_937insT	c.(934-939)tacgggfs	p.G313fs	SLC9A1_ENST00000374086.3_Frame_Shift_Ins_p.G313fs|SLC9A1_ENST00000545949.1_5'UTR	NM_003047.4	NP_003038.2	P19634	SL9A1_HUMAN	solute carrier family 9, subfamily A (NHE1, cation proton antiporter 1), member 1	313					carbohydrate metabolic process (GO:0005975)|cardiac muscle cell differentiation (GO:0055007)|cell growth (GO:0016049)|cellular response to acidic pH (GO:0071468)|glycosaminoglycan metabolic process (GO:0030203)|hyaluronan catabolic process (GO:0030214)|hyaluronan metabolic process (GO:0030212)|hydrogen ion transmembrane transport (GO:1902600)|ion transport (GO:0006811)|negative regulation of apoptotic process (GO:0043066)|neuron death (GO:0070997)|positive regulation of action potential (GO:0045760)|positive regulation of cell growth (GO:0030307)|positive regulation of mitochondrial membrane permeability (GO:0035794)|protein oligomerization (GO:0051259)|regulation of intracellular pH (GO:0051453)|regulation of pH (GO:0006885)|regulation of sensory perception of pain (GO:0051930)|regulation of the force of heart contraction (GO:0002026)|response to acidic pH (GO:0010447)|response to drug (GO:0042493)|response to organic cyclic compound (GO:0014070)|small molecule metabolic process (GO:0044281)|sodium ion export (GO:0071436)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|membrane raft (GO:0045121)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium-dependent protein binding (GO:0048306)|sodium:proton antiporter activity (GO:0015385)|solute:proton antiporter activity (GO:0015299)			central_nervous_system(1)|cervix(3)|endometrium(3)|kidney(2)|large_intestine(4)|liver(1)|lung(7)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	27				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)	GCGATGACCCCGTAGACCACGC	0.594																																																0																																										SO:0001589	frameshift_variant	6548			M81768	CCDS295.1	1p36.1-p35	2014-06-13	2012-03-22		ENSG00000090020	ENSG00000090020		"Solute carriers"	11071	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 143"	107310	"solute carrier family 9 (sodium/hydrogen exchanger), isoform 1 (antiporter, Na+/H+, amiloride sensitive)", "solute carrier family 9 (sodium/hydrogen exchanger), member 1"	APNH, NHE1		8283968	Standard	NM_003047		Approved	PPP1R143	uc001bnm.4	P19634	OTTHUMG00000004271	ENST00000263980.3:c.936_937insT	1.37:g.27436145_27436146insA	ENSP00000263980:p.Gly313fs	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALD6|D3DPL4|Q96EM2	Frame_Shift_Ins	INS	ENST00000263980.3	37	CCDS295.1																																																																																				0.594	SLC9A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012336.2	NM_003047		A	27436146	-	A	27436145	7	5	631	1	0	1	1	0	0	0	0	0	14722	652	23	0	1550	0	SLC9A1	1	27436145	Frame_Shift_Ins	INS	-	TCGA-KL-8332-01A-11D-2310-10	5259250	27436145	221814476	4	38850										
SPOCD1	90853	ucsc.edu;bcgsc.ca	37	chr1	32280705	32280705	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	ccaagacccctggccggaccTcagcagcacctgcagcccgg	11	19	1	1			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr1:32280705T>C	ENST00000360482.2	-	2	359	c.230A>G	c.(229-231)gAg>gGg	p.E77G	SPOCD1_ENST00000257100.3_Intron|SPOCD1_ENST00000533231.1_Missense_Mutation_p.E77G|SPOCD1_ENST00000373648.2_Missense_Mutation_p.E77G	NM_144569.4	NP_653170.3	Q6ZMY3	SPOC1_HUMAN	SPOC domain containing 1	77					negative regulation of phosphatase activity (GO:0010923)|transcription, DNA-templated (GO:0006351)					NS(1)|breast(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(8)|liver(1)|lung(7)|ovary(6)|prostate(1)|skin(3)|stomach(1)|urinary_tract(2)	37		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)|Ovarian(437;0.199)		STAD - Stomach adenocarcinoma(196;0.18)		TGGCCGGACCTCAGCAGCACC	0.672																																																0													29	32	31					1																	32280705		2203	4300	6503	SO:0001583	missense	90853			AK058077	CCDS347.1, CCDS60066.1, CCDS72748.1	1p35.1	2014-06-13			ENSG00000134668	ENSG00000134668			26338	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 146"					12477932	Standard	NM_144569		Approved	FLJ25348, PPP1R146	uc001bts.1	Q6ZMY3	OTTHUMG00000003879	ENST00000360482.2:c.230A>G	1.37:g.32280705T>C	ENSP00000353670:p.Glu77Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q24JU3|Q6PI90|Q8N869|Q8N8U0|Q8NBC6|Q96LN6	Missense_Mutation	SNP	ENST00000360482.2	37	CCDS347.1	.	.	.	.	.	.	.	.	.	.	T	5.069	0.198303	0.09652	.	.	ENSG00000134668	ENST00000360482;ENST00000373648;ENST00000533231	T;T;T	0.35973	1.72;1.28;1.72	3.4	-3.04	0.05412	.	.	.	.	.	T	0.17492	0.0420	N	0.08118	0	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.21075	-1.0256	9	0.59425	D	0.04	-0.1588	8.8639	0.35274	0.0:0.3432:0.0:0.6568	.	77;77	Q6ZMY3-2;Q6ZMY3	.;SPOC1_HUMAN	G	77	ENSP00000353670:E77G;ENSP00000362752:E77G;ENSP00000435851:E77G	ENSP00000353670:E77G	E	-	2	0	SPOCD1	32053292	0.000000	0.05858	0.000000	0.03702	0.004000	0.04260	-0.337000	0.07852	-0.725000	0.04901	-0.132000	0.14878	GAG		0.672	SPOCD1-007	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000381912.1	NM_144569		C	32280705	T	C	32280705	3	2	631	1	0	0	0	0	1	0	0	0	15090	1551	54	3	3480	3	SPOCD1	1	32280705	Missense_Mutation	SNP	T	TCGA-KL-8332-01A-11D-2310-10	4844560	32280705	216969916	5	38851										
GJB3	2707	broad.mit.edu	37	chr1	35250386	35250386	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	ggactggaagacactccaggCcctactgagcggtgtgaaca	13	11	0	3			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr1:35250386C>A	ENST00000373366.2	+	2	638	c.23C>A	c.(22-24)gCc>gAc	p.A8D	RP1-34M23.5_ENST00000542839.1_RNA|GJB3_ENST00000373362.3_Missense_Mutation_p.A8D	NM_024009.2	NP_076872.1	O75712	CXB3_HUMAN	gap junction protein, beta 3, 31kDa	8					cell communication (GO:0007154)|in utero embryonic development (GO:0001701)|placenta development (GO:0001890)|sensory perception of sound (GO:0007605)|skin development (GO:0043588)|transmembrane transport (GO:0055085)	connexon complex (GO:0005922)|cytoplasm (GO:0005737)|gap junction (GO:0005921)|integral component of membrane (GO:0016021)	gap junction channel activity (GO:0005243)			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(2)|prostate(3)	15		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				ACACTCCAGGCCCTACTGAGC	0.552																																																0													88	69	76					1																	35250386		2203	4300	6503	SO:0001583	missense	2707			BC012918	CCDS384.1	1p34	2008-05-14	2007-01-16		ENSG00000188910	ENSG00000188910		"Ion channels / Gap junction proteins (connexins)"	4285	protein-coding gene	gene with protein product	"connexin 31"	603324	"gap junction protein, beta 3, 31kD (connexin 31)", "gap junction protein, beta 3, 31kDa (connexin 31)", "erythrokeratodermia variabilis"	DFNA2, EKV		9843210, 9704026	Standard	NM_024009		Approved	CX31	uc001bxy.3	O75712	OTTHUMG00000004051	ENST00000373366.2:c.23C>A	1.37:g.35250386C>A	ENSP00000362464:p.Ala8Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B2R790|Q2TAZ8	Missense_Mutation	SNP	ENST00000373366.2	37	CCDS384.1	.	.	.	.	.	.	.	.	.	.	c	0.018	-1.467938	0.01053	.	.	ENSG00000188910	ENST00000373366;ENST00000373362;ENST00000543647	D;D	0.99089	-5.41;-5.41	5.85	-1.61	0.08399	Connexin, N-terminal (1);	0.621249	0.16477	N	0.212733	D	0.95459	0.8525	N	0.17723	0.515	0.09310	N	1	B	0.06786	0.001	B	0.15484	0.013	D	0.85997	0.1492	10	0.12430	T	0.62	.	14.2953	0.66308	0.2538:0.1754:0.5708:0.0	.	8	O75712	CXB3_HUMAN	D	8	ENSP00000362464:A8D;ENSP00000362460:A8D	ENSP00000362460:A8D	A	+	2	0	GJB3	35022973	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.592000	0.05747	-0.458000	0.07023	-1.131000	0.01979	GCC		0.552	GJB3-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000011559.1	NM_024009		A	35250386	C	A	35250386	3	1	631	1	0	0	0	0	1	0	0	0	6416	739	26	4	25	4	GJB3	1	35250386	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10	2969681	35250386	214000235	6	38852										
DOCK7	85440	hgsc.bcm.edu;bcgsc.ca	37	chr1	63005305	63005305	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	aaagaatgcaaggcttgtatTgagtctctcaaccatttctg	8	8	3	2	rs371894094		TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr1:63005305T>A	ENST00000340370.5	-	26	3135	c.3118A>T	c.(3118-3120)Aat>Tat	p.N1040Y	DOCK7_ENST00000251157.5_Missense_Mutation_p.N1071Y	NM_033407.2	NP_212132.2	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	1071					activation of Rac GTPase activity (GO:0032863)|axonogenesis (GO:0007409)|establishment of neuroblast polarity (GO:0045200)|hematopoietic progenitor cell differentiation (GO:0002244)|interkinetic nuclear migration (GO:0022027)|microtubule cytoskeleton organization (GO:0000226)|neuron projection development (GO:0031175)|pigmentation (GO:0043473)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|regulation of neurogenesis (GO:0050767)|small GTPase mediated signal transduction (GO:0007264)	axon (GO:0030424)|basal part of cell (GO:0045178)|focal adhesion (GO:0005925)|growth cone (GO:0030426)|neuron projection (GO:0043005)	guanyl-nucleotide exchange factor activity (GO:0005085)|Rac GTPase binding (GO:0048365)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(8)|kidney(6)|large_intestine(19)|lung(42)|ovary(2)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	92						AGGCTTGTATTGAGTCTCTCA	0.348																																																0													90	100	96					1																	63005305		2203	4300	6503	SO:0001583	missense	85440				CCDS30734.1, CCDS60156.1, CCDS60157.1	1p32.1	2008-02-05			ENSG00000116641	ENSG00000116641			19190	protein-coding gene	gene with protein product		615730				12432077	Standard	NM_033407		Approved	KIAA1771, ZIR2	uc001daq.4	Q96N67	OTTHUMG00000013131	ENST00000340370.5:c.3118A>T	1.37:g.63005305T>A	ENSP00000340742:p.Asn1040Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q00M63|Q2PPY7|Q45RE8|Q45RE9|Q5T1B9|Q5T1C0|Q6ZV32|Q8TB82|Q96NG6|Q96NI0|Q9C092	Missense_Mutation	SNP	ENST00000340370.5	37	CCDS30734.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	25.1|25.1	4.602421|4.602421	0.87157|0.87157	.|.	.|.	ENSG00000116641|ENSG00000116641	ENST00000371140;ENST00000251157;ENST00000340370|ENST00000454575	T;T|.	0.29397|.	1.57;1.57|.	5.55|5.55	5.55|5.55	0.83447|0.83447	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	D|D	0.83917|0.83917	0.5358|0.5358	M|M	0.90145|0.90145	3.09|3.09	0.80722|0.80722	D|D	1|1	D;D;D;D;D|.	0.89917|.	1.0;1.0;1.0;1.0;1.0|.	D;D;D;D;D|.	0.91635|.	0.999;0.998;0.997;0.993;0.993|.	D|D	0.87095|0.87095	0.2175|0.2175	10|5	0.87932|.	D|.	0|.	.|.	15.8711|15.8711	0.79119|0.79119	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	1071;1040;1040;1040;1071|.	Q96N67-2;Q96N67-5;Q96N67-4;Q96N67-3;Q96N67-6|.	.;.;.;.;.|.	Y|L	1071;1071;1040|242	ENSP00000251157:N1071Y;ENSP00000340742:N1040Y|.	ENSP00000251157:N1071Y|.	N|Q	-|-	1|2	0|0	DOCK7|DOCK7	62777893|62777893	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.997000|0.997000	0.91878|0.91878	7.772000|7.772000	0.85439|0.85439	2.334000|2.334000	0.79466|0.79466	0.528000|0.528000	0.53228|0.53228	AAT|CAA		0.348	DOCK7-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000036806.1	NM_033407		A	63005305	T	A	63005305	3	1	631	1	0	0	0	0	1	0	0	0	4694	1812	63	5	3307	5	DOCK7	1	63005305	Missense_Mutation	SNP	T	TCGA-KL-8332-01A-11D-2310-10	27754919	63005305	186245316	7	38853										
FAM73A	374986	ucsc.edu	37	chr1	78269049	78269049	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	tgtaactatgctaatggaggActtttcagtaaatattcagg	9	5	2	0			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr1:78269049A>G	ENST00000370791.3	+	4	500	c.468A>G	c.(466-468)ggA>ggG	p.G156G	FAM73A_ENST00000443751.2_Silent_p.G118G	NM_001270384.1|NM_198549.3	NP_001257313.1|NP_940951.1	Q8NAN2	FA73A_HUMAN	family with sequence similarity 73, member A	156						integral component of membrane (GO:0016021)				breast(2)|kidney(2)|large_intestine(5)|lung(6)|ovary(2)|skin(1)|urinary_tract(1)	19				Colorectal(170;0.226)		CTAATGGAGGACTTTTCAGTA	0.318																																																0													58	57	57					1																	78269049		2202	4294	6496	SO:0001819	synonymous_variant	374986				CCDS681.1, CCDS72809.1	1p31.1	2008-02-05			ENSG00000180488	ENSG00000180488			24741	protein-coding gene	gene with protein product							Standard	NM_001270384		Approved	FLJ35093	uc010ork.3	Q8NAN2	OTTHUMG00000009766	ENST00000370791.3:c.468A>G	1.37:g.78269049A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6MZG0	Silent	SNP	ENST00000370791.3	37	CCDS681.1																																																																																				0.318	FAM73A-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000026931.1	NM_198549		G	78269049	A	G	78269049	2	3	631	1	0	0	0	0	0	0	0	1	5624	262	10	3		3	FAM73A	1	78269049	Silent	SNP	A	TCGA-KL-8332-01A-11D-2310-10	15263744	78269049	170981572	8	38854										
PTGFRN	5738	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	117491967	117491967	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	cagcaccctacctggctcccGcgtgttggcgcggcttgacc	12	17	0	1			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr1:117491967G>A	ENST00000393203.2	+	4	1133	c.986G>A	c.(985-987)cGc>cAc	p.R329H		NM_020440.2	NP_065173.2	Q9P2B2	FPRP_HUMAN	prostaglandin F2 receptor inhibitor	329	Ig-like C2-type 3.				lipid particle organization (GO:0034389)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)				NS(1)|breast(1)|endometrium(4)|large_intestine(10)|liver(1)|lung(22)|ovary(1)|prostate(4)|stomach(1)|upper_aerodigestive_tract(1)	46	Lung SC(450;0.225)	all_cancers(81;0.00104)|all_lung(203;8.97e-05)|all_epithelial(167;0.000139)|Lung NSC(69;0.000446)		Lung(183;0.0704)|LUSC - Lung squamous cell carcinoma(189;0.227)|Colorectal(144;0.248)		CCTGGCTCCCGCGTGTTGGCG	0.592																																																0													111	92	99					1																	117491967		2203	4300	6503	SO:0001583	missense	5738			AB014734	CCDS890.1	1p13.1	2013-01-29	2013-01-25		ENSG00000134247	ENSG00000134247		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9601	protein-coding gene	gene with protein product		601204	"prostaglandin F2 receptor negative regulator"			8655148	Standard	NM_020440		Approved	FPRP, EWI-F, CD9P-1, FLJ11001, KIAA1436, SMAP-6, CD315	uc001egv.1	Q9P2B2	OTTHUMG00000012028	ENST00000393203.2:c.986G>A	1.37:g.117491967G>A	ENSP00000376899:p.Arg329His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VVU9|Q8N2K6	Missense_Mutation	SNP	ENST00000393203.2	37	CCDS890.1	.	.	.	.	.	.	.	.	.	.	G	9.142	1.014082	0.19277	.	.	ENSG00000134247	ENST00000393203;ENST00000544471	T	0.66460	-0.21	5.57	-9.03	0.00737	Immunoglobulin subtype (1);Immunoglobulin V-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.709830	0.14938	N	0.289670	T	0.15998	0.0385	N	0.08118	0	0.09310	N	1	B	0.14805	0.011	B	0.12156	0.007	T	0.14227	-1.0480	10	0.42905	T	0.14	-4.1024	8.1169	0.30948	0.2011:0.1105:0.5803:0.1082	.	329	Q9P2B2	FPRP_HUMAN	H	329;188	ENSP00000376899:R329H	ENSP00000376899:R329H	R	+	2	0	PTGFRN	117293490	0.000000	0.05858	0.000000	0.03702	0.655000	0.38815	0.091000	0.15046	-2.101000	0.00846	-0.291000	0.09656	CGC		0.592	PTGFRN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033271.1	NM_020440		A	117491967	G	A	117491967	3	1	631	1	0	0	0	0	1	0	0	0	12761	1087	38	1	1000	1	PTGFRN	1	117491967	Missense_Mutation	SNP	G	TCGA-KL-8332-01A-11D-2310-10	39222918	117491967	131758654	9	38855										
BCAN	63827	broad.mit.edu	37	chr1	156622489	156622489	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	gggtccctcgaggagagagcGaggagacaggaagctccgag	18	9	0	2			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr1:156622489G>A	ENST00000329117.5	+	8	2083	c.1747G>A	c.(1747-1749)Gag>Aag	p.E583K	BCAN_ENST00000361588.5_Missense_Mutation_p.E583K|RP11-284F21.7_ENST00000448869.1_RNA	NM_021948.4	NP_068767.3	Q96GW7	PGCB_HUMAN	brevican	583					carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glycosaminoglycan metabolic process (GO:0030203)|hippocampus development (GO:0021766)|small molecule metabolic process (GO:0044281)	anchored component of membrane (GO:0031225)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|lysosomal lumen (GO:0043202)|proteinaceous extracellular matrix (GO:0005578)	carbohydrate binding (GO:0030246)|hyaluronic acid binding (GO:0005540)			cervix(1)|endometrium(6)|kidney(3)|large_intestine(6)|lung(29)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)	55	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AGGAGAGAGCGAGGAGACAGG	0.622																																																0													51	54	53					1																	156622489		2203	4300	6503	SO:0001583	missense	63827			BC027971	CCDS1149.1, CCDS1150.1	1q31	2013-05-07			ENSG00000132692	ENSG00000132692		"Immunoglobulin superfamily / V-set domain containing", "Proteoglycans / Extracellular Matrix : Hyalectans"	23059	protein-coding gene	gene with protein product	"chondroitin sulfate proteoglycan 7", "brevican proteoglycan"	600347				11054543, 11873941	Standard	NM_021948		Approved	BEHAB, MGC13038, CSPG7	uc001fpp.3	Q96GW7	OTTHUMG00000033322	ENST00000329117.5:c.1747G>A	1.37:g.156622489G>A	ENSP00000331210:p.Glu583Lys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVC2|Q5SZ10|Q5T3I5|Q8TBB9|Q9HBK1|Q9HBK4	Missense_Mutation	SNP	ENST00000329117.5	37	CCDS1149.1	.	.	.	.	.	.	.	.	.	.	G	22.8	4.334596	0.81801	.	.	ENSG00000132692	ENST00000329117;ENST00000361588	T;T	0.14391	2.51;3.14	4.29	4.29	0.51040	.	0.275036	0.21601	N	0.071951	T	0.09905	0.0243	N	0.24115	0.695	0.40596	D	0.981538	D;D	0.71674	0.957;0.998	B;P	0.57846	0.284;0.828	T	0.17531	-1.0366	10	0.30854	T	0.27	-13.5208	12.1032	0.53796	0.0:0.0:1.0:0.0	.	583;583	Q96GW7;Q96GW7-2	PGCB_HUMAN;.	K	583	ENSP00000331210:E583K;ENSP00000354925:E583K	ENSP00000331210:E583K	E	+	1	0	BCAN	154889113	0.986000	0.35501	0.998000	0.56505	0.793000	0.44817	3.354000	0.52254	2.228000	0.72767	0.455000	0.32223	GAG		0.622	BCAN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000081844.2	NM_021948		A	156622489	G	A	156622489	3	1	631	1	0	0	0	0	1	0	0	0	1345	1059	37	1	1773	1	BCAN	1	156622489	Missense_Mutation	SNP	G	TCGA-KL-8332-01A-11D-2310-10	39130522	156622489	92628132	10	38856										
FAM82A1	151393	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	38224599	38224599	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	tgagaaaaaaatggctgctaCtctgtttggaaaaataccat	8	6	1	1			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr2:38224599C>T	ENST00000406384.1	+	8	1180	c.986C>T	c.(985-987)aCt>aTt	p.T329I	RMDN2_ENST00000417700.2_Missense_Mutation_p.T184I|RMDN2_ENST00000354545.2_Missense_Mutation_p.T329I|RMDN2_ENST00000407257.1_Missense_Mutation_p.T507I|RMDN2-AS1_ENST00000414365.2_RNA|RMDN2_ENST00000234195.3_Missense_Mutation_p.T507I	NM_001170792.1	NP_001164263.1	Q96LZ7	RMD2_HUMAN	regulator of microtubule dynamics 2	329						cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|microtubule (GO:0005874)|mitochondrion (GO:0005739)											ATGGCTGCTACTCTGTTTGGA	0.348																																																0													133	132	132					2																	38224599		2203	4300	6503	SO:0001583	missense	151393			AK057516	CCDS1792.1, CCDS54351.1, CCDS54352.1	2p22.2	2013-01-11	2013-01-11	2013-01-11	ENSG00000115841	ENSG00000115841			26567	protein-coding gene	gene with protein product		611872	"family with sequence similarity 82, member A1"	FAM82A, FAM82A1		12477932	Standard	XM_005264161		Approved	FLJ32954, RMD2	uc002rqn.2	Q96LZ7	OTTHUMG00000128487	ENST00000406384.1:c.986C>T	2.37:g.38224599C>T	ENSP00000386004:p.Thr329Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A9UMZ7|A9UN00|Q4ZG33|Q6UXN4|Q8N657|Q8N9A2|Q8NCV6|Q8NHM0	Missense_Mutation	SNP	ENST00000406384.1	37	CCDS54351.1	.	.	.	.	.	.	.	.	.	.	C	18.82	3.704670	0.68615	.	.	ENSG00000115841	ENST00000354545;ENST00000406384;ENST00000407257;ENST00000417700;ENST00000234195;ENST00000442857	T;T;T;T;T;T	0.32988	1.43;1.43;1.43;1.43;1.43;1.43	5.82	4.93	0.64822	Tetratricopeptide-like helical (1);	0.240802	0.42053	D	0.000768	T	0.49372	0.1553	M	0.67700	2.07	0.40775	D	0.983123	P;D;D;D	0.64830	0.876;0.994;0.987;0.994	P;P;P;P	0.61940	0.743;0.896;0.733;0.896	T	0.49283	-0.8956	10	0.56958	D	0.05	-10.3645	13.0422	0.58906	0.0:0.9204:0.0:0.0796	.	507;184;329;184	Q96LZ7-2;Q96LZ7-4;Q96LZ7;Q96LZ7-3	.;.;RMD2_HUMAN;.	I	329;329;507;184;507;184	ENSP00000346549:T329I;ENSP00000386004:T329I;ENSP00000385049:T507I;ENSP00000392977:T184I;ENSP00000234195:T507I;ENSP00000416367:T184I	ENSP00000234195:T507I	T	+	2	0	FAM82A1	38078103	1.000000	0.71417	1.000000	0.80357	0.954000	0.61252	3.722000	0.54948	2.752000	0.94435	0.655000	0.94253	ACT		0.348	RMDN2-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000325577.1	NM_144713		T	38224599	C	T	38224599	3	4	631	1	0	0	0	0	1	0	0	0	5637	565	20	2	2006	2	FAM82A1	2	38224599	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10		38224599	204974774	11	38857										
AAK1	22848	ucsc.edu	37	chr2	69732801	69732801	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	cctccaagcttctcgggatgTttgcctggagagacaaaaca	10	11	1	1			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr2:69732801T>C	ENST00000409085.4	-	16	2545	c.2169A>G	c.(2167-2169)aaA>aaG	p.K723K	AAK1_ENST00000409068.1_Intron|AAK1_ENST00000406297.3_Silent_p.K723K	NM_014911.3	NP_055726	Q2M2I8	AAK1_HUMAN	AP2 associated kinase 1	723					endocytosis (GO:0006897)|positive regulation of Notch signaling pathway (GO:0045747)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|protein stabilization (GO:0050821)|regulation of clathrin-mediated endocytosis (GO:2000369)|regulation of protein localization (GO:0032880)	cell leading edge (GO:0031252)|clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|extrinsic component of plasma membrane (GO:0019897)|terminal bouton (GO:0043195)	AP-2 adaptor complex binding (GO:0035612)|ATP binding (GO:0005524)|Notch binding (GO:0005112)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(6)|prostate(1)	17						TCTCGGGATGTTTGCCTGGAG	0.493																																																0													59	60	60					2																	69732801		1933	4128	6061	SO:0001819	synonymous_variant	22848			AB028971	CCDS1893.2	2p13.3	2012-07-10			ENSG00000115977	ENSG00000115977			19679	protein-coding gene	gene with protein product						11877461, 12471243	Standard	NM_014911		Approved	KIAA1048, DKFZp686K16132	uc002sfp.2	Q2M2I8	OTTHUMG00000129648	ENST00000409085.4:c.2169A>G	2.37:g.69732801T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZFZ3|Q53RX6|Q9UPV4	Silent	SNP	ENST00000409085.4	37	CCDS1893.2																																																																																				0.493	AAK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251847.4	NM_014911		C	69732801	T	C	69732801	2	2	631	1	0	0	0	0	0	0	0	1	16	1722	60	3		3	AAK1	2	69732801	Silent	SNP	T	TCGA-KL-8332-01A-11D-2310-10	31508202	69732801	173466572	12	38858										
RPIA	22934	ucsc.edu	37	chr2	88991370	88991370	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	ggcgtgcacagtctgggaccCgtggcggtgctggcaacaca	16	12	1	0			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr2:88991370C>T	ENST00000283646.4	+	1	209	c.154C>T	c.(154-156)Cgt>Tgt	p.R52C		NM_144563.2	NP_653164.2	P49247	RPIA_HUMAN	ribose 5-phosphate isomerase A	52					carbohydrate metabolic process (GO:0005975)|pentose-phosphate shunt (GO:0006098)|pentose-phosphate shunt, non-oxidative branch (GO:0009052)|ribose phosphate metabolic process (GO:0019693)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)	monosaccharide binding (GO:0048029)|ribose-5-phosphate isomerase activity (GO:0004751)			breast(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(8)|ovary(1)|skin(1)	18		Acute lymphoblastic leukemia(2;0.000456)|all_hematologic(2;0.00287)				GTCTGGGACCCGTGGCGGTGC	0.731																																																0													6	11	9					2																	88991370		1813	3966	5779	SO:0001583	missense	22934			L35035	CCDS2004.2	2p11.2	2008-07-31	2008-07-31		ENSG00000153574	ENSG00000153574	5.3.1.6		10297	protein-coding gene	gene with protein product	"ribose 5-phosphate epimerase"	180430				7758956	Standard	NM_144563		Approved		uc002ste.3	P49247	OTTHUMG00000130333	ENST00000283646.4:c.154C>T	2.37:g.88991370C>T	ENSP00000283646:p.Arg52Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q541P9|Q96BJ6	Missense_Mutation	SNP	ENST00000283646.4	37	CCDS2004.2	.	.	.	.	.	.	.	.	.	.	C	12.14	1.847640	0.32606	.	.	ENSG00000153574	ENST00000283646	T	0.79749	-1.3	4.66	-0.221	0.13126	.	.	.	.	.	T	0.58666	0.2138	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.48305	-0.9047	9	0.62326	D	0.03	1.4726	4.0815	0.09929	0.0:0.3702:0.3553:0.2745	.	52	P49247	RPIA_HUMAN	C	52	ENSP00000283646:R52C	ENSP00000283646:R52C	R	+	1	0	RPIA	88772485	0.000000	0.05858	0.005000	0.12908	0.747000	0.42532	-0.012000	0.12699	-0.139000	0.11414	0.484000	0.47621	CGT		0.731	RPIA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252683.2			T	88991370	C	T	88991370	3	4	631	1	0	0	0	0	1	0	0	0	13566	652	23	1	156	1	RPIA	2	88991370	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10	19258569	88991370	154208003	13	38859										
FAM168B	130074	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr2	131813240	131813240	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	ccgctggtgggggaacaggaCactttgtaaggtgtgccagg	17	8	0	0			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr2:131813240C>T	ENST00000409185.1	-	4	290	c.183G>A	c.(181-183)gtG>gtA	p.V61V	FAM168B_ENST00000389915.3_Silent_p.V61V	NM_001009993.2	NP_001009993.2	A1KXE4	F168B_HUMAN	family with sequence similarity 168, member B	61						cell projection (GO:0042995)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				endometrium(3)|lung(2)	5						GGGAACAGGACACTTTGTAAG	0.617																																																0													43	47	46					2																	131813240		2037	4191	6228	SO:0001819	synonymous_variant	130074				CCDS42755.1	2q21.1	2008-08-08			ENSG00000152102	ENSG00000152102			27016	protein-coding gene	gene with protein product							Standard	NM_001009993		Approved	KIAA0280L	uc002tsd.3	A1KXE4	OTTHUMG00000153473	ENST00000409185.1:c.183G>A	2.37:g.131813240C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2TAZ6|Q6NZ40	Silent	SNP	ENST00000409185.1	37	CCDS42755.1																																																																																				0.617	FAM168B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331299.2	NM_001009993		T	131813240	C	T	131813240	2	4	631	1	0	0	0	0	0	0	0	1	5490	465	17	2		2	FAM168B	2	131813240	Silent	SNP	C	TCGA-KL-8332-01A-11D-2310-10	42821870	131813240	111386133	14	38860										
PLA2R1	22925	broad.mit.edu	37	chr2	160807853	160807853	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	gggagttaggatacctacatCtgtggtgaacagtccaatcc	11	9	1	1			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr2:160807853C>T	ENST00000283243.7	-	24	3744	c.3538G>A	c.(3538-3540)Gat>Aat	p.D1180N	PLA2R1_ENST00000392771.1_Missense_Mutation_p.D1180N	NM_001195641.1|NM_007366.4	NP_001182570.1|NP_031392.3	Q13018	PLA2R_HUMAN	phospholipase A2 receptor 1, 180kDa	1180	C-type lectin 7. {ECO:0000255|PROSITE- ProRule:PRU00040}.				cytokine production (GO:0001816)|negative regulation of arachidonic acid secretion (GO:1900139)|negative regulation of phospholipase A2 activity (GO:1900138)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of arachidonic acid secretion (GO:0090238)|positive regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043517)|reactive oxygen species metabolic process (GO:0072593)|receptor-mediated endocytosis (GO:0006898)|replicative senescence (GO:0090399)	cell surface (GO:0009986)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	carbohydrate binding (GO:0030246)|phospholipase binding (GO:0043274)|receptor activity (GO:0004872)		PLA2R1/RBMS1(2)	central_nervous_system(1)|endometrium(8)|kidney(2)|large_intestine(17)|lung(20)|ovary(1)|pancreas(1)|prostate(1)|skin(7)|stomach(1)|upper_aerodigestive_tract(1)	60						ATACCTACATCTGTGGTGAAC	0.448																																																0													156	145	149					2																	160807853		2203	4300	6503	SO:0001583	missense	22925			U17033	CCDS33309.1, CCDS42767.1	2q23-q24	2011-08-30	2002-08-29		ENSG00000153246	ENSG00000153246		"C-type lectin domain containing"	9042	protein-coding gene	gene with protein product		604939	"phospholipase A2 receptor 1, 180kD"			7721806, 7925459	Standard	NM_007366		Approved	PLA2G1R, PLA2IR, PLA2-R, CLEC13C	uc002ube.2	Q13018	OTTHUMG00000154087	ENST00000283243.7:c.3538G>A	2.37:g.160807853C>T	ENSP00000283243:p.Asp1180Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTU9|D3DPB1|Q13019|Q15095|Q53R45|Q53RR7	Missense_Mutation	SNP	ENST00000283243.7	37	CCDS33309.1	.	.	.	.	.	.	.	.	.	.	C	11.21	1.572165	0.28092	.	.	ENSG00000153246	ENST00000283243;ENST00000392771	T;T	0.18810	2.19;2.19	4.94	3.13	0.36017	C-type lectin fold (1);C-type lectin-like (1);C-type lectin (3);	0.332772	0.32028	N	0.006692	T	0.23649	0.0572	L	0.52206	1.635	0.48452	D	0.999656	B;B;B	0.28470	0.032;0.104;0.213	B;B;B	0.38106	0.182;0.126;0.265	T	0.03534	-1.1027	10	0.28530	T	0.3	.	11.2165	0.48830	0.0:0.8504:0.0:0.1496	.	1180;1180;1180	B7ZML4;Q13018-2;Q13018	.;.;PLA2R_HUMAN	N	1180	ENSP00000283243:D1180N;ENSP00000376524:D1180N	ENSP00000283243:D1180N	D	-	1	0	PLA2R1	160516099	0.995000	0.38212	0.785000	0.31869	0.242000	0.25591	2.858000	0.48356	0.782000	0.33613	0.557000	0.71058	GAT		0.448	PLA2R1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333820.1			T	160807853	C	T	160807853	3	4	631	1	0	0	0	0	1	0	0	0	12017	913	32	2	889	2	PLA2R1	2	160807853	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10	28994613	160807853	82391520	15	38861										
PECR	55825	broad.mit.edu;bcgsc.ca	37	chr2	216946400	216946400	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	ccgtggccccgccggtgacgAtggccacttggccctgcagc	14	17	0	1			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr2:216946400A>C	ENST00000265322.7	-	1	139	c.65T>G	c.(64-66)aTc>aGc	p.I22S	TMEM169_ENST00000437356.2_5'Flank|TMEM169_ENST00000406027.2_5'Flank|PECR_ENST00000497889.1_5'UTR|TMEM169_ENST00000295658.4_5'Flank|TMEM169_ENST00000454545.1_5'Flank	NM_018441.5	NP_060911.2	Q9BY49	PECR_HUMAN	peroxisomal trans-2-enoyl-CoA reductase	22				I -> F (in Ref. 2; CAB89810). {ECO:0000305}.	fatty acid biosynthetic process (GO:0006633)|oxidation-reduction process (GO:0055114)|phytol metabolic process (GO:0033306)	intracellular membrane-bounded organelle (GO:0043231)|mitochondrion (GO:0005739)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	receptor binding (GO:0005102)|trans-2-enoyl-CoA reductase (NADPH) activity (GO:0019166)			endometrium(2)|kidney(1)|liver(1)|lung(9)|stomach(1)	14		Renal(323;0.0327)		Epithelial(149;3.8e-06)|all cancers(144;0.000272)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Adenine(DB00173)	GCCGGTGACGATGGCCACTTG	0.682																																																0													36	36	36					2																	216946400		2201	4299	6500	SO:0001583	missense	55825			AF119841	CCDS33375.1	2q35	2011-09-14			ENSG00000115425	ENSG00000115425	1.3.1.38	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 1"	18281	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 29C, member 1"	605843				10811639, 11669066, 19027726	Standard	NM_018441		Approved	HSA250303, TERP, SDR29C1	uc002vft.3	Q9BY49	OTTHUMG00000154825	ENST00000265322.7:c.65T>G	2.37:g.216946400A>C	ENSP00000265322:p.Ile22Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE42|Q53TC4|Q6IAK9|Q9NRD4|Q9NY60|Q9P1A4	Missense_Mutation	SNP	ENST00000265322.7	37	CCDS33375.1	.	.	.	.	.	.	.	.	.	.	A	27.4	4.828406	0.90955	.	.	ENSG00000115425	ENST00000265322	T	0.26957	1.7	4.53	4.53	0.55603	NAD(P)-binding domain (1);	0.177601	0.49305	D	0.000144	T	0.52964	0.1767	M	0.87900	2.915	0.47698	D	0.999492	D;D	0.89917	1.0;0.999	D;D	0.78314	0.991;0.952	T	0.60084	-0.7332	10	0.87932	D	0	.	10.1616	0.42855	1.0:0.0:0.0:0.0	.	22;22	B4DJS2;Q9BY49	.;PECR_HUMAN	S	22	ENSP00000265322:I22S	ENSP00000265322:I22S	I	-	2	0	PECR	216654645	1.000000	0.71417	1.000000	0.80357	0.954000	0.61252	4.217000	0.58547	1.905000	0.55150	0.460000	0.39030	ATC		0.682	PECR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337277.1	NM_018441		C	216946400	A	C	216946400	3	2	631	1	0	0	0	0	1	0	0	0	11724	333	12	5	878	5	PECR	2	216946400	Missense_Mutation	SNP	A	TCGA-KL-8332-01A-11D-2310-10	56138547	216946400	26252973	16	38862										
CAV3	859	broad.mit.edu	37	chr3	8775578	8775578	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	ctgcgatgatggcagaagagCacacagatctcgaggcccag	13	11	1	4			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr3:8775578C>T	ENST00000343849.2	+	1	93	c.16C>T	c.(16-18)Cac>Tac	p.H6Y	SSUH2_ENST00000478513.1_Intron|CAV3_ENST00000472766.1_3'UTR|CAV3_ENST00000397368.2_Missense_Mutation_p.H6Y	NM_001234.4|NM_033337.2	NP_001225.1|NP_203123.1	P56539	CAV3_HUMAN	caveolin 3	6					actin filament organization (GO:0007015)|cardiac muscle cell development (GO:0055013)|caveola assembly (GO:0070836)|cell differentiation (GO:0030154)|cell growth (GO:0016049)|cholesterol homeostasis (GO:0042632)|cytoplasmic microtubule organization (GO:0031122)|endocytosis (GO:0006897)|establishment of protein localization to plasma membrane (GO:0090002)|glucose homeostasis (GO:0042593)|heart trabecula formation (GO:0060347)|membrane raft organization (GO:0031579)|muscle cell cellular homeostasis (GO:0046716)|muscle organ development (GO:0007517)|myoblast fusion (GO:0007520)|negative regulation of calcium ion transport (GO:0051926)|negative regulation of cardiac muscle hypertrophy (GO:0010614)|negative regulation of cell growth involved in cardiac muscle cell development (GO:0061052)|negative regulation of cell size (GO:0045792)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of MAPK cascade (GO:0043409)|negative regulation of nitric-oxide synthase activity (GO:0051001)|negative regulation of potassium ion transmembrane transport (GO:1901380)|negative regulation of potassium ion transmembrane transporter activity (GO:1901017)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of protein localization to cell surface (GO:2000009)|negative regulation of sarcomere organization (GO:0060299)|nucleus localization (GO:0051647)|plasma membrane organization (GO:0007009)|plasma membrane repair (GO:0001778)|positive regulation of caveolin-mediated endocytosis (GO:2001288)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of microtubule polymerization (GO:0031116)|positive regulation of myotube differentiation (GO:0010831)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|protein localization (GO:0008104)|protein localization to plasma membrane (GO:0072659)|regulation of branching involved in mammary gland duct morphogenesis (GO:0060762)|regulation of calcium ion import (GO:0090279)|regulation of calcium ion transmembrane transporter activity (GO:1901019)|regulation of cardiac muscle contraction (GO:0055117)|regulation of heart contraction (GO:0008016)|regulation of heart rate (GO:0002027)|regulation of membrane depolarization during cardiac muscle cell action potential (GO:1900825)|regulation of membrane potential (GO:0042391)|regulation of nerve growth factor receptor activity (GO:0051394)|regulation of p38MAPK cascade (GO:1900744)|regulation of protein kinase B signaling (GO:0051896)|regulation of signal transduction by receptor internalization (GO:0038009)|regulation of skeletal muscle contraction (GO:0014819)|regulation of sodium ion transmembrane transporter activity (GO:2000649)|regulation of transforming growth factor beta receptor signaling pathway (GO:0017015)|regulation of ventricular cardiac muscle cell membrane depolarization (GO:0060373)|regulation of ventricular cardiac muscle cell membrane repolarization (GO:0060307)|T-tubule organization (GO:0033292)|triglyceride metabolic process (GO:0006641)|ventricular cardiac muscle cell action potential (GO:0086005)	caveola (GO:0005901)|cell surface (GO:0009986)|dystrophin-associated glycoprotein complex (GO:0016010)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|membrane raft (GO:0045121)|neuromuscular junction (GO:0031594)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|vesicle (GO:0031982)	calcium channel regulator activity (GO:0005246)|connexin binding (GO:0071253)|ion channel binding (GO:0044325)|potassium channel inhibitor activity (GO:0019870)|protein C-terminus binding (GO:0008022)|protein complex binding (GO:0032403)|protein complex scaffold (GO:0032947)|sodium channel regulator activity (GO:0017080)			breast(1)|kidney(2)|large_intestine(4)|lung(3)|prostate(1)	11						GGCAGAAGAGCACACAGATCT	0.547																																																0													107	92	97					3																	8775578		2203	4300	6503	SO:0001583	missense	859			AF043101	CCDS2569.1	3p25	2014-09-17			ENSG00000182533	ENSG00000182533			1529	protein-coding gene	gene with protein product	"M-caveolin"	601253				9536092, 9537420	Standard	NM_033337		Approved	VIP-21, LGMD1C, VIP21, LQT9	uc003brb.3	P56539	OTTHUMG00000090519	ENST00000343849.2:c.16C>T	3.37:g.8775578C>T	ENSP00000341940:p.His6Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K777|Q3T1A4	Missense_Mutation	SNP	ENST00000343849.2	37	CCDS2569.1	.	.	.	.	.	.	.	.	.	.	C	0.274	-0.990711	0.02162	.	.	ENSG00000182533	ENST00000343849;ENST00000397368	D;D	0.91945	-2.94;-2.94	5.08	4.19	0.49359	.	0.287903	0.34435	N	0.003971	T	0.77136	0.4086	N	0.00926	-1.1	0.29110	N	0.88096	B	0.02656	0.0	B	0.01281	0.0	T	0.69826	-0.5040	10	0.36615	T	0.2	-20.4026	11.9305	0.52843	0.1742:0.8258:0.0:0.0	.	6	P56539	CAV3_HUMAN	Y	6	ENSP00000341940:H6Y;ENSP00000380525:H6Y	ENSP00000341940:H6Y	H	+	1	0	CAV3	8750578	0.809000	0.29036	0.988000	0.46212	0.251000	0.25915	1.119000	0.31258	1.106000	0.41623	0.511000	0.50034	CAC		0.547	CAV3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207008.2	NM_033337		T	8775578	C	T	8775578	3	4	631	1	0	0	0	0	1	0	0	0	2697	710	25	2	18	2	CAV3	3	8775578	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10		8775578	189246852	17	38863										
GOLGA4	2803	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	37360554	37360554	+	Splice_Site	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	tctatttggctcattttcagAaatcctcagaagaacaaatt	5	8	4	3			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr3:37360554A>T	ENST00000361924.2	+	12	1788	c.1414A>T	c.(1414-1416)Aaa>Taa	p.K472*	GOLGA4_ENST00000444882.1_Intron|GOLGA4_ENST00000435830.2_3'UTR|GOLGA4_ENST00000356847.4_Splice_Site_p.K494*	NM_002078.4	NP_002069.2	Q13439	GOGA4_HUMAN	golgin A4	472	Glu-rich.				Golgi to plasma membrane protein transport (GO:0043001)|protein targeting to Golgi (GO:0000042)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)|trans-Golgi network (GO:0005802)	GTPase binding (GO:0051020)			NS(2)|breast(3)|central_nervous_system(3)|endometrium(6)|kidney(2)|large_intestine(17)|liver(2)|lung(16)|ovary(4)|prostate(2)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	65						TCATTTTCAGAAATCCTCAGA	0.348																																																0													65	75	72					3																	37360554		2203	4300	6503	SO:0001630	splice_region_variant	2803			U31906	CCDS2666.1, CCDS54564.1	3p22-p21.3	2010-02-12	2010-02-12		ENSG00000144674	ENSG00000144674			4427	protein-coding gene	gene with protein product	"golgin 245"	602509	"golgi autoantigen, golgin subfamily a, 4"			8626529	Standard	NM_002078		Approved	GOLG, GCP2, p230, golgin-240	uc003cgw.3	Q13439	OTTHUMG00000130799	ENST00000361924.2:c.1414-1A>T	3.37:g.37360554A>T		Somatic		WXS	Illumina HiSeq	Phase_I	F8W8Q7|Q13270|Q13654|Q14436|Q59EW8	Nonsense_Mutation	SNP	ENST00000361924.2	37	CCDS2666.1	.	.	.	.	.	.	.	.	.	.	A	41	8.557562	0.98861	.	.	ENSG00000144674	ENST00000361924;ENST00000356847;ENST00000437131	.	.	.	6.02	6.02	0.97574	.	0.000000	0.38492	N	0.001674	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.5446	0.84426	1.0:0.0:0.0:0.0	.	.	.	.	X	472;494;343	.	.	K	+	1	0	GOLGA4	37335558	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	8.396000	0.90190	2.311000	0.77944	0.533000	0.62120	AAA		0.348	GOLGA4-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000253339.2	NM_002078	Nonsense_Mutation	T	37360554	A	T	37360554	5	4	631	1	0	0	0	0	0	0	1	0	6562	260	9	5	1530	5	GOLGA4	3	37360554	Splice_Site	SNP	A	TCGA-KL-8332-01A-11D-2310-10	28584976	37360554	160661876	18	38864										
UROC1	131669	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr3	126220079	126220079	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	accaaagagccaccacgttgCcatggtaaccaaggctgagc	10	13	0	2			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr3:126220079C>T	ENST00000290868.2	-	10	1000	c.947G>A	c.(946-948)gGc>gAc	p.G316D	UROC1_ENST00000383579.3_Missense_Mutation_p.G376D	NM_144639.2	NP_653240.1	Q96N76	HUTU_HUMAN	urocanate hydratase 1	316					cellular nitrogen compound metabolic process (GO:0034641)|histidine catabolic process (GO:0006548)|histidine catabolic process to glutamate and formamide (GO:0019556)|histidine catabolic process to glutamate and formate (GO:0019557)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	urocanate hydratase activity (GO:0016153)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(27)|ovary(1)|skin(1)	39				GBM - Glioblastoma multiforme(114;0.17)		CACCACGTTGCCATGGTAACC	0.572																																																0													241	231	234					3																	126220079		2203	4300	6503	SO:0001583	missense	131669			AK055862	CCDS3038.1, CCDS54636.1	3q21.2	2012-08-21	2012-08-21		ENSG00000159650	ENSG00000159650	4.2.1.49		26444	protein-coding gene	gene with protein product	"urocanase 1"	613012	"urocanase domain containing 1"			19304569	Standard	NM_144639		Approved	FLJ31300, HMFN0320	uc010hsi.2	Q96N76	OTTHUMG00000162753	ENST00000290868.2:c.947G>A	3.37:g.126220079C>T	ENSP00000290868:p.Gly316Asp	Somatic		WXS	Illumina HiSeq	Phase_I	E9PE13|Q14C64|Q68CJ7	Missense_Mutation	SNP	ENST00000290868.2	37	CCDS3038.1	.	.	.	.	.	.	.	.	.	.	c	19.08	3.757346	0.69648	.	.	ENSG00000159650	ENST00000290868;ENST00000383579	T;T	0.63417	-0.04;-0.04	4.94	4.94	0.65067	Urocanase domain (2);	0.000000	0.85682	D	0.000000	D	0.86306	0.5901	H	0.97732	4.065	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.91262	0.5037	10	0.87932	D	0	-9.3404	15.6633	0.77206	0.0:1.0:0.0:0.0	.	376;316	E9PE13;Q96N76	.;HUTU_HUMAN	D	316;376	ENSP00000290868:G316D;ENSP00000373073:G376D	ENSP00000290868:G316D	G	-	2	0	UROC1	127702769	1.000000	0.71417	1.000000	0.80357	0.500000	0.33767	7.194000	0.77789	2.300000	0.77407	0.486000	0.48141	GGC		0.572	UROC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370325.2	NM_144639		T	126220079	C	T	126220079	3	4	631	1	0	0	0	0	1	0	0	0	17040	739	26	2	1127	2	UROC1	3	126220079	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10	88859525	126220079	71802351	19	38865										
LARP7	51574	hgsc.bcm.edu	37	chr4	113565882	113565883	+	Frame_Shift_Ins	INS	-	-	A													0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	aagaagaaagcactgaaaagINSaaaaaagaagttgaaaaaaa							TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr4:113565882_113565883insA	ENST00000344442.5	+	2	335_336	c.57_58insA	c.(58-60)aaafs	p.K20fs	MIR302B_ENST00000509938.1_RNA|LARP7_ENST00000509061.1_Frame_Shift_Ins_p.K27fs|MIR302B_ENST00000510655.1_RNA|LARP7_ENST00000324052.6_Frame_Shift_Ins_p.K20fs|MIR302B_ENST00000505215.1_RNA	NM_016648.3	NP_057732.2	Q4G0J3	LARP7_HUMAN	La ribonucleoprotein domain family, member 7	20					RNA processing (GO:0006396)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			endometrium(2)|large_intestine(2)|lung(8)|ovary(4)|skin(1)	17		Ovarian(17;0.0443)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		GCACTGAAAAGAAAAAAGAAGT	0.356																																																0																																										SO:0001589	frameshift_variant	51574			AF068284	CCDS3701.2, CCDS58924.1	4q25	2013-02-12			ENSG00000174720	ENSG00000174720		"La ribonucleoprotein domain containing", "RNA binding motif (RRM) containing"	24912	protein-coding gene	gene with protein product	"P-TEFb-interaction protein for 7SK stability"	612026				18191186, 18249148, 18281698, 22865833, 22488152	Standard	NM_016648		Approved	HDCMA18P, PIP7S, DKFZP564K112	uc003ibb.4	Q4G0J3	OTTHUMG00000132909	ENST00000344442.5:c.63dupA	4.37:g.113565888_113565888dupA	ENSP00000344950:p.Lys20fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2ZHN6|Q3B7A9|Q9P1S7|Q9Y3Z8	Frame_Shift_Ins	INS	ENST00000344442.5	37	CCDS3701.2																																																																																				0.356	LARP7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256417.2	NM_016648		A	113565883	-	A	113565882	7	5	631	1	0	1	1	0	0	0	0	0	8640	933	33	0	59	0	LARP7	4	113565882	Frame_Shift_Ins	INS	-	TCGA-KL-8332-01A-11D-2310-10		113565882	77588394	20	38866	319	2								
LARP7	51574	bcgsc.ca	37	chr4	113565883	113565884	+	Frame_Shift_Ins	INS	-	-	A													0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	agaagaaagcactgaaaagaINSaaaaagaagttgaaaaaaag							TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr4:113565883_113565884insA	ENST00000344442.5	+	2	336_337	c.58_59insA	c.(58-60)aaafs	p.K20fs	MIR302B_ENST00000509938.1_RNA|LARP7_ENST00000509061.1_Frame_Shift_Ins_p.K27fs|MIR302B_ENST00000510655.1_RNA|LARP7_ENST00000324052.6_Frame_Shift_Ins_p.K20fs|MIR302B_ENST00000505215.1_RNA	NM_016648.3	NP_057732.2	Q4G0J3	LARP7_HUMAN	La ribonucleoprotein domain family, member 7	20					RNA processing (GO:0006396)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			endometrium(2)|large_intestine(2)|lung(8)|ovary(4)|skin(1)	17		Ovarian(17;0.0443)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		CACTGAAAAGAAAAAAGAAGTT	0.356																																																0																																										SO:0001589	frameshift_variant	51574			AF068284	CCDS3701.2, CCDS58924.1	4q25	2013-02-12			ENSG00000174720	ENSG00000174720		"La ribonucleoprotein domain containing", "RNA binding motif (RRM) containing"	24912	protein-coding gene	gene with protein product	"P-TEFb-interaction protein for 7SK stability"	612026				18191186, 18249148, 18281698, 22865833, 22488152	Standard	NM_016648		Approved	HDCMA18P, PIP7S, DKFZP564K112	uc003ibb.4	Q4G0J3	OTTHUMG00000132909	ENST00000344442.5:c.63dupA	4.37:g.113565888_113565888dupA	ENSP00000344950:p.Lys20fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2ZHN6|Q3B7A9|Q9P1S7|Q9Y3Z8	Frame_Shift_Ins	INS	ENST00000344442.5	37	CCDS3701.2																																																																																				0.356	LARP7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256417.2	NM_016648		A	113565884	-	A	113565883	7	5	631	1	0	1	1	0	0	0	0	0	8640	247	9	0	60	0	LARP7	4	113565883	Frame_Shift_Ins	INS	-	TCGA-KL-8332-01A-11D-2310-10	1	113565883	77588393	21	38867	319	2								
FGA	2243	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr4	155506759	155506759	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	ttcatgatcggcttcacttcCggcctcatctgccattttat	6	13	4	1			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr4:155506759C>T	ENST00000302053.3	-	5	1900	c.1822G>A	c.(1822-1824)Gga>Aga	p.G608R	FGA_ENST00000403106.3_Missense_Mutation_p.G608R	NM_000508.3	NP_000499.1	P02671	FIBA_HUMAN	fibrinogen alpha chain	608					blood coagulation (GO:0007596)|blood coagulation, common pathway (GO:0072377)|cell-matrix adhesion (GO:0007160)|cellular protein complex assembly (GO:0043623)|extracellular matrix organization (GO:0030198)|negative regulation of blood coagulation, common pathway (GO:2000261)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|platelet activation (GO:0030168)|platelet aggregation (GO:0070527)|platelet degranulation (GO:0002576)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of exocytosis (GO:0045921)|positive regulation of heterotypic cell-cell adhesion (GO:0034116)|positive regulation of peptide hormone secretion (GO:0090277)|positive regulation of protein secretion (GO:0050714)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|positive regulation of vasoconstriction (GO:0045907)|protein polymerization (GO:0051258)|response to calcium ion (GO:0051592)|signal transduction (GO:0007165)	blood microparticle (GO:0072562)|cell cortex (GO:0005938)|cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|fibrinogen complex (GO:0005577)|plasma membrane (GO:0005886)|platelet alpha granule (GO:0031091)|platelet alpha granule lumen (GO:0031093)|vesicle (GO:0031982)	structural molecule activity (GO:0005198)			NS(1)|breast(5)|central_nervous_system(2)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(14)|liver(2)|lung(20)|ovary(3)|pancreas(1)|prostate(8)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(6)	73	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	GCTTCACTTCCGGCCTCATCT	0.453																																					NSCLC(143;340 1922 20892 22370 48145)											0													146	134	138					4																	155506759		2203	4300	6503	SO:0001583	missense	2243				CCDS3787.1, CCDS47152.1	4q28	2014-09-17			ENSG00000171560	ENSG00000171560		"Fibrinogen C domain containing", "Endogenous ligands"	3661	protein-coding gene	gene with protein product		134820	"fibrinogen, A alpha polypeptide"				Standard	NM_000508		Approved		uc003iod.1	P02671	OTTHUMG00000150330	ENST00000302053.3:c.1822G>A	4.37:g.155506759C>T	ENSP00000306361:p.Gly608Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3E4|D3DP14|D3DP15|Q4QQH7|Q9BX62|Q9UCH2	Missense_Mutation	SNP	ENST00000302053.3	37	CCDS3787.1	.	.	.	.	.	.	.	.	.	.	C	19.08	3.757512	0.69648	.	.	ENSG00000171560	ENST00000302053;ENST00000403106	T;T	0.56776	0.44;2.88	5.5	4.66	0.58398	.	5.596130	0.00166	N	0.000001	T	0.64800	0.2631	L	0.50333	1.59	0.09310	N	1	D;D	0.63880	0.993;0.987	P;P	0.52424	0.698;0.502	T	0.54536	-0.8279	10	0.42905	T	0.14	.	13.9898	0.64359	0.1516:0.8484:0.0:0.0	.	608;608	P02671-2;P02671	.;FIBA_HUMAN	R	608	ENSP00000306361:G608R;ENSP00000385981:G608R	ENSP00000306361:G608R	G	-	1	0	FGA	155726209	0.003000	0.15002	0.002000	0.10522	0.146000	0.21551	1.715000	0.37971	1.549000	0.49425	-0.152000	0.13540	GGA		0.453	FGA-002	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317593.1	NM_000508		T	155506759	C	T	155506759	3	4	631	1	0	0	0	0	1	0	0	0	5837	661	23	1	830	1	FGA	4	155506759	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10	41940876	155506759	35647517	22	38868										
ADAM29	11086	mdanderson.org	37	chr4	175899001	175899001	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	caacctcgggtgatgccttcTcagagtcaacctcctgtgat	9	13	2	3	rs111240604	byFrequency	TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr4:175899001T>C	ENST00000359240.3	+	5	2995	c.2325T>C	c.(2323-2325)tcT>tcC	p.S775S	ADAM29_ENST00000445694.1_Silent_p.S775S|RP13-577H12.2_ENST00000507525.1_RNA|ADAM29_ENST00000404450.4_Silent_p.S775S|ADAM29_ENST00000514159.1_Silent_p.S775S	NM_001278125.1|NM_014269.4	NP_001265054.1|NP_055084.3	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29	775	9 X 9 AA approximate repeats.				spermatogenesis (GO:0007283)	integral component of plasma membrane (GO:0005887)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(16)|lung(25)|ovary(3)|pancreas(1)|prostate(7)|skin(24)|urinary_tract(2)	93		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)		TGATGCCTTCTCAGAGTCAAC	0.567																																					Ovarian(140;1727 1835 21805 25838 41440)											0													175	158	163					4																	175899001		2203	4300	6503	SO:0001819	synonymous_variant	11086			AF171929	CCDS3823.1	4q34.1	2012-05-16	2005-08-18		ENSG00000168594	ENSG00000168594		"ADAM metallopeptidase domain containing"	207	protein-coding gene	gene with protein product	"cancer/testis antigen 73"	604778	"a disintegrin and metalloproteinase domain 29"			10644455	Standard	NM_014269		Approved	svph1, CT73	uc031shw.1	Q9UKF5	OTTHUMG00000160764	ENST00000359240.3:c.2325T>C	4.37:g.175899001T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5F3|Q9UHP1|Q9UKF3|Q9UKF4	Silent	SNP	ENST00000359240.3	37	CCDS3823.1																																																																																				0.567	ADAM29-201	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding				C	175899001	T	C	175899001	2	2	631	1	0	0	0	0	0	0	0	1	247	1538	54	3		3	ADAM29	4	175899001	Silent	SNP	T	TCGA-KL-8332-01A-11D-2310-10	20392242	175899001	15255275	23	38869										
SDHA	6389	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr5	256467	256467	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	aggtcactctggaatatagaCccgtgatcgacaaaactttg	9	9	2	2			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr5:256467C>G	ENST00000264932.6	+	15	2042	c.1927C>G	c.(1927-1929)Ccc>Gcc	p.P643A	SDHA_ENST00000504309.1_Missense_Mutation_p.P562A|SDHA_ENST00000510361.1_Missense_Mutation_p.P595A|SDHA_ENST00000507522.1_3'UTR	NM_004168.2	NP_004159.2	P31040	SDHA_HUMAN	succinate dehydrogenase complex, subunit A, flavoprotein (Fp)	643					cellular metabolic process (GO:0044237)|nervous system development (GO:0007399)|oxidation-reduction process (GO:0055114)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)|succinate metabolic process (GO:0006105)|tricarboxylic acid cycle (GO:0006099)	mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain complex II (GO:0005749)|mitochondrion (GO:0005739)	flavin adenine dinucleotide binding (GO:0050660)|succinate dehydrogenase (ubiquinone) activity (GO:0008177)			NS(1)|breast(1)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(6)|liver(2)|lung(16)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	40			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	GGAATATAGACCCGTGATCGA	0.433									Familial Paragangliomas																																							0													93	105	101					5																	256467		2203	4300	6503	SO:0001583	missense	6389	Familial Cancer Database	Hereditary Glomus Tumors, Familial Paragangliomas, Hereditary Paragangliomas, type 1-3: PGL1, PGL2, PGL3, incl. Familial Carotid Body Paraganglioma and Sensorineural Hearing Loss	BC001380	CCDS3853.1	5p15	2014-09-17			ENSG00000073578	ENSG00000073578		"Mitochondrial respiratory chain complex / Complex II"	10680	protein-coding gene	gene with protein product		600857		SDH2		7798181	Standard	XM_005248329		Approved	FP, SDHF	uc003jao.4	P31040	OTTHUMG00000090275	ENST00000264932.6:c.1927C>G	5.37:g.256467C>G	ENSP00000264932:p.Pro643Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5J6|B4DJ60|E9PBJ5|Q16395|Q59GW8|Q8IW48|Q9UMY5	Missense_Mutation	SNP	ENST00000264932.6	37	CCDS3853.1	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	N|N|N	12.65|12.65|12.65	2.002169|2.002169|2.002169	0.35320|0.35320|0.35320	.|.|.	.|.|.	ENSG00000073578|ENSG00000073578|ENSG00000073578	ENST00000509564|ENST00000264932;ENST00000327872;ENST00000504309;ENST00000510361|ENST00000515815	D|D;D;D|.	0.84660|0.83419|.	-1.88|-1.72;-1.72;-1.72|.	4.12|4.12|4.12	4.12|4.12|4.12	0.48240|0.48240|0.48240	.|Fumarate reductase/succinate dehydrogenase flavoprotein-like, C-terminal (1);Fumarate reductase/succinate dehydrogenase flavoprotein, C-terminal (1);|.	.|0.000000|.	.|0.85682|.	.|U|.	.|0.000000|.	T|T|T	0.75133|0.75133|0.75133	0.3808|0.3808|0.3808	M|M|M	0.79693|0.79693|0.79693	2.465|2.465|2.465	0.80722|0.80722|0.80722	D|D|D	1|1|1	.|B;D;D;B|.	.|0.69078|.	.|0.299;0.994;0.997;0.094|.	.|B;P;D;B|.	.|0.77004|.	.|0.219;0.835;0.989;0.037|.	T|T|T	0.77525|0.77525|0.77525	-0.2555|-0.2555|-0.2555	7|10|5	0.87932|0.48119|.	D|T|.	0|0.1|.	.|.|.	13.8591|13.8591|13.8591	0.63548|0.63548|0.63548	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.|.	.|595;237;562;643|.	.|E9PBJ5;B3KYA5;D6RFM5;P31040|.	.|.;.;.;DHSA_HUMAN|.	E|A|S	100|643;498;562;595|125	ENSP00000421911:D100E|ENSP00000264932:P643A;ENSP00000426514:P562A;ENSP00000427703:P595A|.	ENSP00000421911:D100E|ENSP00000264932:P643A|.	D|P|T	+|+|+	3|1|2	2|0|0	SDHA|SDHA|SDHA	309467|309467|309467	1.000000|1.000000|1.000000	0.71417|0.71417|0.71417	0.982000|0.982000|0.982000	0.44146|0.44146|0.44146	0.264000|0.264000|0.264000	0.26372|0.26372|0.26372	6.951000|6.951000|6.951000	0.75983|0.75983|0.75983	1.861000|1.861000|1.861000	0.53984|0.53984|0.53984	0.305000|0.305000|0.305000	0.20034|0.20034|0.20034	GAC|CCC|ACC		0.433	SDHA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206599.1	NM_004168		G	256467	C	G	256467	3	3	631	1	0	0	0	0	1	0	0	0	13976	507	18	4	1985	4	SDHA	5	256467	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10		256467	180658793	24	38870										
SLC6A19	340024	bcgsc.ca	37	chr5	1208864	1208864	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	gactcctcccattgcaggagCcttcatgatcccgttcctca	7	16	2	1			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr5:1208864C>T	ENST00000304460.10	+	2	262	c.206C>T	c.(205-207)gCc>gTc	p.A69V		NM_001003841.2	NP_001003841.1	Q695T7	S6A19_HUMAN	solute carrier family 6 (neutral amino acid transporter), member 19	69					amino acid transport (GO:0006865)|ion transport (GO:0006811)|response to nutrient (GO:0007584)|transmembrane transport (GO:0055085)	brush border membrane (GO:0031526)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	neurotransmitter:sodium symporter activity (GO:0005328)|neutral amino acid transmembrane transporter activity (GO:0015175)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|lung(25)|prostate(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	44	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)			ATTGCAGGAGCCTTCATGATC	0.662																																																0													105	101	102					5																	1208864		2203	4300	6503	SO:0001583	missense	340024			AK096054	CCDS34130.1	5p15	2013-07-19			ENSG00000174358	ENSG00000174358		"Solute carriers"	27960	protein-coding gene	gene with protein product	"Hartnup disease"	608893					Standard	NM_001003841		Approved		uc003jbw.4	Q695T7	OTTHUMG00000161636	ENST00000304460.10:c.206C>T	5.37:g.1208864C>T	ENSP00000305302:p.Ala69Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K446	Missense_Mutation	SNP	ENST00000304460.10	37	CCDS34130.1	.	.	.	.	.	.	.	.	.	.	C	18.21	3.573808	0.65765	.	.	ENSG00000174358	ENST00000304460	T	0.79141	-1.24	4.55	4.55	0.56014	.	0.000000	0.85682	D	0.000000	D	0.83908	0.5356	M	0.82193	2.58	0.80722	D	1	P	0.46512	0.879	P	0.47827	0.558	D	0.87742	0.2586	10	0.87932	D	0	.	17.3733	0.87384	0.0:1.0:0.0:0.0	.	69	Q695T7	S6A19_HUMAN	V	69	ENSP00000305302:A69V	ENSP00000305302:A69V	A	+	2	0	SLC6A19	1261864	1.000000	0.71417	0.919000	0.36401	0.559000	0.35586	7.565000	0.82337	2.091000	0.63221	0.485000	0.47835	GCC		0.662	SLC6A19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365557.1	XM_291120		T	1208864	C	T	1208864	3	4	631	1	0	0	0	0	1	0	0	0	14695	739	26	2	212	2	SLC6A19	5	1208864	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10	952397	1208864	179706396	25	38871										
VARS2	57176	broad.mit.edu	37	chr6	30889464	30889464	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	ggggcagagctgaccctggaGaggggtgagtgcctgagctg	20	8	0	5			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr6:30889464G>C	ENST00000321897.5	+	17	2363	c.1731G>C	c.(1729-1731)gaG>gaC	p.E577D	VARS2_ENST00000476162.1_3'UTR|VARS2_ENST00000416670.2_Missense_Mutation_p.E577D|VARS2_ENST00000542001.1_Missense_Mutation_p.E437D|VARS2_ENST00000541562.1_Missense_Mutation_p.E607D			Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	577					gene expression (GO:0010467)|tRNA aminoacylation for protein translation (GO:0006418)|valyl-tRNA aminoacylation (GO:0006438)	mitochondrion (GO:0005739)	aminoacyl-tRNA editing activity (GO:0002161)|ATP binding (GO:0005524)|valine-tRNA ligase activity (GO:0004832)			central_nervous_system(2)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(9)|lung(15)|ovary(3)|prostate(3)|skin(4)|urinary_tract(1)	46						TGACCCTGGAGAGGGGTGAGT	0.632																																																0													20	19	20					6																	30889464		1508	2707	4215	SO:0001583	missense	57176			AB067472	CCDS34387.1, CCDS54980.1	6p21.33	2012-10-26	2012-10-26	2007-02-23	ENSG00000137411	ENSG00000137411	6.1.1.9	"Aminoacyl tRNA synthetases / Class I"	21642	protein-coding gene	gene with protein product	"valine tRNA ligase 2, mitochondrial"	612802	"valyl-tRNA synthetase 2-like", "valyl-tRNA synthetase like", "valyl-tRNA synthetase 2, mitochondrial (putative)"	VARS2L, VARSL		1898367, 11572484, 18400783	Standard	NM_001167734		Approved	DKFZP434L1435, KIAA1885, G7a	uc011dmz.2	Q5ST30	OTTHUMG00000031263	ENST00000321897.5:c.1731G>C	6.37:g.30889464G>C	ENSP00000316092:p.Glu577Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A2ABL7|B4DET4|B4E3P5|F5GXJ0|F5H323|Q2M2A0|Q59FI1|Q5SQ96|Q5SS98|Q6DKJ5|Q6ZV24|Q96GN2|Q96H77|Q96Q02|Q9H6R2|Q9UFH7	Missense_Mutation	SNP	ENST00000321897.5	37	CCDS34387.1	.	.	.	.	.	.	.	.	.	.	G	14.38	2.519454	0.44866	.	.	ENSG00000137411	ENST00000321897;ENST00000416670;ENST00000542001;ENST00000541562	T;T;T;T	0.37584	1.19;1.19;1.19;1.19	5.05	4.18	0.49190	Rossmann-like alpha/beta/alpha sandwich fold (1);Aminoacyl-tRNA synthetase, class Ia (1);	0.234323	0.43110	D	0.000602	T	0.21347	0.0514	M	0.67700	2.07	0.29534	N	0.852599	B;B;B	0.20780	0.048;0.039;0.018	B;B;B	0.25506	0.061;0.048;0.018	T	0.21861	-1.0233	10	0.87932	D	0	-5.4286	10.9229	0.47176	0.0919:0.0:0.9081:0.0	.	575;607;577	B7ZL25;F5GXJ0;Q5ST30	.;.;SYVM_HUMAN	D	577;577;437;607	ENSP00000316092:E577D;ENSP00000394802:E577D;ENSP00000438200:E437D;ENSP00000441000:E607D	ENSP00000316092:E577D	E	+	3	2	VARS2	30997443	1.000000	0.71417	0.998000	0.56505	0.936000	0.57629	3.455000	0.52993	1.124000	0.41980	0.555000	0.69702	GAG		0.632	VARS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076566.2	NM_020442		C	30889464	G	C	30889464	3	2	631	1	0	0	0	0	1	0	0	0	17136	933	33	4	1891	4	VARS2	6	30889464	Missense_Mutation	SNP	G	TCGA-KL-8332-01A-11D-2310-10		30889464	140225603	26	38872										
MUC21	394263	mdanderson.org	37	chr6	30954932	30954932	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	cagcacaacctccagtggggCcagcacagccaccaactctg	9	17	1	0			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr6:30954932C>T	ENST00000376296.3	+	2	1221	c.980C>T	c.(979-981)gCc>gTc	p.A327V	MUC21_ENST00000486149.2_5'UTR	NM_001010909.2	NP_001010909.2	Q5SSG8	MUC21_HUMAN	mucin 21, cell surface associated	327	28 X 15 AA approximate tandem repeats.|Ser-rich.				cellular protein metabolic process (GO:0044267)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-substrate adhesion (GO:0010812)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(4)|breast(1)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(3)|prostate(4)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	42						TCCAGTGGGGCCAGCACAGCC	0.627																																																0													140	140	140					6																	30954932		2203	4298	6501	SO:0001583	missense	394263			AK056612	CCDS34388.1	6p21.33	2008-05-14	2008-05-14	2008-05-14	ENSG00000204544	ENSG00000204544		"Mucins"	21661	protein-coding gene	gene with protein product	"epiglycanin"		"chromosome 6 open reading frame 205"	C6orf205		17977904	Standard	NM_001010909		Approved	bCX31G15.2	uc003nsh.2	Q5SSG8	OTTHUMG00000031216	ENST00000376296.3:c.980C>T	6.37:g.30954932C>T	ENSP00000365473:p.Ala327Val	Somatic		WXS	Illumina HiSeq	Phase_I	B0UZT7|B4DQ55|C9JMK2|D9N007|Q0VGF1|Q3B7T2|Q5SS94|Q6UXC5	Missense_Mutation	SNP	ENST00000376296.3	37	CCDS34388.1	.	.	.	.	.	.	.	.	.	.	c	10.42	1.344802	0.24426	.	.	ENSG00000204544	ENST00000376296	T	0.04119	3.7	4.03	1.23	0.21249	.	.	.	.	.	T	0.00695	0.0023	N	0.08118	0	0.09310	N	1	B	0.06786	0.001	B	0.08055	0.003	T	0.46721	-0.9171	8	.	.	.	-0.5435	6.5251	0.22297	0.0:0.5892:0.0:0.4108	.	327	Q5SSG8	MUC21_HUMAN	V	327	ENSP00000365473:A327V	.	A	+	2	0	MUC21	31062911	0.000000	0.05858	0.000000	0.03702	0.098000	0.18820	0.017000	0.13399	0.245000	0.21373	-0.216000	0.12614	GCC		0.627	MUC21-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000128579.3	NM_001010909		T	30954932	C	T	30954932	3	4	631	1	0	0	0	0	1	0	0	0	9984	739	26	2	986	2	MUC21	6	30954932	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10	65468	30954932	140160135	27	38873										
HLA-DRB1	3123	mdanderson.org	37	chr6	32551996	32551996	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	tctggctgttccagtactcaGcgtcaggccgccccagctcc	10	17	3	0	rs1059584	byFrequency	TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr6:32551996G>T	ENST00000360004.5	-	2	365	c.260C>A	c.(259-261)gCt>gAt	p.A87D		NM_002124.3	NP_002115.2	Q30167	2B1A_HUMAN	major histocompatibility complex, class II, DR beta 1	87	Beta-1.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|late endosome membrane (GO:0031902)|lysosomal membrane (GO:0005765)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)				large_intestine(3)|lung(2)|ovary(1)|prostate(1)|skin(2)|stomach(1)	10						CCAGTACTCAGCGTCAGGCCG	0.627										Multiple Myeloma(14;0.17)			G|||	412	0.0822684	0.1445	0.0663	5008	,	,		7448	0.0427		0.0885	False		,,,				2504	0.044															0													37	40	39					6																	32551996		2186	4282	6468	SO:0001583	missense	3123			AJ297583	CCDS47409.1	6p21.3	2013-01-11			ENSG00000196126	ENSG00000196126		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4948	protein-coding gene	gene with protein product		142857		HLA-DR1B			Standard	NM_001243965		Approved		uc011eri.2	P01911	OTTHUMG00000031196	ENST00000360004.5:c.260C>A	6.37:g.32551996G>T	ENSP00000353099:p.Ala87Asp	Somatic		WXS	Illumina HiSeq	Phase_I	P01914|Q9MYF5	Missense_Mutation	SNP	ENST00000360004.5	37	CCDS47409.1	.	.	.	.	.	.	.	.	.	.	.	15.38	2.815741	0.50527	.	.	ENSG00000196126	ENST00000360004	T	0.00420	7.47	3.52	2.62	0.31277	MHC class II, alpha/beta chain, N-terminal (1);MHC class II, beta chain, N-terminal (3);MHC classes I/II-like antigen recognition protein (1);	0.288263	0.31554	N	0.007451	T	0.01092	0.0036	H	0.99357	4.53	0.09310	N	0.999999	D	0.89917	1.0	D	0.91635	0.999	T	0.38067	-0.9678	10	0.87932	D	0	.	9.9904	0.41868	0.0:0.0:0.7957:0.2042	rs1059584;rs1059585;rs2308717;rs17886576;rs35220740	87	P01911	2B1F_HUMAN	D	87	ENSP00000353099:A87D	ENSP00000353099:A87D	A	-	2	0	HLA-DRB1	32659974	0.396000	0.25262	0.002000	0.10522	0.002000	0.02628	3.831000	0.55776	0.790000	0.33803	0.453000	0.30009	GCT		0.627	HLA-DRB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076393.3	NM_002124		T	32551996	G	T	32551996	3	4	631	1	0	0	0	0	1	0	0	0	7215	971	34	4	560	4	HLA-DRB1	6	32551996	Missense_Mutation	SNP	G	TCGA-KL-8332-01A-11D-2310-10	1597064	32551996	138563071	28	38874										
KIAA0408	9729	bcgsc.ca	37	chr6	127771252	127771253	+	Frame_Shift_Ins	INS	-	-	T													0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	ccaaaaaccctacttttgatINSttttttgttgctttttgttc					rs370114599		TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr6:127771252_127771253insT	ENST00000483725.3	-	3	716_717	c.380_381insA	c.(379-381)aaafs	p.K127fs	SOGA3_ENST00000556132.1_3'UTR|SOGA3_ENST00000481848.2_3'UTR	NM_014702.4	NP_055517.3	Q6ZU52	K0408_HUMAN	KIAA0408	127										endometrium(3)|large_intestine(7)|lung(15)|ovary(1)|pancreas(1)|skin(1)	28				GBM - Glioblastoma multiforme(226;0.0217)|all cancers(137;0.13)		CTACTTTTGATTTTTTTGTTGC	0.416																																																0																																										SO:0001589	frameshift_variant	9729			AB007868	CCDS34531.1	6q22.33	2012-11-29			ENSG00000189367	ENSG00000189367			21636	protein-coding gene	gene with protein product							Standard	NM_014702		Approved		uc011ebs.2	Q6ZU52	OTTHUMG00000166439	ENST00000483725.3:c.382dupA	6.37:g.127771258_127771258dupT	ENSP00000435150:p.Lys127fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRE5|E1P573|O43158|Q5TF20|Q7L2M2	Frame_Shift_Ins	INS	ENST00000483725.3	37	CCDS34531.1																																																																																				0.416	KIAA0408-003	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042145.3	NM_014702		T	127771253	-	T	127771252	7	5	631	1	0	1	1	0	0	0	0	0	8181	1490	52	0	1719	0	KIAA0408	6	127771252	Frame_Shift_Ins	INS	-	TCGA-KL-8332-01A-11D-2310-10	95219256	127771252	43343815	29	38875										
DLX6	1750	broad.mit.edu	37	chr7	96635389	96635391	+	In_Frame_Del	DEL	CAG	CAG	-													0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	agcagcagcagcagcagcaaCagcagcagcagcagcagcag					rs35478952		TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr7:96635389_96635391delCAG	ENST00000518156.2	+	1	530_532	c.100_102delCAG	c.(100-102)cagdel	p.Q44del	DLX6-AS1_ENST00000431497.2_RNA|DLX6_ENST00000007660.5_Intron|DLX6_ENST00000555308.1_5'Flank|DLX6-AS1_ENST00000430027.3_RNA|DLX6-AS1_ENST00000437541.1_RNA|DLX6-AS1_ENST00000452769.2_RNA|DLX6-AS1_ENST00000437331.2_RNA|DLX6-AS1_ENST00000430404.2_RNA|DLX6-AS2_ENST00000606174.1_RNA|DLX6-AS1_ENST00000605417.1_RNA|DLX6-AS1_ENST00000458352.2_RNA			P56179	DLX6_HUMAN	distal-less homeobox 6	0					anatomical structure formation involved in morphogenesis (GO:0048646)|embryonic limb morphogenesis (GO:0030326)|epithelial cell differentiation (GO:0030855)|head development (GO:0060322)|inner ear morphogenesis (GO:0042472)|nervous system development (GO:0007399)|palate development (GO:0060021)|positive regulation of epithelial cell proliferation (GO:0050679)|skeletal system development (GO:0001501)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|kidney(1)|large_intestine(1)|liver(2)|lung(4)|ovary(2)|urinary_tract(1)	12	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					gcagcagcaacagcagcagcagc	0.68																																																0										71,2005		9,53,976						-0.1	1			6	237,4797		8,221,2288	no	coding	DLX6	NM_005222.3		17,274,3264	A1A1,A1R,RR		4.708,3.42,4.3319				308,6802				SO:0001651	inframe_deletion	1750				CCDS47647.1, CCDS47647.2	7q21.3	2011-06-20	2005-12-22		ENSG00000006377	ENSG00000006377		"Homeoboxes / ANTP class : NKL subclass"	2919	protein-coding gene	gene with protein product		600030	"distal-less homeo box 6"			7907794	Standard	NM_005222		Approved		uc022ahu.1	P56179	OTTHUMG00000154201	ENST00000518156.2:c.100_102delCAG	7.37:g.96635398_96635400delCAG	ENSP00000428480:p.Gln44del	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1I2|B3KSQ0|J3KR92|Q3ZAR6|Q9UPL2	In_Frame_Del	DEL	ENST00000518156.2	37	CCDS47647.2																																																																																				0.68	DLX6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000334373.4	NM_005222		-	96635391	CAG	-	96635389	7	5	631	1	0	1	0	1	0	0	0	0	4577	479	17	0	102	0	DLX6	7	96635389	In_Frame_Del	DEL	CAG	TCGA-KL-8332-01A-11D-2310-10		96635389	62503274	30	38876										
MLL3	58508	mdanderson.org	37	chr7	151932923	151932923	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	ccaggtaatacaacagctccGattccacttttcagctttga	6	12	1	1			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr7:151932923G>A	ENST00000262189.6	-	16	2966	c.2748C>T	c.(2746-2748)atC>atT	p.I916I	KMT2C_ENST00000355193.2_Silent_p.I916I	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	916					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)										CAACAGCTCCGATTCCACTTT	0.478																																																0													74	67	69					7																	151932923		2202	4284	6486	SO:0001819	synonymous_variant	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.2748C>T	7.37:g.151932923G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Silent	SNP	ENST00000262189.6	37	CCDS5931.1	.	.	.	.	.	.	.	.	.	.	G	9.270	1.045395	0.19748	.	.	ENSG00000055609	ENST00000418673	.	.	.	5.0	-5.63	0.02474	.	.	.	.	.	T	0.48003	0.1476	.	.	.	0.54753	D	0.999984	.	.	.	.	.	.	T	0.48198	-0.9056	4	.	.	.	.	7.2844	0.26330	0.4461:0.1266:0.4273:0.0	.	.	.	.	W	72	.	.	R	-	1	2	MLL3	151563856	0.145000	0.22656	0.658000	0.29665	0.991000	0.79684	-0.279000	0.08479	-1.230000	0.02561	-0.225000	0.12378	CGG		0.478	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			A	151932923	G	A	151932923	2	1	631	1	0	0	0	0	0	0	0	1	9629	1048	37	1		1	MLL3	7	151932923	Silent	SNP	G	TCGA-KL-8332-01A-11D-2310-10	55297534	151932923	7205740	31	38877										
PTPDC1	138639	ucsc.edu	37	chr9	96857597	96857597	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	ttttccttttcttttttcctAgtttacttctacaatttcgg	3	9	2	0			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr9:96857597A>G	ENST00000375360.3	+	6	794		c.e6-1		PTPDC1_ENST00000288976.3_Splice_Site	NM_001253830.1|NM_177995.2	NP_001240759.1|NP_818931.1	A2A3K4	PTPC1_HUMAN	protein tyrosine phosphatase domain containing 1						cilium morphogenesis (GO:0060271)|smoothened signaling pathway (GO:0007224)		protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)			endometrium(1)|kidney(3)|large_intestine(7)|lung(14)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	32						CTTTTTTCCTAGTTTACTTCT	0.358																																																0													115	119	118					9																	96857597		2203	4300	6503	SO:0001630	splice_region_variant	138639			BC051654	CCDS6707.1, CCDS6708.1, CCDS75860.1	9q22.32	2011-06-09			ENSG00000158079	ENSG00000158079		"Protein tyrosine phosphatases / Class I Cys-based PTPs : CDC14s"	30184	protein-coding gene	gene with protein product	"protein tyrosine phosphatase PTP9Q22"					14702039	Standard	NM_152422		Approved	PTP9Q22, FLJ37312	uc010mrj.2	A2A3K4	OTTHUMG00000020258	ENST00000375360.3:c.455-1A>G	9.37:g.96857597A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3M4|Q6NXE8|Q8IWM1|Q8N1X4|Q8N9F5	Splice_Site	SNP	ENST00000375360.3	37	CCDS6707.1	.	.	.	.	.	.	.	.	.	.	.	13.20	2.166092	0.38217	.	.	ENSG00000158079	ENST00000375360;ENST00000288976	.	.	.	5.52	5.52	0.82312	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.7685	0.69657	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	PTPDC1	95897418	1.000000	0.71417	0.970000	0.41538	0.219000	0.24729	8.696000	0.91302	2.221000	0.72209	0.528000	0.53228	.		0.358	PTPDC1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000215007.1	NM_177995, NM_152422	Intron	G	96857597	A	G	96857597	5	3	631	1	0	0	0	0	0	0	1	0	12784	434	15	3	713	3	PTPDC1	9	96857597	Splice_Site	SNP	A	TCGA-KL-8332-01A-11D-2310-10		96857597	44355834	32	38878										
FAS	355	bcgsc.ca	37	chr10	90774008	90774008	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	gaatgacaatgtccaagacaCagcagaacagaaagttcaac	8	9	1	4	rs121913081		TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr10:90774008C>T	ENST00000355740.2	+	9	1029	c.809C>T	c.(808-810)aCa>aTa	p.T270I	FAS_ENST00000355279.2_3'UTR|FAS_ENST00000357339.2_Missense_Mutation_p.T249I|RP11-399O19.9_ENST00000562983.1_RNA|FAS_ENST00000352159.4_3'UTR	NM_000043.4|NM_152871.2|NM_152872.2	NP_000034.1|NP_690610.1|NP_690611.1	P49327	FAS_HUMAN	Fas cell surface death receptor	0	Beta-ketoacyl synthase. {ECO:0000250}.				acetyl-CoA metabolic process (GO:0006084)|cellular lipid metabolic process (GO:0044255)|cellular response to interleukin-4 (GO:0071353)|energy reserve metabolic process (GO:0006112)|fatty acid biosynthetic process (GO:0006633)|fatty acid metabolic process (GO:0006631)|long-chain fatty-acyl-CoA biosynthetic process (GO:0035338)|osteoblast differentiation (GO:0001649)|pantothenate metabolic process (GO:0015939)|positive regulation of cellular metabolic process (GO:0031325)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|glycogen granule (GO:0042587)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity (GO:0047451)|3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity (GO:0004317)|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity (GO:0004316)|3-oxoacyl-[acyl-carrier-protein] synthase activity (GO:0004315)|[acyl-carrier-protein] S-acetyltransferase activity (GO:0004313)|[acyl-carrier-protein] S-malonyltransferase activity (GO:0004314)|drug binding (GO:0008144)|enoyl-[acyl-carrier-protein] reductase (NADPH, A-specific) activity (GO:0047117)|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity (GO:0004319)|fatty acid synthase activity (GO:0004312)|myristoyl-[acyl-carrier-protein] hydrolase activity (GO:0016295)|NADPH binding (GO:0070402)|oleoyl-[acyl-carrier-protein] hydrolase activity (GO:0004320)|palmitoyl-[acyl-carrier-protein] hydrolase activity (GO:0016296)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			breast(1)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(3)|lung(5)|upper_aerodigestive_tract(2)	18		Colorectal(252;0.0161)		Colorectal(12;0.000136)|COAD - Colon adenocarcinoma(12;0.000193)	Cerulenin(DB01034)|Orlistat(DB01083)	GTCCAAGACACAGCAGAACAG	0.378																																																0			GRCh37	CD951864|CM991190|CM994523	FAS	D|M	rs121913081						129	120	123					10																	90774008		2203	4300	6503	SO:0001583	missense	355			M67454	CCDS7393.1, CCDS7394.1, CCDS7395.1	10q24.1	2014-09-17	2013-05-22	2005-01-07	ENSG00000026103	ENSG00000026103		"Tumor necrosis factor receptor superfamily", "CD molecules"	11920	protein-coding gene	gene with protein product	"TNF receptor superfamily member 6"	134637	"tumor necrosis factor receptor superfamily, member 6", "Fas (TNF receptor superfamily, member 6)"	FAS1, APT1, TNFRSF6		1385299, 1385309	Standard	NM_000043		Approved	CD95, APO-1	uc001kfr.3	P25445	OTTHUMG00000018701	ENST00000355740.2:c.809C>T	10.37:g.90774008C>T	ENSP00000347979:p.Thr270Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q13479|Q16702|Q4LE83|Q6P4U5|Q6SS02|Q969R1|Q96C68|Q96IT0	Missense_Mutation	SNP	ENST00000355740.2	37	CCDS7393.1	.	.	.	.	.	.	.	.	.	.	C	13.70	2.315426	0.40996	.	.	ENSG00000026103	ENST00000540197;ENST00000355740;ENST00000357339	D;D	0.85171	-1.95;-1.95	4.65	4.65	0.58169	Death (3);DEATH-like (2);	7.859800	0.00357	N	0.000033	D	0.92835	0.7721	M	0.72894	2.215	0.80722	D	1	D;D	0.89917	1.0;0.998	D;D	0.80764	0.994;0.958	T	0.81680	-0.0823	10	0.41790	T	0.15	-18.6218	13.767	0.63002	0.0:1.0:0.0:0.0	.	249;270	P25445-6;P25445	.;TNR6_HUMAN	I	297;270;249	ENSP00000347979:T270I;ENSP00000349896:T249I	ENSP00000347979:T270I	T	+	2	0	FAS	90763988	0.279000	0.24239	0.974000	0.42286	0.059000	0.15707	2.342000	0.43992	2.523000	0.85059	0.650000	0.86243	ACA		0.378	FAS-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049274.3			T	90774008	C	T	90774008	3	4	631	1	0	0	0	0	1	0	0	0	5688	478	17	2	843	2	FAS	10	90774008	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10		90774008	44760739	33	38879										
CEND1	51286	ucsc.edu	37	chr11	788570	788570	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	gctggctgacttccctctggActccatggtgggcggggcgt	16	12	1	1			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr11:788570A>G	ENST00000330106.4	-	2	182	c.7T>C	c.(7-9)Tcc>Ccc	p.S3P	CEND1_ENST00000524587.1_Intron	NM_016564.3	NP_057648.2	Q8N111	CEND_HUMAN	cell cycle exit and neuronal differentiation 1	3					adult walking behavior (GO:0007628)|cerebellar granular layer maturation (GO:0021686)|cerebellar Purkinje cell differentiation (GO:0021702)|negative regulation of cerebellar granule cell precursor proliferation (GO:0021941)|radial glia guided migration of cerebellar granule cell (GO:0021933)	integral component of membrane (GO:0016021)				prostate(1)	1		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;6.27e-26)|Epithelial(43;4.84e-25)|OV - Ovarian serous cystadenocarcinoma(40;2.72e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TTCCCTCTGGACTCCATGGTG	0.667																																																0													52	67	62					11																	788570		2170	4253	6423	SO:0001583	missense	51286			AK074547	CCDS7714.1	11p15.5	2006-06-14			ENSG00000184524	ENSG00000184524			24153	protein-coding gene	gene with protein product		608213				11311134	Standard	NM_016564		Approved	FLJ90066, BM88	uc001lrh.1	Q8N111	OTTHUMG00000133308	ENST00000330106.4:c.7T>C	11.37:g.788570A>G	ENSP00000328336:p.Ser3Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NYM6	Missense_Mutation	SNP	ENST00000330106.4	37	CCDS7714.1	.	.	.	.	.	.	.	.	.	.	A	18.71	3.682094	0.68042	.	.	ENSG00000184524	ENST00000330106	.	.	.	4.63	1.98	0.26296	.	0.093185	0.44285	D	0.000462	T	0.52092	0.1713	L	0.29908	0.895	0.41335	D	0.987262	D	0.61080	0.989	P	0.58454	0.839	T	0.54536	-0.8279	9	0.87932	D	0	-11.3684	9.6985	0.40171	0.6721:0.3279:0.0:0.0	.	3	Q8N111	CEND_HUMAN	P	3	.	ENSP00000328336:S3P	S	-	1	0	CEND1	778570	1.000000	0.71417	1.000000	0.80357	0.834000	0.47266	1.336000	0.33850	0.685000	0.31468	0.379000	0.24179	TCC		0.667	CEND1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257105.1	NM_016564		G	788570	A	G	788570	3	3	631	1	0	0	0	0	1	0	0	0	3227	275	10	3	446	3	CEND1	11	788570	Missense_Mutation	SNP	A	TCGA-KL-8332-01A-11D-2310-10		788570	134217946	34	38880										
MUC2	4583	mdanderson.org	37	chr11	1092973	1092973	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	cggtgaccccaaccccaacaCccaccggcacacagacccca	6	22	0	2	rs55847666		TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr11:1092973C>T	ENST00000441003.2	+	30	4819	c.4792C>T	c.(4792-4794)Ccc>Tcc	p.P1598S	MUC2_ENST00000361558.6_Intron|MUC2_ENST00000333592.6_5'Flank|MUC2_ENST00000359061.5_Intron	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)		p.P1598S(1)		NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	aaccccaacacccaccggcac	0.637																																																1	Substitution - Missense(1)	endometrium(1)											47	83	70					11																	1092973		1782	3238	5020	SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4792C>T	11.37:g.1092973C>T	ENSP00000415183:p.Pro1598Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	C	3.622	-0.077443	0.07184	.	.	ENSG00000198788	ENST00000441003	T	0.13778	2.56	1.75	-2.88	0.05682	.	.	.	.	.	T	0.04363	0.0120	.	.	.	0.09310	N	1	B	0.06786	0.001	B	0.01281	0.0	T	0.43686	-0.9376	8	0.07482	T	0.82	.	3.4241	0.07403	0.4105:0.429:0.0:0.1605	rs55847666	1598	E7EUV1	.	S	1598	ENSP00000415183:P1598S	ENSP00000415183:P1598S	P	+	1	0	MUC2	1082973	0.007000	0.16637	0.000000	0.03702	0.120000	0.20174	0.230000	0.17852	-0.314000	0.08716	0.121000	0.15741	CCC		0.637	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		T	1092973	C	T	1092973	3	4	631	1	0	0	0	0	1	0	0	0	9982	507	18	2	4910	2	MUC2	11	1092973	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10	304403	1092973	133913543	35	38881										
MICALCL	84953	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	12316009	12316009	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	ccctcctgaccctgccctccGcacccacagtttgcccaatc	5	22	0	1	rs201723344		TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr11:12316009G>A	ENST00000256186.2	+	3	1322	c.1031G>A	c.(1030-1032)cGc>cAc	p.R344H		NM_032867.2	NP_116256.2	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	344					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)	mitogen-activated protein kinase binding (GO:0051019)			breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(5)|lung(5)|ovary(3)|skin(3)|upper_aerodigestive_tract(1)	30				Epithelial(150;0.00177)		CCTGCCCTCCGCACCCACAGT	0.552																																																0								G	HIS/ARG	0,3962		0,0,1981	79	88	85		1031	1.2	0	11		85	2,8300		0,2,4149	yes	missense	MICALCL	NM_032867.2	29	0,2,6130	AA,AG,GG		0.0241,0.0,0.0163	probably-damaging	344/696	12316009	2,12262	1981	4151	6132	SO:0001583	missense	84953			BK000463	CCDS41620.1	11p15.3	2005-11-01			ENSG00000133808	ENSG00000133808			25933	protein-coding gene	gene with protein product		612355				12110185	Standard	NM_032867		Approved	FLJ14966	uc001mkg.1	Q6ZW33	OTTHUMG00000165777	ENST00000256186.2:c.1031G>A	11.37:g.12316009G>A	ENSP00000256186:p.Arg344His	Somatic		WXS	Illumina HiSeq	Phase_I	Q7RTP7|Q96JU6	Missense_Mutation	SNP	ENST00000256186.2	37	CCDS41620.1	.	.	.	.	.	.	.	.	.	.	G	11.00	1.511542	0.27036	0.0	2.41E-4	ENSG00000133808	ENST00000256186	T	0.12039	2.72	5.38	1.16	0.20824	.	0.325455	0.22417	N	0.060323	T	0.09202	0.0227	L	0.53249	1.67	0.09310	N	1	B	0.33841	0.428	B	0.20577	0.03	T	0.22034	-1.0228	10	0.38643	T	0.18	.	3.9085	0.09193	0.2706:0.0:0.5639:0.1656	.	344	Q6ZW33	MICLK_HUMAN	H	344	ENSP00000256186:R344H	ENSP00000256186:R344H	R	+	2	0	MICALCL	12272585	0.000000	0.05858	0.029000	0.17559	0.656000	0.38851	0.255000	0.18333	0.253000	0.21552	0.460000	0.39030	CGC		0.552	MICALCL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386164.1	NM_032867		A	12316009	G	A	12316009	3	1	631	1	0	0	0	0	1	0	0	0	9579	1087	38	1	1037	1	MICALCL	11	12316009	Missense_Mutation	SNP	G	TCGA-KL-8332-01A-11D-2310-10	11223036	12316009	122690507	36	38882										
SLC1A2	6506	ucsc.edu	37	chr11	35338967	35338967	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	agattcttccccagcttgtcAcacaggcgcaggcccaggtg	11	14	2	1			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr11:35338967A>G	ENST00000278379.3	-	2	396	c.114T>C	c.(112-114)tgT>tgC	p.C38C	SLC1A2_ENST00000395753.1_Silent_p.C29C|SLC1A2_ENST00000395750.1_Silent_p.C29C|SLC1A2_ENST00000606205.1_Silent_p.C38C	NM_004171.3	NP_004162.2	P43004	EAA2_HUMAN	solute carrier family 1 (glial high affinity glutamate transporter), member 2	38					adult behavior (GO:0030534)|cellular response to extracellular stimulus (GO:0031668)|D-aspartate import (GO:0070779)|ion transport (GO:0006811)|L-glutamate import (GO:0051938)|multicellular organism growth (GO:0035264)|multicellular organismal aging (GO:0010259)|positive regulation of glucose import (GO:0046326)|response to amino acid (GO:0043200)|response to drug (GO:0042493)|response to wounding (GO:0009611)|synaptic transmission (GO:0007268)|telencephalon development (GO:0021537)|transmembrane transport (GO:0055085)|visual behavior (GO:0007632)	axolemma (GO:0030673)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	glutamate:sodium symporter activity (GO:0015501)|L-glutamate transmembrane transporter activity (GO:0005313)|sodium:dicarboxylate symporter activity (GO:0017153)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(5)|lung(11)|ovary(2)|prostate(1)|urinary_tract(1)	24	all_lung(20;0.211)|all_epithelial(35;0.234)	all_hematologic(20;0.109)	STAD - Stomach adenocarcinoma(6;0.00731)			CCAGCTTGTCACACAGGCGCA	0.602																																					NSCLC(100;1273 1575 12993 16869 47409)|Ovarian(164;45 1946 8965 30452 48454)											0													107	108	108					11																	35338967		2202	4298	6500	SO:0001819	synonymous_variant	6506			AB209444	CCDS31459.1, CCDS55756.1	11p13-p12	2013-05-22			ENSG00000110436	ENSG00000110436		"Solute carriers"	10940	protein-coding gene	gene with protein product		600300				1448170	Standard	NM_004171		Approved	GLT-1, EAAT2	uc001mwd.3	P43004	OTTHUMG00000044391	ENST00000278379.3:c.114T>C	11.37:g.35338967A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DQE9|Q14417|Q541G6|U3KQQ4	Silent	SNP	ENST00000278379.3	37	CCDS31459.1																																																																																				0.602	SLC1A2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000258181.1	NM_004171		G	35338967	A	G	35338967	2	3	631	1	0	0	0	0	0	0	0	1	14445	157	6	3		3	SLC1A2	11	35338967	Silent	SNP	A	TCGA-KL-8332-01A-11D-2310-10	23022958	35338967	99667549	37	38883										
FOLH1	2346	mdanderson.org	37	chr11	49204732	49204732	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	ctgtgcatcatagtatccaaTtggatgaacaggaatacttg	9	7	1	1	rs199782232		TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr11:49204732T>C	ENST00000256999.2	-	7	1149	c.889A>G	c.(889-891)Att>Gtt	p.I297V	FOLH1_ENST00000356696.3_Missense_Mutation_p.I297V|FOLH1_ENST00000533034.1_Missense_Mutation_p.I282V|FOLH1_ENST00000340334.7_Missense_Mutation_p.I282V|FOLH1_ENST00000343844.4_5'UTR	NM_004476.1	NP_004467.1	Q04609	FOLH1_HUMAN	folate hydrolase (prostate-specific membrane antigen) 1	297	NAALADase.				folic acid-containing compound metabolic process (GO:0006760)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	carboxypeptidase activity (GO:0004180)|dipeptidase activity (GO:0016805)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)|peptidase activity (GO:0008233)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(7)|lung(34)|ovary(1)|skin(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	60					Capromab(DB00089)	TAGTATCCAATTGGATGAACA	0.363																																																0													78	79	78					11																	49204732		2201	4298	6499	SO:0001583	missense	2346			M99487	CCDS7946.1, CCDS31493.1, CCDS53626.1, CCDS53627.1, CCDS53628.1	11p11.2	2011-07-22			ENSG00000086205	ENSG00000086205	3.4.17.21		3788	protein-coding gene	gene with protein product	"glutamate carboxylase II", "glutamate carboxypeptidase II"	600934		FOLH		9838072	Standard	NM_001193472		Approved	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII	uc001ngy.3	Q04609	OTTHUMG00000166625	ENST00000256999.2:c.889A>G	11.37:g.49204732T>C	ENSP00000256999:p.Ile297Val	Somatic		WXS	Illumina HiSeq	Phase_I	A4UU12|A9CB79|B7Z312|B7Z343|D3DQS5|E9PDX8|O43748|Q16305|Q541A4|Q8TAY3|Q9NP15|Q9NYE2|Q9P1P8	Missense_Mutation	SNP	ENST00000256999.2	37	CCDS7946.1	.	.	.	.	.	.	.	.	.	.	T	7.025	0.559465	0.13436	.	.	ENSG00000086205	ENST00000256999;ENST00000356696;ENST00000340334;ENST00000533034;ENST00000389724	T;T;T;T	0.57107	0.42;0.42;0.42;0.42	2.76	1.59	0.23543	.	0.125811	0.35349	N	0.003276	T	0.50582	0.1624	M	0.78344	2.41	0.80722	D	1	B;B;B;B	0.20459	0.007;0.001;0.045;0.02	B;B;B;B	0.28139	0.046;0.018;0.086;0.035	T	0.47355	-0.9124	10	0.54805	T	0.06	.	6.1691	0.20406	0.0:0.1358:0.0:0.8642	.	282;282;297;297	Q04609-9;Q04609-7;Q04609-8;Q04609	.;.;.;FOLH1_HUMAN	V	297;297;282;282;297	ENSP00000256999:I297V;ENSP00000349129:I297V;ENSP00000344131:I282V;ENSP00000431463:I282V	ENSP00000256999:I297V	I	-	1	0	FOLH1	49161308	1.000000	0.71417	0.994000	0.49952	0.146000	0.21551	3.347000	0.52200	0.301000	0.22738	0.163000	0.16589	ATT		0.363	FOLH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390896.1	NM_004476		C	49204732	T	C	49204732	3	2	631	1	0	0	0	0	1	0	0	0	5986	1493	52	3	1415	3	FOLH1	11	49204732	Missense_Mutation	SNP	T	TCGA-KL-8332-01A-11D-2310-10	13865765	49204732	85801784	38	38884										
OR5M3	219482	broad.mit.edu	37	chr11	56237919	56237919	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	gaagagaacttgccattctcGacggctcgttagccccaaaa	9	12	1	1			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr11:56237919G>A	ENST00000312240.2	-	1	95	c.55C>T	c.(55-57)Cga>Tga	p.R19*		NM_001004742.2	NP_001004742.2	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M, member 3	19						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|central_nervous_system(2)|endometrium(2)|large_intestine(7)|lung(15)|ovary(2)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	37	Esophageal squamous(21;0.00448)					TGCCATTCTCGACGGCTCGTT	0.403																																																0													80	70	74					11																	56237919		2201	4295	6496	SO:0001587	stop_gained	219482			AB065746	CCDS31532.1	11q11	2012-08-09			ENSG00000174937	ENSG00000174937		"GPCR / Class A : Olfactory receptors"	14806	protein-coding gene	gene with protein product							Standard	NM_001004742		Approved		uc010rjk.2	Q8NGP4	OTTHUMG00000166875	ENST00000312240.2:c.55C>T	11.37:g.56237919G>A	ENSP00000312208:p.Arg19*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNM7|Q6IEW4|Q96RC0	Nonsense_Mutation	SNP	ENST00000312240.2	37	CCDS31532.1	.	.	.	.	.	.	.	.	.	.	G	10.13	1.265447	0.23136	.	.	ENSG00000174937	ENST00000312240	.	.	.	5.0	1.8	0.24995	.	1.011540	0.07959	N	0.982069	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.49607	T	0.09	1.5831	7.0203	0.24910	0.0845:0.0:0.6007:0.3148	.	.	.	.	X	19	.	ENSP00000312208:R19X	R	-	1	2	OR5M3	55994495	0.000000	0.05858	0.000000	0.03702	0.014000	0.08584	0.043000	0.13971	0.462000	0.27095	0.478000	0.44815	CGA		0.403	OR5M3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391639.1	NM_001004742		A	56237919	G	A	56237919	4	1	631	1	0	0	0	0	0	1	0	0	11182	1066	37	1	870	1	OR5M3	11	56237919	Nonsense_Mutation	SNP	G	TCGA-KL-8332-01A-11D-2310-10	7033187	56237919	78768597	39	38885										
FAT3	120114	broad.mit.edu	37	chr11	92531376	92531376	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	agaaggccctggattatgagCgcacatcctcttatcaactc	8	12	2	2	rs374615122		TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr11:92531376C>T	ENST00000298047.6	+	9	5214	c.5197C>T	c.(5197-5199)Cgc>Tgc	p.R1733C	FAT3_ENST00000409404.2_Missense_Mutation_p.R1733C|FAT3_ENST00000525166.1_Missense_Mutation_p.R1583C			Q8TDW7	FAT3_HUMAN	FAT atypical cadherin 3	1733	Cadherin 15. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)|multicellular organismal development (GO:0007275)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|endometrium(10)|kidney(4)|large_intestine(11)|liver(2)|lung(37)|ovary(5)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(5)	85		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GGATTATGAGCGCACATCCTC	0.403										TCGA Ovarian(4;0.039)			C|||	1	0.000199681	0.0	0.0	5008	,	,		21623	0.0		0.0	False		,,,				2504	0.001															0								C	CYS/ARG	0,3938		0,0,1969	91	88	89		5197	5.9	0.9	11		89	1,8341		0,1,4170	no	missense	FAT3	NM_001008781.2	180	0,1,6139	TT,TC,CC		0.012,0.0,0.0081	possibly-damaging	1733/4558	92531376	1,12279	1969	4171	6140	SO:0001583	missense	120114			AB076400		11q14.3	2013-05-31	2013-05-31		ENSG00000165323	ENSG00000165323		"Cadherins / Cadherin-related"	23112	protein-coding gene	gene with protein product	"cadherin-related family member 10"	612483	"FAT tumor suppressor homolog 3 (Drosophila)"			11811999	Standard	NM_001008781		Approved	KIAA1989, CDHF15, CDHR10	uc001pdj.4	Q8TDW7	OTTHUMG00000154468	ENST00000298047.6:c.5197C>T	11.37:g.92531376C>T	ENSP00000298047:p.Arg1733Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDB0|Q96AU6	Missense_Mutation	SNP	ENST00000298047.6	37		.	.	.	.	.	.	.	.	.	.	C	19.26	3.792567	0.70452	0.0	1.2E-4	ENSG00000165323	ENST00000298047;ENST00000409404;ENST00000525166	T;T;T	0.52983	0.64;0.64;0.64	5.93	5.93	0.95920	.	.	.	.	.	T	0.55970	0.1954	M	0.81112	2.525	0.80722	D	1	D	0.55385	0.971	P	0.45138	0.471	T	0.62798	-0.6778	9	0.56958	D	0.05	.	15.0942	0.72220	0.1416:0.8584:0.0:0.0	.	1733	Q8TDW7-3	.	C	1733;1733;1583	ENSP00000298047:R1733C;ENSP00000387040:R1733C;ENSP00000432586:R1583C	ENSP00000298047:R1733C	R	+	1	0	FAT3	92171024	0.805000	0.28982	0.912000	0.35992	0.897000	0.52465	1.595000	0.36708	2.818000	0.97014	0.591000	0.81541	CGC		0.403	FAT3-201	KNOWN	basic	protein_coding	protein_coding		NM_001008781		T	92531376	C	T	92531376	3	4	631	1	0	0	0	0	1	0	0	0	5698	768	27	1	5231	1	FAT3	11	92531376	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10	36293457	92531376	42475140	40	38886										
LPAR5	57121	broad.mit.edu	37	chr12	6729661	6729663	+	In_Frame_Del	DEL	TGT	TGT	-													0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	cccgtagaccgccagcgtgcTgttgtagggcacgaagcaca							TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	TGT	TGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr12:6729661_6729663delTGT	ENST00000329858.4	-	2	1508_1510	c.752_754delACA	c.(751-756)aacagc>agc	p.N251del	LPAR5_ENST00000431922.1_In_Frame_Del_p.N251del|LPAR5_ENST00000540335.1_5'UTR	NM_020400.5	NP_065133.1	Q9H1C0	LPAR5_HUMAN	lysophosphatidic acid receptor 5	251						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			endometrium(2)|large_intestine(1)|lung(1)|ovary(1)|skin(2)	7						GCCAGCGTGCTGTTGTAGGGCAC	0.7																																					NSCLC(74;891 2312 37538)											0																																										SO:0001651	inframe_deletion	57121			AJ272207	CCDS8553.1	12p13.31	2012-08-08	2008-04-11	2008-04-11		ENSG00000184574		"GPCR / Class A : Lysophospholipid receptors : Lysophosphatidic acid"	13307	protein-coding gene	gene with protein product		606926	"G protein-coupled receptor 92"	GPR93, GPR92		11062477, 11574155, 16774927, 16651401	Standard	NM_020400		Approved	KPG_010, LPA5	uc009zer.2	Q9H1C0		ENST00000329858.4:c.752_754delACA	12.37:g.6729664_6729666delTGT	ENSP00000327875:p.Asn251del	Somatic		WXS	Illumina HiSeq	Phase_I		In_Frame_Del	DEL	ENST00000329858.4	37	CCDS8553.1																																																																																				0.7	LPAR5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400699.1	NM_020400		-	6729663	TGT	-	6729661	7	5	631	1	0	1	0	1	0	0	0	0	8915	1580	55	0	368	0	LPAR5	12	6729661	In_Frame_Del	DEL	TGT	TCGA-KL-8332-01A-11D-2310-10		6729661	127122234	41	38887										
HDAC7	51564	broad.mit.edu;hgsc.bcm.edu	37	chr12	48189416	48189416	+	Frame_Shift_Del	DEL	G	G	-													0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	gaggggtccaggaggagaatGggctgcaggcgagagggcaa							TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr12:48189416delG	ENST00000427332.2	-	10	1080	c.924delC	c.(922-924)cccfs	p.P308fs	HDAC7_ENST00000380610.4_Frame_Shift_Del_p.P364fs|HDAC7_ENST00000080059.7_Frame_Shift_Del_p.P347fs|HDAC7_ENST00000354334.3_Frame_Shift_Del_p.P310fs|HDAC7_ENST00000552960.1_Frame_Shift_Del_p.P330fs			Q8WUI4	HDAC7_HUMAN	histone deacetylase 7	308	Transcription repression 2. {ECO:0000250}.				cell-cell junction assembly (GO:0007043)|negative regulation of interleukin-2 production (GO:0032703)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|positive regulation of cell migration involved in sprouting angiogenesis (GO:0090050)|transcription, DNA-templated (GO:0006351)|vasculogenesis (GO:0001570)	cytoplasm (GO:0005737)|histone deacetylase complex (GO:0000118)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	14-3-3 protein binding (GO:0071889)|activating transcription factor binding (GO:0033613)|chromatin binding (GO:0003682)|metal ion binding (GO:0046872)|NAD-dependent histone deacetylase activity (H3-K14 specific) (GO:0032041)|NAD-dependent histone deacetylase activity (H3-K18 specific) (GO:0097372)|NAD-dependent histone deacetylase activity (H3-K9 specific) (GO:0046969)|NAD-dependent histone deacetylase activity (H4-K16 specific) (GO:0046970)|protein kinase binding (GO:0019901)|protein kinase C binding (GO:0005080)|repressing transcription factor binding (GO:0070491)|transcription corepressor activity (GO:0003714)			breast(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(6)|lung(11)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	25				GBM - Glioblastoma multiforme(48;0.137)		GGAGGAGAATGGGCTGCAGGC	0.677																																																0													15	17	17					12																	48189416		2166	4269	6435	SO:0001589	frameshift_variant	51564			AF239243	CCDS8756.2, CCDS41776.1	12q13.1	2008-02-25	2008-02-25	2008-02-25	ENSG00000061273	ENSG00000061273			14067	protein-coding gene	gene with protein product		606542	"histone deacetylase 7A"	HDAC7A		10922406, 10640276	Standard	NM_015401		Approved	DKFZP586J0917	uc010slo.2	Q8WUI4	OTTHUMG00000152968	ENST00000427332.2:c.924delC	12.37:g.48189416delG	ENSP00000404394:p.Pro308fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KY08|B4DWI0|B4E0Q5|Q6P1W9|Q6W9G7|Q7Z4K2|Q7Z5I1|Q96K01|Q9BR73|Q9H7L0|Q9NW41|Q9NWA9|Q9NYK9|Q9UFU7	Frame_Shift_Del	DEL	ENST00000427332.2	37																																																																																					0.677	HDAC7-013	NOVEL	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000328804.2			-	48189416	G	-	48189416	7	5	631	1	0	1	0	1	0	0	0	0	7019	1335	47	0	2002	0	HDAC7	12	48189416	Frame_Shift_Del	DEL	G	TCGA-KL-8332-01A-11D-2310-10	41459755	48189416	85662479	42	38888	320	2								
HDAC7	51564	bcgsc.ca	37	chr12	48189417	48189417	+	Frame_Shift_Del	DEL	G	G	-													0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	aggggtccaggaggagaatgGgctgcaggcgagagggcaag							TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr12:48189417delG	ENST00000427332.2	-	10	1079	c.923delC	c.(922-924)cccfs	p.P308fs	HDAC7_ENST00000380610.4_Frame_Shift_Del_p.P364fs|HDAC7_ENST00000080059.7_Frame_Shift_Del_p.P347fs|HDAC7_ENST00000354334.3_Frame_Shift_Del_p.P310fs|HDAC7_ENST00000552960.1_Frame_Shift_Del_p.P330fs			Q8WUI4	HDAC7_HUMAN	histone deacetylase 7	308	Transcription repression 2. {ECO:0000250}.				cell-cell junction assembly (GO:0007043)|negative regulation of interleukin-2 production (GO:0032703)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|positive regulation of cell migration involved in sprouting angiogenesis (GO:0090050)|transcription, DNA-templated (GO:0006351)|vasculogenesis (GO:0001570)	cytoplasm (GO:0005737)|histone deacetylase complex (GO:0000118)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	14-3-3 protein binding (GO:0071889)|activating transcription factor binding (GO:0033613)|chromatin binding (GO:0003682)|metal ion binding (GO:0046872)|NAD-dependent histone deacetylase activity (H3-K14 specific) (GO:0032041)|NAD-dependent histone deacetylase activity (H3-K18 specific) (GO:0097372)|NAD-dependent histone deacetylase activity (H3-K9 specific) (GO:0046969)|NAD-dependent histone deacetylase activity (H4-K16 specific) (GO:0046970)|protein kinase binding (GO:0019901)|protein kinase C binding (GO:0005080)|repressing transcription factor binding (GO:0070491)|transcription corepressor activity (GO:0003714)			breast(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(6)|lung(11)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	25				GBM - Glioblastoma multiforme(48;0.137)		GAGGAGAATGGGCTGCAGGCG	0.677																																																0													15	17	17					12																	48189417		2166	4271	6437	SO:0001589	frameshift_variant	51564			AF239243	CCDS8756.2, CCDS41776.1	12q13.1	2008-02-25	2008-02-25	2008-02-25	ENSG00000061273	ENSG00000061273			14067	protein-coding gene	gene with protein product		606542	"histone deacetylase 7A"	HDAC7A		10922406, 10640276	Standard	NM_015401		Approved	DKFZP586J0917	uc010slo.2	Q8WUI4	OTTHUMG00000152968	ENST00000427332.2:c.923delC	12.37:g.48189417delG	ENSP00000404394:p.Pro308fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KY08|B4DWI0|B4E0Q5|Q6P1W9|Q6W9G7|Q7Z4K2|Q7Z5I1|Q96K01|Q9BR73|Q9H7L0|Q9NW41|Q9NWA9|Q9NYK9|Q9UFU7	Frame_Shift_Del	DEL	ENST00000427332.2	37																																																																																					0.677	HDAC7-013	NOVEL	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000328804.2			-	48189417	G	-	48189417	7	5	631	1	0	1	0	1	0	0	0	0	7019	1232	43	0	2003	0	HDAC7	12	48189417	Frame_Shift_Del	DEL	G	TCGA-KL-8332-01A-11D-2310-10	1	48189417	85662478	43	38889	320	2								
TENC1	23371	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr12	53449591	53449591	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	aagggcaagcttggggtcatCgtttctgcctacatgcacta	11	10	2	0			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr12:53449591C>G	ENST00000314250.6	+	10	1013	c.723C>G	c.(721-723)atC>atG	p.I241M	TENC1_ENST00000546602.1_Missense_Mutation_p.I241M|TENC1_ENST00000552570.1_Missense_Mutation_p.I241M|TENC1_ENST00000549700.1_Missense_Mutation_p.I241M|TENC1_ENST00000314276.3_Missense_Mutation_p.I251M|RP11-983P16.4_ENST00000550601.1_RNA|TENC1_ENST00000379902.3_Missense_Mutation_p.I117M|RP11-983P16.4_ENST00000546793.1_RNA|RP11-983P16.4_ENST00000551890.1_RNA|TENC1_ENST00000451358.1_Missense_Mutation_p.I241M	NM_170754.2	NP_736610.2	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase (tensin 2)	241	Phosphatase tensin-type. {ECO:0000255|PROSITE-ProRule:PRU00590}.				cellular homeostasis (GO:0019725)|collagen metabolic process (GO:0032963)|intracellular signal transduction (GO:0035556)|kidney development (GO:0001822)|multicellular organism growth (GO:0035264)|multicellular organismal homeostasis (GO:0048871)|negative regulation of cell proliferation (GO:0008285)|response to muscle activity (GO:0014850)	focal adhesion (GO:0005925)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|phosphoprotein phosphatase activity (GO:0004721)			central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(3)|liver(2)|lung(19)|ovary(1)|pancreas(1)|stomach(3)	34						TTGGGGTCATCGTTTCTGCCT	0.597																																																0													206	194	198					12																	53449591		2203	4300	6503	SO:0001583	missense	23371			AF518729	CCDS8842.1, CCDS8843.1, CCDS8844.1	12q13.13	2013-02-14	2004-03-05			ENSG00000111077		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs", "SH2 domain containing"	19737	protein-coding gene	gene with protein product	"tensin 2"	607717	"tensin like C1 domain-containing phosphatase"				Standard	NM_015319		Approved	KIAA1075, C1-TEN, TNS2	uc001sbp.3	Q63HR2	OTTHUMG00000169730	ENST00000314250.6:c.723C>G	12.37:g.53449591C>G	ENSP00000319684:p.Ile241Met	Somatic		WXS	Illumina HiSeq	Phase_I	A2VDF2|A2VDF3|A2VDI8|A5PKY4|Q2NL80|Q76MW6|Q7Z5T9|Q8NFF9|Q8NFG0|Q96P25|Q9NT29|Q9UPS7	Missense_Mutation	SNP	ENST00000314250.6	37	CCDS8843.1	.	.	.	.	.	.	.	.	.	.	C	17.55	3.418345	0.62622	.	.	ENSG00000111077	ENST00000379902;ENST00000314276;ENST00000314250;ENST00000451358;ENST00000443113;ENST00000546602;ENST00000552570;ENST00000549700	D;D;D;D;D;D;D	0.98666	-5.06;-5.06;-5.06;-5.06;-5.06;-5.06;-5.06	5.2	2.34	0.29019	Phosphatase tensin type (1);	0.062030	0.64402	D	0.000006	D	0.96935	0.8999	N	0.05259	-0.085	0.43683	D	0.996128	D;D;D;D	0.89917	1.0;0.991;1.0;0.997	D;D;D;D	0.75484	0.968;0.957;0.986;0.98	D	0.95934	0.8941	10	0.87932	D	0	-3.0417	9.7567	0.40508	0.0:0.7503:0.0:0.2497	.	241;241;251;248	Q63HR2;F8W661;Q63HR2-4;Q6ZMJ1	TENC1_HUMAN;.;.;.	M	117;251;241;241;241;241;241;241	ENSP00000369232:I117M;ENSP00000319756:I251M;ENSP00000319684:I241M;ENSP00000393362:I241M;ENSP00000449363:I241M;ENSP00000447021:I241M;ENSP00000449361:I241M	ENSP00000319684:I241M	I	+	3	3	TENC1	51735858	0.939000	0.31865	1.000000	0.80357	0.936000	0.57629	0.049000	0.14099	0.710000	0.31997	-0.258000	0.10820	ATC		0.597	TENC1-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000405779.1	NM_170754		G	53449591	C	G	53449591	3	3	631	1	0	0	0	0	1	0	0	0	15770	874	31	4	870	4	TENC1	12	53449591	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10	5260174	53449591	80402304	44	38890										
TUBA3C	7278	broad.mit.edu	37	chr13	19751676	19751676	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	cgctccatgagcagagatgcGaacccagagccagtgccacc	11	15	0	3			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr13:19751676G>A	ENST00000400113.3	-	4	551	c.447C>T	c.(445-447)ttC>ttT	p.F149F		NM_006001.2	NP_005992.1	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	149					'de novo' posttranslational protein folding (GO:0051084)|cellular protein metabolic process (GO:0044267)|microtubule-based process (GO:0007017)|protein folding (GO:0006457)|protein polymerization (GO:0051258)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|biliary_tract(1)|breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(12)|lung(33)|ovary(4)|prostate(7)|skin(7)|urinary_tract(1)	72		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		GCAGAGATGCGAACCCAGAGC	0.567																																																0													71	73	72					13																	19751676		2203	4300	6503	SO:0001819	synonymous_variant	7278			AF005392	CCDS9284.1	13q12.11	2007-06-20	2007-02-12	2007-02-12	ENSG00000198033	ENSG00000198033		"Tubulins"	12408	protein-coding gene	gene with protein product		602528	"tubulin, alpha 2"	TUBA2		9465305	Standard	NM_006001		Approved	bA408E5.3	uc009zzj.3	Q13748	OTTHUMG00000016481	ENST00000400113.3:c.447C>T	13.37:g.19751676G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NJQ0|Q5W099|Q6PEY3|Q96F18	Silent	SNP	ENST00000400113.3	37	CCDS9284.1																																																																																				0.567	TUBA3C-002	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044007.2	NM_006001		A	19751676	G	A	19751676	2	1	631	1	0	0	0	0	0	0	0	1	16758	1049	37	1		1	TUBA3C	13	19751676	Silent	SNP	G	TCGA-KL-8332-01A-11D-2310-10		19751676	95418202	45	38891										
EBPL	84650	broad.mit.edu	37	chr13	50235138	50235138	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	tcactgaactggtttctttcTgatgcattttcttgagttct	7	8	5	3			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr13:50235138T>G	ENST00000242827.6	-	4	637	c.587A>C	c.(586-588)cAg>cCg	p.Q196P	EBPL_ENST00000378284.2_3'UTR|EBPL_ENST00000495963.2_5'UTR|EBPL_ENST00000378272.5_3'UTR|EBPL_ENST00000378270.5_3'UTR	NM_032565.3	NP_115954.1	Q9BY08	EBPL_HUMAN	emopamil binding protein-like	196					sterol metabolic process (GO:0016125)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	cholestenol delta-isomerase activity (GO:0047750)	p.Q196P(2)		endometrium(8)|kidney(6)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	21		Lung NSC(96;0.000468)|Breast(56;0.0011)|Prostate(109;0.00243)|Hepatocellular(98;0.0556)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.06e-09)		GGTTTCTTTCTGATGCATTTT	0.383																																					NSCLC(39;857 1083 36109 42364 51411)											2	Substitution - Missense(2)	endometrium(2)											73	73	73					13																	50235138		2203	4300	6503	SO:0001583	missense	84650			AF243433	CCDS9420.1, CCDS61334.1	13q12-q13	2008-02-05			ENSG00000123179	ENSG00000123179			18061	protein-coding gene	gene with protein product							Standard	NM_032565		Approved	EBRP	uc001vdg.3	Q9BY08	OTTHUMG00000016920	ENST00000242827.6:c.587A>C	13.37:g.50235138T>G	ENSP00000242827:p.Gln196Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJ59|Q569H7|Q5JVN2|Q5JVN3|Q5JVN4|Q5JVN5|Q5JVN6	Missense_Mutation	SNP	ENST00000242827.6	37	CCDS9420.1	.	.	.	.	.	.	.	.	.	.	T	15.06	2.722268	0.48728	.	.	ENSG00000123179	ENST00000242827	D	0.97994	-4.65	5.61	-2.45	0.06481	.	1.466260	0.03646	N	0.240220	D	0.94876	0.8344	L	0.47716	1.5	0.09310	N	1	B	0.09022	0.002	B	0.12837	0.008	D	0.86530	0.1821	10	0.30078	T	0.28	-0.1548	6.1064	0.20075	0.3657:0.0:0.2518:0.3825	.	196	Q9BY08	EBPL_HUMAN	P	196	ENSP00000242827:Q196P	ENSP00000242827:Q196P	Q	-	2	0	EBPL	49133139	0.002000	0.14202	0.003000	0.11579	0.996000	0.88848	-0.059000	0.11731	-0.151000	0.11176	0.528000	0.53228	CAG		0.383	EBPL-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044932.2	NM_032565		G	50235138	T	G	50235138	3	3	631	1	0	0	0	0	1	0	0	0	4889	1580	55	5	37	5	EBPL	13	50235138	Missense_Mutation	SNP	T	TCGA-KL-8332-01A-11D-2310-10	30483462	50235138	64934740	46	38892										
OR11H12	440153	mdanderson.org	37	chr14	19378135	19378135	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	cattgttctcatctctcagaTgcccttctgtggcccaaaca	6	14	4	1	rs202226673		TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr14:19378135T>A	ENST00000550708.1	+	1	614	c.542T>A	c.(541-543)aTg>aAg	p.M181K		NM_001013354.1|NM_001197287.1	NP_001013372.1|NP_001184216.1	B2RN74	O11HC_HUMAN	olfactory receptor, family 11, subfamily H, member 12	181						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(2)|endometrium(1)|kidney(1)|large_intestine(1)|lung(13)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	22	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ATCTCTCAGATGCCCTTCTGT	0.478																																																0																																										SO:0001583	missense	440153				CCDS32017.1	14q11.2	2013-01-25			ENSG00000257115	ENSG00000257115		"GPCR / Class A : Olfactory receptors"	30738	protein-coding gene	gene with protein product							Standard	NM_001013354		Approved		uc010tkp.2	B2RN74	OTTHUMG00000170298	ENST00000550708.1:c.542T>A	14.37:g.19378135T>A	ENSP00000449002:p.Met181Lys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000550708.1	37	CCDS32017.1	.	.	.	.	.	.	.	.	.	.	t	8.805	0.933852	0.18206	.	.	ENSG00000257115	ENST00000550708	T	0.00115	8.71	0.585	0.585	0.17428	GPCR, rhodopsin-like superfamily (1);	0.284112	0.24580	N	0.037314	T	0.00144	0.0004	L	0.50333	1.59	0.25517	N	0.987402	P	0.40282	0.711	B	0.41646	0.362	T	0.36432	-0.9748	9	0.72032	D	0.01	.	5.5303	0.16980	0.0:1.0E-4:0.0:0.9999	.	181	B2RN74	O11HC_HUMAN	K	181	ENSP00000449002:M181K	ENSP00000449002:M181K	M	+	2	0	CR383656.1	18448135	0.130000	0.22417	0.951000	0.38953	0.105000	0.19272	3.659000	0.54489	0.518000	0.28383	0.055000	0.15244	ATG		0.478	OR11H12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408402.1	NM_001013354		A	19378135	T	A	19378135	3	1	631	1	0	0	0	0	1	0	0	0	10934	1464	51	5	544	5	OR11H12	14	19378135	Missense_Mutation	SNP	T	TCGA-KL-8332-01A-11D-2310-10		19378135	87971405	47	38893										
DHRS4L2	317749	mdanderson.org	37	chr14	24464310	24464310	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	tcaaccctttctttggaagcCtaatggatgtcaccgaggag	10	10	3	0	rs61999853	byFrequency	TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr14:24464310C>A	ENST00000335125.6	+	3	502	c.376C>A	c.(376-378)Cta>Ata	p.L126I	DHRS4L2_ENST00000558753.1_Intron|DHRS4L2_ENST00000534993.1_Missense_Mutation_p.L25I|DHRS4L2_ENST00000545240.1_Missense_Mutation_p.L126I|DHRS4L2_ENST00000382755.4_Missense_Mutation_p.L124I|DHRS4L2_ENST00000397071.1_Missense_Mutation_p.L126I|DHRS4L2_ENST00000543805.1_Intron|DHRS4L2_ENST00000537912.1_Intron	NM_198083.3	NP_932349.2	Q6PKH6	DR4L2_HUMAN	dehydrogenase/reductase (SDR family) member 4 like 2	124						extracellular region (GO:0005576)	oxidoreductase activity (GO:0016491)			breast(1)|endometrium(2)|kidney(1)|lung(2)|ovary(1)|skin(2)|stomach(1)	10				GBM - Glioblastoma multiforme(265;0.00962)		CTTTGGAAGCCTAATGGATGT	0.532																																																0													424	384	397					14																	24464310		2203	4300	6503	SO:0001583	missense	317749				CCDS9606.2, CCDS73621.1	14q11.2	2011-09-14			ENSG00000187630	ENSG00000187630	1.1.-.-	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 1"	19731	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 25C, member 3"	615196					Standard	NM_001193635		Approved	SDR25C3	uc001wlf.3	Q6PKH6	OTTHUMG00000028778	ENST00000335125.6:c.376C>A	14.37:g.24464310C>A	ENSP00000334801:p.Leu126Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q3YLD4	Missense_Mutation	SNP	ENST00000335125.6	37	CCDS9606.2	51	0.023351648351648352	13	0.026422764227642278	10	0.027624309392265192	8	0.013986013986013986	20	0.026385224274406333	-	0.017	-1.492049	0.01009	.	.	ENSG00000187630	ENST00000534993;ENST00000397071;ENST00000335125;ENST00000545240;ENST00000382755	D;D;D;D	0.88431	-2.38;-2.38;-2.38;-2.38	4.64	0.0778	0.14409	NAD(P)-binding domain (1);	0.297403	0.28895	N	0.013795	T	0.55114	0.1900	N	0.25380	0.74	0.09310	N	1	B	0.06786	0.001	B	0.17979	0.02	T	0.51576	-0.8688	10	0.07325	T	0.83	.	7.8688	0.29554	0.5146:0.4044:0.0:0.081	rs61999853	124	Q6PKH6	DR4L2_HUMAN	I	25;126;126;126;124	ENSP00000380261:L126I;ENSP00000334801:L126I;ENSP00000437883:L126I;ENSP00000372203:L124I	ENSP00000334801:L126I	L	+	1	2	DHRS4L2	23534150	0.459000	0.25768	0.013000	0.15412	0.726000	0.41606	0.387000	0.20718	-0.358000	0.08162	-0.522000	0.04353	CTA		0.532	DHRS4L2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000071858.4			A	24464310	C	A	24464310	3	1	631	1	0	0	0	0	1	0	0	0	4496	680	24	4	386	4	DHRS4L2	14	24464310	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10	5086175	24464310	82885230	48	38894										
DCAF4	26094	ucsc.edu	37	chr14	73425508	73425508	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	acctttactgttactcctacAgctaattctgcagggcacag	7	12	1	0			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr14:73425508A>G	ENST00000358377.2	+	14	1703	c.1483A>G	c.(1483-1485)Agc>Ggc	p.S495G	DCAF4_ENST00000509153.1_Missense_Mutation_p.S435G|DCAF4_ENST00000555042.1_Missense_Mutation_p.S489G|DCAF4_ENST00000353777.3_Missense_Mutation_p.S325G|DCAF4_ENST00000394234.2_Missense_Mutation_p.S395G	NM_001163509.1|NM_015604.3	NP_001156981.1|NP_056419.2	Q8WV16	DCAF4_HUMAN	DDB1 and CUL4 associated factor 4	495					protein ubiquitination (GO:0016567)	Cul4-RING E3 ubiquitin ligase complex (GO:0080008)				NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(6)|ovary(1)|skin(1)	22						TTACTCCTACAGCTAATTCTG	0.562																																																0													39	46	43					14																	73425508		2201	4296	6497	SO:0001583	missense	26094			BC018979	CCDS9809.1, CCDS9810.1, CCDS41968.1, CCDS41968.2, CCDS55926.1	14q24.3	2013-01-09	2009-07-17	2009-07-17		ENSG00000119599		"WD repeat domain containing", "DDB1 and CUL4 associated factors"	20229	protein-coding gene	gene with protein product			"WD repeat domain 21", "WD repeat domain 21A"	WDR21, WDR21A			Standard	NM_015604		Approved	DKFZp434K114	uc010ttr.2	Q8WV16		ENST00000358377.2:c.1483A>G	14.37:g.73425508A>G	ENSP00000351147:p.Ser495Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DUT6|G3V522|Q86U31|Q8IV10|Q96K22|Q9Y4P5	Missense_Mutation	SNP	ENST00000358377.2	37	CCDS9809.1	.	.	.	.	.	.	.	.	.	.	A	11.80	1.747798	0.30955	.	.	ENSG00000119599	ENST00000358377;ENST00000353777;ENST00000394234;ENST00000509153;ENST00000555042	T;T;T;T;T	0.68479	0.39;-0.33;-0.01;0.41;-0.01	4.92	3.73	0.42828	.	0.243282	0.46758	N	0.000269	T	0.51176	0.1659	N	0.22421	0.69	0.80722	D	1	B;B;B;P;B	0.49559	0.245;0.245;0.239;0.925;0.245	B;B;B;B;B	0.42062	0.118;0.08;0.167;0.374;0.08	T	0.54016	-0.8356	10	0.66056	D	0.02	.	9.8467	0.41032	0.914:0.0:0.086:0.0	.	435;474;489;325;495	B4DUT6;B4DN30;G3V522;Q86SY2;Q8WV16	.;.;.;.;DCAF4_HUMAN	G	495;325;395;435;489	ENSP00000351147:S495G;ENSP00000345176:S325G;ENSP00000377781:S395G;ENSP00000426178:S435G;ENSP00000452131:S489G	ENSP00000345176:S325G	S	+	1	0	DCAF4	72495261	1.000000	0.71417	0.566000	0.28421	0.027000	0.11550	3.391000	0.52530	0.857000	0.35407	-0.366000	0.07423	AGC		0.562	DCAF4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000361058.1	NM_015604		G	73425508	A	G	73425508	3	3	631	1	0	0	0	0	1	0	0	0	4272	188	7	3	1536	3	DCAF4	14	73425508	Missense_Mutation	SNP	A	TCGA-KL-8332-01A-11D-2310-10	48961198	73425508	33924032	49	38895										
RBBP6	5930	broad.mit.edu;hgsc.bcm.edu	37	chr16	24582960	24582960	+	Frame_Shift_Del	DEL	G	G	-													0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	agagagatttgcctaaaaaaGgaacaggagattccaaaaaa							TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr16:24582960delG	ENST00000319715.4	+	18	5005	c.4573delG	c.(4573-4575)ggafs	p.G1525fs	RBBP6_ENST00000381039.3_Frame_Shift_Del_p.G685fs|RBBP6_ENST00000348022.2_Frame_Shift_Del_p.G1491fs	NM_006910.4	NP_008841.2	Q7Z6E9	RBBP6_HUMAN	retinoblastoma binding protein 6	1525	Interaction with p53. {ECO:0000250}.				embryonic organ development (GO:0048568)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|somite development (GO:0061053)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)	ligase activity (GO:0016874)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(10)|lung(17)|ovary(4)|pancreas(1)|prostate(2)|urinary_tract(1)	46				GBM - Glioblastoma multiforme(48;0.0518)		GCCTAAAAAAGGAACAGGAGA	0.378																																																0													38	38	38					16																	24582960		2197	4297	6494	SO:0001589	frameshift_variant	5930				CCDS10621.1, CCDS10622.1, CCDS45444.1	16p12.2	2008-08-04	2001-11-28		ENSG00000122257	ENSG00000122257			9889	protein-coding gene	gene with protein product	"proliferation potential-related protein"	600938	"retinoblastoma-binding protein 6"			8595913, 16396680	Standard	NM_006910		Approved	P2P-R, PACT, SNAMA	uc002dmh.3	Q7Z6E9	OTTHUMG00000096991	ENST00000319715.4:c.4573delG	16.37:g.24582960delG	ENSP00000317872:p.Gly1525fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q147T5|Q15290|Q6DKH4|Q6P4C2|Q6YNC9|Q7Z6E8|Q8N0V2|Q96PH3|Q9H3I8|Q9H5M5|Q9NPX4	Frame_Shift_Del	DEL	ENST00000319715.4	37	CCDS10621.1																																																																																				0.378	RBBP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214067.2	NM_006910		-	24582960	G	-	24582960	7	5	631	1	0	1	0	1	0	0	0	0	13116	1001	35	0	4697	0	RBBP6	16	24582960	Frame_Shift_Del	DEL	G	TCGA-KL-8332-01A-11D-2310-10		24582960	65771793	50	38896	321	2								
RBBP6	5930	bcgsc.ca	37	chr16	24582961	24582961	+	Frame_Shift_Del	DEL	G	G	-													0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	gagagatttgcctaaaaaagGaacaggagattccaaaaaaa							TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr16:24582961delG	ENST00000319715.4	+	18	5006	c.4574delG	c.(4573-4575)ggafs	p.G1525fs	RBBP6_ENST00000381039.3_Frame_Shift_Del_p.G685fs|RBBP6_ENST00000348022.2_Frame_Shift_Del_p.G1491fs	NM_006910.4	NP_008841.2	Q7Z6E9	RBBP6_HUMAN	retinoblastoma binding protein 6	1525	Interaction with p53. {ECO:0000250}.				embryonic organ development (GO:0048568)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|somite development (GO:0061053)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)	ligase activity (GO:0016874)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(10)|lung(17)|ovary(4)|pancreas(1)|prostate(2)|urinary_tract(1)	46				GBM - Glioblastoma multiforme(48;0.0518)		CCTAAAAAAGGAACAGGAGAT	0.373																																																0													39	38	38					16																	24582961		2197	4297	6494	SO:0001589	frameshift_variant	5930				CCDS10621.1, CCDS10622.1, CCDS45444.1	16p12.2	2008-08-04	2001-11-28		ENSG00000122257	ENSG00000122257			9889	protein-coding gene	gene with protein product	"proliferation potential-related protein"	600938	"retinoblastoma-binding protein 6"			8595913, 16396680	Standard	NM_006910		Approved	P2P-R, PACT, SNAMA	uc002dmh.3	Q7Z6E9	OTTHUMG00000096991	ENST00000319715.4:c.4574delG	16.37:g.24582961delG	ENSP00000317872:p.Gly1525fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q147T5|Q15290|Q6DKH4|Q6P4C2|Q6YNC9|Q7Z6E8|Q8N0V2|Q96PH3|Q9H3I8|Q9H5M5|Q9NPX4	Frame_Shift_Del	DEL	ENST00000319715.4	37	CCDS10621.1																																																																																				0.373	RBBP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214067.2	NM_006910		-	24582961	G	-	24582961	7	5	631	1	0	1	0	1	0	0	0	0	13116	1174	41	0	4698	0	RBBP6	16	24582961	Frame_Shift_Del	DEL	G	TCGA-KL-8332-01A-11D-2310-10	1	24582961	65771792	51	38897	321	2								
ADCY7	113	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr16	50348998	50348998	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	tatgacatctggggaaacacTgtcaatgtggccagccgaat	11	9	2	1			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr16:50348998T>A	ENST00000394697.2	+	25	3385	c.3045T>A	c.(3043-3045)acT>acA	p.T1015T	ADCY7_ENST00000254235.3_Silent_p.T1015T			P51828	ADCY7_HUMAN	adenylate cyclase 7	1015	Guanylate cyclase 2. {ECO:0000255|PROSITE-ProRule:PRU00099}.				activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cellular response to ethanol (GO:0071361)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|maternal process involved in female pregnancy (GO:0060135)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of cAMP biosynthetic process (GO:0030819)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	adenylate cyclase activity (GO:0004016)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)			breast(1)|cervix(1)|endometrium(5)|large_intestine(6)|lung(14)|ovary(1)|prostate(1)|skin(2)|stomach(1)|urinary_tract(3)	35		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)		GGGGAAACACTGTCAATGTGG	0.483																																																0													115	117	116					16																	50348998		2198	4300	6498	SO:0001819	synonymous_variant	113			D25538	CCDS10741.1, CCDS73882.1	16q12.1	2013-02-04			ENSG00000121281	ENSG00000121281	4.6.1.1	"Adenylate cyclases"	238	protein-coding gene	gene with protein product		600385				7860067	Standard	NM_001286057		Approved	KIAA0037, AC7	uc002egd.1	P51828	OTTHUMG00000133172	ENST00000394697.2:c.3045T>A	16.37:g.50348998T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0AVA6	Silent	SNP	ENST00000394697.2	37	CCDS10741.1																																																																																				0.483	ADCY7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256877.3			A	50348998	T	A	50348998	2	1	631	1	0	0	0	0	0	0	0	1	299	1567	55	5		5	ADCY7	16	50348998	Silent	SNP	T	TCGA-KL-8332-01A-11D-2310-10	25766037	50348998	40005755	52	38898										
TSR1	55720	broad.mit.edu	37	chr17	2228035	2228035	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	atcttagtaaaaattttgaaAggatgaccactcagaacaac	6	7	2	3			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr17:2228035A>G	ENST00000301364.5	-	13	3188	c.2109T>C	c.(2107-2109)ccT>ccC	p.P703P	SRR_ENST00000344595.5_3'UTR	NM_018128.4	NP_060598.3	Q2NL82	TSR1_HUMAN	TSR1, 20S rRNA accumulation, homolog (S. cerevisiae)	703					ribosome assembly (GO:0042255)	nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)			autonomic_ganglia(1)|breast(2)|endometrium(1)|kidney(2)|large_intestine(7)|lung(4)|ovary(1)|prostate(1)|urinary_tract(1)	20						AAATTTTGAAAGGATGACCAC	0.418																																																0													119	119	119					17																	2228035		2203	4300	6503	SO:0001819	synonymous_variant	55720			AK026565	CCDS32525.1	17p13.3	2006-04-20	2006-04-20			ENSG00000167721			25542	protein-coding gene	gene with protein product		611214	"TSR1, 20S rRNA accumulation, homolog (yeast)"			10718198	Standard	NM_018128		Approved	FLJ10534	uc002fuj.3	Q2NL82		ENST00000301364.5:c.2109T>C	17.37:g.2228035A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8WUY5|Q9NVT0|Q9P2E6	Silent	SNP	ENST00000301364.5	37	CCDS32525.1																																																																																				0.418	TSR1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438180.2	NM_018128		G	2228035	A	G	2228035	2	3	631	1	0	0	0	0	0	0	0	1	16676	59	3	3		3	TSR1	17	2228035	Silent	SNP	A	TCGA-KL-8332-01A-11D-2310-10		2228035	78967175	53	38899										
FAM20A	54757	ucsc.edu	37	chr17	66538262	66538262	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	gccacagacagcatactccgTcttgcacatgtatggacact	8	13	1	1			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr17:66538262T>C	ENST00000592554.1	-	7	1695	c.973A>G	c.(973-975)Acg>Gcg	p.T325A	PRKAR1A_ENST00000588188.2_Intron|AC079210.1_ENST00000600820.1_5'Flank|FAM20A_ENST00000226094.5_5'UTR	NM_001243746.1|NM_017565.3	NP_001230675.1|NP_060035.2	Q96MK3	FA20A_HUMAN	family with sequence similarity 20, member A	325					calcium ion homeostasis (GO:0055074)|enamel mineralization (GO:0070166)|tooth eruption (GO:0044691)	cell (GO:0005623)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)				cervix(1)|endometrium(1)|large_intestine(3)|lung(2)|prostate(1)|stomach(1)	9	Breast(10;1.64e-13)					GCATACTCCGTCTTGCACATG	0.602																																																0													111	85	94					17																	66538262		2203	4300	6503	SO:0001583	missense	54757			AK056789	CCDS11679.1	17q24.2	2014-02-07			ENSG00000108950	ENSG00000108950			23015	protein-coding gene	gene with protein product		611062					Standard	NM_017565		Approved	DKFZp434F2322	uc002jho.3	Q96MK3	OTTHUMG00000180152	ENST00000592554.1:c.973A>G	17.37:g.66538262T>C	ENSP00000468308:p.Thr325Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN47|B2RN49|Q9UF95	Missense_Mutation	SNP	ENST00000592554.1	37	CCDS11679.1	.	.	.	.	.	.	.	.	.	.	T	23.9	4.469067	0.84533	.	.	ENSG00000108950	ENST00000226094	.	.	.	6.04	6.04	0.98038	.	0.000000	0.85682	D	0.000000	D	0.83110	0.5183	M	0.87758	2.905	0.80722	D	1	D	0.63046	0.992	D	0.63192	0.912	D	0.85708	0.1317	9	0.62326	D	0.03	-33.4943	16.5885	0.84745	0.0:0.0:0.0:1.0	.	325	Q96MK3	FA20A_HUMAN	A	325	.	ENSP00000226094:T325A	T	-	1	0	FAM20A	64049857	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	5.850000	0.69473	2.317000	0.78254	0.460000	0.39030	ACG		0.602	FAM20A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450029.2	NM_017565		C	66538262	T	C	66538262	3	2	631	1	0	0	0	0	1	0	0	0	5541	1667	58	3	672	3	FAM20A	17	66538262	Missense_Mutation	SNP	T	TCGA-KL-8332-01A-11D-2310-10	64310227	66538262	14656948	54	38900										
TMEM104	54868	ucsc.edu	37	chr17	72787131	72787131	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	caacccgtttgaaatcacagAccgggtggaaatgggacaaa	11	9	1	2			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr17:72787131A>G	ENST00000335464.5	+	6	545	c.383A>G	c.(382-384)gAc>gGc	p.D128G	TMEM104_ENST00000582330.1_Missense_Mutation_p.D128G|TMEM104_ENST00000582773.1_Missense_Mutation_p.D128G|TMEM104_ENST00000417024.2_Missense_Mutation_p.D141G	NM_017728.3	NP_060198.3	Q8NE00	TM104_HUMAN	transmembrane protein 104	128						integral component of membrane (GO:0016021)				NS(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(8)|lung(5)|ovary(1)	19	all_lung(278;0.23)					GAAATCACAGACCGGGTGGAA	0.527																																																0													110	81	90					17																	72787131		2203	4300	6503	SO:0001583	missense	54868			AK074029	CCDS32723.1	17q25.1	2005-12-19				ENSG00000109066			25984	protein-coding gene	gene with protein product							Standard	NM_017728		Approved	FLJ20255, FLJ00021	uc002jls.4	Q8NE00		ENST00000335464.5:c.383A>G	17.37:g.72787131A>G	ENSP00000334849:p.Asp128Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TEU1|Q9NT56|Q9NXH1	Missense_Mutation	SNP	ENST00000335464.5	37	CCDS32723.1	.	.	.	.	.	.	.	.	.	.	A	16.16	3.044754	0.55110	.	.	ENSG00000109066	ENST00000335464;ENST00000417024	T;T	0.45668	1.51;0.89	5.15	4.07	0.47477	.	0.098626	0.64402	D	0.000002	T	0.40322	0.1112	L	0.48642	1.525	0.48830	D	0.999714	P;P;B	0.45672	0.864;0.769;0.196	P;B;B	0.46362	0.514;0.275;0.165	T	0.10567	-1.0624	10	0.30078	T	0.28	-33.1063	10.796	0.46461	0.9252:0.0:0.0748:0.0	.	141;128;128	B4DKL7;Q8NE00-2;Q8NE00	.;.;TM104_HUMAN	G	128;141	ENSP00000334849:D128G;ENSP00000397676:D141G	ENSP00000334849:D128G	D	+	2	0	TMEM104	70298726	1.000000	0.71417	1.000000	0.80357	0.874000	0.50279	8.568000	0.90741	0.915000	0.36847	0.397000	0.26171	GAC		0.527	TMEM104-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444442.1	NM_017728		G	72787131	A	G	72787131	3	3	631	1	0	0	0	0	1	0	0	0	16030	275	10	3	401	3	TMEM104	17	72787131	Missense_Mutation	SNP	A	TCGA-KL-8332-01A-11D-2310-10	6248869	72787131	8408079	55	38901										
TCEB3C	162699	bcgsc.ca	37	chr18	44555274	44555274	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	catcttagcgttcactctgcGtccagggaaagcagcttcct	9	13	3	0			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr18:44555274G>A	ENST00000330682.2	-	1	1175	c.940C>T	c.(940-942)Cgc>Tgc	p.R314C	KATNAL2_ENST00000356157.7_Intron|KATNAL2_ENST00000592005.1_Intron|KATNAL2_ENST00000245121.5_Intron	NM_145653.3	NP_663628.2	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide 3C (elongin A3)	314	Activation domain. {ECO:0000250}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	integral component of membrane (GO:0016021)|nucleus (GO:0005634)	DNA binding (GO:0003677)			NS(1)|cervix(1)|endometrium(5)|kidney(4)|large_intestine(1)|lung(16)|skin(2)	30						TTCACTCTGCGTCCAGGGAAA	0.637																																																0													251	258	256					18																	44555274		1909	3726	5635	SO:0001583	missense	162699			AB076840	CCDS11931.1	18q21.1	2008-08-13			ENSG00000183791	ENSG00000183791			24617	protein-coding gene	gene with protein product	"elongin A3"					11932239, 11994304	Standard	NM_145653		Approved	HsT829, TCEB3L2	uc010xdb.2	Q8NG57	OTTHUMG00000132651	ENST00000330682.2:c.940C>T	18.37:g.44555274G>A	ENSP00000328232:p.Arg314Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000330682.2	37	CCDS11931.1	.	.	.	.	.	.	.	.	.	.	g	8.358	0.832394	0.16820	.	.	ENSG00000183791	ENST00000330682	T	0.15487	2.42	1.1	-2.21	0.06973	.	1.173820	0.06346	N	0.708878	T	0.07863	0.0197	L	0.29908	0.895	0.19300	N	0.999974	D	0.57899	0.981	B	0.26094	0.066	T	0.21655	-1.0239	10	0.59425	D	0.04	-0.3943	4.3463	0.11134	0.0:0.454:0.316:0.2301	.	314	Q8NG57	ELOA3_HUMAN	C	314	ENSP00000328232:R314C	ENSP00000328232:R314C	R	-	1	0	TCEB3C	42809272	0.001000	0.12720	0.000000	0.03702	0.001000	0.01503	0.162000	0.16501	-2.006000	0.00958	-1.780000	0.00649	CGC		0.637	TCEB3C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255902.1	NM_145653		A	44555274	G	A	44555274	3	1	631	1	0	0	0	0	1	0	0	0	15695	1145	40	1	2347	1	TCEB3C	18	44555274	Missense_Mutation	SNP	G	TCGA-KL-8332-01A-11D-2310-10		44555274	33521974	56	38902										
PLIN4	729359	mdanderson.org	37	chr19	4511494	4511494	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	cagacagtgtccttggtaccGgtcagcacggtcttggccgt	13	12	2	1	rs201001883		TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr19:4511494G>A	ENST00000301286.3	-	3	2435	c.2436C>T	c.(2434-2436)acC>acT	p.T812T		NM_001080400.1	NP_001073869.1	Q96Q06	PLIN4_HUMAN	perilipin 4	812	27 X 33 AA approximate tandem repeat.					cytoplasm (GO:0005737)|lipid particle (GO:0005811)|plasma membrane (GO:0005886)				NS(2)|breast(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(14)|ovary(1)|skin(2)|soft_tissue(1)|stomach(2)	41						CCTTGGTACCGGTCAGCACGG	0.602																																																0													97	128	118					19																	4511494		2078	4204	6282	SO:0001819	synonymous_variant	729359			AB067468	CCDS45927.1	19p13.3	2009-10-06	2009-08-12	2009-08-12	ENSG00000167676	ENSG00000167676		"Perilipins"	29393	protein-coding gene	gene with protein product		613247	"KIAA1881"	KIAA1881		11572484, 19638644	Standard	NM_001080400		Approved	S3-12	uc002mar.1	Q96Q06	OTTHUMG00000167571	ENST00000301286.3:c.2436C>T	19.37:g.4511494G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NEI2	Silent	SNP	ENST00000301286.3	37	CCDS45927.1																																																																																				0.602	PLIN4-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395095.1	XM_170901		A	4511494	G	A	4511494	2	1	631	1	0	0	0	0	0	0	0	1	12099	1103	39	1		1	PLIN4	19	4511494	Silent	SNP	G	TCGA-KL-8332-01A-11D-2310-10		4511494	54617489	57	38903										
PLCB1	23236	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	8770880	8770880	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	agagaaacacaaggaaatacGtcagcagatcctggatgaaa	10	7	1	3			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr20:8770880G>A	ENST00000338037.6	+	31	3422	c.3395G>A	c.(3394-3396)cGt>cAt	p.R1132H	PLCB1_ENST00000378641.3_Missense_Mutation_p.R1132H|PLCB1_ENST00000378637.2_Missense_Mutation_p.R1132H	NM_015192.2	NP_056007.1	Q9NQ66	PLCB1_HUMAN	phospholipase C, beta 1 (phosphoinositide-specific)	1132					activation of meiosis involved in egg activation (GO:0060466)|cerebral cortex development (GO:0021987)|fat cell differentiation (GO:0045444)|G-protein coupled acetylcholine receptor signaling pathway (GO:0007213)|G2/M transition of mitotic cell cycle (GO:0000086)|glutamate receptor signaling pathway (GO:0007215)|inositol phosphate metabolic process (GO:0043647)|insulin-like growth factor receptor signaling pathway (GO:0048009)|interleukin-1-mediated signaling pathway (GO:0070498)|interleukin-12-mediated signaling pathway (GO:0035722)|interleukin-15-mediated signaling pathway (GO:0035723)|intracellular signal transduction (GO:0035556)|lipid catabolic process (GO:0016042)|memory (GO:0007613)|negative regulation of monocyte extravasation (GO:2000438)|negative regulation of transcription, DNA-templated (GO:0045892)|phosphatidylinositol metabolic process (GO:0046488)|positive regulation of acrosome reaction (GO:2000344)|positive regulation of CD24 biosynthetic process (GO:2000560)|positive regulation of developmental growth (GO:0048639)|positive regulation of embryonic development (GO:0040019)|positive regulation of G1/S transition of mitotic cell cycle (GO:1900087)|positive regulation of GTPase activity (GO:0043547)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of JNK cascade (GO:0046330)|positive regulation of myoblast differentiation (GO:0045663)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of fertilization (GO:0080154)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nuclear chromatin (GO:0000790)|nuclear speck (GO:0016607)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|GTPase activator activity (GO:0005096)|phosphatidylinositol phospholipase C activity (GO:0004435)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|protein homodimerization activity (GO:0042803)|signal transducer activity (GO:0004871)			NS(2)|breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(11)|liver(2)|lung(41)|ovary(4)|prostate(3)|skin(12)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(4)	95						AAGGAAATACGTCAGCAGATC	0.338																																																0													64	64	64					20																	8770880		2203	4300	6503	SO:0001583	missense	23236			AB011153	CCDS13102.1, CCDS13103.1	20p12	2008-03-18			ENSG00000182621	ENSG00000182621	3.1.4.11		15917	protein-coding gene	gene with protein product		607120				10760467, 11118617	Standard	NM_015192		Approved	KIAA0581, PLC-I, PLC154	uc002wnb.4	Q9NQ66	OTTHUMG00000031849	ENST00000338037.6:c.3395G>A	20.37:g.8770880G>A	ENSP00000338185:p.Arg1132His	Somatic		WXS	Illumina HiSeq	Phase_I	D3DW12|D3DW13|O60325|Q17RQ6|Q5TFF7|Q5TGC9|Q8IV93|Q9BQW2|Q9H4H2|Q9H8H5|Q9NQ65|Q9NQH9|Q9NTH4|Q9UJP6|Q9UM26	Missense_Mutation	SNP	ENST00000338037.6	37	CCDS13102.1	.	.	.	.	.	.	.	.	.	.	G	27.6	4.848790	0.91277	.	.	ENSG00000182621	ENST00000378641;ENST00000338037;ENST00000378637;ENST00000441163;ENST00000535719;ENST00000437439	T;T;T;T	0.45276	0.9;0.9;0.9;0.9	5.98	5.98	0.97165	PLC-beta, C-terminal (1);	0.000000	0.85682	D	0.000000	T	0.57533	0.2060	L	0.44542	1.39	0.80722	D	1	D;D	0.76494	0.998;0.999	P;D	0.63957	0.86;0.92	T	0.49322	-0.8952	10	0.40728	T	0.16	.	20.4581	0.99154	0.0:0.0:1.0:0.0	.	1132;1132	Q9NQ66;Q9NQ66-2	PLCB1_HUMAN;.	H	1132;1132;1132;1052;1052;19	ENSP00000367908:R1132H;ENSP00000338185:R1132H;ENSP00000367904:R1132H;ENSP00000389911:R19H	ENSP00000338185:R1132H	R	+	2	0	PLCB1	8718880	1.000000	0.71417	0.559000	0.28332	0.988000	0.76386	6.710000	0.74670	2.835000	0.97688	0.650000	0.86243	CGT		0.338	PLCB1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077938.3			A	8770880	G	A	8770880	3	1	631	1	0	0	0	0	1	0	0	0	12034	1145	40	1	3517	1	PLCB1	20	8770880	Missense_Mutation	SNP	G	TCGA-KL-8332-01A-11D-2310-10		8770880	54254640	58	38904										
COL20A1	57642	ucsc.edu	37	chr20	61950862	61950862	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	ggaagaagtccctgacctacTtccaccgtgaccccagggct	10	15	0	3			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr20:61950862T>C	ENST00000358894.6	+	23	2930	c.2830T>C	c.(2830-2832)Ttc>Ctc	p.F944L	COL20A1_ENST00000326996.6_Missense_Mutation_p.F944L|COL20A1_ENST00000435874.1_Missense_Mutation_p.F951L|COL20A1_ENST00000422202.1_Missense_Mutation_p.F951L	NM_020882.2	NP_065933.2	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	944	Laminin G-like.				extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)				NS(3)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(21)|ovary(1)|prostate(3)|urinary_tract(2)	36	all_cancers(38;1.39e-10)					CCTGACCTACTTCCACCGTGA	0.637																																																0													27	30	29					20																	61950862		1985	4152	6137	SO:0001583	missense	57642			BC043183	CCDS46628.1	20q13.33	2014-02-12			ENSG00000101203	ENSG00000101203		"Collagens", "Fibronectin type III domain containing"	14670	protein-coding gene	gene with protein product						10819331	Standard	NM_020882		Approved	KIAA1510	uc011aau.2	Q9P218	OTTHUMG00000032964	ENST00000358894.6:c.2830T>C	20.37:g.61950862T>C	ENSP00000351767:p.Phe944Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VXQ4|Q6PI59|Q8WUT2|Q96CY9|Q9BQU6|Q9BQU7	Missense_Mutation	SNP	ENST00000358894.6	37	CCDS46628.1	.	.	.	.	.	.	.	.	.	.	T	16.66	3.183948	0.57800	.	.	ENSG00000101203	ENST00000358894;ENST00000326996;ENST00000435874;ENST00000422202;ENST00000415763	T;T;T;T;T	0.21031	2.03;2.03;2.03;2.03;2.03	4.12	4.12	0.48240	Concanavalin A-like lectin/glucanase (1);Laminin G, thrombospondin-type, N-terminal (1);	0.061074	0.64402	D	0.000003	T	0.46833	0.1413	M	0.82323	2.585	0.44380	D	0.997287	D;D	0.76494	0.999;0.998	D;D	0.81914	0.995;0.989	T	0.51841	-0.8654	10	0.87932	D	0	.	10.6802	0.45811	0.0:0.0:0.0:1.0	.	951;944	Q9P218-2;Q9P218	.;COKA1_HUMAN	L	944;944;951;951;47	ENSP00000351767:F944L;ENSP00000323077:F944L;ENSP00000408690:F951L;ENSP00000414753:F951L;ENSP00000410799:F47L	ENSP00000323077:F944L	F	+	1	0	COL20A1	61421307	1.000000	0.71417	0.998000	0.56505	0.134000	0.20937	3.596000	0.54024	1.512000	0.48834	0.260000	0.18958	TTC		0.637	COL20A1-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000144595.2	NM_020882		C	61950862	T	C	61950862	3	2	631	1	0	0	0	0	1	0	0	0	3681	1609	56	3	2916	3	COL20A1	20	61950862	Missense_Mutation	SNP	T	TCGA-KL-8332-01A-11D-2310-10	53179982	61950862	1074658	59	38905										
BRWD1	54014	bcgsc.ca	37	chr21	40649185	40649185	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	gtggatgcttacagtgtggcTttcaagttctgcgatttttt	11	6	2	0			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr21:40649185T>C	ENST00000333229.2	-	11	1423	c.1096A>G	c.(1096-1098)Agc>Ggc	p.S366G	BRWD1_ENST00000342449.3_Missense_Mutation_p.S366G|BRWD1_ENST00000380800.3_Missense_Mutation_p.S366G	NM_018963.4	NP_061836.2	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	366					cytoskeleton organization (GO:0007010)|regulation of cell shape (GO:0008360)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				cervix(2)|endometrium(6)|kidney(8)|large_intestine(14)|liver(2)|lung(13)|ovary(1)|pancreas(1)|prostate(2)|skin(7)|urinary_tract(2)	58		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				ACAGTGTGGCTTTCAAGTTCT	0.343																																					Melanoma(170;988 1986 4794 16843 39731)											0													82	79	80					21																	40649185		2203	4300	6503	SO:0001583	missense	54014			AJ002572	CCDS13662.1, CCDS13663.1, CCDS33557.1	21q22.2	2013-05-21	2005-05-13	2005-05-13	ENSG00000185658	ENSG00000185658		"WD repeat domain containing"	12760	protein-coding gene	gene with protein product			"chromosome 21 open reading frame 107", "WD repeat domain 9"	C21orf107, WDR9			Standard	NM_033656		Approved	FLJ11315, N143	uc002yxk.2	Q9NSI6	OTTHUMG00000066030	ENST00000333229.2:c.1096A>G	21.37:g.40649185T>C	ENSP00000330753:p.Ser366Gly	Somatic		WXS	Illumina HiSeq	Phase_I	C9JK25|O43721|Q5R2V0|Q5R2V1|Q6P2D1|Q8TCV3|Q96QG9|Q96QH0|Q9NUK1	Missense_Mutation	SNP	ENST00000333229.2	37	CCDS13662.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	9.093|9.093	1.002321|1.002321	0.19121|0.19121	.|.	.|.	ENSG00000185658|ENSG00000185658	ENST00000455867|ENST00000333229;ENST00000342449;ENST00000380800	.|T;T;T	.|0.44881	.|0.91;0.91;0.91	4.71|4.71	4.71|4.71	0.59529|0.59529	.|WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	.|0.071818	.|0.56097	.|D	.|0.000021	T|T	0.30039|0.30039	0.0752|0.0752	N|N	0.01405|0.01405	-0.89|-0.89	0.80722|0.80722	D|D	1|1	.|P;D;B	.|0.53619	.|0.906;0.961;0.217	.|P;P;B	.|0.62813	.|0.629;0.907;0.121	T|T	0.41324|0.41324	-0.9515|-0.9515	5|10	.|0.40728	.|T	.|0.16	-5.8987|-5.8987	9.1131|9.1131	0.36741|0.36741	0.0:0.0826:0.0:0.9174|0.0:0.0826:0.0:0.9174	.|.	.|77;366;366	.|Q5R2U6;Q9NSI6-2;Q9NSI6	.|.;.;BRWD1_HUMAN	R|G	77|366	.|ENSP00000330753:S366G;ENSP00000344333:S366G;ENSP00000370178:S366G	.|ENSP00000330753:S366G	K|S	-|-	2|1	0|0	BRWD1|BRWD1	39571055|39571055	0.995000|0.995000	0.38212|0.38212	1.000000|1.000000	0.80357|0.80357	0.976000|0.976000	0.68499|0.68499	1.785000|1.785000	0.38684|0.38684	1.878000|1.878000	0.54408|0.54408	0.482000|0.482000	0.46254|0.46254	AAG|AGC		0.343	BRWD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000141398.3	NM_033656		C	40649185	T	C	40649185	3	2	631	1	0	0	0	0	1	0	0	0	1527	1609	56	3	6233	3	BRWD1	21	40649185	Missense_Mutation	SNP	T	TCGA-KL-8332-01A-11D-2310-10		40649185	7480710	60	38906										
BPIL2	254240	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr22	32831775	32831775	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	aagaaatactcggcgattccAatgtagagcatggagttgct	11	7	0	2			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chr22:32831775A>T	ENST00000397452.1	-	9	950	c.840T>A	c.(838-840)atT>atA	p.I280I	BPIFC_ENST00000432451.2_Silent_p.I94I|BPIFC_ENST00000534972.1_Silent_p.I4I|BPIFC_ENST00000300399.3_Silent_p.I280I			Q8NFQ6	BPIFC_HUMAN	BPI fold containing family C	280						extracellular region (GO:0005576)	lipopolysaccharide binding (GO:0001530)|phospholipid binding (GO:0005543)										CGGCGATTCCAATGTAGAGCA	0.498																																																0													84	88	87					22																	32831775		2203	4300	6503	SO:0001819	synonymous_variant	254240			AF465766	CCDS13906.1	22q12.3	2011-08-04	2011-08-01	2011-08-01	ENSG00000184459	ENSG00000184459		"BPI fold containing"	16503	protein-coding gene	gene with protein product		614109	"bactericidal/permeability-increasing protein-like 2"	BPIL2			Standard	NM_174932		Approved	dJ149A16.7	uc003amn.2	Q8NFQ6	OTTHUMG00000058273	ENST00000397452.1:c.840T>A	22.37:g.32831775A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2RRF1	Silent	SNP	ENST00000397452.1	37	CCDS13906.1																																																																																				0.498	BPIFC-010	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000129029.2	NM_174932		T	32831775	A	T	32831775	2	4	631	1	0	0	0	0	0	0	0	1	1494	126	5	5		5	BPIL2	22	32831775	Silent	SNP	A	TCGA-KL-8332-01A-11D-2310-10		32831775	18472791	61	38907										
RPGR	6103	broad.mit.edu	37	chrX	38145423	38145423	+	Intron	DEL	A	A	-													0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	tcttccccctccccttctccAtcctccccttccccttctcc					rs201655057		TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chrX:38145423delA	ENST00000339363.3	-	14	2688				RPGR_ENST00000309513.3_Intron|RPGR_ENST00000338898.3_Intron|RPGR_ENST00000378505.2_Frame_Shift_Del_p.D943fs|RPGR_ENST00000342811.3_Intron|RPGR_ENST00000318842.7_Intron|TM4SF2_ENST00000465127.1_Intron			Q92834	RPGR_HUMAN	retinitis pigmentosa GTPase regulator						cilium assembly (GO:0042384)|eye photoreceptor cell development (GO:0042462)|intracellular protein transport (GO:0006886)|intraciliary transport (GO:0042073)|response to stimulus (GO:0050896)|visual perception (GO:0007601)	centrosome (GO:0005813)|ciliary basal body (GO:0036064)|Golgi apparatus (GO:0005794)|photoreceptor outer segment (GO:0001750)|sperm flagellum (GO:0036126)	guanyl-nucleotide exchange factor activity (GO:0005085)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(9)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	25						ccccttctccatcctcccctt	0.612																																																0													6	4	4					X																	38145423		1681	3119	4800	SO:0001627	intron_variant	6103			U57629	CCDS14246.1, CCDS35229.1	Xp11.4	2013-06-06	2004-02-13		ENSG00000156313	ENSG00000156313			10295	protein-coding gene	gene with protein product		312610	"retinitis pigmentosa 15", "cone dystrophy 1 (X-linked)"	CRD, RP3, RP15, COD1		8673101, 8817343	Standard	XM_005272633		Approved	CORDX1	uc004ded.1	Q92834	OTTHUMG00000021361	ENST00000339363.3:c.2520+923T>-	X.37:g.38145423delA		Somatic		WXS	Illumina HiSeq	Phase_I	B1ARN3|E9PE28|O00702|O00737|Q3KN84|Q8N5T6|Q93039|Q9HD29|Q9UMR1	Frame_Shift_Del	DEL	ENST00000339363.3	37																																																																																					0.612	RPGR-203	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_000328		-	38145423	A	-	38145423	6	5	631	0	1	1	0	1	0	0	0	0	13561	214	8	0		0	RPGR	23	38145423	Intron	DEL	A	TCGA-KL-8332-01A-11D-2310-10		38145423	117125137	62	38908										
MAGEC1	9947	broad.mit.edu	37	chrX	140994357	140994357	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	tccactttactgagtcttttCcagagttcccctgagagaac	7	12	1	4			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chrX:140994357C>A	ENST00000285879.4	+	4	1453	c.1167C>A	c.(1165-1167)ttC>ttA	p.F389L	MAGEC1_ENST00000406005.2_Intron	NM_005462.4	NP_005453.2	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	389										breast(3)|central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(22)|lung(60)|ovary(1)|pancreas(1)|prostate(1)|skin(7)|stomach(5)|upper_aerodigestive_tract(7)|urinary_tract(1)	127	Acute lymphoblastic leukemia(192;6.56e-05)					TGAGTCTTTTCCAGAGTTCCC	0.488										HNSCC(15;0.026)																																						0													103	112	109					X																	140994357		2203	4294	6497	SO:0001583	missense	9947			AF064589	CCDS35417.1	Xq26	2009-03-18			ENSG00000155495	ENSG00000155495			6812	protein-coding gene	gene with protein product	"cancer/testis antigen family 7, member 1"	300223				9485030, 9618514	Standard	NM_005462		Approved	MAGE-C1, CT7, MGC39366, CT7.1	uc004fbt.3	O60732	OTTHUMG00000022569	ENST00000285879.4:c.1167C>A	X.37:g.140994357C>A	ENSP00000285879:p.Phe389Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A0PK03|O75451|Q8TCV4	Missense_Mutation	SNP	ENST00000285879.4	37	CCDS35417.1	.	.	.	.	.	.	.	.	.	.	c	2.057	-0.416395	0.04766	.	.	ENSG00000155495	ENST00000285879	T	0.02085	4.46	.	.	.	.	.	.	.	.	T	0.01387	0.0045	N	0.08118	0	0.09310	N	0.999999	B	0.17667	0.023	B	0.09377	0.004	T	0.46555	-0.9183	8	0.87932	D	0	.	5.9409	0.19192	0.0:0.9994:0.0:6.0E-4	.	389	O60732	MAGC1_HUMAN	L	389	ENSP00000285879:F389L	ENSP00000285879:F389L	F	+	3	2	MAGEC1	140822023	0.064000	0.20934	0.054000	0.19295	0.054000	0.15201	0.203000	0.17315	0.148000	0.19059	0.150000	0.16122	TTC		0.488	MAGEC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058604.1	NM_005462		A	140994357	C	A	140994357	3	1	631	1	0	0	0	0	1	0	0	0	9187	854	30	4	1173	4	MAGEC1	23	140994357	Missense_Mutation	SNP	C	TCGA-KL-8332-01A-11D-2310-10	102848934	140994357	14276203	63	38909										
PNMA5	114824	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	152159197	152159197	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0327868852459016	2	1	0.584935064935065	2.43722943722944	0.332349468713105	1	1	0	cattaactccagaaaattggGaggacaccctcgctgatcca	8	12	0	2			TCGA-KL-8332-01A-11D-2310-10	TCGA-KL-8332-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c6d6f49e-6e95-4e41-8388-71f6fe017d80	1f3af48c-ba6b-4db5-ba11-75b7f50fae1e	g.chrX:152159197G>A	ENST00000439251.1	-	2	1384	c.946C>T	c.(946-948)Ccc>Tcc	p.P316S	PNMA5_ENST00000452693.1_Missense_Mutation_p.P316S|PNMA5_ENST00000361887.5_Missense_Mutation_p.P316S|PNMA5_ENST00000535214.1_Missense_Mutation_p.P316S	NM_001103150.1	NP_001096620.1	Q96PV4	PNMA5_HUMAN	paraneoplastic Ma antigen family member 5	316					positive regulation of apoptotic process (GO:0043065)					breast(2)|endometrium(3)|kidney(1)|large_intestine(6)|lung(6)|ovary(3)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	25	Acute lymphoblastic leukemia(192;6.56e-05)					AGAAAATTGGGAGGACACCCT	0.532																																																0													36	37	37					X																	152159197		2203	4300	6503	SO:0001583	missense	114824			AB067521	CCDS14718.1	Xq28	2012-02-09	2012-02-09		ENSG00000198883	ENSG00000198883		"Paraneoplastic Ma antigens"	18743	protein-coding gene	gene with protein product	"paraneoplastic antigen family 5"	300916	"paraneoplastic antigen like 5"			16214224	Standard	NM_052926		Approved	KIAA1934	uc004fgy.4	Q96PV4	OTTHUMG00000024184	ENST00000439251.1:c.946C>T	X.37:g.152159197G>A	ENSP00000388850:p.Pro316Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DI72|B7Z9Y9|Q495L5|Q8NET3	Missense_Mutation	SNP	ENST00000439251.1	37	CCDS14718.1	.	.	.	.	.	.	.	.	.	.	g	18.24	3.579632	0.65992	.	.	ENSG00000198883	ENST00000361887;ENST00000535214;ENST00000439251;ENST00000452693	T;T;T;T	0.42131	0.98;0.98;0.98;0.98	3.07	3.07	0.35406	.	.	.	.	.	T	0.64853	0.2636	M	0.84948	2.725	0.20074	N	0.999937	D	0.89917	1.0	D	0.97110	1.0	T	0.52019	-0.8631	9	0.72032	D	0.01	.	8.8853	0.35400	0.0:0.0:1.0:0.0	.	316	Q96PV4	PNMA5_HUMAN	S	316	ENSP00000354834:P316S;ENSP00000445775:P316S;ENSP00000388850:P316S;ENSP00000392342:P316S	ENSP00000354834:P316S	P	-	1	0	PNMA5	151909853	0.970000	0.33590	0.113000	0.21522	0.434000	0.31775	3.652000	0.54439	1.830000	0.53286	0.287000	0.19450	CCC		0.532	PNMA5-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060925.1	NM_052926		A	152159197	G	A	152159197	3	1	631	1	0	0	0	0	1	0	0	0	12163	1174	41	2	404	2	PNMA5	23	152159197	Missense_Mutation	SNP	G	TCGA-KL-8332-01A-11D-2310-10	11164840	152159197	3111363	64	38910										
AK2	204	mdanderson.org	37	chr1	33478931	33478931	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	gagtggggtggtttgagtgtGgtaggcttgcaggcggattt	20	3	0	1	rs80324279		TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr1:33478931G>C	ENST00000373449.2	-	6	612	c.571C>G	c.(571-573)Cac>Gac	p.H191D	AK2_ENST00000467905.1_Missense_Mutation_p.H191D|RP1-117O3.2_ENST00000427524.1_RNA|AK2_ENST00000354858.6_Missense_Mutation_p.H191D|AK2_ENST00000548033.1_Missense_Mutation_p.H149D|AK2_ENST00000480134.1_3'UTR|AK2_ENST00000491241.1_5'Flank	NM_001199199.1|NM_013411.4	NP_001186128.1|NP_037543.1			adenylate kinase 2											kidney(1)|large_intestine(2)|lung(4)|skin(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)				GTTTGAGTGTGGTAGGCTTGC	0.527																																																0													113	105	108					1																	33478931		2203	4300	6503	SO:0001583	missense	204			U84371	CCDS373.1, CCDS374.1	1p35.1	2014-09-17			ENSG00000004455	ENSG00000004455	2.7.4.3	"Adenylate kinases"	362	protein-coding gene	gene with protein product		103020				8843353, 6961883	Standard	NM_013411		Approved		uc001bwp.2	P54819	OTTHUMG00000004131	ENST00000373449.2:c.571C>G	1.37:g.33478931G>C	ENSP00000362548:p.His191Asp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000373449.2	37	CCDS373.1	575	0.2632783882783883	164	0.3333333333333333	100	0.27624309392265195	109	0.19055944055944055	202	0.26649076517150394	G	18.15	3.558980	0.65538	.	.	ENSG00000004455	ENST00000373449;ENST00000548033;ENST00000467905;ENST00000354858	T;T;T;T	0.76709	-1.04;-1.04;-1.04;-1.04	5.17	5.17	0.71159	.	0.000000	0.85682	D	0.000000	T	0.00012	0.0000	M	0.75264	2.295	0.80722	D	1	P;D;P;P	0.65815	0.625;0.995;0.856;0.625	B;P;P;B	0.60473	0.368;0.875;0.501;0.368	T	0.00021	-1.2347	10	0.87932	D	0	-12.0924	19.5674	0.95401	0.0:0.0:1.0:0.0	.	183;149;191;191	P54819-5;F8VY04;P54819;P54819-2	.;.;KAD2_HUMAN;.	D	191;149;191;191	ENSP00000362548:H191D;ENSP00000449003:H149D;ENSP00000447082:H191D;ENSP00000346921:H191D	ENSP00000346921:H191D	H	-	1	0	AK2	33251518	1.000000	0.71417	1.000000	0.80357	0.282000	0.26991	9.827000	0.99397	2.793000	0.96121	0.563000	0.77884	CAC		0.527	AK2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000011884.1	NM_001625		C	33478931	G	C	33478931	3	2	632	1	0	0	0	0	1	0	0	0	440	1348	47	4	161	4	AK2	1	33478931	Missense_Mutation	SNP	G	TCGA-KL-8333-01A-11D-2310-10		33478931	215771690	1	38911			1	82		2	2	53	G		9.742152e-05
AK2	204	mdanderson.org	37	chr1	33478983	33478983	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	tcattatcatctgatcgacgGatcaagggttccccggtgat	10	10	4	2	rs79403800		TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr1:33478983G>A	ENST00000373449.2	-	6	560	c.519C>T	c.(517-519)atC>atT	p.I173I	AK2_ENST00000467905.1_Silent_p.I173I|RP1-117O3.2_ENST00000427524.1_RNA|AK2_ENST00000354858.6_Silent_p.I173I|AK2_ENST00000548033.1_Silent_p.I131I|AK2_ENST00000480134.1_3'UTR|AK2_ENST00000491241.1_5'Flank	NM_001199199.1|NM_013411.4	NP_001186128.1|NP_037543.1			adenylate kinase 2											kidney(1)|large_intestine(2)|lung(4)|skin(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)				CTGATCGACGGATCAAGGGTT	0.483																																																0													58	55	56					1																	33478983		2203	4300	6503	SO:0001819	synonymous_variant	204			U84371	CCDS373.1, CCDS374.1	1p35.1	2014-09-17			ENSG00000004455	ENSG00000004455	2.7.4.3	"Adenylate kinases"	362	protein-coding gene	gene with protein product		103020				8843353, 6961883	Standard	NM_013411		Approved		uc001bwp.2	P54819	OTTHUMG00000004131	ENST00000373449.2:c.519C>T	1.37:g.33478983G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000373449.2	37	CCDS373.1																																																																																				0.483	AK2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000011884.1	NM_001625		A	33478983	G	A	33478983	2	1	632	1	0	0	0	0	0	0	0	1	440	1164	41	2		2	AK2	1	33478983	Silent	SNP	G	TCGA-KL-8333-01A-11D-2310-10	52	33478983	215771638	2	38912			1	82		2	2	53	G		9.742152e-05
MAP7D1	55700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	36643614	36643614	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	cactgcatcccccaaggggcGggttcggaggaaggaggagg	18	10	0	0			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr1:36643614G>A	ENST00000373151.2	+	9	1736	c.1520G>A	c.(1519-1521)cGg>cAg	p.R507Q	MAP7D1_ENST00000373150.4_Missense_Mutation_p.R475Q|MAP7D1_ENST00000373148.4_Missense_Mutation_p.R53Q|MAP7D1_ENST00000316156.4_Missense_Mutation_p.R470Q	NM_018067.3	NP_060537.3	Q3KQU3	MA7D1_HUMAN	MAP7 domain containing 1	507	Pro-rich.				microtubule cytoskeleton organization (GO:0000226)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|microtubule cytoskeleton (GO:0015630)				breast(2)|cervix(1)|endometrium(2)|large_intestine(3)|lung(3)|ovary(3)|prostate(3)|skin(1)|urinary_tract(1)	19		Myeloproliferative disorder(586;0.0393)				CCCAAGGGGCGGGTTCGGAGG	0.692																																																0													40	43	42					1																	36643614		2203	4300	6503	SO:0001583	missense	55700			AK096341	CCDS30673.1, CCDS65492.1, CCDS65493.1	1p34.3	2008-02-05	2007-02-08	2007-02-08	ENSG00000116871	ENSG00000116871			25514	protein-coding gene	gene with protein product			"proline arginine rich coiled coil 1", "arginine/proline rich coiled-coil 1"	PARCC1, RPRC1		10574461	Standard	XM_005271024		Approved	FLJ10350, FLJ39022	uc001bzz.3	Q3KQU3	OTTHUMG00000007714	ENST00000373151.2:c.1520G>A	1.37:g.36643614G>A	ENSP00000362244:p.Arg507Gln	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPS4|Q7L8J5|Q8N905|Q8TAK0|Q9HBQ2|Q9NW29|Q9ULN3	Missense_Mutation	SNP	ENST00000373151.2	37	CCDS30673.1	.	.	.	.	.	.	.	.	.	.	G	12.36	1.914600	0.33815	.	.	ENSG00000116871	ENST00000316156;ENST00000373150;ENST00000373151;ENST00000373148	T;T;T;T	0.52983	0.64;0.64;0.64;0.64	5.04	4.13	0.48395	.	0.415672	0.17946	N	0.156694	T	0.61837	0.2379	M	0.62723	1.935	0.33900	D	0.638424	B;D;B;B;D	0.76494	0.062;0.999;0.013;0.013;0.999	B;D;B;B;D	0.72625	0.01;0.978;0.005;0.003;0.978	T	0.70371	-0.4890	10	0.49607	T	0.09	-8.286	9.1503	0.36959	0.0989:0.0:0.9011:0.0	.	53;507;470;475;507	Q3KQU3-3;D3DPS3;Q3KQU3-2;Q3KQU3-4;Q3KQU3	.;.;.;.;MA7D1_HUMAN	Q	470;475;507;53	ENSP00000320228:R470Q;ENSP00000362243:R475Q;ENSP00000362244:R507Q;ENSP00000362241:R53Q	ENSP00000320228:R470Q	R	+	2	0	MAP7D1	36416201	1.000000	0.71417	0.875000	0.34327	0.002000	0.02628	4.004000	0.57068	1.344000	0.45657	0.655000	0.94253	CGG		0.692	MAP7D1-009	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000382095.1	NM_018067		A	36643614	G	A	36643614	3	1	632	1	0	0	0	0	1	0	0	0	9274	1116	39	1	1554	1	MAP7D1	1	36643614	Missense_Mutation	SNP	G	TCGA-KL-8333-01A-11D-2310-10	3164631	36643614	212607007	3	38913										
MYBPHL	343263	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr1	109840181	109840181	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ccccattccgcacactcacaCgcctggtgtccaaggcacag	8	18	1	0			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr1:109840181C>T	ENST00000357155.1	-	3	342	c.293G>A	c.(292-294)cGt>cAt	p.R98H	MYBPHL_ENST00000477962.1_Intron	NM_001010985.2|NM_001265613.1	NP_001010985.2|NP_001252542.1	A2RUH7	MBPHL_HUMAN	myosin binding protein H-like	98	Ig-like C2-type 1.									central_nervous_system(1)|large_intestine(3)|lung(5)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(2)	14		all_lung(203;0.00519)|all_epithelial(167;0.00575)|Lung NSC(277;0.00822)		Colorectal(144;0.0306)|Lung(183;0.0681)|COAD - Colon adenocarcinoma(174;0.117)|Epithelial(280;0.197)|all cancers(265;0.225)		CACACTCACACGCCTGGTGTC	0.587																																																0													89	80	83					1																	109840181		2203	4300	6503	SO:0001583	missense	343263			AK129834	CCDS30793.1	1p13	2013-02-11			ENSG00000221986	ENSG00000221986		"Myosin binding proteins", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	30434	protein-coding gene	gene with protein product							Standard	NM_001010985		Approved		uc001dxk.1	A2RUH7	OTTHUMG00000012002	ENST00000357155.1:c.293G>A	1.37:g.109840181C>T	ENSP00000349678:p.Arg98His	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZME5|Q5T2Z7	Missense_Mutation	SNP	ENST00000357155.1	37	CCDS30793.1	.	.	.	.	.	.	.	.	.	.	C	10.46	1.355964	0.24598	.	.	ENSG00000221986	ENST00000357155	T	0.52057	0.68	4.63	2.76	0.32466	Immunoglobulin subtype (1);Immunoglobulin I-set (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.41050	0.1142	L	0.48260	1.515	0.19300	N	0.999975	D;B	0.89917	1.0;0.013	D;B	0.69824	0.966;0.012	T	0.09930	-1.0652	9	0.44086	T	0.13	.	5.9414	0.19196	0.0:0.7081:0.0:0.2919	.	98;98	B7ZME5;A2RUH7	.;MBPHL_HUMAN	H	98	ENSP00000349678:R98H	ENSP00000349678:R98H	R	-	2	0	MYBPHL	109641704	0.000000	0.05858	0.940000	0.37924	0.691000	0.40173	0.219000	0.17641	1.320000	0.45209	0.655000	0.94253	CGT		0.587	MYBPHL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033197.1	NM_001010985		T	109840181	C	T	109840181	3	4	632	1	0	0	0	0	1	0	0	0	10022	536	19	1	795	1	MYBPHL	1	109840181	Missense_Mutation	SNP	C	TCGA-KL-8333-01A-11D-2310-10	73196567	109840181	139410440	4	38914										
USP21	27005	broad.mit.edu	37	chr1	161132827	161132827	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	gtccagttccctctccacccCgccgaggaggggctctgcta	11	17	2	0	rs148729808	byFrequency	TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr1:161132827C>T	ENST00000289865.8	+	6	1233	c.1012C>T	c.(1012-1014)Cgc>Tgc	p.R338C	USP21_ENST00000368001.1_Missense_Mutation_p.R338C|USP21_ENST00000368002.3_Missense_Mutation_p.R338C	NM_012475.4	NP_036607.3	Q9UK80	UBP21_HUMAN	ubiquitin specific peptidase 21	338	USP.				histone deubiquitination (GO:0016578)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	cysteine-type peptidase activity (GO:0008234)|metal ion binding (GO:0046872)|NEDD8-specific protease activity (GO:0019784)|transcription coactivator activity (GO:0003713)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			breast(1)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(10)|ovary(3)|prostate(3)	29	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			CTCTCCACCCCGCCGAGGAGG	0.557																																																0								C	CYS/ARG,CYS/ARG	3,4403	6.2+/-15.9	0,3,2200	82	89	86		1012,1012	0.5	0.3	1	dbSNP_134	86	6,8594	5.0+/-18.6	0,6,4294	yes	missense,missense	USP21	NM_001014443.2,NM_012475.4	180,180	0,9,6494	TT,TC,CC		0.0698,0.0681,0.0692	probably-damaging,probably-damaging	338/566,338/566	161132827	9,12997	2203	4300	6503	SO:0001583	missense	27005			AF177758	CCDS30920.1	1q22	2008-04-11	2005-08-08		ENSG00000143258	ENSG00000143258		"Ubiquitin-specific peptidases"	12620	protein-coding gene	gene with protein product		604729	"ubiquitin specific protease 21"	USP23		12838346, 10799498	Standard	XM_006711273		Approved	USP16	uc010pkd.2	Q9UK80	OTTHUMG00000033154	ENST00000289865.8:c.1012C>T	1.37:g.161132827C>T	ENSP00000289865:p.Arg338Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q59H60|Q5BKT5|Q5VTW9|Q5VTX0|Q9BTV1|Q9HBS2|Q9NYN4	Missense_Mutation	SNP	ENST00000289865.8	37	CCDS30920.1	.	.	.	.	.	.	.	.	.	.	C	11.09	1.535267	0.27475	6.81E-4	6.98E-4	ENSG00000143258	ENST00000368002;ENST00000289865;ENST00000368001	T;T;T	0.16324	2.52;2.52;2.35	4.72	0.51	0.16983	Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2 (2);	.	.	.	.	T	0.04815	0.0130	L	0.46670	1.46	0.33260	D	0.559581	B	0.02656	0.0	B	0.01281	0.0	T	0.17349	-1.0372	9	0.48119	T	0.1	.	3.6427	0.08173	0.1724:0.5373:0.0:0.2904	.	338	Q9UK80	UBP21_HUMAN	C	338	ENSP00000356981:R338C;ENSP00000289865:R338C;ENSP00000356980:R338C	ENSP00000289865:R338C	R	+	1	0	USP21	159399451	0.473000	0.25878	0.291000	0.24904	0.711000	0.40976	0.033000	0.13754	0.217000	0.20800	-0.463000	0.05309	CGC		0.557	USP21-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080801.1			T	161132827	C	T	161132827	3	4	632	1	0	0	0	0	1	0	0	0	17065	652	23	1	1030	1	USP21	1	161132827	Missense_Mutation	SNP	C	TCGA-KL-8333-01A-11D-2310-10	51292646	161132827	88117794	5	38915										
OR2M2	391194	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	248343636	248343636	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ctgaatgttttcttttggctGttatggcttatgaccgctat	9	7	1	2			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr1:248343636G>C	ENST00000359682.2	+	1	349	c.349G>C	c.(349-351)Gtt>Ctt	p.V117L		NM_001004688.1	NP_001004688.1	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M, member 2	117						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.V117I(1)		NS(1)|autonomic_ganglia(1)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(45)|ovary(3)|prostate(1)|skin(3)	70	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)			TCTTTTGGCTGTTATGGCTTA	0.403																																																1	Substitution - Missense(1)	lung(1)											206	220	215					1																	248343636		2203	4300	6503	SO:0001583	missense	391194			AF399616	CCDS31106.1	1q44	2012-08-09			ENSG00000198601	ENSG00000198601		"GPCR / Class A : Olfactory receptors"	8268	protein-coding gene	gene with protein product						12213199	Standard	NM_001004688		Approved	OST423, OR2M2Q	uc010pzf.2	Q96R28	OTTHUMG00000040460	ENST00000359682.2:c.349G>C	1.37:g.248343636G>C	ENSP00000352710:p.Val117Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A3KFT4	Missense_Mutation	SNP	ENST00000359682.2	37	CCDS31106.1	.	.	.	.	.	.	.	.	.	.	g	0.006	-2.063815	0.00386	.	.	ENSG00000198601	ENST00000359682	T	0.05139	3.49	2.03	-0.334	0.12666	GPCR, rhodopsin-like superfamily (1);	0.744519	0.10380	U	0.681646	T	0.04048	0.0113	L	0.38175	1.15	0.09310	N	1	B	0.17268	0.021	B	0.19666	0.026	T	0.47873	-0.9083	10	0.05833	T	0.94	.	3.9033	0.09171	0.2465:0.0:0.5662:0.1872	.	117	Q96R28	OR2M2_HUMAN	L	117	ENSP00000352710:V117L	ENSP00000352710:V117L	V	+	1	0	OR2M2	246410259	0.004000	0.15560	0.000000	0.03702	0.000000	0.00434	1.410000	0.34691	-0.220000	0.09988	-0.396000	0.06452	GTT		0.403	OR2M2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097356.2	NM_001004688		C	248343636	G	C	248343636	3	2	632	1	0	0	0	0	1	0	0	0	11017	1377	48	4	351	4	OR2M2	1	248343636	Missense_Mutation	SNP	G	TCGA-KL-8333-01A-11D-2310-10	87210809	248343636	906985	6	38916										
OR2M2	391194	broad.mit.edu;mdanderson.org	37	chr1	248343935	248343935	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	cctgttgcaatcatcattgcTtcctatgctcgagttattct	6	11	3	0			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr1:248343935T>C	ENST00000359682.2	+	1	648	c.648T>C	c.(646-648)gcT>gcC	p.A216A		NM_001004688.1	NP_001004688.1	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M, member 2	216						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|autonomic_ganglia(1)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(45)|ovary(3)|prostate(1)|skin(3)	70	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)			TCATCATTGCTTCCTATGCTC	0.438																																																0													224	207	213					1																	248343935		2203	4300	6503	SO:0001819	synonymous_variant	391194			AF399616	CCDS31106.1	1q44	2012-08-09			ENSG00000198601	ENSG00000198601		"GPCR / Class A : Olfactory receptors"	8268	protein-coding gene	gene with protein product						12213199	Standard	NM_001004688		Approved	OST423, OR2M2Q	uc010pzf.2	Q96R28	OTTHUMG00000040460	ENST00000359682.2:c.648T>C	1.37:g.248343935T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A3KFT4	Silent	SNP	ENST00000359682.2	37	CCDS31106.1																																																																																				0.438	OR2M2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097356.2	NM_001004688		C	248343935	T	C	248343935	2	2	632	1	0	0	0	0	0	0	0	1	11017	1596	56	3		3	OR2M2	1	248343935	Silent	SNP	T	TCGA-KL-8333-01A-11D-2310-10	299	248343935	906686	7	38917										
TRIM43	129868	mdanderson.org	37	chr2	96260889	96260889	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	gggaagaacagccttcctctGgagggtaagtatgagaccgt	14	8	1	2	rs199714127		TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr2:96260889G>T	ENST00000272395.2	+	3	639	c.503G>T	c.(502-504)tGg>tTg	p.W168L		NM_001164464.1|NM_138800.1	NP_001157936.1|NP_620155.1	Q96BQ3	TRI43_HUMAN	tripartite motif containing 43	168						intracellular (GO:0005622)	zinc ion binding (GO:0008270)			breast(1)|large_intestine(3)|lung(7)|ovary(1)	12						GCCTTCCTCTGGAGGGTAAGT	0.398																																																0													64	61	62					2																	96260889		2203	4299	6502	SO:0001583	missense	129868			BK000505	CCDS2015.1	2q11	2014-02-17	2011-01-25		ENSG00000144015	ENSG00000144015		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	19015	protein-coding gene	gene with protein product			"tripartite motif-containing 43"				Standard	NM_138800		Approved	TRIM43A	uc002suv.3	Q96BQ3	OTTHUMG00000130401	ENST00000272395.2:c.503G>T	2.37:g.96260889G>T	ENSP00000272395:p.Trp168Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q53TJ7	Missense_Mutation	SNP	ENST00000272395.2	37	CCDS2015.1	.	.	.	.	.	.	.	.	.	.	.	1.918	-0.448952	0.04572	.	.	ENSG00000144015	ENST00000272395	T	0.03124	4.04	0.629	0.629	0.17687	.	.	.	.	.	T	0.03915	0.0110	L	0.43152	1.355	0.09310	N	1	B	0.33022	0.394	B	0.34180	0.177	T	0.43065	-0.9414	8	0.30854	T	0.27	-0.0398	.	.	.	.	168	Q96BQ3	TRI43_HUMAN	L	168	ENSP00000272395:W168L	ENSP00000272395:W168L	W	+	2	0	TRIM43	95624616	0.235000	0.23794	0.009000	0.14445	0.010000	0.07245	0.666000	0.25097	0.639000	0.30564	0.375000	0.23000	TGG		0.398	TRIM43-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252784.1	NM_138800		T	96260889	G	T	96260889	3	4	632	1	0	0	0	0	1	0	0	0	16530	1357	47	4	509	4	TRIM43	2	96260889	Missense_Mutation	SNP	G	TCGA-KL-8333-01A-11D-2310-10		96260889	146938484	8	38918										
ABCB11	8647	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr2	169842725	169842725	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	atgagacaccacacgaatccAgtaaagaatcccatcactat	5	12	1	2			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr2:169842725A>C	ENST00000263817.6	-	10	1102	c.978T>G	c.(976-978)acT>acG	p.T326T		NM_003742.2	NP_003733.2	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP), member 11	326	ABC transmembrane type-1 1. {ECO:0000255|PROSITE-ProRule:PRU00441}.				bile acid and bile salt transport (GO:0015721)|bile acid biosynthetic process (GO:0006699)|bile acid metabolic process (GO:0008206)|canalicular bile acid transport (GO:0015722)|small molecule metabolic process (GO:0044281)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)|transport (GO:0006810)	apical part of cell (GO:0045177)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|intercellular canaliculus (GO:0046581)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|bile acid-exporting ATPase activity (GO:0015432)|canalicular bile acid transmembrane transporter activity (GO:0015126)|sodium-exporting ATPase activity, phosphorylative mechanism (GO:0008554)|transporter activity (GO:0005215)			breast(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(4)|kidney(2)|large_intestine(16)|lung(26)|ovary(3)|stomach(1)	57					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Chlorpromazine(DB00477)|Cimetidine(DB00501)|Clofazimine(DB00845)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dexamethasone(DB01234)|Digoxin(DB00390)|Doxorubicin(DB00997)|Ethinyl Estradiol(DB00977)|Fluorescein(DB00693)|Fusidic Acid(DB02703)|Glyburide(DB01016)|Ketoconazole(DB01026)|Novobiocin(DB01051)|Paclitaxel(DB01229)|Phenobarbital(DB01174)|Ponatinib(DB08901)|Pravastatin(DB00175)|Progesterone(DB00396)|Quinidine(DB00908)|Reserpine(DB00206)|Rifampicin(DB01045)|Rosuvastatin(DB01098)|Tamoxifen(DB00675)|Ursodeoxycholic acid(DB01586)|Verapamil(DB00661)|Vinblastine(DB00570)|Vincristine(DB00541)	ACACGAATCCAGTAAAGAATC	0.443																																																0													155	147	150					2																	169842725		1914	4128	6042	SO:0001819	synonymous_variant	8647			AF091582	CCDS46444.1	2q24	2012-03-14			ENSG00000073734	ENSG00000073734		"ATP binding cassette transporters / subfamily B"	42	protein-coding gene	gene with protein product	"ABC member 16, MDR/TAP subfamily"	603201	"progressive familial intrahepatic cholestasis 2", "bile salt export pump"	BSEP, PFIC2		9806540	Standard	NM_003742		Approved	ABC16, SPGP, PFIC-2, PGY4	uc002ueo.1	O95342	OTTHUMG00000154039	ENST00000263817.6:c.978T>G	2.37:g.169842725A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q53TL2|Q9UNB2	Silent	SNP	ENST00000263817.6	37	CCDS46444.1																																																																																				0.443	ABCB11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333616.2	NM_003742		C	169842725	A	C	169842725	2	2	632	1	0	0	0	0	0	0	0	1	42	175	7	5		5	ABCB11	2	169842725	Silent	SNP	A	TCGA-KL-8333-01A-11D-2310-10	73581836	169842725	73356648	9	38919										
PARD3B	117583	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr2	206037069	206037069	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	aacatccgagggatgatccaGttggtgattctgaggaggcc	14	8	1	3			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr2:206037069G>A	ENST00000406610.2	+	12	1962	c.1755G>A	c.(1753-1755)caG>caA	p.Q585Q	PARD3B_ENST00000358768.2_Silent_p.Q523Q|PARD3B_ENST00000462231.1_Silent_p.Q585Q|PARD3B_ENST00000351153.1_Silent_p.Q585Q|PARD3B_ENST00000349953.3_Silent_p.Q585Q	NM_057177.6|NM_152526.5|NM_205863.3	NP_476518.4|NP_689739.4|NP_995585.2	Q8TEW8	PAR3L_HUMAN	par-3 family cell polarity regulator beta	585	PDZ 3. {ECO:0000255|PROSITE- ProRule:PRU00143}.				cell cycle (GO:0007049)|cell division (GO:0051301)	membrane (GO:0016020)|tight junction (GO:0005923)				breast(1)|endometrium(9)|kidney(2)|large_intestine(6)|liver(4)|lung(33)|ovary(1)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)	65		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		GGATGATCCAGTTGGTGATTC	0.488																																																0													105	108	107					2																	206037069		1971	4171	6142	SO:0001819	synonymous_variant	117583			AB053321	CCDS42804.1, CCDS42805.1, CCDS42806.1	2q33.3	2013-08-28	2013-08-28	2006-09-28	ENSG00000116117	ENSG00000116117			14446	protein-coding gene	gene with protein product			"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 19", "par-3 partitioning defective 3 homolog B (C. elegans)"	ALS2CR19		11586298, 12459187	Standard	NM_057177		Approved	Par3L, PAR3beta	uc002vap.2	Q8TEW8	OTTHUMG00000154562	ENST00000406610.2:c.1755G>A	2.37:g.206037069G>A		Somatic		WXS	Illumina HiSeq	Phase_I	E9PE87|Q8IUC7|Q8IUC9|Q96DK9|Q96N09|Q96NX6|Q96NX7|Q96Q29	Silent	SNP	ENST00000406610.2	37																																																																																					0.488	PARD3B-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000335992.1	NM_057177		A	206037069	G	A	206037069	2	1	632	1	0	0	0	0	0	0	0	1	11451	1020	36	2		2	PARD3B	2	206037069	Silent	SNP	G	TCGA-KL-8333-01A-11D-2310-10	36194344	206037069	37162304	10	38920										
GBX2	2637	broad.mit.edu;bcgsc.ca	37	chr2	237074936	237074936	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	cctccagcgcgtggcccgggTcttcctccttgtgagctgcc	12	17	1	1			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr2:237074936T>C	ENST00000306318.4	-	2	1065	c.668A>G	c.(667-669)gAc>gGc	p.D223G	AC079135.1_ENST00000483218.1_RNA|GBX2_ENST00000551105.1_3'UTR|AC079135.1_ENST00000415226.1_RNA|GBX2_ENST00000465889.1_5'UTR	NM_001485.2	NP_001476.2	P52951	GBX2_HUMAN	gastrulation brain homeobox 2	223				QAAHKEEDPGHALEETPPSSGA -> PGSSQGGRPGPRGGG DPAEQRR (in Ref. 6). {ECO:0000305}.	autonomic nervous system development (GO:0048483)|axon guidance (GO:0007411)|cerebellar granule cell precursor proliferation (GO:0021930)|cerebellum development (GO:0021549)|forebrain neuron development (GO:0021884)|inner ear morphogenesis (GO:0042472)|midbrain-hindbrain boundary morphogenesis (GO:0021555)|nervous system development (GO:0007399)|neural crest cell migration (GO:0001755)|patterning of blood vessels (GO:0001569)|rhombomere 2 development (GO:0021568)|thalamus development (GO:0021794)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(1)|kidney(1)|large_intestine(1)|lung(4)	7		Breast(86;0.00235)|Renal(207;0.00339)|all_hematologic(139;0.00357)|all_lung(227;0.0616)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|Lung NSC(271;0.179)		Epithelial(121;4.5e-25)|OV - Ovarian serous cystadenocarcinoma(60;5.16e-11)|BRCA - Breast invasive adenocarcinoma(100;3.4e-05)|Lung(119;0.00195)|LUSC - Lung squamous cell carcinoma(224;0.00471)		GTGGCCCGGGTCTTCCTCCTT	0.677																																																0													50	50	50					2																	237074936		2203	4300	6503	SO:0001583	missense	2637			AF118452	CCDS2515.1	2q37.2	2012-03-09	2005-12-22		ENSG00000168505	ENSG00000168505		"Homeoboxes / ANTP class : HOXL subclass"	4186	protein-coding gene	gene with protein product		601135	"gastrulation brain homeo box 2"			9346236, 8838315	Standard	XM_005246071		Approved		uc002vvw.1	P52951	OTTHUMG00000133294	ENST00000306318.4:c.668A>G	2.37:g.237074936T>C	ENSP00000302251:p.Asp223Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPH7|O43833|Q53RX5|Q9Y5Y1	Missense_Mutation	SNP	ENST00000306318.4	37	CCDS2515.1	.	.	.	.	.	.	.	.	.	.	T	12.43	1.934558	0.34189	.	.	ENSG00000168505	ENST00000306318	D	0.92048	-2.96	4.29	4.29	0.51040	Homeodomain-like (1);	0.054903	0.64402	D	0.000001	D	0.83008	0.5161	N	0.17082	0.46	0.80722	D	1	B	0.06786	0.001	B	0.06405	0.002	T	0.76610	-0.2896	10	0.25751	T	0.34	-14.1119	8.9765	0.35939	0.0:0.0888:0.0:0.9112	.	223	P52951	GBX2_HUMAN	G	223	ENSP00000302251:D223G	ENSP00000302251:D223G	D	-	2	0	GBX2	236739675	1.000000	0.71417	0.993000	0.49108	0.749000	0.42624	4.165000	0.58196	1.582000	0.49881	0.379000	0.24179	GAC		0.677	GBX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257078.3	NM_001485		C	237074936	T	C	237074936	3	2	632	1	0	0	0	0	1	0	0	0	6288	1667	58	3	382	3	GBX2	2	237074936	Missense_Mutation	SNP	T	TCGA-KL-8333-01A-11D-2310-10	31037867	237074936	6124437	11	38921										
RBM15B	29890	ucsc.edu;bcgsc.ca	37	chr3	51429336	51429336	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	gttcaagcgcttcggcgagaTcagcctccgcctgtcgcaca	11	15	2	1			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr3:51429336T>C	ENST00000323686.4	+	1	606	c.506T>C	c.(505-507)aTc>aCc	p.I169T		NM_013286.4	NP_037418.3	Q8NDT2	RB15B_HUMAN	RNA binding motif protein 15B	169	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				mRNA processing (GO:0006397)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|regulation of transcription, DNA-templated (GO:0006355)|RNA splicing (GO:0008380)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			endometrium(4)|large_intestine(5)|lung(3)	12				BRCA - Breast invasive adenocarcinoma(193;0.000224)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		TTCGGCGAGATCAGCCTCCGC	0.677																																																0													37	44	42					3																	51429336		2122	4155	6277	SO:0001583	missense	29890			AL831838	CCDS33764.1	3p21.1	2013-02-12			ENSG00000179837	ENSG00000259956		"RNA binding motif (RRM) containing"	24303	protein-coding gene	gene with protein product		612602				16129689	Standard	NM_013286		Approved	HUMAGCGB, OTT3	uc003dbd.3	Q8NDT2	OTTHUMG00000156896	ENST00000323686.4:c.506T>C	3.37:g.51429336T>C	ENSP00000313890:p.Ile169Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A4QPG7|Q6QE19|Q9BV96	Missense_Mutation	SNP	ENST00000323686.4	37	CCDS33764.1	.	.	.	.	.	.	.	.	.	.	T	16.05	3.012455	0.54468	.	.	ENSG00000179837	ENST00000323686	T	0.15139	2.45	3.88	3.88	0.44766	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (2);	.	.	.	.	T	0.12732	0.0309	L	0.29908	0.895	0.39091	D	0.961106	P	0.47409	0.895	B	0.38842	0.283	T	0.08659	-1.0711	9	0.87932	D	0	.	11.9967	0.53208	0.0:0.0:0.0:1.0	.	169	Q8NDT2	RB15B_HUMAN	T	169	ENSP00000313890:I169T	ENSP00000313890:I169T	I	+	2	0	RBM15B	51404376	1.000000	0.71417	0.996000	0.52242	0.980000	0.70556	4.271000	0.58902	1.540000	0.49301	0.379000	0.24179	ATC		0.677	RBM15B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346489.1	NM_013286		C	51429336	T	C	51429336	3	2	632	1	0	0	0	0	1	0	0	0	13130	1435	50	3	508	3	RBM15B	3	51429336	Missense_Mutation	SNP	T	TCGA-KL-8333-01A-11D-2310-10		51429336	146593094	12	38922										
MCF2L2	23101	hgsc.bcm.edu	37	chr3	183145747	183145747	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ctcctggggaggcatctcttCttttaagcaagacagcattt	9	10	2	1	rs372591631	byFrequency	TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr3:183145747C>T	ENST00000328913.3	-	1	316	c.19G>A	c.(19-21)Gaa>Aaa	p.E7K	MCF2L2_ENST00000447025.2_Missense_Mutation_p.E7K|MCF2L2_ENST00000414362.2_Missense_Mutation_p.E7K|MCF2L2_ENST00000473233.1_Missense_Mutation_p.E7K	NM_015078.2	NP_055893	Q86YR7	MF2L2_HUMAN	MCF.2 cell line derived transforming sequence-like 2	7							Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(2)|endometrium(5)|kidney(4)|large_intestine(22)|lung(25)|ovary(3)|prostate(4)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	72	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			GGCATCTCTTCTTTTAAGCAA	0.438																																																0													90	96	94					3																	183145747		2203	4300	6503	SO:0001583	missense	23101			AB020668	CCDS3243.1	3q27	2012-07-24			ENSG00000053524	ENSG00000053524		"Rho guanine nucleotide exchange factors"	30319	protein-coding gene	gene with protein product							Standard	NM_015078		Approved	KIAA0861, ARHGEF22	uc003fli.1	Q86YR7	OTTHUMG00000158388	ENST00000328913.3:c.19G>A	3.37:g.183145747C>T	ENSP00000328118:p.Glu7Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O94942|Q6P2B8|Q6ZVJ5|Q8N318	Missense_Mutation	SNP	ENST00000328913.3	37	CCDS3243.1	.	.	.	.	.	.	.	.	.	.	C	16.92	3.255402	0.59321	.	.	ENSG00000053524	ENST00000328913;ENST00000473233;ENST00000447025;ENST00000414362	T;T;T;T	0.06294	4.42;4.5;3.63;3.32	5.31	4.42	0.53409	.	0.187638	0.33217	N	0.005153	T	0.07773	0.0195	N	0.24115	0.695	0.27149	N	0.961459	P;P	0.51791	0.939;0.948	P;P	0.50314	0.637;0.588	T	0.09207	-1.0685	10	0.72032	D	0.01	.	9.0986	0.36653	0.0:0.8969:0.0:0.1031	.	7;7	Q86YR7-2;Q86YR7	.;MF2L2_HUMAN	K	7	ENSP00000328118:E7K;ENSP00000420070:E7K;ENSP00000388190:E7K;ENSP00000414131:E7K	ENSP00000328118:E7K	E	-	1	0	MCF2L2	184628441	1.000000	0.71417	0.772000	0.31596	0.835000	0.47333	2.586000	0.46119	1.201000	0.43203	0.655000	0.94253	GAA		0.438	MCF2L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350868.1	NM_015078		T	183145747	C	T	183145747	3	4	632	1	0	0	0	0	1	0	0	0	9387	922	32	2	3445	2	MCF2L2	3	183145747	Missense_Mutation	SNP	C	TCGA-KL-8333-01A-11D-2310-10	131716411	183145747	14876683	13	38923										
LETM1	3954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr4	1821161	1821162	+	Missense_Mutation	DNP	GC	GC	AG													0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	tgcagcttagagcaggcatcGctgaggatgtcgatttcctc							TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr4:1821161_1821162GC>AG	ENST00000302787.2	-	11	1942_1943	c.1646_1647GC>CT	c.(1645-1647)aGC>aCT	p.S549T		NM_012318.2	NP_036450.1	O95202	LETM1_HUMAN	leucine zipper-EF-hand containing transmembrane protein 1	549					cristae formation (GO:0042407)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	calcium ion binding (GO:0005509)			breast(3)|central_nervous_system(2)|large_intestine(3)|lung(3)|prostate(1)|urinary_tract(1)	13			all cancers(2;0.00756)|OV - Ovarian serous cystadenocarcinoma(23;0.00989)|Epithelial(3;0.0141)			AGCAGGCATCGCTGAGGATGTC	0.535																																																0																																										SO:0001583	missense	3954			AF061025	CCDS3355.1	4p16.3	2013-01-10			ENSG00000168924	ENSG00000168924		"EF-hand domain containing"	6556	protein-coding gene	gene with protein product	"Mdm38 homolog (yeast)"	604407				10486213	Standard	NM_012318		Approved		uc003gdv.3	O95202	OTTHUMG00000121149	ENST00000302787.2:c.1646_1647delinsAG	4.37:g.1821161_1821162delinsAG	ENSP00000305653:p.Ser549Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DED2|Q9UF65	Missense_Mutation	DNP	ENST00000302787.2	37	CCDS3355.1																																																																																				0.535	LETM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241634.1			AG	1821162	GC	AG	1821161	3	1	632	1	0	0	0	0	1	0	0	0	8741	1078	38	1	588	1	LETM1	4	1821161	Missense_Mutation	DNP	GC	TCGA-KL-8333-01A-11D-2310-10		1821161	189333115	14	38924	322	2								
LETM1	3954	bcgsc.ca	37	chr4	1821162	1821162	+	Missense_Mutation	SNP	C	C	G													0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	gcagcttagagcaggcatcgCtgaggatgtcgatttcctcc							TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr4:1821162C>G	ENST00000302787.2	-	11	1942	c.1646G>C	c.(1645-1647)aGc>aCc	p.S549T		NM_012318.2	NP_036450.1	O95202	LETM1_HUMAN	leucine zipper-EF-hand containing transmembrane protein 1	549					cristae formation (GO:0042407)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	calcium ion binding (GO:0005509)			breast(3)|central_nervous_system(2)|large_intestine(3)|lung(3)|prostate(1)|urinary_tract(1)	13			all cancers(2;0.00756)|OV - Ovarian serous cystadenocarcinoma(23;0.00989)|Epithelial(3;0.0141)			GCAGGCATCGCTGAGGATGTC	0.532																																																0													129	109	116					4																	1821162		2203	4300	6503	SO:0001583	missense	3954			AF061025	CCDS3355.1	4p16.3	2013-01-10			ENSG00000168924	ENSG00000168924		"EF-hand domain containing"	6556	protein-coding gene	gene with protein product	"Mdm38 homolog (yeast)"	604407				10486213	Standard	NM_012318		Approved		uc003gdv.3	O95202	OTTHUMG00000121149	ENST00000302787.2:c.1646G>C	4.37:g.1821162C>G	ENSP00000305653:p.Ser549Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DED2|Q9UF65	Missense_Mutation	SNP	ENST00000302787.2	37	CCDS3355.1	.	.	.	.	.	.	.	.	.	.	c	16.49	3.137957	0.56936	.	.	ENSG00000168924	ENST00000302787	.	.	.	5.19	5.19	0.71726	.	0.000000	0.85682	D	0.000000	T	0.57125	0.2032	M	0.70275	2.135	0.50813	D	0.99989	P	0.46395	0.877	B	0.40741	0.339	T	0.64136	-0.6478	9	0.56958	D	0.05	-30.019	12.7556	0.57333	0.0:0.9198:0.0:0.0802	.	549	O95202	LETM1_HUMAN	T	549	.	ENSP00000305653:S549T	S	-	2	0	LETM1	1790960	1.000000	0.71417	0.782000	0.31804	0.716000	0.41182	5.032000	0.64140	2.407000	0.81776	0.655000	0.94253	AGC		0.532	LETM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241634.1			G	1821162	C	G	1821162	3	3	632	1	0	0	0	0	1	0	0	0	8741	797	28	4	589	4	LETM1	4	1821162	Missense_Mutation	SNP	C	TCGA-KL-8333-01A-11D-2310-10	1	1821162	189333114	15	38925	322	2								
OTOP1	133060	broad.mit.edu	37	chr4	4228459	4228459	+	Frame_Shift_Del	DEL	G	G	-													0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ggcgcgcacaccgccccgccGgggggccggggattccgggg					rs553397205		TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr4:4228459delG	ENST00000296358.4	-	1	157	c.133delC	c.(133-135)cggfs	p.R46fs		NM_177998.1	NP_819056.1	Q7RTM1	OTOP1_HUMAN	otopetrin 1	46					biomineral tissue development (GO:0031214)|detection of gravity (GO:0009590)|inner ear morphogenesis (GO:0042472)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)				NS(1)|breast(1)|central_nervous_system(2)|endometrium(1)|kidney(2)|large_intestine(3)|liver(4)|lung(14)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	34				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		ccgccccgccggggggccggg	0.736																																																0													3	4	4					4																	4228459		1958	3835	5793	SO:0001589	frameshift_variant	133060			BK000653	CCDS3372.1	4p16.2	2008-02-05			ENSG00000163982	ENSG00000163982			19656	protein-coding gene	gene with protein product		607806				12651873	Standard	NM_177998		Approved		uc003ghp.1	Q7RTM1	OTTHUMG00000090301	ENST00000296358.4:c.133delC	4.37:g.4228459delG	ENSP00000296358:p.Arg46fs	Somatic		WXS	Illumina HiSeq	Phase_I	A1L476	Frame_Shift_Del	DEL	ENST00000296358.4	37	CCDS3372.1																																																																																				0.736	OTOP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206661.2	NM_177998		-	4228459	G	-	4228459	7	5	632	1	0	1	0	1	0	0	0	0	11312	1115	39	0	1729	0	OTOP1	4	4228459	Frame_Shift_Del	DEL	G	TCGA-KL-8333-01A-11D-2310-10	2407297	4228459	186925817	16	38926										
PDE8B	8622	broad.mit.edu	37	chr5	76714238	76714238	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	cttccagctcacggtcaaggAcaccaaatgcaacattttca	6	13	3	0			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr5:76714238A>G	ENST00000264917.5	+	18	2141	c.2096A>G	c.(2095-2097)gAc>gGc	p.D699G	PDE8B_ENST00000333194.4_Missense_Mutation_p.D644G|PDE8B_ENST00000342343.4_Missense_Mutation_p.D679G|PDE8B_ENST00000505283.1_Missense_Mutation_p.D164G|PDE8B_ENST00000346042.3_Missense_Mutation_p.D602G|PDE8B_ENST00000340978.3_Missense_Mutation_p.D652G	NM_003719.3	NP_003710.1	O95263	PDE8B_HUMAN	phosphodiesterase 8B	699	Catalytic. {ECO:0000250}.				cAMP catabolic process (GO:0006198)|cyclic nucleotide metabolic process (GO:0009187)|negative regulation of insulin secretion (GO:0046676)|negative regulation of steroid hormone biosynthetic process (GO:0090032)|phosphorelay signal transduction system (GO:0000160)	cytosol (GO:0005829)	3',5'-cyclic-AMP phosphodiesterase activity (GO:0004115)|3',5'-cyclic-nucleotide phosphodiesterase activity (GO:0004114)|metal ion binding (GO:0046872)|signal transducer activity (GO:0004871)		GMDS/PDE8B(2)	NS(1)|autonomic_ganglia(2)|breast(1)|central_nervous_system(1)|endometrium(4)|large_intestine(10)|lung(15)|ovary(1)|prostate(2)|skin(3)	40		all_lung(232;0.00043)|Lung NSC(167;0.00114)|Ovarian(174;0.0107)|Prostate(461;0.0605)		OV - Ovarian serous cystadenocarcinoma(54;2.21e-49)|Epithelial(54;5.82e-43)|all cancers(79;4.06e-38)	Caffeine(DB00201)|Ketotifen(DB00920)	ACGGTCAAGGACACCAAATGC	0.483																																																0													83	68	73					5																	76714238		2203	4300	6503	SO:0001583	missense	8622			AF079529	CCDS4037.1, CCDS34190.1, CCDS34191.1, CCDS34192.1, CCDS34193.1	5q14.1	2008-05-15			ENSG00000113231	ENSG00000113231	3.1.4.17	"Phosphodiesterases"	8794	protein-coding gene	gene with protein product		603390				9784418	Standard	NM_003719		Approved		uc003kfa.3	O95263	OTTHUMG00000102170	ENST00000264917.5:c.2096A>G	5.37:g.76714238A>G	ENSP00000264917:p.Asp699Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5J7V7|Q86XK8|Q8IUJ7|Q8IUJ8|Q8IUJ9|Q8IUK0|Q8N3T2	Missense_Mutation	SNP	ENST00000264917.5	37	CCDS4037.1	.	.	.	.	.	.	.	.	.	.	A	18.53	3.644819	0.67358	.	.	ENSG00000113231	ENST00000340978;ENST00000346042;ENST00000264917;ENST00000342343;ENST00000333194;ENST00000505283	D;D;D;D;D;D	0.82081	-1.57;-1.57;-1.57;-1.57;-1.57;-1.57	5.75	5.75	0.90469	Metal-dependent phosphohydrolase, HD domain (1);5&apos (2);-cyclic nucleotide phosphodiesterase, catalytic domain (2);3&apos (2);	0.000000	0.85682	D	0.000000	D	0.85691	0.5755	M	0.73430	2.235	0.80722	D	1	B;B;B;B;B	0.31274	0.086;0.057;0.317;0.206;0.071	B;B;B;B;B	0.38500	0.275;0.105;0.233;0.169;0.26	D	0.85748	0.1341	10	0.66056	D	0.02	.	16.0519	0.80769	1.0:0.0:0.0:0.0	.	602;652;644;679;699	O95263-2;O95263-6;O95263-3;O95263-4;O95263	.;.;.;.;PDE8B_HUMAN	G	652;602;699;679;644;164	ENSP00000345446:D652G;ENSP00000330428:D602G;ENSP00000264917:D699G;ENSP00000345646:D679G;ENSP00000331336:D644G;ENSP00000423461:D164G	ENSP00000264917:D699G	D	+	2	0	PDE8B	76749994	1.000000	0.71417	1.000000	0.80357	0.830000	0.47004	9.339000	0.96797	2.196000	0.70406	0.533000	0.62120	GAC		0.483	PDE8B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000220015.3	NM_003719		G	76714238	A	G	76714238	3	3	632	1	0	0	0	0	1	0	0	0	11661	275	10	3	2166	3	PDE8B	5	76714238	Missense_Mutation	SNP	A	TCGA-KL-8333-01A-11D-2310-10		76714238	104201022	17	38927										
TFAP2A	7020	ucsc.edu	37	chr6	10410153	10410153	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ccgggacctcctcgatggcgTgaggtaaggagtggatcgag	17	9	0	1			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr6:10410153T>C	ENST00000482890.1	-	3	813	c.461A>G	c.(460-462)cAc>cGc	p.H154R	TFAP2A_ENST00000497266.1_5'UTR|TFAP2A_ENST00000379604.2_Missense_Mutation_p.H154R|TFAP2A_ENST00000379613.3_Missense_Mutation_p.H156R|TFAP2A-AS1_ENST00000420777.1_RNA|TFAP2A_ENST00000379608.3_Missense_Mutation_p.H148R|TFAP2A_ENST00000319516.4_Missense_Mutation_p.H150R			P05549	AP2A_HUMAN	transcription factor AP-2 alpha (activating enhancer binding protein 2 alpha)	154					anterior neuropore closure (GO:0021506)|basement membrane organization (GO:0071711)|bone morphogenesis (GO:0060349)|cellular response to iron ion (GO:0071281)|cornea development in camera-type eye (GO:0061303)|embryonic body morphogenesis (GO:0010172)|embryonic cranial skeleton morphogenesis (GO:0048701)|embryonic forelimb morphogenesis (GO:0035115)|embryonic pattern specification (GO:0009880)|epidermis morphogenesis (GO:0048730)|eyelid development in camera-type eye (GO:0061029)|face morphogenesis (GO:0060325)|forebrain neuron development (GO:0021884)|inner ear morphogenesis (GO:0042472)|keratinocyte development (GO:0003334)|kidney development (GO:0001822)|lens induction in camera-type eye (GO:0060235)|metanephric nephron development (GO:0072210)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription by competitive promoter binding (GO:0010944)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neural crest cell development (GO:0014032)|oculomotor nerve formation (GO:0021623)|optic cup structural organization (GO:0003409)|optic vesicle morphogenesis (GO:0003404)|outflow tract morphogenesis (GO:0003151)|palate development (GO:0060021)|positive regulation of bone mineralization (GO:0030501)|positive regulation of cell migration (GO:0030335)|positive regulation of gene expression (GO:0010628)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of tooth mineralization (GO:0070172)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cell differentiation (GO:0045595)|regulation of neuron differentiation (GO:0045664)|retina layer formation (GO:0010842)|sensory perception of sound (GO:0007605)|sympathetic nervous system development (GO:0048485)|transcription from RNA polymerase II promoter (GO:0006366)|trigeminal nerve development (GO:0021559)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|core promoter proximal region sequence-specific DNA binding (GO:0000987)|protein dimerization activity (GO:0046983)|protein homodimerization activity (GO:0042803)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity (GO:0000982)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II transcription coactivator activity (GO:0001105)|RNA polymerase II transcription corepressor activity (GO:0001106)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|transcription coactivator activity (GO:0003713)|transcription regulatory region DNA binding (GO:0044212)|transcription regulatory region sequence-specific DNA binding (GO:0000976)			breast(1)|endometrium(1)|large_intestine(5)|lung(5)|ovary(1)	13	Breast(50;0.0427)|Ovarian(93;0.0991)	all_hematologic(90;0.107)				CTCGATGGCGTGAGGTAAGGA	0.627																																																0													12	11	11					6																	10410153		2133	4187	6320	SO:0001583	missense	7020			X52611	CCDS4510.1, CCDS34337.1, CCDS43422.1	6p24.3	2013-09-19	2001-11-28		ENSG00000137203	ENSG00000137203			11742	protein-coding gene	gene with protein product		107580	"transcription factor AP-2 alpha (activating enhancer-binding protein 2 alpha)"	TFAP2, AP2TF		1916817, 3063603	Standard	NM_001032280		Approved	AP-2	uc003myr.3	P05549	OTTHUMG00000014235	ENST00000482890.1:c.461A>G	6.37:g.10410153T>C	ENSP00000418541:p.His154Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q13777|Q5TAV5|Q8N1C6	Missense_Mutation	SNP	ENST00000482890.1	37	CCDS4510.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	16.63|16.63	3.176652|3.176652	0.57692|0.57692	.|.	.|.	ENSG00000137203|ENSG00000137203	ENST00000379613;ENST00000379604;ENST00000319516;ENST00000379608;ENST00000482890;ENST00000466073|ENST00000475264	T;T;T;T;T;T|.	0.79940|.	-1.32;-1.32;-1.32;-1.32;-1.32;-1.32|.	5.06|5.06	5.06|5.06	0.68205|0.68205	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.70343|0.70343	0.3213|0.3213	M|M	0.82716|0.82716	2.605|2.605	0.80722|0.80722	D|D	1|1	D;P;P;B;B;B;B|.	0.76494|.	0.999;0.483;0.825;0.444;0.22;0.22;0.194|.	D;B;B;B;B;B;B|.	0.78314|.	0.991;0.057;0.255;0.114;0.039;0.024;0.184|.	T|T	0.74241|0.74241	-0.3729|-0.3729	10|5	0.56958|.	D|.	0.05|.	-11.6671|-11.6671	13.6286|13.6286	0.62181|0.62181	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	156;154;154;156;150;154;148|.	Q96SH1;C1K3N0;P05549-2;Q96SH0;Q5TAV5;P05549;Q8N1C6|.	.;.;.;.;.;AP2A_HUMAN;.|.	R|A	156;154;150;148;154;154|59	ENSP00000368933:H156R;ENSP00000368924:H154R;ENSP00000316516:H150R;ENSP00000368928:H148R;ENSP00000418541:H154R;ENSP00000417495:H154R|.	ENSP00000316516:H150R|.	H|T	-|-	2|1	0|0	TFAP2A|TFAP2A	10518139|10518139	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.978000|0.978000	0.69477|0.69477	3.800000|3.800000	0.55537|0.55537	1.892000|1.892000	0.54788|0.54788	0.482000|0.482000	0.46254|0.46254	CAC|ACG		0.627	TFAP2A-007	KNOWN	not_organism_supported|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000353619.2	NM_003220		C	10410153	T	C	10410153	3	2	632	1	0	0	0	0	1	0	0	0	15799	1696	59	3	876	3	TFAP2A	6	10410153	Missense_Mutation	SNP	T	TCGA-KL-8333-01A-11D-2310-10		10410153	160704914	18	38928										
GMPR	2766	ucsc.edu	37	chr6	16247121	16247121	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	gaaattcaaagcagacctacTcagggattcccatcatcgtg	8	11	3	1			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr6:16247121T>C	ENST00000259727.4	+	2	250	c.136T>C	c.(136-138)Tca>Cca	p.S46P		NM_006877.3	NP_006868.3	P36959	GMPR1_HUMAN	guanosine monophosphate reductase	46					nucleobase-containing small molecule metabolic process (GO:0055086)|nucleotide metabolic process (GO:0009117)|purine nucleobase metabolic process (GO:0006144)|purine-containing compound salvage (GO:0043101)|response to cold (GO:0009409)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|GMP reductase complex (GO:1902560)	GMP reductase activity (GO:0003920)|metal ion binding (GO:0046872)			NS(1)|breast(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(5)|ovary(1)	20	Breast(50;0.0427)|Ovarian(93;0.103)	all_hematologic(90;0.0895)				GCAGACCTACTCAGGGATTCC	0.473																																																0													141	128	132					6																	16247121		2203	4300	6503	SO:0001583	missense	2766				CCDS4537.1	6p23	2009-07-10			ENSG00000137198	ENSG00000137198	1.7.1.7		4376	protein-coding gene	gene with protein product		139265				2194676	Standard	NM_006877		Approved		uc003nbs.3	P36959	OTTHUMG00000014302	ENST00000259727.4:c.136T>C	6.37:g.16247121T>C	ENSP00000259727:p.Ser46Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q96HQ6	Missense_Mutation	SNP	ENST00000259727.4	37	CCDS4537.1	.	.	.	.	.	.	.	.	.	.	T	16.80	3.222554	0.58668	.	.	ENSG00000137198	ENST00000259727	T	0.78924	-1.22	5.37	2.77	0.32553	Aldolase-type TIM barrel (1);IMP dehydrogenase/GMP reductase (1);	0.298946	0.34435	N	0.003976	T	0.59985	0.2234	M	0.72894	2.215	0.43750	D	0.996253	B	0.09022	0.002	B	0.08055	0.003	T	0.60100	-0.7329	10	0.32370	T	0.25	-19.9677	9.3895	0.38363	0.5115:0.0:0.0:0.4885	.	46	P36959	GMPR1_HUMAN	P	46	ENSP00000259727:S46P	ENSP00000259727:S46P	S	+	1	0	GMPR	16355100	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	4.275000	0.58927	0.955000	0.37878	0.459000	0.35465	TCA		0.473	GMPR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039942.2			C	16247121	T	C	16247121	3	2	632	1	0	0	0	0	1	0	0	0	6503	1551	54	3	142	3	GMPR	6	16247121	Missense_Mutation	SNP	T	TCGA-KL-8333-01A-11D-2310-10	5836968	16247121	154867946	19	38929										
LRRC1	55227	ucsc.edu	37	chr6	53660086	53660086	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	catccccctgtggcggtgcaAccgtcatgtggagagcatcg	13	13	1	1	rs201594887		TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr6:53660086A>G	ENST00000370888.1	+	1	309	c.32A>G	c.(31-33)aAc>aGc	p.N11S	LRRC1_ENST00000370882.1_Missense_Mutation_p.N11S|RP13-476E20.1_ENST00000429053.1_RNA	NM_018214.4	NP_060684.4	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1	11						cytoplasm (GO:0005737)|membrane (GO:0016020)				cervix(1)|endometrium(3)|large_intestine(5)|lung(6)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	20	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		TGGCGGTGCAACCGTCATGTG	0.706																																																0													39	34	36					6																	53660086		2203	4300	6503	SO:0001583	missense	55227			AF332199	CCDS4953.2	6p12.2	2014-07-30	2003-11-19		ENSG00000137269	ENSG00000137269			14307	protein-coding gene	gene with protein product		608195	"leucine-rich repeat-containing 1"				Standard	NM_018214		Approved	dJ523E19.1, LANO, FLJ10775, FLJ11834	uc003pcd.1	Q9BTT6	OTTHUMG00000014885	ENST00000370888.1:c.32A>G	6.37:g.53660086A>G	ENSP00000359925:p.Asn11Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TGN3|Q9HAC0|Q9NVF1	Missense_Mutation	SNP	ENST00000370888.1	37	CCDS4953.2	.	.	.	.	.	.	.	.	.	.	A	22.4	4.280390	0.80692	.	.	ENSG00000137269	ENST00000370888;ENST00000370882	T;T	0.50813	3.66;0.73	4.83	4.83	0.62350	.	0.000000	0.85682	D	0.000000	T	0.55337	0.1914	M	0.72118	2.19	0.58432	D	0.999999	D	0.63880	0.993	D	0.68192	0.956	T	0.56159	-0.8025	10	0.33940	T	0.23	.	13.2157	0.59859	1.0:0.0:0.0:0.0	.	11	Q9BTT6	LRRC1_HUMAN	S	11	ENSP00000359925:N11S;ENSP00000359919:N11S	ENSP00000359919:N11S	N	+	2	0	LRRC1	53768045	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	8.065000	0.89485	1.780000	0.52325	0.460000	0.39030	AAC		0.706	LRRC1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040970.2	NM_025168		G	53660086	A	G	53660086	3	3	632	1	0	0	0	0	1	0	0	0	8973	43	2	3	34	3	LRRC1	6	53660086	Missense_Mutation	SNP	A	TCGA-KL-8333-01A-11D-2310-10	37412965	53660086	117454981	20	38930										
KIAA1009	22832	broad.mit.edu	37	chr6	84884491	84884491	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	tgattcaatttgaagagttcTttttcctgttgtttctttag	7	5	3	3			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr6:84884491T>C	ENST00000403245.3	-	15	2094	c.1980A>G	c.(1978-1980)aaA>aaG	p.K660K	KIAA1009_ENST00000461137.1_5'UTR|KIAA1009_ENST00000257766.4_Silent_p.K584K	NM_014895.2	NP_055710.2														breast(2)|central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(10)|lung(17)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	43		all_cancers(76;1.5e-06)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00258)		BRCA - Breast invasive adenocarcinoma(397;0.089)		TGAAGAGTTCTTTTTCCTGTT	0.303																																																0													63	57	59					6																	84884491		2202	4296	6498	SO:0001819	synonymous_variant	22832																														ENST00000403245.3:c.1980A>G	6.37:g.84884491T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000403245.3	37	CCDS34494.2																																																																																				0.303	KIAA1009-004	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317315.1			C	84884491	T	C	84884491	2	2	632	1	0	0	0	0	0	0	0	1	8210	1606	56	3		3	KIAA1009	6	84884491	Silent	SNP	T	TCGA-KL-8333-01A-11D-2310-10	31224405	84884491	86230576	21	38931										
TAGAP	117289	ucsc.edu	37	chr6	159456931	159456931	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	tggctacatcgtcgcacgagAcagtcccgcttattcctctg	9	14	1	1			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr6:159456931A>G	ENST00000367066.3	-	10	2455	c.2124T>C	c.(2122-2124)tgT>tgC	p.C708C	RP1-111C20.4_ENST00000606466.1_RNA|RP1-111C20.4_ENST00000607796.1_RNA|TAGAP_ENST00000326965.6_Silent_p.C530C|RP1-111C20.4_ENST00000606470.1_RNA|RP1-111C20.4_ENST00000607391.1_RNA	NM_001278733.1|NM_054114.3	NP_001265662.1|NP_473455.2	Q8N103	TAGAP_HUMAN	T-cell activation RhoGTPase activating protein	708					regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	guanyl-nucleotide exchange factor activity (GO:0005085)			NS(1)|autonomic_ganglia(1)|endometrium(3)|large_intestine(8)|lung(7)|ovary(2)|skin(1)	23		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.16e-16)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		GTCGCACGAGACAGTCCCGCT	0.577																																																0													71	65	67					6																	159456931		2203	4300	6503	SO:0001819	synonymous_variant	117289			AF385429	CCDS5261.1, CCDS5262.1, CCDS5263.1	6q25.3	2011-09-07	2008-03-25		ENSG00000164691	ENSG00000164691		"Rho GTPase activating proteins"	15669	protein-coding gene	gene with protein product		609667	"T-cell activation GTPase activating protein"			16375659, 18311140, 18356936	Standard	NM_152133		Approved	FLJ32631, IDDM21, ARHGAP47	uc003qrz.3	Q8N103	OTTHUMG00000015923	ENST00000367066.3:c.2124T>C	6.37:g.159456931A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKM8|Q8NI40|Q96KZ2|Q96QA2	Silent	SNP	ENST00000367066.3	37	CCDS5261.1																																																																																				0.577	TAGAP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042890.1	NM_054114		G	159456931	A	G	159456931	2	3	632	1	0	0	0	0	0	0	0	1	15549	273	10	3		3	TAGAP	6	159456931	Silent	SNP	A	TCGA-KL-8333-01A-11D-2310-10	74572440	159456931	11658136	22	38932										
STK31	56164	broad.mit.edu	37	chr7	23825129	23825129	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ctccttacaatgagcttggaAcgagatcttcttgatgctga	9	9	2	4			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr7:23825129A>G	ENST00000355870.3	+	18	2300	c.2181A>G	c.(2179-2181)gaA>gaG	p.E727E	STK31_ENST00000405627.3_3'UTR|STK31_ENST00000428484.1_Silent_p.E704E|STK31_ENST00000354639.3_Silent_p.E704E|STK31_ENST00000433467.2_Silent_p.E727E	NM_031414.4	NP_113602.2	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31	727	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.					acrosomal vesicle (GO:0001669)	ATP binding (GO:0005524)|hydrolase activity, acting on ester bonds (GO:0016788)|nucleic acid binding (GO:0003676)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(12)|lung(31)|ovary(2)|prostate(1)|skin(7)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	67						TGAGCTTGGAACGAGATCTTC	0.403																																																0													198	188	191					7																	23825129		2203	4300	6503	SO:0001819	synonymous_variant	56164			AF285599	CCDS5386.1, CCDS43556.1, CCDS59049.1	7p15.3	2014-04-23			ENSG00000196335	ENSG00000196335		"Tudor domain containing"	11407	protein-coding gene	gene with protein product		605790				11279525	Standard	NM_031414		Approved	TDRD8, SgK396	uc003sws.5	Q9BXU1	OTTHUMG00000023053	ENST00000355870.3:c.2181A>G	7.37:g.23825129A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ06|B7WPP5|C9J4F9|Q6PCD3|Q9BXH8	Silent	SNP	ENST00000355870.3	37	CCDS5386.1																																																																																				0.403	STK31-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214036.2	NM_031414		G	23825129	A	G	23825129	2	3	632	1	0	0	0	0	0	0	0	1	15308	40	2	3		3	STK31	7	23825129	Silent	SNP	A	TCGA-KL-8333-01A-11D-2310-10		23825129	135313534	23	38933										
LIMK1	3984	broad.mit.edu	37	chr7	73535525	73535526	+	Frame_Shift_Ins	INS	-	-	C													0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ctccgcatgcacctggccggINSccacctgccactgggcccac							TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr7:73535525_73535526insC	ENST00000336180.2	+	16	1889_1890	c.1838_1839insC	c.(1837-1842)ggccacfs	p.H614fs	LIMK1_ENST00000418310.1_Frame_Shift_Ins_p.H644fs|LIMK1_ENST00000538333.3_Frame_Shift_Ins_p.H580fs	NM_002314.3	NP_002305.1	P53667	LIMK1_HUMAN	LIM domain kinase 1	614					actin cytoskeleton organization (GO:0030036)|axon guidance (GO:0007411)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|negative regulation of ubiquitin-protein transferase activity (GO:0051444)|nervous system development (GO:0007399)|positive regulation of actin filament bundle assembly (GO:0032233)|positive regulation of axon extension (GO:0045773)|positive regulation of stress fiber assembly (GO:0051496)|protein phosphorylation (GO:0006468)|Rho protein signal transduction (GO:0007266)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|neuron projection (GO:0043005)|nucleus (GO:0005634)	ATP binding (GO:0005524)|heat shock protein binding (GO:0031072)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|ovary(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)	21		Lung NSC(55;0.137)			Dabrafenib(DB08912)	CACCTGGCCGGCCACCTGCCAC	0.683																																																0																																										SO:0001589	frameshift_variant	3984			D26309	CCDS5563.1, CCDS56491.1	7q11.23	2005-01-21			ENSG00000106683	ENSG00000106683			6613	protein-coding gene	gene with protein product		601329				8673124, 8812460	Standard	NM_002314		Approved	LIMK	uc003uaa.2	P53667	OTTHUMG00000023448	ENST00000336180.2:c.1840dupC	7.37:g.73535527_73535527dupC	ENSP00000336740:p.His614fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6I8|D3DXF4|D3DXF5|O15283|Q15820|Q15821|Q75MU3|Q9Y5Q1	Frame_Shift_Ins	INS	ENST00000336180.2	37	CCDS5563.1																																																																																				0.683	LIMK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252335.2	NM_002314		C	73535526	-	C	73535525	7	5	632	1	0	1	1	0	0	0	0	0	8808	1203	42	0	1900	0	LIMK1	7	73535525	Frame_Shift_Ins	INS	-	TCGA-KL-8333-01A-11D-2310-10	49710396	73535525	85603138	24	38934										
MLL3	58508	bcgsc.ca	37	chr7	151962265	151962265	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	taagaggtctcccgggctgtCgcacactgcacagtttgcat	11	12	1	1	rs201834857		TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr7:151962265C>T	ENST00000262189.6	-	8	1260	c.1042G>A	c.(1042-1044)Gac>Aac	p.D348N	KMT2C_ENST00000355193.2_Missense_Mutation_p.D348N	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	348					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)	p.D348N(2)									CCCGGGCTGTCGCACACTGCA	0.383																																																2	Substitution - Missense(2)	skin(2)											112	101	104					7																	151962265		2203	4296	6499	SO:0001583	missense	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.1042G>A	7.37:g.151962265C>T	ENSP00000262189:p.Asp348Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Missense_Mutation	SNP	ENST00000262189.6	37	CCDS5931.1	.	.	.	.	.	.	.	.	.	.	C	15.09	2.730606	0.48939	.	.	ENSG00000055609	ENST00000262189;ENST00000355193	D;D	0.98807	-5.15;-5.15	4.65	4.65	0.58169	Zinc finger, PHD-finger (1);Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, RING-type (2);Zinc finger, PHD-type (1);Protein kinase C-like, phorbol ester/diacylglycerol binding (1);Zinc finger, FYVE/PHD-type (1);	0.000000	0.43919	U	0.000512	D	0.98516	0.9505	L	0.47716	1.5	0.80722	D	1	D	0.89917	1.0	D	0.77557	0.99	D	0.98479	1.0604	10	0.23302	T	0.38	.	17.9157	0.88950	0.0:1.0:0.0:0.0	.	348	Q8NEZ4	MLL3_HUMAN	N	348	ENSP00000262189:D348N;ENSP00000347325:D348N	ENSP00000262189:D348N	D	-	1	0	MLL3	151593198	1.000000	0.71417	1.000000	0.80357	0.048000	0.14542	7.772000	0.85439	2.271000	0.75665	0.557000	0.71058	GAC		0.383	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			T	151962265	C	T	151962265	3	4	632	1	0	0	0	0	1	0	0	0	9629	884	31	1	13901	1	MLL3	7	151962265	Missense_Mutation	SNP	C	TCGA-KL-8333-01A-11D-2310-10	78426740	151962265	7176398	25	38935										
PHYHIP	9796	broad.mit.edu	37	chr8	22079280	22079280	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ggggagtcctgcgggggctgGcccgtgttgaactccgtgtt	18	10	0	1			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr8:22079280G>T	ENST00000321613.3	-	6	1035	c.579C>A	c.(577-579)ggC>ggA	p.G193G	PHYHIP_ENST00000454243.2_Silent_p.G193G	NM_001099335.1	NP_001092805.1	Q92561	PHYIP_HUMAN	phytanoyl-CoA 2-hydroxylase interacting protein	193										endometrium(1)|kidney(1)|large_intestine(4)|lung(3)|upper_aerodigestive_tract(1)	10				Colorectal(74;0.0152)|COAD - Colon adenocarcinoma(73;0.0629)		GCGGGGGCTGGCCCGTGTTGA	0.622																																																0													16	22	20					8																	22079280		1977	4149	6126	SO:0001819	synonymous_variant	9796			D87463	CCDS43723.1	8p21.2	2010-02-17	2006-01-09		ENSG00000168490	ENSG00000168490			16865	protein-coding gene	gene with protein product		608511	"phytanoyl-CoA hydroxylase interacting protein", "DYRK1A interacting protein 3"	DYRK1AP3		9039502, 10686344	Standard	NM_014759		Approved	KIAA0273, PAHX-AP	uc003xbj.4	Q92561	OTTHUMG00000163776	ENST00000321613.3:c.579C>A	8.37:g.22079280G>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DSR1|Q8N4I9	Silent	SNP	ENST00000321613.3	37	CCDS43723.1																																																																																				0.622	PHYHIP-002	PUTATIVE	alternative_5_UTR|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000375388.1	NM_014759		T	22079280	G	T	22079280	2	4	632	1	0	0	0	0	0	0	0	1	11873	1190	42	4		4	PHYHIP	8	22079280	Silent	SNP	G	TCGA-KL-8333-01A-11D-2310-10		22079280	124284742	26	38936										
ABRA	137735	broad.mit.edu	37	chr8	107773293	107773293	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	gtagcgtaatcacaacatggTcatctcggccttgccatagc	9	12	3	0			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr8:107773293T>C	ENST00000311955.3	-	2	1172	c.1118A>G	c.(1117-1119)gAc>gGc	p.D373G		NM_139166.4	NP_631905.1			actin-binding Rho activating protein											breast(1)|kidney(4)|large_intestine(7)|lung(11)|ovary(2)|prostate(2)	27			OV - Ovarian serous cystadenocarcinoma(57;3.83e-09)			CACAACATGGTCATCTCGGCC	0.418																																																0													208	191	197					8																	107773293		2203	4300	6503	SO:0001583	missense	137735			AF503617	CCDS6305.1	8q23.1	2012-02-06			ENSG00000174429	ENSG00000174429			30655	protein-coding gene	gene with protein product	"striated muscle activator of Rho-dependent signaling"	609747				11983702	Standard	NM_139166		Approved	STARS	uc003ymm.4	Q8N0Z2	OTTHUMG00000164809	ENST00000311955.3:c.1118A>G	8.37:g.107773293T>C	ENSP00000311436:p.Asp373Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000311955.3	37	CCDS6305.1	.	.	.	.	.	.	.	.	.	.	T	26.7	4.766493	0.90020	.	.	ENSG00000174429	ENST00000311955	.	.	.	5.76	5.76	0.90799	.	0.000000	0.85682	D	0.000000	D	0.86053	0.5841	M	0.92459	3.31	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.89491	0.3757	9	0.87932	D	0	-0.5928	16.0752	0.80965	0.0:0.0:0.0:1.0	.	373	Q8N0Z2	ABRA_HUMAN	G	373	.	ENSP00000311436:D373G	D	-	2	0	ABRA	107842469	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	8.036000	0.88901	2.180000	0.69256	0.528000	0.53228	GAC		0.418	ABRA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380416.1	NM_139166		C	107773293	T	C	107773293	3	2	632	1	0	0	0	0	1	0	0	0	100	1667	58	3	31	3	ABRA	8	107773293	Missense_Mutation	SNP	T	TCGA-KL-8333-01A-11D-2310-10	85694013	107773293	38590729	27	38937										
FER1L6	654463	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr8	125074107	125074107	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ctgcaggaactgcctgagaaCgagcttctgcacccgccact	10	15	1	1			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr8:125074107C>T	ENST00000522917.1	+	25	3368	c.3162C>T	c.(3160-3162)aaC>aaT	p.N1054N	FER1L6-AS2_ENST00000601180.1_RNA|FER1L6-AS2_ENST00000520031.1_RNA|FER1L6_ENST00000399018.1_Silent_p.N1054N	NM_001039112.2	NP_001034201.2	Q2WGJ9	FR1L6_HUMAN	fer-1-like family member 6	1054	C2 4. {ECO:0000255|PROSITE- ProRule:PRU00041}.					integral component of membrane (GO:0016021)				NS(2)|breast(3)|central_nervous_system(2)|endometrium(9)|haematopoietic_and_lymphoid_tissue(3)|kidney(6)|large_intestine(18)|liver(1)|lung(49)|ovary(5)|prostate(3)|skin(8)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(1)	118	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TGCCTGAGAACGAGCTTCTGC	0.572																																																0													71	73	72					8																	125074107		1999	4196	6195	SO:0001819	synonymous_variant	654463			AB196633	CCDS43767.1	8q24.13	2014-06-27	2014-06-27		ENSG00000214814	ENSG00000214814			28065	protein-coding gene	gene with protein product			"fer-1-like 6 (C. elegans)"				Standard	NM_001039112		Approved	C8ORFK23	uc003yqw.3	Q2WGJ9	OTTHUMG00000164998	ENST00000522917.1:c.3162C>T	8.37:g.125074107C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000522917.1	37	CCDS43767.1																																																																																				0.572	FER1L6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381400.1	NM_001039112		T	125074107	C	T	125074107	2	4	632	1	0	0	0	0	0	0	0	1	5822	535	19	1		1	FER1L6	8	125074107	Silent	SNP	C	TCGA-KL-8333-01A-11D-2310-10	17300814	125074107	21289915	28	38938										
NUP214	8021	bcgsc.ca	37	chr9	134074387	134074387	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	cagcaacctctgggttcagcTtttgccaagcttcaggtaag	10	11	3	0			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr9:134074387T>C	ENST00000359428.5	+	29	5650	c.5506T>C	c.(5506-5508)Ttt>Ctt	p.F1836L	NUP214_ENST00000451030.1_Missense_Mutation_p.F1837L|NUP214_ENST00000483497.2_Missense_Mutation_p.F662L|NUP214_ENST00000411637.2_Missense_Mutation_p.F1826L			P35658	NU214_HUMAN	nucleoporin 214kDa	1836	11 X 3 AA approximate repeats.|11 X 5 AA approximate repeats.|18 X 4 AA approximate repeats.|Pro/Ser/Thr-rich.				carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|gene expression (GO:0010467)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA export from nucleus (GO:0006406)|mRNA metabolic process (GO:0016071)|protein export from nucleus (GO:0006611)|protein import into nucleus (GO:0006606)|regulation of cell cycle (GO:0051726)|regulation of glucose transport (GO:0010827)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytosol (GO:0005829)|focal adhesion (GO:0005925)|intracellular membrane-bounded organelle (GO:0043231)|nuclear pore (GO:0005643)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleocytoplasmic transporter activity (GO:0005487)|transporter activity (GO:0005215)			NS(1)|breast(9)|central_nervous_system(3)|endometrium(13)|kidney(2)|large_intestine(9)|liver(2)|lung(29)|ovary(2)|prostate(3)|skin(7)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	86	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		TGGGTTCAGCTTTTGCCAAGC	0.468			T	"DEK, SET, ABL1"	"AML, T-ALL"																																Pancreas(4;24 48 25510 30394 32571)		Dom	yes		9	9q34.1	8021	nucleoporin 214kDa (CAN)		L	0													50	57	54					9																	134074387		2203	4300	6503	SO:0001583	missense	8021			X64228	CCDS6940.1	9q34	2008-07-21	2002-08-29		ENSG00000126883	ENSG00000126883			8064	protein-coding gene	gene with protein product	"nuclear pore complex protein Nup214", "CAN protein, putative oncogene"	114350	"nucleoporin 214kD (CAIN)"			8108440, 2370860	Standard	NM_005085		Approved	CAIN, CAN, D9S46E, N214	uc004cag.3	P35658	OTTHUMG00000020816	ENST00000359428.5:c.5506T>C	9.37:g.134074387T>C	ENSP00000352400:p.Phe1836Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFQ0|Q15010|Q3KQZ0|Q5JUP7|Q75R47|Q86XD3	Missense_Mutation	SNP	ENST00000359428.5	37	CCDS6940.1	.	.	.	.	.	.	.	.	.	.	T	27.4	4.831854	0.91036	.	.	ENSG00000126883	ENST00000359428;ENST00000411637;ENST00000451030;ENST00000541375;ENST00000540899;ENST00000438605;ENST00000483497	T;T;T;T	0.62788	-0.0;0.04;-0.0;0.17	6.07	6.07	0.98685	.	0.000000	0.45361	D	0.000373	T	0.62539	0.2436	N	0.08118	0	0.80722	D	1	D;D;D;D;D	0.61697	0.99;0.99;0.99;0.99;0.99	D;D;D;D;D	0.72982	0.979;0.979;0.979;0.979;0.979	T	0.68334	-0.5436	10	0.44086	T	0.13	-22.7254	15.4756	0.75478	0.0:0.0:0.0:1.0	.	662;1265;1430;1826;1836	B7ZAV2;F5H131;Q5JUP9;P35658-4;P35658	.;.;.;.;NU214_HUMAN	L	1836;1826;1837;1815;1430;1265;662	ENSP00000352400:F1836L;ENSP00000396576:F1826L;ENSP00000405014:F1837L;ENSP00000436793:F662L	ENSP00000352400:F1836L	F	+	1	0	NUP214	133064208	1.000000	0.71417	1.000000	0.80357	0.838000	0.47535	6.810000	0.75216	2.326000	0.78906	0.533000	0.62120	TTT		0.468	NUP214-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000054694.2	NM_005085		C	134074387	T	C	134074387	3	2	632	1	0	0	0	0	1	0	0	0	10769	1609	56	3	5620	3	NUP214	9	134074387	Missense_Mutation	SNP	T	TCGA-KL-8333-01A-11D-2310-10		134074387	7139044	29	38939										
SH3PXD2A	9644	mdanderson.org;bcgsc.ca	37	chr10	105362429	105362429	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	cctggaccttctggtaggcgCtgcatgtcatgtacgaggtg	14	10	2	0			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr10:105362429C>T	ENST00000369774.4	-	15	2822	c.2546G>A	c.(2545-2547)aGc>aAc	p.S849N	SH3PXD2A_ENST00000427662.2_Intron|SH3PXD2A_ENST00000355946.2_Missense_Mutation_p.S821N|SH3PXD2A_ENST00000538130.1_Missense_Mutation_p.S684N|SH3PXD2A_ENST00000540321.1_Missense_Mutation_p.S716N|SH3PXD2A_ENST00000315994.6_5'UTR			Q5TCZ1	SPD2A_HUMAN	SH3 and PX domains 2A	849	SH3 4. {ECO:0000255|PROSITE- ProRule:PRU00192}.				superoxide metabolic process (GO:0006801)	cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|podosome (GO:0002102)	phosphatidylinositol binding (GO:0035091)	p.S821T(1)		breast(1)|central_nervous_system(1)|endometrium(6)|kidney(1)|large_intestine(8)|lung(18)|ovary(1)|skin(1)|urinary_tract(1)	38		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)		CTGGTAGGCGCTGCATGTCAT	0.612																																																1	Substitution - Missense(1)	lung(1)											70	69	69					10																	105362429		2203	4300	6503	SO:0001583	missense	9644			AB007878	CCDS31278.1	10q25.1	2006-02-13	2006-02-13	2006-02-13	ENSG00000107957	ENSG00000107957			23664	protein-coding gene	gene with protein product	"five SH3 domains"		"SH3 multiple domains 1"	SH3MD1		9687503	Standard	XM_005270297		Approved	FISH, KIAA0418	uc001kxj.1	Q5TCZ1	OTTHUMG00000018997	ENST00000369774.4:c.2546G>A	10.37:g.105362429C>T	ENSP00000358789:p.Ser849Asn	Somatic		WXS	Illumina HiSeq	Phase_I	D3DR98|O43302|Q5TCZ2|Q5TDQ8	Missense_Mutation	SNP	ENST00000369774.4	37		.	.	.	.	.	.	.	.	.	.	C	8.102	0.776833	0.16120	.	.	ENSG00000107957	ENST00000369774;ENST00000355946;ENST00000315994;ENST00000536035;ENST00000540321;ENST00000538130	T;T;T;T	0.29397	1.57;1.57;1.57;1.57	4.83	3.8	0.43715	Src homology-3 domain (2);	0.323099	0.37715	N	0.001971	T	0.22551	0.0544	L	0.38838	1.175	0.09310	N	0.999992	B;B;B;B	0.32302	0.201;0.309;0.363;0.167	B;B;B;B	0.37601	0.197;0.197;0.254;0.124	T	0.09574	-1.0668	10	0.25106	T	0.35	-19.0441	5.7598	0.18192	0.0:0.7468:0.0:0.2532	.	849;698;694;821	Q5TCZ1;B7Z9L8;B7Z3B0;Q5TCZ1-3	SPD2A_HUMAN;.;.;.	N	849;821;656;764;716;684	ENSP00000358789:S849N;ENSP00000348215:S821N;ENSP00000443663:S716N;ENSP00000441514:S684N	ENSP00000318135:S656N	S	-	2	0	SH3PXD2A	105352419	1.000000	0.71417	0.045000	0.18777	0.479000	0.33129	4.107000	0.57811	2.255000	0.74692	0.555000	0.69702	AGC		0.612	SH3PXD2A-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000050178.1	NM_014631		T	105362429	C	T	105362429	3	4	632	1	0	0	0	0	1	0	0	0	14269	797	28	2	859	2	SH3PXD2A	10	105362429	Missense_Mutation	SNP	C	TCGA-KL-8333-01A-11D-2310-10		105362429	30172318	30	38940										
PRKCDBP	112464	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	6341681	6341681	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ccggcgcctcgggcacaggcCcccgctccaacgcactctcc	10	22	1	0			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr11:6341681C>T	ENST00000303927.3	-	1	196	c.26G>A	c.(25-27)gGg>gAg	p.G9E	PRKCDBP_ENST00000530979.1_Missense_Mutation_p.G9E	NM_145040.2	NP_659477.2	Q969G5	PRDBP_HUMAN	protein kinase C, delta binding protein	9					cortical actin cytoskeleton organization (GO:0030866)|negative regulation of fermentation (GO:1901003)|negative regulation of protein kinase B signaling (GO:0051898)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)	caveola (GO:0005901)|protein complex (GO:0043234)				large_intestine(3)|lung(4)|prostate(1)|upper_aerodigestive_tract(1)	9		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GGGCACAGGCCCCCGCTCCAA	0.701																																																0													10	11	11					11																	6341681		2131	4149	6280	SO:0001583	missense	112464			AF339881	CCDS7762.1	11p15.4	2011-04-20			ENSG00000170955	ENSG00000170955			9400	protein-coding gene	gene with protein product	"sdr-related gene product that binds to c-kinase"					9054438	Standard	NM_145040		Approved	SRBC, HSRBC, MGC20400, cavin-3, CAVIN3	uc001mcu.1	Q969G5	OTTHUMG00000133378	ENST00000303927.3:c.26G>A	11.37:g.6341681C>T	ENSP00000307292:p.Gly9Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000303927.3	37	CCDS7762.1	.	.	.	.	.	.	.	.	.	.	C	21.1	4.102811	0.76983	.	.	ENSG00000170955	ENST00000303927;ENST00000530979	T;T	0.55413	0.52;1.54	5.03	3.07	0.35406	.	0.516908	0.19338	N	0.116703	T	0.29491	0.0735	N	0.08118	0	0.28687	N	0.904783	B	0.16802	0.019	B	0.23419	0.046	T	0.11842	-1.0571	10	0.62326	D	0.03	-17.3016	6.1205	0.20150	0.0:0.7081:0.1916:0.1004	.	9	Q969G5	PRDBP_HUMAN	E	9	ENSP00000307292:G9E;ENSP00000432047:G9E	ENSP00000307292:G9E	G	-	2	0	PRKCDBP	6298257	0.452000	0.25713	0.994000	0.49952	0.910000	0.53928	0.800000	0.27042	2.613000	0.88420	0.655000	0.94253	GGG		0.701	PRKCDBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257228.2	NM_145040		T	6341681	C	T	6341681	3	4	632	1	0	0	0	0	1	0	0	0	12520	623	22	2	767	2	PRKCDBP	11	6341681	Missense_Mutation	SNP	C	TCGA-KL-8333-01A-11D-2310-10		6341681	128664835	31	38941										
CAPN5	726	broad.mit.edu	37	chr11	76804733	76804733	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	tcgccttctccgcagggcatCtgcgaggacccccgcctctt	10	18	3	0			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr11:76804733C>T	ENST00000278559.3	+	3	360	c.171C>T	c.(169-171)atC>atT	p.I57I	CAPN5_ENST00000531028.1_Intron|CAPN5_ENST00000529629.1_Silent_p.I57I|CAPN5_ENST00000456580.2_Silent_p.I97I	NM_004055.4	NP_004046.2	O15484	CAN5_HUMAN	calpain 5	57	Calpain catalytic. {ECO:0000255|PROSITE- ProRule:PRU00239}.				proteolysis (GO:0006508)|signal transduction (GO:0007165)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)	calcium-dependent cysteine-type endopeptidase activity (GO:0004198)			NS(1)|breast(2)|endometrium(2)|large_intestine(7)|lung(17)|urinary_tract(1)	30						CGCAGGGCATCTGCGAGGACC	0.637																																																0													38	30	33					11																	76804733		2196	4289	6485	SO:0001819	synonymous_variant	726				CCDS8248.1	11q14	2014-01-29				ENSG00000149260			1482	protein-coding gene	gene with protein product		602537	"vitreoretinopathy, neovascular inflammatory"	VRNI		9503024, 9367857, 23055945	Standard	NM_004055		Approved	nCL-3, HTRA3, ADNIV	uc001oxx.3	O15484		ENST00000278559.3:c.171C>T	11.37:g.76804733C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O00263	Silent	SNP	ENST00000278559.3	37	CCDS8248.1																																																																																				0.637	CAPN5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382564.2	NM_004055		T	76804733	C	T	76804733	2	4	632	1	0	0	0	0	0	0	0	1	2631	903	32	2		2	CAPN5	11	76804733	Silent	SNP	C	TCGA-KL-8333-01A-11D-2310-10	70463052	76804733	58201783	32	38942										
MRE11A	4361	bcgsc.ca	37	chr11	94211961	94211961	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	caaaaccggactaatgtctaTcttctccacagacattgaac	5	12	3	2			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr11:94211961T>C	ENST00000323929.3	-	6	706	c.484A>G	c.(484-486)Ata>Gta	p.I162V	MRE11A_ENST00000323977.3_Missense_Mutation_p.I162V|MRE11A_ENST00000407439.3_Missense_Mutation_p.I165V|MRE11A_ENST00000540013.1_Missense_Mutation_p.I162V|MRE11A_ENST00000393241.4_Missense_Mutation_p.I162V	NM_005591.3	NP_005582.1	P49959	MRE11_HUMAN	MRE11 meiotic recombination 11 homolog A (S. cerevisiae)	162					base-excision repair (GO:0006284)|cell proliferation (GO:0008283)|cellular response to DNA damage stimulus (GO:0006974)|DNA catabolic process, endonucleolytic (GO:0000737)|DNA duplex unwinding (GO:0032508)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|double-strand break repair via nonhomologous end joining (GO:0006303)|innate immune response (GO:0045087)|intra-S DNA damage checkpoint (GO:0031573)|mitotic G2 DNA damage checkpoint (GO:0007095)|negative regulation of DNA endoreduplication (GO:0032876)|nucleic acid phosphodiester bond hydrolysis (GO:0090305)|nucleotide-excision repair (GO:0006289)|positive regulation of kinase activity (GO:0033674)|positive regulation of protein autophosphorylation (GO:0031954)|positive regulation of type I interferon production (GO:0032481)|reciprocal meiotic recombination (GO:0007131)|regulation of mitotic recombination (GO:0000019)|sister chromatid cohesion (GO:0007062)|synapsis (GO:0007129)|telomere maintenance (GO:0000723)|telomere maintenance via telomerase (GO:0007004)	chromatin (GO:0000785)|cytosol (GO:0005829)|Mre11 complex (GO:0030870)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|site of double-strand break (GO:0035861)	3'-5' exonuclease activity (GO:0008408)|double-stranded DNA binding (GO:0003690)|endodeoxyribonuclease activity (GO:0004520)|endonuclease activity (GO:0004519)|manganese ion binding (GO:0030145)|nuclease activity (GO:0004518)|protein C-terminus binding (GO:0008022)|single-stranded DNA endodeoxyribonuclease activity (GO:0000014)			breast(5)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(8)|lung(8)|ovary(2)|upper_aerodigestive_tract(1)	29		Acute lymphoblastic leukemia(157;2.37e-05)|all_hematologic(158;0.00824)				CTAATGTCTATCTTCTCCACA	0.363								Homologous recombination	Ataxia-Telangiectasia-Like Disorder																																							0													97	88	91					11																	94211961		2201	4298	6499	SO:0001583	missense	4361	Familial Cancer Database	ATLD	BC063458	CCDS8298.1, CCDS8299.1	11q21	2014-09-17	2001-11-28		ENSG00000020922	ENSG00000020922			7230	protein-coding gene	gene with protein product	"AT-like disease"	600814	"meiotic recombination (S. cerevisiae) 11 homolog A"	MRE11		8530104	Standard	XM_005274007		Approved	ATLD	uc001peu.2	P49959	OTTHUMG00000167780	ENST00000323929.3:c.484A>G	11.37:g.94211961T>C	ENSP00000325863:p.Ile162Val	Somatic		WXS	Illumina HiSeq	Phase_I	O43475	Missense_Mutation	SNP	ENST00000323929.3	37	CCDS8299.1	.	.	.	.	.	.	.	.	.	.	T	12.05	1.822393	0.32237	.	.	ENSG00000020922	ENST00000323929;ENST00000407439;ENST00000323977;ENST00000393241;ENST00000540013	D;D;D;D;D	0.81499	-1.5;-1.5;-1.5;-1.5;-1.5	5.54	2.0	0.26442	Metallophosphoesterase domain (1);	0.125962	0.64402	N	0.000001	T	0.69433	0.3110	L	0.31926	0.97	0.45979	D	0.998794	B;B;B	0.15473	0.007;0.002;0.013	B;B;B	0.26517	0.07;0.021;0.043	T	0.57394	-0.7819	10	0.34782	T	0.22	-16.6202	8.7495	0.34607	0.0:0.2208:0.0:0.7792	.	165;162;162	B3KTC7;P49959-2;P49959	.;.;MRE11_HUMAN	V	162;165;162;162;162	ENSP00000325863:I162V;ENSP00000385614:I165V;ENSP00000326094:I162V;ENSP00000376933:I162V;ENSP00000440986:I162V	ENSP00000325863:I162V	I	-	1	0	MRE11A	93851609	1.000000	0.71417	0.999000	0.59377	0.492000	0.33523	2.694000	0.47035	0.089000	0.17243	0.372000	0.22366	ATA		0.363	MRE11A-001	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000396237.3	NM_005591		C	94211961	T	C	94211961	3	2	632	1	0	0	0	0	1	0	0	0	9766	1435	50	3	1702	3	MRE11A	11	94211961	Missense_Mutation	SNP	T	TCGA-KL-8333-01A-11D-2310-10	17407228	94211961	40794555	33	38943										
ADAMTS15	170689	bcgsc.ca	37	chr11	130332482	130332501	+	Frame_Shift_Del	DEL	CTGGCTTTTGGCGTGGGCTC	CTGGCTTTTGGCGTGGGCTC	-													0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	cctgagccagcagtgcgagcTggcttttggcgtgggctcca					rs535808287|rs146615969		TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	CTGGCTTTTGGCGTGGGCTC	CTGGCTTTTGGCGTGGGCTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr11:130332482_130332501delCTGGCTTTTGGCGTGGGCTC	ENST00000299164.2	+	4	1349_1368	c.1349_1368delCTGGCTTTTGGCGTGGGCTC	c.(1348-1368)cctggcttttggcgtgggctcfs	p.PGFWRGL450fs		NM_139055.2	NP_620686.1	Q8TE58	ATS15_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 15	450	Disintegrin.					proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(16)|pancreas(1)|prostate(1)|skin(8)|urinary_tract(1)	36	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		CAGTGCGAGCTGGCTTTTGGCGTGGGCTCCAAGCCCTGTC	0.645																																																0																																										SO:0001589	frameshift_variant	170689			AJ315733	CCDS8488.1	11q25	2008-02-01	2005-08-19		ENSG00000166106	ENSG00000166106		"ADAM metallopeptidases with thrombospondin type 1 motif"	16305	protein-coding gene	gene with protein product		607509	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 15"			11867212	Standard	NM_139055		Approved		uc010scd.2	Q8TE58	OTTHUMG00000165657	ENST00000299164.2:c.1349_1368delCTGGCTTTTGGCGTGGGCTC	11.37:g.130332482_130332501delCTGGCTTTTGGCGTGGGCTC	ENSP00000299164:p.Pro450fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q32MI6	Frame_Shift_Del	DEL	ENST00000299164.2	37	CCDS8488.1																																																																																				0.645	ADAMTS15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385638.1	NM_139055		-	130332501	CTGGCTTTTGGCGTGGGCTC	-	130332482	7	5	632	1	0	1	0	1	0	0	0	0	260	1580	55	0	1363	0	ADAMTS15	11	130332482	Frame_Shift_Del	DEL	CTGGCTTTTGGCGTGGGCTC	TCGA-KL-8333-01A-11D-2310-10	36120521	130332482	4674034	34	38944										
PRB2	653247	mdanderson.org	37	chr12	11546616	11546616	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ggctttcctggaggaggtggAggaccttgaggctggttgcc	18	8	0	1	rs199923047		TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr12:11546616A>G	ENST00000389362.4	-	3	431	c.396T>C	c.(394-396)ccT>ccC	p.P132P	PRB1_ENST00000546254.1_Intron|PRB2_ENST00000545829.1_5'Flank	NM_006248.3	NP_006239.3	P02812	PRB2_HUMAN	proline-rich protein BstNI subfamily 2	132	15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-P-Q-G-[GD]-[NKS]-[KSQ]- [PRS]-[QRS] [GPS]-[PSAR]-[PSR].					extracellular region (GO:0005576)				NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(14)|pancreas(1)|prostate(5)|skin(4)|stomach(2)|urinary_tract(1)	37		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			GAGGAGGTGGAGGACCTTGAG	0.607																																																0													292	264	273					12																	11546616		2201	4300	6501	SO:0001819	synonymous_variant	653247			K03208	CCDS41757.2	12p13.2	2012-10-02			ENSG00000121335	ENSG00000121335			9338	protein-coding gene	gene with protein product		168810				8554050	Standard	NM_006248		Approved	PRPPRB1, Ps, cP7	uc010shk.1	P02812	OTTHUMG00000156975	ENST00000389362.4:c.396T>C	12.37:g.11546616A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O00599|P02811|P04281	Silent	SNP	ENST00000389362.4	37	CCDS41757.2																																																																																				0.607	PRB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346925.2	NM_006248		G	11546616	A	G	11546616	2	3	632	1	0	0	0	0	0	0	0	1	12453	291	11	3		3	PRB2	12	11546616	Silent	SNP	A	TCGA-KL-8333-01A-11D-2310-10		11546616	122305279	35	38945										
PPFIA2	8499	ucsc.edu	37	chr12	81719630	81719630	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	agggactcctgagctgcagcTtcagtctccataaagcctcc	9	14	2	1			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr12:81719630T>C	ENST00000549396.1	-	22	2728	c.2568A>G	c.(2566-2568)gaA>gaG	p.E856E	PPFIA2_ENST00000550359.2_Silent_p.E703E|PPFIA2_ENST00000541570.2_Silent_p.E423E|PPFIA2_ENST00000443686.3_Silent_p.E757E|PPFIA2_ENST00000407050.4_Silent_p.E782E|PPFIA2_ENST00000549325.1_Silent_p.E838E|PPFIA2_ENST00000333447.7_Silent_p.E838E|PPFIA2_ENST00000545296.2_Intron|PPFIA2_ENST00000550584.2_Silent_p.E856E|PPFIA2_ENST00000548586.1_Silent_p.E856E|PPFIA2_ENST00000552948.1_Silent_p.E856E|PPFIA2_ENST00000541017.1_Silent_p.E73E	NM_001220476.1|NM_001282536.1|NM_003625.3	NP_001207405.1|NP_001269465.1|NP_003616.2	O75334	LIPA2_HUMAN	protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 2	856					cell-matrix adhesion (GO:0007160)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|presynaptic active zone (GO:0048786)				NS(1)|autonomic_ganglia(1)|central_nervous_system(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(15)|lung(37)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(5)	85						GAGCTGCAGCTTCAGTCTCCA	0.423																																																0													69	70	70					12																	81719630		1866	4107	5973	SO:0001819	synonymous_variant	8499			AF034799	CCDS55850.1, CCDS55851.1, CCDS55852.1, CCDS55853.1, CCDS55854.1, CCDS55855.1, CCDS55856.1, CCDS55857.1, CCDS59236.1, CCDS73503.1	12q21.31	2013-01-10						"Sterile alpha motif (SAM) domain containing"	9246	protein-coding gene	gene with protein product	"Liprin-alpha2"	603143				9624153	Standard	NM_003625		Approved		uc031qis.1	O75334		ENST00000549396.1:c.2568A>G	12.37:g.81719630T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KVT5|B3KXA0|B7Z2A6|B7Z3U9|B7Z663|B7ZKZ5|E7ERB8|E7ETG6|F8VP68|Q2M3G8	Silent	SNP	ENST00000549396.1	37	CCDS55857.1	.	.	.	.	.	.	.	.	.	.	T	8.987	0.976775	0.18812	.	.	ENSG00000139220	ENST00000551147	.	.	.	5.83	4.69	0.59074	.	.	.	.	.	T	0.56062	0.1960	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.53180	-0.8475	4	.	.	.	-17.7436	6.288	0.21043	0.141:0.0759:0.0:0.7831	.	.	.	.	G	19	.	.	S	-	1	0	PPFIA2	80243761	0.997000	0.39634	1.000000	0.80357	0.931000	0.56810	0.367000	0.20382	1.030000	0.39839	0.477000	0.44152	AGC		0.423	PPFIA2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000408030.1			C	81719630	T	C	81719630	2	2	632	1	0	0	0	0	0	0	0	1	12317	1606	56	3		3	PPFIA2	12	81719630	Silent	SNP	T	TCGA-KL-8333-01A-11D-2310-10	70173014	81719630	52132265	36	38946										
RILPL1	353116	broad.mit.edu	37	chr12	123957223	123957223	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ttcttatctcgggagaagaaGctaaacctttggaagggaaa	11	6	2	2			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr12:123957223G>T	ENST00000376874.4	-	7	1309	c.1074C>A	c.(1072-1074)agC>agA	p.S358R	SNRNP35_ENST00000527158.2_3'UTR|RILPL1_ENST00000544468.1_Missense_Mutation_p.S31R|RILPL1_ENST00000340724.6_Missense_Mutation_p.S238R	NM_178314.3	NP_847884.2	Q5EBL4	RIPL1_HUMAN	Rab interacting lysosomal protein-like 1	358					epithelial cell morphogenesis (GO:0003382)|intracellular protein transport (GO:0006886)|regulation of neuron death (GO:1901214)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|primary cilium (GO:0072372)		p.S358R(3)		endometrium(1)|kidney(2)|large_intestine(1)|lung(2)|upper_aerodigestive_tract(1)	7	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.00067)|all cancers(50;0.00836)|BRCA - Breast invasive adenocarcinoma(302;0.197)		GGGAGAAGAAGCTAAACCTTT	0.498																																																3	Substitution - Missense(3)	kidney(2)|endometrium(1)											65	63	63					12																	123957223		1944	4154	6098	SO:0001583	missense	353116			AK097550	CCDS45006.1	12q24.31	2007-11-27			ENSG00000188026	ENSG00000188026			26814	protein-coding gene	gene with protein product		614092				14668488	Standard	NM_178314		Approved	FLJ39378	uc001ufe.2	Q5EBL4	OTTHUMG00000168686	ENST00000376874.4:c.1074C>A	12.37:g.123957223G>T	ENSP00000366070:p.Ser358Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q66K36|Q8N1M0	Missense_Mutation	SNP	ENST00000376874.4	37	CCDS45006.1	.	.	.	.	.	.	.	.	.	.	G	20.7	4.028945	0.75504	.	.	ENSG00000188026	ENST00000376874;ENST00000340724;ENST00000544468	T;T;T	0.27720	1.65;1.65;1.65	5.47	4.47	0.54385	.	.	.	.	.	T	0.37892	0.1020	L	0.29908	0.895	0.51767	D	0.999936	D;D	0.89917	1.0;0.997	D;D	0.85130	0.997;0.991	T	0.11717	-1.0576	9	0.49607	T	0.09	-0.9352	6.5327	0.22336	0.2105:0.0:0.7895:0.0	.	358;207	Q5EBL4;Q5EBL4-3	RIPL1_HUMAN;.	R	358;238;31	ENSP00000366070:S358R;ENSP00000345874:S238R;ENSP00000442991:S31R	ENSP00000345874:S238R	S	-	3	2	RILPL1	122523176	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.403000	0.44530	2.566000	0.86566	0.655000	0.94253	AGC		0.498	RILPL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400595.1	NM_178314		T	123957223	G	T	123957223	3	4	632	1	0	0	0	0	1	0	0	0	13374	962	34	4	141	4	RILPL1	12	123957223	Missense_Mutation	SNP	G	TCGA-KL-8333-01A-11D-2310-10	42237593	123957223	9894672	37	38947										
TPTE2	93492	mdanderson.org	37	chr13	20000609	20000609	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	atcatcatacagaggtggacCgtcatatacattaattaata	6	7	3	1	rs141691551	byFrequency	TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr13:20000609C>T	ENST00000400230.2	-	18	1395	c.1351G>A	c.(1351-1353)Ggt>Agt	p.G451S	TPTE2_ENST00000382977.4_Missense_Mutation_p.G451S|TPTE2_ENST00000382978.1_Missense_Mutation_p.G411S|TPTE2_ENST00000457266.2_Missense_Mutation_p.G340S|TPTE2_ENST00000400103.2_Missense_Mutation_p.G340S|TPTE2_ENST00000390680.2_Missense_Mutation_p.G374S|TPTE2_ENST00000382975.4_Missense_Mutation_p.G411S|TPTE2_ENST00000255310.6_Missense_Mutation_p.G374S			Q6XPS3	TPTE2_HUMAN	transmembrane phosphoinositide 3-phosphatase and tensin homolog 2	451	C2 tensin-type. {ECO:0000255|PROSITE- ProRule:PRU00589}.				phosphatidylinositol biosynthetic process (GO:0006661)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum (GO:0005783)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	ion channel activity (GO:0005216)|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity (GO:0016314)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)	p.G451S(1)|p.G374R(1)|p.G374S(1)|p.G451R(1)		NS(2)|breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|large_intestine(8)|lung(21)|pancreas(1)|prostate(8)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	65		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)		AGAGGTGGACCGTCATATACA	0.338													c|||	18	0.00359425	0.0129	0.0014	5008	,	,		17308	0.0		0.0	False		,,,				2504	0.0															4	Substitution - Missense(4)	prostate(2)|lung(2)						C	SER/GLY,SER/GLY,SER/GLY	59,4347	53.6+/-89.4	0,59,2144	115	115	115		1018,1120,1351	0.8	0	13	dbSNP_134	115	1,8599	1.2+/-3.3	0,1,4299	yes	missense,missense,missense	TPTE2	NM_001141968.1,NM_130785.3,NM_199254.2	56,56,56	0,60,6443	TT,TC,CC		0.0116,1.3391,0.4613	benign,benign,benign	340/412,374/446,451/523	20000609	60,12946	2203	4300	6503	SO:0001583	missense	93492			AJ421032	CCDS9285.1, CCDS45013.1, CCDS45014.1	13q12.11	2012-12-10			ENSG00000132958	ENSG00000132958		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs"	17299	protein-coding gene	gene with protein product		606791				11716755, 12717346, 15057823	Standard	NM_130785		Approved	TPIP	uc001umd.3	Q6XPS3	OTTHUMG00000016493	ENST00000400230.2:c.1351G>A	13.37:g.20000609C>T	ENSP00000383089:p.Gly451Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4X0|A1A4X1|A8MX64|B1AQ16|B4DWZ2|Q5VUH2|Q8WWL4|Q8WWL5	Missense_Mutation	SNP	ENST00000400230.2	37	CCDS45014.1	5	0.0022893772893772895	5	0.01016260162601626	0	0.0	0	0.0	0	0.0	c	2.177	-0.388580	0.04932	0.013391	1.16E-4	ENSG00000132958	ENST00000382978;ENST00000400103;ENST00000400230;ENST00000255310;ENST00000390680;ENST00000382977;ENST00000382975;ENST00000457266;ENST00000343548	D;D;D;D;D;D;D;D	0.84873	-1.91;-1.91;-1.91;-1.91;-1.91;-1.91;-1.91;-1.91	2.06	0.84	0.18912	Tensin phosphatase, C2 domain (2);C2 calcium/lipid-binding domain, CaLB (1);	0.174692	0.50627	D	0.000101	T	0.56673	0.2001	N	0.12746	0.255	0.09310	N	1	B;B;B	0.32829	0.124;0.101;0.386	B;B;B	0.29524	0.064;0.024;0.103	T	0.51803	-0.8659	9	.	.	.	-15.6776	4.9604	0.14063	0.6673:0.3327:0.0:0.0	.	340;374;451	A8MX64;Q6XPS3-3;Q6XPS3	.;.;TPTE2_HUMAN	S	411;340;451;374;374;451;411;340;451	ENSP00000372438:G411S;ENSP00000382974:G340S;ENSP00000383089:G451S;ENSP00000255310:G374S;ENSP00000375098:G374S;ENSP00000372437:G451S;ENSP00000372435:G411S;ENSP00000442218:G340S	.	G	-	1	0	TPTE2	18898609	0.779000	0.28652	0.004000	0.12327	0.004000	0.04260	1.504000	0.35726	0.231000	0.21079	0.194000	0.17425	GGT		0.338	TPTE2-205	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_199254		T	20000609	C	T	20000609	3	4	632	1	0	0	0	0	1	0	0	0	16443	652	23	1	229	1	TPTE2	13	20000609	Missense_Mutation	SNP	C	TCGA-KL-8333-01A-11D-2310-10		20000609	95169269	38	38948										
ZMYM5	9205	broad.mit.edu	37	chr13	20426257	20426257	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	gagactagttgccatggccaTattccctaataaagcaggag	10	9	0	1			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr13:20426257T>C	ENST00000337963.4	-	3	328	c.64A>G	c.(64-66)Atg>Gtg	p.M22V	ZMYM5_ENST00000382905.4_Missense_Mutation_p.M22V|ZMYM5_ENST00000382907.4_Missense_Mutation_p.M22V	NM_001142684.1	NP_001136156.1	Q9UJ78	ZMYM5_HUMAN	zinc finger, MYM-type 5	22						nucleus (GO:0005634)	zinc ion binding (GO:0008270)			kidney(1)|large_intestine(5)|lung(9)	15		all_cancers(29;2.96e-22)|all_epithelial(30;3.76e-20)|all_lung(29;4.38e-20)|Lung NSC(5;5.8e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.61e-05)|Epithelial(112;4.89e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00171)|Lung(94;0.00942)|LUSC - Lung squamous cell carcinoma(192;0.0431)		GCCATGGCCATATTCCCTAAT	0.413																																																0													205	205	205					13																	20426257		2203	4300	6503	SO:0001583	missense	9205			AF161535	CCDS31942.1, CCDS31943.1	13q12	2013-01-08	2005-09-12	2005-09-12	ENSG00000132950	ENSG00000132950		"Zinc fingers, MYM type"	13029	protein-coding gene	gene with protein product			"zinc finger protein 237"	ZNF237			Standard	NM_001039650		Approved	ZNF198L1, MYM	uc010tcn.1	Q9UJ78	OTTHUMG00000016504	ENST00000337963.4:c.64A>G	13.37:g.20426257T>C	ENSP00000337034:p.Met22Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6V1|Q5T6E1|Q5T6E2|Q5T6E4|Q96IY6|Q9NZY5|Q9UBW0|Q9UJ77	Missense_Mutation	SNP	ENST00000337963.4	37		.	.	.	.	.	.	.	.	.	.	T	0.574	-0.839877	0.02692	.	.	ENSG00000132950	ENST00000337963;ENST00000502168;ENST00000382907;ENST00000382905	T;T;T;T	0.27256	1.68;1.68;1.68;1.68	4.49	0.351	0.16042	.	.	.	.	.	T	0.15046	0.0363	N	0.22421	0.69	0.09310	N	1	B;B;B	0.09022	0.0;0.001;0.002	B;B;B	0.04013	0.001;0.0;0.0	T	0.23762	-1.0179	9	0.52906	T	0.07	2.6265	5.3146	0.15849	0.2807:0.0774:0.0:0.6419	.	22;22;22	Q9UJ78;Q9UJ78-2;Q9UJ78-1	ZMYM5_HUMAN;.;.	V	22;12;22;22	ENSP00000337034:M22V;ENSP00000445779:M12V;ENSP00000372364:M22V;ENSP00000372361:M22V	ENSP00000337034:M22V	M	-	1	0	ZMYM5	19324257	0.013000	0.17824	0.001000	0.08648	0.008000	0.06430	0.632000	0.24583	-0.006000	0.14370	0.459000	0.35465	ATG		0.413	ZMYM5-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_014242		C	20426257	T	C	20426257	3	2	632	1	0	0	0	0	1	0	0	0	17715	1406	49	3	2080	3	ZMYM5	13	20426257	Missense_Mutation	SNP	T	TCGA-KL-8333-01A-11D-2310-10	425648	20426257	94743621	39	38949										
KCNK10	54207	broad.mit.edu	37	chr14	88652217	88652217	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	cttgttcagctgctccggccCcttcaggcgcaggttgttgg	13	13	2	0			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr14:88652217C>T	ENST00000340700.5	-	7	1730	c.1279G>A	c.(1279-1281)Ggg>Agg	p.G427R	KCNK10_ENST00000312350.5_Missense_Mutation_p.G432R|KCNK10_ENST00000319231.5_Missense_Mutation_p.G432R	NM_021161.4	NP_066984.1	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	427					signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|transport (GO:0006810)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	potassium channel activity (GO:0005267)|voltage-gated ion channel activity (GO:0005244)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(25)|ovary(3)|pancreas(2)|prostate(2)|skin(4)|upper_aerodigestive_tract(1)	47						TGCTCCGGCCCCTTCAGGCGC	0.597																																																0													70	73	72					14																	88652217		2203	4300	6503	SO:0001583	missense	54207			AF279890	CCDS9880.1, CCDS9881.1, CCDS9882.1	14q31	2014-06-12						"Potassium channels", "Voltage-gated ion channels / Potassium channels, Two-P"	6273	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 97"	605873				10880510, 16382106	Standard	NM_021161		Approved	K2p10.1, TREK-2, TREK2, PPP1R97	uc001xwn.3	P57789		ENST00000340700.5:c.1279G>A	14.37:g.88652217C>T	ENSP00000343104:p.Gly427Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8T4|B2RCT3|B5TJL4|Q6B014|Q8TDK7|Q8TDK8|Q9HB59	Missense_Mutation	SNP	ENST00000340700.5	37	CCDS9880.1	.	.	.	.	.	.	.	.	.	.	C	15.27	2.785026	0.49997	.	.	ENSG00000100433	ENST00000340700;ENST00000312350;ENST00000319231	D;D;D	0.92805	-3.1;-3.11;-3.08	5.71	5.71	0.89125	.	0.463750	0.25138	N	0.032841	D	0.89646	0.6775	N	0.08118	0	0.80722	D	1	P;P;P	0.52577	0.89;0.745;0.954	P;B;P	0.53450	0.521;0.277;0.726	D	0.91751	0.5412	10	0.66056	D	0.02	.	18.8558	0.92251	0.0:1.0:0.0:0.0	.	427;432;432	P57789;B2R8T4;Q6B014	KCNKA_HUMAN;.;.	R	427;432;432	ENSP00000343104:G427R;ENSP00000310568:G432R;ENSP00000312811:G432R	ENSP00000310568:G432R	G	-	1	0	KCNK10	87721970	1.000000	0.71417	0.352000	0.25734	0.037000	0.13140	5.529000	0.67135	2.709000	0.92574	0.655000	0.94253	GGG		0.597	KCNK10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410167.1	NM_021161		T	88652217	C	T	88652217	3	4	632	1	0	0	0	0	1	0	0	0	8066	623	22	2	341	2	KCNK10	14	88652217	Missense_Mutation	SNP	C	TCGA-KL-8333-01A-11D-2310-10		88652217	18697323	40	38950										
DYX1C1	161582	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr15	55731737	55731737	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	atcgcaaagttcagctatgtCagtattcattgctcttcgtg	8	9	4	0			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr15:55731737C>A	ENST00000321149.3	-	7	1193	c.826G>T	c.(826-828)Gac>Tac	p.D276Y	DYX1C1_ENST00000348518.3_Missense_Mutation_p.D276Y|DYX1C1_ENST00000457155.2_Missense_Mutation_p.D276Y|DYX1C1_ENST00000448430.2_Missense_Mutation_p.D276Y|DYX1C1_ENST00000380679.1_Missense_Mutation_p.D276Y|DYX1C1-CCPG1_ENST00000565113.1_RNA	NM_130810.3	NP_570722.2	Q8WXU2	DYXC1_HUMAN	dyslexia susceptibility 1 candidate 1	276					cilium movement (GO:0003341)|determination of left/right symmetry (GO:0007368)|inner dynein arm assembly (GO:0036159)|neuron migration (GO:0001764)|outer dynein arm assembly (GO:0036158)|regulation of intracellular estrogen receptor signaling pathway (GO:0033146)|regulation of proteasomal protein catabolic process (GO:0061136)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	estrogen receptor binding (GO:0030331)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(7)|ovary(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	18				all cancers(107;0.0118)|GBM - Glioblastoma multiforme(80;0.171)		TCAGCTATGTCAGTATTCATT	0.338																																																0													104	100	101					15																	55731737		2193	4291	6484	SO:0001583	missense	161582				CCDS10154.1, CCDS32243.1, CCDS32244.1	15q21.3	2014-09-11			ENSG00000256061	ENSG00000256061		"Tetratricopeptide (TTC) repeat domain containing"	21493	protein-coding gene	gene with protein product		608706				12954984	Standard	NM_130810		Approved	EKN1, FLJ37882, CILD25	uc002adc.3	Q8WXU2	OTTHUMG00000132008	ENST00000321149.3:c.826G>T	15.37:g.55731737C>A	ENSP00000323275:p.Asp276Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P5Y9|Q8N1S6	Missense_Mutation	SNP	ENST00000321149.3	37	CCDS10154.1	.	.	.	.	.	.	.	.	.	.	C	19.50	3.839365	0.71488	.	.	ENSG00000256061	ENST00000420792;ENST00000448430;ENST00000380679;ENST00000457155;ENST00000321149;ENST00000348518	D;D;D;D;D	0.82081	-1.57;-1.57;-1.57;-1.57;-1.57	5.09	5.09	0.68999	.	0.064564	0.64402	U	0.000015	D	0.90195	0.6935	M	0.69823	2.125	0.54753	D	0.999981	D;D;D	0.89917	0.999;0.999;1.0	D;D;D	0.68353	0.957;0.929;0.944	D	0.90778	0.4677	10	0.59425	D	0.04	.	17.8393	0.88710	0.0:1.0:0.0:0.0	.	276;276;276	Q8WXU2-3;Q8WXU2;Q8WXU2-2	.;DYXC1_HUMAN;.	Y	276	ENSP00000403412:D276Y;ENSP00000370054:D276Y;ENSP00000402640:D276Y;ENSP00000323275:D276Y;ENSP00000299561:D276Y	ENSP00000323275:D276Y	D	-	1	0	DYX1C1	53519029	1.000000	0.71417	1.000000	0.80357	0.590000	0.36582	3.907000	0.56348	2.521000	0.84997	0.563000	0.77884	GAC		0.338	DYX1C1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254976.1	NM_130810		A	55731737	C	A	55731737	3	1	632	1	0	0	0	0	1	0	0	0	4864	826	29	4	555	4	DYX1C1	15	55731737	Missense_Mutation	SNP	C	TCGA-KL-8333-01A-11D-2310-10		55731737	46799655	41	38951										
ACSM5	54988	bcgsc.ca	37	chr16	20430733	20430733	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	agacagcagtcggccaggctGgttgaacttcagggaactcc	13	11	1	2			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr16:20430733G>A	ENST00000331849.4	+	4	746	c.599G>A	c.(598-600)tGg>tAg	p.W200*	ACSM5_ENST00000575584.1_Nonsense_Mutation_p.W200*	NM_017888.2	NP_060358.2	Q6NUN0	ACSM5_HUMAN	acyl-CoA synthetase medium-chain family member 5	200					fatty acid metabolic process (GO:0006631)	mitochondrion (GO:0005739)	ATP binding (GO:0005524)|butyrate-CoA ligase activity (GO:0047760)|GTP binding (GO:0005525)|metal ion binding (GO:0046872)			breast(1)|endometrium(6)|kidney(2)|large_intestine(6)|lung(28)|ovary(3)|prostate(1)|skin(3)|urinary_tract(1)	51						CGGCCAGGCTGGTTGAACTTC	0.527																																																0													46	44	45					16																	20430733		2203	4299	6502	SO:0001587	stop_gained	54988				CCDS10585.1	16p12.3	2007-10-17			ENSG00000183549	ENSG00000183549		"Acyl-CoA synthetase family"	26060	protein-coding gene	gene with protein product		614361				17762044	Standard	NM_017888		Approved	FLJ20581	uc002dhe.3	Q6NUN0	OTTHUMG00000131551	ENST00000331849.4:c.599G>A	16.37:g.20430733G>A	ENSP00000327916:p.Trp200*	Somatic		WXS	Illumina HiSeq	Phase_I	Q96AV1|Q96CX8|Q9NWV3	Nonsense_Mutation	SNP	ENST00000331849.4	37	CCDS10585.1	.	.	.	.	.	.	.	.	.	.	G	35	5.520590	0.96416	.	.	ENSG00000183549	ENST00000331849	.	.	.	4.65	4.65	0.58169	.	0.000000	0.56097	D	0.000024	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-16.0847	17.6834	0.88250	0.0:0.0:1.0:0.0	.	.	.	.	X	200	.	ENSP00000327916:W200X	W	+	2	0	ACSM5	20338234	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.372000	0.79612	2.561000	0.86390	0.650000	0.86243	TGG		0.527	ACSM5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254413.1	NM_017888		A	20430733	G	A	20430733	4	1	632	1	0	0	0	0	0	1	0	0	187	1357	47	2	609	2	ACSM5	16	20430733	Nonsense_Mutation	SNP	G	TCGA-KL-8333-01A-11D-2310-10		20430733	69924020	42	38952										
RRAD	6236	ucsc.edu	37	chr16	66958810	66958810	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	cccagcagcagcaccttgtaAacgctctcgtctgagtcgct	9	15	2	1			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr16:66958810A>G	ENST00000299759.6	-	2	523	c.273T>C	c.(271-273)gtT>gtC	p.V91V	RRAD_ENST00000420652.1_Silent_p.V91V			P55042	RAD_HUMAN	Ras-related associated with diabetes	91					small GTPase mediated signal transduction (GO:0007264)	plasma membrane (GO:0005886)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			endometrium(2)|kidney(4)|large_intestine(3)|lung(4)|prostate(2)|skin(1)|urinary_tract(1)	17		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0862)|Epithelial(162;0.198)		GCACCTTGTAAACGCTCTCGT	0.721																																																0													10	12	11					16																	66958810		2196	4296	6492	SO:0001819	synonymous_variant	6236			L24564	CCDS10824.1	16q22	2014-05-09			ENSG00000166592	ENSG00000166592			10446	protein-coding gene	gene with protein product		179503				7859947	Standard	NM_004165		Approved	REM3, RAD	uc002eqo.2	P55042	OTTHUMG00000137511	ENST00000299759.6:c.273T>C	16.37:g.66958810A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q96F39	Silent	SNP	ENST00000299759.6	37	CCDS10824.1																																																																																				0.721	RRAD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268830.1	NM_004165		G	66958810	A	G	66958810	2	3	632	1	0	0	0	0	0	0	0	1	13684	1	1	3		3	RRAD	16	66958810	Silent	SNP	A	TCGA-KL-8333-01A-11D-2310-10	46528077	66958810	23395943	43	38953										
CPNE7	27132	broad.mit.edu;bcgsc.ca	37	chr16	89649860	89649860	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	cctggtaaataggtatgatgAcctctgcctcccctgggcga	11	12	1	2			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr16:89649860A>G	ENST00000268720.5	+	4	636	c.506A>G	c.(505-507)gAc>gGc	p.D169G	CPNE7_ENST00000319518.8_Intron	NM_014427.4	NP_055242.1	Q9UBL6	CPNE7_HUMAN	copine VII	169					lipid metabolic process (GO:0006629)|transport (GO:0006810)	extracellular vesicular exosome (GO:0070062)	transporter activity (GO:0005215)			breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(8)|ovary(2)	17		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)		aggtatgatgacctctgcctc	0.642																																																0													40	25	30					16																	89649860		2039	4043	6082	SO:0001583	missense	27132			AJ133798	CCDS10980.1, CCDS10981.1	16q24.3	2008-07-03			ENSG00000178773	ENSG00000178773			2320	protein-coding gene	gene with protein product		605689					Standard	NM_014427		Approved		uc002fnq.3	Q9UBL6	OTTHUMG00000138051	ENST00000268720.5:c.506A>G	16.37:g.89649860A>G	ENSP00000268720:p.Asp169Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000268720.5	37	CCDS10980.1	.	.	.	.	.	.	.	.	.	.	A	1.390	-0.581055	0.03854	.	.	ENSG00000178773	ENST00000268720	T	0.27557	1.66	0.748	-0.804	0.10882	.	290.740000	0.00166	U	0.000000	T	0.14917	0.0360	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.09907	-1.0653	10	0.23891	T	0.37	.	2.7152	0.05185	0.5777:0.0:0.0:0.4223	.	169	Q9UBL6	CPNE7_HUMAN	G	169	ENSP00000268720:D169G	ENSP00000268720:D169G	D	+	2	0	CPNE7	88177361	0.000000	0.05858	0.003000	0.11579	0.041000	0.13682	-0.257000	0.08745	-0.316000	0.08690	-0.871000	0.02989	GAC		0.642	CPNE7-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000269929.2			G	89649860	A	G	89649860	3	3	632	1	0	0	0	0	1	0	0	0	3819	275	10	3	520	3	CPNE7	16	89649860	Missense_Mutation	SNP	A	TCGA-KL-8333-01A-11D-2310-10	22691050	89649860	704893	44	38954										
FBXW10	10517	mdanderson.org	37	chr17	18682163	18682163	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ctctttgcacagtcctagagTccagtccaccataccccagc	6	17	1	1	rs199779085	byFrequency	TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr17:18682163T>C	ENST00000395665.4	+	14	2932	c.2711T>C	c.(2710-2712)gTc>gCc	p.V904A	FBXW10_ENST00000308799.4_Missense_Mutation_p.V913A|TVP23B_ENST00000307767.8_5'Flank|TVP23B_ENST00000574226.1_5'Flank|TVP23B_ENST00000476139.1_5'Flank|FBXW10_ENST00000301938.4_Missense_Mutation_p.V851A|FBXW10_ENST00000395667.1_Missense_Mutation_p.V903A			Q5XX13	FBW10_HUMAN	F-box and WD repeat domain containing 10	904										NS(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(13)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|urinary_tract(1)	42						AGTCCTAGAGTCCAGTCCACC	0.488																																																0								T	ALA/VAL	1,4405		0,1,2202	97	105	102		2708	3.6	0.3	17	dbSNP_134	102	0,8600		0,0,4300	no	missense	FBXW10	NM_031456.3	64	0,1,6502	CC,CT,TT		0.0,0.0227,0.0077	probably-damaging	903/1052	18682163	1,13005	2203	4300	6503	SO:0001583	missense	10517			BC028364	CCDS11199.2, CCDS11199.3, CCDS58524.1	17p11	2013-01-09	2007-02-08	2004-07-21	ENSG00000171931	ENSG00000171931		"F-boxes / WD-40 domains", "WD repeat domain containing"	1211	protein-coding gene	gene with protein product		611679	"chromosome 17 open reading frame 1A", "F-box and WD-40 domain protein 10"	C17orf1, C17orf1A		9787083, 7586531	Standard	NM_001267585		Approved	SM2SH2, HREP, Fbw10	uc002guk.3	Q5XX13	OTTHUMG00000059048	ENST00000395665.4:c.2711T>C	17.37:g.18682163T>C	ENSP00000379025:p.Val904Ala	Somatic		WXS	Illumina HiSeq	Phase_I	C9JRY8|C9JZD7|Q8TC00|Q9H0F0	Missense_Mutation	SNP	ENST00000395665.4	37	CCDS11199.3	.	.	.	.	.	.	.	.	.	.	T	9.638	1.138186	0.21123	2.27E-4	0.0	ENSG00000171931	ENST00000395667;ENST00000308799;ENST00000301938;ENST00000395665	T;T;T;T	0.77098	-1.07;-1.07;-1.07;-1.07	3.62	3.62	0.41486	.	0.542452	0.13237	U	0.403195	T	0.74943	0.3783	M	0.66939	2.045	0.09310	N	1	P;P;P;P	0.44429	0.663;0.835;0.533;0.835	B;B;B;B	0.43889	0.343;0.435;0.185;0.435	T	0.67562	-0.5639	10	0.54805	T	0.06	.	5.4477	0.16546	0.0:0.13:0.0:0.87	.	851;913;904;903	Q5XX13-3;Q5XX13-2;Q5XX13;Q5XX13-4	.;.;FBW10_HUMAN;.	A	903;913;851;904	ENSP00000379026:V903A;ENSP00000310382:V913A;ENSP00000306937:V851A;ENSP00000379025:V904A	ENSP00000306937:V851A	V	+	2	0	FBXW10	18622888	0.187000	0.23238	0.327000	0.25402	0.635000	0.38103	3.727000	0.54984	1.477000	0.48234	0.338000	0.21704	GTC		0.488	FBXW10-003	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000313531.2	NM_031456		C	18682163	T	C	18682163	3	2	632	1	0	0	0	0	1	0	0	0	5770	1667	58	3	2762	3	FBXW10	17	18682163	Missense_Mutation	SNP	T	TCGA-KL-8333-01A-11D-2310-10		18682163	62513047	45	38955										
RNF43	54894	hgsc.bcm.edu;ucsc.edu	37	chr17	56448329	56448329	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	cgaggactctccagcttgacGatgctgatgaatccaggctc	11	12	1	3			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr17:56448329G>T	ENST00000584437.1	-	2	2273	c.318C>A	c.(316-318)atC>atA	p.I106I	RNF43_ENST00000581868.1_5'UTR|RNF43_ENST00000577625.1_5'UTR|RNF43_ENST00000407977.2_Silent_p.I106I|RNF43_ENST00000500597.2_Intron|RNF43_ENST00000583753.1_Intron|RNF43_ENST00000577716.1_Silent_p.I106I|BZRAP1-AS1_ENST00000583841.1_RNA			Q68DV7	RNF43_HUMAN	ring finger protein 43	106					negative regulation of Wnt signaling pathway (GO:0030178)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|stem cell proliferation (GO:0072089)|Wnt receptor catabolic process (GO:0038018)|Wnt signaling pathway (GO:0016055)	endoplasmic reticulum (GO:0005783)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)	frizzled binding (GO:0005109)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|biliary_tract(5)|breast(1)|central_nervous_system(1)|endometrium(10)|kidney(2)|large_intestine(14)|lung(9)|ovary(2)|pancreas(10)|prostate(1)|skin(4)	60	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CCAGCTTGACGATGCTGATGA	0.592																																																0													83	68	73					17																	56448329		2203	4300	6503	SO:0001819	synonymous_variant	54894				CCDS11607.1	17q23.2	2013-01-09						"RING-type (C3HC4) zinc fingers"	18505	protein-coding gene	gene with protein product		612482					Standard	NM_017763		Approved	FLJ20315, DKFZp781H0392, URCC	uc002iwh.4	Q68DV7		ENST00000584437.1:c.318C>A	17.37:g.56448329G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K4R2|B7Z443|B7Z5D5|B7Z5J5|Q65ZA4|Q6AI04|Q9NXD0	Silent	SNP	ENST00000584437.1	37	CCDS11607.1																																																																																				0.592	RNF43-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444713.1	NM_017763		T	56448329	G	T	56448329	2	4	632	1	0	0	0	0	0	0	0	1	13508	1048	37	4		4	RNF43	17	56448329	Silent	SNP	G	TCGA-KL-8333-01A-11D-2310-10	37766166	56448329	24746881	46	38956										
FASN	2194	ucsc.edu	37	chr17	80049269	80049269	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	gtcctggctgtgccggaggcCctgctccagcagcttctgca	13	15	1	0			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr17:80049269C>T	ENST00000306749.2	-	9	1539	c.1321G>A	c.(1321-1323)Ggc>Agc	p.G441S		NM_004104.4	NP_004095.4	P49327	FAS_HUMAN	fatty acid synthase	441	Acyl and malonyl transferases. {ECO:0000250}.				acetyl-CoA metabolic process (GO:0006084)|cellular lipid metabolic process (GO:0044255)|cellular response to interleukin-4 (GO:0071353)|energy reserve metabolic process (GO:0006112)|fatty acid biosynthetic process (GO:0006633)|fatty acid metabolic process (GO:0006631)|long-chain fatty-acyl-CoA biosynthetic process (GO:0035338)|osteoblast differentiation (GO:0001649)|pantothenate metabolic process (GO:0015939)|positive regulation of cellular metabolic process (GO:0031325)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|glycogen granule (GO:0042587)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase activity (GO:0047451)|3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity (GO:0004317)|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity (GO:0004316)|3-oxoacyl-[acyl-carrier-protein] synthase activity (GO:0004315)|[acyl-carrier-protein] S-acetyltransferase activity (GO:0004313)|[acyl-carrier-protein] S-malonyltransferase activity (GO:0004314)|drug binding (GO:0008144)|enoyl-[acyl-carrier-protein] reductase (NADPH, A-specific) activity (GO:0047117)|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity (GO:0004319)|fatty acid synthase activity (GO:0004312)|myristoyl-[acyl-carrier-protein] hydrolase activity (GO:0016295)|NADPH binding (GO:0070402)|oleoyl-[acyl-carrier-protein] hydrolase activity (GO:0004320)|palmitoyl-[acyl-carrier-protein] hydrolase activity (GO:0016296)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			central_nervous_system(3)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(12)|prostate(3)|skin(2)|urinary_tract(1)	34	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)	TGCCGGAGGCCCTGCTCCAGC	0.721																																					Colon(59;314 1043 11189 28578 32273)											0													16	20	19					17																	80049269		2183	4284	6467	SO:0001583	missense	2194			U26644	CCDS11801.1	17q25	2012-01-31			ENSG00000169710	ENSG00000169710	2.3.1.85	"Short chain dehydrogenase/reductase superfamily / Atypical members"	3594	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 27X, member 1"	600212				7835891, 7567999, 19027726	Standard	NM_004104		Approved	FAS, SDR27X1	uc002kdu.3	P49327		ENST00000306749.2:c.1321G>A	17.37:g.80049269C>T	ENSP00000304592:p.Gly441Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q13479|Q16702|Q4LE83|Q6P4U5|Q6SS02|Q969R1|Q96C68|Q96IT0	Missense_Mutation	SNP	ENST00000306749.2	37	CCDS11801.1	.	.	.	.	.	.	.	.	.	.	C	7.488	0.650141	0.14516	.	.	ENSG00000169710	ENST00000306749	T	0.26223	1.75	4.41	4.41	0.53225	.	0.120650	0.56097	D	0.000026	T	0.16685	0.0401	L	0.38175	1.15	0.43126	D	0.994857	B	0.20052	0.041	B	0.16289	0.015	T	0.10314	-1.0635	10	0.27785	T	0.31	-42.7918	5.2574	0.15553	0.0:0.7415:0.0:0.2585	.	441	P49327	FAS_HUMAN	S	441	ENSP00000304592:G441S	ENSP00000304592:G441S	G	-	1	0	FASN	77642558	1.000000	0.71417	0.974000	0.42286	0.050000	0.14768	2.796000	0.47869	2.298000	0.77334	0.484000	0.47621	GGC		0.721	FASN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000442369.1	NM_004104		T	80049269	C	T	80049269	3	4	632	1	0	0	0	0	1	0	0	0	5690	623	22	2	6354	2	FASN	17	80049269	Missense_Mutation	SNP	C	TCGA-KL-8333-01A-11D-2310-10	23600940	80049269	1145941	47	38957										
EPS15L1	58513	bcgsc.ca	37	chr19	16513266	16513266	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	cctgtgggcctcctggcggcTttcatgcagctgggaaagtt	14	11	1	0			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr19:16513266T>C	ENST00000248070.6	-	16	1796	c.1657A>G	c.(1657-1659)Agc>Ggc	p.S553G	EPS15L1_ENST00000597937.1_Missense_Mutation_p.S553G|EPS15L1_ENST00000455140.2_Missense_Mutation_p.S553G|EPS15L1_ENST00000602009.1_Missense_Mutation_p.S399G|EPS15L1_ENST00000535753.2_Missense_Mutation_p.S553G|EPS15L1_ENST00000594975.1_Missense_Mutation_p.S553G	NM_021235.2	NP_067058.1	Q9UBC2	EP15R_HUMAN	epidermal growth factor receptor pathway substrate 15-like 1	553					endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)	clathrin coat of coated pit (GO:0030132)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(12)|ovary(4)|skin(2)	30						TCCTGGCGGCTTTCATGCAGC	0.542																																																0													56	56	56					19																	16513266		2203	4300	6503	SO:0001583	missense	58513			AF110265	CCDS32944.1, CCDS58653.1, CCDS58654.1, CCDS59363.1	19p13.12	2013-01-10				ENSG00000127527		"EF-hand domain containing"	24634	protein-coding gene	gene with protein product							Standard	NM_001258374		Approved	eps15R	uc002ndx.4	Q9UBC2		ENST00000248070.6:c.1657A>G	19.37:g.16513266T>C	ENSP00000248070:p.Ser553Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRF3|A5PL29|B4DKA3	Missense_Mutation	SNP	ENST00000248070.6	37	CCDS32944.1	.	.	.	.	.	.	.	.	.	.	T	13.00	2.106253	0.37145	.	.	ENSG00000127527	ENST00000455140;ENST00000248070;ENST00000535753	T;T;T	0.33654	1.55;1.8;1.4	5.5	3.17	0.36434	.	0.087286	0.85682	D	0.000000	T	0.26268	0.0641	L	0.43152	1.355	0.46241	D	0.998942	B;B;P;P;B;B	0.42078	0.154;0.286;0.77;0.626;0.042;0.156	B;B;B;B;B;B	0.37387	0.08;0.082;0.248;0.156;0.055;0.167	T	0.02852	-1.1102	10	0.41790	T	0.15	.	7.4424	0.27192	0.1478:0.0:0.134:0.7181	.	553;553;552;553;553;553	A8K5P4;A5PL29;A5PKY0;A2RRF3;Q9UBC2;G3V0H2	.;.;.;.;EP15R_HUMAN;.	G	553	ENSP00000393313:S553G;ENSP00000248070:S553G;ENSP00000440103:S553G	ENSP00000248070:S553G	S	-	1	0	EPS15L1	16374266	1.000000	0.71417	0.931000	0.37212	0.912000	0.54170	4.411000	0.59781	0.893000	0.36288	0.533000	0.62120	AGC		0.542	EPS15L1-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000461040.1	NM_021235		C	16513266	T	C	16513266	3	2	632	1	0	0	0	0	1	0	0	0	5195	1609	56	3	969	3	EPS15L1	19	16513266	Missense_Mutation	SNP	T	TCGA-KL-8333-01A-11D-2310-10		16513266	42615717	48	38958										
ZNF98	148198	mdanderson.org	37	chr19	22574547	22574547	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	gtgaggactggttaaaagctTtgccacattcttcacatttg	9	8	2	1			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr19:22574547T>A	ENST00000357774.5	-	4	1611	c.1490A>T	c.(1489-1491)aAa>aTa	p.K497I		NM_001098626.1	NP_001092096.1	A6NK75	ZNF98_HUMAN	zinc finger protein 98	497					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(8)|lung(16)|ovary(1)|prostate(4)|skin(1)|upper_aerodigestive_tract(2)	37		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				GTTAAAAGCTTTGCCACATTC	0.403																																																0													75	67	70					19																	22574547		2185	4284	6469	SO:0001583	missense	148198				CCDS46031.1	19p12	2014-02-14	2010-04-20	2008-06-12	ENSG00000197360	ENSG00000197360		"Zinc fingers, C2H2-type", "-"	13174	protein-coding gene	gene with protein product	"zinc finger protein 739"	603980					Standard	NM_001098626		Approved	ZNF739, F7175	uc002nqt.2	A6NK75	OTTHUMG00000182940	ENST00000357774.5:c.1490A>T	19.37:g.22574547T>A	ENSP00000350418:p.Lys497Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000357774.5	37	CCDS46031.1	.	.	.	.	.	.	.	.	.	.	.	12.78	2.041722	0.35989	.	.	ENSG00000197360	ENST00000357774	T	0.35048	1.33	1.26	0.0148	0.14101	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.57784	0.2077	M	0.87097	2.86	0.26544	N	0.974034	D	0.59767	0.986	D	0.74674	0.984	T	0.48198	-0.9056	9	0.87932	D	0	.	5.2489	0.15512	0.2563:0.0:0.0:0.7437	.	497	A6NK75	ZNF98_HUMAN	I	497	ENSP00000350418:K497I	ENSP00000350418:K497I	K	-	2	0	ZNF98	22366387	0.984000	0.35163	0.017000	0.16124	0.011000	0.07611	3.858000	0.55979	-0.306000	0.08818	-1.118000	0.02043	AAA		0.403	ZNF98-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464398.1	NM_001098626		A	22574547	T	A	22574547	3	1	632	1	0	0	0	0	1	0	0	0	18215	1841	64	5	232	5	ZNF98	19	22574547	Missense_Mutation	SNP	T	TCGA-KL-8333-01A-11D-2310-10	6061281	22574547	36554436	49	38959										
ZNF416	55659	mdanderson.org	37	chr19	58084930	58084930	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	tcggtcaggtgcaaaatgtcGgtcaggaatgggacacacat	13	8	2	0	rs3746222	byFrequency	TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr19:58084930G>A	ENST00000196489.3	-	4	564	c.342C>T	c.(340-342)acC>acT	p.T114T		NM_017879.1	NP_060349.1	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	114					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(3)|large_intestine(5)|lung(12)|prostate(1)	22		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)		GCAAAATGTCGGTCAGGAATG	0.507													G|||	839	0.167532	0.202	0.1369	5008	,	,		20042	0.0942		0.2078	False		,,,				2504	0.1769															0								G		852,3554	334.4+/-303.4	76,700,1427	121	104	110		342	-2.1	0	19	dbSNP_107	110	1661,6939	307.2+/-308.3	153,1355,2792	no	coding-synonymous	ZNF416	NM_017879.1		229,2055,4219	AA,AG,GG		19.314,19.3373,19.3219		114/595	58084930	2513,10493	2203	4300	6503	SO:0001819	synonymous_variant	55659			BC000130	CCDS12954.1	19q13.4	2013-01-08				ENSG00000083817		"Zinc fingers, C2H2-type", "-"	20645	protein-coding gene	gene with protein product							Standard	NM_017879		Approved	FLJ20557	uc002qpf.3	Q9BWM5		ENST00000196489.3:c.342C>T	19.37:g.58084930G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NWW8	Silent	SNP	ENST00000196489.3	37	CCDS12954.1																																																																																				0.507	ZNF416-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466787.1	NM_017879		A	58084930	G	A	58084930	2	1	632	1	0	0	0	0	0	0	0	1	17905	1103	39	1		1	ZNF416	19	58084930	Silent	SNP	G	TCGA-KL-8333-01A-11D-2310-10	35510383	58084930	1044053	50	38960										
ZNF814	730051	hgsc.bcm.edu	37	chr19	58385793	58385793	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	attctccacattcataaggtCttttcccagtgtgaactctc	5	12	4	1	rs113623532		TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr19:58385793C>T	ENST00000435989.2	-	3	1199	c.965G>A	c.(964-966)aGa>aAa	p.R322K	ZNF814_ENST00000595295.1_Intron|ZNF814_ENST00000597832.1_Intron|ZNF814_ENST00000596604.1_Intron|ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000597342.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	322					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						TTCATAAGGTCTTTTCCCAGT	0.358																																																0													15	12	13					19																	58385793		687	1562	2249	SO:0001583	missense	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.965G>A	19.37:g.58385793C>T	ENSP00000410545:p.Arg322Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF35	Missense_Mutation	SNP	ENST00000435989.2	37	CCDS46212.1	.	.	.	.	.	.	.	.	.	.	.	0.023	-1.395361	0.01175	.	.	ENSG00000204514	ENST00000435989	T	0.12361	2.69	2.27	9.47E-4	0.14044	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.03608	0.0103	N	0.02225	-0.63	0.09310	N	0.999999	B	0.29301	0.241	B	0.28916	0.096	T	0.40534	-0.9558	9	0.02654	T	1	.	4.6969	0.12808	0.0:0.4166:0.0:0.5834	.	322	B7Z6K7	ZN814_HUMAN	K	322	ENSP00000410545:R322K	ENSP00000410545:R322K	R	-	2	0	ZNF814	63077605	0.000000	0.05858	0.024000	0.17045	0.009000	0.06853	-1.883000	0.01623	0.331000	0.23511	-1.381000	0.01174	AGA		0.358	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		T	58385793	C	T	58385793	3	4	632	1	0	0	0	0	1	0	0	0	18188	913	32	2	1606	2	ZNF814	19	58385793	Missense_Mutation	SNP	C	TCGA-KL-8333-01A-11D-2310-10	300863	58385793	743190	51	38961										
SIRPG	55423	mdanderson.org	37	chr20	1617069	1617069	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	atgtctctgggagagaagccAtgggactcacaggtgaaact	13	8	2	2	rs2277761	byFrequency	TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr20:1617069A>G	ENST00000303415.3	-	3	577	c.513T>C	c.(511-513)caT>caC	p.H171H	SIRPG_ENST00000381583.2_Silent_p.H171H|SIRPG_ENST00000381580.1_Silent_p.H138H|SIRPG_ENST00000344103.4_Intron|SIRPG_ENST00000216927.4_Silent_p.H171H|RP11-77C3.3_ENST00000437384.1_RNA|RP11-77C3.3_ENST00000456177.1_RNA	NM_018556.3	NP_061026.2	Q9P1W8	SIRPG_HUMAN	signal-regulatory protein gamma	171	Ig-like C1-type 1.				blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell-cell signaling (GO:0007267)|intracellular signal transduction (GO:0035556)|leukocyte migration (GO:0050900)|negative regulation of cell proliferation (GO:0008285)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cell-cell adhesion (GO:0022409)|positive regulation of T cell activation (GO:0050870)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)				breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(14)|ovary(1)|prostate(2)|stomach(1)	27						GAGAGAAGCCATGGGACTCAC	0.557													a|||	1148	0.229233	0.1619	0.366	5008	,	,		19683	0.2103		0.2376	False		,,,				2504	0.2342															0								A	,,	726,3680		54,618,1531	149	133	138		513,513,	-4.2	0	20	dbSNP_100	138	2134,6466		266,1602,2432	no	coding-synonymous,coding-synonymous,intron	SIRPG	NM_001039508.1,NM_018556.3,NM_080816.2	,,	320,2220,3963	GG,GA,AA		24.814,16.4775,21.9899	,,	171/277,171/388,	1617069	2860,10146	2203	4300	6503	SO:0001819	synonymous_variant	55423			AB042624	CCDS13020.2, CCDS13021.2, CCDS33434.1	20p13	2013-01-11	2006-02-03	2006-02-03	ENSG00000089012	ENSG00000089012		"Signal-regulatory proteins", "CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C1-set domain containing"	15757	protein-coding gene	gene with protein product		605466	"signal-regulatory protein beta 2"	SIRPB2		11185750, 16339511	Standard	XM_005260749		Approved	bA77C3.1, SIRP-B2, SIRPgamma, CD172g	uc002wfm.1	Q9P1W8	OTTHUMG00000031680	ENST00000303415.3:c.513T>C	20.37:g.1617069A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B1AKP6|Q5D051|Q5JV25|Q5MKL4|Q8WWA5|Q9NQK8	Silent	SNP	ENST00000303415.3	37	CCDS13020.2																																																																																				0.557	SIRPG-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077566.2	NM_018556		G	1617069	A	G	1617069	2	3	632	1	0	0	0	0	0	0	0	1	14349	214	8	3		3	SIRPG	20	1617069	Silent	SNP	A	TCGA-KL-8333-01A-11D-2310-10		1617069	61408451	52	38962										
C20orf117	140710	bcgsc.ca	37	chr20	35434275	35434275	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ccgtgttctgggtccagctgTcccccgtgcaggccttgtta	12	14	1	0			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr20:35434275T>C	ENST00000357779.3	-	9	2512	c.2186A>G	c.(2185-2187)gAc>gGc	p.D729G	SOGA1_ENST00000456801.2_Missense_Mutation_p.D570G|SOGA1_ENST00000279034.6_Missense_Mutation_p.D729G|SOGA1_ENST00000237536.4_Missense_Mutation_p.D967G			O94964	SOGA1_HUMAN	suppressor of glucose, autophagy associated 1	729					insulin receptor signaling pathway (GO:0008286)|negative regulation of gluconeogenesis (GO:0045721)|regulation of autophagy (GO:0010506)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)				endometrium(5)|kidney(1)|lung(21)|urinary_tract(1)	28						GGTCCAGCTGTCCCCCGTGCA	0.488																																																0													92	94	94					20																	35434275		1964	4144	6108	SO:0001583	missense	140710			AK126630	CCDS46598.1, CCDS54459.1	20q11.23	2012-03-01	2012-02-27	2012-02-27	ENSG00000149639	ENSG00000149639			16111	protein-coding gene	gene with protein product	"suppressor of glucose by autophagy", "suppressor of glucose from autophagy"		"chromosome 20 open reading frame 117", "KIAA0889"	C20orf117, KIAA0889		20813965	Standard	NM_080627		Approved	dJ132F21.1, FLJ44670, SOGA	uc021wcx.1	O94964	OTTHUMG00000032395	ENST00000357779.3:c.2186A>G	20.37:g.35434275T>C	ENSP00000350424:p.Asp729Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NK10|Q14DB2|Q5JW51|Q6ZTG8	Missense_Mutation	SNP	ENST00000357779.3	37		.	.	.	.	.	.	.	.	.	.	T	15.24	2.775899	0.49786	.	.	ENSG00000149639	ENST00000237536;ENST00000279034;ENST00000456801;ENST00000357779	T;T;T;T	0.19394	2.15;2.2;2.2;2.2	5.27	5.27	0.74061	.	0.098624	0.64402	D	0.000002	T	0.17109	0.0411	L	0.34521	1.04	0.37209	D	0.904735	B	0.02656	0.0	B	0.06405	0.002	T	0.09975	-1.0650	10	0.23302	T	0.38	-39.071	14.3169	0.66457	0.0:0.0:0.0:1.0	.	729	O94964-4	.	G	967;729;570;729	ENSP00000237536:D967G;ENSP00000279034:D729G;ENSP00000413886:D570G;ENSP00000350424:D729G	ENSP00000237536:D967G	D	-	2	0	KIAA0889	34867689	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	5.552000	0.67281	2.216000	0.71823	0.460000	0.39030	GAC		0.488	SOGA1-201	KNOWN	basic	protein_coding	protein_coding		NM_199181		C	35434275	T	C	35434275	3	2	632	1	0	0	0	0	1	0	0	0	2085	1667	58	3	2175	3	C20orf117	20	35434275	Missense_Mutation	SNP	T	TCGA-KL-8333-01A-11D-2310-10	33817206	35434275	27591245	53	38963										
PRIC285	85441	broad.mit.edu	37	chr20	62194557	62194557	+	Frame_Shift_Del	DEL	A	A	-													0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	cactgcccagctcccgggccAcctccaggaaatggccacag							TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr20:62194557delA	ENST00000467148.1	-	8	5687	c.5618delT	c.(5617-5619)gtgfs	p.V1873fs	HELZ2_ENST00000427522.2_Frame_Shift_Del_p.V1304fs	NM_001037335.2	NP_001032412.2	Q9BYK8	HELZ2_HUMAN	helicase with zinc finger 2, transcriptional coactivator	1873				V -> A (in Ref. 2; BAE46995). {ECO:0000305}.	cellular lipid metabolic process (GO:0044255)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	membrane (GO:0016020)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)										CTCCCGGGCCACCTCCAGGAA	0.701																																																0													7	8	7					20																	62194557		2134	4206	6340	SO:0001589	frameshift_variant	85441			AB201715	CCDS13527.1, CCDS33508.1	20q13.33	2012-09-26			ENSG00000130589	ENSG00000130589			30021	protein-coding gene	gene with protein product	"peroxisomal proliferator activated receptor A interacting complex 285", "PPARG-DBD-interacting protein 1"	611265				11214970, 12189208, 16239304	Standard	NM_001037335		Approved	PDIP1, PRIC285, KIAA1769	uc002yfm.2	Q9BYK8	OTTHUMG00000032969	ENST00000467148.1:c.5618delT	20.37:g.62194557delA	ENSP00000417401:p.Val1873fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q3C2G2|Q4VXQ1|Q8TEF3|Q96ND3|Q9C094	Frame_Shift_Del	DEL	ENST00000467148.1	37	CCDS33508.1																																																																																				0.701	HELZ2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354127.1	NM_001037335		-	62194557	A	-	62194557	7	5	632	1	0	1	0	1	0	0	0	0	12495	159	6	0	2379	0	PRIC285	20	62194557	Frame_Shift_Del	DEL	A	TCGA-KL-8333-01A-11D-2310-10	26760282	62194557	830963	54	38964										
CCDC157	550631	broad.mit.edu	37	chr22	30766573	30766573	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	cctgtgacgcatgcgccagcGtccagggaagcctgcagaag	14	13	0	2	rs370198354		TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chr22:30766573G>A	ENST00000405659.1	+	5	1388	c.679G>A	c.(679-681)Gtc>Atc	p.V227I	CCDC157_ENST00000338306.3_Missense_Mutation_p.V227I			Q569K6	CC157_HUMAN	coiled-coil domain containing 157	227										central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(1)|lung(5)|skin(3)|upper_aerodigestive_tract(1)	15						ATGCGCCAGCGTCCAGGGAAG	0.617																																																0													81	69	73					22																	30766573		2203	4300	6503	SO:0001583	missense	550631			BC018040	CCDS33632.2	22q12.2	2009-03-05			ENSG00000187860	ENSG00000187860			33854	protein-coding gene	gene with protein product							Standard	NM_001017437		Approved		uc011aku.2	Q569K6	OTTHUMG00000151007	ENST00000405659.1:c.679G>A	22.37:g.30766573G>A	ENSP00000385357:p.Val227Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VD76|Q9BYA4	Missense_Mutation	SNP	ENST00000405659.1	37	CCDS33632.2	.	.	.	.	.	.	.	.	.	.	G	19.49	3.838226	0.71373	.	.	ENSG00000187860	ENST00000405659;ENST00000338306	T;T	0.27720	1.65;1.65	5.54	4.53	0.55603	.	0.136815	0.47852	D	0.000203	T	0.37237	0.0996	L	0.56769	1.78	0.80722	D	1	D	0.61697	0.99	P	0.47075	0.536	T	0.29518	-1.0009	10	0.51188	T	0.08	-46.0966	14.4936	0.67667	0.0698:0.0:0.9302:0.0	.	227	Q569K6	CC157_HUMAN	I	227	ENSP00000385357:V227I;ENSP00000343087:V227I	ENSP00000343087:V227I	V	+	1	0	CCDC157	29096573	0.982000	0.34865	0.965000	0.40720	0.155000	0.21991	1.856000	0.39389	1.586000	0.49944	-0.136000	0.14681	GTC		0.617	CCDC157-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000320936.1	NM_001017437		A	30766573	G	A	30766573	3	1	632	1	0	0	0	0	1	0	0	0	2791	1145	40	1	689	1	CCDC157	22	30766573	Missense_Mutation	SNP	G	TCGA-KL-8333-01A-11D-2310-10		30766573	20537993	55	38965										
UBA1	7317	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	47062169	47062169	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ctgctggggatctggcacccAtaaacgccttcattgggggc	13	12	2	0			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chrX:47062169A>G	ENST00000335972.6	+	11	1372	c.1189A>G	c.(1189-1191)Ata>Gta	p.I397V	INE1_ENST00000456273.1_RNA|UBA1_ENST00000490869.1_3'UTR|UBA1_ENST00000377351.4_Missense_Mutation_p.I397V	NM_003334.3	NP_003325.2	P22314	UBA1_HUMAN	ubiquitin-like modifier activating enzyme 1	397	2 approximate repeats.				cell death (GO:0008219)|cellular response to DNA damage stimulus (GO:0006974)|modification-dependent protein catabolic process (GO:0019941)|protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|ubiquitin activating enzyme activity (GO:0004839)|ubiquitin-protein transferase activity (GO:0004842)			breast(2)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(7)|ovary(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	31						TCTGGCACCCATAAACGCCTT	0.602																																																0													37	31	33					X																	47062169		2203	4299	6502	SO:0001583	missense	7317			AF258566	CCDS14275.1	Xp11.23	2014-08-13	2007-11-30	2007-11-30	ENSG00000130985	ENSG00000130985	6.3.2.19	"Ubiquitin-like modifier activating enzymes"	12469	protein-coding gene	gene with protein product	"UBA1, ubiquitin-activating enzyme E1 homolog (yeast)", "POC20 centriolar protein homolog (Chlamydomonas)"	314370	"ubiquitin-activating enzyme E1 (A1S9T and BN75 temperature sensitivity complementing)", "ubiquitin-activating enzyme E1"	A1S9T, GXP1, UBE1		1845793	Standard	NM_153280		Approved	UBE1X, POC20, CFAP124	uc004dhj.4	P22314	OTTHUMG00000021436	ENST00000335972.6:c.1189A>G	X.37:g.47062169A>G	ENSP00000338413:p.Ile397Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JRR8|Q96E13	Missense_Mutation	SNP	ENST00000335972.6	37	CCDS14275.1	.	.	.	.	.	.	.	.	.	.	A	8.371	0.835280	0.16820	.	.	ENSG00000130985	ENST00000377351;ENST00000335972	T;T	0.44482	0.92;0.92	4.85	3.71	0.42584	Molybdenum cofactor biosynthesis, MoeB (1);NAD(P)-binding domain (1);	0.141737	0.64402	D	0.000008	T	0.18964	0.0455	N	0.05177	-0.1	0.80722	D	1	B	0.02656	0.0	B	0.06405	0.002	T	0.06285	-1.0835	10	0.30854	T	0.27	-4.3445	6.4032	0.21650	0.825:0.0:0.175:0.0	.	397	P22314	UBA1_HUMAN	V	397	ENSP00000366568:I397V;ENSP00000338413:I397V	ENSP00000338413:I397V	I	+	1	0	UBA1	46947113	0.061000	0.20836	0.742000	0.31022	0.959000	0.62525	0.558000	0.23469	1.921000	0.55644	0.427000	0.28365	ATA		0.602	UBA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056389.1	NM_003334		G	47062169	A	G	47062169	3	3	632	1	0	0	0	0	1	0	0	0	16839	217	8	3	1227	3	UBA1	23	47062169	Missense_Mutation	SNP	A	TCGA-KL-8333-01A-11D-2310-10		47062169	108208391	56	38966										
NUDT10	170685	broad.mit.edu	37	chrX	51076024	51076024	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	gtccgagaggtgtacgaagaGgcgggagtcaaggggaagtt	19	5	1	2	rs143435240		TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chrX:51076024G>A	ENST00000376006.3	+	2	427	c.207G>A	c.(205-207)gaG>gaA	p.E69E	NUDT10_ENST00000356450.2_Silent_p.E69E	NM_153183.2	NP_694853.1	Q9BW91	NUDT9_HUMAN	nudix (nucleoside diphosphate linked moiety X)-type motif 10	234					ADP catabolic process (GO:0046032)|IDP catabolic process (GO:0046709)|nucleobase-containing small molecule catabolic process (GO:0034656)|nucleobase-containing small molecule metabolic process (GO:0055086)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|mitochondrial matrix (GO:0005759)	adenosine-diphosphatase activity (GO:0043262)|ADP-ribose diphosphatase activity (GO:0047631)|ADP-sugar diphosphatase activity (GO:0019144)	p.E69E(8)		cervix(1)|endometrium(8)|kidney(1)|large_intestine(1)|lung(1)|prostate(3)|upper_aerodigestive_tract(1)	16	Ovarian(276;0.236)					TGTACGAAGAGGCGGGAGTCA	0.657																																					NSCLC(90;1817 2035 37909 38249)											8	Substitution - coding silent(8)	endometrium(5)|cervix(1)|prostate(1)|lung(1)											52	62	59					X																	51076024		2203	4300	6503	SO:0001819	synonymous_variant	170685			AF469196	CCDS35278.1	Xp11.22-p11.1	2014-05-20			ENSG00000122824	ENSG00000122824		"Nudix motif containing"	17621	protein-coding gene	gene with protein product		300527				12105228	Standard	NM_153183		Approved	DIPP3a, hDIPP3alpha	uc004dph.3	Q8NFP7	OTTHUMG00000021530	ENST00000376006.3:c.207G>A	X.37:g.51076024G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NBN1|Q8NCB9|Q8NG25	Silent	SNP	ENST00000376006.3	37	CCDS35278.1																																																																																				0.657	NUDT10-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056578.1	NM_153183		A	51076024	G	A	51076024	2	1	632	1	0	0	0	0	0	0	0	1	10733	991	35	2		2	NUDT10	23	51076024	Silent	SNP	G	TCGA-KL-8333-01A-11D-2310-10	4013855	51076024	104194536	57	38967										
GPR112	139378	broad.mit.edu	37	chrX	135429078	135429078	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ccacctttggatcagactgcTtccacaaccattgttattgt	6	12	1	1			TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chrX:135429078T>C	ENST00000394143.1	+	6	3504	c.3213T>C	c.(3211-3213)gcT>gcC	p.A1071A	GPR112_ENST00000370652.1_Silent_p.A1071A|GPR112_ENST00000394141.1_Silent_p.A866A|GPR112_ENST00000287534.4_Silent_p.A1008A|GPR112_ENST00000412101.1_Silent_p.A866A	NM_153834.3	NP_722576.3	Q8IZF6	GP112_HUMAN	G protein-coupled receptor 112	1071					G-protein coupled receptor signaling pathway (GO:0007186)|neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			NS(2)|breast(13)|central_nervous_system(2)|cervix(3)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(33)|lung(97)|ovary(5)|pancreas(2)|prostate(4)|skin(10)|upper_aerodigestive_tract(1)|urinary_tract(2)	199	Acute lymphoblastic leukemia(192;0.000127)					ATCAGACTGCTTCCACAACCA	0.473																																																0													269	248	255					X																	135429078		2203	4300	6503	SO:0001819	synonymous_variant	139378			AY140954	CCDS35409.1	Xq26.3	2014-08-08			ENSG00000156920	ENSG00000156920		"-", "GPCR / Class B : Orphans"	18992	protein-coding gene	gene with protein product						12435584	Standard	XM_005262367		Approved	RP1-299I16, PGR17	uc004ezu.1	Q8IZF6	OTTHUMG00000022508	ENST00000394143.1:c.3213T>C	X.37:g.135429078T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2A2J1|A2A2J2|Q5EGP2|Q86SM6	Silent	SNP	ENST00000394143.1	37	CCDS35409.1																																																																																				0.473	GPR112-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000286639.1			C	135429078	T	C	135429078	2	2	632	1	0	0	0	0	0	0	0	1	6636	1596	56	3		3	GPR112	23	135429078	Silent	SNP	T	TCGA-KL-8333-01A-11D-2310-10	84353054	135429078	19841482	58	38968										
ABCD1	215	mdanderson.org	37	chrX	153008675	153008675	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0517241379310345	3	1	1.15280464216634	0	1.26808510638298	0.142857142857143	1	0	ctctcggcccggacccccagGcccaagtacgccctcctgga	10	20	1	0	rs201197921		TCGA-KL-8333-01A-11D-2310-10	TCGA-KL-8333-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c56505cb-e150-408d-9df6-3af4e608c376	422375ba-7c98-42a5-b8cc-f88084a938f6	g.chrX:153008675G>A	ENST00000218104.3	+	9	2265	c.1866G>A	c.(1864-1866)agG>agA	p.R622R	U52111.14_ENST00000434284.1_RNA	NM_000033.3	NP_000024.2	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member 1	622	ABC transporter. {ECO:0000255|PROSITE- ProRule:PRU00434}.				alpha-linolenic acid metabolic process (GO:0036109)|ATP catabolic process (GO:0006200)|cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation (GO:0006635)|fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)|linoleic acid metabolic process (GO:0043651)|long-chain fatty acid catabolic process (GO:0042758)|peroxisomal long-chain fatty acid import (GO:0015910)|peroxisomal membrane transport (GO:0015919)|peroxisome organization (GO:0007031)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|unsaturated fatty acid metabolic process (GO:0033559)|very long-chain fatty acid catabolic process (GO:0042760)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|integral component of peroxisomal membrane (GO:0005779)|membrane (GO:0016020)|mitochondrion (GO:0005739)|perinuclear region of cytoplasm (GO:0048471)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|peroxisomal fatty-acyl-CoA transporter activity (GO:0005325)|protein homodimerization activity (GO:0042803)|transporter activity (GO:0005215)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(6)|urinary_tract(2)	18	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGACCCCCAGGCCCAAGTACG	0.672																																																0													14	14	14					X																	153008675		2201	4290	6491	SO:0001630	splice_region_variant	215			Z21876	CCDS14728.1	Xq28	2012-03-14			ENSG00000101986	ENSG00000101986		"ATP binding cassette transporters / subfamily D"	61	protein-coding gene	gene with protein product		300371		ALD		8441467, 6795626	Standard	NM_000033		Approved	AMN, ALDP, adrenoleukodystrophy	uc004fif.2	P33897	OTTHUMG00000024215	ENST00000218104.3:c.1866-1G>A	X.37:g.153008675G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6GTZ2	Silent	SNP	ENST00000218104.3	37	CCDS14728.1																																																																																				0.672	ABCD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000061041.1	NM_000033	Silent	A	153008675	G	A	153008675	5	1	632	1	0	0	0	0	0	0	1	0	60	1217	42	2	1900	2	ABCD1	23	153008675	Splice_Site	SNP	G	TCGA-KL-8333-01A-11D-2310-10	17579597	153008675	2261885	59	38969										
PDZK1IP1	10158	broad.mit.edu	37	chr1	47653017	47653017	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tcctggcaccagaagtggttGactgcaaaggcgattgcaac	12	10	0	2			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr1:47653017G>A	ENST00000294338.2	-	2	272	c.150C>T	c.(148-150)gtC>gtT	p.V50V	PDZK1IP1_ENST00000371885.1_Silent_p.V50V|PDZK1IP1_ENST00000491793.1_5'Flank	NM_005764.3	NP_005755.1	Q13113	PDZ1I_HUMAN	PDZK1 interacting protein 1	50						extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				endometrium(1)|lung(1)|prostate(1)	3						AGAAGTGGTTGACTGCAAAGG	0.622																																																0													64	55	58					1																	47653017		2202	4299	6501	SO:0001819	synonymous_variant	10158			U21049	CCDS546.1	1p33	2008-02-05			ENSG00000162366	ENSG00000162366			16887	protein-coding gene	gene with protein product		607178				9815914, 8701988, 12754212, 12837682	Standard	NM_005764		Approved	DD96, MAP17, SPAP	uc001cqw.3	Q13113	OTTHUMG00000007852	ENST00000294338.2:c.150C>T	1.37:g.47653017G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ICT9|Q96EI1	Silent	SNP	ENST00000294338.2	37	CCDS546.1																																																																																				0.622	PDZK1IP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000021655.1	NM_005764		A	47653017	G	A	47653017	2	1	633	1	0	0	0	0	0	0	0	1	11715	1277	45	2		2	PDZK1IP1	1	47653017	Silent	SNP	G	TCGA-KL-8334-01A-11D-2310-10		47653017	201597604	1	38970										
USH2A	7399	broad.mit.edu	37	chr1	216219788	216219788	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	cttacctgtgactatgtagtTctcctcactgcctgaataga	7	11	2	3			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr1:216219788T>C	ENST00000307340.3	-	32	6696	c.6310A>G	c.(6310-6312)Aac>Gac	p.N2104D	USH2A_ENST00000366943.2_Missense_Mutation_p.N2104D	NM_206933.2	NP_996816	O75445	USH2A_HUMAN	Usher syndrome 2A (autosomal recessive, mild)	2104	Fibronectin type-III 7. {ECO:0000255|PROSITE-ProRule:PRU00316}.				hair cell differentiation (GO:0035315)|inner ear receptor cell differentiation (GO:0060113)|maintenance of organ identity (GO:0048496)|photoreceptor cell maintenance (GO:0045494)|response to stimulus (GO:0050896)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	apical plasma membrane (GO:0016324)|basement membrane (GO:0005604)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|stereocilia ankle link complex (GO:0002142)|stereocilium bundle (GO:0032421)|stereocilium membrane (GO:0060171)	collagen binding (GO:0005518)|myosin binding (GO:0017022)			NS(7)|breast(20)|central_nervous_system(3)|cervix(2)|endometrium(32)|haematopoietic_and_lymphoid_tissue(4)|kidney(13)|large_intestine(71)|liver(2)|lung(282)|ovary(25)|pancreas(2)|prostate(12)|skin(22)|stomach(7)|upper_aerodigestive_tract(20)|urinary_tract(3)	527				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACTATGTAGTTCTCCTCACTG	0.403										HNSCC(13;0.011)																																						0													107	90	96					1																	216219788		2203	4300	6503	SO:0001583	missense	7399			AF055580	CCDS1516.1, CCDS31025.1	1q41	2013-02-11			ENSG00000042781	ENSG00000042781		"Fibronectin type III domain containing"	12601	protein-coding gene	gene with protein product	"usherin"	608400		USH2		9624053, 10729113	Standard	NM_007123		Approved	RP39	uc001hku.1	O75445	OTTHUMG00000037079	ENST00000307340.3:c.6310A>G	1.37:g.216219788T>C	ENSP00000305941:p.Asn2104Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VVM9|Q6S362|Q9NS27	Missense_Mutation	SNP	ENST00000307340.3	37	CCDS31025.1	.	.	.	.	.	.	.	.	.	.	T	1.716	-0.497836	0.04291	.	.	ENSG00000042781	ENST00000307340;ENST00000366943	T;T	0.54071	0.59;0.59	5.42	4.28	0.50868	Fibronectin, type III (3);Immunoglobulin-like fold (1);	0.412679	0.20460	N	0.091907	T	0.41673	0.1169	L	0.46741	1.465	0.09310	N	0.999998	B	0.09022	0.002	B	0.08055	0.003	T	0.15723	-1.0427	10	0.29301	T	0.29	.	7.6799	0.28507	0.0:0.158:0.0:0.842	.	2104	O75445	USH2A_HUMAN	D	2104	ENSP00000305941:N2104D;ENSP00000355910:N2104D	ENSP00000305941:N2104D	N	-	1	0	USH2A	214286411	0.421000	0.25465	0.989000	0.46669	0.074000	0.17049	1.333000	0.33816	2.187000	0.69744	0.528000	0.53228	AAC		0.403	USH2A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128138.1	NM_007123		C	216219788	T	C	216219788	3	2	633	1	0	0	0	0	1	0	0	0	17048	1783	62	3	9462	3	USH2A	1	216219788	Missense_Mutation	SNP	T	TCGA-KL-8334-01A-11D-2310-10	168566771	216219788	33030833	2	38971										
ENAH	55740	broad.mit.edu	37	chr1	225702514	225702515	+	Frame_Shift_Ins	INS	-	-	G													0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	gaggaggtggagggggccctINSgggggaggagggagggctac							TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr1:225702514_225702515insG	ENST00000366844.3	-	7	1452_1453	c.1001_1002insC	c.(1000-1002)ccafs	p.P334fs	ENAH_ENST00000366843.2_Frame_Shift_Ins_p.P334fs|ENAH_ENST00000284563.6_Frame_Shift_Ins_p.P581fs	NM_001008493.1|NM_018212.4	NP_001008493.1|NP_060682.2	Q8N8S7	ENAH_HUMAN	enabled homolog (Drosophila)	334	Pro-rich.				actin polymerization or depolymerization (GO:0008154)|axon guidance (GO:0007411)|intracellular transport (GO:0046907)|neural tube closure (GO:0001843)|T cell receptor signaling pathway (GO:0050852)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)|stress fiber (GO:0001725)|synapse (GO:0045202)	WW domain binding (GO:0050699)			NS(1)|breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(8)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	23	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.19)		gagggggccctgggggaggagg	0.658																																																0																																										SO:0001589	frameshift_variant	55740			AK001635	CCDS31040.1, CCDS31041.1	1q32.2	2013-08-06			ENSG00000154380	ENSG00000154380			18271	protein-coding gene	gene with protein product	"mammalian enabled"	609061				1420303	Standard	XM_005273182		Approved	FLJ10773, NDPP1, MENA	uc001hpc.1	Q8N8S7	OTTHUMG00000037742	ENST00000366844.3:c.1002dupC	1.37:g.225702519_225702519dupG	ENSP00000355809:p.Pro334fs	Somatic		WXS	Illumina HiSeq	Phase_I	D0PQI2|Q502W5|Q5T5M7|Q5VTQ9|Q5VTR0|Q9NVF3|Q9UFB8	Frame_Shift_Ins	INS	ENST00000366844.3	37	CCDS31041.1																																																																																				0.658	ENAH-006	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000357426.2	NM_018212		G	225702515	-	G	225702514	7	5	633	1	0	1	1	0	0	0	0	0	5113	1567	55	0	809	0	ENAH	1	225702514	Frame_Shift_Ins	INS	-	TCGA-KL-8334-01A-11D-2310-10	9482726	225702514	23548107	3	38972										
TRIM11	81559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	228582602	228582602	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	cgtagtccagaaagatccccAcgcgcctgggtgggtcccgg	14	14	0	2			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr1:228582602A>G	ENST00000284551.6	-	6	1489	c.1211T>C	c.(1210-1212)gTg>gCg	p.V404A	TRIM11_ENST00000493030.2_Missense_Mutation_p.V279A|TRIM11_ENST00000460651.1_5'UTR|RP11-245P10.8_ENST00000602963.1_RNA	NM_145214.2	NP_660215.1	Q96F44	TRI11_HUMAN	tripartite motif containing 11	404	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.				defense response to virus (GO:0051607)|innate immune response (GO:0045087)|negative regulation of neurogenesis (GO:0050768)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of viral entry into host cell (GO:0046597)|negative regulation of viral release from host cell (GO:1902187)|negative regulation of viral transcription (GO:0032897)|positive regulation of viral entry into host cell (GO:0046598)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(12)|ovary(1)|skin(1)	18		Prostate(94;0.0724)				AAAGATCCCCACGCGCCTGGG	0.597																																																0													71	79	76					1																	228582602		2203	4300	6503	SO:0001583	missense	81559			AF220125	CCDS31048.1	1q42.13	2013-01-09	2011-01-25		ENSG00000154370	ENSG00000154370		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	16281	protein-coding gene	gene with protein product		607868	"tripartite motif-containing 11"			11331580	Standard	NM_145214		Approved	RNF92, BIA1	uc001hss.3	Q96F44	OTTHUMG00000039773	ENST00000284551.6:c.1211T>C	1.37:g.228582602A>G	ENSP00000284551:p.Val404Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKE2|B2RB82|B3KUS3|B4DX88|Q5VSU1|Q8NCA6|Q9C022	Missense_Mutation	SNP	ENST00000284551.6	37	CCDS31048.1	.	.	.	.	.	.	.	.	.	.	A	15.81	2.943345	0.53079	.	.	ENSG00000154370	ENST00000284551	T	0.75589	-0.95	4.76	4.76	0.60689	Concanavalin A-like lectin/glucanase (1);SPla/RYanodine receptor subgroup (1);Butyrophylin-like (1);B30.2/SPRY domain (1);SPla/RYanodine receptor SPRY (1);	0.000000	0.43747	D	0.000540	D	0.87410	0.6170	M	0.90650	3.135	0.80722	D	1	P;D	0.60575	0.912;0.988	P;D	0.70935	0.741;0.971	D	0.89783	0.3962	10	0.87932	D	0	.	12.5428	0.56182	1.0:0.0:0.0:0.0	.	403;404	Q96F44-3;Q96F44	.;TRI11_HUMAN	A	404	ENSP00000284551:V404A	ENSP00000284551:V404A	V	-	2	0	TRIM11	226649225	0.970000	0.33590	0.691000	0.30163	0.025000	0.11179	8.827000	0.92041	1.920000	0.55613	0.496000	0.49642	GTG		0.597	TRIM11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000095995.3	NM_145214		G	228582602	A	G	228582602	3	3	633	1	0	0	0	0	1	0	0	0	16499	159	6	3	199	3	TRIM11	1	228582602	Missense_Mutation	SNP	A	TCGA-KL-8334-01A-11D-2310-10	2880088	228582602	20668019	4	38973										
SLC1A4	6509	ucsc.edu	37	chr2	65217143	65217143	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	atcgctgtcgcctactttggCctcaccacactgagtgcctc	8	16	1	1	rs561935539		TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr2:65217143C>A	ENST00000234256.3	+	1	609	c.366C>A	c.(364-366)ggC>ggA	p.G122G	SLC1A4_ENST00000493121.1_Intron|SLC1A4_ENST00000531327.1_Intron	NM_003038.4	NP_003029.2	P43007	SATT_HUMAN	solute carrier family 1 (glutamate/neutral amino acid transporter), member 4	122					amino acid transport (GO:0006865)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|cognition (GO:0050890)|glutamine transport (GO:0006868)|hydroxyproline transport (GO:0034589)|ion transport (GO:0006811)|L-alanine transport (GO:0015808)|L-cystine transport (GO:0015811)|L-serine transport (GO:0015825)|proline transmembrane transport (GO:0035524)|proline transport (GO:0015824)|synaptic transmission, glutamatergic (GO:0035249)|threonine transport (GO:0015826)|transmembrane transport (GO:0055085)	cell surface (GO:0009986)|centrosome (GO:0005813)|dendrite (GO:0030425)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|intermediate filament (GO:0005882)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	chloride channel activity (GO:0005254)|L-alanine transmembrane transporter activity (GO:0015180)|L-cystine transmembrane transporter activity (GO:0015184)|L-glutamine transmembrane transporter activity (GO:0015186)|L-hydroxyproline transmembrane transporter activity (GO:0034590)|L-proline transmembrane transporter activity (GO:0015193)|L-serine transmembrane transporter activity (GO:0015194)|L-threonine transmembrane transporter activity (GO:0015195)|sodium:dicarboxylate symporter activity (GO:0017153)			breast(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(3)|pancreas(1)|prostate(1)|urinary_tract(1)	13					L-Alanine(DB00160)	CCTACTTTGGCCTCACCACAC	0.682																																																0													16	18	17					2																	65217143		2203	4300	6503	SO:0001819	synonymous_variant	6509				CCDS1879.1, CCDS54362.1	2p15-p13	2013-05-22			ENSG00000115902	ENSG00000115902		"Solute carriers"	10942	protein-coding gene	gene with protein product	"alanine/serine/cysteine/threonine transporter"	600229				7896285, 8910405	Standard	NM_003038		Approved	SATT, ASCT1	uc010yqa.2	P43007	OTTHUMG00000129537	ENST00000234256.3:c.366C>A	2.37:g.65217143C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3C0|D6W5F0	Silent	SNP	ENST00000234256.3	37	CCDS1879.1																																																																																				0.682	SLC1A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251726.2	NM_003038		A	65217143	C	A	65217143	2	1	633	1	0	0	0	0	0	0	0	1	14447	726	26	4		4	SLC1A4	2	65217143	Silent	SNP	C	TCGA-KL-8334-01A-11D-2310-10		65217143	177982230	5	38974										
MPHOSPH10	10199	bcgsc.ca	37	chr2	71357850	71357850	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	agcggtgtctgacggaagtcGgcaaagccacgggtcggccc	16	12	1	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr2:71357850G>A	ENST00000244230.2	+	1	407	c.55G>A	c.(55-57)Ggc>Agc	p.G19S	MPHOSPH10_ENST00000498451.2_Missense_Mutation_p.G19S|MPHOSPH10_ENST00000468427.1_3'UTR|MCEE_ENST00000244217.5_5'Flank	NM_005791.2	NP_005782.1	O00566	MPP10_HUMAN	M-phase phosphoprotein 10 (U3 small nucleolar ribonucleoprotein)	19					negative regulation of phosphatase activity (GO:0010923)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)|rRNA processing (GO:0006364)	chromosome (GO:0005694)|nucleolus (GO:0005730)|small nucleolar ribonucleoprotein complex (GO:0005732)	poly(A) RNA binding (GO:0044822)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(2)|pancreas(2)|skin(2)|stomach(1)	26						GACGGAAGTCGGCAAAGCCAC	0.672																																																0													24	25	25					2																	71357850		2202	4297	6499	SO:0001583	missense	10199			X98494	CCDS1916.1	2p13.3	2014-06-12			ENSG00000124383	ENSG00000124383			7213	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 106"	605503				8885239, 9450966	Standard	NM_005791		Approved	MPP10, MPP10P, CT90, PPP1R106	uc002sht.2	O00566	OTTHUMG00000129715	ENST00000244230.2:c.55G>A	2.37:g.71357850G>A	ENSP00000244230:p.Gly19Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVJ8	Missense_Mutation	SNP	ENST00000244230.2	37	CCDS1916.1	.	.	.	.	.	.	.	.	.	.	G	9.483	1.098617	0.20552	.	.	ENSG00000124383	ENST00000244230	T	0.09350	2.99	3.75	-3.11	0.05299	.	0.598323	0.17691	N	0.165270	T	0.07188	0.0182	L	0.53249	1.67	0.09310	N	0.999994	B;B	0.19583	0.035;0.037	B;B	0.12837	0.005;0.008	T	0.45498	-0.9257	10	0.09843	T	0.71	.	5.4531	0.16576	0.5603:0.1586:0.2811:0.0	.	19;19	B3KPV5;O00566	.;MPP10_HUMAN	S	19	ENSP00000244230:G19S	ENSP00000244230:G19S	G	+	1	0	MPHOSPH10	71211358	0.000000	0.05858	0.000000	0.03702	0.193000	0.23685	0.095000	0.15127	-0.753000	0.04721	-0.259000	0.10710	GGC		0.672	MPHOSPH10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251924.2	NM_005791		A	71357850	G	A	71357850	3	1	633	1	0	0	0	0	1	0	0	0	9732	1116	39	1	57	1	MPHOSPH10	2	71357850	Missense_Mutation	SNP	G	TCGA-KL-8334-01A-11D-2310-10	6140707	71357850	171841523	6	38975										
NBEAL1	65065	broad.mit.edu	37	chr2	204055051	204055051	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tgccttaacagatgagaaagAaagaaaagccttagaaggga	11	5	0	5			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr2:204055051A>G	ENST00000449802.1	+	45	7106	c.6773A>G	c.(6772-6774)gAa>gGa	p.E2258G		NM_001114132.1	NP_001107604.1	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1	2258	BEACH. {ECO:0000255|PROSITE- ProRule:PRU00026}.									NS(1)|breast(3)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(8)|liver(1)|lung(8)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	37						GATGAGAAAGAAAGAAAAGCC	0.353																																																0													105	106	105					2																	204055051		1852	4092	5944	SO:0001583	missense	65065			AY172970	CCDS46495.1	2q33	2013-01-10			ENSG00000144426	ENSG00000144426		"WD repeat domain containing"	20681	protein-coding gene	gene with protein product		609816	"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 17", "amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 16"	ALS2CR17, ALS2CR16		15193433	Standard	NM_001114132		Approved	MGC164581	uc002uzt.3	Q6ZS30	OTTHUMG00000154129	ENST00000449802.1:c.6773A>G	2.37:g.204055051A>G	ENSP00000399903:p.Glu2258Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHD5|Q6Y876|Q6ZP36|Q6ZQY5|Q8N8R4|Q96Q30|Q96Q31	Missense_Mutation	SNP	ENST00000449802.1	37	CCDS46495.1	.	.	.	.	.	.	.	.	.	.	A	25.8	4.680066	0.88542	.	.	ENSG00000144426	ENST00000449802;ENST00000340268;ENST00000414576	D;D	0.81499	-1.5;-1.5	5.21	5.21	0.72293	BEACH domain (4);	0.048085	0.85682	D	0.000000	D	0.92001	0.7466	M	0.93462	3.42	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.91635	0.999;0.998	D	0.93688	0.7004	10	0.59425	D	0.04	.	15.036	0.71748	1.0:0.0:0.0:0.0	.	2258;2247	Q6ZS30;C9JGK5	NBEL1_HUMAN;.	G	2258;2258;273	ENSP00000399903:E2258G;ENSP00000388466:E273G	ENSP00000344985:E2258G	E	+	2	0	NBEAL1	203763296	1.000000	0.71417	1.000000	0.80357	0.956000	0.61745	8.791000	0.91849	2.091000	0.63221	0.377000	0.23210	GAA		0.353	NBEAL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333982.4			G	204055051	A	G	204055051	3	3	633	1	0	0	0	0	1	0	0	0	10195	246	9	3	6947	3	NBEAL1	2	204055051	Missense_Mutation	SNP	A	TCGA-KL-8334-01A-11D-2310-10	132697201	204055051	39144322	7	38976										
EEF1B2	1933	hgsc.bcm.edu	37	chr2	207027464	207027464	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tctttttagctaaactagttCcagtgggatacggaattaag	9	6	1	0			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr2:207027464C>T	ENST00000392222.2	+	6	910	c.535C>T	c.(535-537)Cca>Tca	p.P179S	SNORA41_ENST00000384675.1_RNA|SNORD51_ENST00000384320.2_RNA|EEF1B2_ENST00000392221.1_Missense_Mutation_p.P179S|EEF1B2_ENST00000236957.5_Missense_Mutation_p.P179S	NM_001959.3	NP_001950.1	P24534	EF1B_HUMAN	eukaryotic translation elongation factor 1 beta 2	179					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|translation (GO:0006412)|translational elongation (GO:0006414)	cytosol (GO:0005829)|eukaryotic translation elongation factor 1 complex (GO:0005853)	translation elongation factor activity (GO:0003746)			breast(1)|endometrium(5)|kidney(3)|large_intestine(1)|lung(6)	16						TAAACTAGTTCCAGTGGGATA	0.358																																																0													79	86	83					2																	207027464		2203	4300	6503	SO:0001583	missense	1933			X60489	CCDS2367.1	2q33.3	2011-04-28			ENSG00000114942	ENSG00000114942			3208	protein-coding gene	gene with protein product		600655				8250921	Standard	NM_001959		Approved		uc002vbf.1	P24534	OTTHUMG00000132891	ENST00000392222.2:c.535C>T	2.37:g.207027464C>T	ENSP00000376056:p.Pro179Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K795|Q6IBH9	Missense_Mutation	SNP	ENST00000392222.2	37	CCDS2367.1	.	.	.	.	.	.	.	.	.	.	C	27.0	4.787326	0.90367	.	.	ENSG00000114942	ENST00000236957;ENST00000392221;ENST00000392222	.	.	.	5.2	5.2	0.72013	Translation elongation factor EF1B/ribosomal protein S6 (1);Translation elongation factor EF1B, beta/delta subunit, guanine nucleotide exchange (3);	0.000000	0.85682	D	0.000000	D	0.83718	0.5315	M	0.82433	2.59	0.80722	D	1	P	0.48294	0.908	D	0.68483	0.958	D	0.85972	0.1477	9	0.87932	D	0	-1.39	18.7341	0.91748	0.0:1.0:0.0:0.0	.	179	P24534	EF1B_HUMAN	S	179	.	ENSP00000236957:P179S	P	+	1	0	EEF1B2	206735709	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.818000	0.86416	2.435000	0.82474	0.655000	0.94253	CCA		0.358	EEF1B2-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336436.1	NM_001037663		T	207027464	C	T	207027464	3	4	633	1	0	0	0	0	1	0	0	0	4927	855	30	2	557	2	EEF1B2	2	207027464	Missense_Mutation	SNP	C	TCGA-KL-8334-01A-11D-2310-10	2972413	207027464	36171909	8	38977										
SLC23A3	151295	ucsc.edu	37	chr2	220030023	220030023	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	caggcatgtggaggtgggggAggcaaatgcagcagccggcc	19	9	0	0			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr2:220030023A>G	ENST00000409878.3	-	8	1067	c.1035T>C	c.(1033-1035)ccT>ccC	p.P345P	SLC23A3_ENST00000295738.7_Intron|SLC23A3_ENST00000396775.3_Intron|SLC23A3_ENST00000455516.2_Silent_p.P353P	NM_001144889.1	NP_001138361.1	Q6PIS1	S23A3_HUMAN	solute carrier family 23, member 3	345					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)	transporter activity (GO:0005215)			endometrium(3)|kidney(1)|large_intestine(2)|lung(4)|urinary_tract(1)	11		Renal(207;0.0474)		Epithelial(149;9.27e-07)|all cancers(144;0.000156)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GAGGTGGGGGAGGCAAATGCA	0.672																																																0													23	34	30					2																	220030023		692	1591	2283	SO:0001819	synonymous_variant	151295			BC030243	CCDS42819.1, CCDS46517.1, CCDS46518.1	2q35	2013-07-18	2013-07-18		ENSG00000213901	ENSG00000213901		"Solute carriers"	20601	protein-coding gene	gene with protein product							Standard	NM_144712		Approved	SVCT3, FLJ31168, Yspl1	uc010zkr.2	Q6PIS1	OTTHUMG00000154616	ENST00000409878.3:c.1035T>C	2.37:g.220030023A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z512|Q2PYN6|Q96NA6	Silent	SNP	ENST00000409878.3	37	CCDS46518.1																																																																																				0.672	SLC23A3-010	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336331.2	NM_144712		G	220030023	A	G	220030023	2	3	633	1	0	0	0	0	0	0	0	1	14477	291	11	3		3	SLC23A3	2	220030023	Silent	SNP	A	TCGA-KL-8334-01A-11D-2310-10	13002559	220030023	23169350	9	38978										
COL4A3	1285	broad.mit.edu	37	chr2	228112294	228112294	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ggtgctgctggtttgaaaggAcaaaaggtaagtcattggtg	15	4	1	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr2:228112294A>G	ENST00000396578.3	+	8	624	c.462A>G	c.(460-462)ggA>ggG	p.G154G	AC097662.2_ENST00000606119.1_RNA|AC097662.2_ENST00000439598.2_RNA|AC097662.2_ENST00000396588.2_RNA|AC097662.2_ENST00000437673.1_RNA	NM_000091.4	NP_000082.2	Q01955	CO4A3_HUMAN	collagen, type IV, alpha 3 (Goodpasture antigen)	154	Triple-helical region.				activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|axon guidance (GO:0007411)|blood circulation (GO:0008015)|cell adhesion (GO:0007155)|cell proliferation (GO:0008283)|cell surface receptor signaling pathway (GO:0007166)|collagen catabolic process (GO:0030574)|endothelial cell apoptotic process (GO:0072577)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glomerular basement membrane development (GO:0032836)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cell proliferation (GO:0008285)|negative regulation of endopeptidase activity (GO:0010951)|sensory perception of sound (GO:0007605)	basement membrane (GO:0005604)|collagen type IV trimer (GO:0005587)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	extracellular matrix structural constituent (GO:0005201)|integrin binding (GO:0005178)|metalloendopeptidase inhibitor activity (GO:0008191)|structural molecule activity (GO:0005198)			NS(4)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(24)|ovary(1)|pancreas(1)|prostate(1)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	55		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)		GTTTGAAAGGACAAAAGGTAA	0.403																																																0													346	368	361					2																	228112294		1957	4142	6099	SO:0001819	synonymous_variant	1285				CCDS42829.1	2q36-q37	2014-09-17			ENSG00000169031	ENSG00000169031		"Collagens"	2204	protein-coding gene	gene with protein product	"tumstatin"	120070				1737849	Standard	NM_000091		Approved		uc002vom.2	Q01955	OTTHUMG00000149891	ENST00000396578.3:c.462A>G	2.37:g.228112294A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q53QQ1|Q53R14|Q53RW8|Q9BQT2|Q9NYC4|Q9UDJ9|Q9UDK9|Q9UDL0|Q9UDL1	Silent	SNP	ENST00000396578.3	37	CCDS42829.1																																																																																				0.403	COL4A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331409.2	NM_000091		G	228112294	A	G	228112294	2	3	633	1	0	0	0	0	0	0	0	1	3693	262	10	3		3	COL4A3	2	228112294	Silent	SNP	A	TCGA-KL-8334-01A-11D-2310-10	8082271	228112294	15087079	10	38979										
COPS8	10920	broad.mit.edu	37	chr2	238004481	238004481	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ttaggcatattagaacaaggAtggcaagctgattccaccac	9	9	0	2			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr2:238004481A>G	ENST00000354371.2	+	6	1109	c.456A>G	c.(454-456)ggA>ggG	p.G152G	COPS8_ENST00000409629.1_Silent_p.G149G|COPS8_ENST00000392008.2_Silent_p.G103G|COPS8_ENST00000409334.1_Silent_p.G116G	NM_006710.4	NP_006701.1	Q99627	CSN8_HUMAN	COP9 signalosome subunit 8	152					activation of NF-kappaB-inducing kinase activity (GO:0007250)|cullin deneddylation (GO:0010388)|negative regulation of cell proliferation (GO:0008285)	COP9 signalosome (GO:0008180)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)				large_intestine(1)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	4		Breast(86;0.000162)|Renal(207;0.00339)|all_hematologic(139;0.0123)|Ovarian(221;0.0694)|Acute lymphoblastic leukemia(138;0.0775)|all_lung(227;0.169)|all_neural(83;0.211)		Epithelial(121;7.41e-23)|OV - Ovarian serous cystadenocarcinoma(60;5.42e-11)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000175)|Lung(119;0.011)|LUSC - Lung squamous cell carcinoma(224;0.0258)		TAGAACAAGGATGGCAAGCTG	0.423																																																0													129	120	123					2																	238004481		2203	4300	6503	SO:0001819	synonymous_variant	10920				CCDS2517.1, CCDS42835.1	2q37.3	2013-03-14	2013-03-14		ENSG00000198612	ENSG00000198612			24335	protein-coding gene	gene with protein product			"COP9 constitutive photomorphogenic homolog subunit 8 (Arabidopsis)"			7634324, 12732143	Standard	NM_006710		Approved	COP9, CSN8, MGC1297, SGN8	uc002vwh.3	Q99627	OTTHUMG00000133297	ENST00000354371.2:c.456A>G	2.37:g.238004481A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1H6|Q53QS9	Silent	SNP	ENST00000354371.2	37	CCDS2517.1																																																																																				0.423	COPS8-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257082.3	NM_006710		G	238004481	A	G	238004481	2	3	633	1	0	0	0	0	0	0	0	1	3742	320	12	3		3	COPS8	2	238004481	Silent	SNP	A	TCGA-KL-8334-01A-11D-2310-10	9892187	238004481	5194892	11	38980										
AZI2	64343	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	28365568	28365568	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	gcagttctgattatgttgatCcaagtaatgcagtggtggaa	12	5	1	2			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr3:28365568C>T	ENST00000479665.1	-	8	1675	c.1144G>A	c.(1144-1146)Gat>Aat	p.D382N	CMC1_ENST00000466830.1_3'UTR|AZI2_ENST00000295748.3_5'UTR	NM_022461.3	NP_071906.1	Q9H6S1	AZI2_HUMAN	5-azacytidine induced 2	382					dendritic cell differentiation (GO:0097028)|dendritic cell proliferation (GO:0044565)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|interferon-alpha production (GO:0032607)|interferon-gamma production (GO:0032609)|interleukin-6 production (GO:0032635)|mitotic cell cycle (GO:0000278)|T cell activation (GO:0042110)|tumor necrosis factor production (GO:0032640)	cytoplasm (GO:0005737)				cervix(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(5)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	15						TTATGTTGATCCAAGTAATGC	0.393																																																0													130	133	132					3																	28365568		2203	4299	6502	SO:0001583	missense	64343			AC093142	CCDS2647.1, CCDS46782.1, CCDS46783.1	3p23	2006-03-01			ENSG00000163512	ENSG00000163512			24002	protein-coding gene	gene with protein product		609916				10580148	Standard	NM_001134432		Approved	NAP1, FLJ21939, AZ2	uc003ceb.4	Q9H6S1	OTTHUMG00000130573	ENST00000479665.1:c.1144G>A	3.37:g.28365568C>T	ENSP00000419371:p.Asp382Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3M2|C9JB40|H7BXU6|Q86W99|Q9BQF1	Missense_Mutation	SNP	ENST00000479665.1	37	CCDS2647.1	.	.	.	.	.	.	.	.	.	.	C	25.7	4.668401	0.88348	.	.	ENSG00000163512	ENST00000479665	.	.	.	5.94	5.94	0.96194	.	0.114416	0.64402	D	0.000016	T	0.76891	0.4051	M	0.64997	1.995	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.77923	-0.2406	9	0.87932	D	0	-10.089	15.1295	0.72511	0.1413:0.8587:0.0:0.0	.	382	Q9H6S1	AZI2_HUMAN	N	382	.	ENSP00000419371:D382N	D	-	1	0	AZI2	28340572	1.000000	0.71417	1.000000	0.80357	0.960000	0.62799	3.282000	0.51693	2.820000	0.97059	0.650000	0.86243	GAT		0.393	AZI2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252998.2	NM_203326		T	28365568	C	T	28365568	3	4	633	1	0	0	0	0	1	0	0	0	1241	855	30	2	38	2	AZI2	3	28365568	Missense_Mutation	SNP	C	TCGA-KL-8334-01A-11D-2310-10		28365568	169656862	12	38981										
OR5H1	26341	mdanderson.org	37	chr3	97851892	97851892	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	gaatgttttctcttggcaacGatggcatatgatcgctatgt	10	7	1	1	rs5009897		TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr3:97851892G>A	ENST00000354565.2	+	1	351	c.351G>A	c.(349-351)acG>acA	p.T117T	RP11-343D2.11_ENST00000508964.1_RNA	NM_001005338.1	NP_001005338.1	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H, member 1	117						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(7)|kidney(8)|large_intestine(3)|lung(13)|ovary(1)|skin(1)	34						TCTTGGCAACGATGGCATATG	0.388																																																0													154	148	150					3																	97851892		2202	4299	6501	SO:0001819	synonymous_variant	26341			X64988	CCDS33797.1	3q12.1	2012-08-09			ENSG00000231192	ENSG00000231192		"GPCR / Class A : Olfactory receptors"	8346	protein-coding gene	gene with protein product						1370859	Standard	NM_001005338		Approved	HTPCRX14, HSHTPCRX14	uc011bgt.2	A6NKK0	OTTHUMG00000160070	ENST00000354565.2:c.351G>A	3.37:g.97851892G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000354565.2	37	CCDS33797.1																																																																																				0.388	OR5H1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359100.2	NM_001005338		A	97851892	G	A	97851892	2	1	633	1	0	0	0	0	0	0	0	1	11166	1045	37	1		1	OR5H1	3	97851892	Silent	SNP	G	TCGA-KL-8334-01A-11D-2310-10	69486324	97851892	100170538	13	38982										
KALRN	8997	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	124201729	124201729	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	cctgtccaaaggatcaccaaAtatcaactgctcctgaaggt	7	12	2	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr3:124201729A>T	ENST00000240874.3	+	28	4417	c.4260A>T	c.(4258-4260)aaA>aaT	p.K1420N	KALRN_ENST00000460856.1_Missense_Mutation_p.K1411N|KALRN_ENST00000360013.3_Missense_Mutation_p.K1420N	NM_003947.4	NP_003938.1	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase	1420	DH 1. {ECO:0000255|PROSITE- ProRule:PRU00062}.				apoptotic signaling pathway (GO:0097190)|intracellular signal transduction (GO:0035556)|nervous system development (GO:0007399)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|protein phosphorylation (GO:0006468)|regulation of small GTPase mediated signal transduction (GO:0051056)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)|vesicle-mediated transport (GO:0016192)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|guanyl-nucleotide exchange factor activity (GO:0005085)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(1)|breast(1)|central_nervous_system(1)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(21)|lung(28)|ovary(4)|prostate(5)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	83						GGATCACCAAATATCAACTGC	0.537																																																0													252	200	217					3																	124201729		2203	4300	6503	SO:0001583	missense	8997			U94190	CCDS3027.1, CCDS3028.1	3q21.2	2013-02-11	2005-03-11	2005-03-12	ENSG00000160145	ENSG00000160145		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	4814	protein-coding gene	gene with protein product	"serine/threonine kinase with Dbl and pleckstrin homology domains"	604605	"huntingtin-associated protein interacting protein (duo)"	HAPIP		9285789, 10023074	Standard	NM_001024660		Approved	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24	uc003ehd.3	O60229	OTTHUMG00000125545	ENST00000240874.3:c.4260A>T	3.37:g.124201729A>T	ENSP00000240874:p.Lys1420Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8MSI4|C9JQ37|Q6ZN45|Q8TBQ5|Q9NSZ4|Q9Y2A5	Missense_Mutation	SNP	ENST00000240874.3	37	CCDS3027.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	19.43|19.43	3.826148|3.826148	0.71143|0.71143	.|.	.|.	ENSG00000160145|ENSG00000160145	ENST00000460856;ENST00000240874;ENST00000360013|ENST00000354186	T;T;T|.	0.41758|.	0.99;0.99;0.99|.	5.31|5.31	3.47|3.47	0.39725|0.39725	Dbl homology (DH) domain (5);|.	0.000000|.	0.85682|.	D|.	0.000000|.	D|D	0.86814|0.86814	0.6023|0.6023	H|H	0.98199|0.98199	4.17|4.17	0.80722|0.80722	D|D	1|1	D;D;D;D|.	0.89917|.	1.0;1.0;0.997;1.0|.	D;D;D;D|.	0.97110|.	1.0;1.0;0.991;1.0|.	D|D	0.89291|0.89291	0.3619|0.3619	10|5	0.87932|.	D|.	0|.	.|.	10.1107|10.1107	0.42561|0.42561	0.2349:0.0:0.7651:0.0|0.2349:0.0:0.7651:0.0	.|.	1411;766;1420;1420|.	C9IZQ6;F2Z3Q6;O60229;O60229-2|.	.;.;KALRN_HUMAN;.|.	N|I	1411;1420;1420|1389	ENSP00000418611:K1411N;ENSP00000240874:K1420N;ENSP00000353109:K1420N|.	ENSP00000240874:K1420N|.	K|N	+|+	3|2	2|0	KALRN|KALRN	125684419|125684419	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.948000|0.948000	0.59901|0.59901	2.240000|2.240000	0.43088|0.43088	1.449000|1.449000	0.47699|0.47699	-0.242000|-0.242000	0.12053|0.12053	AAA|AAT		0.537	KALRN-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000258843.4	NM_003947		T	124201729	A	T	124201729	3	4	633	1	0	0	0	0	1	0	0	0	7982	98	4	5	4370	5	KALRN	3	124201729	Missense_Mutation	SNP	A	TCGA-KL-8334-01A-11D-2310-10	26349837	124201729	73820701	14	38983										
EPHB1	2047	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	134873005	134873005	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tctccacagccccctccaccGttcccatcatgcaccaagtc	4	21	2	0	rs183234182		TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr3:134873005G>A	ENST00000398015.3	+	6	1679	c.1309G>A	c.(1309-1311)Gtt>Att	p.V437I	EPHB1_ENST00000493838.1_5'UTR	NM_004441.4	NP_004432.1	P54762	EPHB1_HUMAN	EPH receptor B1	437	Fibronectin type-III 2. {ECO:0000255|PROSITE-ProRule:PRU00316}.				angiogenesis (GO:0001525)|axon guidance (GO:0007411)|camera-type eye morphogenesis (GO:0048593)|cell chemotaxis (GO:0060326)|cell-substrate adhesion (GO:0031589)|central nervous system projection neuron axonogenesis (GO:0021952)|dendritic spine development (GO:0060996)|dendritic spine morphogenesis (GO:0060997)|detection of temperature stimulus involved in sensory perception of pain (GO:0050965)|ephrin receptor signaling pathway (GO:0048013)|establishment of cell polarity (GO:0030010)|neural precursor cell proliferation (GO:0061351)|neurogenesis (GO:0022008)|optic nerve morphogenesis (GO:0021631)|positive regulation of synapse assembly (GO:0051965)|protein autophosphorylation (GO:0046777)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of JNK cascade (GO:0046328)|retinal ganglion cell axon guidance (GO:0031290)	axon (GO:0030424)|early endosome membrane (GO:0031901)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane raft (GO:0045121)	ATP binding (GO:0005524)|axon guidance receptor activity (GO:0008046)|transmembrane-ephrin receptor activity (GO:0005005)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(13)|lung(63)|ovary(8)|pancreas(2)|prostate(8)|skin(7)|stomach(4)|upper_aerodigestive_tract(4)|urinary_tract(2)	130						CCCCTCCACCGTTCCCATCAT	0.532													G|||	1	0.000199681	0.0008	0.0	5008	,	,		20316	0.0		0.0	False		,,,				2504	0.0															0								G	ILE/VAL	0,4304		0,0,2152	199	212	207		1309	5	1	3		207	1,8563		0,1,4281	no	missense	EPHB1	NM_004441.4	29	0,1,6433	AA,AG,GG		0.0117,0.0,0.0078	possibly-damaging	437/985	134873005	1,12867	2152	4282	6434	SO:0001583	missense	2047			L40636	CCDS46921.1	3q21-q23	2013-02-11	2004-10-28			ENSG00000154928		"EPH receptors", "Sterile alpha motif (SAM) domain containing", "Fibronectin type III domain containing"	3392	protein-coding gene	gene with protein product		600600	"EphB1"	EPHT2		8666391	Standard	NM_004441		Approved	Hek6	uc003eqt.3	P54762		ENST00000398015.3:c.1309G>A	3.37:g.134873005G>A	ENSP00000381097:p.Val437Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K593|B3KTB2|B5A969|O43569|O95142|O95143|Q0VG87	Missense_Mutation	SNP	ENST00000398015.3	37	CCDS46921.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	G	19.63	3.862742	0.71949	0.0	1.17E-4	ENSG00000154928	ENST00000398015	T	0.55588	0.51	5.0	5.0	0.66597	Fibronectin, type III (3);Immunoglobulin-like fold (1);	0.066621	0.64402	D	0.000014	T	0.50922	0.1644	M	0.64997	1.995	0.80722	D	1	P	0.42556	0.783	B	0.36885	0.235	T	0.56408	-0.7984	10	0.41790	T	0.15	.	18.0819	0.89443	0.0:0.0:1.0:0.0	.	437	P54762	EPHB1_HUMAN	I	437	ENSP00000381097:V437I	ENSP00000381097:V437I	V	+	1	0	EPHB1	136355695	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.657000	0.98554	2.610000	0.88304	0.655000	0.94253	GTT		0.532	EPHB1-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357671.1	NM_004441		A	134873005	G	A	134873005	3	1	633	1	0	0	0	0	1	0	0	0	5176	1145	40	1	1331	1	EPHB1	3	134873005	Missense_Mutation	SNP	G	TCGA-KL-8334-01A-11D-2310-10	10671276	134873005	63149425	15	38984										
CRIPAK	285464	hgsc.bcm.edu	37	chr4	1389130	1389130	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ctgctcacgtgccgatgtggGgtgcccgcctgctcacatgt	13	14	2	0			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr4:1389130G>A	ENST00000324803.4	+	1	3791	c.831G>A	c.(829-831)ggG>ggA	p.G277G		NM_175918.3	NP_787114.2	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	277					negative regulation of intracellular estrogen receptor signaling pathway (GO:0033147)|negative regulation of protein kinase activity (GO:0006469)|regulation of cytoskeleton organization (GO:0051493)|response to estrogen (GO:0043627)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)|plasma membrane (GO:0005886)		p.G277G(1)		NS(3)|breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(11)|ovary(1)|pancreas(2)|prostate(6)|skin(4)|urinary_tract(1)	35			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			GCCGATGTGGGGTGCCCGCCT	0.687																																																1	Substitution - coding silent(1)	lung(1)											154	143	147					4																	1389130		2202	4299	6501	SO:0001819	synonymous_variant	285464			AK096209	CCDS3349.1	4p16.3	2011-02-10	2006-09-04		ENSG00000179979	ENSG00000179979			26619	protein-coding gene	gene with protein product		610203	"cysteine-rich PAK1inhibitor"			16278681	Standard	NM_175918		Approved	FLJ34443	uc003gdf.2	Q8N1N5	OTTHUMG00000121131	ENST00000324803.4:c.831G>A	4.37:g.1389130G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NB03	Silent	SNP	ENST00000324803.4	37	CCDS3349.1																																																																																				0.687	CRIPAK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241607.2	NM_175918		A	1389130	G	A	1389130	2	1	633	1	0	0	0	0	0	0	0	1	3879	1219	43	2		2	CRIPAK	4	1389130	Silent	SNP	G	TCGA-KL-8334-01A-11D-2310-10		1389130	189765146	16	38985										
UCHL1	7345	mdanderson.org	37	chr4	41259633	41259633	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ctcctctccgcaggtgctgtCccggctgggggtcgccggcc	15	17	1	0	rs5030732	byFrequency	TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr4:41259633C>A	ENST00000284440.4	+	3	197	c.53C>A	c.(52-54)tCc>tAc	p.S18Y	UCHL1_ENST00000508768.1_Missense_Mutation_p.S18Y|UCHL1_ENST00000512788.1_Missense_Mutation_p.S18Y|UCHL1_ENST00000503431.1_Missense_Mutation_p.S18Y|UCHL1_ENST00000504818.1_3'UTR|UCHL1-AS1_ENST00000507190.1_RNA|UCHL1-AS1_ENST00000510073.1_RNA	NM_004181.4	NP_004172.2	P09936	UCHL1_HUMAN	ubiquitin carboxyl-terminal esterase L1 (ubiquitin thiolesterase)	18			S -> Y (found in patients with cataract; unknown pathological significance; loss of dimerization ability; impaired ligase activity; confers an antioxidant protective function when expressed at physiological levels in neuroblastoma cells and primary cortical neurons; dbSNP:rs5030732). {ECO:0000269|PubMed:10203348, ECO:0000269|PubMed:11027850, ECO:0000269|PubMed:15048890, ECO:0000269|PubMed:16450370, ECO:0000269|PubMed:21268678}.		adult walking behavior (GO:0007628)|axon target recognition (GO:0007412)|axon transport of mitochondrion (GO:0019896)|cell death (GO:0008219)|cell proliferation (GO:0008283)|eating behavior (GO:0042755)|muscle fiber development (GO:0048747)|negative regulation of MAP kinase activity (GO:0043407)|neuromuscular process (GO:0050905)|protein deubiquitination (GO:0016579)|response to ischemia (GO:0002931)|sensory perception of pain (GO:0019233)|ubiquitin-dependent protein catabolic process (GO:0006511)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)	alpha-2A adrenergic receptor binding (GO:0031694)|cysteine-type endopeptidase activity (GO:0004197)|ligase activity (GO:0016874)|omega peptidase activity (GO:0008242)|ubiquitin binding (GO:0043130)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			central_nervous_system(1)|endometrium(2)|large_intestine(3)|skin(2)	8						CAGGTGCTGTCCCGGCTGGGG	0.766													C|||	1272	0.253994	0.0121	0.2939	5008	,	,		10899	0.5437		0.1809	False		,,,				2504	0.3292															0			GRCh37	CM994452	UCHL1	M	rs5030732	C	TYR/SER	114,4064		2,110,1977	6	8	7	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	53	2.8	0.9	4	dbSNP_113	7	1114,7164		61,992,3086	no	missense	UCHL1	NM_004181.4	144	63,1102,5063	AA,AC,CC		13.4574,2.7286,9.8587	benign	18/224	41259633	1228,11228	2089	4139	6228	SO:0001583	missense	7345			BC000332	CCDS3462.1	4p13	2011-07-21			ENSG00000154277	ENSG00000154277	3.4.19.12	"Parkinson disease"	12513	protein-coding gene	gene with protein product		191342		PARK5		1840236	Standard	NM_004181		Approved	PGP9.5, Uch-L1	uc003gvo.3	P09936	OTTHUMG00000099377	ENST00000284440.4:c.53C>A	4.37:g.41259633C>A	ENSP00000284440:p.Ser18Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5K6|Q71UM0	Missense_Mutation	SNP	ENST00000284440.4	37	CCDS3462.1	528	0.24175824175824176	16	0.032520325203252036	97	0.26795580110497236	282	0.493006993006993	133	0.17546174142480211	C	8.406	0.842968	0.16963	0.027286	0.134574	ENSG00000154277	ENST00000514924;ENST00000503431;ENST00000284440;ENST00000508768;ENST00000512788	T;T;T;T;T	0.56275	0.47;0.47;0.47;0.47;0.47	3.7	2.84	0.33178	Peptidase C12, ubiquitin carboxyl-terminal hydrolase 1 (4);	1.003210	0.08035	N	0.994193	T	0.00012	0.0000	L	0.37697	1.125	0.28202	P	0.9273172	P	0.38300	0.626	B	0.36567	0.228	T	0.44406	-0.9330	9	0.23891	T	0.37	-1.0546	13.1671	0.59577	0.0:0.8388:0.1611:0.0	rs5030732	18	P09936	UCHL1_HUMAN	Y	18	ENSP00000426634:S18Y;ENSP00000422542:S18Y;ENSP00000284440:S18Y;ENSP00000426895:S18Y;ENSP00000423623:S18Y	ENSP00000284440:S18Y	S	+	2	0	UCHL1	40954390	0.422000	0.25473	0.940000	0.37924	0.849000	0.48306	1.040000	0.30278	0.724000	0.32296	0.462000	0.41574	TCC		0.766	UCHL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216827.1	NM_004181		A	41259633	C	A	41259633	3	1	633	1	0	0	0	0	1	0	0	0	16932	855	30	4	63	4	UCHL1	4	41259633	Missense_Mutation	SNP	C	TCGA-KL-8334-01A-11D-2310-10	39870503	41259633	149894643	17	38986										
DOCK2	1794	ucsc.edu	37	chr5	169504838	169504838	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ccccagcaagcctacctcagAgaggtcagtccctgcacccc	8	19	2	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr5:169504838A>G	ENST00000256935.8	+	48	5071	c.4991A>G	c.(4990-4992)gAg>gGg	p.E1664G	DOCK2_ENST00000540750.1_Missense_Mutation_p.E725G|DOCK2_ENST00000523351.1_3'UTR|DOCK2_ENST00000520908.1_Missense_Mutation_p.E1156G	NM_004946.2	NP_004937.1	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1664					actin cytoskeleton organization (GO:0030036)|alpha-beta T cell proliferation (GO:0046633)|chemotaxis (GO:0006935)|establishment of T cell polarity (GO:0001768)|immunological synapse formation (GO:0001771)|macropinocytosis (GO:0044351)|membrane raft polarization (GO:0001766)|myeloid dendritic cell activation involved in immune response (GO:0002277)|negative thymic T cell selection (GO:0045060)|positive regulation of phagocytosis (GO:0050766)|positive thymic T cell selection (GO:0045059)|regulation of defense response to virus by virus (GO:0050690)|small GTPase mediated signal transduction (GO:0007264)|viral process (GO:0016032)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	Rac GTPase activator activity (GO:0030675)|Rac guanyl-nucleotide exchange factor activity (GO:0030676)|T cell receptor binding (GO:0042608)			NS(2)|breast(5)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(42)|liver(2)|lung(63)|ovary(5)|pancreas(3)|prostate(7)|skin(5)|stomach(2)|upper_aerodigestive_tract(3)	160	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)			CCTACCTCAGAGAGGTCAGTC	0.592																																																0													86	78	81					5																	169504838		2203	4300	6503	SO:0001583	missense	1794			BC016996	CCDS4371.1	5q35.1	2008-02-05			ENSG00000134516	ENSG00000134516			2988	protein-coding gene	gene with protein product		603122	"dedicator of cyto-kinesis 2"				Standard	NM_004946		Approved	KIAA0209	uc003maf.3	Q92608	OTTHUMG00000130437	ENST00000256935.8:c.4991A>G	5.37:g.169504838A>G	ENSP00000256935:p.Glu1664Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3I0|Q96AK7	Missense_Mutation	SNP	ENST00000256935.8	37	CCDS4371.1	.	.	.	.	.	.	.	.	.	.	A	14.42	2.531198	0.45073	.	.	ENSG00000134516	ENST00000256935;ENST00000520908;ENST00000540750	T;T;T	0.09723	3.61;3.25;2.95	5.08	5.08	0.68730	.	0.281154	0.34959	N	0.003556	T	0.07999	0.0200	N	0.24115	0.695	0.46011	D	0.998817	B;B;B	0.30511	0.058;0.282;0.181	B;B;B	0.26770	0.045;0.05;0.073	T	0.35674	-0.9779	10	0.25106	T	0.35	.	13.9017	0.63809	1.0:0.0:0.0:0.0	.	1156;220;1664	E7ERW7;B3KY14;Q92608	.;.;DOCK2_HUMAN	G	1664;1156;725	ENSP00000256935:E1664G;ENSP00000429283:E1156G;ENSP00000438827:E725G	ENSP00000256935:E1664G	E	+	2	0	DOCK2	169437416	1.000000	0.71417	0.976000	0.42696	0.438000	0.31896	7.695000	0.84257	1.935000	0.56089	0.456000	0.33151	GAG		0.592	DOCK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252828.2	NM_004946		G	169504838	A	G	169504838	3	3	633	1	0	0	0	0	1	0	0	0	4689	304	11	3	5181	3	DOCK2	5	169504838	Missense_Mutation	SNP	A	TCGA-KL-8334-01A-11D-2310-10		169504838	11410422	18	38987										
HLA-C	3107	mdanderson.org	37	chr6	31238009	31238009	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	cagctcagggtgaggggctcTtgcagcccctcgtgctgcat	14	13	2	1	rs1131014	byFrequency	TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr6:31238009T>C	ENST00000376228.5	-	4	887	c.873A>G	c.(871-873)caA>caG	p.Q291Q	HLA-C_ENST00000383329.3_Silent_p.Q291Q	NM_002117.5	NP_002108.4	Q95604	1C17_HUMAN	major histocompatibility complex, class I, C	291	Alpha-3.|Ig-like C1-type.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(4)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)	17						TGAGGGGCTCTTGCAGCCCCT	0.592													C|||	2561	0.511382	0.6172	0.549	5008	,	,		13431	0.5744		0.4404	False		,,,				2504	0.3497															0													23	30	28					6																	31238009		2121	4194	6315	SO:0001819	synonymous_variant	3107			M11886	CCDS34393.1	6p21.3	2014-01-30			ENSG00000204525	ENSG00000204525		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4933	protein-coding gene	gene with protein product		142840	"psoriasis susceptibility 1"	HLA-JY3, D6S204, PSORS1		3863816, 16642438	Standard	NM_001243042		Approved		uc003nsy.3	P04222	OTTHUMG00000031154	ENST00000376228.5:c.873A>G	6.37:g.31238009T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O02864|O02958|Q29643|Q9MY30	Silent	SNP	ENST00000376228.5	37	CCDS34393.1	872	0.3992673992673993	230	0.46747967479674796	148	0.4088397790055249	255	0.4458041958041958	239	0.3153034300791557	.	0.019	-1.465537	0.01053	.	.	ENSG00000204525	ENST00000415537	.	.	.	2.67	-5.33	0.02713	.	.	.	.	.	T	0.06005	0.0156	.	.	.	0.53005	P	3.799999999998249E-5	.	.	.	.	.	.	T	0.24154	-1.0168	3	.	.	.	.	2.6503	0.04996	0.1827:0.239:0.4507:0.1277	rs41551714	.	.	.	R	255	.	.	K	-	2	0	HLA-C	31345988	0.000000	0.05858	0.108000	0.21378	0.013000	0.08279	-3.876000	0.00344	-1.974000	0.00998	-0.711000	0.03637	AAG		0.592	HLA-C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076281.3	NM_002117		C	31238009	T	C	31238009	2	2	633	1	0	0	0	0	0	0	0	1	7204	1606	56	3		3	HLA-C	6	31238009	Silent	SNP	T	TCGA-KL-8334-01A-11D-2310-10		31238009	139877058	19	38988										
EHMT2	10919	broad.mit.edu;bcgsc.ca	37	chr6	31848574	31848574	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	gtcacacaggtggttgatgaAgcggctgatgttgccatagt	14	7	1	3			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr6:31848574A>G	ENST00000375537.4	-	27	3334	c.3328T>C	c.(3328-3330)Ttc>Ctc	p.F1110L	EHMT2-AS1_ENST00000434689.1_RNA|EHMT2_ENST00000395728.3_Missense_Mutation_p.F1167L|SLC44A4_ENST00000375562.4_5'Flank|SLC44A4_ENST00000465707.1_5'Flank|EHMT2_ENST00000375528.4_Missense_Mutation_p.F1133L|SLC44A4_ENST00000229729.6_5'Flank|EHMT2_ENST00000375530.4_Missense_Mutation_p.F1076L|EHMT2_ENST00000480912.1_5'UTR	NM_006709.3	NP_006700.3	Q96KQ7	EHMT2_HUMAN	euchromatic histone-lysine N-methyltransferase 2	1110	SET. {ECO:0000255|PROSITE- ProRule:PRU00190}.				DNA methylation (GO:0006306)|DNA methylation on cytosine within a CG sequence (GO:0010424)|fertilization (GO:0009566)|histone methylation (GO:0016571)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|organ growth (GO:0035265)|peptidyl-lysine dimethylation (GO:0018027)|regulation of DNA replication (GO:0006275)|spermatid development (GO:0007286)|synaptonemal complex assembly (GO:0007130)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	C2H2 zinc finger domain binding (GO:0070742)|histone methyltransferase activity (H3-K27 specific) (GO:0046976)|histone methyltransferase activity (H3-K9 specific) (GO:0046974)|histone-lysine N-methyltransferase activity (GO:0018024)|p53 binding (GO:0002039)|protein-lysine N-methyltransferase activity (GO:0016279)|zinc ion binding (GO:0008270)			central_nervous_system(1)|cervix(2)|kidney(2)|large_intestine(3)|lung(6)|ovary(2)|prostate(4)|upper_aerodigestive_tract(1)	21						TGGTTGATGAAGCGGCTGATG	0.572																																																0													168	122	138					6																	31848574		2203	4300	6503	SO:0001583	missense	10919			AF134726	CCDS4725.1, CCDS4726.1, CCDS75425.1	6p21.3	2013-01-10	2004-03-22	2005-06-09	ENSG00000204371	ENSG00000204371	2.1.1.43	"Chromatin-modifying enzymes / K-methyltransferases", "Ankyrin repeat domain containing"	14129	protein-coding gene	gene with protein product		604599	"chromosome 6 open reading frame 30", "HLA-B associated transcript 8"	C6orf30, BAT8		8457211, 11316813	Standard	XM_005274833		Approved	G9A, Em:AF134726.3, NG36/G9a, KMT1C	uc003nxz.1	Q96KQ7	OTTHUMG00000031180	ENST00000375537.4:c.3328T>C	6.37:g.31848574A>G	ENSP00000364687:p.Phe1110Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B0UZY2|Q14349|Q5JP83|Q5JQ92|Q5JQA1|Q5JQG3|Q6PK06|Q96MH5|Q96QD0|Q9UQL8|Q9Y331	Missense_Mutation	SNP	ENST00000375537.4	37	CCDS4725.1	.	.	.	.	.	.	.	.	.	.	A	26.9	4.782755	0.90282	.	.	ENSG00000204371	ENST00000395728;ENST00000375528;ENST00000375530;ENST00000375537;ENST00000442298	D;D;D;D	0.82803	-1.65;-1.65;-1.65;-1.65	4.35	4.35	0.52113	SET domain (3);	0.000000	0.85682	D	0.000000	D	0.89276	0.6669	M	0.82823	2.61	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	0.999;0.998;1.0;0.999	D	0.90970	0.4819	10	0.87932	D	0	.	12.9305	0.58284	1.0:0.0:0.0:0.0	.	1133;1076;1110;931	A2ABF8;Q96KQ7-2;Q96KQ7;Q59FM7	.;.;EHMT2_HUMAN;.	L	1167;1133;1076;1110;931	ENSP00000379078:F1167L;ENSP00000364678:F1133L;ENSP00000364680:F1076L;ENSP00000364687:F1110L	ENSP00000364678:F1133L	F	-	1	0	EHMT2	31956553	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.607000	0.90891	1.963000	0.57068	0.533000	0.62120	TTC		0.572	EHMT2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000076355.5	NM_006709		G	31848574	A	G	31848574	3	3	633	1	0	0	0	0	1	0	0	0	4986	72	3	3	312	3	EHMT2	6	31848574	Missense_Mutation	SNP	A	TCGA-KL-8334-01A-11D-2310-10	610565	31848574	139266493	20	38989										
HLA-DQA1	3117	bcgsc.ca	37	chr6	32609173	32609173	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	atgaatttgatggagatgagCagttctacgtggacctggag	14	5	1	4	rs10093	byFrequency	TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr6:32609173C>G	ENST00000343139.5	+	2	271	c.169C>G	c.(169-171)Cag>Gag	p.Q57E	HLA-DQA1_ENST00000374949.2_Missense_Mutation_p.Q57E|HLA-DQA1_ENST00000395363.1_Missense_Mutation_p.Q57E	NM_002122.3	NP_002113.2	P01909	DQA1_HUMAN	major histocompatibility complex, class II, DQ alpha 1	57	Alpha-1.		Q -> E (in allele DQA1*01:01, allele DQA1*01:04, allele DQA1*01:05, allele DQA1*01:07, allele DQA1*02:01, allele DQA1*03:01, allele DQA1*03:02 and allele DQA1*03:03; dbSNP:rs10093).		antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|immune response (GO:0006955)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|endosome (GO:0005768)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)	MHC class II receptor activity (GO:0032395)|peptide antigen binding (GO:0042605)			NS(1)|lung(3)|skin(1)|upper_aerodigestive_tract(1)	6						TGGAGATGAGCAGTTCTACGT	0.522													.|||	2020	0.403355	0.2958	0.4827	5008	,	,		13590	0.4216		0.4483	False		,,,				2504	0.4274															0								G	GLU/GLN	997,3405		292,413,1496	126	105	112		169	-7.7	0	6	dbSNP_52	112	2498,6052		852,794,2629	yes	missense	HLA-DQA1	NM_002122.3	29	1144,1207,4125	GG,GC,CC		29.2164,22.6488,26.9842	benign	57/256	32609173	3495,9457	2201	4275	6476	SO:0001583	missense	3117				CCDS4752.1	6p21.3	2013-01-11			ENSG00000196735	ENSG00000196735		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4942	protein-coding gene	gene with protein product		146880		HLA-DQA			Standard	NM_002122		Approved	CELIAC1	uc003obr.3	P01909	OTTHUMG00000031106	ENST00000343139.5:c.169C>G	6.37:g.32609173C>G	ENSP00000339398:p.Gln57Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O19630|O19706|P01907|P01908|P04225|P04226|P05536|P79553|Q06751|Q29876|Q29994|Q2Q6Y6|Q2Q6Y7|Q2Q6Y8|Q2WCM3|Q30064|Q30067|Q30068|Q30070|Q30071|Q30072|Q30073|Q30086|Q30101|Q5Y7D5|Q5Y7F5|Q6ICU6|Q6PR46|Q6QDB1|Q860W2|Q860W4|Q9BD37|Q9TPM3|Q9UM31	Missense_Mutation	SNP	ENST00000343139.5	37	CCDS4752.1	865|865	0.39606227106227104|0.39606227106227104	139|139	0.28252032520325204|0.28252032520325204	158|158	0.43646408839779005|0.43646408839779005	236|236	0.4125874125874126|0.4125874125874126	332|332	0.43799472295514513|0.43799472295514513	.|.	0.003|0.003	-2.453699|-2.453699	0.00175|0.00175	0.226488|0.226488	0.292164|0.292164	ENSG00000196735|ENSG00000196735	ENST00000343139;ENST00000395364;ENST00000395363;ENST00000496318;ENST00000374949|ENST00000486548	T;T;T;T|.	0.00695|.	5.83;5.83;5.83;5.83|.	3.83|3.83	-7.66|-7.66	0.01277|0.01277	.|.	1.886270|.	0.03418|.	N|.	0.205898|.	T|T	0.04137|0.04137	0.0115|0.0115	N|N	0.11000|0.11000	0.08|0.08	0.80722|0.80722	P|P	0.0|0.0	B;B|.	0.13145|.	0.007;0.0|.	B;B|.	0.19946|.	0.027;0.003|.	T|T	0.17837|0.17837	-1.0356|-1.0356	9|4	0.22109|.	T|.	0.4|.	.|.	8.8794|8.8794	0.35365|0.35365	0.118:0.5489:0.1922:0.1409|0.118:0.5489:0.1922:0.1409	rs10093;rs1129762;rs1130036;rs3188499;rs11545687;rs17354081;rs33909434|rs10093;rs1129762;rs1130036;rs3188499;rs11545687;rs17354081;rs33909434	63;57|.	Q59F33;G4XQK2|.	.;.|.	E|R	57|29	ENSP00000339398:Q57E;ENSP00000378767:Q57E;ENSP00000437302:Q57E;ENSP00000364087:Q57E|.	ENSP00000339398:Q57E|.	Q|S	+|+	1|3	0|2	HLA-DQA1|HLA-DQA1	32717151|32717151	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.007000|0.007000	0.05969|0.05969	-5.842000|-5.842000	0.00095|0.00095	-5.868000|-5.868000	0.00008|0.00008	-3.861000|-3.861000	0.00018|0.00018	CAG|AGC		0.522	HLA-DQA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076176.3	NM_002122		G	32609173	C	G	32609173	3	3	633	1	0	0	0	0	1	0	0	0	7211	711	25	4	175	4	HLA-DQA1	6	32609173	Missense_Mutation	SNP	C	TCGA-KL-8334-01A-11D-2310-10	760599	32609173	138505894	21	38990										
CPNE5	57699	broad.mit.edu;ucsc.edu	37	chr6	36759870	36759870	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ccacatttctttcctgggacAccactgggagaggagaagat	11	10	1	3			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr6:36759870A>G	ENST00000244751.2	-	8	1092	c.468T>C	c.(466-468)ggT>ggC	p.G156G		NM_020939.1	NP_065990.1	Q9HCH3	CPNE5_HUMAN	copine V	156	C2 2. {ECO:0000255|PROSITE- ProRule:PRU00041}.					extracellular vesicular exosome (GO:0070062)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)				central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(4)|large_intestine(4)|liver(1)|lung(9)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	25						TTCCTGGGACACCACTGGGAG	0.567																																																0													121	98	106					6																	36759870		2203	4300	6503	SO:0001819	synonymous_variant	57699			H09181	CCDS4825.1	6p21.2	2010-05-28			ENSG00000124772	ENSG00000124772			2318	protein-coding gene	gene with protein product		604209				9430674	Standard	NM_020939		Approved	CPN5, COPN5, KIAA1599	uc003omr.1	Q9HCH3	OTTHUMG00000014602	ENST00000244751.2:c.468T>C	6.37:g.36759870A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z6C8	Silent	SNP	ENST00000244751.2	37	CCDS4825.1																																																																																				0.567	CPNE5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040351.1	NM_020939		G	36759870	A	G	36759870	2	3	633	1	0	0	0	0	0	0	0	1	3817	146	6	3		3	CPNE5	6	36759870	Silent	SNP	A	TCGA-KL-8334-01A-11D-2310-10	4150697	36759870	134355197	22	38991										
CNR1	1268	hgsc.bcm.edu	37	chr6	88853866	88853866	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ctgcagaatgcaaacaccgtCttaatgagcttgttcatctt	7	10	3	2			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr6:88853866C>T	ENST00000537554.1	-	2	4690	c.1128G>A	c.(1126-1128)aaG>aaA	p.K376K	CNR1_ENST00000549716.1_Silent_p.K315K|CNR1_ENST00000369499.2_Silent_p.K376K|CNR1_ENST00000369501.2_Silent_p.K376K|CNR1_ENST00000362094.5_3'UTR|CNR1_ENST00000428600.2_Silent_p.K376K|CNR1_ENST00000535130.1_Silent_p.K376K|CNR1_ENST00000549890.1_Silent_p.K376K|CNR1_ENST00000468898.1_Silent_p.K343K	NM_001160226.1|NM_001160258.1	NP_001153698.1|NP_001153730.1	P21554	CNR1_HUMAN	cannabinoid receptor 1 (brain)	376					adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|aging (GO:0007568)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|glucose homeostasis (GO:0042593)|maternal process involved in female pregnancy (GO:0060135)|memory (GO:0007613)|negative regulation of action potential (GO:0045759)|negative regulation of blood pressure (GO:0045776)|negative regulation of dopamine secretion (GO:0033602)|negative regulation of fatty acid beta-oxidation (GO:0031999)|negative regulation of mast cell activation (GO:0033004)|negative regulation of nitric-oxide synthase activity (GO:0051001)|positive regulation of acute inflammatory response to antigenic stimulus (GO:0002866)|positive regulation of apoptotic process (GO:0043065)|positive regulation of blood pressure (GO:0045777)|positive regulation of fever generation (GO:0031622)|positive regulation of neuron projection development (GO:0010976)|regulation of feeding behavior (GO:0060259)|regulation of insulin secretion (GO:0050796)|regulation of penile erection (GO:0060405)|regulation of synaptic transmission, GABAergic (GO:0032228)|regulation of synaptic transmission, glutamatergic (GO:0051966)|response to cocaine (GO:0042220)|response to ethanol (GO:0045471)|response to lipopolysaccharide (GO:0032496)|response to morphine (GO:0043278)|response to nicotine (GO:0035094)|response to nutrient (GO:0007584)|sensory perception of pain (GO:0019233)|spermatogenesis (GO:0007283)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cannabinoid receptor activity (GO:0004949)|drug binding (GO:0008144)			breast(2)|endometrium(3)|kidney(1)|large_intestine(7)|liver(1)|lung(11)|prostate(1)|skin(10)|urinary_tract(1)	37		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Dronabinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	CAAACACCGTCTTAATGAGCT	0.517																																																0													128	123	125					6																	88853866		2203	4300	6503	SO:0001819	synonymous_variant	1268			AF107262	CCDS5015.1, CCDS5016.1, CCDS5016.2	6q14-q15	2012-08-08			ENSG00000118432	ENSG00000118432		"GPCR / Class A : Cannabinoid receptors"	2159	protein-coding gene	gene with protein product		114610		CNR			Standard	NM_016083		Approved	CB1K5, CB-R, CB1, CANN6, CB1A	uc003pmq.4	P21554	OTTHUMG00000015184	ENST00000537554.1:c.1128G>A	6.37:g.88853866C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9T4|E1P512|Q13949|Q495Z0|Q4PLI4|Q4VBM6|Q5JVL5|Q5UB37|Q9UNN0	Silent	SNP	ENST00000537554.1	37	CCDS5015.1																																																																																				0.517	CNR1-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354204.2			T	88853866	C	T	88853866	2	4	633	1	0	0	0	0	0	0	0	1	3633	912	32	2		2	CNR1	6	88853866	Silent	SNP	C	TCGA-KL-8334-01A-11D-2310-10	52093996	88853866	82261201	23	38992										
SFRS18	25957	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr6	99852539	99852539	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	aatttcttcatctgtgacatCcagcagaatttctgttagaa	6	8	4	3			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr6:99852539C>T	ENST00000369239.5	-	9	1246	c.1042G>A	c.(1042-1044)Gat>Aat	p.D348N	PNISR_ENST00000438806.1_Missense_Mutation_p.D348N	NM_032870.2	NP_116259.2	Q8TF01	PNISR_HUMAN	PNN-interacting serine/arginine-rich protein	348						cytoplasm (GO:0005737)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			breast(2)|cervix(1)|endometrium(3)|large_intestine(5)|lung(8)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	24						TCTGTGACATCCAGCAGAATT	0.343																																																0													112	109	110					6																	99852539		2203	4299	6502	SO:0001583	missense	25957			AK027759	CCDS5043.1	6q16.3	2011-06-06	2011-06-06	2011-06-06	ENSG00000132424	ENSG00000132424			21222	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 111", "splicing factor, arginine/serine-rich 18"	C6orf111, SFRS18		14578391	Standard	NM_032870		Approved	FLJ14752, bA98I9.2, DKFZp564B0769, SRrp130	uc021zdd.1	Q8TF01	OTTHUMG00000015262	ENST00000369239.5:c.1042G>A	6.37:g.99852539C>T	ENSP00000358242:p.Asp348Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K540|E1P5D2|Q5T064|Q5T065|Q6P2B4|Q6P2N4|Q6PJ93|Q6PK36|Q7Z640|Q8N2L1|Q8TF00|Q96K10|Q96SI3|Q96SM5|Q9P076|Q9P0C0|Q9Y4N3	Missense_Mutation	SNP	ENST00000369239.5	37	CCDS5043.1	.	.	.	.	.	.	.	.	.	.	C	25.0	4.595129	0.86953	.	.	ENSG00000132424	ENST00000369239;ENST00000438806	T;T	0.48522	0.81;0.81	5.44	4.56	0.56223	.	0.091506	0.85682	D	0.000000	T	0.37046	0.0989	L	0.50333	1.59	0.54753	D	0.999987	P	0.50819	0.939	P	0.45538	0.484	T	0.42103	-0.9471	10	0.87932	D	0	.	16.2025	0.82095	0.0:0.8666:0.1334:0.0	.	348	Q8TF01	PNISR_HUMAN	N	348	ENSP00000358242:D348N;ENSP00000387997:D348N	ENSP00000358242:D348N	D	-	1	0	PNISR	99959260	1.000000	0.71417	0.998000	0.56505	0.694000	0.40290	7.346000	0.79347	1.271000	0.44313	-0.189000	0.12847	GAT		0.343	PNISR-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041598.1	NM_032870		T	99852539	C	T	99852539	3	4	633	1	0	0	0	0	1	0	0	0	14187	855	30	2	1391	2	SFRS18	6	99852539	Missense_Mutation	SNP	C	TCGA-KL-8334-01A-11D-2310-10	10998673	99852539	71262528	24	38993										
URGCP	55665	broad.mit.edu	37	chr7	43917145	43917146	+	Frame_Shift_Ins	INS	-	-	C													0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	agtgggcaaaacgcctctggINScctgccggcagcctccctgc							TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr7:43917145_43917146insC	ENST00000453200.1	-	6	2409_2410	c.1916_1917insG	c.(1915-1917)ggcfs	p.G639fs	URGCP_ENST00000447717.3_Frame_Shift_Ins_p.G596fs|URGCP_ENST00000497914.1_5'UTR|URGCP_ENST00000336086.6_Frame_Shift_Ins_p.G596fs|URGCP_ENST00000443736.1_Frame_Shift_Ins_p.G596fs|URGCP_ENST00000223341.7_Frame_Shift_Ins_p.G596fs|URGCP-MRPS24_ENST00000603700.1_Intron|URGCP_ENST00000402306.3_Frame_Shift_Ins_p.G630fs			Q8TCY9	URGCP_HUMAN	upregulator of cell proliferation	639					cell cycle (GO:0007049)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	GTP binding (GO:0005525)			breast(3)|endometrium(4)|kidney(2)|large_intestine(3)|liver(1)|lung(13)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	34						AACGCCTCTGGCCTGCCGGCAG	0.629																																																0																																										SO:0001589	frameshift_variant	55665				CCDS43572.1, CCDS47577.1, CCDS47578.1	7p13	2010-02-17			ENSG00000106608	ENSG00000106608			30890	protein-coding gene	gene with protein product	"up-regulated gene 4"	610337				10819331, 12082552	Standard	NM_017920		Approved	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457	uc003tiw.3	Q8TCY9	OTTHUMG00000155245	ENST00000453200.1:c.1917dupG	7.37:g.43917147_43917147dupC	ENSP00000396918:p.Gly639fs	Somatic		WXS	Illumina HiSeq	Phase_I	E9PFF6|Q658M4|Q68DH6|Q6MZZ5|Q8WV98|Q9NWR7|Q9P221	Frame_Shift_Ins	INS	ENST00000453200.1	37	CCDS47578.1																																																																																				0.629	URGCP-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000338995.1	NM_001077664		C	43917146	-	C	43917145	7	5	633	1	0	1	1	0	0	0	0	0	17038	1190	42	0	882	0	URGCP	7	43917145	Frame_Shift_Ins	INS	-	TCGA-KL-8334-01A-11D-2310-10		43917145	115221518	25	38994										
KIAA1324L	222223	broad.mit.edu	37	chr7	86542297	86542297	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	gcccgcatggaatacaagccTctttgccatagacctgatgt	9	12	1	2			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr7:86542297T>C	ENST00000450689.2	-	14	2140	c.1955A>G	c.(1954-1956)gAg>gGg	p.E652G	KIAA1324L_ENST00000490995.1_5'Flank|KIAA1324L_ENST00000297222.6_Missense_Mutation_p.E412G|KIAA1324L_ENST00000444627.1_Missense_Mutation_p.R606G|KIAA1324L_ENST00000416314.1_Missense_Mutation_p.E485G	NM_001142749.2	NP_001136221.1	A8MWY0	K132L_HUMAN	KIAA1324-like	652						integral component of membrane (GO:0016021)				breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(14)|ovary(6)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	44	Esophageal squamous(14;0.0058)					AATACAAGCCTCTTTGCCATA	0.473																																																0													120	98	105					7																	86542297		2203	4300	6503	SO:0001583	missense	222223			AK055902	CCDS34677.1, CCDS47632.1, CCDS34677.2	7q21.12	2008-09-18			ENSG00000164659	ENSG00000164659			21945	protein-coding gene	gene with protein product	"EIG121-like"	614048					Standard	NM_001142749		Approved	FLJ31340, EIG121L	uc011kha.2	A8MWY0	OTTHUMG00000153995	ENST00000450689.2:c.1955A>G	7.37:g.86542297T>C	ENSP00000413445:p.Glu652Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1C9|B4DJV3|Q17RI6|Q96DP2	Missense_Mutation	SNP	ENST00000450689.2	37	CCDS47632.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	16.88|16.88	3.244237|3.244237	0.59103|0.59103	.|.	.|.	ENSG00000164659|ENSG00000164659	ENST00000450689;ENST00000297222;ENST00000416314|ENST00000444627	T;T;T|T	0.20738|0.18502	2.31;2.06;2.05|2.21	5.82|5.82	5.82|5.82	0.92795|0.92795	Growth factor, receptor (1);|.	0.091963|.	0.85682|.	D|.	0.000000|.	T|T	0.30541|0.30541	0.0768|0.0768	L|L	0.55834|0.55834	1.745|1.745	0.80722|0.80722	D|D	1|1	P;P;P|.	0.52316|.	0.936;0.952;0.952|.	P;P;P|.	0.49528|.	0.614;0.6;0.461|.	T|T	0.00770|0.00770	-1.1573|-1.1573	10|6	0.31617|.	T|.	0.26|.	.|.	15.3651|15.3651	0.74516|0.74516	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	652;412;485|.	A8MWY0;A8MWY0-2;B4DJV3|.	K132L_HUMAN;.;.|.	G|G	652;412;485|606	ENSP00000413445:E652G;ENSP00000297222:E412G;ENSP00000402390:E485G|ENSP00000397377:R606G	ENSP00000297222:E412G|.	E|R	-|-	2|1	0|2	KIAA1324L|KIAA1324L	86380233|86380233	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.951000|0.951000	0.60555|0.60555	7.499000|7.499000	0.81566|0.81566	2.222000|2.222000	0.72286|0.72286	0.533000|0.533000	0.62120|0.62120	GAG|AGG		0.473	KIAA1324L-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000333372.3	NM_152748		C	86542297	T	C	86542297	3	2	633	1	0	0	0	0	1	0	0	0	8231	1551	54	3	1170	3	KIAA1324L	7	86542297	Missense_Mutation	SNP	T	TCGA-KL-8334-01A-11D-2310-10	42625152	86542297	72596366	26	38995										
ZC3HAV1	56829	ucsc.edu	37	chr7	138794049	138794049	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	gggcgcacaggattttggtgAtgaagcagcacacctccggg	15	10	0	2			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr7:138794049A>G	ENST00000242351.5	-	1	345	c.29T>C	c.(28-30)aTc>aCc	p.I10T	ZC3HAV1_ENST00000471652.1_Missense_Mutation_p.I10T|ZC3HAV1_ENST00000464606.1_Missense_Mutation_p.I10T	NM_020119.3	NP_064504.2	Q7Z2W4	ZCCHV_HUMAN	zinc finger CCCH-type, antiviral 1	10	N-terminal domain.				defense response to virus (GO:0051607)|innate immune response (GO:0045087)|negative regulation of viral genome replication (GO:0045071)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interferon-alpha production (GO:0032727)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of mRNA catabolic process (GO:0061014)|positive regulation of RIG-I signaling pathway (GO:1900246)|response to virus (GO:0009615)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|NAD+ ADP-ribosyltransferase activity (GO:0003950)|poly(A) RNA binding (GO:0044822)			cervix(2)|endometrium(4)|kidney(3)|large_intestine(7)|lung(14)|ovary(2)|prostate(4)|skin(1)	37						GATTTTGGTGATGAAGCAGCA	0.662																																																0													12	16	15					7																	138794049		2138	4262	6400	SO:0001583	missense	56829			BX571742	CCDS5851.1, CCDS55171.1	7q34	2012-07-05			ENSG00000105939	ENSG00000105939		"Zinc fingers, CCCH-type domain containing", "Poly (ADP-ribose) polymerases"	23721	protein-coding gene	gene with protein product	"zinc finger antiviral protein", " CCCH-type zinc finger antiviral protein"	607312				12215647, 12851707	Standard	NM_024625		Approved	ZAP, FLB6421, FLJ13288, MGC48898, ZC3HDC2, ZC3H2, PARP13	uc003vun.3	Q7Z2W4	OTTHUMG00000157471	ENST00000242351.5:c.29T>C	7.37:g.138794049A>G	ENSP00000242351:p.Ile10Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1R2|A4D1S4|Q8IW57|Q8TAJ3|Q96N79|Q9H8R9|Q9P0Y7	Missense_Mutation	SNP	ENST00000242351.5	37	CCDS5851.1	.	.	.	.	.	.	.	.	.	.	A	25.0	4.594052	0.86953	.	.	ENSG00000105939	ENST00000242351;ENST00000464606;ENST00000471652	T;T;T	0.42900	0.96;0.96;0.96	4.63	4.63	0.57726	.	0.268964	0.26836	N	0.022257	T	0.57755	0.2075	M	0.71581	2.175	0.38353	D	0.944395	D;D	0.69078	0.992;0.997	P;P	0.61397	0.866;0.888	T	0.65800	-0.6080	10	0.87932	D	0	.	10.5908	0.45308	1.0:0.0:0.0:0.0	.	10;10	Q7Z2W4-2;Q7Z2W4	.;ZCCHV_HUMAN	T	10	ENSP00000242351:I10T;ENSP00000418385:I10T;ENSP00000419855:I10T	ENSP00000242351:I10T	I	-	2	0	ZC3HAV1	138444589	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	4.970000	0.63742	2.073000	0.62155	0.402000	0.26972	ATC		0.662	ZC3HAV1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348915.1	NM_020119		G	138794049	A	G	138794049	3	3	633	1	0	0	0	0	1	0	0	0	17587	333	12	3	2735	3	ZC3HAV1	7	138794049	Missense_Mutation	SNP	A	TCGA-KL-8334-01A-11D-2310-10	52251752	138794049	20344614	27	38996										
ASPN	54829	hgsc.bcm.edu	37	chr9	95237030	95237030	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	aaaagagagttgtcctcatcAtcatcatcatcatcatcatc	4	11	8	1	rs143279922		TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr9:95237030A>C	ENST00000375544.3	-	2	393	c.150T>G	c.(148-150)gaT>gaG	p.D50E	ASPN_ENST00000375543.1_Missense_Mutation_p.D50E|ASPN_ENST00000395538.3_Missense_Mutation_p.D50E|CENPP_ENST00000375587.3_Intron|ASPN_ENST00000450139.2_Missense_Mutation_p.D22E	NM_017680.4	NP_060150	Q9BXN1	ASPN_HUMAN	asporin	50	Poly-Asp.				bone mineralization (GO:0030282)|negative regulation of tooth mineralization (GO:0070171)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)	proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(1)|skin(1)	9						TGTCCtcatcatcatcatcat	0.398																																																0													112	102	105					9																	95237030		2203	4300	6503	SO:0001583	missense	54829			AF316824		9q22.31	2008-05-14	2007-02-15		ENSG00000106819	ENSG00000106819		"Proteoglycans / Extracellular Matrix : Small leucine-rich repeats"	14872	protein-coding gene	gene with protein product	"asporin proteoglycan"	608135	"asporin (LRR class 1)"				Standard	NM_017680		Approved	FLJ20129, SLRR1C, PLAP1	uc004ase.2	Q9BXN1	OTTHUMG00000020227	ENST00000375544.3:c.150T>G	9.37:g.95237030A>C	ENSP00000364694:p.Asp50Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TBF3|Q96K79|Q96LD0|Q9NXP3	Missense_Mutation	SNP	ENST00000375544.3	37		.	.	.	.	.	.	.	.	.	.	A	2.759	-0.258312	0.05791	.	.	ENSG00000106819	ENST00000375544;ENST00000375543;ENST00000395538;ENST00000450139	T;T;T	0.52983	0.64;0.69;0.69	3.41	-5.95	0.02241	.	1.551710	0.03954	N	0.288946	T	0.32645	0.0836	L	0.40543	1.245	0.09310	N	1	B;B	0.32245	0.361;0.001	B;B	0.27380	0.079;0.001	T	0.11941	-1.0567	10	0.22109	T	0.4	.	7.6964	0.28598	0.4608:0.1193:0.4198:0.0	.	50;50	Q5TBF2;Q9BXN1	.;ASPN_HUMAN	E	50;50;50;22	ENSP00000364694:D50E;ENSP00000364693:D50E;ENSP00000378909:D50E	ENSP00000364693:D50E	D	-	3	2	ASPN	94276851	0.001000	0.12720	0.000000	0.03702	0.000000	0.00434	-1.911000	0.01583	-2.152000	0.00794	-2.339000	0.00246	GAT		0.398	ASPN-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000053094.1	NM_017680		C	95237030	A	C	95237030	3	2	633	1	0	0	0	0	1	0	0	0	1057	214	8	5	1020	5	ASPN	9	95237030	Missense_Mutation	SNP	A	TCGA-KL-8334-01A-11D-2310-10		95237030	45976401	28	38997										
KIAA1462	57608	ucsc.edu	37	chr10	30317404	30317404	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tcccagtttggaactttttgAgcttggtttgagtttcgcag	11	7	0	2			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr10:30317404A>G	ENST00000375377.1	-	3	1774	c.1673T>C	c.(1672-1674)cTc>cCc	p.L558P		NM_020848.2	NP_065899.1	Q9P266	JCAD_HUMAN	KIAA1462	558					cell adhesion (GO:0007155)	cell-cell junction (GO:0005911)				breast(3)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(17)|lung(23)|ovary(6)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)	75						GAACTTTTTGAGCTTGGTTTG	0.468																																																0													100	102	101					10																	30317404		1887	4129	6016	SO:0001583	missense	57608			AB040895	CCDS41500.1	10p12.1	2013-04-23			ENSG00000165757	ENSG00000165757			29283	protein-coding gene	gene with protein product	"junctional protein associated with coronary artery disease"	614398				10819331, 21884682	Standard	NM_020848		Approved	JCAD	uc001iux.3	Q9P266	OTTHUMG00000017885	ENST00000375377.1:c.1673T>C	10.37:g.30317404A>G	ENSP00000364526:p.Leu558Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5HYA7|Q5T992|Q86WZ9|Q9BYJ2	Missense_Mutation	SNP	ENST00000375377.1	37	CCDS41500.1	.	.	.	.	.	.	.	.	.	.	A	16.56	3.158533	0.57368	.	.	ENSG00000165757	ENST00000375377	T	0.21734	1.99	5.62	4.48	0.54585	.	0.289920	0.33180	N	0.005195	T	0.29524	0.0736	M	0.69823	2.125	0.80722	D	1	P	0.46952	0.887	P	0.45406	0.479	T	0.06463	-1.0825	10	0.87932	D	0	-30.5916	11.3824	0.49766	0.9289:0.0:0.071:0.0	.	558	Q9P266	K1462_HUMAN	P	558	ENSP00000364526:L558P	ENSP00000364526:L558P	L	-	2	0	KIAA1462	30357410	1.000000	0.71417	0.761000	0.31378	0.596000	0.36781	4.584000	0.60971	0.962000	0.38057	0.459000	0.35465	CTC		0.468	KIAA1462-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047409.1	NM_020848		G	30317404	A	G	30317404	3	3	633	1	0	0	0	0	1	0	0	0	8241	304	11	3	2414	3	KIAA1462	10	30317404	Missense_Mutation	SNP	A	TCGA-KL-8334-01A-11D-2310-10		30317404	105217343	29	38998										
CSGALNACT2	55454	broad.mit.edu	37	chr10	43659419	43659419	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tgggacaagggagaggtcttGatgtttttctgtgatgttga	15	3	2	4	rs79064394		TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr10:43659419G>T	ENST00000374466.3	+	5	1421	c.1086G>T	c.(1084-1086)ttG>ttT	p.L362F		NM_018590.3	NP_061060.3	Q8N6G5	CGAT2_HUMAN	chondroitin sulfate N-acetylgalactosaminyltransferase 2	362					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|chondroitin sulfate proteoglycan biosynthetic process (GO:0050650)|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050653)|dermatan sulfate proteoglycan biosynthetic process (GO:0050651)|dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050652)|glycosaminoglycan metabolic process (GO:0030203)|proteoglycan biosynthetic process (GO:0030166)|small molecule metabolic process (GO:0044281)	Golgi cisterna membrane (GO:0032580)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)|membrane (GO:0016020)	acetylgalactosaminyltransferase activity (GO:0008376)|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity (GO:0047237)|metal ion binding (GO:0046872)	p.L362F(5)		endometrium(12)|kidney(3)|large_intestine(5)|lung(16)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	42						GAGAGGTCTTGATGTTTTTCT	0.433																																																5	Substitution - Missense(5)	endometrium(4)|kidney(1)											223	221	222					10																	43659419		2203	4300	6503	SO:0001583	missense	55454			AF116646	CCDS7201.1	10q11.21	2013-02-19			ENSG00000169826	ENSG00000169826		"Beta 4-glycosyltransferases"	24292	protein-coding gene	gene with protein product	"chondroitin beta1,4 N-acetylgalactosaminyltransferase 2"					12446672	Standard	NM_018590		Approved	GALNACT2, MGC40204, PRO0082, GALNACT-2	uc001jan.4	Q8N6G5	OTTHUMG00000018023	ENST00000374466.3:c.1086G>T	10.37:g.43659419G>T	ENSP00000363590:p.Leu362Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWL7|Q6MZJ5|Q6MZP6|Q8TCH4|Q9P1I6	Missense_Mutation	SNP	ENST00000374466.3	37	CCDS7201.1	.	.	.	.	.	.	.	.	.	.	G	24.2	4.499782	0.85176	.	.	ENSG00000169826	ENST00000374466	T	0.27256	1.68	6.08	5.17	0.71159	.	0.064535	0.64402	D	0.000004	T	0.57359	0.2048	M	0.89095	3.005	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.63721	-0.6573	10	0.87932	D	0	-11.7375	14.8306	0.70146	0.0683:0.0:0.9317:0.0	.	362	Q8N6G5	CGAT2_HUMAN	F	362	ENSP00000363590:L362F	ENSP00000363590:L362F	L	+	3	2	CSGALNACT2	42979425	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.683000	0.37638	2.894000	0.99253	0.591000	0.81541	TTG		0.433	CSGALNACT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047693.1	NM_018590		T	43659419	G	T	43659419	3	4	633	1	0	0	0	0	1	0	0	0	3941	1281	45	4	1100	4	CSGALNACT2	10	43659419	Missense_Mutation	SNP	G	TCGA-KL-8334-01A-11D-2310-10	13342015	43659419	91875328	30	38999										
UNC5B	219699	ucsc.edu	37	chr10	73044593	73044593	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	gctccgcgggcaccaccaagAgtcgccgagcctacgtccgc	12	18	0	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr10:73044593A>G	ENST00000335350.6	+	3	837	c.421A>G	c.(421-423)Agt>Ggt	p.S141G	UNC5B_ENST00000373192.4_Missense_Mutation_p.S141G	NM_170744.4	NP_734465.2	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B (C. elegans)	141	Ig-like.				anterior/posterior axon guidance (GO:0033564)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of neuron apoptotic process (GO:0043524)|positive regulation of apoptotic process (GO:0043065)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|regulation of apoptotic process (GO:0042981)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)				breast(2)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(8)|lung(17)|ovary(4)|prostate(4)|skin(4)	49						CACCACCAAGAGTCGCCGAGC	0.652																																																0													79	75	77					10																	73044593		2203	4300	6503	SO:0001583	missense	219699			AB096256	CCDS7309.1, CCDS58083.1	10q22.2	2013-01-11	2001-11-28		ENSG00000107731	ENSG00000107731		"Immunoglobulin superfamily / I-set domain containing"	12568	protein-coding gene	gene with protein product		607870	"unc5 (C.elegans homolog) b"				Standard	NM_170744		Approved	UNC5H2, p53RDL1	uc001jro.3	Q8IZJ1	OTTHUMG00000018422	ENST00000335350.6:c.421A>G	10.37:g.73044593A>G	ENSP00000334329:p.Ser141Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3R9|Q5T3S0|Q86SN3|Q8N1Y2|Q9H9F3	Missense_Mutation	SNP	ENST00000335350.6	37	CCDS7309.1	.	.	.	.	.	.	.	.	.	.	A	28.7	4.938744	0.92526	.	.	ENSG00000107731	ENST00000335350;ENST00000373192	T;T	0.24723	1.84;1.84	5.03	5.03	0.67393	Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	T	0.53867	0.1823	M	0.82823	2.61	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.80764	0.994;0.986	T	0.59963	-0.7355	10	0.54805	T	0.06	-11.1453	14.7589	0.69590	1.0:0.0:0.0:0.0	.	141;141	Q8IZJ1-2;Q8IZJ1	.;UNC5B_HUMAN	G	141	ENSP00000334329:S141G;ENSP00000362288:S141G	ENSP00000334329:S141G	S	+	1	0	UNC5B	72714599	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	9.339000	0.96797	1.880000	0.54463	0.454000	0.30748	AGT		0.652	UNC5B-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048541.1	NM_170744		G	73044593	A	G	73044593	3	3	633	1	0	0	0	0	1	0	0	0	17004	304	11	3	431	3	UNC5B	10	73044593	Missense_Mutation	SNP	A	TCGA-KL-8334-01A-11D-2310-10	29385174	73044593	62490154	31	39000										
GPAM	57678	broad.mit.edu	37	chr10	113933564	113933564	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tgctgggcagaaccatcaggGtttaattcagcagccacttc	10	11	2	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr10:113933564G>T	ENST00000348367.4	-	7	650	c.453C>A	c.(451-453)aaC>aaA	p.N151K	GPAM_ENST00000423155.1_Missense_Mutation_p.N151K|GPAM_ENST00000369425.1_Missense_Mutation_p.N151K			Q9HCL2	GPAT1_HUMAN	glycerol-3-phosphate acyltransferase, mitochondrial	151					acyl-CoA metabolic process (GO:0006637)|CDP-diacylglycerol biosynthetic process (GO:0016024)|cellular lipid metabolic process (GO:0044255)|defense response to virus (GO:0051607)|fatty acid homeostasis (GO:0055089)|fatty acid metabolic process (GO:0006631)|glycerophospholipid biosynthetic process (GO:0046474)|interleukin-2 secretion (GO:0070970)|negative regulation of activation-induced cell death of T cells (GO:0070236)|phosphatidic acid biosynthetic process (GO:0006654)|phospholipid homeostasis (GO:0055091)|phospholipid metabolic process (GO:0006644)|positive regulation of activated T cell proliferation (GO:0042104)|positive regulation of multicellular organism growth (GO:0040018)|regulation of cytokine secretion (GO:0050707)|response to glucose (GO:0009749)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrial outer membrane (GO:0005741)|plasma membrane (GO:0005886)	glycerol-3-phosphate O-acyltransferase activity (GO:0004366)			breast(2)|central_nervous_system(2)|endometrium(8)|kidney(2)|large_intestine(5)|lung(8)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	31				Epithelial(162;0.0306)|all cancers(201;0.123)		AACCATCAGGGTTTAATTCAG	0.393																																					Ovarian(161;1017 2606 18293 52943)											0													87	79	81					10																	113933564		2203	4300	6503	SO:0001583	missense	57678			AL832464	CCDS7570.1	10q25.3	2009-07-15			ENSG00000119927	ENSG00000119927			24865	protein-coding gene	gene with protein product	"glycerol-3-phosphate acyltransferase 1, mitochondrial"	602395				10997877, 8369314	Standard	NM_020918		Approved	KIAA1560, MGC26846, GPAT1	uc001kzp.3	Q9HCL2	OTTHUMG00000019055	ENST00000348367.4:c.453C>A	10.37:g.113933564G>T	ENSP00000265276:p.Asn151Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VW51|Q86TA3	Missense_Mutation	SNP	ENST00000348367.4	37	CCDS7570.1	.	.	.	.	.	.	.	.	.	.	G	11.05	1.524672	0.27299	.	.	ENSG00000119927	ENST00000348367;ENST00000423155;ENST00000369425	T;T;T	0.67523	-0.27;-0.27;-0.27	6.02	-1.13	0.09775	.	0.206543	0.50627	D	0.000102	T	0.41534	0.1163	L	0.29908	0.895	0.19300	N	0.999979	B;B	0.26672	0.156;0.067	B;B	0.22386	0.039;0.027	T	0.36529	-0.9744	10	0.06099	T	0.92	-25.0851	6.8287	0.23897	0.6387:0.0:0.2374:0.1239	.	151;151	Q5VW52;Q9HCL2	.;GPAT1_HUMAN	K	151	ENSP00000265276:N151K;ENSP00000409242:N151K;ENSP00000358433:N151K	ENSP00000265276:N151K	N	-	3	2	GPAM	113923554	0.727000	0.28069	0.892000	0.35008	0.576000	0.36127	0.020000	0.13466	-0.375000	0.07955	-0.145000	0.13849	AAC		0.393	GPAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050377.1	NM_020918		T	113933564	G	T	113933564	3	4	633	1	0	0	0	0	1	0	0	0	6595	1252	44	4	2097	4	GPAM	10	113933564	Missense_Mutation	SNP	G	TCGA-KL-8334-01A-11D-2310-10	40888971	113933564	21601183	32	39001										
ATE1	11101	broad.mit.edu;bcgsc.ca	37	chr10	123596309	123596309	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	gttgagaagttttctcatgaAgctgcctagtaaaagcaatt	9	6	1	2			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr10:123596309A>G	ENST00000224652.6	-	10	1266	c.1181T>C	c.(1180-1182)cTt>cCt	p.L394P	ATE1_ENST00000540606.1_Missense_Mutation_p.L387P|ATE1_ENST00000369040.3_Missense_Mutation_p.L298P|ATE1_ENST00000535655.1_Missense_Mutation_p.L95P|ATE1_ENST00000369043.3_Missense_Mutation_p.L394P|ATE1_ENST00000543447.1_Missense_Mutation_p.L279P	NM_001001976.1	NP_001001976.1	O95260	ATE1_HUMAN	arginyltransferase 1	394					protein arginylation (GO:0016598)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	arginyltransferase activity (GO:0004057)			endometrium(2)|kidney(2)|large_intestine(2)|lung(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	14		all_neural(114;0.061)|Lung NSC(174;0.095)|all_lung(145;0.124)|Breast(234;0.212)				TTTCTCATGAAGCTGCCTAGT	0.328																																																0													48	53	52					10																	123596309		2196	4293	6489	SO:0001583	missense	11101			AF079098	CCDS31299.1, CCDS31300.1, CCDS73211.1, CCDS73212.1, CCDS73213.1	10q26	2013-05-08			ENSG00000107669	ENSG00000107669	2.3.2.8		782	protein-coding gene	gene with protein product		607103				16002466, 16943202	Standard	XM_005269458		Approved		uc001lfq.3	O95260	OTTHUMG00000019178	ENST00000224652.6:c.1181T>C	10.37:g.123596309A>G	ENSP00000224652:p.Leu394Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O95261|Q5SQQ3|Q8WW04	Missense_Mutation	SNP	ENST00000224652.6	37	CCDS31300.1	.	.	.	.	.	.	.	.	.	.	A	24.2	4.504714	0.85176	.	.	ENSG00000107669	ENST00000369043;ENST00000535655;ENST00000224652;ENST00000369040;ENST00000540606;ENST00000543447	.	.	.	5.66	5.66	0.87406	Acyl-CoA N-acyltransferase (1);Arginine-tRNA-protein transferase, C-terminal (1);	0.000000	0.64402	D	0.000001	D	0.87585	0.6214	H	0.96048	3.76	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	0.998;1.0;0.999;0.998	D	0.91320	0.5081	9	0.66056	D	0.02	-7.6788	15.898	0.79350	1.0:0.0:0.0:0.0	.	387;298;394;394	F5GXE4;B4E107;O95260;O95260-2	.;.;ATE1_HUMAN;.	P	394;95;394;298;387;279	.	ENSP00000224652:L394P	L	-	2	0	ATE1	123586299	1.000000	0.71417	0.998000	0.56505	0.959000	0.62525	9.270000	0.95690	2.161000	0.67846	0.533000	0.62120	CTT		0.328	ATE1-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_001001976		G	123596309	A	G	123596309	3	3	633	1	0	0	0	0	1	0	0	0	1078	72	3	3	387	3	ATE1	10	123596309	Missense_Mutation	SNP	A	TCGA-KL-8334-01A-11D-2310-10	9662745	123596309	11938438	33	39002										
MUC6	4588	bcgsc.ca	37	chr11	1016628	1016628	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tcattggtggggctgtgtggGtggaccctgtggccttgagc	18	8	1	1	rs202039948		TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr11:1016628G>A	ENST00000421673.2	-	31	6223	c.6173C>T	c.(6172-6174)aCc>aTc	p.T2058I		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	2058	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GGCTGTGTGGGTGGACCCTGT	0.567																																																0													381	380	380					11																	1016628		2193	4287	6480	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.6173C>T	11.37:g.1016628G>A	ENSP00000406861:p.Thr2058Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	14.35	2.507954	0.44558	.	.	ENSG00000184956	ENST00000421673	T	0.19250	2.16	2.46	2.46	0.29980	.	.	.	.	.	T	0.20941	0.0504	L	0.50333	1.59	0.09310	N	1	D	0.56968	0.978	B	0.42738	0.396	T	0.10706	-1.0618	9	0.45353	T	0.12	.	11.0274	0.47753	0.0:0.0:1.0:0.0	.	2058	Q6W4X9	MUC6_HUMAN	I	2058	ENSP00000406861:T2058I	ENSP00000406861:T2058I	T	-	2	0	MUC6	1006628	0.007000	0.16637	0.002000	0.10522	0.226000	0.24999	1.358000	0.34102	1.716000	0.51395	0.313000	0.20887	ACC		0.567	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1016628	G	A	1016628	3	1	633	1	0	0	0	0	1	0	0	0	9987	1261	44	2	1158	2	MUC6	11	1016628	Missense_Mutation	SNP	G	TCGA-KL-8334-01A-11D-2310-10		1016628	133989888	34	39003			1	83		5	5	1352	G		4.033653e-12
MUC6	4588	bcgsc.ca	37	chr11	1016662	1016662	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	cttgagcgttgttggtggagGaacggtgcctgttggcgttg	18	6	0	1	rs201489806		TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr11:1016662G>A	ENST00000421673.2	-	31	6189	c.6139C>T	c.(6139-6141)Cct>Tct	p.P2047S		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	2047	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GTTGGTGGAGGAACGGTGCCT	0.572																																																0													524	490	502					11																	1016662		2200	4295	6495	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.6139C>T	11.37:g.1016662G>A	ENSP00000406861:p.Pro2047Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	6.404	0.442648	0.12164	.	.	ENSG00000184956	ENST00000421673	T	0.18810	2.19	3.12	-2.06	0.07298	.	.	.	.	.	T	0.10809	0.0264	L	0.33485	1.01	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.40553	-0.9557	9	0.11485	T	0.65	.	2.5371	0.04716	0.2087:0.142:0.5053:0.144	.	2047	Q6W4X9	MUC6_HUMAN	S	2047	ENSP00000406861:P2047S	ENSP00000406861:P2047S	P	-	1	0	MUC6	1006662	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	0.038000	0.13862	-1.027000	0.03325	-1.786000	0.00637	CCT		0.572	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1016662	G	A	1016662	3	1	633	1	0	0	0	0	1	0	0	0	9987	1174	41	2	1192	2	MUC6	11	1016662	Missense_Mutation	SNP	G	TCGA-KL-8334-01A-11D-2310-10	34	1016662	133989854	35	39004			1	83		5	5	1352	G		4.033653e-12
MUC6	4588	mdanderson.org	37	chr11	1017022	1017022	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	agttggggtgacttcaggatGgtgtgttgaggaagtgtggt	19	2	1	2			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr11:1017022G>A	ENST00000421673.2	-	31	5829	c.5779C>T	c.(5779-5781)Cat>Tat	p.H1927Y		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1927	Approximate repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		ACTTCAGGATGGTGTGTTGAG	0.557																																																0													680	683	682					11																	1017022		2201	4285	6486	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5779C>T	11.37:g.1017022G>A	ENSP00000406861:p.His1927Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	0.512	-0.865870	0.02590	.	.	ENSG00000184956	ENST00000421673	T	0.25579	1.79	3.05	-0.616	0.11583	.	.	.	.	.	T	0.14013	0.0339	L	0.29908	0.895	0.09310	N	1	B	0.13145	0.007	B	0.08055	0.003	T	0.28459	-1.0043	9	0.30078	T	0.28	.	2.386	0.04365	0.1202:0.3607:0.3491:0.17	.	1927	Q6W4X9	MUC6_HUMAN	Y	1927	ENSP00000406861:H1927Y	ENSP00000406861:H1927Y	H	-	1	0	MUC6	1007022	0.000000	0.05858	0.000000	0.03702	0.061000	0.15899	0.407000	0.21049	-0.244000	0.09639	0.313000	0.20887	CAT		0.557	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1017022	G	A	1017022	3	1	633	1	0	0	0	0	1	0	0	0	9987	1348	47	2	1552	2	MUC6	11	1017022	Missense_Mutation	SNP	G	TCGA-KL-8334-01A-11D-2310-10	360	1017022	133989494	36	39005			1	83		5	5	1352	G		4.033653e-12
MUC6	4588	mdanderson.org	37	chr11	1017543	1017543	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	caggatggtgtgtggaggaaGtgtgtgaatgtagggatgta	19	1	0	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr11:1017543G>A	ENST00000421673.2	-	31	5308	c.5258C>T	c.(5257-5259)aCt>aTt	p.T1753I		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1753	Approximate repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		TGTGGAGGAAGTGTGTGAATG	0.552																																																0													834	785	802					11																	1017543		2201	4293	6494	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5258C>T	11.37:g.1017543G>A	ENSP00000406861:p.Thr1753Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	-	9.616	1.132522	0.21041	.	.	ENSG00000184956	ENST00000421673	T	0.21361	2.01	3.07	2.14	0.27477	.	.	.	.	.	T	0.24314	0.0589	N	0.24115	0.695	0.09310	N	1	D	0.59357	0.985	D	0.63488	0.915	T	0.07986	-1.0744	9	0.51188	T	0.08	.	4.2562	0.10719	0.133:0.0:0.6424:0.2245	.	1753	Q6W4X9	MUC6_HUMAN	I	1753	ENSP00000406861:T1753I	ENSP00000406861:T1753I	T	-	2	0	MUC6	1007543	0.040000	0.19996	0.001000	0.08648	0.079000	0.17450	2.410000	0.44592	0.585000	0.29608	0.313000	0.20887	ACT		0.552	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1017543	G	A	1017543	3	1	633	1	0	0	0	0	1	0	0	0	9987	1029	36	2	2073	2	MUC6	11	1017543	Missense_Mutation	SNP	G	TCGA-KL-8334-01A-11D-2310-10	521	1017543	133988973	37	39006			1	83		5	5	1352	G		4.033653e-12
MUC6	4588	mdanderson.org	37	chr11	1017979	1017979	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	agtgggaagtgtggtctgagGgtgtgatggggttggatagg	22	1	1	2			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr11:1017979G>A	ENST00000421673.2	-	31	4872	c.4822C>T	c.(4822-4824)Cct>Tct	p.P1608S		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1608	Approximate repeats.|Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GTGGTCTGAGGGTGTGATGGG	0.552																																																0													468	437	448					11																	1017979		2186	4278	6464	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4822C>T	11.37:g.1017979G>A	ENSP00000406861:p.Pro1608Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	5.477	0.273094	0.10349	.	.	ENSG00000184956	ENST00000421673	T	0.24538	1.85	2.39	0.275	0.15659	.	.	.	.	.	T	0.22936	0.0554	M	0.62723	1.935	0.09310	N	1	B	0.33135	0.399	B	0.33042	0.157	T	0.18777	-1.0326	9	0.45353	T	0.12	.	4.8879	0.13712	0.1334:0.0:0.6602:0.2064	.	1608	Q6W4X9	MUC6_HUMAN	S	1608	ENSP00000406861:P1608S	ENSP00000406861:P1608S	P	-	1	0	MUC6	1007979	0.004000	0.15560	0.001000	0.08648	0.024000	0.10985	-0.105000	0.10907	-0.082000	0.12640	-0.707000	0.03653	CCT		0.552	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1017979	G	A	1017979	3	1	633	1	0	0	0	0	1	0	0	0	9987	1232	43	2	2509	2	MUC6	11	1017979	Missense_Mutation	SNP	G	TCGA-KL-8334-01A-11D-2310-10	436	1017979	133988537	38	39007			1	83		5	5	1352	G		4.033653e-12
TH	7054	broad.mit.edu	37	chr11	2186902	2186902	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	aaggagagactctcaccaggAgctccccgtaggaggacagc	13	12	1	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr11:2186902A>G	ENST00000381178.1	-	12	1307	c.1289T>C	c.(1288-1290)cTc>cCc	p.L430P	TH_ENST00000352909.3_Missense_Mutation_p.L399P|TH_ENST00000333684.5_Missense_Mutation_p.L309P|TH_ENST00000381175.1_Missense_Mutation_p.L426P	NM_199292.2	NP_954986.2	P07101	TY3H_HUMAN	tyrosine hydroxylase	430					anatomical structure morphogenesis (GO:0009653)|catecholamine biosynthetic process (GO:0042423)|cellular nitrogen compound metabolic process (GO:0034641)|cellular response to drug (GO:0035690)|cellular response to glucose stimulus (GO:0071333)|cellular response to growth factor stimulus (GO:0071363)|cellular response to manganese ion (GO:0071287)|cellular response to nicotine (GO:0071316)|cerebral cortex development (GO:0021987)|circadian sleep/wake cycle (GO:0042745)|dopamine biosynthetic process (GO:0042416)|dopamine biosynthetic process from tyrosine (GO:0006585)|eating behavior (GO:0042755)|embryonic camera-type eye morphogenesis (GO:0048596)|epinephrine biosynthetic process (GO:0042418)|eye photoreceptor cell development (GO:0042462)|fatty acid metabolic process (GO:0006631)|glycoside metabolic process (GO:0016137)|heart development (GO:0007507)|heart morphogenesis (GO:0003007)|isoquinoline alkaloid metabolic process (GO:0033076)|learning (GO:0007612)|locomotory behavior (GO:0007626)|mating behavior (GO:0007617)|memory (GO:0007613)|multicellular organismal aging (GO:0010259)|neurotransmitter biosynthetic process (GO:0042136)|norepinephrine biosynthetic process (GO:0042421)|organ morphogenesis (GO:0009887)|phthalate metabolic process (GO:0018963)|phytoalexin metabolic process (GO:0052314)|pigmentation (GO:0043473)|regulation of heart contraction (GO:0008016)|response to activity (GO:0014823)|response to amphetamine (GO:0001975)|response to corticosterone (GO:0051412)|response to electrical stimulus (GO:0051602)|response to estradiol (GO:0032355)|response to ethanol (GO:0045471)|response to ether (GO:0045472)|response to herbicide (GO:0009635)|response to hypoxia (GO:0001666)|response to light stimulus (GO:0009416)|response to lipopolysaccharide (GO:0032496)|response to nutrient levels (GO:0031667)|response to peptide hormone (GO:0043434)|response to pyrethroid (GO:0046684)|response to salt stress (GO:0009651)|response to water deprivation (GO:0009414)|response to zinc ion (GO:0010043)|sensory perception of sound (GO:0007605)|small molecule metabolic process (GO:0044281)|social behavior (GO:0035176)|sphingolipid metabolic process (GO:0006665)|synaptic transmission, dopaminergic (GO:0001963)|synaptic vesicle amine transport (GO:0015842)|terpene metabolic process (GO:0042214)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|dendrite (GO:0030425)|melanosome membrane (GO:0033162)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|nucleus (GO:0005634)|perikaryon (GO:0043204)|smooth endoplasmic reticulum (GO:0005790)|synaptic vesicle (GO:0008021)|terminal bouton (GO:0043195)	amino acid binding (GO:0016597)|dopamine binding (GO:0035240)|enzyme binding (GO:0019899)|ferric iron binding (GO:0008199)|ferrous iron binding (GO:0008198)|oxygen binding (GO:0019825)|tetrahydrobiopterin binding (GO:0034617)|tyrosine 3-monooxygenase activity (GO:0004511)			NS(1)|endometrium(1)|large_intestine(1)|lung(7)|skin(1)	11		all_epithelial(84;1.46e-23)|Lung NSC(207;4.44e-11)|all_lung(207;1.11e-09)|Ovarian(85;1.78e-06)|Breast(177;1.78e-05)|Medulloblastoma(188;0.0208)|all_neural(188;0.0416)	Colorectal(5;0.00245)|COAD - Colon adenocarcinoma(6;0.0239)	BRCA - Breast invasive adenocarcinoma(625;8.45e-09)|Lung(200;0.000152)|LUSC - Lung squamous cell carcinoma(625;0.00154)	L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Metyrosine(DB00765)|Tetrahydrobiopterin(DB00360)	TCTCACCAGGAGCTCCCCGTA	0.662																																																0													51	50	51					11																	2186902		2200	4297	6497	SO:0001583	missense	7054			X05290	CCDS7730.1, CCDS7731.1, CCDS31338.1	11p15.5	2013-06-03			ENSG00000180176	ENSG00000180176	1.14.16.2		11782	protein-coding gene	gene with protein product	"tyrosine 3-monooxygenase"	191290					Standard	NM_199292		Approved	DYT5b	uc001lvq.3	P07101	OTTHUMG00000009559	ENST00000381178.1:c.1289T>C	11.37:g.2186902A>G	ENSP00000370571:p.Leu430Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZL70|B7ZL73|Q0PWM2|Q0PWM3|Q15585|Q15588|Q15589|Q2M3B4	Missense_Mutation	SNP	ENST00000381178.1	37	CCDS7731.1	.	.	.	.	.	.	.	.	.	.	A	15.01	2.705500	0.48412	.	.	ENSG00000180176	ENST00000381178;ENST00000381175;ENST00000352909;ENST00000333684	D;D;D;D	0.99807	-6.85;-6.85;-6.85;-6.85	4.03	2.78	0.32641	Aromatic amino acid hydroxylase, C-terminal (4);	0.000000	0.64402	D	0.000001	D	0.99764	0.9904	M	0.93763	3.455	0.58432	D	0.999995	D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D	0.97110	0.999;0.999;0.999;0.999;1.0;0.999	D	0.97556	1.0095	10	0.87932	D	0	5.1889	9.5303	0.39189	0.823:0.177:0.0:0.0	.	403;309;305;399;430;426	B7ZL73;Q0PWM2;Q0PWM3;P07101-3;P07101;P07101-2	.;.;.;.;TY3H_HUMAN;.	P	430;426;399;309	ENSP00000370571:L430P;ENSP00000370567:L426P;ENSP00000325951:L399P;ENSP00000328814:L309P	ENSP00000328814:L309P	L	-	2	0	TH	2143478	1.000000	0.71417	0.998000	0.56505	0.080000	0.17528	7.030000	0.76484	1.603000	0.50134	0.402000	0.26972	CTC		0.662	TH-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000026597.1	NM_000360		G	2186902	A	G	2186902	3	3	633	1	0	0	0	0	1	0	0	0	15850	304	11	3	309	3	TH	11	2186902	Missense_Mutation	SNP	A	TCGA-KL-8334-01A-11D-2310-10	1168923	2186902	132819614	39	39008										
TMEM132A	54972	ucsc.edu	37	chr11	60701218	60701218	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tacctggccctgctgaagggTgagtggaggcctgaggaagc	17	9	0	3			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr11:60701218T>C	ENST00000453848.2	+	8	1717		c.e8+2		TMEM132A_ENST00000005286.4_Splice_Site			Q24JP5	T132A_HUMAN	transmembrane protein 132A							endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)				breast(1)|cervix(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(14)|ovary(3)|prostate(1)|skin(3)	32						TGCTGAAGGGTGAGTGGAGGC	0.672																																																0													9	8	8					11																	60701218		2174	4249	6423	SO:0001630	splice_region_variant	54972			AK000546	CCDS7997.1, CCDS44618.1	11q12.2	2006-03-02	2006-03-02	2006-03-02	ENSG00000006118	ENSG00000006118			31092	protein-coding gene	gene with protein product			"heat shock 70kDa protein 5 (glucose-regulated protein, 78kDa) binding protein 1"	HSPA5BP1		12514190, 10997877	Standard	NM_017870		Approved	GBP, FLJ20539	uc001nqi.3	Q24JP5	OTTHUMG00000167803	ENST00000453848.2:c.1559+2T>C	11.37:g.60701218T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q69YU7|Q86VZ8|Q86W97|Q9H8K3|Q9HCI9|Q9NWY0	Splice_Site	SNP	ENST00000453848.2	37	CCDS44618.1	.	.	.	.	.	.	.	.	.	.	T	14.66	2.603215	0.46423	.	.	ENSG00000006118	ENST00000444690;ENST00000453848;ENST00000005286;ENST00000536409	.	.	.	4.38	4.38	0.52667	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	12.5458	0.56199	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	TMEM132A	60457794	1.000000	0.71417	1.000000	0.80357	0.672000	0.39443	1.573000	0.36472	1.909000	0.55274	0.528000	0.53228	.		0.672	TMEM132A-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000396352.1	NM_017870	Intron	C	60701218	T	C	60701218	5	2	633	1	0	0	0	0	0	0	1	0	16057	1710	59	3	1594	3	TMEM132A	11	60701218	Splice_Site	SNP	T	TCGA-KL-8334-01A-11D-2310-10	58514316	60701218	74305298	40	39009										
RSF1	51773	broad.mit.edu	37	chr11	77409663	77409663	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ttcactgccagacccttcacTttcatcattgctggaatatt	5	12	4	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr11:77409663T>C	ENST00000308488.6	-	7	2886	c.2584A>G	c.(2584-2586)Agt>Ggt	p.S862G	RSF1_ENST00000480887.1_Missense_Mutation_p.S610G|RSF1_ENST00000360355.2_Missense_Mutation_p.S831G			Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	862					CENP-A containing nucleosome assembly (GO:0034080)|chromatin remodeling (GO:0006338)|DNA-templated transcription, initiation (GO:0006352)|negative regulation of DNA binding (GO:0043392)|negative regulation of transcription, DNA-templated (GO:0045892)|nucleosome assembly (GO:0006334)|nucleosome positioning (GO:0016584)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of viral transcription (GO:0050434)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|RSF complex (GO:0031213)	histone binding (GO:0042393)|zinc ion binding (GO:0008270)			breast(3)|central_nervous_system(2)|endometrium(3)|kidney(4)|large_intestine(9)|lung(14)|ovary(2)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	43	all_cancers(14;1.54e-17)|all_epithelial(13;4.06e-20)|Ovarian(111;0.152)		Epithelial(5;3e-50)|all cancers(3;6.37e-47)|BRCA - Breast invasive adenocarcinoma(5;9.82e-31)			GACCCTTCACTTTCATCATTG	0.418																																																0													159	151	154					11																	77409663		2200	4292	6492	SO:0001583	missense	51773			AF380176, AF227948	CCDS8253.1	11q14.1	2013-01-28	2006-05-25	2006-05-25	ENSG00000048649	ENSG00000048649		"Zinc fingers, PHD-type"	18118	protein-coding gene	gene with protein product		608522	"hepatitis B virus x associated protein"	HBXAP		11788598, 12972596	Standard	NM_016578		Approved	XAP8, RSF-1, p325	uc001oyn.3	Q96T23	OTTHUMG00000150433	ENST00000308488.6:c.2584A>G	11.37:g.77409663T>C	ENSP00000311513:p.Ser862Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q86X86|Q9H3L8|Q9NVZ8|Q9NYU0	Missense_Mutation	SNP	ENST00000308488.6	37	CCDS8253.1	.	.	.	.	.	.	.	.	.	.	T	18.28	3.590084	0.66105	.	.	ENSG00000048649	ENST00000308488;ENST00000480887;ENST00000360355;ENST00000526324	D;D;D;D	0.86497	-2.08;-2.09;-2.07;-2.13	4.68	4.68	0.58851	Zinc finger, FYVE/PHD-type (1);	0.000000	0.64402	D	0.000013	T	0.79375	0.4435	L	0.29908	0.895	0.37258	D	0.906843	P	0.44734	0.842	B	0.36959	0.237	D	0.83999	0.0342	10	0.49607	T	0.09	-11.6966	14.2598	0.66078	0.0:0.0:0.0:1.0	.	862	Q96T23	RSF1_HUMAN	G	862;610;831;663	ENSP00000311513:S862G;ENSP00000434509:S610G;ENSP00000353511:S831G;ENSP00000432022:S663G	ENSP00000311513:S862G	S	-	1	0	RSF1	77087311	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	5.058000	0.64300	2.086000	0.62901	0.482000	0.46254	AGT		0.418	RSF1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318075.2	NM_016578		C	77409663	T	C	77409663	3	2	633	1	0	0	0	0	1	0	0	0	13712	1609	56	3	1781	3	RSF1	11	77409663	Missense_Mutation	SNP	T	TCGA-KL-8334-01A-11D-2310-10	16708445	77409663	57596853	41	39010										
PPP2R1B	5519	broad.mit.edu	37	chr11	111637006	111637007	+	Frame_Shift_Ins	INS	-	-	C													0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	gcggagctcgtcgattaaaaINSccgcgatcgggtatagcgaa							TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr11:111637006_111637007insC	ENST00000527614.1	-	1	144_145	c.79_80insG	c.(79-81)gttfs	p.V27fs	PPP2R1B_ENST00000341980.6_Frame_Shift_Ins_p.V27fs|PPP2R1B_ENST00000311129.5_Frame_Shift_Ins_p.V27fs|RP11-108O10.2_ENST00000529841.1_lincRNA|PPP2R1B_ENST00000426998.2_Frame_Shift_Ins_p.V27fs|PPP2R1B_ENST00000393055.2_Frame_Shift_Ins_p.V27fs|PPP2R1B_ENST00000427203.2_5'UTR	NM_001177562.1|NM_002716.4	NP_001171033.1|NP_002707.3	P30154	2AAB_HUMAN	protein phosphatase 2, regulatory subunit A, beta	27					apoptotic process involved in morphogenesis (GO:0060561)|positive regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001241)	extracellular vesicular exosome (GO:0070062)|membrane raft (GO:0045121)				endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|liver(1)|lung(10)|prostate(1)|urinary_tract(2)	22		all_cancers(61;2.34e-15)|all_epithelial(67;1.72e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|Epithelial(105;2.36e-06)|all cancers(92;3.78e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0761)		GTCGATTAAAACCGCGATCGGG	0.629																																																0																																										SO:0001589	frameshift_variant	5519			AF087438	CCDS8348.1, CCDS8349.1, CCDS53706.1, CCDS53707.1, CCDS53708.1	11q23.1	2010-06-18	2010-04-14		ENSG00000137713	ENSG00000137713	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatase 2, regulatory subunits"	9303	protein-coding gene	gene with protein product	"PP2A-A-beta", "protein phosphatase 2A, regulatory subunit A, beta isoform"	603113	"protein phosphatase 2 (formerly 2A), regulatory subunit A (PR 65), beta isoform", "protein phosphatase 2 (formerly 2A), regulatory subunit A, beta isoform"			2159327, 9795170	Standard	NM_181699		Approved	PR65B, PP2A-Abeta	uc001plw.1	P30154	OTTHUMG00000166741	ENST00000527614.1:c.80dupG	11.37:g.111637008_111637008dupC	ENSP00000437193:p.Val27fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8MY67|B0YJ69|B4DGQ6|B4DK91|B4DWW5|F8W8G1|O75620|Q8NHV8	Frame_Shift_Ins	INS	ENST00000527614.1	37	CCDS8349.1																																																																																				0.629	PPP2R1B-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000391298.1	NM_002716		C	111637007	-	C	111637006	7	5	633	1	0	1	1	0	0	0	0	0	12393	43	2	0	2008	0	PPP2R1B	11	111637006	Frame_Shift_Ins	INS	-	TCGA-KL-8334-01A-11D-2310-10	34227343	111637006	23369510	42	39011										
A2M	2	broad.mit.edu	37	chr12	9242558	9242558	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tgttcaggaactgaaggcacCtcagtcccacacagctcttg	9	13	3	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr12:9242558C>T	ENST00000318602.7	-	21	2965	c.2658G>A	c.(2656-2658)gaG>gaA	p.E886E		NM_000014.4	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin	886					blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|negative regulation of complement activation, lectin pathway (GO:0001869)|negative regulation of endopeptidase activity (GO:0010951)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|stem cell differentiation (GO:0048863)	blood microparticle (GO:0072562)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|platelet alpha granule lumen (GO:0031093)	calcium-dependent protein binding (GO:0048306)|enzyme binding (GO:0019899)|growth factor binding (GO:0019838)|interleukin-1 binding (GO:0019966)|interleukin-8 binding (GO:0019959)|protease binding (GO:0002020)|receptor binding (GO:0005102)|serine-type endopeptidase inhibitor activity (GO:0004867)|tumor necrosis factor binding (GO:0043120)			breast(1)|central_nervous_system(6)|cervix(1)|endometrium(5)|kidney(6)|large_intestine(17)|lung(30)|ovary(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	77					Bacitracin(DB00626)|Becaplermin(DB00102)|Ocriplasmin(DB08888)	CTGAAGGCACCTCAGTCCCAC	0.413													C|||	1	0.000199681	0.0	0.0	5008	,	,		-128	0.0		0.0	False		,,,				2504	0.001															0													94	94	94					12																	9242558		1914	4121	6035	SO:0001819	synonymous_variant	2			BX647329, X68728, M11313	CCDS44827.1	12p13.31	2010-02-24			ENSG00000175899	ENSG00000175899			7	protein-coding gene	gene with protein product		103950					Standard	XM_006719056		Approved	FWP007, S863-7, CPAMD5	uc001qvk.1	P01023	OTTHUMG00000150267	ENST00000318602.7:c.2658G>A	12.37:g.9242558C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q13677|Q59F47|Q5QTS0|Q68DN2|Q6PIY3|Q6PN97	Silent	SNP	ENST00000318602.7	37	CCDS44827.1	.	.	.	.	.	.	.	.	.	.	C	0.016	-1.527696	0.00959	.	.	ENSG00000175899	ENST00000543436	.	.	.	5.68	-0.311	0.12761	.	.	.	.	.	T	0.51702	0.1690	.	.	.	0.41759	D	0.989704	.	.	.	.	.	.	T	0.38650	-0.9651	4	.	.	.	.	6.7089	0.23266	0.0:0.4781:0.1145:0.4074	.	.	.	.	K	134	.	.	R	-	2	0	A2M	9133825	0.000000	0.05858	0.013000	0.15412	0.013000	0.08279	-0.202000	0.09451	-0.356000	0.08187	-0.140000	0.14226	AGG		0.413	A2M-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317233.2	NM_000014		T	9242558	C	T	9242558	2	4	633	1	0	0	0	0	0	0	0	1	4	680	24	2		2	A2M	12	9242558	Silent	SNP	C	TCGA-KL-8334-01A-11D-2310-10		9242558	124609337	43	39012										
TAS2R30	259293	mdanderson.org	37	chr12	11286276	11286276	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	cagaaaagatatcagggtcaGagtgaggggtacaaagtttg	14	4	2	4			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr12:11286276G>C	ENST00000539585.1	-	1	967	c.568C>G	c.(568-570)Ctg>Gtg	p.L190V	TAS2R14_ENST00000381852.4_Intron|PRR4_ENST00000536668.1_Intron	NM_001097643.1	NP_001091112.1	P59541	T2R30_HUMAN	taste receptor, type 2, member 30	190					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			autonomic_ganglia(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(4)|skin(1)	13						ATCAGGGTCAGAGTGAGGGGT	0.418																																																0													189	200	196					12																	11286276		2203	4300	6503	SO:0001583	missense	259293			AX097746, AF494233	CCDS53750.1	12p13.2	2012-08-22				ENSG00000256188		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19112	protein-coding gene	gene with protein product		613963	"taste receptor, type 2, member 47"	TAS2R47			Standard	NM_001097643		Approved	T2R30	uc009zhs.1	P59541		ENST00000539585.1:c.568C>G	12.37:g.11286276G>C	ENSP00000444736:p.Leu190Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q645X7	Missense_Mutation	SNP	ENST00000539585.1	37	CCDS53750.1	.	.	.	.	.	.	.	.	.	.	-	1.203	-0.632049	0.03584	.	.	ENSG00000256188	ENST00000539585	T	0.00700	5.82	2.6	-4.69	0.03299	.	.	.	.	.	T	0.00724	0.0024	L	0.39245	1.2	0.09310	N	1	B	0.09022	0.002	B	0.20384	0.029	T	0.41893	-0.9483	9	0.27082	T	0.32	.	5.8078	0.18450	0.1714:0.0:0.5788:0.2498	.	190	P59541	T2R30_HUMAN	V	190	ENSP00000444736:L190V	ENSP00000444736:L190V	L	-	1	2	TAS2R30	11177543	0.000000	0.05858	0.000000	0.03702	0.011000	0.07611	-0.309000	0.08145	-0.577000	0.05967	-0.698000	0.03680	CTG		0.418	TAS2R30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400238.1	NM_001097643		C	11286276	G	C	11286276	3	2	633	1	0	0	0	0	1	0	0	0	15585	933	33	4	395	4	TAS2R30	12	11286276	Missense_Mutation	SNP	G	TCGA-KL-8334-01A-11D-2310-10	2043718	11286276	122565619	44	39013										
SLCO1C1	53919	mdanderson.org	37	chr12	20905250	20905250	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	cttcttctagacatatatatCtgggactaactgtgatactg	7	8	3	2	rs6487138	byFrequency	TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr12:20905250C>T	ENST00000266509.2	+	15	2295	c.1927C>T	c.(1927-1929)Ctg>Ttg	p.L643L	SLCO1C1_ENST00000545102.1_Missense_Mutation_p.S559F|SLCO1C1_ENST00000545604.1_Missense_Mutation_p.S677F|SLCO1C1_ENST00000381552.1_Missense_Mutation_p.S677F|SLCO1C1_ENST00000540354.1_Silent_p.L594L	NM_017435.4	NP_059131.1	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family, member 1C1	643					sodium-independent organic anion transport (GO:0043252)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			NS(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(9)|liver(1)|lung(28)|ovary(5)|pancreas(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	60	Esophageal squamous(101;0.149)				Conjugated Estrogens(DB00286)|Dextrothyroxine(DB00509)|Diclofenac(DB00586)|Digoxin(DB00390)|Dinoprostone(DB00917)|Estradiol(DB00783)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Liotrix(DB01583)|Meclofenamic acid(DB00939)|Methotrexate(DB00563)|Ouabain(DB01092)|Phenytoin(DB00252)|Probenecid(DB01032)	ACATATATATCTGGGACTAAC	0.299													C|||	2351	0.469449	0.2012	0.5677	5008	,	,		17354	0.5923		0.495	False		,,,				2504	0.6094															0								C	PHE/SER,,PHE/SER,	1092,3312	370.3+/-319.5	138,816,1248	41	41	41		1676,1780,2030,1927	5.4	1	12	dbSNP_116	41	4649,3947	591.6+/-392.9	1248,2153,897	yes	missense,coding-synonymous,missense,coding-synonymous	SLCO1C1	NM_001145944.1,NM_001145945.1,NM_001145946.1,NM_017435.4	155,,155,	1386,2969,2145	TT,TC,CC		45.9167,24.7956,44.1615	,,,	559/613,594/664,677/731,643/713	20905250	5741,7259	2202	4298	6500	SO:0001819	synonymous_variant	53919			AF260704	CCDS8683.1, CCDS53757.1, CCDS53758.1, CCDS53759.1	12p12.2	2013-05-22	2003-11-25	2003-11-26	ENSG00000139155	ENSG00000139155		"Solute carriers"	13819	protein-coding gene	gene with protein product		613389	"solute carrier family 21 (organic anion transporter), member 14"	SLC21A14			Standard	NM_017435		Approved	OATP-F, OATP1C1, OATP1	uc010sii.2	Q9NYB5	OTTHUMG00000168966	ENST00000266509.2:c.1927C>T	12.37:g.20905250C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z251|B7Z3Q3|B7Z8P1|F5GZD6|Q5JPA4	Missense_Mutation	SNP	ENST00000266509.2	37	CCDS8683.1	1046	0.47893772893772896	110	0.22357723577235772	192	0.5303867403314917	358	0.6258741258741258	386	0.5092348284960422	C	16.43	3.120305	0.56613	0.247956	0.540833	ENSG00000139155	ENST00000545604;ENST00000381552;ENST00000545102	T;T;T	0.39997	1.05;1.05;1.11	5.37	5.37	0.77165	.	2.483440	0.01020	N	0.003979	T	0.00012	0.0000	.	.	.	0.31879	P	0.618765	P;P	0.51537	0.946;0.91	P;P	0.55999	0.789;0.498	T	0.46275	-0.9203	8	0.59425	D	0.04	.	16.1483	0.81586	0.0:1.0:0.0:0.0	rs6487138	559;677	F5GZD6;Q5JPA4	.;.	F	677;677;559	ENSP00000444149:S677F;ENSP00000370964:S677F;ENSP00000444527:S559F	ENSP00000370964:S677F	S	+	2	0	SLCO1C1	20796517	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	2.654000	0.46699	2.797000	0.96272	0.655000	0.94253	TCT		0.299	SLCO1C1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401765.1	NM_017435		T	20905250	C	T	20905250	2	4	633	1	0	0	0	0	0	0	0	1	14738	913	32	2		2	SLCO1C1	12	20905250	Silent	SNP	C	TCGA-KL-8334-01A-11D-2310-10	9618974	20905250	112946645	45	39014										
ANKS1B	56899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	100377920	100377920	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ggcaggggtccggatccaccGcccaggatccctcctttcct	11	17	0	0			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr12:100377920G>A	ENST00000547776.2	-	1	95	c.96C>T	c.(94-96)ggC>ggT	p.G32G	ANKS1B_ENST00000329257.7_Silent_p.G32G|ANKS1B_ENST00000547010.1_5'UTR	NM_152788.4	NP_690001.3	Q7Z6G8	ANS1B_HUMAN	ankyrin repeat and sterile alpha motif domain containing 1B	32						cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|postsynaptic membrane (GO:0045211)	ephrin receptor binding (GO:0046875)			NS(1)|breast(1)|cervix(1)|endometrium(4)|kidney(6)|large_intestine(15)|lung(38)|pancreas(1)|prostate(2)|skin(1)	70		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)		CGGATCCACCGCCCAGGATCC	0.572																																																0													71	80	77					12																	100377920		1968	4131	6099	SO:0001819	synonymous_variant	56899			AF145204	CCDS55864.1, CCDS55865.1, CCDS55866.1, CCDS55867.1, CCDS55868.1, CCDS55869.1, CCDS55870.1, CCDS55871.1, CCDS55872.1	12q23.1	2013-01-10						"Sterile alpha motif (SAM) domain containing", "Ankyrin repeat domain containing"	24600	protein-coding gene	gene with protein product		607815				10490826, 12415113	Standard	NM_020140		Approved	EB-1, AIDA-1, cajalin-2, ANKS2	uc001tge.2	Q7Z6G8		ENST00000547776.2:c.96C>T	12.37:g.100377920G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A5PKY5|A7E259|A8K153|A8MSN4|B4DFP6|B4DH98|F8VPM3|F8VZR9|F8WC27|Q5XLJ0|Q6IVB5|Q6NUS4|Q7Z6G6|Q7Z6G7|Q8TAP3|Q9NRX7|Q9Y5K9	Silent	SNP	ENST00000547776.2	37	CCDS55872.1																																																																																				0.572	ANKS1B-003	KNOWN	basic|appris_candidate_longest|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000408421.3	NM_020140		A	100377920	G	A	100377920	2	1	633	1	0	0	0	0	0	0	0	1	689	1074	38	1		1	ANKS1B	12	100377920	Silent	SNP	G	TCGA-KL-8334-01A-11D-2310-10	79472670	100377920	33473975	46	39015										
FNDC3A	22862	broad.mit.edu	37	chr13	49719943	49719943	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	atccaggcaaggacagtagtActtacctggtcaccaccttc	8	13	1	0			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr13:49719943A>G	ENST00000492622.2	+	8	1154	c.849A>G	c.(847-849)gtA>gtG	p.V283V	FNDC3A_ENST00000398316.3_Silent_p.V227V|FNDC3A_ENST00000541916.1_Silent_p.V283V	NM_001079673.1	NP_001073141.1	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	283	Fibronectin type-III 1. {ECO:0000255|PROSITE-ProRule:PRU00316}.				fertilization (GO:0009566)|Sertoli cell development (GO:0060009)|single organismal cell-cell adhesion (GO:0016337)|spermatid development (GO:0007286)	acrosomal vesicle (GO:0001669)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|vesicle membrane (GO:0012506)	poly(A) RNA binding (GO:0044822)			endometrium(5)|kidney(3)|large_intestine(10)|lung(15)|prostate(5)|skin(2)|urinary_tract(1)	41		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		GGACAGTAGTACTTACCTGGT	0.383																																																0													116	108	111					13																	49719943		2203	4300	6503	SO:0001819	synonymous_variant	22862			AB023187	CCDS9413.2, CCDS41886.1	13q14.12	2013-02-11	2005-01-20	2005-01-22	ENSG00000102531	ENSG00000102531		"Fibronectin type III domain containing"	20296	protein-coding gene	gene with protein product		615794	"fibronectin type III domain containing 3"	FNDC3			Standard	NM_001079673		Approved	bA203I16.5, KIAA0970	uc001vcm.3	Q9Y2H6	OTTHUMG00000016911	ENST00000492622.2:c.849A>G	13.37:g.49719943A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DYG1|Q5HYC9|Q5JVF8|Q5JVF9|Q6EVH3|Q6EVH4|Q6N020|Q6P9D5|Q6ZME4|Q9H1W1	Silent	SNP	ENST00000492622.2	37	CCDS41886.1																																																																																				0.383	FNDC3A-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354845.2	NM_014923		G	49719943	A	G	49719943	2	3	633	1	0	0	0	0	0	0	0	1	5976	378	14	3		3	FNDC3A	13	49719943	Silent	SNP	A	TCGA-KL-8334-01A-11D-2310-10		49719943	65449935	47	39016										
MYH6	4624	broad.mit.edu	37	chr14	23871766	23871766	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ggctcccgtcagcttgtagaCgccagctttctcctctgaag	10	14	3	2	rs200260629	byFrequency	TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr14:23871766C>A	ENST00000356287.3	-	11	1077	c.1048G>T	c.(1048-1050)Gtc>Ttc	p.V350F	MYH6_ENST00000405093.3_Missense_Mutation_p.V350F			P13533	MYH6_HUMAN	myosin, heavy chain 6, cardiac muscle, alpha	350	Myosin motor.				adult heart development (GO:0007512)|ATP catabolic process (GO:0006200)|atrial cardiac muscle tissue morphogenesis (GO:0055009)|BMP signaling pathway (GO:0030509)|canonical Wnt signaling pathway (GO:0060070)|cardiac muscle fiber development (GO:0048739)|in utero embryonic development (GO:0001701)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|myofibril assembly (GO:0030239)|regulation of ATPase activity (GO:0043462)|regulation of blood pressure (GO:0008217)|regulation of heart contraction (GO:0008016)|regulation of heart growth (GO:0060420)|regulation of heart rate (GO:0002027)|regulation of the force of heart contraction (GO:0002026)|sarcomere organization (GO:0045214)|striated muscle contraction (GO:0006941)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)|visceral muscle development (GO:0007522)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|muscle myosin complex (GO:0005859)|myofibril (GO:0030016)|myosin complex (GO:0016459)|myosin filament (GO:0032982)|nucleus (GO:0005634)|sarcomere (GO:0030017)|stress fiber (GO:0001725)|Z disc (GO:0030018)	actin-dependent ATPase activity (GO:0030898)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microfilament motor activity (GO:0000146)|protein kinase binding (GO:0019901)			breast(4)|cervix(2)|endometrium(8)|kidney(2)|large_intestine(16)|liver(1)|lung(60)|ovary(2)|pancreas(3)|prostate(6)|skin(6)|stomach(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	119	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		AGCTTGTAGACGCCAGCTTTC	0.612																																																0													113	106	108					14																	23871766		2203	4300	6503	SO:0001583	missense	4624			D00943	CCDS9600.1	14q11.2-q13	2014-09-17	2008-08-01		ENSG00000197616	ENSG00000197616		"Myosins / Myosin superfamily : Class II"	7576	protein-coding gene	gene with protein product	"cardiomyopathy, hypertrophic 1"	160710	"myosin, heavy polypeptide 6, cardiac muscle, alpha (cardiomyopathy, hypertrophic 1)"			2144212	Standard	NM_002471		Approved		uc001wjv.3	P13533	OTTHUMG00000028753	ENST00000356287.3:c.1048G>T	14.37:g.23871766C>A	ENSP00000348634:p.Val350Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A2RTX1|D9YZU2|Q13943|Q14906|Q14907	Missense_Mutation	SNP	ENST00000356287.3	37	CCDS9600.1	.	.	.	.	.	.	.	.	.	.	.	15.63	2.891589	0.52014	.	.	ENSG00000197616	ENST00000405093;ENST00000356287	D;D	0.89552	-2.53;-2.53	3.82	1.83	0.25207	Myosin head, motor domain (2);	.	.	.	.	D	0.92264	0.7546	M	0.90252	3.1	0.33668	D	0.610552	P;P	0.35124	0.485;0.485	P;P	0.46510	0.519;0.519	D	0.92436	0.5958	9	0.87932	D	0	.	7.8698	0.29558	0.0:0.6811:0.0:0.3189	.	350;350	D9YZU2;P13533	.;MYH6_HUMAN	F	350	ENSP00000386041:V350F;ENSP00000348634:V350F	ENSP00000348634:V350F	V	-	1	0	MYH6	22941606	0.001000	0.12720	0.161000	0.22692	0.966000	0.64601	-0.073000	0.11468	0.182000	0.20032	0.305000	0.20034	GTC		0.612	MYH6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071796.3			A	23871766	C	A	23871766	3	1	633	1	0	0	0	0	1	0	0	0	10045	536	19	4	4883	4	MYH6	14	23871766	Missense_Mutation	SNP	C	TCGA-KL-8334-01A-11D-2310-10		23871766	83477774	48	39017										
C14orf1	11161	broad.mit.edu	37	chr14	76118234	76118234	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	gagtgtgatgtgatagagccTataaggaagcagacagaaat	13	4	0	5			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr14:76118234T>C	ENST00000256319.6	-	4	670		c.e4-2		FLVCR2_ENST00000553587.1_Intron|FLVCR2_ENST00000556241.1_Intron	NM_007176.3	NP_009107.1	Q9UKR5	ERG28_HUMAN	chromosome 14 open reading frame 1						sterol biosynthetic process (GO:0016126)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|transport vesicle (GO:0030133)				central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)	6		all_epithelial(191;0.125)|all_neural(303;0.13)|Myeloproliferative disorder(585;0.163)		BRCA - Breast invasive adenocarcinoma(234;0.00147)		TGATAGAGCCTATAAGGAAGC	0.458																																																0													98	98	98					14																	76118234		2203	4300	6503	SO:0001630	splice_region_variant	11161			AF134159	CCDS9845.1	14q24.3	2012-08-16			ENSG00000133935	ENSG00000133935			1187	protein-coding gene	gene with protein product		604576				10449901, 12958361, 11160377	Standard	NM_007176		Approved	NET51, ERG28	uc001xrt.3	Q9UKR5	OTTHUMG00000171488	ENST00000256319.6:c.225-2A>G	14.37:g.76118234T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9P093|Q9UPI2	Splice_Site	SNP	ENST00000256319.6	37	CCDS9845.1	.	.	.	.	.	.	.	.	.	.	T	16.08	3.022922	0.54683	.	.	ENSG00000133935	ENST00000256319	.	.	.	5.7	5.7	0.88788	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.638	0.76970	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	C14orf1	75187987	1.000000	0.71417	0.932000	0.37286	0.477000	0.33069	7.624000	0.83124	2.172000	0.68678	0.533000	0.62120	.		0.458	C14orf1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413683.1	NM_007176	Intron	C	76118234	T	C	76118234	5	2	633	1	0	0	0	0	0	0	1	0	1735	1536	53	3	207	3	C14orf1	14	76118234	Splice_Site	SNP	T	TCGA-KL-8334-01A-11D-2310-10	52246468	76118234	31231306	49	39018										
LCMT2	9836	ucsc.edu	37	chr15	43622621	43622621	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	cgcggccagggaacgcttgcTgagggcgctgctgtcgttgg	18	11	0	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr15:43622621T>C	ENST00000305641.5	-	1	182	c.67A>G	c.(67-69)Agc>Ggc	p.S23G	LCMT2_ENST00000544735.1_5'UTR|ADAL_ENST00000422466.2_5'Flank|ADAL_ENST00000389651.4_5'Flank|ADAL_ENST00000428046.3_5'Flank|LCMT2_ENST00000567039.1_Missense_Mutation_p.S23G	NM_014793.4	NP_055608.2	O60294	TYW4_HUMAN	leucine carboxyl methyltransferase 2	23					tRNA processing (GO:0008033)		methyltransferase activity (GO:0008168)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(2)|liver(1)|lung(9)|skin(1)|urinary_tract(1)	20		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;8.1e-07)	L-Leucine(DB00149)	GAACGCTTGCTGAGGGCGCTG	0.692																																																0													18	21	20					15																	43622621		2116	4131	6247	SO:0001583	missense	9836			AF265443	CCDS10094.1	15q15.3	2007-01-26			ENSG00000168806	ENSG00000168806			17558	protein-coding gene	gene with protein product	"tRNA-yW synthesizing protein 4"	611246				9628581, 17150819	Standard	NM_014793		Approved	KIAA0547, MGC9534, TYW4, PPM2	uc001zrg.3	O60294	OTTHUMG00000130705	ENST00000305641.5:c.67A>G	15.37:g.43622621T>C	ENSP00000307214:p.Ser23Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q4JFT6|Q96B55|Q9NR10	Missense_Mutation	SNP	ENST00000305641.5	37	CCDS10094.1	.	.	.	.	.	.	.	.	.	.	T	26.0	4.696451	0.88830	.	.	ENSG00000168806	ENST00000305641	T	0.25414	1.8	5.55	5.55	0.83447	.	0.000000	0.85682	D	0.000000	T	0.55878	0.1948	M	0.88842	2.985	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.62699	-0.6799	10	0.59425	D	0.04	.	12.0108	0.53286	0.0:0.0:0.0:1.0	.	23	O60294	LCMT2_HUMAN	G	23	ENSP00000307214:S23G	ENSP00000307214:S23G	S	-	1	0	LCMT2	41409913	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	5.541000	0.67212	2.333000	0.79357	0.533000	0.62120	AGC		0.692	LCMT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253205.1	NM_014793		C	43622621	T	C	43622621	3	2	633	1	0	0	0	0	1	0	0	0	8686	1580	55	3	1997	3	LCMT2	15	43622621	Missense_Mutation	SNP	T	TCGA-KL-8334-01A-11D-2310-10		43622621	58908771	50	39019										
ADAMTS7	11173	broad.mit.edu;hgsc.bcm.edu	37	chr15	79060504	79060504	+	Frame_Shift_Del	DEL	C	C	-													0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	cagggctgctcgctgcacttCctctgttggtcatcaggccg							TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr15:79060504delC	ENST00000388820.4	-	17	2826	c.2616delG	c.(2614-2616)aggfs	p.R872fs	ADAMTS7_ENST00000566303.1_5'UTR	NM_014272.3	NP_055087.2	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 7	872	TSP type-1 2. {ECO:0000255|PROSITE- ProRule:PRU00210}.				cellular response to BMP stimulus (GO:0071773)|cellular response to interleukin-1 (GO:0071347)|cellular response to tumor necrosis factor (GO:0071356)|negative regulation of chondrocyte differentiation (GO:0032331)|proteolysis involved in cellular protein catabolic process (GO:0051603)	cell surface (GO:0009986)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(2)|lung(23)|ovary(1)|prostate(8)|skin(9)	54						CGCTGCACTTCCTCTGTTGGT	0.697																																																0													22	23	23					15																	79060504		2190	4289	6479	SO:0001589	frameshift_variant	11173			AF140675	CCDS32303.1	15q25.1	2012-05-16	2005-08-19		ENSG00000136378	ENSG00000136378		"ADAM metallopeptidases with thrombospondin type 1 motif"	223	protein-coding gene	gene with protein product	"COMPase", "a disintegrin and metalloprotease with thrombospondin motifs-7 preproprotein"	605009	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 7"			10464288	Standard	NM_014272		Approved	ADAM-TS7, DKFZp434H204	uc002bej.4	Q9UKP4	OTTHUMG00000172907	ENST00000388820.4:c.2616delG	15.37:g.79060504delC	ENSP00000373472:p.Arg872fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q14F51|Q6P7J9	Frame_Shift_Del	DEL	ENST00000388820.4	37	CCDS32303.1																																																																																				0.697	ADAMTS7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000421331.1	NM_014272		-	79060504	C	-	79060504	7	5	633	1	0	1	0	1	0	0	0	0	271	854	30	0	2476	0	ADAMTS7	15	79060504	Frame_Shift_Del	DEL	C	TCGA-KL-8334-01A-11D-2310-10	35437883	79060504	23470888	51	39020	323	2								
ADAMTS7	11173	bcgsc.ca	37	chr15	79060505	79060505	+	Frame_Shift_Del	DEL	C	C	-													0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	agggctgctcgctgcacttcCtctgttggtcatcaggccgg							TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr15:79060505delC	ENST00000388820.4	-	17	2825	c.2615delG	c.(2614-2616)aggfs	p.R872fs	ADAMTS7_ENST00000566303.1_5'UTR	NM_014272.3	NP_055087.2	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 7	872	TSP type-1 2. {ECO:0000255|PROSITE- ProRule:PRU00210}.				cellular response to BMP stimulus (GO:0071773)|cellular response to interleukin-1 (GO:0071347)|cellular response to tumor necrosis factor (GO:0071356)|negative regulation of chondrocyte differentiation (GO:0032331)|proteolysis involved in cellular protein catabolic process (GO:0051603)	cell surface (GO:0009986)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(2)|lung(23)|ovary(1)|prostate(8)|skin(9)	54						GCTGCACTTCCTCTGTTGGTC	0.697																																																0													22	23	23					15																	79060505		2191	4289	6480	SO:0001589	frameshift_variant	11173			AF140675	CCDS32303.1	15q25.1	2012-05-16	2005-08-19		ENSG00000136378	ENSG00000136378		"ADAM metallopeptidases with thrombospondin type 1 motif"	223	protein-coding gene	gene with protein product	"COMPase", "a disintegrin and metalloprotease with thrombospondin motifs-7 preproprotein"	605009	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 7"			10464288	Standard	NM_014272		Approved	ADAM-TS7, DKFZp434H204	uc002bej.4	Q9UKP4	OTTHUMG00000172907	ENST00000388820.4:c.2615delG	15.37:g.79060505delC	ENSP00000373472:p.Arg872fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q14F51|Q6P7J9	Frame_Shift_Del	DEL	ENST00000388820.4	37	CCDS32303.1																																																																																				0.697	ADAMTS7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000421331.1	NM_014272		-	79060505	C	-	79060505	7	5	633	1	0	1	0	1	0	0	0	0	271	681	24	0	2477	0	ADAMTS7	15	79060505	Frame_Shift_Del	DEL	C	TCGA-KL-8334-01A-11D-2310-10	1	79060505	23470887	52	39021	323	2								
DECR2	26063	ucsc.edu	37	chr16	461365	461365	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ttctgctgccctccaggtggCcctcaggccagcctgagcac	11	17	2	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr16:461365C>T	ENST00000219481.5	+	8	804	c.666C>T	c.(664-666)ggC>ggT	p.G222G	DECR2_ENST00000461947.1_Intron|DECR2_ENST00000424398.2_Silent_p.G210G	NM_020664.3	NP_065715.1	Q9NUI1	DECR2_HUMAN	2,4-dienoyl CoA reductase 2, peroxisomal	222					unsaturated fatty acid biosynthetic process (GO:0006636)	peroxisomal membrane (GO:0005778)	2,4-dienoyl-CoA reductase (NADPH) activity (GO:0008670)|receptor binding (GO:0005102)|trans-2-enoyl-CoA reductase (NADPH) activity (GO:0019166)			central_nervous_system(1)|endometrium(3)|large_intestine(1)|lung(4)	9		Hepatocellular(16;0.00015)				CTCCAGGTGGCCCTCAGGCCA	0.672																																																0													31	34	33					16																	461365		2202	4298	6500	SO:0001819	synonymous_variant	26063			AJ293009	CCDS10409.1	16p13.3	2011-09-14			ENSG00000242612	ENSG00000242612	1.3.1.34	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 1"	2754	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 17C, member 1"	615839				11514237, 19027726	Standard	NM_020664		Approved	PDCR, SDR17C1	uc002chb.3	Q9NUI1	OTTHUMG00000047846	ENST00000219481.5:c.666C>T	16.37:g.461365C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZRS7|Q96ET0	Silent	SNP	ENST00000219481.5	37	CCDS10409.1																																																																																				0.672	DECR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109069.4	NM_020664		T	461365	C	T	461365	2	4	633	1	0	0	0	0	0	0	0	1	4385	726	26	2		2	DECR2	16	461365	Silent	SNP	C	TCGA-KL-8334-01A-11D-2310-10		461365	89893388	53	39022										
TBC1D24	57465	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr16	2547069	2547069	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ccagctcctgcagatggccaAtgagaaagccctgaagcaga	11	12	0	4			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr16:2547069A>G	ENST00000293970.5	+	2	1053	c.920A>G	c.(919-921)aAt>aGt	p.N307S	RP11-20I23.1_ENST00000564543.1_Missense_Mutation_p.N307S|TBC1D24_ENST00000434757.2_Missense_Mutation_p.N307S|TBC1D24_ENST00000567020.1_Missense_Mutation_p.N307S	NM_001199107.1	NP_001186036.1	Q9ULP9	TBC24_HUMAN	TBC1 domain family, member 24	307					neuron projection development (GO:0031175)	cytoplasm (GO:0005737)|neuromuscular junction (GO:0031594)|terminal bouton (GO:0043195)	Rab GTPase activator activity (GO:0005097)			endometrium(2)|kidney(4)|large_intestine(3)|lung(4)	13						CAGATGGCCAATGAGAAAGCC	0.617																																																0													45	51	49					16																	2547069		2102	4232	6334	SO:0001583	missense	57465			AB032997	CCDS42107.1, CCDS55980.1	16p13.3	2014-05-07				ENSG00000162065			29203	protein-coding gene	gene with protein product	"TBC/LysM-associated domain containing 6"	613577	"deafness, autosomal recessive 86"	DFNB86		10574461, 24387994, 24729539	Standard	NM_001199107		Approved	KIAA1171, TLDC6, DFNA65	uc002cql.3	Q9ULP9		ENST00000293970.5:c.920A>G	16.37:g.2547069A>G	ENSP00000293970:p.Asn307Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A0JNW3|B9A6M6|Q2KJ08	Missense_Mutation	SNP	ENST00000293970.5	37	CCDS55980.1	.	.	.	.	.	.	.	.	.	.	A	19.54	3.847006	0.71603	.	.	ENSG00000162065	ENST00000293970;ENST00000434757	T;T	0.24151	1.87;1.87	5.09	5.09	0.68999	.	0.000000	0.85682	D	0.000000	T	0.50292	0.1607	M	0.73598	2.24	0.58432	D	0.999997	D;D;D	0.89917	0.995;1.0;1.0	P;D;D	0.91635	0.904;0.997;0.999	T	0.51244	-0.8730	10	0.46703	T	0.11	-37.885	13.7275	0.62767	1.0:0.0:0.0:0.0	.	307;307;307	B9A6M6;Q9ULP9;Q9ULP9-2	.;TBC24_HUMAN;.	S	307	ENSP00000293970:N307S;ENSP00000390106:N307S	ENSP00000293970:N307S	N	+	2	0	TBC1D24	2487070	1.000000	0.71417	0.995000	0.50966	0.988000	0.76386	7.399000	0.79935	1.919000	0.55581	0.533000	0.62120	AAT		0.617	TBC1D24-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000435637.1	NM_020705		G	2547069	A	G	2547069	3	3	633	1	0	0	0	0	1	0	0	0	15626	101	4	3	922	3	TBC1D24	16	2547069	Missense_Mutation	SNP	A	TCGA-KL-8334-01A-11D-2310-10	2085704	2547069	87807684	54	39023										
SRRM2	23524	hgsc.bcm.edu	37	chr16	2819139	2819139	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tcctcctcctcctcctcctcCtcttcttcctcctcctcttc	0	24	3	0			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr16:2819139C>T	ENST00000301740.8	+	12	8424	c.7875C>T	c.(7873-7875)tcC>tcT	p.S2625S	AC092117.2_ENST00000581119.1_RNA|SRRM2_ENST00000574593.1_3'UTR	NM_016333.3	NP_057417.3	Q9UQ35	SRRM2_HUMAN	serine/arginine repetitive matrix 2	2625	Ser-rich.				mRNA splicing, via spliceosome (GO:0000398)	Cajal body (GO:0015030)|catalytic step 2 spliceosome (GO:0071013)|nuclear speck (GO:0016607)|nucleus (GO:0005634)	C2H2 zinc finger domain binding (GO:0070742)|poly(A) RNA binding (GO:0044822)|protein N-terminus binding (GO:0047485)			breast(3)|central_nervous_system(1)|cervix(3)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(20)|lung(34)|ovary(6)|pancreas(3)|prostate(2)|skin(6)|upper_aerodigestive_tract(3)|urinary_tract(7)	105						cctcctcctcctcttcttcct	0.592																																																0													141	121	128					16																	2819139		2198	4300	6498	SO:0001819	synonymous_variant	23524			AF201422	CCDS32373.1	16p13.3	2012-07-02			ENSG00000167978	ENSG00000167978			16639	protein-coding gene	gene with protein product		606032				10668804, 11004489	Standard	NM_016333		Approved	SRm300, SRL300, KIAA0324, Cwc21	uc002crk.3	Q9UQ35	OTTHUMG00000177358	ENST00000301740.8:c.7875C>T	16.37:g.2819139C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB9|D3DU97|O15038|O94803|Q6NSL3|Q6PIM3|Q6PK40|Q8IW17|Q96GY7|Q9P0G1|Q9UHA8|Q9UQ36|Q9UQ37|Q9UQ38|Q9UQ40	Silent	SNP	ENST00000301740.8	37	CCDS32373.1																																																																																				0.592	SRRM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000436411.1			T	2819139	C	T	2819139	2	4	633	1	0	0	0	0	0	0	0	1	15181	668	24	2		2	SRRM2	16	2819139	Silent	SNP	C	TCGA-KL-8334-01A-11D-2310-10	272070	2819139	87535614	55	39024										
KIAA0430	9665	broad.mit.edu	37	chr16	15718883	15718883	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tttcacatacttctgactggTtttgtaaacgggttctgcca	8	9	3	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr16:15718883T>C	ENST00000396368.3	-	9	2307	c.2101A>G	c.(2101-2103)Acc>Gcc	p.T701A	KIAA0430_ENST00000548025.1_Missense_Mutation_p.T698A|KIAA0430_ENST00000602337.1_Missense_Mutation_p.T698A|KIAA0430_ENST00000344181.3_Intron|KIAA0430_ENST00000551742.1_Missense_Mutation_p.T700A|KIAA0430_ENST00000540441.2_Missense_Mutation_p.T558A	NM_001184998.1|NM_001184999.1|NM_014647.3	NP_001171927.1|NP_001171928.1|NP_055462.2	Q9Y4F3	MARF1_HUMAN	KIAA0430	701					double-strand break repair (GO:0006302)|female meiotic division (GO:0007143)|negative regulation of phosphatase activity (GO:0010923)|oogenesis (GO:0048477)|regulation of gene expression (GO:0010468)	membrane (GO:0016020)|peroxisome (GO:0005777)	nucleotide binding (GO:0000166)|RNA binding (GO:0003723)			breast(4)|endometrium(8)|kidney(4)|large_intestine(2)|lung(13)|ovary(3)|prostate(5)|skin(1)	40						TTCTGACTGGTTTTGTAAACG	0.478																																																0													129	125	126					16																	15718883		1933	4143	6076	SO:0001583	missense	9665			AB007890	CCDS10562.2, CCDS53990.1, CCDS55991.1	16p13.11	2013-01-11			ENSG00000166783	ENSG00000166783		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	29562	protein-coding gene	gene with protein product	"limkain b1", "protein phosphatase 1, regulatory subunit 34", "meiosis arrest female 1"	614593				9455477, 10493829, 15932519, 22442484, 23090997	Standard	NM_014647		Approved	LKAP, PPP1R34, Marf1	uc010uzw.2	Q9Y4F3	OTTHUMG00000129884	ENST00000396368.3:c.2101A>G	16.37:g.15718883T>C	ENSP00000379654:p.Thr701Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8MSK2|B2RNX2|B4DYY9|B7ZMG1|B7ZMG2|F8VV09|Q6P1R6|Q8WYR2|Q9Y4J9	Missense_Mutation	SNP	ENST00000396368.3	37	CCDS10562.2	.	.	.	.	.	.	.	.	.	.	T	13.58	2.279882	0.40294	.	.	ENSG00000166783	ENST00000396368;ENST00000540441;ENST00000321370;ENST00000548025;ENST00000551742	.	.	.	6.08	1.35	0.21983	.	0.834384	0.11312	N	0.576993	T	0.31638	0.0803	L	0.36672	1.1	0.23138	N	0.998239	B;B;B;B	0.15141	0.005;0.012;0.012;0.003	B;B;B;B	0.12156	0.007;0.007;0.007;0.003	T	0.23547	-1.0185	9	0.45353	T	0.12	.	8.3104	0.32068	0.0:0.3151:0.0:0.6849	.	699;698;697;700	Q9Y4F3-5;F8VV09;Q9Y4F3-4;Q9Y4F3	.;.;.;LKAP_HUMAN	A	701;558;700;698;700	.	ENSP00000315718:T700A	T	-	1	0	KIAA0430	15626384	0.833000	0.29383	0.033000	0.17914	0.728000	0.41692	0.719000	0.25881	-0.028000	0.13850	0.482000	0.46254	ACC		0.478	KIAA0430-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252131.2	NM_014647		C	15718883	T	C	15718883	3	2	633	1	0	0	0	0	1	0	0	0	8184	1725	60	3	3206	3	KIAA0430	16	15718883	Missense_Mutation	SNP	T	TCGA-KL-8334-01A-11D-2310-10	12899744	15718883	74635870	56	39025										
LYRM1	57149	bcgsc.ca	37	chr16	20926885	20926885	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ggtgggtctgaagatgacaaCggcaacacgacaagaagtcc	13	9	1	4			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr16:20926885C>T	ENST00000396052.2	+	4	408	c.8C>T	c.(7-9)aCg>aTg	p.T3M	LYRM1_ENST00000562740.1_Intron|LYRM1_ENST00000219168.4_Missense_Mutation_p.T3M|LYRM1_ENST00000412082.2_Intron|LYRM1_ENST00000569023.1_Missense_Mutation_p.T3M|LYRM1_ENST00000567954.1_Missense_Mutation_p.T3M|LYRM1_ENST00000439021.1_Missense_Mutation_p.T3M|LYRM1_ENST00000568663.1_Missense_Mutation_p.T3M			O43325	LYRM1_HUMAN	LYR motif containing 1	3						mitochondrion (GO:0005739)|nucleus (GO:0005634)				large_intestine(1)|prostate(1)	2						AAGATGACAACGGCAACACGA	0.448																																																0													101	98	99					16																	20926885		2201	4300	6501	SO:0001583	missense	57149				CCDS10593.1	16p12.2	2008-02-05			ENSG00000102897	ENSG00000102897		"LYR motif containing"	25074	protein-coding gene	gene with protein product		614709				10493829	Standard	NM_020424		Approved	A211C6.1	uc010bwl.3	O43325	OTTHUMG00000131554	ENST00000396052.2:c.8C>T	16.37:g.20926885C>T	ENSP00000379367:p.Thr3Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4M5	Missense_Mutation	SNP	ENST00000396052.2	37	CCDS10593.1	.	.	.	.	.	.	.	.	.	.	C	11.48	1.650359	0.29336	.	.	ENSG00000102897	ENST00000439021;ENST00000219168;ENST00000412082;ENST00000396052	.	.	.	5.7	3.77	0.43336	.	0.438148	0.28606	N	0.014745	T	0.25827	0.0629	N	0.16478	0.41	0.23845	N	0.996689	B	0.06786	0.001	B	0.04013	0.001	T	0.15435	-1.0437	9	0.40728	T	0.16	-2.7685	9.6094	0.39654	0.0:0.7879:0.0:0.2121	.	3	O43325	LYRM1_HUMAN	M	3	.	ENSP00000219168:T3M	T	+	2	0	LYRM1	20834386	0.501000	0.26099	0.982000	0.44146	0.768000	0.43524	1.778000	0.38614	0.782000	0.33613	-0.136000	0.14681	ACG		0.448	LYRM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254416.1	NM_020424		T	20926885	C	T	20926885	3	4	633	1	0	0	0	0	1	0	0	0	9126	536	19	1	10	1	LYRM1	16	20926885	Missense_Mutation	SNP	C	TCGA-KL-8334-01A-11D-2310-10	5208002	20926885	69427868	57	39026										
IRX3	79191	ucsc.edu	37	chr16	54318841	54318841	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	cagagacggcgaggccacggCcactggtggtggcgctggag	19	11	0	1	rs567541390		TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr16:54318841C>A	ENST00000329734.3	-	2	1664	c.952G>T	c.(952-954)Gcc>Tcc	p.A318S		NM_024336.2	NP_077312.2	P78415	IRX3_HUMAN	iroquois homeobox 3	318	Pro-rich.				mesoderm development (GO:0007498)|metanephros development (GO:0001656)|negative regulation of neuron differentiation (GO:0045665)|positive regulation of neuron differentiation (GO:0045666)|regulation of transcription, DNA-templated (GO:0006355)|specification of loop of Henle identity (GO:0072086)|transcription, DNA-templated (GO:0006351)	axon (GO:0030424)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)			endometrium(2)|kidney(1)|large_intestine(5)|lung(3)|ovary(1)|soft_tissue(1)|urinary_tract(1)	14						GAGGCCACGGCCACTGGTGGT	0.667																																					GBM(143;1830 1866 4487 4646 37383)											0													7	9	8					16																	54318841		2121	4185	6306	SO:0001583	missense	79191			U90308	CCDS10750.1	16q12.2	2011-06-20	2007-07-13		ENSG00000177508	ENSG00000177508		"Homeoboxes / TALE class"	14360	protein-coding gene	gene with protein product		612985					Standard	NM_024336		Approved	IRX-1	uc002eht.1	P78415	OTTHUMG00000133200	ENST00000329734.3:c.952G>T	16.37:g.54318841C>A	ENSP00000331608:p.Ala318Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z4A4|Q7Z4A5|Q8IVC6	Missense_Mutation	SNP	ENST00000329734.3	37	CCDS10750.1	.	.	.	.	.	.	.	.	.	.	C	0.815	-0.750701	0.03041	.	.	ENSG00000177508	ENST00000329734;ENST00000541845	T	0.52754	0.65	4.17	2.21	0.28008	.	0.404066	0.25587	N	0.029650	T	0.21307	0.0513	N	0.08118	0	0.23076	N	0.998335	B	0.23377	0.084	B	0.20184	0.028	T	0.23833	-1.0177	10	0.08599	T	0.76	-4.344	8.1936	0.31383	0.0:0.7998:0.0:0.2002	.	318	P78415	IRX3_HUMAN	S	318;17	ENSP00000331608:A318S	ENSP00000331608:A318S	A	-	1	0	IRX3	52876342	0.002000	0.14202	0.493000	0.27502	0.226000	0.24999	0.216000	0.17585	0.431000	0.26258	0.449000	0.29647	GCC		0.667	IRX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256910.2			A	54318841	C	A	54318841	3	1	633	1	0	0	0	0	1	0	0	0	7852	739	26	4	565	4	IRX3	16	54318841	Missense_Mutation	SNP	C	TCGA-KL-8334-01A-11D-2310-10	33391956	54318841	36035912	58	39027										
NFAT5	10725	bcgsc.ca	37	chr16	69724942	69724942	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tatgattaagagtgaagatgTtactccaatggaagtaacag	10	4	0	4			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr16:69724942T>C	ENST00000354436.2	+	11	2138	c.1820T>C	c.(1819-1821)gTt>gCt	p.V607A	NFAT5_ENST00000393742.2_Missense_Mutation_p.V531A|NFAT5_ENST00000349945.1_Missense_Mutation_p.V531A|NFAT5_ENST00000566899.1_Missense_Mutation_p.V531A|NFAT5_ENST00000432919.1_Missense_Mutation_p.V625A|NFAT5_ENST00000567239.1_Missense_Mutation_p.V624A	NM_006599.3	NP_006590.1	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5, tonicity-responsive	607					cytokine production (GO:0001816)|excretion (GO:0007588)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of calcineurin-NFAT signaling cascade (GO:0070884)|signal transduction (GO:0007165)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(11)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)	37						AGTGAAGATGTTACTCCAATG	0.348																																																0													99	97	98					16																	69724942		2198	4297	6495	SO:0001583	missense	10725			AF134870	CCDS10881.1, CCDS10882.1, CCDS45519.1	16q22.1	2009-11-24			ENSG00000102908	ENSG00000102908		"Nuclear factor of activated T-cells"	7774	protein-coding gene	gene with protein product		604708				10377394	Standard	NM_173214		Approved	TONEBP, KIAA0827, NFATL1, OREBP, NFATZ, NF-AT5	uc002exl.2	O94916	OTTHUMG00000137572	ENST00000354436.2:c.1820T>C	16.37:g.69724942T>C	ENSP00000346420:p.Val607Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRB4|A6H8V5|E9PHR7|O95693|Q7LA65|Q969Q8|Q96QH3|Q9UN18	Missense_Mutation	SNP	ENST00000354436.2	37	CCDS10881.1	.	.	.	.	.	.	.	.	.	.	T	15.09	2.730245	0.48939	.	.	ENSG00000102908	ENST00000432919;ENST00000426654;ENST00000349945;ENST00000354436;ENST00000393742	T;T;T;T	0.46063	0.89;0.88;0.89;0.88	5.36	5.36	0.76844	.	0.410753	0.27134	N	0.020778	T	0.31167	0.0788	L	0.51422	1.61	0.35732	D	0.818025	B;B;B	0.15473	0.013;0.003;0.0	B;B;B	0.12837	0.008;0.005;0.001	T	0.29088	-1.0023	10	0.09084	T	0.74	-0.7107	6.7615	0.23542	0.0:0.0766:0.1537:0.7697	.	624;607;625	A2RRB4;O94916;E9PHR7	.;NFAT5_HUMAN;.	A	625;624;531;607;531	ENSP00000396538:V625A;ENSP00000338806:V531A;ENSP00000346420:V607A;ENSP00000377343:V531A	ENSP00000338806:V531A	V	+	2	0	NFAT5	68282443	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	3.410000	0.52664	2.042000	0.60477	0.533000	0.62120	GTT		0.348	NFAT5-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000268952.2	NM_138714		C	69724942	T	C	69724942	3	2	633	1	0	0	0	0	1	0	0	0	10367	1725	60	3	1920	3	NFAT5	16	69724942	Missense_Mutation	SNP	T	TCGA-KL-8334-01A-11D-2310-10	15406101	69724942	20629811	59	39028										
CLEC18A	348174	mdanderson.org	37	chr16	69988260	69988260	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tggagtgacagcctggcccaGctggctcaagccagggcagc	15	13	1	1	rs684036	byFrequency	TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr16:69988260G>A	ENST00000288040.6	+	3	427	c.240G>A	c.(238-240)caG>caA	p.Q80Q	CLEC18A_ENST00000568461.1_Silent_p.Q80Q|CLEC18A_ENST00000449317.2_Silent_p.Q80Q|CLEC18A_ENST00000393701.2_Silent_p.Q80Q	NM_001136214.2	NP_001129686.1	A5D8T8	CL18A_HUMAN	C-type lectin domain family 18, member A	80	SCP.					extracellular region (GO:0005576)	carbohydrate binding (GO:0030246)			NS(1)|endometrium(2)|lung(1)|skin(1)	5						GCCTGGCCCAGCTGGCTCAAG	0.647													.|||	759	0.151558	0.0174	0.2709	5008	,	,		17235	0.0704		0.328	False		,,,				2504	0.1503															0								A	,	3,4371		0,3,2184	48	36	40		240,240	-3.4	0	16	dbSNP_83	40	221,7801		0,221,3790	no	coding-synonymous,coding-synonymous	CLEC18A	NM_001136214.1,NM_182619.2	,	0,224,5974	AA,AG,GG		2.7549,0.0686,1.807	,	80/447,80/447	69988260	224,12172	2187	4011	6198	SO:0001819	synonymous_variant	348174			AF428259	CCDS10886.1	16q22.1	2010-04-27	2009-03-10	2009-03-10		ENSG00000157322		"C-type lectin domain containing"	30388	protein-coding gene	gene with protein product	"mannose receptor-like"					12975309	Standard	NM_001136214		Approved	MRCL	uc010vlo.3	A5D8T8		ENST00000288040.6:c.240G>A	16.37:g.69988260G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1G9|Q6DCB3|Q7Z5K9|Q96HH2	Silent	SNP	ENST00000288040.6	37	CCDS10886.1																																																																																				0.647	CLEC18A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000268955.2	NM_182619		A	69988260	G	A	69988260	2	1	633	1	0	0	0	0	0	0	0	1	3504	962	34	2		2	CLEC18A	16	69988260	Silent	SNP	G	TCGA-KL-8334-01A-11D-2310-10	263318	69988260	20366493	60	39029										
HOXB4	3214	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr17	46654334	46654334	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ccaagacctgctggcgcgtgTaggcggtccgagagcgcttg	16	12	0	2			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr17:46654334T>A	ENST00000332503.5	-	2	2297	c.506A>T	c.(505-507)tAc>tTc	p.Y169F	HOXB3_ENST00000472863.1_Intron|HOXB3_ENST00000498678.1_Intron|HOXB3_ENST00000490677.1_5'Flank|HOXB3_ENST00000476342.1_Intron|HOXB3_ENST00000311626.4_5'Flank|HOXB3_ENST00000460160.1_Intron|HOXB3_ENST00000489475.1_Intron|HOXB-AS3_ENST00000465846.2_RNA|HOXB3_ENST00000485909.2_5'Flank|HOXB3_ENST00000465120.3_Intron|MIR10A_ENST00000385043.1_RNA|HOXB3_ENST00000552000.2_Intron	NM_024015.4	NP_076920.1	P17483	HXB4_HUMAN	homeobox B4	169					anterior/posterior pattern specification (GO:0009952)|bone marrow development (GO:0048539)|cell proliferation (GO:0008283)|definitive hemopoiesis (GO:0060216)|embryonic skeletal system morphogenesis (GO:0048704)|hematopoietic stem cell differentiation (GO:0060218)|morphogenesis of an epithelial sheet (GO:0002011)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of stem cell differentiation (GO:2000738)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|somatic stem cell division (GO:0048103)|spleen development (GO:0048536)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|kidney(2)|large_intestine(1)|lung(2)|ovary(1)|urinary_tract(2)	9						CTGGCGCGTGTAGGCGGTCCG	0.607																																																0													60	65	63					17																	46654334		2203	4300	6503	SO:0001583	missense	3214				CCDS11529.1	17q21.32	2011-06-20	2005-12-22		ENSG00000182742	ENSG00000182742		"Homeoboxes / ANTP class : HOXL subclass"	5115	protein-coding gene	gene with protein product		142965	"homeo box B4"	HOX2, HOX2F		1973146, 1358459	Standard	NM_024015		Approved		uc002inp.3	P17483	OTTHUMG00000159920	ENST00000332503.5:c.506A>T	17.37:g.46654334T>A	ENSP00000328928:p.Tyr169Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NTA0	Missense_Mutation	SNP	ENST00000332503.5	37	CCDS11529.1	.	.	.	.	.	.	.	.	.	.	T	26.9	4.777571	0.90195	.	.	ENSG00000182742	ENST00000332503	D	0.94828	-3.53	5.27	4.2	0.49525	Homeodomain-related (1);Homeobox (3);Homeodomain-like (1);	0.000000	0.85682	D	0.000000	D	0.93194	0.7832	N	0.11892	0.195	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.93155	0.6553	10	0.87932	D	0	.	10.5006	0.44804	0.0:0.0772:0.0:0.9228	.	169	P17483	HXB4_HUMAN	F	169	ENSP00000328928:Y169F	ENSP00000328928:Y169F	Y	-	2	0	HOXB4	44009333	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	6.250000	0.72435	0.852000	0.35287	0.459000	0.35465	TAC		0.607	HOXB4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358259.2			A	46654334	T	A	46654334	3	1	633	1	0	0	0	0	1	0	0	0	7310	1638	57	5	253	5	HOXB4	17	46654334	Missense_Mutation	SNP	T	TCGA-KL-8334-01A-11D-2310-10		46654334	34540876	61	39030										
SGCA	6442	hgsc.bcm.edu	37	chr17	48245013	48245013	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ccagacctgccccggtggctCcgctacacccagcgcagccc	10	21	0	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr17:48245013C>T	ENST00000262018.3	+	3	264	c.228C>T	c.(226-228)ctC>ctT	p.L76L	SGCA_ENST00000513942.1_Intron|SGCA_ENST00000344627.6_Silent_p.L76L|SGCA_ENST00000451235.2_Intron|RP11-893F2.14_ENST00000572855.1_RNA|SGCA_ENST00000543315.1_Silent_p.L76L	NM_000023.2	NP_000014.1	Q16586	SGCA_HUMAN	sarcoglycan, alpha (50kDa dystrophin-associated glycoprotein)	76					muscle contraction (GO:0006936)|muscle organ development (GO:0007517)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|dystrophin-associated glycoprotein complex (GO:0016010)|integral component of membrane (GO:0016021)|membrane raft (GO:0045121)|sarcoglycan complex (GO:0016012)|sarcolemma (GO:0042383)	calcium ion binding (GO:0005509)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|lung(7)|ovary(2)|skin(1)	14						CCCGGTGGCTCCGCTACACCC	0.667																																																0													47	47	47					17																	48245013		2203	4300	6503	SO:0001819	synonymous_variant	6442			L34355	CCDS32679.1, CCDS45729.1	17q21	2014-09-17	2002-08-29		ENSG00000108823	ENSG00000108823			10805	protein-coding gene	gene with protein product	"50kD DAG", "Sarcoglycan, alpha (50kD dystrophin-associated glycoprotein; adhalin)", "adhalin (limb girdle muscular dystrophy 2D)"	600119	"sarcoglycan, alpha (50kD dystrophin-associated glycoprotein)"	ADL		7937874	Standard	NM_000023		Approved	SCARMD1, LGMD2D, adhalin, DMDA2, A2	uc002iqi.3	Q16586	OTTHUMG00000162024	ENST00000262018.3:c.228C>T	17.37:g.48245013C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NEB8|A8K3K7|Q13710|Q13712	Silent	SNP	ENST00000262018.3	37	CCDS32679.1																																																																																				0.667	SGCA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366841.1	NM_000023		T	48245013	C	T	48245013	2	4	633	1	0	0	0	0	0	0	0	1	14212	842	30	2		2	SGCA	17	48245013	Silent	SNP	C	TCGA-KL-8334-01A-11D-2310-10	1590679	48245013	32950197	62	39031										
KIF19	124602	ucsc.edu	37	chr17	72339295	72339295	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tgaggtctccatgtcctaccTggaggtgagtcccccagcct	11	14	1	2			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr17:72339295T>C	ENST00000389916.4	+	5	590	c.452T>C	c.(451-453)cTg>cCg	p.L151P		NM_153209.3	NP_694941.2	Q2TAC6	KIF19_HUMAN	kinesin family member 19	151	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				ATP catabolic process (GO:0006200)|axonemal microtubule depolymerization (GO:0060404)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|plus-end specific microtubule depolymerization (GO:0070462)	cilium (GO:0005929)|cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|plus-end-directed microtubule motor activity (GO:0008574)			autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(6)|large_intestine(3)|lung(16)|ovary(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	41						ATGTCCTACCTGGAGGTGAGT	0.617																																																0													70	55	60					17																	72339295		2203	4300	6503	SO:0001583	missense	124602			AK094619	CCDS32718.2	17q25	2007-02-13			ENSG00000196169	ENSG00000196169		"Kinesins"	26735	protein-coding gene	gene with protein product						11416179	Standard	NM_153209		Approved	FLJ37300, KIF19A	uc031rei.1	Q2TAC6	OTTHUMG00000150694	ENST00000389916.4:c.452T>C	17.37:g.72339295T>C	ENSP00000374566:p.Leu151Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLG2|B7ZKR1|Q52M87|Q8N1X8|Q8TAB6	Missense_Mutation	SNP	ENST00000389916.4	37	CCDS32718.2	.	.	.	.	.	.	.	.	.	.	T	20.8	4.044207	0.75732	.	.	ENSG00000196169	ENST00000551294;ENST00000389916	T;T	0.80393	-0.94;-1.37	5.48	5.48	0.80851	Kinesin, motor domain (4);	.	.	.	.	D	0.93504	0.7927	H	0.98155	4.16	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.85130	0.997;0.986;0.99;0.99	D	0.95672	0.8724	9	0.87932	D	0	.	14.6067	0.68483	0.0:0.0:0.0:1.0	.	151;151;151;151	Q2TAC6;F8VW50;Q2TAC6-3;Q2TAC6-2	KIF19_HUMAN;.;.;.	P	151	ENSP00000449134:L151P;ENSP00000374566:L151P	ENSP00000374566:L151P	L	+	2	0	KIF19	69850890	1.000000	0.71417	0.999000	0.59377	0.626000	0.37791	7.518000	0.81795	2.103000	0.63969	0.454000	0.30748	CTG		0.617	KIF19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319644.2	NM_153209		C	72339295	T	C	72339295	3	2	633	1	0	0	0	0	1	0	0	0	8289	1580	55	3	470	3	KIF19	17	72339295	Missense_Mutation	SNP	T	TCGA-KL-8334-01A-11D-2310-10	24094282	72339295	8855915	63	39032										
KIAA1012	22878	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr18	29511428	29511428	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ggctgggtgacaatgttgctTactgctatcttcaaattttt	9	7	2	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr18:29511428T>C	ENST00000283351.4	-	2	551	c.216A>G	c.(214-216)gtA>gtG	p.V72V	TRAPPC8_ENST00000582513.1_Silent_p.V72V|TRAPPC8_ENST00000582539.1_Silent_p.V18V|TRAPPC8_ENST00000584876.1_5'UTR	NM_014939.3	NP_055754	Q9Y2L5	TPPC8_HUMAN	trafficking protein particle complex 8	72					vesicle-mediated transport (GO:0016192)	Golgi apparatus (GO:0005794)				breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(6)|large_intestine(7)|liver(2)|lung(13)|ovary(6)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	47						CAATGTTGCTTACTGCTATCT	0.368																																																0													147	148	148					18																	29511428		2203	4300	6503	SO:0001819	synonymous_variant	22878			AB023229	CCDS11901.1	18q12.1	2011-10-10	2010-06-29	2010-06-29	ENSG00000153339	ENSG00000153339		"Trafficking protein particle complex"	29169	protein-coding gene	gene with protein product	"general sporulation gene 1 homolog (S. cerevisiae)"	614136	"KIAA1012"	KIAA1012		10231032, 11230166	Standard	NM_014939		Approved	HsT2706, TRS85, GSG1	uc002kxc.4	Q9Y2L5	OTTHUMG00000132267	ENST00000283351.4:c.216A>G	18.37:g.29511428T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A0JP15|B3KME5|Q9H0L2	Silent	SNP	ENST00000283351.4	37	CCDS11901.1																																																																																				0.368	TRAPPC8-001	KNOWN	NAGNAG_splice_site|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255355.1	NM_014939		C	29511428	T	C	29511428	2	2	633	1	0	0	0	0	0	0	0	1	8211	1741	61	3		3	KIAA1012	18	29511428	Silent	SNP	T	TCGA-KL-8334-01A-11D-2310-10		29511428	48565820	64	39033										
DOT1L	84444	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	2207667	2207667	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tcctactacctgcacactatCgaccgcaccatagtgagtat	6	14	0	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr19:2207667C>T	ENST00000398665.3	+	11	987	c.951C>T	c.(949-951)atC>atT	p.I317I		NM_032482.2	NP_115871.1	Q8TEK3	DOT1L_HUMAN	DOT1-like histone H3K79 methyltransferase	317	DOT1. {ECO:0000255|PROSITE- ProRule:PRU00902}.				histone lysine methylation (GO:0034968)|regulation of JAK-STAT cascade (GO:0046425)|regulation of transcription regulatory region DNA binding (GO:2000677)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|transcription factor binding (GO:0008134)			NS(1)|breast(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(3)|lung(14)|ovary(2)|pancreas(2)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(9)	42		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)		TGCACACTATCGACCGCACCA	0.632																																																0													72	85	80					19																	2207667		2187	4267	6454	SO:0001819	synonymous_variant	84444			AF509504	CCDS42460.1	19p13.3	2013-05-21	2013-05-21		ENSG00000104885	ENSG00000104885	2.1.1.43	"Chromatin-modifying enzymes / K-methyltransferases"	24948	protein-coding gene	gene with protein product	"histone methyltransferase DOT1L"	607375	"DOT1-like, histone H3 methyltransferase (S. cerevisiae)"			11347906, 12123582	Standard	NM_032482		Approved	KIAA1814, DOT1, KMT4	uc002lvb.4	Q8TEK3	OTTHUMG00000150431	ENST00000398665.3:c.951C>T	19.37:g.2207667C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O60379|Q96JL1	Silent	SNP	ENST00000398665.3	37	CCDS42460.1	.	.	.	.	.	.	.	.	.	.	C	11.73	1.724445	0.30593	.	.	ENSG00000104885	ENST00000440640	.	.	.	4.84	-2.37	0.06643	.	.	.	.	.	T	0.50548	0.1622	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.45891	-0.9230	4	.	.	.	-25.0987	6.4921	0.22121	0.1462:0.1694:0.0:0.6845	.	.	.	.	L	104	.	.	S	+	2	0	DOT1L	2158667	0.977000	0.34250	0.993000	0.49108	0.972000	0.66771	0.145000	0.16157	-0.138000	0.11434	-0.793000	0.03317	TCG		0.632	DOT1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318066.1	NM_032482		T	2207667	C	T	2207667	2	4	633	1	0	0	0	0	0	0	0	1	4711	874	31	1		1	DOT1L	19	2207667	Silent	SNP	C	TCGA-KL-8334-01A-11D-2310-10		2207667	56921316	65	39034										
MUC16	94025	mdanderson.org	37	chr19	8999479	8999479	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	gctcagctcccagtatagctGctctctgtccagtccagggc	10	15	2	0			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr19:8999479G>T	ENST00000397910.4	-	56	40899	c.40696C>A	c.(40696-40698)Cag>Aag	p.Q13566K	MUC16_ENST00000380951.5_Missense_Mutation_p.Q207K	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13568	SEA 10. {ECO:0000255|PROSITE- ProRule:PRU00188}.			Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						CAGTATAGCTGCTCTCTGTCC	0.587																																																0													172	145	153					19																	8999479		1997	4180	6177	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.40696C>A	19.37:g.8999479G>T	ENSP00000381008:p.Gln13566Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	0.047|0.047	-1.262604|-1.262604	0.01445|0.01445	.|.	.|.	ENSG00000181143|ENSG00000181143	ENST00000397910;ENST00000380951|ENST00000542240	T;T|.	0.35421|.	1.31;1.31|.	3.48|3.48	1.01|1.01	0.19927|0.19927	SEA (2);|.	.|.	.|.	.|.	.|.	T|T	0.43875|0.43875	0.1267|0.1267	L|L	0.48642|0.48642	1.525|1.525	.|.	.|.	.|.	B;P|.	0.39576|.	0.025;0.679|.	B;P|.	0.47044|.	0.025;0.535|.	T|T	0.52601|0.52601	-0.8554|-0.8554	8|4	0.11794|.	T|.	0.64|.	-0.0012|-0.0012	7.5959|7.5959	0.28048|0.28048	0.0:0.0:0.5377:0.4623|0.0:0.0:0.5377:0.4623	.|.	21211;13566|.	Q8WXI7;B5ME49|.	MUC16_HUMAN;.|.	K|R	13566;207|405	ENSP00000381008:Q13566K;ENSP00000370338:Q207K|.	ENSP00000370338:Q207K|.	Q|S	-|-	1|3	0|2	MUC16|MUC16	8860479|8860479	0.000000|0.000000	0.05858|0.05858	0.644000|0.644000	0.29465|0.29465	0.069000|0.069000	0.16628|0.16628	-0.955000|-0.955000	0.03869|0.03869	0.786000|0.786000	0.33708|0.33708	0.555000|0.555000	0.69702|0.69702	CAG|AGC		0.587	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		T	8999479	G	T	8999479	3	4	633	1	0	0	0	0	1	0	0	0	9980	1328	46	4	2943	4	MUC16	19	8999479	Missense_Mutation	SNP	G	TCGA-KL-8334-01A-11D-2310-10	6791812	8999479	50129504	66	39035										
ICAM5	7087	mdanderson.org	37	chr19	10407169	10407169	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tcaggcgaggccgtgtgtctGaacggagcgggcggcggcgc	20	11	2	1	rs710845	byFrequency	TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr19:10407169G>C	ENST00000221980.4	+	11	2715	c.2652G>C	c.(2650-2652)ctG>ctC	p.L884L		NM_003259.3	NP_003250.3	Q9UMF0	ICAM5_HUMAN	intercellular adhesion molecule 5, telencephalin	884					phagocytosis (GO:0006909)|single organismal cell-cell adhesion (GO:0016337)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)				breast(3)|endometrium(2)|kidney(1)|large_intestine(4)|lung(8)|prostate(2)|upper_aerodigestive_tract(1)	21			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			CCGTGTGTCTGAACGGAgcgg	0.771													C|||	2557	0.510583	0.5681	0.6455	5008	,	,		6247	0.3313		0.5895	False		,,,				2504	0.4407															0								C		1682,962		566,550,206	4	3	3		2652	0.5	1	19	dbSNP_86	3	2905,1749		979,947,401	no	coding-synonymous	ICAM5	NM_003259.3		1545,1497,607	CC,CG,GG		37.5806,36.3843,37.1472		884/925	10407169	4587,2711	1322	2327	3649	SO:0001819	synonymous_variant	7087			U72671	CCDS12233.1	19p13.2	2013-01-14				ENSG00000105376		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5348	protein-coding gene	gene with protein product	"telencephalin"	601852		TLCN		8995416, 9828136	Standard	NM_003259		Approved	TLN	uc002mnu.4	Q9UMF0		ENST00000221980.4:c.2652G>C	19.37:g.10407169G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9Y6F3	Silent	SNP	ENST00000221980.4	37	CCDS12233.1																																																																																				0.771	ICAM5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451217.1	NM_003259		C	10407169	G	C	10407169	2	2	633	1	0	0	0	0	0	0	0	1	7490	1277	45	4		4	ICAM5	19	10407169	Silent	SNP	G	TCGA-KL-8334-01A-11D-2310-10	1407690	10407169	48721814	67	39036										
LRP3	4037	broad.mit.edu	37	chr19	33697008	33697008	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	aacaaccagaaaagctgtccCgacggcgccgacgagaagaa	11	12	0	3	rs201999025		TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr19:33697008C>T	ENST00000253193.7	+	5	1534	c.1332C>T	c.(1330-1332)ccC>ccT	p.P444P	CTD-2540B15.13_ENST00000609744.1_RNA	NM_002333.3	NP_002324.2	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein 3	444	LDL-receptor class A 3. {ECO:0000255|PROSITE-ProRule:PRU00124}.				receptor-mediated endocytosis (GO:0006898)	coated pit (GO:0005905)|integral component of membrane (GO:0016021)				breast(1)|kidney(1)|large_intestine(1)|lung(9)|ovary(1)|pancreas(2)	15	Esophageal squamous(110;0.137)					AAAGCTGTCCCGACGGCGCCG	0.662													C|||	1	0.000199681	0.0	0.0014	5008	,	,		15326	0.0		0.0	False		,,,				2504	0.0															0													24	24	24					19																	33697008		2200	4297	6497	SO:0001819	synonymous_variant	4037			AB009462	CCDS12430.1	19q13.11	2013-05-30			ENSG00000130881	ENSG00000130881		"Low density lipoprotein receptors"	6695	protein-coding gene	gene with protein product		603159				9693042, 7959795	Standard	NM_002333		Approved	LRP-3, hLRp105	uc010edh.3	O75074	OTTHUMG00000180343	ENST00000253193.7:c.1332C>T	19.37:g.33697008C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KQD6|B4DKF2	Silent	SNP	ENST00000253193.7	37	CCDS12430.1																																																																																				0.662	LRP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450842.4			T	33697008	C	T	33697008	2	4	633	1	0	0	0	0	0	0	0	1	8965	639	23	1		1	LRP3	19	33697008	Silent	SNP	C	TCGA-KL-8334-01A-11D-2310-10	23289839	33697008	25431975	68	39037										
GPCPD1	56261	broad.mit.edu	37	chr20	5548180	5548180	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tcttttactggaatttcaaaTaattcaactggatcagcatc	5	8	4	0			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chr20:5548180T>A	ENST00000379019.4	-	13	1388	c.1176A>T	c.(1174-1176)ttA>ttT	p.L392F	GPCPD1_ENST00000481038.1_5'UTR	NM_019593.3	NP_062539.1	Q9NPB8	GPCP1_HUMAN	glycerophosphocholine phosphodiesterase GDE1 homolog (S. cerevisiae)	392	GP-PDE.				glycerophospholipid biosynthetic process (GO:0046474)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)	glycerophosphocholine phosphodiesterase activity (GO:0047389)|starch binding (GO:2001070)			breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(4)|ovary(2)|skin(1)	16						GAATTTCAAATAATTCAACTG	0.249																																																0													68	77	74					20																	5548180		2201	4298	6499	SO:0001583	missense	56261				CCDS13090.1	20p12.3	2011-01-25			ENSG00000125772	ENSG00000125772			26957	protein-coding gene	gene with protein product		614124				10718198, 20576599	Standard	NM_019593		Approved	KIAA1434, GDE5, GDPD6	uc002wme.4	Q9NPB8	OTTHUMG00000031806	ENST00000379019.4:c.1176A>T	20.37:g.5548180T>A	ENSP00000368305:p.Leu392Phe	Somatic		WXS	Illumina HiSeq	Phase_I	D3DW06|Q9BQL8|Q9NUX0	Missense_Mutation	SNP	ENST00000379019.4	37	CCDS13090.1	.	.	.	.	.	.	.	.	.	.	T	18.95	3.731877	0.69189	.	.	ENSG00000125772	ENST00000379019	T	0.11930	2.73	5.05	-0.32	0.12721	PLC-like phosphodiesterase, TIM beta/alpha-barrel domain (2);	0.000000	0.64402	D	0.000001	T	0.23171	0.0560	L	0.57536	1.79	0.52501	D	0.99995	D	0.89917	1.0	D	0.91635	0.999	T	0.27872	-1.0061	10	0.09590	T	0.72	-14.4099	8.5129	0.33229	0.0:0.5133:0.0:0.4867	.	392	Q9NPB8	GPCP1_HUMAN	F	392	ENSP00000368305:L392F	ENSP00000368305:L392F	L	-	3	2	GPCPD1	5496180	1.000000	0.71417	0.999000	0.59377	0.998000	0.95712	1.120000	0.31271	0.059000	0.16252	0.455000	0.32223	TTA		0.249	GPCPD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077869.1	NM_019593		A	5548180	T	A	5548180	3	1	633	1	0	0	0	0	1	0	0	0	6610	1403	49	5	874	5	GPCPD1	20	5548180	Missense_Mutation	SNP	T	TCGA-KL-8334-01A-11D-2310-10		5548180	57477340	69	39038										
USP9X	8239	broad.mit.edu;hgsc.bcm.edu	37	chrX	41088984	41088985	+	Frame_Shift_Ins	INS	-	-	A													0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	atttcttggagagatcacatINSagtgctaggatgacacttgc							TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chrX:41088984_41088985insA	ENST00000324545.8	+	43	8016_8017	c.7383_7384insA	c.(7384-7386)agtfs	p.S2462fs	USP9X_ENST00000378308.2_Frame_Shift_Ins_p.S2462fs	NM_001039590.2|NM_001039591.2	NP_001034679.2|NP_001034680.2	Q93008	USP9X_HUMAN	ubiquitin specific peptidase 9, X-linked	2462					axon extension (GO:0048675)|BMP signaling pathway (GO:0030509)|cerebellar cortex structural organization (GO:0021698)|chromosome segregation (GO:0007059)|female gamete generation (GO:0007292)|gene expression (GO:0010467)|hippocampus development (GO:0021766)|in utero embryonic development (GO:0001701)|mitotic nuclear division (GO:0007067)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron migration (GO:0001764)|post-embryonic development (GO:0009791)|protein deubiquitination (GO:0016579)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|ubiquitin-dependent protein catabolic process (GO:0006511)	apical part of cell (GO:0045177)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|growth cone (GO:0030426)|membrane (GO:0016020)	co-SMAD binding (GO:0070410)|cysteine-type endopeptidase activity (GO:0004197)|cysteine-type peptidase activity (GO:0008234)|ubiquitin thiolesterase activity (GO:0004221)			NS(3)|breast(6)|central_nervous_system(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(6)|large_intestine(16)|lung(29)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	87						AGAGATCACATAGTGCTAGGAT	0.431																																					Ovarian(172;1807 2695 35459 49286)											0																																										SO:0001589	frameshift_variant	8239			X98296	CCDS43930.1, CCDS55403.1	Xp11.4	2010-08-03	2006-02-14		ENSG00000124486	ENSG00000124486		"Ubiquitin-specific peptidases"	12632	protein-coding gene	gene with protein product		300072	"ubiquitin specific protease 9, X chromosome (fat facets-like Drosophila)", "ubiquitin specific protease 9, X-linked (fat facets-like, Drosophila)", "ubiquitin specific peptidase 9, X-linked (fat facets-like, Drosophila)"			8922996	Standard	NM_001039590		Approved	DFFRX, FAF	uc004dfb.3	Q93008	OTTHUMG00000021367	ENST00000324545.8:c.7384dupA	X.37:g.41088985_41088985dupA	ENSP00000316357:p.Ser2462fs	Somatic		WXS	Illumina HiSeq	Phase_I	O75550|Q8WWT3|Q8WX12	Frame_Shift_Ins	INS	ENST00000324545.8	37	CCDS43930.1																																																																																				0.431	USP9X-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000056250.4	NM_004652		A	41088985	-	A	41088984	7	5	633	1	0	1	1	0	0	0	0	0	17102	1403	49	0	7549	0	USP9X	23	41088984	Frame_Shift_Ins	INS	-	TCGA-KL-8334-01A-11D-2310-10		41088984	114181576	70	39039	324	2								
USP9X	8239	bcgsc.ca	37	chrX	41088985	41088986	+	Frame_Shift_Ins	INS	-	-	A													0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	tttcttggagagatcacataINSgtgctaggatgacacttgca							TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chrX:41088985_41088986insA	ENST00000324545.8	+	43	8017_8018	c.7384_7385insA	c.(7384-7386)agtfs	p.S2462fs	USP9X_ENST00000378308.2_Frame_Shift_Ins_p.S2462fs	NM_001039590.2|NM_001039591.2	NP_001034679.2|NP_001034680.2	Q93008	USP9X_HUMAN	ubiquitin specific peptidase 9, X-linked	2462					axon extension (GO:0048675)|BMP signaling pathway (GO:0030509)|cerebellar cortex structural organization (GO:0021698)|chromosome segregation (GO:0007059)|female gamete generation (GO:0007292)|gene expression (GO:0010467)|hippocampus development (GO:0021766)|in utero embryonic development (GO:0001701)|mitotic nuclear division (GO:0007067)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron migration (GO:0001764)|post-embryonic development (GO:0009791)|protein deubiquitination (GO:0016579)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|ubiquitin-dependent protein catabolic process (GO:0006511)	apical part of cell (GO:0045177)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|growth cone (GO:0030426)|membrane (GO:0016020)	co-SMAD binding (GO:0070410)|cysteine-type endopeptidase activity (GO:0004197)|cysteine-type peptidase activity (GO:0008234)|ubiquitin thiolesterase activity (GO:0004221)			NS(3)|breast(6)|central_nervous_system(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(6)|large_intestine(16)|lung(29)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	87						GAGATCACATAGTGCTAGGATG	0.426																																					Ovarian(172;1807 2695 35459 49286)											0																																										SO:0001589	frameshift_variant	8239			X98296	CCDS43930.1, CCDS55403.1	Xp11.4	2010-08-03	2006-02-14		ENSG00000124486	ENSG00000124486		"Ubiquitin-specific peptidases"	12632	protein-coding gene	gene with protein product		300072	"ubiquitin specific protease 9, X chromosome (fat facets-like Drosophila)", "ubiquitin specific protease 9, X-linked (fat facets-like, Drosophila)", "ubiquitin specific peptidase 9, X-linked (fat facets-like, Drosophila)"			8922996	Standard	NM_001039590		Approved	DFFRX, FAF	uc004dfb.3	Q93008	OTTHUMG00000021367	ENST00000324545.8:c.7384dupA	X.37:g.41088985_41088985dupA	ENSP00000316357:p.Ser2462fs	Somatic		WXS	Illumina HiSeq	Phase_I	O75550|Q8WWT3|Q8WX12	Frame_Shift_Ins	INS	ENST00000324545.8	37	CCDS43930.1																																																																																				0.426	USP9X-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000056250.4	NM_004652		A	41088986	-	A	41088985	7	5	633	1	0	1	1	0	0	0	0	0	17102	420	15	0	7550	0	USP9X	23	41088985	Frame_Shift_Ins	INS	-	TCGA-KL-8334-01A-11D-2310-10	1	41088985	114181575	71	39040	324	2								
SHROOM4	57477	broad.mit.edu	37	chrX	50376364	50376364	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	gggcagatttccccagaacaAtaaatgcaaggatcatggac	10	9	1	2			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chrX:50376364A>G	ENST00000289292.7	-	4	2992	c.2709T>C	c.(2707-2709)taT>taC	p.Y903Y	SHROOM4_ENST00000376020.2_Silent_p.Y903Y|SHROOM4_ENST00000460112.3_Silent_p.Y787Y			Q9ULL8	SHRM4_HUMAN	shroom family member 4	903	Cys-rich.				actin cytoskeleton organization (GO:0030036)|actin filament organization (GO:0007015)|brain development (GO:0007420)|cognition (GO:0050890)	apical plasma membrane (GO:0016324)|basal plasma membrane (GO:0009925)|cortical actin cytoskeleton (GO:0030864)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|myosin II complex (GO:0016460)|stress fiber (GO:0001725)	actin filament binding (GO:0051015)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(5)|large_intestine(6)|liver(1)|lung(20)|ovary(1)|prostate(4)|skin(3)|upper_aerodigestive_tract(1)	52	Ovarian(276;0.236)					CCCCAGAACAATAAATGCAAG	0.463																																																0													74	61	66					X																	50376364		2203	4300	6503	SO:0001819	synonymous_variant	57477			AB033028	CCDS35277.1	Xp11.22	2008-02-05			ENSG00000158352	ENSG00000158352			29215	protein-coding gene	gene with protein product		300579				10574462, 16615870	Standard	NR_027121		Approved	KIAA1202	uc004dpe.2	Q9ULL8	OTTHUMG00000021521	ENST00000289292.7:c.2709T>C	X.37:g.50376364A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A7E2X9|D6RFW0|Q96LA0	Silent	SNP	ENST00000289292.7	37	CCDS35277.1																																																																																				0.463	SHROOM4-001	KNOWN	NMD_exception|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056564.4	NM_020717		G	50376364	A	G	50376364	2	3	633	1	0	0	0	0	0	0	0	1	14309	108	4	3		3	SHROOM4	23	50376364	Silent	SNP	A	TCGA-KL-8334-01A-11D-2310-10	9287379	50376364	104894196	72	39041										
PASD1	139135	broad.mit.edu	37	chrX	150791421	150791421	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	ttccttagagtttcctgtggTctttagtggcttgttttcca	9	8	1	1			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chrX:150791421T>C	ENST00000370357.4	+	7	676	c.431T>C	c.(430-432)gTc>gCc	p.V144A		NM_173493.2	NP_775764.2	Q8IV76	PASD1_HUMAN	PAS domain containing 1	144						nucleus (GO:0005634)	signal transducer activity (GO:0004871)			breast(2)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(3)|liver(1)|lung(25)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	48	Acute lymphoblastic leukemia(192;6.56e-05)					TTTCCTGTGGTCTTTAGTGGC	0.448																																																0													258	214	229					X																	150791421		2203	4300	6503	SO:0001583	missense	139135			AY270020	CCDS35431.1	Xq28	2009-08-06			ENSG00000166049	ENSG00000166049			20686	protein-coding gene	gene with protein product	"cancer/testis antigen 63"					15122589, 15162151	Standard	NM_173493		Approved	CT63	uc004fev.4	Q8IV76	OTTHUMG00000024169	ENST00000370357.4:c.431T>C	X.37:g.150791421T>C	ENSP00000359382:p.Val144Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MNE0|Q69HD7|Q8N7X9	Missense_Mutation	SNP	ENST00000370357.4	37	CCDS35431.1	.	.	.	.	.	.	.	.	.	.	T	9.529	1.110219	0.20714	.	.	ENSG00000166049	ENST00000370357	T	0.68903	-0.36	3.78	1.21	0.21127	.	.	.	.	.	T	0.38241	0.1033	N	0.14661	0.345	0.09310	N	1	B	0.32382	0.368	B	0.29176	0.099	T	0.30966	-0.9960	9	0.02654	T	1	.	5.8489	0.18681	0.4373:0.0:0.0:0.5627	.	144	Q8IV76	PASD1_HUMAN	A	144	ENSP00000359382:V144A	ENSP00000359382:V144A	V	+	2	0	PASD1	150542077	0.006000	0.16342	0.000000	0.03702	0.004000	0.04260	1.042000	0.30303	0.130000	0.18549	0.417000	0.27973	GTC		0.448	PASD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060879.2	NM_173493		C	150791421	T	C	150791421	3	2	633	1	0	0	0	0	1	0	0	0	11478	1667	58	3	453	3	PASD1	23	150791421	Missense_Mutation	SNP	T	TCGA-KL-8334-01A-11D-2310-10	100415057	150791421	4479139	73	39042										
ATP2B3	492	broad.mit.edu	37	chrX	152823628	152823628	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0694444444444444	5	1	1.35710337202875	4.88557213930348	0.916044776119403	1	1	0	catcatcctgaccgatgacaActtcaccagcatcgtcaagg	7	14	3	2			TCGA-KL-8334-01A-11D-2310-10	TCGA-KL-8334-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	94434272-4cbd-4b4d-bd98-44f18526dd69	dd7bfe59-20ee-4f8c-8a95-8eb1d0846091	g.chrX:152823628A>G	ENST00000349466.2	+	16	2818	c.2492A>G	c.(2491-2493)aAc>aGc	p.N831S	ATP2B3_ENST00000393842.1_Missense_Mutation_p.N817S|ATP2B3_ENST00000370186.1_Missense_Mutation_p.N817S|ATP2B3_ENST00000263519.4_Missense_Mutation_p.N831S|ATP2B3_ENST00000370181.2_Missense_Mutation_p.N817S|ATP2B3_ENST00000460549.1_3'UTR|ATP2B3_ENST00000359149.3_Missense_Mutation_p.N831S			Q16720	AT2B3_HUMAN	ATPase, Ca++ transporting, plasma membrane 3	831					blood coagulation (GO:0007596)|cell death (GO:0008219)|ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)|transport (GO:0006810)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	ATP binding (GO:0005524)|calcium-transporting ATPase activity (GO:0005388)|metal ion binding (GO:0046872)			NS(2)|breast(5)|endometrium(7)|large_intestine(8)|lung(23)|ovary(1)|pancreas(1)|skin(3)	50	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ACCGATGACAACTTCACCAGC	0.572																																																0													239	148	179					X																	152823628		2203	4300	6503	SO:0001583	missense	492			U60414	CCDS14722.1, CCDS35440.1	Xq28	2014-07-18			ENSG00000067842	ENSG00000067842	3.6.3.8	"ATPases / P-type"	816	protein-coding gene	gene with protein product	"plasma membrane calcium-transporting ATPase 3", "cilia and flagella associated protein 39"	300014	"spinocerebellar ataxia, X-linked 1", "cerebellar ataxia 2 (X-linked)"	SCAX1, CLA2		8187550, 22912398	Standard	NM_021949		Approved	PMCA3, CFAP39	uc004fht.1	Q16720	OTTHUMG00000024202	ENST00000349466.2:c.2492A>G	X.37:g.152823628A>G	ENSP00000343886:p.Asn831Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B7WNR8|B7WNY5|Q12995|Q16858	Missense_Mutation	SNP	ENST00000349466.2	37	CCDS35440.1	.	.	.	.	.	.	.	.	.	.	A	23.0	4.368767	0.82463	.	.	ENSG00000067842	ENST00000370186;ENST00000349466;ENST00000393842;ENST00000359149;ENST00000263519;ENST00000370181	D;D;D;D;D;D	0.97665	-4.48;-4.48;-4.48;-4.48;-4.48;-4.48	4.84	4.84	0.62591	HAD-like domain (1);ATPase, P-type,  transmembrane domain (1);	0.000000	0.85682	D	0.000000	D	0.98115	0.9378	M	0.77103	2.36	0.54753	D	0.999985	D;D	0.89917	1.0;1.0	D;D	0.91635	0.997;0.999	D	0.98863	1.0763	10	0.87932	D	0	-40.3883	12.5684	0.56322	1.0:0.0:0.0:0.0	.	831;831	Q16720;Q16720-2	AT2B3_HUMAN;.	S	817;831;817;831;831;817	ENSP00000359205:N817S;ENSP00000343886:N831S;ENSP00000377425:N817S;ENSP00000352062:N831S;ENSP00000263519:N831S;ENSP00000359200:N817S	ENSP00000263519:N831S	N	+	2	0	ATP2B3	152476822	1.000000	0.71417	1.000000	0.80357	0.912000	0.54170	9.335000	0.96500	1.603000	0.50134	0.378000	0.23410	AAC		0.572	ATP2B3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060957.1	NM_021949		G	152823628	A	G	152823628	3	3	633	1	0	0	0	0	1	0	0	0	1141	43	2	3	2550	3	ATP2B3	23	152823628	Missense_Mutation	SNP	A	TCGA-KL-8334-01A-11D-2310-10	2032207	152823628	2446932	74	39043										
ACAP3	116983	ucsc.edu;bcgsc.ca	37	chr1	1229272	1229272	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	cccgctgctcttggtccaggGcgtgctggtccgcgccccgc	14	18	1	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr1:1229272G>A	ENST00000354700.5	-	23	2493	c.2291C>T	c.(2290-2292)gCc>gTc	p.A764V	ACAP3_ENST00000353662.3_Missense_Mutation_p.A689V|ACAP3_ENST00000379037.2_5'Flank	NM_030649.2	NP_085152.2	Q96P50	ACAP3_HUMAN	ArfGAP with coiled-coil, ankyrin repeat and PH domains 3	764					regulation of ARF GTPase activity (GO:0032312)		ARF GTPase activator activity (GO:0008060)|zinc ion binding (GO:0008270)			endometrium(3)|lung(9)|skin(1)|upper_aerodigestive_tract(1)	14						TTGGTCCAGGGCGTGCTGGTC	0.741																																																0													19	19	19					1																	1229272		2095	4151	6246	SO:0001583	missense	116983			AF411981	CCDS19.2	1p36	2013-01-10	2008-09-22	2008-09-22	ENSG00000131584	ENSG00000131584		"ADP-ribosylation factor GTPase activating proteins", "Pleckstrin homology (PH) domain containing", "Ankyrin repeat domain containing"	16754	protein-coding gene	gene with protein product			"centaurin, beta 5"	CENTB5			Standard	NM_030649		Approved	KIAA1716	uc001aeb.2	Q96P50	OTTHUMG00000002235	ENST00000354700.5:c.2291C>T	1.37:g.1229272G>A	ENSP00000346733:p.Ala764Val	Somatic		WXS	Illumina HiSeq	Phase_I	B1AMF5|Q5TA42|Q5TA43|Q86UT3|Q9BSR9|Q9C0E7	Missense_Mutation	SNP	ENST00000354700.5	37	CCDS19.2	.	.	.	.	.	.	.	.	.	.	G	12.86	2.064997	0.36470	.	.	ENSG00000131584	ENST00000354700;ENST00000353662	T;T	0.35048	1.33;1.33	4.28	4.28	0.50868	Ankyrin repeat-containing domain (4);	0.202694	0.41712	D	0.000832	T	0.27697	0.0681	L	0.47078	1.49	0.38407	D	0.945824	P;B	0.47484	0.896;0.138	B;B	0.37601	0.254;0.026	T	0.17440	-1.0369	10	0.09590	T	0.72	.	15.7782	0.78240	0.0:0.0:1.0:0.0	.	764;689	Q96P50;Q96P50-1	ACAP3_HUMAN;.	V	764;689	ENSP00000346733:A764V;ENSP00000321139:A689V	ENSP00000321139:A689V	A	-	2	0	ACAP3	1219135	1.000000	0.71417	0.991000	0.47740	0.919000	0.55068	4.242000	0.58714	2.370000	0.80446	0.549000	0.68633	GCC		0.741	ACAP3-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006366.2	NM_030649		A	1229272	G	A	1229272	3	1	634	1	0	0	0	0	1	0	0	0	120	1203	42	2	221	2	ACAP3	1	1229272	Missense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10		1229272	248021349	1	39044										
CC2D1B	200014	ucsc.edu	37	chr1	52825206	52825206	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ctccaggacagcaccgaatcTctgcagaagttggaaaagca	10	11	1	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr1:52825206T>C	ENST00000371586.2	-	9	1081	c.943A>G	c.(943-945)Aga>Gga	p.R315G	CC2D1B_ENST00000438831.1_5'UTR|CC2D1B_ENST00000460261.1_5'UTR|CC2D1B_ENST00000284376.3_Splice_Site_p.R315G	NM_032449.2	NP_115825.1	Q5T0F9	C2D1B_HUMAN	coiled-coil and C2 domain containing 1B	315						nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)			breast(1)|large_intestine(6)|lung(13)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	27						GCACCGAATCTCTGCAGAAGT	0.582																																																0													34	38	36					1																	52825206		2203	4300	6503	SO:0001630	splice_region_variant	200014			AB058739	CCDS30714.1	1p32.3	2008-02-05			ENSG00000154222	ENSG00000154222			29386	protein-coding gene	gene with protein product						11347906	Standard	NM_032449		Approved	KIAA1836	uc001ctq.2	Q5T0F9	OTTHUMG00000008102	ENST00000371586.2:c.943-1A>G	1.37:g.52825206T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q49AE8|Q5T0F8|Q5T0G0|Q6ZNQ1|Q96AP3|Q96I04|Q96JJ1	Missense_Mutation	SNP	ENST00000371586.2	37	CCDS30714.1	.	.	.	.	.	.	.	.	.	.	T	10.23	1.292788	0.23564	.	.	ENSG00000154222	ENST00000371586;ENST00000284376;ENST00000371573	T;T	0.27557	1.66;1.66	4.84	3.7	0.42460	Domain of unknown function DM14 (1);	0.563629	0.19178	N	0.120751	T	0.14227	0.0344	N	0.05124	-0.11	0.80722	D	1	B;B	0.09022	0.0;0.002	B;B	0.04013	0.001;0.001	T	0.07233	-1.0783	10	0.15066	T	0.55	-4.0055	10.9531	0.47341	0.0:0.0:0.1573:0.8427	.	101;315	Q5T0G1;Q5T0F9	.;C2D1B_HUMAN	G	315;315;229	ENSP00000360642:R315G;ENSP00000284376:R315G	ENSP00000284376:R315G	R	-	1	2	CC2D1B	52597794	1.000000	0.71417	0.998000	0.56505	0.747000	0.42532	2.944000	0.49034	0.857000	0.35407	0.529000	0.55759	AGA		0.582	CC2D1B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000022189.1	NM_032449	Missense_Mutation	C	52825206	T	C	52825206	5	2	634	1	0	0	0	0	0	0	1	0	2729	1565	54	3	1697	3	CC2D1B	1	52825206	Splice_Site	SNP	T	TCGA-KL-8335-01A-11D-2310-10	51595934	52825206	196425415	2	39045										
PCSK9	255738	ucsc.edu	37	chr1	55505643	55505643	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	acgaggagctggtgctagccTtgcgttccgaggaggacggc	17	10	0	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr1:55505643T>C	ENST00000302118.5	+	1	423	c.133T>C	c.(133-135)Ttg>Ctg	p.L45L	PCSK9_ENST00000543384.1_5'Flank|PCSK9_ENST00000452118.2_Silent_p.L45L	NM_174936.3	NP_777596.2	Q8NBP7	PCSK9_HUMAN	proprotein convertase subtilisin/kexin type 9	45					apoptotic process (GO:0006915)|cellular response to insulin stimulus (GO:0032869)|cellular response to starvation (GO:0009267)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|kidney development (GO:0001822)|lipoprotein metabolic process (GO:0042157)|liver development (GO:0001889)|low-density lipoprotein particle receptor catabolic process (GO:0032802)|lysosomal transport (GO:0007041)|negative regulation of low-density lipoprotein particle clearance (GO:0010989)|negative regulation of receptor recycling (GO:0001920)|neurogenesis (GO:0022008)|neuron differentiation (GO:0030182)|phospholipid metabolic process (GO:0006644)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of receptor internalization (GO:0002092)|protein autoprocessing (GO:0016540)|proteolysis (GO:0006508)|regulation of low-density lipoprotein particle receptor catabolic process (GO:0032803)|regulation of neuron apoptotic process (GO:0043523)|regulation of receptor activity (GO:0010469)|triglyceride metabolic process (GO:0006641)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|early endosome (GO:0005769)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle (GO:0030134)|extracellular space (GO:0005615)|extrinsic component of external side of plasma membrane (GO:0031232)|Golgi apparatus (GO:0005794)|late endosome (GO:0005770)|lysosome (GO:0005764)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|rough endoplasmic reticulum (GO:0005791)	apolipoprotein binding (GO:0034185)|apolipoprotein receptor binding (GO:0034190)|low-density lipoprotein particle binding (GO:0030169)|low-density lipoprotein particle receptor binding (GO:0050750)|poly(A) RNA binding (GO:0044822)|protein self-association (GO:0043621)|serine-type endopeptidase activity (GO:0004252)|sodium channel inhibitor activity (GO:0019871)|very-low-density lipoprotein particle binding (GO:0034189)|very-low-density lipoprotein particle receptor binding (GO:0070326)			NS(2)|breast(2)|central_nervous_system(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(1)|liver(2)|lung(4)|ovary(3)|prostate(3)|skin(1)|urinary_tract(1)	32						GGTGCTAGCCTTGCGTTCCGA	0.711																																					Pancreas(137;1454 1827 5886 22361 42375)											0													36	29	31					1																	55505643		2185	4268	6453	SO:0001819	synonymous_variant	255738			AX207686	CCDS603.1	1p34.1-p32	2014-09-17	2003-05-13		ENSG00000169174	ENSG00000169174			20001	protein-coding gene	gene with protein product		607786	"hypercholesterolemia, autosomal dominant 3"	HCHOLA3		12552133, 12730697	Standard	NM_174936		Approved	NARC-1, FH3	uc001cyf.2	Q8NBP7	OTTHUMG00000008136	ENST00000302118.5:c.133T>C	1.37:g.55505643T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8T640|C0JYY9|Q5PSM5|Q5SZQ2	Silent	SNP	ENST00000302118.5	37	CCDS603.1																																																																																				0.711	PCSK9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000022280.1	NM_174936		C	55505643	T	C	55505643	2	2	634	1	0	0	0	0	0	0	0	1	11613	1606	56	3		3	PCSK9	1	55505643	Silent	SNP	T	TCGA-KL-8335-01A-11D-2310-10	2680437	55505643	193744978	3	39046										
AK5	26289	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	77759511	77759511	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ctcaaactttccatatcggcGgtatgaccggctccctccaa	7	15	1	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr1:77759511G>A	ENST00000354567.2	+	3	544	c.281G>A	c.(280-282)cGg>cAg	p.R94Q	AK5_ENST00000344720.5_Missense_Mutation_p.R68Q|AK5_ENST00000317704.4_Intron	NM_174858.2	NP_777283.1	Q9Y6K8	KAD5_HUMAN	adenylate kinase 5	94					ADP biosynthetic process (GO:0006172)|ATP metabolic process (GO:0046034)|dADP biosynthetic process (GO:0006173)|nucleobase-containing small molecule interconversion (GO:0015949)|nucleobase-containing small molecule metabolic process (GO:0055086)|nucleoside diphosphate phosphorylation (GO:0006165)|nucleoside triphosphate biosynthetic process (GO:0009142)|pyrimidine ribonucleotide biosynthetic process (GO:0009220)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|microtubule organizing center (GO:0005815)	adenylate kinase activity (GO:0004017)|ATP binding (GO:0005524)|nucleoside diphosphate kinase activity (GO:0004550)|nucleoside kinase activity (GO:0019206)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(27)|prostate(1)|skin(2)|stomach(1)	40						CCATATCGGCGGTATGACCGG	0.398																																																0													66	69	68					1																	77759511		2203	4300	6503	SO:0001583	missense	26289			AF062595	CCDS675.1, CCDS676.1	1p31	2008-02-05			ENSG00000154027	ENSG00000154027		"Adenylate kinases"	365	protein-coding gene	gene with protein product		608009				10215863	Standard	NM_012093		Approved		uc001dhn.3	Q9Y6K8	OTTHUMG00000009796	ENST00000354567.2:c.281G>A	1.37:g.77759511G>A	ENSP00000346577:p.Arg94Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q5U622|Q6FH66|Q7Z4T5|Q86YS0|Q8N464|Q96EC9	Missense_Mutation	SNP	ENST00000354567.2	37	CCDS675.1	.	.	.	.	.	.	.	.	.	.	G	32	5.125882	0.94429	.	.	ENSG00000154027	ENST00000354567;ENST00000344720;ENST00000478407	T;T;D	0.84730	-0.57;-0.67;-1.89	5.28	5.28	0.74379	.	0.000000	0.85682	D	0.000000	T	0.77665	0.4164	L	0.29908	0.895	0.80722	D	1	D	0.63046	0.992	P	0.45794	0.493	T	0.81369	-0.0964	10	0.62326	D	0.03	-0.0067	19.2875	0.94084	0.0:0.0:1.0:0.0	.	94	Q9Y6K8	KAD5_HUMAN	Q	94;68;68	ENSP00000346577:R94Q;ENSP00000341430:R68Q;ENSP00000434409:R68Q	ENSP00000341430:R68Q	R	+	2	0	AK5	77532099	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.534000	0.82004	2.645000	0.89757	0.561000	0.74099	CGG		0.398	AK5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026993.4	NM_174858		A	77759511	G	A	77759511	3	1	634	1	0	0	0	0	1	0	0	0	443	1116	39	1	291	1	AK5	1	77759511	Missense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10	22253868	77759511	171491110	4	39047										
DNM3	26052	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	171890935	171890935	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tgtaacaagacgacctcttgTgctgcagcttgttacttcta	8	10	2	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr1:171890935T>C	ENST00000355305.5	+	2	366	c.209T>C	c.(208-210)gTg>gCg	p.V70A	DNM3_ENST00000520906.1_Missense_Mutation_p.V70A|DNM3_ENST00000367733.2_Missense_Mutation_p.V70A|DNM3_ENST00000367731.1_Missense_Mutation_p.V70A|DNM3_ENST00000358155.4_Missense_Mutation_p.V70A			Q9UQ16	DYN3_HUMAN	dynamin 3	70	Dynamin-type G.				endocytosis (GO:0006897)|filopodium assembly (GO:0046847)|GTP catabolic process (GO:0006184)|synapse assembly (GO:0007416)	dendritic spine (GO:0043197)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|mitochondrion (GO:0005739)|perinuclear region of cytoplasm (GO:0048471)|postsynaptic density (GO:0014069)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			NS(1)|breast(3)|endometrium(1)|kidney(1)|large_intestine(9)|lung(16)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	37						CGACCTCTTGTGCTGCAGCTT	0.448																																																0													121	114	116					1																	171890935		1914	4123	6037	SO:0001583	missense	26052			AL136712	CCDS44276.1, CCDS60356.1	1q24.1	2013-01-10			ENSG00000197959	ENSG00000197959		"Pleckstrin homology (PH) domain containing"	29125	protein-coding gene	gene with protein product	"Dyna III"	611445				10048485	Standard	NM_015569		Approved	KIAA0820	uc001gie.4	Q9UQ16	OTTHUMG00000034913	ENST00000355305.5:c.209T>C	1.37:g.171890935T>C	ENSP00000347457:p.Val70Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1Y1|O14982|O95555|Q1MTM8|Q5W129|Q6P2G1|Q9H0P3|Q9H548|Q9NQ68|Q9NQN6	Missense_Mutation	SNP	ENST00000355305.5	37		.	.	.	.	.	.	.	.	.	.	T	24.3	4.514110	0.85389	.	.	ENSG00000197959	ENST00000359070;ENST00000358155;ENST00000367733;ENST00000355305;ENST00000367731;ENST00000520906	D;D;D;D;D	0.97041	-4.22;-4.22;-4.22;-4.22;-4.22	5.81	5.81	0.92471	.	0.000000	0.85682	D	0.000000	D	0.98349	0.9452	M	0.90145	3.09	0.45883	D	0.998739	P;D;D;P	0.56287	0.749;0.966;0.975;0.862	P;D;D;P	0.67382	0.826;0.923;0.951;0.791	D	0.99501	1.0953	10	0.87932	D	0	.	12.5617	0.56286	0.0:0.0:0.0:1.0	.	70;70;70;70	E5RHK8;Q9UQ16-2;Q9UQ16-3;Q6P2G1	.;.;.;.	A	70	ENSP00000350876:V70A;ENSP00000356707:V70A;ENSP00000347457:V70A;ENSP00000356705:V70A;ENSP00000429701:V70A	ENSP00000347457:V70A	V	+	2	0	DNM3	170157558	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	4.662000	0.61525	2.217000	0.71921	0.533000	0.62120	GTG		0.448	DNM3-003	NOVEL	not_organism_supported|basic	protein_coding	protein_coding	OTTHUMT00000084531.1	NM_015569		C	171890935	T	C	171890935	3	2	634	1	0	0	0	0	1	0	0	0	4675	1696	59	3	215	3	DNM3	1	171890935	Missense_Mutation	SNP	T	TCGA-KL-8335-01A-11D-2310-10	94131424	171890935	77359686	5	39048										
ENAH	55740	mdanderson.org	37	chr1	225755060	225755060	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	caccagctggcacccacttcTtattggcatcatcataaacc	5	15	3	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr1:225755060T>A	ENST00000366844.3	-	2	513	c.62A>T	c.(61-63)aAg>aTg	p.K21M	ENAH_ENST00000366843.2_Missense_Mutation_p.K21M|ENAH_ENST00000284563.6_Missense_Mutation_p.K21M|ENAH_ENST00000391874.2_5'UTR	NM_001008493.1|NM_018212.4	NP_001008493.1|NP_060682.2	Q8N8S7	ENAH_HUMAN	enabled homolog (Drosophila)	21	WH1. {ECO:0000255|PROSITE- ProRule:PRU00410}.				actin polymerization or depolymerization (GO:0008154)|axon guidance (GO:0007411)|intracellular transport (GO:0046907)|neural tube closure (GO:0001843)|T cell receptor signaling pathway (GO:0050852)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)|stress fiber (GO:0001725)|synapse (GO:0045202)	WW domain binding (GO:0050699)			NS(1)|breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(8)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	23	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.19)		CACCCACTTCTTATTGGCATC	0.398																																																0													174	158	164					1																	225755060		2203	4300	6503	SO:0001583	missense	55740			AK001635	CCDS31040.1, CCDS31041.1	1q32.2	2013-08-06			ENSG00000154380	ENSG00000154380			18271	protein-coding gene	gene with protein product	"mammalian enabled"	609061				1420303	Standard	XM_005273182		Approved	FLJ10773, NDPP1, MENA	uc001hpc.1	Q8N8S7	OTTHUMG00000037742	ENST00000366844.3:c.62A>T	1.37:g.225755060T>A	ENSP00000355809:p.Lys21Met	Somatic		WXS	Illumina HiSeq	Phase_I	D0PQI2|Q502W5|Q5T5M7|Q5VTQ9|Q5VTR0|Q9NVF3|Q9UFB8	Missense_Mutation	SNP	ENST00000366844.3	37	CCDS31041.1	.	.	.	.	.	.	.	.	.	.	T	17.70	3.453247	0.63290	.	.	ENSG00000154380	ENST00000366844;ENST00000366843;ENST00000284563;ENST00000538194	D;D;D	0.99005	-5.32;-5.32;-5.32	5.65	5.65	0.86999	EVH1 (3);Pleckstrin homology-type (1);Ran binding protein 1 (1);	0.000000	0.85682	D	0.000000	D	0.99414	0.9793	M	0.90977	3.165	0.80722	D	1	D;D	0.76494	0.998;0.999	D;D	0.75484	0.977;0.986	D	0.98667	1.0686	10	0.87932	D	0	-24.5772	16.1778	0.81874	0.0:0.0:0.0:1.0	.	21;21	Q8N8S7-2;Q8N8S7	.;ENAH_HUMAN	M	21;21;21;20	ENSP00000355809:K21M;ENSP00000355808:K21M;ENSP00000284563:K21M	ENSP00000284563:K21M	K	-	2	0	ENAH	223821683	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	6.170000	0.71920	2.279000	0.76181	0.533000	0.62120	AAG		0.398	ENAH-006	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000357426.2	NM_018212		A	225755060	T	A	225755060	3	1	634	1	0	0	0	0	1	0	0	0	5113	1609	56	5	1769	5	ENAH	1	225755060	Missense_Mutation	SNP	T	TCGA-KL-8335-01A-11D-2310-10	53864125	225755060	23495561	6	39049										
EXO1	9156	bcgsc.ca	37	chr1	242042205	242042205	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tggttgacacagatgtagcaCgtaattcaagtgatgacatt	10	6	1	4	rs145789527		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr1:242042205C>T	ENST00000366548.3	+	13	2262	c.1669C>T	c.(1669-1671)Cgt>Tgt	p.R557C	EXO1_ENST00000348581.5_Missense_Mutation_p.R557C|EXO1_ENST00000518483.1_Missense_Mutation_p.R557C	NM_130398.3	NP_569082.2	Q9UQ84	EXO1_HUMAN	exonuclease 1	557					DNA catabolic process, endonucleolytic (GO:0000737)|DNA catabolic process, exonucleolytic (GO:0000738)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|humoral immune response mediated by circulating immunoglobulin (GO:0002455)|isotype switching (GO:0045190)|meiotic nuclear division (GO:0007126)|mismatch repair (GO:0006298)|nucleic acid phosphodiester bond hydrolysis (GO:0090305)|RNA phosphodiester bond hydrolysis, endonucleolytic (GO:0090502)|somatic hypermutation of immunoglobulin genes (GO:0016446)	nucleus (GO:0005634)	5'-3' exodeoxyribonuclease activity (GO:0035312)|5'-3' exonuclease activity (GO:0008409)|DNA binding (GO:0003677)|double-stranded DNA 5'-3' exodeoxyribonuclease activity (GO:0051908)|exonuclease activity (GO:0004527)|flap endonuclease activity (GO:0048256)|metal ion binding (GO:0046872)|RNA-DNA hybrid ribonuclease activity (GO:0004523)|single-stranded DNA 5'-3' exodeoxyribonuclease activity (GO:0045145)|structure-specific DNA binding (GO:0043566)			NS(1)|central_nervous_system(2)|endometrium(3)|large_intestine(3)|lung(29)|ovary(2)|skin(1)|stomach(2)|urinary_tract(2)	45	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			AGATGTAGCACGTAATTCAAG	0.418								Editing and processing nucleases					C|||	1	0.000199681	0.0	0.0	5008	,	,		19127	0.001		0.0	False		,,,				2504	0.0															0								C	CYS/ARG,CYS/ARG,CYS/ARG	0,4406		0,0,2203	141	129	133		1669,1669,1669	1.9	0	1	dbSNP_134	133	1,8599	1.2+/-3.3	0,1,4299	yes	missense,missense,missense	EXO1	NM_003686.4,NM_006027.4,NM_130398.3	180,180,180	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign,benign,benign	557/804,557/847,557/847	242042205	1,13005	2203	4300	6503	SO:0001583	missense	9156			AF042282	CCDS1620.1, CCDS44336.1	1q42-q43	2008-07-18			ENSG00000174371	ENSG00000174371			3511	protein-coding gene	gene with protein product	"rad2 nuclease family member, homolog of S. cerevisiae exonuclease 1"	606063				9685493, 9788596	Standard	NM_003686		Approved	HEX1, hExoI	uc001hzh.3	Q9UQ84	OTTHUMG00000039965	ENST00000366548.3:c.1669C>T	1.37:g.242042205C>T	ENSP00000355506:p.Arg557Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O60545|O75214|O75466|Q5T396|Q96IJ1|Q9UG38|Q9UNW0	Missense_Mutation	SNP	ENST00000366548.3	37	CCDS1620.1	.	.	.	.	.	.	.	.	.	.	C	9.517	1.107222	0.20714	0.0	1.16E-4	ENSG00000174371	ENST00000366548;ENST00000348581;ENST00000518483	T;T;T	0.32988	1.43;1.43;1.43	4.78	1.93	0.25924	.	2.173490	0.03320	N	0.191799	T	0.24547	0.0595	N	0.22421	0.69	0.09310	N	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.28618	-1.0038	10	0.56958	D	0.05	-8.5195	8.3411	0.32243	0.0:0.737:0.0:0.263	.	556;557;557	A8K5H6;Q9UQ84-4;Q9UQ84	.;.;EXO1_HUMAN	C	557	ENSP00000355506:R557C;ENSP00000311873:R557C;ENSP00000430251:R557C	ENSP00000311873:R557C	R	+	1	0	EXO1	240108828	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.413000	0.07123	0.262000	0.21774	-0.143000	0.13931	CGT		0.418	EXO1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000096405.1	NM_006027		T	242042205	C	T	242042205	3	4	634	1	0	0	0	0	1	0	0	0	5302	536	19	1	1707	1	EXO1	1	242042205	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	16287145	242042205	7208416	7	39050										
HNRNPU	3192	broad.mit.edu	37	chr1	245021520	245021520	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ttactgattttgaaggcaacGccaagatcttgtccattctt	7	9	2	3			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr1:245021520G>A	ENST00000283179.9	-	7	1450	c.1287C>T	c.(1285-1287)ggC>ggT	p.G429G	HNRNPU_ENST00000444376.2_Silent_p.G410G|HNRNPU-AS1_ENST00000475997.1_RNA			Q00839	HNRPU_HUMAN	heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A)	429	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.				CRD-mediated mRNA stabilization (GO:0070934)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|osteoblast differentiation (GO:0001649)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|CRD-mediated mRNA stability complex (GO:0070937)|cytoplasmic ribonucleoprotein granule (GO:0036464)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)	p.N405_K417delNGQDLGVAFKISK(1)		NS(1)|endometrium(2)|large_intestine(1)|lung(10)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	20	all_cancers(71;6.97e-06)|all_epithelial(71;0.000104)|all_neural(11;0.0269)|Breast(184;0.0545)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0989)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.00868)			TGAAGGCAACGCCAAGATCTT	0.403																																					NSCLC(33;911 1010 3329 23631 49995)											1	Deletion - In frame(1)	NS(1)											69	62	65					1																	245021520		2203	4300	6503	SO:0001819	synonymous_variant	3192			X65488	CCDS31081.1, CCDS41479.1	1q44	2011-10-24		2007-08-16	ENSG00000153187	ENSG00000153187			5048	protein-coding gene	gene with protein product		602869		HNRPU		7509195, 8068679	Standard	NM_031844		Approved	SAF-A, hnRNPU	uc001iaz.1	Q00839	OTTHUMG00000040396	ENST00000283179.9:c.1287C>T	1.37:g.245021520G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O75507|Q8N174|Q96HY9|Q9BQ09	Silent	SNP	ENST00000283179.9	37	CCDS41479.1																																																																																				0.403	HNRNPU-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000097163.3	NM_031844		A	245021520	G	A	245021520	2	1	634	1	0	0	0	0	0	0	0	1	7280	1074	38	1		1	HNRNPU	1	245021520	Silent	SNP	G	TCGA-KL-8335-01A-11D-2310-10	2979315	245021520	4229101	8	39051										
MPHOSPH10	10199	broad.mit.edu;hgsc.bcm.edu	37	chr2	71366962	71366963	+	In_Frame_Ins	INS	-	-	AGG													0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	aaaccacccttcaactggaaINSgatatcattaaacagaggat							TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr2:71366962_71366963insAGG	ENST00000244230.2	+	6	1630_1631	c.1278_1279insAGG	c.(1279-1281)gat>AGGgat	p.426_427insR		NM_005791.2	NP_005782.1	O00566	MPP10_HUMAN	M-phase phosphoprotein 10 (U3 small nucleolar ribonucleoprotein)	426					negative regulation of phosphatase activity (GO:0010923)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)|rRNA processing (GO:0006364)	chromosome (GO:0005694)|nucleolus (GO:0005730)|small nucleolar ribonucleoprotein complex (GO:0005732)	poly(A) RNA binding (GO:0044822)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(2)|pancreas(2)|skin(2)|stomach(1)	26						TTCAACTGGAAGATATCATTAA	0.337																																																0																																										SO:0001652	inframe_insertion	10199			X98494	CCDS1916.1	2p13.3	2014-06-12			ENSG00000124383	ENSG00000124383			7213	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 106"	605503				8885239, 9450966	Standard	NM_005791		Approved	MPP10, MPP10P, CT90, PPP1R106	uc002sht.2	O00566	OTTHUMG00000129715	Exception_encountered	2.37:g.71366962_71366963insAGG	ENSP00000244230:p.Glu426_Asp427insArg	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVJ8	In_Frame_Ins	INS	ENST00000244230.2	37	CCDS1916.1																																																																																				0.337	MPHOSPH10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251924.2	NM_005791		AGG	71366963	-	AGG	71366962	7	5	634	1	0	1	1	0	0	0	0	0	9732	69	3	0	1300	0	MPHOSPH10	2	71366962	In_Frame_Ins	INS	-	TCGA-KL-8335-01A-11D-2310-10		71366962	171832411	9	39052	325	2								
MPHOSPH10	10199	bcgsc.ca	37	chr2	71366963	71366964	+	In_Frame_Ins	INS	-	-	AGG													0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	aaccacccttcaactggaagINSatatcattaaacagaggata					rs536292890		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr2:71366963_71366964insAGG	ENST00000244230.2	+	6	1631_1632	c.1279_1280insAGG	c.(1279-1281)gat>gAGGat	p.426_427insE		NM_005791.2	NP_005782.1	O00566	MPP10_HUMAN	M-phase phosphoprotein 10 (U3 small nucleolar ribonucleoprotein)	426					negative regulation of phosphatase activity (GO:0010923)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)|rRNA processing (GO:0006364)	chromosome (GO:0005694)|nucleolus (GO:0005730)|small nucleolar ribonucleoprotein complex (GO:0005732)	poly(A) RNA binding (GO:0044822)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(2)|pancreas(2)|skin(2)|stomach(1)	26						TCAACTGGAAGATATCATTAAA	0.337																																																0																																										SO:0001652	inframe_insertion	10199			X98494	CCDS1916.1	2p13.3	2014-06-12			ENSG00000124383	ENSG00000124383			7213	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 106"	605503				8885239, 9450966	Standard	NM_005791		Approved	MPP10, MPP10P, CT90, PPP1R106	uc002sht.2	O00566	OTTHUMG00000129715	Exception_encountered	2.37:g.71366963_71366964insAGG	ENSP00000244230:p.Glu426_Glu426dup	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVJ8	In_Frame_Ins	INS	ENST00000244230.2	37	CCDS1916.1																																																																																				0.337	MPHOSPH10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251924.2	NM_005791		AGG	71366964	-	AGG	71366963	7	5	634	1	0	1	1	0	0	0	0	0	9732	942	33	0	1301	0	MPHOSPH10	2	71366963	In_Frame_Ins	INS	-	TCGA-KL-8335-01A-11D-2310-10	1	71366963	171832410	10	39053	325	2								
PCGF1	84759	broad.mit.edu;hgsc.bcm.edu	37	chr2	74734182	74734183	+	Frame_Shift_Del	DEL	CT	CT	-													0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	cactcacaagtatgaagacaCtctgtgatggtggtggcatc							TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr2:74734182_74734183delCT	ENST00000233630.6	-	2	1096_1097	c.185_186delAG	c.(184-186)gagfs	p.E62fs	LBX2-AS1_ENST00000548978.2_RNA|LBX2-AS1_ENST00000603175.1_RNA|PCGF1_ENST00000480844.2_5'UTR	NM_032673.2	NP_116062.2	Q9BSM1	PCGF1_HUMAN	polycomb group ring finger 1	62					histone H2A monoubiquitination (GO:0035518)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|PcG protein complex (GO:0031519)	protein C-terminus binding (GO:0008022)|zinc ion binding (GO:0008270)			endometrium(3)|kidney(1)|large_intestine(2)|lung(3)|ovary(1)|skin(2)	12						TATGAAGACACTCTGTGATGGT	0.515																																																0																																										SO:0001589	frameshift_variant	84759			AF087884	CCDS1946.2	2p13.1	2013-01-09			ENSG00000115289	ENSG00000115289		"RING-type (C3HC4) zinc fingers", "Polycomb group ring fingers"	17615	protein-coding gene	gene with protein product		610231				11287196	Standard	NM_032673		Approved	NSPC1, RNF68, MGC10882	uc002slz.3	Q9BSM1	OTTHUMG00000129954	ENST00000233630.6:c.185_186delAG	2.37:g.74734184_74734185delCT	ENSP00000233630:p.Glu62fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z506	Frame_Shift_Del	DEL	ENST00000233630.6	37	CCDS1946.2																																																																																				0.515	PCGF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252216.1	NM_032673		-	74734183	CT	-	74734182	7	5	634	1	0	1	0	1	0	0	0	0	11581	564	20	0	625	0	PCGF1	2	74734182	Frame_Shift_Del	DEL	CT	TCGA-KL-8335-01A-11D-2310-10	3367219	74734182	168465191	11	39054	326	2								
PCGF1	84759	bcgsc.ca	37	chr2	74734183	74734184	+	Frame_Shift_Del	DEL	CT	CT	-													0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	actcacaagtatgaagacacTctgtgatggtggtggcatcc							TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr2:74734183_74734184delCT	ENST00000233630.6	-	2	1095_1096	c.184_185delAG	c.(184-186)aggfs	p.R62fs	LBX2-AS1_ENST00000548978.2_RNA|LBX2-AS1_ENST00000603175.1_RNA|PCGF1_ENST00000480844.2_5'UTR	NM_032673.2	NP_116062.2	Q9BSM1	PCGF1_HUMAN	polycomb group ring finger 1	62					histone H2A monoubiquitination (GO:0035518)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|PcG protein complex (GO:0031519)	protein C-terminus binding (GO:0008022)|zinc ion binding (GO:0008270)			endometrium(3)|kidney(1)|large_intestine(2)|lung(3)|ovary(1)|skin(2)	12						ATGAAGACACTCTGTGATGGTG	0.52																																																0																																										SO:0001589	frameshift_variant	84759			AF087884	CCDS1946.2	2p13.1	2013-01-09			ENSG00000115289	ENSG00000115289		"RING-type (C3HC4) zinc fingers", "Polycomb group ring fingers"	17615	protein-coding gene	gene with protein product		610231				11287196	Standard	NM_032673		Approved	NSPC1, RNF68, MGC10882	uc002slz.3	Q9BSM1	OTTHUMG00000129954	ENST00000233630.6:c.184_185delAG	2.37:g.74734183_74734184delCT	ENSP00000233630:p.Arg62fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z506	Frame_Shift_Del	DEL	ENST00000233630.6	37	CCDS1946.2																																																																																				0.52	PCGF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252216.1	NM_032673		-	74734184	CT	-	74734183	7	5	634	1	0	1	0	1	0	0	0	0	11581	1551	54	0	626	0	PCGF1	2	74734183	Frame_Shift_Del	DEL	CT	TCGA-KL-8335-01A-11D-2310-10	1	74734183	168465190	12	39055	326	2								
RETSAT	54884	hgsc.bcm.edu;ucsc.edu	37	chr2	85573123	85573123	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	aggcagcgggcgttccccggCagtaggtgttcataggtgtt	16	9	1	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr2:85573123C>A	ENST00000295802.4	-	6	1204	c.1092G>T	c.(1090-1092)ctG>ctT	p.L364L	RETSAT_ENST00000457495.2_Silent_p.L303L|RETSAT_ENST00000263854.6_Silent_p.L364L|RETSAT_ENST00000475624.2_5'UTR	NM_017750.3	NP_060220.3	Q6NUM9	RETST_HUMAN	retinol saturase (all-trans-retinol 13,14-reductase)	364					oxidation-reduction process (GO:0055114)|retinol metabolic process (GO:0042572)	endoplasmic reticulum membrane (GO:0005789)|membrane (GO:0016020)|nuclear membrane (GO:0031965)|nuclear outer membrane (GO:0005640)	all-trans-retinol 13,14-reductase activity (GO:0051786)|oxidoreductase activity (GO:0016491)			NS(2)|breast(1)|endometrium(5)|kidney(1)|large_intestine(4)|lung(10)|ovary(2)|prostate(2)|skin(2)|urinary_tract(1)	30					Vitamin A(DB00162)	CGTTCCCCGGCAGTAGGTGTT	0.587																																																0													127	114	118					2																	85573123		2203	4300	6503	SO:0001819	synonymous_variant	54884			AK075261	CCDS1972.1	2p11.2	2008-02-05			ENSG00000042445	ENSG00000042445	1.3.99.23		25991	protein-coding gene	gene with protein product						12975309, 15358783	Standard	NM_017750		Approved	FLJ20296	uc002spd.3	Q6NUM9	OTTHUMG00000154611	ENST00000295802.4:c.1092G>T	2.37:g.85573123C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NIK3|Q53R95|Q53SA9|Q6UX05|Q8N2H5|Q96FA4|Q9NXE5	Silent	SNP	ENST00000295802.4	37	CCDS1972.1	.	.	.	.	.	.	.	.	.	.	C	7.184	0.590258	0.13812	.	.	ENSG00000042445	ENST00000449375	.	.	.	5.4	2.58	0.30949	.	.	.	.	.	T	0.52948	0.1766	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.40720	-0.9548	4	.	.	.	-14.5377	4.9111	0.13821	0.1676:0.6546:0.0:0.1777	.	.	.	.	F	153	.	.	C	-	2	0	RETSAT	85426634	0.999000	0.42202	0.227000	0.23927	0.128000	0.20619	0.670000	0.25157	0.238000	0.21222	0.467000	0.42956	TGC		0.587	RETSAT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252489.1	NM_017750		A	85573123	C	A	85573123	2	1	634	1	0	0	0	0	0	0	0	1	13251	697	25	4		4	RETSAT	2	85573123	Silent	SNP	C	TCGA-KL-8335-01A-11D-2310-10	10838940	85573123	157626250	13	39056										
TUBA3D	113457	mdanderson.org	37	chr2	132240363	132240363	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ggcagctctagagaaggattAtgaagaggtgggcgtggatt	17	4	1	3			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr2:132240363A>G	ENST00000321253.6	+	5	1402	c.1295A>G	c.(1294-1296)tAt>tGt	p.Y432C	MZT2A_ENST00000410036.2_5'Flank	NM_080386.3	NP_525125.2	Q13748	TBA3C_HUMAN	tubulin, alpha 3d	432					'de novo' posttranslational protein folding (GO:0051084)|cellular protein metabolic process (GO:0044267)|microtubule-based process (GO:0007017)|protein folding (GO:0006457)|protein polymerization (GO:0051258)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)			breast(2)|endometrium(1)|kidney(1)|large_intestine(3)|lung(18)|prostate(2)|skin(2)|upper_aerodigestive_tract(3)	32				BRCA - Breast invasive adenocarcinoma(221;0.13)		GAGAAGGATTATGAAGAGGTG	0.602																																					Ovarian(137;2059 2432 35543 39401)											0													142	144	143					2																	132240363		2203	4300	6503	SO:0001583	missense	113457			K03460	CCDS33290.1	2q21.1	2007-03-16			ENSG00000075886	ENSG00000075886		"Tubulins"	24071	protein-coding gene	gene with protein product	"alpha-tubulin isotype H2-alpha"					3785200	Standard	NM_080386		Approved	H2-ALPHA	uc002tsu.4	Q13748	OTTHUMG00000153600	ENST00000321253.6:c.1295A>G	2.37:g.132240363A>G	ENSP00000326042:p.Tyr432Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJQ0|Q5W099|Q6PEY3|Q96F18	Missense_Mutation	SNP	ENST00000321253.6	37	CCDS33290.1	.	.	.	.	.	.	.	.	.	.	g	8.730	0.916383	0.17907	.	.	ENSG00000075886	ENST00000321253;ENST00000341158	D	0.94497	-3.44	2.41	2.41	0.29592	Tubulin, C-terminal (1);Tubulin/FtsZ, C-terminal (1);	0.000000	0.43416	U	0.000561	D	0.98185	0.9400	H	0.99435	4.565	0.47621	D	0.999475	D	0.71674	0.998	D	0.79784	0.993	D	0.96794	0.9584	10	0.72032	D	0.01	.	8.339	0.32232	1.0:0.0:0.0:0.0	.	432	Q13748	TBA3C_HUMAN	C	432;400	ENSP00000326042:Y432C	ENSP00000326042:Y432C	Y	+	2	0	TUBA3D	131956833	1.000000	0.71417	0.986000	0.45419	0.199000	0.23934	5.545000	0.67237	1.095000	0.41419	0.163000	0.16589	TAT		0.602	TUBA3D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331800.2	NM_080386		G	132240363	A	G	132240363	3	3	634	1	0	0	0	0	1	0	0	0	16759	449	16	3	1313	3	TUBA3D	2	132240363	Missense_Mutation	SNP	A	TCGA-KL-8335-01A-11D-2310-10	46667240	132240363	110959010	14	39057										
TTN	7273	mdanderson.org;bcgsc.ca	37	chr2	179403401	179403401	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tgaattgcttgtccttaataCgttccttattgctcttcttc	5	10	2	1	rs72648276		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr2:179403401C>T	ENST00000591111.1	-	304	94456	c.94232G>A	c.(94231-94233)cGt>cAt	p.R31411H	TTN_ENST00000359218.5_Missense_Mutation_p.R24112H|RP11-65L3.4_ENST00000604692.1_RNA|TTN-AS1_ENST00000590040.1_RNA|TTN-AS1_ENST00000592836.1_RNA|TTN-AS1_ENST00000592750.1_RNA|TTN_ENST00000460472.2_Missense_Mutation_p.R23987H|TTN-AS1_ENST00000588804.1_RNA|TTN-AS1_ENST00000438095.1_RNA|TTN-AS1_ENST00000589391.1_RNA|TTN-AS1_ENST00000585358.1_RNA|TTN_ENST00000342992.6_Missense_Mutation_p.R30484H|TTN-AS1_ENST00000589434.1_RNA|TTN-AS1_ENST00000592600.1_RNA|TTN-AS1_ENST00000419746.1_RNA|TTN_ENST00000589042.1_Missense_Mutation_p.R33052H|TTN-AS1_ENST00000591466.1_RNA|TTN-AS1_ENST00000450692.2_RNA|TTN-AS1_ENST00000431259.2_RNA|TTN-AS1_ENST00000456053.1_RNA|TTN-AS1_ENST00000415561.1_RNA|TTN-AS1_ENST00000589842.1_RNA|TTN-AS1_ENST00000586452.1_RNA|TTN-AS1_ENST00000588716.1_RNA|TTN-AS1_ENST00000590807.1_RNA|TTN-AS1_ENST00000591332.1_RNA|TTN-AS1_ENST00000592689.1_RNA|TTN-AS1_ENST00000585451.1_RNA|TTN_ENST00000342175.6_Missense_Mutation_p.R24179H|TTN-AS1_ENST00000591867.1_RNA|TTN-AS1_ENST00000588244.1_RNA|TTN-AS1_ENST00000588257.1_RNA|TTN-AS1_ENST00000592182.1_RNA|TTN-AS1_ENST00000586831.1_RNA|TTN-AS1_ENST00000442329.2_RNA|TTN-AS1_ENST00000592630.1_RNA|TTN-AS1_ENST00000585487.1_RNA|TTN-AS1_ENST00000586707.1_RNA			Q8WZ42	TITIN_HUMAN	titin	31411	Fibronectin type-III 129. {ECO:0000255|PROSITE-ProRule:PRU00316}.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTCCTTAATACGTTCCTTATT	0.443																																																0								C	HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG	1,3873		0,1,1936	255	249	251		71960,91451,72335,72536	5.9	1	2	dbSNP_130	251	0,8260		0,0,4130	no	missense,missense,missense,missense	TTN	NM_003319.4,NM_133378.4,NM_133432.3,NM_133437.3	29,29,29,29	0,1,6066	TT,TC,CC		0.0,0.0258,0.0082	probably-damaging,probably-damaging,probably-damaging,probably-damaging	23987/26927,30484/33424,24112/27052,24179/27119	179403401	1,12133	1937	4130	6067	SO:0001583	missense	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.94232G>A	2.37:g.179403401C>T	ENSP00000465570:p.Arg31411His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	C	19.57	3.852156	0.71719	2.58E-4	0.0	ENSG00000155657	ENST00000342992;ENST00000460472;ENST00000342175;ENST00000359218;ENST00000356127	T;T;T;T	0.59772	0.24;0.24;0.24;0.24	5.87	5.87	0.94306	Fibronectin, type III (4);Peptidase C2, calpain, large subunit, domain III (1);Ribonuclease H-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.67268	0.2875	L	0.33792	1.035	0.52501	D	0.999955	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.69824	0.966;0.966;0.966;0.966	T	0.68372	-0.5426	9	0.87932	D	0	.	16.8289	0.85939	0.129:0.871:0.0:0.0	.	23987;24112;24179;31411	D3DPF9;E7EQE6;E7ET18;Q8WZ42	.;.;.;TITIN_HUMAN	H	30484;23987;24179;24112;23984	ENSP00000343764:R30484H;ENSP00000434586:R23987H;ENSP00000340554:R24179H;ENSP00000352154:R24112H	ENSP00000340554:R24179H	R	-	2	0	TTN	179111647	1.000000	0.71417	0.990000	0.47175	0.902000	0.53008	6.037000	0.70956	2.941000	0.99782	0.655000	0.94253	CGT		0.443	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		T	179403401	C	T	179403401	3	4	634	1	0	0	0	0	1	0	0	0	16747	536	19	1	8860	1	TTN	2	179403401	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	47163038	179403401	63795972	15	39058										
STK11IP	114790	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr2	220473923	220473923	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gtgctggagcctgatgcccaCgcagctgtccaggtgatggc	15	12	0	2	rs185836682	byFrequency	TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr2:220473923C>T	ENST00000456909.1	+	16	2004	c.1914C>T	c.(1912-1914)caC>caT	p.H638H	STK11IP_ENST00000295641.10_Silent_p.H649H			Q8N1F8	S11IP_HUMAN	serine/threonine kinase 11 interacting protein	649					protein localization (GO:0008104)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal membrane (GO:0005765)	protein kinase binding (GO:0019901)			breast(2)|endometrium(5)|kidney(1)|large_intestine(2)|lung(10)|ovary(1)|prostate(1)|urinary_tract(1)	23		Renal(207;0.0183)		Epithelial(149;2.69e-07)|all cancers(144;5.91e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTGATGCCCACGCAGCTGTCC	0.652													C|||	5	0.000998403	0.0	0.0	5008	,	,		17182	0.0		0.0	False		,,,				2504	0.0051															0													27	27	27					2																	220473923		2032	4181	6213	SO:0001819	synonymous_variant	114790			AF450267	CCDS46521.1	2q35	2008-06-03			ENSG00000144589	ENSG00000144589			19184	protein-coding gene	gene with protein product	"LKB1 interacting protein"	607172				11741830	Standard	NM_052902		Approved	LIP1, KIAA1898, LKB1IP, STK11IP1	uc002vml.3	Q8N1F8	OTTHUMG00000059239	ENST00000456909.1:c.1914C>T	2.37:g.220473923C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NAW9|Q8WXE4|Q96CN3|Q96PY9	Silent	SNP	ENST00000456909.1	37																																																																																					0.652	STK11IP-001	NOVEL	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000131432.1	NM_052902		T	220473923	C	T	220473923	2	4	634	1	0	0	0	0	0	0	0	1	15300	535	19	1		1	STK11IP	2	220473923	Silent	SNP	C	TCGA-KL-8335-01A-11D-2310-10	41070522	220473923	22725450	16	39059										
PRR21	643905	mdanderson.org	37	chr2	240982219	240982219	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	acatgggtgaagagccgtggAtgaagggccgtgggtgaaga	19	5	0	5	rs74006013		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr2:240982219A>G	ENST00000408934.1	-	1	180	c.181T>C	c.(181-183)Tcc>Ccc	p.S61P		NM_001080835.1	NP_001074304.1	Q8WXC7	PRR21_HUMAN	proline rich 21	61	Pro-rich.									NS(1)|breast(1)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(3)|lung(7)|ovary(2)|prostate(5)|skin(3)|stomach(2)|upper_aerodigestive_tract(2)	29						AGAGCCGTGGATGAAGGGCCG	0.607																																																0													130	115	120					2																	240982219		2203	4300	6503	SO:0001583	missense	643905			AF453950	CCDS33417.1	2q37.3	2009-04-20			ENSG00000221961	ENSG00000221961			33866	protein-coding gene	gene with protein product							Standard	NM_001080835		Approved		uc010zod.2	Q8WXC7	OTTHUMG00000159174	ENST00000408934.1:c.181T>C	2.37:g.240982219A>G	ENSP00000386166:p.Ser61Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000408934.1	37	CCDS33417.1	.	.	.	.	.	.	.	.	.	.	N	6.168	0.399216	0.11696	.	.	ENSG00000221961	ENST00000408934;ENST00000486799	T;T	0.26223	1.75;1.75	1.5	-2.16	0.07080	.	.	.	.	.	T	0.10637	0.0260	N	0.08118	0	0.09310	N	1	B	0.15719	0.014	B	0.17722	0.019	T	0.25293	-1.0136	9	0.54805	T	0.06	.	2.7666	0.05322	0.3479:0.0:0.4377:0.2145	.	61	Q8WXC7	PRR21_HUMAN	P	61	ENSP00000386166:S61P;ENSP00000418240:S61P	ENSP00000386166:S61P	S	-	1	0	PRR21	240630892	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-3.540000	0.00437	-0.607000	0.05738	-0.484000	0.04775	TCC		0.607	PRR21-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001080835		G	240982219	A	G	240982219	3	3	634	1	0	0	0	0	1	0	0	0	12602	333	12	3	991	3	PRR21	2	240982219	Missense_Mutation	SNP	A	TCGA-KL-8335-01A-11D-2310-10	20508296	240982219	2217154	17	39060										
HDLBP	3069	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	242178175	242178175	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tcgatggaatttctggggtaTagcacattctaatgtcacct	9	8	3	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr2:242178175T>C	ENST00000391975.1	-	20	2865	c.2638A>G	c.(2638-2640)Ata>Gta	p.I880V	HDLBP_ENST00000310931.4_Missense_Mutation_p.I880V|HDLBP_ENST00000427183.2_Missense_Mutation_p.I847V|HDLBP_ENST00000391976.2_Missense_Mutation_p.I880V	NM_203346.3	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	880	KH 10. {ECO:0000255|PROSITE- ProRule:PRU00117}.				cholesterol metabolic process (GO:0008203)|lipid transport (GO:0006869)	cytoplasm (GO:0005737)|high-density lipoprotein particle (GO:0034364)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	lipid binding (GO:0008289)|poly(A) RNA binding (GO:0044822)			breast(7)|cervix(1)|endometrium(8)|kidney(1)|large_intestine(11)|lung(8)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	44		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		TTCTGGGGTATAGCACATTCT	0.423																																																0													206	225	219					2																	242178175		2203	4300	6503	SO:0001583	missense	3069				CCDS2547.1, CCDS58760.1	2q37.3	2008-07-18	2008-07-18		ENSG00000115677	ENSG00000115677			4857	protein-coding gene	gene with protein product		142695	"vigilin"	VGL		1318310, 8390966	Standard	NM_005336		Approved	HBP	uc002waz.3	Q00341	OTTHUMG00000133391	ENST00000391975.1:c.2638A>G	2.37:g.242178175T>C	ENSP00000375836:p.Ile880Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTQ2|E7EM71|Q53QU2|Q9UCY3	Missense_Mutation	SNP	ENST00000391975.1	37	CCDS2547.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	16.96|16.96	3.265395|3.265395	0.59431|0.59431	.|.	.|.	ENSG00000115677|ENSG00000115677	ENST00000391975;ENST00000391976;ENST00000310931;ENST00000427183|ENST00000373292	T;T;T;T|.	0.27104|.	1.69;1.69;1.69;1.69|.	6.05|6.05	6.05|6.05	0.98169|0.98169	K Homology (1);K Homology, type 1, subgroup (1);K Homology, type 1 (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.72622|0.72622	0.3483|0.3483	M|M	0.64080|0.64080	1.96|1.96	0.80722|0.80722	D|D	1|1	B;B|.	0.31769|.	0.086;0.339|.	B;B|.	0.42916|.	0.402;0.206|.	T|T	0.71097|0.71097	-0.4691|-0.4691	10|5	0.18276|.	T|.	0.48|.	-15.2285|-15.2285	16.6|16.6	0.84812|0.84812	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	847;880|.	E7EM71;Q00341|.	.;VIGLN_HUMAN|.	V|C	880;880;880;847|688	ENSP00000375836:I880V;ENSP00000375837:I880V;ENSP00000312042:I880V;ENSP00000399139:I847V|.	ENSP00000312042:I880V|.	I|Y	-|-	1|2	0|0	HDLBP|HDLBP	241826848|241826848	1.000000|1.000000	0.71417|0.71417	0.090000|0.090000	0.20809|0.20809	0.994000|0.994000	0.84299|0.84299	7.955000|7.955000	0.87856|0.87856	2.323000|2.323000	0.78572|0.78572	0.533000|0.533000	0.62120|0.62120	ATA|TAT		0.423	HDLBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257245.5	NM_203346		C	242178175	T	C	242178175	3	2	634	1	0	0	0	0	1	0	0	0	7032	1406	49	3	1204	3	HDLBP	2	242178175	Missense_Mutation	SNP	T	TCGA-KL-8335-01A-11D-2310-10	1195956	242178175	1021198	18	39061										
ARPP21	10777	mdanderson.org;bcgsc.ca	37	chr3	35833882	35833882	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ttttcttcgcaggttaccagCcagtcttgtctggtcaacag	9	11	4	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr3:35833882C>A	ENST00000187397.4	+	19	2497	c.2041C>A	c.(2041-2043)Cca>Aca	p.P681T	ARPP21_ENST00000458225.1_Missense_Mutation_p.P682T|ARPP21_ENST00000444190.1_Missense_Mutation_p.P662T|ARPP21_ENST00000476052.1_3'UTR|ARPP21_ENST00000337271.5_Missense_Mutation_p.P662T|ARPP21_ENST00000417925.1_Missense_Mutation_p.P682T	NM_016300.4	NP_057384.2	Q9UBL0	ARP21_HUMAN	cAMP-regulated phosphoprotein, 21kDa	681	Gln-rich.				cellular response to heat (GO:0034605)	cytoplasm (GO:0005737)	nucleic acid binding (GO:0003676)			cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(12)|lung(31)|ovary(3)|prostate(4)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	61						AGGTTACCAGCCAGTCTTGTC	0.468																																																0													162	170	167					3																	35833882		2203	4300	6503	SO:0001583	missense	10777			AA733082	CCDS2661.1, CCDS43063.1, CCDS58823.1, CCDS58824.1	3p24.3	2010-08-12			ENSG00000172995	ENSG00000172995			16968	protein-coding gene	gene with protein product	"R3H domain containing 3"	605488				8120638	Standard	NM_198399		Approved	ARPP-21, TARPP, R3HDM3	uc011axy.2	Q9UBL0	OTTHUMG00000130795	ENST00000187397.4:c.2041C>A	3.37:g.35833882C>A	ENSP00000187397:p.Pro681Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DG96|Q49AK3|Q49AS6|Q4G0V4|Q6NYC3|Q86V31|Q9UF93	Missense_Mutation	SNP	ENST00000187397.4	37	CCDS2661.1	.	.	.	.	.	.	.	.	.	.	C	10.23	1.293133	0.23564	.	.	ENSG00000172995	ENST00000458225;ENST00000337271;ENST00000444190;ENST00000187397;ENST00000417925	T;T;T;T;T	0.49139	0.79;0.79;0.79;0.79;0.79	5.71	3.92	0.45320	.	0.135690	0.50627	D	0.000118	T	0.55784	0.1942	L	0.60455	1.87	0.40003	D	0.975197	D;D;P;D	0.65815	0.995;0.957;0.819;0.995	D;P;B;D	0.68483	0.958;0.756;0.412;0.958	T	0.54430	-0.8295	10	0.20046	T	0.44	-4.9886	5.9087	0.19016	0.2736:0.5865:0.0:0.1399	.	682;204;681;662	Q9UBL0-3;Q9UBL0-5;Q9UBL0;Q9UBL0-4	.;.;ARP21_HUMAN;.	T	682;662;662;681;682	ENSP00000414351:P682T;ENSP00000337792:P662T;ENSP00000405276:P662T;ENSP00000187397:P681T;ENSP00000412326:P682T	ENSP00000187397:P681T	P	+	1	0	ARPP21	35808886	1.000000	0.71417	0.999000	0.59377	0.994000	0.84299	0.915000	0.28638	0.755000	0.32990	0.655000	0.94253	CCA		0.468	ARPP21-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253334.2	NM_198399		A	35833882	C	A	35833882	3	1	634	1	0	0	0	0	1	0	0	0	978	739	26	4	2120	4	ARPP21	3	35833882	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10		35833882	162188548	19	39062										
PXK	54899	broad.mit.edu	37	chr3	58395318	58395318	+	Frame_Shift_Del	DEL	A	A	-													0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	catggatctgaggaggaaagAaaaaaaagaaagattttagc							TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr3:58395318delA	ENST00000356151.2	+	15	1477	c.1368delA	c.(1366-1368)agafs	p.R456fs	PXK_ENST00000484288.1_Frame_Shift_Del_p.R456fs|PXK_ENST00000536660.1_Frame_Shift_Del_p.R319fs|PXK_ENST00000463280.1_Frame_Shift_Del_p.R423fs|PXK_ENST00000383716.3_Frame_Shift_Del_p.R423fs|PXK_ENST00000479241.1_Frame_Shift_Del_p.R439fs|PXK_ENST00000383715.4_Frame_Shift_Del_p.R439fs|PXK_ENST00000302779.5_Frame_Shift_Del_p.R439fs	NM_017771.3	NP_060241.2			PX domain containing serine/threonine kinase											cervix(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(1)|skin(1)|urinary_tract(1)	19				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)		AGGAGGAAAGAAAAAAAAGAA	0.418																																																0													50	50	50					3																	58395318		2202	4300	6502	SO:0001589	frameshift_variant	54899			AY274811	CCDS2889.1, CCDS74952.1, CCDS74954.1, CCDS74955.1	3p21.2	2008-02-05			ENSG00000168297	ENSG00000168297			23326	protein-coding gene	gene with protein product		611450					Standard	XM_005265255		Approved	FLJ20335	uc003djz.1	Q7Z7A4	OTTHUMG00000159149	ENST00000356151.2:c.1368delA	3.37:g.58395318delA	ENSP00000348472:p.Arg456fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000356151.2	37	CCDS2889.1																																																																																				0.418	PXK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353499.1	NM_017771		-	58395318	A	-	58395318	7	5	634	1	0	1	0	1	0	0	0	0	12862	243	9	0	1426	0	PXK	3	58395318	Frame_Shift_Del	DEL	A	TCGA-KL-8335-01A-11D-2310-10	22561436	58395318	139627112	20	39063										
NFKBIZ	64332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	101573954	101573954	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	atcagcatctcattgtgcagGatctggtgaacatcggggca	12	9	3	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr3:101573954G>T	ENST00000326172.5	+	7	1607	c.1492G>T	c.(1492-1494)Gat>Tat	p.D498Y	NFKBIZ_ENST00000394054.2_Missense_Mutation_p.D398Y|NFKBIZ_ENST00000326151.5_Missense_Mutation_p.D376Y	NM_031419.3	NP_113607.1	Q9BYH8	IKBZ_HUMAN	nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor, zeta	498	Interaction with NFKB1/p50. {ECO:0000250}.				inflammatory response (GO:0006954)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)				breast(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(8)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	24						CATTGTGCAGGATCTGGTGAA	0.488																																																0													80	81	81					3																	101573954		2203	4300	6503	SO:0001583	missense	64332			AF548362	CCDS2946.1, CCDS43123.1	3p12-q12	2013-01-10			ENSG00000144802	ENSG00000144802		"Ankyrin repeat domain containing"	29805	protein-coding gene	gene with protein product	"IL-1 inducible nuclear ankyrin-repeat protein"	608004				12565889, 16513645	Standard	NM_031419		Approved	MAIL, FLJ34463, INAP	uc003dvp.3	Q9BYH8	OTTHUMG00000159194	ENST00000326172.5:c.1492G>T	3.37:g.101573954G>T	ENSP00000325663:p.Asp498Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KNR2|D3DN54|Q8IUL4|Q8NAZ8	Missense_Mutation	SNP	ENST00000326172.5	37	CCDS2946.1	.	.	.	.	.	.	.	.	.	.	G	15.75	2.924473	0.52653	.	.	ENSG00000144802	ENST00000483180;ENST00000394054;ENST00000326151;ENST00000326172	T;T;T;T	0.62364	0.03;0.03;0.03;0.03	5.58	5.58	0.84498	Ankyrin repeat-containing domain (4);	0.000000	0.85682	D	0.000000	T	0.54062	0.1835	N	0.01729	-0.75	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.999;1.0	T	0.53913	-0.8371	10	0.02654	T	1	-14.7808	19.922	0.97089	0.0:0.0:1.0:0.0	.	376;498	Q9BYH8-3;Q9BYH8	.;IKBZ_HUMAN	Y	398;398;376;498	ENSP00000419800:D398Y;ENSP00000377618:D398Y;ENSP00000325593:D376Y;ENSP00000325663:D498Y	ENSP00000325593:D376Y	D	+	1	0	NFKBIZ	103056644	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.399000	0.97285	2.780000	0.95670	0.655000	0.94253	GAT		0.488	NFKBIZ-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000353793.1	NM_031419		T	101573954	G	T	101573954	3	4	634	1	0	0	0	0	1	0	0	0	10390	1174	41	4	1518	4	NFKBIZ	3	101573954	Missense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10	43178636	101573954	96448476	21	39064										
KIAA2018	205717	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	113375944	113375944	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ctgagaggtctgggtgccctGaacaagattcctctttttct	10	10	3	3			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr3:113375944G>C	ENST00000478658.1	-	5	4602	c.4585C>G	c.(4585-4587)Cag>Gag	p.Q1529E	KIAA2018_ENST00000491165.1_Intron|KIAA2018_ENST00000316407.4_Missense_Mutation_p.Q1529E			Q68DE3	K2018_HUMAN	KIAA2018	1529	Gln-rich.					membrane (GO:0016020)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|DNA binding (GO:0003677)|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity (GO:0004571)			NS(1)|breast(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(13)|liver(1)|lung(30)|ovary(8)|skin(5)|upper_aerodigestive_tract(4)|urinary_tract(2)	80						TGGGTGCCCTGAACAAGATTC	0.517																																																0													111	111	111					3																	113375944		2016	4187	6203	SO:0001583	missense	205717			AB095938	CCDS43133.1	3q13.2	2014-01-02			ENSG00000176542	ENSG00000176542			30494	protein-coding gene	gene with protein product							Standard	XM_005247208		Approved		uc003eam.3	Q68DE3	OTTHUMG00000159322	ENST00000478658.1:c.4585C>G	3.37:g.113375944G>C	ENSP00000420721:p.Gln1529Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z3L9|Q8IVF3|Q9H8T4	Missense_Mutation	SNP	ENST00000478658.1	37	CCDS43133.1	.	.	.	.	.	.	.	.	.	.	G	17.31	3.358247	0.61403	.	.	ENSG00000176542	ENST00000316407;ENST00000478658	T;T	0.30981	1.51;1.51	5.91	5.01	0.66863	.	0.343150	0.31404	N	0.007717	T	0.23330	0.0564	L	0.27053	0.805	0.25898	N	0.983394	B	0.29716	0.255	B	0.21917	0.037	T	0.08106	-1.0738	10	0.38643	T	0.18	-2.0295	16.7864	0.85575	0.0:0.1291:0.8709:0.0	.	1529	Q68DE3	K2018_HUMAN	E	1529	ENSP00000320794:Q1529E;ENSP00000420721:Q1529E	ENSP00000320794:Q1529E	Q	-	1	0	KIAA2018	114858634	1.000000	0.71417	0.991000	0.47740	0.993000	0.82548	7.031000	0.76491	1.444000	0.47605	0.655000	0.94253	CAG		0.517	KIAA2018-003	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000354591.1	NM_001009899		C	113375944	G	C	113375944	3	2	634	1	0	0	0	0	1	0	0	0	8275	1299	45	4	2156	4	KIAA2018	3	113375944	Missense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10	11801990	113375944	84646486	22	39065										
DRD5	1816	mdanderson.org	37	chr4	9784542	9784542	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	aggagaccaaggttctcaagAccctgtcggtgatcatgggg	14	9	2	3	rs2227851		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr4:9784542A>C	ENST00000304374.2	+	1	1285	c.889A>C	c.(889-891)Acc>Ccc	p.T297P		NM_000798.4	NP_000789.1	P21918	DRD5_HUMAN	dopamine receptor D5	297			T -> P (in dbSNP:rs2227851).		activation of adenylate cyclase activity (GO:0007190)|adenylate cyclase-activating dopamine receptor signaling pathway (GO:0007191)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|associative learning (GO:0008306)|cellular calcium ion homeostasis (GO:0006874)|cellular response to catecholamine stimulus (GO:0071870)|long term synaptic depression (GO:0060292)|negative regulation of blood pressure (GO:0045776)|negative regulation of NAD(P)H oxidase activity (GO:0033861)|norepinephrine-epinephrine vasoconstriction involved in regulation of systemic arterial blood pressure (GO:0001994)|phospholipase C-activating dopamine receptor signaling pathway (GO:0060158)|positive regulation of adenylate cyclase activity (GO:0045762)|positive regulation of adenylate cyclase activity involved in G-protein coupled receptor signaling pathway (GO:0010579)|reactive oxygen species metabolic process (GO:0072593)|regulation of female receptivity (GO:0045924)|regulation of systemic arterial blood pressure by vasopressin (GO:0001992)|response to amphetamine (GO:0001975)|response to cocaine (GO:0042220)|sensitization (GO:0046960)|synaptic transmission (GO:0007268)|synaptic transmission, dopaminergic (GO:0001963)|transmission of nerve impulse (GO:0019226)|wound healing (GO:0042060)	brush border membrane (GO:0031526)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	dopamine binding (GO:0035240)|dopamine neurotransmitter receptor activity (GO:0004952)|dopamine neurotransmitter receptor activity, coupled via Gs (GO:0001588)			NS(2)|endometrium(8)|kidney(4)|large_intestine(8)|lung(22)|prostate(7)|skin(3)|stomach(2)|urinary_tract(1)	57					Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Cabergoline(DB00248)|Chlorpromazine(DB00477)|Cinnarizine(DB00568)|Dopamine(DB00988)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Imipramine(DB00458)|L-DOPA(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Pergolide(DB01186)|Pramipexole(DB00413)|Quetiapine(DB01224)|Ropinirole(DB00268)|Rotigotine(DB05271)|Trimipramine(DB00726)|Ziprasidone(DB00246)	GGTTCTCAAGACCCTGTCGGT	0.632																																																0													54	51	52					4																	9784542		2202	4297	6499	SO:0001583	missense	1816			X58454	CCDS3405.1	4p16.1	2012-08-08			ENSG00000169676	ENSG00000169676		"GPCR / Class A : Dopamine receptors"	3026	protein-coding gene	gene with protein product		126453		DRD1L2		1774076	Standard	NM_000798		Approved	DRD1B	uc003gmb.4	P21918	OTTHUMG00000128489	ENST00000304374.2:c.889A>C	4.37:g.9784542A>C	ENSP00000306129:p.Thr297Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9S3|Q8NEQ8	Missense_Mutation	SNP	ENST00000304374.2	37	CCDS3405.1	.	.	.	.	.	.	.	.	.	.	a	19.24	3.788678	0.70337	.	.	ENSG00000169676	ENST00000304374	T	0.40225	1.04	4.73	4.73	0.59995	GPCR, rhodopsin-like superfamily (1);	0.000000	0.85682	D	0.000000	T	0.79879	0.4522	H	0.99668	4.69	0.09310	P	0.999999880898	D	0.89917	1.0	D	0.97110	1.0	D	0.89804	0.3977	9	0.87932	D	0	.	13.5854	0.61928	1.0:0.0:0.0:0.0	rs2227851	297	P21918	DRD5_HUMAN	P	297	ENSP00000306129:T297P	ENSP00000306129:T297P	T	+	1	0	DRD5	9393640	1.000000	0.71417	1.000000	0.80357	0.818000	0.46254	8.711000	0.91396	1.990000	0.58119	0.377000	0.23210	ACC		0.632	DRD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250293.1			C	9784542	A	C	9784542	3	2	634	1	0	0	0	0	1	0	0	0	4762	275	10	5	891	5	DRD5	4	9784542	Missense_Mutation	SNP	A	TCGA-KL-8335-01A-11D-2310-10		9784542	181369734	23	39066										
ANAPC4	29945	broad.mit.edu;mdanderson.org	37	chr4	25415322	25415322	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tcattgcattttgtgaaaagGcggatggagaatattattga	11	3	1	3			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr4:25415322G>A	ENST00000315368.3	+	22	1723	c.1581G>A	c.(1579-1581)agG>agA	p.R527R	ANAPC4_ENST00000510092.1_Silent_p.R528R	NM_013367.2	NP_037499.2	Q9UJX5	APC4_HUMAN	anaphase promoting complex subunit 4	527					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K11-linked ubiquitination (GO:0070979)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	anaphase-promoting complex (GO:0005680)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	protein phosphatase binding (GO:0019903)|ubiquitin-protein transferase activity (GO:0004842)			breast(1)|endometrium(2)|kidney(2)|large_intestine(9)|lung(5)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|stomach(2)	27		Breast(46;0.0503)				TTGTGAAAAGGCGGATGGAGA	0.353																																																0													118	116	117					4																	25415322		2203	4300	6503	SO:0001819	synonymous_variant	29945			AF191338	CCDS3434.1, CCDS68684.1	4p15.31	2011-06-15			ENSG00000053900	ENSG00000053900		"Anaphase promoting complex subunits"	19990	protein-coding gene	gene with protein product		606947				6180011	Standard	NM_013367		Approved	APC4	uc003gro.3	Q9UJX5	OTTHUMG00000097753	ENST00000315368.3:c.1581G>A	4.37:g.25415322G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K8H1|E9PCR4|Q6PCC6|Q9NSH6	Silent	SNP	ENST00000315368.3	37	CCDS3434.1																																																																																				0.353	ANAPC4-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000214986.1	NM_013367		A	25415322	G	A	25415322	2	1	634	1	0	0	0	0	0	0	0	1	604	1194	42	2		2	ANAPC4	4	25415322	Silent	SNP	G	TCGA-KL-8335-01A-11D-2310-10	15630780	25415322	165738954	24	39067										
DSPP	1834	broad.mit.edu	37	chr4	88536147	88536155	+	In_Frame_Del	DEL	ACAGCAGCA	ACAGCAGCA	-													0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tgacagcagtgatagtagtgAcagcagcaacagcagtgata							TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	ACAGCAGCA	ACAGCAGCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr4:88536147_88536155delACAGCAGCA	ENST00000282478.7	+	4	2366_2374	c.2333_2341delACAGCAGCA	c.(2332-2343)gacagcagcaac>gac	p.SSN779del	DSPP_ENST00000399271.1_In_Frame_Del_p.SSN779del|RP11-742B18.1_ENST00000506480.1_RNA			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	779	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		gatagtagtgacagcagcaacagcagtga	0.502																																																0																																										SO:0001651	inframe_deletion	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.2333_2341delACAGCAGCA	4.37:g.88536147_88536155delACAGCAGCA	ENSP00000282478:p.Ser779_Asn781del	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	In_Frame_Del	DEL	ENST00000282478.7	37	CCDS43248.1																																																																																				0.502	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		-	88536155	ACAGCAGCA	-	88536147	7	5	634	1	0	1	0	1	0	0	0	0	4784	275	10	0	2347	0	DSPP	4	88536147	In_Frame_Del	DEL	ACAGCAGCA	TCGA-KL-8335-01A-11D-2310-10	63120825	88536147	102618129	25	39068										
ADH1B	125	broad.mit.edu;mdanderson.org	37	chr4	100234996	100234996	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	accatggtgtcaagccgaccGatgacttcaaacgaaaaatc	8	11	2	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr4:100234996G>A	ENST00000305046.8	-	6	877	c.810C>T	c.(808-810)atC>atT	p.I270I	ADH1B_ENST00000394887.3_Silent_p.I230I			P00325	ADH1B_HUMAN	alcohol dehydrogenase 1B (class I), beta polypeptide	270					ethanol oxidation (GO:0006069)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)	alcohol dehydrogenase activity, zinc-dependent (GO:0004024)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(5)|lung(12)|ovary(1)|prostate(2)|skin(2)|urinary_tract(1)	33				OV - Ovarian serous cystadenocarcinoma(123;1.02e-07)	Ethanol(DB00898)|Fomepizole(DB01213)	CAAGCCGACCGATGACTTCAA	0.438																																																0													210	211	210					4																	100234996		2203	4300	6503	SO:0001819	synonymous_variant	125			AF153821	CCDS34033.1, CCDS68761.1	4q23	2008-02-05	2007-11-06		ENSG00000196616	ENSG00000196616	1.1.1.1	"Alcohol dehydrogenases"	250	protein-coding gene	gene with protein product		103720		ADH2		3006456	Standard	NM_000668		Approved		uc003hus.4	P00325	OTTHUMG00000161413	ENST00000305046.8:c.810C>T	4.37:g.100234996G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MYN5|B4DRS9|B4DVC3|Q13711|Q4ZGI9|Q96KI7	Silent	SNP	ENST00000305046.8	37	CCDS34033.1																																																																																				0.438	ADH1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364853.1	NM_000668		A	100234996	G	A	100234996	2	1	634	1	0	0	0	0	0	0	0	1	308	1048	37	1		1	ADH1B	4	100234996	Silent	SNP	G	TCGA-KL-8335-01A-11D-2310-10	11698849	100234996	90919280	26	39069										
CENPE	1062	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr4	104101509	104101509	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gagggaagaagaggtcaccaGcatccgtgttaagttttcaa	12	7	2	2	rs528315425		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr4:104101509G>C	ENST00000265148.3	-	13	1290	c.1201C>G	c.(1201-1203)Ctg>Gtg	p.L401V	CENPE_ENST00000380026.3_Missense_Mutation_p.L401V|CENPE_ENST00000509120.1_5'UTR	NM_001813.2	NP_001804.2	Q02224	CENPE_HUMAN	centromere protein E, 312kDa	401					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|blood coagulation (GO:0007596)|kinetochore assembly (GO:0051382)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|mitotic cell cycle (GO:0000278)|mitotic chromosome movement towards spindle pole (GO:0007079)|mitotic metaphase plate congression (GO:0007080)|multicellular organismal development (GO:0007275)|positive regulation of protein kinase activity (GO:0045860)|regulation of mitotic metaphase/anaphase transition (GO:0030071)	chromosome (GO:0005694)|chromosome, centromeric region (GO:0000775)|condensed chromosome outer kinetochore (GO:0000940)|condensed chromosome, centromeric region (GO:0000779)|condensed nuclear chromosome kinetochore (GO:0000778)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinesin complex (GO:0005871)|kinetochore (GO:0000776)|membrane (GO:0016020)|microtubule (GO:0005874)|microtubule cytoskeleton (GO:0015630)|midbody (GO:0030496)|mitotic spindle midzone (GO:1990023)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|kinetochore binding (GO:0043515)|microtubule motor activity (GO:0003777)			NS(3)|breast(6)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(20)|lung(34)|ovary(5)|pancreas(1)|prostate(2)|skin(3)|stomach(5)|urinary_tract(3)	101				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		GAGGTCACCAGCATCCGTGTT	0.368																																																0													128	131	130					4																	104101509		2203	4300	6503	SO:0001583	missense	1062			Z15005	CCDS34042.1, CCDS68768.1	4q24-q25	2013-11-05	2002-08-29			ENSG00000138778		"Kinesins", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	1856	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 61"	117143	"centromere protein E (312kD)"			7851898	Standard	NM_001286734		Approved	KIF10, PPP1R61	uc003hxb.1	Q02224		ENST00000265148.3:c.1201C>G	4.37:g.104101509G>C	ENSP00000265148:p.Leu401Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKY9|A8K2U7|Q4LE75	Missense_Mutation	SNP	ENST00000265148.3	37	CCDS34042.1	.	.	.	.	.	.	.	.	.	.	G	14.43	2.532371	0.45073	.	.	ENSG00000138778	ENST00000265148;ENST00000394771;ENST00000380026;ENST00000503705	T;T;T	0.56941	0.43;0.43;0.43	5.23	3.47	0.39725	.	.	.	.	.	T	0.52933	0.1765	N	0.17248	0.465	0.36330	D	0.858786	D;P	0.89917	1.0;0.615	D;B	0.85130	0.997;0.219	T	0.57969	-0.7719	9	0.36615	T	0.2	.	9.7801	0.40643	0.2228:0.0:0.7772:0.0	.	401;401	Q02224-3;Q02224	.;CENPE_HUMAN	V	401	ENSP00000265148:L401V;ENSP00000369365:L401V;ENSP00000423981:L401V	ENSP00000265148:L401V	L	-	1	2	CENPE	104320958	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	2.467000	0.45093	1.336000	0.45506	0.563000	0.77884	CTG		0.368	CENPE-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding				C	104101509	G	C	104101509	3	2	634	1	0	0	0	0	1	0	0	0	3232	962	34	4	7052	4	CENPE	4	104101509	Missense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10	3866513	104101509	87052767	27	39070										
KIAA0947	23379	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	5489408	5489408	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	cgattgtcagctgcctagagGaagtcagtgccctgagcaca	12	11	2	2			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr5:5489408G>T	ENST00000296564.7	+	19	6988	c.6766G>T	c.(6766-6768)Gaa>Taa	p.E2256*		NM_015325.2	NP_056140.1	Q9Y2F5	ICE1_HUMAN		2256					positive regulation of intracellular protein transport (GO:0090316)|positive regulation of protein complex assembly (GO:0031334)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|snRNA transcription from RNA polymerase II promoter (GO:0042795)|snRNA transcription from RNA polymerase III promoter (GO:0042796)	Cajal body (GO:0015030)|histone locus body (GO:0035363)|transcription elongation factor complex (GO:0008023)|transcriptionally active chromatin (GO:0035327)	protein homodimerization activity (GO:0042803)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(5)|lung(14)|ovary(1)|prostate(4)|upper_aerodigestive_tract(1)	35						CTGCCTAGAGGAAGTCAGTGC	0.522																																																0													43	46	45					5																	5489408		2065	4204	6269	SO:0001587	stop_gained	23379																														ENST00000296564.7:c.6766G>T	5.37:g.5489408G>T	ENSP00000296564:p.Glu2256*	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DE1|Q6ZT40|Q7L587|Q7Z3A9|Q9NTH9	Nonsense_Mutation	SNP	ENST00000296564.7	37	CCDS47187.1	.	.	.	.	.	.	.	.	.	.	G	46	12.447786	0.99668	.	.	ENSG00000164151	ENST00000296564	.	.	.	5.54	5.54	0.83059	.	.	.	.	.	.	.	.	.	.	.	0.48087	D	0.999588	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	-16.4235	15.3318	0.74219	0.0:0.0:1.0:0.0	.	.	.	.	X	2256	.	ENSP00000296564:E2256X	E	+	1	0	KIAA0947	5542408	0.998000	0.40836	0.774000	0.31636	0.012000	0.07955	3.987000	0.56944	2.763000	0.94921	0.650000	0.86243	GAA		0.522	KIAA0947-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365575.1			T	5489408	G	T	5489408	4	4	634	1	0	0	0	0	0	1	0	0	8209	1175	41	4	6840	4	KIAA0947	5	5489408	Nonsense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10		5489408	175425852	28	39071										
DIMT1L	27292	broad.mit.edu;hgsc.bcm.edu	37	chr5	61699551	61699570	+	Frame_Shift_Del	DEL	CCTGCCGCCCGCGGCGGCGG	CCTGCCGCCCGCGGCGGCGG	-													0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	cttcagctcccggcgctgctCctgccgcccgcggcggcggc					rs367686764		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	CCTGCCGCCCGCGGCGGCGG	CCTGCCGCCCGCGGCGGCGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr5:61699551_61699570delCCTGCCGCCCGCGGCGGCGG	ENST00000199320.4	-	1	190_209	c.30_49delCCGCCGCCGCGGGCGGCAGG	c.(28-51)ggccgccgccgcgggcggcaggagfs	p.RRRGRQE11fs	DIMT1_ENST00000506390.1_Frame_Shift_Del_p.RRRGRQE11fs|KIF2A_ENST00000509663.2_Intron	NM_014473.2	NP_055288.1	Q9UNQ2	DIM1_HUMAN	DIM1 dimethyladenosine transferase 1 homolog (S. cerevisiae)	11						cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	18S rRNA (adenine(1779)-N(6)/adenine(1780)-N(6))-dimethyltransferase activity (GO:0052909)|poly(A) RNA binding (GO:0044822)|rRNA (adenine-N6,N6-)-dimethyltransferase activity (GO:0000179)										CGGCGCTGCTCCTGCCGCCCGCGGCGGCGGCCGATGGCCC	0.705																																																0																																										SO:0001589	frameshift_variant	27292			AF102147	CCDS3981.1	5q12.1	2011-08-11	2011-08-11	2011-08-11	ENSG00000086189	ENSG00000086189			30217	protein-coding gene	gene with protein product		612499	"DIM1 dimethyladenosine transferase 1-like (S. cerevisiae)"	DIMT1L		11124703	Standard	NM_014473		Approved	HSA9761	uc003jta.3	Q9UNQ2	OTTHUMG00000131223	ENST00000199320.4:c.30_49delCCGCCGCCGCGGGCGGCAGG	5.37:g.61699551_61699570delCCTGCCGCCCGCGGCGGCGG	ENSP00000199320:p.Arg11fs	Somatic		WXS	Illumina HiSeq	Phase_I	O76025|Q9BU77|Q9UES1	Frame_Shift_Del	DEL	ENST00000199320.4	37	CCDS3981.1																																																																																				0.705	DIMT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253967.1	NM_014473		-	61699570	CCTGCCGCCCGCGGCGGCGG	-	61699551	7	5	634	1	0	1	0	1	0	0	0	0	4525	864	30	0	940	0	DIMT1L	5	61699551	Frame_Shift_Del	DEL	CCTGCCGCCCGCGGCGGCGG	TCGA-KL-8335-01A-11D-2310-10	56210143	61699551	119215709	29	39072	327	2								
DIMT1L	27292	bcgsc.ca	37	chr5	61699552	61699571	+	Frame_Shift_Del	DEL	CCTGCCGCCCGCGGCGGCGG	CCTGCCGCCCGCGGCGGCGG	-													0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ttcagctcccggcgctgctcCtgccgcccgcggcggcggcc					rs367686764		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	CCTGCCGCCCGCGGCGGCGG	CCTGCCGCCCGCGGCGGCGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr5:61699552_61699571delCCTGCCGCCCGCGGCGGCGG	ENST00000199320.4	-	1	189_208	c.29_48delCCGCCGCCGCGGGCGGCAGG	c.(28-48)gccgccgccgcgggcggcaggfs	p.AAAAGGR10fs	DIMT1_ENST00000506390.1_Frame_Shift_Del_p.AAAAGGR10fs|KIF2A_ENST00000509663.2_Intron	NM_014473.2	NP_055288.1	Q9UNQ2	DIM1_HUMAN	DIM1 dimethyladenosine transferase 1 homolog (S. cerevisiae)	10						cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	18S rRNA (adenine(1779)-N(6)/adenine(1780)-N(6))-dimethyltransferase activity (GO:0052909)|poly(A) RNA binding (GO:0044822)|rRNA (adenine-N6,N6-)-dimethyltransferase activity (GO:0000179)										GGCGCTGCTCCTGCCGCCCGCGGCGGCGGCCGATGGCCCC	0.705																																																0																																										SO:0001589	frameshift_variant	27292			AF102147	CCDS3981.1	5q12.1	2011-08-11	2011-08-11	2011-08-11	ENSG00000086189	ENSG00000086189			30217	protein-coding gene	gene with protein product		612499	"DIM1 dimethyladenosine transferase 1-like (S. cerevisiae)"	DIMT1L		11124703	Standard	NM_014473		Approved	HSA9761	uc003jta.3	Q9UNQ2	OTTHUMG00000131223	ENST00000199320.4:c.29_48delCCGCCGCCGCGGGCGGCAGG	5.37:g.61699552_61699571delCCTGCCGCCCGCGGCGGCGG	ENSP00000199320:p.Ala10fs	Somatic		WXS	Illumina HiSeq	Phase_I	O76025|Q9BU77|Q9UES1	Frame_Shift_Del	DEL	ENST00000199320.4	37	CCDS3981.1																																																																																				0.705	DIMT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253967.1	NM_014473		-	61699571	CCTGCCGCCCGCGGCGGCGG	-	61699552	7	5	634	1	0	1	0	1	0	0	0	0	4525	680	24	0	941	0	DIMT1L	5	61699552	Frame_Shift_Del	DEL	CCTGCCGCCCGCGGCGGCGG	TCGA-KL-8335-01A-11D-2310-10	1	61699552	119215708	30	39073	327	2								
RBM27	54439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	145598649	145598649	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	cttttgtgctgatcaacttgAtgtctttttacaaaaaggta	7	6	2	2			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr5:145598649A>T	ENST00000265271.5	+	2	327	c.161A>T	c.(160-162)gAt>gTt	p.D54V	RBM27_ENST00000506502.1_Missense_Mutation_p.D54V	NM_018989.1	NP_061862.1	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	54					mRNA processing (GO:0006397)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(3)|endometrium(4)|kidney(5)|large_intestine(7)|liver(2)|lung(10)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)	39			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GATCAACTTGATGTCTTTTTA	0.353																																																0													151	141	144					5																	145598649		1568	3582	5150	SO:0001583	missense	54439			AL833706	CCDS43378.1	5q32	2013-01-09				ENSG00000091009		"Zinc fingers, CCCH-type domain containing", "RNA binding motif (RRM) containing"	29243	protein-coding gene	gene with protein product	"acidic rich RS domain containing 1"					10718198, 15741184	Standard	NM_018989		Approved	KIAA1311, ARRS1, Psc1, ZC3H18	uc003lnz.4	Q9P2N5		ENST00000265271.5:c.161A>T	5.37:g.145598649A>T	ENSP00000265271:p.Asp54Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYW9	Missense_Mutation	SNP	ENST00000265271.5	37	CCDS43378.1	.	.	.	.	.	.	.	.	.	.	A	24.5	4.534735	0.85812	.	.	ENSG00000091009	ENST00000265271	T	0.41758	0.99	5.69	5.69	0.88448	Splicing factor PWI (2);	0.000000	0.85682	D	0.000000	T	0.62974	0.2472	M	0.65975	2.015	0.80722	D	1	D;P	0.89917	1.0;0.484	D;P	0.75484	0.986;0.72	T	0.63143	-0.6703	10	0.45353	T	0.12	-18.5905	15.956	0.79889	1.0:0.0:0.0:0.0	.	54;54	Q9P2N5;B3KY61	RBM27_HUMAN;.	V	54	ENSP00000265271:D54V	ENSP00000265271:D54V	D	+	2	0	RBM27	145578842	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.292000	0.96076	2.167000	0.68274	0.533000	0.62120	GAT		0.353	RBM27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373420.1	XM_291128		T	145598649	A	T	145598649	3	4	634	1	0	0	0	0	1	0	0	0	13140	333	12	5	167	5	RBM27	5	145598649	Missense_Mutation	SNP	A	TCGA-KL-8335-01A-11D-2310-10	83899097	145598649	35316611	31	39074										
C6orf201	404220	bcgsc.ca	37	chr6	4087901	4087901	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gtctaacctccacgagctgcTtccgaatcacctgatggaga	9	13	2	2			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr6:4087901T>C	ENST00000380175.4	+	2	791	c.26T>C	c.(25-27)cTt>cCt	p.L9P	C6orf201_ENST00000333388.5_Intron|FAM217A_ENST00000380188.2_5'Flank|C6orf201_ENST00000430835.2_Missense_Mutation_p.L9P|C6orf201_ENST00000360378.6_3'UTR	NM_001085401.2	NP_001078870.1	Q7Z4U5	CF201_HUMAN	chromosome 6 open reading frame 201	9										central_nervous_system(1)|endometrium(3)|lung(2)	6	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				CACGAGCTGCTTCCGAATCAC	0.488																																																0													212	224	221					6																	4087901		1920	4148	6068	SO:0001583	missense	404220			BC047663	CCDS43419.1	6p25.2	2012-02-21			ENSG00000185689	ENSG00000185689			21620	protein-coding gene	gene with protein product							Standard	NM_001085401		Approved	dJ1013A10.5	uc003mwa.4	Q7Z4U5	OTTHUMG00000014160	ENST00000380175.4:c.26T>C	6.37:g.4087901T>C	ENSP00000420610:p.Leu9Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLI6|Q6NXN5	Missense_Mutation	SNP	ENST00000380175.4	37	CCDS43419.1	.	.	.	.	.	.	.	.	.	.	T	13.95	2.391047	0.42410	.	.	ENSG00000185689	ENST00000541127;ENST00000380175;ENST00000451679;ENST00000436110;ENST00000430835	T;T;T;T	0.36340	1.26;1.26;1.26;1.26	4.28	4.28	0.50868	.	0.203527	0.24737	N	0.036011	T	0.34658	0.0905	L	0.29908	0.895	0.58432	D	0.999996	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.28396	-1.0045	10	0.87932	D	0	.	9.9695	0.41745	0.0:0.0:0.0:1.0	.	9;9	B4DXB2;Q7Z4U5	.;CF201_HUMAN	P	9	ENSP00000420610:L9P;ENSP00000420763:L9P;ENSP00000417981:L9P;ENSP00000396912:L9P	ENSP00000420610:L9P	L	+	2	0	C6orf201	4032900	0.994000	0.37717	0.993000	0.49108	0.189000	0.23516	3.100000	0.50275	1.927000	0.55829	0.460000	0.39030	CTT		0.488	C6orf201-001	KNOWN	NMD_exception|basic|appris_candidate|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000314019.2	NM_001085401		C	4087901	T	C	4087901	3	2	634	1	0	0	0	0	1	0	0	0	2353	1609	56	3	28	3	C6orf201	6	4087901	Missense_Mutation	SNP	T	TCGA-KL-8335-01A-11D-2310-10		4087901	167027166	32	39075										
NOTCH4	4855	hgsc.bcm.edu	37	chr6	32168996	32168996	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ctcctagcttttcttcagccCgggccccaggataggggtac	11	14	2	0	rs8192573	byFrequency	TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr6:32168996C>T	ENST00000375023.3	-	22	4175	c.4037G>A	c.(4036-4038)cGg>cAg	p.R1346Q		NM_004557.3	NP_004548.3	Q99466	NOTC4_HUMAN	notch 4	1346			R -> P (in dbSNP:rs8192573).		cell differentiation (GO:0030154)|cell fate determination (GO:0001709)|embryo development (GO:0009790)|endothelial cell morphogenesis (GO:0001886)|gene expression (GO:0010467)|hemopoiesis (GO:0030097)|mammary gland development (GO:0030879)|morphogenesis of a branching structure (GO:0001763)|negative regulation of cell differentiation (GO:0045596)|negative regulation of endothelial cell differentiation (GO:0045602)|Notch receptor processing (GO:0007220)|Notch signaling pathway (GO:0007219)|patterning of blood vessels (GO:0001569)|positive regulation of transcription of Notch receptor target (GO:0007221)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cell surface (GO:0009986)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of plasma membrane (GO:0005887)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|protein heterodimerization activity (GO:0046982)|receptor activity (GO:0004872)			NS(1)|autonomic_ganglia(1)|breast(4)|central_nervous_system(4)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(47)|ovary(5)|prostate(4)|skin(10)|upper_aerodigestive_tract(1)|urinary_tract(1)	100						TTCTTCAGCCCGGGCCCCAGG	0.617																																																0													58	67	64					6																	32168996		1508	2707	4215	SO:0001583	missense	4855				CCDS34420.1	6p21.3	2013-01-10	2010-06-24		ENSG00000204301	ENSG00000204301		"Ankyrin repeat domain containing"	7884	protein-coding gene	gene with protein product		164951	"Notch (Drosophila) homolog 4", "Notch homolog 4 (Drosophila)"	INT3		7835890	Standard	NM_004557		Approved		uc003obb.3	Q99466	OTTHUMG00000031044	ENST00000375023.3:c.4037G>A	6.37:g.32168996C>T	ENSP00000364163:p.Arg1346Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B0V183|B0V1X5|O00306|Q5SSY7|Q99458|Q99940|Q9H3S8|Q9UII9|Q9UIJ0	Missense_Mutation	SNP	ENST00000375023.3	37	CCDS34420.1	.	.	.	.	.	.	.	.	.	.	C	10.61	1.397977	0.25205	.	.	ENSG00000204301	ENST00000375023	T	0.80824	-1.42	4.37	1.09	0.20402	.	0.581966	0.13081	N	0.415340	T	0.35098	0.0920	N	0.03608	-0.345	0.80722	D	1	B;B	0.18741	0.03;0.001	B;B	0.17979	0.02;0.0	T	0.08534	-1.0717	10	0.25106	T	0.35	.	5.443	0.16519	0.0:0.4431:0.0:0.5569	.	1346;1345	Q99466;B0S882	NOTC4_HUMAN;.	Q	1346	ENSP00000364163:R1346Q	ENSP00000364163:R1346Q	R	-	2	0	NOTCH4	32276974	0.999000	0.42202	0.990000	0.47175	0.931000	0.56810	1.224000	0.32539	0.052000	0.16007	0.456000	0.33151	CGG		0.617	NOTCH4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076045.2			T	32168996	C	T	32168996	3	4	634	1	0	0	0	0	1	0	0	0	10558	652	23	1	2010	1	NOTCH4	6	32168996	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	28081095	32168996	138946071	33	39076										
TDRD6	221400	broad.mit.edu	37	chr6	46661608	46661608	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	aactacctacagcccagctgCctttagatgacaagatggat	8	11	0	3			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr6:46661608C>T	ENST00000316081.6	+	1	5743	c.5743C>T	c.(5743-5745)Cct>Tct	p.P1915S	TDRD6_ENST00000544460.1_Missense_Mutation_p.P1915S	NM_001010870.2	NP_001010870.1	O60522	TDRD6_HUMAN	tudor domain containing 6	1915					germ cell development (GO:0007281)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	chromatoid body (GO:0033391)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|P granule (GO:0043186)				NS(1)|breast(9)|central_nervous_system(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(15)|lung(25)|ovary(2)|pancreas(1)|prostate(1)|skin(5)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	80			Lung(136;0.192)			AGCCCAGCTGCCTTTAGATGA	0.458																																																0													103	100	101					6																	46661608		2203	4300	6503	SO:0001583	missense	221400			AF039442	CCDS34470.1, CCDS55017.1	6p12.3	2013-01-23			ENSG00000180113	ENSG00000180113		"Tudor domain containing"	21339	protein-coding gene	gene with protein product	"cancer/testis antigen 41.2", "spermatogenesis associated 36"	611200				9610721	Standard	NM_001010870		Approved	NY-CO-45, bA446F17.4, CT41.2, SPATA36	uc003oyj.3	O60522	OTTHUMG00000014788	ENST00000316081.6:c.5743C>T	6.37:g.46661608C>T	ENSP00000346065:p.Pro1915Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWU2|F5H5M3|Q5HYB1|Q5VTS4|Q6ZMX5	Missense_Mutation	SNP	ENST00000316081.6	37	CCDS34470.1	.	.	.	.	.	.	.	.	.	.	C	0.052	-1.246071	0.01481	.	.	ENSG00000180113	ENST00000544460;ENST00000316081	T;T	0.11169	2.8;2.8	5.57	3.23	0.37069	.	0.486738	0.19330	N	0.116913	T	0.01189	0.0039	N	0.11560	0.145	0.09310	N	1	B;B	0.10296	0.003;0.002	B;B	0.06405	0.002;0.001	T	0.47649	-0.9101	10	0.07325	T	0.83	-16.1441	7.0121	0.24867	0.0:0.1857:0.0:0.8143	.	1915;1915	F5H5M3;O60522	.;TDRD6_HUMAN	S	1915	ENSP00000443299:P1915S;ENSP00000346065:P1915S	ENSP00000346065:P1915S	P	+	1	0	TDRD6	46769567	0.000000	0.05858	0.028000	0.17463	0.007000	0.05969	0.378000	0.20569	0.947000	0.37659	-0.471000	0.05019	CCT		0.458	TDRD6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040800.1	XM_166443		T	46661608	C	T	46661608	3	4	634	1	0	0	0	0	1	0	0	0	15746	739	26	2	5745	2	TDRD6	6	46661608	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	14492612	46661608	124453459	34	39077										
AMD1	262	hgsc.bcm.edu	37	chr6	111214753	111214753	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	cgtcttgattgccagagtgcTatgttcaatgattacaattt	8	7	2	3			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr6:111214753T>C	ENST00000368885.3	+	9	1275	c.939T>C	c.(937-939)gcT>gcC	p.A313A	AMD1_ENST00000368877.5_Silent_p.A284A|AMD1_ENST00000368882.3_Silent_p.A165A|AMD1_ENST00000451850.2_Silent_p.A193A|AMD1_ENST00000368876.1_Silent_p.A244A	NM_001634.4	NP_001625.2	P17707	DCAM_HUMAN	adenosylmethionine decarboxylase 1	313					cellular nitrogen compound metabolic process (GO:0034641)|polyamine metabolic process (GO:0006595)|S-adenosylmethioninamine biosynthetic process (GO:0006557)|small molecule metabolic process (GO:0044281)|spermidine biosynthetic process (GO:0008295)|spermine biosynthetic process (GO:0006597)	cytosol (GO:0005829)	adenosylmethionine decarboxylase activity (GO:0004014)			breast(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|upper_aerodigestive_tract(2)	8		all_cancers(87;3.83e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.0522)|Epithelial(106;0.111)|all cancers(137;0.143)	S-Adenosylmethionine(DB00118)	GCCAGAGTGCTATGTTCAATG	0.368																																																0													98	89	92					6																	111214753		2203	4298	6501	SO:0001819	synonymous_variant	262			M88006	CCDS5086.1, CCDS75504.1, CCDS75505.1	6q21	2014-05-13			ENSG00000123505	ENSG00000123505	4.1.1.50		457	protein-coding gene	gene with protein product		180980	"S-adenosylmethionine decarboxylase 1"				Standard	NM_001634		Approved	SAMDC	uc003puk.1	P17707	OTTHUMG00000015369	ENST00000368885.3:c.939T>C	6.37:g.111214753T>C		Somatic		WXS	Illumina HiSeq	Phase_I	E1P5F7|Q5VXN4|Q5VXN6|Q9BWK4	Silent	SNP	ENST00000368885.3	37	CCDS5086.1																																																																																				0.368	AMD1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041816.1			C	111214753	T	C	111214753	2	2	634	1	0	0	0	0	0	0	0	1	566	1509	53	3		3	AMD1	6	111214753	Silent	SNP	T	TCGA-KL-8335-01A-11D-2310-10	64553145	111214753	59900314	35	39078										
FAM184A	79632	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr6	119345242	119345242	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ttaattttcctatagtttttCgtaaaattgcttcttgtccc	4	8	1	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr6:119345242C>T	ENST00000338891.7	-	2	1339	c.896G>A	c.(895-897)cGa>cAa	p.R299Q	FAM184A_ENST00000521531.1_Missense_Mutation_p.R299Q|RP11-351A11.1_ENST00000518570.1_RNA|FAM184A_ENST00000368475.4_Missense_Mutation_p.R179Q|FAM184A_ENST00000352896.5_Missense_Mutation_p.R179Q|FAM184A_ENST00000522284.1_Missense_Mutation_p.R179Q	NM_024581.4	NP_078857.5	Q8NB25	F184A_HUMAN	family with sequence similarity 184, member A	299						extracellular space (GO:0005615)				breast(2)|central_nervous_system(2)|endometrium(2)|kidney(5)|large_intestine(19)|lung(13)|ovary(2)|pancreas(1)|prostate(1)|skin(5)	52						TATAGTTTTTCGTAAAATTGC	0.393																																																0													113	108	109					6																	119345242		1819	4076	5895	SO:0001583	missense	79632			BC009055	CCDS43499.1, CCDS43500.1, CCDS75508.1	6q22.31	2008-08-14	2008-08-14	2008-08-14	ENSG00000111879	ENSG00000111879			20991	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 60"	C6orf60		11230166	Standard	NM_024581		Approved	FLJ13942	uc003pyj.3	Q8NB25	OTTHUMG00000015471	ENST00000338891.7:c.896G>A	6.37:g.119345242C>T	ENSP00000342604:p.Arg299Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B9DI75|F8W8D6|Q5TBS9|Q7Z323|Q96GY8|Q9H0J8|Q9H851	Missense_Mutation	SNP	ENST00000338891.7	37	CCDS43499.1	.	.	.	.	.	.	.	.	.	.	C	0.155	-1.087649	0.01873	.	.	ENSG00000111879	ENST00000338891;ENST00000352896;ENST00000368475;ENST00000521531;ENST00000522284	T;T;T;T;T	0.00309	8.16;8.16;8.16;8.16;8.16	5.04	5.04	0.67666	.	0.153338	0.46145	D	0.000307	T	0.00039	0.0001	N	0.05574	-0.02	0.44595	D	0.997567	B;B;B	0.33120	0.341;0.196;0.398	B;B;B	0.25140	0.043;0.031;0.058	T	0.05451	-1.0884	10	0.02654	T	1	-4.3682	12.1631	0.54115	0.0:0.9206:0.0:0.0794	.	299;179;299	Q8NB25-2;F8W8D6;Q8NB25	.;.;F184A_HUMAN	Q	299;179;179;299;179	ENSP00000342604:R299Q;ENSP00000326608:R179Q;ENSP00000357460:R179Q;ENSP00000430442:R299Q;ENSP00000429826:R179Q	ENSP00000342604:R299Q	R	-	2	0	FAM184A	119386941	1.000000	0.71417	1.000000	0.80357	0.053000	0.15095	5.303000	0.65738	2.506000	0.84524	0.460000	0.39030	CGA		0.393	FAM184A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042009.3	NM_024581		T	119345242	C	T	119345242	3	4	634	1	0	0	0	0	1	0	0	0	5515	884	31	1	2594	1	FAM184A	6	119345242	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	8130489	119345242	51769825	36	39079										
ABCB5	340273	broad.mit.edu;bcgsc.ca	37	chr7	20698214	20698214	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	aattgctcgtgccttagttcGaaaccccaagattctgattt	7	10	1	2			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr7:20698214G>A	ENST00000404938.2	+	14	2274	c.1622G>A	c.(1621-1623)cGa>cAa	p.R541Q	ABCB5_ENST00000258738.6_Missense_Mutation_p.R96Q|ABCB5_ENST00000406935.1_Missense_Mutation_p.R96Q|ABCB5_ENST00000443026.2_Missense_Mutation_p.R96Q	NM_001163941.1	NP_001157413.1	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP), member 5	541	ABC transporter 1. {ECO:0000255|PROSITE- ProRule:PRU00434}.				antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent (GO:0002485)|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent (GO:0002489)|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent (GO:0002481)|cell differentiation (GO:0030154)|compound eye corneal lens development (GO:0048058)|positive regulation of antigen processing and presentation of peptide antigen via MHC class I (GO:0002591)|regulation of membrane potential (GO:0042391)|transmembrane transport (GO:0055085)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|efflux transmembrane transporter activity (GO:0015562)			breast(2)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(11)|liver(1)|lung(37)|ovary(1)|pancreas(1)|prostate(1)|skin(10)|upper_aerodigestive_tract(1)	77						GCCTTAGTTCGAAACCCCAAG	0.438																																																0													129	112	118					7																	20698214		2203	4300	6503	SO:0001583	missense	340273			U66692	CCDS5371.1, CCDS55090.1, CCDS55091.1, CCDS55092.1	7p14	2012-03-14			ENSG00000004846	ENSG00000004846		"ATP binding cassette transporters / subfamily B"	46	protein-coding gene	gene with protein product	"P-glycoprotein ABCB5", "ATP-binding cassette protein"	611785				8894702, 12960149	Standard	NM_001163942		Approved	EST422562, ABCB5beta, ABCB5alpha	uc010kuh.3	Q2M3G0	OTTHUMG00000094789	ENST00000404938.2:c.1622G>A	7.37:g.20698214G>A	ENSP00000384881:p.Arg541Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A4D131|A7BKA4|B5MD19|B7WPL1|F8QQP8|F8QQP9|J3KQ04|Q2M3I5|Q5I5Q7|Q5I5Q8|Q6KG50|Q6XFQ5|Q8IXA1	Missense_Mutation	SNP	ENST00000404938.2	37	CCDS55090.1	.	.	.	.	.	.	.	.	.	.	G	26.8	4.774322	0.90108	.	.	ENSG00000004846	ENST00000404938;ENST00000443026;ENST00000406935;ENST00000258738	D;D;D;D	0.93763	-1.87;-3.28;-3.28;-1.87	5.77	4.67	0.58626	ATPase, AAA+ type, core (1);ABC transporter-like (2);	0.142496	0.30510	N	0.009471	D	0.95655	0.8587	M	0.68728	2.09	0.37951	D	0.932664	D;D;D;D	0.89917	0.996;1.0;0.998;1.0	P;D;D;D	0.91635	0.784;0.999;0.991;0.977	D	0.96024	0.9011	10	0.87932	D	0	.	12.5046	0.55973	0.1116:0.0:0.8884:0.0	.	96;541;96;96	B5MD19;A7BKA4;Q2M3G0;Q2M3G0-2	.;.;ABCB5_HUMAN;.	Q	541;96;96;96	ENSP00000384881:R541Q;ENSP00000406730:R96Q;ENSP00000383899:R96Q;ENSP00000258738:R96Q	ENSP00000258738:R96Q	R	+	2	0	ABCB5	20664739	0.995000	0.38212	1.000000	0.80357	0.975000	0.68041	3.264000	0.51553	2.890000	0.99128	0.650000	0.86243	CGA		0.438	ABCB5-004	PUTATIVE	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000326736.2	NM_178559		A	20698214	G	A	20698214	3	1	634	1	0	0	0	0	1	0	0	0	44	1058	37	1	1672	1	ABCB5	7	20698214	Missense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10		20698214	138440449	37	39080										
DPY19L1	23333	mdanderson.org	37	chr7	34987258	34987258	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	atacctttctaacaatagcaAcaaacactacaagaacaact	2	11	1	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr7:34987258A>G	ENST00000310974.4	-	15	1403	c.1259T>C	c.(1258-1260)gTt>gCt	p.V420A		NM_015283.1	NP_056098.1	Q2PZI1	D19L1_HUMAN	dpy-19-like 1 (C. elegans)	420						integral component of membrane (GO:0016021)|membrane (GO:0016020)	transferase activity, transferring glycosyl groups (GO:0016757)			endometrium(3)|kidney(5)|large_intestine(8)|lung(8)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(4)	31						AACAATAGCAACAAACACTAC	0.318																																																0													69	73	72					7																	34987258		2164	4285	6449	SO:0001583	missense	23333			AB020684	CCDS43567.1	7p14.3-p14.2	2006-04-26			ENSG00000173852	ENSG00000173852			22205	protein-coding gene	gene with protein product		613892					Standard	NM_015283		Approved	KIAA0877	uc003tem.4	Q2PZI1	OTTHUMG00000154888	ENST00000310974.4:c.1259T>C	7.37:g.34987258A>G	ENSP00000308695:p.Val420Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O94954|Q4G151	Missense_Mutation	SNP	ENST00000310974.4	37	CCDS43567.1	.	.	.	.	.	.	.	.	.	.	A	7.168	0.587071	0.13812	.	.	ENSG00000173852	ENST00000310974;ENST00000446375	T;T	0.57107	0.42;0.42	5.28	1.1	0.20463	.	0.811526	0.11732	N	0.534848	T	0.18215	0.0437	N	0.01352	-0.895	0.21861	N	0.9995	B	0.02656	0.0	B	0.01281	0.0	T	0.27905	-1.0060	10	0.09843	T	0.71	-2.32	5.0712	0.14608	0.4821:0.1582:0.3597:0.0	.	420	Q2PZI1	D19L1_HUMAN	A	420;190	ENSP00000308695:V420A;ENSP00000400510:V190A	ENSP00000308695:V420A	V	-	2	0	DPY19L1	34953783	0.008000	0.16893	0.534000	0.28014	0.963000	0.63663	1.067000	0.30616	0.376000	0.24707	0.383000	0.25322	GTT		0.318	DPY19L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337506.1			G	34987258	A	G	34987258	3	3	634	1	0	0	0	0	1	0	0	0	4742	43	2	3	800	3	DPY19L1	7	34987258	Missense_Mutation	SNP	A	TCGA-KL-8335-01A-11D-2310-10	14289044	34987258	124151405	38	39081										
CALD1	800	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	134617794	134617794	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	acactcaagtggaaggggatGatgaggccgcattcctggag	15	8	1	2	rs542527726		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr7:134617794G>T	ENST00000361675.2	+	5	503	c.274G>T	c.(274-276)Gat>Tat	p.D92Y	CALD1_ENST00000543443.1_Missense_Mutation_p.D97Y|CALD1_ENST00000361388.2_Missense_Mutation_p.D92Y|CALD1_ENST00000422748.1_Missense_Mutation_p.D92Y|CALD1_ENST00000393118.2_Missense_Mutation_p.D86Y|CALD1_ENST00000495522.1_Missense_Mutation_p.D86Y|CALD1_ENST00000417172.1_Missense_Mutation_p.D92Y|CALD1_ENST00000424922.1_Missense_Mutation_p.D86Y|CALD1_ENST00000361901.2_Missense_Mutation_p.D92Y			Q05682	CALD1_HUMAN	caldesmon 1	92	Myosin and calmodulin-binding. {ECO:0000250}.				cellular component movement (GO:0006928)|muscle contraction (GO:0006936)	actin cap (GO:0030478)|actin cytoskeleton (GO:0015629)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|plasma membrane (GO:0005886)	actin binding (GO:0003779)|calmodulin binding (GO:0005516)|tropomyosin binding (GO:0005523)			NS(1)|autonomic_ganglia(1)|breast(4)|central_nervous_system(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(15)|lung(10)	43						GGAAGGGGATGATGAGGCCGC	0.542																																																0													60	51	54					7																	134617794		2203	4300	6503	SO:0001583	missense	800			M64110	CCDS5834.1, CCDS5835.1, CCDS5836.1, CCDS47716.1, CCDS47717.1, CCDS5836.2	7q33	2007-04-23			ENSG00000122786	ENSG00000122786			1441	protein-coding gene	gene with protein product		114213				1885618	Standard	NM_004342		Approved	CDM, H-CAD, L-CAD	uc003vrz.3	Q05682	OTTHUMG00000155407	ENST00000361675.2:c.274G>T	7.37:g.134617794G>T	ENSP00000354826:p.Asp92Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0X1|Q13978|Q13979|Q14741|Q14742|Q9UD91	Missense_Mutation	SNP	ENST00000361675.2	37	CCDS5835.1	.	.	.	.	.	.	.	.	.	.	G	18.66	3.671451	0.67814	.	.	ENSG00000122786	ENST00000417172;ENST00000436461;ENST00000361388;ENST00000422748;ENST00000361675;ENST00000361901;ENST00000445569;ENST00000393118;ENST00000424922;ENST00000495522;ENST00000543443	T;T;T;T;T;T;T;T;T;T;T	0.56941	0.43;0.43;0.43;0.43;0.43;0.43;0.43;0.43;0.43;0.43;0.43	5.38	5.38	0.77491	.	0.275906	0.26237	N	0.025538	T	0.71484	0.3345	M	0.73962	2.25	0.34097	D	0.661391	D;D;D;D;D;D;D;D	0.64830	0.992;0.983;0.979;0.992;0.979;0.979;0.993;0.994	P;P;P;P;P;P;D;D	0.64321	0.873;0.88;0.81;0.873;0.717;0.81;0.924;0.922	T	0.80944	-0.1156	10	0.72032	D	0.01	-14.924	17.3065	0.87196	0.0:0.0:1.0:0.0	.	97;92;86;86;92;92;92;92	F5H1Z9;A8K0X1;Q05682-5;Q05682-3;Q05682-4;Q05682-2;Q05682;Q9NYG1	.;.;.;.;.;.;CALD1_HUMAN;.	Y	92;92;92;92;92;92;106;86;86;86;97	ENSP00000398826:D92Y;ENSP00000411476:D92Y;ENSP00000355000:D92Y;ENSP00000395710:D92Y;ENSP00000354826:D92Y;ENSP00000354513:D92Y;ENSP00000390926:D106Y;ENSP00000376826:D86Y;ENSP00000393621:D86Y;ENSP00000419673:D86Y;ENSP00000445641:D97Y	ENSP00000355000:D92Y	D	+	1	0	CALD1	134268334	1.000000	0.71417	0.589000	0.28718	0.891000	0.51852	8.514000	0.90545	2.497000	0.84241	0.557000	0.71058	GAT		0.542	CALD1-005	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000339939.1	NM_033138		T	134617794	G	T	134617794	3	4	634	1	0	0	0	0	1	0	0	0	2583	1290	45	4	341	4	CALD1	7	134617794	Missense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10	99630536	134617794	24520869	39	39082										
EPHA1	2041	broad.mit.edu;hgsc.bcm.edu	37	chr7	143095693	143095693	+	Splice_Site	DEL	C	C	-													0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	cagcccctctcagcctctcaCctgcatgccccatgctgatg							TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr7:143095693delC	ENST00000275815.3	-	6	1423		c.e6+1			NM_005232.4	NP_005223.4	P21709	EPHA1_HUMAN	EPH receptor A1						activation of Rho GTPase activity (GO:0032862)|angiogenesis (GO:0001525)|cell surface receptor signaling pathway (GO:0007166)|negative regulation of cell migration (GO:0030336)|negative regulation of protein kinase activity (GO:0006469)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of angiogenesis (GO:0045766)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cell-matrix adhesion (GO:0001954)|positive regulation of stress fiber assembly (GO:0051496)|protein autophosphorylation (GO:0046777)|regulation of Rac GTPase activity (GO:0032314)|substrate adhesion-dependent cell spreading (GO:0034446)	integral component of plasma membrane (GO:0005887)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|transmembrane-ephrin receptor activity (GO:0005005)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(11)|lung(21)|ovary(4)|skin(1)|stomach(1)|urinary_tract(3)	51	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				CAGCCTCTCACCTGCATGCCC	0.547																																																0													45	43	44					7																	143095693		2203	4300	6503	SO:0001630	splice_region_variant	2041			M18391	CCDS5884.1	7q32-q36	2013-02-11	2004-10-28		ENSG00000146904	ENSG00000146904	2.7.10.1	"EPH receptors", "Sterile alpha motif (SAM) domain containing", "Fibronectin type III domain containing"	3385	protein-coding gene	gene with protein product		179610	"EphA1"	EPHT, EPHT1		9267020	Standard	NM_005232		Approved	EPH	uc003wcz.3	P21709	OTTHUMG00000155894	ENST00000275815.3:c.1336+1G>-	7.37:g.143095693delC		Somatic		WXS	Illumina HiSeq	Phase_I	A1L3V3|B5A966|B5A967|Q15405	Splice_Site	DEL	ENST00000275815.3	37	CCDS5884.1																																																																																				0.547	EPHA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342154.1		Intron	-	143095693	C	-	143095693	8	5	634	1	0	1	0	1	0	0	1	0	5167	521	18	0	1645	0	EPHA1	7	143095693	Splice_Site	DEL	C	TCGA-KL-8335-01A-11D-2310-10	8477899	143095693	16042970	40	39083	328	2								
EPHA1	2041	bcgsc.ca	37	chr7	143095694	143095694	+	Splice_Site	DEL	C	C	-													0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	agcccctctcagcctctcacCtgcatgccccatgctgatgc							TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr7:143095694delC	ENST00000275815.3	-	6	1422	c.1336delG	c.(1336-1338)gag>ag	p.E446fs		NM_005232.4	NP_005223.4	P21709	EPHA1_HUMAN	EPH receptor A1	446					activation of Rho GTPase activity (GO:0032862)|angiogenesis (GO:0001525)|cell surface receptor signaling pathway (GO:0007166)|negative regulation of cell migration (GO:0030336)|negative regulation of protein kinase activity (GO:0006469)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of angiogenesis (GO:0045766)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cell-matrix adhesion (GO:0001954)|positive regulation of stress fiber assembly (GO:0051496)|protein autophosphorylation (GO:0046777)|regulation of Rac GTPase activity (GO:0032314)|substrate adhesion-dependent cell spreading (GO:0034446)	integral component of plasma membrane (GO:0005887)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|transmembrane-ephrin receptor activity (GO:0005005)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(11)|lung(21)|ovary(4)|skin(1)|stomach(1)|urinary_tract(3)	51	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				AGCCTCTCACCTGCATGCCCC	0.547																																																0													46	44	44					7																	143095694		2203	4300	6503	SO:0001630	splice_region_variant	2041			M18391	CCDS5884.1	7q32-q36	2013-02-11	2004-10-28		ENSG00000146904	ENSG00000146904	2.7.10.1	"EPH receptors", "Sterile alpha motif (SAM) domain containing", "Fibronectin type III domain containing"	3385	protein-coding gene	gene with protein product		179610	"EphA1"	EPHT, EPHT1		9267020	Standard	NM_005232		Approved	EPH	uc003wcz.3	P21709	OTTHUMG00000155894	ENST00000275815.3:c.1336+1G>-	7.37:g.143095694delC		Somatic		WXS	Illumina HiSeq	Phase_I	A1L3V3|B5A966|B5A967|Q15405	Frame_Shift_Del	DEL	ENST00000275815.3	37	CCDS5884.1																																																																																				0.547	EPHA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342154.1		Frame_Shift_Del	-	143095694	C	-	143095694	8	5	634	1	0	1	0	1	0	0	1	0	5167	695	24	0	1646	0	EPHA1	7	143095694	Splice_Site	DEL	C	TCGA-KL-8335-01A-11D-2310-10	1	143095694	16042969	41	39084	328	2								
CLDN23	137075	broad.mit.edu	37	chr8	8560233	8560234	+	Frame_Shift_Ins	INS	-	-	T													0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gcgctgctggcaggacgagcINSccaacttcgtgctggcaggg							TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr8:8560233_8560234insT	ENST00000519106.1	+	1	786_787	c.325_326insT	c.(325-327)cccfs	p.P109fs		NM_194284.2	NP_919260.2	Q96B33	CLD23_HUMAN	claudin 23	109					calcium-independent cell-cell adhesion (GO:0016338)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|tight junction assembly (GO:0070830)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	identical protein binding (GO:0042802)|structural molecule activity (GO:0005198)			endometrium(2)	2		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.071)|READ - Rectum adenocarcinoma(644;0.238)		GCAGGACGAGCCCAACTTCGTG	0.703																																																0																																										SO:0001589	frameshift_variant	137075			AK123547	CCDS55195.1	8p23.1	2006-04-12				ENSG00000253958		"Claudins"	17591	protein-coding gene	gene with protein product		609203				12736707	Standard	NM_194284		Approved	CLDNL	uc003wsi.3	Q96B33		Exception_encountered	8.37:g.8560233_8560234insT	ENSP00000428780:p.Pro109fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q08AJ3	Frame_Shift_Ins	INS	ENST00000519106.1	37	CCDS55195.1																																																																																				0.703	CLDN23-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374721.1	NM_194284		T	8560234	-	T	8560233	7	5	634	1	0	1	1	0	0	0	0	0	3486	739	26	0	327	0	CLDN23	8	8560233	Frame_Shift_Ins	INS	-	TCGA-KL-8335-01A-11D-2310-10		8560233	137803789	42	39085										
PSD3	23362	broad.mit.edu	37	chr8	18725567	18725567	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tcccccttaacgtgctcctcTtgttcgctgatcctggaaag	8	14	1	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr8:18725567T>C	ENST00000327040.8	-	4	1353	c.1251A>G	c.(1249-1251)caA>caG	p.Q417Q	PSD3_ENST00000440756.2_Silent_p.Q417Q|PSD3_ENST00000523619.1_Silent_p.Q352Q	NM_015310.3	NP_056125.3	Q9NYI0	PSD3_HUMAN	pleckstrin and Sec7 domain containing 3	417					neuron differentiation (GO:0030182)|positive regulation of GTPase activity (GO:0043547)|regulation of ARF protein signal transduction (GO:0032012)	cell junction (GO:0030054)|postsynaptic membrane (GO:0045211)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(8)|ovary(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	20				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		CGTGCTCCTCTTGTTCGCTGA	0.423																																																0													96	97	97					8																	18725567		1983	4154	6137	SO:0001819	synonymous_variant	23362			AF243495	CCDS34854.1, CCDS43720.1	8p21.3	2013-01-10			ENSG00000156011	ENSG00000156011		"Pleckstrin homology (PH) domain containing"	19093	protein-coding gene	gene with protein product		614440					Standard	NM_206909		Approved	KIAA0942, HCA67, EFA6R, DKFZp761K1423	uc003wza.3	Q9NYI0	OTTHUMG00000163711	ENST00000327040.8:c.1251A>G	8.37:g.18725567T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NFQ4|E9KL50|Q6B003|Q9Y2F1	Silent	SNP	ENST00000327040.8	37	CCDS43720.1																																																																																				0.423	PSD3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000374867.1	NM_015310		C	18725567	T	C	18725567	2	2	634	1	0	0	0	0	0	0	0	1	12658	1606	56	3		3	PSD3	8	18725567	Silent	SNP	T	TCGA-KL-8335-01A-11D-2310-10	10165334	18725567	127638455	43	39086										
FBXO16	157574	broad.mit.edu	37	chr8	28309794	28309794	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tctccatggggtcacggttgTctaggtaattaaaacgaatg	11	7	3	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr8:28309794T>C	ENST00000380254.2	-	6	855	c.707A>G	c.(706-708)gAc>gGc	p.D236G	RP11-181B11.2_ENST00000523935.1_RNA|FBXO16_ENST00000346498.2_Missense_Mutation_p.D224G|FBXO16_ENST00000518734.1_Missense_Mutation_p.D224G|FBXO16_ENST00000517436.1_5'UTR|RP11-181B11.2_ENST00000518819.1_RNA	NM_001258211.1|NM_172366.3	NP_001245140.1|NP_758954.1	Q8IX29	FBX16_HUMAN	F-box protein 16	236										large_intestine(2)|ovary(1)	3		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.121)|Kidney(114;0.144)|Colorectal(74;0.249)		GTCACGGTTGTCTAGGTAATT	0.413																																																0													92	91	91					8																	28309794		2203	4300	6503	SO:0001583	missense	157574			AF453435	CCDS6068.1, CCDS59099.1	8p21.1	2008-02-05	2004-06-15		ENSG00000214050	ENSG00000214050		"F-boxes /  "other""	13618	protein-coding gene	gene with protein product		608519	"F-box only protein 16"			12243353	Standard	NM_172366		Approved	FBX16	uc003xgu.4	Q8IX29	OTTHUMG00000102147	ENST00000380254.2:c.707A>G	8.37:g.28309794T>C	ENSP00000369604:p.Asp236Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q3T1B2|Q3T1B3|Q3T1B4	Missense_Mutation	SNP	ENST00000380254.2	37	CCDS6068.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	24.2|24.2	4.510595|4.510595	0.85389|0.85389	.|.	.|.	ENSG00000214050|ENSG00000214050	ENST00000380254;ENST00000346498;ENST00000518734;ENST00000517673|ENST00000518248	T;T;T;T|.	0.59502|.	1.75;1.64;1.72;0.26|.	5.53|5.53	5.53|5.53	0.82687|0.82687	.|.	0.336197|.	0.25478|.	U|.	0.030394|.	T|T	0.72985|0.72985	0.3529|0.3529	M|M	0.70275|0.70275	2.135|2.135	0.80722|0.80722	D|D	1|1	D;D;D|.	0.76494|.	0.995;0.999;0.998|.	P;P;P|.	0.57468|.	0.728;0.821;0.821|.	T|T	0.73313|0.73313	-0.4022|-0.4022	10|5	0.72032|.	D|.	0.01|.	-32.5255|-32.5255	14.4817|14.4817	0.67587|0.67587	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	224;224;236|.	Q3T1B3;Q3T1B2;Q8IX29|.	.;.;FBX16_HUMAN|.	G|A	236;224;224;181|81	ENSP00000369604:D236G;ENSP00000341416:D224G;ENSP00000429687:D224G;ENSP00000429390:D181G|.	ENSP00000341416:D224G|.	D|T	-|-	2|1	0|0	FBXO16|FBXO16	28365713|28365713	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.801000|0.801000	0.45260|0.45260	6.794000|6.794000	0.75135|0.75135	2.098000|2.098000	0.63641|0.63641	0.443000|0.443000	0.29094|0.29094	GAC|ACA		0.413	FBXO16-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000219988.2	NM_172366		C	28309794	T	C	28309794	3	2	634	1	0	0	0	0	1	0	0	0	5736	1667	58	3	187	3	FBXO16	8	28309794	Missense_Mutation	SNP	T	TCGA-KL-8335-01A-11D-2310-10	9584227	28309794	118054228	44	39087										
OPRK1	4986	mdanderson.org;bcgsc.ca	37	chr8	54141872	54141872	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	actagtcatactggtttattCatcccatcgatgtccctcag	6	12	3	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr8:54141872C>A	ENST00000265572.3	-	4	1425	c.1128G>T	c.(1126-1128)atG>atT	p.M376I	RP11-162D9.3_ENST00000524425.1_RNA|OPRK1_ENST00000520287.1_Missense_Mutation_p.M376I|OPRK1_ENST00000524278.1_Missense_Mutation_p.M287I	NM_000912.3	NP_000903.2	P41145	OPRK_HUMAN	opioid receptor, kappa 1	376					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|adenylate cyclase-inhibiting opioid receptor signaling pathway (GO:0031635)|behavior (GO:0007610)|defense response to virus (GO:0051607)|immune response (GO:0006955)|locomotory behavior (GO:0007626)|opioid receptor signaling pathway (GO:0038003)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|regulation of saliva secretion (GO:0046877)|sensory perception (GO:0007600)|sensory perception of pain (GO:0019233)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	dynorphin receptor activity (GO:0038048)|opioid receptor activity (GO:0004985)			NS(2)|breast(3)|endometrium(3)|kidney(12)|large_intestine(7)|lung(8)|ovary(1)|prostate(1)|skin(5)|urinary_tract(1)	43		all_epithelial(80;0.066)|Lung NSC(129;0.0804)|all_lung(136;0.136)			Alvimopan(DB06274)|Amitriptyline(DB00321)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dextromethorphan(DB00514)|Dextropropoxyphene(DB00647)|Dezocine(DB01209)|Fentanyl(DB00813)|Heroin(DB01452)|Hydromorphone(DB00327)|Ketamine(DB01221)|Ketobemidone(DB06738)|Levorphanol(DB00854)|Loperamide(DB00836)|Menthol(DB00825)|Methylnaltrexone(DB06800)|Mianserin(DB06148)|Mirtazapine(DB00370)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pentazocine(DB00652)|Pethidine(DB00454)|Progesterone(DB00396)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tapentadol(DB06204)|Tramadol(DB00193)	CTGGTTTATTCATCCCATCGA	0.468																																																0													120	104	110					8																	54141872		2203	4300	6503	SO:0001583	missense	4986				CCDS6152.1, CCDS64895.1	8q11.2	2014-05-21			ENSG00000082556	ENSG00000082556		"GPCR / Class A : Opioid receptors"	8154	protein-coding gene	gene with protein product		165196				8188308	Standard	XM_005251252		Approved	KOR, OPRK	uc003xri.1	P41145	OTTHUMG00000164276	ENST00000265572.3:c.1128G>T	8.37:g.54141872C>A	ENSP00000265572:p.Met376Ile	Somatic		WXS	Illumina HiSeq	Phase_I	E5RHC9|Q499G4	Missense_Mutation	SNP	ENST00000265572.3	37	CCDS6152.1	.	.	.	.	.	.	.	.	.	.	C	2.914	-0.224603	0.06061	.	.	ENSG00000082556	ENST00000265572;ENST00000524278;ENST00000520287;ENST00000396798	T;T;T	0.70631	-0.1;-0.5;-0.1	5.8	-1.93	0.07594	.	1.289330	0.04551	N	0.389855	T	0.47948	0.1473	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.27773	-1.0064	10	0.32370	T	0.25	.	6.3688	0.21469	0.0:0.3619:0.3871:0.2511	.	376	P41145	OPRK_HUMAN	I	376;287;376;362	ENSP00000265572:M376I;ENSP00000430923:M287I;ENSP00000429706:M376I	ENSP00000265572:M376I	M	-	3	0	OPRK1	54304425	0.019000	0.18553	0.063000	0.19743	0.003000	0.03518	-0.126000	0.10563	-0.320000	0.08640	-0.810000	0.03169	ATG		0.468	OPRK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378048.1			A	54141872	C	A	54141872	3	1	634	1	0	0	0	0	1	0	0	0	10892	826	29	4	18	4	OPRK1	8	54141872	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	25832078	54141872	92222150	45	39088										
EPPK1	83481	ucsc.edu;bcgsc.ca	37	chr8	144944498	144944498	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ggctctctgggctgtgagggTccatgatggttccggtggcc	17	10	1	2			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr8:144944498T>C	ENST00000525985.1	-	2	2995	c.2924A>G	c.(2923-2925)gAc>gGc	p.D975G				P58107	EPIPL_HUMAN	epiplakin 1	975						cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)	poly(A) RNA binding (GO:0044822)			NS(1)|autonomic_ganglia(1)|breast(1)|central_nervous_system(5)|cervix(1)|endometrium(8)|kidney(4)|large_intestine(2)|lung(30)|ovary(2)|pancreas(1)|prostate(10)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	71	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)			GCTGTGAGGGTCCATGATGGT	0.692																																																0													7	9	8					8																	144944498		1939	4118	6057	SO:0001583	missense	83481			AB051895	CCDS75800.1	8q24.3	2014-09-17				ENSG00000261150			15577	protein-coding gene	gene with protein product	"epidermal autoantigen 450K"	607553				11278896, 15671067	Standard	NM_031308		Approved	EPIPL1	uc003zaa.1	P58107		ENST00000525985.1:c.2924A>G	8.37:g.144944498T>C	ENSP00000436337:p.Asp975Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q76E58|Q9NSU9	Missense_Mutation	SNP	ENST00000525985.1	37		.	.	.	.	.	.	.	.	.	.	T	15.97	2.989058	0.53934	.	.	ENSG00000227184	ENST00000525985	D	0.83837	-1.77	4.7	3.55	0.40652	.	.	.	.	.	D	0.85128	0.5626	M	0.88979	2.995	0.34717	D	0.728397	P	0.34757	0.467	B	0.39119	0.291	D	0.87037	0.2138	9	0.52906	T	0.07	.	8.3523	0.32310	0.0:0.0944:0.0:0.9056	.	975	E9PPU0	.	G	975	ENSP00000436337:D975G	ENSP00000436337:D975G	D	-	2	0	EPPK1	145016486	1.000000	0.71417	0.776000	0.31678	0.097000	0.18754	7.725000	0.84808	0.830000	0.34757	0.533000	0.62120	GAC		0.692	EPPK1-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000382675.1	NM_031308		C	144944498	T	C	144944498	3	2	634	1	0	0	0	0	1	0	0	0	5192	1667	58	3	4342	3	EPPK1	8	144944498	Missense_Mutation	SNP	T	TCGA-KL-8335-01A-11D-2310-10	90802626	144944498	1419524	46	39089										
UHRF2	115426	broad.mit.edu	37	chr9	6460652	6460652	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ccattttgaaatggaatgaaCtaaatgttggtgatgtggta	11	3	0	3			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr9:6460652C>T	ENST00000276893.5	+	4	892	c.724C>T	c.(724-726)Cta>Tta	p.L242L		NM_152896.2	NP_690856.1	Q96PU4	UHRF2_HUMAN	ubiquitin-like with PHD and ring finger domains 2, E3 ubiquitin protein ligase	242	Interaction with PCNP.|Required for interaction with histone H3. {ECO:0000250}.				cell cycle (GO:0007049)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|positive regulation of cell cycle arrest (GO:0071158)|protein autoubiquitination (GO:0051865)|protein ubiquitination (GO:0016567)|regulation of cell cycle (GO:0051726)|ubiquitin-dependent protein catabolic process (GO:0006511)	nuclear heterochromatin (GO:0005720)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone binding (GO:0042393)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			cervix(2)|endometrium(2)|kidney(3)|large_intestine(4)|lung(5)|ovary(1)	17		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0392)|Lung(218;0.129)		ATGGAATGAACTAAATGTTGG	0.378																																																0													117	118	118					9																	6460652		2203	4300	6503	SO:0001819	synonymous_variant	115426			AF274049	CCDS6469.1	9p24.1	2013-01-28	2012-02-23		ENSG00000147854	ENSG00000147854		"RING-type (C3HC4) zinc fingers", "Zinc fingers, PHD-type"	12557	protein-coding gene	gene with protein product	"Np95-like ring finger protein"	615211	"ubiquitin-like with PHD and ring finger domains 2"			12176013	Standard	NM_152896		Approved	RNF107, NIRF, URF2, MGC33463	uc003zjy.3	Q96PU4	OTTHUMG00000019521	ENST00000276893.5:c.724C>T	9.37:g.6460652C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VYR1|Q5VYR3|Q659C8|Q8TAG7	Silent	SNP	ENST00000276893.5	37	CCDS6469.1																																																																																				0.378	UHRF2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051665.3	NM_152306		T	6460652	C	T	6460652	2	4	634	1	0	0	0	0	0	0	0	1	16982	564	20	2		2	UHRF2	9	6460652	Silent	SNP	C	TCGA-KL-8335-01A-11D-2310-10		6460652	134752779	47	39090										
PRSS3	5646	mdanderson.org	37	chr9	33796801	33796801	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gcagctcactgctacaagacGtaagtgtggggcccctgact	12	12	1	2	rs143707562		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr9:33796801G>A	ENST00000361005.5	+	2	371		c.e2+1		PRSS3_ENST00000342836.4_Splice_Site|RP11-133O22.6_ENST00000454429.2_RNA|PRSS3_ENST00000379405.3_Splice_Site|PRSS3_ENST00000429677.3_Splice_Site	NM_007343.3	NP_031369	P35030	TRY3_HUMAN	protease, serine, 3						cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|endothelial cell migration (GO:0043542)|innate immune response (GO:0045087)|proteolysis (GO:0006508)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)|zymogen activation (GO:0031638)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			large_intestine(3)|lung(4)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	13			LUSC - Lung squamous cell carcinoma(29;0.0176)			GCTACAAGACGTAAGTGTGGG	0.597													G|||	1	0.000199681	0.0	0.0	5008	,	,		18879	0.001		0.0	False		,,,				2504	0.0															0													70	70	70					9																	33796801		2203	4300	6503	SO:0001630	splice_region_variant	5646				CCDS6545.1, CCDS47958.1, CCDS56570.1, CCDS56571.1	9p13	2010-05-07	2008-03-11		ENSG00000010438	ENSG00000010438	3.4.21.4	"Serine peptidases / Serine peptidases"	9486	protein-coding gene	gene with protein product	"mesotrypsin"	613578	"protease, serine, 4 (trypsin 4, brain)", "protease, serine, 3 (mesotrypsin)"	PRSS4		2326201, 8294000	Standard	NM_002771		Approved	TRY3, TRY4	uc003ztj.4	P35030	OTTHUMG00000019798	ENST00000361005.5:c.371+1G>A	9.37:g.33796801G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8CED1|A8CED3|A9Z1Y4|E7ES07|F8W7P3|P15951|Q15665|Q5VXV0|Q6ISJ4|Q9UQV3	Splice_Site	SNP	ENST00000361005.5	37	CCDS47958.1	.	.	.	.	.	.	.	.	.	.	G	7.509	0.654290	0.14580	.	.	ENSG00000010438	ENST00000361005;ENST00000457896;ENST00000342836;ENST00000429677;ENST00000379405	.	.	.	3.21	2.29	0.28610	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	8.1922	0.31374	0.1286:0.0:0.8714:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	PRSS3	33786801	1.000000	0.71417	0.775000	0.31657	0.032000	0.12392	8.277000	0.89896	0.482000	0.27582	0.306000	0.20318	.		0.597	PRSS3-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000052121.1	NM_002771	Intron	A	33796801	G	A	33796801	5	1	634	1	0	0	0	0	0	0	1	0	12632	1159	40	1	422	1	PRSS3	9	33796801	Splice_Site	SNP	G	TCGA-KL-8335-01A-11D-2310-10	27336149	33796801	107416630	48	39091										
ANXA1	301	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	75783993	75783993	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tgatcaggattatggtttccCgttctgaaattgacatgaat	9	6	2	4			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr9:75783993C>T	ENST00000376911.1	+	11	1789	c.907C>T	c.(907-909)Cgt>Tgt	p.R303C	ANXA1_ENST00000257497.6_Missense_Mutation_p.R303C|ANXA1_ENST00000491192.1_3'UTR			P04083	ANXA1_HUMAN	annexin A1	303					alpha-beta T cell differentiation (GO:0046632)|arachidonic acid secretion (GO:0050482)|cell surface receptor signaling pathway (GO:0007166)|cellular component movement (GO:0006928)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to hydrogen peroxide (GO:0070301)|endocrine pancreas development (GO:0031018)|estrous cycle phase (GO:0060206)|gliogenesis (GO:0042063)|hepatocyte differentiation (GO:0070365)|inflammatory response (GO:0006954)|insulin secretion (GO:0030073)|keratinocyte differentiation (GO:0030216)|negative regulation of acute inflammatory response (GO:0002674)|negative regulation of apoptotic process (GO:0043066)|negative regulation of catalytic activity (GO:0043086)|negative regulation of interleukin-8 secretion (GO:2000483)|neutrophil clearance (GO:0097350)|neutrophil homeostasis (GO:0001780)|peptide cross-linking (GO:0018149)|positive regulation of G1/S transition of mitotic cell cycle (GO:1900087)|positive regulation of neutrophil apoptotic process (GO:0033031)|positive regulation of prostaglandin biosynthetic process (GO:0031394)|positive regulation of vesicle fusion (GO:0031340)|regulation of cell proliferation (GO:0042127)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to interleukin-1 (GO:0070555)|response to peptide hormone (GO:0043434)|response to X-ray (GO:0010165)|signal transduction (GO:0007165)	cell surface (GO:0009986)|cilium (GO:0005929)|cornified envelope (GO:0001533)|cytoplasm (GO:0005737)|endosome (GO:0005768)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|mitochondrial membrane (GO:0031966)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|sarcolemma (GO:0042383)|vesicle (GO:0031982)	calcium ion binding (GO:0005509)|calcium-dependent phospholipid binding (GO:0005544)|calcium-dependent protein binding (GO:0048306)|phospholipase A2 inhibitor activity (GO:0019834)|phospholipid binding (GO:0005543)|protein binding, bridging (GO:0030674)|receptor binding (GO:0005102)|structural molecule activity (GO:0005198)	p.R303S(1)		breast(1)|central_nervous_system(1)|large_intestine(1)|lung(5)	8		all_epithelial(88;2.54e-11)		OV - Ovarian serous cystadenocarcinoma(323;2.82e-06)|GBM - Glioblastoma multiforme(74;0.0325)	Amcinonide(DB00288)|Dexamethasone(DB01234)|Hydrocortisone(DB00741)	TATGGTTTCCCGTTCTGAAAT	0.388																																																1	Substitution - Missense(1)	lung(1)											230	210	217					9																	75783993		2203	4300	6503	SO:0001583	missense	301			X05908	CCDS6645.1	9q21.13	2013-02-25			ENSG00000135046	ENSG00000135046		"Annexins", "Endogenous ligands"	533	protein-coding gene	gene with protein product		151690		ANX1, LPC1		2936963	Standard	NM_000700		Approved		uc004ajf.1	P04083	OTTHUMG00000020016	ENST00000376911.1:c.907C>T	9.37:g.75783993C>T	ENSP00000366109:p.Arg303Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000376911.1	37	CCDS6645.1	.	.	.	.	.	.	.	.	.	.	C	26.5	4.744472	0.89663	.	.	ENSG00000135046	ENST00000257497;ENST00000376911	T;T	0.12879	2.64;2.64	5.97	5.08	0.68730	Annexin repeat, conserved site (1);	0.000000	0.85682	D	0.000000	T	0.47581	0.1453	M	0.92317	3.295	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.61657	-0.7018	10	0.87932	D	0	.	14.9487	0.71054	0.0:0.9321:0.0:0.0679	.	303	P04083	ANXA1_HUMAN	C	303	ENSP00000257497:R303C;ENSP00000366109:R303C	ENSP00000257497:R303C	R	+	1	0	ANXA1	74973813	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	6.929000	0.75852	1.540000	0.49301	0.655000	0.94253	CGT		0.388	ANXA1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052665.1	NM_000700		T	75783993	C	T	75783993	3	4	634	1	0	0	0	0	1	0	0	0	714	652	23	1	949	1	ANXA1	9	75783993	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	41987192	75783993	65429438	49	39092										
SPTLC1	10558	broad.mit.edu;hgsc.bcm.edu	37	chr9	94808322	94808322	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tgtccgcacttttccttcaaCactgcaaaaatacctagatg	5	12	1	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr9:94808322C>T	ENST00000262554.2	-	12	1100	c.1095G>A	c.(1093-1095)gtG>gtA	p.V365V		NM_006415.2	NP_006406.1	O15269	SPTC1_HUMAN	serine palmitoyltransferase, long chain base subunit 1	365					ceramide biosynthetic process (GO:0046513)|small molecule metabolic process (GO:0044281)|sphinganine biosynthetic process (GO:0046511)|sphingolipid biosynthetic process (GO:0030148)|sphingolipid metabolic process (GO:0006665)|sphingomyelin biosynthetic process (GO:0006686)|sphingosine biosynthetic process (GO:0046512)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|serine C-palmitoyltransferase complex (GO:0017059)|SPOTS complex (GO:0035339)	pyridoxal phosphate binding (GO:0030170)|serine C-palmitoyltransferase activity (GO:0004758)			breast(2)|kidney(1)|large_intestine(4)|lung(4)|ovary(1)|skin(1)|urinary_tract(1)	14					L-Serine(DB00133)	TTTCCTTCAACACTGCAAAAA	0.308																																																0													79	79	79					9																	94808322		2202	4298	6500	SO:0001819	synonymous_variant	10558			Y08685	CCDS6692.1, CCDS6693.1	9q22.31	2014-09-17	2003-12-02		ENSG00000090054	ENSG00000090054	2.3.1.50		11277	protein-coding gene	gene with protein product		605712	"hereditary sensory neuropathy, type 1"	HSN1		9363775	Standard	NM_006415		Approved	LCB1, SPTI, HSAN1, hLCB1	uc004arl.1	O15269	OTTHUMG00000021047	ENST00000262554.2:c.1095G>A	9.37:g.94808322C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K681|Q5VWB4|Q96IX6	Silent	SNP	ENST00000262554.2	37	CCDS6692.1																																																																																				0.308	SPTLC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055553.1	NM_006415		T	94808322	C	T	94808322	2	4	634	1	0	0	0	0	0	0	0	1	15135	465	17	2		2	SPTLC1	9	94808322	Silent	SNP	C	TCGA-KL-8335-01A-11D-2310-10	19024329	94808322	46405109	50	39093										
ZNF462	58499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	109689044	109689044	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	accaaagaatgcatcccacgGtgaagatcaacaacgcgatg	9	11	1	3			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr9:109689044G>A	ENST00000277225.5	+	3	3140	c.2851G>A	c.(2851-2853)Gtg>Atg	p.V951M	ZNF462_ENST00000441147.2_5'Flank|ZNF462_ENST00000457913.1_Missense_Mutation_p.V951M			Q96JM2	ZN462_HUMAN	zinc finger protein 462	951					chromatin organization (GO:0006325)|negative regulation of DNA binding (GO:0043392)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(2)|autonomic_ganglia(2)|breast(5)|central_nervous_system(4)|cervix(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(17)|large_intestine(20)|lung(32)|ovary(5)|prostate(6)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	119						GCATCCCACGGTGAAGATCAA	0.488																																																0													108	103	105					9																	109689044		2203	4300	6503	SO:0001583	missense	58499			AB058706	CCDS35096.1	9q31.3	2008-02-05			ENSG00000148143	ENSG00000148143		"Zinc fingers, C2H2-type"	21684	protein-coding gene	gene with protein product							Standard	NM_021224		Approved	DKFZP762N2316, KIAA1803, Zfp462	uc004bcz.3	Q96JM2	OTTHUMG00000020438	ENST00000277225.5:c.2851G>A	9.37:g.109689044G>A	ENSP00000277225:p.Val951Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T0T4|Q8N408	Missense_Mutation	SNP	ENST00000277225.5	37	CCDS35096.1	.	.	.	.	.	.	.	.	.	.	G	18.20	3.571617	0.65765	.	.	ENSG00000148143	ENST00000277225;ENST00000457913	T;T	0.08008	3.14;3.55	5.49	5.49	0.81192	.	0.000000	0.85682	D	0.000000	T	0.25717	0.0626	L	0.51422	1.61	0.80722	D	1	D;D	0.89917	1.0;0.998	D;D	0.87578	0.998;0.995	T	0.00102	-1.2062	9	.	.	.	.	19.7468	0.96255	0.0:0.0:1.0:0.0	.	951;951	Q96JM2-3;Q96JM2	.;ZN462_HUMAN	M	951	ENSP00000277225:V951M;ENSP00000414570:V951M	.	V	+	1	0	ZNF462	108728865	1.000000	0.71417	0.627000	0.29227	0.864000	0.49448	9.713000	0.98740	2.731000	0.93534	0.650000	0.86243	GTG		0.488	ZNF462-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000053532.2	NM_021224		A	109689044	G	A	109689044	3	1	634	1	0	0	0	0	1	0	0	0	17938	1261	44	2	2857	2	ZNF462	9	109689044	Missense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10	14880722	109689044	31524387	51	39094										
ZNF462	58499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr9	109691641	109691641	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gtctatgcagatgagcatgaGaagcccacactgatggaaga	12	8	1	5			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr9:109691641G>A	ENST00000277225.5	+	3	5737	c.5448G>A	c.(5446-5448)gaG>gaA	p.E1816E	ZNF462_ENST00000441147.2_Silent_p.E661E|ZNF462_ENST00000457913.1_Silent_p.E1816E			Q96JM2	ZN462_HUMAN	zinc finger protein 462	1816					chromatin organization (GO:0006325)|negative regulation of DNA binding (GO:0043392)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(2)|autonomic_ganglia(2)|breast(5)|central_nervous_system(4)|cervix(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(17)|large_intestine(20)|lung(32)|ovary(5)|prostate(6)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	119						ATGAGCATGAGAAGCCCACAC	0.552																																																0													90	87	88					9																	109691641		2203	4300	6503	SO:0001819	synonymous_variant	58499			AB058706	CCDS35096.1	9q31.3	2008-02-05			ENSG00000148143	ENSG00000148143		"Zinc fingers, C2H2-type"	21684	protein-coding gene	gene with protein product							Standard	NM_021224		Approved	DKFZP762N2316, KIAA1803, Zfp462	uc004bcz.3	Q96JM2	OTTHUMG00000020438	ENST00000277225.5:c.5448G>A	9.37:g.109691641G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T0T4|Q8N408	Silent	SNP	ENST00000277225.5	37	CCDS35096.1																																																																																				0.552	ZNF462-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000053532.2	NM_021224		A	109691641	G	A	109691641	2	1	634	1	0	0	0	0	0	0	0	1	17938	933	33	2		2	ZNF462	9	109691641	Silent	SNP	G	TCGA-KL-8335-01A-11D-2310-10	2597	109691641	31521790	52	39095										
ZFP37	7539	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr9	115806036	115806036	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ttcatagggtttcacacaagCttgaggtttttcatgcttag	9	7	3	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr9:115806036C>A	ENST00000374227.3	-	4	889	c.862G>T	c.(862-864)Gct>Tct	p.A288S	ZFP37_ENST00000555206.1_Missense_Mutation_p.A289S|ZFP37_ENST00000553380.1_Missense_Mutation_p.A303S	NM_001282515.1|NM_001282518.1	NP_001269444.1|NP_001269447.1	Q9Y6Q3	ZFP37_HUMAN	ZFP37 zinc finger protein	288					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(6)|lung(14)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	38						TTCACACAAGCTTGAGGTTTT	0.393																																																0													214	204	208					9																	115806036		2203	4300	6503	SO:0001583	missense	7539			AF022158	CCDS6787.1, CCDS65109.1, CCDS65110.1	9q32	2013-01-08	2012-11-27		ENSG00000136866	ENSG00000136866		"Zinc fingers, C2H2-type", "-"	12863	protein-coding gene	gene with protein product		602951	"zinc finger protein homologous to Zfp37 in mouse", "zinc finger protein 37 homolog (mouse)"				Standard	NM_001282515		Approved	ZNF906	uc004bgm.1	Q9Y6Q3	OTTHUMG00000021019	ENST00000374227.3:c.862G>T	9.37:g.115806036C>A	ENSP00000363344:p.Ala288Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVJ9|B4DVX4|G3V3L7|Q5T7Q4	Missense_Mutation	SNP	ENST00000374227.3	37	CCDS6787.1	.	.	.	.	.	.	.	.	.	.	C	8.356	0.832000	0.16820	.	.	ENSG00000136866	ENST00000374227;ENST00000555206;ENST00000553380	T;T;T	0.05513	3.51;3.43;3.5	4.12	1.06	0.20224	.	1.125650	0.06806	N	0.789524	T	0.03305	0.0096	N	0.03881	-0.34	0.09310	N	1	B;B;B	0.22003	0.063;0.063;0.027	B;B;B	0.21917	0.037;0.037;0.018	T	0.45512	-0.9256	10	0.40728	T	0.16	-0.0391	6.5594	0.22478	0.0:0.5597:0.0:0.4403	.	289;303;288	G3V3L7;Q9Y6Q3-2;Q9Y6Q3	.;.;ZFP37_HUMAN	S	288;289;303	ENSP00000363344:A288S;ENSP00000451310:A289S;ENSP00000452552:A303S	ENSP00000363344:A288S	A	-	1	0	ZFP37	114845857	0.000000	0.05858	0.000000	0.03702	0.203000	0.24098	-0.302000	0.08221	0.231000	0.21079	0.655000	0.94253	GCT		0.393	ZFP37-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000055439.1	NM_003408		A	115806036	C	A	115806036	3	1	634	1	0	0	0	0	1	0	0	0	17660	797	28	4	1034	4	ZFP37	9	115806036	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	6114395	115806036	25407395	53	39096										
MEGF9	1955	ucsc.edu	37	chr9	123476127	123476127	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	agatcgggggtcggggtccgGggagtcgtgggcgccggtac	22	9	0	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr9:123476127G>A	ENST00000373930.3	-	1	621	c.510C>T	c.(508-510)ccC>ccT	p.P170P	MEGF9_ENST00000426959.1_Silent_p.P162P	NM_001080497.2	NP_001073966.2	Q9H1U4	MEGF9_HUMAN	multiple EGF-like-domains 9	170	Pro-rich.					integral component of membrane (GO:0016021)				endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(2)|lung(9)|upper_aerodigestive_tract(1)	16						TCGGGGTCCGGGGAGTCGTGG	0.731																																																0													17	22	21					9																	123476127		1843	4050	5893	SO:0001819	synonymous_variant	1955			AB011542	CCDS48010.1, CCDS48010.2	9q32-q33.3	2008-07-21	2006-03-31	2006-03-31	ENSG00000106780	ENSG00000106780			3234	protein-coding gene	gene with protein product		604268	"EGF-like-domain, multiple 5"	EGFL5		9693030	Standard	NM_001080497		Approved		uc022bms.1	Q9H1U4	OTTHUMG00000021039	ENST00000373930.3:c.510C>T	9.37:g.123476127G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z315|O75098	Silent	SNP	ENST00000373930.3	37	CCDS48010.2																																																																																				0.731	MEGF9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055513.1	NM_001080497		A	123476127	G	A	123476127	2	1	634	1	0	0	0	0	0	0	0	1	9471	1219	43	2		2	MEGF9	9	123476127	Silent	SNP	G	TCGA-KL-8335-01A-11D-2310-10	7670091	123476127	17737304	54	39097										
AKR1C4	1109	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	5254675	5254675	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	acagtgctctgggaacccaaCgacataaactatggtaataa	8	9	1	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr10:5254675C>T	ENST00000380448.1	+	8	920	c.667C>T	c.(667-669)Cga>Tga	p.R223*	AKR1C4_ENST00000263126.1_Nonsense_Mutation_p.R223*			P17516	AK1C4_HUMAN	aldo-keto reductase family 1, member C4	223					androgen metabolic process (GO:0008209)|bile acid and bile salt transport (GO:0015721)|bile acid biosynthetic process (GO:0006699)|bile acid metabolic process (GO:0008206)|cellular response to jasmonic acid stimulus (GO:0071395)|daunorubicin metabolic process (GO:0044597)|doxorubicin metabolic process (GO:0044598)|phototransduction, visible light (GO:0007603)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	aldo-keto reductase (NADP) activity (GO:0004033)|androsterone dehydrogenase activity (GO:0047023)|bile acid transmembrane transporter activity (GO:0015125)|chlordecone reductase activity (GO:0047743)|electron carrier activity (GO:0009055)|oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor (GO:0016655)|retinal dehydrogenase activity (GO:0001758)			NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(4)|ovary(1)|skin(2)|stomach(2)|urinary_tract(1)	18						GGGAACCCAACGACATAAACT	0.393																																																0													77	71	73					10																	5254675		2203	4300	6503	SO:0001587	stop_gained	1109			M33375	CCDS7064.1	10p15.1	2012-12-04	2012-12-04		ENSG00000198610	ENSG00000198610	1.1.1.225	"Aldo-keto reductases"	387	protein-coding gene	gene with protein product	"chlordecone reductase; 3-alpha hydroxysteroid dehydrogenase, type I; dihydrodiol dehydrogenase 4"	600451	"aldo-keto reductase family 1, member C4 (chlordecone reductase; 3-alpha hydroxysteroid dehydrogenase, type I; dihydrodiol dehydrogenase 4)"	CHDR		7789999	Standard	NM_001818		Approved	DD4, HAKRA, C11, 3-alpha-HSD, CDR, MGC22581	uc001ihw.2	P17516	OTTHUMG00000017591	ENST00000380448.1:c.667C>T	10.37:g.5254675C>T	ENSP00000369814:p.Arg223*	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6A3|Q8WW84|Q9NS54	Nonsense_Mutation	SNP	ENST00000380448.1	37	CCDS7064.1	.	.	.	.	.	.	.	.	.	.	C	25.3	4.626677	0.87560	.	.	ENSG00000198610	ENST00000380448;ENST00000263126	.	.	.	3.13	0.608	0.17569	.	0.000000	0.51477	D	0.000088	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	8.081	0.30744	0.6583:0.3417:0.0:0.0	.	.	.	.	X	223	.	ENSP00000263126:R223X	R	+	1	2	AKR1C4	5244675	0.000000	0.05858	0.001000	0.08648	0.120000	0.20174	-0.385000	0.07379	0.249000	0.21456	0.313000	0.20887	CGA		0.393	AKR1C4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046543.2	NM_001818		T	5254675	C	T	5254675	4	4	634	1	0	0	0	0	0	1	0	0	472	528	19	1	689	1	AKR1C4	10	5254675	Nonsense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10		5254675	130280072	55	39098										
SPAG6	9576	broad.mit.edu	37	chr10	22675803	22675803	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	cagtgatattgcaaagcattCtccagagttagcacagacag	9	9	1	3			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr10:22675803C>T	ENST00000376624.3	+	5	735	c.593C>T	c.(592-594)tCt>tTt	p.S198F	SPAG6_ENST00000538630.1_Missense_Mutation_p.S173F|RP11-301N24.3_ENST00000422675.1_RNA|SPAG6_ENST00000376601.1_Intron|SPAG6_ENST00000376603.2_Missense_Mutation_p.S274F|SPAG6_ENST00000313311.6_Missense_Mutation_p.S198F	NM_001253855.1|NM_012443.3	NP_001240784.1|NP_036575.1	O75602	SPAG6_HUMAN	sperm associated antigen 6	198					cell projection organization (GO:0030030)|spermatid development (GO:0007286)	axoneme (GO:0005930)|microtubule (GO:0005874)|microtubule cytoskeleton (GO:0015630)|motile cilium (GO:0031514)|nucleus (GO:0005634)				breast(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(13)|prostate(1)|skin(2)	27						GCAAAGCATTCTCCAGAGTTA	0.443																																																0													115	109	111					10																	22675803		2203	4300	6503	SO:0001583	missense	9576			AF079363	CCDS7139.1, CCDS7140.1, CCDS58071.1, CCDS73072.1	10p12.31	2014-01-21			ENSG00000077327	ENSG00000077327		"Armadillo repeat containing"	11215	protein-coding gene	gene with protein product	"axoneme central apparatus protein"	605730				10493827	Standard	NM_012443		Approved	Repro-SA-1, pf16, CT141	uc001iri.3	O75602	OTTHUMG00000017808	ENST00000376624.3:c.593C>T	10.37:g.22675803C>T	ENSP00000365811:p.Ser198Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1I8|B4DXZ4|Q5VUX5|Q5VUX6|Q5VUX7|Q6FI74|Q8NHQ6	Missense_Mutation	SNP	ENST00000376624.3	37	CCDS7139.1	.	.	.	.	.	.	.	.	.	.	C	13.30	2.196679	0.38806	.	.	ENSG00000077327	ENST00000376624;ENST00000376603;ENST00000538630;ENST00000313311	T;T;T;T	0.72615	-0.67;-0.67;-0.67;-0.67	5.6	2.7	0.31948	Armadillo-like helical (1);Armadillo-type fold (1);	0.201653	0.53938	N	0.000046	T	0.75273	0.3827	M	0.69358	2.11	0.58432	D	0.999999	B;P;P;P	0.46952	0.391;0.887;0.732;0.573	P;P;P;P	0.54401	0.751;0.673;0.635;0.751	T	0.75668	-0.3238	10	0.87932	D	0	-18.4621	8.521	0.33275	0.0:0.7218:0.1379:0.1403	.	173;274;198;198	B4DXZ4;O75602-3;O75602-2;O75602	.;.;.;SPAG6_HUMAN	F	198;274;173;198	ENSP00000365811:S198F;ENSP00000365788:S274F;ENSP00000441325:S173F;ENSP00000323599:S198F	ENSP00000323599:S198F	S	+	2	0	SPAG6	22715809	1.000000	0.71417	1.000000	0.80357	0.092000	0.18411	4.029000	0.57253	0.818000	0.34468	-0.253000	0.11424	TCT		0.443	SPAG6-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047187.1			T	22675803	C	T	22675803	3	4	634	1	0	0	0	0	1	0	0	0	14995	913	32	2	611	2	SPAG6	10	22675803	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	17421128	22675803	112858944	56	39099										
ZNF365	22891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	64136341	64136341	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gtcctatgtgcagacctacaCtgccatggacctccatgcag	9	14	0	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr10:64136341C>A	ENST00000395254.3	+	2	669	c.389C>A	c.(388-390)aCt>aAt	p.T130N	ZNF365_ENST00000395255.3_Missense_Mutation_p.T130N|ZNF365_ENST00000466727.1_Intron|ZNF365_ENST00000410046.3_Missense_Mutation_p.T130N	NM_014951.2	NP_055766.2	Q70YC4	TALAN_HUMAN	zinc finger protein 365	189										breast(1)|endometrium(6)|kidney(1)|large_intestine(5)|lung(7)|ovary(2)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	27	Prostate(12;0.0297)|all_hematologic(501;0.228)					CAGACCTACACTGCCATGGAC	0.527																																																0													98	83	88					10																	64136341		2203	4300	6503	SO:0001583	missense	22891			AB020651	CCDS7264.1, CCDS7265.1, CCDS31209.1, CCDS41531.1	10q21.2	2008-10-28			ENSG00000138311	ENSG00000138311		"Zinc fingers, C2H2-type"	18194	protein-coding gene	gene with protein product	"Talanin"	607818				10048485, 12740763	Standard	NM_199450		Approved	KIAA0844, UAN	uc001jmc.2	Q70YC4	OTTHUMG00000018302	ENST00000395254.3:c.389C>A	10.37:g.64136341C>A	ENSP00000378674:p.Thr130Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000395254.3	37	CCDS31209.1	.	.	.	.	.	.	.	.	.	.	C	14.01	2.409271	0.42715	.	.	ENSG00000138311	ENST00000395254;ENST00000395255;ENST00000410046	T;T;T	0.35973	1.28;1.28;1.28	5.61	4.7	0.59300	.	0.513588	0.19924	N	0.103030	T	0.36496	0.0969	M	0.64997	1.995	0.58432	D	0.999995	P;B;B;B	0.47910	0.902;0.078;0.161;0.328	B;B;B;B	0.43478	0.421;0.107;0.107;0.107	T	0.17868	-1.0355	10	0.46703	T	0.11	-3.0892	8.0517	0.30581	0.0:0.7281:0.1338:0.1381	.	130;130;130;145	Q70YC5-3;Q70YC5-2;Q70YC5;Q70YC5-4	.;.;ZN365_HUMAN;.	N	130	ENSP00000378674:T130N;ENSP00000378675:T130N;ENSP00000387091:T130N	ENSP00000378674:T130N	T	+	2	0	ZNF365	63806347	0.348000	0.24861	0.713000	0.30519	0.989000	0.77384	1.714000	0.37961	1.344000	0.45657	0.555000	0.69702	ACT		0.527	ZNF365-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048238.2	NM_014951		A	64136341	C	A	64136341	3	1	634	1	0	0	0	0	1	0	0	0	17881	565	20	4	391	4	ZNF365	10	64136341	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	41460538	64136341	71398406	57	39100										
SORCS3	22986	broad.mit.edu;mdanderson.org	37	chr10	106970992	106970992	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	actgcagccttggtcaaagcTaccttaacagcactgggtaa	9	11	1	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr10:106970992T>C	ENST00000369701.3	+	17	2586	c.2359T>C	c.(2359-2361)Tac>Cac	p.Y787H	SORCS3_ENST00000369699.4_Missense_Mutation_p.Y73H	NM_014978.1	NP_055793.1	Q9UPU3	SORC3_HUMAN	sortilin-related VPS10 domain containing receptor 3	787					learning (GO:0007612)|memory (GO:0007613)|neuropeptide signaling pathway (GO:0007218)|regulation of long term synaptic depression (GO:1900452)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|neuronal postsynaptic density (GO:0097481)	neuropeptide receptor activity (GO:0008188)			autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(19)|lung(63)|ovary(6)|pancreas(1)|prostate(6)|skin(8)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	131		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)		TGGTCAAAGCTACCTTAACAG	0.468																																					NSCLC(116;1497 1690 7108 13108 14106)											0													104	84	91					10																	106970992		2203	4300	6503	SO:0001583	missense	22986			AB028982	CCDS7558.1	10q23-q25	2006-04-12			ENSG00000156395	ENSG00000156395			16699	protein-coding gene	gene with protein product		606285				11499680	Standard	NM_014978		Approved	KIAA1059, SORCS	uc001kyi.1	Q9UPU3	OTTHUMG00000019011	ENST00000369701.3:c.2359T>C	10.37:g.106970992T>C	ENSP00000358715:p.Tyr787His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VXF9|Q9NQJ2	Missense_Mutation	SNP	ENST00000369701.3	37	CCDS7558.1	.	.	.	.	.	.	.	.	.	.	T	18.41	3.617745	0.66787	.	.	ENSG00000156395	ENST00000369701;ENST00000393176;ENST00000369699	T;T;T	0.52057	1.94;0.68;1.09	5.93	5.93	0.95920	VPS10 (1);	0.131761	0.53938	D	0.000059	T	0.72953	0.3525	M	0.86953	2.85	0.58432	D	0.999993	D	0.76494	0.999	D	0.72982	0.979	T	0.77242	-0.2660	9	.	.	.	.	16.3943	0.83563	0.0:0.0:0.0:1.0	.	787	Q9UPU3	SORC3_HUMAN	H	787;148;73	ENSP00000358715:Y787H;ENSP00000376876:Y148H;ENSP00000358713:Y73H	.	Y	+	1	0	SORCS3	106960982	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.698000	0.84413	2.281000	0.76405	0.533000	0.62120	TAC		0.468	SORCS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050221.1	NM_014978		C	106970992	T	C	106970992	3	2	634	1	0	0	0	0	1	0	0	0	14945	1522	53	3	2425	3	SORCS3	10	106970992	Missense_Mutation	SNP	T	TCGA-KL-8335-01A-11D-2310-10	42834651	106970992	28563755	58	39101										
MUC5B	727897	mdanderson.org	37	chr11	1271809	1271809	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	acacctccacagtgcttaccGccacggccaccacaaccggg	8	19	0	0	rs2334756		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr11:1271809G>A	ENST00000529681.1	+	31	13757	c.13699G>A	c.(13699-13701)Gcc>Acc	p.A4567T	RP11-532E4.2_ENST00000532061.2_RNA|MUC5B_ENST00000447027.1_Missense_Mutation_p.A4570T	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	4567	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.			A -> T (in Ref. 4; CAA96577). {ECO:0000305}.	cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		AGTGCTTACCGCCACGGCCAC	0.647																																																0													127	165	153					11																	1271809		2072	4199	6271	SO:0001583	missense	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.13699G>A	11.37:g.1271809G>A	ENSP00000436812:p.Ala4567Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Missense_Mutation	SNP	ENST00000529681.1	37	CCDS44515.2	.	.	.	.	.	.	.	.	.	.	-	6.667	0.491655	0.12702	.	.	ENSG00000117983	ENST00000529681;ENST00000447027;ENST00000349637;ENST00000406844;ENST00000535652	T;T	0.21191	2.02;2.2	2.37	-0.495	0.12030	.	.	.	.	.	T	0.04998	0.0134	N	0.00413	-1.525	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.36040	-0.9764	9	0.87932	D	0	.	3.6809	0.08310	0.5528:0.1921:0.2551:0.0	rs2334756;rs2943505	5040;4570	A7Y9J9;E9PBJ0	.;.	T	4567;4570;4511;4417;344	ENSP00000436812:A4567T;ENSP00000415793:A4570T	ENSP00000343037:A4511T	A	+	1	0	MUC5B	1228385	0.000000	0.05858	0.000000	0.03702	0.032000	0.12392	-3.382000	0.00490	-1.160000	0.02804	-1.451000	0.01035	GCC		0.647	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		A	1271809	G	A	1271809	3	1	634	1	0	0	0	0	1	0	0	0	9986	1087	38	1	13830	1	MUC5B	11	1271809	Missense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10		1271809	133734707	59	39102										
FOLH1	2346	broad.mit.edu;mdanderson.org	37	chr11	49175930	49175930	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ctcaaacaccatccctcctcGaacctgggccacagtgaggt	8	16	1	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr11:49175930G>A	ENST00000256999.2	-	16	1998	c.1738C>T	c.(1738-1740)Cga>Tga	p.R580*	FOLH1_ENST00000343844.4_Nonsense_Mutation_p.R272*|FOLH1_ENST00000340334.7_Nonsense_Mutation_p.R565*|FOLH1_ENST00000356696.3_Nonsense_Mutation_p.R580*|FOLH1_ENST00000533034.1_Nonsense_Mutation_p.R565*	NM_004476.1	NP_004467.1	Q04609	FOLH1_HUMAN	folate hydrolase (prostate-specific membrane antigen) 1	580	NAALADase.				folic acid-containing compound metabolic process (GO:0006760)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	carboxypeptidase activity (GO:0004180)|dipeptidase activity (GO:0016805)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)|peptidase activity (GO:0008233)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(7)|lung(34)|ovary(1)|skin(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	60					Capromab(DB00089)	ATCCCTCCTCGAACCTGGGCC	0.413																																																0													76	64	68					11																	49175930		2200	4278	6478	SO:0001587	stop_gained	2346			M99487	CCDS7946.1, CCDS31493.1, CCDS53626.1, CCDS53627.1, CCDS53628.1	11p11.2	2011-07-22			ENSG00000086205	ENSG00000086205	3.4.17.21		3788	protein-coding gene	gene with protein product	"glutamate carboxylase II", "glutamate carboxypeptidase II"	600934		FOLH		9838072	Standard	NM_001193472		Approved	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII	uc001ngy.3	Q04609	OTTHUMG00000166625	ENST00000256999.2:c.1738C>T	11.37:g.49175930G>A	ENSP00000256999:p.Arg580*	Somatic		WXS	Illumina HiSeq	Phase_I	A4UU12|A9CB79|B7Z312|B7Z343|D3DQS5|E9PDX8|O43748|Q16305|Q541A4|Q8TAY3|Q9NP15|Q9NYE2|Q9P1P8	Nonsense_Mutation	SNP	ENST00000256999.2	37	CCDS7946.1	.	.	.	.	.	.	.	.	.	.	G	39	7.351063	0.98228	.	.	ENSG00000086205	ENST00000256999;ENST00000356696;ENST00000340334;ENST00000343844;ENST00000533034	.	.	.	3.62	3.62	0.41486	.	0.000000	0.45606	D	0.000343	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.27082	T	0.32	.	13.124	0.59342	0.0:0.0:1.0:0.0	.	.	.	.	X	580;580;565;272;565	.	ENSP00000256999:R580X	R	-	1	2	FOLH1	49132506	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	5.373000	0.66162	2.044000	0.60594	0.404000	0.27445	CGA		0.413	FOLH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390896.1	NM_004476		A	49175930	G	A	49175930	4	1	634	1	0	0	0	0	0	1	0	0	5986	1066	37	1	530	1	FOLH1	11	49175930	Nonsense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10	47904121	49175930	85830586	60	39103										
OR9I1	219954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	57886020	57886020	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ctagcgacctttctgaaggcGtcttttacatctttgtttct	7	10	4	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr11:57886020G>A	ENST00000302610.1	-	1	896	c.897C>T	c.(895-897)gaC>gaT	p.D299D	OR9Q1_ENST00000335397.3_Intron	NM_001005211.1	NP_001005211.1	Q8NGQ6	OR9I1_HUMAN	olfactory receptor, family 9, subfamily I, member 1	299						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(2)|large_intestine(2)|liver(1)|lung(15)|pancreas(1)|skin(1)|urinary_tract(1)	23		Breast(21;0.0589)				TTCTGAAGGCGTCTTTTACAT	0.428																																																0													125	130	129					11																	57886020		2201	4296	6497	SO:0001819	synonymous_variant	219954			AB065733	CCDS31542.1	11q12.1	2012-08-09			ENSG00000172377	ENSG00000172377		"GPCR / Class A : Olfactory receptors"	14718	protein-coding gene	gene with protein product							Standard	NM_001005211		Approved		uc021qjl.1	Q8NGQ6	OTTHUMG00000167404	ENST00000302610.1:c.897C>T	11.37:g.57886020G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFH0|Q96RA8	Silent	SNP	ENST00000302610.1	37	CCDS31542.1																																																																																				0.428	OR9I1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394539.1	NM_001005211		A	57886020	G	A	57886020	2	1	634	1	0	0	0	0	0	0	0	1	11260	1136	40	1		1	OR9I1	11	57886020	Silent	SNP	G	TCGA-KL-8335-01A-11D-2310-10	8710090	57886020	77120496	61	39104										
INTS5	80789	hgsc.bcm.edu;ucsc.edu	37	chr11	62417411	62417411	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tcccgggctgagagttggtgGcccagaatggggtctacgcc	16	11	1	2			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr11:62417411G>A	ENST00000330574.2	-	2	193	c.141C>T	c.(139-141)ggC>ggT	p.G47G	RP11-831H9.11_ENST00000528405.1_3'UTR	NM_030628.1	NP_085131.1	Q6P9B9	INT5_HUMAN	integrator complex subunit 5	47					snRNA processing (GO:0016180)	integral component of membrane (GO:0016021)|integrator complex (GO:0032039)|membrane (GO:0016020)				breast(1)|endometrium(4)|large_intestine(6)|lung(20)|ovary(2)|skin(1)|upper_aerodigestive_tract(2)	36						AGAGTTGGTGGCCCAGAATGG	0.537																																																0													73	81	78					11																	62417411		2202	4299	6501	SO:0001819	synonymous_variant	80789			AK123587	CCDS8027.1	11q12.3	2006-04-26	2006-03-15	2006-03-15	ENSG00000185085	ENSG00000185085			29352	protein-coding gene	gene with protein product		611349	"KIAA1698"	KIAA1698		16239144	Standard	NM_030628		Approved	INT5	uc001nud.3	Q6P9B9	OTTHUMG00000167605	ENST00000330574.2:c.141C>T	11.37:g.62417411G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N6W5|Q9C0G5	Silent	SNP	ENST00000330574.2	37	CCDS8027.1																																																																																				0.537	INTS5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395327.1	NM_030628		A	62417411	G	A	62417411	2	1	634	1	0	0	0	0	0	0	0	1	7788	1190	42	2		2	INTS5	11	62417411	Silent	SNP	G	TCGA-KL-8335-01A-11D-2310-10	4531391	62417411	72589105	62	39105										
KDM2A	22992	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	67022407	67022407	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gcattgccaacgtcaccttgAtcgaccttcgaggatgcaag	10	12	1	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr11:67022407A>T	ENST00000529006.2	+	21	3816	c.3370A>T	c.(3370-3372)Atc>Ttc	p.I1124F	KDM2A_ENST00000526258.1_3'UTR|KDM2A_ENST00000398645.2_3'UTR|KDM2A_ENST00000530342.1_Missense_Mutation_p.I685F|KDM2A_ENST00000308783.5_Missense_Mutation_p.I582F	NM_012308.2	NP_036440.1	Q9Y2K7	KDM2A_HUMAN	lysine (K)-specific demethylase 2A	1124					histone H3-K36 demethylation (GO:0070544)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nuclear chromatin (GO:0000790)|nucleolus (GO:0005730)|nucleus (GO:0005634)	histone demethylase activity (H3-K36 specific) (GO:0051864)|unmethylated CpG binding (GO:0045322)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(6)|lung(15)|ovary(5)|skin(1)|urinary_tract(2)	36						CGTCACCTTGATCGACCTTCG	0.502																																																0													100	95	97					11																	67022407		2034	4199	6233	SO:0001583	missense	22992			BC047486	CCDS44657.1, CCDS58148.1	11q13.1	2014-02-18	2009-04-06	2009-04-06	ENSG00000173120	ENSG00000173120		"F-boxes / Leucine-rich repeats", "Chromatin-modifying enzymes / K-demethylases"	13606	protein-coding gene	gene with protein product	"F-box protein FBL11", "jumonji C domain-containing histone demethylase 1A"	605657	"F-box and leucine-rich repeat protein 11"	FBXL11		10231032, 10531037	Standard	NM_012308		Approved	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A	uc001ojw.3	Q9Y2K7	OTTHUMG00000167103	ENST00000529006.2:c.3370A>T	11.37:g.67022407A>T	ENSP00000432786:p.Ile1124Phe	Somatic		WXS	Illumina HiSeq	Phase_I	D4QA03|E9PIL6|I3VM55|Q49A21|Q4G0M3|Q69YY8|Q9BVH5|Q9H7H5|Q9UK66	Missense_Mutation	SNP	ENST00000529006.2	37	CCDS44657.1	.	.	.	.	.	.	.	.	.	.	A	20.4	3.978847	0.74360	.	.	ENSG00000173120	ENST00000529006;ENST00000530342;ENST00000308783	T;T;T	0.18810	2.19;2.19;2.19	5.32	5.32	0.75619	.	0.065369	0.64402	D	0.000007	T	0.39572	0.1083	M	0.69463	2.115	0.49389	D	0.999786	D;P	0.58620	0.983;0.651	P;B	0.56088	0.791;0.353	T	0.28681	-1.0036	10	0.87932	D	0	-15.8009	15.4479	0.75248	1.0:0.0:0.0:0.0	.	685;1124	E9PIL6;Q9Y2K7	.;KDM2A_HUMAN	F	1124;685;582	ENSP00000432786:I1124F;ENSP00000435776:I685F;ENSP00000309302:I582F	ENSP00000309302:I582F	I	+	1	0	KDM2A	66778983	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.457000	0.60088	2.228000	0.72767	0.533000	0.62120	ATC		0.502	KDM2A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393140.2	NM_012308		T	67022407	A	T	67022407	3	4	634	1	0	0	0	0	1	0	0	0	8131	333	12	5	3448	5	KDM2A	11	67022407	Missense_Mutation	SNP	A	TCGA-KL-8335-01A-11D-2310-10	4604996	67022407	67984109	63	39106										
PLEKHB1	58473	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	73360070	73360070	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ctgacaggtcccgcctgactCcgctctggaaagtccttttg	10	14	1	2			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr11:73360070C>A	ENST00000354190.5	+	2	463	c.32C>A	c.(31-33)tCc>tAc	p.S11Y	PLEKHB1_ENST00000227214.6_5'UTR|PLEKHB1_ENST00000398494.4_5'UTR|PLEKHB1_ENST00000543085.1_5'UTR|PLEKHB1_ENST00000535129.1_5'UTR|PLEKHB1_ENST00000544532.1_3'UTR|PLEKHB1_ENST00000398492.4_Missense_Mutation_p.S11Y	NM_021200.2	NP_067023.1	Q9UF11	PKHB1_HUMAN	pleckstrin homology domain containing, family B (evectins) member 1	11					multicellular organismal development (GO:0007275)|phototransduction (GO:0007602)|regulation of cell differentiation (GO:0045595)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)	signal transducer activity (GO:0004871)			endometrium(2)|large_intestine(2)|lung(1)|ovary(1)|prostate(1)	7						CCGCCTGACTCCGCTCTGGAA	0.662																																																0													22	27	25					11																	73360070		2109	4234	6343	SO:0001583	missense	58473			AF081583	CCDS44672.1, CCDS44673.1, CCDS44674.1, CCDS44675.1	11q13.5-q14.1	2013-01-10	2002-11-04	2002-11-08	ENSG00000021300	ENSG00000021300		"Pleckstrin homology (PH) domain containing"	19079	protein-coding gene	gene with protein product		607651	"PH domain containing, retinal 1"	PHRET1		10585447	Standard	NM_021200		Approved	PHR1, KPL1	uc001ouc.3	Q9UF11	OTTHUMG00000168030	ENST00000354190.5:c.32C>A	11.37:g.73360070C>A	ENSP00000346127:p.Ser11Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0Q5|B2RBP1|B7Z716|Q9UBF5|Q9UI37|Q9UI44	Missense_Mutation	SNP	ENST00000354190.5	37	CCDS44672.1	.	.	.	.	.	.	.	.	.	.	C	13.28	2.191379	0.38707	.	.	ENSG00000021300	ENST00000354190;ENST00000398492	.	.	.	4.41	3.49	0.39957	.	0.410743	0.23249	N	0.050278	T	0.26521	0.0648	N	0.08118	0	0.33815	D	0.628319	P;D	0.54207	0.553;0.965	B;P	0.47981	0.277;0.563	T	0.32508	-0.9904	9	0.59425	D	0.04	-3.2102	7.619	0.28175	0.0:0.8878:0.0:0.1122	.	11;11	Q9UF11-2;Q9UF11	.;PKHB1_HUMAN	Y	11	.	ENSP00000346127:S11Y	S	+	2	0	PLEKHB1	73037718	0.431000	0.25546	0.925000	0.36789	0.985000	0.73830	1.606000	0.36826	2.454000	0.82982	0.655000	0.94253	TCC		0.662	PLEKHB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000397593.1			A	73360070	C	A	73360070	3	1	634	1	0	0	0	0	1	0	0	0	12071	855	30	4	38	4	PLEKHB1	11	73360070	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	6337663	73360070	61646446	64	39107										
PDE3A	5139	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	20522512	20522512	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tgtaaggaggcggcggcggcGgaggaggaggaagcagcccc	21	9	0	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr12:20522512G>A	ENST00000359062.3	+	1	334	c.294G>A	c.(292-294)gcG>gcA	p.A98A	RP11-284H19.1_ENST00000535755.1_RNA	NM_000921.4|NM_001244683.1	NP_000912.3|NP_001231612.1	Q14432	PDE3A_HUMAN	phosphodiesterase 3A, cGMP-inhibited	98	Poly-Ala.				blood coagulation (GO:0007596)|cAMP catabolic process (GO:0006198)|cAMP-mediated signaling (GO:0019933)|cellular response to cGMP (GO:0071321)|cellular response to transforming growth factor beta stimulus (GO:0071560)|cGMP-mediated signaling (GO:0019934)|diterpenoid metabolic process (GO:0016101)|lipid metabolic process (GO:0006629)|negative regulation of apoptotic process (GO:0043066)|negative regulation of vascular permeability (GO:0043116)|oocyte maturation (GO:0001556)|positive regulation of oocyte development (GO:0060282)|positive regulation of vascular permeability (GO:0043117)|regulation of meiosis (GO:0040020)|response to cAMP (GO:0051591)|response to drug (GO:0042493)	cytosol (GO:0005829)|integral component of membrane (GO:0016021)	3',5'-cyclic-AMP phosphodiesterase activity (GO:0004115)|cAMP binding (GO:0030552)|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity (GO:0004119)|metal ion binding (GO:0046872)			NS(1)|breast(3)|endometrium(4)|kidney(3)|large_intestine(7)|lung(29)|ovary(4)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	58	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Caffeine(DB00201)|Cilostazol(DB01166)|Enoximone(DB04880)|Ibudilast(DB05266)|Levosimendan(DB00922)|Milrinone(DB00235)|Oxtriphylline(DB01303)|Theophylline(DB00277)|Tofisopam(DB08811)	CGGCGGCGGCGGAGGAGGAGG	0.741																																																0													4	4	4					12																	20522512		2028	4033	6061	SO:0001819	synonymous_variant	5139				CCDS31754.1	12p12.2	2011-04-15			ENSG00000172572	ENSG00000172572	3.1.4.17	"Phosphodiesterases"	8778	protein-coding gene	gene with protein product		123805				1315035, 10679291	Standard	NM_000921		Approved	CGI-PDE	uc001reh.2	Q14432	OTTHUMG00000168962	ENST00000359062.3:c.294G>A	12.37:g.20522512G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60865|Q13348|Q17RD1	Silent	SNP	ENST00000359062.3	37	CCDS31754.1																																																																																				0.741	PDE3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401756.2			A	20522512	G	A	20522512	2	1	634	1	0	0	0	0	0	0	0	1	11644	1103	39	1		1	PDE3A	12	20522512	Silent	SNP	G	TCGA-KL-8335-01A-11D-2310-10		20522512	113329383	65	39108										
NT5DC3	51559	broad.mit.edu	37	chr12	104171822	104171822	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ctggtctgtgcggaacaggcTtccaaactgggcattgaaga	13	9	1	2			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr12:104171822T>C	ENST00000392876.3	-	14	1472	c.1432A>G	c.(1432-1434)Agc>Ggc	p.S478G		NM_001031701.2	NP_001026871.1	Q86UY8	NT5D3_HUMAN	5'-nucleotidase domain containing 3	478						cytosol (GO:0005829)|mitochondrion (GO:0005739)|receptor complex (GO:0043235)	hydrolase activity (GO:0016787)|metal ion binding (GO:0046872)			NS(1)|breast(1)|endometrium(1)|kidney(4)|large_intestine(3)|lung(15)|ovary(2)|skin(1)|stomach(2)	30						CGGAACAGGCTTCCAAACTGG	0.453																																																0													81	82	82					12																	104171822		2203	4300	6503	SO:0001583	missense	51559			AB032786	CCDS41824.1	12q22-q23.1	2006-02-03			ENSG00000111696	ENSG00000111696			30826	protein-coding gene	gene with protein product		611076					Standard	NM_001031701		Approved	TU12B1-TY, FLJ11266	uc010swe.1	Q86UY8	OTTHUMG00000157017	ENST00000392876.3:c.1432A>G	12.37:g.104171822T>C	ENSP00000376615:p.Ser478Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NUM7|Q9P2T2|Q9P2T3	Missense_Mutation	SNP	ENST00000392876.3	37	CCDS41824.1	.	.	.	.	.	.	.	.	.	.	T	18.33	3.600902	0.66332	.	.	ENSG00000111696	ENST00000392876	T	0.25749	1.78	5.8	5.8	0.92144	HAD-like domain (1);	0.000000	0.85682	D	0.000000	T	0.62804	0.2458	M	0.93808	3.46	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.73783	-0.3874	10	0.87932	D	0	-36.2887	16.1549	0.81657	0.0:0.0:0.0:1.0	.	478	Q86UY8	NT5D3_HUMAN	G	478	ENSP00000376615:S478G	ENSP00000376615:S478G	S	-	1	0	NT5DC3	102695952	1.000000	0.71417	0.982000	0.44146	0.008000	0.06430	5.939000	0.70179	2.209000	0.71365	0.533000	0.62120	AGC		0.453	NT5DC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347118.2	NM_016575		C	104171822	T	C	104171822	3	2	634	1	0	0	0	0	1	0	0	0	10699	1609	56	3	218	3	NT5DC3	12	104171822	Missense_Mutation	SNP	T	TCGA-KL-8335-01A-11D-2310-10	83649310	104171822	29680073	66	39109										
EBPL	84650	broad.mit.edu	37	chr13	50235138	50235138	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tcactgaactggtttctttcTgatgcattttcttgagttct	7	8	5	3			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr13:50235138T>G	ENST00000242827.6	-	4	637	c.587A>C	c.(586-588)cAg>cCg	p.Q196P	EBPL_ENST00000378270.5_3'UTR|EBPL_ENST00000378284.2_3'UTR|EBPL_ENST00000495963.2_5'UTR|EBPL_ENST00000378272.5_3'UTR	NM_032565.3	NP_115954.1	Q9BY08	EBPL_HUMAN	emopamil binding protein-like	196					sterol metabolic process (GO:0016125)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	cholestenol delta-isomerase activity (GO:0047750)	p.Q196P(2)		endometrium(8)|kidney(6)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	21		Lung NSC(96;0.000468)|Breast(56;0.0011)|Prostate(109;0.00243)|Hepatocellular(98;0.0556)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.06e-09)		GGTTTCTTTCTGATGCATTTT	0.383																																					NSCLC(39;857 1083 36109 42364 51411)											2	Substitution - Missense(2)	endometrium(2)											73	73	73					13																	50235138		2203	4300	6503	SO:0001583	missense	84650			AF243433	CCDS9420.1, CCDS61334.1	13q12-q13	2008-02-05			ENSG00000123179	ENSG00000123179			18061	protein-coding gene	gene with protein product							Standard	NM_032565		Approved	EBRP	uc001vdg.3	Q9BY08	OTTHUMG00000016920	ENST00000242827.6:c.587A>C	13.37:g.50235138T>G	ENSP00000242827:p.Gln196Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJ59|Q569H7|Q5JVN2|Q5JVN3|Q5JVN4|Q5JVN5|Q5JVN6	Missense_Mutation	SNP	ENST00000242827.6	37	CCDS9420.1	.	.	.	.	.	.	.	.	.	.	T	15.06	2.722268	0.48728	.	.	ENSG00000123179	ENST00000242827	D	0.97994	-4.65	5.61	-2.45	0.06481	.	1.466260	0.03646	N	0.240220	D	0.94876	0.8344	L	0.47716	1.5	0.09310	N	1	B	0.09022	0.002	B	0.12837	0.008	D	0.86530	0.1821	10	0.30078	T	0.28	-0.1548	6.1064	0.20075	0.3657:0.0:0.2518:0.3825	.	196	Q9BY08	EBPL_HUMAN	P	196	ENSP00000242827:Q196P	ENSP00000242827:Q196P	Q	-	2	0	EBPL	49133139	0.002000	0.14202	0.003000	0.11579	0.996000	0.88848	-0.059000	0.11731	-0.151000	0.11176	0.528000	0.53228	CAG		0.383	EBPL-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044932.2	NM_032565		G	50235138	T	G	50235138	3	3	634	1	0	0	0	0	1	0	0	0	4889	1580	55	5	37	5	EBPL	13	50235138	Missense_Mutation	SNP	T	TCGA-KL-8335-01A-11D-2310-10		50235138	64934740	67	39110										
C14orf93	60686	hgsc.bcm.edu	37	chr14	23468114	23468114	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tgatgggggtgctgggaggaGgattcccaccctgggagcct	18	9	0	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr14:23468114G>A	ENST00000299088.6	-	2	548	c.119C>T	c.(118-120)cCt>cTt	p.P40L	C14orf93_ENST00000406429.2_Missense_Mutation_p.P40L|C14orf93_ENST00000397379.3_Missense_Mutation_p.P40L|C14orf93_ENST00000557513.1_5'Flank|C14orf93_ENST00000397377.1_Intron|RP11-298I3.4_ENST00000555294.1_RNA|C14orf93_ENST00000341470.4_Missense_Mutation_p.P40L|C14orf93_ENST00000397382.4_Missense_Mutation_p.P40L|RP11-298I3.4_ENST00000556503.1_RNA	NM_001130708.1|NM_021944.2	NP_001124180.1|NP_068763.2	Q9H972	CN093_HUMAN	chromosome 14 open reading frame 93	40						extracellular region (GO:0005576)	poly(A) RNA binding (GO:0044822)			kidney(1)|large_intestine(5)|lung(7)|ovary(1)|skin(2)|urinary_tract(1)	17	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.0127)		GCTGGGAGGAGGATTCCCACC	0.582																																																0													57	54	55					14																	23468114		2203	4300	6503	SO:0001583	missense	60686			AK023026	CCDS9583.1, CCDS61399.1, CCDS61400.1	14q11.1	2012-09-25			ENSG00000100802	ENSG00000100802			20162	protein-coding gene	gene with protein product							Standard	XM_005267971		Approved	FLJ12154	uc001wih.3	Q9H972	OTTHUMG00000028712	ENST00000299088.6:c.119C>T	14.37:g.23468114G>A	ENSP00000299088:p.Pro40Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7WP03|D3DS38|D3DS39|Q86SE6|Q96CF7|Q9HA68	Missense_Mutation	SNP	ENST00000299088.6	37	CCDS9583.1	.	.	.	.	.	.	.	.	.	.	G	24.4	4.532054	0.85812	.	.	ENSG00000100802	ENST00000299088;ENST00000341470;ENST00000397379;ENST00000397382;ENST00000406429;ENST00000397380;ENST00000553675;ENST00000553931;ENST00000555575;ENST00000553958;ENST00000555098;ENST00000555998	T;T;T;T;T;T;T;T;T;T;T;T	0.58060	0.36;0.36;0.36;0.36;0.36;0.36;0.36;0.36;0.36;0.36;0.36;0.36	5.93	5.93	0.95920	.	0.264815	0.33496	N	0.004842	T	0.59307	0.2184	L	0.27053	0.805	0.49798	D	0.999823	D;D	0.61697	0.99;0.99	P;P	0.61592	0.891;0.891	T	0.59925	-0.7362	10	0.56958	D	0.05	-29.0913	17.2707	0.87101	0.0:0.0:1.0:0.0	.	40;40	Q9H972;Q9H972-2	CN093_HUMAN;.	L	40	ENSP00000299088:P40L;ENSP00000341353:P40L;ENSP00000380535:P40L;ENSP00000380538:P40L;ENSP00000384768:P40L;ENSP00000380536:P40L;ENSP00000450771:P40L;ENSP00000452036:P40L;ENSP00000451111:P40L;ENSP00000451456:P40L;ENSP00000450866:P40L;ENSP00000451879:P40L	ENSP00000299088:P40L	P	-	2	0	C14orf93	22537954	1.000000	0.71417	0.998000	0.56505	0.990000	0.78478	5.305000	0.65750	2.826000	0.97356	0.655000	0.94253	CCT		0.582	C14orf93-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071688.5	NM_021944		A	23468114	G	A	23468114	3	1	634	1	0	0	0	0	1	0	0	0	1784	1000	35	2	1521	2	C14orf93	14	23468114	Missense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10		23468114	83881426	68	39111										
COCH	1690	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	31355089	31355089	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	taaagcctctggtacagaagCtgtgcactcatgaacaaatg	9	9	2	2			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr14:31355089C>G	ENST00000396618.3	+	11	1104	c.1048C>G	c.(1048-1050)Ctg>Gtg	p.L350V	COCH_ENST00000382493.4_Missense_Mutation_p.L201V|RP11-829H16.3_ENST00000555421.1_RNA|RP11-829H16.3_ENST00000468444.2_RNA|RP11-829H16.3_ENST00000555108.1_RNA|RP11-829H16.3_ENST00000556786.1_RNA|COCH_ENST00000460581.2_Missense_Mutation_p.L238V|COCH_ENST00000475087.1_Missense_Mutation_p.L350V|COCH_ENST00000216361.4_Missense_Mutation_p.L350V	NM_004086.2	NP_004077.1	O43405	COCH_HUMAN	cochlin	350					defense response to bacterium (GO:0042742)|positive regulation of innate immune response (GO:0045089)|regulation of cell shape (GO:0008360)|sensory perception of sound (GO:0007605)	extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)				central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(7)|pancreas(1)|skin(3)	19	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)		GGTACAGAAGCTGTGCACTCA	0.448																																																0													107	93	98					14																	31355089		2203	4300	6503	SO:0001583	missense	1690				CCDS9640.1	14q11.2-q13	2013-05-01	2013-05-01		ENSG00000100473	ENSG00000100473			2180	protein-coding gene	gene with protein product		603196	"coagulation factor C (Limulus polyphemus homolog); cochlin", "coagulation factor C homolog, cochlin (Limulus polyphemus)"	DFNA31, DFNA9		9806553	Standard	NM_004086		Approved	COCH-5B2	uc001wqp.2	O43405	OTTHUMG00000029432	ENST00000396618.3:c.1048C>G	14.37:g.31355089C>G	ENSP00000379862:p.Leu350Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9K9|D3DS84|Q96IU6	Missense_Mutation	SNP	ENST00000396618.3	37	CCDS9640.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	14.44|14.44	2.536705|2.536705	0.45176|0.45176	.|.	.|.	ENSG00000100473|ENSG00000100473	ENST00000216361;ENST00000396618;ENST00000475087;ENST00000460581;ENST00000382493|ENST00000542225;ENST00000468826	T;T;T;T;T|.	0.38722|.	1.12;1.12;1.12;1.12;1.12|.	5.92|5.92	5.92|5.92	0.95590|0.95590	von Willebrand factor, type A (1);|.	0.059077|.	0.64402|.	D|.	0.000003|.	T|T	0.47691|0.47691	0.1459|0.1459	N|N	0.17800|0.17800	0.525|0.525	0.46823|0.46823	D|D	0.999214|0.999214	D;P;P|.	0.76494|.	0.999;0.816;0.633|.	D;B;B|.	0.77557|.	0.99;0.152;0.108|.	T|T	0.51004|0.51004	-0.8760|-0.8760	10|6	0.02654|0.87932	T|D	1|0	-14.207|-14.207	11.6235|11.6235	0.51132|0.51132	0.0:0.8631:0.0:0.1369|0.0:0.8631:0.0:0.1369	.|.	201;350;350|.	E7EN67;Q96IU6;O43405|.	.;.;COCH_HUMAN|.	V|R	350;350;350;238;201|237;233	ENSP00000216361:L350V;ENSP00000379862:L350V;ENSP00000451528:L350V;ENSP00000451713:L238V;ENSP00000371933:L201V|.	ENSP00000216361:L350V|ENSP00000440215:S237R	L|S	+|+	1|3	2|2	COCH|COCH	30424840|30424840	0.465000|0.465000	0.25815|0.25815	1.000000|1.000000	0.80357|0.80357	0.995000|0.995000	0.86356|0.86356	0.829000|0.829000	0.27449|0.27449	2.794000|2.794000	0.96219|0.96219	0.650000|0.650000	0.86243|0.86243	CTG|AGC		0.448	COCH-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276608.1	NM_004086		G	31355089	C	G	31355089	3	3	634	1	0	0	0	0	1	0	0	0	3658	796	28	4	1086	4	COCH	14	31355089	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	7886975	31355089	75994451	69	39112										
PYGL	5836	broad.mit.edu;mdanderson.org	37	chr14	51375670	51375670	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tcatagtattcttttgcctcGtacctgtggggtaggggtgg	14	7	2	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr14:51375670G>A	ENST00000216392.7	-	18	2513	c.2181C>T	c.(2179-2181)taC>taT	p.Y727Y	PYGL_ENST00000532462.1_Silent_p.Y727Y|PYGL_ENST00000544180.2_Silent_p.Y693Y	NM_002863.4	NP_002854.3	P06737	PYGL_HUMAN	phosphorylase, glycogen, liver	727					5-phosphoribose 1-diphosphate biosynthetic process (GO:0006015)|carbohydrate metabolic process (GO:0005975)|glucose homeostasis (GO:0042593)|glucose metabolic process (GO:0006006)|glycogen catabolic process (GO:0005980)|glycogen metabolic process (GO:0005977)|necroptotic process (GO:0070266)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	AMP binding (GO:0016208)|ATP binding (GO:0005524)|bile acid binding (GO:0032052)|drug binding (GO:0008144)|glucose binding (GO:0005536)|glycogen phosphorylase activity (GO:0008184)|protein homodimerization activity (GO:0042803)|purine nucleobase binding (GO:0002060)|pyridoxal phosphate binding (GO:0030170)|vitamin binding (GO:0019842)			NS(1)|central_nervous_system(2)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(8)|prostate(1)|skin(3)	25	all_epithelial(31;0.00825)|Breast(41;0.148)				Adenosine monophosphate(DB00131)	CTTTTGCCTCGTACCTGTGGG	0.433																																																0													72	73	73					14																	51375670		2203	4300	6503	SO:0001819	synonymous_variant	5836				CCDS32080.1, CCDS53894.1	14q11.2-q24.3	2013-03-01	2008-07-31		ENSG00000100504	ENSG00000100504	2.4.1.1	"Glycogen phosphorylases"	9725	protein-coding gene	gene with protein product	"Hers disease", "glycogen storage disease type VI", "glycogen phosphorylase, liver form"	613741	"phosphorylase, glycogen; liver"			2877458	Standard	NM_002863		Approved		uc001wyu.3	P06737	OTTHUMG00000166596	ENST00000216392.7:c.2181C>T	14.37:g.51375670G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NDQ4|B4DUB7|F5H816|O60567|O60752|O60913|Q501V9|Q641R5|Q96G82	Silent	SNP	ENST00000216392.7	37	CCDS32080.1																																																																																				0.433	PYGL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390654.3	NM_002863		A	51375670	G	A	51375670	2	1	634	1	0	0	0	0	0	0	0	1	12874	1140	40	1		1	PYGL	14	51375670	Silent	SNP	G	TCGA-KL-8335-01A-11D-2310-10	20020581	51375670	55973870	70	39113										
PLD4	122618	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	105394159	105394159	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	catggctccagcccagcttgGgagcccctggaagcagaggc	14	14	0	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr14:105394159G>T	ENST00000392593.4	+	3	408	c.240G>T	c.(238-240)tgG>tgT	p.W80C	PLD4_ENST00000540372.1_Missense_Mutation_p.W87C	NM_138790.2	NP_620145.2	Q96BZ4	PLD4_HUMAN	phospholipase D family, member 4	80					glycerophospholipid biosynthetic process (GO:0046474)|hematopoietic progenitor cell differentiation (GO:0002244)|inositol phosphate metabolic process (GO:0043647)|lipid catabolic process (GO:0016042)|phagocytosis (GO:0006909)|phosphatidylglycerol biosynthetic process (GO:0006655)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|phagocytic vesicle (GO:0045335)|trans-Golgi network membrane (GO:0032588)	N-acylphosphatidylethanolamine-specific phospholipase D activity (GO:0070290)|phosphatidylinositol phospholipase C activity (GO:0004435)|phospholipase D activity (GO:0004630)			central_nervous_system(1)|kidney(1)|large_intestine(1)|lung(7)|ovary(1)|skin(1)|urinary_tract(1)	13		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.00067)|OV - Ovarian serous cystadenocarcinoma(23;0.00976)|Epithelial(46;0.0201)|GBM - Glioblastoma multiforme(11;0.116)			GCCCAGCTTGGGAGCCCCTGG	0.672																																																0													12	16	15					14																	105394159		1990	4160	6150	SO:0001583	missense	122618				CCDS9995.2	14q32.33	2014-01-28	2005-05-20	2005-05-20	ENSG00000166428	ENSG00000166428			23792	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 175"	C14orf175			Standard	XM_006720024		Approved		uc001ypu.1	Q96BZ4	OTTHUMG00000144167	ENST00000392593.4:c.240G>T	14.37:g.105394159G>T	ENSP00000376372:p.Trp80Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UWD2	Missense_Mutation	SNP	ENST00000392593.4	37	CCDS9995.2	.	.	.	.	.	.	.	.	.	.	G	10.83	1.462284	0.26248	.	.	ENSG00000166428	ENST00000540372;ENST00000392593;ENST00000557573	T;T;T	0.25414	1.86;1.88;1.8	1.41	1.41	0.22369	.	.	.	.	.	T	0.19046	0.0457	N	0.14661	0.345	0.18873	N	0.999985	P;P	0.50819	0.939;0.898	P;B	0.50136	0.632;0.428	T	0.09509	-1.0671	9	0.45353	T	0.12	-8.6828	6.2642	0.20917	0.0:0.0:1.0:0.0	.	87;80	F5H2B5;Q96BZ4	.;PLD4_HUMAN	C	87;80;78	ENSP00000438677:W87C;ENSP00000376372:W80C;ENSP00000451278:W78C	ENSP00000376372:W80C	W	+	3	0	PLD4	104465204	0.007000	0.16637	0.004000	0.12327	0.003000	0.03518	0.760000	0.26475	1.107000	0.41642	0.205000	0.17691	TGG		0.672	PLD4-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000291348.2	NM_138790		T	105394159	G	T	105394159	3	4	634	1	0	0	0	0	1	0	0	0	12055	1241	43	4	246	4	PLD4	14	105394159	Missense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10	54018489	105394159	1955381	71	39114										
GABRB3	2562	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	26825479	26825479	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gactcacctgtggcgaagacAacattcctcgagaccagacg	10	13	1	3			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr15:26825479A>T	ENST00000311550.5	-	6	780	c.669T>A	c.(667-669)gtT>gtA	p.V223V	GABRB3_ENST00000545868.1_Silent_p.V138V|GABRB3_ENST00000400188.3_Silent_p.V152V|GABRB3_ENST00000541819.2_Silent_p.V279V|GABRB3_ENST00000299267.4_Silent_p.V223V	NM_000814.5|NM_001278631.1	NP_000805.1|NP_001265560.1	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta 3	223					cellular response to histamine (GO:0071420)|chloride transmembrane transport (GO:1902476)|cochlea development (GO:0090102)|inner ear receptor cell development (GO:0060119)|innervation (GO:0060384)|ion transmembrane transport (GO:0034220)|negative regulation of neuron apoptotic process (GO:0043524)|palate development (GO:0060021)|sensory perception of sound (GO:0007605)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|transport (GO:0006810)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|GABA-A receptor complex (GO:1902711)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	chloride channel activity (GO:0005254)|extracellular ligand-gated ion channel activity (GO:0005230)|GABA-A receptor activity (GO:0004890)|GABA-gated chloride ion channel activity (GO:0022851)			NS(2)|breast(1)|central_nervous_system(1)|cervix(4)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(11)|liver(1)|lung(41)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	68		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Acamprosate(DB00659)|Adinazolam(DB00546)|Alprazolam(DB00404)|Amoxapine(DB00543)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Chlordiazepoxide(DB00475)|Cinolazepam(DB01594)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Clotiazepam(DB01559)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Fludiazepam(DB01567)|Flumazenil(DB01205)|Flurazepam(DB00690)|Fospropofol(DB06716)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Isoflurane(DB00753)|Ivermectin(DB00602)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Piperazine(DB00592)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Topiramate(DB00273)|Triazolam(DB00897)	TGGCGAAGACAACATTCCTCG	0.557																																																0													114	105	108					15																	26825479		2203	4300	6503	SO:0001819	synonymous_variant	2562				CCDS10018.1, CCDS10019.1, CCDS53920.1, CCDS53921.1	15q12	2012-06-22			ENSG00000166206	ENSG00000166206		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4083	protein-coding gene	gene with protein product	"GABA(A) receptor, beta 3"	137192					Standard	NM_000814		Approved		uc001zaz.3	P28472	OTTHUMG00000129231	ENST00000311550.5:c.669T>A	15.37:g.26825479A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2W1|B7Z825|F5H3D2|H7BYV8|Q14352|Q96FM5	Silent	SNP	ENST00000311550.5	37	CCDS10019.1																																																																																				0.557	GABRB3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251352.2			T	26825479	A	T	26825479	2	4	634	1	0	0	0	0	0	0	0	1	6175	117	5	5		5	GABRB3	15	26825479	Silent	SNP	A	TCGA-KL-8335-01A-11D-2310-10		26825479	75705913	72	39115										
AAGAB	79719	bcgsc.ca	37	chr15	67495157	67495166	+	Stop_Codon_Del	DEL	AATTCAGTGC	AATTCAGTGC	-													0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gtcaaaccctagtatgaataAttcagtgctcttcatcagat							TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	AATTCAGTGC	AATTCAGTGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr15:67495157_67495166delAATTCAGTGC	ENST00000261880.5	-	0	1045_1054				AAGAB_ENST00000561452.1_Stop_Codon_Del|AAGAB_ENST00000538028.1_5'UTR|AAGAB_ENST00000542650.1_Stop_Codon_Del	NM_001271885.1|NM_001271886.1|NM_024666.3	NP_001258814.1|NP_001258815.1|NP_078942.3	Q6PD74	AAGAB_HUMAN	alpha- and gamma-adaptin binding protein						protein transport (GO:0015031)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(3)|prostate(1)	9						AGTATGAATAATTCAGTGCTCTTCATCAGA	0.433																																																0																																										SO:0001567	stop_retained_variant	79719			AL136715	CCDS42050.1, CCDS61679.1	15q22.33-q23	2014-02-12	2009-07-20		ENSG00000103591	ENSG00000103591			25662	protein-coding gene	gene with protein product		614888				11230166, 10477754	Standard	NM_024666		Approved	FLJ11506, p34	uc002aqk.5	Q6PD74	OTTHUMG00000172246	Exception_encountered	15.37:g.67495157_67495166delAATTCAGTGC	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	B4DG44|Q6FI86|Q7Z5X9|Q9H0P1|Q9HAK0	Frame_Shift_Del	DEL	ENST00000261880.5	37	CCDS42050.1																																																																																				0.433	AAGAB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000417472.1	NM_024666		-	67495166	AATTCAGTGC	-	67495157	7	5	634	1	0	1	0	1	0	0	0	0	15	116	4	0	1	0	AAGAB	15	67495157	Stop_Codon_Del	DEL	AATTCAGTGC	TCGA-KL-8335-01A-11D-2310-10	40669678	67495157	35036235	73	39116										
HCN4	10021	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	73617514	73617514	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gcatggaggccaccagcttcCgacagttaaagttgatgatc	11	10	0	2			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr15:73617514C>T	ENST00000261917.3	-	6	2753	c.1760G>A	c.(1759-1761)cGg>cAg	p.R587Q		NM_005477.2	NP_005468.1	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic nucleotide-gated potassium channel 4	587					blood circulation (GO:0008015)|cation transport (GO:0006812)|cellular response to cAMP (GO:0071320)|cellular response to cGMP (GO:0071321)|in utero embryonic development (GO:0001701)|muscle contraction (GO:0006936)|potassium ion transmembrane transport (GO:0071805)|regulation of heart rate (GO:0002027)|regulation of membrane potential (GO:0042391)|sodium ion transmembrane transport (GO:0035725)|synaptic transmission (GO:0007268)	integral component of plasma membrane (GO:0005887)|intrinsic component of plasma membrane (GO:0031226)|plasma membrane (GO:0005886)|terminal bouton (GO:0043195)	cAMP binding (GO:0030552)|cation channel activity (GO:0005261)|identical protein binding (GO:0042802)|intracellular cAMP activated cation channel activity (GO:0005222)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated sodium channel activity (GO:0005248)			NS(2)|biliary_tract(1)|breast(1)|endometrium(4)|kidney(1)|large_intestine(13)|liver(1)|lung(18)|ovary(6)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	55				COAD - Colon adenocarcinoma(1;0.142)		CACCAGCTTCCGACAGTTAAA	0.612																																																0													121	114	116					15																	73617514		2198	4297	6495	SO:0001583	missense	10021			AJ132429	CCDS10248.1	15q24.1	2011-07-05			ENSG00000138622	ENSG00000138622		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	16882	protein-coding gene	gene with protein product		605206				10228147, 10430953, 16382102	Standard	NM_005477		Approved		uc002avp.3	Q9Y3Q4	OTTHUMG00000137563	ENST00000261917.3:c.1760G>A	15.37:g.73617514C>T	ENSP00000261917:p.Arg587Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UMQ7	Missense_Mutation	SNP	ENST00000261917.3	37	CCDS10248.1	.	.	.	.	.	.	.	.	.	.	C	19.14	3.770322	0.69992	.	.	ENSG00000138622	ENST00000261917	D	0.96745	-4.11	3.76	2.83	0.33086	Cyclic nucleotide-binding-like (1);	.	.	.	.	D	0.94338	0.8180	M	0.70595	2.14	0.58432	D	0.999997	D	0.65815	0.995	B	0.39590	0.304	D	0.92630	0.6115	9	0.51188	T	0.08	.	13.1458	0.59461	0.0:0.838:0.162:0.0	.	587	Q9Y3Q4	HCN4_HUMAN	Q	587	ENSP00000261917:R587Q	ENSP00000261917:R587Q	R	-	2	0	HCN4	71404567	1.000000	0.71417	0.995000	0.50966	0.985000	0.73830	5.838000	0.69388	0.779000	0.33543	0.561000	0.74099	CGG		0.612	HCN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268900.2	NM_005477		T	73617514	C	T	73617514	3	4	634	1	0	0	0	0	1	0	0	0	7006	652	23	1	1863	1	HCN4	15	73617514	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	6122357	73617514	28913878	74	39117										
A2BP1	54715	hgsc.bcm.edu;ucsc.edu	37	chr16	7383011	7383011	+	Intron	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tctacgtaaagcatgctggcGtctcaaggagttctcctgca	10	11	3	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr16:7383011G>A	ENST00000550418.1	+	5	1015				RBFOX1_ENST00000547338.1_Intron|RBFOX1_ENST00000553186.1_Intron|RBFOX1_ENST00000311745.5_Silent_p.A3A|RBFOX1_ENST00000535565.2_Intron|RBFOX1_ENST00000422070.4_Intron|RBFOX1_ENST00000436368.2_Silent_p.A3A|RBFOX1_ENST00000355637.4_Silent_p.A3A|RBFOX1_ENST00000552089.1_Intron|RBFOX1_ENST00000340209.4_5'UTR|RBFOX1_ENST00000547372.1_Intron	NM_018723.3	NP_061193.2	Q9NWB1	RFOX1_HUMAN	RNA binding protein, fox-1 homolog (C. elegans) 1						mRNA processing (GO:0006397)|neuromuscular process controlling balance (GO:0050885)|regulation of RNA splicing (GO:0043484)|RNA splicing (GO:0008380)|RNA transport (GO:0050658)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|trans-Golgi network (GO:0005802)	nucleotide binding (GO:0000166)|protein C-terminus binding (GO:0008022)|RNA binding (GO:0003723)			breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(11)|lung(17)|ovary(1)|pancreas(1)|prostate(5)|skin(5)|upper_aerodigestive_tract(2)	55						GCATGCTGGCGTCTCAAGGAG	0.478																																					Ovarian(157;934 2567 15163 39509)											0													231	186	201					16																	7383011		2197	4300	6497	SO:0001627	intron_variant	54715			AF107203	CCDS10531.1, CCDS10532.1, CCDS45405.1, CCDS55983.1, CCDS55984.1	16p13.3	2013-02-12			ENSG00000078328	ENSG00000078328		"RNA binding motif (RRM) containing"	18222	protein-coding gene	gene with protein product	"ataxin 2-binding protein 1", "hexaribonucleotide binding protein 1"	605104				10814712, 16260614	Standard	NM_018723		Approved	A2BP1, FOX-1, HRNBP1	uc002cyy.2	Q9NWB1	OTTHUMG00000129551	ENST00000550418.1:c.28-185138G>A	16.37:g.7383011G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z7I7|Q8TAE3|Q8TAF2|Q8WYB2|Q9NS20	Silent	SNP	ENST00000550418.1	37	CCDS55983.1																																																																																				0.478	RBFOX1-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000409492.2	NM_145891		A	7383011	G	A	7383011	1	1	634	0	1	0	0	0	0	0	0	0	3	1132	40	1		1	A2BP1	16	7383011	Intron	SNP	G	TCGA-KL-8335-01A-11D-2310-10		7383011	82971742	75	39118										
RPGRIP1L	23322	broad.mit.edu;mdanderson.org	37	chr16	53644927	53644927	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gtatagcttttaagatgtctCtctttgctttgttgttttct	7	6	3	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr16:53644927C>G	ENST00000379925.3	-	25	3703	c.3653G>C	c.(3652-3654)aGa>aCa	p.R1218T	RPGRIP1L_ENST00000564374.1_Missense_Mutation_p.R1172T|RPGRIP1L_ENST00000563746.1_Missense_Mutation_p.R1184T|RPGRIP1L_ENST00000262135.4_Missense_Mutation_p.R1138T	NM_015272.2	NP_056087.2	Q68CZ1	FTM_HUMAN	RPGRIP1-like	1218					camera-type eye development (GO:0043010)|cerebellum development (GO:0021549)|cilium assembly (GO:0042384)|corpus callosum development (GO:0022038)|determination of left/right symmetry (GO:0007368)|embryonic forelimb morphogenesis (GO:0035115)|embryonic hindlimb morphogenesis (GO:0035116)|establishment or maintenance of cell polarity (GO:0007163)|head development (GO:0060322)|in utero embryonic development (GO:0001701)|kidney development (GO:0001822)|lateral ventricle development (GO:0021670)|liver development (GO:0001889)|negative regulation of G-protein coupled receptor protein signaling pathway (GO:0045744)|neural tube patterning (GO:0021532)|nose development (GO:0043584)|olfactory bulb development (GO:0021772)|pericardium development (GO:0060039)|regulation of smoothened signaling pathway (GO:0008589)	axoneme (GO:0005930)|cell-cell junction (GO:0005911)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cilium (GO:0005929)|cytoplasm (GO:0005737)|tight junction (GO:0005923)	thromboxane A2 receptor binding (GO:0031870)			endometrium(6)|kidney(3)|large_intestine(9)|lung(19)|ovary(2)|prostate(2)|skin(1)|stomach(2)|urinary_tract(2)	46		all_cancers(37;0.0973)				TAAGATGTCTCTCTTTGCTTT	0.333																																																0													233	205	215					16																	53644927		2198	4300	6498	SO:0001583	missense	23322				CCDS32447.1, CCDS45486.1	16q12.2	2014-09-17				ENSG00000103494			29168	protein-coding gene	gene with protein product	"fantom homolog", "Meckel syndrome, type 5", "protein phosphatase 1, regulatory subunit 134"	610937				10231032	Standard	NM_015272		Approved	KIAA1005, CORS3, JBTS7, MKS5, NPHP8, FTM, PPP1R134	uc002ehp.3	Q68CZ1		ENST00000379925.3:c.3653G>C	16.37:g.53644927C>G	ENSP00000369257:p.Arg1218Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJ88|Q9Y2K8	Missense_Mutation	SNP	ENST00000379925.3	37	CCDS32447.1	.	.	.	.	.	.	.	.	.	.	C	20.5	3.998717	0.74818	.	.	ENSG00000103494	ENST00000379925;ENST00000262135	T;D	0.84146	-1.45;-1.81	5.26	5.26	0.73747	.	0.000000	0.85682	D	0.000000	D	0.92420	0.7594	M	0.73598	2.24	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.91635	0.999;0.999;0.999;0.994	D	0.92975	0.6401	10	0.87932	D	0	-16.644	19.2677	0.93996	0.0:1.0:0.0:0.0	.	1172;1172;1218;1138	B4E3M8;B7ZKJ9;Q68CZ1;Q68CZ1-2	.;.;FTM_HUMAN;.	T	1218;1138	ENSP00000369257:R1218T;ENSP00000262135:R1138T	ENSP00000262135:R1138T	R	-	2	0	RPGRIP1L	52202428	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.264000	0.58859	2.617000	0.88574	0.655000	0.94253	AGA		0.333	RPGRIP1L-009	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000422187.1	NM_015272		G	53644927	C	G	53644927	3	3	634	1	0	0	0	0	1	0	0	0	13563	913	32	4	306	4	RPGRIP1L	16	53644927	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	46261916	53644927	36709826	76	39119										
MBTPS1	8720	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr16	84132706	84132706	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ttttcgttggggcgtgacccGtttgatgtttggatgatctt	13	6	1	3	rs150244031		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr16:84132706G>A	ENST00000343411.3	-	3	868	c.373C>T	c.(373-375)Cgg>Tgg	p.R125W		NM_003791.2	NP_003782.1	Q14703	MBTP1_HUMAN	membrane-bound transcription factor peptidase, site 1	125					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|cholesterol metabolic process (GO:0008203)|endoplasmic reticulum unfolded protein response (GO:0030968)|lipid metabolic process (GO:0006629)|lysosome organization (GO:0007040)|proteolysis (GO:0006508)|regulation of transcription factor import into nucleus (GO:0042990)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum lumen (GO:0005788)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi stack (GO:0005795)|integral component of membrane (GO:0016021)	serine-type endopeptidase activity (GO:0004252)			NS(1)|breast(2)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(12)|lung(10)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	41						GGCGTGACCCGTTTGATGTTT	0.418													G|||	1	0.000199681	0.0	0.0	5008	,	,		17262	0.001		0.0	False		,,,				2504	0.0															0													204	187	193					16																	84132706		2200	4300	6500	SO:0001583	missense	8720			D42053	CCDS10941.1	16q24	2008-08-04	2005-08-17		ENSG00000140943	ENSG00000140943			15456	protein-coding gene	gene with protein product		603355	"membrane-bound transcription factor protease, site 1"			9809072, 10944850	Standard	NM_003791		Approved	S1P, KIAA0091, SKI-1, PCSK8	uc002fhi.3	Q14703	OTTHUMG00000137639	ENST00000343411.3:c.373C>T	16.37:g.84132706G>A	ENSP00000344223:p.Arg125Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6V8|Q24JQ2|Q9UF67	Missense_Mutation	SNP	ENST00000343411.3	37	CCDS10941.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	G	23.1	4.380802	0.82792	.	.	ENSG00000140943	ENST00000343411	T	0.42131	0.98	5.61	4.59	0.56863	.	0.000000	0.85682	D	0.000000	T	0.54382	0.1855	M	0.66939	2.045	0.58432	D	0.999997	D	0.76494	0.999	P	0.53809	0.735	T	0.59904	-0.7366	10	0.72032	D	0.01	-26.0657	15.3007	0.73949	0.0:0.0:0.8594:0.1406	.	125	Q14703	MBTP1_HUMAN	W	125	ENSP00000344223:R125W	ENSP00000344223:R125W	R	-	1	2	MBTPS1	82690207	1.000000	0.71417	0.948000	0.38648	0.975000	0.68041	3.038000	0.49783	2.648000	0.89879	0.650000	0.86243	CGG		0.418	MBTPS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269080.2	NM_003791		A	84132706	G	A	84132706	3	1	634	1	0	0	0	0	1	0	0	0	9368	1144	40	1	2869	1	MBTPS1	16	84132706	Missense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10	30487779	84132706	6222047	77	39120										
SLC13A5	284111	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	6606363	6606363	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gtgcccccgatgctggccgcGtagcagatgcacagggtcat	14	13	1	1	rs148755614	byFrequency	TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr17:6606363G>T	ENST00000433363.2	-	5	875	c.642C>A	c.(640-642)taC>taA	p.Y214*	SLC13A5_ENST00000293800.6_Nonsense_Mutation_p.Y197*|SLC13A5_ENST00000573648.1_Nonsense_Mutation_p.Y214*|SLC13A5_ENST00000381074.4_Nonsense_Mutation_p.Y171*	NM_001284510.1|NM_177550.3	NP_001271439.1|NP_808218.1	Q86YT5	S13A5_HUMAN	solute carrier family 13 (sodium-dependent citrate transporter), member 5	214					transmembrane transport (GO:0055085)	basolateral plasma membrane (GO:0016323)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	citrate transmembrane transporter activity (GO:0015137)|sodium:dicarboxylate symporter activity (GO:0017153)|succinate transmembrane transporter activity (GO:0015141)			breast(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(9)|prostate(5)|skin(3)|urinary_tract(1)	26						TGCTGGCCGCGTAGCAGATGC	0.622																																																0													146	118	127					17																	6606363		2203	4300	6503	SO:0001587	stop_gained	284111			AJ489980	CCDS11079.1, CCDS45593.1, CCDS67136.1, CCDS67137.1	17p13.1	2013-05-22			ENSG00000141485	ENSG00000141485		"Solute carriers"	23089	protein-coding gene	gene with protein product		608305				12445824	Standard	NM_001284510		Approved	NACT	uc002gdj.3	Q86YT5	OTTHUMG00000102052	ENST00000433363.2:c.642C>A	17.37:g.6606363G>T	ENSP00000406220:p.Tyr214*	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXR0|B7Z4P2|B7ZLB4|F8W7N2|Q6ZMG1	Nonsense_Mutation	SNP	ENST00000433363.2	37	CCDS11079.1	.	.	.	.	.	.	.	.	.	.	G	8.165	0.790370	0.16258	.	.	ENSG00000141485	ENST00000293800;ENST00000433363;ENST00000381074	.	.	.	5.47	-10.9	0.00192	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	16.9377	0.86207	0.4812:0.0:0.5188:0.0	.	.	.	.	X	214;214;171	.	ENSP00000293800:Y214X	Y	-	3	2	SLC13A5	6547087	0.005000	0.15991	0.049000	0.19019	0.093000	0.18481	-1.261000	0.02855	-2.109000	0.00838	-1.421000	0.01109	TAC		0.622	SLC13A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219853.2	NM_177550		T	6606363	G	T	6606363	4	4	634	1	0	0	0	0	0	1	0	0	14408	1140	40	4	1096	4	SLC13A5	17	6606363	Nonsense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10		6606363	74588847	78	39121										
AMAC1L3	643664	mdanderson.org	37	chr17	7385436	7385436	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	atggcctgctggtggccctgCtgggtgggggcctgcctgct	18	12	0	0	rs199848902	byFrequency	TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr17:7385436C>A	ENST00000412468.2	+	2	248	c.133C>A	c.(133-135)Ctg>Atg	p.L45M	ZBTB4_ENST00000380599.4_5'Flank|ZBTB4_ENST00000311403.4_Intron|POLR2A_ENST00000322644.6_5'Flank|POLR2A_ENST00000572844.1_5'Flank	NM_001102614.1	NP_001096084.1	P0C7Q6	S35G6_HUMAN	solute carrier family 35, member G6	45						integral component of membrane (GO:0016021)											GGTGGCCCTGCTGGGTGGGGG	0.662																																																0													39	46	44					17																	7385436		2203	4298	6501	SO:0001583	missense	643664				CCDS45603.1	17p13.1	2013-05-22	2011-08-03	2011-08-03		ENSG00000259224		"Solute carriers"	31351	protein-coding gene	gene with protein product			"transmembrane protein 21B", "acyl-malonyl condensing enzyme 1-like 3"	TMEM21B, AMAC1L3			Standard	NM_001102614		Approved		uc010cmj.1	P0C7Q6		ENST00000412468.2:c.133C>A	17.37:g.7385436C>A	ENSP00000396523:p.Leu45Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000412468.2	37	CCDS45603.1	.	.	.	.	.	.	.	.	.	.	c	0.220	-1.029059	0.02045	.	.	ENSG00000181222	ENST00000412468	T	0.35421	1.31	4.21	0.736	0.18307	.	.	.	.	.	T	0.22859	0.0552	N	0.24115	0.695	0.26348	N	0.977258	B	0.18013	0.025	B	0.21360	0.034	T	0.21690	-1.0238	9	0.41790	T	0.15	-3.4659	7.3485	0.26676	0.0:0.4871:0.3423:0.1706	.	45	P0C7Q6	S35G6_HUMAN	M	45	ENSP00000396523:L45M	ENSP00000396523:L45M	L	+	1	2	SLC35G6	7326160	0.999000	0.42202	0.999000	0.59377	0.019000	0.09904	0.383000	0.20651	0.055000	0.16094	-2.899000	0.00093	CTG		0.662	SLC35G6-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001102614		A	7385436	C	A	7385436	3	1	634	1	0	0	0	0	1	0	0	0	561	796	28	4	139	4	AMAC1L3	17	7385436	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	779073	7385436	73809774	79	39122										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	7577018	7577018	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	cttcttgtcctgcttgcttaCctcgcttagtgctccctggg	9	14	1	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr17:7577018C>T	ENST00000269305.4	-	8	1109		c.e8+1		TP53_ENST00000455263.2_Splice_Site|TP53_ENST00000420246.2_Splice_Site|TP53_ENST00000445888.2_Splice_Site|TP53_ENST00000413465.2_Intron|TP53_ENST00000359597.4_Splice_Site|TP53_ENST00000574684.1_5'Flank	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53						apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.?(28)|p.0?(8)|p.A307fs*34(1)|p.L308fs*31(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	TGCTTGCTTACCTCGCTTAGT	0.562		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	38	Unknown(28)|Whole gene deletion(8)|Deletion - Frameshift(2)	lung(7)|breast(7)|bone(4)|upper_aerodigestive_tract(3)|central_nervous_system(3)|large_intestine(2)|stomach(2)|haematopoietic_and_lymphoid_tissue(2)|ovary(2)|biliary_tract(1)|endometrium(1)|urinary_tract(1)|skin(1)|oesophagus(1)|prostate(1)	GRCh37	CD920913	TP53	D							127	112	117					17																	7577018		2203	4300	6503	SO:0001630	splice_region_variant	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.919+1G>A	17.37:g.7577018C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Splice_Site	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	C	9.710	1.156918	0.21454	.	.	ENSG00000141510	ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000509690	.	.	.	4.81	3.84	0.44239	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	9.038	0.36300	0.0:0.9:0.0:0.1	.	.	.	.	.	-1	.	.	.	-	.	.	TP53	7517743	1.000000	0.71417	0.939000	0.37840	0.223000	0.24884	4.456000	0.60081	1.259000	0.44117	0.561000	0.74099	.		0.562	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546	Intron	T	7577018	C	T	7577018	5	4	634	1	0	0	0	0	0	0	1	0	16393	521	18	2	366	2	TP53	17	7577018	Splice_Site	SNP	C	TCGA-KL-8335-01A-11D-2310-10	191582	7577018	73618192	80	39123										
SGSH	6448	broad.mit.edu	37	chr17	78190941	78190941	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	caaggcgtccaggtgcggggTggcgatggcgctgttgttgt	19	8	0	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr17:78190941T>G	ENST00000326317.6	-	2	225	c.139A>C	c.(139-141)Acc>Ccc	p.T47P	SGSH_ENST00000570923.1_Silent_p.P58P|SGSH_ENST00000534910.1_5'UTR|SGSH_ENST00000572208.1_5'UTR	NM_000199.3	NP_000190.1	P51688	SPHM_HUMAN	N-sulfoglucosamine sulfohydrolase	47					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|proteoglycan metabolic process (GO:0006029)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)	catalytic activity (GO:0003824)|metal ion binding (GO:0046872)|N-sulfoglucosamine sulfohydrolase activity (GO:0016250)|sulfuric ester hydrolase activity (GO:0008484)			central_nervous_system(1)|large_intestine(1)|lung(2)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	10	all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			AGGTGCGGGGTGGCGATGGCG	0.662																																																0													44	48	47					17																	78190941		2198	4293	6491	SO:0001583	missense	6448			BC047318	CCDS11770.1	17q25.3	2011-11-08	2008-07-31			ENSG00000181523	3.10.1.1		10818	protein-coding gene	gene with protein product	"sulfamidase", "mucopolysaccharidosis type IIIA"	605270				7493035	Standard	NM_000199		Approved	HSS, MPS3A, SFMD	uc002jxz.4	P51688		ENST00000326317.6:c.139A>C	17.37:g.78190941T>G	ENSP00000314606:p.Thr47Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5E2	Missense_Mutation	SNP	ENST00000326317.6	37	CCDS11770.1	.	.	.	.	.	.	.	.	.	.	T	24.7	4.559069	0.86335	.	.	ENSG00000181523	ENST00000326317	D	0.98362	-4.89	4.42	4.42	0.53409	Alkaline phosphatase-like, alpha/beta/alpha (1);Sulfatase (1);Alkaline-phosphatase-like, core domain (1);	0.115205	0.64402	D	0.000020	D	0.99137	0.9702	M	0.93241	3.395	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.997	D	0.99301	1.0901	10	0.87932	D	0	-30.697	13.6498	0.62304	0.0:0.0:0.0:1.0	.	47;50	P51688;Q59EB1	SPHM_HUMAN;.	P	47	ENSP00000314606:T47P	ENSP00000314606:T47P	T	-	1	0	SGSH	75805536	1.000000	0.71417	0.604000	0.28916	0.979000	0.70002	7.404000	0.79996	1.609000	0.50190	0.528000	0.53228	ACC		0.662	SGSH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437695.1	NM_000199		G	78190941	T	G	78190941	3	3	634	1	0	0	0	0	1	0	0	0	14234	1696	59	5	1397	5	SGSH	17	78190941	Missense_Mutation	SNP	T	TCGA-KL-8335-01A-11D-2310-10	70613923	78190941	3004269	81	39124										
CEP192	55125	broad.mit.edu	37	chr18	13049583	13049583	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gaagaaatacgagataacagAgaaaatcagaggcaaaatga	10	4	1	5			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr18:13049583A>G	ENST00000325971.8	+	14	2598	c.1005A>G	c.(1003-1005)agA>agG	p.R335R	CEP192_ENST00000506447.1_Silent_p.R931R|CEP192_ENST00000430049.2_Silent_p.R456R			Q8TEP8	CE192_HUMAN	centrosomal protein 192kDa	335					centrosome duplication (GO:0051298)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|negative regulation of phosphatase activity (GO:0010923)|spindle assembly (GO:0051225)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)	phosphatase binding (GO:0019902)			NS(1)|breast(4)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(12)|lung(36)|ovary(4)|pancreas(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	71						GAGATAACAGAGAAAATCAGA	0.383																																																0													112	116	115					18																	13049583		2202	4298	6500	SO:0001819	synonymous_variant	55125			AK074074	CCDS32792.1, CCDS32792.2	18p11.21	2014-02-20				ENSG00000101639		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	25515	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 62"					11230166, 14654843	Standard	NM_032142		Approved	KIAA1569, FLJ10352, PPP1R62	uc010xac.2	Q8TEP8		ENST00000325971.8:c.1005A>G	18.37:g.13049583A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0A060A9S4|E9PF99|Q8WYT8|Q9H0F4|Q9NW27	Silent	SNP	ENST00000325971.8	37																																																																																					0.383	CEP192-201	KNOWN	basic	protein_coding	protein_coding		NM_032142		G	13049583	A	G	13049583	2	3	634	1	0	0	0	0	0	0	0	1	3253	301	11	3		3	CEP192	18	13049583	Silent	SNP	A	TCGA-KL-8335-01A-11D-2310-10		13049583	65027665	82	39125										
ZNF208	7757	mdanderson.org	37	chr19	22155783	22155783	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tttctctccagtatgaattaCcttatgtttagtaaggattg	7	6	1	1	rs199604702		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr19:22155783C>T	ENST00000397126.4	-	4	2201	c.2053G>A	c.(2053-2055)Gta>Ata	p.V685I	ZNF208_ENST00000601773.1_Intron|ZNF208_ENST00000599916.1_Intron	NM_007153.3	NP_009084.2	O43345	ZN208_HUMAN	zinc finger protein 208	685					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(18)|liver(1)|lung(71)|ovary(6)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	113		all_lung(12;0.0961)|Lung NSC(12;0.103)				GTATGAATTACCTTATGTTTA	0.383																																																0													37	38	37					19																	22155783		1986	4182	6168	SO:0001583	missense	7757			BC038199	CCDS54240.1	19p12	2013-01-08				ENSG00000160321		"Zinc fingers, C2H2-type", "-"	12999	protein-coding gene	gene with protein product	"zinc finger protein 95"	603977				9724325	Standard	NM_007153		Approved	PMIDP, ZNF95	uc021urr.1	O43345		ENST00000397126.4:c.2053G>A	19.37:g.22155783C>T	ENSP00000380315:p.Val685Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000397126.4	37	CCDS54240.1	.	.	.	.	.	.	.	.	.	.	C	4.480	0.089023	0.08583	.	.	ENSG00000160321	ENST00000397126;ENST00000428290	T	0.17054	2.3	2.43	-4.86	0.03132	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.11024	0.0269	.	.	.	0.09310	N	1	B	0.25441	0.126	B	0.24701	0.055	T	0.29852	-0.9998	8	0.42905	T	0.14	.	9.3378	0.38060	0.0:0.3337:0.0:0.6663	.	585	O43345	ZN208_HUMAN	I	685;585	ENSP00000380315:V685I	ENSP00000380315:V685I	V	-	1	0	ZNF208	21947623	0.000000	0.05858	0.000000	0.03702	0.010000	0.07245	-6.732000	0.00055	-1.081000	0.03105	-1.169000	0.01745	GTA		0.383	ZNF208-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464302.1	NM_007153		T	22155783	C	T	22155783	3	4	634	1	0	0	0	0	1	0	0	0	17778	507	18	2	1793	2	ZNF208	19	22155783	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10		22155783	36973200	83	39126										
TSHZ3	57616	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	31770165	31770165	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	agcatgcggctctgtgacacCtgctgcagcgtcttagccat	11	13	2	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr19:31770165C>A	ENST00000240587.4	-	2	861	c.534G>T	c.(532-534)caG>caT	p.Q178H		NM_020856.2	NP_065907.2	Q63HK5	TSH3_HUMAN	teashirt zinc finger homeobox 3	178					in utero embryonic development (GO:0001701)|kidney morphogenesis (GO:0060993)|kidney smooth muscle cell differentiation (GO:0072195)|lung development (GO:0030324)|metanephros development (GO:0001656)|musculoskeletal movement (GO:0050881)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of smooth muscle cell differentiation (GO:0051152)|regulation of respiratory gaseous exchange by neurological system process (GO:0002087)|sensory perception of touch (GO:0050975)|transcription, DNA-templated (GO:0006351)|ureter smooth muscle cell differentiation (GO:0072193)|ureteric bud development (GO:0001657)|ureteric peristalsis (GO:0072105)	growth cone (GO:0030426)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(4)|endometrium(15)|kidney(9)|large_intestine(20)|lung(60)|ovary(4)|pancreas(2)|prostate(4)|skin(5)	123	Esophageal squamous(110;0.226)					TCTGTGACACCTGCTGCAGCG	0.637																																																0													40	40	40					19																	31770165		2203	4300	6503	SO:0001583	missense	57616			AL136805	CCDS12421.2	19q13.11	2013-11-20	2007-07-16	2006-03-14	ENSG00000121297	ENSG00000121297		"Teashirt zinc fingers", "Homeoboxes / ZF class", "Zinc fingers, C2H2-type"	30700	protein-coding gene	gene with protein product	"teashirt 3"	614119	"zinc finger protein 537", "teashirt family zinc finger 3"	ZNF537			Standard	NM_020856		Approved	KIAA1474, TSH3	uc002nsy.4	Q63HK5	OTTHUMG00000150184	ENST00000240587.4:c.534G>T	19.37:g.31770165C>A	ENSP00000240587:p.Gln178His	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H0G6|Q9P254	Missense_Mutation	SNP	ENST00000240587.4	37	CCDS12421.2	.	.	.	.	.	.	.	.	.	.	C	12.57	1.978299	0.34942	.	.	ENSG00000121297	ENST00000240587	T	0.14640	2.49	5.44	1.8	0.24995	.	0.076230	0.53938	N	0.000059	T	0.10809	0.0264	L	0.42245	1.32	0.46185	D	0.998919	P	0.44578	0.838	B	0.42422	0.387	T	0.09357	-1.0678	10	0.62326	D	0.03	-12.9685	2.8247	0.05482	0.0:0.3714:0.237:0.3916	.	178	Q63HK5	TSH3_HUMAN	H	178	ENSP00000240587:Q178H	ENSP00000240587:Q178H	Q	-	3	2	TSHZ3	36462005	0.993000	0.37304	1.000000	0.80357	0.997000	0.91878	0.314000	0.19432	0.639000	0.30564	0.655000	0.94253	CAG		0.637	TSHZ3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316743.2	NM_020856		A	31770165	C	A	31770165	3	1	634	1	0	0	0	0	1	0	0	0	16637	680	24	4	2715	4	TSHZ3	19	31770165	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	9614382	31770165	27358818	84	39127										
LRP3	4037	mdanderson.org	37	chr19	33697546	33697546	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	acgcgcctggaggctgagttCgtgcggcgggaggcaccccc	17	14	0	1	rs1056041	byFrequency	TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr19:33697546C>T	ENST00000253193.7	+	6	1834	c.1632C>T	c.(1630-1632)ttC>ttT	p.F544F	CTD-2540B15.13_ENST00000609744.1_RNA	NM_002333.3	NP_002324.2	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein 3	544					receptor-mediated endocytosis (GO:0006898)	coated pit (GO:0005905)|integral component of membrane (GO:0016021)				breast(1)|kidney(1)|large_intestine(1)|lung(9)|ovary(1)|pancreas(2)	15	Esophageal squamous(110;0.137)					AGGCTGAGTTCGTGCGGCGGG	0.652													C|||	253	0.0505192	0.0098	0.0764	5008	,	,		15119	0.121		0.0447	False		,,,				2504	0.0204															0								C		101,4305	79.9+/-118.3	0,101,2102	90	86	87		1632	1	1	19	dbSNP_86	87	462,8138	137.5+/-194.4	15,432,3853	no	coding-synonymous	LRP3	NM_002333.3		15,533,5955	TT,TC,CC		5.3721,2.2923,4.3288		544/771	33697546	563,12443	2203	4300	6503	SO:0001819	synonymous_variant	4037			AB009462	CCDS12430.1	19q13.11	2013-05-30			ENSG00000130881	ENSG00000130881		"Low density lipoprotein receptors"	6695	protein-coding gene	gene with protein product		603159				9693042, 7959795	Standard	NM_002333		Approved	LRP-3, hLRp105	uc010edh.3	O75074	OTTHUMG00000180343	ENST00000253193.7:c.1632C>T	19.37:g.33697546C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KQD6|B4DKF2	Silent	SNP	ENST00000253193.7	37	CCDS12430.1																																																																																				0.652	LRP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450842.4			T	33697546	C	T	33697546	2	4	634	1	0	0	0	0	0	0	0	1	8965	883	31	1		1	LRP3	19	33697546	Silent	SNP	C	TCGA-KL-8335-01A-11D-2310-10	1927381	33697546	25431437	85	39128										
NPHS1	4868	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	36342723	36342723	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gcaggagagaagccctgagcGtcgtccccagggccatcaca	13	14	1	2	rs150180768		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr19:36342723G>A	ENST00000378910.5	-	1	16	c.17C>T	c.(16-18)aCg>aTg	p.T6M	NPHS1_ENST00000591817.1_Intron|NPHS1_ENST00000353632.6_Missense_Mutation_p.T6M	NM_004646.3	NP_004637.1	O60500	NPHN_HUMAN	nephrosis 1, congenital, Finnish type (nephrin)	6					cell adhesion (GO:0007155)|excretion (GO:0007588)|glomerular basement membrane development (GO:0032836)|glomerular visceral epithelial cell development (GO:0072015)|JNK cascade (GO:0007254)|myoblast fusion (GO:0007520)|positive regulation of actin filament polymerization (GO:0030838)|regulation of excretion (GO:0044062)|skeletal muscle tissue development (GO:0007519)	cell projection (GO:0042995)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|slit diaphragm (GO:0036057)	myosin binding (GO:0017022)			NS(2)|breast(1)|cervix(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(16)|liver(1)|lung(26)|ovary(5)|prostate(1)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(1)	74	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)			AGCCCTGAGCGTCGTCCCCAG	0.637													g|||	1	0.000199681	0.0	0.0014	5008	,	,		13427	0.0		0.0	False		,,,				2504	0.0															0								A	MET/THR	1,4273		0,1,2136	52	41	45		17	-9.1	0	19	dbSNP_134	45	0,8332		0,0,4166	no	missense	NPHS1	NM_004646.3	81	0,1,6302	AA,AG,GG		0.0,0.0234,0.0079	benign	6/1242	36342723	1,12605	2137	4166	6303	SO:0001583	missense	4868				CCDS32996.1	19q12-q13.1	2014-09-17				ENSG00000161270		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	7908	protein-coding gene	gene with protein product		602716				9915943, 9660941	Standard	NM_004646		Approved	CNF, NPHN	uc002oby.3	O60500		ENST00000378910.5:c.17C>T	19.37:g.36342723G>A	ENSP00000368190:p.Thr6Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDH2|C3RX61	Missense_Mutation	SNP	ENST00000378910.5	37	CCDS32996.1	.	.	.	.	.	.	.	.	.	.	g	8.225	0.803396	0.16397	2.34E-4	0.0	ENSG00000161270	ENST00000378910;ENST00000353632	T;T	0.73469	-0.73;-0.75	4.55	-9.11	0.00711	.	2.209620	0.01832	N	0.034790	T	0.38612	0.1047	N	0.03608	-0.345	0.09310	N	1	B	0.06786	0.001	B	0.01281	0.0	T	0.49995	-0.8879	10	0.02654	T	1	0.0983	2.0626	0.03596	0.4264:0.0955:0.2857:0.1924	.	6	O60500	NPHN_HUMAN	M	6	ENSP00000368190:T6M;ENSP00000343634:T6M	ENSP00000343634:T6M	T	-	2	0	NPHS1	41034563	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.640000	0.02009	-2.213000	0.00735	-2.211000	0.00300	ACG		0.637	NPHS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452553.1			A	36342723	G	A	36342723	3	1	634	1	0	0	0	0	1	0	0	0	10589	1145	40	1	3824	1	NPHS1	19	36342723	Missense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10	2645177	36342723	22786260	86	39129										
ZFP82	284406	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	36884930	36884930	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ccatggttttcaattctttcCattatcttccactgggataa	5	10	3	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr19:36884930C>T	ENST00000392161.3	-	5	554	c.312G>A	c.(310-312)atG>atA	p.M104I	ZFP82_ENST00000392171.1_Missense_Mutation_p.M104I	NM_133466.2	NP_597723.1	Q8N141	ZFP82_HUMAN	ZFP82 zinc finger protein	104					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(7)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	25						CAATTCTTTCCATTATCTTCC	0.328																																																0													74	80	78					19																	36884930		2203	4299	6502	SO:0001583	missense	284406			AL834267	CCDS12493.1	19q13.13	2013-01-08	2012-11-27	2008-07-01		ENSG00000181007		"Zinc fingers, C2H2-type", "-"	28682	protein-coding gene	gene with protein product			"zinc finger protein 545", "zinc finger protein 82 homolog (mouse)", "zinc finger protein 82"	ZNF545		11853319	Standard	NM_133466		Approved	MGC45380, KIAA1948	uc002ody.1	Q8N141		ENST00000392161.3:c.312G>A	19.37:g.36884930C>T	ENSP00000431265:p.Met104Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC63|Q8TF53	Missense_Mutation	SNP	ENST00000392161.3	37	CCDS12493.1	.	.	.	.	.	.	.	.	.	.	C	7.193	0.591840	0.13812	.	.	ENSG00000181007	ENST00000392161;ENST00000392171	T;T	0.07021	3.31;3.23	4.58	4.58	0.56647	.	0.000000	0.46442	D	0.000300	T	0.06826	0.0174	N	0.17278	0.47	0.29209	N	0.874688	B	0.14012	0.009	B	0.15484	0.013	T	0.13415	-1.0510	10	0.33940	T	0.23	.	16.6902	0.85319	0.0:1.0:0.0:0.0	.	104	Q8N141	ZFP82_HUMAN	I	104	ENSP00000431265:M104I;ENSP00000446080:M104I	ENSP00000431265:M104I	M	-	3	0	ZFP82	41576770	0.283000	0.24277	1.000000	0.80357	0.744000	0.42396	1.150000	0.31639	2.548000	0.85928	0.650000	0.86243	ATG		0.328	ZFP82-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000109552.2	NM_133466		T	36884930	C	T	36884930	3	4	634	1	0	0	0	0	1	0	0	0	17665	594	21	2	1290	2	ZFP82	19	36884930	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	542207	36884930	22244053	87	39130										
ZNF260	339324	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	37006030	37006030	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tctacaaggttttgcttcagGctaaaagtttttctacattc	6	8	3	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr19:37006030G>A	ENST00000523638.1	-	3	1232	c.111C>T	c.(109-111)agC>agT	p.S37S	ZNF260_ENST00000588993.1_Silent_p.S37S|ZNF260_ENST00000592282.1_Silent_p.S37S|ZNF260_ENST00000593142.1_Silent_p.S37S	NM_001166036.1|NM_001166037.1|NM_001166038.1	NP_001159508.1|NP_001159509.1|NP_001159510.1	Q3ZCT1	ZN260_HUMAN	zinc finger protein 260	37					multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(8)	15	Esophageal squamous(110;0.162)					TTTGCTTCAGGCTAAAAGTTT	0.373																																																0													104	103	104					19																	37006030		2203	4300	6503	SO:0001819	synonymous_variant	339324			AK122854	CCDS33003.1	19q13.12	2013-01-08				ENSG00000254004		"Zinc fingers, C2H2-type"	13499	protein-coding gene	gene with protein product		613749					Standard	NM_001166036		Approved	ozrf1, Zfp260	uc002oed.2	Q3ZCT1		ENST00000523638.1:c.111C>T	19.37:g.37006030G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q0VF43	Silent	SNP	ENST00000523638.1	37	CCDS33003.1																																																																																				0.373	ZNF260-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109564.2	NM_001012756		A	37006030	G	A	37006030	2	1	634	1	0	0	0	0	0	0	0	1	17814	1194	42	2		2	ZNF260	19	37006030	Silent	SNP	G	TCGA-KL-8335-01A-11D-2310-10	121100	37006030	22122953	88	39131										
LTBP4	8425	bcgsc.ca	37	chr19	41112172	41112172	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	agtgagcgccccagatggacCttgtccaaccggctttgaaa	11	12	0	3			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr19:41112172C>T	ENST00000308370.7	+	8	1028	c.1028C>T	c.(1027-1029)cCt>cTt	p.P343L	LTBP4_ENST00000602240.1_3'UTR|LTBP4_ENST00000204005.9_Missense_Mutation_p.P306L|RN7SL758P_ENST00000580450.1_RNA|LTBP4_ENST00000545697.1_5'UTR|LTBP4_ENST00000396819.3_Missense_Mutation_p.P276L	NM_001042544.1	NP_001036009.1	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding protein 4	343					extracellular matrix organization (GO:0030198)|growth hormone secretion (GO:0030252)|multicellular organismal development (GO:0007275)|protein folding (GO:0006457)|regulation of cell differentiation (GO:0045595)|regulation of cell growth (GO:0001558)|regulation of proteolysis (GO:0030162)|regulation of transforming growth factor beta receptor signaling pathway (GO:0017015)|transforming growth factor beta receptor signaling pathway (GO:0007179)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|glycosaminoglycan binding (GO:0005539)|integrin binding (GO:0005178)|transforming growth factor beta binding (GO:0050431)|transforming growth factor beta-activated receptor activity (GO:0005024)			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CCAGATGGACCTTGTCCAACC	0.622																																																0													21	23	22					19																	41112172		1914	4122	6036	SO:0001583	missense	8425			Y13622	CCDS74368.1, CCDS74369.1, CCDS74370.1	19q13.1-q13.2	2011-10-20				ENSG00000090006		"Latent transforming growth factor, beta binding proteins"	6717	protein-coding gene	gene with protein product		604710				9660815, 9271198	Standard	NM_003573		Approved	LTBP-4, LTBP-4L, FLJ46318, FLJ90018	uc002ooh.1	Q8N2S1		ENST00000308370.7:c.1028C>T	19.37:g.41112172C>T	ENSP00000311905:p.Pro343Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O00508|O75412|O75413	Missense_Mutation	SNP	ENST00000308370.7	37		.	.	.	.	.	.	.	.	.	.	C	12.15	1.852756	0.32699	.	.	ENSG00000090006	ENST00000204005;ENST00000308370;ENST00000396819	D;D;D	0.90788	-2.73;-2.73;-2.73	3.95	2.88	0.33553	Matrix fibril-associated (2);	0.488989	0.15274	N	0.271066	T	0.82235	0.4993	N	0.22421	0.69	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.04013	0.0;0.001;0.001	T	0.73411	-0.3991	10	0.27785	T	0.31	.	9.6525	0.39906	0.0:0.8921:0.0:0.1079	.	276;343;306	E7EUU1;Q8N2S1;E7ENG9	.;LTBP4_HUMAN;.	L	306;343;276	ENSP00000204005:P306L;ENSP00000311905:P343L;ENSP00000380031:P276L	ENSP00000204005:P306L	P	+	2	0	LTBP4	45804012	0.970000	0.33590	0.989000	0.46669	0.504000	0.33889	1.970000	0.40520	0.840000	0.34995	0.305000	0.20034	CCT		0.622	LTBP4-203	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_003573		T	41112172	C	T	41112172	3	4	634	1	0	0	0	0	1	0	0	0	9083	681	24	2	1351	2	LTBP4	19	41112172	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	4106142	41112172	18016811	89	39132										
CYP2A7	1549	broad.mit.edu;mdanderson.org	37	chr19	41384783	41384783	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ccagcccttgcagcaacttaAaggcctgttgctgtggtcct	10	13	0	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr19:41384783A>T	ENST00000301146.4	-	5	1254	c.713T>A	c.(712-714)tTt>tAt	p.F238Y	CTC-490E21.12_ENST00000601627.1_Intron|CYP2A7_ENST00000291764.3_Missense_Mutation_p.F187Y	NM_000764.2	NP_000755.2	P20853	CP2A7_HUMAN	cytochrome P450, family 2, subfamily A, polypeptide 7	238						endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)	aromatase activity (GO:0070330)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|oxygen binding (GO:0019825)			endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(6)|lung(7)|ovary(4)|pancreas(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	27			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			CAGCAACTTAAAGGCCTGTTG	0.542																																																0													106	85	92					19																	41384783		2203	4298	6501	SO:0001583	missense	1549			NM_000764	CCDS12569.1, CCDS42570.1	19q13.2	2013-07-25	2003-01-14		ENSG00000198077	ENSG00000198077		"Cytochrome P450s"	2611	protein-coding gene	gene with protein product		608054	"cytochrome P450, subfamily IIA (phenobarbital-inducible), polypeptide 7"			7668294, 15128046	Standard	NM_030589		Approved	CYP2A	uc002opm.3	P20853	OTTHUMG00000182715	ENST00000301146.4:c.713T>A	19.37:g.41384783A>T	ENSP00000301146:p.Phe238Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q13121	Missense_Mutation	SNP	ENST00000301146.4	37	CCDS12569.1	.	.	.	.	.	.	.	.	.	.	A	3.487	-0.104571	0.06967	.	.	ENSG00000198077	ENST00000301146;ENST00000291764	T;T	0.68903	-0.36;-0.36	2.18	1.04	0.20106	.	0.000000	0.85682	D	0.000000	T	0.54822	0.1882	L	0.43757	1.38	0.09310	N	1	B;B;B	0.18863	0.004;0.002;0.031	B;B;B	0.33042	0.018;0.008;0.157	T	0.43081	-0.9413	10	0.25106	T	0.35	.	5.7992	0.18403	0.5777:0.0:0.0:0.4223	.	238;187;238	B7ZKR0;F8W816;P20853	.;.;CP2A7_HUMAN	Y	238;187	ENSP00000301146:F238Y;ENSP00000291764:F187Y	ENSP00000291764:F187Y	F	-	2	0	CYP2A7	46076623	0.000000	0.05858	0.001000	0.08648	0.097000	0.18754	0.133000	0.15912	0.072000	0.16694	0.155000	0.16302	TTT		0.542	CYP2A7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463269.2	NM_030589		T	41384783	A	T	41384783	3	4	634	1	0	0	0	0	1	0	0	0	4165	14	1	5	791	5	CYP2A7	19	41384783	Missense_Mutation	SNP	A	TCGA-KL-8335-01A-11D-2310-10	272611	41384783	17744200	90	39133										
CYP2F1	1572	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	41628786	41628786	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ctgctgatgaccacacataaCctgctctttggcggcaccaa	8	14	1	2			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr19:41628786C>A	ENST00000331105.2	+	7	954	c.882C>A	c.(880-882)aaC>aaA	p.N294K		NM_000774.3	NP_000765.2	P24903	CP2F1_HUMAN	cytochrome P450, family 2, subfamily F, polypeptide 1	294					naphthalene metabolic process (GO:0018931)|response to toxic substance (GO:0009636)|small molecule metabolic process (GO:0044281)|trichloroethylene metabolic process (GO:0018979)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)|intracellular membrane-bounded organelle (GO:0043231)	aromatase activity (GO:0070330)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen (GO:0016712)|oxygen binding (GO:0019825)			central_nervous_system(2)|endometrium(4)|kidney(2)|large_intestine(4)|liver(2)|lung(11)|ovary(2)|skin(2)	29						CCACACATAACCTGCTCTTTG	0.572																																																0													244	174	198					19																	41628786		2203	4300	6503	SO:0001583	missense	1572			J02906	CCDS12572.1	19q13.1-q13.2	2008-02-05	2003-01-14		ENSG00000197446	ENSG00000197446		"Cytochrome P450s"	2632	protein-coding gene	gene with protein product		124070	"cytochrome P450, subfamily IIF, polypeptide 1"	CYP2F			Standard	NM_000774		Approved		uc002opu.1	P24903	OTTHUMG00000167412	ENST00000331105.2:c.882C>A	19.37:g.41628786C>A	ENSP00000333534:p.Asn294Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A7KAU6|A7KAU7|A7KAU8|A7KAU9|A7KAV0|Q32MN5|Q8WWJ2	Missense_Mutation	SNP	ENST00000331105.2	37	CCDS12572.1	.	.	.	.	.	.	.	.	.	.	c	12.73	2.024986	0.35701	.	.	ENSG00000197446	ENST00000331105	T	0.68479	-0.33	2.85	1.79	0.24919	.	0.175028	0.47093	U	0.000243	T	0.77631	0.4159	M	0.76838	2.35	0.36093	D	0.843621	D;D;D	0.89917	1.0;1.0;0.988	D;D;P	0.78314	0.991;0.983;0.724	T	0.79836	-0.1635	10	0.87932	D	0	.	7.3987	0.26952	0.0:0.859:0.0:0.141	.	80;294;294	B4DL83;Q32MN5;P24903	.;.;CP2F1_HUMAN	K	294	ENSP00000333534:N294K	ENSP00000333534:N294K	N	+	3	2	CYP2F1	46320626	0.228000	0.23718	0.786000	0.31890	0.139000	0.21198	0.433000	0.21477	0.414000	0.25790	0.398000	0.26397	AAC		0.572	CYP2F1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394527.2			A	41628786	C	A	41628786	3	1	634	1	0	0	0	0	1	0	0	0	4173	506	18	4	904	4	CYP2F1	19	41628786	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	244003	41628786	17500197	91	39134										
NLRP4	147945	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	56373450	56373450	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	atacctgagcttcaccctcaCgaaactctctcgtgatgaca	6	14	3	3			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr19:56373450C>T	ENST00000301295.6	+	5	2533	c.2111C>T	c.(2110-2112)aCg>aTg	p.T704M	NLRP4_ENST00000346986.5_Missense_Mutation_p.T704M|NLRP4_ENST00000587891.1_Missense_Mutation_p.T629M	NM_134444.4	NP_604393.2	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	704					inflammatory response (GO:0006954)|innate immune response (GO:0045087)|positive regulation of type I interferon production (GO:0032481)|regulation of type I interferon production (GO:0032479)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)			breast(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(14)|lung(3)|ovary(6)|pancreas(1)|skin(5)|stomach(1)|upper_aerodigestive_tract(8)	42		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		TTCACCCTCACGAAACTCTCT	0.463																																																0													147	134	138					19																	56373450		2203	4300	6503	SO:0001583	missense	147945			AF479747	CCDS12936.1	19q13.43	2009-03-27	2006-12-08	2006-12-08				"Nucleotide-binding domain and leucine rich repeat containing"	22943	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 4", "cancer/testis antigen 58"	609645	"NACHT, leucine rich repeat and PYD containing 4"	NALP4		12563287, 12019269	Standard	NM_134444		Approved	PYPAF4, FLJ32126, PAN2, RNH2, CLR19.5, CT58	uc002qmd.4	Q96MN2		ENST00000301295.6:c.2111C>T	19.37:g.56373450C>T	ENSP00000301295:p.Thr704Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q86W87|Q96AY6	Missense_Mutation	SNP	ENST00000301295.6	37	CCDS12936.1	.	.	.	.	.	.	.	.	.	.	C	12.34	1.909368	0.33721	.	.	ENSG00000160505	ENST00000301295;ENST00000346986	T;T	0.54279	0.58;0.58	3.26	-3.02	0.05446	.	.	.	.	.	T	0.60379	0.2264	M	0.69523	2.12	0.09310	N	1	D;D;D	0.71674	0.992;0.998;0.998	P;D;P	0.62955	0.843;0.909;0.814	T	0.52771	-0.8531	9	0.54805	T	0.06	.	4.1785	0.10363	0.0:0.3701:0.1775:0.4525	.	704;629;704	Q96MN2-2;Q96MN2-3;Q96MN2	.;.;NALP4_HUMAN	M	704	ENSP00000301295:T704M;ENSP00000344787:T704M	ENSP00000301295:T704M	T	+	2	0	NLRP4	61065262	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	0.150000	0.16263	-0.499000	0.06623	-0.253000	0.11424	ACG		0.463	NLRP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457367.2	NM_134444		T	56373450	C	T	56373450	3	4	634	1	0	0	0	0	1	0	0	0	10486	536	19	1	2125	1	NLRP4	19	56373450	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	14744664	56373450	2755533	92	39135										
ZNF773	374928	mdanderson.org	37	chr19	58016677	58016677	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tcgttttccttaggacttgcAtcttccaagacccatgaaat	6	11	1	2	rs199730365		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr19:58016677A>G	ENST00000282292.4	+	3	311	c.171A>G	c.(169-171)gcA>gcG	p.A57A	ZNF773_ENST00000599847.1_Silent_p.A57A|ZNF773_ENST00000593916.1_Silent_p.A56A|AC003005.4_ENST00000601674.1_3'UTR|ZNF773_ENST00000598770.1_Silent_p.A56A	NM_198542.1	NP_940944.1	Q6PK81	ZN773_HUMAN	zinc finger protein 773	57	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(6)|ovary(1)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	22		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)		TAGGACTTGCATCTTCCAAGA	0.468																																																0													77	75	76					19																	58016677		2202	4281	6483	SO:0001819	synonymous_variant	374928			BC005167	CCDS33134.1	19q13.43	2013-01-08	2006-12-15	2006-12-15		ENSG00000152439		"Zinc fingers, C2H2-type", "-"	30487	protein-coding gene	gene with protein product			"zinc finger protein 419B"	ZNF419B		12477932	Standard	NM_198542		Approved	MGC4728	uc002qox.3	Q6PK81		ENST00000282292.4:c.171A>G	19.37:g.58016677A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q96DL8	Silent	SNP	ENST00000282292.4	37	CCDS33134.1																																																																																				0.468	ZNF773-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000466475.1	NM_198542		G	58016677	A	G	58016677	2	3	634	1	0	0	0	0	0	0	0	1	18158	204	8	3		3	ZNF773	19	58016677	Silent	SNP	A	TCGA-KL-8335-01A-11D-2310-10	1643227	58016677	1112306	93	39136										
KCNS1	3787	ucsc.edu	37	chr20	43726792	43726792	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	cccgggttctccatggtcagCcagaggcggcggcgcaggcg	17	14	2	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr20:43726792C>T	ENST00000306117.1	-	4	1017	c.621G>A	c.(619-621)tgG>tgA	p.W207*	KCNS1_ENST00000537075.1_Nonsense_Mutation_p.W207*	NM_002251.3	NP_002242.2	Q96KK3	KCNS1_HUMAN	potassium voltage-gated channel, delayed-rectifier, subfamily S, member 1	207					potassium ion transport (GO:0006813)|protein homooligomerization (GO:0051260)|synaptic transmission (GO:0007268)	plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|potassium channel regulator activity (GO:0015459)			endometrium(1)|lung(3)|ovary(1)|stomach(1)	6		Myeloproliferative disorder(115;0.0122)				CCATGGTCAGCCAGAGGCGGC	0.692																																																0													7	9	8					20																	43726792		1923	3859	5782	SO:0001587	stop_gained	3787			AF043473	CCDS13342.1	20q12	2011-07-05			ENSG00000124134	ENSG00000124134		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6300	protein-coding gene	gene with protein product		602905				9305895, 16382104	Standard	NM_002251		Approved	Kv9.1	uc002xnc.3	Q96KK3	OTTHUMG00000033079	ENST00000306117.1:c.621G>A	20.37:g.43726792C>T	ENSP00000307694:p.Trp207*	Somatic		WXS	Illumina HiSeq	Phase_I	A2RUL9|B7ZM31|O43652|Q6DJU6	Nonsense_Mutation	SNP	ENST00000306117.1	37	CCDS13342.1	.	.	.	.	.	.	.	.	.	.	C	38	6.849962	0.97885	.	.	ENSG00000124134	ENST00000306117;ENST00000537075	.	.	.	4.7	3.73	0.42828	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	13.0704	0.59057	0.0:0.9207:0.0:0.0793	.	.	.	.	X	207	.	ENSP00000307694:W207X	W	-	3	0	KCNS1	43160206	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.739000	0.62080	0.946000	0.37632	0.555000	0.69702	TGG		0.692	KCNS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080507.3	NM_002251		T	43726792	C	T	43726792	4	4	634	1	0	0	0	0	0	1	0	0	8095	740	26	2	967	2	KCNS1	20	43726792	Nonsense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10		43726792	19298728	94	39137										
SLC13A3	64849	bcgsc.ca	37	chr20	45212262	45212262	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	cctttgggacgggaagaagaAcaagatggtgacaatagcca	13	7	0	4			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr20:45212262A>G	ENST00000279027.4	-	9	1186	c.1168T>C	c.(1168-1170)Ttc>Ctc	p.F390L	SLC13A3_ENST00000413164.2_Missense_Mutation_p.F340L|SLC13A3_ENST00000396360.1_Missense_Mutation_p.F308L|SLC13A3_ENST00000472148.1_Missense_Mutation_p.F308L|SLC13A3_ENST00000464518.1_5'UTR|SLC13A3_ENST00000290317.5_Missense_Mutation_p.F343L|SLC13A3_ENST00000495082.1_Missense_Mutation_p.F343L|SLC13A3_ENST00000435032.1_Silent_p.C12C	NM_001193342.1|NM_022829.5	NP_001180271.1|NP_073740.2	Q8WWT9	S13A3_HUMAN	solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 3	390					transmembrane transport (GO:0055085)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	high-affinity sodium:dicarboxylate symporter activity (GO:0015362)			breast(2)|endometrium(2)|kidney(2)|large_intestine(9)|lung(12)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	31		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)	GGGAAGAAGAACAAGATGGTG	0.562																																																0													133	112	119					20																	45212262		2203	4300	6503	SO:0001583	missense	64849			AF154121	CCDS13400.1, CCDS42886.1, CCDS54469.1, CCDS54470.1	20q13.12	2013-05-22			ENSG00000158296	ENSG00000158296		"Solute carriers"	14430	protein-coding gene	gene with protein product		606411				10794676, 10992006	Standard	NM_001011554		Approved	NADC3, SDCT2	uc002xsf.2	Q8WWT9	OTTHUMG00000033042	ENST00000279027.4:c.1168T>C	20.37:g.45212262A>G	ENSP00000279027:p.Phe390Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DIR8|E1P5U4|F6WI18|Q5JYC9|Q5JYD0|Q5JYD1|Q5TCQ2|Q8IVB1|Q8N8K4|Q96MM5|Q9BR25|Q9H1G1|Q9H3W4|Q9NQN5|Q9NS04	Missense_Mutation	SNP	ENST00000279027.4	37	CCDS13400.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	28.7|28.7	4.939668|4.939668	0.92526|0.92526	.|.	.|.	ENSG00000158296|ENSG00000158296	ENST00000290317;ENST00000396360;ENST00000279027;ENST00000472148;ENST00000413164;ENST00000495082;ENST00000468915|ENST00000450298	T;T;T;T;T;T;T|.	0.02103|.	4.45;4.6;4.45;4.6;4.45;4.45;4.45|.	5.73|5.73	5.73|5.73	0.89815|0.89815	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.79452|0.79452	0.4448|0.4448	M|M	0.85945|0.85945	2.785|2.785	0.80722|0.80722	D|D	1|1	P;D;P;D|.	0.59357|.	0.903;0.981;0.473;0.985|.	B;P;B;P|.	0.60286|.	0.393;0.797;0.27;0.872|.	T|T	0.81929|0.81929	-0.0708|-0.0708	10|5	0.87932|.	D|.	0|.	-36.4623|-36.4623	16.0152|16.0152	0.80434|0.80434	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	340;308;343;390|.	B4DIR8;Q8WWT9-3;F6WI18;Q8WWT9|.	.;.;.;S13A3_HUMAN|.	L|A	343;308;390;308;340;343;343|219	ENSP00000290317:F343L;ENSP00000379648:F308L;ENSP00000279027:F390L;ENSP00000420177:F308L;ENSP00000415852:F340L;ENSP00000419621:F343L;ENSP00000417784:F343L|.	ENSP00000279027:F390L|.	F|V	-|-	1|2	0|0	SLC13A3|SLC13A3	44645669|44645669	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.970000|0.970000	0.65996|0.65996	8.182000|8.182000	0.89698|0.89698	2.180000|2.180000	0.69256|0.69256	0.533000|0.533000	0.62120|0.62120	TTC|GTT		0.562	SLC13A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080329.2			G	45212262	A	G	45212262	3	3	634	1	0	0	0	0	1	0	0	0	14406	43	2	3	660	3	SLC13A3	20	45212262	Missense_Mutation	SNP	A	TCGA-KL-8335-01A-11D-2310-10	1485470	45212262	17813258	95	39138										
ZNF831	128611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	57767954	57767954	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gcaggtgtacggggatgagaCgttcaaaaggatctaccaga	14	7	2	2			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr20:57767954C>T	ENST00000371030.2	+	1	1880	c.1880C>T	c.(1879-1881)aCg>aTg	p.T627M		NM_178457.1	NP_848552.1	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	627							metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(15)|lung(71)|ovary(2)|pancreas(1)|prostate(4)|skin(16)|upper_aerodigestive_tract(2)|urinary_tract(3)	125	all_lung(29;0.0085)					GGGGATGAGACGTTCAAAAGG	0.592																																																0													57	67	64					20																	57767954		2053	4197	6250	SO:0001583	missense	128611			AL121919	CCDS42894.1	20q13.32	2008-10-20	2008-03-25	2008-03-25	ENSG00000124203	ENSG00000124203			16167	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 174"	C20orf174			Standard	NM_178457		Approved	dJ492J12.1	uc002yan.3	Q5JPB2	OTTHUMG00000032864	ENST00000371030.2:c.1880C>T	20.37:g.57767954C>T	ENSP00000360069:p.Thr627Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TDR4|Q8TCP0	Missense_Mutation	SNP	ENST00000371030.2	37	CCDS42894.1	.	.	.	.	.	.	.	.	.	.	C	18.52	3.642329	0.67244	.	.	ENSG00000124203	ENST00000371030	T	0.21932	1.98	5.21	5.21	0.72293	.	0.000000	0.56097	D	0.000032	T	0.45054	0.1323	L	0.56769	1.78	0.45995	D	0.998803	D	0.89917	1.0	D	0.83275	0.996	T	0.39901	-0.9591	10	0.87932	D	0	-23.4817	17.7439	0.88414	0.0:1.0:0.0:0.0	.	627	Q5JPB2	ZN831_HUMAN	M	627	ENSP00000360069:T627M	ENSP00000360069:T627M	T	+	2	0	ZNF831	57201349	1.000000	0.71417	0.918000	0.36340	0.553000	0.35397	5.953000	0.70290	2.423000	0.82170	0.655000	0.94253	ACG		0.592	ZNF831-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000079916.2	NM_178457		T	57767954	C	T	57767954	3	4	634	1	0	0	0	0	1	0	0	0	18197	536	19	1	1882	1	ZNF831	20	57767954	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	12555692	57767954	5257566	96	39139										
ERG	2078	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr21	39755470	39755470	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	ggagggctggagggtggggcGccacaaagttcatcttctgt	17	8	3	0			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr21:39755470G>A	ENST00000417133.2	-	12	1501	c.1316C>T	c.(1315-1317)gCg>gTg	p.A439V	ERG_ENST00000288319.7_Missense_Mutation_p.A432V|ERG_ENST00000398910.1_Missense_Mutation_p.A416V|ERG_ENST00000398905.1_Missense_Mutation_p.A408V|ERG_ENST00000442448.1_Missense_Mutation_p.A415V|ERG_ENST00000453032.2_Missense_Mutation_p.A340V|ERG_ENST00000398911.1_Missense_Mutation_p.A415V|ERG_ENST00000398897.1_Missense_Mutation_p.A316V|ERG_ENST00000398919.2_Missense_Mutation_p.A439V|ERG_ENST00000398907.1_Missense_Mutation_p.A409V	NM_001136154.1|NM_001243432.1	NP_001129626.1|NP_001230361.1	Q12809	KCNH2_HUMAN	v-ets avian erythroblastosis virus E26 oncogene homolog	0					cardiac muscle contraction (GO:0060048)|cellular response to drug (GO:0035690)|membrane depolarization during action potential (GO:0086010)|membrane repolarization during action potential (GO:0086011)|membrane repolarization during cardiac muscle cell action potential (GO:0086013)|negative regulation of potassium ion export (GO:1902303)|negative regulation of potassium ion transmembrane transport (GO:1901380)|positive regulation of potassium ion transmembrane transport (GO:1901381)|potassium ion export (GO:0071435)|potassium ion homeostasis (GO:0055075)|potassium ion transmembrane transport (GO:0071805)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of heart rate by hormone (GO:0003064)|regulation of membrane potential (GO:0042391)|regulation of membrane repolarization (GO:0060306)|regulation of potassium ion transmembrane transport (GO:1901379)|regulation of ventricular cardiac muscle cell membrane repolarization (GO:0060307)|synaptic transmission (GO:0007268)|ventricular cardiac muscle cell action potential (GO:0086005)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|nuclear envelope (GO:0005635)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|identical protein binding (GO:0042802)|inward rectifier potassium channel activity (GO:0005242)|phosphorelay sensor kinase activity (GO:0000155)|protein homodimerization activity (GO:0042803)|ubiquitin protein ligase binding (GO:0031625)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated potassium channel activity involved in ventricular cardiac muscle cell action potential repolarization (GO:1902282)		EWSR1/ERG(178)|NDRG1/ERG(5)|TMPRSS2/ERG(3582)|FUS/ERG(167)|SLC45A3/ERG(50)	lung(2)|ovary(1)|skin(1)	4		Prostate(19;3.6e-06)			Alfuzosin(DB00346)|Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Chlorpromazine(DB00477)|Cisapride(DB00604)|Dofetilide(DB00204)|Doxazosin(DB00590)|Doxepin(DB01142)|Dronedarone(DB04855)|Halofantrine(DB01218)|Ibutilide(DB00308)|Imipramine(DB00458)|Miconazole(DB01110)|Pimozide(DB01100)|Prazosin(DB00457)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terazosin(DB01162)|Thioridazine(DB00679)|Verapamil(DB00661)	AGGGTGGGGCGCCACAAAGTT	0.572			T	"EWSR1, TMPRSS2, ELF4, FUS, HERPUD1, NDRG1"	"Ewing sarcoma, prostate, AML"																																Esophageal Squamous(130;336 1700 3010 3083 40589)		Dom	yes		21	21q22.3	2078	v-ets erythroblastosis virus E26 oncogene like (avian)		"M, E, L"	0													49	50	49					21																	39755470		2203	4300	6503	SO:0001583	missense	2078				CCDS13657.1, CCDS13658.1, CCDS46648.1, CCDS46649.1, CCDS58789.1	21q22.3	2013-07-09	2013-07-09		ENSG00000157554	ENSG00000157554			3446	protein-coding gene	gene with protein product	"v-ets avian erythroblastosis virus E26 oncogene related", "transcriptional regulator ERG (transforming protein ERG)", "v-ets erythroblastosis virus E26 oncogene like", "TMPRSS2-ERG prostate cancer specific"	165080	"v-ets avian erythroblastosis virus E26 oncogene related"			3274086	Standard	NM_001136154		Approved	erg-3, p55	uc002yxa.3	P11308	OTTHUMG00000090767	ENST00000417133.2:c.1316C>T	21.37:g.39755470G>A	ENSP00000414150:p.Ala439Val	Somatic		WXS	Illumina HiSeq	Phase_I	A5H1P7|C4PFH9|D3DX04|O75418|O75680|Q708S9|Q9BT72|Q9BUT7|Q9H3P0	Missense_Mutation	SNP	ENST00000417133.2	37	CCDS46648.1	.	.	.	.	.	.	.	.	.	.	G	18.52	3.640809	0.67244	.	.	ENSG00000157554	ENST00000398905;ENST00000398907;ENST00000288319;ENST00000398897;ENST00000398911;ENST00000417133;ENST00000398910;ENST00000442448;ENST00000453032;ENST00000398919	T;T;T;T;T;T;T;T;T;T	0.54071	0.59;0.59;0.59;0.59;0.59;0.59;0.59;0.59;0.59;0.59	5.3	5.3	0.74995	.	0.360808	0.31566	N	0.007439	T	0.50565	0.1623	L	0.52573	1.65	0.80722	D	1	B;B;B;B	0.23854	0.024;0.048;0.092;0.08	B;B;B;B	0.25759	0.018;0.029;0.063;0.063	T	0.43196	-0.9406	10	0.27082	T	0.32	.	18.9951	0.92809	0.0:0.0:1.0:0.0	.	439;408;415;432	P11308;B5MDW0;P11308-1;P11308-4	ERG_HUMAN;.;.;.	V	408;409;432;316;415;439;416;415;340;439	ENSP00000381877:A408V;ENSP00000381879:A409V;ENSP00000288319:A432V;ENSP00000381871:A316V;ENSP00000381882:A415V;ENSP00000414150:A439V;ENSP00000381881:A416V;ENSP00000394694:A415V;ENSP00000396268:A340V;ENSP00000381891:A439V	ENSP00000288319:A432V	A	-	2	0	ERG	38677340	1.000000	0.71417	0.977000	0.42913	0.967000	0.64934	8.005000	0.88553	2.462000	0.83206	0.655000	0.94253	GCG		0.572	ERG-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000207532.2	NM_182918		A	39755470	G	A	39755470	3	1	634	1	0	0	0	0	1	0	0	0	5224	1087	38	1	148	1	ERG	21	39755470	Missense_Mutation	SNP	G	TCGA-KL-8335-01A-11D-2310-10		39755470	8374425	97	39140										
C21orf29	54084	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr21	45987842	45987842	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	tatcctgatcccgcttgtggCgccatcagaagggaccactt	10	13	1	2			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr21:45987842C>T	ENST00000323084.4	-	2	195	c.130G>A	c.(130-132)Gcc>Acc	p.A44T	TSPEAR_ENST00000397916.1_5'UTR	NM_001272037.1|NM_144991.2	NP_001258966.1|NP_659428.2	Q8WU66	TSEAR_HUMAN	thrombospondin-type laminin G domain and EAR repeats	44					sensory perception of sound (GO:0007605)	cell surface (GO:0009986)|ciliary membrane (GO:0060170)|extracellular region (GO:0005576)|stereocilium (GO:0032420)				breast(1)|central_nervous_system(6)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(7)|lung(7)|ovary(1)|pancreas(1)|skin(6)|soft_tissue(1)|upper_aerodigestive_tract(2)	37						CCGCTTGTGGCGCCATCAGAA	0.597																																																0													62	56	58					21																	45987842		2203	4300	6503	SO:0001583	missense	54084			AJ487962	CCDS13712.1, CCDS74801.1	21q22.3	2012-10-30	2011-01-25	2011-01-25	ENSG00000175894	ENSG00000175894			1268	protein-coding gene	gene with protein product		612920	"chromosome 21 open reading frame 29", "deafness, autosomal recessive 98"	C21orf29, DFNB98		12095917, 22678063	Standard	NM_144991		Approved	MGC11251, TSP-EAR	uc002zfe.1	Q8WU66	OTTHUMG00000041215	ENST00000323084.4:c.130G>A	21.37:g.45987842C>T	ENSP00000321987:p.Ala44Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000323084.4	37	CCDS13712.1	.	.	.	.	.	.	.	.	.	.	c	3.616	-0.078592	0.07141	.	.	ENSG00000175894	ENST00000323084;ENST00000397918;ENST00000341581	T	0.40225	1.04	4.88	-1.4	0.08968	Concanavalin A-like lectin/glucanase (1);	1.112690	0.06793	U	0.787278	T	0.29783	0.0744	L	0.56769	1.78	0.09310	N	0.999992	B	0.31837	0.342	B	0.17098	0.017	T	0.18461	-1.0336	10	0.11182	T	0.66	0.2249	5.7612	0.18201	0.1232:0.5092:0.0:0.3676	.	44	Q8WU66	TSEAR_HUMAN	T	44	ENSP00000321987:A44T	ENSP00000321987:A44T	A	-	1	0	TSPEAR	44812270	0.001000	0.12720	0.000000	0.03702	0.030000	0.12068	0.359000	0.20233	-0.099000	0.12263	-0.218000	0.12543	GCC		0.597	TSPEAR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098761.1	NM_144991		T	45987842	C	T	45987842	3	4	634	1	0	0	0	0	1	0	0	0	2126	768	27	1	1923	1	C21orf29	21	45987842	Missense_Mutation	SNP	C	TCGA-KL-8335-01A-11D-2310-10	6232372	45987842	2142053	98	39141										
SGSM3	27352	hgsc.bcm.edu;ucsc.edu	37	chr22	40802519	40802519	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	atcccgtcgcagatggaggaCgcggagctgcttctgggggt	17	10	1	1			TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chr22:40802519C>T	ENST00000248929.9	+	10	1227	c.1038C>T	c.(1036-1038)gaC>gaT	p.D346D	SGSM3_ENST00000454798.2_Silent_p.D279D	NM_015705.4	NP_056520.2			small G protein signaling modulator 3											cervix(1)|endometrium(4)|large_intestine(1)|lung(4)|ovary(2)|prostate(1)|skin(6)	19						AGATGGAGGACGCGGAGCTGC	0.632																																																0													40	35	37					22																	40802519		2203	4300	6503	SO:0001819	synonymous_variant	27352			AL022238	CCDS14002.1	22q13.1-q13.2	2013-07-09	2007-08-14	2007-08-14	ENSG00000100359	ENSG00000100359		"Small G protein signaling modulators"	25228	protein-coding gene	gene with protein product	"RUN and SH3 containing 3"	610440	"RUN and TBC1 domain containing 3"	RUTBC3		11214971, 17509819	Standard	XM_005261572		Approved	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5	uc003ayu.1	Q96HU1	OTTHUMG00000151141	ENST00000248929.9:c.1038C>T	22.37:g.40802519C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000248929.9	37	CCDS14002.1																																																																																				0.632	SGSM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321504.2	NM_015705		T	40802519	C	T	40802519	2	4	634	1	0	0	0	0	0	0	0	1	14237	535	19	1		1	SGSM3	22	40802519	Silent	SNP	C	TCGA-KL-8335-01A-11D-2310-10		40802519	10502047	99	39142										
ABCD1	215	mdanderson.org	37	chrX	153006076	153006076	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	0.585611850917973	3.58687258687259	0.318833118833119	1	1	0	gaccaggtgatctacccggaCtcagtggaggacatgcaaag	13	10	2	1	rs199997983		TCGA-KL-8335-01A-11D-2310-10	TCGA-KL-8335-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8718bf72-de76-4fbd-9a6e-4692c67e38c1	3e52626f-e481-4859-8aab-36cd2b5f5375	g.chrX:153006076C>T	ENST00000218104.3	+	7	2082	c.1683C>T	c.(1681-1683)gaC>gaT	p.D561D	U52111.14_ENST00000434284.1_RNA	NM_000033.3	NP_000024.2	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member 1	561	ABC transporter. {ECO:0000255|PROSITE- ProRule:PRU00434}.				alpha-linolenic acid metabolic process (GO:0036109)|ATP catabolic process (GO:0006200)|cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation (GO:0006635)|fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)|linoleic acid metabolic process (GO:0043651)|long-chain fatty acid catabolic process (GO:0042758)|peroxisomal long-chain fatty acid import (GO:0015910)|peroxisomal membrane transport (GO:0015919)|peroxisome organization (GO:0007031)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|unsaturated fatty acid metabolic process (GO:0033559)|very long-chain fatty acid catabolic process (GO:0042760)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|integral component of peroxisomal membrane (GO:0005779)|membrane (GO:0016020)|mitochondrion (GO:0005739)|perinuclear region of cytoplasm (GO:0048471)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|peroxisomal fatty-acyl-CoA transporter activity (GO:0005325)|protein homodimerization activity (GO:0042803)|transporter activity (GO:0005215)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(6)|urinary_tract(2)	18	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TCTACCCGGACTCAGTGGAGG	0.637																																																0													81	65	70					X																	153006076		2203	4300	6503	SO:0001819	synonymous_variant	215			Z21876	CCDS14728.1	Xq28	2012-03-14			ENSG00000101986	ENSG00000101986		"ATP binding cassette transporters / subfamily D"	61	protein-coding gene	gene with protein product		300371		ALD		8441467, 6795626	Standard	NM_000033		Approved	AMN, ALDP, adrenoleukodystrophy	uc004fif.2	P33897	OTTHUMG00000024215	ENST00000218104.3:c.1683C>T	X.37:g.153006076C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6GTZ2	Silent	SNP	ENST00000218104.3	37	CCDS14728.1																																																																																				0.637	ABCD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000061041.1	NM_000033		T	153006076	C	T	153006076	2	4	634	1	0	0	0	0	0	0	0	1	60	564	20	2		2	ABCD1	23	153006076	Silent	SNP	C	TCGA-KL-8335-01A-11D-2310-10		153006076	2264484	100	39143										
PER3	8863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	7887260	7887260	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	aagctgccggagccgccagaCagcagcagctcgaacaccgg	13	15	0	1	rs201449626		TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr1:7887260C>G	ENST00000361923.2	+	17	2422	c.2247C>G	c.(2245-2247)gaC>gaG	p.D749E	PER3_ENST00000377532.3_Missense_Mutation_p.D757E|RP3-467L1.4_ENST00000451646.1_RNA	NM_016831.1	NP_058515.1	P56645	PER3_HUMAN	period circadian clock 3	749	CSNK1E binding domain. {ECO:0000250}.				circadian regulation of gene expression (GO:0032922)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of circadian sleep/wake cycle, sleep (GO:0045187)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	signal transducer activity (GO:0004871)			breast(4)|central_nervous_system(3)|cervix(2)|endometrium(2)|kidney(2)|large_intestine(9)|lung(8)|ovary(1)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	39	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		AGCCGCCAGACAGCAGCAGCT	0.652													C|||	1	0.000199681	0.0	0.0	5008	,	,		14619	0.0		0.001	False		,,,				2504	0.0															0													25	31	29					1																	7887260		2190	4279	6469	SO:0001583	missense	8863			BC026102	CCDS89.1, CCDS72695.1	1p36.23	2012-12-13	2012-12-13		ENSG00000049246	ENSG00000049246			8847	protein-coding gene	gene with protein product		603427	"period (Drosophila) homolog 3", "period homolog 3 (Drosophila)"			9427249	Standard	XM_005263520		Approved		uc001aoo.3	P56645	OTTHUMG00000001216	ENST00000361923.2:c.2247C>G	1.37:g.7887260C>G	ENSP00000355031:p.Asp749Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5H8X4|Q5H8X5|Q969K6|Q96S77|Q96S78|Q9C0J3|Q9NSP9|Q9UGU8	Missense_Mutation	SNP	ENST00000361923.2	37	CCDS89.1	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	C	10.58	1.390390	0.25118	.	.	ENSG00000049246	ENST00000377532;ENST00000361923	T;T	0.10477	2.87;2.87	4.43	0.178	0.15058	.	4.474110	0.00669	N	0.000634	T	0.13457	0.0326	L	0.56396	1.775	0.09310	N	1	P;P;P;P	0.44946	0.709;0.761;0.846;0.709	B;B;B;B	0.38683	0.202;0.145;0.279;0.202	T	0.38693	-0.9649	10	0.38643	T	0.18	.	8.3664	0.32389	0.0:0.5211:0.0:0.4789	.	749;757;757;749	A2I2N5;A6H8X0;P56645-2;P56645	.;.;.;PER3_HUMAN	E	757;749	ENSP00000366755:D757E;ENSP00000355031:D749E	ENSP00000355031:D749E	D	+	3	2	PER3	7809847	0.000000	0.05858	0.000000	0.03702	0.027000	0.11550	0.269000	0.18589	0.113000	0.18004	0.561000	0.74099	GAC		0.652	PER3-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000003607.1	NM_016831		G	7887260	C	G	7887260	3	3	635	1	0	0	0	0	1	0	0	0	11738	477	17	4	2313	4	PER3	1	7887260	Missense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10		7887260	241363361	1	39144										
LRRC40	55631	broad.mit.edu;bcgsc.ca	37	chr1	70641632	70641632	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	tttaagatgttctgcctctaAcatttcaatctggttttcac	5	9	5	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr1:70641632A>T	ENST00000370952.3	-	7	917	c.838T>A	c.(838-840)Tta>Ata	p.L280I		NM_017768.4	NP_060238.3	Q9H9A6	LRC40_HUMAN	leucine rich repeat containing 40	280						membrane (GO:0016020)				breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(5)|lung(10)|ovary(1)|prostate(1)|skin(2)	27						TCTGCCTCTAACATTTCAATC	0.318																																																0													107	105	106					1																	70641632		2203	4300	6503	SO:0001583	missense	55631				CCDS646.1	1p31.1	2008-02-05			ENSG00000066557	ENSG00000066557			26004	protein-coding gene	gene with protein product						12477932	Standard	NM_017768		Approved	FLJ20331	uc001der.2	Q9H9A6	OTTHUMG00000009348	ENST00000370952.3:c.838T>A	1.37:g.70641632A>T	ENSP00000359990:p.Leu280Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BTR7|Q9NSK1|Q9NXC1	Missense_Mutation	SNP	ENST00000370952.3	37	CCDS646.1	.	.	.	.	.	.	.	.	.	.	A	10.79	1.449154	0.26074	.	.	ENSG00000066557	ENST00000370952	T	0.56776	0.44	5.46	1.48	0.22813	.	0.214009	0.39687	N	0.001289	T	0.17619	0.0423	N	0.12443	0.215	0.43835	D	0.996415	B	0.33477	0.413	B	0.42738	0.396	T	0.02844	-1.1103	10	0.23891	T	0.37	.	3.5059	0.07691	0.5349:0.0:0.2204:0.2448	.	280	Q9H9A6	LRC40_HUMAN	I	280	ENSP00000359990:L280I	ENSP00000359990:L280I	L	-	1	2	LRRC40	70414220	0.003000	0.15002	1.000000	0.80357	0.939000	0.58152	0.090000	0.15025	0.908000	0.36671	0.477000	0.44152	TTA		0.318	LRRC40-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025914.1	NM_017768		T	70641632	A	T	70641632	3	4	635	1	0	0	0	0	1	0	0	0	9005	40	2	5	1006	5	LRRC40	1	70641632	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10	62754372	70641632	178608989	2	39145										
NBPF10	100132406	mdanderson.org	37	chr1	145296486	145296486	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ctcctcactccggatgagccGgacaagtcccaggggcagga	13	14	1	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr1:145296486G>A	ENST00000342960.5	+	3	443	c.408G>A	c.(406-408)ccG>ccA	p.P136P	NBPF10_ENST00000369338.1_Intron|RP11-458D21.5_ENST00000468030.1_3'UTR|NBPF10_ENST00000369339.3_Intron	NM_001039703.4	NP_001034792.4	Q6P3W6	NBPFA_HUMAN	neuroblastoma breakpoint family, member 10	136						cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(3)|breast(1)|central_nervous_system(3)|endometrium(12)|kidney(23)|lung(15)|ovary(1)|prostate(7)|skin(6)|urinary_tract(2)	73	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		CGGATGAGCCGGACAAGTCCC	0.587																																																0																																										SO:0001819	synonymous_variant	100132406			BC021111		1q21.1	2013-01-17			ENSG00000163386	ENSG00000271425		"neuroblastoma breakpoint family"	31992	protein-coding gene	gene with protein product		614000				16079250	Standard	NM_001039703		Approved	AG1		Q6P3W6	OTTHUMG00000013757	ENST00000342960.5:c.408G>A	1.37:g.145296486G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5RHC0|Q9NWN6	Silent	SNP	ENST00000342960.5	37	CCDS53355.1																																																																																				0.587	NBPF10-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001039703		A	145296486	G	A	145296486	2	1	635	1	0	0	0	0	0	0	0	1	10200	1103	39	1		1	NBPF10	1	145296486	Silent	SNP	G	TCGA-KL-8336-01A-11D-2310-10	74654854	145296486	103954135	3	39146										
KCNN3	3782	broad.mit.edu	37	chr1	154841678	154841678	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ccgcttgttggctttggggaAggtggtgctgctggcggtgg	20	7	0	0	rs35646025		TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr1:154841678A>G	ENST00000271915.4	-	1	1078	c.763T>C	c.(763-765)Ttc>Ctc	p.F255L	KCNN3_ENST00000358505.2_5'Flank	NM_001204087.1|NM_002249.5	NP_001191016.1|NP_002240.3	Q9UGI6	KCNN3_HUMAN	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 3	260					potassium ion transmembrane transport (GO:0071805)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	calmodulin binding (GO:0005516)|small conductance calcium-activated potassium channel activity (GO:0016286)			cervix(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(11)|prostate(4)|skin(1)	28	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)		Miconazole(DB01110)|Procaine(DB00721)	GCTTTGGGGAAGGTGGTGCTG	0.567																																																0													114	107	110					1																	154841678		2203	4300	6503	SO:0001583	missense	3782			AF031815	CCDS1072.1, CCDS30880.1, CCDS72928.1	1q21.3	2012-07-05			ENSG00000143603	ENSG00000143603		"Potassium channels", "Voltage-gated ion channels / Potassium channels, calcium-activated"	6292	protein-coding gene	gene with protein product		602983				9491810, 16382103	Standard	NM_002249		Approved	KCa2.3, hSK3, SKCA3	uc021pah.1	Q9UGI6	OTTHUMG00000037260	ENST00000271915.4:c.763T>C	1.37:g.154841678A>G	ENSP00000271915:p.Phe255Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B1ANX0|O43517|Q86VF9|Q8WXG7	Missense_Mutation	SNP	ENST00000271915.4	37	CCDS30880.1	.	.	.	.	.	.	.	.	.	.	A	10.86	1.469018	0.26335	.	.	ENSG00000143603	ENST00000271915	D	0.94966	-3.57	4.88	4.88	0.63580	.	0.000000	0.49916	D	0.000129	T	0.79741	0.4498	N	0.08118	0	0.80722	D	1	B;B	0.30281	0.275;0.275	B;B	0.30029	0.11;0.076	T	0.79659	-0.1711	10	0.28530	T	0.3	-29.2671	10.8122	0.46553	1.0:0.0:0.0:0.0	.	261;260	Q6JXY2;Q9UGI6	.;KCNN3_HUMAN	L	255	ENSP00000271915:F255L	ENSP00000271915:F255L	F	-	1	0	KCNN3	153108302	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.920000	0.48844	2.047000	0.60756	0.533000	0.62120	TTC		0.567	KCNN3-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090688.3	NM_002249		G	154841678	A	G	154841678	3	3	635	1	0	0	0	0	1	0	0	0	8087	72	3	3	1486	3	KCNN3	1	154841678	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10	9545192	154841678	94408943	4	39147										
IFI16	3428	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	159023498	159023498	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	cggggagttgagatctgtaaTtcatagtcacatcaaggttg	12	6	4	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr1:159023498T>C	ENST00000295809.7	+	11	2516	c.2261T>C	c.(2260-2262)aTt>aCt	p.I754T	IFI16_ENST00000340979.6_Missense_Mutation_p.I642T|IFI16_ENST00000368131.4_Missense_Mutation_p.I698T|IFI16_ENST00000359709.3_Missense_Mutation_p.I698T|IFI16_ENST00000368132.3_Missense_Mutation_p.I698T|IFI16_ENST00000448393.2_Missense_Mutation_p.I642T|IFI16_ENST00000430894.2_Missense_Mutation_p.I702T			Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	754	HIN-200 2. {ECO:0000255|PROSITE- ProRule:PRU00106}.|Interaction with TP53 core domain.				activation of cysteine-type endopeptidase activity (GO:0097202)|activation of innate immune response (GO:0002218)|autophagy (GO:0006914)|cell proliferation (GO:0008283)|cellular response to glucose starvation (GO:0042149)|cellular response to ionizing radiation (GO:0071479)|defense response to virus (GO:0051607)|hemopoiesis (GO:0030097)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|monocyte differentiation (GO:0030224)|myeloid cell differentiation (GO:0030099)|negative regulation of cysteine-type endopeptidase activity (GO:2000117)|negative regulation of DNA binding (GO:0043392)|negative regulation of innate immune response (GO:0045824)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of viral genome replication (GO:0045071)|positive regulation of cytokine production (GO:0001819)|positive regulation of interleukin-1 beta production (GO:0032731)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of type I interferon production (GO:0032481)|regulation of autophagy (GO:0010506)|regulation of gene expression, epigenetic (GO:0040029)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nuclear speck (GO:0016607)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	core promoter binding (GO:0001047)|double-stranded DNA binding (GO:0003690)|identical protein binding (GO:0042802)|poly(A) RNA binding (GO:0044822)|transcription factor binding (GO:0008134)			cervix(1)|endometrium(4)|kidney(1)|large_intestine(2)|lung(12)|ovary(1)|prostate(4)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29	all_hematologic(112;0.0429)					AGATCTGTAATTCATAGTCAC	0.393																																																0													121	121	121					1																	159023498		2203	4300	6503	SO:0001583	missense	3428			M63838	CCDS1180.3, CCDS58039.1	1q22	2008-02-05			ENSG00000163565	ENSG00000163565			5395	protein-coding gene	gene with protein product		147586				1526658, 7959953	Standard	NM_005531		Approved	IFNGIP1, PYHIN2	uc010pis.2	Q16666	OTTHUMG00000037108	ENST00000295809.7:c.2261T>C	1.37:g.159023498T>C	ENSP00000295809:p.Ile754Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DJT8|H3BLV7|Q59GX0|Q5T3W7|Q5T3W8|Q5T3X0|Q5T3X1|Q5T3X2|Q8N9E5|Q8NEQ7|Q96AJ5|Q9UH78	Missense_Mutation	SNP	ENST00000295809.7	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	4.598|4.598	0.111156|0.111156	0.08831|0.08831	.|.	.|.	ENSG00000163565|ENSG00000163565	ENST00000448393|ENST00000359709;ENST00000295809;ENST00000340979;ENST00000368131;ENST00000368132;ENST00000430894	.|T;T;T;T;T	.|0.21932	.|1.98;1.98;1.98;1.98;1.98	4.83|4.83	-3.69|-3.69	0.04450|0.04450	.|.	.|.	.|.	.|.	.|.	T|T	0.03178|0.03178	0.0093|0.0093	N|N	0.25380|0.25380	0.74|0.74	0.09310|0.09310	N|N	1|1	.|B;B;B	.|0.18741	.|0.002;0.03;0.0	.|B;B;B	.|0.23852	.|0.004;0.049;0.008	T|T	0.46076|0.46076	-0.9217|-0.9217	5|9	.|0.13108	.|T	.|0.6	.|.	5.7596|5.7596	0.18192|0.18192	0.0:0.3952:0.3196:0.2851|0.0:0.3952:0.3196:0.2851	.|.	.|702;642;698	.|E7EPR3;Q16666-3;Q16666-2	.|.;.;.	L|T	463|383;754;642;698;698;702	.|ENSP00000295809:I754T;ENSP00000342741:I642T;ENSP00000357113:I698T;ENSP00000357114:I698T;ENSP00000394935:I702T	.|ENSP00000295809:I754T	F|I	+|+	1|2	0|0	IFI16|IFI16	157290122|157290122	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.639000|0.639000	0.38242|0.38242	-1.761000|-1.761000	0.01805|0.01805	-0.563000|-0.563000	0.06078|0.06078	0.496000|0.496000	0.49642|0.49642	TTC|ATT		0.393	IFI16-013	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000421720.1	NM_005531		C	159023498	T	C	159023498	3	2	635	1	0	0	0	0	1	0	0	0	7518	1493	52	3	2127	3	IFI16	1	159023498	Missense_Mutation	SNP	T	TCGA-KL-8336-01A-11D-2310-10	4181820	159023498	90227123	5	39148										
F5	2153	broad.mit.edu	37	chr1	169511773	169511773	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ttttgaattctccagcaccaAgtgaaagtagacgtatccct	7	10	1	3			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr1:169511773A>G	ENST00000367797.3	-	13	2756	c.2555T>C	c.(2554-2556)cTt>cCt	p.L852P	F5_ENST00000367796.3_Missense_Mutation_p.L857P	NM_000130.4	NP_000121	P12259	FA5_HUMAN	coagulation factor V (proaccelerin, labile factor)	852	B.				blood circulation (GO:0008015)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|membrane (GO:0016020)|plasma membrane (GO:0005886)|platelet alpha granule lumen (GO:0031093)|vesicle (GO:0031982)	copper ion binding (GO:0005507)			NS(1)|breast(4)|central_nervous_system(4)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(24)|lung(55)|ovary(3)|prostate(4)|skin(5)|stomach(1)|upper_aerodigestive_tract(7)|urinary_tract(1)	128	all_hematologic(923;0.208)				ART-123(DB05777)|Drotrecogin alfa(DB00055)	TCCAGCACCAAGTGAAAGTAG	0.448																																																0													186	175	178					1																	169511773		2203	4300	6503	SO:0001583	missense	2153			M14335	CCDS1281.1	1q23	2012-10-02			ENSG00000198734	ENSG00000198734			3542	protein-coding gene	gene with protein product		612309					Standard	NM_000130		Approved		uc001ggg.1	P12259	OTTHUMG00000034595	ENST00000367797.3:c.2555T>C	1.37:g.169511773A>G	ENSP00000356771:p.Leu852Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6E8|Q14285|Q2EHR5|Q5R346|Q5R347|Q6UPU6|Q8WWQ6	Missense_Mutation	SNP	ENST00000367797.3	37	CCDS1281.1	.	.	.	.	.	.	.	.	.	.	A	15.21	2.765491	0.49574	.	.	ENSG00000198734	ENST00000367797;ENST00000367796	T;T	0.21543	2.0;2.0	5.53	-7.37	0.01412	.	1.545810	0.04334	N	0.352893	T	0.11281	0.0275	L	0.42245	1.32	0.09310	N	1	D	0.64830	0.994	P	0.60173	0.87	T	0.32929	-0.9888	10	0.59425	D	0.04	0.0797	1.0413	0.01559	0.2441:0.1113:0.2096:0.4349	.	852	P12259	FA5_HUMAN	P	852;857	ENSP00000356771:L852P;ENSP00000356770:L857P	ENSP00000356770:L857P	L	-	2	0	F5	167778397	0.000000	0.05858	0.000000	0.03702	0.031000	0.12232	0.055000	0.14229	-1.317000	0.02292	-0.480000	0.04831	CTT		0.448	F5-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000083712.1	NM_000130		G	169511773	A	G	169511773	3	3	635	1	0	0	0	0	1	0	0	0	5350	72	3	3	4171	3	F5	1	169511773	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10	10488275	169511773	79738848	6	39149										
DHX9	1660	hgsc.bcm.edu	37	chr1	182827873	182827873	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	cttattttttaatagcctgaAgatccttctgtgccagttgc	7	9	1	2			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr1:182827873A>G	ENST00000367549.3	+	10	1016	c.906A>G	c.(904-906)gaA>gaG	p.E302E		NM_001357.4	NP_001348.2	Q08211	DHX9_HUMAN	DEAH (Asp-Glu-Ala-His) box helicase 9	302	Interaction with BRCA1.				ATP catabolic process (GO:0006200)|cellular response to heat (GO:0034605)|circadian rhythm (GO:0007623)|CRD-mediated mRNA stabilization (GO:0070934)|DNA duplex unwinding (GO:0032508)|gene expression (GO:0010467)|innate immune response (GO:0045087)|mRNA splicing, via spliceosome (GO:0000398)|osteoblast differentiation (GO:0001649)|positive regulation of type I interferon production (GO:0032481)|RNA splicing (GO:0008380)	centrosome (GO:0005813)|CRD-mediated mRNA stability complex (GO:0070937)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|ATP-dependent RNA helicase activity (GO:0004004)|DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)|RNA helicase activity (GO:0003724)|RNA polymerase II transcription factor binding (GO:0001085)			NS(1)|autonomic_ganglia(1)|central_nervous_system(1)|endometrium(10)|kidney(3)|large_intestine(7)|liver(1)|lung(19)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	49						AATAGCCTGAAGATCCTTCTG	0.413																																					Colon(69;210 1162 3697 13559 39565)											0													70	63	65					1																	182827873		1846	4096	5942	SO:0001819	synonymous_variant	1660			L13848	CCDS41444.1	1q25	2013-05-13	2013-05-13	2003-06-20	ENSG00000135829	ENSG00000135829		"DEAH-boxes"	2750	protein-coding gene	gene with protein product	"NDH II", "RNA helicase A"	603115	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 9 (RNA helicase A, nuclear DNA helicase II; leukophysin)", "DEAH (Asp-Glu-Ala-His) box polypeptide 9"	LKP, DDX9		8344961, 9111062	Standard	NM_001357		Approved	RHA	uc001gpr.3	Q08211	OTTHUMG00000035337	ENST00000367549.3:c.906A>G	1.37:g.182827873A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RNV4|Q05CI5|Q12803|Q32Q22|Q5VY62|Q6PD69|Q99556	Silent	SNP	ENST00000367549.3	37	CCDS41444.1																																																																																				0.413	DHX9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085522.2	NM_030588		G	182827873	A	G	182827873	2	3	635	1	0	0	0	0	0	0	0	1	4518	69	3	3		3	DHX9	1	182827873	Silent	SNP	A	TCGA-KL-8336-01A-11D-2310-10	13316100	182827873	66422748	7	39150										
OR2C3	81472	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	247695452	247695452	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	agatggcagcgtagcggtcaTaggacatggtggccagcagg	17	8	1	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr1:247695452T>C	ENST00000366487.3	-	2	723	c.362A>G	c.(361-363)tAt>tGt	p.Y121C	GCSAML_ENST00000527084.1_Intron|GCSAML_ENST00000366490.3_Intron|GCSAML_ENST00000463359.1_Intron|GCSAML_ENST00000531662.1_Intron|GCSAML_ENST00000527541.1_Intron|GCSAML_ENST00000366489.1_Intron|GCSAML_ENST00000366491.2_Intron	NM_198074.4	NP_932340	Q8N628	OR2C3_HUMAN	olfactory receptor, family 2, subfamily C, member 3	121						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(5)|large_intestine(2)|lung(31)|ovary(1)|prostate(1)|skin(2)	43	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0242)	OV - Ovarian serous cystadenocarcinoma(106;0.0241)			GTAGCGGTCATAGGACATGGT	0.562																																																0													75	77	76					1																	247695452		2203	4300	6503	SO:0001583	missense	81472			BC030717	CCDS1634.2	1q44	2014-02-19	2002-02-28		ENSG00000196242	ENSG00000196242		"GPCR / Class A : Olfactory receptors"	15005	protein-coding gene	gene with protein product			"olfactory receptor, family 2, subfamily C, member 4"	OR2C4, OR2C5P			Standard	NM_198074		Approved	OST742	uc009xgy.3	Q8N628	OTTHUMG00000040579	ENST00000366487.3:c.362A>G	1.37:g.247695452T>C	ENSP00000355443:p.Tyr121Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JQS4|Q6IEZ1|Q8NGW7	Missense_Mutation	SNP	ENST00000366487.3	37	CCDS1634.2	.	.	.	.	.	.	.	.	.	.	T	14.94	2.684637	0.47991	.	.	ENSG00000196242	ENST00000366487	T	0.01347	4.99	4.04	2.88	0.33553	GPCR, rhodopsin-like superfamily (1);	0.000000	0.34531	U	0.003895	T	0.05960	0.0155	M	0.81497	2.545	0.25863	N	0.983802	D	0.71674	0.998	P	0.60789	0.879	T	0.06162	-1.0842	10	0.87932	D	0	.	8.2015	0.31428	0.1787:0.0:0.0:0.8213	.	121	Q8N628	OR2C3_HUMAN	C	121	ENSP00000355443:Y121C	ENSP00000355443:Y121C	Y	-	2	0	OR2C3	245762075	0.972000	0.33761	0.399000	0.26333	0.888000	0.51559	1.604000	0.36804	0.690000	0.31570	0.528000	0.53228	TAT		0.562	OR2C3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097626.2	NM_198074		C	247695452	T	C	247695452	3	2	635	1	0	0	0	0	1	0	0	0	11000	1406	49	3	604	3	OR2C3	1	247695452	Missense_Mutation	SNP	T	TCGA-KL-8336-01A-11D-2310-10	64867579	247695452	1555169	8	39151										
DNAH6	1768	broad.mit.edu	37	chr2	84811142	84811142	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	gattgaaagccttgaagatgAggggaatatagtgactcaaa	12	4	1	5			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr2:84811142A>G	ENST00000237449.6	+	14	2257	c.2249A>G	c.(2248-2250)gAg>gGg	p.E750G	DNAH6_ENST00000398278.2_Missense_Mutation_p.E750G|DNAH6_ENST00000389394.3_Missense_Mutation_p.E750G			Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy chain 6	750	Stem. {ECO:0000250}.				cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(2)|breast(9)|central_nervous_system(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(3)|lung(14)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	57						CTTGAAGATGAGGGGAATATA	0.383																																																0													127	125	125					2																	84811142		2203	4300	6503	SO:0001583	missense	1768			U61736	CCDS46348.1	2p11.2	2011-05-24	2006-09-04		ENSG00000115423	ENSG00000115423		"Axonemal dyneins"	2951	protein-coding gene	gene with protein product		603336	"dynein, axonemal, heavy polypeptide 6", "dynein heavy chain-like 1"	DNHL1		8812413	Standard	NM_001370		Approved	Dnahc6, HL-2, FLJ37357	uc010fgb.3	Q9C0G6	OTTHUMG00000128957	ENST00000237449.6:c.2249A>G	2.37:g.84811142A>G	ENSP00000237449:p.Glu750Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJN9|B5MEE0|B7ZL99|O95493|Q53QZ1|Q53TE5|Q8N1W6|Q92861|Q96BL6|Q9H030|Q9H5E1	Missense_Mutation	SNP	ENST00000237449.6	37	CCDS46348.1	.	.	.	.	.	.	.	.	.	.	A	9.664	1.144826	0.21288	.	.	ENSG00000115423	ENST00000389394;ENST00000398278;ENST00000237449	T;T;T	0.28069	1.63;1.74;1.63	5.73	5.73	0.89815	.	0.000000	0.44902	D	0.000406	T	0.50514	0.1620	M	0.63843	1.955	0.42205	D	0.991785	B;D	0.89917	0.029;1.0	B;D	0.69479	0.027;0.964	T	0.43458	-0.9390	10	0.27785	T	0.31	.	14.9947	0.71421	1.0:0.0:0.0:0.0	.	750;329	Q9C0G6;Q9C0G6-3	DYH6_HUMAN;.	G	750	ENSP00000374045:E750G;ENSP00000381326:E750G;ENSP00000237449:E750G	ENSP00000237449:E750G	E	+	2	0	DNAH6	84664653	1.000000	0.71417	0.955000	0.39395	0.036000	0.12997	7.108000	0.77055	2.180000	0.69256	0.482000	0.46254	GAG		0.383	DNAH6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328537.2	NM_001370		G	84811142	A	G	84811142	3	3	635	1	0	0	0	0	1	0	0	0	4607	304	11	3	2303	3	DNAH6	2	84811142	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10		84811142	158388231	9	39152										
NCAPH	23397	ucsc.edu;bcgsc.ca	37	chr2	97034713	97034713	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	aaatgtgcttctgttaggcaAaccacagggaagctggaaaa	11	7	1	0			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr2:97034713A>G	ENST00000240423.4	+	16	2045	c.2002A>G	c.(2002-2004)Aac>Gac	p.N668D	NCAPH_ENST00000455200.1_Missense_Mutation_p.N657D|NCAPH_ENST00000427946.1_Missense_Mutation_p.N532D	NM_001281710.1|NM_001281711.1|NM_015341.3	NP_001268639.1|NP_001268640.1|NP_056156.2	Q15003	CND2_HUMAN	non-SMC condensin I complex, subunit H	668					mitotic cell cycle (GO:0000278)|mitotic chromosome condensation (GO:0007076)	condensin complex (GO:0000796)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|nucleus (GO:0005634)				haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(1)|prostate(1)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	28		Ovarian(717;0.0221)				CTGTTAGGCAAACCACAGGGA	0.498																																																0													29	28	28					2																	97034713		2174	4249	6423	SO:0001583	missense	23397			BC024211	CCDS2021.1, CCDS62960.1	2q11.2	2008-02-05	2006-09-04	2006-09-04	ENSG00000121152	ENSG00000121152			1112	protein-coding gene	gene with protein product		602332	"barren (Drosophila) homolog", "barren homolog (Drosophila)", "barren homolog 1 (Drosophila)"	BRRN1		9417923	Standard	NM_015341		Approved	CAP-H, hCAP-H	uc002svz.1	Q15003	OTTHUMG00000130451	ENST00000240423.4:c.2002A>G	2.37:g.97034713A>G	ENSP00000240423:p.Asn668Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B4E189|Q8TB87	Missense_Mutation	SNP	ENST00000240423.4	37	CCDS2021.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	12.75|12.75	2.032861|2.032861	0.35893|0.35893	.|.	.|.	ENSG00000121152|ENSG00000121152	ENST00000435349|ENST00000240423;ENST00000427946;ENST00000455200	.|T;T;T	.|0.43688	.|0.94;0.94;0.94	5.97|5.97	3.58|3.58	0.41010|0.41010	.|.	.|0.937499	.|0.09187	.|N	.|0.836566	T|T	0.40222|0.40222	0.1108|0.1108	M|M	0.69823|0.69823	2.125|2.125	0.80722|0.80722	D|D	1|1	.|B;B	.|0.31125	.|0.202;0.309	.|B;B	.|0.34452	.|0.183;0.138	T|T	0.10451|0.10451	-1.0629|-1.0629	5|10	.|0.10111	.|T	.|0.7	-16.6939|-16.6939	6.0922|6.0922	0.20001|0.20001	0.7534:0.1639:0.0826:0.0|0.7534:0.1639:0.0826:0.0	.|.	.|644;668	.|B4DRG7;Q15003	.|.;CND2_HUMAN	R|D	108|668;532;657	.|ENSP00000240423:N668D;ENSP00000400774:N532D;ENSP00000407308:N657D	.|ENSP00000240423:N668D	K|N	+|+	2|1	0|0	NCAPH|NCAPH	96398440|96398440	0.964000|0.964000	0.33143|0.33143	0.968000|0.968000	0.41197|0.41197	0.673000|0.673000	0.39480|0.39480	1.321000|1.321000	0.33678|0.33678	0.502000|0.502000	0.28037|0.28037	0.533000|0.533000	0.62120|0.62120	AAA|AAC		0.498	NCAPH-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000252842.2	NM_015341		G	97034713	A	G	97034713	3	3	635	1	0	0	0	0	1	0	0	0	10216	14	1	3	2064	3	NCAPH	2	97034713	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10	12223571	97034713	146164660	10	39153										
SLC35F5	80255	broad.mit.edu	37	chr2	114508020	114508020	+	Frame_Shift_Del	DEL	G	G	-													0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	acaaaagcagcatgctttccGcgaagtcctcttgtacactg					rs60727155	byFrequency	TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr2:114508020delG	ENST00000245680.2	-	4	812	c.399delC	c.(397-399)cgcfs	p.R133fs	SLC35F5_ENST00000409342.1_Frame_Shift_Del_p.R127fs	NM_025181.2	NP_079457.2	Q8WV83	S35F5_HUMAN	solute carrier family 35, member F5	133					transport (GO:0006810)	integral component of membrane (GO:0016021)				endometrium(1)|kidney(4)|large_intestine(2)|lung(7)|ovary(2)|prostate(3)|skin(1)	20						CATGCTTTCCGCGAAGTCCTC	0.348																																																0													86	89	88					2																	114508020		2203	4300	6503	SO:0001589	frameshift_variant	80255			AF529364	CCDS2119.1	2q14.1	2013-05-22			ENSG00000115084	ENSG00000115084		"Solute carriers"	23617	protein-coding gene	gene with protein product							Standard	XM_005263799		Approved	FLJ22004	uc002tku.1	Q8WV83	OTTHUMG00000131361	ENST00000245680.2:c.399delC	2.37:g.114508020delG	ENSP00000245680:p.Arg133fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H6P8|Q9H7D8	Frame_Shift_Del	DEL	ENST00000245680.2	37	CCDS2119.1																																																																																				0.348	SLC35F5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254150.1	NM_025181		-	114508020	G	-	114508020	7	5	635	1	0	1	0	1	0	0	0	0	14605	1074	38	0	1220	0	SLC35F5	2	114508020	Frame_Shift_Del	DEL	G	TCGA-KL-8336-01A-11D-2310-10	17473307	114508020	128691353	11	39154										
ABCA12	26154	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr2	215812198	215812198	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ccagtgcagtggataattttCtttttgtgccataactgcac	8	9	1	0			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr2:215812198C>T	ENST00000272895.7	-	48	7406	c.7187G>A	c.(7186-7188)aGa>aAa	p.R2396K	ABCA12_ENST00000389661.4_Missense_Mutation_p.R2078K|AC072062.1_ENST00000607412.1_RNA	NM_173076.2	NP_775099.2	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 12	2396	ABC transporter 2. {ECO:0000255|PROSITE- ProRule:PRU00434}.				cellular homeostasis (GO:0019725)|ceramide transport (GO:0035627)|establishment of skin barrier (GO:0061436)|keratinization (GO:0031424)|lipid homeostasis (GO:0055088)|lipid transport (GO:0006869)|lung alveolus development (GO:0048286)|phospholipid efflux (GO:0033700)|positive regulation of cholesterol efflux (GO:0010875)|positive regulation of protein localization to cell surface (GO:2000010)|protein localization to plasma membrane (GO:0072659)|regulated secretory pathway (GO:0045055)|secretion by cell (GO:0032940)|surfactant homeostasis (GO:0043129)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|epidermal lamellar body (GO:0097209)|integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|plasma membrane (GO:0005886)	apolipoprotein A-I receptor binding (GO:0034191)|ATP binding (GO:0005524)|lipid transporter activity (GO:0005319)|lipid-transporting ATPase activity (GO:0034040)|receptor binding (GO:0005102)			NS(3)|breast(5)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(45)|lung(44)|ovary(8)|pancreas(2)|prostate(4)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	139		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)		GGATAATTTTCTTTTTGTGCC	0.418																																					Ovarian(66;664 1488 5121 34295)											0													160	158	159					2																	215812198		2203	4300	6503	SO:0001583	missense	26154			AF418105	CCDS33372.1, CCDS33373.1	2q34	2012-03-14			ENSG00000144452	ENSG00000144452		"ATP binding cassette transporters / subfamily A"	14637	protein-coding gene	gene with protein product		607800	"ichthyosis congenita II, lamellar ichthyosis B"	ICR2B		11435397, 12915478, 8845852, 10094194	Standard	NM_015657		Approved	DKFZP434G232, LI2	uc002vew.3	Q86UK0	OTTHUMG00000154801	ENST00000272895.7:c.7187G>A	2.37:g.215812198C>T	ENSP00000272895:p.Arg2396Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q53QE2|Q53S55|Q8IZW6|Q96JT3|Q9Y4M5	Missense_Mutation	SNP	ENST00000272895.7	37	CCDS33372.1	.	.	.	.	.	.	.	.	.	.	C	35	5.435377	0.96150	.	.	ENSG00000144452	ENST00000272895;ENST00000389661	T;T	0.80566	-1.39;-1.39	5.86	5.86	0.93980	ATPase, AAA+ type, core (1);ABC transporter-like (2);	0.074464	0.56097	N	0.000024	D	0.89227	0.6655	M	0.64567	1.98	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	D	0.89225	0.3573	10	0.87932	D	0	.	20.1931	0.98233	0.0:1.0:0.0:0.0	.	2396;2078	Q86UK0;Q86UK0-2	ABCAC_HUMAN;.	K	2396;2078	ENSP00000272895:R2396K;ENSP00000374312:R2078K	ENSP00000272895:R2396K	R	-	2	0	ABCA12	215520443	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	7.092000	0.76930	2.771000	0.95319	0.563000	0.77884	AGA		0.418	ABCA12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337111.1	NM_173076		T	215812198	C	T	215812198	3	4	635	1	0	0	0	0	1	0	0	0	30	913	32	2	624	2	ABCA12	2	215812198	Missense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10	101304178	215812198	27387175	12	39155										
QRICH1	54870	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	49114159	49114159	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	tacctgaacctgctgcggctGctgaacctggatctgctgtt	11	12	1	2			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr3:49114159G>C	ENST00000395443.2	-	2	764	c.292C>G	c.(292-294)Cag>Gag	p.Q98E	QRICH1_ENST00000357496.2_Missense_Mutation_p.Q98E|QRICH1_ENST00000424300.1_Missense_Mutation_p.Q98E	NM_198880.1	NP_942581.1	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1	98	Gln-rich.					nucleus (GO:0005634)				breast(2)|endometrium(5)|large_intestine(8)|lung(8)|ovary(1)|skin(1)	25				BRCA - Breast invasive adenocarcinoma(193;8.88e-05)|Kidney(197;0.00239)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		TGCTGCGGCTGCTGAACCTGG	0.483																																																0													253	262	259					3																	49114159		2203	4300	6503	SO:0001583	missense	54870				CCDS2787.1	3p21.31	2011-06-03			ENSG00000198218	ENSG00000198218			24713	protein-coding gene	gene with protein product						12477932	Standard	NM_017730		Approved	FLJ20259	uc003cvv.3	Q2TAL8	OTTHUMG00000156772	ENST00000395443.2:c.292C>G	3.37:g.49114159G>C	ENSP00000378830:p.Gln98Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0F7|Q7L621|Q8TEA5	Missense_Mutation	SNP	ENST00000395443.2	37	CCDS2787.1	.	.	.	.	.	.	.	.	.	.	G	10.85	1.467285	0.26335	.	.	ENSG00000198218	ENST00000395443;ENST00000357496;ENST00000424300;ENST00000437939;ENST00000450685;ENST00000411682	.	.	.	5.37	5.37	0.77165	.	0.483859	0.22110	N	0.064497	T	0.38772	0.1053	N	0.08118	0	0.38317	D	0.943429	B	0.25486	0.127	B	0.19148	0.024	T	0.43750	-0.9372	9	0.66056	D	0.02	-2.655	14.6884	0.69065	0.0:0.1448:0.8552:0.0	.	98	Q2TAL8	QRIC1_HUMAN	E	98	.	ENSP00000350094:Q98E	Q	-	1	0	QRICH1	49089163	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	5.239000	0.65371	2.530000	0.85305	0.561000	0.74099	CAG		0.483	QRICH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345669.1	NM_017730		C	49114159	G	C	49114159	3	2	635	1	0	0	0	0	1	0	0	0	12892	1328	46	4	2074	4	QRICH1	3	49114159	Missense_Mutation	SNP	G	TCGA-KL-8336-01A-11D-2310-10		49114159	148908271	13	39156										
IL17RB	55540	broad.mit.edu	37	chr3	53886982	53886982	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	atattcctaatgcaaatatgAatgaagatggcccttccatg	7	8	0	3			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr3:53886982A>G	ENST00000288167.3	+	5	448	c.439A>G	c.(439-441)Aat>Gat	p.N147D		NM_018725.3	NP_061195.2	Q9NRM6	I17RB_HUMAN	interleukin 17 receptor B	147					cytokine-mediated signaling pathway (GO:0019221)|defense response (GO:0006952)|regulation of cell growth (GO:0001558)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	cytokine receptor activity (GO:0004896)			breast(1)|endometrium(1)|large_intestine(3)|lung(2)|ovary(2)|pancreas(1)|prostate(2)|stomach(1)	13				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)		TGCAAATATGAATGAAGATGG	0.418																																																0													149	142	144					3																	53886982		2203	4300	6503	SO:0001583	missense	55540			AF212365	CCDS2874.1	3p21.1	2008-02-05		2003-07-09	ENSG00000056736	ENSG00000056736		"Interleukins and interleukin receptors"	18015	protein-coding gene	gene with protein product		605458	"interleukin 17B receptor"	IL17BR		10749887, 10815801	Standard	NM_018725		Approved	IL17RH1, EVI27, CRL4	uc003dha.3	Q9NRM6	OTTHUMG00000158280	ENST00000288167.3:c.439A>G	3.37:g.53886982A>G	ENSP00000288167:p.Asn147Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BPZ0|Q9NRL4|Q9NRM5	Missense_Mutation	SNP	ENST00000288167.3	37	CCDS2874.1	.	.	.	.	.	.	.	.	.	.	A	15.14	2.745677	0.49151	.	.	ENSG00000056736	ENST00000288167;ENST00000494338	T;T	0.15718	3.3;2.4	6.07	4.92	0.64577	.	0.102782	0.43260	N	0.000583	T	0.27027	0.0662	L	0.42245	1.32	0.31571	N	0.656263	D	0.76494	0.999	D	0.80764	0.994	T	0.10636	-1.0621	10	0.10902	T	0.67	-19.2642	8.7811	0.34792	0.916:0.0:0.084:0.0	.	147	Q9NRM6	I17RB_HUMAN	D	147	ENSP00000288167:N147D;ENSP00000418638:N147D	ENSP00000288167:N147D	N	+	1	0	IL17RB	53862022	1.000000	0.71417	0.999000	0.59377	0.992000	0.81027	0.998000	0.29744	1.128000	0.42052	0.533000	0.62120	AAT		0.418	IL17RB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350563.1	NM_172234		G	53886982	A	G	53886982	3	3	635	1	0	0	0	0	1	0	0	0	7647	246	9	3	457	3	IL17RB	3	53886982	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10	4772823	53886982	144135448	14	39157										
ECE2	9718	broad.mit.edu	37	chr3	184002787	184002787	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	tggactggcttgagttcctgTctttcttgctgtcaccattg	10	10	3	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr3:184002787T>C	ENST00000402825.3	+	9	1396	c.1396T>C	c.(1396-1398)Tct>Cct	p.S466P	ECE2_ENST00000404464.3_Missense_Mutation_p.S348P|ECE2_ENST00000357474.5_Missense_Mutation_p.S394P|ECE2_ENST00000359140.4_Missense_Mutation_p.S319P|EIF2B5_ENST00000444495.1_Intron	NM_014693.3	NP_055508.3	O60344	ECE2_HUMAN	endothelin converting enzyme 2	466	Endothelin-converting enzyme 2 region.				brain development (GO:0007420)|cardioblast differentiation (GO:0010002)|cell-cell signaling (GO:0007267)|heart development (GO:0007507)|peptide hormone processing (GO:0016486)	cytoplasmic vesicle membrane (GO:0030659)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	metal ion binding (GO:0046872)|metalloendopeptidase activity (GO:0004222)|methyltransferase activity (GO:0008168)			breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(11)|lung(13)|ovary(3)|prostate(1)|skin(4)|upper_aerodigestive_tract(4)|urinary_tract(4)	49	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TGAGTTCCTGTCTTTCTTGCT	0.547											OREG0015945	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													83	81	82					3																	184002787		2203	4300	6503	SO:0001583	missense	9718			AF428263	CCDS3255.1, CCDS33899.1, CCDS3256.2, CCDS43179.1, CCDS46969.1	3q27.1	2007-07-26			ENSG00000145194	ENSG00000145194			13275	protein-coding gene	gene with protein product		610145				11718899	Standard	NM_032331		Approved	KIAA0604, MGC2408	uc003fni.4	O60344	OTTHUMG00000150551	ENST00000402825.3:c.1396T>C	3.37:g.184002787T>C	ENSP00000384223:p.Ser466Pro	Somatic	1988	WXS	Illumina HiSeq	Phase_I	A5PLK8|Q6NTG7|Q6UW36|Q8NFD7|Q96NX3|Q96NX4|Q9BRZ8	Missense_Mutation	SNP	ENST00000402825.3	37	CCDS3256.2	.	.	.	.	.	.	.	.	.	.	T	16.62	3.174854	0.57692	.	.	ENSG00000145194	ENST00000402825;ENST00000359140;ENST00000404464;ENST00000357474;ENST00000430587	T;T;T;T;T	0.75367	-0.93;-0.93;-0.93;-0.93;-0.93	4.21	4.21	0.49690	Peptidase M13 (1);	0.129673	0.53938	D	0.000052	T	0.76004	0.3927	L	0.43152	1.355	0.40643	D	0.981962	P;P;P;B;P;P;P	0.52463	0.853;0.953;0.953;0.011;0.942;0.823;0.943	P;P;P;B;P;P;P	0.59825	0.633;0.864;0.864;0.029;0.786;0.596;0.817	T	0.76471	-0.2947	10	0.49607	T	0.09	-9.1459	7.9437	0.29974	0.1832:0.0:0.0:0.8167	.	68;319;337;348;394;319;466	B4DHU4;B4DKF3;B4DF19;O60344-2;O60344-5;O60344-3;O60344	.;.;.;.;.;.;ECE2_HUMAN	P	466;319;348;394;340	ENSP00000384223:S466P;ENSP00000352052:S319P;ENSP00000385846:S348P;ENSP00000350066:S394P;ENSP00000398444:S340P	ENSP00000350066:S394P	S	+	1	0	ECE2	185485481	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.263000	0.43293	1.777000	0.52277	0.523000	0.50628	TCT		0.547	ECE2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318874.3	NM_014693		C	184002787	T	C	184002787	3	2	635	1	0	0	0	0	1	0	0	0	4892	1667	58	3	1994	3	ECE2	3	184002787	Missense_Mutation	SNP	T	TCGA-KL-8336-01A-11D-2310-10	130115805	184002787	14019643	15	39158										
FAT4	79633	ucsc.edu;mdanderson.org	37	chr4	126337737	126337737	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	cagagtctggatcgggaaacAaaagagcgctttgtcttaat	11	7	2	2			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr4:126337737A>C	ENST00000394329.3	+	6	6991	c.6978A>C	c.(6976-6978)acA>acC	p.T2326T	FAT4_ENST00000335110.5_Silent_p.T624T	NM_024582.4	NP_078858.4	Q6V0I7	FAT4_HUMAN	FAT atypical cadherin 4	2326	Cadherin 22. {ECO:0000255|PROSITE- ProRule:PRU00043}.				branching involved in ureteric bud morphogenesis (GO:0001658)|cerebral cortex development (GO:0021987)|digestive tract development (GO:0048565)|heart morphogenesis (GO:0003007)|heterophilic cell-cell adhesion (GO:0007157)|hippo signaling (GO:0035329)|homophilic cell adhesion (GO:0007156)|inner ear receptor stereocilium organization (GO:0060122)|neurogenesis (GO:0022008)|ossification involved in bone maturation (GO:0043931)|plasma membrane organization (GO:0007009)|regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072307)	apical part of cell (GO:0045177)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(6)|autonomic_ganglia(1)|breast(4)|central_nervous_system(3)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(3)|kidney(10)|large_intestine(93)|liver(3)|lung(120)|ovary(9)|pancreas(2)|prostate(21)|skin(31)|stomach(1)|upper_aerodigestive_tract(12)|urinary_tract(6)	355						ATCGGGAAACAAAAGAGCGCT	0.428																																																0													234	226	229					4																	126337737		2203	4300	6503	SO:0001819	synonymous_variant	79633			AY356402	CCDS3732.3	4q28.1	2013-05-31	2013-05-31		ENSG00000196159	ENSG00000196159		"Cadherins / Cadherin-related"	23109	protein-coding gene	gene with protein product	"cadherin-related family member 11"	612411	"FAT tumor suppressor homolog 4 (Drosophila)"			15003449	Standard	NM_024582		Approved	CDHF14, FAT-J, CDHR11	uc003ifj.4	Q6V0I7	OTTHUMG00000133100	ENST00000394329.3:c.6978A>C	4.37:g.126337737A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5Z6|B5MDG4|Q3LIA6|Q8TCK7|Q9H5T6	Silent	SNP	ENST00000394329.3	37	CCDS3732.3																																																																																				0.428	FAT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256765.2	NM_024582		C	126337737	A	C	126337737	2	2	635	1	0	0	0	0	0	0	0	1	5699	117	5	5		5	FAT4	4	126337737	Silent	SNP	A	TCGA-KL-8336-01A-11D-2310-10		126337737	64816539	16	39159										
PRMT10	90826	broad.mit.edu;bcgsc.ca	37	chr4	148594863	148594863	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	actgccttttggattgctgcAttataaattgtattcctctt	6	8	1	0			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr4:148594863A>T	ENST00000322396.6	-	3	743	c.501T>A	c.(499-501)aaT>aaA	p.N167K	PRMT10_ENST00000541232.1_Missense_Mutation_p.N54K	NM_138364.2	NP_612373.2	Q6P2P2	ANM9_HUMAN		167	SAM-dependent MTase PRMT-type 1. {ECO:0000255|PROSITE-ProRule:PRU01015}.					cytoplasm (GO:0005737)	protein methyltransferase activity (GO:0008276)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(8)|lung(10)|ovary(1)|pancreas(1)|prostate(1)|skin(1)	28						GGATTGCTGCATTATAAATTG	0.393																																																0													92	91	92					4																	148594863		2203	4300	6503	SO:0001583	missense	90826																														ENST00000322396.6:c.501T>A	4.37:g.148594863A>T	ENSP00000314396:p.Asn167Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA39|B3KU92|Q6ZR58|Q8N383|Q9BT55|Q9NT98	Missense_Mutation	SNP	ENST00000322396.6	37	CCDS3771.1	.	.	.	.	.	.	.	.	.	.	A	2.429	-0.331220	0.05314	.	.	ENSG00000164169	ENST00000322396;ENST00000541232	T;T	0.20881	2.04;2.04	5.43	-0.181	0.13291	.	0.160534	0.56097	D	0.000027	T	0.10121	0.0248	L	0.28649	0.875	0.28223	N	0.926456	B	0.16166	0.016	B	0.18561	0.022	T	0.16364	-1.0405	10	0.21540	T	0.41	-4.7694	1.2249	0.01932	0.2977:0.213:0.3247:0.1646	.	167	Q6P2P2	ANM10_HUMAN	K	167;54	ENSP00000314396:N167K;ENSP00000439508:N54K	ENSP00000314396:N167K	N	-	3	2	PRMT10	148814313	0.928000	0.31464	0.991000	0.47740	0.716000	0.41182	0.127000	0.15790	0.044000	0.15775	0.533000	0.62120	AAT		0.393	PRMT10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364650.1			T	148594863	A	T	148594863	3	4	635	1	0	0	0	0	1	0	0	0	12546	214	8	5	2076	5	PRMT10	4	148594863	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10	22257126	148594863	42559413	17	39160										
ADCY2	108	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr5	7707862	7707862	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ccctggagcacttgaatggcGcttataaagtggaggaggga	15	7	0	1	rs140842335		TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr5:7707862G>A	ENST00000338316.4	+	9	1401	c.1312G>A	c.(1312-1314)Gct>Act	p.A438T	ADCY2_ENST00000537121.1_Missense_Mutation_p.A258T|RP11-711G10.1_ENST00000514105.2_RNA	NM_020546.2	NP_065433.2	Q08462	ADCY2_HUMAN	adenylate cyclase 2 (brain)	438					activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|cAMP biosynthetic process (GO:0006171)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|neurotrophin TRK receptor signaling pathway (GO:0048011)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cytoplasm (GO:0005737)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|intracellular (GO:0005622)|membrane (GO:0016020)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	adenylate cyclase activity (GO:0004016)|adenylate cyclase binding (GO:0008179)|ATP binding (GO:0005524)|calcium- and calmodulin-responsive adenylate cyclase activity (GO:0008294)|metal ion binding (GO:0046872)|protein heterodimerization activity (GO:0046982)			NS(3)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(22)|lung(56)|ovary(8)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(7)	119						CTTGAATGGCGCTTATAAAGT	0.413													G|||	1	0.000199681	0.0008	0.0	5008	,	,		17256	0.0		0.0	False		,,,				2504	0.0															0								G	THR/ALA	1,4405	2.1+/-5.4	0,1,2202	126	126	126		1312	6	0.9	5	dbSNP_134	126	2,8598	2.2+/-6.3	0,2,4298	yes	missense	ADCY2	NM_020546.2	58	0,3,6500	AA,AG,GG		0.0233,0.0227,0.0231	possibly-damaging	438/1092	7707862	3,13003	2203	4300	6503	SO:0001583	missense	108			AB028983	CCDS3872.2	5p15.3	2013-02-04			ENSG00000078295	ENSG00000078295	4.6.1.1	"Adenylate cyclases"	233	protein-coding gene	gene with protein product		103071				1427768	Standard	NM_020546		Approved	HBAC2, KIAA1060, AC2	uc003jdz.1	Q08462	OTTHUMG00000090476	ENST00000338316.4:c.1312G>A	5.37:g.7707862G>A	ENSP00000342952:p.Ala438Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2C1|Q2NKL8|Q9UDB2|Q9UPU2	Missense_Mutation	SNP	ENST00000338316.4	37	CCDS3872.2	.	.	.	.	.	.	.	.	.	.	G	31	5.083816	0.94050	2.27E-4	2.33E-4	ENSG00000078295	ENST00000338316;ENST00000541993;ENST00000537121	T;T	0.81330	-1.48;-1.48	5.96	5.96	0.96718	Adenylyl cyclase class-3/4/guanylyl cyclase (4);	0.178753	0.48286	D	0.000189	D	0.83519	0.5272	N	0.25647	0.755	0.44843	D	0.997853	D;D	0.62365	0.975;0.991	P;D	0.62955	0.698;0.909	T	0.81466	-0.0920	10	0.34782	T	0.22	.	20.4192	0.99033	0.0:0.0:1.0:0.0	.	258;438	B7Z2C1;Q08462	.;ADCY2_HUMAN	T	438;289;258	ENSP00000342952:A438T;ENSP00000444803:A258T	ENSP00000342952:A438T	A	+	1	0	ADCY2	7760862	1.000000	0.71417	0.938000	0.37757	0.949000	0.60115	4.894000	0.63206	2.831000	0.97527	0.650000	0.86243	GCT		0.413	ADCY2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206930.2	NM_020546		A	7707862	G	A	7707862	3	1	635	1	0	0	0	0	1	0	0	0	294	1087	38	1	1346	1	ADCY2	5	7707862	Missense_Mutation	SNP	G	TCGA-KL-8336-01A-11D-2310-10		7707862	173207398	18	39161										
AMACR	23600	broad.mit.edu	37	chr5	33989302	33989302	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ttcaagtatctcctcagtgtGttctcctatgaaaggatccc	7	11	4	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr5:33989302G>C	ENST00000335606.6	-	5	1133	c.1045C>G	c.(1045-1047)Cac>Gac	p.H349D	AMACR_ENST00000514195.1_5'UTR|AMACR_ENST00000382072.2_3'UTR|AMACR_ENST00000382085.3_Missense_Mutation_p.H349D|AMACR_ENST00000502637.1_Missense_Mutation_p.H334D|RP11-1084J3.4_ENST00000382079.3_3'UTR	NM_001167595.1|NM_014324.5	NP_001161067.1|NP_055139.4	Q9UHK6	AMACR_HUMAN	alpha-methylacyl-CoA racemase	349					bile acid biosynthetic process (GO:0006699)|bile acid metabolic process (GO:0008206)|cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|peroxisomal matrix (GO:0005782)|peroxisome (GO:0005777)	alpha-methylacyl-CoA racemase activity (GO:0008111)|receptor binding (GO:0005102)			endometrium(3)|kidney(1)|large_intestine(4)|lung(9)|stomach(1)|urinary_tract(1)	19						TCCTCAGTGTGTTCTCCTATG	0.448																																																0													89	92	91					5																	33989302		2203	4300	6503	SO:0001583	missense	23600			AF047020	CCDS3902.1, CCDS3903.1, CCDS54836.1	5p13.2	2012-05-16			ENSG00000242110	ENSG00000242110	5.1.99.4		451	protein-coding gene	gene with protein product		604489				9307041	Standard	NM_014324		Approved	RACE	uc003jij.3	Q9UHK6	OTTHUMG00000090734	ENST00000335606.6:c.1045C>G	5.37:g.33989302G>C	ENSP00000334424:p.His349Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A5YM47|B8Y916|B8Y918|F8W9N1|O43673|Q3KT79|Q96GH1|Q9Y3Q1	Missense_Mutation	SNP	ENST00000335606.6	37	CCDS3902.1	.	.	.	.	.	.	.	.	.	.	G	15.01	2.705693	0.48412	.	.	ENSG00000242110	ENST00000335606;ENST00000382085;ENST00000502637	T;T;T	0.74842	-0.88;-0.88;-0.88	5.6	5.6	0.85130	CoA-transferase family III domain (1);	0.000000	0.85682	D	0.000000	T	0.72700	0.3493	L	0.47078	1.49	0.80722	D	1	B;B;B	0.27997	0.197;0.063;0.063	B;B;B	0.35470	0.203;0.082;0.082	T	0.66031	-0.6024	10	0.19147	T	0.46	-26.3242	19.9797	0.97321	0.0:0.0:1.0:0.0	.	349;334;349	F8W9N1;D6RB81;Q9UHK6	.;.;AMACR_HUMAN	D	349;349;334	ENSP00000334424:H349D;ENSP00000371517:H349D;ENSP00000424351:H334D	ENSP00000334424:H349D	H	-	1	0	AMACR	34025059	1.000000	0.71417	1.000000	0.80357	0.764000	0.43329	9.456000	0.97628	2.791000	0.96007	0.637000	0.83480	CAC		0.448	AMACR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207467.1	NM_014324		C	33989302	G	C	33989302	3	2	635	1	0	0	0	0	1	0	0	0	562	1377	48	4	165	4	AMACR	5	33989302	Missense_Mutation	SNP	G	TCGA-KL-8336-01A-11D-2310-10	26281440	33989302	146925958	19	39162										
WDR70	55100	bcgsc.ca	37	chr5	37721278	37721278	+	Missense_Mutation	SNP	G	G	T													0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	catggttggaactggaaatgGattggctaaagtctattacg							TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr5:37721278G>T	ENST00000265107.4	+	14	1634	c.1478G>T	c.(1477-1479)gGa>gTa	p.G493V		NM_018034.2	NP_060504.1	Q9NW82	WDR70_HUMAN	WD repeat domain 70	493							enzyme binding (GO:0019899)			central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(5)|lung(18)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	37	all_lung(31;0.000285)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			ACTGGAAATGGATTGGCTAAA	0.468																																																0													146	140	142					5																	37721278		2203	4300	6503	SO:0001583	missense	55100			BC009648	CCDS34147.1	5p13.2	2013-01-09			ENSG00000082068	ENSG00000082068		"WD repeat domain containing"	25495	protein-coding gene	gene with protein product						12477932	Standard	NM_018034		Approved	FLJ10233	uc003jkv.3	Q9NW82	OTTHUMG00000162263	ENST00000265107.4:c.1478G>T	5.37:g.37721278G>T	ENSP00000265107:p.Gly493Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H053	Missense_Mutation	SNP	ENST00000265107.4	37	CCDS34147.1	.	.	.	.	.	.	.	.	.	.	G	26.8	4.768127	0.90020	.	.	ENSG00000082068	ENST00000265107	T	0.02197	4.4	6.17	6.17	0.99709	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.19604	0.0471	M	0.90369	3.11	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.00164	-1.1968	10	0.72032	D	0.01	-62.8479	20.8794	0.99867	0.0:0.0:1.0:0.0	.	493	Q9NW82	WDR70_HUMAN	V	493	ENSP00000265107:G493V	ENSP00000265107:G493V	G	+	2	0	WDR70	37757035	1.000000	0.71417	0.994000	0.49952	0.983000	0.72400	9.444000	0.97578	2.941000	0.99782	0.655000	0.94253	GGA		0.468	WDR70-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368294.1	NM_018034		T	37721278	G	T	37721278	3	4	635	1	0	0	0	0	1	0	0	0	17333	1174	41	4	1532	4	WDR70	5	37721278	Missense_Mutation	SNP	G	TCGA-KL-8336-01A-11D-2310-10	3731976	37721278	143193982	20	39163	329	2								
WDR70	55100	broad.mit.edu	37	chr5	37721279	37721279	+	Silent	SNP	A	A	G													0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	atggttggaactggaaatggAttggctaaagtctattacga							TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr5:37721279A>G	ENST00000265107.4	+	14	1635	c.1479A>G	c.(1477-1479)ggA>ggG	p.G493G		NM_018034.2	NP_060504.1	Q9NW82	WDR70_HUMAN	WD repeat domain 70	493							enzyme binding (GO:0019899)			central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(5)|lung(18)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	37	all_lung(31;0.000285)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CTGGAAATGGATTGGCTAAAG	0.468																																																0													146	140	142					5																	37721279		2203	4300	6503	SO:0001819	synonymous_variant	55100			BC009648	CCDS34147.1	5p13.2	2013-01-09			ENSG00000082068	ENSG00000082068		"WD repeat domain containing"	25495	protein-coding gene	gene with protein product						12477932	Standard	NM_018034		Approved	FLJ10233	uc003jkv.3	Q9NW82	OTTHUMG00000162263	ENST00000265107.4:c.1479A>G	5.37:g.37721279A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H053	Silent	SNP	ENST00000265107.4	37	CCDS34147.1																																																																																				0.468	WDR70-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368294.1	NM_018034		G	37721279	A	G	37721279	2	3	635	1	0	0	0	0	0	0	0	1	17333	320	12	3		3	WDR70	5	37721279	Silent	SNP	A	TCGA-KL-8336-01A-11D-2310-10	1	37721279	143193981	21	39164	329	2								
MUC21	394263	mdanderson.org	37	chr6	30954890	30954890	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	tacgacctccagtggggccaAcacagccaccaactctgact	8	16	1	1	rs9262379		TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr6:30954890A>G	ENST00000376296.3	+	2	1179	c.938A>G	c.(937-939)aAc>aGc	p.N313S	MUC21_ENST00000486149.2_5'UTR	NM_001010909.2	NP_001010909.2	Q5SSG8	MUC21_HUMAN	mucin 21, cell surface associated	313	28 X 15 AA approximate tandem repeats.|Ser-rich.		N -> S (in dbSNP:rs9262379). {ECO:0000269|PubMed:12975309, ECO:0000269|PubMed:14574404}.		cellular protein metabolic process (GO:0044267)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-substrate adhesion (GO:0010812)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(4)|breast(1)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(3)|prostate(4)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	42						AGTGGGGCCAACACAGCCACC	0.612																																																0													159	154	156					6																	30954890		2203	4300	6503	SO:0001583	missense	394263			AK056612	CCDS34388.1	6p21.33	2008-05-14	2008-05-14	2008-05-14	ENSG00000204544	ENSG00000204544		"Mucins"	21661	protein-coding gene	gene with protein product	"epiglycanin"		"chromosome 6 open reading frame 205"	C6orf205		17977904	Standard	NM_001010909		Approved	bCX31G15.2	uc003nsh.2	Q5SSG8	OTTHUMG00000031216	ENST00000376296.3:c.938A>G	6.37:g.30954890A>G	ENSP00000365473:p.Asn313Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B0UZT7|B4DQ55|C9JMK2|D9N007|Q0VGF1|Q3B7T2|Q5SS94|Q6UXC5	Missense_Mutation	SNP	ENST00000376296.3	37	CCDS34388.1	.	.	.	.	.	.	.	.	.	.	G	0.142	-1.101159	0.01843	.	.	ENSG00000204544	ENST00000376296	T	0.01215	5.16	4.3	1.1	0.20463	.	.	.	.	.	T	0.00144	0.0004	N	0.01352	-0.895	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.21827	-1.0234	8	.	.	.	-1.0265	1.6226	0.02716	0.1878:0.2961:0.3647:0.1514	rs9262379	313	Q5SSG8	MUC21_HUMAN	S	313	ENSP00000365473:N313S	.	N	+	2	0	MUC21	31062869	0.000000	0.05858	0.007000	0.13788	0.004000	0.04260	-1.270000	0.02831	0.150000	0.19136	-0.320000	0.08662	AAC		0.612	MUC21-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000128579.3	NM_001010909		G	30954890	A	G	30954890	3	3	635	1	0	0	0	0	1	0	0	0	9984	43	2	3	944	3	MUC21	6	30954890	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10		30954890	140160177	22	39165										
DAAM2	23500	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	39867902	39867902	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ggagcccagtgacaagtttgTccctgtcatgagcgacttca	11	11	2	2			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr6:39867902T>C	ENST00000398904.2	+	23	2911	c.2729T>C	c.(2728-2730)gTc>gCc	p.V910A	RP11-61I13.3_ENST00000606829.1_RNA|RP11-61I13.3_ENST00000420293.1_RNA|DAAM2_ENST00000538976.1_Missense_Mutation_p.V909A|RP11-61I13.3_ENST00000430595.1_RNA|RP11-61I13.3_ENST00000437947.1_RNA|DAAM2_ENST00000274867.4_Missense_Mutation_p.V910A			Q86T65	DAAM2_HUMAN	dishevelled associated activator of morphogenesis 2	910	FH2. {ECO:0000255|PROSITE- ProRule:PRU00774}.				actin cytoskeleton organization (GO:0030036)|determination of left/right symmetry (GO:0007368)					NS(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(9)|lung(18)|ovary(2)|prostate(4)|skin(2)|upper_aerodigestive_tract(5)	49	Ovarian(28;0.0355)|Colorectal(47;0.196)					GACAAGTTTGTCCCTGTCATG	0.582																																																0													42	45	44					6																	39867902		2026	4169	6195	SO:0001583	missense	23500			AB002379	CCDS54999.1, CCDS56426.1	6p21.1	2008-07-30			ENSG00000146122	ENSG00000146122			18143	protein-coding gene	gene with protein product		606627				11779461, 12632087	Standard	NM_015345		Approved	KIAA0381	uc003oow.3	Q86T65	OTTHUMG00000014653	ENST00000398904.2:c.2729T>C	6.37:g.39867902T>C	ENSP00000381876:p.Val910Ala	Somatic		WXS	Illumina HiSeq	Phase_I	G5EA45|Q5T4T8|Q5T4U0|Q9NQI5|Q9Y4G0	Missense_Mutation	SNP	ENST00000398904.2	37	CCDS56426.1	.	.	.	.	.	.	.	.	.	.	T	15.56	2.870333	0.51588	.	.	ENSG00000146122	ENST00000274867;ENST00000398904;ENST00000538976	T;T;T	0.18174	2.23;2.23;2.23	5.13	5.13	0.70059	Actin-binding FH2/DRF autoregulatory (1);Actin-binding FH2 (3);	0.240484	0.34133	N	0.004225	T	0.16300	0.0392	M	0.65677	2.01	0.80722	D	1	B;B	0.30439	0.055;0.279	B;B	0.38712	0.089;0.28	T	0.02232	-1.1191	10	0.66056	D	0.02	.	14.7529	0.69540	0.0:0.0:0.0:1.0	.	909;910	G5EA45;Q86T65	.;DAAM2_HUMAN	A	910;910;909	ENSP00000274867:V910A;ENSP00000381876:V910A;ENSP00000437808:V909A	ENSP00000274867:V910A	V	+	2	0	DAAM2	39975880	1.000000	0.71417	1.000000	0.80357	0.605000	0.37080	6.019000	0.70818	2.154000	0.67381	0.459000	0.35465	GTC		0.582	DAAM2-003	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000280648.1			C	39867902	T	C	39867902	3	2	635	1	0	0	0	0	1	0	0	0	4218	1667	58	3	2812	3	DAAM2	6	39867902	Missense_Mutation	SNP	T	TCGA-KL-8336-01A-11D-2310-10	8913012	39867902	131247165	23	39166										
HSP90AB1	3326	mdanderson.org	37	chr6	44221047	44221047	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	tgaaaccgccctgctatcttCtggcttttcccttgaggatc	8	13	2	2	rs61729441		TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr6:44221047C>T	ENST00000371554.1	+	11	2211	c.1997C>T	c.(1996-1998)tCt>tTt	p.S666F	HSP90AB1_ENST00000353801.3_Missense_Mutation_p.S666F|HSP90AB1_ENST00000371646.5_Missense_Mutation_p.S666F|MIR4647_ENST00000583964.1_RNA|SLC35B2_ENST00000495706.1_5'Flank			P08238	HS90B_HUMAN	heat shock protein 90kDa alpha (cytosolic), class B member 1	666					axon guidance (GO:0007411)|cellular response to interleukin-4 (GO:0071353)|cellular response to organic cyclic compound (GO:0071407)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032435)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|placenta development (GO:0001890)|positive regulation of cell size (GO:0045793)|positive regulation of nitric oxide biosynthetic process (GO:0045429)|positive regulation of protein binding (GO:0032092)|positive regulation of protein import into nucleus, translocation (GO:0033160)|positive regulation of protein serine/threonine kinase activity (GO:0071902)|protein folding (GO:0006457)|regulation of interferon-gamma-mediated signaling pathway (GO:0060334)|regulation of type I interferon-mediated signaling pathway (GO:0060338)|response to salt stress (GO:0009651)|response to unfolded protein (GO:0006986)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|brush border membrane (GO:0031526)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|inclusion body (GO:0016234)|membrane (GO:0016020)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|CTP binding (GO:0002135)|dATP binding (GO:0032564)|double-stranded RNA binding (GO:0003725)|GTP binding (GO:0005525)|MHC class II protein complex binding (GO:0023026)|nitric-oxide synthase regulator activity (GO:0030235)|poly(A) RNA binding (GO:0044822)|TPR domain binding (GO:0030911)|UTP binding (GO:0002134)			NS(1)|breast(1)|endometrium(6)|kidney(2)|large_intestine(5)|lung(12)|prostate(2)|skin(2)|urinary_tract(2)	33	all_cancers(18;1.7e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CTGCTATCTTCTGGCTTTTCC	0.532																																																0													332	336	335					6																	44221047		2203	4300	6503	SO:0001583	missense	3326			AF275719	CCDS4909.1	6p12	2011-09-02	2006-02-24	2006-02-24	ENSG00000096384	ENSG00000096384		"Heat shock proteins / HSPC"	5258	protein-coding gene	gene with protein product		140572	"heat shock 90kD protein 1, beta", "heat shock 90kDa protein 1, beta"	HSPC2, HSPCB		2768249, 16269234	Standard	NM_001271969		Approved		uc031sor.1	P08238	OTTHUMG00000014761	ENST00000371554.1:c.1997C>T	6.37:g.44221047C>T	ENSP00000360609:p.Ser666Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5P0|Q5T9W7|Q9NQW0|Q9NTK6	Missense_Mutation	SNP	ENST00000371554.1	37	CCDS4909.1	.	.	.	.	.	.	.	.	.	.	C	15.55	2.868141	0.51588	.	.	ENSG00000096384	ENST00000371646;ENST00000353801;ENST00000371554	T;T;T	0.17854	2.25;2.25;2.25	4.56	4.56	0.56223	.	0.000000	0.64402	U	0.000002	T	0.57403	0.2051	H	0.99104	4.43	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	T	0.78750	-0.2082	10	0.87932	D	0	-12.9647	17.6805	0.88241	0.0:1.0:0.0:0.0	rs61729441	628;656;666	B4DMA2;B4DGL0;P08238	.;.;HS90B_HUMAN	F	666	ENSP00000360709:S666F;ENSP00000325875:S666F;ENSP00000360609:S666F	ENSP00000325875:S666F	S	+	2	0	HSP90AB1	44329025	1.000000	0.71417	0.209000	0.23619	0.048000	0.14542	7.779000	0.85648	2.265000	0.75225	0.508000	0.49915	TCT		0.532	HSP90AB1-005	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040730.1	NM_007355		T	44221047	C	T	44221047	3	4	635	1	0	0	0	0	1	0	0	0	7409	913	32	2	2035	2	HSP90AB1	6	44221047	Missense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10	4353145	44221047	126894020	24	39167										
ZNF12	7559	broad.mit.edu	37	chr7	6732196	6732196	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	tttttcttgaaggaacagggTtcgtttctacatcaaaagtt	8	6	3	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr7:6732196T>C	ENST00000405858.1	-	5	918	c.377A>G	c.(376-378)aAc>aGc	p.N126S	AC073343.2_ENST00000577401.1_RNA|ZNF12_ENST00000342651.5_Intron|ZNF12_ENST00000404360.1_Intron|AC073343.13_ENST00000366167.2_RNA	NM_006956.2|NM_016265.3	NP_008887.2|NP_057349.2	P17014	ZNF12_HUMAN	zinc finger protein 12	126					negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(2)|endometrium(1)|large_intestine(1)|lung(7)|prostate(2)|upper_aerodigestive_tract(3)	16		Ovarian(82;0.0776)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0231)		AGGAACAGGGTTCGTTTCTAC	0.373																																																0													192	187	189					7																	6732196		1837	4087	5924	SO:0001583	missense	7559			X52334, AB021643	CCDS47538.1, CCDS47539.1	7p21.1	2013-01-08	2005-06-09		ENSG00000164631	ENSG00000164631		"Zinc fingers, C2H2-type", "-"	12902	protein-coding gene	gene with protein product		194536	"zinc finger protein 325"	ZNF325			Standard	NM_016265		Approved	KOX3, GIOT-3	uc003sqt.1	P17014	OTTHUMG00000151910	ENST00000405858.1:c.377A>G	7.37:g.6732196T>C	ENSP00000385939:p.Asn126Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8MYC4|A8WFQ8|B2RNQ7|B4DF45|Q6N016|Q8NHZ0|Q9H9P0|Q9ULZ6	Missense_Mutation	SNP	ENST00000405858.1	37	CCDS47538.1	.	.	.	.	.	.	.	.	.	.	T	0.124	-1.121875	0.01785	.	.	ENSG00000164631	ENST00000405858;ENST00000399476;ENST00000330442	T	0.05199	3.48	4.45	-1.97	0.07503	.	0.454658	0.18758	N	0.131981	T	0.02610	0.0079	N	0.11698	0.16	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.46373	-0.9196	10	0.02654	T	1	.	9.7496	0.40468	0.0:0.4855:0.0:0.5145	.	126	P17014	ZNF12_HUMAN	S	126;184;90	ENSP00000385939:N126S	ENSP00000331039:N90S	N	-	2	0	ZNF12	6698721	.	.	0.000000	0.03702	0.007000	0.05969	.	.	-0.330000	0.08514	0.528000	0.53228	AAC		0.373	ZNF12-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000324373.2	NM_016265		C	6732196	T	C	6732196	3	2	635	1	0	0	0	0	1	0	0	0	17730	1725	60	3	1720	3	ZNF12	7	6732196	Missense_Mutation	SNP	T	TCGA-KL-8336-01A-11D-2310-10		6732196	152406467	25	39168										
HIP1	3092	hgsc.bcm.edu	37	chr7	75228522	75228522	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ttctggcgtgtttttcctttAcagccacttcctgcgtatta	7	11	1	0	rs202058558|rs146838091		TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr7:75228522A>G	ENST00000336926.6	-	2	190	c.164T>C	c.(163-165)gTa>gCa	p.V55A	HIP1_ENST00000434438.2_Missense_Mutation_p.V55A	NM_005338.5	NP_005329.3	O00291	HIP1_HUMAN	huntingtin interacting protein 1	55	ENTH. {ECO:0000255|PROSITE- ProRule:PRU00243}.				activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|cell differentiation (GO:0030154)|clathrin coat assembly (GO:0048268)|endocytosis (GO:0006897)|positive regulation of receptor-mediated endocytosis (GO:0048260)|regulation of apoptotic process (GO:0042981)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	clathrin-coated vesicle (GO:0030136)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)	clathrin binding (GO:0030276)|phosphatidylinositol binding (GO:0035091)|structural constituent of cytoskeleton (GO:0005200)	p.V55E(1)		breast(3)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(25)|ovary(2)|pancreas(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	51						TTTTTCCTTTACAGCCACTTC	0.502			T	PDGFRB	CMML																																		Dom	yes		7	7q11.23	3092	huntingtin interacting protein 1		L	1	Substitution - Missense(1)	lung(1)											158	157	157					7																	75228522		2203	4300	6503	SO:0001583	missense	3092			AF052288	CCDS34669.1, CCDS59060.1	7q11.23	2008-07-18			ENSG00000127946	ENSG00000127946			4913	protein-coding gene	gene with protein product		601767				9140394, 9147654	Standard	NM_005338		Approved	ILWEQ	uc003uds.2	O00291	OTTHUMG00000156050	ENST00000336926.6:c.164T>C	7.37:g.75228522A>G	ENSP00000336747:p.Val55Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3I7|E7ES17|O00328|Q2TB58|Q8TDL4	Missense_Mutation	SNP	ENST00000336926.6	37	CCDS34669.1	.	.	.	.	.	.	.	.	.	.	A	25.0	4.591713	0.86953	.	.	ENSG00000127946	ENST00000336926;ENST00000434438;ENST00000420909	T;T;T	0.30981	1.51;1.51;1.51	5.13	5.13	0.70059	ENTH/VHS (2);ANTH (1);Epsin-like, N-terminal (2);	0.000000	0.85682	D	0.000000	T	0.43010	0.1228	L	0.38953	1.18	0.58432	D	0.999999	D	0.89917	1.0	D	0.77557	0.99	T	0.13124	-1.0521	10	0.21014	T	0.42	-21.9336	14.2644	0.66107	1.0:0.0:0.0:0.0	.	55	O00291	HIP1_HUMAN	A	55;55;26	ENSP00000336747:V55A;ENSP00000410300:V55A;ENSP00000414280:V26A	ENSP00000336747:V55A	V	-	2	0	HIP1	75066458	1.000000	0.71417	0.992000	0.48379	0.989000	0.77384	8.757000	0.91657	2.154000	0.67381	0.459000	0.35465	GTA		0.502	HIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342863.2	NM_005338		G	75228522	A	G	75228522	3	3	635	1	0	0	0	0	1	0	0	0	7121	391	14	3	3069	3	HIP1	7	75228522	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10	68496326	75228522	83910141	26	39169										
CROT	54677	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	87006732	87006732	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	caaatcctataacttgatttCcttttctaatggagtatttg	5	7	1	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr7:87006732C>T	ENST00000331536.3	+	10	1129	c.944C>T	c.(943-945)tCc>tTc	p.S315F	CROT_ENST00000419147.2_Missense_Mutation_p.S343F|CROT_ENST00000442291.1_Missense_Mutation_p.S315F	NM_021151.3	NP_066974.2	Q9UKG9	OCTC_HUMAN	carnitine O-octanoyltransferase	315					carnitine metabolic process (GO:0009437)|cellular lipid metabolic process (GO:0044255)|coenzyme A metabolic process (GO:0015936)|fatty acid beta-oxidation (GO:0006635)|fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)|fatty acid metabolic process (GO:0006631)|fatty acid transport (GO:0015908)|generation of precursor metabolites and energy (GO:0006091)|medium-chain fatty acid metabolic process (GO:0051791)|small molecule metabolic process (GO:0044281)	intracellular membrane-bounded organelle (GO:0043231)|mitochondrion (GO:0005739)|peroxisomal matrix (GO:0005782)|peroxisome (GO:0005777)	carnitine O-octanoyltransferase activity (GO:0008458)|receptor binding (GO:0005102)			NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(21)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	37	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	AACTTGATTTCCTTTTCTAAT	0.294																																																0													122	129	127					7																	87006732		2203	4300	6503	SO:0001583	missense	54677				CCDS5604.1, CCDS47634.1, CCDS59062.1	7q21.1	2010-02-26			ENSG00000005469	ENSG00000005469			2366	protein-coding gene	gene with protein product		606090				10486279	Standard	NM_021151		Approved	COT	uc003uit.3	Q9UKG9	OTTHUMG00000023653	ENST00000331536.3:c.944C>T	7.37:g.87006732C>T	ENSP00000331981:p.Ser315Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1D6|E7EQF2|Q86V17|Q8IUW9|Q9Y6I2	Missense_Mutation	SNP	ENST00000331536.3	37	CCDS5604.1	.	.	.	.	.	.	.	.	.	.	C	7.739	0.700957	0.15172	.	.	ENSG00000005469	ENST00000419147;ENST00000331536;ENST00000442291	D;D;D	0.89343	-2.5;-2.5;-2.5	6.17	6.17	0.99709	.	0.460969	0.26673	N	0.023082	D	0.82967	0.5152	L	0.31065	0.9	0.31304	N	0.687954	B;B	0.22276	0.011;0.067	B;B	0.23150	0.017;0.044	T	0.80632	-0.1296	10	0.59425	D	0.04	-6.977	11.7019	0.51575	0.0:0.8958:0.0:0.1042	.	343;315	E7EQF2;Q9UKG9	.;OCTC_HUMAN	F	343;315;315	ENSP00000413575:S343F;ENSP00000331981:S315F;ENSP00000411983:S315F	ENSP00000331981:S315F	S	+	2	0	CROT	86844668	0.782000	0.28689	1.000000	0.80357	0.996000	0.88848	1.675000	0.37555	2.941000	0.99782	0.655000	0.94253	TCC		0.294	CROT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253485.1	NM_021151		T	87006732	C	T	87006732	3	4	635	1	0	0	0	0	1	0	0	0	3896	855	30	2	1062	2	CROT	7	87006732	Missense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10	11778210	87006732	72131931	27	39170										
MUC17	140453	bcgsc.ca	37	chr7	100677833	100677833	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	aaggaagcactccattaacaCgtatgcctgtcagcaccaca	7	13	1	0			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr7:100677833C>A	ENST00000306151.4	+	3	3200	c.3136C>A	c.(3136-3138)Cgt>Agt	p.R1046S		NM_001040105.1	NP_001035194.1	Q685J3	MUC17_HUMAN	mucin 17, cell surface associated	1046	59 X approximate tandem repeats.|Ser-rich.				cellular homeostasis (GO:0019725)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	apical plasma membrane (GO:0016324)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)	extracellular matrix constituent, lubricant activity (GO:0030197)|PDZ domain binding (GO:0030165)			NS(3)|breast(14)|central_nervous_system(2)|cervix(2)|endometrium(27)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(28)|lung(179)|ovary(19)|pancreas(1)|prostate(13)|skin(26)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(4)	343	Lung NSC(181;0.136)|all_lung(186;0.182)					TCCATTAACACGTATGCCTGT	0.507																																																0													524	402	443					7																	100677833		2203	4300	6503	SO:0001583	missense	140453			AJ606307	CCDS34711.1	7q22	2007-01-17	2006-03-14		ENSG00000169876	ENSG00000169876		"Mucins"	16800	protein-coding gene	gene with protein product		608424				11855812	Standard	NM_001040105		Approved		uc003uxp.1	Q685J3	OTTHUMG00000157030	ENST00000306151.4:c.3136C>A	7.37:g.100677833C>A	ENSP00000302716:p.Arg1046Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O14761|Q685J2|Q8TDH7	Missense_Mutation	SNP	ENST00000306151.4	37	CCDS34711.1	.	.	.	.	.	.	.	.	.	.	A	1.205	-0.631341	0.03584	.	.	ENSG00000169876	ENST00000306151	T	0.02787	4.16	0.74	-1.48	0.08745	.	.	.	.	.	T	0.01029	0.0034	N	0.03608	-0.345	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.43196	-0.9406	9	0.07990	T	0.79	.	0.3405	0.00332	0.4111:0.2076:0.1754:0.2059	.	1046	Q685J3	MUC17_HUMAN	S	1046	ENSP00000302716:R1046S	ENSP00000302716:R1046S	R	+	1	0	MUC17	100464553	0.000000	0.05858	0.000000	0.03702	0.007000	0.05969	-4.689000	0.00198	-2.469000	0.00531	-1.596000	0.00833	CGT		0.507	MUC17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347161.1	NM_001040105		A	100677833	C	A	100677833	3	1	635	1	0	0	0	0	1	0	0	0	9981	536	19	4	3146	4	MUC17	7	100677833	Missense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10	13671101	100677833	58460830	28	39171			1	84		4	4	4115	N	G_C_A	1.389192e-07
MUC17	140453	mdanderson.org	37	chr7	100678932	100678932	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	cacgccggtagtcagttctgAggctagcaccctttcagcaa	10	13	3	1	rs114941002		TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr7:100678932A>G	ENST00000306151.4	+	3	4299	c.4235A>G	c.(4234-4236)gAg>gGg	p.E1412G		NM_001040105.1	NP_001035194.1	Q685J3	MUC17_HUMAN	mucin 17, cell surface associated	1412	59 X approximate tandem repeats.|Ser-rich.				cellular homeostasis (GO:0019725)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	apical plasma membrane (GO:0016324)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)	extracellular matrix constituent, lubricant activity (GO:0030197)|PDZ domain binding (GO:0030165)			NS(3)|breast(14)|central_nervous_system(2)|cervix(2)|endometrium(27)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(28)|lung(179)|ovary(19)|pancreas(1)|prostate(13)|skin(26)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(4)	343	Lung NSC(181;0.136)|all_lung(186;0.182)					GTCAGTTCTGAGGCTAGCACC	0.502																																																0													272	277	275					7																	100678932		2203	4300	6503	SO:0001583	missense	140453			AJ606307	CCDS34711.1	7q22	2007-01-17	2006-03-14		ENSG00000169876	ENSG00000169876		"Mucins"	16800	protein-coding gene	gene with protein product		608424				11855812	Standard	NM_001040105		Approved		uc003uxp.1	Q685J3	OTTHUMG00000157030	ENST00000306151.4:c.4235A>G	7.37:g.100678932A>G	ENSP00000302716:p.Glu1412Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O14761|Q685J2|Q8TDH7	Missense_Mutation	SNP	ENST00000306151.4	37	CCDS34711.1	.	.	.	.	.	.	.	.	.	.	a	1.916	-0.449416	0.04572	.	.	ENSG00000169876	ENST00000306151	T	0.02737	4.18	0.838	-0.578	0.11724	.	.	.	.	.	T	0.01592	0.0051	N	0.17082	0.46	0.09310	N	1	B	0.27765	0.188	B	0.19946	0.027	T	0.48502	-0.9030	9	0.23891	T	0.37	.	3.0434	0.06146	0.6909:0.0:0.3091:0.0	.	1412	Q685J3	MUC17_HUMAN	G	1412	ENSP00000302716:E1412G	ENSP00000302716:E1412G	E	+	2	0	MUC17	100465652	0.000000	0.05858	0.000000	0.03702	0.021000	0.10359	-0.362000	0.07602	-0.153000	0.11137	0.113000	0.15668	GAG		0.502	MUC17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347161.1	NM_001040105		G	100678932	A	G	100678932	3	3	635	1	0	0	0	0	1	0	0	0	9981	304	11	3	4245	3	MUC17	7	100678932	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10	1099	100678932	58459731	29	39172			1	84		4	4	4115	N	G_C_A	1.389192e-07
MUC17	140453	mdanderson.org	37	chr7	100681211	100681211	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	gtatgcctgtcagcaccacaGtggtggccagttctgcaatc	11	12	2	0	rs147094151	byFrequency	TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr7:100681211G>C	ENST00000306151.4	+	3	6578	c.6514G>C	c.(6514-6516)Gtg>Ctg	p.V2172L		NM_001040105.1	NP_001035194.1	Q685J3	MUC17_HUMAN	mucin 17, cell surface associated	2172	59 X approximate tandem repeats.|Ser-rich.				cellular homeostasis (GO:0019725)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	apical plasma membrane (GO:0016324)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)	extracellular matrix constituent, lubricant activity (GO:0030197)|PDZ domain binding (GO:0030165)			NS(3)|breast(14)|central_nervous_system(2)|cervix(2)|endometrium(27)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(28)|lung(179)|ovary(19)|pancreas(1)|prostate(13)|skin(26)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(4)	343	Lung NSC(181;0.136)|all_lung(186;0.182)					CAGCACCACAGTGGTGGCCAG	0.468																																																0								C	LEU/VAL	33,4373		0,33,2170	246	241	243		6514	-1.4	0	7	dbSNP_134	243	373,8227		6,361,3933	no	missense	MUC17	NM_001040105.1	32	6,394,6103	CC,CG,GG		4.3372,0.749,3.1216	benign	2172/4494	100681211	406,12600	2203	4300	6503	SO:0001583	missense	140453			AJ606307	CCDS34711.1	7q22	2007-01-17	2006-03-14		ENSG00000169876	ENSG00000169876		"Mucins"	16800	protein-coding gene	gene with protein product		608424				11855812	Standard	NM_001040105		Approved		uc003uxp.1	Q685J3	OTTHUMG00000157030	ENST00000306151.4:c.6514G>C	7.37:g.100681211G>C	ENSP00000302716:p.Val2172Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O14761|Q685J2|Q8TDH7	Missense_Mutation	SNP	ENST00000306151.4	37	CCDS34711.1	.	.	.	.	.	.	.	.	.	.	N	0.655	-0.807913	0.02819	0.00749	0.043372	ENSG00000169876	ENST00000306151	T	0.02446	4.29	0.683	-1.37	0.09056	.	.	.	.	.	T	0.00328	0.0010	N	0.03608	-0.345	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.44667	-0.9313	9	0.24483	T	0.36	.	3.5846	0.07966	0.3877:0.2157:0.3965:0.0	.	2172	Q685J3	MUC17_HUMAN	L	2172	ENSP00000302716:V2172L	ENSP00000302716:V2172L	V	+	1	0	MUC17	100467931	.	.	0.000000	0.03702	0.000000	0.00434	.	.	-2.419000	0.00565	-1.314000	0.01303	GTG		0.468	MUC17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347161.1	NM_001040105		C	100681211	G	C	100681211	3	2	635	1	0	0	0	0	1	0	0	0	9981	1029	36	4	6524	4	MUC17	7	100681211	Missense_Mutation	SNP	G	TCGA-KL-8336-01A-11D-2310-10	2279	100681211	58457452	30	39173			1	84		4	4	4115	N	G_C_A	1.389192e-07
MUC17	140453	mdanderson.org	37	chr7	100681947	100681947	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	cagttctgaggctagcacccAttccacaactcctgttgaca	7	14	1	2	rs139220229		TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr7:100681947A>T	ENST00000306151.4	+	3	7314	c.7250A>T	c.(7249-7251)cAt>cTt	p.H2417L		NM_001040105.1	NP_001035194.1	Q685J3	MUC17_HUMAN	mucin 17, cell surface associated	2417	59 X approximate tandem repeats.|Ser-rich.				cellular homeostasis (GO:0019725)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	apical plasma membrane (GO:0016324)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)	extracellular matrix constituent, lubricant activity (GO:0030197)|PDZ domain binding (GO:0030165)			NS(3)|breast(14)|central_nervous_system(2)|cervix(2)|endometrium(27)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(28)|lung(179)|ovary(19)|pancreas(1)|prostate(13)|skin(26)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(4)	343	Lung NSC(181;0.136)|all_lung(186;0.182)					GCTAGCACCCATTCCACAACT	0.507																																																0													386	369	375					7																	100681947		2203	4300	6503	SO:0001583	missense	140453			AJ606307	CCDS34711.1	7q22	2007-01-17	2006-03-14		ENSG00000169876	ENSG00000169876		"Mucins"	16800	protein-coding gene	gene with protein product		608424				11855812	Standard	NM_001040105		Approved		uc003uxp.1	Q685J3	OTTHUMG00000157030	ENST00000306151.4:c.7250A>T	7.37:g.100681947A>T	ENSP00000302716:p.His2417Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O14761|Q685J2|Q8TDH7	Missense_Mutation	SNP	ENST00000306151.4	37	CCDS34711.1	.	.	.	.	.	.	.	.	.	.	N	1.961	-0.438892	0.04636	.	.	ENSG00000169876	ENST00000306151	T	0.02472	4.28	1.43	0.404	0.16355	.	.	.	.	.	T	0.00998	0.0033	N	0.01576	-0.805	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.47774	-0.9091	9	0.11485	T	0.65	.	3.3547	0.07164	0.245:0.5788:0.0:0.1763	.	2417	Q685J3	MUC17_HUMAN	L	2417	ENSP00000302716:H2417L	ENSP00000302716:H2417L	H	+	2	0	MUC17	100468667	0.003000	0.15002	0.000000	0.03702	0.002000	0.02628	0.019000	0.13444	-0.658000	0.05366	-1.625000	0.00788	CAT		0.507	MUC17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347161.1	NM_001040105		T	100681947	A	T	100681947	3	4	635	1	0	0	0	0	1	0	0	0	9981	217	8	5	7260	5	MUC17	7	100681947	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10	736	100681947	58456716	31	39174			1	84		4	4	4115	N	G_C_A	1.389192e-07
LOC441294	441294	broad.mit.edu	37	chr7	143268925	143268926	+	Frame_Shift_Ins	INS	-	-	C													0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	acgctatggaggagcccggtINSgctacccctcagccctacct							TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr7:143268925_143268926insC	ENST00000420911.2	+	1	32_33	c.15_16insC	c.(16-18)gctfs	p.A6fs	RNU6-162P_ENST00000516228.1_RNA	NM_001008747.1	NP_001008747.1	A4D2H0	CTGEF_HUMAN	CTAGE family, member 15	6						integral component of membrane (GO:0016021)											AGGAGCCCGGTGCTACCCCTCA	0.594																																																0																																										SO:0001589	frameshift_variant	441294				CCDS64788.1	7q35	2013-02-25	2013-02-25	2013-02-25	ENSG00000176227	ENSG00000271079			37295	protein-coding gene	gene with protein product			"CTAGE family, member 15, pseudogene"	CTAGE15P			Standard	NM_001008747		Approved		uc011kth.3	A4D2H0	OTTHUMG00000153233	Exception_encountered	7.37:g.143268925_143268926insC	ENSP00000474204:p.Ala6fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8Z8	Frame_Shift_Ins	INS	ENST00000420911.2	37																																																																																					0.594	CTAGE15-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000330280.2	NM_001008747		C	143268926	-	C	143268925	7	5	635	1	0	1	1	0	0	0	0	0	8887	1683	59	0	17	0	LOC441294	7	143268925	Frame_Shift_Ins	INS	-	TCGA-KL-8336-01A-11D-2310-10	42586978	143268925	15869738	32	39175										
SLC4A2	6522	broad.mit.edu	37	chr7	150763999	150763999	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	gtgcggaagaatgccaaaggTtccacacagagtggccgaga	14	9	0	3			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr7:150763999T>C	ENST00000485713.1	+	7	1925	c.885T>C	c.(883-885)ggT>ggC	p.G295G	SLC4A2_ENST00000413384.2_Silent_p.G295G|SLC4A2_ENST00000310317.5_Silent_p.G213G|SLC4A2_ENST00000461735.1_Silent_p.G281G|SLC4A2_ENST00000392826.2_Silent_p.G286G	NM_001199692.1	NP_001186621.1	P04920	B3A2_HUMAN	solute carrier family 4 (anion exchanger), member 2	295	Pro-rich.				anion transport (GO:0006820)|bicarbonate transport (GO:0015701)|ion transport (GO:0006811)|transmembrane transport (GO:0055085)	basolateral plasma membrane (GO:0016323)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	anion transmembrane transporter activity (GO:0008509)|chloride transmembrane transporter activity (GO:0015108)|inorganic anion exchanger activity (GO:0005452)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(2)|liver(2)|lung(14)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	33			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ATGCCAAAGGTTCCACACAGA	0.657																																																0													51	56	55					7																	150763999		2203	4300	6503	SO:0001819	synonymous_variant	6522				CCDS5917.1, CCDS56520.1, CCDS56521.1	7q36.1	2013-07-19	2013-07-19		ENSG00000164889	ENSG00000164889		"Solute carriers"	11028	protein-coding gene	gene with protein product	"anion exchanger 2 type a", "anion exchanger 2 type b1", "anion exchanger 2 type b2"	109280	"erythrocyte membrane protein band 3-like 1", "solute carrier family 4, anion exchanger, member 2 (erythrocyte membrane protein band 3-like 1)"	EPB3L1, AE2		8434259	Standard	NM_003040		Approved	HKB3, BND3L, NBND3	uc003wit.4	P04920	OTTHUMG00000158443	ENST00000485713.1:c.885T>C	7.37:g.150763999T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R6T0|B4DIT0|D3DX05|F8W682|Q45EY5|Q969L3	Silent	SNP	ENST00000485713.1	37	CCDS5917.1																																																																																				0.657	SLC4A2-002	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000351039.1	NM_003040		C	150763999	T	C	150763999	2	2	635	1	0	0	0	0	0	0	0	1	14667	1712	60	3		3	SLC4A2	7	150763999	Silent	SNP	T	TCGA-KL-8336-01A-11D-2310-10	7495074	150763999	8374664	33	39176										
LRRC24	441381	ucsc.edu	37	chr8	145748410	145748410	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	cagcgtgatgttgctgaggaAgagcatgccgctgcccgtgt	15	10	0	3			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr8:145748410A>G	ENST00000529415.2	-	5	1108	c.991T>C	c.(991-993)Ttc>Ctc	p.F331L	LRRC14_ENST00000292524.1_3'UTR|LRRC14_ENST00000528528.1_3'UTR|LRRC24_ENST00000533758.1_Missense_Mutation_p.F328L			Q50LG9	LRC24_HUMAN	leucine rich repeat containing 24	331	Ig-like C2-type.					integral component of membrane (GO:0016021)				breast(2)|endometrium(1)|kidney(1)|lung(1)	5	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			TTGCTGAGGAAGAGCATGCCG	0.721																																																0													20	23	22					8																	145748410		2008	3952	5960	SO:0001583	missense	441381			AB178281	CCDS34969.1	8q24.3	2013-01-11			ENSG00000254402	ENSG00000254402		"Immunoglobulin superfamily / I-set domain containing"	28947	protein-coding gene	gene with protein product						7584026	Standard	NM_001024678		Approved	LRRC14OS	uc003zdm.3	Q50LG9	OTTHUMG00000165180	ENST00000529415.2:c.991T>C	8.37:g.145748410A>G	ENSP00000434849:p.Phe331Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000529415.2	37	CCDS34969.1	.	.	.	.	.	.	.	.	.	.	A	33	5.203611	0.95033	.	.	ENSG00000254402	ENST00000529415;ENST00000533758	T;T	0.66280	-0.2;-0.2	4.73	4.73	0.59995	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.106723	0.64402	D	0.000005	T	0.61123	0.2322	N	0.21324	0.655	0.51012	D	0.999903	P;D	0.56968	0.952;0.978	P;P	0.57911	0.652;0.829	T	0.61973	-0.6952	10	0.41790	T	0.15	.	12.2096	0.54371	1.0:0.0:0.0:0.0	.	328;331	G3V1D8;Q50LG9	.;LRC24_HUMAN	L	331;328	ENSP00000434849:F331L;ENSP00000435653:F328L	ENSP00000434849:F331L	F	-	1	0	LRRC24	145719218	1.000000	0.71417	1.000000	0.80357	0.963000	0.63663	4.396000	0.59684	1.992000	0.58205	0.459000	0.35465	TTC		0.721	LRRC24-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000382501.2	NM_001024678		G	145748410	A	G	145748410	3	3	635	1	0	0	0	0	1	0	0	0	8986	72	3	3	554	3	LRRC24	8	145748410	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10		145748410	615612	34	39177										
SMARCA2	6595	mdanderson.org	37	chr9	2039818	2039818	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	cagcagcagcagcagcagcaAcagcagccgcagcagcagcc	12	16	0	0			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr9:2039818A>G	ENST00000382203.1	+	4	917	c.708A>G	c.(706-708)caA>caG	p.Q236Q	SMARCA2_ENST00000382194.1_Silent_p.Q236Q|SMARCA2_ENST00000491574.1_3'UTR|SMARCA2_ENST00000349721.2_Silent_p.Q236Q|RP11-264I13.2_ENST00000426860.1_RNA|SMARCA2_ENST00000357248.2_Silent_p.Q236Q			P51531	SMCA2_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	236	Poly-Gln.				aortic smooth muscle cell differentiation (GO:0035887)|ATP catabolic process (GO:0006200)|chromatin remodeling (GO:0006338)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|nervous system development (GO:0007399)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)	intermediate filament cytoskeleton (GO:0045111)|intracellular membrane-bounded organelle (GO:0043231)|nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SWI/SNF complex (GO:0016514)	ATP binding (GO:0005524)|DNA-dependent ATPase activity (GO:0008094)|helicase activity (GO:0004386)|RNA polymerase II transcription coactivator activity (GO:0001105)|transcription coactivator activity (GO:0003713)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(3)|large_intestine(11)|liver(2)|lung(19)|ovary(3)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	56		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		agcagcagcaacagcagccgc	0.587																																																0													11	13	13					9																	2039818		2170	4235	6405	SO:0001819	synonymous_variant	6595			D26155	CCDS34977.1, CCDS34978.1, CCDS75807.1, CCDS75808.1	9p24.3	2008-11-11	2006-11-09		ENSG00000080503	ENSG00000080503			11098	protein-coding gene	gene with protein product		600014		SNF2L2		8012116	Standard	NM_003070		Approved	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2	uc003zhc.3	P51531	OTTHUMG00000019445	ENST00000382203.1:c.708A>G	9.37:g.2039818A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B1ALG3|B1ALG4|D3DRH4|D3DRH5	Silent	SNP	ENST00000382203.1	37	CCDS34977.1																																																																																				0.587	SMARCA2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000051505.1	NM_003070		G	2039818	A	G	2039818	2	3	635	1	0	0	0	0	0	0	0	1	14782	40	2	3		3	SMARCA2	9	2039818	Silent	SNP	A	TCGA-KL-8336-01A-11D-2310-10		2039818	139173613	35	39178										
BICD2	23299	ucsc.edu	37	chr9	95526797	95526797	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ctcggctcacctccttgagcTgctccatctcgctgcggata	9	16	2	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr9:95526797T>C	ENST00000375512.3	-	1	297	c.230A>G	c.(229-231)cAg>cGg	p.Q77R	BICD2_ENST00000356884.6_Missense_Mutation_p.Q77R	NM_015250.3	NP_056065.1	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 (Drosophila)	77					cell death (GO:0008219)|microtubule anchoring at microtubule organizing center (GO:0072393)|minus-end-directed organelle transport along microtubule (GO:0072385)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	Rab GTPase binding (GO:0017137)			cervix(3)|endometrium(4)|kidney(1)|large_intestine(6)|lung(5)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	23						CTCCTTGAGCTGCTCCATCTC	0.697																																																0													13	8	9					9																	95526797		2017	3948	5965	SO:0001583	missense	23299			AB014599	CCDS6700.1, CCDS35064.1	9q22.32	2008-02-05			ENSG00000185963	ENSG00000185963			17208	protein-coding gene	gene with protein product		609797				9734811	Standard	NM_001003800		Approved	KIAA0699	uc004asp.1	Q8TD16	OTTHUMG00000021036	ENST00000375512.3:c.230A>G	9.37:g.95526797T>C	ENSP00000364662:p.Gln77Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O75181|Q5TBQ2|Q5TBQ3|Q96LH2|Q9BT84|Q9H561	Missense_Mutation	SNP	ENST00000375512.3	37	CCDS6700.1	.	.	.	.	.	.	.	.	.	.	.	16.25	3.070864	0.55539	.	.	ENSG00000185963	ENST00000356884;ENST00000375512	T;T	0.47177	0.85;0.86	4.88	3.72	0.42706	.	0.137012	0.49916	D	0.000130	T	0.42539	0.1207	M	0.64404	1.975	0.38996	D	0.959241	B;B	0.12013	0.005;0.001	B;B	0.11329	0.006;0.002	T	0.33033	-0.9884	10	0.33141	T	0.24	-35.5025	9.3407	0.38079	0.1607:0.0:0.0:0.8393	.	77;77	Q8TD16-2;Q8TD16	.;BICD2_HUMAN	R	77	ENSP00000349351:Q77R;ENSP00000364662:Q77R	ENSP00000349351:Q77R	Q	-	2	0	BICD2	94566618	1.000000	0.71417	1.000000	0.80357	0.956000	0.61745	3.841000	0.55850	0.792000	0.33850	0.374000	0.22700	CAG		0.697	BICD2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000055508.1	NM_015250		C	95526797	T	C	95526797	3	2	635	1	0	0	0	0	1	0	0	0	1429	1580	55	3	2375	3	BICD2	9	95526797	Missense_Mutation	SNP	T	TCGA-KL-8336-01A-11D-2310-10	93486979	95526797	45686634	36	39179										
GSN	2934	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	124089710	124089710	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	gacgggggcccaggagctgcTcagggtgctgcgggcccaac	18	13	1	0			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr9:124089710T>C	ENST00000373818.4	+	13	1934	c.1865T>C	c.(1864-1866)cTc>cCc	p.L622P	GSN_ENST00000412819.1_Missense_Mutation_p.L571P|GSN_ENST00000436847.1_Missense_Mutation_p.L582P|GSN_ENST00000394353.2_Missense_Mutation_p.L582P|GSN_ENST00000373823.3_Missense_Mutation_p.L571P|GSN_ENST00000373807.1_Missense_Mutation_p.L353P|GSN_ENST00000449733.1_Missense_Mutation_p.L571P|GSN_ENST00000373806.1_Missense_Mutation_p.L47P|GSN_ENST00000341272.2_Missense_Mutation_p.L571P|GSN_ENST00000545652.1_Missense_Mutation_p.L579P|GSN_ENST00000373808.2_Missense_Mutation_p.L571P	NM_000177.4|NM_001258029.1	NP_000168.1|NP_001244958.1	P06396	GELS_HUMAN	gelsolin	622	Actin-binding, Ca-sensitive. {ECO:0000255}.				actin filament polymerization (GO:0030041)|actin filament severing (GO:0051014)|aging (GO:0007568)|apoptotic process (GO:0006915)|barbed-end actin filament capping (GO:0051016)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular response to cadmium ion (GO:0071276)|cilium morphogenesis (GO:0060271)|oligodendrocyte development (GO:0014003)|phosphatidylinositol-mediated signaling (GO:0048015)|regulation of cell adhesion (GO:0030155)|response to ethanol (GO:0045471)|response to folic acid (GO:0051593)|tissue regeneration (GO:0042246)|vesicle-mediated transport (GO:0016192)	actin cytoskeleton (GO:0015629)|blood microparticle (GO:0072562)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|perinuclear region of cytoplasm (GO:0048471)|protein complex (GO:0043234)|ruffle (GO:0001726)	calcium ion binding (GO:0005509)			NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(6)|kidney(1)|large_intestine(1)|lung(8)|ovary(1)	21						CAGGAGCTGCTCAGGGTGCTG	0.642																																																0													20	22	21					9																	124089710		2203	4298	6501	SO:0001583	missense	2934			X04412	CCDS6828.1, CCDS6829.1, CCDS48011.1, CCDS65118.1, CCDS75890.1, CCDS75891.1	9q33	2010-04-27	2010-04-27		ENSG00000148180	ENSG00000148180			4620	protein-coding gene	gene with protein product	"amyloidosis, Finnish type"	137350	"gelsolin (amyloidosis, Finnish type)"			1652889	Standard	NM_001127662		Approved	DKFZp313L0718	uc004blf.1	P06396	OTTHUMG00000020584	ENST00000373818.4:c.1865T>C	9.37:g.124089710T>C	ENSP00000362924:p.Leu622Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A2A418|A8MUD1|A8MYN7|B7Z373|B7Z5V1|F5H1A8|Q5T0I2|Q8WVV7	Missense_Mutation	SNP	ENST00000373818.4	37	CCDS6828.1	.	.	.	.	.	.	.	.	.	.	T	23.0	4.366894	0.82463	.	.	ENSG00000148180	ENST00000373823;ENST00000436847;ENST00000394353;ENST00000449733;ENST00000412819;ENST00000341272;ENST00000373808;ENST00000394352;ENST00000456109;ENST00000545652;ENST00000373818;ENST00000373807;ENST00000373806;ENST00000373805	T;T;T;T;T;T;T;T;T;T;T	0.56275	0.47;0.47;0.47;0.47;0.47;0.47;0.47;0.47;0.47;0.47;0.74	5.86	5.86	0.93980	Gelsolin domain (1);	0.235112	0.44688	D	0.000424	T	0.71492	0.3346	M	0.74881	2.28	0.80722	D	1	D;D;D;D;D	0.71674	0.972;0.988;0.983;0.972;0.998	P;D;D;P;D	0.66716	0.822;0.91;0.911;0.822;0.946	T	0.74070	-0.3783	10	0.59425	D	0.04	-18.3083	15.7408	0.77894	0.0:0.0:0.0:1.0	.	595;579;582;353;622	B7Z9A0;F5H1A8;B7Z373;Q5T0H9;P06396	.;.;.;.;GELS_HUMAN	P	571;582;582;571;571;571;571;555;545;579;622;353;47;47	ENSP00000362929:L571P;ENSP00000411293:L582P;ENSP00000377882:L582P;ENSP00000409358:L571P;ENSP00000416586:L571P;ENSP00000340888:L571P;ENSP00000362914:L571P;ENSP00000445823:L579P;ENSP00000362924:L622P;ENSP00000362913:L353P;ENSP00000362912:L47P	ENSP00000340888:L571P	L	+	2	0	GSN	123129531	1.000000	0.71417	0.971000	0.41717	0.962000	0.63368	5.376000	0.66178	2.367000	0.80283	0.528000	0.53228	CTC		0.642	GSN-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000053861.1	NM_000177		C	124089710	T	C	124089710	3	2	635	1	0	0	0	0	1	0	0	0	6832	1551	54	3	1943	3	GSN	9	124089710	Missense_Mutation	SNP	T	TCGA-KL-8336-01A-11D-2310-10	28562913	124089710	17123721	37	39180										
DNAJB12	54788	bcgsc.ca	37	chr10	74095605	74095605	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	cctgcacctctgacagtcggCtgcagctgggggtgcccatc	13	15	1	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr10:74095605C>T	ENST00000444643.2	-	8	1423	c.1091G>A	c.(1090-1092)aGc>aAc	p.S364N	DNAJB12_ENST00000338820.3_Missense_Mutation_p.S398N|DNAJB12_ENST00000461919.1_Missense_Mutation_p.S159N|DNAJB12_ENST00000394903.2_Missense_Mutation_p.S398N			Q9NXW2	DJB12_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 12	364						integral component of membrane (GO:0016021)|membrane (GO:0016020)				endometrium(1)|large_intestine(2)|skin(1)	4						TGACAGTCGGCTGCAGCTGGG	0.602																																																0													111	94	100					10																	74095605		2203	4300	6503	SO:0001583	missense	54788			AK000034	CCDS7316.2	10q22	2011-09-02			ENSG00000148719	ENSG00000148719		"Heat shock proteins / DNAJ (HSP40)"	14891	protein-coding gene	gene with protein product		608376				11147971	Standard	NM_001002762		Approved	DJ10, FLJ20027	uc001jta.2	Q9NXW2	OTTHUMG00000018436	ENST00000444643.2:c.1091G>A	10.37:g.74095605C>T	ENSP00000403313:p.Ser364Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7I3|Q9H6H0	Missense_Mutation	SNP	ENST00000444643.2	37		.	.	.	.	.	.	.	.	.	.	C	13.32	2.203491	0.38905	.	.	ENSG00000148719	ENST00000338820;ENST00000394903;ENST00000444643	T;T;T	0.45276	0.9;0.9;0.9	5.29	-4.69	0.03299	Domain of unknown function DUF1977, DnaJ-like (1);	0.575847	0.20614	N	0.088920	T	0.28599	0.0708	L	0.31926	0.97	0.25879	N	0.983617	B;B	0.06786	0.001;0.001	B;B	0.09377	0.004;0.004	T	0.11299	-1.0593	10	0.27082	T	0.32	-11.4477	17.147	0.86768	0.0:0.7521:0.0:0.2479	.	364;364	Q9NXW2-2;Q9NXW2	.;DJB12_HUMAN	N	398;398;364	ENSP00000345575:S398N;ENSP00000378363:S398N;ENSP00000403313:S364N	ENSP00000345575:S398N	S	-	2	0	DNAJB12	73765611	0.996000	0.38824	0.966000	0.40874	0.993000	0.82548	0.341000	0.19909	-0.750000	0.04740	0.561000	0.74099	AGC		0.602	DNAJB12-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000048581.2			T	74095605	C	T	74095605	3	4	635	1	0	0	0	0	1	0	0	0	4619	797	28	2	40	2	DNAJB12	10	74095605	Missense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10		74095605	61439142	38	39181										
USP54	159195	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr10	75331190	75331190	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	agtacttaccttgagagcgcAaaagatgcaggaatctccca	9	10	1	2			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr10:75331190A>C	ENST00000339859.4	-	3	329	c.229T>G	c.(229-231)Tgc>Ggc	p.C77G	USP54_ENST00000319786.7_Missense_Mutation_p.C77G|USP54_ENST00000428547.1_Missense_Mutation_p.C77G|USP54_ENST00000408019.1_Missense_Mutation_p.C77G|USP54_ENST00000394811.2_5'UTR			Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	77	USP.				ubiquitin-dependent protein catabolic process (GO:0006511)		ubiquitinyl hydrolase activity (GO:0036459)			breast(5)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(5)|lung(12)|ovary(1)|prostate(1)	30	Prostate(51;0.0112)					TTGAGAGCGCAAAAGATGCAG	0.428																																					Colon(195;880 2046 8854 25025 38456)											0													120	108	111					10																	75331190		1900	4131	6031	SO:0001583	missense	159195			AJ583820	CCDS7329.2	10q22.3	2006-09-26	2005-08-08	2004-01-30	ENSG00000166348	ENSG00000166348		"Ubiquitin-specific peptidases"	23513	protein-coding gene	gene with protein product			"chromosome 10 open reading frame 29", "ubiquitin specific protease 54"	C10orf29		14715245	Standard	NM_152586		Approved	FLJ37318, bA137L10.3, bA137L10.4	uc001juo.3	Q70EL1	OTTHUMG00000018469	ENST00000339859.4:c.229T>G	10.37:g.75331190A>C	ENSP00000345216:p.Cys77Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A1L4Q4|A3KFK3|A3KFK5|A3KFK6|A3KFK7|A6PVS4|A6PVS5|A6PVS6|A6PVS7|B3KVY1|B9ZVM1|Q5F2F4|Q6P1N6|Q6ZSP1|Q6ZSR1|Q6ZTM0|Q8N1X2	Missense_Mutation	SNP	ENST00000339859.4	37	CCDS7329.2	.	.	.	.	.	.	.	.	.	.	A	19.41	3.822644	0.71028	.	.	ENSG00000166348	ENST00000339859;ENST00000408019;ENST00000428547;ENST00000319786;ENST00000451492;ENST00000413442;ENST00000433394	T;T;T;T;T;T;T	0.30182	1.54;1.54;1.54;1.54;1.54;1.54;3.37	5.61	5.61	0.85477	Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2 (2);	0.000000	0.85682	U	0.000000	T	0.60143	0.2246	M	0.82630	2.6	0.80722	D	1	D;D;D	0.89917	1.0;0.996;1.0	D;D;D	0.91635	0.998;0.918;0.999	T	0.65936	-0.6047	10	0.72032	D	0.01	-6.3501	16.0994	0.81158	1.0:0.0:0.0:0.0	.	77;77;77	B7Z7X1;Q70EL1-6;Q70EL1	.;.;UBP54_HUMAN	G	77	ENSP00000345216:C77G;ENSP00000386080:C77G;ENSP00000408714:C77G;ENSP00000326547:C77G;ENSP00000402435:C77G;ENSP00000404710:C77G;ENSP00000407245:C77G	ENSP00000326547:C77G	C	-	1	0	USP54	75001196	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	8.855000	0.92236	2.261000	0.74972	0.533000	0.62120	TGC		0.428	USP54-014	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316563.2	NM_152586		C	75331190	A	C	75331190	3	2	635	1	0	0	0	0	1	0	0	0	17097	130	5	5	4909	5	USP54	10	75331190	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10	1235585	75331190	60203557	39	39182										
PTEN	5728	broad.mit.edu;hgsc.bcm.edu	37	chr10	89711960	89711962	+	In_Frame_Del	DEL	TGT	TGT	-													0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ggattatagaccagtggcacTgttgtttcacaagatgatgt					rs568851024	byFrequency	TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	TGT	TGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr10:89711960_89711962delTGT	ENST00000371953.3	+	6	1935_1937	c.578_580delTGT	c.(577-582)ctgttg>ctg	p.193_194LL>L	PTEN_ENST00000472832.1_3'UTR	NM_000314.4	NP_000305.3	P60484	PTEN_HUMAN	phosphatase and tensin homolog	193	C2 tensin-type. {ECO:0000255|PROSITE- ProRule:PRU00589}.				activation of mitotic anaphase-promoting complex activity (GO:0007092)|aging (GO:0007568)|angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|brain morphogenesis (GO:0048854)|canonical Wnt signaling pathway (GO:0060070)|cardiac muscle tissue development (GO:0048738)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|central nervous system development (GO:0007417)|central nervous system myelin maintenance (GO:0032286)|central nervous system neuron axonogenesis (GO:0021955)|dendritic spine morphogenesis (GO:0060997)|dentate gyrus development (GO:0021542)|endothelial cell migration (GO:0043542)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|forebrain morphogenesis (GO:0048853)|heart development (GO:0007507)|innate immune response (GO:0045087)|inositol phosphate dephosphorylation (GO:0046855)|inositol phosphate metabolic process (GO:0043647)|learning or memory (GO:0007611)|locomotor rhythm (GO:0045475)|locomotory behavior (GO:0007626)|long term synaptic depression (GO:0060292)|long-term synaptic potentiation (GO:0060291)|male mating behavior (GO:0060179)|maternal behavior (GO:0042711)|memory (GO:0007613)|multicellular organismal response to stress (GO:0033555)|negative regulation of apoptotic process (GO:0043066)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell aging (GO:0090344)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031658)|negative regulation of dendritic spine morphogenesis (GO:0061002)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of myelination (GO:0031642)|negative regulation of organ growth (GO:0046621)|negative regulation of phagocytosis (GO:0050765)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of ribosome biogenesis (GO:0090071)|negative regulation of synaptic vesicle clustering (GO:2000808)|neuron-neuron synaptic transmission (GO:0007270)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell proliferation (GO:0008284)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|postsynaptic density assembly (GO:0097107)|prepulse inhibition (GO:0060134)|presynaptic membrane assembly (GO:0097105)|prostate gland growth (GO:0060736)|protein dephosphorylation (GO:0006470)|protein kinase B signaling (GO:0043491)|protein stabilization (GO:0050821)|regulation of B cell apoptotic process (GO:0002902)|regulation of cellular component size (GO:0032535)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of myeloid cell apoptotic process (GO:0033032)|regulation of neuron projection development (GO:0010975)|regulation of protein stability (GO:0031647)|response to arsenic-containing substance (GO:0046685)|response to ATP (GO:0033198)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to ethanol (GO:0045471)|response to glucose (GO:0009749)|response to nutrient (GO:0007584)|response to zinc ion (GO:0010043)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synapse maturation (GO:0060074)|T cell receptor signaling pathway (GO:0050852)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|extracellular region (GO:0005576)|mitochondrion (GO:0005739)|myelin sheath adaxonal region (GO:0035749)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|Schmidt-Lanterman incisure (GO:0043220)	anaphase-promoting complex binding (GO:0010997)|enzyme binding (GO:0019899)|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity (GO:0051717)|lipid binding (GO:0008289)|magnesium ion binding (GO:0000287)|PDZ domain binding (GO:0030165)|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity (GO:0016314)|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity (GO:0051800)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|phosphoprotein phosphatase activity (GO:0004721)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)	p.0?(37)|p.R55fs*1(5)|p.?(4)|p.G165fs*9(3)|p.Y27fs*1(2)|p.G165_*404del(1)|p.L193P(1)|p.V191fs*7(1)|p.L193del(1)		NS(28)|autonomic_ganglia(2)|biliary_tract(6)|bone(5)|breast(92)|central_nervous_system(676)|cervix(26)|endometrium(1068)|eye(8)|haematopoietic_and_lymphoid_tissue(137)|kidney(24)|large_intestine(98)|liver(20)|lung(91)|meninges(2)|oesophagus(2)|ovary(82)|pancreas(6)|prostate(129)|salivary_gland(5)|skin(127)|soft_tissue(19)|stomach(30)|testis(1)|thyroid(29)|upper_aerodigestive_tract(29)|urinary_tract(12)|vulva(17)	2771		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		CCAGTGGCACTGTTGTTTCACAA	0.399		31	"D, Mis, N, F, S"		"glioma,  prostate, endometrial"	"harmartoma, glioma,  prostate, endometrial"			Proteus syndrome;Juvenile Polyposis;Hereditary Mixed Polyposis Syndrome type 1;Cowden syndrome;Bannayan-Riley-Ruvalcaba syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)																												yes	Rec	yes	"Cowden Syndrome, Bannayan-Riley-Ruvalcaba syndrome"	10	10q23.3	5728	phosphatase and tensin homolog gene		"L, E, M, O"	55	Whole gene deletion(37)|Deletion - Frameshift(11)|Unknown(4)|Deletion - In frame(2)|Substitution - Missense(1)	central_nervous_system(16)|prostate(16)|skin(8)|lung(4)|haematopoietic_and_lymphoid_tissue(3)|breast(3)|ovary(3)|soft_tissue(1)|urinary_tract(1)																																								SO:0001651	inframe_deletion	5728	Familial Cancer Database	Incl.: Encephalocraniocutaneous Lipomatosis, ECCL, Proteus-like s.;incl.: Juvenile Polyposis of the Stomach;HMPS1, Colorectal Adenoma Carcinoma syndrome, CRAC, CRAC1;CS, Cowden disease, Multiple Hamartoma Syndrome, incl.: Lhermitte-Duclos; part of PTEN hamartoma tumour syndrome (PHTS) / PTEN-MATCHS, Cowden-like syndrome;subset of PTEN-Hamartoma Tumor Syndrome; incl.: Ruvalcaba-Myhre-Smith s.	U92436	CCDS31238.1	10q23	2014-09-17	2008-07-31		ENSG00000171862	ENSG00000171862		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs"	9588	protein-coding gene	gene with protein product	"mutated in multiple advanced cancers 1"	601728		BZS, MHAM		9090379	Standard	NM_000314		Approved	MMAC1, TEP1, PTEN1	uc001kfb.3	P60484	OTTHUMG00000018688	ENST00000371953.3:c.578_580delTGT	10.37:g.89711963_89711965delTGT	ENSP00000361021:p.Leu194del	Somatic		WXS	Illumina HiSeq	Phase_I	B2R904|F2YHV0|O00633|O02679|Q6ICT7	In_Frame_Del	DEL	ENST00000371953.3	37	CCDS31238.1																																																																																				0.399	PTEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049241.1	NM_000314		-	89711962	TGT	-	89711960	7	5	635	1	0	1	0	1	0	0	0	0	12748	1580	55	0	600	0	PTEN	10	89711960	In_Frame_Del	DEL	TGT	TCGA-KL-8336-01A-11D-2310-10	14380770	89711960	45822787	40	39183	330	2								
PTEN	5728	bcgsc.ca	37	chr10	89711961	89711963	+	In_Frame_Del	DEL	TGT	TGT	-													0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	gattatagaccagtggcactGttgtttcacaagatgatgtt					rs568851024	byFrequency	TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	TGT	TGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr10:89711961_89711963delTGT	ENST00000371953.3	+	6	1936_1938	c.579_581delTGT	c.(577-582)cttgtg>ctg	p.V194del	PTEN_ENST00000472832.1_3'UTR	NM_000314.4	NP_000305.3	P60484	PTEN_HUMAN	phosphatase and tensin homolog	194	C2 tensin-type. {ECO:0000255|PROSITE- ProRule:PRU00589}.				activation of mitotic anaphase-promoting complex activity (GO:0007092)|aging (GO:0007568)|angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|brain morphogenesis (GO:0048854)|canonical Wnt signaling pathway (GO:0060070)|cardiac muscle tissue development (GO:0048738)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|central nervous system development (GO:0007417)|central nervous system myelin maintenance (GO:0032286)|central nervous system neuron axonogenesis (GO:0021955)|dendritic spine morphogenesis (GO:0060997)|dentate gyrus development (GO:0021542)|endothelial cell migration (GO:0043542)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|forebrain morphogenesis (GO:0048853)|heart development (GO:0007507)|innate immune response (GO:0045087)|inositol phosphate dephosphorylation (GO:0046855)|inositol phosphate metabolic process (GO:0043647)|learning or memory (GO:0007611)|locomotor rhythm (GO:0045475)|locomotory behavior (GO:0007626)|long term synaptic depression (GO:0060292)|long-term synaptic potentiation (GO:0060291)|male mating behavior (GO:0060179)|maternal behavior (GO:0042711)|memory (GO:0007613)|multicellular organismal response to stress (GO:0033555)|negative regulation of apoptotic process (GO:0043066)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell aging (GO:0090344)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031658)|negative regulation of dendritic spine morphogenesis (GO:0061002)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of myelination (GO:0031642)|negative regulation of organ growth (GO:0046621)|negative regulation of phagocytosis (GO:0050765)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of ribosome biogenesis (GO:0090071)|negative regulation of synaptic vesicle clustering (GO:2000808)|neuron-neuron synaptic transmission (GO:0007270)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell proliferation (GO:0008284)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|postsynaptic density assembly (GO:0097107)|prepulse inhibition (GO:0060134)|presynaptic membrane assembly (GO:0097105)|prostate gland growth (GO:0060736)|protein dephosphorylation (GO:0006470)|protein kinase B signaling (GO:0043491)|protein stabilization (GO:0050821)|regulation of B cell apoptotic process (GO:0002902)|regulation of cellular component size (GO:0032535)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of myeloid cell apoptotic process (GO:0033032)|regulation of neuron projection development (GO:0010975)|regulation of protein stability (GO:0031647)|response to arsenic-containing substance (GO:0046685)|response to ATP (GO:0033198)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to ethanol (GO:0045471)|response to glucose (GO:0009749)|response to nutrient (GO:0007584)|response to zinc ion (GO:0010043)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synapse maturation (GO:0060074)|T cell receptor signaling pathway (GO:0050852)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|extracellular region (GO:0005576)|mitochondrion (GO:0005739)|myelin sheath adaxonal region (GO:0035749)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|Schmidt-Lanterman incisure (GO:0043220)	anaphase-promoting complex binding (GO:0010997)|enzyme binding (GO:0019899)|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity (GO:0051717)|lipid binding (GO:0008289)|magnesium ion binding (GO:0000287)|PDZ domain binding (GO:0030165)|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity (GO:0016314)|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity (GO:0051800)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|phosphoprotein phosphatase activity (GO:0004721)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)	p.0?(37)|p.R55fs*1(5)|p.?(4)|p.G165fs*9(3)|p.Y27fs*1(2)|p.G165_*404del(1)|p.V191fs*7(1)|p.L193del(1)		NS(28)|autonomic_ganglia(2)|biliary_tract(6)|bone(5)|breast(92)|central_nervous_system(676)|cervix(26)|endometrium(1068)|eye(8)|haematopoietic_and_lymphoid_tissue(137)|kidney(24)|large_intestine(98)|liver(20)|lung(91)|meninges(2)|oesophagus(2)|ovary(82)|pancreas(6)|prostate(129)|salivary_gland(5)|skin(127)|soft_tissue(19)|stomach(30)|testis(1)|thyroid(29)|upper_aerodigestive_tract(29)|urinary_tract(12)|vulva(17)	2771		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		CAGTGGCACTGTTGTTTCACAAG	0.399		31	"D, Mis, N, F, S"		"glioma,  prostate, endometrial"	"harmartoma, glioma,  prostate, endometrial"			Proteus syndrome;Juvenile Polyposis;Hereditary Mixed Polyposis Syndrome type 1;Cowden syndrome;Bannayan-Riley-Ruvalcaba syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)																												yes	Rec	yes	"Cowden Syndrome, Bannayan-Riley-Ruvalcaba syndrome"	10	10q23.3	5728	phosphatase and tensin homolog gene		"L, E, M, O"	54	Whole gene deletion(37)|Deletion - Frameshift(11)|Unknown(4)|Deletion - In frame(2)	prostate(16)|central_nervous_system(15)|skin(8)|lung(4)|haematopoietic_and_lymphoid_tissue(3)|breast(3)|ovary(3)|soft_tissue(1)|urinary_tract(1)																																								SO:0001651	inframe_deletion	5728	Familial Cancer Database	Incl.: Encephalocraniocutaneous Lipomatosis, ECCL, Proteus-like s.;incl.: Juvenile Polyposis of the Stomach;HMPS1, Colorectal Adenoma Carcinoma syndrome, CRAC, CRAC1;CS, Cowden disease, Multiple Hamartoma Syndrome, incl.: Lhermitte-Duclos; part of PTEN hamartoma tumour syndrome (PHTS) / PTEN-MATCHS, Cowden-like syndrome;subset of PTEN-Hamartoma Tumor Syndrome; incl.: Ruvalcaba-Myhre-Smith s.	U92436	CCDS31238.1	10q23	2014-09-17	2008-07-31		ENSG00000171862	ENSG00000171862		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs"	9588	protein-coding gene	gene with protein product	"mutated in multiple advanced cancers 1"	601728		BZS, MHAM		9090379	Standard	NM_000314		Approved	MMAC1, TEP1, PTEN1	uc001kfb.3	P60484	OTTHUMG00000018688	ENST00000371953.3:c.579_581delTGT	10.37:g.89711961_89711963delTGT	ENSP00000361021:p.Val194del	Somatic		WXS	Illumina HiSeq	Phase_I	B2R904|F2YHV0|O00633|O02679|Q6ICT7	In_Frame_Del	DEL	ENST00000371953.3	37	CCDS31238.1																																																																																				0.399	PTEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049241.1	NM_000314		-	89711963	TGT	-	89711961	7	5	635	1	0	1	0	1	0	0	0	0	12748	1364	48	0	601	0	PTEN	10	89711961	In_Frame_Del	DEL	TGT	TCGA-KL-8336-01A-11D-2310-10	1	89711961	45822786	41	39184	330	2								
MUC2	4583	mdanderson.org	37	chr11	1093274	1093274	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	cggcacacagaccccaacatCgacacccatcaccaccacca	4	21	1	1	rs11245949	byFrequency	TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr11:1093274C>T	ENST00000441003.2	+	30	5120	c.5093C>T	c.(5092-5094)tCg>tTg	p.S1698L	MUC2_ENST00000333592.6_5'Flank|MUC2_ENST00000361558.6_Intron|MUC2_ENST00000359061.5_Missense_Mutation_p.S1665L	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	accccaacatcgacacccatc	0.637													N|||	2435	0.486222	0.4826	0.4899	5008	,	,		22392	0.631		0.3608	False		,,,				2504	0.4683															0													129	167	154					11																	1093274		1842	3364	5206	SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.5093C>T	11.37:g.1093274C>T	ENSP00000415183:p.Ser1698Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	T	1.748	-0.490089	0.04322	.	.	ENSG00000198788	ENST00000441003;ENST00000359061	T;T	0.08370	3.13;3.1	0.851	-1.7	0.08159	.	227.466000	0.04577	U	0.394340	T	0.06005	0.0156	.	.	.	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.40979	-0.9534	9	0.30854	T	0.27	.	5.5277	0.16967	0.0:0.5285:0.0:0.4715	rs11245949;rs59265712	1698	E7EUV1	.	L	1698;1665	ENSP00000415183:S1698L;ENSP00000351956:S1665L	ENSP00000351956:S1665L	S	+	2	0	MUC2	1083274	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	0.256000	0.18351	-1.248000	0.02503	-2.819000	0.00109	TCG		0.637	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		T	1093274	C	T	1093274	3	4	635	1	0	0	0	0	1	0	0	0	9982	893	31	1	5211	1	MUC2	11	1093274	Missense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10		1093274	133913242	42	39185										
OR52L1	338751	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr11	6007311	6007311	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	gacatgatggggtacatgatGaccaaagcggtgagtgagga	16	5	0	5			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr11:6007311G>A	ENST00000332249.4	-	1	904	c.850C>T	c.(850-852)Cat>Tat	p.H284Y		NM_001005173.2	NP_001005173.2	Q8NGH7	O52L1_HUMAN	olfactory receptor, family 52, subfamily L, member 1	284						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(6)|lung(11)|pancreas(1)|skin(3)|soft_tissue(1)	30		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.98e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGTACATGATGACCAAAGCGG	0.493																																					Melanoma(121;653 1666 10547 22796 51255)											0													106	106	106					11																	6007311		2084	4245	6329	SO:0001583	missense	338751			AB065819	CCDS44529.1	11p15.4	2012-08-09			ENSG00000183313	ENSG00000183313		"GPCR / Class A : Olfactory receptors"	14785	protein-coding gene	gene with protein product							Standard	NM_001005173		Approved		uc001mcd.2	Q8NGH7	OTTHUMG00000165374	ENST00000332249.4:c.850C>T	11.37:g.6007311G>A	ENSP00000330338:p.His284Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPA6|Q6IFK9	Missense_Mutation	SNP	ENST00000332249.4	37	CCDS44529.1	.	.	.	.	.	.	.	.	.	.	G	10.09	1.253796	0.22965	.	.	ENSG00000183313	ENST00000332249	T	0.37058	1.22	4.1	3.09	0.35607	GPCR, rhodopsin-like superfamily (1);	0.172439	0.28488	N	0.015173	T	0.44993	0.1320	L	0.51853	1.615	0.09310	N	1	P	0.46706	0.883	P	0.54060	0.741	T	0.30268	-0.9984	10	0.87932	D	0	.	12.1823	0.54218	0.0:0.1737:0.8263:0.0	.	284	Q8NGH7	O52L1_HUMAN	Y	284	ENSP00000330338:H284Y	ENSP00000330338:H284Y	H	-	1	0	OR52L1	5963887	0.000000	0.05858	0.423000	0.26634	0.010000	0.07245	0.072000	0.14617	1.987000	0.57996	0.313000	0.20887	CAT		0.493	OR52L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383754.1	NM_001005173		A	6007311	G	A	6007311	3	1	635	1	0	0	0	0	1	0	0	0	11132	1290	45	2	143	2	OR52L1	11	6007311	Missense_Mutation	SNP	G	TCGA-KL-8336-01A-11D-2310-10	4914037	6007311	128999205	43	39186										
TRIM3	10612	hgsc.bcm.edu;ucsc.edu	37	chr11	6477762	6477762	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	tagagcagcaccgagaggagCagctcgccttccgtgcgcgc	14	14	0	2			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr11:6477762C>A	ENST00000525074.1	-	6	1588	c.1194G>T	c.(1192-1194)ctG>ctT	p.L398L	TRIM3_ENST00000345851.3_Silent_p.L398L|TRIM3_ENST00000529058.1_Intron|TRIM3_ENST00000536344.1_Silent_p.L279L|TRIM3_ENST00000359518.3_Silent_p.L398L|TRIM3_ENST00000537602.1_Silent_p.L320L	NM_001248006.1	NP_001234935.1	O75382	TRIM3_HUMAN	tripartite motif containing 3	398					nervous system development (GO:0007399)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|endosome (GO:0005768)	protein C-terminus binding (GO:0008022)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(8)|ovary(1)|prostate(2)|skin(3)	27		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)		CCGAGAGGAGCAGCTCGCCTT	0.672																																					Melanoma(6;5 510 1540 25169 29084)											0													23	20	21					11																	6477762		2198	4292	6490	SO:0001819	synonymous_variant	10612			AF045239	CCDS7764.1, CCDS58115.1	11p15.5	2013-01-09	2011-01-25	2001-11-23	ENSG00000110171	ENSG00000110171		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	10064	protein-coding gene	gene with protein product	"ring finger protein 22", "brain expressed ring finger", "tripartite motif protein TRIM3"	605493	"tripartite motif-containing 3"	RNF22		10391919	Standard	NM_006458		Approved	HAC1, BERP, RNF97	uc009yfd.3	O75382	OTTHUMG00000133405	ENST00000525074.1:c.1194G>T	11.37:g.6477762C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z5E6|F5H2Q8|Q4V9L4|Q9C038|Q9C039	Silent	SNP	ENST00000525074.1	37	CCDS7764.1																																																																																				0.672	TRIM3-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384224.2	NM_006458		A	6477762	C	A	6477762	2	1	635	1	0	0	0	0	0	0	0	1	16516	697	25	4		4	TRIM3	11	6477762	Silent	SNP	C	TCGA-KL-8336-01A-11D-2310-10	470451	6477762	128528754	44	39187										
LTBP3	4054	hgsc.bcm.edu;mdanderson.org	37	chr11	65314277	65314277	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ccccgccctcaccgcgacagGccccgcccccctggctgcgg	11	24	1	0	rs148780991	byFrequency	TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr11:65314277G>C	ENST00000301873.5	-	15	2490	c.2222C>G	c.(2221-2223)gCc>gGc	p.A741G	LTBP3_ENST00000530785.1_5'Flank|LTBP3_ENST00000532932.1_Missense_Mutation_p.A171G|LTBP3_ENST00000322147.4_Missense_Mutation_p.A741G|LTBP3_ENST00000529189.1_5'Flank|LTBP3_ENST00000536982.1_Missense_Mutation_p.A367G	NM_001130144.2	NP_001123616.1	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding protein 3	741	Cys-rich.				bone morphogenesis (GO:0060349)|bone remodeling (GO:0046849)|extracellular matrix organization (GO:0030198)|lung saccule development (GO:0060430)|negative regulation of bone mineralization (GO:0030502)|negative regulation of chondrocyte differentiation (GO:0032331)|positive regulation of bone resorption (GO:0045780)|positive regulation of mesenchymal stem cell differentiation (GO:2000741)|positive regulation of mesenchymal stem cell proliferation (GO:1902462)|transforming growth factor beta activation (GO:0036363)|transforming growth factor beta receptor signaling pathway (GO:0007179)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|transforming growth factor beta binding (GO:0050431)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(2)|lung(9)|prostate(2)|upper_aerodigestive_tract(3)	23						ACCGCGACAGGCCCCGCCCCC	0.726													G|||	44	0.00878594	0.0182	0.0101	5008	,	,		8681	0.002		0.0109	False		,,,				2504	0.0															0								G	GLY/ALA,GLY/ALA,GLY/ALA	68,4308		0,68,2120	20	23	22		2222,1871,2222	4.1	1	11	dbSNP_134	22	60,8500		1,58,4221	yes	missense,missense,missense	LTBP3	NM_001130144.2,NM_001164266.1,NM_021070.4	60,60,60	1,126,6341	CC,CG,GG		0.7009,1.5539,0.9895	benign,benign,benign	741/1304,624/1140,741/1257	65314277	128,12808	2188	4280	6468	SO:0001583	missense	4054			AF135960	CCDS8103.1, CCDS44647.1	11q12	2011-10-20			ENSG00000168056	ENSG00000168056		"Latent transforming growth factor, beta binding proteins"	6716	protein-coding gene	gene with protein product		602090		LTBP2		7719025	Standard	NM_001164266		Approved		uc001oej.3	Q9NS15	OTTHUMG00000166575	ENST00000301873.5:c.2222C>G	11.37:g.65314277G>C	ENSP00000301873:p.Ala741Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O15107|Q96HB9|Q9H7K2|Q9UFN4	Missense_Mutation	SNP	ENST00000301873.5	37	CCDS44647.1	16	0.007326007326007326	4	0.008130081300813009	4	0.011049723756906077	0	0.0	8	0.010554089709762533	G	12.27	1.887566	0.33348	0.015539	0.007009	ENSG00000168056	ENST00000322147;ENST00000301873;ENST00000532932;ENST00000536982;ENST00000530866;ENST00000527339	T;T;T;T;T;T	0.22539	1.95;1.95;1.95;1.95;1.95;1.95	5.0	4.08	0.47627	EGF-like calcium-binding (2);	0.251841	0.39341	N	0.001386	T	0.04092	0.0114	N	0.03209	-0.39	0.23192	N	0.998141	B;B;B;B;B;B	0.29136	0.155;0.089;0.033;0.234;0.089;0.044	B;B;B;B;B;B	0.30029	0.09;0.046;0.041;0.11;0.075;0.077	T	0.29701	-1.0003	10	0.24483	T	0.36	.	9.2867	0.37762	0.1011:0.0:0.8989:0.0	.	652;367;624;741;741;171	E9PKW1;F5GWC4;B9EG76;Q9NS15;Q9NS15-2;E9PJR2	.;.;.;LTBP3_HUMAN;.;.	G	741;741;171;367;652;81	ENSP00000326647:A741G;ENSP00000301873:A741G;ENSP00000435530:A171G;ENSP00000441912:A367G;ENSP00000435276:A652G;ENSP00000432121:A81G	ENSP00000301873:A741G	A	-	2	0	LTBP3	65070853	0.998000	0.40836	1.000000	0.80357	0.962000	0.63368	0.698000	0.25571	1.109000	0.41680	0.449000	0.29647	GCC		0.726	LTBP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390538.1	NM_021070		C	65314277	G	C	65314277	3	2	635	1	0	0	0	0	1	0	0	0	9082	1203	42	4	1745	4	LTBP3	11	65314277	Missense_Mutation	SNP	G	TCGA-KL-8336-01A-11D-2310-10	58836515	65314277	69692239	45	39188										
INTS4	92105	mdanderson.org	37	chr11	77612478	77612478	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	acatcttaccctcgtgtagtTcgtgctgttactataagttg	8	9	1	0			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr11:77612478T>G	ENST00000534064.1	-	18	2251	c.2217A>C	c.(2215-2217)cgA>cgC	p.R739R	INTS4_ENST00000535943.1_Silent_p.R114R|AAMDC_ENST00000532481.1_Intron	NM_033547.3	NP_291025.3	Q96HW7	INT4_HUMAN	integrator complex subunit 4	739					snRNA processing (GO:0016180)	integrator complex (GO:0032039)			INTS4/GAB2(2)	NS(2)|cervix(3)|endometrium(3)|kidney(3)|large_intestine(4)|lung(9)|ovary(2)|prostate(5)|upper_aerodigestive_tract(1)	32	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		Epithelial(5;1.13e-46)|all cancers(3;8.92e-44)|BRCA - Breast invasive adenocarcinoma(5;8.4e-26)|OV - Ovarian serous cystadenocarcinoma(8;1.05e-23)			CTCGTGTAGTTCGTGCTGTTA	0.408																																																0													214	191	199					11																	77612478		2200	4292	6492	SO:0001819	synonymous_variant	92105			BC015664	CCDS31644.1	11q14.1	2006-04-26			ENSG00000149262	ENSG00000149262			25048	protein-coding gene	gene with protein product		611348				16239144	Standard	NM_033547		Approved	INT4, MGC16733, MST093	uc001oys.3	Q96HW7	OTTHUMG00000166629	ENST00000534064.1:c.2217A>C	11.37:g.77612478T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q2YD62|Q6PJG4|Q7Z4E7|Q96G32|Q96GA1|Q9BRC0	Silent	SNP	ENST00000534064.1	37	CCDS31644.1																																																																																				0.408	INTS4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390927.1	NM_033547		G	77612478	T	G	77612478	2	3	635	1	0	0	0	0	0	0	0	1	7787	1770	62	5		5	INTS4	11	77612478	Silent	SNP	T	TCGA-KL-8336-01A-11D-2310-10	12298201	77612478	57394038	46	39189										
NARS2	79731	broad.mit.edu;bcgsc.ca	37	chr11	78277251	78277251	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	aacccagaacgttagtcctaCacctaaagtgaggatattgt	8	9	0	2			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr11:78277251C>T	ENST00000281038.5	-	4	815	c.440G>A	c.(439-441)tGt>tAt	p.C147Y	NARS2_ENST00000528850.1_5'UTR	NM_001243251.1|NM_024678.5	NP_001230180.1|NP_078954.4	Q96I59	SYNM_HUMAN	asparaginyl-tRNA synthetase 2, mitochondrial (putative)	147					asparaginyl-tRNA aminoacylation (GO:0006421)|gene expression (GO:0010467)|tRNA aminoacylation for protein translation (GO:0006418)	mitochondrion (GO:0005739)	asparagine-tRNA ligase activity (GO:0004816)|ATP binding (GO:0005524)|nucleic acid binding (GO:0003676)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(9)|ovary(2)|prostate(2)|skin(1)	27	all_cancers(14;2.63e-17)|all_epithelial(13;1.85e-19)				L-Asparagine(DB00174)	GTTAGTCCTACACCTAAAGTG	0.398																																																0													111	108	109					11																	78277251		2200	4291	6491	SO:0001583	missense	79731			BC007800	CCDS8261.1, CCDS58164.1	11q14.1	2011-07-01	2007-02-23		ENSG00000137513	ENSG00000137513	6.1.1.22	"Aminoacyl tRNA synthetases / Class II"	26274	protein-coding gene	gene with protein product	"asparagine tRNA ligase 2, mitochondrial (putative)"	612803				15779907	Standard	NM_024678		Approved	FLJ23441, SLM5	uc001ozi.3	Q96I59	OTTHUMG00000166702	ENST00000281038.5:c.440G>A	11.37:g.78277251C>T	ENSP00000281038:p.Cys147Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	G3V178	Missense_Mutation	SNP	ENST00000281038.5	37	CCDS8261.1	.	.	.	.	.	.	.	.	.	.	C	11.11	1.540877	0.27563	.	.	ENSG00000137513	ENST00000281038;ENST00000529880	T;T	0.78816	-1.21;-1.21	5.13	5.13	0.70059	Aminoacyl-tRNA synthetase, class II (D/K/N) (1);	0.000000	0.85682	D	0.000000	D	0.83982	0.5372	L	0.40543	1.245	0.80722	D	1	D	0.89917	1.0	D	0.79108	0.992	D	0.85672	0.1295	10	0.87932	D	0	-10.5576	17.7175	0.88342	0.0:1.0:0.0:0.0	.	147	Q96I59	SYNM_HUMAN	Y	147	ENSP00000281038:C147Y;ENSP00000432240:C147Y	ENSP00000281038:C147Y	C	-	2	0	NARS2	77954899	1.000000	0.71417	1.000000	0.80357	0.849000	0.48306	6.850000	0.75420	2.547000	0.85894	0.655000	0.94253	TGT		0.398	NARS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391138.2	NM_024678		T	78277251	C	T	78277251	3	4	635	1	0	0	0	0	1	0	0	0	10178	478	17	2	1037	2	NARS2	11	78277251	Missense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10	664773	78277251	56729265	47	39190										
DYNC2H1	79659	broad.mit.edu	37	chr11	103006273	103006273	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	gaaacaacactggaatcatcAactgtacaaagctctggagc	8	10	3	0			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr11:103006273A>T	ENST00000375735.2	+	16	2399	c.2255A>T	c.(2254-2256)cAa>cTa	p.Q752L	DYNC2H1_ENST00000334267.7_Intron|DYNC2H1_ENST00000398093.3_Missense_Mutation_p.Q752L	NM_001080463.1|NM_001377.2	NP_001073932.1|NP_001368.2	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	752	Stem. {ECO:0000250}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|asymmetric protein localization (GO:0008105)|cilium assembly (GO:0042384)|determination of left/right symmetry (GO:0007368)|dorsal/ventral pattern formation (GO:0009953)|embryonic limb morphogenesis (GO:0030326)|forebrain development (GO:0030900)|Golgi organization (GO:0007030)|intraciliary retrograde transport (GO:0035721)|positive regulation of smoothened signaling pathway (GO:0045880)|protein processing (GO:0016485)|spinal cord motor neuron differentiation (GO:0021522)	apical part of cell (GO:0045177)|axoneme (GO:0005930)|cytosol (GO:0005829)|dynein complex (GO:0030286)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|motile primary cilium (GO:0031512)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)|motor activity (GO:0003774)			NS(1)|endometrium(4)|kidney(5)|large_intestine(9)|lung(9)|ovary(1)|prostate(2)|upper_aerodigestive_tract(2)	33		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TGGAATCATCAACTGTACAAA	0.348																																																0													78	74	75					11																	103006273		1838	4099	5937	SO:0001583	missense	79659			AB082528	CCDS44717.1, CCDS53701.1	11q21-q22.1	2011-06-02	2005-11-24	2005-11-24	ENSG00000187240	ENSG00000187240		"Cytoplasmic dyneins"	2962	protein-coding gene	gene with protein product		603297	"dynein, cytoplasmic, heavy polypeptide 2"	DNCH2		9763680, 9373155	Standard	NM_001080463		Approved	hdhc11, DHC2, DHC1b, DYH1B	uc001phn.1	Q8NCM8	OTTHUMG00000165941	ENST00000375735.2:c.2255A>T	11.37:g.103006273A>T	ENSP00000364887:p.Gln752Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O00432|Q16693|Q3C1U8|Q4AC93|Q6ZMX7|Q6ZUM6|Q7Z363|Q8N977|Q92815|Q9HAE4	Missense_Mutation	SNP	ENST00000375735.2	37	CCDS53701.1	.	.	.	.	.	.	.	.	.	.	A	22.2	4.252082	0.80135	.	.	ENSG00000187240	ENST00000375735;ENST00000398093	T;T	0.35789	1.29;1.3	5.62	5.62	0.85841	.	.	.	.	.	T	0.66228	0.2768	M	0.90082	3.085	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.997	T	0.69187	-0.5211	9	0.28530	T	0.3	.	15.8286	0.78733	1.0:0.0:0.0:0.0	.	752;752	Q8NCM8;Q8NCM8-2	DYHC2_HUMAN;.	L	752	ENSP00000364887:Q752L;ENSP00000381167:Q752L	ENSP00000364887:Q752L	Q	+	2	0	DYNC2H1	102511483	1.000000	0.71417	0.928000	0.36995	0.794000	0.44872	8.962000	0.93254	2.141000	0.66446	0.460000	0.39030	CAA		0.348	DYNC2H1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387196.1	XM_370652		T	103006273	A	T	103006273	3	4	635	1	0	0	0	0	1	0	0	0	4848	130	5	5	2317	5	DYNC2H1	11	103006273	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10	24729022	103006273	32000243	48	39191										
TAS2R43	259289	mdanderson.org	37	chr12	11244602	11244602	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	tagttcttacttctacactaTtaaaagctggattcaacaca	4	9	3	0	rs11535673		TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr12:11244602T>C	ENST00000531678.1	-	1	310	c.227A>G	c.(226-228)aAt>aGt	p.N76S	TAS2R14_ENST00000381852.4_Intron|PRR4_ENST00000536668.1_Intron	NM_176884.2	NP_795365.2	P59537	T2R43_HUMAN	taste receptor, type 2, member 43	76					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)|G-protein coupled receptor signaling pathway (GO:0007186)	integral component of membrane (GO:0016021)|motile cilium (GO:0031514)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)|taste receptor activity (GO:0008527)			endometrium(1)|ovary(1)|prostate(2)|urinary_tract(1)	5			OV - Ovarian serous cystadenocarcinoma(49;0.0344)	BRCA - Breast invasive adenocarcinoma(232;0.196)		TTCTACACTATTAAAAGCTGG	0.398																																																0													51	44	46					12																	11244602		1916	3972	5888	SO:0001583	missense	259289			AF494237	CCDS53749.1	12p13.2	2012-08-22				ENSG00000255374		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	18875	protein-coding gene	gene with protein product		612668				12379855	Standard	NM_176884		Approved	T2R52	uc001qzq.1	P59537		ENST00000531678.1:c.227A>G	12.37:g.11244602T>C	ENSP00000431719:p.Asn76Ser	Somatic		WXS	Illumina HiSeq	Phase_I	P59546|Q645X4	Missense_Mutation	SNP	ENST00000531678.1	37	CCDS53749.1	.	.	.	.	.	.	.	.	.	.	-	1.580	-0.531857	0.04112	.	.	ENSG00000255374	ENST00000531678	T	0.36340	1.26	1.97	0.726	0.18248	.	.	.	.	.	T	0.09598	0.0236	N	0.00483	-1.445	0.09310	N	1	B	0.02656	0.0	B	0.12156	0.007	T	0.28744	-1.0034	9	0.30854	T	0.27	.	3.8604	0.08993	0.0:0.2087:0.0:0.7913	.	76	P59537	T2R43_HUMAN	S	76	ENSP00000431719:N76S	ENSP00000431719:N76S	N	-	2	0	TAS2R43	11135869	0.000000	0.05858	0.001000	0.08648	0.013000	0.08279	-0.684000	0.05173	0.041000	0.15688	0.155000	0.16302	AAT		0.398	TAS2R43-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383561.1	NM_176884		C	11244602	T	C	11244602	3	2	635	1	0	0	0	0	1	0	0	0	15593	1493	52	3	706	3	TAS2R43	12	11244602	Missense_Mutation	SNP	T	TCGA-KL-8336-01A-11D-2310-10		11244602	122607293	49	39192										
KRT84	3890	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr12	52774146	52774146	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	tgctggactgagagtactcaCcggctctcctcgccctccag	10	16	2	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr12:52774146C>T	ENST00000257951.3	-	7	1491		c.e7+1		RP3-416H24.4_ENST00000547174.1_RNA	NM_033045.3	NP_149034.2	Q9NSB2	KRT84_HUMAN	keratin 84						hair follicle development (GO:0001942)|nail development (GO:0035878)|regulation of keratinocyte differentiation (GO:0045616)	extracellular vesicular exosome (GO:0070062)|keratin filament (GO:0045095)	structural constituent of cytoskeleton (GO:0005200)|structural constituent of epidermis (GO:0030280)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|liver(1)|lung(10)|skin(3)	27	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		AGAGTACTCACCGGCTCTCCT	0.557											OREG0021848	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													32	33	33					12																	52774146		2201	4296	6497	SO:0001630	splice_region_variant	3890			Y19209	CCDS8825.1	12q13	2013-06-25	2006-07-17	2006-07-17	ENSG00000161849	ENSG00000161849		"-", "Intermediate filaments type II, keratins (basic)"	6461	protein-coding gene	gene with protein product	"hard keratin type II 4"	602766	"keratin, hair, basic, 4"	KRTHB4		2431943, 16831889	Standard	NM_033045		Approved	Hb-4	uc001sah.1	Q9NSB2	OTTHUMG00000169634	ENST00000257951.3:c.1424+1G>A	12.37:g.52774146C>T		Somatic	987	WXS	Illumina HiSeq	Phase_I	B2RA43|Q6ISB0|Q701L6	Splice_Site	SNP	ENST00000257951.3	37	CCDS8825.1	.	.	.	.	.	.	.	.	.	.	C	12.27	1.888892	0.33348	.	.	ENSG00000161849	ENST00000257951	.	.	.	4.89	3.99	0.46301	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.513	0.75798	0.0:0.8617:0.1383:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	KRT84	51060413	1.000000	0.71417	0.989000	0.46669	0.293000	0.27360	3.815000	0.55651	1.276000	0.44395	0.655000	0.94253	.		0.557	KRT84-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405187.1	NM_033045	Intron	T	52774146	C	T	52774146	5	4	635	1	0	0	0	0	0	0	1	0	8505	521	18	2	389	2	KRT84	12	52774146	Splice_Site	SNP	C	TCGA-KL-8336-01A-11D-2310-10	41529544	52774146	81077749	50	39193										
PPFIA2	8499	broad.mit.edu	37	chr12	81657079	81657079	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	tccagctggtaatgtttctgAggacccaggcatcatgctga	11	10	2	2			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr12:81657079A>G	ENST00000549396.1	-	31	3806	c.3646T>C	c.(3646-3648)Tca>Cca	p.S1216P	PPFIA2_ENST00000541017.1_Missense_Mutation_p.S402P|PPFIA2_ENST00000333447.7_Missense_Mutation_p.S1204P|PPFIA2_ENST00000545296.2_Intron|PPFIA2_ENST00000550584.2_Missense_Mutation_p.S1216P|PPFIA2_ENST00000550359.2_Missense_Mutation_p.S1063P|PPFIA2_ENST00000548586.1_Missense_Mutation_p.S1210P|PPFIA2_ENST00000443686.3_Missense_Mutation_p.S1111P|PPFIA2_ENST00000549325.1_Missense_Mutation_p.S1201P|PPFIA2_ENST00000407050.4_Missense_Mutation_p.S1115P|PPFIA2_ENST00000541570.2_Missense_Mutation_p.S752P|PPFIA2_ENST00000552948.1_Missense_Mutation_p.S1195P	NM_001220476.1|NM_001282536.1|NM_003625.3	NP_001207405.1|NP_001269465.1|NP_003616.2	O75334	LIPA2_HUMAN	protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 2	1216					cell-matrix adhesion (GO:0007160)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|presynaptic active zone (GO:0048786)				NS(1)|autonomic_ganglia(1)|central_nervous_system(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(15)|lung(37)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(5)	85						AATGTTTCTGAGGACCCAGGC	0.458																																																0													125	119	121					12																	81657079		1959	4156	6115	SO:0001583	missense	8499			AF034799	CCDS55850.1, CCDS55851.1, CCDS55852.1, CCDS55853.1, CCDS55854.1, CCDS55855.1, CCDS55856.1, CCDS55857.1, CCDS59236.1, CCDS73503.1	12q21.31	2013-01-10						"Sterile alpha motif (SAM) domain containing"	9246	protein-coding gene	gene with protein product	"Liprin-alpha2"	603143				9624153	Standard	NM_003625		Approved		uc031qis.1	O75334		ENST00000549396.1:c.3646T>C	12.37:g.81657079A>G	ENSP00000450337:p.Ser1216Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVT5|B3KXA0|B7Z2A6|B7Z3U9|B7Z663|B7ZKZ5|E7ERB8|E7ETG6|F8VP68|Q2M3G8	Missense_Mutation	SNP	ENST00000549396.1	37	CCDS55857.1	.	.	.	.	.	.	.	.	.	.	A	14.95	2.687202	0.48097	.	.	ENSG00000139220	ENST00000549396;ENST00000549325;ENST00000541570;ENST00000541017;ENST00000407050;ENST00000541501;ENST00000333447;ENST00000548586;ENST00000443686;ENST00000552948	T;T;T;T;T;T;T;T;T	0.32515	2.19;2.19;1.87;1.45;1.84;2.19;2.2;1.87;2.17	5.23	4.01	0.46588	.	0.240193	0.34338	N	0.004060	T	0.18882	0.0453	N	0.19112	0.55	0.44555	D	0.997519	P	0.36048	0.534	B	0.31686	0.134	T	0.08889	-1.0700	10	0.62326	D	0.03	-10.3439	11.7843	0.52032	0.8531:0.1469:0.0:0.0	.	1216	O75334	LIPA2_HUMAN	P	1216;1201;752;402;1115;1229;1204;1210;1111;1195	ENSP00000450337:S1216P;ENSP00000450298:S1201P;ENSP00000438337:S752P;ENSP00000445532:S402P;ENSP00000385093:S1115P;ENSP00000327416:S1204P;ENSP00000449338:S1210P;ENSP00000388373:S1111P;ENSP00000447868:S1195P	ENSP00000327416:S1204P	S	-	1	0	PPFIA2	80181210	0.999000	0.42202	1.000000	0.80357	0.963000	0.63663	3.011000	0.49567	1.984000	0.57885	0.528000	0.53228	TCA		0.458	PPFIA2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000408030.1			G	81657079	A	G	81657079	3	3	635	1	0	0	0	0	1	0	0	0	12317	304	11	3	135	3	PPFIA2	12	81657079	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10	28882933	81657079	52194816	51	39194										
MGA	23269	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr15	42003374	42003374	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ttccaaagcagattagtttgCggcaggcacagcagcagcag	12	10	0	1	rs372252914		TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr15:42003374C>T	ENST00000570161.1	+	7	2911	c.2911C>T	c.(2911-2913)Cgg>Tgg	p.R971W	MGA_ENST00000566586.1_Missense_Mutation_p.R971W|MGA_ENST00000389936.4_Missense_Mutation_p.R971W|MGA_ENST00000545763.1_Missense_Mutation_p.R971W|MGA_ENST00000219905.7_Missense_Mutation_p.R971W			O43451	MGA_HUMAN	MGA, MAX dimerization protein	0	P-type 2. {ECO:0000255|PROSITE- ProRule:PRU00779}.				carbohydrate metabolic process (GO:0005975)|polysaccharide digestion (GO:0044245)|small molecule metabolic process (GO:0044281)|starch catabolic process (GO:0005983)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	alpha-1,4-glucosidase activity (GO:0004558)|amylase activity (GO:0016160)|carbohydrate binding (GO:0030246)|catalytic activity (GO:0003824)|glucan 1,4-alpha-glucosidase activity (GO:0004339)|maltose alpha-glucosidase activity (GO:0032450)			NS(1)|breast(4)|central_nervous_system(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(18)|lung(33)|ovary(8)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	95		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)	Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	GATTAGTTTGCGGCAGGCACA	0.458																																																0								C	TRP/ARG,TRP/ARG	0,4038		0,0,2019	63	67	66		2911,2911	3.7	1	15		66	1,8411		0,1,4205	no	missense,missense	MGA	NM_001080541.2,NM_001164273.1	101,101	0,1,6224	TT,TC,CC		0.0119,0.0,0.0080	probably-damaging,probably-damaging	971/2857,971/3066	42003374	1,12449	2019	4206	6225	SO:0001583	missense	23269			AB011090	CCDS55959.1, CCDS55960.1	15q15	2012-11-15	2012-11-15		ENSG00000174197	ENSG00000174197		"MAX dimerization proteins", "T-boxes"	14010	protein-coding gene	gene with protein product			"MAX gene associated"				Standard	NM_001080541		Approved	KIAA0518, MAD5, MXD5, FLJ12634	uc010ucy.2	Q8IWI9		ENST00000570161.1:c.2911C>T	15.37:g.42003374C>T	ENSP00000457035:p.Arg971Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAX6|Q75ME7|Q86UM5	Missense_Mutation	SNP	ENST00000570161.1	37	CCDS55959.1	.	.	.	.	.	.	.	.	.	.	C	18.49	3.634468	0.67130	0.0	1.19E-4	ENSG00000174197	ENST00000219905;ENST00000389936;ENST00000545763	T;T;T	0.17691	2.26;2.26;2.26	5.83	3.74	0.42951	.	0.665977	0.13693	N	0.369363	T	0.28566	0.0707	N	0.24115	0.695	0.26692	N	0.971333	D;D	0.89917	0.999;1.0	D;D	0.69479	0.963;0.964	T	0.21724	-1.0237	10	0.87932	D	0	.	15.5704	0.76330	0.3449:0.6551:0.0:0.0	.	971;971	F5H7K2;E7ENI0	.;.	W	971	ENSP00000219905:R971W;ENSP00000374586:R971W;ENSP00000442467:R971W	ENSP00000219905:R971W	R	+	1	2	MGA	39790666	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	1.467000	0.35321	1.453000	0.47775	0.650000	0.86243	CGG		0.458	MGA-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000420229.1	NM_001164273.1		T	42003374	C	T	42003374	3	4	635	1	0	0	0	0	1	0	0	0	9547	759	27	1	2937	1	MGA	15	42003374	Missense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10		42003374	60528018	52	39195										
HAPLN3	145864	broad.mit.edu	37	chr15	89421386	89421386	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	atggaacttccaggcggcaaAgagctgtcccaccttggcga	12	12	0	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr15:89421386A>G	ENST00000359595.3	-	5	1112	c.898T>C	c.(898-900)Ttt>Ctt	p.F300L	HAPLN3_ENST00000562889.1_Missense_Mutation_p.F362L	NM_178232.2	NP_839946.1	Q96S86	HPLN3_HUMAN	hyaluronan and proteoglycan link protein 3	300	Link 2. {ECO:0000255|PROSITE- ProRule:PRU00323, ECO:0000305}.				cell adhesion (GO:0007155)	extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)	hyaluronic acid binding (GO:0005540)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(7)|ovary(1)|prostate(1)	17	Lung NSC(78;0.0392)|all_lung(78;0.077)				Hyaluronan(DB08818)	CAGGCGGCAAAGAGCTGTCCC	0.627																																																0													159	147	151					15																	89421386		2200	4299	6499	SO:0001583	missense	145864			AY262759	CCDS10346.1	15q26.1	2013-01-11			ENSG00000140511	ENSG00000140511		"Immunoglobulin superfamily / V-set domain containing"	21446	protein-coding gene	gene with protein product			"extracellular link domain containing, 1"	EXLD1		12663660	Standard	NM_178232		Approved	HsT19883	uc002bnc.3	Q96S86	OTTHUMG00000148680	ENST00000359595.3:c.898T>C	15.37:g.89421386A>G	ENSP00000352606:p.Phe300Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7P0	Missense_Mutation	SNP	ENST00000359595.3	37	CCDS10346.1	.	.	.	.	.	.	.	.	.	.	A	34	5.368382	0.95900	.	.	ENSG00000140511	ENST00000359595	T	0.07688	3.17	4.7	4.7	0.59300	C-type lectin fold (1);Link (4);C-type lectin-like (1);	0.057786	0.64402	D	0.000001	T	0.13543	0.0328	L	0.52573	1.65	0.49687	D	0.999819	P;P	0.47604	0.898;0.898	P;P	0.47251	0.542;0.542	T	0.00978	-1.1493	10	0.72032	D	0.01	-10.134	13.3187	0.60421	1.0:0.0:0.0:0.0	.	300;300	A8K7T8;Q96S86	.;HPLN3_HUMAN	L	300	ENSP00000352606:F300L	ENSP00000352606:F300L	F	-	1	0	HAPLN3	87222390	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	8.817000	0.91985	1.871000	0.54225	0.533000	0.62120	TTT		0.627	HAPLN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000309070.1	NM_178232		G	89421386	A	G	89421386	3	3	635	1	0	0	0	0	1	0	0	0	6963	72	3	3	188	3	HAPLN3	15	89421386	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10	47418012	89421386	13110006	53	39196										
ZNF785	146540	ucsc.edu;bcgsc.ca	37	chr16	30596805	30596805	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	gcgctggccgcaggcattccCactcctcgggagagaagtac	13	14	0	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr16:30596805C>T	ENST00000395216.2	-	1	287	c.128G>A	c.(127-129)tGg>tAg	p.W43*	AC002310.7_ENST00000492040.1_RNA|RP11-146F11.5_ENST00000563540.1_RNA|ZNF785_ENST00000470110.1_Nonsense_Mutation_p.W43*|AC002310.7_ENST00000486926.1_RNA	NM_152458.6	NP_689671.2	A8K8V0	ZN785_HUMAN	zinc finger protein 785	43	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(3)|lung(2)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	9						CAGGCATTCCCACTCCTCGGG	0.746																																																0													16	18	17					16																	30596805		2192	4292	6484	SO:0001587	stop_gained	146540			BC040642	CCDS10685.1	16p11.2	2013-01-08			ENSG00000197162	ENSG00000197162		"Zinc fingers, C2H2-type", "-"	26496	protein-coding gene	gene with protein product						10493829	Standard	NM_152458		Approved	FLJ32130	uc002dyu.3	A8K8V0	OTTHUMG00000132398	ENST00000395216.2:c.128G>A	16.37:g.30596805C>T	ENSP00000378642:p.Trp43*	Somatic		WXS	Illumina HiSeq	Phase_I	O75701|Q8IW91|Q8WV14|Q96MN0	Nonsense_Mutation	SNP	ENST00000395216.2	37	CCDS10685.1	.	.	.	.	.	.	.	.	.	.	c	14.96	2.691809	0.48097	.	.	ENSG00000197162	ENST00000470110;ENST00000395216	.	.	.	4.56	1.35	0.21983	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	7.6933	0.28579	0.1762:0.4848:0.339:0.0	.	.	.	.	X	43	.	ENSP00000378642:W43X	W	-	2	0	ZNF785	30504306	0.002000	0.14202	0.014000	0.15608	0.180000	0.23129	0.325000	0.19628	0.140000	0.18849	0.586000	0.80456	TGG		0.746	ZNF785-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000255529.2	NM_152458		T	30596805	C	T	30596805	4	4	635	1	0	0	0	0	0	1	0	0	18169	595	21	2	1101	2	ZNF785	16	30596805	Nonsense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10		30596805	59757948	54	39197										
ARMC5	79798	bcgsc.ca	37	chr16	31476458	31476458	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	taactctagatgcagccccgCgcccaggatctgggctggtc	12	14	2	1	rs11150624	byFrequency	TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr16:31476458C>T	ENST00000563544.1	+	5	2410				ARMC5_ENST00000457010.2_Missense_Mutation_p.A705V|ARMC5_ENST00000408912.3_Intron|ARMC5_ENST00000268314.4_Intron|ARMC5_ENST00000538189.1_Intron|ARMC5_ENST00000412665.2_Intron			Q96C12	ARMC5_HUMAN	armadillo repeat containing 5											central_nervous_system(1)|endometrium(4)|large_intestine(3)|liver(2)|lung(12)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	28						TGCAGCCCCGCGCCCAGGATC	0.622													C|||	1523	0.304113	0.0507	0.5735	5008	,	,		20389	0.4494		0.4463	False		,,,				2504	0.1595															0								C	,VAL/ALA	443,3739		26,391,1674	49	55	53		,2114	-7.3	0	16	dbSNP_120	53	3593,4857		780,2033,1412	yes	intron,missense	ARMC5	NM_001105247.1,NM_024742.2	,64	806,2424,3086	TT,TC,CC		42.5207,10.593,31.9506	,	,705/726	31476458	4036,8596	2091	4225	6316	SO:0001627	intron_variant	79798			AY217348	CCDS42155.1, CCDS45472.1, CCDS73874.1	16p11	2013-02-14			ENSG00000140691	ENSG00000140691		"Armadillo repeat containing"	25781	protein-coding gene	gene with protein product		615549					Standard	NM_024742		Approved	FLJ13063	uc002ecc.3	Q96C12	OTTHUMG00000176618	ENST00000563544.1:c.1864+250C>T	16.37:g.31476458C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q86WM9|Q9H7P8|Q9H925	Missense_Mutation	SNP	ENST00000563544.1	37	CCDS45472.1	858	0.39285714285714285	28	0.056910569105691054	209	0.5773480662983426	277	0.48426573426573427	344	0.45382585751978893	C	8.087	0.773579	0.16051	0.10593	0.425207	ENSG00000140691	ENST00000457010	T	0.21543	2.0	3.63	-7.27	0.01461	.	.	.	.	.	T	0.00012	0.0000	.	.	.	0.80722	P	0.0	B	0.20261	0.043	B	0.14578	0.011	T	0.45101	-0.9284	6	.	.	.	.	4.3423	0.11115	0.1614:0.4832:0.2508:0.1046	rs11150624;rs56855049;rs11150624	704	Q96C12-4	.	V	705	ENSP00000399561:A705V	.	A	+	2	0	ARMC5	31383959	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-1.168000	0.03123	-1.705000	0.01406	-1.359000	0.01217	GCG		0.622	ARMC5-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000432847.1	NM_024742		T	31476458	C	T	31476458	1	4	635	0	1	0	0	0	0	0	0	0	954	768	27	1		1	ARMC5	16	31476458	Intron	SNP	C	TCGA-KL-8336-01A-11D-2310-10	879653	31476458	58878295	55	39198										
VPS53	55275	ucsc.edu	37	chr17	617869	617869	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ggcggaacgcttacctgctcGatggccagctgcacctcggg	14	14	0	0	rs11558129	byFrequency	TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr17:617869G>A	ENST00000571805.1	-	1	217	c.81C>T	c.(79-81)atC>atT	p.I27I	VPS53_ENST00000401468.3_Silent_p.I27I|VPS53_ENST00000437048.2_Silent_p.I27I|VPS53_ENST00000446250.2_5'UTR|VPS53_ENST00000574029.1_Silent_p.I27I|VPS53_ENST00000291074.5_Silent_p.I27I			Q5VIR6	VPS53_HUMAN	vacuolar protein sorting 53 homolog (S. cerevisiae)	27				I -> V (in Ref. 3; ABW03005). {ECO:0000305}.	protein transport (GO:0015031)	endosome (GO:0005768)|GARP complex (GO:0000938)|membrane (GO:0016020)				breast(1)|endometrium(4)|large_intestine(5)|lung(8)|prostate(1)	19				UCEC - Uterine corpus endometrioid carcinoma (25;0.0265)		TTACCTGCTCGATGGCCAGCT	0.711													G|||	728	0.145367	0.0265	0.2435	5008	,	,		11887	0.0248		0.2356	False		,,,				2504	0.2679															0								G	,	240,4166	139.2+/-174.8	5,230,1968	56	57	57		81,81	0.7	1	17	dbSNP_120	57	2133,6467	361.9+/-332.5	268,1597,2435	no	coding-synonymous,coding-synonymous	VPS53	NM_001128159.2,NM_018289.3	,	273,1827,4403	AA,AG,GG		24.8023,5.4471,18.2454	,	27/833,27/671	617869	2373,10633	2203	4300	6503	SO:0001819	synonymous_variant	55275				CCDS10995.1, CCDS45558.1	17p13.3	2007-07-13	2006-12-19			ENSG00000141252			25608	protein-coding gene	gene with protein product		615850	"vacuolar protein sorting 53 (yeast)"			15878329	Standard	NM_018289		Approved	FLJ10979, HCCS1	uc010cjo.2	Q5VIR6		ENST00000571805.1:c.81C>T	17.37:g.617869G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K2S8|B3FH42|Q8WYW3|Q9BRR2|Q9BY02|Q9NV25	Silent	SNP	ENST00000571805.1	37																																																																																					0.711	VPS53-006	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000436940.2	NM_018289		A	617869	G	A	617869	2	1	635	1	0	0	0	0	0	0	0	1	17227	1048	37	1		1	VPS53	17	617869	Silent	SNP	G	TCGA-KL-8336-01A-11D-2310-10		617869	80577341	56	39199										
ZZEF1	23140	broad.mit.edu	37	chr17	4046184	4046184	+	Frame_Shift_Del	DEL	C	C	-													0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ctgctgtgactcggagcgttCcccatggggtctccgtcttg							TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr17:4046184delC	ENST00000381638.2	-	1	130	c.6delG	c.(4-6)gggfs	p.G2fs	CYB5D2_ENST00000573984.1_5'Flank|CYB5D2_ENST00000301391.3_5'Flank|CYB5D2_ENST00000575251.1_5'Flank|ZZEF1_ENST00000574474.1_5'UTR	NM_015113.3	NP_055928.3	O43149	ZZEF1_HUMAN	zinc finger, ZZ-type with EF-hand domain 1	2							calcium ion binding (GO:0005509)|zinc ion binding (GO:0008270)			central_nervous_system(1)|cervix(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(17)|lung(19)|ovary(3)|pancreas(1)|prostate(3)|skin(8)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(3)	84						TCGGAGCGTTCCCCATGGGGT	0.741																																																0													3	3	3					17																	4046184		1755	3358	5113	SO:0001589	frameshift_variant	23140			BC035319	CCDS11043.1	17p13.3	2013-01-10	2004-11-03		ENSG00000074755	ENSG00000074755		"Zinc fingers, ZZ-type", "EF-hand domain containing"	29027	protein-coding gene	gene with protein product			"zinc finger, ZZ-type with EF hand domain 1"			9455477	Standard	XM_005256560		Approved	KIAA0399, ZZZ4, FLJ10821	uc002fxe.3	O43149	OTTHUMG00000090741	ENST00000381638.2:c.6delG	17.37:g.4046184delC	ENSP00000371051:p.Gly2fs	Somatic		WXS	Illumina HiSeq	Phase_I	A7MBM5|Q6NXG0|Q6ZRA1|Q6ZSF4|Q9NVB9	Frame_Shift_Del	DEL	ENST00000381638.2	37	CCDS11043.1																																																																																				0.741	ZZEF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207480.1	NM_015113		-	4046184	C	-	4046184	7	5	635	1	0	1	0	1	0	0	0	0	18267	842	30	0	9099	0	ZZEF1	17	4046184	Frame_Shift_Del	DEL	C	TCGA-KL-8336-01A-11D-2310-10	3428315	4046184	77149026	57	39200										
TP53	7157	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	7578455	7578455	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ctgcttgtagatggccatggCgcggacgcgggtgccgggcg	19	11	0	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr17:7578455C>G	ENST00000269305.4	-	5	664	c.475G>C	c.(475-477)Gcc>Ccc	p.A159P	TP53_ENST00000445888.2_Missense_Mutation_p.A159P|TP53_ENST00000359597.4_Missense_Mutation_p.A159P|TP53_ENST00000455263.2_Missense_Mutation_p.A159P|TP53_ENST00000413465.2_Missense_Mutation_p.A159P|TP53_ENST00000574684.1_5'Flank|TP53_ENST00000420246.2_Missense_Mutation_p.A159P	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	159	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with FBXO42.|Required for interaction with ZNF385A.		A -> D (in sporadic cancers; somatic mutation).|A -> F (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|A -> G (in sporadic cancers; somatic mutation).|A -> P (in sporadic cancers; somatic mutation).|A -> S (in sporadic cancers; somatic mutation).|A -> T (in sporadic cancers; somatic mutation).|A -> V (in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.A159P(19)|p.0?(8)|p.A159T(7)|p.R158fs(6)|p.R158fs*11(6)|p.A159fs*11(4)|p.A159S(4)|p.R65fs(2)|p.A27P(2)|p.R158_A159delRA(2)|p.R156_I162delRVRAMAI(2)|p.V157fs*9(2)|p.R26fs(2)|p.A66P(2)|p.V157_C176del20(1)|p.R156_A161delRVRAMA(1)|p.P151_V173del23(1)|p.R156fs*18(1)|p.R26fs*11(1)|p.R156_A161del(1)|p.R158_A159insXX(1)|p.V157_M160delVRAM(1)|p.S149fs*72(1)|p.A159fs*21(1)|p.T155_A161delTRVRAMA(1)|p.R65fs*11(1)|p.R156fs*20(1)|p.V157_I162delVRAMAI(1)|p.A159_Q167delAMAIYKQSQ(1)|p.V157fs*21(1)|p.R158fs*8(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	ATGGCCATGGCGCGGACGCGG	0.627		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	85	Substitution - Missense(34)|Deletion - Frameshift(18)|Deletion - In frame(12)|Complex(10)|Whole gene deletion(8)|Complex - frameshift(2)|Insertion - In frame(1)	lung(20)|central_nervous_system(18)|oesophagus(8)|liver(6)|stomach(5)|breast(5)|upper_aerodigestive_tract(4)|urinary_tract(4)|bone(4)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|ovary(2)|thyroid(1)|soft_tissue(1)|pancreas(1)											50	51	50					17																	7578455		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.475G>C	17.37:g.7578455C>G	ENSP00000269305:p.Ala159Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	C	16.75	3.209010	0.58343	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944;ENST00000414315;ENST00000508793	D;D;D;D;D;D;D;D;D	0.99864	-7.28;-7.28;-7.28;-7.28;-7.28;-7.28;-7.28;-7.28;-7.28	5.59	2.4	0.29515	p53, DNA-binding domain (1);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.053992	0.64402	D	0.000001	D	0.99816	0.9919	M	0.89840	3.065	0.51767	D	0.999938	D;D;D;D;D;D;D	0.89917	1.0;0.998;0.999;1.0;0.997;0.995;1.0	D;D;D;D;D;D;D	0.87578	0.997;0.986;0.995;0.997;0.996;0.987;0.998	D	0.98681	1.0692	10	0.87932	D	0	-9.0177	6.1221	0.20159	0.0:0.6615:0.1535:0.185	.	120;159;159;66;159;159;159	B4E095;P04637-2;P04637-3;E9PFT5;P04637;Q1MSW8;E7EQX7	.;.;.;.;P53_HUMAN;.;.	P	159;159;159;159;159;159;148;66;27;66;27;159	ENSP00000410739:A159P;ENSP00000352610:A159P;ENSP00000269305:A159P;ENSP00000398846:A159P;ENSP00000391127:A159P;ENSP00000391478:A159P;ENSP00000425104:A27P;ENSP00000423862:A66P;ENSP00000424104:A159P	ENSP00000269305:A159P	A	-	1	0	TP53	7519180	1.000000	0.71417	0.149000	0.22428	0.179000	0.23085	4.930000	0.63462	0.333000	0.23563	0.655000	0.94253	GCC		0.627	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		G	7578455	C	G	7578455	3	3	635	1	0	0	0	0	1	0	0	0	16393	768	27	4	823	4	TP53	17	7578455	Missense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10	3532271	7578455	73616755	58	39201										
GPR179	440435	ucsc.edu	37	chr17	36483472	36483472	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ccatgggcacacgtcagcggCcctgcccccagtgctgacca	11	18	1	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr17:36483472C>A	ENST00000342292.4	-	11	6000	c.5980G>T	c.(5980-5982)Gcc>Tcc	p.A1994S	GPR179_ENST00000584976.1_Intron	NM_001004334.2	NP_001004334.2	Q6PRD1	GP179_HUMAN	G protein-coupled receptor 179	1994					visual perception (GO:0007601)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			breast(4)|cervix(2)|endometrium(9)|kidney(3)|large_intestine(16)|lung(15)|ovary(4)|pancreas(1)|prostate(1)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	60	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				ACGTCAGCGGCCCTGCCCCCA	0.572																																																0													58	58	58					17																	36483472		2022	4189	6211	SO:0001583	missense	440435				CCDS42308.1	17q21.1	2014-05-06	2006-02-16	2006-02-16	ENSG00000188888	ENSG00000277399		"GPCR / Class C : Orphans"	31371	protein-coding gene	gene with protein product		614515	"GPR158-like 1", "GPR179"	GPR158L1			Standard	NM_001004334		Approved	CSNB1E	uc002hpz.3	Q6PRD1	OTTHUMG00000188545	ENST00000342292.4:c.5980G>T	17.37:g.36483472C>A	ENSP00000345060:p.Ala1994Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000342292.4	37	CCDS42308.1	.	.	.	.	.	.	.	.	.	.	C	12.10	1.838049	0.32513	.	.	ENSG00000188888	ENST00000342292	T	0.50548	0.74	4.78	-0.835	0.10775	.	2.989320	0.01141	N	0.006215	T	0.35941	0.0949	L	0.52573	1.65	0.09310	N	1	B	0.31910	0.346	B	0.24269	0.052	T	0.07252	-1.0782	10	0.08599	T	0.76	3.1037	6.0046	0.19539	0.0:0.5146:0.1542:0.3312	.	1994	Q6PRD1	GP179_HUMAN	S	1994	ENSP00000345060:A1994S	ENSP00000345060:A1994S	A	-	1	0	GPR179	33736998	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	0.142000	0.16096	-0.259000	0.09432	0.561000	0.74099	GCC		0.572	GPR179-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255329.2			A	36483472	C	A	36483472	3	1	635	1	0	0	0	0	1	0	0	0	6681	739	26	4	1127	4	GPR179	17	36483472	Missense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10	28905017	36483472	44711738	59	39202										
NPTX1	4884	broad.mit.edu	37	chr17	78449421	78449421	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	tgccctcctccagggtgttcAcccgggacagcacctgcctc	10	18	1	0			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr17:78449421A>C	ENST00000306773.4	-	2	699	c.542T>G	c.(541-543)gTg>gGg	p.V181G	NPTX1_ENST00000575212.1_5'UTR	NM_002522.3	NP_002513.2	Q15818	NPTX1_HUMAN	neuronal pentraxin I	181					axonogenesis involved in innervation (GO:0060385)|cellular response to glucose stimulus (GO:0071333)|cellular response to potassium ion (GO:0035865)|central nervous system development (GO:0007417)|mitochondrial fragmentation involved in apoptotic process (GO:0043653)|mitochondrial transport (GO:0006839)|synaptic transmission (GO:0007268)|transport (GO:0006810)	cytoplasmic vesicle (GO:0031410)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)			kidney(1)|large_intestine(2)|liver(1)|lung(4)|prostate(2)|upper_aerodigestive_tract(1)	11	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0487)			CAGGGTGTTCACCCGGGACAG	0.632																																																0													49	40	43					17																	78449421		2201	4299	6500	SO:0001583	missense	4884			U61849	CCDS32762.1	17q25.3	2008-05-14				ENSG00000171246			7952	protein-coding gene	gene with protein product		602367				8884281	Standard	NM_002522		Approved		uc002jyp.1	Q15818		ENST00000306773.4:c.542T>G	17.37:g.78449421A>C	ENSP00000307549:p.Val181Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXH3|Q5FWE6	Missense_Mutation	SNP	ENST00000306773.4	37	CCDS32762.1	.	.	.	.	.	.	.	.	.	.	A	14.45	2.538851	0.45176	.	.	ENSG00000171246	ENST00000306773	T	0.12147	2.71	3.7	3.7	0.42460	.	0.000000	0.85682	D	0.000000	T	0.25121	0.0610	M	0.77313	2.365	0.80722	D	1	D	0.54047	0.964	P	0.49140	0.601	T	0.08229	-1.0732	10	0.72032	D	0.01	-23.0712	11.7908	0.52068	1.0:0.0:0.0:0.0	.	181	Q15818	NPTX1_HUMAN	G	181	ENSP00000307549:V181G	ENSP00000307549:V181G	V	-	2	0	NPTX1	76064016	1.000000	0.71417	0.998000	0.56505	0.953000	0.61014	5.641000	0.67881	1.682000	0.51000	0.459000	0.35465	GTG		0.632	NPTX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438051.1			C	78449421	A	C	78449421	3	2	635	1	0	0	0	0	1	0	0	0	10609	159	6	5	772	5	NPTX1	17	78449421	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10	41965949	78449421	2745789	60	39203										
ANKRD30B	374860	mdanderson.org	37	chr18	14779986	14779986	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	gttcccatcagaatccaaacGagaggaagatgaagaatatt	9	7	1	5	rs76927023		TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr18:14779986G>A	ENST00000358984.4	+	11	1628	c.1448G>A	c.(1447-1449)cGa>cAa	p.R483Q	ANKRD30B_ENST00000579292.1_Intron|ANKRD30B_ENST00000447268.2_Missense_Mutation_p.R483Q	NM_001145029.1	NP_001138501.1	Q9BXX2	AN30B_HUMAN	ankyrin repeat domain 30B	483										breast(3)|endometrium(4)|kidney(3)|lung(8)|ovary(1)|prostate(2)|skin(1)	22						GAATCCAAACGAGAGGAAGAT	0.284																																																0													169	160	163					18																	14779986		692	1591	2283	SO:0001583	missense	374860			BC028407	CCDS54182.1	18p11.21	2013-01-10			ENSG00000180777	ENSG00000180777		"Ankyrin repeat domain containing"	24165	protein-coding gene	gene with protein product						11280766	Standard	NM_001145029		Approved	NY-BR-1.1	uc010dlo.2	Q9BXX2		ENST00000358984.4:c.1448G>A	18.37:g.14779986G>A	ENSP00000351875:p.Arg483Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DGP1|F8WAG3|Q4G175	Missense_Mutation	SNP	ENST00000358984.4	37	CCDS54182.1	.	.	.	.	.	.	.	.	.	.	N	0.006	-2.092170	0.00364	.	.	ENSG00000180777	ENST00000358984;ENST00000447268	T;T	0.36520	1.51;1.25	1.69	0.451	0.16629	.	.	.	.	.	T	0.09905	0.0243	N	0.00926	-1.1	0.09310	N	1	B	0.23854	0.092	B	0.08055	0.003	T	0.28138	-1.0053	9	0.22109	T	0.4	.	3.9288	0.09275	0.7996:0.0:0.2004:0.0	.	483	F8WAG3	.	Q	483	ENSP00000351875:R483Q;ENSP00000399031:R483Q	ENSP00000351875:R483Q	R	+	2	0	ANKRD30B	14769986	0.999000	0.42202	0.002000	0.10522	0.094000	0.18550	1.139000	0.31504	0.127000	0.18452	-1.326000	0.01283	CGA		0.284	ANKRD30B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000443557.1	NM_001145029		A	14779986	G	A	14779986	3	1	635	1	0	0	0	0	1	0	0	0	659	1058	37	1	1490	1	ANKRD30B	18	14779986	Missense_Mutation	SNP	G	TCGA-KL-8336-01A-11D-2310-10		14779986	63297262	61	39204										
DSC3	1825	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr18	28611062	28611062	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	gccctggctgtgtacactgaCccatcatttagaactctgaa	8	12	2	3			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr18:28611062C>A	ENST00000360428.4	-	3	311	c.231G>T	c.(229-231)ggG>ggT	p.G77G	DSC3_ENST00000434452.1_Silent_p.G77G	NM_001941.3	NP_001932.2	Q14574	DSC3_HUMAN	desmocollin 3	77					cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|in utero embryonic development (GO:0001701)|protein stabilization (GO:0050821)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|desmosome (GO:0030057)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|gamma-catenin binding (GO:0045295)			endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(6)|lung(29)|ovary(2)|prostate(1)|skin(5)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	56			OV - Ovarian serous cystadenocarcinoma(10;0.125)			TGTACACTGACCCATCATTTA	0.418																																																0													72	64	67					18																	28611062		2203	4300	6503	SO:0001819	synonymous_variant	1825			X83929	CCDS32810.1	18q12.1	2014-07-30			ENSG00000134762	ENSG00000134762		"Cadherins / Major cadherins"	3037	protein-coding gene	gene with protein product		600271		DSC4		7774948, 8486729	Standard	NM_001941		Approved	CDHF3, DSC, DSC1, DSC2	uc002kwj.4	Q14574	OTTHUMG00000179622	ENST00000360428.4:c.231G>T	18.37:g.28611062C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NN35|Q14200|Q9HAZ9	Silent	SNP	ENST00000360428.4	37	CCDS32810.1																																																																																				0.418	DSC3-001	KNOWN	non_canonical_genome_sequence_error|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000447384.1	NM_001941, NM_024423		A	28611062	C	A	28611062	2	1	635	1	0	0	0	0	0	0	0	1	4769	494	18	4		4	DSC3	18	28611062	Silent	SNP	C	TCGA-KL-8336-01A-11D-2310-10	13831076	28611062	49466186	62	39205										
DAZAP1	26528	ucsc.edu	37	chr19	1432574	1432574	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	gcccctccgggggttcctccTccaccagccactcccggggc	11	21	0	0	rs201283349	byFrequency	TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr19:1432574T>C	ENST00000233078.4	+	11	1094	c.933T>C	c.(931-933)ccT>ccC	p.P311P	DAZAP1_ENST00000336761.6_Silent_p.P311P	NM_018959.2	NP_061832.2	Q96EP5	DAZP1_HUMAN	DAZ associated protein 1	311	Pro-rich.				cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|maternal placenta development (GO:0001893)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|RNA stem-loop binding (GO:0035613)			breast(2)|endometrium(2)|large_intestine(1)|lung(3)|upper_aerodigestive_tract(1)	9		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGGTTCCTCCTCCACCAGCCA	0.647																																																0													63	73	70					19																	1432574		2203	4300	6503	SO:0001819	synonymous_variant	26528				CCDS12065.1, CCDS12066.1	19p13.3	2013-07-16			ENSG00000071626	ENSG00000071626		"RNA binding motif (RRM) containing"	2683	protein-coding gene	gene with protein product	"deleted in azoospermia associated protein 1"	607430				10857750, 23658607	Standard	XM_005259530		Approved	MGC19907	uc002lsn.3	Q96EP5		ENST00000233078.4:c.933T>C	19.37:g.1432574T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q96MJ3|Q9NRR9	Silent	SNP	ENST00000233078.4	37	CCDS12065.1																																																																																				0.647	DAZAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449522.3	NM_170711		C	1432574	T	C	1432574	2	2	635	1	0	0	0	0	0	0	0	1	4246	1538	54	3		3	DAZAP1	19	1432574	Silent	SNP	T	TCGA-KL-8336-01A-11D-2310-10		1432574	57696409	63	39206										
PLIN4	729359	mdanderson.org	37	chr19	4512156	4512156	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ggcgacattcactgcccccaCgagcccagtagtcactgtgt	10	15	2	0	rs112356938	byFrequency	TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr19:4512156C>T	ENST00000301286.3	-	3	1773	c.1774G>A	c.(1774-1776)Gtg>Atg	p.V592M		NM_001080400.1	NP_001073869.1	Q96Q06	PLIN4_HUMAN	perilipin 4	592	27 X 33 AA approximate tandem repeat.					cytoplasm (GO:0005737)|lipid particle (GO:0005811)|plasma membrane (GO:0005886)		p.V520M(1)		NS(2)|breast(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(14)|ovary(1)|skin(2)|soft_tissue(1)|stomach(2)	41						ACTGCCCCCACGAGCCCAGTA	0.602																																																1	Substitution - Missense(1)	skin(1)											244	261	255					19																	4512156		2116	4235	6351	SO:0001583	missense	729359			AB067468	CCDS45927.1	19p13.3	2009-10-06	2009-08-12	2009-08-12	ENSG00000167676	ENSG00000167676		"Perilipins"	29393	protein-coding gene	gene with protein product		613247	"KIAA1881"	KIAA1881		11572484, 19638644	Standard	NM_001080400		Approved	S3-12	uc002mar.1	Q96Q06	OTTHUMG00000167571	ENST00000301286.3:c.1774G>A	19.37:g.4512156C>T	ENSP00000301286:p.Val592Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEI2	Missense_Mutation	SNP	ENST00000301286.3	37	CCDS45927.1	.	.	.	.	.	.	.	.	.	.	T	10.94	1.492727	0.26774	.	.	ENSG00000167676	ENST00000301286	T	0.05717	3.4	5.1	-0.9	0.10544	.	1.053640	0.07562	N	0.917246	T	0.02807	0.0084	N	0.14661	0.345	0.09310	N	1	P	0.52170	0.951	B	0.37198	0.243	T	0.31138	-0.9954	10	0.48119	T	0.1	.	0.7342	0.00962	0.2575:0.1531:0.1331:0.4562	.	592	Q96Q06	PLIN4_HUMAN	M	592	ENSP00000301286:V592M	ENSP00000301286:V592M	V	-	1	0	PLIN4	4463156	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	0.480000	0.22244	-0.303000	0.08856	-0.374000	0.07098	GTG		0.602	PLIN4-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395095.1	XM_170901		T	4512156	C	T	4512156	3	4	635	1	0	0	0	0	1	0	0	0	12099	536	19	1	2315	1	PLIN4	19	4512156	Missense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10	3079582	4512156	54616827	64	39207										
PNPLA6	10908	bcgsc.ca	37	chr19	7607524	7607524	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ccgtgtccctgcaggaagagGcctccggggggtccctggca	16	14	0	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr19:7607524G>T	ENST00000221249.6	+	14	1644	c.1213G>T	c.(1213-1215)Gcc>Tcc	p.A405S	PNPLA6_ENST00000450331.3_Missense_Mutation_p.A405S|PNPLA6_ENST00000414982.3_Missense_Mutation_p.A453S|PNPLA6_ENST00000545201.2_Missense_Mutation_p.A405S|PNPLA6_ENST00000600737.1_Missense_Mutation_p.A444S	NM_006702.4	NP_006693.3	Q8IY17	PLPL6_HUMAN	patatin-like phospholipase domain containing 6	444					angiogenesis (GO:0001525)|cell death (GO:0008219)|lipid catabolic process (GO:0016042)|organ morphogenesis (GO:0009887)|phosphatidylcholine metabolic process (GO:0046470)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	lysophospholipase activity (GO:0004622)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(6)|lung(14)|ovary(3)|stomach(1)|upper_aerodigestive_tract(1)	35						GCAGGAAGAGGCCTCCGGGGG	0.711																																																0													24	29	27					19																	7607524		2198	4295	6493	SO:0001583	missense	10908			AJ004832	CCDS32891.1, CCDS54206.1, CCDS54207.1, CCDS59343.1	19p13.2	2013-09-11						"Patatin-like phospholipase domain containing"	16268	protein-coding gene	gene with protein product	"neuropathy target esterase"	603197				9576844, 16799181, 19029121	Standard	NM_006702		Approved	NTE, sws, iPLA2delta, SPG39	uc010xjq.2	Q8IY17		ENST00000221249.6:c.1213G>T	19.37:g.7607524G>T	ENSP00000221249:p.Ala405Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGQ0|B4DFB9|B7Z7T2|F5H5K9|J3KQS3|O60859|Q86W58|Q9UG58	Missense_Mutation	SNP	ENST00000221249.6	37	CCDS32891.1	.	.	.	.	.	.	.	.	.	.	G	7.434	0.639407	0.14386	.	.	ENSG00000032444	ENST00000221249;ENST00000545201;ENST00000414982;ENST00000544207;ENST00000450331	T;T;T;T	0.03920	3.78;3.84;3.76;3.78	5.24	4.15	0.48705	.	0.433679	0.26711	N	0.022882	T	0.01124	0.0037	N	0.00368	-1.59	0.34573	D	0.713646	B;B;B;B	0.12013	0.005;0.002;0.004;0.002	B;B;B;B	0.12837	0.006;0.006;0.008;0.004	T	0.39522	-0.9610	10	0.08599	T	0.76	.	5.84	0.18629	0.1648:0.0:0.8352:0.0	.	444;405;444;405	Q8IY17;F5H5K9;Q8IY17-3;Q8IY17-2	PLPL6_HUMAN;.;.;.	S	405;405;453;342;405	ENSP00000221249:A405S;ENSP00000443323:A405S;ENSP00000407509:A453S;ENSP00000394348:A405S	ENSP00000221249:A405S	A	+	1	0	PNPLA6	7513524	0.992000	0.36948	1.000000	0.80357	0.665000	0.39181	1.552000	0.36244	2.445000	0.82738	0.655000	0.94253	GCC		0.711	PNPLA6-001	KNOWN	NAGNAG_splice_site|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459275.1	NM_006702		T	7607524	G	T	7607524	3	4	635	1	0	0	0	0	1	0	0	0	12176	1203	42	4	1403	4	PNPLA6	19	7607524	Missense_Mutation	SNP	G	TCGA-KL-8336-01A-11D-2310-10	3095368	7607524	51521459	65	39208										
S1PR5	53637	bcgsc.ca	37	chr19	10625364	10625364	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	acgcctccctcccgtgcgaaCcagagcgcgggggacagttt	13	15	0	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr19:10625364C>T	ENST00000439028.3	-	2	449	c.324G>A	c.(322-324)tgG>tgA	p.W108*	S1PR5_ENST00000333430.4_Nonsense_Mutation_p.W108*	NM_001166215.1	NP_001159687.1	Q9H228	S1PR5_HUMAN	sphingosine-1-phosphate receptor 5	108					regulation of neuron differentiation (GO:0045664)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	sphingosine-1-phosphate receptor activity (GO:0038036)			central_nervous_system(1)|endometrium(2)|large_intestine(1)|lung(5)|ovary(1)|pancreas(1)|prostate(1)	12					Fingolimod(DB08868)	CCCGTGCGAACCAGAGCGCGG	0.697																																																0													13	16	15					19																	10625364		2189	4294	6483	SO:0001587	stop_gained	53637			AK074661	CCDS12240.1	19p13.2	2012-08-08	2008-04-30	2008-04-30		ENSG00000180739		"GPCR / Class A : Lysophospholipid receptors : Sphingosine 1-phosphate"	14299	protein-coding gene	gene with protein product		605146	"endothelial differentiation, sphingolipid G-protein-coupled receptor, 8"	EDG8		10799507	Standard	NM_030760		Approved	Edg-8	uc002mou.2	Q9H228		ENST00000439028.3:c.324G>A	19.37:g.10625364C>T	ENSP00000416915:p.Trp108*	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NW11	Nonsense_Mutation	SNP	ENST00000439028.3	37	CCDS12240.1	.	.	.	.	.	.	.	.	.	.	c	31	5.059320	0.93846	.	.	ENSG00000180739	ENST00000439028;ENST00000333430;ENST00000359134	.	.	.	4.11	3.06	0.35304	.	0.151751	0.47852	U	0.000206	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	12.7323	0.57204	0.0:0.8325:0.1675:0.0	.	.	.	.	X	108	.	ENSP00000328472:W108X	W	-	3	0	S1PR5	10486364	1.000000	0.71417	1.000000	0.80357	0.733000	0.41908	7.481000	0.81124	0.935000	0.37341	0.306000	0.20318	TGG		0.697	S1PR5-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452015.1	NM_030760		T	10625364	C	T	10625364	4	4	635	1	0	0	0	0	0	1	0	0	13810	508	18	2	876	2	S1PR5	19	10625364	Nonsense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10	3017840	10625364	48503619	66	39209										
ZNF799	90576	mdanderson.org	37	chr19	12501852	12501852	+	Missense_Mutation	SNP	C	C	T													0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	gaaatcaataaaggctttccCacatttgcatttatagggtt					rs200077318		TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr19:12501852C>T	ENST00000430385.3	-	4	1560	c.1360G>A	c.(1360-1362)Ggg>Agg	p.G454R	ZNF799_ENST00000419318.1_Missense_Mutation_p.G422R|CTD-3105H18.14_ENST00000435033.1_Intron	NM_001080821.2	NP_001074290.1	Q96GE5	ZN799_HUMAN	zinc finger protein 799	454					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(3)|kidney(2)|large_intestine(4)|lung(4)|ovary(2)|prostate(2)|skin(2)	19						AAGGCTTTCCCACATTTGCAT	0.383																																																0													75	80	78					19																	12501852		2202	4299	6501	SO:0001583	missense	90576			BC009517	CCDS45989.1	19p13.2	2013-01-08			ENSG00000196466	ENSG00000196466		"Zinc fingers, C2H2-type", "-"	28071	protein-coding gene	gene with protein product			"zinc finger protein 842"	ZNF842			Standard	NM_001080821		Approved	HIT-40, MGC71805	uc002mts.4	Q96GE5	OTTHUMG00000156408	ENST00000430385.3:c.1360G>A	19.37:g.12501852C>T	ENSP00000411084:p.Gly454Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000430385.3	37	CCDS45989.1	.	.	.	.	.	.	.	.	.	.	C	16.12	3.033438	0.54896	.	.	ENSG00000196466	ENST00000419318;ENST00000430385	T;T	0.21361	2.01;2.01	1.31	-1.12	0.09808	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.27349	0.0671	M	0.86097	2.795	0.31959	N	0.608702	B	0.19200	0.034	B	0.28849	0.095	T	0.34179	-0.9839	9	0.72032	D	0.01	.	5.5527	0.17099	0.0:0.6435:0.0:0.3565	.	454	Q96GE5	ZN799_HUMAN	R	422;454	ENSP00000415278:G422R;ENSP00000411084:G454R	ENSP00000415278:G422R	G	-	1	0	ZNF799	12362852	0.004000	0.15560	0.000000	0.03702	0.966000	0.64601	1.363000	0.34159	-0.271000	0.09272	0.430000	0.28490	GGG		0.383	ZNF799-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344099.2	NM_001080821		T	12501852	C	T	12501852	3	4	635	1	0	0	0	0	1	0	0	0	18178	594	21	2	575	2	ZNF799	19	12501852	Missense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10	1876488	12501852	46627131	67	39210	331	2								
ZNF799	90576	mdanderson.org	37	chr19	12501855	12501855	+	Missense_Mutation	SNP	A	A	G													0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	atcaataaaggctttcccacAtttgcatttatagggtttct					rs201077492|rs79480756		TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr19:12501855A>G	ENST00000430385.3	-	4	1557	c.1357T>C	c.(1357-1359)Tgt>Cgt	p.C453R	ZNF799_ENST00000419318.1_Missense_Mutation_p.C421R|CTD-3105H18.14_ENST00000435033.1_Intron	NM_001080821.2	NP_001074290.1	Q96GE5	ZN799_HUMAN	zinc finger protein 799	453					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(3)|kidney(2)|large_intestine(4)|lung(4)|ovary(2)|prostate(2)|skin(2)	19						GCTTTCCCACATTTGCATTTA	0.388																																																0													76	81	79					19																	12501855		2202	4299	6501	SO:0001583	missense	90576			BC009517	CCDS45989.1	19p13.2	2013-01-08			ENSG00000196466	ENSG00000196466		"Zinc fingers, C2H2-type", "-"	28071	protein-coding gene	gene with protein product			"zinc finger protein 842"	ZNF842			Standard	NM_001080821		Approved	HIT-40, MGC71805	uc002mts.4	Q96GE5	OTTHUMG00000156408	ENST00000430385.3:c.1357T>C	19.37:g.12501855A>G	ENSP00000411084:p.Cys453Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000430385.3	37	CCDS45989.1	.	.	.	.	.	.	.	.	.	.	A	15.29	2.790257	0.50102	.	.	ENSG00000196466	ENST00000419318;ENST00000430385	D;D	0.85955	-2.05;-2.05	1.31	1.31	0.21738	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	D	0.87791	0.6266	H	0.95950	3.745	0.58432	D	0.999998	B	0.02656	0.0	B	0.10450	0.005	D	0.85733	0.1332	9	0.72032	D	0.01	.	6.6913	0.23174	1.0:0.0:0.0:0.0	.	453	Q96GE5	ZN799_HUMAN	R	421;453	ENSP00000415278:C421R;ENSP00000411084:C453R	ENSP00000415278:C421R	C	-	1	0	ZNF799	12362855	0.997000	0.39634	0.001000	0.08648	0.965000	0.64279	5.185000	0.65076	0.846000	0.35142	0.352000	0.21897	TGT		0.388	ZNF799-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344099.2	NM_001080821		G	12501855	A	G	12501855	3	3	635	1	0	0	0	0	1	0	0	0	18178	217	8	3	578	3	ZNF799	19	12501855	Missense_Mutation	SNP	A	TCGA-KL-8336-01A-11D-2310-10	3	12501855	46627128	68	39211	331	2								
FFAR3	2865	mdanderson.org	37	chr19	35850829	35850829	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	ccaggtggcctgtgctgaaaGctaggtcctccgggggagga	17	10	0	1	rs201080710		TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr19:35850829G>A	ENST00000327809.4	+	2	1238	c.1037G>A	c.(1036-1038)aGc>aAc	p.S346N	FFAR3_ENST00000594310.1_Missense_Mutation_p.S346N	NM_005304.3	NP_005295.1	O14843	FFAR3_HUMAN	free fatty acid receptor 3	346			S -> N. {ECO:0000269|PubMed:19630535}.		adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cellular response to fatty acid (GO:0071398)|G-protein coupled receptor signaling pathway (GO:0007186)|inflammatory response (GO:0006954)|mucosal immune response (GO:0002385)|negative regulation of blood pressure (GO:0045776)|positive regulation of acute inflammatory response to non-antigenic stimulus (GO:0002879)|positive regulation of chemokine production (GO:0032722)|positive regulation of cytokine production involved in immune response (GO:0002720)|positive regulation of glucose import in response to insulin stimulus (GO:2001275)|regulation of hormone biosynthetic process (GO:0046885)|regulation of norepinephrine secretion (GO:0014061)|regulation of peptide hormone secretion (GO:0090276)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|lipid binding (GO:0008289)			endometrium(3)|large_intestine(2)|lung(9)|ovary(1)|skin(1)|stomach(1)	17	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)			TGTGCTGAAAGCTAGGTCCTC	0.632																																					Esophageal Squamous(185;1742 2042 21963 24215 27871)											0													29	25	26					19																	35850829		2199	4279	6478	SO:0001583	missense	2865			AF024688	CCDS12459.1	19q13.1	2012-08-08	2006-02-15	2006-02-15	ENSG00000185897	ENSG00000185897		"GPCR / Class A : Fatty acid receptors"	4499	protein-coding gene	gene with protein product		603821	"G protein-coupled receptor 41"	GPR41		9344866, 22493486	Standard	NM_005304		Approved	FFA3R	uc002nzd.3	O14843	OTTHUMG00000172514	ENST00000327809.4:c.1037G>A	19.37:g.35850829G>A	ENSP00000328230:p.Ser346Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2RWM8|Q14CM7	Missense_Mutation	SNP	ENST00000327809.4	37	CCDS12459.1	.	.	.	.	.	.	.	.	.	.	G	9.237	1.037199	0.19669	.	.	ENSG00000185897	ENST00000327809	T	0.65364	-0.15	3.72	-0.0966	0.13636	.	.	.	.	.	T	0.41834	0.1176	.	.	.	0.09310	N	1	B	0.29432	0.244	B	0.24006	0.05	T	0.22591	-1.0212	8	0.41790	T	0.15	.	3.1652	0.06533	0.1058:0.1734:0.5425:0.1782	.	346	O14843	FFAR3_HUMAN	N	346	ENSP00000328230:S346N	ENSP00000328230:S346N	S	+	2	0	FFAR3	40542669	0.000000	0.05858	0.000000	0.03702	0.032000	0.12392	-0.022000	0.12480	-0.163000	0.10946	0.455000	0.32223	AGC		0.632	FFAR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418873.2	NM_005304		A	35850829	G	A	35850829	3	1	635	1	0	0	0	0	1	0	0	0	5836	971	34	2	1039	2	FFAR3	19	35850829	Missense_Mutation	SNP	G	TCGA-KL-8336-01A-11D-2310-10	23348974	35850829	23278154	69	39212										
ZNF836	162962	mdanderson.org;bcgsc.ca	37	chr19	52660631	52660631	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	aatttatttcaccatctttcCattgaaactcaaggtcctgt	4	10	3	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr19:52660631C>T	ENST00000322146.8	-	5	826	c.305G>A	c.(304-306)tGg>tAg	p.W102*	ZNF836_ENST00000597252.1_Nonsense_Mutation_p.W102*|CTC-471J1.8_ENST00000594362.1_RNA	NM_001102657.1	NP_001096127.1	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	102					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(2)|kidney(2)|large_intestine(9)|lung(10)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	26						ACCATCTTTCCATTGAAACTC	0.323																																																0													97	89	91					19																	52660631		1928	4149	6077	SO:0001587	stop_gained	162962			BC011784	CCDS46162.1	19q13.33	2013-01-08			ENSG00000196267	ENSG00000196267		"Zinc fingers, C2H2-type", "-"	34333	protein-coding gene	gene with protein product							Standard	NM_001102657		Approved	FLJ16287	uc010ydj.2	Q6ZNA1		ENST00000322146.8:c.305G>A	19.37:g.52660631C>T	ENSP00000325038:p.Trp102*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000322146.8	37	CCDS46162.1	.	.	.	.	.	.	.	.	.	.	C	34	5.380885	0.95945	.	.	ENSG00000196267	ENST00000322146	.	.	.	2.06	0.971	0.19698	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.34782	T	0.22	.	4.5989	0.12343	0.0:0.7965:0.0:0.2035	.	.	.	.	X	102	.	ENSP00000325038:W102X	W	-	2	0	ZNF836	57352443	0.000000	0.05858	0.000000	0.03702	0.092000	0.18411	-0.030000	0.12308	0.204000	0.20548	0.485000	0.47835	TGG		0.323	ZNF836-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462456.1	NM_001102657		T	52660631	C	T	52660631	4	4	635	1	0	0	0	0	0	1	0	0	18199	595	21	2	2507	2	ZNF836	19	52660631	Nonsense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10	16809802	52660631	6468352	70	39213										
PANX2	56666	broad.mit.edu	37	chr22	50616699	50616699	+	Frame_Shift_Del	DEL	T	T	-													0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	tctccctggacgtgcaccccTacatcctcggcaccaagaag							TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chr22:50616699delT	ENST00000395842.2	+	2	1558	c.1558delT	c.(1558-1560)tacfs	p.Y520fs	PANX2_ENST00000159647.5_Frame_Shift_Del_p.Y520fs	NM_052839.3	NP_443071.2	Q96RD6	PANX2_HUMAN	pannexin 2	520					ion transport (GO:0006811)|protein hexamerization (GO:0034214)|response to ischemia (GO:0002931)|synaptic transmission (GO:0007268)	cytoplasm (GO:0005737)|gap junction (GO:0005921)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	gap junction hemi-channel activity (GO:0055077)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(1)|lung(1)|skin(1)	7		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		CGTGCACCCCTACATCCTCGG	0.776																																																0													3	3	3					22																	50616699		1646	3384	5030	SO:0001589	frameshift_variant	56666				CCDS14085.2, CCDS54544.1	22q13.33	2011-12-05			ENSG00000073150	ENSG00000073150		"Ion channels / Pannexins"	8600	protein-coding gene	gene with protein product		608421				14702039, 14597722	Standard	NM_052839		Approved	hPANX2, PX2	uc003bjn.4	Q96RD6	OTTHUMG00000044649	ENST00000395842.2:c.1558delT	22.37:g.50616699delT	ENSP00000379183:p.Tyr520fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z684|Q96RD5|Q9UGX8	Frame_Shift_Del	DEL	ENST00000395842.2	37	CCDS14085.2																																																																																				0.776	PANX2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075010.3	NM_052839		-	50616699	T	-	50616699	7	5	635	1	0	1	0	1	0	0	0	0	11428	1522	53	0	1564	0	PANX2	22	50616699	Frame_Shift_Del	DEL	T	TCGA-KL-8336-01A-11D-2310-10		50616699	687867	71	39214										
ARSE	415	hgsc.bcm.edu	37	chrX	2867365	2867365	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	cttttgagaaaggacgcaacCtcctgcagaataaggggtgt	12	8	0	2			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chrX:2867365C>T	ENST00000381134.3	-	6	900	c.834G>A	c.(832-834)gaG>gaA	p.E278E	ARSE_ENST00000545496.1_Silent_p.E303E|ARSE_ENST00000540563.1_Silent_p.E233E	NM_000047.2	NP_000038.2	P51690	ARSE_HUMAN	arylsulfatase E (chondrodysplasia punctata 1)	278					cellular protein metabolic process (GO:0044267)|glycosphingolipid metabolic process (GO:0006687)|post-translational protein modification (GO:0043687)|skeletal system development (GO:0001501)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum lumen (GO:0005788)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)	arylsulfatase activity (GO:0004065)|metal ion binding (GO:0046872)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(2)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	17		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)				AGGACGCAACCTCCTGCAGAA	0.488																																																0													65	56	59					X																	2867365		2203	4300	6503	SO:0001819	synonymous_variant	415			X83573	CCDS14122.1, CCDS75948.1, CCDS75949.1	Xp22.33	2013-02-14			ENSG00000157399	ENSG00000157399		"Arylsulfatase family"	719	protein-coding gene	gene with protein product		300180		CDPX, CDPX1		7720070	Standard	NM_000047		Approved		uc004crc.4	P51690	OTTHUMG00000137358	ENST00000381134.3:c.834G>A	X.37:g.2867365C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q53FT2|Q53FU8	Silent	SNP	ENST00000381134.3	37	CCDS14122.1																																																																																				0.488	ARSE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055643.1	NM_000047		T	2867365	C	T	2867365	2	4	635	1	0	0	0	0	0	0	0	1	990	680	24	2		2	ARSE	23	2867365	Silent	SNP	C	TCGA-KL-8336-01A-11D-2310-10		2867365	152403195	72	39215										
DCAF8L2	347442	hgsc.bcm.edu	37	chrX	27765387	27765407	+	In_Frame_Del	DEL	GGAGGAGGAGGAAGAGGAGGA	GGAGGAGGAGGAAGAGGAGGA	-													0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	gagatacaagaggagggaggGgaggaggaggaagaggagga					rs371896121		TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	GGAGGAGGAGGAAGAGGAGGA	GGAGGAGGAGGAAGAGGAGGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chrX:27765387_27765407delGGAGGAGGAGGAAGAGGAGGA	ENST00000451261.2	+	5	774_794	c.375_395delGGAGGAGGAGGAAGAGGAGGA	c.(373-396)ggggaggaggaggaagaggaggag>ggg	p.EEEEEEE140del		NM_001136533.1	NP_001130005.1	P0C7V8	DC8L2_HUMAN	DDB1 and CUL4 associated factor 8-like 2	140	Glu-rich.									central_nervous_system(1)|endometrium(9)|kidney(3)|lung(7)|pancreas(1)|skin(3)	24						aggagggaggggaggaggaggaagaggaggaggaggaggag	0.548																																																0																																										SO:0001651	inframe_deletion	347442				CCDS59162.1	Xp22.11	2013-01-09	2009-07-17	2009-07-17		ENSG00000189186		"WD repeat domain containing"	31811	protein-coding gene	gene with protein product			"WD repeat domain 42C"	WDR42C			Standard	NM_001136533		Approved		uc011mjy.2	P0C7V8		ENST00000451261.2:c.375_395delGGAGGAGGAGGAAGAGGAGGA	X.37:g.27765387_27765407delGGAGGAGGAGGAAGAGGAGGA	ENSP00000462745:p.Glu140_Glu146del	Somatic		WXS	Illumina HiSeq	Phase_I	B2RXH9|J3KT06	In_Frame_Del	DEL	ENST00000451261.2	37	CCDS59162.1																																																																																				0.548	DCAF8L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056143.4	XM_293354		-	27765407	GGAGGAGGAGGAAGAGGAGGA	-	27765387	7	5	635	1	0	1	0	1	0	0	0	0	4280	1219	43	0	377	0	DCAF8L2	23	27765387	In_Frame_Del	DEL	GGAGGAGGAGGAAGAGGAGGA	TCGA-KL-8336-01A-11D-2310-10	24898022	27765387	127505173	73	39216										
CXorf66	347487	broad.mit.edu	37	chrX	139038180	139038180	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0422535211267606	3	1	0.992877492877493	0	1.27655677655678	0.1	1	0	actgtcattcacatgatcacCgtatgcattgttcctggaat	7	10	3	1			TCGA-KL-8336-01A-11D-2310-10	TCGA-KL-8336-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e3918e04-066f-49f7-9abd-22d7b896c2a5	cebdaef5-4d74-4bf2-88a3-0be1bd198029	g.chrX:139038180C>T	ENST00000370540.1	-	3	984	c.961G>A	c.(961-963)Ggt>Agt	p.G321S		NM_001013403.2	NP_001013421.1	Q5JRM2	CX066_HUMAN	chromosome X open reading frame 66	321						integral component of membrane (GO:0016021)				breast(1)|endometrium(2)|kidney(3)|large_intestine(5)|lung(13)|skin(1)|stomach(1)	26						ACATGATCACCGTATGCATTG	0.388																																																0													216	181	193					X																	139038180		2203	4300	6503	SO:0001583	missense	347487				CCDS35411.1	Xq27.1	2014-05-30			ENSG00000203933	ENSG00000203933			33743	protein-coding gene	gene with protein product	"secreted glycoprotein, X-linked"					24709545	Standard	NM_001013403		Approved	RP11-35F15.2, SGPX	uc004fbb.3	Q5JRM2	OTTHUMG00000022539	ENST00000370540.1:c.961G>A	X.37:g.139038180C>T	ENSP00000359571:p.Gly321Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000370540.1	37	CCDS35411.1	.	.	.	.	.	.	.	.	.	.	C	0.703	-0.789917	0.02884	.	.	ENSG00000203933	ENST00000370540	T	0.40225	1.04	4.03	-8.05	0.01106	.	3.323370	0.00914	N	0.002512	T	0.19927	0.0479	N	0.08118	0	0.09310	N	1	B	0.14012	0.009	B	0.12156	0.007	T	0.19976	-1.0289	9	.	.	.	11.0958	7.393	0.26921	0.1163:0.2536:0.5352:0.0949	.	321	Q5JRM2	CX066_HUMAN	S	321	ENSP00000359571:G321S	.	G	-	1	0	CXorf66	138865846	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-4.983000	0.00163	-3.667000	0.00124	-2.703000	0.00135	GGT		0.388	CXorf66-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058572.1	NM_001013403		T	139038180	C	T	139038180	3	4	635	1	0	0	0	0	1	0	0	0	4120	652	23	1	128	1	CXorf66	23	139038180	Missense_Mutation	SNP	C	TCGA-KL-8336-01A-11D-2310-10	111272793	139038180	16232380	74	39217										
MXRA8	54587	hgsc.bcm.edu;mdanderson.org	37	chr1	1290408	1290408	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	tcccagtgcaccacctgttgAgcctcctccacgtgccggtc	9	18	0	1	rs147996767	byFrequency	TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr1:1290408A>G	ENST00000309212.6	-	5	633	c.603T>C	c.(601-603)gcT>gcC	p.A201A	MXRA8_ENST00000445648.2_Silent_p.A201A|MXRA8_ENST00000342753.4_Silent_p.A100A|MXRA8_ENST00000477278.2_Silent_p.A192A	NM_001282582.1|NM_032348.2	NP_001269511.1|NP_115724.1	Q9BRK3	MXRA8_HUMAN	matrix-remodelling associated 8	201	Ig-like V-type 2.				establishment of glial blood-brain barrier (GO:0060857)	cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(3)	7	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;2.83e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.77e-21)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		CCACCTGTTGAGCCTCCTCCA	0.751													-|||	361	0.0720847	0.2579	0.0274	5008	,	,		8344	0.0		0.001	False		,,,				2504	0.0															0										722,3238		65,592,1323	7	9	9		603	-0.7	1	1	dbSNP_134	9	6,7864		0,6,3929	no	coding-synonymous	MXRA8	NM_032348.2		65,598,5252	GG,GA,AA		0.0762,18.2323,6.1538		201/443	1290408	728,11102	1980	3935	5915	SO:0001819	synonymous_variant	54587			BC006213	CCDS24.1, CCDS59950.1, CCDS59951.1, CCDS59952.1	1p36.33	2013-01-11			ENSG00000162576	ENSG00000162576		"Immunoglobulin superfamily / V-set domain containing"	7542	protein-coding gene	gene with protein product	"limitrin"					14603461	Standard	XM_005244758		Approved	DKFZp586E2023	uc001aew.3	Q9BRK3	OTTHUMG00000002973	ENST00000309212.6:c.603T>C	1.37:g.1290408A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KTR6|B4DE34|Q5TA39|Q96KC3	Silent	SNP	ENST00000309212.6	37	CCDS24.1																																																																																				0.751	MXRA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008282.2	NM_032348		G	1290408	A	G	1290408	2	3	636	1	0	0	0	0	0	0	0	1	10012	291	11	3		3	MXRA8	1	1290408	Silent	SNP	A	TCGA-KL-8337-01A-11D-2310-10		1290408	247960213	1	39218										
NT5C1A	84618	broad.mit.edu	37	chr1	40124870	40124870	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	accataaggcacatgggcggCcacagtgcccatctcctgag	11	14	1	1			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr1:40124870C>A	ENST00000235628.1	-	6	1029	c.1030G>T	c.(1030-1032)Gcc>Tcc	p.A344S		NM_032526.1	NP_115915.1	Q9BXI3	5NT1A_HUMAN	5'-nucleotidase, cytosolic IA	344					adenosine metabolic process (GO:0046085)|dephosphorylation (GO:0016311)|nucleobase-containing small molecule metabolic process (GO:0055086)|nucleoside metabolic process (GO:0009116)|purine nucleobase metabolic process (GO:0006144)|purine nucleoside monophosphate catabolic process (GO:0009128)|purine nucleotide catabolic process (GO:0006195)|pyrimidine nucleobase metabolic process (GO:0006206)|pyrimidine nucleoside catabolic process (GO:0046135)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	5'-nucleotidase activity (GO:0008253)|magnesium ion binding (GO:0000287)|nucleotide binding (GO:0000166)			breast(1)|large_intestine(3)|lung(7)|ovary(2)|prostate(2)	15	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)			ACATGGGCGGCCACAGTGCCC	0.597																																																0													60	63	62					1																	40124870		2203	4300	6503	SO:0001583	missense	84618			AF331801	CCDS440.1	1p34.3-p33	2008-07-18			ENSG00000116981	ENSG00000116981			17819	protein-coding gene	gene with protein product	"cytosolic 5' nucleotidase, type 1A", "AMP-specific 5'-NT", "cytosolic 5'-nucleotidase IA"	610525				11133996, 11690631	Standard	NM_032526		Approved	CN-I, CN-IA, CN1A, CN1, MGC119199, MGC119201	uc001cdq.1	Q9BXI3	OTTHUMG00000009244	ENST00000235628.1:c.1030G>T	1.37:g.40124870C>A	ENSP00000235628:p.Ala344Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q3SYB9|Q5TG98|Q9BWT8	Missense_Mutation	SNP	ENST00000235628.1	37	CCDS440.1	.	.	.	.	.	.	.	.	.	.	C	25.0	4.588502	0.86851	.	.	ENSG00000116981	ENST00000235628	.	.	.	5.44	5.44	0.79542	.	0.000000	0.85682	D	0.000000	T	0.46776	0.1410	N	0.20807	0.61	0.80722	D	1	P	0.39551	0.678	B	0.41619	0.361	T	0.32322	-0.9911	9	0.10902	T	0.67	0.0215	19.6491	0.95794	0.0:1.0:0.0:0.0	.	344	Q9BXI3	5NT1A_HUMAN	S	344	.	ENSP00000235628:A344S	A	-	1	0	NT5C1A	39897457	1.000000	0.71417	0.999000	0.59377	0.774000	0.43823	7.792000	0.85828	2.726000	0.93360	0.655000	0.94253	GCC		0.597	NT5C1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025626.1	NM_032526		A	40124870	C	A	40124870	3	1	636	1	0	0	0	0	1	0	0	0	10692	739	26	4	80	4	NT5C1A	1	40124870	Missense_Mutation	SNP	C	TCGA-KL-8337-01A-11D-2310-10	38834462	40124870	209125751	2	39219										
LPPR5	163404	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr1	99418744	99418744	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	cttccccactgatgaattgtGtatactgctgacatccaagt	7	11	0	3			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr1:99418744G>A	ENST00000263177.4	-	3	724	c.503C>T	c.(502-504)aCa>aTa	p.T168I	LPPR5_ENST00000370188.3_Missense_Mutation_p.T168I	NM_001037317.1	NP_001032394.1	Q32ZL2	LPPR5_HUMAN		168						integral component of membrane (GO:0016021)	hydrolase activity (GO:0016787)										GATGAATTGTGTATACTGCTG	0.463																																																0													122	110	114					1																	99418744		2203	4300	6503	SO:0001583	missense	0																														ENST00000263177.4:c.503C>T	1.37:g.99418744G>A	ENSP00000263177:p.Thr168Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8MPX4|B7UCH3|Q32ZD0|Q3ZCU7	Missense_Mutation	SNP	ENST00000263177.4	37	CCDS30778.1	.	.	.	.	.	.	.	.	.	.	G	8.713	0.912415	0.17907	.	.	ENSG00000117598	ENST00000370188;ENST00000263177	T;T	0.41065	1.01;1.01	4.7	4.7	0.59300	.	0.140387	0.49305	D	0.000157	T	0.14700	0.0355	N	0.11000	0.08	0.35912	D	0.831142	B;B	0.21821	0.05;0.061	B;B	0.22152	0.022;0.038	T	0.04320	-1.0960	10	0.36615	T	0.2	.	16.9952	0.86365	0.0:0.0:1.0:0.0	.	168;168	Q32ZL2-2;Q32ZL2	.;LPPR5_HUMAN	I	168	ENSP00000359207:T168I;ENSP00000263177:T168I	ENSP00000263177:T168I	T	-	2	0	AL161744.1	99191332	0.970000	0.33590	1.000000	0.80357	0.828000	0.46876	3.609000	0.54117	2.300000	0.77407	0.655000	0.94253	ACA		0.463	LPPR5-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000393221.1			A	99418744	G	A	99418744	3	1	636	1	0	0	0	0	1	0	0	0	8935	1377	48	2	478	2	LPPR5	1	99418744	Missense_Mutation	SNP	G	TCGA-KL-8337-01A-11D-2310-10	59293874	99418744	149831877	3	39220										
DCST2	127579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	155002604	155002604	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	cgtgagcactgagcggtagcActgtgggcagccctgccgtg	16	12	0	2			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr1:155002604A>G	ENST00000368424.3	-	7	1191	c.1133T>C	c.(1132-1134)gTg>gCg	p.V378A	DCST2_ENST00000295536.5_Missense_Mutation_p.V378A	NM_144622.2	NP_653223.2	Q5T1A1	DCST2_HUMAN	DC-STAMP domain containing 2	378						integral component of membrane (GO:0016021)				breast(1)|central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(10)|lung(13)|ovary(3)|prostate(1)|skin(1)	38	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)			GAGCGGTAGCACTGTGGGCAG	0.622																																																0													85	84	84					1																	155002604		2203	4300	6503	SO:0001583	missense	127579			AK057496	CCDS1082.2	1q22	2008-02-05		2005-08-09	ENSG00000163354	ENSG00000163354			26562	protein-coding gene	gene with protein product							Standard	NM_144622		Approved	FLJ32934	uc001fgm.3	Q5T1A1	OTTHUMG00000037371	ENST00000368424.3:c.1133T>C	1.37:g.155002604A>G	ENSP00000357409:p.Val378Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M2R2|Q8N810|Q96M03	Missense_Mutation	SNP	ENST00000368424.3	37	CCDS1082.2	.	.	.	.	.	.	.	.	.	.	A	17.88	3.497713	0.64186	.	.	ENSG00000163354	ENST00000368424;ENST00000295536	T;T	0.35421	1.31;1.31	4.68	3.54	0.40534	Dendritic cell-specific transmembrane protein-like (1);	0.085942	0.44902	D	0.000406	T	0.38026	0.1025	L	0.55481	1.735	0.38624	D	0.951212	D	0.76494	0.999	D	0.72625	0.978	T	0.29640	-1.0005	10	0.52906	T	0.07	-21.6605	8.4994	0.33148	0.8267:0.0:0.0:0.1733	.	378	Q5T1A1	DCST2_HUMAN	A	378	ENSP00000357409:V378A;ENSP00000295536:V378A	ENSP00000295536:V378A	V	-	2	0	DCST2	153269228	1.000000	0.71417	0.987000	0.45799	0.784000	0.44337	3.656000	0.54467	0.790000	0.33803	0.533000	0.62120	GTG		0.622	DCST2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090953.3	NM_144622		G	155002604	A	G	155002604	3	3	636	1	0	0	0	0	1	0	0	0	4305	159	6	3	1224	3	DCST2	1	155002604	Missense_Mutation	SNP	A	TCGA-KL-8337-01A-11D-2310-10	55583860	155002604	94248017	4	39221										
SH2D2A	9047	broad.mit.edu	37	chr1	156777068	156777069	+	Frame_Shift_Ins	INS	-	-	T													0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	tgtctccaggcgggtgggggINSctggtggggcaggggagggc							TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr1:156777068_156777069insT	ENST00000368199.3	-	8	1224_1225	c.1071_1072insA	c.(1069-1074)cagcccfs	p.P358fs	SH2D2A_ENST00000368198.3_Frame_Shift_Ins_p.P340fs|SH2D2A_ENST00000392306.2_Frame_Shift_Ins_p.P368fs	NM_001161443.1|NM_001161444.1|NM_003975.3	NP_001154915.1|NP_001154916.1|NP_003966.2	Q9NP31	SH22A_HUMAN	SH2 domain containing 2A	358	Pro-rich.				angiogenesis (GO:0001525)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|positive regulation of signal transduction (GO:0009967)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)	SH3/SH2 adaptor activity (GO:0005070)			endometrium(1)|large_intestine(2)|lung(15)	18	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GCGGGTGGGGGCTGGTGGGGCA	0.599																																																0																																										SO:0001589	frameshift_variant	9047			AJ000553	CCDS1159.1, CCDS53380.1, CCDS53381.1	1q21	2013-02-14	2010-04-21		ENSG00000027869	ENSG00000027869		"SH2 domain containing"	10821	protein-coding gene	gene with protein product	"T lymphocyte specific adaptor protein", "T cell specific adapter protein TSAd", "T cell specific adpater protein TSAd"	604514	"SH2 domain protein 2A"			9468509	Standard	NM_003975		Approved	TSAd, F2771	uc009wsh.2	Q9NP31	OTTHUMG00000041305	ENST00000368199.3:c.1071_1072insA	1.37:g.156777068_156777069insT	ENSP00000357182:p.Pro358fs	Somatic		WXS	Illumina HiSeq	Phase_I	O43817|Q5UBZ1|Q5VZS4|Q5VZS5|Q9UPA7	Frame_Shift_Ins	INS	ENST00000368199.3	37	CCDS1159.1																																																																																				0.599	SH2D2A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000098982.1	NM_003975		T	156777069	-	T	156777068	7	5	636	1	0	1	1	0	0	0	0	0	14245	1203	42	0	101	0	SH2D2A	1	156777068	Frame_Shift_Ins	INS	-	TCGA-KL-8337-01A-11D-2310-10	1774464	156777068	92473553	5	39222										
SPTA1	6708	ucsc.edu;bcgsc.ca	37	chr1	158641982	158641982	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	tccagttgttgtcaagtattTccatctttggaaagaaggag	10	6	2	1			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr1:158641982T>C	ENST00000368147.4	-	11	1535	c.1355A>G	c.(1354-1356)gAa>gGa	p.E452G		NM_003126.2	NP_003117.2	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	452					actin filament capping (GO:0051693)|actin filament organization (GO:0007015)|axon guidance (GO:0007411)|hemopoiesis (GO:0030097)|lymphocyte homeostasis (GO:0002260)|plasma membrane organization (GO:0007009)|porphyrin-containing compound biosynthetic process (GO:0006779)|positive regulation of protein binding (GO:0032092)|positive regulation of T cell proliferation (GO:0042102)|regulation of cell shape (GO:0008360)	actin cytoskeleton (GO:0015629)|cuticular plate (GO:0032437)|cytosol (GO:0005829)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)|spectrin (GO:0008091)|spectrin-associated cytoskeleton (GO:0014731)	actin filament binding (GO:0051015)|calcium ion binding (GO:0005509)|structural constituent of cytoskeleton (GO:0005200)			NS(3)|breast(7)|cervix(1)|endometrium(22)|kidney(9)|large_intestine(29)|liver(2)|lung(183)|ovary(5)|prostate(18)|skin(11)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(9)|urinary_tract(6)	307	all_hematologic(112;0.0378)					GTCAAGTATTTCCATCTTTGG	0.363																																																0													85	77	79					1																	158641982		1877	4122	5999	SO:0001583	missense	6708			M61877	CCDS41423.1	1q21	2014-06-23	2014-06-23		ENSG00000163554	ENSG00000163554		"EF-hand domain containing"	11272	protein-coding gene	gene with protein product	"elliptocytosis 2"	182860	"spectrin, alpha, erythrocytic 1 (elliptocytosis 2)"				Standard	NM_003126		Approved	EL2	uc001fst.1	P02549	OTTHUMG00000019636	ENST00000368147.4:c.1355A>G	1.37:g.158641982T>C	ENSP00000357129:p.Glu452Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q15514|Q5VYL1|Q5VYL2|Q6LDY5	Missense_Mutation	SNP	ENST00000368147.4	37	CCDS41423.1	.	.	.	.	.	.	.	.	.	.	T	9.975	1.226664	0.22542	.	.	ENSG00000163554	ENST00000368148;ENST00000368147	T;T	0.36699	1.24;1.24	5.24	-2.0	0.07433	.	1.622580	0.04359	N	0.357116	T	0.08670	0.0215	N	0.20986	0.625	0.80722	D	1	B	0.02656	0.0	B	0.09377	0.004	T	0.37314	-0.9711	10	0.23891	T	0.37	.	6.0076	0.19554	0.0654:0.1029:0.3444:0.4873	.	452	P02549	SPTA1_HUMAN	G	452	ENSP00000357130:E452G;ENSP00000357129:E452G	ENSP00000357129:E452G	E	-	2	0	SPTA1	156908606	0.001000	0.12720	0.000000	0.03702	0.172000	0.22775	0.236000	0.17967	-0.560000	0.06102	-1.106000	0.02097	GAA		0.363	SPTA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051851.3	NM_003126		C	158641982	T	C	158641982	3	2	636	1	0	0	0	0	1	0	0	0	15128	1783	62	3	6072	3	SPTA1	1	158641982	Missense_Mutation	SNP	T	TCGA-KL-8337-01A-11D-2310-10	1864914	158641982	90608639	6	39223										
ADAMTS4	9507	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	161161010	161161010	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	gccagtcctggggagtggggCgtggcgttgaaggggtcggc	22	8	0	1	rs148170603		TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr1:161161010C>T	ENST00000367996.5	-	9	2860	c.2432G>A	c.(2431-2433)cGc>cAc	p.R811H	ADAMTS4_ENST00000478394.1_5'Flank	NM_005099.4	NP_005090.3	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 4	811	Spacer.				defense response to bacterium (GO:0042742)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|proteolysis (GO:0006508)|skeletal system development (GO:0001501)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|peptidase activity (GO:0008233)|protease binding (GO:0002020)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(20)|ovary(4)|prostate(3)|skin(1)|urinary_tract(1)	43	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)		Tinzaparin(DB06822)	GGGAGTGGGGCGTGGCGTTGA	0.647																																																0								C	HIS/ARG	1,4405	2.1+/-5.4	0,1,2202	38	37	37		2432	1.8	0	1	dbSNP_134	37	0,8600		0,0,4300	no	missense	ADAMTS4	NM_005099.4	29	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging	811/838	161161010	1,13005	2203	4300	6503	SO:0001583	missense	9507			AB014588	CCDS1223.1	1q31-q32	2008-02-05	2005-08-19		ENSG00000158859	ENSG00000158859		"ADAM metallopeptidases with thrombospondin type 1 motif"	220	protein-coding gene	gene with protein product		603876	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 4"			10094461	Standard	NM_005099		Approved	KIAA0688, ADAMTS-2, ADMP-1	uc001fyt.4	O75173	OTTHUMG00000034349	ENST00000367996.5:c.2432G>A	1.37:g.161161010C>T	ENSP00000356975:p.Arg811His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VTW2|Q6P4Q8|Q6UWA8|Q9UN83	Missense_Mutation	SNP	ENST00000367996.5	37	CCDS1223.1	.	.	.	.	.	.	.	.	.	.	C	8.713	0.912622	0.17907	2.27E-4	0.0	ENSG00000158859	ENST00000367996	T	0.62639	0.01	4.62	1.75	0.24633	.	0.522526	0.18210	N	0.148239	T	0.23370	0.0565	N	0.24115	0.695	0.32533	N	0.534718	P	0.36027	0.533	B	0.29176	0.099	T	0.02173	-1.1201	10	0.45353	T	0.12	.	9.1087	0.36714	0.0:0.7543:0.0:0.2457	.	811	O75173	ATS4_HUMAN	H	811	ENSP00000356975:R811H	ENSP00000356975:R811H	R	-	2	0	ADAMTS4	159427634	0.012000	0.17670	0.003000	0.11579	0.372000	0.29890	0.829000	0.27449	0.289000	0.22422	-0.234000	0.12200	CGC		0.647	ADAMTS4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083066.2	NM_005099		T	161161010	C	T	161161010	3	4	636	1	0	0	0	0	1	0	0	0	268	768	27	1	85	1	ADAMTS4	1	161161010	Missense_Mutation	SNP	C	TCGA-KL-8337-01A-11D-2310-10	2519028	161161010	88089611	7	39224										
RGS16	6004	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	182572462	182572462	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	aagatccccagacgtgtcttGaactctttggctctgaaaaa	8	10	3	4			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr1:182572462G>T	ENST00000367558.5	-	2	205	c.57C>A	c.(55-57)ttC>ttA	p.F19L		NM_002928.3	NP_002919.3	O15492	RGS16_HUMAN	regulator of G-protein signaling 16	19					positive regulation of GTPase activity (GO:0043547)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|termination of G-protein coupled receptor signaling pathway (GO:0038032)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	calmodulin binding (GO:0005516)|GTPase activator activity (GO:0005096)			NS(1)|endometrium(3)|large_intestine(2)|lung(4)|ovary(1)	11						GACGTGTCTTGAACTCTTTGG	0.483																																																0													129	117	121					1																	182572462		2203	4300	6503	SO:0001583	missense	6004			U70426	CCDS1348.1	1q25-q31	2008-02-05	2007-08-14		ENSG00000143333	ENSG00000143333		"Regulators of G-protein signaling"	9997	protein-coding gene	gene with protein product		602514	"regulator of G-protein signalling 16"			9469939	Standard	NM_002928		Approved	A28-RGS14, RGS-r	uc001gpl.4	O15492	OTTHUMG00000035212	ENST00000367558.5:c.57C>A	1.37:g.182572462G>T	ENSP00000356529:p.Phe19Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4M4|Q5VYN9|Q99701	Missense_Mutation	SNP	ENST00000367558.5	37	CCDS1348.1	.	.	.	.	.	.	.	.	.	.	G	7.895	0.733217	0.15574	.	.	ENSG00000143333	ENST00000367558	T	0.52057	0.68	5.25	4.31	0.51392	.	0.388578	0.29684	N	0.011467	T	0.28995	0.0720	N	0.12637	0.245	0.27994	N	0.935533	B;B	0.12013	0.005;0.0	B;B	0.11329	0.006;0.003	T	0.12066	-1.0562	10	0.20046	T	0.44	.	13.1514	0.59492	0.0:0.3075:0.6925:0.0	.	19;19	B4DVW5;O15492	.;RGS16_HUMAN	L	19	ENSP00000356529:F19L	ENSP00000356529:F19L	F	-	3	2	RGS16	180839085	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	1.166000	0.31834	1.158000	0.42547	0.561000	0.74099	TTC		0.483	RGS16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085188.1	NM_002928		T	182572462	G	T	182572462	3	4	636	1	0	0	0	0	1	0	0	0	13311	1281	45	4	567	4	RGS16	1	182572462	Missense_Mutation	SNP	G	TCGA-KL-8337-01A-11D-2310-10	21411452	182572462	66678159	8	39225										
OR6F1	343169	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	247875280	247875280	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	atctttgatagaggtgcggaCgtgaaggaaaactgtggacc	14	6	1	3	rs145498993		TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr1:247875280C>T	ENST00000302084.2	-	1	825	c.778G>A	c.(778-780)Gtc>Atc	p.V260I	RP11-634B7.4_ENST00000449298.1_RNA	NM_001005286.1	NP_001005286.1	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F, member 1	260						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|kidney(1)|large_intestine(5)|lung(34)|skin(2)|stomach(2)|upper_aerodigestive_tract(2)	47	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;0.0168)			GAGGTGCGGACGTGAAGGAAA	0.532																																																0								C	ILE/VAL	0,4406		0,0,2203	99	95	96		778	1.7	0	1	dbSNP_134	96	1,8599	2.2+/-6.3	0,1,4299	no	missense	OR6F1	NM_001005286.1	29	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign	260/309	247875280	1,13005	2203	4300	6503	SO:0001583	missense	343169			BK004460	CCDS31095.1	1q44	2012-08-09			ENSG00000169214	ENSG00000169214		"GPCR / Class A : Olfactory receptors"	15027	protein-coding gene	gene with protein product							Standard	NM_001005286		Approved	OST731	uc001idj.1	Q8NGZ6	OTTHUMG00000040213	ENST00000302084.2:c.778G>A	1.37:g.247875280C>T	ENSP00000305640:p.Val260Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNV6|Q6IF02|Q96R39	Missense_Mutation	SNP	ENST00000302084.2	37	CCDS31095.1	.	.	.	.	.	.	.	.	.	.	C	2.854	-0.237700	0.05944	0.0	1.16E-4	ENSG00000169214	ENST00000302084	T	0.36699	1.24	3.72	1.72	0.24424	GPCR, rhodopsin-like superfamily (1);	0.185901	0.25922	N	0.027428	T	0.22437	0.0541	L	0.28694	0.88	0.09310	N	1	B	0.17852	0.024	B	0.17098	0.017	T	0.23048	-1.0199	10	0.18276	T	0.48	-23.4907	8.8577	0.35238	0.0:0.535:0.3724:0.0926	.	260	Q8NGZ6	OR6F1_HUMAN	I	260	ENSP00000305640:V260I	ENSP00000305640:V260I	V	-	1	0	OR6F1	245941903	0.000000	0.05858	0.001000	0.08648	0.002000	0.02628	-2.433000	0.01021	0.025000	0.15241	-1.094000	0.02160	GTC		0.532	OR6F1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096870.1	NM_001005286		T	247875280	C	T	247875280	3	4	636	1	0	0	0	0	1	0	0	0	11208	536	19	1	152	1	OR6F1	1	247875280	Missense_Mutation	SNP	C	TCGA-KL-8337-01A-11D-2310-10	65302818	247875280	1375341	9	39226										
USP34	9736	broad.mit.edu	37	chr2	61415632	61415632	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	cgaagatggaacttccattcGgtattctttaacagaactat	7	8	1	2			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr2:61415632G>T	ENST00000398571.2	-	80	10322	c.10246C>A	c.(10246-10248)Cga>Aga	p.R3416R	AHSA2_ENST00000394457.3_3'UTR	NM_014709.3	NP_055524.3	Q70CQ2	UBP34_HUMAN	ubiquitin specific peptidase 34	3416					positive regulation of canonical Wnt signaling pathway (GO:0090263)|protein deubiquitination (GO:0016579)|protein K48-linked deubiquitination (GO:0071108)|ubiquitin-dependent protein catabolic process (GO:0006511)|Wnt signaling pathway (GO:0016055)		cysteine-type endopeptidase activity (GO:0004197)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			autonomic_ganglia(1)|breast(14)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(24)|lung(52)|ovary(8)|prostate(10)|skin(6)|urinary_tract(2)	138			Epithelial(17;0.229)			ACTTCCATTCGGTATTCTTTA	0.403																																																0													105	97	99					2																	61415632		1906	4136	6042	SO:0001819	synonymous_variant	9736			AB011142	CCDS42686.1	2p16.1-p15	2005-08-08	2005-08-08		ENSG00000115464	ENSG00000115464		"Ubiquitin-specific peptidases"	20066	protein-coding gene	gene with protein product		615295	"ubiquitin specific protease 34"			12838346	Standard	NM_014709		Approved	KIAA0570, KIAA0729	uc002sbe.3	Q70CQ2	OTTHUMG00000152265	ENST00000398571.2:c.10246C>A	2.37:g.61415632G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MWD0|B3KWU9|O60316|O94834|Q3B777|Q6P6C9|Q7L8P6|Q8N3T9|Q8TBW2|Q9UGA1	Silent	SNP	ENST00000398571.2	37	CCDS42686.1	.	.	.	.	.	.	.	.	.	.	.	2.169	-0.390428	0.04932	.	.	ENSG00000115464	ENST00000411912	.	.	.	5.52	0.617	0.17619	.	.	.	.	.	T	0.68540	0.3012	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.68194	-0.5473	4	.	.	.	.	15.2903	0.73862	0.0:0.0:0.3806:0.6194	.	.	.	.	Q	1092	.	.	P	-	2	0	USP34	61269136	1.000000	0.71417	0.986000	0.45419	0.766000	0.43426	2.414000	0.44627	0.294000	0.22547	0.591000	0.81541	CCG		0.403	USP34-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000325650.4			T	61415632	G	T	61415632	2	4	636	1	0	0	0	0	0	0	0	1	17077	1124	39	4		4	USP34	2	61415632	Silent	SNP	G	TCGA-KL-8337-01A-11D-2310-10		61415632	181783741	10	39227										
C2orf78	388960	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	74043649	74043649	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	ctcaatcgaatgcagtcaatCcatcccgaccagctcctacc	5	17	2	0			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr2:74043649C>A	ENST00000409561.1	+	3	2420	c.2299C>A	c.(2299-2301)Cca>Aca	p.P767T		NM_001080474.1	NP_001073943.1	A6NCI8	CB078_HUMAN	chromosome 2 open reading frame 78	767										cervix(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(21)|ovary(2)|prostate(2)|soft_tissue(1)|urinary_tract(1)	34						TGCAGTCAATCCATCCCGACC	0.542																																																0													109	114	112					2																	74043649		2119	4237	6356	SO:0001583	missense	388960			AC092653, AC136006, AK125975	CCDS46338.1	2p13.2	2008-07-18			ENSG00000187833	ENSG00000187833			34349	protein-coding gene	gene with protein product							Standard	NM_001080474		Approved	FLJ43987, hCG1989538, COG5373	uc002sjr.1	A6NCI8	OTTHUMG00000152819	ENST00000409561.1:c.2299C>A	2.37:g.74043649C>A	ENSP00000387124:p.Pro767Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000409561.1	37	CCDS46338.1	.	.	.	.	.	.	.	.	.	.	C	11.68	1.709494	0.30322	.	.	ENSG00000187833	ENST00000409561;ENST00000342345	T	0.44482	0.92	5.23	-1.87	0.07737	.	0.889887	0.09394	N	0.808096	T	0.31638	0.0803	L	0.59436	1.845	0.09310	N	1	P	0.38078	0.617	B	0.30855	0.121	T	0.24190	-1.0167	10	0.87932	D	0	0.0072	5.999	0.19509	0.0:0.4846:0.2746:0.2408	.	767	A6NCI8	CB078_HUMAN	T	767;737	ENSP00000387124:P767T	ENSP00000340692:P737T	P	+	1	0	C2orf78	73897157	0.000000	0.05858	0.000000	0.03702	0.014000	0.08584	-1.473000	0.02339	-0.235000	0.09767	0.563000	0.77884	CCA		0.542	C2orf78-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000328083.1	NM_001080474		A	74043649	C	A	74043649	3	1	636	1	0	0	0	0	1	0	0	0	2197	855	30	4	2309	4	C2orf78	2	74043649	Missense_Mutation	SNP	C	TCGA-KL-8337-01A-11D-2310-10	12628017	74043649	169155724	11	39228										
DAZL	1618	broad.mit.edu;mdanderson.org	37	chr3	16633629	16633629	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	ttaaacagacaagataccacCgtttgtatgcttcggtccac	7	11	0	2			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr3:16633629C>T	ENST00000399444.2	-	10	1055	c.762G>A	c.(760-762)acG>acA	p.T254T	DAZL_ENST00000250863.8_Silent_p.T274T	NM_001351.3	NP_001342.2	Q92904	DAZL_HUMAN	deleted in azoospermia-like	254					female meiosis II (GO:0007147)|germ cell development (GO:0007281)|multicellular organismal development (GO:0007275)|oocyte maturation (GO:0001556)|positive regulation of meiosis (GO:0045836)|positive regulation of translational initiation (GO:0045948)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|polysome (GO:0005844)	mRNA 3'-UTR binding (GO:0003730)|nucleotide binding (GO:0000166)|RNA binding (GO:0003723)|translation activator activity (GO:0008494)	p.T254T(1)	RAF1/DAZL(2)	endometrium(1)|large_intestine(3)|lung(4)|prostate(3)	11						AAGATACCACCGTTTGTATGC	0.363																																																1	Substitution - coding silent(1)	lung(1)											239	241	241					3																	16633629		2203	4300	6503	SO:0001819	synonymous_variant	1618			BC027595	CCDS43059.1, CCDS54556.1	3p24	2013-02-12			ENSG00000092345	ENSG00000092345		"RNA binding motif (RRM) containing"	2685	protein-coding gene	gene with protein product		601486		DAZLA		8896558	Standard	NM_001351		Approved	DAZH, SPGYLA, MGC26406, DAZL1	uc003cbb.3	Q92904	OTTHUMG00000157050	ENST00000399444.2:c.762G>A	3.37:g.16633629C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O15396|Q5HYB4|Q92909	Silent	SNP	ENST00000399444.2	37	CCDS43059.1																																																																																				0.363	DAZL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347261.2	NM_001351		T	16633629	C	T	16633629	2	4	636	1	0	0	0	0	0	0	0	1	4248	639	23	1		1	DAZL	3	16633629	Silent	SNP	C	TCGA-KL-8337-01A-11D-2310-10		16633629	181388801	12	39229										
SETD2	29072	broad.mit.edu	37	chr3	47162042	47162042	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	ttgcactgaccccttgtcttTctgaagggatagaagaaatt	9	8	2	4			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr3:47162042T>C	ENST00000409792.3	-	3	4126	c.4084A>G	c.(4084-4086)Aaa>Gaa	p.K1362E		NM_014159.6	NP_054878.5	Q9BYW2	SETD2_HUMAN	SET domain containing 2	1362					angiogenesis (GO:0001525)|cell migration involved in vasculogenesis (GO:0035441)|coronary vasculature morphogenesis (GO:0060977)|embryonic cranial skeleton morphogenesis (GO:0048701)|embryonic placenta morphogenesis (GO:0060669)|forebrain development (GO:0030900)|histone H3-K36 trimethylation (GO:0097198)|mesoderm morphogenesis (GO:0048332)|mismatch repair (GO:0006298)|morphogenesis of a branching structure (GO:0001763)|neural tube closure (GO:0001843)|nucleosome organization (GO:0034728)|pericardium development (GO:0060039)|regulation of mRNA export from nucleus (GO:0010793)|regulation of transcription, DNA-templated (GO:0006355)|stem cell development (GO:0048864)|transcription elongation from RNA polymerase II promoter (GO:0006368)	chromosome (GO:0005694)|nucleus (GO:0005634)	histone-lysine N-methyltransferase activity (GO:0018024)			breast(6)|central_nervous_system(5)|endometrium(4)|kidney(63)|large_intestine(18)|lung(26)|ovary(6)|prostate(2)|skin(3)|soft_tissue(1)|stomach(2)|urinary_tract(5)	141		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		CCCTTGTCTTTCTGAAGGGAT	0.383			"N, F, S, Mis"		clear cell renal carcinoma																																		Rec	yes		3	3p21.31	29072	SET domain containing 2		E	0													66	70	68					3																	47162042		2203	4300	6503	SO:0001583	missense	29072			AJ238403	CCDS2749.2	3p21.31	2014-09-17			ENSG00000181555	ENSG00000181555		"Chromatin-modifying enzymes / K-methyltransferases"	18420	protein-coding gene	gene with protein product		612778				16118227, 11461154	Standard	NM_014159		Approved	HYPB, HIF-1, KIAA1732, FLJ23184, KMT3A	uc003cqs.3	Q9BYW2	OTTHUMG00000133514	ENST00000409792.3:c.4084A>G	3.37:g.47162042T>C	ENSP00000386759:p.Lys1362Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O75397|O75405|Q17RW8|Q5BKS9|Q5QGN2|Q69YI5|Q6IN64|Q6ZN53|Q6ZS25|Q8N3R0|Q8TCN0|Q9C0D1|Q9H696|Q9NZW9	Missense_Mutation	SNP	ENST00000409792.3	37	CCDS2749.2	.	.	.	.	.	.	.	.	.	.	T	11.82	1.752143	0.31046	.	.	ENSG00000181555	ENST00000451092;ENST00000543224;ENST00000409792;ENST00000412450	D;T	0.89050	-2.46;1.39	5.32	4.15	0.48705	.	0.095949	0.45126	D	0.000397	T	0.79387	0.4437	N	0.24115	0.695	0.28142	N	0.929768	B;B	0.27229	0.085;0.172	B;B	0.22386	0.026;0.039	T	0.72308	-0.4332	10	0.66056	D	0.02	.	7.1006	0.25336	0.0:0.0736:0.1495:0.7769	.	1362;1362	F2Z317;Q9BYW2	.;SETD2_HUMAN	E	1362;1362;1362;1318	ENSP00000386759:K1362E;ENSP00000416401:K1318E	ENSP00000386759:K1362E	K	-	1	0	SETD2	47137046	0.567000	0.26626	1.000000	0.80357	0.737000	0.42083	1.203000	0.32284	1.011000	0.39340	0.460000	0.39030	AAA		0.383	SETD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257479.2	NM_014159		C	47162042	T	C	47162042	3	2	636	1	0	0	0	0	1	0	0	0	14144	1792	62	3	3686	3	SETD2	3	47162042	Missense_Mutation	SNP	T	TCGA-KL-8337-01A-11D-2310-10	30528413	47162042	150860388	13	39230										
TMEM108	66000	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	133099424	133099424	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	agcccaggggggtggttctaCcttcaccagccaaggaggga	15	11	2	0			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr3:133099424C>A	ENST00000321871.6	+	4	1079	c.869C>A	c.(868-870)aCc>aAc	p.T290N	TMEM108_ENST00000393130.3_Missense_Mutation_p.T290N|TMEM108_ENST00000515826.1_Missense_Mutation_p.T290N|TMEM108_ENST00000508711.1_Intron	NM_001136469.1|NM_023943.2	NP_001129941.1|NP_076432.1	Q6UXF1	TM108_HUMAN	transmembrane protein 108	290						integral component of membrane (GO:0016021)				endometrium(3)|kidney(1)|large_intestine(5)|lung(22)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	38						GGTGGTTCTACCTTCACCAGC	0.647																																																0													37	35	36					3																	133099424		2203	4300	6503	SO:0001583	missense	66000			AL136578	CCDS33858.1, CCDS75012.1	3q22.1	2014-04-07			ENSG00000144868	ENSG00000144868			28451	protein-coding gene	gene with protein product	"cancer/testis antigen 124"					11214970	Standard	XM_005247726		Approved	MGC3040, CT124	uc003epi.3	Q6UXF1	OTTHUMG00000159685	ENST00000321871.6:c.869C>A	3.37:g.133099424C>A	ENSP00000324651:p.Thr290Asn	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNC9|Q9BQH1|Q9BW81|Q9C0H3	Missense_Mutation	SNP	ENST00000321871.6	37	CCDS33858.1	.	.	.	.	.	.	.	.	.	.	C	8.898	0.955594	0.18507	.	.	ENSG00000144868	ENST00000321871;ENST00000393130;ENST00000515826	T;T;T	0.46451	0.89;0.89;0.87	3.84	1.87	0.25490	.	0.837931	0.10125	N	0.712876	T	0.34337	0.0894	L	0.51422	1.61	0.09310	N	1	B;B	0.11235	0.004;0.002	B;B	0.12156	0.007;0.002	T	0.28364	-1.0046	10	0.33141	T	0.24	-1.9903	6.0362	0.19708	0.3953:0.5047:0.0:0.0999	.	290;290	E9PB58;Q6UXF1	.;TM108_HUMAN	N	290	ENSP00000324651:T290N;ENSP00000376838:T290N;ENSP00000423338:T290N	ENSP00000324651:T290N	T	+	2	0	TMEM108	134582114	0.001000	0.12720	0.001000	0.08648	0.257000	0.26127	1.219000	0.32479	0.298000	0.22638	0.561000	0.74099	ACC		0.647	TMEM108-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356907.2	NM_023943		A	133099424	C	A	133099424	3	1	636	1	0	0	0	0	1	0	0	0	16036	507	18	4	875	4	TMEM108	3	133099424	Missense_Mutation	SNP	C	TCGA-KL-8337-01A-11D-2310-10	85937382	133099424	64923006	14	39231										
FAM43A	131583	broad.mit.edu	37	chr3	194407863	194407863	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	ctggagcaagagcgaggcggGccgtcagggcaccaagatga	17	10	1	3			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr3:194407863G>T	ENST00000329759.4	+	1	1242	c.308G>T	c.(307-309)gGc>gTc	p.G103V		NM_153690.4	NP_710157.2	Q8N2R8	FA43A_HUMAN	family with sequence similarity 43, member A	103										breast(2)|central_nervous_system(1)|lung(6)|skin(1)	10	all_cancers(143;2.04e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.147)	OV - Ovarian serous cystadenocarcinoma(49;8.37e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;1.78e-05)		AGCGAGGCGGGCCGTCAGGGC	0.682																																																0													40	39	39					3																	194407863		2203	4299	6502	SO:0001583	missense	131583			AK074503	CCDS33923.1	3q29	2004-07-28			ENSG00000185112	ENSG00000185112			26888	protein-coding gene	gene with protein product						12477932	Standard	NM_153690		Approved	FLJ90022	uc003fuj.3	Q8N2R8	OTTHUMG00000156016	ENST00000329759.4:c.308G>T	3.37:g.194407863G>T	ENSP00000371397:p.Gly103Val	Somatic		WXS	Illumina HiSeq	Phase_I	A3KME2|Q8IXP4|Q8WZ07	Missense_Mutation	SNP	ENST00000329759.4	37	CCDS33923.1	.	.	.	.	.	.	.	.	.	.	G	26.4	4.736427	0.89482	.	.	ENSG00000185112	ENST00000329759	T	0.66638	-0.22	5.16	5.16	0.70880	Pleckstrin homology-type (1);	0.000000	0.85682	D	0.000000	T	0.81014	0.4735	M	0.65975	2.015	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.83152	-0.0103	10	0.87932	D	0	-26.1764	17.6527	0.88169	0.0:0.0:1.0:0.0	.	103	Q8N2R8	FA43A_HUMAN	V	103	ENSP00000371397:G103V	ENSP00000371397:G103V	G	+	2	0	FAM43A	195889152	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.316000	0.96319	2.403000	0.81681	0.455000	0.32223	GGC		0.682	FAM43A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342734.1	NM_153690		T	194407863	G	T	194407863	3	4	636	1	0	0	0	0	1	0	0	0	5569	1203	42	4	310	4	FAM43A	3	194407863	Missense_Mutation	SNP	G	TCGA-KL-8337-01A-11D-2310-10	61308439	194407863	3614567	15	39232										
SRD5A3	79644	broad.mit.edu	37	chr4	56212670	56212671	+	Frame_Shift_Ins	INS	-	-	G													0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	atccgctatgggaaaaccaaINSgtgtggggagccgtcgcgcc							TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr4:56212670_56212671insG	ENST00000264228.4	+	1	395_396	c.167_168insG	c.(166-171)aagtgtfs	p.C57fs		NM_024592.4	NP_078868.1	Q9H8P0	PORED_HUMAN	steroid 5 alpha-reductase 3	57					androgen biosynthetic process (GO:0006702)|cellular protein metabolic process (GO:0044267)|dolichol metabolic process (GO:0019348)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|dolichyl diphosphate biosynthetic process (GO:0006489)|polyprenol catabolic process (GO:0016095)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	3-oxo-5-alpha-steroid 4-dehydrogenase activity (GO:0003865)|cholestenone 5-alpha-reductase activity (GO:0047751)|oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor (GO:0016628)	p.K56K(1)		cervix(1)|large_intestine(3)|lung(6)|prostate(1)|skin(1)	12	all_cancers(7;0.0308)|all_lung(4;0.00195)|Lung NSC(11;0.00431)|all_epithelial(27;0.0425)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.0179)		Spironolactone(DB00421)	GGGAAAACCAAGTGTGGGGAGC	0.693																																																1	Substitution - coding silent(1)	lung(1)																																								SO:0001589	frameshift_variant	79644			AK023414	CCDS3498.1	4q12	2009-07-21			ENSG00000128039	ENSG00000128039			25812	protein-coding gene	gene with protein product		611715				17986282	Standard	NM_024592		Approved	FLJ13352, SRD5A2L, SRD5A2L1	uc003hau.3	Q9H8P0	OTTHUMG00000128733	ENST00000264228.4:c.168dupG	4.37:g.56212671_56212671dupG	ENSP00000264228:p.Cys57fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5Q6	Frame_Shift_Ins	INS	ENST00000264228.4	37	CCDS3498.1																																																																																				0.693	SRD5A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250644.2	NM_024592		G	56212671	-	G	56212670	7	5	636	1	0	1	1	0	0	0	0	0	15152	72	3	0	169	0	SRD5A3	4	56212670	Frame_Shift_Ins	INS	-	TCGA-KL-8337-01A-11D-2310-10		56212670	134941606	16	39233										
AREG	374	broad.mit.edu;mdanderson.org	37	chr4	75314901	75314901	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	aaaatccatgtaatgcagaaTttcaaaatttctgcattcac	4	8	3	1			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr4:75314901T>G	ENST00000395748.3	+	3	660	c.448T>G	c.(448-450)Ttt>Gtt	p.F150V	AREG_ENST00000264487.2_Missense_Mutation_p.F150V|AREG_ENST00000511560.1_3'UTR|AREG_ENST00000502307.1_Missense_Mutation_p.F150V	NM_001657.2	NP_001648.1	P15514	AREG_HUMAN	amphiregulin	150	EGF-like. {ECO:0000255|PROSITE- ProRule:PRU00076}.				cell proliferation (GO:0008283)|cell-cell signaling (GO:0007267)|dichotomous subdivision of terminal units involved in mammary gland duct morphogenesis (GO:0060598)|epidermal growth factor receptor signaling pathway (GO:0007173)|epithelial cell proliferation involved in mammary gland duct elongation (GO:0060750)|G-protein coupled receptor signaling pathway (GO:0007186)|glial cell proliferation (GO:0014009)|mammary gland alveolus development (GO:0060749)|mammary gland branching involved in thelarche (GO:0060744)|negative regulation of osteoblast differentiation (GO:0045668)|neuron projection development (GO:0031175)|positive regulation of cell proliferation (GO:0008284)|positive regulation of DNA replication (GO:0045740)|positive regulation of phosphorylation (GO:0042327)|response to cAMP (GO:0051591)|response to estradiol (GO:0032355)|response to glucocorticoid (GO:0051384)|response to hydrogen peroxide (GO:0042542)|response to peptide hormone (GO:0043434)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	growth factor activity (GO:0008083)			lung(4)	4			Lung(101;0.196)			TAATGCAGAATTTCAAAATTT	0.313																																																0													7	8	7					4																	75314901		1825	3986	5811	SO:0001583	missense	374			M30704	CCDS3565.1	4q13.3	2014-06-19	2008-08-01		ENSG00000109321	ENSG00000109321		"Endogenous ligands"	651	protein-coding gene	gene with protein product		104640	"schwannoma-derived growth factor", "amphiregulin B"	SDGF, AREGB			Standard	NM_001657		Approved		uc021xpc.1	P15514	OTTHUMG00000130006	ENST00000395748.3:c.448T>G	4.37:g.75314901T>G	ENSP00000379097:p.Phe150Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5U026	Missense_Mutation	SNP	ENST00000395748.3	37	CCDS3565.1	.	.	.	.	.	.	.	.	.	.	T	16.48	3.134212	0.56828	.	.	ENSG00000109321	ENST00000395748;ENST00000264487;ENST00000502307	T;T;T	0.12879	2.64;2.64;2.64	4.94	4.94	0.65067	Epidermal growth factor-like (1);Epidermal growth factor-like, type 3 (1);	0.169682	0.53938	D	0.000048	T	0.29256	0.0728	L	0.60455	1.87	0.34369	D	0.691807	D	0.76494	0.999	D	0.80764	0.994	T	0.42120	-0.9470	10	0.66056	D	0.02	-7.351	7.6046	0.28095	0.0:0.0967:0.0:0.9033	.	150	P15514	AREG_HUMAN	V	150	ENSP00000379097:F150V;ENSP00000264487:F150V;ENSP00000421414:F150V	ENSP00000264487:F150V	F	+	1	0	AREG	75533765	0.881000	0.30235	0.997000	0.53966	0.767000	0.43475	3.655000	0.54460	1.974000	0.57490	0.455000	0.32223	TTT		0.313	AREG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252277.1			G	75314901	T	G	75314901	3	3	636	1	0	0	0	0	1	0	0	0	843	1493	52	5	458	5	AREG	4	75314901	Missense_Mutation	SNP	T	TCGA-KL-8337-01A-11D-2310-10	19102231	75314901	115839375	17	39234										
FRG1	2483	mdanderson.org	37	chr4	190873347	190873347	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	gacagtaacaaactttggtgAaatttcaggaaccatagcca	8	8	1	1	rs73024948		TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr4:190873347A>G	ENST00000226798.4	+	3	386	c.164A>G	c.(163-165)gAa>gGa	p.E55G	FRG1_ENST00000514482.1_3'UTR	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1	55					mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		AACTTTGGTGAAATTTCAGGA	0.333																																																0													83	96	92					4																	190873347		2201	4296	6497	SO:0001583	missense	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.164A>G	4.37:g.190873347A>G	ENSP00000226798:p.Glu55Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Missense_Mutation	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	.	19.43	3.825859	0.71143	.	.	ENSG00000109536	ENST00000226798	T	0.34859	1.34	3.47	3.47	0.39725	.	0.050175	0.85682	D	0.000000	T	0.43656	0.1257	M	0.83953	2.67	0.80722	D	1	P	0.40578	0.722	B	0.41510	0.359	T	0.53851	-0.8380	10	0.72032	D	0.01	-24.5471	10.6186	0.45465	1.0:0.0:0.0:0.0	.	55	Q14331	FRG1_HUMAN	G	55	ENSP00000226798:E55G	ENSP00000226798:E55G	E	+	2	0	FRG1	191110341	1.000000	0.71417	0.995000	0.50966	0.984000	0.73092	6.760000	0.74939	1.815000	0.52974	0.441000	0.28932	GAA		0.333	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477		G	190873347	A	G	190873347	3	3	636	1	0	0	0	0	1	0	0	0	6053	246	9	3	174	3	FRG1	4	190873347	Missense_Mutation	SNP	A	TCGA-KL-8337-01A-11D-2310-10	115558446	190873347	280929	18	39235										
HTR4	3360	ucsc.edu	37	chr5	147929716	147929716	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	tcacctgagctgcctgtcccAgcacacagccaccatcacca	6	19	2	1			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr5:147929716A>G	ENST00000377888.3	-	3	274	c.136T>C	c.(136-138)Tgg>Cgg	p.W46R	HTR4_ENST00000517929.1_Missense_Mutation_p.W46R|HTR4_ENST00000354217.2_Missense_Mutation_p.W46R|HTR4_ENST00000521735.1_Missense_Mutation_p.W46R|HTR4_ENST00000362016.2_Missense_Mutation_p.W46R|HTR4_ENST00000360693.3_Missense_Mutation_p.W46R|HTR4_ENST00000521530.1_Missense_Mutation_p.W46R|HTR4_ENST00000520514.1_Missense_Mutation_p.W46R|HTR4_ENST00000314512.6_Missense_Mutation_p.W46R|HTR4_ENST00000519495.1_5'UTR	NM_000870.5	NP_000861.1	Q13639	5HT4R_HUMAN	5-hydroxytryptamine (serotonin) receptor 4, G protein-coupled	46					G-protein coupled receptor signaling pathway (GO:0007186)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|positive regulation of cell proliferation (GO:0008284)|regulation of appetite (GO:0032098)|serotonin receptor signaling pathway (GO:0007210)|synaptic transmission (GO:0007268)	cytoplasm (GO:0005737)|endosome (GO:0005768)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	serotonin receptor activity (GO:0004993)			endometrium(5)|kidney(1)|large_intestine(3)|lung(7)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	21			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Cinitapride(DB08810)|Cisapride(DB00604)|Ergoloid mesylate(DB01049)|Metoclopramide(DB01233)|Ondansetron(DB00904)	TGCCTGTCCCAGCACACAGCC	0.542																																					GBM(120;370 1604 14007 17804 41573)											0													106	75	86					5																	147929716		2203	4300	6503	SO:0001583	missense	3360			Y08756	CCDS4291.1, CCDS34270.1, CCDS34271.1, CCDS34272.1, CCDS34273.1, CCDS34273.2, CCDS75353.1	5q31-q33	2012-08-08	2012-02-03		ENSG00000164270	ENSG00000164270		"5-HT (serotonin) receptors", "GPCR / Class A : 5-HT (serotonin) receptors, GPCR only"	5299	protein-coding gene	gene with protein product		602164	"5-hydroxytryptamine (serotonin) receptor 4"			9371406, 9276448	Standard	NM_199453		Approved	5-HT4	uc021yfj.1	Q13639	OTTHUMG00000129931	ENST00000377888.3:c.136T>C	5.37:g.147929716A>G	ENSP00000367120:p.Trp46Arg	Somatic		WXS	Illumina HiSeq	Phase_I	C4WYH4|Q546Q1|Q684M0|Q712M9|Q96KH9|Q96KI0|Q9H199|Q9NY73|Q9UBM6|Q9UBT4|Q9UE22|Q9UE23|Q9UQR6	Missense_Mutation	SNP	ENST00000377888.3	37	CCDS4291.1	.	.	.	.	.	.	.	.	.	.	A	1.046	-0.677331	0.03378	.	.	ENSG00000164270	ENST00000521530;ENST00000354217;ENST00000314512;ENST00000521735;ENST00000517929;ENST00000520514;ENST00000377888;ENST00000360693;ENST00000362016	T;T;T;T;T;T;T;T;T	0.31769	1.48;1.48;1.48;1.48;1.48;1.48;1.48;1.48;1.48	5.61	0.0268	0.14151	GPCR, rhodopsin-like superfamily (1);	0.139010	0.64402	N	0.000005	T	0.04724	0.0128	N	0.00074	-2.255	0.24527	N	0.994136	B;B;B;B;B;B;B	0.02656	0.0;0.0;0.0;0.0;0.0;0.0;0.0	B;B;B;B;B;B;B	0.04013	0.0;0.0;0.001;0.0;0.0;0.0;0.0	T	0.44283	-0.9338	10	0.02654	T	1	.	10.5223	0.44927	0.1218:0.0:0.5811:0.297	.	46;46;46;46;46;46;46	C4WYH4;Q13639;Q712M9;Q13639-6;Q13639-3;Q13639-2;Q684M0	.;5HT4R_HUMAN;.;.;.;.;.	R	46	ENSP00000428320:W46R;ENSP00000346156:W46R;ENSP00000314906:W46R;ENSP00000430979:W46R;ENSP00000435904:W46R;ENSP00000427913:W46R;ENSP00000367120:W46R;ENSP00000353915:W46R;ENSP00000355037:W46R	ENSP00000314906:W46R	W	-	1	0	HTR4	147909909	1.000000	0.71417	0.997000	0.53966	0.966000	0.64601	1.802000	0.38853	-0.202000	0.10268	-1.294000	0.01345	TGG		0.542	HTR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252187.2	NM_000870		G	147929716	A	G	147929716	3	3	636	1	0	0	0	0	1	0	0	0	7456	188	7	3	1346	3	HTR4	5	147929716	Missense_Mutation	SNP	A	TCGA-KL-8337-01A-11D-2310-10		147929716	32985544	19	39236										
HLA-DRB1	3123	bcgsc.ca	37	chr6	32551957	32551958	+	Missense_Mutation	DNP	GC	GC	CT													0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	aggtgtccaccgcggcccgcGcctgctccaggatgtccttc					rs200320734|rs1064592|rs568948309|rs9269942	byFrequency	TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G|C	G|C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr6:32551957_32551958GC>CT	ENST00000360004.5	-	2	403_404	c.298_299GC>AG	c.(298-300)GCg>AGg	p.A100R		NM_002124.3	NP_002115.2	Q30167	2B1A_HUMAN	major histocompatibility complex, class II, DR beta 1	100	Beta-1.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|late endosome membrane (GO:0031902)|lysosomal membrane (GO:0005765)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)				large_intestine(3)|lung(2)|ovary(1)|prostate(1)|skin(2)|stomach(1)	10						CGCGGCCCGCGCCTGCTCCAGG	0.678										Multiple Myeloma(14;0.17)																																						0																																										SO:0001583	missense	3123			AJ297583	CCDS47409.1	6p21.3	2013-01-11			ENSG00000196126	ENSG00000196126		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4948	protein-coding gene	gene with protein product		142857		HLA-DR1B			Standard	NM_001243965		Approved		uc011eri.2	P01911	OTTHUMG00000031196	ENST00000360004.5:c.298_299delinsCT	6.37:g.32551957_32551958delinsCT	ENSP00000353099:p.Ala100Arg	Somatic		WXS	Illumina HiSeq	Phase_I	P01914|Q9MYF5	Missense_Mutation	SNP	ENST00000360004.5	37	CCDS47409.1																																																																																				0.678	HLA-DRB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076393.3	NM_002124		CT	32551958	GC	CT	32551957	3	2	636	1	0	0	0	0	1	0	0	0	7215	1087	38	4	521	4	HLA-DRB1	6	32551957	Missense_Mutation	DNP	GC	TCGA-KL-8337-01A-11D-2310-10		32551957	138563110	20	39237										
TBCC	6903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	42713337	42713337	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	tatgctttcaactgccggggGgatgccaggagccgcgtcta	14	11	2	0			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr6:42713337G>A	ENST00000372876.1	-	1	497	c.475C>T	c.(475-477)Ccc>Tcc	p.P159S	TBCC_ENST00000244625.2_Missense_Mutation_p.P159S	NM_003192.2	NP_003183	Q15814	TBCC_HUMAN	tubulin folding cofactor C	159					'de novo' posttranslational protein folding (GO:0051084)|cell morphogenesis (GO:0000902)|cellular protein metabolic process (GO:0044267)|GTP catabolic process (GO:0006184)|post-chaperonin tubulin folding pathway (GO:0007023)|protein folding (GO:0006457)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|microtubule (GO:0005874)|photoreceptor connecting cilium (GO:0032391)	chaperone binding (GO:0051087)|GTPase activity (GO:0003924)			breast(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(4)|prostate(1)|urinary_tract(3)	14	Colorectal(47;0.196)		all cancers(41;0.00122)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.125)			ACTGCCGGGGGGATGCCAGGA	0.637																																																0													12	14	13					6																	42713337		2196	4291	6487	SO:0001583	missense	6903			U61234	CCDS4872.1	6p21.1	2008-02-05	2006-11-21		ENSG00000124659	ENSG00000124659			11580	protein-coding gene	gene with protein product		602971	"tubulin-specific chaperone c"			8706133, 11847227	Standard	NM_003192		Approved	CFC	uc003osl.3	Q15814	OTTHUMG00000014704	ENST00000372876.1:c.475C>T	6.37:g.42713337G>A	ENSP00000361967:p.Pro159Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q53Y43|Q5T787	Missense_Mutation	SNP	ENST00000372876.1	37	CCDS4872.1	.	.	.	.	.	.	.	.	.	.	G	0.019	-1.449022	0.01080	.	.	ENSG00000124659	ENST00000372876;ENST00000244625	T;T	0.75154	-0.91;-0.91	1.03	-1.1	0.09872	.	0.817042	0.11186	N	0.590398	T	0.32164	0.0820	L	0.35854	1.095	0.32258	N	0.570472	B	0.12013	0.005	B	0.11329	0.006	T	0.01484	-1.1343	10	0.10111	T	0.7	-13.7078	2.3667	0.04321	0.0:0.319:0.3634:0.3176	.	159	Q15814	TBCC_HUMAN	S	159	ENSP00000361967:P159S;ENSP00000244625:P159S	ENSP00000244625:P159S	P	-	1	0	TBCC	42821315	0.001000	0.12720	0.561000	0.28357	0.392000	0.30506	0.015000	0.13355	0.308000	0.22923	0.313000	0.20887	CCC		0.637	TBCC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040559.1	NM_003192		A	42713337	G	A	42713337	3	1	636	1	0	0	0	0	1	0	0	0	15643	1232	43	2	569	2	TBCC	6	42713337	Missense_Mutation	SNP	G	TCGA-KL-8337-01A-11D-2310-10	10161380	42713337	128401730	21	39238										
PEX6	5190	hgsc.bcm.edu	37	chr6	42946490	42946490	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	tccagcacccgcggtccgggCactgggagggtctctccgcg	15	16	1	0	rs9462858	byFrequency	TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr6:42946490C>A	ENST00000304611.8	-	1	468	c.399G>T	c.(397-399)gtG>gtT	p.V133V	PEX6_ENST00000244546.4_Silent_p.V133V	NM_000287.3	NP_000278.3	Q13608	PEX6_HUMAN	peroxisomal biogenesis factor 6	133					ATP catabolic process (GO:0006200)|peroxisome organization (GO:0007031)|protein import into peroxisome matrix, translocation (GO:0016561)|protein stabilization (GO:0050821)|protein targeting to peroxisome (GO:0006625)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled (GO:0042623)|protein C-terminus binding (GO:0008022)|protein complex binding (GO:0032403)			NS(1)|breast(1)|endometrium(2)|large_intestine(2)|lung(5)|ovary(1)|prostate(3)	15			all cancers(41;0.00235)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0562)			GCGGTCCGGGCACTGGGAGGG	0.746													C|||	1662	0.331869	0.3691	0.3516	5008	,	,		10923	0.1002		0.4612	False		,,,				2504	0.3732															0								C		1002,2080		214,574,753	2	3	3	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	399	2.1	0.9	6	dbSNP_119	3	2653,4001		636,1381,1310	no	coding-synonymous	PEX6	NM_000287.3		850,1955,2063	AA,AC,CC		39.8708,32.5114,37.5411		133/981	42946490	3655,6081	1541	3327	4868	SO:0001819	synonymous_variant	5190			U56602	CCDS4877.1	6p22-p11	2010-04-21			ENSG00000124587	ENSG00000124587		"ATPases / AAA-type"	8859	protein-coding gene	gene with protein product		601498				8670792	Standard	NM_000287		Approved	PXAAA1, PAF-2	uc003otf.3	Q13608	OTTHUMG00000014713	ENST00000304611.8:c.399G>T	6.37:g.42946490C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T8W1|Q8WYQ0|Q8WYQ1|Q8WYQ2|Q99476	Silent	SNP	ENST00000304611.8	37	CCDS4877.1																																																																																				0.746	PEX6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040569.1	NM_000287		A	42946490	C	A	42946490	2	1	636	1	0	0	0	0	0	0	0	1	11757	697	25	4		4	PEX6	6	42946490	Silent	SNP	C	TCGA-KL-8337-01A-11D-2310-10	233153	42946490	128168577	22	39239										
PERP	64065	ucsc.edu	37	chr6	138428444	138428444	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	gagcaggggcaggatccagcGgcagcgctcgcaggccaggc	18	13	0	0			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr6:138428444G>A	ENST00000421351.3	-	1	204	c.34C>T	c.(34-36)Cgc>Tgc	p.R12C		NM_022121.4	NP_071404.2	Q96FX8	PERP_HUMAN	PERP, TP53 apoptosis effector	12					activation of cysteine-type endopeptidase activity (GO:0097202)|amelogenesis (GO:0097186)|desmosome organization (GO:0002934)|heterotypic cell-cell adhesion (GO:0034113)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|positive regulation of proteolysis (GO:0045862)	cell junction (GO:0030054)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|mitochondrion (GO:0005739)				breast(1)|cervix(1)|endometrium(1)|lung(1)|prostate(1)	5	Breast(32;0.0799)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000878)|OV - Ovarian serous cystadenocarcinoma(155;0.000997)		AGGATCCAGCGGCAGCGCTCG	0.741																																																0													18	24	22					6																	138428444		2085	4108	6193	SO:0001583	missense	64065			AF317550	CCDS5188.1	6q24	2014-04-29			ENSG00000112378	ENSG00000112378			17637	protein-coding gene	gene with protein product	"keratinocyte associated protein 1"	609301				11062687	Standard	NM_022121		Approved	PIGPC1, dJ496H19.1, KCP1, THW, KRTCAP1	uc003qht.2	Q96FX8	OTTHUMG00000015668	ENST00000421351.3:c.34C>T	6.37:g.138428444G>A	ENSP00000397157:p.Arg12Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RB73|E1P590|Q8IWS3|Q8N1J6|Q8NC16|Q9H1C5|Q9H230	Missense_Mutation	SNP	ENST00000421351.3	37	CCDS5188.1	.	.	.	.	.	.	.	.	.	.	g	22.5	4.294854	0.81025	.	.	ENSG00000112378	ENST00000421351;ENST00000265603	T	0.55052	0.54	4.14	-2.01	0.07410	.	0.051614	0.64402	D	0.000001	T	0.44623	0.1302	L	0.27053	0.805	0.58432	D	0.999991	D	0.89917	1.0	D	0.78314	0.991	T	0.53892	-0.8374	10	0.87932	D	0	-7.0466	13.4994	0.61445	0.0:0.0:0.7533:0.2467	.	12	Q96FX8	PERP_HUMAN	C	12	ENSP00000397157:R12C	ENSP00000265603:R12C	R	-	1	0	PERP	138470137	0.756000	0.28383	0.998000	0.56505	0.987000	0.75469	-0.511000	0.06321	-0.142000	0.11354	-0.408000	0.06270	CGC		0.741	PERP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042423.2	NM_022121		A	138428444	G	A	138428444	3	1	636	1	0	0	0	0	1	0	0	0	11739	1116	39	1	559	1	PERP	6	138428444	Missense_Mutation	SNP	G	TCGA-KL-8337-01A-11D-2310-10	95481954	138428444	32686623	23	39240										
C7orf27	221927	mdanderson.org	37	chr7	2578285	2578285	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	acgaactgctccgtgtcctgGgccgcgtcggcgtggccgtc	15	15	0	0	rs142346283	byFrequency	TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr7:2578285G>A	ENST00000340611.4	-	14	2140	c.1884C>T	c.(1882-1884)gcC>gcT	p.A628A	BRAT1_ENST00000473879.1_5'UTR	NM_152743.3	NP_689956.2	Q6PJG6	BRAT1_HUMAN	BRCA1-associated ATM activator 1	628					response to ionizing radiation (GO:0010212)	membrane (GO:0016020)|nucleus (GO:0005634)				breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(3)|lung(7)|ovary(1)|pancreas(1)|skin(2)|urinary_tract(1)	23						CCGTGTCCTGGGCCGCGTCGG	0.697													G|||	33	0.00658946	0.0227	0.0043	5008	,	,		13062	0.0		0.0	False		,,,				2504	0.0															0								G		86,4228		0,86,2071	15	18	17		1884	-8.1	0	7	dbSNP_134	17	1,8423		0,1,4211	no	coding-synonymous	BRAT1	NM_152743.3		0,87,6282	AA,AG,GG		0.0119,1.9935,0.683		628/822	2578285	87,12651	2157	4212	6369	SO:0001819	synonymous_variant	221927			BC015632	CCDS5334.1	7p22.3	2011-03-22	2011-02-28	2011-03-22	ENSG00000106009	ENSG00000106009			21701	protein-coding gene	gene with protein product	"BRCA1-associated protein required for ATM activation protein 1"	614506	"chromosome 7 open reading frame 27"	C7orf27, BAAT1		16452482	Standard	NM_152743		Approved	MGC22916	uc003smi.3	Q6PJG6	OTTHUMG00000119091	ENST00000340611.4:c.1884C>T	7.37:g.2578285G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D200|C9JY24|Q8IW85|Q8IZ43|Q8WVR8|Q96IV9|Q9H7J8|Q9UFA3	Silent	SNP	ENST00000340611.4	37	CCDS5334.1																																																																																				0.697	BRAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239305.2	NM_152743		A	2578285	G	A	2578285	2	1	636	1	0	0	0	0	0	0	0	1	2384	1219	43	2		2	C7orf27	7	2578285	Silent	SNP	G	TCGA-KL-8337-01A-11D-2310-10		2578285	156560378	24	39241										
C1GALT1	56913	broad.mit.edu	37	chr7	7278070	7278070	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	ttccctgctgtgggactgaaAaccaaagaaggcagagatca	11	9	1	3			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr7:7278070A>G	ENST00000223122.3	+	2	467	c.405A>G	c.(403-405)aaA>aaG	p.K135K	C1GALT1_ENST00000402468.3_Silent_p.K135K|C1GALT1_ENST00000436587.2_Silent_p.K135K			Q9NS00	C1GLT_HUMAN	core 1 synthase, glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase 1	135					angiogenesis (GO:0001525)|cell differentiation (GO:0030154)|cellular protein metabolic process (GO:0044267)|kidney development (GO:0001822)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase activity (GO:0016263)|metal ion binding (GO:0046872)			breast(1)|kidney(1)|lung(3)|prostate(1)|urinary_tract(1)	7				UCEC - Uterine corpus endometrioid carcinoma (126;0.177)		TGGGACTGAAAACCAAAGAAG	0.378																																																0													67	68	67					7																	7278070		2203	4300	6503	SO:0001819	synonymous_variant	56913			AF155582	CCDS5355.1	7p21.3	2014-06-24	2014-06-24		ENSG00000106392	ENSG00000106392	2.4.1.122	"Beta 3-glycosyltransferases"	24337	protein-coding gene	gene with protein product	"core 1 beta3-Gal-T"	610555				10580128, 11677243	Standard	NM_020156		Approved	C1GALT, T-synthase	uc003srb.3	Q9NS00	OTTHUMG00000151912	ENST00000223122.3:c.405A>G	7.37:g.7278070A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q96QH4|Q9BTU1	Silent	SNP	ENST00000223122.3	37	CCDS5355.1																																																																																				0.378	C1GALT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324379.2	NM_020156		G	7278070	A	G	7278070	2	3	636	1	0	0	0	0	0	0	0	1	1954	11	1	3		3	C1GALT1	7	7278070	Silent	SNP	A	TCGA-KL-8337-01A-11D-2310-10	4699785	7278070	151860593	25	39242										
TMEM196	256130	broad.mit.edu	37	chr7	19769017	19769017	+	Frame_Shift_Del	DEL	T	T	-													0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	acacttacgacaagtcctgaTttttttttggcacacaatat							TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr7:19769017delT	ENST00000405764.3	-	2	888	c.192delA	c.(190-192)aaafs	p.K64fs	TMEM196_ENST00000433641.1_5'UTR|TMEM196_ENST00000422233.1_5'UTR|TMEM196_ENST00000405844.1_Frame_Shift_Del_p.K64fs|TMEM196_ENST00000493519.1_5'UTR	NM_152774.3	NP_689987.3	Q5HYL7	TM196_HUMAN	transmembrane protein 196	70						integral component of membrane (GO:0016021)				breast(1)|large_intestine(1)|lung(4)	6						CAAGTCCTGATTTTTTTTTGG	0.353																																																0										11,11,1946		3,0,5,4,3,969	161	137	144			5.4	1	7		148	5,6,4003		0,0,5,0,6,1996	no	codingComplex	TMEM196	NM_152774.3		3,0,10,4,9,2965	A1A1,A1A2,A1R,A2A2,A2R,RR		0.274,1.1179,0.5517			19769017	16,17,5949	692	1591	2283	SO:0001589	frameshift_variant	256130				CCDS34607.2	7p15.3	2007-11-21			ENSG00000173452	ENSG00000173452			22431	protein-coding gene	gene with protein product							Standard	NM_152774		Approved	MGC42090	uc011jyg.2	Q5HYL7	OTTHUMG00000152504	ENST00000405764.3:c.192delA	7.37:g.19769017delT	ENSP00000384234:p.Lys64fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N6I6	Frame_Shift_Del	DEL	ENST00000405764.3	37	CCDS34607.2																																																																																				0.353	TMEM196-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000326499.1	NM_152774		-	19769017	T	-	19769017	7	5	636	1	0	1	0	1	0	0	0	0	16130	1490	52	0	338	0	TMEM196	7	19769017	Frame_Shift_Del	DEL	T	TCGA-KL-8337-01A-11D-2310-10	12490947	19769017	139369646	26	39243										
DNAJB9	4189	broad.mit.edu	37	chr7	108212318	108212318	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	agaaggcctttcacaagttgGccatgaagtaccaccctgac	9	12	1	3			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr7:108212318G>T	ENST00000249356.3	+	2	694	c.148G>T	c.(148-150)Gcc>Tcc	p.A50S	THAP5_ENST00000415914.3_5'Flank|THAP5_ENST00000438865.1_5'Flank|DNAJB9_ENST00000465725.1_3'UTR|THAP5_ENST00000493722.1_5'Flank|THAP5_ENST00000313516.5_5'Flank	NM_012328.2	NP_036460.1	Q9UBS3	DNJB9_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 9	50	J. {ECO:0000255|PROSITE- ProRule:PRU00286}.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|nucleolus (GO:0005730)	misfolded protein binding (GO:0051787)			central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(3)|lung(4)|urinary_tract(1)	13						TCACAAGTTGGCCATGAAGTA	0.413																																																0													99	107	105					7																	108212318		2203	4300	6503	SO:0001583	missense	4189			AB026908	CCDS5752.1	7q31	2011-09-02			ENSG00000128590	ENSG00000128590		"Heat shock proteins / DNAJ (HSP40)"	6968	protein-coding gene	gene with protein product		602634		MDG1		9533036, 11147971	Standard	NM_012328		Approved		uc003vfn.3	Q9UBS3	OTTHUMG00000154866	ENST00000249356.3:c.148G>T	7.37:g.108212318G>T	ENSP00000249356:p.Ala50Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000249356.3	37	CCDS5752.1	.	.	.	.	.	.	.	.	.	.	G	35	5.477236	0.96291	.	.	ENSG00000128590	ENST00000249356	T	0.36878	1.23	5.34	5.34	0.76211	Heat shock protein DnaJ, N-terminal (5);	0.000000	0.85682	D	0.000000	T	0.45034	0.1322	N	0.17312	0.475	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.37686	-0.9695	9	.	.	.	.	18.035	0.89298	0.0:0.0:1.0:0.0	.	50	Q9UBS3	DNJB9_HUMAN	S	50	ENSP00000249356:A50S	.	A	+	1	0	DNAJB9	107999554	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.471000	0.97696	2.483000	0.83821	0.563000	0.77884	GCC		0.413	DNAJB9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337414.1			T	108212318	G	T	108212318	3	4	636	1	0	0	0	0	1	0	0	0	4629	1203	42	4	150	4	DNAJB9	7	108212318	Missense_Mutation	SNP	G	TCGA-KL-8337-01A-11D-2310-10	88443301	108212318	50926345	27	39244										
AASS	10157	broad.mit.edu	37	chr7	121755170	121755170	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	cttccacaccagcaggtgagAacttgcccggagccaggaga	12	13	0	2			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr7:121755170A>G	ENST00000393376.1	-	8	1096	c.1001T>C	c.(1000-1002)tTc>tCc	p.F334S	AASS_ENST00000417368.2_Missense_Mutation_p.F334S|AASS_ENST00000473553.1_Intron			Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase	334	Lysine-ketoglutarate reductase.				cellular nitrogen compound metabolic process (GO:0034641)|L-lysine catabolic process to acetyl-CoA via saccharopine (GO:0033512)|lysine catabolic process (GO:0006554)|protein tetramerization (GO:0051262)|small molecule metabolic process (GO:0044281)	intracellular membrane-bounded organelle (GO:0043231)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity (GO:0047131)|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity (GO:0047130)			autonomic_ganglia(1)|breast(2)|endometrium(3)|kidney(6)|large_intestine(12)|lung(27)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	54						AGCAGGTGAGAACTTGCCCGG	0.488																																																0													126	117	120					7																	121755170		2203	4300	6503	SO:0001583	missense	10157			AF229180	CCDS5783.1	7q31.3	2010-12-14			ENSG00000008311	ENSG00000008311			17366	protein-coding gene	gene with protein product		605113				10775527	Standard	NM_005763		Approved	LORSDH, LKRSDH	uc003vkb.3	Q9UDR5	OTTHUMG00000157058	ENST00000393376.1:c.1001T>C	7.37:g.121755170A>G	ENSP00000377040:p.Phe334Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O95462	Missense_Mutation	SNP	ENST00000393376.1	37	CCDS5783.1	.	.	.	.	.	.	.	.	.	.	A	7.479	0.648272	0.14516	.	.	ENSG00000008311	ENST00000393376;ENST00000417368	.	.	.	5.68	-0.0723	0.13740	Alanine dehydrogenase/PNT, C-terminal (1);	0.798338	0.12272	N	0.483760	T	0.06917	0.0176	N	0.00289	-1.7	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.38650	-0.9651	9	0.07813	T	0.8	0.0617	11.6038	0.51020	0.2361:0.0:0.7639:0.0	.	334	Q9UDR5	AASS_HUMAN	S	334	.	ENSP00000351834:F334S	F	-	2	0	AASS	121542406	0.999000	0.42202	0.792000	0.32020	0.453000	0.32348	2.070000	0.41491	-0.325000	0.08577	-0.256000	0.11100	TTC		0.488	AASS-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347300.1	NM_005763		G	121755170	A	G	121755170	3	3	636	1	0	0	0	0	1	0	0	0	24	246	9	3	1843	3	AASS	7	121755170	Missense_Mutation	SNP	A	TCGA-KL-8337-01A-11D-2310-10	13542852	121755170	37383493	28	39245										
DENND2A	27147	ucsc.edu	37	chr7	140301430	140301430	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	atgaagggctttgtgggggaAccctccgagcccctatacac	12	12	0	1			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr7:140301430A>C	ENST00000275884.6	-	2	1185	c.768T>G	c.(766-768)ggT>ggG	p.G256G	DENND2A_ENST00000496613.1_Silent_p.G256G|DENND2A_ENST00000537639.1_Silent_p.G256G|DENND2A_ENST00000492720.1_Silent_p.G256G			Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	256					positive regulation of Rab GTPase activity (GO:0032851)|protein transport (GO:0015031)|retrograde transport, endosome to Golgi (GO:0042147)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)	Rab guanyl-nucleotide exchange factor activity (GO:0017112)	p.G256G(1)		breast(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(22)|ovary(3)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	49	Melanoma(164;0.00956)					TTGTGGGGGAACCCTCCGAGC	0.587																																																1	Substitution - coding silent(1)	kidney(1)											114	120	118					7																	140301430		1896	4112	6008	SO:0001819	synonymous_variant	27147			AB033103	CCDS43659.1	7q34	2012-10-03	2005-08-17	2005-08-17	ENSG00000146966	ENSG00000146966		"DENN/MADD domain containing"	22212	protein-coding gene	gene with protein product			"KIAA1277"	KIAA1277			Standard	NM_015689		Approved	FAM31D	uc010lnj.3	Q9ULE3	OTTHUMG00000157411	ENST00000275884.6:c.768T>G	7.37:g.140301430A>C		Somatic		WXS	Illumina HiSeq	Phase_I	C9JUI3|Q1RMD5|Q86XY0	Silent	SNP	ENST00000275884.6	37	CCDS43659.1																																																																																				0.587	DENND2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348742.1	NM_015689		C	140301430	A	C	140301430	2	2	636	1	0	0	0	0	0	0	0	1	4431	30	2	5		5	DENND2A	7	140301430	Silent	SNP	A	TCGA-KL-8337-01A-11D-2310-10	18546260	140301430	18837233	29	39246										
PCMTD1	115294	bcgsc.ca	37	chr8	52733191	52733191	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	ccctttgaggaatccccttgGcctgcatctcatcatttatg	7	13	2	1			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr8:52733191G>A	ENST00000360540.5	-	7	1200	c.794C>T	c.(793-795)gCc>gTc	p.A265V	PCMTD1_ENST00000544451.1_Missense_Mutation_p.A189V|PCMTD1_ENST00000522514.1_Missense_Mutation_p.A265V|PCMTD1_ENST00000519559.1_5'UTR	NM_052937.2	NP_443169.2	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	265						cytoplasm (GO:0005737)	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity (GO:0004719)			NS(2)|endometrium(1)|kidney(3)|large_intestine(3)|lung(17)|prostate(2)|skin(8)|soft_tissue(1)	37		Lung NSC(129;0.0795)|all_lung(136;0.144)				AATCCCCTTGGCCTGCATCTC	0.413																																																0													100	104	103					8																	52733191		2203	4297	6500	SO:0001583	missense	115294				CCDS6148.1, CCDS69480.1	8q11.23	2010-08-05			ENSG00000168300	ENSG00000168300			30483	protein-coding gene	gene with protein product							Standard	XM_005251146		Approved	FLJ10883	uc003xqx.4	Q96MG8	OTTHUMG00000164246	ENST00000360540.5:c.794C>T	8.37:g.52733191G>A	ENSP00000353739:p.Ala265Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q96FK9	Missense_Mutation	SNP	ENST00000360540.5	37	CCDS6148.1	.	.	.	.	.	.	.	.	.	.	G	17.94	3.511582	0.64522	.	.	ENSG00000168300	ENST00000360540;ENST00000544451;ENST00000522514	T;T;T	0.40476	1.03;1.03;1.03	5.77	5.77	0.91146	.	0.057264	0.64402	D	0.000002	T	0.56702	0.2003	L	0.44542	1.39	0.52501	D	0.999951	P;D;B	0.71674	0.791;0.998;0.012	B;D;B	0.65684	0.272;0.937;0.011	T	0.43410	-0.9393	10	0.26408	T	0.33	-28.5971	19.9832	0.97338	0.0:0.0:1.0:0.0	.	135;189;265	B4E2B4;F5H1M8;Q96MG8	.;.;PCMD1_HUMAN	V	265;189;265	ENSP00000353739:A265V;ENSP00000444026:A189V;ENSP00000428099:A265V	ENSP00000353739:A265V	A	-	2	0	PCMTD1	52895744	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.494000	0.60347	2.722000	0.93159	0.655000	0.94253	GCC		0.413	PCMTD1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377909.2	NM_052937		A	52733191	G	A	52733191	3	1	636	1	0	0	0	0	1	0	0	0	11593	1203	42	2	283	2	PCMTD1	8	52733191	Missense_Mutation	SNP	G	TCGA-KL-8337-01A-11D-2310-10		52733191	93630831	30	39247										
PDE7A	5150	ucsc.edu	37	chr8	66753704	66753704	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	gacgtgctgggggaccggccTgtccaggggcagtaccggca	18	12	0	0			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr8:66753704T>C	ENST00000401827.3	-	1	483	c.40A>G	c.(40-42)Agg>Ggg	p.R14G	CTD-2532N20.1_ENST00000607622.1_lincRNA|PDE7A_ENST00000396642.3_Missense_Mutation_p.R14G	NM_001242318.2	NP_001229247.1	Q13946	PDE7A_HUMAN	phosphodiesterase 7A	14					cAMP catabolic process (GO:0006198)|signal transduction (GO:0007165)	cytosol (GO:0005829)	3',5'-cyclic-AMP phosphodiesterase activity (GO:0004115)|metal ion binding (GO:0046872)			large_intestine(5)|lung(3)|stomach(1)|urinary_tract(1)	10			Epithelial(68;0.0509)|BRCA - Breast invasive adenocarcinoma(89;0.111)|all cancers(69;0.168)|OV - Ovarian serous cystadenocarcinoma(28;0.238)		Caffeine(DB00201)|Dyphylline(DB00651)|Ketotifen(DB00920)	GGGACCGGCCTGTCCAGGGGC	0.711																																																0													13	19	17					8																	66753704		1952	4148	6100	SO:0001583	missense	5150			L12052	CCDS34901.1, CCDS56538.1	8q13	2008-03-18				ENSG00000205268	3.1.4.17	"Phosphodiesterases"	8791	protein-coding gene	gene with protein product		171885				8389765, 9521885	Standard	NM_001242318		Approved	HCP1	uc003xvq.3	Q13946		ENST00000401827.3:c.40A>G	8.37:g.66753704T>C	ENSP00000385632:p.Arg14Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVH6|A8K436|A8K9G5|O15380|Q96T72	Missense_Mutation	SNP	ENST00000401827.3	37	CCDS56538.1	.	.	.	.	.	.	.	.	.	.	T	19.02	3.745540	0.69418	.	.	ENSG00000205268	ENST00000401827;ENST00000396642	T;T	0.79749	-1.3;-1.3	4.0	4.0	0.46444	.	.	.	.	.	D	0.83608	0.5291	L	0.50333	1.59	0.38053	D	0.935848	D;D	0.57899	0.981;0.967	D;P	0.66351	0.943;0.879	T	0.82472	-0.0440	9	0.30078	T	0.28	.	9.8698	0.41166	0.0:0.0:0.172:0.828	.	14;14	Q13946-3;Q13946	.;PDE7A_HUMAN	G	14	ENSP00000385632:R14G;ENSP00000379881:R14G	ENSP00000379881:R14G	R	-	1	2	PDE7A	66916258	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	6.285000	0.72658	1.442000	0.47568	0.455000	0.32223	AGG		0.711	PDE7A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378905.1			C	66753704	T	C	66753704	3	2	636	1	0	0	0	0	1	0	0	0	11658	1579	55	3	1556	3	PDE7A	8	66753704	Missense_Mutation	SNP	T	TCGA-KL-8337-01A-11D-2310-10	14020513	66753704	79610318	31	39248										
TTLL11	158135	hgsc.bcm.edu;ucsc.edu	37	chr9	124751435	124751435	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	agagccctcttgaggccggtCaaggctggaaacgcaggctg	15	11	2	2			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr9:124751435C>T	ENST00000373776.3	-	4	1765	c.1578G>A	c.(1576-1578)ttG>ttA	p.L526L	TTLL11_ENST00000474723.1_Intron|TTLL11_ENST00000321582.5_Intron	NM_194252.2	NP_919228.2	Q8NHH1	TTL11_HUMAN	tubulin tyrosine ligase-like family, member 11	526	TTL. {ECO:0000255|PROSITE- ProRule:PRU00568}.				cellular protein modification process (GO:0006464)	cilium (GO:0005929)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)	ligase activity (GO:0016874)			breast(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(5)|prostate(3)|skin(1)	18						TGAGGCCGGTCAAGGCTGGAA	0.612																																																0													68	67	67					9																	124751435		2203	4300	6503	SO:0001819	synonymous_variant	158135			AF521886	CCDS6834.2, CCDS48012.1	9q34.11	2013-02-14	2005-07-28	2005-07-28	ENSG00000175764	ENSG00000175764		"Tubulin tyrosine ligase-like family"	18113	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 20"	C9orf20		15890843	Standard	NM_001139442		Approved	bA244O19.1	uc011lyl.2	Q8NHH1	OTTHUMG00000020597	ENST00000373776.3:c.1578G>A	9.37:g.124751435C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000373776.3	37	CCDS6834.2																																																																																				0.612	TTLL11-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000053907.1	XM_088486		T	124751435	C	T	124751435	2	4	636	1	0	0	0	0	0	0	0	1	16736	825	29	2		2	TTLL11	9	124751435	Silent	SNP	C	TCGA-KL-8337-01A-11D-2310-10		124751435	16461996	32	39249										
DDX31	64794	mdanderson.org	37	chr9	135545386	135545386	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	agactgctgggcccgggaccCcacgtgggacgcgcgaggac	17	14	0	1	rs75901862	byFrequency	TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr9:135545386C>T	ENST00000372159.3	-	1	402	c.251G>A	c.(250-252)gGg>gAg	p.G84E	DDX31_ENST00000544003.1_5'UTR|GTF3C4_ENST00000483873.2_5'Flank|DDX31_ENST00000310532.2_Missense_Mutation_p.G84E|GTF3C4_ENST00000372146.4_5'Flank|DDX31_ENST00000480876.1_5'UTR|DDX31_ENST00000372153.1_Missense_Mutation_p.G84E	NM_022779.7	NP_073616.6	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	84						nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(2)|endometrium(4)|kidney(3)|large_intestine(4)|lung(10)|prostate(1)|skin(1)|urinary_tract(1)	27				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)		GCCCGGGACCCCACGTGGGAC	0.741													C|||	64	0.0127796	0.0477	0.0	5008	,	,		13282	0.0		0.001	False		,,,				2504	0.0															0								C	GLU/GLY,GLU/GLY	138,4042		3,132,1955	9	6	7		251,251	0.6	0.6	9	dbSNP_131	7	4,8142		0,4,4069	no	missense,missense	DDX31	NM_022779.7,NM_138620.1	98,98	3,136,6024	TT,TC,CC		0.0491,3.3014,1.152	possibly-damaging,possibly-damaging	84/852,84/586	135545386	142,12184	2090	4073	6163	SO:0001583	missense	64794			AF427339	CCDS6951.1, CCDS6952.1	9q34.2	2012-04-17	2003-06-13		ENSG00000125485	ENSG00000125485		"DEAD-boxes", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	16715	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 25"		"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 31"				Standard	NM_022779		Approved	FLJ13633, FLJ23349, FLJ14578, PPP1R25	uc004cbq.1	Q9H8H2	OTTHUMG00000020843	ENST00000372159.3:c.251G>A	9.37:g.135545386C>T	ENSP00000361232:p.Gly84Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5K6N2|Q5K6N3|Q5K6N4|Q5VZJ4|Q5VZJ9|Q96E91|Q96NY2|Q96SX5|Q9H5K6	Missense_Mutation	SNP	ENST00000372159.3	37	CCDS6951.1	25	0.011446886446886446	24	0.04878048780487805	0	0.0	0	0.0	1	0.0013192612137203166	C	12.05	1.820370	0.32145	0.033014	4.91E-4	ENSG00000125485	ENST00000372159;ENST00000372155;ENST00000372153;ENST00000310532	T;T;T	0.06142	4.17;3.73;3.34	1.66	0.633	0.17712	.	.	.	.	.	T	0.00580	0.0019	N	0.14661	0.345	0.58432	D	0.999999	B;P;B	0.42357	0.274;0.777;0.18	B;B;B	0.39935	0.082;0.314;0.023	T	0.57917	-0.7728	9	0.52906	T	0.07	.	5.4778	0.16706	0.0:0.6115:0.3885:0.0	.	84;84;84	Q9H8H2-2;Q9H8H2-3;Q9H8H2	.;.;DDX31_HUMAN	E	84	ENSP00000361232:G84E;ENSP00000361226:G84E;ENSP00000310539:G84E	ENSP00000310539:G84E	G	-	2	0	DDX31	134535207	0.011000	0.17503	0.639000	0.29394	0.605000	0.37080	0.287000	0.18920	0.189000	0.20188	0.462000	0.41574	GGG		0.741	DDX31-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000054794.1	NM_138620		T	135545386	C	T	135545386	3	4	636	1	0	0	0	0	1	0	0	0	4358	623	22	2	2391	2	DDX31	9	135545386	Missense_Mutation	SNP	C	TCGA-KL-8337-01A-11D-2310-10	10793951	135545386	5668045	33	39250										
C9orf172	389813	mdanderson.org	37	chr9	139739643	139739643	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	tactgcgacgggcccctgccTgggccccgggactacgccga	14	17	0	0	rs10870132	byFrequency	TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr9:139739643T>C	ENST00000436881.1	+	1	777	c.777T>C	c.(775-777)ccT>ccC	p.P259P		NM_001080482.2	NP_001073951.2	C9J069	CI172_HUMAN	chromosome 9 open reading frame 172	259	Pro-rich.									endometrium(2)|large_intestine(1)|lung(6)	9						GGCCCCTGCCTGGGCCCCGGG	0.726													T|||	3952	0.789137	0.7799	0.6744	5008	,	,		8348	0.879		0.7972	False		,,,				2504	0.7822															0													5	5	5					9																	139739643		1547	3489	5036	SO:0001819	synonymous_variant	389813				CCDS48059.1	9q34.3	2012-04-03			ENSG00000232434	ENSG00000232434			37284	protein-coding gene	gene with protein product							Standard	NM_001080482		Approved		uc011meh.2	C9J069		ENST00000436881.1:c.777T>C	9.37:g.139739643T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000436881.1	37	CCDS48059.1																																																																																				0.726	C9orf172-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001080482		C	139739643	T	C	139739643	2	2	636	1	0	0	0	0	0	0	0	1	2473	1567	55	3		3	C9orf172	9	139739643	Silent	SNP	T	TCGA-KL-8337-01A-11D-2310-10	4194257	139739643	1473788	34	39251										
SLC25A28	81894	hgsc.bcm.edu	37	chr10	101373519	101373519	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	tgtcttttttaacttttcgtAgcaggcaaaataaagggcgt	9	6	1	0			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr10:101373519A>G	ENST00000370495.4	-	2	482	c.454T>C	c.(454-456)Tac>Cac	p.Y152H	SLC25A28_ENST00000496035.1_5'UTR	NM_031212.3	NP_112489.3	Q96A46	MFRN2_HUMAN	solute carrier family 25 (mitochondrial iron transporter), member 28	152					ion transport (GO:0006811)|iron ion homeostasis (GO:0055072)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)				endometrium(1)|kidney(2)|large_intestine(4)|liver(1)|lung(2)|stomach(1)	11		Colorectal(252;0.234)		Epithelial(162;2.57e-10)|all cancers(201;2.01e-08)		AACTTTTCGTAGCAGGCAAAA	0.522																																																0													63	68	66					10																	101373519		1907	4115	6022	SO:0001583	missense	81894			AF327402	CCDS41559.1	10q24.2	2013-05-22	2012-03-29		ENSG00000155287	ENSG00000155287		"Solute carriers"	23472	protein-coding gene	gene with protein product	"mitoferrin 2"	609767	"solute carrier family 25, member 28"			11297739	Standard	NM_031212		Approved	MRS3/4, MRS4L	uc001kpx.2	Q96A46	OTTHUMG00000018886	ENST00000370495.4:c.454T>C	10.37:g.101373519A>G	ENSP00000359526:p.Tyr152His	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VBZ0|Q5T777|Q86VX5|Q969G8|Q9H2J3	Missense_Mutation	SNP	ENST00000370495.4	37	CCDS41559.1	.	.	.	.	.	.	.	.	.	.	A	24.7	4.565618	0.86439	.	.	ENSG00000155287	ENST00000370495	D	0.84873	-1.91	5.26	5.26	0.73747	Mitochondrial carrier domain (2);	0.000000	0.64402	D	0.000001	D	0.95674	0.8593	H	0.98918	4.37	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.97451	1.0028	10	0.72032	D	0.01	-20.6478	15.3365	0.74260	1.0:0.0:0.0:0.0	.	152	Q96A46	MFRN2_HUMAN	H	152	ENSP00000359526:Y152H	ENSP00000359526:Y152H	Y	-	1	0	SLC25A28	101363509	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.735000	0.91549	2.208000	0.71279	0.459000	0.35465	TAC		0.522	SLC25A28-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049801.1	NM_031212		G	101373519	A	G	101373519	3	3	636	1	0	0	0	0	1	0	0	0	14504	420	15	3	652	3	SLC25A28	10	101373519	Missense_Mutation	SNP	A	TCGA-KL-8337-01A-11D-2310-10		101373519	34161228	35	39252										
CALHM2	51063	bcgsc.ca	37	chr10	105209398	105209398	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	caggatggagcttagaaggaGgaaggtgggggcggcggagc	22	5	0	1			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr10:105209398G>A	ENST00000260743.5	-	3	824	c.301C>T	c.(301-303)Ctc>Ttc	p.L101F	RP11-225H22.7_ENST00000608063.1_RNA|CALHM2_ENST00000393235.1_Missense_Mutation_p.L101F|CALHM2_ENST00000369788.3_Missense_Mutation_p.L101F|CALHM2_ENST00000494180.1_5'UTR	NM_015916.4	NP_057000.2	Q9HA72	CAHM2_HUMAN	calcium homeostasis modulator 2	101					ion transport (GO:0006811)	integral component of membrane (GO:0016021)				NS(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(5)|skin(1)	11						CTTAGAAGGAGGAAGGTGGGG	0.602																																																0													76	75	76					10																	105209398		2203	4300	6503	SO:0001583	missense	51063			BC000039	CCDS7549.1	10q24.33	2008-07-02	2008-07-02	2008-07-02	ENSG00000138172	ENSG00000138172			23493	protein-coding gene	gene with protein product		612235	"family with sequence similarity 26, member B"	FAM26B		18585350	Standard	NM_015916		Approved		uc001kxa.3	Q9HA72	OTTHUMG00000018990	ENST00000260743.5:c.301C>T	10.37:g.105209398G>A	ENSP00000260743:p.Leu101Phe	Somatic		WXS	Illumina HiSeq	Phase_I	D3DR94|O95893|Q6ZUV9	Missense_Mutation	SNP	ENST00000260743.5	37	CCDS7549.1	.	.	.	.	.	.	.	.	.	.	G	18.43	3.622214	0.66787	.	.	ENSG00000138172	ENST00000369788;ENST00000260743;ENST00000393235	T;T;T	0.18810	2.19;2.19;2.19	5.31	5.31	0.75309	.	0.147583	0.44285	D	0.000467	T	0.27697	0.0681	L	0.32530	0.975	0.44323	D	0.997208	D;D;B	0.71674	0.998;0.993;0.081	D;P;B	0.69142	0.962;0.857;0.061	T	0.04650	-1.0936	10	0.09843	T	0.71	-21.218	9.6544	0.39917	0.1548:0.0:0.8452:0.0	.	101;101;101	Q9HA72-2;Q9HA72-3;Q9HA72	.;.;CAHM2_HUMAN	F	101	ENSP00000358803:L101F;ENSP00000260743:L101F;ENSP00000376927:L101F	ENSP00000260743:L101F	L	-	1	0	CALHM2	105199388	1.000000	0.71417	1.000000	0.80357	0.849000	0.48306	2.876000	0.48498	2.474000	0.83562	0.561000	0.74099	CTC		0.602	CALHM2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050159.1	NM_015916		A	105209398	G	A	105209398	3	1	636	1	0	0	0	0	1	0	0	0	2585	1000	35	2	678	2	CALHM2	10	105209398	Missense_Mutation	SNP	G	TCGA-KL-8337-01A-11D-2310-10	3835879	105209398	30325349	36	39253										
MUC2	4583	broad.mit.edu;mdanderson.org	37	chr11	1092631	1092631	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	ccagccctccaaccaccactCccagccctccaacaaccacc	2	25	0	0			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr11:1092631C>T	ENST00000441003.2	+	30	4477	c.4450C>T	c.(4450-4452)Ccc>Tcc	p.P1484S	MUC2_ENST00000333592.6_5'Flank|MUC2_ENST00000359061.5_Missense_Mutation_p.P1485S|MUC2_ENST00000361558.6_Intron	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	4219	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	aaccaccactcccaGCCCTCC	0.627																																																0													245	372	327					11																	1092631		1617	3015	4632	SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4450C>T	11.37:g.1092631C>T	ENSP00000415183:p.Pro1484Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	c	0.346	-0.947869	0.02304	.	.	ENSG00000198788	ENST00000441003;ENST00000359061	T;T	0.13307	2.67;2.6	1.51	-3.01	0.05463	.	2582.360000	0.00783	U	0.001290	T	0.05364	0.0142	.	.	.	0.09310	N	1	B	0.17852	0.024	B	0.09377	0.004	T	0.22765	-1.0207	9	0.09590	T	0.72	.	0.5823	0.00714	0.3056:0.3209:0.141:0.2324	.	1484	E7EUV1	.	S	1484;1485	ENSP00000415183:P1484S;ENSP00000351956:P1485S	ENSP00000351956:P1485S	P	+	1	0	MUC2	1082631	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-2.001000	0.01465	-1.883000	0.01120	0.000000	0.15137	CCC		0.627	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		T	1092631	C	T	1092631	3	4	636	1	0	0	0	0	1	0	0	0	9982	855	30	2	4568	2	MUC2	11	1092631	Missense_Mutation	SNP	C	TCGA-KL-8337-01A-11D-2310-10		1092631	133913885	37	39254										
KRTAP5-5	439915	mdanderson.org	37	chr11	1651645	1651645	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	gtccagctgctgtaagccctActgctgccagtccagctgct	10	15	0	0	rs77039648		TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr11:1651645A>G	ENST00000399676.2	+	1	613	c.575A>G	c.(574-576)tAc>tGc	p.Y192C		NM_001001480.2	NP_001001480.2	Q701N2	KRA55_HUMAN	keratin associated protein 5-5	192	8 X 4 AA repeats of C-C-X-P.					keratin filament (GO:0045095)				endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(17)|ovary(2)|prostate(5)|urinary_tract(1)	33		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)		TGTAAGCCCTACTGCTGCCAG	0.602																																																0													78	86	83					11																	1651645		2200	4299	6499	SO:0001583	missense	439915			AB125074	CCDS41592.1	11p15.5	2008-10-30			ENSG00000185940	ENSG00000185940		"Keratin associated proteins"	23601	protein-coding gene	gene with protein product						15144888	Standard	NM_001001480		Approved	KRTAP5.5, KRTAP5-11	uc001lty.3	Q701N2	OTTHUMG00000057554	ENST00000399676.2:c.575A>G	11.37:g.1651645A>G	ENSP00000382584:p.Tyr192Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8MWN2	Missense_Mutation	SNP	ENST00000399676.2	37	CCDS41592.1	.	.	.	.	.	.	.	.	.	.	a	0.016	-1.537048	0.00942	.	.	ENSG00000185940	ENST00000399676;ENST00000422553	T	0.01323	5.01	2.94	0.953	0.19590	.	.	.	.	.	T	0.00468	0.0015	N	0.00186	-1.895	0.58432	P	4.000000000004E-6	B	0.02656	0.0	B	0.01281	0.0	T	0.42413	-0.9453	8	0.37606	T	0.19	.	4.0328	0.09716	0.1469:0.2455:0.6076:0.0	.	192	Q701N2	KRA55_HUMAN	C	192;163	ENSP00000382584:Y192C	ENSP00000382584:Y192C	Y	+	2	0	KRTAP5-5	1608221	0.002000	0.14202	0.035000	0.18076	0.003000	0.03518	0.006000	0.13152	0.009000	0.14813	-1.591000	0.00844	TAC		0.602	KRTAP5-5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000127919.1			G	1651645	A	G	1651645	3	3	636	1	0	0	0	0	1	0	0	0	8571	391	14	3	577	3	KRTAP5-5	11	1651645	Missense_Mutation	SNP	A	TCGA-KL-8337-01A-11D-2310-10	559014	1651645	133354871	38	39255										
INS-IGF2	723961	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	2168965	2168965	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	gcagggggctgagctggcagCgattcagagccctggggctg	19	10	1	2			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr11:2168965C>T	ENST00000397270.1	-	4	538	c.480G>A	c.(478-480)tcG>tcA	p.S160S	INS-IGF2_ENST00000481781.1_5'UTR|IGF2_ENST00000300632.5_5'UTR|IGF2-AS_ENST00000381363.4_RNA|IGF2-AS_ENST00000445504.2_RNA|IGF2-AS_ENST00000381361.3_RNA	NM_001042376.2	NP_001035835.1	F8WCM5	INSR2_HUMAN	INS-IGF2 readthrough	160						extracellular region (GO:0005576)				haematopoietic_and_lymphoid_tissue(1)|lung(3)|prostate(1)	5		all_epithelial(84;0.00018)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)|all_lung(207;0.24)	Colorectal(5;0.00245)|COAD - Colon adenocarcinoma(6;0.0239)	BRCA - Breast invasive adenocarcinoma(625;0.00256)|LUSC - Lung squamous cell carcinoma(625;0.0832)|Lung(200;0.156)		GAGCTGGCAGCGATTCAGAGC	0.647																																																0													9	11	10					11																	2168965		1802	3876	5678	SO:0001819	synonymous_variant	723961			DQ104205	CCDS41598.1	11p15.5	2011-03-23			ENSG00000129965	ENSG00000129965			33527	other	readthrough						16531418	Standard	NM_001042376		Approved		uc001lvm.3	F8WCM5	OTTHUMG00000166213	ENST00000397270.1:c.480G>A	11.37:g.2168965C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q1WM24	Silent	SNP	ENST00000397270.1	37	CCDS41598.1																																																																																				0.647	INS-IGF2-001	KNOWN	basic|appris_principal|readthrough_transcript|CCDS	protein_coding	protein_coding	OTTHUMT00000388404.1	NM_001042376.2		T	2168965	C	T	2168965	2	4	636	1	0	0	0	0	0	0	0	1	7770	755	27	1		1	INS-IGF2	11	2168965	Silent	SNP	C	TCGA-KL-8337-01A-11D-2310-10	517320	2168965	132837551	39	39256										
CCDC73	493860	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	32635093	32635093	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	acaaagaaatgcaaggggtcGaactgctcgctgtttgactt	11	8	0	2	rs201737265		TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr11:32635093G>A	ENST00000335185.5	-	16	2814	c.2771C>T	c.(2770-2772)tCg>tTg	p.S924L	CCDC73_ENST00000534415.1_5'Flank	NM_001008391.2	NP_001008392.2	Q6ZRK6	CCD73_HUMAN	coiled-coil domain containing 73	924										NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(9)|lung(20)|ovary(2)|prostate(2)|skin(2)|stomach(1)|urinary_tract(2)	51	Breast(20;0.112)					GCAAGGGGTCGAACTGCTCGC	0.378													G|||	1	0.000199681	0.0	0.0	5008	,	,		16516	0.001		0.0	False		,,,				2504	0.0															0													126	116	120					11																	32635093		1837	4075	5912	SO:0001583	missense	493860			AK128159	CCDS41630.1	11p13	2006-02-11			ENSG00000186714	ENSG00000186714			23261	protein-coding gene	gene with protein product		612328					Standard	NM_001008391		Approved	NY-SAR-79	uc001mtv.4	Q6ZRK6	OTTHUMG00000166279	ENST00000335185.5:c.2771C>T	11.37:g.32635093G>A	ENSP00000335325:p.Ser924Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P5Q7|Q6ZMW0|Q86WE7	Missense_Mutation	SNP	ENST00000335185.5	37	CCDS41630.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	G	4.192	0.034318	0.08101	.	.	ENSG00000186714	ENST00000335185	.	.	.	5.18	0.492	0.16872	.	1.274690	0.05407	N	0.541652	T	0.33904	0.0879	L	0.38838	1.175	0.20074	N	0.999939	B	0.25169	0.119	B	0.17979	0.02	T	0.29119	-1.0022	9	0.36615	T	0.2	.	10.1385	0.42721	0.3216:0.0:0.6784:0.0	.	924	Q6ZRK6	CCD73_HUMAN	L	924	.	ENSP00000335325:S924L	S	-	2	0	CCDC73	32591669	0.991000	0.36638	0.009000	0.14445	0.015000	0.08874	1.933000	0.40153	0.183000	0.20059	0.544000	0.68410	TCG		0.378	CCDC73-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388874.2	NM_001008391		A	32635093	G	A	32635093	3	1	636	1	0	0	0	0	1	0	0	0	2848	1059	37	1	480	1	CCDC73	11	32635093	Missense_Mutation	SNP	G	TCGA-KL-8337-01A-11D-2310-10	30466128	32635093	102371423	40	39257										
GAL3ST3	89792	ucsc.edu	37	chr11	65810618	65810618	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	ccgccaggtaggcggcgtcgTcgcgcgggctgcgctcattg	17	14	1	0			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr11:65810618T>C	ENST00000312006.4	-	3	937	c.656A>G	c.(655-657)gAc>gGc	p.D219G	GAL3ST3_ENST00000527878.1_Missense_Mutation_p.D219G	NM_033036.2	NP_149025.1	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	219					monosaccharide metabolic process (GO:0005996)|oligosaccharide metabolic process (GO:0009311)|poly-N-acetyllactosamine metabolic process (GO:0030309)|proteoglycan biosynthetic process (GO:0030166)|sulfur compound metabolic process (GO:0006790)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	3'-phosphoadenosine 5'-phosphosulfate binding (GO:0050656)|carbohydrate binding (GO:0030246)|galactose 3-O-sulfotransferase activity (GO:0050694)|galactosylceramide sulfotransferase activity (GO:0001733)|proteoglycan sulfotransferase activity (GO:0050698)			kidney(1)|lung(9)|ovary(2)|skin(2)	14						GGCGGCGTCGTCGCGCGGGCT	0.667																																																0													33	38	36					11																	65810618		2199	4292	6491	SO:0001583	missense	89792			AY026481	CCDS8128.1	11q13.1	2014-08-12			ENSG00000175229	ENSG00000175229		"Sulfotransferases, membrane-bound"	24144	protein-coding gene	gene with protein product		608234				11323440, 11356829	Standard	NM_033036		Approved	GAL3ST2	uc001ogw.3	Q96A11	OTTHUMG00000166667	ENST00000312006.4:c.656A>G	11.37:g.65810618T>C	ENSP00000308591:p.Asp219Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q14D05	Missense_Mutation	SNP	ENST00000312006.4	37	CCDS8128.1	.	.	.	.	.	.	.	.	.	.	T	11.86	1.763983	0.31228	.	.	ENSG00000175229	ENST00000312006;ENST00000527878	T;T	0.14640	2.49;2.49	3.99	3.99	0.46301	.	0.639319	0.15481	N	0.260103	T	0.08846	0.0219	N	0.14661	0.345	0.09310	N	0.999993	B	0.14012	0.009	B	0.17722	0.019	T	0.19516	-1.0303	10	0.56958	D	0.05	-21.5566	9.4764	0.38873	0.0:0.0:0.0:1.0	.	219	Q96A11	G3ST3_HUMAN	G	219	ENSP00000308591:D219G;ENSP00000434829:D219G	ENSP00000308591:D219G	D	-	2	0	GAL3ST3	65567194	0.085000	0.21516	0.998000	0.56505	0.987000	0.75469	2.256000	0.43231	1.800000	0.52685	0.459000	0.35465	GAC		0.667	GAL3ST3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391052.1	NM_033036		C	65810618	T	C	65810618	3	2	636	1	0	0	0	0	1	0	0	0	6206	1667	58	3	643	3	GAL3ST3	11	65810618	Missense_Mutation	SNP	T	TCGA-KL-8337-01A-11D-2310-10	33175525	65810618	69195898	41	39258										
MAML2	84441	mdanderson.org	37	chr11	95825362	95825362	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	tgttgctgttgctgttgctgCtgctgctgctgttgctgctg	14	9	0	0			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr11:95825362C>T	ENST00000524717.1	-	2	3117	c.1833G>A	c.(1831-1833)caG>caA	p.Q611Q		NM_032427.1	NP_115803.1	Q8IZL2	MAML2_HUMAN	mastermind-like 2 (Drosophila)	611					gene expression (GO:0010467)|Notch signaling pathway (GO:0007219)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription initiation from RNA polymerase II promoter (GO:0006367)	Golgi apparatus (GO:0005794)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)	p.Q611Q(2)	CRTC3/MAML2(26)|CRTC1/MAML2(516)	breast(2)|cervix(1)|endometrium(11)|kidney(4)|large_intestine(8)|lung(12)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	43		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				gctgttgctgctgctgctgct	0.542			T	"MECT1, CRTC3"	salivary gland mucoepidermoid																																		Dom	yes		11	11q22-q23	84441	mastermind-like 2 (Drosophila)		E	2	Substitution - coding silent(2)	endometrium(1)|kidney(1)											39	44	42					11																	95825362		2057	4042	6099	SO:0001819	synonymous_variant	84441			AB058722	CCDS44714.1	11q	2008-02-05	2001-11-28		ENSG00000184384	ENSG00000184384			16259	protein-coding gene	gene with protein product		607537	"mastermind (Drosophila)-like 2"			12370315, 12386158	Standard	NM_032427		Approved	KIAA1819, MAM3	uc001pfw.1	Q8IZL2	OTTHUMG00000167677	ENST00000524717.1:c.1833G>A	11.37:g.95825362C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7MD26|Q6AI23|Q6Y3A3|Q8IUL3|Q96JK6	Silent	SNP	ENST00000524717.1	37	CCDS44714.1																																																																																				0.542	MAML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395540.1			T	95825362	C	T	95825362	2	4	636	1	0	0	0	0	0	0	0	1	9213	796	28	2		2	MAML2	11	95825362	Silent	SNP	C	TCGA-KL-8337-01A-11D-2310-10	30014744	95825362	39181154	42	39259										
PRB2	653247	mdanderson.org	37	chr12	11546495	11546495	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	ctttcctggaggagatcgagAacttcgggacttgttgtctc	12	9	1	2	rs567948307	byFrequency	TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr12:11546495A>C	ENST00000389362.4	-	3	552	c.517T>G	c.(517-519)Tct>Gct	p.S173A	PRB2_ENST00000545829.1_5'Flank|PRB1_ENST00000546254.1_Intron	NM_006248.3	NP_006239.3	P02812	PRB2_HUMAN	proline-rich protein BstNI subfamily 2	173	15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-P-Q-G-[GD]-[NKS]-[KSQ]- [PRS]-[QRS] [GPS]-[PSAR]-[PSR].					extracellular region (GO:0005576)				NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(14)|pancreas(1)|prostate(5)|skin(4)|stomach(2)|urinary_tract(1)	37		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			GGAGATCGAGAACTTCGGGAC	0.607																																																0													276	256	263					12																	11546495		2200	4299	6499	SO:0001583	missense	653247			K03208	CCDS41757.2	12p13.2	2012-10-02			ENSG00000121335	ENSG00000121335			9338	protein-coding gene	gene with protein product		168810				8554050	Standard	NM_006248		Approved	PRPPRB1, Ps, cP7	uc010shk.1	P02812	OTTHUMG00000156975	ENST00000389362.4:c.517T>G	12.37:g.11546495A>C	ENSP00000374013:p.Ser173Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O00599|P02811|P04281	Missense_Mutation	SNP	ENST00000389362.4	37	CCDS41757.2	.	.	.	.	.	.	.	.	.	.	.	0.015	-1.550172	0.00926	.	.	ENSG00000121335	ENST00000389362	T	0.04083	3.71	1.07	-1.34	0.09143	.	0.224686	0.18466	U	0.140380	T	0.01627	0.0052	N	0.08118	0	0.09310	N	1	B	0.31893	0.345	B	0.25291	0.059	T	0.46884	-0.9159	10	0.07175	T	0.84	.	5.5822	0.17256	0.2598:0.0:0.7402:0.0	.	173	P02812	PRB2_HUMAN	A	173	ENSP00000374013:S173A	ENSP00000374013:S173A	S	-	1	0	PRB2	11437762	0.000000	0.05858	0.002000	0.10522	0.154000	0.21943	-5.737000	0.00101	-0.425000	0.07371	0.092000	0.15492	TCT		0.607	PRB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346925.2	NM_006248		C	11546495	A	C	11546495	3	2	636	1	0	0	0	0	1	0	0	0	12453	246	9	5	737	5	PRB2	12	11546495	Missense_Mutation	SNP	A	TCGA-KL-8337-01A-11D-2310-10		11546495	122305400	43	39260										
KRT86	3892	mdanderson.org	37	chr12	52699044	52699044	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	gagatccgcgttctccagtcCcacatctcagacacctccgt	7	17	2	2	rs61915660	byFrequency	TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr12:52699044C>G	ENST00000423955.2	+	7	934	c.756C>G	c.(754-756)tcC>tcG	p.S252S	KRT86_ENST00000544024.1_Silent_p.S252S|RP11-845M18.6_ENST00000552441.1_RNA|KRT86_ENST00000293525.5_Silent_p.S252S			O43790	KRT86_HUMAN	keratin 86	252	Coil 1B.|Rod.					extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|keratin filament (GO:0045095)	structural molecule activity (GO:0005198)			breast(1)|cervix(1)|large_intestine(1)|lung(5)|ovary(1)|skin(1)	10				BRCA - Breast invasive adenocarcinoma(357;0.189)		TTCTCCAGTCCCACATCTCAG	0.557																																																0													150	129	136					12																	52699044		2203	4300	6503	SO:0001819	synonymous_variant	3892			X99142	CCDS41785.1	12q13	2013-01-16	2006-07-17	2006-07-17		ENSG00000170442		"-", "Intermediate filaments type II, keratins (basic)"	6463	protein-coding gene	gene with protein product	"hard keratin type II 6"	601928	"keratin, hair, basic, 6 (monilethrix)"	KRTHB6		9241275, 16831889	Standard	NM_002284		Approved	MNX, Hb6	uc001sad.3	O43790		ENST00000423955.2:c.756C>G	12.37:g.52699044C>G		Somatic		WXS	Illumina HiSeq	Phase_I	P78387	Silent	SNP	ENST00000423955.2	37	CCDS41785.1																																																																																				0.557	KRT86-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404911.1	NM_002284		G	52699044	C	G	52699044	2	3	636	1	0	0	0	0	0	0	0	1	8507	610	22	4		4	KRT86	12	52699044	Silent	SNP	C	TCGA-KL-8337-01A-11D-2310-10	41152549	52699044	81152851	44	39261										
STRN3	29966	broad.mit.edu	37	chr14	31420078	31420078	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	taattactcactgtcttaaaAgctgtctgccttgcttccac	5	12	3	0			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr14:31420078A>G	ENST00000357479.5	-	4	729	c.533T>C	c.(532-534)cTt>cCt	p.L178P	STRN3_ENST00000355683.5_Missense_Mutation_p.L178P	NM_001083893.1	NP_001077362.1	Q13033	STRN3_HUMAN	striatin, calmodulin binding protein 3	178	Calmodulin-binding. {ECO:0000255}.				negative regulation of intracellular estrogen receptor signaling pathway (GO:0033147)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|response to estradiol (GO:0032355)	cytoplasm (GO:0005737)|dendrite (GO:0030425)|Golgi apparatus (GO:0005794)|neuronal cell body (GO:0043025)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	armadillo repeat domain binding (GO:0070016)|calmodulin binding (GO:0005516)|protein complex binding (GO:0032403)|protein phosphatase 2A binding (GO:0051721)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(2)|lung(7)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	20	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;0.0124)		CTGTCTTAAAAGCTGTCTGCC	0.348																																																0													131	130	130					14																	31420078		2203	4300	6503	SO:0001583	missense	29966				CCDS9641.1, CCDS41938.1	14q13-q21	2013-01-10			ENSG00000196792	ENSG00000196792		"WD repeat domain containing"	15720	protein-coding gene	gene with protein product	"cell cycle S/G2 nuclear autoantigen"	614766				7864889, 10681496	Standard	NM_014574		Approved	SG2NA	uc001wqu.2	Q13033	OTTHUMG00000140201	ENST00000357479.5:c.533T>C	14.37:g.31420078A>G	ENSP00000350071:p.Leu178Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A2RTX7|A6NHZ7|Q9NRA5	Missense_Mutation	SNP	ENST00000357479.5	37	CCDS41938.1	.	.	.	.	.	.	.	.	.	.	A	23.9	4.466525	0.84425	.	.	ENSG00000196792	ENST00000355683;ENST00000357479;ENST00000555152	D;D	0.86097	-2.07;-2.07	5.93	5.93	0.95920	Striatin, N-terminal (1);	0.000000	0.85682	D	0.000000	D	0.93354	0.7881	M	0.86864	2.845	0.80722	D	1	D;D	0.89917	0.996;1.0	D;D	0.91635	0.91;0.999	D	0.94299	0.7535	10	0.87932	D	0	-17.0829	16.4321	0.83853	1.0:0.0:0.0:0.0	.	178;178	Q13033-2;Q13033	.;STRN3_HUMAN	P	178;178;59	ENSP00000347909:L178P;ENSP00000350071:L178P	ENSP00000347909:L178P	L	-	2	0	STRN3	30489829	1.000000	0.71417	0.998000	0.56505	0.975000	0.68041	8.604000	0.90877	2.281000	0.76405	0.529000	0.55759	CTT		0.348	STRN3-002	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409713.1	NM_014574		G	31420078	A	G	31420078	3	3	636	1	0	0	0	0	1	0	0	0	15342	72	3	3	1920	3	STRN3	14	31420078	Missense_Mutation	SNP	A	TCGA-KL-8337-01A-11D-2310-10		31420078	75929462	45	39262										
AHNAK2	113146	mdanderson.org	37	chr14	105411784	105411784	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	cgtcggcctccgccttcggcGcagacacatccaccgaggcc	11	19	0	1	rs371364837		TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr14:105411784G>T	ENST00000333244.5	-	7	10123	c.10004C>A	c.(10003-10005)gCg>gAg	p.A3335E	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3335						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			CGCCTTCGGCGCAGACACATC	0.602																																																0													150	153	152					14																	105411784		1986	4152	6138	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.10004C>A	14.37:g.105411784G>T	ENSP00000353114:p.Ala3335Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	.	.	.	.	.	.	.	.	.	.	g	10.45	1.353939	0.24512	.	.	ENSG00000185567	ENST00000333244	T	0.00949	5.51	3.83	-3.74	0.04385	.	.	.	.	.	T	0.01189	0.0039	M	0.70275	2.135	0.09310	N	1	B	0.31040	0.305	B	0.36808	0.233	T	0.48364	-0.9042	9	0.02654	T	1	.	5.4244	0.16417	0.4015:0.2619:0.3366:0.0	.	3335	Q8IVF2	AHNK2_HUMAN	E	3335	ENSP00000353114:A3335E	ENSP00000353114:A3335E	A	-	2	0	AHNAK2	104482829	0.027000	0.19231	0.000000	0.03702	0.001000	0.01503	-0.307000	0.08167	-1.065000	0.03168	-1.424000	0.01105	GCG		0.602	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		T	105411784	G	T	105411784	3	4	636	1	0	0	0	0	1	0	0	0	415	1087	38	4	7387	4	AHNAK2	14	105411784	Missense_Mutation	SNP	G	TCGA-KL-8337-01A-11D-2310-10	73991706	105411784	1937756	46	39263										
SPESP1	246777	broad.mit.edu	37	chr15	69238206	69238206	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	ggcttcacaccggaaataggAaagaaaaaacacacggaaag	10	8	1	1			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr15:69238206A>G	ENST00000310673.3	+	2	487	c.333A>G	c.(331-333)ggA>ggG	p.G111G	NOX5_ENST00000260364.5_Intron|NOX5_ENST00000455873.3_Intron|RP11-809H16.2_ENST00000557966.1_RNA|NOX5_ENST00000448182.3_Intron|SPESP1_ENST00000560188.1_3'UTR	NM_145658.3	NP_663633.1	Q6UW49	SPESP_HUMAN	sperm equatorial segment protein 1	111					acrosome reaction (GO:0007340)|fusion of sperm to egg plasma membrane (GO:0007342)|multicellular organismal development (GO:0007275)	acrosomal vesicle (GO:0001669)				breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(11)|prostate(1)|skin(1)|urinary_tract(1)	19						CGGAAATAGGAAAGAAAAAAC	0.398																																																0													61	62	62					15																	69238206		2200	4298	6498	SO:0001819	synonymous_variant	246777			AF275321	CCDS10230.1	15q22.31	2011-04-15				ENSG00000258484			15570	protein-coding gene	gene with protein product		609399				12773409	Standard	NM_145658		Approved	SP-ESP	uc002arn.2	Q6UW49		ENST00000310673.3:c.333A>G	15.37:g.69238206A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NG22|Q8WVH8	Silent	SNP	ENST00000310673.3	37	CCDS10230.1																																																																																				0.398	SPESP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257125.1	NM_145658		G	69238206	A	G	69238206	2	3	636	1	0	0	0	0	0	0	0	1	15052	233	9	3		3	SPESP1	15	69238206	Silent	SNP	A	TCGA-KL-8337-01A-11D-2310-10		69238206	33293186	47	39264										
PKM2	5315	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr15	72492092	72492092	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	cttcttgaagaagcctcgggCcttgcctggaggaagagaag	14	9	1	3			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr15:72492092C>T	ENST00000335181.5	-	11	1598	c.1495G>A	c.(1495-1497)Gcc>Acc	p.A499T	GRAMD2_ENST00000309731.7_5'Flank|PKM_ENST00000565154.1_Missense_Mutation_p.A499T|PKM_ENST00000568883.1_Missense_Mutation_p.A334T|PKM_ENST00000568459.1_Missense_Mutation_p.A499T|PKM_ENST00000449901.2_Missense_Mutation_p.A484T|PKM_ENST00000565184.1_Missense_Mutation_p.A499T|PKM_ENST00000389093.3_Missense_Mutation_p.A499T|PKM_ENST00000319622.6_Missense_Mutation_p.A499T	NM_002654.4	NP_002645.3	P14618	KPYM_HUMAN	pyruvate kinase, muscle	499	Interaction with POU5F1.				carbohydrate metabolic process (GO:0005975)|glucose metabolic process (GO:0006006)|glycolytic process (GO:0006096)|programmed cell death (GO:0012501)|small molecule metabolic process (GO:0044281)	cilium (GO:0005929)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular matrix (GO:0031012)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|MHC class II protein complex binding (GO:0023026)|poly(A) RNA binding (GO:0044822)|potassium ion binding (GO:0030955)|pyruvate kinase activity (GO:0004743)			endometrium(1)|lung(7)	8					Pyruvic acid(DB00119)	AAGCCTCGGGCCTTGCCTGGA	0.587											OREG0023252	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													45	41	42					15																	72492092		2199	4297	6496	SO:0001583	missense	5315			M23725	CCDS32284.1, CCDS32285.1, CCDS55972.1, CCDS73752.1	15q23	2012-10-02		2012-05-23	ENSG00000067225	ENSG00000067225	2.7.1.40		9021	protein-coding gene	gene with protein product		179050		PKM2		2040271	Standard	NM_002654		Approved	THBP1, OIP3, PK3	uc002atr.1	P14618	OTTHUMG00000172709	ENST00000335181.5:c.1495G>A	15.37:g.72492092C>T	ENSP00000334983:p.Ala499Thr	Somatic	1138	WXS	Illumina HiSeq	Phase_I	A6NFK3|B2R5N8|B3KRY0|B4DFX8|B4DUU6|P14786|Q53GK4|Q96E76|Q9BWB5|Q9UCV6|Q9UPF2	Missense_Mutation	SNP	ENST00000335181.5	37	CCDS32284.1	.	.	.	.	.	.	.	.	.	.	C	15.82	2.947399	0.53186	.	.	ENSG00000067225	ENST00000319622;ENST00000335181;ENST00000434220;ENST00000327974;ENST00000389093;ENST00000449901	D;D;D;D	0.99051	-5.37;-5.37;-5.37;-5.37	5.33	5.33	0.75918	Pyruvate kinase, C-terminal (2);Pyruvate kinase, alpha/beta (1);	0.051452	0.85682	D	0.000000	D	0.97816	0.9283	M	0.61703	1.905	0.58432	D	0.999999	B;B;B;B;B;B;B;B	0.12630	0.001;0.005;0.0;0.0;0.0;0.003;0.0;0.006	B;B;B;B;B;B;B;B	0.14578	0.003;0.011;0.007;0.002;0.003;0.009;0.003;0.009	D	0.97679	1.0171	10	0.16896	T	0.51	-14.6084	19.3858	0.94555	0.0:1.0:0.0:0.0	.	425;484;479;499;499;334;426;334	B4DNK4;B4DUU6;E7EUQ8;P14618;P14618-2;Q504U3;E9PF79;E7EUJ4	.;.;.;KPYM_HUMAN;.;.;.;.	T	499;499;426;334;499;484	ENSP00000320171:A499T;ENSP00000334983:A499T;ENSP00000373745:A499T;ENSP00000403365:A484T	ENSP00000320171:A499T	A	-	1	0	PKM2	70279146	1.000000	0.71417	1.000000	0.80357	0.945000	0.59286	4.787000	0.62432	2.659000	0.90383	0.561000	0.74099	GCC		0.587	PKM-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000420056.1			T	72492092	C	T	72492092	3	4	636	1	0	0	0	0	1	0	0	0	11984	739	26	2	104	2	PKM2	15	72492092	Missense_Mutation	SNP	C	TCGA-KL-8337-01A-11D-2310-10	3253886	72492092	30039300	48	39265										
SRRM2	23524	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	2813651	2813651	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	tctctgtgcaggagtaaaatCtagcacaccaccaggcgaga	10	11	2	1			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr16:2813651C>A	ENST00000301740.8	+	11	3671	c.3122C>A	c.(3121-3123)tCt>tAt	p.S1041Y		NM_016333.3	NP_057417.3	Q9UQ35	SRRM2_HUMAN	serine/arginine repetitive matrix 2	1041	Ser-rich.				mRNA splicing, via spliceosome (GO:0000398)	Cajal body (GO:0015030)|catalytic step 2 spliceosome (GO:0071013)|nuclear speck (GO:0016607)|nucleus (GO:0005634)	C2H2 zinc finger domain binding (GO:0070742)|poly(A) RNA binding (GO:0044822)|protein N-terminus binding (GO:0047485)			breast(3)|central_nervous_system(1)|cervix(3)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(20)|lung(34)|ovary(6)|pancreas(3)|prostate(2)|skin(6)|upper_aerodigestive_tract(3)|urinary_tract(7)	105						GGAGTAAAATCTAGCACACCA	0.458																																																0													94	95	95					16																	2813651		2198	4300	6498	SO:0001583	missense	23524			AF201422	CCDS32373.1	16p13.3	2012-07-02			ENSG00000167978	ENSG00000167978			16639	protein-coding gene	gene with protein product		606032				10668804, 11004489	Standard	NM_016333		Approved	SRm300, SRL300, KIAA0324, Cwc21	uc002crk.3	Q9UQ35	OTTHUMG00000177358	ENST00000301740.8:c.3122C>A	16.37:g.2813651C>A	ENSP00000301740:p.Ser1041Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB9|D3DU97|O15038|O94803|Q6NSL3|Q6PIM3|Q6PK40|Q8IW17|Q96GY7|Q9P0G1|Q9UHA8|Q9UQ36|Q9UQ37|Q9UQ38|Q9UQ40	Missense_Mutation	SNP	ENST00000301740.8	37	CCDS32373.1	.	.	.	.	.	.	.	.	.	.	C	12.29	1.892469	0.33442	.	.	ENSG00000167978	ENST00000301740;ENST00000382301;ENST00000544933	T	0.27256	1.68	5.54	5.54	0.83059	.	0.522580	0.19245	N	0.119072	T	0.25082	0.0609	L	0.34521	1.04	0.35720	D	0.817096	P	0.44090	0.826	B	0.41088	0.347	T	0.26258	-1.0108	10	0.66056	D	0.02	-0.5501	16.9676	0.86290	0.0:1.0:0.0:0.0	.	1041	Q9UQ35	SRRM2_HUMAN	Y	1041;1041;293	ENSP00000301740:S1041Y	ENSP00000301740:S1041Y	S	+	2	0	SRRM2	2753652	0.060000	0.20803	0.975000	0.42487	0.454000	0.32378	2.762000	0.47597	2.622000	0.88805	0.655000	0.94253	TCT		0.458	SRRM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000436411.1			A	2813651	C	A	2813651	3	1	636	1	0	0	0	0	1	0	0	0	15181	913	32	4	3160	4	SRRM2	16	2813651	Missense_Mutation	SNP	C	TCGA-KL-8337-01A-11D-2310-10		2813651	87541102	49	39266										
CORO1A	11151	ucsc.edu	37	chr16	30198795	30198795	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	acgggcttcagccgcatgagTgagcggcaggtggcgctgtg	18	10	1	2			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr16:30198795T>C	ENST00000219150.5	+	6	1034	c.729T>C	c.(727-729)agT>agC	p.S243S	RP11-455F5.5_ENST00000567153.1_RNA|RP11-455F5.5_ENST00000568506.1_RNA|RP11-455F5.5_ENST00000566144.1_RNA|CORO1A_ENST00000565497.1_Silent_p.S243S|CORO1A_ENST00000570045.1_Silent_p.S243S	NM_001193333.2|NM_007074.3	NP_001180262.1|NP_009005.1	P31146	COR1A_HUMAN	coronin, actin binding protein, 1A	243					actin cytoskeleton organization (GO:0030036)|actin filament organization (GO:0007015)|calcium ion transport (GO:0006816)|cell-substrate adhesion (GO:0031589)|cellular component movement (GO:0006928)|cellular response to interleukin-4 (GO:0071353)|homeostasis of number of cells within a tissue (GO:0048873)|innate immune response (GO:0045087)|leukocyte chemotaxis (GO:0030595)|negative regulation of actin nucleation (GO:0051126)|phagocytosis (GO:0006909)|phagolysosome assembly (GO:0001845)|positive chemotaxis (GO:0050918)|positive regulation of cell migration (GO:0030335)|positive regulation of T cell proliferation (GO:0042102)|regulation of actin filament polymerization (GO:0030833)|regulation of cell shape (GO:0008360)|T cell homeostasis (GO:0043029)|uropod organization (GO:0032796)	actin filament (GO:0005884)|cell-cell junction (GO:0005911)|cortical actin cytoskeleton (GO:0030864)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|immunological synapse (GO:0001772)|lamellipodium (GO:0030027)|membrane (GO:0016020)|phagocytic cup (GO:0001891)|phagocytic vesicle (GO:0045335)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	actin filament binding (GO:0051015)|cytoskeletal protein binding (GO:0008092)|phosphatidylinositol 3-kinase binding (GO:0043548)|poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)|protein homodimerization activity (GO:0042803)			central_nervous_system(1)|kidney(2)|large_intestine(1)|lung(3)|ovary(1)|skin(1)	9						GCCGCATGAGTGAGCGGCAGG	0.672																																																0													26	27	26					16																	30198795		2196	4300	6496	SO:0001819	synonymous_variant	11151			X89109	CCDS10673.1	16p11.2	2014-09-17	2001-11-28		ENSG00000102879	ENSG00000102879		"Coronins", "WD repeat domain containing"	2252	protein-coding gene	gene with protein product	"Clabp TACO"	605000	"coronin, actin-binding protein, 1A"			9778037	Standard	NM_007074		Approved	HCORO1, p57, coronin-1	uc002dww.3	P31146	OTTHUMG00000132148	ENST00000219150.5:c.729T>C	16.37:g.30198795T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBL1|Q2YD73	Silent	SNP	ENST00000219150.5	37	CCDS10673.1																																																																																				0.672	CORO1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255195.2	NM_007074		C	30198795	T	C	30198795	2	2	636	1	0	0	0	0	0	0	0	1	3755	1693	59	3		3	CORO1A	16	30198795	Silent	SNP	T	TCGA-KL-8337-01A-11D-2310-10	27385144	30198795	60155958	50	39267										
CLEC18A	348174	mdanderson.org	37	chr16	69988292	69988292	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	cagggcagccctctgtggaaCcccaaccccgagcctggcgt	12	17	1	0	rs2549089	byFrequency	TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr16:69988292C>T	ENST00000288040.6	+	3	459	c.272C>T	c.(271-273)aCc>aTc	p.T91I	CLEC18A_ENST00000568461.1_Missense_Mutation_p.T91I|CLEC18A_ENST00000449317.2_Missense_Mutation_p.T91I|CLEC18A_ENST00000393701.2_Missense_Mutation_p.T91I	NM_001136214.2	NP_001129686.1	A5D8T8	CL18A_HUMAN	C-type lectin domain family 18, member A	91	SCP.					extracellular region (GO:0005576)	carbohydrate binding (GO:0030246)	p.T91I(2)		NS(1)|endometrium(2)|lung(1)|skin(1)	5						CTCTGTGGAACCCCAACCCCG	0.647													.|||	21	0.00419329	0.0159	0.0	5008	,	,		17779	0.0		0.0	False		,,,				2504	0.0															2	Substitution - Missense(2)	NS(1)|skin(1)											55	53	54					16																	69988292		2198	4300	6498	SO:0001583	missense	348174			AF428259	CCDS10886.1	16q22.1	2010-04-27	2009-03-10	2009-03-10		ENSG00000157322		"C-type lectin domain containing"	30388	protein-coding gene	gene with protein product	"mannose receptor-like"					12975309	Standard	NM_001136214		Approved	MRCL	uc010vlo.3	A5D8T8		ENST00000288040.6:c.272C>T	16.37:g.69988292C>T	ENSP00000288040:p.Thr91Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1G9|Q6DCB3|Q7Z5K9|Q96HH2	Missense_Mutation	SNP	ENST00000288040.6	37	CCDS10886.1	.	.	.	.	.	.	.	.	.	.	.	3.377	-0.127284	0.06753	.	.	ENSG00000157322	ENST00000393701;ENST00000539957;ENST00000449317;ENST00000288040	T;T;T	0.07800	3.16;3.16;3.16	1.97	0.987	0.19790	CAP domain (3);	0.641843	0.13978	N	0.349648	T	0.05227	0.0139	N	0.22421	0.69	0.09310	N	1	B;B;B	0.28470	0.027;0.213;0.078	B;B;B	0.32022	0.014;0.139;0.087	T	0.42816	-0.9429	9	.	.	.	.	4.4066	0.11413	0.0:0.7949:0.0:0.2051	rs2549089	91;91;91	B4DPF2;A5D8T8;F8W692	.;CL18A_HUMAN;.	I	91	ENSP00000377304:T91I;ENSP00000413990:T91I;ENSP00000288040:T91I	.	T	+	2	0	CLEC18A	68545793	0.037000	0.19845	0.022000	0.16811	0.346000	0.29079	0.463000	0.21972	0.390000	0.25115	0.184000	0.17185	ACC		0.647	CLEC18A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000268955.2	NM_182619		T	69988292	C	T	69988292	3	4	636	1	0	0	0	0	1	0	0	0	3504	507	18	2	282	2	CLEC18A	16	69988292	Missense_Mutation	SNP	C	TCGA-KL-8337-01A-11D-2310-10	39789497	69988292	20366461	51	39268										
HPR	3250	mdanderson.org	37	chr16	72108254	72108254	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	tgtttcgctaccagtgtaagAactactacagactgcgcaca	8	11	0	2			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr16:72108254A>G	ENST00000540303.2	+	3	195	c.163A>G	c.(163-165)Aac>Gac	p.N55D	HPR_ENST00000561690.1_Missense_Mutation_p.N55D|HPR_ENST00000228226.8_Missense_Mutation_p.N92D|HPR_ENST00000356967.5_Missense_Mutation_p.N55D	NM_020995.3	NP_066275.3	P00739	HPTR_HUMAN	haptoglobin-related protein	55	Sushi.					blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|spherical high-density lipoprotein particle (GO:0034366)	hemoglobin binding (GO:0030492)|serine-type endopeptidase activity (GO:0004252)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(7)|prostate(1)|stomach(1)|urinary_tract(2)	20		Ovarian(137;0.125)				CCAGTGTAAGAACTACTACAG	0.498																																																0													211	131	157					16																	72108254		1982	4150	6132	SO:0001583	missense	3250			BC160066	CCDS42193.1	16q22.2	2012-10-03			ENSG00000261701	ENSG00000261701			5156	protein-coding gene	gene with protein product		140210				2987228, 16778136	Standard	NM_020995		Approved		uc002fby.3	P00739	OTTHUMG00000173010	ENST00000540303.2:c.163A>G	16.37:g.72108254A>G	ENSP00000441828:p.Asn55Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q7LE20|Q92658|Q92659|Q9ULB0	Missense_Mutation	SNP	ENST00000540303.2	37	CCDS42193.1	.	.	.	.	.	.	.	.	.	.	A	7.220	0.597158	0.13875	.	.	ENSG00000257017	ENST00000356967;ENST00000540303;ENST00000228226	T;T;T	0.46451	0.87;0.87;0.87	2.4	-4.79	0.03200	Complement control module (2);	4.420860	0.00639	N	0.000520	T	0.25269	0.0614	N	0.19112	0.55	0.09310	N	1	B	0.13594	0.008	B	0.15484	0.013	T	0.09271	-1.0682	10	0.23891	T	0.37	.	5.6919	0.17835	0.2734:0.5827:0.1439:0.0	.	55	P00739	HPTR_HUMAN	D	55;55;92	ENSP00000349451:N55D;ENSP00000441828:N55D;ENSP00000228226:N92D	ENSP00000228226:N92D	N	+	1	0	HP	70665755	0.000000	0.05858	0.000000	0.03702	0.116000	0.19942	-1.020000	0.03618	-1.454000	0.01926	0.172000	0.16884	AAC		0.498	HPR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000421696.1	NM_020995		G	72108254	A	G	72108254	3	3	636	1	0	0	0	0	1	0	0	0	7344	246	9	3	173	3	HPR	16	72108254	Missense_Mutation	SNP	A	TCGA-KL-8337-01A-11D-2310-10	2119962	72108254	18246499	52	39269										
ATMIN	23300	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr16	81077627	81077627	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	acggatgaccatgtacagatGgaccaagctggaatgtgcgg	14	8	0	2			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr16:81077627G>A	ENST00000299575.4	+	4	1548	c.1524G>A	c.(1522-1524)atG>atA	p.M508I	ATMIN_ENST00000539819.1_3'UTR|ATMIN_ENST00000564241.1_Missense_Mutation_p.M352I|ATMIN_ENST00000566488.1_Missense_Mutation_p.M352I	NM_015251.2	NP_056066.2	O43313	ATMIN_HUMAN	ATM interactor	508					cellular response to DNA damage stimulus (GO:0006974)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	dynein binding (GO:0045502)|metal ion binding (GO:0046872)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(9)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	20						ATGTACAGATGGACCAAGCTG	0.433																																																0													74	74	74					16																	81077627		2201	4300	6501	SO:0001583	missense	23300			BC002701	CCDS32494.1, CCDS73917.1	16q23.2	2013-01-07			ENSG00000166454	ENSG00000166454		"Zinc fingers, C2H2-type"	29034	protein-coding gene	gene with protein product	"ATM/ATR-Substrate Chk2-Interacting Zn++-finger protein", "ATM INteracting protein"	614693				15933716, 17525732, 19001856	Standard	XM_005255866		Approved	ASCIZ, KIAA0431, ZNF822	uc002ffz.1	O43313	OTTHUMG00000176469	ENST00000299575.4:c.1524G>A	16.37:g.81077627G>A	ENSP00000299575:p.Met508Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4H8|Q68DC9	Missense_Mutation	SNP	ENST00000299575.4	37	CCDS32494.1	.	.	.	.	.	.	.	.	.	.	G	10.50	1.367893	0.24771	.	.	ENSG00000166454	ENST00000299575;ENST00000539819	T	0.29917	1.55	5.91	3.89	0.44902	.	0.304822	0.42964	N	0.000621	T	0.33206	0.0855	M	0.72118	2.19	0.36086	D	0.843124	B	0.06786	0.001	B	0.06405	0.002	T	0.33701	-0.9858	10	0.54805	T	0.06	-8.3303	11.3485	0.49575	0.0657:0.0:0.8075:0.1268	.	508	O43313	ATMIN_HUMAN	I	508;279	ENSP00000299575:M508I	ENSP00000299575:M508I	M	+	3	0	ATMIN	79635128	1.000000	0.71417	0.871000	0.34182	0.464000	0.32679	2.981000	0.49329	0.779000	0.33543	0.655000	0.94253	ATG		0.433	ATMIN-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000432140.1	NM_015251		A	81077627	G	A	81077627	3	1	636	1	0	0	0	0	1	0	0	0	1110	1348	47	2	1538	2	ATMIN	16	81077627	Missense_Mutation	SNP	G	TCGA-KL-8337-01A-11D-2310-10	8969373	81077627	9277126	53	39270										
C17orf74	201243	broad.mit.edu	37	chr17	7329926	7329926	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	cacgtcgcggctggggcgggTtttatcagagagcgggcctg	18	10	1	1			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr17:7329926T>G	ENST00000333870.3	+	3	690	c.616T>G	c.(616-618)Ttt>Gtt	p.F206V	C17orf74_ENST00000574034.1_Missense_Mutation_p.V93G|RP11-104H15.7_ENST00000575310.1_RNA	NM_175734.4	NP_783861.3	Q0P670	CQ074_HUMAN	chromosome 17 open reading frame 74	206						integral component of membrane (GO:0016021)				cervix(1)|endometrium(5)|kidney(1)|large_intestine(3)|lung(6)|ovary(1)|pancreas(1)|prostate(1)|skin(3)	22		Prostate(122;0.157)				CTGGGGCGGGTTTTATCAGAG	0.617																																																0													61	68	66					17																	7329926		1986	4144	6130	SO:0001583	missense	201243			BC044816	CCDS42255.1	17p13.1	2012-05-30			ENSG00000184560	ENSG00000184560			27315	protein-coding gene	gene with protein product						12477932	Standard	NM_175734		Approved		uc002ggw.3	Q0P670	OTTHUMG00000178190	ENST00000333870.3:c.616T>G	17.37:g.7329926T>G	ENSP00000328061:p.Phe206Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000333870.3	37	CCDS42255.1	.	.	.	.	.	.	.	.	.	.	T	13.98	2.400165	0.42613	.	.	ENSG00000184560	ENST00000333870	T	0.29397	1.57	4.18	-2.97	0.05530	.	0.539313	0.14997	N	0.286328	T	0.15046	0.0363	N	0.19112	0.55	0.09310	N	1	B	0.24426	0.103	B	0.25140	0.058	T	0.15263	-1.0443	10	0.59425	D	0.04	-18.58	4.2722	0.10792	0.1662:0.2783:0.0:0.5555	.	206	Q0P670	CQ074_HUMAN	V	206	ENSP00000328061:F206V	ENSP00000328061:F206V	F	+	1	0	C17orf74	7270650	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-1.504000	0.02275	-0.285000	0.09089	-0.415000	0.06103	TTT		0.617	C17orf74-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440933.2	NM_175734		G	7329926	T	G	7329926	3	3	636	1	0	0	0	0	1	0	0	0	1881	1725	60	5	626	5	C17orf74	17	7329926	Missense_Mutation	SNP	T	TCGA-KL-8337-01A-11D-2310-10		7329926	73865284	54	39271										
AMAC1L3	643664	ucsc.edu	37	chr17	7385479	7385479	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	cttcgtgggccccctttctcAtatggcttaccaggcttcca	8	15	1	0			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr17:7385479A>G	ENST00000412468.2	+	2	291	c.176A>G	c.(175-177)cAt>cGt	p.H59R	POLR2A_ENST00000322644.6_5'Flank|ZBTB4_ENST00000311403.4_Intron|ZBTB4_ENST00000380599.4_5'Flank|POLR2A_ENST00000572844.1_5'Flank	NM_001102614.1	NP_001096084.1	P0C7Q6	S35G6_HUMAN	solute carrier family 35, member G6	59	EamA 1.					integral component of membrane (GO:0016021)											CCCCTTTCTCATATGGCTTAC	0.632																																																0													98	103	101					17																	7385479		2203	4300	6503	SO:0001583	missense	643664				CCDS45603.1	17p13.1	2013-05-22	2011-08-03	2011-08-03		ENSG00000259224		"Solute carriers"	31351	protein-coding gene	gene with protein product			"transmembrane protein 21B", "acyl-malonyl condensing enzyme 1-like 3"	TMEM21B, AMAC1L3			Standard	NM_001102614		Approved		uc010cmj.1	P0C7Q6		ENST00000412468.2:c.176A>G	17.37:g.7385479A>G	ENSP00000396523:p.His59Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000412468.2	37	CCDS45603.1	.	.	.	.	.	.	.	.	.	.	G	0.010	-1.796575	0.00617	.	.	ENSG00000181222	ENST00000412468	T	0.16597	2.33	4.21	3.24	0.37175	.	.	.	.	.	T	0.04679	0.0127	N	0.00926	-1.1	0.20703	N	0.999863	B	0.02656	0.0	B	0.01281	0.0	T	0.39683	-0.9602	9	0.02654	T	1	-1.8351	9.504	0.39035	0.181:0.0:0.819:0.0	.	59	P0C7Q6	S35G6_HUMAN	R	59	ENSP00000396523:H59R	ENSP00000396523:H59R	H	+	2	0	SLC35G6	7326203	1.000000	0.71417	0.996000	0.52242	0.106000	0.19336	3.612000	0.54142	0.373000	0.24621	-0.355000	0.07637	CAT		0.632	SLC35G6-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001102614		G	7385479	A	G	7385479	3	3	636	1	0	0	0	0	1	0	0	0	561	217	8	3	182	3	AMAC1L3	17	7385479	Missense_Mutation	SNP	A	TCGA-KL-8337-01A-11D-2310-10	55553	7385479	73809731	55	39272										
TP53	7157	broad.mit.edu	37	chr17	7577559	7577559	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	ggttcatgccgcccatgcagGaactgttacacatgtagttg	11	10	1	0	rs397516437|rs28934573		TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr17:7577559G>A	ENST00000269305.4	-	7	911	c.722C>T	c.(721-723)tCc>tTc	p.S241F	TP53_ENST00000420246.2_Missense_Mutation_p.S241F|TP53_ENST00000413465.2_Missense_Mutation_p.S241F|TP53_ENST00000445888.2_Missense_Mutation_p.S241F|TP53_ENST00000359597.4_Missense_Mutation_p.S241F|TP53_ENST00000574684.1_5'Flank|TP53_ENST00000455263.2_Missense_Mutation_p.S241F	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	241	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Interacts with the 53BP2 SH3 domain.|Required for interaction with ZNF385A.		S -> A (in sporadic cancers; somatic mutation). {ECO:0000269|PubMed:17224074}.|S -> C (in sporadic cancers; somatic mutation).|S -> F (in LFS; germline mutation and in sporadic cancers; somatic mutation; dbSNP:rs28934573). {ECO:0000269|PubMed:16959974, ECO:0000269|PubMed:1699228}.|S -> P (in sporadic cancers; somatic mutation).|S -> T (in LFS; germline mutation and in sporadic cancers; somatic mutation).|S -> Y (in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.S241F(85)|p.S241C(26)|p.0?(8)|p.S241Y(8)|p.C242fs*5(6)|p.?(5)|p.S241del(5)|p.S148F(4)|p.N239_C242delNSSC(3)|p.N239_C242>S(1)|p.C238fs*21(1)|p.S241fs*22(1)|p.N239_C242del(1)|p.Y236_M243delYMCNSSCM(1)|p.S241_G245delSCMGG(1)|p.S148C(1)|p.N239fs*4(1)|p.C238_M246delCNSSCMGGM(1)|p.H233_C242del10(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	GCCCATGCAGGAACTGTTACA	0.572		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	160	Substitution - Missense(124)|Deletion - In frame(13)|Deletion - Frameshift(9)|Whole gene deletion(8)|Unknown(5)|Complex - deletion inframe(1)	urinary_tract(19)|large_intestine(18)|breast(17)|endometrium(15)|ovary(15)|lung(12)|skin(9)|biliary_tract(8)|central_nervous_system(8)|haematopoietic_and_lymphoid_tissue(7)|upper_aerodigestive_tract(6)|stomach(6)|oesophagus(5)|bone(5)|liver(3)|pancreas(3)|eye(2)|thyroid(1)|kidney(1)	GRCh37	CM920673	TP53	M	rs28934573						139	108	118					17																	7577559		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.722C>T	17.37:g.7577559G>A	ENSP00000269305:p.Ser241Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	G	17.50	3.404027	0.62288	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944	D;D;D;D;D;D;D;D	0.99857	-7.22;-7.22;-7.22;-7.22;-7.22;-7.22;-7.22;-7.22	4.62	3.64	0.41730	p53, DNA-binding domain (1);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.120078	0.56097	D	0.000022	D	0.99871	0.9939	M	0.92784	3.345	0.53688	A	0.999973	D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D	0.97110	1.0;1.0;1.0;1.0;1.0;1.0	D	0.96525	0.9388	9	0.87932	D	0	-35.4617	12.8645	0.57932	0.0:0.1651:0.8349:0.0	rs28934573	241;241;148;241;241;241	P04637-2;P04637-3;E9PFT5;P04637;Q1MSW8;E7EQX7	.;.;.;P53_HUMAN;.;.	F	241;241;241;241;241;241;230;148;109;148	ENSP00000410739:S241F;ENSP00000352610:S241F;ENSP00000269305:S241F;ENSP00000398846:S241F;ENSP00000391127:S241F;ENSP00000391478:S241F;ENSP00000425104:S109F;ENSP00000423862:S148F	ENSP00000269305:S241F	S	-	2	0	TP53	7518284	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	2.346000	0.44027	1.295000	0.44724	0.462000	0.41574	TCC		0.572	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		A	7577559	G	A	7577559	3	1	636	1	0	0	0	0	1	0	0	0	16393	1174	41	2	568	2	TP53	17	7577559	Missense_Mutation	SNP	G	TCGA-KL-8337-01A-11D-2310-10	192080	7577559	73617651	56	39273										
TP53	7157	bcgsc.ca	37	chr17	7578370	7578370	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	tctccagccccagctgctcaCcatcgctatctgagcagcgc	8	18	3	1			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr17:7578370C>A	ENST00000269305.4	-	5	749		c.e5+1		TP53_ENST00000420246.2_Splice_Site|TP53_ENST00000413465.2_Splice_Site|TP53_ENST00000445888.2_Splice_Site|TP53_ENST00000359597.4_Splice_Site|TP53_ENST00000574684.1_Splice_Site|TP53_ENST00000455263.2_Splice_Site	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53						apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.?(54)|p.0?(8)|p.G187fs*16(2)|p.D186_P191delDGLAPP(1)|p.L188fs*19(1)|p.G187_L188delGL(1)|p.G187fs*22(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	CAGCTGCTCACCATCGCTATC	0.632		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	68	Unknown(54)|Whole gene deletion(8)|Deletion - Frameshift(3)|Deletion - In frame(2)|Insertion - Frameshift(1)	lung(12)|breast(9)|oesophagus(7)|ovary(7)|liver(7)|urinary_tract(5)|NS(5)|haematopoietic_and_lymphoid_tissue(4)|bone(4)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(2)|stomach(1)|soft_tissue(1)											48	46	47					17																	7578370		2203	4300	6503	SO:0001630	splice_region_variant	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.559+1G>T	17.37:g.7578370C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Splice_Site	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	C	11.69	1.713974	0.30413	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944;ENST00000414315	.	.	.	4.7	3.7	0.42460	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.0738	0.59075	0.0:0.8363:0.1637:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	TP53	7519095	1.000000	0.71417	0.967000	0.41034	0.201000	0.24016	3.085000	0.50151	1.248000	0.43934	0.655000	0.94253	.		0.632	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546	Intron	A	7578370	C	A	7578370	5	1	636	1	0	0	0	0	0	0	1	0	16393	521	18	4	738	4	TP53	17	7578370	Splice_Site	SNP	C	TCGA-KL-8337-01A-11D-2310-10	811	7578370	73616840	57	39274										
DGKE	8526	ucsc.edu	37	chr17	54935999	54935999	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	aaagattgtttagtgcaagaAtgtaaagatttgaataaaaa	8	1	0	4			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr17:54935999A>T	ENST00000284061.3	+	9	1437	c.1257A>T	c.(1255-1257)gaA>gaT	p.E419D		NM_003647.2	NP_003638.1	P52429	DGKE_HUMAN	diacylglycerol kinase, epsilon 64kDa	419					blood coagulation (GO:0007596)|intracellular signal transduction (GO:0035556)|phospholipid biosynthetic process (GO:0008654)|platelet activation (GO:0030168)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|diacylglycerol kinase activity (GO:0004143)|metal ion binding (GO:0046872)|NAD+ kinase activity (GO:0003951)			breast(3)|endometrium(3)|large_intestine(3)|lung(10)|ovary(2)|pancreas(1)|skin(2)|urinary_tract(1)	25	Breast(9;3.59e-07)					TAGTGCAAGAATGTAAAGATT	0.269																																																0													41	44	43					17																	54935999		2199	4297	6496	SO:0001583	missense	8526			U49379	CCDS11590.1	17q22	2008-07-18	2002-08-29			ENSG00000153933	2.7.1.107		2852	protein-coding gene	gene with protein product		601440	"diacylglycerol kinase, epsilon (64kD)"			8626589, 10051413	Standard	NM_003647		Approved	DAGK6, DGK	uc002iur.3	P52429		ENST00000284061.3:c.1257A>T	17.37:g.54935999A>T	ENSP00000284061:p.Glu419Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TBM4|Q9UKQ3	Missense_Mutation	SNP	ENST00000284061.3	37	CCDS11590.1	.	.	.	.	.	.	.	.	.	.	A	13.18	2.159400	0.38119	.	.	ENSG00000153933	ENST00000284061	T	0.42513	0.97	5.49	2.03	0.26663	Diacylglycerol kinase, accessory domain (2);	0.045848	0.85682	D	0.000000	T	0.24084	0.0583	N	0.12746	0.255	0.80722	D	1	B;B	0.27594	0.182;0.182	B;B	0.33960	0.173;0.173	T	0.04041	-1.0982	10	0.21540	T	0.41	.	9.1053	0.36694	0.7885:0.0:0.2115:0.0	.	419;419	A1L4Q0;P52429	.;DGKE_HUMAN	D	419	ENSP00000284061:E419D	ENSP00000284061:E419D	E	+	3	2	DGKE	52290998	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	3.237000	0.51344	0.371000	0.24564	0.477000	0.44152	GAA		0.269	DGKE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440601.1	NM_003647		T	54935999	A	T	54935999	3	4	636	1	0	0	0	0	1	0	0	0	4470	98	4	5	1287	5	DGKE	17	54935999	Missense_Mutation	SNP	A	TCGA-KL-8337-01A-11D-2310-10	47357629	54935999	26259211	58	39275										
BPTF	2186	bcgsc.ca	37	chr17	65907097	65907097	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	cacatgtaaattgtcaggagAgttctcaagtagatgtggtc	11	6	2	2			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr17:65907097A>G	ENST00000321892.4	+	13	3536	c.3475A>G	c.(3475-3477)Agt>Ggt	p.S1159G	BPTF_ENST00000306378.6_Missense_Mutation_p.S1033G|BPTF_ENST00000424123.3_Missense_Mutation_p.S1020G|BPTF_ENST00000335221.5_Missense_Mutation_p.S1159G			Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1159					anterior/posterior pattern specification (GO:0009952)|ATP catabolic process (GO:0006200)|brain development (GO:0007420)|chromatin remodeling (GO:0006338)|embryonic placenta development (GO:0001892)|endoderm development (GO:0007492)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|microtubule cytoskeleton (GO:0015630)|nucleolus (GO:0005730)|nucleus (GO:0005634)|NURF complex (GO:0016589)	sequence-specific DNA binding (GO:0043565)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(16)|lung(23)|ovary(3)|pancreas(2)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	78	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)			TTGTCAGGAGAGTTCTCAAGT	0.383																																																0													93	90	91					17																	65907097		2203	4300	6503	SO:0001583	missense	2186			AY282495	CCDS11673.1	17q24	2013-01-28	2006-12-01	2006-12-01	ENSG00000171634	ENSG00000171634		"Zinc fingers, PHD-type"	3581	protein-coding gene	gene with protein product		601819	"fetal Alzheimer antigen"	FALZ		8975731, 10662542, 16728976	Standard	NM_182641		Approved	FAC1, NURF301	uc002jgf.3	Q12830	OTTHUMG00000132254	ENST00000321892.4:c.3475A>G	17.37:g.65907097A>G	ENSP00000315454:p.Ser1159Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NX67|Q7Z7D6|Q9UIG2	Missense_Mutation	SNP	ENST00000321892.4	37		.	.	.	.	.	.	.	.	.	.	A	5.510	0.279120	0.10458	.	.	ENSG00000171634	ENST00000306378;ENST00000335221;ENST00000321892	T;T;T	0.62941	0.0;-0.01;-0.0	5.64	0.846	0.18955	.	.	.	.	.	T	0.44582	0.1300	L	0.27053	0.805	0.09310	N	1	B;B	0.11235	0.003;0.004	B;B	0.11329	0.006;0.004	T	0.28267	-1.0049	9	0.38643	T	0.18	0.0342	6.1773	0.20451	0.6778:0.1243:0.1979:0.0	.	1033;1159	Q12830-2;Q12830-4	.;.	G	1033;1159;1159	ENSP00000307208:S1033G;ENSP00000334351:S1159G;ENSP00000315454:S1159G	ENSP00000307208:S1033G	S	+	1	0	BPTF	63337559	0.009000	0.17119	0.008000	0.14137	0.504000	0.33889	0.642000	0.24735	-0.070000	0.12908	0.528000	0.53228	AGT		0.383	BPTF-201	KNOWN	basic	protein_coding	protein_coding		NM_182641, NM_004459		G	65907097	A	G	65907097	3	3	636	1	0	0	0	0	1	0	0	0	1497	304	11	3	3525	3	BPTF	17	65907097	Missense_Mutation	SNP	A	TCGA-KL-8337-01A-11D-2310-10	10971098	65907097	15288113	59	39276										
CTDP1	9150	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr18	77513733	77513733	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	aacgaggatgagggcagcagCtccgaggccgacgagatggc	17	10	0	2			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr18:77513733C>T	ENST00000299543.7	+	13	2976	c.2829C>T	c.(2827-2829)agC>agT	p.S943S	CTDP1_ENST00000075430.7_3'UTR	NM_001202504.1|NM_004715.4	NP_001189433.1|NP_004706.3	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1	943					exit from mitosis (GO:0010458)|gene expression (GO:0010467)|positive regulation of viral transcription (GO:0050434)|protein dephosphorylation (GO:0006470)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|viral process (GO:0016032)	actin cytoskeleton (GO:0015629)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|midbody (GO:0030496)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle (GO:0005819)|spindle midzone (GO:0051233)|spindle pole (GO:0000922)	CTD phosphatase activity (GO:0008420)|DNA-directed RNA polymerase activity (GO:0003899)			autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(14)|ovary(2)|prostate(2)|urinary_tract(1)	35		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		AGGGCAGCAGCTCCGAGGCCG	0.642																																																0													46	45	46					18																	77513733		2203	4300	6503	SO:0001819	synonymous_variant	9150			AF081287	CCDS12017.1, CCDS12018.1, CCDS74239.1	18q23	2014-09-17			ENSG00000060069	ENSG00000060069		"Serine/threonine phosphatases / CTD aspartate-based phosphatases"	2498	protein-coding gene	gene with protein product		604927				9405607, 9765293	Standard	NM_004715		Approved	FCP1	uc002lnh.2	Q9Y5B0	OTTHUMG00000132920	ENST00000299543.7:c.2829C>T	18.37:g.77513733C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MY97|Q7Z644|Q96BZ1|Q9Y6F5	Silent	SNP	ENST00000299543.7	37	CCDS12017.1																																																																																				0.642	CTDP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256432.1	NM_004715		T	77513733	C	T	77513733	2	4	636	1	0	0	0	0	0	0	0	1	4004	796	28	2		2	CTDP1	18	77513733	Silent	SNP	C	TCGA-KL-8337-01A-11D-2310-10		77513733	563515	60	39277										
GPR108	56927	mdanderson.org	37	chr19	6737481	6737481	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	gcctcaccgtcagcgccagcTggtggatgcgcccggagcag	15	15	2	0	rs340138	byFrequency	TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr19:6737481T>C	ENST00000264080.7	-	1	133	c.107A>G	c.(106-108)cAg>cGg	p.Q36R	TRIP10_ENST00000596758.1_5'Flank|TRIP10_ENST00000313285.8_5'Flank|TRIP10_ENST00000313244.9_5'Flank|TRIP10_ENST00000600428.1_5'Flank|GPR108_ENST00000430424.4_5'Flank	NM_001080452.1	NP_001073921.1	Q9NPR9	GP108_HUMAN	G protein-coupled receptor 108	36			Q -> R (in dbSNP:rs340138). {ECO:0000269|Ref.2, ECO:0000269|Ref.4}.			integral component of membrane (GO:0016021)				breast(2)|cervix(1)|large_intestine(4)|lung(4)|skin(1)|urinary_tract(1)	13						CAGCGCCAGCTGGTGGATGCG	0.726													C|||	4440	0.886581	0.8434	0.9236	5008	,	,		10979	0.9861		0.8936	False		,,,				2504	0.8088															0								C	ARG/GLN	3027,409		1332,363,23	5	8	7		107	3.1	1	19	dbSNP_79	7	6743,857		2996,751,53	no	missense	GPR108	NM_001080452.1	43	4328,1114,76	CC,CT,TT		11.2763,11.9034,11.4715	benign	36/544	6737481	9770,1266	1718	3800	5518	SO:0001583	missense	56927				CCDS42479.1	19p13.3	2014-01-30				ENSG00000125734		"GPCR / Unclassified : 7TM orphan receptors"	17829	protein-coding gene	gene with protein product							Standard	NM_001080452		Approved	LUSTR2	uc002mfp.3	Q9NPR9	OTTHUMG00000170129	ENST00000264080.7:c.107A>G	19.37:g.6737481T>C	ENSP00000264080:p.Gln36Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B9EJD7	Missense_Mutation	SNP	ENST00000264080.7	37	CCDS42479.1	1973	0.9033882783882784	409	0.8313008130081301	332	0.9171270718232044	565	0.9877622377622378	667	0.8799472295514512	C	4.694	0.128956	0.08981	0.880966	0.887237	ENSG00000125734	ENST00000264080	T	0.20738	2.05	4.2	3.1	0.35709	.	0.309721	0.25663	N	0.029139	T	0.00012	0.0000	N	0.00099	-2.14	0.09310	P	0.999999999395269	B	0.02656	0.0	B	0.01281	0.0	T	0.36890	-0.9729	9	0.16896	T	0.51	-4.2341	5.3586	0.16075	0.0:0.7344:0.0:0.2656	rs340138;rs344628;rs1193120;rs1193215;rs3745557;rs3947071;rs11539589;rs59869501;rs340138	36	Q9NPR9	GP108_HUMAN	R	36	ENSP00000264080:Q36R	ENSP00000264080:Q36R	Q	-	2	0	GPR108	6688481	0.989000	0.36119	1.000000	0.80357	0.926000	0.56050	0.194000	0.17135	0.997000	0.38969	-0.215000	0.12644	CAG		0.726	GPR108-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407508.2			C	6737481	T	C	6737481	3	2	636	1	0	0	0	0	1	0	0	0	6631	1580	55	3	1596	3	GPR108	19	6737481	Missense_Mutation	SNP	T	TCGA-KL-8337-01A-11D-2310-10		6737481	52391502	61	39278										
TMEM205	374882	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr19	11453585	11453585	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	gagaggacagcccatggtagCggaagaaattctggcggaga	16	7	1	3			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr19:11453585C>T	ENST00000354882.5	-	3	902	c.476G>A	c.(475-477)cGc>cAc	p.R159H	TMEM205_ENST00000586218.1_Missense_Mutation_p.R98H|CCDC159_ENST00000588790.1_5'Flank|TMEM205_ENST00000589555.1_Missense_Mutation_p.R159H|TMEM205_ENST00000447337.1_Missense_Mutation_p.R159H|TMEM205_ENST00000593256.2_Missense_Mutation_p.R159H|TMEM205_ENST00000586590.1_Missense_Mutation_p.R159H|TMEM205_ENST00000587948.1_Missense_Mutation_p.R159H|TMEM205_ENST00000588560.1_Missense_Mutation_p.R159H|TMEM205_ENST00000586956.1_Missense_Mutation_p.R159H|RAB3D_ENST00000589655.1_Intron			Q6UW68	TM205_HUMAN	transmembrane protein 205	159						extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				endometrium(1)|lung(1)	2						CCCATGGTAGCGGAAGAAATT	0.607																																																0													117	108	111					19																	11453585		2203	4300	6503	SO:0001583	missense	374882			AK127147	CCDS32909.1	19p13.2	2008-01-09				ENSG00000105518			29631	protein-coding gene	gene with protein product		613771				12975309	Standard	NM_198536		Approved	UNQ501, MBC3205	uc002mrb.2	Q6UW68		ENST00000354882.5:c.476G>A	19.37:g.11453585C>T	ENSP00000346954:p.Arg159His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000354882.5	37	CCDS32909.1	.	.	.	.	.	.	.	.	.	.	C	9.193	1.026438	0.19512	.	.	ENSG00000105518	ENST00000354882;ENST00000447337	.	.	.	4.82	-1.58	0.08479	.	0.304262	0.31519	N	0.007512	T	0.40886	0.1135	L	0.39898	1.24	0.43368	D	0.995457	B	0.11235	0.004	B	0.06405	0.002	T	0.15867	-1.0422	9	0.19147	T	0.46	-3.7126	10.4082	0.44276	0.0:0.4892:0.0:0.5108	.	159	Q6UW68	TM205_HUMAN	H	159	.	ENSP00000346954:R159H	R	-	2	0	TMEM205	11314585	0.906000	0.30813	0.936000	0.37596	0.393000	0.30537	0.156000	0.16382	-0.129000	0.11620	0.561000	0.74099	CGC		0.607	TMEM205-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458743.1	NM_198536		T	11453585	C	T	11453585	3	4	636	1	0	0	0	0	1	0	0	0	16142	768	27	1	97	1	TMEM205	19	11453585	Missense_Mutation	SNP	C	TCGA-KL-8337-01A-11D-2310-10	4716104	11453585	47675398	62	39279										
INSL3	3640	ucsc.edu	37	chr19	17932190	17932190	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	gggcccccgcacacgcgcacTagcgcgcgtacgaagtggtg	15	15	0	0	rs1047233	byFrequency	TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr19:17932190T>C	ENST00000317306.7	-	1	142	c.126A>G	c.(124-126)ctA>ctG	p.L42L	INSL3_ENST00000379695.5_Silent_p.L42L	NM_005543.3	NP_005534.2	P51460	INSL3_HUMAN	insulin-like 3 (Leydig cell)	42					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cell-cell signaling (GO:0007267)|in utero embryonic development (GO:0001701)|male gonad development (GO:0008584)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|oocyte maturation (GO:0001556)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of cell proliferation (GO:0008284)|spermatogenesis (GO:0007283)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|perinuclear region of cytoplasm (GO:0048471)	insulin receptor binding (GO:0005158)|protease binding (GO:0002020)|receptor binding (GO:0005102)			breast(1)|lung(1)	2						ACACGCGCACTAGCGCGCGTA	0.721													C|||	1288	0.257188	0.3941	0.3127	5008	,	,		12303	0.005		0.4076	False		,,,				2504	0.138															0								C		1224,2548		247,730,909	4	7	6		126	-1.9	1	19	dbSNP_86	6	2298,4938		486,1326,1806	no	coding-synonymous	INSL3	NM_005543.2		733,2056,2715	CC,CT,TT		31.7579,32.4496,31.9949		42/132	17932190	3522,7486	1886	3618	5504	SO:0001819	synonymous_variant	3640				CCDS12365.1, CCDS58655.1	19p13.2-p12	2013-02-26	2003-05-13			ENSG00000248099		"Endogenous ligands"	6086	protein-coding gene	gene with protein product	"prepro-INSL3"	146738	"relaxin-like factor"	RLNL		8020942	Standard	NM_001265587		Approved	RLF, MGC119818, MGC119819	uc010ebf.2	P51460		ENST00000317306.7:c.126A>G	19.37:g.17932190T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ72|G3XAG0|Q3KPI5|Q3KPI6|Q6YNB5|Q9UEA2|Q9UPH6	Silent	SNP	ENST00000317306.7	37	CCDS12365.1																																																																																				0.721	INSL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466836.1	NM_005543		C	17932190	T	C	17932190	2	2	636	1	0	0	0	0	0	0	0	1	7774	1509	53	3		3	INSL3	19	17932190	Silent	SNP	T	TCGA-KL-8337-01A-11D-2310-10	6478605	17932190	41196793	63	39280										
ZNF98	148198	broad.mit.edu	37	chr19	22575373	22575373	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	atgtgtagaaaggtttgaggCctcattataggctttcccac	10	8	1	2	rs201074450		TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr19:22575373C>T	ENST00000357774.5	-	4	785	c.664G>A	c.(664-666)Gcc>Acc	p.A222T		NM_001098626.1	NP_001092096.1	A6NK75	ZNF98_HUMAN	zinc finger protein 98	222					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(8)|lung(16)|ovary(1)|prostate(4)|skin(1)|upper_aerodigestive_tract(2)	37		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				AGGTTTGAGGCCTCATTATAG	0.383																																																0													12	13	13					19																	22575373		1871	4124	5995	SO:0001583	missense	148198				CCDS46031.1	19p12	2014-02-14	2010-04-20	2008-06-12	ENSG00000197360	ENSG00000197360		"Zinc fingers, C2H2-type", "-"	13174	protein-coding gene	gene with protein product	"zinc finger protein 739"	603980					Standard	NM_001098626		Approved	ZNF739, F7175	uc002nqt.2	A6NK75	OTTHUMG00000182940	ENST00000357774.5:c.664G>A	19.37:g.22575373C>T	ENSP00000350418:p.Ala222Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000357774.5	37	CCDS46031.1	.	.	.	.	.	.	.	.	.	.	.	4.784	0.145770	0.09134	.	.	ENSG00000197360	ENST00000357774	T	0.33654	1.4	1.28	-1.83	0.07833	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.18002	0.0432	N	0.17674	0.51	0.09310	N	1	B	0.22541	0.071	B	0.25987	0.065	T	0.27262	-1.0079	9	0.39692	T	0.17	.	0.0814	0.00032	0.2369:0.2268:0.2367:0.2996	.	222	A6NK75	ZNF98_HUMAN	T	222	ENSP00000350418:A222T	ENSP00000350418:A222T	A	-	1	0	ZNF98	22367213	0.000000	0.05858	0.001000	0.08648	0.138000	0.21146	-0.793000	0.04589	-0.223000	0.09943	0.305000	0.20034	GCC		0.383	ZNF98-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464398.1	NM_001098626		T	22575373	C	T	22575373	3	4	636	1	0	0	0	0	1	0	0	0	18215	739	26	2	1058	2	ZNF98	19	22575373	Missense_Mutation	SNP	C	TCGA-KL-8337-01A-11D-2310-10	4643183	22575373	36553610	64	39281										
ZNF254	9534	ucsc.edu	37	chr19	24310753	24310753	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	acctcaccacagataagataActcattggagagaaatctta	6	9	3	3			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr19:24310753A>G	ENST00000357002.4	+	4	2066	c.1951A>G	c.(1951-1953)Act>Gct	p.T651A	ZNF254_ENST00000342944.6_Missense_Mutation_p.T566A	NM_001278661.1|NM_001278662.1|NM_001278664.1|NM_001278677.1|NM_001278678.1|NM_203282.2	NP_001265590.1|NP_001265591.1|NP_001265593.1|NP_001265606.1|NP_001265607.1|NP_975011.3	O75437	ZN254_HUMAN	zinc finger protein 254	651					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)						all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				AGATAAGATAACTCATTGGAG	0.363																																																0													78	83	81					19																	24310753		2202	4297	6499	SO:0001583	missense	9534			AF054180	CCDS32983.1, CCDS62622.1, CCDS62623.1, CCDS74323.1, CCDS74324.1	19p13	2013-01-08				ENSG00000213096		"Zinc fingers, C2H2-type", "-"	13047	protein-coding gene	gene with protein product		604768	"zinc finger protein 539"	ZNF91L, ZNF539		9653160	Standard	NM_001278661		Approved	HD-ZNF1, BMZF-5	uc002nru.3	O75437		ENST00000357002.4:c.1951A>G	19.37:g.24310753A>G	ENSP00000349494:p.Thr651Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A4QPC0|Q86XL7	Missense_Mutation	SNP	ENST00000357002.4	37	CCDS32983.1	.	.	.	.	.	.	.	.	.	.	A	6.168	0.399173	0.11696	.	.	ENSG00000213096	ENST00000342944;ENST00000357002;ENST00000392281	T;T	0.06768	3.26;3.41	0.525	0.525	0.17072	Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.08537	0.0212	L	0.54965	1.715	0.19575	N	0.999965	B	0.06786	0.001	B	0.04013	0.001	T	0.30621	-0.9972	9	0.66056	D	0.02	.	5.2926	0.15735	0.9999:0.0:1.0E-4:0.0	.	651	O75437	ZN254_HUMAN	A	566;651;343	ENSP00000445527:T566A;ENSP00000349494:T651A	ENSP00000445527:T566A	T	+	1	0	ZNF254	24102593	0.000000	0.05858	0.027000	0.17364	0.015000	0.08874	0.213000	0.17521	0.446000	0.26666	0.254000	0.18369	ACT		0.363	ZNF254-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466453.1	NM_004876		G	24310753	A	G	24310753	3	3	636	1	0	0	0	0	1	0	0	0	17810	43	2	3	1965	3	ZNF254	19	24310753	Missense_Mutation	SNP	A	TCGA-KL-8337-01A-11D-2310-10	1735380	24310753	34818230	65	39282										
EML2	24139	broad.mit.edu	37	chr19	46124887	46124887	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	cagcaccgcctgtgtgatacGgttcccacctgcagggtggc	13	14	0	1			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr19:46124887G>A	ENST00000245925.3	-	10	900	c.850C>T	c.(850-852)Cgt>Tgt	p.R284C	EML2_ENST00000536630.1_Missense_Mutation_p.R431C|EML2_ENST00000586902.1_5'UTR|EML2_ENST00000589876.1_Missense_Mutation_p.R284C|EML2_ENST00000587152.1_Missense_Mutation_p.R485C	NM_012155.2	NP_036287.1	O95834	EMAL2_HUMAN	echinoderm microtubule associated protein like 2	284	Tandem atypical propeller in EMLs. {ECO:0000250}.				negative regulation of microtubule polymerization (GO:0031115)|regulation of microtubule nucleation (GO:0010968)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)	microtubule binding (GO:0008017)|tubulin binding (GO:0015631)			NS(1)|breast(2)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(8)|lung(13)|ovary(1)|urinary_tract(1)	31		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00553)|GBM - Glioblastoma multiforme(486;0.131)|Epithelial(262;0.197)		TGTGTGATACGGTTCCCACCT	0.662																																																0													20	21	21					19																	46124887		2202	4295	6497	SO:0001583	missense	24139			AF103939	CCDS12670.1, CCDS54280.1, CCDS59399.1	19q13.32	2013-01-10				ENSG00000125746		"WD repeat domain containing"	18035	protein-coding gene	gene with protein product	"echinoderm MT-associated protein (EMAP)-like protein 70", "microtubule-associated protein like echinoderm EMAP"					11694528, 10521658	Standard	NM_012155		Approved	EMAP2, ELP70, EMAP-2	uc010xxm.2	O95834		ENST00000245925.3:c.850C>T	19.37:g.46124887G>A	ENSP00000245925:p.Arg284Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3I2|B7Z3Q9|K7ERL7|Q59EN8|Q8N5A2|Q9UG50	Missense_Mutation	SNP	ENST00000245925.3	37	CCDS12670.1	.	.	.	.	.	.	.	.	.	.	G	16.30	3.083522	0.55861	.	.	ENSG00000125746	ENST00000536630;ENST00000245925;ENST00000448055;ENST00000399594	T;T;T	0.39406	1.08;1.08;5.0	3.1	3.1	0.35709	WD40/YVTN repeat-like-containing domain (1);Quinonprotein alcohol dehydrogenase-like (1);WD40-repeat-containing domain (1);	0.069226	0.56097	U	0.000031	T	0.58850	0.2151	M	0.74881	2.28	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.83275	0.962;0.972;0.996;0.95	T	0.60642	-0.7223	10	0.62326	D	0.03	-16.5272	7.354	0.26709	0.0:0.0:0.739:0.261	.	284;450;431;284	B7Z918;B7Z3Q9;B7Z3I2;O95834	.;.;.;EMAL2_HUMAN	C	431;284;485;442	ENSP00000442365:R431C;ENSP00000245925:R284C;ENSP00000382503:R442C	ENSP00000245925:R284C	R	-	1	0	EML2	50816727	1.000000	0.71417	1.000000	0.80357	0.653000	0.38743	3.887000	0.56197	1.565000	0.49641	0.195000	0.17529	CGT		0.662	EML2-007	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000459608.1	NM_012155		A	46124887	G	A	46124887	3	1	636	1	0	0	0	0	1	0	0	0	5099	1116	39	1	1139	1	EML2	19	46124887	Missense_Mutation	SNP	G	TCGA-KL-8337-01A-11D-2310-10	21814134	46124887	13004096	66	39283										
NLRP11	204801	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	56321650	56321650	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	attttccaaaagtgtgacttTcccattgcagcatgaatttt	6	8	0	2			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr19:56321650T>G	ENST00000589093.1	-	3	419	c.326A>C	c.(325-327)gAa>gCa	p.E109A	NLRP11_ENST00000592953.1_Missense_Mutation_p.E10A|NLRP11_ENST00000589824.2_Missense_Mutation_p.E109A|NLRP11_ENST00000443188.1_Missense_Mutation_p.E109A|NLRP11_ENST00000360133.3_Missense_Mutation_p.E109A			P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	109							ATP binding (GO:0005524)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced ascorbate as one donor, and incorporation of one atom of oxygen (GO:0016715)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(1)|large_intestine(14)|lung(22)|ovary(3)|pancreas(1)|prostate(1)|skin(5)|stomach(2)|upper_aerodigestive_tract(3)	66		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		AGTGTGACTTTCCCATTGCAG	0.378																																																0													41	41	41					19																	56321650		2203	4300	6503	SO:0001583	missense	204801			AY095145	CCDS12935.1, CCDS74458.1	19q13.43	2008-02-05	2006-12-08	2006-12-08		ENSG00000179873		"Nucleotide-binding domain and leucine rich repeat containing"	22945	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 11"	609664	"NACHT, leucine rich repeat and PYD containing 11"	NALP11		12563287, 12019269	Standard	NM_145007		Approved	PYPAF6, NOD17, PAN10, CLR19.6	uc010ygf.2	P59045		ENST00000589093.1:c.326A>C	19.37:g.56321650T>G	ENSP00000466285:p.Glu109Ala	Somatic		WXS	Illumina HiSeq	Phase_I	C9JSF5|Q2TV85|Q2TV86|Q53ZZ0|Q8NBF5	Missense_Mutation	SNP	ENST00000589093.1	37	CCDS12935.1	.	.	.	.	.	.	.	.	.	.	T	5.794	0.330843	0.10956	.	.	ENSG00000179873	ENST00000443188;ENST00000360133	T;T	0.74526	-0.85;-0.79	1.99	1.99	0.26369	.	.	.	.	.	T	0.55862	0.1947	N	0.08118	0	0.09310	N	1	B;B	0.28584	0.138;0.216	B;B	0.37731	0.131;0.257	T	0.50750	-0.8791	9	0.34782	T	0.22	.	5.9904	0.19458	0.0:0.0:0.0:1.0	.	109;109	P59045;P59045-2	NAL11_HUMAN;.	A	109	ENSP00000409898:E109A;ENSP00000353251:E109A	ENSP00000353251:E109A	E	-	2	0	NLRP11	61013462	0.011000	0.17503	0.028000	0.17463	0.008000	0.06430	0.622000	0.24433	1.168000	0.42723	0.533000	0.62120	GAA		0.378	NLRP11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453657.1	NM_145007		G	56321650	T	G	56321650	3	3	636	1	0	0	0	0	1	0	0	0	10480	1783	62	5	2807	5	NLRP11	19	56321650	Missense_Mutation	SNP	T	TCGA-KL-8337-01A-11D-2310-10	10196763	56321650	2807333	67	39284										
VSX1	30813	mdanderson.org	37	chr20	25062342	25062342	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	gctgtcgctgcgcttctggcGgccgagcgcaggcggcggac	18	14	1	0	rs6050307	byFrequency	TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr20:25062342G>T	ENST00000376709.4	-	1	654	c.391C>A	c.(391-393)Cgc>Agc	p.R131S	VSX1_ENST00000429762.3_Missense_Mutation_p.R131S|VSX1_ENST00000424574.1_Missense_Mutation_p.R131S|VSX1_ENST00000376707.3_Missense_Mutation_p.R131S|VSX1_ENST00000444511.2_Missense_Mutation_p.R131S|VSX1_ENST00000451258.1_Missense_Mutation_p.R131S|VSX1_ENST00000398332.1_Missense_Mutation_p.R131S	NM_014588.5	NP_055403.2	Q9NZR4	VSX1_HUMAN	visual system homeobox 1	131			R -> S (in dbSNP:rs6050307). {ECO:0000269|PubMed:15051220}.		neuron maturation (GO:0042551)|response to stimulus (GO:0050896)|retinal bipolar neuron differentiation (GO:0060040)|transcription, DNA-templated (GO:0006351)|visual perception (GO:0007601)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|large_intestine(3)|lung(2)	6						CGCTTCTGGCGGCCGAGCGCA	0.741													G|||	206	0.0411342	0.1483	0.0144	5008	,	,		11176	0.0		0.0	False		,,,				2504	0.0															0								G	SER/ARG,SER/ARG	328,3228		8,312,1458	4	4	4		391,391	-3.9	0	20	dbSNP_114	4	13,6761		0,13,3374	yes	missense,missense	VSX1	NM_014588.4,NM_199425.1	110,110	8,325,4832	TT,TG,GG		0.1919,9.2238,3.3011	benign,benign	131/366,131/240	25062342	341,9989	1778	3387	5165	SO:0001583	missense	30813			AF176797	CCDS13168.1, CCDS13169.1, CCDS58766.1, CCDS58767.1	20p11.21	2014-02-14	2007-07-12		ENSG00000100987	ENSG00000100987		"Homeoboxes / PRD class"	12723	protein-coding gene	gene with protein product		605020	"posterior polymorphous corneal dystrophy", "visual system homeobox 1 homolog, CHX10-like (zebrafish)"	PPCD		10673340	Standard	NM_001256272		Approved	PPD, PPCD1	uc002wuf.4	Q9NZR4	OTTHUMG00000032111	ENST00000376709.4:c.391C>A	20.37:g.25062342G>T	ENSP00000365899:p.Arg131Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGJ4|D1MF28|Q0GM60|Q0GM61|Q0GM62|Q0GM63|Q0GM64|Q0GM65|Q5TF40|Q5TF41|Q9HCU3|Q9NU27	Missense_Mutation	SNP	ENST00000376709.4	37	CCDS13168.1	90	0.04120879120879121	82	0.16666666666666666	8	0.022099447513812154	0	0.0	0	0.0	G	3.761	-0.049660	0.07407	0.092238	0.001919	ENSG00000100987	ENST00000429762;ENST00000444511;ENST00000424574;ENST00000451258;ENST00000376709;ENST00000376707;ENST00000398332	D;D;D;D;D;D;T	0.91792	-2.73;-2.91;-2.72;-2.77;-2.82;-2.83;-0.0	4.14	-3.91	0.04168	.	1.617690	0.02904	N	0.135773	T	0.00412	0.0013	N	0.00926	-1.1	0.80722	P	0.0	B;B;B;B	0.09022	0.001;0.0;0.002;0.0	B;B;B;B	0.06405	0.001;0.002;0.001;0.001	T	0.56992	-0.7887	9	0.06625	T	0.88	.	0.1523	0.00094	0.3252:0.149:0.2095:0.3163	rs6050307;rs61429181	131;131;131;131	Q9NZR4-7;Q9NZR4-8;Q9NZR4-2;Q9NZR4	.;.;.;VSX1_HUMAN	S	131	ENSP00000401690:R131S;ENSP00000387720:R131S;ENSP00000399496:R131S;ENSP00000389654:R131S;ENSP00000365899:R131S;ENSP00000365897:R131S;ENSP00000381376:R131S	ENSP00000365897:R131S	R	-	1	0	VSX1	25010342	0.000000	0.05858	0.000000	0.03702	0.543000	0.35085	-0.882000	0.04174	-0.591000	0.05859	0.563000	0.77884	CGC		0.741	VSX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078384.3			T	25062342	G	T	25062342	3	4	636	1	0	0	0	0	1	0	0	0	17243	1116	39	4	819	4	VSX1	20	25062342	Missense_Mutation	SNP	G	TCGA-KL-8337-01A-11D-2310-10		25062342	37963178	68	39285										
COL9A3	1299	broad.mit.edu	37	chr20	61450635	61450636	+	Frame_Shift_Ins	INS	-	-	G													0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	gctgggctgccgggactgccINSgggtgtggatgtgagtgcgc					rs146260681|rs199653123		TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr20:61450635_61450636insG	ENST00000343916.3	+	4	248_249	c.245_246insG	c.(244-249)ccgggtfs	p.PG82fs		NM_001853.3	NP_001844.3	Q14050	CO9A3_HUMAN	collagen, type IX, alpha 3	82	Triple-helical region 3 (COL3).				axon guidance (GO:0007411)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|female gonad development (GO:0008585)|male gonad development (GO:0008584)	collagen type IX trimer (GO:0005594)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	extracellular matrix structural constituent conferring tensile strength (GO:0030020)			breast(1)|endometrium(3)|large_intestine(1)|lung(18)|prostate(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	28	Breast(26;5.68e-08)					CCGGGACTGCCGGGTGTGGATG	0.688																																																0																																										SO:0001589	frameshift_variant	1299			AK075240	CCDS13505.1	20q13.3	2013-01-16			ENSG00000092758	ENSG00000092758		"Proteoglycans / Extracellular Matrix : Collagen proteoglycans", "Collagens"	2219	protein-coding gene	gene with protein product	"collagen type IX proteoglycan"	120270				8586434, 1429648	Standard	NM_001853		Approved	IDD, MED, EDM3, FLJ90759, DJ885L7.4.1	uc002ydm.3	Q14050	OTTHUMG00000032938	ENST00000343916.3:c.248dupG	20.37:g.61450638_61450638dupG	ENSP00000341640:p.Pro82fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q13681|Q9H4G9|Q9UPE2	Frame_Shift_Ins	INS	ENST00000343916.3	37	CCDS13505.1																																																																																				0.688	COL9A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080071.2	NM_001853		G	61450636	-	G	61450635	7	5	636	1	0	1	1	0	0	0	0	0	3711	652	23	0	259	0	COL9A3	20	61450635	Frame_Shift_Ins	INS	-	TCGA-KL-8337-01A-11D-2310-10	36388293	61450635	1574885	69	39286										
PRIC285	85441	mdanderson.org	37	chr20	62195726	62195726	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	cacgcggccacgacgcaggcGtccacggagtccaggcgggc	16	16	0	0	rs45469491	byFrequency	TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr20:62195726G>A	ENST00000467148.1	-	8	4518	c.4449C>T	c.(4447-4449)gaC>gaT	p.D1483D	HELZ2_ENST00000427522.2_Silent_p.D914D	NM_001037335.2	NP_001032412.2	Q9BYK8	HELZ2_HUMAN	helicase with zinc finger 2, transcriptional coactivator	1483					cellular lipid metabolic process (GO:0044255)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	membrane (GO:0016020)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)										CGACGCAGGCGTCCACGGAGT	0.711													G|||	242	0.0483227	0.121	0.0418	5008	,	,		15557	0.002		0.0467	False		,,,				2504	0.0041															0								G	,	377,3757		16,345,1706	5	5	5		4449,2742	-7.8	0.3	20	dbSNP_127	5	202,7874		1,200,3837	no	coding-synonymous,coding-synonymous	PRIC285	NM_001037335.2,NM_033405.3	,	17,545,5543	AA,AG,GG		2.5012,9.1195,4.742	,	1483/2650,914/2081	62195726	579,11631	2067	4038	6105	SO:0001819	synonymous_variant	85441			AB201715	CCDS13527.1, CCDS33508.1	20q13.33	2012-09-26			ENSG00000130589	ENSG00000130589			30021	protein-coding gene	gene with protein product	"peroxisomal proliferator activated receptor A interacting complex 285", "PPARG-DBD-interacting protein 1"	611265				11214970, 12189208, 16239304	Standard	NM_001037335		Approved	PDIP1, PRIC285, KIAA1769	uc002yfm.2	Q9BYK8	OTTHUMG00000032969	ENST00000467148.1:c.4449C>T	20.37:g.62195726G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q3C2G2|Q4VXQ1|Q8TEF3|Q96ND3|Q9C094	Silent	SNP	ENST00000467148.1	37	CCDS33508.1																																																																																				0.711	HELZ2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354127.1	NM_001037335		A	62195726	G	A	62195726	2	1	636	1	0	0	0	0	0	0	0	1	12495	1136	40	1		1	PRIC285	20	62195726	Silent	SNP	G	TCGA-KL-8337-01A-11D-2310-10	745091	62195726	829794	70	39287										
PPM1F	9647	ucsc.edu	37	chr22	22287827	22287827	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	aggcttctctgagggctcccTcagggtctgtgggcagctct	14	12	4	1			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr22:22287827T>C	ENST00000263212.5	-	5	788	c.683A>G	c.(682-684)gAg>gGg	p.E228G	PPM1F_ENST00000538191.1_Missense_Mutation_p.E124G|PPM1F_ENST00000407142.1_Missense_Mutation_p.E60G|PPM1F_ENST00000397495.4_Missense_Mutation_p.E228G	NM_014634.3	NP_055449.1	P49593	PPM1F_HUMAN	protein phosphatase, Mg2+/Mn2+ dependent, 1F	228					cellular response to drug (GO:0035690)|histone dephosphorylation (GO:0016576)|intrinsic apoptotic signaling pathway (GO:0097193)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of protein kinase activity by regulation of protein phosphorylation (GO:0044387)|negative regulation of transcription, DNA-templated (GO:0045892)|peptidyl-threonine dephosphorylation (GO:0035970)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of chemotaxis (GO:0050921)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of epithelial cell migration (GO:0010634)|positive regulation of focal adhesion assembly (GO:0051894)|positive regulation of gene expression (GO:0010628)|positive regulation of growth (GO:0045927)|positive regulation of stress fiber assembly (GO:0051496)	cytosol (GO:0005829)|perinuclear region of cytoplasm (GO:0048471)|protein complex (GO:0043234)	calmodulin-dependent protein phosphatase activity (GO:0033192)|metal ion binding (GO:0046872)|phosphatase activity (GO:0016791)|protein serine/threonine phosphatase activity (GO:0004722)			breast(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(1)|ovary(2)|upper_aerodigestive_tract(1)	12	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.155)		GAGGGCTCCCTCAGGGTCTGT	0.642																																																0													59	54	55					22																	22287827		2203	4300	6503	SO:0001583	missense	9647			D13640	CCDS13796.1	22q11.22	2012-04-17	2010-03-05		ENSG00000100034	ENSG00000100034	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatases, Mg2+/Mn2+ dependent"	19388	protein-coding gene	gene with protein product	"partner of PIX 2", "Ca(2+)/calmodulin-dependent protein kinase phosphatase"		"protein phosphatase 1F (PP2C domain containing)"			11864573, 11559703	Standard	NM_014634		Approved	FEM-2, KIAA0015, POPX2, CaMKPase, CAMKP	uc002zvp.2	P49593	OTTHUMG00000150835	ENST00000263212.5:c.683A>G	22.37:g.22287827T>C	ENSP00000263212:p.Glu228Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6G3|B7Z2C3|Q96PM2	Missense_Mutation	SNP	ENST00000263212.5	37	CCDS13796.1	.	.	.	.	.	.	.	.	.	.	G	12.25	1.882171	0.33255	.	.	ENSG00000100034	ENST00000263212;ENST00000407142;ENST00000406981;ENST00000538191;ENST00000397495;ENST00000445205	T;T;T;T;T	0.20200	2.09;2.09;2.09;2.09;2.09	4.96	2.81	0.32909	Protein phosphatase 2C-like (5);	0.279101	0.38720	N	0.001592	T	0.15305	0.0369	L	0.33753	1.03	0.09310	N	1	B;B;B	0.12630	0.006;0.003;0.0	B;B;B	0.15484	0.012;0.013;0.005	T	0.19516	-1.0303	10	0.32370	T	0.25	-21.7728	10.4831	0.44706	0.0:0.1197:0.4748:0.4056	.	124;228;228	B7Z2C3;A8MX49;P49593	.;.;PPM1F_HUMAN	G	228;60;60;124;228;60	ENSP00000263212:E228G;ENSP00000384930:E60G;ENSP00000439915:E124G;ENSP00000380632:E228G;ENSP00000392372:E60G	ENSP00000263212:E228G	E	-	2	0	PPM1F	20617827	0.006000	0.16342	0.007000	0.13788	0.000000	0.00434	1.462000	0.35266	0.246000	0.21394	-1.338000	0.01255	GAG		0.642	PPM1F-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320267.2	NM_014634		C	22287827	T	C	22287827	3	2	636	1	0	0	0	0	1	0	0	0	12349	1551	54	3	697	3	PPM1F	22	22287827	Missense_Mutation	SNP	T	TCGA-KL-8337-01A-11D-2310-10		22287827	29016739	71	39288										
APOBEC3D	140564	broad.mit.edu	37	chr22	39421307	39421307	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	agattggcggtgggtgctccTcaggctgcataaggcagggg	18	8	1	1			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr22:39421307T>C	ENST00000216099.8	+	3	850	c.443T>C	c.(442-444)cTc>cCc	p.L148P	APOBEC3D_ENST00000381568.4_Missense_Mutation_p.L148P|APOBEC3D_ENST00000427494.2_Intron	NM_152426.3	NP_689639.2	Q96AK3	ABC3D_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3D	148					defense response to virus (GO:0051607)|DNA cytosine deamination (GO:0070383)|innate immune response (GO:0045087)|negative regulation of single stranded viral RNA replication via double stranded DNA intermediate (GO:0045869)|negative regulation of transposition (GO:0010529)	cytoplasm (GO:0005737)|cytoplasmic mRNA processing body (GO:0000932)	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines (GO:0016814)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(2)|large_intestine(2)|lung(3)|prostate(2)	11	Melanoma(58;0.04)					TGGGTGCTCCTCAGGCTGCAT	0.582																																																0													48	52	50					22																	39421307		2203	4300	6503	SO:0001583	missense	140564			BF832090	CCDS46709.1	22q13.1	2012-10-19	2008-05-01		ENSG00000243811	ENSG00000243811		"Apolipoprotein B mRNA editing enzymes"	17354	protein-coding gene	gene with protein product		609900	"apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3D (putative)", "apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3E pseudogene"	APOBEC3E		11863358	Standard	NM_152426		Approved	ARP6, APOBEC3DE	uc003awt.4	Q96AK3	OTTHUMG00000151084	ENST00000216099.8:c.443T>C	22.37:g.39421307T>C	ENSP00000216099:p.Leu148Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JZ91|Q7Z2N2|Q7Z2N5|Q7Z2N6	Missense_Mutation	SNP	ENST00000216099.8	37	CCDS46709.1	.	.	.	.	.	.	.	.	.	.	.	14.01	2.406990	0.42715	.	.	ENSG00000243811	ENST00000381568;ENST00000216099	T;T	0.67865	-0.29;-0.29	2.44	-4.53	0.03462	APOBEC-like, C-terminal (1);Cytidine deaminase-like (1);	.	.	.	.	T	0.46073	0.1374	L	0.29908	0.895	0.09310	N	1	B;B	0.12630	0.006;0.006	B;B	0.09377	0.004;0.004	T	0.19289	-1.0310	9	0.48119	T	0.1	.	3.8466	0.08937	0.3382:0.0:0.4:0.2618	.	148;148	B2CML4;Q96AK3	.;ABC3D_HUMAN	P	148	ENSP00000370980:L148P;ENSP00000216099:L148P	ENSP00000216099:L148P	L	+	2	0	APOBEC3D	37751253	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	0.614000	0.24314	-1.624000	0.01556	-0.258000	0.10820	CTC		0.582	APOBEC3D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321232.2	NM_152426		C	39421307	T	C	39421307	3	2	636	1	0	0	0	0	1	0	0	0	792	1551	54	3	453	3	APOBEC3D	22	39421307	Missense_Mutation	SNP	T	TCGA-KL-8337-01A-11D-2310-10	17133480	39421307	11883259	72	39289										
ARHGAP8	23779	ucsc.edu	37	chr22	45204237	45204237	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0136986301369863	1	1	0.408974358974359	0	0.426014957264957	1	1	0	tgagaacgattataccatcgTctatttccactacgggctga	8	10	1	2			TCGA-KL-8337-01A-11D-2310-10	TCGA-KL-8337-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3fd2ee0-3dd0-4992-9a9f-75e487b43441	48a0412d-0d33-43a8-9079-ccd5b28bef22	g.chr22:45204237T>C	ENST00000389774.2	+	4	359	c.218T>C	c.(217-219)gTc>gCc	p.V73A	PRR5-ARHGAP8_ENST00000352766.7_Intron|ARHGAP8_ENST00000517296.3_Intron|ARHGAP8_ENST00000336963.4_Missense_Mutation_p.V73A|ARHGAP8_ENST00000356099.6_Missense_Mutation_p.V73A|ARHGAP8_ENST00000389773.5_Missense_Mutation_p.V195A|PRR5-ARHGAP8_ENST00000361473.5_Missense_Mutation_p.V204A	NM_001017526.1	NP_001017526.1	P85298	RHG08_HUMAN	Rho GTPase activating protein 8	73	CRAL-TRIO. {ECO:0000255|PROSITE- ProRule:PRU00056}.				positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of Rho GTPase activity (GO:0032321)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	Rho GTPase activator activity (GO:0005100)			breast(2)|central_nervous_system(1)|endometrium(2)|large_intestine(7)|lung(9)|prostate(1)|skin(7)	29		all_neural(38;0.00409)|Ovarian(80;0.00976)|Glioma(61;0.0649)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0204)		TATACCATCGTCTATTTCCAC	0.478																																																0													88	78	82					22																	45204237		2203	4300	6503	SO:0001583	missense	553158			AF177331	CCDS14060.2, CCDS33664.1, CCDS56233.1	22q13.3	2010-05-11			ENSG00000241484	ENSG00000241484		"Rho GTPase activating proteins"	677	protein-coding gene	gene with protein product		609405				10591208	Standard	NM_001198726		Approved	FLJ20185, BPGAP1		P85298	OTTHUMG00000030234	ENST00000389774.2:c.218T>C	22.37:g.45204237T>C	ENSP00000374424:p.Val73Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6ZJ79|A6ZJ80|O75983|O95695|Q96RW1|Q96RW2|Q9HA49|Q9HC46|Q9NSG0|Q9NVX8|Q9NXL1|Q9UH20	Missense_Mutation	SNP	ENST00000389774.2	37	CCDS33664.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	12.77|12.77	2.036253|2.036253	0.35893|0.35893	.|.	.|.	ENSG00000248405|ENSG00000248405;ENSG00000241484;ENSG00000241484;ENSG00000241484;ENSG00000241484;ENSG00000241484;ENSG00000241484	ENST00000515632|ENST00000361473;ENST00000389773;ENST00000389774;ENST00000396119;ENST00000336963;ENST00000356099;ENST00000412433	.|T;T;T;T;T;T;T	.|0.76186	.|-1.0;-1.0;-1.0;-1.0;-1.0;-1.0;-1.0	4.34|4.34	3.27|3.27	0.37495|0.37495	.|Cellular retinaldehyde-binding/triple function, C-terminal (4);	.|0.222293	.|0.22584	.|U	.|0.058178	T|T	0.77705|0.77705	0.4170|0.4170	L|L	0.58669|0.58669	1.825|1.825	0.44048|0.44048	D|D	0.996789|0.996789	.|P;P;P;P;P;P;P	.|0.48503	.|0.809;0.624;0.517;0.809;0.911;0.802;0.835	.|P;B;B;P;P;P;P	.|0.53518	.|0.639;0.279;0.205;0.639;0.7;0.607;0.728	T|T	0.76838|0.76838	-0.2811|-0.2811	5|10	.|0.59425	.|D	.|0.04	.|.	10.5667|10.5667	0.45177|0.45177	0.0:0.0:0.1625:0.8375|0.0:0.0:0.1625:0.8375	.|.	.|109;73;109;73;114;195;204	.|B7ZMA4;A6ZJ79;A2RU51;P85298;Q6PCC7;F8W6F3;B1AHC3	.|.;.;.;RHG08_HUMAN;.;.;.	P|A	127|204;195;73;73;73;73;73	.|ENSP00000354732:V204A;ENSP00000374423:V195A;ENSP00000374424:V73A;ENSP00000379425:V73A;ENSP00000337287:V73A;ENSP00000348407:V73A;ENSP00000402775:V73A	.|ENSP00000337287:V73A	S|V	+|+	1|2	0|0	PRR5-ARHGAP8|PRR5-ARHGAP8;ARHGAP8	43582901|43582901	1.000000|1.000000	0.71417|0.71417	0.815000|0.815000	0.32552|0.32552	0.154000|0.154000	0.21943|0.21943	6.995000|6.995000	0.76257|0.76257	0.663000|0.663000	0.31027|0.31027	0.482000|0.482000	0.46254|0.46254	TCT|GTC		0.478	ARHGAP8-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000075088.4	NM_017701		C	45204237	T	C	45204237	3	2	636	1	0	0	0	0	1	0	0	0	888	1667	58	3	228	3	ARHGAP8	22	45204237	Missense_Mutation	SNP	T	TCGA-KL-8337-01A-11D-2310-10	5782930	45204237	6100329	73	39290										
ATAD3B	83858	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	1425803	1425803	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	agccggccacagaaggaaaaCggtgagtgtcccgcctcacc	12	14	1	2	rs371526893		TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr1:1425803C>T	ENST00000308647.7	+	14	1620	c.1504C>T	c.(1504-1506)Cgg>Tgg	p.R502W		NM_031921.4	NP_114127.3	Q5T9A4	ATD3B_HUMAN	ATPase family, AAA domain containing 3B	502						mitochondrial inner membrane (GO:0005743)	ATP binding (GO:0005524)			endometrium(2)|large_intestine(1)|lung(3)|ovary(1)|skin(2)|urinary_tract(1)	10	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)		AGAAGGAAAACGGTGAGTGTC	0.617																																																0								C	TRP/ARG	0,4406		0,0,2203	63	53	56		1504	2	1	1		56	1,8597		0,1,4298	no	missense-near-splice	ATAD3B	NM_031921.4	101	0,1,6501	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	502/649	1425803	1,13003	2203	4299	6502	SO:0001630	splice_region_variant	83858			AL834179	CCDS30.1	1p36.33	2010-04-21		2007-02-08	ENSG00000160072	ENSG00000160072		"ATPases / AAA-type"	24007	protein-coding gene	gene with protein product		612317				10574462	Standard	XM_005244806		Approved	TOB3, KIAA1273	uc001afv.3	Q5T9A4	OTTHUMG00000000577	ENST00000308647.7:c.1505+1C>T	1.37:g.1425803C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K3H1|Q6ZRB5|Q9BUK4|Q9ULE7	Missense_Mutation	SNP	ENST00000308647.7	37	CCDS30.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	12.89|12.89	2.072670|2.072670	0.36566|0.36566	0.0|0.0	1.16E-4|1.16E-4	ENSG00000160072|ENSG00000160072	ENST00000378737|ENST00000308647	.|T	.|0.20738	.|2.05	2.03|2.03	2.03|2.03	0.26663|0.26663	.|.	0.059036|0.059036	0.64402|0.64402	D|D	0.000001|0.000001	T|T	0.28699|0.28699	0.0711|0.0711	L|L	0.46157|0.46157	1.445|1.445	0.80722|0.80722	D|D	1|1	.|D;P	.|0.69078	.|0.997;0.952	.|P;P	.|0.54924	.|0.764;0.453	T|T	0.08006|0.08006	-1.0743|-1.0743	7|10	0.66056|0.66056	D|D	0.02|0.02	.|.	11.3705|11.3705	0.49697|0.49697	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|456;502	.|Q5T9A4-3;Q5T9A4	.|.;ATD3B_HUMAN	C|W	305|502	.|ENSP00000311766:R502W	ENSP00000368011:R305C|ENSP00000311766:R502W	R|R	+|+	1|1	0|2	ATAD3B|ATAD3B	1415666|1415666	1.000000|1.000000	0.71417|0.71417	0.970000|0.970000	0.41538|0.41538	0.013000|0.013000	0.08279|0.08279	7.417000|7.417000	0.80156|0.80156	1.135000|1.135000	0.42183|0.42183	0.194000|0.194000	0.17425|0.17425	CGC|CGG		0.617	ATAD3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000001369.2	NM_031921	Missense_Mutation	T	1425803	C	T	1425803	5	4	637	1	0	0	0	0	0	0	1	0	1074	550	19	1	1558	1	ATAD3B	1	1425803	Splice_Site	SNP	C	TCGA-KL-8338-01A-11D-2310-10		1425803	247824818	1	39291										
ZBTB40	9923	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	22839532	22839532	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	aaccaccttcgccttcacacCggggaccgcccgttcatgtg	9	17	2	0			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr1:22839532C>T	ENST00000375647.4	+	12	2784	c.2577C>T	c.(2575-2577)acC>acT	p.T859T	ZBTB40_ENST00000374651.4_Silent_p.T747T|ZBTB40_ENST00000404138.1_Silent_p.T859T	NM_014870.3	NP_055685.3	Q9NUA8	ZBT40_HUMAN	zinc finger and BTB domain containing 40	859					bone mineralization (GO:0030282)|cellular response to DNA damage stimulus (GO:0006974)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(4)|kidney(4)|large_intestine(6)|lung(8)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	26		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;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;2.86e-26)|Colorectal(126;8.55e-08)|COAD - Colon adenocarcinoma(152;4.1e-06)|GBM - Glioblastoma multiforme(114;1.39e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000712)|KIRC - Kidney renal clear cell carcinoma(1967;0.00374)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0693)|Lung(427;0.216)		GCCTTCACACCGGGGACCGCC	0.572																																																0													85	69	74					1																	22839532		2203	4300	6503	SO:0001819	synonymous_variant	9923			AB007947	CCDS224.1	1p36	2013-01-08			ENSG00000184677	ENSG00000184677		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	29045	protein-coding gene	gene with protein product		612106					Standard	NM_014870		Approved	KIAA0478, ZNF923	uc001bfu.2	Q9NUA8	OTTHUMG00000002897	ENST00000375647.4:c.2577C>T	1.37:g.22839532C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O75066|Q5TFU5|Q8N1R1	Silent	SNP	ENST00000375647.4	37	CCDS224.1																																																																																				0.572	ZBTB40-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008094.1	NM_014870		T	22839532	C	T	22839532	2	4	637	1	0	0	0	0	0	0	0	1	17554	639	23	1		1	ZBTB40	1	22839532	Silent	SNP	C	TCGA-KL-8338-01A-11D-2310-10	21413729	22839532	226411089	2	39292										
LEPR	3953	bcgsc.ca	37	chr1	66058516	66058516	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	tggtggagtaattttccagtCacctctaatgtcagttcagc	9	9	4	0			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr1:66058516C>T	ENST00000349533.6	+	6	856	c.671C>T	c.(670-672)tCa>tTa	p.S224L	LEPR_ENST00000344610.8_Missense_Mutation_p.S224L|LEPR_ENST00000371059.3_Missense_Mutation_p.S224L|LEPR_ENST00000371060.3_Missense_Mutation_p.S224L|LEPR_ENST00000406510.3_Intron|LEPR_ENST00000462765.1_3'UTR|LEPR_ENST00000371058.1_Missense_Mutation_p.S224L	NM_002303.5	NP_002294.2	O15243	OBRG_HUMAN	leptin receptor	0					negative regulation of growth hormone receptor signaling pathway (GO:0060400)|negative regulation of JAK-STAT cascade (GO:0046426)|negative regulation of protein localization to cell surface (GO:2000009)	endosome (GO:0005768)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	receptor binding (GO:0005102)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(7)|lung(22)|skin(2)	36				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		ATTTTCCAGTCACCTCTAATG	0.368																																																0													94	92	93					1																	66058516		2203	4300	6503	SO:0001583	missense	3953			U43168	CCDS631.1, CCDS30740.1, CCDS30741.1, CCDS55604.1	1p31	2014-09-17			ENSG00000116678	ENSG00000116678		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6554	protein-coding gene	gene with protein product		601007				8548812, 8812446	Standard	NM_001003680		Approved	OBR, CD295	uc001dci.3	P48357	OTTHUMG00000009115	ENST00000349533.6:c.671C>T	1.37:g.66058516C>T	ENSP00000330393:p.Ser224Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FHL5	Missense_Mutation	SNP	ENST00000349533.6	37	CCDS631.1	.	.	.	.	.	.	.	.	.	.	C	25.6	4.657442	0.88154	.	.	ENSG00000116678	ENST00000344610;ENST00000349533;ENST00000371060;ENST00000371059;ENST00000371058	T;T;T;T;T	0.66099	-0.15;-0.16;-0.14;-0.19;-0.15	5.96	5.05	0.67936	.	0.189176	0.48286	D	0.000188	T	0.75882	0.3910	M	0.83603	2.65	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.998;0.999;0.999	T	0.81391	-0.0954	10	0.87932	D	0	-8.9527	14.8905	0.70606	0.0:0.9306:0.0:0.0694	.	224;224;224	P48357;P48357-2;P48357-3	LEPR_HUMAN;.;.	L	224	ENSP00000340884:S224L;ENSP00000330393:S224L;ENSP00000360099:S224L;ENSP00000360098:S224L;ENSP00000360097:S224L	ENSP00000340884:S224L	S	+	2	0	LEPR	65831104	0.997000	0.39634	1.000000	0.80357	0.937000	0.57800	3.676000	0.54612	1.536000	0.49237	0.650000	0.86243	TCA		0.368	LEPR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025275.1	NM_002303		T	66058516	C	T	66058516	3	4	637	1	0	0	0	0	1	0	0	0	8735	838	29	2	685	2	LEPR	1	66058516	Missense_Mutation	SNP	C	TCGA-KL-8338-01A-11D-2310-10	43218984	66058516	183192105	3	39293										
RPAP2	79871	bcgsc.ca	37	chr1	92799023	92799023	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	gcatcgtacttgaaaagttgAgtaaagtgtaagtatgtaat	10	3	0	2			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr1:92799023A>G	ENST00000610020.1	+	9	1640	c.1531A>G	c.(1531-1533)Agt>Ggt	p.S511G		NM_024813.2	NP_079089.2	Q8IXW5	RPAP2_HUMAN	RNA polymerase II associated protein 2	511					dephosphorylation of RNA polymerase II C-terminal domain (GO:0070940)|snRNA transcription (GO:0009301)	cytoplasm (GO:0005737)|DNA-directed RNA polymerase II, holoenzyme (GO:0016591)|nucleolus (GO:0005730)|nucleus (GO:0005634)	CTD phosphatase activity (GO:0008420)|metal ion binding (GO:0046872)			breast(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(10)|ovary(1)|pancreas(1)|prostate(1)|skin(1)	22		all_lung(203;0.0565)|Lung NSC(277;0.152)|Glioma(108;0.222)		all cancers(265;0.00647)|GBM - Glioblastoma multiforme(16;0.0234)|Epithelial(280;0.115)		TGAAAAGTTGAGTAAAGTGTA	0.333																																																0													119	117	118					1																	92799023		2203	4300	6503	SO:0001583	missense	79871			AK023212	CCDS740.1	1p22.1	2014-01-28	2007-07-26	2007-07-26	ENSG00000122484	ENSG00000122484			25791	protein-coding gene	gene with protein product		611476	"chromosome 1 open reading frame 82"	C1orf82		17643375	Standard	NM_024813		Approved	FLJ13150	uc001dot.2	Q8IXW5	OTTHUMG00000010288	ENST00000610020.1:c.1531A>G	1.37:g.92799023A>G	ENSP00000476948:p.Ser511Gly	Somatic		WXS	Illumina HiSeq	Phase_I	C9JKB5|Q49AS7|Q9H8Y2	Missense_Mutation	SNP	ENST00000610020.1	37	CCDS740.1	.	.	.	.	.	.	.	.	.	.	A	14.29	2.490173	0.44249	.	.	ENSG00000122484	ENST00000370343;ENST00000394482	.	.	.	5.49	4.35	0.52113	.	0.373385	0.36268	N	0.002681	T	0.36799	0.0980	L	0.54323	1.7	0.29479	N	0.856522	B	0.28713	0.22	B	0.28139	0.086	T	0.36261	-0.9755	8	0.59425	D	0.04	-3.388	12.1141	0.53856	0.7298:0.2702:0.0:0.0	.	511	Q8IXW5	RPAP2_HUMAN	G	511	.	ENSP00000359368:S511G	S	+	1	0	RPAP2	92571611	1.000000	0.71417	1.000000	0.80357	0.967000	0.64934	3.397000	0.52572	0.905000	0.36596	0.397000	0.26171	AGT		0.333	RPAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000028368.2	NM_024813		G	92799023	A	G	92799023	3	3	637	1	0	0	0	0	1	0	0	0	13555	304	11	3	1565	3	RPAP2	1	92799023	Missense_Mutation	SNP	A	TCGA-KL-8338-01A-11D-2310-10	26740507	92799023	156451598	4	39294										
TCHH	7062	bcgsc.ca	37	chr1	152084677	152084677	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	tctcctcctgctcgcgcctcAgctgctgctcgcgcctctcc	8	21	3	0	rs199649490		TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr1:152084677A>T	ENST00000368804.1	-	2	1015	c.1016T>A	c.(1015-1017)cTg>cAg	p.L339Q		NM_007113.2	NP_009044.2	Q07283	TRHY_HUMAN	trichohyalin	339	5 X 13 AA tandem repeats of R-R-E-Q-E-E- E-R-R-E-Q-Q-L.				keratinization (GO:0031424)	cytoskeleton (GO:0005856)	calcium ion binding (GO:0005509)			NS(2)|breast(4)|central_nervous_system(1)|cervix(1)|endometrium(20)|kidney(9)|large_intestine(16)|lung(33)|ovary(3)|pancreas(1)|prostate(4)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(4)	105	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ctcgcgcctcagctgctgctc	0.706																																																0													11	15	14					1																	152084677		1976	4035	6011	SO:0001583	missense	7062			L09190	CCDS41396.1	1q21-q23	2013-01-10		2006-01-27	ENSG00000159450	ENSG00000159450		"EF-hand domain containing"	11791	protein-coding gene	gene with protein product		190370		THH		1431214	Standard	NM_007113		Approved		uc001ezp.3	Q07283	OTTHUMG00000013066	ENST00000368804.1:c.1016T>A	1.37:g.152084677A>T	ENSP00000357794:p.Leu339Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUI3	Missense_Mutation	SNP	ENST00000368804.1	37	CCDS41396.1	.	.	.	.	.	.	.	.	.	.	N	6.735	0.504431	0.12822	.	.	ENSG00000159450	ENST00000368804	T	0.06218	3.33	3.82	-4.1	0.03940	.	.	.	.	.	T	0.00666	0.0022	N	0.08118	0	0.09310	N	1	B	0.21905	0.062	B	0.14023	0.01	T	0.48031	-0.9070	9	0.13470	T	0.59	.	4.258	0.10726	0.2515:0.0:0.1873:0.5612	.	339	Q07283	TRHY_HUMAN	Q	339	ENSP00000357794:L339Q	ENSP00000357794:L339Q	L	-	2	0	TCHH	150351301	0.000000	0.05858	0.024000	0.17045	0.001000	0.01503	-1.403000	0.02497	-0.646000	0.05452	-2.794000	0.00115	CTG		0.706	TCHH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000036671.2	NM_007113		T	152084677	A	T	152084677	3	4	637	1	0	0	0	0	1	0	0	0	15712	188	7	5	4819	5	TCHH	1	152084677	Missense_Mutation	SNP	A	TCGA-KL-8338-01A-11D-2310-10	59285654	152084677	97165944	5	39295										
PIK3C2B	5287	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	204415184	204415184	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	agcccactcccagctgggggCgctggcgagcaccaggggga	17	14	0	0			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr1:204415184C>T	ENST00000367187.3	-	17	3134	c.2578G>A	c.(2578-2580)Gcc>Acc	p.A860T	PIK3C2B_ENST00000424712.2_Intron	NM_002646.3	NP_002637.3	O00750	P3C2B_HUMAN	phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 beta	860	PIK helical. {ECO:0000255|PROSITE- ProRule:PRU00878}.				phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-3-phosphate biosynthetic process (GO:0036092)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|protein kinase B signaling (GO:0043491)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)|phosphatidylinositol 3-kinase complex (GO:0005942)|plasma membrane (GO:0005886)	1-phosphatidylinositol-3-kinase activity (GO:0016303)|1-phosphatidylinositol-4-phosphate 3-kinase activity (GO:0035005)|ATP binding (GO:0005524)|lipid kinase activity (GO:0001727)|phosphatidylinositol binding (GO:0035091)			breast(3)|central_nervous_system(1)|cervix(2)|endometrium(4)|large_intestine(11)|lung(24)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	52	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)			CAGCTGGGGGCGCTGGCGAGC	0.622											OREG0014135	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													64	66	65					1																	204415184		2203	4300	6503	SO:0001583	missense	5287			Y11312	CCDS1446.1	1q32	2012-07-13	2012-07-13		ENSG00000133056	ENSG00000133056	2.7.1.154		8972	protein-coding gene	gene with protein product		602838	"phosphoinositide-3-kinase, class 2, beta polypeptide"			9144573, 9830063	Standard	NM_002646		Approved	C2-PI3K, PI3K-C2beta	uc001haw.3	O00750	OTTHUMG00000036101	ENST00000367187.3:c.2578G>A	1.37:g.204415184C>T	ENSP00000356155:p.Ala860Thr	Somatic	2144	WXS	Illumina HiSeq	Phase_I	O95666|Q5SW99	Missense_Mutation	SNP	ENST00000367187.3	37	CCDS1446.1	.	.	.	.	.	.	.	.	.	.	C	36	5.884921	0.97068	.	.	ENSG00000133056	ENST00000367187	T	0.61510	0.1	5.33	5.33	0.75918	Phosphoinositide 3-kinase, accessory (PIK) domain (3);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.74696	0.3750	M	0.65975	2.015	0.80722	D	1	D	0.89917	1.0	D	0.70227	0.968	T	0.75326	-0.3357	10	0.51188	T	0.08	.	18.6702	0.91508	0.0:1.0:0.0:0.0	.	860	O00750	P3C2B_HUMAN	T	860	ENSP00000356155:A860T	ENSP00000356155:A860T	A	-	1	0	PIK3C2B	202681807	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.942000	0.63547	2.516000	0.84829	0.460000	0.39030	GCC		0.622	PIK3C2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087965.1	NM_002646		T	204415184	C	T	204415184	3	4	637	1	0	0	0	0	1	0	0	0	11917	768	27	1	2398	1	PIK3C2B	1	204415184	Missense_Mutation	SNP	C	TCGA-KL-8338-01A-11D-2310-10	52330507	204415184	44835437	6	39296										
OR13G1	441933	mdanderson.org;bcgsc.ca	37	chr1	247835950	247835950	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	acacatatggtggttcataaTagtactgtaatgaagaggga	11	4	1	2	rs1151640	byFrequency	TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr1:247835950T>C	ENST00000359688.2	-	1	415	c.394A>G	c.(394-396)Att>Gtt	p.I132V	RP11-634B7.4_ENST00000449298.1_RNA	NM_001005487.1	NP_001005487.1	Q8NGZ3	O13G1_HUMAN	olfactory receptor, family 13, subfamily G, member 1	132			I -> V (in dbSNP:rs1151640).			integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(2)|kidney(1)|large_intestine(2)|lung(28)|skin(2)	35	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)			TGGTTCATAATAGTACTGTAA	0.468													T|||	2033	0.40595	0.1286	0.5937	5008	,	,		22510	0.6032		0.4195	False		,,,				2504	0.4305															0			GRCh37	CM053366	OR13G1	M	rs1151640	T	VAL/ILE	739,3667	305.5+/-289.0	58,623,1522	101	84	90		394	-3.4	0	1	dbSNP_87	90	3654,4946	525.3+/-380.7	772,2110,1418	yes	missense	OR13G1	NM_001005487.1	29	830,2733,2940	CC,CT,TT		42.4884,16.7726,33.7767	benign	132/308	247835950	4393,8613	2203	4300	6503	SO:0001583	missense	441933			AB065623	CCDS31094.1	1q44	2012-08-09			ENSG00000197437	ENSG00000197437		"GPCR / Class A : Olfactory receptors"	14999	protein-coding gene	gene with protein product		611677					Standard	NM_001005487		Approved		uc001idi.1	Q8NGZ3	OTTHUMG00000040212	ENST00000359688.2:c.394A>G	1.37:g.247835950T>C	ENSP00000352717:p.Ile132Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN80|Q5T2T2|Q6IF86	Missense_Mutation	SNP	ENST00000359688.2	37	CCDS31094.1	960	0.43956043956043955	65	0.13211382113821138	204	0.56353591160221	372	0.6503496503496503	319	0.420844327176781	T	3.452	-0.111750	0.06881	0.167726	0.424884	ENSG00000197437	ENST00000359688	T	0.00695	5.83	4.2	-3.4	0.04853	GPCR, rhodopsin-like superfamily (1);	0.680368	0.12654	N	0.450235	T	0.00012	0.0000	L	0.40543	1.245	0.80722	P	0.0	B	0.09022	0.002	B	0.11329	0.006	T	0.07404	-1.0774	9	0.17832	T	0.49	-11.8146	5.9215	0.19084	0.0:0.1648:0.4093:0.4259	rs1151640;rs52796519;rs57652947;rs1151640	132	Q8NGZ3	O13G1_HUMAN	V	132	ENSP00000352717:I132V	ENSP00000352717:I132V	I	-	1	0	OR13G1	245902573	0.000000	0.05858	0.000000	0.03702	0.101000	0.19017	-0.022000	0.12480	-0.755000	0.04709	0.460000	0.39030	ATT		0.468	OR13G1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096869.1	NM_001005487		C	247835950	T	C	247835950	3	2	637	1	0	0	0	0	1	0	0	0	10949	1406	49	3	533	3	OR13G1	1	247835950	Missense_Mutation	SNP	T	TCGA-KL-8338-01A-11D-2310-10	43420766	247835950	1414671	7	39297										
GREB1	9687	ucsc.edu	37	chr2	11775503	11775503	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	gaagcagatcgtggtgggcgGccacaggtccttccacatca	13	12	1	1			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr2:11775503G>T	ENST00000381486.2	+	30	5618	c.5318G>T	c.(5317-5319)gGc>gTc	p.G1773V	GREB1_ENST00000234142.5_Missense_Mutation_p.G1773V|GREB1_ENST00000396123.1_Missense_Mutation_p.G771V	NM_014668.3	NP_055483.2	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1773						integral component of membrane (GO:0016021)				breast(3)|central_nervous_system(2)|endometrium(2)|kidney(4)|large_intestine(9)|lung(9)|ovary(1)	30	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GTGGTGGGCGGCCACAGGTCC	0.627																																					Ovarian(39;850 945 2785 23371 33093)											0													57	63	61					2																	11775503		2071	4202	6273	SO:0001583	missense	9687				CCDS33146.1, CCDS33147.1, CCDS42655.1	2p25.1	2010-02-17	2009-09-10		ENSG00000196208	ENSG00000196208			24885	protein-coding gene	gene with protein product	"gene regulated by estrogen in breast cancer"	611736				11103799	Standard	NM_014668		Approved	KIAA0575	uc002rbk.1	Q4ZG55	OTTHUMG00000141276	ENST00000381486.2:c.5318G>T	2.37:g.11775503G>T	ENSP00000370896:p.Gly1773Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHD0|A6NKN0|B5MDA9|O60321|Q7Z5S2|Q9H2Q6|Q9H2Q7|Q9H2Q8	Missense_Mutation	SNP	ENST00000381486.2	37	CCDS42655.1	.	.	.	.	.	.	.	.	.	.	G	26.2	4.717454	0.89205	.	.	ENSG00000196208	ENST00000381486;ENST00000234142;ENST00000396123	T;T;T	0.28255	2.94;2.94;1.62	4.73	4.73	0.59995	.	0.000000	0.85682	D	0.000000	T	0.55545	0.1927	M	0.74647	2.275	0.80722	D	1	D	0.63880	0.993	D	0.64595	0.927	T	0.62469	-0.6848	10	0.87932	D	0	-30.8708	17.7214	0.88352	0.0:0.0:1.0:0.0	.	1773	Q4ZG55	GREB1_HUMAN	V	1773;1773;771	ENSP00000370896:G1773V;ENSP00000234142:G1773V;ENSP00000379429:G771V	ENSP00000234142:G1773V	G	+	2	0	GREB1	11692954	1.000000	0.71417	1.000000	0.80357	0.840000	0.47671	9.147000	0.94646	2.194000	0.70268	0.655000	0.94253	GGC		0.627	GREB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280490.1	NM_014668		T	11775503	G	T	11775503	3	4	637	1	0	0	0	0	1	0	0	0	6767	1203	42	4	5540	4	GREB1	2	11775503	Missense_Mutation	SNP	G	TCGA-KL-8338-01A-11D-2310-10		11775503	231423870	8	39298										
OTOF	9381	bcgsc.ca	37	chr2	26698856	26698856	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	tccgctgctgtcggcggcaaAgaggctgcgggcctggtaca	16	12	0	1	rs397515596		TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr2:26698856A>G	ENST00000272371.2	-	24	3043	c.2917T>C	c.(2917-2919)Ttt>Ctt	p.F973L	OTOF_ENST00000403946.3_Missense_Mutation_p.F973L|OTOF_ENST00000402415.3_Missense_Mutation_p.F283L|OTOF_ENST00000338581.6_Missense_Mutation_p.F226L|OTOF_ENST00000339598.3_Missense_Mutation_p.F226L	NM_194248.2	NP_919224.1	Q9HC10	OTOF_HUMAN	otoferlin	973	C2 3. {ECO:0000255|PROSITE- ProRule:PRU00041}.				membrane fusion (GO:0061025)|sensory perception of sound (GO:0007605)|synaptic vesicle exocytosis (GO:0016079)	cell junction (GO:0030054)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|synaptic vesicle membrane (GO:0030672)	calcium ion binding (GO:0005509)			NS(1)|autonomic_ganglia(1)|breast(9)|central_nervous_system(4)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(14)|lung(35)|ovary(8)|pancreas(1)|prostate(5)|skin(5)|stomach(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	106	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCGGCGGCAAAGAGGCTGCGG	0.652																																					GBM(102;732 1451 20652 24062 31372)											0													43	38	39					2																	26698856		2200	4295	6495	SO:0001583	missense	9381			AF107403	CCDS1724.1, CCDS1725.1, CCDS1726.1, CCDS46241.1, CCDS74497.1	2p23.1	2014-06-27			ENSG00000115155	ENSG00000115155			8515	protein-coding gene	gene with protein product	"fer-1-like family member 2"	603681		DFNB9		10192385, 18381613	Standard	NM_194248		Approved	FER1L2, DFNB6	uc002rhk.3	Q9HC10	OTTHUMG00000096977	ENST00000272371.2:c.2917T>C	2.37:g.26698856A>G	ENSP00000272371:p.Phe973Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DJX0|B5MCC1|B9A0H6|Q53R90|Q9HC08|Q9HC09|Q9Y650	Missense_Mutation	SNP	ENST00000272371.2	37	CCDS1725.1	.	.	.	.	.	.	.	.	.	.	A	17.19	3.325696	0.60743	.	.	ENSG00000115155	ENST00000338581;ENST00000339598;ENST00000402415;ENST00000272371;ENST00000403946	T;T;T;T;T	0.66815	-0.23;-0.23;-0.23;-0.23;-0.23	5.41	5.41	0.78517	C2 membrane targeting protein (1);C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);	0.000000	0.85682	D	0.000000	T	0.36690	0.0976	N	0.00303	-1.675	0.80722	D	1	P;B;P;B	0.48764	0.711;0.024;0.915;0.007	B;B;P;B	0.48952	0.356;0.018;0.596;0.018	T	0.56535	-0.7963	10	0.05620	T	0.96	-4.735	15.0966	0.72238	1.0:0.0:0.0:0.0	.	973;226;283;226	Q9HC10;Q9HC10-2;Q9HC10-3;Q9HC10-4	OTOF_HUMAN;.;.;.	L	226;226;283;973;973	ENSP00000345137:F226L;ENSP00000344521:F226L;ENSP00000383906:F283L;ENSP00000272371:F973L;ENSP00000385255:F973L	ENSP00000272371:F973L	F	-	1	0	OTOF	26552360	1.000000	0.71417	0.999000	0.59377	0.751000	0.42716	6.119000	0.71590	2.059000	0.61396	0.459000	0.35465	TTT		0.652	OTOF-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000214047.3			G	26698856	A	G	26698856	3	3	637	1	0	0	0	0	1	0	0	0	11310	72	3	3	3353	3	OTOF	2	26698856	Missense_Mutation	SNP	A	TCGA-KL-8338-01A-11D-2310-10	14923353	26698856	216500517	9	39299										
RNF103	7844	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	86831681	86831681	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	accattctaagttattggcaTtgacttcatcattgttgttg	7	7	3	1			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr2:86831681T>A	ENST00000237455.4	-	4	2311	c.1343A>T	c.(1342-1344)aAt>aTt	p.N448I	RNF103_ENST00000477307.1_5'Flank|AC015971.2_ENST00000597638.1_RNA|AC015971.2_ENST00000424788.1_RNA|AC015971.2_ENST00000426549.1_RNA|AC015971.2_ENST00000439077.1_RNA|CHMP3_ENST00000439940.2_Intron|RNF103-CHMP3_ENST00000604011.1_Intron	NM_001198951.1|NM_005667.3	NP_001185880.1|NP_005658.1	O00237	RN103_HUMAN	ring finger protein 103	448					central nervous system development (GO:0007417)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|protein ubiquitination (GO:0016567)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)	p.N448I(1)		central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(7)|lung(7)|skin(2)	25						GTTATTGGCATTGACTTCATC	0.418																																																1	Substitution - Missense(1)	kidney(1)											125	124	125					2																	86831681		2203	4300	6503	SO:0001583	missense	7844			D76444	CCDS33237.1	2p11.2	2013-01-09	2003-05-14	2003-05-16	ENSG00000239305	ENSG00000239305		"RING-type (C3HC4) zinc fingers"	12859	protein-coding gene	gene with protein product		602507	"zinc finger protein 103 homolog (mouse)"	ZFP103		9070305	Standard	NM_005667		Approved	hkf-1, KF1	uc021vkg.1	O00237	OTTHUMG00000153197	ENST00000237455.4:c.1343A>T	2.37:g.86831681T>A	ENSP00000237455:p.Asn448Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFV6|B2RAG4|Q53SU6|Q8IVB9	Missense_Mutation	SNP	ENST00000237455.4	37	CCDS33237.1	.	.	.	.	.	.	.	.	.	.	T	15.06	2.722675	0.48728	.	.	ENSG00000239305	ENST00000237455	T	0.46451	0.87	5.59	5.59	0.84812	.	0.044753	0.85682	D	0.000000	T	0.61476	0.2350	L	0.60455	1.87	0.54753	D	0.999988	D	0.76494	0.999	D	0.80764	0.994	T	0.64002	-0.6509	10	0.66056	D	0.02	-16.2147	15.7662	0.78128	0.0:0.0:0.0:1.0	.	448	O00237	RN103_HUMAN	I	448	ENSP00000237455:N448I	ENSP00000237455:N448I	N	-	2	0	RNF103	86685192	1.000000	0.71417	0.998000	0.56505	0.941000	0.58515	3.609000	0.54117	2.133000	0.65898	0.377000	0.23210	AAT		0.418	RNF103-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000330041.2	NM_005667		A	86831681	T	A	86831681	3	1	637	1	0	0	0	0	1	0	0	0	13436	1493	52	5	718	5	RNF103	2	86831681	Missense_Mutation	SNP	T	TCGA-KL-8338-01A-11D-2310-10	60132825	86831681	156367692	10	39300										
PIKFYVE	200576	ucsc.edu;bcgsc.ca	37	chr2	209198216	209198216	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	accagatggtggcgtctttcAggtaagaaatcctaggaatc	11	8	2	2			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr2:209198216A>G	ENST00000264380.4	+	24	4299	c.4141A>G	c.(4141-4143)Agt>Ggt	p.S1381G		NM_015040.3	NP_055855.2	Q9Y2I7	FYV1_HUMAN	phosphoinositide kinase, FYVE finger containing	1381					cellular protein metabolic process (GO:0044267)|intracellular signal transduction (GO:0035556)|myelin assembly (GO:0032288)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol phosphorylation (GO:0046854)|phosphatidylinositol-3-phosphate biosynthetic process (GO:0036092)|phospholipid metabolic process (GO:0006644)|protein localization to nucleus (GO:0034504)|retrograde transport, endosome to Golgi (GO:0042147)|small molecule metabolic process (GO:0044281)	cell-cell junction (GO:0005911)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|early endosome membrane (GO:0031901)|endosome membrane (GO:0010008)|Golgi membrane (GO:0000139)|late endosome membrane (GO:0031902)|membrane raft (GO:0045121)|perinuclear region of cytoplasm (GO:0048471)|vesicle membrane (GO:0012506)	1-phosphatidylinositol-3-phosphate 5-kinase activity (GO:0000285)|1-phosphatidylinositol-4-phosphate 5-kinase activity (GO:0016308)|ATP binding (GO:0005524)|phosphatidylinositol-3,5-bisphosphate 5-phosphatase activity (GO:0043813)|zinc ion binding (GO:0008270)			NS(1)|autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(14)|kidney(6)|large_intestine(25)|lung(40)|ovary(7)|pancreas(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	107						GGCGTCTTTCAGGTAAGAAAT	0.403																																																0													69	65	66					2																	209198216		2203	4300	6503	SO:0001630	splice_region_variant	200576			AB023198	CCDS2382.1, CCDS33368.1, CCDS54431.1	2q34	2014-01-15	2009-04-17	2009-04-17	ENSG00000115020	ENSG00000115020		"Zinc fingers, FYVE domain containing"	23785	protein-coding gene	gene with protein product	"zinc finger, FYVE domain containing 29"	609414	"phosphatidylinositol-3-phosphate/phosphatidylinositol 5-kinase, type III"	PIP5K3		9858586, 12270933	Standard	NM_015040		Approved	MGC40423, KIAA0981, PIKfyve, PIP5K, p235, ZFYVE29, FAB1	uc002vcz.3	Q9Y2I7	OTTHUMG00000132945	ENST00000264380.4:c.4142+1A>G	2.37:g.209198216A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q08AR7|Q08AR8|Q53ST3|Q53T36|Q8N5H0|Q8NB67	Missense_Mutation	SNP	ENST00000264380.4	37	CCDS2382.1	.	.	.	.	.	.	.	.	.	.	A	23.3	4.398979	0.83120	.	.	ENSG00000115020	ENST00000264380;ENST00000392200;ENST00000452564	T;T	0.29655	1.56;1.73	5.3	5.3	0.74995	.	0.000000	0.85682	D	0.000000	T	0.47525	0.1450	L	0.50333	1.59	0.80722	D	1	D;D	0.58268	0.982;0.969	D;D	0.67548	0.952;0.914	T	0.29640	-1.0005	10	0.28530	T	0.3	-13.6451	15.2597	0.73613	1.0:0.0:0.0:0.0	.	1381;1325	Q9Y2I7;E9PDH4	FYV1_HUMAN;.	G	1381;957;1325	ENSP00000264380:S1381G;ENSP00000405736:S1325G	ENSP00000264380:S1381G	S	+	1	0	PIKFYVE	208906461	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	8.962000	0.93254	2.018000	0.59344	0.454000	0.30748	AGT		0.403	PIKFYVE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256477.2	NM_015040	Missense_Mutation	G	209198216	A	G	209198216	5	3	637	1	0	0	0	0	0	0	1	0	11931	202	7	3	4242	3	PIKFYVE	2	209198216	Splice_Site	SNP	A	TCGA-KL-8338-01A-11D-2310-10	122366535	209198216	34001157	11	39301										
PECR	55825	bcgsc.ca	37	chr2	216923679	216923679	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	gacgatagatcctccatgctCtttcatccaggagctgtaaa	8	11	2	1	rs1429148	byFrequency	TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr2:216923679C>T	ENST00000265322.7	-	4	519	c.445G>A	c.(445-447)Gag>Aag	p.E149K	PECR_ENST00000497889.1_5'UTR	NM_018441.5	NP_060911.2	Q9BY49	PECR_HUMAN	peroxisomal trans-2-enoyl-CoA reductase	149			E -> K (in dbSNP:rs1429148).		fatty acid biosynthetic process (GO:0006633)|oxidation-reduction process (GO:0055114)|phytol metabolic process (GO:0033306)	intracellular membrane-bounded organelle (GO:0043231)|mitochondrion (GO:0005739)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	receptor binding (GO:0005102)|trans-2-enoyl-CoA reductase (NADPH) activity (GO:0019166)			endometrium(2)|kidney(1)|liver(1)|lung(9)|stomach(1)	14		Renal(323;0.0327)		Epithelial(149;3.8e-06)|all cancers(144;0.000272)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Adenine(DB00173)	CCTCCATGCTCTTTCATCCAG	0.393													C|||	877	0.17512	0.2451	0.1167	5008	,	,		19157	0.1935		0.0497	False		,,,				2504	0.2321															0								C	LYS/GLU	941,3465	358.6+/-314.5	97,747,1359	111	107	108		445	-1	0.2	2	dbSNP_88	108	508,8092	145.1+/-200.9	12,484,3804	yes	missense	PECR	NM_018441.5	56	109,1231,5163	TT,TC,CC		5.907,21.3572,11.141	benign	149/304	216923679	1449,11557	2203	4300	6503	SO:0001583	missense	55825			AF119841	CCDS33375.1	2q35	2011-09-14			ENSG00000115425	ENSG00000115425	1.3.1.38	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 1"	18281	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 29C, member 1"	605843				10811639, 11669066, 19027726	Standard	NM_018441		Approved	HSA250303, TERP, SDR29C1	uc002vft.3	Q9BY49	OTTHUMG00000154825	ENST00000265322.7:c.445G>A	2.37:g.216923679C>T	ENSP00000265322:p.Glu149Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE42|Q53TC4|Q6IAK9|Q9NRD4|Q9NY60|Q9P1A4	Missense_Mutation	SNP	ENST00000265322.7	37	CCDS33375.1	334	0.15293040293040294	118	0.23983739837398374	37	0.10220994475138122	141	0.2465034965034965	38	0.05013192612137203	C	8.624	0.892018	0.17613	0.213572	0.05907	ENSG00000115425	ENST00000265322	T	0.42513	0.97	5.77	-1.01	0.10169	Apoptosis regulator, Bcl-2, BH (1);NAD(P)-binding domain (1);	0.630718	0.17997	N	0.155025	T	0.00012	0.0000	N	0.02775	-0.495	0.28925	P	0.891905	B;B	0.15930	0.005;0.015	B;B	0.25614	0.027;0.062	T	0.34650	-0.9820	9	0.10377	T	0.69	.	6.3072	0.21145	0.0:0.4753:0.1195:0.4052	rs1429148;rs3732029;rs59553324;rs1429148	149;3	Q9BY49;Q9BY49-2	PECR_HUMAN;.	K	149	ENSP00000265322:E149K	ENSP00000265322:E149K	E	-	1	0	PECR	216631924	0.024000	0.19004	0.180000	0.23079	0.930000	0.56654	-0.209000	0.09358	-0.531000	0.06340	-1.106000	0.02097	GAG		0.393	PECR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337277.1	NM_018441		T	216923679	C	T	216923679	3	4	637	1	0	0	0	0	1	0	0	0	11724	922	32	2	486	2	PECR	2	216923679	Missense_Mutation	SNP	C	TCGA-KL-8338-01A-11D-2310-10	7725463	216923679	26275694	12	39302										
MAGI1	9223	hgsc.bcm.edu	37	chr3	65425594	65425594	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	tgctgctgctgctgctgttgCtgctgctgttgctgctgctg	14	11	0	0	rs552500635	byFrequency	TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr3:65425594C>T	ENST00000497477.2	-	9	1229	c.1230G>A	c.(1228-1230)caG>caA	p.Q410Q	MAGI1_ENST00000483466.1_Silent_p.Q410Q|MAGI1_ENST00000330909.8_Silent_p.Q410Q|MAGI1_ENST00000470990.1_5'UTR|MAGI1_ENST00000402939.2_Silent_p.Q410Q			Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ domain containing 1	410	Poly-Gln.				cell adhesion (GO:0007155)|cell surface receptor signaling pathway (GO:0007166)|neuron death (GO:0070997)|protein complex assembly (GO:0006461)	cell junction (GO:0030054)|cell projection (GO:0042995)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	alpha-actinin binding (GO:0051393)|ATP binding (GO:0005524)|protein C-terminus binding (GO:0008022)			breast(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|liver(1)|lung(21)|pancreas(1)|skin(5)	51		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		gctgctgttgctgctgctgtt	0.542											OREG0015658	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	C|||	722	0.144169	0.0893	0.1282	5008	,	,		14940	0.2024		0.0825	False		,,,				2504	0.2331															0													65	61	62					3																	65425594		2199	4283	6482	SO:0001819	synonymous_variant	9223			AB010894	CCDS33780.1, CCDS33781.1, CCDS2904.1	3p14.1	2009-10-06	2005-05-10	2005-05-10	ENSG00000151276	ENSG00000151276			946	protein-coding gene	gene with protein product		602625	"BAI1-associated protein 1"	BAIAP1		9647739, 9225980	Standard	XM_005265563		Approved	BAP1, MAGI-1, TNRC19, AIP3, WWP3	uc003dmn.3	Q96QZ7	OTTHUMG00000157554	ENST00000497477.2:c.1230G>A	3.37:g.65425594C>T		Somatic	1084	WXS	Illumina HiSeq	Phase_I	A8K188|O00309|O43863|O75085|Q96QZ8|Q96QZ9	Silent	SNP	ENST00000497477.2	37		.	.	.	.	.	.	.	.	.	.	C	1.063	-0.672234	0.03403	.	.	ENSG00000151276	ENST00000460329	.	.	.	3.3	-0.172	0.13327	.	.	.	.	.	T	0.20292	0.0488	.	.	.	0.09310	N	0.999998	.	.	.	.	.	.	T	0.22556	-1.0213	4	.	.	.	0.8958	1.6281	0.02727	0.1431:0.3787:0.1264:0.3517	.	.	.	.	N	291	.	.	S	-	2	0	MAGI1	65400634	0.371000	0.25056	0.001000	0.08648	0.001000	0.01503	-1.015000	0.03637	-0.726000	0.04895	-0.813000	0.03139	AGC		0.542	MAGI1-007	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000349132.2	NM_004742		T	65425594	C	T	65425594	2	4	637	1	0	0	0	0	0	0	0	1	9197	796	28	2		2	MAGI1	3	65425594	Silent	SNP	C	TCGA-KL-8338-01A-11D-2310-10		65425594	132596836	13	39303										
RABL3	285282	broad.mit.edu	37	chr3	120417415	120417415	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	cagcaaactgttcttgatcaTaatccctgtgataaataata	5	8	2	2			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr3:120417415T>C	ENST00000273375.3	-	5	418	c.389A>G	c.(388-390)tAt>tGt	p.Y130C	RABL3_ENST00000483733.1_Missense_Mutation_p.Y130C|RABL3_ENST00000491398.1_5'UTR	NM_173825.3	NP_776186.2	Q5HYI8	RABL3_HUMAN	RAB, member of RAS oncogene family-like 3	130	Small GTPase-like.				small GTPase mediated signal transduction (GO:0007264)		GTP binding (GO:0005525)			breast(1)|endometrium(1)|kidney(2)|large_intestine(3)|lung(10)	17				GBM - Glioblastoma multiforme(114;0.151)		TTCTTGATCATAATCCCTGTG	0.338																																																0													190	207	202					3																	120417415		2203	4296	6499	SO:0001583	missense	285282			BC020832	CCDS3001.1	3q13.33	2008-02-05			ENSG00000144840	ENSG00000144840			18072	protein-coding gene	gene with protein product						12477932	Standard	NM_173825		Approved	MGC23920	uc003edx.3	Q5HYI8	OTTHUMG00000159668	ENST00000273375.3:c.389A>G	3.37:g.120417415T>C	ENSP00000273375:p.Tyr130Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WUD3	Missense_Mutation	SNP	ENST00000273375.3	37	CCDS3001.1	.	.	.	.	.	.	.	.	.	.	T	21.2	4.112522	0.77210	.	.	ENSG00000144840	ENST00000273375;ENST00000483733	T;T	0.71103	-0.54;-0.51	5.72	5.72	0.89469	.	0.000000	0.85682	D	0.000000	T	0.81592	0.4855	L	0.57536	1.79	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.82598	-0.0378	10	0.56958	D	0.05	-12.3624	15.1734	0.72894	0.0:0.0:0.0:1.0	.	130	Q5HYI8	RABL3_HUMAN	C	130	ENSP00000273375:Y130C;ENSP00000419986:Y130C	ENSP00000273375:Y130C	Y	-	2	0	RABL3	121900105	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.572000	0.82409	2.176000	0.68965	0.455000	0.32223	TAT		0.338	RABL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356776.1	NM_173825		C	120417415	T	C	120417415	3	2	637	1	0	0	0	0	1	0	0	0	12985	1406	49	3	337	3	RABL3	3	120417415	Missense_Mutation	SNP	T	TCGA-KL-8338-01A-11D-2310-10	54991821	120417415	77605015	14	39304										
DHX36	170506	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	154033067	154033067	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	tagtagaaacttcagtaccgTatctgttttgacaaaataag	7	6	2	2	rs138481688		TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr3:154033067T>A	ENST00000496811.1	-	3	451	c.371A>T	c.(370-372)tAc>tTc	p.Y124F	DHX36_ENST00000544526.1_Missense_Mutation_p.Y124F|DHX36_ENST00000308361.6_Missense_Mutation_p.Y124F|DHX36_ENST00000329463.5_Missense_Mutation_p.Y124F	NM_020865.2	NP_065916.2	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	124					ATP catabolic process (GO:0006200)|innate immune response (GO:0045087)|ossification (GO:0001503)|positive regulation of telomere maintenance (GO:0032206)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of type I interferon production (GO:0032481)|response to exogenous dsRNA (GO:0043330)|response to virus (GO:0009615)|RNA secondary structure unwinding (GO:0010501)|transcription, DNA-templated (GO:0006351)	chromosome, telomeric region (GO:0000781)|cytosol (GO:0005829)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|core promoter binding (GO:0001047)|DNA-dependent ATPase activity (GO:0008094)|double-stranded RNA binding (GO:0003725)|G-quadruplex DNA binding (GO:0051880)|G-quadruplex RNA binding (GO:0002151)|histone deacetylase binding (GO:0042826)|poly(A) RNA binding (GO:0044822)|transcription regulatory region DNA binding (GO:0044212)			endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(7)|lung(11)|prostate(2)|skin(1)|urinary_tract(1)	35			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TTCAGTACCGTATCTGTTTTG	0.333																																																0													68	67	67					3																	154033067		2203	4297	6500	SO:0001583	missense	170506			AF217190	CCDS3171.1, CCDS54657.1	3q25.2	2012-09-20	2003-06-13	2003-06-20	ENSG00000174953	ENSG00000174953		"DEAH-boxes"	14410	protein-coding gene	gene with protein product		612767	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 36"	DDX36			Standard	NM_020865		Approved	MLEL1, KIAA1488	uc003ezy.4	Q9H2U1	OTTHUMG00000159109	ENST00000496811.1:c.371A>T	3.37:g.154033067T>A	ENSP00000417078:p.Tyr124Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2RB00|Q70JU3|Q8IYE5|Q9P240	Missense_Mutation	SNP	ENST00000496811.1	37	CCDS3171.1	.	.	.	.	.	.	.	.	.	.	T	12.26	1.884336	0.33255	.	.	ENSG00000174953	ENST00000496811;ENST00000308361;ENST00000544526;ENST00000329463;ENST00000481941	T;T;T;T;T	0.09350	2.99;2.99;2.99;2.99;2.99	5.52	5.52	0.82312	.	0.389150	0.28476	N	0.015219	T	0.07413	0.0187	N	0.24115	0.695	0.35513	D	0.800764	B;B;B	0.09022	0.001;0.001;0.002	B;B;B	0.08055	0.002;0.003;0.001	T	0.24621	-1.0155	10	0.10902	T	0.67	.	12.0359	0.53425	0.0:0.0:0.0:1.0	.	124;124;124	Q9H2U1-2;Q9H2U1-3;Q9H2U1	.;.;DHX36_HUMAN	F	124;124;124;124;38	ENSP00000417078:Y124F;ENSP00000309296:Y124F;ENSP00000444247:Y124F;ENSP00000330113:Y124F;ENSP00000419862:Y38F	ENSP00000309296:Y124F	Y	-	2	0	DHX36	155515761	0.623000	0.27094	1.000000	0.80357	0.454000	0.32378	1.778000	0.38614	2.100000	0.63781	0.467000	0.42956	TAC		0.333	DHX36-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353349.1	NM_020865		A	154033067	T	A	154033067	3	1	637	1	0	0	0	0	1	0	0	0	4511	1638	57	5	2747	5	DHX36	3	154033067	Missense_Mutation	SNP	T	TCGA-KL-8338-01A-11D-2310-10	33615652	154033067	43989363	15	39305										
NDUFB5	4711	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	179336311	179336311	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	ctgaaaaggctgaattacggTaggaaaaacgagggggtagg	16	4	0	2			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr3:179336311T>C	ENST00000259037.3	+	5	563		c.e5+2		NDUFB5_ENST00000493866.1_Splice_Site|NDUFB5_ENST00000473500.1_Splice_Site|NDUFB5_ENST00000472629.1_Splice_Site	NM_002492.3	NP_002483.1	O43674	NDUB5_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 5, 16kDa						cellular metabolic process (GO:0044237)|mitochondrial electron transport, NADH to ubiquinone (GO:0006120)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain complex I (GO:0005747)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	NADH dehydrogenase (ubiquinone) activity (GO:0008137)			endometrium(1)|lung(6)|skin(1)	8	all_cancers(143;9.62e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)|BRCA - Breast invasive adenocarcinoma(182;0.18)			TGAATTACGGTAGGAAAAACG	0.373																																																0													52	53	52					3																	179336311		2203	4300	6503	SO:0001630	splice_region_variant	4711			AF047181	CCDS3234.1, CCDS56297.1, CCDS75054.1	3q27.1	2011-07-04	2002-08-29		ENSG00000136521	ENSG00000136521		"Mitochondrial respiratory chain complex / Complex I"	7700	protein-coding gene	gene with protein product	"complex I SGDH subunit"	603841	"NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 5 (16kD, SGDH)"			9425316	Standard	NM_002492		Approved	SGDH, CI-SGDH, MGC12314	uc003fkc.3	O43674	OTTHUMG00000157480	ENST00000259037.3:c.449+2T>C	3.37:g.179336311T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q561V6	Splice_Site	SNP	ENST00000259037.3	37	CCDS3234.1	.	.	.	.	.	.	.	.	.	.	T	17.55	3.418381	0.62622	.	.	ENSG00000136521	ENST00000259037;ENST00000493866;ENST00000472629;ENST00000482604	.	.	.	5.97	5.97	0.96955	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.4432	0.75204	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	NDUFB5	180819005	1.000000	0.71417	0.999000	0.59377	0.769000	0.43574	5.492000	0.66893	2.284000	0.76573	0.523000	0.50628	.		0.373	NDUFB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348937.2	NM_002492	Intron	C	179336311	T	C	179336311	5	2	637	1	0	0	0	0	0	0	1	0	10291	1652	57	3	469	3	NDUFB5	3	179336311	Splice_Site	SNP	T	TCGA-KL-8338-01A-11D-2310-10	25303244	179336311	18686119	16	39306										
ANKRD17	26057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	73959889	73959889	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	gaatagcattgatattacagCctcctcttccaatcactctg	5	12	3	1			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr4:73959889C>A	ENST00000358602.4	-	28	5350	c.5234G>T	c.(5233-5235)gGc>gTc	p.G1745V	ANKRD17_ENST00000330838.6_Missense_Mutation_p.G1494V|ANKRD17_ENST00000509867.2_Missense_Mutation_p.G1632V	NM_032217.3	NP_115593.3	O75179	ANR17_HUMAN	ankyrin repeat domain 17	1745	KH. {ECO:0000255|PROSITE- ProRule:PRU00117}.				blood vessel maturation (GO:0001955)|negative regulation of smooth muscle cell differentiation (GO:0051151)|viral process (GO:0016032)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			NS(3)|breast(2)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(15)|lung(39)|ovary(6)|pancreas(1)|prostate(3)|skin(5)|upper_aerodigestive_tract(3)	96	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GATATTACAGCCTCCTCTTCC	0.348																																																0													162	151	155					4																	73959889		2203	4300	6503	SO:0001583	missense	26057			AB014597	CCDS34003.1, CCDS34004.1, CCDS68721.1	4q21.1-q21.21	2013-01-10			ENSG00000132466	ENSG00000132466		"Ankyrin repeat domain containing"	23575	protein-coding gene	gene with protein product		615929				11165478	Standard	NM_032217		Approved	GTAR, KIAA0697, FLJ22206, NY-BR-16	uc003hgp.3	O75179	OTTHUMG00000160826	ENST00000358602.4:c.5234G>T	4.37:g.73959889C>A	ENSP00000351416:p.Gly1745Val	Somatic		WXS	Illumina HiSeq	Phase_I	E7EUV3|G5E964|Q6PJ85|Q6PK85|Q6PKA2|Q86XI3|Q8NDR5|Q96I86|Q9H288|Q9H6J9	Missense_Mutation	SNP	ENST00000358602.4	37	CCDS34004.1	.	.	.	.	.	.	.	.	.	.	C	26.8	4.775657	0.90195	.	.	ENSG00000132466	ENST00000358602;ENST00000426990;ENST00000330838;ENST00000509867;ENST00000426917	D;D;D	0.94184	-3.37;-3.37;-3.37	5.52	5.52	0.82312	K Homology (1);K Homology, type 1, subgroup (1);K Homology, type 1 (1);	0.000000	0.64402	D	0.000006	D	0.98375	0.9460	H	0.99058	4.415	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	0.999;0.999;1.0;1.0	D	0.99616	1.0982	10	0.87932	D	0	.	19.4499	0.94862	0.0:1.0:0.0:0.0	.	1744;1494;1745;1632	O75179-2;G5E964;O75179;E7EUV3	.;.;ANR17_HUMAN;.	V	1745;1152;1494;1632;129	ENSP00000351416:G1745V;ENSP00000332265:G1494V;ENSP00000427151:G1632V	ENSP00000332265:G1494V	G	-	2	0	ANKRD17	74178753	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.416000	0.80143	2.582000	0.87167	0.585000	0.79938	GGC		0.348	ANKRD17-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000362475.1	NM_032217		A	73959889	C	A	73959889	3	1	637	1	0	0	0	0	1	0	0	0	646	739	26	4	2605	4	ANKRD17	4	73959889	Missense_Mutation	SNP	C	TCGA-KL-8338-01A-11D-2310-10		73959889	117194387	17	39307										
CXCL5	6374	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	74863781	74863781	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	aaaaggggcttctggatcaaGacaaatttccttcccgttct	8	10	3	1			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr4:74863781G>T	ENST00000296027.4	-	3	471	c.274C>A	c.(274-276)Ctt>Att	p.L92I		NM_002994.3	NP_002985.1	P42830	CXCL5_HUMAN	chemokine (C-X-C motif) ligand 5	92					cell chemotaxis (GO:0060326)|cell-cell signaling (GO:0007267)|chemotaxis (GO:0006935)|immune response (GO:0006955)|positive regulation of cell proliferation (GO:0008284)|signal transduction (GO:0007165)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	chemokine activity (GO:0008009)			endometrium(3)|large_intestine(2)|lung(3)|urinary_tract(1)	9	Breast(15;0.00136)		all cancers(17;0.00273)|Lung(101;0.196)			TCTGGATCAAGACAAATTTCC	0.428																																																0													85	93	91					4																	74863781		2203	4300	6503	SO:0001583	missense	6374			X78686	CCDS34006.1	4q13.3	2013-02-25	2002-08-22	2002-08-23		ENSG00000163735		"Endogenous ligands"	10642	protein-coding gene	gene with protein product		600324	"small inducible cytokine subfamily B (Cys-X-Cys), member 5 (epithelial-derived neutrophil-activating peptide 78)"	SCYB5		7929219	Standard	NM_002994		Approved	ENA-78	uc003hhk.4	P42830		ENST00000296027.4:c.274C>A	4.37:g.74863781G>T	ENSP00000296027:p.Leu92Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q96QE1	Missense_Mutation	SNP	ENST00000296027.4	37	CCDS34006.1	.	.	.	.	.	.	.	.	.	.	G	12.27	1.887192	0.33348	.	.	ENSG00000163735	ENST00000296027	T	0.06068	3.35	3.78	2.9	0.33743	CXC chemokine, conserved site (1);Chemokine interleukin-8-like domain (3);	0.085998	0.48767	N	0.000175	T	0.26557	0.0649	M	0.90145	3.09	0.29520	N	0.853537	D	0.89917	1.0	D	0.87578	0.998	T	0.10154	-1.0642	10	0.62326	D	0.03	.	8.2023	0.31432	0.0:0.0:0.7615:0.2385	.	92	P42830	CXCL5_HUMAN	I	92	ENSP00000296027:L92I	ENSP00000296027:L92I	L	-	1	0	CXCL5	75082645	0.992000	0.36948	0.539000	0.28077	0.233000	0.25261	2.704000	0.47118	0.759000	0.33084	0.306000	0.20318	CTT		0.428	CXCL5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362749.1	NM_002994		T	74863781	G	T	74863781	3	4	637	1	0	0	0	0	1	0	0	0	4089	942	33	4	78	4	CXCL5	4	74863781	Missense_Mutation	SNP	G	TCGA-KL-8338-01A-11D-2310-10	903892	74863781	116290495	18	39308										
MIER3	166968	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr5	56229122	56229122	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	gcagaaatcctatccattatTttttcactgccagtccttaa	4	11	1	1			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr5:56229122T>G	ENST00000381199.3	-	8	709	c.699A>C	c.(697-699)aaA>aaC	p.K233N	MIER3_ENST00000381226.3_Missense_Mutation_p.K238N|MIER3_ENST00000381213.3_Missense_Mutation_p.K233N|MIER3_ENST00000409421.1_Missense_Mutation_p.K170N			Q7Z3K6	MIER3_HUMAN	mesoderm induction early response 1, family member 3	233	ELM2. {ECO:0000255|PROSITE- ProRule:PRU00512}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			NS(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(11)|liver(1)|lung(2)|urinary_tract(1)	19		Lung NSC(810;4.65e-05)|Prostate(74;0.0253)|Breast(144;0.0503)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;1.24e-37)		TATCCATTATTTTTTCACTGC	0.398																																																0													237	228	231					5																	56229122		2203	4300	6503	SO:0001583	missense	166968			BX537798	CCDS3973.2, CCDS75248.1	5q11.2	2009-03-19			ENSG00000155545	ENSG00000155545			26678	protein-coding gene	gene with protein product						12477932	Standard	XM_005248448		Approved	FLJ35954, DKFZp686L09111, DKFZp781I1119	uc003jra.1	Q7Z3K6	OTTHUMG00000059589	ENST00000381199.3:c.699A>C	5.37:g.56229122T>G	ENSP00000370596:p.Lys233Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRI9|B8ZZQ0|Q5CZI0|Q68CS3|Q6MZS7|Q86YG8|Q8NA13	Missense_Mutation	SNP	ENST00000381199.3	37		.	.	.	.	.	.	.	.	.	.	T	15.30	2.791476	0.50102	.	.	ENSG00000155545	ENST00000381226;ENST00000381213;ENST00000381199;ENST00000409421	T;T;T;T	0.47528	0.84;0.84;0.84;0.84	5.5	0.519	0.17035	ELM2 domain (1);	0.046629	0.85682	D	0.000000	T	0.51550	0.1681	L	0.41710	1.295	0.38505	D	0.948324	D;D;P	0.76494	0.994;0.999;0.928	P;D;P	0.69479	0.81;0.964;0.775	T	0.47222	-0.9134	10	0.35671	T	0.21	-4.2485	9.0203	0.36195	0.0:0.2834:0.0:0.7166	.	233;238;233	Q7Z3K6;Q7Z3K6-2;Q7Z3K6-3	MIER3_HUMAN;.;.	N	238;233;233;170	ENSP00000370624:K238N;ENSP00000370611:K233N;ENSP00000370596:K233N;ENSP00000386584:K170N	ENSP00000370596:K233N	K	-	3	2	MIER3	56264879	0.096000	0.21769	0.251000	0.24312	0.991000	0.79684	0.502000	0.22594	0.078000	0.16900	-0.256000	0.11100	AAA		0.398	MIER3-004	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000132523.2	NM_152622		G	56229122	T	G	56229122	3	3	637	1	0	0	0	0	1	0	0	0	9589	1838	64	5	974	5	MIER3	5	56229122	Missense_Mutation	SNP	T	TCGA-KL-8338-01A-11D-2310-10		56229122	124686138	19	39309										
VCAN	1462	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr5	82841438	82841438	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	tcctacgtatgcacctgtgtGccaggatacagcggagacca	11	12	0	1			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr5:82841438G>T	ENST00000265077.3	+	9	9913	c.9348G>T	c.(9346-9348)gtG>gtT	p.V3116V	VCAN-AS1_ENST00000513899.1_RNA|VCAN_ENST00000343200.5_Silent_p.V2129V|VCAN_ENST00000512590.2_Silent_p.V1314V|VCAN-AS1_ENST00000512090.1_RNA|VCAN_ENST00000502527.2_Silent_p.V375V|VCAN_ENST00000513016.1_3'UTR|VCAN_ENST00000342785.4_Silent_p.V1362V	NM_004385.4	NP_004376.2	P13611	CSPG2_HUMAN	versican	3116	EGF-like 1. {ECO:0000255|PROSITE- ProRule:PRU00076}.				carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|cell recognition (GO:0008037)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|extracellular matrix organization (GO:0030198)|glial cell migration (GO:0008347)|glycosaminoglycan metabolic process (GO:0030203)|heart development (GO:0007507)|multicellular organismal development (GO:0007275)|osteoblast differentiation (GO:0001649)|small molecule metabolic process (GO:0044281)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi lumen (GO:0005796)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|carbohydrate binding (GO:0030246)|glycosaminoglycan binding (GO:0005539)|hyaluronic acid binding (GO:0005540)			NS(2)|biliary_tract(1)|breast(3)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(52)|lung(64)|ovary(8)|pancreas(3)|prostate(13)|skin(14)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(5)	190		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)	Hyaluronan(DB08818)	GCACCTGTGTGCCAGGATACA	0.463																																																0													185	175	178					5																	82841438		2203	4300	6503	SO:0001819	synonymous_variant	1462			X15998	CCDS4060.1, CCDS47242.1, CCDS54875.1, CCDS54876.1	5q14.2-q14.3	2013-05-07	2007-02-15	2007-02-15	ENSG00000038427	ENSG00000038427		"Immunoglobulin superfamily / V-set domain containing", "Proteoglycans / Extracellular Matrix : Hyalectans"	2464	protein-coding gene	gene with protein product	"versican proteoglycan"	118661	"chondroitin sulfate proteoglycan 2"	CSPG2		1478664, 21063030	Standard	NM_004385		Approved	PG-M	uc003kii.3	P13611	OTTHUMG00000131321	ENST00000265077.3:c.9348G>T	5.37:g.82841438G>T		Somatic		WXS	Illumina HiSeq	Phase_I	P20754|Q13010|Q13189|Q15123|Q9UCL9|Q9UNW5	Silent	SNP	ENST00000265077.3	37	CCDS4060.1																																																																																				0.463	VCAN-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000254092.3	NM_004385		T	82841438	G	T	82841438	2	4	637	1	0	0	0	0	0	0	0	1	17150	1306	46	4		4	VCAN	5	82841438	Silent	SNP	G	TCGA-KL-8338-01A-11D-2310-10	26612316	82841438	98073822	20	39310										
OR2B2	81697	hgsc.bcm.edu	37	chr6	27879249	27879249	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	tatataaggggattcagcatGggtgcaatgattccacagaa	11	6	1	2	rs375078072		TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr6:27879249G>A	ENST00000303324.2	-	1	925	c.849C>T	c.(847-849)ccC>ccT	p.P283P		NM_033057.2	NP_149046.2	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B, member 2	283						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			cervix(1)|endometrium(4)|large_intestine(5)|lung(10)|prostate(1)|urinary_tract(1)	22						GATTCAGCATGGGTGCAATGA	0.403																																																0								G		0,4406		0,0,2203	76	75	75		849	3.4	1	6		75	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	OR2B2	NM_033057.2		0,1,6502	AA,AG,GG		0.0116,0.0,0.0077		283/358	27879249	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	81697			Z98744	CCDS4641.1	6p22.3-p21.3	2014-02-19	2002-02-28		ENSG00000168131	ENSG00000168131		"GPCR / Class A : Olfactory receptors"	13966	protein-coding gene	gene with protein product			"olfactory receptor, family 2, subfamily B, member 9"	OR2B9			Standard	NM_033057		Approved	hs6M1-10, OR6-1, OR2B2Q	uc011dkw.2	Q9GZK3	OTTHUMG00000014495	ENST00000303324.2:c.849C>T	6.37:g.27879249G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RNH2|Q9GZL2|Q9Y299	Silent	SNP	ENST00000303324.2	37	CCDS4641.1																																																																																				0.403	OR2B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040163.1			A	27879249	G	A	27879249	2	1	637	1	0	0	0	0	0	0	0	1	10996	1335	47	2		2	OR2B2	6	27879249	Silent	SNP	G	TCGA-KL-8338-01A-11D-2310-10		27879249	143235818	21	39311										
HLA-B	3106	mdanderson.org	37	chr6	31324046	31324046	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	ctgctccgcctcacgggccgCctcccacttgcgctgggtga	12	18	1	1			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr6:31324046C>T	ENST00000412585.2	-	3	545	c.517G>A	c.(517-519)Gcg>Acg	p.A173T		NM_005514.6	NP_005505.2	P30486	1B48_HUMAN	major histocompatibility complex, class I, B	173	Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|immune response (GO:0006955)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|viral process (GO:0016032)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|MHC class I protein complex (GO:0042612)	peptide antigen binding (GO:0042605)			endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(4)|lung(4)|prostate(1)|upper_aerodigestive_tract(2)	27						TCACGGGCCGCCTCCCACTTG	0.677									Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of																																							0													29	20	23					6																	31324046		2157	4214	6371	SO:0001583	missense	3106	Familial Cancer Database	;Lichen Sclerosis, Familial	M15470	CCDS34394.1	6p21.3	2013-01-11			ENSG00000234745	ENSG00000234745		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4932	protein-coding gene	gene with protein product		142830	"ankylosing spondylitis"	AS		3459708	Standard	NM_005514		Approved		uc011imz.2	P01889	OTTHUMG00000031153	ENST00000412585.2:c.517G>A	6.37:g.31324046C>T	ENSP00000399168:p.Ala173Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q29764	Missense_Mutation	SNP	ENST00000412585.2	37	CCDS34394.1	.	.	.	.	.	.	.	.	.	.	N	12.69	2.013055	0.35511	.	.	ENSG00000234745	ENST00000412585;ENST00000428231;ENST00000452596;ENST00000434333	T;T	0.00010	9.41;9.41	3.18	1.27	0.21489	MHC class I, alpha chain, alpha1/alpha2 (2);MHC classes I/II-like antigen recognition protein (2);MHC class I-like antigen recognition (2);	0.413983	0.16697	U	0.203317	T	0.00144	0.0004	M	0.87758	2.905	0.09310	N	1	D;D	0.76494	0.999;0.999	D;D	0.87578	0.994;0.998	T	0.15983	-1.0418	10	0.56958	D	0.05	.	5.8476	0.18675	0.0:0.6711:0.2073:0.1215	.	173;173	P30480;P01889	1B42_HUMAN;1B07_HUMAN	T	173;52;52;184	ENSP00000399168:A173T;ENSP00000405931:A184T	ENSP00000399168:A173T	A	-	1	0	HLA-B	31432025	0.000000	0.05858	0.017000	0.16124	0.005000	0.04900	-0.597000	0.05713	0.174000	0.19809	0.297000	0.19635	GCG		0.677	HLA-B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076280.4	NM_005514		T	31324046	C	T	31324046	3	4	637	1	0	0	0	0	1	0	0	0	7203	739	26	2	591	2	HLA-B	6	31324046	Missense_Mutation	SNP	C	TCGA-KL-8338-01A-11D-2310-10	3444797	31324046	139791021	22	39312										
HLA-DRB5	3127	mdanderson.org	37	chr6	32497975	32497975	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	gtcagctttgccatgtaggaAcctccagggagcttcagaca	11	11	2	1	rs114195860	byFrequency	TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr6:32497975A>G	ENST00000374975.3	-	1	89	c.27T>C	c.(25-27)ggT>ggC	p.G9G		NM_002125.3	NP_002116.2			major histocompatibility complex, class II, DR beta 5											NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|pancreas(1)|prostate(1)|stomach(2)	10						CCATGTAGGAACCTCCAGGGA	0.582																																																0													58	65	63					6																	32497975		2198	4282	6480	SO:0001819	synonymous_variant	3127				CCDS4751.1	6p21.3	2013-01-11			ENSG00000198502	ENSG00000198502		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4953	protein-coding gene	gene with protein product		604776					Standard	NM_002125		Approved		uc003obj.3	Q30154	OTTHUMG00000031027	ENST00000374975.3:c.27T>C	6.37:g.32497975A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000374975.3	37	CCDS4751.1																																																																																				0.582	HLA-DRB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076022.2	NM_002125		G	32497975	A	G	32497975	2	3	637	1	0	0	0	0	0	0	0	1	7216	30	2	3		3	HLA-DRB5	6	32497975	Silent	SNP	A	TCGA-KL-8338-01A-11D-2310-10	1173929	32497975	138617092	23	39313										
CNPY3	10695	bcgsc.ca	37	chr6	42906384	42906384	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	gaagtccaagaagaagagcaGcagggccaaggcagcaggcg	16	9	0	3	rs9471969	byFrequency	TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr6:42906384G>T	ENST00000372836.4	+	6	1063	c.692G>T	c.(691-693)aGc>aTc	p.S231I	CNPY3_ENST00000394142.3_3'UTR|RP3-475N16.1_ENST00000450671.1_RNA	NM_006586.3	NP_006577.2	Q9BT09	CNPY3_HUMAN	canopy FGF signaling regulator 3	231	Saposin B-type.		S -> I (in dbSNP:rs9471969).		innate immune response (GO:0045087)|toll-like receptor signaling pathway (GO:0002224)	endoplasmic reticulum lumen (GO:0005788)				central_nervous_system(1)|endometrium(1)|lung(3)|ovary(1)	6	Colorectal(47;0.196)		all cancers(41;0.000954)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|OV - Ovarian serous cystadenocarcinoma(102;0.0218)|Kidney(15;0.0388)			AAGAAGAGCAGCAGGGCCAAG	0.622													G|||	1071	0.213858	0.3328	0.2075	5008	,	,		19202	0.0149		0.2744	False		,,,				2504	0.2004															0								G	ILE/SER	1419,2987	449.8+/-349.2	230,959,1014	79	80	80		692	5	0.6	6	dbSNP_119	80	2199,6399	362.9+/-332.9	263,1673,2363	yes	missense	CNPY3	NM_006586.3	142	493,2632,3377	TT,TG,GG		25.5757,32.2061,27.8222	benign	231/279	42906384	3618,9386	2203	4299	6502	SO:0001583	missense	10695			U80744	CCDS4875.1	6p21.1	2013-09-19	2013-07-23	2007-10-22	ENSG00000137161	ENSG00000137161		"Trinucleotide (CAG) repeat containing"	11968	protein-coding gene	gene with protein product		610774	"trinucleotide repeat containing 5", "canopy 3 homolog (zebrafish)"	TNRC5		9225980	Standard	NM_006586		Approved	CAG4A	uc003ota.4	Q9BT09	OTTHUMG00000014708	ENST00000372836.4:c.692G>T	6.37:g.42906384G>T	ENSP00000361926:p.Ser231Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O15412|Q0P6I2|Q8NF54|Q8WTU8|Q9P0F2	Missense_Mutation	SNP	ENST00000372836.4	37	CCDS4875.1	463	0.211996336996337	158	0.32113821138211385	81	0.22375690607734808	13	0.022727272727272728	211	0.2783641160949868	G	16.53	3.149626	0.57151	0.322061	0.255757	ENSG00000137161	ENST00000372836	T	0.24723	1.84	5.02	5.02	0.67125	.	0.433550	0.25747	N	0.028570	T	0.06690	0.0171	N	0.08118	0	0.09310	P	1.0	B	0.32693	0.38	B	0.28011	0.085	T	0.15607	-1.0431	9	0.39692	T	0.17	-13.8584	15.6126	0.76737	0.0:0.0:1.0:0.0	rs9471969;rs52835372;rs58234738;rs9471969	231	Q9BT09	CNPY3_HUMAN	I	231	ENSP00000361926:S231I	ENSP00000361926:S231I	S	+	2	0	CNPY3	43014362	1.000000	0.71417	0.631000	0.29282	0.974000	0.67602	4.641000	0.61375	2.504000	0.84457	0.462000	0.41574	AGC		0.622	CNPY3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040564.1	NM_006586		T	42906384	G	T	42906384	3	4	637	1	0	0	0	0	1	0	0	0	3631	971	34	4	714	4	CNPY3	6	42906384	Missense_Mutation	SNP	G	TCGA-KL-8338-01A-11D-2310-10	10408409	42906384	128208683	24	39314										
GPR146	115330	ucsc.edu	37	chr7	1097895	1097895	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	cagtttgggctctggacgccAcactatctgatcctgctggg	12	12	2	1	rs61910751	byFrequency	TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr7:1097895A>G	ENST00000397095.1	+	2	967	c.744A>G	c.(742-744)ccA>ccG	p.P248P	C7orf50_ENST00000397098.3_Intron|GPR146_ENST00000297468.3_Silent_p.P248P|C7orf50_ENST00000397100.2_Intron|RP11-449P15.1_ENST00000549241.1_RNA|C7orf50_ENST00000357429.6_Intron|C7orf50_ENST00000488073.1_Intron			Q96CH1	GP146_HUMAN	G protein-coupled receptor 146	248						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			autonomic_ganglia(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(1)|ovary(1)|skin(1)	8		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.74e-15)		TCTGGACGCCACACTATCTGA	0.647													G|||	345	0.0688898	0.0204	0.0821	5008	,	,		17834	0.0		0.1262	False		,,,				2504	0.137															0									,,,	206,4198	800.2+/-415.6	2,202,1998	59	48	52		,,,744	-10.2	0	7	dbSNP_129	52	1354,7244	751.8+/-407.4	106,1142,3051	no	intron,intron,intron,coding-synonymous	C7orf50,GPR146	NM_001134395.1,NM_001134396.1,NM_032350.5,NM_138445.2	,,,	108,1344,5049	GG,GA,AA		15.7478,4.6776,11.9982	,,,	,,,248/334	1097895	1560,11442	2202	4299	6501	SO:0001819	synonymous_variant	115330			BC014241	CCDS5321.1	7p22.3	2012-08-21			ENSG00000164849	ENSG00000164849		"GPCR / Class A : Orphans"	21718	protein-coding gene	gene with protein product							Standard	NM_138445		Approved	PGR8	uc003sjy.1	Q96CH1	OTTHUMG00000023934	ENST00000397095.1:c.744A>G	7.37:g.1097895A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q86SP5	Silent	SNP	ENST00000397095.1	37	CCDS5321.1																																																																																				0.647	GPR146-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206855.1	NM_138445		G	1097895	A	G	1097895	2	3	637	1	0	0	0	0	0	0	0	1	6659	146	6	3		3	GPR146	7	1097895	Silent	SNP	A	TCGA-KL-8338-01A-11D-2310-10		1097895	158040768	25	39315										
SEMA3C	10512	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	80458056	80458056	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	ttcagaggtcttggtttctcGaagttctgaaagagtgaaca	11	6	4	4			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr7:80458056G>A	ENST00000265361.3	-	3	670	c.109C>T	c.(109-111)Cga>Tga	p.R37*	SEMA3C_ENST00000419255.2_Nonsense_Mutation_p.R37*|SEMA3C_ENST00000536800.1_Intron|SEMA3C_ENST00000544525.1_Nonsense_Mutation_p.R55*	NM_006379.3	NP_006370.1	Q99985	SEM3C_HUMAN	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3C	37	Sema. {ECO:0000255|PROSITE- ProRule:PRU00352}.				axon guidance (GO:0007411)|blood vessel remodeling (GO:0001974)|cardiac right ventricle morphogenesis (GO:0003215)|dichotomous subdivision of terminal units involved in salivary gland branching (GO:0060666)|immune response (GO:0006955)|limb bud formation (GO:0060174)|neural crest cell migration (GO:0001755)|neural tube development (GO:0021915)|outflow tract morphogenesis (GO:0003151)|post-embryonic development (GO:0009791)|pulmonary myocardium development (GO:0003350)|response to drug (GO:0042493)|somitogenesis (GO:0001756)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	receptor activity (GO:0004872)	p.R37*(1)		NS(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(17)|ovary(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	34						TTGGTTTCTCGAAGTTCTGAA	0.348																																																1	Substitution - Nonsense(1)	skin(1)											93	91	92					7																	80458056		2203	4300	6503	SO:0001587	stop_gained	10512			AB000220	CCDS5596.1	7q21-q31	2013-01-11			ENSG00000075223	ENSG00000075223		"Semaphorins", "Immunoglobulin superfamily / I-set domain containing"	10725	protein-coding gene	gene with protein product		602645		SEMAE		7748561, 9168980	Standard	NM_006379		Approved	SemE	uc003uhj.3	Q99985	OTTHUMG00000023447	ENST00000265361.3:c.109C>T	7.37:g.80458056G>A	ENSP00000265361:p.Arg37*	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRL8	Nonsense_Mutation	SNP	ENST00000265361.3	37	CCDS5596.1	.	.	.	.	.	.	.	.	.	.	G	40	8.392540	0.98791	.	.	ENSG00000075223	ENST00000265361;ENST00000419255;ENST00000544525	.	.	.	5.77	4.89	0.63831	.	0.171329	0.52532	D	0.000078	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.20519	T	0.43	.	14.7854	0.69800	0.069:0.0:0.931:0.0	.	.	.	.	X	37;37;55	.	ENSP00000265361:R37X	R	-	1	2	SEMA3C	80295992	1.000000	0.71417	1.000000	0.80357	0.882000	0.50991	4.197000	0.58413	1.447000	0.47661	-0.142000	0.14014	CGA		0.348	SEMA3C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253279.1	NM_006379		A	80458056	G	A	80458056	4	1	637	1	0	0	0	0	0	1	0	0	14039	1066	37	1	2210	1	SEMA3C	7	80458056	Nonsense_Mutation	SNP	G	TCGA-KL-8338-01A-11D-2310-10	79360161	80458056	78680607	26	39316										
ZNF789	285989	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr7	99084964	99084964	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	tgtggagaatgtgggaaaacGtttagttttaagaggaatct	13	2	1	2	rs148718204	byFrequency	TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr7:99084964G>A	ENST00000331410.5	+	5	1401	c.1131G>A	c.(1129-1131)acG>acA	p.T377T	ZNF789_ENST00000494186.1_Intron|ZNF789_ENST00000493485.1_Intron	NM_213603.2	NP_998768.2	Q5FWF6	ZN789_HUMAN	zinc finger protein 789	377					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(2)|kidney(2)|large_intestine(4)|lung(2)|ovary(1)	11	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)					GTGGGAAAACGTTTAGTTTTA	0.403																																																0								G		7,4399	12.9+/-30.5	0,7,2196	138	136	137		1131	-5.8	0.2	7	dbSNP_134	137	0,8600		0,0,4300	no	coding-synonymous	ZNF789	NM_213603.2		0,7,6496	AA,AG,GG		0.0,0.1589,0.0538		377/426	99084964	7,12999	2203	4300	6503	SO:0001819	synonymous_variant	285989			AK093141	CCDS34693.1, CCDS34694.1	7q22.1	2013-01-08			ENSG00000198556	ENSG00000198556		"Zinc fingers, C2H2-type", "-"	27801	protein-coding gene	gene with protein product						12477932	Standard	XM_005250281		Approved		uc003uqq.1	Q5FWF6	OTTHUMG00000154601	ENST00000331410.5:c.1131G>A	7.37:g.99084964G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D282|A6NH61|Q6ZMZ9	Silent	SNP	ENST00000331410.5	37	CCDS34693.1																																																																																				0.403	ZNF789-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336266.1	NM_213603		A	99084964	G	A	99084964	2	1	637	1	0	0	0	0	0	0	0	1	18172	1132	40	1		1	ZNF789	7	99084964	Silent	SNP	G	TCGA-KL-8338-01A-11D-2310-10	18626908	99084964	60053699	27	39317										
CSMD3	114788	bcgsc.ca	37	chr8	113516067	113516067	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	actaacagatccatcactccGaaaagccaaatgcattgtat	5	11	1	1	rs368685063		TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr8:113516067G>A	ENST00000297405.5	-	30	5279	c.5035C>T	c.(5035-5037)Cgg>Tgg	p.R1679W	CSMD3_ENST00000455883.2_Missense_Mutation_p.R1575W|CSMD3_ENST00000343508.3_Missense_Mutation_p.R1639W|CSMD3_ENST00000352409.3_Missense_Mutation_p.R1679W	NM_198123.1	NP_937756.1	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3	1679	CUB 9. {ECO:0000255|PROSITE- ProRule:PRU00059}.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(7)|central_nervous_system(6)|endometrium(44)|haematopoietic_and_lymphoid_tissue(8)|kidney(36)|large_intestine(72)|liver(5)|lung(389)|ovary(24)|prostate(6)|skin(23)|upper_aerodigestive_tract(19)|urinary_tract(7)	646						CCATCACTCCGAAAAGCCAAA	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)																																						0								G	TRP/ARG,TRP/ARG,TRP/ARG	1,4405	2.1+/-5.4	0,1,2202	160	144	149		4723,5035,4915	5.1	1	8		149	0,8600		0,0,4300	no	missense,missense,missense	CSMD3	NM_052900.2,NM_198123.1,NM_198124.1	101,101,101	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	probably-damaging,probably-damaging,probably-damaging	1575/3539,1679/3708,1639/3668	113516067	1,13005	2203	4300	6503	SO:0001583	missense	114788			AY210419	CCDS6315.1, CCDS6316.2, CCDS6317.1	8q23.3	2007-01-06			ENSG00000164796	ENSG00000164796			19291	protein-coding gene	gene with protein product		608399					Standard	NM_052900		Approved		uc003ynu.3	Q7Z407	OTTHUMG00000157027	ENST00000297405.5:c.5035C>T	8.37:g.113516067G>A	ENSP00000297405:p.Arg1679Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q96PZ3	Missense_Mutation	SNP	ENST00000297405.5	37	CCDS6315.1	.	.	.	.	.	.	.	.	.	.	G	25.9	4.687673	0.88639	2.27E-4	0.0	ENSG00000164796	ENST00000343508;ENST00000297405;ENST00000339701;ENST00000455883;ENST00000352409	T;T;T;T;T	0.21191	2.02;2.02;2.02;2.02;2.02	5.08	5.08	0.68730	CUB (5);	0.000000	0.64402	D	0.000002	T	0.54854	0.1884	M	0.89095	3.005	0.50813	D	0.999892	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.99;0.994;0.998	T	0.61530	-0.7044	10	0.52906	T	0.07	.	18.6626	0.91477	0.0:0.0:1.0:0.0	.	1575;1679;1639	Q7Z407-3;Q7Z407;Q7Z407-2	.;CSMD3_HUMAN;.	W	1639;1679;1019;1575;1679	ENSP00000345799:R1639W;ENSP00000297405:R1679W;ENSP00000341558:R1019W;ENSP00000412263:R1575W;ENSP00000343124:R1679W	ENSP00000297405:R1679W	R	-	1	2	CSMD3	113585243	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.538000	0.98072	2.629000	0.89072	0.650000	0.86243	CGG		0.343	CSMD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347141.1	NM_052900		A	113516067	G	A	113516067	3	1	637	1	0	0	0	0	1	0	0	0	3948	1057	37	1	6256	1	CSMD3	8	113516067	Missense_Mutation	SNP	G	TCGA-KL-8338-01A-11D-2310-10		113516067	32847955	28	39318										
OLFML2A	169611	broad.mit.edu	37	chr9	127572090	127572090	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	atcgccctcgcctgcaggccGctggagtaacatgtacaagc	11	14	0	0	rs201784600		TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr9:127572090G>A	ENST00000373580.3	+	8	1358	c.1358G>A	c.(1357-1359)cGc>cAc	p.R453H	OLFML2A_ENST00000288815.5_Missense_Mutation_p.R239H	NM_182487.2	NP_872293.2	Q68BL7	OLM2A_HUMAN	olfactomedin-like 2A	453	Olfactomedin-like. {ECO:0000255|PROSITE- ProRule:PRU00446}.				extracellular matrix organization (GO:0030198)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)	extracellular matrix binding (GO:0050840)			endometrium(5)|kidney(1)|large_intestine(8)|lung(8)|ovary(2)|upper_aerodigestive_tract(1)	25						CCTGCAGGCCGCTGGAGTAAC	0.617													G|||	1	0.000199681	0.0	0.0	5008	,	,		17402	0.0		0.001	False		,,,				2504	0.0															0								G	HIS/ARG	0,4406		0,0,2203	93	85	88		1358	6.2	1	9		88	1,8599	1.2+/-3.3	0,1,4299	no	missense	OLFML2A	NM_182487.2	29	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	453/653	127572090	1,13005	2203	4300	6503	SO:0001583	missense	169611			AK092255	CCDS6857.2, CCDS65129.1	9q34.11	2008-02-05			ENSG00000185585	ENSG00000185585			27270	protein-coding gene	gene with protein product		615899				12477932	Standard	NM_001282715		Approved	FLJ00237	uc004bov.3	Q68BL7	OTTHUMG00000020663	ENST00000373580.3:c.1358G>A	9.37:g.127572090G>A	ENSP00000362682:p.Arg453His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JTM5|Q5JTM6|Q6UXW1|Q7Z5V3	Missense_Mutation	SNP	ENST00000373580.3	37	CCDS6857.2	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	G	35	5.504096	0.96371	0.0	1.16E-4	ENSG00000185585	ENST00000342100;ENST00000373580;ENST00000288815	D;D	0.89617	-2.54;-2.54	6.17	6.17	0.99709	Olfactomedin-like (3);	0.000000	0.85682	D	0.000000	D	0.95548	0.8553	M	0.86740	2.835	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.975;0.999	D	0.95312	0.8413	10	0.87932	D	0	.	19.8676	0.96824	0.0:0.0:1.0:0.0	.	239;453	Q68BL7-3;Q68BL7	.;OLM2A_HUMAN	H	145;453;239	ENSP00000362682:R453H;ENSP00000288815:R239H	ENSP00000288815:R239H	R	+	2	0	OLFML2A	126611911	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.869000	0.99810	2.941000	0.99782	0.655000	0.94253	CGC		0.617	OLFML2A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054046.2	NM_182487		A	127572090	G	A	127572090	3	1	637	1	0	0	0	0	1	0	0	0	10864	1087	38	1	1388	1	OLFML2A	9	127572090	Missense_Mutation	SNP	G	TCGA-KL-8338-01A-11D-2310-10		127572090	13641341	29	39319										
GPSM1	26086	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr9	139231484	139231484	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	gcaggaccccgggcacctgcCgcccgatgtccgagagaccc	13	18	0	1			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr9:139231484C>T	ENST00000440944.1	+	4	753	c.533C>T	c.(532-534)cCg>cTg	p.P178L	GPSM1_ENST00000392945.3_Missense_Mutation_p.P178L	NM_001145638.1	NP_001139110	Q86YR5	GPSM1_HUMAN	G-protein signaling modulator 1	178	Mediates association with membranes. {ECO:0000250}.				cell differentiation (GO:0030154)|nervous system development (GO:0007399)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	GDP-dissociation inhibitor activity (GO:0005092)			biliary_tract(1)|endometrium(1)|kidney(2)|lung(4)|upper_aerodigestive_tract(1)	9		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.39e-06)|Epithelial(140;3.24e-06)		GGGCACCTGCCGCCCGATGTC	0.662																																																0													39	36	37					9																	139231484		2115	4176	6291	SO:0001583	missense	26086			AI272212	CCDS6996.2, CCDS48055.1, CCDS48056.1	9q34.3	2013-01-10	2010-06-24		ENSG00000160360	ENSG00000160360		"Tetratricopeptide (TTC) repeat domain containing"	17858	protein-coding gene	gene with protein product	"AGS3 homolog (C. elegans)"	609491	"G-protein signalling modulator 1 (AGS3-like, C. elegans)"			11278352, 10969064	Standard	NM_001145639		Approved	AGS3, DKFZP727I051	uc004chd.2	Q86YR5	OTTHUMG00000020930	ENST00000440944.1:c.533C>T	9.37:g.139231484C>T	ENSP00000392828:p.Pro178Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1X4|B1B0W3|Q86SR5|Q969T1|Q9UFS8	Missense_Mutation	SNP	ENST00000440944.1	37	CCDS48055.1	.	.	.	.	.	.	.	.	.	.	C	17.78	3.473531	0.63737	.	.	ENSG00000160360	ENST00000392945;ENST00000440944;ENST00000354753	D;D;D	0.90444	-2.65;-2.65;-2.67	3.79	3.79	0.43588	Tetratricopeptide-like helical (1);	0.068976	0.64402	U	0.000013	D	0.93910	0.8051	M	0.74647	2.275	0.80722	D	1	D;D	0.89917	1.0;0.999	P;P	0.61328	0.887;0.85	D	0.94277	0.7516	10	0.52906	T	0.07	-12.041	15.5081	0.75757	0.0:1.0:0.0:0.0	.	178;178	Q86YR5;Q86YR5-3	GPSM1_HUMAN;.	L	178;178;155	ENSP00000376674:P178L;ENSP00000392828:P178L;ENSP00000346797:P155L	ENSP00000346797:P155L	P	+	2	0	GPSM1	138351305	0.998000	0.40836	0.940000	0.37924	0.889000	0.51656	3.792000	0.55476	2.050000	0.60909	0.563000	0.77884	CCG		0.662	GPSM1-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_015597		T	139231484	C	T	139231484	3	4	637	1	0	0	0	0	1	0	0	0	6741	652	23	1	547	1	GPSM1	9	139231484	Missense_Mutation	SNP	C	TCGA-KL-8338-01A-11D-2310-10	11659394	139231484	1981947	30	39320										
TAF1D	79101	broad.mit.edu	37	chr11	93471453	93471453	+	Frame_Shift_Del	DEL	T	T	-													0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	gctggtacctcctctttttcTtttttttatatctctttttc							TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr11:93471453delT	ENST00000448108.2	-	3	931	c.281delA	c.(280-282)aagfs	p.K96fs	TAF1D_ENST00000546088.1_5'Flank	NM_024116.3	NP_077021.1	Q9H5J8	TAF1D_HUMAN	TATA box binding protein (TBP)-associated factor, RNA polymerase I, D, 41kDa	96					gene expression (GO:0010467)|regulation of transcription, DNA-templated (GO:0006355)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription from RNA polymerase I promoter (GO:0006360)|transcription initiation from RNA polymerase I promoter (GO:0006361)	microtubule organizing center (GO:0005815)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)			large_intestine(1)|lung(3)|prostate(1)|skin(2)	7						CCTCTTTTTCTTTTTTTTATA	0.348																																																0													109	116	114					11																	93471453		2201	4298	6499	SO:0001589	frameshift_variant	79101				CCDS8293.1	11q21	2012-05-30	2008-09-30	2008-09-30	ENSG00000166012	ENSG00000166012			28759	protein-coding gene	gene with protein product		612823	"Josephin domain containing 3"	JOSD3		15520167, 17318177	Standard	NM_024116		Approved	MGC5306, TAF(I)41	uc001pec.3	Q9H5J8	OTTHUMG00000167451	ENST00000448108.2:c.281delA	11.37:g.93471453delT	ENSP00000410409:p.Lys96fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6I9Y6	Frame_Shift_Del	DEL	ENST00000448108.2	37	CCDS8293.1																																																																																				0.348	TAF1D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394662.2	NM_024116		-	93471453	T	-	93471453	7	5	637	1	0	1	0	1	0	0	0	0	15534	1609	56	0	571	0	TAF1D	11	93471453	Frame_Shift_Del	DEL	T	TCGA-KL-8338-01A-11D-2310-10		93471453	41535063	31	39321										
PEBP1	5037	ucsc.edu	37	chr12	118574067	118574067	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	cttgagcctgcaagaagtggAcgagcagccgcagcacccgc	13	14	0	2			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr12:118574067A>G	ENST00000261313.2	+	1	405	c.53A>G	c.(52-54)gAc>gGc	p.D18G		NM_002567.2	NP_002558.1	P30086	PEBP1_HUMAN	phosphatidylethanolamine binding protein 1	18						cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	ATP binding (GO:0005524)|enzyme binding (GO:0019899)|phosphatidylethanolamine binding (GO:0008429)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)|serine-type endopeptidase inhibitor activity (GO:0004867)			ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CAAGAAGTGGACGAGCAGCCG	0.711																																					NSCLC(44;94 1357 12187 49467)											0													12	13	13					12																	118574067		1894	3543	5437	SO:0001583	missense	5037			X85033	CCDS9187.1	12q24	2009-06-16	2006-02-16	2006-02-16	ENSG00000089220	ENSG00000089220			8630	protein-coding gene	gene with protein product	"Raf kinase inhibitory protein", "hippocampal cholinergic neurostimulating peptide"	604591	"prostatic binding protein"	PBP		15782137	Standard	NM_002567		Approved	RKIP, HCNP, PEBP	uc001twu.1	P30086	OTTHUMG00000168860	ENST00000261313.2:c.53A>G	12.37:g.118574067A>G	ENSP00000261313:p.Asp18Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4S1	Missense_Mutation	SNP	ENST00000261313.2	37	CCDS9187.1	.	.	.	.	.	.	.	.	.	.	A	30	5.049727	0.93740	.	.	ENSG00000089220	ENST00000261313;ENST00000418769	T	0.33865	1.39	4.75	4.75	0.60458	.	0.301525	0.39615	N	0.001304	T	0.59101	0.2169	M	0.85373	2.75	0.42300	D	0.992176	D;P	0.67145	0.996;0.931	P;P	0.58820	0.846;0.585	T	0.66763	-0.5841	10	0.52906	T	0.07	.	14.4148	0.67142	1.0:0.0:0.0:0.0	.	18;18	B4DRT4;P30086	.;PEBP1_HUMAN	G	18	ENSP00000261313:D18G	ENSP00000261313:D18G	D	+	2	0	PEBP1	117058450	1.000000	0.71417	0.953000	0.39169	0.740000	0.42216	8.273000	0.89887	2.009000	0.58944	0.402000	0.26972	GAC		0.711	PEBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401405.1	NM_002567		G	118574067	A	G	118574067	3	3	637	1	0	0	0	0	1	0	0	0	11720	275	10	3	55	3	PEBP1	12	118574067	Missense_Mutation	SNP	A	TCGA-KL-8338-01A-11D-2310-10		118574067	15277828	32	39322										
CASC5	57082	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	40944268	40944268	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	attcacctttgtttatgacaCgatacaactcaccatcacct	3	13	3	1			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr15:40944268C>T	ENST00000346991.5	+	22	6848	c.6458C>T	c.(6457-6459)aCg>aTg	p.T2153M	CASC5_ENST00000399668.2_Missense_Mutation_p.T2127M			Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5	2153	Necessary for kinetochore localization and for interaction with NSL1 and DSN1.				acrosome assembly (GO:0001675)|attachment of spindle microtubules to kinetochore (GO:0008608)|CENP-A containing nucleosome assembly (GO:0034080)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of phosphatase activity (GO:0010923)|nucleosome assembly (GO:0006334)|protein localization to kinetochore (GO:0034501)|spindle assembly checkpoint (GO:0071173)	acrosomal vesicle (GO:0001669)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|kinetochore (GO:0000776)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				NS(1)|breast(7)|central_nervous_system(1)|endometrium(6)|kidney(4)|large_intestine(13)|lung(16)|skin(3)|stomach(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	57		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		GTTTATGACACGATACAACTC	0.378																																																0													114	102	106					15																	40944268		1897	4129	6026	SO:0001583	missense	57082			AF173994	CCDS42023.1, CCDS42024.1	15q14	2013-07-03			ENSG00000137812	ENSG00000137812		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	24054	protein-coding gene	gene with protein product	"cancer/testis antigen 29", "kinetochore null 1 homolog (C. elegans)", "blinkin, bub-linking kinetochore protein", "protein phosphatase 1, regulatory subunit 55"	609173				10980622, 10780384, 18045986	Standard	NM_170589		Approved	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7	uc010bbt.1	Q8NG31	OTTHUMG00000166532	ENST00000346991.5:c.6458C>T	15.37:g.40944268C>T	ENSP00000335463:p.Thr2153Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHE1|Q8WXA6|Q9HCK2|Q9NR92	Missense_Mutation	SNP	ENST00000346991.5	37	CCDS42023.1	.	.	.	.	.	.	.	.	.	.	C	15.54	2.863076	0.51482	.	.	ENSG00000137812	ENST00000346991;ENST00000399668	T;T	0.06933	3.24;3.24	5.4	5.4	0.78164	.	0.206901	0.41500	D	0.000876	T	0.19208	0.0461	L	0.36672	1.1	0.30216	N	0.797228	D;D	0.89917	1.0;0.999	D;P	0.63703	0.917;0.882	T	0.00630	-1.1636	10	0.87932	D	0	.	16.0887	0.81076	0.0:1.0:0.0:0.0	.	2127;2153	Q8NG31-2;Q8NG31	.;CASC5_HUMAN	M	2153;2127	ENSP00000335463:T2153M;ENSP00000382576:T2127M	ENSP00000335463:T2153M	T	+	2	0	CASC5	38731560	0.996000	0.38824	0.728000	0.30774	0.203000	0.24098	4.362000	0.59467	2.523000	0.85059	0.655000	0.94253	ACG		0.378	CASC5-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000390224.2	NM_144508		T	40944268	C	T	40944268	3	4	637	1	0	0	0	0	1	0	0	0	2665	536	19	1	6540	1	CASC5	15	40944268	Missense_Mutation	SNP	C	TCGA-KL-8338-01A-11D-2310-10		40944268	61587124	33	39323										
SPATA5L1	79029	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr15	45707899	45707899	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	gtgatgttcaagaacgagttCtttctgttctcctgaatgaa	9	7	4	4			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr15:45707899C>A	ENST00000305560.6	+	5	1858	c.1759C>A	c.(1759-1761)Ctt>Att	p.L587I	SPATA5L1_ENST00000559860.1_Missense_Mutation_p.L587I	NM_024063.2	NP_076968.2	Q9BVQ7	SPA5L_HUMAN	spermatogenesis associated 5-like 1	587						cytoplasm (GO:0005737)	ATP binding (GO:0005524)			kidney(2)|large_intestine(3)|lung(1)|ovary(3)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	14		Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;7.31e-17)|GBM - Glioblastoma multiforme(94;6.28e-07)		AGAACGAGTTCTTTCTGTTCT	0.398																																																0													69	65	66					15																	45707899		2198	4298	6496	SO:0001583	missense	79029			AK023232	CCDS10123.1	15q15.1	2010-04-21			ENSG00000171763	ENSG00000171763		"ATPases / AAA-type"	28762	protein-coding gene	gene with protein product						12477932	Standard	NM_024063		Approved	MGC5347, FLJ12286	uc001zve.3	Q9BVQ7	OTTHUMG00000131425	ENST00000305560.6:c.1759C>A	15.37:g.45707899C>A	ENSP00000305494:p.Leu587Ile	Somatic		WXS	Illumina HiSeq	Phase_I	C9JHR5|Q9H8W7|Q9HA41	Missense_Mutation	SNP	ENST00000305560.6	37	CCDS10123.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	23.0|23.0	4.363412|4.363412	0.82353|0.82353	.|.	.|.	ENSG00000171763|ENSG00000171763	ENST00000531624|ENST00000305560	.|D	.|0.93076	.|-3.16	5.54|5.54	4.61|4.61	0.57282|0.57282	.|ATPase, AAA-type, core (1);ATPase, AAA+ type, core (1);	.|0.000000	.|0.64402	.|D	.|0.000001	D|D	0.93815|0.93815	0.8022|0.8022	L|L	0.42529|0.42529	1.33|1.33	0.41337|0.41337	D|D	0.987271|0.987271	.|D	.|0.54397	.|0.966	.|P	.|0.61397	.|0.888	D|D	0.92006|0.92006	0.5614|0.5614	5|10	.|0.21014	.|T	.|0.42	-18.5177|-18.5177	14.7514|14.7514	0.69528|0.69528	0.1461:0.8539:0.0:0.0|0.1461:0.8539:0.0:0.0	.|.	.|587	.|Q9BVQ7	.|SPA5L_HUMAN	L|I	91|587	.|ENSP00000305494:L587I	.|ENSP00000305494:L587I	F|L	+|+	3|1	2|0	SPATA5L1|SPATA5L1	43495191|43495191	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.992000|0.992000	0.81027|0.81027	6.522000|6.522000	0.73783|0.73783	1.450000|1.450000	0.47717|0.47717	-0.181000|-0.181000	0.13052|0.13052	TTC|CTT		0.398	SPATA5L1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000254218.1	NM_024063		A	45707899	C	A	45707899	3	1	637	1	0	0	0	0	1	0	0	0	15024	913	32	4	1777	4	SPATA5L1	15	45707899	Missense_Mutation	SNP	C	TCGA-KL-8338-01A-11D-2310-10	4763631	45707899	56823493	34	39324										
ZNF609	23060	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	64966530	64966530	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	acagaaactgcccctcccccGtcctaattgactgtccccac	5	19	0	2	rs200890644		TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr15:64966530G>A	ENST00000326648.3	+	4	1605	c.1477G>A	c.(1477-1479)Gtc>Atc	p.V493I	ZNF609_ENST00000559364.1_3'UTR|RNU6-549P_ENST00000384433.1_RNA	NM_015042.1	NP_055857.1	O15014	ZN609_HUMAN	zinc finger protein 609	493						nucleus (GO:0005634)	metal ion binding (GO:0046872)			breast(3)|central_nervous_system(2)|endometrium(5)|kidney(1)|large_intestine(9)|lung(11)|ovary(1)|pancreas(1)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	39						CCCCTCCCCCGTCCTAATTGA	0.522													G|||	1	0.000199681	0.0	0.0	5008	,	,		18089	0.0		0.0	False		,,,				2504	0.001															0								G	ILE/VAL	0,4406		0,0,2203	85	70	75		1477	5.6	1	15		75	6,8592	5.0+/-18.6	0,6,4293	yes	missense	ZNF609	NM_015042.1	29	0,6,6496	AA,AG,GG		0.0698,0.0,0.0461	benign	493/1412	64966530	6,12998	2203	4299	6502	SO:0001583	missense	23060			BC014251	CCDS32270.1	15q22.1	2008-05-02				ENSG00000180357		"Zinc fingers, C2H2-type"	29003	protein-coding gene	gene with protein product						9205841	Standard	NM_015042		Approved	KIAA0295	uc002ann.3	O15014		ENST00000326648.3:c.1477G>A	15.37:g.64966530G>A	ENSP00000316527:p.Val493Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q0D2I2	Missense_Mutation	SNP	ENST00000326648.3	37	CCDS32270.1	.	.	.	.	.	.	.	.	.	.	G	11.90	1.775434	0.31411	0.0	6.98E-4	ENSG00000180357	ENST00000326648	T	0.53857	0.6	5.61	5.61	0.85477	.	0.108019	0.64402	D	0.000006	T	0.38558	0.1045	L	0.33093	0.98	0.46849	D	0.999221	B	0.10296	0.003	B	0.13407	0.009	T	0.25676	-1.0125	10	0.33940	T	0.23	-11.9829	7.3316	0.26586	0.2008:0.0:0.7992:0.0	.	493	O15014	ZN609_HUMAN	I	493	ENSP00000316527:V493I	ENSP00000316527:V493I	V	+	1	0	ZNF609	62753583	1.000000	0.71417	0.987000	0.45799	0.989000	0.77384	4.442000	0.59988	2.638000	0.89438	0.650000	0.86243	GTC		0.522	ZNF609-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418130.1	XM_042833		A	64966530	G	A	64966530	3	1	637	1	0	0	0	0	1	0	0	0	18047	1145	40	1	1491	1	ZNF609	15	64966530	Missense_Mutation	SNP	G	TCGA-KL-8338-01A-11D-2310-10	19258631	64966530	37564862	35	39325										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	7577114	7577114	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	ggtctctcccaggacaggcaCaaacacgcacctcaaagctg	9	15	2	0			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr17:7577114C>T	ENST00000269305.4	-	8	1013	c.824G>A	c.(823-825)tGt>tAt	p.C275Y	TP53_ENST00000420246.2_Missense_Mutation_p.C275Y|TP53_ENST00000413465.2_Intron|TP53_ENST00000359597.4_Missense_Mutation_p.C275Y|TP53_ENST00000445888.2_Missense_Mutation_p.C275Y|TP53_ENST00000574684.1_5'Flank|TP53_ENST00000455263.2_Missense_Mutation_p.C275Y	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	275	Interaction with AXIN1. {ECO:0000250}.|Interaction with DNA.|Interaction with E4F1.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with ZNF385A.		C -> F (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in LFS; germline mutation and in sporadic cancers; somatic mutation). {ECO:0000269|PubMed:7887414}.		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.C275Y(53)|p.C275F(37)|p.0?(8)|p.C275fs*70(3)|p.?(2)|p.C275S(2)|p.C275fs*20(1)|p.L265_K305del41(1)|p.R273_C275delRVC(1)|p.F270_D281del12(1)|p.V274_P278del(1)|p.A276fs*29(1)|p.S269fs*21(1)|p.C275fs*67(1)|p.V272_K292del21(1)|p.C275_R283delCACPGRDRR(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	AGGACAGGCACAAACACGCAC	0.552		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	115	Substitution - Missense(92)|Whole gene deletion(8)|Deletion - Frameshift(7)|Deletion - In frame(6)|Unknown(2)	lung(14)|large_intestine(13)|breast(13)|upper_aerodigestive_tract(12)|central_nervous_system(10)|haematopoietic_and_lymphoid_tissue(10)|ovary(7)|urinary_tract(6)|stomach(5)|oesophagus(5)|bone(5)|liver(5)|skin(3)|pancreas(2)|NS(2)|prostate(2)|biliary_tract(1)	GRCh37	CM076568|CM951234	TP53	M							71	61	64					17																	7577114		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.824G>A	17.37:g.7577114C>T	ENSP00000269305:p.Cys275Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	C	25.1	4.605675	0.87157	.	.	ENSG00000141510	ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000509690	D;D;D;D;D;D	0.99874	-7.39;-7.39;-7.39;-7.39;-7.39;-7.39	4.92	4.92	0.64577	p53, DNA-binding domain (1);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.000000	0.85682	D	0.000000	D	0.99883	0.9944	M	0.92738	3.34	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	0.997;1.0;0.997;0.997	D	0.96317	0.9233	10	0.87932	D	0	-17.2181	15.662	0.77193	0.0:1.0:0.0:0.0	.	275;275;275;275	P04637-2;P04637-3;P04637;Q1MSW8	.;.;P53_HUMAN;.	Y	275;275;275;275;275;264;143	ENSP00000352610:C275Y;ENSP00000269305:C275Y;ENSP00000398846:C275Y;ENSP00000391127:C275Y;ENSP00000391478:C275Y;ENSP00000425104:C143Y	ENSP00000269305:C275Y	C	-	2	0	TP53	7517839	1.000000	0.71417	0.999000	0.59377	0.904000	0.53231	7.587000	0.82613	2.556000	0.86216	0.462000	0.41574	TGT		0.552	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		T	7577114	C	T	7577114	3	4	637	1	0	0	0	0	1	0	0	0	16393	478	17	2	462	2	TP53	17	7577114	Missense_Mutation	SNP	C	TCGA-KL-8338-01A-11D-2310-10		7577114	73618096	36	39326										
ZNF624	57547	bcgsc.ca	37	chr17	16527795	16527795	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	atagcctttgttcgtgtagcCttcttggttgcaggtttggg	13	7	1	0	rs8065506	byFrequency	TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr17:16527795C>A	ENST00000311331.7	-	6	496	c.405G>T	c.(403-405)aaG>aaT	p.K135N		NM_020787.3	NP_065838.2	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	135			K -> N (in dbSNP:rs8065506). {ECO:0000269|PubMed:10718198, ECO:0000269|PubMed:14702039}.		regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(4)|endometrium(1)|kidney(1)|large_intestine(8)|lung(9)|ovary(1)|prostate(1)|skin(1)	26				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		TTCGTGTAGCCTTCTTGGTTG	0.413													A|||	2443	0.487819	0.6906	0.3847	5008	,	,		17540	0.5347		0.2674	False		,,,				2504	0.4652				NSCLC(186;1023 2134 13330 38202 39800)											0			GRCh37	CM067489	ZNF624	M	rs8065506	A	ASN/LYS	2841,1565	491.1+/-362.0	916,1009,278	93	88	90		405	2.9	0.2	17	dbSNP_116	90	2334,6266	704.8+/-405.4	301,1732,2267	yes	missense	ZNF624	NM_020787.3	94	1217,2741,2545	AA,AC,CC		27.1395,35.5197,39.7893	benign	135/866	16527795	5175,7831	2203	4300	6503	SO:0001583	missense	57547			AB037770	CCDS11180.1	17p11.2	2013-01-08			ENSG00000197566	ENSG00000197566		"Zinc fingers, C2H2-type", "-"	29254	protein-coding gene	gene with protein product						10718198	Standard	NM_020787		Approved	KIAA1349	uc010cpi.2	Q9P2J8	OTTHUMG00000058996	ENST00000311331.7:c.405G>T	17.37:g.16527795C>A	ENSP00000310472:p.Lys135Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q3SY62|Q3SY63|Q6ZN27	Missense_Mutation	SNP	ENST00000311331.7	37	CCDS11180.1	939	0.42994505494505497	319	0.6483739837398373	128	0.35359116022099446	301	0.5262237762237763	191	0.2519788918205805	A	0.062	-1.222243	0.01530	0.644803	0.271395	ENSG00000197566	ENST00000311331	T	0.05382	3.45	2.92	2.92	0.33932	.	.	.	.	.	T	0.00012	0.0000	N	0.17474	0.49	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.10314	-1.0635	8	0.16896	T	0.51	.	7.3813	0.26858	0.5465:0.4535:0.0:0.0	rs8065506;rs52795751;rs61430075;rs8065506	135	Q9P2J8	ZN624_HUMAN	N	135	ENSP00000310472:K135N	ENSP00000310472:K135N	K	-	3	2	ZNF624	16468520	0.001000	0.12720	0.193000	0.23327	0.310000	0.27922	0.419000	0.21247	0.537000	0.28751	-0.262000	0.10625	AAG		0.413	ZNF624-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130512.3	XM_047617		A	16527795	C	A	16527795	3	1	637	1	0	0	0	0	1	0	0	0	18060	680	24	4	2196	4	ZNF624	17	16527795	Missense_Mutation	SNP	C	TCGA-KL-8338-01A-11D-2310-10	8950681	16527795	64667415	37	39327										
UBTF	7343	mdanderson.org	37	chr17	42287519	42287519	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	cgcttttggtcttcggctgcCttcttaatccacatcagttt	7	12	3	0	rs2071167	byFrequency	TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr17:42287519C>T	ENST00000302904.4	-	15	2091	c.1599G>A	c.(1597-1599)aaG>aaA	p.K533K	UBTF_ENST00000393606.3_Silent_p.K496K|UBTF_ENST00000529383.1_Silent_p.K533K|UBTF_ENST00000526094.1_Silent_p.K496K|UBTF_ENST00000343638.5_Silent_p.K496K|CTB-175E5.7_ENST00000586560.1_RNA|UBTF_ENST00000527034.1_Silent_p.K496K|UBTF_ENST00000533177.1_Silent_p.K496K|UBTF_ENST00000436088.1_Silent_p.K533K			P17480	UBF1_HUMAN	upstream binding transcription factor, RNA polymerase I	533					chromatin silencing at rDNA (GO:0000183)|gene expression (GO:0010467)|positive regulation of transcription from RNA polymerase I promoter (GO:0045943)|regulation of transcription from RNA polymerase I promoter (GO:0006356)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription from RNA polymerase I promoter (GO:0006360)|transcription initiation from RNA polymerase I promoter (GO:0006361)	nucleolus (GO:0005730)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(2)|endometrium(1)|large_intestine(9)|lung(10)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	29		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.114)		CTTCGGCTGCCTTCTTAATCC	0.512											OREG0024456	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	C|||	2261	0.451478	0.6157	0.3646	5008	,	,		21021	0.6915		0.2416	False		,,,				2504	0.2597															0								C	,,	2335,2071	605.8+/-390.6	617,1101,485	187	195	192		1488,1488,1599	3.3	1	17	dbSNP_96	192	2174,6426	372.0+/-336.5	280,1614,2406	no	coding-synonymous,coding-synonymous,coding-synonymous	UBTF	NM_001076683.1,NM_001076684.2,NM_014233.3	,,	897,2715,2891	TT,TC,CC		25.2791,47.0041,34.6686	,,	496/728,496/728,533/765	42287519	4509,8497	2203	4300	6503	SO:0001819	synonymous_variant	7343			BC042297	CCDS11480.1, CCDS42346.1	17q21.31	2014-03-25			ENSG00000108312	ENSG00000108312			12511	protein-coding gene	gene with protein product		600673				9126496	Standard	NM_001076683		Approved	UBF, NOR-90, UBF1, UBF2	uc010czs.3	P17480	OTTHUMG00000167585	ENST00000302904.4:c.1599G>A	17.37:g.42287519C>T		Somatic	907	WXS	Illumina HiSeq	Phase_I	A8K6R8	Silent	SNP	ENST00000302904.4	37	CCDS11480.1																																																																																				0.512	UBTF-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395205.1	NM_014233		T	42287519	C	T	42287519	2	4	637	1	0	0	0	0	0	0	0	1	16921	680	24	2		2	UBTF	17	42287519	Silent	SNP	C	TCGA-KL-8338-01A-11D-2310-10	25759724	42287519	38907691	38	39328										
CACNA1G	8913	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	48653145	48653145	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	ctctcgggcagcaggtgtgcGggttgggctgctcagcagcc	17	12	2	0			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr17:48653145G>A	ENST00000359106.5	+	8	1382	c.1382G>A	c.(1381-1383)cGg>cAg	p.R461Q	CACNA1G_ENST00000502264.1_Missense_Mutation_p.R461Q|CACNA1G_ENST00000442258.2_Missense_Mutation_p.R461Q|CACNA1G_ENST00000507510.2_Missense_Mutation_p.R461Q|CACNA1G_ENST00000515765.1_Missense_Mutation_p.R461Q|CACNA1G_ENST00000515165.1_Missense_Mutation_p.R461Q|CACNA1G_ENST00000503485.1_Missense_Mutation_p.R461Q|CACNA1G_ENST00000354983.4_Missense_Mutation_p.R461Q|CACNA1G_ENST00000360761.4_Missense_Mutation_p.R461Q|CACNA1G_ENST00000507896.1_Missense_Mutation_p.R461Q|CACNA1G_ENST00000352832.5_Missense_Mutation_p.R461Q|CACNA1G_ENST00000358244.5_Missense_Mutation_p.R461Q|CACNA1G_ENST00000513964.1_Missense_Mutation_p.R461Q|CACNA1G_ENST00000507609.1_Missense_Mutation_p.R461Q|CACNA1G_ENST00000513689.2_Missense_Mutation_p.R461Q|CACNA1G_ENST00000505165.1_Missense_Mutation_p.R461Q|CACNA1G_ENST00000507336.1_Missense_Mutation_p.R461Q|CACNA1G_ENST00000514181.1_Missense_Mutation_p.R461Q|CACNA1G_ENST00000429973.2_Missense_Mutation_p.R461Q|CACNA1G_ENST00000510115.1_Missense_Mutation_p.R461Q|CACNA1G_ENST00000416767.4_Missense_Mutation_p.R461Q|CACNA1G_ENST00000510366.1_Missense_Mutation_p.R461Q|CACNA1G_ENST00000515411.1_Missense_Mutation_p.R461Q|CACNA1G_ENST00000514717.1_Missense_Mutation_p.R461Q|CACNA1G_ENST00000514079.1_Missense_Mutation_p.R461Q|CACNA1G_ENST00000512389.1_Missense_Mutation_p.R461Q	NM_018896.4	NP_061496.2	O43497	CAC1G_HUMAN	calcium channel, voltage-dependent, T type, alpha 1G subunit	461					axon guidance (GO:0007411)|calcium ion import (GO:0070509)|membrane depolarization during action potential (GO:0086010)|positive regulation of calcium ion-dependent exocytosis (GO:0045956)|regulation of atrial cardiac muscle cell membrane depolarization (GO:0060371)|regulation of heart rate (GO:0002027)|regulation of membrane potential (GO:0042391)|response to nickel cation (GO:0010045)|synaptic transmission (GO:0007268)|transport (GO:0006810)	plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	low voltage-gated calcium channel activity (GO:0008332)|scaffold protein binding (GO:0097110)			breast(5)|cervix(1)|endometrium(13)|kidney(5)|lung(23)	47	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Cinnarizine(DB00568)|Ethosuximide(DB00593)|Flunarizine(DB04841)|Methsuximide(DB05246)|Spironolactone(DB00421)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	GCAGGTGTGCGGGTTGGGCTG	0.677																																																0													10	13	12					17																	48653145		1905	4073	5978	SO:0001583	missense	8913			AC004590	CCDS45730.1, CCDS45731.1, CCDS45732.1, CCDS45733.1, CCDS45734.1, CCDS45735.1, CCDS45736.1, CCDS45737.1, CCDS54142.1, CCDS54143.1, CCDS54144.1, CCDS54145.1, CCDS54146.1, CCDS58565.1, CCDS58566.1, CCDS58567.1, CCDS58568.1, CCDS58569.1, CCDS58570.1, CCDS58571.1, CCDS58572.1, CCDS58573.1, CCDS58574.1, CCDS58575.1, CCDS58576.1	17q22	2012-03-07	2007-02-16		ENSG00000006283	ENSG00000006283		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1394	protein-coding gene	gene with protein product		604065				9495342, 16382099	Standard	NM_001256334		Approved	Cav3.1, NBR13	uc002irk.2	O43497	OTTHUMG00000162180	ENST00000359106.5:c.1382G>A	17.37:g.48653145G>A	ENSP00000352011:p.Arg461Gln	Somatic		WXS	Illumina HiSeq	Phase_I	D6RA64|E7EPR0|O43498|O94770|Q19QY8|Q19QY9|Q19QZ0|Q19QZ1|Q19QZ2|Q19QZ3|Q19QZ4|Q19QZ5|Q19QZ6|Q19QZ7|Q19QZ8|Q19QZ9|Q19R00|Q19R01|Q19R02|Q19R03|Q19R04|Q19R05|Q19R06|Q19R07|Q19R08|Q19R09|Q19R10|Q19R11|Q19R12|Q19R13|Q19R15|Q19R16|Q19R17|Q19R18|Q2TAC4|Q9NYU4|Q9NYU5|Q9NYU6|Q9NYU7|Q9NYU8|Q9NYU9|Q9NYV0|Q9NYV1|Q9UHN9|Q9UHP0|Q9ULU6|Q9UNG7|Q9Y5T2|Q9Y5T3	Missense_Mutation	SNP	ENST00000359106.5	37	CCDS45730.1	.	.	.	.	.	.	.	.	.	.	g	15.01	2.705026	0.48412	.	.	ENSG00000006283	ENST00000360761;ENST00000352832;ENST00000416767;ENST00000354983;ENST00000442258;ENST00000502264;ENST00000512389;ENST00000513964;ENST00000514717;ENST00000510366;ENST00000503485;ENST00000507510;ENST00000507336;ENST00000513689;ENST00000507609;ENST00000510115;ENST00000515165;ENST00000514181;ENST00000515765;ENST00000514079;ENST00000358244;ENST00000359106;ENST00000429973;ENST00000515411;ENST00000505165;ENST00000507896	D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D	0.97114	-4.12;-4.12;-4.25;-4.06;-4.12;-4.11;-4.15;-4.18;-4.15;-4.16;-4.17;-4.07;-4.07;-4.12;-4.11;-4.05;-4.15;-4.1;-4.07;-4.15;-4.12;-4.08;-4.14;-4.07;-4.14;-4.14	5.15	4.18	0.49190	.	0.317948	0.29783	N	0.011202	D	0.97433	0.9160	L	0.61036	1.89	0.37399	D	0.912769	D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;P;D;D;D;D;D;D;D;D;B;D	0.76494	0.998;0.983;0.997;0.997;0.992;0.998;0.999;0.985;0.999;0.963;0.992;0.99;0.983;0.985;0.999;0.926;0.998;0.959;0.992;0.996;0.998;0.983;0.992;0.983;0.024;0.999	D;B;P;D;P;P;D;P;D;P;P;P;P;P;D;P;P;B;P;P;D;P;P;P;B;P	0.73380	0.96;0.389;0.895;0.98;0.656;0.895;0.974;0.573;0.974;0.474;0.59;0.69;0.493;0.59;0.974;0.474;0.791;0.305;0.573;0.781;0.945;0.493;0.504;0.474;0.003;0.897	D	0.98025	1.0373	10	0.62326	D	0.03	.	8.3868	0.32505	0.2364:0.0:0.7636:0.0	.	461;461;461;461;461;461;461;461;461;461;461;461;461;461;461;461;461;461;461;461;461;461;461;461;461;461	Q19QZ5;Q19QZ1;Q19QZ4;Q19R07;Q19QY8;Q19R10;Q19QZ6;Q19QZ3;Q19R06;Q19R00;Q19R04;O43497-10;Q19QZ9;Q19QZ7;Q19R08;Q19QZ8;Q19R03;O43497-4;Q19R02;Q19R12;Q19R17;Q19R11;Q2TAC4;O43497;Q19R13;O43497-11	.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;CAC1G_HUMAN;.;.	Q	461	ENSP00000353990:R461Q;ENSP00000339302:R461Q;ENSP00000392390:R461Q;ENSP00000347078:R461Q;ENSP00000409759:R461Q;ENSP00000425522:R461Q;ENSP00000426261:R461Q;ENSP00000425451:R461Q;ENSP00000422407:R461Q;ENSP00000426814:R461Q;ENSP00000427238:R461Q;ENSP00000423112:R461Q;ENSP00000420918:R461Q;ENSP00000426172:R461Q;ENSP00000423045:R461Q;ENSP00000427173:R461Q;ENSP00000426098:R461Q;ENSP00000425698:R461Q;ENSP00000426232:R461Q;ENSP00000423317:R461Q;ENSP00000350979:R461Q;ENSP00000352011:R461Q;ENSP00000414388:R461Q;ENSP00000423155:R461Q;ENSP00000422268:R461Q;ENSP00000421518:R461Q	ENSP00000339302:R461Q	R	+	2	0	CACNA1G	46008144	1.000000	0.71417	0.995000	0.50966	0.130000	0.20726	2.164000	0.42387	1.163000	0.42636	0.655000	0.94253	CGG		0.677	CACNA1G-013	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000367895.1	NM_018896		A	48653145	G	A	48653145	3	1	637	1	0	0	0	0	1	0	0	0	2546	1116	39	1	1412	1	CACNA1G	17	48653145	Missense_Mutation	SNP	G	TCGA-KL-8338-01A-11D-2310-10	6365626	48653145	32542065	39	39329										
RNMT	8731	broad.mit.edu	37	chr18	13746253	13746253	+	Frame_Shift_Del	DEL	A	A	-													0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	acaatatgaaactagtctacAaaaaaacatttctggaattc							TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr18:13746253delA	ENST00000383314.2	+	9	1414	c.1174delA	c.(1174-1176)aaafs	p.K393fs	RNMT_ENST00000262173.3_Frame_Shift_Del_p.K393fs|RNMT_ENST00000535051.1_Frame_Shift_Del_p.K151fs|RNMT_ENST00000589866.1_Frame_Shift_Del_p.K393fs|RNMT_ENST00000592764.1_Frame_Shift_Del_p.K393fs|RNMT_ENST00000543302.2_Frame_Shift_Del_p.K393fs			O43148	MCES_HUMAN	RNA (guanine-7-) methyltransferase	393	mRNA cap 0 methyltransferase. {ECO:0000255|PROSITE-ProRule:PRU00895}.				7-methylguanosine mRNA capping (GO:0006370)|gene expression (GO:0010467)|RNA (guanine-N7)-methylation (GO:0036265)|transcription from RNA polymerase II promoter (GO:0006366)|viral process (GO:0016032)	mRNA cap binding complex (GO:0005845)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|receptor complex (GO:0043235)	mRNA (guanine-N7-)-methyltransferase activity (GO:0004482)|RNA binding (GO:0003723)	p.T394fs*19(1)		central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(7)|skin(2)	18						ACTAGTCTACAAAAAAACATT	0.308																																					GBM(29;474 594 19092 36647 41529)											1	Deletion - Frameshift(1)	large_intestine(1)											65	70	68					18																	13746253		2202	4299	6501	SO:0001589	frameshift_variant	8731			AF067791	CCDS11867.1	18p11.21	2008-05-14			ENSG00000101654	ENSG00000101654	2.1.1.56		10075	protein-coding gene	gene with protein product		603514				9828141, 9705270	Standard	NM_003799		Approved	RG7MT1	uc002ksl.1	O43148	OTTHUMG00000131718	ENST00000383314.2:c.1174delA	18.37:g.13746253delA	ENSP00000372804:p.Lys393fs	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ90|D3DUJ5|O94996|Q9UIJ9	Frame_Shift_Del	DEL	ENST00000383314.2	37	CCDS11867.1																																																																																				0.308	RNMT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254636.1	NM_003799		-	13746253	A	-	13746253	7	5	637	1	0	1	0	1	0	0	0	0	13519	131	5	0	1200	0	RNMT	18	13746253	Frame_Shift_Del	DEL	A	TCGA-KL-8338-01A-11D-2310-10		13746253	64330995	40	39330										
C19orf70	125988	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	5679701	5679701	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	tagggctgcctggctcttgtCgctgggccccagcagctcct	13	15	1	0			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr19:5679701C>A	ENST00000309324.4	-	2	512	c.103G>T	c.(103-105)Gac>Tac	p.D35Y	C19orf70_ENST00000585605.1_5'UTR|HSD11B1L_ENST00000422535.2_5'Flank|HSD11B1L_ENST00000581893.1_5'Flank|HSD11B1L_ENST00000411793.2_5'Flank|HSD11B1L_ENST00000342970.2_5'Flank|HSD11B1L_ENST00000577917.1_5'Flank|HSD11B1L_ENST00000339423.2_5'Flank|C19orf70_ENST00000587950.1_Missense_Mutation_p.D57Y|C19orf70_ENST00000587589.1_Missense_Mutation_p.D35Y|HSD11B1L_ENST00000581521.1_5'Flank|RPL36_ENST00000579649.1_Intron|C19orf70_ENST00000590389.1_Missense_Mutation_p.D57Y|HSD11B1L_ENST00000581773.1_5'Flank|HSD11B1L_ENST00000583928.1_5'Flank|HSD11B1L_ENST00000423665.2_5'Flank|RPL36_ENST00000577222.1_5'Flank|HSD11B1L_ENST00000301382.4_5'Flank	NM_205767.1	NP_991330.1	Q5XKP0	QIL1_HUMAN	chromosome 19 open reading frame 70	35						mitochondrion (GO:0005739)				endometrium(1)|lung(1)	2						TGGCTCTTGTCGCTGGGCCCC	0.647																																																0													31	28	29					19																	5679701		2203	4299	6502	SO:0001583	missense	125988			BC009557	CCDS12143.1	19p13.3	2012-10-26			ENSG00000174917	ENSG00000174917			33702	protein-coding gene	gene with protein product						14702039, 17353931	Standard	NM_205767		Approved	QIL1, P117	uc002mch.1	Q5XKP0		ENST00000309324.4:c.103G>T	19.37:g.5679701C>A	ENSP00000309561:p.Asp35Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q86YE5	Missense_Mutation	SNP	ENST00000309324.4	37	CCDS12143.1	.	.	.	.	.	.	.	.	.	.	C	13.54	2.267720	0.40095	.	.	ENSG00000174917	ENST00000309324	T	0.27720	1.65	4.74	2.45	0.29901	.	0.608391	0.14659	N	0.306042	T	0.37404	0.1002	L	0.51422	1.61	0.36444	D	0.865693	D	0.56035	0.974	P	0.52823	0.71	T	0.49606	-0.8922	10	0.72032	D	0.01	-38.7297	9.7456	0.40444	0.1521:0.6992:0.1487:0.0	.	35	Q5XKP0	QIL1_HUMAN	Y	35	ENSP00000309561:D35Y	ENSP00000309561:D35Y	D	-	1	0	C19orf70	5630701	0.004000	0.15560	0.998000	0.56505	0.976000	0.68499	0.225000	0.17757	2.187000	0.69744	0.462000	0.41574	GAC		0.647	C19orf70-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451656.1	NM_205767		A	5679701	C	A	5679701	3	1	637	1	0	0	0	0	1	0	0	0	1949	884	31	4	265	4	C19orf70	19	5679701	Missense_Mutation	SNP	C	TCGA-KL-8338-01A-11D-2310-10		5679701	53449282	41	39331										
FUT3	2525	bcgsc.ca	37	chr19	5843877	5843877	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	tgaaggagcgaggccgcagcGtctcccgccagcgaaagtag	15	12	1	1	rs28381969	byFrequency	TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr19:5843877G>A	ENST00000303225.6	-	3	1608	c.974C>T	c.(973-975)aCg>aTg	p.T325M	FUT3_ENST00000593144.1_5'Flank|FUT3_ENST00000589918.1_Missense_Mutation_p.T325M|FUT3_ENST00000589620.1_Missense_Mutation_p.T325M|FUT3_ENST00000458379.2_Missense_Mutation_p.T325M	NM_000149.3	NP_000140	P21217	FUT3_HUMAN	fucosyltransferase 3 (galactoside 3(4)-L-fucosyltransferase, Lewis blood group)	325			T -> M (in dbSNP:rs28381969). {ECO:0000269|Ref.5}.		cell-cell recognition (GO:0009988)|fucosylation (GO:0036065)|macromolecule glycosylation (GO:0043413)|oligosaccharide biosynthetic process (GO:0009312)|protein glycosylation (GO:0006486)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity (GO:0017060)|alpha-(1->3)-fucosyltransferase activity (GO:0046920)|fucosyltransferase activity (GO:0008417)			breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(5)|upper_aerodigestive_tract(1)	14						AGGCCGCAGCGTCTCCCGCCA	0.637													G|||	37	0.00738818	0.025	0.0043	5008	,	,		19604	0.001		0.0	False		,,,				2504	0.0				Esophageal Squamous(82;745 1728 24593 44831)											0													42	45	44					19																	5843877		2203	4300	6503	SO:0001583	missense	2525				CCDS12153.1	19p13.3	2014-07-19	2006-01-12		ENSG00000171124	ENSG00000171124	2.4.1.65	"CD molecules", "Blood group antigens", "Fucosyltransferases"	4014	protein-coding gene	gene with protein product		111100	"fucosyltransferase 3 (galactoside 3(4)-L-fucosyltransferase, Lewis blood group included)"	LE		1977660, 1740457	Standard	NM_000149		Approved	CD174	uc002mdk.2	P21217	OTTHUMG00000180614	ENST00000303225.6:c.974C>T	19.37:g.5843877G>A	ENSP00000305603:p.Thr325Met	Somatic		WXS	Illumina HiSeq	Phase_I	B5U7U9|B5U7V0|Q32NE7|Q99448|Q99449	Missense_Mutation	SNP	ENST00000303225.6	37	CCDS12153.1	36	0.016483516483516484	18	0.036585365853658534	1	0.0027624309392265192	6	0.01048951048951049	11	0.014511873350923483	G	12.11	1.838692	0.32513	.	.	ENSG00000171124	ENST00000303225;ENST00000458379	T;T	0.24350	1.86;1.86	2.29	1.18	0.20946	.	0.943966	0.08680	N	0.909636	T	0.07413	0.0187	M	0.79805	2.47	0.09310	N	1	P;P;P;P	0.38617	0.64;0.483;0.483;0.483	B;B;B;B	0.36186	0.219;0.148;0.148;0.148	T	0.11494	-1.0585	10	0.37606	T	0.19	.	5.4124	0.16356	0.1897:0.0:0.8103:0.0	rs28381969	325;325;325;325	B3W6H0;A8K737;B3GVC1;P21217	.;.;.;FUT3_HUMAN	M	325	ENSP00000305603:T325M;ENSP00000416443:T325M	ENSP00000305603:T325M	T	-	2	0	FUT3	5794877	0.000000	0.05858	0.620000	0.29132	0.507000	0.33981	-1.150000	0.03178	0.242000	0.21303	0.194000	0.17425	ACG		0.637	FUT3-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452204.1	NM_000149		A	5843877	G	A	5843877	3	1	637	1	0	0	0	0	1	0	0	0	6112	1145	40	1	115	1	FUT3	19	5843877	Missense_Mutation	SNP	G	TCGA-KL-8338-01A-11D-2310-10	164176	5843877	53285106	42	39332										
TMEM150B	284417	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	55824239	55824239	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	ggtgcctgctacagctggacCggcagggagatgggggaggc	20	9	0	1			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr19:55824239C>T	ENST00000326652.4	-	8	872	c.690G>A	c.(688-690)ccG>ccA	p.P230P	TMEM150B_ENST00000438693.1_Silent_p.P230P|CTD-2105E13.14_ENST00000596786.1_RNA	NM_001282011.1	NP_001268940.1	A6NC51	T150B_HUMAN	transmembrane protein 150B	230						integral component of membrane (GO:0016021)				endometrium(1)|large_intestine(1)|lung(1)	3						ACAGCTGGACCGGCAGGGAGA	0.667																																																0													6	8	8					19																	55824239		1959	4082	6041	SO:0001819	synonymous_variant	284417			BC020862	CCDS42629.1	19q13.42	2009-06-12	2009-06-12	2009-06-12		ENSG00000180061			34415	protein-coding gene	gene with protein product			"transmembrane protein 224"	TMEM224			Standard	XM_005258812		Approved		uc010esw.1	A6NC51		ENST00000326652.4:c.690G>A	19.37:g.55824239C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZW71	Silent	SNP	ENST00000326652.4	37	CCDS42629.1																																																																																				0.667	TMEM150B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452685.1	NM_001085488		T	55824239	C	T	55824239	2	4	637	1	0	0	0	0	0	0	0	1	16080	639	23	1		1	TMEM150B	19	55824239	Silent	SNP	C	TCGA-KL-8338-01A-11D-2310-10	49980362	55824239	3304744	43	39333										
EDEM2	55741	bcgsc.ca	37	chr20	33711701	33711701	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	aatgctgctcacctggccgaAgtgggtagccctctcgcttc	11	14	2	0			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr20:33711701A>G	ENST00000374492.3	-	9	1211	c.1106T>C	c.(1105-1107)cTt>cCt	p.L369P	EDEM2_ENST00000540582.1_Missense_Mutation_p.L328P|EDEM2_ENST00000374491.3_Missense_Mutation_p.L332P|EDEM2_ENST00000541621.1_Missense_Mutation_p.L148P|EDEM2_ENST00000542871.1_Missense_Mutation_p.L93P	NM_018217.2	NP_060687.2	Q9BV94	EDEM2_HUMAN	ER degradation enhancer, mannosidase alpha-like 2	369					cellular protein metabolic process (GO:0044267)|post-translational protein modification (GO:0043687)|protein folding (GO:0006457)|protein N-linked glycosylation via asparagine (GO:0018279)|response to unfolded protein (GO:0006986)	endoplasmic reticulum membrane (GO:0005789)|extracellular region (GO:0005576)	calcium ion binding (GO:0005509)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(10)|prostate(1)|stomach(1)|upper_aerodigestive_tract(2)	22			BRCA - Breast invasive adenocarcinoma(18;0.00936)			ACCTGGCCGAAGTGGGTAGCC	0.542																																					Esophageal Squamous(51;906 1021 24535 36410 39145)											0													91	79	83					20																	33711701		2203	4300	6503	SO:0001583	missense	55741			AK001645	CCDS13247.1, CCDS46592.1	20q11.22	2006-03-31	2006-03-31	2006-03-31	ENSG00000088298	ENSG00000088298			15877	protein-coding gene	gene with protein product		610302	"chromosome 20 open reading frame 31"	C20orf49, C20orf31		15537790, 15579471	Standard	NM_018217		Approved	FLJ10783, bA4204.1	uc002xbo.2	Q9BV94	OTTHUMG00000032322	ENST00000374492.3:c.1106T>C	20.37:g.33711701A>G	ENSP00000363616:p.Leu369Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTG9|Q6GU33|Q6IA89|Q6UWZ4|Q9H4U0|Q9H886|Q9NTL9|Q9NVE6	Missense_Mutation	SNP	ENST00000374492.3	37	CCDS13247.1	.	.	.	.	.	.	.	.	.	.	A	28.1	4.886671	0.91814	.	.	ENSG00000088298	ENST00000374491;ENST00000374492;ENST00000541621;ENST00000542871;ENST00000540582	T;T;T;T;T	0.56275	0.47;0.47;0.47;0.47;0.47	5.92	5.92	0.95590	.	0.000000	0.85682	D	0.000000	D	0.83691	0.5309	H	0.98664	4.295	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	0.999;1.0;1.0;1.0	D	0.90157	0.4225	10	0.87932	D	0	-15.4479	16.3662	0.83325	1.0:0.0:0.0:0.0	.	328;148;332;369	F5GZ44;G3V1Q0;Q9BV94-2;Q9BV94	.;.;.;EDEM2_HUMAN	P	332;369;148;93;328	ENSP00000363615:L332P;ENSP00000363616:L369P;ENSP00000443528:L148P;ENSP00000441642:L93P;ENSP00000441548:L328P	ENSP00000363615:L332P	L	-	2	0	EDEM2	33175362	1.000000	0.71417	0.998000	0.56505	0.974000	0.67602	9.339000	0.96797	2.274000	0.75844	0.533000	0.62120	CTT		0.542	EDEM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078842.2	NM_018217		G	33711701	A	G	33711701	3	3	637	1	0	0	0	0	1	0	0	0	4914	72	3	3	642	3	EDEM2	20	33711701	Missense_Mutation	SNP	A	TCGA-KL-8338-01A-11D-2310-10		33711701	29313819	44	39334										
MN1	4330	mdanderson.org	37	chr22	28194900	28194900	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	cgctgctgctgctgctgctgTtgctgttgctgttgctgctg	14	11	0	0	rs202212250|rs530519178	byFrequency	TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr22:28194900T>C	ENST00000302326.4	-	1	2586	c.1632A>G	c.(1630-1632)caA>caG	p.Q544Q		NM_002430.2	NP_002421.3	Q10571	MN1_HUMAN	meningioma (disrupted in balanced translocation) 1	544	Poly-Gln.				intramembranous ossification (GO:0001957)					NS(1)|breast(2)|central_nervous_system(3)|endometrium(4)|kidney(3)|large_intestine(6)|lung(15)|ovary(3)|prostate(4)|skin(3)|upper_aerodigestive_tract(1)	45						gctgctgctgttgctgttgct	0.647			T	ETV6	"AML, meningioma"								C|||	5	0.000998403	0.0023	0.0	5008	,	,		12597	0.0		0.0	False		,,,				2504	0.002						Dom	yes		22	22q13	4330	meningioma (disrupted in balanced translocation) 1		"L, O"	0																																										SO:0001819	synonymous_variant	4330			X82209	CCDS42998.1	22q12.1	2010-09-29			ENSG00000169184	ENSG00000169184			7180	protein-coding gene	gene with protein product	"probable tumor suppressor protein MN1"	156100	"meningioma chromosome region"	MGCR		7731706, 12569362	Standard	NM_002430		Approved	MGCR1-PEN, MGCR1	uc003adj.3	Q10571	OTTHUMG00000150975	ENST00000302326.4:c.1632A>G	22.37:g.28194900T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1V9	Silent	SNP	ENST00000302326.4	37	CCDS42998.1																																																																																				0.647	MN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320737.1	NM_002430		C	28194900	T	C	28194900	2	2	637	1	0	0	0	0	0	0	0	1	9680	1722	60	3		3	MN1	22	28194900	Silent	SNP	T	TCGA-KL-8338-01A-11D-2310-10		28194900	23109666	45	39335										
TRABD	80305	ucsc.edu	37	chr22	50636349	50636349	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	acctgcaccgcaccatcgtcTcggagcgcgacgtctaccta	9	17	2	0			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chr22:50636349T>C	ENST00000303434.4	+	8	888	c.769T>C	c.(769-771)Tcg>Ccg	p.S257P	TRABD_ENST00000395827.1_Missense_Mutation_p.S257P|TRABD_ENST00000380909.4_Missense_Mutation_p.S257P|RP3-402G11.26_ENST00000608025.1_RNA|TRABD_ENST00000395829.1_Missense_Mutation_p.S257P	NM_025204.2	NP_079480.2	Q9H4I3	TRABD_HUMAN	TraB domain containing	257										breast(1)|central_nervous_system(1)|large_intestine(1)|liver(2)|lung(1)|upper_aerodigestive_tract(1)	7		all_cancers(38;1.07e-07)|all_epithelial(38;9.6e-07)|all_lung(38;0.00141)|Breast(42;0.00387)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		LUAD - Lung adenocarcinoma(64;0.105)		CACCATCGTCTCGGAGCGCGA	0.657																																																0													141	106	118					22																	50636349		2203	4300	6503	SO:0001583	missense	80305			AL449244	CCDS14086.1	22q13.33	2006-07-06			ENSG00000170638	ENSG00000170638			28805	protein-coding gene	gene with protein product						12477932	Standard	NM_025204		Approved	PP2447	uc003bjs.1	Q9H4I3	OTTHUMG00000044644	ENST00000303434.4:c.769T>C	22.37:g.50636349T>C	ENSP00000305664:p.Ser257Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q19CC5|Q96ED8|Q9H7N1|Q9UGX6|Q9UGX7	Missense_Mutation	SNP	ENST00000303434.4	37	CCDS14086.1	.	.	.	.	.	.	.	.	.	.	T	11.25	1.584092	0.28268	.	.	ENSG00000170638	ENST00000380909;ENST00000303434;ENST00000395827;ENST00000395829	T;T;T;T	0.43688	0.94;0.94;0.94;0.94	5.1	2.87	0.33458	.	0.190451	0.46442	D	0.000281	T	0.39410	0.1077	L	0.44542	1.39	0.48236	D	0.999612	B;P	0.39071	0.305;0.658	B;P	0.45428	0.242;0.48	T	0.10451	-1.0629	10	0.48119	T	0.1	-13.5527	8.1305	0.31024	0.1339:0.0:0.1404:0.7257	.	211;257	Q9H4I3-2;Q9H4I3	.;TRABD_HUMAN	P	257	ENSP00000370295:S257P;ENSP00000305664:S257P;ENSP00000379171:S257P;ENSP00000379173:S257P	ENSP00000305664:S257P	S	+	1	0	TRABD	48978476	1.000000	0.71417	0.027000	0.17364	0.040000	0.13550	2.494000	0.45329	0.235000	0.21160	-0.516000	0.04426	TCG		0.657	TRABD-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000316987.1	NM_025204		C	50636349	T	C	50636349	3	2	637	1	0	0	0	0	1	0	0	0	16447	1551	54	3	795	3	TRABD	22	50636349	Missense_Mutation	SNP	T	TCGA-KL-8338-01A-11D-2310-10	22441449	50636349	668217	46	39336										
AFF2	2334	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	147924508	147924508	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	0.814906832298137	NA	0.814906832298137	0.428571428571429	1	0	aggaatcgcagcatctgaccCcaggattcaccttacaaagt	8	12	2	1			TCGA-KL-8338-01A-11D-2310-10	TCGA-KL-8338-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9966607-f842-41ec-8d4a-dff22bec65f6	511dfe93-0a8e-4ff1-8724-6f87ec952e5c	g.chrX:147924508C>T	ENST00000370460.2	+	6	1671	c.1192C>T	c.(1192-1194)Cca>Tca	p.P398S	AFF2_ENST00000342251.3_Missense_Mutation_p.P365S|AFF2_ENST00000286437.5_Missense_Mutation_p.P39S|AFF2_ENST00000370457.5_Missense_Mutation_p.P365S|AFF2_ENST00000370458.1_Missense_Mutation_p.P365S	NM_001169123.1|NM_002025.3	NP_001162594.1|NP_002016.2	P51816	AFF2_HUMAN	AF4/FMR2 family, member 2	398					brain development (GO:0007420)|learning or memory (GO:0007611)|mRNA processing (GO:0006397)|regulation of RNA splicing (GO:0043484)|RNA splicing (GO:0008380)	nuclear speck (GO:0016607)	G-quadruplex RNA binding (GO:0002151)			breast(5)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(29)|liver(2)|lung(39)|ovary(4)|pancreas(5)|prostate(1)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(1)	109	Acute lymphoblastic leukemia(192;6.56e-05)					GCATCTGACCCCAGGATTCAC	0.348																																																0													92	87	89					X																	147924508		2203	4299	6502	SO:0001583	missense	2334			U48436	CCDS14684.1, CCDS55521.1, CCDS76040.1	Xq28	2008-02-05	2005-06-27	2005-06-27	ENSG00000155966	ENSG00000155966			3776	protein-coding gene	gene with protein product		300806	"fragile X mental retardation 2"	FMR2			Standard	NM_002025		Approved	FRAXE	uc004fcp.3	P51816	OTTHUMG00000022613	ENST00000370460.2:c.1192C>T	X.37:g.147924508C>T	ENSP00000359489:p.Pro398Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A2RTY4|B4DXD5|B7WNQ1|B7ZLD6|B7ZLD9|O43786|O60215|P78407|Q13521|Q14323|Q7Z2F7|Q7Z400|Q9UNA5	Missense_Mutation	SNP	ENST00000370460.2	37	CCDS14684.1	.	.	.	.	.	.	.	.	.	.	C	8.659	0.900042	0.17686	.	.	ENSG00000155966	ENST00000370460;ENST00000370457;ENST00000342251;ENST00000370458;ENST00000286437	T;T;T;T;T	0.61980	0.06;0.06;0.06;0.06;0.06	5.67	4.7	0.59300	.	0.229244	0.38005	N	0.001852	T	0.32823	0.0842	N	0.03930	-0.32	0.31930	N	0.612348	B;B;B;B;B;B;B	0.33583	0.418;0.165;0.165;0.165;0.165;0.198;0.017	B;B;B;B;B;B;B	0.34873	0.191;0.121;0.121;0.121;0.121;0.191;0.023	T	0.31998	-0.9923	10	0.32370	T	0.25	.	3.4715	0.07569	0.0:0.6736:0.0:0.3264	.	39;369;365;365;394;398;365	B4DXD5;P51816-6;P51816-3;P51816-2;P51816-5;P51816;P51816-4	.;.;.;.;.;AFF2_HUMAN;.	S	398;365;365;365;39	ENSP00000359489:P398S;ENSP00000359486:P365S;ENSP00000345459:P365S;ENSP00000359487:P365S;ENSP00000286437:P39S	ENSP00000286437:P39S	P	+	1	0	AFF2	147732200	1.000000	0.71417	0.978000	0.43139	0.873000	0.50193	2.680000	0.46918	2.374000	0.81015	0.540000	0.68198	CCA		0.348	AFF2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058673.2	NM_002025		T	147924508	C	T	147924508	3	4	637	1	0	0	0	0	1	0	0	0	357	623	22	2	1269	2	AFF2	23	147924508	Missense_Mutation	SNP	C	TCGA-KL-8338-01A-11D-2310-10		147924508	7346052	47	39337										
ATAD3C	219293	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	1391260	1391260	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tacaggcacatcctgctgtaCgggccaccaggcaccgggaa	12	14	0	0	rs569952968		TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr1:1391260C>T	ENST00000378785.2	+	6	1523	c.528C>T	c.(526-528)taC>taT	p.Y176Y		NM_001039211.2	NP_001034300.2	Q5T2N8	ATD3C_HUMAN	ATPase family, AAA domain containing 3C	176							ATP binding (GO:0005524)			autonomic_ganglia(1)|endometrium(1)|kidney(1)|lung(4)	7	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)		TCCTGCTGTACGGGCCACCAG	0.627													c|||	1	0.000199681	0.0008	0.0	5008	,	,		19249	0.0		0.0	False		,,,				2504	0.0															0													79	87	84					1																	1391260		692	1591	2283	SO:0001819	synonymous_variant	219293			AK091918	CCDS44039.1	1p36.33	2010-04-21		2007-02-08	ENSG00000215915	ENSG00000215915		"ATPases / AAA-type"	32151	protein-coding gene	gene with protein product							Standard	NM_001039211		Approved	FLJ34599	uc001aft.2	Q5T2N8	OTTHUMG00000000531	ENST00000378785.2:c.528C>T	1.37:g.1391260C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N1Z5	Silent	SNP	ENST00000378785.2	37	CCDS44039.1																																																																																				0.627	ATAD3C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000001279.3	NM_001039211		T	1391260	C	T	1391260	2	4	638	1	0	0	0	0	0	0	0	1	1075	547	19	1		1	ATAD3C	1	1391260	Silent	SNP	C	TCGA-KL-8339-01A-11D-2310-10		1391260	247859361	1	39338										
CDK11A	728642	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr1	1647844	1647844	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ttctgtctttcccattcccgGcgagctttatcctgttcttc	6	14	3	0	rs368053496		TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr1:1647844G>A	ENST00000378633.1	-	5	478	c.399C>T	c.(397-399)cgC>cgT	p.R133R	CDK11A_ENST00000358779.5_Silent_p.R133R|CDK11A_ENST00000357760.2_Silent_p.R133R|CDK11A_ENST00000356200.3_Silent_p.R109R|RP1-283E3.8_ENST00000598846.1_RNA|CDK11A_ENST00000378638.2_Silent_p.R109R|CDK11A_ENST00000404249.3_Silent_p.R143R|CDK11A_ENST00000378635.3_Silent_p.R133R			Q9UQ88	CD11A_HUMAN	cyclin-dependent kinase 11A	133	Glu-rich.				apoptotic process (GO:0006915)|mitotic nuclear division (GO:0007067)|protein phosphorylation (GO:0006468)|regulation of cell growth (GO:0001558)|regulation of mRNA processing (GO:0050684)|regulation of transcription, DNA-templated (GO:0006355)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|cyclin-dependent protein serine/threonine kinase activity (GO:0004693)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			central_nervous_system(1)|cervix(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(4)|lung(4)|stomach(1)|urinary_tract(1)	18						CCCATTCCCGGCGAGCTTTAT	0.483																																					Pancreas(186;965 2119 30274 40311 50569)											0													227	224	225					1																	1647844		1977	4163	6140	SO:0001819	synonymous_variant	984			AF067522	CCDS44042.1, CCDS44043.1	1p36.33	2011-11-08	2009-12-16	2009-12-16	ENSG00000008128	ENSG00000008128		"Cyclin-dependent kinases"	1730	protein-coding gene	gene with protein product		116951	"cell division cycle 2-like 2", "cell division cycle 2-like 2 (PITSLRE proteins)"	CDC2L3, CDC2L2		7920654, 9750192, 19884882	Standard	NM_033529		Approved	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA		Q9UQ88	OTTHUMG00000000703	ENST00000378633.1:c.399C>T	1.37:g.1647844G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O95227|O95228|O96012|Q12821|Q12853|Q12854|Q2TAJ0|Q5QPR0|Q5QPR1|Q5QPR2|Q9UBC4|Q9UBI3|Q9UEI1|Q9UEI2|Q9UP53|Q9UP54|Q9UP55|Q9UP56|Q9UQ86|Q9UQ87|Q9UQ89	Silent	SNP	ENST00000378633.1	37																																																																																					0.483	CDK11A-005	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000001735.1	NM_024011		A	1647844	G	A	1647844	2	1	638	1	0	0	0	0	0	0	0	1	3128	1190	42	2		2	CDK11A	1	1647844	Silent	SNP	G	TCGA-KL-8339-01A-11D-2310-10	256584	1647844	247602777	2	39339										
HSPG2	3339	ucsc.edu	37	chr1	22211304	22211304	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	caccgtcaggaatgccaaacAccatgccccgggcgttcatg	10	15	2	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr1:22211304A>G	ENST00000374695.3	-	12	1542	c.1463T>C	c.(1462-1464)gTg>gCg	p.V488A		NM_005529.5	NP_005520.4	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2	488	Ig-like C2-type 1.				angiogenesis (GO:0001525)|brain development (GO:0007420)|carbohydrate metabolic process (GO:0005975)|cardiac muscle tissue development (GO:0048738)|cartilage development involved in endochondral bone morphogenesis (GO:0060351)|chondrocyte differentiation (GO:0002062)|chondroitin sulfate metabolic process (GO:0030204)|embryonic skeletal system morphogenesis (GO:0048704)|endochondral ossification (GO:0001958)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|lipoprotein metabolic process (GO:0042157)|phototransduction, visible light (GO:0007603)|protein localization (GO:0008104)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)	basal lamina (GO:0005605)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi lumen (GO:0005796)|lysosomal lumen (GO:0043202)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|protein C-terminus binding (GO:0008022)			breast(6)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(15)|liver(1)|lung(44)|ovary(10)|pancreas(1)|prostate(10)|skin(9)|upper_aerodigestive_tract(3)|urinary_tract(3)	127		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)	Palifermin(DB00039)	AATGCCAAACACCATGCCCCG	0.642																																																0													54	42	46					1																	22211304		2203	4300	6503	SO:0001583	missense	3339			M85289	CCDS30625.1	1p36.1-p35	2013-01-29	2007-02-16	2007-02-16	ENSG00000142798	ENSG00000142798		"Proteoglycans / Extracellular Matrix : Other", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5273	protein-coding gene	gene with protein product	"perlecan proteoglycan"	142461	"Schwartz-Jampel syndrome 1 (chondrodystrophic myotonia)"	SJS1		1685141, 11941538	Standard	XM_005245863		Approved	perlecan, PRCAN	uc001bfj.3	P98160	OTTHUMG00000002674	ENST00000374695.3:c.1463T>C	1.37:g.22211304A>G	ENSP00000363827:p.Val488Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q16287|Q5SZI3|Q9H3V5	Missense_Mutation	SNP	ENST00000374695.3	37	CCDS30625.1	.	.	.	.	.	.	.	.	.	.	A	14.29	2.492182	0.44352	.	.	ENSG00000142798	ENST00000374695	T	0.37752	1.18	5.32	4.18	0.49190	.	0.000000	0.33110	N	0.005264	T	0.42086	0.1187	N	0.21282	0.65	0.52501	D	0.999958	D	0.59357	0.985	D	0.73708	0.981	T	0.25502	-1.0130	10	0.48119	T	0.1	.	9.4212	0.38553	0.9145:0.0:0.0854:0.0	.	488	P98160	PGBM_HUMAN	A	488	ENSP00000363827:V488A	ENSP00000363827:V488A	V	-	2	0	HSPG2	22083891	1.000000	0.71417	1.000000	0.80357	0.083000	0.17756	6.779000	0.75057	0.848000	0.35191	-0.441000	0.05720	GTG		0.642	HSPG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000007598.1	NM_005529		G	22211304	A	G	22211304	3	3	638	1	0	0	0	0	1	0	0	0	7437	159	6	3	12056	3	HSPG2	1	22211304	Missense_Mutation	SNP	A	TCGA-KL-8339-01A-11D-2310-10	20563460	22211304	227039317	3	39340										
RBMXL1	494115	broad.mit.edu;mdanderson.org	37	chr1	89449440	89449440	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tttgccaaatactgtttcaaGagctttctcatttgtttccg	6	9	2	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr1:89449440G>T	ENST00000321792.5	-	2	497	c.70C>A	c.(70-72)Ctt>Att	p.L24I	CCBL2_ENST00000446900.2_Intron|RBMXL1_ENST00000399794.2_Missense_Mutation_p.L24I|CCBL2_ENST00000370485.2_Intron|CCBL2_ENST00000370491.3_Intron|CCBL2_ENST00000260508.4_Intron|RBMXL1_ENST00000413769.1_5'UTR	NM_019610.5	NP_062556.2	Q96E39	RMXL1_HUMAN	RNA binding motif protein, X-linked-like 1	24	RRM. {ECO:0000255|PROSITE- ProRule:PRU00176}.				mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|RNA binding (GO:0003723)										ACTGTTTCAAGAGCTTTCTCA	0.413											OREG0013593	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													185	184	185					1																	89449440		2203	4300	6503	SO:0001583	missense	494115			BC012942	CCDS716.1	1p22.2	2013-02-12	2007-01-04	2007-01-04	ENSG00000213516	ENSG00000213516		"RNA binding motif (RRM) containing"	25073	protein-coding gene	gene with protein product	"kynurenine aminotransferase III"					10441733	Standard	NM_019610		Approved	KAT3	uc001dms.3	Q96E39	OTTHUMG00000010661	ENST00000321792.5:c.70C>A	1.37:g.89449440G>T	ENSP00000318415:p.Leu24Ile	Somatic	1267	WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000321792.5	37	CCDS716.1	.	.	.	.	.	.	.	.	.	.	G	21.5	4.156042	0.78114	.	.	ENSG00000213516	ENST00000321792;ENST00000399794	T;T	0.37915	1.17;1.17	1.28	1.28	0.21552	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.000000	0.64402	U	0.000009	T	0.32255	0.0823	L	0.31845	0.965	0.41177	D	0.986203	P	0.44344	0.833	D	0.73380	0.98	T	0.18398	-1.0338	10	0.66056	D	0.02	-1.6719	8.103	0.30868	0.0:0.0:1.0:0.0	.	24	Q96E39	RBMXL_HUMAN	I	24	ENSP00000318415:L24I;ENSP00000446099:L24I	ENSP00000318415:L24I	L	-	1	0	RBMXL1	89222028	1.000000	0.71417	0.821000	0.32701	0.926000	0.56050	2.359000	0.44142	0.693000	0.31634	0.306000	0.20318	CTT		0.413	RBMXL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029403.3	NM_019610		T	89449440	G	T	89449440	3	4	638	1	0	0	0	0	1	0	0	0	13166	942	33	4	1106	4	RBMXL1	1	89449440	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10	67238136	89449440	159801181	4	39341										
VAV3	10451	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	108303461	108303461	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	taggaaccacaagcaagtctCgaagagtaaatttcccatta	7	9	1	1	rs139065569		TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr1:108303461C>T	ENST00000370056.4	-	10	1236	c.962G>A	c.(961-963)cGa>cAa	p.R321Q	VAV3_ENST00000371846.4_Missense_Mutation_p.R256Q|VAV3_ENST00000343258.4_5'UTR|VAV3_ENST00000527011.1_Missense_Mutation_p.R321Q	NM_006113.4	NP_006104.4	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor	321	DH. {ECO:0000255|PROSITE- ProRule:PRU00062}.				angiogenesis (GO:0001525)|apoptotic signaling pathway (GO:0097190)|B cell receptor signaling pathway (GO:0050853)|blood coagulation (GO:0007596)|cellular response to DNA damage stimulus (GO:0006974)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|integrin-mediated signaling pathway (GO:0007229)|lamellipodium assembly (GO:0030032)|neurotrophin TRK receptor signaling pathway (GO:0048011)|neutrophil chemotaxis (GO:0030593)|platelet activation (GO:0030168)|positive regulation of apoptotic process (GO:0043065)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of cell adhesion (GO:0045785)|positive regulation of GTPase activity (GO:0043547)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of signal transduction (GO:0009967)|regulation of Rac GTPase activity (GO:0032314)|regulation of small GTPase mediated signal transduction (GO:0051056)|response to drug (GO:0042493)|small GTPase mediated signal transduction (GO:0007264)|vesicle fusion (GO:0006906)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	GTPase activator activity (GO:0005096)|guanyl-nucleotide exchange factor activity (GO:0005085)|metal ion binding (GO:0046872)|Rac guanyl-nucleotide exchange factor activity (GO:0030676)|SH3/SH2 adaptor activity (GO:0005070)			NS(2)|breast(5)|endometrium(4)|kidney(2)|large_intestine(14)|lung(20)|ovary(6)|prostate(3)|stomach(1)|urinary_tract(1)	58		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)		AAGCAAGTCTCGAAGAGTAAA	0.333																																																0								C	GLN/ARG	0,4406		0,0,2203	93	81	85		962	5.7	1	1	dbSNP_134	85	1,8597	1.2+/-3.3	0,1,4298	no	missense	VAV3	NM_006113.4	43	0,1,6501	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	321/848	108303461	1,13003	2203	4299	6502	SO:0001583	missense	10451			AF118886	CCDS785.1, CCDS44181.1	1p13.3	2013-02-14	2007-07-25		ENSG00000134215	ENSG00000134215		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing", "SH2 domain containing"	12659	protein-coding gene	gene with protein product		605541	"vav 3 oncogene"				Standard	NM_001079874		Approved		uc001dvk.1	Q9UKW4	OTTHUMG00000010995	ENST00000370056.4:c.962G>A	1.37:g.108303461C>T	ENSP00000359073:p.Arg321Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B1AMM0|B1APV5|B4E232|B7ZLR1|E9PQ97|O60498|O95230|Q9Y5X8	Missense_Mutation	SNP	ENST00000370056.4	37	CCDS785.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	25.5|25.5	4.642639|4.642639	0.87859|0.87859	0.0|0.0	1.16E-4|1.16E-4	ENSG00000134215|ENSG00000134215	ENST00000490388|ENST00000370056;ENST00000527011;ENST00000371846	.|T;T;T	.|0.61980	.|0.06;0.06;0.06	5.66|5.66	5.66|5.66	0.87406|0.87406	.|Guanine-nucleotide dissociation stimulator, CDC24, conserved site (1);Dbl homology (DH) domain (5);	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.68081|0.68081	0.2962|0.2962	L|L	0.45581|0.45581	1.43|1.43	0.80722|0.80722	D|D	1|1	.|P;D;D;D	.|0.89917	.|0.873;1.0;0.993;0.993	.|P;D;P;P	.|0.81914	.|0.515;0.995;0.621;0.734	T|T	0.60919|0.60919	-0.7167|-0.7167	5|10	.|0.25106	.|T	.|0.35	.|.	19.7509|19.7509	0.96268|0.96268	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|321;321;256;321	.|B7ZLR1;E9PQ97;B4DHL6;Q9UKW4	.|.;.;.;VAV3_HUMAN	K|Q	316|321;321;256	.|ENSP00000359073:R321Q;ENSP00000432540:R321Q;ENSP00000360912:R256Q	.|ENSP00000359073:R321Q	E|R	-|-	1|2	0|0	VAV3|VAV3	108104984|108104984	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.987000|0.987000	0.75469|0.75469	7.441000|7.441000	0.80485|0.80485	2.664000|2.664000	0.90586|0.90586	0.650000|0.650000	0.86243|0.86243	GAG|CGA		0.333	VAV3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030242.2	NM_006113		T	108303461	C	T	108303461	3	4	638	1	0	0	0	0	1	0	0	0	17145	884	31	1	1678	1	VAV3	1	108303461	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	18854021	108303461	140947160	5	39342										
CD1A	909	mdanderson.org	37	chr1	158226667	158226667	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tcaggattctacccaaagccCgtgtgggtgatgtggatgcg	14	9	2	1	rs1042388	byFrequency	TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr1:158226667C>T	ENST00000289429.5	+	4	1229	c.696C>T	c.(694-696)ccC>ccT	p.P232P		NM_001763.2	NP_001754.2	P06126	CD1A_HUMAN	CD1a molecule	232	Ig-like.				antigen processing and presentation (GO:0019882)|immune response (GO:0006955)	endosome (GO:0005768)|integral component of plasma membrane (GO:0005887)				NS(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(14)|pancreas(2)|prostate(4)|skin(2)|urinary_tract(1)	32	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	ACCCAAAGCCCGTGTGGGTGA	0.627													c|||	169	0.033746	0.0129	0.049	5008	,	,		17473	0.0		0.0835	False		,,,				2504	0.0348															0								C		111,4295	84.8+/-123.5	4,103,2096	90	85	86		696	-7.6	0	1	dbSNP_86	86	768,7828	182.8+/-231.1	27,714,3557	no	coding-synonymous	CD1A	NM_001763.2		31,817,5653	TT,TC,CC		8.9344,2.5193,6.7605		232/328	158226667	879,12123	2203	4298	6501	SO:0001819	synonymous_variant	909			M28825	CCDS1174.1	1q23.1	2014-01-14	2006-03-28		ENSG00000158477	ENSG00000158477		"CD molecules", "Immunoglobulin superfamily / C1-set domain containing"	1634	protein-coding gene	gene with protein product		188370	"CD1A antigen, a polypeptide", "CD1a antigen"	CD1		2447586, 2784820	Standard	NM_001763		Approved		uc001frt.3	P06126	OTTHUMG00000017512	ENST00000289429.5:c.696C>T	1.37:g.158226667C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DVD7|Q13962|Q5TDJ8|Q9UMM4|Q9Y5M5	Silent	SNP	ENST00000289429.5	37	CCDS1174.1																																																																																				0.627	CD1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046349.2	NM_001763		T	158226667	C	T	158226667	2	4	638	1	0	0	0	0	0	0	0	1	2976	639	23	1		1	CD1A	1	158226667	Silent	SNP	C	TCGA-KL-8339-01A-11D-2310-10	49923206	158226667	91023954	6	39343										
OR10J5	127385	broad.mit.edu	37	chr1	159504971	159504971	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	agggagtgatgatggtgtacGtcactgagagaacaaggtct	15	5	2	4	rs149096656	byFrequency	TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr1:159504971G>A	ENST00000334857.2	-	1	871	c.827C>T	c.(826-828)aCg>aTg	p.T276M		NM_001004469.1	NP_001004469.1	Q8NHC4	O10J5_HUMAN	olfactory receptor, family 10, subfamily J, member 5	276						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			kidney(1)|large_intestine(4)|lung(9)|ovary(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	22	all_hematologic(112;0.0429)					GATGGTGTACGTCACTGAGAG	0.463																																																0								G	MET/THR	0,4406		0,0,2203	90	86	87		827	3.9	1	1	dbSNP_134	87	3,8597	3.0+/-9.4	0,3,4297	yes	missense	OR10J5	NM_001004469.1	81	0,3,6500	AA,AG,GG		0.0349,0.0,0.0231	probably-damaging	276/310	159504971	3,13003	2203	4300	6503	SO:0001583	missense	127385				CCDS30910.1	1q23.2	2012-08-09			ENSG00000184155	ENSG00000184155		"GPCR / Class A : Olfactory receptors"	14993	protein-coding gene	gene with protein product							Standard	NM_001004469		Approved		uc010piw.2	Q8NHC4	OTTHUMG00000022738	ENST00000334857.2:c.827C>T	1.37:g.159504971G>A	ENSP00000334441:p.Thr276Met	Somatic		WXS	Illumina HiSeq	Phase_I	B9EH35|Q6IFH2	Missense_Mutation	SNP	ENST00000334857.2	37	CCDS30910.1	.	.	.	.	.	.	.	.	.	.	G	9.539	1.112783	0.20795	0.0	3.49E-4	ENSG00000184155	ENST00000334857	T	0.00058	8.79	3.94	3.94	0.45596	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.00073	0.0002	N	0.12527	0.23	0.28773	N	0.900281	D	0.71674	0.998	D	0.66497	0.944	T	0.43163	-0.9408	9	0.40728	T	0.16	.	7.6339	0.28255	0.116:0.0:0.884:0.0	.	276	Q8NHC4	O10J5_HUMAN	M	276	ENSP00000334441:T276M	ENSP00000334441:T276M	T	-	2	0	OR10J5	157771595	0.077000	0.21312	0.996000	0.52242	0.006000	0.05464	3.109000	0.50345	2.178000	0.69098	0.491000	0.48974	ACG		0.463	OR10J5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059021.1	NM_001004469		A	159504971	G	A	159504971	3	1	638	1	0	0	0	0	1	0	0	0	10919	1145	40	1	104	1	OR10J5	1	159504971	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10	1278304	159504971	89745650	7	39344										
TEDDM1	127670	bcgsc.ca	37	chr1	182368966	182368966	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	atgataccaaaaggaagagaAgccatagattcccaacagga	9	8	0	3			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr1:182368966A>G	ENST00000367565.1	-	1	785	c.655T>C	c.(655-657)Ttc>Ctc	p.F219L		NM_172000.3	NP_741997.3	Q5T9Z0	TEDM1_HUMAN	transmembrane epididymal protein 1	219						integral component of membrane (GO:0016021)				haematopoietic_and_lymphoid_tissue(1)|lung(4)|ovary(2)	7						AAGGAAGAGAAGCCATAGATT	0.478																																																0													85	76	79					1																	182368966		2203	4300	6503	SO:0001583	missense	127670			AJ515384	CCDS30953.1	1q25.3	2009-09-17		2005-08-09	ENSG00000203730	ENSG00000203730			30233	protein-coding gene	gene with protein product	"putative membrane protein HE9", "transmembrane protein 45C", "epididymal protein 9"						Standard	NM_172000		Approved	HE9, Epdd1, TMEM45C, EDDM9	uc001gpe.3	Q5T9Z0	OTTHUMG00000037398	ENST00000367565.1:c.655T>C	1.37:g.182368966A>G	ENSP00000356536:p.Phe219Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVJ0	Missense_Mutation	SNP	ENST00000367565.1	37	CCDS30953.1	.	.	.	.	.	.	.	.	.	.	A	10.29	1.310316	0.23821	.	.	ENSG00000203730	ENST00000367565	T	0.39787	1.06	4.73	-3.63	0.04529	.	1.234140	0.05592	N	0.574800	T	0.14700	0.0355	N	0.03983	-0.305	0.09310	N	1	B	0.22480	0.07	B	0.23419	0.046	T	0.20940	-1.0260	10	0.02654	T	1	-19.7017	4.4093	0.11425	0.2002:0.5281:0.1634:0.1084	.	219	Q5T9Z0	TEDM1_HUMAN	L	219	ENSP00000356536:F219L	ENSP00000356536:F219L	F	-	1	0	TEDDM1	180635589	0.000000	0.05858	0.001000	0.08648	0.873000	0.50193	-2.654000	0.00855	-0.929000	0.03757	0.460000	0.39030	TTC		0.478	TEDDM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091029.1	NM_172000		G	182368966	A	G	182368966	3	3	638	1	0	0	0	0	1	0	0	0	15761	72	3	3	170	3	TEDDM1	1	182368966	Missense_Mutation	SNP	A	TCGA-KL-8339-01A-11D-2310-10	22863995	182368966	66881655	8	39345										
KCNF1	3754	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr2	11053758	11053758	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	atcgccatcgccctgcccatCcaccccatcatcaacaactt	3	20	2	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr2:11053758C>T	ENST00000295082.1	+	1	1696	c.1206C>T	c.(1204-1206)atC>atT	p.I402I		NM_002236.4	NP_002227.2	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F, member 1	402					potassium ion transport (GO:0006813)|protein homooligomerization (GO:0051260)|synaptic transmission (GO:0007268)	plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|potassium channel activity (GO:0005267)			NS(1)|endometrium(2)|large_intestine(2)|lung(10)|ovary(2)|skin(1)|urinary_tract(1)	19	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		CCCTGCCCATCCACCCCATCA	0.597																																																0													148	112	124					2																	11053758		2203	4300	6503	SO:0001819	synonymous_variant	3754			AF033382	CCDS1676.1	2p25	2011-07-05			ENSG00000162975	ENSG00000162975		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6246	protein-coding gene	gene with protein product		603787		KCNF		9434767, 16382104	Standard	NM_002236		Approved	Kv5.1, kH1, IK8	uc002rax.3	Q9H3M0	OTTHUMG00000119054	ENST00000295082.1:c.1206C>T	2.37:g.11053758C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O43527|Q585L3	Silent	SNP	ENST00000295082.1	37	CCDS1676.1																																																																																				0.597	KCNF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239265.1	NM_002236		T	11053758	C	T	11053758	2	4	638	1	0	0	0	0	0	0	0	1	8033	845	30	2		2	KCNF1	2	11053758	Silent	SNP	C	TCGA-KL-8339-01A-11D-2310-10		11053758	232145615	9	39346										
HS6ST1	9394	broad.mit.edu;mdanderson.org	37	chr2	129025737	129025737	+	Nonstop_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	cccgtggccaccaccgccacTaccacttctcaatgatgtgg	8	17	1	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr2:129025737T>A	ENST00000259241.6	-	2	1248	c.1235A>T	c.(1234-1236)tAg>tTg	p.*412L		NM_004807.2	NP_004798.3	O60243	H6ST1_HUMAN	heparan sulfate 6-O-sulfotransferase 1	0					angiogenesis (GO:0001525)|carbohydrate metabolic process (GO:0005975)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan metabolic process (GO:0030203)|heparan sulfate proteoglycan biosynthetic process, enzymatic modification (GO:0015015)|labyrinthine layer blood vessel development (GO:0060716)|lung alveolus development (GO:0048286)|neuron development (GO:0048666)|small molecule metabolic process (GO:0044281)	Golgi membrane (GO:0000139)|integral component of plasma membrane (GO:0005887)	heparan sulfate 6-O-sulfotransferase activity (GO:0017095)|sulfotransferase activity (GO:0008146)			endometrium(3)|liver(1)|lung(7)|pancreas(1)|prostate(2)|skin(1)	15	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.117)		CCACCGCCACTACCACTTCTC	0.642																																																0													8	9	8					2																	129025737		1828	3965	5793	SO:0001578	stop_lost	9394			AB006179	CCDS42748.1	2q21	2010-03-19		2002-08-23	ENSG00000136720	ENSG00000136720		"Sulfotransferases, membrane-bound"	5201	protein-coding gene	gene with protein product		604846		HS6ST		9535912	Standard	NM_004807		Approved		uc002tpt.4	O60243	OTTHUMG00000153542	ENST00000259241.6:c.1235A>T	2.37:g.129025737T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DEP2|B4DJ29|Q53SL2|Q9BVI1	Missense_Mutation	SNP	ENST00000259241.6	37	CCDS42748.1	.	.	.	.	.	.	.	.	.	.	T	15.36	2.810086	0.50421	.	.	ENSG00000136720	ENST00000259241	.	.	.	4.19	4.19	0.49359	.	.	.	.	.	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.5576	0.61768	0.0:0.0:0.0:1.0	.	.	.	.	L	412	.	.	X	-	2	0	HS6ST1	128742207	1.000000	0.71417	0.998000	0.56505	0.915000	0.54546	3.892000	0.56235	1.671000	0.50874	0.260000	0.18958	TAG		0.642	HS6ST1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331572.1	NM_004807		A	129025737	T	A	129025737	4	1	638	1	0	0	0	0	0	0	0	0	7377	1535	53	5	4	5	HS6ST1	2	129025737	Nonstop_Mutation	SNP	T	TCGA-KL-8339-01A-11D-2310-10	117971979	129025737	114173636	10	39347			1	85		2	2	22	N	T_C	6.647769e-05
HS6ST1	9394	mdanderson.org	37	chr2	129025758	129025758	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	accacttctcaatgatgtggCtcatgtagtcctcggtgggc	11	11	2	1	rs142919429		TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr2:129025758C>A	ENST00000259241.6	-	2	1227	c.1214G>T	c.(1213-1215)aGc>aTc	p.S405I		NM_004807.2	NP_004798.3	O60243	H6ST1_HUMAN	heparan sulfate 6-O-sulfotransferase 1	405					angiogenesis (GO:0001525)|carbohydrate metabolic process (GO:0005975)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan metabolic process (GO:0030203)|heparan sulfate proteoglycan biosynthetic process, enzymatic modification (GO:0015015)|labyrinthine layer blood vessel development (GO:0060716)|lung alveolus development (GO:0048286)|neuron development (GO:0048666)|small molecule metabolic process (GO:0044281)	Golgi membrane (GO:0000139)|integral component of plasma membrane (GO:0005887)	heparan sulfate 6-O-sulfotransferase activity (GO:0017095)|sulfotransferase activity (GO:0008146)			endometrium(3)|liver(1)|lung(7)|pancreas(1)|prostate(2)|skin(1)	15	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.117)		AATGATGTGGCTCATGTAGTC	0.662																																																0													10	11	11					2																	129025758		1890	4033	5923	SO:0001583	missense	9394			AB006179	CCDS42748.1	2q21	2010-03-19		2002-08-23	ENSG00000136720	ENSG00000136720		"Sulfotransferases, membrane-bound"	5201	protein-coding gene	gene with protein product		604846		HS6ST		9535912	Standard	NM_004807		Approved		uc002tpt.4	O60243	OTTHUMG00000153542	ENST00000259241.6:c.1214G>T	2.37:g.129025758C>A	ENSP00000259241:p.Ser405Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B4DEP2|B4DJ29|Q53SL2|Q9BVI1	Missense_Mutation	SNP	ENST00000259241.6	37	CCDS42748.1	335	0.1533882783882784	57	0.11585365853658537	66	0.18232044198895028	83	0.1451048951048951	129	0.17018469656992086	C	14.89	2.670501	0.47781	.	.	ENSG00000136720	ENST00000259241	D	0.84223	-1.82	4.19	4.19	0.49359	.	0.086180	0.85682	D	0.000000	T	0.00580	0.0019	L	0.56769	1.78	0.22171	P	0.999317387	P	0.44578	0.838	B	0.35413	0.202	T	0.34650	-0.9820	8	.	.	.	-0.0214	16.8907	0.86086	0.0:1.0:0.0:0.0	.	405	O60243	H6ST1_HUMAN	I	405	ENSP00000259241:S405I	.	S	-	2	0	HS6ST1	128742228	1.000000	0.71417	1.000000	0.80357	0.923000	0.55619	3.206000	0.51098	2.054000	0.61138	0.313000	0.20887	AGC		0.662	HS6ST1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331572.1	NM_004807		A	129025758	C	A	129025758	3	1	638	1	0	0	0	0	1	0	0	0	7377	797	28	4	25	4	HS6ST1	2	129025758	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	21	129025758	114173615	11	39348			1	85		2	2	22	N	T_C	6.647769e-05
RUFY4	285180	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	218940146	218940146	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	gcactcagaaggaggtgataGggatggaggctgaggtcaca	17	6	2	3			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr2:218940146G>C	ENST00000344321.7	+	9	1449	c.931G>C	c.(931-933)Ggg>Cgg	p.G311R	RUFY4_ENST00000441828.2_3'UTR|RUFY4_ENST00000463872.1_3'UTR|RUFY4_ENST00000374155.3_Missense_Mutation_p.G331R	NM_198483.3	NP_940885.2	Q6ZNE9	RUFY4_HUMAN	RUN and FYVE domain containing 4	311							metal ion binding (GO:0046872)			endometrium(2)|kidney(2)|large_intestine(4)|pancreas(1)|upper_aerodigestive_tract(1)	10		Renal(207;0.0915)		Epithelial(149;4.11e-06)|all cancers(144;0.000519)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		GGAGGTGATAGGGATGGAGGC	0.572																																																0													36	36	36					2																	218940146		2016	4185	6201	SO:0001583	missense	285180			AK128393		2q35	2007-01-29			ENSG00000188282	ENSG00000188282		"Zinc fingers, FYVE domain containing"	24804	protein-coding gene	gene with protein product							Standard	NM_198483		Approved	FLJ46536	uc010fvl.2	Q6ZNE9	OTTHUMG00000155235	ENST00000344321.7:c.931G>C	2.37:g.218940146G>C	ENSP00000345900:p.Gly311Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZR96	Missense_Mutation	SNP	ENST00000344321.7	37		.	.	.	.	.	.	.	.	.	.	G	15.50	2.852055	0.51270	.	.	ENSG00000188282	ENST00000344321;ENST00000374155	T;T	0.52754	1.36;0.65	4.46	-0.99	0.10238	.	0.730338	0.12322	N	0.479218	T	0.26268	0.0641	L	0.29908	0.895	0.09310	N	1	B	0.25235	0.121	B	0.17722	0.019	T	0.15636	-1.0430	10	0.19590	T	0.45	-3.477	3.3551	0.07167	0.4335:0.0:0.3818:0.1847	.	311	Q6ZNE9	RUFY4_HUMAN	R	311;331	ENSP00000345900:G311R;ENSP00000363270:G331R	ENSP00000345900:G311R	G	+	1	0	RUFY4	218648391	0.004000	0.15560	0.000000	0.03702	0.228000	0.25075	1.215000	0.32431	-0.083000	0.12618	0.467000	0.42956	GGG		0.572	RUFY4-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_198483		C	218940146	G	C	218940146	3	2	638	1	0	0	0	0	1	0	0	0	13754	1000	35	4	957	4	RUFY4	2	218940146	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10	89914388	218940146	24259227	12	39349										
HES6	55502	hgsc.bcm.edu;ucsc.edu	37	chr2	239147555	239147555	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	aagtcgggcccctcagcaggAgcctgactcagttcagcctc	11	15	3	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr2:239147555A>G	ENST00000272937.5	-	4	806	c.588T>C	c.(586-588)gcT>gcC	p.A196A	AC096574.4_ENST00000456601.1_RNA|HES6_ENST00000409182.1_Silent_p.A167A|HES6_ENST00000409574.1_3'UTR|HES6_ENST00000409002.3_Silent_p.A194A|HES6_ENST00000409160.3_3'UTR					hes family bHLH transcription factor 6											lung(1)|skin(1)	2		Breast(86;0.000523)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;3.23e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.29e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.19e-08)|BRCA - Breast invasive adenocarcinoma(100;5.98e-05)|Lung(119;0.0086)|LUSC - Lung squamous cell carcinoma(224;0.0148)		CCTCAGCAGGAGCCTGACTCA	0.692																																																0													7	8	8					2																	239147555		2167	4256	6423	SO:0001819	synonymous_variant	55502			AB035179	CCDS2527.1, CCDS46556.1, CCDS63180.1	2q37.3	2013-10-17	2013-10-17		ENSG00000144485	ENSG00000144485		"Basic helix-loop-helix proteins"	18254	protein-coding gene	gene with protein product		610331	"hairy and enhancer of split 6 (Drosophila)"			10851137	Standard	XM_005246095		Approved	bHLHb41	uc002vxz.3	Q96HZ4	OTTHUMG00000133340	ENST00000272937.5:c.588T>C	2.37:g.239147555A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000272937.5	37	CCDS2527.1																																																																																				0.692	HES6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257170.2	NM_018645		G	239147555	A	G	239147555	2	3	638	1	0	0	0	0	0	0	0	1	7077	291	11	3		3	HES6	2	239147555	Silent	SNP	A	TCGA-KL-8339-01A-11D-2310-10	20207409	239147555	4051818	13	39350										
EOMES	8320	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	27763289	27763289	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ggggcgccccagccgccgccTggtacgggaagagtgagcag	18	13	0	2			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr3:27763289T>C	ENST00000295743.4	-	1	700	c.497A>G	c.(496-498)cAg>cGg	p.Q166R	EOMES_ENST00000461503.1_Intron|EOMES_ENST00000449599.1_Missense_Mutation_p.Q166R|EOMES_ENST00000537516.1_Intron			O95936	EOMES_HUMAN	eomesodermin	166					brain development (GO:0007420)|cardioblast differentiation (GO:0010002)|CD8-positive, alpha-beta T cell differentiation involved in immune response (GO:0002302)|cell differentiation involved in embryonic placenta development (GO:0060706)|cerebral cortex neuron differentiation (GO:0021895)|cerebral cortex regionalization (GO:0021796)|endoderm formation (GO:0001706)|endodermal cell fate specification (GO:0001714)|interferon-gamma production (GO:0032609)|mesoderm formation (GO:0001707)|mesodermal to mesenchymal transition involved in gastrulation (GO:0060809)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|olfactory bulb development (GO:0021772)|positive regulation of cell differentiation (GO:0045597)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of neuron differentiation (GO:0045664)|skeletal muscle cell differentiation (GO:0035914)|stem cell maintenance (GO:0019827)|trophectodermal cell differentiation (GO:0001829)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|endometrium(1)|kidney(1)|large_intestine(6)|lung(7)|ovary(3)|prostate(1)	21						AGCCGCCGCCTGGTACGGGAA	0.721																																																0													4	6	5					3																	27763289		2019	4107	6126	SO:0001583	missense	8320			BC025363	CCDS2646.1, CCDS63585.1	3p24.1	2011-06-13	2010-06-24		ENSG00000163508	ENSG00000163508		"T-boxes"	3372	protein-coding gene	gene with protein product	"T-box brain2"	604615	"eomesodermin (Xenopus laevis) homolog"			9888994, 9434949	Standard	NM_005442		Approved	TBR2	uc003cdy.4	O95936	OTTHUMG00000130570	ENST00000295743.4:c.497A>G	3.37:g.27763289T>C	ENSP00000295743:p.Gln166Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z4I2|B7ZA51|G3XAI5|Q8TAZ2|Q9UPM7	Missense_Mutation	SNP	ENST00000295743.4	37	CCDS2646.1	.	.	.	.	.	.	.	.	.	.	T	12.73	2.026049	0.35701	.	.	ENSG00000163508	ENST00000295743;ENST00000449599;ENST00000535713	D;D	0.85013	-1.93;-1.93	4.11	-0.0134	0.13984	.	1.268390	0.05332	N	0.528499	T	0.69351	0.3101	N	0.08118	0	0.80722	D	1	B;B;B	0.06786	0.001;0.0;0.0	B;B;B	0.08055	0.003;0.001;0.0	T	0.58589	-0.7610	10	0.42905	T	0.14	.	4.5502	0.12108	0.0:0.1166:0.426:0.4574	.	166;166;166	F5H3K1;G3XAI5;O95936	.;.;EOMES_HUMAN	R	166;166;31	ENSP00000295743:Q166R;ENSP00000388620:Q166R	ENSP00000295743:Q166R	Q	-	2	0	EOMES	27738293	1.000000	0.71417	0.973000	0.42090	0.978000	0.69477	1.439000	0.35013	0.225000	0.20959	0.379000	0.24179	CAG		0.721	EOMES-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252995.1	NM_005442		C	27763289	T	C	27763289	3	2	638	1	0	0	0	0	1	0	0	0	5149	1580	55	3	1587	3	EOMES	3	27763289	Missense_Mutation	SNP	T	TCGA-KL-8339-01A-11D-2310-10		27763289	170259141	14	39351										
SCN10A	6336	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr3	38739683	38739683	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ggcagattggggtcacagtaGgggggccctgtgttgaggat	19	6	1	2			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr3:38739683G>T	ENST00000449082.2	-	27	5027	c.5028C>A	c.(5026-5028)ccC>ccA	p.P1676P		NM_006514.2	NP_006505.2	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha subunit	1676					AV node cell to bundle of His cell communication (GO:0086067)|bundle of His cell to Purkinje myocyte communication (GO:0086069)|membrane depolarization during action potential (GO:0086010)|neuronal action potential (GO:0019228)|regulation of atrial cardiac muscle cell membrane depolarization (GO:0060371)|regulation of cardiac muscle contraction (GO:0055117)|regulation of heart rate (GO:0002027)|regulation of ion transmembrane transport (GO:0034765)|sensory perception (GO:0007600)|sensory perception of pain (GO:0019233)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	C-fiber (GO:0044299)|extracellular vesicular exosome (GO:0070062)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)	p.Y1677fs*21(1)		NS(5)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(14)|kidney(5)|large_intestine(33)|lung(54)|ovary(5)|pancreas(1)|prostate(5)|skin(13)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	150				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cinchocaine(DB00527)|Cocaine(DB00907)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Lacosamide(DB06218)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Orphenadrine(DB01173)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)|Valproic Acid(DB00313)	GGTCACAGTAGGGGGGCCCTG	0.592																																																1	Deletion - Frameshift(1)	pancreas(1)											70	74	72					3																	38739683		2203	4300	6503	SO:0001819	synonymous_variant	6336			AF117907	CCDS33736.1	3p22.2	2012-02-26	2007-01-23		ENSG00000185313	ENSG00000185313		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10582	protein-coding gene	gene with protein product		604427	"sodium channel, voltage-gated, type X, alpha polypeptide"			9839820, 10198179, 16382098	Standard	NM_006514		Approved	Nav1.8, hPN3, SNS, PN3	uc003ciq.3	Q9Y5Y9	OTTHUMG00000048245	ENST00000449082.2:c.5028C>A	3.37:g.38739683G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NDQ1	Silent	SNP	ENST00000449082.2	37	CCDS33736.1																																																																																				0.592	SCN10A-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109745.3	NM_006514		T	38739683	G	T	38739683	2	4	638	1	0	0	0	0	0	0	0	1	13925	987	35	4		4	SCN10A	3	38739683	Silent	SNP	G	TCGA-KL-8339-01A-11D-2310-10	10976394	38739683	159282747	15	39352										
PRSS45	29122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	46784475	46784475	+	Intron	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	agggggacaactggggggaaGaaggacttcttgtaatgccg	17	6	1	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr3:46784475G>T	ENST00000460241.1	-	4	1129				PRSS45_ENST00000442359.2_Missense_Mutation_p.F127L			Q9UI38	TSP50_HUMAN	protease, serine, 50						proteolysis (GO:0006508)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)	serine-type endopeptidase activity (GO:0004252)|threonine-type endopeptidase activity (GO:0004298)			endometrium(2)|kidney(2)|large_intestine(1)|lung(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	11						CTGGGGGGAAGAAGGACTTCT	0.532																																					Pancreas(41;915 1239 11561 17469)											0													71	78	75					3																	46784475		2069	4212	6281	SO:0001627	intron_variant	377047			AF100707	CCDS2745.1	3p21.31	2011-05-24			ENSG00000206549	ENSG00000206549		"Serine peptidases / Serine peptidases"	17910	protein-coding gene	gene with protein product	"cancer/testis antigen 20", "testes specific protease 50"	607950				10397268	Standard	NM_013270		Approved	TSP50, CT20	uc003cqe.1	Q9UI38	OTTHUMG00000164067	ENST00000460241.1:c.541+5639C>A	3.37:g.46784475G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000460241.1	37	CCDS2745.1	.	.	.	.	.	.	.	.	.	.	G	6.913	0.538018	0.13188	.	.	ENSG00000188086	ENST00000331814;ENST00000442359	D	0.88431	-2.38	4.82	0.879	0.19155	.	2.205680	0.01770	N	0.031130	T	0.77177	0.4092	.	.	.	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.65561	-0.6138	9	0.10111	T	0.7	.	4.9752	0.14136	0.1879:0.3344:0.4777:0.0	.	127	Q7RTY3-2	.	L	159;127	ENSP00000401932:F127L	ENSP00000330940:F159L	F	-	3	2	PRSS45	46759479	0.000000	0.05858	0.000000	0.03702	0.075000	0.17131	0.091000	0.15046	0.304000	0.22809	0.655000	0.94253	TTC		0.532	PRSS50-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354544.1			T	46784475	G	T	46784475	1	4	638	0	1	0	0	0	0	0	0	0	12639	933	33	4		4	PRSS45	3	46784475	Intron	SNP	G	TCGA-KL-8339-01A-11D-2310-10	8044792	46784475	151237955	16	39353										
AMIGO3	29925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr3	49755708	49755708	+	3'UTR	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	gcgaacaggtagagcagcacGagcacaaggcccacggcaca	13	13	0	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr3:49755708G>A	ENST00000480687.1	-	0	4676				AMIGO3_ENST00000320431.7_Silent_p.L397L|RNF123_ENST00000497099.1_Intron|AMIGO3_ENST00000535833.1_Silent_p.L397L|RNF123_ENST00000433785.1_Intron|RNF123_ENST00000327697.6_Intron			Q9Y5P6	GMPPB_HUMAN	GDP-mannose pyrophosphorylase B						cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|GDP-mannose biosynthetic process (GO:0009298)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	GTP binding (GO:0005525)|mannose-1-phosphate guanylyltransferase activity (GO:0004475)			endometrium(1)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		AGAGCAGCACGAGCACAAGGC	0.682																																																0													51	51	51					3																	49755708		2203	4300	6503	SO:0001624	3_prime_UTR_variant	386724			AF135421	CCDS2802.1, CCDS2803.1	3p21.31	2008-02-05			ENSG00000173540	ENSG00000173540	2.7.7.22		22932	protein-coding gene	gene with protein product		615320					Standard	NM_013334		Approved	KIAA1851	uc003cxl.1	Q9Y5P6	OTTHUMG00000158151	ENST00000480687.1:c.*3477C>T	3.37:g.49755708G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6N5|Q9H7U3	Silent	SNP	ENST00000480687.1	37	CCDS2803.1																																																																																				0.682	GMPPB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350291.1	NM_013334		A	49755708	G	A	49755708	1	1	638	0	1	0	0	0	0	0	0	0	577	1045	37	1		1	AMIGO3	3	49755708	3'UTR	SNP	G	TCGA-KL-8339-01A-11D-2310-10	2971233	49755708	148266722	17	39354										
SPCS1	28972	mdanderson.org	37	chr3	52741725	52741725	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	gacacttcctccatggcccaTctatcgccggcatcctctca	6	18	2	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr3:52741725T>C	ENST00000602728.1	+	4	375	c.206T>C	c.(205-207)aTc>aCc	p.I69T	GLT8D1_ENST00000478968.2_5'Flank|GLT8D1_ENST00000266014.5_5'Flank|SPCS1_ENST00000423431.1_Missense_Mutation_p.I47T|SPCS1_ENST00000233025.7_Missense_Mutation_p.I136T|GLT8D1_ENST00000491606.1_5'Flank|GLT8D1_ENST00000407584.3_5'Flank			Q9Y6A9	SPCS1_HUMAN	signal peptidase complex subunit 1 homolog (S. cerevisiae)	69					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|proteolysis (GO:0006508)|regulation of insulin secretion (GO:0050796)|signal peptide processing (GO:0006465)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)	endoplasmic reticulum membrane (GO:0005789)|integral component of endoplasmic reticulum membrane (GO:0030176)|signal peptidase complex (GO:0005787)	peptidase activity (GO:0008233)			kidney(2)|large_intestine(1)|lung(1)|ovary(1)|prostate(1)	6				BRCA - Breast invasive adenocarcinoma(193;6.51e-05)|Kidney(197;0.000583)|KIRC - Kidney renal clear cell carcinoma(197;0.000751)|OV - Ovarian serous cystadenocarcinoma(275;0.0469)		CCATGGCCCATCTATCGCCGG	0.403																																																0													102	105	104					3																	52741725		2203	4300	6503	SO:0001583	missense	28972			AF092138	CCDS33769.2	3p21.31	2005-01-05			ENSG00000114902	ENSG00000114902			23401	protein-coding gene	gene with protein product		610358				8632014	Standard	NM_014041		Approved	SPC12, HSPC033, YJR010C-A, SPC1	uc011bei.2	Q9Y6A9	OTTHUMG00000154930	ENST00000602728.1:c.206T>C	3.37:g.52741725T>C	ENSP00000473265:p.Ile69Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KNF8|Q9BVW1	Missense_Mutation	SNP	ENST00000602728.1	37		.	.	.	.	.	.	.	.	.	.	T	24.7	4.561854	0.86335	.	.	ENSG00000114902	ENST00000423431;ENST00000233025	T;T	0.80653	-1.4;-1.4	5.57	5.57	0.84162	.	0.042790	0.85682	D	0.000000	D	0.85057	0.5610	L	0.58510	1.815	0.46478	D	0.999061	P	0.52692	0.955	P	0.54759	0.76	D	0.86672	0.1911	10	0.72032	D	0.01	-36.8309	15.7316	0.77810	0.0:0.0:0.0:1.0	.	136	Q9Y6A9	SPCS1_HUMAN	T	47;136	ENSP00000391610:I47T;ENSP00000233025:I136T	ENSP00000233025:I136T	I	+	2	0	SPCS1	52716765	1.000000	0.71417	1.000000	0.80357	0.939000	0.58152	7.169000	0.77578	2.109000	0.64355	0.482000	0.46254	ATC		0.403	SPCS1-006	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000467759.1	NM_014041		C	52741725	T	C	52741725	3	2	638	1	0	0	0	0	1	0	0	0	15035	1435	50	3	421	3	SPCS1	3	52741725	Missense_Mutation	SNP	T	TCGA-KL-8339-01A-11D-2310-10	2986017	52741725	145280705	18	39355										
PDZRN3	23024	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr3	73657758	73657758	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	aattaacataccacactcggCcggccaccaataatattgaa	5	12	0	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr3:73657758C>G	ENST00000263666.4	-	2	915	c.801G>C	c.(799-801)cgG>cgC	p.R267R	PDZRN3_ENST00000308537.4_Silent_p.R267R	NM_015009.1	NP_055824.1	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	267	PDZ 1. {ECO:0000255|PROSITE- ProRule:PRU00143}.				neuromuscular junction development (GO:0007528)|protein ubiquitination (GO:0016567)	neuromuscular junction (GO:0031594)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(13)|lung(31)|ovary(4)|pancreas(2)|prostate(2)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	69		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		CCACACTCGGCCGGCCACCAA	0.473																																																0													52	53	53					3																	73657758		2203	4300	6503	SO:0001819	synonymous_variant	23024			AB029018	CCDS33789.1	3p14.1	2013-01-09	2008-08-14		ENSG00000121440	ENSG00000121440		"RING-type (C3HC4) zinc fingers"	17704	protein-coding gene	gene with protein product	"likely ortholog of mouse semaF cytoplasmic domain associated protein 3"	609729				10470851	Standard	XM_005264718		Approved	KIAA1095, SEMACAP3, LNX3	uc003dpl.1	Q9UPQ7	OTTHUMG00000158865	ENST00000263666.4:c.801G>C	3.37:g.73657758C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A7MCZ6|Q8N2N7|Q96CC2|Q9NSQ2	Silent	SNP	ENST00000263666.4	37	CCDS33789.1																																																																																				0.473	PDZRN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352460.1	XM_041363		G	73657758	C	G	73657758	2	3	638	1	0	0	0	0	0	0	0	1	11716	726	26	4		4	PDZRN3	3	73657758	Silent	SNP	C	TCGA-KL-8339-01A-11D-2310-10	20916033	73657758	124364672	19	39356										
ROBO1	6091	hgsc.bcm.edu;ucsc.edu	37	chr3	78735005	78735005	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	acattagtaattgtgaggtcGccagtctgggagactgaaaa	12	6	1	3	rs80267939	byFrequency	TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr3:78735005G>A	ENST00000464233.1	-	10	1346	c.1233C>T	c.(1231-1233)ggC>ggT	p.G411G	ROBO1_ENST00000467549.1_Silent_p.G375G|ROBO1_ENST00000436010.2_Silent_p.G372G|ROBO1_ENST00000495273.1_Silent_p.G375G	NM_002941.3	NP_002932.1	Q9Y6N7	ROBO1_HUMAN	roundabout, axon guidance receptor, homolog 1 (Drosophila)	411	Ig-like C2-type 4.				activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|axon guidance (GO:0007411)|axon midline choice point recognition (GO:0016199)|cell adhesion (GO:0007155)|cell migration involved in sprouting angiogenesis (GO:0002042)|chemorepulsion involved in postnatal olfactory bulb interneuron migration (GO:0021836)|homophilic cell adhesion (GO:0007156)|mammary duct terminal end bud growth (GO:0060763)|negative regulation of chemokine-mediated signaling pathway (GO:0070100)|negative regulation of mammary gland epithelial cell proliferation (GO:0033600)|negative regulation of negative chemotaxis (GO:0050925)|nervous system development (GO:0007399)|positive regulation of axonogenesis (GO:0050772)|Roundabout signaling pathway (GO:0035385)	axolemma (GO:0030673)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	axon guidance receptor activity (GO:0008046)|identical protein binding (GO:0042802)|LRR domain binding (GO:0030275)			breast(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(2)|lung(25)|urinary_tract(1)	44		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		TTGTGAGGTCGCCAGTCTGGG	0.408													G|||	9	0.00179712	0.0061	0.0014	5008	,	,		16783	0.0		0.0	False		,,,				2504	0.0															0								G	,,	9,3839		0,9,1915	59	59	59		1125,1233,1125	-4.1	1	3	dbSNP_132	59	1,8215		0,1,4107	no	coding-synonymous,coding-synonymous,coding-synonymous	ROBO1	NM_001145845.1,NM_002941.3,NM_133631.3	,,	0,10,6022	AA,AG,GG		0.0122,0.2339,0.0829	,,	375/1552,411/1652,375/1607	78735005	10,12054	1924	4108	6032	SO:0001819	synonymous_variant	6091			AF040990	CCDS46872.1, CCDS46872.2, CCDS54610.1, CCDS54611.1	3p12.3	2013-02-11	2001-11-28		ENSG00000169855	ENSG00000169855		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	10249	protein-coding gene	gene with protein product		602430	"roundabout (axon guidance receptor, Drosophila) homolog 1"			9458045, 9608531	Standard	NM_002941		Approved	DUTT1, FLJ21882, SAX3	uc003dqe.2	Q9Y6N7	OTTHUMG00000158843	ENST00000464233.1:c.1233C>T	3.37:g.78735005G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RXI1|D3DU36|E9PD49|Q1RMC7|Q7Z300|Q9BUS7	Silent	SNP	ENST00000464233.1	37	CCDS54611.1																																																																																				0.408	ROBO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352610.1	NM_002941		A	78735005	G	A	78735005	2	1	638	1	0	0	0	0	0	0	0	1	13526	1074	38	1		1	ROBO1	3	78735005	Silent	SNP	G	TCGA-KL-8339-01A-11D-2310-10	5077247	78735005	119287425	20	39357										
PLXND1	23129	broad.mit.edu	37	chr3	129290413	129290414	+	Frame_Shift_Ins	INS	-	-	C													0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ctgcaccatgtggaaacgctINScaccagccactgtgatggtc							TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr3:129290413_129290414insC	ENST00000324093.4	-	17	3452_3453	c.3274_3275insG	c.(3274-3276)gagfs	p.E1092fs	PLXND1_ENST00000393239.1_Frame_Shift_Ins_p.E1092fs	NM_015103.2	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1	1092	IPT/TIG 3.				angiogenesis (GO:0001525)|axon guidance (GO:0007411)|dichotomous subdivision of terminal units involved in salivary gland branching (GO:0060666)|endothelial cell migration (GO:0043542)|outflow tract morphogenesis (GO:0003151)|patterning of blood vessels (GO:0001569)|positive regulation of protein binding (GO:0032092)|regulation of angiogenesis (GO:0045765)|regulation of cell migration (GO:0030334)|semaphorin-plexin signaling pathway (GO:0071526)|synapse assembly (GO:0007416)	integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)	protein domain specific binding (GO:0019904)|semaphorin receptor activity (GO:0017154)		PLXND1/TMCC1(4)	NS(1)|breast(1)|endometrium(4)|kidney(5)|large_intestine(17)|lung(28)|prostate(10)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	72						GTGGAAACGCTCACCAGCCACT	0.658																																					Ovarian(97;366 1484 3738 22084 39045)											0																																										SO:0001589	frameshift_variant	23129			AY116661	CCDS33854.1	3q21.3	2007-05-16			ENSG00000004399	ENSG00000004399		"Plexins"	9107	protein-coding gene	gene with protein product		604282				12412018	Standard	NM_015103		Approved	KIAA0620	uc003emx.2	Q9Y4D7	OTTHUMG00000159547	ENST00000324093.4:c.3275dupG	3.37:g.129290414_129290414dupC	ENSP00000317128:p.Glu1092fs	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2C6|C9JPZ6|Q6PJS9|Q8IZJ2|Q9BTQ2	Frame_Shift_Ins	INS	ENST00000324093.4	37	CCDS33854.1																																																																																				0.658	PLXND1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356132.4	NM_015103		C	129290414	-	C	129290413	7	5	638	1	0	1	1	0	0	0	0	0	12134	1551	54	0	2582	0	PLXND1	3	129290413	Frame_Shift_Ins	INS	-	TCGA-KL-8339-01A-11D-2310-10	50555408	129290413	68732017	21	39358										
COL6A5	256076	mdanderson.org	37	chr3	130113788	130113788	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tgcgatggctctgacagggtAtctaattcagattttgtaac	10	7	3	2			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr3:130113788A>G	ENST00000432398.2	+	8	3542	c.3048A>G	c.(3046-3048)gtA>gtG	p.V1016V	COL6A5_ENST00000265379.6_Silent_p.V1016V	NM_153264.5	NP_694996.5	A8TX70	CO6A5_HUMAN	collagen, type VI, alpha 5	1016	Nonhelical region.|VWFA 6. {ECO:0000255|PROSITE- ProRule:PRU00219}.				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)				endometrium(6)|kidney(4)|large_intestine(8)|lung(19)|pancreas(2)|prostate(3)|stomach(1)|urinary_tract(1)	44						CTGACAGGGTATCTAATTCAG	0.348																																																0													85	72	76					3																	130113788		692	1591	2283	SO:0001819	synonymous_variant	256076			AK093199		3q21.3	2013-01-16	2010-05-24	2010-05-24	ENSG00000172752	ENSG00000172752		"Collagens"	26674	protein-coding gene	gene with protein product	"von Willebrand factor A domain containing 4"	611916	"collagen, type XXIX, alpha 1"	COL29A1		17850181	Standard	NM_153264		Approved	FLJ35880, VWA4	uc010htk.2	A8TX70	OTTHUMG00000159712	ENST00000432398.2:c.3048A>G	3.37:g.130113788A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A9J6L2|A9J6L4|A9J6L6|A9J6L7|A9J6M0|A9J6M1|A9J6M2|B5MEA7|Q6ZW26|Q8NA36	Silent	SNP	ENST00000432398.2	37																																																																																					0.348	COL6A5-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_153264		G	130113788	A	G	130113788	2	3	638	1	0	0	0	0	0	0	0	1	3704	436	16	3		3	COL6A5	3	130113788	Silent	SNP	A	TCGA-KL-8339-01A-11D-2310-10	823375	130113788	67908642	22	39359										
FAM194A	131831	broad.mit.edu	37	chr3	150421548	150421548	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tcctcctcctcctccacctcTtcctcctcctcctccacctc	0	26	1	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr3:150421548T>C	ENST00000295910.6	-	1	190	c.138A>G	c.(136-138)gaA>gaG	p.E46E	RP11-103G8.2_ENST00000475393.1_RNA|RP11-103G8.2_ENST00000471093.1_RNA|FAM194A_ENST00000491361.1_Intron	NM_152394.3	NP_689607.2												p.E46E(1)		NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(3)|kidney(1)|large_intestine(10)|lung(14)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	38						cctccacctcttcctcctcct	0.607																																																1	Substitution - coding silent(1)	endometrium(1)											121	108	112					3																	150421548		2202	4300	6502	SO:0001819	synonymous_variant	131831																														ENST00000295910.6:c.138A>G	3.37:g.150421548T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000295910.6	37	CCDS3151.2																																																																																				0.607	FAM194A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257666.1			C	150421548	T	C	150421548	2	2	638	1	0	0	0	0	0	0	0	1	5530	1606	56	3		3	FAM194A	3	150421548	Silent	SNP	T	TCGA-KL-8339-01A-11D-2310-10	20307760	150421548	47600882	23	39360										
SI	6476	bcgsc.ca	37	chr3	164776870	164776870	+	Splice_Site	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	acctatggaaattgcagggtCctaataatagaaagcagaaa	9	6	0	2			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr3:164776870C>A	ENST00000264382.3	-	12	1341	c.1279G>T	c.(1279-1281)Gac>Tac	p.D427Y		NM_001041.3	NP_001032.2	P14410	SUIS_HUMAN	sucrase-isomaltase (alpha-glucosidase)	427	Isomaltase.				carbohydrate metabolic process (GO:0005975)|polysaccharide digestion (GO:0044245)|small molecule metabolic process (GO:0044281)	brush border (GO:0005903)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	alpha-1,4-glucosidase activity (GO:0004558)|carbohydrate binding (GO:0030246)|oligo-1,6-glucosidase activity (GO:0004574)|sucrose alpha-glucosidase activity (GO:0004575)			NS(4)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(6)|kidney(10)|large_intestine(18)|lung(124)|ovary(9)|pancreas(1)|prostate(6)|skin(6)|upper_aerodigestive_tract(16)|urinary_tract(1)	218		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)|Scopolamine(DB00747)	ATTGCAGGGTCCTAATAATAG	0.358										HNSCC(35;0.089)																																						0													81	72	75					3																	164776870		2203	4299	6502	SO:0001630	splice_region_variant	6476			X63597	CCDS3196.1	3q25.2-q26.2	2004-04-06	2004-04-06		ENSG00000090402	ENSG00000090402	3.2.1.10		10856	protein-coding gene	gene with protein product	"Oligosaccharide alpha-1,6-glucosidase"	609845	"sucrase-isomaltase"			2962903, 1353958	Standard	NM_001041		Approved		uc003fei.3	P14410	OTTHUMG00000158065	ENST00000264382.3:c.1279-1G>T	3.37:g.164776870C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2RUC3|Q1JQ80|Q1RMC2	Missense_Mutation	SNP	ENST00000264382.3	37	CCDS3196.1	.	.	.	.	.	.	.	.	.	.	C	19.94	3.920302	0.73098	.	.	ENSG00000090402	ENST00000264382	D	0.92752	-3.1	5.57	5.57	0.84162	Glycoside hydrolase, superfamily (1);	0.000000	0.85682	D	0.000000	D	0.98160	0.9392	H	0.99545	4.62	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.99709	1.1006	10	0.87932	D	0	.	18.5358	0.91010	0.0:1.0:0.0:0.0	.	427	P14410	SUIS_HUMAN	Y	427	ENSP00000264382:D427Y	ENSP00000264382:D427Y	D	-	1	0	SI	166259564	1.000000	0.71417	1.000000	0.80357	0.539000	0.34962	5.184000	0.65070	2.612000	0.88384	0.650000	0.86243	GAC		0.358	SI-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350116.1	NM_001041	Missense_Mutation	A	164776870	C	A	164776870	5	1	638	1	0	0	0	0	0	0	1	0	14310	869	30	4	4352	4	SI	3	164776870	Splice_Site	SNP	C	TCGA-KL-8339-01A-11D-2310-10	14355322	164776870	33245560	24	39361										
HTRA3	94031	mdanderson.org	37	chr4	8294059	8294059	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	cccttgcagtacgggaactcCgggggaccactggtgaacct	13	13	0	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr4:8294059C>T	ENST00000307358.2	+	5	1119	c.915C>T	c.(913-915)tcC>tcT	p.S305S	HTRA3_ENST00000382512.3_Silent_p.S305S	NM_053044.3	NP_444272.1	P83110	HTRA3_HUMAN	HtrA serine peptidase 3	305	Serine protease.				negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|proteolysis (GO:0006508)|regulation of cell growth (GO:0001558)	extracellular region (GO:0005576)	endopeptidase activity (GO:0004175)|serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(2)|liver(1)|lung(6)|ovary(2)|prostate(1)|urinary_tract(1)	18						ACGGGAACTCCGGGGGACCAC	0.582																																																0													99	86	90					4																	8294059		2203	4300	6503	SO:0001819	synonymous_variant	94031			AY040094	CCDS3400.1, CCDS75105.1	4p16.1	2008-02-05			ENSG00000170801	ENSG00000170801			30406	protein-coding gene	gene with protein product	"pregnancy-related serine protease"	608785				12513693, 14500695	Standard	XM_005248040		Approved	Tasp, Prsp	uc003gla.3	P83110	OTTHUMG00000090561	ENST00000307358.2:c.915C>T	4.37:g.8294059C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z7A2	Silent	SNP	ENST00000307358.2	37	CCDS3400.1																																																																																				0.582	HTRA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092669.1	NM_053044		T	8294059	C	T	8294059	2	4	638	1	0	0	0	0	0	0	0	1	7462	639	23	1		1	HTRA3	4	8294059	Silent	SNP	C	TCGA-KL-8339-01A-11D-2310-10		8294059	182860217	25	39362										
KCTD8	386617	broad.mit.edu	37	chr4	44177044	44177044	+	Frame_Shift_Del	DEL	T	T	-													0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ggtatccattgtacaggtgcTtttttagaggggcgatccaa							TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr4:44177044delT	ENST00000360029.3	-	2	1468	c.1185delA	c.(1183-1185)aaafs	p.K395fs		NM_198353.2	NP_938167.1	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerization domain containing 8	395					protein homooligomerization (GO:0051260)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)	cell junction (GO:0030054)|postsynaptic membrane (GO:0045211)|receptor complex (GO:0043235)				central_nervous_system(3)|endometrium(4)|kidney(2)|large_intestine(5)|lung(19)|ovary(1)|prostate(3)|upper_aerodigestive_tract(4)	41						GTACAGGTGCTTTTTTAGAGG	0.502										HNSCC(17;0.042)																																						0													173	176	175					4																	44177044		2203	4300	6503	SO:0001589	frameshift_variant	386617			AK123347	CCDS3467.1	4p13	2013-06-20	2013-06-20		ENSG00000183783	ENSG00000183783			22394	protein-coding gene	gene with protein product			"potassium channel tetramerisation domain containing 8"				Standard	NM_198353		Approved		uc003gwu.3	Q6ZWB6	OTTHUMG00000099409	ENST00000360029.3:c.1185delA	4.37:g.44177044delT	ENSP00000353129:p.Lys395fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU39	Frame_Shift_Del	DEL	ENST00000360029.3	37	CCDS3467.1																																																																																				0.502	KCTD8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216868.1			-	44177044	T	-	44177044	7	5	638	1	0	1	0	1	0	0	0	0	8122	1606	56	0	240	0	KCTD8	4	44177044	Frame_Shift_Del	DEL	T	TCGA-KL-8339-01A-11D-2310-10	35882985	44177044	146977232	26	39363										
KCTD8	386617	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr4	44177218	44177218	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ttatcagtgactttgtcatgTttcctatcttcatgttcttg	6	8	5	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr4:44177218T>G	ENST00000360029.3	-	2	1294	c.1011A>C	c.(1009-1011)aaA>aaC	p.K337N		NM_198353.2	NP_938167.1	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerization domain containing 8	337					protein homooligomerization (GO:0051260)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)	cell junction (GO:0030054)|postsynaptic membrane (GO:0045211)|receptor complex (GO:0043235)				central_nervous_system(3)|endometrium(4)|kidney(2)|large_intestine(5)|lung(19)|ovary(1)|prostate(3)|upper_aerodigestive_tract(4)	41						CTTTGTCATGTTTCCTATCTT	0.408										HNSCC(17;0.042)																																						0													119	112	115					4																	44177218		2203	4300	6503	SO:0001583	missense	386617			AK123347	CCDS3467.1	4p13	2013-06-20	2013-06-20		ENSG00000183783	ENSG00000183783			22394	protein-coding gene	gene with protein product			"potassium channel tetramerisation domain containing 8"				Standard	NM_198353		Approved		uc003gwu.3	Q6ZWB6	OTTHUMG00000099409	ENST00000360029.3:c.1011A>C	4.37:g.44177218T>G	ENSP00000353129:p.Lys337Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU39	Missense_Mutation	SNP	ENST00000360029.3	37	CCDS3467.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	15.27|15.27	2.783160|2.783160	0.49891|0.49891	.|.	.|.	ENSG00000183783|ENSG00000183783	ENST00000360029|ENST00000515268	T|.	0.39997|.	1.05|.	4.65|4.65	1.02|1.02	0.19986|0.19986	.|.	0.000000|.	0.51477|.	D|.	0.000081|.	T|T	0.31482|0.31482	0.0798|0.0798	N|N	0.19112|0.19112	0.55|0.55	0.32695|0.32695	N|N	0.513629|0.513629	B|.	0.10296|.	0.003|.	B|.	0.06405|.	0.002|.	T|T	0.39840|0.39840	-0.9594|-0.9594	10|5	0.66056|.	D|.	0.02|.	.|.	7.0943|7.0943	0.25301|0.25301	0.0:0.3611:0.0:0.6389|0.0:0.3611:0.0:0.6389	.|.	337|.	Q6ZWB6|.	KCTD8_HUMAN|.	N|T	337|73	ENSP00000353129:K337N|.	ENSP00000353129:K337N|.	K|N	-|-	3|2	2|0	KCTD8|KCTD8	43871975|43871975	0.996000|0.996000	0.38824|0.38824	0.917000|0.917000	0.36280|0.36280	0.937000|0.937000	0.57800|0.57800	0.277000|0.277000	0.18734|0.18734	0.388000|0.388000	0.25054|0.25054	0.477000|0.477000	0.44152|0.44152	AAA|AAC		0.408	KCTD8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216868.1			G	44177218	T	G	44177218	3	3	638	1	0	0	0	0	1	0	0	0	8122	1722	60	5	414	5	KCTD8	4	44177218	Missense_Mutation	SNP	T	TCGA-KL-8339-01A-11D-2310-10	174	44177218	146977058	27	39364										
CLOCK	9575	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	56319289	56319289	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tcgtctttcagccctaacttCtgcataactacaaatggaaa	5	11	3	0	rs1056478		TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr4:56319289C>A	ENST00000309964.4	-	14	1388	c.1138G>T	c.(1138-1140)Gaa>Taa	p.E380*	CLOCK_ENST00000513440.1_Nonsense_Mutation_p.E380*|CLOCK_ENST00000381322.1_Nonsense_Mutation_p.E380*	NM_004898.3	NP_004889.1	O15516	CLOCK_HUMAN	clock circadian regulator	380	Interaction with NR3C1. {ECO:0000250|UniProtKB:O08785}.		E -> K (in dbSNP:rs1056478).		cellular response to ionizing radiation (GO:0071479)|chromatin organization (GO:0006325)|circadian regulation of gene expression (GO:0032922)|circadian rhythm (GO:0007623)|DNA damage checkpoint (GO:0000077)|histone acetylation (GO:0016573)|negative regulation of glucocorticoid receptor signaling pathway (GO:2000323)|negative regulation of transcription, DNA-templated (GO:0045892)|photoperiodism (GO:0009648)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|regulation of hair cycle (GO:0042634)|regulation of insulin secretion (GO:0050796)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|regulation of type B pancreatic cell development (GO:2000074)|response to redox state (GO:0051775)|signal transduction (GO:0007165)|spermatogenesis (GO:0007283)	chromatoid body (GO:0033391)|chromosome (GO:0005694)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin DNA binding (GO:0031490)|core promoter binding (GO:0001047)|DNA binding (GO:0003677)|E-box binding (GO:0070888)|histone acetyltransferase activity (GO:0004402)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity (GO:0000982)|RNA polymerase II transcription factor binding transcription factor activity involved in positive regulation of transcription (GO:0001190)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(4)|kidney(5)|large_intestine(9)|lung(8)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	38	Lung NSC(11;0.00335)|Glioma(25;0.08)|all_epithelial(27;0.0992)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(4;1.62e-07)|Lung(4;1.34e-06)|Epithelial(7;0.0107)			GCCCTAACTTCTGCATAACTA	0.338																																																0													78	75	76					4																	56319289		2203	4300	6503	SO:0001587	stop_gained	9575			AF011568	CCDS3500.1	4q12	2012-12-07	2012-12-07		ENSG00000134852	ENSG00000134852		"Chromatin-modifying enzymes / K-acetyltransferases", "Basic helix-loop-helix proteins"	2082	protein-coding gene	gene with protein product		601851	"clock (mouse) homolog", "clock homolog (mouse)"			10198158	Standard	NM_001267843		Approved	KIAA0334, KAT13D, bHLHe8	uc003hba.2	O15516	OTTHUMG00000102141	ENST00000309964.4:c.1138G>T	4.37:g.56319289C>A	ENSP00000308741:p.Glu380*	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV01|A2I2N9|O14516|Q9UIT8	Nonsense_Mutation	SNP	ENST00000309964.4	37	CCDS3500.1	.	.	.	.	.	.	.	.	.	.	C	43	10.219861	0.99362	.	.	ENSG00000134852	ENST00000309964;ENST00000381322;ENST00000513440	.	.	.	5.69	5.69	0.88448	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.72032	D	0.01	.	19.423	0.94729	0.0:1.0:0.0:0.0	.	.	.	.	X	380	.	ENSP00000308741:E380X	E	-	1	0	CLOCK	56014046	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	5.653000	0.67967	2.680000	0.91292	0.650000	0.86243	GAA		0.338	CLOCK-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361993.2	NM_004898		A	56319289	C	A	56319289	4	1	638	1	0	0	0	0	0	1	0	0	3551	922	32	4	1438	4	CLOCK	4	56319289	Nonsense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	12142071	56319289	134834987	28	39365										
FSTL5	56884	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	162697068	162697068	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	atctacaagtccattactgtCtgcatcaaaatatttaaaca	3	9	3	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr4:162697068C>T	ENST00000306100.5	-	5	1004	c.568G>A	c.(568-570)Gac>Aac	p.D190N	FSTL5_ENST00000536695.1_Missense_Mutation_p.D189N|FSTL5_ENST00000427802.2_Missense_Mutation_p.D189N|FSTL5_ENST00000379164.4_Missense_Mutation_p.D189N	NM_001128427.2|NM_020116.4	NP_001121899.1|NP_064501.2	Q8N475	FSTL5_HUMAN	follistatin-like 5	190	EF-hand 1. {ECO:0000255|PROSITE- ProRule:PRU00448}.					extracellular region (GO:0005576)	calcium ion binding (GO:0005509)			central_nervous_system(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(18)|lung(43)|ovary(4)|pancreas(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)	91	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		CCATTACTGTCTGCATCAAAA	0.289																																																0													89	93	91					4																	162697068		2203	4294	6497	SO:0001583	missense	56884			BC036502	CCDS3802.1, CCDS47157.1, CCDS47158.1	4q32.3	2013-01-11			ENSG00000168843	ENSG00000168843		"EF-hand domain containing", "Immunoglobulin superfamily / I-set domain containing"	21386	protein-coding gene	gene with protein product						10574462, 15527507	Standard	NM_020116		Approved	DKFZp566D234, KIAA1263	uc003iqh.4	Q8N475	OTTHUMG00000161397	ENST00000306100.5:c.568G>A	4.37:g.162697068C>T	ENSP00000305334:p.Asp190Asn	Somatic		WXS	Illumina HiSeq	Phase_I	E9PCP6|Q9NSW7|Q9ULF7	Missense_Mutation	SNP	ENST00000306100.5	37	CCDS3802.1	.	.	.	.	.	.	.	.	.	.	C	14.07	2.425985	0.43020	.	.	ENSG00000168843	ENST00000306100;ENST00000379164;ENST00000427802;ENST00000536695	T;T;T;T	0.20598	2.06;2.06;2.06;2.06	5.3	5.3	0.74995	EF-hand-like domain (1);	0.050469	0.85682	D	0.000000	T	0.22975	0.0555	L	0.56124	1.755	0.58432	D	0.999999	B;B;B	0.25390	0.125;0.11;0.125	B;B;B	0.27262	0.028;0.078;0.056	T	0.06445	-1.0826	10	0.10111	T	0.7	.	18.3021	0.90167	0.0:1.0:0.0:0.0	.	189;189;190	E9PCP6;F8VZ90;Q8N475	.;.;FSTL5_HUMAN	N	190;189;189;189	ENSP00000305334:D190N;ENSP00000368462:D189N;ENSP00000389270:D189N;ENSP00000440409:D189N	ENSP00000305334:D190N	D	-	1	0	FSTL5	162916518	0.997000	0.39634	1.000000	0.80357	0.996000	0.88848	3.313000	0.51935	2.625000	0.88918	0.650000	0.86243	GAC		0.289	FSTL5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000364773.2	NM_020116		T	162697068	C	T	162697068	3	4	638	1	0	0	0	0	1	0	0	0	6087	913	32	2	2023	2	FSTL5	4	162697068	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	106377779	162697068	28457208	29	39366										
SDHA	6389	mdanderson.org	37	chr5	236642	236642	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	atggtgccaaccgcctcgggGcaaactcgctcttggacctg	12	14	1	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr5:236642G>A	ENST00000264932.6	+	10	1475	c.1360G>A	c.(1360-1362)Gca>Aca	p.A454T	SDHA_ENST00000504309.1_Missense_Mutation_p.A454T|SDHA_ENST00000510361.1_Missense_Mutation_p.A406T	NM_004168.2	NP_004159.2	P31040	SDHA_HUMAN	succinate dehydrogenase complex, subunit A, flavoprotein (Fp)	454					cellular metabolic process (GO:0044237)|nervous system development (GO:0007399)|oxidation-reduction process (GO:0055114)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)|succinate metabolic process (GO:0006105)|tricarboxylic acid cycle (GO:0006099)	mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain complex II (GO:0005749)|mitochondrion (GO:0005739)	flavin adenine dinucleotide binding (GO:0050660)|succinate dehydrogenase (ubiquinone) activity (GO:0008177)			NS(1)|breast(1)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(6)|liver(2)|lung(16)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	40			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	CCGCCTCGGGGCAAACTCGCT	0.602									Familial Paragangliomas																																							0													89	80	83					5																	236642		2203	4300	6503	SO:0001583	missense	6389	Familial Cancer Database	Hereditary Glomus Tumors, Familial Paragangliomas, Hereditary Paragangliomas, type 1-3: PGL1, PGL2, PGL3, incl. Familial Carotid Body Paraganglioma and Sensorineural Hearing Loss	BC001380	CCDS3853.1	5p15	2014-09-17			ENSG00000073578	ENSG00000073578		"Mitochondrial respiratory chain complex / Complex II"	10680	protein-coding gene	gene with protein product		600857		SDH2		7798181	Standard	XM_005248329		Approved	FP, SDHF	uc003jao.4	P31040	OTTHUMG00000090275	ENST00000264932.6:c.1360G>A	5.37:g.236642G>A	ENSP00000264932:p.Ala454Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5J6|B4DJ60|E9PBJ5|Q16395|Q59GW8|Q8IW48|Q9UMY5	Missense_Mutation	SNP	ENST00000264932.6	37	CCDS3853.1	.	.	.	.	.	.	.	.	.	.	g	17.49	3.402253	0.62288	.	.	ENSG00000073578	ENST00000264932;ENST00000327872;ENST00000504309;ENST00000510361	T;T;T	0.70749	-0.51;-0.51;-0.51	5.01	5.01	0.66863	Fumarate reductase/succinate dehydrogenase flavoprotein, N-terminal (1);	0.136629	0.48767	U	0.000166	T	0.76681	0.4021	L	0.43598	1.365	0.80722	D	1	D;B;D;D;P	0.89917	0.998;0.361;1.0;1.0;0.762	D;B;D;D;P	0.97110	0.992;0.368;1.0;0.982;0.495	T	0.77032	-0.2738	10	0.56958	D	0.05	.	9.7585	0.40517	0.0953:0.0:0.9047:0.0	.	406;454;48;454;454	E9PBJ5;B4DYN5;B3KYA5;D6RFM5;P31040	.;.;.;.;DHSA_HUMAN	T	454;309;454;406	ENSP00000264932:A454T;ENSP00000426514:A454T;ENSP00000427703:A406T	ENSP00000264932:A454T	A	+	1	0	SDHA	289642	1.000000	0.71417	0.995000	0.50966	0.042000	0.13812	9.454000	0.97621	2.483000	0.83821	0.650000	0.86243	GCA		0.602	SDHA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206599.1	NM_004168		A	236642	G	A	236642	3	1	638	1	0	0	0	0	1	0	0	0	13976	1203	42	2	1398	2	SDHA	5	236642	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10		236642	180678618	30	39367										
CMYA5	202333	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	79039710	79039710	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ccttgaggattgaagcctttGttagtgagatagaatccttt	10	6	0	4			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr5:79039710G>A	ENST00000446378.2	+	3	10730	c.10699G>A	c.(10699-10701)Gtt>Att	p.V3567I		NM_153610.3	NP_705838.3	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3567	B-box coiled-coil; BBC.				negative regulation of calcineurin-NFAT signaling cascade (GO:0070885)|negative regulation of protein phosphatase type 2B activity (GO:0032513)|regulation of skeletal muscle adaptation (GO:0014733)	costamere (GO:0043034)				NS(2)|breast(4)|central_nervous_system(1)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(37)|lung(34)|ovary(6)|pancreas(2)|prostate(5)|skin(5)|stomach(11)|upper_aerodigestive_tract(3)|urinary_tract(1)	128		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)		TGAAGCCTTTGTTAGTGAGAT	0.318																																																0													88	80	83					5																	79039710		1801	4060	5861	SO:0001583	missense	202333			AW755254, AL831986	CCDS47238.1	5q14.1	2013-02-11			ENSG00000164309	ENSG00000164309		"Tripartite motif containing / Tripartite motif containing", "A-kinase anchor proteins", "Fibronectin type III domain containing"	14305	protein-coding gene	gene with protein product	"genethonin-3", "tripartite motif-containing 76"	612193	"chromosome 5 open reading frame 10"	C5orf10		14688250	Standard	NM_153610		Approved	myospryn, SPRYD2, DKFZp451G223, TRIM76	uc003kgc.3	Q8N3K9	OTTHUMG00000162548	ENST00000446378.2:c.10699G>A	5.37:g.79039710G>A	ENSP00000394770:p.Val3567Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJB7|Q05CT4|Q2NKX1|Q2T9G9|Q69YQ8|Q69YQ9|Q6P517|Q6P5U3|Q7Z4I1|Q86T34|Q86T49|Q8N3S4|Q8N3S7|Q8NAG8|Q9UK88	Missense_Mutation	SNP	ENST00000446378.2	37	CCDS47238.1	.	.	.	.	.	.	.	.	.	.	G	24.3	4.519669	0.85495	.	.	ENSG00000164309	ENST00000446378	T	0.27256	1.68	5.58	5.58	0.84498	.	0.000000	0.42294	D	0.000733	T	0.45256	0.1333	L	0.39397	1.21	0.45607	D	0.998549	D	0.76494	0.999	D	0.78314	0.991	T	0.28713	-1.0035	10	0.56958	D	0.05	.	19.5743	0.95436	0.0:0.0:1.0:0.0	.	3567	Q8N3K9	CMYA5_HUMAN	I	3567	ENSP00000394770:V3567I	ENSP00000394770:V3567I	V	+	1	0	CMYA5	79075466	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	6.746000	0.74866	2.611000	0.88343	0.655000	0.94253	GTT		0.318	CMYA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369497.1	NM_153610		A	79039710	G	A	79039710	3	1	638	1	0	0	0	0	1	0	0	0	3592	1377	48	2	10709	2	CMYA5	5	79039710	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10	78803068	79039710	101875550	31	39368										
LOX	4015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	121413160	121413160	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tgtcgtcagagtacttgtagGggttgtaagggtcgtcgccc	15	8	1	1	rs369582946		TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr5:121413160G>A	ENST00000231004.4	-	1	820	c.521C>T	c.(520-522)cCc>cTc	p.P174L	LOX_ENST00000513319.1_5'Flank	NM_001178102.1|NM_002317.5	NP_001171573.1|NP_002308.2	P28300	LYOX_HUMAN	lysyl oxidase	174					blood vessel development (GO:0001568)|cellular protein modification process (GO:0006464)|collagen fibril organization (GO:0030199)|elastic fiber assembly (GO:0048251)|extracellular matrix organization (GO:0030198)|lung development (GO:0030324)|response to drug (GO:0042493)|response to steroid hormone (GO:0048545)|wound healing (GO:0042060)	collagen trimer (GO:0005581)|extracellular region (GO:0005576)|nucleus (GO:0005634)|proteinaceous extracellular matrix (GO:0005578)	copper ion binding (GO:0005507)|protein-lysine 6-oxidase activity (GO:0004720)			endometrium(1)|lung(6)|prostate(1)	8		all_cancers(142;0.0124)|Prostate(80;0.0322)|Ovarian(225;0.0814)|Breast(839;0.143)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;2.14e-11)|OV - Ovarian serous cystadenocarcinoma(64;7.87e-10)|all cancers(49;2.49e-09)|COAD - Colon adenocarcinoma(49;0.02)		GTACTTGTAGGGGTTGTAAGG	0.612																																																0													63	73	70					5																	121413160		2203	4300	6503	SO:0001583	missense	4015				CCDS4129.1	5q23.3-q31.2	2008-02-05			ENSG00000113083	ENSG00000113083	1.4.3.13		6664	protein-coding gene	gene with protein product		153455				1685472	Standard	NM_002317		Approved		uc003ksu.3	P28300	OTTHUMG00000128914	ENST00000231004.4:c.521C>T	5.37:g.121413160G>A	ENSP00000231004:p.Pro174Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5Q3|Q5FWF0	Missense_Mutation	SNP	ENST00000231004.4	37	CCDS4129.1	.	.	.	.	.	.	.	.	.	.	G	22.2	4.254976	0.80135	.	.	ENSG00000113083	ENST00000231004;ENST00000543620	T	0.31247	1.5	4.41	4.41	0.53225	.	0.000000	0.85682	D	0.000000	T	0.44685	0.1305	M	0.65498	2.005	0.80722	D	1	D	0.54047	0.964	P	0.50860	0.652	T	0.53143	-0.8480	10	0.87932	D	0	.	16.6221	0.84933	0.0:0.0:1.0:0.0	.	174	P28300	LYOX_HUMAN	L	174;134	ENSP00000231004:P174L	ENSP00000231004:P174L	P	-	2	0	LOX	121441059	1.000000	0.71417	1.000000	0.80357	0.913000	0.54294	8.810000	0.91950	1.993000	0.58246	0.305000	0.20034	CCC		0.612	LOX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250887.2			A	121413160	G	A	121413160	3	1	638	1	0	0	0	0	1	0	0	0	8905	1232	43	2	760	2	LOX	5	121413160	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10	42373450	121413160	59502100	32	39369										
FSTL4	23105	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	132534972	132534972	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ccagggctgagctggccctgCgggtggctcctttaagttct	14	12	1	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr5:132534972C>A	ENST00000265342.7	-	16	2593	c.2344G>T	c.(2344-2346)Gca>Tca	p.A782S	CTB-49A3.2_ENST00000509051.1_RNA	NM_015082.1	NP_055897.1	Q6MZW2	FSTL4_HUMAN	follistatin-like 4	782						extracellular region (GO:0005576)	calcium ion binding (GO:0005509)			autonomic_ganglia(1)|breast(2)|central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(4)|lung(8)|skin(2)|upper_aerodigestive_tract(1)	23		all_cancers(142;0.244)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GCTGGCCCTGCGGGTGGCTCC	0.602																																																0													43	43	43					5																	132534972		2203	4300	6503	SO:0001583	missense	23105			AB028984	CCDS34238.1	5q31.1	2013-01-29			ENSG00000053108	ENSG00000053108		"EF-hand domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	21389	protein-coding gene	gene with protein product						10470851, 15527507	Standard	NM_015082		Approved	KIAA1061	uc003kyn.1	Q6MZW2	OTTHUMG00000162729	ENST00000265342.7:c.2344G>T	5.37:g.132534972C>A	ENSP00000265342:p.Ala782Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TBU0|Q9UPU1	Missense_Mutation	SNP	ENST00000265342.7	37	CCDS34238.1	.	.	.	.	.	.	.	.	.	.	T	3.228	-0.158117	0.06544	.	.	ENSG00000053108	ENST00000265342;ENST00000360575	T	0.25579	1.79	4.9	-9.79	0.00494	.	1.566590	0.03671	N	0.243995	T	0.15435	0.0372	L	0.42245	1.32	0.09310	N	1	B;B	0.15141	0.012;0.001	B;B	0.11329	0.006;0.004	T	0.15578	-1.0432	10	0.09590	T	0.72	2.0844	6.6114	0.22753	0.1669:0.5332:0.0789:0.2209	.	782;431	Q6MZW2;B3KPF3	FSTL4_HUMAN;.	S	782;613	ENSP00000265342:A782S	ENSP00000265342:A782S	A	-	1	0	FSTL4	132562871	0.000000	0.05858	0.000000	0.03702	0.039000	0.13416	-1.725000	0.01863	-2.178000	0.00768	-0.352000	0.07741	GCA		0.602	FSTL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370212.1	XM_048786		A	132534972	C	A	132534972	3	1	638	1	0	0	0	0	1	0	0	0	6086	768	27	4	188	4	FSTL4	5	132534972	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	11121812	132534972	48380288	33	39370										
NEUROG1	4762	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	134871070	134871070	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ccgcgttcaagttgtgcatgCggttgcgctcgcgatcgttg	14	11	1	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr5:134871070C>A	ENST00000314744.4	-	1	569	c.311G>T	c.(310-312)cGc>cTc	p.R104L		NM_006161.2	NP_006152.2	Q92886	NGN1_HUMAN	neurogenin 1	104	bHLH. {ECO:0000255|PROSITE- ProRule:PRU00981}.				cell fate commitment (GO:0045165)|inner ear morphogenesis (GO:0042472)|nervous system development (GO:0007399)|neuron differentiation (GO:0030182)|positive regulation of exit from mitosis (GO:0031536)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|perikaryon (GO:0043204)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|E-box binding (GO:0070888)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding transcription factor activity (GO:0000989)			endometrium(1)|liver(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GTTGTGCATGCGGTTGCGCTC	0.711																																																0													37	38	38					5																	134871070		2203	4299	6502	SO:0001583	missense	4762			U63842	CCDS4187.1	5q23-q31	2013-05-21			ENSG00000181965	ENSG00000181965		"Basic helix-loop-helix proteins"	7764	protein-coding gene	gene with protein product	"neurogenic differentiation 3"	601726		NEUROD3		9119405	Standard	NM_006161		Approved	AKA, Math4C, ngn1, bHLHa6	uc003lax.3	Q92886	OTTHUMG00000129138	ENST00000314744.4:c.311G>T	5.37:g.134871070C>A	ENSP00000317580:p.Arg104Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5U0Q9|Q96HE1	Missense_Mutation	SNP	ENST00000314744.4	37	CCDS4187.1	.	.	.	.	.	.	.	.	.	.	c	27.3	4.818538	0.90790	.	.	ENSG00000181965	ENST00000314744	D	0.99709	-6.48	4.74	4.74	0.60224	Helix-loop-helix DNA-binding (5);	0.000000	0.85682	D	0.000000	D	0.99866	0.9937	H	0.98833	4.345	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.96174	0.9125	10	0.87932	D	0	-2.6733	17.7034	0.88302	0.0:1.0:0.0:0.0	.	104	Q92886	NGN1_HUMAN	L	104	ENSP00000317580:R104L	ENSP00000317580:R104L	R	-	2	0	NEUROG1	134898969	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	7.696000	0.84270	2.166000	0.68216	0.651000	0.88453	CGC		0.711	NEUROG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251192.1	NM_006161		A	134871070	C	A	134871070	3	1	638	1	0	0	0	0	1	0	0	0	10359	768	27	4	406	4	NEUROG1	5	134871070	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	2336098	134871070	46044190	34	39371										
DIAPH1	1729	broad.mit.edu	37	chr5	140907261	140907261	+	Frame_Shift_Del	DEL	G	G	-													0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tcttttgcaagttttcagcaGaaactaaaaaaaaaaaaaaa							TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr5:140907261delG	ENST00000398557.4	-	24	3292	c.3152delC	c.(3151-3153)tctfs	p.S1051fs	DIAPH1_ENST00000253811.6_Frame_Shift_Del_p.S1052fs|DIAPH1_ENST00000398562.2_Frame_Shift_Del_p.S1027fs|DIAPH1_ENST00000494967.1_5'Flank|DIAPH1_ENST00000389057.5_Frame_Shift_Del_p.S1042fs|DIAPH1_ENST00000520569.1_Frame_Shift_Del_p.S994fs|DIAPH1_ENST00000398566.3_Frame_Shift_Del_p.S1043fs|DIAPH1_ENST00000389054.3_Frame_Shift_Del_p.S1048fs|DIAPH1_ENST00000518047.1_Frame_Shift_Del_p.S1039fs	NM_005219.4	NP_005210.3	O60610	DIAP1_HUMAN	diaphanous-related formin 1	1051	FH2. {ECO:0000255|PROSITE- ProRule:PRU00774}.				actin filament polymerization (GO:0030041)|cellular response to histamine (GO:0071420)|cytoskeleton organization (GO:0007010)|positive regulation of cell migration (GO:0030335)|protein localization to microtubule (GO:0035372)|regulation of cell shape (GO:0008360)|regulation of microtubule-based process (GO:0032886)|regulation of release of sequestered calcium ion into cytosol (GO:0051279)|sensory perception of sound (GO:0007605)	cytoplasm (GO:0005737)|mitotic spindle (GO:0072686)|ruffle membrane (GO:0032587)	ion channel binding (GO:0044325)|poly(A) RNA binding (GO:0044822)|receptor binding (GO:0005102)			breast(1)|endometrium(2)|kidney(2)|large_intestine(1)|lung(12)|pancreas(1)|skin(2)|stomach(2)	23			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTTTTCAGCAGAAACTaaaaa	0.358																																																0													46	41	42					5																	140907261		1799	4064	5863	SO:0001589	frameshift_variant	1729			BC007411		5q31	2013-05-24	2013-05-24		ENSG00000131504	ENSG00000131504			2876	protein-coding gene	gene with protein product		602121	"diaphanous (Drosophila, homolog) 1", "diaphanous homolog 1 (Drosophila)"	DFNA1		9360932, 1350680	Standard	NM_005219		Approved	hDIA1, LFHL1	uc003llb.4	O60610	OTTHUMG00000149893	ENST00000398557.4:c.3152delC	5.37:g.140907261delG	ENSP00000381565:p.Ser1051fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF18|B7ZKW2|E9PEZ2|Q17RN4|Q59FH8|Q9UC76	Frame_Shift_Del	DEL	ENST00000398557.4	37	CCDS43374.1																																																																																				0.358	DIAPH1-203	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding		NM_005219		-	140907261	G	-	140907261	7	5	638	1	0	1	0	1	0	0	0	0	4520	942	33	0	686	0	DIAPH1	5	140907261	Frame_Shift_Del	DEL	G	TCGA-KL-8339-01A-11D-2310-10	6036191	140907261	40007999	35	39372										
NR3C1	2908	mdanderson.org	37	chr5	142779662	142779662	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	gtttagtgtccggtaaaatgAgaggcttgcagtcctcattc	11	8	1	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr5:142779662A>G	ENST00000343796.2	-	2	1736	c.743T>C	c.(742-744)cTc>cCc	p.L248P	NR3C1_ENST00000424646.2_Missense_Mutation_p.L248P|NR3C1_ENST00000415690.2_Missense_Mutation_p.L248P|NR3C1_ENST00000394466.2_Missense_Mutation_p.L248P|NR3C1_ENST00000231509.3_Missense_Mutation_p.L248P|NR3C1_ENST00000416954.2_Intron|NR3C1_ENST00000503201.1_Missense_Mutation_p.L248P|NR3C1_ENST00000394464.2_Missense_Mutation_p.L248P|NR3C1_ENST00000504572.1_Missense_Mutation_p.L248P	NM_001018074.1|NM_001018075.1|NM_001018077.1	NP_001018084.1|NP_001018085.1|NP_001018087.1	P04150	GCR_HUMAN	nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor)	248	Modulating.				adrenal gland development (GO:0030325)|chromatin modification (GO:0016568)|gene expression (GO:0010467)|glucocorticoid metabolic process (GO:0008211)|mammary gland duct morphogenesis (GO:0060603)|negative regulation of glucocorticoid mediated signaling pathway (GO:1900170)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of glucocorticoid biosynthetic process (GO:0031946)|regulation of gluconeogenesis (GO:0006111)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrial matrix (GO:0005759)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	glucocorticoid receptor activity (GO:0004883)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|steroid binding (GO:0005496)|zinc ion binding (GO:0008270)			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(10)|lung(7)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	35		Acute lymphoblastic leukemia(2;3.2e-05)|all_hematologic(2;0.000361)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)		Alclometasone(DB00240)|Amcinonide(DB00288)|Beclomethasone(DB00394)|Betamethasone(DB00443)|Budesonide(DB01222)|Ciclesonide(DB01410)|Clobetasol propionate(DB01013)|Clocortolone(DB00838)|Cortisone acetate(DB01380)|Desonide(DB01260)|Desoximetasone(DB00547)|Dexamethasone(DB01234)|Diflorasone(DB00223)|Difluprednate(DB06781)|Fludrocortisone(DB00687)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Fluoxymesterone(DB01185)|Flurandrenolide(DB00846)|Fluticasone furoate(DB08906)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol(DB00873)|Medrysone(DB00253)|Megestrol acetate(DB00351)|Methylprednisolone(DB00959)|Mifepristone(DB00834)|Mometasone(DB00764)|Paramethasone(DB01384)|Prednicarbate(DB01130)|Prednisolone(DB00860)|Prednisone(DB00635)|Rimexolone(DB00896)|Spironolactone(DB00421)|Triamcinolone(DB00620)	CGGTAAAATGAGAGGCTTGCA	0.423																																																0													115	120	118					5																	142779662		2203	4300	6503	SO:0001583	missense	2908			X03225	CCDS4278.1, CCDS34258.1, CCDS47298.1	5q31-q32	2013-01-16	2002-08-27		ENSG00000113580	ENSG00000113580		"Nuclear hormone receptors"	7978	protein-coding gene	gene with protein product		138040	"nuclear receptor subfamily 3, group C, member 1"	GRL		2867473	Standard	NM_001204258		Approved	GR	uc003lnb.3	P04150	OTTHUMG00000129677	ENST00000343796.2:c.743T>C	5.37:g.142779662A>G	ENSP00000343205:p.Leu248Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A0ZXF9|B0LPG8|D3DQF4|P04151|Q53EP5|Q6N0A4	Missense_Mutation	SNP	ENST00000343796.2	37	CCDS4278.1	.	.	.	.	.	.	.	.	.	.	A	10.35	1.326693	0.24080	.	.	ENSG00000113580	ENST00000394464;ENST00000343796;ENST00000361001;ENST00000415690;ENST00000424646;ENST00000504572;ENST00000394466;ENST00000231509;ENST00000503201	T;T;T;T;T;T;T;T	0.32988	1.43;1.43;1.43;1.43;1.43;1.43;1.43;1.43	5.46	4.3	0.51218	.	0.422460	0.26086	N	0.026425	T	0.34193	0.0889	L	0.49455	1.56	0.80722	D	1	B;P;B	0.48589	0.001;0.912;0.002	B;P;B	0.50231	0.01;0.635;0.017	T	0.04454	-1.0950	10	0.34782	T	0.22	.	7.6771	0.28492	0.7903:0.0:0.2097:0.0	.	248;248;248	E5KQF5;P04150;E5KQF6	.;GCR_HUMAN;.	P	248	ENSP00000377977:L248P;ENSP00000343205:L248P;ENSP00000387672:L248P;ENSP00000405282:L248P;ENSP00000422518:L248P;ENSP00000377979:L248P;ENSP00000231509:L248P;ENSP00000427672:L248P	ENSP00000231509:L248P	L	-	2	0	NR3C1	142759855	0.948000	0.32251	0.887000	0.34795	0.995000	0.86356	1.994000	0.40757	0.898000	0.36418	0.528000	0.53228	CTC		0.423	NR3C1-201	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000370829.1			G	142779662	A	G	142779662	3	3	638	1	0	0	0	0	1	0	0	0	10637	304	11	3	1677	3	NR3C1	5	142779662	Missense_Mutation	SNP	A	TCGA-KL-8339-01A-11D-2310-10	1872401	142779662	38135598	36	39373										
TCERG1	10915	mdanderson.org	37	chr5	145838659	145838659	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	gcccaggcccaggcccaggcCcaggcccaggcccaagccca	12	21	0	0	rs111965890		TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr5:145838659C>T	ENST00000296702.5	+	4	689	c.651C>T	c.(649-651)gcC>gcT	p.A217A	TCERG1_ENST00000394421.2_Silent_p.A217A	NM_006706.3	NP_006697.2	O14776	TCRG1_HUMAN	transcription elongation regulator 1	217	Ala/Gln-rich.				negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|RNA polymerase II repressing transcription factor binding (GO:0001103)|RNA polymerase II transcription corepressor activity (GO:0001106)|transcription coactivator activity (GO:0003713)			breast(1)|central_nervous_system(3)|endometrium(5)|kidney(4)|large_intestine(18)|lung(9)|ovary(2)|prostate(3)|skin(1)	46		Lung NSC(249;0.00188)|all_lung(500;0.00307)|all_neural(839;0.0424)|Breast(839;0.0743)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			aggcccaggcccaggcccagg	0.731																																																0													10	14	13					5																	145838659		2185	4266	6451	SO:0001819	synonymous_variant	10915			AF017789	CCDS4282.1, CCDS43379.1	5q31	2010-01-25	2002-01-24	2002-01-25	ENSG00000113649	ENSG00000113649			15630	protein-coding gene	gene with protein product	"transcription factor CA150", "co-activator of 150 kDa", "TATA box binding protein (TBP)-associated factor, RNA polymerase II, S, 150kD", "TATA box-binding protein-associated factor 2S"	605409	"TATA box binding protein (TBP)-associated factor, RNA polymerase II, S, 150kD"	TAF2S		9315662, 11003711	Standard	XM_005268365		Approved	CA150, Urn1	uc003lob.3	O14776	OTTHUMG00000129683	ENST00000296702.5:c.651C>T	5.37:g.145838659C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKN2|Q59EA1	Silent	SNP	ENST00000296702.5	37	CCDS4282.1																																																																																				0.731	TCERG1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251886.1	NM_001040006		T	145838659	C	T	145838659	2	4	638	1	0	0	0	0	0	0	0	1	15697	610	22	2		2	TCERG1	5	145838659	Silent	SNP	C	TCGA-KL-8339-01A-11D-2310-10	3058997	145838659	35076601	37	39374										
HIST1H2BO	8348	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr6	27861260	27861260	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	catgcccgacccggctaaatCtgctcctgcccccaaaaagg	8	17	1	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr6:27861260C>G	ENST00000303806.4	+	1	58	c.20C>G	c.(19-21)tCt>tGt	p.S7C	HIST1H3J_ENST00000479986.1_5'Flank|HIST1H2AM_ENST00000359611.2_5'Flank|HIST1H3J_ENST00000359303.2_5'Flank	NM_003527.4	NP_003518.2	P23527	H2B1O_HUMAN	histone cluster 1, H2bo	7					chromatin organization (GO:0006325)|nucleosome assembly (GO:0006334)	nucleoplasm (GO:0005654)|nucleosome (GO:0000786)|nucleus (GO:0005634)	DNA binding (GO:0003677)										CCGGCTAAATCTGCTCCTGCC	0.498																																																0													51	55	54					6																	27861260		2203	4300	6503	SO:0001583	missense	8348			X57138	CCDS4640.1	6p22.1	2011-01-27	2006-10-11	2003-02-21	ENSG00000196331			"Histones / Replication-dependent"	4758	protein-coding gene	gene with protein product		602808	"H2B histone family, member N", "histone 1, H2bo"	H2BFN		1768865, 12408966	Standard	NM_003527		Approved	H2B/n, H2B.2	uc003nkc.1	P23527	OTTHUMG00000014493	ENST00000303806.4:c.20C>G	6.37:g.27861260C>G	ENSP00000303408:p.Ser7Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q3KPI7|Q8TCV6	Missense_Mutation	SNP	ENST00000303806.4	37	CCDS4640.1	.	.	.	.	.	.	.	.	.	.	C	17.01	3.279650	0.59758	.	.	ENSG00000196331	ENST00000303806	T	0.19105	2.17	3.7	3.7	0.42460	Histone-fold (2);	.	.	.	.	T	0.25344	0.0616	M	0.85859	2.78	0.35931	D	0.832534	D	0.54047	0.964	P	0.45610	0.487	T	0.40979	-0.9534	9	0.87932	D	0	.	15.2409	0.73468	0.0:1.0:0.0:0.0	.	7	P23527	H2B1O_HUMAN	C	7	ENSP00000303408:S7C	ENSP00000303408:S7C	S	+	2	0	HIST1H2BO	27969239	0.988000	0.35896	0.544000	0.28141	0.045000	0.14185	3.909000	0.56363	2.356000	0.79943	0.561000	0.74099	TCT		0.498	HIST1H2BO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040161.1	NM_003527		G	27861260	C	G	27861260	3	3	638	1	0	0	0	0	1	0	0	0	7161	913	32	4	22	4	HIST1H2BO	6	27861260	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10		27861260	143253807	38	39375										
FAM46A	55603	ucsc.edu	37	chr6	82461832	82461832	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	gccagctcgtcctcagacatGgcgaagtacccttcaccctc	8	17	2	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr6:82461832G>A	ENST00000320172.6	-	2	341	c.27C>T	c.(25-27)gcC>gcT	p.A9A	FAM46A_ENST00000369756.3_Silent_p.A90A|FAM46A_ENST00000369754.3_Silent_p.A28A	NM_017633.2	NP_060103.2	Q96IP4	FA46A_HUMAN	family with sequence similarity 46, member A	9					regulation of blood coagulation (GO:0030193)|regulation of gene expression (GO:0010468)		poly(A) RNA binding (GO:0044822)			endometrium(2)|large_intestine(3)|lung(5)|skin(1)|urinary_tract(1)	12		all_cancers(76;6.74e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000282)|all_epithelial(107;0.0104)		BRCA - Breast invasive adenocarcinoma(397;0.0428)		CCTCAGACATGGCGAAGTACC	0.677																																																0													4	5	4					6																	82461832		1640	3652	5292	SO:0001819	synonymous_variant	55603			AF350451	CCDS34489.1	6q14	2008-07-03	2004-08-19	2004-08-26	ENSG00000112773	ENSG00000112773			18345	protein-coding gene	gene with protein product		611357	"chromosome 6 open reading frame 37"	C6orf37		12054608, 17803723	Standard	NM_017633		Approved	FLJ20037	uc003pjg.3	Q96IP4	OTTHUMG00000015097	ENST00000320172.6:c.27C>T	6.37:g.82461832G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7U4|Q5TF86|Q8NFZ9|Q9BW32|Q9NXV5	Silent	SNP	ENST00000320172.6	37	CCDS34489.1																																																																																				0.677	FAM46A-004	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000041331.1			A	82461832	G	A	82461832	2	1	638	1	0	0	0	0	0	0	0	1	5572	1335	47	2		2	FAM46A	6	82461832	Silent	SNP	G	TCGA-KL-8339-01A-11D-2310-10	54600572	82461832	88653235	39	39376										
C6orf192	116843	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	133105219	133105219	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ccccagtccagaaaaagtctCaagacttcccttaaaatgag	6	12	1	3			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr6:133105219C>G	ENST00000275227.4	-	6	607	c.511G>C	c.(511-513)Gag>Cag	p.E171Q	SLC18B1_ENST00000538764.1_Missense_Mutation_p.E45Q|SLC18B1_ENST00000367918.1_Intron	NM_052831.2	NP_439896.1	Q6NT16	S18B1_HUMAN	solute carrier family 18, subfamily B, member 1	171					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)											GAAAAAGTCTCAAGACTTCCC	0.333																																																0													70	75	73					6																	133105219		2203	4300	6503	SO:0001583	missense	116843			AK124442	CCDS5163.1	6q22.3-q23.3	2013-05-22	2012-03-09	2012-03-09	ENSG00000146409	ENSG00000146409		"Solute carriers"	21573	protein-coding gene	gene with protein product		613361	"chromosome 6 open reading frame 192"	C6orf192		19697161	Standard	XM_006715328		Approved	dJ55C23.6	uc003qdw.1	Q6NT16	OTTHUMG00000015595	ENST00000275227.4:c.511G>C	6.37:g.133105219C>G	ENSP00000275227:p.Glu171Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1K3|B3KW77|Q6ISF2	Missense_Mutation	SNP	ENST00000275227.4	37	CCDS5163.1	.	.	.	.	.	.	.	.	.	.	C	20.4	3.982690	0.74474	.	.	ENSG00000146409	ENST00000275227;ENST00000538764	T;T	0.57595	0.39;0.39	5.53	5.53	0.82687	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.000000	0.85682	D	0.000000	T	0.67924	0.2945	M	0.85859	2.78	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.87578	0.998;0.996	T	0.65664	-0.6113	10	0.12766	T	0.61	-13.6973	19.0578	0.93072	0.0:1.0:0.0:0.0	.	45;171	B7Z1S5;Q6NT16	.;CF192_HUMAN	Q	171;45	ENSP00000275227:E171Q;ENSP00000444098:E45Q	ENSP00000275227:E171Q	E	-	1	0	C6orf192	133146912	1.000000	0.71417	1.000000	0.80357	0.553000	0.35397	7.188000	0.77739	2.588000	0.87417	0.655000	0.94253	GAG		0.333	SLC18B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042273.1	NM_052831		G	133105219	C	G	133105219	3	3	638	1	0	0	0	0	1	0	0	0	2351	835	29	4	895	4	C6orf192	6	133105219	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	50643387	133105219	38009848	40	39377										
WBSCR17	64409	broad.mit.edu	37	chr7	70880909	70880909	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	cccctagaggagtatgtccaCaaacgctaccccgggctggt	11	14	0	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr7:70880909C>A	ENST00000333538.5	+	4	1258	c.624C>A	c.(622-624)caC>caA	p.H208Q	WBSCR17_ENST00000498380.2_3'UTR	NM_022479.1	NP_071924.1	Q6IS24	GLTL3_HUMAN	Williams-Beuren syndrome chromosome region 17	208	Catalytic subdomain A.				protein glycosylation (GO:0006486)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			NS(5)|breast(2)|central_nervous_system(1)|endometrium(7)|kidney(7)|large_intestine(22)|lung(45)|ovary(2)|pancreas(2)|prostate(1)|skin(4)|upper_aerodigestive_tract(2)	100		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				AGTATGTCCACAAACGCTACC	0.512																																																0													72	67	68					7																	70880909		2203	4300	6503	SO:0001583	missense	64409			AF410457	CCDS5540.1	7q11.23	2014-03-13			ENSG00000185274	ENSG00000185274		"Glycosyltransferase family 2 domain containing"	16347	protein-coding gene	gene with protein product	"polypeptide N-acetylgalactosaminyltransferase-like 3", "polypeptide GalNAc transferase 3"	615137				12073013, 15744064, 22787146	Standard	NM_022479		Approved	GALNTL3, GalNAc-T5L	uc003tvy.4	Q6IS24	OTTHUMG00000129783	ENST00000333538.5:c.624C>A	7.37:g.70880909C>A	ENSP00000329654:p.His208Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NFV9|Q9NTA8	Missense_Mutation	SNP	ENST00000333538.5	37	CCDS5540.1	.	.	.	.	.	.	.	.	.	.	C	14.64	2.597224	0.46318	.	.	ENSG00000185274	ENST00000333538;ENST00000447516	T;T	0.60040	0.22;2.03	5.17	2.99	0.34606	Glycosyl transferase, family 2 (1);	0.161582	0.53938	N	0.000060	T	0.25754	0.0627	N	0.01522	-0.82	0.39451	D	0.967404	B	0.18310	0.027	B	0.22152	0.038	T	0.08166	-1.0735	10	0.12766	T	0.61	.	9.7602	0.40528	0.0:0.7346:0.1376:0.1277	.	208	Q6IS24	GLTL3_HUMAN	Q	208;186	ENSP00000329654:H208Q;ENSP00000392019:H186Q	ENSP00000329654:H208Q	H	+	3	2	WBSCR17	70518845	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	1.171000	0.31896	1.170000	0.42753	0.563000	0.77884	CAC		0.512	WBSCR17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252006.1	NM_022479		A	70880909	C	A	70880909	3	1	638	1	0	0	0	0	1	0	0	0	17276	477	17	4	638	4	WBSCR17	7	70880909	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10		70880909	88257754	41	39378										
GNB2	2783	mdanderson.org	37	chr7	100276355	100276355	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	gacaaccgcgtgagctgcctCggggtcaccgacgatggcat	14	13	1	1	rs17850902	byFrequency	TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr7:100276355C>T	ENST00000303210.4	+	10	1436	c.954C>T	c.(952-954)ctC>ctT	p.L318L	GNB2_ENST00000424361.1_Silent_p.L274L|GNB2_ENST00000393924.1_Silent_p.L318L|GNB2_ENST00000393926.1_Silent_p.L318L|GNB2_ENST00000427895.1_Silent_p.L218L|GNB2_ENST00000436220.1_Silent_p.L274L|GNB2_ENST00000419828.1_Silent_p.L218L	NM_005273.3	NP_005264.2	P62879	GBB2_HUMAN	guanine nucleotide binding protein (G protein), beta polypeptide 2	318					cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|G-protein coupled receptor signaling pathway (GO:0007186)|GTP catabolic process (GO:0006184)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)	cell body (GO:0044297)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|vesicle (GO:0031982)	calcium channel regulator activity (GO:0005246)|GTPase activity (GO:0003924)|GTPase binding (GO:0051020)|protein complex binding (GO:0032403)|signal transducer activity (GO:0004871)			endometrium(1)|lung(3)|ovary(2)|prostate(1)	7	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)	Ovarian(593;0.238)				TGAGCTGCCTCGGGGTCACCG	0.652													C|||	17	0.00339457	0.0008	0.0029	5008	,	,		16180	0.001		0.005	False		,,,				2504	0.0082															0								C		7,4399		0,7,2196	60	63	62		954	-6	0.9	7	dbSNP_123	62	76,8524		0,76,4224	no	coding-synonymous	GNB2	NM_005273.3		0,83,6420	TT,TC,CC		0.8837,0.1589,0.6382		318/341	100276355	83,12923	2203	4300	6503	SO:0001819	synonymous_variant	2783			M16514	CCDS5703.1	7q21.3-q22.1	2013-01-10			ENSG00000172354	ENSG00000172354		"WD repeat domain containing"	4398	protein-coding gene	gene with protein product	"G protein, beta-2 subunit", "guanine nucleotide-binding protein G(I)/G(S)/G(T) beta subunit 2", "signal-transducing guanine nucleotide-binding regulatory protein beta subunit", "transducin beta chain 2"	139390				9799793	Standard	NM_005273		Approved		uc003uwb.3	P62879	OTTHUMG00000137419	ENST00000303210.4:c.954C>T	7.37:g.100276355C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KPU1|P11016|P54312	Silent	SNP	ENST00000303210.4	37	CCDS5703.1																																																																																				0.652	GNB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268391.2	NM_005273		T	100276355	C	T	100276355	2	4	638	1	0	0	0	0	0	0	0	1	6524	871	31	1		1	GNB2	7	100276355	Silent	SNP	C	TCGA-KL-8339-01A-11D-2310-10	29395446	100276355	58862308	42	39379										
ASB15	142685	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	123254584	123254584	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ctaatgatgaccctgatgaaGaccatcttacaagttatgat	7	8	1	6			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr7:123254584G>C	ENST00000451558.1	+	6	549	c.28G>C	c.(28-30)Gac>Cac	p.D10H	RP11-390E23.3_ENST00000422401.1_RNA|ASB15_ENST00000540573.1_Missense_Mutation_p.D10H|RP11-390E23.3_ENST00000418409.1_RNA|RP11-390E23.3_ENST00000440504.1_RNA|ASB15_ENST00000451215.1_Missense_Mutation_p.D10H|ASB15_ENST00000434204.1_Missense_Mutation_p.D10H|ASB15_ENST00000275699.3_Missense_Mutation_p.D10H			Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box containing 15	10					intracellular signal transduction (GO:0035556)|protein ubiquitination (GO:0016567)					breast(1)|kidney(1)|large_intestine(1)|lung(6)|skin(3)	12						CCCTGATGAAGACCATCTTAC	0.358																																																0													207	209	209					7																	123254584		2203	4300	6503	SO:0001583	missense	142685			AF403033	CCDS34742.1	7q31.31	2013-01-10	2011-01-25		ENSG00000146809	ENSG00000146809		"Ankyrin repeat domain containing"	19767	protein-coding gene	gene with protein product			"ankyrin repeat and SOCS box-containing 15"			12076535	Standard	XM_005250149		Approved	FLJ43370	uc003vkw.1	Q8WXK1	OTTHUMG00000157114	ENST00000451558.1:c.28G>C	7.37:g.123254584G>C	ENSP00000397655:p.Asp10His	Somatic		WXS	Illumina HiSeq	Phase_I	Q3ZCP3|Q3ZCP5|Q68D37	Missense_Mutation	SNP	ENST00000451558.1	37	CCDS34742.1	.	.	.	.	.	.	.	.	.	.	G	25.6	4.659785	0.88154	.	.	ENSG00000146809	ENST00000451558;ENST00000434204;ENST00000437535;ENST00000451215;ENST00000540573;ENST00000447789;ENST00000275699	T;T;T;T;T;T;T	0.73789	-0.71;-0.71;0.18;-0.71;-0.71;-0.78;-0.71	6.04	6.04	0.98038	.	0.000000	0.64402	D	0.000002	D	0.85448	0.5699	M	0.65498	2.005	0.58432	D	0.999999	D	0.76494	0.999	D	0.68039	0.955	D	0.84706	0.0731	10	0.56958	D	0.05	-26.6264	20.1899	0.98228	0.0:0.0:1.0:0.0	.	10	Q8WXK1	ASB15_HUMAN	H	10	ENSP00000397655:D10H;ENSP00000390963:D10H;ENSP00000406163:D10H;ENSP00000416433:D10H;ENSP00000438643:D10H;ENSP00000401166:D10H;ENSP00000275699:D10H	ENSP00000275699:D10H	D	+	1	0	ASB15	123041820	1.000000	0.71417	1.000000	0.80357	0.971000	0.66376	7.723000	0.84788	2.873000	0.98535	0.563000	0.77884	GAC		0.358	ASB15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347493.1			C	123254584	G	C	123254584	3	2	638	1	0	0	0	0	1	0	0	0	1019	942	33	4	30	4	ASB15	7	123254584	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10	22978229	123254584	35884079	43	39380										
ARHGEF5	7984	broad.mit.edu	37	chr7	144062428	144062428	+	Frame_Shift_Del	DEL	T	T	-													0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tcaagactggacagtcccccTccctgcctctgctggacgca							TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr7:144062428delT	ENST00000056217.5	+	2	2840	c.2666delT	c.(2665-2667)ctcfs	p.L889fs	ARHGEF5_ENST00000471847.2_5'Flank	NM_005435.3	NP_005426.2	Q12774	ARHG5_HUMAN	Rho guanine nucleotide exchange factor (GEF) 5	889					actin cytoskeleton organization (GO:0030036)|intracellular signal transduction (GO:0035556)|myeloid dendritic cell chemotaxis (GO:0002408)|positive regulation of podosome assembly (GO:0071803)|regulation of Rho GTPase activity (GO:0032319)		GTP binding (GO:0005525)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)	p.L889P(1)		breast(1)|endometrium(6)|kidney(8)|large_intestine(9)|liver(1)|lung(8)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	40	Melanoma(164;0.14)					ACAGTCCCCCTCCCTGCCTCT	0.597																																																1	Substitution - Missense(1)	large_intestine(1)											12	14	13					7																	144062428		2011	4057	6068	SO:0001589	frameshift_variant	7984			U02082	CCDS34771.1	7q35	2012-09-20			ENSG00000050327	ENSG00000050327		"Rho guanine nucleotide exchange factors"	13209	protein-coding gene	gene with protein product	"transforming immortalized mammary oncogene", "guanine nucleotide regulatory protein TIM"	600888				8134109, 7656213	Standard	NM_005435		Approved	TIM, TIM1, GEF5, P60	uc003wel.3	Q12774	OTTHUMG00000158004	ENST00000056217.5:c.2666delT	7.37:g.144062428delT	ENSP00000056217:p.Leu889fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNJ2|Q6ZML7	Frame_Shift_Del	DEL	ENST00000056217.5	37	CCDS34771.1																																																																																				0.597	ARHGEF5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349981.1	NM_005435		-	144062428	T	-	144062428	7	5	638	1	0	1	0	1	0	0	0	0	909	1551	54	0	2668	0	ARHGEF5	7	144062428	Frame_Shift_Del	DEL	T	TCGA-KL-8339-01A-11D-2310-10	20807844	144062428	15076235	44	39381										
MTMR9	66036	broad.mit.edu	37	chr8	11162509	11162509	+	Frame_Shift_Del	DEL	A	A	-													0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	cagtactaagctattaccacAaaaaaaatgggatggtaagt							TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr8:11162509delA	ENST00000221086.3	+	4	1050	c.577delA	c.(577-579)aaafs	p.K194fs	MTMR9_ENST00000526292.1_Frame_Shift_Del_p.K109fs	NM_015458.3	NP_056273.2	Q96QG7	MTMR9_HUMAN	myotubularin related protein 9	194	Myotubularin phosphatase. {ECO:0000255|PROSITE-ProRule:PRU00669}.			K -> R (in Ref. 2; BAA91170). {ECO:0000305}.		cytoplasm (GO:0005737)	enzyme regulator activity (GO:0030234)|phosphatase activity (GO:0016791)			cervix(1)|endometrium(3)|kidney(2)|large_intestine(2)|lung(4)|ovary(1)|skin(1)|urinary_tract(2)	16			STAD - Stomach adenocarcinoma(15;0.215)	COAD - Colon adenocarcinoma(149;0.0678)		CTATTACCACAAAAAAAATGG	0.453																																																0													97	82	87					8																	11162509		2203	4300	6503	SO:0001589	frameshift_variant	66036			AJ297823	CCDS5979.1	8p23-p22	2011-06-09	2002-09-05	2002-09-06	ENSG00000104643	ENSG00000104643		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	14596	protein-coding gene	gene with protein product		606260	"myotubularin related protein 8"	C8orf9, MTMR8		11472061, 11896452, 12890864	Standard	NM_015458		Approved	DKFZp434K171, LIP-STYX	uc003wtm.3	Q96QG7	OTTHUMG00000090647	ENST00000221086.3:c.577delA	8.37:g.11162509delA	ENSP00000221086:p.Lys194fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z291|Q52LU3|Q8WW11|Q96QG6|Q9NX50	Frame_Shift_Del	DEL	ENST00000221086.3	37	CCDS5979.1																																																																																				0.453	MTMR9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207307.2	NM_015458		-	11162509	A	-	11162509	7	5	638	1	0	1	0	1	0	0	0	0	9957	131	5	0	591	0	MTMR9	8	11162509	Frame_Shift_Del	DEL	A	TCGA-KL-8339-01A-11D-2310-10		11162509	135201513	45	39382										
CPNE3	8895	broad.mit.edu	37	chr8	87558847	87558847	+	Frame_Shift_Del	DEL	A	A	-													0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	aatttgaatgcataaatgagAaaaaaaggcaaaagaaaaaa							TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr8:87558847delA	ENST00000521271.1	+	10	919	c.757delA	c.(757-759)aaafs	p.K254fs	CPNE3_ENST00000198765.4_Frame_Shift_Del_p.K254fs	NM_003909.3	NP_003900.1	O75131	CPNE3_HUMAN	copine III	254					lipid metabolic process (GO:0006629)|protein phosphorylation (GO:0006468)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	calcium-dependent phospholipid binding (GO:0005544)|poly(A) RNA binding (GO:0044822)|protein serine/threonine kinase activity (GO:0004674)|transporter activity (GO:0005215)			NS(1)|breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(6)|ovary(1)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	23						CATAAATGAGAAAAAAAGGCA	0.308																																																0													90	104	99					8																	87558847		2203	4300	6503	SO:0001589	frameshift_variant	8895			AB014536	CCDS6243.1	8q21	2008-07-03				ENSG00000085719			2316	protein-coding gene	gene with protein product		604207				9430674	Standard	NM_003909		Approved		uc003ydv.2	O75131		ENST00000521271.1:c.757delA	8.37:g.87558847delA	ENSP00000430934:p.Lys254fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA47|Q8IYA1	Frame_Shift_Del	DEL	ENST00000521271.1	37	CCDS6243.1																																																																																				0.308	CPNE3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374994.1			-	87558847	A	-	87558847	7	5	638	1	0	1	0	1	0	0	0	0	3815	247	9	0	787	0	CPNE3	8	87558847	Frame_Shift_Del	DEL	A	TCGA-KL-8339-01A-11D-2310-10	76396338	87558847	58805175	46	39383										
KCNQ3	3786	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr8	133141626	133141626	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tctgtgtccgtctcaccctcGgcgaggtaccgcttctccct	9	17	3	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr8:133141626G>A	ENST00000388996.4	-	15	2922	c.2502C>T	c.(2500-2502)gcC>gcT	p.A834A	KCNQ3_ENST00000521134.1_Silent_p.A714A|KCNQ3_ENST00000519445.1_Silent_p.A822A	NM_004519.3	NP_004510.1	O43525	KCNQ3_HUMAN	potassium voltage-gated channel, KQT-like subfamily, member 3	834					axon guidance (GO:0007411)|membrane hyperpolarization (GO:0060081)|potassium ion transport (GO:0006813)|synaptic transmission (GO:0007268)	axon initial segment (GO:0043194)|node of Ranvier (GO:0033268)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|potassium channel activity (GO:0005267)|voltage-gated potassium channel activity (GO:0005249)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(21)|lung(22)|ovary(2)|pancreas(1)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	70	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)		Amitriptyline(DB00321)|Diclofenac(DB00586)|Ezogabine(DB04953)|Meclofenamic acid(DB00939)	TCTCACCCTCGGCGAGGTACC	0.592																																																0													77	67	70					8																	133141626		2203	4300	6503	SO:0001819	synonymous_variant	3786			AB208890	CCDS34943.1, CCDS56554.1	8q24	2012-07-05			ENSG00000184156	ENSG00000184156		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6297	protein-coding gene	gene with protein product		602232		EBN2		9425900, 16382104	Standard	NM_004519		Approved	Kv7.3	uc003ytj.3	O43525	OTTHUMG00000137472	ENST00000388996.4:c.2502C>T	8.37:g.133141626G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2VCT8|B4DJY4|E7EQ89	Silent	SNP	ENST00000388996.4	37	CCDS34943.1																																																																																				0.592	KCNQ3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268621.2	NM_004519		A	133141626	G	A	133141626	2	1	638	1	0	0	0	0	0	0	0	1	8091	1103	39	1		1	KCNQ3	8	133141626	Silent	SNP	G	TCGA-KL-8339-01A-11D-2310-10	45582779	133141626	13222396	47	39384										
PHF20L1	51105	broad.mit.edu;mdanderson.org	37	chr8	133851655	133851655	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	agaggtggagtgcaaaatatCgttatgataaggagtggttg	15	2	0	2	rs371605549		TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr8:133851655C>T	ENST00000395386.2	+	18	2514	c.2215C>T	c.(2215-2217)Cgt>Tgt	p.R739C	AF230666.2_ENST00000608375.1_RNA|AF230666.2_ENST00000429151.1_RNA|PHF20L1_ENST00000220847.7_Missense_Mutation_p.R126C|PHF20L1_ENST00000395390.2_Missense_Mutation_p.R714C	NM_016018.4	NP_057102.4	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1	739							zinc ion binding (GO:0008270)			breast(1)|endometrium(1)|large_intestine(1)|lung(10)|ovary(2)	15	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)			TGCAAAATATCGTTATGATAA	0.368																																																0								C	CYS/ARG	0,3774		0,0,1887	135	129	131		2215	5.4	0.9	8		131	1,8249		0,1,4124	no	missense	PHF20L1	NM_016018.4	180	0,1,6011	TT,TC,CC		0.0121,0.0,0.0083	possibly-damaging	739/1018	133851655	1,12023	1887	4125	6012	SO:0001583	missense	51105			AF230666	CCDS6367.2, CCDS6368.1, CCDS75791.1	8q24.22	2014-03-24			ENSG00000129292	ENSG00000129292		"Tudor domain containing", "Zinc fingers, PHD-type"	24280	protein-coding gene	gene with protein product	"tudor domain containing 20B"					10810093, 24492612	Standard	NM_016018		Approved	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B	uc003ytt.3	A8MW92	OTTHUMG00000148656	ENST00000395386.2:c.2215C>T	8.37:g.133851655C>T	ENSP00000378784:p.Arg739Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8MZC9|Q86U89|Q86W43|Q96BT0|Q9H702|Q9HBK3|Q9NYR3|Q9Y381	Missense_Mutation	SNP	ENST00000395386.2	37	CCDS6367.2	.	.	.	.	.	.	.	.	.	.	C	18.44	3.624173	0.66901	0.0	1.21E-4	ENSG00000129292	ENST00000395386;ENST00000220847;ENST00000395390	T;T	0.32023	1.47;1.47	5.41	5.41	0.78517	Zinc finger, FYVE/PHD-type (1);	0.405112	0.24003	U	0.042449	T	0.42268	0.1195	L	0.54323	1.7	0.58432	D	0.999992	D;D	0.64830	0.994;0.99	P;B	0.50049	0.629;0.425	T	0.35176	-0.9799	10	0.66056	D	0.02	-30.1161	18.1918	0.89809	0.0:1.0:0.0:0.0	.	714;739	F8W9L8;A8MW92	.;P20L1_HUMAN	C	739;126;714	ENSP00000378784:R739C;ENSP00000378788:R714C	ENSP00000220847:R126C	R	+	1	0	PHF20L1	133920837	1.000000	0.71417	0.945000	0.38365	0.976000	0.68499	4.465000	0.60141	2.552000	0.86080	0.655000	0.94253	CGT		0.368	PHF20L1-008	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000308949.3	NM_016018		T	133851655	C	T	133851655	3	4	638	1	0	0	0	0	1	0	0	0	11839	884	31	1	2377	1	PHF20L1	8	133851655	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	710029	133851655	12512367	48	39385										
COL22A1	169044	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr8	139674282	139674282	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tctgtacttacgtcccggccGgctgggccctgggggccagg	16	14	1	0	rs368271751		TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr8:139674282G>A	ENST00000303045.6	-	43	3677	c.3231C>T	c.(3229-3231)gcC>gcT	p.A1077A	COL22A1_ENST00000341807.4_5'UTR|COL22A1_ENST00000435777.1_Silent_p.A1057A	NM_152888.1	NP_690848.1	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1077	Collagen-like 9.|Gly-rich.|Pro-rich.				extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)				breast(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(14)|large_intestine(29)|lung(107)|ovary(13)|pancreas(1)|prostate(3)|skin(12)|upper_aerodigestive_tract(15)|urinary_tract(4)	211	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)			CGTCCCGGCCGGCTGGGCCCT	0.542										HNSCC(7;0.00092)																																						0								G		0,4406		0,0,2203	106	95	99		3231	-2.6	1	8		99	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	COL22A1	NM_152888.1		0,1,6502	AA,AG,GG		0.0116,0.0,0.0077		1077/1627	139674282	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	169044			AF406780	CCDS6376.1	8q24.3	2013-01-16			ENSG00000169436	ENSG00000169436		"Collagens"	22989	protein-coding gene	gene with protein product		610026					Standard	NM_152888		Approved		uc003yvd.3	Q8NFW1	OTTHUMG00000150035	ENST00000303045.6:c.3231C>T	8.37:g.139674282G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZMH0|C9K0G4|Q8IVT9	Silent	SNP	ENST00000303045.6	37	CCDS6376.1																																																																																				0.542	COL22A1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000315905.2	XM_291257		A	139674282	G	A	139674282	2	1	638	1	0	0	0	0	0	0	0	1	3683	1103	39	1		1	COL22A1	8	139674282	Silent	SNP	G	TCGA-KL-8339-01A-11D-2310-10	5822627	139674282	6689740	49	39386										
GNA14	9630	broad.mit.edu	37	chr9	80049325	80049325	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tggtactccctcctcctgtcGtaacactcctggatgcctgg	9	15	0	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr9:80049325G>A	ENST00000341700.6	-	3	936	c.423C>T	c.(421-423)taC>taT	p.Y141Y	GNA14_ENST00000464095.1_5'Flank	NM_004297.3	NP_004288.1	O95837	GNA14_HUMAN	guanine nucleotide binding protein (G protein), alpha 14	141					adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|blood coagulation (GO:0007596)|phospholipase C-activating dopamine receptor signaling pathway (GO:0060158)|platelet activation (GO:0030168)|signal transduction (GO:0007165)	extracellular vesicular exosome (GO:0070062)|heterotrimeric G-protein complex (GO:0005834)|plasma membrane (GO:0005886)	G-protein beta/gamma-subunit complex binding (GO:0031683)|G-protein coupled receptor binding (GO:0001664)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|metal ion binding (GO:0046872)|signal transducer activity (GO:0004871)			endometrium(3)|kidney(1)|large_intestine(7)|lung(4)|ovary(2)|prostate(1)|skin(4)|urinary_tract(2)	24						TCCTCCTGTCGTAACACTCCT	0.582											OREG0019263	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													120	93	102					9																	80049325		2203	4300	6503	SO:0001819	synonymous_variant	9630			AF105201	CCDS6657.1	9q21	2008-05-23			ENSG00000156049	ENSG00000156049			4382	protein-coding gene	gene with protein product		604397				10191087, 17620339	Standard	NM_004297		Approved		uc004aku.3	O95837	OTTHUMG00000020058	ENST00000341700.6:c.423C>T	9.37:g.80049325G>A		Somatic	1195	WXS	Illumina HiSeq	Phase_I	B1ALW3	Silent	SNP	ENST00000341700.6	37	CCDS6657.1																																																																																				0.582	GNA14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052759.1			A	80049325	G	A	80049325	2	1	638	1	0	0	0	0	0	0	0	1	6509	1140	40	1		1	GNA14	9	80049325	Silent	SNP	G	TCGA-KL-8339-01A-11D-2310-10		80049325	61164106	50	39387										
HEMGN	55363	broad.mit.edu;mdanderson.org	37	chr9	100693400	100693400	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tttctccactatttccttttCtatctgtggctgaggctcca	6	12	3	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr9:100693400C>T	ENST00000259456.3	-	4	420	c.277G>A	c.(277-279)Gaa>Aaa	p.E93K		NM_018437.3|NM_197978.2	NP_060907.2|NP_932095.1	Q9BXL5	HEMGN_HUMAN	hemogen	93					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)	nucleus (GO:0005634)				NS(1)|kidney(2)|large_intestine(5)|lung(15)|ovary(1)|skin(2)|urinary_tract(1)	27		Acute lymphoblastic leukemia(62;0.0559)				ATTTCCTTTTCTATCTGTGGC	0.443																																																0													154	146	149					9																	100693400		2203	4300	6503	SO:0001583	missense	55363			AF228713	CCDS6731.1	9q22.33	2014-01-21			ENSG00000136929	ENSG00000136929			17509	protein-coding gene	gene with protein product		610715					Standard	NM_018437		Approved	EDAG, CT155, NDR	uc004axy.4	Q9BXL5	OTTHUMG00000020336	ENST00000259456.3:c.277G>A	9.37:g.100693400C>T	ENSP00000259456:p.Glu93Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6XAR3|Q86XY5|Q9NPC0	Missense_Mutation	SNP	ENST00000259456.3	37	CCDS6731.1	.	.	.	.	.	.	.	.	.	.	C	10.06	1.248041	0.22880	.	.	ENSG00000136929	ENST00000375112;ENST00000259456	.	.	.	4.84	1.5	0.22942	.	0.604415	0.17410	N	0.175222	T	0.18923	0.0454	N	0.19112	0.55	0.09310	N	1	B	0.26602	0.154	B	0.23716	0.048	T	0.15263	-1.0443	9	0.26408	T	0.33	-4.9581	5.7006	0.17881	0.0:0.5751:0.0:0.4249	.	93	Q9BXL5	HEMGN_HUMAN	K	93	.	ENSP00000259456:E93K	E	-	1	0	HEMGN	99733221	0.855000	0.29742	0.267000	0.24556	0.773000	0.43773	0.103000	0.15292	0.533000	0.28675	0.591000	0.81541	GAA		0.443	HEMGN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053344.2	NM_197978		T	100693400	C	T	100693400	3	4	638	1	0	0	0	0	1	0	0	0	7057	922	32	2	1185	2	HEMGN	9	100693400	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	20644075	100693400	40520031	51	39388										
FUBP3	8939	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	133507382	133507382	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	aaacatggctgccaaggtgaAtgggaacccccacagcaccc	10	14	0	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr9:133507382A>G	ENST00000319725.9	+	15	1481	c.1406A>G	c.(1405-1407)aAt>aGt	p.N469S		NM_003934.1	NP_003925.1	Q96I24	FUBP3_HUMAN	far upstream element (FUSE) binding protein 3	469					positive regulation of gene expression (GO:0010628)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			NS(1)|endometrium(3)|kidney(2)|large_intestine(1)|lung(10)|ovary(2)|urinary_tract(2)	21				OV - Ovarian serous cystadenocarcinoma(145;0.000279)		GCCAAGGTGAATGGGAACCCC	0.552																																																0													99	104	103					9																	133507382		1953	4139	6092	SO:0001583	missense	8939			U69127	CCDS43893.1	9q34.11	2008-02-05			ENSG00000107164	ENSG00000107164			4005	protein-coding gene	gene with protein product		603536		FBP3		8940189	Standard	NM_003934		Approved		uc004bzr.1	Q96I24	OTTHUMG00000020809	ENST00000319725.9:c.1406A>G	9.37:g.133507382A>G	ENSP00000318177:p.Asn469Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A3KFK8|A3KFL0|Q92946|Q9BVB6	Missense_Mutation	SNP	ENST00000319725.9	37	CCDS43893.1	.	.	.	.	.	.	.	.	.	.	A	7.924	0.739134	0.15642	.	.	ENSG00000107164	ENST00000319725	T	0.43294	0.95	4.57	4.57	0.56435	.	0.354853	0.28151	N	0.016416	T	0.25827	0.0629	N	0.22421	0.69	0.80722	D	1	B;B	0.06786	0.001;0.001	B;B	0.06405	0.002;0.002	T	0.07046	-1.0793	10	0.11485	T	0.65	-7.3958	10.6122	0.45429	1.0:0.0:0.0:0.0	.	469;469	A3KFK8;Q96I24	.;FUBP3_HUMAN	S	469	ENSP00000318177:N469S	ENSP00000318177:N469S	N	+	2	0	FUBP3	132497203	0.974000	0.33945	0.953000	0.39169	0.746000	0.42486	2.155000	0.42301	1.814000	0.52955	0.459000	0.35465	AAT		0.552	FUBP3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054666.1			G	133507382	A	G	133507382	3	3	638	1	0	0	0	0	1	0	0	0	6100	101	4	3	1464	3	FUBP3	9	133507382	Missense_Mutation	SNP	A	TCGA-KL-8339-01A-11D-2310-10	32813982	133507382	7706049	52	39389										
PNPLA7	375775	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	140409846	140409846	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tttaccttgtggggccgaagGgtcagggtcacctgccccgg	15	12	2	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr9:140409846G>C	ENST00000277531.4	-	11	1321	c.1135C>G	c.(1135-1137)Cct>Gct	p.P379A	PNPLA7_ENST00000406427.1_Missense_Mutation_p.P404A|PNPLA7_ENST00000371457.1_5'UTR	NM_152286.3	NP_689499.3	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	379					lipid metabolic process (GO:0006629)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|lysosome (GO:0005764)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	lysophospholipase activity (GO:0004622)			breast(1)|central_nervous_system(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(9)|lung(13)|ovary(1)|prostate(1)|skin(2)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	40	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		GGGGCCGAAGGGTCAGGGTCA	0.647																																																0													23	26	25					9																	140409846		2183	4289	6472	SO:0001583	missense	375775			AK126267	CCDS7045.1, CCDS48070.1	9q34.3	2009-01-12	2006-06-12	2006-06-12	ENSG00000130653	ENSG00000130653		"Patatin-like phospholipase domain containing"	24768	protein-coding gene	gene with protein product		612122	"chromosome 9 open reading frame 111"	C9orf111		16799181, 12640454, 19029121	Standard	XM_005266082		Approved	FLJ43070, FLJ31318, FLJ44279, RP11-48C7.2, NTEL1, NTE-R1	uc010ncj.1	Q6ZV29	OTTHUMG00000020990	ENST00000277531.4:c.1135C>G	9.37:g.140409846G>C	ENSP00000277531:p.Pro379Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDD3|Q5T364|Q658X0|Q658Y3|Q6ZTS1|Q86YU8|Q8TAY5|Q96N75|Q9H7N5	Missense_Mutation	SNP	ENST00000277531.4	37	CCDS7045.1	.	.	.	.	.	.	.	.	.	.	g	1.074	-0.669022	0.03403	.	.	ENSG00000130653	ENST00000371446;ENST00000277531;ENST00000406427;ENST00000371451;ENST00000434090;ENST00000371450	T;T;T;T	0.57273	3.5;0.41;0.41;0.41	4.53	-1.66	0.08265	.	0.479528	0.20919	N	0.083313	T	0.34483	0.0899	L	0.57536	1.79	0.09310	N	1	B;B;B	0.20671	0.039;0.047;0.011	B;B;B	0.17722	0.016;0.019;0.009	T	0.20806	-1.0264	10	0.07990	T	0.79	0.3579	2.6459	0.04984	0.0946:0.2603:0.3661:0.2791	.	111;404;379	E2QRF8;Q6ZV29-5;Q6ZV29	.;.;PLPL7_HUMAN	A	111;379;404;379;370;404	ENSP00000360501:P111A;ENSP00000277531:P379A;ENSP00000384610:P404A;ENSP00000400582:P370A	ENSP00000277531:P379A	P	-	1	0	PNPLA7	139529667	0.001000	0.12720	0.001000	0.08648	0.493000	0.33554	0.070000	0.14573	0.001000	0.14605	0.437000	0.28790	CCT		0.647	PNPLA7-007	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000254787.1	NM_152286		C	140409846	G	C	140409846	3	2	638	1	0	0	0	0	1	0	0	0	12177	1232	43	4	2914	4	PNPLA7	9	140409846	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10	6902464	140409846	803585	53	39390										
SRGN	5552	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr10	70863802	70863802	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ctttccatgacaaccttaggTctcttgacaggaatctgccc	7	13	2	2			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr10:70863802T>C	ENST00000242465.3	+	3	443	c.403T>C	c.(403-405)Tct>Cct	p.S135P	SRGN_ENST00000462445.1_3'UTR	NM_002727.2	NP_002718.2	P10124	SRGN_HUMAN	serglycin	135					biomineral tissue development (GO:0031214)|blood coagulation (GO:0007596)|granzyme-mediated apoptotic signaling pathway (GO:0008626)|maintenance of granzyme B location in T cell secretory granule (GO:0033382)|maintenance of protease location in mast cell secretory granule (GO:0033373)|mast cell secretory granule organization (GO:0033364)|negative regulation of bone mineralization (GO:0030502)|negative regulation of cytokine secretion (GO:0050710)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|protein processing (GO:0016485)|T cell secretory granule organization (GO:0033371)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|mast cell granule (GO:0042629)|platelet alpha granule lumen (GO:0031093)|zymogen granule (GO:0042588)				large_intestine(1)|lung(1)|skin(2)|upper_aerodigestive_tract(3)	7						CAACCTTAGGTCTCTTGACAG	0.463																																																0													105	94	98					10																	70863802		2203	4300	6503	SO:0001583	missense	5552			BC015516	CCDS7285.1	10q22.1	2007-02-16	2007-02-15	2007-02-15	ENSG00000122862	ENSG00000122862		"Proteoglycans / Extracellular Matrix : Other"	9361	protein-coding gene	gene with protein product	"serglycin proteoglycan"	177040	"proteoglycan 1, secretory granule"	PRG, PRG1			Standard	NR_036430		Approved	PPG	uc001joz.3	P10124	OTTHUMG00000018369	ENST00000242465.3:c.403T>C	10.37:g.70863802T>C	ENSP00000242465:p.Ser135Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4L7|Q5VW06	Missense_Mutation	SNP	ENST00000242465.3	37	CCDS7285.1	.	.	.	.	.	.	.	.	.	.	T	0.011	-1.716689	0.00706	.	.	ENSG00000122862	ENST00000242465	T	0.47869	0.83	4.71	-2.7	0.06004	.	0.726897	0.12665	N	0.449259	T	0.21145	0.0509	N	0.12502	0.225	0.09310	N	1	B	0.06786	0.001	B	0.08055	0.003	T	0.33317	-0.9873	10	0.02654	T	1	-17.6268	9.7899	0.40699	0.0:0.3672:0.0:0.6328	.	135	P10124	SRGN_HUMAN	P	135	ENSP00000242465:S135P	ENSP00000242465:S135P	S	+	1	0	SRGN	70533808	0.000000	0.05858	0.000000	0.03702	0.376000	0.30014	-1.341000	0.02647	-0.655000	0.05387	0.459000	0.35465	TCT		0.463	SRGN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048379.1	NM_002727		C	70863802	T	C	70863802	3	2	638	1	0	0	0	0	1	0	0	0	15160	1667	58	3	413	3	SRGN	10	70863802	Missense_Mutation	SNP	T	TCGA-KL-8339-01A-11D-2310-10		70863802	64670945	54	39391										
FUT11	170384	ucsc.edu;bcgsc.ca	37	chr10	75532602	75532602	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tcttcaatcttacctccaccTtcagtcgccactcggattac	4	16	4	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr10:75532602T>C	ENST00000372841.3	+	1	554	c.511T>C	c.(511-513)Ttc>Ctc	p.F171L	RMRPP1_ENST00000517236.1_RNA|FUT11_ENST00000465695.1_3'UTR|AC022400.2_ENST00000595757.1_5'Flank|FUT11_ENST00000394790.1_Missense_Mutation_p.F171L	NM_173540.2	NP_775811.2	Q495W5	FUT11_HUMAN	fucosyltransferase 11 (alpha (1,3) fucosyltransferase)	171					protein glycosylation (GO:0006486)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	alpha-(1->3)-fucosyltransferase activity (GO:0046920)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(3)	7	Prostate(51;0.0112)					TACCTCCACCTTCAGTCGCCA	0.682																																																0													22	24	24					10																	75532602		2061	4087	6148	SO:0001583	missense	170384			BC036037	CCDS7333.1, CCDS60558.1	10q22.3	2014-01-02			ENSG00000196968	ENSG00000196968		"Fucosyltransferases"	19233	protein-coding gene	gene with protein product						11698403, 24318988	Standard	NM_173540		Approved	MGC33202	uc001jva.3	Q495W5	OTTHUMG00000018483	ENST00000372841.3:c.511T>C	10.37:g.75532602T>C	ENSP00000361932:p.Phe171Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q495W7|Q8IYE4	Missense_Mutation	SNP	ENST00000372841.3	37	CCDS7333.1	.	.	.	.	.	.	.	.	.	.	T	23.5	4.422370	0.83559	.	.	ENSG00000196968	ENST00000372841;ENST00000394790	T;T	0.28666	1.6;1.6	5.36	5.36	0.76844	.	0.000000	0.85682	D	0.000000	T	0.60379	0.2264	M	0.90425	3.115	0.80722	D	1	D;D;P	0.60160	0.987;0.957;0.693	D;P;P	0.63381	0.914;0.723;0.67	T	0.69580	-0.5107	10	0.66056	D	0.02	-40.4463	14.5265	0.67892	0.0:0.0:0.0:1.0	.	171;171;171	Q495W5;Q495W5-2;B2RC53	FUT11_HUMAN;.;.	L	171	ENSP00000361932:F171L;ENSP00000378270:F171L	ENSP00000361932:F171L	F	+	1	0	FUT11	75202608	1.000000	0.71417	0.998000	0.56505	0.320000	0.28249	7.951000	0.87819	2.040000	0.60383	0.379000	0.24179	TTC		0.682	FUT11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048689.1	NM_173540		C	75532602	T	C	75532602	3	2	638	1	0	0	0	0	1	0	0	0	6110	1609	56	3	513	3	FUT11	10	75532602	Missense_Mutation	SNP	T	TCGA-KL-8339-01A-11D-2310-10	4668800	75532602	60002145	55	39392										
OPN4	94233	mdanderson.org;bcgsc.ca	37	chr10	88423471	88423471	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	agctgcccagcaagcaaatgGgcggtccctctacggtcagg	13	13	2	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr10:88423471G>T	ENST00000241891.5	+	9	1477	c.1310G>T	c.(1309-1311)gGg>gTg	p.G437V	OPN4_ENST00000372071.2_Missense_Mutation_p.G448V	NM_033282.3	NP_150598.1	Q9UHM6	OPN4_HUMAN	opsin 4	437					phototransduction (GO:0007602)|protein-chromophore linkage (GO:0018298)|regulation of circadian rhythm (GO:0042752)|rhodopsin mediated signaling pathway (GO:0016056)|rhythmic process (GO:0048511)|visual perception (GO:0007601)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	11-cis retinal binding (GO:0005502)|G-protein coupled photoreceptor activity (GO:0008020)			breast(1)|endometrium(3)|kidney(2)|large_intestine(2)|liver(2)|lung(5)|ovary(3)	18						CAAGCAAATGGGCGGTCCCTC	0.637																																																0													55	45	48					10																	88423471		2198	4299	6497	SO:0001583	missense	94233			AF147788	CCDS7376.1, CCDS31237.1	10q22	2012-08-08	2008-04-16		ENSG00000122375	ENSG00000122375		"GPCR / Class A : Opsin receptors"	14449	protein-coding gene	gene with protein product	"melanopsin"	606665	"opsin 4 (melanopsin)"			10632589	Standard	NM_001030015		Approved	MOP, melanopsin	uc001kdp.3	Q9UHM6	OTTHUMG00000018654	ENST00000241891.5:c.1310G>T	10.37:g.88423471G>T	ENSP00000241891:p.Gly437Val	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLB3|Q14D01|Q2PP22|Q8NGQ9	Missense_Mutation	SNP	ENST00000241891.5	37	CCDS7376.1	.	.	.	.	.	.	.	.	.	.	G	13.44	2.238278	0.39598	.	.	ENSG00000122375	ENST00000372071;ENST00000241891;ENST00000443292	T;T;T	0.31510	1.49;1.49;1.49	4.69	2.81	0.32909	.	0.619008	0.15585	N	0.254662	T	0.40015	0.1100	M	0.68317	2.08	0.20403	N	0.999906	D;D;D	0.57571	0.966;0.966;0.98	P;P;P	0.55303	0.598;0.598;0.773	T	0.14980	-1.0453	10	0.42905	T	0.14	.	5.1951	0.15232	0.103:0.0:0.6912:0.2058	.	448;437;448	C9JWU6;Q9UHM6;Q9UHM6-2	.;OPN4_HUMAN;.	V	448;437;448	ENSP00000361141:G448V;ENSP00000241891:G437V;ENSP00000393132:G448V	ENSP00000241891:G437V	G	+	2	0	OPN4	88413451	0.007000	0.16637	0.038000	0.18304	0.004000	0.04260	1.744000	0.38268	1.305000	0.44909	-0.181000	0.13052	GGG		0.637	OPN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049158.2	NM_033282		T	88423471	G	T	88423471	3	4	638	1	0	0	0	0	1	0	0	0	10889	1232	43	4	1381	4	OPN4	10	88423471	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10	12890869	88423471	47111276	56	39393										
TM9SF3	56889	ucsc.edu	37	chr10	98307653	98307653	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	gtgagaattcgtaagttaccTccttgtctagcatacagact	8	9	1	2			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr10:98307653T>C	ENST00000371142.4	-	8	1269	c.1053A>G	c.(1051-1053)ggA>ggG	p.G351G	TM9SF3_ENST00000490192.1_5'UTR	NM_020123.3	NP_064508.3	Q9HD45	TM9S3_HUMAN	transmembrane 9 superfamily member 3	351						integral component of membrane (GO:0016021)				breast(2)|endometrium(1)|kidney(3)|large_intestine(6)|lung(2)|prostate(1)	15		Colorectal(252;0.158)		Epithelial(162;1.84e-09)|all cancers(201;2.84e-08)		GTAAGTTACCTCCTTGTCTAG	0.368																																																0													141	139	140					10																	98307653		2203	4300	6503	SO:0001630	splice_region_variant	56889			AF160213, AF269150	CCDS7450.1	10q24.2	2006-04-12			ENSG00000077147	ENSG00000077147			21529	protein-coding gene	gene with protein product						11530251, 11595169	Standard	NM_020123		Approved	SMBP	uc001kmm.4	Q9HD45	OTTHUMG00000018834	ENST00000371142.4:c.1054+1A>G	10.37:g.98307653T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TB57|Q6UWE7|Q9NWL8|Q9P0G9|Q9UHW8	Silent	SNP	ENST00000371142.4	37	CCDS7450.1																																																																																				0.368	TM9SF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049610.2	NM_020123	Silent	C	98307653	T	C	98307653	5	2	638	1	0	0	0	0	0	0	1	0	15991	1565	54	3	748	3	TM9SF3	10	98307653	Splice_Site	SNP	T	TCGA-KL-8339-01A-11D-2310-10	9884182	98307653	37227094	57	39394										
ANKRD2	26287	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr10	99342111	99342111	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	acgtggcagtccggacagggCaggtggagattgtggagcac	18	8	0	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr10:99342111C>T	ENST00000307518.5	+	7	1042	c.775C>T	c.(775-777)Cag>Tag	p.Q259*	ANKRD2_ENST00000298808.5_Intron|ANKRD2_ENST00000455090.1_Intron|PI4K2A_ENST00000555577.1_5'Flank|HOGA1_ENST00000370646.4_5'Flank|HOGA1_ENST00000370647.4_5'Flank|PI4K2A_ENST00000370649.3_5'Flank|ANKRD2_ENST00000370655.1_Nonsense_Mutation_p.Q232*			Q9GZV1	ANKR2_HUMAN	ankyrin repeat domain 2 (stretch responsive muscle)	259					muscle contraction (GO:0006936)|muscle organ development (GO:0007517)|negative regulation of myoblast differentiation (GO:0045662)|skeletal muscle cell differentiation (GO:0035914)	cytosol (GO:0005829)|euchromatin (GO:0000791)|I band (GO:0031674)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	protein kinase B binding (GO:0043422)|structural constituent of muscle (GO:0008307)			breast(1)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)|stomach(1)	7		all_hematologic(284;1.95e-06)|Colorectal(252;0.0163)		Epithelial(162;1.18e-94)|all cancers(201;9.31e-86)|BRCA - Breast invasive adenocarcinoma(275;0.0233)|STAD - Stomach adenocarcinoma(243;0.181)|KIRC - Kidney renal clear cell carcinoma(50;0.206)|Kidney(138;0.241)		CCGGACAGGGCAGGTGGAGAT	0.612																																																0													58	44	49					10																	99342111		2187	4286	6473	SO:0001587	stop_gained	26287			AJ304805	CCDS7466.1, CCDS44468.1	10q23	2013-01-10			ENSG00000165887	ENSG00000165887		"Ankyrin repeat domain containing"	495	protein-coding gene	gene with protein product		610734				10873377, 15136035, 15677738	Standard	NM_001129981		Approved	ARPP	uc001knw.3	Q9GZV1	OTTHUMG00000018860	ENST00000307518.5:c.775C>T	10.37:g.99342111C>T	ENSP00000306163:p.Gln259*	Somatic		WXS	Illumina HiSeq	Phase_I	Q3B778|Q5T456|Q70EZ9|Q8WUD7|Q96MG0|Q9NQC9	Nonsense_Mutation	SNP	ENST00000307518.5	37	CCDS7466.1	.	.	.	.	.	.	.	.	.	.	C	19.57	3.852611	0.71719	.	.	ENSG00000165887	ENST00000307518;ENST00000370655	.	.	.	5.6	5.6	0.85130	.	0.494981	0.20990	N	0.082053	.	.	.	.	.	.	0.58432	D	0.999996	.	.	.	.	.	.	.	.	.	.	0.45353	T	0.12	-0.7429	13.9655	0.64207	0.1523:0.8477:0.0:0.0	.	.	.	.	X	259;232	.	ENSP00000306163:Q259X	Q	+	1	0	ANKRD2	99332101	0.573000	0.26676	0.303000	0.25071	0.007000	0.05969	4.842000	0.62831	2.636000	0.89361	0.655000	0.94253	CAG		0.612	ANKRD2-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding				T	99342111	C	T	99342111	4	4	638	1	0	0	0	0	0	1	0	0	647	711	25	2	801	2	ANKRD2	10	99342111	Nonsense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	1034458	99342111	36192636	58	39395										
MUC5B	727897	broad.mit.edu	37	chr11	1264078	1264079	+	Frame_Shift_Ins	INS	-	-	C													0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	cccctcttcctccctgggcaINSccacctggacccgcctatca							TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr11:1264078_1264079insC	ENST00000529681.1	+	31	6026_6027	c.5968_5969insC	c.(5968-5970)accfs	p.T1990fs	RP11-532E4.2_ENST00000532061.2_RNA|MUC5B_ENST00000447027.1_Frame_Shift_Ins_p.T1993fs	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	1990	11 X approximate tandem repeats, Ser/Thr- rich.|7 X Cys-rich subdomain repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		CTCCCTGGGCACCACCTGGACC	0.629																																																0																																										SO:0001589	frameshift_variant	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.5970dupC	11.37:g.1264080_1264080dupC	ENSP00000436812:p.Thr1990fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Frame_Shift_Ins	INS	ENST00000529681.1	37	CCDS44515.2																																																																																				0.629	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		C	1264079	-	C	1264078	7	5	638	1	0	1	1	0	0	0	0	0	9986	159	6	0	6099	0	MUC5B	11	1264078	Frame_Shift_Ins	INS	-	TCGA-KL-8339-01A-11D-2310-10		1264078	133742438	59	39396										
METT5D1	196074	broad.mit.edu;hgsc.bcm.edu	37	chr11	28232627	28232627	+	Frame_Shift_Del	DEL	T	T	-													0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	agatttttctagatatgacaTttggttcgggagggcacaca							TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr11:28232627delT	ENST00000407364.3	+	4	641	c.289delT	c.(289-291)tttfs	p.F97fs	METTL15_ENST00000406787.3_Frame_Shift_Del_p.F97fs|METTL15_ENST00000342303.5_Frame_Shift_Del_p.F97fs|METTL15_ENST00000303459.6_Frame_Shift_Del_p.F97fs			A6NJ78	MET15_HUMAN	methyltransferase like 15	97							methyltransferase activity (GO:0008168)			NS(1)|breast(1)|endometrium(4)|large_intestine(2)|lung(2)|ovary(2)|skin(1)|urinary_tract(1)	14						AGATATGACATTTGGTTCGGG	0.373																																																0													82	76	78					11																	28232627		2202	4298	6500	SO:0001589	frameshift_variant	196074			AL832668	CCDS31450.1, CCDS44559.1, CCDS73269.1	11p14.1	2011-03-02	2011-03-02	2011-03-02	ENSG00000169519	ENSG00000169519			26606	protein-coding gene	gene with protein product			"methyltransferase 5 domain containing 1"	METT5D1		12477932	Standard	NM_152636		Approved	FLJ33979	uc001msh.2	A6NJ78	OTTHUMG00000150448	ENST00000407364.3:c.289delT	11.37:g.28232627delT	ENSP00000384369:p.Phe97fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8MRS5|B7WNU2|Q3MHD3|Q8N601|Q8NBA7	Frame_Shift_Del	DEL	ENST00000407364.3	37	CCDS44559.1																																																																																				0.373	METTL15-003	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318135.2	NM_152636		-	28232627	T	-	28232627	7	5	638	1	0	1	0	1	0	0	0	0	9499	1493	52	0	295	0	METT5D1	11	28232627	Frame_Shift_Del	DEL	T	TCGA-KL-8339-01A-11D-2310-10	26968549	28232627	106773889	60	39397	332	2								
METT5D1	196074	bcgsc.ca	37	chr11	28232628	28232628	+	Frame_Shift_Del	DEL	T	T	-													0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	gatttttctagatatgacatTtggttcgggagggcacacaa							TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr11:28232628delT	ENST00000407364.3	+	4	642	c.290delT	c.(289-291)tttfs	p.F97fs	METTL15_ENST00000406787.3_Frame_Shift_Del_p.F97fs|METTL15_ENST00000342303.5_Frame_Shift_Del_p.F97fs|METTL15_ENST00000303459.6_Frame_Shift_Del_p.F97fs			A6NJ78	MET15_HUMAN	methyltransferase like 15	97							methyltransferase activity (GO:0008168)			NS(1)|breast(1)|endometrium(4)|large_intestine(2)|lung(2)|ovary(2)|skin(1)|urinary_tract(1)	14						GATATGACATTTGGTTCGGGA	0.373																																																0													82	76	78					11																	28232628		2202	4298	6500	SO:0001589	frameshift_variant	196074			AL832668	CCDS31450.1, CCDS44559.1, CCDS73269.1	11p14.1	2011-03-02	2011-03-02	2011-03-02	ENSG00000169519	ENSG00000169519			26606	protein-coding gene	gene with protein product			"methyltransferase 5 domain containing 1"	METT5D1		12477932	Standard	NM_152636		Approved	FLJ33979	uc001msh.2	A6NJ78	OTTHUMG00000150448	ENST00000407364.3:c.290delT	11.37:g.28232628delT	ENSP00000384369:p.Phe97fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8MRS5|B7WNU2|Q3MHD3|Q8N601|Q8NBA7	Frame_Shift_Del	DEL	ENST00000407364.3	37	CCDS44559.1																																																																																				0.373	METTL15-003	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318135.2	NM_152636		-	28232628	T	-	28232628	7	5	638	1	0	1	0	1	0	0	0	0	9499	1841	64	0	296	0	METT5D1	11	28232628	Frame_Shift_Del	DEL	T	TCGA-KL-8339-01A-11D-2310-10	1	28232628	106773888	61	39398	332	2								
OR8H2	390151	mdanderson.org	37	chr11	55872876	55872876	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	accttctctcctcaatggccCatgatcgctatgcagcgatc	7	15	2	1	rs2512961	byFrequency	TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr11:55872876C>T	ENST00000313503.1	+	1	358	c.358C>T	c.(358-360)Cat>Tat	p.H120Y		NM_001005200.1	NP_001005200.1	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H, member 2	120			H -> Y (in dbSNP:rs2512961).			integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(38)|ovary(1)|skin(3)|stomach(2)|upper_aerodigestive_tract(5)|urinary_tract(1)	61	Esophageal squamous(21;0.00693)					CTCAATGGCCCATGATCGCTA	0.468										HNSCC(53;0.14)			t|||	4805	0.959465	0.9818	0.9553	5008	,	,		20869	0.999		0.9056	False		,,,				2504	0.9468															0								T	TYR/HIS	4276,126	92.5+/-131.2	2075,126,0	190	194	193		358	3.6	1	11	dbSNP_100	193	7895,693	170.4+/-221.6	3635,625,34	no	missense	OR8H2	NM_001005200.1	83	5710,751,34	TT,TC,CC		8.0694,2.8623,6.3048	benign	120/313	55872876	12171,819	2201	4294	6495	SO:0001583	missense	390151			AB065657	CCDS31518.1	11q11	2012-08-09			ENSG00000181767	ENSG00000181767		"GPCR / Class A : Olfactory receptors"	15308	protein-coding gene	gene with protein product							Standard	NM_001005200		Approved		uc010riy.2	Q8N162	OTTHUMG00000166832	ENST00000313503.1:c.358C>T	11.37:g.55872876C>T	ENSP00000323982:p.His120Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFC1	Missense_Mutation	SNP	ENST00000313503.1	37	CCDS31518.1	2072	0.9487179487179487	477	0.9695121951219512	343	0.9475138121546961	568	0.993006993006993	684	0.9023746701846965	t	0.004	-2.255890	0.00265	0.971377	0.919306	ENSG00000181767	ENST00000313503	T	0.01323	5.01	3.58	3.58	0.41010	GPCR, rhodopsin-like superfamily (1);	0.000000	0.47852	N	0.000204	T	0.00012	0.0000	N	0.00010	-3.035	0.58432	P	1.0000000000287557E-6	B	0.02656	0.0	B	0.01281	0.0	T	0.19910	-1.0291	9	0.02654	T	1	.	9.4364	0.38641	0.0:0.0887:0.0:0.9113	rs2512961;rs7109885;rs2512961	120	Q8N162	OR8H2_HUMAN	Y	120	ENSP00000323982:H120Y	ENSP00000323982:H120Y	H	+	1	0	OR8H2	55629452	0.008000	0.16893	0.995000	0.50966	0.016000	0.09150	1.754000	0.38369	0.518000	0.28383	-0.692000	0.03713	CAT		0.468	OR8H2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391540.1	NM_001005200		T	55872876	C	T	55872876	3	4	638	1	0	0	0	0	1	0	0	0	11245	594	21	2	360	2	OR8H2	11	55872876	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	27640248	55872876	79133640	62	39399										
OR5M1	390168	mdanderson.org	37	chr11	56380811	56380811	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	aggaagaaatacatgggtgtTtgcaggtgggaattggtcct	15	4	0	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr11:56380811T>C	ENST00000526538.1	-	1	167	c.168A>G	c.(166-168)caA>caG	p.Q56Q		NM_001004740.1	NP_001004740.1	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M, member 1	56						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			central_nervous_system(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|lung(7)|upper_aerodigestive_tract(1)	12						ACATGGGTGTTTGCAGGTGGG	0.453																																																0													181	178	179					11																	56380811		1990	4164	6154	SO:0001819	synonymous_variant	390168			AB065742	CCDS53631.1	11q11	2012-08-09				ENSG00000255012		"GPCR / Class A : Olfactory receptors"	8352	protein-coding gene	gene with protein product							Standard	NM_001004740		Approved	OST050	uc001nja.1	Q8NGP8		ENST00000526538.1:c.168A>G	11.37:g.56380811T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF60|Q96RB6	Silent	SNP	ENST00000526538.1	37	CCDS53631.1																																																																																				0.453	OR5M1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391610.1	NM_001004740		C	56380811	T	C	56380811	2	2	638	1	0	0	0	0	0	0	0	1	11179	1838	64	3		3	OR5M1	11	56380811	Silent	SNP	T	TCGA-KL-8339-01A-11D-2310-10	507935	56380811	78625705	63	39400										
AASDHPPT	60496	bcgsc.ca	37	chr11	105950206	105950206	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	cttaacaggctggtcgtctgAtgataaggaaattagttgca	11	6	1	2			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr11:105950206A>G	ENST00000278618.4	+	2	418	c.196A>G	c.(196-198)Atg>Gtg	p.M66V	KBTBD3_ENST00000534815.1_5'Flank|KBTBD3_ENST00000526793.1_5'Flank|KBTBD3_ENST00000531837.1_5'Flank	NM_015423.2	NP_056238.2	Q9NRN7	ADPPT_HUMAN	aminoadipate-semialdehyde dehydrogenase-phosphopantetheinyl transferase	66					macromolecule biosynthetic process (GO:0009059)|pantothenate metabolic process (GO:0015939)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	holo-[acyl-carrier-protein] synthase activity (GO:0008897)|magnesium ion binding (GO:0000287)			endometrium(3)|kidney(2)|large_intestine(4)|lung(7)|prostate(1)	17		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.78e-05)|Epithelial(105;0.00622)|all cancers(92;0.041)		TGGTCGTCTGATGATAAGGAA	0.353																																																0													45	43	44					11																	105950206		2201	4299	6500	SO:0001583	missense	60496			AF302110	CCDS31664.1	11q22	2010-12-09			ENSG00000149313	ENSG00000149313	1.2.1.31		14235	protein-coding gene	gene with protein product		607756				12815048, 11286508	Standard	NM_015423		Approved	LYS5, CGI-80, AASD-PPT	uc001pjc.1	Q9NRN7	OTTHUMG00000166253	ENST00000278618.4:c.196A>G	11.37:g.105950206A>G	ENSP00000278618:p.Met66Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6D1|B4DDW7|Q9C068|Q9P0Q3|Q9UG80|Q9Y389	Missense_Mutation	SNP	ENST00000278618.4	37	CCDS31664.1	.	.	.	.	.	.	.	.	.	.	A	14.09	2.430530	0.43122	.	.	ENSG00000149313	ENST00000533423;ENST00000524411;ENST00000278618	.	.	.	5.91	4.72	0.59763	4&apos (1);-phosphopantetheinyl transferase (1);	0.055781	0.64402	D	0.000001	T	0.37320	0.0999	L	0.39514	1.22	0.39576	D	0.969351	P	0.35821	0.523	B	0.28305	0.088	T	0.43114	-0.9411	9	0.59425	D	0.04	.	7.0036	0.24823	0.6357:0.2457:0.0:0.1186	.	66	Q9NRN7	ADPPT_HUMAN	V	1;1;66	.	ENSP00000278618:M66V	M	+	1	0	AASDHPPT	105455416	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	3.921000	0.56454	2.254000	0.74563	0.533000	0.62120	ATG		0.353	AASDHPPT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388734.1	NM_015423		G	105950206	A	G	105950206	3	3	638	1	0	0	0	0	1	0	0	0	23	333	12	3	202	3	AASDHPPT	11	105950206	Missense_Mutation	SNP	A	TCGA-KL-8339-01A-11D-2310-10	49569395	105950206	29056310	64	39401										
HYLS1	219844	bcgsc.ca	37	chr11	125770068	125770068	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	acaattatctagtaccaacaGagaagaaaaggtctgcactc	7	9	2	2			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr11:125770068G>C	ENST00000425380.2	+	3	1586	c.805G>C	c.(805-807)Gag>Cag	p.E269Q	PUS3_ENST00000227474.3_Intron|HYLS1_ENST00000526028.1_Missense_Mutation_p.E269Q|HYLS1_ENST00000356438.3_Missense_Mutation_p.E269Q	NM_001134793.1	NP_001128265.1	Q96M11	HYLS1_HUMAN	hydrolethalus syndrome 1	269						centrosome (GO:0005813)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(1)|endometrium(1)|large_intestine(3)|skin(3)|upper_aerodigestive_tract(1)	9	all_hematologic(175;0.177)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.131)|all_lung(97;0.139)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0446)		AGTACCAACAGAGAAGAAAAG	0.468																																					Esophageal Squamous(172;2590 2636 8884 10471)											0													89	84	86					11																	125770068		2201	4299	6500	SO:0001583	missense	219844			AK057477	CCDS8467.1	11q24	2014-06-18				ENSG00000198331			26558	protein-coding gene	gene with protein product		610693				15843405	Standard	NM_145014		Approved	FLJ32915	uc009zbv.3	Q96M11		ENST00000425380.2:c.805G>C	11.37:g.125770068G>C	ENSP00000414884:p.Glu269Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXI8|Q96BX9	Missense_Mutation	SNP	ENST00000425380.2	37	CCDS8467.1	.	.	.	.	.	.	.	.	.	.	G	17.64	3.439812	0.63067	.	.	ENSG00000198331	ENST00000356438;ENST00000425380;ENST00000526028	T;T;T	0.78246	-1.16;-1.16;-1.16	6.02	4.93	0.64822	.	0.231743	0.33895	N	0.004450	T	0.81446	0.4824	L	0.48642	1.525	0.80722	D	1	D	0.61080	0.989	P	0.58266	0.836	T	0.80348	-0.1420	10	0.44086	T	0.13	.	14.9776	0.71286	0.1182:0.0:0.8818:0.0	.	269	Q96M11	HYLS1_HUMAN	Q	269	ENSP00000348815:E269Q;ENSP00000414884:E269Q;ENSP00000436833:E269Q	ENSP00000348815:E269Q	E	+	1	0	HYLS1	125275278	1.000000	0.71417	1.000000	0.80357	0.965000	0.64279	3.606000	0.54095	2.865000	0.98341	0.655000	0.94253	GAG		0.468	HYLS1-002	PUTATIVE	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386733.1	NM_145014		C	125770068	G	C	125770068	3	2	638	1	0	0	0	0	1	0	0	0	7476	943	33	4	807	4	HYLS1	11	125770068	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10	19819862	125770068	9236448	65	39402										
CACNA1C	775	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	2794921	2794921	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ggctctcctaccaggatgacGaaaatcggcaactgacgctc	10	13	1	2	rs200231105	byFrequency	TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr12:2794921G>A	ENST00000347598.4	+	46	5737	c.5737G>A	c.(5737-5739)Gaa>Aaa	p.E1913K	CACNA1C_ENST00000399655.1_Missense_Mutation_p.E1865K|CACNA1C_ENST00000399637.1_Missense_Mutation_p.E1884K|CACNA1C_ENST00000399595.1_Missense_Mutation_p.E1873K|CACNA1C_ENST00000399603.1_Missense_Mutation_p.E1865K|CACNA1C_ENST00000335762.5_Missense_Mutation_p.E1890K|CACNA1C_ENST00000399606.1_Missense_Mutation_p.E1885K|CACNA1C_ENST00000399634.1_Missense_Mutation_p.E1936K|CACNA1C-AS1_ENST00000501371.1_RNA|CACNA1C_ENST00000399638.1_Missense_Mutation_p.E1893K|CACNA1C_ENST00000399629.1_Missense_Mutation_p.E1882K|CACNA1C_ENST00000399621.1_Missense_Mutation_p.E1884K|CACNA1C_ENST00000399617.1_Missense_Mutation_p.E1900K|CACNA1C_ENST00000406454.3_Missense_Mutation_p.E1936K|CACNA1C_ENST00000399644.1_Missense_Mutation_p.E1865K|CACNA1C_ENST00000399597.1_Missense_Mutation_p.E1865K|CACNA1C_ENST00000327702.7_Missense_Mutation_p.E1900K|CACNA1C_ENST00000399591.1_Missense_Mutation_p.E1873K|CACNA1C_ENST00000399601.1_Missense_Mutation_p.E1865K|CACNA1C_ENST00000402845.3_Missense_Mutation_p.E1884K|CACNA1C_ENST00000399649.1_Missense_Mutation_p.E1871K|CACNA1C_ENST00000399641.1_Missense_Mutation_p.E1865K|CACNA1C_ENST00000344100.3_Missense_Mutation_p.E1906K	NM_001129827.1|NM_199460.2	NP_001123299.1|NP_955630.2	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type, alpha 1C subunit	1948					adult walking behavior (GO:0007628)|axon guidance (GO:0007411)|calcium ion import (GO:0070509)|calcium ion transport into cytosol (GO:0060402)|calcium ion-dependent exocytosis (GO:0017156)|calcium-mediated signaling using extracellular calcium source (GO:0035585)|cell communication by electrical coupling involved in cardiac conduction (GO:0086064)|energy reserve metabolic process (GO:0006112)|glucose homeostasis (GO:0042593)|growth hormone secretion (GO:0030252)|insulin secretion (GO:0030073)|membrane depolarization during action potential (GO:0086010)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|regulation of blood pressure (GO:0008217)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of insulin secretion (GO:0050796)|regulation of organ growth (GO:0046620)|regulation of vasoconstriction (GO:0019229)|small molecule metabolic process (GO:0044281)|smooth muscle contraction involved in micturition (GO:0060083)|synaptic transmission (GO:0007268)|visual learning (GO:0008542)	caveolar macromolecular signaling complex (GO:0002095)|cytoplasm (GO:0005737)|dendritic shaft (GO:0043198)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|voltage-gated calcium channel complex (GO:0005891)|Z disc (GO:0030018)	alpha-actinin binding (GO:0051393)|calmodulin binding (GO:0005516)|high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)	p.E1913K(2)|p.E1906K(2)|p.E1978K(2)|p.E1900K(2)|p.E1400K(2)		NS(3)|breast(4)|central_nervous_system(4)|cervix(2)|endometrium(12)|kidney(9)|large_intestine(20)|lung(55)|ovary(10)|pancreas(1)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)	132			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Amlodipine(DB00381)|Cinnarizine(DB00568)|Clevidipine(DB04920)|Dronedarone(DB04855)|Drotaverine(DB06751)|Felodipine(DB01023)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Verapamil(DB00661)	CCAGGATGACGAAAATCGGCA	0.592																																																10	Substitution - Missense(10)	kidney(5)|endometrium(5)											47	48	48					12																	2794921		2013	4164	6177	SO:0001583	missense	775			AF070589	CCDS44787.1, CCDS44788.1, CCDS44789.1, CCDS44790.1, CCDS44791.1, CCDS44792.1, CCDS44793.1, CCDS44794.1, CCDS44795.1, CCDS44796.1, CCDS44797.1, CCDS44798.1, CCDS44799.1, CCDS44800.1, CCDS44801.1, CCDS53733.1, CCDS53734.1, CCDS53735.1, CCDS53736.1	12p13.3	2014-09-17			ENSG00000151067	ENSG00000151067		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1390	protein-coding gene	gene with protein product		114205		CCHL1A1, CACNL1A1		1650913, 16382099	Standard	NM_001129832		Approved	Cav1.2, CACH2, CACN2, TS, LQT8	uc001qjy.3	Q13936	OTTHUMG00000150243	ENST00000347598.4:c.5737G>A	12.37:g.2794921G>A	ENSP00000266376:p.Glu1913Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RUT3|E9PDJ0|Q13917|Q13918|Q13919|Q13920|Q13921|Q13922|Q13923|Q13924|Q13925|Q13926|Q13927|Q13928|Q13929|Q13930|Q13932|Q13933|Q14743|Q14744|Q15877|Q4VMI7|Q4VMI8|Q4VMI9|Q6PKM7|Q8N6C0|Q99025|Q99241|Q99875	Missense_Mutation	SNP	ENST00000347598.4	37	CCDS44788.1	.	.	.	.	.	.	.	.	.	.	G	15.97	2.988512	0.53934	.	.	ENSG00000151067	ENST00000335762;ENST00000399655;ENST00000399644;ENST00000399638;ENST00000399597;ENST00000399621;ENST00000399637;ENST00000399591;ENST00000399641;ENST00000347598;ENST00000399606;ENST00000399601;ENST00000344100;ENST00000399629;ENST00000327702;ENST00000399649;ENST00000402845;ENST00000399603;ENST00000399634;ENST00000399617;ENST00000406454;ENST00000399595;ENST00000322367	T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.57595	0.39;0.39;0.39;0.39;0.39;0.39;0.39;0.39;0.39;0.39;0.39;0.39;0.39;0.39;0.39;0.39;0.39;0.39;0.39;0.39;0.39;0.39	4.26	3.35	0.38373	.	1.675690	0.03914	N	0.282339	T	0.64427	0.2597	L	0.39633	1.23	0.24214	N	0.99546	P;D;P;B;D;P;P;D;B;B;D;P;P;B;P;B;P;B;D;P;P;D;D;P;P	0.76494	0.801;0.999;0.941;0.097;0.999;0.921;0.953;0.961;0.11;0.33;0.978;0.941;0.757;0.432;0.902;0.306;0.757;0.062;0.978;0.588;0.769;0.961;0.961;0.882;0.941	B;P;B;B;D;B;B;P;B;B;P;B;B;B;B;B;B;B;P;B;B;P;P;B;B	0.78314	0.21;0.858;0.304;0.03;0.991;0.308;0.378;0.485;0.04;0.071;0.485;0.304;0.122;0.099;0.114;0.033;0.122;0.024;0.485;0.172;0.172;0.485;0.485;0.172;0.304	T	0.56056	-0.8042	10	0.07030	T	0.85	.	14.0749	0.64885	0.0:0.1521:0.8479:0.0	.	556;1906;1862;1948;1900;1884;1865;1882;1893;1865;1885;1865;1896;1913;1865;1900;1936;1873;1871;1873;1854;1884;1884;1865;1865	B7Z7Z5;Q13936-14;Q13936-35;Q13936;Q13936-33;Q13936-13;Q13936-22;Q13936-32;Q13936-31;Q13936-21;Q13936-30;Q13936-23;Q13936-28;Q13936-11;E9PDJ1;E9PDJ0;F5GY28;Q13936-25;Q13936-15;Q13936-29;Q13936-19;Q13936-24;Q13936-27;Q13936-20;Q13936-12	.;.;.;CAC1C_HUMAN;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.	K	1890;1865;1865;1893;1865;1884;1884;1873;1865;1913;1885;1865;1906;1882;1900;1871;1884;1865;1936;1900;1936;1873;1766	ENSP00000336982:E1890K;ENSP00000382563:E1865K;ENSP00000382552:E1865K;ENSP00000382547:E1893K;ENSP00000382506:E1865K;ENSP00000382530:E1884K;ENSP00000382546:E1884K;ENSP00000382500:E1873K;ENSP00000382549:E1865K;ENSP00000266376:E1913K;ENSP00000382515:E1885K;ENSP00000382510:E1865K;ENSP00000341092:E1906K;ENSP00000382537:E1882K;ENSP00000329877:E1900K;ENSP00000382557:E1871K;ENSP00000385724:E1884K;ENSP00000382512:E1865K;ENSP00000382542:E1936K;ENSP00000382526:E1900K;ENSP00000385896:E1936K;ENSP00000382504:E1873K	ENSP00000323129:E1766K	E	+	1	0	CACNA1C	2665182	1.000000	0.71417	0.943000	0.38184	0.802000	0.45316	5.486000	0.66856	0.981000	0.38548	0.449000	0.29647	GAA		0.592	CACNA1C-017	KNOWN	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000317035.1	NM_000719		A	2794921	G	A	2794921	3	1	638	1	0	0	0	0	1	0	0	0	2542	1059	37	1	6476	1	CACNA1C	12	2794921	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10		2794921	131056974	66	39403										
FKBP4	2288	mdanderson.org;bcgsc.ca	37	chr12	2907983	2907983	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ctaagcccaatgagggtgctAtcgtggagggtgagacagta	15	7	0	2			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr12:2907983A>G	ENST00000001008.4	+	4	692	c.505A>G	c.(505-507)Atc>Gtc	p.I169V	RP4-816N1.7_ENST00000547042.1_RNA|RP4-816N1.6_ENST00000547834.1_RNA	NM_002014.3	NP_002005.1	Q02790	FKBP4_HUMAN	FK506 binding protein 4, 59kDa	169	PPIase FKBP-type 2. {ECO:0000255|PROSITE- ProRule:PRU00277}.				androgen receptor signaling pathway (GO:0030521)|chaperone-mediated protein folding (GO:0061077)|copper ion transport (GO:0006825)|embryo implantation (GO:0007566)|male sex differentiation (GO:0046661)|negative regulation of microtubule polymerization (GO:0031115)|negative regulation of microtubule polymerization or depolymerization (GO:0031111)|negative regulation of neuron projection development (GO:0010977)|prostate gland development (GO:0030850)|protein complex localization (GO:0031503)|protein folding (GO:0006457)|protein peptidyl-prolyl isomerization (GO:0000413)|steroid hormone receptor complex assembly (GO:0006463)	axonal growth cone (GO:0044295)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|mitochondrion (GO:0005739)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	ATP binding (GO:0005524)|FK506 binding (GO:0005528)|GTP binding (GO:0005525)|heat shock protein binding (GO:0031072)|peptidyl-prolyl cis-trans isomerase activity (GO:0003755)|poly(A) RNA binding (GO:0044822)|protein binding, bridging (GO:0030674)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(2)|large_intestine(2)|lung(3)|prostate(2)|skin(1)	14			OV - Ovarian serous cystadenocarcinoma(31;0.00105)			TGAGGGTGCTATCGTGGAGGG	0.493																																																0													100	88	92					12																	2907983		2203	4300	6503	SO:0001583	missense	2288			M88279	CCDS8512.1	12p13.33	2013-01-10	2002-08-29		ENSG00000004478	ENSG00000004478		"Tetratricopeptide (TTC) repeat domain containing"	3720	protein-coding gene	gene with protein product		600611	"FK506-binding protein 4 (59kD)"			1279700	Standard	NM_002014		Approved	FKBP59, FKBP52	uc001qkz.3	Q02790	OTTHUMG00000090429	ENST00000001008.4:c.505A>G	12.37:g.2907983A>G	ENSP00000001008:p.Ile169Val	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUQ1|Q9UCP1|Q9UCV7	Missense_Mutation	SNP	ENST00000001008.4	37	CCDS8512.1	.	.	.	.	.	.	.	.	.	.	A	5.452	0.268424	0.10349	.	.	ENSG00000004478	ENST00000001008	D	0.85258	-1.96	5.08	-4.03	0.04021	Peptidyl-prolyl cis-trans isomerase, FKBP-type, domain (2);	1.031610	0.07658	N	0.933160	T	0.63462	0.2513	N	0.04355	-0.22	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.53078	-0.8489	10	0.09590	T	0.72	0.0032	9.1629	0.37035	0.2291:0.5673:0.2036:0.0	.	169	Q02790	FKBP4_HUMAN	V	169	ENSP00000001008:I169V	ENSP00000001008:I169V	I	+	1	0	FKBP4	2778244	0.000000	0.05858	0.002000	0.10522	0.139000	0.21198	-0.714000	0.05002	-1.127000	0.02925	-0.468000	0.05107	ATC		0.493	FKBP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206861.1			G	2907983	A	G	2907983	3	3	638	1	0	0	0	0	1	0	0	0	5917	449	16	3	519	3	FKBP4	12	2907983	Missense_Mutation	SNP	A	TCGA-KL-8339-01A-11D-2310-10	113062	2907983	130943912	67	39404										
MED21	9412	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr12	27179446	27179446	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	agacagcaattaacaaagacCagccagctaaccctacagaa	6	12	0	3			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr12:27179446C>A	ENST00000282892.3	+	2	166	c.136C>A	c.(136-138)Cag>Aag	p.Q46K	MED21_ENST00000546323.1_Missense_Mutation_p.Q46K|MED21_ENST00000536503.1_Intron	NM_001271811.1|NM_004264.3	NP_001258740.1|NP_004255.2	Q13503	MED21_HUMAN	mediator complex subunit 21	46					blastocyst development (GO:0001824)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|stem cell maintenance (GO:0019827)|transcription, DNA-templated (GO:0006351)	mediator complex (GO:0016592)	DNA-directed RNA polymerase activity (GO:0003899)|transcription coactivator activity (GO:0003713)					Colorectal(261;0.0847)					TAACAAAGACCAGCCAGCTAA	0.373																																																0													120	106	111					12																	27179446		2203	4300	6503	SO:0001583	missense	9412			U46837	CCDS8711.1	12p12	2007-07-30	2007-07-30	2007-07-30		ENSG00000152944			11473	protein-coding gene	gene with protein product		603800	"SRB7 (suppressor of RNA polymerase B, yeast) homolog", "SRB7 suppressor of RNA polymerase B homolog (yeast)"	SURB7		8598913	Standard	NM_004264		Approved	SRB7	uc001rhp.2	Q13503		ENST00000282892.3:c.136C>A	12.37:g.27179446C>A	ENSP00000282892:p.Gln46Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4I3|Q6IB05|Q92811	Missense_Mutation	SNP	ENST00000282892.3	37	CCDS8711.1	.	.	.	.	.	.	.	.	.	.	C	14.74	2.624150	0.46840	.	.	ENSG00000152944	ENST00000546323;ENST00000282892	.	.	.	4.99	4.99	0.66335	.	0.056410	0.64402	D	0.000001	T	0.48874	0.1524	L	0.44542	1.39	0.80722	D	1	P	0.34462	0.454	B	0.34652	0.187	T	0.45585	-0.9251	9	0.06236	T	0.91	-25.0929	18.762	0.91855	0.0:1.0:0.0:0.0	.	46	Q13503	MED21_HUMAN	K	46	.	ENSP00000282892:Q46K	Q	+	1	0	MED21	27070713	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	6.995000	0.76257	2.708000	0.92522	0.585000	0.79938	CAG		0.373	MED21-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403262.1	NM_004264		A	27179446	C	A	27179446	3	1	638	1	0	0	0	0	1	0	0	0	9446	595	21	4	142	4	MED21	12	27179446	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	24271463	27179446	106672449	68	39405										
PDZRN4	29951	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	41967467	41967467	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	cagcgccgtcgccgtgagttCatgatgcgaagcaggttaga	14	10	1	3			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr12:41967467C>A	ENST00000402685.2	+	10	2894	c.2886C>A	c.(2884-2886)ttC>ttA	p.F962L	PDZRN4_ENST00000539469.2_Missense_Mutation_p.F704L|PDZRN4_ENST00000298919.7_Missense_Mutation_p.F702L	NM_001164595.1	NP_001158067.1	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing ring finger 4	962							ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(23)|lung(29)|ovary(3)|pancreas(1)|prostate(2)|skin(4)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	77	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				GCCGTGAGTTCATGATGCGAA	0.517																																																0													75	70	71					12																	41967467		2203	4300	6503	SO:0001583	missense	29951			AK094690	CCDS8739.1, CCDS53777.1	12q12	2008-08-14	2008-08-14			ENSG00000165966		"RING-type (C3HC4) zinc fingers"	30552	protein-coding gene	gene with protein product	"similar to semaF cytoplasmic domain associated protein 3"	609730				11230166, 15010864	Standard	NM_013377		Approved	DKFZp434B0417, LNX4, FLJ33777, IMAGE5767589	uc010skn.2	Q6ZMN7		ENST00000402685.2:c.2886C>A	12.37:g.41967467C>A	ENSP00000384197:p.Phe962Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LY3|Q52LY4|Q6N052|Q8IUU1|Q9NTP7	Missense_Mutation	SNP	ENST00000402685.2	37	CCDS53777.1	.	.	.	.	.	.	.	.	.	.	C	12.06	1.825721	0.32237	.	.	ENSG00000165966	ENST00000402685;ENST00000539469;ENST00000298919	T;T;T	0.39229	1.09;1.09;1.09	4.9	4.9	0.64082	.	0.067180	0.64402	D	0.000007	T	0.41213	0.1149	L	0.35487	1.065	0.58432	D	0.999999	P;B;B	0.46220	0.874;0.045;0.045	P;B;B	0.45119	0.47;0.061;0.075	T	0.32824	-0.9892	10	0.49607	T	0.09	-20.3562	18.9769	0.92740	0.0:1.0:0.0:0.0	.	962;702;704	Q6ZMN7;Q6ZMN7-4;Q6ZMN7-2	PZRN4_HUMAN;.;.	L	962;704;702	ENSP00000384197:F962L;ENSP00000439990:F704L;ENSP00000298919:F702L	ENSP00000298919:F702L	F	+	3	2	PDZRN4	40253734	1.000000	0.71417	1.000000	0.80357	0.358000	0.29455	3.234000	0.51320	2.656000	0.90262	0.557000	0.71058	TTC		0.517	PDZRN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403701.1	NM_013377		A	41967467	C	A	41967467	3	1	638	1	0	0	0	0	1	0	0	0	11717	825	29	4	2997	4	PDZRN4	12	41967467	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	14788021	41967467	91884428	69	39406										
KRT1	3848	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	53073958	53073958	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ccgacttccaaatccaccacCagcaccaaagctaccaccac	3	20	0	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr12:53073958C>G	ENST00000252244.3	-	1	233	c.175G>C	c.(175-177)Ggt>Cgt	p.G59R		NM_006121.3	NP_006112.3	P04264	K2C1_HUMAN	keratin 1	59	Gly/Phe/Ser-rich.|Head.				complement activation, lectin pathway (GO:0001867)|establishment of skin barrier (GO:0061436)|fibrinolysis (GO:0042730)|negative regulation of inflammatory response (GO:0050728)|regulation of angiogenesis (GO:0045765)|response to oxidative stress (GO:0006979)|retina homeostasis (GO:0001895)	blood microparticle (GO:0072562)|cytoskeleton (GO:0005856)|extracellular matrix (GO:0031012)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|keratin filament (GO:0045095)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)|receptor activity (GO:0004872)|structural molecule activity (GO:0005198)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(7)|lung(11)|ovary(1)|prostate(7)|skin(3)	39						AATccaccaccagcaccaaag	0.557																																																0													153	152	153					12																	53073958		2202	4300	6502	SO:0001583	missense	3848			X69725	CCDS8836.1	12q13.13	2014-06-05	2008-08-01		ENSG00000167768	ENSG00000167768		"-", "Intermediate filaments type II, keratins (basic)"	6412	protein-coding gene	gene with protein product		139350	"epidermolytic hyperkeratosis 1"	EHK1		2461420, 2470667, 16831889	Standard	NM_006121		Approved	KRT1A	uc001sau.1	P04264	OTTHUMG00000169749	ENST00000252244.3:c.175G>C	12.37:g.53073958C>G	ENSP00000252244:p.Gly59Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RA01|P85925|P86104|Q14720|Q6GSJ0|Q9H298	Missense_Mutation	SNP	ENST00000252244.3	37	CCDS8836.1	.	.	.	.	.	.	.	.	.	.	C	3.038	-0.198146	0.06219	.	.	ENSG00000167768	ENST00000252244	D	0.96073	-3.9	3.52	1.64	0.23874	.	.	.	.	.	D	0.94235	0.8149	L	0.59436	1.845	0.25709	N	0.9855	D	0.54047	0.964	P	0.52672	0.706	D	0.86298	0.1678	9	0.24483	T	0.36	.	5.6488	0.17604	0.0:0.739:0.0:0.261	.	59	P04264	K2C1_HUMAN	R	59	ENSP00000252244:G59R	ENSP00000252244:G59R	G	-	1	0	KRT1	51360225	0.000000	0.05858	0.355000	0.25773	0.381000	0.30169	-0.526000	0.06207	0.318000	0.23185	0.491000	0.48974	GGT		0.557	KRT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405706.1	NM_006121		G	53073958	C	G	53073958	3	3	638	1	0	0	0	0	1	0	0	0	8454	594	21	4	1795	4	KRT1	12	53073958	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	11106491	53073958	80777937	70	39407										
RASAL1	8437	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	113543595	113543595	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	gcttcttgaaggcaaagcgcGtggccaggccggcaggctcc	15	13	1	1	rs149732792		TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr12:113543595G>A	ENST00000261729.5	-	17	2066	c.1751C>T	c.(1750-1752)aCg>aTg	p.T584M	RASAL1_ENST00000418411.2_5'UTR|RASAL1_ENST00000446861.3_Missense_Mutation_p.T584M|RASAL1_ENST00000546530.1_Missense_Mutation_p.T586M|RASAL1_ENST00000548055.1_Missense_Mutation_p.T585M			O95294	RASL1_HUMAN	RAS protein activator like 1 (GAP1 like)	584	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				intracellular signal transduction (GO:0035556)|negative regulation of Ras protein signal transduction (GO:0046580)|positive regulation of Ras GTPase activity (GO:0032320)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)	metal ion binding (GO:0046872)|phospholipid binding (GO:0005543)|Ras GTPase activator activity (GO:0005099)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(19)|ovary(3)|prostate(2)|skin(2)	43						GGCAAAGCGCGTGGCCAGGCC	0.627													G|||	1	0.000199681	0.0008	0.0	5008	,	,		20842	0.0		0.0	False		,,,				2504	0.0															0								G	MET/THR,MET/THR,MET/THR	2,4404	4.2+/-10.8	0,2,2201	65	69	68		1757,1751,1751	5.4	0.5	12	dbSNP_134	68	0,8600		0,0,4300	no	missense,missense,missense	RASAL1	NM_001193520.1,NM_001193521.1,NM_004658.2	81,81,81	0,2,6501	AA,AG,GG		0.0,0.0454,0.0154	possibly-damaging,possibly-damaging,possibly-damaging	586/807,584/777,584/805	113543595	2,13004	2203	4300	6503	SO:0001583	missense	8437			AF086713	CCDS9165.1, CCDS55888.1, CCDS55889.1, CCDS73529.1	12q23-q24	2013-01-10			ENSG00000111344	ENSG00000111344		"Pleckstrin homology (PH) domain containing"	9873	protein-coding gene	gene with protein product		604118				9751798	Standard	NM_001193520		Approved	RASAL	uc001tul.3	O95294	OTTHUMG00000169705	ENST00000261729.5:c.1751C>T	12.37:g.113543595G>A	ENSP00000261729:p.Thr584Met	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKM4|C9JFK5|F8VQX1|Q52M03|Q59H24|Q96CC7	Missense_Mutation	SNP	ENST00000261729.5	37	CCDS9165.1	.	.	.	.	.	.	.	.	.	.	G	12.02	1.811715	0.32053	4.54E-4	0.0	ENSG00000111344	ENST00000546530;ENST00000261729;ENST00000446861;ENST00000548055	T;T;T;T	0.17370	2.28;2.28;2.28;2.28	5.36	5.36	0.76844	Rho GTPase activation protein (1);Pleckstrin homology-type (1);Pleckstrin homology domain (3);Ras GTPase-activating protein (1);	0.653207	0.16178	N	0.225974	T	0.22044	0.0531	N	0.21373	0.66	0.09310	N	0.999999	D;D;D;B;B;D	0.58970	0.982;0.98;0.984;0.132;0.16;0.98	P;P;P;B;B;P	0.54544	0.755;0.641;0.755;0.017;0.029;0.641	T	0.21245	-1.0251	10	0.16420	T	0.52	.	17.8471	0.88733	0.0:0.0:1.0:0.0	.	585;585;598;586;584;584	B4DG06;F8VRH9;Q59H24;F8VQX1;O95294;O95294-2	.;.;.;.;RASL1_HUMAN;.	M	586;584;584;585	ENSP00000450244:T586M;ENSP00000261729:T584M;ENSP00000395920:T584M;ENSP00000448510:T585M	ENSP00000261729:T584M	T	-	2	0	RASAL1	112027978	1.000000	0.71417	0.484000	0.27391	0.791000	0.44710	5.909000	0.69923	2.517000	0.84864	0.455000	0.32223	ACG		0.627	RASAL1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000405522.2	NM_004658		A	113543595	G	A	113543595	3	1	638	1	0	0	0	0	1	0	0	0	13076	1145	40	1	687	1	RASAL1	12	113543595	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10	60469637	113543595	20308300	71	39408										
ZMYM5	9205	bcgsc.ca	37	chr13	20426145	20426145	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tagattcaataaacacaacaTcatcatcatcatcatcatct	1	11	8	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr13:20426145T>A	ENST00000337963.4	-	3	440	c.176A>T	c.(175-177)gAt>gTt	p.D59V	ZMYM5_ENST00000382907.4_Missense_Mutation_p.D59V|ZMYM5_ENST00000382905.4_Missense_Mutation_p.D59V	NM_001142684.1	NP_001136156.1	Q9UJ78	ZMYM5_HUMAN	zinc finger, MYM-type 5	59	Poly-Asp.					nucleus (GO:0005634)	zinc ion binding (GO:0008270)			kidney(1)|large_intestine(5)|lung(9)	15		all_cancers(29;2.96e-22)|all_epithelial(30;3.76e-20)|all_lung(29;4.38e-20)|Lung NSC(5;5.8e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.61e-05)|Epithelial(112;4.89e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00171)|Lung(94;0.00942)|LUSC - Lung squamous cell carcinoma(192;0.0431)		AAACACAAcatcatcatcatc	0.378																																																0													100	96	98					13																	20426145		2203	4300	6503	SO:0001583	missense	9205			AF161535	CCDS31942.1, CCDS31943.1	13q12	2013-01-08	2005-09-12	2005-09-12	ENSG00000132950	ENSG00000132950		"Zinc fingers, MYM type"	13029	protein-coding gene	gene with protein product			"zinc finger protein 237"	ZNF237			Standard	NM_001039650		Approved	ZNF198L1, MYM	uc010tcn.1	Q9UJ78	OTTHUMG00000016504	ENST00000337963.4:c.176A>T	13.37:g.20426145T>A	ENSP00000337034:p.Asp59Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6V1|Q5T6E1|Q5T6E2|Q5T6E4|Q96IY6|Q9NZY5|Q9UBW0|Q9UJ77	Missense_Mutation	SNP	ENST00000337963.4	37		.	.	.	.	.	.	.	.	.	.	T	10.24	1.296635	0.23650	.	.	ENSG00000132950	ENST00000337963;ENST00000502168;ENST00000382907;ENST00000382905	T;T;T;T	0.33654	1.4;1.4;1.4;1.4	0.575	0.575	0.17374	.	.	.	.	.	T	0.54727	0.1876	M	0.73598	2.24	0.25900	N	0.983367	D;D;D	0.89917	0.994;1.0;0.999	D;D;D	0.87578	0.99;0.998;0.996	T	0.39057	-0.9632	8	0.49607	T	0.09	-11.1414	.	.	.	.	59;59;59	Q9UJ78;Q9UJ78-2;Q9UJ78-1	ZMYM5_HUMAN;.;.	V	59;49;59;59	ENSP00000337034:D59V;ENSP00000445779:D49V;ENSP00000372364:D59V;ENSP00000372361:D59V	ENSP00000337034:D59V	D	-	2	0	ZMYM5	19324145	0.999000	0.42202	0.998000	0.56505	0.918000	0.54935	0.221000	0.17680	0.554000	0.29061	0.219000	0.17774	GAT		0.378	ZMYM5-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_014242		A	20426145	T	A	20426145	3	1	638	1	0	0	0	0	1	0	0	0	17715	1435	50	5	1968	5	ZMYM5	13	20426145	Missense_Mutation	SNP	T	TCGA-KL-8339-01A-11D-2310-10		20426145	94743733	72	39409										
DIAPH3	81624	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr13	60240728	60240728	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ccagtttaacttataaagctCgtaatcttgccagcagggct	8	10	1	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr13:60240728C>T	ENST00000400324.4	-	28	3792	c.3572G>A	c.(3571-3573)cGa>cAa	p.R1191Q	DIAPH3_ENST00000400320.1_Missense_Mutation_p.R1145Q|DIAPH3_ENST00000400319.1_Missense_Mutation_p.R1121Q|DIAPH3_ENST00000377908.2_Missense_Mutation_p.R1180Q|DIAPH3_ENST00000400330.1_Missense_Mutation_p.R1191Q	NM_001042517.1|NM_001258366.1	NP_001035982.1|NP_001245295.1	Q9NSV4	DIAP3_HUMAN	diaphanous-related formin 3	1191					actin cytoskeleton organization (GO:0030036)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(7)|liver(1)|lung(20)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	46		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		TTATAAAGCTCGTAATCTTGC	0.323																																																0													62	59	60					13																	60240728		1798	4064	5862	SO:0001583	missense	81624			AL137718	CCDS41898.1, CCDS58294.1, CCDS58295.1, CCDS58296.1, CCDS58297.1, CCDS73579.1, CCDS73580.1	13q21.2	2013-05-24	2013-05-24		ENSG00000139734	ENSG00000139734			15480	protein-coding gene	gene with protein product		614567	"diaphanous (Drosophila, homolog) 3", "auditory neuropathy, autosomal dominant 1", "diaphanous homolog 3 (Drosophila)"	AUNA1		14767582, 20624953	Standard	NM_030932		Approved	DRF3, FLJ34705, AN, NSDAN	uc001vht.4	Q9NSV4	OTTHUMG00000017004	ENST00000400324.4:c.3572G>A	13.37:g.60240728C>T	ENSP00000383178:p.Arg1191Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3B8|A2A3B9|A2A3C0|Q18P99|Q18PA0|Q18PA1|Q2KPB6|Q3ZK23|Q5JTP8|Q5T2S7|Q5XKF6|Q6MZF0|Q6NUP0|Q86VS4|Q8NAV4	Missense_Mutation	SNP	ENST00000400324.4	37	CCDS41898.1	.	.	.	.	.	.	.	.	.	.	C	19.51	3.841641	0.71488	.	.	ENSG00000139734	ENST00000400324;ENST00000400330;ENST00000400327;ENST00000413168;ENST00000400329;ENST00000377908;ENST00000400319;ENST00000400320	D;D;D;D;D	0.82803	-1.63;-1.63;-1.65;-1.6;-1.59	5.55	4.7	0.59300	.	1.783920	0.04654	U	0.407671	D	0.87442	0.6178	N	0.24115	0.695	0.28433	N	0.917184	D	0.89917	1.0	D	0.79108	0.992	T	0.78945	-0.2004	10	0.87932	D	0	.	14.7908	0.69841	0.0:0.9292:0.0:0.0708	.	1191	Q9NSV4	DIAP3_HUMAN	Q	1191;1191;1180;1145;1121;1180;1121;1145	ENSP00000383178:R1191Q;ENSP00000383184:R1191Q;ENSP00000367141:R1180Q;ENSP00000383173:R1121Q;ENSP00000383174:R1145Q	ENSP00000367141:R1180Q	R	-	2	0	DIAPH3	59138729	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	4.392000	0.59659	2.602000	0.87976	0.655000	0.94253	CGA		0.323	DIAPH3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000045166.3	NM_001042517		T	60240728	C	T	60240728	3	4	638	1	0	0	0	0	1	0	0	0	4522	884	31	1	13	1	DIAPH3	13	60240728	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	39814583	60240728	54929150	73	39410										
PABPN1	8106	hgsc.bcm.edu	37	chr14	23790864	23790864	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	gagcctgaggagctgctgctGgagcccgagccggagcccga	17	13	0	1	rs188436762	byFrequency	TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr14:23790864G>A	ENST00000216727.4	+	1	367	c.186G>A	c.(184-186)ctG>ctA	p.L62L	BCL2L2-PABPN1_ENST00000557008.1_Intron|PABPN1_ENST00000556821.1_5'UTR|PABPN1_ENST00000397276.2_Silent_p.L62L|PABPN1_ENST00000557702.1_5'Flank|AL049829.1_ENST00000594872.1_Missense_Mutation_p.P85L|BCL2L2-PABPN1_ENST00000553781.1_Intron	NM_004643.3	NP_004634.1	Q86U42	PABP2_HUMAN	poly(A) binding protein, nuclear 1	62	Interacts with SKIP.				gene expression (GO:0010467)|modification by virus of host mRNA processing (GO:0046778)|modulation by virus of host morphology or physiology (GO:0019048)|modulation by virus of host process (GO:0019054)|mRNA 3'-end processing (GO:0031124)|mRNA splicing, via spliceosome (GO:0000398)|muscle contraction (GO:0006936)|poly(A)+ mRNA export from nucleus (GO:0016973)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)|viral life cycle (GO:0019058)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			large_intestine(1)|lung(1)|ovary(2)	4	all_cancers(95;6.69e-06)			GBM - Glioblastoma multiforme(265;0.00643)		AGCTGCTGCTGGAGCCCGAGC	0.801													G|||	74	0.0147764	0.0	0.0058	5008	,	,		4069	0.0		0.0219	False		,,,				2504	0.0491															0								G	,	7,2789		0,7,1391	2	2	2		,186	1.7	1	14		2	49,5451		0,49,2701	no	intron,coding-synonymous	PABPN1,BCL2L2-PABPN1	NM_001199864.1,NM_004643.3	,	0,56,4092	AA,AG,GG		0.8909,0.2504,0.675	,	,62/307	23790864	56,8240	1398	2750	4148	SO:0001819	synonymous_variant	8106			AF026029	CCDS9592.1	14q11.2	2013-02-12	2001-11-28		ENSG00000100836	ENSG00000100836		"RNA binding motif (RRM) containing"	8565	protein-coding gene	gene with protein product		602279	"poly(A)-binding protein, nuclear 1"	OPMD, PABP2		7795598	Standard	NM_004643		Approved	PAB2		Q86U42	OTTHUMG00000028739	ENST00000216727.4:c.186G>A	14.37:g.23790864G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DS49|O43484	Silent	SNP	ENST00000216727.4	37	CCDS9592.1																																																																																				0.801	PABPN1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000071767.4	NM_004643		A	23790864	G	A	23790864	2	1	638	1	0	0	0	0	0	0	0	1	11375	1335	47	2		2	PABPN1	14	23790864	Silent	SNP	G	TCGA-KL-8339-01A-11D-2310-10		23790864	83558676	74	39411										
ADCY4	196883	hgsc.bcm.edu;mdanderson.org	37	chr14	24788628	24788628	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ttctccaccccactgaacttGggcttggagagcagctgtat	10	12	1	2			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr14:24788628G>T	ENST00000310677.4	-	23	2861	c.2748C>A	c.(2746-2748)ccC>ccA	p.P916P	ADCY4_ENST00000418030.2_Silent_p.P916P|ADCY4_ENST00000554068.2_Silent_p.P916P	NM_001198568.1|NM_001198592.1|NM_139247.3	NP_001185497.1|NP_001185521.1|NP_640340.2	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	916					activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|cAMP biosynthetic process (GO:0006171)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|neurotrophin TRK receptor signaling pathway (GO:0048011)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cytoplasm (GO:0005737)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	adenylate cyclase activity (GO:0004016)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)			cervix(1)|endometrium(1)|kidney(1)|large_intestine(10)|lung(13)|ovary(2)|pancreas(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	34				GBM - Glioblastoma multiforme(265;0.0192)		CACTGAACTTGGGCTTGGAGA	0.547																																																0													153	128	136					14																	24788628		2203	4300	6503	SO:0001819	synonymous_variant	196883			AF497516	CCDS9627.1	14q11.2	2013-02-04			ENSG00000129467	ENSG00000129467	4.6.1.1	"Adenylate cyclases"	235	protein-coding gene	gene with protein product		600292				7766992	Standard	NM_001198592		Approved	AC4	uc001woy.3	Q8NFM4	OTTHUMG00000029347	ENST00000310677.4:c.2748C>A	14.37:g.24788628G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KV74|D3DS75|Q17R40|Q6ZTM6|Q96ML7	Silent	SNP	ENST00000310677.4	37	CCDS9627.1																																																																																				0.547	ADCY4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000073200.4			T	24788628	G	T	24788628	2	4	638	1	0	0	0	0	0	0	0	1	296	1335	47	4		4	ADCY4	14	24788628	Silent	SNP	G	TCGA-KL-8339-01A-11D-2310-10	997764	24788628	82560912	75	39412										
WDR72	256764	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	53908269	53908269	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	gctcttggctcttctcaggaCctcaccaccatagaatgaac	7	14	4	2			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr15:53908269C>A	ENST00000396328.1	-	15	2373	c.2134G>T	c.(2134-2136)Gtc>Ttc	p.V712F	WDR72_ENST00000557913.1_Missense_Mutation_p.V709F|WDR72_ENST00000559418.1_Missense_Mutation_p.V722F|WDR72_ENST00000360509.5_Missense_Mutation_p.V712F	NM_001277176.1|NM_182758.2	NP_001264105.1|NP_877435.3	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	712										NS(1)|breast(1)|endometrium(4)|kidney(4)|large_intestine(18)|lung(29)|prostate(3)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	71				all cancers(107;0.0511)		CTTCTCAGGACCTCACCACCA	0.448																																																0													103	90	95					15																	53908269		2194	4293	6487	SO:0001583	missense	256764			BX537884	CCDS10151.1, CCDS73730.1	15q21.3	2013-01-09			ENSG00000166415	ENSG00000166415		"WD repeat domain containing"	26790	protein-coding gene	gene with protein product		613214					Standard	NM_182758		Approved	FLJ38736	uc002acj.2	Q3MJ13	OTTHUMG00000131939	ENST00000396328.1:c.2134G>T	15.37:g.53908269C>A	ENSP00000379619:p.Val712Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z3I3|Q8N8X2	Missense_Mutation	SNP	ENST00000396328.1	37	CCDS10151.1	.	.	.	.	.	.	.	.	.	.	C	4.185	0.032979	0.08101	.	.	ENSG00000166415	ENST00000396328;ENST00000360509	T;T	0.35236	1.32;1.32	5.63	0.289	0.15723	.	0.547874	0.18921	N	0.127463	T	0.10594	0.0259	N	0.03608	-0.345	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.19549	-1.0302	10	0.10111	T	0.7	.	1.2131	0.01908	0.1372:0.2327:0.1424:0.4877	.	712	Q3MJ13	WDR72_HUMAN	F	712	ENSP00000379619:V712F;ENSP00000353699:V712F	ENSP00000353699:V712F	V	-	1	0	WDR72	51695561	0.371000	0.25056	0.248000	0.24265	0.239000	0.25481	0.442000	0.21628	0.070000	0.16634	-0.471000	0.05019	GTC		0.448	WDR72-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254893.2	NM_182758		A	53908269	C	A	53908269	3	1	638	1	0	0	0	0	1	0	0	0	17334	507	18	4	1198	4	WDR72	15	53908269	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10		53908269	48623123	76	39413										
CD276	80381	broad.mit.edu;mdanderson.org	37	chr15	73996604	73996604	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	catcacgtgctccagctaccGgggctaccctgaggctgagg	13	14	1	2	rs150186392	byFrequency	TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr15:73996604G>A	ENST00000318443.5	+	6	1462	c.1160G>A	c.(1159-1161)cGg>cAg	p.R387Q	CD276_ENST00000318424.5_Missense_Mutation_p.R169Q|CD276_ENST00000564751.1_Missense_Mutation_p.R169Q|CD276_ENST00000561213.1_Missense_Mutation_p.R387Q|CD276_ENST00000537340.2_Missense_Mutation_p.R241Q	NM_001024736.1	NP_001019907.1	Q5ZPR3	CD276_HUMAN	CD276 molecule	387	Ig-like C2-type 2.			R -> Q (in Ref. 3; AAQ88709). {ECO:0000305}.	cell proliferation (GO:0008283)|immune response (GO:0006955)|negative regulation of inflammatory response (GO:0050728)|negative regulation of interferon-gamma biosynthetic process (GO:0045077)|negative regulation of interleukin-2 biosynthetic process (GO:0045085)|negative regulation of T cell proliferation (GO:0042130)|positive regulation of bone mineralization (GO:0030501)|positive regulation of interferon-gamma biosynthetic process (GO:0045078)|positive regulation of interleukin-2 secretion (GO:1900042)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of T cell proliferation (GO:0042102)|regulation of immune response (GO:0050776)|T cell activation (GO:0042110)	external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	receptor binding (GO:0005102)	p.R387Q(1)		endometrium(3)|lung(5)|ovary(1)|skin(2)|stomach(1)|urinary_tract(1)	13						TCCAGCTACCGGGGCTACCCT	0.637													G|||	8	0.00159744	0.0023	0.0014	5008	,	,		21293	0.001		0.003	False		,,,				2504	0.0															1	Substitution - Missense(1)	lung(1)											97	88	91					15																	73996604		2198	4297	6495	SO:0001583	missense	80381			AF302102	CCDS10251.1, CCDS32288.1	15q23-q24	2013-01-11	2006-03-28		ENSG00000103855	ENSG00000103855		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing"	19137	protein-coding gene	gene with protein product		605715	"CD276 antigen"			11224528, 12055244	Standard	XM_005254699		Approved	B7-H3, B7H3, B7RP-2	uc002avv.1	Q5ZPR3	OTTHUMG00000137585	ENST00000318443.5:c.1160G>A	15.37:g.73996604G>A	ENSP00000320084:p.Arg387Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P5Y4|Q6UXI2|Q8NBI8|Q8NC34|Q8NCB6|Q9BXR1	Missense_Mutation	SNP	ENST00000318443.5	37	CCDS32288.1	.	.	.	.	.	.	.	.	.	.	G	9.790	1.177721	0.21787	.	.	ENSG00000103855	ENST00000318424;ENST00000318443;ENST00000379823;ENST00000537340	T;T;T	0.16897	2.31;2.31;2.31	4.28	2.34	0.29019	Immunoglobulin subtype (1);CD80-like, immunoglobulin C2-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.430418	0.25130	N	0.032914	T	0.06280	0.0162	N	0.04724	-0.175	0.22531	N	0.999014	B;B;B;B	0.31435	0.073;0.001;0.323;0.276	B;B;B;B	0.25140	0.024;0.002;0.058;0.026	T	0.23797	-1.0178	10	0.62326	D	0.03	-14.0859	3.2429	0.06787	0.3219:0.2114:0.4667:0.0	.	333;169;387;387	B4DK26;Q5ZPR3-2;Q5ZPR3;Q5ZPR3-4	.;.;CD276_HUMAN;.	Q	169;387;387;241	ENSP00000320058:R169Q;ENSP00000320084:R387Q;ENSP00000441087:R241Q	ENSP00000320058:R169Q	R	+	2	0	CD276	71783657	0.984000	0.35163	1.000000	0.80357	0.996000	0.88848	2.125000	0.42016	0.774000	0.33427	0.456000	0.33151	CGG		0.637	CD276-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268979.1	NM_025240		A	73996604	G	A	73996604	3	1	638	1	0	0	0	0	1	0	0	0	2994	1116	39	1	1178	1	CD276	15	73996604	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10	20088335	73996604	28534788	77	39414										
IL32	9235	broad.mit.edu	37	chr16	3119142	3119142	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	gttccaggccatgctgcagcGgctgcagacctggtggcacg	15	13	0	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr16:3119142G>A	ENST00000534507.1	+	6	702	c.491G>A	c.(490-492)cGg>cAg	p.R164Q	IL32_ENST00000529699.1_Missense_Mutation_p.R98Q|IL32_ENST00000549213.1_Intron|IL32_ENST00000548476.1_Missense_Mutation_p.R164Q|IL32_ENST00000552664.1_Missense_Mutation_p.R118Q|IL32_ENST00000525643.2_Missense_Mutation_p.R118Q|IL32_ENST00000551122.1_Intron|IL32_ENST00000528163.2_Missense_Mutation_p.R118Q|IL32_ENST00000440815.3_Missense_Mutation_p.R118Q|IL32_ENST00000396890.2_Missense_Mutation_p.R164Q|RNU1-125P_ENST00000516752.1_RNA|IL32_ENST00000531965.1_Missense_Mutation_p.R108Q|IL32_ENST00000548246.1_Missense_Mutation_p.R78Q|IL32_ENST00000396887.3_Intron|IL32_ENST00000444393.3_Missense_Mutation_p.R118Q|IL32_ENST00000530890.1_Missense_Mutation_p.R98Q|IL32_ENST00000548652.1_Missense_Mutation_p.R109Q|IL32_ENST00000526464.2_Missense_Mutation_p.R118Q|IL32_ENST00000551513.1_Missense_Mutation_p.R155Q|IL32_ENST00000552356.1_Missense_Mutation_p.R98Q|IL32_ENST00000533097.2_Missense_Mutation_p.R118Q|IL32_ENST00000008180.9_Missense_Mutation_p.R98Q|IL32_ENST00000530538.2_Missense_Mutation_p.R118Q|IL32_ENST00000382213.3_Missense_Mutation_p.R109Q|IL32_ENST00000552936.1_Missense_Mutation_p.R142Q|IL32_ENST00000529550.1_Missense_Mutation_p.R118Q|IL32_ENST00000325568.5_Missense_Mutation_p.R118Q			P24001	IL32_HUMAN	interleukin 32	164					cell adhesion (GO:0007155)|defense response (GO:0006952)|immune response (GO:0006955)	extracellular space (GO:0005615)|membrane (GO:0016020)				breast(1)|endometrium(1)|large_intestine(3)|lung(6)|ovary(1)|pancreas(1)|skin(1)|urinary_tract(1)	15						ATGCTGCAGCGGCTGCAGACC	0.602																																																0													14	17	16					16																	3119142		2187	4273	6460	SO:0001583	missense	9235			M59807	CCDS32377.1, CCDS32378.1, CCDS32379.1, CCDS45394.1	16p13.3	2011-07-21			ENSG00000008517	ENSG00000008517		"Interleukins and interleukin receptors"	16830	protein-coding gene	gene with protein product	"natural killer cell transcript 4"	606001				1729377, 9653642	Standard	XM_005255686		Approved	NK4, TAIF, TAIFb, TAIFd	uc002ctn.3	P24001	OTTHUMG00000167498	ENST00000534507.1:c.491G>A	16.37:g.3119142G>A	ENSP00000431775:p.Arg164Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNM0|A8MPX0|B4DJM1|B8Q191|D3DUB0|D3DUB2|Q5VFH7|Q5VFH8|Q8WV38|Q96GK9	Missense_Mutation	SNP	ENST00000534507.1	37		.	.	.	.	.	.	.	.	.	.	G	12.54	1.967547	0.34754	.	.	ENSG00000008517	ENST00000325568;ENST00000534507;ENST00000531965;ENST00000529699;ENST00000526464;ENST00000440815;ENST00000529550;ENST00000525643;ENST00000548807;ENST00000528163;ENST00000530890;ENST00000444393;ENST00000533097;ENST00000008180;ENST00000396890;ENST00000525228;ENST00000548652;ENST00000530538;ENST00000552936;ENST00000548476;ENST00000552664;ENST00000552356;ENST00000551513;ENST00000382213;ENST00000548246	T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.73047	-0.71;0.84;0.84;0.84;-0.71;-0.71;-0.71;-0.71;0.84;-0.71;0.84;-0.71;-0.71;0.84;0.84;-0.71;-0.71;-0.71;0.84;0.84;-0.71;0.84;0.84;-0.71;0.84	1.89	-1.81	0.07882	.	.	.	.	.	T	0.50718	0.1632	N	0.14661	0.345	0.09310	N	1	P;P;P;P;P;P	0.41188	0.741;0.741;0.741;0.741;0.555;0.741	B;B;B;B;B;B	0.42916	0.312;0.402;0.402;0.312;0.116;0.402	T	0.43475	-0.9389	9	0.39692	T	0.17	.	5.3676	0.16123	0.5537:0.0:0.4463:0.0	.	78;98;109;98;164;118	B8Q191;C6GKH1;A6NNM0;A8MPX0;P24001;P24001-2	.;.;.;.;IL32_HUMAN;.	Q	118;164;108;98;118;118;118;118;164;118;98;118;118;98;164;89;109;118;142;164;118;98;155;109;78	ENSP00000324742:R118Q;ENSP00000431775:R164Q;ENSP00000433177:R108Q;ENSP00000436937:R98Q;ENSP00000450364:R118Q;ENSP00000405063:R118Q;ENSP00000437020:R118Q;ENSP00000432218:R118Q;ENSP00000448354:R164Q;ENSP00000432850:R118Q;ENSP00000433747:R98Q;ENSP00000411958:R118Q;ENSP00000432917:R118Q;ENSP00000008180:R98Q;ENSP00000380099:R164Q;ENSP00000431740:R89Q;ENSP00000446624:R109Q;ENSP00000436929:R118Q;ENSP00000447033:R142Q;ENSP00000449483:R164Q;ENSP00000448683:R118Q;ENSP00000446978:R98Q;ENSP00000449147:R155Q;ENSP00000371648:R109Q;ENSP00000447979:R78Q	ENSP00000008180:R98Q	R	+	2	0	IL32	3059143	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.432000	0.06956	-0.401000	0.07644	-0.287000	0.09952	CGG		0.602	IL32-002	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000394812.2	NM_004221		A	3119142	G	A	3119142	3	1	638	1	0	0	0	0	1	0	0	0	7699	1116	39	1	375	1	IL32	16	3119142	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10		3119142	87235611	78	39415										
GDPD3	79153	ucsc.edu;bcgsc.ca	37	chr16	30122776	30122776	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tgggatgaagggcagcagccCcaggtagtaggaaagcagca	16	8	0	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr16:30122776C>T	ENST00000406256.3	-	7	1017	c.640G>A	c.(640-642)Ggg>Agg	p.G214R	RP11-455F5.4_ENST00000566190.1_RNA	NM_024307.2	NP_077283.2	Q7L5L3	GDPD3_HUMAN	glycerophosphodiester phosphodiesterase domain containing 3	214	GP-PDE.				glycerol metabolic process (GO:0006071)|lipid metabolic process (GO:0006629)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	glycerophosphodiester phosphodiesterase activity (GO:0008889)|metal ion binding (GO:0046872)			biliary_tract(1)|breast(1)|central_nervous_system(1)|large_intestine(2)|lung(6)	11						GGCAGCAGCCCCAGGTAGTAG	0.552																																																0													134	136	135					16																	30122776		2197	4300	6497	SO:0001583	missense	79153			AK026256	CCDS10671.2	16p11.2	2008-02-05			ENSG00000102886	ENSG00000102886			28638	protein-coding gene	gene with protein product							Standard	NM_024307		Approved	MGC4171	uc002dwp.3	Q7L5L3	OTTHUMG00000132106	ENST00000406256.3:c.640G>A	16.37:g.30122776C>T	ENSP00000384363:p.Gly214Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H652	Missense_Mutation	SNP	ENST00000406256.3	37	CCDS10671.2	.	.	.	.	.	.	.	.	.	.	C	25.1	4.606060	0.87157	.	.	ENSG00000102886	ENST00000406256;ENST00000360688	T	0.12039	2.72	5.45	5.45	0.79879	PLC-like phosphodiesterase, TIM beta/alpha-barrel domain (2);	0.000000	0.85682	D	0.000000	T	0.44393	0.1291	M	0.88775	2.98	0.52099	D	0.999946	D	0.89917	1.0	D	0.91635	0.999	T	0.50717	-0.8795	10	0.72032	D	0.01	.	14.7878	0.69816	0.0:1.0:0.0:0.0	.	214	Q7L5L3	GDPD3_HUMAN	R	214;152	ENSP00000384363:G214R	ENSP00000353909:G152R	G	-	1	0	GDPD3	30030277	1.000000	0.71417	1.000000	0.80357	0.918000	0.54935	4.966000	0.63715	2.523000	0.85059	0.655000	0.94253	GGG		0.552	GDPD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255144.1	NM_024307		T	30122776	C	T	30122776	3	4	638	1	0	0	0	0	1	0	0	0	6332	623	22	2	332	2	GDPD3	16	30122776	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	27003634	30122776	60231977	79	39416										
RNF167	26001	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	4845935	4845935	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	acaatgtgaattccaatgaaCttctgaacatggtgtggaat	9	6	1	3			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr17:4845935C>T	ENST00000262482.6	+	5	1011	c.355C>T	c.(355-357)Ctt>Ttt	p.L119F	RNF167_ENST00000575111.1_Missense_Mutation_p.L119F|RNF167_ENST00000571816.1_Missense_Mutation_p.L119F|SLC25A11_ENST00000544061.2_5'Flank|RNF167_ENST00000572430.1_Missense_Mutation_p.L119F|RNF167_ENST00000570492.1_3'UTR|SLC25A11_ENST00000225665.7_5'Flank|RNF167_ENST00000576229.1_Missense_Mutation_p.L84F	NM_015528.1	NP_056343.1	Q9H6Y7	RN167_HUMAN	ring finger protein 167	119	PA.				negative regulation of cell cycle (GO:0045786)|protein polyubiquitination (GO:0000209)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			endometrium(1)|large_intestine(2)|lung(1)	4						TTCCAATGAACTTCTGAACAT	0.512																																																0													152	152	152					17																	4845935		2203	4300	6503	SO:0001583	missense	26001			AL050060	CCDS11060.1	17p13.3	2013-02-21			ENSG00000108523	ENSG00000108523		"RING-type (C3HC4) zinc fingers"	24544	protein-coding gene	gene with protein product		610431				23129617, 23353890	Standard	NM_015528		Approved	DKFZP566H073	uc002fzs.3	Q9H6Y7	OTTHUMG00000099397	ENST00000262482.6:c.355C>T	17.37:g.4845935C>T	ENSP00000262482:p.Leu119Phe	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTK8|Q6XYE0|Q8NDC1|Q9Y3V1	Missense_Mutation	SNP	ENST00000262482.6	37	CCDS11060.1	.	.	.	.	.	.	.	.	.	.	C	21.5	4.158175	0.78114	.	.	ENSG00000108523	ENST00000262482	T	0.06608	3.28	5.91	5.91	0.95273	Protease-associated domain, PA (1);	0.000000	0.85682	D	0.000000	T	0.34600	0.0903	M	0.91510	3.215	0.53005	D	0.999963	D	0.76494	0.999	D	0.83275	0.996	T	0.19289	-1.0310	10	0.56958	D	0.05	-23.6247	17.7884	0.88545	0.0:1.0:0.0:0.0	.	119	Q9H6Y7	RN167_HUMAN	F	119	ENSP00000262482:L119F	ENSP00000262482:L119F	L	+	1	0	RNF167	4786680	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	1.819000	0.39022	2.804000	0.96469	0.462000	0.41574	CTT		0.512	RNF167-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216854.3	NM_015528		T	4845935	C	T	4845935	3	4	638	1	0	0	0	0	1	0	0	0	13471	565	20	2	369	2	RNF167	17	4845935	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10		4845935	76349275	80	39417										
KIAA0753	9851	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr17	6515464	6515464	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	agctccgtatcgggctgataCttatctacatggaaattttt	8	8	1	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr17:6515464C>T	ENST00000361413.3	-	8	1678	c.1320G>A	c.(1318-1320)aaG>aaA	p.K440K	KIAA0753_ENST00000542606.1_Silent_p.K141K|KIAA0753_ENST00000572370.1_Silent_p.K141K|KIAA0753_ENST00000589033.1_Intron	NM_014804.2	NP_055619.2	Q2KHM9	K0753_HUMAN	KIAA0753	440						centrosome (GO:0005813)|cytoplasm (GO:0005737)				endometrium(4)|large_intestine(11)|lung(5)|prostate(4)	24				COAD - Colon adenocarcinoma(228;0.157)		CGGGCTGATACTTATCTACAT	0.393																																																0													79	79	79					17																	6515464		1846	4094	5940	SO:0001819	synonymous_variant	9851				CCDS42247.1	17p13.1	2014-04-04			ENSG00000198920	ENSG00000198920			29110	protein-coding gene	gene with protein product						24613305	Standard	NM_014804		Approved		uc002gde.4	Q2KHM9	OTTHUMG00000177928	ENST00000361413.3:c.1320G>A	17.37:g.6515464C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8KA11|B7Z479|O94853|Q05D97|Q2KHN0|Q9UG45	Silent	SNP	ENST00000361413.3	37	CCDS42247.1																																																																																				0.393	KIAA0753-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000439769.3	NM_014804		T	6515464	C	T	6515464	2	4	638	1	0	0	0	0	0	0	0	1	8198	564	20	2		2	KIAA0753	17	6515464	Silent	SNP	C	TCGA-KL-8339-01A-11D-2310-10	1669529	6515464	74679746	81	39418										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	7577094	7577094	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	attctcttcctctgtgcgccGgtctctcccaggacaggcac	9	16	3	0	rs28934574		TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr17:7577094G>A	ENST00000269305.4	-	8	1033	c.844C>T	c.(844-846)Cgg>Tgg	p.R282W	TP53_ENST00000574684.1_5'Flank|TP53_ENST00000445888.2_Missense_Mutation_p.R282W|TP53_ENST00000420246.2_Missense_Mutation_p.R282W|TP53_ENST00000359597.4_Missense_Mutation_p.R282W|TP53_ENST00000455263.2_Missense_Mutation_p.R282W|TP53_ENST00000413465.2_Intron	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	282	Interaction with AXIN1. {ECO:0000250}.|Interaction with E4F1.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with ZNF385A.		DR -> EW (in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> H (in a sporadic cancer; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> Q (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation). {ECO:0000269|Ref.22}.|R -> W (in LFS; germline mutation and in sporadic cancers; somatic mutation; does not induce SNAI1 degradation; dbSNP:rs28934574). {ECO:0000269|PubMed:8829627}.		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.R282W(401)|p.R282G(29)|p.0?(8)|p.R282fs*24(4)|p.R282R(3)|p.?(2)|p.D281fs*63(2)|p.D281_R282>EW(2)|p.A276_R283delACPGRDRR(1)|p.D281_R282insXX(1)|p.C275fs*20(1)|p.R282_E287delRRTEEE(1)|p.L265_K305del41(1)|p.D281_R282delDR(1)|p.G279fs*59(1)|p.R280fs*62(1)|p.S269fs*21(1)|p.R282fs*63(1)|p.V272_K292del21(1)|p.C275_R283delCACPGRDRR(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	TCTGTGCGCCGGTCTCTCCCA	0.557		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	463	Substitution - Missense(430)|Whole gene deletion(8)|Deletion - In frame(6)|Deletion - Frameshift(5)|Insertion - Frameshift(4)|Substitution - coding silent(3)|Unknown(2)|Complex - frameshift(2)|Complex - compound substitution(2)|Insertion - In frame(1)	large_intestine(136)|oesophagus(49)|upper_aerodigestive_tract(43)|stomach(33)|central_nervous_system(29)|breast(29)|lung(26)|ovary(21)|skin(20)|urinary_tract(16)|haematopoietic_and_lymphoid_tissue(16)|pancreas(10)|biliary_tract(5)|liver(5)|bone(5)|vulva(4)|prostate(4)|endometrium(3)|peritoneum(2)|thyroid(2)|NS(2)|autonomic_ganglia(1)|soft_tissue(1)|salivary_gland(1)	GRCh37	CM056413|CM920678	TP53	M	rs28934574	G	TRP/ARG,TRP/ARG,TRP/ARG,TRP/ARG,TRP/ARG,TRP/ARG,TRP/ARG	0,4406		0,0,2203	83	71	75	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	844,844,844,844,448,448,448	1.5	0.3	17	dbSNP_125	75	2,8598	2.2+/-6.3	1,0,4299	no	missense,missense,missense,missense,missense,missense,missense	TP53	NM_000546.4,NM_001126112.1,NM_001126113.1,NM_001126114.1,NM_001126115.1,NM_001126116.1,NM_001126117.1	101,101,101,101,101,101,101	1,0,6502	AA,AG,GG		0.0233,0.0,0.0154	probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging	282/394,282/394,282/347,282/342,150/262,150/210,150/215	7577094	2,13004	2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.844C>T	17.37:g.7577094G>A	ENSP00000269305:p.Arg282Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	G	20.8	4.057525	0.76074	0.0	2.33E-4	ENSG00000141510	ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000509690	D;D;D;D;D;D	0.99869	-7.34;-7.34;-7.34;-7.34;-7.34;-7.34	4.75	1.49	0.22878	p53, DNA-binding domain (1);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.000000	0.85682	D	0.000000	D	0.99825	0.9922	M	0.89968	3.075	0.58432	A	0.999999	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	0.999;0.998;1.0;0.999	D	0.97713	1.0192	9	0.87932	D	0	-12.0909	8.7508	0.34613	0.0:0.1376:0.5833:0.2792	rs28934574	282;282;282;282	P04637-2;P04637-3;P04637;Q1MSW8	.;.;P53_HUMAN;.	W	282;282;282;282;282;271;150	ENSP00000352610:R282W;ENSP00000269305:R282W;ENSP00000398846:R282W;ENSP00000391127:R282W;ENSP00000391478:R282W;ENSP00000425104:R150W	ENSP00000269305:R282W	R	-	1	2	TP53	7517819	1.000000	0.71417	0.327000	0.25402	0.901000	0.52897	4.477000	0.60223	0.174000	0.19809	0.462000	0.41574	CGG		0.557	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		A	7577094	G	A	7577094	3	1	638	1	0	0	0	0	1	0	0	0	16393	1115	39	1	442	1	TP53	17	7577094	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10	1061630	7577094	73618116	82	39419										
SGK494	9703	hgsc.bcm.edu;ucsc.edu	37	chr17	26941165	26941165	+	IGR	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	gtgtgctgcccctgccgacaGcttactgctcccattcccag	9	17	0	0			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr17:26941165G>C	ENST00000528896.2	-	0	7407				SPAG5-AS1_ENST00000424210.1_RNA|KIAA0100_ENST00000579924.2_5'Flank|SGK494_ENST00000301037.5_Missense_Mutation_p.S5R|SPAG5-AS1_ENST00000554154.1_RNA|RP11-192H23.4_ENST00000534850.1_Missense_Mutation_p.S5R|RP11-192H23.4_ENST00000577790.1_Missense_Mutation_p.S5R|SPAG5-AS1_ENST00000414744.1_RNA|SGK494_ENST00000469832.3_5'UTR	NM_014680.3	NP_055495.2	Q14667	K0100_HUMAN	KIAA0100							extracellular region (GO:0005576)				breast(3)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(13)|lung(23)|ovary(2)|prostate(2)|skin(6)|stomach(2)|urinary_tract(3)	68	Lung NSC(42;0.00431)					CCTGCCGACAGCTTACTGCTC	0.602																																																0													70	59	63					17																	26941165		2203	4300	6503	SO:0001628	intergenic_variant	0			D43947	CCDS32595.1	17q11.2	2012-11-29			ENSG00000007202	ENSG00000007202			28960	protein-coding gene	gene with protein product	"cancer/testis antigen 101", "breast cancer overexpressed gene 1"	610664				16289875	Standard	NM_014680		Approved	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX	uc002hbu.3	Q14667	OTTHUMG00000166587		17.37:g.26941165G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NCX3|Q3SYN5|Q49A07|Q5H9T4|Q6WG74|Q6ZP51|Q96HH8	Missense_Mutation	SNP	ENST00000528896.2	37	CCDS32595.1	.	.	.	.	.	.	.	.	.	.	G	14.33	2.502072	0.44455	.	.	ENSG00000258472;ENSG00000167524;ENSG00000167524;ENSG00000167524;ENSG00000167524;ENSG00000167524	ENST00000531839;ENST00000378976;ENST00000481916;ENST00000301037;ENST00000534850;ENST00000530121	T;T	0.69685	-0.42;1.38	5.69	3.69	0.42338	.	0.467347	0.22679	N	0.056977	T	0.55065	0.1897	L	0.27053	0.805	0.27099	N	0.962675	P;P	0.48016	0.904;0.578	P;B	0.45829	0.494;0.172	T	0.49995	-0.8879	10	0.44086	T	0.13	-2.377	9.2841	0.37746	0.1697:0.0:0.8303:0.0	.	5;5	E9PMD0;Q96LW2	.;SG494_HUMAN	R	5	ENSP00000301037:S5R;ENSP00000434603:S5R	ENSP00000301037:S5R	S	-	3	2	AC005726.6;RP11-192H23.4	23965292	1.000000	0.71417	0.999000	0.59377	0.953000	0.61014	2.075000	0.41538	1.407000	0.46875	0.650000	0.86243	AGC		0.602	KIAA0100-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390571.3	NM_014680		C	26941165	G	C	26941165	1	2	638	0	1	0	0	0	0	0	0	0	14226	962	34	4		4	SGK494	17	26941165	IGR	SNP	G	TCGA-KL-8339-01A-11D-2310-10	19364071	26941165	54254045	83	39420										
FMNL1	752	mdanderson.org	37	chr17	43319770	43319770	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	cactcttgaactgggtggcaCtgaaacccagccagatcacc	9	14	2	3	rs1801353	byFrequency	TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr17:43319770C>T	ENST00000331495.3	+	16	2284	c.1948C>T	c.(1948-1950)Ctg>Ttg	p.L650L	CTD-2020K17.3_ENST00000393507.2_RNA|CTD-2020K17.4_ENST00000420431.2_RNA|FMNL1_ENST00000587489.1_Silent_p.L228L|FMNL1_ENST00000328118.3_Silent_p.L650L|CTD-2020K17.3_ENST00000587534.1_RNA	NM_005892.3	NP_005883	O95466	FMNL_HUMAN	formin-like 1	650	FH2. {ECO:0000255|PROSITE- ProRule:PRU00774}.				actin filament severing (GO:0051014)|cortical actin cytoskeleton organization (GO:0030866)|regulation of cell shape (GO:0008360)|substrate-dependent cell migration (GO:0006929)	cell projection (GO:0042995)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|phagocytic vesicle (GO:0045335)|plasma membrane (GO:0005886)	actin filament binding (GO:0051015)|GTPase activating protein binding (GO:0032794)|Rac GTPase binding (GO:0048365)			biliary_tract(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(8)|lung(12)|pancreas(1)|skin(1)|urinary_tract(2)	33						CTGGGTGGCACTGAAACCCAG	0.602													C|||	1608	0.321086	0.1036	0.4265	5008	,	,		17304	0.2837		0.4483	False		,,,				2504	0.4479				GBM(164;1247 1997 8702 11086 51972)											0								C		706,3700	294.7+/-283.3	60,586,1557	90	73	79		1948	1.7	1	17	dbSNP_89	79	4305,4295	576.8+/-390.4	1079,2147,1074	no	coding-synonymous	FMNL1	NM_005892.3		1139,2733,2631	TT,TC,CC		49.9419,16.0236,38.5284		650/1101	43319770	5011,7995	2203	4300	6503	SO:0001819	synonymous_variant	752			AJ008112	CCDS11497.1	17q21.31	2008-05-14	2003-12-02	2003-12-03		ENSG00000184922			1212	protein-coding gene	gene with protein product		604656	"formin-like"	C17orf1B, FMNL		9799091	Standard	NM_005892		Approved	C17orf1	uc002iin.3	O95466		ENST00000331495.3:c.1948C>T	17.37:g.43319770C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D2DGW2|Q6DKG5|Q6IBP3|Q86UH1|Q8N671|Q8TDH1|Q96H10	Silent	SNP	ENST00000331495.3	37	CCDS11497.1																																																																																				0.602	FMNL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450198.1	NM_005892		T	43319770	C	T	43319770	2	4	638	1	0	0	0	0	0	0	0	1	5958	564	20	2		2	FMNL1	17	43319770	Silent	SNP	C	TCGA-KL-8339-01A-11D-2310-10	16378605	43319770	37875440	84	39421										
USP14	9097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	211193	211193	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	aacaccagaagatatcttacGgctttctggtggtggagact	11	8	2	3	rs554797989		TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr18:211193G>T	ENST00000261601.7	+	16	1485	c.1394G>T	c.(1393-1395)cGg>cTg	p.R465L	USP14_ENST00000400266.3_Missense_Mutation_p.R454L|USP14_ENST00000383589.2_Missense_Mutation_p.R419L|USP14_ENST00000582707.1_Missense_Mutation_p.R430L	NM_005151.3	NP_005142.1	P54578	UBP14_HUMAN	ubiquitin specific peptidase 14 (tRNA-guanine transglycosylase)	465	USP.				negative regulation of endopeptidase activity (GO:0010951)|protein deubiquitination (GO:0016579)|regulation of chemotaxis (GO:0050920)|regulation of proteasomal protein catabolic process (GO:0061136)|synaptic transmission (GO:0007268)|ubiquitin-dependent protein catabolic process (GO:0006511)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)|proteasome complex (GO:0000502)|synapse (GO:0045202)	cysteine-type endopeptidase activity (GO:0004197)|endopeptidase inhibitor activity (GO:0004866)|proteasome binding (GO:0070628)|tRNA guanylyltransferase activity (GO:0008193)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			endometrium(1)|large_intestine(1)|lung(5)|ovary(2)|skin(2)	11		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)				GATATCTTACGGCTTTCTGGT	0.393																																																0													122	105	111					18																	211193		2203	4300	6503	SO:0001583	missense	9097			U30888	CCDS32780.1, CCDS32781.1	18p11.32	2006-10-06	2005-08-08			ENSG00000101557		"Ubiquitin-specific peptidases"	12612	protein-coding gene	gene with protein product		607274	"ubiquitin specific protease 14 (tRNA-guanine transglycosylase)"			12838346	Standard	NM_001037334		Approved	TGT	uc002kkf.1	P54578		ENST00000261601.7:c.1394G>T	18.37:g.211193G>T	ENSP00000261601:p.Arg465Leu	Somatic		WXS	Illumina HiSeq	Phase_I	J3QRZ5|Q53XY5	Missense_Mutation	SNP	ENST00000261601.7	37	CCDS32780.1	.	.	.	.	.	.	.	.	.	.	G	27.0	4.791266	0.90367	.	.	ENSG00000101557	ENST00000261601;ENST00000383589;ENST00000400266	T;T	0.30981	1.51;1.51	6.03	6.03	0.97812	Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2 (2);	0.103869	0.64402	D	0.000007	T	0.57681	0.2070	M	0.81942	2.565	0.80722	D	1	P;P;P	0.51933	0.879;0.825;0.949	P;P;P	0.58721	0.642;0.647;0.844	T	0.58358	-0.7650	10	0.66056	D	0.02	-17.2505	20.5568	0.99304	0.0:0.0:1.0:0.0	.	454;430;465	B7Z4N8;A6NJA2;P54578	.;.;UBP14_HUMAN	L	465;430;454	ENSP00000261601:R465L;ENSP00000383125:R454L	ENSP00000261601:R465L	R	+	2	0	USP14	201193	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	6.135000	0.71696	2.861000	0.98227	0.655000	0.94253	CGG		0.393	USP14-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440305.3	NM_005151		T	211193	G	T	211193	3	4	638	1	0	0	0	0	1	0	0	0	17057	1116	39	4	1456	4	USP14	18	211193	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10		211193	77866055	85	39422										
APCDD1	147495	broad.mit.edu;mdanderson.org	37	chr18	10485688	10485688	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ctactcagacccggtgtgcaAgcaccccaccttctccatct	6	18	3	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr18:10485688A>G	ENST00000355285.5	+	4	1358	c.1004A>G	c.(1003-1005)aAg>aGg	p.K335R	APCDD1_ENST00000578882.1_Intron	NM_153000.4	NP_694545.1			adenomatosis polyposis coli down-regulated 1											NS(1)|breast(1)|endometrium(3)|large_intestine(5)|lung(7)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	22				READ - Rectum adenocarcinoma(15;0.08)		CCGGTGTGCAAGCACCCCACC	0.607																																																0													85	62	70					18																	10485688		2203	4300	6503	SO:0001583	missense	147495			AB056722	CCDS11849.1	18p11.21	2006-07-07			ENSG00000154856	ENSG00000154856			15718	protein-coding gene	gene with protein product		607479				12384519	Standard	NM_153000		Approved	B7323	uc002kom.4	Q8J025	OTTHUMG00000131635	ENST00000355285.5:c.1004A>G	18.37:g.10485688A>G	ENSP00000347433:p.Lys335Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000355285.5	37	CCDS11849.1	.	.	.	.	.	.	.	.	.	.	A	11.80	1.747738	0.30955	.	.	ENSG00000154856	ENST00000355285;ENST00000423585	T	0.17054	2.3	4.77	4.77	0.60923	.	0.096491	0.64402	D	0.000001	T	0.10035	0.0246	N	0.20483	0.58	0.80722	D	1	B	0.10296	0.003	B	0.15870	0.014	T	0.06006	-1.0851	10	0.02654	T	1	-48.6664	13.6296	0.62188	1.0:0.0:0.0:0.0	.	335	Q8J025	APCD1_HUMAN	R	335;386	ENSP00000347433:K335R	ENSP00000347433:K335R	K	+	2	0	APCDD1	10475688	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	4.455000	0.60075	2.013000	0.59113	0.459000	0.35465	AAG		0.607	APCDD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254529.2	NM_153000		G	10485688	A	G	10485688	3	3	638	1	0	0	0	0	1	0	0	0	765	72	3	3	1018	3	APCDD1	18	10485688	Missense_Mutation	SNP	A	TCGA-KL-8339-01A-11D-2310-10	10274495	10485688	67591560	86	39423										
SERPINB8	5271	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	61654433	61654433	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	aatggagccaagattctgtgCagaccacccttttcttttct	7	11	3	2			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr18:61654433C>A	ENST00000397985.2	+	7	1302	c.1046C>A	c.(1045-1047)gCa>gAa	p.A349E	SERPINB8_ENST00000493661.1_Intron|SERPINB8_ENST00000542677.1_Missense_Mutation_p.A167E|SERPINB8_ENST00000353706.2_Missense_Mutation_p.A349E	NM_001276490.1	NP_001263419.1	P50452	SPB8_HUMAN	serpin peptidase inhibitor, clade B (ovalbumin), member 8	349					negative regulation of endopeptidase activity (GO:0010951)|regulation of proteolysis (GO:0030162)	cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	serine-type endopeptidase inhibitor activity (GO:0004867)			breast(2)|kidney(1)|large_intestine(4)|lung(9)|skin(1)	17		Esophageal squamous(42;0.129)				AGATTCTGTGCAGACCACCCT	0.512																																																0													96	94	95					18																	61654433		2203	4300	6503	SO:0001583	missense	5271			L40377	CCDS11991.1, CCDS42442.1, CCDS62460.1	18q22.1	2014-02-18	2005-08-18		ENSG00000166401	ENSG00000166401		"Serine (or cysteine) peptidase inhibitors"	8952	protein-coding gene	gene with protein product	"cytoplasmic antiproteinase 2"	601697	"serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 8"	PI8		8530382, 9268635, 24172014	Standard	NM_198833		Approved	CAP2	uc002lju.3	P50452	OTTHUMG00000060596	ENST00000397985.2:c.1046C>A	18.37:g.61654433C>A	ENSP00000381072:p.Ala349Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTW2|Q7Z2V6|Q8N178	Missense_Mutation	SNP	ENST00000397985.2	37	CCDS11991.1	.	.	.	.	.	.	.	.	.	.	C	19.36	3.812074	0.70797	.	.	ENSG00000166401	ENST00000397985;ENST00000353706;ENST00000542677	D;D;T	0.85702	-2.02;-2.02;2.4	5.65	4.74	0.60224	Serpin domain (3);Protease inhibitor I4, serpin, conserved site (1);	0.203488	0.51477	D	0.000086	D	0.94364	0.8188	H	0.97611	4.04	0.58432	D	0.999993	D	0.76494	0.999	D	0.78314	0.991	D	0.94705	0.7887	10	0.87932	D	0	.	9.2896	0.37778	0.0:0.8315:0.0:0.1685	.	349	P50452	SPB8_HUMAN	E	349;349;167	ENSP00000381072:A349E;ENSP00000331368:A349E;ENSP00000438328:A167E	ENSP00000331368:A349E	A	+	2	0	SERPINB8	59805413	0.998000	0.40836	1.000000	0.80357	0.590000	0.36582	3.061000	0.49963	1.534000	0.49203	-0.345000	0.07892	GCA		0.512	SERPINB8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000134014.1	NM_001031848		A	61654433	C	A	61654433	3	1	638	1	0	0	0	0	1	0	0	0	14120	710	25	4	1081	4	SERPINB8	18	61654433	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	51168745	61654433	16422815	87	39424										
FUT3	2525	mdanderson.org	37	chr19	5843877	5843877	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tgaaggagcgaggccgcagcGtctcccgccagcgaaagtag	15	12	1	1	rs28381969	byFrequency	TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr19:5843877G>A	ENST00000303225.6	-	3	1608	c.974C>T	c.(973-975)aCg>aTg	p.T325M	FUT3_ENST00000458379.2_Missense_Mutation_p.T325M|FUT3_ENST00000589620.1_Missense_Mutation_p.T325M|FUT3_ENST00000589918.1_Missense_Mutation_p.T325M|FUT3_ENST00000593144.1_5'Flank	NM_000149.3	NP_000140	P21217	FUT3_HUMAN	fucosyltransferase 3 (galactoside 3(4)-L-fucosyltransferase, Lewis blood group)	325			T -> M (in dbSNP:rs28381969). {ECO:0000269|Ref.5}.		cell-cell recognition (GO:0009988)|fucosylation (GO:0036065)|macromolecule glycosylation (GO:0043413)|oligosaccharide biosynthetic process (GO:0009312)|protein glycosylation (GO:0006486)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity (GO:0017060)|alpha-(1->3)-fucosyltransferase activity (GO:0046920)|fucosyltransferase activity (GO:0008417)			breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(5)|upper_aerodigestive_tract(1)	14						AGGCCGCAGCGTCTCCCGCCA	0.637													G|||	37	0.00738818	0.025	0.0043	5008	,	,		19604	0.001		0.0	False		,,,				2504	0.0				Esophageal Squamous(82;745 1728 24593 44831)											0													42	45	44					19																	5843877		2203	4300	6503	SO:0001583	missense	2525				CCDS12153.1	19p13.3	2014-07-19	2006-01-12		ENSG00000171124	ENSG00000171124	2.4.1.65	"CD molecules", "Blood group antigens", "Fucosyltransferases"	4014	protein-coding gene	gene with protein product		111100	"fucosyltransferase 3 (galactoside 3(4)-L-fucosyltransferase, Lewis blood group included)"	LE		1977660, 1740457	Standard	NM_000149		Approved	CD174	uc002mdk.2	P21217	OTTHUMG00000180614	ENST00000303225.6:c.974C>T	19.37:g.5843877G>A	ENSP00000305603:p.Thr325Met	Somatic		WXS	Illumina HiSeq	Phase_I	B5U7U9|B5U7V0|Q32NE7|Q99448|Q99449	Missense_Mutation	SNP	ENST00000303225.6	37	CCDS12153.1	36	0.016483516483516484	18	0.036585365853658534	1	0.0027624309392265192	6	0.01048951048951049	11	0.014511873350923483	G	12.11	1.838692	0.32513	.	.	ENSG00000171124	ENST00000303225;ENST00000458379	T;T	0.24350	1.86;1.86	2.29	1.18	0.20946	.	0.943966	0.08680	N	0.909636	T	0.07413	0.0187	M	0.79805	2.47	0.09310	N	1	P;P;P;P	0.38617	0.64;0.483;0.483;0.483	B;B;B;B	0.36186	0.219;0.148;0.148;0.148	T	0.11494	-1.0585	10	0.37606	T	0.19	.	5.4124	0.16356	0.1897:0.0:0.8103:0.0	rs28381969	325;325;325;325	B3W6H0;A8K737;B3GVC1;P21217	.;.;.;FUT3_HUMAN	M	325	ENSP00000305603:T325M;ENSP00000416443:T325M	ENSP00000305603:T325M	T	-	2	0	FUT3	5794877	0.000000	0.05858	0.620000	0.29132	0.507000	0.33981	-1.150000	0.03178	0.242000	0.21303	0.194000	0.17425	ACG		0.637	FUT3-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452204.1	NM_000149		A	5843877	G	A	5843877	3	1	638	1	0	0	0	0	1	0	0	0	6112	1145	40	1	115	1	FUT3	19	5843877	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10		5843877	53285106	88	39425										
ZNF208	7757	mdanderson.org	37	chr19	22156850	22156850	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	catgaattgccttatgtgtaAtaagggttgagaccttactg	10	6	0	2	rs199858837		TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr19:22156850A>G	ENST00000397126.4	-	4	1134	c.986T>C	c.(985-987)aTt>aCt	p.I329T	ZNF208_ENST00000599916.1_Intron|ZNF208_ENST00000601773.1_Intron	NM_007153.3	NP_009084.2	O43345	ZN208_HUMAN	zinc finger protein 208	329					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(18)|liver(1)|lung(71)|ovary(6)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	113		all_lung(12;0.0961)|Lung NSC(12;0.103)				CTTATGTGTAATAAGGGTTGA	0.393																																																0													62	63	63					19																	22156850		1996	4092	6088	SO:0001583	missense	7757			BC038199	CCDS54240.1	19p12	2013-01-08				ENSG00000160321		"Zinc fingers, C2H2-type", "-"	12999	protein-coding gene	gene with protein product	"zinc finger protein 95"	603977				9724325	Standard	NM_007153		Approved	PMIDP, ZNF95	uc021urr.1	O43345		ENST00000397126.4:c.986T>C	19.37:g.22156850A>G	ENSP00000380315:p.Ile329Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000397126.4	37	CCDS54240.1	.	.	.	.	.	.	.	.	.	.	A	0.001	-3.776923	0.00004	.	.	ENSG00000160321	ENST00000397126;ENST00000428290	T	0.37584	1.19	2.93	-5.86	0.02304	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.13457	0.0326	.	.	.	0.09310	N	1	B	0.14805	0.011	B	0.08055	0.003	T	0.06320	-1.0833	8	0.07030	T	0.85	.	5.0767	0.14634	0.3245:0.0:0.3073:0.3682	.	329	O43345	ZN208_HUMAN	T	329	ENSP00000380315:I329T	ENSP00000380315:I329T	I	-	2	0	ZNF208	21948690	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-2.811000	0.00755	-4.922000	0.00027	-4.087000	0.00011	ATT		0.393	ZNF208-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464302.1	NM_007153		G	22156850	A	G	22156850	3	3	638	1	0	0	0	0	1	0	0	0	17778	101	4	3	2860	3	ZNF208	19	22156850	Missense_Mutation	SNP	A	TCGA-KL-8339-01A-11D-2310-10	16312973	22156850	36972133	89	39426										
FCGBP	8857	mdanderson.org	37	chr19	40376927	40376927	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ccggcgggcaggtgggcggcGgcaggcagggagagtcgggc	24	10	0	1	rs146581881		TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr19:40376927G>A	ENST00000221347.6	-	24	11502	c.11495C>T	c.(11494-11496)cCg>cTg	p.P3832L	FCGBP_ENST00000595713.1_5'UTR	NM_003890.2	NP_003881.2	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein	3832	VWFD 9. {ECO:0000255|PROSITE- ProRule:PRU00580}.					extracellular vesicular exosome (GO:0070062)				NS(3)|autonomic_ganglia(1)|breast(7)|central_nervous_system(5)|endometrium(13)|kidney(9)|large_intestine(27)|lung(49)|ovary(8)|pancreas(3)|prostate(13)|skin(9)|stomach(9)|upper_aerodigestive_tract(6)|urinary_tract(3)	165	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)			GGTGGGCGGCGGCAGGCAGGG	0.647																																																0								G	LEU/PRO	3,4323		1,1,2161	17	19	18		11495	0.9	0	19	dbSNP_134	18	0,8552		0,0,4276	no	missense	FCGBP	NM_003890.2	98	1,1,6437	AA,AG,GG		0.0,0.0693,0.0233	possibly-damaging	3832/5406	40376927	3,12875	2163	4276	6439	SO:0001583	missense	8857			D84239		19q13.2	2013-09-20			ENSG00000090920	ENSG00000275395			13572	protein-coding gene	gene with protein product	"IgG Fc binding protein", "Human Fc gamma BP"					9182547	Standard	NM_003890		Approved	FC(GAMMA)BP	uc002omp.4	Q9Y6R7	OTTHUMG00000182580	ENST00000221347.6:c.11495C>T	19.37:g.40376927G>A	ENSP00000221347:p.Pro3832Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O95784	Missense_Mutation	SNP	ENST00000221347.6	37	CCDS12546.1	.	.	.	.	.	.	.	.	.	.	g	12.14	1.850084	0.32699	6.93E-4	0.0	ENSG00000090920	ENST00000221347	T	0.18502	2.21	3.33	0.901	0.19284	von Willebrand factor, type D domain (1);	.	.	.	.	T	0.11793	0.0287	L	0.60845	1.875	0.09310	N	1	P	0.43352	0.804	B	0.27262	0.078	T	0.19451	-1.0305	9	0.33141	T	0.24	.	6.7765	0.23622	0.0:0.3655:0.4479:0.1865	.	3832	Q9Y6R7	FCGBP_HUMAN	L	3832	ENSP00000221347:P3832L	ENSP00000221347:P3832L	P	-	2	0	FCGBP	45068767	0.000000	0.05858	0.002000	0.10522	0.035000	0.12851	0.229000	0.17833	0.137000	0.18759	0.313000	0.20887	CCG		0.647	FCGBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462507.1	NM_003890		A	40376927	G	A	40376927	3	1	638	1	0	0	0	0	1	0	0	0	5785	1116	39	1	4774	1	FCGBP	19	40376927	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10	18220077	40376927	18752056	90	39427										
PVRL2	5819	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	45368669	45368669	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	gcagcgcccagatgcacctgCgaaccaccagaatgtggccg	12	15	0	2	rs111808500		TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr19:45368669C>T	ENST00000252483.5	+	2	230	c.230C>T	c.(229-231)gCg>gTg	p.A77V	PVRL2_ENST00000252485.4_Missense_Mutation_p.A77V	NM_001042724.1	NP_001036189.1	Q92692	PVRL2_HUMAN	poliovirus receptor-related 2 (herpesvirus entry mediator B)	77	Ig-like V-type.				acrosome assembly (GO:0001675)|adherens junction organization (GO:0034332)|adhesion of symbiont to host (GO:0044406)|cell junction assembly (GO:0034329)|cell part morphogenesis (GO:0032990)|cell-cell junction organization (GO:0045216)|cilium organization (GO:0044782)|coreceptor-mediated virion attachment to host cell (GO:0046814)|cytoskeleton organization (GO:0007010)|establishment of mitochondrion localization (GO:0051654)|fertilization (GO:0009566)|fusion of virus membrane with host plasma membrane (GO:0019064)|homophilic cell adhesion (GO:0007156)|positive regulation of immunoglobulin mediated immune response (GO:0002891)|positive regulation of mast cell activation (GO:0033005)|positive regulation of natural killer cell mediated cytotoxicity (GO:0045954)|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target (GO:0002860)|regulation of immune response (GO:0050776)|signal transduction (GO:0007165)|sperm mitochondrion organization (GO:0030382)|spermatid development (GO:0007286)|spermatid nucleus differentiation (GO:0007289)|susceptibility to natural killer cell mediated cytotoxicity (GO:0042271)|susceptibility to T cell mediated cytotoxicity (GO:0060370)	cell surface (GO:0009986)|cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|zonula adherens (GO:0005915)	cell adhesion molecule binding (GO:0050839)|coreceptor activity (GO:0015026)|identical protein binding (GO:0042802)|protein homodimerization activity (GO:0042803)|virus receptor activity (GO:0001618)			breast(1)|endometrium(1)|large_intestine(6)|lung(5)	13	Lung NSC(12;0.00195)|all_lung(12;0.00522)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0143)		GATGCACCTGCGAACCACCAG	0.662																																																0								T	VAL/ALA,VAL/ALA	0,4406		0,0,2203	71	60	64		230,230	-5.8	0	19	dbSNP_132	64	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense	PVRL2	NM_001042724.1,NM_002856.2	64,64	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign,benign	77/539,77/480	45368669	1,13005	2203	4300	6503	SO:0001583	missense	5819			X80038	CCDS12645.1, CCDS42576.1	19q13.32	2013-01-29			ENSG00000130202	ENSG00000130202		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9707	protein-coding gene	gene with protein product		600798		HVEB		7622062, 10196354	Standard	NM_001042724		Approved	PVRR2, PRR2, CD112	uc002ozw.1	Q92692	OTTHUMG00000180839	ENST00000252483.5:c.230C>T	19.37:g.45368669C>T	ENSP00000252483:p.Ala77Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5L5|O75455|Q6IBI6|Q96J29	Missense_Mutation	SNP	ENST00000252483.5	37	CCDS42576.1	.	.	.	.	.	.	.	.	.	.	c	10.27	1.304881	0.23736	0.0	1.16E-4	ENSG00000130202	ENST00000252483;ENST00000252485	T;T	0.66280	-0.2;-0.2	4.33	-5.77	0.02369	Immunoglobulin subtype (1);Immunoglobulin V-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	1.585450	0.03789	N	0.262576	T	0.32585	0.0834	N	0.08118	0	0.09310	N	1	B;B	0.24043	0.067;0.096	B;B	0.16289	0.015;0.013	T	0.06734	-1.0810	10	0.40728	T	0.16	.	0.3328	0.00321	0.2868:0.2892:0.1884:0.2357	.	77;77	Q92692;Q92692-2	PVRL2_HUMAN;.	V	77	ENSP00000252483:A77V;ENSP00000252485:A77V	ENSP00000252483:A77V	A	+	2	0	PVRL2	50060509	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.589000	0.05767	-1.068000	0.03156	-1.385000	0.01166	GCG		0.662	PVRL2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000453231.1	NM_002856		T	45368669	C	T	45368669	3	4	638	1	0	0	0	0	1	0	0	0	12853	768	27	1	236	1	PVRL2	19	45368669	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	4991742	45368669	13760314	91	39428										
NOVA2	4858	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	46443970	46443970	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	acgttggcgtagctgatgttGaggcagctgctgctctgggg	17	8	1	2			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr19:46443970G>A	ENST00000263257.5	-	4	824	c.630C>T	c.(628-630)ctC>ctT	p.L210L		NM_002516.2	NP_002507.1	Q9UNW9	NOVA2_HUMAN	neuro-oncological ventral antigen 2	210					regulation of RNA metabolic process (GO:0051252)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			endometrium(3)|large_intestine(5)|lung(13)	21		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)		AGCTGATGTTGAGGCAGCTGC	0.687																																																0													60	32	42					19																	46443970		2168	4243	6411	SO:0001819	synonymous_variant	4858			U70477	CCDS12679.1	19q13.3	2008-07-17				ENSG00000104967			7887	protein-coding gene	gene with protein product	"neuro-oncological ventral antigen 3"	601991		NOVA3		9344654, 10368286	Standard	NM_002516		Approved	ANOVA	uc002pdv.2	Q9UNW9		ENST00000263257.5:c.630C>T	19.37:g.46443970G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O43267|Q9UEA1	Silent	SNP	ENST00000263257.5	37	CCDS12679.1																																																																																				0.687	NOVA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437210.2	NM_002516		A	46443970	G	A	46443970	2	1	638	1	0	0	0	0	0	0	0	1	10562	1277	45	2		2	NOVA2	19	46443970	Silent	SNP	G	TCGA-KL-8339-01A-11D-2310-10	1075301	46443970	12685013	92	39429										
SIGLEC5	8778	mdanderson.org	37	chr19	52132741	52132741	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tccgaggagcgggtggtctcGgggtccagggggctgagggc	22	9	1	1	rs200210701	byFrequency	TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr19:52132741G>A	ENST00000534261.2	-	4	969	c.570C>T	c.(568-570)ccC>ccT	p.P190P	SIGLEC5_ENST00000599649.1_Silent_p.P190P|SIGLEC5_ENST00000570106.2_Silent_p.P190P|SIGLEC5_ENST00000429354.3_Silent_p.P190P|SIGLEC5_ENST00000222107.4_Silent_p.P190P			O15389	SIGL5_HUMAN	sialic acid binding Ig-like lectin 5	190	Ig-like C2-type 1.				cell adhesion (GO:0007155)	integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(3)|large_intestine(4)|lung(9)|prostate(2)|skin(4)|upper_aerodigestive_tract(1)	27		all_neural(266;0.0726)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0218)		GGGTGGTCTCGGGGTCCAGGG	0.652													G|||	61	0.0121805	0.0159	0.0014	5008	,	,		15292	0.0288		0.002	False		,,,				2504	0.0082															0													16	16	16					19																	52132741		2201	4290	6491	SO:0001819	synonymous_variant	8778			U71383	CCDS33088.1	19q13.41	2013-01-29			ENSG00000105501	ENSG00000105501		"Sialic acid binding Ig-like lectins", "CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	10874	protein-coding gene	gene with protein product		604200		CD33L2		10343116	Standard	NM_003830		Approved	OB-BP2, SIGLEC-5, CD170	uc002pxe.4	O15389	OTTHUMG00000165510	ENST00000534261.2:c.570C>T	19.37:g.52132741G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000534261.2	37	CCDS33088.1																																																																																				0.652	SIGLEC5-001	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466897.2	NM_003830		A	52132741	G	A	52132741	2	1	638	1	0	0	0	0	0	0	0	1	14324	1103	39	1		1	SIGLEC5	19	52132741	Silent	SNP	G	TCGA-KL-8339-01A-11D-2310-10	5688771	52132741	6996242	93	39430										
ZNF845	91664	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	53856300	53856300	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tgggcgtgattcacacctggCacaacatactagaattcaca	8	11	2	2			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr19:53856300C>A	ENST00000595091.1	+	5	2591	c.2372C>A	c.(2371-2373)gCa>gAa	p.A791E	ZNF845_ENST00000458035.1_Missense_Mutation_p.A791E			Q96IR2	ZN845_HUMAN	zinc finger protein 845	791					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(2)|kidney(10)|lung(7)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|urinary_tract(2)	26						TCACACCTGGCACAACATACT	0.403																																																0													47	43	44					19																	53856300		692	1591	2283	SO:0001583	missense	91664			BC007307	CCDS46170.1	19q13.42	2013-01-08			ENSG00000213799	ENSG00000213799		"Zinc fingers, C2H2-type", "-"	25112	protein-coding gene	gene with protein product							Standard	NM_138374		Approved		uc010ydv.1	Q96IR2		ENST00000595091.1:c.2372C>A	19.37:g.53856300C>A	ENSP00000470005:p.Ala791Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000595091.1	37	CCDS46170.1	.	.	.	.	.	.	.	.	.	.	C	3.789	-0.044051	0.07452	.	.	ENSG00000213799	ENST00000458035;ENST00000427984	T	0.07114	3.22	2.06	-4.11	0.03928	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.04048	0.0113	N	0.17631	0.505	0.09310	N	1	B	0.02656	0.0	B	0.06405	0.002	T	0.35425	-0.9789	9	0.32370	T	0.25	.	2.0734	0.03618	0.4102:0.2163:0.271:0.1025	.	791	Q96IR2	ZN845_HUMAN	E	791;707	ENSP00000388311:A791E	ENSP00000412086:A707E	A	+	2	0	ZNF845	58548112	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-5.320000	0.00131	-2.637000	0.00431	-0.512000	0.04463	GCA		0.403	ZNF845-001	KNOWN	upstream_uORF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464359.1	XM_039908		A	53856300	C	A	53856300	3	1	638	1	0	0	0	0	1	0	0	0	18203	710	25	4	2382	4	ZNF845	19	53856300	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	1723559	53856300	5272683	94	39431										
LILRA2	11027	mdanderson.org	37	chr19	55086949	55086949	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tcccacgggggccagtacagAtgctacagtgcacacaacct	10	14	0	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr19:55086949A>G	ENST00000251377.3	+	6	1015	c.882A>G	c.(880-882)agA>agG	p.R294R	LILRB1_ENST00000418536.2_Intron|LILRA2_ENST00000391737.1_Silent_p.R282R|LILRA2_ENST00000251376.3_Silent_p.R294R|LILRB1_ENST00000396321.2_Intron|LILRB1_ENST00000448689.1_Intron|LILRA2_ENST00000391738.3_Silent_p.R294R			Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 2	294	Ig-like C2-type 3.				defense response (GO:0006952)|immune system process (GO:0002376)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)	antigen binding (GO:0003823)|receptor activity (GO:0004872)			breast(1)|endometrium(2)|kidney(4)|large_intestine(2)|lung(33)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	50				GBM - Glioblastoma multiforme(193;0.0963)		GCCAGTACAGATGCTACAGTG	0.662																																																0													50	52	51					19																	55086949		2203	4299	6502	SO:0001819	synonymous_variant	11027			U82275	CCDS12900.1, CCDS46179.1, CCDS74453.1	19q13.4	2013-01-11			ENSG00000239998	ENSG00000239998		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6603	protein-coding gene	gene with protein product		604812				9079806, 9548455	Standard	XM_005258452		Approved	LIR-7, ILT1, CD85h, LIR7		Q8N149	OTTHUMG00000065703	ENST00000251377.3:c.882A>G	19.37:g.55086949A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O75020	Silent	SNP	ENST00000251377.3	37	CCDS46179.1																																																																																				0.662	LILRA2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000140813.2			G	55086949	A	G	55086949	2	3	638	1	0	0	0	0	0	0	0	1	8792	330	12	3		3	LILRA2	19	55086949	Silent	SNP	A	TCGA-KL-8339-01A-11D-2310-10	1230649	55086949	4042034	95	39432										
ZNF329	79673	mdanderson.org;bcgsc.ca	37	chr19	58639916	58639916	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	agtgaagggtttcccacattCgttacatctatatggttttt	8	7	1	1			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr19:58639916C>A	ENST00000598312.1	-	4	1188	c.955G>T	c.(955-957)Gaa>Taa	p.E319*	ZNF329_ENST00000358067.4_Nonsense_Mutation_p.E319*	NM_024620.3	NP_078896.3	Q86UD4	ZN329_HUMAN	zinc finger protein 329	319					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|large_intestine(10)|lung(5)|skin(3)|urinary_tract(1)	20		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		TTCCCACATTCGTTACATCTA	0.428																																																0													132	127	129					19																	58639916		2203	4300	6503	SO:0001587	stop_gained	79673			AK022648	CCDS12972.1	19q13.43	2013-01-08				ENSG00000181894		"Zinc fingers, C2H2-type"	14209	protein-coding gene	gene with protein product							Standard	XM_006723381		Approved	FLJ12586	uc002qrn.3	Q86UD4		ENST00000598312.1:c.955G>T	19.37:g.58639916C>A	ENSP00000470008:p.Glu319*	Somatic		WXS	Illumina HiSeq	Phase_I	B3KR32|Q9H9R7	Nonsense_Mutation	SNP	ENST00000598312.1	37	CCDS12972.1	.	.	.	.	.	.	.	.	.	.	C	17.61	3.431607	0.62844	.	.	ENSG00000181894	ENST00000358067;ENST00000500161	.	.	.	4.01	4.01	0.46588	.	0.000000	0.46758	D	0.000264	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.54805	T	0.06	-20.6342	16.1129	0.81275	0.0:1.0:0.0:0.0	.	.	.	.	X	319	.	ENSP00000350773:E319X	E	-	1	0	ZNF329	63331728	0.004000	0.15560	0.999000	0.59377	0.134000	0.20937	0.644000	0.24766	2.541000	0.85698	0.655000	0.94253	GAA		0.428	ZNF329-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466724.1	NM_024620		A	58639916	C	A	58639916	4	1	638	1	0	0	0	0	0	1	0	0	17859	893	31	4	674	4	ZNF329	19	58639916	Nonsense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10	3552967	58639916	489067	96	39433										
FAM83D	81610	mdanderson.org	37	chr20	37555116	37555116	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tgtccgagggcctggacgagGtgcccgccgcctgcctgtcg	16	15	0	0	rs3752290	byFrequency	TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr20:37555116G>C	ENST00000217429.4	+	1	162	c.121G>C	c.(121-123)Gtg>Ctg	p.V41L		NM_030919.2	NP_112181.2	Q9H4H8	FA83D_HUMAN	family with sequence similarity 83, member D	11					mitotic nuclear division (GO:0007067)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)				endometrium(2)|kidney(2)|large_intestine(7)|lung(12)|ovary(4)|stomach(1)	28		Myeloproliferative disorder(115;0.00878)				CCTGGACGAGGTGCCCGCCGC	0.701													C|||	2010	0.401358	0.5076	0.3847	5008	,	,		10968	0.4157		0.3429	False		,,,				2504	0.3149															0								C	LEU/VAL	1601,2097		394,813,642	8	11	10		121	3.4	0.9	20	dbSNP_107	10	2399,5669		370,1659,2005	no	missense	FAM83D	NM_030919.2	32	764,2472,2647	CC,CG,GG		29.7348,43.2937,33.9963	benign	41/616	37555116	4000,7766	1849	4034	5883	SO:0001583	missense	81610			AL023803	CCDS42872.1	20q11.23	2014-03-13	2006-03-23	2006-03-23	ENSG00000101447	ENSG00000101447			16122	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 129"	C20orf129		23205133	Standard	NM_030919		Approved	dJ616B8.3	uc002xjg.3	Q9H4H8	OTTHUMG00000032462	ENST00000217429.4:c.121G>C	20.37:g.37555116G>C	ENSP00000217429:p.Val41Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4E1I7|Q5THR2|Q68EN1|Q6P457|Q7Z6H0|Q96DF5|Q96N89|Q9BVM8	Missense_Mutation	SNP	ENST00000217429.4	37	CCDS42872.1	870	0.3983516483516483	269	0.5467479674796748	136	0.3756906077348066	202	0.3531468531468531	263	0.3469656992084433	C	0.704	-0.789777	0.02884	0.432937	0.297348	ENSG00000101447	ENST00000217429;ENST00000424027	T	0.10477	2.87	5.48	3.44	0.39384	.	0.490125	0.16258	N	0.222396	T	0.00012	0.0000	N	0.02011	-0.69	0.80722	P	0.0	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.38757	-0.9646	9	0.06891	T	0.86	.	7.0157	0.24887	0.0:0.4204:0.417:0.1626	rs3752290;rs17846649;rs17859744;rs3752290	11;11	Q9H4H8;Q9H4H8-2	FA83D_HUMAN;.	L	41;11	ENSP00000217429:V41L	ENSP00000217429:V41L	V	+	1	0	FAM83D	36988530	0.003000	0.15002	0.905000	0.35620	0.017000	0.09413	0.278000	0.18753	0.696000	0.31696	-0.120000	0.15030	GTG		0.701	FAM83D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079211.1			C	37555116	G	C	37555116	3	2	638	1	0	0	0	0	1	0	0	0	5643	1261	44	4	123	4	FAM83D	20	37555116	Missense_Mutation	SNP	G	TCGA-KL-8339-01A-11D-2310-10		37555116	25470404	97	39434										
GTPBP5	26164	broad.mit.edu	37	chr20	60774224	60774225	+	Frame_Shift_Ins	INS	-	-	C													0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	ctgctccgggccatttcaaaINScgccagacccgccgtggctt							TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr20:60774224_60774225insC	ENST00000370823.3	+	6	755_756	c.737_738insC	c.(736-741)aacgccfs	p.A247fs	MTG2_ENST00000436421.2_Intron|MTG2_ENST00000536470.1_Frame_Shift_Ins_p.A19fs	NM_015666.3	NP_056481.1	Q9H4K7	MTG2_HUMAN	mitochondrial ribosome-associated GTPase 2	247	Localized in the mitochondria.|Not localized in the mitochondria.|OBG-type G.				GTP catabolic process (GO:0006184)|regulation of mitochondrial translation (GO:0070129)|regulation of respiratory system process (GO:0044065)|ribosome biogenesis (GO:0042254)	mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrial ribosome (GO:0005761)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|magnesium ion binding (GO:0000287)										GCCATTTCAAACGCCAGACCCG	0.614																																																0																																										SO:0001589	frameshift_variant	26164			AK001603	CCDS13492.1	20q13.33	2013-05-24	2013-05-24	2013-05-24	ENSG00000101181	ENSG00000101181			16239	protein-coding gene	gene with protein product		610919	"GTP-binding protein 5 (putative)", "GTP binding protein 5 (putative)"	GTPBP5		17054726, 23396448	Standard	NM_015666		Approved	FLJ10741, dJ1005F21.2, ObgH1		Q9H4K7	OTTHUMG00000032897	ENST00000370823.3:c.738dupC	20.37:g.60774225_60774225dupC	ENSP00000359859:p.Ala247fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDR3|B4DR85|Q96I17|Q9NVG9|Q9UFR4	Frame_Shift_Ins	INS	ENST00000370823.3	37	CCDS13492.1																																																																																				0.614	MTG2-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079989.1	NM_015666		C	60774225	-	C	60774224	7	5	638	1	0	1	1	0	0	0	0	0	6890	43	2	0	755	0	GTPBP5	20	60774224	Frame_Shift_Ins	INS	-	TCGA-KL-8339-01A-11D-2310-10	23219108	60774224	2251296	98	39435										
NIPSNAP1	8508	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr22	29956774	29956774	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0714285714285714	7	1	1.19543103448276	3.41551724137931	0.640409482758621	1	1	0	tatctgtgagaagaagccgcCcactgcctcctggttctcct	9	14	2	2			TCGA-KL-8339-01A-11D-2310-10	TCGA-KL-8339-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	88432832-7a50-48df-90d5-3a5b7e1f5595	cbaafe8b-1636-4107-aa92-de83895cabff	g.chr22:29956774C>T	ENST00000216121.7	-	8	909	c.655G>A	c.(655-657)Ggc>Agc	p.G219S		NM_001202502.1|NM_003634.3	NP_001189431.1|NP_003625.2	Q9BPW8	NIPS1_HUMAN	nipsnap homolog 1 (C. elegans)	219					sensory perception of pain (GO:0019233)	mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)|synaptic membrane (GO:0097060)	neurotransmitter binding (GO:0042165)	p.?(1)		large_intestine(2)|lung(2)|skin(1)	5						AAGAAGCCGCCCACTGCCTCC	0.562																																																1	Unknown(1)	lung(1)											126	122	123					22																	29956774		2203	4300	6503	SO:0001583	missense	8508			AJ001258	CCDS13860.1	22q12	2013-09-12	2001-11-28		ENSG00000184117	ENSG00000184117			7827	protein-coding gene	gene with protein product	"4-nitrophenylphosphatase domain and non-neuronal SNAP25-like 1"	603249	"NIPSNAP, C. elegans, homolog 1"			9661659	Standard	NM_003634		Approved		uc003afx.4	Q9BPW8	OTTHUMG00000151294	ENST00000216121.7:c.655G>A	22.37:g.29956774C>T	ENSP00000216121:p.Gly219Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAY3|O43800	Missense_Mutation	SNP	ENST00000216121.7	37	CCDS13860.1	.	.	.	.	.	.	.	.	.	.	C	35	5.553847	0.96501	.	.	ENSG00000184117	ENST00000216121	T	0.71698	-0.59	4.91	4.91	0.64330	Dimeric alpha-beta barrel (1);	0.000000	0.85682	D	0.000000	D	0.88276	0.6393	M	0.93854	3.465	0.80722	D	1	D;D	0.69078	0.997;0.992	D;D	0.79108	0.992;0.954	D	0.90843	0.4725	10	0.66056	D	0.02	-0.3221	18.245	0.89982	0.0:1.0:0.0:0.0	.	199;219	B4DQI7;Q9BPW8	.;NIPS1_HUMAN	S	219	ENSP00000216121:G219S	ENSP00000216121:G219S	G	-	1	0	NIPSNAP1	28286774	1.000000	0.71417	0.902000	0.35471	0.980000	0.70556	7.341000	0.79300	2.716000	0.92895	0.561000	0.74099	GGC		0.562	NIPSNAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322117.1			T	29956774	C	T	29956774	3	4	638	1	0	0	0	0	1	0	0	0	10436	623	22	2	211	2	NIPSNAP1	22	29956774	Missense_Mutation	SNP	C	TCGA-KL-8339-01A-11D-2310-10		29956774	21347792	99	39436										
ELAVL4	1996	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	50659551	50659551	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	aacttttctcgcaatacggcCgtatcatcacctcacgaatc	5	14	4	0	rs138779266		TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr1:50659551C>T	ENST00000371823.4	+	4	693	c.469C>T	c.(469-471)Cgt>Tgt	p.R157C	ELAVL4_ENST00000371824.1_Missense_Mutation_p.R157C|ELAVL4_ENST00000371819.1_Missense_Mutation_p.R162C|ELAVL4_ENST00000448907.2_Missense_Mutation_p.R160C|ELAVL4_ENST00000371827.1_Missense_Mutation_p.R157C|ELAVL4_ENST00000371821.1_Missense_Mutation_p.R162C|ELAVL4_ENST00000357083.4_Missense_Mutation_p.R174C	NM_001144774.1|NM_021952.3	NP_001138246.1|NP_068771.2	P26378	ELAV4_HUMAN	ELAV like neuron-specific RNA binding protein 4	157	RRM 2. {ECO:0000255|PROSITE- ProRule:PRU00176}.				mRNA processing (GO:0006397)|RNA processing (GO:0006396)		AU-rich element binding (GO:0017091)|mRNA 3'-UTR binding (GO:0003730)|nucleotide binding (GO:0000166)|RNA binding (GO:0003723)			NS(1)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|liver(2)|lung(5)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	32						GCAATACGGCCGTATCATCAC	0.453																																																0								C	CYS/ARG,CYS/ARG,CYS/ARG,CYS/ARG,CYS/ARG	1,4405	2.1+/-5.4	0,1,2202	191	166	174		469,520,469,478,469	6.1	1	1	dbSNP_134	174	0,8600		0,0,4300	no	missense,missense,missense,missense,missense	ELAVL4	NM_001144774.1,NM_001144775.1,NM_001144776.1,NM_001144777.1,NM_021952.3	180,180,180,180,180	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging	157/367,174/384,157/367,160/370,157/381	50659551	1,13005	2203	4300	6503	SO:0001583	missense	1996			AY033998	CCDS553.1, CCDS44138.1, CCDS44139.1, CCDS44140.1, CCDS53315.1, CCDS72788.1	1p34	2013-10-03	2013-10-03		ENSG00000162374	ENSG00000162374		"RNA binding motif (RRM) containing"	3315	protein-coding gene	gene with protein product	"Hu antigen D"	168360	"ELAV (embryonic lethal, abnormal vision, Drosophila)-like 4 (Hu antigen D)", "ELAV (embryonic lethal, abnormal vision, Drosophila)-like 4"	HUD		8222755	Standard	XM_005270581		Approved	PNEM	uc001csb.2	P26378	OTTHUMG00000007877	ENST00000371823.4:c.469C>T	1.37:g.50659551C>T	ENSP00000360888:p.Arg157Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B1APY6|B1APY7|B7Z4G7|Q8IYD4|Q96J74|Q96J75|Q9UD24	Missense_Mutation	SNP	ENST00000371823.4	37	CCDS553.1	.	.	.	.	.	.	.	.	.	.	C	27.5	4.838760	0.91117	2.27E-4	0.0	ENSG00000162374	ENST00000448907;ENST00000371827;ENST00000357083;ENST00000371824;ENST00000371823;ENST00000371821;ENST00000371819	T;T;T;T;T;T;T	0.16897	2.31;2.31;2.31;2.31;2.31;2.31;2.31	6.11	6.11	0.99139	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.000000	0.85682	D	0.000000	T	0.40322	0.1112	L	0.51422	1.61	0.80722	D	1	D;D;D;D;D;D;D	0.89917	0.999;1.0;0.999;1.0;0.999;0.998;0.998	P;D;P;P;P;P;P	0.72075	0.887;0.976;0.787;0.887;0.819;0.819;0.887	T	0.02574	-1.1139	10	0.87932	D	0	.	20.7342	0.99715	0.0:1.0:0.0:0.0	.	162;162;157;157;174;157;160	B1APY9;B1APY8;P26378-2;P26378;P26378-3;P26378-4;B7Z4G7	.;.;.;ELAV4_HUMAN;.;.;.	C	160;157;174;157;157;162;162	ENSP00000399939:R160C;ENSP00000360892:R157C;ENSP00000349594:R174C;ENSP00000360889:R157C;ENSP00000360888:R157C;ENSP00000360886:R162C;ENSP00000360884:R162C	ENSP00000349594:R174C	R	+	1	0	ELAVL4	50432138	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.770000	0.85390	2.906000	0.99361	0.655000	0.94253	CGT		0.453	ELAVL4-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000021712.1	NM_021952		T	50659551	C	T	50659551	3	4	639	1	0	0	0	0	1	0	0	0	5054	652	23	1	582	1	ELAVL4	1	50659551	Missense_Mutation	SNP	C	TCGA-KL-8340-01A-11D-2310-10		50659551	198591070	1	39437										
MEIS1	4211	broad.mit.edu	37	chr2	66667033	66667033	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	aatgtgaattagctacttgtAccccccgcgagccgggggtg	13	11	0	1			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr2:66667033A>C	ENST00000272369.9	+	3	755	c.298A>C	c.(298-300)Acc>Ccc	p.T100P	MEIS1_ENST00000488550.1_Missense_Mutation_p.T100P|MEIS1_ENST00000398506.2_Missense_Mutation_p.T98P|MEIS1_ENST00000495021.2_Missense_Mutation_p.T35P|MEIS1_ENST00000444274.2_Missense_Mutation_p.T68P|MEIS1_ENST00000560281.2_Missense_Mutation_p.T100P|MEIS1-AS2_ENST00000439433.1_RNA|MEIS1_ENST00000407092.2_Missense_Mutation_p.T100P|MEIS1-AS1_ENST00000454595.1_RNA	NM_002398.2	NP_002389.1	O00470	MEIS1_HUMAN	Meis homeobox 1	100					angiogenesis (GO:0001525)|definitive hemopoiesis (GO:0060216)|lens morphogenesis in camera-type eye (GO:0002089)|megakaryocyte development (GO:0035855)|negative regulation of myeloid cell differentiation (GO:0045638)|negative regulation of neuron differentiation (GO:0045665)	nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)			breast(1)|endometrium(1)|kidney(2)|large_intestine(6)|lung(10)|prostate(2)|skin(1)|urinary_tract(1)	24						AGCTACTTGTACCCCCCGCGA	0.483																																																0													64	58	60					2																	66667033		1809	4073	5882	SO:0001583	missense	4211				CCDS46309.1	2p14	2011-06-20	2007-02-15		ENSG00000143995	ENSG00000143995		"Homeoboxes / TALE class"	7000	protein-coding gene	gene with protein product		601739	"Meis1 (mouse) homolog", "Meis1, myeloid ecotropic viral integration site 1 homolog (mouse)"			7565694	Standard	NM_002398		Approved		uc002sdu.3	O00470	OTTHUMG00000150714	ENST00000272369.9:c.298A>C	2.37:g.66667033A>C	ENSP00000272369:p.Thr100Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8MV50	Missense_Mutation	SNP	ENST00000272369.9	37	CCDS46309.1	.	.	.	.	.	.	.	.	.	.	A	26.6	4.749006	0.89753	.	.	ENSG00000143995	ENST00000272369;ENST00000407092;ENST00000398506;ENST00000444274;ENST00000495021	T;T;T;T;T	0.32753	1.44;1.44;1.44;1.44;1.44	5.38	5.38	0.77491	.	0.104975	0.64402	D	0.000006	T	0.46386	0.1390	M	0.68593	2.085	0.58432	D	0.999998	P;B;P;P	0.52316	0.952;0.255;0.865;0.554	P;P;P;P	0.52909	0.713;0.454;0.501;0.454	T	0.49551	-0.8928	10	0.87932	D	0	.	15.2365	0.73436	1.0:0.0:0.0:0.0	.	35;98;100;100	F5GYS8;O00470-2;O00470;F8W8U3	.;.;MEIS1_HUMAN;.	P	100;100;98;68;35	ENSP00000272369:T100P;ENSP00000384461:T100P;ENSP00000381518:T98P;ENSP00000403206:T68P;ENSP00000440571:T35P	ENSP00000272369:T100P	T	+	1	0	MEIS1	66520537	1.000000	0.71417	1.000000	0.80357	0.938000	0.57974	9.105000	0.94246	2.254000	0.74563	0.533000	0.62120	ACC		0.483	MEIS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319725.4	NM_002398		C	66667033	A	C	66667033	3	2	639	1	0	0	0	0	1	0	0	0	9474	391	14	5	308	5	MEIS1	2	66667033	Missense_Mutation	SNP	A	TCGA-KL-8340-01A-11D-2310-10		66667033	176532340	2	39438										
ZNF638	27332	broad.mit.edu	37	chr2	71653715	71653715	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	aaagaaactctcaaaaatgtTcctttctctgaacttaactt	3	9	2	2			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr2:71653715T>A	ENST00000409544.1	+	24	5346	c.4716T>A	c.(4714-4716)gtT>gtA	p.V1572V	ZNF638_ENST00000264447.4_Silent_p.V1572V|ZNF638_ENST00000409407.1_Silent_p.V512V|ZNF638_ENST00000355812.3_3'UTR	NM_001252612.1	NP_001239541.1	Q14966	ZN638_HUMAN	zinc finger protein 638	1572					regulation of transcription, DNA-templated (GO:0006355)|RNA splicing (GO:0008380)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	double-stranded DNA binding (GO:0003690)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|zinc ion binding (GO:0008270)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(16)|lung(28)|ovary(2)|pancreas(2)|prostate(1)|skin(2)|urinary_tract(1)	63						TCAAAAATGTTCCTTTCTCTG	0.393																																																0													84	84	84					2																	71653715		2203	4300	6503	SO:0001819	synonymous_variant	27332			D83032	CCDS1917.1	2p13.1	2013-02-12	2004-07-29	2004-07-30	ENSG00000075292	ENSG00000075292		"RNA binding motif (RRM) containing"	17894	protein-coding gene	gene with protein product		614349	"zinc finger, matrin-like"	ZFML		8647861	Standard	NM_014497		Approved	NP220, MGC26130, Zfp638	uc002shy.3	Q14966	OTTHUMG00000129735	ENST00000409544.1:c.4716T>A	2.37:g.71653715T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B5MDV1|B7ZLD1|Q53R34|Q5XJ05|Q68DP3|Q6P2H2|Q7Z3T7|Q8NF92|Q8TCA1|Q9H2G1|Q9NP37	Silent	SNP	ENST00000409544.1	37	CCDS1917.1																																																																																				0.393	ZNF638-002	NOVEL	alternative_5_UTR|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000327431.1	NM_014497		A	71653715	T	A	71653715	2	1	639	1	0	0	0	0	0	0	0	1	18067	1770	62	5		5	ZNF638	2	71653715	Silent	SNP	T	TCGA-KL-8340-01A-11D-2310-10	4986682	71653715	171545658	3	39439										
SLC4A5	57835	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	74454137	74454137	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	tttgaggatccagagcaccgCcaggcagaggatctgcacca	12	12	1	3			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr2:74454137C>T	ENST00000377634.4	-	28	3484	c.3085G>A	c.(3085-3087)Gcg>Acg	p.A1029T	SLC4A5_ENST00000394019.2_Missense_Mutation_p.A1013T|SLC4A5_ENST00000423644.1_Missense_Mutation_p.G953D|RP11-287D1.3_ENST00000451608.2_3'UTR|SLC4A5_ENST00000377632.1_Intron|SLC4A5_ENST00000346834.4_Intron|SLC4A5_ENST00000357822.5_Missense_Mutation_p.A1029T|SLC4A5_ENST00000359484.4_Missense_Mutation_p.A911T|SLC4A5_ENST00000358683.4_Missense_Mutation_p.A911T|SLC4A5_ENST00000483195.1_5'UTR					solute carrier family 4 (sodium bicarbonate cotransporter), member 5											breast(5)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(12)|lung(13)|ovary(5)|pancreas(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	48						CAGAGCACCGCCAGGCAGAGG	0.647																																																0													72	74	74					2																	74454137		2203	4300	6503	SO:0001583	missense	57835			AF243499	CCDS1936.1, CCDS1937.1	2p13.1	2013-07-19	2013-07-19		ENSG00000188687	ENSG00000188687		"Solute carriers"	18168	protein-coding gene	gene with protein product		606757	"solute carrier family 4, sodium bicarbonate cotransporter, member 5"			10978526, 11087115	Standard	NM_133478		Approved	NBC4	uc002sko.1	Q9BY07	OTTHUMG00000090263	ENST00000377634.4:c.3085G>A	2.37:g.74454137C>T	ENSP00000366861:p.Ala1029Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000377634.4	37	CCDS1936.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	24.4|24.4	4.528596|4.528596	0.85706|0.85706	.|.	.|.	ENSG00000188687|ENSG00000188687	ENST00000394019;ENST00000451608;ENST00000359484;ENST00000358683;ENST00000357822;ENST00000377634|ENST00000423644;ENST00000425249	T;T;T;T;T|T;T	0.70399|0.72394	-0.48;-0.48;-0.48;-0.48;-0.48|-0.65;-0.38	5.24|5.24	5.24|5.24	0.73138|0.73138	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.74382|0.74382	0.3709|0.3709	M|M	0.68952|0.68952	2.095|2.095	0.36027|0.36027	D|D	0.839141|0.839141	P;D;D|P	0.89917|0.50272	0.939;1.0;0.973|0.933	P;D;P|P	0.87578|0.46479	0.857;0.998;0.843|0.518	T|T	0.82822|0.82822	-0.0267|-0.0267	10|9	0.62326|0.87932	D|D	0.03|0	.|.	16.3639|16.3639	0.83307|0.83307	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	911;1029;1013|915	Q9BY07-7;Q9BY07;Q9BY07-3|E7EQT3	.;S4A5_HUMAN;.|.	T|D	1013;1029;911;911;1029;1029|953;915	ENSP00000377587:A1013T;ENSP00000352461:A911T;ENSP00000351513:A911T;ENSP00000350475:A1029T;ENSP00000366861:A1029T|ENSP00000395804:G953D;ENSP00000405678:G915D	ENSP00000350475:A1029T|ENSP00000395804:G953D	A|G	-|-	1|2	0|0	SLC4A5|SLC4A5	74307645|74307645	1.000000|1.000000	0.71417|0.71417	0.999000|0.999000	0.59377|0.59377	0.995000|0.995000	0.86356|0.86356	5.920000|5.920000	0.70017|0.70017	2.726000|2.726000	0.93360|0.93360	0.637000|0.637000	0.83480|0.83480	GCG|GGC		0.647	SLC4A5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000206583.3			T	74454137	C	T	74454137	3	4	639	1	0	0	0	0	1	0	0	0	14670	739	26	2	344	2	SLC4A5	2	74454137	Missense_Mutation	SNP	C	TCGA-KL-8340-01A-11D-2310-10	2800422	74454137	168745236	4	39440										
NCAPH	23397	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr2	97032995	97032995	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	ttgtcatatacctatttcagGtaaataaaattgaaattcac	4	6	3	1			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr2:97032995G>C	ENST00000240423.4	+	15	1925	c.1882G>C	c.(1882-1884)Gta>Cta	p.V628L	NCAPH_ENST00000427946.1_Splice_Site_p.V492L|NCAPH_ENST00000455200.1_Splice_Site_p.V617L	NM_001281710.1|NM_001281711.1|NM_015341.3	NP_001268639.1|NP_001268640.1|NP_056156.2	Q15003	CND2_HUMAN	non-SMC condensin I complex, subunit H	628					mitotic cell cycle (GO:0000278)|mitotic chromosome condensation (GO:0007076)	condensin complex (GO:0000796)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|nucleus (GO:0005634)				haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(1)|prostate(1)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	28		Ovarian(717;0.0221)				CCTATTTCAGGTAAATAAAAT	0.363																																																0													71	80	77					2																	97032995		2203	4300	6503	SO:0001630	splice_region_variant	23397			BC024211	CCDS2021.1, CCDS62960.1	2q11.2	2008-02-05	2006-09-04	2006-09-04	ENSG00000121152	ENSG00000121152			1112	protein-coding gene	gene with protein product		602332	"barren (Drosophila) homolog", "barren homolog (Drosophila)", "barren homolog 1 (Drosophila)"	BRRN1		9417923	Standard	NM_015341		Approved	CAP-H, hCAP-H	uc002svz.1	Q15003	OTTHUMG00000130451	ENST00000240423.4:c.1882-1G>C	2.37:g.97032995G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4E189|Q8TB87	Missense_Mutation	SNP	ENST00000240423.4	37	CCDS2021.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	24.4|24.4	4.522702|4.522702	0.85600|0.85600	.|.	.|.	ENSG00000121152|ENSG00000121152	ENST00000435349|ENST00000240423;ENST00000427946;ENST00000455200	.|T;T;T	.|0.57107	.|0.42;0.42;0.42	5.87|5.87	5.87|5.87	0.94306|0.94306	.|.	.|0.054577	.|0.64402	.|D	.|0.000001	T|T	0.67277|0.67277	0.2876|0.2876	M|M	0.76574|0.76574	2.34|2.34	0.80722|0.80722	D|D	1|1	.|P;P	.|0.52692	.|0.955;0.906	.|P;P	.|0.54060	.|0.741;0.576	T|T	0.66881|0.66881	-0.5811|-0.5811	5|9	.|.	.|.	.|.	-16.8261|-16.8261	17.697|17.697	0.88285|0.88285	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|604;628	.|B4DRG7;Q15003	.|.;CND2_HUMAN	A|L	68|628;492;617	.|ENSP00000240423:V628L;ENSP00000400774:V492L;ENSP00000407308:V617L	.|.	G|V	+|+	2|1	0|0	NCAPH|NCAPH	96396722|96396722	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.991000|0.991000	0.79684|0.79684	5.890000|5.890000	0.69774|0.69774	2.785000|2.785000	0.95823|0.95823	0.650000|0.650000	0.86243|0.86243	GGT|GTA		0.363	NCAPH-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000252842.2	NM_015341	Missense_Mutation	C	97032995	G	C	97032995	5	2	639	1	0	0	0	0	0	0	1	0	10216	1275	44	4	1940	4	NCAPH	2	97032995	Splice_Site	SNP	G	TCGA-KL-8340-01A-11D-2310-10	22578858	97032995	146166378	5	39441										
SLC39A10	57181	hgsc.bcm.edu;bcgsc.ca	37	chr2	196548601	196548601	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	taaggataaaaacctggttcCtgaagatgaggcaaatatag	10	5	0	3			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr2:196548601C>T	ENST00000409086.3	+	3	1462	c.1187C>T	c.(1186-1188)cCt>cTt	p.P396L	SLC39A10_ENST00000359634.5_Missense_Mutation_p.P396L|SLC39A10_ENST00000541054.1_5'UTR	NM_001127257.1	NP_001120729.1	Q9ULF5	S39AA_HUMAN	solute carrier family 39 (zinc transporter), member 10	396					transmembrane transport (GO:0055085)|zinc ion transport (GO:0006829)	integral component of membrane (GO:0016021)	metal ion transmembrane transporter activity (GO:0046873)			breast(1)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(5)|liver(1)|lung(16)|pancreas(1)|prostate(1)|skin(2)	34			OV - Ovarian serous cystadenocarcinoma(117;0.221)			AACCTGGTTCCTGAAGATGAG	0.318																																																0													57	62	60					2																	196548601		2203	4300	6503	SO:0001583	missense	57181				CCDS33353.1	2q33.1	2013-05-22			ENSG00000196950	ENSG00000196950		"Solute carriers"	20861	protein-coding gene	gene with protein product		608733	"solute carrier family 39 (metal ion transporter), member 10"			12659941	Standard	NM_020342		Approved	KIAA1265, FLJ90515, DKFZp564L2123	uc002utg.4	Q9ULF5	OTTHUMG00000154380	ENST00000409086.3:c.1187C>T	2.37:g.196548601C>T	ENSP00000386766:p.Pro396Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5C6|B4DGU0|Q3MJA4|Q68CR5|Q6DKH6|Q9Y3Z1	Missense_Mutation	SNP	ENST00000409086.3	37	CCDS33353.1	.	.	.	.	.	.	.	.	.	.	C	11.41	1.630975	0.28978	.	.	ENSG00000196950	ENST00000409086;ENST00000359634	T;T	0.67345	-0.26;-0.26	4.84	4.84	0.62591	.	1.226200	0.05271	N	0.517580	T	0.58694	0.2140	L	0.39898	1.24	0.80722	D	1	B	0.06786	0.001	B	0.06405	0.002	T	0.52238	-0.8602	10	0.34782	T	0.22	.	6.9824	0.24709	0.0:0.8523:0.0:0.1477	.	396	Q9ULF5	S39AA_HUMAN	L	396	ENSP00000386766:P396L;ENSP00000352655:P396L	ENSP00000352655:P396L	P	+	2	0	SLC39A10	196256846	1.000000	0.71417	1.000000	0.80357	0.616000	0.37450	2.752000	0.47516	2.511000	0.84671	0.650000	0.86243	CCT		0.318	SLC39A10-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335186.1	XM_047707		T	196548601	C	T	196548601	3	4	639	1	0	0	0	0	1	0	0	0	14626	681	24	2	1193	2	SLC39A10	2	196548601	Missense_Mutation	SNP	C	TCGA-KL-8340-01A-11D-2310-10	99515606	196548601	46650772	6	39442										
LMCD1	29995	ucsc.edu;mdanderson.org	37	chr3	8579024	8579024	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	gacggcatccggatttacaaGaggaaccggatgatcatgac	12	9	1	3			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr3:8579024G>A	ENST00000157600.3	+	3	517	c.285G>A	c.(283-285)aaG>aaA	p.K95K	LMCD1-AS1_ENST00000439407.1_RNA|LMCD1_ENST00000454244.1_Silent_p.K22K|LMCD1_ENST00000397386.3_Intron|LMCD1_ENST00000535732.1_Silent_p.K95K	NM_014583.2	NP_055398.1	Q9NZU5	LMCD1_HUMAN	LIM and cysteine-rich domains 1	95					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of calcineurin-NFAT signaling cascade (GO:0070886)|regulation of cardiac muscle hypertrophy (GO:0010611)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|nucleus (GO:0005634)	transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			breast(2)|kidney(1)|large_intestine(7)|lung(4)|ovary(1)|prostate(1)	16				OV - Ovarian serous cystadenocarcinoma(96;0.124)		GGATTTACAAGAGGAACCGGA	0.537																																																0													137	142	140					3																	8579024		2203	4300	6503	SO:0001819	synonymous_variant	29995			AF169284	CCDS33688.1, CCDS63533.1, CCDS63534.1	3p26-p24	2008-07-18			ENSG00000071282	ENSG00000071282			6633	protein-coding gene	gene with protein product	"dyxin"	604859				10662546	Standard	NM_001278233		Approved		uc003bqq.4	Q9NZU5	OTTHUMG00000154971	ENST00000157600.3:c.285G>A	3.37:g.8579024G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DG80	Silent	SNP	ENST00000157600.3	37	CCDS33688.1																																																																																				0.537	LMCD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337854.1	NM_014583		A	8579024	G	A	8579024	2	1	639	1	0	0	0	0	0	0	0	1	8851	933	33	2		2	LMCD1	3	8579024	Silent	SNP	G	TCGA-KL-8340-01A-11D-2310-10		8579024	189443406	7	39443										
CELSR3	1951	mdanderson.org	37	chr3	48694147	48694147	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	tcaccggtgaagcgcgggcgGcagacgcacgtgtagcctcc	15	14	1	2	rs2286651	byFrequency	TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr3:48694147G>A	ENST00000164024.4	-	2	4663	c.4383C>T	c.(4381-4383)tgC>tgT	p.C1461C	CELSR3_ENST00000544264.1_Silent_p.C1461C	NM_001407.2	NP_001398.2	Q9NYQ7	CELR3_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 3	1461	EGF-like 2; calcium-binding. {ECO:0000255|PROSITE-ProRule:PRU00076}.				axonal fasciculation (GO:0007413)|cilium assembly (GO:0042384)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|regulation of protein localization (GO:0032880)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(1)|biliary_tract(1)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(23)|ovary(9)|prostate(6)|skin(7)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(5)	83				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		AGCGCGGGCGGCAGACGCACG	0.697													G|||	499	0.0996406	0.1263	0.0793	5008	,	,		14276	0.1171		0.1183	False		,,,				2504	0.0409															0								G		542,3786		27,488,1649	9	8	9		4383	4.9	1	3	dbSNP_100	9	931,7547		56,819,3364	no	coding-synonymous	CELSR3	NM_001407.2		83,1307,5013	AA,AG,GG		10.9814,12.5231,11.5024		1461/3313	48694147	1473,11333	2164	4239	6403	SO:0001819	synonymous_variant	1951			AF231023	CCDS2775.1	3p21.31	2014-08-08	2013-02-18		ENSG00000008300	ENSG00000008300		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	3230	protein-coding gene	gene with protein product	"flamingo homolog 1 (Drosophila)"	604264	"cadherin EGF LAG seven-pass G-type receptor 3, flamingo (Drosophila) homolog"	EGFL1		9693030	Standard	NM_001407		Approved	MEGF2, HFMI1, FMI1, CDHF11	uc003cuf.1	Q9NYQ7	OTTHUMG00000133544	ENST00000164024.4:c.4383C>T	3.37:g.48694147G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O75092	Silent	SNP	ENST00000164024.4	37	CCDS2775.1																																																																																				0.697	CELSR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257523.1	NM_001407		A	48694147	G	A	48694147	2	1	639	1	0	0	0	0	0	0	0	1	3225	1195	42	2		2	CELSR3	3	48694147	Silent	SNP	G	TCGA-KL-8340-01A-11D-2310-10	40115123	48694147	149328283	8	39444										
FILIP1L	11259	bcgsc.ca	37	chr3	99568907	99568907	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	ttttagtttcctcaattaacTtctcagtaactgttgttact	4	8	2	0			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr3:99568907T>C	ENST00000354552.3	-	5	2083	c.1613A>G	c.(1612-1614)aAg>aGg	p.K538R	CMSS1_ENST00000421999.2_Intron|FILIP1L_ENST00000383694.2_Missense_Mutation_p.K298R|FILIP1L_ENST00000471562.1_Missense_Mutation_p.K298R|FILIP1L_ENST00000476723.1_Intron|FILIP1L_ENST00000331335.5_Missense_Mutation_p.K538R|FILIP1L_ENST00000487087.1_Missense_Mutation_p.K114R|CMSS1_ENST00000496116.1_Intron	NM_182909.2	NP_878913.2	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like	538						cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)				breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(13)|lung(11)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	35						CTCAATTAACTTCTCAGTAAC	0.338																																																0													90	77	81					3																	99568907		1832	4089	5921	SO:0001583	missense	11259				CCDS43117.1, CCDS43118.1, CCDS43119.1, CCDS63700.1, CCDS74969.1	3q12.1	2011-10-21			ENSG00000168386	ENSG00000168386			24589	protein-coding gene	gene with protein product	"downregulated in ovarian cancer 1", "GPBP-interacting protein of 130 kDa"	612993				8314147, 15935955, 21832087	Standard	NM_001282793		Approved	DOC-1, GIP130	uc003dtm.3	Q4L180	OTTHUMG00000159055	ENST00000354552.3:c.1613A>G	3.37:g.99568907T>C	ENSP00000346560:p.Lys538Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2CNV7|B2CNV8|Q13597|Q2YDY5|Q6KFX5|Q6KFX6|Q6KFX7|Q8IUM3|Q8N6Z0	Missense_Mutation	SNP	ENST00000354552.3	37	CCDS43117.1	.	.	.	.	.	.	.	.	.	.	T	16.41	3.114546	0.56505	.	.	ENSG00000168386	ENST00000354552;ENST00000487087;ENST00000471562;ENST00000331335;ENST00000383694;ENST00000441620;ENST00000495625	T;T;T;T;T;T	0.47177	0.85;1.58;1.45;0.85;1.45;1.56	5.98	5.98	0.97165	.	0.000000	0.56097	D	0.000039	T	0.53077	0.1774	M	0.79475	2.455	0.54753	D	0.999983	P;B	0.34615	0.459;0.33	B;B	0.34652	0.187;0.091	T	0.55958	-0.8058	10	0.48119	T	0.1	-18.1372	16.4622	0.84064	0.0:0.0:0.0:1.0	.	538;538	Q4L180-2;Q4L180	.;FIL1L_HUMAN	R	538;114;298;538;298;284;298	ENSP00000346560:K538R;ENSP00000417774:K114R;ENSP00000419642:K298R;ENSP00000327880:K538R;ENSP00000373192:K298R;ENSP00000419874:K298R	ENSP00000327880:K538R	K	-	2	0	FILIP1L	101051597	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.173000	0.58249	2.289000	0.77006	0.533000	0.62120	AAG		0.338	FILIP1L-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000353069.1	NM_014890		C	99568907	T	C	99568907	3	2	639	1	0	0	0	0	1	0	0	0	5902	1609	56	3	1823	3	FILIP1L	3	99568907	Missense_Mutation	SNP	T	TCGA-KL-8340-01A-11D-2310-10	50874760	99568907	98453523	9	39445										
EEFSEC	60678	mdanderson.org	37	chr3	127872506	127872506	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	ggcatcacgctcgatctgggCttctcgtgcttctcggtgcc	12	14	4	0	rs11711710	byFrequency	TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr3:127872506C>T	ENST00000254730.6	+	1	210	c.156C>T	c.(154-156)ggC>ggT	p.G52G	EEFSEC_ENST00000483457.1_Silent_p.G52G|RUVBL1_ENST00000464873.1_5'UTR	NM_021937.3	NP_068756.2	P57772	SELB_HUMAN	eukaryotic elongation factor, selenocysteine-tRNA-specific	52	tr-type G. {ECO:0000255|PROSITE- ProRule:PRU01059}.				selenocysteine incorporation (GO:0001514)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|ribonucleoprotein complex binding (GO:0043021)|selenocysteine insertion sequence binding (GO:0035368)|translation elongation factor activity (GO:0003746)|tRNA binding (GO:0000049)			NS(1)|endometrium(3)|kidney(4)|large_intestine(6)|lung(10)|ovary(1)	25						TCGATCTGGGCTTCTCGTGCT	0.726													C|||	682	0.136182	0.2315	0.134	5008	,	,		11740	0.0069		0.1143	False		,,,				2504	0.1646															0								C		880,3484		96,688,1398	11	14	13		156	4.3	1	3	dbSNP_120	13	1010,7520		57,896,3312	no	coding-synonymous	EEFSEC	NM_021937.3		153,1584,4710	TT,TC,CC		11.8406,20.165,14.658		52/597	127872506	1890,11004	2182	4265	6447	SO:0001819	synonymous_variant	60678				CCDS33849.1	3q21.3	2007-05-25			ENSG00000132394	ENSG00000132394			24614	protein-coding gene	gene with protein product	"elongation factor for selenoprotein translation"	607695				10970870, 15229221	Standard	XM_005247696		Approved	SELB, EFSEC	uc003eki.3	P57772	OTTHUMG00000159659	ENST00000254730.6:c.156C>T	3.37:g.127872506C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q96HZ6	Silent	SNP	ENST00000254730.6	37	CCDS33849.1																																																																																				0.726	EEFSEC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356738.2	NM_021937		T	127872506	C	T	127872506	2	4	639	1	0	0	0	0	0	0	0	1	4933	784	28	2		2	EEFSEC	3	127872506	Silent	SNP	C	TCGA-KL-8340-01A-11D-2310-10	28303599	127872506	70149924	10	39446										
C3orf36	80111	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	133647421	133647421	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	tctgctcctcggggtgtggcGcggcccactcaggagcccct	14	16	2	0			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr3:133647421G>A	ENST00000408895.2	-	1	1235	c.227C>T	c.(226-228)gCg>gTg	p.A76V		NM_025041.2	NP_079317.2	Q3SXR2	CC036_HUMAN	chromosome 3 open reading frame 36	76										breast(1)|endometrium(1)|large_intestine(2)|lung(1)|ovary(1)	6						GGGGTGTGGCGCGGCCCACTC	0.667																																																0													30	34	32					3																	133647421		2203	4300	6503	SO:0001583	missense	80111			AK025826	CCDS3083.1	3q22.1	2011-09-30			ENSG00000221972	ENSG00000221972			26170	protein-coding gene	gene with protein product						12477932	Standard	NM_025041		Approved	FLJ22173	uc003epz.1	Q3SXR2		ENST00000408895.2:c.227C>T	3.37:g.133647421G>A	ENSP00000386219:p.Ala76Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q3SXR3|Q9H6K8	Missense_Mutation	SNP	ENST00000408895.2	37	CCDS3083.1	.	.	.	.	.	.	.	.	.	.	G	9.323	1.058484	0.19987	.	.	ENSG00000221972	ENST00000408895	.	.	.	1.69	-3.38	0.04883	.	.	.	.	.	T	0.14700	0.0355	N	0.08118	0	0.09310	N	1	B	0.24317	0.101	B	0.06405	0.002	T	0.11251	-1.0595	8	0.87932	D	0	.	3.5665	0.07901	0.3568:0.0:0.4466:0.1966	.	76	Q3SXR2	CC036_HUMAN	V	76	.	ENSP00000386219:A76V	A	-	2	0	C3orf36	135130111	0.000000	0.05858	0.000000	0.03702	0.012000	0.07955	-0.783000	0.04638	-1.660000	0.01486	-0.823000	0.03104	GCG		0.667	C3orf36-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_025041		A	133647421	G	A	133647421	3	1	639	1	0	0	0	0	1	0	0	0	2228	1087	38	1	274	1	C3orf36	3	133647421	Missense_Mutation	SNP	G	TCGA-KL-8340-01A-11D-2310-10	5774915	133647421	64375009	11	39447										
CENPC1	1060	hgsc.bcm.edu	37	chr4	68357934	68357934	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	tcttgtttctgggtcctttaCcctcgttggctgcaaaggat	10	10	2	0			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr4:68357934C>T	ENST00000273853.6	-	16	2729	c.2479G>A	c.(2479-2481)Gta>Ata	p.V827I		NM_001812.2	NP_001803.2	Q03188	CENPC_HUMAN	centromere protein C	827					chromosome segregation (GO:0007059)|kinetochore assembly (GO:0051382)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	condensed nuclear chromosome, centromeric region (GO:0000780)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinetochore (GO:0000776)|nucleus (GO:0005634)|pericentric heterochromatin (GO:0005721)	centromeric DNA binding (GO:0019237)|DNA binding (GO:0003677)	p.V827L(1)									GGGTCCTTTACCCTCGTTGGC	0.338																																																1	Substitution - Missense(1)	lung(1)											94	83	86					4																	68357934		1826	4089	5915	SO:0001583	missense	1060			M95724	CCDS47063.1	4q13.2	2013-11-05	2013-07-03	2013-07-03	ENSG00000145241	ENSG00000145241			1854	protein-coding gene	gene with protein product		117141	"centromere protein C 1"	CENPC1		7959789	Standard	XR_245245		Approved	CENP-C, hcp-4, MIF2	uc003hdd.1	Q03188	OTTHUMG00000160735	ENST00000273853.6:c.2479G>A	4.37:g.68357934C>T	ENSP00000273853:p.Val827Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IW27|Q9P0M5	Missense_Mutation	SNP	ENST00000273853.6	37	CCDS47063.1	.	.	.	.	.	.	.	.	.	.	C	12.31	1.898264	0.33535	.	.	ENSG00000145241	ENST00000273853	.	.	.	5.34	3.61	0.41365	Cupin, RmlC-type (1);	0.459555	0.20370	N	0.093673	T	0.28566	0.0707	L	0.31664	0.95	0.09310	N	0.999998	B	0.15141	0.012	B	0.15052	0.012	T	0.16041	-1.0416	9	0.31617	T	0.26	-5.9703	8.3069	0.32047	0.0:0.8169:0.0:0.1831	.	827	Q03188	CENPC_HUMAN	I	827	.	ENSP00000273853:V827I	V	-	1	0	CENPC1	68040529	0.708000	0.27876	0.312000	0.25196	0.994000	0.84299	1.086000	0.30853	0.747000	0.32809	0.563000	0.77884	GTA		0.338	CENPC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362001.2			T	68357934	C	T	68357934	3	4	639	1	0	0	0	0	1	0	0	0	3231	507	18	2	368	2	CENPC1	4	68357934	Missense_Mutation	SNP	C	TCGA-KL-8340-01A-11D-2310-10		68357934	122796342	12	39448										
KIAA0947	23379	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	5464930	5464930	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	gtcaagagatttggggactcAgcaggattcaagcgggaaaa	14	6	3	1			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr5:5464930A>G	ENST00000296564.7	+	13	5705	c.5483A>G	c.(5482-5484)cAg>cGg	p.Q1828R		NM_015325.2	NP_056140.1	Q9Y2F5	ICE1_HUMAN		1828					positive regulation of intracellular protein transport (GO:0090316)|positive regulation of protein complex assembly (GO:0031334)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|snRNA transcription from RNA polymerase II promoter (GO:0042795)|snRNA transcription from RNA polymerase III promoter (GO:0042796)	Cajal body (GO:0015030)|histone locus body (GO:0035363)|transcription elongation factor complex (GO:0008023)|transcriptionally active chromatin (GO:0035327)	protein homodimerization activity (GO:0042803)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(5)|lung(14)|ovary(1)|prostate(4)|upper_aerodigestive_tract(1)	35						TTGGGGACTCAGCAGGATTCA	0.498																																																0													39	42	41					5																	5464930		1989	4184	6173	SO:0001583	missense	23379																														ENST00000296564.7:c.5483A>G	5.37:g.5464930A>G	ENSP00000296564:p.Gln1828Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DE1|Q6ZT40|Q7L587|Q7Z3A9|Q9NTH9	Missense_Mutation	SNP	ENST00000296564.7	37	CCDS47187.1	.	.	.	.	.	.	.	.	.	.	A	4.793	0.147435	0.09134	.	.	ENSG00000164151	ENST00000296564	T	0.11169	2.8	4.66	0.709	0.18150	.	.	.	.	.	T	0.05731	0.0150	N	0.14661	0.345	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.42155	-0.9468	9	0.29301	T	0.29	0.1943	6.0771	0.19921	0.5811:0.3301:0.0888:0.0	.	1828	Q9Y2F5	K0947_HUMAN	R	1828	ENSP00000296564:Q1828R	ENSP00000296564:Q1828R	Q	+	2	0	KIAA0947	5517930	0.000000	0.05858	0.003000	0.11579	0.332000	0.28634	0.673000	0.25203	-0.122000	0.11766	0.383000	0.25322	CAG		0.498	KIAA0947-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365575.1			G	5464930	A	G	5464930	3	3	639	1	0	0	0	0	1	0	0	0	8209	188	7	3	5533	3	KIAA0947	5	5464930	Missense_Mutation	SNP	A	TCGA-KL-8340-01A-11D-2310-10		5464930	175450330	13	39449										
DDX4	54514	broad.mit.edu	37	chr5	55111195	55111195	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	ttgcctttagtacatacattCctggcttcagtggtagtaca	8	9	1	0	rs373207863		TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr5:55111195C>T	ENST00000505374.1	+	21	2133	c.2041C>T	c.(2041-2043)Cct>Tct	p.P681S	DDX4_ENST00000354991.5_Missense_Mutation_p.P647S|DDX4_ENST00000353507.5_Missense_Mutation_p.P647S|DDX4_ENST00000514278.2_Missense_Mutation_p.P661S|DDX4_ENST00000511853.1_Missense_Mutation_p.P532S	NM_024415.2	NP_077726.1	Q9NQI0	DDX4_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 4	681					male meiosis I (GO:0007141)|multicellular organismal development (GO:0007275)|regulation of protein localization (GO:0032880)|sperm motility (GO:0030317)|spermatogenesis (GO:0007283)	chromatoid body (GO:0033391)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|pi-body (GO:0071546)|piP-body (GO:0071547)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|nucleic acid binding (GO:0003676)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(4)|lung(8)|ovary(1)|skin(3)|upper_aerodigestive_tract(2)	24		Lung NSC(810;6.93e-05)|all_neural(839;0.00409)|Prostate(74;0.0107)|Breast(144;0.0544)|Ovarian(174;0.223)				TACATACATTCCTGGCTTCAG	0.353																																																0								C	SER/PRO,SER/PRO,SER/PRO,SER/PRO	0,4406		0,0,2203	142	137	138		1939,1981,1594,2041	4.6	1	5		138	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,missense,missense	DDX4	NM_001142549.1,NM_001166533.1,NM_001166534.1,NM_024415.2	74,74,74,74	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging,probably-damaging,probably-damaging,probably-damaging	647/691,661/705,532/576,681/725	55111195	1,13005	2203	4300	6503	SO:0001583	missense	54514			AF262962	CCDS3969.1, CCDS47208.1, CCDS54854.1, CCDS54855.1	5p15.2-p13.1	2008-02-05	2003-06-13		ENSG00000152670	ENSG00000152670		"DEAD-boxes"	18700	protein-coding gene	gene with protein product		605281	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 4"			10920202, 11850529	Standard	NM_001142549		Approved	VASA	uc003jqg.4	Q9NQI0	OTTHUMG00000097044	ENST00000505374.1:c.2041C>T	5.37:g.55111195C>T	ENSP00000424838:p.Pro681Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8Q2|B3KSF4|D6RDK4|E9PCD8|Q5M7Z3|Q86VX0|Q9NT92|Q9NYB1	Missense_Mutation	SNP	ENST00000505374.1	37	CCDS3969.1	.	.	.	.	.	.	.	.	.	.	C	8.888	0.953287	0.18431	0.0	1.16E-4	ENSG00000152670	ENST00000353507;ENST00000514278;ENST00000505374;ENST00000354991;ENST00000511853	T;T;T;T;T	0.20598	2.08;2.08;2.06;2.08;2.08	5.42	4.55	0.56014	.	0.307172	0.29853	N	0.011023	T	0.13756	0.0333	N	0.10645	0.015	0.26273	N	0.978392	B;B;D	0.58620	0.004;0.009;0.983	B;B;P	0.53102	0.004;0.018;0.718	T	0.09292	-1.0681	10	0.10377	T	0.69	-12.868	6.8119	0.23809	0.3159:0.603:0.0:0.0811	.	532;647;681	E9PCD8;Q9NQI0-2;Q9NQI0	.;.;DDX4_HUMAN	S	647;661;681;647;532	ENSP00000334167:P647S;ENSP00000425359:P661S;ENSP00000424838:P681S;ENSP00000347087:P647S;ENSP00000423123:P532S	ENSP00000334167:P647S	P	+	1	0	DDX4	55146952	0.218000	0.23608	0.965000	0.40720	0.783000	0.44284	0.283000	0.18846	1.271000	0.44313	0.563000	0.77884	CCT		0.353	DDX4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214147.2	NM_024415		T	55111195	C	T	55111195	3	4	639	1	0	0	0	0	1	0	0	0	4362	855	30	2	2160	2	DDX4	5	55111195	Missense_Mutation	SNP	C	TCGA-KL-8340-01A-11D-2310-10	49646265	55111195	125804065	14	39450										
PCDHGA2	56113	broad.mit.edu;mdanderson.org	37	chr5	140720557	140720557	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	aggatccccgacatcctggcCgacctgggcagcctcgagcc	12	17	0	0			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr5:140720557C>T	ENST00000394576.2	+	1	2019	c.2019C>T	c.(2017-2019)gcC>gcT	p.A673A	PCDHGA1_ENST00000517417.1_Intron	NM_018915.2	NP_061738.1	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2	673	Cadherin 6. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(20)|lung(32)|ovary(1)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	77			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACATCCTGGCCGACCTGGGCA	0.687																																																0													55	64	61					5																	140720557		2203	4298	6501	SO:0001819	synonymous_variant	56113			AF152508	CCDS47289.1	5q31	2011-03-28			ENSG00000081853	ENSG00000081853		"Cadherins / Protocadherins : Clustered"	8700	other	protocadherin		606289				10380929	Standard	NM_018915		Approved	PCDH-GAMMA-A2		Q9Y5H1	OTTHUMG00000163679	ENST00000394576.2:c.2019C>T	5.37:g.140720557C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q52LL6|Q9Y5D5	Silent	SNP	ENST00000394576.2	37	CCDS47289.1																																																																																				0.687	PCDHGA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374738.1	NM_018915		T	140720557	C	T	140720557	2	4	639	1	0	0	0	0	0	0	0	1	11561	639	23	1		1	PCDHGA2	5	140720557	Silent	SNP	C	TCGA-KL-8340-01A-11D-2310-10	85609362	140720557	40194703	15	39451										
PCDHGB1	56104	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr5	140731460	140731460	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	tcagcgccaacgtgagcctgCgcgtgttggtgggcgacctc	15	13	1	1			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr5:140731460C>T	ENST00000523390.1	+	1	1633	c.1633C>T	c.(1633-1635)Cgc>Tgc	p.R545C	PCDHGA2_ENST00000394576.2_Intron|PCDHGA3_ENST00000253812.6_Intron|PCDHGA1_ENST00000517417.1_Intron	NM_018922.2|NM_032095.1	NP_061745.1|NP_115266.1	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1	545	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(6)|lung(3)|ovary(2)|prostate(1)	16			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTGAGCCTGCGCGTGTTGGT	0.706																																																0													42	52	49					5																	140731460		2137	4244	6381	SO:0001583	missense	56104			AF152517	CCDS54923.1, CCDS75330.1	5q31	2010-01-26				ENSG00000254221		"Cadherins / Protocadherins : Clustered"	8708	other	protocadherin	"protocadherin gamma subfamily B, 1, isoform 2"	606299				10380929	Standard	NM_018922		Approved	PCDH-GAMMA-B1		Q9Y5G3		ENST00000523390.1:c.1633C>T	5.37:g.140731460C>T	ENSP00000429273:p.Arg545Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q3SY75|Q9Y5C8	Missense_Mutation	SNP	ENST00000523390.1	37	CCDS54923.1	.	.	.	.	.	.	.	.	.	.	.	12.73	2.024200	0.35701	.	.	ENSG00000254221	ENST00000523390	T	0.54279	0.58	5.39	3.58	0.41010	Cadherin (5);Cadherin-like (1);	.	.	.	.	T	0.54208	0.1844	M	0.87381	2.88	0.31152	N	0.705383	P;B	0.43750	0.816;0.452	B;B	0.37989	0.233;0.262	T	0.63037	-0.6726	9	0.56958	D	0.05	.	7.9252	0.29870	0.3979:0.5288:0.0:0.0733	.	545;545	Q9Y5G3-2;Q9Y5G3	.;PCDGD_HUMAN	C	545	ENSP00000429273:R545C	ENSP00000429273:R545C	R	+	1	0	PCDHGB1	140711644	0.002000	0.14202	1.000000	0.80357	0.801000	0.45260	-0.074000	0.11450	0.735000	0.32537	0.563000	0.77884	CGC		0.706	PCDHGB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374740.1	NM_018922		T	140731460	C	T	140731460	3	4	639	1	0	0	0	0	1	0	0	0	11569	768	27	1	1635	1	PCDHGB1	5	140731460	Missense_Mutation	SNP	C	TCGA-KL-8340-01A-11D-2310-10	10903	140731460	40183800	16	39452										
PCDH12	51294	broad.mit.edu	37	chr5	141331089	141331089	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	tggcttggccaagtacttatTtcctcggtggtttggtttgg	13	7	0	0			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr5:141331089T>G	ENST00000231484.3	-	2	4157	c.2947A>C	c.(2947-2949)Aat>Cat	p.N983H	AC005740.6_ENST00000607378.1_RNA	NM_016580.2	NP_057664.1	Q9NPG4	PCD12_HUMAN	protocadherin 12	983					calcium-dependent cell-cell adhesion (GO:0016339)|glycogen metabolic process (GO:0005977)|homophilic cell adhesion (GO:0007156)|labyrinthine layer development (GO:0060711)|neuron recognition (GO:0008038)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(13)|lung(14)|ovary(3)|prostate(2)|skin(1)	38		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAGTACTTATTTCCTCGGTGG	0.557											OREG0016877	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													111	101	105					5																	141331089		2203	4300	6503	SO:0001583	missense	51294			AF231025	CCDS4269.1	5q31.3	2010-01-26			ENSG00000113555	ENSG00000113555		"Cadherins / Protocadherins : Non-clustered"	8657	protein-coding gene	gene with protein product		605622				10716726, 10380929	Standard	NM_016580		Approved	VE-cadherin-2	uc003llx.3	Q9NPG4	OTTHUMG00000129658	ENST00000231484.3:c.2947A>C	5.37:g.141331089T>G	ENSP00000231484:p.Asn983His	Somatic	1663	WXS	Illumina HiSeq	Phase_I	Q6UXB6|Q96KB8|Q9H7Y6|Q9H8E0	Missense_Mutation	SNP	ENST00000231484.3	37	CCDS4269.1	.	.	.	.	.	.	.	.	.	.	T	29.4	5.006141	0.93287	.	.	ENSG00000113555	ENST00000231484	T	0.77098	-1.07	6.08	6.08	0.98989	.	0.000000	0.85682	D	0.000000	D	0.87569	0.6210	M	0.74881	2.28	0.54753	D	0.999988	D	0.89917	1.0	D	0.87578	0.998	D	0.88768	0.3262	10	0.87932	D	0	.	14.5959	0.68407	0.0:0.0:0.0:1.0	.	983	Q9NPG4	PCD12_HUMAN	H	983	ENSP00000231484:N983H	ENSP00000231484:N983H	N	-	1	0	PCDH12	141311273	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.040000	0.89188	2.333000	0.79357	0.533000	0.62120	AAT		0.557	PCDH12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251858.1	NM_016580		G	141331089	T	G	141331089	3	3	639	1	0	0	0	0	1	0	0	0	11517	1841	64	5	619	5	PCDH12	5	141331089	Missense_Mutation	SNP	T	TCGA-KL-8340-01A-11D-2310-10	599629	141331089	39584171	17	39453										
PHACTR1	221692	broad.mit.edu;bcgsc.ca	37	chr6	12719071	12719071	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	aagattcttctacagtcaagGagctcaaggtaataaaataa	7	6	4	1			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr6:12719071G>A	ENST00000379350.1	+	2	224	c.95G>A	c.(94-96)gGa>gAa	p.G32E	PHACTR1_ENST00000332995.7_Missense_Mutation_p.G32E|PHACTR1_ENST00000379348.2_Missense_Mutation_p.G32E			Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	32					actin cytoskeleton reorganization (GO:0031532)|actomyosin structure organization (GO:0031032)|cell motility (GO:0048870)|stress fiber assembly (GO:0043149)	cell junction (GO:0030054)|cytosol (GO:0005829)|nucleus (GO:0005634)|synapse (GO:0045202)	actin binding (GO:0003779)|protein phosphatase inhibitor activity (GO:0004864)			breast(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(10)|ovary(1)|skin(2)|upper_aerodigestive_tract(3)	26	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			TACAGTCAAGGAGCTCAAGGT	0.388																																																0													30	28	28					6																	12719071		1822	4076	5898	SO:0001583	missense	221692			AB051520	CCDS75401.1	6p23	2013-01-24	2004-05-20	2004-05-21	ENSG00000112137	ENSG00000112137		"Phosphatase and actin regulators"	20990	protein-coding gene	gene with protein product		608723	"RPEL repeat containing 1"	RPEL1		11214970, 15107502	Standard	NM_030948		Approved	KIAA1733, dJ257A7.2	uc010jpc.3	Q9C0D0	OTTHUMG00000014270	ENST00000379350.1:c.95G>A	6.37:g.12719071G>A	ENSP00000368655:p.Gly32Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1V2|Q3MJ93|Q5JSJ2	Missense_Mutation	SNP	ENST00000379350.1	37		.	.	.	.	.	.	.	.	.	.	G	23.8	4.459506	0.84317	.	.	ENSG00000112137	ENST00000379350;ENST00000379348;ENST00000332995;ENST00000432934	T;T;T	0.43294	0.95;0.95;0.95	6.17	6.17	0.99709	.	0.000000	0.47455	D	0.000235	T	0.42359	0.1199	N	0.14661	0.345	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	0.996;1.0;0.996;0.998	T	0.50110	-0.8866	10	0.87932	D	0	.	18.0353	0.89301	0.0:0.0:1.0:0.0	.	32;32;32;32	E7ESR5;Q5R356;Q9C0D0;Q9C0D0-2	.;.;PHAR1_HUMAN;.	E	32	ENSP00000368655:G32E;ENSP00000368653:G32E;ENSP00000329880:G32E	ENSP00000329880:G32E	G	+	2	0	PHACTR1	12827057	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	6.069000	0.71209	2.941000	0.99782	0.655000	0.94253	GGA		0.388	PHACTR1-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000039876.1	XM_166420		A	12719071	G	A	12719071	3	1	639	1	0	0	0	0	1	0	0	0	11816	1174	41	2	97	2	PHACTR1	6	12719071	Missense_Mutation	SNP	G	TCGA-KL-8340-01A-11D-2310-10		12719071	158395996	18	39454										
MUC21	394263	mdanderson.org	37	chr6	30955202	30955202	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	cagcacagtgtccagtggggCcagcactgccaccaattctg	11	14	1	0	rs2429294	byFrequency	TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr6:30955202C>T	ENST00000376296.3	+	2	1491	c.1250C>T	c.(1249-1251)gCc>gTc	p.A417V	MUC21_ENST00000486149.2_5'UTR	NM_001010909.2	NP_001010909.2	Q5SSG8	MUC21_HUMAN	mucin 21, cell surface associated	417	28 X 15 AA approximate tandem repeats.|Ser-rich.			A -> I (in Ref. 3; AAQ88781 and 4; CAQ08321). {ECO:0000305}.	cellular protein metabolic process (GO:0044267)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-substrate adhesion (GO:0010812)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(4)|breast(1)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(3)|prostate(4)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	42						TCCAGTGGGGCCAGCACTGCC	0.622													c|||	404	0.0806709	0.0749	0.1427	5008	,	,		19938	0.0556		0.0805	False		,,,				2504	0.0706															0																																										SO:0001583	missense	394263			AK056612	CCDS34388.1	6p21.33	2008-05-14	2008-05-14	2008-05-14	ENSG00000204544	ENSG00000204544		"Mucins"	21661	protein-coding gene	gene with protein product	"epiglycanin"		"chromosome 6 open reading frame 205"	C6orf205		17977904	Standard	NM_001010909		Approved	bCX31G15.2	uc003nsh.2	Q5SSG8	OTTHUMG00000031216	ENST00000376296.3:c.1250C>T	6.37:g.30955202C>T	ENSP00000365473:p.Ala417Val	Somatic		WXS	Illumina HiSeq	Phase_I	B0UZT7|B4DQ55|C9JMK2|D9N007|Q0VGF1|Q3B7T2|Q5SS94|Q6UXC5	Missense_Mutation	SNP	ENST00000376296.3	37	CCDS34388.1	217	0.09935897435897435	48	0.0975609756097561	60	0.16574585635359115	55	0.09615384615384616	54	0.0712401055408971	c	9.220	1.033023	0.19590	.	.	ENSG00000204544	ENST00000450707;ENST00000376296	T	0.01804	4.63	3.58	1.78	0.24846	.	.	.	.	.	T	0.00328	0.0010	N	0.03608	-0.345	0.09310	N	1	B	0.09022	0.002	B	0.08055	0.003	T	0.37709	-0.9694	9	0.25106	T	0.35	-0.4275	7.735	0.28808	0.0:0.7843:0.0:0.2157	rs2429294	417	Q5SSG8	MUC21_HUMAN	V	267;417	ENSP00000365473:A417V	ENSP00000365473:A417V	A	+	2	0	MUC21	31063181	0.000000	0.05858	0.001000	0.08648	0.018000	0.09664	-0.835000	0.04386	0.325000	0.23359	-0.225000	0.12378	GCC		0.622	MUC21-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000128579.3	NM_001010909		T	30955202	C	T	30955202	3	4	639	1	0	0	0	0	1	0	0	0	9984	739	26	2	1256	2	MUC21	6	30955202	Missense_Mutation	SNP	C	TCGA-KL-8340-01A-11D-2310-10	18236131	30955202	140159865	19	39455										
KIAA1244	57221	ucsc.edu	37	chr6	138483249	138483249	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	agaaatcctgaggaagctgcAgaaggaggcgtccgggagca	16	8	0	3			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr6:138483249A>G	ENST00000251691.4	+	1	192	c.26A>G	c.(25-27)cAg>cGg	p.Q9R		NM_020340.4	NP_065073.3			KIAA1244											NS(1)|breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(11)|lung(17)|ovary(2)|skin(2)	44	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		AGGAAGCTGCAGAAGGAGGCG	0.701																																																0													39	48	45					6																	138483249		1918	4134	6052	SO:0001583	missense	57221			AB033070	CCDS5189.2	6q23.3	2012-04-17			ENSG00000112379	ENSG00000112379		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	21213	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 33"		"chromosome 6 open reading frame 92"	C6orf92			Standard	NM_020340		Approved	dJ171N11.1, BIG3, PPP1R33	uc003qhu.3	Q5TH69	OTTHUMG00000015670	ENST00000251691.4:c.26A>G	6.37:g.138483249A>G	ENSP00000251691:p.Gln9Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000251691.4	37	CCDS5189.2	.	.	.	.	.	.	.	.	.	.	A	23.7	4.450976	0.84209	.	.	ENSG00000112379	ENST00000251691	T	0.18174	2.23	4.07	4.07	0.47477	.	.	.	.	.	T	0.17323	0.0416	L	0.40543	1.245	0.40639	D	0.981929	D	0.54601	0.967	P	0.62382	0.901	T	0.01401	-1.1364	9	0.39692	T	0.17	-11.7155	12.2239	0.54449	1.0:0.0:0.0:0.0	.	9	Q5TH69	BIG3_HUMAN	R	9	ENSP00000251691:Q9R	ENSP00000251691:Q9R	Q	+	2	0	KIAA1244	138524942	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	6.816000	0.75247	1.487000	0.48415	0.374000	0.22700	CAG		0.701	KIAA1244-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042425.4	NM_020340		G	138483249	A	G	138483249	3	3	639	1	0	0	0	0	1	0	0	0	8224	188	7	3	28	3	KIAA1244	6	138483249	Missense_Mutation	SNP	A	TCGA-KL-8340-01A-11D-2310-10	107528047	138483249	32631818	20	39456										
KIAA1244	57221	bcgsc.ca	37	chr6	138583938	138583938	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	tgctgggtgccctggatgagCtcagccaggggaagggcttg	18	9	1	1			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr6:138583938C>T	ENST00000251691.4	+	12	1484	c.1318C>T	c.(1318-1320)Ctc>Ttc	p.L440F		NM_020340.4	NP_065073.3			KIAA1244											NS(1)|breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(11)|lung(17)|ovary(2)|skin(2)	44	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		CCTGGATGAGCTCAGCCAGGG	0.587																																																0													98	89	92					6																	138583938		2203	4300	6503	SO:0001583	missense	57221			AB033070	CCDS5189.2	6q23.3	2012-04-17			ENSG00000112379	ENSG00000112379		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	21213	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 33"		"chromosome 6 open reading frame 92"	C6orf92			Standard	NM_020340		Approved	dJ171N11.1, BIG3, PPP1R33	uc003qhu.3	Q5TH69	OTTHUMG00000015670	ENST00000251691.4:c.1318C>T	6.37:g.138583938C>T	ENSP00000251691:p.Leu440Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000251691.4	37	CCDS5189.2	.	.	.	.	.	.	.	.	.	.	C	18.70	3.680008	0.68042	.	.	ENSG00000112379	ENST00000251691	T	0.05025	3.51	5.62	5.62	0.85841	.	0.000000	0.85682	D	0.000000	T	0.18467	0.0443	M	0.72894	2.215	0.58432	D	0.999991	D	0.76494	0.999	D	0.80764	0.994	T	0.00262	-1.1867	10	0.87932	D	0	-23.6865	17.8491	0.88739	0.0:1.0:0.0:0.0	.	440	Q5TH69	BIG3_HUMAN	F	440	ENSP00000251691:L440F	ENSP00000251691:L440F	L	+	1	0	KIAA1244	138625631	1.000000	0.71417	1.000000	0.80357	0.773000	0.43773	7.313000	0.78978	2.639000	0.89480	0.655000	0.94253	CTC		0.587	KIAA1244-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042425.4	NM_020340		T	138583938	C	T	138583938	3	4	639	1	0	0	0	0	1	0	0	0	8224	797	28	2	1364	2	KIAA1244	6	138583938	Missense_Mutation	SNP	C	TCGA-KL-8340-01A-11D-2310-10	100689	138583938	32531129	21	39457										
PEX3	8504	broad.mit.edu	37	chr6	143780275	143780275	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	aaatcagagaaatacaggaaAgggaggctgcagaatacatt	11	5	1	2			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr6:143780275A>G	ENST00000367591.4	+	2	190	c.127A>G	c.(127-129)Agg>Ggg	p.R43G		NM_003630.2	NP_003621.1	P56589	PEX3_HUMAN	peroxisomal biogenesis factor 3	43	Targeting to peroxisomes.				peroxisome membrane biogenesis (GO:0016557)|peroxisome organization (GO:0007031)|protein import into peroxisome membrane (GO:0045046)|transmembrane transport (GO:0055085)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|integral component of peroxisomal membrane (GO:0005779)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)|protein complex (GO:0043234)|protein-lipid complex (GO:0032994)	lipid binding (GO:0008289)|protein dimerization activity (GO:0046983)			endometrium(1)|large_intestine(9)|lung(4)|ovary(2)|skin(2)	18				OV - Ovarian serous cystadenocarcinoma(155;5.73e-06)|GBM - Glioblastoma multiforme(68;0.0117)		AATACAGGAAAGGGAGGCTGC	0.343																																																0													109	105	106					6																	143780275		2203	4300	6503	SO:0001583	missense	8504			AJ001625	CCDS5199.1	6q24.2	2008-05-15			ENSG00000034693	ENSG00000034693			8858	protein-coding gene	gene with protein product		603164				9657383	Standard	NM_003630		Approved		uc003qjl.3	P56589	OTTHUMG00000015730	ENST00000367591.4:c.127A>G	6.37:g.143780275A>G	ENSP00000356563:p.Arg43Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FGP5	Missense_Mutation	SNP	ENST00000367591.4	37	CCDS5199.1	.	.	.	.	.	.	.	.	.	.	A	13.95	2.390393	0.42410	.	.	ENSG00000034693	ENST00000367591	T	0.53640	0.61	5.76	5.76	0.90799	.	0.153254	0.56097	D	0.000036	T	0.34454	0.0898	M	0.66378	2.025	0.58432	D	0.999999	B;B	0.10296	0.002;0.003	B;B	0.20184	0.028;0.003	T	0.34502	-0.9826	10	0.54805	T	0.06	-10.4094	12.7856	0.57502	0.8544:0.1456:0.0:0.0	.	43;43	B4DV31;P56589	.;PEX3_HUMAN	G	43	ENSP00000356563:R43G	ENSP00000356563:R43G	R	+	1	2	PEX3	143821968	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	4.367000	0.59498	2.197000	0.70478	0.482000	0.46254	AGG		0.343	PEX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042525.1			G	143780275	A	G	143780275	3	3	639	1	0	0	0	0	1	0	0	0	11754	63	3	3	133	3	PEX3	6	143780275	Missense_Mutation	SNP	A	TCGA-KL-8340-01A-11D-2310-10	5196337	143780275	27334792	22	39458										
TCP1	6950	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr6	160200278	160200278	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	tctcgaggtttaccattgctCaaatcaagaccaatcctgca	6	12	3	1			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr6:160200278C>T	ENST00000321394.7	-	12	1750	c.1470G>A	c.(1468-1470)ttG>ttA	p.L490L	TCP1_ENST00000420894.2_3'UTR|TCP1_ENST00000392168.2_Silent_p.L335L|SNORA20_ENST00000384662.1_RNA|TCP1_ENST00000544255.1_Silent_p.L266L	NM_030752.2	NP_110379.2	P17987	TCPA_HUMAN	t-complex 1	490					'de novo' posttranslational protein folding (GO:0051084)|binding of sperm to zona pellucida (GO:0007339)|cellular protein metabolic process (GO:0044267)|protein folding (GO:0006457)|tubulin complex assembly (GO:0007021)	acrosomal vesicle (GO:0001669)|cell body (GO:0044297)|centrosome (GO:0005813)|chaperonin-containing T-complex (GO:0005832)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|nuclear heterochromatin (GO:0005720)|pericentriolar material (GO:0000242)|zona pellucida receptor complex (GO:0002199)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|unfolded protein binding (GO:0051082)			breast(1)|endometrium(4)|large_intestine(3)|lung(2)	10		Breast(66;1.53e-05)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(65;4.05e-20)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		TACCATTGCTCAAATCAAGAC	0.373																																																0													89	91	90					6																	160200278		2203	4300	6503	SO:0001819	synonymous_variant	6950			X52882	CCDS5269.1, CCDS43522.1	6q25-q27	2012-10-02			ENSG00000120438	ENSG00000120438		"Heat Shock Proteins / Chaperonins"	11655	protein-coding gene	gene with protein product		186980				3476253, 3653076	Standard	NM_030752		Approved	D6S230E, CCT1, Ccta	uc003qsr.3	P17987	OTTHUMG00000015937	ENST00000321394.7:c.1470G>A	6.37:g.160200278C>T		Somatic		WXS	Illumina HiSeq	Phase_I	E1P5B2|Q15556|Q5TCM3	Silent	SNP	ENST00000321394.7	37	CCDS5269.1																																																																																				0.373	TCP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042917.2	NM_030752		T	160200278	C	T	160200278	2	4	639	1	0	0	0	0	0	0	0	1	15721	825	29	2		2	TCP1	6	160200278	Silent	SNP	C	TCGA-KL-8340-01A-11D-2310-10	16420003	160200278	10914789	23	39459										
GLI3	2737	broad.mit.edu	37	chr7	42079819	42079819	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	ctcggcctggctgacagcctGgggctggagaatctggtgcc	16	12	1	2			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr7:42079819G>T	ENST00000395925.3	-	7	930	c.846C>A	c.(844-846)ccC>ccA	p.P282P	GLI3_ENST00000479210.1_5'UTR	NM_000168.5	NP_000159.3	P10071	GLI3_HUMAN	GLI family zinc finger 3	282					anterior semicircular canal development (GO:0060873)|anterior/posterior pattern specification (GO:0009952)|artery development (GO:0060840)|axon guidance (GO:0007411)|branching involved in ureteric bud morphogenesis (GO:0001658)|camera-type eye morphogenesis (GO:0048593)|cell differentiation involved in kidney development (GO:0061005)|cerebral cortex radial glia guided migration (GO:0021801)|developmental growth (GO:0048589)|embryonic digestive tract development (GO:0048566)|embryonic digestive tract morphogenesis (GO:0048557)|embryonic digit morphogenesis (GO:0042733)|embryonic skeletal system morphogenesis (GO:0048704)|forebrain dorsal/ventral pattern formation (GO:0021798)|forebrain radial glial cell differentiation (GO:0021861)|frontal suture morphogenesis (GO:0060364)|heart development (GO:0007507)|hindgut morphogenesis (GO:0007442)|hippocampus development (GO:0021766)|in utero embryonic development (GO:0001701)|lambdoid suture morphogenesis (GO:0060366)|lateral ganglionic eminence cell proliferation (GO:0022018)|lateral semicircular canal development (GO:0060875)|limb morphogenesis (GO:0035108)|lung development (GO:0030324)|mammary gland specification (GO:0060594)|melanocyte differentiation (GO:0030318)|metanephros development (GO:0001656)|negative regulation of alpha-beta T cell differentiation (GO:0046639)|negative regulation of apoptotic process (GO:0043066)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cell proliferation (GO:0008285)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative thymic T cell selection (GO:0045060)|nose morphogenesis (GO:0043585)|odontogenesis of dentin-containing tooth (GO:0042475)|oligodendrocyte differentiation (GO:0048709)|optic nerve morphogenesis (GO:0021631)|palate development (GO:0060021)|positive regulation of alpha-beta T cell differentiation (GO:0046638)|positive regulation of chondrocyte differentiation (GO:0032332)|positive regulation of neuroblast proliferation (GO:0002052)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of protein import into nucleus (GO:0042307)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein processing (GO:0016485)|proximal/distal pattern formation (GO:0009954)|response to estrogen (GO:0043627)|sagittal suture morphogenesis (GO:0060367)|smoothened signaling pathway (GO:0007224)|smoothened signaling pathway involved in dorsal/ventral neural tube patterning (GO:0060831)|smoothened signaling pathway involved in spinal cord motor neuron cell fate specification (GO:0021776)|smoothened signaling pathway involved in ventral spinal cord interneuron specification (GO:0021775)|T cell differentiation in thymus (GO:0033077)|thymocyte apoptotic process (GO:0070242)|tongue development (GO:0043586)|transcription, DNA-templated (GO:0006351)|wound healing (GO:0042060)	cilium (GO:0005929)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|primary cilium (GO:0072372)|transcriptional repressor complex (GO:0017053)	beta-catenin binding (GO:0008013)|chromatin binding (GO:0003682)|histone acetyltransferase binding (GO:0035035)|histone deacetylase binding (GO:0042826)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(2)|biliary_tract(1)|breast(4)|central_nervous_system(2)|endometrium(12)|kidney(7)|large_intestine(25)|lung(49)|ovary(3)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	112						CTGACAGCCTGGGGCTGGAGA	0.468									Pallister-Hall syndrome;Greig Cephalopolysyndactyly																																							0													120	114	116					7																	42079819		2203	4300	6503	SO:0001819	synonymous_variant	2737	Familial Cancer Database	;		CCDS5465.1	7p13	2013-01-25	2009-03-05		ENSG00000106571	ENSG00000106571		"Zinc fingers, C2H2-type"	4319	protein-coding gene	gene with protein product	"zinc finger protein GLI3", "oncogene GLI3", "DNA-binding protein"	165240	"Greig cephalopolysyndactyly syndrome", "GLI-Kruppel family member GLI3", "glioma-associated oncogene family zinc finger 3"	GCPS, PHS		2118997	Standard	NM_000168		Approved	PAP-A, PAPA, PAPA1, PAPB, ACLS, PPDIV	uc011kbh.2	P10071	OTTHUMG00000023630	ENST00000395925.3:c.846C>A	7.37:g.42079819G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4D1W1|O75219|Q17RW4|Q75MT0|Q75MU9|Q9UDT5|Q9UJ39	Silent	SNP	ENST00000395925.3	37	CCDS5465.1																																																																																				0.468	GLI3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250806.3	NM_000168		T	42079819	G	T	42079819	2	4	639	1	0	0	0	0	0	0	0	1	6446	1335	47	4		4	GLI3	7	42079819	Silent	SNP	G	TCGA-KL-8340-01A-11D-2310-10		42079819	117058844	24	39460										
ESRP1	54845	bcgsc.ca	37	chr8	95683886	95683886	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	tactcatggggttcacatggTtttgaatcaccaggtaagaa	10	7	3	2			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr8:95683886T>C	ENST00000433389.2	+	11	1629	c.1439T>C	c.(1438-1440)gTt>gCt	p.V480A	ESRP1_ENST00000423620.2_Missense_Mutation_p.V480A|ESRP1_ENST00000358397.5_Missense_Mutation_p.V480A|ESRP1_ENST00000454170.2_Missense_Mutation_p.V480A	NM_001034915.2|NM_017697.3	NP_001030087.2|NP_060167.2	Q6NXG1	ESRP1_HUMAN	epithelial splicing regulatory protein 1	480	RRM 3. {ECO:0000255|PROSITE- ProRule:PRU00176}.				mRNA processing (GO:0006397)|regulation of RNA splicing (GO:0043484)|RNA splicing (GO:0008380)	nucleus (GO:0005634)	mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)		ESRP1/RAF1(4)	NS(1)|central_nervous_system(1)|endometrium(6)|kidney(1)|large_intestine(2)|lung(6)|prostate(1)|urinary_tract(2)	20						GTTCACATGGTTTTGAATCAC	0.383																																																0													41	40	40					8																	95683886		1907	4147	6054	SO:0001583	missense	54845			AK000178	CCDS47895.1, CCDS47896.1, CCDS47897.1, CCDS47898.1	8q22.1	2013-02-12	2009-03-10	2009-03-10	ENSG00000104413	ENSG00000104413		"RNA binding motif (RRM) containing"	25966	protein-coding gene	gene with protein product		612959	"RNA binding motif protein 35A"	RBM35A		12477932	Standard	NM_017697		Approved	FLJ20171	uc003ygq.4	Q6NXG1	OTTHUMG00000164587	ENST00000433389.2:c.1439T>C	8.37:g.95683886T>C	ENSP00000405738:p.Val480Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHA8|A8MPX1|E9PB47|Q2M2B0|Q499G3|Q6PJ86|Q9NXL8	Missense_Mutation	SNP	ENST00000433389.2	37	CCDS47897.1	.	.	.	.	.	.	.	.	.	.	T	23.9	4.473443	0.84640	.	.	ENSG00000104413	ENST00000423620;ENST00000433389;ENST00000358397;ENST00000454170;ENST00000517610	T;T;T;T;T	0.08807	3.05;3.05;3.05;3.05;3.05	4.98	4.98	0.66077	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (1);	0.000000	0.85682	D	0.000000	T	0.29355	0.0731	M	0.75447	2.3	0.80722	D	1	D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D	0.91635	0.992;0.999;0.994;0.999;0.997;0.996	T	0.02813	-1.1107	10	0.72032	D	0.01	-14.9747	14.9737	0.71254	0.0:0.0:0.0:1.0	.	480;480;480;480;480;480	D7PBN3;Q6NXG1-4;Q6NXG1-2;E9PB47;Q6NXG1-3;Q6NXG1	.;.;.;.;.;ESRP1_HUMAN	A	480;480;480;480;339	ENSP00000407349:V480A;ENSP00000405738:V480A;ENSP00000351168:V480A;ENSP00000402766:V480A;ENSP00000429125:V339A	ENSP00000351168:V480A	V	+	2	0	ESRP1	95753062	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	8.040000	0.89188	1.981000	0.57761	0.460000	0.39030	GTT		0.383	ESRP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000379326.1	NM_017697		C	95683886	T	C	95683886	3	2	639	1	0	0	0	0	1	0	0	0	5260	1725	60	3	1481	3	ESRP1	8	95683886	Missense_Mutation	SNP	T	TCGA-KL-8340-01A-11D-2310-10		95683886	50680136	25	39461										
NFKBIL2	4796	mdanderson.org	37	chr8	145661320	145661320	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	tccagctccagccagtccccGgccaggcactcctcctccgg	9	21	0	0	rs2721140	byFrequency	TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr8:145661320G>A	ENST00000409379.3	-	17	2525	c.2496C>T	c.(2494-2496)gcC>gcT	p.A832A	AC084125.4_ENST00000442850.1_RNA|AC084125.4_ENST00000544423.1_RNA	NM_013432.4	NP_038460.4	Q96HA7	TONSL_HUMAN	tonsoku-like, DNA repair protein	832					cytoplasmic sequestering of transcription factor (GO:0042994)|double-strand break repair via homologous recombination (GO:0000724)|regulation of RNA biosynthetic process (GO:2001141)|replication fork processing (GO:0031297)	cytoplasm (GO:0005737)|nuclear replication fork (GO:0043596)|nucleus (GO:0005634)	histone binding (GO:0042393)|transcription corepressor activity (GO:0003714)			biliary_tract(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|lung(14)|ovary(3)|prostate(1)|skin(1)	26						GCCAGTCCCCGGCCAGGCACT	0.741													g|||	2347	0.46865	0.4115	0.438	5008	,	,		13786	0.4246		0.4662	False		,,,				2504	0.6155															0										1747,2459		402,943,758	8	11	10		2496	-8.9	0	8	dbSNP_100	10	3725,4593		923,1879,1357	no	coding-synonymous	TONSL	NM_013432.4		1325,2822,2115	AA,AG,GG		44.7824,41.5359,43.6921		832/1379	145661320	5472,7052	2103	4159	6262	SO:0001819	synonymous_variant	4796				CCDS34968.2	8q24.3	2013-01-10	2010-12-02	2010-11-30	ENSG00000160949	ENSG00000160949		"Ankyrin repeat domain containing"	7801	protein-coding gene	gene with protein product		604546	"nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor-like 2"	NFKBIL2		7738005, 11246458	Standard	NM_013432		Approved	IKBR	uc011llg.2	Q96HA7	OTTHUMG00000153122	ENST00000409379.3:c.2496C>T	8.37:g.145661320G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B5MDP0|C9JKB1|C9JNV8|Q13006|Q9UGJ2	Silent	SNP	ENST00000409379.3	37	CCDS34968.2																																																																																				0.741	TONSL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329668.2	NM_013432		A	145661320	G	A	145661320	2	1	639	1	0	0	0	0	0	0	0	1	10389	1103	39	1		1	NFKBIL2	8	145661320	Silent	SNP	G	TCGA-KL-8340-01A-11D-2310-10	49977434	145661320	702702	26	39462										
IFNA7	3444	mdanderson.org	37	chr9	21202040	21202040	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	gagagattcttcccatttgtGccaggagtatcaaggccctc	10	11	2	1	rs200751233	byFrequency	TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr9:21202040G>C	ENST00000239347.3	-	1	164	c.125C>G	c.(124-126)gCa>gGa	p.A42G		NM_021057.2	NP_066401.2	P01567	IFNA7_HUMAN	interferon, alpha 7	42					adaptive immune response (GO:0002250)|B cell differentiation (GO:0030183)|B cell proliferation (GO:0042100)|blood coagulation (GO:0007596)|cell-cell signaling (GO:0007267)|cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|humoral immune response (GO:0006959)|innate immune response (GO:0045087)|natural killer cell activation involved in immune response (GO:0002323)|positive regulation of peptidyl-serine phosphorylation of STAT protein (GO:0033141)|regulation of MHC class I biosynthetic process (GO:0045343)|regulation of type I interferon-mediated signaling pathway (GO:0060338)|response to exogenous dsRNA (GO:0043330)|response to virus (GO:0009615)|T cell activation involved in immune response (GO:0002286)|type I interferon signaling pathway (GO:0060337)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	cytokine activity (GO:0005125)|type I interferon receptor binding (GO:0005132)			endometrium(3)|kidney(1)|large_intestine(1)|liver(1)|lung(6)	12				GBM - Glioblastoma multiforme(5;4.75e-197)|Lung(24;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		TCCCATTTGTGCCAGGAGTAT	0.507													G|||	24	0.00479233	0.0015	0.0	5008	,	,		19378	0.0179		0.004	False		,,,				2504	0.0															0													116	114	115					9																	21202040		2203	4300	6503	SO:0001583	missense	3444				CCDS34995.1	9p22	2010-12-10			ENSG00000214042	ENSG00000214042		"Interferons"	5428	protein-coding gene	gene with protein product		147567				1385305	Standard	NM_021057		Approved	IFNA-J, IFN-alphaJ	uc003zop.1	P01567	OTTHUMG00000019662	ENST00000239347.3:c.125C>G	9.37:g.21202040G>C	ENSP00000239347:p.Ala42Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q14607|Q5VV14	Missense_Mutation	SNP	ENST00000239347.3	37	CCDS34995.1	.	.	.	.	.	.	.	.	.	.	G	0.466	-0.886593	0.02511	.	.	ENSG00000214042	ENST00000239347	T	0.05139	3.49	3.56	-1.74	0.08056	Four-helical cytokine-like, core (1);Four-helical cytokine, core (1);	0.761996	0.12212	N	0.489217	T	0.02688	0.0081	N	0.11560	0.145	0.09310	N	1	B	0.02656	0.0	B	0.12837	0.008	T	0.48468	-0.9033	10	0.11182	T	0.66	.	6.4322	0.21803	0.0:0.1783:0.5382:0.2835	.	42	P01567	IFNA7_HUMAN	G	42	ENSP00000239347:A42G	ENSP00000239347:A42G	A	-	2	0	IFNA7	21192040	0.000000	0.05858	0.032000	0.17829	0.205000	0.24178	-1.756000	0.01813	-0.160000	0.11002	0.586000	0.80456	GCA		0.507	IFNA7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051891.1	NM_021057		C	21202040	G	C	21202040	3	2	639	1	0	0	0	0	1	0	0	0	7549	1319	46	4	448	4	IFNA7	9	21202040	Missense_Mutation	SNP	G	TCGA-KL-8340-01A-11D-2310-10		21202040	120011391	27	39463			1	86		2	2	34	N	G_C	5.756253e-05
IFNA7	3444	mdanderson.org	37	chr9	21202073	21202073	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	aggccctcctattacgcaggCtgtgggtctgaggcagatca	13	11	2	2	rs76903863	byFrequency	TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr9:21202073C>G	ENST00000239347.3	-	1	131	c.92G>C	c.(91-93)aGc>aCc	p.S31T		NM_021057.2	NP_066401.2	P01567	IFNA7_HUMAN	interferon, alpha 7	31					adaptive immune response (GO:0002250)|B cell differentiation (GO:0030183)|B cell proliferation (GO:0042100)|blood coagulation (GO:0007596)|cell-cell signaling (GO:0007267)|cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|humoral immune response (GO:0006959)|innate immune response (GO:0045087)|natural killer cell activation involved in immune response (GO:0002323)|positive regulation of peptidyl-serine phosphorylation of STAT protein (GO:0033141)|regulation of MHC class I biosynthetic process (GO:0045343)|regulation of type I interferon-mediated signaling pathway (GO:0060338)|response to exogenous dsRNA (GO:0043330)|response to virus (GO:0009615)|T cell activation involved in immune response (GO:0002286)|type I interferon signaling pathway (GO:0060337)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	cytokine activity (GO:0005125)|type I interferon receptor binding (GO:0005132)			endometrium(3)|kidney(1)|large_intestine(1)|liver(1)|lung(6)	12				GBM - Glioblastoma multiforme(5;4.75e-197)|Lung(24;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		ATTACGCAGGCTGTGGGTCTG	0.502																																																0													95	94	94					9																	21202073		2203	4300	6503	SO:0001583	missense	3444				CCDS34995.1	9p22	2010-12-10			ENSG00000214042	ENSG00000214042		"Interferons"	5428	protein-coding gene	gene with protein product		147567				1385305	Standard	NM_021057		Approved	IFNA-J, IFN-alphaJ	uc003zop.1	P01567	OTTHUMG00000019662	ENST00000239347.3:c.92G>C	9.37:g.21202073C>G	ENSP00000239347:p.Ser31Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q14607|Q5VV14	Missense_Mutation	SNP	ENST00000239347.3	37	CCDS34995.1	.	.	.	.	.	.	.	.	.	.	C	7.904	0.734952	0.15574	.	.	ENSG00000214042	ENST00000239347	T	0.03413	3.94	3.14	-0.052	0.13824	Four-helical cytokine-like, core (1);Four-helical cytokine, core (1);	0.925130	0.09173	N	0.838490	T	0.04952	0.0133	M	0.72576	2.205	0.09310	N	1	B	0.18968	0.032	B	0.23574	0.047	T	0.47032	-0.9148	10	0.21540	T	0.41	.	3.1528	0.06494	0.2119:0.5211:0.0:0.2669	.	31	P01567	IFNA7_HUMAN	T	31	ENSP00000239347:S31T	ENSP00000239347:S31T	S	-	2	0	IFNA7	21192073	0.000000	0.05858	0.002000	0.10522	0.001000	0.01503	-0.746000	0.04829	0.106000	0.17784	-0.302000	0.09304	AGC		0.502	IFNA7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051891.1	NM_021057		G	21202073	C	G	21202073	3	3	639	1	0	0	0	0	1	0	0	0	7549	797	28	4	481	4	IFNA7	9	21202073	Missense_Mutation	SNP	C	TCGA-KL-8340-01A-11D-2310-10	33	21202073	120011358	28	39464			1	86		2	2	34	N	G_C	5.756253e-05
TAF1L	138474	broad.mit.edu;mdanderson.org	37	chr9	32632258	32632258	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	tatcttcagctgagatgctgTctgtgtcagttgataagacc	10	8	4	3			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr9:32632258T>C	ENST00000242310.4	-	1	3409	c.3320A>G	c.(3319-3321)gAc>gGc	p.D1107G	RP11-555J4.4_ENST00000430787.1_RNA	NM_153809.2	NP_722516.1	Q8IZX4	TAF1L_HUMAN	TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 210kDa-like	1107					DNA-templated transcription, initiation (GO:0006352)|histone acetylation (GO:0016573)|male meiosis (GO:0007140)|positive regulation of transcription, DNA-templated (GO:0045893)|protein phosphorylation (GO:0006468)|regulation of transcription from RNA polymerase II promoter (GO:0006357)	transcription factor TFIID complex (GO:0005669)	DNA binding (GO:0003677)|histone acetyltransferase activity (GO:0004402)|lysine-acetylated histone binding (GO:0070577)|protein serine/threonine kinase activity (GO:0004674)|TBP-class protein binding (GO:0017025)			breast(6)|central_nervous_system(4)|endometrium(14)|kidney(11)|large_intestine(32)|liver(2)|lung(68)|ovary(2)|pancreas(2)|prostate(7)|skin(9)|stomach(1)|upper_aerodigestive_tract(1)	159			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		TGAGATGCTGTCTGTGTCAGT	0.438																																																0													190	161	171					9																	32632258		2203	4300	6503	SO:0001583	missense	138474			AF390562	CCDS35003.1	9p12	2007-07-27	2007-07-27		ENSG00000122728	ENSG00000122728			18056	protein-coding gene	gene with protein product		607798	"TAF1-like RNA polymerase II, TATA box binding protein (TBP)-associated factor, 210kDa"			12217962	Standard	NM_153809		Approved		uc003zrg.1	Q8IZX4	OTTHUMG00000019747	ENST00000242310.4:c.3320A>G	9.37:g.32632258T>C	ENSP00000418379:p.Asp1107Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VG57	Missense_Mutation	SNP	ENST00000242310.4	37	CCDS35003.1	.	.	.	.	.	.	.	.	.	.	T	15.08	2.728446	0.48833	.	.	ENSG00000122728	ENST00000242310	T	0.18502	2.21	0.479	0.479	0.16796	.	0.000000	0.85682	D	0.000000	T	0.07999	0.0200	N	0.19112	0.55	0.58432	D	0.999991	B	0.10296	0.003	B	0.10450	0.005	T	0.26780	-1.0093	10	0.17369	T	0.5	.	5.1959	0.15236	0.0:1.0E-4:0.0:0.9999	.	1107	Q8IZX4	TAF1L_HUMAN	G	1107	ENSP00000418379:D1107G	ENSP00000418379:D1107G	D	-	2	0	TAF1L	32622258	1.000000	0.71417	0.835000	0.33067	0.464000	0.32679	3.503000	0.53340	0.426000	0.26116	0.164000	0.16699	GAC		0.438	TAF1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052012.2			C	32632258	T	C	32632258	3	2	639	1	0	0	0	0	1	0	0	0	15535	1667	58	3	2164	3	TAF1L	9	32632258	Missense_Mutation	SNP	T	TCGA-KL-8340-01A-11D-2310-10	11430185	32632258	108581173	29	39465										
GDA	9615	broad.mit.edu	37	chr9	74828816	74828816	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	ttacagataaatttggacagCgggcatttgtgggcaaagtt	12	5	0	1			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr9:74828816C>T	ENST00000358399.3	+	5	580	c.487C>T	c.(487-489)Cgg>Tgg	p.R163W	GDA_ENST00000238018.4_Missense_Mutation_p.R163W|GDA_ENST00000477618.1_3'UTR|GDA_ENST00000376989.3_Missense_Mutation_p.R138W|GDA_ENST00000545168.1_Missense_Mutation_p.R89W|GDA_ENST00000376986.1_Missense_Mutation_p.R121W	NM_001242505.2|NM_001242506.2|NM_004293.4	NP_001229434.1|NP_001229435.1|NP_004284.1	Q9Y2T3	GUAD_HUMAN	guanine deaminase	163					guanine catabolic process (GO:0006147)|nervous system development (GO:0007399)|nucleobase-containing compound metabolic process (GO:0006139)|nucleobase-containing small molecule metabolic process (GO:0055086)|purine nucleobase metabolic process (GO:0006144)|purine nucleotide catabolic process (GO:0006195)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)	guanine deaminase activity (GO:0008892)|zinc ion binding (GO:0008270)			central_nervous_system(4)|endometrium(1)|kidney(1)|large_intestine(1)|lung(20)|ovary(2)|skin(2)|urinary_tract(1)	32		Myeloproliferative disorder(762;0.0122)		Lung(182;0.0583)		ATTTGGACAGCGGGCATTTGT	0.348																																																0													114	113	114					9																	74828816		2203	4300	6503	SO:0001583	missense	9615			AF095286	CCDS6641.1, CCDS56576.1, CCDS56577.1	9q21.13	2008-05-14			ENSG00000119125	ENSG00000119125			4212	protein-coding gene	gene with protein product		139260				10075721, 3966794	Standard	NM_001242507		Approved		uc004air.3	Q9Y2T3	OTTHUMG00000020005	ENST00000358399.3:c.487C>T	9.37:g.74828816C>T	ENSP00000351170:p.Arg163Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTY5|Q5SZC7|Q9H335|Q9ULG2	Missense_Mutation	SNP	ENST00000358399.3	37	CCDS6641.1	.	.	.	.	.	.	.	.	.	.	C	18.50	3.637359	0.67130	.	.	ENSG00000119125	ENST00000545168;ENST00000238018;ENST00000376989;ENST00000376986;ENST00000358399	D;D;D;D;D	0.92299	-3.01;-3.01;-3.01;-3.01;-3.01	5.64	3.72	0.42706	Amidohydrolase 1 (1);	0.000000	0.85682	D	0.000000	D	0.97269	0.9107	H	0.97023	3.925	0.54753	D	0.999982	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.97524	1.0075	10	0.87932	D	0	-9.3723	13.4568	0.61204	0.5727:0.4273:0.0:0.0	.	121;163;163	Q5SZC6;Q9Y2T3-3;Q9Y2T3	.;.;GUAD_HUMAN	W	89;163;138;121;163	ENSP00000437972:R89W;ENSP00000238018:R163W;ENSP00000366188:R138W;ENSP00000366185:R121W;ENSP00000351170:R163W	ENSP00000238018:R163W	R	+	1	2	GDA	74018636	0.998000	0.40836	1.000000	0.80357	0.989000	0.77384	0.318000	0.19504	0.671000	0.31185	0.591000	0.81541	CGG		0.348	GDA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052633.1			T	74828816	C	T	74828816	3	4	639	1	0	0	0	0	1	0	0	0	6313	759	27	1	505	1	GDA	9	74828816	Missense_Mutation	SNP	C	TCGA-KL-8340-01A-11D-2310-10	42196558	74828816	66384615	30	39466										
LOC645961	645961	broad.mit.edu	37	chr9	90747122	90747122	+	IGR	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	aaacttgactgtttgagccgCcaaggcctgagatgcctggg	13	10	0	3			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr9:90747122C>T								U6 (133872 upstream) : U3 (242061 downstream)																							GTTTGAGCCGCCAAGGCCTGA	0.557																																																0													64	63	63					9																	90747122		692	1591	2283	SO:0001628	intergenic_variant	645961																															9.37:g.90747122C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP		37																																																																																				0	0.557									T	90747122	C	T	90747122	1	4	639	0	1	0	0	0	0	0	0	0	8890	739	26	2		2	LOC645961	9	90747122	IGR	SNP	C	TCGA-KL-8340-01A-11D-2310-10	15918306	90747122	50466309	31	39467										
SPTAN1	6709	bcgsc.ca	37	chr9	131388829	131388829	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	ccttccgctcctccctcagcTctgcccaggctgacttcaac	6	20	3	1			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr9:131388829T>C	ENST00000372731.4	+	48	6534	c.6424T>C	c.(6424-6426)Tct>Cct	p.S2142P	SPTAN1_ENST00000358161.5_Missense_Mutation_p.S2147P|SPTAN1_ENST00000372739.3_Missense_Mutation_p.S2147P	NM_001195532.1|NM_003127.3	NP_001182461.1|NP_003118.2	Q13813	SPTN1_HUMAN	spectrin, alpha, non-erythrocytic 1	2142					actin filament capping (GO:0051693)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)	cuticular plate (GO:0032437)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|fascia adherens (GO:0005916)|intracellular membrane-bounded organelle (GO:0043231)|lateral plasma membrane (GO:0016328)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|spectrin (GO:0008091)|vesicle (GO:0031982)|Z disc (GO:0030018)	actin binding (GO:0003779)|calcium ion binding (GO:0005509)|structural constituent of cytoskeleton (GO:0005200)			NS(2)|breast(8)|cervix(2)|endometrium(6)|kidney(4)|large_intestine(21)|liver(1)|lung(25)|ovary(5)|pancreas(1)|prostate(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	87						CTCCCTCAGCTCTGCCCAGGC	0.597																																					NSCLC(120;833 1744 2558 35612 37579)											0													49	52	51					9																	131388829		2203	4300	6503	SO:0001583	missense	6709			M19725	CCDS6905.1, CCDS48036.1, CCDS75914.1	9q34.11	2013-01-10	2012-06-15		ENSG00000197694	ENSG00000197694		"EF-hand domain containing"	11273	protein-coding gene	gene with protein product	"alpha-fodrin"	182810				3336352	Standard	NM_003127		Approved		uc004bvm.4	Q13813	OTTHUMG00000020754	ENST00000372731.4:c.6424T>C	9.37:g.131388829T>C	ENSP00000361816:p.Ser2142Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q13186|Q15324|Q16606|Q59EF1|Q5VXV5|Q5VXV6|Q7Z6M5|Q9P0V0	Missense_Mutation	SNP	ENST00000372731.4	37	CCDS6905.1	.	.	.	.	.	.	.	.	.	.	T	22.3	4.268976	0.80469	.	.	ENSG00000197694	ENST00000358161;ENST00000372731;ENST00000372739;ENST00000372719;ENST00000372721	T;T;T	0.65549	-0.16;-0.16;-0.16	5.53	5.53	0.82687	.	0.000000	0.85682	D	0.000000	T	0.77532	0.4144	M	0.70595	2.14	0.80722	D	1	D;D;D	0.76494	0.999;0.981;0.99	D;D;D	0.68621	0.951;0.959;0.948	T	0.79876	-0.1618	10	0.62326	D	0.03	.	15.6721	0.77286	0.0:0.0:0.0:1.0	.	2122;2147;2142	Q13813-3;Q13813-2;Q13813	.;.;SPTA2_HUMAN	P	2147;2142;2147;2122;391	ENSP00000350882:S2147P;ENSP00000361816:S2142P;ENSP00000361824:S2147P	ENSP00000350882:S2147P	S	+	1	0	SPTAN1	130428650	1.000000	0.71417	0.999000	0.59377	0.994000	0.84299	7.698000	0.84413	2.099000	0.63709	0.460000	0.39030	TCT		0.597	SPTAN1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054472.1	NM_003127		C	131388829	T	C	131388829	3	2	639	1	0	0	0	0	1	0	0	0	15129	1551	54	3	6629	3	SPTAN1	9	131388829	Missense_Mutation	SNP	T	TCGA-KL-8340-01A-11D-2310-10	40641707	131388829	9824602	32	39468										
SURF4	6836	broad.mit.edu	37	chr9	136231848	136231848	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	cccgcaaacatgctcttcccTtcagaacgggattctgctag	8	14	3	1			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr9:136231848T>C	ENST00000371989.3	-	5	540	c.411A>G	c.(409-411)gaA>gaG	p.E137E	SURF4_ENST00000545297.1_Intron|SURF4_ENST00000485435.2_Silent_p.E137E|SURF4_ENST00000467910.1_5'UTR|SURF4_ENST00000371991.3_Silent_p.E137E	NM_001280788.1|NM_001280790.1|NM_001280791.1|NM_033161.2	NP_001267717.1|NP_001267719.1|NP_001267720.1|NP_149351.1	O15260	SURF4_HUMAN	surfeit 4	137					Golgi organization (GO:0007030)|positive regulation of organelle organization (GO:0010638)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)				kidney(1)|large_intestine(2)|lung(5)	8				OV - Ovarian serous cystadenocarcinoma(145;5.32e-07)|Epithelial(140;4.56e-06)|all cancers(34;4.25e-05)		TGCTCTTCCCTTCAGAACGGG	0.572																																																0													55	44	48					9																	136231848		2203	4300	6503	SO:0001819	synonymous_variant	6836				CCDS6968.1, CCDS65177.1, CCDS65178.1, CCDS75929.1	9q33-q34	2008-07-21			ENSG00000148248	ENSG00000148248			11476	protein-coding gene	gene with protein product	"surfeit locus protein 4", "surface 4 integral membrane protein"	185660				8499913, 7540914	Standard	NM_033161		Approved	ERV29, FLJ22993, MGC102753	uc004cdj.3	O15260	OTTHUMG00000020868	ENST00000371989.3:c.411A>G	9.37:g.136231848T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6A4|O60923|Q5T8U6|Q9UNZ0|Q9UNZ1	Silent	SNP	ENST00000371989.3	37	CCDS6968.1																																																																																				0.572	SURF4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054886.1	NM_033161		C	136231848	T	C	136231848	2	2	639	1	0	0	0	0	0	0	0	1	15417	1606	56	3		3	SURF4	9	136231848	Silent	SNP	T	TCGA-KL-8340-01A-11D-2310-10	4843019	136231848	4981583	33	39469										
ARL5B	221079	broad.mit.edu	37	chr10	18957460	18957460	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	ggtgtctgtttttcaacagcTtaatgaatgaagtggttcat	10	5	3	2			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr10:18957460T>C	ENST00000377275.3	+	3	342	c.109T>C	c.(109-111)Tta>Cta	p.L37L		NM_178815.3	NP_848930.1	Q96KC2	ARL5B_HUMAN	ADP-ribosylation factor-like 5B	37					small GTPase mediated signal transduction (GO:0007264)	intracellular (GO:0005622)	GTP binding (GO:0005525)			lung(1)|ovary(1)	2						TTTCAACAGCTTAATGAATGA	0.353																																																0													94	90	91					10																	18957460		2203	4300	6503	SO:0001630	splice_region_variant	221079			AF494061	CCDS7131.1	10p13	2014-05-09	2005-11-03	2005-11-03	ENSG00000165997	ENSG00000165997		"ADP-ribosylation factors-like", "ADP-ribosylation factors"	23052	protein-coding gene	gene with protein product		608909	"ADP-ribosylation factor-like 8"	ARL8		12853149	Standard	XM_005252400		Approved		uc001iqd.1	Q96KC2	OTTHUMG00000017765	ENST00000377275.3:c.108-1T>C	10.37:g.18957460T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000377275.3	37	CCDS7131.1																																																																																				0.353	ARL5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047078.1	NM_178815	Silent	C	18957460	T	C	18957460	5	2	639	1	0	0	0	0	0	0	1	0	940	1623	56	3	119	3	ARL5B	10	18957460	Splice_Site	SNP	T	TCGA-KL-8340-01A-11D-2310-10		18957460	116577287	34	39470										
MASTL	84930	broad.mit.edu;bcgsc.ca	37	chr10	27447559	27447559	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	atgcactggcactaagcaaaAgcccattcattgtccatttg	7	11	1	0			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr10:27447559A>G	ENST00000375940.4	+	2	325	c.268A>G	c.(268-270)Agc>Ggc	p.S90G	MASTL_ENST00000342386.6_Missense_Mutation_p.S90G|MASTL_ENST00000375946.4_Missense_Mutation_p.S90G			Q96GX5	GWL_HUMAN	microtubule associated serine/threonine kinase-like	90	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cellular response to DNA damage stimulus (GO:0006974)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of protein phosphatase type 2A activity (GO:0034048)|regulation of cell cycle (GO:0051726)	centrosome (GO:0005813)|cleavage furrow (GO:0032154)|cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|kinase activity (GO:0016301)|protein phosphatase 2A binding (GO:0051721)|protein serine/threonine kinase activity (GO:0004674)			breast(3)|cervix(2)|endometrium(2)|large_intestine(7)|lung(9)|ovary(1)|pancreas(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29						ACTAAGCAAAAGCCCATTCAT	0.338																																																0													176	171	173					10																	27447559		2203	4300	6503	SO:0001583	missense	84930			BC009107	CCDS7153.1, CCDS53502.1, CCDS53503.1	10p12.1	2005-11-03			ENSG00000120539	ENSG00000120539			19042	protein-coding gene	gene with protein product		608221					Standard	NM_001172303		Approved	FLJ14813, THC2	uc001itm.3	Q96GX5	OTTHUMG00000017855	ENST00000375940.4:c.268A>G	10.37:g.27447559A>G	ENSP00000365107:p.Ser90Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T8D5|Q5T8D7|Q8NCD6|Q96SJ5	Missense_Mutation	SNP	ENST00000375940.4	37	CCDS53502.1	.	.	.	.	.	.	.	.	.	.	A	26.4	4.738018	0.89573	.	.	ENSG00000120539	ENST00000375946;ENST00000342386;ENST00000375940	T;T;T	0.66280	-0.2;-0.2;-0.2	5.48	5.48	0.80851	Serine/threonine-protein kinase-like domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.74397	0.3711	L	0.51853	1.615	0.80722	D	1	P;D;D	0.76494	0.84;0.996;0.999	P;D;D	0.81914	0.607;0.975;0.995	T	0.76046	-0.3102	10	0.56958	D	0.05	-19.8091	15.5726	0.76352	1.0:0.0:0.0:0.0	.	90;90;90	Q96GX5-2;Q96GX5;Q96GX5-3	.;GWL_HUMAN;.	G	90	ENSP00000365113:S90G;ENSP00000343446:S90G;ENSP00000365107:S90G	ENSP00000343446:S90G	S	+	1	0	MASTL	27487565	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	8.524000	0.90579	2.080000	0.62538	0.455000	0.32223	AGC		0.338	MASTL-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000047320.1	NM_032844		G	27447559	A	G	27447559	3	3	639	1	0	0	0	0	1	0	0	0	9335	72	3	3	274	3	MASTL	10	27447559	Missense_Mutation	SNP	A	TCGA-KL-8340-01A-11D-2310-10	8490099	27447559	108087188	35	39471										
NRAP	3026	broad.mit.edu;bcgsc.ca	37	chr10	115348753	115348753	+	3'UTR	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	ctcacaacagcagggccttcTtctttttgacgtgcagaatc	8	12	3	2			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr10:115348753T>C	ENST00000351270.3	+	0	2404				NRAP_ENST00000359988.3_Missense_Mutation_p.K1725R|HABP2_ENST00000542051.1_3'UTR|NRAP_ENST00000360478.3_Missense_Mutation_p.K1690R|NRAP_ENST00000369360.3_Missense_Mutation_p.K1698R|NRAP_ENST00000369358.4_Missense_Mutation_p.K1733R	NM_004132.3	NP_004123.1	Q14520	HABP2_HUMAN	hyaluronan binding protein 2						cell adhesion (GO:0007155)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	glycosaminoglycan binding (GO:0005539)|serine-type endopeptidase activity (GO:0004252)			breast(2)|endometrium(1)|kidney(1)|large_intestine(5)|lung(8)|ovary(2)|skin(2)|upper_aerodigestive_tract(2)	23		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)	Hyaluronan(DB08818)	CAGGGCCTTCTTCTTTTTGAC	0.537																																																0													173	161	165					10																	115348753		2203	4300	6503	SO:0001624	3_prime_UTR_variant	4892				CCDS7577.1, CCDS53579.1	10q25.3	2008-08-01	2001-11-28		ENSG00000148702	ENSG00000148702			4798	protein-coding gene	gene with protein product	"plasma hyaluronan binding protein", "factor VII activating protein"	603924	"hyaluronan-binding protein 2"			8827452, 12437095	Standard	NM_004132		Approved	HABP, PHBP, HGFAL, FSAP	uc001lai.4	Q14520	OTTHUMG00000019073	ENST00000351270.3:c.*625T>C	10.37:g.115348753T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K467|B7Z8U5|F5H5M6|O00663	Missense_Mutation	SNP	ENST00000351270.3	37	CCDS7577.1	.	.	.	.	.	.	.	.	.	.	T	7.613	0.675114	0.14841	.	.	ENSG00000197893	ENST00000369358;ENST00000369360;ENST00000359988;ENST00000360478;ENST00000369350	T;T;T;T	0.18657	2.41;2.41;2.29;2.2	5.66	3.37	0.38596	.	0.208119	0.51477	N	0.000088	T	0.11793	0.0287	L	0.31926	0.97	0.29282	N	0.869937	B;B;B;B	0.11235	0.001;0.002;0.004;0.002	B;B;B;B	0.13407	0.004;0.004;0.009;0.004	T	0.28490	-1.0042	10	0.07325	T	0.83	.	5.8094	0.18457	0.0:0.5019:0.0:0.4981	.	847;1726;1690;1725	B1ANW7;A0AVL2;Q86VF7-4;Q86VF7	.;.;.;NRAP_HUMAN	R	1733;1698;1725;1690;847	ENSP00000358365:K1733R;ENSP00000358367:K1698R;ENSP00000353078:K1725R;ENSP00000353666:K1690R	ENSP00000353078:K1725R	K	-	2	0	NRAP	115338743	1.000000	0.71417	1.000000	0.80357	0.281000	0.26958	1.622000	0.36997	1.186000	0.42985	0.454000	0.30748	AAG		0.537	HABP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050428.1	NM_004132		C	115348753	T	C	115348753	1	2	639	0	1	0	0	0	0	0	0	0	10645	1609	56	3		3	NRAP	10	115348753	3'UTR	SNP	T	TCGA-KL-8340-01A-11D-2310-10	87901194	115348753	20185994	36	39472										
PANX1	24145	broad.mit.edu	37	chr11	93913343	93913343	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	gacaaaccttggcatgatcaAgatggatgttgttgatggca	12	6	1	3			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr11:93913343A>G	ENST00000227638.3	+	4	1506	c.1121A>G	c.(1120-1122)aAg>aGg	p.K374R	PANX1_ENST00000436171.2_Missense_Mutation_p.K374R	NM_015368.3	NP_056183.2	Q96RD7	PANX1_HUMAN	pannexin 1	374					calcium ion transport (GO:0006816)|cation transport (GO:0006812)|innate immune response (GO:0045087)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|positive regulation of interleukin-1 alpha secretion (GO:0050717)|positive regulation of interleukin-1 beta secretion (GO:0050718)|protein hexamerization (GO:0034214)|response to ATP (GO:0033198)|response to ischemia (GO:0002931)|synaptic transmission (GO:0007268)	bleb (GO:0032059)|endoplasmic reticulum (GO:0005783)|gap junction (GO:0005921)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	calcium channel activity (GO:0005262)|gap junction hemi-channel activity (GO:0055077)|leak channel activity (GO:0022840)|receptor binding (GO:0005102)			endometrium(2)|large_intestine(2)|lung(13)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	20		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Probenecid(DB01032)	GGCATGATCAAGATGGATGTT	0.493																																																0													87	80	82					11																	93913343		2201	4298	6499	SO:0001583	missense	24145			AF093239	CCDS8296.1	11q14-q21	2011-12-02			ENSG00000110218	ENSG00000110218		"Ion channels / Pannexins"	8599	protein-coding gene	gene with protein product	"innexin"	608420				14597722	Standard	NM_015368		Approved	MRS1, UNQ2529, PX1	uc001per.3	Q96RD7	OTTHUMG00000167757	ENST00000227638.3:c.1121A>G	11.37:g.93913343A>G	ENSP00000227638:p.Lys374Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O75968|Q543A0|Q6UW26|Q96AM9|Q96L77|Q96RS5	Missense_Mutation	SNP	ENST00000227638.3	37	CCDS8296.1	.	.	.	.	.	.	.	.	.	.	A	19.19	3.779361	0.70107	.	.	ENSG00000110218	ENST00000227638;ENST00000436171	T;T	0.22945	1.93;1.93	5.31	4.19	0.49359	.	0.042144	0.85682	N	0.000000	T	0.49406	0.1555	M	0.79475	2.455	0.50313	D	0.999864	D;D	0.71674	0.997;0.998	D;D	0.80764	0.985;0.994	T	0.50709	-0.8796	10	0.72032	D	0.01	-23.8538	10.6165	0.45454	0.9243:0.0:0.0757:0.0	.	374;374	Q96RD7;Q96RD7-2	PANX1_HUMAN;.	R	374	ENSP00000227638:K374R;ENSP00000411461:K374R	ENSP00000227638:K374R	K	+	2	0	PANX1	93552991	1.000000	0.71417	1.000000	0.80357	0.691000	0.40173	4.371000	0.59523	0.874000	0.35823	0.533000	0.62120	AAG		0.493	PANX1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000396121.1	NM_015368		G	93913343	A	G	93913343	3	3	639	1	0	0	0	0	1	0	0	0	11427	72	3	3	1135	3	PANX1	11	93913343	Missense_Mutation	SNP	A	TCGA-KL-8340-01A-11D-2310-10		93913343	41093173	37	39473										
OR10G7	390265	broad.mit.edu;mdanderson.org	37	chr11	123909471	123909471	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	tggggacaccaaggtcatcaGcattttgggcaccgtgacag	13	10	2	1			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr11:123909471G>T	ENST00000330487.5	-	1	246	c.238C>A	c.(238-240)Ctg>Atg	p.L80M		NM_001004463.1	NP_001004463.1	Q8NGN6	O10G7_HUMAN	olfactory receptor, family 10, subfamily G, member 7	80						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(7)|large_intestine(6)|lung(20)|ovary(2)|prostate(2)|stomach(3)|urinary_tract(1)	47		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)		AAGGTCATCAGCATTTTGGGC	0.537																																																0													139	150	146					11																	123909471		2200	4299	6499	SO:0001583	missense	390265			AB065754	CCDS31705.1	11q24.1	2012-08-09			ENSG00000182634	ENSG00000182634		"GPCR / Class A : Olfactory receptors"	14842	protein-coding gene	gene with protein product							Standard	NM_001004463		Approved		uc001pzq.1	Q8NGN6	OTTHUMG00000165969	ENST00000330487.5:c.238C>A	11.37:g.123909471G>T	ENSP00000329689:p.Leu80Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFE8	Missense_Mutation	SNP	ENST00000330487.5	37	CCDS31705.1	.	.	.	.	.	.	.	.	.	.	G	9.902	1.207174	0.22205	.	.	ENSG00000182634	ENST00000330487	T	0.00441	7.41	3.39	0.353	0.16058	GPCR, rhodopsin-like superfamily (1);	0.188630	0.25810	N	0.028158	T	0.00666	0.0022	M	0.62016	1.91	0.27375	N	0.955584	D	0.89917	1.0	D	0.91635	0.999	T	0.52124	-0.8617	10	0.39692	T	0.17	.	3.5934	0.07997	0.3043:0.0:0.5206:0.1751	.	80	Q8NGN6	O10G7_HUMAN	M	80	ENSP00000329689:L80M	ENSP00000329689:L80M	L	-	1	2	OR10G7	123414681	0.311000	0.24536	0.998000	0.56505	0.726000	0.41606	-0.127000	0.10547	-0.026000	0.13895	-0.463000	0.05309	CTG		0.537	OR10G7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387271.1	NM_001004463		T	123909471	G	T	123909471	3	4	639	1	0	0	0	0	1	0	0	0	10909	962	34	4	701	4	OR10G7	11	123909471	Missense_Mutation	SNP	G	TCGA-KL-8340-01A-11D-2310-10	29996128	123909471	11097045	38	39474										
DCP1B	196513	broad.mit.edu	37	chr12	2113565	2113566	+	Frame_Shift_Ins	INS	-	-	C													0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	ggctgatgtcgcgcccctttINScccaccaggccgcctgccgc							TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr12:2113565_2113566insC	ENST00000280665.6	-	1	111_112	c.32_33insG	c.(31-33)ggafs	p.G11fs	DCP1B_ENST00000541700.1_5'UTR|RP5-1096D14.6_ENST00000354425.4_RNA|DCP1B_ENST00000397173.4_5'UTR	NM_152640.3	NP_689853.3	Q8IZD4	DCP1B_HUMAN	decapping mRNA 1B	11					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay (GO:0043928)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA metabolic process (GO:0016070)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)	hydrolase activity (GO:0016787)			NS(1)|breast(1)|endometrium(6)|kidney(2)|large_intestine(3)|lung(10)|skin(1)	24			OV - Ovarian serous cystadenocarcinoma(31;0.00193)			CGCGCCCCTTTCCCACCAGGCC	0.649																																																0																																										SO:0001589	frameshift_variant	196513			AY146652	CCDS31727.1	12p13.33	2013-05-02	2013-05-02		ENSG00000151065	ENSG00000151065			24451	protein-coding gene	gene with protein product		609843	"DCP1 decapping enzyme homolog B (S. cerevisiae)"			12417715, 15067023	Standard	NM_152640		Approved	FLJ31638	uc001qjx.1	Q8IZD4	OTTHUMG00000168113	ENST00000280665.6:c.33dupG	12.37:g.2113568_2113568dupC	ENSP00000280665:p.Gly11fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRD1|Q86XH9|Q96BP8|Q96MZ8	Frame_Shift_Ins	INS	ENST00000280665.6	37	CCDS31727.1																																																																																				0.649	DCP1B-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398244.1	NM_152640		C	2113566	-	C	2113565	7	5	639	1	0	1	1	0	0	0	0	0	4301	1770	62	0	1856	0	DCP1B	12	2113565	Frame_Shift_Ins	INS	-	TCGA-KL-8340-01A-11D-2310-10		2113565	131738330	39	39475										
ZNF384	171017	hgsc.bcm.edu	37	chr12	6777081	6777081	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	ggtggctgttgctgctgctgCtgctgctgctgctgctgctg	16	11	0	0			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr12:6777081C>T	ENST00000396801.3	-	11	1740	c.1533G>A	c.(1531-1533)caG>caA	p.Q511Q	ZNF384_ENST00000396795.1_Silent_p.Q450Q|ZNF384_ENST00000361959.3_Silent_p.Q511Q|RP4-761J14.8_ENST00000586338.1_RNA|ZNF384_ENST00000319770.3_Silent_p.Q434Q|ZNF384_ENST00000355772.4_Silent_p.Q395Q|RP4-761J14.8_ENST00000589924.1_RNA|ZNF384_ENST00000396799.2_Silent_p.Q450Q	NM_001135734.2	NP_001129206.1	Q8TF68	ZN384_HUMAN	zinc finger protein 384	511	Gln-rich.				nucleocytoplasmic transport (GO:0006913)|positive regulation of protein secretion (GO:0050714)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	focal adhesion (GO:0005925)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)		EWSR1/ZNF384(4)	breast(3)|central_nervous_system(3)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(6)|prostate(1)|urinary_tract(1)	18						gctgctgctgctgctgctgct	0.667			T	"EWSR1, TAF15 "	ALL																																		Dom	yes		12	12p13	171017	zinc finger protein 384 (CIZ/NMP4)		L	0													15	19	18					12																	6777081		2200	4287	6487	SO:0001819	synonymous_variant	171017			U80738	CCDS8557.1, CCDS31732.1, CCDS44817.1	12p12	2013-01-08	2002-05-23	2002-05-24		ENSG00000126746		"Zinc fingers, C2H2-type"	11955	protein-coding gene	gene with protein product		609951	"trinucleotide repeat containing 1"	TNRC1		9225980, 11149472	Standard	NM_001135734		Approved	CAGH1A, CIZ, NMP4, NP	uc010sfh.2	Q8TF68		ENST00000396801.3:c.1533G>A	12.37:g.6777081C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O15407|Q7Z722|Q8N938	Silent	SNP	ENST00000396801.3	37	CCDS44817.1																																																																																				0.667	ZNF384-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400712.1			T	6777081	C	T	6777081	2	4	639	1	0	0	0	0	0	0	0	1	17887	796	28	2		2	ZNF384	12	6777081	Silent	SNP	C	TCGA-KL-8340-01A-11D-2310-10	4663516	6777081	127074814	40	39476			2	87		2	2	22	N	C	3.663108e-05
ZNF384	171017	broad.mit.edu	37	chr12	6777102	6777102	+	Frame_Shift_Del	DEL	C	C	-													0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	tgctgctgctgctgctgctgCtgctgctgctgtgatgcctg							TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr12:6777102delC	ENST00000396801.3	-	11	1719	c.1512delG	c.(1510-1512)cagfs	p.Q516fs	ZNF384_ENST00000396795.1_Frame_Shift_Del_p.Q455fs|ZNF384_ENST00000361959.3_Frame_Shift_Del_p.Q516fs|RP4-761J14.8_ENST00000586338.1_RNA|ZNF384_ENST00000319770.3_Frame_Shift_Del_p.Q439fs|ZNF384_ENST00000355772.4_Frame_Shift_Del_p.Q400fs|RP4-761J14.8_ENST00000589924.1_RNA|ZNF384_ENST00000396799.2_Frame_Shift_Del_p.Q455fs	NM_001135734.2	NP_001129206.1	Q8TF68	ZN384_HUMAN	zinc finger protein 384	516	Gln-rich.				nucleocytoplasmic transport (GO:0006913)|positive regulation of protein secretion (GO:0050714)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	focal adhesion (GO:0005925)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)		EWSR1/ZNF384(4)	breast(3)|central_nervous_system(3)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(6)|prostate(1)|urinary_tract(1)	18						gctgctgctgctgctgctgct	0.682			T	"EWSR1, TAF15 "	ALL																																		Dom	yes		12	12p13	171017	zinc finger protein 384 (CIZ/NMP4)		L	0													13	16	15					12																	6777102		2189	4276	6465	SO:0001589	frameshift_variant	171017			U80738	CCDS8557.1, CCDS31732.1, CCDS44817.1	12p12	2013-01-08	2002-05-23	2002-05-24		ENSG00000126746		"Zinc fingers, C2H2-type"	11955	protein-coding gene	gene with protein product		609951	"trinucleotide repeat containing 1"	TNRC1		9225980, 11149472	Standard	NM_001135734		Approved	CAGH1A, CIZ, NMP4, NP	uc010sfh.2	Q8TF68		ENST00000396801.3:c.1512delG	12.37:g.6777102delC	ENSP00000380019:p.Gln516fs	Somatic		WXS	Illumina HiSeq	Phase_I	O15407|Q7Z722|Q8N938	Frame_Shift_Del	DEL	ENST00000396801.3	37	CCDS44817.1																																																																																				0.682	ZNF384-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400712.1			-	6777102	C	-	6777102	7	5	639	1	0	1	0	1	0	0	0	0	17887	796	28	0	225	0	ZNF384	12	6777102	Frame_Shift_Del	DEL	C	TCGA-KL-8340-01A-11D-2310-10	21	6777102	127074793	41	39477			2	87		2	2	22	N	C	3.663108e-05
CCNT1	904	broad.mit.edu;bcgsc.ca	37	chr12	49087549	49087549	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	ctgcagcatggacttttatgCgcatttttatctcctctggt	8	10	2	0			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr12:49087549C>T	ENST00000261900.3	-	9	1670	c.1448G>A	c.(1447-1449)cGc>cAc	p.R483H		NM_001240.3	NP_001231.2	O60563	CCNT1_HUMAN	cyclin T1	483					cell cycle (GO:0007049)|cell division (GO:0051301)|gene expression (GO:0010467)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of viral transcription (GO:0050434)|protein phosphorylation (GO:0006468)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|positive transcription elongation factor complex b (GO:0008024)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|snRNA binding (GO:0017069)|transcription regulatory region DNA binding (GO:0044212)			breast(3)|endometrium(1)|kidney(1)|large_intestine(4)|lung(13)|ovary(3)|skin(2)	27						GACTTTTATGCGCATTTTTAT	0.438																																																0													131	128	129					12																	49087549		2203	4300	6503	SO:0001583	missense	904			AF048730	CCDS8766.1, CCDS61109.1	12q13.11	2010-11-15			ENSG00000129315	ENSG00000129315			1599	protein-coding gene	gene with protein product		143055	"human immunodeficiency virus type 1 (HIV-1) expression (elevated) 1"	HIVE1		9491887, 9499409	Standard	NM_001240		Approved	CCNT, CYCT1	uc001rsd.4	O60563	OTTHUMG00000170393	ENST00000261900.3:c.1448G>A	12.37:g.49087549C>T	ENSP00000261900:p.Arg483His	Somatic		WXS	Illumina HiSeq	Phase_I	A9XU13|E7EX76|O60581	Missense_Mutation	SNP	ENST00000261900.3	37	CCDS8766.1	.	.	.	.	.	.	.	.	.	.	C	17.52	3.411101	0.62399	.	.	ENSG00000129315	ENST00000261900	T	0.22945	1.93	4.89	3.03	0.35002	.	0.105878	0.64402	D	0.000006	T	0.30324	0.0761	L	0.38175	1.15	0.42590	D	0.993247	D	0.69078	0.997	P	0.55161	0.77	T	0.03202	-1.1061	10	0.66056	D	0.02	-3.9863	9.6691	0.40002	0.0:0.7779:0.1419:0.0802	.	483	O60563	CCNT1_HUMAN	H	483	ENSP00000261900:R483H	ENSP00000261900:R483H	R	-	2	0	CCNT1	47373816	0.820000	0.29190	0.989000	0.46669	0.985000	0.73830	1.584000	0.36589	0.558000	0.29135	0.561000	0.74099	CGC		0.438	CCNT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408853.1	NM_001240		T	49087549	C	T	49087549	3	4	639	1	0	0	0	0	1	0	0	0	2936	768	27	1	736	1	CCNT1	12	49087549	Missense_Mutation	SNP	C	TCGA-KL-8340-01A-11D-2310-10	42310447	49087549	84764346	42	39478										
DDX54	79039	ucsc.edu	37	chr12	113623117	113623117	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	cgtcatcttccgcctggatcTcaaactcgccgtcctccgag	8	17	3	0			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr12:113623117T>C	ENST00000306014.5	-	1	167	c.140A>G	c.(139-141)gAg>gGg	p.E47G	DDX54_ENST00000314045.7_Missense_Mutation_p.E47G|C12orf52_ENST00000548278.1_5'Flank|RP11-545P7.4_ENST00000552525.1_RNA|C12orf52_ENST00000552495.1_5'Flank|C12orf52_ENST00000549621.1_5'Flank	NM_024072.3	NP_076977.3	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	47					ATP catabolic process (GO:0006200)|intracellular estrogen receptor signaling pathway (GO:0030520)|regulation of transcription, DNA-templated (GO:0006355)|RNA metabolic process (GO:0016070)|RNA processing (GO:0006396)|transcription, DNA-templated (GO:0006351)	membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent RNA helicase activity (GO:0004004)|estrogen receptor binding (GO:0030331)|poly(A) RNA binding (GO:0044822)|receptor binding (GO:0005102)|transcription corepressor activity (GO:0003714)			breast(1)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(8)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	31						CGCCTGGATCTCAAACTCGCC	0.726																																																0													10	12	11					12																	113623117		2187	4275	6462	SO:0001583	missense	79039			AF144056	CCDS31907.1, CCDS44984.1	12q24.11	2006-01-30				ENSG00000123064		"DEAD-boxes"	20084	protein-coding gene	gene with protein product		611665				12466272	Standard	NM_001111322		Approved	MGC2835, APR-5, DP97	uc001tuq.4	Q8TDD1	OTTHUMG00000169676	ENST00000306014.5:c.140A>G	12.37:g.113623117T>C	ENSP00000304072:p.Glu47Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q86YT8|Q9BRZ1	Missense_Mutation	SNP	ENST00000306014.5	37	CCDS31907.1	.	.	.	.	.	.	.	.	.	.	T	18.59	3.657116	0.67586	.	.	ENSG00000123064	ENST00000314045;ENST00000306014	T;T	0.10668	2.85;2.86	4.29	4.29	0.51040	.	0.241494	0.33127	N	0.005258	T	0.19725	0.0474	L	0.43152	1.355	0.42114	D	0.991397	D;D	0.69078	0.997;0.976	D;P	0.63283	0.913;0.703	T	0.00945	-1.1505	10	0.38643	T	0.18	.	10.0122	0.41992	0.0:0.0:0.0:1.0	.	47;47	Q8TDD1-2;Q8TDD1	.;DDX54_HUMAN	G	47	ENSP00000323858:E47G;ENSP00000304072:E47G	ENSP00000304072:E47G	E	-	2	0	DDX54	112107500	1.000000	0.71417	0.998000	0.56505	0.210000	0.24377	2.564000	0.45931	1.936000	0.56123	0.379000	0.24179	GAG		0.726	DDX54-002	KNOWN	NAGNAG_splice_site|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000405435.1	NM_024072		C	113623117	T	C	113623117	3	2	639	1	0	0	0	0	1	0	0	0	4374	1551	54	3	2588	3	DDX54	12	113623117	Missense_Mutation	SNP	T	TCGA-KL-8340-01A-11D-2310-10	64535568	113623117	20228778	43	39479										
UBC	7316	broad.mit.edu	37	chr12	125396280	125396280	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	ttagacaccccccctcaagcGcaggaccaagtgcagagtgg	11	14	1	2			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr12:125396280G>A	ENST00000538617.1	-	4	1214	c.898C>T	c.(898-900)Cgc>Tgc	p.R300C	UBC_ENST00000339647.5_Missense_Mutation_p.R680C|UBC_ENST00000536769.1_Missense_Mutation_p.R680C|UBC_ENST00000546120.1_Missense_Mutation_p.R604C|UBC_ENST00000536661.1_5'Flank			P0CG48	UBC_HUMAN	ubiquitin C	680	Ubiquitin-like 4. {ECO:0000255|PROSITE- ProRule:PRU00214}.				activation of MAPK activity (GO:0000187)|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|carbohydrate metabolic process (GO:0005975)|cellular response to hypoxia (GO:0071456)|cytokine-mediated signaling pathway (GO:0019221)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA repair (GO:0006281)|endosomal transport (GO:0016197)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|G1/S transition of mitotic cell cycle (GO:0000082)|G2/M transition of mitotic cell cycle (GO:0000086)|gene expression (GO:0010467)|glucose metabolic process (GO:0006006)|glycogen biosynthetic process (GO:0005978)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|innate immune response (GO:0045087)|intracellular transport of virus (GO:0075733)|ion transmembrane transport (GO:0034220)|JNK cascade (GO:0007254)|membrane organization (GO:0061024)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic process (GO:0043066)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|negative regulation of type I interferon production (GO:0032480)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch receptor processing (GO:0007220)|Notch signaling pathway (GO:0007219)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of apoptotic process (GO:0043065)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of type I interferon production (GO:0032481)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of type I interferon production (GO:0032479)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|stress-activated MAPK cascade (GO:0051403)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|transmembrane transport (GO:0055085)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral protein processing (GO:0019082)|virion assembly (GO:0019068)	cytosol (GO:0005829)|endocytic vesicle membrane (GO:0030666)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|plasma membrane (GO:0005886)	poly(A) RNA binding (GO:0044822)|protease binding (GO:0002020)			breast(3)|endometrium(4)|kidney(4)|large_intestine(2)|lung(13)|ovary(3)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	36	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.17e-05)|Epithelial(86;0.000207)|all cancers(50;0.00308)		CCCCTCAAGCGCAGGACCAAG	0.448																																																0													84	82	83					12																	125396280		2203	4300	6503	SO:0001583	missense	7316				CCDS9260.1	12q24.3	2008-09-08			ENSG00000150991	ENSG00000150991			12468	protein-coding gene	gene with protein product	"polyubiquitin-C"	191340				1315303, 11872750	Standard	NM_021009		Approved		uc001ugs.4	P0CG48		ENST00000538617.1:c.898C>T	12.37:g.125396280G>A	ENSP00000443053:p.Arg300Cys	Somatic		WXS	Illumina HiSeq	Phase_I	P02248|P02249|P02250|P62988|Q29120|Q6LBL4|Q6LDU5|Q8WYN8|Q91887|Q91888|Q9BWD6|Q9BX98|Q9UEF2|Q9UEG1|Q9UEK8|Q9UPK7	Missense_Mutation	SNP	ENST00000538617.1	37		.	.	.	.	.	.	.	.	.	.	G	18.57	3.652125	0.67472	.	.	ENSG00000150991	ENST00000536769;ENST00000535460;ENST00000538617;ENST00000541046;ENST00000339647;ENST00000546120;ENST00000544656	T;T;T;T	0.77229	-1.08;-1.08;-1.08;-1.08	5.28	4.39	0.52855	Ubiquitin supergroup (1);Ubiquitin (2);	.	.	.	.	D	0.88713	0.6511	M	0.87381	2.88	0.80722	D	1	D;P;D	0.89917	0.996;0.667;1.0	D;B;D	0.81914	0.975;0.009;0.995	D	0.90359	0.4372	9	0.87932	D	0	.	13.4266	0.61028	0.0753:0.0:0.9247:0.0	.	693;528;680	Q66K58;F5H7K6;P0CG48	.;.;UBC_HUMAN	C	680;528;300;604;680;604;148	ENSP00000441543:R680C;ENSP00000443053:R300C;ENSP00000344818:R680C;ENSP00000438394:R604C	ENSP00000344818:R680C	R	-	1	0	UBC	123962233	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	6.069000	0.71209	1.227000	0.43598	0.462000	0.41574	CGC		0.448	UBC-003	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000400179.1	NM_021009		A	125396280	G	A	125396280	3	1	639	1	0	0	0	0	1	0	0	0	16854	1087	38	1	23	1	UBC	12	125396280	Missense_Mutation	SNP	G	TCGA-KL-8340-01A-11D-2310-10	11773163	125396280	8455615	44	39480										
TTC9	23508	mdanderson.org	37	chr14	71109153	71109153	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	aacgggagcgggactcgcgcCcggcctccccggctggggcc	17	17	0	0	rs4902834	byFrequency	TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr14:71109153C>G	ENST00000256367.2	+	1	650	c.307C>G	c.(307-309)Ccg>Gcg	p.P103A	CTD-2540L5.5_ENST00000553982.1_lincRNA|CTD-2540L5.6_ENST00000500016.1_lincRNA	NM_015351.1	NP_056166.1	Q92623	TTC9A_HUMAN	tetratricopeptide repeat domain 9	103			P -> A (in dbSNP:rs4902834). {ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:9039502}.							skin(1)	1				all cancers(60;0.00545)|BRCA - Breast invasive adenocarcinoma(234;0.00747)|OV - Ovarian serous cystadenocarcinoma(108;0.0538)		GGACTCGCGCCCGGCCTCCCC	0.672													G|||	4215	0.841653	0.9047	0.8991	5008	,	,		8571	0.8442		0.8042	False		,,,				2504	0.7515															0								G	ALA/PRO	3149,341		1419,311,15	6	8	7		307	-7.2	0.1	14	dbSNP_111	7	6647,1125		2853,941,92	no	missense	TTC9	NM_015351.1	27	4272,1252,107	GG,GC,CC		14.475,9.7708,13.0172	benign	103/223	71109153	9796,1466	1745	3886	5631	SO:0001583	missense	23508			D86980	CCDS45132.1	14q24.2	2014-08-12			ENSG00000133985			"Tetratricopeptide (TTC) repeat domain containing"	20267	protein-coding gene	gene with protein product		610488					Standard	NM_015351		Approved	KIAA0227, TTC9A	uc001xmi.2	Q92623	OTTHUMG00000172133	ENST00000256367.2:c.307C>G	14.37:g.71109153C>G	ENSP00000256367:p.Pro103Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q86WT2	Missense_Mutation	SNP	ENST00000256367.2	37	CCDS45132.1	1812	0.8296703296703297	437	0.8882113821138211	330	0.9116022099447514	453	0.791958041958042	592	0.7810026385224275	G	0.069	-1.206605	0.01568	0.902292	0.85525	ENSG00000133985	ENST00000256367	T	0.18657	2.2	4.29	-7.15	0.01521	Tetratricopeptide-like helical (1);	0.478187	0.19869	N	0.104239	T	0.00012	0.0000	N	0.04508	-0.205	0.80722	P	0.0	B	0.06786	0.001	B	0.01281	0.0	T	0.27706	-1.0066	9	0.25106	T	0.35	-13.8871	0.7147	0.00930	0.2371:0.249:0.1297:0.3841	rs4902834;rs17846425;rs17859471;rs57432971;rs4902834	103	Q92623	TTC9A_HUMAN	A	103	ENSP00000256367:P103A	ENSP00000256367:P103A	P	+	1	0	TTC9	70178906	0.110000	0.22057	0.071000	0.20095	0.011000	0.07611	0.182000	0.16900	-2.181000	0.00765	-2.636000	0.00152	CCG		0.672	TTC9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000417024.1	XM_027236		G	71109153	C	G	71109153	3	3	639	1	0	0	0	0	1	0	0	0	16727	623	22	4	309	4	TTC9	14	71109153	Missense_Mutation	SNP	C	TCGA-KL-8340-01A-11D-2310-10		71109153	36240387	45	39481										
KCNK10	54207	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr14	88652066	88652066	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	cctcgtccagggagtaattcCggaaggtcttgtagattttc	11	9	1	1			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr14:88652066C>T	ENST00000340700.5	-	7	1881	c.1430G>A	c.(1429-1431)cGg>cAg	p.R477Q	KCNK10_ENST00000319231.5_Missense_Mutation_p.R482Q|KCNK10_ENST00000312350.5_Missense_Mutation_p.R482Q	NM_021161.4	NP_066984.1	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	477					signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|transport (GO:0006810)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	potassium channel activity (GO:0005267)|voltage-gated ion channel activity (GO:0005244)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(25)|ovary(3)|pancreas(2)|prostate(2)|skin(4)|upper_aerodigestive_tract(1)	47						GGAGTAATTCCGGAAGGTCTT	0.498																																																0													147	146	147					14																	88652066		2203	4300	6503	SO:0001583	missense	54207			AF279890	CCDS9880.1, CCDS9881.1, CCDS9882.1	14q31	2014-06-12						"Potassium channels", "Voltage-gated ion channels / Potassium channels, Two-P"	6273	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 97"	605873				10880510, 16382106	Standard	NM_021161		Approved	K2p10.1, TREK-2, TREK2, PPP1R97	uc001xwn.3	P57789		ENST00000340700.5:c.1430G>A	14.37:g.88652066C>T	ENSP00000343104:p.Arg477Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8T4|B2RCT3|B5TJL4|Q6B014|Q8TDK7|Q8TDK8|Q9HB59	Missense_Mutation	SNP	ENST00000340700.5	37	CCDS9880.1	.	.	.	.	.	.	.	.	.	.	C	17.32	3.360250	0.61403	.	.	ENSG00000100433	ENST00000340700;ENST00000312350;ENST00000319231	D;D;D	0.90844	-2.73;-2.74;-2.72	5.71	5.71	0.89125	.	0.845868	0.10735	N	0.640094	D	0.86531	0.5955	L	0.36672	1.1	0.43372	D	0.995465	P;P;P	0.42692	0.787;0.787;0.787	B;B;B	0.32677	0.15;0.105;0.15	D	0.85206	0.1018	10	0.46703	T	0.11	.	18.8558	0.92251	0.0:1.0:0.0:0.0	.	477;482;482	P57789;B2R8T4;Q6B014	KCNKA_HUMAN;.;.	Q	477;482;482	ENSP00000343104:R477Q;ENSP00000310568:R482Q;ENSP00000312811:R482Q	ENSP00000310568:R482Q	R	-	2	0	KCNK10	87721819	1.000000	0.71417	0.998000	0.56505	0.999000	0.98932	5.428000	0.66489	2.709000	0.92574	0.655000	0.94253	CGG		0.498	KCNK10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410167.1	NM_021161		T	88652066	C	T	88652066	3	4	639	1	0	0	0	0	1	0	0	0	8066	652	23	1	190	1	KCNK10	14	88652066	Missense_Mutation	SNP	C	TCGA-KL-8340-01A-11D-2310-10	17542913	88652066	18697474	46	39482										
AQR	9716	broad.mit.edu	37	chr15	35219284	35219284	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	actcccgagtatctacttctGccacatttgagagggcaaaa	8	11	2	1			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr15:35219284G>A	ENST00000156471.5	-	13	1295	c.1070C>T	c.(1069-1071)gCa>gTa	p.A357V		NM_014691.2	NP_055506.1	O60306	AQR_HUMAN	aquarius intron-binding spliceosomal factor	357					mRNA splicing, via spliceosome (GO:0000398)	catalytic step 2 spliceosome (GO:0071013)|membrane (GO:0016020)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			breast(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(10)|lung(18)|ovary(1)|prostate(6)|skin(4)|upper_aerodigestive_tract(2)	57		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)		ATCTACTTCTGCCACATTTGA	0.338																																																0													53	51	52					15																	35219284		1812	4072	5884	SO:0001583	missense	9716			AB011132	CCDS42013.1	15q13	2013-09-12	2013-09-12			ENSG00000021776			29513	protein-coding gene	gene with protein product	"functional spliceosome-associated protein 164"	610548	"aquarius homolog (mouse)"			9626505, 16949364	Standard	NM_014691		Approved	KIAA0560, fSAP164, IBP160	uc001ziv.3	O60306		ENST00000156471.5:c.1070C>T	15.37:g.35219284G>A	ENSP00000156471:p.Ala357Val	Somatic		WXS	Illumina HiSeq	Phase_I	A0JP17|A5YKK3|Q2YDX9|Q6IRU8|Q6PIC8	Missense_Mutation	SNP	ENST00000156471.5	37	CCDS42013.1	.	.	.	.	.	.	.	.	.	.	G	27.0	4.795158	0.90453	.	.	ENSG00000021776	ENST00000156471;ENST00000543879	D	0.93811	-3.29	5.73	4.82	0.62117	.	0.000000	0.85682	D	0.000000	D	0.94381	0.8193	M	0.83692	2.655	0.51767	D	0.999936	P	0.45902	0.868	P	0.47044	0.535	D	0.93285	0.6663	10	0.31617	T	0.26	-17.0162	14.7041	0.69176	0.0695:0.0:0.9305:0.0	.	357	O60306	AQR_HUMAN	V	357	ENSP00000156471:A357V	ENSP00000156471:A357V	A	-	2	0	AQR	33006576	1.000000	0.71417	0.999000	0.59377	0.910000	0.53928	9.452000	0.97615	1.428000	0.47296	-0.136000	0.14681	GCA		0.338	AQR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000417526.2	NM_014691		A	35219284	G	A	35219284	3	1	639	1	0	0	0	0	1	0	0	0	835	1319	46	2	3479	2	AQR	15	35219284	Missense_Mutation	SNP	G	TCGA-KL-8340-01A-11D-2310-10		35219284	67312108	47	39483										
ZSCAN10	84891	broad.mit.edu	37	chr16	3139359	3139359	+	Frame_Shift_Del	DEL	A	A	-													0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	aagctgcgaccgcacgtctgAcagctgtagggccgctcgcc							TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr16:3139359delA	ENST00000252463.2	-	5	1998	c.1911delT	c.(1909-1911)tgtfs	p.C637fs	ZSCAN10_ENST00000575108.1_Frame_Shift_Del_p.C298fs|ZSCAN10_ENST00000538082.2_Frame_Shift_Del_p.C555fs|RP11-473M20.9_ENST00000571404.1_lincRNA	NM_032805.1	NP_116194.1	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	637					negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|cervix(3)|endometrium(3)|kidney(1)|lung(8)|ovary(2)|prostate(1)|skin(4)|urinary_tract(1)	24						CGCACGTCTGACAGCTGTAGG	0.716																																																0													22	26	25					16																	3139359		2177	4265	6442	SO:0001589	frameshift_variant	84891			AA206569	CCDS10493.1, CCDS61813.1, CCDS61814.1	16p13.3	2013-01-08	2007-02-20	2007-02-20		ENSG00000130182		"-", "Zinc fingers, C2H2-type"	12997	protein-coding gene	gene with protein product			"zinc finger protein 206"	ZNF206		9653642	Standard	NM_032805		Approved		uc002ctv.1	Q96SZ4		ENST00000252463.2:c.1911delT	16.37:g.3139359delA	ENSP00000252463:p.Cys637fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQD3|H0YFS6|Q1WWM2	Frame_Shift_Del	DEL	ENST00000252463.2	37	CCDS10493.1																																																																																				0.716	ZSCAN10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437124.2	NM_032805		-	3139359	A	-	3139359	7	5	639	1	0	1	0	1	0	0	0	0	18239	273	10	0	270	0	ZSCAN10	16	3139359	Frame_Shift_Del	DEL	A	TCGA-KL-8340-01A-11D-2310-10		3139359	87215394	48	39484										
RAP1GAP2	23108	hgsc.bcm.edu	37	chr17	2901620	2901620	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	cctccaatttcttacatgccTacatcgtcgtgcaggtcgag	8	13	1	0			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr17:2901620T>C	ENST00000254695.8	+	14	1240	c.1150T>C	c.(1150-1152)Tac>Cac	p.Y384H	RAP1GAP2_ENST00000542807.1_Missense_Mutation_p.Y384H|RAP1GAP2_ENST00000366401.4_Missense_Mutation_p.Y369H|RAP1GAP2_ENST00000540393.2_Missense_Mutation_p.Y365H	NM_015085.4	NP_055900.4	Q684P5	RPGP2_HUMAN	RAP1 GTPase activating protein 2	384	Rap-GAP. {ECO:0000255|PROSITE- ProRule:PRU00165}.				negative regulation of neuron projection development (GO:0010977)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|neuron projection (GO:0043005)|nuclear membrane (GO:0031965)	Rap GTPase activator activity (GO:0046582)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(2)|ovary(1)|upper_aerodigestive_tract(1)	11						CTTACATGCCTACATCGTCGT	0.532																																																0													114	113	113					17																	2901620		2041	4190	6231	SO:0001583	missense	23108			AB028962	CCDS45573.1, CCDS45574.1	17p13.3	2009-09-14	2009-09-14	2009-09-14		ENSG00000132359			29176	protein-coding gene	gene with protein product			"GTPase activating RANGAP domain-like 4", "GTPase activating Rap/RanGAP domain-like 4"	GARNL4		15632203	Standard	NM_015085		Approved	KIAA1039	uc010ckd.3	Q684P5		ENST00000254695.8:c.1150T>C	17.37:g.2901620T>C	ENSP00000254695:p.Tyr384His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTY5|Q684P4|Q6AI00|Q6ZVF0|Q9UPW2	Missense_Mutation	SNP	ENST00000254695.8	37	CCDS45573.1	.	.	.	.	.	.	.	.	.	.	T	21.6	4.175858	0.78564	.	.	ENSG00000132359	ENST00000254695;ENST00000366401;ENST00000540393;ENST00000542807	D;D;D;D	0.93763	-3.28;-3.28;-3.28;-3.28	5.66	5.66	0.87406	Rap/ran-GAP (2);	0.173492	0.52532	D	0.000068	D	0.95382	0.8501	L	0.49571	1.57	0.58432	D	0.999999	D;D	0.89917	0.999;1.0	D;D	0.81914	0.991;0.995	D	0.95853	0.8876	10	0.87932	D	0	-22.4855	15.0728	0.72053	0.0:0.0:0.0:1.0	.	369;384	Q684P5-2;Q684P5	.;RPGP2_HUMAN	H	384;369;365;384	ENSP00000254695:Y384H;ENSP00000389824:Y369H;ENSP00000439688:Y365H;ENSP00000444890:Y384H	ENSP00000254695:Y384H	Y	+	1	0	RAP1GAP2	2848370	1.000000	0.71417	1.000000	0.80357	0.517000	0.34286	8.040000	0.89188	2.158000	0.67659	0.459000	0.35465	TAC		0.532	RAP1GAP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000438208.2			C	2901620	T	C	2901620	3	2	639	1	0	0	0	0	1	0	0	0	13051	1522	53	3	1204	3	RAP1GAP2	17	2901620	Missense_Mutation	SNP	T	TCGA-KL-8340-01A-11D-2310-10		2901620	78293590	49	39485										
PSG3	5671	broad.mit.edu	37	chr19	43233954	43233954	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	gacattcagggtgactgggtAactgcggatgccaccatatc	12	10	1	1	rs1071709		TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr19:43233954A>T	ENST00000327495.5	-	4	1148	c.964T>A	c.(964-966)Tac>Aac	p.Y322N	PSG3_ENST00000595140.1_Missense_Mutation_p.Y322N	NM_021016.3	NP_066296.2	Q16557	PSG3_HUMAN	pregnancy specific beta-1-glycoprotein 3	322	Ig-like C2-type 2.				defense response (GO:0006952)|female pregnancy (GO:0007565)	extracellular region (GO:0005576)				central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(5)|lung(12)|ovary(1)|pancreas(1)|prostate(2)|skin(3)|stomach(1)|urinary_tract(1)	36		Prostate(69;0.00682)				GTGACTGGGTAACTGCGGATG	0.488																																																0													170	153	159					19																	43233954		1511	2709	4220	SO:0001583	missense	5671				CCDS12611.1	19q13.2	2013-01-29			ENSG00000221826	ENSG00000221826		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9520	protein-coding gene	gene with protein product		176392				2341148	Standard	NM_021016		Approved		uc002oue.3	Q16557	OTTHUMG00000151120	ENST00000327495.5:c.964T>A	19.37:g.43233954A>T	ENSP00000332215:p.Tyr322Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q08265|Q9BRW2|Q9UPL4|Q9UQ77	Missense_Mutation	SNP	ENST00000327495.5	37	CCDS12611.1	.	.	.	.	.	.	.	.	.	.	c	0.770	-0.765978	0.02974	.	.	ENSG00000221826	ENST00000327495	T	0.09911	2.93	1.36	-2.4	0.06583	Immunoglobulin subtype (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.03053	0.0090	N	0.02539	-0.55	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.06405	0.001;0.002	T	0.41645	-0.9497	9	0.26408	T	0.33	.	2.1312	0.03750	0.3034:0.4815:0.0:0.2151	.	300;322	Q08266;Q16557	.;PSG3_HUMAN	N	322	ENSP00000332215:Y322N	ENSP00000332215:Y322N	Y	-	1	0	PSG3	47925794	0.934000	0.31675	0.016000	0.15963	0.011000	0.07611	0.292000	0.19011	-0.680000	0.05211	-2.134000	0.00341	TAC		0.488	PSG3-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321423.2	NM_021016		T	43233954	A	T	43233954	3	4	639	1	0	0	0	0	1	0	0	0	12666	362	13	5	334	5	PSG3	19	43233954	Missense_Mutation	SNP	A	TCGA-KL-8340-01A-11D-2310-10		43233954	15895029	50	39486										
AKT1S1	84335	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr19	50374973	50374973	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	tctcctcgctcaggctgccaTctgaaagagagggtggactt	12	11	3	2			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr19:50374973T>A	ENST00000391833.1	-	3	2447	c.458A>T	c.(457-459)gAt>gTt	p.D153V	AKT1S1_ENST00000391834.2_Splice_Site_p.D153V|AKT1S1_ENST00000391832.3_Splice_Site_p.D153V|AKT1S1_ENST00000391831.1_Splice_Site_p.D153V|AKT1S1_ENST00000391835.1_Splice_Site_p.D173V|AKT1S1_ENST00000344175.5_Splice_Site_p.D153V	NM_001278160.1	NP_001265089.1			AKT1 substrate 1 (proline-rich)											kidney(1)|large_intestine(2)|lung(1)|upper_aerodigestive_tract(1)	5		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		CAGGCTGCCATCTGAAAGAGA	0.657																																																0													44	48	47					19																	50374973		2203	4299	6502	SO:0001630	splice_region_variant	84335			BC022241	CCDS12784.1, CCDS59410.1	19q13.33	2008-02-05			ENSG00000204673	ENSG00000204673			28426	protein-coding gene	gene with protein product	"proline-rich Akt substrate, 40 kDa"	610221				12524439	Standard	NM_032375		Approved	PRAS40, MGC2865, Lobe	uc031rmg.1	Q96B36	OTTHUMG00000150246	ENST00000391833.1:c.458-1A>T	19.37:g.50374973T>A		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000391833.1	37	CCDS12784.1	.	.	.	.	.	.	.	.	.	.	T	16.89	3.248560	0.59103	.	.	ENSG00000204673	ENST00000391833;ENST00000344175;ENST00000391832;ENST00000391834;ENST00000391835;ENST00000391831	T;T;T;T;T;T	0.61859	0.09;0.09;0.09;0.09;0.07;0.09	4.14	4.14	0.48551	.	0.061402	0.64402	D	0.000009	T	0.69396	0.3106	L	0.55213	1.73	0.80722	D	1	D	0.76494	0.999	D	0.83275	0.996	T	0.72374	-0.4313	10	0.87932	D	0	.	11.4203	0.49978	0.0:0.0:0.0:1.0	.	153	Q96B36	AKTS1_HUMAN	V	153;153;153;153;173;153	ENSP00000375709:D153V;ENSP00000341698:D153V;ENSP00000375708:D153V;ENSP00000375710:D153V;ENSP00000375711:D173V;ENSP00000375707:D153V	ENSP00000341698:D153V	D	-	2	0	AKT1S1	55066785	0.998000	0.40836	0.992000	0.48379	0.446000	0.32137	4.804000	0.62554	1.867000	0.54127	0.533000	0.62120	GAT		0.657	AKT1S1-005	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317073.1	NM_032375	Missense_Mutation	A	50374973	T	A	50374973	5	1	639	1	0	0	0	0	0	0	1	0	479	1449	50	5	320	5	AKT1S1	19	50374973	Splice_Site	SNP	T	TCGA-KL-8340-01A-11D-2310-10	7141019	50374973	8754010	51	39487										
PRIC285	85441	ucsc.edu	37	chr20	62194103	62194103	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	gggccgaggctgctgggcccAgggcgtgggctggccgtggg	23	11	0	0	rs3810484	byFrequency	TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr20:62194103A>G	ENST00000467148.1	-	8	6141	c.6072T>C	c.(6070-6072)ccT>ccC	p.P2024P	HELZ2_ENST00000427522.2_Silent_p.P1455P	NM_001037335.2	NP_001032412.2	Q9BYK8	HELZ2_HUMAN	helicase with zinc finger 2, transcriptional coactivator	2024					cellular lipid metabolic process (GO:0044255)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	membrane (GO:0016020)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)										TGCTGGGCCCAGGGCGTGGGC	0.697													G|||	2740	0.547125	0.3956	0.4827	5008	,	,		13691	0.8482		0.4095	False		,,,				2504	0.6288															0								G	,	1610,2724		322,966,879	10	13	12		6072,4365	-4.9	0	20	dbSNP_107	12	3513,5019		782,1949,1535	no	coding-synonymous,coding-synonymous	PRIC285	NM_001037335.2,NM_033405.3	,	1104,2915,2414	GG,GA,AA		41.1744,37.1481,39.8181	,	2024/2650,1455/2081	62194103	5123,7743	2167	4266	6433	SO:0001819	synonymous_variant	85441			AB201715	CCDS13527.1, CCDS33508.1	20q13.33	2012-09-26			ENSG00000130589	ENSG00000130589			30021	protein-coding gene	gene with protein product	"peroxisomal proliferator activated receptor A interacting complex 285", "PPARG-DBD-interacting protein 1"	611265				11214970, 12189208, 16239304	Standard	NM_001037335		Approved	PDIP1, PRIC285, KIAA1769	uc002yfm.2	Q9BYK8	OTTHUMG00000032969	ENST00000467148.1:c.6072T>C	20.37:g.62194103A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q3C2G2|Q4VXQ1|Q8TEF3|Q96ND3|Q9C094	Silent	SNP	ENST00000467148.1	37	CCDS33508.1																																																																																				0.697	HELZ2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354127.1	NM_001037335		G	62194103	A	G	62194103	2	3	639	1	0	0	0	0	0	0	0	1	12495	175	7	3		3	PRIC285	20	62194103	Silent	SNP	A	TCGA-KL-8340-01A-11D-2310-10		62194103	831417	52	39488										
TIAM1	7074	broad.mit.edu	37	chr21	32639202	32639202	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	gtcttgtgcgagaggcgcagGgagcgggaagtgtgcttgcg	20	7	1	1	rs139712298		TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chr21:32639202G>T	ENST00000286827.3	-	5	558	c.87C>A	c.(85-87)tcC>tcA	p.S29S	TIAM1_ENST00000469412.1_Intron|TIAM1_ENST00000541036.1_Silent_p.S29S	NM_003253.2	NP_003244.2	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	29					apoptotic signaling pathway (GO:0097190)|cell migration (GO:0016477)|cell-matrix adhesion (GO:0007160)|ephrin receptor signaling pathway (GO:0048013)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of axonogenesis (GO:0050772)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of Rho GTPase activity (GO:0032321)|Rac protein signal transduction (GO:0016601)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cell-cell contact zone (GO:0044291)|cell-cell junction (GO:0005911)|cytosol (GO:0005829)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)	phospholipid binding (GO:0005543)|Rac guanyl-nucleotide exchange factor activity (GO:0030676)|receptor signaling protein activity (GO:0005057)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			autonomic_ganglia(3)|breast(7)|central_nervous_system(2)|endometrium(13)|kidney(4)|large_intestine(33)|lung(44)|ovary(2)|prostate(3)|skin(2)|urinary_tract(2)	115						AGAGGCGCAGGGAGCGGGAAG	0.582																																																0													45	47	46					21																	32639202		2203	4300	6503	SO:0001819	synonymous_variant	7074				CCDS13609.1	21q22.1	2013-01-10			ENSG00000156299	ENSG00000156299		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	11805	protein-coding gene	gene with protein product		600687				8595894, 15340013	Standard	NM_003253		Approved		uc002yow.1	Q13009	OTTHUMG00000084869	ENST00000286827.3:c.87C>A	21.37:g.32639202G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLR6|F5GZ53|Q17RT7	Silent	SNP	ENST00000286827.3	37	CCDS13609.1																																																																																				0.582	TIAM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000192552.1	NM_003253		T	32639202	G	T	32639202	2	4	639	1	0	0	0	0	0	0	0	1	15902	1219	43	4		4	TIAM1	21	32639202	Silent	SNP	G	TCGA-KL-8340-01A-11D-2310-10		32639202	15490693	53	39489										
SSX3	10214	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	48213477	48213477	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.037037037037037	2	1	0.583136327817179	0	0.684551341350601	0.333333333333333	1	0	ttatcaaaatcattcccctgGaagtctgtgacccgtttatt	6	10	3	1			TCGA-KL-8340-01A-11D-2310-10	TCGA-KL-8340-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d113ce88-04ab-4675-b363-92f80c28de34	44123123-63e3-46bd-85ee-c66a37c942a3	g.chrX:48213477G>T	ENST00000298396.2	-	4	289	c.237C>A	c.(235-237)ttC>ttA	p.F79L	SSX3_ENST00000376895.1_5'Flank|SSX3_ENST00000376893.3_Missense_Mutation_p.F79L	NM_021014.2	NP_066294.1	Q99909	SSX3_HUMAN	synovial sarcoma, X breakpoint 3	79	KRAB-related. {ECO:0000255|PROSITE- ProRule:PRU00120}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleic acid binding (GO:0003676)			endometrium(3)|large_intestine(1)|lung(9)	13						CATTCCCCTGGAAGTCTGTGA	0.468																																					Colon(37;227 826 19399 40970 48007)											0													138	124	129					X																	48213477		2203	4300	6503	SO:0001583	missense	10214			U90840	CCDS14291.1	Xp11.23	2009-06-17			ENSG00000165584	ENSG00000165584			11337	protein-coding gene	gene with protein product		300325				8697803, 9378559	Standard	NM_021014		Approved	CT5.3	uc004djd.1	Q99909	OTTHUMG00000021489	ENST00000298396.2:c.237C>A	X.37:g.48213477G>T	ENSP00000298396:p.Phe79Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O60223|Q5JQZ3|Q9BRW7	Missense_Mutation	SNP	ENST00000298396.2	37	CCDS14291.1	.	.	.	.	.	.	.	.	.	.	g	2.049	-0.418296	0.04766	.	.	ENSG00000165584	ENST00000298396;ENST00000376893	T;T	0.07216	3.26;3.21	0.96	0.0283	0.14158	Krueppel-associated box (1);Krueppel-associated box-related (1);	0.829980	0.10428	N	0.675889	T	0.05273	0.0140	L	0.35288	1.05	0.09310	N	1	B;B	0.06786	0.001;0.0	B;B	0.08055	0.002;0.003	T	0.46610	-0.9179	10	0.16896	T	0.51	.	3.126	0.06407	0.3386:0.0:0.6614:0.0	.	79;79	Q9BRW7;Q99909	.;SSX3_HUMAN	L	79	ENSP00000298396:F79L;ENSP00000366090:F79L	ENSP00000298396:F79L	F	-	3	2	SSX3	48098421	0.000000	0.05858	0.001000	0.08648	0.050000	0.14768	0.230000	0.17852	-0.051000	0.13334	0.181000	0.17075	TTC		0.468	SSX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056486.1	NM_021014		T	48213477	G	T	48213477	3	4	639	1	0	0	0	0	1	0	0	0	15217	1165	41	4	396	4	SSX3	23	48213477	Missense_Mutation	SNP	G	TCGA-KL-8340-01A-11D-2310-10		48213477	107057083	54	39490										
ACAP3	116983	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	1235261	1235261	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	catctcacgcttttccaccgCagagtcgatcaccagctggt	8	15	2	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr1:1235261C>G	ENST00000354700.5	-	9	890	c.688G>C	c.(688-690)Gcg>Ccg	p.A230P	ACAP3_ENST00000353662.3_Missense_Mutation_p.A188P|ACAP3_ENST00000379037.2_5'Flank	NM_030649.2	NP_085152.2	Q96P50	ACAP3_HUMAN	ArfGAP with coiled-coil, ankyrin repeat and PH domains 3	230					regulation of ARF GTPase activity (GO:0032312)		ARF GTPase activator activity (GO:0008060)|zinc ion binding (GO:0008270)			endometrium(3)|lung(9)|skin(1)|upper_aerodigestive_tract(1)	14						TTTTCCACCGCAGAGTCGATC	0.687																																																0													22	24	24					1																	1235261		2178	4282	6460	SO:0001583	missense	116983			AF411981	CCDS19.2	1p36	2013-01-10	2008-09-22	2008-09-22	ENSG00000131584	ENSG00000131584		"ADP-ribosylation factor GTPase activating proteins", "Pleckstrin homology (PH) domain containing", "Ankyrin repeat domain containing"	16754	protein-coding gene	gene with protein product			"centaurin, beta 5"	CENTB5			Standard	NM_030649		Approved	KIAA1716	uc001aeb.2	Q96P50	OTTHUMG00000002235	ENST00000354700.5:c.688G>C	1.37:g.1235261C>G	ENSP00000346733:p.Ala230Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B1AMF5|Q5TA42|Q5TA43|Q86UT3|Q9BSR9|Q9C0E7	Missense_Mutation	SNP	ENST00000354700.5	37	CCDS19.2	.	.	.	.	.	.	.	.	.	.	C	15.23	2.771765	0.49680	.	.	ENSG00000131584	ENST00000354700;ENST00000353662	T;T	0.04502	3.61;3.61	3.38	3.38	0.38709	.	0.000000	0.85682	D	0.000000	T	0.21186	0.0510	M	0.79926	2.475	0.41380	D	0.987541	D;D;D	0.71674	0.998;0.992;0.988	D;P;P	0.74348	0.983;0.828;0.839	T	0.05241	-1.0897	10	0.40728	T	0.16	.	16.0417	0.80687	0.0:1.0:0.0:0.0	.	270;230;188	Q5TA40;Q96P50;Q96P50-1	.;ACAP3_HUMAN;.	P	230;188	ENSP00000346733:A230P;ENSP00000321139:A188P	ENSP00000321139:A188P	A	-	1	0	ACAP3	1225124	1.000000	0.71417	0.828000	0.32881	0.773000	0.43773	7.108000	0.77055	2.201000	0.70794	0.313000	0.20887	GCG		0.687	ACAP3-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006366.2	NM_030649		G	1235261	C	G	1235261	3	3	640	1	0	0	0	0	1	0	0	0	120	710	25	4	1880	4	ACAP3	1	1235261	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10		1235261	248015360	1	39491										
TAS1R1	80835	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	6634949	6634949	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ccttctctgcccaggtgggcGatgagaggatgcagtgcctc	14	12	1	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr1:6634949G>A	ENST00000333172.6	+	3	950	c.757G>A	c.(757-759)Gat>Aat	p.D253N	TAS1R1_ENST00000351136.3_Intron|TAS1R1_ENST00000328191.4_Missense_Mutation_p.D253N	NM_138697.3	NP_619642.2	Q7RTX1	TS1R1_HUMAN	taste receptor, type 1, member 1	253					detection of chemical stimulus involved in sensory perception of taste (GO:0050912)|sensory perception of umami taste (GO:0050917)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	protein heterodimerization activity (GO:0046982)|taste receptor activity (GO:0008527)			NS(2)|central_nervous_system(1)|endometrium(2)|large_intestine(7)|lung(13)|ovary(1)|skin(1)|urinary_tract(2)	29	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;8.73e-34)|all_epithelial(116;9.26e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Breast(487;0.000353)|Renal(390;0.0007)|Colorectal(325;0.00104)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.29e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|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;0.0167)|READ - Rectum adenocarcinoma(331;0.0642)		CCAGGTGGGCGATGAGAGGAT	0.612																																																0													73	75	74					1																	6634949		2203	4300	6503	SO:0001583	missense	80835				CCDS81.1, CCDS82.1	1p36.23	2012-08-22	2003-03-24		ENSG00000173662	ENSG00000173662		"Taste receptors / Type 1", "GPCR / Unclassified : Taste receptors"	14448	protein-coding gene	gene with protein product		606225	"G protein-coupled receptor 70"	GPR70			Standard	NM_138697		Approved	T1R1, TR1	uc001ant.3	Q7RTX1	OTTHUMG00000001441	ENST00000333172.6:c.757G>A	1.37:g.6634949G>A	ENSP00000331867:p.Asp253Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMX0|Q5SY22|Q5SY24|Q8NGZ7|Q8TDJ7|Q8TDJ8|Q8TDJ9|Q8TDK0	Missense_Mutation	SNP	ENST00000333172.6	37	CCDS81.1	.	.	.	.	.	.	.	.	.	.	G	8.317	0.823442	0.16678	.	.	ENSG00000173662	ENST00000333172;ENST00000328191	D;D	0.83591	-1.74;-1.74	5.4	4.49	0.54785	Extracellular ligand-binding receptor (1);	1.286080	0.04829	N	0.438363	T	0.75170	0.3813	L	0.37800	1.135	0.09310	N	1	B;B	0.31879	0.171;0.344	B;B	0.27608	0.051;0.081	T	0.59974	-0.7353	10	0.18276	T	0.48	.	8.0489	0.30566	0.1913:0.0:0.8087:0.0	.	253;253	Q7RTX1-3;Q7RTX1	.;TS1R1_HUMAN	N	253	ENSP00000331867:D253N;ENSP00000327705:D253N	ENSP00000327705:D253N	D	+	1	0	TAS1R1	6557536	0.014000	0.17966	0.015000	0.15790	0.009000	0.06853	1.803000	0.38863	1.249000	0.43950	0.655000	0.94253	GAT		0.612	TAS1R1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004211.1			A	6634949	G	A	6634949	3	1	640	1	0	0	0	0	1	0	0	0	15574	1058	37	1	767	1	TAS1R1	1	6634949	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	5399688	6634949	242615672	2	39492										
PER3	8863	broad.mit.edu	37	chr1	7887663	7887663	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ctgcgatatcaccctcaatgTcgtcagcaatgagtccaact	7	13	3	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr1:7887663T>C	ENST00000361923.2	+	17	2825	c.2650T>C	c.(2650-2652)Tcg>Ccg	p.S884P	RP3-467L1.4_ENST00000451646.1_RNA|PER3_ENST00000377532.3_Missense_Mutation_p.S892P	NM_016831.1	NP_058515.1	P56645	PER3_HUMAN	period circadian clock 3	884	Pro-rich.				circadian regulation of gene expression (GO:0032922)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of circadian sleep/wake cycle, sleep (GO:0045187)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	signal transducer activity (GO:0004871)			breast(4)|central_nervous_system(3)|cervix(2)|endometrium(2)|kidney(2)|large_intestine(9)|lung(8)|ovary(1)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	39	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		ACCCTCAATGTCGTCAGCAAT	0.567																																																0													123	117	119					1																	7887663		2203	4300	6503	SO:0001583	missense	8863			BC026102	CCDS89.1, CCDS72695.1	1p36.23	2012-12-13	2012-12-13		ENSG00000049246	ENSG00000049246			8847	protein-coding gene	gene with protein product		603427	"period (Drosophila) homolog 3", "period homolog 3 (Drosophila)"			9427249	Standard	XM_005263520		Approved		uc001aoo.3	P56645	OTTHUMG00000001216	ENST00000361923.2:c.2650T>C	1.37:g.7887663T>C	ENSP00000355031:p.Ser884Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5H8X4|Q5H8X5|Q969K6|Q96S77|Q96S78|Q9C0J3|Q9NSP9|Q9UGU8	Missense_Mutation	SNP	ENST00000361923.2	37	CCDS89.1	.	.	.	.	.	.	.	.	.	.	T	3.590	-0.083812	0.07141	.	.	ENSG00000049246	ENST00000377532;ENST00000361923;ENST00000539773	T;T	0.09630	2.96;2.96	0.109	0.109	0.14578	.	124.353000	0.03105	U	0.161708	T	0.05868	0.0153	N	0.08118	0	0.09310	N	1	B;B;B;B	0.12013	0.005;0.003;0.005;0.005	B;B;B;B	0.12156	0.006;0.003;0.007;0.006	T	0.34675	-0.9819	9	0.23891	T	0.37	.	.	.	.	.	884;892;892;884	A2I2N5;A6H8X0;P56645-2;P56645	.;.;.;PER3_HUMAN	P	892;884;95	ENSP00000366755:S892P;ENSP00000355031:S884P	ENSP00000355031:S884P	S	+	1	0	PER3	7810250	0.001000	0.12720	0.001000	0.08648	0.004000	0.04260	0.198000	0.17217	0.156000	0.19299	0.155000	0.16302	TCG		0.567	PER3-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000003607.1	NM_016831		C	7887663	T	C	7887663	3	2	640	1	0	0	0	0	1	0	0	0	11738	1667	58	3	2716	3	PER3	1	7887663	Missense_Mutation	SNP	T	TCGA-KL-8341-01A-11D-2310-10	1252714	7887663	241362958	3	39493										
RERE	473	broad.mit.edu	37	chr1	8424203	8424203	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ggtttgaacataaacggtggCgggtccacgggcttctcaat	13	9	1	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr1:8424203C>T	ENST00000337907.3	-	16	2287	c.1653G>A	c.(1651-1653)ccG>ccA	p.P551P	RERE_ENST00000400907.2_Intron|RERE_ENST00000460659.1_5'Flank|RERE_ENST00000400908.2_Silent_p.P551P|RERE_ENST00000377464.1_Silent_p.P283P|RERE_ENST00000476556.1_5'UTR	NM_012102.3	NP_036234.3	Q9P2R6	RERE_HUMAN	arginine-glutamic acid dipeptide (RE) repeats	551					chromatin remodeling (GO:0006338)|multicellular organismal development (GO:0007275)|NLS-bearing protein import into nucleus (GO:0006607)|transcription, DNA-templated (GO:0006351)	histone deacetylase complex (GO:0000118)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|poly-glutamine tract binding (GO:0008267)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			central_nervous_system(1)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(5)|liver(1)|lung(16)|ovary(3)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	49	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)		TAAACGGTGGCGGGTCCACGG	0.602																																																0													85	81	82					1																	8424203		2203	4300	6503	SO:0001819	synonymous_variant	473			AF016005	CCDS95.1, CCDS41243.1	1p36.23	2013-01-25			ENSG00000142599	ENSG00000142599		"GATA zinc finger domain containing"	9965	protein-coding gene	gene with protein product		605226		ATN1L		10814707, 10729226	Standard	NM_012102		Approved	KIAA0458, ARP, ARG, DNB1	uc001apf.3	Q9P2R6	OTTHUMG00000001765	ENST00000337907.3:c.1653G>A	1.37:g.8424203C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O43393|O75046|O75359|Q5VXL9|Q6P6B9|Q9Y2W4	Silent	SNP	ENST00000337907.3	37	CCDS95.1																																																																																				0.602	RERE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004916.1			T	8424203	C	T	8424203	2	4	640	1	0	0	0	0	0	0	0	1	13244	755	27	1		1	RERE	1	8424203	Silent	SNP	C	TCGA-KL-8341-01A-11D-2310-10	536540	8424203	240826418	4	39494										
TCHH	7062	bcgsc.ca	37	chr1	152082364	152082364	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gcagctcctcttcctcccgaCattgcctctcccgctcctgg	7	20	2	0	rs372810614		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr1:152082364C>T	ENST00000368804.1	-	2	3328	c.3329G>A	c.(3328-3330)tGt>tAt	p.C1110Y		NM_007113.2	NP_009044.2	Q07283	TRHY_HUMAN	trichohyalin	1110	10 X 30 AA tandem repeats.				keratinization (GO:0031424)	cytoskeleton (GO:0005856)	calcium ion binding (GO:0005509)	p.C1110Y(1)		NS(2)|breast(4)|central_nervous_system(1)|cervix(1)|endometrium(20)|kidney(9)|large_intestine(16)|lung(33)|ovary(3)|pancreas(1)|prostate(4)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(4)	105	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ttcctccCGACATTGCCTCTC	0.597																																																1	Substitution - Missense(1)	endometrium(1)											94	95	94					1																	152082364		1970	4147	6117	SO:0001583	missense	7062			L09190	CCDS41396.1	1q21-q23	2013-01-10		2006-01-27	ENSG00000159450	ENSG00000159450		"EF-hand domain containing"	11791	protein-coding gene	gene with protein product		190370		THH		1431214	Standard	NM_007113		Approved		uc001ezp.3	Q07283	OTTHUMG00000013066	ENST00000368804.1:c.3329G>A	1.37:g.152082364C>T	ENSP00000357794:p.Cys1110Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUI3	Missense_Mutation	SNP	ENST00000368804.1	37	CCDS41396.1	.	.	.	.	.	.	.	.	.	.	c	4.077	0.012201	0.07912	.	.	ENSG00000159450	ENST00000368804	T	0.04454	3.62	2.96	-4.42	0.03579	.	.	.	.	.	T	0.00328	0.0010	N	0.01576	-0.805	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.43702	-0.9375	9	0.02654	T	1	.	3.7854	0.08698	0.4847:0.1083:0.0:0.407	.	1110	Q07283	TRHY_HUMAN	Y	1110	ENSP00000357794:C1110Y	ENSP00000357794:C1110Y	C	-	2	0	TCHH	150348988	0.002000	0.14202	0.000000	0.03702	0.001000	0.01503	0.189000	0.17037	-1.366000	0.02155	-0.598000	0.04106	TGT		0.597	TCHH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000036671.2	NM_007113		T	152082364	C	T	152082364	3	4	640	1	0	0	0	0	1	0	0	0	15712	478	17	2	2506	2	TCHH	1	152082364	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	143658161	152082364	97168257	5	39495										
DARC	2532	mdanderson.org	37	chr1	159175354	159175354	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	cttcccagatggagactatgGtgccaacctggaagcagctg	12	11	0	2	rs12075	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr1:159175354G>A	ENST00000368122.2	+	2	804	c.125G>A	c.(124-126)gGt>gAt	p.G42D	DARC_ENST00000368121.2_Missense_Mutation_p.G44D|DARC_ENST00000537147.1_Missense_Mutation_p.G42D|CTA-134P22.2_ENST00000609696.1_RNA	NM_002036.3	NP_002027.2	Q16570	ACKR1_HUMAN		42			G -> D (antigen Fy(b); dbSNP:rs12075). {ECO:0000269|PubMed:7663520, ECO:0000269|PubMed:7705836, ECO:0000269|PubMed:8248172, ECO:0000269|PubMed:9731074, ECO:0000269|PubMed:9886340}.		chemokine-mediated signaling pathway (GO:0070098)|defense response (GO:0006952)|inflammatory response (GO:0006954)|regulation of chemokine production (GO:0032642)	endosome (GO:0005768)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	C-C chemokine binding (GO:0019957)|G-protein coupled receptor activity (GO:0004930)|receptor activity (GO:0004872)|transmembrane signaling receptor activity (GO:0004888)			large_intestine(2)|lung(1)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	8	all_hematologic(112;0.0429)					GGAGACTATGGTGCCAACCTG	0.527													A|||	2707	0.540535	0.9811	0.5389	5008	,	,		20455	0.0774		0.6024	False		,,,				2504	0.3599															0			GRCh37	CM950484	DARC	M	rs12075	A	ASP/GLY,ASP/GLY	4037,369	187.8+/-214.3	1849,339,15	95	87	90	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	131,125	-1.1	0	1	dbSNP_52	90	4967,3633	523.8+/-380.4	1441,2085,774	yes	missense,missense	DARC	NM_001122951.2,NM_002036.3	94,94	3290,2424,789	AA,AG,GG	http://www.ncbi.nlm.nih.gov/pubmed?term	42.2442,8.3749,30.7704	benign,benign	44/339,42/337	159175354	9004,4002	2203	4300	6503	SO:0001583	missense	2532																														ENST00000368122.2:c.125G>A	1.37:g.159175354G>A	ENSP00000357104:p.Gly42Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8YPG5|O75898|Q16300|Q8WWE3|Q9UJP0|Q9UKZ5|Q9UKZ6|Q9UQE1	Missense_Mutation	SNP	ENST00000368122.2	37	CCDS1183.1	1176	0.5384615384615384	474	0.9634146341463414	209	0.5773480662983426	47	0.08216783216783216	446	0.5883905013192612	A	0.168	-1.074849	0.01903	0.916251	0.577558	ENSG00000213088	ENST00000368122;ENST00000537147;ENST00000359381;ENST00000435307;ENST00000368121	T;T;T;T	0.22336	4.47;4.47;1.96;4.46	4.36	-1.07	0.09968	.	.	.	.	.	T	0.01287	0.0042	N	0.02916	-0.46	0.80722	P	0.0	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.42396	-0.9454	8	0.02654	T	1	-10.5139	3.1012	0.06327	0.4283:0.0:0.1875:0.3841	rs12075;rs3171130;rs61460694;rs12075	44;42	Q5Y7A1;Q16570	.;DUFFY_HUMAN	D	42;42;42;44;44	ENSP00000357104:G42D;ENSP00000441985:G42D;ENSP00000398406:G44D;ENSP00000357103:G44D	ENSP00000352341:G42D	G	+	2	0	DARC	157441978	0.000000	0.05858	0.000000	0.03702	0.007000	0.05969	0.283000	0.18846	-0.484000	0.06763	-0.361000	0.07541	GGT		0.527	DARC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090338.2			A	159175354	G	A	159175354	3	1	640	1	0	0	0	0	1	0	0	0	4242	1261	44	2	158	2	DARC	1	159175354	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	7092990	159175354	90075267	6	39496										
NUAK2	81788	ucsc.edu;bcgsc.ca	37	chr1	205274455	205274455	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gaacacccagggaccagctgTccacctgagagagatggggg	15	11	0	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr1:205274455T>C	ENST00000367157.3	-	6	821	c.695A>G	c.(694-696)gAc>gGc	p.D232G		NM_030952.1	NP_112214.1			NUAK family, SNF1-like kinase, 2											breast(3)|kidney(3)|large_intestine(4)|lung(4)|ovary(3)|prostate(3)|skin(1)|stomach(1)|urinary_tract(1)	23	Breast(84;0.186)		BRCA - Breast invasive adenocarcinoma(75;0.117)			GGACCAGCTGTCCACCTGAGA	0.552																																																0													58	51	53					1																	205274455		2203	4300	6503	SO:0001583	missense	81788			AK074830	CCDS1453.1	1q32.1	2008-02-05			ENSG00000163545	ENSG00000163545			29558	protein-coding gene	gene with protein product	"SNF1/AMP activated protein kinase"	608131				11230166	Standard	NM_030952		Approved	SNARK, FLJ90349	uc001hce.3	Q9H093	OTTHUMG00000037196	ENST00000367157.3:c.695A>G	1.37:g.205274455T>C	ENSP00000356125:p.Asp232Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000367157.3	37	CCDS1453.1	.	.	.	.	.	.	.	.	.	.	T	28.8	4.951381	0.92660	.	.	ENSG00000163545	ENST00000367157	T	0.75589	-0.95	5.93	5.93	0.95920	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.47852	D	0.000215	D	0.92861	0.7729	H	0.99732	4.735	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.95977	0.8974	10	0.87932	D	0	.	16.0444	0.80711	0.0:0.0:0.0:1.0	.	232	Q9H093	NUAK2_HUMAN	G	232	ENSP00000356125:D232G	ENSP00000356125:D232G	D	-	2	0	NUAK2	203541078	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	8.040000	0.89188	2.271000	0.75665	0.459000	0.35465	GAC		0.552	NUAK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090390.1	NM_030952		C	205274455	T	C	205274455	3	2	640	1	0	0	0	0	1	0	0	0	10720	1667	58	3	1199	3	NUAK2	1	205274455	Missense_Mutation	SNP	T	TCGA-KL-8341-01A-11D-2310-10	46099101	205274455	43976166	7	39497										
C1orf35	79169	broad.mit.edu	37	chr1	228289842	228289843	+	Frame_Shift_Ins	INS	-	-	C													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gaggctgccgaggtcccgggINScccgccgctctctacgcggt					rs1128456	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr1:228289842_228289843insC	ENST00000272139.4	-	6	705_706	c.471_472insG	c.(469-474)gggcccfs	p.P158fs	C1orf35_ENST00000472617.1_5'UTR	NM_024319.2	NP_077295.1	Q9BU76	MMTA2_HUMAN	chromosome 1 open reading frame 35	158							poly(A) RNA binding (GO:0044822)			large_intestine(1)|lung(1)|skin(1)	3		Prostate(94;0.0488)				GAGGTCCCGGGCCCGCCGCTCT	0.743																																																0																																										SO:0001589	frameshift_variant	79169			AY137773	CCDS1566.1	1q42.13	2012-06-25			ENSG00000143793	ENSG00000143793			19032	protein-coding gene	gene with protein product	"multiple myeloma tumor-associated protein 2"					12545221	Standard	NM_024319		Approved	MGC4174, MMTAG2	uc001hrx.3	Q9BU76	OTTHUMG00000037793	ENST00000272139.4:c.472dupG	1.37:g.228289845_228289845dupC	ENSP00000272139:p.Pro158fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P5Y0|Q6ZTZ6|Q6ZWA6|Q8IZH3	Frame_Shift_Ins	INS	ENST00000272139.4	37	CCDS1566.1																																																																																				0.743	C1orf35-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092245.1	NM_024319		C	228289843	-	C	228289842	7	5	640	1	0	1	1	0	0	0	0	0	2040	1203	42	0	331	0	C1orf35	1	228289842	Frame_Shift_Ins	INS	-	TCGA-KL-8341-01A-11D-2310-10	23015387	228289842	20960779	8	39498										
GALNT2	2590	broad.mit.edu;mdanderson.org	37	chr1	230372423	230372423	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tagctgaggacggggctctcTtggggaaaattgagaaagtg	16	5	1	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr1:230372423T>C	ENST00000366672.4	+	6	631	c.559T>C	c.(559-561)Ttg>Ctg	p.L187L	GALNT2_ENST00000541865.1_Silent_p.L97L|GALNT2_ENST00000543760.1_Silent_p.L149L	NM_004481.3	NP_004472.1	Q10471	GALT2_HUMAN	polypeptide N-acetylgalactosaminyltransferase 2	187	Catalytic subdomain A.				cellular protein metabolic process (GO:0044267)|immunoglobulin biosynthetic process (GO:0002378)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein O-linked glycosylation (GO:0006493)|protein O-linked glycosylation via serine (GO:0018242)|protein O-linked glycosylation via threonine (GO:0018243)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi stack (GO:0005795)|integral component of Golgi membrane (GO:0030173)|membrane (GO:0016020)|perinuclear region of cytoplasm (GO:0048471)	carbohydrate binding (GO:0030246)|manganese ion binding (GO:0030145)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(10)|ovary(2)|prostate(5)|skin(2)	32	Breast(184;0.193)|Ovarian(103;0.249)	all_cancers(173;0.156)|Prostate(94;0.179)				CGGGGCTCTCTTGGGGAAAAT	0.413																																																0													97	99	98					1																	230372423		2203	4300	6503	SO:0001819	synonymous_variant	2590			BC041120	CCDS1582.1	1q41-q42	2014-03-13	2014-03-13		ENSG00000143641	ENSG00000143641	2.4.1.41	"Glycosyltransferase family 2 domain containing"	4124	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 2"	602274	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 2 (GalNAc-T2)"			9592121, 7592619	Standard	NM_004481		Approved	GalNAc-T2	uc010pwa.1	Q10471	OTTHUMG00000037771	ENST00000366672.4:c.559T>C	1.37:g.230372423T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1Y3|B7Z8V8|C5HU00|Q9NPY4	Silent	SNP	ENST00000366672.4	37	CCDS1582.1																																																																																				0.413	GALNT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092158.1	NM_004481		C	230372423	T	C	230372423	2	2	640	1	0	0	0	0	0	0	0	1	6220	1606	56	3		3	GALNT2	1	230372423	Silent	SNP	T	TCGA-KL-8341-01A-11D-2310-10	2082581	230372423	18878198	9	39499										
OR2T4	127074	broad.mit.edu	37	chr1	248524966	248524967	+	Frame_Shift_Ins	INS	-	-	G													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tcagacaatccaaacatccaINSatggccaatatcacctggat					rs561405021|rs200915140	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr1:248524966_248524967insG	ENST00000366475.1	+	1	84_85	c.84_85insG	c.(85-87)atgfs	p.M29fs		NM_001004696.1	NP_001004696.1	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T, member 4	29						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(3)|liver(2)|lung(47)	56	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)			CCAAACATCCAATGGCCAATAT	0.5																																																0																																										SO:0001589	frameshift_variant	127074			BK004464	CCDS31113.1	1q44	2012-08-09			ENSG00000196944	ENSG00000196944		"GPCR / Class A : Olfactory receptors"	15016	protein-coding gene	gene with protein product							Standard	NM_001004696		Approved	OR2T4Q	uc001ieh.1	Q8NH00	OTTHUMG00000040453	Exception_encountered	1.37:g.248524966_248524967insG	ENSP00000355431:p.Met29fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEZ8	Frame_Shift_Ins	INS	ENST00000366475.1	37	CCDS31113.1																																																																																				0.5	OR2T4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097349.2	NM_001004696		G	248524967	-	G	248524966	7	5	640	1	0	1	1	0	0	0	0	0	11034	117	5	0	86	0	OR2T4	1	248524966	Frame_Shift_Ins	INS	-	TCGA-KL-8341-01A-11D-2310-10	18152543	248524966	725655	10	39500	333	2								
OR2T4	127074	bcgsc.ca	37	chr1	248524967	248524967	+	Missense_Mutation	SNP	A	A	C													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tcagacaatccaaacatccaAtggccaatatcacctggatg					rs200915140	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr1:248524967A>C	ENST00000366475.1	+	1	85	c.85A>C	c.(85-87)Atg>Ctg	p.M29L		NM_001004696.1	NP_001004696.1	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T, member 4	29						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(3)|liver(2)|lung(47)	56	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)			CAAACATCCAATGGCCAATAT	0.498																																																0													108	92	98					1																	248524967		2200	4243	6443	SO:0001583	missense	127074			BK004464	CCDS31113.1	1q44	2012-08-09			ENSG00000196944	ENSG00000196944		"GPCR / Class A : Olfactory receptors"	15016	protein-coding gene	gene with protein product							Standard	NM_001004696		Approved	OR2T4Q	uc001ieh.1	Q8NH00	OTTHUMG00000040453	ENST00000366475.1:c.85A>C	1.37:g.248524967A>C	ENSP00000355431:p.Met29Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEZ8	Missense_Mutation	SNP	ENST00000366475.1	37	CCDS31113.1	.	.	.	.	.	.	.	.	.	.	A	7.539	0.660235	0.14645	.	.	ENSG00000196944	ENST00000366475	T	0.01505	4.82	1.03	1.03	0.20045	.	0.000000	0.50627	D	0.000118	T	0.01287	0.0042	L	0.27053	0.805	0.09310	N	1	B	0.10296	0.003	B	0.08055	0.003	T	0.47142	-0.9140	10	0.59425	D	0.04	.	1.7485	0.02967	0.4978:0.0:0.2193:0.2829	.	29	Q8NH00	OR2T4_HUMAN	L	29	ENSP00000355431:M29L	ENSP00000355431:M29L	M	+	1	0	OR2T4	246591590	0.804000	0.28969	0.451000	0.26982	0.234000	0.25298	0.925000	0.28791	0.382000	0.24878	0.076000	0.15429	ATG		0.498	OR2T4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097349.2	NM_001004696		C	248524967	A	C	248524967	3	2	640	1	0	0	0	0	1	0	0	0	11034	101	4	5	87	5	OR2T4	1	248524967	Missense_Mutation	SNP	A	TCGA-KL-8341-01A-11D-2310-10	1	248524967	725654	11	39501	333	2								
RANBP2	5903	broad.mit.edu	37	chr2	109383357	109383357	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tggtgatgccaaactagagcAgttggcagcaaaatttaaaa	10	6	0	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr2:109383357A>G	ENST00000283195.6	+	20	6488	c.6362A>G	c.(6361-6363)cAg>cGg	p.Q2121R		NM_006267.4	NP_006258.3	P49792	RBP2_HUMAN	RAN binding protein 2	2121	RanBD1 2. {ECO:0000255|PROSITE- ProRule:PRU00164}.				carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|negative regulation of glucokinase activity (GO:0033132)|protein folding (GO:0006457)|protein import into nucleus (GO:0006606)|protein sumoylation (GO:0016925)|regulation of gluconeogenesis involved in cellular glucose homeostasis (GO:0090526)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nuclear inclusion body (GO:0042405)|nuclear membrane (GO:0031965)|nuclear pore (GO:0005643)|nuclear pore nuclear basket (GO:0044615)	ligase activity (GO:0016874)|peptidyl-prolyl cis-trans isomerase activity (GO:0003755)|Ran GTPase binding (GO:0008536)|RNA binding (GO:0003723)|zinc ion binding (GO:0008270)	p.Q2121R(6)	RANBP2/ALK(34)	NS(1)|biliary_tract(1)|breast(3)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(21)|large_intestine(19)|lung(51)|pancreas(1)|prostate(8)|skin(7)|upper_aerodigestive_tract(2)|urinary_tract(1)	129						AAACTAGAGCAGTTGGCAGCA	0.453																																																6	Substitution - Missense(6)	skin(6)											117	126	123					2																	109383357		2184	4241	6425	SO:0001583	missense	5903			D42063	CCDS2079.1	2q13	2013-11-14			ENSG00000153201	ENSG00000153201		"Tetratricopeptide (TTC) repeat domain containing"	9848	protein-coding gene	gene with protein product		601181	"acute necrotizing encephalopathy 1 (autosomal dominant)"	ANE1		7724562, 19118815	Standard	NM_006267		Approved	NUP358, ADANE	uc002tem.4	P49792	OTTHUMG00000130981	ENST00000283195.6:c.6362A>G	2.37:g.109383357A>G	ENSP00000283195:p.Gln2121Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q13074|Q15280|Q53TE2|Q59FH7	Missense_Mutation	SNP	ENST00000283195.6	37	CCDS2079.1	.	.	.	.	.	.	.	.	.	.	A	14.65	2.598113	0.46318	.	.	ENSG00000153201	ENST00000409491;ENST00000283195	T	0.46451	0.87	5.6	5.6	0.85130	Pleckstrin homology-type (1);Ran binding protein 1 (3);	.	.	.	.	T	0.58736	0.2143	L	0.51422	1.61	0.44098	D	0.996863	D	0.76494	0.999	D	0.83275	0.996	T	0.55611	-0.8114	9	0.35671	T	0.21	-3.8912	15.7943	0.78398	1.0:0.0:0.0:0.0	.	2121	P49792	RBP2_HUMAN	R	1145;2121	ENSP00000283195:Q2121R	ENSP00000283195:Q2121R	Q	+	2	0	RANBP2	108749789	1.000000	0.71417	0.999000	0.59377	0.994000	0.84299	9.339000	0.96797	2.119000	0.64992	0.455000	0.32223	CAG		0.453	RANBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253594.1	NM_006267		G	109383357	A	G	109383357	3	3	640	1	0	0	0	0	1	0	0	0	13041	188	7	3	6440	3	RANBP2	2	109383357	Missense_Mutation	SNP	A	TCGA-KL-8341-01A-11D-2310-10		109383357	133816016	12	39502										
POTEE	445582	mdanderson.org	37	chr2	132021815	132021815	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ttcgagcaggagatggccacGgcggcctccagctcctccct	12	16	0	1	rs369764537	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr2:132021815G>A	ENST00000356920.5	+	15	2881	c.2787G>A	c.(2785-2787)acG>acA	p.T929T	PLEKHB2_ENST00000404460.1_Intron|PLEKHB2_ENST00000303908.3_Intron|POTEE_ENST00000358087.5_3'UTR	NM_001083538.1	NP_001077007.1	Q6S8J3	POTEE_HUMAN	POTE ankyrin domain family, member E	929	Actin-like.				retina homeostasis (GO:0001895)|substantia nigra development (GO:0021762)	blood microparticle (GO:0072562)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)											AGATGGCCACGGCGGCCTCCA	0.617													.|||	283	0.0565096	0.0893	0.0447	5008	,	,		43636	0.0069		0.0795	False		,,,				2504	0.0481															0													141	156	151					2																	132021815		2201	4297	6498	SO:0001819	synonymous_variant	445582			AY462868	CCDS46414.1	2q21.1	2014-04-10	2008-11-26	2008-11-26	ENSG00000188219	ENSG00000188219		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33895	protein-coding gene	gene with protein product	"cancer/testis antigen family 104, member 2"	608914	"ANKRD26-like family C, member 1A"	A26C1A			Standard	NM_001083538		Approved	POTE2, POTE-2, A26C1, POTE2gamma, CT104.2	uc002tsn.2	Q6S8J3	OTTHUMG00000186974	ENST00000356920.5:c.2787G>A	2.37:g.132021815G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6S8J4|Q6S8J5|Q6S8J8	Silent	SNP	ENST00000356920.5	37	CCDS46414.1																																																																																				0.617	POTEE-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001083538		A	132021815	G	A	132021815	2	1	640	1	0	0	0	0	0	0	0	1	12271	1103	39	1		1	POTEE	2	132021815	Silent	SNP	G	TCGA-KL-8341-01A-11D-2310-10	22638458	132021815	111177558	13	39503										
ZDBF2	57683	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	207171302	207171302	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ctgaccagtctcaagtagccGaaatagagcgtcagaaagtg	11	9	2	3			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr2:207171302G>A	ENST00000374423.3	+	5	2436	c.2050G>A	c.(2050-2052)Gaa>Aaa	p.E684K		NM_020923.1	NP_065974.1	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	684							nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)			endometrium(4)|kidney(5)|large_intestine(28)|lung(50)|ovary(4)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	95						TCAAGTAGCCGAAATAGAGCG	0.443																																																0													71	71	71					2																	207171302		1896	4124	6020	SO:0001583	missense	57683			AB046791	CCDS46501.1, CCDS74637.1	2q33.3	2013-01-10			ENSG00000204186	ENSG00000204186		"Zinc fingers, DBF-type"	29313	protein-coding gene	gene with protein product						10997877	Standard	XM_005246711		Approved	FLJ45338, KIAA1571	uc002vbp.2	Q9HCK1	OTTHUMG00000154648	ENST00000374423.3:c.2050G>A	2.37:g.207171302G>A	ENSP00000363545:p.Glu684Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZNP7|Q6ZSN8	Missense_Mutation	SNP	ENST00000374423.3	37	CCDS46501.1	.	.	.	.	.	.	.	.	.	.	G	9.409	1.079934	0.20309	.	.	ENSG00000204186	ENST00000374423	T	0.58652	0.32	3.75	1.97	0.26223	.	0.000000	0.39083	N	0.001470	T	0.31420	0.0796	L	0.31526	0.94	0.09310	N	1	P	0.38223	0.623	B	0.25405	0.06	T	0.15492	-1.0435	10	0.13853	T	0.58	.	6.1828	0.20480	0.2301:0.0:0.7699:0.0	.	684	Q9HCK1	ZDBF2_HUMAN	K	684	ENSP00000363545:E684K	ENSP00000363545:E684K	E	+	1	0	ZDBF2	206879547	0.616000	0.27035	0.003000	0.11579	0.001000	0.01503	1.340000	0.33896	0.585000	0.29608	-0.119000	0.15052	GAA		0.443	ZDBF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336458.1	NM_020923		A	207171302	G	A	207171302	3	1	640	1	0	0	0	0	1	0	0	0	17611	1059	37	1	2060	1	ZDBF2	2	207171302	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	75149487	207171302	36028071	14	39504										
SMARCAL1	50485	broad.mit.edu	37	chr2	217340073	217340073	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	agcagttccaactgtcggagAggcatgctgtggccgtgctg	15	10	0	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr2:217340073A>G	ENST00000357276.4	+	15	2656	c.2326A>G	c.(2326-2328)Agg>Ggg	p.R776G	SMARCAL1_ENST00000358207.5_Missense_Mutation_p.R776G	NM_014140.3	NP_054859.2	Q9NZC9	SMAL1_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a-like 1	776	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				cellular response to DNA damage stimulus (GO:0006974)|chromatin modification (GO:0016568)|DNA metabolic process (GO:0006259)|DNA strand renaturation (GO:0000733)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|replication fork processing (GO:0031297)	nucleus (GO:0005634)|site of double-strand break (GO:0035861)	annealing helicase activity (GO:0036310)|ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA-dependent ATPase activity (GO:0008094)|helicase activity (GO:0004386)			NS(1)|breast(3)|endometrium(4)|kidney(3)|large_intestine(10)|liver(1)|lung(15)|ovary(3)|prostate(1)|skin(1)	42		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		ACTGTCGGAGAGGCATGCTGT	0.607									Schimke Immuno-Osseous Dysplasia																																							0													129	110	117					2																	217340073		2203	4300	6503	SO:0001583	missense	50485	Familial Cancer Database	SIOD	AF210833	CCDS2403.1	2q35	2014-09-17			ENSG00000138375	ENSG00000138375			11102	protein-coding gene	gene with protein product	"HepA-related protein", "ATP-driven annealing helicase"	606622				10713074, 10857751, 18974355	Standard	NM_014140		Approved	HHARP, HARP	uc002vgd.4	Q9NZC9	OTTHUMG00000133055	ENST00000357276.4:c.2326A>G	2.37:g.217340073A>G	ENSP00000349823:p.Arg776Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEH0|Q53R00|Q96AY1|Q9NXQ5|Q9UFH3|Q9UI93	Missense_Mutation	SNP	ENST00000357276.4	37	CCDS2403.1	.	.	.	.	.	.	.	.	.	.	A	3.685	-0.064660	0.07273	.	.	ENSG00000138375	ENST00000357276;ENST00000358207;ENST00000392128	D;D;T	0.91894	-2.93;-2.93;-0.91	5.06	1.2	0.21068	Helicase, C-terminal (3);	0.413963	0.27544	N	0.018889	T	0.76076	0.3937	N	0.04148	-0.265	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.61922	-0.6963	10	0.14252	T	0.57	-4.4374	4.8558	0.13559	0.6577:0.1566:0.1857:0.0	.	776	Q9NZC9	SMAL1_HUMAN	G	776;776;618	ENSP00000349823:R776G;ENSP00000350940:R776G;ENSP00000375974:R618G	ENSP00000349823:R776G	R	+	1	2	SMARCAL1	217048318	0.156000	0.22821	0.127000	0.21898	0.067000	0.16453	0.614000	0.24314	0.047000	0.15862	0.528000	0.53228	AGG		0.607	SMARCAL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256671.2			G	217340073	A	G	217340073	3	3	640	1	0	0	0	0	1	0	0	0	14786	295	11	3	2376	3	SMARCAL1	2	217340073	Missense_Mutation	SNP	A	TCGA-KL-8341-01A-11D-2310-10	10168771	217340073	25859300	15	39505										
GLB1L	79411	broad.mit.edu;mdanderson.org	37	chr2	220102299	220102299	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	taaaattggaaatgttttggAgtagaatgtggggccagaag	14	2	0	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr2:220102299A>G	ENST00000295759.7	-	16	1937	c.1624T>C	c.(1624-1626)Tcc>Ccc	p.S542P	GLB1L_ENST00000392089.2_Missense_Mutation_p.S542P|GLB1L_ENST00000409640.1_Missense_Mutation_p.S452P|GLB1L_ENST00000356283.3_Missense_Mutation_p.S452P|GLB1L_ENST00000497855.1_5'UTR			Q6UWU2	GLB1L_HUMAN	galactosidase, beta 1-like	542					carbohydrate metabolic process (GO:0005975)	extracellular region (GO:0005576)	beta-galactosidase activity (GO:0004565)			breast(1)|endometrium(3)|kidney(2)|large_intestine(5)|lung(7)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	22		all_lung(227;1.19e-05)|Lung NSC(271;2.76e-05)|Medulloblastoma(418;0.0208)|Esophageal squamous(248;0.0559)		Epithelial(149;1.3e-11)|all cancers(144;2.07e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AATGTTTTGGAGTAGAATGTG	0.468																																																0													80	82	81					2																	220102299		2203	4300	6503	SO:0001583	missense	79411				CCDS2437.1, CCDS74657.1	2q36.1	2008-02-05			ENSG00000163521	ENSG00000163521			28129	protein-coding gene	gene with protein product						12975309	Standard	XM_005246850		Approved	MGC10771	uc002vkm.3	Q6UWU2	OTTHUMG00000133133	ENST00000295759.7:c.1624T>C	2.37:g.220102299A>G	ENSP00000295759:p.Ser542Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q96DR0	Missense_Mutation	SNP	ENST00000295759.7	37	CCDS2437.1	.	.	.	.	.	.	.	.	.	.	A	9.019	0.984337	0.18889	.	.	ENSG00000163521	ENST00000295759;ENST00000409640;ENST00000392089;ENST00000356283	D;D;D;D	0.94232	-3.38;-3.38;-3.38;-3.38	5.09	5.09	0.68999	Galactose-binding domain-like (1);	0.447334	0.23904	N	0.043415	D	0.94026	0.8086	L	0.54323	1.7	0.42832	D	0.994029	D;D	0.71674	0.998;0.965	P;P	0.62649	0.905;0.579	D	0.92708	0.6180	10	0.37606	T	0.19	-17.0788	8.4212	0.32700	0.7088:0.0:0.0:0.2912	.	452;542	Q6UWU2-2;Q6UWU2	.;GLB1L_HUMAN	P	542;452;542;452	ENSP00000295759:S542P;ENSP00000386354:S452P;ENSP00000375939:S542P;ENSP00000348628:S452P	ENSP00000295759:S542P	S	-	1	0	GLB1L	219810543	1.000000	0.71417	0.996000	0.52242	0.745000	0.42441	2.209000	0.42806	2.129000	0.65627	0.533000	0.62120	TCC		0.468	GLB1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256822.2	NM_024506		G	220102299	A	G	220102299	3	3	640	1	0	0	0	0	1	0	0	0	6435	304	11	3	348	3	GLB1L	2	220102299	Missense_Mutation	SNP	A	TCGA-KL-8341-01A-11D-2310-10	2762226	220102299	23097074	16	39506										
ZCWPW2	152098	mdanderson.org;bcgsc.ca	37	chr3	28533617	28533617	+	Splice_Site	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ccatgtttcattgtcttacaGataaatccgaaacacatgac	5	10	2	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr3:28533617G>A	ENST00000383768.2	+	6	798		c.e6-1		ZCWPW2_ENST00000421010.1_Splice_Site			Q504Y3	ZCPW2_HUMAN	zinc finger, CW type with PWWP domain 2								zinc ion binding (GO:0008270)			haematopoietic_and_lymphoid_tissue(1)|large_intestine(8)|lung(6)|ovary(2)	17						TTGTCTTACAGATAAATCCGA	0.294																																																0													54	53	53					3																	28533617		2203	4300	6503	SO:0001630	splice_region_variant	152098			BC065764	CCDS33723.1	3p23	2005-08-22			ENSG00000206559	ENSG00000206559			23574	protein-coding gene	gene with protein product						14607086	Standard	XM_005264892		Approved	ZCW2	uc003cei.3	Q504Y3	OTTHUMG00000155705	ENST00000383768.2:c.611-1G>A	3.37:g.28533617G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Splice_Site	SNP	ENST00000383768.2	37	CCDS33723.1	.	.	.	.	.	.	.	.	.	.	G	13.11	2.140642	0.37825	.	.	ENSG00000206559	ENST00000383768;ENST00000421010;ENST00000419130	.	.	.	4.96	4.96	0.65561	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.0497	0.64727	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	ZCWPW2	28508621	1.000000	0.71417	1.000000	0.80357	0.369000	0.29798	4.393000	0.59665	2.444000	0.82710	0.650000	0.86243	.		0.294	ZCWPW2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341318.1	XM_087384	Intron	A	28533617	G	A	28533617	5	1	640	1	0	0	0	0	0	0	1	0	17610	956	33	2	624	2	ZCWPW2	3	28533617	Splice_Site	SNP	G	TCGA-KL-8341-01A-11D-2310-10		28533617	169488813	17	39507										
ZCWPW2	152098	mdanderson.org	37	chr3	28533652	28533652	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	catgacaaagttgctgcactGgtcaagaaaagggtaagatt	11	6	1	3			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr3:28533652G>A	ENST00000383768.2	+	6	833	c.645G>A	c.(643-645)ctG>ctA	p.L215L	ZCWPW2_ENST00000421010.1_Silent_p.L215L			Q504Y3	ZCPW2_HUMAN	zinc finger, CW type with PWWP domain 2	215							zinc ion binding (GO:0008270)			haematopoietic_and_lymphoid_tissue(1)|large_intestine(8)|lung(6)|ovary(2)	17						TTGCTGCACTGGTCAAGAAAA	0.274																																																0													50	48	49					3																	28533652		2203	4300	6503	SO:0001819	synonymous_variant	152098			BC065764	CCDS33723.1	3p23	2005-08-22			ENSG00000206559	ENSG00000206559			23574	protein-coding gene	gene with protein product						14607086	Standard	XM_005264892		Approved	ZCW2	uc003cei.3	Q504Y3	OTTHUMG00000155705	ENST00000383768.2:c.645G>A	3.37:g.28533652G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000383768.2	37	CCDS33723.1	.	.	.	.	.	.	.	.	.	.	G	0.010	-1.746957	0.00669	.	.	ENSG00000206559	ENST00000419130	.	.	.	4.72	-1.03	0.10102	.	.	.	.	.	T	0.21427	0.0516	.	.	.	0.09310	N	1	.	.	.	.	.	.	T	0.26258	-1.0108	4	.	.	.	-0.0659	3.4655	0.07548	0.4763:0.0:0.3375:0.1862	.	.	.	.	S	100	.	.	G	+	1	0	ZCWPW2	28508656	0.200000	0.23398	0.055000	0.19348	0.007000	0.05969	0.266000	0.18534	-0.063000	0.13065	-0.175000	0.13238	GGT		0.274	ZCWPW2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341318.1	XM_087384		A	28533652	G	A	28533652	2	1	640	1	0	0	0	0	0	0	0	1	17610	1335	47	2		2	ZCWPW2	3	28533652	Silent	SNP	G	TCGA-KL-8341-01A-11D-2310-10	35	28533652	169488778	18	39508										
GADL1	339896	broad.mit.edu;mdanderson.org	37	chr3	30875422	30875422	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tgggttccaggccacagagtCagccctattgtttaaacaaa	9	10	1	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr3:30875422C>T	ENST00000282538.5	-	11	1123	c.973G>A	c.(973-975)Gac>Aac	p.D325N	GADL1_ENST00000454381.3_Missense_Mutation_p.D325N	NM_207359.2	NP_997242.2	Q6ZQY3	GADL1_HUMAN	glutamate decarboxylase-like 1	325					carboxylic acid metabolic process (GO:0019752)		aspartate 1-decarboxylase activity (GO:0004068)|pyridoxal phosphate binding (GO:0030170)|sulfinoalanine decarboxylase activity (GO:0004782)			breast(2)|endometrium(3)|kidney(2)|lung(17)|upper_aerodigestive_tract(1)	25						GCCACAGAGTCAGCCCTATTG	0.443																																																0													71	71	71					3																	30875422		2203	4300	6503	SO:0001583	missense	339896			AK128643	CCDS2649.2	3p23-p22	2009-01-14			ENSG00000144644	ENSG00000144644			27949	protein-coding gene	gene with protein product		615601					Standard	NM_207359		Approved		uc003cep.2	Q6ZQY3	OTTHUMG00000130621	ENST00000282538.5:c.973G>A	3.37:g.30875422C>T	ENSP00000282538:p.Asp325Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000282538.5	37	CCDS2649.2	.	.	.	.	.	.	.	.	.	.	C	9.606	1.130022	0.21041	.	.	ENSG00000144644	ENST00000282538;ENST00000454381	T;T	0.59364	0.27;0.27	5.87	4.09	0.47781	Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (1);Pyridoxal phosphate-dependent transferase, major domain (1);	0.158366	0.52532	N	0.000077	T	0.49406	0.1555	L	0.52011	1.625	0.37537	D	0.918172	B	0.13594	0.008	B	0.22753	0.041	T	0.50171	-0.8859	10	0.26408	T	0.33	.	10.3869	0.44145	0.0:0.7953:0.0:0.2047	.	325	Q6ZQY3	GADL1_HUMAN	N	325	ENSP00000282538:D325N;ENSP00000427059:D325N	ENSP00000282538:D325N	D	-	1	0	GADL1	30850426	0.745000	0.28261	0.989000	0.46669	0.920000	0.55202	0.951000	0.29135	1.498000	0.48600	-0.140000	0.14226	GAC		0.443	GADL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253106.2	NM_207359		T	30875422	C	T	30875422	3	4	640	1	0	0	0	0	1	0	0	0	6192	826	29	2	612	2	GADL1	3	30875422	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	2341770	30875422	167147008	19	39509										
ERC2	26059	broad.mit.edu;hgsc.bcm.edu	37	chr3	55984500	55984502	+	In_Frame_Del	DEL	CTT	CTT	-													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gctgtcttctcgcctgcgcaCttcttctagtaactgagcat							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr3:55984500_55984502delCTT	ENST00000288221.6	-	13	2609_2611	c.2354_2356delAAG	c.(2353-2358)gaagtg>gtg	p.E785del		NM_015576.1	NP_056391.1	O15083	ERC2_HUMAN	ELKS/RAB6-interacting/CAST family member 2	785						cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|growth cone (GO:0030426)|presynaptic active zone (GO:0048786)|presynaptic membrane (GO:0042734)				breast(2)|endometrium(5)|large_intestine(6)|liver(1)|lung(14)|ovary(2)|urinary_tract(1)	31				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		CGCCTGCGCACTTCTTCTAGTAA	0.433																																																0																																										SO:0001651	inframe_deletion	26059			AB002376	CCDS46851.1	3p14.3	2006-08-14			ENSG00000187672	ENSG00000187672			31922	protein-coding gene	gene with protein product							Standard	NM_015576		Approved	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL	uc003dhr.1	O15083	OTTHUMG00000158390	ENST00000288221.6:c.2354_2356delAAG	3.37:g.55984503_55984505delCTT	ENSP00000288221:p.Glu785del	Somatic		WXS	Illumina HiSeq	Phase_I	Q2T9F6|Q86TK4	In_Frame_Del	DEL	ENST00000288221.6	37	CCDS46851.1																																																																																				0.433	ERC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350884.2	NM_015576		-	55984502	CTT	-	55984500	7	5	640	1	0	1	0	1	0	0	0	0	5213	565	20	0	537	0	ERC2	3	55984500	In_Frame_Del	DEL	CTT	TCGA-KL-8341-01A-11D-2310-10	25109078	55984500	142037930	20	39510	334	2								
ERC2	26059	bcgsc.ca	37	chr3	55984501	55984503	+	In_Frame_Del	DEL	CTT	CTT	-													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ctgtcttctcgcctgcgcacTtcttctagtaactgagcatt							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr3:55984501_55984503delCTT	ENST00000288221.6	-	13	2608_2610	c.2353_2355delAAG	c.(2353-2355)aagdel	p.K785del		NM_015576.1	NP_056391.1	O15083	ERC2_HUMAN	ELKS/RAB6-interacting/CAST family member 2	785						cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|growth cone (GO:0030426)|presynaptic active zone (GO:0048786)|presynaptic membrane (GO:0042734)				breast(2)|endometrium(5)|large_intestine(6)|liver(1)|lung(14)|ovary(2)|urinary_tract(1)	31				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		GCCTGCGCACTTCTTCTAGTAAC	0.433																																																0																																										SO:0001651	inframe_deletion	26059			AB002376	CCDS46851.1	3p14.3	2006-08-14			ENSG00000187672	ENSG00000187672			31922	protein-coding gene	gene with protein product							Standard	NM_015576		Approved	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL	uc003dhr.1	O15083	OTTHUMG00000158390	ENST00000288221.6:c.2353_2355delAAG	3.37:g.55984501_55984503delCTT	ENSP00000288221:p.Lys785del	Somatic		WXS	Illumina HiSeq	Phase_I	Q2T9F6|Q86TK4	In_Frame_Del	DEL	ENST00000288221.6	37	CCDS46851.1																																																																																				0.433	ERC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350884.2	NM_015576		-	55984503	CTT	-	55984501	7	5	640	1	0	1	0	1	0	0	0	0	5213	1606	56	0	538	0	ERC2	3	55984501	In_Frame_Del	DEL	CTT	TCGA-KL-8341-01A-11D-2310-10	1	55984501	142037929	21	39511	334	2								
FAM116A	201627	ucsc.edu;bcgsc.ca	37	chr3	57631404	57631404	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ttacggagcttgggtacgggTagtatattctttgaattcac	11	6	2	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr3:57631404T>C	ENST00000311128.5	-	11	1091	c.1021A>G	c.(1021-1023)Acc>Gcc	p.T341A	RP11-755B10.2_ENST00000470427.1_RNA	NM_152678.2	NP_689891.1	Q8IWF6	DEN6A_HUMAN	DENN/MADD domain containing 6A	341					positive regulation of cell-cell adhesion mediated by cadherin (GO:2000049)|positive regulation of Rab GTPase activity (GO:0032851)	cytoplasm (GO:0005737)|recycling endosome (GO:0055037)	Rab guanyl-nucleotide exchange factor activity (GO:0017112)										TGGGTACGGGTAGTATATTCT	0.328																																																0													98	100	99					3																	57631404		2203	4299	6502	SO:0001583	missense	201627			AK074156	CCDS33773.1	3p14.3	2013-10-11	2012-10-03	2012-10-03	ENSG00000174839	ENSG00000174839		"DENN/MADD domain containing"	26635	protein-coding gene	gene with protein product			"family with sequence similarity 116, member A"	FAM116A		21330364	Standard	NM_152678		Approved	FLJ34969, AFI1A	uc003dja.3	Q8IWF6	OTTHUMG00000158639	ENST00000311128.5:c.1021A>G	3.37:g.57631404T>C	ENSP00000311401:p.Thr341Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z5T4|Q8N235|Q8TEG8	Missense_Mutation	SNP	ENST00000311128.5	37	CCDS33773.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	16.92|16.92	3.256206|3.256206	0.59321|0.59321	.|.	.|.	ENSG00000174839|ENSG00000174839	ENST00000311128|ENST00000477344	.|.	.|.	.|.	6.06|6.06	6.06|6.06	0.98353|0.98353	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.69851|0.69851	0.3157|0.3157	L|L	0.53671|0.53671	1.685|1.685	0.80722|0.80722	D|D	1|1	D|.	0.54397|.	0.966|.	P|.	0.60117|.	0.869|.	T|T	0.67277|0.67277	-0.5711|-0.5711	9|5	0.25751|.	T|.	0.34|.	-28.4431|-28.4431	16.286|16.286	0.82722|0.82722	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	341|.	Q8IWF6|.	F116A_HUMAN|.	A|C	341|109	.|.	ENSP00000311401:T341A|.	T|Y	-|-	1|2	0|0	FAM116A|FAM116A	57606444|57606444	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	7.050000|7.050000	0.76620|0.76620	2.323000|2.323000	0.78572|0.78572	0.528000|0.528000	0.53228|0.53228	ACC|TAC		0.328	DENND6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351594.1	NM_152678		C	57631404	T	C	57631404	3	2	640	1	0	0	0	0	1	0	0	0	5411	1638	57	3	845	3	FAM116A	3	57631404	Missense_Mutation	SNP	T	TCGA-KL-8341-01A-11D-2310-10	1646903	57631404	140391026	22	39512										
OR5H6	79295	mdanderson.org	37	chr3	97983602	97983602	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	atgaccaatgaactatgcatTcagctattagtcttgtcatt	6	8	3	2	rs75354046	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr3:97983602T>C	ENST00000383696.2	+	1	515	c.474T>C	c.(472-474)atT>atC	p.I158I	RP11-325B23.2_ENST00000508616.1_lincRNA	NM_001005479.1	NP_001005479.1	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H, member 6 (gene/pseudogene)	158						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			cervix(2)|endometrium(1)|large_intestine(4)|lung(20)|ovary(1)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	34						AACTATGCATTCAGCTATTAG	0.358																																																0													109	102	104					3																	97983602		2203	4299	6502	SO:0001819	synonymous_variant	79295			BK004374	CCDS33800.1	3q12.1	2013-10-10	2013-10-10		ENSG00000230301	ENSG00000230301		"GPCR / Class A : Olfactory receptors"	14767	protein-coding gene	gene with protein product			"olfactory receptor, family 5, subfamily H, member 6"				Standard	NM_001005479		Approved		uc003dsi.1	Q8NGV6	OTTHUMG00000160078	ENST00000383696.2:c.474T>C	3.37:g.97983602T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF88	Silent	SNP	ENST00000383696.2	37	CCDS33800.1																																																																																				0.358	OR5H6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359111.2			C	97983602	T	C	97983602	2	2	640	1	0	0	0	0	0	0	0	1	11170	1771	62	3		3	OR5H6	3	97983602	Silent	SNP	T	TCGA-KL-8341-01A-11D-2310-10	40352198	97983602	100038828	23	39513										
HEG1	57493	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	124692706	124692706	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	atacggggacatttggaaatCtccacttttgaagatgagtt	10	6	1	3			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr3:124692706C>G	ENST00000311127.4	-	16	3932	c.3865G>C	c.(3865-3867)Gat>Cat	p.D1289H		NM_020733.1	NP_065784.1	Q9ULI3	HEG1_HUMAN	heart development protein with EGF-like domains 1	1289					cardiac atrium morphogenesis (GO:0003209)|cell-cell junction assembly (GO:0007043)|endothelial cell morphogenesis (GO:0001886)|in utero embryonic development (GO:0001701)|lung development (GO:0030324)|lymph circulation (GO:0003017)|lymph vessel development (GO:0001945)|multicellular organism growth (GO:0035264)|pericardium development (GO:0060039)|post-embryonic development (GO:0009791)|regulation of body fluid levels (GO:0050878)|vasculogenesis (GO:0001570)|venous blood vessel morphogenesis (GO:0048845)|ventricular septum development (GO:0003281)	cell-cell junction (GO:0005911)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)	p.D1289Y(1)		breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(7)|lung(24)|ovary(2)|urinary_tract(4)	47						ATTTGGAAATCTCCACTTTTG	0.373																																																1	Substitution - Missense(1)	lung(1)											132	129	130					3																	124692706		1826	4087	5913	SO:0001583	missense	57493			AK074987	CCDS46898.1	3q21.2	2013-03-08	2013-03-08		ENSG00000173706	ENSG00000173706			29227	protein-coding gene	gene with protein product	"heart of glass"	614182	"HEG homolog 1 (zebrafish)"			10574462, 19151727, 23007647	Standard	NM_020733		Approved	KIAA1237, HEG	uc003ehs.4	Q9ULI3	OTTHUMG00000159486	ENST00000311127.4:c.3865G>C	3.37:g.124692706C>G	ENSP00000311502:p.Asp1289His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NX66|Q8NC40|Q9BSV0	Missense_Mutation	SNP	ENST00000311127.4	37	CCDS46898.1	.	.	.	.	.	.	.	.	.	.	C	24.1	4.491807	0.84962	.	.	ENSG00000173706	ENST00000311127;ENST00000487661	D;T	0.93247	-3.19;0.37	4.97	4.97	0.65823	.	0.000000	0.39834	U	0.001241	D	0.93956	0.8065	N	0.19112	0.55	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.95217	0.8330	10	0.87932	D	0	.	18.4352	0.90643	0.0:1.0:0.0:0.0	.	1289	Q9ULI3	HEG1_HUMAN	H	1289;173	ENSP00000311502:D1289H;ENSP00000417648:D173H	ENSP00000311502:D1289H	D	-	1	0	HEG1	126175396	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	7.273000	0.78527	2.577000	0.86979	0.655000	0.94253	GAT		0.373	HEG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355732.2	XM_087386		G	124692706	C	G	124692706	3	3	640	1	0	0	0	0	1	0	0	0	7051	913	32	4	288	4	HEG1	3	124692706	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	26709104	124692706	73329724	24	39514										
PIK3CB	5291	broad.mit.edu	37	chr3	138433374	138433374	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tagttttcgttgatttcttcGtttttactttatccaaaact	4	7	1	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr3:138433374G>T	ENST00000477593.1	-	8	1311	c.1238C>A	c.(1237-1239)aCg>aAg	p.T413K	PIK3CB_ENST00000289153.2_Missense_Mutation_p.T413K|PIK3CB_ENST00000544716.1_5'Flank			P42338	PK3CB_HUMAN	phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit beta	413	C2 PI3K-type. {ECO:0000255|PROSITE- ProRule:PRU00880}.				activation of MAPK activity (GO:0000187)|autophagy (GO:0006914)|blood coagulation (GO:0007596)|cell migration (GO:0016477)|cellular calcium ion homeostasis (GO:0006874)|chemotaxis (GO:0006935)|embryonic cleavage (GO:0040016)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|leukocyte migration (GO:0050900)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet activation (GO:0030168)|platelet aggregation (GO:0070527)|positive regulation of autophagy (GO:0010508)|regulation of cell-matrix adhesion (GO:0001952)|regulation of clathrin-mediated endocytosis (GO:2000369)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|T cell receptor signaling pathway (GO:0050852)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cytosol (GO:0005829)|nucleus (GO:0005634)|phosphatidylinositol 3-kinase complex (GO:0005942)|plasma membrane (GO:0005886)	1-phosphatidylinositol-3-kinase activity (GO:0016303)|1-phosphatidylinositol-4-phosphate 3-kinase activity (GO:0035005)|ATP binding (GO:0005524)|phosphatidylinositol 3-kinase activity (GO:0035004)|phosphatidylinositol-4,5-bisphosphate 3-kinase activity (GO:0046934)			NS(1)|breast(3)|endometrium(5)|kidney(2)|large_intestine(4)|lung(17)|ovary(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(4)	41					Caffeine(DB00201)	TGATTTCTTCGTTTTTACTTT	0.318																																																0													157	147	150					3																	138433374		2203	4300	6503	SO:0001583	missense	5291				CCDS3104.1	3q22.3	2013-09-19	2012-07-13		ENSG00000051382	ENSG00000051382	2.7.1.153		8976	protein-coding gene	gene with protein product		602925	"phosphoinositide-3-kinase, catalytic, beta polypeptide"	PIK3C1		8246984	Standard	NM_006219		Approved		uc011bmq.3	P42338	OTTHUMG00000159893	ENST00000477593.1:c.1238C>A	3.37:g.138433374G>T	ENSP00000418143:p.Thr413Lys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNF0|Q24JU2	Missense_Mutation	SNP	ENST00000477593.1	37	CCDS3104.1	.	.	.	.	.	.	.	.	.	.	G	11.55	1.672458	0.29693	.	.	ENSG00000051382	ENST00000477593;ENST00000289153	T;T	0.69040	-0.37;-0.37	5.46	4.59	0.56863	C2 calcium/lipid-binding domain, CaLB (1);Phosphoinositide 3-kinase, C2 (2);	0.229090	0.43416	D	0.000566	T	0.28499	0.0705	N	0.00642	-1.3	0.80722	D	1	B;B	0.06786	0.001;0.0	B;B	0.10450	0.005;0.002	T	0.30995	-0.9959	10	0.06099	T	0.92	-12.2416	8.7016	0.34329	0.0764:0.0:0.7742:0.1494	.	413;17	P42338;B4DZI3	PK3CB_HUMAN;.	K	413	ENSP00000418143:T413K;ENSP00000289153:T413K	ENSP00000289153:T413K	T	-	2	0	PIK3CB	139916064	1.000000	0.71417	0.992000	0.48379	0.996000	0.88848	5.529000	0.67135	1.437000	0.47472	0.650000	0.86243	ACG		0.318	PIK3CB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358019.1			T	138433374	G	T	138433374	3	4	640	1	0	0	0	0	1	0	0	0	11921	1145	40	4	2036	4	PIK3CB	3	138433374	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	13740668	138433374	59589056	25	39515										
CPA3	1359	broad.mit.edu;mdanderson.org	37	chr3	148583133	148583133	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gtgggtttgattgctaccacTcttgcaattgctcctgtccg	10	11	1	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr3:148583133T>C	ENST00000296046.3	+	1	91	c.39T>C	c.(37-39)acT>acC	p.T13T	RP11-680B3.2_ENST00000488190.1_RNA	NM_001870.2	NP_001861.2	P15088	CBPA3_HUMAN	carboxypeptidase A3 (mast cell)	13					angiotensin maturation (GO:0002003)|cellular protein metabolic process (GO:0044267)|proteolysis (GO:0006508)	extracellular region (GO:0005576)|secretory granule (GO:0030141)	metallocarboxypeptidase activity (GO:0004181)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|endometrium(1)|large_intestine(3)|lung(20)|prostate(1)|skin(3)|upper_aerodigestive_tract(3)	35			LUSC - Lung squamous cell carcinoma(72;0.0934)|Lung(72;0.115)			TTGCTACCACTCTTGCAATTG	0.458																																																0													239	201	214					3																	148583133		2203	4300	6503	SO:0001819	synonymous_variant	1359				CCDS3138.1	3q24	2012-02-10			ENSG00000163751	ENSG00000163751	3.4.17.1		2298	protein-coding gene	gene with protein product	"mast cell carboxypeptidase A", "tissue carboxypeptidase A"	114851					Standard	NM_001870		Approved		uc003ewm.3	P15088	OTTHUMG00000159526	ENST00000296046.3:c.39T>C	3.37:g.148583133T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q96E94	Silent	SNP	ENST00000296046.3	37	CCDS3138.1																																																																																				0.458	CPA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355974.1	NM_001870		C	148583133	T	C	148583133	2	2	640	1	0	0	0	0	0	0	0	1	3793	1538	54	3		3	CPA3	3	148583133	Silent	SNP	T	TCGA-KL-8341-01A-11D-2310-10	10149759	148583133	49439297	26	39516										
GAK	2580	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr4	843563	843563	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tcgtacggctgccccgcagcCtatgggtgacaggcggtgta	15	12	0	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr4:843563C>T	ENST00000314167.4	-	28	3945		c.e28-1		GAK_ENST00000511163.1_Splice_Site|GAK_ENST00000509566.1_Splice_Site	NM_005255.2	NP_005246.2	O14976	GAK_HUMAN	cyclin G associated kinase						cell cycle (GO:0007049)|cell development (GO:0048468)|clathrin coat disassembly (GO:0072318)|clathrin-mediated endocytosis (GO:0072583)|endoplasmic reticulum organization (GO:0007029)|epidermal cell differentiation (GO:0009913)|establishment of skin barrier (GO:0061436)|forebrain morphogenesis (GO:0048853)|Golgi organization (GO:0007030)|intrahepatic bile duct development (GO:0035622)|positive regulation of neural precursor cell proliferation (GO:2000179)	cell junction (GO:0030054)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			autonomic_ganglia(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(7)|lung(16)|skin(7)|urinary_tract(2)	39				Colorectal(103;0.219)		GCCCCGCAGCCTATGGGTGAC	0.677																																																0													37	36	36					4																	843563		2202	4300	6502	SO:0001630	splice_region_variant	2580			D88435	CCDS3340.1	4p16	2011-09-07			ENSG00000178950	ENSG00000178950		"Heat shock proteins / DNAJ (HSP40)"	4113	protein-coding gene	gene with protein product	"auxilin-2"	602052				9299234	Standard	NM_005255		Approved	DNAJC26	uc003gbm.4	O14976	OTTHUMG00000088301	ENST00000314167.4:c.3835-1G>A	4.37:g.843563C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5U4P5|Q9BVY6	Splice_Site	SNP	ENST00000314167.4	37	CCDS3340.1	.	.	.	.	.	.	.	.	.	.	C	12.19	1.864791	0.32977	.	.	ENSG00000178950	ENST00000398567;ENST00000314167;ENST00000511163;ENST00000511980	.	.	.	4.76	4.76	0.60689	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.2715	0.73705	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	GAK	833563	1.000000	0.71417	0.985000	0.45067	0.013000	0.08279	7.295000	0.78780	2.167000	0.68274	0.643000	0.83706	.		0.677	GAK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239188.1	NM_005255	Intron	T	843563	C	T	843563	5	4	640	1	0	0	0	0	0	0	1	0	6202	695	24	2	105	2	GAK	4	843563	Splice_Site	SNP	C	TCGA-KL-8341-01A-11D-2310-10		843563	190310713	27	39517										
ENAM	10117	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr4	71509879	71509879	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	accagtcctctgtatacagaCggtagtcataccaagcagac	8	12	2	2	rs143333113		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr4:71509879C>T	ENST00000396073.3	+	9	3017	c.2736C>T	c.(2734-2736)gaC>gaT	p.D912D	ENAM_ENST00000472903.1_Intron	NM_031889.2	NP_114095.2	Q9NRM1	ENAM_HUMAN	enamelin	912					amelogenesis (GO:0097186)|biomineral tissue development (GO:0031214)	proteinaceous extracellular matrix (GO:0005578)		p.D912D(2)		haematopoietic_and_lymphoid_tissue(1)|ovary(3)|upper_aerodigestive_tract(2)	6			Lung(101;0.235)			TGTATACAGACGGTAGTCATA	0.493													C|||	1	0.000199681	0.0	0.0	5008	,	,		20689	0.001		0.0	False		,,,				2504	0.0															2	Substitution - coding silent(2)	large_intestine(1)|central_nervous_system(1)						C		0,4406		0,0,2203	98	86	90		2736	3.2	0.7	4	dbSNP_134	90	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	ENAM	NM_031889.2		0,1,6502	TT,TC,CC		0.0116,0.0,0.0077		912/1143	71509879	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	10117			AF125373	CCDS3544.2	4q13.3	2008-02-05			ENSG00000132464	ENSG00000132464			3344	protein-coding gene	gene with protein product		606585	"amelogenesis imperfecta 2, hypocalcification (autosomal dominant)"	AIH2		11978766	Standard	NM_031889		Approved		uc011caw.1	Q9NRM1	OTTHUMG00000129914	ENST00000396073.3:c.2736C>T	4.37:g.71509879C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q17RI5|Q9H3D1	Silent	SNP	ENST00000396073.3	37	CCDS3544.2																																																																																				0.493	ENAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252166.3	NM_031889		T	71509879	C	T	71509879	2	4	640	1	0	0	0	0	0	0	0	1	5114	535	19	1		1	ENAM	4	71509879	Silent	SNP	C	TCGA-KL-8341-01A-11D-2310-10	70666316	71509879	119644397	28	39518										
NDST4	64579	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	115998171	115998171	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	caatgttcgaaaacttctccGaagtttcacaataagattca	5	9	3	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr4:115998171G>A	ENST00000264363.2	-	2	700	c.22C>T	c.(22-24)Cgg>Tgg	p.R8W		NM_022569.1	NP_072091.1	Q9H3R1	NDST4_HUMAN	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 4	8					heparan sulfate proteoglycan biosynthetic process (GO:0015012)|heparin biosynthetic process (GO:0030210)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	[heparan sulfate]-glucosamine N-sulfotransferase activity (GO:0015016)|deacetylase activity (GO:0019213)	p.R8W(1)		NS(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(4)|large_intestine(5)|lung(43)|ovary(1)|prostate(7)|skin(11)|upper_aerodigestive_tract(1)|urinary_tract(1)	81		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		AAACTTCTCCGAAGTTTCACA	0.348																																																1	Substitution - Missense(1)	cervix(1)											21	22	22					4																	115998171		2202	4299	6501	SO:0001583	missense	64579			AB036429	CCDS3706.1	4q26	2008-02-05			ENSG00000138653	ENSG00000138653		"Sulfotransferases, membrane-bound"	20779	protein-coding gene	gene with protein product		615039				11087757	Standard	NM_022569		Approved		uc003ibu.3	Q9H3R1	OTTHUMG00000132916	ENST00000264363.2:c.22C>T	4.37:g.115998171G>A	ENSP00000264363:p.Arg8Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q2KHM8	Missense_Mutation	SNP	ENST00000264363.2	37	CCDS3706.1	.	.	.	.	.	.	.	.	.	.	G	18.76	3.692943	0.68271	.	.	ENSG00000138653	ENST00000264363	T	0.38722	1.12	5.12	5.12	0.69794	.	0.263218	0.37669	N	0.001986	T	0.42471	0.1204	L	0.40543	1.245	0.80722	D	1	D	0.61697	0.99	P	0.48677	0.586	T	0.34625	-0.9821	10	0.52906	T	0.07	.	13.5255	0.61593	0.0:0.0:0.8439:0.1561	.	8	Q9H3R1	NDST4_HUMAN	W	8	ENSP00000264363:R8W	ENSP00000264363:R8W	R	-	1	2	NDST4	116217620	1.000000	0.71417	0.988000	0.46212	0.958000	0.62258	6.609000	0.74173	2.377000	0.81083	0.411000	0.27672	CGG		0.348	NDST4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256427.1	NM_022569		A	115998171	G	A	115998171	3	1	640	1	0	0	0	0	1	0	0	0	10265	1057	37	1	2648	1	NDST4	4	115998171	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	44488292	115998171	75156105	29	39519										
MAML3	55534	broad.mit.edu	37	chr4	140811108	140811109	+	In_Frame_Ins	INS	-	-	TGT													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gctgctgctgctgctgctgcINStgctgctgctgctgttgctg							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr4:140811108_140811109insTGT	ENST00000509479.2	-	2	2337_2338	c.1481_1482insACA	c.(1480-1482)cag>caACAg	p.494_494Q>QQ	MAML3_ENST00000327122.5_In_Frame_Ins_p.338_338Q>QQ|MAML3_ENST00000398940.1_In_Frame_Ins_p.33_33Q>QQ	NM_018717.4	NP_061187			mastermind-like 3 (Drosophila)											breast(1)|endometrium(7)|kidney(2)|large_intestine(1)|lung(9)|ovary(1)|prostate(2)|urinary_tract(2)	25	all_hematologic(180;0.162)					gctgctgctgctgctgctgctg	0.54																																																0																																										SO:0001652	inframe_insertion	55534			AB058719	CCDS54805.1	4q31.1	2014-08-12	2003-09-24		ENSG00000196782	ENSG00000196782			16272	protein-coding gene	gene with protein product	"mastermind (drosophila)-like 3"	608991	"trinucleotide repeat containing 3"	TNRC3		12370315, 12386158	Standard	NM_018717		Approved	KIAA1816, MAM2, CAGH3, GDN	uc021xsg.1	Q96JK9	OTTHUMG00000161441	ENST00000509479.2:c.1481_1482insACA	4.37:g.140811108_140811109insTGT	ENSP00000421180:p.Gln510dup	Somatic		WXS	Illumina HiSeq	Phase_I		In_Frame_Ins	INS	ENST00000509479.2	37	CCDS54805.1																																																																																				0.54	MAML3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364934.2			TGT	140811109	-	TGT	140811108	7	5	640	1	0	1	1	0	0	0	0	0	9214	796	28	0	1942	0	MAML3	4	140811108	In_Frame_Ins	INS	-	TCGA-KL-8341-01A-11D-2310-10	24812937	140811108	50343168	30	39520										
DEPDC1B	55789	broad.mit.edu	37	chr5	59894911	59894911	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tatccttttacctgcttcagTttcttctttttctctttgtt	3	10	4	0			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr5:59894911T>C	ENST00000265036.5	-	10	1486	c.1419A>G	c.(1417-1419)aaA>aaG	p.K473K	DEPDC1B_ENST00000545085.1_Intron|DEPDC1B_ENST00000453022.2_Intron	NM_018369.2	NP_060839.2	Q8WUY9	DEP1B_HUMAN	DEP domain containing 1B	473	Poly-Lys.				regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	GTPase activator activity (GO:0005096)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(6)|ovary(1)|pancreas(2)|skin(2)	17		Lung NSC(810;0.000214)|Prostate(74;0.0147)|Breast(144;0.0991)|Ovarian(174;0.17)				CCTGCTTCAGTTTCTTCTTTT	0.343																																																0													73	70	71					5																	59894911		2203	4300	6503	SO:0001819	synonymous_variant	55789			AF303178	CCDS3977.1, CCDS47214.1	5q12	2008-02-05			ENSG00000035499	ENSG00000035499			24902	protein-coding gene	gene with protein product	"breast cancer cell 3"					12477932	Standard	NM_001145208		Approved	XTP1, BRCC3	uc003jsh.3	Q8WUY9	OTTHUMG00000097083	ENST00000265036.5:c.1419A>G	5.37:g.59894911T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K3R9|B4DUT4|Q86WJ3|Q8IZY6|Q9NUN3|Q9NW57	Silent	SNP	ENST00000265036.5	37	CCDS3977.1																																																																																				0.343	DEPDC1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214207.1	NM_018369		C	59894911	T	C	59894911	2	2	640	1	0	0	0	0	0	0	0	1	4442	1722	60	3		3	DEPDC1B	5	59894911	Silent	SNP	T	TCGA-KL-8341-01A-11D-2310-10		59894911	121020349	31	39521										
NR2F1	7025	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr5	92923831	92923831	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	aacatctgcgagctggccgcGcgcctgctcttcagcgccgt	12	16	3	0			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr5:92923831G>A	ENST00000327111.3	+	2	2359	c.672G>A	c.(670-672)gcG>gcA	p.A224A	NR2F1-AS1_ENST00000513055.1_RNA	NM_005654.4	NP_005645.1	P10589	COT1_HUMAN	nuclear receptor subfamily 2, group F, member 1	224					cerebral cortex regionalization (GO:0021796)|gene expression (GO:0010467)|intracellular receptor signaling pathway (GO:0030522)|negative regulation of neuron projection development (GO:0010977)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron migration (GO:0001764)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|signal transduction (GO:0007165)|transcription initiation from RNA polymerase II promoter (GO:0006367)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|retinoic acid-responsive element binding (GO:0044323)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|steroid hormone receptor activity (GO:0003707)|transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|endometrium(4)|large_intestine(6)|lung(2)|ovary(3)|prostate(1)|skin(1)|urinary_tract(2)	21		all_cancers(142;1.62e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0416)|all cancers(79;9.57e-18)		AGCTGGCCGCGCGCCTGCTCT	0.657																																																0													74	73	74					5																	92923831		2203	4300	6503	SO:0001819	synonymous_variant	7025			BC004154	CCDS4068.1	5q14	2013-01-16			ENSG00000175745	ENSG00000175745		"Nuclear hormone receptors"	7975	protein-coding gene	gene with protein product		132890		ERBAL3, TFCOUP1		8530078	Standard	NM_005654		Approved	EAR-3, COUP-TFI, TCFCOUP1, SVP44	uc003kkj.3	P10589	OTTHUMG00000119079	ENST00000327111.3:c.672G>A	5.37:g.92923831G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000327111.3	37	CCDS4068.1																																																																																				0.657	NR2F1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239293.2	NM_005654		A	92923831	G	A	92923831	2	1	640	1	0	0	0	0	0	0	0	1	10634	1074	38	1		1	NR2F1	5	92923831	Silent	SNP	G	TCGA-KL-8341-01A-11D-2310-10	33028920	92923831	87991429	32	39522										
APC	324	broad.mit.edu	37	chr5	112155000	112155001	+	Frame_Shift_Ins	INS	-	-	G													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gaaacctgttgggagtggcaINSggaagctcatgaaccaggca							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr5:112155000_112155001insG	ENST00000457016.1	+	10	1651_1652	c.1271_1272insG	c.(1270-1275)caggaafs	p.E425fs	APC_ENST00000257430.4_Frame_Shift_Ins_p.E425fs|APC_ENST00000508376.2_Frame_Shift_Ins_p.E425fs			P25054	APC_HUMAN	adenomatous polyposis coli	425	Leu-rich.				anterior/posterior pattern specification (GO:0009952)|apoptotic process (GO:0006915)|axis specification (GO:0009798)|axonogenesis (GO:0007409)|canonical Wnt signaling pathway (GO:0060070)|canonical Wnt signaling pathway involved in negative regulation of apoptotic process (GO:0044336)|canonical Wnt signaling pathway involved in positive regulation of apoptotic process (GO:0044337)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cell migration (GO:0016477)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular response to DNA damage stimulus (GO:0006974)|chromosome organization (GO:0051276)|cytoplasmic microtubule organization (GO:0031122)|dorsal/ventral pattern formation (GO:0009953)|hair follicle development (GO:0001942)|kidney development (GO:0001822)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|mitotic cytokinesis (GO:0000281)|mitotic spindle assembly checkpoint (GO:0007094)|muscle cell cellular homeostasis (GO:0046716)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045736)|negative regulation of epithelial cell proliferation involved in prostate gland development (GO:0060770)|negative regulation of MAPK cascade (GO:0043409)|negative regulation of microtubule depolymerization (GO:0007026)|negative regulation of odontogenesis (GO:0042483)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cell adhesion (GO:0045785)|positive regulation of cell division (GO:0051781)|positive regulation of cell migration (GO:0030335)|positive regulation of epithelial cell differentiation (GO:0030858)|positive regulation of microtubule polymerization (GO:0031116)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of pseudopodium assembly (GO:0031274)|protein complex assembly (GO:0006461)|proximal/distal pattern formation (GO:0009954)|regulation of attachment of spindle microtubules to kinetochore (GO:0051988)|regulation of microtubule-based process (GO:0032886)|regulation of nitrogen compound metabolic process (GO:0051171)|regulation of osteoblast differentiation (GO:0045667)|regulation of osteoclast differentiation (GO:0045670)|retina development in camera-type eye (GO:0060041)|somatic stem cell maintenance (GO:0035019)|T cell differentiation in thymus (GO:0033077)|thymus development (GO:0048538)|tight junction assembly (GO:0070830)	axonal growth cone (GO:0044295)|beta-catenin destruction complex (GO:0030877)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytoplasmic microtubule (GO:0005881)|cytosol (GO:0005829)|kinetochore (GO:0000776)|lamellipodium (GO:0030027)|lateral plasma membrane (GO:0016328)|microtubule plus-end (GO:0035371)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)|tight junction (GO:0005923)	beta-catenin binding (GO:0008013)|gamma-catenin binding (GO:0045295)|microtubule binding (GO:0008017)|microtubule plus-end binding (GO:0051010)|protein kinase binding (GO:0019901)|protein kinase regulator activity (GO:0019887)			NS(7)|adrenal_gland(6)|biliary_tract(5)|bone(6)|breast(29)|central_nervous_system(12)|cervix(2)|endometrium(12)|haematopoietic_and_lymphoid_tissue(6)|kidney(8)|large_intestine(2768)|liver(15)|lung(39)|oesophagus(1)|ovary(12)|pancreas(27)|prostate(15)|salivary_gland(2)|skin(14)|small_intestine(34)|soft_tissue(55)|stomach(136)|thyroid(22)|upper_aerodigestive_tract(8)|urinary_tract(20)	3261		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TGGGAGTGGCAGGAAGCTCATG	0.436		12	"D, Mis, N, F, S"		"colorectal, pancreatic, desmoid, hepatoblastoma, glioma, other CNS"	"colorectal, pancreatic, desmoid, hepatoblastoma, glioma, other CNS"			Turcot syndrome;Hereditary Desmoid Disease;Familial Adenomatous Polyposis	TSP Lung(16;0.13)																											NSCLC(107;854 1218 9699 17025 28335 47076 52975)|Esophageal Squamous(32;282 584 32991 36563 39392 49665 50115)	yes	Rec	yes	Adenomatous polyposis coli; Turcot syndrome	5	5q21	324	adenomatous polyposis of the colon gene		"E, M, O"	0																																										SO:0001589	frameshift_variant	324	Familial Cancer Database	Brain tumor-colorectal polyp(osis) syndrome;Familial Infiltrative Mesenteric Fibromatosis;FAP, incl.: Gardner s., Attenuated FAP, Flat Adenoma s., Oldfield s,	M74088	CCDS4107.1	5q21-q22	2014-09-17	2008-01-08		ENSG00000134982	ENSG00000134982		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits", "Armadillo repeat containing"	583	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 46"	611731	"adenomatosis polyposis coli"			1651563	Standard	NM_001127511		Approved	DP2, DP3, DP2.5, PPP1R46	uc003kpy.4	P25054	OTTHUMG00000128806	ENST00000457016.1:c.1273dupG	5.37:g.112155002_112155002dupG	ENSP00000413133:p.Glu425fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DT03|Q15162|Q15163|Q93042	Frame_Shift_Ins	INS	ENST00000457016.1	37	CCDS4107.1																																																																																				0.436	APC-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250738.2	NM_000038		G	112155001	-	G	112155000	7	5	640	1	0	1	1	0	0	0	0	0	763	188	7	0	1305	0	APC	5	112155000	Frame_Shift_Ins	INS	-	TCGA-KL-8341-01A-11D-2310-10	19231169	112155000	68760260	33	39523										
PCDHB4	56131	mdanderson.org	37	chr5	140503002	140503002	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	cacatcggcagtgtcagcgcCacagacagagactcgggcac	12	14	1	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr5:140503002C>A	ENST00000194152.1	+	1	1422	c.1422C>A	c.(1420-1422)gcC>gcA	p.A474A	AC005754.8_ENST00000606030.1_lincRNA	NM_018938.2	NP_061761.1	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4	474	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|intermediate filament cytoskeleton (GO:0045111)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)	p.A474A(1)		autonomic_ganglia(1)|breast(2)|endometrium(4)|kidney(2)|large_intestine(12)|lung(35)|ovary(1)|pancreas(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	67			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTGTCAGCGCCACAGACAGAG	0.662																																																1	Substitution - coding silent(1)	skin(1)											48	52	51					5																	140503002		2201	4295	6496	SO:0001819	synonymous_variant	56131			AF152497	CCDS4246.1	5q31	2010-01-26			ENSG00000081818	ENSG00000081818		"Cadherins / Protocadherins : Clustered"	8689	other	protocadherin		606330				10380929	Standard	NM_018938		Approved	PCDH-BETA4	uc003lip.1	Q9Y5E5	OTTHUMG00000129617	ENST00000194152.1:c.1422C>A	5.37:g.140503002C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q4V761	Silent	SNP	ENST00000194152.1	37	CCDS4246.1																																																																																				0.662	PCDHB4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251812.2	NM_018938		A	140503002	C	A	140503002	2	1	640	1	0	0	0	0	0	0	0	1	11551	581	21	4		4	PCDHB4	5	140503002	Silent	SNP	C	TCGA-KL-8341-01A-11D-2310-10	28348002	140503002	40412258	34	39524										
PCDH1	5097	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr5	141236865	141236865	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gctgccatcaggggtggtgcGctcatagtgatcctcaggca	14	11	3	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr5:141236865G>A	ENST00000287008.3	-	4	3418	c.3271C>T	c.(3271-3273)Cgc>Tgc	p.R1091C	PCDH1_ENST00000503492.1_Missense_Mutation_p.R359C	NM_032420.2	NP_115796.2	Q08174	PCDH1_HUMAN	protocadherin 1	0					cell-cell signaling (GO:0007267)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	cell-cell junction (GO:0005911)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(4)|lung(20)|ovary(5)|skin(3)|upper_aerodigestive_tract(1)	51		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)		GGGGTGGTGCGCTCATAGTGA	0.617																																					Ovarian(132;1609 1739 4190 14731 45037)											0													72	66	68					5																	141236865		2203	4300	6503	SO:0001583	missense	5097			AK075233	CCDS4267.1, CCDS43375.1	5q31.3	2010-01-26	2007-02-12		ENSG00000156453	ENSG00000156453		"Cadherins / Protocadherins : Non-clustered"	8655	protein-coding gene	gene with protein product		603626	"protocadherin 1 (cadherin-like 1)"			8508762	Standard	NM_032420		Approved	pc42	uc003llp.3	Q08174	OTTHUMG00000129661	ENST00000287008.3:c.3271C>T	5.37:g.141236865G>A	ENSP00000287008:p.Arg1091Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUP2	Missense_Mutation	SNP	ENST00000287008.3	37	CCDS4267.1	.	.	.	.	.	.	.	.	.	.	G	17.27	3.346335	0.61073	.	.	ENSG00000156453	ENST00000503492;ENST00000287008	T;T	0.70045	-0.45;0.46	5.23	5.23	0.72850	.	0.000000	0.45361	U	0.000367	T	0.81113	0.4755	M	0.72118	2.19	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.83291	-0.0033	10	0.87932	D	0	.	16.2921	0.82757	0.0:0.0:1.0:0.0	.	1091	Q08174-2	.	C	359;1091	ENSP00000424667:R359C;ENSP00000287008:R1091C	ENSP00000287008:R1091C	R	-	1	0	PCDH1	141217049	1.000000	0.71417	1.000000	0.80357	0.960000	0.62799	4.912000	0.63335	2.433000	0.82419	0.455000	0.32223	CGC		0.617	PCDH1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000320587.2	NM_032420		A	141236865	G	A	141236865	3	1	640	1	0	0	0	0	1	0	0	0	11513	1087	38	1	450	1	PCDH1	5	141236865	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	733863	141236865	39678395	35	39525										
RNF145	153830	mdanderson.org	37	chr5	158595995	158595995	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tgagcaagaatgcccgatgaAcaacctgcagttctatcagc	9	11	2	3			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr5:158595995A>G	ENST00000424310.2	-	8	1366	c.1007T>C	c.(1006-1008)gTt>gCt	p.V336A	RNF145_ENST00000274542.2_Missense_Mutation_p.V364A|RNF145_ENST00000520638.1_Missense_Mutation_p.V350A|RNF145_ENST00000519865.1_Missense_Mutation_p.V336A|RNF145_ENST00000521606.2_Missense_Mutation_p.V353A|RNF145_ENST00000518802.1_Missense_Mutation_p.V366A	NM_001199383.1	NP_001186312.1	Q96MT1	RN145_HUMAN	ring finger protein 145	336						integral component of membrane (GO:0016021)	zinc ion binding (GO:0008270)			endometrium(7)|kidney(2)|large_intestine(5)|lung(9)|ovary(3)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	30	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TGCCCGATGAACAACCTGCAG	0.413																																																0													128	130	129					5																	158595995		2203	4300	6503	SO:0001583	missense	153830			BC042684	CCDS4344.1, CCDS56390.1, CCDS56391.1, CCDS56392.1, CCDS56393.1	5q33.3	2013-01-09			ENSG00000145860	ENSG00000145860		"RING-type (C3HC4) zinc fingers"	20853	protein-coding gene	gene with protein product							Standard	NM_001199380		Approved	FLJ31951	uc003lxo.2	Q96MT1	OTTHUMG00000130306	ENST00000424310.2:c.1007T>C	5.37:g.158595995A>G	ENSP00000409064:p.Val336Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z903|B7Z949|E7EVI7|Q8IVP7	Missense_Mutation	SNP	ENST00000424310.2	37	CCDS56390.1	.	.	.	.	.	.	.	.	.	.	A	14.47	2.545766	0.45280	.	.	ENSG00000145860	ENST00000274542;ENST00000519865;ENST00000424310;ENST00000521606;ENST00000413445;ENST00000518802;ENST00000535312;ENST00000520638	T;T;T;T;T;T;T	0.77098	-1.07;-1.06;-1.06;-1.07;-1.06;-1.07;-1.07	5.08	5.08	0.68730	.	0.051325	0.85682	D	0.000000	T	0.64800	0.2631	N	0.22421	0.69	0.52501	D	0.999957	B;B;B;P;B	0.35124	0.425;0.425;0.425;0.485;0.372	B;B;B;B;B	0.34652	0.131;0.131;0.182;0.187;0.114	T	0.62642	-0.6811	10	0.15499	T	0.54	-21.9966	15.1444	0.72637	1.0:0.0:0.0:0.0	.	353;350;366;336;364	B7Z949;B7Z903;E7EVI7;Q96MT1;Q96MT1-2	.;.;.;RN145_HUMAN;.	A	364;336;336;352;353;366;336;350	ENSP00000274542:V364A;ENSP00000430397:V336A;ENSP00000409064:V336A;ENSP00000430753:V352A;ENSP00000445115:V353A;ENSP00000430955:V366A;ENSP00000429071:V350A	ENSP00000274542:V364A	V	-	2	0	RNF145	158528573	1.000000	0.71417	0.888000	0.34837	0.907000	0.53573	9.188000	0.94921	2.035000	0.60131	0.477000	0.44152	GTT		0.413	RNF145-002	PUTATIVE	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374048.1	NM_144726		G	158595995	A	G	158595995	3	3	640	1	0	0	0	0	1	0	0	0	13460	43	2	3	1000	3	RNF145	5	158595995	Missense_Mutation	SNP	A	TCGA-KL-8341-01A-11D-2310-10	17359130	158595995	22319265	36	39526										
GABRP	2568	broad.mit.edu	37	chr5	170239019	170239019	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	atcatcaacagctccatctcCagctttaaacggaagatcag	6	12	4	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr5:170239019C>T	ENST00000518525.1	+	11	1544	c.1080C>T	c.(1078-1080)tcC>tcT	p.S360S	GABRP_ENST00000265294.4_Silent_p.S360S|GABRP_ENST00000519385.1_3'UTR			O00591	GBRP_HUMAN	gamma-aminobutyric acid (GABA) A receptor, pi	360					signal transduction (GO:0007165)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|postsynaptic membrane (GO:0045211)	chloride channel activity (GO:0005254)|extracellular ligand-gated ion channel activity (GO:0005230)|GABA-A receptor activity (GO:0004890)			NS(1)|breast(1)|cervix(1)|endometrium(5)|large_intestine(4)|lung(11)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	29	Renal(175;0.000159)|Lung NSC(126;0.0122)|all_lung(126;0.0193)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)		Acamprosate(DB00659)|Adinazolam(DB00546)|Alprazolam(DB00404)|Amoxapine(DB00543)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Chlordiazepoxide(DB00475)|Cinolazepam(DB01594)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Clotiazepam(DB01559)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Fludiazepam(DB01567)|Flumazenil(DB01205)|Flurazepam(DB00690)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Topiramate(DB00273)|Triazolam(DB00897)	GCTCCATCTCCAGCTTTAAAC	0.403																																																0													123	114	117					5																	170239019		2203	4300	6503	SO:0001819	synonymous_variant	2568			U95367	CCDS4375.1, CCDS75368.1	5q35.1	2012-06-22			ENSG00000094755	ENSG00000094755		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4089	protein-coding gene	gene with protein product	"GABA(A) receptor, pi"	602729				9182563	Standard	NM_014211		Approved		uc003mau.3	O00591	OTTHUMG00000130443	ENST00000518525.1:c.1080C>T	5.37:g.170239019C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8KA36|D3DQL2|Q32MJ1	Silent	SNP	ENST00000518525.1	37	CCDS4375.1																																																																																				0.403	GABRP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252834.3	NM_014211		T	170239019	C	T	170239019	2	4	640	1	0	0	0	0	0	0	0	1	6181	581	21	2		2	GABRP	5	170239019	Silent	SNP	C	TCGA-KL-8341-01A-11D-2310-10	11643024	170239019	10676241	37	39527										
OR5V1	81696	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	29323612	29323612	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gcagattgcaatgtaacgatCatatgccattgctgccagta	9	9	1	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr6:29323612C>A	ENST00000377154.1	-	4	660	c.361G>T	c.(361-363)Gat>Tat	p.D121Y	OR5V1_ENST00000543825.1_Missense_Mutation_p.D121Y			Q9UGF6	OR5V1_HUMAN	olfactory receptor, family 5, subfamily V, member 1	121						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.D121N(1)		breast(1)|kidney(3)|large_intestine(3)|liver(1)|lung(8)|ovary(3)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	25						ATGTAACGATCATATGCCATT	0.403																																					Ovarian(32;43 883 21137 32120 42650)											1	Substitution - Missense(1)	skin(1)											68	69	69					6																	29323612		2203	4299	6502	SO:0001583	missense	81696				CCDS4657.1	6p22.1	2013-09-23				ENSG00000243729		"GPCR / Class A : Olfactory receptors"	13972	protein-coding gene	gene with protein product							Standard	NM_030876		Approved	hs6M1-21	uc011dlo.2	Q9UGF6		ENST00000377154.1:c.361G>T	6.37:g.29323612C>A	ENSP00000366359:p.Asp121Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A2BDZ0|B0S860|Q5SQI9|Q6NTB5|Q8IVL3	Missense_Mutation	SNP	ENST00000377154.1	37	CCDS4657.1	.	.	.	.	.	.	.	.	.	.	C	21.2	4.113947	0.77210	.	.	ENSG00000243729	ENST00000377154;ENST00000377151;ENST00000543825	T;T	0.18338	2.22;2.22	4.37	4.37	0.52481	GPCR, rhodopsin-like superfamily (1);	0.000000	0.33875	N	0.004469	T	0.54679	0.1873	H	0.98682	4.3	0.54753	D	0.99998	D	0.89917	1.0	D	0.91635	0.999	T	0.75079	-0.3444	10	0.87932	D	0	-52.0337	17.0395	0.86484	0.0:1.0:0.0:0.0	.	121	Q9UGF6	OR5V1_HUMAN	Y	121	ENSP00000366359:D121Y;ENSP00000443309:D121Y	ENSP00000366356:D121Y	D	-	1	0	OR5V1	29431591	1.000000	0.71417	0.997000	0.53966	0.853000	0.48598	6.782000	0.75073	2.422000	0.82143	0.543000	0.68304	GAT		0.403	OR5V1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076398.3			A	29323612	C	A	29323612	3	1	640	1	0	0	0	0	1	0	0	0	11191	826	29	4	607	4	OR5V1	6	29323612	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10		29323612	141791455	38	39528										
HLA-G	3135	mdanderson.org	37	chr6	29797430	29797430	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	cagagatacacgtgccatgtGcagcatgaggggctgccgga	15	10	0	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr6:29797430G>T	ENST00000360323.6	+	4	879	c.855G>T	c.(853-855)gtG>gtT	p.V285V	HLA-G_ENST00000428701.1_Silent_p.V285V|HLA-G_ENST00000376828.2_Silent_p.V290V|HLA-G_ENST00000376818.3_Silent_p.V193V|HLA-G_ENST00000376815.3_Intron			P17693	HLAG_HUMAN	major histocompatibility complex, class I, G	285	Alpha-3.|Ig-like C1-type.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular defense response (GO:0006968)|cytokine-mediated signaling pathway (GO:0019221)|immune response-inhibiting cell surface receptor signaling pathway (GO:0002767)|interferon-gamma-mediated signaling pathway (GO:0060333)|negative regulation of dendritic cell differentiation (GO:2001199)|negative regulation of T cell proliferation (GO:0042130)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of regulatory T cell differentiation (GO:0045591)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|positive regulation of T cell tolerance induction (GO:0002666)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)	early endosome membrane (GO:0031901)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|membrane (GO:0016020)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)			central_nervous_system(1)|endometrium(1)|large_intestine(5)|lung(4)|ovary(3)|pancreas(1)|prostate(5)|skin(1)	21						CGTGCCATGTGCAGCATGAGG	0.592																																																0													58	58	58					6																	29797430		2203	4300	6503	SO:0001819	synonymous_variant	3135				CCDS4668.1	6p21.3	2013-01-11	2007-12-12		ENSG00000204632	ENSG00000204632		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4964	protein-coding gene	gene with protein product	"b2 microglobulin"	142871	"HLA-G histocompatibility antigen, class I, G"				Standard	NM_002127		Approved		uc003nnw.2	P17693	OTTHUMG00000031157	ENST00000360323.6:c.855G>T	6.37:g.29797430G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000360323.6	37	CCDS4668.1																																																																																				0.592	HLA-G-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076286.2	NM_002127		T	29797430	G	T	29797430	2	4	640	1	0	0	0	0	0	0	0	1	7219	1306	46	4		4	HLA-G	6	29797430	Silent	SNP	G	TCGA-KL-8341-01A-11D-2310-10	473818	29797430	141317637	39	39529										
C6orf27	80737	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr6	31734079	31734079	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	cgaaagtcctaaggtcaagaTcctgagggcccgagaagctg	13	10	1	3			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr6:31734079T>A	ENST00000375688.4	-	15	2467	c.2267A>T	c.(2266-2268)gAt>gTt	p.D756V	SAPCD1-AS1_ENST00000419679.1_RNA|VWA7_ENST00000467576.1_5'UTR|VWA7_ENST00000375686.3_Missense_Mutation_p.D756V			Q9Y334	VWA7_HUMAN	von Willebrand factor A domain containing 7	756						extracellular region (GO:0005576)											AAGGTCAAGATCCTGAGGGCC	0.607																																																0													39	34	36					6																	31734079		1511	2709	4220	SO:0001583	missense	80737				CCDS4721.2	6p21	2011-12-13	2011-12-13	2011-12-13	ENSG00000204396	ENSG00000204396			13939	protein-coding gene	gene with protein product		609693	"chromosome 6 open reading frame 27"	C6orf27			Standard	NM_025258		Approved	G7c, NG37	uc011dog.2	Q9Y334	OTTHUMG00000031132	ENST00000375688.4:c.2267A>T	6.37:g.31734079T>A	ENSP00000364840:p.Asp756Val	Somatic		WXS	Illumina HiSeq	Phase_I	A2BEX8|A6NHR6|B0V041|Q5SSR5|Q96QC8|Q9UMP9	Missense_Mutation	SNP	ENST00000375688.4	37	CCDS4721.2	.	.	.	.	.	.	.	.	.	.	T	19.03	3.747583	0.69533	.	.	ENSG00000204396	ENST00000375688;ENST00000375686	T;T	0.16324	2.56;2.35	4.57	4.57	0.56435	.	0.389990	0.23887	N	0.043590	T	0.16385	0.0394	L	0.32530	0.975	0.80722	D	1	D	0.69078	0.997	P	0.62184	0.899	T	0.01283	-1.1396	10	0.62326	D	0.03	-8.1282	10.4849	0.44715	0.0:0.0:0.0:1.0	.	756	Q9Y334	G7C_HUMAN	V	756	ENSP00000364840:D756V;ENSP00000364838:D756V	ENSP00000364838:D756V	D	-	2	0	C6orf27	31842058	1.000000	0.71417	0.977000	0.42913	0.723000	0.41478	3.988000	0.56951	2.044000	0.60594	0.460000	0.39030	GAT		0.607	VWA7-001	NOVEL	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076233.2	NM_025258		A	31734079	T	A	31734079	3	1	640	1	0	0	0	0	1	0	0	0	2364	1435	50	5	419	5	C6orf27	6	31734079	Missense_Mutation	SNP	T	TCGA-KL-8341-01A-11D-2310-10	1936649	31734079	139380988	40	39530										
KPNA5	3841	broad.mit.edu;mdanderson.org	37	chr6	117013533	117013533	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	cagctaacagcaacacagaaAtttagaaagctgctttctaa	6	9	1	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr6:117013533A>G	ENST00000368564.1	+	4	466	c.318A>G	c.(316-318)aaA>aaG	p.K106K	KPNA5_ENST00000356348.1_Silent_p.K106K			O15131	IMA6_HUMAN	karyopherin alpha 5 (importin alpha 6)	103					cytokine-mediated signaling pathway (GO:0019221)|NLS-bearing protein import into nucleus (GO:0006607)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)	protein transporter activity (GO:0008565)			breast(6)|kidney(2)|large_intestine(5)|lung(5)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	22		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0298)|all cancers(137;0.0461)|OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.212)		CAACACAGAAATTTAGAAAGC	0.274																																																0													70	74	73					6																	117013533		2203	4286	6489	SO:0001819	synonymous_variant	3841			AF005361	CCDS5111.1	6q22.2	2013-02-14			ENSG00000196911	ENSG00000196911		"Importins", "Armadillo repeat containing"	6398	protein-coding gene	gene with protein product		604545				9395085	Standard	NM_002269		Approved	SRP6, IPOA6	uc003pxh.3	O15131	OTTHUMG00000015448	ENST00000368564.1:c.318A>G	6.37:g.117013533A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RAI5|Q86X23	Silent	SNP	ENST00000368564.1	37	CCDS5111.1																																																																																				0.274	KPNA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041967.1	NM_002269		G	117013533	A	G	117013533	2	3	640	1	0	0	0	0	0	0	0	1	8440	98	4	3		3	KPNA5	6	117013533	Silent	SNP	A	TCGA-KL-8341-01A-11D-2310-10	85279454	117013533	54101534	41	39531										
SYNE1	23345	broad.mit.edu;bcgsc.ca	37	chr6	152642498	152642498	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	cattttttcaatgttctgtcGgtgatttgtggcttctgtta	9	6	3	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr6:152642498G>A	ENST00000367255.5	-	84	16712	c.16111C>T	c.(16111-16113)Cga>Tga	p.R5371*	SYNE1_ENST00000448038.1_Nonsense_Mutation_p.R5300*|SYNE1_ENST00000341594.5_Nonsense_Mutation_p.R5044*|SYNE1_ENST00000265368.4_Nonsense_Mutation_p.R5371*|SYNE1_ENST00000423061.1_Nonsense_Mutation_p.R5300*	NM_182961.3	NP_892006.3	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5371					cell death (GO:0008219)|cytoskeletal anchoring at nuclear membrane (GO:0090286)|establishment of nucleus localization (GO:0040023)|Golgi organization (GO:0007030)|muscle cell differentiation (GO:0042692)|nuclear matrix anchoring at nuclear membrane (GO:0090292)|nucleus organization (GO:0006997)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|postsynaptic membrane (GO:0045211)|sarcomere (GO:0030017)|SUN-KASH complex (GO:0034993)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|lamin binding (GO:0005521)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)			NS(3)|biliary_tract(1)|breast(17)|central_nervous_system(21)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(4)|kidney(16)|large_intestine(138)|liver(1)|lung(190)|ovary(11)|pancreas(5)|prostate(12)|skin(20)|stomach(3)|upper_aerodigestive_tract(33)|urinary_tract(19)	524		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		ATGTTCTGTCGGTGATTTGTG	0.388										HNSCC(10;0.0054)																																						0													100	94	96					6																	152642498		2203	4300	6503	SO:0001587	stop_gained	23345			AB018339	CCDS5235.1, CCDS5236.1, CCDS5236.2	6q24.2-q25.3	2014-09-17			ENSG00000131018	ENSG00000131018			17089	protein-coding gene	gene with protein product	"myocyte nuclear envelope protein 1", "nuclear envelope spectrin repeat-1"	608441	"chromosome 6 open reading frame 98"	C6orf98		9872452, 10878022	Standard	NM_182961		Approved	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1	uc003qou.4	Q8NF91	OTTHUMG00000015841	ENST00000367255.5:c.16111C>T	6.37:g.152642498G>A	ENSP00000356224:p.Arg5371*	Somatic		WXS	Illumina HiSeq	Phase_I	E7EQI5|O94890|Q5JV19|Q5JV22|Q8N9P7|Q8TCP1|Q8WWW6|Q8WWW7|Q8WXF6|Q96N17|Q9C0A7|Q9H525|Q9H526|Q9NS36|Q9NU50|Q9UJ06|Q9UJ07|Q9ULF8	Nonsense_Mutation	SNP	ENST00000367255.5	37	CCDS5236.2	.	.	.	.	.	.	.	.	.	.	G	58	31.532104	0.99979	.	.	ENSG00000131018	ENST00000367255;ENST00000423061;ENST00000265368;ENST00000448038;ENST00000341594	.	.	.	5.25	2.3	0.28687	.	0.425694	0.19668	N	0.108839	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	13.8923	0.63747	0.0:0.0:0.6078:0.3922	.	.	.	.	X	5371;5300;5371;5300;5044	.	ENSP00000265368:R5371X	R	-	1	2	SYNE1	152684191	1.000000	0.71417	0.994000	0.49952	0.984000	0.73092	2.424000	0.44714	0.149000	0.19098	0.563000	0.77884	CGA		0.388	SYNE1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000334755.2	NM_182961		A	152642498	G	A	152642498	4	1	640	1	0	0	0	0	0	1	0	0	15457	1124	39	1	10607	1	SYNE1	6	152642498	Nonsense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	35628965	152642498	18472569	42	39532										
SLC29A4	222962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	5334542	5334542	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gatgctgcccaagcggtacaCgcagggggtgatgaccgggg	18	10	0	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr7:5334542C>T	ENST00000396872.3	+	6	757	c.596C>T	c.(595-597)aCg>aTg	p.T199M	SLC29A4_ENST00000297195.4_Missense_Mutation_p.T199M|SLC29A4_ENST00000406453.3_Missense_Mutation_p.T185M			Q7RTT9	S29A4_HUMAN	solute carrier family 29 (equilibrative nucleoside transporter), member 4	199					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	nucleoside transmembrane transporter activity (GO:0005337)			breast(1)|cervix(2)|kidney(7)|large_intestine(1)|liver(1)|lung(7)|urinary_tract(1)	20		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)	Metformin(DB00331)	AAGCGGTACACGCAGGGGGTG	0.617																																																0													92	105	101					7																	5334542		2203	4300	6503	SO:0001583	missense	222962			AK075422	CCDS5340.1, CCDS75561.1	7p22.2	2013-07-17	2013-07-17		ENSG00000164638	ENSG00000164638		"Solute carriers"	23097	protein-coding gene	gene with protein product		609149	"solute carrier family 29 (nucleoside transporters), member 4"			12838422	Standard	NM_153247		Approved	FLJ34923, ENT4	uc003soc.3	Q7RTT9	OTTHUMG00000023797	ENST00000396872.3:c.596C>T	7.37:g.5334542C>T	ENSP00000380081:p.Thr199Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PJ08|Q86WY8|Q8NAR3|Q8NBM2	Missense_Mutation	SNP	ENST00000396872.3	37	CCDS5340.1	.	.	.	.	.	.	.	.	.	.	.	22.7	4.326993	0.81690	.	.	ENSG00000164638	ENST00000396872;ENST00000297195;ENST00000406453	T;T;T	0.81163	-1.46;-1.46;-0.12	4.24	4.24	0.50183	Major facilitator superfamily domain, general substrate transporter (1);	0.000000	0.85682	D	0.000000	D	0.85265	0.5657	L	0.42487	1.325	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.992;1.0	D	0.85837	0.1395	10	0.49607	T	0.09	-1.3588	14.4407	0.67314	0.0:1.0:0.0:0.0	.	185;199	Q7RTT9-2;Q7RTT9	.;S29A4_HUMAN	M	199;199;185	ENSP00000380081:T199M;ENSP00000297195:T199M;ENSP00000385845:T185M	ENSP00000297195:T199M	T	+	2	0	SLC29A4	5301068	1.000000	0.71417	0.971000	0.41717	0.739000	0.42172	5.379000	0.66196	1.920000	0.55613	0.561000	0.74099	ACG		0.617	SLC29A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060118.6	NM_153247		T	5334542	C	T	5334542	3	4	640	1	0	0	0	0	1	0	0	0	14550	536	19	1	614	1	SLC29A4	7	5334542	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10		5334542	153804121	43	39533										
TNRC18	84629	hgsc.bcm.edu	37	chr7	5428642	5428642	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ggctgcagcgccgcattcttGgtcttggactcagccaggaa	13	12	3	0	rs144662045	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr7:5428642G>A	ENST00000430969.1	-	5	1161	c.813C>T	c.(811-813)acC>acT	p.T271T	TNRC18_ENST00000399537.4_Silent_p.T271T	NM_001080495.2	NP_001073964.2	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	271							chromatin binding (GO:0003682)			central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(8)	11		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		CCGCATTCTTGGTCTTGGACT	0.756													G|||	148	0.0295527	0.0	0.0014	5008	,	,		4446	0.1369		0.003	False		,,,				2504	0.0061															0								G		1,3115		0,1,1557	3	3	3		813	0.2	0	7	dbSNP_134	3	6,7046		0,6,3520	no	coding-synonymous	TNRC18	NM_001080495.2		0,7,5077	AA,AG,GG		0.0851,0.0321,0.0688		271/2969	5428642	7,10161	1558	3526	5084	SO:0001819	synonymous_variant	84629			U80753	CCDS47534.1	7p22.1	2012-04-17			ENSG00000182095	ENSG00000182095		"Trinucleotide (CAG) repeat containing"	11962	protein-coding gene	gene with protein product						9225980	Standard	NM_001080495		Approved	CAGL79, TNRC18A, KIAA1856	uc003soi.4	O15417	OTTHUMG00000151831	ENST00000430969.1:c.813C>T	7.37:g.5428642G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MX41|Q96JH1|Q96K91	Silent	SNP	ENST00000430969.1	37	CCDS47534.1																																																																																				0.756	TNRC18-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding				A	5428642	G	A	5428642	2	1	640	1	0	0	0	0	0	0	0	1	16351	1335	47	2		2	TNRC18	7	5428642	Silent	SNP	G	TCGA-KL-8341-01A-11D-2310-10	94100	5428642	153710021	44	39534										
POM121	9883	mdanderson.org	37	chr7	72412591	72412591	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	caacccttcaggcagagacgGctaccaaaccccaagccaca	7	17	1	1	rs201184041	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr7:72412591G>A	ENST00000434423.2	+	11	2059	c.2059G>A	c.(2059-2061)Gct>Act	p.A687T	POM121_ENST00000358357.3_Missense_Mutation_p.A422T|POM121_ENST00000446813.1_Missense_Mutation_p.A422T|POM121_ENST00000257622.4_Missense_Mutation_p.A422T|POM121_ENST00000395270.1_Missense_Mutation_p.A422T			Q96HA1	P121A_HUMAN	POM121 transmembrane nucleoporin	687	Pore side. {ECO:0000255}.				carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|protein transport (GO:0015031)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	endoplasmic reticulum (GO:0005783)|nuclear envelope (GO:0005635)|nuclear pore (GO:0005643)				NS(1)|breast(1)|endometrium(9)|kidney(4)|large_intestine(6)|lung(12)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	41		Lung NSC(55;0.163)				GGCAGAGACGGCTACCAAACC	0.617																																																0													64	73	70					7																	72412591		2197	4295	6492	SO:0001583	missense	9883			AB014518	CCDS5542.1, CCDS59059.1	7q11.23	2013-01-08	2012-03-13		ENSG00000196313	ENSG00000196313		"-"	19702	protein-coding gene	gene with protein product		615753	"POM121 membrane glycoprotein (rat)", "POM121 membrane glycoprotein"			8335683, 9734811, 17900573	Standard	NM_172020		Approved	KIAA0618, DKFZP586G1822, DKFZP586P2220, POM121A	uc003twk.2	Q96HA1	OTTHUMG00000023527	ENST00000434423.2:c.2059G>A	7.37:g.72412591G>A	ENSP00000405562:p.Ala687Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFS9|A8CDT4|A8K933|A8MXF9|O75115|Q96DI0|Q9H9X1|Q9Y2N3|Q9Y4S7	Missense_Mutation	SNP	ENST00000434423.2	37		.	.	.	.	.	.	.	.	.	.	G	11.45	1.643085	0.29246	.	.	ENSG00000196313	ENST00000446813;ENST00000257622;ENST00000395270;ENST00000358357;ENST00000434423	T;T;T;T;T	0.05447	3.44;3.45;3.44;3.45;3.68	2.33	-2.14	0.07123	.	1.146690	0.06730	N	0.776488	T	0.04182	0.0116	N	0.25647	0.755	0.09310	N	1	P;B	0.34587	0.458;0.452	B;B	0.35039	0.194;0.164	T	0.41270	-0.9518	10	0.25751	T	0.34	.	3.0328	0.06112	0.0:0.2841:0.2415:0.4744	.	422;687	A8MXF9;Q96HA1	.;P121A_HUMAN	T	422;422;422;422;687	ENSP00000393020:A422T;ENSP00000257622:A422T;ENSP00000378687:A422T;ENSP00000351124:A422T;ENSP00000405562:A687T	ENSP00000257622:A422T	A	+	1	0	POM121	72050527	0.000000	0.05858	0.000000	0.03702	0.323000	0.28346	-0.717000	0.04986	-0.647000	0.05444	0.173000	0.16961	GCT		0.617	POM121-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000347344.1			A	72412591	G	A	72412591	3	1	640	1	0	0	0	0	1	0	0	0	12246	1203	42	2	1302	2	POM121	7	72412591	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	66983949	72412591	86726072	45	39535										
MUC17	140453	hgsc.bcm.edu;mdanderson.org	37	chr7	100681510	100681510	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gaaggtaccagcataccaacTtcaactcttagtgaaggaac	8	10	2	1	rs116767656		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr7:100681510T>C	ENST00000306151.4	+	3	6877	c.6813T>C	c.(6811-6813)acT>acC	p.T2271T		NM_001040105.1	NP_001035194.1	Q685J3	MUC17_HUMAN	mucin 17, cell surface associated	2271	59 X approximate tandem repeats.|Ser-rich.				cellular homeostasis (GO:0019725)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	apical plasma membrane (GO:0016324)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)	extracellular matrix constituent, lubricant activity (GO:0030197)|PDZ domain binding (GO:0030165)			NS(3)|breast(14)|central_nervous_system(2)|cervix(2)|endometrium(27)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(28)|lung(179)|ovary(19)|pancreas(1)|prostate(13)|skin(26)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(4)	343	Lung NSC(181;0.136)|all_lung(186;0.182)					GCATACCAACTTCAACTCTTA	0.488																																																0													262	265	264					7																	100681510		2203	4300	6503	SO:0001819	synonymous_variant	140453			AJ606307	CCDS34711.1	7q22	2007-01-17	2006-03-14		ENSG00000169876	ENSG00000169876		"Mucins"	16800	protein-coding gene	gene with protein product		608424				11855812	Standard	NM_001040105		Approved		uc003uxp.1	Q685J3	OTTHUMG00000157030	ENST00000306151.4:c.6813T>C	7.37:g.100681510T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O14761|Q685J2|Q8TDH7	Silent	SNP	ENST00000306151.4	37	CCDS34711.1																																																																																				0.488	MUC17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347161.1	NM_001040105		C	100681510	T	C	100681510	2	2	640	1	0	0	0	0	0	0	0	1	9981	1596	56	3		3	MUC17	7	100681510	Silent	SNP	T	TCGA-KL-8341-01A-11D-2310-10	28268919	100681510	58457153	46	39536										
MUC17	140453	mdanderson.org	37	chr7	100681951	100681951	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tctgaggctagcacccattcCacaactcctgttgacaccag	7	15	1	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr7:100681951C>A	ENST00000306151.4	+	3	7318	c.7254C>A	c.(7252-7254)tcC>tcA	p.S2418S		NM_001040105.1	NP_001035194.1	Q685J3	MUC17_HUMAN	mucin 17, cell surface associated	2418	59 X approximate tandem repeats.|Ser-rich.				cellular homeostasis (GO:0019725)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	apical plasma membrane (GO:0016324)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)	extracellular matrix constituent, lubricant activity (GO:0030197)|PDZ domain binding (GO:0030165)			NS(3)|breast(14)|central_nervous_system(2)|cervix(2)|endometrium(27)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(28)|lung(179)|ovary(19)|pancreas(1)|prostate(13)|skin(26)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(4)	343	Lung NSC(181;0.136)|all_lung(186;0.182)					GCACCCATTCCACAACTCCTG	0.512																																																0													380	365	370					7																	100681951		2203	4300	6503	SO:0001819	synonymous_variant	140453			AJ606307	CCDS34711.1	7q22	2007-01-17	2006-03-14		ENSG00000169876	ENSG00000169876		"Mucins"	16800	protein-coding gene	gene with protein product		608424				11855812	Standard	NM_001040105		Approved		uc003uxp.1	Q685J3	OTTHUMG00000157030	ENST00000306151.4:c.7254C>A	7.37:g.100681951C>A		Somatic		WXS	Illumina HiSeq	Phase_I	O14761|Q685J2|Q8TDH7	Silent	SNP	ENST00000306151.4	37	CCDS34711.1																																																																																				0.512	MUC17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347161.1	NM_001040105		A	100681951	C	A	100681951	2	1	640	1	0	0	0	0	0	0	0	1	9981	581	21	4		4	MUC17	7	100681951	Silent	SNP	C	TCGA-KL-8341-01A-11D-2310-10	441	100681951	58456712	47	39537										
TAS2R4	50832	mdanderson.org	37	chr7	141478800	141478800	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	taacacatcatttaatatcaGtgagggcatcttgtctttag	7	7	4	1	rs2234002	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr7:141478800G>A	ENST00000247881.2	+	1	559	c.512G>A	c.(511-513)aGt>aAt	p.S171N	SSBP1_ENST00000465582.1_Intron	NM_016944.1	NP_058640.1	Q9NYW5	TA2R4_HUMAN	taste receptor, type 2, member 4	171			S -> N (in dbSNP:rs2234002).		detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)|respiratory gaseous exchange (GO:0007585)|sensory perception of taste (GO:0050909)|signal transduction (GO:0007165)	cilium (GO:0005929)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)|taste receptor activity (GO:0008527)			endometrium(1)|large_intestine(4)|lung(2)	7	Melanoma(164;0.0171)			BRCA - Breast invasive adenocarcinoma(188;0.196)		TTTAATATCAGTGAGGGCATC	0.423													g|||	2461	0.491414	0.1929	0.5663	5008	,	,		22114	0.745		0.4722	False		,,,				2504	0.6002															0								A	ASN/SER	1106,3300	398.5+/-330.9	147,812,1244	263	256	259		512	-8.9	0	7	dbSNP_98	259	4271,4329	574.9+/-390.1	1053,2165,1082	yes	missense	TAS2R4	NM_016944.1	46	1200,2977,2326	AA,AG,GG		49.6628,25.1021,41.3425	benign	171/300	141478800	5377,7629	2203	4300	6503	SO:0001583	missense	50832			AF227131	CCDS5868.1	7q31.3-q32	2012-08-22			ENSG00000127364	ENSG00000127364		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	14911	protein-coding gene	gene with protein product		604869				10761934, 10761935	Standard	NM_016944		Approved	T2R4	uc003vwq.1	Q9NYW5	OTTHUMG00000157634	ENST00000247881.2:c.512G>A	7.37:g.141478800G>A	ENSP00000247881:p.Ser171Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q645W5|Q75MV8	Missense_Mutation	SNP	ENST00000247881.2	37	CCDS5868.1	1081	0.49496336996337	103	0.20934959349593496	198	0.5469613259668509	427	0.7465034965034965	353	0.4656992084432718	g	0.003	-2.486927	0.00161	0.251021	0.496628	ENSG00000127364	ENST00000247881	T	0.00768	5.72	5.06	-8.91	0.00778	.	1.458410	0.03642	N	0.239661	T	0.00012	0.0000	N	0.10760	0.04	0.80722	P	0.0	B	0.02656	0.0	B	0.08055	0.003	T	0.43294	-0.9400	9	0.02654	T	1	.	10.909	0.47097	0.2401:0.2116:0.5482:0.0	rs2234002;rs3735277;rs17523587;rs52816893;rs60480904;rs2234002	171	Q9NYW5	TA2R4_HUMAN	N	171	ENSP00000247881:S171N	ENSP00000247881:S171N	S	+	2	0	TAS2R4	141125269	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.744000	0.04839	-1.732000	0.01359	-0.508000	0.04489	AGT		0.423	TAS2R4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349285.1			A	141478800	G	A	141478800	3	1	640	1	0	0	0	0	1	0	0	0	15589	1029	36	2	514	2	TAS2R4	7	141478800	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	40796849	141478800	17659863	48	39538										
TAS2R38	5726	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr7	141672852	141672852	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gggagacagtcagcatcccaGaagaaaccagaaacaatagg	11	9	1	4			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr7:141672852G>A	ENST00000547270.1	-	1	721	c.638C>T	c.(637-639)tCt>tTt	p.S213F		NM_176817.4	NP_789787	P59533	T2R38_HUMAN	taste receptor, type 2, member 38	213					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			NS(2)|breast(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(7)|prostate(1)|skin(1)|stomach(1)	21	Melanoma(164;0.0171)					CAGCATCCCAGAAGAAACCAG	0.468																																																0													102	109	106					7																	141672852		2203	4300	6503	SO:0001583	missense	5726			AF494231	CCDS34765.1	7q34	2012-10-03	2003-05-29	2003-05-30	ENSG00000257138	ENSG00000257138		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	9584	protein-coding gene	gene with protein product		607751	"phenylthiocarbamide tasting"	PTC		12624758, 12584440	Standard	NM_176817		Approved	T2R61	uc003vwx.1	P59533	OTTHUMG00000158374	ENST00000547270.1:c.638C>T	7.37:g.141672852G>A	ENSP00000448219:p.Ser213Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1U6|P59552|Q2M3E8|Q645W3|Q86UK3	Missense_Mutation	SNP	ENST00000547270.1	37	CCDS34765.1	.	.	.	.	.	.	.	.	.	.	G	0.409	-0.914048	0.02415	.	.	ENSG00000257138	ENST00000547270	T	0.37584	1.19	5.0	2.01	0.26516	.	0.248085	0.33650	N	0.004690	T	0.38931	0.1059	L	0.41961	1.31	0.09310	N	1	D	0.69078	0.997	D	0.70227	0.968	T	0.31475	-0.9942	10	0.02654	T	1	.	7.1803	0.25768	0.0918:0.3262:0.582:0.0	.	213	P59533	T2R38_HUMAN	F	213	ENSP00000448219:S213F	ENSP00000331291:S213F	S	-	2	0	TAS2R38	141319321	0.008000	0.16893	0.098000	0.21074	0.345000	0.29048	0.699000	0.25586	0.672000	0.31204	0.655000	0.94253	TCT		0.468	TAS2R38-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350810.2	NM_176817		A	141672852	G	A	141672852	3	1	640	1	0	0	0	0	1	0	0	0	15587	942	33	2	367	2	TAS2R38	7	141672852	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	194052	141672852	17465811	49	39539										
PRSS1	5644	mdanderson.org	37	chr7	142460752	142460752	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gccctgtggtctgcaatggaCagctccaaggagttgtctcc	12	12	2	0	rs140793689		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr7:142460752C>G	ENST00000311737.7	+	5	631	c.625C>G	c.(625-627)Cag>Gag	p.Q209E	PRSS1_ENST00000486171.1_Missense_Mutation_p.Q223E	NM_002769.4	NP_002760.1	P07477	TRY1_HUMAN	protease, serine, 1 (trypsin 1)	209	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	metal ion binding (GO:0046872)|serine-type endopeptidase activity (GO:0004252)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(24)|prostate(2)	38	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)		Aprotinin(DB06692)	CTGCAATGGACAGCTCCAAGG	0.498																																																0													81	82	82					7																	142460752		2203	4300	6503	SO:0001583	missense	5644			M22612	CCDS5872.1	7q34	2012-10-02			ENSG00000204983	ENSG00000204983	3.4.21.4	"Serine peptidases / Serine peptidases"	9475	protein-coding gene	gene with protein product		276000		TRY1			Standard	NM_002769		Approved		uc003wak.2	P07477	OTTHUMG00000158923	ENST00000311737.7:c.625C>G	7.37:g.142460752C>G	ENSP00000308720:p.Gln209Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A1A509|A6NJ71|B2R5I5|Q5NV57|Q7M4N3|Q7M4N4|Q92955|Q9HAN4|Q9HAN5|Q9HAN6|Q9HAN7	Missense_Mutation	SNP	ENST00000311737.7	37	CCDS5872.1	.	.	.	.	.	.	.	.	.	.	C	0.001	-3.193364	0.00026	.	.	ENSG00000204983	ENST00000486171;ENST00000311737;ENST00000529243	D;D	0.92752	-3.1;-3.1	3.18	-6.37	0.01963	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	0.378699	0.32671	N	0.005798	T	0.78142	0.4237	N	0.11818	0.18	0.23758	N	0.996928	B;B	0.02656	0.0;0.0	B;B	0.09377	0.004;0.003	T	0.62539	-0.6833	10	0.02654	T	1	.	15.6905	0.77446	0.0827:0.7314:0.186:0.0	.	223;209	E7EQ64;P07477	.;TRY1_HUMAN	E	223;209;199	ENSP00000417854:Q223E;ENSP00000308720:Q209E	ENSP00000308720:Q209E	Q	+	1	0	PRSS1	142140326	0.000000	0.05858	0.024000	0.17045	0.003000	0.03518	-1.756000	0.01813	-1.839000	0.01186	0.195000	0.17529	CAG		0.498	PRSS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352538.2			G	142460752	C	G	142460752	3	3	640	1	0	0	0	0	1	0	0	0	12624	479	17	4	643	4	PRSS1	7	142460752	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	787900	142460752	16677911	50	39540										
ADAM28	10863	broad.mit.edu;ucsc.edu	37	chr8	24170913	24170913	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tttttcaggggctacttcagTcagggggatcaaagatactt	11	7	4	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr8:24170913T>C	ENST00000265769.4	+	6	506	c.396T>C	c.(394-396)agT>agC	p.S132S	ADAM28_ENST00000397649.3_5'UTR|ADAM28_ENST00000540823.1_Intron|RP11-624C23.1_ENST00000518988.1_RNA|RP11-624C23.1_ENST00000523700.1_RNA|RP11-624C23.1_ENST00000523578.1_RNA|RP11-624C23.1_ENST00000519689.1_RNA|ADAM28_ENST00000437154.2_Silent_p.S132S	NM_014265.4	NP_055080.2	Q9UKQ2	ADA28_HUMAN	ADAM metallopeptidase domain 28	132					spermatogenesis (GO:0007283)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(10)|lung(7)|prostate(1)|skin(12)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	42		Prostate(55;0.0959)		Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0434)|BRCA - Breast invasive adenocarcinoma(99;0.175)		GCTACTTCAGTCAGGGGGATC	0.383																																					NSCLC(193;488 2149 22258 34798 40734)											0													73	70	71					8																	24170913		2203	4300	6503	SO:0001819	synonymous_variant	10863			AJ242015	CCDS34865.1, CCDS47830.1	8p21.2	2005-11-29	2005-08-18		ENSG00000042980	ENSG00000042980		"ADAM metallopeptidase domain containing"	206	protein-coding gene	gene with protein product		606188	"a disintegrin and metalloproteinase domain 28"				Standard	XM_005273378		Approved	eMDCII, MDC-Lm, MDC-Ls, ADAM23	uc003xdy.3	Q9UKQ2	OTTHUMG00000163780	ENST00000265769.4:c.396T>C	8.37:g.24170913T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RMV5|Q9Y339|Q9Y3S0	Silent	SNP	ENST00000265769.4	37	CCDS34865.1																																																																																				0.383	ADAM28-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375441.2	NM_021778		C	24170913	T	C	24170913	2	2	640	1	0	0	0	0	0	0	0	1	246	1664	58	3		3	ADAM28	8	24170913	Silent	SNP	T	TCGA-KL-8341-01A-11D-2310-10		24170913	122193109	51	39541										
PABPC1	26986	broad.mit.edu	37	chr8	101733701	101733702	+	Frame_Shift_Ins	INS	-	-	A													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tgcagacccggatggagaggINSatgggcccggccgggctgaa					rs149111517		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr8:101733701_101733702insA	ENST00000318607.5	-	1	1238_1239	c.110_111insT	c.(109-111)atcfs	p.I37fs	PABPC1_ENST00000519004.1_Intron|PABPC1_ENST00000522387.1_Frame_Shift_Ins_p.I37fs	NM_002568.3	NP_002559.2	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	37	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|mRNA polyadenylation (GO:0006378)|mRNA splicing, via spliceosome (GO:0000398)|mRNA stabilization (GO:0048255)|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:2000623)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|positive regulation of translation (GO:0045727)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)|poly(U) RNA binding (GO:0008266)|protein C-terminus binding (GO:0008022)|translation activator activity (GO:0008494)			breast(2)|endometrium(4)|kidney(15)|large_intestine(4)|lung(13)|prostate(1)|skin(1)	40	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			GGATGGAGAGGATGGGCCCGGC	0.683																																																0																																										SO:0001589	frameshift_variant	26986			Y00345	CCDS6289.1	8q22.2-q23	2013-02-12	2004-04-20		ENSG00000070756	ENSG00000070756		"RNA binding motif (RRM) containing"	8554	protein-coding gene	gene with protein product		604679	"poly(A)-binding protein, cytoplasmic 2"	PAB1, PABPC2		2885805	Standard	XM_005250861		Approved	PABP1, PABPL1	uc003yjs.1	P11940	OTTHUMG00000164779	ENST00000318607.5:c.111dupT	8.37:g.101733702_101733702dupA	ENSP00000313007:p.Ile37fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q15097|Q93004	Frame_Shift_Ins	INS	ENST00000318607.5	37	CCDS6289.1																																																																																				0.683	PABPC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380217.1	NM_002568		A	101733702	-	A	101733701	7	5	640	1	0	1	1	0	0	0	0	0	11370	1164	41	0	1855	0	PABPC1	8	101733701	Frame_Shift_Ins	INS	-	TCGA-KL-8341-01A-11D-2310-10	77562788	101733701	44630321	52	39542	335	2	1	88		3	2	23	N	T_-	8.740856e-05
PABPC1	26986	broad.mit.edu	37	chr8	101733702	101733703	+	Frame_Shift_Ins	INS	-	-	G													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gcagacccggatggagaggaINStgggcccggccgggctgaac							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr8:101733702_101733703insG	ENST00000318607.5	-	1	1237_1238	c.109_110insC	c.(109-111)atcfs	p.I37fs	PABPC1_ENST00000519004.1_Intron|PABPC1_ENST00000522387.1_Frame_Shift_Ins_p.I37fs	NM_002568.3	NP_002559.2	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	37	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|mRNA polyadenylation (GO:0006378)|mRNA splicing, via spliceosome (GO:0000398)|mRNA stabilization (GO:0048255)|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:2000623)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|positive regulation of translation (GO:0045727)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)|poly(U) RNA binding (GO:0008266)|protein C-terminus binding (GO:0008022)|translation activator activity (GO:0008494)			breast(2)|endometrium(4)|kidney(15)|large_intestine(4)|lung(13)|prostate(1)|skin(1)	40	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			GATGGAGAGGATGGGCCCGGCC	0.683																																																0																																										SO:0001589	frameshift_variant	26986			Y00345	CCDS6289.1	8q22.2-q23	2013-02-12	2004-04-20		ENSG00000070756	ENSG00000070756		"RNA binding motif (RRM) containing"	8554	protein-coding gene	gene with protein product		604679	"poly(A)-binding protein, cytoplasmic 2"	PAB1, PABPC2		2885805	Standard	XM_005250861		Approved	PABP1, PABPL1	uc003yjs.1	P11940	OTTHUMG00000164779	ENST00000318607.5:c.109_110insC	8.37:g.101733702_101733703insG	ENSP00000313007:p.Ile37fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q15097|Q93004	Frame_Shift_Ins	INS	ENST00000318607.5	37	CCDS6289.1																																																																																				0.683	PABPC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380217.1	NM_002568		G	101733703	-	G	101733702	7	5	640	1	0	1	1	0	0	0	0	0	11370	333	12	0	1856	0	PABPC1	8	101733702	Frame_Shift_Ins	INS	-	TCGA-KL-8341-01A-11D-2310-10	1	101733702	44630320	53	39543	335	2	1	88		3	2	23	N	T_-	8.740856e-05
PABPC1	26986	broad.mit.edu	37	chr8	101733723	101733723	+	Frame_Shift_Del	DEL	T	T	-													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tgggcccggccgggctgaacTtctcgtagagcatcgcctcg							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr8:101733723delT	ENST00000318607.5	-	1	1217	c.89delA	c.(88-90)aagfs	p.K30fs	PABPC1_ENST00000519004.1_Intron|PABPC1_ENST00000522387.1_Frame_Shift_Del_p.K30fs	NM_002568.3	NP_002559.2	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	30	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|mRNA polyadenylation (GO:0006378)|mRNA splicing, via spliceosome (GO:0000398)|mRNA stabilization (GO:0048255)|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:2000623)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|positive regulation of translation (GO:0045727)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)|poly(U) RNA binding (GO:0008266)|protein C-terminus binding (GO:0008022)|translation activator activity (GO:0008494)			breast(2)|endometrium(4)|kidney(15)|large_intestine(4)|lung(13)|prostate(1)|skin(1)	40	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			CGGGCTGAACTTCTCGTAGAG	0.667																																																0													27	31	30					8																	101733723		2203	4299	6502	SO:0001589	frameshift_variant	26986			Y00345	CCDS6289.1	8q22.2-q23	2013-02-12	2004-04-20		ENSG00000070756	ENSG00000070756		"RNA binding motif (RRM) containing"	8554	protein-coding gene	gene with protein product		604679	"poly(A)-binding protein, cytoplasmic 2"	PAB1, PABPC2		2885805	Standard	XM_005250861		Approved	PABP1, PABPL1	uc003yjs.1	P11940	OTTHUMG00000164779	ENST00000318607.5:c.89delA	8.37:g.101733723delT	ENSP00000313007:p.Lys30fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q15097|Q93004	Frame_Shift_Del	DEL	ENST00000318607.5	37	CCDS6289.1																																																																																				0.667	PABPC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380217.1	NM_002568		-	101733723	T	-	101733723	7	5	640	1	0	1	0	1	0	0	0	0	11370	1609	56	0	1877	0	PABPC1	8	101733723	Frame_Shift_Del	DEL	T	TCGA-KL-8341-01A-11D-2310-10	21	101733723	44630299	54	39544			1	88		3	2	23	N	T_-	8.740856e-05
UBR5	51366	mdanderson.org;bcgsc.ca	37	chr8	103277497	103277497	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	actagagccatggcgctttcGgttttcctgctaacagagaa	10	10	0	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr8:103277497G>A	ENST00000520539.1	-	53	8038	c.7432C>T	c.(7432-7434)Cga>Tga	p.R2478*	UBR5_ENST00000521922.1_Nonsense_Mutation_p.R2471*|UBR5_ENST00000518205.1_Nonsense_Mutation_p.R206*|UBR5_ENST00000220959.4_Nonsense_Mutation_p.R2477*	NM_001282873.1|NM_015902.5	NP_001269802.1|NP_056986.2	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin 5	2478	HECT. {ECO:0000255|PROSITE- ProRule:PRU00104}.				cell proliferation (GO:0008283)|cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|negative regulation of double-strand break repair (GO:2000780)|negative regulation of histone H2A K63-linked ubiquitination (GO:1901315)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of catenin import into nucleus (GO:0035413)|positive regulation of protein import into nucleus, translocation (GO:0033160)|progesterone receptor signaling pathway (GO:0050847)|protein polyubiquitination (GO:0000209)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	ligase activity (GO:0016874)|RNA binding (GO:0003723)|ubiquitin-protein transferase activity (GO:0004842)|ubiquitin-ubiquitin ligase activity (GO:0034450)|zinc ion binding (GO:0008270)			NS(1)|breast(13)|central_nervous_system(1)|cervix(1)|endometrium(7)|kidney(8)|large_intestine(19)|liver(1)|lung(51)|ovary(6)|pancreas(1)|prostate(5)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(2)	124	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			TGGCGCTTTCGGTTTTCCTGC	0.393																																					Ovarian(131;96 1741 5634 7352 27489)											0													73	73	73					8																	103277497		2203	4300	6503	SO:0001587	stop_gained	51366			AF006010	CCDS34933.1, CCDS64946.1	8q22	2008-06-23	2007-06-19	2007-06-19	ENSG00000104517	ENSG00000104517		"Ubiquitin protein ligase E3 component n-recognins"	16806	protein-coding gene	gene with protein product		608413	"E3 ubiquitin protein ligase, HECT domain containing, 1"	EDD1		10030672, 16055722	Standard	NM_015902		Approved	DD5, HYD, EDD, KIAA0896	uc003ykr.2	O95071	OTTHUMG00000164755	ENST00000520539.1:c.7432C>T	8.37:g.103277497G>A	ENSP00000429084:p.Arg2478*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP24|J3KMW7|O94970|Q9NPL3	Nonsense_Mutation	SNP	ENST00000520539.1	37	CCDS34933.1	.	.	.	.	.	.	.	.	.	.	G	51	18.249704	0.99902	.	.	ENSG00000104517	ENST00000520539;ENST00000220959;ENST00000518205;ENST00000521922	.	.	.	5.27	3.33	0.38152	.	0.000000	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	13.3267	0.60463	0.0:0.0:0.6066:0.3934	.	.	.	.	X	2478;2477;206;2471	.	ENSP00000220959:R2477X	R	-	1	2	UBR5	103346673	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	2.583000	0.46094	1.179000	0.42884	0.655000	0.94253	CGA		0.393	UBR5-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000380075.2	NM_015902		A	103277497	G	A	103277497	4	1	640	1	0	0	0	0	0	1	0	0	16917	1124	39	1	995	1	UBR5	8	103277497	Nonsense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	1543774	103277497	43086525	55	39545										
KLF10	7071	mdanderson.org	37	chr8	103663512	103663512	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ttttgctgctgaaggggaaaAcccaggagcaggggcaatgg	16	7	0	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr8:103663512A>G	ENST00000285407.6	-	3	1348	c.1048T>C	c.(1048-1050)Ttt>Ctt	p.F350L	KLF10_ENST00000395884.3_Missense_Mutation_p.F339L	NM_005655.2	NP_005646.1	Q13118	KLF10_HUMAN	Kruppel-like factor 10	350					bone mineralization (GO:0030282)|cell proliferation (GO:0008283)|cell-cell signaling (GO:0007267)|cellular response to peptide (GO:1901653)|cellular response to starvation (GO:0009267)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of osteoclast differentiation (GO:0045672)|regulation of circadian rhythm (GO:0042752)|skeletal system development (GO:0001501)|somatic stem cell maintenance (GO:0035019)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	nucleus (GO:0005634)	core promoter sequence-specific DNA binding (GO:0001046)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			cervix(1)|endometrium(1)|kidney(3)|large_intestine(2)|lung(8)|prostate(3)	18	all_epithelial(15;5.63e-07)|Lung NSC(17;8.18e-05)|all_lung(17;0.000169)		OV - Ovarian serous cystadenocarcinoma(57;0.000112)|STAD - Stomach adenocarcinoma(118;0.0826)			GAAGGGGAAAACCCAGGAGCA	0.517																																					Esophageal Squamous(16;495 519 2144 16528 44005)											0													82	94	90					8																	103663512		2203	4300	6503	SO:0001583	missense	7071			U21847	CCDS6294.1, CCDS47905.1	8q22.3	2014-09-17	2004-11-29	2004-12-01	ENSG00000155090	ENSG00000155090		"Kruppel-like transcription factors", "Zinc fingers, C2H2-type"	11810	protein-coding gene	gene with protein product		601878	"TGFB inducible early growth response"	TIEG		8584037, 9721211	Standard	NM_001032282		Approved	EGRA, TIEG1	uc011lhk.1	Q13118	OTTHUMG00000164735	ENST00000285407.6:c.1048T>C	8.37:g.103663512A>G	ENSP00000285407:p.Phe350Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8MVH0|B2R794|L0R4P6|L0R679|O75411|Q503B2	Missense_Mutation	SNP	ENST00000285407.6	37	CCDS6294.1	.	.	.	.	.	.	.	.	.	.	A	12.48	1.950337	0.34377	.	.	ENSG00000155090	ENST00000285407;ENST00000395884	T;T	0.13089	2.62;2.68	5.5	4.35	0.52113	.	0.151335	0.47852	N	0.000211	T	0.12732	0.0309	M	0.64997	1.995	0.09310	N	1	B;B	0.06786	0.001;0.001	B;B	0.06405	0.001;0.002	T	0.33033	-0.9884	10	0.15499	T	0.54	.	6.6187	0.22790	0.7913:0.0:0.0722:0.1366	.	350;339	Q13118;O75411	KLF10_HUMAN;.	L	350;339	ENSP00000285407:F350L;ENSP00000379222:F339L	ENSP00000285407:F350L	F	-	1	0	KLF10	103732688	0.947000	0.32204	0.179000	0.23059	0.987000	0.75469	3.510000	0.53393	1.033000	0.39918	0.533000	0.62120	TTT		0.517	KLF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379967.1			G	103663512	A	G	103663512	3	3	640	1	0	0	0	0	1	0	0	0	8345	43	2	3	402	3	KLF10	8	103663512	Missense_Mutation	SNP	A	TCGA-KL-8341-01A-11D-2310-10	386015	103663512	42700510	56	39546										
RIMS2	9699	broad.mit.edu	37	chr8	104513292	104513292	+	Splice_Site	DEL	T	T	-													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	aggagcagtccgtgctcaagTaaggacctggctccatattc							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr8:104513292delT	ENST00000406091.3	+	1	176		c.e1+2		RP11-1C8.4_ENST00000517376.1_RNA|RP11-1C8.4_ENST00000523422.1_RNA	NM_001100117.2	NP_001093587.1	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2						calcium ion-dependent exocytosis (GO:0017156)|calcium ion-dependent exocytosis of neurotransmitter (GO:0048791)|cAMP-mediated signaling (GO:0019933)|insulin secretion (GO:0030073)|intracellular protein transport (GO:0006886)|positive regulation of gene expression (GO:0010628)|positive regulation of inhibitory postsynaptic membrane potential (GO:0097151)|regulation of exocytosis (GO:0017157)	cell junction (GO:0030054)|plasma membrane (GO:0005886)|presynaptic active zone (GO:0048786)	metal ion binding (GO:0046872)			NS(1)|breast(4)|central_nervous_system(5)|endometrium(8)|haematopoietic_and_lymphoid_tissue(4)|kidney(2)|large_intestine(22)|liver(1)|lung(68)|ovary(6)|pancreas(2)|prostate(3)|skin(6)|stomach(1)|upper_aerodigestive_tract(10)|urinary_tract(1)	144			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CGTGCTCAAGTAAGGACCTGG	0.652										HNSCC(12;0.0054)																																						0													29	34	33					8																	104513292		1977	4133	6110	SO:0001630	splice_region_variant	9699			AB018294	CCDS43761.1, CCDS64948.1, CCDS64949.1	8q22.3	2008-08-08	2002-06-12	2002-06-14					17283	protein-coding gene	gene with protein product		606630	"RAB3 interacting protein 3"	RAB3IP3		9872452, 12578829	Standard	NM_014677		Approved	KIAA0751, RIM2, OBOE	uc003ylp.3	Q9UQ26		ENST00000406091.3:c.176+2T>-	8.37:g.104513292delT		Somatic		WXS	Illumina HiSeq	Phase_I	B3KX91|F8WD47|O43413|Q86XL9|Q8IWV9|Q8IWW1	Splice_Site	DEL	ENST00000406091.3	37	CCDS55269.1																																																																																				0.652	RIMS2-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001100117	Intron	-	104513292	T	-	104513292	8	5	640	1	0	1	0	1	0	0	1	0	13381	1652	57	0	180	0	RIMS2	8	104513292	Splice_Site	DEL	T	TCGA-KL-8341-01A-11D-2310-10	849780	104513292	41850730	57	39547										
LRP12	29967	ucsc.edu;bcgsc.ca	37	chr8	105510296	105510296	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	acaagcacaatttggttcctCagatttccctgtgaagatgt	8	9	1	3			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr8:105510296C>T	ENST00000276654.5	-	5	592	c.484G>A	c.(484-486)Gag>Aag	p.E162K	LRP12_ENST00000424843.2_Missense_Mutation_p.E143K|LRP12_ENST00000518375.1_5'Flank	NM_013437.4	NP_038465.1	Q9Y561	LRP12_HUMAN	low density lipoprotein receptor-related protein 12	162					endocytosis (GO:0006897)|receptor-mediated endocytosis (GO:0006898)|regulation of growth (GO:0040008)|signal transduction (GO:0007165)	coated pit (GO:0005905)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)	low-density lipoprotein receptor activity (GO:0005041)			NS(1)|breast(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(10)|lung(18)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	48			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			TTTGGTTCCTCAGATTTCCCT	0.333																																																0													72	69	70					8																	105510296		2203	4300	6503	SO:0001583	missense	29967			AF166350	CCDS6303.1, CCDS47907.1	8q22.2	2013-02-27	2010-01-26		ENSG00000147650	ENSG00000147650		"Low density lipoprotein receptors"	31708	protein-coding gene	gene with protein product						12809483, 14676824	Standard	NM_013437		Approved	ST7, FLJ12929	uc003yma.3	Q9Y561	OTTHUMG00000164892	ENST00000276654.5:c.484G>A	8.37:g.105510296C>T	ENSP00000276654:p.Glu162Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K137|B4DRQ2	Missense_Mutation	SNP	ENST00000276654.5	37	CCDS6303.1	.	.	.	.	.	.	.	.	.	.	C	11.34	1.611264	0.28712	.	.	ENSG00000147650	ENST00000424843;ENST00000276654	D;D	0.84442	-1.85;-1.78	5.5	5.5	0.81552	.	0.101931	0.64402	D	0.000002	T	0.78679	0.4321	L	0.40543	1.245	0.80722	D	1	B;B	0.20164	0.042;0.025	B;B	0.26310	0.068;0.031	T	0.71210	-0.4660	10	0.09590	T	0.72	-16.7257	13.6751	0.62449	0.0:0.9266:0.0:0.0734	.	143;162	Q9Y561-2;Q9Y561	.;LRP12_HUMAN	K	143;162	ENSP00000399148:E143K;ENSP00000276654:E162K	ENSP00000276654:E162K	E	-	1	0	LRP12	105579472	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.681000	0.61663	2.584000	0.87258	0.563000	0.77884	GAG		0.333	LRP12-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380821.1	NM_013437		T	105510296	C	T	105510296	3	4	640	1	0	0	0	0	1	0	0	0	8961	835	29	2	2107	2	LRP12	8	105510296	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	997004	105510296	40853726	58	39548										
HAS2	3037	broad.mit.edu	37	chr8	122626903	122626903	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ccacaagtgatgtttgtgaaAccacattgcattgtacagcc	8	10	0	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr8:122626903A>G	ENST00000303924.4	-	4	1642	c.1105T>C	c.(1105-1107)Ttt>Ctt	p.F369L		NM_005328.2	NP_005319.1	Q92819	HYAS2_HUMAN	hyaluronan synthase 2	369					atrioventricular canal development (GO:0036302)|bone morphogenesis (GO:0060349)|cellular response to fluid shear stress (GO:0071498)|cellular response to interleukin-1 (GO:0071347)|cellular response to platelet-derived growth factor stimulus (GO:0036120)|cellular response to tumor necrosis factor (GO:0071356)|endocardial cushion to mesenchymal transition (GO:0090500)|extracellular matrix assembly (GO:0085029)|extracellular polysaccharide biosynthetic process (GO:0045226)|hyaluronan biosynthetic process (GO:0030213)|kidney development (GO:0001822)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of monocyte aggregation (GO:1900625)|positive regulation of urine volume (GO:0035810)|renal water absorption (GO:0070295)|vasculogenesis (GO:0001570)	integral component of plasma membrane (GO:0005887)	hyaluronan synthase activity (GO:0050501)		HAS2/PLAG1(10)	breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(5)|lung(19)|ovary(5)|skin(1)	38	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			TGTTTGTGAAACCACATTGCA	0.448																																																0													174	149	157					8																	122626903		2203	4300	6503	SO:0001583	missense	3037			U54804	CCDS6335.1	8q24.12	2013-02-22			ENSG00000170961	ENSG00000170961	2.4.1.212	"Glycosyltransferase family 2 domain containing"	4819	protein-coding gene	gene with protein product		601636				9169154	Standard	NM_005328		Approved		uc003yph.2	Q92819	OTTHUMG00000164953	ENST00000303924.4:c.1105T>C	8.37:g.122626903A>G	ENSP00000306991:p.Phe369Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q32MM3	Missense_Mutation	SNP	ENST00000303924.4	37	CCDS6335.1	.	.	.	.	.	.	.	.	.	.	A	21.9	4.214257	0.79352	.	.	ENSG00000170961	ENST00000303924	T	0.58060	0.36	6.02	6.02	0.97574	.	0.000000	0.85682	D	0.000000	T	0.53610	0.1807	L	0.28014	0.82	0.80722	D	1	D	0.56287	0.975	P	0.58660	0.843	T	0.45205	-0.9277	10	0.09084	T	0.74	-22.3438	16.5427	0.84406	1.0:0.0:0.0:0.0	.	369	Q92819	HAS2_HUMAN	L	369	ENSP00000306991:F369L	ENSP00000306991:F369L	F	-	1	0	HAS2	122696084	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	9.318000	0.96334	2.309000	0.77851	0.448000	0.29417	TTT		0.448	HAS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381150.2	NM_005328		G	122626903	A	G	122626903	3	3	640	1	0	0	0	0	1	0	0	0	6969	43	2	3	557	3	HAS2	8	122626903	Missense_Mutation	SNP	A	TCGA-KL-8341-01A-11D-2310-10	17116607	122626903	23737119	59	39549										
ZC3H3	23144	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr8	144550602	144550602	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tggatgtaggggcagcgctcGccacggttgcacctgccgaa	15	12	0	0			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr8:144550602G>A	ENST00000262577.5	-	7	2086	c.2055C>T	c.(2053-2055)ggC>ggT	p.G685G		NM_015117.2	NP_055932.2	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	685					mRNA polyadenylation (GO:0006378)|poly(A)+ mRNA export from nucleus (GO:0016973)|regulation of mRNA export from nucleus (GO:0010793)	nucleus (GO:0005634)	metal ion binding (GO:0046872)			breast(1)|endometrium(2)|kidney(2)|large_intestine(1)|lung(13)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	23	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			GGCAGCGCTCGCCACGGTTGC	0.672																																																0													32	34	33					8																	144550602		2193	4298	6491	SO:0001819	synonymous_variant	23144			D63484	CCDS6402.1	8q24.3	2012-07-05	2005-06-02	2005-06-02	ENSG00000014164	ENSG00000014164		"Zinc fingers, CCCH-type domain containing"	28972	protein-coding gene	gene with protein product			"zinc finger CCCH-type domain containing 3"	ZC3HDC3		8590280	Standard	NM_015117		Approved	KIAA0150	uc003yyd.2	Q8IXZ2	OTTHUMG00000165127	ENST00000262577.5:c.2055C>T	8.37:g.144550602G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q14163|Q8N4E2|Q9BUS4	Silent	SNP	ENST00000262577.5	37	CCDS6402.1																																																																																				0.672	ZC3H3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382011.2	NM_015117		A	144550602	G	A	144550602	2	1	640	1	0	0	0	0	0	0	0	1	17581	1074	38	1		1	ZC3H3	8	144550602	Silent	SNP	G	TCGA-KL-8341-01A-11D-2310-10	21923699	144550602	1813420	60	39550										
MCART1	92014	mdanderson.org	37	chr9	37888331	37888331	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	atttcgaaatccatcccttcTcaactgaagtattgcatccc	4	13	1	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr9:37888331T>C	ENST00000377716.2	-	3	960	c.217A>G	c.(217-219)Aga>Gga	p.R73G	SLC25A51_ENST00000380590.3_Missense_Mutation_p.R73G|SLC25A51_ENST00000496760.1_Intron|SLC25A51_ENST00000242275.6_Missense_Mutation_p.R73G|RP11-613M10.9_ENST00000540557.1_Intron			Q9H1U9	S2551_HUMAN	solute carrier family 25, member 51	73					transport (GO:0006810)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)											CCATCCCTTCTCAACTGAAGT	0.438																																																0													113	101	105					9																	37888331		2203	4300	6503	SO:0001583	missense	92014			BC008500	CCDS6614.1	9p13.3-p12	2013-05-22	2012-03-29	2012-03-29	ENSG00000122696	ENSG00000122696		"Solute carriers"	23323	protein-coding gene	gene with protein product			"mitochondrial carrier triple repeat 1"	MCART1		12477932	Standard	NM_033412		Approved	MGC14836, CG7943	uc004aav.2	Q9H1U9	OTTHUMG00000019935	ENST00000377716.2:c.217A>G	9.37:g.37888331T>C	ENSP00000366945:p.Arg73Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000377716.2	37	CCDS6614.1	.	.	.	.	.	.	.	.	.	.	.	15.70	2.910659	0.52439	.	.	ENSG00000122696	ENST00000380590;ENST00000377716;ENST00000242275	T;T;T	0.80480	-1.38;-1.38;-1.38	5.18	-0.605	0.11623	Mitochondrial carrier domain (2);	0.207650	0.39687	N	0.001283	D	0.83018	0.5163	M	0.82132	2.575	0.36010	D	0.838007	B	0.20780	0.048	B	0.38020	0.263	D	0.84228	0.0465	10	0.62326	D	0.03	.	13.6954	0.62575	0.0:0.0:0.6378:0.3622	.	73	Q9H1U9	MCAR1_HUMAN	G	73	ENSP00000369964:R73G;ENSP00000366945:R73G;ENSP00000242275:R73G	ENSP00000242275:R73G	R	-	1	2	MCART1	37878331	1.000000	0.71417	0.951000	0.38953	0.903000	0.53119	2.106000	0.41835	0.278000	0.22164	0.477000	0.44152	AGA		0.438	SLC25A51-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313746.1	NM_033412		C	37888331	T	C	37888331	3	2	640	1	0	0	0	0	1	0	0	0	9376	1559	54	3	680	3	MCART1	9	37888331	Missense_Mutation	SNP	T	TCGA-KL-8341-01A-11D-2310-10		37888331	103325100	61	39551										
FAM22G	441457	broad.mit.edu	37	chr9	99701229	99701231	+	In_Frame_Del	DEL	CTT	CTT	-													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	aagaggcctcagcccatcacCttctcctgccagcaagtcca					rs201499337|rs372223045		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr9:99701229_99701231delCTT	ENST00000372322.3	+	7	2045_2047	c.2024_2026delCTT	c.(2023-2028)ccttct>cct	p.S676del	NUTM2G_ENST00000354649.3_Intron|HIATL2_ENST00000506067.1_Intron	NM_001170741.1	NP_001164212.1	Q5VZR2	NTM2G_HUMAN	NUT family member 2G	676																	AGCCCATCACCTTCTCCTGCCAG	0.611																																																0									,	59,2459		28,3,1228					,	-2	0			46	135,6387		64,7,3190	no	coding,intron	FAM22G	NM_001170741.1,NM_001045477.2	,	92,10,4418	A1A1,A1R,RR		2.0699,2.3431,2.146	,	,		194,8846				SO:0001651	inframe_deletion	441457				CCDS43854.1, CCDS55329.1	9q22.33	2013-05-02	2013-03-14	2013-05-02	ENSG00000188152	ENSG00000188152			23449	protein-coding gene	gene with protein product			"family with sequence similarity 22, member G"	FAM22G			Standard	NM_001045477		Approved			Q5VZR2	OTTHUMG00000020305	ENST00000372322.3:c.2024_2026delCTT	9.37:g.99701229_99701231delCTT	ENSP00000361397:p.Ser676del	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNI5|Q5VZR3	In_Frame_Del	DEL	ENST00000372322.3	37	CCDS55329.1																																																																																				0.611	NUTM2G-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000053291.2	NM_001170741		-	99701231	CTT	-	99701229	7	5	640	1	0	1	0	1	0	0	0	0	5550	681	24	0	2050	0	FAM22G	9	99701229	In_Frame_Del	DEL	CTT	TCGA-KL-8341-01A-11D-2310-10	61812898	99701229	41512202	62	39552										
OR13C2	392376	broad.mit.edu	37	chr9	107367738	107367738	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	cccagaaagaagtacataggGgtgtgaaggtgagggtccaa	15	6	0	4			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr9:107367738G>C	ENST00000542196.1	-	1	213	c.171C>G	c.(169-171)acC>acG	p.T57T		NM_001004481.1	NP_001004481.1	Q8NGS9	O13C2_HUMAN	olfactory receptor, family 13, subfamily C, member 2	57						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			cervix(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(10)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	22						AGTACATAGGGGTGTGAAGGT	0.448																																																0													17	18	18					9																	107367738		2179	4273	6452	SO:0001819	synonymous_variant	392376				CCDS35092.1	9q31.1	2012-10-03			ENSG00000257019	ENSG00000276119		"GPCR / Class A : Olfactory receptors"	14701	protein-coding gene	gene with protein product							Standard	NM_001004481		Approved		uc011lvq.2	Q8NGS9	OTTHUMG00000020415	ENST00000542196.1:c.171C>G	9.37:g.107367738G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B9EGV8|Q6IF54	Silent	SNP	ENST00000542196.1	37	CCDS35092.1																																																																																				0.448	OR13C2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053489.2	NM_001004481		C	107367738	G	C	107367738	2	2	640	1	0	0	0	0	0	0	0	1	10941	1219	43	4		4	OR13C2	9	107367738	Silent	SNP	G	TCGA-KL-8341-01A-11D-2310-10	7666509	107367738	33845693	63	39553										
KCNMA1	3778	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	78649263	78649263	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	catctctcagccggtaaattCcaaaacaaagcatattatat	4	10	2	0			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr10:78649263C>A	ENST00000286628.8	-	27	3406	c.3407G>T	c.(3406-3408)gGa>gTa	p.G1136V	RP11-443A13.5_ENST00000595702.1_RNA|KCNMA1_ENST00000372440.1_Missense_Mutation_p.G1078V|KCNMA1_ENST00000406533.3_Missense_Mutation_p.G1140V|KCNMA1_ENST00000286627.5_Missense_Mutation_p.G1078V|RP11-443A13.5_ENST00000458661.2_RNA|RP11-443A13.5_ENST00000609102.1_RNA|KCNMA1_ENST00000354353.5_Missense_Mutation_p.G1139V|RP11-443A13.5_ENST00000429850.2_RNA|KCNMA1_ENST00000372443.1_Missense_Mutation_p.G1105V|KCNMA1_ENST00000404857.1_Missense_Mutation_p.G1119V|KCNMA1_ENST00000404771.3_Missense_Mutation_p.G1136V	NM_001161352.1	NP_001154824.1	Q12791	KCMA1_HUMAN	potassium large conductance calcium-activated channel, subfamily M, alpha member 1	1136					blood coagulation (GO:0007596)|cellular potassium ion homeostasis (GO:0030007)|micturition (GO:0060073)|negative regulation of cell volume (GO:0045794)|positive regulation of apoptotic process (GO:0043065)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|regulation of membrane potential (GO:0042391)|response to calcium ion (GO:0051592)|response to carbon monoxide (GO:0034465)|response to hypoxia (GO:0001666)|response to osmotic stress (GO:0006970)|smooth muscle contraction involved in micturition (GO:0060083)|synaptic transmission (GO:0007268)	apical plasma membrane (GO:0016324)|caveola (GO:0005901)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	actin binding (GO:0003779)|calcium-activated potassium channel activity (GO:0015269)|large conductance calcium-activated potassium channel activity (GO:0060072)|metal ion binding (GO:0046872)|voltage-gated potassium channel activity (GO:0005249)			breast(1)|cervix(2)|endometrium(6)|kidney(3)|large_intestine(17)|lung(23)|ovary(2)|pancreas(2)|prostate(4)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	68	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Chlorzoxazone(DB00356)|Cromoglicic acid(DB01003)|Diazoxide(DB01119)|Halothane(DB01159)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Miconazole(DB01110)|Procaine(DB00721)	CCGGTAAATTCCAAAACAAAG	0.443																																																0													88	87	87					10																	78649263		2203	4300	6503	SO:0001583	missense	3778			U11717	CCDS7352.1, CCDS60569.1, CCDS60571.1, CCDS60572.1, CCDS73156.1	10q22	2012-07-05			ENSG00000156113	ENSG00000156113		"Potassium channels", "Voltage-gated ion channels / Potassium channels, calcium-activated"	6284	protein-coding gene	gene with protein product	"BK channel alpha subunit"	600150		SLO		7987297, 16382103	Standard	NM_002247		Approved	KCa1.1, mSLO1	uc001jxn.3	Q12791	OTTHUMG00000018543	ENST00000286628.8:c.3407G>T	10.37:g.78649263C>A	ENSP00000286628:p.Gly1136Val	Somatic		WXS	Illumina HiSeq	Phase_I	F8WA96|Q12886|Q12917|Q12921|Q12960|Q13150|Q5JQ23|Q5SQR9|Q96LG8|Q9UBB0|Q9UCX0|Q9UQK6	Missense_Mutation	SNP	ENST00000286628.8	37		.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	C|C|C	23.3|23.3|23.3	4.404355|4.404355|4.404355	0.83230|0.83230|0.83230	.|.|.	.|.|.	ENSG00000156113|ENSG00000156113|ENSG00000156113	ENST00000372403|ENST00000372440;ENST00000372408;ENST00000372437;ENST00000457953;ENST00000404771;ENST00000372443;ENST00000286627;ENST00000286628;ENST00000406533;ENST00000354353;ENST00000404857;ENST00000412708|ENST00000372421;ENST00000434208	.|D;D;D;D;D;D;D;D;D|.	.|0.95949|.	.|-3.77;-3.73;-3.79;-3.83;-3.71;-3.73;-3.86;-3.85;-3.69|.	6.17|6.17|6.17	5.27|5.27|5.27	0.74061|0.74061|0.74061	.|.|.	.|0.047500|.	.|0.85682|.	.|D|.	.|0.000000|.	.|T|T	.|0.74650|0.74650	.|0.3744|0.3744	M|M|M	0.76170|0.76170|0.76170	2.325|2.325|2.325	0.80722|0.80722|0.80722	D|D|D	1|1|1	.|D;D;D;D;D;D;D;D|.	.|0.89917|.	.|1.0;1.0;1.0;1.0;1.0;1.0;1.0;1.0|.	.|D;D;D;D;D;D;D;D|.	.|0.97110|.	.|1.0;1.0;1.0;1.0;1.0;0.999;1.0;1.0|.	.|T|T	.|0.75687|0.75687	.|-0.3231|-0.3231	.|10|5	.|0.87932|.	.|D|.	.|0|.	-9.6059|-9.6059|-9.6059	15.336|15.336|15.336	0.74255|0.74255|0.74255	0.0:0.9338:0.0:0.0662|0.0:0.9338:0.0:0.0662|0.0:0.9338:0.0:0.0662	.|.|.	.|1107;1108;1119;1136;1078;889;1139;1105|.	.|Q12791-4;B7ZMF5;Q12791-2;Q12791;Q12791-5;C9JFZ9;F8WA96;Q5SVJ7|.	.|.;.;.;KCMA1_HUMAN;.;.;.;.|.	X|V|C	1029|1078;1015;1071;1110;1073;1105;1078;1110;1140;1139;1119;889|1066;785	.|ENSP00000361517:G1078V;ENSP00000361485:G1015V;ENSP00000361514:G1071V;ENSP00000396608:G1110V;ENSP00000361520:G1105V;ENSP00000286627:G1078V;ENSP00000385552:G1140V;ENSP00000346321:G1139V;ENSP00000385806:G1119V|.	.|ENSP00000286627:G1078V|.	E|G|W	-|-|-	1|2|3	0|0|0	KCNMA1|KCNMA1|KCNMA1	78319269|78319269|78319269	1.000000|1.000000|1.000000	0.71417|0.71417|0.71417	1.000000|1.000000|1.000000	0.80357|0.80357|0.80357	0.995000|0.995000|0.995000	0.86356|0.86356|0.86356	7.487000|7.487000|7.487000	0.81328|0.81328|0.81328	1.630000|1.630000|1.630000	0.50440|0.50440|0.50440	0.655000|0.655000|0.655000	0.94253|0.94253|0.94253	GAA|GGA|TGG		0.443	KCNMA1-009	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000048885.3	NM_002247		A	78649263	C	A	78649263	3	1	640	1	0	0	0	0	1	0	0	0	8080	855	30	4	340	4	KCNMA1	10	78649263	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10		78649263	56885484	64	39554										
MUC6	4588	mdanderson.org	37	chr11	1018031	1018031	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ttgaaggatgttgccgtcatGggacctgtggaagagaaggg	17	5	1	2	rs10751678	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr11:1018031G>A	ENST00000421673.2	-	31	4820	c.4770C>T	c.(4768-4770)ccC>ccT	p.P1590P		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1590	Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		TTGCCGTCATGGGACCTGTGG	0.582																																																0													259	261	260					11																	1018031		2159	4236	6395	SO:0001819	synonymous_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4770C>T	11.37:g.1018031G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Silent	SNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.582	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1018031	G	A	1018031	2	1	640	1	0	0	0	0	0	0	0	1	9987	1335	47	2		2	MUC6	11	1018031	Silent	SNP	G	TCGA-KL-8341-01A-11D-2310-10		1018031	133988485	65	39555										
MUC2	4583	mdanderson.org	37	chr11	1092459	1092459	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	accacccccagccctccaacCaccaccacaaccacccctcc	1	27	0	0	rs374506032		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr11:1092459C>A	ENST00000441003.2	+	30	4305	c.4278C>A	c.(4276-4278)acC>acA	p.T1426T	MUC2_ENST00000361558.6_Intron|MUC2_ENST00000333592.6_5'Flank|MUC2_ENST00000359061.5_Silent_p.T1427T	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	4232	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	gccctccaaccaccaccacaa	0.617																																																0													126	187	167					11																	1092459		1722	3421	5143	SO:0001819	synonymous_variant	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4278C>A	11.37:g.1092459C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Silent	SNP	ENST00000441003.2	37																																																																																					0.617	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		A	1092459	C	A	1092459	2	1	640	1	0	0	0	0	0	0	0	1	9982	581	21	4		4	MUC2	11	1092459	Silent	SNP	C	TCGA-KL-8341-01A-11D-2310-10	74428	1092459	133914057	66	39556										
MUC2	4583	mdanderson.org	37	chr11	1092953	1092953	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	acccatcaccaccaccactaCggtgaccccaaccccaacac	3	22	1	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr11:1092953C>T	ENST00000441003.2	+	30	4799	c.4772C>T	c.(4771-4773)aCg>aTg	p.T1591M	MUC2_ENST00000361558.6_Intron|MUC2_ENST00000333592.6_5'Flank|MUC2_ENST00000359061.5_Splice_Site_p.T1592M	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)		p.T1592M(1)|p.T1591M(1)		NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	accaccactacggtgacccca	0.627																																																2	Substitution - Missense(2)	endometrium(2)											54	86	74					11																	1092953		1812	3313	5125	SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4772C>T	11.37:g.1092953C>T	ENSP00000415183:p.Thr1591Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	C	3.179	-0.168424	0.06461	.	.	ENSG00000198788	ENST00000441003;ENST00000359061	T;T	0.16743	2.32;2.56	1.75	-0.619	0.11572	.	6.725620	0.00827	U	0.001636	T	0.08846	0.0219	.	.	.	0.09310	N	1	D	0.60575	0.988	B	0.34489	0.184	T	0.24548	-1.0157	9	0.32370	T	0.25	.	3.3423	0.07123	0.2481:0.5888:0.0:0.163	.	1591	E7EUV1	.	M	1591;1592	ENSP00000415183:T1591M;ENSP00000351956:T1592M	ENSP00000351956:T1592M	T	+	2	0	MUC2	1082953	0.064000	0.20934	0.000000	0.03702	0.189000	0.23516	1.615000	0.36922	-0.313000	0.08728	0.121000	0.15741	ACG		0.627	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		T	1092953	C	T	1092953	3	4	640	1	0	0	0	0	1	0	0	0	9982	536	19	1	4890	1	MUC2	11	1092953	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	494	1092953	133913563	67	39557										
OR2AG1	144125	mdanderson.org	37	chr11	6806963	6806963	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gctccatatgccatcaaatgAggggaggaagaaagcccttg	12	9	1	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr11:6806963A>G	ENST00000307401.4	+	1	716	c.695A>G	c.(694-696)gAg>gGg	p.E232G		NM_001004489.2	NP_001004489.1	Q9H205	O2AG1_HUMAN	olfactory receptor, family 2, subfamily AG, member 1	232						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(2)|lung(13)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	26		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.19e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CCATCAAATGAGGGGAGGAAG	0.488																																																0													191	167	175					11																	6806963		2201	4296	6497	SO:0001583	missense	144125			AB065823	CCDS31414.1	11p15.4	2012-08-09			ENSG00000170803	ENSG00000170803		"GPCR / Class A : Olfactory receptors"	15142	protein-coding gene	gene with protein product				OR2AG3			Standard	NM_001004489		Approved		uc001mer.2	Q9H205	OTTHUMG00000165735	ENST00000307401.4:c.695A>G	11.37:g.6806963A>G	ENSP00000307447:p.Glu232Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B9EKV7|Q6IFG7|Q96R26	Missense_Mutation	SNP	ENST00000307401.4	37	CCDS31414.1	.	.	.	.	.	.	.	.	.	.	A	10.81	1.455720	0.26161	.	.	ENSG00000170803	ENST00000307401	T	0.00207	8.55	4.32	3.18	0.36537	GPCR, rhodopsin-like superfamily (1);	0.262449	0.27262	N	0.020175	T	0.00178	0.0005	L	0.46567	1.45	0.09310	N	1	B	0.23540	0.087	B	0.33799	0.17	T	0.32322	-0.9911	10	0.66056	D	0.02	.	5.2013	0.15267	0.6326:0.1874:0.0:0.1801	.	232	Q9H205	O2AG1_HUMAN	G	232	ENSP00000307447:E232G	ENSP00000307447:E232G	E	+	2	0	OR2AG1	6763539	0.000000	0.05858	0.752000	0.31206	0.992000	0.81027	0.285000	0.18883	0.800000	0.34041	0.533000	0.62120	GAG		0.488	OR2AG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385980.1	NM_001004489		G	6806963	A	G	6806963	3	3	640	1	0	0	0	0	1	0	0	0	10991	304	11	3	697	3	OR2AG1	11	6806963	Missense_Mutation	SNP	A	TCGA-KL-8341-01A-11D-2310-10	5714010	6806963	128199553	68	39558										
PARVA	55742	broad.mit.edu	37	chr11	12399324	12399324	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tggcccggaggaagaaagccAaggagggtgagtgcggccag	19	8	0	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr11:12399324A>G	ENST00000550549.1	+	1	179	c.130A>G	c.(130-132)Aag>Gag	p.K44E	PARVA_ENST00000334956.8_Missense_Mutation_p.K84E|PARVA_ENST00000539723.1_Missense_Mutation_p.K44E			Q9NVD7	PARVA_HUMAN	parvin, alpha	44					actin cytoskeleton reorganization (GO:0031532)|actin-mediated cell contraction (GO:0070252)|cell junction assembly (GO:0034329)|cilium morphogenesis (GO:0060271)|establishment or maintenance of cell polarity (GO:0007163)|heterotypic cell-cell adhesion (GO:0034113)|outflow tract septum morphogenesis (GO:0003148)|regulation of cell shape (GO:0008360)|smooth muscle cell chemotaxis (GO:0071670)|sprouting angiogenesis (GO:0002040)|substrate adhesion-dependent cell spreading (GO:0034446)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(4)	11				Epithelial(150;0.00624)		GAAGAAAGCCAAGGAGGGTGA	0.716																																																0													10	12	11					11																	12399324		1818	4020	5838	SO:0001583	missense	55742			AF237771	CCDS44541.1, CCDS44541.2	11p15.3	2014-06-13	2005-05-26		ENSG00000197702	ENSG00000197702		"Parvins"	14652	protein-coding gene	gene with protein product		608120	"matrix-remodelling associated 2"	MXRA2		11171322	Standard	NM_018222		Approved	FLJ12254, FLJ10793	uc001mki.4	Q9NVD7	OTTHUMG00000165778	ENST00000550549.1:c.130A>G	11.37:g.12399324A>G	ENSP00000447198:p.Lys44Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q96C85|Q9HA48	Missense_Mutation	SNP	ENST00000550549.1	37		.	.	.	.	.	.	.	.	.	.	A	14.17	2.454402	0.43634	.	.	ENSG00000197702	ENST00000334956;ENST00000539723;ENST00000550549	T;T;T	0.42131	0.98;0.98;0.98	4.45	3.3	0.37823	Calponin homology domain (1);	0.134476	0.47852	D	0.000211	T	0.36663	0.0975	L	0.55213	1.73	0.80722	D	1	B;B	0.32753	0.002;0.383	B;B	0.32928	0.005;0.155	T	0.11916	-1.0568	10	0.42905	T	0.14	-5.5035	10.0079	0.41968	0.8485:0.0:0.0:0.1515	.	44;44	Q9NVD7;Q9NVD7-2	PARVA_HUMAN;.	E	84;44;44	ENSP00000334008:K84E;ENSP00000438967:K44E;ENSP00000447198:K44E	ENSP00000334008:K84E	K	+	1	0	PARVA	12355900	1.000000	0.71417	1.000000	0.80357	0.563000	0.35712	6.113000	0.71553	0.554000	0.29061	0.379000	0.24179	AAG		0.716	PARVA-203	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_018222		G	12399324	A	G	12399324	3	3	640	1	0	0	0	0	1	0	0	0	11475	131	5	3	132	3	PARVA	11	12399324	Missense_Mutation	SNP	A	TCGA-KL-8341-01A-11D-2310-10	5592361	12399324	122607192	69	39559										
OR5AK2	390181	broad.mit.edu;ucsc.edu	37	chr11	56756940	56756940	+	Silent	SNP	T	T	A													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ttctgtgatgttccccctatTcttgctctttcatgctccaa							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr11:56756940T>A	ENST00000326855.2	+	1	594	c.552T>A	c.(550-552)atT>atA	p.I184I		NM_001005323.1	NP_001005323.1	Q8NH90	O5AK2_HUMAN	olfactory receptor, family 5, subfamily AK, member 2	184						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(3)|endometrium(1)|large_intestine(4)|lung(3)|ovary(3)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	21						TTCCCCCTATTCTTGCTCTTT	0.408																																																0													347	311	323					11																	56756940		2201	4296	6497	SO:0001819	synonymous_variant	390181			AB065496	CCDS31538.1	11q11	2012-08-09			ENSG00000181273	ENSG00000181273		"GPCR / Class A : Olfactory receptors"	15251	protein-coding gene	gene with protein product							Standard	NM_001005323		Approved		uc010rjp.2	Q8NH90	OTTHUMG00000167019	ENST00000326855.2:c.552T>A	11.37:g.56756940T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RNZ9	Silent	SNP	ENST00000326855.2	37	CCDS31538.1																																																																																				0.408	OR5AK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392446.1	NM_001005323		A	56756940	T	A	56756940	2	1	640	1	0	0	0	0	0	0	0	1	11149	1771	62	5		5	OR5AK2	11	56756940	Silent	SNP	T	TCGA-KL-8341-01A-11D-2310-10	44357616	56756940	78249576	70	39560	336	2								
OR5AK2	390181	bcgsc.ca	37	chr11	56756941	56756941	+	Missense_Mutation	SNP	C	C	T													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tctgtgatgttccccctattCttgctctttcatgctccaat							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr11:56756941C>T	ENST00000326855.2	+	1	595	c.553C>T	c.(553-555)Ctt>Ttt	p.L185F		NM_001005323.1	NP_001005323.1	Q8NH90	O5AK2_HUMAN	olfactory receptor, family 5, subfamily AK, member 2	185						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(3)|endometrium(1)|large_intestine(4)|lung(3)|ovary(3)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	21						TCCCCCTATTCTTGCTCTTTC	0.408																																																0													348	311	324					11																	56756941		2201	4296	6497	SO:0001583	missense	390181			AB065496	CCDS31538.1	11q11	2012-08-09			ENSG00000181273	ENSG00000181273		"GPCR / Class A : Olfactory receptors"	15251	protein-coding gene	gene with protein product							Standard	NM_001005323		Approved		uc010rjp.2	Q8NH90	OTTHUMG00000167019	ENST00000326855.2:c.553C>T	11.37:g.56756941C>T	ENSP00000322784:p.Leu185Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNZ9	Missense_Mutation	SNP	ENST00000326855.2	37	CCDS31538.1	.	.	.	.	.	.	.	.	.	.	C	7.340	0.620621	0.14193	.	.	ENSG00000181273	ENST00000326855	T	0.00325	8.1	3.85	0.549	0.17213	GPCR, rhodopsin-like superfamily (1);	0.222920	0.22703	N	0.056674	T	0.00440	0.0014	M	0.64676	1.99	0.09310	N	1	D	0.67145	0.996	D	0.70716	0.97	T	0.48614	-0.9020	10	0.56958	D	0.05	-30.6449	8.696	0.34296	0.1499:0.5052:0.3448:0.0	.	185	Q8NH90	O5AK2_HUMAN	F	185	ENSP00000322784:L185F	ENSP00000322784:L185F	L	+	1	0	OR5AK2	56513517	0.000000	0.05858	0.188000	0.23233	0.040000	0.13550	-1.136000	0.03222	0.014000	0.14944	0.194000	0.17425	CTT		0.408	OR5AK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392446.1	NM_001005323		T	56756941	C	T	56756941	3	4	640	1	0	0	0	0	1	0	0	0	11149	913	32	2	555	2	OR5AK2	11	56756941	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	1	56756941	78249575	71	39561	336	2								
UCP2	7351	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	73686146	73686146	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ccacgttccaggaacccaagCggagaaaggagggcatgaac	13	11	0	2	rs376686039		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr11:73686146C>T	ENST00000310473.3	-	8	1678	c.836G>A	c.(835-837)cGc>cAc	p.R279H	UCP2_ENST00000536983.1_Missense_Mutation_p.A219T	NM_003355.2	NP_003346.2	P55851	UCP2_HUMAN	uncoupling protein 2 (mitochondrial, proton carrier)	279	Purine nucleotide binding. {ECO:0000250}.				aging (GO:0007568)|cellular metabolic process (GO:0044237)|cellular response to amino acid starvation (GO:0034198)|cellular response to glucose stimulus (GO:0071333)|cellular response to insulin stimulus (GO:0032869)|female pregnancy (GO:0007565)|liver regeneration (GO:0097421)|mitochondrial transport (GO:0006839)|negative regulation of apoptotic process (GO:0043066)|negative regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0061179)|positive regulation of cell death (GO:0010942)|proton transport (GO:0015992)|regulation of mitochondrial membrane potential (GO:0051881)|respiratory electron transport chain (GO:0022904)|response to fatty acid (GO:0070542)|response to hypoxia (GO:0001666)|response to superoxide (GO:0000303)|small molecule metabolic process (GO:0044281)|transport (GO:0006810)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)				large_intestine(1)|lung(3)|prostate(1)	5	Breast(11;0.000112)					GGAACCCAAGCGGAGAAAGGA	0.567																																					Colon(191;388 2040 43557 45622 48925)											0													85	71	75					11																	73686146		2200	4293	6493	SO:0001583	missense	7351			U76367	CCDS8228.1	11q13	2014-02-12						"Solute carriers"	12518	protein-coding gene	gene with protein product		601693	"body mass index QTL 4", "body mass index quantitative trait 4"	BMIQ4		9196039, 11381268	Standard	NM_003355		Approved	SLC25A8	uc001oup.1	P55851		ENST00000310473.3:c.836G>A	11.37:g.73686146C>T	ENSP00000312029:p.Arg279His	Somatic		WXS	Illumina HiSeq	Phase_I	Q4PJH8|Q53HM3	Missense_Mutation	SNP	ENST00000310473.3	37	CCDS8228.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	24.6|24.6	4.550502|4.550502	0.86127|0.86127	.|.	.|.	ENSG00000175567|ENSG00000175567	ENST00000536983|ENST00000310473;ENST00000544615	T|D;D	0.79653|0.81996	-1.29|-1.56;-1.56	5.43|5.43	5.43|5.43	0.79202|0.79202	.|Mitochondrial carrier domain (2);	.|0.000000	.|0.85682	.|D	.|0.000000	D|D	0.94637|0.94637	0.8271|0.8271	H|H	0.97874|0.97874	4.095|4.095	0.44104|0.44104	D|D	0.996874|0.996874	B|D	0.16802|0.76494	0.019|0.999	B|D	0.17722|0.71184	0.019|0.972	D|D	0.96186|0.96186	0.9134|0.9134	9|10	0.27082|0.87932	T|D	0.32|0	-2.7097|-2.7097	17.9618|17.9618	0.89087|0.89087	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	219|279	F5GX45|P55851	.|UCP2_HUMAN	T|H	219|279;252	ENSP00000441147:A219T|ENSP00000312029:R279H;ENSP00000439951:R252H	ENSP00000441147:A219T|ENSP00000312029:R279H	A|R	-|-	1|2	0|0	UCP2|UCP2	73363794|73363794	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.999000|0.999000	0.98932|0.98932	7.528000|7.528000	0.81941|0.81941	2.825000|2.825000	0.97269|0.97269	0.655000|0.655000	0.94253|0.94253	GCT|CGC		0.567	UCP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398108.1	NM_003355		T	73686146	C	T	73686146	3	4	640	1	0	0	0	0	1	0	0	0	16943	768	27	1	97	1	UCP2	11	73686146	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	16929205	73686146	61320370	72	39562										
DLG2	1740	broad.mit.edu	37	chr11	84996301	84996301	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gtctgtcatggcacggagcaAgaagggatgtcttctcccat	12	10	4	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr11:84996301A>G	ENST00000376104.2	-	4	460	c.149T>C	c.(148-150)cTt>cCt	p.L50P	DLG2_ENST00000543673.1_Missense_Mutation_p.L50P	NM_001142699.1	NP_001136171.1	Q14168	MPP2_HUMAN	discs, large homolog 2 (Drosophila)	0	L27 1. {ECO:0000255|PROSITE- ProRule:PRU00365}.				nucleotide phosphorylation (GO:0046939)|signal transduction (GO:0007165)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	guanylate kinase activity (GO:0004385)			breast(1)|central_nervous_system(1)|endometrium(8)|kidney(3)|large_intestine(11)|lung(35)|ovary(3)|pancreas(2)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	71		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				GCACGGAGCAAGAAGGGATGT	0.368																																																0													229	204	212					11																	84996301		1568	3581	5149	SO:0001583	missense	1740			U32376	CCDS41696.1, CCDS44690.1, CCDS44691.1, CCDS44692.1, CCDS55782.1, CCDS73357.1	11q21	2012-04-17	2008-12-15		ENSG00000150672	ENSG00000150672		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	2901	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 58"	603583	"discs, large homolog 2, chapsyn-110 (Drosophila)"			8755482, 9806853	Standard	NM_001142702		Approved	PSD-93, PSD93, chapsyn-110, PPP1R58	uc001pak.2	Q15700	OTTHUMG00000134309	ENST00000376104.2:c.149T>C	11.37:g.84996301A>G	ENSP00000365272:p.Leu50Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DGE9|B4DRJ0|B7Z3G8|E7EV80|E7EV91|E7EX01|Q53ES9|Q5CZB9|Q9BQJ2	Missense_Mutation	SNP	ENST00000376104.2	37	CCDS44690.1	.	.	.	.	.	.	.	.	.	.	A	6.469	0.454637	0.12283	.	.	ENSG00000150672	ENST00000376104;ENST00000543673;ENST00000546021	T;T	0.13307	2.6;2.6	5.88	4.76	0.60689	.	0.859826	0.09766	N	0.758589	T	0.05640	0.0148	N	0.02802	-0.49	0.21386	N	0.999704	B	0.09022	0.002	B	0.06405	0.002	T	0.42932	-0.9422	9	.	.	.	.	5.9412	0.19194	0.715:0.1404:0.1446:0.0	.	50	Q15700-2	.	P	50	ENSP00000365272:L50P;ENSP00000441994:L50P	.	L	-	2	0	DLG2	84673949	0.992000	0.36948	0.279000	0.24732	0.289000	0.27227	0.970000	0.29383	1.050000	0.40346	-0.263000	0.10527	CTT		0.368	DLG2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000259245.3	NM_001364		G	84996301	A	G	84996301	3	3	640	1	0	0	0	0	1	0	0	0	4557	72	3	3	3083	3	DLG2	11	84996301	Missense_Mutation	SNP	A	TCGA-KL-8341-01A-11D-2310-10	11310155	84996301	50010215	73	39563										
APOA1	335	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	116707862	116707862	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	atcttgctgccagaaatgccGagcctggctccctgagggtg	13	12	1	2	rs371084971		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr11:116707862G>A	ENST00000236850.4	-	3	420	c.55C>T	c.(55-57)Cgg>Tgg	p.R19W	APOA1_ENST00000375323.1_Missense_Mutation_p.R19W|APOA1_ENST00000359492.2_Missense_Mutation_p.R19W|APOA1_ENST00000375329.2_Intron|AP006216.12_ENST00000444200.1_RNA|APOA1_ENST00000375320.1_Missense_Mutation_p.R19W	NM_000039.1	NP_000030.1	P02647	APOA1_HUMAN	apolipoprotein A-I	19					adrenal gland development (GO:0030325)|blood coagulation (GO:0007596)|blood vessel endothelial cell migration (GO:0043534)|cellular lipid metabolic process (GO:0044255)|cholesterol biosynthetic process (GO:0006695)|cholesterol efflux (GO:0033344)|cholesterol homeostasis (GO:0042632)|cholesterol import (GO:0070508)|cholesterol metabolic process (GO:0008203)|cholesterol transport (GO:0030301)|endothelial cell proliferation (GO:0001935)|G-protein coupled receptor signaling pathway (GO:0007186)|glucocorticoid metabolic process (GO:0008211)|high-density lipoprotein particle assembly (GO:0034380)|high-density lipoprotein particle clearance (GO:0034384)|high-density lipoprotein particle remodeling (GO:0034375)|integrin-mediated signaling pathway (GO:0007229)|lipid storage (GO:0019915)|lipoprotein biosynthetic process (GO:0042158)|lipoprotein metabolic process (GO:0042157)|negative chemotaxis (GO:0050919)|negative regulation of cell adhesion molecule production (GO:0060354)|negative regulation of cytokine secretion involved in immune response (GO:0002740)|negative regulation of heterotypic cell-cell adhesion (GO:0034115)|negative regulation of inflammatory response (GO:0050728)|negative regulation of interleukin-1 beta secretion (GO:0050713)|negative regulation of lipase activity (GO:0060192)|negative regulation of response to cytokine stimulus (GO:0060761)|negative regulation of tumor necrosis factor-mediated signaling pathway (GO:0010804)|negative regulation of very-low-density lipoprotein particle remodeling (GO:0010903)|organ regeneration (GO:0031100)|peptidyl-methionine modification (GO:0018206)|peripheral nervous system axon regeneration (GO:0014012)|phosphatidylcholine biosynthetic process (GO:0006656)|phospholipid efflux (GO:0033700)|phospholipid homeostasis (GO:0055091)|phototransduction, visible light (GO:0007603)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of cholesterol esterification (GO:0010873)|positive regulation of hydrolase activity (GO:0051345)|positive regulation of Rho protein signal transduction (GO:0035025)|positive regulation of stress fiber assembly (GO:0051496)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|positive regulation of transferase activity (GO:0051347)|protein oxidation (GO:0018158)|protein stabilization (GO:0050821)|regulation of Cdc42 protein signal transduction (GO:0032489)|regulation of intestinal cholesterol absorption (GO:0030300)|regulation of protein phosphorylation (GO:0001932)|response to drug (GO:0042493)|response to estrogen (GO:0043627)|response to nutrient (GO:0007584)|retinoid metabolic process (GO:0001523)|reverse cholesterol transport (GO:0043691)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|triglyceride homeostasis (GO:0070328)	blood microparticle (GO:0072562)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|early endosome (GO:0005769)|endocytic vesicle (GO:0030139)|endocytic vesicle lumen (GO:0071682)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|high-density lipoprotein particle (GO:0034364)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|secretory granule lumen (GO:0034774)|spherical high-density lipoprotein particle (GO:0034366)|very-low-density lipoprotein particle (GO:0034361)|vesicle (GO:0031982)	apolipoprotein A-I receptor binding (GO:0034191)|apolipoprotein receptor binding (GO:0034190)|beta-amyloid binding (GO:0001540)|chemorepellent activity (GO:0045499)|cholesterol binding (GO:0015485)|cholesterol transporter activity (GO:0017127)|enzyme binding (GO:0019899)|high-density lipoprotein particle binding (GO:0008035)|high-density lipoprotein particle receptor binding (GO:0070653)|identical protein binding (GO:0042802)|lipase inhibitor activity (GO:0055102)|phosphatidylcholine-sterol O-acyltransferase activator activity (GO:0060228)|phospholipid binding (GO:0005543)|phospholipid transporter activity (GO:0005548)			cervix(1)|endometrium(1)|lung(4)|prostate(1)|skin(2)	9	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.59e-05)|all cancers(92;0.000162)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		CAGAAATGCCGAGCCTGGCTC	0.632																																																0								G	TRP/ARG	0,4402		0,0,2201	49	56	54		55	1.3	1	11		54	1,8589	1.2+/-3.3	0,1,4294	no	missense	APOA1	NM_000039.1	101	0,1,6495	AA,AG,GG		0.0116,0.0,0.0077	possibly-damaging	19/268	116707862	1,12991	2201	4295	6496	SO:0001583	missense	335			X02162	CCDS8378.1	11q23-q24	2014-09-17			ENSG00000118137	ENSG00000118137		"Apolipoproteins"	600	protein-coding gene	gene with protein product		107680					Standard	NM_000039		Approved		uc001ppv.1	P02647	OTTHUMG00000046112	ENST00000236850.4:c.55C>T	11.37:g.116707862G>A	ENSP00000236850:p.Arg19Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K866|Q6LDN9|Q6Q785|Q9UCS8|Q9UCT8	Missense_Mutation	SNP	ENST00000236850.4	37	CCDS8378.1	.	.	.	.	.	.	.	.	.	.	G	13.00	2.107700	0.37242	0.0	1.16E-4	ENSG00000118137	ENST00000375320;ENST00000359492;ENST00000375323;ENST00000236850	T;T;T;T	0.68903	-0.36;-0.36;-0.36;-0.36	4.76	1.33	0.21861	.	0.381500	0.17497	N	0.172134	T	0.51312	0.1667	L	0.59912	1.85	0.27392	N	0.955111	P	0.36959	0.575	B	0.24974	0.057	T	0.43278	-0.9401	10	0.40728	T	0.16	-18.0312	5.5232	0.16943	0.0771:0.1121:0.574:0.2368	.	19	P02647	APOA1_HUMAN	W	19	ENSP00000364469:R19W;ENSP00000352471:R19W;ENSP00000364472:R19W;ENSP00000236850:R19W	ENSP00000236850:R19W	R	-	1	2	APOA1	116213072	0.969000	0.33509	0.999000	0.59377	0.972000	0.66771	1.680000	0.37607	0.416000	0.25844	0.462000	0.41574	CGG		0.632	APOA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000106281.2	NM_000039		A	116707862	G	A	116707862	3	1	640	1	0	0	0	0	1	0	0	0	780	1057	37	1	756	1	APOA1	11	116707862	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	31711561	116707862	18298654	74	39564										
KDM5A	5927	broad.mit.edu;mdanderson.org	37	chr12	416696	416696	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ttttttctcgagccgcctgtTccaccatacgctggctcaac	7	15	2	0			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr12:416696T>C	ENST00000399788.2	-	23	4216	c.3854A>G	c.(3853-3855)gAa>gGa	p.E1285G	KDM5A_ENST00000382815.4_Missense_Mutation_p.E1285G	NM_001042603.1	NP_001036068.1	P29375	KDM5A_HUMAN	lysine (K)-specific demethylase 5A	1285					chromatin modification (GO:0016568)|circadian regulation of gene expression (GO:0032922)|multicellular organismal development (GO:0007275)|negative regulation of histone deacetylase activity (GO:1901726)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)			NS(2)|breast(4)|central_nervous_system(2)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(14)|lung(29)|ovary(1)|prostate(5)|skin(6)|stomach(1)|urinary_tract(2)	77						AGCCGCCTGTTCCACCATACG	0.483			T	NUP98	AML																																		Dom	yes		12	12p11	5927	"lysine (K)-specific demethylase 5A, JARID1A"		L	0													99	96	97					12																	416696		2000	4188	6188	SO:0001583	missense	5927				CCDS41736.1	12p13.33	2013-01-28	2009-04-06	2009-04-06	ENSG00000073614	ENSG00000073614		"Chromatin-modifying enzymes / K-demethylases", "Zinc fingers, PHD-type"	9886	protein-coding gene	gene with protein product		180202	"retinoblastoma-binding protein 2", "Jumonji, AT rich interactive domain 1A (RBBP2-like)", "jumonji, AT rich interactive domain 1A"	RBBP2, JARID1A		1857421	Standard	NM_001042603		Approved		uc001qif.1	P29375	OTTHUMG00000168055	ENST00000399788.2:c.3854A>G	12.37:g.416696T>C	ENSP00000382688:p.Glu1285Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MV76|Q4LE72|Q86XZ1	Missense_Mutation	SNP	ENST00000399788.2	37	CCDS41736.1	.	.	.	.	.	.	.	.	.	.	T	17.67	3.446132	0.63178	.	.	ENSG00000073614	ENST00000399788;ENST00000382815	D;D	0.85773	-2.03;-1.84	5.66	5.66	0.87406	.	0.000000	0.85682	D	0.000000	T	0.80303	0.4598	L	0.35854	1.095	0.80722	D	1	B;B	0.19935	0.04;0.029	B;B	0.22880	0.019;0.042	T	0.74979	-0.3479	10	0.31617	T	0.26	-23.6818	16.1762	0.81855	0.0:0.0:0.0:1.0	.	1285;1285	P29375;P29375-2	KDM5A_HUMAN;.	G	1285	ENSP00000382688:E1285G;ENSP00000372265:E1285G	ENSP00000372265:E1285G	E	-	2	0	KDM5A	286957	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.997000	0.88414	2.283000	0.76528	0.477000	0.44152	GAA		0.483	KDM5A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397812.1	NM_005056		C	416696	T	C	416696	3	2	640	1	0	0	0	0	1	0	0	0	8140	1783	62	3	1242	3	KDM5A	12	416696	Missense_Mutation	SNP	T	TCGA-KL-8341-01A-11D-2310-10		416696	133435199	75	39565										
KRT2	3849	broad.mit.edu	37	chr12	53045623	53045624	+	In_Frame_Ins	INS	-	-	GCC													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	aagccgctgccacctccaaaINSgctgctgccgcctccaaaac					rs56850150		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr12:53045623_53045624insGCC	ENST00000309680.3	-	1	324_325	c.303_304insGGC	c.(301-306)agcttt>agcGGCttt	p.101_102SF>SGF		NM_000423.2	NP_000414.2	P35908	K22E_HUMAN	keratin 2	101	Head.		S -> G (in dbSNP:rs2634041). {ECO:0000269|PubMed:1380918, ECO:0000269|PubMed:9804344}.		epidermis development (GO:0008544)|keratinization (GO:0031424)|keratinocyte activation (GO:0032980)|keratinocyte migration (GO:0051546)|keratinocyte proliferation (GO:0043616)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|intermediate filament (GO:0005882)|intermediate filament cytoskeleton (GO:0045111)|keratin filament (GO:0045095)|membrane (GO:0016020)|nucleus (GO:0005634)	structural constituent of cytoskeleton (GO:0005200)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|lung(18)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	32				BRCA - Breast invasive adenocarcinoma(357;0.19)		ccacctccaaagctgctgccgc	0.614																																																0																																										SO:0001652	inframe_insertion	3849				CCDS8835.1	12q13.13	2013-01-16	2008-08-01	2006-07-17	ENSG00000172867	ENSG00000172867		"-", "Intermediate filaments type II, keratins (basic)"	6439	protein-coding gene	gene with protein product	"epidermal ichthyosis bullosa of Siemens"	600194	"keratin 2A (epidermal ichthyosis bullosa of Siemens)"	KRT2A		7524919, 16831889	Standard	NM_000423		Approved	KRTE	uc001sat.3	P35908	OTTHUMG00000169748	ENST00000309680.3:c.303_304insGGC	12.37:g.53045623_53045624insGCC	ENSP00000310861:p.Ser101_Phe102insGly	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VAQ2	In_Frame_Ins	INS	ENST00000309680.3	37	CCDS8835.1																																																																																				0.614	KRT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405704.1	NM_000423		GCC	53045624	-	GCC	53045623	7	5	640	1	0	1	1	0	0	0	0	0	8464	72	3	0	1651	0	KRT2	12	53045623	In_Frame_Ins	INS	-	TCGA-KL-8341-01A-11D-2310-10	52628927	53045623	80806272	76	39566										
SRGAP1	57522	hgsc.bcm.edu;ucsc.edu	37	chr12	64436722	64436722	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	agacatcaacggcgaagctcTgtaaagaaaattgaaaaaat	8	6	2	3			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr12:64436722T>A	ENST00000355086.3	+	5	1166	c.642T>A	c.(640-642)tcT>tcA	p.S214S	SRGAP1_ENST00000357825.3_Silent_p.S214S|RP11-196H14.2_ENST00000535594.1_RNA|SRGAP1_ENST00000543397.1_Silent_p.S174S	NM_020762.2	NP_065813.1	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	214	F-BAR domain.				axon guidance (GO:0007411)|cell migration (GO:0016477)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	Rho GTPase activator activity (GO:0005100)			breast(4)|central_nervous_system(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(26)|ovary(2)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	65			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		GGCGAAGCTCTGTAAAGAAAA	0.393																																																0													55	56	55					12																	64436722		2203	4300	6503	SO:0001819	synonymous_variant	57522			AB037725	CCDS8967.1	12q13.13	2011-07-04			ENSG00000196935	ENSG00000196935		"Rho GTPase activating proteins"	17382	protein-coding gene	gene with protein product		606523				11672528	Standard	NM_020762		Approved	KIAA1304, ARHGAP13	uc010ssp.1	Q7Z6B7	OTTHUMG00000168750	ENST00000355086.3:c.642T>A	12.37:g.64436722T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H8A3|Q9P2P2	Silent	SNP	ENST00000355086.3	37	CCDS8967.1																																																																																				0.393	SRGAP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000400896.1			A	64436722	T	A	64436722	2	1	640	1	0	0	0	0	0	0	0	1	15157	1567	55	5		5	SRGAP1	12	64436722	Silent	SNP	T	TCGA-KL-8341-01A-11D-2310-10	11391099	64436722	69415173	77	39567										
SLC35E3	55508	broad.mit.edu;mdanderson.org	37	chr12	69140526	69140526	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	atccagaccttctgctaccaGaaaaccttctccaccagaat	4	15	2	3			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr12:69140526G>A	ENST00000398004.2	+	1	641	c.369G>A	c.(367-369)caG>caA	p.Q123Q		NM_018656.2	NP_061126.2	Q7Z769	S35E3_HUMAN	solute carrier family 35, member E3	123						integral component of membrane (GO:0016021)				cervix(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|upper_aerodigestive_tract(1)	12	Breast(13;2.31e-06)|Renal(347;0.0684)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00372)			TCTGCTACCAGAAAACCTTCT	0.567																																																0													108	113	112					12																	69140526		1948	4151	6099	SO:0001819	synonymous_variant	55508			AF148713, AY358943	CCDS41808.1	12q15	2014-09-04			ENSG00000175782	ENSG00000175782		"Solute carriers"	20864	protein-coding gene	gene with protein product						12975309	Standard	XM_005269006		Approved	BLOV1	uc001suh.3	Q7Z769	OTTHUMG00000169282	ENST00000398004.2:c.369G>A	12.37:g.69140526G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0T0|Q0P5Y5|Q9P0V1	Silent	SNP	ENST00000398004.2	37	CCDS41808.1																																																																																				0.567	SLC35E3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403241.1	NM_018656		A	69140526	G	A	69140526	2	1	640	1	0	0	0	0	0	0	0	1	14599	933	33	2		2	SLC35E3	12	69140526	Silent	SNP	G	TCGA-KL-8341-01A-11D-2310-10	4703804	69140526	64711369	78	39568										
CEP290	80184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	88444148	88444148	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	taccttcaaatgctgcttttCtagatctgacattttgagct	6	9	3	3			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr12:88444148C>T	ENST00000552810.1	-	53	7535	c.7192G>A	c.(7192-7194)Gaa>Aaa	p.E2398K	RNA5SP364_ENST00000516938.1_RNA|CEP290_ENST00000397838.3_Missense_Mutation_p.E1458K|CEP290_ENST00000547691.2_Missense_Mutation_p.E1458K|CEP290_ENST00000309041.7_Missense_Mutation_p.E2400K	NM_025114.3	NP_079390.3	O15078	CE290_HUMAN	centrosomal protein 290kDa	2398					cilium assembly (GO:0042384)|cilium morphogenesis (GO:0060271)|establishment or maintenance of cell polarity (GO:0007163)|eye photoreceptor cell development (GO:0042462)|G2/M transition of mitotic cell cycle (GO:0000086)|hindbrain development (GO:0030902)|mitotic cell cycle (GO:0000278)|otic vesicle formation (GO:0030916)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of transcription, DNA-templated (GO:0045893)|pronephros development (GO:0048793)|protein transport (GO:0015031)|regulation of cAMP metabolic process (GO:0030814)|regulation of establishment of protein localization (GO:0070201)|retina development in camera-type eye (GO:0060041)	centriolar satellite (GO:0034451)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)|photoreceptor connecting cilium (GO:0032391)|protein complex (GO:0043234)|TCTN-B9D complex (GO:0036038)				breast(4)|central_nervous_system(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(20)|liver(1)|lung(18)|ovary(5)|pancreas(1)|prostate(2)|stomach(1)|upper_aerodigestive_tract(1)	73						TGCTGCTTTTCTAGATCTGAC	0.299																																																0													90	79	82					12																	88444148		1808	4073	5881	SO:0001583	missense	80184			AB002371	CCDS55858.1	12q21.33	2014-09-17				ENSG00000198707			29021	protein-coding gene	gene with protein product	"Joubert syndrome 5", "nephrocystin-6", "cancer/testis antigen 87", "POC3 centriolar protein homolog (Chlamydomonas)", "Meckel syndrome, type 4"	610142				15474516, 16682973, 16632484	Standard	NM_025114		Approved	KIAA0373, FLJ13615, 3H11Ag, rd16, NPHP6, JBTS5, SLSN6, LCA10, MKS4, BBS14, CT87, POC3	uc001tar.3	O15078		ENST00000552810.1:c.7192G>A	12.37:g.88444148C>T	ENSP00000448012:p.Glu2398Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q1PSK5|Q66GS8|Q9H2G6|Q9H6Q7|Q9H8I0	Missense_Mutation	SNP	ENST00000552810.1	37	CCDS55858.1	.	.	.	.	.	.	.	.	.	.	C	23.6	4.435975	0.83885	.	.	ENSG00000198707	ENST00000547691;ENST00000552810;ENST00000309041;ENST00000397838	T;T;T;T	0.75704	-0.13;-0.96;-0.95;-0.13	5.01	5.01	0.66863	.	0.000000	0.85682	D	0.000000	T	0.77644	0.4161	M	0.73598	2.24	0.39180	D	0.962756	P	0.49862	0.929	P	0.46419	0.516	T	0.80576	-0.1321	10	0.40728	T	0.16	.	15.0296	0.71696	0.0:1.0:0.0:0.0	.	2398	O15078	CE290_HUMAN	K	1458;2398;2400;1458	ENSP00000446905:E1458K;ENSP00000448012:E2398K;ENSP00000308021:E2400K;ENSP00000380938:E1458K	ENSP00000308021:E2400K	E	-	1	0	CEP290	86968279	0.998000	0.40836	0.993000	0.49108	0.796000	0.44982	5.011000	0.64011	2.346000	0.79739	0.655000	0.94253	GAA		0.299	CEP290-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000406344.1	NM_025114		T	88444148	C	T	88444148	3	4	640	1	0	0	0	0	1	0	0	0	3255	922	32	2	255	2	CEP290	12	88444148	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	19303622	88444148	45407747	79	39569										
ATP12A	479	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr13	25255781	25255781	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	agggggatggcaaggagaagTataggggtctgaagaacaac	17	4	1	3			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr13:25255781T>C	ENST00000381946.3	+	2	258	c.91T>C	c.(91-93)Tat>Cat	p.Y31H	ATP12A_ENST00000218548.6_Missense_Mutation_p.Y31H			P54707	AT12A_HUMAN	ATPase, H+/K+ transporting, nongastric, alpha polypeptide	31					ATP biosynthetic process (GO:0006754)|ion transmembrane transport (GO:0034220)|potassium ion homeostasis (GO:0055075)|regulation of pH (GO:0006885)|transmembrane transport (GO:0055085)	basolateral plasma membrane (GO:0016323)|hydrogen:potassium-exchanging ATPase complex (GO:0005889)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|hydrogen:potassium-exchanging ATPase activity (GO:0008900)|metal ion binding (GO:0046872)			breast(6)|central_nervous_system(4)|endometrium(3)|kidney(5)|large_intestine(23)|lung(23)|ovary(2)|pancreas(1)|prostate(2)|skin(5)	74		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)		CAAGGAGAAGTATAGGGGTCT	0.473																																					Pancreas(156;1582 1935 18898 22665 26498)											0													94	92	93					13																	25255781		2203	4300	6503	SO:0001583	missense	479			L42558	CCDS31948.1, CCDS53858.1	13q11-q12.1	2010-04-20	2002-02-25		ENSG00000075673	ENSG00000075673	3.6.3.10	"ATPases / P-type"	13816	protein-coding gene	gene with protein product	"ATPase, Na+K+ transporting, alpha-1 polypeptide-like", "potassium-transporting ATPase alpha chain 2", "proton pump", "non-gastric H(+)/K(+) ATPase alpha subunit", "sodium/potassium ATPase, alpha polypeptide-like"	182360	"ATPase, Na+/K+ transporting, alpha polypeptide-like 1"	ATP1AL1		8838794, 2842249	Standard	NM_001676		Approved		uc010aaa.3	P54707	OTTHUMG00000016588	ENST00000381946.3:c.91T>C	13.37:g.25255781T>C	ENSP00000371372:p.Tyr31His	Somatic		WXS	Illumina HiSeq	Phase_I	Q13816|Q13817|Q16734|Q5W035|Q8N5U2	Missense_Mutation	SNP	ENST00000381946.3	37	CCDS31948.1	.	.	.	.	.	.	.	.	.	.	T	4.130	0.022384	0.08006	.	.	ENSG00000075673	ENST00000218548;ENST00000381946	D;D	0.92911	-3.13;-3.13	5.32	-2.04	0.07343	.	17.266700	0.00166	N	0.000000	T	0.79621	0.4477	N	0.08118	0	0.23371	N	0.997817	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.0	T	0.69316	-0.5177	10	0.18710	T	0.47	.	0.768	0.01018	0.2498:0.161:0.1322:0.457	.	31;31	P54707-2;P54707	.;AT12A_HUMAN	H	31	ENSP00000218548:Y31H;ENSP00000371372:Y31H	ENSP00000218548:Y31H	Y	+	1	0	ATP12A	24153781	0.921000	0.31238	0.386000	0.26170	0.231000	0.25187	0.416000	0.21198	-0.091000	0.12440	-0.336000	0.08194	TAT		0.473	ATP12A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044199.1	NM_001676		C	25255781	T	C	25255781	3	2	640	1	0	0	0	0	1	0	0	0	1122	1638	57	3	97	3	ATP12A	13	25255781	Missense_Mutation	SNP	T	TCGA-KL-8341-01A-11D-2310-10		25255781	89914097	80	39570										
FNDC3A	22862	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr13	49771038	49771038	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	accattttcagaaaaatgtgAtattactacagcccctgggc	7	10	1	2	rs368353457		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr13:49771038A>T	ENST00000492622.2	+	20	2557	c.2252A>T	c.(2251-2253)gAt>gTt	p.D751V	FNDC3A_ENST00000541916.1_Missense_Mutation_p.D751V|FNDC3A_ENST00000398316.3_Missense_Mutation_p.D695V	NM_001079673.1	NP_001073141.1	Q9Y2H6	FND3A_HUMAN	fibronectin type III domain containing 3A	751	Fibronectin type-III 5. {ECO:0000255|PROSITE-ProRule:PRU00316}.				fertilization (GO:0009566)|Sertoli cell development (GO:0060009)|single organismal cell-cell adhesion (GO:0016337)|spermatid development (GO:0007286)	acrosomal vesicle (GO:0001669)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|vesicle membrane (GO:0012506)	poly(A) RNA binding (GO:0044822)			endometrium(5)|kidney(3)|large_intestine(10)|lung(15)|prostate(5)|skin(2)|urinary_tract(1)	41		all_lung(13;7.44e-08)|Lung NSC(96;4.08e-06)|Breast(56;0.000111)|Prostate(109;0.00174)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.94e-09)		GAAAAATGTGATATTACTACA	0.388																																																0													98	93	95					13																	49771038		2203	4300	6503	SO:0001583	missense	22862			AB023187	CCDS9413.2, CCDS41886.1	13q14.12	2013-02-11	2005-01-20	2005-01-22	ENSG00000102531	ENSG00000102531		"Fibronectin type III domain containing"	20296	protein-coding gene	gene with protein product		615794	"fibronectin type III domain containing 3"	FNDC3			Standard	NM_001079673		Approved	bA203I16.5, KIAA0970	uc001vcm.3	Q9Y2H6	OTTHUMG00000016911	ENST00000492622.2:c.2252A>T	13.37:g.49771038A>T	ENSP00000417257:p.Asp751Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYG1|Q5HYC9|Q5JVF8|Q5JVF9|Q6EVH3|Q6EVH4|Q6N020|Q6P9D5|Q6ZME4|Q9H1W1	Missense_Mutation	SNP	ENST00000492622.2	37	CCDS41886.1	.	.	.	.	.	.	.	.	.	.	A	13.21	2.168264	0.38315	.	.	ENSG00000102531	ENST00000492622;ENST00000337156;ENST00000541916;ENST00000398316	T;T;T	0.52057	0.68;0.68;0.68	5.26	5.26	0.73747	Fibronectin, type III (3);Immunoglobulin-like fold (1);	0.260892	0.31772	N	0.007085	T	0.30262	0.0759	N	0.12443	0.215	0.80722	D	1	B;B	0.06786	0.001;0.0	B;B	0.11329	0.006;0.001	T	0.09640	-1.0665	10	0.20519	T	0.43	-8.0455	14.3424	0.66636	1.0:0.0:0.0:0.0	.	695;751	Q9Y2H6-2;Q9Y2H6	.;FND3A_HUMAN	V	751;687;751;695	ENSP00000417257:D751V;ENSP00000441831:D751V;ENSP00000381362:D695V	ENSP00000338579:D687V	D	+	2	0	FNDC3A	48669039	1.000000	0.71417	0.989000	0.46669	0.866000	0.49608	8.730000	0.91510	1.984000	0.57885	0.379000	0.24179	GAT		0.388	FNDC3A-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354845.2	NM_014923		T	49771038	A	T	49771038	3	4	640	1	0	0	0	0	1	0	0	0	5976	333	12	5	2337	5	FNDC3A	13	49771038	Missense_Mutation	SNP	A	TCGA-KL-8341-01A-11D-2310-10	24515257	49771038	65398840	81	39571										
OR4M1	441670	broad.mit.edu;mdanderson.org	37	chr14	20248894	20248894	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ctatgctaccatcatgaatcGacgtctctgctgtatcctgg	8	12	2	1	rs373032779		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:20248894G>A	ENST00000315957.4	+	1	494	c.413G>A	c.(412-414)cGa>cAa	p.R138Q		NM_001005500.1	NP_001005500.1	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M, member 1	138						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|breast(1)|endometrium(1)|large_intestine(4)|lung(32)|prostate(1)|skin(2)	42	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ATCATGAATCGACGTCTCTGC	0.522																																																0									GLN/ARG	0,4406		0,0,2203	262	271	268		413	0.2	0.8	14		268	1,8599		0,1,4299	no	missense	OR4M1	NM_001005500.1	43	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	benign	138/314	20248894	1,13005	2203	4300	6503	SO:0001583	missense	441670				CCDS32021.1	14q11.2	2013-09-23			ENSG00000176299	ENSG00000176299		"GPCR / Class A : Olfactory receptors"	14735	protein-coding gene	gene with protein product							Standard	NM_001005500		Approved		uc010tku.2	Q8NGD0	OTTHUMG00000170599	ENST00000315957.4:c.413G>A	14.37:g.20248894G>A	ENSP00000319654:p.Arg138Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B9EH18|Q6IFA3	Missense_Mutation	SNP	ENST00000315957.4	37	CCDS32021.1	.	.	.	.	.	.	.	.	.	.	.	4.713	0.132514	0.09032	0.0	1.16E-4	ENSG00000176299	ENST00000315957	T	0.01347	4.99	4.33	0.153	0.14897	GPCR, rhodopsin-like superfamily (1);	0.433156	0.17204	N	0.183018	T	0.00967	0.0032	N	0.26042	0.785	0.09310	N	1	B	0.30709	0.291	B	0.15484	0.013	T	0.50591	-0.8810	10	0.25106	T	0.35	-0.216	6.2969	0.21091	0.1759:0.2841:0.54:0.0	.	138	Q8NGD0	OR4M1_HUMAN	Q	138	ENSP00000319654:R138Q	ENSP00000319654:R138Q	R	+	2	0	OR4M1	19318734	0.000000	0.05858	0.766000	0.31476	0.547000	0.35210	-0.556000	0.05992	0.218000	0.20820	-1.720000	0.00707	CGA		0.522	OR4M1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409770.1			A	20248894	G	A	20248894	3	1	640	1	0	0	0	0	1	0	0	0	11082	1058	37	1	415	1	OR4M1	14	20248894	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10		20248894	87100646	82	39572										
OR4K5	79317	mdanderson.org	37	chr14	20389305	20389305	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gtagacagctttttttgtgaTcttcctcgagtcaccaaact	7	10	2	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:20389305T>C	ENST00000315915.4	+	1	565	c.540T>C	c.(538-540)gaT>gaC	p.D180D		NM_001005483.1	NP_001005483.1	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K, member 5	180						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			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)		TTTTTTGTGATCTTCCTCGAG	0.423																																																0													249	263	258					14																	20389305		2203	4300	6503	SO:0001819	synonymous_variant	79317			BK004355	CCDS32024.1	14q11.22	2012-08-09				ENSG00000176281		"GPCR / Class A : Olfactory receptors"	14745	protein-coding gene	gene with protein product						14983052	Standard	NM_001005483		Approved		uc010tkw.2	Q8NGD3		ENST00000315915.4:c.540T>C	14.37:g.20389305T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFA7	Silent	SNP	ENST00000315915.4	37	CCDS32024.1																																																																																				0.423	OR4K5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409867.1	NM_001005483		C	20389305	T	C	20389305	2	2	640	1	0	0	0	0	0	0	0	1	11080	1432	50	3		3	OR4K5	14	20389305	Silent	SNP	T	TCGA-KL-8341-01A-11D-2310-10	140411	20389305	86960235	83	39573										
OR4K17	390436	broad.mit.edu	37	chr14	20586424	20586424	+	Frame_Shift_Del	DEL	T	T	-													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tcttctttggcccatgcatcTttatctacatttggcccttc							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:20586424delT	ENST00000315543.4	+	1	859	c.859delT	c.(859-861)tttfs	p.F287fs		NM_001004715.1	NP_001004715.1	Q8NGC6	OR4KH_HUMAN	olfactory receptor, family 4, subfamily K, member 17	259						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			kidney(1)|large_intestine(4)|lung(12)|pancreas(1)|skin(3)	21	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.77e-06)	GBM - Glioblastoma multiforme(265;0.0144)		CCCATGCATCTTTATCTACAT	0.423																																																0													116	105	108					14																	20586424		2203	4300	6503	SO:0001589	frameshift_variant	390436				CCDS32030.1	14q11.2	2013-09-23			ENSG00000176230	ENSG00000176230		"GPCR / Class A : Olfactory receptors"	15355	protein-coding gene	gene with protein product							Standard	NM_001004715		Approved		uc001vwo.1	Q8NGC6	OTTHUMG00000170783	ENST00000315543.4:c.859delT	14.37:g.20586424delT	ENSP00000319197:p.Phe287fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF12	Frame_Shift_Del	DEL	ENST00000315543.4	37	CCDS32030.1																																																																																				0.423	OR4K17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410346.1			-	20586424	T	-	20586424	7	5	640	1	0	1	0	1	0	0	0	0	11078	1609	56	0	861	0	OR4K17	14	20586424	Frame_Shift_Del	DEL	T	TCGA-KL-8341-01A-11D-2310-10	197119	20586424	86763116	84	39574	337	4								
OR4K17	390436	bcgsc.ca	37	chr14	20586425	20586425	+	Frame_Shift_Del	DEL	T	T	-													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	cttctttggcccatgcatctTtatctacatttggcccttcg							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:20586425delT	ENST00000315543.4	+	1	860	c.860delT	c.(859-861)tttfs	p.F287fs		NM_001004715.1	NP_001004715.1	Q8NGC6	OR4KH_HUMAN	olfactory receptor, family 4, subfamily K, member 17	259						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			kidney(1)|large_intestine(4)|lung(12)|pancreas(1)|skin(3)	21	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.77e-06)	GBM - Glioblastoma multiforme(265;0.0144)		CCATGCATCTTTATCTACATT	0.423																																																0													114	104	107					14																	20586425		2203	4300	6503	SO:0001589	frameshift_variant	390436				CCDS32030.1	14q11.2	2013-09-23			ENSG00000176230	ENSG00000176230		"GPCR / Class A : Olfactory receptors"	15355	protein-coding gene	gene with protein product							Standard	NM_001004715		Approved		uc001vwo.1	Q8NGC6	OTTHUMG00000170783	ENST00000315543.4:c.860delT	14.37:g.20586425delT	ENSP00000319197:p.Phe287fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF12	Frame_Shift_Del	DEL	ENST00000315543.4	37	CCDS32030.1																																																																																				0.423	OR4K17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410346.1			-	20586425	T	-	20586425	7	5	640	1	0	1	0	1	0	0	0	0	11078	1841	64	0	862	0	OR4K17	14	20586425	Frame_Shift_Del	DEL	T	TCGA-KL-8341-01A-11D-2310-10	1	20586425	86763115	85	39575	337	4								
OR4K17	390436	broad.mit.edu	37	chr14	20586433	20586434	+	Frame_Shift_Ins	INS	-	-	T													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	cccatgcatctttatctacaINStttggcccttcggcaaccac							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:20586433_20586434insT	ENST00000315543.4	+	1	868_869	c.868_869insT	c.(868-870)attfs	p.I290fs		NM_001004715.1	NP_001004715.1	Q8NGC6	OR4KH_HUMAN	olfactory receptor, family 4, subfamily K, member 17	262						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			kidney(1)|large_intestine(4)|lung(12)|pancreas(1)|skin(3)	21	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.77e-06)	GBM - Glioblastoma multiforme(265;0.0144)		CTTTATCTACATTTGGCCCTTC	0.421																																																0																																										SO:0001589	frameshift_variant	390436				CCDS32030.1	14q11.2	2013-09-23			ENSG00000176230	ENSG00000176230		"GPCR / Class A : Olfactory receptors"	15355	protein-coding gene	gene with protein product							Standard	NM_001004715		Approved		uc001vwo.1	Q8NGC6	OTTHUMG00000170783	ENST00000315543.4:c.871dupT	14.37:g.20586436_20586436dupT	ENSP00000319197:p.Ile290fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF12	Frame_Shift_Ins	INS	ENST00000315543.4	37	CCDS32030.1																																																																																				0.421	OR4K17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410346.1			T	20586434	-	T	20586433	7	5	640	1	0	1	1	0	0	0	0	0	11078	217	8	0	870	0	OR4K17	14	20586433	Frame_Shift_Ins	INS	-	TCGA-KL-8341-01A-11D-2310-10	8	20586433	86763107	86	39576	337	4								
OR4K17	390436	bcgsc.ca	37	chr14	20586434	20586435	+	Frame_Shift_Ins	INS	-	-	T													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ccatgcatctttatctacatINSttggcccttcggcaaccact							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:20586434_20586435insT	ENST00000315543.4	+	1	869_870	c.869_870insT	c.(868-873)atttggfs	p.W291fs		NM_001004715.1	NP_001004715.1	Q8NGC6	OR4KH_HUMAN	olfactory receptor, family 4, subfamily K, member 17	263						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			kidney(1)|large_intestine(4)|lung(12)|pancreas(1)|skin(3)	21	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.77e-06)	GBM - Glioblastoma multiforme(265;0.0144)		TTTATCTACATTTGGCCCTTCG	0.426																																																0																																										SO:0001589	frameshift_variant	390436				CCDS32030.1	14q11.2	2013-09-23			ENSG00000176230	ENSG00000176230		"GPCR / Class A : Olfactory receptors"	15355	protein-coding gene	gene with protein product							Standard	NM_001004715		Approved		uc001vwo.1	Q8NGC6	OTTHUMG00000170783	ENST00000315543.4:c.871dupT	14.37:g.20586436_20586436dupT	ENSP00000319197:p.Trp291fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF12	Frame_Shift_Ins	INS	ENST00000315543.4	37	CCDS32030.1																																																																																				0.426	OR4K17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410346.1			T	20586435	-	T	20586434	7	5	640	1	0	1	1	0	0	0	0	0	11078	1493	52	0	871	0	OR4K17	14	20586434	Frame_Shift_Ins	INS	-	TCGA-KL-8341-01A-11D-2310-10	1	20586434	86763106	87	39577	337	4								
MYH7	4625	mdanderson.org	37	chr14	23885477	23885477	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gccttgatctggttgaactcCagctgggcccggaggatctt	13	11	2	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:23885477C>T	ENST00000355349.3	-	34	4851	c.4689G>A	c.(4687-4689)ctG>ctA	p.L1563L	MIR208B_ENST00000401172.1_RNA|CTD-2201G16.1_ENST00000557368.1_RNA	NM_000257.2	NP_000248.2	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1563					adult heart development (GO:0007512)|ATP catabolic process (GO:0006200)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|regulation of heart rate (GO:0002027)|regulation of the force of heart contraction (GO:0002026)|striated muscle contraction (GO:0006941)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)	cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|muscle myosin complex (GO:0005859)|myosin complex (GO:0016459)|myosin filament (GO:0032982)|nucleus (GO:0005634)|sarcomere (GO:0030017)|stress fiber (GO:0001725)|Z disc (GO:0030018)	actin-dependent ATPase activity (GO:0030898)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microfilament motor activity (GO:0000146)			NS(3)|breast(4)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(5)|large_intestine(19)|lung(57)|ovary(5)|prostate(9)|skin(5)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(5)	137	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		GGTTGAACTCCAGCTGGGCCC	0.647																																																0													124	123	123					14																	23885477		2203	4300	6503	SO:0001819	synonymous_variant	4625			M58018	CCDS9601.1	14q11.2-q13	2014-09-17	2006-09-29		ENSG00000092054	ENSG00000092054		"Myosins / Myosin superfamily : Class II"	7577	protein-coding gene	gene with protein product		160760	"myopathy, distal 1", "myosin, heavy polypeptide 7, cardiac muscle, beta"	CMH1, MPD1		2494889, 8483915, 15322983	Standard	XM_005267696		Approved	CMD1S	uc001wjx.3	P12883	OTTHUMG00000028755	ENST00000355349.3:c.4689G>A	14.37:g.23885477C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2TDB6|B6D424|Q14836|Q14837|Q14904|Q16579|Q2M1Y6|Q92679|Q9H1D5|Q9UDA2|Q9UMM8	Silent	SNP	ENST00000355349.3	37	CCDS9601.1																																																																																				0.647	MYH7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071798.3	NM_000257		T	23885477	C	T	23885477	2	4	640	1	0	0	0	0	0	0	0	1	10046	581	21	2		2	MYH7	14	23885477	Silent	SNP	C	TCGA-KL-8341-01A-11D-2310-10	3299043	23885477	83464063	88	39578										
MYH7	4625	mdanderson.org	37	chr14	23886718	23886718	+	Silent	SNP	G	G	A													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	cacccagggcccaccttgtcGaagttcctctgcttcttgtc					rs182311329	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:23886718G>A	ENST00000355349.3	-	31	4509	c.4347C>T	c.(4345-4347)ttC>ttT	p.F1449F	MIR208B_ENST00000401172.1_RNA|CTD-2201G16.1_ENST00000557368.1_RNA	NM_000257.2	NP_000248.2	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1449					adult heart development (GO:0007512)|ATP catabolic process (GO:0006200)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|regulation of heart rate (GO:0002027)|regulation of the force of heart contraction (GO:0002026)|striated muscle contraction (GO:0006941)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)	cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|muscle myosin complex (GO:0005859)|myosin complex (GO:0016459)|myosin filament (GO:0032982)|nucleus (GO:0005634)|sarcomere (GO:0030017)|stress fiber (GO:0001725)|Z disc (GO:0030018)	actin-dependent ATPase activity (GO:0030898)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microfilament motor activity (GO:0000146)			NS(3)|breast(4)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(5)|large_intestine(19)|lung(57)|ovary(5)|prostate(9)|skin(5)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(5)	137	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		CCACCTTGTCGAAGTTCCTCT	0.622													G|||	2	0.000399361	0.0008	0.0	5008	,	,		16915	0.001		0.0	False		,,,				2504	0.0															0																																										SO:0001819	synonymous_variant	4625			M58018	CCDS9601.1	14q11.2-q13	2014-09-17	2006-09-29		ENSG00000092054	ENSG00000092054		"Myosins / Myosin superfamily : Class II"	7577	protein-coding gene	gene with protein product		160760	"myopathy, distal 1", "myosin, heavy polypeptide 7, cardiac muscle, beta"	CMH1, MPD1		2494889, 8483915, 15322983	Standard	XM_005267696		Approved	CMD1S	uc001wjx.3	P12883	OTTHUMG00000028755	ENST00000355349.3:c.4347C>T	14.37:g.23886718G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2TDB6|B6D424|Q14836|Q14837|Q14904|Q16579|Q2M1Y6|Q92679|Q9H1D5|Q9UDA2|Q9UMM8	Silent	SNP	ENST00000355349.3	37	CCDS9601.1																																																																																				0.622	MYH7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071798.3	NM_000257		A	23886718	G	A	23886718	2	1	640	1	0	0	0	0	0	0	0	1	10046	1049	37	1		1	MYH7	14	23886718	Silent	SNP	G	TCGA-KL-8341-01A-11D-2310-10	1241	23886718	83462822	89	39579	338	2								
MYH7	4625	mdanderson.org	37	chr14	23886724	23886724	+	Silent	SNP	C	C	T													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gggcccaccttgtcgaagttCctctgcttcttgtccagggc							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:23886724C>T	ENST00000355349.3	-	31	4503	c.4341G>A	c.(4339-4341)agG>agA	p.R1447R	MIR208B_ENST00000401172.1_RNA|CTD-2201G16.1_ENST00000557368.1_RNA	NM_000257.2	NP_000248.2	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1447					adult heart development (GO:0007512)|ATP catabolic process (GO:0006200)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|regulation of heart rate (GO:0002027)|regulation of the force of heart contraction (GO:0002026)|striated muscle contraction (GO:0006941)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)	cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|muscle myosin complex (GO:0005859)|myosin complex (GO:0016459)|myosin filament (GO:0032982)|nucleus (GO:0005634)|sarcomere (GO:0030017)|stress fiber (GO:0001725)|Z disc (GO:0030018)	actin-dependent ATPase activity (GO:0030898)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microfilament motor activity (GO:0000146)			NS(3)|breast(4)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(5)|large_intestine(19)|lung(57)|ovary(5)|prostate(9)|skin(5)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(5)	137	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		TGTCGAAGTTCCTCTGCTTCT	0.612																																																0													99	94	96					14																	23886724		2203	4300	6503	SO:0001819	synonymous_variant	4625			M58018	CCDS9601.1	14q11.2-q13	2014-09-17	2006-09-29		ENSG00000092054	ENSG00000092054		"Myosins / Myosin superfamily : Class II"	7577	protein-coding gene	gene with protein product		160760	"myopathy, distal 1", "myosin, heavy polypeptide 7, cardiac muscle, beta"	CMH1, MPD1		2494889, 8483915, 15322983	Standard	XM_005267696		Approved	CMD1S	uc001wjx.3	P12883	OTTHUMG00000028755	ENST00000355349.3:c.4341G>A	14.37:g.23886724C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2TDB6|B6D424|Q14836|Q14837|Q14904|Q16579|Q2M1Y6|Q92679|Q9H1D5|Q9UDA2|Q9UMM8	Silent	SNP	ENST00000355349.3	37	CCDS9601.1																																																																																				0.612	MYH7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071798.3	NM_000257		T	23886724	C	T	23886724	2	4	640	1	0	0	0	0	0	0	0	1	10046	854	30	2		2	MYH7	14	23886724	Silent	SNP	C	TCGA-KL-8341-01A-11D-2310-10	6	23886724	83462816	90	39580	338	2								
AHNAK2	113146	mdanderson.org	37	chr14	105408107	105408107	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gtccacctgggggcccttgaGgtccactttgggcatcttga	13	12	1	2	rs200549975		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:105408107G>T	ENST00000333244.5	-	7	13800	c.13681C>A	c.(13681-13683)Ctc>Atc	p.L4561I	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4561						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			GGGCCCTTGAGGTCCACTTTG	0.617																																																0													153	161	159					14																	105408107		1903	4109	6012	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.13681C>A	14.37:g.105408107G>T	ENSP00000353114:p.Leu4561Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	.	.	.	.	.	.	.	.	.	.	G	3.913	-0.019674	0.07634	.	.	ENSG00000185567	ENST00000333244	T	0.00628	6.11	3.09	-3.06	0.05379	.	2.229260	0.03962	U	0.290278	T	0.00552	0.0018	L	0.31120	0.905	0.09310	N	1	P	0.40032	0.699	B	0.40009	0.316	T	0.45644	-0.9247	10	0.13470	T	0.59	.	1.4002	0.02269	0.1996:0.1066:0.2206:0.4731	.	4561	Q8IVF2	AHNK2_HUMAN	I	4561	ENSP00000353114:L4561I	ENSP00000353114:L4561I	L	-	1	0	AHNAK2	104479152	0.000000	0.05858	0.010000	0.14722	0.232000	0.25224	-2.180000	0.01258	-0.335000	0.08451	0.306000	0.20318	CTC		0.617	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		T	105408107	G	T	105408107	3	4	640	1	0	0	0	0	1	0	0	0	415	1000	35	4	3710	4	AHNAK2	14	105408107	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	81521383	105408107	1941433	91	39581			2	89		9	6	7642	N	T_G_C_A	2.093013e-10
AHNAK2	113146	mdanderson.org	37	chr14	105408140	105408140	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	catcttgaaactgggcatctCcaccttgggcaggtgccctt	10	13	2	1	rs201663085		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:105408140C>G	ENST00000333244.5	-	7	13767	c.13648G>C	c.(13648-13650)Gag>Cag	p.E4550Q	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4550						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			CTGGGCATCTCCACCTTGGGC	0.617																																																0																																										SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.13648G>C	14.37:g.105408140C>G	ENSP00000353114:p.Glu4550Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	.	.	.	.	.	.	.	.	.	.	G	0.009	-1.854353	0.00558	.	.	ENSG00000185567	ENST00000333244	T	0.00682	5.86	3.28	0.23	0.15372	.	0.471713	0.14436	N	0.319717	T	0.00356	0.0011	N	0.00855	-1.145	0.09310	N	1	B	0.24768	0.111	B	0.24541	0.054	T	0.43114	-0.9411	10	0.20046	T	0.44	.	7.373	0.26813	0.1694:0.4763:0.3543:0.0	.	4550	Q8IVF2	AHNK2_HUMAN	Q	4550	ENSP00000353114:E4550Q	ENSP00000353114:E4550Q	E	-	1	0	AHNAK2	104479185	0.090000	0.21635	0.084000	0.20598	0.107000	0.19398	-0.347000	0.07750	-0.126000	0.11682	-2.576000	0.00170	GAG		0.617	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		G	105408140	C	G	105408140	3	3	640	1	0	0	0	0	1	0	0	0	415	864	30	4	3743	4	AHNAK2	14	105408140	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	33	105408140	1941400	92	39582			2	89		9	6	7642	N	T_G_C_A	2.093013e-10
AHNAK2	113146	mdanderson.org	37	chr14	105415160	105415160	+	Missense_Mutation	SNP	C	C	G													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ctggccagcctggaccttcaCgtcggcggaaaggggctgaa					rs201874096	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:105415160C>G	ENST00000333244.5	-	7	6747	c.6628G>C	c.(6628-6630)Gtg>Ctg	p.V2210L	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2210						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			TGGACCTTCACGTCGGCGGAA	0.637													.|||	169	0.033746	0.0787	0.0101	5008	,	,		18042	0.0347		0.001	False		,,,				2504	0.0225															0													112	108	109					14																	105415160		1938	4141	6079	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.6628G>C	14.37:g.105415160C>G	ENSP00000353114:p.Val2210Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	.	.	.	.	.	.	.	.	.	.	N	0.153	-1.089039	0.01873	.	.	ENSG00000185567	ENST00000333244	T	0.01119	5.31	4.26	-0.475	0.12104	.	.	.	.	.	T	0.00666	0.0022	N	0.01454	-0.855	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.52041	-0.8628	9	0.05351	T	0.99	.	20.4837	0.99199	0.0:0.8803:0.1197:0.0	.	2210	Q8IVF2	AHNK2_HUMAN	L	2210	ENSP00000353114:V2210L	ENSP00000353114:V2210L	V	-	1	0	AHNAK2	104486205	0.000000	0.05858	0.000000	0.03702	0.016000	0.09150	-1.060000	0.03475	-1.481000	0.01863	-0.332000	0.08345	GTG		0.637	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		G	105415160	C	G	105415160	3	3	640	1	0	0	0	0	1	0	0	0	415	536	19	4	10763	4	AHNAK2	14	105415160	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	7020	105415160	1934380	93	39583	339	3	2	89		9	6	7642	N	T_G_C_A	2.093013e-10
AHNAK2	113146	mdanderson.org	37	chr14	105415166	105415166	+	Missense_Mutation	SNP	C	C	T													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	agcctggaccttcacgtcggCggaaaggggctgaatgctga					rs201667039		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:105415166C>T	ENST00000333244.5	-	7	6741	c.6622G>A	c.(6622-6624)Gcc>Acc	p.A2208T	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2208						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			TTCACGTCGGCGGAAAGGGGC	0.632																																																0													112	105	107					14																	105415166		1935	4135	6070	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.6622G>A	14.37:g.105415166C>T	ENSP00000353114:p.Ala2208Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	9	0.004120879120879121	7	0.014227642276422764	0	0.0	2	0.0034965034965034965	0	0.0	N	8.172	0.791836	0.16258	.	.	ENSG00000185567	ENST00000333244	T	0.00912	5.55	4.26	-2.56	0.06268	.	.	.	.	.	T	0.00580	0.0019	L	0.45744	1.44	0.09310	N	1	P	0.45428	0.858	B	0.40009	0.316	T	0.40289	-0.9571	9	0.13470	T	0.59	.	1.7149	0.02899	0.1147:0.283:0.2021:0.4002	.	2208	Q8IVF2	AHNK2_HUMAN	T	2208	ENSP00000353114:A2208T	ENSP00000353114:A2208T	A	-	1	0	AHNAK2	104486211	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.254000	0.02874	-1.113000	0.02981	-1.166000	0.01754	GCC		0.632	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		T	105415166	C	T	105415166	3	4	640	1	0	0	0	0	1	0	0	0	415	768	27	1	10769	1	AHNAK2	14	105415166	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	6	105415166	1934374	94	39584	339	3	2	89		9	6	7642	N	T_G_C_A	2.093013e-10
AHNAK2	113146	mdanderson.org	37	chr14	105415171	105415171	+	Missense_Mutation	SNP	A	A	G													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ggaccttcacgtcggcggaaAggggctgaatgctgaggtca					rs201552064		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:105415171A>G	ENST00000333244.5	-	7	6736	c.6617T>C	c.(6616-6618)cTt>cCt	p.L2206P	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2206						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			GTCGGCGGAAAGGGGCTGAAT	0.642																																																0													116	106	109					14																	105415171		1942	4131	6073	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.6617T>C	14.37:g.105415171A>G	ENSP00000353114:p.Leu2206Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	.	.	.	.	.	.	.	.	.	.	N	8.966	0.971743	0.18736	.	.	ENSG00000185567	ENST00000333244	T	0.00448	7.38	4.26	4.26	0.50523	.	.	.	.	.	T	0.00073	0.0002	N	0.00012	-2.95	0.34200	D	0.67309	B	0.02656	0.0	B	0.06405	0.002	T	0.02161	-1.1203	9	0.02654	T	1	.	6.4926	0.22123	0.0959:0.0:0.7263:0.1777	.	2206	Q8IVF2	AHNK2_HUMAN	P	2206	ENSP00000353114:L2206P	ENSP00000353114:L2206P	L	-	2	0	AHNAK2	104486216	.	.	0.089000	0.20774	0.013000	0.08279	.	.	0.803000	0.34113	-0.330000	0.08379	CTT		0.642	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		G	105415171	A	G	105415171	3	3	640	1	0	0	0	0	1	0	0	0	415	72	3	3	10774	3	AHNAK2	14	105415171	Missense_Mutation	SNP	A	TCGA-KL-8341-01A-11D-2310-10	5	105415171	1934369	95	39585	339	3	2	89		9	6	7642	N	T_G_C_A	2.093013e-10
AHNAK2	113146	mdanderson.org	37	chr14	105415196	105415196	+	Missense_Mutation	SNP	T	T	C													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ctgaatgctgaggtcagtggTcttgaggtccccctgcatgg					rs200598682		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:105415196T>C	ENST00000333244.5	-	7	6711	c.6592A>G	c.(6592-6594)Acc>Gcc	p.T2198A	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2198						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			AGGTCAGTGGTCTTGAGGTCC	0.642																																																0													123	104	110					14																	105415196		1952	4126	6078	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.6592A>G	14.37:g.105415196T>C	ENSP00000353114:p.Thr2198Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	.	.	.	.	.	.	.	.	.	.	N	9.313	1.056023	0.19907	.	.	ENSG00000185567	ENST00000333244	T	0.00711	5.8	4.41	-1.41	0.08941	.	.	.	.	.	T	0.00496	0.0016	N	0.12920	0.275	0.09310	N	1	B	0.11235	0.004	B	0.16722	0.016	T	0.43861	-0.9365	9	0.07030	T	0.85	.	4.5244	0.11975	0.0:0.3735:0.4008:0.2257	.	2198	Q8IVF2	AHNK2_HUMAN	A	2198	ENSP00000353114:T2198A	ENSP00000353114:T2198A	T	-	1	0	AHNAK2	104486241	0.000000	0.05858	0.000000	0.03702	0.096000	0.18686	-0.840000	0.04363	-0.183000	0.10585	0.397000	0.26171	ACC		0.642	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		C	105415196	T	C	105415196	3	2	640	1	0	0	0	0	1	0	0	0	415	1667	58	3	10799	3	AHNAK2	14	105415196	Missense_Mutation	SNP	T	TCGA-KL-8341-01A-11D-2310-10	25	105415196	1934344	96	39586	340	2	2	89		9	6	7642	N	T_G_C_A	2.093013e-10
AHNAK2	113146	mdanderson.org	37	chr14	105415200	105415200	+	Silent	SNP	G	G	C													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	atgctgaggtcagtggtcttGaggtccccctgcatggaggg					rs10145566	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:105415200G>C	ENST00000333244.5	-	7	6707	c.6588C>G	c.(6586-6588)ctC>ctG	p.L2196L	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2196						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			CAGTGGTCTTGAGGTCCCCCT	0.637													.|||	1452	0.289936	0.1483	0.3213	5008	,	,		17263	0.1359		0.4891	False		,,,				2504	0.4131															0								G		553,3361		51,451,1455	123	103	110		6588	0.3	0	14	dbSNP_119	110	3961,4283		1006,1949,1167	no	coding-synonymous	AHNAK2	NM_138420.2		1057,2400,2622	CC,CG,GG		48.0471,14.1288,37.1278		2196/5796	105415200	4514,7644	1957	4122	6079	SO:0001819	synonymous_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.6588C>G	14.37:g.105415200G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Silent	SNP	ENST00000333244.5	37	CCDS45177.1																																																																																				0.637	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		C	105415200	G	C	105415200	2	2	640	1	0	0	0	0	0	0	0	1	415	1277	45	4		4	AHNAK2	14	105415200	Silent	SNP	G	TCGA-KL-8341-01A-11D-2310-10	4	105415200	1934340	97	39587	340	2	2	89		9	6	7642	N	T_G_C_A	2.093013e-10
AHNAK2	113146	mdanderson.org	37	chr14	105415737	105415737	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	agactcacgtcggcctccacCttgggtgcaggcacatccac	10	16	1	1	rs541403583	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:105415737C>T	ENST00000333244.5	-	7	6170	c.6051G>A	c.(6049-6051)aaG>aaA	p.K2017K	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2017						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			CGGCCTCCACCTTGGGTGCAG	0.607													.|||	37	0.00738818	0.0121	0.0072	5008	,	,		16034	0.003		0.001	False		,,,				2504	0.0123															0													133	114	120					14																	105415737		1926	4060	5986	SO:0001819	synonymous_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.6051G>A	14.37:g.105415737C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Silent	SNP	ENST00000333244.5	37	CCDS45177.1																																																																																				0.607	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		T	105415737	C	T	105415737	2	4	640	1	0	0	0	0	0	0	0	1	415	680	24	2		2	AHNAK2	14	105415737	Silent	SNP	C	TCGA-KL-8341-01A-11D-2310-10	537	105415737	1933803	98	39588			2	89		9	6	7642	N	T_G_C_A	2.093013e-10
AHNAK2	113146	mdanderson.org	37	chr14	105415748	105415748	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ggcctccaccttgggtgcagGcacatccaccgaggcctcga	12	16	0	0	rs118171013	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr14:105415748G>A	ENST00000333244.5	-	7	6159	c.6040C>T	c.(6040-6042)Cct>Tct	p.P2014S	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2014						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			TTGGGTGCAGGCACATCCACC	0.597													.|||	1504	0.300319	0.1377	0.3631	5008	,	,		15992	0.0903		0.5447	False		,,,				2504	0.4407															0								A	SER/PRO	806,3058		129,548,1255	138	119	125		6040	-7.4	0	14	dbSNP_132	125	4479,3641		1443,1593,1024	no	missense	AHNAK2	NM_138420.2	74	1572,2141,2279	AA,AG,GG		44.8399,20.8592,44.1005	benign	2014/5796	105415748	5285,6699	1932	4060	5992	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.6040C>T	14.37:g.105415748G>A	ENSP00000353114:p.Pro2014Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	657	0.3008241758241758	79	0.16056910569105692	137	0.3784530386740331	35	0.06118881118881119	406	0.5356200527704486	-	0.114	-1.134216	0.01742	0.208592	0.551601	ENSG00000185567	ENST00000333244	T	0.04015	3.73	3.72	-7.44	0.01379	.	.	.	.	.	T	0.00012	0.0000	N	0.00019	-2.785	0.80722	P	0.0	B	0.09022	0.002	B	0.01281	0.0	T	0.49818	-0.8899	8	0.06891	T	0.86	-0.9503	1.4552	0.02383	0.2249:0.2846:0.3034:0.1871	.	2014	Q8IVF2	AHNK2_HUMAN	S	2014	ENSP00000353114:P2014S	ENSP00000353114:P2014S	P	-	1	0	AHNAK2	104486793	0.000000	0.05858	0.000000	0.03702	0.027000	0.11550	-3.592000	0.00421	-1.485000	0.01854	-2.164000	0.00325	CCT		0.597	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		A	105415748	G	A	105415748	3	1	640	1	0	0	0	0	1	0	0	0	415	1203	42	2	11351	2	AHNAK2	14	105415748	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	11	105415748	1933792	99	39589			2	89		9	6	7642	N	T_G_C_A	2.093013e-10
CAPN3	825	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	42684852	42684852	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tacagacaatcattccggttCagtatgagacaagaatggcc	9	9	2	3			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr15:42684852C>A	ENST00000397163.3	+	7	1180	c.961C>A	c.(961-963)Cag>Aag	p.Q321K	RP11-164J13.1_ENST00000495723.1_RNA|CAPN3_ENST00000349748.3_Missense_Mutation_p.Q273K|CAPN3_ENST00000318023.7_Missense_Mutation_p.Q321K|CAPN3_ENST00000357568.3_Missense_Mutation_p.Q321K|CAPN3_ENST00000356316.3_Missense_Mutation_p.Q234K	NM_000070.2	NP_000061.1	P20807	CAN3_HUMAN	calpain 3, (p94)	321	Calpain catalytic. {ECO:0000255|PROSITE- ProRule:PRU00239}.				apoptotic process (GO:0006915)|autolysis (GO:0001896)|cellular response to calcium ion (GO:0071277)|cellular response to salt stress (GO:0071472)|G1 to G0 transition involved in cell differentiation (GO:0070315)|muscle cell cellular homeostasis (GO:0046716)|muscle organ development (GO:0007517)|muscle structure development (GO:0061061)|myofibril assembly (GO:0030239)|negative regulation of apoptotic process (GO:0043066)|negative regulation of protein sumoylation (GO:0033234)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of proteolysis (GO:0045862)|positive regulation of release of sequestered calcium ion into cytosol (GO:0051281)|positive regulation of satellite cell activation involved in skeletal muscle regeneration (GO:0014718)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein localization to membrane (GO:0072657)|proteolysis (GO:0006508)|regulation of catalytic activity (GO:0050790)|regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043122)|regulation of myoblast differentiation (GO:0045661)|response to calcium ion (GO:0051592)|response to muscle activity (GO:0014850)|sarcomere organization (GO:0045214)|self proteolysis (GO:0097264)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intracellular (GO:0005622)|myofibril (GO:0030016)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|T-tubule (GO:0030315)|Z disc (GO:0030018)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)|catalytic activity (GO:0003824)|cysteine-type peptidase activity (GO:0008234)|ligase regulator activity (GO:0055103)|peptidase activity (GO:0008233)|protein complex scaffold (GO:0032947)|signal transducer activity (GO:0004871)|sodium ion binding (GO:0031402)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(8)|lung(21)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	47		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)		CATTCCGGTTCAGTATGAGAC	0.547																																																0													83	71	75					15																	42684852		2203	4299	6502	SO:0001583	missense	825			X85030	CCDS10085.1, CCDS10086.1, CCDS32207.1, CCDS45245.1, CCDS45246.1	15q15.1	2014-09-17			ENSG00000092529	ENSG00000092529	3.4.22.52	"EF-hand domain containing"	1480	protein-coding gene	gene with protein product		114240		LGMD2, LGMD2A		2555341, 7720071	Standard	NM_024344		Approved	CANP3, p94, nCL-1	uc001zpn.1	P20807	OTTHUMG00000130619	ENST00000397163.3:c.961C>A	15.37:g.42684852C>A	ENSP00000380349:p.Gln321Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8K6|Q7L4R0|Q9BQC8|Q9BTU4|Q9Y5S6|Q9Y5S7	Missense_Mutation	SNP	ENST00000397163.3	37	CCDS45245.1	.	.	.	.	.	.	.	.	.	.	C	15.59	2.878045	0.51801	.	.	ENSG00000092529	ENST00000356316;ENST00000397163;ENST00000357568;ENST00000349748;ENST00000318023	D;D;D;D;D	0.87412	-2.25;-2.25;-2.25;-2.25;-2.25	5.37	5.37	0.77165	Peptidase C2, calpain, catalytic domain (3);	0.257775	0.33253	U	0.005112	T	0.80042	0.4551	N	0.05351	-0.065	0.80722	D	1	B;B;B;B;B;B	0.23990	0.018;0.095;0.009;0.077;0.095;0.021	B;B;B;B;B;B	0.33121	0.065;0.158;0.038;0.062;0.102;0.103	T	0.76780	-0.2833	10	0.51188	T	0.08	.	18.4966	0.90867	0.0:1.0:0.0:0.0	.	186;234;273;321;321;234	C6EVS4;C6EVS3;P20807-2;P20807-3;P20807;Q762C8	.;.;.;.;CAN3_HUMAN;.	K	234;321;321;273;321	ENSP00000348667:Q234K;ENSP00000380349:Q321K;ENSP00000350181:Q321K;ENSP00000183936:Q273K;ENSP00000326281:Q321K	ENSP00000326281:Q321K	Q	+	1	0	CAPN3	40472144	1.000000	0.71417	0.970000	0.41538	0.260000	0.26232	5.608000	0.67654	2.683000	0.91414	0.655000	0.94253	CAG		0.547	CAPN3-009	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000421075.1			A	42684852	C	A	42684852	3	1	640	1	0	0	0	0	1	0	0	0	2630	827	29	4	1039	4	CAPN3	15	42684852	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10		42684852	59846540	100	39590										
ZFP106	64397	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	42742931	42742931	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tcttccacagtgggcttgttCgagggatttgagtgttctcc	12	9	2	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr15:42742931C>T	ENST00000263805.4	-	2	1796	c.1470G>A	c.(1468-1470)tcG>tcA	p.S490S	ZNF106_ENST00000565380.1_Intron|ZNF106_ENST00000565611.1_Intron	NM_001284306.1|NM_001284307.1|NM_022473.1	NP_001271235.1|NP_001271236.1|NP_071918.1	Q9H2Y7	ZN106_HUMAN	zinc finger protein 106	490					insulin receptor signaling pathway (GO:0008286)	cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)										TGGGCTTGTTCGAGGGATTTG	0.388																																																0													229	224	225					15																	42742931		2203	4299	6502	SO:0001819	synonymous_variant	64397			AF205632	CCDS32208.1, CCDS61602.1, CCDS61603.1	15q15.1	2012-11-27	2012-11-27		ENSG00000103994	ENSG00000103994		"Zinc fingers, C2H2-type"	12886	protein-coding gene	gene with protein product	"SH3-domain binding protein 3"		"zinc finger protein 106 homolog (mouse)"	ZFP106			Standard	XM_005254591		Approved	ZNF474, SH3BP3	uc001zpw.3	Q9H2Y7	OTTHUMG00000173244	ENST00000263805.4:c.1470G>A	15.37:g.42742931C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ40|E9PE29|Q6NSD9|Q6PEK1|Q86T43|Q86T45|Q86T50|Q86T58|Q86TA9|Q96M37|Q9H7B8	Silent	SNP	ENST00000263805.4	37	CCDS32208.1																																																																																				0.388	ZNF106-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000422587.1	NM_022473		T	42742931	C	T	42742931	2	4	640	1	0	0	0	0	0	0	0	1	17649	871	31	1		1	ZFP106	15	42742931	Silent	SNP	C	TCGA-KL-8341-01A-11D-2310-10	58079	42742931	59788461	101	39591										
SLC12A1	6557	broad.mit.edu;mdanderson.org	37	chr15	48518686	48518686	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ctaacaggtcttggagttctCataattcttctttccaccat	5	11	4	0			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr15:48518686C>G	ENST00000558405.1	+	4	656	c.642C>G	c.(640-642)ctC>ctG	p.L214L	SLC12A1_ENST00000559723.1_Intron|SLC12A1_ENST00000330289.6_Silent_p.L214L|SLC12A1_ENST00000380993.3_Silent_p.L214L|SLC12A1_ENST00000396577.3_Intron			Q13621	S12A1_HUMAN	solute carrier family 12 (sodium/potassium/chloride transporter), member 1	214					cell death (GO:0008219)|chemical homeostasis (GO:0048878)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|excretion (GO:0007588)|ion transmembrane transport (GO:0034220)|ion transport (GO:0006811)|kidney development (GO:0001822)|potassium ion transport (GO:0006813)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)|transport (GO:0006810)	apical plasma membrane (GO:0016324)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	sodium:potassium:chloride symporter activity (GO:0008511)			NS(2)|breast(3)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(14)|lung(30)|ovary(1)|prostate(2)|skin(1)	59		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Potassium Chloride(DB00761)|Quinethazone(DB01325)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	TTGGAGTTCTCATAATTCTTC	0.373																																																0													122	118	120					15																	48518686		1854	4097	5951	SO:0001819	synonymous_variant	6557				CCDS10129.2, CCDS53940.1	15q15-q21	2013-07-18	2013-07-18		ENSG00000074803	ENSG00000074803		"Solute carriers"	10910	protein-coding gene	gene with protein product		600839				8640224	Standard	NM_000338		Approved	NKCC2	uc010bem.3	Q13621	OTTHUMG00000131495	ENST00000558405.1:c.642C>G	15.37:g.48518686C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8JYA2|E9PDW4	Silent	SNP	ENST00000558405.1	37	CCDS10129.2																																																																																				0.373	SLC12A1-006	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000417131.1			G	48518686	C	G	48518686	2	3	640	1	0	0	0	0	0	0	0	1	14395	813	29	4		4	SLC12A1	15	48518686	Silent	SNP	C	TCGA-KL-8341-01A-11D-2310-10	5775755	48518686	54012706	102	39592										
DTWD1	56986	hgsc.bcm.edu	37	chr15	49926993	49926994	+	Splice_Site	INS	-	-	A													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ctgatgagcgacttcaaggtINSaaaaaaaaaatgtttttttg					rs111446752	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr15:49926993_49926994insA	ENST00000251250.6	+	5	874		c.e5+2		DTWD1_ENST00000558653.1_Splice_Site|DTWD1_ENST00000415425.1_Splice_Site|DTWD1_ENST00000403028.3_Splice_Site	NM_020234.5	NP_064619.2	Q8N5C7	DTWD1_HUMAN	DTW domain containing 1									p.?(1)		endometrium(1)|large_intestine(4)|lung(2)|ovary(1)|upper_aerodigestive_tract(1)	9		all_lung(180;0.0384)		all cancers(107;3.27e-08)|GBM - Glioblastoma multiforme(94;7.6e-05)		GACTTCAAGGTAAAAAAAAAAT	0.327																																																1	Unknown(1)	ovary(1)																																								SO:0001630	splice_region_variant	56986			BC032535	CCDS10132.1	15q21.2	2005-08-09			ENSG00000104047	ENSG00000104047			30926	protein-coding gene	gene with protein product							Standard	NM_020234		Approved	MDS009, MGC111207	uc001zxs.3	Q8N5C7	OTTHUMG00000131567	ENST00000251250.6:c.667+2->A	15.37:g.49927003_49927003dupA		Somatic		WXS	Illumina HiSeq	Phase_I	Q567Q3|Q8WVG9|Q9NRU6	Splice_Site	INS	ENST00000251250.6	37	CCDS10132.1																																																																																				0.327	DTWD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254431.2	NM_020234	Intron	A	49926994	-	A	49926993	8	5	640	1	0	1	1	0	0	0	1	0	4793	1652	57	0	679	0	DTWD1	15	49926993	Splice_Site	INS	-	TCGA-KL-8341-01A-11D-2310-10	1408307	49926993	52604399	103	39593										
GCOM1	81488	broad.mit.edu;mdanderson.org	37	chr15	58004208	58004208	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ttttcgacaaaatgattcatCtagtcattgccagaagagtg	8	7	3	3			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr15:58004208C>G	ENST00000299638.3	+	3	999	c.785C>G	c.(784-786)tCt>tGt	p.S262C	GCOM1_ENST00000380569.2_Missense_Mutation_p.S444C|POLR2M_ENST00000380563.2_Missense_Mutation_p.S262C|GCOM1_ENST00000587652.1_Missense_Mutation_p.S659C|GCOM1_ENST00000380568.3_Intron|POLR2M_ENST00000380557.4_Missense_Mutation_p.S105C|GCOM1_ENST00000484300.1_3'UTR	NM_015532.3	NP_056347.1	P0CAP2	GRL1A_HUMAN	polymerase (RNA) II (DNA directed) polypeptide M	262					maintenance of ER location (GO:0051685)	DNA-directed RNA polymerase II, holoenzyme (GO:0016591)|neuronal cell body (GO:0043025)|nuclear envelope (GO:0005635)	DNA-directed RNA polymerase activity (GO:0003899)										AATGATTCATCTAGTCATTGC	0.403																																																0													67	65	66					15																	58004208		2192	4292	6484	SO:0001583	missense	81488			AF326773	CCDS32252.1, CCDS42045.1	15q21.3	2013-01-21	2011-11-07	2011-11-07		ENSG00000255529		"RNA polymerase subunits"	14862	protein-coding gene	gene with protein product		606485	"glutamate receptor, ionotropic, N-methyl D-aspartate-like 1A"	GRINL1A		16769904, 22850672	Standard	NM_015532		Approved	Gdown, Gdown1, GCOM1	uc002aev.1	P0CAP2	OTTHUMG00000166486	ENST00000299638.3:c.785C>G	15.37:g.58004208C>G	ENSP00000299638:p.Ser262Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6EER8|Q6EES2|Q6EEV3|Q6EF00|Q6EF01|Q6EF02|Q6EF46|Q6EFN8|Q6EM48|Q6K046|Q6K050|Q6K051|Q6ZQZ3|Q8NC58|Q8NCF3|Q96DI5|Q96JB7|Q96NF5|Q9Y3V6	Missense_Mutation	SNP	ENST00000299638.3	37	CCDS32252.1	.	.	.	.	.	.	.	.	.	.	C	14.82	2.648457	0.47258	.	.	ENSG00000137878;ENSG00000255529;ENSG00000255529;ENSG00000255529	ENST00000380569;ENST00000380563;ENST00000299638;ENST00000380557	T	0.29917	1.55	4.85	1.81	0.25067	.	0.777046	0.11914	N	0.517340	T	0.41719	0.1171	.	.	.	0.09310	N	1	P;D;P	0.67145	0.955;0.996;0.8	P;P;B	0.56216	0.707;0.794;0.421	T	0.19549	-1.0302	9	0.54805	T	0.06	3.5611	8.7103	0.34380	0.0:0.6569:0.2603:0.0828	.	105;262;444	P0CAP2-2;P0CAP2;P0CAP1-11	.;GRL1A_HUMAN;.	C	444;262;262;105	ENSP00000369943:S444C	ENSP00000369943:S444C	S	+	2	0	GCOM1;GRINL1A	55791500	0.000000	0.05858	0.000000	0.03702	0.016000	0.09150	0.855000	0.27805	0.308000	0.22923	0.655000	0.94253	TCT		0.403	POLR2M-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255719.2			G	58004208	C	G	58004208	3	3	640	1	0	0	0	0	1	0	0	0	6311	913	32	4	1482	4	GCOM1	15	58004208	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	8077215	58004208	44527184	104	39594			3	90		3	3	80	C		4.862974e-08
GCOM1	81488	broad.mit.edu;mdanderson.org	37	chr15	58004276	58004276	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ggcgcagggataagcagcatCttgatgacatcacagcagct	12	10	2	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr15:58004276C>T	ENST00000299638.3	+	3	1067	c.853C>T	c.(853-855)Ctt>Ttt	p.L285F	GCOM1_ENST00000380569.2_Missense_Mutation_p.L467F|POLR2M_ENST00000380563.2_Missense_Mutation_p.L285F|GCOM1_ENST00000587652.1_Missense_Mutation_p.L682F|GCOM1_ENST00000380568.3_Intron|POLR2M_ENST00000380557.4_Missense_Mutation_p.L128F|GCOM1_ENST00000484300.1_3'UTR	NM_015532.3	NP_056347.1	P0CAP2	GRL1A_HUMAN	polymerase (RNA) II (DNA directed) polypeptide M	285					maintenance of ER location (GO:0051685)	DNA-directed RNA polymerase II, holoenzyme (GO:0016591)|neuronal cell body (GO:0043025)|nuclear envelope (GO:0005635)	DNA-directed RNA polymerase activity (GO:0003899)										TAAGCAGCATCTTGATGACAT	0.488																																																0													57	56	57					15																	58004276		2192	4292	6484	SO:0001583	missense	81488			AF326773	CCDS32252.1, CCDS42045.1	15q21.3	2013-01-21	2011-11-07	2011-11-07		ENSG00000255529		"RNA polymerase subunits"	14862	protein-coding gene	gene with protein product		606485	"glutamate receptor, ionotropic, N-methyl D-aspartate-like 1A"	GRINL1A		16769904, 22850672	Standard	NM_015532		Approved	Gdown, Gdown1, GCOM1	uc002aev.1	P0CAP2	OTTHUMG00000166486	ENST00000299638.3:c.853C>T	15.37:g.58004276C>T	ENSP00000299638:p.Leu285Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q6EER8|Q6EES2|Q6EEV3|Q6EF00|Q6EF01|Q6EF02|Q6EF46|Q6EFN8|Q6EM48|Q6K046|Q6K050|Q6K051|Q6ZQZ3|Q8NC58|Q8NCF3|Q96DI5|Q96JB7|Q96NF5|Q9Y3V6	Missense_Mutation	SNP	ENST00000299638.3	37	CCDS32252.1	.	.	.	.	.	.	.	.	.	.	C	19.41	3.822039	0.71028	.	.	ENSG00000137878;ENSG00000255529;ENSG00000255529;ENSG00000255529	ENST00000380569;ENST00000380563;ENST00000299638;ENST00000380557	T	0.29142	1.58	4.76	4.76	0.60689	.	0.886809	0.09915	N	0.739245	T	0.51466	0.1676	.	.	.	0.33828	D	0.629945	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.997	T	0.57447	-0.7810	9	0.59425	D	0.04	-7.978	7.3211	0.26528	0.0:0.8194:0.0:0.1806	.	128;285;467	P0CAP2-2;P0CAP2;P0CAP1-11	.;GRL1A_HUMAN;.	F	467;285;285;128	ENSP00000369943:L467F	ENSP00000369943:L467F	L	+	1	0	GCOM1;GRINL1A	55791568	0.988000	0.35896	0.963000	0.40424	0.984000	0.73092	1.091000	0.30915	2.627000	0.88993	0.591000	0.81541	CTT		0.488	POLR2M-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255719.2			T	58004276	C	T	58004276	3	4	640	1	0	0	0	0	1	0	0	0	6311	913	32	2	1550	2	GCOM1	15	58004276	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	68	58004276	44527116	105	39595			3	90		3	3	80	C		4.862974e-08
GCOM1	81488	broad.mit.edu;mdanderson.org	37	chr15	58004287	58004287	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	aagcagcatcttgatgacatCacagcagctcggcttctacc	8	13	3	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr15:58004287C>T	ENST00000299638.3	+	3	1078	c.864C>T	c.(862-864)atC>atT	p.I288I	GCOM1_ENST00000380569.2_Silent_p.I470I|POLR2M_ENST00000380563.2_Silent_p.I288I|GCOM1_ENST00000587652.1_Silent_p.I685I|GCOM1_ENST00000380568.3_Intron|POLR2M_ENST00000380557.4_Silent_p.I131I|GCOM1_ENST00000484300.1_3'UTR	NM_015532.3	NP_056347.1	P0CAP2	GRL1A_HUMAN	polymerase (RNA) II (DNA directed) polypeptide M	288					maintenance of ER location (GO:0051685)	DNA-directed RNA polymerase II, holoenzyme (GO:0016591)|neuronal cell body (GO:0043025)|nuclear envelope (GO:0005635)	DNA-directed RNA polymerase activity (GO:0003899)										TTGATGACATCACAGCAGCTC	0.483																																																0													55	54	55					15																	58004287		2192	4290	6482	SO:0001819	synonymous_variant	81488			AF326773	CCDS32252.1, CCDS42045.1	15q21.3	2013-01-21	2011-11-07	2011-11-07		ENSG00000255529		"RNA polymerase subunits"	14862	protein-coding gene	gene with protein product		606485	"glutamate receptor, ionotropic, N-methyl D-aspartate-like 1A"	GRINL1A		16769904, 22850672	Standard	NM_015532		Approved	Gdown, Gdown1, GCOM1	uc002aev.1	P0CAP2	OTTHUMG00000166486	ENST00000299638.3:c.864C>T	15.37:g.58004287C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6EER8|Q6EES2|Q6EEV3|Q6EF00|Q6EF01|Q6EF02|Q6EF46|Q6EFN8|Q6EM48|Q6K046|Q6K050|Q6K051|Q6ZQZ3|Q8NC58|Q8NCF3|Q96DI5|Q96JB7|Q96NF5|Q9Y3V6	Silent	SNP	ENST00000299638.3	37	CCDS32252.1																																																																																				0.483	POLR2M-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255719.2			T	58004287	C	T	58004287	2	4	640	1	0	0	0	0	0	0	0	1	6311	816	29	2		2	GCOM1	15	58004287	Silent	SNP	C	TCGA-KL-8341-01A-11D-2310-10	11	58004287	44527105	106	39596			3	90		3	3	80	C		4.862974e-08
FAM81A	145773	mdanderson.org	37	chr15	59808946	59808946	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	cttttgatggtcagagaacaAggcaagaagaggagaagatg	14	4	1	6			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr15:59808946A>G	ENST00000288228.5	+	8	1076	c.889A>G	c.(889-891)Agg>Ggg	p.R297G		NM_152450.2	NP_689663.2	Q8TBF8	FA81A_HUMAN	family with sequence similarity 81, member A	297										endometrium(2)|large_intestine(1)|lung(5)|ovary(1)|skin(1)	10						TCAGAGAACAAGGCAAGAAGA	0.463																																																0													109	105	106					15																	59808946		1957	4149	6106	SO:0001583	missense	145773				CCDS45269.1	15q22.2	2012-10-02			ENSG00000157470	ENSG00000157470			28379	protein-coding gene	gene with protein product							Standard	NM_152450		Approved	MGC26690	uc002agc.2	Q8TBF8	OTTHUMG00000171915	ENST00000288228.5:c.889A>G	15.37:g.59808946A>G	ENSP00000288228:p.Arg297Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000288228.5	37	CCDS45269.1	.	.	.	.	.	.	.	.	.	.	A	8.480	0.859642	0.17178	.	.	ENSG00000157470	ENST00000288228	T	0.72942	-0.7	5.65	5.65	0.86999	.	0.157787	0.44902	D	0.000410	T	0.50565	0.1623	N	0.08118	0	0.09310	N	1	B	0.13145	0.007	B	0.16289	0.015	T	0.49072	-0.8977	10	0.87932	D	0	-26.1318	10.2736	0.43497	0.8346:0.1654:0.0:0.0	.	297	Q8TBF8	FA81A_HUMAN	G	297	ENSP00000288228:R297G	ENSP00000288228:R297G	R	+	1	2	FAM81A	57596238	0.988000	0.35896	0.453000	0.27007	0.106000	0.19336	4.474000	0.60203	2.281000	0.76405	0.528000	0.53228	AGG		0.463	FAM81A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415876.1	NM_152450		G	59808946	A	G	59808946	3	3	640	1	0	0	0	0	1	0	0	0	5635	63	3	3	915	3	FAM81A	15	59808946	Missense_Mutation	SNP	A	TCGA-KL-8341-01A-11D-2310-10	1804659	59808946	42722446	107	39597										
VPS13C	54832	hgsc.bcm.edu	37	chr15	62261606	62261606	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ctgagtaacattaaatactaGaattgtatcttcttctttct	4	7	4	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr15:62261606G>A	ENST00000261517.5	-	28	2876	c.2803C>T	c.(2803-2805)Cta>Tta	p.L935L	VPS13C_ENST00000395896.4_Silent_p.L935L|VPS13C_ENST00000395898.3_Silent_p.L892L|VPS13C_ENST00000249837.3_Silent_p.L892L	NM_020821.2	NP_065872.1			vacuolar protein sorting 13 homolog C (S. cerevisiae)									p.L935V(1)		NS(3)|breast(4)|endometrium(4)|kidney(9)|large_intestine(26)|lung(46)|ovary(5)|prostate(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	117						TTAAATACTAGAATTGTATCT	0.299																																																1	Substitution - Missense(1)	ovary(1)											63	60	61					15																	62261606		2195	4281	6476	SO:0001819	synonymous_variant	54832			AJ608770	CCDS10180.1, CCDS32257.1, CCDS45272.1, CCDS58367.1	15q21.3	2009-07-09	2006-04-04		ENSG00000129003	ENSG00000129003			23594	protein-coding gene	gene with protein product		608879	"vacuolar protein sorting 13C (yeast)"				Standard	NM_018080		Approved	FLJ20136, FLJ10381, KIAA1421	uc002agz.3	Q709C8	OTTHUMG00000132801	ENST00000261517.5:c.2803C>T	15.37:g.62261606G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000261517.5	37	CCDS32257.1																																																																																				0.299	VPS13C-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000415997.1	NM_017684		A	62261606	G	A	62261606	2	1	640	1	0	0	0	0	0	0	0	1	17203	933	33	2		2	VPS13C	15	62261606	Silent	SNP	G	TCGA-KL-8341-01A-11D-2310-10	2452660	62261606	40269786	108	39598										
HERC1	8925	mdanderson.org	37	chr15	64010819	64010819	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tttgaataagttcaaggttcTtgcaagcaagtaaacgactt	8	6	2	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr15:64010819T>C	ENST00000443617.2	-	21	4019	c.3932A>G	c.(3931-3933)aAg>aGg	p.K1311R		NM_003922.3	NP_003913.3	Q15751	HERC1_HUMAN	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	1311					cerebellar Purkinje cell differentiation (GO:0021702)|negative regulation of autophagy (GO:0010507)|neuromuscular process controlling balance (GO:0050885)|neuron projection development (GO:0031175)|positive regulation of GTPase activity (GO:0043547)|transport (GO:0006810)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			NS(3)|breast(9)|central_nervous_system(4)|endometrium(23)|haematopoietic_and_lymphoid_tissue(1)|kidney(12)|large_intestine(22)|liver(1)|lung(36)|ovary(7)|prostate(4)|skin(3)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	132						TTCAAGGTTCTTGCAAGCAAG	0.358																																																0													86	75	78					15																	64010819		1847	4098	5945	SO:0001583	missense	8925			U50078	CCDS45277.1	15q22	2013-01-10	2012-02-23			ENSG00000103657		"WD repeat domain containing"	4867	protein-coding gene	gene with protein product		605109	"hect (homologous to the E6-AP (UBE3A) carboxyl terminus) domain and RCC1 (CHC1)-like domain (RLD) 1"			8861955, 9233772	Standard	NM_003922		Approved	p532, p619	uc002amp.3	Q15751		ENST00000443617.2:c.3932A>G	15.37:g.64010819T>C	ENSP00000390158:p.Lys1311Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IW65	Missense_Mutation	SNP	ENST00000443617.2	37	CCDS45277.1	.	.	.	.	.	.	.	.	.	.	T	20.6	4.019604	0.75275	.	.	ENSG00000103657	ENST00000443617	T	0.03580	3.88	5.5	4.36	0.52297	.	0.000000	0.85682	D	0.000000	T	0.04815	0.0130	L	0.50333	1.59	0.45452	D	0.998429	B	0.06786	0.001	B	0.04013	0.001	T	0.27331	-1.0077	10	0.59425	D	0.04	.	8.5418	0.33397	0.0:0.069:0.131:0.8	.	1311	Q15751	HERC1_HUMAN	R	1311	ENSP00000390158:K1311R	ENSP00000390158:K1311R	K	-	2	0	HERC1	61797872	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.962000	0.63687	0.899000	0.36444	0.533000	0.62120	AAG		0.358	HERC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418523.1	NM_003922		C	64010819	T	C	64010819	3	2	640	1	0	0	0	0	1	0	0	0	7064	1609	56	3	10885	3	HERC1	15	64010819	Missense_Mutation	SNP	T	TCGA-KL-8341-01A-11D-2310-10	1749213	64010819	38520573	109	39599										
SNX1	6642	broad.mit.edu	37	chr15	64426911	64426912	+	Frame_Shift_Ins	INS	-	-	A													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gcagcgctggcaggatgcccINSaagccacactgcagaagaag							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr15:64426911_64426912insA	ENST00000559844.1	+	12	1284_1285	c.1270_1271insA	c.(1270-1272)caafs	p.Q424fs	SNX1_ENST00000561026.1_Frame_Shift_Ins_p.Q359fs|SNX1_ENST00000560829.1_Frame_Shift_Ins_p.Q206fs|SNX1_ENST00000261889.5_Frame_Shift_Ins_p.Q424fs|SNX1_ENST00000353874.4_Intron			Q13596	SNX1_HUMAN	sorting nexin 1	424	BAR.				early endosome to Golgi transport (GO:0034498)|intracellular protein transport (GO:0006886)|positive regulation of protein catabolic process (GO:0045732)	cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|early endosome membrane (GO:0031901)|endosome membrane (GO:0010008)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|protein complex (GO:0043234)|retromer complex (GO:0030904)	epidermal growth factor receptor binding (GO:0005154)|insulin receptor binding (GO:0005158)|leptin receptor binding (GO:1990460)|phosphatidylinositol binding (GO:0035091)|transferrin receptor binding (GO:1990459)			breast(1)|endometrium(1)|large_intestine(5)|lung(4)|skin(1)|upper_aerodigestive_tract(1)	13						GCAGGATGCCCAAGCCACACTG	0.619																																																0																																										SO:0001589	frameshift_variant	6642			BC000357	CCDS32266.1, CCDS32268.1, CCDS58371.1	15q22.31	2011-05-03			ENSG00000028528	ENSG00000028528		"Sorting nexins"	11172	protein-coding gene	gene with protein product		601272				8638121	Standard	NM_003099		Approved	SNX1A, MGC8664, HsT17379, Vps5	uc010uio.2	Q13596		ENST00000559844.1:c.1272dupA	15.37:g.64426913_64426913dupA	ENSP00000453785:p.Gln424fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NM19|A8K6T7|H0Y2M5|O60750|O60751|Q6ZRJ8	Frame_Shift_Ins	INS	ENST00000559844.1	37	CCDS32266.1																																																																																				0.619	SNX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418559.1	NM_003099		A	64426912	-	A	64426911	7	5	640	1	0	1	1	0	0	0	0	0	14893	595	21	0	1316	0	SNX1	15	64426911	Frame_Shift_Ins	INS	-	TCGA-KL-8341-01A-11D-2310-10	416092	64426911	38104481	110	39600										
C15orf58	390637	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	90784689	90784689	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ctcccccagcgcctgctgccGggtgcactgagggcagggat	15	15	0	1	rs373465372		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr15:90784689G>A	ENST00000558017.1	+	4	969	c.549G>A	c.(547-549)ccG>ccA	p.P183P	GDPGP1_ENST00000329600.6_Silent_p.P183P	NM_001013657.2	NP_001013679.2	Q6ZNW5	GDPP1_HUMAN	GDP-D-glucose phosphorylase 1	183					glucose metabolic process (GO:0006006)	cytoplasm (GO:0005737)	GDP-D-glucose phosphorylase activity (GO:0080048)|guanyl-nucleotide exchange factor activity (GO:0005085)|hydrolase activity (GO:0016787)|nucleotide binding (GO:0000166)|nucleotidyltransferase activity (GO:0016779)										GCCTGCTGCCGGGTGCACTGA	0.662																																																0													39	43	42					15																	90784689		2199	4298	6497	SO:0001819	synonymous_variant	390637				CCDS32327.1	15q26.1	2012-05-04	2012-05-04	2012-05-04	ENSG00000183208	ENSG00000183208	2.7.7.78		34360	protein-coding gene	gene with protein product			"chromosome 15 open reading frame 58"	C15orf58		21507950	Standard	NM_001013657		Approved		uc002bpc.3	Q6ZNW5		ENST00000558017.1:c.549G>A	15.37:g.90784689G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000558017.1	37	CCDS32327.1																																																																																				0.662	GDPGP1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416973.1	NM_001013657		A	90784689	G	A	90784689	2	1	640	1	0	0	0	0	0	0	0	1	1808	1103	39	1		1	C15orf58	15	90784689	Silent	SNP	G	TCGA-KL-8341-01A-11D-2310-10	26357778	90784689	11746703	111	39601										
FAM174B	400451	broad.mit.edu	37	chr15	93173567	93173567	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tgcgtgtcttctttaacctcTttcccgacctgcaggagaag	9	12	3	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr15:93173567T>C	ENST00000327355.5	-	2	651	c.353A>G	c.(352-354)aAg>aGg	p.K118R	FAM174B_ENST00000555696.1_5'UTR|FAM174B_ENST00000555064.1_5'UTR|FAM174B_ENST00000555748.1_5'UTR|FAM174B_ENST00000553393.1_5'UTR	NM_207446.2	NP_997329.2	Q3ZCQ3	F174B_HUMAN	family with sequence similarity 174, member B	118						integral component of membrane (GO:0016021)				endometrium(2)|lung(1)	3						CTTTAACCTCTTTCCCGACCT	0.512																																																0													96	87	90					15																	93173567		2023	4188	6211	SO:0001583	missense	400451				CCDS45355.1	15q26.1	2012-10-03			ENSG00000185442	ENSG00000185442			34339	protein-coding gene	gene with protein product							Standard	NM_207446		Approved	LOC400451, MGC102891	uc010boe.3	Q3ZCQ3	OTTHUMG00000171744	ENST00000327355.5:c.353A>G	15.37:g.93173567T>C	ENSP00000329040:p.Lys118Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q3ZCR9|Q8NBH7	Missense_Mutation	SNP	ENST00000327355.5	37	CCDS45355.1	.	.	.	.	.	.	.	.	.	.	T	7.910	0.736234	0.15574	.	.	ENSG00000185442	ENST00000327355	T	0.38887	1.11	5.38	1.87	0.25490	.	0.063055	0.64402	D	0.000009	T	0.29588	0.0738	L	0.37630	1.12	0.80722	D	1	B	0.24426	0.103	B	0.23574	0.047	T	0.05007	-1.0912	10	0.36615	T	0.2	-15.2595	8.1803	0.31307	0.0:0.327:0.0:0.673	.	118	Q3ZCQ3	F174B_HUMAN	R	118	ENSP00000329040:K118R	ENSP00000329040:K118R	K	-	2	0	FAM174B	90974571	1.000000	0.71417	0.104000	0.21259	0.211000	0.24417	1.253000	0.32886	0.075000	0.16796	0.482000	0.46254	AAG		0.512	FAM174B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000414931.1	NM_207446		C	93173567	T	C	93173567	3	2	640	1	0	0	0	0	1	0	0	0	5500	1609	56	3	134	3	FAM174B	15	93173567	Missense_Mutation	SNP	T	TCGA-KL-8341-01A-11D-2310-10	2388878	93173567	9357825	112	39602										
PDIA2	64714	mdanderson.org	37	chr16	334732	334732	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	agtgccatgcggctggaggaCgaggcggccgcccaggcgct	18	13	0	0	rs45593734	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr16:334732C>T	ENST00000219406.6	+	3	498	c.480C>T	c.(478-480)gaC>gaT	p.D160D	PDIA2_ENST00000404312.1_Silent_p.D160D	NM_006849.2	NP_006840.2	Q13087	PDIA2_HUMAN	protein disulfide isomerase family A, member 2	160					cell redox homeostasis (GO:0045454)|peptidyl-proline hydroxylation (GO:0019511)|protein folding (GO:0006457)|protein retention in ER lumen (GO:0006621)|regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902175)|response to endoplasmic reticulum stress (GO:0034976)	endoplasmic reticulum (GO:0005783)	protein disulfide isomerase activity (GO:0003756)|steroid binding (GO:0005496)			breast(1)|central_nervous_system(4)|kidney(3)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	17		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				GGCTGGAGGACGAGGCGGCCG	0.716													c|||	640	0.127796	0.0862	0.0994	5008	,	,		12306	0.0962		0.16	False		,,,				2504	0.2035															0								C		328,3770		14,300,1735	8	14	12		480	-3.5	0.3	16	dbSNP_127	12	1280,6964		99,1082,2941	no	coding-synonymous	PDIA2	NM_006849.2		113,1382,4676	TT,TC,CC		15.5264,8.0039,13.0287		160/526	334732	1608,10734	2049	4122	6171	SO:0001819	synonymous_variant	64714			U19948	CCDS42089.1	16p13.3	2009-11-20	2005-06-29	2005-03-03	ENSG00000185615	ENSG00000185615	5.3.4.1	"Protein disulfide isomerases"	14180	protein-coding gene	gene with protein product		608012	"protein disulfide isomerase, pancreatic", "protein disulfide isomerase-associated 2"	PDIP		8561901	Standard	NM_006849		Approved	PDA2, PDI, PDIR	uc002cgo.1	Q13087	OTTHUMG00000064891	ENST00000219406.6:c.480C>T	16.37:g.334732C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6ZJ64|B4DI27|Q2WGM4|Q4TT67|Q6B010|Q96KJ6|Q9BW95	Silent	SNP	ENST00000219406.6	37	CCDS42089.1	245	0.11217948717948718	33	0.06707317073170732	40	0.11049723756906077	54	0.0944055944055944	118	0.15567282321899736	c	0.097	-1.157292	0.01686	0.080039	0.155264	ENSG00000185615	ENST00000456379	.	.	.	3.75	-3.55	0.04639	.	.	.	.	.	T	0.00109	0.0003	.	.	.	0.44485	P	0.00257099999999999	.	.	.	.	.	.	T	0.21008	-1.0258	3	.	.	.	.	3.4234	0.07401	0.1195:0.1343:0.119:0.6272	rs45593734;rs62032217	.	.	.	M	157	.	.	T	+	2	0	PDIA2	274733	0.000000	0.05858	0.349000	0.25694	0.141000	0.21300	-2.516000	0.00954	-0.782000	0.04541	0.457000	0.33378	ACG		0.716	PDIA2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000139315.3	NM_006849		T	334732	C	T	334732	2	4	640	1	0	0	0	0	0	0	0	1	11675	535	19	1		1	PDIA2	16	334732	Silent	SNP	C	TCGA-KL-8341-01A-11D-2310-10		334732	90020021	113	39603										
C16orf11	146325	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr16	613379	613379	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	agaagccacactacatcccgCggccctggggcaaaccctac	9	17	0	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr16:613379C>T	ENST00000409413.3	+	2	364	c.85C>T	c.(85-87)Cgg>Tgg	p.R29W		NM_145270.2	NP_660313.1	P0CG20	PRR35_HUMAN		29										central_nervous_system(1)|endometrium(1)|lung(5)|ovary(1)|skin(1)|urinary_tract(1)	10						CTACATCCCGCGGCCCTGGGG	0.617																																																0													80	90	87					16																	613379		2043	4173	6216	SO:0001583	missense	146325																														ENST00000409413.3:c.85C>T	16.37:g.613379C>T	ENSP00000386499:p.Arg29Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B8ZZ27|Q8N233|Q96AX3|Q96S23	Missense_Mutation	SNP	ENST00000409413.3	37	CCDS45365.1	.	.	.	.	.	.	.	.	.	.	C	20.4	3.988919	0.74589	.	.	ENSG00000161992	ENST00000409413	.	.	.	4.97	2.74	0.32292	.	0.000000	0.45361	D	0.000380	T	0.69584	0.3127	M	0.71581	2.175	0.31577	N	0.655637	D	0.89917	1.0	D	0.97110	1.0	T	0.75758	-0.3205	9	0.87932	D	0	.	13.8683	0.63603	0.3286:0.6714:0.0:0.0	.	29	P0CG20	CP011_HUMAN	W	29	.	ENSP00000386499:R29W	R	+	1	2	C16orf11	553380	0.016000	0.18221	0.926000	0.36857	0.996000	0.88848	0.287000	0.18920	1.064000	0.40671	0.563000	0.77884	CGG		0.617	C16orf11-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000333913.1			T	613379	C	T	613379	3	4	640	1	0	0	0	0	1	0	0	0	1812	759	27	1	87	1	C16orf11	16	613379	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	278647	613379	89741374	114	39604										
TSC2	7249	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr16	2113034	2113034	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tgctgtcctttgtgctgctcAtcaacaggcagttctatgag	10	10	3	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr16:2113034A>T	ENST00000219476.3	+	14	2053	c.1423A>T	c.(1423-1425)Atc>Ttc	p.I475F	TSC2_ENST00000350773.4_Missense_Mutation_p.I475F|TSC2_ENST00000568454.1_Missense_Mutation_p.I486F|TSC2_ENST00000382538.6_Missense_Mutation_p.I426F|TSC2_ENST00000353929.4_Missense_Mutation_p.I475F|TSC2_ENST00000439673.2_Missense_Mutation_p.I438F|TSC2_ENST00000401874.2_Missense_Mutation_p.I475F	NM_000548.3	NP_000539.2	P49815	TSC2_HUMAN	tuberous sclerosis 2	475					acute-phase response (GO:0006953)|cell cycle arrest (GO:0007050)|cell projection organization (GO:0030030)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|insulin-like growth factor receptor signaling pathway (GO:0048009)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of TOR signaling (GO:0032007)|negative regulation of Wnt signaling pathway (GO:0030178)|neural tube closure (GO:0001843)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol-mediated signaling (GO:0048015)|positive chemotaxis (GO:0050918)|positive regulation of Ras GTPase activity (GO:0032320)|protein heterooligomerization (GO:0051291)|protein homooligomerization (GO:0051260)|protein import into nucleus (GO:0006606)|protein kinase B signaling (GO:0043491)|protein localization (GO:0008104)|regulation of cell cycle (GO:0051726)|regulation of endocytosis (GO:0030100)|regulation of insulin receptor signaling pathway (GO:0046626)|response to hypoxia (GO:0001666)|vesicle-mediated transport (GO:0016192)	caveola (GO:0005901)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|Golgi apparatus (GO:0005794)|growth cone (GO:0030426)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|TSC1-TSC2 complex (GO:0033596)	GTPase activator activity (GO:0005096)|phosphatase binding (GO:0019902)|protein homodimerization activity (GO:0042803)			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(4)|cervix(2)|endometrium(8)|kidney(2)|large_intestine(3)|lung(19)|ovary(2)|pancreas(1)|prostate(2)|skin(7)|soft_tissue(1)	56		Hepatocellular(780;0.0202)				TGTGCTGCTCATCAACAGGCA	0.672			"D, Mis, N, F, S"			"hamartoma, renal cell"			Tuberous Sclerosis																													yes	Rec		Tuberous sclerosis 2	16	16p13.3	7249	tuberous sclerosis 2 gene		"E, O"	0													78	60	66					16																	2113034		1992	3831	5823	SO:0001583	missense	7249	Familial Cancer Database	TS, Tuberous Sclerosis Complex, TSC, Bourneville-Pringle disease	AB014460	CCDS10458.1, CCDS45384.1, CCDS58408.1	16p13.3	2014-09-17			ENSG00000103197	ENSG00000103197			12363	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 160"	191092		TSC4		1303246, 7558029	Standard	NM_001077183		Approved	tuberin, LAM, PPP1R160	uc002con.3	P49815	OTTHUMG00000128745	ENST00000219476.3:c.1423A>T	16.37:g.2113034A>T	ENSP00000219476:p.Ile475Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2E2|B4DIL8|B4DIQ7|B4DRN2|B7Z2B8|C9J378|O75275|Q4LE71|Q8TAZ1	Missense_Mutation	SNP	ENST00000219476.3	37	CCDS10458.1	.	.	.	.	.	.	.	.	.	.	.	27.0	4.794086	0.90453	.	.	ENSG00000103197	ENST00000219476;ENST00000401874;ENST00000353929;ENST00000439673;ENST00000382538;ENST00000350773	T;T;T;T;T;T	0.67865	-0.29;-0.29;-0.29;-0.29;-0.29;-0.29	5.24	5.24	0.73138	Armadillo-type fold (1);	0.108239	0.64402	D	0.000007	T	0.73869	0.3642	L	0.47716	1.5	0.51482	D	0.999929	D;D;D;D;D;D	0.69078	0.962;0.994;0.98;0.997;0.997;0.978	P;D;P;D;D;D	0.70227	0.756;0.947;0.759;0.947;0.968;0.942	T	0.74711	-0.3573	10	0.51188	T	0.08	-28.4526	10.37	0.44049	0.923:0.0:0.077:0.0	.	426;438;475;475;475;475	B4DIL8;P49815-6;P49815-4;P49815-3;P49815-5;P49815	.;.;.;.;.;TSC2_HUMAN	F	475;475;475;438;426;475	ENSP00000219476:I475F;ENSP00000384468:I475F;ENSP00000248099:I475F;ENSP00000399232:I438F;ENSP00000371978:I426F;ENSP00000344383:I475F	ENSP00000219476:I475F	I	+	1	0	TSC2	2053035	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	6.752000	0.74898	1.973000	0.57446	0.533000	0.62120	ATC		0.672	TSC2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000250657.2	NM_000548		T	2113034	A	T	2113034	3	4	640	1	0	0	0	0	1	0	0	0	16618	217	8	5	1473	5	TSC2	16	2113034	Missense_Mutation	SNP	A	TCGA-KL-8341-01A-11D-2310-10	1499655	2113034	88241719	115	39605										
ABCC6	368	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	16251599	16251599	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ggtatcttagcccaaagtccCggaactcgatctgcccgccc	9	16	2	0	rs2238472	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr16:16251599C>T	ENST00000205557.7	-	27	3832	c.3803G>A	c.(3802-3804)cGg>cAg	p.R1268Q		NM_001171.5	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 6	1268	ABC transporter 2. {ECO:0000255|PROSITE- ProRule:PRU00434}.		R -> Q (associated with lower plasma triglycerides and higher plasma HDL cholesterol; dbSNP:rs2238472). {ECO:0000269|PubMed:10811882, ECO:0000269|PubMed:10913334, ECO:0000269|PubMed:11536079, ECO:0000269|PubMed:11776382, ECO:0000269|PubMed:16086317, ECO:0000269|PubMed:18987736}.		response to drug (GO:0042493)|transmembrane transport (GO:0055085)|transport (GO:0006810)|visual perception (GO:0007601)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|transporter activity (GO:0005215)			NS(1)|breast(1)|central_nervous_system(2)|cervix(2)|endometrium(6)|kidney(3)|large_intestine(10)|lung(10)|ovary(1)|skin(6)|urinary_tract(1)	43				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)	Cisplatin(DB00515)|Dactinomycin(DB00970)|Daunorubicin(DB00694)|Doxorubicin(DB00997)|Etoposide(DB00773)|Indomethacin(DB00328)|Probenecid(DB01032)|Sulfinpyrazone(DB01138)|Teniposide(DB00444)|Vinblastine(DB00570)	CCCAAAGTCCCGGAACTCGAT	0.622													C|||	908	0.18131	0.0673	0.2983	5008	,	,		18599	0.125		0.3012	False		,,,				2504	0.1871															0			GRCh37	CM001044	ABCC6	M	rs2238472	C	GLN/ARG	473,3921	222.6+/-239.4	29,415,1753	52	45	48	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	3803	2	0.6	16	dbSNP_98	48	2437,6163	401.1+/-347.0	345,1747,2208	yes	missense	ABCC6	NM_001171.5	43	374,2162,3961	TT,TC,CC		28.3372,10.7647,22.395	benign	1268/1504	16251599	2910,10084	2197	4300	6497	SO:0001583	missense	368			AF076622	CCDS10568.1, CCDS58430.1	16p13.11	2013-01-08			ENSG00000091262	ENSG00000091262		"ATP binding cassette transporters / subfamily C"	57	protein-coding gene	gene with protein product		603234	"pseudoxanthoma elasticum"	ARA, PXE		9721217, 11439001	Standard	NM_001079528		Approved	MRP6, EST349056, MLP1, URG7	uc002den.4	O95255	OTTHUMG00000129967	ENST00000205557.7:c.3803G>A	16.37:g.16251599C>T	ENSP00000205557:p.Arg1268Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRN8|A8KIG6|A8Y988|E7ESW8|P78420|Q8TCY8|Q9UMZ7	Missense_Mutation	SNP	ENST00000205557.7	37	CCDS10568.1	423	0.1936813186813187	41	0.08333333333333333	90	0.24861878453038674	68	0.11888111888111888	224	0.2955145118733509	c	11.76	1.734060	0.30684	0.107647	0.283372	ENSG00000091262	ENST00000205557;ENST00000205558	D	0.90563	-2.69	5.09	2.01	0.26516	ABC transporter-like (1);	0.165125	0.27654	N	0.018411	T	0.00012	0.0000	N	0.17901	0.54	0.09310	P	0.9999999999913843	B	0.24576	0.106	B	0.12156	0.007	T	0.02639	-1.1130	9	0.25106	T	0.35	.	10.2379	0.43294	0.0:0.7787:0.0:0.2213	rs2238472;rs17289934;rs52824827;rs60072648;rs2238472	1268	O95255	MRP6_HUMAN	Q	1268;206	ENSP00000205557:R1268Q	ENSP00000205557:R1268Q	R	-	2	0	ABCC6	16159100	0.000000	0.05858	0.612000	0.29024	0.951000	0.60555	-0.326000	0.07965	0.191000	0.20236	0.530000	0.56133	CGG		0.622	ABCC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252232.2			T	16251599	C	T	16251599	3	4	640	1	0	0	0	0	1	0	0	0	57	652	23	1	728	1	ABCC6	16	16251599	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	14138565	16251599	74103154	116	39606										
ARHGAP17	55114	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	24950855	24950855	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ggctggaaagcgggggatatGtgctttctatttagagtgcc	15	6	1	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr16:24950855G>T	ENST00000289968.6	-	17	1623	c.1554C>A	c.(1552-1554)caC>caA	p.H518Q	ARHGAP17_ENST00000303665.5_Intron|ARHGAP17_ENST00000441763.2_3'UTR	NM_001006634.1	NP_001006635.1	Q68EM7	RHG17_HUMAN	Rho GTPase activating protein 17	518					regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	GTPase activator activity (GO:0005096)			breast(2)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(3)|lung(13)|ovary(1)|urinary_tract(2)	30				GBM - Glioblastoma multiforme(48;0.0407)		CGGGGGATATGTGCTTTCTAT	0.592																																																0													26	27	27					16																	24950855		2195	4298	6493	SO:0001583	missense	55114			AJ306731	CCDS32408.1, CCDS32409.1	16p12.2-p12.1	2011-06-29				ENSG00000140750		"Rho GTPase activating proteins"	18239	protein-coding gene	gene with protein product		608293				10967100, 11431473	Standard	XM_005255413		Approved	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15	uc002dnb.3	Q68EM7		ENST00000289968.6:c.1554C>A	16.37:g.24950855G>T	ENSP00000289968:p.His518Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6M6|Q6ZUS4|Q7Z2F2|Q8NDG2|Q96KS2|Q96KS3|Q96SS8|Q9BVF6|Q9H8U5|Q9NW54	Missense_Mutation	SNP	ENST00000289968.6	37	CCDS32409.1	.	.	.	.	.	.	.	.	.	.	G	11.48	1.652483	0.29336	.	.	ENSG00000140750	ENST00000289968;ENST00000455311	T	0.20463	2.07	5.0	2.99	0.34606	.	0.000000	0.46758	D	0.000262	T	0.35480	0.0933	M	0.63428	1.95	0.80722	D	1	B;D	0.89917	0.296;1.0	B;D	0.87578	0.046;0.998	T	0.11867	-1.0570	10	0.21014	T	0.42	.	7.2856	0.26337	0.2681:0.0:0.7319:0.0	.	518;51	Q68EM7;Q68EM7-7	RHG17_HUMAN;.	Q	518	ENSP00000289968:H518Q	ENSP00000289968:H518Q	H	-	3	2	ARHGAP17	24858356	1.000000	0.71417	0.991000	0.47740	0.975000	0.68041	4.165000	0.58196	1.334000	0.45468	-0.150000	0.13652	CAC		0.592	ARHGAP17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000436548.3	NM_018054		T	24950855	G	T	24950855	3	4	640	1	0	0	0	0	1	0	0	0	867	1368	48	4	1107	4	ARHGAP17	16	24950855	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	8699256	24950855	65403898	117	39607										
SLC7A6	9057	broad.mit.edu;mdanderson.org	37	chr16	68325151	68325151	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gggatttctatgccaattgtGacgctcatctacatcctgac	8	11	3	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr16:68325151G>A	ENST00000566454.1	+	7	1103	c.834G>A	c.(832-834)gtG>gtA	p.V278V	SLC7A6_ENST00000219343.6_Silent_p.V278V	NM_001076785.2	NP_001070253.1			solute carrier family 7 (amino acid transporter light chain, y+L system), member 6											breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(4)|prostate(1)|skin(1)	16		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.0948)		TGCCAATTGTGACGCTCATCT	0.458																																																0													279	232	248					16																	68325151		2198	4300	6498	SO:0001819	synonymous_variant	9057			D87432	CCDS32470.1	16q22.1	2013-07-15	2011-07-12		ENSG00000103064	ENSG00000103064		"Solute carriers"	11064	protein-coding gene	gene with protein product		605641				9878049	Standard	NM_001076785		Approved	y+LAT-2, KIAA0245, LAT3, LAT-2	uc002evu.2	Q92536	OTTHUMG00000176544	ENST00000566454.1:c.834G>A	16.37:g.68325151G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000566454.1	37	CCDS32470.1																																																																																				0.458	SLC7A6-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000432466.1	NM_003983		A	68325151	G	A	68325151	2	1	640	1	0	0	0	0	0	0	0	1	14714	1277	45	2		2	SLC7A6	16	68325151	Silent	SNP	G	TCGA-KL-8341-01A-11D-2310-10	43374296	68325151	22029602	118	39608										
CLEC18C	283971	mdanderson.org	37	chr16	70211266	70211266	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ggctggaacatgcagctgctGcccgcgggcttggcgtcctt	15	13	0	0			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr16:70211266G>A	ENST00000569347.2	+	3	593	c.339G>A	c.(337-339)ctG>ctA	p.L113L	CLEC18C_ENST00000561612.1_Intron|CLEC18C_ENST00000314151.8_Silent_p.L113L|CLEC18C_ENST00000541793.2_Silent_p.L113L|CLEC18C_ENST00000536907.2_Silent_p.L113L	NM_173619.2	NP_775890.2	Q8NCF0	CL18C_HUMAN	C-type lectin domain family 18, member C	113	SCP.					extracellular region (GO:0005576)	carbohydrate binding (GO:0030246)			endometrium(3)|large_intestine(6)|lung(1)	10						TGCAGCTGCTGCCCGCGGGCT	0.652																																																0													43	51	49					16																	70211266		2196	4298	6494	SO:0001819	synonymous_variant	283971			AL833339	CCDS32473.1	16q22.1	2010-04-27	2009-03-10	2009-03-10		ENSG00000157335		"C-type lectin domain containing"	28538	protein-coding gene	gene with protein product						12477932	Standard	XM_005255906		Approved	MGC34761		Q8NCF0		ENST00000569347.2:c.339G>A	16.37:g.70211266G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUW8	Silent	SNP	ENST00000569347.2	37	CCDS32473.1	.	.	.	.	.	.	.	.	.	.	g	1.109	-0.658906	0.03454	.	.	ENSG00000157335	ENST00000539438	.	.	.	4.32	4.32	0.51571	.	.	.	.	.	T	0.33876	0.0878	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.15235	-1.0444	5	0.02654	T	1	.	12.6961	0.57005	0.0:0.0:1.0:0.0	.	.	.	.	Y	110	.	ENSP00000445424:C110Y	C	+	2	0	CLEC18C	68768767	1.000000	0.71417	0.999000	0.59377	0.042000	0.13812	0.640000	0.24705	2.125000	0.65367	0.298000	0.19748	TGC		0.652	CLEC18C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000434588.2	NM_173619		A	70211266	G	A	70211266	2	1	640	1	0	0	0	0	0	0	0	1	3506	1306	46	2		2	CLEC18C	16	70211266	Silent	SNP	G	TCGA-KL-8341-01A-11D-2310-10	1886115	70211266	20143487	119	39609										
PKD1L2	114780	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr16	81242140	81242140	+	RNA	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	acaggtaactgccctgagtcGgacacaggtttccaaagtag	11	10	0	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr16:81242140G>A	ENST00000525539.1	-	0	715				PKD1L2_ENST00000337114.4_RNA	NM_052892.3	NP_443124.3	Q7Z442	PK1L2_HUMAN	polycystic kidney disease 1-like 2						ion transport (GO:0006811)|neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)|carbohydrate binding (GO:0030246)			breast(2)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(9)|lung(20)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	44						GCCCTGAGTCGGACACAGGTT	0.562																																																0													87	85	85					16																	81242140		2126	4222	6348			114780			AY164483	CCDS61998.1, CCDS61999.1	16q23.2	2014-09-11			ENSG00000166473	ENSG00000166473			21715	protein-coding gene	gene with protein product		607894				12782129	Standard	NM_052892		Approved	KIAA1879	uc002fgf.1	Q7Z442	OTTHUMG00000166126		16.37:g.81242140G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UEE1|Q6ZN46|Q6ZSP2|Q8N1H9|Q96CL2|Q96Q08	Missense_Mutation	SNP	ENST00000525539.1	37		.	.	.	.	.	.	.	.	.	.	G	22.2	4.257915	0.80246	.	.	ENSG00000166473	ENST00000337114	T	0.18810	2.19	4.29	4.29	0.51040	D-galactoside/L-rhamnose binding SUEL lectin domain (2);	0.071096	0.56097	D	0.000024	T	0.48295	0.1492	.	.	.	0.43857	D	0.996451	D;D	0.89917	1.0;1.0	D;D	0.80764	0.99;0.994	T	0.56655	-0.7943	9	0.87932	D	0	-19.3424	16.3594	0.83251	0.0:0.0:1.0:0.0	.	239;239	Q7Z442-3;Q7Z442	.;PK1L2_HUMAN	L	239	ENSP00000337397:P239L	ENSP00000337397:P239L	P	-	2	0	PKD1L2	79799641	1.000000	0.71417	0.880000	0.34516	0.915000	0.54546	7.373000	0.79623	1.940000	0.56252	0.462000	0.41574	CCG		0.562	PKD1L2-001	KNOWN	non_canonical_polymorphism|basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000387972.2			A	81242140	G	A	81242140	1	1	640	0	1	0	0	0	0	0	0	0	11972	1116	39	1		1	PKD1L2	16	81242140	RNA	SNP	G	TCGA-KL-8341-01A-11D-2310-10	11030874	81242140	9112613	120	39610										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	7577064	7577064	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ctcgtggtgaggctccccttTcttgcggagattctcttcct	10	13	2	2			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr17:7577064T>A	ENST00000269305.4	-	8	1063	c.874A>T	c.(874-876)Aaa>Taa	p.K292*	TP53_ENST00000359597.4_Nonsense_Mutation_p.K292*|TP53_ENST00000420246.2_Nonsense_Mutation_p.K292*|TP53_ENST00000413465.2_Intron|TP53_ENST00000445888.2_Nonsense_Mutation_p.K292*|TP53_ENST00000455263.2_Nonsense_Mutation_p.K292*|TP53_ENST00000574684.1_5'Flank	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	292	Interaction with AXIN1. {ECO:0000250}.|Interaction with E4F1.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with ZNF385A.		K -> E (in sporadic cancers; somatic mutation).|K -> G (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|K -> I (in LFS; germline mutation and in a sporadic cancer; somatic mutation). {ECO:0000269|PubMed:10484981}.|K -> N (in sporadic cancers; somatic mutation).|K -> Q (in a sporadic cancer; somatic mutation).|K -> R (in sporadic cancers; somatic mutation).|K -> T (in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.K291fs*48(8)|p.0?(8)|p.?(2)|p.E294fs*51(2)|p.K292E(2)|p.K292*(2)|p.K292fs*13(1)|p.T284_G293del10(1)|p.L265_K305del41(1)|p.R290fs*12(1)|p.R290fs*50(1)|p.K291fs*12(1)|p.R290_P295>X(1)|p.E285fs*13(1)|p.V272_K292del21(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	GGCTCCCCTTTCTTGCGGAGA	0.577		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	33	Deletion - Frameshift(15)|Whole gene deletion(8)|Deletion - In frame(3)|Substitution - Nonsense(2)|Unknown(2)|Substitution - Missense(2)|Complex - deletion inframe(1)	upper_aerodigestive_tract(12)|urinary_tract(4)|bone(4)|haematopoietic_and_lymphoid_tissue(3)|stomach(2)|central_nervous_system(2)|breast(2)|salivary_gland(1)|large_intestine(1)|endometrium(1)|oesophagus(1)											104	89	94					17																	7577064		2203	4300	6503	SO:0001587	stop_gained	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.874A>T	17.37:g.7577064T>A	ENSP00000269305:p.Lys292*	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Nonsense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	T	24.3	4.521424	0.85600	.	.	ENSG00000141510	ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000509690	.	.	.	5.12	4.03	0.46877	.	0.183996	0.46145	D	0.000309	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-23.716	5.2408	0.15471	0.0:0.0898:0.182:0.7282	.	.	.	.	X	292;292;292;292;292;281;160	.	ENSP00000269305:K292X	K	-	1	0	TP53	7517789	0.998000	0.40836	0.909000	0.35828	0.257000	0.26127	1.203000	0.32284	0.944000	0.37579	0.459000	0.35465	AAA		0.577	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		A	7577064	T	A	7577064	4	1	640	1	0	0	0	0	0	1	0	0	16393	1792	62	5	412	5	TP53	17	7577064	Nonsense_Mutation	SNP	T	TCGA-KL-8341-01A-11D-2310-10		7577064	73618146	121	39611										
CCDC144B	284047	broad.mit.edu	37	chr17	18498496	18498497	+	RNA	INS	-	-	A													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gctgttttatctgcaggcctINSgaaaaaaaaaaacaattcct					rs397961350|rs59933375	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr17:18498496_18498497insA	ENST00000442583.1	-	0	749							Q3MJ40	C144B_HUMAN	coiled-coil domain containing 144B (pseudogene)											NS(3)|breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|lung(6)|ovary(1)|prostate(2)|skin(2)|urinary_tract(2)	36						TCTGCAGGCCTGAAAAAAAAAA	0.243																																																0																																												284047			AK093811		17p11.2	2012-11-19	2011-09-02		ENSG00000154874	ENSG00000154874			26704	pseudogene	pseudogene			"coiled-coil domain containing 144B"			11997339	Standard	NR_036647		Approved	FLJ36492	uc002guc.2	Q3MJ40	OTTHUMG00000059531		17.37:g.18498496_18498497insA		Somatic		WXS	Illumina HiSeq	Phase_I	Q6P5Q3|Q8N200	RNA	INS	ENST00000442583.1	37																																																																																					0.243	CCDC144B-006	KNOWN	basic	processed_transcript	pseudogene	OTTHUMT00000132102.1	NM_182568		A	18498497	-	A	18498496	6	5	640	0	1	1	1	0	0	0	0	0	2780	1594	55	0		0	CCDC144B	17	18498496	RNA	INS	-	TCGA-KL-8341-01A-11D-2310-10	10921432	18498496	62696714	122	39612										
KCNH4	23415	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	40321548	40321548	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	cgtggtctggaagtattcgaGcatgcgctgcttgagcggcc	15	10	1	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr17:40321548G>A	ENST00000264661.3	-	9	1869	c.1537C>T	c.(1537-1539)Ctc>Ttc	p.L513F	KCNH4_ENST00000607371.1_Missense_Mutation_p.L513F	NM_012285.2	NP_036417.1	Q9UQ05	KCNH4_HUMAN	potassium voltage-gated channel, subfamily H (eag-related), member 4	513					potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|regulation of membrane potential (GO:0042391)|synaptic transmission (GO:0007268)	plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	phosphorelay sensor kinase activity (GO:0000155)|voltage-gated potassium channel activity (GO:0005249)			autonomic_ganglia(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(6)|lung(15)|skin(2)|urinary_tract(1)	32		all_cancers(22;1.24e-06)|all_epithelial(22;4.33e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		AAGTATTCGAGCATGCGCTGC	0.647																																					NSCLC(117;707 1703 2300 21308 31858)											0													79	72	74					17																	40321548		2203	4300	6503	SO:0001583	missense	23415			AB022698	CCDS11420.1	17q21	2012-07-05				ENSG00000089558		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6253	protein-coding gene	gene with protein product		604528				10455180, 16382104	Standard	NM_012285		Approved	Kv12.3, elk1	uc002hzb.2	Q9UQ05		ENST00000264661.3:c.1537C>T	17.37:g.40321548G>A	ENSP00000264661:p.Leu513Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000264661.3	37	CCDS11420.1	.	.	.	.	.	.	.	.	.	.	G	25.8	4.675197	0.88445	.	.	ENSG00000089558	ENST00000264661	D	0.96967	-4.19	4.18	4.18	0.49190	Cyclic nucleotide-binding-like (1);	0.000000	0.34291	N	0.004085	D	0.97309	0.9120	M	0.71581	2.175	0.80722	D	1	D	0.63880	0.993	P	0.61477	0.889	D	0.96990	0.9721	10	0.39692	T	0.17	.	16.6694	0.85261	0.0:0.0:1.0:0.0	.	513	Q9UQ05	KCNH4_HUMAN	F	513	ENSP00000264661:L513F	ENSP00000264661:L513F	L	-	1	0	KCNH4	37575074	1.000000	0.71417	1.000000	0.80357	0.889000	0.51656	6.426000	0.73374	2.148000	0.66965	0.462000	0.41574	CTC		0.647	KCNH4-001	KNOWN	NMD_exception|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449791.2	NM_012285		A	40321548	G	A	40321548	3	1	640	1	0	0	0	0	1	0	0	0	8041	971	34	2	1548	2	KCNH4	17	40321548	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	21823052	40321548	40873662	123	39613										
PDK2	5164	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	48184157	48184157	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	atcctcccttcctgcctgcaGccctcatctttgatggcagc	7	17	2	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr17:48184157G>C	ENST00000503176.1	+	5	678		c.e5-1		PDK2_ENST00000007708.3_Splice_Site	NM_002611.4	NP_002602.2	Q15119	PDK2_HUMAN	pyruvate dehydrogenase kinase, isozyme 2						cellular metabolic process (GO:0044237)|cellular response to nutrient (GO:0031670)|cellular response to reactive oxygen species (GO:0034614)|glucose homeostasis (GO:0042593)|glucose metabolic process (GO:0006006)|insulin receptor signaling pathway (GO:0008286)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|protein phosphorylation (GO:0006468)|pyruvate metabolic process (GO:0006090)|regulation of acetyl-CoA biosynthetic process from pyruvate (GO:0010510)|regulation of cellular ketone metabolic process (GO:0010565)|regulation of gluconeogenesis (GO:0006111)|regulation of glucose metabolic process (GO:0010906)|regulation of pH (GO:0006885)|small molecule metabolic process (GO:0044281)	mitochondrial matrix (GO:0005759)|mitochondrial pyruvate dehydrogenase complex (GO:0005967)	ATP binding (GO:0005524)|protein homodimerization activity (GO:0042803)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|pyruvate dehydrogenase (acetyl-transferring) kinase activity (GO:0004740)			central_nervous_system(4)|endometrium(2)|kidney(1)|large_intestine(2)|lung(7)|prostate(2)|skin(1)|urinary_tract(1)	20						CCTGCCTGCAGCCCTCATCTT	0.582									Autosomal Dominant Polycystic Kidney Disease																																							0													132	96	108					17																	48184157		2203	4300	6503	SO:0001630	splice_region_variant	5164	Familial Cancer Database	ADPKD	L42451	CCDS11559.1, CCDS56039.1	17q21.33	2012-07-18	2005-11-16		ENSG00000005882	ENSG00000005882			8810	protein-coding gene	gene with protein product		602525	"pyruvate dehydrogenase kinase, isoenzyme 2"			7499431	Standard	NM_001199898		Approved	PDHK2	uc002iqc.3	Q15119	OTTHUMG00000161948	ENST00000503176.1:c.518-1G>C	17.37:g.48184157G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K3A7|B3KNW0|Q6P515|Q9BS05	Splice_Site	SNP	ENST00000503176.1	37	CCDS11559.1	.	.	.	.	.	.	.	.	.	.	G	16.50	3.141080	0.56936	.	.	ENSG00000005882	ENST00000007708;ENST00000508030;ENST00000503176;ENST00000503614;ENST00000505440;ENST00000510219	.	.	.	4.77	4.77	0.60923	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.7108	0.85385	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	PDK2	45539156	1.000000	0.71417	1.000000	0.80357	0.613000	0.37349	9.601000	0.98297	2.475000	0.83589	0.455000	0.32223	.		0.582	PDK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366492.2	NM_002611	Intron	C	48184157	G	C	48184157	5	2	640	1	0	0	0	0	0	0	1	0	11683	985	34	4	535	4	PDK2	17	48184157	Splice_Site	SNP	G	TCGA-KL-8341-01A-11D-2310-10	7862609	48184157	33011053	124	39614										
MYO5B	4645	mdanderson.org	37	chr18	47364066	47364067	+	Missense_Mutation	DNP	GC	GC	AT													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tggcggatgatagcttccagGcagtatgagttatccccatc							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr18:47364066_47364067GC>AT	ENST00000285039.7	-	37	5257_5258	c.4958_4959GC>AT	c.(4957-4959)tGC>tAT	p.C1653Y	MYO5B_ENST00000592688.1_Missense_Mutation_p.C223Y|MYO5B_ENST00000324581.6_Missense_Mutation_p.C768Y|RP11-886H22.1_ENST00000590532.2_5'Flank|SCARNA17_ENST00000589499.1_RNA	NM_001080467.2	NP_001073936.1	Q9ULV0	MYO5B_HUMAN	myosin VB	1653	Dilute. {ECO:0000255|PROSITE- ProRule:PRU00503}.				endosome localization (GO:0032439)|metabolic process (GO:0008152)|protein transport (GO:0015031)|transmembrane transport (GO:0055085)|vesicle-mediated transport (GO:0016192)|water transport (GO:0006833)	apical cortex (GO:0045179)|cytoplasmic vesicle membrane (GO:0030659)|extracellular vesicular exosome (GO:0070062)|myosin complex (GO:0016459)|protein complex (GO:0043234)	ATP binding (GO:0005524)|microfilament motor activity (GO:0000146)|Rab GTPase binding (GO:0017137)			NS(1)|breast(6)|central_nervous_system(2)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(6)|lung(29)|ovary(3)|pancreas(1)|prostate(1)|skin(9)|upper_aerodigestive_tract(2)|urinary_tract(4)	87				READ - Rectum adenocarcinoma(32;0.103)		TAGCTTCCAGGCAGTATGAGTT	0.52																																																0																																										SO:0001583	missense	4645			AB032945	CCDS42436.1	18q	2011-09-27			ENSG00000167306	ENSG00000167306		"Myosins / Myosin superfamily : Class V"	7603	protein-coding gene	gene with protein product		606540				8884266, 17462998	Standard	NM_001080467		Approved	KIAA1119	uc002leb.2	Q9ULV0		ENST00000285039.7:c.4958_4959delinsAT	18.37:g.47364066_47364067delinsAT	ENSP00000285039:p.Cys1653Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1R3|Q0P656|Q9H6Y6	Missense_Mutation	DNP	ENST00000285039.7	37	CCDS42436.1																																																																																				0.52	MYO5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000448515.2			AT	47364067	GC	AT	47364066	3	1	640	1	0	0	0	0	1	0	0	0	10086	1195	42	2	603	2	MYO5B	18	47364066	Missense_Mutation	DNP	GC	TCGA-KL-8341-01A-11D-2310-10		47364066	30713182	125	39615										
LDLR	3949	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr19	11210912	11210912	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ctctcagtgggcgacagatgCgaaagaaacgagttccagtg	13	9	1	2	rs2228671	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr19:11210912C>A	ENST00000558518.1	+	2	268	c.81C>A	c.(79-81)tgC>tgA	p.C27*	LDLR_ENST00000535915.1_Nonsense_Mutation_p.C27*|LDLR_ENST00000545707.1_Nonsense_Mutation_p.C27*|LDLR_ENST00000557933.1_Nonsense_Mutation_p.C27*|LDLR_ENST00000558013.1_Nonsense_Mutation_p.C27*|LDLR_ENST00000455727.2_Nonsense_Mutation_p.C27*	NM_000527.4|NM_001195798.1	NP_000518.1|NP_001182727.1	P01130	LDLR_HUMAN	low density lipoprotein receptor	27	LDL-receptor class A 1. {ECO:0000255|PROSITE-ProRule:PRU00124}.		C -> W (in San Francisco).		cholesterol homeostasis (GO:0042632)|cholesterol import (GO:0070508)|cholesterol metabolic process (GO:0008203)|cholesterol transport (GO:0030301)|endocytosis (GO:0006897)|intestinal cholesterol absorption (GO:0030299)|lipid metabolic process (GO:0006629)|lipoprotein catabolic process (GO:0042159)|lipoprotein metabolic process (GO:0042157)|low-density lipoprotein particle clearance (GO:0034383)|phospholipid transport (GO:0015914)|phototransduction, visible light (GO:0007603)|positive regulation of triglyceride biosynthetic process (GO:0010867)|receptor-mediated endocytosis (GO:0006898)|regulation of cholesterol homeostasis (GO:2000188)|regulation of phosphatidylcholine catabolic process (GO:0010899)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)|viral process (GO:0016032)	cell surface (GO:0009986)|clathrin-coated endocytic vesicle membrane (GO:0030669)|coated pit (GO:0005905)|early endosome (GO:0005769)|endosome membrane (GO:0010008)|external side of plasma membrane (GO:0009897)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|low-density lipoprotein particle (GO:0034362)|lysosome (GO:0005764)|membrane (GO:0016020)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)|glycoprotein binding (GO:0001948)|low-density lipoprotein particle binding (GO:0030169)|low-density lipoprotein receptor activity (GO:0005041)|very-low-density lipoprotein particle receptor activity (GO:0030229)	p.?(1)		breast(2)|endometrium(2)|large_intestine(5)|lung(8)|ovary(2)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	26		Lung NSC(9;0.000245)|Renal(1328;0.0007)|Hepatocellular(1079;0.0524)		GBM - Glioblastoma multiforme(1328;1.36e-05)|STAD - Stomach adenocarcinoma(1328;0.000766)|Lung(535;0.197)	Porfimer(DB00707)	GCGACAGATGCGAAAGAAACG	0.522																																					GBM(18;201 575 7820 21545)											1	Unknown(1)	lung(1)	GRCh37	CM045064	LDLR	M	rs2228671						129	111	117					19																	11210912		2203	4300	6503	SO:0001587	stop_gained	3949			AY114155	CCDS12254.1, CCDS56083.1, CCDS56084.1, CCDS56085.1, CCDS58651.1	19p13.2	2014-09-17	2008-08-01		ENSG00000130164	ENSG00000130164		"Low density lipoprotein receptors"	6547	protein-coding gene	gene with protein product	"familial hypercholesterolemia"	606945					Standard	NM_000527		Approved	LDLCQ2	uc002mqk.4	P01130		ENST00000558518.1:c.81C>A	19.37:g.11210912C>A	ENSP00000454071:p.Cys27*	Somatic		WXS	Illumina HiSeq	Phase_I	B4DII3|B4DJZ8|B4DR00|B4DTQ3|C0JYY8|H0YLU8|H0YNT7|Q53ZD9|Q59FQ1|Q9UDH7	Nonsense_Mutation	SNP	ENST00000558518.1	37	CCDS12254.1	.	.	.	.	.	.	.	.	.	.	T	18.92	3.725318	0.68959	.	.	ENSG00000130164	ENST00000252444;ENST00000545707;ENST00000535915;ENST00000455727	.	.	.	5.51	-1.69	0.08186	.	0.000000	0.64402	D	0.000007	.	.	.	.	.	.	0.09310	P	1.0	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	12.7256	0.57168	0.0:0.4551:0.0:0.5449	.	.	.	.	X	27	.	ENSP00000252444:C27X	C	+	3	2	LDLR	11071912	0.022000	0.18835	0.000000	0.03702	0.375000	0.29983	0.018000	0.13422	-1.248000	0.02503	-0.352000	0.07741	TGC		0.522	LDLR-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000415973.2			A	11210912	C	A	11210912	4	1	640	1	0	0	0	0	0	1	0	0	8711	776	27	4	87	4	LDLR	19	11210912	Nonsense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10		11210912	47918071	126	39616										
LILRA1	11024	mdanderson.org	37	chr19	55107397	55107397	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	accccctggacatcctgatcGcaggtgaggagcccagcggg	14	14	0	2	rs149029653	byFrequency	TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr19:55107397G>A	ENST00000251372.3	+	6	1137	c.955G>A	c.(955-957)Gca>Aca	p.A319T	LILRB1_ENST00000418536.2_Intron|LILRB1_ENST00000448689.1_Intron|LILRA1_ENST00000473156.1_3'UTR|LILRA1_ENST00000453777.1_Intron|LILRB1_ENST00000396321.2_Intron	NM_006863.2	NP_006854.1	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 1	319					cell surface receptor signaling pathway (GO:0007166)|defense response (GO:0006952)|immune system process (GO:0002376)|regulation of immune response (GO:0050776)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	antigen binding (GO:0003823)|transmembrane signaling receptor activity (GO:0004888)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(5)|liver(1)|lung(23)|ovary(1)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)	47				GBM - Glioblastoma multiforme(193;0.0348)		CATCCTGATCGCAGGTGAGGA	0.682													a|||	17	0.00339457	0.0106	0.0	5008	,	,		14307	0.001		0.001	False		,,,				2504	0.001															0													19	28	25					19																	55107397		2190	4285	6475	SO:0001583	missense	11024			AF025530	CCDS12901.1, CCDS62802.1	19q13.4	2013-01-11			ENSG00000104974	ENSG00000104974		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6602	protein-coding gene	gene with protein product		604810				9548455	Standard	NM_006863		Approved	LIR-6, CD85i, LIR6	uc002qgh.2	O75019	OTTHUMG00000065701	ENST00000251372.3:c.955G>A	19.37:g.55107397G>A	ENSP00000251372:p.Ala319Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O75018|Q3MJA6	Missense_Mutation	SNP	ENST00000251372.3	37	CCDS12901.1	.	.	.	.	.	.	.	.	.	.	g	0.012	-1.690489	0.00738	.	.	ENSG00000104974	ENST00000251372	T	0.00637	6.05	1.73	-3.45	0.04781	Immunoglobulin subtype (1);	0.886112	0.09212	N	0.833168	T	0.00356	0.0011	N	0.02391	-0.57	0.09310	N	1	B	0.26081	0.141	B	0.24848	0.056	T	0.42749	-0.9433	10	0.14656	T	0.56	.	8.3553	0.32327	0.7419:0.0:0.2581:0.0	.	319	O75019	LIRA1_HUMAN	T	319	ENSP00000251372:A319T	ENSP00000251372:A319T	A	+	1	0	LILRA1	59799209	0.000000	0.05858	0.000000	0.03702	0.006000	0.05464	-5.248000	0.00138	-1.641000	0.01523	-1.031000	0.02408	GCA		0.682	LILRA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140807.2	NM_006863		A	55107397	G	A	55107397	3	1	640	1	0	0	0	0	1	0	0	0	8791	1087	38	1	973	1	LILRA1	19	55107397	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	43896485	55107397	4021586	127	39617										
CABIN1	23523	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr22	24472140	24472140	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	atgtcagagacgcccatgctCccatcctccctcatgctgct	7	17	2	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr22:24472140C>T	ENST00000398319.2	+	19	3040	c.2655C>T	c.(2653-2655)ctC>ctT	p.L885L	CABIN1_ENST00000405822.2_Silent_p.L835L|CABIN1_ENST00000263119.5_Silent_p.L885L	NM_001199281.1	NP_001186210.1	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	885					cell surface receptor signaling pathway (GO:0007166)|chromatin modification (GO:0016568)|DNA replication-independent nucleosome assembly (GO:0006336)|negative regulation of catalytic activity (GO:0043086)	aggresome (GO:0016235)|cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	protein phosphatase inhibitor activity (GO:0004864)			breast(2)|central_nervous_system(2)|endometrium(6)|kidney(6)|large_intestine(13)|liver(1)|lung(18)|ovary(5)|pancreas(3)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	65						CGCCCATGCTCCCATCCTCCC	0.582																																																0													111	85	94					22																	24472140		2203	4300	6503	SO:0001819	synonymous_variant	23523			AF072441	CCDS13823.1, CCDS74830.1	22q11.23	2008-09-16			ENSG00000099991	ENSG00000099991			24187	protein-coding gene	gene with protein product		604251				9655484, 9205841	Standard	NM_001199281		Approved	KIAA0330, PPP3IN	uc002zzi.1	Q9Y6J0	OTTHUMG00000150797	ENST00000398319.2:c.2655C>T	22.37:g.24472140C>T		Somatic		WXS	Illumina HiSeq	Phase_I	G5E9F3|Q6PHY0|Q9Y460	Silent	SNP	ENST00000398319.2	37	CCDS13823.1																																																																																				0.582	CABIN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320161.2	NM_012295		T	24472140	C	T	24472140	2	4	640	1	0	0	0	0	0	0	0	1	2530	842	30	2		2	CABIN1	22	24472140	Silent	SNP	C	TCGA-KL-8341-01A-11D-2310-10		24472140	26832426	128	39618										
SYN3	8224	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	33327400	33327400	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	cactttggtcccatttctcaCgacctgcatgtccaccatgc	6	16	1	0	rs200324473		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr22:33327400C>T	ENST00000358763.2	-	4	678	c.436G>A	c.(436-438)Gtg>Atg	p.V146M	SYN3_ENST00000332840.5_Missense_Mutation_p.V146M	NM_001135774.1	NP_001129246.1	O14994	SYN3_HUMAN	synapsin III	146	C; actin-binding and synaptic-vesicle binding.				neurotransmitter secretion (GO:0007269)|regulation of synaptic transmission, GABAergic (GO:0032228)	cell junction (GO:0030054)|synaptic vesicle (GO:0008021)|synaptic vesicle membrane (GO:0030672)	ATP binding (GO:0005524)|catalytic activity (GO:0003824)	p.V146M(1)		breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(15)|prostate(1)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	33						CCATTTCTCACGACCTGCATG	0.478																																																1	Substitution - Missense(1)	haematopoietic_and_lymphoid_tissue(1)						C	MET/VAL,MET/VAL,MET/VAL	0,4406		0,0,2203	117	108	111		436,436,436	0.7	0.3	22		111	3,8597	3.0+/-9.4	0,3,4297	yes	missense,missense,missense	SYN3	NM_133633.2,NM_003490.3,NM_001135774.1	21,21,21	0,3,6500	TT,TC,CC		0.0349,0.0,0.0231	benign,benign,benign	146/445,146/581,146/580	33327400	3,13003	2203	4300	6503	SO:0001583	missense	8224			AF046873	CCDS13908.1	22q12.3	2008-05-14			ENSG00000185666	ENSG00000185666			11496	protein-coding gene	gene with protein product		602705				9539796	Standard	NM_003490		Approved		uc003amx.3	O14994	OTTHUMG00000031004	ENST00000358763.2:c.436G>A	22.37:g.33327400C>T	ENSP00000351614:p.Val146Met	Somatic		WXS	Illumina HiSeq	Phase_I	B1B1F9	Missense_Mutation	SNP	ENST00000358763.2	37	CCDS13908.1	.	.	.	.	.	.	.	.	.	.	C	11.06	1.527933	0.27299	0.0	3.49E-4	ENSG00000185666	ENST00000358763;ENST00000332840;ENST00000390686	T;T	0.31247	1.5;1.5	5.42	0.732	0.18283	Pre-ATP-grasp fold (1);PreATP-grasp-like fold (1);Synapsin, pre-ATP-grasp domain (1);	0.377447	0.25968	N	0.027143	T	0.08935	0.0221	N	0.00972	-1.085	0.27204	N	0.96008	B;B;B	0.06786	0.001;0.0;0.001	B;B;B	0.04013	0.0;0.001;0.0	T	0.29488	-1.0010	10	0.27082	T	0.32	.	8.2266	0.31572	0.0:0.2797:0.0:0.7203	.	146;146;146	Q17R54;B1B1F9;O14994	.;.;SYN3_HUMAN	M	146	ENSP00000351614:V146M;ENSP00000330219:V146M	ENSP00000330219:V146M	V	-	1	0	SYN3	31657400	0.022000	0.18835	0.263000	0.24496	0.725000	0.41563	-0.617000	0.05584	0.012000	0.14892	0.563000	0.77884	GTG		0.478	SYN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075892.4			T	33327400	C	T	33327400	3	4	640	1	0	0	0	0	1	0	0	0	15454	536	19	1	1350	1	SYN3	22	33327400	Missense_Mutation	SNP	C	TCGA-KL-8341-01A-11D-2310-10	8855260	33327400	17977166	129	39619										
MAPK11	5600	broad.mit.edu	37	chr22	50703803	50703804	+	Frame_Shift_Ins	INS	-	-	C													0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	aacgctctcatcatatggctINScggcctctggctcatcctcg							TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chr22:50703803_50703804insC	ENST00000330651.6	-	11	1061_1062	c.961_962insG	c.(961-963)gagfs	p.E321fs	MAPK11_ENST00000495277.1_5'Flank	NM_002751.5	NP_002742.3	Q15759	MK11_HUMAN	mitogen-activated protein kinase 11	321					activation of MAPK activity (GO:0000187)|gene expression (GO:0010467)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|mRNA metabolic process (GO:0016071)|muscle cell differentiation (GO:0042692)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of muscle cell differentiation (GO:0051149)|Ras protein signal transduction (GO:0007265)|regulation of sequence-specific DNA binding transcription factor activity (GO:0051090)|response to stress (GO:0006950)|RNA metabolic process (GO:0016070)|signal transduction (GO:0007165)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transcription, DNA-templated (GO:0006351)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|MAP kinase activity (GO:0004707)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|central_nervous_system(1)|lung(4)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)	Regorafenib(DB08896)	ATCATATGGCTCGGCCTCTGGC	0.653																																					GBM(9;634 739 50668)											0																																										SO:0001589	frameshift_variant	5600			Y14440	CCDS14090.1	22q13.33	2011-06-09			ENSG00000185386	ENSG00000185386	2.7.11.1	"Mitogen-activated protein kinase cascade / Kinases"	6873	protein-coding gene	gene with protein product		602898		PRKM11		9218798	Standard	NM_002751		Approved	p38-2, p38Beta, SAPK2	uc003bkr.3	Q15759	OTTHUMG00000150226	ENST00000330651.6:c.962dupG	22.37:g.50703804_50703804dupC	ENSP00000333685:p.Glu321fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K730|B0LPG1|B7Z630|E7ETQ1|L7RT27|O00284|O15472|Q2XNF2	Frame_Shift_Ins	INS	ENST00000330651.6	37	CCDS14090.1																																																																																				0.653	MAPK11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316900.1			C	50703804	-	C	50703803	7	5	640	1	0	1	1	0	0	0	0	0	9280	1551	54	0	140	0	MAPK11	22	50703803	Frame_Shift_Ins	INS	-	TCGA-KL-8341-01A-11D-2310-10	17376403	50703803	600763	130	39620										
TAF9B	51616	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	77395087	77395087	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tctcggagcgttcttgggagGcgccatcttgcccgactcca	12	14	3	0			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chrX:77395087G>A	ENST00000341864.5	-	1	116	c.22C>T	c.(22-24)Cct>Tct	p.P8S		NM_015975.4	NP_057059.2	Q9HBM6	TAF9B_HUMAN	TAF9B RNA polymerase II, TATA box binding protein (TBP)-associated factor, 31kDa	8					DNA-templated transcription, initiation (GO:0006352)|negative regulation of apoptotic process (GO:0043066)|negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:1902166)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of cell growth (GO:0030307)|programmed cell death (GO:0012501)|protein stabilization (GO:0050821)|response to organic cyclic compound (GO:0014070)	transcription factor TFIID complex (GO:0005669)|transcription factor TFTC complex (GO:0033276)	transcription corepressor activity (GO:0003714)			central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(5)|upper_aerodigestive_tract(1)	14						TTCTTGGGAGGCGCCATCTTG	0.652																																																0													116	98	104					X																	77395087		2203	4296	6499	SO:0001583	missense	51616			AF220509	CCDS35340.1	Xq13.1-q21.1	2010-08-16	2006-01-04	2006-01-04	ENSG00000187325	ENSG00000187325			17306	protein-coding gene	gene with protein product		300754	"TAF9-like RNA polymerase II, TATA box binding protein (TBP)-associated factor, 31kDa"	TAF9L		15899866	Standard	XM_005262142		Approved	TAFII31L, DN-7, DN7, TFIID-31	uc004eda.3	Q9HBM6	OTTHUMG00000021887	ENST00000341864.5:c.22C>T	X.37:g.77395087G>A	ENSP00000339917:p.Pro8Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RUZ9|Q9Y2S3	Missense_Mutation	SNP	ENST00000341864.5	37	CCDS35340.1	.	.	.	.	.	.	.	.	.	.	G	3.298	-0.143546	0.06627	.	.	ENSG00000187325	ENST00000341864	T	0.38887	1.11	3.73	0.925	0.19424	.	0.440006	0.26163	N	0.025965	T	0.08891	0.0220	N	0.00707	-1.245	0.25701	N	0.985586	B	0.02656	0.0	B	0.08055	0.003	T	0.24190	-1.0167	10	0.07325	T	0.83	0.0098	1.6832	0.02836	0.1171:0.3115:0.3267:0.2448	.	8	Q9HBM6	TAF9B_HUMAN	S	8	ENSP00000339917:P8S	ENSP00000339917:P8S	P	-	1	0	TAF9B	77281743	1.000000	0.71417	0.987000	0.45799	0.983000	0.72400	1.743000	0.38258	0.060000	0.16281	0.600000	0.82982	CCT		0.652	TAF9B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057308.1	NM_015975		A	77395087	G	A	77395087	3	1	640	1	0	0	0	0	1	0	0	0	15548	1203	42	2	761	2	TAF9B	23	77395087	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10		77395087	77875473	131	39621										
MAGEC1	9947	mdanderson.org	37	chrX	140994320	140994320	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	gtctcctctccagattcctgGgagcccctccttctcctcca	6	19	3	1	rs7063168		TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chrX:140994320G>T	ENST00000285879.4	+	4	1416	c.1130G>T	c.(1129-1131)gGg>gTg	p.G377V	MAGEC1_ENST00000406005.2_Intron	NM_005462.4	NP_005453.2	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	377										breast(3)|central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(22)|lung(60)|ovary(1)|pancreas(1)|prostate(1)|skin(7)|stomach(5)|upper_aerodigestive_tract(7)|urinary_tract(1)	127	Acute lymphoblastic leukemia(192;6.56e-05)					CAGATTCCTGGGAGCCCCTCC	0.478										HNSCC(15;0.026)			-|||	115	0.0304636	0.0552	0.0173	3775	,	,		13319	0.0079		0.0159	False		,,,				2504	0.0061															0													103	108	107					X																	140994320		2201	4289	6490	SO:0001583	missense	9947			AF064589	CCDS35417.1	Xq26	2009-03-18			ENSG00000155495	ENSG00000155495			6812	protein-coding gene	gene with protein product	"cancer/testis antigen family 7, member 1"	300223				9485030, 9618514	Standard	NM_005462		Approved	MAGE-C1, CT7, MGC39366, CT7.1	uc004fbt.3	O60732	OTTHUMG00000022569	ENST00000285879.4:c.1130G>T	X.37:g.140994320G>T	ENSP00000285879:p.Gly377Val	Somatic		WXS	Illumina HiSeq	Phase_I	A0PK03|O75451|Q8TCV4	Missense_Mutation	SNP	ENST00000285879.4	37	CCDS35417.1	.	.	.	.	.	.	.	.	.	.	t	0.026	-1.372325	0.01214	.	.	ENSG00000155495	ENST00000285879	T	0.02446	4.29	.	.	.	.	.	.	.	.	T	0.01320	0.0043	N	0.08118	0	0.80722	P	0.0	B	0.06786	0.001	B	0.01281	0.0	T	0.45848	-0.9233	7	0.26408	T	0.33	.	4.0922	0.09975	0.0:0.0:0.3553:0.6447	.	377	O60732	MAGC1_HUMAN	V	377	ENSP00000285879:G377V	ENSP00000285879:G377V	G	+	2	0	MAGEC1	140821986	0.001000	0.12720	0.007000	0.13788	0.007000	0.05969	-2.809000	0.00756	-2.298000	0.00660	-2.354000	0.00241	GGG		0.478	MAGEC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058604.1	NM_005462		T	140994320	G	T	140994320	3	4	640	1	0	0	0	0	1	0	0	0	9187	1232	43	4	1136	4	MAGEC1	23	140994320	Missense_Mutation	SNP	G	TCGA-KL-8341-01A-11D-2310-10	63599233	140994320	14276240	132	39622										
IKBKG	2539	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chrX	153770612	153770612	+	Intron	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	ggtcccatcaggtggggaaaGatgctgttccaggcgcacac	14	11	1	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chrX:153770612G>C	ENST00000393564.2	-	2	233				G6PD_ENST00000393562.2_Intron|G6PD_ENST00000497281.1_Intron|G6PD_ENST00000369620.2_Intron|IKBKG_ENST00000369609.5_Missense_Mutation_p.R45T|IKBKG_ENST00000369607.1_Intron	NM_001042351.1	NP_001035810.1	P11413	G6PD_HUMAN	glucose-6-phosphate dehydrogenase						carbohydrate metabolic process (GO:0005975)|cellular response to oxidative stress (GO:0034599)|cholesterol biosynthetic process (GO:0006695)|cytokine production (GO:0001816)|erythrocyte maturation (GO:0043249)|glucose 6-phosphate metabolic process (GO:0051156)|glutathione metabolic process (GO:0006749)|lipid metabolic process (GO:0006629)|NADP metabolic process (GO:0006739)|NADPH regeneration (GO:0006740)|negative regulation of protein glutathionylation (GO:0010734)|oxidation-reduction process (GO:0055114)|pentose biosynthetic process (GO:0019322)|pentose-phosphate shunt (GO:0006098)|pentose-phosphate shunt, oxidative branch (GO:0009051)|regulation of neuron apoptotic process (GO:0043523)|response to ethanol (GO:0045471)|response to food (GO:0032094)|response to organic cyclic compound (GO:0014070)|ribose phosphate biosynthetic process (GO:0046390)|small molecule metabolic process (GO:0044281)|substantia nigra development (GO:0021762)	cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	glucose binding (GO:0005536)|glucose-6-phosphate dehydrogenase activity (GO:0004345)|NADP binding (GO:0050661)|protein homodimerization activity (GO:0042803)			breast(2)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(3)|lung(3)|ovary(4)	18	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)					GGTGGGGAAAGATGCTGTTCC	0.572																																																0													63	54	57					X																	153770612		1568	3582	5150	SO:0001627	intron_variant	8517			X03674	CCDS14756.2, CCDS44023.1	Xq28	2014-09-17			ENSG00000160211	ENSG00000160211	1.1.1.49		4057	protein-coding gene	gene with protein product		305900				3012556, 2428611	Standard	NM_000402		Approved	G6PD1	uc004flx.1	P11413	OTTHUMG00000024237	ENST00000393564.2:c.120+3638C>G	X.37:g.153770612G>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DWX9|Q16000|Q16765|Q8IU70|Q8IU88|Q8IUA6|Q96PQ2	Missense_Mutation	SNP	ENST00000393564.2	37	CCDS44023.1	.	.	.	.	.	.	.	.	.	.	G	10.28	1.305731	0.23736	.	.	ENSG00000073009	ENST00000369609	D	0.91792	-2.91	2.67	0.872	0.19113	.	.	.	.	.	T	0.81616	0.4860	.	.	.	0.09310	N	0.999994	B	0.24483	0.104	B	0.26969	0.075	T	0.66114	-0.6004	8	0.14656	T	0.56	.	3.4967	0.07657	0.1619:0.2636:0.5745:0.0	.	45	Q9Y6K9-2	.	T	45	ENSP00000358622:R45T	ENSP00000358622:R45T	R	+	2	0	IKBKG	153423806	0.002000	0.14202	0.002000	0.10522	0.034000	0.12701	0.389000	0.20751	0.119000	0.18210	-0.333000	0.08304	AGA		0.572	G6PD-006	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000061170.3	NM_000402		C	153770612	G	C	153770612	1	2	640	0	1	0	0	0	0	0	0	0	7620	942	33	4		4	IKBKG	23	153770612	Intron	SNP	G	TCGA-KL-8341-01A-11D-2310-10	12776292	153770612	1499948	133	39623										
ZFY	7544	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrY	2829115	2829115	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.113821138211382	14	1	1.65151515151515	3.14574314574315	1.38782785841609	0.0731727514850386	1	0	tttaatttttattctttaagGagctgatgctacacacatgg	7	6	1	1			TCGA-KL-8341-01A-11D-2310-10	TCGA-KL-8341-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e9032df3-8692-4146-a867-b9b64c9b310a	9f1b349f-503a-4237-8da4-9100de610e1e	g.chrY:2829115G>A	ENST00000155093.3	+	3	383	c.62G>A	c.(61-63)gGa>gAa	p.G21E	ZFY_ENST00000449237.1_5'UTR|ZFY_ENST00000431102.1_Intron|ZFY_ENST00000383052.1_Splice_Site_p.G21E	NM_003411.3	NP_003402.2	P08048	ZFY_HUMAN	zinc finger protein, Y-linked	21					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			biliary_tract(1)|kidney(3)|large_intestine(1)|lung(3)	8						ATTCTTTAAGGAGCTGATGCT	0.318																																																0																																										SO:0001630	splice_region_variant	7544			L10393	CCDS14774.1, CCDS48200.1, CCDS48201.1	Yp11.3	2013-01-08			ENSG00000067646	ENSG00000067646		"Zinc fingers, C2H2-type"	12870	protein-coding gene	gene with protein product		490000				2497060	Standard	NM_001145275		Approved	ZNF911	uc004fqj.3	P08048	OTTHUMG00000036159	ENST00000155093.3:c.62-1G>A	Y.37:g.2829115G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DVF7|Q14021|Q15558|Q1RME9|Q24JR0|Q96TF3	Missense_Mutation	SNP	ENST00000155093.3	37	CCDS14774.1																																																																																				0.318	ZFY-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088063.1	NM_003411	Missense_Mutation	A	2829115	G	A	2829115	5	1	640	1	0	0	0	0	0	0	1	0	17674	1188	41	2	68	2	ZFY	24	2829115	Splice_Site	SNP	G	TCGA-KL-8341-01A-11D-2310-10		2829115	56544451	134	39624										
CPSF3L	54973	broad.mit.edu	37	chr1	1254710	1254710	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	ggaggtggacagccaccaccTtcttcatgcagtctttgatc	10	12	3	1			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr1:1254710T>C	ENST00000435064.1	-	4	477	c.395A>G	c.(394-396)aAg>aGg	p.K132R	CPSF3L_ENST00000419704.1_Intron|CPSF3L_ENST00000540437.1_Missense_Mutation_p.K138R|CPSF3L_ENST00000462432.1_5'Flank|RP5-890O3.9_ENST00000444968.1_RNA|CPSF3L_ENST00000421495.2_Intron|CPSF3L_ENST00000411962.1_Intron|CPSF3L_ENST00000545578.1_Missense_Mutation_p.K103R|CPSF3L_ENST00000450926.2_Missense_Mutation_p.K132R	NM_001256460.1|NM_017871.5	NP_001243389.1|NP_060341.2	Q5TA45	INT11_HUMAN	cleavage and polyadenylation specific factor 3-like	132					snRNA processing (GO:0016180)	blood microparticle (GO:0072562)|cytoplasm (GO:0005737)|integrator complex (GO:0032039)	hydrolase activity (GO:0016787)			endometrium(4)|kidney(2)|lung(3)|prostate(1)|upper_aerodigestive_tract(3)	13	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)		Epithelial(90;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(86;4.35e-21)|Colorectal(212;0.000166)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.00235)|BRCA - Breast invasive adenocarcinoma(365;0.00255)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0349)|Lung(427;0.201)		AGCCACCACCTTCTTCATGCA	0.602																																																0													207	199	202					1																	1254710		2203	4300	6503	SO:0001583	missense	54973			AL136813	CCDS21.1, CCDS57959.1, CCDS57960.1, CCDS57961.1, CCDS72678.1	1p36.33	2008-02-05			ENSG00000127054	ENSG00000127054			26052	protein-coding gene	gene with protein product	"integrator complex subunit 11"	611354				15684398, 16239144	Standard	NM_001256456		Approved	FLJ20542, RC-68, CPSF73L, INT11, INTS11	uc001aee.2	Q5TA45	OTTHUMG00000003330	ENST00000435064.1:c.395A>G	1.37:g.1254710T>C	ENSP00000413493:p.Lys132Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5S2|B3KPR3|B4DM87|G3V1S5|Q5TA46|Q5TA48|Q5TA52|Q5TA53|Q5TA54|Q7L3D7|Q96HY1|Q9BW36|Q9H0F9|Q9H8R5|Q9HAA6|Q9NWX9	Missense_Mutation	SNP	ENST00000435064.1	37	CCDS21.1	.	.	.	.	.	.	.	.	.	.	T	24.0	4.483527	0.84854	.	.	ENSG00000127054	ENST00000435064;ENST00000540437;ENST00000450926;ENST00000545578;ENST00000434694;ENST00000526332;ENST00000527719;ENST00000530031;ENST00000534345	T;T;T;T;T;T;T;T;T	0.79554	1.04;1.04;1.04;-1.28;1.04;0.91;-1.28;-1.28;1.04	4.73	4.73	0.59995	Beta-lactamase-like (2);	0.170393	0.52532	D	0.000076	D	0.84933	0.5582	L	0.48642	1.525	0.80722	D	1	D;D;D;D	0.71674	0.986;0.998;0.986;0.989	P;D;P;P	0.73380	0.787;0.98;0.787;0.865	T	0.82719	-0.0318	10	0.26408	T	0.33	-49.0445	14.4028	0.67060	0.0:0.0:0.0:1.0	.	132;151;138;132	Q5TA45-3;Q5TA51;G3V1S5;Q5TA45	.;.;.;INT11_HUMAN	R	132;138;132;103;132;8;138;179;133	ENSP00000413493:K132R;ENSP00000445001:K138R;ENSP00000392848:K132R;ENSP00000444672:K103R;ENSP00000411233:K132R;ENSP00000434790:K8R;ENSP00000436743:K138R;ENSP00000432009:K179R;ENSP00000435772:K133R	ENSP00000411233:K132R	K	-	2	0	CPSF3L	1244573	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.815000	0.86186	1.993000	0.58246	0.459000	0.35465	AAG		0.602	CPSF3L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000009360.2	NM_017871		C	1254710	T	C	1254710	3	2	641	1	0	0	0	0	1	0	0	0	3829	1609	56	3	1463	3	CPSF3L	1	1254710	Missense_Mutation	SNP	T	TCGA-KL-8342-01A-11D-2310-10		1254710	247995911	1	39625										
GALE	11313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	24122442	24122442	+	IGR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	ttggtaggggagggtcctcaGgcttgcgtgccaaagcctga	16	9	1	1			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr1:24122442G>A	ENST00000374514.3	+	0	1810				GALE_ENST00000374497.3_Silent_p.A348A|GALE_ENST00000470383.1_5'Flank	NM_007260.2	NP_009191.1	O95372	LYPA2_HUMAN	lysophospholipase II						fatty acid metabolic process (GO:0006631)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	hydrolase activity (GO:0016787)			endometrium(3)|lung(2)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	8		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Breast(348;0.0044)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;1.79e-24)|Colorectal(126;4.8e-08)|COAD - Colon adenocarcinoma(152;2.83e-06)|GBM - Glioblastoma multiforme(114;4.22e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000946)|KIRC - Kidney renal clear cell carcinoma(1967;0.00314)|STAD - Stomach adenocarcinoma(196;0.0123)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0827)|LUSC - Lung squamous cell carcinoma(448;0.184)		AGGGTCCTCAGGCTTGCGTGC	0.627																																																0													39	39	39					1																	24122442		2203	4300	6503	SO:0001628	intergenic_variant	2582			AF098668	CCDS241.1	1p36.11	2008-08-08			ENSG00000011009	ENSG00000011009	3.1.1.5		6738	protein-coding gene	gene with protein product							Standard	NM_007260		Approved	APT-2	uc001bht.3	O95372	OTTHUMG00000002961		1.37:g.24122442G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z4Z2	Silent	SNP	ENST00000374514.3	37	CCDS241.1																																																																																				0.627	LYPLA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008245.1			A	24122442	G	A	24122442	1	1	641	0	1	0	0	0	0	0	0	0	6209	987	35	2		2	GALE	1	24122442	IGR	SNP	G	TCGA-KL-8342-01A-11D-2310-10	22867732	24122442	225128179	2	39626										
CNKSR1	10256	broad.mit.edu	37	chr1	26509852	26509852	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	gtcaggttcccactgactccCgactgcagatccagcctgga	10	15	1	2	rs200619424		TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr1:26509852C>T	ENST00000374253.5	+	8	739	c.700C>T	c.(700-702)Cga>Tga	p.R234*	CNKSR1_ENST00000361530.6_Nonsense_Mutation_p.R234*|CNKSR1_ENST00000531191.1_5'UTR	NM_006314.2	NP_006305.2	Q969H4	CNKR1_HUMAN	connector enhancer of kinase suppressor of Ras 1	234	PDZ. {ECO:0000255|PROSITE- ProRule:PRU00143}.				Ras protein signal transduction (GO:0007265)|Rho protein signal transduction (GO:0007266)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cell cortex (GO:0005938)|cell-cell junction (GO:0005911)|plasma membrane (GO:0005886)	protein binding, bridging (GO:0030674)	p.R234*(1)		breast(4)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(6)|lung(8)|ovary(2)|prostate(2)|upper_aerodigestive_tract(1)	28		Colorectal(325;3.46e-05)|all_lung(284;0.000116)|Lung NSC(340;0.000154)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0133)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.72e-26)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|BRCA - Breast invasive adenocarcinoma(304;0.000959)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00823)|READ - Rectum adenocarcinoma(331;0.0649)		CACTGACTCCCGACTGCAGAT	0.637													C|||	1	0.000199681	0.0	0.0	5008	,	,		19569	0.0		0.001	False		,,,				2504	0.0				NSCLC(180;1396 2109 28270 30756 34275)											1	Substitution - Nonsense(1)	prostate(1)											108	105	106					1																	26509852		2203	4300	6503	SO:0001587	stop_gained	10256			AF100153	CCDS276.1, CCDS72732.1	1p35.3	2013-01-10			ENSG00000142675	ENSG00000142675		"Sterile alpha motif (SAM) domain containing", "Pleckstrin homology (PH) domain containing"	19700	protein-coding gene	gene with protein product		603272				9814705	Standard	NM_006314		Approved	CNK1, KSR, CNK	uc001blm.4	Q969H4	OTTHUMG00000007541	ENST00000374253.5:c.700C>T	1.37:g.26509852C>T	ENSP00000363371:p.Arg234*	Somatic		WXS	Illumina HiSeq	Phase_I	B1AMW9|O95381	Nonsense_Mutation	SNP	ENST00000374253.5	37		0	0.0	0	0.0	0	0.0	0	0.0	0	0.0	C	24.0	4.479257	0.84747	.	.	ENSG00000142675	ENST00000361530;ENST00000374253	.	.	.	5.0	3.97	0.46021	.	1.470530	0.03914	N	0.282324	.	.	.	.	.	.	0.19575	N	0.999969	.	.	.	.	.	.	.	.	.	.	0.32370	T	0.25	0.0047	4.2499	0.10689	0.0:0.5771:0.2685:0.1544	.	.	.	.	X	234	.	ENSP00000354609:R234X	R	+	1	2	CNKSR1	26382439	0.000000	0.05858	0.018000	0.16275	0.256000	0.26092	0.008000	0.13197	2.307000	0.77673	0.655000	0.94253	CGA		0.637	CNKSR1-007	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000089943.2	NM_006314		T	26509852	C	T	26509852	4	4	641	1	0	0	0	0	0	1	0	0	3608	644	23	1	730	1	CNKSR1	1	26509852	Nonsense_Mutation	SNP	C	TCGA-KL-8342-01A-11D-2310-10	2387410	26509852	222740769	3	39627										
RNF115	27246	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	145687066	145687066	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	caatcacttctttcacagcaGttgtattgtgccgtggctag	9	10	3	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr1:145687066G>A	ENST00000369291.5	+	8	962	c.758G>A	c.(757-759)aGt>aAt	p.S253N		NM_014455.2	NP_055270.1			ring finger protein 115											breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|lung(4)|ovary(1)|upper_aerodigestive_tract(1)	13						TTTCACAGCAGTTGTATTGTG	0.438																																																0													170	142	151					1																	145687066		2203	4300	6503	SO:0001583	missense	27246			AF419857	CCDS72863.1	1q12	2013-01-09	2008-06-16	2008-06-16	ENSG00000121848	ENSG00000265491		"RING-type (C3HC4) zinc fingers"	18154	protein-coding gene	gene with protein product			"zinc finger protein 364"	ZNF364			Standard	NM_014455		Approved	CL469780	uc001eoj.3	Q9Y4L5	OTTHUMG00000013758	ENST00000369291.5:c.758G>A	1.37:g.145687066G>A	ENSP00000358297:p.Ser253Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000369291.5	37	CCDS922.1	.	.	.	.	.	.	.	.	.	.	G	15.31	2.795342	0.50208	.	.	ENSG00000121848	ENST00000369291	T	0.44881	0.91	5.27	5.27	0.74061	Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, RING-type (2);Zinc finger, RING-H2-type (1);	0.155609	0.56097	D	0.000021	T	0.15349	0.0370	L	0.31664	0.95	0.30814	N	0.7385	B	0.24317	0.101	B	0.25506	0.061	T	0.04796	-1.0926	10	0.30854	T	0.27	-1.0535	9.7448	0.40440	0.0909:0.0:0.9091:0.0	.	253	Q9Y4L5	RN115_HUMAN	N	253	ENSP00000358297:S253N	ENSP00000358297:S253N	S	+	2	0	RNF115	144398423	1.000000	0.71417	0.997000	0.53966	0.980000	0.70556	3.496000	0.53288	2.748000	0.94277	0.655000	0.94253	AGT		0.438	RNF115-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000038554.2	NM_014455		A	145687066	G	A	145687066	3	1	641	1	0	0	0	0	1	0	0	0	13443	1029	36	2	788	2	RNF115	1	145687066	Missense_Mutation	SNP	G	TCGA-KL-8342-01A-11D-2310-10	119177214	145687066	103563555	4	39628										
BCAN	63827	ucsc.edu;bcgsc.ca	37	chr1	156626107	156626107	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	cagcccctgccacaatggtgGgacatgcttggaggaggagg	16	10	0	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr1:156626107G>A	ENST00000329117.5	+	9	2312	c.1976G>A	c.(1975-1977)gGg>gAg	p.G659E	RP11-284F21.7_ENST00000448869.1_RNA	NM_021948.4	NP_068767.3	Q96GW7	PGCB_HUMAN	brevican	659	EGF-like. {ECO:0000255|PROSITE- ProRule:PRU00076}.				carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glycosaminoglycan metabolic process (GO:0030203)|hippocampus development (GO:0021766)|small molecule metabolic process (GO:0044281)	anchored component of membrane (GO:0031225)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|lysosomal lumen (GO:0043202)|proteinaceous extracellular matrix (GO:0005578)	carbohydrate binding (GO:0030246)|hyaluronic acid binding (GO:0005540)			cervix(1)|endometrium(6)|kidney(3)|large_intestine(6)|lung(29)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)	55	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CACAATGGTGGGACATGCTTG	0.657																																																0													81	73	76					1																	156626107		2203	4300	6503	SO:0001583	missense	63827			BC027971	CCDS1149.1, CCDS1150.1	1q31	2013-05-07			ENSG00000132692	ENSG00000132692		"Immunoglobulin superfamily / V-set domain containing", "Proteoglycans / Extracellular Matrix : Hyalectans"	23059	protein-coding gene	gene with protein product	"chondroitin sulfate proteoglycan 7", "brevican proteoglycan"	600347				11054543, 11873941	Standard	NM_021948		Approved	BEHAB, MGC13038, CSPG7	uc001fpp.3	Q96GW7	OTTHUMG00000033322	ENST00000329117.5:c.1976G>A	1.37:g.156626107G>A	ENSP00000331210:p.Gly659Glu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVC2|Q5SZ10|Q5T3I5|Q8TBB9|Q9HBK1|Q9HBK4	Missense_Mutation	SNP	ENST00000329117.5	37	CCDS1149.1	.	.	.	.	.	.	.	.	.	.	G	19.26	3.792492	0.70452	.	.	ENSG00000132692	ENST00000329117	D	0.97480	-4.4	5.63	5.63	0.86233	EGF (1);Epidermal growth factor-like (1);Epidermal growth factor-like, type 3 (1);	0.000000	0.64402	D	0.000004	D	0.99083	0.9685	H	0.96662	3.86	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	D	0.99157	1.0860	10	0.56958	D	0.05	-27.3889	18.2473	0.89991	0.0:0.0:1.0:0.0	.	659	Q96GW7	PGCB_HUMAN	E	659	ENSP00000331210:G659E	ENSP00000331210:G659E	G	+	2	0	BCAN	154892731	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	2.929000	0.48916	2.654000	0.90174	0.561000	0.74099	GGG		0.657	BCAN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000081844.2	NM_021948		A	156626107	G	A	156626107	3	1	641	1	0	0	0	0	1	0	0	0	1345	1232	43	2	2080	2	BCAN	1	156626107	Missense_Mutation	SNP	G	TCGA-KL-8342-01A-11D-2310-10	10939041	156626107	92624514	5	39629										
OR2B11	127623	ucsc.edu	37	chr1	247615262	247615262	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	ctttaggggagtcccctaagAagctatggttgtcacttttc	10	9	1	1	rs35305980|rs397733455	byFrequency	TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr1:247615262A>G	ENST00000318749.6	-	1	46	c.23T>C	c.(22-24)tTc>tCc	p.F8S		NM_001004492.1	NP_001004492.1	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B, member 11	8						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(3)|kidney(13)|large_intestine(7)|lung(31)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)	60	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.241)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			GTCCCCTAAGAAGCTATGGTT	0.473																																																0													74	72	73					1																	247615262		2167	4183	6350	SO:0001583	missense	127623				CCDS31090.1	1q44	2012-08-09			ENSG00000177535	ENSG00000177535		"GPCR / Class A : Olfactory receptors"	31249	protein-coding gene	gene with protein product							Standard	NM_001004492		Approved		uc010pyx.2	Q5JQS5	OTTHUMG00000040572	ENST00000318749.6:c.23T>C	1.37:g.247615262A>G	ENSP00000325682:p.Phe8Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP03	Missense_Mutation	SNP	ENST00000318749.6	37	CCDS31090.1	.	.	.	.	.	.	.	.	.	.	A	0.336	-0.953364	0.02285	.	.	ENSG00000177535	ENST00000318749	T	0.36157	1.27	4.81	-0.489	0.12052	.	1.437710	0.04272	N	0.342190	T	0.17577	0.0422	N	0.08118	0	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.15178	-1.0446	10	0.20519	T	0.43	.	4.2883	0.10865	0.4326:0.3673:0.2001:0.0	.	8	Q5JQS5	OR2BB_HUMAN	S	8	ENSP00000325682:F8S	ENSP00000325682:F8S	F	-	2	0	OR2B11	245681885	.	.	0.000000	0.03702	0.071000	0.16799	.	.	-0.162000	0.10964	0.445000	0.29226	TTC		0.473	OR2B11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097620.1	NM_001004492		G	247615262	A	G	247615262	3	3	641	1	0	0	0	0	1	0	0	0	10995	246	9	3	933	3	OR2B11	1	247615262	Missense_Mutation	SNP	A	TCGA-KL-8342-01A-11D-2310-10	90989155	247615262	1635359	6	39630										
AFF3	3899	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	100167950	100167950	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	aggtccctatgacaggtgggCgctgttccgcagccagtgca	14	12	0	1	rs138104794		TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr2:100167950C>T	ENST00000409236.2	-	23	3779	c.3667G>A	c.(3667-3669)Gcc>Acc	p.A1223T	AFF3_ENST00000356421.2_Missense_Mutation_p.A1248T|AFF3_ENST00000317233.4_Missense_Mutation_p.A1223T|AFF3_ENST00000409579.1_Missense_Mutation_p.A1248T			P51826	AFF3_HUMAN	AF4/FMR2 family, member 3	1223					embryonic hindlimb morphogenesis (GO:0035116)|regulation of transcription, DNA-templated (GO:0006355)|response to tumor necrosis factor (GO:0034612)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	double-stranded DNA binding (GO:0003690)			NS(1)|breast(3)|central_nervous_system(1)|cervix(3)|endometrium(9)|kidney(4)|large_intestine(20)|liver(1)|lung(28)|ovary(3)|pancreas(1)|prostate(4)|skin(5)|urinary_tract(3)	86						GACAGGTGGGCGCTGTTCCGC	0.612													C|||	1	0.000199681	0.0	0.0	5008	,	,		16134	0.0		0.001	False		,,,				2504	0.0															0								C	THR/ALA,THR/ALA	1,4405	2.1+/-5.4	0,1,2202	37	36	36		3742,3667	-11.6	0.1	2	dbSNP_134	36	1,8599	1.2+/-3.3	0,1,4299	yes	missense,missense	AFF3	NM_001025108.1,NM_002285.2	58,58	0,2,6501	TT,TC,CC		0.0116,0.0227,0.0154	benign,benign	1248/1252,1223/1227	100167950	2,13004	2203	4300	6503	SO:0001583	missense	3899			U34360	CCDS33258.1, CCDS42723.1	2q11.2-q12	2008-02-05	2005-06-27	2005-06-27	ENSG00000144218	ENSG00000144218			6473	protein-coding gene	gene with protein product		601464	"lymphoid nuclear protein related to AF4"	LAF4		8662235, 8555498	Standard	XM_005263945		Approved	MLLT2-like	uc002taf.3	P51826	OTTHUMG00000153011	ENST00000409236.2:c.3667G>A	2.37:g.100167950C>T	ENSP00000387207:p.Ala1223Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZM46|B9EGL9|D3DVI6|Q53RD6|Q53S47|Q53SI6|Q53TB9|Q59F27|Q8IWJ5	Missense_Mutation	SNP	ENST00000409236.2	37	CCDS42723.1	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	C	15.46	2.839305	0.51057	2.27E-4	1.16E-4	ENSG00000144218	ENST00000317233;ENST00000356421;ENST00000409579;ENST00000409236	T;T;T;T	0.69306	-0.39;-0.39;-0.39;-0.39	6.17	-11.6	0.00059	.	0.703668	0.14247	N	0.331667	T	0.43055	0.1230	N	0.12569	0.235	0.27833	N	0.941366	B;B	0.15719	0.014;0.006	B;B	0.19946	0.027;0.003	T	0.23226	-1.0194	10	0.23891	T	0.37	.	20.6491	0.99593	0.0:0.3068:0.0:0.6932	.	1223;1248	P51826;P51826-2	AFF3_HUMAN;.	T	1223;1248;1248;1223	ENSP00000317421:A1223T;ENSP00000348793:A1248T;ENSP00000386834:A1248T;ENSP00000387207:A1223T	ENSP00000317421:A1223T	A	-	1	0	AFF3	99534382	0.004000	0.15560	0.050000	0.19076	0.966000	0.64601	-0.867000	0.04241	-2.907000	0.00309	-0.812000	0.03155	GCC		0.612	AFF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328982.3	NM_002285		T	100167950	C	T	100167950	3	4	641	1	0	0	0	0	1	0	0	0	358	768	27	1	17	1	AFF3	2	100167950	Missense_Mutation	SNP	C	TCGA-KL-8342-01A-11D-2310-10		100167950	143031423	7	39631										
RBMS1	5937	broad.mit.edu;hgsc.bcm.edu	37	chr2	161135123	161135123	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	gagggctgatcattgatgcgGgctgtagtgacatggtgtgc	17	6	1	3			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr2:161135123G>T	ENST00000348849.3	-	11	1428	c.998C>A	c.(997-999)cCc>cAc	p.P333H	RBMS1_ENST00000409289.2_Missense_Mutation_p.P297H|RBMS1_ENST00000474820.1_5'UTR|RBMS1_ENST00000409972.1_Missense_Mutation_p.P297H|RBMS1_ENST00000392753.3_Missense_Mutation_p.P346H|RBMS1_ENST00000409075.1_Missense_Mutation_p.P297H	NM_002897.4|NM_016836.3	NP_002888.1|NP_058520.1	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting protein 1	333					DNA replication (GO:0006260)|RNA processing (GO:0006396)	nucleus (GO:0005634)	double-stranded DNA binding (GO:0003690)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|single-stranded DNA binding (GO:0003697)		PLA2R1/RBMS1(2)								CATTGATGCGGGCTGTAGTGA	0.493											OREG0015036	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													114	97	103					2																	161135123		2203	4298	6501	SO:0001583	missense	5937			D28482	CCDS2213.1	2q24.2	2013-02-12			ENSG00000153250	ENSG00000153250		"RNA binding motif (RRM) containing"	9907	protein-coding gene	gene with protein product	"suppressor of cdc 2 (cdc13) with RNA binding motif 2", "c-myc gene single strand binding protein 2"	602310	"chromosome 2 open reading frame 12"	C2orf12		8041632, 8134115, 7838710	Standard	NM_016836		Approved	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764	uc002ubo.3	P29558	OTTHUMG00000132031	ENST00000348849.3:c.998C>A	2.37:g.161135123G>T	ENSP00000294904:p.Pro333His	Somatic	1814	WXS	Illumina HiSeq	Phase_I	Q14869|Q15433|Q53P46|Q53QX8|Q53RG6|Q8WV20	Missense_Mutation	SNP	ENST00000348849.3	37	CCDS2213.1	.	.	.	.	.	.	.	.	.	.	G	21.4	4.144459	0.77888	.	.	ENSG00000153250	ENST00000348849;ENST00000409075;ENST00000409289;ENST00000392753;ENST00000409972	T;T;T;T;T	0.30981	1.54;1.8;1.8;1.51;1.8	6.08	6.08	0.98989	.	0.092424	0.85682	D	0.000000	T	0.58509	0.2127	M	0.72353	2.195	0.80722	D	1	D;P;D;D;D;D	0.76494	0.999;0.458;0.995;0.999;0.998;0.996	D;B;P;D;D;D	0.73380	0.973;0.212;0.874;0.98;0.966;0.923	T	0.56842	-0.7912	10	0.72032	D	0.01	.	20.6634	0.99662	0.0:0.0:1.0:0.0	.	212;333;330;215;297;346	Q5CZ65;P29558;P29558-2;Q5CZ66;E7ETU5;B4DN88	.;RBMS1_HUMAN;.;.;.;.	H	333;297;297;346;297	ENSP00000294904:P333H;ENSP00000386347:P297H;ENSP00000386571:P297H;ENSP00000376508:P346H;ENSP00000387280:P297H	ENSP00000294904:P333H	P	-	2	0	RBMS1	160843369	1.000000	0.71417	0.975000	0.42487	0.932000	0.56968	5.221000	0.65272	2.894000	0.99253	0.655000	0.94253	CCC		0.493	RBMS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255043.4	NM_016836		T	161135123	G	T	161135123	3	4	641	1	0	0	0	0	1	0	0	0	13161	1232	43	4	234	4	RBMS1	2	161135123	Missense_Mutation	SNP	G	TCGA-KL-8342-01A-11D-2310-10	60967173	161135123	82064250	8	39632										
USP19	10869	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	49153200	49153200	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	ttggggttacatgctccatgGgtgtgcgggttgccacactg	15	9	0	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr3:49153200G>T	ENST00000398888.2	-	10	1658	c.1340C>A	c.(1339-1341)cCc>cAc	p.P447H	USP19_ENST00000453664.1_Missense_Mutation_p.P538H|USP19_ENST00000398896.1_Missense_Mutation_p.P255H|USP19_ENST00000434032.2_Missense_Mutation_p.P548H|USP19_ENST00000398898.2_Missense_Mutation_p.P487H|USP19_ENST00000398892.3_Missense_Mutation_p.P487H|USP19_ENST00000417901.1_Missense_Mutation_p.P550H|USP19_ENST00000488993.1_5'Flank	NM_006677.2	NP_006668.1	O94966	UBP19_HUMAN	ubiquitin specific peptidase 19	447					ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|negative regulation of skeletal muscle tissue development (GO:0048642)|positive regulation of cell cycle process (GO:0090068)|protein deubiquitination (GO:0016579)|regulation of cellular response to hypoxia (GO:1900037)|regulation of protein stability (GO:0031647)|response to endoplasmic reticulum stress (GO:0034976)|skeletal muscle atrophy (GO:0014732)	cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	metal ion binding (GO:0046872)|ubiquitin-specific protease activity (GO:0004843)			NS(1)|breast(3)|endometrium(5)|kidney(2)|large_intestine(10)|lung(5)|ovary(4)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	38				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		ATGCTCCATGGGTGTGCGGGT	0.597																																																0													89	94	92					3																	49153200		2111	4220	6331	SO:0001583	missense	10869			AB020698	CCDS43090.1, CCDS56254.1, CCDS56255.1, CCDS56256.1	3p21.31	2005-10-13	2005-08-08		ENSG00000172046	ENSG00000172046		"Zinc fingers, MYND-type", "Ubiquitin-specific peptidases"	12617	protein-coding gene	gene with protein product		614471	"ubiquitin specific protease 19"			12838346	Standard	NM_001199160		Approved	KIAA0891, ZMYND9	uc011bch.2	O94966	OTTHUMG00000133611	ENST00000398888.2:c.1340C>A	3.37:g.49153200G>T	ENSP00000381863:p.Pro447His	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKX8|A6H8U2|B4DGT3|B4DTZ0|E7EN22|E7ETS0|E9PEG8|Q3KQW4|Q641Q9|Q6NZY8|Q86XV9	Missense_Mutation	SNP	ENST00000398888.2	37	CCDS43090.1	.	.	.	.	.	.	.	.	.	.	G	11.80	1.746657	0.30955	.	.	ENSG00000172046	ENST00000398896;ENST00000398898;ENST00000417901;ENST00000453664;ENST00000398892;ENST00000398888;ENST00000434032;ENST00000306026	T;T;T;T;T;T;T;T	0.33654	2.03;2.04;2.14;2.15;2.04;2.16;2.14;1.4	6.17	6.17	0.99709	Domain of unknown function DUF1872 (1);	0.595439	0.18798	N	0.130869	T	0.51652	0.1687	L	0.40543	1.245	0.19300	N	0.999974	D;D;D;D;D;D;D	0.89917	1.0;1.0;1.0;0.998;0.999;0.999;0.998	D;D;D;P;D;D;P	0.74023	0.975;0.982;0.975;0.903;0.946;0.957;0.903	T	0.47129	-0.9141	10	0.72032	D	0.01	-14.2127	14.6223	0.68594	0.0696:0.0:0.9304:0.0	.	613;548;538;447;487;533;255	A5PKX8;E9PEG8;E7EN22;O94966;B5MEG5;O94966-2;E7ESU0	.;.;.;UBP19_HUMAN;.;.;.	H	255;487;550;538;487;447;548;535	ENSP00000381870:P255H;ENSP00000381872:P487H;ENSP00000395260:P550H;ENSP00000400090:P538H;ENSP00000381867:P487H;ENSP00000381863:P447H;ENSP00000401197:P548H;ENSP00000303503:P535H	ENSP00000303503:P535H	P	-	2	0	USP19	49128204	0.992000	0.36948	0.144000	0.22314	0.242000	0.25591	5.098000	0.64548	2.941000	0.99782	0.655000	0.94253	CCC		0.597	USP19-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000257721.1	NM_006677		T	49153200	G	T	49153200	3	4	641	1	0	0	0	0	1	0	0	0	17062	1232	43	4	2684	4	USP19	3	49153200	Missense_Mutation	SNP	G	TCGA-KL-8342-01A-11D-2310-10		49153200	148869230	9	39633										
GHSR	2693	broad.mit.edu	37	chr3	172165985	172165985	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	aggttggtggtggtgcgcagCtcgcggaagcgcgacaccac	17	11	0	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr3:172165985C>T	ENST00000241256.2	-	1	261	c.219G>A	c.(217-219)gaG>gaA	p.E73E	GHSR_ENST00000427970.1_Silent_p.E73E	NM_198407.2	NP_940799.1	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor	73					actin polymerization or depolymerization (GO:0008154)|adult feeding behavior (GO:0008343)|cellular response to insulin stimulus (GO:0032869)|decidualization (GO:0046697)|G-protein coupled receptor signaling pathway (GO:0007186)|growth hormone secretion (GO:0030252)|hormone-mediated signaling pathway (GO:0009755)|negative regulation of inflammatory response (GO:0050728)|negative regulation of insulin secretion (GO:0046676)|negative regulation of interleukin-1 beta production (GO:0032691)|negative regulation of interleukin-6 biosynthetic process (GO:0045409)|negative regulation of tumor necrosis factor biosynthetic process (GO:0042536)|positive regulation of appetite (GO:0032100)|positive regulation of fatty acid metabolic process (GO:0045923)|positive regulation of insulin-like growth factor receptor signaling pathway (GO:0043568)|positive regulation of multicellular organism growth (GO:0040018)|regulation of hindgut contraction (GO:0043134)|regulation of synapse assembly (GO:0051963)|response to food (GO:0032094)|response to hormone (GO:0009725)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|membrane raft (GO:0045121)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|growth hormone secretagogue receptor activity (GO:0001616)|growth hormone-releasing hormone receptor activity (GO:0016520)|peptide hormone binding (GO:0017046)			biliary_tract(1)|breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(6)|lung(16)|ovary(2)|prostate(3)|skin(1)|urinary_tract(1)	33	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			TGGTGCGCAGCTCGCGGAAGC	0.652																																					Esophageal Squamous(93;641 1401 20883 29581 34638)											0													74	61	66					3																	172165985		2203	4300	6503	SO:0001819	synonymous_variant	2693			AY429112	CCDS3218.1, CCDS46959.1	3q26.31	2012-08-08			ENSG00000121853	ENSG00000121853		"GPCR / Class A : Ghrelin receptors"	4267	protein-coding gene	gene with protein product		601898				8688086	Standard	NM_198407		Approved		uc003fib.2	Q92847	OTTHUMG00000156946	ENST00000241256.2:c.219G>A	3.37:g.172165985C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14D12|Q6ISR8|Q92848|Q96RJ7	Silent	SNP	ENST00000241256.2	37	CCDS3218.1																																																																																				0.652	GHSR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346728.1	NM_004122		T	172165985	C	T	172165985	2	4	641	1	0	0	0	0	0	0	0	1	6382	796	28	2		2	GHSR	3	172165985	Silent	SNP	C	TCGA-KL-8342-01A-11D-2310-10	123012785	172165985	25856445	10	39634										
TMEM41A	90407	ucsc.edu	37	chr3	185214712	185214712	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	tggtgctccttccggtactcTcgaaggacctcagagagctc	11	13	2	1			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr3:185214712T>C	ENST00000421852.1	-	2	272	c.177A>G	c.(175-177)cgA>cgG	p.R59R	TMEM41A_ENST00000475480.1_5'UTR|TMEM41A_ENST00000296254.3_Silent_p.R59R	NM_080652.3	NP_542383.1	Q96HV5	TM41A_HUMAN	transmembrane protein 41A	59						integral component of membrane (GO:0016021)				large_intestine(1)|lung(2)|skin(1)	4	all_cancers(143;7.78e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			TCCGGTACTCTCGAAGGACCT	0.587																																																0													48	46	47					3																	185214712		2202	4300	6502	SO:0001819	synonymous_variant	90407			BC019884	CCDS3271.1	3q27.2	2006-04-12			ENSG00000163900	ENSG00000163900			30544	protein-coding gene	gene with protein product						12975309	Standard	NM_080652		Approved	MGC15397	uc003fpj.2	Q96HV5	OTTHUMG00000156660	ENST00000421852.1:c.177A>G	3.37:g.185214712T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K4B3|D3DNU2|Q6ZMJ0	Silent	SNP	ENST00000421852.1	37	CCDS3271.1																																																																																				0.587	TMEM41A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345174.1	NM_080652		C	185214712	T	C	185214712	2	2	641	1	0	0	0	0	0	0	0	1	16176	1538	54	3		3	TMEM41A	3	185214712	Silent	SNP	T	TCGA-KL-8342-01A-11D-2310-10	13048727	185214712	12807718	11	39635										
ZCCHC4	29063	broad.mit.edu	37	chr4	25353254	25353254	+	Frame_Shift_Del	DEL	T	T	-													0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	attttctggattttcccctaTttttttgaatcccgaatttg							TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr4:25353254delT	ENST00000302874.4	+	8	978	c.954delT	c.(952-954)tatfs	p.Y318fs	AC108218.1_ENST00000580712.1_RNA|ZCCHC4_ENST00000505451.1_3'UTR	NM_024936.2	NP_079212.2	Q9H5U6	ZCHC4_HUMAN	zinc finger, CCHC domain containing 4	318							methyltransferase activity (GO:0008168)|nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)			endometrium(1)|large_intestine(3)|lung(2)|ovary(2)|pancreas(1)	9		Breast(46;0.0503)				TTTTCCCCTATTTTTTTGAAT	0.353																																																0													138	127	130					4																	25353254		1789	4063	5852	SO:0001589	frameshift_variant	29063			AF161537	CCDS43218.1	4p15.31	2014-02-18			ENSG00000168228	ENSG00000168228		"Zinc fingers, CCHC domain containing"	22917	protein-coding gene	gene with protein product	"zinc finger, GRF-type containing 4"	611792				11042152	Standard	NM_024936		Approved	HSPC052, FLJ23024, ZGRF4	uc003grl.4	Q9H5U6	OTTHUMG00000160563	ENST00000302874.4:c.954delT	4.37:g.25353254delT	ENSP00000303468:p.Tyr318fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RXF6|B4DRD8|B7ZW20|Q5IW78|Q96AN7	Frame_Shift_Del	DEL	ENST00000302874.4	37	CCDS43218.1																																																																																				0.353	ZCCHC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361151.1			-	25353254	T	-	25353254	7	5	641	1	0	1	0	1	0	0	0	0	17602	1500	52	0	984	0	ZCCHC4	4	25353254	Frame_Shift_Del	DEL	T	TCGA-KL-8342-01A-11D-2310-10		25353254	165801022	12	39636										
FGA	2243	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	155506781	155506781	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	gcctcatctgccattttataGctcttgctttcaaatgtgga	7	10	4	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr4:155506781G>C	ENST00000302053.3	-	5	1878	c.1800C>G	c.(1798-1800)agC>agG	p.S600R	FGA_ENST00000403106.3_Missense_Mutation_p.S600R	NM_000508.3	NP_000499.1	P02671	FIBA_HUMAN	fibrinogen alpha chain	600					blood coagulation (GO:0007596)|blood coagulation, common pathway (GO:0072377)|cell-matrix adhesion (GO:0007160)|cellular protein complex assembly (GO:0043623)|extracellular matrix organization (GO:0030198)|negative regulation of blood coagulation, common pathway (GO:2000261)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|platelet activation (GO:0030168)|platelet aggregation (GO:0070527)|platelet degranulation (GO:0002576)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of exocytosis (GO:0045921)|positive regulation of heterotypic cell-cell adhesion (GO:0034116)|positive regulation of peptide hormone secretion (GO:0090277)|positive regulation of protein secretion (GO:0050714)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|positive regulation of vasoconstriction (GO:0045907)|protein polymerization (GO:0051258)|response to calcium ion (GO:0051592)|signal transduction (GO:0007165)	blood microparticle (GO:0072562)|cell cortex (GO:0005938)|cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|fibrinogen complex (GO:0005577)|plasma membrane (GO:0005886)|platelet alpha granule (GO:0031091)|platelet alpha granule lumen (GO:0031093)|vesicle (GO:0031982)	structural molecule activity (GO:0005198)			NS(1)|breast(5)|central_nervous_system(2)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(14)|liver(2)|lung(20)|ovary(3)|pancreas(1)|prostate(8)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(6)	73	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	CCATTTTATAGCTCTTGCTTT	0.453																																					NSCLC(143;340 1922 20892 22370 48145)											0													140	133	135					4																	155506781		2203	4300	6503	SO:0001583	missense	2243				CCDS3787.1, CCDS47152.1	4q28	2014-09-17			ENSG00000171560	ENSG00000171560		"Fibrinogen C domain containing", "Endogenous ligands"	3661	protein-coding gene	gene with protein product		134820	"fibrinogen, A alpha polypeptide"				Standard	NM_000508		Approved		uc003iod.1	P02671	OTTHUMG00000150330	ENST00000302053.3:c.1800C>G	4.37:g.155506781G>C	ENSP00000306361:p.Ser600Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3E4|D3DP14|D3DP15|Q4QQH7|Q9BX62|Q9UCH2	Missense_Mutation	SNP	ENST00000302053.3	37	CCDS3787.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	11.01|11.01	1.511900|1.511900	0.27036|0.27036	.|.	.|.	ENSG00000171560|ENSG00000171560	ENST00000457487|ENST00000302053;ENST00000403106	.|T;T	.|0.58940	.|0.3;2.3	5.81|5.81	4.08|4.08	0.47627|0.47627	.|.	.|3.106990	.|0.00531	.|N	.|0.000202	T|T	0.70500|0.70500	0.3231|0.3231	M|M	0.62723|0.62723	1.935|1.935	0.09310|0.09310	N|N	1|1	.|D;D	.|0.67145	.|0.97;0.996	.|P;P	.|0.53649	.|0.62;0.731	T|T	0.49143|0.49143	-0.8970|-0.8970	6|10	0.44086|0.45353	T|T	0.13|0.12	.|.	11.5816|11.5816	0.50894|0.50894	0.2122:0.0:0.7878:0.0|0.2122:0.0:0.7878:0.0	.|.	.|600;600	.|P02671-2;P02671	.|.;FIBA_HUMAN	G|R	242|600	.|ENSP00000306361:S600R;ENSP00000385981:S600R	ENSP00000407891:A242G|ENSP00000306361:S600R	A|S	-|-	2|3	0|2	FGA|FGA	155726231|155726231	0.028000|0.028000	0.19301|0.19301	0.008000|0.008000	0.14137|0.14137	0.069000|0.069000	0.16628|0.16628	1.552000|1.552000	0.36244|0.36244	0.387000|0.387000	0.25024|0.25024	-0.797000|-0.797000	0.03246|0.03246	GCT|AGC		0.453	FGA-002	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317593.1	NM_000508		C	155506781	G	C	155506781	3	2	641	1	0	0	0	0	1	0	0	0	5837	962	34	4	852	4	FGA	4	155506781	Missense_Mutation	SNP	G	TCGA-KL-8342-01A-11D-2310-10	130153527	155506781	35647495	13	39637										
GUCY1A3	2982	broad.mit.edu;mdanderson.org	37	chr4	156643251	156643251	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	cgttggagttaaaatgccccGttactgtctttttggaaaca	9	8	1	0	rs370478508		TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr4:156643251G>A	ENST00000296518.7	+	9	1987	c.1778G>A	c.(1777-1779)cGt>cAt	p.R593H	GUCY1A3_ENST00000511108.1_Missense_Mutation_p.R593H|GUCY1A3_ENST00000455639.2_Missense_Mutation_p.R593H|GUCY1A3_ENST00000393832.3_Missense_Mutation_p.R335H|GUCY1A3_ENST00000511507.1_Missense_Mutation_p.R593H|GUCY1A3_ENST00000506455.1_Missense_Mutation_p.R593H|GUCY1A3_ENST00000513574.1_Missense_Mutation_p.R593H			Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3	593	Guanylate cyclase. {ECO:0000255|PROSITE- ProRule:PRU00099}.				blood circulation (GO:0008015)|blood coagulation (GO:0007596)|nitric oxide mediated signal transduction (GO:0007263)|positive regulation of cGMP biosynthetic process (GO:0030828)|regulation of blood pressure (GO:0008217)|relaxation of vascular smooth muscle (GO:0060087)|response to defense-related host nitric oxide production (GO:0052565)	guanylate cyclase complex, soluble (GO:0008074)	GTP binding (GO:0005525)|guanylate cyclase activity (GO:0004383)|heme binding (GO:0020037)|receptor activity (GO:0004872)			central_nervous_system(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(25)|liver(2)|lung(19)|ovary(1)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	64	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		AAAATGCCCCGTTACTGTCTT	0.423																																																0								G	HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG	0,4406		0,0,2203	229	220	223		1778,1778,1778,1778,1073,1778	5.8	1	4		223	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,missense,missense,missense,missense	GUCY1A3	NM_000856.4,NM_001130682.1,NM_001130683.2,NM_001130684.1,NM_001130685.1,NM_001130687.1	29,29,29,29,29,29	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging	593/691,593/691,593/691,593/691,358/456,593/625	156643251	1,13005	2203	4300	6503	SO:0001583	missense	2982				CCDS34085.1, CCDS54812.1	4q31.3-q33	2008-03-18				ENSG00000164116	4.6.1.2		4685	protein-coding gene	gene with protein product		139396		GUC1A3		1352257	Standard	NM_001130687		Approved	GC-SA3	uc003iow.3	Q02108		ENST00000296518.7:c.1778G>A	4.37:g.156643251G>A	ENSP00000296518:p.Arg593His	Somatic		WXS	Illumina HiSeq	Phase_I	D3DP19|D6RDW3|O43843|Q8TAH3	Missense_Mutation	SNP	ENST00000296518.7	37	CCDS34085.1	.	.	.	.	.	.	.	.	.	.	G	35	5.572927	0.96553	0.0	1.16E-4	ENSG00000164116	ENST00000506455;ENST00000511108;ENST00000511507;ENST00000455639;ENST00000393832;ENST00000296518;ENST00000513574	D;D;D;D;D;D;D	0.81908	-1.55;-1.55;-1.55;-1.55;-1.55;-1.55;-1.55	5.82	5.82	0.92795	Adenylyl cyclase class-3/4/guanylyl cyclase, conserved site (1);Adenylyl cyclase class-3/4/guanylyl cyclase (5);	0.000000	0.64402	D	0.000007	D	0.93015	0.7777	M	0.88512	2.96	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.93505	0.6848	10	0.87932	D	0	.	20.0945	0.97833	0.0:0.0:1.0:0.0	.	593;593	B3KU69;Q02108	.;GCYA3_HUMAN	H	593;593;593;593;335;593;593	ENSP00000424361:R593H;ENSP00000421493:R593H;ENSP00000426968:R593H;ENSP00000412201:R593H;ENSP00000377418:R335H;ENSP00000296518:R593H;ENSP00000426040:R593H	ENSP00000296518:R593H	R	+	2	0	GUCY1A3	156862701	1.000000	0.71417	0.997000	0.53966	0.977000	0.68977	9.869000	0.99810	2.752000	0.94435	0.585000	0.79938	CGT		0.423	GUCY1A3-010	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365786.2			A	156643251	G	A	156643251	3	1	641	1	0	0	0	0	1	0	0	0	6901	1145	40	1	1819	1	GUCY1A3	4	156643251	Missense_Mutation	SNP	G	TCGA-KL-8342-01A-11D-2310-10	1136470	156643251	34511025	14	39638										
HOMER1	9456	broad.mit.edu	37	chr5	78672018	78672018	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	tctttgttccgaatttctacTtccttcagaaacaaaagtgt	5	9	3	1			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr5:78672018T>C	ENST00000334082.6	-	9	2321	c.879A>G	c.(877-879)gaA>gaG	p.E293E	HOMER1_ENST00000535690.1_Silent_p.E119E|HOMER1_ENST00000282260.6_Silent_p.E163E|HOMER1_ENST00000508576.1_Missense_Mutation_p.K177R	NM_004272.3	NP_004263.1	Q86YM7	HOME1_HUMAN	homer homolog 1 (Drosophila)	293					behavioral response to cocaine (GO:0048148)|chemical homeostasis within a tissue (GO:0048875)|circadian rhythm (GO:0007623)|phospholipase C-activating G-protein coupled glutamate receptor signaling pathway (GO:0007206)|positive regulation of calcium ion transport (GO:0051928)|positive regulation of signal transduction (GO:0009967)|protein localization to synapse (GO:0035418)|regulation of calcium ion import (GO:0090279)|regulation of cation channel activity (GO:2001257)|regulation of store-operated calcium entry (GO:2001256)|response to calcium ion (GO:0051592)|response to nicotine (GO:0035094)|skeletal muscle contraction (GO:0003009)|skeletal muscle fiber development (GO:0048741)|synaptic transmission (GO:0007268)	apical part of cell (GO:0045177)|axon (GO:0030424)|cell junction (GO:0030054)|costamere (GO:0043034)|dendritic shaft (GO:0043198)|integral component of plasma membrane (GO:0005887)|neuronal cell body (GO:0043025)|neuronal postsynaptic density (GO:0097481)|postsynaptic membrane (GO:0045211)|Z disc (GO:0030018)	ion channel binding (GO:0044325)|signaling adaptor activity (GO:0035591)			endometrium(2)|kidney(1)|large_intestine(5)|lung(3)|prostate(2)|skin(1)	14		Lung NSC(167;0.00131)|all_lung(232;0.00151)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.87e-44)|Epithelial(54;7.07e-41)|all cancers(79;5.5e-36)		GAATTTCTACTTCCTTCAGAA	0.368																																																0													107	97	100					5																	78672018		1836	4081	5917	SO:0001819	synonymous_variant	9456			BC015502	CCDS43335.1, CCDS64188.1, CCDS64189.1	5q14.2	2008-02-05			ENSG00000152413	ENSG00000152413			17512	protein-coding gene	gene with protein product		604798				9808459, 9808458	Standard	NM_004272		Approved	Ves-1, SYN47, HOMER-1B	uc003kfy.4	Q86YM7	OTTHUMG00000134278	ENST00000334082.6:c.879A>G	5.37:g.78672018T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R688|O96003|Q86YM5	Missense_Mutation	SNP	ENST00000334082.6	37	CCDS43335.1	.	.	.	.	.	.	.	.	.	.	T	0.016	-1.539029	0.00942	.	.	ENSG00000152413	ENST00000508576	T	0.43688	0.94	5.7	3.22	0.36961	.	.	.	.	.	T	0.27832	0.0685	.	.	.	0.80722	D	1	B	0.02656	0.0	B	0.04013	0.001	T	0.08743	-1.0707	8	0.39692	T	0.17	-17.0933	5.0657	0.14582	0.1337:0.1419:0.0:0.7244	.	177	Q86YM7-3	.	R	177	ENSP00000426651:K177R	ENSP00000426651:K177R	K	-	2	0	HOMER1	78707774	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	0.946000	0.29069	0.984000	0.38629	0.482000	0.46254	AAG		0.368	HOMER1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258856.1	NM_004272		C	78672018	T	C	78672018	2	2	641	1	0	0	0	0	0	0	0	1	7285	1606	56	3		3	HOMER1	5	78672018	Silent	SNP	T	TCGA-KL-8342-01A-11D-2310-10		78672018	102243242	15	39639										
HARS2	23438	broad.mit.edu	37	chr5	140073223	140073223	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	ctgaaagcacatcaagagaaAccaaattttattatcaagac	5	8	2	3			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr5:140073223A>G	ENST00000230771.3	+	2	379	c.156A>G	c.(154-156)aaA>aaG	p.K52K	HARS2_ENST00000502303.1_3'UTR|HARS_ENST00000307633.3_5'Flank|HARS2_ENST00000448069.2_Intron|HARS2_ENST00000432671.2_Silent_p.K52K|HARS_ENST00000431330.2_5'Flank|HARS2_ENST00000435019.2_Silent_p.K52K|HARS2_ENST00000437649.2_Silent_p.K52K|HARS_ENST00000415192.2_5'Flank|HARS_ENST00000457527.2_5'Flank|HARS2_ENST00000508522.1_Intron|HARS_ENST00000438307.2_5'Flank|HARS_ENST00000448240.1_5'Flank|HARS_ENST00000504156.1_5'Flank	NM_012208.2	NP_036340.1	P49590	SYHM_HUMAN	histidyl-tRNA synthetase 2, mitochondrial	52					gene expression (GO:0010467)|histidyl-tRNA aminoacylation (GO:0006427)|translation (GO:0006412)|tRNA aminoacylation for protein translation (GO:0006418)	mitochondrial matrix (GO:0005759)	ATP binding (GO:0005524)|histidine-tRNA ligase activity (GO:0004821)|poly(A) RNA binding (GO:0044822)			NS(1)|endometrium(3)|large_intestine(5)|lung(10)	19			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATCAAGAGAAACCAAATTTTA	0.463																																																0													143	138	139					5																	140073223		2203	4300	6503	SO:0001819	synonymous_variant	23438			U18937	CCDS4238.1, CCDS64267.1	5q31.3	2012-07-20	2012-07-20	2007-02-23	ENSG00000112855	ENSG00000112855	6.1.1.21	"Aminoacyl tRNA synthetases / Class II"	4817	protein-coding gene	gene with protein product	"histidine tRNA ligase 2, mitochondrial (putative)"	600783	"histidyl-tRNA synthetase-like"	HARSL		7755634, 21464306	Standard	NM_012208		Approved	HO3, HARSR	uc003lgx.3	P49590	OTTHUMG00000129500	ENST00000230771.3:c.156A>G	5.37:g.140073223A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DDY8	Silent	SNP	ENST00000230771.3	37	CCDS4238.1																																																																																				0.463	HARS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251670.2	NM_012208		G	140073223	A	G	140073223	2	3	641	1	0	0	0	0	0	0	0	1	6967	40	2	3		3	HARS2	5	140073223	Silent	SNP	A	TCGA-KL-8342-01A-11D-2310-10	61401205	140073223	40842037	16	39640										
PCDHGA2	56113	broad.mit.edu	37	chr5	140720439	140720439	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	cacggcgcgagccctgctggAcagagacgcgctcaagcaga	14	14	1	2			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr5:140720439A>G	ENST00000394576.2	+	1	1901	c.1901A>G	c.(1900-1902)gAc>gGc	p.D634G	PCDHGA1_ENST00000517417.1_Intron	NM_018915.2	NP_061738.1	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2	634	Cadherin 6. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(20)|lung(32)|ovary(1)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	77			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCCTGCTGGACAGAGACGCG	0.692																																																0													44	52	49					5																	140720439		2202	4297	6499	SO:0001583	missense	56113			AF152508	CCDS47289.1	5q31	2011-03-28			ENSG00000081853	ENSG00000081853		"Cadherins / Protocadherins : Clustered"	8700	other	protocadherin		606289				10380929	Standard	NM_018915		Approved	PCDH-GAMMA-A2		Q9Y5H1	OTTHUMG00000163679	ENST00000394576.2:c.1901A>G	5.37:g.140720439A>G	ENSP00000378077:p.Asp634Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LL6|Q9Y5D5	Missense_Mutation	SNP	ENST00000394576.2	37	CCDS47289.1	.	.	.	.	.	.	.	.	.	.	.	16.86	3.238465	0.58886	.	.	ENSG00000081853	ENST00000394576	T	0.65178	-0.14	5.14	5.14	0.70334	Cadherin (4);Cadherin-like (1);	0.000000	0.43747	U	0.000540	T	0.70815	0.3267	L	0.47016	1.485	0.29160	N	0.877806	D;D	0.67145	0.985;0.996	D;D	0.68039	0.913;0.955	T	0.68360	-0.5429	10	0.72032	D	0.01	.	11.8318	0.52299	0.854:0.146:0.0:0.0	.	634;634	Q9Y5H1-2;Q9Y5H1	.;PCDG2_HUMAN	G	634	ENSP00000378077:D634G	ENSP00000378077:D634G	D	+	2	0	PCDHGA2	140700623	1.000000	0.71417	1.000000	0.80357	0.703000	0.40648	4.957000	0.63652	2.093000	0.63338	0.397000	0.26171	GAC		0.692	PCDHGA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374738.1	NM_018915		G	140720439	A	G	140720439	3	3	641	1	0	0	0	0	1	0	0	0	11561	275	10	3	1903	3	PCDHGA2	5	140720439	Missense_Mutation	SNP	A	TCGA-KL-8342-01A-11D-2310-10	647216	140720439	40194821	17	39641										
UBLCP1	134510	bcgsc.ca	37	chr5	158696939	158696939	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	aacctgcagaaaatgatgttAagcttggagctctcaaactg	9	8	1	2			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr5:158696939A>G	ENST00000296786.6	+	3	504	c.178A>G	c.(178-180)Aag>Gag	p.K60E		NM_145049.3	NP_659486.2	Q8WVY7	UBCP1_HUMAN	ubiquitin-like domain containing CTD phosphatase 1	60	Ubiquitin-like. {ECO:0000255|PROSITE- ProRule:PRU00214}.					nucleolus (GO:0005730)|nucleus (GO:0005634)	phosphoprotein phosphatase activity (GO:0004721)			endometrium(1)|kidney(3)|large_intestine(4)|ovary(1)	9	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AAATGATGTTAAGCTTGGAGC	0.363																																																0													92	88	89					5																	158696939		2203	4300	6503	SO:0001583	missense	134510			AK057996	CCDS4345.1	5q33.3	2010-06-21			ENSG00000164332	ENSG00000164332	3.1.3.16	"Serine/threonine phosphatases / CTD aspartate-based phosphatases"	28110	protein-coding gene	gene with protein product	"CTD phosphatase-like with ubiquitin domain 1"	609867				15883030	Standard	NM_145049		Approved	MGC10067, CPUB1	uc003lxq.2	Q8WVY7	OTTHUMG00000130305	ENST00000296786.6:c.178A>G	5.37:g.158696939A>G	ENSP00000296786:p.Lys60Glu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQJ7|Q96DK5	Missense_Mutation	SNP	ENST00000296786.6	37	CCDS4345.1	.	.	.	.	.	.	.	.	.	.	A	8.757	0.922724	0.18056	.	.	ENSG00000164332	ENST00000296786	T	0.73363	-0.74	6.06	6.06	0.98353	Ubiquitin supergroup (1);Ubiquitin (2);	0.000000	0.85682	D	0.000000	T	0.61073	0.2318	L	0.28608	0.87	0.80722	D	1	B	0.28584	0.216	B	0.27887	0.084	T	0.59451	-0.7452	10	0.02654	T	1	-15.8829	16.6245	0.84952	1.0:0.0:0.0:0.0	.	60	Q8WVY7	UBCP1_HUMAN	E	60	ENSP00000296786:K60E	ENSP00000296786:K60E	K	+	1	0	UBLCP1	158629517	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	8.962000	0.93254	2.323000	0.78572	0.528000	0.53228	AAG		0.363	UBLCP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252650.2	NM_145049		G	158696939	A	G	158696939	3	3	641	1	0	0	0	0	1	0	0	0	16903	363	13	3	184	3	UBLCP1	5	158696939	Missense_Mutation	SNP	A	TCGA-KL-8342-01A-11D-2310-10	17976500	158696939	22218321	18	39642										
HLA-DQB1	3119	mdanderson.org	37	chr6	32634331	32634331	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	agcatcgccagcatcaaggtGacagttgctacccgaaggtc	11	12	1	1	rs1049058	byFrequency	TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr6:32634331G>C	ENST00000399082.3	-	1	98	c.54C>G	c.(52-54)gtC>gtG	p.V18V	HLA-DQB1_ENST00000434651.2_Silent_p.V18V|HLA-DQB1_ENST00000399084.1_Silent_p.V18V|HLA-DQB1_ENST00000374943.4_Silent_p.V18V|HLA-DQB1_ENST00000399079.3_Silent_p.V18V			P01920	DQB1_HUMAN	major histocompatibility complex, class II, DQ beta 1	18					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|humoral immune response mediated by circulating immunoglobulin (GO:0002455)|immune response (GO:0006955)|immunoglobulin production involved in immunoglobulin mediated immune response (GO:0002381)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|endosome (GO:0005768)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)	MHC class II receptor activity (GO:0032395)|peptide antigen binding (GO:0042605)			breast(1)|large_intestine(1)|lung(1)|pancreas(1)	4					"""Insulin(DB00071)"	GCATCAAGGTGACAGTTGCTA	0.577									T-cell Lymphoma, (Cutaneous) , Familial Clustering of;Sjgren syndrome;Melanoma, Familial Clustering of;ACTH-independent macronodular adrenal hyperplasia																												Esophageal Squamous(151;720 1825 15000 40336 43415)											0								C		1235,2669		382,471,1099	54	52	53		54	3.2	0	6	dbSNP_86	53	3343,4893		1194,955,1969	no	coding-synonymous	HLA-DQB1	NM_002123.4		1576,1426,3068	CC,CG,GG		40.5901,31.6342,37.71		18/262	32634331	4578,7562	1952	4118	6070	SO:0001819	synonymous_variant	3119	Familial Cancer Database	incl.: Mycosis Fungoides, Sezary syndrome, Adult T-cell Lymphoma;Sjogren syndrome; ;AIMAH, Cushing disease, Adrenal, Familial		CCDS43451.1, CCDS59006.1	6p21.3	2013-01-11			ENSG00000179344	ENSG00000179344		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4944	protein-coding gene	gene with protein product		604305		HLA-DQB			Standard	NM_001243962		Approved	IDDM1, CELIAC1	uc031snw.1	P01920	OTTHUMG00000031124	ENST00000399082.3:c.54C>G	6.37:g.32634331G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A1KR27|A2RPH3|A4Q9R4|A4USG2|A4USG5|A6N8I7|A9YQA0|B0S7Y7|B1A0K6|B1GXI3|B3VLT3|B5BLN7|B7VU69|C0MQ34|C0MQ35|C8ZL52|C8ZLJ8|C8ZLJ9|C9DRQ3|O19708|O19713|O19724|O62861|O78046|O78221|O78223|O98034|O98201|P01917|P01918|P01919|P03992|P05537|P79482|P79526|P79544|P79551|Q08GC8|Q09035|Q0E4V9|Q1M312|Q29731|Q29877|Q29884|Q29915|Q29966|Q2P9N3|Q2QK85|Q30061|Q30075|Q30076|Q30080|Q30081|Q30082|Q30083|Q30084|Q30089|Q30095|Q31633|Q38I47|Q45UE3|Q4QZB5|Q53I44|Q564J6|Q5G841|Q5ISH1|Q5ISH3|Q5W1E1|Q5Y7G8|Q643R4|Q6B9X1|Q70VH8|Q7YP69|Q8HWH0|Q8MH58|Q8SNB4|Q8SND1|Q8SP70|Q8WMA3|Q9BD17|Q9MYH2|Q9TPA9|Q9XRY6|Q9XRY7|Q9XRZ2	Silent	SNP	ENST00000399082.3	37																																																																																					0.577	HLA-DQB1-007	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000276131.1	NM_002123		C	32634331	G	C	32634331	2	2	641	1	0	0	0	0	0	0	0	1	7213	1277	45	4		4	HLA-DQB1	6	32634331	Silent	SNP	G	TCGA-KL-8342-01A-11D-2310-10		32634331	138480736	19	39643			1	91		2	2	20	N	T_G	4.173479e-05
HLA-DQB1	3119	bcgsc.ca	37	chr6	32634350	32634350	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	tgacagttgctacccgaaggTctccggggatccgcaaagcc	12	13	1	1	rs1049057	byFrequency	TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr6:32634350T>C	ENST00000399082.3	-	1	79	c.35A>G	c.(34-36)gAc>gGc	p.D12G	HLA-DQB1_ENST00000434651.2_Missense_Mutation_p.D12G|HLA-DQB1_ENST00000399084.1_Missense_Mutation_p.D12G|HLA-DQB1_ENST00000374943.4_Missense_Mutation_p.D12G|HLA-DQB1_ENST00000399079.3_Missense_Mutation_p.D12G			P01920	DQB1_HUMAN	major histocompatibility complex, class II, DQ beta 1	12			G -> D (in allele DQB1*05:01, allele DQB1*05:02, allele DQB1*06:02 and allele DQB1*06:12; dbSNP:rs1049057).		antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|humoral immune response mediated by circulating immunoglobulin (GO:0002455)|immune response (GO:0006955)|immunoglobulin production involved in immunoglobulin mediated immune response (GO:0002381)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|endosome (GO:0005768)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)	MHC class II receptor activity (GO:0032395)|peptide antigen binding (GO:0042605)			breast(1)|large_intestine(1)|lung(1)|pancreas(1)	4					"""Insulin(DB00071)"	TACCCGAAGGTCTCCGGGGAT	0.562									T-cell Lymphoma, (Cutaneous) , Familial Clustering of;Sjgren syndrome;Melanoma, Familial Clustering of;ACTH-independent macronodular adrenal hyperplasia				t|||	3031	0.605232	0.4818	0.7089	5008	,	,		11450	0.6657		0.5755	False		,,,				2504	0.6667				Esophageal Squamous(151;720 1825 15000 40336 43415)											0								C	GLY/ASP	1428,2438		461,506,966	50	48	49		35	1.7	0	6	dbSNP_86	49	3721,4489		1409,903,1793	yes	missense	HLA-DQB1	NM_002123.4	94	1870,1409,2759	CC,CT,TT		45.3228,36.9374,42.6383	benign	12/262	32634350	5149,6927	1933	4105	6038	SO:0001583	missense	3119	Familial Cancer Database	incl.: Mycosis Fungoides, Sezary syndrome, Adult T-cell Lymphoma;Sjogren syndrome; ;AIMAH, Cushing disease, Adrenal, Familial		CCDS43451.1, CCDS59006.1	6p21.3	2013-01-11			ENSG00000179344	ENSG00000179344		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4944	protein-coding gene	gene with protein product		604305		HLA-DQB			Standard	NM_001243962		Approved	IDDM1, CELIAC1	uc031snw.1	P01920	OTTHUMG00000031124	ENST00000399082.3:c.35A>G	6.37:g.32634350T>C	ENSP00000382032:p.Asp12Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A1KR27|A2RPH3|A4Q9R4|A4USG2|A4USG5|A6N8I7|A9YQA0|B0S7Y7|B1A0K6|B1GXI3|B3VLT3|B5BLN7|B7VU69|C0MQ34|C0MQ35|C8ZL52|C8ZLJ8|C8ZLJ9|C9DRQ3|O19708|O19713|O19724|O62861|O78046|O78221|O78223|O98034|O98201|P01917|P01918|P01919|P03992|P05537|P79482|P79526|P79544|P79551|Q08GC8|Q09035|Q0E4V9|Q1M312|Q29731|Q29877|Q29884|Q29915|Q29966|Q2P9N3|Q2QK85|Q30061|Q30075|Q30076|Q30080|Q30081|Q30082|Q30083|Q30084|Q30089|Q30095|Q31633|Q38I47|Q45UE3|Q4QZB5|Q53I44|Q564J6|Q5G841|Q5ISH1|Q5ISH3|Q5W1E1|Q5Y7G8|Q643R4|Q6B9X1|Q70VH8|Q7YP69|Q8HWH0|Q8MH58|Q8SNB4|Q8SND1|Q8SP70|Q8WMA3|Q9BD17|Q9MYH2|Q9TPA9|Q9XRY6|Q9XRY7|Q9XRZ2	Missense_Mutation	SNP	ENST00000399082.3	37		1225	0.5608974358974359	193	0.39227642276422764	236	0.6519337016574586	398	0.6958041958041958	398	0.525065963060686	.	0.021	-1.421267	0.01126	0.369374	0.453228	ENSG00000179344	ENST00000399082;ENST00000399079;ENST00000374943;ENST00000434651;ENST00000399084;ENST00000447884	T;T;T;T;T	0.03386	3.95;8.5;8.5;8.5;8.5	3.59	1.68	0.24146	.	.	.	.	.	T	0.00384	0.0012	.	.	.	0.80722	P	0.0	B;B;B;B	0.09022	0.002;0.0;0.0;0.0	B;B;B;B	0.04013	0.001;0.0;0.0;0.0	T	0.44081	-0.9351	7	0.02654	T	1	.	3.1383	0.06447	0.2174:0.5424:0.0:0.2402	rs1049057;rs3189133;rs9274521;rs12722099;rs16868461	22;12;12;12	Q59F80;A2AAZ0;Q5Y7D6;Q5Y7A9	.;.;.;.	G	12	ENSP00000382032:D12G;ENSP00000382029:D12G;ENSP00000364080:D12G;ENSP00000407332:D12G;ENSP00000382034:D12G	ENSP00000364080:D12G	D	-	2	0	HLA-DQB1	32742328	0.000000	0.05858	0.000000	0.03702	0.004000	0.04260	0.328000	0.19681	0.003000	0.14656	-0.368000	0.07277	GAC		0.562	HLA-DQB1-007	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000276131.1	NM_002123		C	32634350	T	C	32634350	3	2	641	1	0	0	0	0	1	0	0	0	7213	1667	58	3	770	3	HLA-DQB1	6	32634350	Missense_Mutation	SNP	T	TCGA-KL-8342-01A-11D-2310-10	19	32634350	138480717	20	39644			1	91		2	2	20	N	T_G	4.173479e-05
USP45	85015	ucsc.edu	37	chr6	99930673	99930673	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	actttaggagaaagtggtccTttttcagtctccttcatgct	8	9	3	1	rs35004033		TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr6:99930673T>C	ENST00000327681.6	-	8	1333	c.801A>G	c.(799-801)aaA>aaG	p.K267K	USP45_ENST00000329966.6_Silent_p.K267K|USP45_ENST00000369233.2_Silent_p.K267K|USP45_ENST00000472914.2_Silent_p.K267K|USP45_ENST00000500704.2_Silent_p.K267K|USP45_ENST00000392738.2_Intron	NM_001080481.1	NP_001073950.1	Q70EL2	UBP45_HUMAN	ubiquitin specific peptidase 45	267	USP.				protein deubiquitination (GO:0016579)|ubiquitin-dependent protein catabolic process (GO:0006511)		ubiquitin-specific protease activity (GO:0004843)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(5)|large_intestine(6)|lung(2)|ovary(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)	22		all_cancers(76;0.000208)|Acute lymphoblastic leukemia(125;8.41e-11)|all_hematologic(75;2.56e-07)|all_epithelial(107;0.122)|Colorectal(196;0.133)		BRCA - Breast invasive adenocarcinoma(108;0.0718)		AAAGTGGTCCTTTTTCAGTCT	0.373																																																0													82	86	84					6																	99930673		2203	4300	6503	SO:0001819	synonymous_variant	85015			AL832030	CCDS34501.1	6q16.2	2008-02-05	2005-08-08		ENSG00000123552	ENSG00000123552		"Ubiquitin-specific peptidases"	20080	protein-coding gene	gene with protein product			"ubiquitin specific protease 45"			12838346	Standard	NM_001080481		Approved	MGC14793	uc003ppx.2	Q70EL2	OTTHUMG00000015267	ENST00000327681.6:c.801A>G	6.37:g.99930673T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RXG0|Q5T062|Q86T44|Q86TC0|Q9BRU1	Silent	SNP	ENST00000327681.6	37	CCDS34501.1																																																																																				0.373	USP45-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041609.2	NM_032929		C	99930673	T	C	99930673	2	2	641	1	0	0	0	0	0	0	0	1	17088	1606	56	3		3	USP45	6	99930673	Silent	SNP	T	TCGA-KL-8342-01A-11D-2310-10	67296323	99930673	71184394	21	39645										
AHI1	54806	broad.mit.edu	37	chr6	135787070	135787070	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	agtcaactgttctttcagttTctttcttattttcctcttaa	3	9	6	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr6:135787070T>C	ENST00000367800.4	-	5	847	c.631A>G	c.(631-633)Aaa>Gaa	p.K211E	AHI1_ENST00000327035.6_Missense_Mutation_p.K211E|AHI1_ENST00000457866.2_Missense_Mutation_p.K211E	NM_001134830.1	NP_001128302.1	Q8N157	AHI1_HUMAN	Abelson helper integration site 1	211	Interaction with HAP1.				cellular protein localization (GO:0034613)|central nervous system development (GO:0007417)|cilium assembly (GO:0042384)|cilium morphogenesis (GO:0060271)|cloaca development (GO:0035844)|heart looping (GO:0001947)|hindbrain development (GO:0030902)|Kupffer's vesicle development (GO:0070121)|left/right axis specification (GO:0070986)|morphogenesis of a polarized epithelium (GO:0001738)|negative regulation of apoptotic process (GO:0043066)|otic vesicle development (GO:0071599)|photoreceptor cell outer segment organization (GO:0035845)|positive regulation of polarized epithelial cell differentiation (GO:0030862)|positive regulation of receptor internalization (GO:0002092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|pronephric duct morphogenesis (GO:0039023)|pronephric nephron tubule morphogenesis (GO:0039008)|protein localization to organelle (GO:0033365)|regulation of behavior (GO:0050795)|retina layer formation (GO:0010842)|specification of axis polarity (GO:0065001)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|vesicle targeting (GO:0006903)|vesicle-mediated transport (GO:0016192)	adherens junction (GO:0005912)|cell-cell junction (GO:0005911)|centriole (GO:0005814)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cilium (GO:0005929)|nonmotile primary cilium (GO:0031513)|photoreceptor outer segment (GO:0001750)|primary cilium (GO:0072372)|TCTN-B9D complex (GO:0036038)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(6)|lung(18)|ovary(1)	37	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)		TCTTTCAGTTTCTTTCTTATT	0.348																																																0													143	135	137					6																	135787070		1846	4105	5951	SO:0001583	missense	54806			AJ459824	CCDS47483.1, CCDS47484.1	6q23.2	2013-01-10	2005-11-29		ENSG00000135541	ENSG00000135541		"WD repeat domain containing"	21575	protein-coding gene	gene with protein product	"Jouberin"	608894	"Abelson helper integration site"			15060101, 16240161	Standard	NM_017651		Approved	FLJ20069, ORF1, JBTS3	uc003qgj.3	Q8N157	OTTHUMG00000015631	ENST00000367800.4:c.631A>G	6.37:g.135787070T>C	ENSP00000356774:p.Lys211Glu	Somatic		WXS	Illumina HiSeq	Phase_I	E1P584|Q4FD35|Q504T3|Q5TCP9|Q6P098|Q6PIT6|Q8NDX0|Q9H0H2	Missense_Mutation	SNP	ENST00000367800.4	37	CCDS47483.1	.	.	.	.	.	.	.	.	.	.	T	26.1	4.703613	0.88924	.	.	ENSG00000135541	ENST00000367800;ENST00000457866;ENST00000265602;ENST00000327035;ENST00000367801;ENST00000524469	T;T;T;T;T	0.72394	1.07;1.07;1.07;1.62;-0.65	5.86	5.86	0.93980	.	0.115474	0.64402	D	0.000018	T	0.80210	0.4581	M	0.68952	2.095	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.85130	0.997;0.994	T	0.82604	-0.0375	10	0.87932	D	0	-26.3867	16.5602	0.84551	0.0:0.0:0.0:1.0	.	211;211	Q8N157-2;Q8N157	.;AHI1_HUMAN	E	211;211;211;211;211;193	ENSP00000356774:K211E;ENSP00000388650:K211E;ENSP00000265602:K211E;ENSP00000322478:K211E;ENSP00000433063:K193E	ENSP00000265602:K211E	K	-	1	0	AHI1	135828763	1.000000	0.71417	1.000000	0.80357	0.919000	0.55068	5.662000	0.68032	2.367000	0.80283	0.528000	0.53228	AAA		0.348	AHI1-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391948.1	NM_017651		C	135787070	T	C	135787070	3	2	641	1	0	0	0	0	1	0	0	0	413	1792	62	3	3108	3	AHI1	6	135787070	Missense_Mutation	SNP	T	TCGA-KL-8342-01A-11D-2310-10	35856397	135787070	35327997	22	39646										
PARK2	5071	broad.mit.edu	37	chr6	162394348	162394348	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	ccttacctgacgtctgtgcaCgtaatgcaagtgatgttccg	10	11	1	2			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr6:162394348C>A	ENST00000366898.1	-	6	822	c.720G>T	c.(718-720)acG>acT	p.T240T	PARK2_ENST00000366897.1_Silent_p.T212T|PARK2_ENST00000366892.1_Silent_p.T240T|PARK2_ENST00000338468.3_Silent_p.T49T|PARK2_ENST00000366894.1_Silent_p.T49T|PARK2_ENST00000366896.1_Silent_p.T91T	NM_004562.2	NP_004553.2	O60260	PRKN2_HUMAN	parkin RBR E3 ubiquitin protein ligase	240			T -> M (in PARK2). {ECO:0000269|PubMed:12629236}.|T -> R (in PARK2; impairs the ability to ubiquitinate SNCAIP and BCL2; loss of UBE2L3 binding; severely compromises the mitochondrial localization). {ECO:0000269|PubMed:9731209}.		adult locomotory behavior (GO:0008344)|aggresome assembly (GO:0070842)|cell death (GO:0008219)|cellular protein catabolic process (GO:0044257)|cellular response to dopamine (GO:1903351)|cellular response to manganese ion (GO:0071287)|cellular response to toxic substance (GO:0097237)|cellular response to unfolded protein (GO:0034620)|central nervous system development (GO:0007417)|dopamine metabolic process (GO:0042417)|dopamine uptake involved in synaptic transmission (GO:0051583)|learning (GO:0007612)|mitochondrion degradation (GO:0000422)|negative regulation of actin filament bundle assembly (GO:0032232)|negative regulation of cell death (GO:0060548)|negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway (GO:1902236)|negative regulation of glucokinase activity (GO:0033132)|negative regulation of insulin secretion (GO:0046676)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of neuron death (GO:1901215)|negative regulation of oxidative stress-induced cell death (GO:1903202)|negative regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway (GO:1903377)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of release of cytochrome c from mitochondria (GO:0090201)|norepinephrine metabolic process (GO:0042415)|positive regulation of DNA binding (GO:0043388)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of mitochondrial fusion (GO:0010636)|positive regulation of proteasomal protein catabolic process (GO:1901800)|positive regulation of protein linear polyubiquitination (GO:1902530)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor-mediated signaling pathway (GO:1903265)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein autoubiquitination (GO:0051865)|protein K27-linked ubiquitination (GO:0044314)|protein K29-linked ubiquitination (GO:0035519)|protein K48-linked ubiquitination (GO:0070936)|protein K6-linked ubiquitination (GO:0085020)|protein K63-linked ubiquitination (GO:0070534)|protein monoubiquitination (GO:0006513)|protein polyubiquitination (GO:0000209)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|regulation of autophagy (GO:0010506)|regulation of dopamine secretion (GO:0014059)|regulation of glucose metabolic process (GO:0010906)|regulation of lipid transport (GO:0032368)|regulation of mitochondrion degradation (GO:1903146)|regulation of mitochondrion organization (GO:0010821)|regulation of neurotransmitter secretion (GO:0046928)|regulation of reactive oxygen species metabolic process (GO:2000377)|regulation of synaptic vesicle transport (GO:1902803)|response to endoplasmic reticulum stress (GO:0034976)|startle response (GO:0001964)|synaptic transmission, glutamatergic (GO:0035249)|transcription, DNA-templated (GO:0006351)	aggresome (GO:0016235)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|Lewy body (GO:0097413)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|nucleus (GO:0005634)|Parkin-FBXW7-Cul1 ubiquitin ligase complex (GO:1990452)|perinuclear region of cytoplasm (GO:0048471)|ubiquitin ligase complex (GO:0000151)	chaperone binding (GO:0051087)|cullin family protein binding (GO:0097602)|F-box domain binding (GO:1990444)|G-protein coupled receptor binding (GO:0001664)|heat shock protein binding (GO:0031072)|Hsp70 protein binding (GO:0030544)|identical protein binding (GO:0042802)|kinase binding (GO:0019900)|ligase activity (GO:0016874)|PDZ domain binding (GO:0030165)|protein kinase binding (GO:0019901)|SH3 domain binding (GO:0017124)|ubiquitin binding (GO:0043130)|ubiquitin conjugating enzyme binding (GO:0031624)|ubiquitin protein ligase activity (GO:0061630)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activity (GO:0004842)|ubiquitin-specific protease binding (GO:1990381)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(21)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	39		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)		CGTCTGTGCACGTAATGCAAG	0.448																																																0													234	180	198					6																	162394348		2203	4300	6503	SO:0001819	synonymous_variant	5071				CCDS5281.1, CCDS5282.1, CCDS5283.1	6q25.2-q27	2013-10-03	2013-10-03		ENSG00000185345	ENSG00000185345		"Parkinson disease"	8607	protein-coding gene	gene with protein product	"E3 ubiquitin ligase"	602544	"Parkinson disease (autosomal recessive, juvenile) 2, parkin", "parkinson protein 2, E3 ubiquitin protein ligase (parkin)"			9560156, 9570960	Standard	NM_004562		Approved	PDJ, AR-JP, parkin	uc003qtx.4	O60260	OTTHUMG00000015970	ENST00000366898.1:c.720G>T	6.37:g.162394348C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A3FG77|A8K975|D3JZW7|D3K2X0|Q5TFV8|Q5VVX4|Q6Q2I6|Q8NI41|Q8NI43|Q8NI44|Q8WW07	Silent	SNP	ENST00000366898.1	37	CCDS5281.1																																																																																				0.448	PARK2-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042995.1			A	162394348	C	A	162394348	2	1	641	1	0	0	0	0	0	0	0	1	11456	523	19	4		4	PARK2	6	162394348	Silent	SNP	C	TCGA-KL-8342-01A-11D-2310-10	26607278	162394348	8720719	23	39647										
PILRB	29990	broad.mit.edu;bcgsc.ca	37	chr7	99956366	99956366	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	atggggtcactcaaccaaaaCacctctcagcctccatgggt	8	14	3	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr7:99956366C>T	ENST00000452089.1	+	7	1177	c.118C>T	c.(118-120)Cac>Tac	p.H40Y	PILRB_ENST00000609309.1_Missense_Mutation_p.H40Y|STAG3L5P-PVRIG2P-PILRB_ENST00000310771.4_RNA|PILRB_ENST00000448382.1_Intron|PILRB_ENST00000610247.1_Missense_Mutation_p.H40Y|PILRB_ENST00000444073.1_Missense_Mutation_p.H40Y			Q9UKJ0	PILRB_HUMAN	paired immunoglobin-like type 2 receptor beta	40	Ig-like V-type.				activation of transmembrane receptor protein tyrosine kinase activity (GO:0007171)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	integral component of plasma membrane (GO:0005887)				endometrium(1)|kidney(1)|large_intestine(3)|lung(6)|ovary(1)|prostate(1)	13	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TCAACCAAAACACCTCTCAGC	0.537																																																0													66	70	69					7																	99956366		2199	4294	6493	SO:0001583	missense	29990			AF161081, AJ400845	CCDS43622.1	7q22.1	2014-05-16			ENSG00000121716	ENSG00000121716		"Immunoglobulin superfamily / V-set domain containing"	18297	protein-coding gene	gene with protein product		605342				10660620	Standard	NM_178238		Approved	FDFACT1, FDFACT2	uc022ail.1	Q9UKJ0	OTTHUMG00000155363	ENST00000452089.1:c.118C>T	7.37:g.99956366C>T	ENSP00000391748:p.His40Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q69YF9|Q9HBS0	Missense_Mutation	SNP	ENST00000452089.1	37	CCDS43622.1	.	.	.	.	.	.	.	.	.	.	C	0.006	-2.027116	0.00410	.	.	ENSG00000121716	ENST00000310771;ENST00000420688;ENST00000452089;ENST00000457519;ENST00000443526;ENST00000419749;ENST00000422808;ENST00000444073;ENST00000413850;ENST00000438231	T;T;T;T;T;T;T;T	0.64991	-0.13;-0.13;-0.13;-0.13;-0.13;-0.13;-0.13;1.99	1.83	-1.49	0.08718	Immunoglobulin subtype (1);Immunoglobulin V-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	3.917930	0.00589	N	0.000346	T	0.38026	0.1025	N	0.08118	0	0.09310	N	1	B	0.14012	0.009	B	0.13407	0.009	T	0.11036	-1.0604	9	.	.	.	.	3.4261	0.07412	0.438:0.3385:0.2235:0.0	.	40	Q9UKJ0	PILRB_HUMAN	Y	40;40;40;40;40;40;40;40;145;40	ENSP00000311153:H40Y;ENSP00000391748:H40Y;ENSP00000411261:H40Y;ENSP00000403757:H40Y;ENSP00000404321:H40Y;ENSP00000389856:H40Y;ENSP00000410764:H40Y;ENSP00000408425:H40Y	.	H	+	1	0	PILRB	99794302	0.000000	0.05858	0.000000	0.03702	0.114000	0.19823	-1.839000	0.01686	-0.382000	0.07870	0.536000	0.68110	CAC		0.537	PILRB-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000339923.2	NM_178238		T	99956366	C	T	99956366	3	4	641	1	0	0	0	0	1	0	0	0	11933	478	17	2	124	2	PILRB	7	99956366	Missense_Mutation	SNP	C	TCGA-KL-8342-01A-11D-2310-10		99956366	59182297	24	39648										
PRSS1	5644	mdanderson.org	37	chr7	142458409	142458409	+	Missense_Mutation	SNP	C	C	G													0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	tcccatctccactccagttgCtgccccctttgatgatgatg					rs200665515		TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr7:142458409C>G	ENST00000311737.7	+	2	50	c.44C>G	c.(43-45)gCt>gGt	p.A15G	PRSS1_ENST00000486171.1_Missense_Mutation_p.A15G	NM_002769.4	NP_002760.1	P07477	TRY1_HUMAN	protease, serine, 1 (trypsin 1)	15					cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	metal ion binding (GO:0046872)|serine-type endopeptidase activity (GO:0004252)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(24)|prostate(2)	38	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)		Aprotinin(DB06692)	ACTCCAGTTGCTGCCCCCTTT	0.502																																																0													160	163	162					7																	142458409		2203	4300	6503	SO:0001583	missense	5644			M22612	CCDS5872.1	7q34	2012-10-02			ENSG00000204983	ENSG00000204983	3.4.21.4	"Serine peptidases / Serine peptidases"	9475	protein-coding gene	gene with protein product		276000		TRY1			Standard	NM_002769		Approved		uc003wak.2	P07477	OTTHUMG00000158923	ENST00000311737.7:c.44C>G	7.37:g.142458409C>G	ENSP00000308720:p.Ala15Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A1A509|A6NJ71|B2R5I5|Q5NV57|Q7M4N3|Q7M4N4|Q92955|Q9HAN4|Q9HAN5|Q9HAN6|Q9HAN7	Missense_Mutation	SNP	ENST00000311737.7	37	CCDS5872.1	.	.	.	.	.	.	.	.	.	.	C	19.18	3.776823	0.70107	.	.	ENSG00000204983	ENST00000486171;ENST00000311737;ENST00000529243	D;D	0.92752	-3.1;-3.1	3.49	3.49	0.39957	Peptidase cysteine/serine, trypsin-like (1);	0.048314	0.85682	D	0.000000	D	0.91915	0.7440	L	0.46614	1.455	0.51767	D	0.999935	P	0.50943	0.94	P	0.52424	0.698	D	0.92471	0.5985	10	0.56958	D	0.05	.	14.3966	0.67015	0.0:1.0:0.0:0.0	.	15	P07477	TRY1_HUMAN	G	15	ENSP00000417854:A15G;ENSP00000308720:A15G	ENSP00000308720:A15G	A	+	2	0	PRSS1	142137983	1.000000	0.71417	0.112000	0.21494	0.035000	0.12851	4.608000	0.61141	1.879000	0.54435	0.404000	0.27445	GCT		0.502	PRSS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352538.2			G	142458409	C	G	142458409	3	3	641	1	0	0	0	0	1	0	0	0	12624	797	28	4	50	4	PRSS1	7	142458409	Missense_Mutation	SNP	C	TCGA-KL-8342-01A-11D-2310-10	42502043	142458409	16680254	25	39649	341	2								
PRSS1	5644	mdanderson.org	37	chr7	142458412	142458412	+	Missense_Mutation	SNP	C	C	T													0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	catctccactccagttgctgCcccctttgatgatgatgaca					rs202003805		TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr7:142458412C>T	ENST00000311737.7	+	2	53	c.47C>T	c.(46-48)gCc>gTc	p.A16V	PRSS1_ENST00000486171.1_Missense_Mutation_p.A16V	NM_002769.4	NP_002760.1	P07477	TRY1_HUMAN	protease, serine, 1 (trypsin 1)	16			A -> V (in PCTT; disrupts signal sequence cleavage site). {ECO:0000269|PubMed:10381903}.		cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	metal ion binding (GO:0046872)|serine-type endopeptidase activity (GO:0004252)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(24)|prostate(2)	38	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)		Aprotinin(DB06692)	CCAGTTGCTGCCCCCTTTGAT	0.507																																																0			GRCh37	CM993429	PRSS1	M							161	163	162					7																	142458412		2203	4300	6503	SO:0001583	missense	5644			M22612	CCDS5872.1	7q34	2012-10-02			ENSG00000204983	ENSG00000204983	3.4.21.4	"Serine peptidases / Serine peptidases"	9475	protein-coding gene	gene with protein product		276000		TRY1			Standard	NM_002769		Approved		uc003wak.2	P07477	OTTHUMG00000158923	ENST00000311737.7:c.47C>T	7.37:g.142458412C>T	ENSP00000308720:p.Ala16Val	Somatic		WXS	Illumina HiSeq	Phase_I	A1A509|A6NJ71|B2R5I5|Q5NV57|Q7M4N3|Q7M4N4|Q92955|Q9HAN4|Q9HAN5|Q9HAN6|Q9HAN7	Missense_Mutation	SNP	ENST00000311737.7	37	CCDS5872.1	.	.	.	.	.	.	.	.	.	.	C	5.455	0.268997	0.10349	.	.	ENSG00000204983	ENST00000486171;ENST00000311737;ENST00000529243	D;D	0.93133	-3.17;-3.17	3.49	0.989	0.19802	Peptidase cysteine/serine, trypsin-like (1);	0.446479	0.27622	N	0.018559	D	0.84197	0.5419	L	0.28054	0.825	0.25694	N	0.985655	B	0.02656	0.0	B	0.06405	0.002	T	0.67027	-0.5774	10	0.11794	T	0.64	.	7.0429	0.25031	0.0:0.2125:0.0:0.7875	.	16	P07477	TRY1_HUMAN	V	16	ENSP00000417854:A16V;ENSP00000308720:A16V	ENSP00000308720:A16V	A	+	2	0	PRSS1	142137986	0.014000	0.17966	0.005000	0.12908	0.025000	0.11179	0.750000	0.26334	0.076000	0.16826	-0.490000	0.04691	GCC		0.507	PRSS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352538.2			T	142458412	C	T	142458412	3	4	641	1	0	0	0	0	1	0	0	0	12624	739	26	2	53	2	PRSS1	7	142458412	Missense_Mutation	SNP	C	TCGA-KL-8342-01A-11D-2310-10	3	142458412	16680251	26	39650	341	2								
PPP2R2A	5520	broad.mit.edu	37	chr8	26196504	26196504	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	tctttcaacaggagcaggagGtaagtgtttaaagtttattg	11	4	2	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr8:26196504G>T	ENST00000380737.3	+	3	509		c.e3+1		PPP2R2A_ENST00000523473.1_Splice_Site|PPP2R2A_ENST00000315985.7_Splice_Site	NM_002717.3	NP_002708.1	P63151	2ABA_HUMAN	protein phosphatase 2, regulatory subunit B, alpha						G2/M transition of mitotic cell cycle (GO:0000086)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope reassembly (GO:0007084)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|protein dephosphorylation (GO:0006470)|regulation of catalytic activity (GO:0050790)|response to morphine (GO:0043278)|RNA metabolic process (GO:0016070)|signal transduction (GO:0007165)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)|protein phosphatase type 2A complex (GO:0000159)	protein phosphatase type 2A regulator activity (GO:0008601)|protein serine/threonine phosphatase activity (GO:0004722)			kidney(1)|large_intestine(2)|ovary(1)	4		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)		GGAGCAGGAGGTAAGTGTTTA	0.353																																																0													97	100	99					8																	26196504		2203	4299	6502	SO:0001630	splice_region_variant	5520			M64929	CCDS34867.1, CCDS55213.1	8p21.2	2013-01-10	2010-04-14		ENSG00000221914	ENSG00000221914	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatase 2, regulatory subunits", "WD repeat domain containing"	9304	protein-coding gene	gene with protein product	"PP2A subunit B isoform alpha"	604941	"protein phosphatase 2 (formerly 2A), regulatory subunit B (PR 52), alpha isoform", "protein phosphatase 2 (formerly 2A), regulatory subunit B, alpha isoform"			1849734	Standard	NM_001177591		Approved	PR52A, PR55A, B55A		P63151	OTTHUMG00000163850	ENST00000380737.3:c.180+1G>T	8.37:g.26196504G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBU8|B4E1T7|P50409|Q00007	Splice_Site	SNP	ENST00000380737.3	37	CCDS34867.1	.	.	.	.	.	.	.	.	.	.	G	19.92	3.916025	0.73098	.	.	ENSG00000221914	ENST00000380737;ENST00000315985	.	.	.	4.93	4.93	0.64822	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	17.0703	0.86571	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	PPP2R2A	26252421	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	9.230000	0.95299	2.557000	0.86248	0.591000	0.81541	.		0.353	PPP2R2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375954.2	NM_002717	Intron	T	26196504	G	T	26196504	5	4	641	1	0	0	0	0	0	0	1	0	12394	1275	44	4	232	4	PPP2R2A	8	26196504	Splice_Site	SNP	G	TCGA-KL-8342-01A-11D-2310-10		26196504	120167518	27	39651										
GDF6	392255	bcgsc.ca	37	chr8	97172838	97172838	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	cggacgacgaggaggatgagAtggaagcctgctggaaaccg	17	8	0	1			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr8:97172838A>G	ENST00000287020.5	-	1	182	c.83T>C	c.(82-84)aTc>aCc	p.I28T		NM_001001557.2	NP_001001557.1	Q6KF10	GDF6_HUMAN	growth differentiation factor 6	28	Poly-Ser.				activin receptor signaling pathway (GO:0032924)|apoptotic process (GO:0006915)|BMP signaling pathway (GO:0030509)|growth (GO:0040007)|pathway-restricted SMAD protein phosphorylation (GO:0060389)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of pathway-restricted SMAD protein phosphorylation (GO:0010862)|positive regulation of transcription, DNA-templated (GO:0045893)|retinal cell apoptotic process (GO:1990009)	extracellular space (GO:0005615)				breast(2)|cervix(1)|endometrium(1)|large_intestine(5)|lung(12)|ovary(1)|pancreas(1)|prostate(1)|skin(3)	27	Breast(36;2.67e-05)					GGAGGATGAGATGGAAGCCTG	0.642																																																0													52	60	57					8																	97172838		2203	4300	6503	SO:0001583	missense	392255				CCDS34926.1	8q22.1	2014-01-29			ENSG00000156466	ENSG00000156466			4221	protein-coding gene	gene with protein product		601147	"segmentation syndrome 1"	SGM1		10022976, 18425797	Standard	NM_001001557		Approved	BMP13, KFS, KFS1	uc003yhp.3	Q6KF10	OTTHUMG00000164710	ENST00000287020.5:c.83T>C	8.37:g.97172838A>G	ENSP00000287020:p.Ile28Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PI58	Missense_Mutation	SNP	ENST00000287020.5	37	CCDS34926.1	.	.	.	.	.	.	.	.	.	.	A	18.96	3.734736	0.69189	.	.	ENSG00000156466	ENST00000287020;ENST00000454970;ENST00000435084	D	0.85013	-1.93	4.34	4.34	0.51931	.	8.071360	0.00639	N	0.000509	D	0.86268	0.5892	N	0.14661	0.345	0.38158	D	0.938942	D	0.69078	0.997	P	0.60789	0.879	T	0.75328	-0.3356	10	0.54805	T	0.06	.	11.0331	0.47785	1.0:0.0:0.0:0.0	.	28	Q6KF10	GDF6_HUMAN	T	28	ENSP00000287020:I28T	ENSP00000287020:I28T	I	-	2	0	GDF6	97242014	1.000000	0.71417	0.992000	0.48379	0.750000	0.42670	7.816000	0.86201	1.585000	0.49928	0.421000	0.28195	ATC		0.642	GDF6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379862.2	NM_001001557		G	97172838	A	G	97172838	3	3	641	1	0	0	0	0	1	0	0	0	6324	333	12	3	1292	3	GDF6	8	97172838	Missense_Mutation	SNP	A	TCGA-KL-8342-01A-11D-2310-10	70976334	97172838	49191184	28	39652										
FAM120A	23196	broad.mit.edu	37	chr9	96233575	96233576	+	Frame_Shift_Ins	INS	-	-	A													0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	taaaactgagccggaacgggINSaaaagtctcaccacaagcca							TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr9:96233575_96233576insA	ENST00000277165.6	+	2	821_822	c.627_628insA	c.(628-630)aaafs	p.K210fs	FAM120A_ENST00000333936.5_Frame_Shift_Ins_p.K210fs|FAM120A_ENST00000375389.3_Frame_Shift_Ins_p.K210fs|FAM120A_ENST00000340893.4_Frame_Shift_Ins_p.K210fs	NM_014612.3	NP_055427.2	Q9NZB2	F120A_HUMAN	family with sequence similarity 120A	210						cytoplasm (GO:0005737)|membrane (GO:0016020)|plasma membrane (GO:0005886)	poly(A) RNA binding (GO:0044822)			endometrium(5)|kidney(3)|large_intestine(8)|lung(12)|prostate(1)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	34						GCCGGAACGGGAAAAGTCTCAC	0.46																																																0																																										SO:0001589	frameshift_variant	23196			AF214737	CCDS6706.1, CCDS75859.1	9q22.31	2013-03-08	2006-07-04	2006-07-04	ENSG00000048828	ENSG00000048828			13247	protein-coding gene	gene with protein product	"DNA polymerase-transactivated protein 1", "oxidative stess-associated Src activator"	612265	"chromosome 9 open reading frame 10"	C9orf10		14585507	Standard	NM_001286722		Approved	KIAA0183, DNAPTP1, OSSA	uc004atw.3	Q9NZB2	OTTHUMG00000020252	ENST00000277165.6:c.631dupA	9.37:g.96233579_96233579dupA	ENSP00000277165:p.Lys210fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGU0|C4AMC6|O60649|Q14688|Q4VXF4|Q4VXF5|Q4VXG2|Q86V69|Q96I21|Q9NZB1	Frame_Shift_Ins	INS	ENST00000277165.6	37	CCDS6706.1																																																																																				0.46	FAM120A-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053160.2	NM_014612		A	96233576	-	A	96233575	7	5	641	1	0	1	1	0	0	0	0	0	5419	1161	41	0	633	0	FAM120A	9	96233575	Frame_Shift_Ins	INS	-	TCGA-KL-8342-01A-11D-2310-10		96233575	44979856	29	39653										
ZCCHC24	219654	ucsc.edu;bcgsc.ca	37	chr10	81205166	81205166	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	gggctggtacaccgaggcggCgctcgtgtcgatggccgaca	17	12	0	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr10:81205166C>T	ENST00000372336.3	-	1	217	c.31G>A	c.(31-33)Gcc>Acc	p.A11T	ZCCHC24_ENST00000372333.3_5'Flank	NM_153367.3	NP_699198.2	Q8N2G6	ZCH24_HUMAN	zinc finger, CCHC domain containing 24	11							poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|large_intestine(3)|lung(1)|skin(1)	9						ACCGAGGCGGCGCTCGTGTCG	0.741																																																0													8	9	8					10																	81205166		2142	4227	6369	SO:0001583	missense	219654			AK075279	CCDS7359.1	10q22.3	2014-02-20	2008-06-23	2008-06-23	ENSG00000165424	ENSG00000165424		"Zinc fingers, CCHC domain containing"	26911	protein-coding gene	gene with protein product	"zinc finger, 3CxxC-type 8"		"chromosome 10 open reading frame 56"	C10orf56		12477932	Standard	NM_153367		Approved	FLJ90798, Z3CXXC8	uc010qlr.2	Q8N2G6	OTTHUMG00000018561	ENST00000372336.3:c.31G>A	10.37:g.81205166C>T	ENSP00000361411:p.Ala11Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5U5T9|Q8TAG0	Missense_Mutation	SNP	ENST00000372336.3	37	CCDS7359.1	.	.	.	.	.	.	.	.	.	.	C	18.47	3.630355	0.67015	.	.	ENSG00000165424	ENST00000372336	T	0.47177	0.85	3.22	3.22	0.36961	.	.	.	.	.	T	0.29716	0.0742	N	0.17082	0.46	0.80722	D	1	B	0.09022	0.002	B	0.04013	0.001	T	0.12889	-1.0530	9	0.49607	T	0.09	-15.0989	8.6306	0.33917	0.0:0.8916:0.0:0.1084	.	11	Q8N2G6	ZCH24_HUMAN	T	11	ENSP00000361411:A11T	ENSP00000361411:A11T	A	-	1	0	ZCCHC24	80875172	1.000000	0.71417	1.000000	0.80357	0.966000	0.64601	2.636000	0.46545	1.645000	0.50612	0.313000	0.20887	GCC		0.741	ZCCHC24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048947.1	NM_153367		T	81205166	C	T	81205166	3	4	641	1	0	0	0	0	1	0	0	0	17600	768	27	1	710	1	ZCCHC24	10	81205166	Missense_Mutation	SNP	C	TCGA-KL-8342-01A-11D-2310-10		81205166	54329581	30	39654										
LDB3	11155	broad.mit.edu	37	chr10	88476140	88476140	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	attacagtcccactccctacAccccctcccctgcccctgcc	3	24	0	0	rs143163993|rs397517209		TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr10:88476140A>C	ENST00000361373.4	+	9	1309	c.1288A>C	c.(1288-1290)Acc>Ccc	p.T430P	LDB3_ENST00000263066.6_Missense_Mutation_p.T320P|LDB3_ENST00000429277.2_Missense_Mutation_p.T435P|LDB3_ENST00000352360.5_Missense_Mutation_p.T173P|LDB3_ENST00000458213.2_Missense_Mutation_p.T320P	NM_007078.2	NP_009009.1			LIM domain binding 3											breast(1)|endometrium(3)|kidney(2)|large_intestine(5)|lung(9)|ovary(3)|prostate(1)|soft_tissue(1)	25						CACTCCCTAcaccccctcccc	0.602																																																0													36	35	35					10																	88476140		2203	4300	6503	SO:0001583	missense	11155			AB014513	CCDS7377.1, CCDS41544.1, CCDS41545.1, CCDS53549.1, CCDS53550.1	10q22.3-q23.2	2014-09-17			ENSG00000122367	ENSG00000122367			15710	protein-coding gene	gene with protein product	"cypher", "oracle", "Z-band alternatively spliced PDZ motif protein"	605906	"cardiomyopathy, dilated 1C (autosomal dominant)"	CMD1C		10427098, 23271734, 23996002, 14662268	Standard	NM_001080114		Approved	PDLIM6, KIAA0613, ZASP	uc001kdv.3	O75112	OTTHUMG00000018655	ENST00000361373.4:c.1288A>C	10.37:g.88476140A>C	ENSP00000355296:p.Thr430Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000361373.4	37	CCDS7377.1	.	.	.	.	.	.	.	.	.	.	A	4.643	0.119583	0.08881	.	.	ENSG00000122367	ENST00000429277;ENST00000458213;ENST00000352360;ENST00000263066;ENST00000361373	T;T;T;T;T	0.54479	0.81;0.65;0.61;0.65;0.57	2.34	2.34	0.29019	.	0.000000	0.33401	N	0.004943	T	0.39733	0.1089	L	0.47716	1.5	0.35739	D	0.818567	D;B;D;B;B	0.59357	0.985;0.009;0.983;0.006;0.0	B;B;B;B;B	0.42319	0.336;0.009;0.383;0.01;0.0	T	0.46555	-0.9183	10	0.29301	T	0.29	.	6.4634	0.21968	1.0:0.0:0.0:0.0	.	435;367;173;430;320	B4E3K3;F5H0C2;O75112-3;O75112;O75112-2	.;.;.;LDB3_HUMAN;.	P	435;320;173;320;430	ENSP00000401437:T435P;ENSP00000409148:T320P;ENSP00000263067:T173P;ENSP00000263066:T320P;ENSP00000355296:T430P	ENSP00000263066:T320P	T	+	1	0	LDB3	88466120	0.976000	0.34144	0.833000	0.33012	0.146000	0.21551	2.252000	0.43196	1.055000	0.40461	0.240000	0.17902	ACC		0.602	LDB3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000049160.2			C	88476140	A	C	88476140	3	2	641	1	0	0	0	0	1	0	0	0	8704	159	6	5	1658	5	LDB3	10	88476140	Missense_Mutation	SNP	A	TCGA-KL-8342-01A-11D-2310-10	7270974	88476140	47058607	31	39655										
MUC6	4588	mdanderson.org	37	chr11	1016684	1016684	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	acggtgcctgttggcgttgaGtggatggaggcagaagtggc	19	6	0	2			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr11:1016684G>A	ENST00000421673.2	-	31	6167	c.6117C>T	c.(6115-6117)caC>caT	p.H2039H		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	2039	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		TTGGCGTTGAGTGGATGGAGG	0.577																																																0													547	509	522					11																	1016684		2203	4294	6497	SO:0001819	synonymous_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.6117C>T	11.37:g.1016684G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Silent	SNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.577	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1016684	G	A	1016684	2	1	641	1	0	0	0	0	0	0	0	1	9987	1020	36	2		2	MUC6	11	1016684	Silent	SNP	G	TCGA-KL-8342-01A-11D-2310-10		1016684	133989832	32	39656										
MUC5B	727897	mdanderson.org	37	chr11	1258240	1258241	+	Missense_Mutation	DNP	CA	CA	TG													0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	ccggtccgtggtgggggacgCactggagtttgggaacagct					rs79773885|rs77287508		TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr11:1258240_1258241CA>TG	ENST00000529681.1	+	25	3201_3202	c.3143_3144CA>TG	c.(3142-3144)gCA>gTG	p.A1048V	MUC5B_ENST00000447027.1_Missense_Mutation_p.A1051V	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	1048	VWFD 3. {ECO:0000255|PROSITE- ProRule:PRU00580}.				cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		GTGGGGGACGCACTGGAGTTTG	0.668																																																0																																										SO:0001583	missense	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		Exception_encountered	11.37:g.1258240_1258241delinsTG	ENSP00000436812:p.Ala1048Val	Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Silent	DNP	ENST00000529681.1	37	CCDS44515.2																																																																																				0.668	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		TG	1258241	CA	TG	1258240	3	4	641	1	0	0	0	0	1	0	0	0	9986	710	25	2	3250	2	MUC5B	11	1258240	Missense_Mutation	DNP	CA	TCGA-KL-8342-01A-11D-2310-10	241556	1258240	133748276	33	39657										
DPAGT1	1798	mdanderson.org	37	chr11	118967931	118967931	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	gtagcaagttgatgagggtcAtgttgttacattcagtgaat	12	4	2	3			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr11:118967931A>C	ENST00000409993.2	-	10	2633	c.1082T>G	c.(1081-1083)aTg>aGg	p.M361R	DPAGT1_ENST00000432443.2_Missense_Mutation_p.M254R|H2AFX_ENST00000530167.1_5'Flank|DPAGT1_ENST00000354202.4_Missense_Mutation_p.M361R			Q9H3H5	GPT_HUMAN	dolichyl-phosphate (UDP-N-acetylglucosamine) N-acetylglucosaminephosphotransferase 1 (GlcNAc-1-P transferase)	361					cellular protein metabolic process (GO:0044267)|dolichol biosynthetic process (GO:0019408)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation (GO:0006487)|protein N-linked glycosylation via asparagine (GO:0018279)|protein oligomerization (GO:0051259)|UDP-N-acetylglucosamine metabolic process (GO:0006047)	endoplasmic reticulum membrane (GO:0005789)|integral component of endoplasmic reticulum membrane (GO:0030176)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)	phospho-N-acetylmuramoyl-pentapeptide-transferase activity (GO:0008963)|transferase activity, transferring glycosyl groups (GO:0016757)|UDP-N-acetylglucosamine-dolichyl-phosphate N-acetylglucosaminephosphotransferase activity (GO:0003975)			breast(2)|endometrium(1)|kidney(2)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)|skin(2)	17	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.55e-05)		GATGAGGGTCATGTTGTTACA	0.502																																																0													311	303	306					11																	118967931		2200	4295	6495	SO:0001583	missense	1798			Z82022	CCDS8411.1	11q23.3	2007-12-14			ENSG00000172269	ENSG00000172269	2.7.8.15		2995	protein-coding gene	gene with protein product		191350		DPAGT2, DPAGT		8244387	Standard	NM_001382		Approved	GPT, D11S366, DGPT, ALG7, CDG-Ij	uc001pvi.3	Q9H3H5	OTTHUMG00000153533	ENST00000409993.2:c.1082T>G	11.37:g.118967931A>C	ENSP00000386597:p.Met361Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O15216|Q86WV9|Q9BWE6	Missense_Mutation	SNP	ENST00000409993.2	37	CCDS8411.1	.	.	.	.	.	.	.	.	.	.	A	15.61	2.884402	0.51908	.	.	ENSG00000172269	ENST00000409993;ENST00000354202;ENST00000432443	D;D;D	0.91945	-2.94;-2.94;-2.85	5.38	5.38	0.77491	.	0.036633	0.85682	D	0.000000	D	0.92257	0.7544	M	0.84948	2.725	0.80722	D	1	P;B	0.38300	0.626;0.129	B;B	0.35859	0.212;0.206	D	0.93176	0.6570	10	0.87932	D	0	-23.1756	14.3688	0.66826	1.0:0.0:0.0:0.0	.	254;361	E7EW40;Q9H3H5	.;GPT_HUMAN	R	361;361;254	ENSP00000386597:M361R;ENSP00000346142:M361R;ENSP00000404036:M254R	ENSP00000346142:M361R	M	-	2	0	DPAGT1	118473141	1.000000	0.71417	1.000000	0.80357	0.613000	0.37349	8.734000	0.91543	2.254000	0.74563	0.533000	0.62120	ATG		0.502	DPAGT1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331527.2	NM_001382		C	118967931	A	C	118967931	3	2	641	1	0	0	0	0	1	0	0	0	4712	217	8	5	152	5	DPAGT1	11	118967931	Missense_Mutation	SNP	A	TCGA-KL-8342-01A-11D-2310-10	117709691	118967931	16038585	34	39658										
DIP2B	57609	broad.mit.edu	37	chr12	51072520	51072520	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	cggcagatgacccctgtgaaAggagagcctttaggagtcat	13	9	1	4			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr12:51072520A>G	ENST00000301180.5	+	8	1009	c.975A>G	c.(973-975)aaA>aaG	p.K325K		NM_173602.2	NP_775873.2	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B (Drosophila)	325						cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	catalytic activity (GO:0003824)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(4)|large_intestine(15)|lung(18)|ovary(4)|pancreas(1)|prostate(1)|skin(6)|urinary_tract(2)	60						CCCCTGTGAAAGGAGAGCCTT	0.537																																																0													81	73	75					12																	51072520		2203	4300	6503	SO:0001819	synonymous_variant	57609			AB040896	CCDS31799.1	12q13.12	2012-10-02	2006-01-13		ENSG00000066084	ENSG00000066084			29284	protein-coding gene	gene with protein product		611379					Standard	XM_005269044		Approved	KIAA1463, FLJ34278	uc001rwv.3	Q9P265	OTTHUMG00000169475	ENST00000301180.5:c.975A>G	12.37:g.51072520A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6B011|Q8N1L5|Q8NB38	Silent	SNP	ENST00000301180.5	37	CCDS31799.1																																																																																				0.537	DIP2B-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404243.1	NM_173602		G	51072520	A	G	51072520	2	3	641	1	0	0	0	0	0	0	0	1	4530	69	3	3		3	DIP2B	12	51072520	Silent	SNP	A	TCGA-KL-8342-01A-11D-2310-10		51072520	82779375	35	39659										
ERBB3	2065	hgsc.bcm.edu;mdanderson.org	37	chr12	56491706	56491706	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	cctcctgatgataagcagctGctatacagtgaggccaaggt	11	10	0	3			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr12:56491706G>A	ENST00000267101.3	+	21	3038	c.2598G>A	c.(2596-2598)ctG>ctA	p.L866L	ERBB3_ENST00000450146.2_Silent_p.L223L|ERBB3_ENST00000415288.2_Silent_p.L807L|ERBB3_ENST00000549832.1_5'Flank|ERBB3_ENST00000553131.1_Silent_p.L107L	NM_001982.3	NP_001973.2	P21860	ERBB3_HUMAN	v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 3	866	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cranial nerve development (GO:0021545)|endocardial cushion development (GO:0003197)|epidermal growth factor receptor signaling pathway (GO:0007173)|extrinsic apoptotic signaling pathway in absence of ligand (GO:0097192)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|negative regulation of cell adhesion (GO:0007162)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of secretion (GO:0051048)|negative regulation of signal transduction (GO:0009968)|neuron apoptotic process (GO:0051402)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peripheral nervous system development (GO:0007422)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein tyrosine kinase activity (GO:0061098)|regulation of cell proliferation (GO:0042127)|Schwann cell differentiation (GO:0014037)|signal transduction (GO:0007165)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|wound healing (GO:0042060)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)|lateral plasma membrane (GO:0016328)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|growth factor binding (GO:0019838)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|protein kinase activity (GO:0004672)|protein tyrosine kinase activator activity (GO:0030296)|transmembrane signaling receptor activity (GO:0004888)			central_nervous_system(2)|lung(3)|ovary(1)|skin(1)|stomach(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			ATAAGCAGCTGCTATACAGTG	0.567																																																0													111	94	100					12																	56491706		2203	4300	6503	SO:0001819	synonymous_variant	2065			M34309	CCDS31833.1, CCDS44918.1	12q13	2013-07-09	2013-07-09			ENSG00000065361			3431	protein-coding gene	gene with protein product		190151	"lethal congenital contracture syndrome 2"	LCCS2			Standard	NM_001982		Approved	HER3	uc001sjh.3	P21860	OTTHUMG00000170140	ENST00000267101.3:c.2598G>A	12.37:g.56491706G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6L6|B4DIK7|B4DV32|E9PDT8|Q9BUD7	Silent	SNP	ENST00000267101.3	37	CCDS31833.1																																																																																				0.567	ERBB3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407619.3			A	56491706	G	A	56491706	2	1	641	1	0	0	0	0	0	0	0	1	5210	1306	46	2		2	ERBB3	12	56491706	Silent	SNP	G	TCGA-KL-8342-01A-11D-2310-10	5419186	56491706	77360189	36	39660										
GNS	2799	broad.mit.edu	37	chr12	65115476	65115476	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	atcttcacatacacagtctgGgaagcattgctgtagggata	10	8	3	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr12:65115476G>A	ENST00000258145.3	-	12	1488	c.1318C>T	c.(1318-1320)Cca>Tca	p.P440S	GNS_ENST00000543646.1_Missense_Mutation_p.P472S|GNS_ENST00000418919.2_Missense_Mutation_p.P384S|GNS_ENST00000542058.1_Missense_Mutation_p.P420S	NM_002076.3	NP_002067.1	P15586	GNS_HUMAN	glucosamine (N-acetyl)-6-sulfatase	440					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate catabolic process (GO:0042340)|keratan sulfate metabolic process (GO:0042339)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)	metal ion binding (GO:0046872)|N-acetylglucosamine-6-sulfatase activity (GO:0008449)|sulfuric ester hydrolase activity (GO:0008484)			central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(5)|liver(1)|lung(4)	15	Lung NSC(1;7.25e-14)|all_lung(1;1.25e-12)		LUAD - Lung adenocarcinoma(6;0.115)	GBM - Glioblastoma multiforme(28;0.0435)		ACACAGTCTGGGAAGCATTGC	0.418																																																0													143	120	127					12																	65115476		2203	4300	6503	SO:0001583	missense	2799				CCDS8970.1	12q14	2010-05-04	2008-08-01		ENSG00000135677	ENSG00000135677	3.1.6.14		4422	protein-coding gene	gene with protein product	"Sanfilippo disease IIID", "N-acetylglucosamine-6-sulfatase"	607664					Standard	NM_002076		Approved		uc001ssg.4	P15586	OTTHUMG00000168819	ENST00000258145.3:c.1318C>T	12.37:g.65115476G>A	ENSP00000258145:p.Pro440Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYH8|Q53F05	Missense_Mutation	SNP	ENST00000258145.3	37	CCDS8970.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	29.5|29.5	5.010550|5.010550	0.93346|0.93346	.|.	.|.	ENSG00000135677|ENSG00000135677	ENST00000540196|ENST00000418919;ENST00000258145;ENST00000543646;ENST00000542058;ENST00000539825	.|T;T;T;T	.|0.64803	.|-0.12;-0.12;-0.12;-0.12	5.71|5.71	5.71|5.71	0.89125|0.89125	.|Sulfatase (1);Alkaline-phosphatase-like, core domain (1);	0.000000|0.000000	0.85682|0.85682	D|D	0.000000|0.000000	T|T	0.78861|0.78861	0.4350|0.4350	M|M	0.69358|0.69358	2.11|2.11	0.80722|0.80722	D|D	1|1	.|P;D;P;D	.|0.89917	.|0.883;1.0;0.885;0.981	.|P;D;P;P	.|0.81914	.|0.718;0.995;0.688;0.871	T|T	0.76242|0.76242	-0.3031|-0.3031	6|9	.|.	.|.	.|.	-15.0115|-15.0115	20.2469|20.2469	0.98398|0.98398	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|420;472;440;384	.|B4DYH8;F6S8M0;P15586;Q7Z3X3	.|.;.;GNS_HUMAN;.	L|S	225|384;440;472;420;357	.|ENSP00000413130:P384S;ENSP00000258145:P440S;ENSP00000438497:P472S;ENSP00000444819:P420S	.|.	P|P	-|-	2|1	0|0	GNS|GNS	63401743|63401743	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.954000|0.954000	0.61252|0.61252	9.725000|9.725000	0.98778|0.98778	2.873000|2.873000	0.98535|0.98535	0.561000|0.561000	0.74099|0.74099	CCC|CCA		0.418	GNS-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000401195.2			A	65115476	G	A	65115476	3	1	641	1	0	0	0	0	1	0	0	0	6557	1232	43	2	352	2	GNS	12	65115476	Missense_Mutation	SNP	G	TCGA-KL-8342-01A-11D-2310-10	8623770	65115476	68736419	37	39661										
PHLDA1	22822	hgsc.bcm.edu	37	chr12	76424940	76424940	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	tgctgctgctgctgctgttgCtgctgctgctgctggtgttg	15	10	0	0	rs549868413|rs57875368|rs111754051|rs71716769|rs80344196|rs398020175	byFrequency	TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr12:76424940C>T	ENST00000266671.5	-	1	2772	c.582G>A	c.(580-582)caG>caA	p.Q194Q	PHLDA1_ENST00000602540.1_Silent_p.Q53Q|RP11-290L1.2_ENST00000547721.1_RNA|RP11-290L1.3_ENST00000552367.1_RNA			Q8WV24	PHLA1_HUMAN	pleckstrin homology-like domain, family A, member 1	194	PH.|Poly-Gln.				apoptotic process (GO:0006915)|FasL biosynthetic process (GO:0045210)|forebrain neuron differentiation (GO:0021879)|positive regulation of apoptotic process (GO:0043065)	cytoplasmic vesicle (GO:0031410)|membrane (GO:0016020)|nucleus (GO:0005634)				breast(3)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(4)|skin(1)	14		Colorectal(145;0.09)				gctgctgttgctgctgctgct	0.652																																																0													4	4	4					12																	76424940		2019	3942	5961	SO:0001819	synonymous_variant	22822			Z50194	CCDS31861.1	12q15	2008-08-05				ENSG00000139289			8933	protein-coding gene	gene with protein product	"proline-histidine rich protein"	605335				12384558, 15037619	Standard	NM_007350		Approved	TDAG51, DT1P1B11, PHRIP	uc001sxu.3	Q8WV24		ENST00000266671.5:c.582G>A	12.37:g.76424940C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A1A4G9|Q15184|Q2TAN2|Q9NZ17	Silent	SNP	ENST00000266671.5	37	CCDS31861.1																																																																																				0.652	PHLDA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000405846.2	NM_007350		T	76424940	C	T	76424940	2	4	641	1	0	0	0	0	0	0	0	1	11855	796	28	2		2	PHLDA1	12	76424940	Silent	SNP	C	TCGA-KL-8342-01A-11D-2310-10	11309464	76424940	57426955	38	39662										
NAA30	122830	broad.mit.edu	37	chr14	57863498	57863498	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	aggggaggagtgtgtaggtgCcatcgtttgcaagttggata	17	4	0	0	rs369695420		TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr14:57863498C>T	ENST00000556492.1	+	3	954	c.800C>T	c.(799-801)gCc>gTc	p.A267V	NAA30_ENST00000554703.1_Missense_Mutation_p.A9V|NAA30_ENST00000555166.1_Missense_Mutation_p.A9V	NM_001011713.2	NP_001011713.2	Q147X3	NAA30_HUMAN	N(alpha)-acetyltransferase 30, NatC catalytic subunit	267	N-acetyltransferase. {ECO:0000255|PROSITE-ProRule:PRU00532}.				metabolic process (GO:0008152)	cytoplasm (GO:0005737)|NatC complex (GO:0031417)	peptide alpha-N-acetyltransferase activity (GO:0004596)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|ovary(2)|skin(2)	13						TGTGTAGGTGCCATCGTTTGC	0.413																																																0													237	207	217					14																	57863498		2203	4300	6503	SO:0001583	missense	122830			AK092674	CCDS32088.1	14q22.2	2010-05-07	2010-01-14	2010-01-14		ENSG00000139977	2.3.1.88	"N(alpha)-acetyltransferase subunits"	19844	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 35", "N-acetyltransferase 12", "N-acetyltransferase 12 (GCN5-related, putative)"	C14orf35, NAT12		19660095	Standard	NM_001011713		Approved	FLJ35355, MAK3, Mak3p	uc001xcx.4	Q147X3		ENST00000556492.1:c.800C>T	14.37:g.57863498C>T	ENSP00000452521:p.Ala267Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q0IIN2	Missense_Mutation	SNP	ENST00000556492.1	37	CCDS32088.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	15.96|15.96	2.987974|2.987974	0.53934|0.53934	.|.	.|.	ENSG00000139977|ENSG00000139977	ENST00000555166;ENST00000556492;ENST00000554703;ENST00000395257|ENST00000298406	T;T;T|.	0.23147|.	1.92;1.92;1.92|.	5.89|5.89	5.89|5.89	0.94794|0.94794	GCN5-related N-acetyltransferase (GNAT) domain (2);Acyl-CoA N-acyltransferase (2);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.49898|0.49898	0.1584|0.1584	N|N	0.11201|0.11201	0.11|0.11	0.80722|0.80722	D|D	1|1	B|.	0.20052|.	0.041|.	B|.	0.28139|.	0.086|.	T|T	0.43261|0.43261	-0.9402|-0.9402	10|5	0.22109|.	T|.	0.4|.	-2.6585|-2.6585	20.2618|20.2618	0.98447|0.98447	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	267|.	Q147X3|.	NAA30_HUMAN|.	V|S	9;267;9;230|79	ENSP00000450939:A9V;ENSP00000452521:A267V;ENSP00000451255:A9V|.	ENSP00000298406:A267V|.	A|P	+|+	2|1	0|0	NAA30|NAA30	56933251|56933251	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.999000|0.999000	0.98932|0.98932	7.814000|7.814000	0.86154|0.86154	2.793000|2.793000	0.96121|0.96121	0.655000|0.655000	0.94253|0.94253	GCC|CCA		0.413	NAA30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412925.1	NM_001011713		T	57863498	C	T	57863498	3	4	641	1	0	0	0	0	1	0	0	0	10129	739	26	2	806	2	NAA30	14	57863498	Missense_Mutation	SNP	C	TCGA-KL-8342-01A-11D-2310-10		57863498	49486042	39	39663										
FMN1	342184	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	33359287	33359287	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	aagttggaatgacttctctcCagagacttcttttttagaag	8	7	2	3			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr15:33359287C>T	ENST00000559047.1	-	3	2043				FMN1_ENST00000561249.1_Intron|FMN1_ENST00000334528.9_Missense_Mutation_p.G267R|FMN1_ENST00000559150.1_Intron|FMN1_ENST00000558197.1_Missense_Mutation_p.G267R			Q68DA7	FMN1_HUMAN	formin 1						actin nucleation (GO:0045010)	actin filament (GO:0005884)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(3)|lung(14)|ovary(2)|prostate(1)|upper_aerodigestive_tract(3)	29		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)		GACTTCTCTCCAGAGACTTCT	0.493																																																0													76	78	77					15																	33359287		1888	4134	6022	SO:0001627	intron_variant	342184			AH002864	CCDS45209.1, CCDS61581.1, CCDS61582.1	15q13.3	2013-06-13	2005-01-20	2005-01-22	ENSG00000248905	ENSG00000248905			3768	protein-coding gene	gene with protein product	"limb deformity protein"	136535	"formin (limb deformity)"	LD, FMN		1673046	Standard	NM_001277313		Approved	DKFZP686C2281, FLJ45135, MGC125288, MGC125289	uc031qrh.1	Q68DA7	OTTHUMG00000172201	ENST00000559047.1:c.2044-2012G>A	15.37:g.33359287C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q3B7I6|Q3ZAR4|Q6ZSY1	Missense_Mutation	SNP	ENST00000559047.1	37		.	.	.	.	.	.	.	.	.	.	C	13.10	2.136600	0.37728	.	.	ENSG00000248905	ENST00000334528	T	0.40225	1.04	5.59	5.59	0.84812	.	.	.	.	.	T	0.46521	0.1397	.	.	.	.	.	.	D;D	0.56746	0.977;0.96	P;P	0.56648	0.803;0.509	T	0.51052	-0.8754	7	0.18710	T	0.47	.	9.5269	0.39169	0.0:0.8054:0.0:0.1946	.	267;267	Q68DA7-3;Q68DA7-5	.;.	R	267	ENSP00000333950:G267R	ENSP00000333950:G267R	G	-	1	0	FMN1	31146579	0.427000	0.25514	0.990000	0.47175	0.797000	0.45037	2.091000	0.41691	2.645000	0.89757	0.655000	0.94253	GGA		0.493	FMN1-005	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000417414.1	NM_001103184		T	33359287	C	T	33359287	1	4	641	0	1	0	0	0	0	0	0	0	5956	603	21	2		2	FMN1	15	33359287	Intron	SNP	C	TCGA-KL-8342-01A-11D-2310-10		33359287	69172105	40	39664										
WDR72	256764	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	53997272	53997272	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	tgtcccatcttcacagccacAtattagtttatcaagacttg	5	11	3	1			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr15:53997272A>G	ENST00000396328.1	-	11	1500	c.1261T>C	c.(1261-1263)Tgt>Cgt	p.C421R	WDR72_ENST00000360509.5_Missense_Mutation_p.C421R|WDR72_ENST00000557913.1_Missense_Mutation_p.C418R|WDR72_ENST00000559418.1_Missense_Mutation_p.C431R	NM_001277176.1|NM_182758.2	NP_001264105.1|NP_877435.3	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	421										NS(1)|breast(1)|endometrium(4)|kidney(4)|large_intestine(18)|lung(29)|prostate(3)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	71				all cancers(107;0.0511)		TCACAGCCACATATTAGTTTA	0.393																																																0													130	130	130					15																	53997272		2194	4293	6487	SO:0001583	missense	256764			BX537884	CCDS10151.1, CCDS73730.1	15q21.3	2013-01-09			ENSG00000166415	ENSG00000166415		"WD repeat domain containing"	26790	protein-coding gene	gene with protein product		613214					Standard	NM_182758		Approved	FLJ38736	uc002acj.2	Q3MJ13	OTTHUMG00000131939	ENST00000396328.1:c.1261T>C	15.37:g.53997272A>G	ENSP00000379619:p.Cys421Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z3I3|Q8N8X2	Missense_Mutation	SNP	ENST00000396328.1	37	CCDS10151.1	.	.	.	.	.	.	.	.	.	.	A	19.68	3.872904	0.72180	.	.	ENSG00000166415	ENST00000396328;ENST00000360509	T;T	0.17054	2.3;2.3	5.66	5.66	0.87406	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (2);	0.000000	0.85682	D	0.000000	T	0.43144	0.1234	M	0.78049	2.395	0.80722	D	1	D	0.76494	0.999	D	0.68192	0.956	T	0.42430	-0.9452	10	0.87932	D	0	.	15.0651	0.71986	1.0:0.0:0.0:0.0	.	421	Q3MJ13	WDR72_HUMAN	R	421	ENSP00000379619:C421R;ENSP00000353699:C421R	ENSP00000353699:C421R	C	-	1	0	WDR72	51784564	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.176000	0.77643	2.158000	0.67659	0.377000	0.23210	TGT		0.393	WDR72-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254893.2	NM_182758		G	53997272	A	G	53997272	3	3	641	1	0	0	0	0	1	0	0	0	17334	217	8	3	2087	3	WDR72	15	53997272	Missense_Mutation	SNP	A	TCGA-KL-8342-01A-11D-2310-10	20637985	53997272	48534120	41	39665										
VPS13C	54832	broad.mit.edu	37	chr15	62243167	62243167	+	Frame_Shift_Del	DEL	G	G	-													0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	tgtcagtaacattttcagaaGgggttcgtcagtcacattag							TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr15:62243167delG	ENST00000261517.5	-	40	4586	c.4513delC	c.(4513-4515)cttfs	p.L1506fs	VPS13C_ENST00000249837.3_Frame_Shift_Del_p.L1463fs|VPS13C_ENST00000395898.3_Frame_Shift_Del_p.L1463fs|VPS13C_ENST00000395896.4_Frame_Shift_Del_p.L1506fs	NM_020821.2	NP_065872.1			vacuolar protein sorting 13 homolog C (S. cerevisiae)											NS(3)|breast(4)|endometrium(4)|kidney(9)|large_intestine(26)|lung(46)|ovary(5)|prostate(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	117						ATTTTCAGAAGGGGTTCGTCA	0.289																																																0													46	46	46					15																	62243167		2202	4295	6497	SO:0001589	frameshift_variant	54832			AJ608770	CCDS10180.1, CCDS32257.1, CCDS45272.1, CCDS58367.1	15q21.3	2009-07-09	2006-04-04		ENSG00000129003	ENSG00000129003			23594	protein-coding gene	gene with protein product		608879	"vacuolar protein sorting 13C (yeast)"				Standard	NM_018080		Approved	FLJ20136, FLJ10381, KIAA1421	uc002agz.3	Q709C8	OTTHUMG00000132801	ENST00000261517.5:c.4513delC	15.37:g.62243167delG	ENSP00000261517:p.Leu1506fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000261517.5	37	CCDS32257.1																																																																																				0.289	VPS13C-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000415997.1	NM_017684		-	62243167	G	-	62243167	7	5	641	1	0	1	0	1	0	0	0	0	17203	1000	35	0	6960	0	VPS13C	15	62243167	Frame_Shift_Del	DEL	G	TCGA-KL-8342-01A-11D-2310-10	8245895	62243167	40288225	42	39666										
C15orf39	56905	broad.mit.edu	37	chr15	75503149	75503149	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	agcccactgtggccagaggtGagccagagagcctagccctg	14	13	0	3			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr15:75503149G>A	ENST00000360639.2	+	3	3156	c.2836G>A	c.(2836-2838)Gag>Aag	p.E946K	RP11-69H7.3_ENST00000563568.1_RNA|C15orf39_ENST00000567617.1_3'UTR|C15orf39_ENST00000394987.4_Missense_Mutation_p.E946K			Q6ZRI6	CO039_HUMAN	chromosome 15 open reading frame 39	946						cytoplasm (GO:0005737)				autonomic_ganglia(1)|breast(2)|endometrium(3)|large_intestine(4)|lung(4)|skin(1)|upper_aerodigestive_tract(1)	16						GGCCAGAGGTGAGCCAGAGAG	0.617																																																0													59	55	56					15																	75503149		2197	4295	6492	SO:0001583	missense	56905			AK128205	CCDS10276.1	15q23	2013-03-14	2005-10-24		ENSG00000167173	ENSG00000167173			24497	protein-coding gene	gene with protein product			"chromosome 15 open reading frame 38~Name Same As HGNC:28782"				Standard	NM_015492		Approved	DKFZP434H132, FLJ46337	uc002azq.4	Q6ZRI6	OTTHUMG00000142820	ENST00000360639.2:c.2836G>A	15.37:g.75503149G>A	ENSP00000353854:p.Glu946Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWI3|C9J888|Q71JB1|Q7L3S0|Q8N3F2|Q96FB6|Q9NTU5	Missense_Mutation	SNP	ENST00000360639.2	37	CCDS10276.1	.	.	.	.	.	.	.	.	.	.	G	15.08	2.726790	0.48833	.	.	ENSG00000167173	ENST00000360639;ENST00000394987;ENST00000446981	T;T	0.20881	2.04;2.04	4.24	3.32	0.38043	.	0.152597	0.42548	D	0.000685	T	0.30696	0.0773	L	0.32530	0.975	0.80722	D	1	D	0.67145	0.996	D	0.76071	0.987	T	0.03981	-1.0987	10	0.87932	D	0	-18.6968	8.1981	0.31409	0.111:0.0:0.889:0.0	.	946	Q6ZRI6	CO039_HUMAN	K	946;946;344	ENSP00000353854:E946K;ENSP00000378438:E946K	ENSP00000353854:E946K	E	+	1	0	C15orf39	73290202	0.978000	0.34361	0.582000	0.28627	0.232000	0.25224	1.964000	0.40462	1.135000	0.42183	0.462000	0.41574	GAG		0.617	C15orf39-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286410.1	NM_015492		A	75503149	G	A	75503149	3	1	641	1	0	0	0	0	1	0	0	0	1795	1291	45	2	2842	2	C15orf39	15	75503149	Missense_Mutation	SNP	G	TCGA-KL-8342-01A-11D-2310-10	13259982	75503149	27028243	43	39667										
ADAMTS7	11173	hgsc.bcm.edu	37	chr15	79058942	79058944	+	In_Frame_Del	DEL	GCA	GCA	-													0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	cggggctacccgtggagggcGcagcaggatggctgtgtggt					rs529497330|rs201562030|rs543268667	byFrequency	TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	GCA	GCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr15:79058942_79058944delGCA	ENST00000388820.4	-	19	3519_3521	c.3309_3311delTGC	c.(3307-3312)gctgcg>gcg	p.1103_1104AA>A	ADAMTS7_ENST00000566303.1_5'Flank	NM_014272.3	NP_055087.2	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 7	1103					cellular response to BMP stimulus (GO:0071773)|cellular response to interleukin-1 (GO:0071347)|cellular response to tumor necrosis factor (GO:0071356)|negative regulation of chondrocyte differentiation (GO:0032331)|proteolysis involved in cellular protein catabolic process (GO:0051603)	cell surface (GO:0009986)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(2)|lung(23)|ovary(1)|prostate(8)|skin(9)	54						CGTGGAGGGCGCAGCAGGATGGC	0.675																																																0																																										SO:0001651	inframe_deletion	11173			AF140675	CCDS32303.1	15q25.1	2012-05-16	2005-08-19		ENSG00000136378	ENSG00000136378		"ADAM metallopeptidases with thrombospondin type 1 motif"	223	protein-coding gene	gene with protein product	"COMPase", "a disintegrin and metalloprotease with thrombospondin motifs-7 preproprotein"	605009	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 7"			10464288	Standard	NM_014272		Approved	ADAM-TS7, DKFZp434H204	uc002bej.4	Q9UKP4	OTTHUMG00000172907	ENST00000388820.4:c.3309_3311delTGC	15.37:g.79058945_79058947delGCA	ENSP00000373472:p.Ala1104del	Somatic		WXS	Illumina HiSeq	Phase_I	Q14F51|Q6P7J9	In_Frame_Del	DEL	ENST00000388820.4	37	CCDS32303.1																																																																																				0.675	ADAMTS7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000421331.1	NM_014272		-	79058944	GCA	-	79058942	7	5	641	1	0	1	0	1	0	0	0	0	271	1087	38	0	1773	0	ADAMTS7	15	79058942	In_Frame_Del	DEL	GCA	TCGA-KL-8342-01A-11D-2310-10	3555793	79058942	23472450	44	39668										
ADAMTS17	170691	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr15	100672306	100672306	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	ccacgggctccagtctccgtCcacatgctccgggatgggcg	13	16	1	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr15:100672306C>T	ENST00000268070.4	-	12	1732	c.1627G>A	c.(1627-1629)Gac>Aac	p.D543N	RP11-90E5.1_ENST00000560128.1_RNA	NM_139057.2	NP_620688.2	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 17	543	TSP type-1 1. {ECO:0000255|PROSITE- ProRule:PRU00210}.					proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(11)|lung(24)|ovary(3)|prostate(2)	50	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)		CAGTCTCCGTCCACATGCTCC	0.667											OREG0023513	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													35	37	36					15																	100672306		2203	4300	6503	SO:0001583	missense	170691			AJ315735	CCDS10383.1	15q24	2014-01-28	2005-08-19		ENSG00000140470	ENSG00000140470		"ADAM metallopeptidases with thrombospondin type 1 motif"	17109	protein-coding gene	gene with protein product		607511	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 17"			11867212	Standard	NM_139057		Approved	FLJ32769, FLJ16363	uc002bvv.1	Q8TE56	OTTHUMG00000149867	ENST00000268070.4:c.1627G>A	15.37:g.100672306C>T	ENSP00000268070:p.Asp543Asn	Somatic	1353	WXS	Illumina HiSeq	Phase_I	Q2I7G4|Q6ZN75	Missense_Mutation	SNP	ENST00000268070.4	37	CCDS10383.1	.	.	.	.	.	.	.	.	.	.	C	25.5	4.649654	0.87958	.	.	ENSG00000140470	ENST00000268070;ENST00000378898	T	0.20069	2.1	5.24	5.24	0.73138	.	0.000000	0.85682	D	0.000000	T	0.33498	0.0865	L	0.45581	1.43	0.80722	D	1	P;D	0.59767	0.731;0.986	B;P	0.53266	0.371;0.722	T	0.02301	-1.1180	10	0.48119	T	0.1	.	18.8106	0.92056	0.0:1.0:0.0:0.0	.	300;543	Q8TE56-2;Q8TE56	.;ATS17_HUMAN	N	543;300	ENSP00000268070:D543N	ENSP00000268070:D543N	D	-	1	0	ADAMTS17	98489829	1.000000	0.71417	0.998000	0.56505	0.822000	0.46500	7.194000	0.77789	2.423000	0.82170	0.561000	0.74099	GAC		0.667	ADAMTS17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313595.1	NM_139057		T	100672306	C	T	100672306	3	4	641	1	0	0	0	0	1	0	0	0	262	855	30	2	1704	2	ADAMTS17	15	100672306	Missense_Mutation	SNP	C	TCGA-KL-8342-01A-11D-2310-10	21613364	100672306	1859086	45	39669										
TSC2	7249	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	2129290	2129290	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	cttctaggtctcctgtgggcGagttcctcctagcgggtggc	14	12	2	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr16:2129290G>A	ENST00000219476.3	+	28	3775	c.3145G>A	c.(3145-3147)Gag>Aag	p.E1049K	TSC2_ENST00000401874.2_Missense_Mutation_p.E1005K|TSC2_ENST00000382538.6_Missense_Mutation_p.E957K|TSC2_ENST00000439673.2_Missense_Mutation_p.E969K|TSC2_ENST00000350773.4_Missense_Mutation_p.E1049K|TSC2_ENST00000353929.4_Missense_Mutation_p.E1006K|TSC2_ENST00000568366.1_3'UTR|TSC2_ENST00000568454.1_Missense_Mutation_p.E1016K	NM_000548.3	NP_000539.2	P49815	TSC2_HUMAN	tuberous sclerosis 2	1049					acute-phase response (GO:0006953)|cell cycle arrest (GO:0007050)|cell projection organization (GO:0030030)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|insulin-like growth factor receptor signaling pathway (GO:0048009)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of TOR signaling (GO:0032007)|negative regulation of Wnt signaling pathway (GO:0030178)|neural tube closure (GO:0001843)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol-mediated signaling (GO:0048015)|positive chemotaxis (GO:0050918)|positive regulation of Ras GTPase activity (GO:0032320)|protein heterooligomerization (GO:0051291)|protein homooligomerization (GO:0051260)|protein import into nucleus (GO:0006606)|protein kinase B signaling (GO:0043491)|protein localization (GO:0008104)|regulation of cell cycle (GO:0051726)|regulation of endocytosis (GO:0030100)|regulation of insulin receptor signaling pathway (GO:0046626)|response to hypoxia (GO:0001666)|vesicle-mediated transport (GO:0016192)	caveola (GO:0005901)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|Golgi apparatus (GO:0005794)|growth cone (GO:0030426)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|TSC1-TSC2 complex (GO:0033596)	GTPase activator activity (GO:0005096)|phosphatase binding (GO:0019902)|protein homodimerization activity (GO:0042803)			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(4)|cervix(2)|endometrium(8)|kidney(2)|large_intestine(3)|lung(19)|ovary(2)|pancreas(1)|prostate(2)|skin(7)|soft_tissue(1)	56		Hepatocellular(780;0.0202)				TCCTGTGGGCGAGTTCCTCCT	0.637			"D, Mis, N, F, S"			"hamartoma, renal cell"			Tuberous Sclerosis																													yes	Rec		Tuberous sclerosis 2	16	16p13.3	7249	tuberous sclerosis 2 gene		"E, O"	0													90	79	83					16																	2129290		2197	4300	6497	SO:0001583	missense	7249	Familial Cancer Database	TS, Tuberous Sclerosis Complex, TSC, Bourneville-Pringle disease	AB014460	CCDS10458.1, CCDS45384.1, CCDS58408.1	16p13.3	2014-09-17			ENSG00000103197	ENSG00000103197			12363	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 160"	191092		TSC4		1303246, 7558029	Standard	NM_001077183		Approved	tuberin, LAM, PPP1R160	uc002con.3	P49815	OTTHUMG00000128745	ENST00000219476.3:c.3145G>A	16.37:g.2129290G>A	ENSP00000219476:p.Glu1049Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2E2|B4DIL8|B4DIQ7|B4DRN2|B7Z2B8|C9J378|O75275|Q4LE71|Q8TAZ1	Missense_Mutation	SNP	ENST00000219476.3	37	CCDS10458.1	.	.	.	.	.	.	.	.	.	.	G	24.8	4.570729	0.86542	.	.	ENSG00000103197	ENST00000219476;ENST00000401874;ENST00000353929;ENST00000439673;ENST00000382538;ENST00000350773	D;D;D;D;D	0.92048	-2.74;-2.89;-2.96;-2.95;-2.71	4.71	4.71	0.59529	.	0.000000	0.85682	D	0.000000	D	0.95010	0.8385	L	0.58583	1.82	0.80722	D	1	D;P;D;D;D;D	0.89917	0.998;0.882;0.999;0.999;1.0;0.997	P;B;D;D;D;D	0.71414	0.905;0.411;0.956;0.956;0.973;0.955	D	0.95539	0.8610	10	0.72032	D	0.01	-28.7175	18.0348	0.89296	0.0:0.0:1.0:0.0	.	957;969;1049;1005;1005;1049	B4DIL8;P49815-6;P49815-4;P49815-3;P49815-5;P49815	.;.;.;.;.;TSC2_HUMAN	K	1049;1006;1006;969;957;1049	ENSP00000219476:E1049K;ENSP00000248099:E1006K;ENSP00000399232:E969K;ENSP00000371978:E957K;ENSP00000344383:E1049K	ENSP00000219476:E1049K	E	+	1	0	TSC2	2069291	1.000000	0.71417	0.971000	0.41717	0.695000	0.40330	7.616000	0.83018	2.339000	0.79563	0.561000	0.74099	GAG		0.637	TSC2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000250657.2	NM_000548		A	2129290	G	A	2129290	3	1	641	1	0	0	0	0	1	0	0	0	16618	1059	37	1	3251	1	TSC2	16	2129290	Missense_Mutation	SNP	G	TCGA-KL-8342-01A-11D-2310-10		2129290	88225463	46	39670										
CPPED1	55313	mdanderson.org	37	chr16	12875238	12875238	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	cccaggatgaagtagaatggGcctttccattcgctttcctt	9	11	0	2			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr16:12875238G>A	ENST00000381774.4	-	2	333	c.93C>T	c.(91-93)ggC>ggT	p.G31G	CPPED1_ENST00000261660.4_Silent_p.G31G|CPPED1_ENST00000433677.2_Silent_p.G31G	NM_018340.2	NP_060810.2	Q9BRF8	CPPED_HUMAN	calcineurin-like phosphoesterase domain containing 1	31						cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	metal ion binding (GO:0046872)|phosphoprotein phosphatase activity (GO:0004721)			cervix(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(10)|skin(1)|urinary_tract(1)	18						AGTAGAATGGGCCTTTCCATT	0.478																																																0													65	64	64					16																	12875238		1929	4120	6049	SO:0001819	synonymous_variant	55313			AK022710	CCDS42119.1, CCDS42120.1	16p13.12	2014-02-12	2009-03-13		ENSG00000103381	ENSG00000103381			25632	protein-coding gene	gene with protein product	"complete S transactivated protein 1"	615603				12477932	Standard	NM_018340		Approved	CSTP1, FLJ11151	uc002dca.4	Q9BRF8	OTTHUMG00000167711	ENST00000381774.4:c.93C>T	16.37:g.12875238G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DQ68|Q6MZY9|Q9H9M9|Q9NUT6	Silent	SNP	ENST00000381774.4	37	CCDS42120.1																																																																																				0.478	CPPED1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395795.2	NM_018340		A	12875238	G	A	12875238	2	1	641	1	0	0	0	0	0	0	0	1	3824	1190	42	2		2	CPPED1	16	12875238	Silent	SNP	G	TCGA-KL-8342-01A-11D-2310-10	10745948	12875238	77479515	47	39671										
ERCC4	2072	broad.mit.edu	37	chr16	14041897	14041897	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	aacggcggagttgtttgaggAgctgaaacaaagcaagccac	13	8	0	2			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr16:14041897A>T	ENST00000311895.7	+	11	2453	c.2444A>T	c.(2443-2445)gAg>gTg	p.E815V		NM_005236.2	NP_005227.1	Q92889	XPF_HUMAN	excision repair cross-complementation group 4	815					DNA catabolic process, endonucleolytic (GO:0000737)|DNA repair (GO:0006281)|double-strand break repair via homologous recombination (GO:0000724)|negative regulation of telomere maintenance (GO:0032205)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair involved in interstrand cross-link repair (GO:1901255)|nucleotide-excision repair, DNA damage removal (GO:0000718)|nucleotide-excision repair, DNA incision (GO:0033683)|nucleotide-excision repair, DNA incision, 3'-to lesion (GO:0006295)|nucleotide-excision repair, DNA incision, 5'-to lesion (GO:0006296)|resolution of meiotic recombination intermediates (GO:0000712)|response to UV (GO:0009411)|telomere maintenance (GO:0000723)|telomere maintenance via telomere shortening (GO:0010834)|transcription-coupled nucleotide-excision repair (GO:0006283)|UV protection (GO:0009650)	chromosome, telomeric region (GO:0000781)|nuclear chromosome, telomeric region (GO:0000784)|nucleoplasm (GO:0005654)|nucleotide-excision repair complex (GO:0000109)|nucleotide-excision repair factor 1 complex (GO:0000110)|nucleus (GO:0005634)|transcription factor TFIID complex (GO:0005669)	damaged DNA binding (GO:0003684)|endodeoxyribonuclease activity (GO:0004520)|protein C-terminus binding (GO:0008022)|protein N-terminus binding (GO:0047485)|single-stranded DNA binding (GO:0003697)|single-stranded DNA endodeoxyribonuclease activity (GO:0000014)			NS(1)|breast(1)|endometrium(7)|kidney(3)|large_intestine(5)|lung(12)|ovary(4)|pancreas(1)|prostate(1)|skin(3)	38						TTGTTTGAGGAGCTGAAACAA	0.507			"Mis, N, F"			"skin basal cell, skin squamous cell, melanoma"		Nucleotide excision repair (NER)	Xeroderma Pigmentosum																													yes	Rec		Xeroderma pigmentosum (F)	16	16p13.3-p13.13	2072	"excision repair cross-complementing rodent repair deficiency, complementation group 4"		E	0													50	49	49					16																	14041897		2197	4300	6497	SO:0001583	missense	2072	Familial Cancer Database	incl. XPA, XPB, XPC, XPD, XPE, XPF, XPG, XP Variant, XPV	L76568	CCDS32390.1	16p13.3	2014-09-17	2014-03-07		ENSG00000175595	ENSG00000175595			3436	protein-coding gene	gene with protein product	"xeroderma pigmentosum, complementation group F"	133520	"excision repair cross-complementing rodent repair deficiency, complementation group 4"	XPF		9579555, 8887684	Standard	NM_005236		Approved	RAD1, FANCQ	uc002dce.2	Q92889	OTTHUMG00000048194	ENST00000311895.7:c.2444A>T	16.37:g.14041897A>T	ENSP00000310520:p.Glu815Val	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKV6|A8K111|O00140|Q8TD83	Missense_Mutation	SNP	ENST00000311895.7	37	CCDS32390.1	.	.	.	.	.	.	.	.	.	.	A	28.2	4.897569	0.91962	.	.	ENSG00000175595	ENST00000311895;ENST00000389138	T	0.29142	1.58	6.16	5.07	0.68467	DNA repair nuclease, XPF-type/Helicase (1);Restriction endonuclease, type II-like (1);	0.094649	0.64402	D	0.000001	T	0.54062	0.1835	M	0.81179	2.53	0.80722	D	1	D	0.76494	0.999	D	0.64595	0.927	T	0.57785	-0.7751	10	0.56958	D	0.05	-24.7225	11.8141	0.52199	0.932:0.0:0.068:0.0	.	815	Q92889	XPF_HUMAN	V	815;803	ENSP00000310520:E815V	ENSP00000310520:E815V	E	+	2	0	ERCC4	13949398	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	6.925000	0.75829	1.143000	0.42306	0.528000	0.53228	GAG		0.507	ERCC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109634.2	NM_005236		T	14041897	A	T	14041897	3	4	641	1	0	0	0	0	1	0	0	0	5217	304	11	5	2486	5	ERCC4	16	14041897	Missense_Mutation	SNP	A	TCGA-KL-8342-01A-11D-2310-10	1166659	14041897	76312856	48	39672										
ERN2	10595	broad.mit.edu	37	chr16	23716452	23716452	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	agcaggcccatcccgcaggaCgccaggtggctcatgtctgc	13	15	2	0	rs373918514		TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr16:23716452C>T	ENST00000457008.2	-	8	644	c.606G>A	c.(604-606)gcG>gcA	p.A202A	ERN2_ENST00000256797.4_Silent_p.A250A					endoplasmic reticulum to nucleus signaling 2											large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		TCCCGCAGGACGCCAGGTGGC	0.642																																																0								C		0,4394		0,0,2197	42	41	41		750	-6.7	1	16		41	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	ERN2	NM_033266.3		0,1,6496	TT,TC,CC		0.0116,0.0,0.0077		250/975	23716452	1,12993	2197	4300	6497	SO:0001819	synonymous_variant	10595			AA527544	CCDS32407.1	16p12.2	2008-02-05	2007-08-14			ENSG00000134398			16942	protein-coding gene	gene with protein product		604034	"ER to nucleus signalling 2"			9755171, 11175748	Standard	NM_033266		Approved	IRE1b	uc002dma.4	Q76MJ5		ENST00000457008.2:c.606G>A	16.37:g.23716452C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000457008.2	37																																																																																					0.642	ERN2-002	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000434886.1			T	23716452	C	T	23716452	2	4	641	1	0	0	0	0	0	0	0	1	5240	523	19	1		1	ERN2	16	23716452	Silent	SNP	C	TCGA-KL-8342-01A-11D-2310-10	9674555	23716452	66638301	49	39673										
SLC9A5	6553	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr16	67293560	67293560	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	cagaaacttctgtcaccaacCtgctgtgagtccttgagccc	8	14	2	3	rs575139681		TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr16:67293560C>A	ENST00000299798.11	+	11	1776	c.1711C>A	c.(1711-1713)Ctg>Atg	p.L571M	CTC-277H1.7_ENST00000573063.1_RNA	NM_004594.2	NP_004585.1	Q14940	SL9A5_HUMAN	solute carrier family 9, subfamily A (NHE5, cation proton antiporter 5), member 5	571					ion transport (GO:0006811)|regulation of pH (GO:0006885)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	sodium:proton antiporter activity (GO:0015385)			breast(1)|cervix(1)|endometrium(5)|kidney(4)|large_intestine(3)|lung(9)|ovary(2)|pancreas(1)|prostate(1)	27		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		TGTCACCAACCTGCTGTGAGT	0.547																																																0													78	81	80					16																	67293560		2064	4212	6276	SO:0001583	missense	6553				CCDS42178.1	16q22.1	2013-05-22	2012-03-22		ENSG00000135740	ENSG00000135740		"Solute carriers"	11078	protein-coding gene	gene with protein product		600477	"solute carrier family 9 (sodium/hydrogen exchanger), isoform 5", "solute carrier family 9 (sodium/hydrogen exchanger), member 5"			7759094, 9933642	Standard	NM_004594		Approved	NHE5	uc002esm.3	Q14940	OTTHUMG00000172935	ENST00000299798.11:c.1711C>A	16.37:g.67293560C>A	ENSP00000299798:p.Leu571Met	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKY7|Q9Y626	Missense_Mutation	SNP	ENST00000299798.11	37	CCDS42178.1	.	.	.	.	.	.	.	.	.	.	C	17.18	3.325050	0.60634	.	.	ENSG00000135740	ENST00000299798;ENST00000360183	T	0.59083	0.29	4.82	3.87	0.44632	.	0.379430	0.25040	N	0.033618	T	0.66790	0.2825	L	0.50333	1.59	0.38161	D	0.939038	D;P	0.71674	0.998;0.94	D;P	0.63381	0.914;0.459	T	0.71666	-0.4524	10	0.56958	D	0.05	.	12.565	0.56304	0.0:0.9194:0.0:0.0806	.	59;571	F8WDV9;Q14940	.;SL9A5_HUMAN	M	571;59	ENSP00000299798:L571M	ENSP00000299798:L571M	L	+	1	2	SLC9A5	65851061	1.000000	0.71417	1.000000	0.80357	0.892000	0.51952	2.945000	0.49043	1.408000	0.46895	-0.379000	0.06801	CTG		0.547	SLC9A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000421386.1			A	67293560	C	A	67293560	3	1	641	1	0	0	0	0	1	0	0	0	14730	680	24	4	1753	4	SLC9A5	16	67293560	Missense_Mutation	SNP	C	TCGA-KL-8342-01A-11D-2310-10	43577108	67293560	23061193	50	39674										
HYDIN	54768	mdanderson.org	37	chr16	71163579	71163579	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	aaaacgttattgaagaacagCttgctgtctccctgcaccag	8	11	1	2	rs929311	byFrequency	TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr16:71163579C>T	ENST00000393567.2	-	9	1341	c.1191G>A	c.(1189-1191)aaG>aaA	p.K397K	HYDIN_ENST00000448089.2_Silent_p.K397K|HYDIN_ENST00000541601.1_Silent_p.K414K|HYDIN_ENST00000538248.1_Silent_p.K424K|HYDIN_ENST00000288168.10_Silent_p.K414K|HYDIN_ENST00000393550.2_Silent_p.K397K|HYDIN_ENST00000448691.1_Silent_p.K397K|HYDIN_ENST00000321489.5_Silent_p.K397K	NM_001270974.1	NP_001257903.1	Q4G0P3	HYDIN_HUMAN	HYDIN, axonemal central pair apparatus protein	397					cilium assembly (GO:0042384)|cilium movement (GO:0003341)|epithelial cell development (GO:0002064)|trachea development (GO:0060438)|ventricular system development (GO:0021591)	cell projection (GO:0042995)				breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(17)|lung(12)|ovary(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)	43		Ovarian(137;0.0654)				TGAAGAACAGCTTGCTGTCTC	0.453																																																0													62	60	61					16																	71163579		2198	4300	6498	SO:0001819	synonymous_variant	54768			AK074472	CCDS10897.1, CCDS56004.1, CCDS56005.1, CCDS59269.1	16q22.2	2014-02-05	2012-01-06		ENSG00000157423	ENSG00000157423		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	19368	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 31"	610812	"hydrocephalus inducing", "hydrocephalus inducing homolog (mouse)"			12719380, 23022101	Standard	NM_001198542		Approved	DKFZp434D0513, KIAA1864, PPP1R31, CILD5	uc031qwy.1	Q4G0P3	OTTHUMG00000137584	ENST00000393567.2:c.1191G>A	16.37:g.71163579C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NC70|A6NLZ0|B4DQY4|B4DRN4|F5H6V3|Q8N3H8|Q8N3P6|Q8TC08|Q96JG3|Q96SS4|Q9H5U3|Q9H9B8|Q9NTI0|Q9UBE5	Silent	SNP	ENST00000393567.2	37	CCDS59269.1																																																																																				0.453	HYDIN-001	PUTATIVE	not_organism_supported|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000398624.3			T	71163579	C	T	71163579	2	4	641	1	0	0	0	0	0	0	0	1	7474	796	28	2		2	HYDIN	16	71163579	Silent	SNP	C	TCGA-KL-8342-01A-11D-2310-10	3870019	71163579	19191174	51	39675										
SOCS7	30837	ucsc.edu	37	chr17	36552111	36552111	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	tttttcacagacctctgatcTcttatatccgaaagttctac	4	11	4	2			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr17:36552111T>C	ENST00000577233.1	+	9	1636	c.1636T>C	c.(1636-1638)Tct>Cct	p.S546P	SOCS7_ENST00000331159.5_Missense_Mutation_p.S512P	NM_014598.2	NP_055413.1	O14512	SOCS7_HUMAN	suppressor of cytokine signaling 7	546	SOCS box. {ECO:0000255|PROSITE- ProRule:PRU00194}.				fat cell differentiation (GO:0045444)|insulin receptor signaling pathway (GO:0008286)|intracellular signal transduction (GO:0035556)|negative regulation of signal transduction (GO:0009968)|protein ubiquitination (GO:0016567)|regulation of growth (GO:0040008)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	SH3 domain binding (GO:0017124)			central_nervous_system(1)|endometrium(1)|kidney(1)|prostate(1)|skin(5)	9	Breast(7;3.47e-17)					ACCTCTGATCTCTTATATCCG	0.383																																																0													56	58	57					17																	36552111		2203	4300	6503	SO:0001583	missense	30837			AB005216	CCDS32637.1	17q12	2014-08-12			ENSG00000274211	ENSG00000274211		"Suppressors of cytokine signaling", "SH2 domain containing"	29846	protein-coding gene	gene with protein product	"Nck, Ash and phospholipase C binding protein", "NCK-associated protein 4"	608788				9344857, 12076535	Standard	XM_005257264		Approved	NAP4, NCKAP4	uc002hqa.3	O14512	OTTHUMG00000188546	ENST00000577233.1:c.1636T>C	17.37:g.36552111T>C	ENSP00000464034:p.Ser546Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A2VCU2|Q0IJ63	Missense_Mutation	SNP	ENST00000577233.1	37	CCDS32637.1	.	.	.	.	.	.	.	.	.	.	T	11.56	1.674151	0.29693	.	.	ENSG00000174111	ENST00000331159	T	0.47177	0.85	5.93	4.85	0.62838	SOCS protein, C-terminal (4);	0.317412	0.30365	N	0.009799	T	0.58666	0.2138	L	0.58810	1.83	0.44816	D	0.99782	P;D	0.61697	0.773;0.99	P;P	0.60117	0.53;0.869	T	0.56798	-0.7919	10	0.39692	T	0.17	-10.0184	11.323	0.49433	0.1436:0.0:0.0:0.8564	.	262;546	B5MDS8;O14512	.;SOCS7_HUMAN	P	546	ENSP00000330659:S546P	ENSP00000330659:S546P	S	+	1	0	SOCS7	33805637	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	2.120000	0.41968	1.050000	0.40346	0.533000	0.62120	TCT		0.383	SOCS7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440486.4	XM_371052		C	36552111	T	C	36552111	3	2	641	1	0	0	0	0	1	0	0	0	14932	1551	54	3	1670	3	SOCS7	17	36552111	Missense_Mutation	SNP	T	TCGA-KL-8342-01A-11D-2310-10		36552111	44643099	52	39676										
KRT17	3872	mdanderson.org	37	chr17	39775939	39775939	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	cgcacctgacgggtggtcacCgctgcaggagaagcaggcaa	15	12	1	2			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr17:39775939C>T	ENST00000311208.8	-	8	1273	c.1206G>A	c.(1204-1206)ccG>ccA	p.P402P	JUP_ENST00000540235.1_Splice_Site_p.P561P	NM_000422.2	NP_000413.1	Q04695	K1C17_HUMAN	keratin 17	402	Tail.			LTQYKKEPVT -> FRMSESSPVS (in Ref. 4; AC022596). {ECO:0000305}.	epidermis development (GO:0008544)|intermediate filament organization (GO:0045109)|keratinization (GO:0031424)|morphogenesis of an epithelium (GO:0002009)|positive regulation of cell growth (GO:0030307)|positive regulation of hair follicle development (GO:0051798)|positive regulation of translation (GO:0045727)|signal transduction (GO:0007165)	cell periphery (GO:0071944)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)	MHC class II protein binding (GO:0042289)|MHC class II receptor activity (GO:0032395)|structural constituent of cytoskeleton (GO:0005200)			central_nervous_system(1)|endometrium(2)|large_intestine(2)|lung(5)|ovary(1)|skin(1)	12		Breast(137;0.000307)				GGGTGGTCACCGCTGCAGGAG	0.627																																					Pancreas(92;1242 2086 39193 50508)											0													67	65	66					17																	39775939		2203	4300	6503	SO:0001630	splice_region_variant	3872			X62571	CCDS11402.1	17q21.2	2014-06-12			ENSG00000128422	ENSG00000128422		"-", "Intermediate filaments type I, keratins (acidic)"	6427	protein-coding gene	gene with protein product		148069		PCHC1		7539673, 1281771, 16831889	Standard	NM_000422		Approved		uc002hxh.2	Q04695	OTTHUMG00000133505	ENST00000311208.8:c.1205-1G>A	17.37:g.39775939C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A5Z1M9|A5Z1N0|A5Z1N1|A5Z1N2|A6NDV6|A6NKQ2|Q6IP98|Q8N1P6	Silent	SNP	ENST00000311208.8	37	CCDS11402.1																																																																																				0.627	KRT17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257460.1	NM_000422	Silent	T	39775939	C	T	39775939	5	4	641	1	0	0	0	0	0	0	1	0	8461	666	23	1	96	1	KRT17	17	39775939	Splice_Site	SNP	C	TCGA-KL-8342-01A-11D-2310-10	3223828	39775939	41419271	53	39677										
BECN1	8678	broad.mit.edu	37	chr17	40970314	40970314	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	ctgccactatcttgcggttcTtttccacgtcttccagctcc	6	16	3	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr17:40970314T>C	ENST00000361523.4	-	7	740	c.608A>G	c.(607-609)aAg>aGg	p.K203R	BECN1_ENST00000590099.1_Missense_Mutation_p.K203R|BECN1_ENST00000438274.3_Missense_Mutation_p.K127R	NM_003766.3	NP_003757.1	Q14457	BECN1_HUMAN	beclin 1, autophagy related	203					autophagic vacuole assembly (GO:0000045)|beta-amyloid metabolic process (GO:0050435)|cellular defense response (GO:0006968)|cellular response to aluminum ion (GO:0071275)|cellular response to epidermal growth factor stimulus (GO:0071364)|cytokinesis (GO:0000910)|defense response to virus (GO:0051607)|lysosome organization (GO:0007040)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|neuron development (GO:0048666)|positive regulation of macroautophagy (GO:0016239)|regulation of catalytic activity (GO:0050790)|response to drug (GO:0042493)|response to hypoxia (GO:0001666)|response to vitamin E (GO:0033197)|viral process (GO:0016032)	dendrite (GO:0030425)|membrane (GO:0016020)|nucleus (GO:0005634)|phagocytic vesicle (GO:0045335)|protein complex (GO:0043234)|trans-Golgi network (GO:0005802)				haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(5)|ovary(1)|skin(1)	13		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0745)		CTTGCGGTTCTTTTCCACGTC	0.507																																																0													229	209	216					17																	40970314		2203	4300	6503	SO:0001583	missense	8678			AF077301	CCDS11441.1	17q21	2014-02-12	2008-01-14		ENSG00000126581	ENSG00000126581			1034	protein-coding gene	gene with protein product	"ATG6 autophagy related 6 homolog (S. cerevisiae)"	604378	"beclin 1 (coiled-coil, moesin-like BCL2 interacting protein)"			9765397	Standard	NM_003766		Approved	ATG6, VPS30	uc002ibn.2	Q14457		ENST00000361523.4:c.608A>G	17.37:g.40970314T>C	ENSP00000355231:p.Lys203Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6N7|O75595|Q9UNA8	Missense_Mutation	SNP	ENST00000361523.4	37	CCDS11441.1	.	.	.	.	.	.	.	.	.	.	T	11.37	1.618875	0.28801	.	.	ENSG00000126581	ENST00000361523;ENST00000438274;ENST00000543382	T;T	0.46451	0.87;2.47	6.03	4.96	0.65561	.	0.204155	0.52532	N	0.000063	T	0.31071	0.0785	L	0.39147	1.195	0.20074	N	0.999932	B;B	0.14438	0.01;0.002	B;B	0.19666	0.026;0.016	T	0.23833	-1.0177	10	0.13853	T	0.58	.	9.0798	0.36545	0.0:0.1392:0.0:0.8608	.	127;203	E7EV84;Q14457	.;BECN1_HUMAN	R	203;127;116	ENSP00000355231:K203R;ENSP00000416173:K127R	ENSP00000355231:K203R	K	-	2	0	BECN1	38223840	1.000000	0.71417	1.000000	0.80357	0.718000	0.41266	2.320000	0.43797	1.109000	0.41680	0.533000	0.62120	AAG		0.507	BECN1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452405.1	NM_003766		C	40970314	T	C	40970314	3	2	641	1	0	0	0	0	1	0	0	0	1396	1609	56	3	768	3	BECN1	17	40970314	Missense_Mutation	SNP	T	TCGA-KL-8342-01A-11D-2310-10	1194375	40970314	40224896	54	39678										
PLEKHM1	9842	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	43531447	43531447	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	gaccagctcaaagcgcccatCactatgggctggccccacag	10	16	2	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr17:43531447C>G	ENST00000430334.3	-	7	1904	c.1771G>C	c.(1771-1773)Gat>Cat	p.D591H	AC091132.1_ENST00000433601.1_RNA|PLEKHM1_ENST00000421073.2_Missense_Mutation_p.D502H	NM_014798.2	NP_055613.1	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M (with RUN domain) member 1	591	PH 1. {ECO:0000255|PROSITE- ProRule:PRU00145}.				intracellular signal transduction (GO:0035556)	cytoplasm (GO:0005737)	metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(6)|large_intestine(1)|lung(10)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	26	Renal(3;0.0405)					AAGCGCCCATCACTATGGGCT	0.647																																																0													48	45	46					17																	43531447		2203	4300	6503	SO:0001583	missense	9842			X85792	CCDS32671.1	17q21.31	2013-01-11				ENSG00000225190		"Pleckstrin homology (PH) domain containing"	29017	protein-coding gene	gene with protein product		611466				9205841, 12820725	Standard	NM_014798		Approved	KIAA0356	uc002ija.3	Q9Y4G2		ENST00000430334.3:c.1771G>C	17.37:g.43531447C>G	ENSP00000389913:p.Asp591His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P2R5|Q8TEL9|Q9NPP5|Q9NYA0	Missense_Mutation	SNP	ENST00000430334.3	37	CCDS32671.1	.	.	.	.	.	.	.	.	.	.	C	15.22	2.768899	0.49680	.	.	ENSG00000225190	ENST00000430334;ENST00000446609;ENST00000421073	T;T	0.32515	1.45;1.45	4.8	4.8	0.61643	Pleckstrin homology-type (1);Pleckstrin homology domain (2);	0.105214	0.64402	D	0.000005	T	0.44891	0.1315	L	0.29908	0.895	0.47737	D	0.999506	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.998;0.998;0.994	T	0.44832	-0.9302	10	0.72032	D	0.01	.	16.6534	0.85222	0.0:1.0:0.0:0.0	.	502;540;591	F8W648;B4DRX1;Q9Y4G2	.;.;PKHM1_HUMAN	H	591;540;502	ENSP00000389913:D591H;ENSP00000414352:D502H	ENSP00000414352:D502H	D	-	1	0	PLEKHM1	40887230	1.000000	0.71417	0.804000	0.32291	0.044000	0.14063	7.240000	0.78192	2.514000	0.84764	0.586000	0.80456	GAT		0.647	PLEKHM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444659.1	NM_014798		G	43531447	C	G	43531447	3	3	641	1	0	0	0	0	1	0	0	0	12087	826	29	4	1423	4	PLEKHM1	17	43531447	Missense_Mutation	SNP	C	TCGA-KL-8342-01A-11D-2310-10	2561133	43531447	37663763	55	39679										
MADCAM1	8174	mdanderson.org	37	chr19	501786	501786	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	gcctcccgacaccacctcccCggagcctcccgacaagacct	7	22	0	1	rs77264553	byFrequency	TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr19:501786C>A	ENST00000215637.3	+	4	831	c.785C>A	c.(784-786)cCg>cAg	p.P262Q	MADCAM1_ENST00000587541.1_Missense_Mutation_p.P43Q|MADCAM1_ENST00000346144.4_Intron|MADCAM1_ENST00000382683.4_Intron|AC005775.2_ENST00000592413.1_RNA	NM_130760.2	NP_570116.2	Q13477	MADCA_HUMAN	mucosal vascular addressin cell adhesion molecule 1	262	5.5 X 8 AA tandem repeats of [PS]-P-D-T- T-S-[QP]-E.|Mucin-like.				aging (GO:0007568)|cell adhesion (GO:0007155)|cell-matrix adhesion (GO:0007160)|embryo development (GO:0009790)|extracellular matrix organization (GO:0030198)|heterotypic cell-cell adhesion (GO:0034113)|immune response (GO:0006955)|integrin-mediated signaling pathway (GO:0007229)|keratinocyte differentiation (GO:0030216)|leukocyte tethering or rolling (GO:0050901)|positive regulation of leukocyte migration (GO:0002687)|receptor clustering (GO:0043113)|regulation of immune response (GO:0050776)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	integrin binding involved in cell-matrix adhesion (GO:0098640)			central_nervous_system(1)|endometrium(1)|kidney(1)|lung(4)|prostate(1)|skin(2)	10		all_cancers(10;4.25e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACCACCTCCCCGGAGCCTCCC	0.726																																																0													21	23	22					19																	501786		2174	4254	6428	SO:0001583	missense	8174			U43628	CCDS12028.1, CCDS12029.1	19p13.3	2013-01-11			ENSG00000099866	ENSG00000099866		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6765	protein-coding gene	gene with protein product	"mucosal addressin cell adhesion molecule-1"	102670				9162097, 8609404	Standard	NM_130762		Approved	MACAM1	uc002los.3	Q13477	OTTHUMG00000180548	ENST00000215637.3:c.785C>A	19.37:g.501786C>A	ENSP00000215637:p.Pro262Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKV4|B2RPL9|O60222|O75867|Q5UGI7	Missense_Mutation	SNP	ENST00000215637.3	37	CCDS12028.1	.	.	.	.	.	.	.	.	.	.	c	9.375	1.071453	0.20147	.	.	ENSG00000099866	ENST00000537731;ENST00000542525;ENST00000543297;ENST00000215637	T	0.12147	2.71	3.07	-3.57	0.04612	.	3.584140	0.00988	N	0.003486	T	0.04907	0.0132	N	0.03608	-0.345	0.80722	P	0.0	B	0.33073	0.396	B	0.12837	0.008	T	0.24584	-1.0156	9	0.72032	D	0.01	.	3.8366	0.08897	0.3193:0.4698:0.0:0.2109	.	262	Q13477	MADCA_HUMAN	Q	286;278;270;262	ENSP00000215637:P262Q	ENSP00000215637:P262Q	P	+	2	0	MADCAM1	452786	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.770000	0.04705	-0.633000	0.05545	-0.962000	0.02626	CCG		0.726	MADCAM1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451884.1	NM_130760		A	501786	C	A	501786	3	1	641	1	0	0	0	0	1	0	0	0	9158	652	23	4	799	4	MADCAM1	19	501786	Missense_Mutation	SNP	C	TCGA-KL-8342-01A-11D-2310-10		501786	58627197	56	39680										
COL5A3	50509	broad.mit.edu	37	chr19	10091506	10091506	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	gggcctggttgccctgtggcAcccggttgccccctctctcc	12	18	1	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr19:10091506A>C	ENST00000264828.3	-	34	2620	c.2535T>G	c.(2533-2535)ggT>ggG	p.G845G		NM_015719.3	NP_056534.2	P25940	CO5A3_HUMAN	collagen, type V, alpha 3	845	Collagen-like 3.|Triple-helical region.				axon guidance (GO:0007411)|cell-matrix adhesion (GO:0007160)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|skin development (GO:0043588)	collagen type V trimer (GO:0005588)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)|heparin binding (GO:0008201)			NS(2)|breast(3)|central_nervous_system(2)|endometrium(11)|kidney(23)|large_intestine(12)|liver(2)|lung(35)|ovary(8)|prostate(5)|skin(10)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	116			Epithelial(33;7.11e-05)			GCCCTGTGGCACCCGGTTGCC	0.582																																																0													28	28	28					19																	10091506		2203	4300	6503	SO:0001819	synonymous_variant	50509			AF177941	CCDS12222.1	19p13.2	2013-01-16			ENSG00000080573	ENSG00000080573		"Collagens"	14864	protein-coding gene	gene with protein product		120216				10722718	Standard	NM_015719		Approved		uc002mmq.1	P25940	OTTHUMG00000150019	ENST00000264828.3:c.2535T>G	19.37:g.10091506A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NZQ6	Silent	SNP	ENST00000264828.3	37	CCDS12222.1																																																																																				0.582	COL5A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000315788.1	NM_015719		C	10091506	A	C	10091506	2	2	641	1	0	0	0	0	0	0	0	1	3700	146	6	5		5	COL5A3	19	10091506	Silent	SNP	A	TCGA-KL-8342-01A-11D-2310-10	9589720	10091506	49037477	57	39681										
LRFN3	79414	broad.mit.edu	37	chr19	36430411	36430412	+	Frame_Shift_Ins	INS	-	-	C													0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	cagccacacccagcccatgtINSccccgccgctgccgctgcca							TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr19:36430411_36430412insC	ENST00000588831.1	+	3	1138_1139	c.84_85insC	c.(85-87)cccfs	p.P29fs	LRFN3_ENST00000246529.3_Frame_Shift_Ins_p.P29fs			Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III domain containing 3	29	LRRNT.				cell adhesion (GO:0007155)	cell junction (GO:0030054)|cell projection (GO:0042995)|integral component of membrane (GO:0016021)|postsynaptic membrane (GO:0045211)				cervix(1)|kidney(1)|large_intestine(1)|lung(6)|prostate(2)|upper_aerodigestive_tract(1)	12	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CCAGCCCATGTCCCCGCCGCTG	0.723																																																0																																										SO:0001589	frameshift_variant	79414			BC003578	CCDS12483.1	19q13.13	2013-02-11				ENSG00000126243		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	28370	protein-coding gene	gene with protein product	"fibronectin type III, immunoglobulin and leucine rich repeat domains 1"	612809				12975309, 16495444, 16828986	Standard	NM_024509		Approved	MGC2656, SALM4, FIGLER1	uc002oco.3	Q9BTN0		ENST00000588831.1:c.88dupC	19.37:g.36430415_36430415dupC	ENSP00000466989:p.Pro29fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UY10	Frame_Shift_Ins	INS	ENST00000588831.1	37	CCDS12483.1																																																																																				0.723	LRFN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457403.2	NM_024509		C	36430412	-	C	36430411	7	5	641	1	0	1	1	0	0	0	0	0	8946	1673	58	0	86	0	LRFN3	19	36430411	Frame_Shift_Ins	INS	-	TCGA-KL-8342-01A-11D-2310-10	26338905	36430411	22698572	58	39682										
FCGBP	8857	mdanderson.org	37	chr19	40376900	40376900	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	tgtcgctggggatacagcccGcgctccccggcgggcaggtg	17	14	0	0	rs149109818	byFrequency	TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr19:40376900G>T	ENST00000221347.6	-	24	11529	c.11522C>A	c.(11521-11523)gCg>gAg	p.A3841E	FCGBP_ENST00000595713.1_5'Flank	NM_003890.2	NP_003881.2	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein	3841	VWFD 9. {ECO:0000255|PROSITE- ProRule:PRU00580}.			A -> E (in Ref. 1; BAA19526). {ECO:0000305}.		extracellular vesicular exosome (GO:0070062)		p.A3841E(1)		NS(3)|autonomic_ganglia(1)|breast(7)|central_nervous_system(5)|endometrium(13)|kidney(9)|large_intestine(27)|lung(49)|ovary(8)|pancreas(3)|prostate(13)|skin(9)|stomach(9)|upper_aerodigestive_tract(6)|urinary_tract(3)	165	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)			GATACAGCCCGCGCTCCCCGG	0.672													t|||	71	0.0141773	0.0197	0.0058	5008	,	,		11441	0.006		0.005	False		,,,				2504	0.0307															1	Substitution - Missense(1)	skin(1)											30	31	30					19																	40376900		2165	4277	6442	SO:0001583	missense	8857			D84239		19q13.2	2013-09-20			ENSG00000090920	ENSG00000275395			13572	protein-coding gene	gene with protein product	"IgG Fc binding protein", "Human Fc gamma BP"					9182547	Standard	NM_003890		Approved	FC(GAMMA)BP	uc002omp.4	Q9Y6R7	OTTHUMG00000182580	ENST00000221347.6:c.11522C>A	19.37:g.40376900G>T	ENSP00000221347:p.Ala3841Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O95784	Missense_Mutation	SNP	ENST00000221347.6	37	CCDS12546.1	.	.	.	.	.	.	.	.	.	.	t	0.022	-1.412467	0.01145	.	.	ENSG00000090920	ENST00000221347	T	0.20738	2.05	3.75	2.7	0.31948	von Willebrand factor, type D domain (1);	.	.	.	.	T	0.05181	0.0138	N	0.01250	-0.93	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.41197	-0.9522	9	0.02654	T	1	.	4.1512	0.10238	0.0:0.1831:0.3633:0.4536	.	3841	Q9Y6R7	FCGBP_HUMAN	E	3841	ENSP00000221347:A3841E	ENSP00000221347:A3841E	A	-	2	0	FCGBP	45068740	0.000000	0.05858	0.001000	0.08648	0.003000	0.03518	-1.853000	0.01666	0.007000	0.14760	-0.824000	0.03097	GCG		0.672	FCGBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462507.1	NM_003890		T	40376900	G	T	40376900	3	4	641	1	0	0	0	0	1	0	0	0	5785	1087	38	4	4747	4	FCGBP	19	40376900	Missense_Mutation	SNP	G	TCGA-KL-8342-01A-11D-2310-10	3946489	40376900	18752083	59	39683										
DMWD	1762	broad.mit.edu	37	chr19	46289153	46289154	+	Frame_Shift_Ins	INS	-	-	G													0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	gtgctccttctctgccccccINSggtcccgccgctcctgcagt							TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr19:46289153_46289154insG	ENST00000270223.6	-	3	1645_1646	c.1600_1601insC	c.(1600-1602)cggfs	p.R534fs	AC011530.4_ENST00000593999.1_Frame_Shift_Ins_p.G27fs|DMWD_ENST00000377735.3_Frame_Shift_Ins_p.R534fs|DMWD_ENST00000601370.1_5'Flank	NM_004943.1	NP_004934.1	Q09019	DMWD_HUMAN	dystrophia myotonica, WD repeat containing	534										central_nervous_system(1)|endometrium(2)|large_intestine(5)|lung(6)|prostate(1)|upper_aerodigestive_tract(1)	16		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00604)|GBM - Glioblastoma multiforme(486;0.0807)|Epithelial(262;0.236)		CTCTGCCCCCCGGTCCCGCCGC	0.713																																																0																																										SO:0001589	frameshift_variant	1762			L19267	CCDS33054.1	19q13.32	2013-01-09	2007-02-20		ENSG00000185800	ENSG00000185800		"WD repeat domain containing"	2936	protein-coding gene	gene with protein product		609857	"dystrophia myotonica-containing WD repeat motif"			1302022	Standard	NM_004943		Approved	DMR-N9, gene59, D19S593E	uc021uwc.1	Q09019	OTTHUMG00000169044	ENST00000270223.6:c.1601dupC	19.37:g.46289155_46289155dupG	ENSP00000270223:p.Arg534fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000270223.6	37	CCDS33054.1																																																																																				0.713	DMWD-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402063.1	NM_004943		G	46289154	-	G	46289153	7	5	641	1	0	1	1	0	0	0	0	0	4595	652	23	0	435	0	DMWD	19	46289153	Frame_Shift_Ins	INS	-	TCGA-KL-8342-01A-11D-2310-10	5912253	46289153	12839830	60	39684										
ATP5E	514	broad.mit.edu	37	chr20	57605434	57605434	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	catttgctttgaattctgtcTtcagtgcatctctcactgct	6	11	5	1			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr20:57605434T>C	ENST00000243997.3	-	2	213	c.83A>G	c.(82-84)aAg>aGg	p.K28R	ATP5E_ENST00000395663.1_Missense_Mutation_p.K28R|ATP5E_ENST00000395659.1_Missense_Mutation_p.K28R	NM_006886.3	NP_008817.1	P56381	ATP5E_HUMAN	ATP synthase, H+ transporting, mitochondrial F1 complex, epsilon subunit	28					ATP catabolic process (GO:0006200)|cellular metabolic process (GO:0044237)|mitochondrial ATP synthesis coupled proton transport (GO:0042776)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)	mitochondrial matrix (GO:0005759)|mitochondrial proton-transporting ATP synthase complex (GO:0005753)|mitochondrial proton-transporting ATP synthase complex, catalytic core F(1) (GO:0000275)	proton-transporting ATP synthase activity, rotational mechanism (GO:0046933)|proton-transporting ATPase activity, rotational mechanism (GO:0046961)|transmembrane transporter activity (GO:0022857)			skin(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)			GAATTCTGTCTTCAGTGCATC	0.373																																																0													100	95	97					20																	57605434		2203	4300	6503	SO:0001583	missense	514			AF077045	CCDS13476.1	20q13.3	2012-10-12			ENSG00000124172	ENSG00000124172		"Mitochondrial respiratory chain complex / Complex V", "ATPases / F-type"	838	protein-coding gene	gene with protein product		606153				10727396	Standard	NM_006886		Approved		uc002yal.3	P56381	OTTHUMG00000032854	ENST00000243997.3:c.83A>G	20.37:g.57605434T>C	ENSP00000243997:p.Lys28Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDD0|E1P5H6|Q53XU6	Missense_Mutation	SNP	ENST00000243997.3	37	CCDS13476.1	.	.	.	.	.	.	.	.	.	.	T	25.9	4.681721	0.88542	.	.	ENSG00000124172	ENST00000243997;ENST00000395663;ENST00000395659	D;D;D	0.86164	-2.08;-2.08;-2.08	5.54	5.54	0.83059	.	0.000000	0.64402	U	0.000010	D	0.83667	0.5304	.	.	.	0.45806	D	0.998684	B	0.29936	0.262	B	0.31812	0.136	T	0.81720	-0.0804	9	0.40728	T	0.16	.	14.8524	0.70306	0.0:0.0:0.0:1.0	.	28	P56381	ATP5E_HUMAN	R	28	ENSP00000243997:K28R;ENSP00000379023:K28R;ENSP00000379019:K28R	ENSP00000243997:K28R	K	-	2	0	ATP5E	57038829	1.000000	0.71417	0.520000	0.27837	0.967000	0.64934	5.804000	0.69135	2.095000	0.63458	0.460000	0.39030	AAG		0.373	ATP5E-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079894.2	NM_001001977		C	57605434	T	C	57605434	3	2	641	1	0	0	0	0	1	0	0	0	1151	1609	56	3	76	3	ATP5E	20	57605434	Missense_Mutation	SNP	T	TCGA-KL-8342-01A-11D-2310-10		57605434	5420086	61	39685										
TMPRSS15	5651	broad.mit.edu	37	chr21	19751610	19751610	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	taaaactgacctggagttgcCagatgactggtggttgttag	13	6	0	3			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr21:19751610C>T	ENST00000284885.3	-	5	555	c.522G>A	c.(520-522)ctG>ctA	p.L174L		NM_002772.2	NP_002763	P98073	ENTK_HUMAN	transmembrane protease, serine 15	174						brush border (GO:0005903)|integral component of membrane (GO:0016021)	scavenger receptor activity (GO:0005044)|serine-type endopeptidase activity (GO:0004252)			NS(1)|breast(2)|cervix(1)|endometrium(4)|kidney(7)|large_intestine(19)|lung(36)|ovary(6)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)	85						CTGGAGTTGCCAGATGACTGG	0.274																																																0													5	5	5					21																	19751610		1067	2113	3180	SO:0001819	synonymous_variant	5651				CCDS13571.1	21q21	2010-12-09	2010-04-21	2010-04-21	ENSG00000154646	ENSG00000154646		"Serine peptidases / Transmembrane"	9490	protein-coding gene	gene with protein product	"proenterokinase", "enteropeptidase"	606635	"protease, serine, 7 (enterokinase)"	PRSS7		8052624	Standard	NM_002772		Approved	ENTK, MGC133046	uc002ykw.3	P98073	OTTHUMG00000074518	ENST00000284885.3:c.522G>A	21.37:g.19751610C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKL7	Silent	SNP	ENST00000284885.3	37	CCDS13571.1																																																																																				0.274	TMPRSS15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000158231.2	NM_002772		T	19751610	C	T	19751610	2	4	641	1	0	0	0	0	0	0	0	1	16258	581	21	2		2	TMPRSS15	21	19751610	Silent	SNP	C	TCGA-KL-8342-01A-11D-2310-10		19751610	28378285	62	39686										
C21orf29	54084	ucsc.edu	37	chr21	45919681	45919681	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	cggcctcagcgtgtcctcagCcgcaggaccctggagagggg	16	14	2	1			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr21:45919681C>T	ENST00000323084.4	-	12	2060	c.1995G>A	c.(1993-1995)cgG>cgA	p.R665R		NM_001272037.1|NM_144991.2	NP_001258966.1|NP_659428.2	Q8WU66	TSEAR_HUMAN	thrombospondin-type laminin G domain and EAR repeats	665					sensory perception of sound (GO:0007605)	cell surface (GO:0009986)|ciliary membrane (GO:0060170)|extracellular region (GO:0005576)|stereocilium (GO:0032420)				breast(1)|central_nervous_system(6)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(7)|lung(7)|ovary(1)|pancreas(1)|skin(6)|soft_tissue(1)|upper_aerodigestive_tract(2)	37						GTGTCCTCAGCCGCAGGACCC	0.706																																																0													13	14	14					21																	45919681		2175	4272	6447	SO:0001819	synonymous_variant	54084			AJ487962	CCDS13712.1, CCDS74801.1	21q22.3	2012-10-30	2011-01-25	2011-01-25	ENSG00000175894	ENSG00000175894			1268	protein-coding gene	gene with protein product		612920	"chromosome 21 open reading frame 29", "deafness, autosomal recessive 98"	C21orf29, DFNB98		12095917, 22678063	Standard	NM_144991		Approved	MGC11251, TSP-EAR	uc002zfe.1	Q8WU66	OTTHUMG00000041215	ENST00000323084.4:c.1995G>A	21.37:g.45919681C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000323084.4	37	CCDS13712.1																																																																																				0.706	TSPEAR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098761.1	NM_144991		T	45919681	C	T	45919681	2	4	641	1	0	0	0	0	0	0	0	1	2126	726	26	2		2	C21orf29	21	45919681	Silent	SNP	C	TCGA-KL-8342-01A-11D-2310-10	26168071	45919681	2210214	63	39687										
CECR2	27443	broad.mit.edu	37	chr22	18029228	18029228	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	agaagtggaataagaggaccTttccaggaaatgtacagacc	11	7	0	3			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr22:18029228T>C	ENST00000400585.2	+	17	4197	c.3759T>C	c.(3757-3759)ccT>ccC	p.P1253P	CECR2_ENST00000400573.5_Silent_p.P1395P|CECR2_ENST00000262608.8_Silent_p.P1396P			Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	1437	Poly-Pro.				apoptotic DNA fragmentation (GO:0006309)|ATP-dependent chromatin remodeling (GO:0043044)|cytokinesis (GO:0000910)|cytoskeleton organization (GO:0007010)|execution phase of apoptosis (GO:0097194)|neural tube development (GO:0021915)|vesicle-mediated transport (GO:0016192)	CERF complex (GO:0090537)|nucleus (GO:0005634)				NS(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(22)|ovary(1)|pancreas(1)|prostate(2)|skin(5)|stomach(1)|urinary_tract(1)	59		all_epithelial(15;0.139)		Lung(27;0.146)		TAAGAGGACCTTTCCAGGAAA	0.433																																																0													31	33	33					22																	18029228		1922	4124	6046	SO:0001819	synonymous_variant	27443			AF336133		22q11.2	2012-04-19			ENSG00000099954	ENSG00000099954			1840	protein-coding gene	gene with protein product		607576				11381032	Standard	XM_006724077		Approved	KIAA1740	uc002zml.2	Q9BXF3	OTTHUMG00000150072	ENST00000400585.2:c.3759T>C	22.37:g.18029228T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8MS90|A8MX16|Q658Z4|Q96P58|Q9C0C3	Silent	SNP	ENST00000400585.2	37																																																																																					0.433	CECR2-002	NOVEL	basic|appris_candidate|exp_conf	protein_coding	protein_coding	OTTHUMT00000316226.2	NM_031413		C	18029228	T	C	18029228	2	2	641	1	0	0	0	0	0	0	0	1	3208	1596	56	3		3	CECR2	22	18029228	Silent	SNP	T	TCGA-KL-8342-01A-11D-2310-10		18029228	33275338	64	39688										
ARFGAP3	26286	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	43231465	43231465	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	tgtacttggcattggtgtcaTtggtggaacacccatgttga	12	7	1	1	rs142981529		TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chr22:43231465T>A	ENST00000263245.5	-	4	515	c.296A>T	c.(295-297)aAt>aTt	p.N99I	ARFGAP3_ENST00000437119.2_Intron|ARFGAP3_ENST00000429508.2_Intron	NM_001142293.1|NM_014570.4	NP_001135765.1|NP_055385.3	Q9NP61	ARFG3_HUMAN	ADP-ribosylation factor GTPase activating protein 3	99	Arf-GAP. {ECO:0000255|PROSITE- ProRule:PRU00288}.				intracellular protein transport (GO:0006886)|positive regulation of GTPase activity (GO:0043547)|protein secretion (GO:0009306)|regulation of ARF GTPase activity (GO:0032312)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	ARF GTPase activator activity (GO:0008060)|protein transporter activity (GO:0008565)|zinc ion binding (GO:0008270)			breast(3)|endometrium(1)|kidney(1)|large_intestine(3)|lung(2)|ovary(1)	11						ATTGGTGTCATTGGTGGAACA	0.453																																					GBM(58;544 1030 21460 27159 48838)											0													201	165	177					22																	43231465		2203	4300	6503	SO:0001583	missense	26286			AK002083	CCDS14042.1, CCDS46722.1	22q13.2	2009-11-30	2002-08-20	2002-08-23	ENSG00000242247	ENSG00000242247		"ADP-ribosylation factor GTPase activating proteins"	661	protein-coding gene	gene with protein product		612439	"ADP-ribosylation factor GTPase activating protein 1"	ARFGAP1		10704287, 11172815	Standard	NM_014570		Approved		uc003bdd.2	Q9NP61	OTTHUMG00000150718	ENST00000263245.5:c.296A>T	22.37:g.43231465T>A	ENSP00000263245:p.Asn99Ile	Somatic		WXS	Illumina HiSeq	Phase_I	E9PB03|Q9BSC6|Q9H9J0|Q9NT10|Q9NUP5|Q9Y4V3|Q9Y4V4	Missense_Mutation	SNP	ENST00000263245.5	37	CCDS14042.1	.	.	.	.	.	.	.	.	.	.	T	6.647	0.487825	0.12641	.	.	ENSG00000242247	ENST00000263245;ENST00000435208	T;T	0.44083	0.93;0.93	5.21	-7.31	0.01441	.	0.548090	0.19699	N	0.108090	T	0.41834	0.1176	L	0.35854	1.095	0.51233	D	0.999915	P	0.43314	0.803	P	0.56788	0.806	T	0.64466	-0.6401	10	0.66056	D	0.02	.	11.0737	0.48019	0.0:0.4668:0.1733:0.3599	.	99	Q9NP61	ARFG3_HUMAN	I	99;77	ENSP00000263245:N99I;ENSP00000407734:N77I	ENSP00000263245:N99I	N	-	2	0	ARFGAP3	41561409	0.000000	0.05858	0.000000	0.03702	0.472000	0.32918	-1.543000	0.02194	-2.706000	0.00396	-1.447000	0.01057	AAT		0.453	ARFGAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319747.2	NM_014570		A	43231465	T	A	43231465	3	1	641	1	0	0	0	0	1	0	0	0	851	1493	52	5	1306	5	ARFGAP3	22	43231465	Missense_Mutation	SNP	T	TCGA-KL-8342-01A-11D-2310-10	25202237	43231465	8073101	65	39689										
MAGEB6	158809	bcgsc.ca	37	chrX	26212262	26212262	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	tccaagcacctcccgtgatgCctccgttcctcaggagtctc	8	17	2	1	rs4272533		TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chrX:26212262C>T	ENST00000379034.1	+	2	448	c.299C>T	c.(298-300)gCc>gTc	p.A100V		NM_173523.2	NP_775794.2	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	100	Ser-rich.									breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|liver(1)|lung(18)|ovary(3)|prostate(2)	33						TCCCGTGATGCCTCCGTTCCT	0.532													.|||	410	0.108609	0.0272	0.0807	3775	,	,		13813	0.1052		0.0775	False		,,,				2504	0.137															0													88	80	83					X																	26212262		2196	4255	6451	SO:0001583	missense	158809			AF320514	CCDS14217.1	Xp22.12	2009-03-17			ENSG00000176746	ENSG00000176746			23796	protein-coding gene	gene with protein product	"cancer/testis antigen family 3, member 4"	300467				10861452	Standard	NM_173523		Approved	FLJ40242, MAGE-B6, MAGEB6A, CT3.4	uc004dbr.3	Q8N7X4	OTTHUMG00000021285	ENST00000379034.1:c.299C>T	X.37:g.26212262C>T	ENSP00000368320:p.Ala100Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GS19|Q9H219	Missense_Mutation	SNP	ENST00000379034.1	37	CCDS14217.1	113	0.06811332127787824	6	0.012605042016806723	8	0.023391812865497075	24	0.045112781954887216	26	0.03581267217630854	C	6.563	0.472197	0.12461	.	.	ENSG00000176746	ENST00000379034	T	0.01902	4.57	1.26	1.26	0.21427	.	.	.	.	.	T	0.00328	0.0010	N	0.24115	0.695	0.80722	P	0.0	D	0.54772	0.968	B	0.42361	0.385	T	0.49725	-0.8909	8	0.19147	T	0.46	.	5.486	0.16749	0.0:1.0:0.0:0.0	rs4272533;rs52789792;rs4272533	100	Q8N7X4	MAGB6_HUMAN	V	100	ENSP00000368320:A100V	ENSP00000368320:A100V	A	+	2	0	MAGEB6	26122183	0.001000	0.12720	0.004000	0.12327	0.007000	0.05969	0.228000	0.17814	0.914000	0.36822	0.550000	0.68814	GCC		0.532	MAGEB6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056123.1	NM_173523		T	26212262	C	T	26212262	3	4	641	1	0	0	0	0	1	0	0	0	9186	739	26	2	301	2	MAGEB6	23	26212262	Missense_Mutation	SNP	C	TCGA-KL-8342-01A-11D-2310-10		26212262	129058298	66	39690										
BCOR	54880	broad.mit.edu	37	chrX	39913558	39913558	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	gtgccactggcgtcatcatcAttgcgaccctggaggtcatt	11	12	4	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chrX:39913558A>G	ENST00000378444.4	-	13	4998	c.4770T>C	c.(4768-4770)aaT>aaC	p.N1590N	BCOR_ENST00000342274.4_Silent_p.N1556N|BCOR_ENST00000378463.1_Silent_p.N433N|BCOR_ENST00000397354.3_Silent_p.N1556N|BCOR_ENST00000378455.4_Silent_p.N1538N	NM_001123385.1	NP_001116857.1	Q6W2J9	BCOR_HUMAN	BCL6 corepressor	1590					heart development (GO:0007507)|histone H2A monoubiquitination (GO:0035518)|negative regulation of bone mineralization (GO:0030502)|negative regulation of histone H3-K36 methylation (GO:0000415)|negative regulation of histone H3-K4 methylation (GO:0051572)|negative regulation of tooth mineralization (GO:0070171)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|odontogenesis (GO:0042476)|palate development (GO:0060021)|specification of axis polarity (GO:0065001)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	heat shock protein binding (GO:0031072)|histone deacetylase binding (GO:0042826)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			breast(4)|central_nervous_system(11)|cervix(1)|endometrium(24)|eye(6)|haematopoietic_and_lymphoid_tissue(33)|kidney(2)|large_intestine(11)|lung(22)|ovary(2)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	126						CGTCATCATCATTGCGACCCT	0.438			"F, N, S, T"	RARA	"retinoblastoma, AML, APL(translocation)"		oculo-facio-cardio-dental genetic																																Rec	yes		X	Xp11.4	54880	BCL6 corepressor	yes		0													59	50	53					X																	39913558		2202	4300	6502	SO:0001819	synonymous_variant	54880			AF317391	CCDS14250.1, CCDS48092.1, CCDS48093.1	Xp11.4	2014-09-17	2010-06-10		ENSG00000183337	ENSG00000183337		"Ankyrin repeat domain containing"	20893	protein-coding gene	gene with protein product		300485	"BCL6 co-repressor"			10898795	Standard	NM_017745		Approved	FLJ20285, KIAA1575	uc004den.4	Q6W2J9	OTTHUMG00000024100	ENST00000378444.4:c.4770T>C	X.37:g.39913558A>G		Somatic		WXS	Illumina HiSeq	Phase_I	D3DWB3|D3DWB4|Q29RF6|Q6P4B6|Q7Z2K7|Q8TEB4|Q96DB3|Q9H232|Q9H233|Q9HCJ7|Q9NXF2	Silent	SNP	ENST00000378444.4	37	CCDS48093.1																																																																																				0.438	BCOR-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000060666.2	NM_017745		G	39913558	A	G	39913558	2	3	641	1	0	0	0	0	0	0	0	1	1386	214	8	3		3	BCOR	23	39913558	Silent	SNP	A	TCGA-KL-8342-01A-11D-2310-10	13701296	39913558	115357002	67	39691										
AIFM1	9131	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	129281737	129281737	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	tgcaccttaccctggccccaGgatcccgagcccggatggat	11	16	0	0			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chrX:129281737G>A	ENST00000287295.3	-	4	694	c.464C>T	c.(463-465)cCt>cTt	p.P155L	AIFM1_ENST00000319908.3_Missense_Mutation_p.P151L|AIFM1_ENST00000346424.2_Intron|AIFM1_ENST00000535724.1_Missense_Mutation_p.P68L	NM_001130847.3|NM_004208.3	NP_001124319.1|NP_004199.1	O95831	AIFM1_HUMAN	apoptosis-inducing factor, mitochondrion-associated, 1	155	FAD-dependent oxidoreductase. {ECO:0000250}.				activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic DNA fragmentation (GO:0006309)|apoptotic process (GO:0006915)|cell redox homeostasis (GO:0045454)|chromosome condensation (GO:0030261)|DNA catabolic process (GO:0006308)|intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress (GO:0070059)|mitochondrial respiratory chain complex I assembly (GO:0032981)|neuron apoptotic process (GO:0051402)|neuron differentiation (GO:0030182)|positive regulation of apoptotic process (GO:0043065)|regulation of apoptotic DNA fragmentation (GO:1902510)	cytosol (GO:0005829)|mitochondrial inner membrane (GO:0005743)|mitochondrial intermembrane space (GO:0005758)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	DNA binding (GO:0003677)|electron carrier activity (GO:0009055)|FAD binding (GO:0071949)|NAD(P)H oxidase activity (GO:0016174)|oxidoreductase activity, acting on NAD(P)H (GO:0016651)			central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(4)|liver(2)|lung(8)|ovary(4)|prostate(2)|urinary_tract(1)	30					Flavin adenine dinucleotide(DB03147)	CCTGGCCCCAGGATCCCGAGC	0.502																																																0													113	104	107					X																	129281737		2203	4300	6503	SO:0001583	missense	9131			AF100928	CCDS14618.1, CCDS14619.1, CCDS48167.1	Xq26.1	2014-01-30	2006-11-16	2006-11-16	ENSG00000156709	ENSG00000156709			8768	protein-coding gene	gene with protein product		300169	"programmed cell death 8 (apoptosis-inducing factor)", "neuropathy, axonal, motor-sensory with deafness and mental retardation (Cowchock syndrome)"	PDCD8, NAMSD		9989411, 23217327	Standard	NM_004208		Approved	AIF, CMTX4	uc004evg.3	O95831	OTTHUMG00000022392	ENST00000287295.3:c.464C>T	X.37:g.129281737G>A	ENSP00000287295:p.Pro155Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A4QPB4|B1ALN1|B2RB08|D3DTE9|Q1L6K4|Q1L6K6|Q2QKE4|Q5JUZ7|Q6I9X6|Q9Y3I3|Q9Y3I4	Missense_Mutation	SNP	ENST00000287295.3	37	CCDS14618.1	.	.	.	.	.	.	.	.	.	.	G	32	5.132328	0.94473	.	.	ENSG00000156709	ENST00000319908;ENST00000535724;ENST00000287295	D;D;D	0.85013	-1.93;-1.93;-1.93	5.55	5.55	0.83447	Pyridine nucleotide-disulphide oxidoreductase, FAD/NAD(P)-binding domain (1);	0.000000	0.85682	D	0.000000	D	0.91862	0.7424	M	0.85373	2.75	0.80722	D	1	D;D;D	0.63880	0.991;0.993;0.991	D;D;D	0.63877	0.913;0.919;0.913	D	0.89790	0.3967	10	0.12430	T	0.62	-9.0643	18.5251	0.90969	0.0:0.0:1.0:0.0	.	155;151;155	Q1L6K6;O95831-3;O95831	.;.;AIFM1_HUMAN	L	151;68;155	ENSP00000315122:P151L;ENSP00000446113:P68L;ENSP00000287295:P155L	ENSP00000287295:P155L	P	-	2	0	AIFM1	129109418	1.000000	0.71417	1.000000	0.80357	0.918000	0.54935	9.401000	0.97294	2.317000	0.78254	0.544000	0.68410	CCT		0.502	AIFM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058247.2			A	129281737	G	A	129281737	3	1	641	1	0	0	0	0	1	0	0	0	426	1000	35	2	1441	2	AIFM1	23	129281737	Missense_Mutation	SNP	G	TCGA-KL-8342-01A-11D-2310-10	89368179	129281737	25988823	68	39692										
MAMLD1	10046	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chrX	149638778	149638778	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0441176470588235	3	1	0.899462606359158	5.7965367965368	0.334415584415584	1	1	0	caccagctgaaggcgttggcAgccagcaagcaggggtctgc	15	12	1	1			TCGA-KL-8342-01A-11D-2310-10	TCGA-KL-8342-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f38fc6ac-2af8-4d89-a514-4e2c5fdf08de	0d9307db-aee2-48b3-a11e-d570b626f1a0	g.chrX:149638778A>T	ENST00000370401.2	+	4	1243	c.933A>T	c.(931-933)gcA>gcT	p.A311A	MAMLD1_ENST00000432680.2_Silent_p.A286A|MAMLD1_ENST00000455522.2_5'Flank|MAMLD1_ENST00000426613.2_Silent_p.A286A|MAMLD1_ENST00000262858.5_Silent_p.A311A			Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	311					male gonad development (GO:0008584)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)				breast(1)|endometrium(4)|kidney(3)|large_intestine(12)|lung(14)|ovary(1)|prostate(2)	37	Acute lymphoblastic leukemia(192;6.56e-05)					AGGCGTTGGCAGCCAGCAAGC	0.637																																																0													80	57	65					X																	149638778		2203	4300	6503	SO:0001819	synonymous_variant	10046			U46023	CCDS14693.2, CCDS55525.1, CCDS55526.1	Xq28	2008-02-05	2008-01-03	2008-01-03	ENSG00000013619	ENSG00000013619			2568	protein-coding gene	gene with protein product		300120	"chromosome X open reading frame 6"	CXorf6		9169146, 17086185, 18162467	Standard	NM_001177465		Approved	CG1, F18	uc011mxu.2	Q13495	OTTHUMG00000024157	ENST00000370401.2:c.933A>T	X.37:g.149638778A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RCQ4|B4DG93|B9EGA5	Silent	SNP	ENST00000370401.2	37	CCDS14693.2																																																																																				0.637	MAMLD1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000060844.2	NM_005491		T	149638778	A	T	149638778	2	4	641	1	0	0	0	0	0	0	0	1	9215	175	7	5		5	MAMLD1	23	149638778	Silent	SNP	A	TCGA-KL-8342-01A-11D-2310-10	20357041	149638778	5631782	69	39693										
RBMXL1	494115	mdanderson.org	37	chr1	89448940	89448940	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tcccttcgaggtggacctccAtaactatctcttccacgtga	7	14	1	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr1:89448940A>G	ENST00000321792.5	-	2	997	c.570T>C	c.(568-570)taT>taC	p.Y190Y	RBMXL1_ENST00000399794.2_Silent_p.Y190Y|RBMXL1_ENST00000413769.1_5'Flank|CCBL2_ENST00000370491.3_Intron|CCBL2_ENST00000260508.4_Intron|CCBL2_ENST00000370485.2_Intron|CCBL2_ENST00000446900.2_Intron	NM_019610.5	NP_062556.2	Q96E39	RMXL1_HUMAN	RNA binding motif protein, X-linked-like 1	190					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|RNA binding (GO:0003723)										GTGGACCTCCATAACTATCTC	0.502																																																0													175	174	174					1																	89448940		2203	4300	6503	SO:0001819	synonymous_variant	494115			BC012942	CCDS716.1	1p22.2	2013-02-12	2007-01-04	2007-01-04	ENSG00000213516	ENSG00000213516		"RNA binding motif (RRM) containing"	25073	protein-coding gene	gene with protein product	"kynurenine aminotransferase III"					10441733	Standard	NM_019610		Approved	KAT3	uc001dms.3	Q96E39	OTTHUMG00000010661	ENST00000321792.5:c.570T>C	1.37:g.89448940A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000321792.5	37	CCDS716.1																																																																																				0.502	RBMXL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029403.3	NM_019610		G	89448940	A	G	89448940	2	3	642	1	0	0	0	0	0	0	0	1	13166	224	8	3		3	RBMXL1	1	89448940	Silent	SNP	A	TCGA-KL-8343-01A-11D-2310-10		89448940	159801681	1	39694										
CELSR2	1952	mdanderson.org	37	chr1	109801121	109801121	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	atcaccgatgagatgctcacCcacagcatcacgctgcgcct	8	16	3	1	rs684138	byFrequency	TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr1:109801121C>T	ENST00000271332.3	+	2	3439	c.3378C>T	c.(3376-3378)acC>acT	p.T1126T		NM_001408.2	NP_001399.1	Q9HCU4	CELR2_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 2	1126	Cadherin 9. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cerebrospinal fluid secretion (GO:0033326)|cilium assembly (GO:0042384)|cilium movement (GO:0003341)|dendrite morphogenesis (GO:0048813)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|neural plate anterior/posterior regionalization (GO:0021999)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|regulation of cell-cell adhesion (GO:0022407)|regulation of protein localization (GO:0032880)|regulation of transcription, DNA-templated (GO:0006355)|ventricular system development (GO:0021591)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|cervix(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(14)|lung(27)|ovary(5)|prostate(1)|skin(3)|urinary_tract(2)	82		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)		AGATGCTCACCCACAGCATCA	0.652													C|||	583	0.116414	0.3033	0.0893	5008	,	,		19037	0.0		0.1044	False		,,,				2504	0.0153				NSCLC(158;1285 2011 34800 34852 42084)											0								C		1202,3202		164,874,1164	42	34	36		3378	-1.5	1	1	dbSNP_83	36	817,7779		44,729,3525	yes	coding-synonymous	CELSR2	NM_001408.2		208,1603,4689	TT,TC,CC		9.5044,27.2934,15.5308		1126/2924	109801121	2019,10981	2202	4298	6500	SO:0001819	synonymous_variant	1952			D87469	CCDS796.1	1p13.3	2014-08-08	2013-02-18		ENSG00000143126	ENSG00000143126		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	3231	protein-coding gene	gene with protein product		604265	"cadherin, EGF LAG seven-pass G-type receptor 2, flamingo (Drosophila) homolog"	EGFL2		9693030, 10907856	Standard	NM_001408		Approved	KIAA0279, MEGF3, Flamingo1, CDHF10	uc001dxa.4	Q9HCU4	OTTHUMG00000012003	ENST00000271332.3:c.3378C>T	1.37:g.109801121C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T2Y7|Q92566	Silent	SNP	ENST00000271332.3	37	CCDS796.1																																																																																				0.652	CELSR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033200.1	NM_001408		T	109801121	C	T	109801121	2	4	642	1	0	0	0	0	0	0	0	1	3224	610	22	2		2	CELSR2	1	109801121	Silent	SNP	C	TCGA-KL-8343-01A-11D-2310-10	20352181	109801121	139449500	2	39695										
AMPD2	271	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	110168780	110168780	+	Splice_Site	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ttctcacccctcttgcctctAggctggagccagacatcctg	8	16	3	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr1:110168780A>T	ENST00000256578.3	+	4	875		c.e4-1		RP5-1160K1.6_ENST00000369843.3_RNA|AMPD2_ENST00000342115.4_Splice_Site|AMPD2_ENST00000358729.4_Splice_Site|AMPD2_ENST00000528454.1_Splice_Site|AMPD2_ENST00000393688.3_Splice_Site|AMPD2_ENST00000528667.1_Splice_Site|AMPD2_ENST00000526301.1_Splice_Site	NM_004037.7	NP_004028.3	Q01433	AMPD2_HUMAN	adenosine monophosphate deaminase 2						cell death (GO:0008219)|cyclic purine nucleotide metabolic process (GO:0052652)|energy homeostasis (GO:0097009)|IMP biosynthetic process (GO:0006188)|IMP salvage (GO:0032264)|nucleobase-containing small molecule metabolic process (GO:0055086)|purine nucleobase metabolic process (GO:0006144)|purine-containing compound salvage (GO:0043101)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	AMP deaminase activity (GO:0003876)|metal ion binding (GO:0046872)			breast(1)|large_intestine(3)|ovary(2)|skin(1)	7		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0425)|all cancers(265;0.0884)|Colorectal(144;0.109)|Epithelial(280;0.111)|LUSC - Lung squamous cell carcinoma(189;0.228)		TCTTGCCTCTAGGCTGGAGCC	0.607																																																0													73	56	62					1																	110168780		2203	4300	6503	SO:0001630	splice_region_variant	271			S47833	CCDS804.1, CCDS805.1, CCDS30796.1, CCDS58016.1	1p13.3	2014-03-03	2010-02-10		ENSG00000116337	ENSG00000116337	3.5.4.6		469	protein-coding gene	gene with protein product	"AMPD isoform L"	102771	"adenosine monophosphate deaminase 2 (isoform L)"			1400401, 24482476	Standard	NM_004037		Approved	SPG63	uc009wfh.2	Q01433	OTTHUMG00000011649	ENST00000256578.3:c.516-1A>T	1.37:g.110168780A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DK50|B4DZI5|E9PNG0|Q14856|Q14857|Q16686|Q16687|Q16688|Q16729|Q5T693|Q5T695|Q96IA1|Q9UDX8|Q9UDX9|Q9UMU4	Splice_Site	SNP	ENST00000256578.3	37	CCDS805.1	.	.	.	.	.	.	.	.	.	.	A	16.57	3.160411	0.57368	.	.	ENSG00000116337	ENST00000531734;ENST00000342115;ENST00000528667;ENST00000531203;ENST00000256578;ENST00000358729;ENST00000369840;ENST00000527846;ENST00000528454;ENST00000393688	.	.	.	4.97	4.97	0.65823	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	9.975	0.41777	0.9179:0.0:0.0821:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	AMPD2	109970303	1.000000	0.71417	0.887000	0.34795	0.742000	0.42306	9.023000	0.93683	1.872000	0.54250	0.379000	0.24179	.		0.607	AMPD2-011	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000390615.1		Intron	T	110168780	A	T	110168780	5	4	642	1	0	0	0	0	0	0	1	0	586	434	15	5	569	5	AMPD2	1	110168780	Splice_Site	SNP	A	TCGA-KL-8343-01A-11D-2310-10	367659	110168780	139081841	3	39696										
CHIA	27159	mdanderson.org;bcgsc.ca	37	chr1	111863044	111863044	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	accagcagaactgccaggccGggcttgtcttcgacaccagc	11	15	1	1	rs142653250	byFrequency	TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr1:111863044G>A	ENST00000369740.1	+	12	1490	c.1387G>A	c.(1387-1389)Ggg>Agg	p.G463R	CHIA_ENST00000451398.2_Missense_Mutation_p.G302R|CHIA_ENST00000343320.6_Missense_Mutation_p.G463R|CHIA_ENST00000483391.1_Missense_Mutation_p.G302R|CHIA_ENST00000430615.1_Missense_Mutation_p.G355R|CHIA_ENST00000353665.6_Missense_Mutation_p.G302R|RP5-1125M8.2_ENST00000426321.1_RNA	NM_001258001.1|NM_201653.3	NP_001244930.1|NP_970615.2	Q9BZP6	CHIA_HUMAN	chitinase, acidic	463	Chitin-binding type-2. {ECO:0000255|PROSITE-ProRule:PRU00144}.				apoptotic process (GO:0006915)|cell wall chitin metabolic process (GO:0006037)|chitin catabolic process (GO:0006032)|chitin metabolic process (GO:0006030)|digestion (GO:0007586)|immune response (GO:0006955)|polysaccharide catabolic process (GO:0000272)|positive regulation of chemokine secretion (GO:0090197)|production of molecular mediator involved in inflammatory response (GO:0002532)|response to fungus (GO:0009620)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)	carbohydrate binding (GO:0030246)|chitin binding (GO:0008061)|chitinase activity (GO:0004568)|kinase binding (GO:0019900)|lysozyme activity (GO:0003796)			central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(3)|lung(9)|ovary(1)|skin(1)	23		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)		CTGCCAGGCCGGGCTTGTCTT	0.527													G|||	3	0.000599042	0.0	0.0014	5008	,	,		21604	0.001		0.001	False		,,,				2504	0.0															0								G	ARG/GLY,ARG/GLY	1,4405	2.1+/-5.4	0,1,2202	62	61	62		1063,1387	1.8	0	1	dbSNP_134	62	14,8586	9.8+/-36.6	0,14,4286	yes	missense,missense	CHIA	NM_021797.2,NM_201653.2	125,125	0,15,6488	AA,AG,GG		0.1628,0.0227,0.1153	possibly-damaging,possibly-damaging	355/369,463/477	111863044	15,12991	2203	4300	6503	SO:0001583	missense	27159			AF290004	CCDS832.1, CCDS41368.1, CCDS58017.1	1p13.2	2008-05-14			ENSG00000134216	ENSG00000134216			17432	protein-coding gene	gene with protein product		606080				11085997	Standard	NM_021797		Approved	AMCase, TSA1902, CHIT2	uc001eas.4	Q9BZP6	OTTHUMG00000011165	ENST00000369740.1:c.1387G>A	1.37:g.111863044G>A	ENSP00000358755:p.Gly463Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q32W79|Q32W80|Q3B866|Q5U5Z5|Q5VUV4|Q86UD8|Q9ULY3|Q9ULY4	Missense_Mutation	SNP	ENST00000369740.1	37	CCDS41368.1	3	0.0013736263736263737	0	0.0	1	0.0027624309392265192	1	0.0017482517482517483	1	0.0013192612137203166	G	12.12	1.841326	0.32513	2.27E-4	0.001628	ENSG00000134216	ENST00000422815;ENST00000483391;ENST00000369740;ENST00000343320;ENST00000451398;ENST00000353665;ENST00000430615	T;T;T;T;T;T;T	0.47177	0.85;0.85;0.85;0.85;0.85;0.85;0.85	4.77	1.8	0.24995	Chitin binding domain (5);	0.000000	0.56097	U	0.000034	T	0.45196	0.1330	H	0.98594	4.275	0.09310	N	1	P	0.39847	0.691	B	0.38880	0.284	T	0.52253	-0.8600	10	0.62326	D	0.03	-1.4299	5.9113	0.19029	0.1698:0.0:0.6772:0.153	.	463	Q9BZP6	CHIA_HUMAN	R	407;302;463;463;302;302;355	ENSP00000387671:G407R;ENSP00000436946:G302R;ENSP00000358755:G463R;ENSP00000341828:G463R;ENSP00000390476:G302R;ENSP00000338970:G302R;ENSP00000391132:G355R	ENSP00000341828:G463R	G	+	1	0	CHIA	111664567	0.399000	0.25287	0.000000	0.03702	0.668000	0.39293	1.995000	0.40767	0.298000	0.22638	0.655000	0.94253	GGG		0.527	CHIA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030710.1			A	111863044	G	A	111863044	3	1	642	1	0	0	0	0	1	0	0	0	3344	1116	39	1	1429	1	CHIA	1	111863044	Missense_Mutation	SNP	G	TCGA-KL-8343-01A-11D-2310-10	1694264	111863044	137387577	4	39697										
NBPF10	100132406	mdanderson.org	37	chr1	145299805	145299805	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tttgtccagcgagaaggcagAgatgaacattctagaaatca	10	7	2	4	rs61814629	byFrequency	TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr1:145299805A>C	ENST00000369338.1	+	2	231	c.41A>C	c.(40-42)gAg>gCg	p.E14A	NBPF10_ENST00000369339.3_Intron|NBPF10_ENST00000342960.5_Missense_Mutation_p.E285A|RP11-458D21.5_ENST00000468030.1_3'UTR			Q6P3W6	NBPFA_HUMAN	neuroblastoma breakpoint family, member 10	285						cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)	p.E285A(1)|p.E14A(1)		NS(3)|breast(1)|central_nervous_system(3)|endometrium(12)|kidney(23)|lung(15)|ovary(1)|prostate(7)|skin(6)|urinary_tract(2)	73	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		GAGAAGGCAGAGATGAACATT	0.493													.|||	179	0.0357428	0.0015	0.0231	5008	,	,		43597	0.0635		0.0487	False		,,,				2504	0.0491															2	Substitution - Missense(2)	skin(2)											9	8	8					1																	145299805		690	1570	2260	SO:0001583	missense	100132406			BC021111		1q21.1	2013-01-17			ENSG00000163386	ENSG00000271425		"neuroblastoma breakpoint family"	31992	protein-coding gene	gene with protein product		614000				16079250	Standard	NM_001039703		Approved	AG1		Q6P3W6	OTTHUMG00000013757	ENST00000369338.1:c.41A>C	1.37:g.145299805A>C	ENSP00000358344:p.Glu14Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5RHC0|Q9NWN6	Missense_Mutation	SNP	ENST00000369338.1	37		.	.	.	.	.	.	.	.	.	.	.	11.71	1.719994	0.30503	.	.	ENSG00000163386	ENST00000448873;ENST00000369338;ENST00000369334;ENST00000342960	T;T	0.03663	3.85;3.85	1.05	1.05	0.20165	.	.	.	.	.	T	0.03095	0.0091	M	0.74647	2.275	0.09310	N	1	P	0.37398	0.593	P	0.45577	0.486	T	0.39941	-0.9589	9	0.66056	D	0.02	.	4.3442	0.11124	1.0:0.0:0.0:0.0	rs61814629	14	Q86T75-2	.	A	210;14;14;285	ENSP00000358344:E14A;ENSP00000345684:E285A	ENSP00000345684:E285A	E	+	2	0	NBPF10	144011162	0.002000	0.14202	0.003000	0.11579	0.032000	0.12392	-0.314000	0.08092	0.731000	0.32448	0.234000	0.17832	GAG		0.493	NBPF10-003	KNOWN	not_best_in_genome_evidence|basic	protein_coding	protein_coding	OTTHUMT00000038552.1	NM_001039703		C	145299805	A	C	145299805	3	2	642	1	0	0	0	0	1	0	0	0	10200	304	11	5	876	5	NBPF10	1	145299805	Missense_Mutation	SNP	A	TCGA-KL-8343-01A-11D-2310-10	33436761	145299805	103950816	5	39698										
PRG4	10216	broad.mit.edu	37	chr1	186276256	186276257	+	In_Frame_Ins	INS	-	-	CCA													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	cactcccaaggagcctgcacINSccaccaccaaggagcctgca					rs149342058	byFrequency	TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr1:186276256_186276257insCCA	ENST00000445192.2	+	7	1450_1451	c.1405_1406insCCA	c.(1405-1407)ccc>cCCAcc	p.471_472insT	PRG4_ENST00000367483.4_In_Frame_Ins_p.430_431insT|PRG4_ENST00000367486.3_In_Frame_Ins_p.428_429insT|PRG4_ENST00000367485.4_In_Frame_Ins_p.378_379insT|PRG4_ENST00000367484.3_Intron	NM_005807.3	NP_005798.2	Q92954	PRG4_HUMAN	proteoglycan 4	471	59 X 8 AA repeats of K-X-P-X-P-T-T-X.				cell proliferation (GO:0008283)|hematopoietic stem cell proliferation (GO:0071425)|immune response (GO:0006955)|negative regulation of interleukin-6 biosynthetic process (GO:0045409)|regulation of cell proliferation (GO:0042127)	extracellular space (GO:0005615)	polysaccharide binding (GO:0030247)|scavenger receptor activity (GO:0005044)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(12)|lung(33)|prostate(7)|skin(9)|upper_aerodigestive_tract(2)|urinary_tract(1)	102						GGAGCCTGCACCCACCACCAAG	0.653																																																0																																										SO:0001652	inframe_insertion	10216			U70136	CCDS1369.1, CCDS44287.1, CCDS44288.1	1q25-q31	2008-07-18	2004-11-15		ENSG00000116690	ENSG00000116690			9364	protein-coding gene	gene with protein product	"lubricin", "megakaryocyte stimulating factor", "articular superficial zone protein", "Jacobs camptodactyly-arthropathy-pericarditis syndrome", "camptodactyly, arthropathy, coxa vara, pericarditis syndrome", "bG174L6.2 (MSF: megakaryocyte stimulating factor )"	604283	"proteoglycan 4, (megakaryocyte stimulating factor, articular superficial zone protein, camptodactyly, arthropathy, coxa vara, pericarditis syndrome)"	CACP		10545950, 9920774	Standard	NM_005807		Approved	JCAP, SZP, MSF, HAPO, bG174L6.2, FLJ32635	uc001gru.4	Q92954	OTTHUMG00000035574	ENST00000445192.2:c.1412_1414dupCCA	1.37:g.186276263_186276265dupCCA	ENSP00000399679:p.Thr471_Thr471dup	Somatic		WXS	Illumina HiSeq	Phase_I	Q6DNC4|Q6DNC5|Q6ZMZ5|Q9BX49	In_Frame_Ins	INS	ENST00000445192.2	37	CCDS1369.1																																																																																				0.653	PRG4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000086346.1	NM_005807		CCA	186276257	-	CCA	186276256	7	5	642	1	0	1	1	0	0	0	0	0	12491	507	18	0	1427	0	PRG4	1	186276256	In_Frame_Ins	INS	-	TCGA-KL-8343-01A-11D-2310-10	40976451	186276256	62974365	6	39699										
TPR	7175	bcgsc.ca	37	chr1	186283126	186283126	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	attaatatttcctctgtttaTtcctcctctccctcccattg	2	14	2	0			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr1:186283126T>C	ENST00000367478.4	-	51	7365	c.7069A>G	c.(7069-7071)Ata>Gta	p.I2357V	PRG4_ENST00000367483.4_3'UTR|PRG4_ENST00000445192.2_3'UTR|PRG4_ENST00000367486.3_3'UTR|PRG4_ENST00000367485.4_3'UTR|RNU6-1240P_ENST00000365155.1_RNA|PRG4_ENST00000367484.3_3'UTR	NM_003292.2	NP_003283.2	P12270	TPR_HUMAN	translocated promoter region, nuclear basket protein	2357					carbohydrate metabolic process (GO:0005975)|cellular response to heat (GO:0034605)|cellular response to interferon-alpha (GO:0035457)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|MAPK import into nucleus (GO:0000189)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic nuclear envelope disassembly (GO:0007077)|mitotic spindle assembly checkpoint (GO:0007094)|mRNA export from nucleus in response to heat stress (GO:0031990)|negative regulation of RNA export from nucleus (GO:0046832)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of translational initiation (GO:0045947)|nuclear pore organization (GO:0006999)|positive regulation of heterochromatin assembly (GO:0031453)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of mitotic cell cycle spindle assembly checkpoint (GO:0090267)|positive regulation of protein export from nucleus (GO:0046827)|positive regulation of protein import into nucleus (GO:0042307)|protein import into nucleus (GO:0006606)|regulation of glucose transport (GO:0010827)|regulation of mitotic sister chromatid separation (GO:0010965)|regulation of spindle assembly involved in mitosis (GO:1901673)|response to epidermal growth factor (GO:0070849)|RNA export from nucleus (GO:0006405)|RNA import into nucleus (GO:0006404)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytoplasmic dynein complex (GO:0005868)|extrinsic component of membrane (GO:0019898)|kinetochore (GO:0000776)|mitotic spindle (GO:0072686)|nuclear envelope (GO:0005635)|nuclear inclusion body (GO:0042405)|nuclear membrane (GO:0031965)|nuclear periphery (GO:0034399)|nuclear pore (GO:0005643)|nuclear pore nuclear basket (GO:0044615)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|dynein complex binding (GO:0070840)|heat shock protein binding (GO:0031072)|mitogen-activated protein kinase binding (GO:0051019)|mRNA binding (GO:0003729)|nucleocytoplasmic transporter activity (GO:0005487)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)|tubulin binding (GO:0015631)			autonomic_ganglia(1)|breast(5)|central_nervous_system(4)|cervix(2)|endometrium(9)|kidney(12)|large_intestine(23)|liver(1)|lung(45)|ovary(2)|pancreas(1)|prostate(6)|skin(3)|stomach(1)|urinary_tract(8)	123		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)		CCTCTGTTTATTCCTCCTCTC	0.294			T	NTRK1	papillary thyroid																																		Dom	yes		1	1q25	7175	translocated promoter region		E	0													102	101	102					1																	186283126		1816	4073	5889	SO:0001583	missense	7175			U69668	CCDS41446.1	1q25	2012-03-13	2012-03-13		ENSG00000047410	ENSG00000047410			12017	protein-coding gene	gene with protein product		189940	"translocated promoter region (to activated MET oncogene)"			1611909, 15229283	Standard	NM_003292		Approved		uc001grv.3	P12270	OTTHUMG00000035580	ENST00000367478.4:c.7069A>G	1.37:g.186283126T>C	ENSP00000356448:p.Ile2357Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q15655|Q5SWY0|Q99968	Missense_Mutation	SNP	ENST00000367478.4	37	CCDS41446.1	.	.	.	.	.	.	.	.	.	.	T	11.62	1.694038	0.30052	.	.	ENSG00000047410	ENST00000367478	T	0.23147	1.92	5.79	3.47	0.39725	.	0.407546	0.27816	N	0.017721	T	0.19644	0.0472	L	0.36672	1.1	0.28273	N	0.924309	B	0.13594	0.008	B	0.12156	0.007	T	0.13150	-1.0520	10	0.21014	T	0.42	.	12.5726	0.56344	0.0:0.0:0.3977:0.6023	.	2357	P12270	TPR_HUMAN	V	2357	ENSP00000356448:I2357V	ENSP00000356448:I2357V	I	-	1	0	TPR	184549749	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.572000	0.36461	0.981000	0.38548	0.528000	0.53228	ATA		0.294	TPR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086353.2	NM_003292		C	186283126	T	C	186283126	3	2	642	1	0	0	0	0	1	0	0	0	16428	1493	52	3	26	3	TPR	1	186283126	Missense_Mutation	SNP	T	TCGA-KL-8343-01A-11D-2310-10	6870	186283126	62967495	7	39700										
CHIT1	1118	hgsc.bcm.edu;ucsc.edu	37	chr1	203188924	203188924	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ccgtaggtaggcatgccaagGatcagcttgctggcaggggt	16	9	1	0			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr1:203188924G>T	ENST00000367229.1	-	8	817	c.783C>A	c.(781-783)atC>atA	p.I261I	CHIT1_ENST00000255427.3_Silent_p.I242I|CHIT1_ENST00000484834.1_5'UTR|CHIT1_ENST00000535569.1_Silent_p.I252I	NM_001270509.1|NM_003465.2	NP_001257438.1|NP_003456.1	Q13231	CHIT1_HUMAN	chitinase 1 (chitotriosidase)	261					chitin catabolic process (GO:0006032)|immune response (GO:0006955)|polysaccharide catabolic process (GO:0000272)|response to bacterium (GO:0009617)	extracellular space (GO:0005615)|lysosome (GO:0005764)	chitin binding (GO:0008061)|chitinase activity (GO:0004568)|endochitinase activity (GO:0008843)			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(13)|ovary(1)|stomach(2)	27						GCATGCCAAGGATCAGCTTGC	0.612																																																0													51	47	48					1																	203188924		2203	4300	6503	SO:0001819	synonymous_variant	1118			U29615	CCDS1436.1, CCDS58057.1	1q32.1	2013-06-06			ENSG00000133063	ENSG00000133063			1936	protein-coding gene	gene with protein product		600031				9748235, 9492324	Standard	NM_003465		Approved	CHIT, CHI3	uc001gzn.2	Q13231	OTTHUMG00000042126	ENST00000367229.1:c.783C>A	1.37:g.203188924G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KNW6|J3KN09|Q0VGG5|Q0VGG6|Q3ZAR1|Q6ISC2|Q9H3V8|Q9UDJ8	Silent	SNP	ENST00000367229.1	37	CCDS1436.1																																																																																				0.612	CHIT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000100275.2	NM_003465		T	203188924	G	T	203188924	2	4	642	1	0	0	0	0	0	0	0	1	3348	1164	41	4		4	CHIT1	1	203188924	Silent	SNP	G	TCGA-KL-8343-01A-11D-2310-10	16905798	203188924	46061697	8	39701										
RD3	343035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	211654675	211654675	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ccgtcagctccatcataagcGtctccagcaccatctcagca	6	17	4	0	rs61740157	byFrequency	TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr1:211654675G>A	ENST00000367002.4	-	2	1246	c.83C>T	c.(82-84)aCg>aTg	p.T28M	RD3_ENST00000484910.1_Intron	NM_001164688.1|NM_183059.2	NP_001158160.1|NP_898882.1	Q7Z3Z2	RD3_HUMAN	retinal degeneration 3	28					response to stimulus (GO:0050896)|retina development in camera-type eye (GO:0060041)|visual perception (GO:0007601)					central_nervous_system(1)|large_intestine(3)|lung(4)|ovary(1)|prostate(1)	10				OV - Ovarian serous cystadenocarcinoma(81;0.00284)|all cancers(67;0.0279)|Epithelial(68;0.0689)		CATCATAAGCGTCTCCAGCAC	0.627													G|||	3	0.000599042	0.0023	0.0	5008	,	,		19913	0.0		0.0	False		,,,				2504	0.0															0								G	MET/THR,MET/THR	15,4391	22.3+/-47.3	0,15,2188	65	64	64		83,83	4.8	1	1	dbSNP_129	64	0,8600		0,0,4300	yes	missense,missense	RD3	NM_001164688.1,NM_183059.2	81,81	0,15,6488	AA,AG,GG		0.0,0.3404,0.1153	probably-damaging,probably-damaging	28/196,28/196	211654675	15,12991	2203	4300	6503	SO:0001583	missense	343035			AY191519	CCDS1498.1	1q32.3	2008-02-05	2006-11-13	2006-11-13	ENSG00000198570	ENSG00000198570			19689	protein-coding gene	gene with protein product		180040	"chromosome 1 open reading frame 36"	C1orf36		12914764	Standard	NM_183059		Approved	LCA12	uc001hin.2	Q7Z3Z2	OTTHUMG00000037002	ENST00000367002.4:c.83C>T	1.37:g.211654675G>A	ENSP00000355969:p.Thr28Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K595	Missense_Mutation	SNP	ENST00000367002.4	37	CCDS1498.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	G	24.3	4.516183	0.85495	0.003404	0.0	ENSG00000198570	ENST00000367002	T	0.15834	2.39	4.85	4.85	0.62838	.	0.000000	0.85682	D	0.000000	T	0.43122	0.1233	M	0.70595	2.14	0.54753	D	0.999987	D	0.89917	1.0	D	0.91635	0.999	T	0.32079	-0.9920	10	0.49607	T	0.09	-44.5479	18.3198	0.90234	0.0:0.0:1.0:0.0	.	28	Q7Z3Z2	RD3_HUMAN	M	28	ENSP00000355969:T28M	ENSP00000355969:T28M	T	-	2	0	RD3	209721298	1.000000	0.71417	0.997000	0.53966	0.776000	0.43924	8.904000	0.92590	2.395000	0.81488	0.561000	0.74099	ACG		0.627	RD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089837.1	NM_183059		A	211654675	G	A	211654675	3	1	642	1	0	0	0	0	1	0	0	0	13200	1145	40	1	512	1	RD3	1	211654675	Missense_Mutation	SNP	G	TCGA-KL-8343-01A-11D-2310-10	8465751	211654675	37595946	9	39702										
LYST	1130	ucsc.edu	37	chr1	235964396	235964396	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	gtttcagactttaagtctacCcctgaaaagagaaaagcgaa	8	8	2	3			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr1:235964396C>T	ENST00000389794.3	-	9	3888	c.3714G>A	c.(3712-3714)ggG>ggA	p.G1238G	LYST_ENST00000389793.2_Splice_Site_p.G1238G|LYST_ENST00000536965.1_Splice_Site_p.G1238G			Q99698	LYST_HUMAN	lysosomal trafficking regulator	1238					blood coagulation (GO:0007596)|defense response to bacterium (GO:0042742)|defense response to protozoan (GO:0042832)|defense response to virus (GO:0051607)|endosome to lysosome transport via multivesicular body sorting pathway (GO:0032510)|leukocyte chemotaxis (GO:0030595)|lysosome organization (GO:0007040)|mast cell secretory granule organization (GO:0033364)|melanosome organization (GO:0032438)|microtubule-based process (GO:0007017)|natural killer cell mediated cytotoxicity (GO:0042267)|neutrophil mediated immunity (GO:0002446)|phospholipid homeostasis (GO:0055091)|phospholipid metabolic process (GO:0006644)|pigmentation (GO:0043473)|positive regulation of natural killer cell activation (GO:0032816)|response to drug (GO:0042493)|secretion of lysosomal enzymes (GO:0033299)|T cell mediated immunity (GO:0002456)	cytosol (GO:0005829)|microtubule cytoskeleton (GO:0015630)				NS(1)|breast(13)|central_nervous_system(3)|cervix(3)|endometrium(17)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(27)|lung(66)|ovary(7)|pancreas(1)|prostate(4)|skin(4)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	162	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)			TTAAGTCTACCCCTGAAAAGA	0.333																																																0													70	73	72					1																	235964396		2202	4299	6501	SO:0001630	splice_region_variant	1130			U70064	CCDS31062.1	1q42.1-q42.2	2014-09-17	2004-12-09	2004-12-10	ENSG00000143669	ENSG00000143669		"WD repeat domain containing"	1968	protein-coding gene	gene with protein product		606897	"Chediak-Higashi syndrome 1"	CHS1		8717042, 8896560	Standard	NM_000081		Approved	CHS	uc001hxj.3	Q99698	OTTHUMG00000040527	ENST00000389794.3:c.3713-1G>A	1.37:g.235964396C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O43274|Q5T2U9|Q96TD7|Q96TD8|Q99709|Q9H133	Silent	SNP	ENST00000389794.3	37	CCDS31062.1																																																																																				0.333	LYST-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097533.5		Silent	T	235964396	C	T	235964396	5	4	642	1	0	0	0	0	0	0	1	0	9135	637	22	2	7871	2	LYST	1	235964396	Splice_Site	SNP	C	TCGA-KL-8343-01A-11D-2310-10	24309721	235964396	13286225	10	39703										
SDC1	6382	broad.mit.edu	37	chr2	20402642	20402642	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tcttcatgcggtacagcatgAaacccaccaggcacacagca	8	14	2	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr2:20402642A>G	ENST00000254351.4	-	5	1062	c.818T>C	c.(817-819)tTc>tCc	p.F273S	SDC1_ENST00000403076.1_Intron|SDC1_ENST00000381150.1_Missense_Mutation_p.F273S|SDC1_ENST00000482879.1_Intron	NM_002997.4	NP_002988	P18827	SDC1_HUMAN	syndecan 1	273					canonical Wnt signaling pathway (GO:0060070)|carbohydrate metabolic process (GO:0005975)|chondroitin sulfate metabolic process (GO:0030204)|extracellular matrix organization (GO:0030198)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|inflammatory response (GO:0006954)|lipoprotein metabolic process (GO:0042157)|myoblast development (GO:0048627)|odontogenesis (GO:0042476)|phototransduction, visible light (GO:0007603)|response to calcium ion (GO:0051592)|response to cAMP (GO:0051591)|response to glucocorticoid (GO:0051384)|response to hydrogen peroxide (GO:0042542)|response to toxic substance (GO:0009636)|retinoid metabolic process (GO:0001523)|Sertoli cell development (GO:0060009)|small molecule metabolic process (GO:0044281)|striated muscle cell development (GO:0055002)|ureteric bud development (GO:0001657)|wound healing (GO:0042060)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi lumen (GO:0005796)|integral component of plasma membrane (GO:0005887)|lysosomal lumen (GO:0043202)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	protein C-terminus binding (GO:0008022)			NS(1)|breast(1)|kidney(2)|large_intestine(2)|lung(9)|ovary(4)|skin(2)	21	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)			OV - Ovarian serous cystadenocarcinoma(76;0.221)		GTACAGCATGAAACCCACCAG	0.617																																																0													138	139	139					2																	20402642		2203	4300	6503	SO:0001583	missense	6382			AJ551176	CCDS1697.1	2p24.1	2008-02-05			ENSG00000115884	ENSG00000115884		"CD molecules", "Proteoglycans / Cell Surface : Syndecans"	10658	protein-coding gene	gene with protein product	"syndecan proteoglycan 1"	186355		SDC			Standard	XM_005262621		Approved	CD138, syndecan, SYND1	uc002rdo.1	P18827	OTTHUMG00000090751	ENST00000254351.4:c.818T>C	2.37:g.20402642A>G	ENSP00000254351:p.Phe273Ser	Somatic		WXS	Illumina HiSeq	Phase_I	D6W523|Q53QV0|Q546D3|Q96HB7	Missense_Mutation	SNP	ENST00000254351.4	37	CCDS1697.1	.	.	.	.	.	.	.	.	.	.	A	17.47	3.398474	0.62177	.	.	ENSG00000115884	ENST00000254351;ENST00000381150	T;T	0.28666	1.6;1.6	4.63	4.63	0.57726	.	0.000000	0.51477	D	0.000095	T	0.55625	0.1932	M	0.80847	2.515	0.51767	D	0.99993	D	0.76494	0.999	D	0.72338	0.977	T	0.62011	-0.6944	10	0.87932	D	0	-19.074	12.2904	0.54815	1.0:0.0:0.0:0.0	.	273	P18827	SDC1_HUMAN	S	273	ENSP00000254351:F273S;ENSP00000370542:F273S	ENSP00000254351:F273S	F	-	2	0	SDC1	20266123	1.000000	0.71417	0.995000	0.50966	0.117000	0.20001	9.101000	0.94219	1.849000	0.53698	0.459000	0.35465	TTC		0.617	SDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207495.1	NM_001006946		G	20402642	A	G	20402642	3	3	642	1	0	0	0	0	1	0	0	0	13964	246	9	3	118	3	SDC1	2	20402642	Missense_Mutation	SNP	A	TCGA-KL-8343-01A-11D-2310-10		20402642	222796731	11	39704										
TRIM54	57159	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	27527838	27527838	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	gtgtatcagagtgagctcagCgatggcatcgcgatgctggt	15	8	2	2			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr2:27527838C>A	ENST00000380075.2	+	4	865	c.525C>A	c.(523-525)agC>agA	p.S175R	TRIM54_ENST00000296098.4_Missense_Mutation_p.S217R	NM_187841.2	NP_912730.2	Q9BYV2	TRI54_HUMAN	tripartite motif containing 54	175	Mediates microtubule-binding and homooligomerization. {ECO:0000250}.				cell differentiation (GO:0030154)|microtubule-based process (GO:0007017)|multicellular organismal development (GO:0007275)|negative regulation of microtubule depolymerization (GO:0007026)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)	signal transducer activity (GO:0004871)|zinc ion binding (GO:0008270)			cervix(1)|endometrium(1)|large_intestine(3)|lung(2)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	13	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTGAGCTCAGCGATGGCATCG	0.607																																																0													85	65	72					2																	27527838		2203	4300	6503	SO:0001583	missense	57159			AJ291714	CCDS1745.2, CCDS1746.2	2p23.3	2013-01-09	2011-01-25	2004-11-17	ENSG00000138100	ENSG00000138100		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	16008	protein-coding gene	gene with protein product		606474	"ring finger protein 30", "tripartite motif-containing 54"	RNF30		11243782	Standard	NM_032546		Approved	MURF, MURF-3	uc002rjn.3	Q9BYV2	OTTHUMG00000097078	ENST00000380075.2:c.525C>A	2.37:g.27527838C>A	ENSP00000369415:p.Ser175Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A5D8T7|Q53SY4|Q9BYV3	Missense_Mutation	SNP	ENST00000380075.2	37	CCDS1746.2	.	.	.	.	.	.	.	.	.	.	C	19.37	3.813742	0.70912	.	.	ENSG00000138100	ENST00000380075;ENST00000296098	T;T	0.56611	0.45;2.44	5.77	-8.68	0.00859	.	0.000000	0.85682	D	0.000000	T	0.46190	0.1380	L	0.51422	1.61	0.45087	D	0.998104	B;P	0.40534	0.058;0.72	B;P	0.44860	0.028;0.462	T	0.61237	-0.7103	10	0.33940	T	0.23	-19.0914	17.7535	0.88442	0.0:0.7584:0.0:0.2416	.	175;217	Q9BYV2;Q9BYV2-2	TRI54_HUMAN;.	R	175;217	ENSP00000369415:S175R;ENSP00000296098:S217R	ENSP00000296098:S217R	S	+	3	2	TRIM54	27381342	0.000000	0.05858	0.533000	0.28001	0.981000	0.71138	-1.638000	0.02013	-1.882000	0.01122	-0.291000	0.09656	AGC		0.607	TRIM54-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214199.2	NM_187841		A	27527838	C	A	27527838	3	1	642	1	0	0	0	0	1	0	0	0	16540	767	27	4	669	4	TRIM54	2	27527838	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10	7125196	27527838	215671535	12	39705										
EIF2B4	8890	mdanderson.org	37	chr2	27592316	27592316	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	cagatacagcagagccagtcTctggttctgcccccttttct	8	14	3	2			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr2:27592316T>C	ENST00000347454.4	-	3	347	c.176A>G	c.(175-177)gAg>gGg	p.E59G	SNX17_ENST00000542478.1_5'Flank|SNX17_ENST00000537606.1_5'Flank|SNX17_ENST00000543024.1_5'Flank|EIF2B4_ENST00000445933.2_Missense_Mutation_p.E59G|EIF2B4_ENST00000493344.2_Missense_Mutation_p.E80G|EIF2B4_ENST00000451130.2_Missense_Mutation_p.E80G|AC074117.10_ENST00000412749.1_RNA|SNX17_ENST00000233575.2_5'Flank	NM_001034116.1|NM_015636.3	NP_001029288.1|NP_056451.3	Q9UI10	EI2BD_HUMAN	eukaryotic translation initiation factor 2B, subunit 4 delta, 67kDa	59					cellular protein metabolic process (GO:0044267)|cellular response to stimulus (GO:0051716)|gene expression (GO:0010467)|myelination (GO:0042552)|negative regulation of translational initiation (GO:0045947)|negative regulation of translational initiation in response to stress (GO:0032057)|oligodendrocyte development (GO:0014003)|ovarian follicle development (GO:0001541)|positive regulation of GTPase activity (GO:0043547)|regulation of translation (GO:0006417)|regulation of translational initiation (GO:0006446)|response to glucose (GO:0009749)|response to heat (GO:0009408)|response to peptide hormone (GO:0043434)|translation (GO:0006412)|translational initiation (GO:0006413)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|eukaryotic translation initiation factor 2B complex (GO:0005851)	translation initiation factor activity (GO:0003743)|translation initiation factor binding (GO:0031369)			breast(1)|cervix(1)|endometrium(1)|kidney(1)|lung(5)|skin(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGAGCCAGTCTCTGGTTCTGC	0.522																																																0													233	194	207					2																	27592316		2203	4300	6503	SO:0001583	missense	8890			AJ011306	CCDS33164.1, CCDS46244.1, CCDS46245.1	2p23.3	2008-02-05	2002-08-29		ENSG00000115211	ENSG00000115211			3260	protein-coding gene	gene with protein product		606687	"eukaryotic translation initiation factor 2B, subunit 4 (delta, 67kD)"			8929216, 7982969	Standard	NM_172195		Approved	EIF2Bdelta, EIF-2B, DKFZP586J0119, EIF2B	uc002rjz.3	Q9UI10	OTTHUMG00000151927	ENST00000347454.4:c.176A>G	2.37:g.27592316T>C	ENSP00000233552:p.Glu59Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q53RY7|Q5BJF4|Q9BUV9|Q9UBG4|Q9UIQ9|Q9UJ95	Missense_Mutation	SNP	ENST00000347454.4	37	CCDS33164.1	.	.	.	.	.	.	.	.	.	.	T	19.52	3.843101	0.71488	.	.	ENSG00000115211	ENST00000347454;ENST00000414437;ENST00000445933;ENST00000451130;ENST00000493344	D;D;D;D	0.94828	-3.53;-3.53;-3.53;-3.53	4.87	3.65	0.41850	.	0.570797	0.19966	N	0.102106	D	0.91583	0.7341	L	0.46157	1.445	0.47441	D	0.999425	P;B;B;B;B	0.44139	0.827;0.277;0.277;0.181;0.277	B;B;B;B;B	0.44133	0.442;0.053;0.053;0.024;0.053	D	0.90164	0.4230	10	0.45353	T	0.12	-3.4995	8.6998	0.34318	0.0:0.0:0.191:0.809	.	53;57;59;59;80	Q59FC8;F5H6W1;Q9UI10-3;Q9UI10;Q9UI10-2	.;.;.;EI2BD_HUMAN;.	G	59;57;59;80;80	ENSP00000233552:E59G;ENSP00000394397:E59G;ENSP00000394869:E80G;ENSP00000429323:E80G	ENSP00000233552:E59G	E	-	2	0	EIF2B4	27445820	0.006000	0.16342	0.169000	0.22859	0.969000	0.65631	0.807000	0.27140	2.049000	0.60858	0.459000	0.35465	GAG		0.522	EIF2B4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000324448.1			C	27592316	T	C	27592316	3	2	642	1	0	0	0	0	1	0	0	0	5005	1551	54	3	1439	3	EIF2B4	2	27592316	Missense_Mutation	SNP	T	TCGA-KL-8343-01A-11D-2310-10	64478	27592316	215607057	13	39706										
IMMT	10989	bcgsc.ca	37	chr2	86408441	86408441	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	cccagagctgcctgaagtagAgtatctgcggcatggtcgca	13	11	1	3			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr2:86408441A>G	ENST00000410111.3	-	2	487	c.100T>C	c.(100-102)Tct>Cct	p.S34P	IMMT_ENST00000442664.2_Missense_Mutation_p.S34P|IMMT_ENST00000254636.5_5'UTR|IMMT_ENST00000449247.2_Missense_Mutation_p.S34P|IMMT_ENST00000409051.2_Missense_Mutation_p.S34P	NM_001100169.1|NM_001100170.1|NM_006839.2	NP_001093639.1|NP_001093640.1|NP_006830.2	Q16891	MIC60_HUMAN	inner membrane protein, mitochondrial	34					mitochondrial calcium ion homeostasis (GO:0051560)|response to cold (GO:0009409)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(1)|kidney(3)|large_intestine(9)|lung(12)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	30						CCTGAAGTAGAGTATCTGCGG	0.443																																																0													73	71	72					2																	86408441		1931	4130	6061	SO:0001583	missense	10989			D21094	CCDS46355.1, CCDS46356.1, CCDS46357.1	2p11.2	2011-10-04	2010-04-29		ENSG00000132305	ENSG00000132305			6047	protein-coding gene	gene with protein product	"mitofilin", "mitochondrial inner membrane organizing system 2"	600378	"inner membrane protein, mitochondrial (mitofilin)"			9168817, 8039717	Standard	NM_001100169		Approved	P87, P89, HMP, MINOS2	uc002sqz.4	Q16891	OTTHUMG00000153170	ENST00000410111.3:c.100T>C	2.37:g.86408441A>G	ENSP00000387262:p.Ser34Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B1H0U5|B2R5N6|Q14539|Q15092|Q68D41|Q69HW5|Q6IBL0|Q7Z3X1|Q8TAJ5|Q9P0V2	Missense_Mutation	SNP	ENST00000410111.3	37	CCDS46355.1	.	.	.	.	.	.	.	.	.	.	A	14.42	2.529243	0.44969	.	.	ENSG00000132305	ENST00000449247;ENST00000410111;ENST00000442664;ENST00000409051;ENST00000545283;ENST00000377310;ENST00000398211;ENST00000409715	T;T;T;T	0.37058	1.22;1.24;1.24;1.3	5.55	5.55	0.83447	.	0.178411	0.50627	D	0.000117	T	0.34454	0.0898	L	0.27053	0.805	0.35412	D	0.792516	B;B;B;D;B;B;B;B;B	0.53462	0.003;0.001;0.002;0.96;0.02;0.005;0.003;0.005;0.002	B;B;B;P;B;B;B;B;B	0.49451	0.018;0.003;0.008;0.611;0.026;0.03;0.018;0.03;0.008	T	0.49409	-0.8943	10	0.59425	D	0.04	-12.2889	12.1652	0.54125	0.8575:0.1425:0.0:0.0	.	34;34;34;34;34;34;34;34;34	F5GZ32;B9A067;B4DKR1;Q05DN3;B4E2B5;F8W9I1;Q16891-2;Q16891-3;Q16891	.;.;.;.;.;.;.;.;IMMT_HUMAN	P	34	ENSP00000396899:S34P;ENSP00000387262:S34P;ENSP00000407788:S34P;ENSP00000387227:S34P	ENSP00000366526:S34P	S	-	1	0	IMMT	86261952	1.000000	0.71417	0.997000	0.53966	0.887000	0.51463	3.512000	0.53407	2.118000	0.64928	0.533000	0.62120	TCT		0.443	IMMT-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000329909.2	NM_006839		G	86408441	A	G	86408441	3	3	642	1	0	0	0	0	1	0	0	0	7725	304	11	3	2232	3	IMMT	2	86408441	Missense_Mutation	SNP	A	TCGA-KL-8343-01A-11D-2310-10	58816125	86408441	156790932	14	39707										
IL18RAP	8807	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	103068475	103068475	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ttggagaggcttaaaatcagTtcctcccaattctaggttct	8	9	3	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr2:103068475T>A	ENST00000264260.2	+	12	2223	c.1634T>A	c.(1633-1635)gTt>gAt	p.V545D	IL18RAP_ENST00000409369.1_Missense_Mutation_p.V403D	NM_003853.2	NP_003844.1	O95256	I18RA_HUMAN	interleukin 18 receptor accessory protein	545	TIR. {ECO:0000255|PROSITE- ProRule:PRU00204}.				cell surface receptor signaling pathway (GO:0007166)|immune response (GO:0006955)|inflammatory response (GO:0006954)	integral component of membrane (GO:0016021)	receptor activity (GO:0004872)			autonomic_ganglia(1)|central_nervous_system(2)|endometrium(3)|kidney(4)|large_intestine(5)|lung(10)|ovary(2)|prostate(1)|skin(5)|urinary_tract(4)	37						TTAAAATCAGTTCCTCCCAAT	0.453																																																0													129	139	135					2																	103068475		2203	4300	6503	SO:0001583	missense	8807			AF077346	CCDS2061.1	2q12.1	2013-01-11			ENSG00000115607	ENSG00000115607		"Interleukins and interleukin receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5989	protein-coding gene	gene with protein product		604509				9792649	Standard	XM_005264034		Approved	AcPL, CD218b	uc002tbx.3	O95256	OTTHUMG00000130777	ENST00000264260.2:c.1634T>A	2.37:g.103068475T>A	ENSP00000264260:p.Val545Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPJ3|Q3KPE7|Q3KPE8|Q53TT4|Q53TU5	Missense_Mutation	SNP	ENST00000264260.2	37	CCDS2061.1	.	.	.	.	.	.	.	.	.	.	T	15.13	2.743358	0.49151	.	.	ENSG00000115607	ENST00000264260;ENST00000409369	T;T	0.07800	3.16;3.16	6.02	2.36	0.29203	Toll/interleukin-1 receptor homology (TIR) domain (4);	0.409080	0.22957	N	0.053587	T	0.07369	0.0186	L	0.51422	1.61	0.19300	N	0.999979	P	0.42584	0.784	B	0.42522	0.39	T	0.18650	-1.0330	10	0.12430	T	0.62	.	3.9251	0.09261	0.0:0.3914:0.2101:0.3985	.	545	O95256	I18RA_HUMAN	D	545;403	ENSP00000264260:V545D;ENSP00000387201:V403D	ENSP00000264260:V545D	V	+	2	0	IL18RAP	102434907	0.000000	0.05858	0.038000	0.18304	0.871000	0.50021	0.579000	0.23788	0.516000	0.28340	0.528000	0.53228	GTT		0.453	IL18RAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253291.2	NM_003853		A	103068475	T	A	103068475	3	1	642	1	0	0	0	0	1	0	0	0	7655	1725	60	5	1672	5	IL18RAP	2	103068475	Missense_Mutation	SNP	T	TCGA-KL-8343-01A-11D-2310-10	16660034	103068475	140130898	15	39708										
SAP130	79595	broad.mit.edu;bcgsc.ca	37	chr2	128747329	128747329	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	gctggatcccttgaatatgtCgagcatgcgatgcatccact	10	11	0	1	rs199755359		TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr2:128747329C>A	ENST00000259235.3	-	13	1796	c.1667G>T	c.(1666-1668)cGa>cTa	p.R556L	SAP130_ENST00000259234.6_Missense_Mutation_p.R530L|SAP130_ENST00000357702.5_Missense_Mutation_p.R556L	NM_024545.3	NP_078821.2	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa	556					chromatin organization (GO:0006325)|histone H3 acetylation (GO:0043966)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|STAGA complex (GO:0030914)	transcription coactivator activity (GO:0003713)			NS(4)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(11)|lung(10)|ovary(2)|prostate(1)|skin(5)|urinary_tract(2)	45	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		TTGAATATGTCGAGCATGCGA	0.577																																																0													116	98	104					2																	128747329		2203	4300	6503	SO:0001583	missense	79595			BC017453	CCDS2153.1, CCDS54397.1	2q14.3	2008-02-05	2006-02-02		ENSG00000136715	ENSG00000136715			29813	protein-coding gene	gene with protein product		609697	"sin3A-associated protein, 130kDa"			11230166, 12724404	Standard	NM_001145928		Approved	FLJ12761	uc010fmd.2	Q9H0E3	OTTHUMG00000131571	ENST00000259235.3:c.1667G>T	2.37:g.128747329C>A	ENSP00000259235:p.Arg556Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLM3|C9K0X9|Q4ZFV4|Q53T46|Q8WVW4|Q9H9G8	Missense_Mutation	SNP	ENST00000259235.3	37	CCDS2153.1	.	.	.	.	.	.	.	.	.	.	C	18.20	3.571602	0.65765	.	.	ENSG00000136715	ENST00000357702;ENST00000259235;ENST00000259234	.	.	.	5.56	4.68	0.58851	.	0.000000	0.64402	D	0.000007	T	0.62901	0.2466	L	0.27053	0.805	0.47778	D	0.999513	D;P;P;D;P	0.71674	0.998;0.901;0.761;0.997;0.901	D;B;B;D;B	0.80764	0.994;0.338;0.272;0.98;0.372	T	0.60276	-0.7295	9	0.27785	T	0.31	-10.0439	14.5671	0.68185	0.0:0.9295:0.0:0.0705	.	556;529;556;86;194	B7ZLM3;Q96DP1;Q9H0E3;Q9H0E3-2;B3KRT9	.;.;SP130_HUMAN;.;.	L	556;556;530	.	ENSP00000259234:R530L	R	-	2	0	SAP130	128463799	1.000000	0.71417	0.999000	0.59377	0.989000	0.77384	5.225000	0.65294	1.334000	0.45468	0.655000	0.94253	CGA		0.577	SAP130-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000254436.3	NM_024545		A	128747329	C	A	128747329	3	1	642	1	0	0	0	0	1	0	0	0	13844	884	31	4	1620	4	SAP130	2	128747329	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10	25678854	128747329	114452044	16	39709										
HSPD1	3329	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	198358117	198358117	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ttatgaccaaaggcttacggTgagcattggcaatttcaaga	10	7	1	3			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr2:198358117T>A	ENST00000388968.3	-	7	1067	c.800A>T	c.(799-801)cAc>cTc	p.H267L	HSPD1_ENST00000345042.2_Missense_Mutation_p.H267L	NM_002156.4	NP_002147.2	P10809	CH60_HUMAN	heat shock 60kDa protein 1 (chaperonin)	267					'de novo' protein folding (GO:0006458)|activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|ATP catabolic process (GO:0006200)|B cell activation (GO:0042113)|B cell cytokine production (GO:0002368)|B cell proliferation (GO:0042100)|chaperone-mediated protein complex assembly (GO:0051131)|isotype switching to IgG isotypes (GO:0048291)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|negative regulation of apoptotic process (GO:0043066)|positive regulation of apoptotic process (GO:0043065)|positive regulation of interferon-alpha production (GO:0032727)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interleukin-10 production (GO:0032733)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of macrophage activation (GO:0043032)|positive regulation of T cell activation (GO:0050870)|positive regulation of T cell mediated immune response to tumor cell (GO:0002842)|protein maturation (GO:0051604)|protein refolding (GO:0042026)|protein stabilization (GO:0050821)|response to unfolded protein (GO:0006986)|T cell activation (GO:0042110)|viral process (GO:0016032)	cell surface (GO:0009986)|coated pit (GO:0005905)|coated vesicle (GO:0030135)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|early endosome (GO:0005769)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|lipopolysaccharide receptor complex (GO:0046696)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|secretory granule (GO:0030141)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|chaperone binding (GO:0051087)|DNA replication origin binding (GO:0003688)|double-stranded RNA binding (GO:0003725)|lipopolysaccharide binding (GO:0001530)|p53 binding (GO:0002039)|poly(A) RNA binding (GO:0044822)|single-stranded DNA binding (GO:0003697)|unfolded protein binding (GO:0051082)			NS(1)|breast(3)|endometrium(2)|large_intestine(3)|lung(7)|skin(1)	17			Epithelial(96;0.225)			AGGCTTACGGTGAGCATTGGC	0.388																																																0													112	112	112					2																	198358117		2203	4300	6503	SO:0001583	missense	3329			M34664	CCDS33357.1	2q33.1	2011-09-02	2002-08-29		ENSG00000144381	ENSG00000144381		"Heat Shock Proteins / Chaperonins"	5261	protein-coding gene	gene with protein product		118190	"heat shock 60kD protein 1 (chaperonin)", "spastic paraplegia 13 (autosomal dominant)"	SPG13		1980192, 11898127	Standard	NM_002156		Approved	GROEL, HSP60	uc002uui.3	P10809	OTTHUMG00000154463	ENST00000388968.3:c.800A>T	2.37:g.198358117T>A	ENSP00000373620:p.His267Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5M6|B7Z712|Q38L19|Q9UCR6	Missense_Mutation	SNP	ENST00000388968.3	37	CCDS33357.1	.	.	.	.	.	.	.	.	.	.	T	14.83	2.651586	0.47362	.	.	ENSG00000144381	ENST00000388968;ENST00000345042;ENST00000536745	T;T	0.77098	-1.07;-1.07	5.33	5.33	0.75918	.	0.043715	0.85682	D	0.000000	T	0.68128	0.2967	N	0.17922	0.545	0.80722	D	1	B;B;B	0.27910	0.001;0.001;0.193	B;B;B	0.31390	0.005;0.003;0.129	T	0.68667	-0.5348	10	0.59425	D	0.04	-2.7515	15.5821	0.76452	0.0:0.0:0.0:1.0	.	258;267;267	B7Z597;B3GQS7;P10809	.;.;CH60_HUMAN	L	267;267;123	ENSP00000373620:H267L;ENSP00000340019:H267L	ENSP00000340019:H267L	H	-	2	0	HSPD1	198066362	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.941000	0.87700	2.139000	0.66308	0.477000	0.44152	CAC		0.388	HSPD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335324.2	NM_002156		A	198358117	T	A	198358117	3	1	642	1	0	0	0	0	1	0	0	0	7435	1696	59	5	945	5	HSPD1	2	198358117	Missense_Mutation	SNP	T	TCGA-KL-8343-01A-11D-2310-10	69610788	198358117	44841256	17	39710										
KIAA1486	57624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	226273811	226273811	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ccgaagacaagaagaagcaaTaaagcggtaaatataaataa	8	5	0	3			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr2:226273811T>A	ENST00000272907.6	+	2	628	c.215T>A	c.(214-216)aTa>aAa	p.I72K	NYAP2_ENST00000409269.2_Missense_Mutation_p.I72K	NM_020864.1	NP_065915.1	Q9P242	NYAP2_HUMAN	neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adaptor 2	72					neuron projection morphogenesis (GO:0048812)|phosphatidylinositol 3-kinase signaling (GO:0014065)												GAAGAAGCAATAAAGCGGtaa	0.373																																																0													39	33	35					2																	226273811		1831	4072	5903	SO:0001583	missense	57624			AB040919	CCDS46529.1	2q36.3	2011-11-30	2011-11-30	2011-11-30	ENSG00000144460	ENSG00000144460			29291	protein-coding gene	gene with protein product		615478	"KIAA1486"	KIAA1486		10819331, 21946561	Standard	NM_020864		Approved		uc002voe.2	Q9P242	OTTHUMG00000153450	ENST00000272907.6:c.215T>A	2.37:g.226273811T>A	ENSP00000272907:p.Ile72Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRN4|Q96NL2	Missense_Mutation	SNP	ENST00000272907.6	37	CCDS46529.1	.	.	.	.	.	.	.	.	.	.	T	21.6	4.173537	0.78452	.	.	ENSG00000144460	ENST00000272907;ENST00000409269	T	0.39787	1.06	5.82	5.82	0.92795	.	0.055198	0.64402	D	0.000002	T	0.54983	0.1892	L	0.50333	1.59	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.85130	0.997;0.997	T	0.49818	-0.8899	10	0.06494	T	0.89	-26.1855	16.1986	0.82053	0.0:0.0:0.0:1.0	.	72;72	Q9P242-2;Q9P242	.;K1486_HUMAN	K	72	ENSP00000272907:I72K	ENSP00000272907:I72K	I	+	2	0	KIAA1486	225982055	1.000000	0.71417	1.000000	0.80357	0.941000	0.58515	7.160000	0.77495	2.227000	0.72691	0.455000	0.32223	ATA		0.373	NYAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331258.1	NM_020864		A	226273811	T	A	226273811	3	1	642	1	0	0	0	0	1	0	0	0	8244	1406	49	5	217	5	KIAA1486	2	226273811	Missense_Mutation	SNP	T	TCGA-KL-8343-01A-11D-2310-10	27915694	226273811	16925562	18	39711										
ROBO2	6092	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	77645803	77645803	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tcttctcaatgctggtgatcCcagctatccatggcttgctg	9	12	2	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr3:77645803C>T	ENST00000461745.1	+	19	3656	c.2756C>T	c.(2755-2757)cCc>cTc	p.P919L	ROBO2_ENST00000487694.3_Missense_Mutation_p.P935L|ROBO2_ENST00000332191.8_Missense_Mutation_p.P919L	NM_002942.4	NP_002933.1	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2 (Drosophila)	919					apoptotic process involved in luteolysis (GO:0061364)|axon guidance (GO:0007411)|axon midline choice point recognition (GO:0016199)|brain development (GO:0007420)|cellular response to hormone stimulus (GO:0032870)|central nervous system development (GO:0007417)|homophilic cell adhesion (GO:0007156)|metanephros development (GO:0001656)|negative regulation of negative chemotaxis (GO:0050925)|negative regulation of synapse assembly (GO:0051964)|olfactory bulb interneuron development (GO:0021891)|positive regulation of axonogenesis (GO:0050772)|retinal ganglion cell axon guidance (GO:0031290)|ureteric bud development (GO:0001657)	axolemma (GO:0030673)|cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	axon guidance receptor activity (GO:0008046)|identical protein binding (GO:0042802)			NS(1)|biliary_tract(5)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(23)|liver(1)|lung(52)|ovary(2)|pancreas(2)|prostate(5)|skin(8)|upper_aerodigestive_tract(1)	117				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		GCTGGTGATCCCAGCTATCCA	0.458																																																0													144	140	141					3																	77645803		1863	4115	5978	SO:0001583	missense	6092			AF040991	CCDS43109.1, CCDS54609.1	3p12.3	2013-02-11	2001-11-28		ENSG00000185008	ENSG00000185008		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	10250	protein-coding gene	gene with protein product		602431	"roundabout (axon guidance receptor, Drosophila) homolog 2"			9458045	Standard	NM_002942		Approved	KIAA1568	uc003dpy.4	Q9HCK4	OTTHUMG00000158935	ENST00000461745.1:c.2756C>T	3.37:g.77645803C>T	ENSP00000417164:p.Pro919Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O43608|Q19AB4|Q19AB5	Missense_Mutation	SNP	ENST00000461745.1	37	CCDS43109.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	16.42|16.42	3.119351|3.119351	0.56505|0.56505	.|.	.|.	ENSG00000185008|ENSG00000185008	ENST00000487694;ENST00000403211;ENST00000343019;ENST00000461745;ENST00000332191|ENST00000490991	T;T;T|T	0.62498|0.66638	0.02;0.05;0.05|-0.22	6.16|6.16	6.16|6.16	0.99307|0.99307	.|.	0.148737|0.148737	0.30989|0.30989	N|N	0.008470|0.008470	T|T	0.77980|0.77980	0.4212|0.4212	L|L	0.58101|0.58101	1.795|1.795	.|.	.|.	.|.	P;D;B|.	0.54601|.	0.883;0.967;0.047|.	B;P;B|.	0.49252|.	0.4;0.604;0.017|.	T|T	0.73528|0.73528	-0.3954|-0.3954	9|7	0.66056|0.41790	D|T	0.02|0.15	.|.	20.8598|20.8598	0.99761|0.99761	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	935;919;919|.	Q19AB5;F8W703;Q9HCK4|.	.;.;ROBO2_HUMAN|.	L|S	935;935;939;919;919|76	ENSP00000417335:P935L;ENSP00000417164:P919L;ENSP00000327536:P919L|ENSP00000418344:P76S	ENSP00000327536:P919L|ENSP00000418344:P76S	P|P	+|+	2|1	0|0	ROBO2|ROBO2	77728493|77728493	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.909000|0.909000	0.53808|0.53808	7.270000|7.270000	0.78493|0.78493	2.937000|2.937000	0.99478|0.99478	0.650000|0.650000	0.86243|0.86243	CCC|CCA		0.458	ROBO2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000352600.2	XM_031246		T	77645803	C	T	77645803	3	4	642	1	0	0	0	0	1	0	0	0	13527	623	22	2	2832	2	ROBO2	3	77645803	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10		77645803	120376627	19	39712										
POU1F1	5449	bcgsc.ca	37	chr3	87311219	87311219	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	cttcagagacacaatttagtAcctcctacttgctcagcttc	5	13	2	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr3:87311219A>G	ENST00000350375.2	-	4	729		c.e4+1		POU1F1_ENST00000560656.1_Intron|POU1F1_ENST00000344265.3_Splice_Site	NM_000306.2	NP_000297.1	P28069	PIT1_HUMAN	POU class 1 homeobox 1						B cell differentiation (GO:0030183)|cell fate specification (GO:0001708)|determination of adult lifespan (GO:0008340)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nuclear transport (GO:0051169)|positive regulation of cell proliferation (GO:0008284)|positive regulation of inositol trisphosphate biosynthetic process (GO:0032962)|positive regulation of multicellular organism growth (GO:0040018)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of insulin-like growth factor receptor signaling pathway (GO:0043567)|somatotropin secreting cell development (GO:0060133)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II transcription coactivator activity (GO:0001105)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			central_nervous_system(1)|large_intestine(5)|liver(1)|lung(7)|prostate(2)|skin(2)	18	all_cancers(8;0.104)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00229)|Lung(72;0.00677)		ACAATTTAGTACCTCCTACTT	0.388																																																0													119	112	115					3																	87311219		2203	4300	6503	SO:0001630	splice_region_variant	5449			D10216	CCDS2919.1, CCDS46873.1	3p11.2	2011-06-20	2007-07-13		ENSG00000064835	ENSG00000064835		"Homeoboxes / POU class"	9210	protein-coding gene	gene with protein product	"growth hormone factor 1"	173110	"POU domain class 1, transcription factor 1"	PIT1		1956794	Standard	NM_001122757		Approved	GHF-1, POU1F1a	uc010hoj.1	P28069	OTTHUMG00000158992	ENST00000350375.2:c.604+1T>C	3.37:g.87311219A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O75757|Q15132|Q15133|Q9UD34|Q9UEL3	Splice_Site	SNP	ENST00000350375.2	37	CCDS2919.1	.	.	.	.	.	.	.	.	.	.	A	14.52	2.560317	0.45590	.	.	ENSG00000064835	ENST00000350375;ENST00000344265	.	.	.	5.37	5.37	0.77165	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.3807	0.60766	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	POU1F1	87393909	1.000000	0.71417	0.996000	0.52242	0.541000	0.35023	7.146000	0.77373	2.257000	0.74773	0.528000	0.53228	.		0.388	POU1F1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352827.1	NM_000306	Intron	G	87311219	A	G	87311219	5	3	642	1	0	0	0	0	0	0	1	0	12276	405	14	3	281	3	POU1F1	3	87311219	Splice_Site	SNP	A	TCGA-KL-8343-01A-11D-2310-10	9665416	87311219	110711211	20	39713										
ZBTB11	27107	broad.mit.edu	37	chr3	101395694	101395694	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	cattgccctcggtgcccggcGcatacggctcgcgctcgttc	12	17	0	0			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr3:101395694G>A	ENST00000312938.4	-	1	645	c.65C>T	c.(64-66)gCg>gTg	p.A22V	ZBTB11_ENST00000461821.1_Missense_Mutation_p.A22V|ZBTB11-AS1_ENST00000609682.1_RNA|ZBTB11-AS1_ENST00000536865.1_RNA	NM_014415.3	NP_055230.2	O95625	ZBT11_HUMAN	zinc finger and BTB domain containing 11	22					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(6)|kidney(2)|large_intestine(7)|lung(14)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	37						GGTGCCCGGCGCATACGGCTC	0.657																																																0													27	26	26					3																	101395694		2191	4289	6480	SO:0001583	missense	27107			U69274	CCDS2943.1	3q12.3	2013-01-09			ENSG00000066422	ENSG00000066422		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	16740	protein-coding gene	gene with protein product							Standard	NM_014415		Approved	ZNF-U69274, ZNF913	uc003dve.4	O95625	OTTHUMG00000159133	ENST00000312938.4:c.65C>T	3.37:g.101395694G>A	ENSP00000326200:p.Ala22Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKP9	Missense_Mutation	SNP	ENST00000312938.4	37	CCDS2943.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	37|37	6.066317|6.066317	0.97251|0.97251	.|.	.|.	ENSG00000066422|ENSG00000256628	ENST00000312938;ENST00000461821|ENST00000536865	T;T|.	0.62498|.	0.02;0.02|.	5.72|5.72	5.72|5.72	0.89469|0.89469	.|.	.|0.814523	.|0.09980	.|U	.|0.731163	T|T	0.71409|0.71409	0.3336|0.3336	L|L	0.55481|0.55481	1.735|1.735	0.80722|0.80722	D|D	1|1	D;D|D	0.89917|0.57257	1.0;0.992|0.979	D;P|P	0.68039|0.50049	0.955;0.609|0.629	T|T	0.71886|0.71886	-0.4457|-0.4457	9|9	0.87932|0.87932	D|D	0|0	-10.3773|-10.3773	19.8722|19.8722	0.96854|0.96854	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	22;22|69	C9J2L2;O95625|Q9BTX9	.;ZBT11_HUMAN|YC010_HUMAN	V|H	22|69	ENSP00000326200:A22V;ENSP00000417369:A22V|.	ENSP00000326200:A22V|ENSP00000444544:R69H	A|R	-|+	2|2	0|0	ZBTB11|AC084198.1	102878384|102878384	1.000000|1.000000	0.71417|0.71417	0.975000|0.975000	0.42487|0.42487	0.749000|0.749000	0.42624|0.42624	9.130000|9.130000	0.94437|0.94437	2.700000|2.700000	0.92200|0.92200	0.585000|0.585000	0.79938|0.79938	GCG|CGC		0.657	ZBTB11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353441.2	NM_014415		A	101395694	G	A	101395694	3	1	642	1	0	0	0	0	1	0	0	0	17536	1087	38	1	3140	1	ZBTB11	3	101395694	Missense_Mutation	SNP	G	TCGA-KL-8343-01A-11D-2310-10	14084475	101395694	96626736	21	39714										
COL6A5	256076	broad.mit.edu	37	chr3	130114173	130114173	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tggttttgggcataggagatGtttataaggaacatctcctg	12	5	1	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr3:130114173G>T	ENST00000432398.2	+	8	3927	c.3433G>T	c.(3433-3435)Gtt>Ttt	p.V1145F	COL6A5_ENST00000265379.6_Missense_Mutation_p.V1145F	NM_153264.5	NP_694996.5	A8TX70	CO6A5_HUMAN	collagen, type VI, alpha 5	1145	Nonhelical region.|VWFA 6. {ECO:0000255|PROSITE- ProRule:PRU00219}.				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)				endometrium(6)|kidney(4)|large_intestine(8)|lung(19)|pancreas(2)|prostate(3)|stomach(1)|urinary_tract(1)	44						CATAGGAGATGTTTATAAGGA	0.373																																																0													26	24	24					3																	130114173		692	1591	2283	SO:0001583	missense	256076			AK093199		3q21.3	2013-01-16	2010-05-24	2010-05-24	ENSG00000172752	ENSG00000172752		"Collagens"	26674	protein-coding gene	gene with protein product	"von Willebrand factor A domain containing 4"	611916	"collagen, type XXIX, alpha 1"	COL29A1		17850181	Standard	NM_153264		Approved	FLJ35880, VWA4	uc010htk.2	A8TX70	OTTHUMG00000159712	ENST00000432398.2:c.3433G>T	3.37:g.130114173G>T	ENSP00000390895:p.Val1145Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A9J6L2|A9J6L4|A9J6L6|A9J6L7|A9J6M0|A9J6M1|A9J6M2|B5MEA7|Q6ZW26|Q8NA36	Missense_Mutation	SNP	ENST00000432398.2	37		.	.	.	.	.	.	.	.	.	.	G	9.881	1.201710	0.22121	.	.	ENSG00000172752	ENST00000432398;ENST00000265379	T;T	0.79653	-1.29;-1.29	5.31	3.38	0.38709	.	.	.	.	.	D	0.82388	0.5026	L	0.54323	1.7	0.09310	N	1	D	0.56287	0.975	P	0.59643	0.861	T	0.70615	-0.4823	9	0.59425	D	0.04	.	3.9523	0.09374	0.0876:0.1527:0.5773:0.1824	.	1145	A8TX70-2	.	F	1145	ENSP00000390895:V1145F;ENSP00000265379:V1145F	ENSP00000265379:V1145F	V	+	1	0	COL6A5	131596863	0.250000	0.23951	0.003000	0.11579	0.472000	0.32918	1.059000	0.30517	0.505000	0.28104	0.491000	0.48974	GTT		0.373	COL6A5-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_153264		T	130114173	G	T	130114173	3	4	642	1	0	0	0	0	1	0	0	0	3704	1377	48	4	3459	4	COL6A5	3	130114173	Missense_Mutation	SNP	G	TCGA-KL-8343-01A-11D-2310-10	28718479	130114173	67908257	22	39715										
TOPBP1	11073	broad.mit.edu	37	chr3	133368474	133368474	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	cactttgctcccactacatgAggcctacaaaaatagcacat	5	13	0	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr3:133368474A>G	ENST00000260810.5	-	10	1388	c.1257T>C	c.(1255-1257)ccT>ccC	p.P419P	TOPBP1_ENST00000511439.1_5'UTR	NM_007027.3	NP_008958.2	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	419	BRCT 3. {ECO:0000255|PROSITE- ProRule:PRU00033}.				cellular response to DNA damage stimulus (GO:0006974)|DNA metabolic process (GO:0006259)|DNA repair (GO:0006281)|response to ionizing radiation (GO:0010212)	chromosome (GO:0005694)|condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|male germ cell nucleus (GO:0001673)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|PML body (GO:0016605)	DNA binding (GO:0003677)|identical protein binding (GO:0042802)|protein C-terminus binding (GO:0008022)			breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(5)|lung(14)|ovary(2)|pancreas(1)|skin(3)|upper_aerodigestive_tract(1)	40						CCACTACATGAGGCCTACAAA	0.393								Other conserved DNA damage response genes																													Ovarian(21;193 658 4424 15423 17362)											0													72	66	68					3																	133368474		1875	4115	5990	SO:0001819	synonymous_variant	11073			AB019397	CCDS46919.1	3q22.1	2004-06-21			ENSG00000163781	ENSG00000163781			17008	protein-coding gene	gene with protein product		607760				9461304, 9039502	Standard	NM_007027		Approved	KIAA0259, TOP2BP1	uc003eps.3	Q92547	OTTHUMG00000159773	ENST00000260810.5:c.1257T>C	3.37:g.133368474A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7W8|Q7LGC1|Q9UEB9	Silent	SNP	ENST00000260810.5	37	CCDS46919.1																																																																																				0.393	TOPBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357254.1	NM_007027		G	133368474	A	G	133368474	2	3	642	1	0	0	0	0	0	0	0	1	16381	291	11	3		3	TOPBP1	3	133368474	Silent	SNP	A	TCGA-KL-8343-01A-11D-2310-10	3254301	133368474	64653956	23	39716										
CRIPAK	285464	bcgsc.ca	37	chr4	1388697	1388697	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	cctgctcacacgtgcccatgCggagtgcccgcctgctcaca	10	18	2	0	rs113316888	byFrequency	TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr4:1388697C>T	ENST00000324803.4	+	1	3358	c.398C>T	c.(397-399)gCg>gTg	p.A133V		NM_175918.3	NP_787114.2	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	133					negative regulation of intracellular estrogen receptor signaling pathway (GO:0033147)|negative regulation of protein kinase activity (GO:0006469)|regulation of cytoskeleton organization (GO:0051493)|response to estrogen (GO:0043627)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				NS(3)|breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(11)|ovary(1)|pancreas(2)|prostate(6)|skin(4)|urinary_tract(1)	35			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			CGTGCCCATGCGGAGTGCCCG	0.701													N|||	623	0.124401	0.1399	0.1527	5008	,	,		12463	0.2083		0.0736	False		,,,				2504	0.0491															0													57	58	58					4																	1388697		2192	4288	6480	SO:0001583	missense	285464			AK096209	CCDS3349.1	4p16.3	2011-02-10	2006-09-04		ENSG00000179979	ENSG00000179979			26619	protein-coding gene	gene with protein product		610203	"cysteine-rich PAK1inhibitor"			16278681	Standard	NM_175918		Approved	FLJ34443	uc003gdf.2	Q8N1N5	OTTHUMG00000121131	ENST00000324803.4:c.398C>T	4.37:g.1388697C>T	ENSP00000323978:p.Ala133Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NB03	Missense_Mutation	SNP	ENST00000324803.4	37	CCDS3349.1	.	.	.	.	.	.	.	.	.	.	-	11.32	1.604146	0.28534	.	.	ENSG00000179979	ENST00000324803	T	0.18810	2.19	0.948	-1.08	0.09936	.	.	.	.	.	T	0.06645	0.0170	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.34378	-0.9831	9	0.02654	T	1	.	2.1758	0.03862	0.2485:0.1979:0.0:0.5536	.	133	Q8N1N5	CRPAK_HUMAN	V	133	ENSP00000323978:A133V	ENSP00000323978:A133V	A	+	2	0	CRIPAK	1378697	0.001000	0.12720	0.001000	0.08648	0.006000	0.05464	-2.200000	0.01237	-1.804000	0.01241	-1.950000	0.00486	GCG		0.701	CRIPAK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241607.2	NM_175918		T	1388697	C	T	1388697	3	4	642	1	0	0	0	0	1	0	0	0	3879	768	27	1	400	1	CRIPAK	4	1388697	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10		1388697	189765579	24	39717										
UGT8	7368	hgsc.bcm.edu;ucsc.edu	37	chr4	115544546	115544546	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tatcctgctgaagtgggtgcTcctgctccattagcatacgt	10	11	0	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr4:115544546T>G	ENST00000310836.6	+	2	1032	c.510T>G	c.(508-510)gcT>gcG	p.A170A	UGT8_ENST00000394511.3_Silent_p.A170A	NM_001128174.1	NP_001121646	Q16880	CGT_HUMAN	UDP glycosyltransferase 8	170					axon cargo transport (GO:0008088)|central nervous system development (GO:0007417)|cytoskeleton organization (GO:0007010)|galactosylceramide biosynthetic process (GO:0006682)|neuron projection morphogenesis (GO:0048812)|paranodal junction assembly (GO:0030913)|peripheral nervous system development (GO:0007422)|protein localization to paranode region of axon (GO:0002175)	integral component of membrane (GO:0016021)	2-hydroxyacylsphingosine 1-beta-galactosyltransferase activity (GO:0003851)|UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity (GO:0008489)			breast(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(9)|lung(11)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	31		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000632)		AAGTGGGTGCTCCTGCTCCAT	0.438																																																0													132	126	128					4																	115544546		2203	4300	6503	SO:0001819	synonymous_variant	7368			AK127970	CCDS3705.1	4q26	2013-02-21	2008-07-31	2005-07-20	ENSG00000174607	ENSG00000174607	2.4.1.45	"UDP glucuronosyltransferases"	12555	protein-coding gene	gene with protein product	"2-hydroxyacylsphingosine 1-beta-galactosyltransferase"	601291	"UDP-galactose ceramide galactosyltransferase"	CGT		8661025	Standard	NM_003360		Approved		uc003ibs.2	Q16880	OTTHUMG00000132915	ENST00000310836.6:c.510T>G	4.37:g.115544546T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KXU7|O00196	Silent	SNP	ENST00000310836.6	37	CCDS3705.1																																																																																				0.438	UGT8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256426.2	NM_003360		G	115544546	T	G	115544546	2	3	642	1	0	0	0	0	0	0	0	1	16977	1538	54	5		5	UGT8	4	115544546	Silent	SNP	T	TCGA-KL-8343-01A-11D-2310-10	114155849	115544546	75609730	25	39718										
TKTL2	84076	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr4	164394497	164394497	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	gccattccacatgcagtaccTaatccctgacctagggaccc	7	16	0	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr4:164394497T>A	ENST00000280605.3	-	1	550	c.390A>T	c.(388-390)ttA>ttT	p.L130F		NM_032136.4	NP_115512.3	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	130						cytoplasm (GO:0005737)	metal ion binding (GO:0046872)|transketolase activity (GO:0004802)			breast(1)|endometrium(4)|kidney(2)|large_intestine(9)|lung(42)|ovary(3)|pancreas(1)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)	70	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				ATGCAGTACCTAATCCCTGAC	0.537																																																0													112	106	108					4																	164394497		2203	4300	6503	SO:0001583	missense	84076			BC028707	CCDS3805.1	4q32.2	2009-10-06			ENSG00000151005	ENSG00000151005			25313	protein-coding gene	gene with protein product	"similar to transketolase"					11230166	Standard	NM_032136		Approved	FLJ32975, DKFZP434L1717	uc003iqp.4	Q9H0I9	OTTHUMG00000161527	ENST00000280605.3:c.390A>T	4.37:g.164394497T>A	ENSP00000280605:p.Leu130Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A4FVB4|Q8NCT0|Q96M82	Missense_Mutation	SNP	ENST00000280605.3	37	CCDS3805.1	.	.	.	.	.	.	.	.	.	.	T	8.443	0.851355	0.17034	.	.	ENSG00000151005	ENST00000280605	T	0.38401	1.14	3.75	-4.32	0.03688	Transketolase, N-terminal (1);	0.000000	0.64402	D	0.000010	T	0.51890	0.1701	M	0.77313	2.365	0.42428	D	0.992665	D	0.89917	1.0	D	0.83275	0.996	T	0.54490	-0.8286	10	0.87932	D	0	-9.7836	9.1928	0.37209	0.0:0.7609:0.1078:0.1313	.	130	Q9H0I9	TKTL2_HUMAN	F	130	ENSP00000280605:L130F	ENSP00000280605:L130F	L	-	3	2	TKTL2	164613947	0.000000	0.05858	0.004000	0.12327	0.010000	0.07245	-2.976000	0.00665	-1.026000	0.03330	-0.429000	0.05907	TTA		0.537	TKTL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365207.1	NM_032136		A	164394497	T	A	164394497	3	1	642	1	0	0	0	0	1	0	0	0	15948	1519	53	5	1494	5	TKTL2	4	164394497	Missense_Mutation	SNP	T	TCGA-KL-8343-01A-11D-2310-10	48849951	164394497	26759779	26	39719										
RNASEN	29102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	31521319	31521319	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ctgtgtctctcccgttctcgCtctcttaaaggaattaatac	6	12	3	0			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr5:31521319C>A	ENST00000511367.2	-	5	1102	c.858G>T	c.(856-858)gaG>gaT	p.E286D	DROSHA_ENST00000442743.1_Missense_Mutation_p.E286D|DROSHA_ENST00000344624.3_Missense_Mutation_p.E286D|DROSHA_ENST00000513349.1_Missense_Mutation_p.E286D	NM_013235.4	NP_037367.3	Q9NRR4	RNC_HUMAN	drosha, ribonuclease type III	286	Arg-rich.				defense response to Gram-negative bacterium (GO:0050829)|defense response to Gram-positive bacterium (GO:0050830)|gene expression (GO:0010467)|miRNA metabolic process (GO:0010586)|pre-miRNA processing (GO:0031054)|primary miRNA processing (GO:0031053)|ribosome biogenesis (GO:0042254)|RNA phosphodiester bond hydrolysis (GO:0090501)|RNA phosphodiester bond hydrolysis, endonucleolytic (GO:0090502)|rRNA catabolic process (GO:0016075)	nucleoplasm (GO:0005654)	lipopolysaccharide binding (GO:0001530)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|ribonuclease III activity (GO:0004525)			breast(4)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(19)|lung(33)|ovary(2)|skin(1)	66						CCCGTTCTCGCTCTCTTAAAG	0.403																																																0													210	193	199					5																	31521319		1884	4111	5995	SO:0001583	missense	29102			AF116910	CCDS47194.1, CCDS47195.1	5q11.2	2010-11-17	2010-10-28	2010-10-28	ENSG00000113360	ENSG00000113360	3.1.26.3		17904	protein-coding gene	gene with protein product	"drosha, ribonuclease type III", "drosha, double-stranded RNA-specific endoribonuclease"	608828	"ribonuclease type III, nuclear"	RNASEN		10713462, 10948199	Standard	NM_013235		Approved	RNASE3L, Etohi2, HSA242976, RN3	uc003jhg.2	Q9NRR4	OTTHUMG00000161976	ENST00000511367.2:c.858G>T	5.37:g.31521319C>A	ENSP00000425979:p.Glu286Asp	Somatic		WXS	Illumina HiSeq	Phase_I	E7EMP9|Q7Z5V2|Q86YH0|Q9NW73|Q9Y2V9|Q9Y4Y0	Missense_Mutation	SNP	ENST00000511367.2	37	CCDS47195.1	.	.	.	.	.	.	.	.	.	.	C	14.02	2.411233	0.42817	.	.	ENSG00000113360	ENST00000511367;ENST00000344624;ENST00000442743;ENST00000513349;ENST00000382188	T;T;T;T	0.44482	1.49;1.49;0.92;0.92	5.95	4.08	0.47627	.	0.339654	0.31884	N	0.006907	T	0.20373	0.0490	N	0.08118	0	0.32783	N	0.502175	B;B	0.06786	0.001;0.001	B;B	0.06405	0.002;0.002	T	0.19844	-1.0293	10	0.18276	T	0.48	-20.681	9.2232	0.37390	0.0:0.6724:0.253:0.0746	.	286;286	E7EMP9;Q9NRR4	.;RNC_HUMAN	D	286;286;286;286;279	ENSP00000425979:E286D;ENSP00000339845:E286D;ENSP00000409335:E286D;ENSP00000424161:E286D	ENSP00000339845:E286D	E	-	3	2	DROSHA	31557076	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	0.805000	0.27112	1.527000	0.49086	0.655000	0.94253	GAG		0.403	DROSHA-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366561.3	NM_013235		A	31521319	C	A	31521319	3	1	642	1	0	0	0	0	1	0	0	0	13430	796	28	4	3390	4	RNASEN	5	31521319	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10		31521319	149393941	27	39720										
NIPBL	25836	broad.mit.edu	37	chr5	36985238	36985238	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	acccaaacagaagaacttaaAcagaatgagagcagaacaac	7	9	0	5			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr5:36985238A>G	ENST00000282516.8	+	10	2455	c.1956A>G	c.(1954-1956)aaA>aaG	p.K652K	NIPBL_ENST00000448238.2_Silent_p.K652K|NIPBL_ENST00000504430.1_3'UTR	NM_015384.4|NM_133433.3	NP_056199.2|NP_597677.2	Q6KC79	NIPBL_HUMAN	Nipped-B homolog (Drosophila)	652					brain development (GO:0007420)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to X-ray (GO:0071481)|cognition (GO:0050890)|developmental growth (GO:0048589)|ear morphogenesis (GO:0042471)|embryonic digestive tract morphogenesis (GO:0048557)|embryonic forelimb morphogenesis (GO:0035115)|embryonic viscerocranium morphogenesis (GO:0048703)|external genitalia morphogenesis (GO:0035261)|eye morphogenesis (GO:0048592)|face morphogenesis (GO:0060325)|fat cell differentiation (GO:0045444)|forelimb morphogenesis (GO:0035136)|gall bladder development (GO:0061010)|heart morphogenesis (GO:0003007)|maintenance of mitotic sister chromatid cohesion (GO:0034088)|metanephros development (GO:0001656)|mitotic cell cycle (GO:0000278)|mitotic sister chromatid cohesion (GO:0007064)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|outflow tract morphogenesis (GO:0003151)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of multicellular organism growth (GO:0040018)|positive regulation of ossification (GO:0045778)|regulation of developmental growth (GO:0048638)|regulation of embryonic development (GO:0045995)|regulation of hair cycle (GO:0042634)|sensory perception of sound (GO:0007605)|stem cell maintenance (GO:0019827)|uterus morphogenesis (GO:0061038)	extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SMC loading complex (GO:0032116)	chromatin binding (GO:0003682)|chromo shadow domain binding (GO:0070087)|histone deacetylase binding (GO:0042826)|protein C-terminus binding (GO:0008022)|protein N-terminus binding (GO:0047485)			autonomic_ganglia(1)|breast(4)|endometrium(9)|kidney(22)|large_intestine(21)|liver(1)|lung(47)|ovary(7)|pancreas(1)|prostate(1)|skin(7)|upper_aerodigestive_tract(3)|urinary_tract(4)	128	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			AAGAACTTAAACAGAATGAGA	0.353																																																0													92	94	93					5																	36985238		2203	4300	6503	SO:0001819	synonymous_variant	25836			AB019494	CCDS3920.1, CCDS47198.1	5p13.2	2009-08-28			ENSG00000164190	ENSG00000164190			28862	protein-coding gene	gene with protein product	"sister chromatid cohesion 2 homolog (yeast)"	608667				15146186, 15146185	Standard	NM_133433		Approved	IDN3, DKFZp434L1319, FLJ11203, FLJ12597, FLJ13354, FLJ13648, Scc2	uc003jkl.4	Q6KC79	OTTHUMG00000090795	ENST00000282516.8:c.1956A>G	5.37:g.36985238A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6KCD6|Q6N080|Q6ZT92|Q7Z2E6|Q8N4M5|Q9Y6Y3|Q9Y6Y4	Silent	SNP	ENST00000282516.8	37	CCDS3920.1																																																																																				0.353	NIPBL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207582.1	NM_015384		G	36985238	A	G	36985238	2	3	642	1	0	0	0	0	0	0	0	1	10435	40	2	3		3	NIPBL	5	36985238	Silent	SNP	A	TCGA-KL-8343-01A-11D-2310-10	5463919	36985238	143930022	28	39721										
DAB2	1601	broad.mit.edu	37	chr5	39376947	39376947	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	catttctttcacatccttgaTctctttatccccaagtgggt	5	12	3	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr5:39376947T>C	ENST00000320816.6	-	12	2409	c.1942A>G	c.(1942-1944)Atc>Gtc	p.I648V	DAB2_ENST00000509337.1_Missense_Mutation_p.I627V|DAB2_ENST00000545653.1_Missense_Mutation_p.I627V|DAB2_ENST00000339788.6_Missense_Mutation_p.I430V	NM_001343.3	NP_001334.2	P98082	DAB2_HUMAN	Dab, mitogen-responsive phosphoprotein, homolog 2 (Drosophila)	648	Sufficient for interaction with GRB2. {ECO:0000250}.				activation of JUN kinase activity (GO:0007257)|apoptotic process (GO:0006915)|cell morphogenesis involved in differentiation (GO:0000904)|cell proliferation (GO:0008283)|cellular response to transforming growth factor beta stimulus (GO:0071560)|clathrin coat assembly (GO:0048268)|endoderm development (GO:0007492)|excretion (GO:0007588)|in utero embryonic development (GO:0001701)|leading edge cell differentiation (GO:0035026)|membrane organization (GO:0061024)|myeloid cell differentiation (GO:0030099)|negative regulation of androgen receptor signaling pathway (GO:0060766)|negative regulation of apoptotic process (GO:0043066)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of protein binding (GO:0032091)|negative regulation of protein localization to plasma membrane (GO:1903077)|negative regulation of transcription, DNA-templated (GO:0045892)|pinocytosis (GO:0006907)|positive regulation of cell migration (GO:0030335)|positive regulation of clathrin-mediated endocytosis (GO:2000370)|positive regulation of early endosome to late endosome transport (GO:2000643)|positive regulation of endocytosis (GO:0045807)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of integrin-mediated signaling pathway (GO:2001046)|positive regulation of pathway-restricted SMAD protein phosphorylation (GO:0010862)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of receptor recycling (GO:0001921)|positive regulation of SMAD protein import into nucleus (GO:0060391)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|positive regulation of transcription elongation from RNA polymerase II promoter (GO:0032968)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|positive regulation of Wnt signaling pathway, planar cell polarity pathway (GO:2000096)|protein transport (GO:0015031)|receptor-mediated endocytosis (GO:0006898)|Wnt signaling pathway (GO:0016055)	apical plasma membrane (GO:0016324)|clathrin coat of coated pit (GO:0030132)|clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal membrane (GO:0005765)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)	cargo receptor activity (GO:0038024)|clathrin adaptor activity (GO:0035615)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|protein C-terminus binding (GO:0008022)|SMAD binding (GO:0046332)			autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|endometrium(1)|kidney(5)|large_intestine(9)|lung(19)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)	47	all_lung(31;0.000197)		Epithelial(62;0.137)			ACATCCTTGATCTCTTTATCC	0.552											OREG0016586	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													56	60	58					5																	39376947		2203	4300	6503	SO:0001583	missense	1601			U53446	CCDS34149.1, CCDS58946.1	5p13.1	2013-10-03	2013-03-08		ENSG00000153071	ENSG00000153071			2662	protein-coding gene	gene with protein product		601236	"disabled (Drosophila) homolog 2 (mitogen-responsive phosphoprotein)", "disabled homolog 2, mitogen-responsive phosphoprotein (Drosophila)"			8660969, 9620555	Standard	NM_001343		Approved	DOC-2	uc003jlx.3	P98082	OTTHUMG00000162043	ENST00000320816.6:c.1942A>G	5.37:g.39376947T>C	ENSP00000313391:p.Ile648Val	Somatic	885	WXS	Illumina HiSeq	Phase_I	A6NES5|Q13598|Q9BTY0|Q9UK04	Missense_Mutation	SNP	ENST00000320816.6	37	CCDS34149.1	.	.	.	.	.	.	.	.	.	.	T	1.817	-0.473247	0.04445	.	.	ENSG00000153071	ENST00000320816;ENST00000339788;ENST00000545653;ENST00000509337	T;T;T;T	0.38240	1.15;1.15;1.15;1.15	5.09	3.0	0.34707	.	0.380726	0.29253	N	0.012700	T	0.12732	0.0309	N	0.08118	0	0.23132	N	0.998245	B;B	0.02656	0.0;0.0	B;B	0.06405	0.001;0.002	T	0.32025	-0.9922	10	0.02654	T	1	-7.1504	4.1642	0.10298	0.0:0.4387:0.0:0.5613	.	648;627	P98082;P98082-3	DAB2_HUMAN;.	V	648;430;627;627	ENSP00000313391:I648V;ENSP00000345508:I430V;ENSP00000439919:I627V;ENSP00000426245:I627V	ENSP00000313391:I648V	I	-	1	0	DAB2	39412704	1.000000	0.71417	0.991000	0.47740	0.838000	0.47535	4.637000	0.61346	1.116000	0.41820	-0.242000	0.12053	ATC		0.552	DAB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367014.1	NM_001343		C	39376947	T	C	39376947	3	2	642	1	0	0	0	0	1	0	0	0	4220	1435	50	3	382	3	DAB2	5	39376947	Missense_Mutation	SNP	T	TCGA-KL-8343-01A-11D-2310-10	2391709	39376947	141538313	29	39722										
MSH3	4437	broad.mit.edu;mdanderson.org	37	chr5	79968625	79968625	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ggagacaacagaagttcactCttttcccggaaattgactgc	9	10	2	3			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr5:79968625C>G	ENST00000265081.6	+	6	1055	c.975C>G	c.(973-975)ctC>ctG	p.L325L		NM_002439.4	NP_002430.3	P20585	MSH3_HUMAN	mutS homolog 3	325					ATP catabolic process (GO:0006200)|DNA repair (GO:0006281)|maintenance of DNA repeat elements (GO:0043570)|meiotic mismatch repair (GO:0000710)|mismatch repair (GO:0006298)|negative regulation of DNA recombination (GO:0045910)|positive regulation of helicase activity (GO:0051096)|reciprocal meiotic recombination (GO:0007131)|somatic recombination of immunoglobulin gene segments (GO:0016447)	membrane (GO:0016020)|MutSbeta complex (GO:0032302)|nuclear chromosome (GO:0000228)|nucleus (GO:0005634)	ATP binding (GO:0005524)|centromeric DNA binding (GO:0019237)|damaged DNA binding (GO:0003684)|DNA-dependent ATPase activity (GO:0008094)|double-strand/single-strand DNA junction binding (GO:0000406)|enzyme binding (GO:0019899)|heteroduplex DNA loop binding (GO:0000404)|Y-form DNA binding (GO:0000403)			NS(1)|breast(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(12)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	29		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		GAAGTTCACTCTTTTCCCGGA	0.373								Mismatch excision repair (MMR)																													Melanoma(88;1010 1399 13793 26548 36275)											0													118	120	119					5																	79968625		2203	4300	6503	SO:0001819	synonymous_variant	4437			U61981	CCDS34195.1	5q11-q12	2013-09-12	2013-09-12		ENSG00000113318	ENSG00000113318			7326	protein-coding gene	gene with protein product	"Divergent upstream protein", "Mismatch repair protein 1"	600887	"mutS (E. coli) homolog 3", "mutS homolog 3 (E. coli)"				Standard	NM_002439		Approved	DUP, MRP1	uc003kgz.4	P20585	OTTHUMG00000162540	ENST00000265081.6:c.975C>G	5.37:g.79968625C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A1L480|A1L482|A6NMM6|Q6PJT5|Q86UQ6|Q92867	Silent	SNP	ENST00000265081.6	37	CCDS34195.1																																																																																				0.373	MSH3-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369471.1	NM_002439		G	79968625	C	G	79968625	2	3	642	1	0	0	0	0	0	0	0	1	9878	900	32	4		4	MSH3	5	79968625	Silent	SNP	C	TCGA-KL-8343-01A-11D-2310-10	40591678	79968625	100946635	30	39723										
FLT4	2324	broad.mit.edu	37	chr5	180048849	180048850	+	Frame_Shift_Ins	INS	-	-	GC													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	agctcaggagcaccggctggINSccctctagtagctcctcgga							TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr5:180048849_180048850insGC	ENST00000261937.6	-	13	1790_1791	c.1712_1713insGC	c.(1711-1713)ggcfs	p.G571fs	FLT4_ENST00000502649.1_Frame_Shift_Ins_p.G571fs|FLT4_ENST00000424276.2_5'UTR|FLT4_ENST00000393347.3_Frame_Shift_Ins_p.G571fs	NM_182925.4	NP_891555.2	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4	571	Ig-like C2-type 6.				blood vessel morphogenesis (GO:0048514)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|lymph vessel development (GO:0001945)|lymphangiogenesis (GO:0001946)|negative regulation of apoptotic process (GO:0043066)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of cell proliferation (GO:0008284)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of JNK cascade (GO:0046330)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of protein kinase C signaling (GO:0090037)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation vascular endothelial growth factor production (GO:0010575)|protein autophosphorylation (GO:0046777)|regulation of blood vessel remodeling (GO:0060312)|sprouting angiogenesis (GO:0002040)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)|vascular endothelial growth factor signaling pathway (GO:0038084)|vasculature development (GO:0001944)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|growth factor binding (GO:0019838)|protein phosphatase binding (GO:0019903)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)|vascular endothelial growth factor-activated receptor activity (GO:0005021)			NS(1)|breast(3)|central_nervous_system(2)|endometrium(1)|kidney(6)|large_intestine(5)|liver(2)|lung(37)|ovary(6)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	71	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)	Axitinib(DB06626)|Pazopanib(DB06589)|Regorafenib(DB08896)|Sorafenib(DB00398)|Sunitinib(DB01268)	GCACCGGCTGGCCCTCTAGTAG	0.629																																					Colon(97;1075 1466 27033 27547 35871)											0																																										SO:0001589	frameshift_variant	2324			X68203	CCDS4457.1, CCDS43412.1	5q34-q35	2013-01-29			ENSG00000037280	ENSG00000037280	2.7.10.1	"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	3767	protein-coding gene	gene with protein product		136352				1319394	Standard	NM_002020		Approved	VEGFR3, PCL	uc003mlz.4	P35916	OTTHUMG00000130931	ENST00000261937.6:c.1712_1713insGC	5.37:g.180048849_180048850insGC	ENSP00000261937:p.Gly571fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6L4|B5A926|Q16067|Q86W07|Q86W08	Frame_Shift_Ins	INS	ENST00000261937.6	37	CCDS4457.1																																																																																				0.629	FLT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253527.4			GC	180048850	-	GC	180048849	7	5	642	1	0	1	1	0	0	0	0	0	5951	1190	42	0	2458	0	FLT4	5	180048849	Frame_Shift_Ins	INS	-	TCGA-KL-8343-01A-11D-2310-10	100080224	180048849	866411	31	39724										
RING1	6015	ucsc.edu	37	chr6	33179664	33179664	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	acctgatgggtgtggcggggAgggtgggggtgccggaggag	25	5	0	1	rs73741545		TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr6:33179664A>G	ENST00000374656.4	+	6	1212	c.1004A>G	c.(1003-1005)gAg>gGg	p.E335G	RING1_ENST00000478431.1_3'UTR	NM_002931.3	NP_002922.2	Q06587	RING1_HUMAN	ring finger protein 1	335	Gly-rich.|Necessary for interaction with CBX2. {ECO:0000250}.				anterior/posterior pattern specification (GO:0009952)|camera-type eye morphogenesis (GO:0048593)|histone H2A monoubiquitination (GO:0035518)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PcG protein complex (GO:0031519)|PRC1 complex (GO:0035102)|sex chromatin (GO:0001739)	chromatin binding (GO:0003682)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			endometrium(5)|large_intestine(1)|lung(3)|ovary(2)|prostate(2)|skin(4)	17						TGTGGCGGGGAGGGTGGGGGT	0.667																																																0													17	21	19					6																	33179664		2199	4288	6487	SO:0001583	missense	6015				CCDS34424.1	6p21.3	2013-01-09			ENSG00000204227	ENSG00000204227		"RING-type (C3HC4) zinc fingers"	10018	protein-coding gene	gene with protein product		602045				1906426	Standard	NM_002931		Approved	RNF1	uc003odk.3	Q06587	OTTHUMG00000031278	ENST00000374656.4:c.1004A>G	6.37:g.33179664A>G	ENSP00000363787:p.Glu335Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8JZZ0|Q5JP96|Q5SQW2|Q86V19	Missense_Mutation	SNP	ENST00000374656.4	37	CCDS34424.1	.	.	.	.	.	.	.	.	.	.	A	13.99	2.400621	0.42613	.	.	ENSG00000204227	ENST00000374656	D	0.84660	-1.88	4.04	4.04	0.47022	.	0.268117	0.27126	N	0.020812	T	0.51143	0.1657	N	0.08118	0	0.35818	D	0.824394	B	0.10296	0.003	B	0.06405	0.002	T	0.49826	-0.8898	10	0.33141	T	0.24	-38.3332	5.9934	0.19480	0.8842:0.0:0.1158:0.0	.	335	Q06587	RING1_HUMAN	G	335	ENSP00000363787:E335G	ENSP00000363787:E335G	E	+	2	0	RING1	33287642	1.000000	0.71417	1.000000	0.80357	0.842000	0.47809	3.206000	0.51098	1.674000	0.50907	0.368000	0.22195	GAG		0.667	RING1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076609.2			G	33179664	A	G	33179664	3	3	642	1	0	0	0	0	1	0	0	0	13387	304	11	3	1022	3	RING1	6	33179664	Missense_Mutation	SNP	A	TCGA-KL-8343-01A-11D-2310-10		33179664	137935403	32	39725										
CUL7	9820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr6	43020113	43020113	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ctgagcacgtggacagtgtgAagtagaggagcaggagggat	18	5	0	3			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr6:43020113A>G	ENST00000265348.3	-	2	499	c.414T>C	c.(412-414)ctT>ctC	p.L138L	CUL7_ENST00000535468.1_Silent_p.L190L			Q14999	CUL7_HUMAN	cullin 7	138					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|epithelial to mesenchymal transition (GO:0001837)|Golgi organization (GO:0007030)|microtubule cytoskeleton organization (GO:0000226)|mitotic cytokinesis (GO:0000281)|placenta development (GO:0001890)|positive regulation of dendrite morphogenesis (GO:0050775)|protein ubiquitination (GO:0016567)|proteolysis (GO:0006508)|regulation of mitosis (GO:0007088)|ubiquitin-dependent protein catabolic process (GO:0006511)|vasculogenesis (GO:0001570)|viral process (GO:0016032)	3M complex (GO:1990393)|anaphase-promoting complex (GO:0005680)|centrosome (GO:0005813)|Cul7-RING ubiquitin ligase complex (GO:0031467)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)				breast(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(8)|liver(1)|lung(11)|ovary(3)|prostate(2)|skin(3)|stomach(1)|urinary_tract(1)	49			all cancers(41;0.00231)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0442)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			GGACAGTGTGAAGTAGAGGAG	0.562																																																0													82	66	71					6																	43020113		2203	4300	6503	SO:0001819	synonymous_variant	9820			BC033647	CCDS4881.1, CCDS55003.1	6p21.1	2011-05-24	2004-03-22	2004-03-22	ENSG00000044090	ENSG00000044090			21024	protein-coding gene	gene with protein product		609577	"KIAA0076"	KIAA0076		12481031, 12904573	Standard	NM_014780		Approved	dJ20C7.5	uc011dvb.2	Q14999	OTTHUMG00000014718	ENST00000265348.3:c.414T>C	6.37:g.43020113A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DYZ0|F5H0L1|Q5T654	Silent	SNP	ENST00000265348.3	37	CCDS4881.1																																																																																				0.562	CUL7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040575.1	NM_014780		G	43020113	A	G	43020113	2	3	642	1	0	0	0	0	0	0	0	1	4062	233	9	3		3	CUL7	6	43020113	Silent	SNP	A	TCGA-KL-8343-01A-11D-2310-10	9840449	43020113	128094954	33	39726										
HSP90AB1	3326	mdanderson.org	37	chr6	44221265	44221265	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ggcagcagaggaacccaatgCtgcagttcctgatgagatcc	12	11	0	3	rs200104342	byFrequency	TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr6:44221265C>A	ENST00000371554.1	+	12	2319	c.2105C>A	c.(2104-2106)gCt>gAt	p.A702D	SLC35B2_ENST00000495706.1_5'Flank|HSP90AB1_ENST00000371646.5_Missense_Mutation_p.A702D|HSP90AB1_ENST00000353801.3_Missense_Mutation_p.A702D|MIR4647_ENST00000583964.1_RNA			P08238	HS90B_HUMAN	heat shock protein 90kDa alpha (cytosolic), class B member 1	702					axon guidance (GO:0007411)|cellular response to interleukin-4 (GO:0071353)|cellular response to organic cyclic compound (GO:0071407)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032435)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|placenta development (GO:0001890)|positive regulation of cell size (GO:0045793)|positive regulation of nitric oxide biosynthetic process (GO:0045429)|positive regulation of protein binding (GO:0032092)|positive regulation of protein import into nucleus, translocation (GO:0033160)|positive regulation of protein serine/threonine kinase activity (GO:0071902)|protein folding (GO:0006457)|regulation of interferon-gamma-mediated signaling pathway (GO:0060334)|regulation of type I interferon-mediated signaling pathway (GO:0060338)|response to salt stress (GO:0009651)|response to unfolded protein (GO:0006986)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|brush border membrane (GO:0031526)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|inclusion body (GO:0016234)|membrane (GO:0016020)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|CTP binding (GO:0002135)|dATP binding (GO:0032564)|double-stranded RNA binding (GO:0003725)|GTP binding (GO:0005525)|MHC class II protein complex binding (GO:0023026)|nitric-oxide synthase regulator activity (GO:0030235)|poly(A) RNA binding (GO:0044822)|TPR domain binding (GO:0030911)|UTP binding (GO:0002134)			NS(1)|breast(1)|endometrium(6)|kidney(2)|large_intestine(5)|lung(12)|prostate(2)|skin(2)|urinary_tract(2)	33	all_cancers(18;1.7e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			GAACCCAATGCTGCAGTTCCT	0.458											OREG0017471	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													75	76	76					6																	44221265		2203	4300	6503	SO:0001583	missense	3326			AF275719	CCDS4909.1	6p12	2011-09-02	2006-02-24	2006-02-24	ENSG00000096384	ENSG00000096384		"Heat shock proteins / HSPC"	5258	protein-coding gene	gene with protein product		140572	"heat shock 90kD protein 1, beta", "heat shock 90kDa protein 1, beta"	HSPC2, HSPCB		2768249, 16269234	Standard	NM_001271969		Approved		uc031sor.1	P08238	OTTHUMG00000014761	ENST00000371554.1:c.2105C>A	6.37:g.44221265C>A	ENSP00000360609:p.Ala702Asp	Somatic	922	WXS	Illumina HiSeq	Phase_I	B2R5P0|Q5T9W7|Q9NQW0|Q9NTK6	Missense_Mutation	SNP	ENST00000371554.1	37	CCDS4909.1	.	.	.	.	.	.	.	.	.	.	C	15.73	2.920870	0.52653	.	.	ENSG00000096384	ENST00000371646;ENST00000353801;ENST00000371554	T;T;T	0.09350	2.99;2.99;2.99	3.9	3.9	0.45041	.	0.750751	0.11539	U	0.553976	T	0.07188	0.0182	M	0.68593	2.085	0.51767	D	0.999931	B;B;B	0.10296	0.0;0.003;0.0	B;B;B	0.20577	0.03;0.013;0.005	T	0.05354	-1.0890	10	0.33940	T	0.23	-11.1759	12.1165	0.53868	0.0:0.9118:0.0:0.0882	.	664;692;702	B4DMA2;B4DGL0;P08238	.;.;HS90B_HUMAN	D	702	ENSP00000360709:A702D;ENSP00000325875:A702D;ENSP00000360609:A702D	ENSP00000325875:A702D	A	+	2	0	HSP90AB1	44329243	0.999000	0.42202	1.000000	0.80357	0.877000	0.50540	3.853000	0.55941	2.183000	0.69458	0.603000	0.83216	GCT		0.458	HSP90AB1-005	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040730.1	NM_007355		A	44221265	C	A	44221265	3	1	642	1	0	0	0	0	1	0	0	0	7409	797	28	4	2147	4	HSP90AB1	6	44221265	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10	1201152	44221265	126893802	34	39727										
CD109	135228	bcgsc.ca	37	chr6	74468723	74468723	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tatattgttctatgaattctAagcatttaaatggtaccatc	5	6	2	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr6:74468723A>G	ENST00000287097.5	+	7	842	c.730A>G	c.(730-732)Aag>Gag	p.K244E	CD109_ENST00000437994.2_Missense_Mutation_p.K244E|CD109_ENST00000422508.2_Missense_Mutation_p.K167E			Q6YHK3	CD109_HUMAN	CD109 molecule	244					negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|negative regulation of wound healing (GO:0061045)	anchored component of membrane (GO:0031225)|cell surface (GO:0009986)|extracellular space (GO:0005615)|plasma membrane (GO:0005886)	serine-type endopeptidase inhibitor activity (GO:0004867)|transforming growth factor beta binding (GO:0050431)			NS(2)|biliary_tract(1)|breast(1)|endometrium(4)|kidney(2)|large_intestine(18)|liver(2)|lung(26)|ovary(2)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	63						TATGAATTCTAAGCATTTAAA	0.313																																																0													84	81	82					6																	74468723		2203	4297	6500	SO:0001583	missense	135228			AF410459	CCDS4982.1, CCDS55038.1, CCDS55039.1	6q14.1	2008-02-05	2006-03-28		ENSG00000156535	ENSG00000156535		"CD molecules"	21685	protein-coding gene	gene with protein product		608859	"CD109 antigen (Gov platelet alloantigens)"			11861284, 11861285	Standard	XM_005248659		Approved	FLJ38569, DKFZp762L1111, CPAMD7	uc003php.3	Q6YHK3	OTTHUMG00000015040	ENST00000287097.5:c.730A>G	6.37:g.74468723A>G	ENSP00000287097:p.Lys244Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A5YKK4|B2R948|B3KW25|Q0P6K7|Q5SYA8|Q5XUM7|Q5XUM9|Q6MZI7|Q8N3A7|Q8N915|Q8TDJ2|Q8TDJ3	Missense_Mutation	SNP	ENST00000287097.5	37	CCDS4982.1	.	.	.	.	.	.	.	.	.	.	A	2.464	-0.323558	0.05350	.	.	ENSG00000156535	ENST00000437994;ENST00000422508;ENST00000287097	T;T;T	0.19938	2.11;2.28;2.11	5.16	3.99	0.46301	.	1.797440	0.02279	N	0.069181	T	0.04092	0.0114	N	0.21282	0.65	0.09310	N	1	B;B;B;B	0.15141	0.012;0.003;0.0;0.004	B;B;B;B	0.15052	0.005;0.012;0.005;0.003	T	0.32107	-0.9919	10	0.07990	T	0.79	.	6.4719	0.22013	0.7626:0.1561:0.0813:0.0	.	167;244;244;244	Q6YHK3-2;Q6YHK3-3;Q6YHK3-4;Q6YHK3	.;.;.;CD109_HUMAN	E	244;167;244	ENSP00000388062:K244E;ENSP00000404475:K167E;ENSP00000287097:K244E	ENSP00000287097:K244E	K	+	1	0	CD109	74525444	0.418000	0.25440	0.297000	0.24988	0.653000	0.38743	1.828000	0.39111	0.984000	0.38629	0.379000	0.24179	AAG		0.313	CD109-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000041230.3	NM_133493		G	74468723	A	G	74468723	3	3	642	1	0	0	0	0	1	0	0	0	2965	363	13	3	756	3	CD109	6	74468723	Missense_Mutation	SNP	A	TCGA-KL-8343-01A-11D-2310-10	30247458	74468723	96646344	35	39728										
AEBP1	165	mdanderson.org	37	chr7	44147485	44147485	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ccgagcgggtctggccagagCcccctgaggagaaggccccg	16	15	1	3	rs2537188	byFrequency	TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr7:44147485C>A	ENST00000223357.3	+	5	1122	c.817C>A	c.(817-819)Ccc>Acc	p.P273T	MIR4649_ENST00000582839.1_RNA|AEBP1_ENST00000450684.2_5'Flank	NM_001129.3	NP_001120.3	Q8IUX7	AEBP1_HUMAN	AE binding protein 1	273	Pro-rich.		P -> T (in dbSNP:rs2537188).		cell adhesion (GO:0007155)|muscle organ development (GO:0007517)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	carboxypeptidase activity (GO:0004180)|metallocarboxypeptidase activity (GO:0004181)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001227)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|cervix(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(8)|lung(13)|upper_aerodigestive_tract(2)	33						CTGGCCAGAGCCCCCTGAGGA	0.697													C|||	1790	0.357428	0.3684	0.2695	5008	,	,		13134	0.2738		0.3519	False		,,,				2504	0.4969															0								C	THR/PRO	1512,2824		285,942,941	10	13	12		817	1.4	0.1	7	dbSNP_100	12	3187,5327		639,1909,1709	no	missense	AEBP1	NM_001129.3	38	924,2851,2650	AA,AC,CC		37.4325,34.8708,36.5681	possibly-damaging	273/1159	44147485	4699,8151	2168	4257	6425	SO:0001583	missense	165			D86479	CCDS5476.1	7p	2008-07-18	2001-11-28		ENSG00000106624	ENSG00000106624			303	protein-coding gene	gene with protein product	"aortic carboxypeptidase-like protein", "adipocyte enhancer binding protein 1"	602981	"AE-binding protein 1"			8920928	Standard	NM_001129		Approved	ACLP	uc003tkb.4	Q8IUX7	OTTHUMG00000023362	ENST00000223357.3:c.817C>A	7.37:g.44147485C>A	ENSP00000223357:p.Pro273Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q14113|Q59ER7|Q6ZSC7|Q7KZ79	Missense_Mutation	SNP	ENST00000223357.3	37	CCDS5476.1	697	0.3191391941391941	148	0.3008130081300813	113	0.31215469613259667	155	0.270979020979021	281	0.370712401055409	C	8.109	0.778353	0.16120	0.348708	0.374325	ENSG00000106624	ENST00000223357	T	0.39997	1.05	4.54	1.41	0.22369	.	7.491200	0.00166	N	0.000008	T	0.00012	0.0000	N	0.19112	0.55	0.58432	P	9.000000000036756E-6	B	0.19817	0.039	B	0.14023	0.01	T	0.34950	-0.9808	9	0.48119	T	0.1	-0.4184	7.7789	0.29054	0.1715:0.4951:0.3335:0.0	rs2537188;rs60349212	273	Q8IUX7	AEBP1_HUMAN	T	273	ENSP00000223357:P273T	ENSP00000223357:P273T	P	+	1	0	AEBP1	44114010	0.001000	0.12720	0.074000	0.20217	0.361000	0.29550	0.387000	0.20718	0.318000	0.23185	0.491000	0.48974	CCC		0.697	AEBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250993.2	NM_001129		A	44147485	C	A	44147485	3	1	642	1	0	0	0	0	1	0	0	0	349	739	26	4	835	4	AEBP1	7	44147485	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10		44147485	114991178	36	39729										
NAMPT	10135	mdanderson.org	37	chr7	105903965	105903965	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	cacacgcattataaatgtcaTagctatcgctgaccacagat	6	11	1	2			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr7:105903965T>C	ENST00000222553.3	-	7	1149	c.842A>G	c.(841-843)tAt>tGt	p.Y281C	NAMPT_ENST00000354289.4_Missense_Mutation_p.Y281C	NM_005746.2	NP_005737.1	P43490	NAMPT_HUMAN	nicotinamide phosphoribosyltransferase	281					cell-cell signaling (GO:0007267)|circadian regulation of gene expression (GO:0032922)|NAD biosynthetic process (GO:0009435)|NAD metabolic process (GO:0019674)|nicotinamide metabolic process (GO:0006769)|positive regulation of cell proliferation (GO:0008284)|positive regulation of nitric-oxide synthase biosynthetic process (GO:0051770)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	cytokine activity (GO:0005125)|nicotinamide phosphoribosyltransferase activity (GO:0047280)|nicotinate-nucleotide diphosphorylase (carboxylating) activity (GO:0004514)			endometrium(2)|kidney(1)|large_intestine(4)|lung(5)|prostate(1)|upper_aerodigestive_tract(1)	14						ATAAATGTCATAGCTATCGCT	0.378																																																0													126	118	120					7																	105903965		2203	4300	6503	SO:0001583	missense	10135			U02020	CCDS5737.1	7q22.3	2012-10-02	2008-03-27	2008-03-27	ENSG00000105835	ENSG00000105835			30092	protein-coding gene	gene with protein product	"visfatin"	608764	"pre-B-cell colony enhancing factor 1"	PBEF1		8289818	Standard	NM_005746		Approved	PBEF	uc003vdq.3	P43490	OTTHUMG00000140388	ENST00000222553.3:c.842A>G	7.37:g.105903965T>C	ENSP00000222553:p.Tyr281Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A4D0Q9|A4D0R0|Q3KQV0|Q8WW95	Missense_Mutation	SNP	ENST00000222553.3	37	CCDS5737.1	.	.	.	.	.	.	.	.	.	.	T	23.3	4.402609	0.83230	.	.	ENSG00000105835	ENST00000222553;ENST00000354289	.	.	.	5.54	5.54	0.83059	Quinolinate phosphoribosyl transferase, C-terminal (1);	0.000000	0.85682	D	0.000000	D	0.87200	0.6118	H	0.95539	3.685	0.58432	D	0.999999	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	0.998;0.999;1.0	D	0.91052	0.4879	9	0.87932	D	0	-0.9235	15.9649	0.79961	0.0:0.0:0.0:1.0	.	194;262;281	B7Z8W6;Q5SYT8;P43490	.;.;NAMPT_HUMAN	C	281	.	ENSP00000222553:Y281C	Y	-	2	0	NAMPT	105691201	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.655000	0.83696	2.232000	0.73038	0.533000	0.62120	TAT		0.378	NAMPT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277146.1	NM_182790		C	105903965	T	C	105903965	3	2	642	1	0	0	0	0	1	0	0	0	10156	1406	49	3	653	3	NAMPT	7	105903965	Missense_Mutation	SNP	T	TCGA-KL-8343-01A-11D-2310-10	61756480	105903965	53234698	37	39730										
BCAP29	55973	mdanderson.org	37	chr7	107253813	107253813	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	aaatgatgtgatggaaatgaAgatgcagtcagagagacttt	12	3	1	6			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr7:107253813A>G	ENST00000005259.4	+	7	965	c.626A>G	c.(625-627)aAg>aGg	p.K209R	BCAP29_ENST00000494086.1_3'UTR|BCAP29_ENST00000379117.2_Missense_Mutation_p.K209R|BCAP29_ENST00000465919.1_Missense_Mutation_p.K115R|BCAP29_ENST00000379121.2_Missense_Mutation_p.K115R|BCAP29_ENST00000379119.2_Missense_Mutation_p.K209R|BCAP29_ENST00000445771.2_Missense_Mutation_p.K209R	NM_018844.3	NP_061332.2	Q9UHQ4	BAP29_HUMAN	B-cell receptor-associated protein 29	209					apoptotic process (GO:0006915)|ER to Golgi vesicle-mediated transport (GO:0006888)|intracellular protein transport (GO:0006886)|osteoblast differentiation (GO:0001649)|protein localization to endoplasmic reticulum exit site (GO:0070973)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)				cervix(1)|kidney(1)|large_intestine(4)|lung(4)|ovary(2)|skin(1)|urinary_tract(1)	14						ATGGAAATGAAGATGCAGTCA	0.328																																																0													84	82	83					7																	107253813		2203	4300	6503	SO:0001583	missense	55973				CCDS34730.1, CCDS34731.1	7q22.3	2012-09-20			ENSG00000075790	ENSG00000075790			24131	protein-coding gene	gene with protein product						12477932	Standard	NM_018844		Approved	BAP29, DKFZp686M2086	uc011kma.1	Q9UHQ4	OTTHUMG00000154770	ENST00000005259.4:c.626A>G	7.37:g.107253813A>G	ENSP00000005259:p.Lys209Arg	Somatic		WXS	Illumina HiSeq	Phase_I	G5E9L4|O95003	Missense_Mutation	SNP	ENST00000005259.4	37	CCDS34731.1	.	.	.	.	.	.	.	.	.	.	A	11.27	1.589608	0.28357	.	.	ENSG00000075790	ENST00000005259;ENST00000465919;ENST00000445771;ENST00000457837;ENST00000379117;ENST00000379119;ENST00000491150;ENST00000379121	T	0.44881	0.91	5.08	3.93	0.45458	.	0.183317	0.56097	D	0.000024	T	0.34948	0.0915	L	0.54908	1.71	0.58432	D	0.999997	B;B;B	0.23442	0.047;0.035;0.085	B;B;B	0.26094	0.033;0.066;0.066	T	0.10613	-1.0622	10	0.25106	T	0.35	0.119	7.3851	0.26878	0.903:0.0:0.097:0.0	.	209;209;209	G5E9L4;C9JTE9;Q9UHQ4	.;.;BAP29_HUMAN	R	209;115;209;209;209;209;166;115	ENSP00000368416:K115R	ENSP00000005259:K209R	K	+	2	0	BCAP29	107041049	1.000000	0.71417	1.000000	0.80357	0.874000	0.50279	2.274000	0.43390	0.969000	0.38237	0.454000	0.30748	AAG		0.328	BCAP29-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000337011.2	NM_018844		G	107253813	A	G	107253813	3	3	642	1	0	0	0	0	1	0	0	0	1346	72	3	3	648	3	BCAP29	7	107253813	Missense_Mutation	SNP	A	TCGA-KL-8343-01A-11D-2310-10	1349848	107253813	51884850	38	39731										
PAX4	5078	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	127255519	127255519	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ctagccgcacaatctgctgcCgggtatccagaggcaggggc	14	13	1	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr7:127255519C>T	ENST00000341640.2	-	1	261	c.56G>A	c.(55-57)cGg>cAg	p.R19Q	PAX4_ENST00000338516.3_Missense_Mutation_p.R27Q|PAX4_ENST00000463946.1_5'UTR|PAX4_ENST00000378740.2_Missense_Mutation_p.R19Q	NM_006193.2	NP_006184.2	O43316	PAX4_HUMAN	paired box 4	27	Paired. {ECO:0000255|PROSITE- ProRule:PRU00381}.				cell differentiation (GO:0030154)|circadian rhythm (GO:0007623)|endocrine pancreas development (GO:0031018)|negative regulation of apoptotic process (GO:0043066)|organ morphogenesis (GO:0009887)|positive regulation of cell differentiation (GO:0045597)|response to cAMP (GO:0051591)|response to drug (GO:0042493)|retina development in camera-type eye (GO:0060041)	nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|double-stranded DNA binding (GO:0003690)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001206)			cervix(1)|kidney(2)|large_intestine(6)|lung(20)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	35						AATCTGCTGCCGGGTATCCAG	0.587																																					Ovarian(113;737 1605 7858 27720 34092)											0													84	87	86					7																	127255519		2203	4300	6503	SO:0001583	missense	5078				CCDS5797.1	7q32.1	2011-06-20	2007-07-12		ENSG00000106331	ENSG00000106331		"Paired boxes", "Homeoboxes / PRD class"	8618	protein-coding gene	gene with protein product		167413	"paired box gene 4"				Standard	NM_006193		Approved	MODY9	uc010lld.1	O43316	OTTHUMG00000157562	ENST00000341640.2:c.56G>A	7.37:g.127255519C>T	ENSP00000339906:p.Arg19Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O95161|Q6B0H0	Missense_Mutation	SNP	ENST00000341640.2	37	CCDS5797.1	.	.	.	.	.	.	.	.	.	.	C	35	5.556378	0.96514	.	.	ENSG00000106331	ENST00000341640;ENST00000338516;ENST00000378740	D;D	0.99867	-7.31;-7.31	5.73	5.73	0.89815	Paired box protein, N-terminal (4);Winged helix-turn-helix transcription repressor DNA-binding (1);Homeodomain-like (1);	0.000000	0.85682	D	0.000000	D	0.99864	0.9936	M	0.84846	2.72	0.54753	D	0.999986	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.96679	0.9502	10	0.87932	D	0	.	17.4002	0.87458	0.0:1.0:0.0:0.0	.	19;27	O43316-4;O43316	.;PAX4_HUMAN	Q	19;27;27	ENSP00000339906:R19Q;ENSP00000344297:R27Q	ENSP00000344297:R27Q	R	-	2	0	PAX4	127042755	1.000000	0.71417	1.000000	0.80357	0.840000	0.47671	7.609000	0.82925	2.693000	0.91896	0.655000	0.94253	CGG		0.587	PAX4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000349165.1			T	127255519	C	T	127255519	3	4	642	1	0	0	0	0	1	0	0	0	11488	652	23	1	1011	1	PAX4	7	127255519	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10	20001706	127255519	31883144	39	39732										
SSPO	23145	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr7	149486388	149486388	+	RNA	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	gagctatccgtgcccccaggGcttgctggcctgtgccgatg	14	14	0	0			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr7:149486388G>T	ENST00000378016.2	+	0	4364							A2VEC9	SSPO_HUMAN	SCO-spondin						cell adhesion (GO:0007155)	extracellular space (GO:0005615)	peptidase inhibitor activity (GO:0030414)					Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TGCCCCCAGGGCTTGCTGGCC	0.677																																																0													23	27	26					7																	149486388		2197	4295	6492			23145			AK093431		7q36.1	2013-08-07	2013-08-06		ENSG00000197558	ENSG00000197558			21998	protein-coding gene	gene with protein product	"subcommissural organ spondin", "SCO protein, thrombospondin domain containing"		"SCO-spondin homolog (Bos taurus)"			8743952, 11008217	Standard	NM_198455		Approved	SCO-spondin, KIAA0543, FLJ36112	uc010lpk.3	A2VEC9	OTTHUMG00000157884		7.37:g.149486388G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q76B61	Missense_Mutation	SNP	ENST00000378016.2	37																																																																																					0.677	SSPO-202	KNOWN	basic	processed_transcript	processed_transcript				T	149486388	G	T	149486388	1	4	642	0	1	0	0	0	0	0	0	0	15201	1203	42	4		4	SSPO	7	149486388	RNA	SNP	G	TCGA-KL-8343-01A-11D-2310-10	22230869	149486388	9652275	40	39733										
ZFHX4	79776	broad.mit.edu;mdanderson.org	37	chr8	77763344	77763344	+	Missense_Mutation	SNP	A	A	G													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ttctgaccgtcatgtctacaAgtatcgctgtaaccattgta							TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr8:77763344A>G	ENST00000521891.2	+	10	4635	c.4187A>G	c.(4186-4188)aAg>aGg	p.K1396R	ZFHX4_ENST00000518282.1_Missense_Mutation_p.K1370R|ZFHX4_ENST00000455469.2_Missense_Mutation_p.K1351R|ZFHX4_ENST00000050961.6_Missense_Mutation_p.K1351R	NM_024721.4	NP_078997.4	Q86UP3	ZFHX4_HUMAN	zinc finger homeobox 4	1351					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|zinc ion binding (GO:0008270)			NS(3)|breast(11)|central_nervous_system(1)|endometrium(36)|haematopoietic_and_lymphoid_tissue(2)|kidney(15)|large_intestine(66)|liver(2)|lung(245)|ovary(11)|pancreas(3)|prostate(11)|skin(7)|upper_aerodigestive_tract(13)|urinary_tract(6)	432			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CATGTCTACAAGTATCGCTGT	0.428										HNSCC(33;0.089)																																						0													93	88	90					8																	77763344		1895	4117	6012	SO:0001583	missense	79776				CCDS47878.1, CCDS47878.2	8q21.11	2012-07-02	2007-07-16		ENSG00000091656	ENSG00000091656		"Homeoboxes / ZF class"	30939	protein-coding gene	gene with protein product		606940	"zinc finger homeodomain 4"			10873665, 11935336	Standard	NM_024721		Approved	ZFH4, FLJ20980	uc003yau.2	Q86UP3	OTTHUMG00000164557	ENST00000521891.2:c.4187A>G	8.37:g.77763344A>G	ENSP00000430497:p.Lys1396Arg	Somatic		WXS	Illumina HiSeq	Phase_I	G3V138|Q18PS0|Q6ZN20	Missense_Mutation	SNP	ENST00000521891.2	37	CCDS47878.2	.	.	.	.	.	.	.	.	.	.	A	15.26	2.781160	0.49891	.	.	ENSG00000091656	ENST00000521891;ENST00000399468;ENST00000455469;ENST00000050961;ENST00000518282	T;T;T;T	0.55413	0.52;0.6;0.56;0.55	4.65	4.65	0.58169	.	0.000000	0.46758	U	0.000279	T	0.71316	0.3325	M	0.76002	2.32	0.58432	D	0.999996	D;D;D	0.67145	0.993;0.996;0.996	D;D;D	0.77557	0.978;0.99;0.99	T	0.75425	-0.3322	10	0.66056	D	0.02	.	14.5713	0.68213	1.0:0.0:0.0:0.0	.	1351;1351;1396	Q86UP3;Q86UP3-4;G3V138	ZFHX4_HUMAN;.;.	R	1396;1396;1351;1351;1370	ENSP00000430497:K1396R;ENSP00000399605:K1351R;ENSP00000050961:K1351R;ENSP00000430848:K1370R	ENSP00000050961:K1351R	K	+	2	0	ZFHX4	77925899	1.000000	0.71417	1.000000	0.80357	0.930000	0.56654	9.087000	0.94110	2.096000	0.63516	0.454000	0.30748	AAG		0.428	ZFHX4-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000379197.2	NM_024721		G	77763344	A	G	77763344	3	3	642	1	0	0	0	0	1	0	0	0	17647	72	3	3	4221	3	ZFHX4	8	77763344	Missense_Mutation	SNP	A	TCGA-KL-8343-01A-11D-2310-10		77763344	68600678	41	39734	342	2								
ZFHX4	79776	mdanderson.org;bcgsc.ca	37	chr8	77763346	77763346	+	Missense_Mutation	SNP	T	T	C													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ctgaccgtcatgtctacaagTatcgctgtaaccattgtagc							TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr8:77763346T>C	ENST00000521891.2	+	10	4637	c.4189T>C	c.(4189-4191)Tat>Cat	p.Y1397H	ZFHX4_ENST00000518282.1_Missense_Mutation_p.Y1371H|ZFHX4_ENST00000455469.2_Missense_Mutation_p.Y1352H|ZFHX4_ENST00000050961.6_Missense_Mutation_p.Y1352H	NM_024721.4	NP_078997.4	Q86UP3	ZFHX4_HUMAN	zinc finger homeobox 4	1352					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|zinc ion binding (GO:0008270)			NS(3)|breast(11)|central_nervous_system(1)|endometrium(36)|haematopoietic_and_lymphoid_tissue(2)|kidney(15)|large_intestine(66)|liver(2)|lung(245)|ovary(11)|pancreas(3)|prostate(11)|skin(7)|upper_aerodigestive_tract(13)|urinary_tract(6)	432			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TGTCTACAAGTATCGCTGTAA	0.433										HNSCC(33;0.089)																																						0													94	89	90					8																	77763346		1894	4118	6012	SO:0001583	missense	79776				CCDS47878.1, CCDS47878.2	8q21.11	2012-07-02	2007-07-16		ENSG00000091656	ENSG00000091656		"Homeoboxes / ZF class"	30939	protein-coding gene	gene with protein product		606940	"zinc finger homeodomain 4"			10873665, 11935336	Standard	NM_024721		Approved	ZFH4, FLJ20980	uc003yau.2	Q86UP3	OTTHUMG00000164557	ENST00000521891.2:c.4189T>C	8.37:g.77763346T>C	ENSP00000430497:p.Tyr1397His	Somatic		WXS	Illumina HiSeq	Phase_I	G3V138|Q18PS0|Q6ZN20	Missense_Mutation	SNP	ENST00000521891.2	37	CCDS47878.2	.	.	.	.	.	.	.	.	.	.	T	12.95	2.091083	0.36855	.	.	ENSG00000091656	ENST00000521891;ENST00000399468;ENST00000455469;ENST00000050961;ENST00000518282	T;T;T;T	0.35236	1.32;1.32;1.32;1.32	4.65	4.65	0.58169	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (1);	0.000000	0.40469	U	0.001088	T	0.44787	0.1310	M	0.83953	2.67	0.49582	D	0.999804	B;B;B	0.14438	0.006;0.01;0.01	B;B;B	0.17722	0.005;0.019;0.019	T	0.51004	-0.8760	10	0.72032	D	0.01	.	14.5713	0.68213	0.0:0.0:0.0:1.0	.	1352;1352;1397	Q86UP3;Q86UP3-4;G3V138	ZFHX4_HUMAN;.;.	H	1397;1397;1352;1352;1371	ENSP00000430497:Y1397H;ENSP00000399605:Y1352H;ENSP00000050961:Y1352H;ENSP00000430848:Y1371H	ENSP00000050961:Y1352H	Y	+	1	0	ZFHX4	77925901	1.000000	0.71417	1.000000	0.80357	0.945000	0.59286	6.086000	0.71352	2.096000	0.63516	0.454000	0.30748	TAT		0.433	ZFHX4-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000379197.2	NM_024721		C	77763346	T	C	77763346	3	2	642	1	0	0	0	0	1	0	0	0	17647	1638	57	3	4223	3	ZFHX4	8	77763346	Missense_Mutation	SNP	T	TCGA-KL-8343-01A-11D-2310-10	2	77763346	68600676	42	39735	342	2								
PABPC1	26986	mdanderson.org	37	chr8	101730065	101730065	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tctttcagctgcttcctgcgTctcaaagtgtacaaatccat	6	12	3	0			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr8:101730065T>C	ENST00000318607.5	-	3	1567	c.439A>G	c.(439-441)Acg>Gcg	p.T147A	PABPC1_ENST00000519596.1_5'Flank|PABPC1_ENST00000519004.1_Missense_Mutation_p.T102A|PABPC1_ENST00000522387.1_Missense_Mutation_p.T115A	NM_002568.3	NP_002559.2	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	147	RRM 2. {ECO:0000255|PROSITE- ProRule:PRU00176}.				cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|mRNA polyadenylation (GO:0006378)|mRNA splicing, via spliceosome (GO:0000398)|mRNA stabilization (GO:0048255)|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:2000623)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|positive regulation of translation (GO:0045727)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)|poly(U) RNA binding (GO:0008266)|protein C-terminus binding (GO:0008022)|translation activator activity (GO:0008494)			breast(2)|endometrium(4)|kidney(15)|large_intestine(4)|lung(13)|prostate(1)|skin(1)	40	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			GCTTCCTGCGTCTCAAAGTGT	0.333																																																0													92	87	89					8																	101730065		2203	4300	6503	SO:0001583	missense	26986			Y00345	CCDS6289.1	8q22.2-q23	2013-02-12	2004-04-20		ENSG00000070756	ENSG00000070756		"RNA binding motif (RRM) containing"	8554	protein-coding gene	gene with protein product		604679	"poly(A)-binding protein, cytoplasmic 2"	PAB1, PABPC2		2885805	Standard	XM_005250861		Approved	PABP1, PABPL1	uc003yjs.1	P11940	OTTHUMG00000164779	ENST00000318607.5:c.439A>G	8.37:g.101730065T>C	ENSP00000313007:p.Thr147Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q15097|Q93004	Missense_Mutation	SNP	ENST00000318607.5	37	CCDS6289.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	20.3|20.3	3.960720|3.960720	0.74016|0.74016	.|.	.|.	ENSG00000070756|ENSG00000070756	ENST00000523555|ENST00000318607;ENST00000347137;ENST00000519004;ENST00000522387;ENST00000518196	.|D;D;T;T	.|0.87256	.|-2.23;-2.23;2.25;2.25	5.37|5.37	5.37|5.37	0.77165|0.77165	.|Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	.|0.000000	.|0.64402	.|D	.|0.000003	D|D	0.85775|0.85775	0.5775|0.5775	L|L	0.31804|0.31804	0.96|0.96	0.58432|0.58432	D|D	0.999999|0.999999	.|P;B;P	.|0.46020	.|0.535;0.309;0.871	.|P;B;P	.|0.49451	.|0.611;0.135;0.513	D|D	0.87858|0.87858	0.2662|0.2662	5|10	.|0.87932	.|D	.|0	.|.	15.6618|15.6618	0.77193|0.77193	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	.|115;147;147	.|E7ERJ7;B3KT93;P11940	.|.;.;PABP1_HUMAN	G|A	93|147;147;102;115;102	.|ENSP00000313007:T147A;ENSP00000429594:T102A;ENSP00000429395:T115A;ENSP00000430159:T102A	.|ENSP00000313007:T147A	D|T	-|-	2|1	0|0	PABPC1|PABPC1	101799241|101799241	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.983000|0.983000	0.72400|0.72400	8.010000|8.010000	0.88615|0.88615	2.167000|2.167000	0.68274|0.68274	0.528000|0.528000	0.53228|0.53228	GAC|ACG		0.333	PABPC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380217.1	NM_002568		C	101730065	T	C	101730065	3	2	642	1	0	0	0	0	1	0	0	0	11370	1667	58	3	1519	3	PABPC1	8	101730065	Missense_Mutation	SNP	T	TCGA-KL-8343-01A-11D-2310-10	23966719	101730065	44633957	43	39736										
MAL2	114569	hgsc.bcm.edu	37	chr8	120220776	120220776	+	Splice_Site	DEL	G	G	-													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	cgtgtccttcccgccgccccGgggtcaccctgcccgccggc					rs398009582|rs71302978		TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr8:120220776delG	ENST00000276681.6	+	1	167	c.65delG	c.(64-66)cgg>cg	p.R22fs	MAL2_ENST00000521748.1_3'UTR	NM_052886.2	NP_443118.1	Q969L2	MAL2_HUMAN	mal, T-cell differentiation protein 2 (gene/pseudogene)	22						cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)						all_cancers(13;1.91e-26)|Lung NSC(37;8.61e-08)|Ovarian(258;0.018)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.000967)			CCGCCGCCCCGGGGTCACCCT	0.771													GGG|GGGG|GGG|insertion	5008	1.0	1.0	1.0	5008	,	,		6681	1.0		1.0	False		,,,				2504	1.0															0										1571,11		785,1,5	1	1	1			0.7	0.8	8	dbSNP_130	1	4116,22		2057,2,10	no	frameshift	MAL2	NM_052886.2		2842,3,15	A1A1,A1R,RR		0.5317,0.6953,0.5769			120220776	5687,33	184	483	667	SO:0001630	splice_region_variant	114569			AL117612	CCDS75780.1	8q23	2011-01-26	2011-01-26			ENSG00000147676			13634	protein-coding gene	gene with protein product	"MAL proteolipid protein 2"	609684				11549320	Standard	NM_052886		Approved		uc003yop.3	Q969L2		ENST00000276681.6:c.66+1G>-	8.37:g.120220776delG		Somatic		WXS	Illumina HiSeq	Phase_I	B2R520|Q6ZMD9	Frame_Shift_Del	DEL	ENST00000276681.6	37																																																																																					0.771	MAL2-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_052886	Frame_Shift_Del	-	120220776	G	-	120220776	8	5	642	1	0	1	0	1	0	0	1	0	9207	1116	39	0	67	0	MAL2	8	120220776	Splice_Site	DEL	G	TCGA-KL-8343-01A-11D-2310-10	18490711	120220776	26143246	44	39737										
TIGD5	84948	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr8	144680424	144680424	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	actcagcgcaagaagatgcgGctggccaacgaggaggagat	15	9	1	3			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr8:144680424G>T	ENST00000504548.2	+	1	351	c.351G>T	c.(349-351)cgG>cgT	p.R117R	EEF1D_ENST00000526838.1_5'Flank|EEF1D_ENST00000529272.1_5'Flank|EEF1D_ENST00000528610.1_5'Flank|RP11-661A12.14_ENST00000606452.1_lincRNA|EEF1D_ENST00000317198.6_5'Flank|EEF1D_ENST00000395119.3_5'Flank|EEF1D_ENST00000442189.2_5'Flank|EEF1D_ENST00000419152.2_5'Flank|EEF1D_ENST00000524624.1_5'Flank|EEF1D_ENST00000423316.2_5'Flank|EEF1D_ENST00000531770.1_5'Flank|EEF1D_ENST00000531621.1_5'Flank|EEF1D_ENST00000532400.1_5'Flank|TIGD5_ENST00000321385.3_Silent_p.R68R	NM_032862.4	NP_116251.4	Q53EQ6	TIGD5_HUMAN	tigger transposable element derived 5	117	HTH CENPB-type. {ECO:0000255|PROSITE- ProRule:PRU00583}.					nucleus (GO:0005634)	DNA binding (GO:0003677)			NS(1)|lung(3)|ovary(1)|soft_tissue(1)|urinary_tract(1)	7	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)			AGAAGATGCGGCTGGCCAACG	0.711																																																0													16	15	16					8																	144680424		2171	4274	6445	SO:0001819	synonymous_variant	84948			AK027832	CCDS6406.1, CCDS6406.2	8q24.3	2008-02-01				ENSG00000179886			18336	protein-coding gene	gene with protein product							Standard	NM_032862		Approved	FLJ14926	uc003yyx.2	Q53EQ6		ENST00000504548.2:c.351G>T	8.37:g.144680424G>T		Somatic		WXS	Illumina HiSeq	Phase_I	E7EWS2|Q6NT83|Q8N5A1|Q96JW8	Silent	SNP	ENST00000504548.2	37	CCDS6406.2																																																																																				0.711	TIGD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368269.1	NM_032862		T	144680424	G	T	144680424	2	4	642	1	0	0	0	0	0	0	0	1	15911	1190	42	4		4	TIGD5	8	144680424	Silent	SNP	G	TCGA-KL-8343-01A-11D-2310-10	24459648	144680424	1683598	45	39738										
FGD3	89846	ucsc.edu	37	chr9	95792199	95792199	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	taagaccagacgtgacaaggAgaagcagagctgtaagagct	13	7	0	6			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr9:95792199A>G	ENST00000375482.3	+	15	2097	c.1601A>G	c.(1600-1602)gAg>gGg	p.E534G	FGD3_ENST00000337352.6_Missense_Mutation_p.E534G|FGD3_ENST00000538555.1_Missense_Mutation_p.E137G|FGD3_ENST00000416701.2_Missense_Mutation_p.E534G	NM_001083536.1	NP_001077005.1	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	534					actin cytoskeleton organization (GO:0030036)|apoptotic signaling pathway (GO:0097190)|cytoskeleton organization (GO:0007010)|filopodium assembly (GO:0046847)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of Cdc42 GTPase activity (GO:0043088)|regulation of cell shape (GO:0008360)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|lamellipodium (GO:0030027)|ruffle (GO:0001726)	guanyl-nucleotide exchange factor activity (GO:0005085)|metal ion binding (GO:0046872)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|small GTPase binding (GO:0031267)			breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(4)|ovary(2)|prostate(1)|urinary_tract(1)	17						CGTGACAAGGAGAAGCAGAGC	0.537																																																0													111	115	114					9																	95792199		2094	4227	6321	SO:0001583	missense	89846			AK000004	CCDS43849.1, CCDS69619.1	9q22	2013-01-10	2004-08-24		ENSG00000127084	ENSG00000127084		"Zinc fingers, FYVE domain containing", "Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	16027	protein-coding gene	gene with protein product			"FGD1 family, member 3"			11214971	Standard	NM_001083536		Approved	FLJ00004, ZFYVE5	uc004asz.2	Q5JSP0	OTTHUMG00000021032	ENST00000375482.3:c.1601A>G	9.37:g.95792199A>G	ENSP00000364631:p.Glu534Gly	Somatic		WXS	Illumina HiSeq	Phase_I	F8W7P2|Q4VX84|Q7Z7D9|Q8N5G1	Missense_Mutation	SNP	ENST00000375482.3	37	CCDS43849.1	.	.	.	.	.	.	.	.	.	.	A	21.6	4.171529	0.78452	.	.	ENSG00000127084	ENST00000375482;ENST00000416701;ENST00000337352;ENST00000538555	T;T;T;T	0.74002	-0.8;-0.8;-0.8;-0.8	4.64	4.64	0.57946	Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, FYVE-type (2);Zinc finger, FYVE-related (1);Zinc finger, FYVE/PHD-type (1);	0.000000	0.33057	N	0.005326	D	0.83151	0.5192	M	0.64630	1.985	0.52501	D	0.999958	D;D	0.89917	1.0;0.999	D;D	0.91635	0.999;0.995	D	0.84793	0.0780	10	0.72032	D	0.01	.	12.3041	0.54891	1.0:0.0:0.0:0.0	.	534;534	F8W7P2;Q5JSP0	.;FGD3_HUMAN	G	534;534;534;137	ENSP00000364631:E534G;ENSP00000413833:E534G;ENSP00000336914:E534G;ENSP00000442560:E137G	ENSP00000336914:E534G	E	+	2	0	FGD3	94832020	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.006000	0.76329	1.875000	0.54330	0.459000	0.35465	GAG		0.537	FGD3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000055493.1	NM_033086		G	95792199	A	G	95792199	3	3	642	1	0	0	0	0	1	0	0	0	5841	304	11	3	1651	3	FGD3	9	95792199	Missense_Mutation	SNP	A	TCGA-KL-8343-01A-11D-2310-10		95792199	45421232	46	39739										
PFKFB3	5209	ucsc.edu	37	chr10	6261653	6261653	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	cctcgaccccgacaaatgcgAcaggtgattcccgtggctgg	12	14	0	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr10:6261653A>G	ENST00000379775.4	+	7	950	c.620A>G	c.(619-621)gAc>gGc	p.D207G	PFKFB3_ENST00000379782.3_Missense_Mutation_p.D207G|PFKFB3_ENST00000540253.1_Missense_Mutation_p.D221G|PFKFB3_ENST00000360521.2_Missense_Mutation_p.D207G|PFKFB3_ENST00000379785.1_Missense_Mutation_p.D207G|PFKFB3_ENST00000379789.4_Missense_Mutation_p.D187G|PFKFB3_ENST00000536985.1_3'UTR|PFKFB3_ENST00000317350.4_Missense_Mutation_p.D207G	NM_004566.3	NP_004557.1	Q16875	F263_HUMAN	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3	207	6-phosphofructo-2-kinase.				carbohydrate metabolic process (GO:0005975)|carbohydrate phosphorylation (GO:0046835)|fructose 2,6-bisphosphate metabolic process (GO:0006003)|fructose metabolic process (GO:0006000)|glucose metabolic process (GO:0006006)|glycolytic process (GO:0006096)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|nucleus (GO:0005634)	6-phosphofructo-2-kinase activity (GO:0003873)|ATP binding (GO:0005524)|fructose-2,6-bisphosphate 2-phosphatase activity (GO:0004331)			central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(1)|liver(2)|lung(10)|ovary(3)|upper_aerodigestive_tract(1)	22						GACAAATGCGACAGGTGATTC	0.507																																																0													69	68	69					10																	6261653		2203	4300	6503	SO:0001583	missense	5209				CCDS7078.1, CCDS44353.1, CCDS60479.1	10p15.1	2008-05-14			ENSG00000170525	ENSG00000170525			8874	protein-coding gene	gene with protein product		605319				9146922, 10072580	Standard	NM_004566		Approved		uc001ije.3	Q16875	OTTHUMG00000017621	ENST00000379775.4:c.620A>G	10.37:g.6261653A>G	ENSP00000369100:p.Asp207Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z955|O43622|O75902|Q5VX15|Q5VX18|Q5VX19	Missense_Mutation	SNP	ENST00000379775.4	37	CCDS7078.1	.	.	.	.	.	.	.	.	.	.	A	19.07	3.755617	0.69648	.	.	ENSG00000170525	ENST00000379789;ENST00000540253;ENST00000317350;ENST00000379785;ENST00000379782;ENST00000360521;ENST00000379775;ENST00000358499	.	.	.	5.56	5.56	0.83823	6-phosphofructo-2-kinase (1);	0.000000	0.85682	D	0.000000	D	0.84061	0.5389	M	0.86805	2.84	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;0.997;0.999	D;D;D;D	0.97110	1.0;0.999;0.973;0.999	D	0.87133	0.2198	9	0.87932	D	0	-4.2194	15.7063	0.77583	1.0:0.0:0.0:0.0	.	221;207;207;187	B7Z955;Q16875-2;Q16875;Q5VX15	.;.;F263_HUMAN;.	G	187;221;207;207;207;207;207;207	.	ENSP00000369105:D207G	D	+	2	0	PFKFB3	6301659	1.000000	0.71417	0.982000	0.44146	0.229000	0.25112	9.097000	0.94193	2.111000	0.64477	0.482000	0.46254	GAC		0.507	PFKFB3-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000046647.1			G	6261653	A	G	6261653	3	3	642	1	0	0	0	0	1	0	0	0	11769	275	10	3	666	3	PFKFB3	10	6261653	Missense_Mutation	SNP	A	TCGA-KL-8343-01A-11D-2310-10		6261653	129273094	47	39740										
CHST3	9469	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr10	73767938	73767938	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	gggccgctgcagaaggcccgCgagatgtaccgcttcgccgg	16	14	0	2			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr10:73767938C>T	ENST00000373115.4	+	3	1586	c.1149C>T	c.(1147-1149)cgC>cgT	p.R383R		NM_004273.4	NP_004264.2	Q7LGC8	CHST3_HUMAN	carbohydrate (chondroitin 6) sulfotransferase 3	383					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|glycosaminoglycan metabolic process (GO:0030203)|small molecule metabolic process (GO:0044281)|sulfur compound metabolic process (GO:0006790)|T cell homeostasis (GO:0043029)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	chondroitin 6-sulfotransferase activity (GO:0008459)|proteoglycan sulfotransferase activity (GO:0050698)|sulfotransferase activity (GO:0008146)			endometrium(1)|lung(5)	6						AGAAGGCCCGCGAGATGTACC	0.701																																																0													8	9	9					10																	73767938		2054	4025	6079	SO:0001819	synonymous_variant	9469			AB017915	CCDS7312.1	10q22.1	2007-03-14			ENSG00000122863	ENSG00000122863		"Sulfotransferases, membrane-bound"	1971	protein-coding gene	gene with protein product		603799				9883891, 9714738	Standard	NM_004273		Approved	C6ST, C6ST1	uc001jsn.3	Q7LGC8	OTTHUMG00000018431	ENST00000373115.4:c.1149C>T	10.37:g.73767938C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O75099|Q52M30	Silent	SNP	ENST00000373115.4	37	CCDS7312.1																																																																																				0.701	CHST3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048563.1	NM_004273		T	73767938	C	T	73767938	2	4	642	1	0	0	0	0	0	0	0	1	3407	755	27	1		1	CHST3	10	73767938	Silent	SNP	C	TCGA-KL-8343-01A-11D-2310-10	67506285	73767938	61766809	48	39741										
KIF11	3832	ucsc.edu	37	chr10	94399586	94399586	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	atgaatctttggacagagagAttctgtgctttggaggaaaa	12	4	2	3			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr10:94399586A>G	ENST00000260731.3	+	17	2286	c.2196A>G	c.(2194-2196)agA>agG	p.R732R		NM_004523.3	NP_004514.2	P52732	KIF11_HUMAN	kinesin family member 11	732					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|blood coagulation (GO:0007596)|chromosome segregation (GO:0007059)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|mitotic centrosome separation (GO:0007100)|mitotic nuclear division (GO:0007067)|mitotic spindle organization (GO:0007052)|spindle assembly involved in mitosis (GO:0090307)|spindle organization (GO:0007051)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinesin complex (GO:0005871)|membrane (GO:0016020)|microtubule (GO:0005874)|spindle (GO:0005819)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)|plus-end-directed microtubule motor activity (GO:0008574)|protein complex binding (GO:0032403)|protein kinase binding (GO:0019901)			breast(1)|endometrium(5)|kidney(2)|large_intestine(9)|lung(8)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29						GGACAGAGAGATTCTGTGCTT	0.333																																					Colon(47;212 1003 2764 4062 8431)											0													109	117	114					10																	94399586		2203	4297	6500	SO:0001819	synonymous_variant	3832			X85137	CCDS7422.1	10q24.1	2008-03-03	2003-01-09	2003-01-10	ENSG00000138160	ENSG00000138160		"Kinesins"	6388	protein-coding gene	gene with protein product		148760	"kinesin-like 1"	KNSL1		1505978, 8548803	Standard	NM_004523		Approved	Eg5, HKSP, TRIP5	uc001kic.3	P52732	OTTHUMG00000018761	ENST00000260731.3:c.2196A>G	10.37:g.94399586A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0AV49|B2RMV3|Q15716|Q5VWX0	Silent	SNP	ENST00000260731.3	37	CCDS7422.1																																																																																				0.333	KIF11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049401.1	NM_004523		G	94399586	A	G	94399586	2	3	642	1	0	0	0	0	0	0	0	1	8279	330	12	3		3	KIF11	10	94399586	Silent	SNP	A	TCGA-KL-8343-01A-11D-2310-10	20631648	94399586	41135161	49	39742										
NLRP6	171389	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr11	281811	281811	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	agaagaagagcctggggaagCggctccaggccagcctgggt	17	10	0	3			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr11:281811C>T	ENST00000312165.5	+	4	2077	c.2077C>T	c.(2077-2079)Cgg>Tgg	p.R693W	NLRP6_ENST00000534750.1_Missense_Mutation_p.R693W	NM_138329.1	NP_612202.2	P59044	NALP6_HUMAN	NLR family, pyrin domain containing 6	693					G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of immune response (GO:0050777)|negative regulation of MAPK cascade (GO:0043409)|negative regulation of toll-like receptor signaling pathway (GO:0034122)|regulation of inflammatory response (GO:0050727)|response to bacterium (GO:0009617)|wound healing (GO:0042060)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|vasopressin receptor activity (GO:0005000)			breast(1)|skin(1)|upper_aerodigestive_tract(2)	4		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;4.28e-28)|Epithelial(43;2.47e-27)|OV - Ovarian serous cystadenocarcinoma(40;4.66e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.0485)|LUSC - Lung squamous cell carcinoma(625;0.122)		CCTGGGGAAGCGGCTCCAGGC	0.617																																																0													27	34	32					11																	281811		2200	4296	6496	SO:0001583	missense	171389			AF479748	CCDS7693.1, CCDS60680.1	11p15	2006-12-08	2006-12-08	2006-12-08	ENSG00000174885	ENSG00000174885		"Nucleotide-binding domain and leucine rich repeat containing"	22944	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 6"	609650	"NACHT, leucine rich repeat and PYD containing 6"	NALP6		12563287, 12019269	Standard	NM_138329		Approved	PYPAF5, PAN3, CLR11.4	uc010qvs.3	P59044	OTTHUMG00000119070	ENST00000312165.5:c.2077C>T	11.37:g.281811C>T	ENSP00000309767:p.Arg693Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9F3|E9PJZ8	Missense_Mutation	SNP	ENST00000312165.5	37	CCDS7693.1	.	.	.	.	.	.	.	.	.	.	C	13.05	2.120457	0.37436	.	.	ENSG00000174885	ENST00000534750;ENST00000312165	T;T	0.75050	-0.9;-0.86	3.22	-0.952	0.10366	.	5.443360	0.00881	U	0.002125	D	0.83115	0.5184	M	0.63428	1.95	0.09310	N	1	D;D	0.89917	1.0;1.0	D;D	0.77557	0.967;0.99	T	0.64694	-0.6347	10	0.62326	D	0.03	.	6.2588	0.20889	0.0:0.4948:0.0:0.5052	.	693;693	E9PJZ8;P59044	.;NALP6_HUMAN	W	693	ENSP00000433617:R693W;ENSP00000309767:R693W	ENSP00000309767:R693W	R	+	1	2	NLRP6	271811	0.001000	0.12720	0.001000	0.08648	0.751000	0.42716	-0.508000	0.06344	-0.183000	0.10585	0.462000	0.41574	CGG		0.617	NLRP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239283.1	NM_138329		T	281811	C	T	281811	3	4	642	1	0	0	0	0	1	0	0	0	10488	759	27	1	2091	1	NLRP6	11	281811	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10		281811	134724705	50	39743										
DEAF1	10522	broad.mit.edu	37	chr11	694933	694934	+	Frame_Shift_Ins	INS	-	-	AG													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tccctgctcagcaccggctcINSctccgcctcgcctcctgccg							TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr11:694933_694934insAG	ENST00000382409.3	-	1	598_599	c.114_115insCT	c.(112-117)gaggagfs	p.E39fs	DEAF1_ENST00000338675.6_Frame_Shift_Ins_p.E39fs|TMEM80_ENST00000397510.3_5'Flank|TMEM80_ENST00000608174.1_5'Flank|TMEM80_ENST00000397512.3_5'Flank	NM_021008.2	NP_066288.2	O75398	DEAF1_HUMAN	DEAF1 transcription factor	39	Ala-rich.				anatomical structure morphogenesis (GO:0009653)|embryonic skeletal system development (GO:0048706)|germ cell development (GO:0007281)|negative regulation of transcription, DNA-templated (GO:0045892)|neural tube closure (GO:0001843)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of mammary gland epithelial cell proliferation (GO:0033599)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|endometrium(3)|kidney(1)|large_intestine(4)|lung(11)|prostate(2)|upper_aerodigestive_tract(1)	24		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)		AGCACCGGCTCCTCCGCCTCGC	0.782																																																0																																										SO:0001589	frameshift_variant	10522			AF049460	CCDS31327.1	11p15.5	2013-01-10	2013-01-10		ENSG00000177030	ENSG00000177030		"Zinc fingers, MYND-type"	14677	protein-coding gene	gene with protein product		602635	"deformed epidermal autoregulatory factor 1 (Drosophila)"			9773984	Standard	XR_428838		Approved	NUDR, SPN, ZMYND5	uc001lqq.1	O75398	OTTHUMG00000165363	ENST00000382409.3:c.114_115insCT	11.37:g.694933_694934insAG	ENSP00000371846:p.Glu39fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1F8|A8K5R8|C7T5V5|O15152|O75399|O75510|O75511|O75512|O75513|Q9UET1	Frame_Shift_Ins	INS	ENST00000382409.3	37	CCDS31327.1																																																																																				0.782	DEAF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383614.3	NM_021008		AG	694934	-	AG	694933	7	5	642	1	0	1	1	0	0	0	0	0	4382	864	30	0	1630	0	DEAF1	11	694933	Frame_Shift_Ins	INS	-	TCGA-KL-8343-01A-11D-2310-10	413122	694933	134311583	51	39744										
CTSD	1509	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr11	1774767	1774767	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	cctcggcgaagcccaccctgTtgttgtcacggtcaaacaca	9	15	2	0			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr11:1774767T>C	ENST00000236671.2	-	9	1337	c.1205A>G	c.(1204-1206)aAc>aGc	p.N402S	IFITM10_ENST00000340134.4_5'Flank|RP11-295K3.1_ENST00000427721.1_Intron	NM_001909.4	NP_001900.1	P07339	CATD_HUMAN	cathepsin D	402					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|autophagic vacuole assembly (GO:0000045)|cell death (GO:0008219)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)|lysosome (GO:0005764)|mitochondrion (GO:0005739)	aspartic-type endopeptidase activity (GO:0004190)			endometrium(1)|large_intestine(4)|lung(8)	13		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)	"""Insulin(DB00071)|Insulin Regular(DB00030)"	GCCCACCCTGTTGTTGTCACG	0.652																																																0													54	59	57					11																	1774767		2202	4298	6500	SO:0001583	missense	1509			M11233	CCDS7725.1	11p15.5	2009-06-26	2006-12-05		ENSG00000117984	ENSG00000117984	3.4.23.5	"Cathepsins"	2529	protein-coding gene	gene with protein product	"ceroid-lipofuscinosis, neuronal 10"	116840	"cathepsin D (lysosomal aspartyl protease)"	CPSD		3927292	Standard	NM_001909		Approved	CLN10	uc001luc.2	P07339	OTTHUMG00000044760	ENST00000236671.2:c.1205A>G	11.37:g.1774767T>C	ENSP00000236671:p.Asn402Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IB57	Missense_Mutation	SNP	ENST00000236671.2	37	CCDS7725.1	.	.	.	.	.	.	.	.	.	.	t	15.40	2.823084	0.50739	.	.	ENSG00000117984	ENST00000236671;ENST00000429746	T;T	0.59224	0.28;0.33	3.75	3.75	0.43078	Peptidase aspartic (1);Peptidase aspartic, catalytic (1);	0.250635	0.43416	D	0.000580	T	0.56352	0.1979	M	0.64404	1.975	0.58432	D	0.999999	P	0.45531	0.86	B	0.43082	0.407	T	0.61217	-0.7107	10	0.45353	T	0.12	.	12.9513	0.58403	0.0:0.0:0.0:1.0	.	402	P07339	CATD_HUMAN	S	402;179	ENSP00000236671:N402S;ENSP00000402586:N179S	ENSP00000236671:N402S	N	-	2	0	CTSD	1731343	1.000000	0.71417	0.550000	0.28217	0.558000	0.35554	7.268000	0.78473	1.721000	0.51461	0.254000	0.18369	AAC		0.652	CTSD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000104272.5	NM_001909		C	1774767	T	C	1774767	3	2	642	1	0	0	0	0	1	0	0	0	4034	1725	60	3	37	3	CTSD	11	1774767	Missense_Mutation	SNP	T	TCGA-KL-8343-01A-11D-2310-10	1079834	1774767	133231749	52	39745										
MICALCL	84953	broad.mit.edu	37	chr11	12315174	12315175	+	Frame_Shift_Ins	INS	-	-	G													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tcctcccaccccaaactttcINSggaggcgagccgtagcccaa					rs148792670	byFrequency	TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr11:12315174_12315175insG	ENST00000256186.2	+	3	487_488	c.196_197insG	c.(196-198)cggfs	p.R66fs		NM_032867.2	NP_116256.2	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	66	Interaction with MAPK1. {ECO:0000250}.				cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)	mitogen-activated protein kinase binding (GO:0051019)	p.R66W(1)		breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(5)|lung(5)|ovary(3)|skin(3)|upper_aerodigestive_tract(1)	30				Epithelial(150;0.00177)		CCCAAACTTTCGGAGGCGAGCC	0.55																																																1	Substitution - Missense(1)	endometrium(1)																																								SO:0001589	frameshift_variant	84953			BK000463	CCDS41620.1	11p15.3	2005-11-01			ENSG00000133808	ENSG00000133808			25933	protein-coding gene	gene with protein product		612355				12110185	Standard	NM_032867		Approved	FLJ14966	uc001mkg.1	Q6ZW33	OTTHUMG00000165777	ENST00000256186.2:c.198dupG	11.37:g.12315176_12315176dupG	ENSP00000256186:p.Arg66fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q7RTP7|Q96JU6	Frame_Shift_Ins	INS	ENST00000256186.2	37	CCDS41620.1																																																																																				0.55	MICALCL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386164.1	NM_032867		G	12315175	-	G	12315174	7	5	642	1	0	1	1	0	0	0	0	0	9579	875	31	0	202	0	MICALCL	11	12315174	Frame_Shift_Ins	INS	-	TCGA-KL-8343-01A-11D-2310-10	10540407	12315174	122691342	53	39746										
RCN1	5954	broad.mit.edu;hgsc.bcm.edu	37	chr11	32118784	32118784	+	Frame_Shift_Del	DEL	T	T	-													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	gggtgcagaaaagatacatcTttgataatgtcgccaaagtc							TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr11:32118784delT	ENST00000054950.3	+	2	642	c.349delT	c.(349-351)tttfs	p.F117fs	RCN1_ENST00000532942.1_Frame_Shift_Del_p.F66fs|RP1-65P5.3_ENST00000533009.1_RNA	NM_002901.2	NP_002892.1	Q15293	RCN1_HUMAN	reticulocalbin 1, EF-hand calcium binding domain	117	EF-hand 2. {ECO:0000255|PROSITE- ProRule:PRU00448}.		F -> L (in a colorectal cancer sample; somatic mutation). {ECO:0000269|PubMed:16959974}.		camera-type eye development (GO:0043010)|in utero embryonic development (GO:0001701)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum lumen (GO:0005788)	calcium ion binding (GO:0005509)			breast(2)|endometrium(2)|kidney(2)|large_intestine(5)|lung(6)	17	Lung SC(675;0.225)					AAGATACATCTTTGATAATGT	0.428																																																0													62	57	59					11																	32118784		2202	4296	6498	SO:0001589	frameshift_variant	5954			D42073	CCDS7876.1	11p13	2013-01-10			ENSG00000049449	ENSG00000049449		"EF-hand domain containing"	9934	protein-coding gene	gene with protein product	"proliferation-inducing gene 20"	602735		RCN		9192846, 8586628	Standard	NM_002901		Approved	Rcal, PIG20, FLJ37041	uc010reb.2	Q15293		ENST00000054950.3:c.349delT	11.37:g.32118784delT	ENSP00000054950:p.Phe117fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z1M1|D3DR00	Frame_Shift_Del	DEL	ENST00000054950.3	37	CCDS7876.1																																																																																				0.428	RCN1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388510.1	NM_002901		-	32118784	T	-	32118784	7	5	642	1	0	1	0	1	0	0	0	0	13192	1609	56	0	355	0	RCN1	11	32118784	Frame_Shift_Del	DEL	T	TCGA-KL-8343-01A-11D-2310-10	19803610	32118784	102887732	54	39747	343	2								
RCN1	5954	bcgsc.ca	37	chr11	32118785	32118785	+	Frame_Shift_Del	DEL	T	T	-													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ggtgcagaaaagatacatctTtgataatgtcgccaaagtct							TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr11:32118785delT	ENST00000054950.3	+	2	643	c.350delT	c.(349-351)tttfs	p.F117fs	RCN1_ENST00000532942.1_Frame_Shift_Del_p.F66fs|RP1-65P5.3_ENST00000533009.1_RNA	NM_002901.2	NP_002892.1	Q15293	RCN1_HUMAN	reticulocalbin 1, EF-hand calcium binding domain	117	EF-hand 2. {ECO:0000255|PROSITE- ProRule:PRU00448}.		F -> L (in a colorectal cancer sample; somatic mutation). {ECO:0000269|PubMed:16959974}.		camera-type eye development (GO:0043010)|in utero embryonic development (GO:0001701)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum lumen (GO:0005788)	calcium ion binding (GO:0005509)			breast(2)|endometrium(2)|kidney(2)|large_intestine(5)|lung(6)	17	Lung SC(675;0.225)					AGATACATCTTTGATAATGTC	0.423																																																0													63	57	59					11																	32118785		2202	4296	6498	SO:0001589	frameshift_variant	5954			D42073	CCDS7876.1	11p13	2013-01-10			ENSG00000049449	ENSG00000049449		"EF-hand domain containing"	9934	protein-coding gene	gene with protein product	"proliferation-inducing gene 20"	602735		RCN		9192846, 8586628	Standard	NM_002901		Approved	Rcal, PIG20, FLJ37041	uc010reb.2	Q15293		ENST00000054950.3:c.350delT	11.37:g.32118785delT	ENSP00000054950:p.Phe117fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z1M1|D3DR00	Frame_Shift_Del	DEL	ENST00000054950.3	37	CCDS7876.1																																																																																				0.423	RCN1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388510.1	NM_002901		-	32118785	T	-	32118785	7	5	642	1	0	1	0	1	0	0	0	0	13192	1841	64	0	356	0	RCN1	11	32118785	Frame_Shift_Del	DEL	T	TCGA-KL-8343-01A-11D-2310-10	1	32118785	102887731	55	39748	343	2								
SLC25A45	283130	mdanderson.org;bcgsc.ca	37	chr11	65144406	65144406	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ggctcctcggaacagcccccGgggcccctcctcccggaaga	12	19	0	1	rs34377244	byFrequency	TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr11:65144406G>A	ENST00000527174.1	-	5	536	c.481C>T	c.(481-483)Cgg>Tgg	p.R161W	SLC25A45_ENST00000417511.2_Missense_Mutation_p.R119W|SLC25A45_ENST00000360662.3_Missense_Mutation_p.R137W|RP11-867O8.5_ENST00000533886.1_RNA|SLC25A45_ENST00000526432.1_Missense_Mutation_p.R99W|SLC25A45_ENST00000377152.2_Missense_Mutation_p.R57W|SLC25A45_ENST00000294187.6_Missense_Mutation_p.R119W|SLC25A45_ENST00000534028.1_Missense_Mutation_p.R137W|SLC25A45_ENST00000398802.1_Missense_Mutation_p.R161W			Q8N413	S2545_HUMAN	solute carrier family 25, member 45	161					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)				endometrium(2)|kidney(3)|large_intestine(2)|lung(6)|upper_aerodigestive_tract(1)	14						AACAGCCCCCGGGGCCCCTCC	0.672													G|||	26	0.00519169	0.0182	0.0029	5008	,	,		14885	0.0		0.0	False		,,,				2504	0.0															0								G	TRP/ARG,TRP/ARG	39,3711		0,39,1836	38	42	40		355,481	1	0.2	11	dbSNP_126	40	0,8204		0,0,4102	no	missense,missense	SLC25A45	NM_001077241.1,NM_182556.2	101,101	0,39,5938	AA,AG,GG		0.0,1.04,0.3263	benign,benign	119/247,161/289	65144406	39,11915	1875	4102	5977	SO:0001583	missense	283130			BC041100	CCDS41670.1, CCDS41671.1, CCDS60850.1	11q13.1	2013-05-22			ENSG00000162241	ENSG00000162241		"Solute carriers"	27442	protein-coding gene	gene with protein product		610825				16949250	Standard	XM_006718507		Approved		uc001odr.1	Q8N413	OTTHUMG00000166255	ENST00000527174.1:c.481C>T	11.37:g.65144406G>A	ENSP00000435489:p.Arg161Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PL49|Q8IW29	Missense_Mutation	SNP	ENST00000527174.1	37	CCDS41670.1	14	0.00641025641025641	9	0.018292682926829267	5	0.013812154696132596	0	0.0	0	0.0	G	11.01	1.514063	0.27123	0.0104	0.0	ENSG00000162241	ENST00000527174;ENST00000534028;ENST00000398802;ENST00000360662;ENST00000377152;ENST00000294187;ENST00000417511;ENST00000526432	T;T;T;T;T;T;T;T	0.80909	-1.43;-1.43;-1.43;-1.43;-1.43;-1.43;-1.43;-1.43	5.23	1.02	0.19986	Mitochondrial carrier domain (2);	0.754501	0.12173	N	0.492860	T	0.64789	0.2630	M	0.83118	2.625	0.09310	N	1	B;B;B	0.22800	0.027;0.027;0.075	B;B;B	0.21546	0.029;0.013;0.035	T	0.63229	-0.6684	10	0.40728	T	0.16	-1.2411	3.8445	0.08928	0.2378:0.0:0.4608:0.3015	rs34377244	99;137;161	E9PJQ3;Q8N413-4;Q8N413	.;.;S2545_HUMAN	W	161;137;161;137;57;119;119;99	ENSP00000435489:R161W;ENSP00000431769:R137W;ENSP00000381782:R161W;ENSP00000353879:R137W;ENSP00000366357:R57W;ENSP00000294187:R119W;ENSP00000407530:R119W;ENSP00000435547:R99W	ENSP00000294187:R119W	R	-	1	2	SLC25A45	64900982	0.000000	0.05858	0.177000	0.23020	0.632000	0.37999	0.441000	0.21611	0.267000	0.21916	0.561000	0.74099	CGG		0.672	SLC25A45-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388744.3	NM_182556		A	65144406	G	A	65144406	3	1	642	1	0	0	0	0	1	0	0	0	14523	1115	39	1	393	1	SLC25A45	11	65144406	Missense_Mutation	SNP	G	TCGA-KL-8343-01A-11D-2310-10	33025621	65144406	69862110	56	39749										
CHRDL2	25884	broad.mit.edu;hgsc.bcm.edu	37	chr11	74408313	74408316	+	Frame_Shift_Del	DEL	CTTT	CTTT	-													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ctggaagtcttgcttcctgaCtttcttgatctgagtcaagt							TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	CTTT	CTTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr11:74408313_74408316delCTTT	ENST00000376332.3	-	10	1643_1646	c.1147_1150delAAAG	c.(1147-1152)aaagtcfs	p.KV383fs	CHRDL2_ENST00000263671.5_Frame_Shift_Del_p.ES401fs	NM_001278473.1	NP_001265402.1	Q6WN34	CRDL2_HUMAN	chordin-like 2	383					cartilage development (GO:0051216)|cell differentiation (GO:0030154)|ossification (GO:0001503)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)				endometrium(1)|kidney(1)|large_intestine(6)|lung(4)|prostate(1)|skin(2)	15	Hepatocellular(1;0.098)					TGCTTCCTGACTTTCTTGATCTGA	0.544																																																0																																										SO:0001589	frameshift_variant	25884			AL110168	CCDS8234.1, CCDS60893.1	11q13.4	2013-09-20			ENSG00000054938	ENSG00000054938			24168	protein-coding gene	gene with protein product		613127				12853144, 12975309	Standard	NM_015424		Approved	BNF1	uc001ovh.3	Q6WN34	OTTHUMG00000165623	ENST00000376332.3:c.1147_1150delAAAG	11.37:g.74408313_74408316delCTTT	ENSP00000365510:p.Lys383fs	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKU9|Q6WN30|Q6WN31|Q6WN32|Q7Z5J3	Frame_Shift_Del	DEL	ENST00000376332.3	37																																																																																					0.544	CHRDL2-002	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000385391.1			-	74408316	CTTT	-	74408313	7	5	642	1	0	1	0	1	0	0	0	0	3376	565	20	0	158	0	CHRDL2	11	74408313	Frame_Shift_Del	DEL	CTTT	TCGA-KL-8343-01A-11D-2310-10	9263907	74408313	60598203	57	39750	344	2								
CHRDL2	25884	bcgsc.ca	37	chr11	74408314	74408317	+	Frame_Shift_Del	DEL	CTTT	CTTT	-													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tggaagtcttgcttcctgacTttcttgatctgagtcaagtg							TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	CTTT	CTTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr11:74408314_74408317delCTTT	ENST00000376332.3	-	10	1642_1645	c.1146_1149delAAAG	c.(1144-1149)aaaaagfs	p.KK382fs	CHRDL2_ENST00000263671.5_Frame_Shift_Del_p.KG401fs	NM_001278473.1	NP_001265402.1	Q6WN34	CRDL2_HUMAN	chordin-like 2	382					cartilage development (GO:0051216)|cell differentiation (GO:0030154)|ossification (GO:0001503)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)				endometrium(1)|kidney(1)|large_intestine(6)|lung(4)|prostate(1)|skin(2)	15	Hepatocellular(1;0.098)					GCTTCCTGACTTTCTTGATCTGAG	0.544																																																0																																										SO:0001589	frameshift_variant	25884			AL110168	CCDS8234.1, CCDS60893.1	11q13.4	2013-09-20			ENSG00000054938	ENSG00000054938			24168	protein-coding gene	gene with protein product		613127				12853144, 12975309	Standard	NM_015424		Approved	BNF1	uc001ovh.3	Q6WN34	OTTHUMG00000165623	ENST00000376332.3:c.1146_1149delAAAG	11.37:g.74408314_74408317delCTTT	ENSP00000365510:p.Lys382fs	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKU9|Q6WN30|Q6WN31|Q6WN32|Q7Z5J3	Frame_Shift_Del	DEL	ENST00000376332.3	37																																																																																					0.544	CHRDL2-002	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000385391.1			-	74408317	CTTT	-	74408314	7	5	642	1	0	1	0	1	0	0	0	0	3376	1609	56	0	159	0	CHRDL2	11	74408314	Frame_Shift_Del	DEL	CTTT	TCGA-KL-8343-01A-11D-2310-10	1	74408314	60598202	58	39751	344	2								
FOLH1B	219595	broad.mit.edu	37	chr11	89420569	89420569	+	RNA	DEL	A	A	-													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ctctttatgaaagttggactAaaaaaagtccttccccagag							TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr11:89420569delA	ENST00000532352.1	+	0	1384							Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B							cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	dipeptidase activity (GO:0016805)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(7)|lung(26)|ovary(4)|skin(4)|urinary_tract(2)	48						AAGTTGGACTAAAAAAAGTCC	0.343																																																0													57	59	58					11																	89420569		2201	4296	6497			219595			AF261715		11q14.3	2014-03-18			ENSG00000134612	ENSG00000134612			13636	protein-coding gene	gene with protein product	"prostate specific membrane antigen like protein", "Cell growth-inhibiting gene 26 protein", "glutamate carboxypeptidase III"	609020	"folate hydrolase 2"	FOLH2, FOLHP		9838072, 14716746	Standard	NM_153696		Approved	PSMAL, GCPIII	uc001pda.3	Q9HBA9	OTTHUMG00000167376		11.37:g.89420569delA		Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000532352.1	37																																																																																					0.343	FOLH1B-004	KNOWN	basic	processed_transcript	pseudogene	OTTHUMT00000395421.1	NM_153696		-	89420569	A	-	89420569	6	5	642	0	1	1	0	1	0	0	0	0	5987	363	13	0		0	FOLH1B	11	89420569	RNA	DEL	A	TCGA-KL-8343-01A-11D-2310-10	15012255	89420569	45585947	59	39752										
TRIM49	57093	mdanderson.org	37	chr11	89537461	89537461	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	gttttgaggtttatctgctcGgttgactttgtgcattcaga	11	6	2	3	rs368472876		TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr11:89537461G>T	ENST00000329758.1	-	3	505	c.177C>A	c.(175-177)acC>acA	p.T59T	TRIM49_ENST00000532501.2_Silent_p.T59T	NM_020358.2	NP_065091.1	P0CI25	TRI49_HUMAN	tripartite motif containing 49	59						intracellular (GO:0005622)	zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|liver(1)|lung(14)|prostate(1)|skin(2)|stomach(1)	27		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				TTATCTGCTCGGTTGACTTTG	0.458																																																0													140	125	130					11																	89537461		2191	4297	6488	SO:0001819	synonymous_variant	57093			AB037682	CCDS8287.1	11p11.12-q12	2012-05-21	2011-01-25	2004-11-17	ENSG00000168930	ENSG00000168930		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	13431	protein-coding gene	gene with protein product		606124	"ring finger protein 18", "tripartite motif-containing 49"	RNF18		11018261	Standard	NM_020358		Approved	TRIM49A	uc001pdb.3	P0CI25		ENST00000329758.1:c.177C>A	11.37:g.89537461G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0AVR7|A0AVR9|Q6DJV1|Q9NS80	Silent	SNP	ENST00000329758.1	37	CCDS8287.1																																																																																				0.458	TRIM49-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395435.1	NM_020358		T	89537461	G	T	89537461	2	4	642	1	0	0	0	0	0	0	0	1	16536	1103	39	4		4	TRIM49	11	89537461	Silent	SNP	G	TCGA-KL-8343-01A-11D-2310-10	116892	89537461	45469055	60	39753										
ETNK1	55500	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	22824236	22824236	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	gttcattgattatgaatattCtggatacaactacctggcat	7	7	2	2			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr12:22824236C>T	ENST00000266517.4	+	5	1087	c.998C>T	c.(997-999)tCt>tTt	p.S333F		NM_018638.4	NP_061108.2	Q9HBU6	EKI1_HUMAN	ethanolamine kinase 1	333					glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylethanolamine biosynthetic process (GO:0006646)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|membrane (GO:0016020)	ATP binding (GO:0005524)|ethanolamine kinase activity (GO:0004305)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(2)|lung(6)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	16						TATGAATATTCTGGATACAAC	0.303																																					Esophageal Squamous(42;87 913 3224 6226 43339)											0													159	174	169					12																	22824236		2203	4299	6502	SO:0001583	missense	55500			BC006111	CCDS8698.1, CCDS41760.1	12p12.2	2004-07-09			ENSG00000139163	ENSG00000139163			24649	protein-coding gene	gene with protein product		609858				11912161, 11044454	Standard	XM_005253420		Approved	EKI1, EKI	uc001rft.3	Q9HBU6	OTTHUMG00000169008	ENST00000266517.4:c.998C>T	12.37:g.22824236C>T	ENSP00000266517:p.Ser333Phe	Somatic		WXS	Illumina HiSeq	Phase_I	G5E969	Missense_Mutation	SNP	ENST00000266517.4	37	CCDS8698.1	.	.	.	.	.	.	.	.	.	.	C	15.73	2.919183	0.52546	.	.	ENSG00000139163	ENST00000266517;ENST00000381409	T	0.63096	-0.02	5.26	4.35	0.52113	Protein kinase-like domain (1);Choline/ethanolamine kinase (1);	0.282916	0.34555	N	0.003879	T	0.70937	0.3281	M	0.75777	2.31	0.80722	D	1	P;B	0.41498	0.752;0.411	P;B	0.49140	0.601;0.315	T	0.74833	-0.3530	10	0.87932	D	0	-2.5583	13.4388	0.61101	0.0:0.7:0.3:0.0	.	333;333	E9PD44;Q9HBU6	.;EKI1_HUMAN	F	333	ENSP00000266517:S333F	ENSP00000266517:S333F	S	+	2	0	ETNK1	22715503	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	3.224000	0.51238	1.184000	0.42957	0.460000	0.39030	TCT		0.303	ETNK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401926.2	NM_018638		T	22824236	C	T	22824236	3	4	642	1	0	0	0	0	1	0	0	0	5275	913	32	2	1114	2	ETNK1	12	22824236	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10		22824236	111027659	61	39754										
KRT77	374454	broad.mit.edu;bcgsc.ca	37	chr12	53084953	53084953	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ggcagaaacgaggcctctacTccaagatccgcctgtgggag	13	12	1	2			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr12:53084953T>C	ENST00000341809.3	-	9	1761	c.1733A>G	c.(1732-1734)gAg>gGg	p.E578G	KRT77_ENST00000537195.1_Missense_Mutation_p.E345G|RP11-641A6.3_ENST00000547533.1_RNA	NM_175078.2	NP_778253.2	Q7Z794	K2C1B_HUMAN	keratin 77	578	Tail.					cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|keratin filament (GO:0045095)	structural molecule activity (GO:0005198)			NS(2)|endometrium(2)|large_intestine(3)|lung(11)|ovary(2)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)	25						AGGCCTCTACTCCAAGATCCG	0.637																																																0													51	43	46					12																	53084953		2199	4292	6491	SO:0001583	missense	374454			BK000975	CCDS8837.1	12q13.13	2013-06-25	2006-07-17	2006-07-17	ENSG00000189182	ENSG00000189182		"-", "Intermediate filaments type II, keratins (basic)"	20411	protein-coding gene	gene with protein product		611158	"keratin 1B"	KRT1B		11683385, 16831889	Standard	NM_175078		Approved		uc001saw.3	Q7Z794	OTTHUMG00000169450	ENST00000341809.3:c.1733A>G	12.37:g.53084953T>C	ENSP00000342710:p.Glu578Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q7RTS8	Missense_Mutation	SNP	ENST00000341809.3	37	CCDS8837.1	.	.	.	.	.	.	.	.	.	.	T	14.72	2.619576	0.46736	.	.	ENSG00000189182	ENST00000341809;ENST00000537195	D;D	0.84298	-1.83;-1.54	3.63	1.21	0.21127	.	.	.	.	.	T	0.68430	0.3000	N	0.08118	0	0.25508	N	0.987483	B	0.14012	0.009	B	0.10450	0.005	T	0.58853	-0.7563	9	0.87932	D	0	.	5.486	0.16749	0.0:0.253:0.0:0.747	.	578	Q7Z794	K2C1B_HUMAN	G	578;345	ENSP00000342710:E578G;ENSP00000440803:E345G	ENSP00000342710:E578G	E	-	2	0	KRT77	51371220	1.000000	0.71417	0.840000	0.33206	0.122000	0.20287	1.758000	0.38410	0.125000	0.18397	0.454000	0.30748	GAG		0.637	KRT77-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404111.1	NM_175078		C	53084953	T	C	53084953	3	2	642	1	0	0	0	0	1	0	0	0	8497	1551	54	3	7	3	KRT77	12	53084953	Missense_Mutation	SNP	T	TCGA-KL-8343-01A-11D-2310-10	30260717	53084953	80766942	62	39755										
LRRC43	254050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	122672370	122672370	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ggccccttggaaagtctctaCgtcaccgctaatcactggta	9	13	3	0			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr12:122672370C>T	ENST00000339777.4	+	4	673	c.645C>T	c.(643-645)taC>taT	p.Y215Y	LRRC43_ENST00000425921.1_Silent_p.Y30Y	NM_152759.4	NP_689972.3	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43	215										NS(1)|endometrium(1)|large_intestine(4)|lung(10)|skin(1)|upper_aerodigestive_tract(2)	19	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)		AAAGTCTCTACGTCACCGCTA	0.557																																																0													63	64	64					12																	122672370		1930	4135	6065	SO:0001819	synonymous_variant	254050			AK124107	CCDS45001.1	12q24.31	2014-09-11			ENSG00000158113	ENSG00000158113			28562	protein-coding gene	gene with protein product						12477932	Standard	NM_152759		Approved	MGC35140	uc009zxm.3	Q8N309	OTTHUMG00000168915	ENST00000339777.4:c.645C>T	12.37:g.122672370C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZVT9	Silent	SNP	ENST00000339777.4	37	CCDS45001.1																																																																																				0.557	LRRC43-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401589.1	NM_152759		T	122672370	C	T	122672370	2	4	642	1	0	0	0	0	0	0	0	1	9008	547	19	1		1	LRRC43	12	122672370	Silent	SNP	C	TCGA-KL-8343-01A-11D-2310-10	69587417	122672370	11179525	63	39756										
MYCBP2	23077	ucsc.edu;mdanderson.org	37	chr13	77799637	77799637	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tcaaatcgcacagagcctggAgggtatgttgtgattttgct	12	7	1	2			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr13:77799637A>G	ENST00000544440.2	-	19	2693	c.2676T>C	c.(2674-2676)ccT>ccC	p.P892P	MYCBP2_ENST00000360084.5_5'UTR|MYCBP2_ENST00000407578.2_Silent_p.P930P|MYCBP2_ENST00000357337.6_Silent_p.P892P					MYC binding protein 2, E3 ubiquitin protein ligase											NS(1)|autonomic_ganglia(1)|breast(8)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(17)|lung(51)|ovary(5)|pancreas(2)|prostate(5)|skin(7)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	118		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CAGAGCCTGGAGGGTATGTTG	0.443																																																0													197	166	176					13																	77799637		2203	4300	6503	SO:0001819	synonymous_variant	23077			AB020723		13q22	2012-02-23	2012-02-23		ENSG00000005810	ENSG00000005810			23386	protein-coding gene	gene with protein product		610392	"MYC binding protein 2"			9689053, 15057823	Standard	NM_015057		Approved	PAM, KIAA0916, FLJ10106	uc021rks.1	O75592	OTTHUMG00000017105	ENST00000544440.2:c.2676T>C	13.37:g.77799637A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000544440.2	37																																																																																					0.443	MYCBP2-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000045326.1	NM_015057		G	77799637	A	G	77799637	2	3	642	1	0	0	0	0	0	0	0	1	10025	291	11	3		3	MYCBP2	13	77799637	Silent	SNP	A	TCGA-KL-8343-01A-11D-2310-10		77799637	37370241	64	39757										
ADCY4	196883	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	24793320	24793320	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ggatggtggcggtgcccaagGctattctcagtcctggtcgt	15	10	1	0			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr14:24793320G>C	ENST00000310677.4	-	17	2107	c.1994C>G	c.(1993-1995)gCc>gGc	p.A665G	ADCY4_ENST00000554068.2_Missense_Mutation_p.A665G|ADCY4_ENST00000396747.3_Missense_Mutation_p.A358G|ADCY4_ENST00000418030.2_Missense_Mutation_p.A665G	NM_001198568.1|NM_001198592.1|NM_139247.3	NP_001185497.1|NP_001185521.1|NP_640340.2	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	665					activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|cAMP biosynthetic process (GO:0006171)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|neurotrophin TRK receptor signaling pathway (GO:0048011)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cytoplasm (GO:0005737)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	adenylate cyclase activity (GO:0004016)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)			cervix(1)|endometrium(1)|kidney(1)|large_intestine(10)|lung(13)|ovary(2)|pancreas(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	34				GBM - Glioblastoma multiforme(265;0.0192)		GGTGCCCAAGGCTATTCTCAG	0.612																																																0													75	67	70					14																	24793320		2203	4300	6503	SO:0001583	missense	196883			AF497516	CCDS9627.1	14q11.2	2013-02-04			ENSG00000129467	ENSG00000129467	4.6.1.1	"Adenylate cyclases"	235	protein-coding gene	gene with protein product		600292				7766992	Standard	NM_001198592		Approved	AC4	uc001woy.3	Q8NFM4	OTTHUMG00000029347	ENST00000310677.4:c.1994C>G	14.37:g.24793320G>C	ENSP00000312126:p.Ala665Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KV74|D3DS75|Q17R40|Q6ZTM6|Q96ML7	Missense_Mutation	SNP	ENST00000310677.4	37	CCDS9627.1	.	.	.	.	.	.	.	.	.	.	G	19.88	3.909293	0.72868	.	.	ENSG00000129467	ENST00000310677;ENST00000554068;ENST00000418030;ENST00000396747	T;T;T;T	0.79940	-1.13;-1.13;-1.13;-1.32	4.93	4.93	0.64822	.	0.000000	0.46145	D	0.000319	T	0.77096	0.4080	L	0.56769	1.78	0.33050	D	0.532568	B	0.33841	0.428	B	0.33521	0.165	T	0.80372	-0.1410	10	0.25751	T	0.34	.	15.6732	0.77295	0.0:0.0:1.0:0.0	.	665	Q8NFM4	ADCY4_HUMAN	G	665;665;665;358	ENSP00000312126:A665G;ENSP00000452250:A665G;ENSP00000393177:A665G;ENSP00000379971:A358G	ENSP00000312126:A665G	A	-	2	0	ADCY4	23863160	0.979000	0.34478	0.996000	0.52242	0.912000	0.54170	1.769000	0.38522	2.569000	0.86673	0.563000	0.77884	GCC		0.612	ADCY4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000073200.4			C	24793320	G	C	24793320	3	2	642	1	0	0	0	0	1	0	0	0	296	1203	42	4	1279	4	ADCY4	14	24793320	Missense_Mutation	SNP	G	TCGA-KL-8343-01A-11D-2310-10		24793320	82556220	65	39758										
BAG5	9529	broad.mit.edu	37	chr14	104026528	104026528	+	Frame_Shift_Del	DEL	T	T	-													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tggcttcccggatgcaggggTttttttcaagacttacctca							TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr14:104026528delT	ENST00000445922.2	-	2	1220	c.974delA	c.(973-975)aacfs	p.N325fs	BAG5_ENST00000337322.4_Frame_Shift_Del_p.N366fs|APOPT1_ENST00000247618.4_5'Flank|RP11-73M18.2_ENST00000472726.2_5'Flank|APOPT1_ENST00000409074.2_5'Flank|APOPT1_ENST00000556253.2_5'Flank|BAG5_ENST00000299204.4_Frame_Shift_Del_p.N325fs|RP11-894P9.2_ENST00000556332.1_RNA	NM_004873.3	NP_004864.1	Q9UL15	BAG5_HUMAN	BCL2-associated athanogene 5	325	BAG 4. {ECO:0000255|PROSITE- ProRule:PRU00369}.				negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902176)|negative regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032435)|negative regulation of protein refolding (GO:0061084)|negative regulation of protein ubiquitination (GO:0031397)|negative regulation of ubiquitin-protein transferase activity (GO:0051444)|neuron death (GO:0070997)|protein folding (GO:0006457)|regulation of inclusion body assembly (GO:0090083)	inclusion body (GO:0016234)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	chaperone binding (GO:0051087)|protein kinase binding (GO:0019901)|ubiquitin protein ligase binding (GO:0031625)			endometrium(5)|large_intestine(4)|lung(7)|ovary(2)|prostate(2)|skin(2)|urinary_tract(2)	24		Melanoma(154;0.155)	Epithelial(46;0.144)			GATGCAGGGGTTTTTTTCAAG	0.443																																					NSCLC(171;1832 2055 18950 31566 41632)											0													61	65	63					14																	104026528		2203	4300	6503	SO:0001589	frameshift_variant	9529			AF095195	CCDS9982.1, CCDS41995.1	14q32	2008-08-01				ENSG00000166170			941	protein-coding gene	gene with protein product		603885				9873016, 15603737	Standard	NM_001015048		Approved		uc001ynh.2	Q9UL15		ENST00000445922.2:c.974delA	14.37:g.104026528delT	ENSP00000391713:p.Asn325fs	Somatic		WXS	Illumina HiSeq	Phase_I	O94950|Q86W59	Frame_Shift_Del	DEL	ENST00000445922.2	37	CCDS9982.1																																																																																				0.443	BAG5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414990.1			-	104026528	T	-	104026528	7	5	642	1	0	1	0	1	0	0	0	0	1290	1725	60	0	373	0	BAG5	14	104026528	Frame_Shift_Del	DEL	T	TCGA-KL-8343-01A-11D-2310-10	79233208	104026528	3323012	66	39759										
INO80	54617	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	41313154	41313154	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tgatgctccacagacctccaGctggctctgggaagaactgt	11	12	1	3			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr15:41313154G>C	ENST00000361937.3	-	26	3642	c.3218C>G	c.(3217-3219)gCt>gGt	p.A1073G	RP11-540O11.4_ENST00000558967.1_RNA|INO80_ENST00000401393.3_Missense_Mutation_p.A1073G			Q9ULG1	INO80_HUMAN	INO80 complex subunit	1073	Assembles INO80 complex module consisting of conserved components INO80B, INO80C, ACTR5, RVBL1, RVBL2.				ATP catabolic process (GO:0006200)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|chromatin remodeling (GO:0006338)|DNA duplex unwinding (GO:0032508)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|mitotic sister chromatid segregation (GO:0000070)|positive regulation of cell growth (GO:0030307)|positive regulation of nuclear cell cycle DNA replication (GO:0010571)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of G1/S transition of mitotic cell cycle (GO:2000045)|spindle assembly (GO:0051225)|UV-damage excision repair (GO:0070914)	Ino80 complex (GO:0031011)|microtubule (GO:0005874)|nucleus (GO:0005634)	alpha-tubulin binding (GO:0043014)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)			NS(1)|breast(4)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(10)|lung(10)|ovary(3)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(2)	49						CAGACCTCCAGCTGGCTCTGG	0.527																																																0													56	55	55					15																	41313154		2203	4300	6503	SO:0001583	missense	54617			AB033085	CCDS10071.1	15q15.1	2013-08-21	2013-08-21	2008-08-07	ENSG00000128908	ENSG00000128908	3.6.1.3	"INO80 complex subunits"	26956	protein-coding gene	gene with protein product	"INO80 complex subunit A"	610169	"INO80 complex homolog 1 (S. cerevisiae)", "INO80 homolog (S. cerevisiae)"	INOC1		16298340, 16230350, 20237820	Standard	NM_017553		Approved	KIAA1259, Ino80, hINO80, INO80A	uc001zni.3	Q9ULG1	OTTHUMG00000130209	ENST00000361937.3:c.3218C>G	15.37:g.41313154G>C	ENSP00000355205:p.Ala1073Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8X4|Q9NTG6	Missense_Mutation	SNP	ENST00000361937.3	37	CCDS10071.1	.	.	.	.	.	.	.	.	.	.	G	12.45	1.941002	0.34283	.	.	ENSG00000128908	ENST00000361937;ENST00000401393	D;D	0.91124	-2.79;-2.79	5.35	2.35	0.29111	.	0.344090	0.34223	N	0.004142	T	0.80116	0.4564	N	0.20986	0.625	0.26586	N	0.973289	B	0.11235	0.004	B	0.13407	0.009	T	0.63778	-0.6560	10	0.22109	T	0.4	.	5.7046	0.17901	0.2319:0.0:0.6331:0.135	.	1073	Q9ULG1	INO80_HUMAN	G	1073	ENSP00000355205:A1073G;ENSP00000384686:A1073G	ENSP00000355205:A1073G	A	-	2	0	INO80	39100446	1.000000	0.71417	0.488000	0.27440	0.804000	0.45430	3.923000	0.56469	0.337000	0.23665	-0.345000	0.07892	GCT		0.527	INO80-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252527.2	NM_017553		C	41313154	G	C	41313154	3	2	642	1	0	0	0	0	1	0	0	0	7753	971	34	4	1496	4	INO80	15	41313154	Missense_Mutation	SNP	G	TCGA-KL-8343-01A-11D-2310-10		41313154	61218238	67	39760										
RNF111	54778	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	59368246	59368246	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	catttgacccctgctgccctGtttcttcctcccgagctgca	7	17	1	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr15:59368246G>T	ENST00000557998.1	+	7	2067	c.1780G>T	c.(1780-1782)Gtt>Ttt	p.V594F	RNF111_ENST00000559209.1_Missense_Mutation_p.V594F|RNF111_ENST00000561186.1_Missense_Mutation_p.V594F|RNF111_ENST00000434298.1_Missense_Mutation_p.V594F|RNF111_ENST00000348370.4_Missense_Mutation_p.V594F	NM_001270530.1	NP_001257459.1	Q6ZNA4	RN111_HUMAN	ring finger protein 111	594					gene expression (GO:0010467)|pattern specification process (GO:0007389)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|protein polyubiquitination (GO:0000209)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|ubiquitin-dependent SMAD protein catabolic process (GO:0030579)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|protein complex (GO:0043234)	ligase activity (GO:0016874)|SUMO polymer binding (GO:0032184)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(9)|lung(11)|ovary(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	35				all cancers(107;0.194)		CTGCTGCCCTGTTTCTTCCTC	0.512																																					NSCLC(72;983 1365 10746 34387 47081)											0													95	84	88					15																	59368246		2192	4291	6483	SO:0001583	missense	54778			AL157474	CCDS10169.1, CCDS58365.1, CCDS58366.1	15q21	2013-01-09			ENSG00000157450	ENSG00000157450		"RING-type (C3HC4) zinc fingers"	17384	protein-coding gene	gene with protein product		605840				11298452	Standard	NM_017610		Approved	ARK, Arkadia, FLJ38008, DKFZP761D081	uc002aft.4	Q6ZNA4	OTTHUMG00000132716	ENST00000557998.1:c.1780G>T	15.37:g.59368246G>T	ENSP00000452732:p.Val594Phe	Somatic		WXS	Illumina HiSeq	Phase_I	C9JUS4|H0YN55|Q6P9A4|Q6ZMU2|Q7L428|Q7Z346|Q8N1P9|Q8WUA3|Q9NSR1	Missense_Mutation	SNP	ENST00000557998.1	37	CCDS58366.1	.	.	.	.	.	.	.	.	.	.	G	20.9	4.059653	0.76074	.	.	ENSG00000157450	ENST00000348370;ENST00000434298	T;T	0.15372	2.43;2.43	5.51	5.51	0.81932	.	0.233772	0.42172	D	0.000741	T	0.13970	0.0338	N	0.14661	0.345	0.48087	D	0.999583	B;B;B	0.27264	0.173;0.087;0.141	B;B;B	0.31686	0.134;0.046;0.1	T	0.15578	-1.0432	10	0.25751	T	0.34	-6.3302	19.7838	0.96428	0.0:0.0:1.0:0.0	.	594;594;594	Q6ZNA4-3;Q6ZNA4;Q6ZNA4-2	.;RN111_HUMAN;.	F	594	ENSP00000288199:V594F;ENSP00000393641:V594F	ENSP00000288199:V594F	V	+	1	0	RNF111	57155538	1.000000	0.71417	0.999000	0.59377	0.996000	0.88848	9.146000	0.94640	2.755000	0.94549	0.650000	0.86243	GTT		0.512	RNF111-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000416012.1	NM_017610		T	59368246	G	T	59368246	3	4	642	1	0	0	0	0	1	0	0	0	13438	1377	48	4	1802	4	RNF111	15	59368246	Missense_Mutation	SNP	G	TCGA-KL-8343-01A-11D-2310-10	18055092	59368246	43163146	68	39761										
TMC5	79838	bcgsc.ca	37	chr16	19509242	19509242	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ctttcctgtgtcaaacctagActtgcgatctagaagatcag	8	10	3	3			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr16:19509242A>G	ENST00000396229.2	+	22	3724	c.2975A>G	c.(2974-2976)gAc>gGc	p.D992G	TMC5_ENST00000219821.5_Splice_Site_p.D746G|TMC5_ENST00000561503.1_Splice_Site_p.D633G|RNU4-46P_ENST00000410818.1_RNA|TMC5_ENST00000564959.1_Splice_Site_p.D675G|TMC5_ENST00000542583.2_Splice_Site_p.D992G|TMC5_ENST00000381414.4_Splice_Site_p.D934G|TMC5_ENST00000541464.1_Splice_Site_p.D940G	NM_001105248.1	NP_001098718.1	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5	992					ion transport (GO:0006811)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(3)|liver(2)|lung(12)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	31						TCAAACCTAGACTTGCGATCT	0.458																																																0													302	266	278					16																	19509242		2197	4300	6497	SO:0001630	splice_region_variant	79838			AY263164	CCDS10577.1, CCDS42126.1, CCDS45431.1	16p13.11	2008-02-05			ENSG00000103534	ENSG00000103534			22999	protein-coding gene	gene with protein product						12812529, 12906855	Standard	NM_024780		Approved	FLJ13593	uc010var.2	Q6UXY8	OTTHUMG00000131458	ENST00000396229.2:c.2975-1A>G	16.37:g.19509242A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q68DK8|Q8IY20|Q8NHV6|Q9H8I7	Missense_Mutation	SNP	ENST00000396229.2	37	CCDS45431.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	12.27|12.27	1.888056|1.888056	0.33348|0.33348	.|.	.|.	ENSG00000103534|ENSG00000103534	ENST00000541464;ENST00000381414;ENST00000396229;ENST00000542583;ENST00000219821|ENST00000440743	T;T;T;T;T|.	0.69561|.	-0.2;-0.34;-0.31;-0.31;-0.41|.	4.44|4.44	3.35|3.35	0.38373|0.38373	.|.	911.436000|.	0.00913|.	N|.	0.002494|.	T|T	0.48003|0.48003	0.1476|0.1476	L|L	0.44542|0.44542	1.39|1.39	0.34702|0.34702	D|D	0.72684|0.72684	D;D;D;D|.	0.89917|.	1.0;0.998;1.0;1.0|.	D;D;D;D|.	0.87578|.	0.998;0.937;0.996;0.998|.	T|T	0.55573|0.55573	-0.8120|-0.8120	9|5	.|.	.|.	.|.	.|.	6.9366|6.9366	0.24470|0.24470	0.8973:0.0:0.1027:0.0|0.8973:0.0:0.1027:0.0	.|.	940;746;992;934|.	F5GYU8;Q6UXY8-3;Q6UXY8;Q6UXY8-2|.	.;.;TMC5_HUMAN;.|.	G|A	940;934;992;992;746|675	ENSP00000441227:D940G;ENSP00000370822:D934G;ENSP00000379531:D992G;ENSP00000446274:D992G;ENSP00000219821:D746G|.	.|.	D|T	+|+	2|1	0|0	TMC5|TMC5	19416743|19416743	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.032000|0.032000	0.12392|0.12392	3.612000|3.612000	0.54142|0.54142	1.022000|1.022000	0.39626|0.39626	-0.290000|-0.290000	0.09829|0.09829	GAC|ACT		0.458	TMC5-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000435888.1	NM_024780	Missense_Mutation	G	19509242	A	G	19509242	5	3	642	1	0	0	0	0	0	0	1	0	16000	289	10	3	3367	3	TMC5	16	19509242	Splice_Site	SNP	A	TCGA-KL-8343-01A-11D-2310-10		19509242	70845511	69	39762										
RLTPR	146206	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	67679167	67679167	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	cccatggcccagacccccgaCggcatctcctgtgagctccg	10	19	1	2			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr16:67679167C>G	ENST00000334583.6	+	1	346	c.18C>G	c.(16-18)gaC>gaG	p.D6E	RLTPR_ENST00000545661.1_Missense_Mutation_p.D6E	NM_001013838.1	NP_001013860.1	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin domain and proline-rich containing	6					cell migration (GO:0016477)|establishment of protein localization (GO:0045184)|homeostasis of number of cells (GO:0048872)|maintenance of cell polarity (GO:0030011)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interferon-gamma secretion (GO:1902715)|positive regulation of interleukin-2 secretion (GO:1900042)|positive regulation of regulatory T cell differentiation (GO:0045591)|positive regulation of T cell proliferation (GO:0042102)|T cell receptor signaling pathway (GO:0050852)|thymus development (GO:0048538)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|F-actin capping protein complex (GO:0008290)|immunological synapse (GO:0001772)|membrane (GO:0016020)				breast(1)|cervix(1)|endometrium(4)|kidney(1)|lung(9)|urinary_tract(2)	18		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		AGACCCCCGACGGCATCTCCT	0.701																																																0													14	17	16					16																	67679167		1879	4091	5970	SO:0001583	missense	146206			AB113647	CCDS45513.1	16q22.1	2010-09-10				ENSG00000159753			27089	protein-coding gene	gene with protein product	"RGD, leucine-rich repeat, tropomodulin and proline-rich containing protein", "leucine rich repeat containing 16C"	610859				15588584, 19846667	Standard	XM_005255807		Approved	LRRC16C, CARMIL2	uc002etn.3	Q6F5E8		ENST00000334583.6:c.18C>G	16.37:g.67679167C>G	ENSP00000334958:p.Asp6Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B8X2Z3	Missense_Mutation	SNP	ENST00000334583.6	37	CCDS45513.1	.	.	.	.	.	.	.	.	.	.	c	10.99	1.506105	0.26949	.	.	ENSG00000159753	ENST00000334583;ENST00000545661	T;T	0.13538	2.6;2.58	4.19	0.764	0.18465	.	0.609572	0.14846	N	0.294975	T	0.04679	0.0127	N	0.08118	0	0.21950	N	0.999451	B;B	0.30763	0.294;0.149	B;B	0.24155	0.051;0.016	T	0.31916	-0.9926	10	0.35671	T	0.21	-11.9051	1.3041	0.02085	0.1712:0.4571:0.1671:0.2046	.	6;6	B8X2Z3;Q6F5E8	.;LR16C_HUMAN	E	6	ENSP00000334958:D6E;ENSP00000441481:D6E	ENSP00000334958:D6E	D	+	3	2	RLTPR	66236668	0.156000	0.22821	0.998000	0.56505	0.966000	0.64601	-0.327000	0.07955	0.467000	0.27218	0.651000	0.88453	GAC		0.701	RLTPR-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000467858.1	NM_001013838		G	67679167	C	G	67679167	3	3	642	1	0	0	0	0	1	0	0	0	13407	535	19	4	20	4	RLTPR	16	67679167	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10	48169925	67679167	22675586	70	39763										
ALOX12B	242	broad.mit.edu	37	chr17	7980375	7980375	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	agaaggcctcagcaatgaggTgtgtctccagcaggtgggcg	16	9	2	2			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr17:7980375T>C	ENST00000319144.4	-	9	1468	c.1208A>G	c.(1207-1209)cAc>cGc	p.H403R	ALOX12B_ENST00000577351.1_5'UTR|AC129492.6_ENST00000399413.3_5'Flank	NM_001139.2	NP_001130.1	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type	403	Lipoxygenase. {ECO:0000255|PROSITE- ProRule:PRU00726}.				arachidonic acid metabolic process (GO:0019369)|ceramide biosynthetic process (GO:0046513)|establishment of skin barrier (GO:0061436)|hepoxilin biosynthetic process (GO:0051122)|linoleic acid metabolic process (GO:0043651)|lipoxygenase pathway (GO:0019372)|oxidation-reduction process (GO:0055114)|positive regulation of gene expression (GO:0010628)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of mucus secretion (GO:0070257)|protein lipidation (GO:0006497)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	cytosol (GO:0005829)	arachidonate 12-lipoxygenase activity (GO:0004052)|iron ion binding (GO:0005506)|linoleate 9S-lipoxygenase activity (GO:1990136)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen (GO:0016702)			endometrium(5)|kidney(1)|large_intestine(3)|lung(5)|prostate(1)|stomach(1)	16						AGCAATGAGGTGTGTCTCCAG	0.622										Multiple Myeloma(8;0.094)																																						0													57	48	51					17																	7980375		2203	4300	6503	SO:0001583	missense	242			AF038461	CCDS11129.1	17p13.1	2008-03-18			ENSG00000179477	ENSG00000179477	1.13.11.-	"Arachidonate lipoxygenases"	430	protein-coding gene	gene with protein product		603741				9618483	Standard	NM_001139		Approved	12R-LOX	uc002gjy.1	O75342	OTTHUMG00000108180	ENST00000319144.4:c.1208A>G	17.37:g.7980375T>C	ENSP00000315167:p.His403Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000319144.4	37	CCDS11129.1	.	.	.	.	.	.	.	.	.	.	T	16.19	3.052970	0.55218	.	.	ENSG00000179477	ENST00000319144	D	0.96136	-3.92	4.82	4.82	0.62117	Lipoxygenase, C-terminal (4);	0.000000	0.85682	D	0.000000	D	0.98002	0.9342	M	0.91459	3.21	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.98994	1.0809	10	0.87932	D	0	-37.0536	13.6567	0.62341	0.0:0.0:0.0:1.0	.	403	O75342	LX12B_HUMAN	R	403	ENSP00000315167:H403R	ENSP00000315167:H403R	H	-	2	0	ALOX12B	7921100	1.000000	0.71417	1.000000	0.80357	0.144000	0.21451	7.886000	0.87288	1.937000	0.56155	0.260000	0.18958	CAC		0.622	ALOX12B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000226984.3			C	7980375	T	C	7980375	3	2	642	1	0	0	0	0	1	0	0	0	537	1696	59	3	925	3	ALOX12B	17	7980375	Missense_Mutation	SNP	T	TCGA-KL-8343-01A-11D-2310-10		7980375	73214835	71	39764										
SPDYE4	388333	ucsc.edu	37	chr17	8661681	8661681	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tctcctcctcaaacggggggCgcgcttgaccactggccata	11	15	2	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr17:8661681C>T	ENST00000328794.6	-	1	196	c.20G>A	c.(19-21)cGc>cAc	p.R7H		NM_001128076.1	NP_001121548.1	A6NLX3	SPDE4_HUMAN	speedy/RINGO cell cycle regulator family member E4	7										breast(1)|endometrium(2)|kidney(1)	4						AAACGGGGGGCGCGCTTGACC	0.562																																																0													22	25	24					17																	8661681		692	1591	2283	SO:0001583	missense	388333			BC146949	CCDS45609.1	17p13.1	2013-05-08	2013-05-08			ENSG00000183318		"Speedy homologs"	35463	protein-coding gene	gene with protein product			"speedy homolog E4 (Xenopus laevis)"				Standard	NM_001128076		Approved		uc010cnz.1	A6NLX3		ENST00000328794.6:c.20G>A	17.37:g.8661681C>T	ENSP00000329522:p.Arg7His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RUZ6	Missense_Mutation	SNP	ENST00000328794.6	37	CCDS45609.1	.	.	.	.	.	.	.	.	.	.	C	0.952	-0.706226	0.03255	.	.	ENSG00000183318	ENST00000328794	.	.	.	2.38	-4.77	0.03219	.	7.820830	0.00424	N	0.000061	T	0.07007	0.0178	N	0.00347	-1.61	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.23297	-1.0192	9	0.21540	T	0.41	.	1.1614	0.01806	0.2396:0.3748:0.1786:0.207	.	7	A6NLX3	SPDE4_HUMAN	H	7	.	ENSP00000329522:R7H	R	-	2	0	SPDYE4	8602406	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.285000	0.02791	-3.424000	0.00166	-1.501000	0.00957	CGC		0.562	SPDYE4-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000442494.1	NM_001128076		T	8661681	C	T	8661681	3	4	642	1	0	0	0	0	1	0	0	0	15043	768	27	1	717	1	SPDYE4	17	8661681	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10	681306	8661681	72533529	72	39765										
C17orf53	78995	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	42225428	42225428	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ctgcctccctgcctccagcaCgcccagtgctgacagccgtc	9	20	0	1	rs563980398		TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr17:42225428C>A	ENST00000319977.4	+	3	494	c.257C>A	c.(256-258)aCg>aAg	p.T86K	C17orf53_ENST00000245382.6_Missense_Mutation_p.T86K|C17orf53_ENST00000585683.1_Missense_Mutation_p.T86K	NM_001171251.1|NM_024032.3	NP_001164722.1|NP_076937.2	Q8N3J3	CQ053_HUMAN	chromosome 17 open reading frame 53	86										NS(1)|breast(3)|cervix(1)|kidney(3)|large_intestine(3)|lung(8)|ovary(1)|skin(1)|urinary_tract(1)	22		Breast(137;0.0364)|Prostate(33;0.0376)		BRCA - Breast invasive adenocarcinoma(366;0.114)		GCCTCCAGCACGCCCAGTGCT	0.602																																																0													84	73	76					17																	42225428		2203	4300	6503	SO:0001583	missense	78995			AK021656	CCDS11477.1, CCDS59293.1	17q21.31	2012-10-11			ENSG00000125319	ENSG00000125319			28460	protein-coding gene	gene with protein product							Standard	NM_001171251		Approved	MGC3130	uc002ifi.2	Q8N3J3	OTTHUMG00000181808	ENST00000319977.4:c.257C>A	17.37:g.42225428C>A	ENSP00000313500:p.Thr86Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7A9|Q9BWM9|Q9HAI1	Missense_Mutation	SNP	ENST00000319977.4	37	CCDS11477.1	.	.	.	.	.	.	.	.	.	.	C	1.476	-0.558590	0.03967	.	.	ENSG00000125319	ENST00000319977;ENST00000245382;ENST00000253405	T;T	0.43294	0.95;0.95	4.68	1.11	0.20524	.	1.059490	0.07253	N	0.866199	T	0.22126	0.0533	N	0.08118	0	0.09310	N	1	B;B;B	0.23937	0.006;0.094;0.006	B;B;B	0.22601	0.008;0.04;0.008	T	0.23833	-1.0177	10	0.42905	T	0.14	-0.1606	4.7069	0.12855	0.0:0.1771:0.1617:0.6612	.	86;86;86	A8K7A9;Q8N3J3-3;Q8N3J3	.;.;CQ053_HUMAN	K	86	ENSP00000313500:T86K;ENSP00000245382:T86K	ENSP00000245382:T86K	T	+	2	0	C17orf53	39580954	0.000000	0.05858	0.000000	0.03702	0.014000	0.08584	-0.190000	0.09615	-0.009000	0.14296	-0.340000	0.08031	ACG		0.602	C17orf53-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000457697.1	NM_024032		A	42225428	C	A	42225428	3	1	642	1	0	0	0	0	1	0	0	0	1864	536	19	4	267	4	C17orf53	17	42225428	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10	33563747	42225428	38969782	73	39766										
PLEKHM1	9842	mdanderson.org	37	chr17	43531297	43531297	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	gggttcctcaggctggtctgGgtactgcacgttcacccact	12	13	3	0	rs2684501		TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr17:43531297G>A	ENST00000430334.3	-	7	2054	c.1921C>T	c.(1921-1923)Cca>Tca	p.P641S	PLEKHM1_ENST00000421073.2_Missense_Mutation_p.P552S|AC091132.1_ENST00000433601.1_RNA	NM_014798.2	NP_055613.1	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M (with RUN domain) member 1	641					intracellular signal transduction (GO:0035556)	cytoplasm (GO:0005737)	metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(6)|large_intestine(1)|lung(10)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	26	Renal(3;0.0405)					GGCTGGTCTGGGTACTGCACG	0.682																																																0													34	40	38					17																	43531297		2202	4299	6501	SO:0001583	missense	9842			X85792	CCDS32671.1	17q21.31	2013-01-11				ENSG00000225190		"Pleckstrin homology (PH) domain containing"	29017	protein-coding gene	gene with protein product		611466				9205841, 12820725	Standard	NM_014798		Approved	KIAA0356	uc002ija.3	Q9Y4G2		ENST00000430334.3:c.1921C>T	17.37:g.43531297G>A	ENSP00000389913:p.Pro641Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P2R5|Q8TEL9|Q9NPP5|Q9NYA0	Missense_Mutation	SNP	ENST00000430334.3	37	CCDS32671.1	.	.	.	.	.	.	.	.	.	.	G	7.679	0.688696	0.14973	.	.	ENSG00000225190	ENST00000430334;ENST00000446609;ENST00000421073	T;T	0.64991	-0.13;-0.13	4.8	3.84	0.44239	.	0.460522	0.24649	N	0.036725	T	0.50735	0.1633	L	0.46157	1.445	0.27650	N	0.947413	P;P;P	0.48503	0.831;0.911;0.741	B;B;B	0.39840	0.209;0.311;0.104	T	0.44081	-0.9351	10	0.21014	T	0.42	.	11.4789	0.50314	0.0876:0.0:0.9124:0.0	rs2684501	552;590;641	F8W648;B4DRX1;Q9Y4G2	.;.;PKHM1_HUMAN	S	641;590;552	ENSP00000389913:P641S;ENSP00000414352:P552S	ENSP00000414352:P552S	P	-	1	0	PLEKHM1	40887080	0.611000	0.26992	0.608000	0.28969	0.466000	0.32739	1.220000	0.32491	1.262000	0.44165	0.586000	0.80456	CCA		0.682	PLEKHM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444659.1	NM_014798		A	43531297	G	A	43531297	3	1	642	1	0	0	0	0	1	0	0	0	12087	1232	43	2	1273	2	PLEKHM1	17	43531297	Missense_Mutation	SNP	G	TCGA-KL-8343-01A-11D-2310-10	1305869	43531297	37663913	74	39767										
FOXJ1	2302	mdanderson.org	37	chr17	74133974	74133974	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tgctgggcctcggtattcacCgtcagcggcccggcccgggg	16	15	2	0	rs894542	byFrequency	TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr17:74133974C>T	ENST00000322957.6	-	3	1080	c.726G>A	c.(724-726)acG>acA	p.T242T	RNF157-AS1_ENST00000585542.1_RNA|RNF157-AS1_ENST00000590137.1_RNA	NM_001454.3	NP_001445.2	Q92949	FOXJ1_HUMAN	forkhead box J1	242					actin cytoskeleton organization (GO:0030036)|activation of Rho GTPase activity (GO:0032862)|brain development (GO:0007420)|central tolerance induction (GO:0002508)|cilium assembly (GO:0042384)|epithelium development (GO:0060429)|establishment of apical/basal cell polarity (GO:0035089)|glomerular parietal epithelial cell development (GO:0072016)|humoral immune response (GO:0006959)|left/right pattern formation (GO:0060972)|leukocyte migration (GO:0050900)|lung epithelium development (GO:0060428)|metanephric part of ureteric bud development (GO:0035502)|negative regulation of B cell activation (GO:0050869)|negative regulation of germinal center formation (GO:0002635)|negative regulation of humoral immune response mediated by circulating immunoglobulin (GO:0002924)|negative regulation of interleukin-6 biosynthetic process (GO:0045409)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of T cell differentiation in thymus (GO:0033085)|negative regulation of T cell proliferation (GO:0042130)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|pattern specification process (GO:0007389)|positive regulation of central B cell tolerance induction (GO:0002897)|positive regulation of lung ciliated cell differentiation (GO:1901248)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region sequence-specific DNA binding (GO:0000976)			large_intestine(1)|liver(1)|pancreas(1)|skin(1)	4			LUSC - Lung squamous cell carcinoma(166;0.187)			CGGTATTCACCGTCAGCGGCC	0.716													C|||	385	0.076877	0.0431	0.134	5008	,	,		12954	0.0347		0.1103	False		,,,				2504	0.091															0								C		156,3988		3,150,1919	4	6	5		726	1.5	1	17	dbSNP_86	5	700,7392		28,644,3374	no	coding-synonymous	FOXJ1	NM_001454.3		31,794,5293	TT,TC,CC		8.6505,3.7645,6.9958		242/422	74133974	856,11380	2072	4046	6118	SO:0001819	synonymous_variant	2302			X99349	CCDS32739.1	17q25.1	2008-05-14				ENSG00000129654		"Forkhead boxes"	3816	protein-coding gene	gene with protein product		602291		FKHL13		9073514, 16518568	Standard	NM_001454		Approved	HFH-4, HFH4	uc002jqx.3	Q92949		ENST00000322957.6:c.726G>A	17.37:g.74133974C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O00630	Silent	SNP	ENST00000322957.6	37	CCDS32739.1																																																																																				0.716	FOXJ1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449856.1	NM_001454		T	74133974	C	T	74133974	2	4	642	1	0	0	0	0	0	0	0	1	6018	639	23	1		1	FOXJ1	17	74133974	Silent	SNP	C	TCGA-KL-8343-01A-11D-2310-10	30602677	74133974	7061236	75	39768										
LAMA1	284217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	6978199	6978199	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	aagggcgctgacatactggcCatggtggagtcctgcagaag	15	9	0	2			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr18:6978199C>A	ENST00000389658.3	-	43	6279	c.6186G>T	c.(6184-6186)atG>atT	p.M2062I		NM_005559.3	NP_005550.2	P25391	LAMA1_HUMAN	laminin, alpha 1	2062	Domain II and I.				axon guidance (GO:0007411)|branching involved in salivary gland morphogenesis (GO:0060445)|cell adhesion (GO:0007155)|cell surface receptor signaling pathway (GO:0007166)|epithelial tube branching involved in lung morphogenesis (GO:0060441)|establishment of epithelial cell apical/basal polarity (GO:0045198)|extracellular matrix organization (GO:0030198)|morphogenesis of an epithelial sheet (GO:0002011)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of embryonic development (GO:0045995)|retinal blood vessel morphogenesis (GO:0061304)	basement membrane (GO:0005604)|cell-cell junction (GO:0005911)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|laminin-1 complex (GO:0005606)|laminin-3 complex (GO:0005608)|proteinaceous extracellular matrix (GO:0005578)	extracellular matrix structural constituent (GO:0005201)|glycosphingolipid binding (GO:0043208)			NS(4)|breast(7)|central_nervous_system(3)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(49)|liver(1)|lung(71)|ovary(9)|pancreas(3)|prostate(5)|skin(11)|stomach(7)|upper_aerodigestive_tract(8)|urinary_tract(3)	205		Colorectal(10;0.172)				ACATACTGGCCATGGTGGAGT	0.562																																																0													212	189	197					18																	6978199		2203	4300	6503	SO:0001583	missense	284217			X58531	CCDS32787.1	18p11.3	2013-03-01			ENSG00000101680	ENSG00000101680		"Laminins"	6481	protein-coding gene	gene with protein product		150320		LAMA		2591971	Standard	NM_005559		Approved		uc002knm.3	P25391	OTTHUMG00000133478	ENST00000389658.3:c.6186G>T	18.37:g.6978199C>A	ENSP00000374309:p.Met2062Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000389658.3	37	CCDS32787.1	.	.	.	.	.	.	.	.	.	.	C	9.178	1.022806	0.19433	.	.	ENSG00000101680	ENST00000389658	T	0.44083	0.93	5.65	2.88	0.33553	Laminin II (1);	0.574082	0.19018	N	0.124884	T	0.34308	0.0893	L	0.51422	1.61	0.26194	N	0.979549	B	0.15141	0.012	B	0.15870	0.014	T	0.24297	-1.0164	10	0.44086	T	0.13	.	7.9278	0.29885	0.0:0.6485:0.0:0.3515	.	2062	P25391	LAMA1_HUMAN	I	2062	ENSP00000374309:M2062I	ENSP00000374309:M2062I	M	-	3	0	LAMA1	6968199	0.999000	0.42202	0.380000	0.26093	0.073000	0.16967	1.315000	0.33608	0.860000	0.35481	0.655000	0.94253	ATG		0.562	LAMA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257369.1	NM_005559		A	6978199	C	A	6978199	3	1	642	1	0	0	0	0	1	0	0	0	8612	594	21	4	3125	4	LAMA1	18	6978199	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10		6978199	71099049	76	39769										
SBNO2	22904	ucsc.edu	37	chr19	1132115	1132115	+	Intron	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	cagagcctcaaactgcagccAcagctgcagctgggacatgg	12	13	1	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr19:1132115A>G	ENST00000361757.3	-	5	517				SBNO2_ENST00000587024.1_Intron|SBNO2_ENST00000438103.2_Missense_Mutation_p.W28R	NM_014963.2	NP_055778.2	Q9Y2G9	SBNO2_HUMAN	strawberry notch homolog 2 (Drosophila)						bone mineralization (GO:0030282)|bone trabecula morphogenesis (GO:0061430)|macrophage activation involved in immune response (GO:0002281)|negative regulation of transcription, DNA-templated (GO:0045892)|osteoclast fusion (GO:0072675)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of inflammatory response (GO:0050727)|transcription, DNA-templated (GO:0006351)					NS(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(2)|lung(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	14		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|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)		AACTGCAGCCACAGCTGCAGC	0.716																																																0													7	8	8					19																	1132115		1763	4004	5767	SO:0001627	intron_variant	22904			AK074102	CCDS45894.1, CCDS45895.1	19p13.3	2008-02-05	2006-10-06	2006-10-06		ENSG00000064932			29158	protein-coding gene	gene with protein product		615729	"KIAA0963"	KIAA0963		10231032	Standard	NM_014963		Approved	FLJ00173, Stno, Sno	uc002lrk.4	Q9Y2G9		ENST00000361757.3:c.280-4351T>C	19.37:g.1132115A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K8P2|B3KWJ1|O75257|Q3KQX0|Q8TEM0	Missense_Mutation	SNP	ENST00000361757.3	37	CCDS45894.1	.	.	.	.	.	.	.	.	.	.	A	17.97	3.518610	0.64634	.	.	ENSG00000064932	ENST00000438103;ENST00000250872	.	.	.	4.09	2.98	0.34508	.	.	.	.	.	T	0.32010	0.0815	L	0.44542	1.39	0.22127	N	0.999344	B;B	0.32573	0.107;0.376	B;B	0.28709	0.043;0.093	T	0.27536	-1.0071	8	0.87932	D	0	-23.9825	7.103	0.25348	0.7995:0.0:0.0:0.2005	.	28;28	B4DL53;Q9Y2G9-3	.;.	R	28;7	.	ENSP00000250872:W7R	W	-	1	0	SBNO2	1083115	1.000000	0.71417	0.957000	0.39632	0.843000	0.47879	3.547000	0.53663	1.510000	0.48803	0.459000	0.35465	TGG		0.716	SBNO2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000458065.2	NM_014963		G	1132115	A	G	1132115	1	3	642	0	1	0	0	0	0	0	0	0	13876	159	6	3		3	SBNO2	19	1132115	Intron	SNP	A	TCGA-KL-8343-01A-11D-2310-10		1132115	57996868	77	39770										
SHD	56961	broad.mit.edu	37	chr19	4280193	4280193	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	agaacctggacttcgaggacCcctatgaggacgcggagagc	14	11	0	3			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr19:4280193C>A	ENST00000543264.2	+	1	1596	c.133C>A	c.(133-135)Ccc>Acc	p.P45T	SHD_ENST00000599689.1_Missense_Mutation_p.P45T	NM_020209.3	NP_064594.3	Q96IW2	SHD_HUMAN	Src homology 2 domain containing transforming protein D	45										breast(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(5)|stomach(1)	14				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0337)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTCGAGGACCCCTATGAGGA	0.687																																																0													24	29	27					19																	4280193		2203	4299	6502	SO:0001583	missense	56961			BC007206	CCDS12125.1	19p13.3	2013-02-14				ENSG00000105251		"SH2 domain containing"	30633	protein-coding gene	gene with protein product		610481				9315092	Standard	NM_020209		Approved		uc002lzw.2	Q96IW2		ENST00000543264.2:c.133C>A	19.37:g.4280193C>A	ENSP00000446058:p.Pro45Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q96NC2	Missense_Mutation	SNP	ENST00000543264.2	37	CCDS12125.1	.	.	.	.	.	.	.	.	.	.	C	24.0	4.478308	0.84747	.	.	ENSG00000105251	ENST00000543264	T	0.64260	-0.09	4.6	4.6	0.57074	.	0.000000	0.85682	D	0.000000	T	0.78233	0.4251	M	0.75615	2.305	0.49483	D	0.999799	D	0.89917	1.0	D	0.79108	0.992	T	0.81549	-0.0882	10	0.87932	D	0	-0.5326	15.2492	0.73529	0.0:1.0:0.0:0.0	.	45	Q96IW2	SHD_HUMAN	T	45	ENSP00000446058:P45T	ENSP00000446058:P45T	P	+	1	0	SHD	4231193	1.000000	0.71417	1.000000	0.80357	0.504000	0.33889	6.467000	0.73547	2.267000	0.75376	0.484000	0.47621	CCC		0.687	SHD-001	KNOWN	upstream_uORF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458082.1	NM_020209		A	4280193	C	A	4280193	3	1	642	1	0	0	0	0	1	0	0	0	14288	623	22	4	135	4	SHD	19	4280193	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10	3148078	4280193	54848790	78	39771										
ANKLE1	126549	mdanderson.org	37	chr19	17393530	17393530	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ctgccgccgcggcctggagcTgctgctgagccaaggagcgg	17	14	0	1	rs8108174	byFrequency	TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr19:17393530T>A	ENST00000394458.3	+	3	557	c.281T>A	c.(280-282)cTg>cAg	p.L94Q	ANKLE1_ENST00000594072.1_Missense_Mutation_p.L83Q|CTD-2278I10.6_ENST00000596542.1_3'UTR|ANKLE1_ENST00000404085.1_Missense_Mutation_p.L116Q|ANKLE1_ENST00000433424.2_Missense_Mutation_p.L148Q|ANKLE1_ENST00000598347.1_Missense_Mutation_p.L94Q	NM_152363.4	NP_689576	Q8NAG6	ANKL1_HUMAN	ankyrin repeat and LEM domain containing 1	94			L -> Q (in dbSNP:rs8108174). {ECO:0000269|Ref.1}.							large_intestine(1)|lung(3)|prostate(1)|skin(1)|urinary_tract(1)	7						GGCCTGGAGCTGCTGCTGAGC	0.706											OREG0025341	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	T|||	2307	0.460663	0.5053	0.3905	5008	,	,		14289	0.3115		0.5726	False		,,,				2504	0.4888															0								T	GLN/LEU	2060,1610		662,736,437	2	3	3		281	4.3	1	19	dbSNP_116	3	4143,3109		1303,1537,786	no	missense	ANKLE1	NM_152363.4	113	1965,2273,1223	AA,AT,TT		42.8709,43.8692,43.2064	probably-damaging	94/616	17393530	6203,4719	1835	3626	5461	SO:0001583	missense	126549			AK096688	CCDS12354.2, CCDS12354.3	19p13.11	2013-01-10	2008-03-25	2008-03-25	ENSG00000160117	ENSG00000160117		"Ankyrin repeat domain containing"	26812	protein-coding gene	gene with protein product	"LEM domain containing 6"		"ankyrin repeat domain 41"	ANKRD41			Standard	NM_152363		Approved	FLJ39369, LEMD6	uc002nga.2	Q8NAG6	OTTHUMG00000150839	ENST00000394458.3:c.281T>A	19.37:g.17393530T>A	ENSP00000377971:p.Leu94Gln	Somatic	717	WXS	Illumina HiSeq	Phase_I	A8VU82|Q8N8J8	Missense_Mutation	SNP	ENST00000394458.3	37	CCDS12354.2	1011	0.46291208791208793	245	0.49796747967479676	160	0.4419889502762431	164	0.2867132867132867	442	0.58311345646438	T	17.43	3.387803	0.61956	0.561308	0.571291	ENSG00000160117	ENST00000404261;ENST00000433424;ENST00000404085;ENST00000394458;ENST00000438921	T;T;T	0.69926	-0.44;-0.44;-0.44	4.27	4.27	0.50696	Ankyrin repeat-containing domain (4);	0.097299	0.42964	D	0.000624	T	0.00012	0.0000	M	0.64080	1.96	0.23515	P	0.99751696	P;D;D	0.89917	0.793;1.0;1.0	B;D;D	0.91635	0.426;0.999;0.999	T	0.51702	-0.8672	9	0.56958	D	0.05	-2.4128	11.4078	0.49908	0.0:0.0:0.0:1.0	rs8108174	94;80;94	E7ETZ9;Q8NAG6-1;Q8NAG6	.;.;ANKL1_HUMAN	Q	94;148;116;83;94	ENSP00000384753:L94Q;ENSP00000394460:L148Q;ENSP00000384008:L116Q	ENSP00000377971:L83Q	L	+	2	0	ANKLE1	17254530	1.000000	0.71417	0.997000	0.53966	0.070000	0.16714	4.664000	0.61540	1.800000	0.52685	0.459000	0.35465	CTG		0.706	ANKLE1-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000325392.2	NM_152363		A	17393530	T	A	17393530	3	1	642	1	0	0	0	0	1	0	0	0	632	1580	55	5	291	5	ANKLE1	19	17393530	Missense_Mutation	SNP	T	TCGA-KL-8343-01A-11D-2310-10	13113337	17393530	41735453	79	39772										
CAPN12	147968	broad.mit.edu	37	chr19	39226063	39226063	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ccccagctccaggggcaggtAggggccctgccgcatggcgg	17	15	0	0			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr19:39226063A>G	ENST00000328867.4	-	14	1941	c.1633T>C	c.(1633-1635)Tac>Cac	p.Y545H	CAPN12_ENST00000601953.1_Missense_Mutation_p.Y396H|CTD-2540F13.2_ENST00000602255.1_RNA	NM_144691.3	NP_653292.2	Q6ZSI9	CAN12_HUMAN	calpain 12	545	Domain IV.				proteolysis (GO:0006508)	cytoplasm (GO:0005737)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)			central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(6)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	20	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			AGGGGCAGGTAGGGGCCCTGC	0.677																																																0													41	40	40					19																	39226063		2185	4297	6482	SO:0001583	missense	147968			BC014027	CCDS12519.1	19q13.2	2014-08-12			ENSG00000182472	ENSG00000182472		"EF-hand domain containing"	13249	protein-coding gene	gene with protein product		608839					Standard	NM_144691		Approved		uc002ojd.1	Q6ZSI9	OTTHUMG00000182525	ENST00000328867.4:c.1633T>C	19.37:g.39226063A>G	ENSP00000331636:p.Tyr545His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000328867.4	37	CCDS12519.1	.	.	.	.	.	.	.	.	.	.	A	10.25	1.298308	0.23650	.	.	ENSG00000182472	ENST00000328867	D	0.86769	-2.17	4.0	2.97	0.34412	.	3.783630	0.00993	N	0.003551	D	0.83110	0.5183	L	0.40543	1.245	0.23984	N	0.99626	B	0.02656	0.0	B	0.01281	0.0	T	0.64253	-0.6451	10	0.41790	T	0.15	.	6.4766	0.22039	0.784:0.0:0.0:0.216	.	545	Q6ZSI9	CAN12_HUMAN	H	545	ENSP00000331636:Y545H	ENSP00000331636:Y545H	Y	-	1	0	CAPN12	43917903	0.160000	0.22878	0.595000	0.28798	0.013000	0.08279	0.553000	0.23391	0.562000	0.29204	0.397000	0.26171	TAC		0.677	CAPN12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462151.1			G	39226063	A	G	39226063	3	3	642	1	0	0	0	0	1	0	0	0	2627	420	15	3	558	3	CAPN12	19	39226063	Missense_Mutation	SNP	A	TCGA-KL-8343-01A-11D-2310-10	21832533	39226063	19902920	80	39773										
ZNF133	7692	bcgsc.ca	37	chr20	18295937	18295951	+	In_Frame_Del	DEL	GGGAGAAGGTGCCAT	GGGAGAAGGTGCCAT	-													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	atcaagcagaaggtcctgagGgagaaggtgccatgcctttg					rs139158783		TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	GGGAGAAGGTGCCAT	GGGAGAAGGTGCCAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr20:18295937_18295951delGGGAGAAGGTGCCAT	ENST00000316358.4	+	4	539_553	c.442_456delGGGAGAAGGTGCCAT	c.(442-456)gggagaaggtgccatdel	p.GRRCH148del	ZNF133_ENST00000535822.1_In_Frame_Del_p.GRRCH53del|ZNF133_ENST00000396026.3_In_Frame_Del_p.GRRCH151del|ZNF133_ENST00000462170.1_3'UTR|ZNF133_ENST00000377671.3_In_Frame_Del_p.GRRCH147del|ZNF133_ENST00000538547.1_In_Frame_Del_p.GRRCH53del|ZNF133_ENST00000401790.1_In_Frame_Del_p.GRRCH148del|ZNF133_ENST00000402618.2_In_Frame_Del_p.GRRCH85del|RP4-568F9.3_ENST00000436848.1_RNA	NM_001282998.1|NM_001282999.1|NM_001283000.1|NM_001283001.1|NM_001283008.1	NP_001269927.1|NP_001269928.1|NP_001269929.1|NP_001269930.1|NP_001269937.1	P52736	ZN133_HUMAN	zinc finger protein 133	148					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			autonomic_ganglia(1)|breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(8)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	26						AGGTCCTGAGGGAGAAGGTGCCATGCCTTTGTTTG	0.6																																																0																																										SO:0001651	inframe_deletion	7692			AK123005	CCDS13134.1, CCDS63234.1, CCDS63235.1, CCDS74703.1, CCDS74704.1	20p11.23	2013-01-08	2006-06-13		ENSG00000125846	ENSG00000125846		"Zinc fingers, C2H2-type", "-"	12917	protein-coding gene	gene with protein product		604075	"zinc finger protein 150 (pHZ-66)", "zinc finger protein 133 (clone pHZ-13)"	ZNF150		7557990, 7649249	Standard	XM_005260819		Approved	pHZ-13, pHZ-66	uc010gcs.3	P52736	OTTHUMG00000031965	ENST00000316358.4:c.442_456delGGGAGAAGGTGCCAT	20.37:g.18295937_18295951delGGGAGAAGGTGCCAT	ENSP00000346090:p.Gly148_His152del	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5S4|B4DHU7|B4DIB8|B7ZAS1|F5H289|J3KQ11|J3KQJ0|Q53XU1|Q5JXV8|Q9BUV2|Q9H443	In_Frame_Del	DEL	ENST00000316358.4	37																																																																																					0.6	ZNF133-002	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000127616.1	NM_003434		-	18295951	GGGAGAAGGTGCCAT	-	18295937	7	5	642	1	0	1	0	1	0	0	0	0	17735	1233	43	0	449	0	ZNF133	20	18295937	In_Frame_Del	DEL	GGGAGAAGGTGCCAT	TCGA-KL-8343-01A-11D-2310-10		18295937	44729583	81	39774										
SEZ6L	23544	broad.mit.edu;mdanderson.org	37	chr22	26736527	26736527	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ctcctccacgccagacttaaCcatccagttccattcggacc	5	18	0	1			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chr22:26736527C>A	ENST00000248933.6	+	10	2236	c.2141C>A	c.(2140-2142)aCc>aAc	p.T714N	SEZ6L_ENST00000402979.1_Missense_Mutation_p.T487N|SEZ6L_ENST00000360929.3_Missense_Mutation_p.T714N|SEZ6L_ENST00000403121.1_Missense_Mutation_p.T487N|SEZ6L_ENST00000529632.2_Missense_Mutation_p.T714N|SEZ6L_ENST00000404234.3_Missense_Mutation_p.T714N|SEZ6L_ENST00000343706.4_Missense_Mutation_p.T714N			Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	714	CUB 3. {ECO:0000255|PROSITE- ProRule:PRU00059}.				adult locomotory behavior (GO:0008344)|cerebellar Purkinje cell layer development (GO:0021680)|regulation of protein kinase C signaling (GO:0090036)|synapse maturation (GO:0060074)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)				breast(1)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(18)|lung(35)|ovary(4)|pancreas(1)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	80						CCAGACTTAACCATCCAGTTC	0.507																																																0													97	85	89					22																	26736527		2203	4300	6503	SO:0001583	missense	23544			AL050253	CCDS13833.1, CCDS54508.1, CCDS54510.1, CCDS54511.1, CCDS74837.1	22q12.1	2008-05-14	2001-11-28		ENSG00000100095	ENSG00000100095			10763	protein-coding gene	gene with protein product		607021	"seizure related gene 6 (mouse)-like"				Standard	NM_021115		Approved		uc003acb.3	Q9BYH1	OTTHUMG00000150870	ENST00000248933.6:c.2141C>A	22.37:g.26736527C>A	ENSP00000248933:p.Thr714Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A0AUW7|B0QYG4|B0QYG5|B7ZLJ6|G8JLP3|O95917|Q5THY5|Q6IBZ4|Q6UXD4|Q9NUI3|Q9NUI4|Q9NUI5|Q9Y2E1|Q9Y3J6	Missense_Mutation	SNP	ENST00000248933.6	37	CCDS13833.1	.	.	.	.	.	.	.	.	.	.	C	17.97	3.518095	0.64634	.	.	ENSG00000100095	ENST00000404234;ENST00000529632;ENST00000360929;ENST00000248933;ENST00000343706;ENST00000403121;ENST00000402979	T;T;T;T;T;T;T	0.32023	1.47;1.47;1.47;1.47;1.47;1.47;1.47	5.14	5.14	0.70334	CUB (5);	0.112900	0.39083	N	0.001478	T	0.47857	0.1468	M	0.91717	3.235	0.80722	D	1	B;B;B;B;B;B;B	0.29188	0.033;0.236;0.033;0.198;0.178;0.236;0.236	B;B;B;B;B;B;B	0.31686	0.03;0.133;0.033;0.081;0.134;0.133;0.133	T	0.56366	-0.7991	10	0.56958	D	0.05	.	17.7636	0.88470	0.0:1.0:0.0:0.0	.	714;714;487;714;714;714;714	B7ZLJ8;B7ZLJ6;B0QYH4;Q9BYH1-5;Q9BYH1-4;B0QYG3;Q9BYH1	.;.;.;.;.;.;SE6L1_HUMAN	N	714;714;714;714;714;487;487	ENSP00000384772:T714N;ENSP00000437037:T714N;ENSP00000354185:T714N;ENSP00000248933:T714N;ENSP00000342661:T714N;ENSP00000384838:T487N;ENSP00000384733:T487N	ENSP00000248933:T714N	T	+	2	0	SEZ6L	25066527	1.000000	0.71417	0.998000	0.56505	0.922000	0.55478	7.149000	0.77396	2.668000	0.90789	0.462000	0.41574	ACC		0.507	SEZ6L-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000320359.3			A	26736527	C	A	26736527	3	1	642	1	0	0	0	0	1	0	0	0	14156	507	18	4	2179	4	SEZ6L	22	26736527	Missense_Mutation	SNP	C	TCGA-KL-8343-01A-11D-2310-10		26736527	24568039	82	39775										
MAGEB2	4113	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	30237265	30237265	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	aggtagacctcactgatgagGaatccctgctcagttcctgg	11	11	2	3			TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chrX:30237265G>A	ENST00000378988.4	+	2	669	c.568G>A	c.(568-570)Gaa>Aaa	p.E190K		NM_002364.4	NP_002355.2	O15479	MAGB2_HUMAN	melanoma antigen family B, 2	190	MAGE. {ECO:0000255|PROSITE- ProRule:PRU00127}.									breast(1)|large_intestine(3)|lung(17)|ovary(1)|skin(1)	23						CACTGATGAGGAATCCCTGCT	0.502																																																0													61	47	52					X																	30237265		2202	4300	6502	SO:0001583	missense	4113			AF015766	CCDS14219.1	Xp21.3	2009-03-17			ENSG00000099399	ENSG00000099399			6809	protein-coding gene	gene with protein product	"DSS/AHC critical interval MAGE superfamily 6", "melanoma-associated antigen B2", "cancer/testis antigen family 3, member 2"	300098				9441743	Standard	NM_002364		Approved	DAM6, MAGE-XP-2, MGC26438, CT3.2	uc004dbz.3	O15479	OTTHUMG00000021319	ENST00000378988.4:c.568G>A	X.37:g.30237265G>A	ENSP00000368273:p.Glu190Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O75860	Missense_Mutation	SNP	ENST00000378988.4	37	CCDS14219.1	.	.	.	.	.	.	.	.	.	.	G	10.58	1.391388	0.25118	.	.	ENSG00000099399	ENST00000378988	T	0.05025	3.51	3.13	2.26	0.28386	.	1.425730	0.05041	N	0.476377	T	0.12135	0.0295	M	0.82193	2.58	0.09310	N	1	B	0.33637	0.42	B	0.32022	0.139	T	0.34601	-0.9822	10	0.66056	D	0.02	.	5.6343	0.17528	0.156:0.0:0.844:0.0	.	190	O15479	MAGB2_HUMAN	K	190	ENSP00000368273:E190K	ENSP00000368273:E190K	E	+	1	0	MAGEB2	30147186	0.011000	0.17503	0.001000	0.08648	0.001000	0.01503	1.681000	0.37618	0.723000	0.32274	0.436000	0.28706	GAA		0.502	MAGEB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056157.1	NM_002364		A	30237265	G	A	30237265	3	1	642	1	0	0	0	0	1	0	0	0	9183	1175	41	2	570	2	MAGEB2	23	30237265	Missense_Mutation	SNP	G	TCGA-KL-8343-01A-11D-2310-10		30237265	125033295	83	39776										
DMD	1756	broad.mit.edu;hgsc.bcm.edu	37	chrX	31198540	31198550	+	Frame_Shift_Del	DEL	GACCAGAAAAA	GACCAGAAAAA	-													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	tttatggccttttgcaactcGaccagaaaaaaagcagcttt					rs398123827		TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	GACCAGAAAAA	GACCAGAAAAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chrX:31198540_31198550delGACCAGAAAAA	ENST00000357033.4	-	69	10229_10239	c.10023_10033delTTTTTCTGGTC	c.(10021-10035)tttttttctggtcgafs	p.FFSGR3341fs	DMD_ENST00000361471.4_Frame_Shift_Del_p.FFSGR273fs|DMD_ENST00000378680.2_Frame_Shift_Del_p.FFSGR273fs|DMD_ENST00000343523.2_Frame_Shift_Del_p.FFSGR881fs|DMD_ENST00000541735.1_Frame_Shift_Del_p.FFSGR881fs|DMD_ENST00000474231.1_Frame_Shift_Del_p.FFSGR881fs|DMD_ENST00000378707.3_Frame_Shift_Del_p.FFSGR881fs|DMD_ENST00000359836.1_Frame_Shift_Del_p.FFSGR881fs|DMD_ENST00000378723.3_Frame_Shift_Del_p.FFSGR273fs|DMD_ENST00000378702.4_Frame_Shift_Del_p.FFSGR273fs|DMD_ENST00000378677.2_Frame_Shift_Del_p.FFSGR3337fs	NM_000109.3|NM_004006.2|NM_004011.3|NM_004012.3|NM_004014.2	NP_000100.2|NP_003997|NP_004002.2|NP_004003.1|NP_004005.1	P11532	DMD_HUMAN	dystrophin	3341	Interaction with SYNM. {ECO:0000250}.				cardiac muscle cell action potential (GO:0086001)|cardiac muscle contraction (GO:0060048)|cellular protein complex assembly (GO:0043623)|cellular protein localization (GO:0034613)|extracellular matrix organization (GO:0030198)|motile cilium assembly (GO:0044458)|muscle filament sliding (GO:0030049)|muscle organ development (GO:0007517)|negative regulation of peptidyl-cysteine S-nitrosylation (GO:1902083)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|peptide biosynthetic process (GO:0043043)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of neuron projection development (GO:0010976)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of cellular response to growth factor stimulus (GO:0090287)|regulation of heart rate (GO:0002027)|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0010880)|regulation of ryanodine-sensitive calcium-release channel activity (GO:0060314)|regulation of skeletal muscle contraction (GO:0014819)|regulation of skeletal muscle contraction by regulation of release of sequestered calcium ion (GO:0014809)|regulation of voltage-gated calcium channel activity (GO:1901385)	cell junction (GO:0030054)|cell surface (GO:0009986)|costamere (GO:0043034)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|dystrophin-associated glycoprotein complex (GO:0016010)|filopodium (GO:0030175)|filopodium membrane (GO:0031527)|membrane raft (GO:0045121)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|protein complex (GO:0043234)|sarcolemma (GO:0042383)|syntrophin complex (GO:0016013)	actin binding (GO:0003779)|calcium ion binding (GO:0005509)|dystroglycan binding (GO:0002162)|myosin binding (GO:0017022)|nitric-oxide synthase binding (GO:0050998)|structural constituent of cytoskeleton (GO:0005200)|structural constituent of muscle (GO:0008307)|vinculin binding (GO:0017166)|zinc ion binding (GO:0008270)			NS(2)|breast(3)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(17)|liver(1)|lung(25)|ovary(3)|pancreas(3)|prostate(2)|skin(1)|urinary_tract(2)	77		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)				TTTGCAACTCGACCAGAAAAAAAGCAGCTTT	0.412																																																0			GRCh37	CI040202|CM001666	DMD	I|M																																				SO:0001589	frameshift_variant	1756			AF047505	CCDS14231.1, CCDS14232.1, CCDS14233.1, CCDS14234.1, CCDS48091.1, CCDS55394.1, CCDS55395.1, CCDS75965.1	Xp21.2	2014-09-17	2008-08-01		ENSG00000198947	ENSG00000198947			2928	protein-coding gene	gene with protein product	"muscular dystrophy, Duchenne and Becker types"	300377	"dystrophin (muscular dystrophy, Duchenne and Becker types), includes DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272", "mental retardation, X-linked 85"	MRX85		3282674, 3607877, 23900271	Standard	NM_004019		Approved	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272	uc004dda.1	P11532	OTTHUMG00000021336	ENST00000357033.4:c.10023_10033delTTTTTCTGGTC	X.37:g.31198540_31198550delGACCAGAAAAA	ENSP00000354923:p.Phe3341fs	Somatic		WXS	Illumina HiSeq	Phase_I	E9PDN1|Q02295|Q14169|Q14170|Q5JYU0|Q6NSJ9|Q7KZ48|Q8N754|Q9UCW3|Q9UCW4	Frame_Shift_Del	DEL	ENST00000357033.4	37	CCDS14233.1																																																																																				0.412	DMD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056182.2	NM_004006		-	31198550	GACCAGAAAAA	-	31198540	7	5	642	1	0	1	0	1	0	0	0	0	4582	1066	37	0	1158	0	DMD	23	31198540	Frame_Shift_Del	DEL	GACCAGAAAAA	TCGA-KL-8343-01A-11D-2310-10	961275	31198540	124072020	84	39777	345	2								
DMD	1756	bcgsc.ca	37	chrX	31198541	31198551	+	Frame_Shift_Del	DEL	GACCAGAAAAA	GACCAGAAAAA	-													0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ttatggccttttgcaactcgAccagaaaaaaagcagctttg							TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	GACCAGAAAAA	GACCAGAAAAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chrX:31198541_31198551delGACCAGAAAAA	ENST00000357033.4	-	69	10228_10238	c.10022_10032delTTTTTCTGGTC	c.(10021-10032)ttttttctggtcfs	p.FFLV3341fs	DMD_ENST00000361471.4_Frame_Shift_Del_p.FFLV273fs|DMD_ENST00000378680.2_Frame_Shift_Del_p.FFLV273fs|DMD_ENST00000343523.2_Frame_Shift_Del_p.FFLV881fs|DMD_ENST00000541735.1_Frame_Shift_Del_p.FFLV881fs|DMD_ENST00000474231.1_Frame_Shift_Del_p.FFLV881fs|DMD_ENST00000378707.3_Frame_Shift_Del_p.FFLV881fs|DMD_ENST00000359836.1_Frame_Shift_Del_p.FFLV881fs|DMD_ENST00000378723.3_Frame_Shift_Del_p.FFLV273fs|DMD_ENST00000378702.4_Frame_Shift_Del_p.FFLV273fs|DMD_ENST00000378677.2_Frame_Shift_Del_p.FFLV3337fs	NM_000109.3|NM_004006.2|NM_004011.3|NM_004012.3|NM_004014.2	NP_000100.2|NP_003997|NP_004002.2|NP_004003.1|NP_004005.1	P11532	DMD_HUMAN	dystrophin	3341	Interaction with SYNM. {ECO:0000250}.				cardiac muscle cell action potential (GO:0086001)|cardiac muscle contraction (GO:0060048)|cellular protein complex assembly (GO:0043623)|cellular protein localization (GO:0034613)|extracellular matrix organization (GO:0030198)|motile cilium assembly (GO:0044458)|muscle filament sliding (GO:0030049)|muscle organ development (GO:0007517)|negative regulation of peptidyl-cysteine S-nitrosylation (GO:1902083)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|peptide biosynthetic process (GO:0043043)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of neuron projection development (GO:0010976)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of cellular response to growth factor stimulus (GO:0090287)|regulation of heart rate (GO:0002027)|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0010880)|regulation of ryanodine-sensitive calcium-release channel activity (GO:0060314)|regulation of skeletal muscle contraction (GO:0014819)|regulation of skeletal muscle contraction by regulation of release of sequestered calcium ion (GO:0014809)|regulation of voltage-gated calcium channel activity (GO:1901385)	cell junction (GO:0030054)|cell surface (GO:0009986)|costamere (GO:0043034)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|dystrophin-associated glycoprotein complex (GO:0016010)|filopodium (GO:0030175)|filopodium membrane (GO:0031527)|membrane raft (GO:0045121)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|protein complex (GO:0043234)|sarcolemma (GO:0042383)|syntrophin complex (GO:0016013)	actin binding (GO:0003779)|calcium ion binding (GO:0005509)|dystroglycan binding (GO:0002162)|myosin binding (GO:0017022)|nitric-oxide synthase binding (GO:0050998)|structural constituent of cytoskeleton (GO:0005200)|structural constituent of muscle (GO:0008307)|vinculin binding (GO:0017166)|zinc ion binding (GO:0008270)			NS(2)|breast(3)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(17)|liver(1)|lung(25)|ovary(3)|pancreas(3)|prostate(2)|skin(1)|urinary_tract(2)	77		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)				TTGCAACTCGACCAGAAAAAAAGCAGCTTTG	0.412																																																0			GRCh37	CI040202	DMD	I																																				SO:0001589	frameshift_variant	1756			AF047505	CCDS14231.1, CCDS14232.1, CCDS14233.1, CCDS14234.1, CCDS48091.1, CCDS55394.1, CCDS55395.1, CCDS75965.1	Xp21.2	2014-09-17	2008-08-01		ENSG00000198947	ENSG00000198947			2928	protein-coding gene	gene with protein product	"muscular dystrophy, Duchenne and Becker types"	300377	"dystrophin (muscular dystrophy, Duchenne and Becker types), includes DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272", "mental retardation, X-linked 85"	MRX85		3282674, 3607877, 23900271	Standard	NM_004019		Approved	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272	uc004dda.1	P11532	OTTHUMG00000021336	ENST00000357033.4:c.10022_10032delTTTTTCTGGTC	X.37:g.31198541_31198551delGACCAGAAAAA	ENSP00000354923:p.Phe3341fs	Somatic		WXS	Illumina HiSeq	Phase_I	E9PDN1|Q02295|Q14169|Q14170|Q5JYU0|Q6NSJ9|Q7KZ48|Q8N754|Q9UCW3|Q9UCW4	Frame_Shift_Del	DEL	ENST00000357033.4	37	CCDS14233.1																																																																																				0.412	DMD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056182.2	NM_004006		-	31198551	GACCAGAAAAA	-	31198541	7	5	642	1	0	1	0	1	0	0	0	0	4582	262	10	0	1159	0	DMD	23	31198541	Frame_Shift_Del	DEL	GACCAGAAAAA	TCGA-KL-8343-01A-11D-2310-10	1	31198541	124072019	85	39778	345	2								
DMD	1756	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	32382805	32382805	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.024390243902439	2	1	0.695343680709534	1.52975609756098	0.449928263988522	1	1	0	ggtccacattctggtcaaaaGtttccatgtgtttctggtat	9	8	3	0	rs146420425		TCGA-KL-8343-01A-11D-2310-10	TCGA-KL-8343-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	34739bd6-b3be-441d-8cdb-e4233bf14080	25275f7f-a079-4c74-bec8-33b107316d1b	g.chrX:32382805G>C	ENST00000357033.4	-	36	5254	c.5048C>G	c.(5047-5049)aCt>aGt	p.T1683S	DMD_ENST00000378677.2_Missense_Mutation_p.T1679S	NM_000109.3|NM_004006.2|NM_004011.3|NM_004012.3|NM_004014.2	NP_000100.2|NP_003997|NP_004002.2|NP_004003.1|NP_004005.1	P11532	DMD_HUMAN	dystrophin	1683	Interaction with SYNM. {ECO:0000250}.				cardiac muscle cell action potential (GO:0086001)|cardiac muscle contraction (GO:0060048)|cellular protein complex assembly (GO:0043623)|cellular protein localization (GO:0034613)|extracellular matrix organization (GO:0030198)|motile cilium assembly (GO:0044458)|muscle filament sliding (GO:0030049)|muscle organ development (GO:0007517)|negative regulation of peptidyl-cysteine S-nitrosylation (GO:1902083)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|peptide biosynthetic process (GO:0043043)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of neuron projection development (GO:0010976)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of cellular response to growth factor stimulus (GO:0090287)|regulation of heart rate (GO:0002027)|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0010880)|regulation of ryanodine-sensitive calcium-release channel activity (GO:0060314)|regulation of skeletal muscle contraction (GO:0014819)|regulation of skeletal muscle contraction by regulation of release of sequestered calcium ion (GO:0014809)|regulation of voltage-gated calcium channel activity (GO:1901385)	cell junction (GO:0030054)|cell surface (GO:0009986)|costamere (GO:0043034)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|dystrophin-associated glycoprotein complex (GO:0016010)|filopodium (GO:0030175)|filopodium membrane (GO:0031527)|membrane raft (GO:0045121)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|protein complex (GO:0043234)|sarcolemma (GO:0042383)|syntrophin complex (GO:0016013)	actin binding (GO:0003779)|calcium ion binding (GO:0005509)|dystroglycan binding (GO:0002162)|myosin binding (GO:0017022)|nitric-oxide synthase binding (GO:0050998)|structural constituent of cytoskeleton (GO:0005200)|structural constituent of muscle (GO:0008307)|vinculin binding (GO:0017166)|zinc ion binding (GO:0008270)			NS(2)|breast(3)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(17)|liver(1)|lung(25)|ovary(3)|pancreas(3)|prostate(2)|skin(1)|urinary_tract(2)	77		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)				CTGGTCAAAAGTTTCCATGTG	0.363																																																0								G	SER/THR,SER/THR,SER/THR,SER/THR,SER/THR,SER/THR,SER/THR	3,3830		0,3,1628,571	202	155	171		5024,5048,4679,5036,4679,1025,1016	2.5	1	X	dbSNP_134	171	0,6728		0,0,2428,1872	no	missense,missense,missense,missense,missense,missense,missense	DMD	NM_000109.3,NM_004006.2,NM_004007.2,NM_004009.3,NM_004010.3,NM_004011.3,NM_004012.3	58,58,58,58,58,58,58	0,3,4056,2443	CC,CG,GG,G		0.0,0.0783,0.0284	benign,benign,benign,benign,benign,benign,benign	1675/3678,1683/3686,1560/3563,1679/3682,1560/3563,342/2345,339/2342	32382805	3,10558	2202	4300	6502	SO:0001583	missense	1756			AF047505	CCDS14231.1, CCDS14232.1, CCDS14233.1, CCDS14234.1, CCDS48091.1, CCDS55394.1, CCDS55395.1, CCDS75965.1	Xp21.2	2014-09-17	2008-08-01		ENSG00000198947	ENSG00000198947			2928	protein-coding gene	gene with protein product	"muscular dystrophy, Duchenne and Becker types"	300377	"dystrophin (muscular dystrophy, Duchenne and Becker types), includes DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272", "mental retardation, X-linked 85"	MRX85		3282674, 3607877, 23900271	Standard	NM_004019		Approved	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272	uc004dda.1	P11532	OTTHUMG00000021336	ENST00000357033.4:c.5048C>G	X.37:g.32382805G>C	ENSP00000354923:p.Thr1683Ser	Somatic		WXS	Illumina HiSeq	Phase_I	E9PDN1|Q02295|Q14169|Q14170|Q5JYU0|Q6NSJ9|Q7KZ48|Q8N754|Q9UCW3|Q9UCW4	Missense_Mutation	SNP	ENST00000357033.4	37	CCDS14233.1	.	.	.	.	.	.	.	.	.	.	G	10.36	1.328845	0.24167	7.83E-4	0.0	ENSG00000198947	ENST00000534884;ENST00000378682;ENST00000378684;ENST00000378677;ENST00000357033;ENST00000542849;ENST00000535280;ENST00000420596;ENST00000448370	T;T	0.49432	0.78;0.78	5.38	2.49	0.30216	.	0.457777	0.15530	N	0.257580	T	0.30386	0.0763	N	0.19112	0.55	0.53005	D	0.999964	B;B;B;B;B	0.02656	0.0;0.0;0.0;0.0;0.0	B;B;B;B;B	0.06405	0.001;0.001;0.002;0.001;0.001	T	0.07028	-1.0794	10	0.09338	T	0.73	.	13.7945	0.63162	0.0:0.0:0.6002:0.3998	.	1675;1683;1679;342;339	P11532-4;P11532;E9PDN5;E7EQS7;E7EQS6	.;DMD_HUMAN;.;.;.	S	1675;342;339;1679;1683;1683;1560;99;39	ENSP00000367948:T1679S;ENSP00000354923:T1683S	ENSP00000354923:T1683S	T	-	2	0	DMD	32292726	0.859000	0.29813	0.991000	0.47740	0.888000	0.51559	0.551000	0.23361	0.135000	0.18707	0.538000	0.68166	ACT		0.363	DMD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056182.2	NM_004006		C	32382805	G	C	32382805	3	2	642	1	0	0	0	0	1	0	0	0	4582	1029	36	4	6333	4	DMD	23	32382805	Missense_Mutation	SNP	G	TCGA-KL-8343-01A-11D-2310-10	1184264	32382805	122887755	86	39779										
PRAMEF4	400735	ucsc.edu;mdanderson.org	37	chr1	12939904	12939904	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	acagttagttattgtgaggaActttaacgaggtcttcagac	10	6	2	2	rs3895133		TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr1:12939904A>C	ENST00000235349.5	-	4	968	c.898T>G	c.(898-900)Ttc>Gtc	p.F300V		NM_001009611.2	NP_001009611.1	O60810	PRAM4_HUMAN	PRAME family member 4	300					negative regulation of apoptotic process (GO:0043066)|negative regulation of cell differentiation (GO:0045596)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)					breast(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(10)|ovary(2)|prostate(3)|skin(1)	24	Ovarian(185;0.249)	Lung NSC(185;3.67e-05)|all_lung(284;4.03e-05)|Renal(390;0.000147)|Breast(348;0.000278)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		ATTGTGAGGAACTTTAACGAG	0.483																																																0													50	69	62					1																	12939904		1404	2644	4048	SO:0001583	missense	400735				CCDS30592.1	1p36.21	2013-01-17			ENSG00000243073	ENSG00000243073		"-"	31971	protein-coding gene	gene with protein product							Standard	NM_001009611		Approved	RP5-845O24.6	uc001aun.2	O60810	OTTHUMG00000001987	ENST00000235349.5:c.898T>G	1.37:g.12939904A>C	ENSP00000235349:p.Phe300Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5LJB5	Missense_Mutation	SNP	ENST00000235349.5	37	CCDS30592.1	.	.	.	.	.	.	.	.	.	.	t	1.416	-0.574302	0.03882	.	.	ENSG00000243073	ENST00000235349	T	0.38887	1.11	1.48	-2.96	0.05547	.	1.221790	0.05721	N	0.597800	T	0.18759	0.0450	N	0.04132	-0.27	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.09207	-1.0685	10	0.37606	T	0.19	.	3.305	0.06997	0.5711:0.149:0.0:0.2799	.	300	O60810	PRAM4_HUMAN	V	300	ENSP00000235349:F300V	ENSP00000235349:F300V	F	-	1	0	PRAMEF4	12862491	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.518000	0.02246	-3.281000	0.00197	-4.216000	0.00009	TTC		0.483	PRAMEF4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005518.1	NM_001009611		C	12939904	A	C	12939904	3	2	643	1	0	0	0	0	1	0	0	0	12447	43	2	5	542	5	PRAMEF4	1	12939904	Missense_Mutation	SNP	A	TCGA-KL-8344-01A-11D-2310-10		12939904	236310717	1	39780										
OPRD1	4985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	29189494	29189494	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	tgtgggcgccttcgtggtgtGttgggcgcccatccacatct	14	12	1	0			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr1:29189494G>A	ENST00000234961.2	+	3	1060	c.818G>A	c.(817-819)tGt>tAt	p.C273Y		NM_000911.3	NP_000902.3	P41143	OPRD_HUMAN	opioid receptor, delta 1	273					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|adult locomotory behavior (GO:0008344)|cellular response to growth factor stimulus (GO:0071363)|cellular response to hypoxia (GO:0071456)|cellular response to toxic substance (GO:0097237)|G-protein coupled receptor signaling pathway (GO:0007186)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|immune response (GO:0006955)|negative regulation of gene expression (GO:0010629)|negative regulation of protein oligomerization (GO:0032460)|neuropeptide signaling pathway (GO:0007218)|opioid receptor signaling pathway (GO:0038003)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|positive regulation of CREB transcription factor activity (GO:0032793)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|protein import into nucleus, translocation (GO:0000060)|regulation of calcium ion transport (GO:0051924)|regulation of mitochondrial membrane potential (GO:0051881)|regulation of sensory perception of pain (GO:0051930)	axon terminus (GO:0043679)|cytoplasm (GO:0005737)|dendrite membrane (GO:0032590)|integral component of plasma membrane (GO:0005887)|intrinsic component of plasma membrane (GO:0031226)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|vesicle (GO:0031982)	enkephalin receptor activity (GO:0038046)|opioid receptor activity (GO:0004985)			breast(1)|central_nervous_system(1)|kidney(3)|large_intestine(1)|lung(2)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	15		Colorectal(325;3.46e-05)|Lung NSC(340;0.000947)|all_lung(284;0.00131)|Renal(390;0.00758)|Breast(348;0.00765)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;1.29e-07)|COAD - Colon adenocarcinoma(152;7.51e-06)|STAD - Stomach adenocarcinoma(196;0.00306)|BRCA - Breast invasive adenocarcinoma(304;0.0241)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)	Alvimopan(DB06274)|Amitriptyline(DB00321)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dextromethorphan(DB00514)|Dextropropoxyphene(DB00647)|Diphenoxylate(DB01081)|Fentanyl(DB00813)|Heroin(DB01452)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Ketamine(DB01221)|Ketobemidone(DB06738)|Levorphanol(DB00854)|Loperamide(DB00836)|Methadone(DB00333)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tapentadol(DB06204)|Tramadol(DB00193)	TTCGTGGTGTGTTGGGCGCCC	0.677																																																0													33	29	30					1																	29189494		2201	4298	6499	SO:0001583	missense	4985			U10504	CCDS329.1	1p36.1-p34.3	2012-08-08			ENSG00000116329	ENSG00000116329		"GPCR / Class A : Opioid receptors"	8153	protein-coding gene	gene with protein product		165195				8415697	Standard	NM_000911		Approved		uc001brf.1	P41143	OTTHUMG00000003646	ENST00000234961.2:c.818G>A	1.37:g.29189494G>A	ENSP00000234961:p.Cys273Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B5B0B8	Missense_Mutation	SNP	ENST00000234961.2	37	CCDS329.1	.	.	.	.	.	.	.	.	.	.	G	19.37	3.814486	0.70912	.	.	ENSG00000116329	ENST00000234961;ENST00000536280	T	0.54279	0.58	4.06	3.15	0.36227	GPCR, rhodopsin-like superfamily (1);	0.170740	0.53938	D	0.000050	T	0.81264	0.4786	H	0.98951	4.38	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.84377	0.0547	10	0.87932	D	0	.	9.3973	0.38410	0.1059:0.0:0.8941:0.0	.	273	P41143	OPRD_HUMAN	Y	273;225	ENSP00000234961:C273Y	ENSP00000234961:C273Y	C	+	2	0	OPRD1	29062081	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	9.646000	0.98474	0.926000	0.37118	0.462000	0.41574	TGT		0.677	OPRD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000010330.1	NM_000911		A	29189494	G	A	29189494	3	1	643	1	0	0	0	0	1	0	0	0	10891	1377	48	2	828	2	OPRD1	1	29189494	Missense_Mutation	SNP	G	TCGA-KL-8344-01A-11D-2310-10	16249590	29189494	220061127	2	39781										
DMAP1	55929	hgsc.bcm.edu	37	chr1	44684410	44684410	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	aacagcttgagcgtctctacAaccggaccccagagcaggta	10	13	1	2			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr1:44684410A>G	ENST00000372289.2	+	5	966	c.703A>G	c.(703-705)Aac>Gac	p.N235D	DMAP1_ENST00000488433.1_3'UTR|DMAP1_ENST00000315913.5_Missense_Mutation_p.N235D|DMAP1_ENST00000361745.6_Missense_Mutation_p.N235D	NM_019100.4	NP_061973.1	Q9NPF5	DMAP1_HUMAN	DNA methyltransferase 1 associated protein 1	235					chromatin organization (GO:0006325)|chromatin remodeling (GO:0006338)|DNA methylation (GO:0006306)|DNA repair (GO:0006281)|histone H2A acetylation (GO:0043968)|histone H4 acetylation (GO:0043967)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription factor import into nucleus (GO:0042993)|regulation of growth (GO:0040008)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|NuA4 histone acetyltransferase complex (GO:0035267)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|replication fork (GO:0005657)	chromatin binding (GO:0003682)|RNA polymerase II repressing transcription factor binding (GO:0001103)|transcription corepressor activity (GO:0003714)			breast(1)|cervix(1)|endometrium(6)|large_intestine(1)|lung(4)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	16	Acute lymphoblastic leukemia(166;0.155)					GCGTCTCTACAACCGGACCCC	0.577											OREG0013437	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													99	94	96					1																	44684410		2203	4300	6503	SO:0001583	missense	55929			AB037846	CCDS509.1	1p34	2009-07-13			ENSG00000178028	ENSG00000178028			18291	protein-coding gene	gene with protein product		605077				10888872, 10718198	Standard	XM_005271039		Approved	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4	uc001clq.1	Q9NPF5	OTTHUMG00000007577	ENST00000372289.2:c.703A>G	1.37:g.44684410A>G	ENSP00000361363:p.Asn235Asp	Somatic	925	WXS	Illumina HiSeq	Phase_I	A8K001|D3DPY8|Q0JSM4|Q5TG41|Q7Z3H7|Q9H0S8|Q9P2C2	Missense_Mutation	SNP	ENST00000372289.2	37	CCDS509.1	.	.	.	.	.	.	.	.	.	.	A	14.56	2.570838	0.45798	.	.	ENSG00000178028	ENST00000361745;ENST00000446292;ENST00000372283;ENST00000440641;ENST00000437511;ENST00000315913;ENST00000372289	.	.	.	5.79	4.67	0.58626	.	0.000000	0.85682	D	0.000000	T	0.44726	0.1307	L	0.33293	1	0.58432	D	0.999999	B;B	0.20988	0.05;0.013	B;B	0.17722	0.019;0.019	T	0.35992	-0.9766	9	0.33141	T	0.24	-4.3399	11.2457	0.48996	0.929:0.0:0.071:0.0	.	225;235	B4DQG8;Q9NPF5	.;DMAP1_HUMAN	D	235;235;261;235;261;235;235	.	ENSP00000312697:N235D	N	+	1	0	DMAP1	44456997	1.000000	0.71417	0.998000	0.56505	0.980000	0.70556	7.071000	0.76770	2.208000	0.71279	0.533000	0.62120	AAC		0.577	DMAP1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000020027.3	NM_019100		G	44684410	A	G	44684410	3	3	643	1	0	0	0	0	1	0	0	0	4578	130	5	3	721	3	DMAP1	1	44684410	Missense_Mutation	SNP	A	TCGA-KL-8344-01A-11D-2310-10	15494916	44684410	204566211	3	39782										
TTC22	55001	bcgsc.ca	37	chr1	55266518	55266518	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	cagccgcccgtacacgtgtgCcagattggcccaggcattga	12	14	0	2			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr1:55266518C>T	ENST00000371276.4	-	1	422	c.319G>A	c.(319-321)Gca>Aca	p.A107T	TTC22_ENST00000371274.4_Missense_Mutation_p.A107T	NM_001114108.1	NP_001107580.1	Q5TAA0	TTC22_HUMAN	tetratricopeptide repeat domain 22	107										kidney(1)|large_intestine(1)|lung(7)|skin(1)	10						TACACGTGTGCCAGATTGGCC	0.697																																																0													11	13	12					1																	55266518		2190	4288	6478	SO:0001583	missense	55001			AK000626	CCDS598.1, CCDS44152.1	1p32.3	2013-01-11			ENSG00000006555	ENSG00000006555		"Tetratricopeptide (TTC) repeat domain containing"	26067	protein-coding gene	gene with protein product							Standard	NM_017904		Approved	FLJ20619	uc009vzt.1	Q5TAA0	OTTHUMG00000009916	ENST00000371276.4:c.319G>A	1.37:g.55266518C>T	ENSP00000360323:p.Ala107Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NWT4	Missense_Mutation	SNP	ENST00000371276.4	37	CCDS44152.1	.	.	.	.	.	.	.	.	.	.	C	24.5	4.540101	0.85917	.	.	ENSG00000006555	ENST00000371276;ENST00000371274	T;T	0.41065	1.01;1.01	4.31	3.39	0.38822	Tetratricopeptide-like helical (1);	0.132843	0.49916	D	0.000126	T	0.38639	0.1048	L	0.59436	1.845	0.45295	D	0.998298	B;B	0.12630	0.006;0.002	B;B	0.12156	0.005;0.007	T	0.31641	-0.9936	10	0.49607	T	0.09	-34.8523	11.2527	0.49034	0.0:0.9079:0.0:0.0921	.	107;107	Q5TAA0;Q5TAA0-2	TTC22_HUMAN;.	T	107	ENSP00000360323:A107T;ENSP00000360321:A107T	ENSP00000360321:A107T	A	-	1	0	TTC22	55039106	1.000000	0.71417	0.999000	0.59377	0.972000	0.66771	4.720000	0.61944	1.145000	0.42336	0.462000	0.41574	GCA		0.697	TTC22-002	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000027438.1	NM_017904		T	55266518	C	T	55266518	3	4	643	1	0	0	0	0	1	0	0	0	16701	739	26	2	1521	2	TTC22	1	55266518	Missense_Mutation	SNP	C	TCGA-KL-8344-01A-11D-2310-10	10582108	55266518	193984103	4	39783										
GBP2	2634	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	89585913	89585913	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	ttcccatgctattgtacacgAaggtgctgctcaggaggatg	12	9	1	0			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr1:89585913A>C	ENST00000370466.3	-	4	645	c.377T>G	c.(376-378)tTc>tGc	p.F126C	GBP2_ENST00000463660.1_5'Flank	NM_004120.3	NP_004111.2	P32456	GBP2_HUMAN	guanylate binding protein 2, interferon-inducible	126	GB1/RHD3-type G.|GTPase domain (Globular). {ECO:0000250}.				cytokine-mediated signaling pathway (GO:0019221)|immune response (GO:0006955)|interferon-gamma-mediated signaling pathway (GO:0060333)|type I interferon signaling pathway (GO:0060337)	cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(4)|lung(6)|ovary(2)|prostate(2)|skin(1)	20		Lung NSC(277;0.0908)		all cancers(265;0.0151)|Epithelial(280;0.0284)		ATTGTACACGAAGGTGCTGCT	0.463																																																0													225	202	210					1																	89585913		2203	4300	6503	SO:0001583	missense	2634			BC073163	CCDS719.1	1p22.2	2008-02-05			ENSG00000162645	ENSG00000162645			4183	protein-coding gene	gene with protein product		600412				1715024	Standard	NM_004120		Approved		uc001dmz.1	P32456	OTTHUMG00000010662	ENST00000370466.3:c.377T>G	1.37:g.89585913A>C	ENSP00000359497:p.Phe126Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GPH0|Q6IAU2|Q86TB0	Missense_Mutation	SNP	ENST00000370466.3	37	CCDS719.1	.	.	.	.	.	.	.	.	.	.	A	17.76	3.467875	0.63625	.	.	ENSG00000162645	ENST00000370466	T	0.61980	0.06	3.61	3.61	0.41365	Guanylate-binding protein, N-terminal (1);	0.219316	0.29522	U	0.011901	T	0.77864	0.4194	M	0.93854	3.465	0.33741	D	0.6194	D	0.89917	1.0	D	0.85130	0.997	T	0.82067	-0.0641	10	0.72032	D	0.01	-10.754	10.5469	0.45066	1.0:0.0:0.0:0.0	.	126	P32456	GBP2_HUMAN	C	126	ENSP00000359497:F126C	ENSP00000359497:F126C	F	-	2	0	GBP2	89358501	1.000000	0.71417	0.846000	0.33378	0.978000	0.69477	6.527000	0.73803	1.627000	0.50400	0.524000	0.50904	TTC		0.463	GBP2-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029406.2	NM_004120		C	89585913	A	C	89585913	3	2	643	1	0	0	0	0	1	0	0	0	6281	246	9	5	1430	5	GBP2	1	89585913	Missense_Mutation	SNP	A	TCGA-KL-8344-01A-11D-2310-10	34319395	89585913	159664708	5	39784										
CHD1L	9557	hgsc.bcm.edu	37	chr1	146767123	146767123	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	ccttatcagatattattttcCtagaagcaagtctgctgtcc	6	10	2	2			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr1:146767123C>T	ENST00000369258.4	+	23	2647	c.2627C>T	c.(2626-2628)cCt>cTt	p.P876L	CHD1L_ENST00000467213.1_3'UTR|CHD1L_ENST00000361293.5_Missense_Mutation_p.P595L|CHD1L_ENST00000431239.1_Missense_Mutation_p.P782L|CHD1L_ENST00000369259.3_Missense_Mutation_p.P672L	NM_001256336.1|NM_004284.4|NM_024568.2	NP_001243265.1|NP_004275.4|NP_078844.2	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein 1-like	876	Macro. {ECO:0000255|PROSITE- ProRule:PRU00490}.				ATP catabolic process (GO:0006200)|cellular response to DNA damage stimulus (GO:0006974)|chromatin remodeling (GO:0006338)|DNA duplex unwinding (GO:0032508)|DNA repair (GO:0006281)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|ATPase activity (GO:0016887)|DNA binding (GO:0003677)|nucleotide binding (GO:0000166)			breast(2)|endometrium(4)|kidney(1)|large_intestine(4)|lung(15)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	33	all_hematologic(923;0.0487)					TATTATTTTCCTAGAAGCAAG	0.398																																																0													129	117	121					1																	146767123		2203	4300	6503	SO:0001583	missense	9557			AF054177	CCDS927.1, CCDS58021.1, CCDS58022.1, CCDS72882.1	1q21.1	2008-02-05			ENSG00000131778	ENSG00000131778			1916	protein-coding gene	gene with protein product		613039				9653160	Standard	NM_004284		Approved	ALC1	uc001epm.5	Q86WJ1	OTTHUMG00000150271	ENST00000369258.4:c.2627C>T	1.37:g.146767123C>T	ENSP00000358262:p.Pro876Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A5YM64|B4DDE1|B5MDZ7|Q53EZ3|Q5VXX7|Q6DD94|Q6PK83|Q86XH3|Q96HF7|Q96SP3|Q9BVJ1|Q9NVV8	Missense_Mutation	SNP	ENST00000369258.4	37	CCDS927.1	.	.	.	.	.	.	.	.	.	.	C	19.49	3.837832	0.71373	.	.	ENSG00000131778	ENST00000431239;ENST00000369259;ENST00000369258;ENST00000361293	D;T;D;T	0.89123	-2.47;-1.32;-2.35;-1.46	5.27	5.27	0.74061	Appr-1-p processing (1);	0.359172	0.27636	N	0.018488	D	0.90167	0.6927	L	0.58101	1.795	0.58432	D	0.999994	D;D;P	0.60575	0.988;0.96;0.933	P;P;P	0.58721	0.844;0.711;0.518	D	0.90591	0.4537	10	0.62326	D	0.03	.	14.2767	0.66184	0.0:1.0:0.0:0.0	.	782;672;876	Q86WJ1-2;Q86WJ1-3;Q86WJ1	.;.;CHD1L_HUMAN	L	782;672;876;595	ENSP00000389031:P782L;ENSP00000358263:P672L;ENSP00000358262:P876L;ENSP00000355100:P595L	ENSP00000355100:P595L	P	+	2	0	CHD1L	145233747	0.999000	0.42202	0.995000	0.50966	0.912000	0.54170	3.836000	0.55813	2.735000	0.93741	0.655000	0.94253	CCT		0.398	CHD1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040377.1	NM_004284		T	146767123	C	T	146767123	3	4	643	1	0	0	0	0	1	0	0	0	3326	681	24	2	2717	2	CHD1L	1	146767123	Missense_Mutation	SNP	C	TCGA-KL-8344-01A-11D-2310-10	57181210	146767123	102483498	6	39785										
HRNR	388697	broad.mit.edu	37	chr1	152191466	152191466	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	atccagagccatgtcggccgCggcccgaagcgtgatgggag	16	12	0	2	rs376040395	byFrequency	TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr1:152191466C>T	ENST00000368801.2	-	3	2714	c.2639G>A	c.(2638-2640)cGc>cAc	p.R880H	FLG-AS1_ENST00000593011.1_RNA|FLG-AS1_ENST00000420707.1_RNA	NM_001009931.1	NP_001009931.1	Q86YZ3	HORN_HUMAN	hornerin	880					establishment of skin barrier (GO:0061436)|hematopoietic progenitor cell differentiation (GO:0002244)|keratinization (GO:0031424)	cornified envelope (GO:0001533)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)	p.R880H(1)		autonomic_ganglia(1)|breast(6)|central_nervous_system(2)|cervix(2)|endometrium(22)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(19)|liver(1)|lung(84)|ovary(5)|prostate(6)|skin(12)|stomach(9)|upper_aerodigestive_tract(5)|urinary_tract(6)	192	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATGTCGGCCGCGGCCCGAAGC	0.627													C|||	2	0.000399361	0.0	0.0	5008	,	,		20954	0.0		0.001	False		,,,				2504	0.001															1	Substitution - Missense(1)	large_intestine(1)						C	HIS/ARG	0,4406		0,0,2203	87	95	93		2639	-4.1	0	1		93	1,8599	1.2+/-3.3	0,1,4299	no	missense	HRNR	NM_001009931.1	29	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	possibly-damaging	880/2851	152191466	1,13005	2203	4300	6503	SO:0001583	missense	388697			AB104446	CCDS30859.1	1q21.3	2013-01-10			ENSG00000197915	ENSG00000197915		"EF-hand domain containing"	20846	protein-coding gene	gene with protein product	"filaggrin family member 3"						Standard	NM_001009931		Approved	S100a18, S100A16, FLG3	uc001ezt.2	Q86YZ3	OTTHUMG00000012243	ENST00000368801.2:c.2639G>A	1.37:g.152191466C>T	ENSP00000357791:p.Arg880His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5DT20|Q5U1F4	Missense_Mutation	SNP	ENST00000368801.2	37	CCDS30859.1	.	.	.	.	.	.	.	.	.	.	C	3.616	-0.078540	0.07184	0.0	1.16E-4	ENSG00000197915	ENST00000368801	T	0.01871	4.59	2.07	-4.14	0.03892	.	.	.	.	.	T	0.00271	0.0008	N	0.19112	0.55	0.09310	N	1	P	0.46578	0.88	B	0.19946	0.027	T	0.49214	-0.8963	9	0.15499	T	0.54	.	4.0907	0.09968	0.0:0.2699:0.3225:0.4077	.	880	Q86YZ3	HORN_HUMAN	H	880	ENSP00000357791:R880H	ENSP00000357791:R880H	R	-	2	0	HRNR	150458090	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-4.906000	0.00171	-2.279000	0.00676	-0.362000	0.07510	CGC		0.627	HRNR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034016.1	XM_373868		T	152191466	C	T	152191466	3	4	643	1	0	0	0	0	1	0	0	0	7366	768	27	1	5917	1	HRNR	1	152191466	Missense_Mutation	SNP	C	TCGA-KL-8344-01A-11D-2310-10	5424343	152191466	97059155	7	39786										
PPP1R12B	4660	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr1	202391786	202391786	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	agccagtgtaggtattgtcaAtagtgaaggtgaagttccct	12	6	1	2	rs141572166	byFrequency	TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr1:202391786A>G	ENST00000608999.1	+	3	614	c.461A>G	c.(460-462)aAt>aGt	p.N154S	PPP1R12B_ENST00000356764.2_Missense_Mutation_p.N154S|PPP1R12B_ENST00000336894.4_Missense_Mutation_p.N154S|PPP1R12B_ENST00000480184.1_Missense_Mutation_p.N154S	NM_001197131.1|NM_002481.3	NP_001184060.1|NP_002472.2	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory subunit 12B	154					G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|positive regulation of catalytic activity (GO:0043085)|regulation of muscle contraction (GO:0006937)|signal transduction (GO:0007165)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|plasma membrane (GO:0005886)	enzyme activator activity (GO:0008047)			central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(7)|lung(17)|ovary(4)|skin(3)|urinary_tract(1)	41			BRCA - Breast invasive adenocarcinoma(75;0.166)			GGTATTGTCAATAGTGAAGGT	0.418													A|||	2	0.000399361	0.0008	0.0	5008	,	,		19575	0.0		0.001	False		,,,				2504	0.0															0								A	SER/ASN,SER/ASN,SER/ASN	2,4404	4.2+/-10.8	0,2,2201	108	103	104		461,461,461	3.9	0.7	1	dbSNP_134	104	0,8600		0,0,4300	yes	missense,missense,missense	PPP1R12B	NM_001167857.1,NM_001167858.1,NM_002481.3	46,46,46	0,2,6501	GG,GA,AA		0.0,0.0454,0.0154	probably-damaging,probably-damaging,probably-damaging	154/516,154/387,154/983	202391786	2,13004	2203	4300	6503	SO:0001583	missense	4660			AB003062	CCDS1426.1, CCDS44294.1, CCDS44295.1, CCDS53458.1, CCDS53459.1, CCDS73005.1	1q32.1	2013-01-10	2011-10-04	2001-08-10	ENSG00000077157	ENSG00000077157		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits", "Ankyrin repeat domain containing"	7619	protein-coding gene	gene with protein product	"myosin phosphatase regulatory subunit", "myosin phosphatase, target subunit 2"	603768	"protein phosphatase 1, regulatory (inhibitor) subunit 12B"	MYPT2		9570949	Standard	NM_002481		Approved	MGC87886, MGC131980, PP1bp55	uc001gya.2	O60237	OTTHUMG00000041393	ENST00000608999.1:c.461A>G	1.37:g.202391786A>G	ENSP00000476755:p.Asn154Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8MYF5|B7ZMN6|Q2TAI8|Q5T506|Q5VUK2|Q8N179|Q9HCB7|Q9HCB8	Missense_Mutation	SNP	ENST00000608999.1	37	CCDS1426.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	A	20.4	3.985689	0.74589	4.54E-4	0.0	ENSG00000077157	ENST00000406302;ENST00000336894;ENST00000480184;ENST00000356764	T;T;T;T	0.55588	0.51;0.51;0.51;0.51	5.09	3.94	0.45596	Ankyrin repeat-containing domain (3);	0.085998	0.49916	D	0.000136	T	0.56558	0.1993	N	0.20574	0.59	0.80722	D	1	D;D;D;D	0.89917	0.999;0.977;1.0;0.999	D;D;D;D	0.79108	0.956;0.958;0.971;0.992	T	0.59984	-0.7351	10	0.66056	D	0.02	.	12.3285	0.55024	0.8585:0.1415:0.0:0.0	.	154;154;154;154	O60237-2;O60237;F8W8M3;Q2TAI8	.;MYPT2_HUMAN;.;.	S	154	ENSP00000384496:N154S;ENSP00000337897:N154S;ENSP00000417159:N154S;ENSP00000349206:N154S	ENSP00000337897:N154S	N	+	2	0	PPP1R12B	200658409	1.000000	0.71417	0.730000	0.30809	0.964000	0.63967	8.694000	0.91293	0.851000	0.35264	0.482000	0.46254	AAT		0.418	PPP1R12B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000099166.3	NM_032105		G	202391786	A	G	202391786	3	3	643	1	0	0	0	0	1	0	0	0	12365	101	4	3	471	3	PPP1R12B	1	202391786	Missense_Mutation	SNP	A	TCGA-KL-8344-01A-11D-2310-10	50200320	202391786	46858835	8	39787										
OBSCN	84033	mdanderson.org	37	chr1	228504669	228504669	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	cgcgacgccgtggcctctgcGcggctcaccgtgctgggtgg	17	15	2	0	rs61825302	byFrequency	TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr1:228504669G>A	ENST00000422127.1	+	51	13589	c.13545G>A	c.(13543-13545)gcG>gcA	p.A4515A	OBSCN_ENST00000284548.11_Silent_p.A4515A|OBSCN_ENST00000366709.4_Silent_p.A1634A|OBSCN_ENST00000366707.4_Silent_p.A2149A|OBSCN_ENST00000570156.2_Silent_p.A5472A	NM_001098623.2	NP_001092093.2	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF	4515	Ig-like 46.				apoptotic signaling pathway (GO:0097190)|multicellular organismal development (GO:0007275)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|protein localization to M-band (GO:0036309)|regulation of small GTPase mediated signal transduction (GO:0051056)|sarcomere organization (GO:0045214)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|M band (GO:0031430)|myofibril (GO:0030016)|Z disc (GO:0030018)	ankyrin binding (GO:0030506)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			NS(2)|breast(7)|central_nervous_system(5)|cervix(2)|endometrium(30)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(37)|lung(89)|ovary(8)|pancreas(3)|prostate(13)|skin(6)|stomach(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	223		Prostate(94;0.0405)				TGGCCTCTGCGCGGCTCACCG	0.731													g|||	729	0.145567	0.1218	0.2349	5008	,	,		13931	0.1518		0.159	False		,,,				2504	0.0941															0									,	507,3253		36,435,1409	5	6	6		13545,13545	-6.2	0	1	dbSNP_129	6	1105,6501		71,963,2769	no	coding-synonymous,coding-synonymous	OBSCN	NM_001098623.1,NM_052843.2	,	107,1398,4178	AA,AG,GG		14.528,13.484,14.1827	,	4515/7969,4515/6621	228504669	1612,9754	1880	3803	5683	SO:0001819	synonymous_variant	84033			AJ002535	CCDS1570.2, CCDS58065.1, CCDS59204.1	1q42	2014-09-17			ENSG00000154358	ENSG00000154358		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	15719	protein-coding gene	gene with protein product		608616				11448995, 11814696	Standard	NM_001098623		Approved	KIAA1556, UNC89, KIAA1639, ARHGEF30	uc001hsq.2	Q5VST9	OTTHUMG00000039772	ENST00000422127.1:c.13545G>A	1.37:g.228504669G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2A664|Q5T7G8|Q5T7G9|Q5VSU2|Q86YC7|Q8NHN0|Q8NHN1|Q8NHN2|Q8NHN3|Q8NHN4|Q8NHN5|Q8NHN6|Q8NHN7|Q8NHN8|Q8NHN9|Q96AA2|Q9HCD3|Q9HCL6	Silent	SNP	ENST00000422127.1	37	CCDS58065.1																																																																																				0.731	OBSCN-204	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_052843		A	228504669	G	A	228504669	2	1	643	1	0	0	0	0	0	0	0	1	10819	1074	38	1		1	OBSCN	1	228504669	Silent	SNP	G	TCGA-KL-8344-01A-11D-2310-10	26112883	228504669	20745952	9	39788										
NCKAP1	10787	broad.mit.edu	37	chr2	183791547	183791547	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	attaaaatgagacttaccatAtctagcagtaaataaacaga	5	6	1	2			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr2:183791547A>G	ENST00000361354.4	-	30	3639	c.3267T>C	c.(3265-3267)gaT>gaC	p.D1089D	NCKAP1_ENST00000360982.2_Silent_p.D1095D|NCKAP1_ENST00000478449.1_5'Flank	NM_013436.3	NP_038464.1	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1	1089					apical protein localization (GO:0045176)|apoptotic process (GO:0006915)|basal protein localization (GO:0045175)|central nervous system development (GO:0007417)|embryonic body morphogenesis (GO:0010172)|embryonic foregut morphogenesis (GO:0048617)|embryonic heart tube development (GO:0035050)|endoderm development (GO:0007492)|establishment or maintenance of actin cytoskeleton polarity (GO:0030950)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|in utero embryonic development (GO:0001701)|innate immune response (GO:0045087)|lamellipodium assembly (GO:0030032)|mesodermal cell migration (GO:0008078)|neural tube closure (GO:0001843)|notochord morphogenesis (GO:0048570)|paraxial mesoderm morphogenesis (GO:0048340)|positive regulation of Arp2/3 complex-mediated actin nucleation (GO:2000601)|positive regulation of lamellipodium assembly (GO:0010592)|protein stabilization (GO:0050821)|Rac protein signal transduction (GO:0016601)|regulation of protein localization (GO:0032880)|somitogenesis (GO:0001756)|zygotic determination of anterior/posterior axis, embryo (GO:0007354)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)|SCAR complex (GO:0031209)	protein complex binding (GO:0032403)			breast(3)|cervix(2)|endometrium(3)|kidney(4)|large_intestine(11)|lung(16)|ovary(2)|prostate(2)|upper_aerodigestive_tract(2)	45			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			GACTTACCATATCTAGCAGTA	0.318																																																0													83	82	82					2																	183791547		2202	4297	6499	SO:0001819	synonymous_variant	10787			AB014509	CCDS2287.1, CCDS2288.1	2q32	2009-08-14			ENSG00000061676	ENSG00000061676			7666	protein-coding gene	gene with protein product		604891				10673335, 12181570, 9344857	Standard	NM_013436		Approved	Nap1, HEM2, NAP125	uc002upb.4	Q9Y2A7	OTTHUMG00000132623	ENST00000361354.4:c.3267T>C	2.37:g.183791547A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O60329|Q53QN5|Q53S94|Q53Y35	Silent	SNP	ENST00000361354.4	37	CCDS2287.1																																																																																				0.318	NCKAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255867.2	NM_205842		G	183791547	A	G	183791547	2	3	643	1	0	0	0	0	0	0	0	1	10228	446	16	3		3	NCKAP1	2	183791547	Silent	SNP	A	TCGA-KL-8344-01A-11D-2310-10		183791547	59407826	10	39789										
RAPH1	65059	mdanderson.org	37	chr2	204305990	204305990	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	gggggaggagggggtggtggAgggggtggtggaggaggagg	31	0	0	0			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr2:204305990A>G	ENST00000319170.5	-	14	2222	c.1923T>C	c.(1921-1923)ccT>ccC	p.P641P	ABI2_ENST00000295851.5_3'UTR|RAPH1_ENST00000457812.1_Intron|RAPH1_ENST00000374493.3_Silent_p.P693P	NM_213589.1	NP_998754.1	Q70E73	RAPH1_HUMAN	Ras association (RalGDS/AF-6) and pleckstrin homology domains 1	641					axon extension (GO:0048675)|cell-matrix adhesion (GO:0007160)|signal transduction (GO:0007165)	cell leading edge (GO:0031252)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|plasma membrane (GO:0005886)				breast(5)|central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(7)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	32						ggggtggtggagggggtggtg	0.602																																																0													5	6	6					2																	204305990		1778	3383	5161	SO:0001819	synonymous_variant	65059			AJ584699	CCDS2359.1, CCDS2360.1	2q33	2013-01-10	2003-11-25	2003-11-26	ENSG00000173166	ENSG00000173166		"Pleckstrin homology (PH) domain containing"	14436	protein-coding gene	gene with protein product	"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 18"	609035	"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 9"	ALS2CR9, ALS2CR18			Standard	NM_203365		Approved	KIAA1681	uc002vad.3	Q70E73	OTTHUMG00000132876	ENST00000319170.5:c.1923T>C	2.37:g.204305990A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q96Q37|Q9C0I2	Silent	SNP	ENST00000319170.5	37	CCDS2359.1																																																																																				0.602	RAPH1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256363.2	NM_025252		G	204305990	A	G	204305990	2	3	643	1	0	0	0	0	0	0	0	1	13063	291	11	3		3	RAPH1	2	204305990	Silent	SNP	A	TCGA-KL-8344-01A-11D-2310-10	20514443	204305990	38893383	11	39790										
PAX3	5077	broad.mit.edu	37	chr2	223066834	223066834	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	ggtggtaggttccagaccccCggtgagaggggagagcgcgt	19	9	0	3	rs528350431		TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr2:223066834C>T	ENST00000350526.4	-	8	1385	c.1249G>A	c.(1249-1251)Ggg>Agg	p.G417R	PAX3_ENST00000336840.6_Intron|PAX3_ENST00000409551.3_Missense_Mutation_p.G416R|PAX3_ENST00000392070.2_Missense_Mutation_p.G417R|PAX3_ENST00000344493.4_Intron|PAX3_ENST00000392069.2_Missense_Mutation_p.G417R|PAX3_ENST00000464706.1_5'UTR	NM_181457.3	NP_852122.1	P23760	PAX3_HUMAN	paired box 3	417					apoptotic process (GO:0006915)|cell proliferation (GO:0008283)|developmental pigmentation (GO:0048066)|heart development (GO:0007507)|mammary gland specification (GO:0060594)|muscle organ development (GO:0007517)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neural crest cell migration (GO:0001755)|neural tube closure (GO:0001843)|neuron fate commitment (GO:0048663)|organ morphogenesis (GO:0009887)|positive regulation of cell proliferation (GO:0008284)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of somitogenesis (GO:0014807)|sensory perception of sound (GO:0007605)|spinal cord association neuron differentiation (GO:0021527)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)		PAX3/NCOA2(4)|PAX3/NCOA1(8)|PAX3/FOXO1(749)	NS(1)|endometrium(3)|kidney(1)|large_intestine(12)|lung(13)|ovary(4)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)	38		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;1.85e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCCAGACCCCCGGTGAGAGGG	0.557			T	"FOXO1A, NCOA1"	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						C|||	1	0.000199681	0.0008	0.0	5008	,	,		17596	0.0		0.0	False		,,,				2504	0.0						Dom	yes		2	2q35	5077	paired box gene 3	yes	M	0													78	74	75					2																	223066834		2203	4300	6503	SO:0001583	missense	5077				CCDS2449.1, CCDS2450.1, CCDS2451.1, CCDS42825.1, CCDS2448.1, CCDS42826.1, CCDS46522.1, CCDS46523.1	2q36.1	2011-06-20	2007-07-12		ENSG00000135903	ENSG00000135903		"Paired boxes", "Homeoboxes / PRD class"	8617	protein-coding gene	gene with protein product		606597	"Waardenburg syndrome 1", "paired box gene 3 (Waardenburg syndrome 1)"	WS1		1347149	Standard	NM_181461		Approved	HUP2	uc002vmt.2	P23760	OTTHUMG00000133157	ENST00000350526.4:c.1249G>A	2.37:g.223066834C>T	ENSP00000343052:p.Gly417Arg	Somatic		WXS	Illumina HiSeq	Phase_I	G5E9C1|Q16448|Q494Z3|Q494Z4|Q53T90|Q6GSJ9|Q86UQ2|Q86UQ3	Missense_Mutation	SNP	ENST00000350526.4	37	CCDS42826.1	.	.	.	.	.	.	.	.	.	.	C	27.8	4.859852	0.91433	.	.	ENSG00000135903	ENST00000392069;ENST00000350526;ENST00000392070;ENST00000409551;ENST00000464706	D;D;D;D	0.94758	-3.39;-3.43;-3.5;-3.51	5.81	5.81	0.92471	.	0.051938	0.85682	D	0.000000	D	0.96423	0.8833	L	0.54323	1.7	0.80722	D	1	D;D;D	0.89917	1.0;0.997;0.999	D;P;D	0.69142	0.962;0.851;0.929	D	0.95648	0.8704	10	0.45353	T	0.12	.	20.0784	0.97758	0.0:1.0:0.0:0.0	.	417;416;417	P23760;Q494Z4;G5E9C1	PAX3_HUMAN;.;.	R	417;417;417;416;134	ENSP00000375921:G417R;ENSP00000343052:G417R;ENSP00000375922:G417R;ENSP00000386750:G416R	ENSP00000343052:G417R	G	-	1	0	PAX3	222775078	1.000000	0.71417	0.967000	0.41034	0.931000	0.56810	4.500000	0.60387	2.736000	0.93811	0.655000	0.94253	GGG		0.557	PAX3-006	KNOWN	not_organism_supported|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000328670.1			T	223066834	C	T	223066834	3	4	643	1	0	0	0	0	1	0	0	0	11487	652	23	1	308	1	PAX3	2	223066834	Missense_Mutation	SNP	C	TCGA-KL-8344-01A-11D-2310-10	18760844	223066834	20132539	12	39791										
ATRIP	84126	bcgsc.ca	37	chr3	48498818	48498818	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	cctctggtgggcagagagggTaagtccattagtcatctatt	12	8	3	1			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr3:48498818T>C	ENST00000320211.3	+	5	942		c.e5+2		ATRIP_ENST00000346691.4_Splice_Site|ATRIP_ENST00000357105.6_Splice_Site|ATRIP_ENST00000412052.1_Splice_Site	NM_130384.2	NP_569055.1	Q8WXE1	ATRIP_HUMAN	ATR interacting protein						DNA damage checkpoint (GO:0000077)|DNA repair (GO:0006281)|DNA replication (GO:0006260)	microtubule cytoskeleton (GO:0015630)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				central_nervous_system(1)|cervix(2)|endometrium(1)|large_intestine(6)|lung(8)|ovary(3)|prostate(1)	22				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GCAGAGAGGGTAAGTCCatta	0.408								Other conserved DNA damage response genes																																								0													60	56	57					3																	48498818		2203	4300	6503	SO:0001630	splice_region_variant	84126			AF451323	CCDS2767.1, CCDS2768.1, CCDS59449.1, CCDS59450.1	3p24.3-p22.1	2007-06-20			ENSG00000164053	ENSG00000164053			33499	protein-coding gene	gene with protein product		606605				11721054	Standard	NM_130384		Approved	FLJ12343, MGC20625, MGC21482, MGC26740	uc003ctf.2	Q8WXE1	OTTHUMG00000133532	ENST00000320211.3:c.829+2T>C	3.37:g.48498818T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6A3|A8K714|B2RCE7|B4DU92|B5MEB7|Q69YK9|Q8NHQ2|Q8WUG7|Q96CL3|Q9HA30	Splice_Site	SNP	ENST00000320211.3	37	CCDS2768.1	.	.	.	.	.	.	.	.	.	.	T	15.42	2.826973	0.50739	.	.	ENSG00000164053	ENST00000421175;ENST00000320211;ENST00000346691;ENST00000357105;ENST00000412052	.	.	.	5.53	5.53	0.82687	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	11.9763	0.53094	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	ATRIP	48473822	1.000000	0.71417	1.000000	0.80357	0.562000	0.35680	3.830000	0.55768	2.324000	0.78689	0.533000	0.62120	.		0.408	ATRIP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257507.2	NM_130384	Intron	C	48498818	T	C	48498818	5	2	643	1	0	0	0	0	0	0	1	0	1205	1652	57	3	849	3	ATRIP	3	48498818	Splice_Site	SNP	T	TCGA-KL-8344-01A-11D-2310-10		48498818	149523612	13	39792										
ACTR8	93973	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	53914090	53914090	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	tggctcgaccaatccttaaaGttgttgaacctggatgtatg	10	8	0	1			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr3:53914090G>T	ENST00000335754.3	-	2	270	c.170C>A	c.(169-171)aCt>aAt	p.T57N	ACTR8_ENST00000482349.1_5'UTR|AC012467.1_ENST00000410956.1_RNA|ACTR8_ENST00000231909.7_5'Flank	NM_022899.4	NP_075050.3	Q9H981	ARP8_HUMAN	ARP8 actin-related protein 8 homolog (yeast)	57					chromatin remodeling (GO:0006338)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|mitotic nuclear division (GO:0007067)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	Ino80 complex (GO:0031011)|nucleus (GO:0005634)	ATP binding (GO:0005524)			autonomic_ganglia(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(6)|ovary(2)|prostate(1)	19				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)		AATCCTTAAAGTTGTTGAACC	0.428																																																0													179	168	172					3																	53914090		2203	4300	6503	SO:0001583	missense	93973				CCDS2875.1	3p21.31	2011-07-06	2001-11-28		ENSG00000113812	ENSG00000113812		"INO80 complex subunits"	14672	protein-coding gene	gene with protein product	"INO80 complex subunit N"		"ARP8 (actin-related protein 8, yeast) homolog"			18163988, 16230350	Standard	NM_022899		Approved	INO80N	uc003dhd.3	Q9H981	OTTHUMG00000158279	ENST00000335754.3:c.170C>A	3.37:g.53914090G>T	ENSP00000336842:p.Thr57Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B3KSW7|Q8N566|Q9H663	Missense_Mutation	SNP	ENST00000335754.3	37	CCDS2875.1	.	.	.	.	.	.	.	.	.	.	G	14.46	2.541648	0.45280	.	.	ENSG00000113812	ENST00000335754	D	0.94793	-3.52	6.02	6.02	0.97574	.	0.052061	0.85682	D	0.000000	D	0.87297	0.6142	N	0.05078	-0.115	0.80722	D	1	B	0.14012	0.009	B	0.12156	0.007	T	0.82317	-0.0517	10	0.15066	T	0.55	-2.1464	18.3137	0.90210	0.0:0.0:1.0:0.0	.	57	Q9H981	ARP8_HUMAN	N	57	ENSP00000336842:T57N	ENSP00000336842:T57N	T	-	2	0	ACTR8	53889130	1.000000	0.71417	0.956000	0.39512	0.989000	0.77384	4.786000	0.62425	2.865000	0.98341	0.655000	0.94253	ACT		0.428	ACTR8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350562.2	NM_022899		T	53914090	G	T	53914090	3	4	643	1	0	0	0	0	1	0	0	0	217	1029	36	4	1752	4	ACTR8	3	53914090	Missense_Mutation	SNP	G	TCGA-KL-8344-01A-11D-2310-10	5415272	53914090	144108340	14	39793										
FAM55C	91775	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr3	101540561	101540561	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	ccaaagaccgtggtggtcatCcggacggccaacgcccaaga	12	14	1	2			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr3:101540561C>G	ENST00000491511.2	+	8	2399	c.1443C>G	c.(1441-1443)atC>atG	p.I481M	NXPE3_ENST00000422132.1_Missense_Mutation_p.I481M|NXPE3_ENST00000477909.1_Missense_Mutation_p.I481M|RP11-49I4.3_ENST00000490324.2_RNA|NXPE3_ENST00000273347.5_Missense_Mutation_p.I481M	NM_001134456.1	NP_001127928.1	Q969Y0	NXPE3_HUMAN	neurexophilin and PC-esterase domain family, member 3	481						extracellular region (GO:0005576)											TGGTGGTCATCCGGACGGCCA	0.577																																																0													97	99	99					3																	101540561		2203	4300	6503	SO:0001583	missense	91775			AK054664	CCDS2945.1	3q12.3	2012-06-14	2012-06-11	2012-06-11	ENSG00000144815	ENSG00000144815			28238	protein-coding gene	gene with protein product			"family with sequence similarity 55, member C"	FAM55C		12975309	Standard	NM_001134456		Approved	MGC15606	uc003dvn.3	Q969Y0	OTTHUMG00000159179	ENST00000491511.2:c.1443C>G	3.37:g.101540561C>G	ENSP00000417485:p.Ile481Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0X4|D3DN53|Q7Z2S8	Missense_Mutation	SNP	ENST00000491511.2	37	CCDS2945.1	.	.	.	.	.	.	.	.	.	.	C	19.76	3.887089	0.72410	.	.	ENSG00000144815	ENST00000273347;ENST00000491511;ENST00000477909;ENST00000422132	T;T;T;T	0.20463	2.07;2.07;2.07;2.07	6.03	1.61	0.23674	.	0.132273	0.64402	D	0.000002	T	0.39860	0.1094	M	0.87097	2.86	0.49798	D	0.999823	D	0.53151	0.958	P	0.57548	0.823	T	0.25187	-1.0139	10	0.87932	D	0	-21.7103	6.309	0.21154	0.2333:0.5725:0.0:0.1942	.	481	Q969Y0	FA55C_HUMAN	M	481	ENSP00000273347:I481M;ENSP00000417485:I481M;ENSP00000418369:I481M;ENSP00000396421:I481M	ENSP00000273347:I481M	I	+	3	3	FAM55C	103023251	0.992000	0.36948	1.000000	0.80357	0.998000	0.95712	0.415000	0.21181	0.397000	0.25310	0.655000	0.94253	ATC		0.577	NXPE3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353711.2	NM_145037		G	101540561	C	G	101540561	3	3	643	1	0	0	0	0	1	0	0	0	5593	845	30	4	1461	4	FAM55C	3	101540561	Missense_Mutation	SNP	C	TCGA-KL-8344-01A-11D-2310-10	47626471	101540561	96481869	15	39794										
EIF4G1	1981	mdanderson.org	37	chr3	184039769	184039770	+	Missense_Mutation	DNP	GA	GA	AG													0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	agaagaagaagaggaagaagGagaagcaggagaagcaggag					rs111659103|rs398102387		TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr3:184039769_184039770GA>AG	ENST00000346169.2	+	10	1668_1669	c.1397_1398GA>AG	c.(1396-1398)gGA>gAG	p.G466E	EIF4G1_ENST00000319274.6_Missense_Mutation_p.G466E|EIF4G1_ENST00000411531.1_Missense_Mutation_p.G426E|EIF4G1_ENST00000441154.1_Missense_Mutation_p.G302E|EIF4G1_ENST00000424196.1_Missense_Mutation_p.G473E|EIF4G1_ENST00000350481.5_Missense_Mutation_p.G302E|EIF4G1_ENST00000414031.1_Missense_Mutation_p.G426E|EIF4G1_ENST00000352767.3_Missense_Mutation_p.G473E|EIF4G1_ENST00000435046.2_Missense_Mutation_p.G270E|EIF4G1_ENST00000392537.2_Missense_Mutation_p.G379E|EIF4G1_ENST00000342981.4_Missense_Mutation_p.G466E|EIF4G1_ENST00000382330.3_Missense_Mutation_p.G473E|EIF4G1_ENST00000427845.1_Missense_Mutation_p.G379E|EIF2B5_ENST00000444495.1_Intron|EIF4G1_ENST00000434061.2_Missense_Mutation_p.G270E	NM_198241.2	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4 gamma, 1	466	Poly-Glu.		Missing. {ECO:0000269|PubMed:21907011}.		cell death (GO:0008219)|cellular protein metabolic process (GO:0044267)|cytokine-mediated signaling pathway (GO:0019221)|gene expression (GO:0010467)|insulin receptor signaling pathway (GO:0008286)|lung development (GO:0030324)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|regulation of translational initiation (GO:0006446)|response to ethanol (GO:0045471)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)|viral process (GO:0016032)	cytosol (GO:0005829)|eukaryotic translation initiation factor 4F complex (GO:0016281)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|translation factor activity, nucleic acid binding (GO:0008135)|translation initiation factor activity (GO:0003743)			central_nervous_system(1)|cervix(2)|endometrium(3)|kidney(5)|large_intestine(14)|lung(41)|ovary(2)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	75	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			gaggaagaaggagaagcaggag	0.55																																																0																																										SO:0001583	missense	1981			D12686	CCDS3259.1, CCDS3260.1, CCDS3261.1, CCDS46970.1, CCDS46970.2, CCDS54687.1, CCDS54688.1	3q27.1	2013-09-19			ENSG00000114867	ENSG00000114867		"Parkinson disease"	3296	protein-coding gene	gene with protein product		600495		EIF4G, EIF4F		1429670, 9372926, 21907011	Standard	NM_182917		Approved	p220, PARK18	uc010hxy.3	Q04637	OTTHUMG00000156784	Exception_encountered	3.37:g.184039769_184039770delinsAG	ENSP00000316879:p.Gly466Glu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNT2|D3DNT4|D3DNT5|E9PFM1|G5E9S1|O43177|O95066|Q5HYG0|Q6ZN21|Q8N102	Silent	DNP	ENST00000346169.2	37	CCDS3259.1																																																																																				0.55	EIF4G1-007	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000345733.1	NM_182917		AG	184039770	GA	AG	184039769	3	1	643	1	0	0	0	0	1	0	0	0	5038	1174	41	2	1427	2	EIF4G1	3	184039769	Missense_Mutation	DNP	GA	TCGA-KL-8344-01A-11D-2310-10	82499208	184039769	13982661	16	39795	346	2								
EIF4G1	1981	mdanderson.org	37	chr3	184039775	184039775	+	Missense_Mutation	SNP	C	C	A													0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	agaagaggaagaaggagaagCaggagaagcaggagaagctg					rs200221361|rs111659103|rs398102387		TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr3:184039775C>A	ENST00000346169.2	+	10	1674	c.1403C>A	c.(1402-1404)gCa>gAa	p.A468E	EIF4G1_ENST00000319274.6_Missense_Mutation_p.A468E|EIF4G1_ENST00000411531.1_Missense_Mutation_p.A428E|EIF4G1_ENST00000441154.1_Missense_Mutation_p.A304E|EIF4G1_ENST00000424196.1_Missense_Mutation_p.A475E|EIF4G1_ENST00000350481.5_Missense_Mutation_p.A304E|EIF4G1_ENST00000414031.1_Missense_Mutation_p.A428E|EIF4G1_ENST00000352767.3_Missense_Mutation_p.A475E|EIF4G1_ENST00000435046.2_Missense_Mutation_p.A272E|EIF4G1_ENST00000392537.2_Missense_Mutation_p.A381E|EIF4G1_ENST00000342981.4_Missense_Mutation_p.A468E|EIF4G1_ENST00000382330.3_Missense_Mutation_p.A475E|EIF4G1_ENST00000427845.1_Missense_Mutation_p.A381E|EIF2B5_ENST00000444495.1_Intron|EIF4G1_ENST00000434061.2_Missense_Mutation_p.A272E	NM_198241.2	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4 gamma, 1	468			Missing. {ECO:0000269|PubMed:21907011}.	A -> V (in Ref. 1; BAA02185). {ECO:0000305}.	cell death (GO:0008219)|cellular protein metabolic process (GO:0044267)|cytokine-mediated signaling pathway (GO:0019221)|gene expression (GO:0010467)|insulin receptor signaling pathway (GO:0008286)|lung development (GO:0030324)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|regulation of translational initiation (GO:0006446)|response to ethanol (GO:0045471)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)|viral process (GO:0016032)	cytosol (GO:0005829)|eukaryotic translation initiation factor 4F complex (GO:0016281)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|translation factor activity, nucleic acid binding (GO:0008135)|translation initiation factor activity (GO:0003743)			central_nervous_system(1)|cervix(2)|endometrium(3)|kidney(5)|large_intestine(14)|lung(41)|ovary(2)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	75	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			gaaggagaagcaggagaagca	0.537																																																0													61	62	61					3																	184039775		2203	4300	6503	SO:0001583	missense	1981			D12686	CCDS3259.1, CCDS3260.1, CCDS3261.1, CCDS46970.1, CCDS46970.2, CCDS54687.1, CCDS54688.1	3q27.1	2013-09-19			ENSG00000114867	ENSG00000114867		"Parkinson disease"	3296	protein-coding gene	gene with protein product		600495		EIF4G, EIF4F		1429670, 9372926, 21907011	Standard	NM_182917		Approved	p220, PARK18	uc010hxy.3	Q04637	OTTHUMG00000156784	ENST00000346169.2:c.1403C>A	3.37:g.184039775C>A	ENSP00000316879:p.Ala468Glu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNT2|D3DNT4|D3DNT5|E9PFM1|G5E9S1|O43177|O95066|Q5HYG0|Q6ZN21|Q8N102	Missense_Mutation	SNP	ENST00000346169.2	37	CCDS3259.1	.	.	.	.	.	.	.	.	.	.	C	0.001	-2.934063	0.00053	.	.	ENSG00000114867	ENST00000346169;ENST00000414031;ENST00000392537;ENST00000450424;ENST00000421110;ENST00000382330;ENST00000426123;ENST00000350481;ENST00000352767;ENST00000427845;ENST00000342981;ENST00000319274;ENST00000424196;ENST00000411531;ENST00000444861;ENST00000441154;ENST00000434061;ENST00000457456;ENST00000435046	T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.62105	0.05;0.05;0.05;0.05;0.05;0.05;0.05;0.05;0.05;0.05;0.05;0.05;0.05;0.05;0.05;0.05;0.05;1.68;0.05	0.321	0.321	0.15883	.	0.503112	0.18663	N	0.134661	T	0.24967	0.0606	N	0.02011	-0.69	0.09310	N	0.999996	B;B;B;B	0.02656	0.0;0.0;0.0;0.0	B;B;B;B	0.01281	0.0;0.0;0.0;0.0	T	0.33394	-0.9870	9	0.02654	T	1	.	.	.	.	.	475;468;468;475	E9PFM1;D3DNT2;Q04637;B2RU10	.;.;IF4G1_HUMAN;.	E	468;428;381;468;475;475;409;304;475;381;468;468;475;428;304;304;272;272;272	ENSP00000316879:A468E;ENSP00000391935:A428E;ENSP00000376320:A381E;ENSP00000391412:A468E;ENSP00000413159:A475E;ENSP00000371767:A475E;ENSP00000403269:A409E;ENSP00000317600:A304E;ENSP00000338020:A475E;ENSP00000407682:A381E;ENSP00000343450:A468E;ENSP00000323737:A468E;ENSP00000416255:A475E;ENSP00000395974:A428E;ENSP00000398145:A304E;ENSP00000399858:A304E;ENSP00000411826:A272E;ENSP00000399969:A272E;ENSP00000404754:A272E	ENSP00000323737:A468E	A	+	2	0	EIF4G1	185522469	0.645000	0.27286	0.810000	0.32431	0.154000	0.21943	0.330000	0.19715	0.428000	0.26173	0.121000	0.15741	GCA		0.537	EIF4G1-007	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000345733.1	NM_182917		A	184039775	C	A	184039775	3	1	643	1	0	0	0	0	1	0	0	0	5038	710	25	4	1433	4	EIF4G1	3	184039775	Missense_Mutation	SNP	C	TCGA-KL-8344-01A-11D-2310-10	6	184039775	13982655	17	39796	346	2								
C4orf32	132720	hgsc.bcm.edu	37	chr4	113066760	113066760	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	tgctcagccggggagctgctGcggggcggcgacggcgggga	22	11	1	0			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr4:113066760G>A	ENST00000309733.5	+	1	208	c.24G>A	c.(22-24)ctG>ctA	p.L8L		NM_152400.2	NP_689613.1	Q8N8J7	CD032_HUMAN	chromosome 4 open reading frame 32	8						integral component of membrane (GO:0016021)							Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.00198)		GGGAGCTGCTGCGGggcggcg	0.801																																																0													4	7	6					4																	113066760		1921	3901	5822	SO:0001819	synonymous_variant	132720			AK096689	CCDS3695.1	4q25	2008-02-05			ENSG00000174749	ENSG00000174749			26813	protein-coding gene	gene with protein product						12477932	Standard	NM_152400		Approved	FLJ39370	uc003iah.2	Q8N8J7	OTTHUMG00000132851	ENST00000309733.5:c.24G>A	4.37:g.113066760G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q49A91|Q4W5C7|Q8TBF9	Silent	SNP	ENST00000309733.5	37	CCDS3695.1																																																																																				0.801	C4orf32-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256325.2	NM_152400		A	113066760	G	A	113066760	2	1	643	1	0	0	0	0	0	0	0	1	2264	1306	46	2		2	C4orf32	4	113066760	Silent	SNP	G	TCGA-KL-8344-01A-11D-2310-10		113066760	78087516	18	39797										
KIAA1109	84162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	123160846	123160846	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	gggacaagcagcctgtaacaGttggagtccagtttagtagt	13	7	0	0			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr4:123160846G>A	ENST00000264501.4	+	29	4382	c.4009G>A	c.(4009-4011)Gtt>Att	p.V1337I	KIAA1109_ENST00000455637.1_Missense_Mutation_p.V1337I|KIAA1109_ENST00000495260.1_3'UTR|KIAA1109_ENST00000388738.3_Missense_Mutation_p.V1337I			Q2LD37	K1109_HUMAN	KIAA1109	1337					regulation of cell growth (GO:0001558)|regulation of epithelial cell differentiation (GO:0030856)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)				breast(7)|central_nervous_system(1)|cervix(1)|endometrium(16)|kidney(6)|large_intestine(33)|liver(4)|lung(74)|ovary(9)|pancreas(1)|prostate(5)|skin(6)|upper_aerodigestive_tract(6)|urinary_tract(3)	172						GCCTGTAACAGTTGGAGTCCA	0.453																																																0													113	107	109					4																	123160846		1929	4137	6066	SO:0001583	missense	84162			AL137384	CCDS43267.1	4q28.1	2012-07-09			ENSG00000138688	ENSG00000138688			26953	protein-coding gene	gene with protein product	"fragile site-associated"	611565				16386706	Standard	NM_015312		Approved	FLJ21404, FSA, KIAA1371, Tweek	uc003ieh.3	Q2LD37	OTTHUMG00000150116	ENST00000264501.4:c.4009G>A	4.37:g.123160846G>A	ENSP00000264501:p.Val1337Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W598|Q5CZA9|Q6ZS70|Q6ZV75|Q86XA5|Q8WVD8|Q9H742|Q9NT48|Q9NTC3|Q9NTI4|Q9P2H6|Q9UPP3	Missense_Mutation	SNP	ENST00000264501.4	37	CCDS43267.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	15.00|15.00	2.702329|2.702329	0.48307|0.48307	.|.	.|.	ENSG00000138688|ENSG00000138688	ENST00000424425|ENST00000264501;ENST00000388738;ENST00000455637	.|T;T;T	.|0.24151	.|2.46;2.46;1.87	5.98|5.98	5.98|5.98	0.97165|0.97165	.|.	.|0.167504	.|0.24285	.|U	.|0.039870	T|T	0.16171|0.16171	0.0389|0.0389	N|N	0.08118|0.08118	0|0	0.31861|0.31861	N|N	0.620946|0.620946	.|B	.|0.17038	.|0.02	.|B	.|0.19148	.|0.024	T|T	0.08700|0.08700	-1.0709|-1.0709	5|10	.|0.52906	.|T	.|0.07	.|.	15.204|15.204	0.73162|0.73162	0.0:0.0:0.8592:0.1407|0.0:0.0:0.8592:0.1407	.|.	.|1337	.|Q2LD37	.|K1109_HUMAN	N|I	1168|1337	.|ENSP00000264501:V1337I;ENSP00000373390:V1337I;ENSP00000389925:V1337I	.|ENSP00000264501:V1337I	S|V	+|+	2|1	0|0	KIAA1109|KIAA1109	123380296|123380296	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.960000|0.960000	0.62799|0.62799	7.351000|7.351000	0.79395|0.79395	2.843000|2.843000	0.97960|0.97960	0.650000|0.650000	0.86243|0.86243	AGT|GTT		0.453	KIAA1109-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316415.1	NM_020797		A	123160846	G	A	123160846	3	1	643	1	0	0	0	0	1	0	0	0	8215	1029	36	2	4115	2	KIAA1109	4	123160846	Missense_Mutation	SNP	G	TCGA-KL-8344-01A-11D-2310-10	10094086	123160846	67993430	19	39798										
RASA1	5921	broad.mit.edu	37	chr5	86564705	86564706	+	Frame_Shift_Ins	INS	-	-	G													0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	cccccttacctgccccctttINSgggggcgggcctcgggacag							TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr5:86564705_86564706insG	ENST00000274376.6	+	1	1001_1002	c.437_438insG	c.(436-441)ttggggfs	p.LG146fs	RASA1_ENST00000512763.1_5'Flank|RASA1_ENST00000456692.2_5'Flank|RASA1_ENST00000506290.1_5'Flank	NM_002890.2	NP_002881.1	P20936	RASA1_HUMAN	RAS p21 protein activator (GTPase activating protein) 1	146					blood vessel morphogenesis (GO:0048514)|embryo development (GO:0009790)|intracellular signal transduction (GO:0035556)|mitotic cytokinesis (GO:0000281)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of Ras protein signal transduction (GO:0046580)|positive regulation of Ras GTPase activity (GO:0032320)|regulation of actin filament polymerization (GO:0030833)|regulation of cell shape (GO:0008360)|regulation of RNA metabolic process (GO:0051252)|signal transduction (GO:0007165)|vasculogenesis (GO:0001570)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)|ruffle (GO:0001726)	glycoprotein binding (GO:0001948)|GTPase binding (GO:0051020)|potassium channel inhibitor activity (GO:0019870)|Ras GTPase activator activity (GO:0005099)|receptor binding (GO:0005102)	p.L146S(1)		NS(1)|cervix(1)|endometrium(7)|kidney(4)|large_intestine(12)|lung(13)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	48		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		CTGCCCCCTTTGGGGGCGGGCC	0.624																																																1	Substitution - Missense(1)	large_intestine(1)																																								SO:0001589	frameshift_variant	5921				CCDS34200.1, CCDS47243.1	5q13	2013-02-14			ENSG00000145715	ENSG00000145715		"Pleckstrin homology (PH) domain containing", "SH2 domain containing"	9871	protein-coding gene	gene with protein product	"capillary malformation-arteriovenous malformation"	139150		RASA		15917201	Standard	NM_022650		Approved	GAP, CM-AVM, p120GAP, p120RASGAP	uc003kiw.3	P20936	OTTHUMG00000162605	ENST00000274376.6:c.442dupG	5.37:g.86564710_86564710dupG	ENSP00000274376:p.Leu146fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6W3|Q9UDI1	Frame_Shift_Ins	INS	ENST00000274376.6	37	CCDS34200.1																																																																																				0.624	RASA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000369729.1	NM_002890		G	86564706	-	G	86564705	7	5	643	1	0	1	1	0	0	0	0	0	13073	1821	63	0	439	0	RASA1	5	86564705	Frame_Shift_Ins	INS	-	TCGA-KL-8344-01A-11D-2310-10		86564705	94350555	20	39799										
HAVCR1	26762	ucsc.edu	37	chr5	156479572	156479572	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	ttgtcgttggaacagtcgtcAttggaacagtcgttgtcgtt	12	7	1	0	rs6149307|rs386693994|rs2862716|rs141023871	byFrequency	TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr5:156479572A>G	ENST00000339252.3	-	3	1005	c.473T>C	c.(472-474)aTg>aCg	p.M158T	HAVCR1_ENST00000523175.1_Missense_Mutation_p.M158T|HAVCR1_ENST00000544197.1_Missense_Mutation_p.M158T|HAVCR1_ENST00000425854.1_Missense_Mutation_p.M158T|HAVCR1_ENST00000522693.1_Missense_Mutation_p.M158T	NM_012206.2	NP_036338.2	Q96D42	HAVR1_HUMAN	hepatitis A virus cellular receptor 1	0	11 X 6 AA approximate tandem repeats of V-P-T-T-T-T].|Thr-rich.				viral process (GO:0016032)	integral component of membrane (GO:0016021)	virus receptor activity (GO:0001618)			endometrium(3)|large_intestine(2)|lung(17)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	28	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AACAGTCGTCATTGGAACAGT	0.488																																																0													415	305	343					5																	156479572		2083	3969	6052	SO:0001583	missense	26762			AF043724	CCDS43392.1	5q33.2	2014-01-14			ENSG00000113249	ENSG00000113249		"Immunoglobulin superfamily / V-set domain containing"	17866	protein-coding gene	gene with protein product	"T-cell immunoglobulin mucin family member 1"	606518				9658108, 11725301	Standard	NM_012206		Approved	HAVCR-1, TIM-1, TIM1, HAVCR, TIMD1	uc021ygj.1	Q96D42	OTTHUMG00000163466	ENST00000339252.3:c.473T>C	5.37:g.156479572A>G	ENSP00000344844:p.Met158Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O43656	Missense_Mutation	SNP	ENST00000339252.3	37	CCDS43392.1	.	.	.	.	.	.	.	.	.	.	a	0	-2.643576	0.00111	.	.	ENSG00000113249	ENST00000522693;ENST00000523175;ENST00000339252;ENST00000425854;ENST00000544197;ENST00000518745	T;T;T;T;T;T	0.13196	2.61;2.65;2.65;2.61;2.65;2.67	1.56	-3.12	0.05282	.	.	.	.	.	T	0.03915	0.0110	N	0.08118	0	0.09310	N	1	.	.	.	.	.	.	T	0.35201	-0.9798	7	0.02654	T	1	.	1.0652	0.01609	0.1371:0.2458:0.3087:0.3084	rs2862716	.	.	.	T	158	ENSP00000428524:M158T;ENSP00000427898:M158T;ENSP00000344844:M158T;ENSP00000403333:M158T;ENSP00000440258:M158T;ENSP00000428422:M158T	ENSP00000344844:M158T	M	-	2	0	HAVCR1	156412150	0.002000	0.14202	0.000000	0.03702	0.002000	0.02628	0.922000	0.28734	-2.668000	0.00415	-0.551000	0.04211	ATG		0.488	HAVCR1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373698.1			G	156479572	A	G	156479572	3	3	643	1	0	0	0	0	1	0	0	0	6980	217	8	3	645	3	HAVCR1	5	156479572	Missense_Mutation	SNP	A	TCGA-KL-8344-01A-11D-2310-10	69914867	156479572	24435688	21	39800										
EHMT2	10919	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr6	31848534	31848534	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	cttggtgcagcatgaagaccCggacgggaatgatgttgggg	17	7	0	3			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr6:31848534C>A	ENST00000375537.4	-	27	3374	c.3368G>T	c.(3367-3369)cGg>cTg	p.R1123L	EHMT2_ENST00000395728.3_Missense_Mutation_p.R1180L|EHMT2_ENST00000480912.1_5'UTR|SLC44A4_ENST00000229729.6_5'Flank|EHMT2_ENST00000375528.4_Missense_Mutation_p.R1146L|EHMT2_ENST00000375530.4_Missense_Mutation_p.R1089L|SLC44A4_ENST00000375562.4_5'Flank|SLC44A4_ENST00000465707.1_5'Flank	NM_006709.3	NP_006700.3	Q96KQ7	EHMT2_HUMAN	euchromatic histone-lysine N-methyltransferase 2	1123	SET. {ECO:0000255|PROSITE- ProRule:PRU00190}.				DNA methylation (GO:0006306)|DNA methylation on cytosine within a CG sequence (GO:0010424)|fertilization (GO:0009566)|histone methylation (GO:0016571)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|organ growth (GO:0035265)|peptidyl-lysine dimethylation (GO:0018027)|regulation of DNA replication (GO:0006275)|spermatid development (GO:0007286)|synaptonemal complex assembly (GO:0007130)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	C2H2 zinc finger domain binding (GO:0070742)|histone methyltransferase activity (H3-K27 specific) (GO:0046976)|histone methyltransferase activity (H3-K9 specific) (GO:0046974)|histone-lysine N-methyltransferase activity (GO:0018024)|p53 binding (GO:0002039)|protein-lysine N-methyltransferase activity (GO:0016279)|zinc ion binding (GO:0008270)			central_nervous_system(1)|cervix(2)|kidney(2)|large_intestine(3)|lung(6)|ovary(2)|prostate(4)|upper_aerodigestive_tract(1)	21						CATGAAGACCCGGACGGGAAT	0.567																																																0													169	131	144					6																	31848534		2203	4300	6503	SO:0001583	missense	10919			AF134726	CCDS4725.1, CCDS4726.1, CCDS75425.1	6p21.3	2013-01-10	2004-03-22	2005-06-09	ENSG00000204371	ENSG00000204371	2.1.1.43	"Chromatin-modifying enzymes / K-methyltransferases", "Ankyrin repeat domain containing"	14129	protein-coding gene	gene with protein product		604599	"chromosome 6 open reading frame 30", "HLA-B associated transcript 8"	C6orf30, BAT8		8457211, 11316813	Standard	XM_005274833		Approved	G9A, Em:AF134726.3, NG36/G9a, KMT1C	uc003nxz.1	Q96KQ7	OTTHUMG00000031180	ENST00000375537.4:c.3368G>T	6.37:g.31848534C>A	ENSP00000364687:p.Arg1123Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B0UZY2|Q14349|Q5JP83|Q5JQ92|Q5JQA1|Q5JQG3|Q6PK06|Q96MH5|Q96QD0|Q9UQL8|Q9Y331	Missense_Mutation	SNP	ENST00000375537.4	37	CCDS4725.1	.	.	.	.	.	.	.	.	.	.	C	21.9	4.217511	0.79352	.	.	ENSG00000204371	ENST00000395728;ENST00000375528;ENST00000375530;ENST00000375537;ENST00000442298	T;T;T;T	0.80824	-1.42;-1.42;-1.42;-1.42	4.21	4.21	0.49690	SET domain (3);	0.000000	0.64402	D	0.000001	D	0.86053	0.5841	M	0.69358	2.11	0.80722	D	1	P;P;D;D	0.76494	0.683;0.75;0.995;0.999	B;P;P;D	0.72982	0.308;0.515;0.738;0.979	D	0.87823	0.2639	10	0.87932	D	0	.	15.8428	0.78864	0.0:1.0:0.0:0.0	.	1146;1089;1123;944	A2ABF8;Q96KQ7-2;Q96KQ7;Q59FM7	.;.;EHMT2_HUMAN;.	L	1180;1146;1089;1123;944	ENSP00000379078:R1180L;ENSP00000364678:R1146L;ENSP00000364680:R1089L;ENSP00000364687:R1123L	ENSP00000364678:R1146L	R	-	2	0	EHMT2	31956513	1.000000	0.71417	0.998000	0.56505	0.998000	0.95712	7.194000	0.77789	2.355000	0.79922	0.561000	0.74099	CGG		0.567	EHMT2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000076355.5	NM_006709		A	31848534	C	A	31848534	3	1	643	1	0	0	0	0	1	0	0	0	4986	652	23	4	272	4	EHMT2	6	31848534	Missense_Mutation	SNP	C	TCGA-KL-8344-01A-11D-2310-10		31848534	139266533	22	39801										
TTBK1	84630	ucsc.edu;bcgsc.ca	37	chr6	43230987	43230987	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	agggcgatggccgttccgagAcgtcacagccccccacgcct	12	17	1	1			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr6:43230987A>G	ENST00000259750.4	+	13	1968	c.1885A>G	c.(1885-1887)Acg>Gcg	p.T629A	TTBK1_ENST00000304139.5_Missense_Mutation_p.T578A	NM_032538.1	NP_115927.1	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	629					substantia nigra development (GO:0021762)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(10)|liver(1)|lung(21)|ovary(3)|prostate(3)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	53			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			CCGTTCCGAGACGTCACAGCC	0.716																																																0													13	13	13					6																	43230987		2172	4263	6435	SO:0001583	missense	84630			AB058758	CCDS34455.1	6p21.1	2008-02-05			ENSG00000146216	ENSG00000146216			19140	protein-coding gene	gene with protein product						11347906	Standard	XM_006715229		Approved	KIAA1855	uc003ouq.1	Q5TCY1	OTTHUMG00000014725	ENST00000259750.4:c.1885A>G	6.37:g.43230987A>G	ENSP00000259750:p.Thr629Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2U5|Q2L6C6|Q6ZNH0|Q8N444|Q96JH2	Missense_Mutation	SNP	ENST00000259750.4	37	CCDS34455.1	.	.	.	.	.	.	.	.	.	.	A	8.995	0.978679	0.18812	.	.	ENSG00000146216	ENST00000259750	T	0.26373	1.74	5.03	2.44	0.29823	.	0.606227	0.16970	N	0.192123	T	0.02610	0.0079	N	0.08118	0	0.80722	D	1	P;B	0.37500	0.597;0.062	B;B	0.31614	0.133;0.017	T	0.25467	-1.0131	10	0.05721	T	0.95	.	7.0043	0.24828	0.7468:0.1613:0.0919:0.0	.	152;629	Q9H6N8;Q5TCY1	.;TTBK1_HUMAN	A	629	ENSP00000259750:T629A	ENSP00000259750:T629A	T	+	1	0	TTBK1	43338965	0.863000	0.29885	0.934000	0.37439	0.385000	0.30292	0.798000	0.27014	0.765000	0.33221	0.460000	0.39030	ACG		0.716	TTBK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040584.3			G	43230987	A	G	43230987	3	3	643	1	0	0	0	0	1	0	0	0	16688	275	10	3	1931	3	TTBK1	6	43230987	Missense_Mutation	SNP	A	TCGA-KL-8344-01A-11D-2310-10	11382453	43230987	127884080	23	39802										
SENP6	26054	broad.mit.edu	37	chr6	76386858	76386858	+	Frame_Shift_Del	DEL	T	T	-													0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	ataaagaataacatctccaaTttttttgcgaaaattccctt							TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr6:76386858delT	ENST00000447266.2	+	14	2212	c.1734delT	c.(1732-1734)aatfs	p.N578fs	SENP6_ENST00000541192.1_Frame_Shift_Del_p.N174fs|SENP6_ENST00000370010.2_Frame_Shift_Del_p.N571fs|SENP6_ENST00000370014.3_Frame_Shift_Del_p.N578fs|SENP6_ENST00000327284.8_Frame_Shift_Del_p.N571fs	NM_015571.2	NP_056386.2	Q9GZR1	SENP6_HUMAN	SUMO1/sentrin specific peptidase 6	578					protein desumoylation (GO:0016926)|protein modification by small protein removal (GO:0070646)|protein sumoylation (GO:0016925)|regulation of kinetochore assembly (GO:0090234)|regulation of spindle assembly (GO:0090169)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	SUMO-specific protease activity (GO:0016929)			breast(2)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(2)|lung(12)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	27		all_hematologic(105;0.189)				ACATCTCCAATTTTTTTGCGA	0.328																																																0													34	33	33					6																	76386858		1807	4066	5873	SO:0001589	frameshift_variant	26054				CCDS43483.1, CCDS47454.1	6q13-q14.3	2008-02-05	2005-08-17		ENSG00000112701	ENSG00000112701			20944	protein-coding gene	gene with protein product		605003	"SUMO1/sentrin specific protease 6"				Standard	NM_015571		Approved	SUSP1, KIAA0797	uc003pid.4	Q9GZR1	OTTHUMG00000015060	ENST00000447266.2:c.1734delT	6.37:g.76386858delT	ENSP00000402527:p.Asn578fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNY9|O94891|Q5VUL3|Q5VUL4|Q8TBY4|Q9UJV5	Frame_Shift_Del	DEL	ENST00000447266.2	37	CCDS47454.1																																																																																				0.328	SENP6-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000041272.2	NM_015571		-	76386858	T	-	76386858	7	5	643	1	0	1	0	1	0	0	0	0	14063	1490	52	0	1788	0	SENP6	6	76386858	Frame_Shift_Del	DEL	T	TCGA-KL-8344-01A-11D-2310-10	33155871	76386858	94728209	24	39803										
SESN1	27244	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr6	109315685	109315685	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	ctgaagagaagacaaacataCtctctcttttttctatttca	4	9	4	3			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr6:109315685C>A	ENST00000356644.7	-	6	1017	c.923G>T	c.(922-924)aGt>aTt	p.S308I	SESN1_ENST00000302071.2_Missense_Mutation_p.S242I|SESN1_ENST00000436639.2_Missense_Mutation_p.S367I	NM_001199933.1	NP_001186862.1	Q9Y6P5	SESN1_HUMAN	sestrin 1	308					cell cycle arrest (GO:0007050)|cellular response to DNA damage stimulus (GO:0006974)|negative regulation of cell proliferation (GO:0008285)|regulation of protein kinase B signaling (GO:0051896)|regulation of response to reactive oxygen species (GO:1901031)	nucleus (GO:0005634)				cervix(1)|large_intestine(3)|lung(3)|ovary(1)|skin(1)|urinary_tract(1)	10		all_cancers(87;6.45e-05)|Acute lymphoblastic leukemia(125;3.55e-10)|all_hematologic(75;1.68e-07)|all_epithelial(87;0.0106)|Colorectal(196;0.0637)		Epithelial(106;0.0014)|BRCA - Breast invasive adenocarcinoma(108;0.00146)|all cancers(137;0.0031)|OV - Ovarian serous cystadenocarcinoma(136;0.0117)		GACAAACATACTCTCTCTTTT	0.338																																																0													137	123	128					6																	109315685		2203	4299	6502	SO:0001583	missense	27244			AF033120	CCDS5070.1, CCDS56444.1, CCDS56445.1	6q21	2008-10-23			ENSG00000080546	ENSG00000080546			21595	protein-coding gene	gene with protein product		606103				9926927, 7938006	Standard	NM_014454		Approved	SEST1, PA26	uc003psu.3	Q9Y6P5	OTTHUMG00000015338	ENST00000356644.7:c.923G>T	6.37:g.109315685C>A	ENSP00000349061:p.Ser308Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M2B7|Q5T316|Q9NV00|Q9UPD5|Q9Y6P6	Missense_Mutation	SNP	ENST00000356644.7	37	CCDS56445.1	.	.	.	.	.	.	.	.	.	.	C	22.5	4.297729	0.81025	.	.	ENSG00000080546	ENST00000436639;ENST00000302071;ENST00000356644	T;T;T	0.24350	1.86;1.86;1.86	5.81	5.81	0.92471	.	0.036231	0.85682	D	0.000000	T	0.34832	0.0911	M	0.86953	2.85	0.80722	D	1	P;P	0.48016	0.904;0.611	P;B	0.45829	0.494;0.425	T	0.30475	-0.9977	10	0.38643	T	0.18	-50.3162	20.0912	0.97820	0.0:1.0:0.0:0.0	.	367;308	Q9Y6P5-2;Q9Y6P5	.;SESN1_HUMAN	I	367;242;308	ENSP00000393762:S367I;ENSP00000306734:S242I;ENSP00000349061:S308I	ENSP00000306734:S242I	S	-	2	0	SESN1	109422378	1.000000	0.71417	1.000000	0.80357	0.444000	0.32077	7.487000	0.81328	2.746000	0.94184	0.591000	0.81541	AGT		0.338	SESN1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000041738.4	NM_014454		A	109315685	C	A	109315685	3	1	643	1	0	0	0	0	1	0	0	0	14137	565	20	4	575	4	SESN1	6	109315685	Missense_Mutation	SNP	C	TCGA-KL-8344-01A-11D-2310-10	32928827	109315685	61799382	25	39804										
CCDC28A	25901	bcgsc.ca	37	chr6	139101036	139101036	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	tccgatccagcactccttccTcactgatgtctcagatgttc	6	15	2	2			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr6:139101036T>C	ENST00000332797.6	+	3	661	c.506T>C	c.(505-507)cTc>cCc	p.L169P		NM_015439.2	NP_056254.1	Q8IWP9	CC28A_HUMAN	coiled-coil domain containing 28A	169										autonomic_ganglia(1)|large_intestine(3)|lung(8)|ovary(1)	13				OV - Ovarian serous cystadenocarcinoma(155;0.000201)|GBM - Glioblastoma multiforme(68;0.000306)		CACTCCTTCCTCACTGATGTC	0.458																																																0													125	114	118					6																	139101036		2203	4300	6503	SO:0001583	missense	25901			AY167571	CCDS5192.1	6q23.1-q24.1	2008-02-05	2005-09-12	2005-09-12	ENSG00000024862	ENSG00000024862			21098	protein-coding gene	gene with protein product		615353	"chromosome 6 open reading frame 80"	C6orf80			Standard	NM_015439		Approved	CCRL1AP, DKFZp586D0623	uc003qie.3	Q8IWP9	OTTHUMG00000015683	ENST00000332797.6:c.506T>C	6.37:g.139101036T>C	ENSP00000332716:p.Leu169Pro	Somatic		WXS	Illumina HiSeq	Phase_I	E1P591|Q32NC7|Q66K67|Q96E23|Q9Y430	Missense_Mutation	SNP	ENST00000332797.6	37	CCDS5192.1	.	.	.	.	.	.	.	.	.	.	T	24.4	4.527689	0.85706	.	.	ENSG00000024862	ENST00000332797;ENST00000026464	T	0.39229	1.09	5.96	5.96	0.96718	.	0.000000	0.85682	D	0.000000	T	0.55924	0.1951	M	0.61703	1.905	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	T	0.60692	-0.7213	10	0.87932	D	0	-13.6279	16.4381	0.83884	0.0:0.0:0.0:1.0	.	169	Q8IWP9	CC28A_HUMAN	P	169;56	ENSP00000332716:L169P	ENSP00000026464:L56P	L	+	2	0	CCDC28A	139142729	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.650000	0.83521	2.280000	0.76307	0.533000	0.62120	CTC		0.458	CCDC28A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042444.1	NM_015439		C	139101036	T	C	139101036	3	2	643	1	0	0	0	0	1	0	0	0	2804	1551	54	3	516	3	CCDC28A	6	139101036	Missense_Mutation	SNP	T	TCGA-KL-8344-01A-11D-2310-10	29785351	139101036	32014031	26	39805										
PCLO	27445	broad.mit.edu	37	chr7	82579183	82579183	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	gatattgaggactttgtgtgTctgaatctgcttctgtttga	11	5	3	3	rs201013392		TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr7:82579183T>C	ENST00000333891.9	-	6	11058	c.10721A>G	c.(10720-10722)gAc>gGc	p.D3574G	PCLO_ENST00000437081.1_Missense_Mutation_p.D294G|PCLO_ENST00000423517.2_Missense_Mutation_p.D3574G	NM_033026.5	NP_149015.2			piccolo presynaptic cytomatrix protein											breast(3)|central_nervous_system(3)|cervix(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(3)|kidney(19)|large_intestine(35)|lung(145)|ovary(7)|prostate(4)|upper_aerodigestive_tract(14)|urinary_tract(2)	259						ACTTTGTGTGTCTGAATCTGC	0.443																																																0								T	GLY/ASP,GLY/ASP	0,4076		0,0,2038	190	183	185		10721,10721	5.7	1	7		185	2,8374		0,2,4186	yes	missense,missense	PCLO	NM_014510.2,NM_033026.5	94,94	0,2,6224	CC,CT,TT		0.0239,0.0,0.0161	probably-damaging,probably-damaging	3574/4936,3574/5143	82579183	2,12450	2038	4188	6226	SO:0001583	missense	27445			AB011131	CCDS47630.1, CCDS47631.1	7q11.23-q21.3	2013-01-07	2013-01-07		ENSG00000186472	ENSG00000186472			13406	protein-coding gene	gene with protein product	"aczonin"	604918	"piccolo (presynaptic cytomatrix protein)"			8900486, 9628581	Standard	NM_014510		Approved	KIAA0559, DKFZp779G1236, ACZ	uc003uhx.2	Q9Y6V0	OTTHUMG00000154853	ENST00000333891.9:c.10721A>G	7.37:g.82579183T>C	ENSP00000334319:p.Asp3574Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000333891.9	37	CCDS47630.1	.	.	.	.	.	.	.	.	.	.	T	12.24	1.878485	0.33162	0.0	2.39E-4	ENSG00000186472	ENST00000431819;ENST00000333891;ENST00000423517;ENST00000437081	T;T	0.17528	2.29;2.27	5.72	5.72	0.89469	.	.	.	.	.	T	0.35770	0.0943	L	0.50333	1.59	0.51012	D	0.999901	B;D;D	0.63046	0.2;0.992;0.992	B;D;D	0.65233	0.161;0.933;0.933	T	0.05338	-1.0891	9	0.87932	D	0	.	16.007	0.80370	0.0:0.0:0.0:1.0	.	3505;3574;3574	Q9Y6V0;Q9Y6V0-5;Q9Y6V0-6	PCLO_HUMAN;.;.	G	3505;3574;3574;294	ENSP00000334319:D3574G;ENSP00000388393:D3574G	ENSP00000334319:D3574G	D	-	2	0	PCLO	82417119	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.779000	0.85648	2.182000	0.69389	0.533000	0.62120	GAC		0.443	PCLO-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337368.5	NM_014510		C	82579183	T	C	82579183	3	2	643	1	0	0	0	0	1	0	0	0	11590	1667	58	3	4804	3	PCLO	7	82579183	Missense_Mutation	SNP	T	TCGA-KL-8344-01A-11D-2310-10		82579183	76559480	27	39806										
ANKIB1	54467	bcgsc.ca	37	chr7	91948698	91948698	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	agaatgaaaataaagatactCcttgtgattgtgctgaaaag	9	4	0	5			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr7:91948698C>T	ENST00000265742.3	+	4	917	c.541C>T	c.(541-543)Cct>Tct	p.P181S		NM_019004.1	NP_061877.1	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	181							zinc ion binding (GO:0008270)			cervix(1)|endometrium(7)|kidney(3)|large_intestine(10)|lung(19)|skin(1)	41	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TAAAGATACTCCTTGTGATTG	0.368																																																0													64	62	63					7																	91948698		1826	4072	5898	SO:0001583	missense	54467			AB037807	CCDS47639.1	7q21.3	2013-01-10			ENSG00000001629	ENSG00000001629		"Ankyrin repeat domain containing"	22215	protein-coding gene	gene with protein product							Standard	NM_019004		Approved	DKFZP434A0225, KIAA1386	uc003ulw.2	Q9P2G1	OTTHUMG00000155859	ENST00000265742.3:c.541C>T	7.37:g.91948698C>T	ENSP00000265742:p.Pro181Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GMS4|Q6P3S9|Q9NTD7|Q9NW49	Missense_Mutation	SNP	ENST00000265742.3	37	CCDS47639.1	.	.	.	.	.	.	.	.	.	.	C	25.0	4.588499	0.86851	.	.	ENSG00000001629	ENST00000265742	T	0.60920	0.15	4.77	4.77	0.60923	Ankyrin repeat-containing domain (4);	0.000000	0.85682	D	0.000000	T	0.78483	0.4290	M	0.83118	2.625	0.58432	D	0.999999	D	0.89917	1.0	D	0.79784	0.993	T	0.81883	-0.0728	10	0.72032	D	0.01	.	18.3268	0.90256	0.0:1.0:0.0:0.0	.	181	Q9P2G1	AKIB1_HUMAN	S	181	ENSP00000265742:P181S	ENSP00000265742:P181S	P	+	1	0	ANKIB1	91786634	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	7.224000	0.78042	2.628000	0.89032	0.655000	0.94253	CCT		0.368	ANKIB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342018.1			T	91948698	C	T	91948698	3	4	643	1	0	0	0	0	1	0	0	0	630	855	30	2	551	2	ANKIB1	7	91948698	Missense_Mutation	SNP	C	TCGA-KL-8344-01A-11D-2310-10	9369515	91948698	67189965	28	39807										
RB1CC1	9821	broad.mit.edu	37	chr8	53586752	53586752	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	ttcaggtaaagaatccagtcTtcccaaacattctctgtaac	5	11	3	1			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr8:53586752T>C	ENST00000025008.5	-	7	1178	c.655A>G	c.(655-657)Aga>Gga	p.R219G	RB1CC1_ENST00000539297.1_Missense_Mutation_p.R219G|RB1CC1_ENST00000435644.2_Missense_Mutation_p.R219G|RB1CC1_ENST00000521611.1_Intron	NM_014781.4	NP_055596.3	Q8TDY2	RBCC1_HUMAN	RB1-inducible coiled-coil 1	219					autophagic vacuole assembly (GO:0000045)|cell cycle (GO:0007049)|heart development (GO:0007507)|JNK cascade (GO:0007254)|liver development (GO:0001889)|negative regulation of apoptotic process (GO:0043066)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|positive regulation of cell size (GO:0045793)|positive regulation of protein phosphorylation (GO:0001934)|regulation of autophagy (GO:0010506)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nuclear membrane (GO:0031965)|pre-autophagosomal structure membrane (GO:0034045)|ULK1-ATG13-FIP200 complex (GO:0070969)				NS(2)|cervix(2)|endometrium(6)|kidney(4)|large_intestine(9)|lung(19)|ovary(8)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)	60		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				GAATCCAGTCTTCCCAAACAT	0.403																																					GBM(180;1701 2102 13475 42023 52570)											0													184	177	179					8																	53586752		2203	4300	6503	SO:0001583	missense	9821			AB059622	CCDS34892.1, CCDS47856.1	8q11	2014-06-13				ENSG00000023287			15574	protein-coding gene	gene with protein product	"200 kDa FAK family kinase-interacting protein", "phosphatase 1, regulatory subunit 131"	606837				11850849, 7724523, 18443221	Standard	NM_014781		Approved	KIAA0203, Cc1, DRAGOU14, FIP200, ATG17, PPP1R131	uc003xre.4	Q8TDY2		ENST00000025008.5:c.655A>G	8.37:g.53586752T>C	ENSP00000025008:p.Arg219Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q86YR4|Q8WVU9|Q92601	Missense_Mutation	SNP	ENST00000025008.5	37	CCDS34892.1	.	.	.	.	.	.	.	.	.	.	T	18.72	3.683988	0.68157	.	.	ENSG00000023287	ENST00000025008;ENST00000435644;ENST00000539297	T;T;T	0.15834	2.39;2.39;2.39	5.36	5.36	0.76844	.	0.065424	0.64402	D	0.000004	T	0.23727	0.0574	L	0.38175	1.15	0.50039	D	0.999845	P;P	0.52316	0.952;0.919	P;P	0.53360	0.724;0.534	T	0.00792	-1.1564	10	0.62326	D	0.03	-19.8011	12.2052	0.54348	0.0:0.0:0.1423:0.8577	.	219;219	Q8TDY2-2;Q8TDY2	.;RBCC1_HUMAN	G	219	ENSP00000025008:R219G;ENSP00000396067:R219G;ENSP00000445960:R219G	ENSP00000025008:R219G	R	-	1	2	RB1CC1	53749305	1.000000	0.71417	1.000000	0.80357	0.959000	0.62525	3.830000	0.55768	2.151000	0.67156	0.383000	0.25322	AGA		0.403	RB1CC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000378011.1	NM_014781		C	53586752	T	C	53586752	3	2	643	1	0	0	0	0	1	0	0	0	13112	1617	56	3	4201	3	RB1CC1	8	53586752	Missense_Mutation	SNP	T	TCGA-KL-8344-01A-11D-2310-10		53586752	92777270	29	39808										
ODF1	4956	ucsc.edu;mdanderson.org	37	chr8	103573033	103573033	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	caacccctgcagcccctgcaAcccgtgcagcccatatgatc	7	19	0	1	rs143802899|rs568456031|rs377699584|rs62523272|rs386728348|rs58232162	byFrequency	TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr8:103573033A>G	ENST00000285402.3	+	2	830	c.674A>G	c.(673-675)aAc>aGc	p.N225S	ODF1_ENST00000518835.1_Missense_Mutation_p.N18S	NM_024410.3	NP_077721.2	Q14990	ODFP1_HUMAN	outer dense fiber of sperm tails 1	225	C-X-P repeat region.		Missing. {ECO:0000269|PubMed:8111388}.		cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	nucleus (GO:0005634)|outer dense fiber (GO:0001520)		p.C218_P226delCNPCSPCNP(1)		NS(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(6)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	20	all_cancers(14;2.76e-05)|all_epithelial(15;4.54e-08)|Lung NSC(17;4.08e-05)|all_lung(17;9.15e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000125)|STAD - Stomach adenocarcinoma(118;0.0826)			agcccctgcaacccgtgcagc	0.557																																																1	Deletion - In frame(1)	haematopoietic_and_lymphoid_tissue(1)											63	60	61					8																	103573033		2183	4220	6403	SO:0001583	missense	4956			M93131	CCDS6293.1	8q22	2011-09-05	2002-10-21		ENSG00000155087	ENSG00000155087		"Heat shock proteins / HSPB"	8113	protein-coding gene	gene with protein product	"cancer/testis antigen 133"	182878	"outer dense fibre of sperm tails 1"			8305202	Standard	NM_024410		Approved	ODFPG, ODF27, RT7, HSPB10, CT133	uc003ykt.2	Q14990	OTTHUMG00000164719	ENST00000285402.3:c.674A>G	8.37:g.103573033A>G	ENSP00000285402:p.Asn225Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q3SX72	Missense_Mutation	SNP	ENST00000285402.3	37	CCDS6293.1	217	0.09935897435897435	29	0.05894308943089431	49	0.13535911602209943	79	0.1381118881118881	60	0.079155672823219	G	0.005	-2.144154	0.00332	.	.	ENSG00000155087	ENST00000285402;ENST00000518835	D;T	0.85088	-1.94;2.08	5.44	-0.902	0.10537	.	0.544159	0.18593	N	0.136697	T	0.01124	0.0037	L	0.38175	1.15	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.04930	-1.0917	10	0.02654	T	1	-14.2311	6.4233	0.21756	0.4671:0.128:0.4049:0.0	rs62523272	225	Q14990	ODFP1_HUMAN	S	225;18	ENSP00000285402:N225S;ENSP00000430023:N18S	ENSP00000285402:N225S	N	+	2	0	ODF1	103642209	0.011000	0.17503	0.007000	0.13788	0.007000	0.05969	0.064000	0.14437	-0.321000	0.08627	-0.128000	0.14901	AAC		0.557	ODF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379884.1			G	103573033	A	G	103573033	3	3	643	1	0	0	0	0	1	0	0	0	10833	43	2	3	680	3	ODF1	8	103573033	Missense_Mutation	SNP	A	TCGA-KL-8344-01A-11D-2310-10	49986281	103573033	42790989	30	39809										
SYBU	55638	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr8	110587964	110587964	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	cacatggaaagtctaggcacAgttcgtccctcagagagcca	10	12	2	1			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr8:110587964A>T	ENST00000422135.1	-	8	1678	c.1163T>A	c.(1162-1164)cTg>cAg	p.L388Q	SYBU_ENST00000424158.2_Missense_Mutation_p.L393Q|SYBU_ENST00000529690.1_Missense_Mutation_p.L258Q|SYBU_ENST00000528647.1_Missense_Mutation_p.L387Q|SYBU_ENST00000399066.3_Missense_Mutation_p.L385Q|SYBU_ENST00000433638.1_Missense_Mutation_p.L388Q|SYBU_ENST00000533895.1_Missense_Mutation_p.L387Q|SYBU_ENST00000529175.1_Missense_Mutation_p.L182Q|SYBU_ENST00000408908.2_Missense_Mutation_p.L388Q|SYBU_ENST00000533171.1_Missense_Mutation_p.L388Q|SYBU_ENST00000440310.1_Missense_Mutation_p.L388Q|SYBU_ENST00000532779.1_Missense_Mutation_p.L320Q|SYBU_ENST00000533065.1_Missense_Mutation_p.L269Q|SYBU_ENST00000446070.2_Missense_Mutation_p.L387Q|SYBU_ENST00000528331.1_Missense_Mutation_p.L269Q|SYBU_ENST00000276646.9_Missense_Mutation_p.L388Q|SYBU_ENST00000527707.1_5'Flank|SYBU_ENST00000408889.3_Missense_Mutation_p.L269Q|SYBU_ENST00000419099.1_Missense_Mutation_p.L387Q	NM_001099744.1	NP_001093214.1	Q9NX95	SYBU_HUMAN	syntabulin (syntaxin-interacting)	388	Sufficient for interaction with KIF5B.|Sufficient for interaction with STX1A.				regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0061178)	cytoplasmic vesicle (GO:0031410)|cytoskeleton (GO:0005856)|dense body (GO:0097433)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)				NS(1)|breast(4)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(2)|lung(13)|ovary(1)|pancreas(1)|prostate(1)|urinary_tract(1)	30						GTCTAGGCACAGTTCGTCCCT	0.483																																																0													74	79	77					8																	110587964		1982	4165	6147	SO:0001583	missense	55638			AB040905	CCDS43763.1, CCDS43764.1, CCDS47912.1, CCDS55271.1	8q23.2	2010-08-27				ENSG00000147642			26011	protein-coding gene	gene with protein product	"syntaphilin-like"	611568				17611281, 16750881, 16157705, 15656992, 15459722	Standard	NM_001099743		Approved	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL	uc003ynj.4	Q9NX95		ENST00000422135.1:c.1163T>A	8.37:g.110587964A>T	ENSP00000407118:p.Leu388Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K354|B3KQX3|B3KU61|Q5R1T1|Q5R1T2|Q5R1T3|Q5Y2M6|Q8ND49|Q8TCR6|Q96D80|Q9P256	Missense_Mutation	SNP	ENST00000422135.1	37	CCDS47912.1	.	.	.	.	.	.	.	.	.	.	A	10.54	1.378544	0.24944	.	.	ENSG00000147642	ENST00000533895;ENST00000424158;ENST00000532779;ENST00000399066;ENST00000446070;ENST00000528331;ENST00000529175;ENST00000276646;ENST00000528647;ENST00000422135;ENST00000419099;ENST00000433638;ENST00000408908;ENST00000440310;ENST00000408889;ENST00000533065;ENST00000529690;ENST00000533171	.	.	.	5.89	4.62	0.57501	.	0.488467	0.22308	N	0.061771	T	0.34919	0.0914	L	0.41824	1.3	0.32015	N	0.601572	B;B;B;B;B	0.20052	0.041;0.041;0.016;0.041;0.041	B;B;B;B;B	0.16722	0.011;0.016;0.015;0.011;0.011	T	0.35968	-0.9767	9	0.38643	T	0.18	-16.3088	6.0956	0.20019	0.7296:0.0:0.0841:0.1863	.	258;320;387;388;385	B7Z4D2;Q9NX95-2;Q9NX95-3;Q9NX95;Q9NX95-4	.;.;.;SYBU_HUMAN;.	Q	387;393;320;385;387;269;182;388;387;388;387;388;388;388;269;269;258;388	.	ENSP00000276646:L388Q	L	-	2	0	SYBU	110657140	0.868000	0.29978	1.000000	0.80357	0.898000	0.52572	1.700000	0.37815	2.251000	0.74343	0.482000	0.46254	CTG		0.483	SYBU-204	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000385501.1	NM_017786		T	110587964	A	T	110587964	3	4	643	1	0	0	0	0	1	0	0	0	15439	188	7	5	832	5	SYBU	8	110587964	Missense_Mutation	SNP	A	TCGA-KL-8344-01A-11D-2310-10	7014931	110587964	35776058	31	39810										
JAK2	3717	ucsc.edu	37	chr9	5073722	5073722	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	tctttgaagcagcaagtatgAtgagcaagctttctcacaag	9	8	2	3			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr9:5073722A>G	ENST00000381652.3	+	14	2295	c.1801A>G	c.(1801-1803)Atg>Gtg	p.M601V	JAK2_ENST00000544510.1_Missense_Mutation_p.M452V|JAK2_ENST00000539801.1_Missense_Mutation_p.M601V	NM_004972.3	NP_004963.1	O60674	JAK2_HUMAN	Janus kinase 2	601	Protein kinase 1. {ECO:0000255|PROSITE- ProRule:PRU00159}.				actin filament polymerization (GO:0030041)|activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|activation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway (GO:0097296)|activation of JAK2 kinase activity (GO:0042977)|activation of MAPKK activity (GO:0000186)|apoptotic process (GO:0006915)|axon regeneration (GO:0031103)|blood coagulation (GO:0007596)|cell differentiation (GO:0030154)|cellular component movement (GO:0006928)|cytokine-mediated signaling pathway (GO:0019221)|enzyme linked receptor protein signaling pathway (GO:0007167)|erythrocyte differentiation (GO:0030218)|extrinsic apoptotic signaling pathway (GO:0097191)|G-protein coupled receptor signaling pathway (GO:0007186)|growth hormone receptor signaling pathway (GO:0060396)|histone H3-Y41 phosphorylation (GO:0035409)|hormone-mediated signaling pathway (GO:0009755)|host programmed cell death induced by symbiont (GO:0034050)|interferon-gamma-mediated signaling pathway (GO:0060333)|interleukin-12-mediated signaling pathway (GO:0035722)|intracellular signal transduction (GO:0035556)|intrinsic apoptotic signaling pathway in response to oxidative stress (GO:0008631)|JAK-STAT cascade (GO:0007259)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|mammary gland epithelium development (GO:0061180)|mesoderm development (GO:0007498)|mineralocorticoid receptor signaling pathway (GO:0031959)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of DNA binding (GO:0043392)|negative regulation of heart contraction (GO:0045822)|negative regulation of neuron apoptotic process (GO:0043524)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell activation (GO:0050867)|positive regulation of cell differentiation (GO:0045597)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of DNA binding (GO:0043388)|positive regulation of growth hormone receptor signaling pathway (GO:0060399)|positive regulation of inflammatory response (GO:0050729)|positive regulation of insulin secretion (GO:0032024)|positive regulation of interleukin-1 beta production (GO:0032731)|positive regulation of nitric oxide biosynthetic process (GO:0045429)|positive regulation of nitric-oxide synthase biosynthetic process (GO:0051770)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of phosphoprotein phosphatase activity (GO:0032516)|positive regulation of protein import into nucleus, translocation (GO:0033160)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of tumor necrosis factor production (GO:0032760)|positive regulation of tyrosine phosphorylation of Stat3 protein (GO:0042517)|positive regulation of tyrosine phosphorylation of Stat5 protein (GO:0042523)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of inflammatory response (GO:0050727)|regulation of interferon-gamma-mediated signaling pathway (GO:0060334)|response to antibiotic (GO:0046677)|response to hydroperoxide (GO:0033194)|response to interleukin-12 (GO:0070671)|response to lipopolysaccharide (GO:0032496)|response to tumor necrosis factor (GO:0034612)|signal transduction (GO:0007165)|STAT protein import into nucleus (GO:0007262)|tumor necrosis factor-mediated signaling pathway (GO:0033209)|tyrosine phosphorylation of STAT protein (GO:0007260)|tyrosine phosphorylation of Stat1 protein (GO:0042508)|tyrosine phosphorylation of Stat3 protein (GO:0042503)|tyrosine phosphorylation of Stat5 protein (GO:0042506)	caveola (GO:0005901)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|endosome lumen (GO:0031904)|membrane raft (GO:0045121)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)	ATP binding (GO:0005524)|growth hormone receptor binding (GO:0005131)|heme binding (GO:0020037)|histone binding (GO:0042393)|histone kinase activity (H3-Y41 specific) (GO:0035401)|interleukin-12 receptor binding (GO:0005143)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|protein tyrosine kinase activity (GO:0004713)|receptor binding (GO:0005102)|SH2 domain binding (GO:0042169)		BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)|ETV6/JAK2(11)|PCM1/JAK2(30)|PAX5/JAK2(18)	breast(5)|endometrium(4)|haematopoietic_and_lymphoid_tissue(32944)|kidney(4)|large_intestine(10)|liver(1)|lung(20)|ovary(3)|prostate(4)|skin(2)|urinary_tract(1)	32998	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)	Ruxolitinib(DB08877)|Tofacitinib(DB08895)	AGCAAGTATGATGAGCAAGCT	0.353		1	"T, Mis, O"	"ETV6, PCM1, BCR"	"ALL, AML, MPD,  CML"				Polycythemia Vera, Familial																														Dom	yes		9	9p24	3717	Janus kinase 2		L	0													110	122	118					9																	5073722		2203	4299	6502	SO:0001583	missense	3717	Familial Cancer Database			CCDS6457.1	9p24	2014-09-17	2009-04-23		ENSG00000096968	ENSG00000096968	2.7.10.1	"SH2 domain containing"	6192	protein-coding gene	gene with protein product		147796				1848670	Standard	NM_004972		Approved	JTK10	uc003ziw.3	O60674	OTTHUMG00000019490	ENST00000381652.3:c.1801A>G	9.37:g.5073722A>G	ENSP00000371067:p.Met601Val	Somatic		WXS	Illumina HiSeq	Phase_I	O14636|O75297	Missense_Mutation	SNP	ENST00000381652.3	37	CCDS6457.1	.	.	.	.	.	.	.	.	.	.	A	23.3	4.401142	0.83120	.	.	ENSG00000096968	ENST00000539801;ENST00000381652;ENST00000544510	D;D;D	0.86030	-2.06;-2.06;-2.06	5.51	5.51	0.81932	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	D	0.86653	0.5984	L	0.58428	1.81	0.80722	D	1	P	0.49961	0.93	P	0.48425	0.577	D	0.88353	0.2982	10	0.87932	D	0	-21.4242	15.6147	0.76756	1.0:0.0:0.0:0.0	.	601	O60674	JAK2_HUMAN	V	601;601;452	ENSP00000440387:M601V;ENSP00000371067:M601V;ENSP00000443103:M452V	ENSP00000371067:M601V	M	+	1	0	JAK2	5063722	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	8.880000	0.92407	2.088000	0.63022	0.482000	0.46254	ATG		0.353	JAK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051609.1			G	5073722	A	G	5073722	3	3	643	1	0	0	0	0	1	0	0	0	7945	333	12	3	1847	3	JAK2	9	5073722	Missense_Mutation	SNP	A	TCGA-KL-8344-01A-11D-2310-10		5073722	136139709	32	39811										
FLJ46321	389763	bcgsc.ca	37	chr9	84607861	84607861	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	tgagactaggtcagaaacaaCttgaaaatgccctgacagta	9	8	1	4	rs552420674		TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr9:84607861C>T	ENST00000344803.2	+	4	2523	c.2476C>T	c.(2476-2478)Ctt>Ttt	p.L826F		NM_001001670.2	NP_001001670.1	Q6ZQQ2	S31D1_HUMAN	SPATA31 subfamily D, member 1	826					cell differentiation (GO:0030154)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)											TCAGAAACAACTTGAAAATGC	0.453																																																0													71	67	68					9																	84607861		1858	4087	5945	SO:0001583	missense	389763				CCDS47986.1	9q21.32	2012-10-12	2012-10-12	2012-10-12	ENSG00000214929	ENSG00000214929			37283	protein-coding gene	gene with protein product			"family with sequence similarity 75, member D1"	FAM75D1			Standard	NM_001001670		Approved	FLJ46321	uc004amn.3	Q6ZQQ2	OTTHUMG00000169122	ENST00000344803.2:c.2476C>T	9.37:g.84607861C>T	ENSP00000341988:p.Leu826Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000344803.2	37	CCDS47986.1	.	.	.	.	.	.	.	.	.	.	C	8.324	0.825025	0.16678	.	.	ENSG00000214929	ENST00000344803	T	0.10668	2.85	2.74	0.327	0.15913	.	2.011690	0.02194	N	0.061661	T	0.22551	0.0544	L	0.45581	1.43	0.09310	N	1	D	0.89917	1.0	D	0.81914	0.995	T	0.11966	-1.0566	10	0.33141	T	0.24	-2.2865	2.442	0.04497	0.2628:0.5151:0.0:0.2221	.	826	Q6ZQQ2	F75D1_HUMAN	F	826	ENSP00000341988:L826F	ENSP00000341988:L826F	L	+	1	0	FAM75D1	83797681	0.003000	0.15002	0.003000	0.11579	0.053000	0.15095	0.692000	0.25482	0.072000	0.16694	0.563000	0.77884	CTT		0.453	SPATA31D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402325.1	NM_001001670		T	84607861	C	T	84607861	3	4	643	1	0	0	0	0	1	0	0	0	5939	565	20	2	2490	2	FLJ46321	9	84607861	Missense_Mutation	SNP	C	TCGA-KL-8344-01A-11D-2310-10	79534139	84607861	56605570	33	39812										
RC3H2	54542	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr9	125616244	125616244	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	tctttacctctccatttcttAgttcaatttccttgcttaaa	2	11	4	0			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr9:125616244A>G	ENST00000373670.1	-	17	3704	c.3104T>C	c.(3103-3105)cTa>cCa	p.L1035P	RC3H2_ENST00000423239.2_Missense_Mutation_p.L1035P|RC3H2_ENST00000357244.2_Missense_Mutation_p.L1035P			Q9HBD1	RC3H2_HUMAN	ring finger and CCCH-type domains 2	1035					B cell homeostasis (GO:0001782)|limb development (GO:0060173)|lung alveolus development (GO:0048286)|lymph node development (GO:0048535)|multicellular organism growth (GO:0035264)|positive regulation of NIK/NF-kappaB signaling (GO:1901224)|post-embryonic development (GO:0009791)|posttranscriptional regulation of gene expression (GO:0010608)|protein polyubiquitination (GO:0000209)|spleen development (GO:0048536)|T cell homeostasis (GO:0043029)|T cell proliferation (GO:0042098)|T follicular helper cell differentiation (GO:0061470)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	DNA binding (GO:0003677)|mRNA binding (GO:0003729)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(3)|central_nervous_system(1)|endometrium(6)|large_intestine(4)|liver(1)|lung(11)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	33						TCCATTTCTTAGTTCAATTTC	0.413																																																0													119	109	112					9																	125616244		1885	4119	6004	SO:0001583	missense	54542			AK000308	CCDS43874.1, CCDS48014.1	9q34	2013-01-18	2010-09-15	2007-02-06	ENSG00000056586	ENSG00000056586		"RING-type (C3HC4) zinc fingers", "Zinc fingers, CCCH-type domain containing"	21461	protein-coding gene	gene with protein product		615231	"membrane associated DNA binding protein", "ring finger and CCCH-type zinc finger domains 2"	MNAB		10938276	Standard	NM_001100588		Approved	FLJ20301, FLJ20713, RNF164	uc010mwc.1	Q9HBD1	OTTHUMG00000020632	ENST00000373670.1:c.3104T>C	9.37:g.125616244A>G	ENSP00000362774:p.Leu1035Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VXB1|Q5JPD7|Q86ST6|Q8N3D6|Q96F27|Q9H5J2|Q9HBD2|Q9NWN9|Q9NXE1	Missense_Mutation	SNP	ENST00000373670.1	37	CCDS43874.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	17.66|17.66	3.443823|3.443823	0.63067|0.63067	.|.	.|.	ENSG00000056586|ENSG00000056586	ENST00000373670;ENST00000357244;ENST00000373663;ENST00000423239|ENST00000454740	T;T;T|.	0.54675|.	0.77;0.77;0.56|.	5.87|5.87	5.87|5.87	0.94306|0.94306	.|.	0.000000|.	0.64402|.	D|.	0.000014|.	T|.	0.38852|.	0.1056|.	N|N	0.08118|0.08118	0|0	0.80722|0.80722	D|D	1|1	D;D|.	0.69078|.	0.995;0.997|.	D;D|.	0.78314|.	0.979;0.991|.	T|.	0.34304|.	-0.9834|.	10|.	0.46703|.	T|.	0.11|.	-19.9616|-19.9616	14.3157|14.3157	0.66450|0.66450	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	1035;1035|.	Q9HBD1;Q9HBD1-4|.	RC3H2_HUMAN;.|.	P|Q	1035;1035;906;1035|94	ENSP00000362774:L1035P;ENSP00000349783:L1035P;ENSP00000411767:L1035P|.	ENSP00000349783:L1035P|.	L|X	-|-	2|1	0|0	RC3H2|RC3H2	124656065|124656065	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.997000|0.997000	0.91878|0.91878	4.078000|4.078000	0.57606|0.57606	2.371000|2.371000	0.80710|0.80710	0.533000|0.533000	0.62120|0.62120	CTA|TAA		0.413	RC3H2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053966.1	NM_018835		G	125616244	A	G	125616244	3	3	643	1	0	0	0	0	1	0	0	0	13180	420	15	3	565	3	RC3H2	9	125616244	Missense_Mutation	SNP	A	TCGA-KL-8344-01A-11D-2310-10	41008383	125616244	15597187	34	39813										
RAPGEF1	2889	broad.mit.edu;bcgsc.ca	37	chr9	134504010	134504010	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	ggccaccacagccactcgggTaggggacggcgccgactgtc	15	15	0	0			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr9:134504010T>C	ENST00000372189.3	-	8	1015	c.892A>G	c.(892-894)Acc>Gcc	p.T298A	RAPGEF1_ENST00000372190.3_Missense_Mutation_p.T316A|RAPGEF1_ENST00000372195.1_Missense_Mutation_p.T315A|RAPGEF1_ENST00000481260.1_5'UTR	NM_005312.2	NP_005303.2	Q13905	RPGF1_HUMAN	Rap guanine nucleotide exchange factor (GEF) 1	298					activation of MAPKK activity (GO:0000186)|blood vessel development (GO:0001568)|cellular response to cAMP (GO:0071320)|cellular response to nerve growth factor stimulus (GO:1990090)|establishment of endothelial barrier (GO:0061028)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of ERK1 and ERK2 cascade (GO:0070373)|negative regulation of neural precursor cell proliferation (GO:2000178)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of Ras protein signal transduction (GO:0046580)|nerve growth factor signaling pathway (GO:0038180)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of neuron projection development (GO:0010976)|positive regulation of Rap GTPase activity (GO:0032854)|Rap protein signal transduction (GO:0032486)|regulation of cell junction assembly (GO:1901888)|signal transduction (GO:0007165)|single organismal cell-cell adhesion (GO:0016337)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cytosol (GO:0005829)|early endosome (GO:0005769)|endosome (GO:0005768)	Rap guanyl-nucleotide exchange factor activity (GO:0017034)			NS(2)|breast(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|large_intestine(8)|lung(9)|ovary(2)|prostate(4)|skin(1)|urinary_tract(1)	39		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		GCCACTCGGGTAGGGGACGGC	0.587																																																0													51	55	54					9																	134504010		1946	4146	6092	SO:0001583	missense	2889			BC041710	CCDS48047.1	9q34.3	2008-02-05	2004-03-01	2004-03-02	ENSG00000107263	ENSG00000107263			4568	protein-coding gene	gene with protein product		600303	"guanine nucleotide-releasing factor 2 (specific for crk proto-oncogene)"	GRF2		7959692, 7512734	Standard	NM_005312		Approved	C3G	uc022bos.1	Q13905	OTTHUMG00000020829	ENST00000372189.3:c.892A>G	9.37:g.134504010T>C	ENSP00000361263:p.Thr298Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JUE4|Q8IV73	Missense_Mutation	SNP	ENST00000372189.3	37	CCDS48047.1	.	.	.	.	.	.	.	.	.	.	T	23.6	4.437067	0.83885	.	.	ENSG00000107263	ENST00000266110;ENST00000372195;ENST00000429421;ENST00000372189;ENST00000372190;ENST00000411834;ENST00000337036;ENST00000357686	T;T;T	0.47869	0.83;0.83;0.83	5.0	5.0	0.66597	.	0.204155	0.50627	D	0.000108	T	0.59742	0.2216	M	0.64997	1.995	0.53688	D	0.999979	D;D;D	0.61080	0.982;0.964;0.989	P;P;P	0.60949	0.764;0.764;0.881	T	0.56498	-0.7969	10	0.20046	T	0.44	.	13.8882	0.63721	0.0:0.0:0.0:1.0	.	315;298;316	Q68DL3;Q13905;Q13905-3	.;RPGF1_HUMAN;.	A	298;315;192;298;316;278;224;315	ENSP00000361269:T315A;ENSP00000361263:T298A;ENSP00000361264:T316A	ENSP00000266110:T298A	T	-	1	0	RAPGEF1	133493831	1.000000	0.71417	0.943000	0.38184	0.944000	0.59088	5.628000	0.67791	1.873000	0.54277	0.379000	0.24179	ACC		0.587	RAPGEF1-001	KNOWN	non_canonical_U12|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000054759.2	NM_005312		C	134504010	T	C	134504010	3	2	643	1	0	0	0	0	1	0	0	0	13056	1638	57	3	2409	3	RAPGEF1	9	134504010	Missense_Mutation	SNP	T	TCGA-KL-8344-01A-11D-2310-10	8887766	134504010	6709421	35	39814										
ARID5B	84159	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr10	63851395	63851395	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	gcaaaaagaaactgattgctAgggatgacttgtgttccagt	11	6	0	3			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr10:63851395A>G	ENST00000279873.7	+	10	2583	c.2173A>G	c.(2173-2175)Agg>Ggg	p.R725G	ARID5B_ENST00000309334.5_Missense_Mutation_p.R482G	NM_032199.2	NP_115575.1	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	725					adipose tissue development (GO:0060612)|adrenal gland development (GO:0030325)|cell development (GO:0048468)|face morphogenesis (GO:0060325)|fat cell differentiation (GO:0045444)|fat pad development (GO:0060613)|female gonad development (GO:0008585)|fibroblast migration (GO:0010761)|kidney development (GO:0001822)|liver development (GO:0001889)|male gonad development (GO:0008584)|multicellular organism growth (GO:0035264)|muscle organ morphogenesis (GO:0048644)|negative regulation of transcription, DNA-templated (GO:0045892)|palate development (GO:0060021)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|post-embryonic development (GO:0009791)|skeletal system morphogenesis (GO:0048705)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|transcription regulatory region DNA binding (GO:0044212)			NS(1)|breast(2)|endometrium(13)|kidney(3)|large_intestine(7)|lung(9)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	44	Prostate(12;0.016)|all_hematologic(501;0.215)					ACTGATTGCTAGGGATGACTT	0.527																																																0													117	117	117					10																	63851395		2203	4300	6503	SO:0001583	missense	84159			M73837	CCDS31208.1, CCDS58082.1	10q11.22	2013-02-07			ENSG00000150347	ENSG00000150347		"-"	17362	protein-coding gene	gene with protein product		608538				11483573, 11478881	Standard	NM_032199		Approved	FLJ21150, MRF2	uc001jlt.2	Q14865	OTTHUMG00000018298	ENST00000279873.7:c.2173A>G	10.37:g.63851395A>G	ENSP00000279873:p.Arg725Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DLB3|Q05DG6|Q32Q59|Q5VST4|Q6NZ42|Q7Z3M4|Q8N421|Q9H786	Missense_Mutation	SNP	ENST00000279873.7	37	CCDS31208.1	.	.	.	.	.	.	.	.	.	.	A	11.39	1.623365	0.28889	.	.	ENSG00000150347	ENST00000279873;ENST00000309334	T;T	0.48836	0.81;0.8	5.87	2.04	0.26737	.	0.348813	0.35407	N	0.003240	T	0.35595	0.0937	L	0.46157	1.445	0.38041	D	0.93547	P	0.38922	0.651	B	0.29598	0.104	T	0.23226	-1.0194	10	0.40728	T	0.16	-22.096	13.3072	0.60359	0.6222:0.3778:0.0:0.0	.	725	Q14865	ARI5B_HUMAN	G	725;482	ENSP00000279873:R725G;ENSP00000308862:R482G	ENSP00000279873:R725G	R	+	1	2	ARID5B	63521401	0.973000	0.33851	0.231000	0.23993	0.995000	0.86356	2.314000	0.43743	0.088000	0.17205	0.533000	0.62120	AGG		0.527	ARID5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048233.1	XM_084482		G	63851395	A	G	63851395	3	3	643	1	0	0	0	0	1	0	0	0	922	411	15	3	2211	3	ARID5B	10	63851395	Missense_Mutation	SNP	A	TCGA-KL-8344-01A-11D-2310-10		63851395	71683352	36	39815										
TALDO1	6888	broad.mit.edu	37	chr11	763428	763428	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	gtggcctgtgccgaggcgggTgtgaccctcatctccccatt	13	14	2	1			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr11:763428T>G	ENST00000319006.3	+	5	699	c.546T>G	c.(544-546)ggT>ggG	p.G182G	TALDO1_ENST00000528097.1_Silent_p.G182G			P37837	TALDO_HUMAN	transaldolase 1	182					carbohydrate metabolic process (GO:0005975)|energy reserve metabolic process (GO:0006112)|fructose 6-phosphate metabolic process (GO:0006002)|glyceraldehyde-3-phosphate metabolic process (GO:0019682)|pentose-phosphate shunt (GO:0006098)|pentose-phosphate shunt, non-oxidative branch (GO:0009052)|small molecule metabolic process (GO:0044281)|xylulose biosynthetic process (GO:0005999)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	monosaccharide binding (GO:0048029)|sedoheptulose-7-phosphate:D-glyceraldehyde-3-phosphate glyceronetransferase activity (GO:0004801)			breast(1)|kidney(2)|large_intestine(5)|lung(4)|prostate(2)	14		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;4.66e-26)|Epithelial(43;2.97e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.48e-19)|BRCA - Breast invasive adenocarcinoma(625;4.41e-05)|Lung(200;0.0595)|LUSC - Lung squamous cell carcinoma(625;0.0712)		CCGAGGCGGGTGTGACCCTCA	0.607																																																0													131	120	124					11																	763428		2203	4300	6503	SO:0001819	synonymous_variant	6888				CCDS7712.1	11p15.5-p15.4	2009-12-02			ENSG00000177156	ENSG00000177156	2.2.1.2		11559	protein-coding gene	gene with protein product		602063				9339383	Standard	NM_006755		Approved		uc001lqz.3	P37837	OTTHUMG00000133318	ENST00000319006.3:c.546T>G	11.37:g.763428T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R8M2|O00751|Q8WV32|Q8WZ45	Silent	SNP	ENST00000319006.3	37	CCDS7712.1																																																																																				0.607	TALDO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257116.1	NM_006755		G	763428	T	G	763428	2	3	643	1	0	0	0	0	0	0	0	1	15555	1683	59	5		5	TALDO1	11	763428	Silent	SNP	T	TCGA-KL-8344-01A-11D-2310-10		763428	134243088	37	39816										
MUC2	4583	mdanderson.org	37	chr11	1093158	1093158	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	acacccatcaccaccaccacTacggtgacaccaaccccaac	3	21	1	1	rs202045556		TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr11:1093158T>C	ENST00000441003.2	+	30	5004	c.4977T>C	c.(4975-4977)acT>acC	p.T1659T	MUC2_ENST00000361558.6_Intron|MUC2_ENST00000359061.5_Silent_p.T1626T|MUC2_ENST00000333592.6_5'Flank	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	ccaccaccactacggtgacac	0.637																																																0													135	203	179					11																	1093158		1808	3330	5138	SO:0001819	synonymous_variant	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4977T>C	11.37:g.1093158T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Silent	SNP	ENST00000441003.2	37																																																																																					0.637	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		C	1093158	T	C	1093158	2	2	643	1	0	0	0	0	0	0	0	1	9982	1509	53	3		3	MUC2	11	1093158	Silent	SNP	T	TCGA-KL-8344-01A-11D-2310-10	329730	1093158	133913358	38	39817										
OSBPL5	114879	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	3114269	3114269	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	cttgctgatggccctggtgaCgtgctgccagagcctgcggg	16	12	0	3			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr11:3114269C>T	ENST00000263650.7	-	18	2119	c.1960G>A	c.(1960-1962)Gtc>Atc	p.V654I	OSBPL5_ENST00000389989.3_Missense_Mutation_p.V586I|OSBPL5_ENST00000525498.1_Missense_Mutation_p.V565I|OSBPL5_ENST00000542243.1_Missense_Mutation_p.V285I|OSBPL5_ENST00000478260.1_Missense_Mutation_p.V108I|OSBPL5_ENST00000348039.5_Missense_Mutation_p.V586I	NM_020896.3	NP_065947.1	Q9H0X9	OSBL5_HUMAN	oxysterol binding protein-like 5	654					cholesterol metabolic process (GO:0008203)|cholesterol transport (GO:0030301)|Golgi to plasma membrane transport (GO:0006893)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	cholesterol binding (GO:0015485)|oxysterol binding (GO:0008142)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(7)|lung(8)|prostate(1)|upper_aerodigestive_tract(1)	25		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		GCCCTGGTGACGTGCTGCCAG	0.682																																																0													35	29	31					11																	3114269		2201	4295	6496	SO:0001583	missense	114879			AF392453	CCDS31343.1, CCDS31344.1	11p15.4	2013-01-10			ENSG00000021762	ENSG00000021762		"Oxysterol binding proteins", "Pleckstrin homology (PH) domain containing"	16392	protein-coding gene	gene with protein product		606733					Standard	NM_145638		Approved	KIAA1534, ORP5	uc001lxk.2	Q9H0X9	OTTHUMG00000011702	ENST00000263650.7:c.1960G>A	11.37:g.3114269C>T	ENSP00000263650:p.Val654Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDP0|A6NJS8|Q54A90|Q8N596|Q9BZB0|Q9P1Z4	Missense_Mutation	SNP	ENST00000263650.7	37	CCDS31344.1	.	.	.	.	.	.	.	.	.	.	C	32	5.169387	0.94768	.	.	ENSG00000021762	ENST00000478260;ENST00000263650;ENST00000389989;ENST00000534454;ENST00000525498;ENST00000542243;ENST00000348039;ENST00000357352	T;T;T;T;T;T;T	0.36878	1.23;1.23;1.23;1.23;1.23;1.23;1.23	4.38	4.38	0.52667	.	0.000000	0.64402	D	0.000003	T	0.69788	0.3150	M	0.93375	3.41	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.997	T	0.80108	-0.1520	10	0.87932	D	0	-24.8915	16.7396	0.85455	0.0:1.0:0.0:0.0	.	565;586;654	B4DVB0;Q8N596;Q9H0X9	.;.;OSBL5_HUMAN	I	108;654;586;207;565;285;586;273	ENSP00000437141:V108I;ENSP00000263650:V654I;ENSP00000374639:V586I;ENSP00000431412:V207I;ENSP00000433342:V565I;ENSP00000441551:V285I;ENSP00000302872:V586I	ENSP00000263650:V654I	V	-	1	0	OSBPL5	3070845	1.000000	0.71417	0.999000	0.59377	0.929000	0.56500	6.843000	0.75384	2.275000	0.75901	0.561000	0.74099	GTC		0.682	OSBPL5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032332.2			T	3114269	C	T	3114269	3	4	643	1	0	0	0	0	1	0	0	0	11287	536	19	1	699	1	OSBPL5	11	3114269	Missense_Mutation	SNP	C	TCGA-KL-8344-01A-11D-2310-10	2021111	3114269	131892247	39	39818										
LRRC4C	57689	broad.mit.edu;mdanderson.org	37	chr11	40136544	40136544	+	Silent	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	gtggctgaagcagtagtattCccaacggaattactcaccat	9	10	1	1			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr11:40136544C>G	ENST00000278198.2	-	2	3262	c.1299G>C	c.(1297-1299)ggG>ggC	p.G433G	LRRC4C_ENST00000530763.1_Silent_p.G433G|LRRC4C_ENST00000527150.1_Silent_p.G433G|LRRC4C_ENST00000528697.1_Silent_p.G433G			Q9HCJ2	LRC4C_HUMAN	leucine rich repeat containing 4C	433	Ig-like C2-type.				regulation of axonogenesis (GO:0050770)	cell junction (GO:0030054)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|postsynaptic membrane (GO:0045211)				NS(2)|central_nervous_system(3)|endometrium(1)|large_intestine(14)|lung(43)|ovary(5)|prostate(2)|skin(9)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	86		all_lung(304;0.0575)|Lung NSC(402;0.138)				CAGTAGTATTCCCAACGGAAT	0.443																																																0													188	168	174					11																	40136544		2203	4300	6503	SO:0001819	synonymous_variant	57689			AB046800	CCDS31464.1	11p12	2013-01-14				ENSG00000148948		"Immunoglobulin superfamily / I-set domain containing"	29317	protein-coding gene	gene with protein product		608817				14595443	Standard	NM_020929		Approved	KIAA1580, NGL-1	uc031pzu.1	Q9HCJ2		ENST00000278198.2:c.1299G>C	11.37:g.40136544C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0T1|Q7L0N3	Silent	SNP	ENST00000278198.2	37	CCDS31464.1																																																																																				0.443	LRRC4C-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389499.1	NM_020929		G	40136544	C	G	40136544	2	3	643	1	0	0	0	0	0	0	0	1	9015	842	30	4		4	LRRC4C	11	40136544	Silent	SNP	C	TCGA-KL-8344-01A-11D-2310-10	37022275	40136544	94869972	40	39819										
OR4A16	81327	mdanderson.org	37	chr11	55111509	55111509	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	gttttattcaattatcacacTcatgttgaatcctttaatat	3	7	3	1	rs75872349		TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr11:55111509T>C	ENST00000314721.2	+	1	883	c.833T>C	c.(832-834)cTc>cCc	p.L278P		NM_001005274.1	NP_001005274.1	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A, member 16	278						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(28)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	51						ATTATCACACTCATGTTGAAT	0.318																																																0													88	83	85					11																	55111509		2201	4296	6497	SO:0001583	missense	81327			AB065519	CCDS31499.1	11q11	2012-08-09			ENSG00000181961	ENSG00000181961		"GPCR / Class A : Olfactory receptors"	15153	protein-coding gene	gene with protein product							Standard	NM_001005274		Approved	OR4A16Q	uc010rie.2	Q8NH70	OTTHUMG00000166710	ENST00000314721.2:c.833T>C	11.37:g.55111509T>C	ENSP00000325128:p.Leu278Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFL3	Missense_Mutation	SNP	ENST00000314721.2	37	CCDS31499.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	c	0.003	-2.557746	0.00136	.	.	ENSG00000181961	ENST00000314721	T	0.30714	1.52	2.86	1.94	0.25998	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.11793	0.0287	N	0.08118	0	0.42276	D	0.992077	B	0.02656	0.0	B	0.01281	0.0	T	0.23332	-1.0191	9	0.02654	T	1	.	8.2698	0.31838	0.0:0.87:0.0:0.13	.	278	Q8NH70	O4A16_HUMAN	P	278	ENSP00000325128:L278P	ENSP00000325128:L278P	L	+	2	0	OR4A16	54868085	0.136000	0.22515	0.992000	0.48379	0.230000	0.25150	2.565000	0.45939	0.507000	0.28148	-0.968000	0.02614	CTC		0.318	OR4A16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391160.1	NM_001005274		C	55111509	T	C	55111509	3	2	643	1	0	0	0	0	1	0	0	0	11048	1551	54	3	835	3	OR4A16	11	55111509	Missense_Mutation	SNP	T	TCGA-KL-8344-01A-11D-2310-10	14974965	55111509	79895007	41	39820										
CASP4	837	bcgsc.ca	37	chr11	104817887	104817887	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	gagttgtgtgatgaagatagAgcccattgtgctgtctctcc	12	8	1	4			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr11:104817887A>G	ENST00000444739.2	-	7	1868	c.958T>C	c.(958-960)Tct>Cct	p.S320P	CASP4_ENST00000393150.3_Missense_Mutation_p.S264P|CASP4_ENST00000531333.1_5'Flank	NM_001225.3	NP_001216.1	P49662	CASP4_HUMAN	caspase 4, apoptosis-related cysteine peptidase	320					apoptotic process (GO:0006915)|execution phase of apoptosis (GO:0097194)|proteolysis (GO:0006508)|regulation of apoptotic process (GO:0042981)|regulation of inflammatory response (GO:0050727)	AIM2 inflammasome complex (GO:0097169)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|IPAF inflammasome complex (GO:0072557)|membrane (GO:0016020)|mitochondrion (GO:0005739)|NLRP3 inflammasome complex (GO:0072559)	cysteine-type endopeptidase activity (GO:0004197)			central_nervous_system(1)|endometrium(2)|large_intestine(5)|lung(11)|ovary(1)|skin(1)|urinary_tract(2)	23		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)		ATGAAGATAGAGCCCATTGTG	0.403																																																0													198	178	185					11																	104817887		2202	4299	6501	SO:0001583	missense	837			U25804	CCDS8327.1, CCDS41704.1	11q22.2-q22.3	2006-02-17	2005-08-17		ENSG00000196954	ENSG00000196954		"Caspases"	1505	protein-coding gene	gene with protein product		602664	"caspase 4, apoptosis-related cysteine protease"			7797510, 9250871	Standard	NM_001225		Approved	ICE(rel)II, ICH-2, TX	uc001pid.1	P49662	OTTHUMG00000166078	ENST00000444739.2:c.958T>C	11.37:g.104817887A>G	ENSP00000388566:p.Ser320Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A2NHL8|A2NHM0	Missense_Mutation	SNP	ENST00000444739.2	37	CCDS8327.1	.	.	.	.	.	.	.	.	.	.	A	13.92	2.381149	0.42207	.	.	ENSG00000196954	ENST00000444739;ENST00000393150;ENST00000355546	T;T	0.36520	1.25;1.25	5.11	5.11	0.69529	Peptidase C14, caspase catalytic (1);Peptidase C14, caspase non-catalytic subunit p10 (1);Peptidase C14, caspase precursor p45, core (2);	0.063418	0.64402	D	0.000004	T	0.69151	0.3079	H	0.94462	3.54	0.53688	D	0.999978	D	0.89917	1.0	D	0.97110	1.0	T	0.78201	-0.2296	10	0.72032	D	0.01	.	12.8401	0.57797	1.0:0.0:0.0:0.0	.	320	P49662	CASP4_HUMAN	P	320;264;273	ENSP00000388566:S320P;ENSP00000376857:S264P	ENSP00000347741:S273P	S	-	1	0	CASP4	104323097	1.000000	0.71417	0.146000	0.22360	0.021000	0.10359	4.319000	0.59197	1.912000	0.55364	0.528000	0.53228	TCT		0.403	CASP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387751.1	NM_001225		G	104817887	A	G	104817887	3	3	643	1	0	0	0	0	1	0	0	0	2675	304	11	3	183	3	CASP4	11	104817887	Missense_Mutation	SNP	A	TCGA-KL-8344-01A-11D-2310-10	49706378	104817887	30188629	42	39821										
TMPRSS13	84000	ucsc.edu;mdanderson.org	37	chr11	117789317	117789317	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	agagccggagatgcccgggcTggagatgcctgggctggaga	19	9	0	4	rs201746372|rs58754377|rs201369736		TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr11:117789317T>C	ENST00000430170.2	-	2	345	c.258A>G	c.(256-258)ccA>ccG	p.P86P	TMPRSS13_ENST00000524993.1_Silent_p.P86P|TMPRSS13_ENST00000445164.2_Silent_p.P86P|TMPRSS13_ENST00000526090.1_Silent_p.P86P|TMPRSS13_ENST00000528626.1_Silent_p.P86P	NM_001244995.1	NP_001231924.1	Q9BYE2	TMPSD_HUMAN	transmembrane protease, serine 13	86	13 X 5 AA repeats of A-S-P-A-[GLQR].|Ala-rich.					blood microparticle (GO:0072562)|integral component of membrane (GO:0016021)	scavenger receptor activity (GO:0005044)|serine-type endopeptidase activity (GO:0004252)	p.Q83_A87delQASPA(1)		endometrium(1)|kidney(3)|large_intestine(6)|lung(7)|pancreas(1)|prostate(1)|urinary_tract(1)	20	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.00106)		ATGCCCGGGCTGGAGATGCCT	0.652																																																1	Deletion - In frame(1)	urinary_tract(1)											34	41	38					11																	117789317		1955	4135	6090	SO:0001819	synonymous_variant	84000			AB048796	CCDS41721.1, CCDS55788.1, CCDS55789.1, CCDS58185.1	11q23	2010-04-13	2005-03-11	2005-03-12	ENSG00000137747	ENSG00000137747		"Serine peptidases / Transmembrane"	29808	protein-coding gene	gene with protein product		610050	"transmembrane protease, serine 11"	TMPRSS11		11267681	Standard	NM_001077263		Approved	MSPL	uc001prs.2	Q9BYE2	OTTHUMG00000166992	ENST00000430170.2:c.258A>G	11.37:g.117789317T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DTM9|E9PIJ5|F8WAJ3|Q86YM4|Q96JY8|Q9BYE1	Silent	SNP	ENST00000430170.2	37	CCDS58185.1																																																																																				0.652	TMPRSS13-006	PUTATIVE	basic|appris_candidate|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000392318.1	NM_032046		C	117789317	T	C	117789317	2	2	643	1	0	0	0	0	0	0	0	1	16257	1567	55	3		3	TMPRSS13	11	117789317	Silent	SNP	T	TCGA-KL-8344-01A-11D-2310-10	12971430	117789317	17217199	43	39822										
LRRK2	120892	mdanderson.org	37	chr12	40728900	40728900	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	cgcctgcttcagcaggacaaAgccagcctcactagaaccct	8	16	2	1			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr12:40728900A>G	ENST00000298910.7	+	40	5947	c.5889A>G	c.(5887-5889)aaA>aaG	p.K1963K		NM_198578.3	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1963	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of MAPK activity (GO:0000187)|activation of MAPKK activity (GO:0000186)|autophagy (GO:0006914)|cellular protein localization (GO:0034613)|cellular response to dopamine (GO:1903351)|cellular response to manganese ion (GO:0071287)|cellular response to oxidative stress (GO:0034599)|determination of adult lifespan (GO:0008340)|endocytosis (GO:0006897)|exploration behavior (GO:0035640)|GTP catabolic process (GO:0006184)|intracellular distribution of mitochondria (GO:0048312)|intracellular signal transduction (GO:0035556)|locomotory exploration behavior (GO:0035641)|MAPK cascade (GO:0000165)|negative regulation of GTPase activity (GO:0034260)|negative regulation of hydrogen peroxide-induced cell death (GO:1903206)|negative regulation of late endosome to lysosome transport (GO:1902823)|negative regulation of peroxidase activity (GO:2000469)|negative regulation of protein binding (GO:0032091)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of protein processing (GO:0010955)|negative regulation of protein processing involved in protein targeting to mitochondrion (GO:1903217)|negative regulation of protein targeting to mitochondrion (GO:1903215)|negative regulation of thioredoxin peroxidase activity by peptidyl-threonine phosphorylation (GO:1903125)|neuromuscular junction development (GO:0007528)|neuron death (GO:0070997)|neuron projection morphogenesis (GO:0048812)|olfactory bulb development (GO:0021772)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|positive regulation of autophagy (GO:0010508)|positive regulation of dopamine receptor signaling pathway (GO:0060161)|positive regulation of GTPase activity (GO:0043547)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of programmed cell death (GO:0043068)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein autoubiquitination (GO:1902499)|positive regulation of protein binding (GO:0032092)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein ubiquitination (GO:0031398)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|reactive oxygen species metabolic process (GO:0072593)|regulation of branching morphogenesis of a nerve (GO:2000172)|regulation of dendritic spine morphogenesis (GO:0061001)|regulation of dopamine receptor signaling pathway (GO:0060159)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of kidney size (GO:0035564)|regulation of locomotion (GO:0040012)|regulation of membrane potential (GO:0042391)|regulation of mitochondrial depolarization (GO:0051900)|regulation of neuroblast proliferation (GO:1902692)|regulation of neuron death (GO:1901214)|regulation of neuron maturation (GO:0014041)|regulation of protein kinase A signaling (GO:0010738)|regulation of synaptic transmission, glutamatergic (GO:0051966)|regulation of synaptic vesicle exocytosis (GO:2000300)|regulation of synaptic vesicle transport (GO:1902803)|response to oxidative stress (GO:0006979)|small GTPase mediated signal transduction (GO:0007264)|tangential migration from the subventricular zone to the olfactory bulb (GO:0022028)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytoplasmic side of mitochondrial outer membrane (GO:0032473)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|dendrite (GO:0030425)|dendrite cytoplasm (GO:0032839)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|inclusion body (GO:0016234)|lysosome (GO:0005764)|membrane raft (GO:0045121)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrial membrane (GO:0031966)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)|terminal bouton (GO:0043195)|trans-Golgi network (GO:0005802)	actin binding (GO:0003779)|ATP binding (GO:0005524)|clathrin binding (GO:0030276)|glycoprotein binding (GO:0001948)|GTP binding (GO:0005525)|GTP-dependent protein kinase activity (GO:0034211)|GTPase activator activity (GO:0005096)|GTPase activity (GO:0003924)|identical protein binding (GO:0042802)|ion channel binding (GO:0044325)|kinase activity (GO:0016301)|MAP kinase kinase activity (GO:0004708)|peroxidase inhibitor activity (GO:0036479)|protein homodimerization activity (GO:0042803)|protein kinase A binding (GO:0051018)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|Rho GTPase binding (GO:0017048)|SNARE binding (GO:0000149)|syntaxin-1 binding (GO:0017075)|tubulin binding (GO:0015631)			NS(3)|biliary_tract(1)|breast(6)|central_nervous_system(2)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(23)|large_intestine(31)|lung(55)|ovary(15)|pancreas(2)|prostate(4)|skin(4)|stomach(9)|upper_aerodigestive_tract(7)|urinary_tract(2)	181	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				AGCAGGACAAAGCCAGCCTCA	0.502																																																0													120	111	114					12																	40728900		2203	4300	6503	SO:0001819	synonymous_variant	120892			AK026776	CCDS31774.1	12q12	2011-07-21			ENSG00000188906	ENSG00000188906		"Parkinson disease"	18618	protein-coding gene	gene with protein product		609007	"Parkinson disease (autosomal dominant) 8"	PARK8		15541308	Standard	NM_198578		Approved	ROCO2, DKFZp434H2111, FLJ45829, RIPK7	uc001rmg.4	Q5S007	OTTHUMG00000059742	ENST00000298910.7:c.5889A>G	12.37:g.40728900A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NJU2|Q6ZS50|Q8NCX9	Silent	SNP	ENST00000298910.7	37	CCDS31774.1																																																																																				0.502	LRRK2-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277179.1	XM_058513		G	40728900	A	G	40728900	2	3	643	1	0	0	0	0	0	0	0	1	9040	69	3	3		3	LRRK2	12	40728900	Silent	SNP	A	TCGA-KL-8344-01A-11D-2310-10		40728900	93122995	44	39823										
WDR66	144406	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	122406016	122406016	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	gccgtttcctatgatggctgCtacgccttcactgcgggagg	13	12	1	1			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr12:122406016C>T	ENST00000288912.4	+	17	3566	c.2712C>T	c.(2710-2712)tgC>tgT	p.C904C	WDR66_ENST00000397454.2_Silent_p.C904C|WDR66_ENST00000545752.1_3'UTR	NM_144668.5	NP_653269.3	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	904							calcium ion binding (GO:0005509)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(11)|liver(2)|lung(13)|ovary(2)|prostate(2)|skin(2)|soft_tissue(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	43	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		ATGATGGCTGCTACGCCTTCA	0.537																																					Esophageal Squamous(85;849 1794 49757 52143)											0													69	69	69					12																	122406016		1964	4142	6106	SO:0001819	synonymous_variant	144406			AL833930	CCDS41853.1, CCDS53840.1	12q24.31	2014-07-31			ENSG00000158023	ENSG00000158023		"WD repeat domain containing"	28506	protein-coding gene	gene with protein product						17967944	Standard	NM_001178003		Approved	MGC33630, CaM-IP4	uc009zxk.3	Q8TBY9	OTTHUMG00000168948	ENST00000288912.4:c.2712C>T	12.37:g.122406016C>T		Somatic		WXS	Illumina HiSeq	Phase_I	C9J1W2|Q8IYA3|Q8N898|Q8NDE7	Silent	SNP	ENST00000288912.4	37	CCDS41853.1																																																																																				0.537	WDR66-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401700.1	NM_144668		T	122406016	C	T	122406016	2	4	643	1	0	0	0	0	0	0	0	1	17329	805	28	2		2	WDR66	12	122406016	Silent	SNP	C	TCGA-KL-8344-01A-11D-2310-10	81677116	122406016	11445879	45	39824										
PITPNM2	57605	broad.mit.edu	37	chr12	123481375	123481375	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	ctggtactggggggaggaggTggccagcagggggagggcag	24	6	0	0			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr12:123481375T>G	ENST00000542749.1	-	10	1618	c.1555A>C	c.(1555-1557)Acc>Ccc	p.T519P	PITPNM2_ENST00000392428.1_Missense_Mutation_p.T240P|PITPNM2_ENST00000280562.5_Missense_Mutation_p.T519P|PITPNM2_ENST00000320201.4_Missense_Mutation_p.T519P			Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein, membrane-associated 2	519					metabolic process (GO:0008152)|transport (GO:0006810)	integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)	calcium ion binding (GO:0005509)|lipid binding (GO:0008289)			NS(2)|central_nervous_system(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(8)|lung(10)|ovary(2)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	39	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.55e-05)|Epithelial(86;8.43e-05)|BRCA - Breast invasive adenocarcinoma(302;0.123)		GGGGAGGAGGTGGCCAGCAGG	0.622																																																0													48	49	49					12																	123481375		2203	4300	6503	SO:0001583	missense	57605			AF334585	CCDS9242.1, CCDS73543.1	12q24.31	2008-02-05				ENSG00000090975			21044	protein-coding gene	gene with protein product		608920				10022914	Standard	XM_005253582		Approved	RDGBA2, RDGB2, NIR3	uc001uej.1	Q9BZ72		ENST00000542749.1:c.1555A>C	12.37:g.123481375T>G	ENSP00000437611:p.Thr519Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q9P271	Missense_Mutation	SNP	ENST00000542749.1	37	CCDS9242.1	.	.	.	.	.	.	.	.	.	.	T	25.2	4.616441	0.87359	.	.	ENSG00000090975	ENST00000280562;ENST00000320201;ENST00000392428;ENST00000542749	T;T;T;T	0.20200	2.09;2.09;2.09;2.09	4.67	4.67	0.58626	.	0.000000	0.85682	D	0.000000	T	0.46132	0.1377	M	0.76328	2.33	0.80722	D	1	D;D	0.89917	0.998;1.0	D;D	0.81914	0.947;0.995	T	0.49273	-0.8957	10	0.62326	D	0.03	-37.3047	14.1235	0.65205	0.0:0.0:0.0:1.0	.	519;519	Q9BZ72-2;Q9BZ72	.;PITM2_HUMAN	P	519;519;240;519	ENSP00000280562:T519P;ENSP00000322218:T519P;ENSP00000376223:T240P;ENSP00000437611:T519P	ENSP00000280562:T519P	T	-	1	0	PITPNM2	122047328	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	6.252000	0.72447	1.750000	0.51863	0.254000	0.18369	ACC		0.622	PITPNM2-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401342.1	NM_020845		G	123481375	T	G	123481375	3	3	643	1	0	0	0	0	1	0	0	0	11958	1696	59	5	2554	5	PITPNM2	12	123481375	Missense_Mutation	SNP	T	TCGA-KL-8344-01A-11D-2310-10	1075359	123481375	10370520	46	39825										
C13orf34	79866	broad.mit.edu	37	chr13	73320117	73320117	+	Frame_Shift_Del	DEL	A	A	-													0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	agccctattcaggctagtgcAaaaaaatacagcttgggaag							TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr13:73320117delA	ENST00000390667.5	+	9	871	c.774delA	c.(772-774)gcafs	p.A258fs	BORA_ENST00000377815.3_Frame_Shift_Del_p.A188fs	NM_024808.2	NP_079084.2	Q6PGQ7	BORA_HUMAN	bora, aurora kinase A activator	258	Ser-rich.				G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|regulation of mitosis (GO:0007088)|regulation of mitotic spindle organization (GO:0060236)|regulation of protein localization (GO:0032880)	cytosol (GO:0005829)	protein kinase binding (GO:0019901)										AGGCTAGTGCAAAAAAATACA	0.383																																																0													103	98	100					13																	73320117		1807	4062	5869	SO:0001589	frameshift_variant	79866			BC025367	CCDS9446.1, CCDS66560.1, CCDS9446.2, CCDS73583.1	13q22.1	2013-08-13	2011-08-09	2011-08-09	ENSG00000136122	ENSG00000136122			24724	protein-coding gene	gene with protein product		610510	"chromosome 13 open reading frame 34"	C13orf34		16890155, 18378770, 18566290, 19487276	Standard	NM_001286746		Approved	FLJ22624	uc001viv.1	Q6PGQ7	OTTHUMG00000017068	ENST00000390667.5:c.774delA	13.37:g.73320117delA	ENSP00000375082:p.Ala258fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DQ30|Q5W0P3|Q5W0P4|Q86YC6|Q96IW9|Q9H640	Frame_Shift_Del	DEL	ENST00000390667.5	37	CCDS9446.1																																																																																				0.383	BORA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045245.3	NM_024808		-	73320117	A	-	73320117	7	5	643	1	0	1	0	1	0	0	0	0	1730	117	5	0	804	0	C13orf34	13	73320117	Frame_Shift_Del	DEL	A	TCGA-KL-8344-01A-11D-2310-10		73320117	41849761	47	39826										
COL4A1	1282	broad.mit.edu;bcgsc.ca	37	chr13	110833715	110833715	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	gagtccccggtggccccatgTctccaggtaagccgtcaaca	11	15	2	0			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr13:110833715T>C	ENST00000375820.4	-	29	2238	c.2117A>G	c.(2116-2118)gAc>gGc	p.D706G		NM_001845.4	NP_001836.2	P02462	CO4A1_HUMAN	collagen, type IV, alpha 1	706	Triple-helical region.				axon guidance (GO:0007411)|basement membrane organization (GO:0071711)|blood vessel morphogenesis (GO:0048514)|brain development (GO:0007420)|cellular response to amino acid stimulus (GO:0071230)|collagen catabolic process (GO:0030574)|epithelial cell differentiation (GO:0030855)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|neuromuscular junction development (GO:0007528)|patterning of blood vessels (GO:0001569)|renal tubule morphogenesis (GO:0061333)|retinal blood vessel morphogenesis (GO:0061304)	basement membrane (GO:0005604)|collagen type IV trimer (GO:0005587)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)	extracellular matrix constituent conferring elasticity (GO:0030023)|extracellular matrix structural constituent (GO:0005201)|platelet-derived growth factor binding (GO:0048407)			breast(2)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(16)|lung(57)|ovary(4)|pancreas(1)|prostate(4)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	105	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)			TGGCCCCATGTCTCCAGGTAA	0.493																																																0													41	40	41					13																	110833715		2203	4300	6503	SO:0001583	missense	1282			J04217	CCDS9511.1	13q34	2013-09-05			ENSG00000187498	ENSG00000187498		"Collagens"	2202	protein-coding gene	gene with protein product		120130				3691802	Standard	NM_001845		Approved		uc001vqw.4	P02462	OTTHUMG00000017342	ENST00000375820.4:c.2117A>G	13.37:g.110833715T>C	ENSP00000364979:p.Asp706Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2W4|B1AM70|Q1P9S9|Q5VWF6|Q86X41|Q8NF88|Q9NYC5	Missense_Mutation	SNP	ENST00000375820.4	37	CCDS9511.1	.	.	.	.	.	.	.	.	.	.	T	9.991	1.230828	0.22542	.	.	ENSG00000187498	ENST00000375820	D	0.93488	-3.23	4.86	3.69	0.42338	.	0.565133	0.18815	N	0.130417	D	0.89181	0.6642	L	0.43923	1.385	0.80722	D	1	P	0.50066	0.931	P	0.44359	0.447	D	0.85446	0.1158	10	0.22109	T	0.4	.	8.5381	0.33375	0.0:0.0:0.2674:0.7326	.	706	P02462	CO4A1_HUMAN	G	706	ENSP00000364979:D706G	ENSP00000364979:D706G	D	-	2	0	COL4A1	109631716	0.479000	0.25925	0.910000	0.35882	0.146000	0.21551	1.510000	0.35790	2.044000	0.60594	0.459000	0.35465	GAC		0.493	COL4A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045759.3			C	110833715	T	C	110833715	3	2	643	1	0	0	0	0	1	0	0	0	3691	1667	58	3	2988	3	COL4A1	13	110833715	Missense_Mutation	SNP	T	TCGA-KL-8344-01A-11D-2310-10	37513598	110833715	4336163	48	39827										
OR11H12	440153	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr14	19377804	19377804	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	tgtggtgtgactggcgacttCacactcccatgtacatgttc	10	11	1	1			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr14:19377804C>A	ENST00000550708.1	+	1	283	c.211C>A	c.(211-213)Cac>Aac	p.H71N		NM_001013354.1|NM_001197287.1	NP_001013372.1|NP_001184216.1	B2RN74	O11HC_HUMAN	olfactory receptor, family 11, subfamily H, member 12	71						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(2)|endometrium(1)|kidney(1)|large_intestine(1)|lung(13)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	22	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CTGGCGACTTCACACTCCCAT	0.418																																																0													96	106	103					14																	19377804		1966	4090	6056	SO:0001583	missense	440153				CCDS32017.1	14q11.2	2013-01-25			ENSG00000257115	ENSG00000257115		"GPCR / Class A : Olfactory receptors"	30738	protein-coding gene	gene with protein product							Standard	NM_001013354		Approved		uc010tkp.2	B2RN74	OTTHUMG00000170298	ENST00000550708.1:c.211C>A	14.37:g.19377804C>A	ENSP00000449002:p.His71Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000550708.1	37	CCDS32017.1	.	.	.	.	.	.	.	.	.	.	c	10.91	1.484578	0.26598	.	.	ENSG00000257115	ENST00000550708	T	0.15952	2.38	0.585	0.585	0.17428	GPCR, rhodopsin-like superfamily (1);	0.000000	0.44285	D	0.000480	T	0.40322	0.1112	M	0.88775	2.98	0.22620	N	0.998921	D	0.76494	0.999	D	0.74023	0.982	T	0.54118	-0.8341	9	0.72032	D	0.01	.	7.1009	0.25336	0.0:0.9999:0.0:1.0E-4	.	71	B2RN74	O11HC_HUMAN	N	71	ENSP00000449002:H71N	ENSP00000449002:H71N	H	+	1	0	CR383656.1	18447804	0.637000	0.27216	0.160000	0.22671	0.093000	0.18481	1.738000	0.38207	0.619000	0.30197	0.064000	0.15345	CAC		0.418	OR11H12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408402.1	NM_001013354		A	19377804	C	A	19377804	3	1	643	1	0	0	0	0	1	0	0	0	10934	826	29	4	213	4	OR11H12	14	19377804	Missense_Mutation	SNP	C	TCGA-KL-8344-01A-11D-2310-10		19377804	87971736	49	39828										
DICER1	23405	hgsc.bcm.edu;ucsc.edu	37	chr14	95579561	95579561	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	cttggtaatctagcacagtaTctgtgaagaaaaagaaattc	8	6	2	3			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr14:95579561T>C	ENST00000526495.1	-	14	2199	c.1908A>G	c.(1906-1908)agA>agG	p.R636R	DICER1_ENST00000541352.1_Splice_Site_p.R636R|DICER1_ENST00000343455.3_Splice_Site_p.R636R|DICER1_ENST00000393063.1_Splice_Site_p.R636R|DICER1_ENST00000527414.1_Splice_Site_p.R636R			Q9UPY3	DICER_HUMAN	dicer 1, ribonuclease type III	636	Dicer dsRNA-binding fold. {ECO:0000255|PROSITE-ProRule:PRU00657}.				angiogenesis (GO:0001525)|branching morphogenesis of an epithelial tube (GO:0048754)|cardiac muscle cell development (GO:0055013)|cerebral cortex development (GO:0021987)|defense response to virus (GO:0051607)|embryonic hindlimb morphogenesis (GO:0035116)|gene expression (GO:0010467)|hair follicle cell proliferation (GO:0071335)|hair follicle morphogenesis (GO:0031069)|inner ear receptor cell development (GO:0060119)|intestinal epithelial cell development (GO:0060576)|lung development (GO:0030324)|mRNA stabilization (GO:0048255)|multicellular organism growth (GO:0035264)|negative regulation of Schwann cell proliferation (GO:0010626)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nerve development (GO:0021675)|neuron projection morphogenesis (GO:0048812)|olfactory bulb interneuron differentiation (GO:0021889)|peripheral nervous system myelin formation (GO:0032290)|positive regulation of gene expression (GO:0010628)|positive regulation of miRNA metabolic process (GO:2000630)|positive regulation of myelination (GO:0031643)|positive regulation of Schwann cell differentiation (GO:0014040)|post-embryonic development (GO:0009791)|pre-miRNA processing (GO:0031054)|production of miRNAs involved in gene silencing by miRNA (GO:0035196)|production of siRNA involved in RNA interference (GO:0030422)|regulation of cell cycle (GO:0051726)|regulation of enamel mineralization (GO:0070173)|regulation of neuron differentiation (GO:0045664)|regulation of oligodendrocyte differentiation (GO:0048713)|regulation of viral genome replication (GO:0045069)|reproductive structure development (GO:0048608)|RNA phosphodiester bond hydrolysis (GO:0090501)|RNA phosphodiester bond hydrolysis, endonucleolytic (GO:0090502)|spinal cord motor neuron differentiation (GO:0021522)|spindle assembly (GO:0051225)|spleen development (GO:0048536)|stem cell maintenance (GO:0019827)|targeting of mRNA for destruction involved in RNA interference (GO:0030423)|zygote asymmetric cell division (GO:0010070)	axon (GO:0030424)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|growth cone (GO:0030426)|RISC complex (GO:0016442)	ATP binding (GO:0005524)|double-stranded RNA binding (GO:0003725)|helicase activity (GO:0004386)|metal ion binding (GO:0046872)|miRNA binding (GO:0035198)|ribonuclease III activity (GO:0004525)			NS(1)|autonomic_ganglia(1)|biliary_tract(1)|breast(1)|central_nervous_system(1)|endometrium(13)|kidney(3)|large_intestine(10)|lung(33)|ovary(1)|pancreas(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(3)	75		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		TAGCACAGTATCTGTGAAGAA	0.383			"Mis F, N"		"sex cord-stromal tumour, TGCT, embryonal rhadomyosarcoma"	pleuropulmonary blastoma			Familial Multinodular Goiter ;DICER 1 syndrome																													yes	Rec	yes	Familial Pleuropulmonary Blastoma	14	14q32.13	23405	"dicer 1, ribonuclease type III "		"E, M, O"	0													79	80	80					14																	95579561		2203	4300	6503	SO:0001630	splice_region_variant	23405	Familial Cancer Database	Adolescent Multinodular Goiter, incl. Multinodular Euthyroid Goiter & Non-Medullary Thyroid Cancer;incl. Pleuropulmonary Blastoma, Familial ; Cystic Nephroma, Familial	AB028449	CCDS9931.1, CCDS55941.1	14q32.13	2014-09-17	2008-02-20		ENSG00000100697	ENSG00000100697			17098	protein-coding gene	gene with protein product	"dicer 1, double-stranded RNA-specific endoribonuclease"	606241	"Dicer1, Dcr-1 homolog (Drosophila)", "multinodular goitre 1"	MNG1		10051563, 10786632, 21205968	Standard	NM_177438		Approved	Dicer, KIAA0928, K12H4.8-LIKE, HERNA	uc001ydw.2	Q9UPY3	OTTHUMG00000166134	ENST00000526495.1:c.1908-1A>G	14.37:g.95579561T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A7E2D3|B3KRG4|E0AD28|O95943|Q9UQ02	Silent	SNP	ENST00000526495.1	37	CCDS9931.1																																																																																				0.383	DICER1-004	KNOWN	alternative_5_UTR|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000387997.1		Silent	C	95579561	T	C	95579561	5	2	643	1	0	0	0	0	0	0	1	0	4523	1449	50	3	3924	3	DICER1	14	95579561	Splice_Site	SNP	T	TCGA-KL-8344-01A-11D-2310-10	76201757	95579561	11769979	50	39829										
MGA	23269	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr15	42034895	42034895	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	tctccagtaatggtcgtcacAcctgtggtttcttctgagcc	9	12	4	1			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr15:42034895A>G	ENST00000570161.1	+	14	4737	c.4737A>G	c.(4735-4737)acA>acG	p.T1579T	MGA_ENST00000219905.7_Silent_p.T1579T|MGA_ENST00000566586.1_Intron|MGA_ENST00000545763.1_Intron|MGA_ENST00000389936.4_Silent_p.T1579T			O43451	MGA_HUMAN	MGA, MAX dimerization protein	0	Glucoamylase.				carbohydrate metabolic process (GO:0005975)|polysaccharide digestion (GO:0044245)|small molecule metabolic process (GO:0044281)|starch catabolic process (GO:0005983)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	alpha-1,4-glucosidase activity (GO:0004558)|amylase activity (GO:0016160)|carbohydrate binding (GO:0030246)|catalytic activity (GO:0003824)|glucan 1,4-alpha-glucosidase activity (GO:0004339)|maltose alpha-glucosidase activity (GO:0032450)			NS(1)|breast(4)|central_nervous_system(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(18)|lung(33)|ovary(8)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	95		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)	Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	TGGTCGTCACACCTGTGGTTT	0.502																																																0													71	73	72					15																	42034895		1986	4165	6151	SO:0001819	synonymous_variant	23269			AB011090	CCDS55959.1, CCDS55960.1	15q15	2012-11-15	2012-11-15		ENSG00000174197	ENSG00000174197		"MAX dimerization proteins", "T-boxes"	14010	protein-coding gene	gene with protein product			"MAX gene associated"				Standard	NM_001080541		Approved	KIAA0518, MAD5, MXD5, FLJ12634	uc010ucy.2	Q8IWI9		ENST00000570161.1:c.4737A>G	15.37:g.42034895A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAX6|Q75ME7|Q86UM5	Silent	SNP	ENST00000570161.1	37	CCDS55959.1																																																																																				0.502	MGA-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000420229.1	NM_001164273.1		G	42034895	A	G	42034895	2	3	643	1	0	0	0	0	0	0	0	1	9547	146	6	3		3	MGA	15	42034895	Silent	SNP	A	TCGA-KL-8344-01A-11D-2310-10		42034895	60496497	51	39830										
FBN1	2200	broad.mit.edu	37	chr15	48812976	48812976	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	cagctggttagagcagcgccCgtttgtcagagctgtgtaac	13	10	1	2	rs146726731		TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr15:48812976C>T	ENST00000316623.5	-	10	1482	c.1027G>A	c.(1027-1029)Ggg>Agg	p.G343R		NM_000138.4	NP_000129	P35555	FBN1_HUMAN	fibrillin 1	343	TB 2.				extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|heart development (GO:0007507)|kidney development (GO:0001822)|sequestering of BMP in extracellular matrix (GO:0035582)|sequestering of TGFbeta in extracellular matrix (GO:0035583)|skeletal system development (GO:0001501)	basement membrane (GO:0005604)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|microfibril (GO:0001527)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|extracellular matrix structural constituent (GO:0005201)			NS(1)|breast(5)|cervix(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(4)|kidney(6)|large_intestine(43)|liver(1)|lung(49)|ovary(4)|pancreas(1)|prostate(9)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	139		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GAGCAGCGCCCGTTTGTCAGA	0.517													C|||	1	0.000199681	0.0	0.0014	5008	,	,		19045	0.0		0.0	False		,,,				2504	0.0															0			GRCh37	CM067393	FBN1	M	rs146726731	C	ARG/GLY	0,4394		0,0,2197	77	67	70		1027	5.7	0.9	15	dbSNP_134	70	2,8590	2.2+/-6.3	0,2,4294	yes	missense	FBN1	NM_000138.4	125	0,2,6491	TT,TC,CC		0.0233,0.0,0.0154	possibly-damaging	343/2872	48812976	2,12984	2197	4296	6493	SO:0001583	missense	2200			X63556	CCDS32232.1	15q21.1	2014-09-17	2006-04-25			ENSG00000166147			3603	protein-coding gene	gene with protein product	"Marfan syndrome"	134797	"fibrillin 1 (Marfan syndrome)"	FBN, MFS1, WMS		10036187, 12525539	Standard	NM_000138		Approved	MASS, OCTD, SGS	uc001zwx.2	P35555		ENST00000316623.5:c.1027G>A	15.37:g.48812976C>T	ENSP00000325527:p.Gly343Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RUU0|D2JYH6|Q15972|Q75N87	Missense_Mutation	SNP	ENST00000316623.5	37	CCDS32232.1	1	4.578754578754579E-4	0	0.0	1	0.0027624309392265192	0	0.0	0	0.0	C	35	5.444036	0.96187	0.0	2.33E-4	ENSG00000166147	ENST00000316623	D	0.93426	-3.22	5.65	5.65	0.86999	Matrix fibril-associated (3);TGF-beta binding (1);	0.000000	0.85682	D	0.000000	D	0.96895	0.8986	M	0.81341	2.54	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.96255	0.9186	10	0.52906	T	0.07	.	19.9142	0.97043	0.0:1.0:0.0:0.0	.	343	P35555	FBN1_HUMAN	R	343	ENSP00000325527:G343R	ENSP00000325527:G343R	G	-	1	0	FBN1	46600268	1.000000	0.71417	0.922000	0.36590	0.921000	0.55340	7.639000	0.83342	2.941000	0.99782	0.655000	0.94253	GGG		0.517	FBN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000417355.1			T	48812976	C	T	48812976	3	4	643	1	0	0	0	0	1	0	0	0	5709	652	23	1	7816	1	FBN1	15	48812976	Missense_Mutation	SNP	C	TCGA-KL-8344-01A-11D-2310-10	6778081	48812976	53718416	52	39831										
PDPR	55066	broad.mit.edu;mdanderson.org	37	chr16	70161181	70161181	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	aggctggctgctggctctacCaggttctgtgctggcatcct	13	12	2	0			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr16:70161181C>T	ENST00000288050.4	+	4	1203	c.246C>T	c.(244-246)acC>acT	p.T82T	PDPR_ENST00000568530.1_Silent_p.T82T|PDPR_ENST00000398122.3_5'UTR	NM_017990.3	NP_060460.4	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory subunit	82					cellular metabolic process (GO:0044237)|glycine catabolic process (GO:0006546)|pyruvate metabolic process (GO:0006090)|regulation of acetyl-CoA biosynthetic process from pyruvate (GO:0010510)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|mitochondrial matrix (GO:0005759)	aminomethyltransferase activity (GO:0004047)|oxidoreductase activity (GO:0016491)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(2)|large_intestine(3)|lung(17)|skin(2)|stomach(3)	33				BRCA - Breast invasive adenocarcinoma(221;0.124)		CTGGCTCTACCAGGTTCTGTG	0.463																																																0													35	32	33					16																	70161181		1826	4064	5890	SO:0001819	synonymous_variant	55066				CCDS45520.1	16q22.1	2010-08-24			ENSG00000090857	ENSG00000090857			30264	protein-coding gene	gene with protein product						9395502	Standard	NM_017990		Approved	PDP3	uc002eyf.1	Q8NCN5		ENST00000288050.4:c.246C>T	16.37:g.70161181C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7E298|A8K8Y7|B3KSE1|Q6AI20|Q6AWC9	Silent	SNP	ENST00000288050.4	37	CCDS45520.1																																																																																				0.463	PDPR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000434502.1	NM_017990		T	70161181	C	T	70161181	2	4	643	1	0	0	0	0	0	0	0	1	11696	581	21	2		2	PDPR	16	70161181	Silent	SNP	C	TCGA-KL-8344-01A-11D-2310-10		70161181	20193572	53	39832										
KIAA0174	9798	ucsc.edu;mdanderson.org	37	chr16	71956529	71956529	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	ccaatgcccatgcccatgccCatgcctatgccatctgcaaa	6	17	1	0	rs28701631	byFrequency	TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr16:71956529C>T	ENST00000378799.6	+	7	1061	c.705C>T	c.(703-705)ccC>ccT	p.P235P	IST1_ENST00000538565.1_3'UTR|IST1_ENST00000329908.8_Silent_p.P235P|IST1_ENST00000535424.1_Silent_p.P248P|IST1_ENST00000538850.1_Silent_p.P87P|IST1_ENST00000544564.1_Silent_p.P235P|RP11-498D10.5_ENST00000567146.1_RNA|IST1_ENST00000541571.2_Silent_p.P235P|IST1_ENST00000606369.1_Silent_p.P87P|IST1_ENST00000378798.5_Silent_p.P235P			P53990	IST1_HUMAN	increased sodium tolerance 1 homolog (yeast)	233	Interaction with VPS37B.|Interaction with VTA1.				abscission (GO:0009838)|cell division (GO:0051301)|cytokinesis (GO:0000910)|establishment of protein localization (GO:0045184)|positive regulation of collateral sprouting (GO:0048672)|positive regulation of proteolysis (GO:0045862)|protein localization (GO:0008104)|viral capsid secondary envelopment (GO:0046745)|viral release from host cell (GO:0019076)	centrosome (GO:0005813)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extracellular vesicular exosome (GO:0070062)|Flemming body (GO:0090543)|midbody (GO:0030496)	MIT domain binding (GO:0090541)|protein complex binding (GO:0032403)|protein domain specific binding (GO:0019904)										tgcccatgcccatgcctatgc	0.483													C|||	230	0.0459265	0.0197	0.0274	5008	,	,		18639	0.0258		0.0427	False		,,,				2504	0.1186															0													101	73	83					16																	71956529		2198	4300	6498	SO:0001819	synonymous_variant	9798			BC004359	CCDS10905.1, CCDS59271.1, CCDS59272.1, CCDS59273.1, CCDS59274.1	16q22.2	2011-08-18	2011-08-18	2011-08-18	ENSG00000182149	ENSG00000182149			28977	protein-coding gene	gene with protein product			"KIAA0174"	KIAA0174		8724849, 19129480	Standard	NM_001270975		Approved		uc002fbm.2	P53990	OTTHUMG00000137597	ENST00000378799.6:c.705C>T	16.37:g.71956529C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8KAH5|J3QLU7|Q3SYM4|Q9BQ81|Q9BWN2	Silent	SNP	ENST00000378799.6	37	CCDS59272.1	58	0.026556776556776556	9	0.018292682926829267	10	0.027624309392265192	25	0.043706293706293704	14	0.018469656992084433	C	6.629	0.484439	0.12641	.	.	ENSG00000182149	ENST00000541848	.	.	.	.	.	.	.	0.095345	0.85682	D	0.000000	T	0.22551	0.0544	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.12967	-1.0527	4	0.26408	T	0.33	-5.2082	.	.	.	rs28701631	.	.	.	L	122	.	ENSP00000437499:P122L	P	+	2	0	KIAA0174	70514030	0.004000	0.15560	0.997000	0.53966	0.971000	0.66376	-3.311000	0.00517	0.361000	0.24292	0.366000	0.22137	CCA		0.483	IST1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269005.2	NM_014761		T	71956529	C	T	71956529	2	4	643	1	0	0	0	0	0	0	0	1	8165	581	21	2		2	KIAA0174	16	71956529	Silent	SNP	C	TCGA-KL-8344-01A-11D-2310-10	1795348	71956529	18398224	54	39833										
WDR59	79726	ucsc.edu	37	chr16	74942865	74942865	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	gtcatgggccttgtgaaataTaccaggtaacctaaaggagg	12	7	1	1	rs141093453	byFrequency	TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr16:74942865T>C	ENST00000262144.6	-	17	1783	c.1653A>G	c.(1651-1653)gtA>gtG	p.V551V		NM_030581.3	NP_085058.3	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	551										breast(3)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(13)|ovary(1)|prostate(1)	27						TTGTGAAATATACCAGGTAAC	0.547																																																0													90	79	83					16																	74942865		2198	4300	6498	SO:0001819	synonymous_variant	79726			AB067510	CCDS32488.1	16q22.3	2013-01-09				ENSG00000103091		"WD repeat domain containing"	25706	protein-coding gene	gene with protein product						11572484	Standard	XM_005256146		Approved	FLJ12270	uc002fdh.1	Q6PJI9		ENST00000262144.6:c.1653A>G	16.37:g.74942865T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KRC3|Q71RE7|Q96PW5|Q9BSW6|Q9HA43	Silent	SNP	ENST00000262144.6	37	CCDS32488.1																																																																																				0.547	WDR59-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410601.3	NM_030581		C	74942865	T	C	74942865	2	2	643	1	0	0	0	0	0	0	0	1	17320	1393	49	3		3	WDR59	16	74942865	Silent	SNP	T	TCGA-KL-8344-01A-11D-2310-10	2986336	74942865	15411888	55	39834										
TTC19	54902	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr17	15930770	15930770	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	gatgaaatttctgtacaacaCatcagggaagagttggctga	11	6	2	3			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr17:15930770C>T	ENST00000261647.5	+	10	1546	c.1077C>T	c.(1075-1077)caC>caT	p.H359H	TTC19_ENST00000486880.2_Silent_p.H480H|TTC19_ENST00000497842.2_3'UTR	NM_001271420.1|NM_017775.3	NP_001258349.1|NP_060245.3	Q6DKK2	TTC19_HUMAN	tetratricopeptide repeat domain 19	359					cytokinesis (GO:0000910)|mitochondrial respiratory chain complex III assembly (GO:0034551)	centrosome (GO:0005813)|midbody (GO:0030496)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)				central_nervous_system(1)|lung(2)|skin(1)|stomach(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		CTGTACAACACATCAGGGAAG	0.378																																																0													116	106	109					17																	15930770		2203	4300	6503	SO:0001819	synonymous_variant	54902			AK094819	CCDS11174.1, CCDS11174.2	17p11.2	2013-01-11			ENSG00000011295	ENSG00000011295		"Tetratricopeptide (TTC) repeat domain containing"	26006	protein-coding gene	gene with protein product		613814					Standard	NM_017775		Approved	FLJ20343, MGC19520	uc002gph.3	Q6DKK2	OTTHUMG00000059306	ENST00000261647.5:c.1077C>T	17.37:g.15930770C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MZ52|B3KP62|B4DN65|Q2M248|Q7L3U8|Q9H6G3|Q9NXB2	Silent	SNP	ENST00000261647.5	37	CCDS11174.2																																																																																				0.378	TTC19-001	NOVEL	upstream_ATG|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000131725.6	NM_017775		T	15930770	C	T	15930770	2	4	643	1	0	0	0	0	0	0	0	1	16698	477	17	2		2	TTC19	17	15930770	Silent	SNP	C	TCGA-KL-8344-01A-11D-2310-10		15930770	65264440	56	39835										
GGNBP2	79893	broad.mit.edu	37	chr17	34942391	34942391	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	ggcatttgtaatcatgatgaAcacggtaggctcacattaag	10	7	2	2			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr17:34942391A>G	ENST00000304718.4	+	11	1804	c.1488A>G	c.(1486-1488)gaA>gaG	p.E496E		NM_024835.3	NP_079111.1	Q9H3C7	GGNB2_HUMAN	gametogenetin binding protein 2	496					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	cytoplasmic vesicle (GO:0031410)|nucleus (GO:0005634)		p.E496E(1)		breast(1)|endometrium(4)|kidney(3)|large_intestine(7)|liver(1)|lung(14)|ovary(3)|pancreas(1)|prostate(2)|skin(1)|stomach(1)	38		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		ATCATGATGAACACGGTAGGC	0.413																																																1	Substitution - coding silent(1)	endometrium(1)											172	175	174					17																	34942391		2203	4300	6503	SO:0001819	synonymous_variant	79893			AF126964	CCDS11314.1	17q21.1	2014-05-06	2007-08-20	2007-08-20	ENSG00000005955	ENSG00000278311			19357	protein-coding gene	gene with protein product		612275	"zinc finger protein 403"	ZNF403		11728448	Standard	NM_024835		Approved	ZFP403, LZK1, FLJ22561, FLJ21230, DIF-3, DIF3	uc002hnb.3	Q9H3C7	OTTHUMG00000188440	ENST00000304718.4:c.1488A>G	17.37:g.34942391A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RPK7|Q96T90|Q9GZR8|Q9H767	Silent	SNP	ENST00000304718.4	37	CCDS11314.1																																																																																				0.413	GGNBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256684.2	NM_024835		G	34942391	A	G	34942391	2	3	643	1	0	0	0	0	0	0	0	1	6366	40	2	3		3	GGNBP2	17	34942391	Silent	SNP	A	TCGA-KL-8344-01A-11D-2310-10	19011621	34942391	46252819	57	39836										
SYT4	6860	hgsc.bcm.edu;ucsc.edu	37	chr18	40850387	40850387	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	ttccagtgctctccaccagtTccttctgctgctgcacccaa	6	17	2	0			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr18:40850387T>C	ENST00000255224.3	-	4	1565	c.1197A>G	c.(1195-1197)ggA>ggG	p.G399G	SYT4_ENST00000586678.1_5'UTR|SYT4_ENST00000590752.1_Silent_p.G381G	NM_020783.3	NP_065834.1	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	399					exocytosis (GO:0006887)|negative regulation of calcium ion-dependent exocytosis (GO:0045955)|negative regulation of vesicle fusion (GO:0031339)|neurotransmitter secretion (GO:0007269)	cell junction (GO:0030054)|dense core granule (GO:0031045)|integral component of membrane (GO:0016021)|neuron projection (GO:0043005)|perinuclear region of cytoplasm (GO:0048471)|synaptic vesicle (GO:0008021)	calcium ion binding (GO:0005509)|phosphatidylserine binding (GO:0001786)|transporter activity (GO:0005215)			breast(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(25)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)	44						CTCCACCAGTTCCTTCTGCTG	0.493																																					NSCLC(85;81 1419 2855 22820 35912)											0													156	155	156					18																	40850387		2203	4300	6503	SO:0001819	synonymous_variant	6860			BC036538	CCDS11922.1	18q12.3	2013-01-21			ENSG00000132872	ENSG00000132872		"Synaptotagmins"	11512	protein-coding gene	gene with protein product		600103				8058779	Standard	NM_020783		Approved	KIAA1342, HsT1192	uc002law.3	Q9H2B2	OTTHUMG00000132610	ENST00000255224.3:c.1197A>G	18.37:g.40850387T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DEU3|Q9P2K4	Silent	SNP	ENST00000255224.3	37	CCDS11922.1																																																																																				0.493	SYT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255851.2	NM_020783		C	40850387	T	C	40850387	2	2	643	1	0	0	0	0	0	0	0	1	15488	1770	62	3		3	SYT4	18	40850387	Silent	SNP	T	TCGA-KL-8344-01A-11D-2310-10		40850387	37226861	58	39837										
ZNF98	148198	mdanderson.org	37	chr19	22575313	22575313	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	gttaaaggcttttccacactCttcgcatttgtagggtttct	8	9	2	0			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr19:22575313C>G	ENST00000357774.5	-	4	845	c.724G>C	c.(724-726)Gag>Cag	p.E242Q		NM_001098626.1	NP_001092096.1	A6NK75	ZNF98_HUMAN	zinc finger protein 98	242					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(8)|lung(16)|ovary(1)|prostate(4)|skin(1)|upper_aerodigestive_tract(2)	37		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				TTTCCACACTCTTCGCATTTG	0.393																																																0													7	8	8					19																	22575313		1692	3884	5576	SO:0001583	missense	148198				CCDS46031.1	19p12	2014-02-14	2010-04-20	2008-06-12	ENSG00000197360	ENSG00000197360		"Zinc fingers, C2H2-type", "-"	13174	protein-coding gene	gene with protein product	"zinc finger protein 739"	603980					Standard	NM_001098626		Approved	ZNF739, F7175	uc002nqt.2	A6NK75	OTTHUMG00000182940	ENST00000357774.5:c.724G>C	19.37:g.22575313C>G	ENSP00000350418:p.Glu242Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000357774.5	37	CCDS46031.1	.	.	.	.	.	.	.	.	.	.	.	1.943	-0.443228	0.04604	.	.	ENSG00000197360	ENST00000357774	T	0.36157	1.27	1.41	-2.82	0.05787	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.22859	0.0552	N	0.20610	0.595	0.09310	N	1	B	0.29671	0.254	B	0.34991	0.193	T	0.20605	-1.0270	9	0.45353	T	0.12	.	7.4838	0.27421	0.0:0.4744:0.3911:0.1345	.	242	A6NK75	ZNF98_HUMAN	Q	242	ENSP00000350418:E242Q	ENSP00000350418:E242Q	E	-	1	0	ZNF98	22367153	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-1.654000	0.01984	-2.230000	0.00719	-1.816000	0.00601	GAG		0.393	ZNF98-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464398.1	NM_001098626		G	22575313	C	G	22575313	3	3	643	1	0	0	0	0	1	0	0	0	18215	922	32	4	998	4	ZNF98	19	22575313	Missense_Mutation	SNP	C	TCGA-KL-8344-01A-11D-2310-10		22575313	36553670	59	39838										
ZNF98	148198	broad.mit.edu;mdanderson.org	37	chr19	22575373	22575373	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	atgtgtagaaaggtttgaggCctcattataggctttcccac	10	8	1	2	rs201074450		TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr19:22575373C>T	ENST00000357774.5	-	4	785	c.664G>A	c.(664-666)Gcc>Acc	p.A222T		NM_001098626.1	NP_001092096.1	A6NK75	ZNF98_HUMAN	zinc finger protein 98	222					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(8)|lung(16)|ovary(1)|prostate(4)|skin(1)|upper_aerodigestive_tract(2)	37		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				AGGTTTGAGGCCTCATTATAG	0.383																																																0													12	13	13					19																	22575373		1871	4124	5995	SO:0001583	missense	148198				CCDS46031.1	19p12	2014-02-14	2010-04-20	2008-06-12	ENSG00000197360	ENSG00000197360		"Zinc fingers, C2H2-type", "-"	13174	protein-coding gene	gene with protein product	"zinc finger protein 739"	603980					Standard	NM_001098626		Approved	ZNF739, F7175	uc002nqt.2	A6NK75	OTTHUMG00000182940	ENST00000357774.5:c.664G>A	19.37:g.22575373C>T	ENSP00000350418:p.Ala222Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000357774.5	37	CCDS46031.1	.	.	.	.	.	.	.	.	.	.	.	4.784	0.145770	0.09134	.	.	ENSG00000197360	ENST00000357774	T	0.33654	1.4	1.28	-1.83	0.07833	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.18002	0.0432	N	0.17674	0.51	0.09310	N	1	B	0.22541	0.071	B	0.25987	0.065	T	0.27262	-1.0079	9	0.39692	T	0.17	.	0.0814	0.00032	0.2369:0.2268:0.2367:0.2996	.	222	A6NK75	ZNF98_HUMAN	T	222	ENSP00000350418:A222T	ENSP00000350418:A222T	A	-	1	0	ZNF98	22367213	0.000000	0.05858	0.001000	0.08648	0.138000	0.21146	-0.793000	0.04589	-0.223000	0.09943	0.305000	0.20034	GCC		0.383	ZNF98-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464398.1	NM_001098626		T	22575373	C	T	22575373	3	4	643	1	0	0	0	0	1	0	0	0	18215	739	26	2	1058	2	ZNF98	19	22575373	Missense_Mutation	SNP	C	TCGA-KL-8344-01A-11D-2310-10	60	22575373	36553610	60	39839										
FBXO17	115290	broad.mit.edu	37	chr19	39440795	39440795	+	Frame_Shift_Del	DEL	C	C	-													0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	tgcagcagccacacagtgggCccgtccactatgtcgcgcca							TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr19:39440795delC	ENST00000292852.4	-	2	506	c.165delG	c.(163-165)gggfs	p.G55fs	FBXO17_ENST00000595329.1_Frame_Shift_Del_p.G55fs|SARS2_ENST00000448145.2_5'Flank|CTC-360G5.8_ENST00000599996.1_5'Flank	NM_024907.5	NP_079183.4	Q96EF6	FBX17_HUMAN	F-box protein 17	55	F-box. {ECO:0000255|PROSITE- ProRule:PRU00080}.					SCF ubiquitin ligase complex (GO:0019005)	glycoprotein binding (GO:0001948)			breast(1)|endometrium(1)|large_intestine(1)|lung(3)|prostate(1)	7	all_cancers(60;8.37e-07)|all_lung(34;3.71e-07)|Lung NSC(34;4.17e-07)|all_epithelial(25;1.13e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			ACACAGTGGGCCCGTCCACTA	0.711																																																0													7	6	6					19																	39440795		2045	4039	6084	SO:0001589	frameshift_variant	115290			AF386743	CCDS12526.1	19q13.2	2010-07-02	2004-06-15	2004-06-16		ENSG00000269190		"F-boxes /  "other""	18754	protein-coding gene	gene with protein product	"F-box only protein 26"	609094	"F-box only protein 17"	FBXO26			Standard	NM_148169		Approved	FBG4, FLJ25205, MGC9379, FLJ11798, Fbx17		Q96EF6		ENST00000292852.4:c.165delG	19.37:g.39440795delC	ENSP00000292852:p.Gly55fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q96LQ4	Frame_Shift_Del	DEL	ENST00000292852.4	37	CCDS12526.1																																																																																				0.711	FBXO17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463273.1	NM_024907		-	39440795	C	-	39440795	7	5	643	1	0	1	0	1	0	0	0	0	5737	726	26	0	691	0	FBXO17	19	39440795	Frame_Shift_Del	DEL	C	TCGA-KL-8344-01A-11D-2310-10	16865422	39440795	19688188	61	39840										
NOSIP	51070	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr19	50059875	50059875	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	tcacggcacacacgtagcgcTcgctgcgggtgatgagcccc	13	15	1	2			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr19:50059875T>C	ENST00000596358.1	-	7	714	c.656A>G	c.(655-657)gAg>gGg	p.E219G	NOSIP_ENST00000339093.3_Missense_Mutation_p.E222G|NOSIP_ENST00000391853.3_Missense_Mutation_p.E219G	NM_001270960.1	NP_001257889.1	Q9Y314	NOSIP_HUMAN	nitric oxide synthase interacting protein	219					negative regulation of catalytic activity (GO:0043086)|negative regulation of nitric-oxide synthase activity (GO:0051001)|nitric oxide metabolic process (GO:0046209)|regulation of nitric-oxide synthase activity (GO:0050999)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi membrane (GO:0000139)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			cervix(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(1)|ovary(1)|skin(2)|urinary_tract(1)	11		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00321)|GBM - Glioblastoma multiforme(134;0.0133)		CACGTAGCGCTCGCTGCGGGT	0.692																																																0													35	31	33					19																	50059875		2203	4299	6502	SO:0001583	missense	51070			AF132959	CCDS12772.1	19q13.3	2008-02-05				ENSG00000142546			17946	protein-coding gene	gene with protein product						11149895, 10810093	Standard	NM_015953		Approved	CGI-25	uc002pol.4	Q9Y314		ENST00000596358.1:c.656A>G	19.37:g.50059875T>C	ENSP00000470034:p.Glu219Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q96FD2	Missense_Mutation	SNP	ENST00000596358.1	37	CCDS12772.1	.	.	.	.	.	.	.	.	.	.	T	17.20	3.328939	0.60743	.	.	ENSG00000142546	ENST00000339093;ENST00000391853	T	0.76186	-1.0	4.62	4.62	0.57501	.	0.054667	0.64402	D	0.000001	T	0.51736	0.1692	N	0.03268	-0.37	0.53688	D	0.999972	P	0.47545	0.897	B	0.42214	0.38	T	0.55315	-0.8160	10	0.21540	T	0.41	-51.4282	13.146	0.59461	0.0:0.0:0.0:1.0	.	219	Q9Y314	NOSIP_HUMAN	G	219	ENSP00000375726:E219G	ENSP00000343497:E219G	E	-	2	0	NOSIP	54751687	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	6.677000	0.74503	1.951000	0.56629	0.379000	0.24179	GAG		0.692	NOSIP-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000465423.1			C	50059875	T	C	50059875	3	2	643	1	0	0	0	0	1	0	0	0	10552	1551	54	3	261	3	NOSIP	19	50059875	Missense_Mutation	SNP	T	TCGA-KL-8344-01A-11D-2310-10	10619080	50059875	9069108	62	39841										
ZNF814	730051	bcgsc.ca	37	chr19	58385788	58385788	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	cccacattctccacattcatAaggtcttttcccagtgtgaa	5	13	3	1			TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr19:58385788A>G	ENST00000435989.2	-	3	1204	c.970T>C	c.(970-972)Tat>Cat	p.Y324H	ZNF814_ENST00000597832.1_Intron|ZNF814_ENST00000595295.1_Intron|ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000597342.1_Intron|ZNF814_ENST00000596604.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	324					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						CCACATTCATAAGGTCTTTTC	0.358																																																0													15	12	13					19																	58385788		688	1564	2252	SO:0001583	missense	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.970T>C	19.37:g.58385788A>G	ENSP00000410545:p.Tyr324His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF35	Missense_Mutation	SNP	ENST00000435989.2	37	CCDS46212.1	.	.	.	.	.	.	.	.	.	.	.	8.644	0.896732	0.17686	.	.	ENSG00000204514	ENST00000435989	T	0.21734	1.99	2.27	-1.27	0.09347	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (2);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.13970	0.0338	L	0.33485	1.01	0.09310	N	1	B	0.27498	0.18	B	0.22386	0.039	T	0.24368	-1.0162	9	0.72032	D	0.01	.	7.1587	0.25652	0.6135:0.0:0.3865:0.0	.	324	B7Z6K7	ZN814_HUMAN	H	324	ENSP00000410545:Y324H	ENSP00000410545:Y324H	Y	-	1	0	ZNF814	63077600	0.000000	0.05858	0.008000	0.14137	0.034000	0.12701	0.130000	0.15850	-0.181000	0.10619	0.113000	0.15668	TAT		0.358	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		G	58385788	A	G	58385788	3	3	643	1	0	0	0	0	1	0	0	0	18188	362	13	3	1601	3	ZNF814	19	58385788	Missense_Mutation	SNP	A	TCGA-KL-8344-01A-11D-2310-10	8325913	58385788	743195	63	39842										
TFAP2C	7022	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr20	55208518	55208518	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	tcagtccctggaagattgtcGctcctcagctctacgtctaa	8	13	4	1	rs146916115	byFrequency	TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr20:55208518G>A	ENST00000201031.2	+	4	939	c.696G>A	c.(694-696)tcG>tcA	p.S232S	TFAP2C_ENST00000544508.1_Silent_p.S63S	NM_003222.3	NP_003213.1	Q92754	AP2C_HUMAN	transcription factor AP-2 gamma (activating enhancer binding protein 2 gamma)	232					cell-cell signaling (GO:0007267)|cerebral cortex development (GO:0021987)|dichotomous subdivision of terminal units involved in mammary gland duct morphogenesis (GO:0060598)|epithelial cell proliferation involved in mammary gland duct elongation (GO:0060750)|forebrain neuron fate commitment (GO:0021877)|germ-line stem cell maintenance (GO:0030718)|hair follicle development (GO:0001942)|keratinocyte development (GO:0003334)|male gonad development (GO:0008584)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of epidermis development (GO:0045682)|regulation of gene expression, epigenetic (GO:0040029)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|sebaceous gland development (GO:0048733)|somatic stem cell maintenance (GO:0035019)|trophectodermal cell differentiation (GO:0001829)	nucleus (GO:0005634)	core promoter binding (GO:0001047)|DNA binding (GO:0003677)|protein dimerization activity (GO:0046983)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	13			Colorectal(105;0.229)			GAAGATTGTCGCTCCTCAGCT	0.537													G|||	3	0.000599042	0.0015	0.0014	5008	,	,		16452	0.0		0.0	False		,,,				2504	0.0															0								G		9,4397	15.5+/-35.6	0,9,2194	102	85	91		696	-1.4	1	20	dbSNP_134	91	0,8600		0,0,4300	no	coding-synonymous	TFAP2C	NM_003222.3		0,9,6494	AA,AG,GG		0.0,0.2043,0.0692		232/451	55208518	9,12997	2203	4300	6503	SO:0001819	synonymous_variant	7022				CCDS13454.1	20q13.2	2008-07-17	2001-11-28		ENSG00000087510	ENSG00000087510			11744	protein-coding gene	gene with protein product	"estrogen receptor factor 1"	601602	"transcription factor AP-2 gamma (activating enhancer-binding protein 2 gamma)"			8661133	Standard	NM_003222		Approved	AP2-GAMMA, ERF1, TFAP2G, hAP-2g	uc002xya.3	Q92754	OTTHUMG00000032805	ENST00000201031.2:c.696G>A	20.37:g.55208518G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DWK3|O00685|O00730|Q86V30|Q8IVB6|Q9P1X2	Silent	SNP	ENST00000201031.2	37	CCDS13454.1																																																																																				0.537	TFAP2C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079823.2	NM_003222		A	55208518	G	A	55208518	2	1	643	1	0	0	0	0	0	0	0	1	15801	1074	38	1		1	TFAP2C	20	55208518	Silent	SNP	G	TCGA-KL-8344-01A-11D-2310-10		55208518	7817002	64	39843										
FAM118A	55007	mdanderson.org	37	chr22	45723898	45723898	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	gctggaggcctttggccggcGgcagaacaagcccatggagt	16	11	0	1	rs62001863	byFrequency	TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chr22:45723898G>A	ENST00000216214.3	+	5	1310	c.476G>A	c.(475-477)cGg>cAg	p.R159Q	FAM118A_ENST00000441876.2_Missense_Mutation_p.R159Q|FAM118A_ENST00000405548.3_5'Flank|FAM118A_ENST00000405673.1_Missense_Mutation_p.R159Q	NM_001104595.1	NP_001098065.1	Q9NWS6	F118A_HUMAN	family with sequence similarity 118, member A	159						integral component of membrane (GO:0016021)				endometrium(2)|kidney(2)|large_intestine(2)|lung(3)|stomach(1)|upper_aerodigestive_tract(1)	11		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		TTTGGCCGGCGGCAGAACAAG	0.627																																																0													21	19	20					22																	45723898		2203	4300	6503	SO:0001583	missense	55007			BC013696	CCDS14065.1	22q13.3	2006-04-26	2006-04-26	2006-04-26	ENSG00000100376	ENSG00000100376			1313	protein-coding gene	gene with protein product			"chromosome 22 open reading frame 8"	C22orf8		12477932	Standard	NM_001104595		Approved	FLJ20635, bK268H5.C22.4	uc003bga.4	Q9NWS6	OTTHUMG00000151338	ENST00000216214.3:c.476G>A	22.37:g.45723898G>A	ENSP00000216214:p.Arg159Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWG4|B4DY02|Q5TII5|Q96CY3	Missense_Mutation	SNP	ENST00000216214.3	37	CCDS14065.1	32	0.014652014652014652	0	0.0	8	0.022099447513812154	4	0.006993006993006993	20	0.026385224274406333	A	2.466	-0.322915	0.05350	.	.	ENSG00000100376	ENST00000216214;ENST00000441876;ENST00000405673	T;T;T	0.39997	1.05;1.05;1.06	5.03	2.76	0.32466	.	0.061927	0.64402	N	0.000004	T	0.05686	0.0149	N	0.04959	-0.14	0.80722	D	1	B	0.02656	0.0	B	0.04013	0.001	T	0.07790	-1.0754	10	0.09338	T	0.73	-1.1554	6.502	0.22174	0.7238:0.1301:0.1461:0.0	rs62001863	159	Q9NWS6	F118A_HUMAN	Q	159	ENSP00000216214:R159Q;ENSP00000395892:R159Q;ENSP00000385231:R159Q	ENSP00000216214:R159Q	R	+	2	0	FAM118A	44102562	1.000000	0.71417	0.991000	0.47740	0.252000	0.25951	5.600000	0.67599	0.241000	0.21283	-0.524000	0.04348	CGG		0.627	FAM118A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322260.1	NM_017911		A	45723898	G	A	45723898	3	1	643	1	0	0	0	0	1	0	0	0	5415	1116	39	1	486	1	FAM118A	22	45723898	Missense_Mutation	SNP	G	TCGA-KL-8344-01A-11D-2310-10		45723898	5580668	65	39844										
AR	367	hgsc.bcm.edu	37	chrX	66765207	66765208	+	Missense_Mutation	DNP	GC	GC	AG													0.0153846153846154	1	1	0.344002151694459	2.52268244575937	0	1	1	0	cagcagcagcagcagcagcaGcagcagcagcagcagcagca							TCGA-KL-8344-01A-11D-2310-10	TCGA-KL-8344-11A-01D-2310-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	3ace181a-23bd-424e-a87e-e0c01a2a2cb8	d0764fec-581b-4bd3-afe8-adcdf685562a	g.chrX:66765207_66765208GC>AG	ENST00000374690.3	+	1	743_744	c.219_220GC>AG	c.(217-222)caGCag>caAGag	p.Q74E	AR_ENST00000504326.1_Missense_Mutation_p.Q74E|AR_ENST00000513847.1_3'UTR|AR_ENST00000396044.3_Missense_Mutation_p.Q74E	NM_000044.3	NP_000035.2	P10275	ANDR_HUMAN	androgen receptor	74	Gln-rich.|Modulating.|Poly-Gln.		Missing.		androgen receptor signaling pathway (GO:0030521)|cell death (GO:0008219)|cell growth (GO:0016049)|cell proliferation (GO:0008283)|cell-cell signaling (GO:0007267)|gene expression (GO:0010467)|intracellular receptor signaling pathway (GO:0030522)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of integrin biosynthetic process (GO:0045720)|positive regulation of cell proliferation (GO:0008284)|positive regulation of integrin biosynthetic process (GO:0045726)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of phosphorylation (GO:0042327)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|positive regulation of transcription, DNA-templated (GO:0045893)|prostate gland development (GO:0030850)|protein oligomerization (GO:0051259)|regulation of establishment of protein localization to plasma membrane (GO:0090003)|sex differentiation (GO:0007548)|signal transduction (GO:0007165)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transport (GO:0006810)	cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|protein complex (GO:0043234)	androgen binding (GO:0005497)|androgen receptor activity (GO:0004882)|beta-catenin binding (GO:0008013)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|protein dimerization activity (GO:0046983)|receptor binding (GO:0005102)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II transcription factor binding (GO:0001085)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)			breast(4)|central_nervous_system(2)|cervix(1)|endometrium(8)|kidney(1)|large_intestine(12)|lung(20)|ovary(3)|prostate(11)|stomach(2)|upper_aerodigestive_tract(3)	67	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone acetate(DB04839)|Danazol(DB01406)|Drospirenone(DB01395)|Drostanolone(DB00858)|Enzalutamide(DB08899)|Fludrocortisone(DB00687)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Ketoconazole(DB01026)|Levonorgestrel(DB00367)|Methyltestosterone(DB06710)|Nandrolone decanoate(DB08804)|Nandrolone phenpropionate(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Spironolactone(DB00421)|Testosterone Propionate(DB01420)|Testosterone(DB00624)	agcagcagcagcagcagcagca	0.668									Androgen Insensitivity Syndrome																																							0																																										SO:0001583	missense	367	Familial Cancer Database	CAIS, Testicular Feminisation, AIS, Morris syndrome; incl. Reifenstein Syndrome	M20132	CCDS14387.1, CCDS43965.1	Xq12	2013-01-16	2008-08-07		ENSG00000169083	ENSG00000169083		"Nuclear hormone receptors"	644	protein-coding gene	gene with protein product	"testicular feminization", "Kennedy disease"	313700	"dihydrotestosterone receptor", "spinal and bulbar muscular atrophy"	DHTR, SBMA		3353726, 3377788	Standard	NM_000044		Approved	AIS, NR3C4, SMAX1, HUMARA	uc004dwu.2	P10275	OTTHUMG00000021740	Exception_encountered	X.37:g.66765207_66765208delinsAG	ENSP00000363822:p.Gln74Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A2RUN2|B1AKD7|Q9UD95	Missense_Mutation	DNP	ENST00000374690.3	37	CCDS14387.1																																																																																				0.668	AR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057007.1	NM_000044		AG	66765208	GC	AG	66765207	3	1	643	1	0	0	0	0	1	0	0	0	836	962	34	2	221	2	AR	23	66765207	Missense_Mutation	DNP	GC	TCGA-KL-8344-01A-11D-2310-10		66765207	88505353	66	39845										
KIAA2013	90231	mdanderson.org	37	chr1	11985396	11985396	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	ccttggctgctttgcttttgAgcacctgggggttaatgggg	15	8	0	1			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr1:11985396A>G	ENST00000376572.3	-	1	1084	c.899T>C	c.(898-900)cTc>cCc	p.L300P	KIAA2013_ENST00000376576.3_Missense_Mutation_p.L300P	NM_138346.2	NP_612355.1	Q8IYS2	K2013_HUMAN	KIAA2013	300						integral component of membrane (GO:0016021)|membrane (GO:0016020)				endometrium(1)|lung(3)|ovary(1)|prostate(1)|skin(1)	7	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00149)|all_lung(284;0.00189)|Breast(348;0.00586)|Colorectal(325;0.0062)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0556)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.88e-06)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TTTGCTTTTGAGCACCTGGGG	0.597																																																0													63	62	62					1																	11985396		2203	4300	6503	SO:0001583	missense	90231			AB095933	CCDS141.1	1p36.22	2011-02-09			ENSG00000116685	ENSG00000116685			28513	protein-coding gene	gene with protein product						12477932	Standard	NM_138346		Approved	MGC33867, RP5-1077B9.1	uc001atk.3	Q8IYS2	OTTHUMG00000002391	ENST00000376572.3:c.899T>C	1.37:g.11985396A>G	ENSP00000365756:p.Leu300Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JXC1|Q8IVF8|Q8NDI7|Q9BSY1	Missense_Mutation	SNP	ENST00000376572.3	37	CCDS141.1	.	.	.	.	.	.	.	.	.	.	A	11.11	1.542851	0.27563	.	.	ENSG00000116685	ENST00000376572;ENST00000376576	.	.	.	3.9	3.9	0.45041	.	0.451826	0.20244	N	0.096238	T	0.53706	0.1813	L	0.40543	1.245	0.54753	D	0.999987	D;D	0.69078	0.997;0.97	P;P	0.62382	0.901;0.859	T	0.50110	-0.8866	9	0.27082	T	0.32	-7.7378	5.53	0.16978	0.8693:0.0:0.1307:0.0	.	300;300	Q8IYS2-2;Q8IYS2	.;K2013_HUMAN	P	300	.	ENSP00000365756:L300P	L	-	2	0	KIAA2013	11907983	1.000000	0.71417	1.000000	0.80357	0.916000	0.54674	3.737000	0.55060	1.767000	0.52121	0.421000	0.28195	CTC		0.597	KIAA2013-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006858.1	NM_138346		G	11985396	A	G	11985396	3	3	644	1	0	0	0	0	1	0	0	0	8274	304	11	3	1017	3	KIAA2013	1	11985396	Missense_Mutation	SNP	A	TCGA-KL-8345-01A-11D-2310-10		11985396	237265225	1	39846										
KIF2C	11004	ucsc.edu	37	chr1	45228320	45228320	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	ggctatggaagagctcaaggAgatcatacaggtaggcagct	14	7	2	2			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr1:45228320A>G	ENST00000372224.4	+	19	2074	c.1961A>G	c.(1960-1962)gAg>gGg	p.E654G	RP11-269F19.2_ENST00000428791.1_RNA|KIF2C_ENST00000372218.4_Missense_Mutation_p.E613G|RP11-269F19.2_ENST00000440985.1_RNA|KIF2C_ENST00000372217.1_Missense_Mutation_p.E600G|KIF2C_ENST00000372222.3_Missense_Mutation_p.E541G	NM_006845.3	NP_006836.2	Q99661	KIF2C_HUMAN	kinesin family member 2C	654					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|blood coagulation (GO:0007596)|cell proliferation (GO:0008283)|chromosome segregation (GO:0007059)|establishment or maintenance of microtubule cytoskeleton polarity (GO:0030951)|metabolic process (GO:0008152)|microtubule depolymerization (GO:0007019)|microtubule-based movement (GO:0007018)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|regulation of chromosome segregation (GO:0051983)	chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|kinesin complex (GO:0005871)|kinetochore (GO:0000776)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|microtubule plus-end (GO:0035371)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|centromeric DNA binding (GO:0019237)|microtubule motor activity (GO:0003777)|microtubule plus-end binding (GO:0051010)			breast(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(16)|ovary(1)|skin(1)|urinary_tract(1)	34	Acute lymphoblastic leukemia(166;0.155)					GAGCTCAAGGAGATCATACAG	0.552																																																0													101	86	91					1																	45228320		2203	4300	6503	SO:0001583	missense	11004			U63743	CCDS512.1, CCDS72774.1	1p34.1	2014-01-21	2003-01-13	2003-01-17	ENSG00000142945	ENSG00000142945		"Kinesins"	6393	protein-coding gene	gene with protein product		604538	"kinesin-like 6 (mitotic centromere-associated kinesin)"	KNSL6		9434124	Standard	NM_006845		Approved	MCAK, CT139	uc001cmg.4	Q99661	OTTHUMG00000008416	ENST00000372224.4:c.1961A>G	1.37:g.45228320A>G	ENSP00000361298:p.Glu654Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3ITR9|Q5JR88|Q6ICU1|Q96C18|Q96HB8|Q9BWV8	Missense_Mutation	SNP	ENST00000372224.4	37	CCDS512.1	.	.	.	.	.	.	.	.	.	.	A	14.62	2.589719	0.46214	.	.	ENSG00000142945	ENST00000372224;ENST00000372218;ENST00000372222;ENST00000372217	T;T;T;T	0.75938	-0.96;-0.78;-0.97;-0.98	5.95	4.8	0.61643	.	0.237765	0.41097	D	0.000955	T	0.55449	0.1921	N	0.08118	0	0.46678	D	0.999159	B;B;B	0.20550	0.046;0.002;0.001	B;B;B	0.20184	0.028;0.003;0.001	T	0.49021	-0.8982	10	0.32370	T	0.25	.	13.2066	0.59800	0.867:0.133:0.0:0.0	.	613;600;654	B7Z6Q6;Q99661-2;Q99661	.;.;KIF2C_HUMAN	G	654;613;541;600	ENSP00000361298:E654G;ENSP00000361292:E613G;ENSP00000361296:E541G;ENSP00000361291:E600G	ENSP00000361291:E600G	E	+	2	0	KIF2C	45000907	1.000000	0.71417	0.985000	0.45067	0.975000	0.68041	4.272000	0.58908	1.043000	0.40175	0.533000	0.62120	GAG		0.552	KIF2C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023180.1	NM_006845		G	45228320	A	G	45228320	3	3	644	1	0	0	0	0	1	0	0	0	8306	304	11	3	2035	3	KIF2C	1	45228320	Missense_Mutation	SNP	A	TCGA-KL-8345-01A-11D-2310-10	33242924	45228320	204022301	2	39847										
AGBL4	84871	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	49100247	49100247	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	gagagggatccagccagtgaCgattcagatcaaatcccatc	10	11	2	3			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr1:49100247C>T	ENST00000371839.1	-	9	985	c.869G>A	c.(868-870)cGt>cAt	p.R290H	AGBL4_ENST00000334103.7_Missense_Mutation_p.R23H|AGBL4_ENST00000371838.1_Missense_Mutation_p.R290H	NM_032785.3	NP_116174.3	Q5VU57	CBPC6_HUMAN	ATP/GTP binding protein-like 4	290					C-terminal protein deglutamylation (GO:0035609)|protein side chain deglutamylation (GO:0035610)	cytosol (GO:0005829)	metallocarboxypeptidase activity (GO:0004181)|tubulin binding (GO:0015631)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(4)|ovary(1)|stomach(1)	15				Colorectal(2;0.00349)|COAD - Colon adenocarcinoma(2;0.0037)		CAGCCAGTGACGATTCAGATC	0.468																																																0													85	87	86					1																	49100247		1975	4155	6130	SO:0001583	missense	84871			AK027348	CCDS44137.1	1p33	2014-06-23			ENSG00000186094	ENSG00000186094			25892	protein-coding gene	gene with protein product	"cytosolic carboxypeptidase 6"					21074048	Standard	NM_032785		Approved	FLJ14442, CCP6	uc001cru.2	Q5VU57	OTTHUMG00000007793	ENST00000371839.1:c.869G>A	1.37:g.49100247C>T	ENSP00000360905:p.Arg290His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KT26|B4DG37	Missense_Mutation	SNP	ENST00000371839.1	37	CCDS44137.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	33|33	5.194569|5.194569	0.94960|0.94960	.|.	.|.	ENSG00000186094|ENSG00000186094	ENST00000371839;ENST00000411952;ENST00000334103;ENST00000371838|ENST00000416121	T;T;T|.	0.24151|.	1.87;1.87;1.87|.	5.6|5.6	5.6|5.6	0.85130|0.85130	Peptidase M14, carboxypeptidase A (1);|.	0.193068|.	0.56097|.	D|.	0.000029|.	D|D	0.86062|0.86062	0.5843|0.5843	M|M	0.92649|0.92649	3.33|3.33	0.80722|0.80722	D|D	1|1	D;D;D;D;D|.	0.89917|.	1.0;1.0;1.0;1.0;1.0|.	D;D;D;D;D|.	0.91635|.	0.978;0.953;0.988;0.998;0.999|.	D|D	0.89102|0.89102	0.3490|0.3490	9|5	.|.	.|.	.|.	-18.2076|-18.2076	17.0797|17.0797	0.86595|0.86595	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	105;302;23;135;290|.	A0AVJ2;Q5VU57-2;B4DGK1;B1AMW2;Q5VU57|.	.;.;.;.;CBPC6_HUMAN|.	H|I	290;284;23;290|136	ENSP00000360905:R290H;ENSP00000335516:R23H;ENSP00000360904:R290H|.	.|.	R|V	-|-	2|1	0|0	AGBL4|AGBL4	48872834|48872834	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.994000|0.994000	0.84299|0.84299	6.832000|6.832000	0.75329|0.75329	2.636000|2.636000	0.89361|0.89361	0.462000|0.462000	0.41574|0.41574	CGT|GTC		0.468	AGBL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000021346.4	NM_032785		T	49100247	C	T	49100247	3	4	644	1	0	0	0	0	1	0	0	0	377	536	19	1	666	1	AGBL4	1	49100247	Missense_Mutation	SNP	C	TCGA-KL-8345-01A-11D-2310-10	3871927	49100247	200150374	3	39848										
LEPR	3953	ucsc.edu;bcgsc.ca	37	chr1	66083683	66083683	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	actcagtgcttatcctttaaAcagcagttgtgtgattgttt	8	7	1	1			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr1:66083683A>G	ENST00000349533.6	+	16	2434	c.2249A>G	c.(2248-2250)aAc>aGc	p.N750S	LEPR_ENST00000371059.3_Missense_Mutation_p.N750S|LEPR_ENST00000344610.8_Missense_Mutation_p.N750S|LEPR_ENST00000371058.1_Missense_Mutation_p.N750S|LEPR_ENST00000371060.3_Missense_Mutation_p.N750S|LEPR_ENST00000406510.3_Intron	NM_002303.5	NP_002294.2	O15243	OBRG_HUMAN	leptin receptor	0					negative regulation of growth hormone receptor signaling pathway (GO:0060400)|negative regulation of JAK-STAT cascade (GO:0046426)|negative regulation of protein localization to cell surface (GO:2000009)	endosome (GO:0005768)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	receptor binding (GO:0005102)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(7)|lung(22)|skin(2)	36				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		TATCCTTTAAACAGCAGTTGT	0.294																																																0													99	94	96					1																	66083683		2203	4298	6501	SO:0001583	missense	3953			U43168	CCDS631.1, CCDS30740.1, CCDS30741.1, CCDS55604.1	1p31	2014-09-17			ENSG00000116678	ENSG00000116678		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6554	protein-coding gene	gene with protein product		601007				8548812, 8812446	Standard	NM_001003680		Approved	OBR, CD295	uc001dci.3	P48357	OTTHUMG00000009115	ENST00000349533.6:c.2249A>G	1.37:g.66083683A>G	ENSP00000330393:p.Asn750Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FHL5	Missense_Mutation	SNP	ENST00000349533.6	37	CCDS631.1	.	.	.	.	.	.	.	.	.	.	A	14.51	2.558082	0.45590	.	.	ENSG00000116678	ENST00000344610;ENST00000349533;ENST00000371060;ENST00000371059;ENST00000371058	T;T;T;T;T	0.49432	0.78;0.78;0.78;0.78;0.78	5.72	4.6	0.57074	Long hematopoietin receptor, Gp130 family 2, conserved site (1);Fibronectin, type III (3);Immunoglobulin-like fold (1);	0.042460	0.85682	N	0.000000	T	0.28962	0.0719	L	0.56280	1.765	0.80722	D	1	B;B;B	0.33528	0.292;0.416;0.204	B;B;B	0.37550	0.129;0.253;0.084	T	0.08351	-1.0726	10	0.33141	T	0.24	-16.7179	10.9072	0.47086	0.9255:0.0:0.0745:0.0	.	750;750;750	P48357;P48357-2;P48357-3	LEPR_HUMAN;.;.	S	750	ENSP00000340884:N750S;ENSP00000330393:N750S;ENSP00000360099:N750S;ENSP00000360098:N750S;ENSP00000360097:N750S	ENSP00000340884:N750S	N	+	2	0	LEPR	65856271	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	4.914000	0.63348	1.006000	0.39211	0.528000	0.53228	AAC		0.294	LEPR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025275.1	NM_002303		G	66083683	A	G	66083683	3	3	644	1	0	0	0	0	1	0	0	0	8735	43	2	3	2303	3	LEPR	1	66083683	Missense_Mutation	SNP	A	TCGA-KL-8345-01A-11D-2310-10	16983436	66083683	183166938	4	39849										
ZNHIT6	54680	broad.mit.edu	37	chr1	86167918	86167918	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	ttaagttaataccttgcctcCgggcacgatttttcataaag	7	9	1	0	rs542482220		TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr1:86167918C>T	ENST00000370574.3	-	5	1074	c.941G>A	c.(940-942)cGg>cAg	p.R314Q	ZNHIT6_ENST00000431532.2_Missense_Mutation_p.R275Q			Q9NWK9	BCD1_HUMAN	zinc finger, HIT-type containing 6	314					box C/D snoRNP assembly (GO:0000492)|ribosome biogenesis (GO:0042254)	extracellular vesicular exosome (GO:0070062)|pre-snoRNP complex (GO:0070761)	enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)			autonomic_ganglia(1)|breast(2)|cervix(2)|large_intestine(10)|lung(1)|urinary_tract(1)	17						ACCTTGCCTCCGGGCACGATT	0.294													C|||	1	0.000199681	0.0008	0.0	5008	,	,		18570	0.0		0.0	False		,,,				2504	0.0															0													65	65	65					1																	86167918		2202	4299	6501	SO:0001583	missense	54680			AL442074	CCDS707.1, CCDS53338.1	1p22.3	2013-01-17	2010-09-15	2008-06-23	ENSG00000117174	ENSG00000117174		"Zinc fingers, HIT-type"	26089	protein-coding gene	gene with protein product	"box C/D snoRNA essential 1 homolog (S. cerevisiae)"		"chromosome 1 open reading frame 181", "zinc finger, HIT type 6"	C1orf181		12747765	Standard	NM_017953		Approved	FLJ20729, NY-BR-75, BCD1	uc001dlh.3	Q9NWK9	OTTHUMG00000010576	ENST00000370574.3:c.941G>A	1.37:g.86167918C>T	ENSP00000359606:p.Arg314Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBA1|B4DP13|D3DT20|Q9H278|Q9H3X3|Q9NWN0	Missense_Mutation	SNP	ENST00000370574.3	37	CCDS707.1	.	.	.	.	.	.	.	.	.	.	C	25.5	4.641969	0.87859	.	.	ENSG00000117174	ENST00000431532;ENST00000370574	T;T	0.46819	0.9;0.86	5.37	5.37	0.77165	.	0.000000	0.64402	D	0.000001	T	0.56031	0.1958	L	0.50333	1.59	0.47547	D	0.999456	D;D	0.89917	0.965;1.0	B;D	0.66497	0.343;0.944	T	0.52593	-0.8555	10	0.45353	T	0.12	-10.7858	19.0665	0.93113	0.0:1.0:0.0:0.0	.	275;314	B4DP13;Q9NWK9	.;BCD1_HUMAN	Q	275;314	ENSP00000414344:R275Q;ENSP00000359606:R314Q	ENSP00000359606:R314Q	R	-	2	0	ZNHIT6	85940506	1.000000	0.71417	0.973000	0.42090	0.874000	0.50279	5.529000	0.67135	2.666000	0.90696	0.555000	0.69702	CGG		0.294	ZNHIT6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029186.1	NM_017953		T	86167918	C	T	86167918	3	4	644	1	0	0	0	0	1	0	0	0	18221	652	23	1	495	1	ZNHIT6	1	86167918	Missense_Mutation	SNP	C	TCGA-KL-8345-01A-11D-2310-10	20084235	86167918	163082703	5	39850										
SPAG17	200162	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	118596629	118596629	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	atgtaagctggattaccttgAgagagccttctaaaatgaaa	9	6	1	3			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr1:118596629A>T	ENST00000336338.5	-	20	2875	c.2810T>A	c.(2809-2811)cTc>cAc	p.L937H		NM_206996.2	NP_996879.1	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	937						cytoplasm (GO:0005737)|microtubule (GO:0005874)|nucleus (GO:0005634)|sperm flagellum (GO:0036126)				NS(1)|biliary_tract(1)|breast(2)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(30)|liver(2)|lung(56)|ovary(3)|prostate(5)|skin(5)|upper_aerodigestive_tract(6)|urinary_tract(1)	123	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)		gaTTACCTTGAGAGAGCCTTC	0.353																																																0													57	59	58					1																	118596629		2200	4297	6497	SO:0001583	missense	200162				CCDS899.1	1p12	2014-01-21			ENSG00000155761	ENSG00000155761			26620	protein-coding gene	gene with protein product							Standard	NM_206996		Approved	FLJ34497, PF6, RP4-776P7.2, CT143	uc001ehk.2	Q6Q759	OTTHUMG00000012198	ENST00000336338.5:c.2810T>A	1.37:g.118596629A>T	ENSP00000337804:p.Leu937His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NAZ1|Q9NT21	Missense_Mutation	SNP	ENST00000336338.5	37	CCDS899.1	.	.	.	.	.	.	.	.	.	.	A	21.3	4.134317	0.77662	.	.	ENSG00000155761	ENST00000336338	T	0.49139	0.79	5.65	5.65	0.86999	.	0.000000	0.85682	D	0.000000	T	0.57066	0.2028	M	0.68952	2.095	0.33234	D	0.556326	D	0.89917	1.0	D	0.91635	0.999	T	0.64922	-0.6293	10	0.72032	D	0.01	.	12.1892	0.54261	1.0:0.0:0.0:0.0	.	937	Q6Q759	SPG17_HUMAN	H	937	ENSP00000337804:L937H	ENSP00000337804:L937H	L	-	2	0	SPAG17	118398152	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.007000	0.57093	2.371000	0.80710	0.533000	0.62120	CTC		0.353	SPAG17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033723.1	NM_206996		T	118596629	A	T	118596629	3	4	644	1	0	0	0	0	1	0	0	0	14992	304	11	5	3977	5	SPAG17	1	118596629	Missense_Mutation	SNP	A	TCGA-KL-8345-01A-11D-2310-10	32428711	118596629	130653992	6	39851										
FMO2	2327	ucsc.edu	37	chr1	171165803	171165803	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tcaagacaactgtccttagtGtgagaaaatgtccagatttc	8	8	1	3	rs28369860	byFrequency	TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr1:171165803G>T	ENST00000209929.7	+	4	495	c.337G>T	c.(337-339)Gtg>Ttg	p.V113L	FMO2_ENST00000529935.1_3'UTR|RP1-127D3.4_ENST00000422841.1_RNA|RP1-127D3.4_ENST00000445909.1_RNA|FMO2_ENST00000441535.1_Missense_Mutation_p.V113L|RP1-127D3.4_ENST00000445290.1_RNA			P31512	FMO4_HUMAN	flavin containing monooxygenase 2 (non-functional)	113					drug catabolic process (GO:0042737)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	flavin adenine dinucleotide binding (GO:0050660)|N,N-dimethylaniline monooxygenase activity (GO:0004499)|NADP binding (GO:0050661)			endometrium(2)|kidney(1)|large_intestine(5)|lung(7)|prostate(1)|skin(2)|stomach(3)|urinary_tract(1)	22	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TGTCCTTAGTGTGAGAAAATG	0.453																																																0			GRCh37	CD033950	FMO2	D	rs28369860						106	106	106					1																	171165803		2093	4290	6383	SO:0001583	missense	2327			BC005894	CCDS1293.1	1q24.3	2011-08-04	2006-07-17		ENSG00000094963	ENSG00000094963			3770	protein-coding gene	gene with protein product		603955	"flavin containing monooxygenase 2"			1417778, 9804831	Standard	XR_426768		Approved		uc001ghk.1	Q99518	OTTHUMG00000035504	ENST00000209929.7:c.337G>T	1.37:g.171165803G>T	ENSP00000209929:p.Val113Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q53XR0	Missense_Mutation	SNP	ENST00000209929.7	37	CCDS1293.1	.	.	.	.	.	.	.	.	.	.	G	21.5	4.163831	0.78226	.	.	ENSG00000094963	ENST00000209929;ENST00000441535	T;T	0.59083	0.29;0.29	5.66	5.66	0.87406	.	0.000000	0.85682	D	0.000000	T	0.67249	0.2873	M	0.83774	2.66	0.43803	D	0.996352	P	0.52061	0.95	P	0.57283	0.817	T	0.72010	-0.4419	10	0.62326	D	0.03	-22.4683	12.6102	0.56546	0.0796:0.0:0.9204:0.0	.	113	Q99518	FMO2_HUMAN	L	113	ENSP00000209929:V113L;ENSP00000405905:V113L	ENSP00000209929:V113L	V	+	1	0	FMO2	169432427	0.996000	0.38824	0.998000	0.56505	0.873000	0.50193	2.307000	0.43682	2.690000	0.91761	0.655000	0.94253	GTG		0.453	FMO2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086216.2	NM_001460		T	171165803	G	T	171165803	3	4	644	1	0	0	0	0	1	0	0	0	5962	1377	48	4	347	4	FMO2	1	171165803	Missense_Mutation	SNP	G	TCGA-KL-8345-01A-11D-2310-10	52569174	171165803	78084818	7	39852										
CFHR3	10878	hgsc.bcm.edu	37	chr1	196744041	196744041	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tgttactaatcaatgtcattCtgaccttgtgggtttcctgt	8	8	3	1			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr1:196744041C>T	ENST00000367425.4	+	1	117	c.25C>T	c.(25-27)Ctg>Ttg	p.L9L	CFHR3_ENST00000471440.2_Silent_p.L9L|CFHR3_ENST00000391985.3_Silent_p.L9L	NM_021023.5	NP_066303.2	Q02985	FHR3_HUMAN	complement factor H-related 3	9						blood microparticle (GO:0072562)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)				breast(1)|central_nervous_system(1)|endometrium(1)|kidney(4)|lung(6)|ovary(1)|prostate(2)|skin(1)|urinary_tract(1)	18						CAATGTCATTCTGACCTTGTG	0.338																																																0													125	135	132					1																	196744041		1920	4138	6058	SO:0001819	synonymous_variant	10878			X68679	CCDS30958.1, CCDS53453.1	1q32	2014-09-17		2006-02-28	ENSG00000116785	ENSG00000116785		"Complement system"	16980	protein-coding gene	gene with protein product	"complement factor H related 3"	605336		CFHL3		8428964, 10380701	Standard	NM_021023		Approved	FHR-3, HLF4, FHR3, DOWN16	uc001gtl.3	Q02985	OTTHUMG00000035929	ENST00000367425.4:c.25C>T	1.37:g.196744041C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DPR0|Q9UJ16	Silent	SNP	ENST00000367425.4	37	CCDS30958.1																																																																																				0.338	CFHR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087505.2	NM_021023		T	196744041	C	T	196744041	2	4	644	1	0	0	0	0	0	0	0	1	3288	912	32	2		2	CFHR3	1	196744041	Silent	SNP	C	TCGA-KL-8345-01A-11D-2310-10	25578238	196744041	52506580	8	39853										
CTSE	1510	bcgsc.ca	37	chr1	206327526	206327526	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tttttggaggctacgaccacTcccatttctctgggagcctg	10	12	1	0	rs145082936		TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr1:206327526T>C	ENST00000358184.2	+	6	833	c.715T>C	c.(715-717)Tcc>Ccc	p.S239P	CTSE_ENST00000360218.2_Missense_Mutation_p.S239P|CTSE_ENST00000432969.2_Missense_Mutation_p.S164P|CTSE_ENST00000361052.3_Missense_Mutation_p.S244P|CTSE_ENST00000468617.1_3'UTR	NM_001910.3	NP_001901.1	P14091	CATE_HUMAN	cathepsin E	244					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|digestion (GO:0007586)|protein autoprocessing (GO:0016540)	endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)	aspartic-type endopeptidase activity (GO:0004190)			endometrium(2)|large_intestine(3)|lung(5)|ovary(2)|prostate(1)|skin(3)	16			BRCA - Breast invasive adenocarcinoma(75;0.0754)			CTACGACCACTCCCATTTCTC	0.507													t|||	1	0.000199681	0.0008	0.0	5008	,	,		19855	0.0		0.0	False		,,,				2504	0.0															0								T	PRO/SER,PRO/SER	2,4404	4.2+/-10.8	0,2,2201	168	170	169		715,715	2.7	0.8	1	dbSNP_134	169	0,8600		0,0,4300	no	missense,missense	CTSE	NM_001910.3,NM_148964.2	74,74	0,2,6501	CC,CT,TT		0.0,0.0454,0.0154	possibly-damaging,possibly-damaging	239/397,239/364	206327526	2,13004	2203	4300	6503	SO:0001583	missense	1510			BC042537	CCDS73012.1, CCDS73013.1	1q32.1	2008-02-05			ENSG00000196188	ENSG00000196188	3.4.23.5	"Cathepsins"	2530	protein-coding gene	gene with protein product		116890				2369841, 2674141	Standard	NM_001910		Approved		uc001hdu.3	P14091	OTTHUMG00000036121	ENST00000358184.2:c.715T>C	1.37:g.206327526T>C	ENSP00000350911:p.Ser239Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TZ01|Q5TZ02|Q9NY58|Q9UCE3|Q9UCE4	Missense_Mutation	SNP	ENST00000358184.2	37	CCDS1462.1	.	.	.	.	.	.	.	.	.	.	t	17.09	3.300038	0.60195	4.54E-4	0.0	ENSG00000196188	ENST00000358184;ENST00000361052;ENST00000360218;ENST00000432969	T;T;T;T	0.60040	0.23;0.23;0.23;0.22	5.18	2.71	0.32032	.	0.084158	0.51477	D	0.000089	T	0.72471	0.3464	M	0.90542	3.125	0.31809	N	0.627447	D;D;D	0.69078	0.997;0.997;0.967	P;P;P	0.58013	0.831;0.808;0.567	T	0.77024	-0.2741	10	0.56958	D	0.05	.	8.4064	0.32616	0.1299:0.0:0.136:0.7341	.	164;239;239	B4DNU8;P14091-2;P14091-1	.;.;.	P	239;244;239;164	ENSP00000350911:S239P;ENSP00000354337:S244P;ENSP00000353350:S239P;ENSP00000394607:S164P	ENSP00000350911:S239P	S	+	1	0	CTSE	204494149	0.850000	0.29656	0.828000	0.32881	0.949000	0.60115	1.501000	0.35693	0.972000	0.38314	-0.313000	0.08912	TCC		0.507	CTSE-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000087998.1	NM_001910		C	206327526	T	C	206327526	3	2	644	1	0	0	0	0	1	0	0	0	4035	1551	54	3	737	3	CTSE	1	206327526	Missense_Mutation	SNP	T	TCGA-KL-8345-01A-11D-2310-10	9583485	206327526	42923095	9	39854										
KIDINS220	57498	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr2	8871660	8871660	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	agcttcaaatctgtctggaaGaggcttgacctttcggaaga	11	8	3	3			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr2:8871660G>A	ENST00000256707.3	-	30	4687	c.4506C>T	c.(4504-4506)ctC>ctT	p.L1502L	KIDINS220_ENST00000418530.1_Silent_p.L1403L|KIDINS220_ENST00000473731.1_Silent_p.L1483L|KIDINS220_ENST00000427284.1_Silent_p.L1483L	NM_020738.2	NP_065789.1	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate, 220kDa	1502					activation of MAPKK activity (GO:0000186)|cellular response to nerve growth factor stimulus (GO:1990090)|cytoplasmic transport (GO:0016482)|dendrite morphogenesis (GO:0048813)|in utero embryonic development (GO:0001701)|nerve growth factor signaling pathway (GO:0038180)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of neuron projection development (GO:0010976)	cytosol (GO:0005829)|integral component of membrane (GO:0016021)|late endosome (GO:0005770)|membrane (GO:0016020)|protein complex (GO:0043234)	PDZ domain binding (GO:0030165)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(11)|lung(25)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	60	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					CTGTCTGGAAGAGGCTTGACC	0.468																																																0													52	53	53					2																	8871660		1887	4107	5994	SO:0001819	synonymous_variant	57498			AK025528	CCDS42650.1	2p24	2013-01-10			ENSG00000134313	ENSG00000134313		"Ankyrin repeat domain containing"	29508	protein-coding gene	gene with protein product	"ankyrin repeat-rich membrane-spanning protein"	615759				10998417, 10574462	Standard	NM_020738		Approved	ARMS	uc002qzc.2	Q9ULH0	OTTHUMG00000151658	ENST00000256707.3:c.4506C>T	2.37:g.8871660G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A1L4N4|Q4VC08|Q6MZU2|Q9H889|Q9H9E4|Q9NT37|Q9UF42	Silent	SNP	ENST00000256707.3	37	CCDS42650.1																																																																																				0.468	KIDINS220-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323408.2	NM_020738		A	8871660	G	A	8871660	2	1	644	1	0	0	0	0	0	0	0	1	8278	929	33	2		2	KIDINS220	2	8871660	Silent	SNP	G	TCGA-KL-8345-01A-11D-2310-10		8871660	234327713	10	39855										
EHBP1	23301	broad.mit.edu	37	chr2	63223821	63223821	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	gtatgtagtaggagaattggCagcactagagaatgagcaaa	13	4	0	3			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr2:63223821C>A	ENST00000263991.5	+	21	3718	c.3236C>A	c.(3235-3237)gCa>gAa	p.A1079E	EHBP1_ENST00000405289.1_Missense_Mutation_p.A1044E|EHBP1_ENST00000431489.1_Missense_Mutation_p.A1008E|EHBP1_ENST00000354487.3_Missense_Mutation_p.A1044E|EHBP1_ENST00000496857.1_3'UTR|EHBP1_ENST00000405015.3_Missense_Mutation_p.A1008E	NM_015252.3	NP_056067.2	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1	1079						cytoplasm (GO:0005737)|membrane (GO:0016020)				biliary_tract(1)|breast(3)|cervix(1)|endometrium(4)|kidney(4)|large_intestine(8)|lung(22)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	47	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			GGAGAATTGGCAGCACTAGAG	0.448																																																0													125	119	121					2																	63223821		2203	4300	6503	SO:0001583	missense	23301			AL833968	CCDS1872.1, CCDS46299.1, CCDS46300.1	2p15	2008-02-05			ENSG00000115504	ENSG00000115504			29144	protein-coding gene	gene with protein product		609922				10048485	Standard	NM_015252		Approved	KIAA0903, NACSIN	uc002sby.3	Q8NDI1	OTTHUMG00000129453	ENST00000263991.5:c.3236C>A	2.37:g.63223821C>A	ENSP00000263991:p.Ala1079Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O94977|Q53TG7|Q53TV6|Q580X2|Q6NX72|Q6PIT3|Q6QNV2|Q9NWI9	Missense_Mutation	SNP	ENST00000263991.5	37	CCDS1872.1	.	.	.	.	.	.	.	.	.	.	C	16.62	3.173753	0.57692	.	.	ENSG00000115504	ENST00000405015;ENST00000431489;ENST00000263991;ENST00000354487;ENST00000405289;ENST00000545092	T;T;T;T;T	0.37915	1.17;1.17;1.17;1.17;1.17	5.19	5.19	0.71726	Domain of unknown function DUF3585 (1);	0.071022	0.56097	D	0.000032	T	0.36799	0.0980	N	0.10685	0.025	0.58432	D	0.999994	D;B;D	0.89917	1.0;0.167;1.0	D;B;D	0.91635	0.998;0.221;0.999	T	0.10497	-1.0627	10	0.02654	T	1	.	18.7221	0.91698	0.0:1.0:0.0:0.0	.	1044;1008;1079	Q8NDI1-2;Q8NDI1-3;Q8NDI1	.;.;EHBP1_HUMAN	E	1008;1008;1079;1044;1044;50	ENSP00000384143:A1008E;ENSP00000403783:A1008E;ENSP00000263991:A1079E;ENSP00000346482:A1044E;ENSP00000385524:A1044E	ENSP00000263991:A1079E	A	+	2	0	EHBP1	63077325	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	7.818000	0.86416	2.438000	0.82558	0.650000	0.86243	GCA		0.448	EHBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251616.1	NM_015252		A	63223821	C	A	63223821	3	1	644	1	0	0	0	0	1	0	0	0	4977	710	25	4	3314	4	EHBP1	2	63223821	Missense_Mutation	SNP	C	TCGA-KL-8345-01A-11D-2310-10	54352161	63223821	179975552	11	39856										
IL1F7	27178	broad.mit.edu	37	chr2	113671391	113671392	+	Frame_Shift_Ins	INS	-	-	C													0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	cggctggaagccccctggaaINSccaggcccaagcctccccac							TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr2:113671391_113671392insC	ENST00000263326.3	+	2	147_148	c.105_106insC	c.(106-108)ccafs	p.P36fs	IL37_ENST00000353225.3_Frame_Shift_Ins_p.P36fs|IL37_ENST00000352179.3_Intron|IL37_ENST00000349806.3_Intron|IL37_ENST00000311328.2_5'Flank	NM_014439.3	NP_055254.2	Q9NZH6	IL37_HUMAN	interleukin 37	36					immune response (GO:0006955)|inflammatory response (GO:0006954)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|nucleus (GO:0005634)	interleukin-1 receptor binding (GO:0005149)			NS(1)|breast(2)|cervix(1)|endometrium(2)|large_intestine(1)|lung(7)|ovary(2)|skin(3)	19						GCCCCCTGGAACCAGGCCCAAG	0.55																																																0																																										SO:0001589	frameshift_variant	27178			AF201832	CCDS2103.1, CCDS2104.1, CCDS2105.1, CCDS2106.1, CCDS2107.1	2q12-q14.1	2011-06-06	2011-06-06	2011-06-06	ENSG00000125571	ENSG00000125571		"Interleukins and interleukin receptors"	15563	protein-coding gene	gene with protein product	"interleukin 1, zeta", "interleukin-1 homolog 4", "interleukin-1-related protein"	605510	"interleukin 1 family, member 7 (zeta)"	IL1F7		10625660, 10512743, 12496389	Standard	NM_014439		Approved	FIL1, FIL1Z, FIL1(ZETA), IL-1H4, IL-1RP1, IL-1F7	uc002tij.3	Q9NZH6	OTTHUMG00000131345	ENST00000263326.3:c.107dupC	2.37:g.113671393_113671393dupC	ENSP00000263326:p.Pro36fs	Somatic		WXS	Illumina HiSeq	Phase_I	B5BU97|Q56AP9|Q8TD04|Q8TD05|Q9HBF2|Q9HBF3|Q9UHA6	Frame_Shift_Ins	INS	ENST00000263326.3	37	CCDS2103.1																																																																																				0.55	IL37-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254126.1	NM_014439		C	113671392	-	C	113671391	7	5	644	1	0	1	1	0	0	0	0	0	7662	40	2	0	111	0	IL1F7	2	113671391	Frame_Shift_Ins	INS	-	TCGA-KL-8345-01A-11D-2310-10	50447570	113671391	129527982	12	39857										
LRP1B	53353	broad.mit.edu	37	chr2	141819781	141819781	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	aattatccttgttcggttcaTcccatccatgtcacatctct	4	13	3	0			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr2:141819781T>C	ENST00000389484.3	-	8	2046	c.1075A>G	c.(1075-1077)Atg>Gtg	p.M359V		NM_018557.2	NP_061027.2	Q9NZR2	LRP1B_HUMAN	low density lipoprotein receptor-related protein 1B	359					protein transport (GO:0015031)|receptor-mediated endocytosis (GO:0006898)	integral component of membrane (GO:0016021)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)|low-density lipoprotein receptor activity (GO:0005041)			NS(5)|autonomic_ganglia(1)|biliary_tract(1)|breast(3)|central_nervous_system(7)|endometrium(25)|haematopoietic_and_lymphoid_tissue(10)|kidney(27)|large_intestine(98)|liver(4)|lung(337)|ovary(15)|pancreas(6)|prostate(11)|skin(30)|stomach(2)|upper_aerodigestive_tract(19)|urinary_tract(5)	606		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)		GTTCGGTTCATCCCATCCATG	0.428										TSP Lung(27;0.18)																											Colon(99;50 2074 2507 20106)											0													152	133	140					2																	141819781		2203	4300	6503	SO:0001583	missense	53353			AF176832	CCDS2182.1	2q21.2	2013-05-29	2010-01-26		ENSG00000168702	ENSG00000168702		"Low density lipoprotein receptors"	6693	protein-coding gene	gene with protein product	"LRP-deleted in tumors"	608766				10766186	Standard	NM_018557		Approved	LRP-DIT, LRPDIT	uc002tvj.1	Q9NZR2	OTTHUMG00000131799	ENST00000389484.3:c.1075A>G	2.37:g.141819781T>C	ENSP00000374135:p.Met359Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WY29|Q8WY30|Q8WY31	Missense_Mutation	SNP	ENST00000389484.3	37	CCDS2182.1	.	.	.	.	.	.	.	.	.	.	T	9.638	1.138221	0.21123	.	.	ENSG00000168702	ENST00000389484;ENST00000544579	D	0.90955	-2.76	5.63	4.45	0.53987	Six-bladed beta-propeller, TolB-like (1);Growth factor, receptor (1);	0.114080	0.64402	D	0.000015	T	0.82185	0.4982	N	0.12182	0.205	0.25313	N	0.989186	B	0.06786	0.001	B	0.04013	0.001	T	0.73678	-0.3907	10	0.72032	D	0.01	.	13.0624	0.59014	0.0:0.0:0.1345:0.8655	.	359	Q9NZR2	LRP1B_HUMAN	V	359;297	ENSP00000374135:M359V	ENSP00000374135:M359V	M	-	1	0	LRP1B	141536251	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.772000	0.38552	1.039000	0.40074	0.533000	0.62120	ATG		0.428	LRP1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254736.2	NM_018557		C	141819781	T	C	141819781	3	2	644	1	0	0	0	0	1	0	0	0	8962	1435	50	3	13060	3	LRP1B	2	141819781	Missense_Mutation	SNP	T	TCGA-KL-8345-01A-11D-2310-10	28148390	141819781	101379592	13	39858										
TLK1	9874	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr2	171871451	171871451	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	caagttctgcctggatttctGcctcttcctgaaaatgaaga	8	10	3	3			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr2:171871451G>T	ENST00000431350.2	-	13	1648	c.1244C>A	c.(1243-1245)gCa>gAa	p.A415E	TLK1_ENST00000442919.2_Missense_Mutation_p.A367E|TLK1_ENST00000434911.2_Missense_Mutation_p.A319E|TLK1_ENST00000521943.1_Missense_Mutation_p.A367E|TLK1_ENST00000360843.3_Missense_Mutation_p.A436E			Q9UKI8	TLK1_HUMAN	tousled-like kinase 1	415					cell cycle (GO:0007049)|cellular response to DNA damage stimulus (GO:0006974)|chromatin modification (GO:0016568)|intracellular protein transport (GO:0006886)|intracellular signal transduction (GO:0035556)|protein phosphorylation (GO:0006468)|regulation of chromatin assembly or disassembly (GO:0001672)	nucleus (GO:0005634)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(8)|liver(3)|lung(10)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	33						CTGGATTTCTGCCTCTTCCTG	0.348																																																0													102	104	103					2																	171871451		2203	4300	6503	SO:0001583	missense	9874			AB004885	CCDS2241.1, CCDS46447.1, CCDS46448.1	2q31.1	2010-04-19			ENSG00000198586	ENSG00000198586			11841	protein-coding gene	gene with protein product		608438				9427565, 12660173	Standard	NM_012290		Approved	KIAA0137, PKU-BETA	uc002ugp.2	Q9UKI8	OTTHUMG00000132243	ENST00000431350.2:c.1244C>A	2.37:g.171871451G>T	ENSP00000411099:p.Ala415Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KR15|B4DX87|Q14150|Q8N591|Q9NYH2|Q9Y4F6	Missense_Mutation	SNP	ENST00000431350.2	37	CCDS2241.1	.	.	.	.	.	.	.	.	.	.	G	16.50	3.141316	0.57044	.	.	ENSG00000198586	ENST00000442919;ENST00000431350;ENST00000360843;ENST00000521943;ENST00000434911	T;T;T;T;T	0.64438	-0.09;-0.1;-0.1;-0.09;-0.09	5.6	5.6	0.85130	.	0.000000	0.85682	D	0.000000	T	0.72755	0.3500	L	0.39514	1.22	0.80722	D	1	B;B;D	0.76494	0.114;0.389;0.999	B;B;D	0.69479	0.059;0.202;0.964	T	0.70597	-0.4828	10	0.40728	T	0.16	.	19.6128	0.95616	0.0:0.0:1.0:0.0	.	319;436;415	B4DX87;Q9UKI8-2;Q9UKI8	.;.;TLK1_HUMAN	E	367;415;436;367;319	ENSP00000402165:A367E;ENSP00000411099:A415E;ENSP00000354089:A436E;ENSP00000428113:A367E;ENSP00000409222:A319E	ENSP00000354089:A436E	A	-	2	0	TLK1	171579697	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.869000	0.99810	2.635000	0.89317	0.655000	0.94253	GCA		0.348	TLK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255314.1	NM_012290		T	171871451	G	T	171871451	3	4	644	1	0	0	0	0	1	0	0	0	15955	1319	46	4	1092	4	TLK1	2	171871451	Missense_Mutation	SNP	G	TCGA-KL-8345-01A-11D-2310-10	30051670	171871451	71327922	14	39859										
TTN	7273	broad.mit.edu	37	chr2	179480474	179480474	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tactcttttccttgaacaagAtcaggaactgtgaattctag	7	8	3	3			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr2:179480474A>G	ENST00000591111.1	-	208	43655	c.43431T>C	c.(43429-43431)gaT>gaC	p.D14477D	RP11-171I2.4_ENST00000605334.1_lincRNA|TTN-AS1_ENST00000589830.1_RNA|TTN-AS1_ENST00000456053.1_RNA|TTN-AS1_ENST00000589234.1_RNA|TTN_ENST00000589042.1_Silent_p.D16118D|TTN-AS1_ENST00000589487.1_RNA|TTN-AS1_ENST00000589907.1_RNA|TTN-AS1_ENST00000592750.1_RNA|TTN_ENST00000342175.6_Silent_p.D7245D|TTN-AS1_ENST00000590807.1_RNA|TTN_ENST00000342992.6_Silent_p.D13550D|TTN-AS1_ENST00000592630.1_RNA|TTN-AS1_ENST00000585451.1_RNA|TTN_ENST00000359218.5_Silent_p.D7178D|TTN_ENST00000460472.2_Silent_p.D7053D			Q8WZ42	TITIN_HUMAN	titin	14477	Fibronectin type-III 4. {ECO:0000255|PROSITE-ProRule:PRU00316}.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTGAACAAGATCAGGAACTG	0.378																																																0													101	94	96					2																	179480474		1854	4096	5950	SO:0001819	synonymous_variant	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.43431T>C	2.37:g.179480474A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Silent	SNP	ENST00000591111.1	37																																																																																					0.378	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		G	179480474	A	G	179480474	2	3	644	1	0	0	0	0	0	0	0	1	16747	330	12	3		3	TTN	2	179480474	Silent	SNP	A	TCGA-KL-8345-01A-11D-2310-10	7609023	179480474	63718899	15	39860										
IGFBP5	3488	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	217559222	217559222	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	aaccccgcggccgtgcagcaGggcgtgcagcggcttctcct	14	16	1	0			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr2:217559222G>T	ENST00000233813.4	-	1	1026	c.277C>A	c.(277-279)Ctg>Atg	p.L93M	AC007563.5_ENST00000447289.1_RNA	NM_000599.3	NP_000590.1	P24593	IBP5_HUMAN	insulin-like growth factor binding protein 5	93	IGFBP N-terminal. {ECO:0000255|PROSITE- ProRule:PRU00653}.				cellular protein metabolic process (GO:0044267)|cellular response to cAMP (GO:0071320)|cellular response to organic cyclic compound (GO:0071407)|glucose homeostasis (GO:0042593)|glucose metabolic process (GO:0006006)|hair follicle morphogenesis (GO:0031069)|intracellular signal transduction (GO:0035556)|mammary gland involution (GO:0060056)|negative regulation of cell migration (GO:0030336)|negative regulation of insulin-like growth factor receptor signaling pathway (GO:0043569)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of smooth muscle cell migration (GO:0014912)|negative regulation of smooth muscle cell proliferation (GO:0048662)|negative regulation of translation (GO:0017148)|osteoblast differentiation (GO:0001649)|positive regulation of insulin-like growth factor receptor signaling pathway (GO:0043568)|positive regulation of protein kinase B signaling (GO:0051897)|regulation of cell growth (GO:0001558)|regulation of glucose metabolic process (GO:0010906)|signal transduction (GO:0007165)|skeletal muscle tissue growth (GO:0048630)|striated muscle cell differentiation (GO:0051146)|type B pancreatic cell proliferation (GO:0044342)	extracellular region (GO:0005576)|insulin-like growth factor binding protein complex (GO:0016942)	insulin-like growth factor I binding (GO:0031994)			endometrium(1)|large_intestine(3)|lung(1)	5		Renal(323;0.0822)		Epithelial(149;2.1e-06)|all cancers(144;0.000165)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCGTGCAGCAGGGCGTGCAGC	0.701																																																0													7	7	7					2																	217559222		1863	3711	5574	SO:0001583	missense	3488				CCDS2405.1	2q35	2014-09-16			ENSG00000115461	ENSG00000115461			5474	protein-coding gene	gene with protein product		146734				7511611	Standard	NM_000599		Approved		uc002vgj.4	P24593	OTTHUMG00000133058	ENST00000233813.4:c.277C>A	2.37:g.217559222G>T	ENSP00000233813:p.Leu93Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5U0A3	Missense_Mutation	SNP	ENST00000233813.4	37	CCDS2405.1	.	.	.	.	.	.	.	.	.	.	G	16.94	3.261739	0.59431	.	.	ENSG00000115461	ENST00000233813;ENST00000449583	T;T	0.67171	0.12;-0.25	4.69	3.79	0.43588	Insulin-like growth factor-binding protein, IGFBP (2);Growth factor, receptor (1);	0.706652	0.14107	N	0.340990	T	0.65801	0.2726	M	0.82823	2.61	0.52501	D	0.999958	P	0.34615	0.459	B	0.22601	0.04	T	0.67891	-0.5553	10	0.72032	D	0.01	-26.447	11.8083	0.52169	0.0:0.0:0.8229:0.1771	.	93	P24593	IBP5_HUMAN	M	93	ENSP00000233813:L93M;ENSP00000413474:L93M	ENSP00000233813:L93M	L	-	1	2	IGFBP5	217267467	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.445000	0.66594	0.931000	0.37242	0.555000	0.69702	CTG		0.701	IGFBP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256674.2	NM_000599		T	217559222	G	T	217559222	3	4	644	1	0	0	0	0	1	0	0	0	7589	991	35	4	557	4	IGFBP5	2	217559222	Missense_Mutation	SNP	G	TCGA-KL-8345-01A-11D-2310-10	38078748	217559222	25640151	16	39861										
TTLL4	9654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	219610500	219610500	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	ttgtcaagcagaccattggaCggtcccacttcaaaatcagc	8	12	3	1	rs370491335		TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr2:219610500C>T	ENST00000392102.1	+	7	2213	c.1873C>T	c.(1873-1875)Cgg>Tgg	p.R625W	TTLL4_ENST00000442769.1_Missense_Mutation_p.R625W|TTLL4_ENST00000457313.1_Missense_Mutation_p.R460W|TTLL4_ENST00000258398.4_Missense_Mutation_p.R625W	NM_014640.4	NP_055455.3	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	625	TTL. {ECO:0000255|PROSITE- ProRule:PRU00568}.				protein polyglutamylation (GO:0018095)	cilium (GO:0005929)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)	ligase activity (GO:0016874)|tubulin binding (GO:0015631)			endometrium(3)|kidney(1)|large_intestine(6)|lung(21)|ovary(3)|skin(3)|upper_aerodigestive_tract(2)	39		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)		GACCATTGGACGGTCCCACTT	0.502																																					GBM(172;1818 2053 15407 20943 49753)											0								C	TRP/ARG	1,4405	2.1+/-5.4	0,1,2202	67	61	63		1873	4.6	1	2		63	1,8599	1.2+/-3.3	0,1,4299	no	missense	TTLL4	NM_014640.4	101	0,2,6501	TT,TC,CC		0.0116,0.0227,0.0154	possibly-damaging	625/1200	219610500	2,13004	2203	4300	6503	SO:0001583	missense	9654				CCDS2422.1	2p24.3-p24.1	2013-02-14			ENSG00000135912	ENSG00000135912		"Tubulin tyrosine ligase-like family"	28976	protein-coding gene	gene with protein product						11054573	Standard	NM_014640		Approved	KIAA0173	uc002viy.3	Q14679	OTTHUMG00000133081	ENST00000392102.1:c.1873C>T	2.37:g.219610500C>T	ENSP00000375951:p.Arg625Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6V5|Q8WW29	Missense_Mutation	SNP	ENST00000392102.1	37	CCDS2422.1	.	.	.	.	.	.	.	.	.	.	C	16.55	3.153584	0.57259	2.27E-4	1.16E-4	ENSG00000135912	ENST00000457313;ENST00000392102;ENST00000442769;ENST00000258398	T;T;T;T	0.05513	3.68;3.93;3.43;3.93	5.5	4.62	0.57501	.	0.249544	0.27402	N	0.019536	T	0.19287	0.0463	L	0.50333	1.59	0.51482	D	0.999928	D;D;P	0.89917	0.983;1.0;0.956	P;D;B	0.97110	0.492;1.0;0.256	T	0.00316	-1.1823	10	0.66056	D	0.02	.	13.2787	0.60202	0.3031:0.6969:0.0:0.0	.	460;625;625	E9PH58;E7EX20;Q14679	.;.;TTLL4_HUMAN	W	460;625;625;625	ENSP00000393332:R460W;ENSP00000375951:R625W;ENSP00000396555:R625W;ENSP00000258398:R625W	ENSP00000258398:R625W	R	+	1	2	TTLL4	219318744	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	2.280000	0.43443	1.294000	0.44707	0.655000	0.94253	CGG		0.502	TTLL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256726.1	NM_014640		T	219610500	C	T	219610500	3	4	644	1	0	0	0	0	1	0	0	0	16741	527	19	1	1891	1	TTLL4	2	219610500	Missense_Mutation	SNP	C	TCGA-KL-8345-01A-11D-2310-10	2051278	219610500	23588873	17	39862										
MAGI1	9223	mdanderson.org	37	chr3	65425591	65425591	+	Silent	SNP	T	T	C													0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tgctgctgctgctgctgctgTtgctgctgctgttgctgctg					rs374381483|rs79701778		TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr3:65425591T>C	ENST00000497477.2	-	9	1232	c.1233A>G	c.(1231-1233)caA>caG	p.Q411Q	MAGI1_ENST00000470990.1_5'UTR|MAGI1_ENST00000330909.8_Silent_p.Q411Q|MAGI1_ENST00000483466.1_Silent_p.Q411Q|MAGI1_ENST00000402939.2_Silent_p.Q411Q			Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ domain containing 1	411	Poly-Gln.				cell adhesion (GO:0007155)|cell surface receptor signaling pathway (GO:0007166)|neuron death (GO:0070997)|protein complex assembly (GO:0006461)	cell junction (GO:0030054)|cell projection (GO:0042995)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	alpha-actinin binding (GO:0051393)|ATP binding (GO:0005524)|protein C-terminus binding (GO:0008022)			breast(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|liver(1)|lung(21)|pancreas(1)|skin(5)	51		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		gctgctgctgttgctgctgct	0.542											OREG0015658	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													61	60	61					3																	65425591		2191	4267	6458	SO:0001819	synonymous_variant	9223			AB010894	CCDS33780.1, CCDS33781.1, CCDS2904.1	3p14.1	2009-10-06	2005-05-10	2005-05-10	ENSG00000151276	ENSG00000151276			946	protein-coding gene	gene with protein product		602625	"BAI1-associated protein 1"	BAIAP1		9647739, 9225980	Standard	XM_005265563		Approved	BAP1, MAGI-1, TNRC19, AIP3, WWP3	uc003dmn.3	Q96QZ7	OTTHUMG00000157554	ENST00000497477.2:c.1233A>G	3.37:g.65425591T>C		Somatic	1084	WXS	Illumina HiSeq	Phase_I	A8K188|O00309|O43863|O75085|Q96QZ8|Q96QZ9	Silent	SNP	ENST00000497477.2	37		.	.	.	.	.	.	.	.	.	.	T	1.469	-0.560380	0.03939	.	.	ENSG00000151276	ENST00000460329	.	.	.	2.82	-5.65	0.02459	.	.	.	.	.	T	0.27313	0.0670	.	.	.	0.21445	N	0.999683	.	.	.	.	.	.	T	0.31558	-0.9939	4	.	.	.	.	7.6202	0.28181	0.0:0.2714:0.1222:0.6064	.	.	.	.	S	292	.	.	N	-	2	0	MAGI1	65400631	0.067000	0.21026	0.000000	0.03702	0.001000	0.01503	-1.642000	0.02006	-1.408000	0.02040	-1.740000	0.00687	AAC		0.542	MAGI1-007	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000349132.2	NM_004742		C	65425591	T	C	65425591	2	2	644	1	0	0	0	0	0	0	0	1	9197	1722	60	3		3	MAGI1	3	65425591	Silent	SNP	T	TCGA-KL-8345-01A-11D-2310-10		65425591	132596839	18	39863	347	2								
MAGI1	9223	mdanderson.org	37	chr3	65425594	65425594	+	Silent	SNP	C	C	T													0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tgctgctgctgctgctgttgCtgctgctgttgctgctgctg					rs552500635	byFrequency	TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr3:65425594C>T	ENST00000497477.2	-	9	1229	c.1230G>A	c.(1228-1230)caG>caA	p.Q410Q	MAGI1_ENST00000470990.1_5'UTR|MAGI1_ENST00000330909.8_Silent_p.Q410Q|MAGI1_ENST00000483466.1_Silent_p.Q410Q|MAGI1_ENST00000402939.2_Silent_p.Q410Q			Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ domain containing 1	410	Poly-Gln.				cell adhesion (GO:0007155)|cell surface receptor signaling pathway (GO:0007166)|neuron death (GO:0070997)|protein complex assembly (GO:0006461)	cell junction (GO:0030054)|cell projection (GO:0042995)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	alpha-actinin binding (GO:0051393)|ATP binding (GO:0005524)|protein C-terminus binding (GO:0008022)			breast(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|liver(1)|lung(21)|pancreas(1)|skin(5)	51		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		gctgctgttgctgctgctgtt	0.542											OREG0015658	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	C|||	722	0.144169	0.0893	0.1282	5008	,	,		14940	0.2024		0.0825	False		,,,				2504	0.2331															0													65	61	62					3																	65425594		2199	4283	6482	SO:0001819	synonymous_variant	9223			AB010894	CCDS33780.1, CCDS33781.1, CCDS2904.1	3p14.1	2009-10-06	2005-05-10	2005-05-10	ENSG00000151276	ENSG00000151276			946	protein-coding gene	gene with protein product		602625	"BAI1-associated protein 1"	BAIAP1		9647739, 9225980	Standard	XM_005265563		Approved	BAP1, MAGI-1, TNRC19, AIP3, WWP3	uc003dmn.3	Q96QZ7	OTTHUMG00000157554	ENST00000497477.2:c.1230G>A	3.37:g.65425594C>T		Somatic	1084	WXS	Illumina HiSeq	Phase_I	A8K188|O00309|O43863|O75085|Q96QZ8|Q96QZ9	Silent	SNP	ENST00000497477.2	37		.	.	.	.	.	.	.	.	.	.	C	1.063	-0.672234	0.03403	.	.	ENSG00000151276	ENST00000460329	.	.	.	3.3	-0.172	0.13327	.	.	.	.	.	T	0.20292	0.0488	.	.	.	0.09310	N	0.999998	.	.	.	.	.	.	T	0.22556	-1.0213	4	.	.	.	0.8958	1.6281	0.02727	0.1431:0.3787:0.1264:0.3517	.	.	.	.	N	291	.	.	S	-	2	0	MAGI1	65400634	0.371000	0.25056	0.001000	0.08648	0.001000	0.01503	-1.015000	0.03637	-0.726000	0.04895	-0.813000	0.03139	AGC		0.542	MAGI1-007	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000349132.2	NM_004742		T	65425594	C	T	65425594	2	4	644	1	0	0	0	0	0	0	0	1	9197	796	28	2		2	MAGI1	3	65425594	Silent	SNP	C	TCGA-KL-8345-01A-11D-2310-10	3	65425594	132596836	19	39864	347	2								
GRAMD1C	54762	hgsc.bcm.edu;mdanderson.org	37	chr3	113623086	113623086	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tcaattagtcgggtttcagaAacagagtcattcgatggaaa	10	6	3	2			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr3:113623086A>G	ENST00000358160.4	+	8	1248	c.756A>G	c.(754-756)gaA>gaG	p.E252E	GRAMD1C_ENST00000479212.1_3'UTR|GRAMD1C_ENST00000440446.2_Silent_p.E47E|GRAMD1C_ENST00000472026.1_Silent_p.E85E|GRAMD1C_ENST00000452134.2_5'UTR	NM_017577.4	NP_060047.3	Q8IYS0	GRM1C_HUMAN	GRAM domain containing 1C	252						integral component of membrane (GO:0016021)				NS(1)|endometrium(1)|large_intestine(6)|lung(13)|ovary(2)|skin(3)	26						GGGTTTCAGAAACAGAGTCAT	0.363																																																0													79	86	83					3																	113623086		2203	4300	6503	SO:0001819	synonymous_variant	54762				CCDS33826.1, CCDS54625.1	3q13.31	2005-11-02			ENSG00000178075	ENSG00000178075			25252	protein-coding gene	gene with protein product						12975309	Standard	NM_017577		Approved	DKFZp434C0328	uc003eaq.4	Q8IYS0	OTTHUMG00000159340	ENST00000358160.4:c.756A>G	3.37:g.113623086A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K9Y1|A8KA99|Q6AW94|Q6UWN1|Q8N6S0|Q9UF46	Silent	SNP	ENST00000358160.4	37	CCDS33826.1																																																																																				0.363	GRAMD1C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354733.1	NM_017577		G	113623086	A	G	113623086	2	3	644	1	0	0	0	0	0	0	0	1	6756	11	1	3		3	GRAMD1C	3	113623086	Silent	SNP	A	TCGA-KL-8345-01A-11D-2310-10	48197492	113623086	84399344	20	39865										
RGS12	6002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	3417849	3417849	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tcaaggagcagcagctgcagGtaaccgcaggctgtgggagc	16	10	1	0			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr4:3417849G>A	ENST00000344733.5	+	7	3331		c.e7+1		RGS12_ENST00000543385.1_Splice_Site|RGS12_ENST00000382788.3_Splice_Site|RGS12_ENST00000338806.4_Splice_Site|RGS12_ENST00000538395.1_Splice_Site|RGS12_ENST00000508158.1_Splice_Site|RGS12_ENST00000336727.3_Splice_Site|RGS12_ENST00000306648.7_Splice_Site	NM_198229.2	NP_937872.1	O14924	RGS12_HUMAN	regulator of G-protein signaling 12						positive regulation of GTPase activity (GO:0043547)|regulation of catalytic activity (GO:0050790)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|termination of G-protein coupled receptor signaling pathway (GO:0038032)|transcription, DNA-templated (GO:0006351)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	GTPase activator activity (GO:0005096)|GTPase regulator activity (GO:0030695)|receptor signaling protein activity (GO:0005057)			autonomic_ganglia(1)|breast(4)|endometrium(3)|kidney(2)|large_intestine(9)|lung(16)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	43				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GCAGCTGCAGGTAACCGCAGG	0.617																																																0													47	43	44					4																	3417849		2203	4300	6503	SO:0001630	splice_region_variant	6002			AF035152	CCDS3366.1, CCDS3367.1, CCDS3368.1	4p16.3	2008-02-05	2007-08-14		ENSG00000159788	ENSG00000159788		"Regulators of G-protein signaling"	9994	protein-coding gene	gene with protein product		602512	"regulator of G-protein signalling 12"			9651375	Standard	NM_198229		Approved		uc003ggw.3	O14924	OTTHUMG00000090277	ENST00000344733.5:c.2427+1G>A	4.37:g.3417849G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B1AQ30|B1AQ31|B1AQ32|B7Z764|E7EMN9|O14922|O14923|O43510|O75338|Q147X0|Q8WX95	Splice_Site	SNP	ENST00000344733.5	37	CCDS3366.1	.	.	.	.	.	.	.	.	.	.	G	21.0	4.076244	0.76415	.	.	ENSG00000159788	ENST00000344733;ENST00000336727;ENST00000382788;ENST00000306648;ENST00000338806;ENST00000538395	.	.	.	4.73	4.73	0.59995	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	17.1317	0.86728	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	RGS12	3387647	1.000000	0.71417	0.992000	0.48379	0.791000	0.44710	9.444000	0.97578	2.356000	0.79943	0.650000	0.86243	.		0.617	RGS12-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000206602.1	NM_002926	Intron	A	3417849	G	A	3417849	5	1	644	1	0	0	0	0	0	0	1	0	13308	1275	44	2	2508	2	RGS12	4	3417849	Splice_Site	SNP	G	TCGA-KL-8345-01A-11D-2310-10		3417849	187736427	21	39866										
EXOC1	55763	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	56737009	56737009	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	atcagatctctgaaagcaacCacctaattcatcttagtaac	4	11	4	2			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr4:56737009C>T	ENST00000381295.2	+	6	1117	c.769C>T	c.(769-771)Cac>Tac	p.H257Y	EXOC1_ENST00000346134.7_Missense_Mutation_p.H257Y|EXOC1_ENST00000349598.6_Missense_Mutation_p.H257Y	NM_001024924.1	NP_001020095.1	Q9NV70	EXOC1_HUMAN	exocyst complex component 1	257					cellular protein metabolic process (GO:0044267)|exocytosis (GO:0006887)|membrane organization (GO:0061024)|protein transport (GO:0015031)	exocyst (GO:0000145)|membrane (GO:0016020)|plasma membrane (GO:0005886)				breast(2)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(3)|lung(14)|ovary(2)|skin(4)|upper_aerodigestive_tract(1)	35	Glioma(25;0.08)|all_neural(26;0.101)					TGAAAGCAACCACCTAATTCA	0.343																																																0													97	101	100					4																	56737009		2203	4300	6503	SO:0001583	missense	55763			AK027047	CCDS3502.1, CCDS3503.1	4q12	2013-01-22	2005-11-01	2005-11-01	ENSG00000090989	ENSG00000090989			30380	protein-coding gene	gene with protein product		607879	"SEC3-like 1 (S. cerevisiae)"	SEC3L1		11042152, 11406615	Standard	XM_005265747		Approved	SEC3, FLJ10893, BM-102, Sec3p	uc003hbf.1	Q9NV70	OTTHUMG00000102165	ENST00000381295.2:c.769C>T	4.37:g.56737009C>T	ENSP00000370695:p.His257Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q504V4|Q8WUE7|Q96T15|Q9NZE4	Missense_Mutation	SNP	ENST00000381295.2	37	CCDS3502.1	.	.	.	.	.	.	.	.	.	.	C	5.687	0.311354	0.10789	.	.	ENSG00000090989	ENST00000381295;ENST00000346134;ENST00000349598	.	.	.	5.85	5.85	0.93711	.	0.146296	0.64402	D	0.000007	T	0.52354	0.1729	L	0.36672	1.1	0.43863	D	0.996465	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.42865	-0.9426	9	0.23302	T	0.38	.	15.3266	0.74168	0.0:0.9314:0.0:0.0686	.	257;257	Q9NV70-2;Q9NV70	.;EXOC1_HUMAN	Y	257	.	ENSP00000326514:H257Y	H	+	1	0	EXOC1	56431766	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	5.760000	0.68793	2.768000	0.95171	0.655000	0.94253	CAC		0.343	EXOC1-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361799.1	NM_018261		T	56737009	C	T	56737009	3	4	644	1	0	0	0	0	1	0	0	0	5303	594	21	2	787	2	EXOC1	4	56737009	Missense_Mutation	SNP	C	TCGA-KL-8345-01A-11D-2310-10	53319160	56737009	134417267	22	39867										
RASGEF1B	153020	ucsc.edu	37	chr4	82368697	82368697	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tccttctgcacgaacgcctgAacaaattcttctggcccaat	6	14	3	1			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr4:82368697A>G	ENST00000264400.2	-	6	841	c.690T>C	c.(688-690)gtT>gtC	p.V230V	RASGEF1B_ENST00000335927.7_Silent_p.V188V|RASGEF1B_ENST00000509081.1_Silent_p.V229V	NM_152545.1	NP_689758.1	Q0VAM2	RGF1B_HUMAN	RasGEF domain family, member 1B	230	Ras-GEF. {ECO:0000255|PROSITE- ProRule:PRU00168}.				positive regulation of Ras GTPase activity (GO:0032320)|small GTPase mediated signal transduction (GO:0007264)	endosome (GO:0005768)	Ras guanyl-nucleotide exchange factor activity (GO:0005088)			endometrium(2)|kidney(5)|large_intestine(4)|lung(13)|prostate(1)|skin(1)	26						CGAACGCCTGAACAAATTCTT	0.403																																																0													81	77	78					4																	82368697		2203	4300	6503	SO:0001819	synonymous_variant	153020			AK056257	CCDS34022.1, CCDS75151.1, CCDS75152.1	4q21.21	2013-09-24				ENSG00000138670			24881	protein-coding gene	gene with protein product		614532				12488504	Standard	XM_005262776		Approved	GPIG4, FLJ31695	uc003hmi.1	Q0VAM2		ENST00000264400.2:c.690T>C	4.37:g.82368697A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAM1|Q4W5L7|Q4W5M3|Q96MY8	Silent	SNP	ENST00000264400.2	37	CCDS34022.1																																																																																				0.403	RASGEF1B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000362830.1	NM_152545		G	82368697	A	G	82368697	2	3	644	1	0	0	0	0	0	0	0	1	13083	233	9	3		3	RASGEF1B	4	82368697	Silent	SNP	A	TCGA-KL-8345-01A-11D-2310-10	25631688	82368697	108785579	23	39868										
DSPP	1834	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	88535754	88535754	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	agacagcagtgacagcaacaGcagtgacagtagtgacaaca	11	9	0	4			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr4:88535754G>T	ENST00000282478.7	+	4	1973	c.1940G>T	c.(1939-1941)aGc>aTc	p.S647I	DSPP_ENST00000399271.1_Missense_Mutation_p.S647I|RP11-742B18.1_ENST00000506480.1_RNA			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	647	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		gacagcaacagcagtgacagt	0.488																																																0													121	139	133					4																	88535754		1777	3262	5039	SO:0001583	missense	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.1940G>T	4.37:g.88535754G>T	ENSP00000282478:p.Ser647Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	Missense_Mutation	SNP	ENST00000282478.7	37	CCDS43248.1	.	.	.	.	.	.	.	.	.	.	G	6.014	0.371022	0.11409	.	.	ENSG00000152591	ENST00000399271;ENST00000282478	D;D	0.89552	-2.53;-2.53	3.49	3.49	0.39957	.	.	.	.	.	D	0.90710	0.7085	L	0.43923	1.385	0.32597	N	0.526374	D	0.62365	0.991	P	0.62184	0.899	D	0.91798	0.5449	9	0.87932	D	0	.	12.8203	0.57690	0.0:0.0:1.0:0.0	.	647	Q9NZW4	DSPP_HUMAN	I	647	ENSP00000382213:S647I;ENSP00000282478:S647I	ENSP00000282478:S647I	S	+	2	0	DSPP	88754778	0.941000	0.31946	0.989000	0.46669	0.035000	0.12851	1.382000	0.34374	1.656000	0.50722	0.174000	0.16983	AGC		0.488	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		T	88535754	G	T	88535754	3	4	644	1	0	0	0	0	1	0	0	0	4784	971	34	4	1954	4	DSPP	4	88535754	Missense_Mutation	SNP	G	TCGA-KL-8345-01A-11D-2310-10	6167057	88535754	102618522	24	39869										
ANK2	287	hgsc.bcm.edu;ucsc.edu	37	chr4	114276401	114276401	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	gaaagcctaaagaatgagggGgtagccggctctccgtgtgg	16	8	1	2			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr4:114276401G>A	ENST00000357077.4	+	38	6680	c.6627G>A	c.(6625-6627)ggG>ggA	p.G2209G	ANK2_ENST00000506722.1_Intron|ANK2_ENST00000394537.3_Intron|ANK2_ENST00000264366.6_Silent_p.G2176G|ANK2_ENST00000510275.2_Intron|ANK2_ENST00000509550.1_Intron	NM_001148.4	NP_001139.3	Q01484	ANK2_HUMAN	ankyrin 2, neuronal	2209					atrial cardiac muscle cell action potential (GO:0086014)|atrial cardiac muscle cell to AV node cell communication (GO:0086066)|atrial septum development (GO:0003283)|axon guidance (GO:0007411)|cardiac muscle contraction (GO:0060048)|cellular calcium ion homeostasis (GO:0006874)|cellular protein localization (GO:0034613)|membrane depolarization during SA node cell action potential (GO:0086046)|paranodal junction assembly (GO:0030913)|positive regulation of calcium ion transmembrane transporter activity (GO:1901021)|positive regulation of calcium ion transport (GO:0051928)|positive regulation of cation channel activity (GO:2001259)|positive regulation of gene expression (GO:0010628)|positive regulation of potassium ion transmembrane transporter activity (GO:1901018)|positive regulation of potassium ion transport (GO:0043268)|protein localization to cell surface (GO:0034394)|protein localization to endoplasmic reticulum (GO:0070972)|protein localization to M-band (GO:0036309)|protein localization to organelle (GO:0033365)|protein localization to plasma membrane (GO:0072659)|protein localization to T-tubule (GO:0036371)|protein stabilization (GO:0050821)|protein targeting to plasma membrane (GO:0072661)|regulation of calcium ion transmembrane transporter activity (GO:1901019)|regulation of calcium ion transport (GO:0051924)|regulation of cardiac muscle cell contraction (GO:0086004)|regulation of cardiac muscle cell membrane potential (GO:0086036)|regulation of cardiac muscle contraction (GO:0055117)|regulation of cardiac muscle contraction by calcium ion signaling (GO:0010882)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of heart rate (GO:0002027)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of protein stability (GO:0031647)|regulation of release of sequestered calcium ion into cytosol (GO:0051279)|regulation of ventricular cardiac muscle cell membrane repolarization (GO:0060307)|response to methylmercury (GO:0051597)|SA node cell action potential (GO:0086015)|SA node cell to atrial cardiac muscle cell communication (GO:0086070)|sarcoplasmic reticulum calcium ion transport (GO:0070296)|T-tubule organization (GO:0033292)|ventricular cardiac muscle cell action potential (GO:0086005)	A band (GO:0031672)|basolateral plasma membrane (GO:0016323)|costamere (GO:0043034)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|integral component of plasma membrane (GO:0005887)|intercalated disc (GO:0014704)|intracellular (GO:0005622)|M band (GO:0031430)|membrane raft (GO:0045121)|neuron projection (GO:0043005)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)	ATPase binding (GO:0051117)|enzyme binding (GO:0019899)|ion channel binding (GO:0044325)|potassium channel regulator activity (GO:0015459)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|biliary_tract(1)|breast(9)|central_nervous_system(10)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(54)|liver(2)|lung(112)|ovary(8)|pancreas(1)|prostate(7)|skin(11)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(10)	248		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		AGAATGAGGGGGTAGCCGGCT	0.502																																																0													77	79	78					4																	114276401		2203	4300	6503	SO:0001819	synonymous_variant	287			M37123	CCDS3702.1, CCDS43261.1, CCDS54796.1	4q25-q26	2014-09-17	2003-03-12		ENSG00000145362	ENSG00000145362		"Ankyrin repeat domain containing"	493	protein-coding gene	gene with protein product		106410	"long (electrocardiographic) QT syndrome 4"	LQT4		7485162, 12571597	Standard	NM_001148		Approved		uc003ibe.4	Q01484	OTTHUMG00000132912	ENST00000357077.4:c.6627G>A	4.37:g.114276401G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q01485|Q08AC7|Q08AC8|Q7Z3L5	Silent	SNP	ENST00000357077.4	37	CCDS3702.1																																																																																				0.502	ANK2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256422.2	NM_001148		A	114276401	G	A	114276401	2	1	644	1	0	0	0	0	0	0	0	1	621	1219	43	2		2	ANK2	4	114276401	Silent	SNP	G	TCGA-KL-8345-01A-11D-2310-10	25740647	114276401	76877875	25	39870										
FAT4	79633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	126389910	126389910	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	aggcagtggtacatataagcTcaccaccatgaagaaggtgt	11	8	1	2			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr4:126389910T>C	ENST00000394329.3	+	11	12156	c.12143T>C	c.(12142-12144)cTc>cCc	p.L4048P	FAT4_ENST00000335110.5_Missense_Mutation_p.L2311P	NM_024582.4	NP_078858.4	Q6V0I7	FAT4_HUMAN	FAT atypical cadherin 4	4048	Laminin G-like 1. {ECO:0000255|PROSITE- ProRule:PRU00122}.				branching involved in ureteric bud morphogenesis (GO:0001658)|cerebral cortex development (GO:0021987)|digestive tract development (GO:0048565)|heart morphogenesis (GO:0003007)|heterophilic cell-cell adhesion (GO:0007157)|hippo signaling (GO:0035329)|homophilic cell adhesion (GO:0007156)|inner ear receptor stereocilium organization (GO:0060122)|neurogenesis (GO:0022008)|ossification involved in bone maturation (GO:0043931)|plasma membrane organization (GO:0007009)|regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072307)	apical part of cell (GO:0045177)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(6)|autonomic_ganglia(1)|breast(4)|central_nervous_system(3)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(3)|kidney(10)|large_intestine(93)|liver(3)|lung(120)|ovary(9)|pancreas(2)|prostate(21)|skin(31)|stomach(1)|upper_aerodigestive_tract(12)|urinary_tract(6)	355						ACATATAAGCTCACCACCATG	0.408																																																0													98	98	98					4																	126389910		2203	4300	6503	SO:0001583	missense	79633			AY356402	CCDS3732.3	4q28.1	2013-05-31	2013-05-31		ENSG00000196159	ENSG00000196159		"Cadherins / Cadherin-related"	23109	protein-coding gene	gene with protein product	"cadherin-related family member 11"	612411	"FAT tumor suppressor homolog 4 (Drosophila)"			15003449	Standard	NM_024582		Approved	CDHF14, FAT-J, CDHR11	uc003ifj.4	Q6V0I7	OTTHUMG00000133100	ENST00000394329.3:c.12143T>C	4.37:g.126389910T>C	ENSP00000377862:p.Leu4048Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5Z6|B5MDG4|Q3LIA6|Q8TCK7|Q9H5T6	Missense_Mutation	SNP	ENST00000394329.3	37	CCDS3732.3	.	.	.	.	.	.	.	.	.	.	T	21.5	4.155915	0.78114	.	.	ENSG00000196159	ENST00000394329;ENST00000335110	D;D	0.81821	-1.54;-1.54	5.17	5.17	0.71159	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (2);Laminin G, subdomain 2 (1);	0.000000	0.30830	U	0.008797	D	0.85062	0.5611	L	0.35854	1.095	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.999	D	0.86800	0.1991	10	0.72032	D	0.01	.	15.0242	0.71656	0.0:0.0:0.0:1.0	.	2311;4048;4048	Q6V0I7-2;Q6V0I7;Q6V0I7-3	.;FAT4_HUMAN;.	P	4048;2311	ENSP00000377862:L4048P;ENSP00000335169:L2311P	ENSP00000335169:L2311P	L	+	2	0	FAT4	126609360	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	7.538000	0.82048	1.947000	0.56498	0.477000	0.44152	CTC		0.408	FAT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256765.2	NM_024582		C	126389910	T	C	126389910	3	2	644	1	0	0	0	0	1	0	0	0	5699	1551	54	3	12185	3	FAT4	4	126389910	Missense_Mutation	SNP	T	TCGA-KL-8345-01A-11D-2310-10	12113509	126389910	64764366	26	39871										
PALLD	23022	broad.mit.edu	37	chr4	169837136	169837136	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	ttcttgcaggctcctggagaTctgactgttcaagaaggaaa	11	8	3	3			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr4:169837136T>C	ENST00000505667.1	+	17	2981	c.2808T>C	c.(2806-2808)gaT>gaC	p.D936D	PALLD_ENST00000261509.6_Silent_p.D919D|CBR4_ENST00000509108.1_Intron|PALLD_ENST00000507735.1_Silent_p.D432D|PALLD_ENST00000512127.1_Silent_p.D537D|PALLD_ENST00000335742.7_Silent_p.D761D			Q8WX93	PALLD_HUMAN	palladin, cytoskeletal associated protein	1143					cytoskeleton organization (GO:0007010)	actin filament (GO:0005884)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|nucleus (GO:0005634)	muscle alpha-actinin binding (GO:0051371)			breast(4)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(6)|liver(2)|lung(18)|ovary(3)|prostate(3)|skin(4)	48		Prostate(90;0.00996)|Renal(120;0.0203)|Melanoma(52;0.144)		GBM - Glioblastoma multiforme(119;0.204)		CTCCTGGAGATCTGACTGTTC	0.448									Pancreatic Cancer, Familial Clustering of																												Esophageal Squamous(109;1482 1532 18347 40239 51172)											0													97	101	100					4																	169837136		2203	4300	6503	SO:0001819	synonymous_variant	23022	Familial Cancer Database	incl.: Hereditary Pancreatic Adenocarcinoma, Insulin-Dependent Diabetes Mellitus - Exocrine Insufficiency - Familial Pancreatic Cancer, PNCA1	AB023209	CCDS34098.1, CCDS54818.1, CCDS54819.1, CCDS54820.1	4q32.3	2013-01-11			ENSG00000129116	ENSG00000129116		"Immunoglobulin superfamily / I-set domain containing"	17068	protein-coding gene	gene with protein product		608092				10231032, 10931874	Standard	NM_001166108		Approved	KIAA0992, SIH002, CGI-151	uc011cjx.2	Q8WX93	OTTHUMG00000161097	ENST00000505667.1:c.2808T>C	4.37:g.169837136T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KTG2|B5MD56|B7ZMM5|Q7L3E0|Q7Z3W0|Q86WE8|Q8N1M2|Q9UGA0|Q9UQF5|Q9Y2J6|Q9Y3E9	Silent	SNP	ENST00000505667.1	37	CCDS54818.1																																																																																				0.448	PALLD-002	NOVEL	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000363762.1	NM_016081		C	169837136	T	C	169837136	2	2	644	1	0	0	0	0	0	0	0	1	11414	1432	50	3		3	PALLD	4	169837136	Silent	SNP	T	TCGA-KL-8345-01A-11D-2310-10	43447226	169837136	21317140	27	39872										
HMGCS1	3157	broad.mit.edu	37	chr5	43297257	43297257	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	ataggcatgttgcatatgtgTcccacgaagccctattagaa	9	9	0	1			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr5:43297257T>C	ENST00000325110.6	-	5	792	c.586A>G	c.(586-588)Aca>Gca	p.T196A	HMGCS1_ENST00000433297.2_Missense_Mutation_p.T196A	NM_001098272.2	NP_001091742.1	Q01581	HMCS1_HUMAN	3-hydroxy-3-methylglutaryl-CoA synthase 1 (soluble)	196					brain development (GO:0007420)|cellular lipid metabolic process (GO:0044255)|cellular response to cholesterol (GO:0071397)|cellular response to follicle-stimulating hormone stimulus (GO:0071372)|cholesterol biosynthetic process (GO:0006695)|isoprenoid biosynthetic process (GO:0008299)|lipid metabolic process (GO:0006629)|liver development (GO:0001889)|male gonad development (GO:0008584)|response to acid chemical (GO:0001101)|response to drug (GO:0042493)|response to lipoprotein particle (GO:0055094)|response to low light intensity stimulus (GO:0009645)|response to purine-containing compound (GO:0014074)|response to tellurium ion (GO:0046690)|response to vitamin E (GO:0033197)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	drug binding (GO:0008144)|hydroxymethylglutaryl-CoA synthase activity (GO:0004421)|isomerase activity (GO:0016853)|organic acid binding (GO:0043177)			NS(1)|breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|stomach(1)|urinary_tract(1)	15						TGCATATGTGTCCCACGAAGC	0.368																																																0													116	118	118					5																	43297257		2203	4300	6503	SO:0001583	missense	3157				CCDS34154.1	5p14-p13	2012-10-02	2010-04-30			ENSG00000112972	2.3.3.10		5007	protein-coding gene	gene with protein product	"3-hydroxy-3-methylglutaryl coenzyme A (HMG-CoA) synthase"	142940	"3-hydroxy-3-methylglutaryl-Coenzyme A synthase 1 (soluble)"	HMGCS			Standard	NM_001098272		Approved		uc003jnq.5	Q01581		ENST00000325110.6:c.586A>G	5.37:g.43297257T>C	ENSP00000322706:p.Thr196Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDL8	Missense_Mutation	SNP	ENST00000325110.6	37	CCDS34154.1	.	.	.	.	.	.	.	.	.	.	T	33	5.211012	0.95069	.	.	ENSG00000112972	ENST00000325110;ENST00000433297;ENST00000545275	T;T	0.77750	-1.12;-1.12	5.96	5.96	0.96718	Hydroxymethylglutaryl-coenzyme A synthase C-terminal (1);Thiolase-like (1);	0.000000	0.85682	D	0.000000	T	0.81173	0.4767	M	0.72624	2.21	0.80722	D	1	P	0.43938	0.822	P	0.45232	0.474	D	0.83710	0.0187	10	0.87932	D	0	-19.8309	16.4381	0.83884	0.0:0.0:0.0:1.0	.	196	Q01581	HMCS1_HUMAN	A	196;196;185	ENSP00000322706:T196A;ENSP00000399402:T196A	ENSP00000322706:T196A	T	-	1	0	HMGCS1	43333014	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	7.698000	0.84413	2.280000	0.76307	0.533000	0.62120	ACA		0.368	HMGCS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368022.1			C	43297257	T	C	43297257	3	2	644	1	0	0	0	0	1	0	0	0	7239	1667	58	3	1004	3	HMGCS1	5	43297257	Missense_Mutation	SNP	T	TCGA-KL-8345-01A-11D-2310-10		43297257	137618003	28	39873										
SH3TC2	79628	broad.mit.edu	37	chr5	148407015	148407015	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tacactttggaaaggatgagAcacagggccctctgggtgct	13	9	1	1			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr5:148407015A>G	ENST00000515425.1	-	11	2381	c.2280T>C	c.(2278-2280)tgT>tgC	p.C760C	SH3TC2_ENST00000538184.1_Silent_p.C307C|SH3TC2_ENST00000513340.1_5'Flank|SH3TC2_ENST00000512049.1_Silent_p.C753C|SH3TC2_ENST00000394358.2_Silent_p.C645C	NM_024577.3	NP_078853.2	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	760					cell death (GO:0008219)|peripheral nervous system myelin maintenance (GO:0032287)|regulation of ERBB signaling pathway (GO:1901184)|regulation of intracellular protein transport (GO:0033157)	cytoplasmic vesicle (GO:0031410)|plasma membrane (GO:0005886)|recycling endosome (GO:0055037)				breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(9)|lung(12)|ovary(3)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)	39			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAGGATGAGACACAGGGCCC	0.617																																																0													53	59	57					5																	148407015		2203	4300	6503	SO:0001819	synonymous_variant	79628			AK127248	CCDS4293.1	5q32	2014-09-17			ENSG00000169247	ENSG00000169247		"Tetratricopeptide (TTC) repeat domain containing"	29427	protein-coding gene	gene with protein product		608206				14574644	Standard	NM_024577		Approved	KIAA1985, CMT4C	uc003lpu.3	Q8TF17	OTTHUMG00000129930	ENST00000515425.1:c.2280T>C	5.37:g.148407015A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KWE5|Q14CC0|Q14CF5|Q9H8I5	Silent	SNP	ENST00000515425.1	37	CCDS4293.1																																																																																				0.617	SH3TC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252186.2	NM_024577		G	148407015	A	G	148407015	2	3	644	1	0	0	0	0	0	0	0	1	14275	273	10	3		3	SH3TC2	5	148407015	Silent	SNP	A	TCGA-KL-8345-01A-11D-2310-10	105109758	148407015	32508245	29	39874										
GABBR1	2550	ucsc.edu	37	chr6	29580384	29580384	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	agccgctggcatcaaacaccAcatggccctgagggaaggaa	12	12	1	1			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr6:29580384A>G	ENST00000377034.4	-	13	1909	c.1574T>C	c.(1573-1575)gTg>gCg	p.V525A	GABBR1_ENST00000377016.4_Missense_Mutation_p.V463A|GABBR1_ENST00000376977.3_Missense_Mutation_p.V525A|GABBR1_ENST00000355973.3_Missense_Mutation_p.V408A|GABBR1_ENST00000377012.4_Missense_Mutation_p.V408A	NM_001470.2	NP_001461.1	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor, 1	525					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|gamma-aminobutyric acid signaling pathway (GO:0007214)|negative regulation of adenylate cyclase activity (GO:0007194)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|G-protein coupled receptor heterodimeric complex (GO:0038039)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|presynaptic membrane (GO:0042734)	G-protein coupled GABA receptor activity (GO:0004965)			endometrium(3)|kidney(1)|large_intestine(13)|liver(1)|lung(16)|ovary(5)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	47					Baclofen(DB00181)|Progabide(DB00837)|Vigabatrin(DB01080)	ATCAAACACCACATGGCCCTG	0.532																																																0													90	79	83					6																	29580384		2203	4300	6503	SO:0001583	missense	2550			Y11044	CCDS4663.1, CCDS4664.1, CCDS4665.1	6p21.3	2012-08-29			ENSG00000204681	ENSG00000204681		"GABA receptors", "GPCR / Class C : GABA(B) receptors"	4070	protein-coding gene	gene with protein product	"GABA-B receptor"	603540				9753614, 9798068	Standard	NM_001470		Approved	hGB1a, GPRC3A	uc003nmt.4	Q9UBS5	OTTHUMG00000031095	ENST00000377034.4:c.1574T>C	6.37:g.29580384A>G	ENSP00000366233:p.Val525Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B0UXY7|O95375|O95468|O95975|O96022|Q5STL4|Q5SUJ8|Q5SUL3|Q71SG6|Q86W60|Q9UQQ0	Missense_Mutation	SNP	ENST00000377034.4	37	CCDS4663.1	.	.	.	.	.	.	.	.	.	.	A	25.0	4.592099	0.86953	.	.	ENSG00000204681	ENST00000355973;ENST00000376977;ENST00000377016;ENST00000377012;ENST00000377034	T;T;T;T;T	0.79454	-1.27;-1.27;-1.27;-1.27;-1.27	5.86	5.86	0.93980	Extracellular ligand-binding receptor (1);	0.000000	0.85682	D	0.000000	D	0.89083	0.6614	M	0.92219	3.285	0.80722	D	1	D;D;D;D	0.76494	0.998;0.999;0.999;0.998	D;D;D;D	0.83275	0.99;0.994;0.996;0.994	D	0.91670	0.5349	10	0.87932	D	0	-6.9297	14.1969	0.65677	1.0:0.0:0.0:0.0	.	525;463;525;408	Q9UBS5-5;Q9UBS5-3;Q9UBS5;Q5SUJ9	.;.;GABR1_HUMAN;.	A	408;525;463;408;525	ENSP00000348248:V408A;ENSP00000366176:V525A;ENSP00000366215:V463A;ENSP00000366211:V408A;ENSP00000366233:V525A	ENSP00000348248:V408A	V	-	2	0	GABBR1	29688363	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	8.901000	0.92560	2.241000	0.73720	0.482000	0.46254	GTG		0.532	GABBR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076141.3			G	29580384	A	G	29580384	3	3	644	1	0	0	0	0	1	0	0	0	6162	159	6	3	1355	3	GABBR1	6	29580384	Missense_Mutation	SNP	A	TCGA-KL-8345-01A-11D-2310-10		29580384	141534683	30	39875										
FAM26F	441168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	116784510	116784510	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	gatttttacatctgtcacccGatgcctatctccagttagtt	6	11	3	0			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr6:116784510G>A	ENST00000368605.1	+	3	685	c.590G>A	c.(589-591)cGa>cAa	p.R197Q	FAM26F_ENST00000368606.3_Missense_Mutation_p.R25Q|RP1-93H18.6_ENST00000476099.1_RNA	NM_001010919.1	NP_001010919.1	Q5R3K3	FA26F_HUMAN	family with sequence similarity 26, member F	197					ion transport (GO:0006811)	integral component of membrane (GO:0016021)				large_intestine(2)|lung(1)	3				GBM - Glioblastoma multiforme(226;0.0402)|all cancers(137;0.0627)|OV - Ovarian serous cystadenocarcinoma(136;0.0655)|Epithelial(106;0.231)		TCTGTCACCCGATGCCTATCT	0.378																																																0													168	165	166					6																	116784510		2203	4300	6503	SO:0001583	missense	441168			AF086130	CCDS34519.1, CCDS64506.1	6q22.1	2007-06-20			ENSG00000188820	ENSG00000188820			33391	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 187"	C6orf187			Standard	NM_001010919		Approved	RP1-93H18.5, OTTHUMP00000017061, OTTHUMP00000017062, dJ93H18.5	uc003pwv.4	Q5R3K3	OTTHUMG00000015438	ENST00000368605.1:c.590G>A	6.37:g.116784510G>A	ENSP00000357594:p.Arg197Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B9EJB0|Q5R3K4	Missense_Mutation	SNP	ENST00000368605.1	37	CCDS34519.1	.	.	.	.	.	.	.	.	.	.	G	13.18	2.160601	0.38119	.	.	ENSG00000188820	ENST00000368606;ENST00000368605;ENST00000368604	T;T;T	0.18960	2.18;2.18;2.18	5.11	0.291	0.15732	.	0.313768	0.24436	N	0.038546	T	0.06917	0.0176	M	0.63208	1.945	0.19300	N	0.99997	P	0.34800	0.469	B	0.26416	0.069	T	0.21586	-1.0241	10	0.36615	T	0.2	-0.8065	9.9369	0.41556	0.3389:0.0:0.6611:0.0	.	197	Q5R3K3	FA26F_HUMAN	Q	25;197;40	ENSP00000357595:R25Q;ENSP00000357594:R197Q;ENSP00000357593:R40Q	ENSP00000357593:R40Q	R	+	2	0	FAM26F	116891203	0.000000	0.05858	0.000000	0.03702	0.028000	0.11728	-0.122000	0.10627	0.078000	0.16900	-0.136000	0.14681	CGA		0.378	FAM26F-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041946.1	NM_001010919		A	116784510	G	A	116784510	3	1	644	1	0	0	0	0	1	0	0	0	5558	1058	37	1	596	1	FAM26F	6	116784510	Missense_Mutation	SNP	G	TCGA-KL-8345-01A-11D-2310-10	87204126	116784510	54330557	31	39876										
LRCH4	4034	broad.mit.edu	37	chr7	100174729	100174729	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	ttgtgcatggcttgagtggaCacggcggcggcccctcccac	14	14	0	1			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr7:100174729C>A	ENST00000310300.6	-	12	1396	c.1344G>T	c.(1342-1344)gtG>gtT	p.V448V	LRCH4_ENST00000497245.1_5'UTR	NM_002319.3	NP_002310.2	O75427	LRCH4_HUMAN	leucine-rich repeats and calponin homology (CH) domain containing 4	448					nervous system development (GO:0007399)	PML body (GO:0016605)				NS(1)|large_intestine(5)|lung(13)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	23	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CTTGAGTGGACACGGCGGCGG	0.602																																																0													87	84	85					7																	100174729		2203	4300	6503	SO:0001819	synonymous_variant	4034			AF053356	CCDS34706.1	7q22	2008-05-20	2004-05-27	2004-05-28	ENSG00000077454	ENSG00000077454			6691	protein-coding gene	gene with protein product				LRN, LRRN1		9799793	Standard	XM_005250346		Approved		uc003uvj.3	O75427	OTTHUMG00000159544	ENST00000310300.6:c.1344G>T	7.37:g.100174729C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D2D5|Q8WV85|Q96ID0	Silent	SNP	ENST00000310300.6	37	CCDS34706.1																																																																																				0.602	LRCH4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356110.1	NM_002319		A	100174729	C	A	100174729	2	1	644	1	0	0	0	0	0	0	0	1	8942	465	17	4		4	LRCH4	7	100174729	Silent	SNP	C	TCGA-KL-8345-01A-11D-2310-10		100174729	58963934	32	39877										
PODXL	5420	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	131189141	131189141	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	cagagggacgatccagctgtCccccagctccccgttgaggc	12	16	0	2			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr7:131189141C>A	ENST00000378555.3	-	9	1853	c.1606G>T	c.(1606-1608)Gac>Tac	p.D536Y	PODXL_ENST00000537928.1_Missense_Mutation_p.D504Y|PODXL_ENST00000322985.9_Missense_Mutation_p.D504Y|PODXL_ENST00000541194.1_Missense_Mutation_p.D538Y			O00592	PODXL_HUMAN	podocalyxin-like	536					cell adhesion (GO:0007155)|cell migration (GO:0016477)|epithelial tube formation (GO:0072175)|glomerular visceral epithelial cell development (GO:0072015)|leukocyte migration (GO:0050900)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell-cell adhesion (GO:0022408)|positive regulation of cell migration (GO:0030335)|positive regulation of cell-cell adhesion mediated by integrin (GO:0033634)|regulation of microvillus assembly (GO:0032534)	apical plasma membrane (GO:0016324)|cell body (GO:0044297)|cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|microvillus membrane (GO:0031528)|plasma membrane (GO:0005886)|ruffle (GO:0001726)|slit diaphragm (GO:0036057)				NS(1)|breast(3)|endometrium(3)|kidney(3)|large_intestine(4)|lung(4)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	24	Melanoma(18;0.162)					ATCCAGCTGTCCCCCAGCTCC	0.577																																																0													158	132	141					7																	131189141		2203	4300	6503	SO:0001583	missense	5420				CCDS34755.1, CCDS47714.1	7q32-q33	2008-07-18			ENSG00000128567	ENSG00000128567			9171	protein-coding gene	gene with protein product		602632					Standard	NM_001018111		Approved	PCLP, Gp200, PC	uc003vqx.4	O00592	OTTHUMG00000154918	ENST00000378555.3:c.1606G>T	7.37:g.131189141C>A	ENSP00000367817:p.Asp536Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHX8|Q52LZ7|Q53ER6	Missense_Mutation	SNP	ENST00000378555.3	37	CCDS34755.1	.	.	.	.	.	.	.	.	.	.	C	28.6	4.930812	0.92389	.	.	ENSG00000128567	ENST00000541194;ENST00000537928;ENST00000544955;ENST00000378555;ENST00000322985	T;T;T;T	0.27256	1.68;1.68;1.68;1.68	5.66	5.66	0.87406	.	0.000000	0.85682	D	0.000000	T	0.53190	0.1781	M	0.72118	2.19	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.54105	-0.8343	10	0.87932	D	0	-46.4256	18.7315	0.91736	0.0:1.0:0.0:0.0	.	504;536	O00592-2;O00592	.;PODXL_HUMAN	Y	538;504;494;536;504	ENSP00000440518:D538Y;ENSP00000442655:D504Y;ENSP00000367817:D536Y;ENSP00000319782:D504Y	ENSP00000319782:D504Y	D	-	1	0	PODXL	130839681	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	7.487000	0.81328	2.662000	0.90505	0.555000	0.69702	GAC		0.577	PODXL-005	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000337627.2	NM_001018111		A	131189141	C	A	131189141	3	1	644	1	0	0	0	0	1	0	0	0	12187	855	30	4	74	4	PODXL	7	131189141	Missense_Mutation	SNP	C	TCGA-KL-8345-01A-11D-2310-10	31014412	131189141	27949522	33	39878										
VIPR2	7434	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr7	158823446	158823446	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tcgcggacggggtcgggcacCggcttcgccattttcgcttc	14	14	0	0			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr7:158823446C>A	ENST00000262178.2	-	13	1363	c.1178G>T	c.(1177-1179)cGg>cTg	p.R393L	VIPR2_ENST00000402066.1_Missense_Mutation_p.R534L|VIPR2_ENST00000377633.3_Missense_Mutation_p.R377L	NM_003382.4	NP_003373.2	P41587	VIPR2_HUMAN	vasoactive intestinal peptide receptor 2	393					activation of adenylate cyclase activity (GO:0007190)|cell-cell signaling (GO:0007267)|negative regulation of smooth muscle cell proliferation (GO:0048662)|signal transduction (GO:0007165)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|vasoactive intestinal polypeptide receptor activity (GO:0004999)			central_nervous_system(1)|kidney(1)|large_intestine(4)|lung(12)|ovary(1)|pancreas(1)|skin(1)|stomach(1)	22	Ovarian(565;0.152)	all_cancers(7;1.13e-11)|all_epithelial(9;0.000545)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00231)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)|STAD - Stomach adenocarcinoma(7;0.18)		GGTCGGGCACCGGCTTCGCCA	0.706																																					Pancreas(154;1876 1931 2329 17914 20079)											0													12	16	15					7																	158823446		2180	4293	6473	SO:0001583	missense	7434			CA449700, X95097	CCDS5950.1	7q36.3	2012-08-10			ENSG00000106018	ENSG00000106018		"GPCR / Class B : VIP and PACAP (ADCYAP1) receptors"	12695	protein-coding gene	gene with protein product	"VIP and PACAP receptor 2"	601970				7811244	Standard	NM_003382		Approved	VPAC2, VPAC2R	uc003woh.3	P41587	OTTHUMG00000151446	ENST00000262178.2:c.1178G>T	7.37:g.158823446C>A	ENSP00000262178:p.Arg393Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q13053|Q15870|Q53Y09|Q6ZN22|Q9UCW0	Missense_Mutation	SNP	ENST00000262178.2	37	CCDS5950.1	.	.	.	.	.	.	.	.	.	.	C	8.045	0.764687	0.15914	.	.	ENSG00000106018	ENST00000262178;ENST00000377633;ENST00000402066	T;T;T	0.64260	-0.09;-0.09;-0.09	5.23	-2.09	0.07232	.	0.972737	0.08346	N	0.960015	T	0.25680	0.0625	N	0.00583	-1.355	0.19575	N	0.999965	B	0.02656	0.0	B	0.01281	0.0	T	0.19386	-1.0307	10	0.28530	T	0.3	.	8.2774	0.31881	0.3583:0.4777:0.0:0.164	.	393	P41587	VIPR2_HUMAN	L	393;377;534	ENSP00000262178:R393L;ENSP00000366860:R377L;ENSP00000384497:R534L	ENSP00000262178:R393L	R	-	2	0	VIPR2	158516207	0.254000	0.23992	0.005000	0.12908	0.288000	0.27193	0.645000	0.24782	-0.671000	0.05274	-0.678000	0.03780	CGG		0.706	VIPR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322675.1	NM_003382		A	158823446	C	A	158823446	3	1	644	1	0	0	0	0	1	0	0	0	17182	652	23	4	142	4	VIPR2	7	158823446	Missense_Mutation	SNP	C	TCGA-KL-8345-01A-11D-2310-10	27634305	158823446	315217	34	39879										
TJP2	9414	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	71845079	71845079	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	ggcaatgatgtcgggatattTgttgctggcattcaagaagg	14	5	1	2			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr9:71845079T>G	ENST00000377245.4	+	11	1810	c.1602T>G	c.(1600-1602)ttT>ttG	p.F534L	TJP2_ENST00000539225.1_Missense_Mutation_p.F565L|TJP2_ENST00000535702.1_Missense_Mutation_p.F538L|TJP2_ENST00000453658.2_Missense_Mutation_p.F511L|TJP2_ENST00000265384.7_Missense_Mutation_p.F534L|TJP2_ENST00000348208.4_Missense_Mutation_p.F534L	NM_004817.3	NP_004808.2	Q9UDY2	ZO2_HUMAN	tight junction protein 2	534	PDZ 3. {ECO:0000255|PROSITE- ProRule:PRU00143}.				apoptotic process (GO:0006915)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|hippo signaling (GO:0035329)|nucleotide phosphorylation (GO:0046939)|response to organic substance (GO:0010033)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	guanylate kinase activity (GO:0004385)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(8)|kidney(2)|large_intestine(5)|lung(9)|prostate(3)|skin(3)|soft_tissue(1)|upper_aerodigestive_tract(1)	35						TCGGGATATTTGTTGCTGGCA	0.517																																																0													86	85	86					9																	71845079		2203	4300	6503	SO:0001583	missense	9414			L27476	CCDS6627.1, CCDS6628.1, CCDS55314.1, CCDS55315.1, CCDS55316.1, CCDS55317.1	9q13-q21	2012-07-12	2012-07-12		ENSG00000119139	ENSG00000119139			11828	protein-coding gene	gene with protein product	"Friedreich ataxia region gene X104 (tight junction protein ZO-2)", "zona occludens 2"	607709	"deafness, autosomal dominant 51"	DFNA51		7951235, 20602916	Standard	NM_001170630		Approved	ZO-2, X104, ZO2	uc011lrv.2	Q9UDY2	OTTHUMG00000019978	ENST00000377245.4:c.1602T>G	9.37:g.71845079T>G	ENSP00000366453:p.Phe534Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3H9|B7Z2R8|B7Z7T6|F5H301|F5H886|Q15883|Q5VXL0|Q5VXL1|Q8N756|Q8NI14|Q99839|Q9UDY0|Q9UDY1	Missense_Mutation	SNP	ENST00000377245.4	37	CCDS6627.1	.	.	.	.	.	.	.	.	.	.	T	23.4	4.412389	0.83340	.	.	ENSG00000119139	ENST00000453658;ENST00000377245;ENST00000348208;ENST00000265384;ENST00000535702;ENST00000539225	T;T;T;T;T;T	0.56444	0.46;0.46;0.46;0.46;0.46;0.46	5.86	3.5	0.40072	PDZ/DHR/GLGF (4);	0.000000	0.85682	D	0.000000	T	0.68366	0.2993	M	0.71871	2.18	0.80722	D	1	B;D;D;P;P	0.71674	0.208;0.981;0.998;0.857;0.458	B;P;D;P;B	0.80764	0.038;0.86;0.994;0.498;0.2	T	0.71272	-0.4642	10	0.87932	D	0	.	10.9646	0.47406	0.0:0.1323:0.0:0.8677	.	565;538;534;534;534	F5H301;F5H886;Q9UDY2-2;Q9UDY2;Q9UDY2-5	.;.;.;ZO2_HUMAN;.	L	511;534;534;534;538;565	ENSP00000392178:F511L;ENSP00000366453:F534L;ENSP00000345893:F534L;ENSP00000265384:F534L;ENSP00000442090:F538L;ENSP00000438262:F565L	ENSP00000265384:F534L	F	+	3	2	TJP2	71034899	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	1.278000	0.33179	1.145000	0.42336	0.528000	0.53228	TTT		0.517	TJP2-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000052572.2	NM_201629		G	71845079	T	G	71845079	3	3	644	1	0	0	0	0	1	0	0	0	15942	1809	63	5	1801	5	TJP2	9	71845079	Missense_Mutation	SNP	T	TCGA-KL-8345-01A-11D-2310-10		71845079	69368352	35	39880										
PTEN	5728	broad.mit.edu;hgsc.bcm.edu	37	chr10	89711920	89711926	+	Frame_Shift_Del	DEL	TACCTGT	TACCTGT	-													0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	gctatgtgtattattatagcTacctgttaaagaatcatctg							TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	TACCTGT	TACCTGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr10:89711920_89711926delTACCTGT	ENST00000371953.3	+	6	1895_1901	c.538_544delTACCTGT	c.(538-546)tacctgttafs	p.YLL180fs		NM_000314.4	NP_000305.3	P60484	PTEN_HUMAN	phosphatase and tensin homolog	180	Phosphatase tensin-type. {ECO:0000255|PROSITE-ProRule:PRU00590}.				activation of mitotic anaphase-promoting complex activity (GO:0007092)|aging (GO:0007568)|angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|brain morphogenesis (GO:0048854)|canonical Wnt signaling pathway (GO:0060070)|cardiac muscle tissue development (GO:0048738)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|central nervous system development (GO:0007417)|central nervous system myelin maintenance (GO:0032286)|central nervous system neuron axonogenesis (GO:0021955)|dendritic spine morphogenesis (GO:0060997)|dentate gyrus development (GO:0021542)|endothelial cell migration (GO:0043542)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|forebrain morphogenesis (GO:0048853)|heart development (GO:0007507)|innate immune response (GO:0045087)|inositol phosphate dephosphorylation (GO:0046855)|inositol phosphate metabolic process (GO:0043647)|learning or memory (GO:0007611)|locomotor rhythm (GO:0045475)|locomotory behavior (GO:0007626)|long term synaptic depression (GO:0060292)|long-term synaptic potentiation (GO:0060291)|male mating behavior (GO:0060179)|maternal behavior (GO:0042711)|memory (GO:0007613)|multicellular organismal response to stress (GO:0033555)|negative regulation of apoptotic process (GO:0043066)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell aging (GO:0090344)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031658)|negative regulation of dendritic spine morphogenesis (GO:0061002)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of myelination (GO:0031642)|negative regulation of organ growth (GO:0046621)|negative regulation of phagocytosis (GO:0050765)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of ribosome biogenesis (GO:0090071)|negative regulation of synaptic vesicle clustering (GO:2000808)|neuron-neuron synaptic transmission (GO:0007270)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell proliferation (GO:0008284)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|postsynaptic density assembly (GO:0097107)|prepulse inhibition (GO:0060134)|presynaptic membrane assembly (GO:0097105)|prostate gland growth (GO:0060736)|protein dephosphorylation (GO:0006470)|protein kinase B signaling (GO:0043491)|protein stabilization (GO:0050821)|regulation of B cell apoptotic process (GO:0002902)|regulation of cellular component size (GO:0032535)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of myeloid cell apoptotic process (GO:0033032)|regulation of neuron projection development (GO:0010975)|regulation of protein stability (GO:0031647)|response to arsenic-containing substance (GO:0046685)|response to ATP (GO:0033198)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to ethanol (GO:0045471)|response to glucose (GO:0009749)|response to nutrient (GO:0007584)|response to zinc ion (GO:0010043)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synapse maturation (GO:0060074)|T cell receptor signaling pathway (GO:0050852)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|extracellular region (GO:0005576)|mitochondrion (GO:0005739)|myelin sheath adaxonal region (GO:0035749)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|Schmidt-Lanterman incisure (GO:0043220)	anaphase-promoting complex binding (GO:0010997)|enzyme binding (GO:0019899)|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity (GO:0051717)|lipid binding (GO:0008289)|magnesium ion binding (GO:0000287)|PDZ domain binding (GO:0030165)|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity (GO:0016314)|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity (GO:0051800)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|phosphoprotein phosphatase activity (GO:0004721)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)	p.0?(37)|p.R55fs*1(5)|p.?(4)|p.V166fs*17(3)|p.G165fs*9(3)|p.Y27fs*1(2)|p.S179fs*3(1)|p.G165_*404del(1)|p.Y180*(1)|p.V175fs*3(1)		NS(28)|autonomic_ganglia(2)|biliary_tract(6)|bone(5)|breast(92)|central_nervous_system(676)|cervix(26)|endometrium(1068)|eye(8)|haematopoietic_and_lymphoid_tissue(137)|kidney(24)|large_intestine(98)|liver(20)|lung(91)|meninges(2)|oesophagus(2)|ovary(82)|pancreas(6)|prostate(129)|salivary_gland(5)|skin(127)|soft_tissue(19)|stomach(30)|testis(1)|thyroid(29)|upper_aerodigestive_tract(29)|urinary_tract(12)|vulva(17)	2771		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TTATTATAGCTACCTGTTAAAGAATCA	0.377		31	"D, Mis, N, F, S"		"glioma,  prostate, endometrial"	"harmartoma, glioma,  prostate, endometrial"			Proteus syndrome;Juvenile Polyposis;Hereditary Mixed Polyposis Syndrome type 1;Cowden syndrome;Bannayan-Riley-Ruvalcaba syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)																												yes	Rec	yes	"Cowden Syndrome, Bannayan-Riley-Ruvalcaba syndrome"	10	10q23.3	5728	phosphatase and tensin homolog gene		"L, E, M, O"	58	Whole gene deletion(37)|Deletion - Frameshift(12)|Unknown(4)|Complex - frameshift(3)|Deletion - In frame(1)|Substitution - Nonsense(1)	prostate(16)|central_nervous_system(13)|skin(9)|lung(5)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|breast(3)|ovary(3)|soft_tissue(1)|urinary_tract(1)	GRCh37	CM043774|CM074469|HM971505	PTEN	M																																				SO:0001589	frameshift_variant	5728	Familial Cancer Database	Incl.: Encephalocraniocutaneous Lipomatosis, ECCL, Proteus-like s.;incl.: Juvenile Polyposis of the Stomach;HMPS1, Colorectal Adenoma Carcinoma syndrome, CRAC, CRAC1;CS, Cowden disease, Multiple Hamartoma Syndrome, incl.: Lhermitte-Duclos; part of PTEN hamartoma tumour syndrome (PHTS) / PTEN-MATCHS, Cowden-like syndrome;subset of PTEN-Hamartoma Tumor Syndrome; incl.: Ruvalcaba-Myhre-Smith s.	U92436	CCDS31238.1	10q23	2014-09-17	2008-07-31		ENSG00000171862	ENSG00000171862		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs"	9588	protein-coding gene	gene with protein product	"mutated in multiple advanced cancers 1"	601728		BZS, MHAM		9090379	Standard	NM_000314		Approved	MMAC1, TEP1, PTEN1	uc001kfb.3	P60484	OTTHUMG00000018688	ENST00000371953.3:c.538_544delTACCTGT	10.37:g.89711920_89711926delTACCTGT	ENSP00000361021:p.Tyr180fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R904|F2YHV0|O00633|O02679|Q6ICT7	Frame_Shift_Del	DEL	ENST00000371953.3	37	CCDS31238.1																																																																																				0.377	PTEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049241.1	NM_000314		-	89711926	TACCTGT	-	89711920	7	5	644	1	0	1	0	1	0	0	0	0	12748	1522	53	0	560	0	PTEN	10	89711920	Frame_Shift_Del	DEL	TACCTGT	TCGA-KL-8345-01A-11D-2310-10		89711920	45822827	36	39881	348	2								
PTEN	5728	bcgsc.ca	37	chr10	89711921	89711927	+	Frame_Shift_Del	DEL	TACCTGT	TACCTGT	-													0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	ctatgtgtattattatagctAcctgttaaagaatcatctgg							TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	TACCTGT	TACCTGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr10:89711921_89711927delTACCTGT	ENST00000371953.3	+	6	1896_1902	c.539_545delTACCTGT	c.(538-546)ttacctgtafs	p.LPV180fs		NM_000314.4	NP_000305.3	P60484	PTEN_HUMAN	phosphatase and tensin homolog	180	Phosphatase tensin-type. {ECO:0000255|PROSITE-ProRule:PRU00590}.				activation of mitotic anaphase-promoting complex activity (GO:0007092)|aging (GO:0007568)|angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|brain morphogenesis (GO:0048854)|canonical Wnt signaling pathway (GO:0060070)|cardiac muscle tissue development (GO:0048738)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|central nervous system development (GO:0007417)|central nervous system myelin maintenance (GO:0032286)|central nervous system neuron axonogenesis (GO:0021955)|dendritic spine morphogenesis (GO:0060997)|dentate gyrus development (GO:0021542)|endothelial cell migration (GO:0043542)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|forebrain morphogenesis (GO:0048853)|heart development (GO:0007507)|innate immune response (GO:0045087)|inositol phosphate dephosphorylation (GO:0046855)|inositol phosphate metabolic process (GO:0043647)|learning or memory (GO:0007611)|locomotor rhythm (GO:0045475)|locomotory behavior (GO:0007626)|long term synaptic depression (GO:0060292)|long-term synaptic potentiation (GO:0060291)|male mating behavior (GO:0060179)|maternal behavior (GO:0042711)|memory (GO:0007613)|multicellular organismal response to stress (GO:0033555)|negative regulation of apoptotic process (GO:0043066)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell aging (GO:0090344)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031658)|negative regulation of dendritic spine morphogenesis (GO:0061002)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of myelination (GO:0031642)|negative regulation of organ growth (GO:0046621)|negative regulation of phagocytosis (GO:0050765)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of ribosome biogenesis (GO:0090071)|negative regulation of synaptic vesicle clustering (GO:2000808)|neuron-neuron synaptic transmission (GO:0007270)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell proliferation (GO:0008284)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|postsynaptic density assembly (GO:0097107)|prepulse inhibition (GO:0060134)|presynaptic membrane assembly (GO:0097105)|prostate gland growth (GO:0060736)|protein dephosphorylation (GO:0006470)|protein kinase B signaling (GO:0043491)|protein stabilization (GO:0050821)|regulation of B cell apoptotic process (GO:0002902)|regulation of cellular component size (GO:0032535)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of myeloid cell apoptotic process (GO:0033032)|regulation of neuron projection development (GO:0010975)|regulation of protein stability (GO:0031647)|response to arsenic-containing substance (GO:0046685)|response to ATP (GO:0033198)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to ethanol (GO:0045471)|response to glucose (GO:0009749)|response to nutrient (GO:0007584)|response to zinc ion (GO:0010043)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synapse maturation (GO:0060074)|T cell receptor signaling pathway (GO:0050852)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|extracellular region (GO:0005576)|mitochondrion (GO:0005739)|myelin sheath adaxonal region (GO:0035749)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|Schmidt-Lanterman incisure (GO:0043220)	anaphase-promoting complex binding (GO:0010997)|enzyme binding (GO:0019899)|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity (GO:0051717)|lipid binding (GO:0008289)|magnesium ion binding (GO:0000287)|PDZ domain binding (GO:0030165)|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity (GO:0016314)|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity (GO:0051800)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|phosphoprotein phosphatase activity (GO:0004721)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)	p.0?(37)|p.R55fs*1(5)|p.?(4)|p.V166fs*17(3)|p.G165fs*9(3)|p.Y27fs*1(2)|p.S179fs*3(1)|p.G165_*404del(1)|p.Y180*(1)|p.V175fs*3(1)|p.L182*(1)		NS(28)|autonomic_ganglia(2)|biliary_tract(6)|bone(5)|breast(92)|central_nervous_system(676)|cervix(26)|endometrium(1068)|eye(8)|haematopoietic_and_lymphoid_tissue(137)|kidney(24)|large_intestine(98)|liver(20)|lung(91)|meninges(2)|oesophagus(2)|ovary(82)|pancreas(6)|prostate(129)|salivary_gland(5)|skin(127)|soft_tissue(19)|stomach(30)|testis(1)|thyroid(29)|upper_aerodigestive_tract(29)|urinary_tract(12)|vulva(17)	2771		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TATTATAGCTACCTGTTAAAGAATCAT	0.382		31	"D, Mis, N, F, S"		"glioma,  prostate, endometrial"	"harmartoma, glioma,  prostate, endometrial"			Proteus syndrome;Juvenile Polyposis;Hereditary Mixed Polyposis Syndrome type 1;Cowden syndrome;Bannayan-Riley-Ruvalcaba syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)																												yes	Rec	yes	"Cowden Syndrome, Bannayan-Riley-Ruvalcaba syndrome"	10	10q23.3	5728	phosphatase and tensin homolog gene		"L, E, M, O"	59	Whole gene deletion(37)|Deletion - Frameshift(12)|Unknown(4)|Complex - frameshift(3)|Substitution - Nonsense(2)|Deletion - In frame(1)	prostate(16)|central_nervous_system(13)|skin(9)|endometrium(5)|lung(5)|haematopoietic_and_lymphoid_tissue(3)|breast(3)|ovary(3)|soft_tissue(1)|urinary_tract(1)	GRCh37	CM043774|CM074469|HM971505	PTEN	M																																				SO:0001589	frameshift_variant	5728	Familial Cancer Database	Incl.: Encephalocraniocutaneous Lipomatosis, ECCL, Proteus-like s.;incl.: Juvenile Polyposis of the Stomach;HMPS1, Colorectal Adenoma Carcinoma syndrome, CRAC, CRAC1;CS, Cowden disease, Multiple Hamartoma Syndrome, incl.: Lhermitte-Duclos; part of PTEN hamartoma tumour syndrome (PHTS) / PTEN-MATCHS, Cowden-like syndrome;subset of PTEN-Hamartoma Tumor Syndrome; incl.: Ruvalcaba-Myhre-Smith s.	U92436	CCDS31238.1	10q23	2014-09-17	2008-07-31		ENSG00000171862	ENSG00000171862		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs"	9588	protein-coding gene	gene with protein product	"mutated in multiple advanced cancers 1"	601728		BZS, MHAM		9090379	Standard	NM_000314		Approved	MMAC1, TEP1, PTEN1	uc001kfb.3	P60484	OTTHUMG00000018688	ENST00000371953.3:c.539_545delTACCTGT	10.37:g.89711921_89711927delTACCTGT	ENSP00000361021:p.Leu180fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R904|F2YHV0|O00633|O02679|Q6ICT7	Frame_Shift_Del	DEL	ENST00000371953.3	37	CCDS31238.1																																																																																				0.382	PTEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049241.1	NM_000314		-	89711927	TACCTGT	-	89711921	7	5	644	1	0	1	0	1	0	0	0	0	12748	391	14	0	561	0	PTEN	10	89711921	Frame_Shift_Del	DEL	TACCTGT	TCGA-KL-8345-01A-11D-2310-10	1	89711921	45822826	37	39882	348	2								
MTCH2	23788	broad.mit.edu;hgsc.bcm.edu	37	chr11	47653265	47653265	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	cgatcatctctcgagttgtcTagaaacaatcaacacacact	5	12	4	1			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr11:47653265T>C	ENST00000302503.3	-	6	527		c.e6-2		MTCH2_ENST00000534074.1_5'Flank|MTCH2_ENST00000542981.1_Intron	NM_014342.3	NP_055157.1	Q9Y6C9	MTCH2_HUMAN	mitochondrial carrier 2						protein localization to mitochondrion (GO:0070585)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|nucleus (GO:0005634)				endometrium(1)|kidney(2)|large_intestine(2)|lung(3)|ovary(1)|stomach(1)|upper_aerodigestive_tract(1)	11						TCGAGTTGTCTAGAAACAATC	0.418																																																0													149	120	130					11																	47653265		2201	4298	6499	SO:0001630	splice_region_variant	23788			AF085361	CCDS7943.1	11p11.2	2013-05-22	2011-05-19		ENSG00000109919	ENSG00000109919		"Solute carriers"	17587	protein-coding gene	gene with protein product	"solute carrier family 25, member 50"	613221	"mitochondrial carrier homolog 2 (C. elegans)"				Standard	NM_014342		Approved	SLC25A50	uc010rho.2	Q9Y6C9	OTTHUMG00000166926	ENST00000302503.3:c.370-2A>G	11.37:g.47653265T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R7L8	Splice_Site	SNP	ENST00000302503.3	37	CCDS7943.1	.	.	.	.	.	.	.	.	.	.	T	23.5	4.425426	0.83667	.	.	ENSG00000109919	ENST00000302503;ENST00000530428;ENST00000530558	.	.	.	5.71	5.71	0.89125	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.9784	0.71293	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	MTCH2	47609841	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	6.465000	0.73538	2.188000	0.69820	0.533000	0.62120	.		0.418	MTCH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391921.2	NM_014342	Intron	C	47653265	T	C	47653265	5	2	644	1	0	0	0	0	0	0	1	0	9921	1536	53	3	575	3	MTCH2	11	47653265	Splice_Site	SNP	T	TCGA-KL-8345-01A-11D-2310-10		47653265	87353251	38	39883										
OR1S2	219958	mdanderson.org	37	chr11	57971190	57971190	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	acgagatgactgtgagcaaaGtgccgaacctggcccgcatg	13	11	0	3			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr11:57971190G>A	ENST00000302592.6	-	1	463	c.464C>T	c.(463-465)aCt>aTt	p.T155I		NM_001004459.1	NP_001004459.1	Q8NGQ3	OR1S2_HUMAN	olfactory receptor, family 1, subfamily S, member 2	155						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.T155I(1)		endometrium(11)|kidney(1)|large_intestine(4)|lung(23)|ovary(2)|skin(2)|stomach(2)|urinary_tract(1)	46		Breast(21;0.0589)				TGTGAGCAAAGTGCCGAACCT	0.488																																																1	Substitution - Missense(1)	skin(1)											183	172	176					11																	57971190		2201	4296	6497	SO:0001583	missense	219958			BK004297	CCDS31545.1	11q12.1	2012-08-09			ENSG00000197887	ENSG00000197887		"GPCR / Class A : Olfactory receptors"	15141	protein-coding gene	gene with protein product							Standard	NM_001004459		Approved		uc010rkb.2	Q8NGQ3	OTTHUMG00000167541	ENST00000302592.6:c.464C>T	11.37:g.57971190G>A	ENSP00000305469:p.Thr155Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFG5|Q96R85	Missense_Mutation	SNP	ENST00000302592.6	37	CCDS31545.1	.	.	.	.	.	.	.	.	.	.	g	0.008	-1.862128	0.00552	.	.	ENSG00000197887	ENST00000302592	T	0.35421	1.31	4.47	0.804	0.18697	GPCR, rhodopsin-like superfamily (1);	1.024400	0.07804	N	0.956995	T	0.11367	0.0277	N	0.00525	-1.395	0.09310	N	1	B	0.02656	0.0	B	0.06405	0.002	T	0.24440	-1.0160	10	0.34782	T	0.22	.	7.5141	0.27590	0.6178:0.0:0.3822:0.0	.	155	Q8NGQ3	OR1S2_HUMAN	I	155	ENSP00000305469:T155I	ENSP00000305469:T155I	T	-	2	0	OR1S2	57727766	0.000000	0.05858	0.013000	0.15412	0.026000	0.11368	-0.153000	0.10144	0.277000	0.22141	-0.285000	0.09966	ACT		0.488	OR1S2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394703.2	NM_001004459		A	57971190	G	A	57971190	3	1	644	1	0	0	0	0	1	0	0	0	10980	1029	36	2	516	2	OR1S2	11	57971190	Missense_Mutation	SNP	G	TCGA-KL-8345-01A-11D-2310-10	10317925	57971190	77035326	39	39884										
RASSF3	283349	mdanderson.org	37	chr12	65004520	65004520	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	ggcaagccccgctccggccaAcaagtgagtggcgcgcggcg	16	15	0	1	rs77813527	byFrequency	TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr12:65004520A>G	ENST00000542104.1	+	1	228	c.108A>G	c.(106-108)caA>caG	p.Q36Q	RASSF3_ENST00000336061.2_Silent_p.Q36Q|RP11-338E21.1_ENST00000546135.1_RNA|RASSF3_ENST00000540088.1_3'UTR	NM_178169.3	NP_835463.1	Q86WH2	RASF3_HUMAN	Ras association (RalGDS/AF-6) domain family member 3	36					signal transduction (GO:0007165)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|plasma membrane (GO:0005886)	identical protein binding (GO:0042802)			breast(1)|cervix(1)|endometrium(1)|kidney(2)|lung(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	10			Lung(2;0.00133)|LUAD - Lung adenocarcinoma(6;0.0665)|LUSC - Lung squamous cell carcinoma(43;0.132)	GBM - Glioblastoma multiforme(28;0.0611)		GCTCCGGCCAACAAGTGAGTG	0.726													G|||	624	0.124601	0.1755	0.121	5008	,	,		9170	0.0089		0.2078	False		,,,				2504	0.092															0								G	,	823,3551		97,629,1461	14	16	16		108,108	2.5	1	12	dbSNP_131	16	1644,6926		160,1324,2801	no	coding-synonymous,coding-synonymous	RASSF3	NM_001242691.1,NM_178169.3	,	257,1953,4262	GG,GA,AA		19.1832,18.8157,19.059	,	36/91,36/239	65004520	2467,10477	2187	4285	6472	SO:0001819	synonymous_variant	283349				CCDS8969.1	12q14.2	2008-02-22	2008-02-22		ENSG00000153179	ENSG00000153179			14271	protein-coding gene	gene with protein product		607019					Standard	NM_178169		Approved		uc001ssd.3	Q86WH2	OTTHUMG00000168812	ENST00000542104.1:c.108A>G	12.37:g.65004520A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q86WH1	Silent	SNP	ENST00000542104.1	37	CCDS8969.1																																																																																				0.726	RASSF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401161.1			G	65004520	A	G	65004520	2	3	644	1	0	0	0	0	0	0	0	1	13100	40	2	3		3	RASSF3	12	65004520	Silent	SNP	A	TCGA-KL-8345-01A-11D-2310-10		65004520	68847375	40	39885										
PABPC3	5042	mdanderson.org	37	chr13	25671795	25671795	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	caacacagacagtgggtccaCgtcctgcagctgctgctgct	11	14	0	1	rs113416318	byFrequency	TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr13:25671795C>T	ENST00000281589.3	+	1	1496	c.1459C>T	c.(1459-1461)Cgt>Tgt	p.R487C		NM_030979.2	NP_112241.2	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	487					mRNA metabolic process (GO:0016071)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)			breast(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(21)|ovary(4)|pancreas(1)|skin(3)	47		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)		AGTGGGTCCACGTCctgcagc	0.522													c|||	175	0.0349441	0.0537	0.0403	5008	,	,		21647	0.0119		0.0159	False		,,,				2504	0.0491															0																																										SO:0001583	missense	5042			AF132026	CCDS9311.1	13q12-q13	2013-02-12	2001-11-28		ENSG00000151846	ENSG00000151846		"RNA binding motif (RRM) containing"	8556	protein-coding gene	gene with protein product	"testis PABP"	604680	"poly(A)-binding protein, cytoplasmic 3"	PABPL3		8432538, 10543404	Standard	NM_030979		Approved	PABP3, tPABP	uc001upy.3	Q9H361	OTTHUMG00000016601	ENST00000281589.3:c.1459C>T	13.37:g.25671795C>T	ENSP00000281589:p.Arg487Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHV0|Q9H086	Missense_Mutation	SNP	ENST00000281589.3	37	CCDS9311.1	.	.	.	.	.	.	.	.	.	.	C	15.53	2.862076	0.51482	.	.	ENSG00000151846	ENST00000281589	T	0.31247	1.5	0.875	0.875	0.19130	.	0.135300	0.32190	U	0.006459	T	0.29556	0.0737	L	0.59436	1.845	0.58432	D	0.999997	D	0.58970	0.984	P	0.45660	0.489	T	0.12630	-1.0540	10	0.72032	D	0.01	.	7.5489	0.27783	0.0:1.0:0.0:0.0	.	487	Q9H361	PABP3_HUMAN	C	487	ENSP00000281589:R487C	ENSP00000281589:R487C	R	+	1	0	PABPC3	24569795	1.000000	0.71417	0.944000	0.38274	0.640000	0.38277	4.773000	0.62331	0.759000	0.33084	0.313000	0.20887	CGT		0.522	PABPC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044220.2	NM_030979		T	25671795	C	T	25671795	3	4	644	1	0	0	0	0	1	0	0	0	11372	536	19	1	1461	1	PABPC3	13	25671795	Missense_Mutation	SNP	C	TCGA-KL-8345-01A-11D-2310-10		25671795	89498083	41	39886										
COMMD6	170622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr13	76111919	76111919	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	catcggacttagcatccagcGgcggctcgctggacgcctcc	12	16	0	0	rs143172831		TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr13:76111919G>A	ENST00000377615.3	-	2	187	c.23C>T	c.(22-24)cCg>cTg	p.P8L	COMMD6_ENST00000355801.4_Missense_Mutation_p.P8L|COMMD6_ENST00000377619.5_5'Flank|COMMD6_ENST00000460675.1_Intron|COMMD6_ENST00000406936.3_Missense_Mutation_p.P8L			Q7Z4G1	COMD6_HUMAN	COMM domain containing 6	8					negative regulation of NF-kappaB transcription factor activity (GO:0032088)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	NF-kappaB binding (GO:0051059)			breast(1)|lung(1)|urinary_tract(1)	3		Breast(118;0.0979)|Prostate(6;0.122)		GBM - Glioblastoma multiforme(99;0.0104)		AGCATCCAGCGGCGGCTCGCT	0.607																																																0													93	92	92					13																	76111919		2203	4300	6503	SO:0001583	missense	170622			AY542161	CCDS9451.1, CCDS9452.1	13q22	2004-02-18			ENSG00000188243	ENSG00000188243			24015	protein-coding gene	gene with protein product		612377				15799966	Standard	NM_203497		Approved	Acrg	uc001vjn.1	Q7Z4G1	OTTHUMG00000017089	ENST00000377615.3:c.23C>T	13.37:g.76111919G>A	ENSP00000366841:p.Pro8Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF28|B7ZLN0|Q5TBK4	Missense_Mutation	SNP	ENST00000377615.3	37	CCDS9451.1	.	.	.	.	.	.	.	.	.	.	G	2.380	-0.342358	0.05243	.	.	ENSG00000188243	ENST00000406936;ENST00000377615;ENST00000355801	T;T;T	0.44482	0.95;0.95;0.92	4.65	-9.3	0.00649	.	1.794200	0.03225	N	0.178138	T	0.18173	0.0436	.	.	.	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.0;0.001	T	0.14144	-1.0483	9	0.17832	T	0.49	.	2.2716	0.04092	0.1391:0.3574:0.1364:0.3671	.	8;8	Q7Z4G1;Q7Z4G1-2	COMD6_HUMAN;.	L	8	ENSP00000385660:P8L;ENSP00000366841:P8L;ENSP00000348054:P8L	ENSP00000348054:P8L	P	-	2	0	COMMD6	75009920	0.000000	0.05858	0.000000	0.03702	0.018000	0.09664	-5.131000	0.00148	-3.141000	0.00233	-2.406000	0.00223	CCG		0.607	COMMD6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045288.4	XM_085023		A	76111919	G	A	76111919	3	1	644	1	0	0	0	0	1	0	0	0	3722	1116	39	1	293	1	COMMD6	13	76111919	Missense_Mutation	SNP	G	TCGA-KL-8345-01A-11D-2310-10	50440124	76111919	39057959	42	39887										
APEX1	328	broad.mit.edu	37	chr14	20925577	20925578	+	Frame_Shift_Del	DEL	CT	CT	-													0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	gattactttttgttgtcccaCtctctgttacctgcattgtg					rs565835054		TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr14:20925577_20925578delCT	ENST00000216714.3	+	5	1135_1136	c.867_868delCT	c.(865-870)cactctfs	p.S290fs	APEX1_ENST00000398030.4_Frame_Shift_Del_p.S290fs|APEX1_ENST00000555414.1_Frame_Shift_Del_p.S290fs|APEX1_ENST00000557054.1_3'UTR|OSGEP_ENST00000206542.4_5'Flank|OSGEP_ENST00000556252.1_5'Flank	NM_001244249.1|NM_001641.3	NP_001231178.1|NP_001632.2	P27695	APEX1_HUMAN	APEX nuclease (multifunctional DNA repair enzyme) 1	290	Mitochondrial targeting sequence (MTS).				aging (GO:0007568)|base-excision repair (GO:0006284)|cell redox homeostasis (GO:0045454)|cellular response to cAMP (GO:0071320)|cellular response to hydrogen peroxide (GO:0070301)|cellular response to peptide hormone stimulus (GO:0071375)|DNA catabolic process, endonucleolytic (GO:0000737)|DNA catabolic process, exonucleolytic (GO:0000738)|DNA demethylation (GO:0080111)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|negative regulation of smooth muscle cell migration (GO:0014912)|nucleic acid phosphodiester bond hydrolysis (GO:0090305)|oxidation-reduction process (GO:0055114)|positive regulation of DNA repair (GO:0045739)|positive regulation of G1/S transition of mitotic cell cycle (GO:1900087)|regulation of mRNA stability (GO:0043488)|regulation of transcription, DNA-templated (GO:0006355)|response to drug (GO:0042493)|RNA phosphodiester bond hydrolysis, endonucleolytic (GO:0090502)|transcription, DNA-templated (GO:0006351)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|mitochondrion (GO:0005739)|nuclear speck (GO:0016607)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|ribosome (GO:0005840)|transcription factor complex (GO:0005667)	3'-5' exonuclease activity (GO:0008408)|chromatin DNA binding (GO:0031490)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|DNA-(apurinic or apyrimidinic site) lyase activity (GO:0003906)|double-stranded DNA 3'-5' exodeoxyribonuclease activity (GO:0008311)|endodeoxyribonuclease activity (GO:0004520)|endonuclease activity (GO:0004519)|metal ion binding (GO:0046872)|oxidoreductase activity (GO:0016491)|phosphodiesterase I activity (GO:0004528)|phosphoric diester hydrolase activity (GO:0008081)|poly(A) RNA binding (GO:0044822)|RNA-DNA hybrid ribonuclease activity (GO:0004523)|site-specific endodeoxyribonuclease activity, specific for altered base (GO:0016890)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)|uracil DNA N-glycosylase activity (GO:0004844)			breast(2)|endometrium(1)|large_intestine(4)|ovary(2)	9	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)	Lucanthone(DB04967)	TGTTGTCCCACTCTCTGTTACC	0.485								Other BER factors																																								0																																										SO:0001589	frameshift_variant	328			X59764	CCDS9550.1	14q11.2	2008-02-05	2002-09-11	2002-09-13	ENSG00000100823	ENSG00000100823	4.2.99.18		587	protein-coding gene	gene with protein product		107748	"APEX nuclease (multifunctional DNA repair enzyme)"	APEX			Standard	NM_001641		Approved	APE, REF1, HAP1, APX, APEN, REF-1, APE-1	uc021rnr.1	P27695	OTTHUMG00000029544	ENST00000216714.3:c.867_868delCT	14.37:g.20925581_20925582delCT	ENSP00000216714:p.Ser290fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q969L5|Q99775	Frame_Shift_Del	DEL	ENST00000216714.3	37	CCDS9550.1																																																																																				0.485	APEX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000073641.3	NM_001641		-	20925578	CT	-	20925577	7	5	644	1	0	1	0	1	0	0	0	0	769	564	20	0	881	0	APEX1	14	20925577	Frame_Shift_Del	DEL	CT	TCGA-KL-8345-01A-11D-2310-10		20925577	86423963	43	39888										
C14orf21	161424	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	24773484	24773484	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	gtgtgctgcagaacctaaagGttagatttctggcttttgcc	11	8	1	2			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr14:24773484G>A	ENST00000267425.3	+	8	1740		c.e8+1		NOP9_ENST00000396802.3_Intron	NM_174913.1	NP_777573.1	Q86U38	NOP9_HUMAN	NOP9 nucleolar protein								poly(A) RNA binding (GO:0044822)										GAACCTAAAGGTTAGATTTCT	0.517																																																0													58	54	55					14																	24773484		2203	4300	6503	SO:0001630	splice_region_variant	161424				CCDS9624.1, CCDS66616.1	14q12	2012-12-10	2012-12-10	2012-06-06	ENSG00000196943	ENSG00000196943			19826	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 21", "NOP9 nucleolar protein homolog (yeast)"	C14orf21		21653694	Standard	XM_005267385		Approved		uc001wol.1	Q86U38	OTTHUMG00000029342	ENST00000267425.3:c.1647+1G>A	14.37:g.24773484G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MY76|Q8IVF0|Q8TBS6	Splice_Site	SNP	ENST00000267425.3	37	CCDS9624.1	.	.	.	.	.	.	.	.	.	.	G	19.41	3.821463	0.71028	.	.	ENSG00000196943	ENST00000267425;ENST00000544934	.	.	.	5.44	5.44	0.79542	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	18.1971	0.89826	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	C14orf21	23843324	1.000000	0.71417	1.000000	0.80357	0.856000	0.48823	5.521000	0.67086	2.832000	0.97577	0.655000	0.94253	.		0.517	NOP9-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000073186.2		Intron	A	24773484	G	A	24773484	5	1	644	1	0	0	0	0	0	0	1	0	1771	1275	44	2	1678	2	C14orf21	14	24773484	Splice_Site	SNP	G	TCGA-KL-8345-01A-11D-2310-10	3847907	24773484	82576056	44	39889										
BEGAIN	57596	ucsc.edu	37	chr14	101005154	101005154	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	cagcgtgctggcctgcgcgtGctccttctcctccgacgtgg	13	16	1	0			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr14:101005154G>T	ENST00000355173.2	-	7	1005	c.934C>A	c.(934-936)Cac>Aac	p.H312N	BEGAIN_ENST00000443071.2_Missense_Mutation_p.H312N|CTD-2062F14.3_ENST00000553301.1_lincRNA|BEGAIN_ENST00000556751.1_Missense_Mutation_p.H248N	NM_020836.3	NP_065887.1	Q9BUH8	BEGIN_HUMAN	brain-enriched guanylate kinase-associated	312						cytoplasm (GO:0005737)|dendrite (GO:0030425)|membrane (GO:0016020)|neuronal cell body (GO:0043025)				cervix(1)|endometrium(4)|large_intestine(2)|lung(3)|prostate(1)|skin(2)|stomach(1)	14		Melanoma(154;0.212)				GCCTGCGCGTGCTCCTTCTCC	0.682																																					NSCLC(159;1889 2010 9965 27479 40101)											0													36	33	34					14																	101005154		2197	4299	6496	SO:0001583	missense	57596			BC002607	CCDS9962.1	14q32.2	2012-12-07	2012-12-07			ENSG00000183092			24163	protein-coding gene	gene with protein product			"brain-enriched guanylate kinase-associated homolog (rat)"			10819331	Standard	NM_020836		Approved	KIAA1446	uc010txa.2	Q9BUH8		ENST00000355173.2:c.934C>A	14.37:g.101005154G>T	ENSP00000347301:p.His312Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NPU3|Q9P282	Missense_Mutation	SNP	ENST00000355173.2	37	CCDS9962.1	.	.	.	.	.	.	.	.	.	.	G	1.444	-0.566895	0.03910	.	.	ENSG00000183092	ENST00000355173;ENST00000556751;ENST00000443071	.	.	.	4.47	3.5	0.40072	.	0.369879	0.29417	N	0.012213	T	0.19644	0.0472	N	0.13043	0.29	0.28097	N	0.931556	B	0.09022	0.002	B	0.08055	0.003	T	0.18116	-1.0347	9	0.07813	T	0.8	.	6.959	0.24587	0.0:0.1379:0.5106:0.3515	.	312	Q9BUH8	BEGIN_HUMAN	N	312;248;312	.	ENSP00000347301:H312N	H	-	1	0	BEGAIN	100074907	1.000000	0.71417	0.997000	0.53966	0.947000	0.59692	2.716000	0.47219	2.036000	0.60181	0.462000	0.41574	CAC		0.682	BEGAIN-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000414329.1	NM_020836		T	101005154	G	T	101005154	3	4	644	1	0	0	0	0	1	0	0	0	1397	1319	46	4	851	4	BEGAIN	14	101005154	Missense_Mutation	SNP	G	TCGA-KL-8345-01A-11D-2310-10	76231670	101005154	6344386	45	39890										
CACNA1H	8912	ucsc.edu	37	chr16	1260601	1260601	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	aggagcgggtcttcctcagcGtctccaattacatcttcacg	9	13	5	0	rs28365125		TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr16:1260601G>A	ENST00000348261.5	+	20	4236	c.3988G>A	c.(3988-3990)Gtc>Atc	p.V1330I	CACNA1H_ENST00000358590.4_Missense_Mutation_p.V1330I|CACNA1H_ENST00000565831.1_Missense_Mutation_p.V1330I	NM_021098.2	NP_066921.2	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type, alpha 1H subunit	1330					aldosterone biosynthetic process (GO:0032342)|axon guidance (GO:0007411)|calcium ion import (GO:0070509)|cellular response to hormone stimulus (GO:0032870)|cellular response to potassium ion (GO:0035865)|cortisol biosynthetic process (GO:0034651)|membrane depolarization during action potential (GO:0086010)|muscle contraction (GO:0006936)|muscle organ development (GO:0007517)|myoblast fusion (GO:0007520)|positive regulation of acrosome reaction (GO:2000344)|regulation of heart contraction (GO:0008016)|regulation of membrane potential (GO:0042391)|transport (GO:0006810)	caveola (GO:0005901)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|voltage-gated calcium channel complex (GO:0005891)	low voltage-gated calcium channel activity (GO:0008332)|metal ion binding (GO:0046872)|scaffold protein binding (GO:0097110)			breast(4)|endometrium(5)|kidney(2)|lung(23)	34		Hepatocellular(780;0.00369)			Amiodarone(DB01118)|Bepridil(DB01244)|Cinnarizine(DB00568)|Felodipine(DB01023)|Flunarizine(DB04841)|Isradipine(DB00270)|Nifedipine(DB01115)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Zonisamide(DB00909)	CTTCCTCAGCGTCTCCAATTA	0.672																																																0								G	ILE/VAL,ILE/VAL	1,3987		0,1,1993	31	36	34		3988,3988	3.4	1	16	dbSNP_126	34	1,8313		0,1,4156	no	missense,missense	CACNA1H	NM_001005407.1,NM_021098.2	29,29	0,2,6149	AA,AG,GG		0.012,0.0251,0.0163	possibly-damaging,possibly-damaging	1330/2348,1330/2354	1260601	2,12300	1994	4157	6151	SO:0001583	missense	8912			AL031703	CCDS45375.1, CCDS45376.1	16p13.3	2012-03-07	2007-02-16					"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1395	protein-coding gene	gene with protein product		607904				9670923, 16382099	Standard	NM_021098		Approved	Cav3.2	uc002cks.3	O95180		ENST00000348261.5:c.3988G>A	16.37:g.1260601G>A	ENSP00000334198:p.Val1330Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B5ME00|F8WFD1|O95802|Q8WWI6|Q96QI6|Q96RZ9|Q9NYY4|Q9NYY5	Missense_Mutation	SNP	ENST00000348261.5	37	CCDS45375.1	.	.	.	.	.	.	.	.	.	.	G	10.94	1.492879	0.26774	2.51E-4	1.2E-4	ENSG00000196557	ENST00000348261;ENST00000358590	D;D	0.97404	-4.37;-4.37	4.33	3.37	0.38596	.	0.069856	0.56097	D	0.000030	D	0.91392	0.7284	N	0.17838	0.53	0.26391	N	0.976573	B;B;B;B;B	0.33000	0.393;0.016;0.035;0.012;0.068	B;B;B;B;B	0.23275	0.04;0.045;0.013;0.005;0.027	D	0.84502	0.0617	10	0.34782	T	0.22	.	11.7075	0.51605	0.0879:0.0:0.9121:0.0	rs28365125;rs45605133	71;71;71;1330;1330	A2SX38;A2SX35;A2SX37;O95180-2;O95180	.;.;.;.;CAC1H_HUMAN	I	1330	ENSP00000334198:V1330I;ENSP00000351401:V1330I	ENSP00000334198:V1330I	V	+	1	0	CACNA1H	1200602	0.996000	0.38824	1.000000	0.80357	0.952000	0.60782	2.631000	0.46502	1.034000	0.39945	0.543000	0.68304	GTC		0.672	CACNA1H-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000421601.1	NM_001005407		A	1260601	G	A	1260601	3	1	644	1	0	0	0	0	1	0	0	0	2547	1145	40	1	4062	1	CACNA1H	16	1260601	Missense_Mutation	SNP	G	TCGA-KL-8345-01A-11D-2310-10		1260601	89094152	46	39891										
CORO7	79585	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr16	4445319	4445319	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	ccgcggctttgttctggggtCaaagatccgcagctgcttgt	13	11	2	1			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr16:4445319C>T	ENST00000251166.4	-	7	731	c.586G>A	c.(586-588)Gac>Aac	p.D196N	CORO7_ENST00000539968.1_5'UTR|CORO7_ENST00000423908.2_Missense_Mutation_p.D28N|CORO7-PAM16_ENST00000572467.1_Missense_Mutation_p.D196N|CORO7_ENST00000574025.1_Missense_Mutation_p.D111N|CORO7_ENST00000537233.2_Missense_Mutation_p.D178N	NM_024535.4	NP_078811.3	P57737	CORO7_HUMAN	coronin 7	196					actin filament polymerization (GO:0030041)|Golgi to endosome transport (GO:0006895)|protein transport (GO:0015031)	cytoplasmic vesicle (GO:0031410)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|trans-Golgi network (GO:0005802)	actin binding (GO:0003779)			breast(3)|central_nervous_system(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|lung(8)|prostate(2)|skin(2)|urinary_tract(2)	23						GTTCTGGGGTCAAAGATCCGC	0.602																																																0													71	73	72					16																	4445319		2197	4300	6497	SO:0001583	missense	79585			AK097238	CCDS10513.1, CCDS55982.1, CCDS58417.1	16p13.3	2013-01-10			ENSG00000262246	ENSG00000262246		"Coronins", "WD repeat domain containing"	26161	protein-coding gene	gene with protein product		611668				15327992	Standard	NM_024535		Approved	FLJ22021		P57737	OTTHUMG00000129465	ENST00000251166.4:c.586G>A	16.37:g.4445319C>T	ENSP00000251166:p.Asp196Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFD6|B4DL18|I3L416|Q17RK4	Missense_Mutation	SNP	ENST00000251166.4	37	CCDS10513.1	.	.	.	.	.	.	.	.	.	.	C	22.7	4.325399	0.81580	.	.	ENSG00000103426	ENST00000251166;ENST00000537233;ENST00000423908	T;T	0.02158	4.42;4.42	4.17	4.17	0.49024	WD40/YVTN repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.660420	0.15690	N	0.249481	T	0.07818	0.0196	L	0.45228	1.405	0.47123	D	0.999322	D;D;D;D	0.89917	1.0;0.999;0.997;1.0	D;D;D;D	0.91635	0.998;0.997;0.994;0.999	T	0.28235	-1.0050	10	0.49607	T	0.09	-25.4858	11.8635	0.52480	0.0:1.0:0.0:0.0	.	111;178;196;177	P57737-2;B4DFD6;P57737;B4DKU9	.;.;CORO7_HUMAN;.	N	196;111;28	ENSP00000251166:D196N;ENSP00000391530:D28N	ENSP00000251166:D196N	D	-	1	0	CORO7	4385320	1.000000	0.71417	0.998000	0.56505	0.840000	0.47671	3.870000	0.56070	2.135000	0.66039	0.563000	0.77884	GAC		0.602	CORO7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251628.2	NM_024535		T	4445319	C	T	4445319	3	4	644	1	0	0	0	0	1	0	0	0	3761	826	29	2	2279	2	CORO7	16	4445319	Missense_Mutation	SNP	C	TCGA-KL-8345-01A-11D-2310-10	3184718	4445319	85909434	47	39892										
KRT38	8687	mdanderson.org	37	chr17	39595539	39595539	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tcggccttggccagggtcgcAtcatccaggagcttctgtgt	13	12	2	0	rs117668654	byFrequency	TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr17:39595539A>G	ENST00000246646.3	-	3	647	c.648T>C	c.(646-648)gaT>gaC	p.D216D		NM_006771.3	NP_006762.3	O76015	KRT38_HUMAN	keratin 38	216	Coil 1B.|Rod.					extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)	structural molecule activity (GO:0005198)			breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(11)|ovary(1)|pancreas(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	29		Breast(137;0.000496)				CCAGGGTCGCATCATCCAGGA	0.632													G|||	58	0.0115815	0.0008	0.0043	5008	,	,		17656	0.0278		0.0089	False		,,,				2504	0.0174															0													85	77	79					17																	39595539		2203	4300	6503	SO:0001819	synonymous_variant	8687			Y16794	CCDS11392.1	17q21.2	2013-06-20	2006-07-17	2006-07-17	ENSG00000171360	ENSG00000171360		"-", "Intermediate filaments type I, keratins (acidic)"	6456	protein-coding gene	gene with protein product		604542	"keratin, hair, acidic, 8"	KRTHA8		9756910, 16831889	Standard	NM_006771		Approved		uc002hwq.1	O76015	OTTHUMG00000133439	ENST00000246646.3:c.648T>C	17.37:g.39595539A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A2RRM5|Q6A164	Silent	SNP	ENST00000246646.3	37	CCDS11392.1																																																																																				0.632	KRT38-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257307.2	NM_006771		G	39595539	A	G	39595539	2	3	644	1	0	0	0	0	0	0	0	1	8482	214	8	3		3	KRT38	17	39595539	Silent	SNP	A	TCGA-KL-8345-01A-11D-2310-10		39595539	41599671	48	39893										
SC65	10609	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	39963092	39963092	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	gtgggtgaactccagcagctCccgcagctcggcggtctggt	15	13	1	1			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr17:39963092C>G	ENST00000355468.3	-	7	1568	c.1102G>C	c.(1102-1104)Gag>Cag	p.E368Q	LEPREL4_ENST00000393928.1_Missense_Mutation_p.E368Q			Q92791	SC65_HUMAN	leprecan-like 4	368	Asp/Glu-rich (acidic).				synaptonemal complex assembly (GO:0007130)	condensed nuclear chromosome (GO:0000794)|nucleolus (GO:0005730)|synaptonemal complex (GO:0000795)				endometrium(1)|kidney(1)|large_intestine(2)|lung(3)|urinary_tract(1)	8						TCCAGCAGCTCCCGCAGCTCG	0.592																																																0													62	52	56					17																	39963092		2203	4300	6503	SO:0001583	missense	10609			BC001047	CCDS11408.1	17q12	2013-05-03	2002-08-29		ENSG00000141696	ENSG00000141696			16946	protein-coding gene	gene with protein product			"nucleolar autoantigen (55kD)", "rat synaptonemal complex protein"			8862517	Standard	NM_006455		Approved	SC65, NO55	uc002hxt.3	Q92791	OTTHUMG00000133501	ENST00000355468.3:c.1102G>C	17.37:g.39963092C>G	ENSP00000347649:p.Glu368Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q53GI6|Q9H4F6	Missense_Mutation	SNP	ENST00000355468.3	37	CCDS11408.1	.	.	.	.	.	.	.	.	.	.	C	19.65	3.867921	0.72065	.	.	ENSG00000141696	ENST00000355468;ENST00000393928;ENST00000545545	T;T	0.39787	1.06;1.06	5.36	4.37	0.52481	.	0.000000	0.85682	D	0.000000	T	0.44519	0.1297	L	0.55017	1.72	0.46701	D	0.999167	P;B	0.41450	0.75;0.312	B;B	0.43809	0.432;0.103	T	0.39014	-0.9634	10	0.42905	T	0.14	-23.401	14.5908	0.68362	0.0:0.8527:0.1473:0.0	.	357;368	B4DVZ5;Q92791	.;SC65_HUMAN	Q	368;368;357	ENSP00000347649:E368Q;ENSP00000377505:E368Q	ENSP00000347649:E368Q	E	-	1	0	LEPREL4	37216618	1.000000	0.71417	1.000000	0.80357	0.902000	0.53008	1.102000	0.31050	1.218000	0.43458	0.609000	0.83330	GAG		0.592	LEPREL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257439.2			G	39963092	C	G	39963092	3	3	644	1	0	0	0	0	1	0	0	0	13880	864	30	4	223	4	SC65	17	39963092	Missense_Mutation	SNP	C	TCGA-KL-8345-01A-11D-2310-10	367553	39963092	41232118	49	39894										
BPTF	2186	hgsc.bcm.edu;bcgsc.ca	37	chr17	65908787	65908787	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	cacgatgacctccacagtggCcacagaatcaaaaactgtga	8	12	1	3			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr17:65908787C>T	ENST00000321892.4	+	13	5226	c.5165C>T	c.(5164-5166)gCc>gTc	p.A1722V	BPTF_ENST00000335221.5_Missense_Mutation_p.A1722V|BPTF_ENST00000424123.3_Missense_Mutation_p.A1583V|BPTF_ENST00000306378.6_Missense_Mutation_p.A1596V			Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1722	Thr-rich.				anterior/posterior pattern specification (GO:0009952)|ATP catabolic process (GO:0006200)|brain development (GO:0007420)|chromatin remodeling (GO:0006338)|embryonic placenta development (GO:0001892)|endoderm development (GO:0007492)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|microtubule cytoskeleton (GO:0015630)|nucleolus (GO:0005730)|nucleus (GO:0005634)|NURF complex (GO:0016589)	sequence-specific DNA binding (GO:0043565)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(16)|lung(23)|ovary(3)|pancreas(2)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	78	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)			TCCACAGTGGCCACAGAATCA	0.408																																																0													83	83	83					17																	65908787		2203	4300	6503	SO:0001583	missense	2186			AY282495	CCDS11673.1	17q24	2013-01-28	2006-12-01	2006-12-01	ENSG00000171634	ENSG00000171634		"Zinc fingers, PHD-type"	3581	protein-coding gene	gene with protein product		601819	"fetal Alzheimer antigen"	FALZ		8975731, 10662542, 16728976	Standard	NM_182641		Approved	FAC1, NURF301	uc002jgf.3	Q12830	OTTHUMG00000132254	ENST00000321892.4:c.5165C>T	17.37:g.65908787C>T	ENSP00000315454:p.Ala1722Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NX67|Q7Z7D6|Q9UIG2	Missense_Mutation	SNP	ENST00000321892.4	37		.	.	.	.	.	.	.	.	.	.	C	14.36	2.511205	0.44660	.	.	ENSG00000171634	ENST00000306378;ENST00000335221;ENST00000321892	T;T;T	0.63580	-0.05;-0.05;-0.05	5.47	5.47	0.80525	.	.	.	.	.	T	0.68696	0.3029	N	0.24115	0.695	0.28907	N	0.892942	D;D	0.69078	0.995;0.997	P;D	0.66196	0.871;0.942	T	0.66540	-0.5898	9	0.72032	D	0.01	-10.0118	17.8666	0.88796	0.0:1.0:0.0:0.0	.	1596;1722	Q12830-2;Q12830-4	.;.	V	1596;1722;1722	ENSP00000307208:A1596V;ENSP00000334351:A1722V;ENSP00000315454:A1722V	ENSP00000307208:A1596V	A	+	2	0	BPTF	63339249	1.000000	0.71417	1.000000	0.80357	0.884000	0.51177	5.725000	0.68507	2.728000	0.93425	0.650000	0.86243	GCC		0.408	BPTF-201	KNOWN	basic	protein_coding	protein_coding		NM_182641, NM_004459		T	65908787	C	T	65908787	3	4	644	1	0	0	0	0	1	0	0	0	1497	739	26	2	5215	2	BPTF	17	65908787	Missense_Mutation	SNP	C	TCGA-KL-8345-01A-11D-2310-10	25945695	65908787	15286423	50	39895										
SSTR2	6752	broad.mit.edu	37	chr17	71165682	71165682	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	cctccgctatgccaagatgaAgaccatcaccaacatttaca	5	14	1	3			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr17:71165682A>G	ENST00000357585.2	+	2	593	c.224A>G	c.(223-225)aAg>aGg	p.K75R	RP11-143K11.5_ENST00000580671.1_RNA|SSTR2_ENST00000315332.2_Missense_Mutation_p.K75R	NM_001050.2	NP_001041.1	P30874	SSR2_HUMAN	somatostatin receptor 2	75					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cell-cell signaling (GO:0007267)|cellular response to estradiol stimulus (GO:0071392)|cellular response to glucocorticoid stimulus (GO:0071385)|cerebellum development (GO:0021549)|digestion (GO:0007586)|forebrain development (GO:0030900)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|negative regulation of cell proliferation (GO:0008285)|peristalsis (GO:0030432)|regulation of muscle contraction (GO:0006937)|response to nutrient (GO:0007584)|response to starvation (GO:0042594)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	PDZ domain binding (GO:0030165)|somatostatin receptor activity (GO:0004994)			endometrium(2)|large_intestine(5)|lung(2)|prostate(2)	11			LUSC - Lung squamous cell carcinoma(166;0.197)		Octreotide(DB00104)|Pasireotide(DB06663)|Vapreotide(DB04894)	GCCAAGATGAAGACCATCACC	0.488																																																0													251	202	219					17																	71165682		2203	4300	6503	SO:0001583	missense	6752				CCDS11691.1	17q24	2012-08-08				ENSG00000180616		"GPCR / Class A : Somatostatin receptors"	11331	protein-coding gene	gene with protein product		182452				8449518	Standard	NM_001050		Approved		uc002jje.3	P30874		ENST00000357585.2:c.224A>G	17.37:g.71165682A>G	ENSP00000350198:p.Lys75Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3Y0|B2R9P7|Q4VBP0|Q96GE0|Q96TF2|Q9BWH1	Missense_Mutation	SNP	ENST00000357585.2	37	CCDS11691.1	.	.	.	.	.	.	.	.	.	.	A	22.7	4.323068	0.81580	.	.	ENSG00000180616	ENST00000357585;ENST00000315332	T;T	0.33438	1.41;1.41	5.78	5.78	0.91487	GPCR, rhodopsin-like superfamily (1);	0.000000	0.85682	D	0.000000	T	0.46483	0.1395	L	0.38838	1.175	0.80722	D	1	D	0.67145	0.996	D	0.72338	0.977	T	0.42632	-0.9440	10	0.62326	D	0.03	.	15.7807	0.78257	1.0:0.0:0.0:0.0	.	75	P30874	SSR2_HUMAN	R	75	ENSP00000350198:K75R;ENSP00000326616:K75R	ENSP00000326616:K75R	K	+	2	0	SSTR2	68677277	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.335000	0.96500	2.204000	0.70986	0.528000	0.53228	AAG		0.488	SSTR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441633.1			G	71165682	A	G	71165682	3	3	644	1	0	0	0	0	1	0	0	0	15210	72	3	3	226	3	SSTR2	17	71165682	Missense_Mutation	SNP	A	TCGA-KL-8345-01A-11D-2310-10	5256895	71165682	10029528	51	39896										
CXXC1	30827	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr18	47812501	47812501	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	accctgcccggcgctgcaggTctggatcagggacaggcctc	14	15	2	0			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr18:47812501T>G	ENST00000285106.6	-	4	1064	c.350A>C	c.(349-351)gAc>gCc	p.D117A	CXXC1_ENST00000589940.1_Missense_Mutation_p.D117A|CXXC1_ENST00000412036.2_Missense_Mutation_p.D117A|CXXC1_ENST00000587396.1_5'Flank	NM_001101654.1|NM_014593.3	NP_001095124.1|NP_055408.2	Q9P0U4	CXXC1_HUMAN	CXXC finger protein 1	117				D -> N (in Ref. 1; AAF37799). {ECO:0000305}.	activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|histone H3-K4 methylation (GO:0051568)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nuclear matrix (GO:0016363)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|Set1C/COMPASS complex (GO:0048188)	unmethylated CpG binding (GO:0045322)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|endometrium(5)|kidney(1)|large_intestine(3)|lung(8)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	24						GCGCTGCAGGTCTGGATCAGG	0.662																																																0													69	79	76					18																	47812501		2203	4300	6503	SO:0001583	missense	30827			BC014940	CCDS11945.1, CCDS45866.1	18q12	2014-02-20	2014-02-20		ENSG00000154832	ENSG00000154832		"Zinc fingers, PHD-type"	24343	protein-coding gene	gene with protein product	"CpG binding protein", "DNA-binding protein with PHD finger and CXXC domain", "zinc finger, CpG binding-type containing 1"	609150	"CXXC finger 1 (PHD domain)"			10799292, 10688657	Standard	NM_014593		Approved	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1	uc002ler.4	Q9P0U4	OTTHUMG00000132670	ENST00000285106.6:c.350A>C	18.37:g.47812501T>G	ENSP00000285106:p.Asp117Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RC03|Q8N2W4|Q96BC8|Q9P2V7	Missense_Mutation	SNP	ENST00000285106.6	37	CCDS11945.1	.	.	.	.	.	.	.	.	.	.	T	1.870	-0.460559	0.04508	.	.	ENSG00000154832	ENST00000285106;ENST00000412036	T;T	0.21734	1.99;1.99	3.62	2.31	0.28768	.	0.645728	0.15896	N	0.239283	T	0.07143	0.0181	N	0.03608	-0.345	0.27244	N	0.959062	B;B;B;B	0.10296	0.003;0.0;0.001;0.0	B;B;B;B	0.04013	0.001;0.0;0.001;0.0	T	0.36601	-0.9741	10	0.10636	T	0.68	-7.7695	6.2987	0.21101	0.0:0.0:0.2571:0.7428	.	117;117;117;117	B4DGL1;B2RC03;Q9P0U4-2;Q9P0U4	.;.;.;CXXC1_HUMAN	A	117	ENSP00000285106:D117A;ENSP00000390475:D117A	ENSP00000285106:D117A	D	-	2	0	CXXC1	46066499	0.817000	0.29147	0.994000	0.49952	0.808000	0.45660	1.338000	0.33873	1.621000	0.50320	0.443000	0.29094	GAC		0.662	CXXC1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000255927.2	NM_014593		G	47812501	T	G	47812501	3	3	644	1	0	0	0	0	1	0	0	0	4099	1667	58	5	1680	5	CXXC1	18	47812501	Missense_Mutation	SNP	T	TCGA-KL-8345-01A-11D-2310-10		47812501	30264747	52	39897										
MUC16	94025	broad.mit.edu	37	chr19	9068199	9068199	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tgtccggtgacattgtgggcTtttcagtgccttggatggat	14	7	1	1			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr19:9068199T>C	ENST00000397910.4	-	3	19450	c.19247A>G	c.(19246-19248)aAg>aGg	p.K6416R		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	6418	Thr-rich.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						CATTGTGGGCTTTTCAGTGCC	0.488																																																0													197	199	198					19																	9068199		2039	4182	6221	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.19247A>G	19.37:g.9068199T>C	ENSP00000381008:p.Lys6416Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	t	4.954	0.177185	0.09443	.	.	ENSG00000181143	ENST00000397910	T	0.02552	4.25	2.15	-0.166	0.13351	.	.	.	.	.	T	0.01558	0.0050	N	0.08118	0	.	.	.	B	0.06786	0.001	B	0.04013	0.001	T	0.44174	-0.9345	8	0.87932	D	0	.	2.7232	0.05206	0.0:0.1679:0.2728:0.5592	.	6416	B5ME49	.	R	6416	ENSP00000381008:K6416R	ENSP00000381008:K6416R	K	-	2	0	MUC16	8929199	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	0.030000	0.13688	-0.106000	0.12110	0.149000	0.16113	AAG		0.488	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		C	9068199	T	C	9068199	3	2	644	1	0	0	0	0	1	0	0	0	9980	1609	56	3	24604	3	MUC16	19	9068199	Missense_Mutation	SNP	T	TCGA-KL-8345-01A-11D-2310-10		9068199	50060784	53	39898										
MAG	4099	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	35800935	35800935	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	agcgggagttcgtgtactcgGagcgcagcggcctcgtgctc	16	12	0	0			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr19:35800935G>T	ENST00000392213.3	+	8	1549	c.1390G>T	c.(1390-1392)Gag>Tag	p.E464*	MAG_ENST00000361922.4_Nonsense_Mutation_p.E464*|MAG_ENST00000537831.2_Nonsense_Mutation_p.E439*|MAG_ENST00000593348.1_3'UTR	NM_002361.3	NP_002352.1	P20916	MAG_HUMAN	myelin associated glycoprotein	464	Ig-like C2-type 4.				blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|leukocyte migration (GO:0050900)|negative regulation of axonogenesis (GO:0050771)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of axonogenesis (GO:0050770)|substantia nigra development (GO:0021762)	integral component of membrane (GO:0016021)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)|Schmidt-Lanterman incisure (GO:0043220)	carbohydrate binding (GO:0030246)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(3)|large_intestine(10)|lung(11)|skin(2)|upper_aerodigestive_tract(2)	34	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)			CGTGTACTCGGAGCGCAGCGG	0.677																																																0													66	59	61					19																	35800935		2203	4300	6503	SO:0001587	stop_gained	4099			M29273	CCDS12455.1, CCDS12456.1, CCDS56090.1	19q13.1	2013-01-29			ENSG00000105695	ENSG00000105695		"Sialic acid binding Ig-like lectins", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6783	protein-coding gene	gene with protein product	"sialic acid binding Ig-like lectin 4A"	159460		GMA		2476987, 8432525	Standard	NM_080600		Approved	SIGLEC4A, SIGLEC-4A, S-MAG	uc002nyy.2	P20916		ENST00000392213.3:c.1390G>T	19.37:g.35800935G>T	ENSP00000376048:p.Glu464*	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2E5|F5GYC0|Q567S4	Nonsense_Mutation	SNP	ENST00000392213.3	37	CCDS12455.1	.	.	.	.	.	.	.	.	.	.	G	38	7.158199	0.98103	.	.	ENSG00000105695	ENST00000262624;ENST00000361922;ENST00000392213;ENST00000537831	.	.	.	4.8	4.8	0.61643	.	0.111838	0.64402	D	0.000010	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.06494	T	0.89	.	11.1222	0.48298	0.0:0.1867:0.8133:0.0	.	.	.	.	X	501;464;464;439	.	ENSP00000262624:E501X	E	+	1	0	MAG	40492775	0.973000	0.33851	0.993000	0.49108	0.982000	0.71751	1.922000	0.40045	2.497000	0.84241	0.462000	0.41574	GAG		0.677	MAG-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000466071.1	NM_080600		T	35800935	G	T	35800935	4	4	644	1	0	0	0	0	0	1	0	0	9169	1175	41	4	1412	4	MAG	19	35800935	Nonsense_Mutation	SNP	G	TCGA-KL-8345-01A-11D-2310-10	26732736	35800935	23328048	54	39899										
DSCAM	1826	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr21	41514495	41514495	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	gtcctcttacctccgtccatGaggttggcccagtaaatgac	9	13	1	2			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr21:41514495G>A	ENST00000400454.1	-	18	3873	c.3396C>T	c.(3394-3396)ctC>ctT	p.L1132L		NM_001271534.1|NM_001389.3	NP_001258463.1|NP_001380.2	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule	1132	Fibronectin type-III 3. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell adhesion (GO:0007155)|dendrite morphogenesis (GO:0048813)|dendrite self-avoidance (GO:0070593)|locomotory behavior (GO:0007626)|negative regulation of cell adhesion (GO:0007162)|nervous system development (GO:0007399)|positive regulation of axon extension involved in axon guidance (GO:0048842)|positive regulation of phosphorylation (GO:0042327)|post-embryonic retina morphogenesis in camera-type eye (GO:0060060)	axon (GO:0030424)|extracellular region (GO:0005576)|growth cone (GO:0030426)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)		p.L1132L(1)		NS(2)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(22)|haematopoietic_and_lymphoid_tissue(4)|kidney(6)|large_intestine(22)|lung(47)|ovary(7)|pancreas(2)|prostate(3)|skin(14)|upper_aerodigestive_tract(6)|urinary_tract(4)	142		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CTCCGTCCATGAGGTTGGCCC	0.478																																					Melanoma(134;970 1778 1785 21664 32388)											1	Substitution - coding silent(1)	lung(1)											113	106	108					21																	41514495		1881	4103	5984	SO:0001819	synonymous_variant	1826			AF023449	CCDS42929.1	21q22.2-q22.3	2013-02-11			ENSG00000171587	ENSG00000171587		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	3039	protein-coding gene	gene with protein product		602523				9426258	Standard	NM_001271534		Approved	CHD2-42, CHD2-52	uc002yyq.1	O60469	OTTHUMG00000086732	ENST00000400454.1:c.3396C>T	21.37:g.41514495G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60468	Silent	SNP	ENST00000400454.1	37	CCDS42929.1																																																																																				0.478	DSCAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195029.1	NM_001389		A	41514495	G	A	41514495	2	1	644	1	0	0	0	0	0	0	0	1	4770	1277	45	2		2	DSCAM	21	41514495	Silent	SNP	G	TCGA-KL-8345-01A-11D-2310-10		41514495	6615400	55	39900										
GAB4	128954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	17443634	17443634	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tggcccgagtcacagcttggCgcccctgggaggctctgagg	16	13	2	1	rs373667129		TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr22:17443634C>T	ENST00000400588.1	-	10	1821	c.1714G>A	c.(1714-1716)Gcc>Acc	p.A572T		NM_001037814.1	NP_001032903.1	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member 4	572										breast(2)|endometrium(2)|kidney(2)|large_intestine(6)|lung(24)|ovary(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	44		all_epithelial(15;0.112)|Lung NSC(13;0.248)				CACAGCTTGGCGCCCCTGGGA	0.597																																																0								C	THR/ALA	0,4378		0,0,2189	43	49	47		1714	1.4	0.3	22		47	1,8591	1.2+/-3.3	0,1,4295	no	missense	GAB4	NM_001037814.1	58	0,1,6484	TT,TC,CC		0.0116,0.0,0.0077	benign	572/575	17443634	1,12969	2189	4296	6485	SO:0001583	missense	128954			AK057252	CCDS42976.1	22q11.2	2013-01-10			ENSG00000215568	ENSG00000215568		"Pleckstrin homology (PH) domain containing"	18325	protein-coding gene	gene with protein product							Standard	NM_001037814		Approved		uc002zlw.3	Q2WGN9	OTTHUMG00000149992	ENST00000400588.1:c.1714G>A	22.37:g.17443634C>T	ENSP00000383431:p.Ala572Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000400588.1	37	CCDS42976.1	.	.	.	.	.	.	.	.	.	.	C	14.25	2.478810	0.44044	0.0	1.16E-4	ENSG00000215568	ENST00000400588	T	0.24908	1.83	2.46	1.38	0.22167	.	0.295957	0.37715	N	0.001974	T	0.10337	0.0253	N	0.16903	0.455	0.22354	N	0.999175	B	0.30709	0.291	B	0.15484	0.013	T	0.14392	-1.0474	10	0.38643	T	0.18	.	2.9911	0.05983	0.2728:0.5738:0.0:0.1533	.	572	Q2WGN9	GAB4_HUMAN	T	572	ENSP00000383431:A572T	ENSP00000383431:A572T	A	-	1	0	GAB4	15823634	0.341000	0.24801	0.270000	0.24601	0.000000	0.00434	0.794000	0.26958	0.552000	0.29026	-0.399000	0.06403	GCC		0.597	GAB4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000315426.1	XM_372882		T	17443634	C	T	17443634	3	4	644	1	0	0	0	0	1	0	0	0	6158	768	27	1	14	1	GAB4	22	17443634	Missense_Mutation	SNP	C	TCGA-KL-8345-01A-11D-2310-10		17443634	33860932	56	39901										
ARVCF	421	ucsc.edu	37	chr22	19967489	19967489	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tgccgtacacgccgcttgacAccctcgttctcaaagcacag	8	16	1	1			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr22:19967489A>G	ENST00000263207.3	-	6	1464	c.1173T>C	c.(1171-1173)ggT>ggC	p.G391G	ARVCF_ENST00000406522.1_Silent_p.G328G|ARVCF_ENST00000406259.1_Silent_p.G391G|ARVCF_ENST00000344269.3_Silent_p.G328G|ARVCF_ENST00000487793.1_5'Flank|ARVCF_ENST00000401994.1_Silent_p.G328G	NM_001670.2	NP_001661.1	O00192	ARVC_HUMAN	armadillo repeat gene deleted in velocardiofacial syndrome	391					calcium-dependent cell-cell adhesion (GO:0016339)|cell adhesion (GO:0007155)|multicellular organismal development (GO:0007275)|single organismal cell-cell adhesion (GO:0016337)	cytoplasm (GO:0005737)|intracellular (GO:0005622)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				NS(1)|cervix(1)|endometrium(3)|liver(1)|lung(4)|prostate(1)|urinary_tract(2)	13	Colorectal(54;0.0993)					GCCGCTTGACACCCTCGTTCT	0.697																																																0													19	18	18					22																	19967489		2185	4281	6466	SO:0001819	synonymous_variant	421				CCDS13771.1	22q11.21	2013-02-14	2010-04-28		ENSG00000099889	ENSG00000099889		"Armadillo repeat containing"	728	protein-coding gene	gene with protein product		602269				9126485, 15456900	Standard	NM_001670		Approved		uc002zqz.3	O00192	OTTHUMG00000030426	ENST00000263207.3:c.1173T>C	22.37:g.19967489A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7WNV2	Silent	SNP	ENST00000263207.3	37	CCDS13771.1																																																																																				0.697	ARVCF-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000075314.5	NM_001670		G	19967489	A	G	19967489	2	3	644	1	0	0	0	0	0	0	0	1	1003	146	6	3		3	ARVCF	22	19967489	Silent	SNP	A	TCGA-KL-8345-01A-11D-2310-10	2523855	19967489	31337077	57	39902										
CSF2RB	1439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	37333576	37333576	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	cccagccaggcccgcctgccGcctcccacacacctgagaaa	8	21	0	1			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr22:37333576G>A	ENST00000403662.3	+	14	1948	c.1726G>A	c.(1726-1728)Gcc>Acc	p.A576T	CSF2RB_ENST00000536485.1_Missense_Mutation_p.A523T|CSF2RB_ENST00000262825.5_Missense_Mutation_p.A582T|CSF2RB_ENST00000406230.1_Missense_Mutation_p.A582T			P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta, low-affinity (granulocyte-macrophage)	576					cellular response to interleukin-3 (GO:0036016)|interleukin-3-mediated signaling pathway (GO:0038156)|interleukin-5-mediated signaling pathway (GO:0038043)|respiratory gaseous exchange (GO:0007585)|response to lipopolysaccharide (GO:0032496)|signal transduction (GO:0007165)	granulocyte macrophage colony-stimulating factor receptor complex (GO:0030526)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cytokine receptor activity (GO:0004896)|receptor activity (GO:0004872)			breast(2)|endometrium(2)|kidney(1)|large_intestine(8)|lung(18)|ovary(3)|pancreas(1)|skin(5)|upper_aerodigestive_tract(2)	42					Sargramostim(DB00020)	CCCGCCTGCCGCCTCCCACAC	0.652																																																0													20	23	22					22																	37333576		2202	4298	6500	SO:0001583	missense	1439			M59941	CCDS13936.1	22q12.3	2014-09-09			ENSG00000100368	ENSG00000100368		"CD molecules", "Fibronectin type III domain containing"	2436	protein-coding gene	gene with protein product		138981		IL3RB		1833064, 1424804	Standard	NM_000395		Approved	IL5RB, CD131	uc003aqa.4	P32927	OTTHUMG00000150546	ENST00000403662.3:c.1726G>A	22.37:g.37333576G>A	ENSP00000384053:p.Ala576Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JZI1|Q6ICE0	Missense_Mutation	SNP	ENST00000403662.3	37	CCDS13936.1	.	.	.	.	.	.	.	.	.	.	G	2.785	-0.252666	0.05829	.	.	ENSG00000100368	ENST00000403662;ENST00000539104;ENST00000262825;ENST00000406230;ENST00000536485	D;D;D;D	0.91180	-2.29;-2.8;-2.8;-2.8	5.36	-0.629	0.11533	.	1.749050	0.03156	N	0.168694	T	0.80934	0.4719	N	0.22421	0.69	0.09310	N	1	B;B	0.12630	0.001;0.006	B;B	0.06405	0.002;0.001	T	0.65833	-0.6072	10	0.09843	T	0.71	.	3.4684	0.07558	0.1302:0.492:0.227:0.1508	.	582;576	P32927-2;P32927	.;IL3RB_HUMAN	T	576;576;582;582;523	ENSP00000384053:A576T;ENSP00000262825:A582T;ENSP00000385271:A582T;ENSP00000440003:A523T	ENSP00000262825:A582T	A	+	1	0	CSF2RB	35663522	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.521000	0.06245	-0.555000	0.06142	-2.506000	0.00189	GCC		0.652	CSF2RB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318854.1	NM_000395		A	37333576	G	A	37333576	3	1	644	1	0	0	0	0	1	0	0	0	3937	1087	38	1	1776	1	CSF2RB	22	37333576	Missense_Mutation	SNP	G	TCGA-KL-8345-01A-11D-2310-10	17366087	37333576	13970990	58	39903										
CELSR1	9620	broad.mit.edu;mdanderson.org	37	chr22	46763729	46763729	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	cgctgatgagcagcagcaggAggaatgcggtcctcagcagg	16	10	1	2			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chr22:46763729A>G	ENST00000262738.3	-	28	7975	c.7976T>C	c.(7975-7977)cTc>cCc	p.L2659P		NM_014246.1	NP_055061.1	Q9NYQ6	CELR1_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 1	2659	Poly-Leu.				anterior/posterior pattern specification (GO:0009952)|apical protein localization (GO:0045176)|central nervous system development (GO:0007417)|establishment of body hair planar orientation (GO:0048105)|establishment of planar polarity (GO:0001736)|establishment of planar polarity of embryonic epithelium (GO:0042249)|G-protein coupled receptor signaling pathway (GO:0007186)|hair follicle development (GO:0001942)|homophilic cell adhesion (GO:0007156)|inner ear morphogenesis (GO:0042472)|lateral sprouting involved in lung morphogenesis (GO:0060490)|locomotory behavior (GO:0007626)|neural tube closure (GO:0001843)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|orthogonal dichotomous subdivision of terminal units involved in lung branching morphogenesis (GO:0060488)|planar cell polarity pathway involved in neural tube closure (GO:0090179)|planar dichotomous subdivision of terminal units involved in lung branching morphogenesis (GO:0060489)|protein localization involved in establishment of planar polarity (GO:0090251)|regulation of actin cytoskeleton organization (GO:0032956)|Rho protein signal transduction (GO:0007266)|wound healing (GO:0042060)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)|protein dimerization activity (GO:0046983)|transmembrane signaling receptor activity (GO:0004888)			breast(8)|central_nervous_system(5)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(5)|kidney(4)|large_intestine(13)|lung(27)|ovary(2)|pancreas(2)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(3)	95		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)		CAGCAGCAGGAGGAATGCGGT	0.642											OREG0026655	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													37	33	35					22																	46763729		2199	4299	6498	SO:0001583	missense	9620			AF231024	CCDS14076.1	22q13.31	2014-08-08	2013-02-18		ENSG00000075275	ENSG00000075275		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	1850	protein-coding gene	gene with protein product	"flamingo homolog 2 (Drosophila)"	604523	"cadherin, EGF LAG seven-pass G-type receptor 1, flamingo (Drosophila) homolog"			9339365	Standard	XM_006724383		Approved	ME2, HFMI2, FMI2, CDHF9	uc003bhw.1	Q9NYQ6	OTTHUMG00000150423	ENST00000262738.3:c.7976T>C	22.37:g.46763729A>G	ENSP00000262738:p.Leu2659Pro	Somatic	941	WXS	Illumina HiSeq	Phase_I	O95722|Q5TH47|Q9BWQ5|Q9Y506|Q9Y526	Missense_Mutation	SNP	ENST00000262738.3	37	CCDS14076.1	.	.	.	.	.	.	.	.	.	.	a	24.5	4.535840	0.85812	.	.	ENSG00000075275	ENST00000262738	T	0.37915	1.17	4.76	4.76	0.60689	GPCR, family 2-like (1);	0.103749	0.39834	U	0.001258	T	0.61999	0.2392	M	0.83953	2.67	0.80722	D	1	D	0.76494	0.999	D	0.73708	0.981	T	0.68164	-0.5481	10	0.62326	D	0.03	.	13.9897	0.64357	1.0:0.0:0.0:0.0	.	2659	Q9NYQ6	CELR1_HUMAN	P	2659	ENSP00000262738:L2659P	ENSP00000262738:L2659P	L	-	2	0	CELSR1	45142393	1.000000	0.71417	0.993000	0.49108	0.987000	0.75469	6.859000	0.75467	1.778000	0.52293	0.463000	0.42550	CTC		0.642	CELSR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318037.1	NM_014246		G	46763729	A	G	46763729	3	3	644	1	0	0	0	0	1	0	0	0	3223	304	11	3	1100	3	CELSR1	22	46763729	Missense_Mutation	SNP	A	TCGA-KL-8345-01A-11D-2310-10	9430153	46763729	4540837	59	39904										
SH3KBP1	30011	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chrX	19854348	19854348	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	atgatttcacccacgctgatCgtcagctcatcatcgtgctg	8	13	4	2			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chrX:19854348C>T	ENST00000397821.3	-	2	347	c.57G>A	c.(55-57)acG>acA	p.T19T	SH3KBP1_ENST00000379697.3_Silent_p.T19T	NM_031892.2	NP_114098.1	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1	19	SH3 1. {ECO:0000255|PROSITE- ProRule:PRU00192}.				apoptotic process (GO:0006915)|cell migration (GO:0016477)|cell-cell signaling (GO:0007267)|cytoskeleton organization (GO:0007010)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|regulation of cell shape (GO:0008360)	cell-cell junction (GO:0005911)|cytoplasmic vesicle (GO:0031410)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)|synapse (GO:0045202)				breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(8)|lung(8)|skin(4)	29						CCACGCTGATCGTCAGCTCAT	0.512																																																0													201	155	171					X																	19854348		2203	4300	6503	SO:0001819	synonymous_variant	30011			AF230904	CCDS14193.1, CCDS35213.1, CCDS55383.1	Xp22.1-p21.3	2008-02-05			ENSG00000147010	ENSG00000147010			13867	protein-coding gene	gene with protein product		300374				8889549, 7566098	Standard	NM_031892		Approved	CIN85	uc004czm.3	Q96B97	OTTHUMG00000021227	ENST00000397821.3:c.57G>A	X.37:g.19854348C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z1D5|Q5JPT4|Q5JPT5|Q8IWX6|Q8IX98|Q96RN4|Q9NYR0	Silent	SNP	ENST00000397821.3	37	CCDS14193.1																																																																																				0.512	SH3KBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055992.1	NM_031892		T	19854348	C	T	19854348	2	4	644	1	0	0	0	0	0	0	0	1	14268	871	31	1		1	SH3KBP1	23	19854348	Silent	SNP	C	TCGA-KL-8345-01A-11D-2310-10		19854348	135416212	60	39905										
KDM5C	8242	broad.mit.edu;mdanderson.org	37	chrX	53239928	53239928	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	aaaggctgagaagaccatgcCcacgtagagccagggcacct	12	12	0	3			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chrX:53239928C>T	ENST00000375401.3	-	11	2045	c.1513G>A	c.(1513-1515)Ggc>Agc	p.G505S	KDM5C_ENST00000404049.3_Missense_Mutation_p.G504S|KDM5C_ENST00000452825.3_Missense_Mutation_p.G438S|KDM5C_ENST00000375379.3_Missense_Mutation_p.G505S|KDM5C_ENST00000465402.1_5'Flank|KDM5C-IT1_ENST00000412242.1_RNA|KDM5C_ENST00000375383.3_Missense_Mutation_p.G464S	NM_001282622.1|NM_004187.3	NP_001269551.1|NP_004178.2	P41229	KDM5C_HUMAN	lysine (K)-specific demethylase 5C	505	JmjC. {ECO:0000255|PROSITE- ProRule:PRU00538}.				histone H3-K4 demethylation (GO:0034720)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone demethylase activity (H3-K4 specific) (GO:0032453)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(4)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(30)|large_intestine(9)|lung(17)|oesophagus(1)|ovary(6)|prostate(1)|salivary_gland(1)|skin(1)|upper_aerodigestive_tract(2)	82						AAGACCATGCCCACGTAGAGC	0.522			"N, F, S"		clear cell renal carcinoma																																		Rec	yes		X	Xp11.22-p11.21	8242	lysine (K)-specific demethylase 5C (JARID1C)		E	0													167	110	129					X																	53239928		2203	4300	6503	SO:0001583	missense	8242			Z29650	CCDS14351.1, CCDS55417.1, CCDS65269.1	Xp11.22-p11.21	2014-01-31	2009-04-06	2009-04-06	ENSG00000126012	ENSG00000126012		"Chromatin-modifying enzymes / K-demethylases", "Zinc fingers, PHD-type"	11114	protein-coding gene	gene with protein product		314690	"Jumonji, AT rich interactive domain 1C (RBP2-like)", "Smcy homolog, X-linked (mouse)", "jumonji, AT rich interactive domain 1C", "mental retardation, X-linked 13"	SMCX, JARID1C, MRX13		7951230, 8162017, 19826449	Standard	NM_004187		Approved	DXS1272E, XE169	uc004drz.3	P41229	OTTHUMG00000021606	ENST00000375401.3:c.1513G>A	X.37:g.53239928C>T	ENSP00000364550:p.Gly505Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B0QZ44|B4E3I2|F5H3T1|Q5JUX3|Q5JUX4|Q5JUX5|Q7Z5S5	Missense_Mutation	SNP	ENST00000375401.3	37	CCDS14351.1	.	.	.	.	.	.	.	.	.	.	C	26.9	4.778962	0.90195	.	.	ENSG00000126012	ENST00000452825;ENST00000375401;ENST00000404049;ENST00000375379;ENST00000375383	T;T;T;T;T	0.76060	-0.99;-0.99;-0.99;-0.99;-0.99	5.42	5.42	0.78866	Transcription factor jumonji/aspartyl beta-hydroxylase (2);Transcription factor jumonji (1);	0.000000	0.85682	D	0.000000	D	0.89873	0.6841	H	0.94183	3.505	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.92637	0.6121	10	0.87932	D	0	-17.5819	15.4991	0.75680	0.0:1.0:0.0:0.0	.	438;504;505	F5H3T1;B0QZ44;P41229	.;.;KDM5C_HUMAN	S	438;505;504;505;464	ENSP00000445176:G438S;ENSP00000364550:G505S;ENSP00000385394:G504S;ENSP00000364528:G505S;ENSP00000364532:G464S	ENSP00000364528:G505S	G	-	1	0	KDM5C	53256653	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.784000	0.85713	2.252000	0.74401	0.600000	0.82982	GGC		0.522	KDM5C-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000056737.2	NM_004187		T	53239928	C	T	53239928	3	4	644	1	0	0	0	0	1	0	0	0	8142	623	22	2	3331	2	KDM5C	23	53239928	Missense_Mutation	SNP	C	TCGA-KL-8345-01A-11D-2310-10	33385580	53239928	102030632	61	39906										
TAF1	6872	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	70627428	70627428	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	tcacatttctccttagagacCtcataagtccatccaccggc	5	15	3	1			TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chrX:70627428C>T	ENST00000373790.4	+	27	4160	c.4109C>T	c.(4108-4110)cCt>cTt	p.P1370L	TAF1_ENST00000449580.1_Missense_Mutation_p.P1370L|TAF1_ENST00000423759.1_Missense_Mutation_p.P1391L|TAF1_ENST00000276072.3_Missense_Mutation_p.P1391L	NM_004606.3|NM_138923.2	NP_004597.2|NP_620278.1	P21675	TAF1_HUMAN	TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa	1370	Interaction with ASF1A and ASF1B.				cellular response to DNA damage stimulus (GO:0006974)|DNA-templated transcription, initiation (GO:0006352)|gene expression (GO:0010467)|histone acetylation (GO:0016573)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription initiation from RNA polymerase II promoter (GO:0060261)|protein autophosphorylation (GO:0046777)|regulation of transcription involved in G2/M transition of mitotic cell cycle (GO:0000117)|RNA polymerase II transcriptional preinitiation complex assembly (GO:0051123)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	MLL1 complex (GO:0071339)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor TFIID complex (GO:0005669)	ATP binding (GO:0005524)|histone acetyltransferase activity (GO:0004402)|lysine-acetylated histone binding (GO:0070577)|p53 binding (GO:0002039)|protein serine/threonine kinase activity (GO:0004674)|sequence-specific DNA binding (GO:0043565)|TBP-class protein binding (GO:0017025)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)			breast(13)|central_nervous_system(6)|cervix(1)|endometrium(25)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(16)|lung(34)|ovary(9)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(3)	124	Renal(35;0.156)	all_lung(315;0.000321)				CCTTAGAGACCTCATAAGTCC	0.468																																																0													85	77	80					X																	70627428		2203	4300	6503	SO:0001583	missense	6872				CCDS14412.1, CCDS35325.1, CCDS69783.1	Xq13.1	2011-07-01	2002-08-29	2001-12-07	ENSG00000147133	ENSG00000147133		"Chromatin-modifying enzymes / K-acetyltransferases"	11535	protein-coding gene	gene with protein product		313650	"TATA box binding protein (TBP)-associated factor, RNA polymerase II, A, 250kD", "dystonia 3 (with Parkinsonism)"	TAF2A, BA2R, CCG1, CCGS, DYT3		3556424, 12928496, 17952504	Standard	XM_005262295		Approved	NSCL2, TAFII250, KAT4, DYT3/TAF1	uc004dzt.4	P21675	OTTHUMG00000022723	ENST00000373790.4:c.4109C>T	X.37:g.70627428C>T	ENSP00000362895:p.Pro1370Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A5CVC8|A5CVC9|A5CVD0|A5CVD1|B1Q2X3|Q59FZ3|Q6IUZ1|Q70Q86|Q70Q87|Q70T00|Q70T01|Q70T02|Q70T03	Missense_Mutation	SNP	ENST00000373790.4	37	CCDS35325.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	20.6|20.6	4.021085|4.021085	0.75275|0.75275	.|.	.|.	ENSG00000147133|ENSG00000147133	ENST00000463163;ENST00000437147|ENST00000373790;ENST00000449580;ENST00000423759;ENST00000395779;ENST00000538124;ENST00000276072	.|T;T;T;T	.|0.19532	.|2.14;2.14;2.14;2.14	4.95|4.95	4.95|4.95	0.65309|0.65309	.|Bromodomain (1);	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.20007|0.20007	0.0481|0.0481	L|L	0.61218|0.61218	1.895|1.895	0.80722|0.80722	D|D	1|1	.|B;P;B	.|0.45715	.|0.002;0.865;0.007	.|B;B;B	.|0.34722	.|0.002;0.188;0.008	T|T	0.12682|0.12682	-1.0538|-1.0538	5|10	.|0.11485	.|T	.|0.65	.|.	17.4533|17.4533	0.87599|0.87599	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|1370;1370;1391	.|P21675-4;P21675;P21675-2	.|.;TAF1_HUMAN;.	F|L	36;25|1370;1370;1391;76;76;1391	.|ENSP00000362895:P1370L;ENSP00000389000:P1370L;ENSP00000406549:P1391L;ENSP00000276072:P1391L	.|ENSP00000276072:P1391L	L|P	+|+	1|2	0|0	TAF1|TAF1	70544153|70544153	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.750000|0.750000	0.42670|0.42670	7.317000|7.317000	0.79018|0.79018	2.305000|2.305000	0.77605|0.77605	0.462000|0.462000	0.41574|0.41574	CTC|CCT		0.468	TAF1-009	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000058995.2	NM_004606		T	70627428	C	T	70627428	3	4	644	1	0	0	0	0	1	0	0	0	15525	681	24	2	4278	2	TAF1	23	70627428	Missense_Mutation	SNP	C	TCGA-KL-8345-01A-11D-2310-10	17387500	70627428	84643132	62	39907										
SLITRK2	84631	broad.mit.edu	37	chrX	144906354	144906354	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	4	1	1.30909090909091	0	1.36859504132231	0.0285714285714286	0.717346938775511	0	aatcaataaaaccgttttatAtggaactcccaggaaatgct	6	8	1	0	rs369952590		TCGA-KL-8345-01A-11D-2310-10	TCGA-KL-8345-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e75d4ed6-f99b-480f-b14b-66803de8151d	ba203c68-18a0-47ab-953c-39e98349d141	g.chrX:144906354A>G	ENST00000370490.1	+	1	6666	c.2411A>G	c.(2410-2412)tAt>tGt	p.Y804C	SLITRK2_ENST00000447897.2_Missense_Mutation_p.Y804C|TMEM257_ENST00000408967.2_5'Flank|SLITRK2_ENST00000413937.2_Missense_Mutation_p.Y804C|SLITRK2_ENST00000434188.2_Missense_Mutation_p.Y804C|SLITRK2_ENST00000428560.2_Missense_Mutation_p.Y804C			Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2	804					axonogenesis (GO:0007409)	integral component of membrane (GO:0016021)				NS(1)|breast(3)|central_nervous_system(1)|endometrium(9)|kidney(1)|large_intestine(17)|lung(40)|ovary(5)|pancreas(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	86	Acute lymphoblastic leukemia(192;6.56e-05)					ACCGTTTTATATGGAACTCCC	0.448																																																0								A	CYS/TYR,CYS/TYR,CYS/TYR,CYS/TYR,CYS/TYR,CYS/TYR,CYS/TYR,CYS/TYR	0,3835		0,0,0,1632,571	103	101	102		2411,2411,2411,2411,2411,2411,2411,2411	5.4	1	X		102	1,6727		0,0,1,2428,1871	no	missense,missense,missense,missense,missense,missense,missense,missense	SLITRK2	NM_001144003.2,NM_001144004.2,NM_001144005.2,NM_001144006.2,NM_001144008.2,NM_001144009.2,NM_001144010.2,NM_032539.4	194,194,194,194,194,194,194,194	0,0,1,4060,2442	GG,GA,G,AA,A		0.0149,0.0,0.0095	probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging	804/846,804/846,804/846,804/846,804/846,804/846,804/846,804/846	144906354	1,10562	2203	4300	6503	SO:0001583	missense	84631			Y19205	CCDS14680.1	Xq27.3	2008-02-05	2004-03-11		ENSG00000185985	ENSG00000185985			13449	protein-coding gene	gene with protein product		300561	"slit-like 1 (Drosophila)"	SLITL1		11347906, 14557068	Standard	NM_032539		Approved	KIAA1854, CXorf2	uc011mwr.2	Q9H156	OTTHUMG00000022595	ENST00000370490.1:c.2411A>G	X.37:g.144906354A>G	ENSP00000359521:p.Tyr804Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K117|Q2KHN3|Q5JXB1|Q8NBC7|Q96JH3	Missense_Mutation	SNP	ENST00000370490.1	37	CCDS14680.1	.	.	.	.	.	.	.	.	.	.	A	16.67	3.187848	0.57909	0.0	1.49E-4	ENSG00000185985	ENST00000447897;ENST00000370490;ENST00000434188;ENST00000413937;ENST00000428560	T;T;T;T;T	0.60040	0.22;0.22;0.22;0.22;0.22	5.38	5.38	0.77491	.	0.000000	0.85682	D	0.000000	T	0.72120	0.3421	M	0.61703	1.905	0.58432	D	0.999999	D	0.89917	1.0	D	0.91635	0.999	T	0.74746	-0.3561	10	0.66056	D	0.02	-6.9413	12.2755	0.54733	1.0:0.0:0.0:0.0	.	804	Q9H156	SLIK2_HUMAN	C	804	ENSP00000411681:Y804C;ENSP00000359521:Y804C;ENSP00000397015:Y804C;ENSP00000407347:Y804C;ENSP00000412010:Y804C	ENSP00000359521:Y804C	Y	+	2	0	SLITRK2	144714046	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.027000	0.76463	1.803000	0.52742	0.486000	0.48141	TAT		0.448	SLITRK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058633.1	NM_032539		G	144906354	A	G	144906354	3	3	644	1	0	0	0	0	1	0	0	0	14756	449	16	3	2413	3	SLITRK2	23	144906354	Missense_Mutation	SNP	A	TCGA-KL-8345-01A-11D-2310-10	74278926	144906354	10364206	63	39908										
PRAMEF2	65122	mdanderson.org	37	chr1	12921594	12921594	+	Nonsense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	cccctgcccttcctgtggctCatcaccgtctgaggaactgg	10	16	3	1	rs201429745	byFrequency	TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr1:12921594C>G	ENST00000240189.2	+	4	1472	c.1385C>G	c.(1384-1386)tCa>tGa	p.S462*		NM_023014.1	NP_075390.1	O60811	PRAM2_HUMAN	PRAME family member 2	462					negative regulation of apoptotic process (GO:0043066)|negative regulation of cell differentiation (GO:0045596)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)					breast(2)|endometrium(1)|kidney(2)|large_intestine(2)|lung(22)|prostate(6)|skin(3)|upper_aerodigestive_tract(4)	42	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TCCTGTGGCTCATCACCGTCT	0.557																																																0													28	34	32					1																	12921594		2001	4117	6118	SO:0001587	stop_gained	65122				CCDS149.1	1p36.21	2013-01-17			ENSG00000120952	ENSG00000120952		"-"	28841	protein-coding gene	gene with protein product							Standard	NM_023014		Approved	FLJ43580	uc001aum.1	O60811	OTTHUMG00000001986	ENST00000240189.2:c.1385C>G	1.37:g.12921594C>G	ENSP00000240189:p.Ser462*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000240189.2	37	CCDS149.1	.	.	.	.	.	.	.	.	.	.	C	13.55	2.271531	0.40194	.	.	ENSG00000120952	ENST00000240189	.	.	.	0.741	0.741	0.18336	.	18.936500	0.00166	N	0.000000	.	.	.	.	.	.	0.20196	N	0.999925	.	.	.	.	.	.	.	.	.	.	0.48119	T	0.1	.	4.7974	0.13279	0.0:1.0:0.0:0.0	.	.	.	.	X	462	.	ENSP00000240189:S462X	S	+	2	0	PRAMEF2	12844181	0.000000	0.05858	0.057000	0.19452	0.044000	0.14063	-2.662000	0.00850	0.683000	0.31428	0.173000	0.16961	TCA		0.557	PRAMEF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005517.1	NM_023014		G	12921594	C	G	12921594	4	3	645	1	0	0	0	0	0	1	0	0	12445	838	29	4	1395	4	PRAMEF2	1	12921594	Nonsense_Mutation	SNP	C	TCGA-KL-8346-01A-11D-2310-10		12921594	236329027	1	39909										
FAM131C	348487	mdanderson.org	37	chr1	16384986	16384986	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gagccgctgtccatggagggGagggagcccggggggtgggt	23	8	0	0	rs28496958	byFrequency	TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr1:16384986G>T	ENST00000375662.4	-	7	972	c.789C>A	c.(787-789)ctC>ctA	p.L263L	FAM131C_ENST00000494078.1_5'UTR	NM_182623.2	NP_872429.2	Q96AQ9	F131C_HUMAN	family with sequence similarity 131, member C	263	Pro-rich.									large_intestine(2)|lung(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	8		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;8.32e-08)|COAD - Colon adenocarcinoma(227;5.56e-06)|BRCA - Breast invasive adenocarcinoma(304;9.12e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00656)|READ - Rectum adenocarcinoma(331;0.0649)		CCATGGAGGGGAGGGAGCCCG	0.711																																																0													2	2	2					1																	16384986		1272	2832	4104	SO:0001819	synonymous_variant	348487				CCDS41270.1	1p36.13	2008-02-05	2007-03-20	2007-03-20	ENSG00000185519	ENSG00000185519			26717	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 117"	C1orf117		12477932	Standard	NM_182623		Approved	FLJ36766	uc001axz.4	Q96AQ9	OTTHUMG00000009525	ENST00000375662.4:c.789C>A	1.37:g.16384986G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T5Q5|Q8N3X3|Q8N9P9	Silent	SNP	ENST00000375662.4	37	CCDS41270.1																																																																																				0.711	FAM131C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026319.1	NM_182623		T	16384986	G	T	16384986	2	4	645	1	0	0	0	0	0	0	0	1	5445	1161	41	4		4	FAM131C	1	16384986	Silent	SNP	G	TCGA-KL-8346-01A-11D-2310-10	3463392	16384986	232865635	2	39910										
NR0B2	8431	ucsc.edu	37	chr1	27240351	27240351	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	cgggggacagccttgaggctGgagctcagaagtgcgtagag	18	8	1	3			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr1:27240351G>A	ENST00000254227.3	-	1	106	c.81C>T	c.(79-81)tcC>tcT	p.S27S		NM_021969.2	NP_068804.1	Q15466	NR0B2_HUMAN	nuclear receptor subfamily 0, group B, member 2	27					cholesterol metabolic process (GO:0008203)|gene expression (GO:0010467)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|organ regeneration (GO:0031100)|positive regulation of insulin secretion (GO:0032024)|response to glucose (GO:0009749)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|protein complex (GO:0043234)	DNA binding (GO:0003677)|protein domain specific binding (GO:0019904)|protein homodimerization activity (GO:0042803)|sequence-specific DNA binding transcription factor activity (GO:0003700)|steroid hormone receptor activity (GO:0003707)|transcription corepressor activity (GO:0003714)			NS(1)|large_intestine(1)|lung(3)	5		all_cancers(24;1.23e-26)|all_epithelial(13;1.19e-23)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Breast(348;0.00017)|Renal(390;0.0007)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.01e-51)|OV - Ovarian serous cystadenocarcinoma(117;8.22e-30)|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)		CCTTGAGGCTGGAGCTCAGAA	0.657																																																0													43	44	44					1																	27240351		2203	4300	6503	SO:0001819	synonymous_variant	8431			AF044316	CCDS291.1	1p36.1	2013-01-16			ENSG00000131910	ENSG00000131910		"Nuclear hormone receptors"	7961	protein-coding gene	gene with protein product		604630				9603951	Standard	NM_021969		Approved	SHP	uc001bnf.3	Q15466	OTTHUMG00000004231	ENST00000254227.3:c.81C>T	1.37:g.27240351G>A		Somatic		WXS	Illumina HiSeq	Phase_I	F1D8P5|Q5QP36	Silent	SNP	ENST00000254227.3	37	CCDS291.1																																																																																				0.657	NR0B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012185.1			A	27240351	G	A	27240351	2	1	645	1	0	0	0	0	0	0	0	1	10621	1335	47	2		2	NR0B2	1	27240351	Silent	SNP	G	TCGA-KL-8346-01A-11D-2310-10	10855365	27240351	222010270	3	39911										
COL16A1	1307	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	32148832	32148832	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	cagtggggccaggtggtcccCgaggtcccggaagtccctgc	16	14	0	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr1:32148832C>T	ENST00000373672.3	-	36	2948	c.2432G>A	c.(2431-2433)cGg>cAg	p.R811Q	COL16A1_ENST00000271069.6_Missense_Mutation_p.R810Q|COL16A1_ENST00000373668.3_Missense_Mutation_p.R811Q	NM_001856.3	NP_001847.3	Q07092	COGA1_HUMAN	collagen, type XVI, alpha 1	811	Collagen-like 4.|Triple-helical region 5 (COL5) with 3 imperfections.				cell adhesion (GO:0007155)|cellular response to amino acid stimulus (GO:0071230)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|female pregnancy (GO:0007565)|integrin-mediated signaling pathway (GO:0007229)	collagen type XVI trimer (GO:0005597)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	integrin binding (GO:0005178)			breast(4)|central_nervous_system(2)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(7)|lung(15)|ovary(8)|prostate(4)	48		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		AGGTGGTCCCCGAGGTCCCGG	0.597																																					Colon(143;498 1786 21362 25193 36625)											0													89	98	95					1																	32148832		1927	4139	6066	SO:0001583	missense	1307			M92642	CCDS41297.1	1p35-p34	2013-01-16			ENSG00000084636	ENSG00000084636		"Collagens"	2193	protein-coding gene	gene with protein product		120326				1631157	Standard	NM_001856		Approved		uc001btk.1	Q07092	OTTHUMG00000003883	ENST00000373672.3:c.2432G>A	1.37:g.32148832C>T	ENSP00000362776:p.Arg811Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q16593|Q59F89|Q71RG9	Missense_Mutation	SNP	ENST00000373672.3	37	CCDS41297.1	.	.	.	.	.	.	.	.	.	.	C	15.22	2.768237	0.49680	.	.	ENSG00000084636	ENST00000373672;ENST00000271069;ENST00000458715;ENST00000373668	D;D;D;D	0.96011	-3.23;-3.88;-3.23;-3.23	5.53	0.00441	0.14058	.	0.283230	0.32753	N	0.005683	D	0.89808	0.6822	L	0.35723	1.085	0.30861	N	0.733544	B;B;B	0.19331	0.035;0.006;0.005	B;B;B	0.17722	0.019;0.005;0.003	T	0.80603	-0.1309	10	0.23891	T	0.37	.	8.9131	0.35565	0.0:0.5899:0.0:0.4101	.	811;811;811	A6NCT7;Q07092;Q07092-2	.;COGA1_HUMAN;.	Q	811;810;32;811	ENSP00000362776:R811Q;ENSP00000271069:R810Q;ENSP00000411457:R32Q;ENSP00000362772:R811Q	ENSP00000271069:R810Q	R	-	2	0	COL16A1	31921419	0.001000	0.12720	0.883000	0.34634	0.976000	0.68499	-0.316000	0.08071	-0.158000	0.11040	-0.251000	0.11542	CGG		0.597	COL16A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000011057.2	NM_001856		T	32148832	C	T	32148832	3	4	645	1	0	0	0	0	1	0	0	0	3675	652	23	1	2526	1	COL16A1	1	32148832	Missense_Mutation	SNP	C	TCGA-KL-8346-01A-11D-2310-10	4908481	32148832	217101789	4	39912										
TAL1	6886	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	47685621	47685621	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	ccaccacagggtccttgccaGtcttggcccgctgggtgccc	12	17	1	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr1:47685621G>T	ENST00000294339.3	-	4	1343	c.767C>A	c.(766-768)aCt>aAt	p.T256N	TAL1_ENST00000371884.2_Missense_Mutation_p.T256N|TAL1_ENST00000459729.1_5'UTR|TAL1_ENST00000371883.3_Missense_Mutation_p.T258N	NM_003189.2	NP_003180.1	P17542	TAL1_HUMAN	T-cell acute lymphocytic leukemia 1	256					angiogenesis (GO:0001525)|astrocyte fate commitment (GO:0060018)|basophil differentiation (GO:0030221)|cell fate commitment (GO:0045165)|definitive hemopoiesis (GO:0060216)|embryonic hemopoiesis (GO:0035162)|erythrocyte differentiation (GO:0030218)|erythrocyte maturation (GO:0043249)|hemangioblast cell differentiation (GO:0060217)|hematopoietic stem cell differentiation (GO:0060218)|hemopoiesis (GO:0030097)|locomotory behavior (GO:0007626)|megakaryocyte development (GO:0035855)|megakaryocyte differentiation (GO:0030219)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|platelet formation (GO:0030220)|positive regulation of cell division (GO:0051781)|positive regulation of chromatin assembly or disassembly (GO:0045799)|positive regulation of erythrocyte differentiation (GO:0045648)|positive regulation of mitotic cell cycle (GO:0045931)|positive regulation of protein complex assembly (GO:0031334)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cell proliferation (GO:0042127)|regulation of mast cell differentiation (GO:0060375)|regulation of stem cell maintenance (GO:2000036)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|spinal cord association neuron differentiation (GO:0021527)	nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|E-box binding (GO:0070888)|enzyme binding (GO:0019899)|histone deacetylase binding (GO:0042826)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II transcription factor binding (GO:0001085)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			haematopoietic_and_lymphoid_tissue(1)|lung(12)|prostate(1)|upper_aerodigestive_tract(1)	15						GTCCTTGCCAGTCTTGGCCCG	0.637			T	"TRD@, SIL"	lymphoblastic leukemia/biphasic																																		Dom	yes		1	1p32	6886	T-cell acute lymphocytic leukemia 1 (SCL)		L	0													14	14	14					1																	47685621		2203	4298	6501	SO:0001583	missense	6886			M29038	CCDS547.1	1p32	2013-05-21	2001-12-04		ENSG00000162367	ENSG00000162367		"Basic helix-loop-helix proteins"	11556	protein-coding gene	gene with protein product		187040		TCL5		2740341	Standard	NM_001287347		Approved	SCL, bHLHa17	uc009vyq.2	P17542	OTTHUMG00000007847	ENST00000294339.3:c.767C>A	1.37:g.47685621G>T	ENSP00000294339:p.Thr256Asn	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQ24	Missense_Mutation	SNP	ENST00000294339.3	37	CCDS547.1	.	.	.	.	.	.	.	.	.	.	G	14.12	2.441648	0.43326	.	.	ENSG00000162367	ENST00000371884;ENST00000371883;ENST00000294339	D;D;D	0.97505	-4.4;-4.41;-4.4	5.01	3.05	0.35203	Helix-loop-helix DNA-binding (1);	0.276657	0.31872	N	0.006936	D	0.88760	0.6524	N	0.08118	0	0.21652	N	0.9996	B	0.02656	0.0	B	0.01281	0.0	T	0.75172	-0.3411	10	0.18276	T	0.48	.	4.7753	0.13176	0.1479:0.4335:0.4186:0.0	.	256	P17542	TAL1_HUMAN	N	256;258;256	ENSP00000360951:T256N;ENSP00000360950:T258N;ENSP00000294339:T256N	ENSP00000294339:T256N	T	-	2	0	TAL1	47458208	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	1.222000	0.32515	2.607000	0.88179	0.579000	0.79373	ACT		0.637	TAL1-002	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000021640.1	NM_003189		T	47685621	G	T	47685621	3	4	645	1	0	0	0	0	1	0	0	0	15553	1029	36	4	232	4	TAL1	1	47685621	Missense_Mutation	SNP	G	TCGA-KL-8346-01A-11D-2310-10	15536789	47685621	201565000	5	39913										
CELSR2	1952	ucsc.edu	37	chr1	109810544	109810544	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	cagctagccctgctcctgcgCaacgccacgcagcacacagc	9	19	0	0	rs2281894	byFrequency	TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr1:109810544C>A	ENST00000271332.3	+	17	6241	c.6180C>A	c.(6178-6180)cgC>cgA	p.R2060R		NM_001408.2	NP_001399.1	Q9HCU4	CELR2_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 2	2060					cerebrospinal fluid secretion (GO:0033326)|cilium assembly (GO:0042384)|cilium movement (GO:0003341)|dendrite morphogenesis (GO:0048813)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|neural plate anterior/posterior regionalization (GO:0021999)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|regulation of cell-cell adhesion (GO:0022407)|regulation of protein localization (GO:0032880)|regulation of transcription, DNA-templated (GO:0006355)|ventricular system development (GO:0021591)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|cervix(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(14)|lung(27)|ovary(5)|prostate(1)|skin(3)|urinary_tract(2)	82		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)		TGCTCCTGCGCAACGCCACGC	0.677													C|||	1131	0.225839	0.0537	0.2205	5008	,	,		18633	0.4206		0.1928	False		,,,				2504	0.2955				NSCLC(158;1285 2011 34800 34852 42084)											0								C		313,4093	152.9+/-186.6	17,279,1907	29	29	29		6180	0.1	1	1	dbSNP_100	29	1603,6997	272.4+/-290.1	169,1265,2866	no	coding-synonymous	CELSR2	NM_001408.2		186,1544,4773	AA,AC,CC		18.6395,7.1039,14.7317		2060/2924	109810544	1916,11090	2203	4300	6503	SO:0001819	synonymous_variant	1952			D87469	CCDS796.1	1p13.3	2014-08-08	2013-02-18		ENSG00000143126	ENSG00000143126		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	3231	protein-coding gene	gene with protein product		604265	"cadherin, EGF LAG seven-pass G-type receptor 2, flamingo (Drosophila) homolog"	EGFL2		9693030, 10907856	Standard	NM_001408		Approved	KIAA0279, MEGF3, Flamingo1, CDHF10	uc001dxa.4	Q9HCU4	OTTHUMG00000012003	ENST00000271332.3:c.6180C>A	1.37:g.109810544C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T2Y7|Q92566	Silent	SNP	ENST00000271332.3	37	CCDS796.1																																																																																				0.677	CELSR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033200.1	NM_001408		A	109810544	C	A	109810544	2	1	645	1	0	0	0	0	0	0	0	1	3224	697	25	4		4	CELSR2	1	109810544	Silent	SNP	C	TCGA-KL-8346-01A-11D-2310-10	62124923	109810544	139440077	6	39914										
OR10K1	391109	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	158436256	158436256	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	ggaattcaaatcagccctacGaagaacaatcggccaaactt	7	11	2	1			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr1:158436256G>A	ENST00000289451.2	+	1	985	c.905G>A	c.(904-906)cGa>cAa	p.R302Q		NM_001004473.1	NP_001004473.1	Q8NGX5	O10K1_HUMAN	olfactory receptor, family 10, subfamily K, member 1	302						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(1)|lung(15)|ovary(1)|pancreas(1)|prostate(1)|skin(2)|stomach(1)	27	all_hematologic(112;0.0378)					TCAGCCCTACGAAGAACAATC	0.373																																																0													95	92	93					1																	158436256		2203	4300	6503	SO:0001583	missense	391109			AP002532	CCDS30897.1	1q23.1	2012-08-09			ENSG00000173285	ENSG00000173285		"GPCR / Class A : Olfactory receptors"	14693	protein-coding gene	gene with protein product							Standard	NM_001004473		Approved		uc010pij.2	Q8NGX5	OTTHUMG00000017517	ENST00000289451.2:c.905G>A	1.37:g.158436256G>A	ENSP00000289451:p.Arg302Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFS2	Missense_Mutation	SNP	ENST00000289451.2	37	CCDS30897.1	.	.	.	.	.	.	.	.	.	.	g	10.79	1.449402	0.26074	.	.	ENSG00000173285	ENST00000289451	T	0.39406	1.08	4.24	-0.868	0.10652	.	1.305430	0.05653	N	0.585547	T	0.10809	0.0264	N	0.25957	0.775	0.09310	N	1	B	0.14438	0.01	B	0.04013	0.001	T	0.28996	-1.0026	10	0.41790	T	0.15	.	5.2439	0.15487	0.4324:0.142:0.4256:0.0	.	302	Q8NGX5	O10K1_HUMAN	Q	302	ENSP00000289451:R302Q	ENSP00000289451:R302Q	R	+	2	0	OR10K1	156702880	0.000000	0.05858	0.009000	0.14445	0.065000	0.16274	-0.882000	0.04174	-0.401000	0.07644	-0.232000	0.12228	CGA		0.373	OR10K1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046367.1			A	158436256	G	A	158436256	3	1	645	1	0	0	0	0	1	0	0	0	10920	1058	37	1	907	1	OR10K1	1	158436256	Missense_Mutation	SNP	G	TCGA-KL-8346-01A-11D-2310-10	48625712	158436256	90814365	7	39915										
SPTA1	6708	broad.mit.edu	37	chr1	158647558	158647558	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	tcagaggcaacaaggtctttGccatagtcctcagaggtgag	12	9	3	3			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr1:158647558G>T	ENST00000368147.4	-	7	1059	c.879C>A	c.(877-879)ggC>ggA	p.G293G		NM_003126.2	NP_003117.2	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	293					actin filament capping (GO:0051693)|actin filament organization (GO:0007015)|axon guidance (GO:0007411)|hemopoiesis (GO:0030097)|lymphocyte homeostasis (GO:0002260)|plasma membrane organization (GO:0007009)|porphyrin-containing compound biosynthetic process (GO:0006779)|positive regulation of protein binding (GO:0032092)|positive regulation of T cell proliferation (GO:0042102)|regulation of cell shape (GO:0008360)	actin cytoskeleton (GO:0015629)|cuticular plate (GO:0032437)|cytosol (GO:0005829)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)|spectrin (GO:0008091)|spectrin-associated cytoskeleton (GO:0014731)	actin filament binding (GO:0051015)|calcium ion binding (GO:0005509)|structural constituent of cytoskeleton (GO:0005200)			NS(3)|breast(7)|cervix(1)|endometrium(22)|kidney(9)|large_intestine(29)|liver(2)|lung(183)|ovary(5)|prostate(18)|skin(11)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(9)|urinary_tract(6)	307	all_hematologic(112;0.0378)					CAAGGTCTTTGCCATAGTCCT	0.468																																																0													115	110	112					1																	158647558		1975	4161	6136	SO:0001819	synonymous_variant	6708			M61877	CCDS41423.1	1q21	2014-06-23	2014-06-23		ENSG00000163554	ENSG00000163554		"EF-hand domain containing"	11272	protein-coding gene	gene with protein product	"elliptocytosis 2"	182860	"spectrin, alpha, erythrocytic 1 (elliptocytosis 2)"				Standard	NM_003126		Approved	EL2	uc001fst.1	P02549	OTTHUMG00000019636	ENST00000368147.4:c.879C>A	1.37:g.158647558G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q15514|Q5VYL1|Q5VYL2|Q6LDY5	Silent	SNP	ENST00000368147.4	37	CCDS41423.1																																																																																				0.468	SPTA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051851.3	NM_003126		T	158647558	G	T	158647558	2	4	645	1	0	0	0	0	0	0	0	1	15128	1306	46	4		4	SPTA1	1	158647558	Silent	SNP	G	TCGA-KL-8346-01A-11D-2310-10	211302	158647558	90603063	8	39916										
ASPM	259266	hgsc.bcm.edu	37	chr1	197073057	197073057	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gaatgacaataattgctttaTacattttcagataatactgc	5	6	1	2			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr1:197073057T>C	ENST00000367409.4	-	18	5580	c.5324A>G	c.(5323-5325)tAt>tGt	p.Y1775C	ASPM_ENST00000294732.7_Intron|ASPM_ENST00000367408.1_Intron	NM_018136.4	NP_060606.3	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle) homolog, microcephaly associated (Drosophila)	1775	IQ 7. {ECO:0000255|PROSITE- ProRule:PRU00116}.				developmental growth (GO:0048589)|forebrain neuroblast division (GO:0021873)|maintenance of centrosome location (GO:0051661)|mitotic nuclear division (GO:0007067)|negative regulation of asymmetric cell division (GO:0045769)|negative regulation of neuron differentiation (GO:0045665)|neuron migration (GO:0001764)|oogenesis (GO:0048477)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of neuroblast proliferation (GO:0002052)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|midbody (GO:0030496)|nucleus (GO:0005634)|spindle pole (GO:0000922)				breast(6)|central_nervous_system(2)|cervix(2)|endometrium(10)|kidney(9)|large_intestine(28)|liver(1)|lung(87)|ovary(5)|pancreas(2)|prostate(6)|skin(4)|urinary_tract(3)	165						AATTGCTTTATACATTTTCAG	0.363																																																0													87	89	88					1																	197073057		2203	4298	6501	SO:0001583	missense	259266			AY367065	CCDS1389.1, CCDS55672.1	1q31	2008-02-05	2006-09-12		ENSG00000066279	ENSG00000066279			19048	protein-coding gene	gene with protein product		605481	"microcephaly, primary autosomal recessive 5", "asp (abnormal spindle)-like, microcephaly associated (Drosophila)"	MCPH5		11078481	Standard	NM_018136		Approved	Calmbp1, ASP, FLJ10517, FLJ10549	uc001gtu.3	Q8IZT6	OTTHUMG00000036277	ENST00000367409.4:c.5324A>G	1.37:g.197073057T>C	ENSP00000356379:p.Tyr1775Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q4G1H1|Q5VYL3|Q86UX4|Q8IUL2|Q8IZJ7|Q8IZJ8|Q8IZJ9|Q8N4D1|Q9NVS1|Q9NVT6	Missense_Mutation	SNP	ENST00000367409.4	37	CCDS1389.1	.	.	.	.	.	.	.	.	.	.	T	0.113	-1.136339	0.01742	.	.	ENSG00000066279	ENST00000367409	T	0.71698	-0.59	5.69	-1.82	0.07857	.	0.569487	0.18012	N	0.154506	T	0.52370	0.1730	L	0.28054	0.825	0.09310	N	1	B	0.24768	0.111	B	0.25884	0.064	T	0.31223	-0.9951	10	0.38643	T	0.18	.	9.3575	0.38175	0.0:0.2456:0.0912:0.6632	.	1775	Q8IZT6	ASPM_HUMAN	C	1775	ENSP00000356379:Y1775C	ENSP00000356379:Y1775C	Y	-	2	0	ASPM	195339680	0.000000	0.05858	0.000000	0.03702	0.004000	0.04260	-0.723000	0.04952	-1.010000	0.03396	-1.463000	0.01021	TAT		0.363	ASPM-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000088256.1	NM_018136		C	197073057	T	C	197073057	3	2	645	1	0	0	0	0	1	0	0	0	1056	1406	49	3	5153	3	ASPM	1	197073057	Missense_Mutation	SNP	T	TCGA-KL-8346-01A-11D-2310-10	38425499	197073057	52177564	9	39917										
USH2A	7399	ucsc.edu	37	chr1	215916578	215916578	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	atggagtcaaattttccagaAgggtggattgatgatgacca	12	5	1	4			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr1:215916578A>G	ENST00000307340.3	-	59	11875	c.11489T>C	c.(11488-11490)cTt>cCt	p.L3830P	USH2A_ENST00000366943.2_Missense_Mutation_p.L3830P	NM_206933.2	NP_996816	O75445	USH2A_HUMAN	Usher syndrome 2A (autosomal recessive, mild)	3830	Fibronectin type-III 23. {ECO:0000255|PROSITE-ProRule:PRU00316}.				hair cell differentiation (GO:0035315)|inner ear receptor cell differentiation (GO:0060113)|maintenance of organ identity (GO:0048496)|photoreceptor cell maintenance (GO:0045494)|response to stimulus (GO:0050896)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	apical plasma membrane (GO:0016324)|basement membrane (GO:0005604)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|stereocilia ankle link complex (GO:0002142)|stereocilium bundle (GO:0032421)|stereocilium membrane (GO:0060171)	collagen binding (GO:0005518)|myosin binding (GO:0017022)			NS(7)|breast(20)|central_nervous_system(3)|cervix(2)|endometrium(32)|haematopoietic_and_lymphoid_tissue(4)|kidney(13)|large_intestine(71)|liver(2)|lung(282)|ovary(25)|pancreas(2)|prostate(12)|skin(22)|stomach(7)|upper_aerodigestive_tract(20)|urinary_tract(3)	527				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ATTTTCCAGAAGGGTGGATTG	0.433										HNSCC(13;0.011)																																						0													142	136	138					1																	215916578		2203	4300	6503	SO:0001583	missense	7399			AF055580	CCDS1516.1, CCDS31025.1	1q41	2013-02-11			ENSG00000042781	ENSG00000042781		"Fibronectin type III domain containing"	12601	protein-coding gene	gene with protein product	"usherin"	608400		USH2		9624053, 10729113	Standard	NM_007123		Approved	RP39	uc001hku.1	O75445	OTTHUMG00000037079	ENST00000307340.3:c.11489T>C	1.37:g.215916578A>G	ENSP00000305941:p.Leu3830Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VVM9|Q6S362|Q9NS27	Missense_Mutation	SNP	ENST00000307340.3	37	CCDS31025.1	.	.	.	.	.	.	.	.	.	.	A	11.48	1.652460	0.29336	.	.	ENSG00000042781	ENST00000307340;ENST00000366943	T;T	0.57595	0.39;0.39	4.94	2.47	0.30058	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.870968	0.09479	N	0.796557	T	0.60457	0.2270	L	0.47716	1.5	0.18873	N	0.999988	D	0.61080	0.989	P	0.61070	0.883	T	0.46331	-0.9199	10	0.59425	D	0.04	.	7.8623	0.29517	0.7205:0.1387:0.0:0.1408	.	3830	O75445	USH2A_HUMAN	P	3830	ENSP00000305941:L3830P;ENSP00000355910:L3830P	ENSP00000305941:L3830P	L	-	2	0	USH2A	213983201	0.074000	0.21230	0.028000	0.17463	0.101000	0.19017	3.361000	0.52306	0.383000	0.24910	0.533000	0.62120	CTT		0.433	USH2A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128138.1	NM_007123		G	215916578	A	G	215916578	3	3	645	1	0	0	0	0	1	0	0	0	17048	72	3	3	4175	3	USH2A	1	215916578	Missense_Mutation	SNP	A	TCGA-KL-8346-01A-11D-2310-10	18843521	215916578	33334043	10	39918										
SLC4A5	57835	bcgsc.ca	37	chr2	74480132	74480132	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	agagggcaccttcttgggggGctcaatccggatatttgggt	15	8	2	1			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr2:74480132G>A	ENST00000377634.4	-	15	1636	c.1237C>T	c.(1237-1239)Ccc>Tcc	p.P413S	SLC4A5_ENST00000346834.4_Missense_Mutation_p.P413S|SLC4A5_ENST00000377632.1_Missense_Mutation_p.P413S|RP11-287D1.3_ENST00000451608.2_3'UTR|SLC4A5_ENST00000358683.4_Missense_Mutation_p.P349S|SLC4A5_ENST00000483195.1_5'UTR|SLC4A5_ENST00000423644.1_Missense_Mutation_p.P413S|SLC4A5_ENST00000394019.2_Missense_Mutation_p.P413S|SLC4A5_ENST00000357822.5_Missense_Mutation_p.P413S|SLC4A5_ENST00000359484.4_Missense_Mutation_p.P349S					solute carrier family 4 (sodium bicarbonate cotransporter), member 5											breast(5)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(12)|lung(13)|ovary(5)|pancreas(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	48						TTCTTGGGGGGCTCAATCCGG	0.493																																																0													69	67	67					2																	74480132		2203	4300	6503	SO:0001583	missense	57835			AF243499	CCDS1936.1, CCDS1937.1	2p13.1	2013-07-19	2013-07-19		ENSG00000188687	ENSG00000188687		"Solute carriers"	18168	protein-coding gene	gene with protein product		606757	"solute carrier family 4, sodium bicarbonate cotransporter, member 5"			10978526, 11087115	Standard	NM_133478		Approved	NBC4	uc002sko.1	Q9BY07	OTTHUMG00000090263	ENST00000377634.4:c.1237C>T	2.37:g.74480132G>A	ENSP00000366861:p.Pro413Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000377634.4	37	CCDS1936.1	.	.	.	.	.	.	.	.	.	.	G	27.4	4.829499	0.90955	.	.	ENSG00000188687	ENST00000394019;ENST00000451608;ENST00000346834;ENST00000359484;ENST00000423644;ENST00000358683;ENST00000357822;ENST00000377632;ENST00000377634;ENST00000425249	T;T;T;T;T;T;T;T;T	0.80214	-1.35;-1.35;-1.35;-1.35;-1.35;-1.35;-1.35;-1.35;-1.35	5.4	5.4	0.78164	Bicarbonate transporter, cytoplasmic (1);Phosphotransferase/anion transporter (1);	0.000000	0.85682	D	0.000000	D	0.88926	0.6570	M	0.72894	2.215	0.80722	D	1	D;D;D;D;D	0.89917	1.0;0.999;0.998;0.997;1.0	D;D;D;D;D	0.91635	0.993;0.962;0.988;0.947;0.999	D	0.88751	0.3250	10	0.54805	T	0.06	.	16.7038	0.85366	0.0:0.0:1.0:0.0	.	413;413;349;413;413	Q9BY07-4;E7EQT3;Q9BY07-7;Q9BY07;Q9BY07-3	.;.;.;S4A5_HUMAN;.	S	413;413;413;349;413;349;413;413;413;413	ENSP00000377587:P413S;ENSP00000251768:P413S;ENSP00000352461:P349S;ENSP00000395804:P413S;ENSP00000351513:P349S;ENSP00000350475:P413S;ENSP00000366859:P413S;ENSP00000366861:P413S;ENSP00000405678:P413S	ENSP00000251768:P413S	P	-	1	0	SLC4A5	74333640	1.000000	0.71417	1.000000	0.80357	0.915000	0.54546	9.657000	0.98554	2.813000	0.96785	0.561000	0.74099	CCC		0.493	SLC4A5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000206583.3			A	74480132	G	A	74480132	3	1	645	1	0	0	0	0	1	0	0	0	14670	1203	42	2	2244	2	SLC4A5	2	74480132	Missense_Mutation	SNP	G	TCGA-KL-8346-01A-11D-2310-10		74480132	168719241	11	39919										
STARD7	56910	broad.mit.edu	37	chr2	96861118	96861118	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	ggtgcctgtaattgggcgccGccacagcttaaagtgtttct	12	10	1	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr2:96861118G>A	ENST00000337288.5	-	2	843	c.460C>T	c.(460-462)Cgg>Tgg	p.R154W	STARD7_ENST00000462501.1_5'UTR	NM_020151.3	NP_064536.2	Q9NQZ5	STAR7_HUMAN	StAR-related lipid transfer (START) domain containing 7	154	START. {ECO:0000255|PROSITE- ProRule:PRU00197}.					mitochondrion (GO:0005739)	lipid binding (GO:0008289)			endometrium(2)|kidney(1)|large_intestine(1)|lung(8)|stomach(2)	14						ATTGGGCGCCGCCACAGCTTA	0.498																																																0													111	86	94					2																	96861118		2203	4299	6502	SO:0001583	missense	56910			AF270647	CCDS2017.2	2p11.1	2011-09-12	2007-08-16		ENSG00000084090	ENSG00000084090		"StAR-related lipid transfer (START) domain containing"	18063	protein-coding gene	gene with protein product			"START domain containing 7"				Standard	NM_020151		Approved	GTT1	uc002svm.4	Q9NQZ5	OTTHUMG00000130457	ENST00000337288.5:c.460C>T	2.37:g.96861118G>A	ENSP00000338030:p.Arg154Trp	Somatic		WXS	Illumina HiSeq	Phase_I	D3DXG9|Q53T44|Q6GU43|Q969M6	Missense_Mutation	SNP	ENST00000337288.5	37	CCDS2017.2	.	.	.	.	.	.	.	.	.	.	G	23.4	4.417117	0.83449	.	.	ENSG00000084090	ENST00000337288;ENST00000443962	T;T	0.27402	1.67;1.67	6.07	4.12	0.48240	Lipid-binding START (3);START-like domain (1);	0.059719	0.64402	D	0.000001	T	0.58524	0.2128	M	0.87381	2.88	0.58432	D	0.999996	D	0.89917	1.0	D	0.91635	0.999	T	0.65919	-0.6051	10	0.87932	D	0	-23.6645	11.5932	0.50957	0.0:0.0:0.524:0.476	.	154	Q9NQZ5	STAR7_HUMAN	W	154;53	ENSP00000338030:R154W;ENSP00000409410:R53W	ENSP00000338030:R154W	R	-	1	2	STARD7	96224845	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.193000	0.58385	1.567000	0.49668	-0.169000	0.13324	CGG		0.498	STARD7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252848.2			A	96861118	G	A	96861118	3	1	645	1	0	0	0	0	1	0	0	0	15274	1086	38	1	680	1	STARD7	2	96861118	Missense_Mutation	SNP	G	TCGA-KL-8346-01A-11D-2310-10	22380986	96861118	146338255	12	39920										
IL1R2	7850	bcgsc.ca	37	chr2	102632493	102632493	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	tcacccgtgacaaaactgacGtgaagattcaatggtacaag	9	9	2	4	rs529315850		TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr2:102632493G>A	ENST00000332549.3	+	4	722	c.493G>A	c.(493-495)Gtg>Atg	p.V165M	IL1R2_ENST00000441002.1_Missense_Mutation_p.V165M|IL1R2_ENST00000393414.2_Missense_Mutation_p.V165M	NM_004633.3	NP_004624.1	P27930	IL1R2_HUMAN	interleukin 1 receptor, type II	165	Ig-like C2-type 2.				cytokine-mediated signaling pathway (GO:0019221)|immune response (GO:0006955)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	interleukin-1 receptor activity (GO:0004908)|interleukin-1, Type II, blocking receptor activity (GO:0004910)			breast(3)|endometrium(1)|kidney(1)|large_intestine(8)|lung(13)|ovary(1)|skin(1)	28						CAAAACTGACGTGAAGATTCA	0.373																																					Pancreas(106;189 1628 2302 5133 12295)											0													62	59	60					2																	102632493		2203	4300	6503	SO:0001583	missense	7850			X59770	CCDS2054.1, CCDS58719.1	2q12	2013-01-11			ENSG00000115590	ENSG00000115590		"Interleukins and interleukin receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5994	protein-coding gene	gene with protein product		147811		IL1RB		10191101, 1833184	Standard	NM_004633		Approved	CD121b	uc002tbm.3	P27930	OTTHUMG00000130695	ENST00000332549.3:c.493G>A	2.37:g.102632493G>A	ENSP00000330959:p.Val165Met	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVJ5|Q6LCE6|Q9UE68	Missense_Mutation	SNP	ENST00000332549.3	37	CCDS2054.1	.	.	.	.	.	.	.	.	.	.	G	13.07	2.127830	0.37533	.	.	ENSG00000115590	ENST00000332549;ENST00000393414;ENST00000457817;ENST00000441002	T;T;T;T	0.78126	-1.15;-1.15;-1.15;-1.15	5.53	-11.1	0.00147	Immunoglobulin subtype (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	1.398540	0.04271	N	0.342070	T	0.49150	0.1540	N	0.11201	0.11	0.09310	N	1	B	0.14012	0.009	B	0.09377	0.004	T	0.35992	-0.9766	10	0.33141	T	0.24	.	2.4708	0.04564	0.2547:0.3935:0.1081:0.2437	.	165	P27930	IL1R2_HUMAN	M	165	ENSP00000330959:V165M;ENSP00000377066:V165M;ENSP00000408415:V165M;ENSP00000414611:V165M	ENSP00000330959:V165M	V	+	1	0	IL1R2	101998925	0.000000	0.05858	0.000000	0.03702	0.983000	0.72400	-2.840000	0.00738	-2.238000	0.00712	-0.165000	0.13383	GTG		0.373	IL1R2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253191.1	NM_004633		A	102632493	G	A	102632493	3	1	645	1	0	0	0	0	1	0	0	0	7666	1145	40	1	503	1	IL1R2	2	102632493	Missense_Mutation	SNP	G	TCGA-KL-8346-01A-11D-2310-10	5771375	102632493	140566880	13	39921										
POTEE	445582	mdanderson.org	37	chr2	132021781	132021781	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	catcaaagagaagctgtgctAtgttgccctggacttcgagc	11	10	1	1	rs553548999	byFrequency	TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr2:132021781A>T	ENST00000356920.5	+	15	2847	c.2753A>T	c.(2752-2754)tAt>tTt	p.Y918F	PLEKHB2_ENST00000404460.1_Intron|POTEE_ENST00000358087.5_3'UTR|PLEKHB2_ENST00000303908.3_Intron	NM_001083538.1	NP_001077007.1	Q6S8J3	POTEE_HUMAN	POTE ankyrin domain family, member E	918	Actin-like.				retina homeostasis (GO:0001895)|substantia nigra development (GO:0021762)	blood microparticle (GO:0072562)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)											AAGCTGTGCTATGTTGCCCTG	0.592													.|||	2	0.000399361	0.0015	0.0	5008	,	,		40828	0.0		0.0	False		,,,				2504	0.0															0													88	96	94					2																	132021781		2202	4294	6496	SO:0001583	missense	445582			AY462868	CCDS46414.1	2q21.1	2014-04-10	2008-11-26	2008-11-26	ENSG00000188219	ENSG00000188219		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33895	protein-coding gene	gene with protein product	"cancer/testis antigen family 104, member 2"	608914	"ANKRD26-like family C, member 1A"	A26C1A			Standard	NM_001083538		Approved	POTE2, POTE-2, A26C1, POTE2gamma, CT104.2	uc002tsn.2	Q6S8J3	OTTHUMG00000186974	ENST00000356920.5:c.2753A>T	2.37:g.132021781A>T	ENSP00000439189:p.Tyr918Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q6S8J4|Q6S8J5|Q6S8J8	Missense_Mutation	SNP	ENST00000356920.5	37	CCDS46414.1	.	.	.	.	.	.	.	.	.	.	.	15.13	2.742490	0.49151	.	.	ENSG00000188219	ENST00000356920	T	0.08984	3.03	.	.	.	.	.	.	.	.	T	0.09335	0.0230	M	0.75264	2.295	0.80722	D	1	B	0.33755	0.424	B	0.29524	0.103	T	0.09862	-1.0655	8	0.72032	D	0.01	.	4.5487	0.12098	0.9994:0.0:6.0E-4:0.0	.	918	Q6S8J3	POTEE_HUMAN	F	918	ENSP00000439189:Y918F	ENSP00000439189:Y918F	Y	+	2	0	AC131180.1	131738251	1.000000	0.71417	0.464000	0.27143	0.467000	0.32768	6.177000	0.71961	0.103000	0.17682	0.102000	0.15555	TAT		0.592	POTEE-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001083538		T	132021781	A	T	132021781	3	4	645	1	0	0	0	0	1	0	0	0	12271	449	16	5	2811	5	POTEE	2	132021781	Missense_Mutation	SNP	A	TCGA-KL-8346-01A-11D-2310-10	29389288	132021781	111177592	14	39922										
TTN	7273	broad.mit.edu	37	chr2	179639167	179639167	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	atgattctggaacttctatgTcctgaagttctttcacaaac	6	9	4	2			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr2:179639167T>C	ENST00000591111.1	-	30	7048	c.6824A>G	c.(6823-6825)gAc>gGc	p.D2275G	TTN_ENST00000460472.2_Missense_Mutation_p.D2229G|TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000584485.1_RNA|RP11-88L24.4_ENST00000582038.2_RNA|TTN_ENST00000360870.5_Missense_Mutation_p.D2275G|TTN-AS1_ENST00000610005.1_RNA|TTN_ENST00000359218.5_Missense_Mutation_p.D2229G|TTN_ENST00000342992.6_Missense_Mutation_p.D2275G|TTN_ENST00000589042.1_Missense_Mutation_p.D2275G|TTN_ENST00000342175.6_Missense_Mutation_p.D2229G			Q8WZ42	TITIN_HUMAN	titin	12598	Ig-like 12.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AACTTCTATGTCCTGAAGTTC	0.353																																																0													61	61	61					2																	179639167		2202	4300	6502	SO:0001583	missense	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.6824A>G	2.37:g.179639167T>C	ENSP00000465570:p.Asp2275Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	T	12.35	1.912454	0.33721	.	.	ENSG00000155657	ENST00000342992;ENST00000460472;ENST00000342175;ENST00000359218;ENST00000356127;ENST00000360870	T;T;T;T;T	0.47177	0.85;0.85;0.85;0.85;0.85	5.6	5.6	0.85130	Immunoglobulin subtype (1);Immunoglobulin I-set (1);Immunoglobulin-like (1);Ribonuclease H-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.71091	0.3299	M	0.91768	3.24	0.29326	N	0.867009	P;P;P;P;D	0.65815	0.64;0.64;0.64;0.64;0.995	B;B;B;B;P	0.56163	0.334;0.334;0.334;0.334;0.793	T	0.74475	-0.3653	9	0.87932	D	0	.	15.7844	0.78291	0.0:0.0:0.0:1.0	.	2229;2229;2229;2275;2275	D3DPF9;E7EQE6;E7ET18;Q8WZ42;Q8WZ42-6	.;.;.;TITIN_HUMAN;.	G	2275;2229;2229;2229;2229;2275	ENSP00000343764:D2275G;ENSP00000434586:D2229G;ENSP00000340554:D2229G;ENSP00000352154:D2229G;ENSP00000354117:D2275G	ENSP00000340554:D2229G	D	-	2	0	TTN	179347412	1.000000	0.71417	1.000000	0.80357	0.964000	0.63967	5.053000	0.64269	2.141000	0.66446	0.455000	0.32223	GAC		0.353	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		C	179639167	T	C	179639167	3	2	645	1	0	0	0	0	1	0	0	0	16747	1667	58	3	104496	3	TTN	2	179639167	Missense_Mutation	SNP	T	TCGA-KL-8346-01A-11D-2310-10	47617386	179639167	63560206	15	39923										
RAF1	5894	broad.mit.edu	37	chr3	12660138	12660138	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gctgaactattgtaggagagAtgcagctggagccatcaaac	12	8	1	2			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr3:12660138A>G	ENST00000251849.4	-	2	522	c.83T>C	c.(82-84)aTc>aCc	p.I28T	RAF1_ENST00000442415.2_Missense_Mutation_p.I28T|RAF1_ENST00000542177.1_5'UTR	NM_002880.3	NP_002871.1	P04049	RAF1_HUMAN	Raf-1 proto-oncogene, serine/threonine kinase	28					activation of adenylate cyclase activity (GO:0007190)|activation of MAPKK activity (GO:0000186)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell proliferation (GO:0008283)|death-inducing signaling complex assembly (GO:0071550)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|intermediate filament cytoskeleton organization (GO:0045104)|ion transmembrane transport (GO:0034220)|MAPK cascade (GO:0000165)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|negative regulation of protein complex assembly (GO:0031333)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet activation (GO:0030168)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|protein phosphorylation (GO:0006468)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of cell differentiation (GO:0045595)|regulation of cell motility (GO:2000145)|regulation of Rho protein signal transduction (GO:0035023)|response to hypoxia (GO:0001666)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)|somatic stem cell maintenance (GO:0035019)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|wound healing (GO:0042060)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|mitochondrial outer membrane (GO:0005741)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|pseudopodium (GO:0031143)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|MAP kinase kinase kinase activity (GO:0004709)|metal ion binding (GO:0046872)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)		ESRP1/RAF1(4)|RAF1/DAZL(2)|SRGAP3/RAF1(6)	biliary_tract(1)|endometrium(4)|kidney(3)|large_intestine(9)|liver(1)|lung(7)|ovary(1)|pancreas(1)|prostate(2)|stomach(2)|upper_aerodigestive_tract(1)	32					Dabrafenib(DB08912)|Regorafenib(DB08896)|Sorafenib(DB00398)	TGTAGGAGAGATGCAGCTGGA	0.463			T	SRGAP3	pilocytic astrocytoma				Noonan syndrome																														Dom	yes		3	3p25	5894	v-raf-1 murine leukemia viral oncogene homolog 1		M	0													129	116	120					3																	12660138		2203	4300	6503	SO:0001583	missense	5894	Familial Cancer Database	Male Turner syndrome, Pterygium Colli syndrome, incl. Noonan-like/Multiple Giant Cell Lesion syndrome; Noonan s. with multiple lentigines/LEOPARD syndrome	X03484	CCDS2612.1	3p25	2014-09-17	2014-06-26		ENSG00000132155	ENSG00000132155			9829	protein-coding gene	gene with protein product	"C-Raf proto-oncogene, serine/threonine kinase"	164760	"v-raf-1 murine leukemia viral oncogene homolog 1"			1611909	Standard	NM_002880		Approved	Raf-1, c-Raf, CRAF	uc003bxf.4	P04049	OTTHUMG00000129789	ENST00000251849.4:c.83T>C	3.37:g.12660138A>G	ENSP00000251849:p.Ile28Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B0LPH8|B2R5N3|Q15278|Q9UC20	Missense_Mutation	SNP	ENST00000251849.4	37	CCDS2612.1	.	.	.	.	.	.	.	.	.	.	A	16.96	3.264954	0.59431	.	.	ENSG00000132155	ENST00000251849;ENST00000442415	T;T	0.75050	-0.9;-0.9	6.03	4.87	0.63330	.	0.155554	0.56097	N	0.000021	T	0.58438	0.2122	N	0.14661	0.345	0.80722	D	1	B	0.23937	0.094	B	0.16722	0.016	T	0.56823	-0.7915	10	0.72032	D	0.01	.	12.0181	0.53326	0.9329:0.0:0.0671:0.0	.	28	P04049	RAF1_HUMAN	T	28	ENSP00000251849:I28T;ENSP00000401888:I28T	ENSP00000251849:I28T	I	-	2	0	RAF1	12635138	1.000000	0.71417	0.999000	0.59377	0.986000	0.74619	5.751000	0.68720	1.099000	0.41499	0.533000	0.62120	ATC		0.463	RAF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252015.2	NM_002880		G	12660138	A	G	12660138	3	3	645	1	0	0	0	0	1	0	0	0	13015	333	12	3	1927	3	RAF1	3	12660138	Missense_Mutation	SNP	A	TCGA-KL-8346-01A-11D-2310-10		12660138	185362292	16	39924										
TBC1D5	9779	broad.mit.edu	37	chr3	17415993	17415993	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	tcatgctcaaaagttgaaaaCcaaggttcagcagtttccat	7	9	3	1			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr3:17415993C>T	ENST00000253692.7	-	12	2456	c.792G>A	c.(790-792)tgG>tgA	p.W264*	TBC1D5_ENST00000429383.4_Nonsense_Mutation_p.W264*|TBC1D5_ENST00000429924.2_Nonsense_Mutation_p.W216*|TBC1D5_ENST00000446818.2_Nonsense_Mutation_p.W264*|TBC1D5_ENST00000414318.2_Intron	NM_014744.2	NP_055559.1	Q92609	TBCD5_HUMAN	TBC1 domain family, member 5	264	Rab-GAP TBC. {ECO:0000255|PROSITE- ProRule:PRU00163}.					retromer complex (GO:0030904)	Rab GTPase activator activity (GO:0005097)			NS(1)|breast(1)|endometrium(1)|kidney(3)|large_intestine(7)|lung(14)|ovary(2)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	36						AAGTTGAAAACCAAGGTTCAG	0.299																																																0													66	66	66					3																	17415993		2202	4296	6498	SO:0001587	stop_gained	9779			D86965	CCDS33714.1, CCDS46770.1	3p24.3	2013-07-09			ENSG00000131374	ENSG00000131374			19166	protein-coding gene	gene with protein product		615740				19531583	Standard	NM_014744		Approved	KIAA0210	uc003cbe.3	Q92609	OTTHUMG00000155488	ENST00000253692.7:c.792G>A	3.37:g.17415993C>T	ENSP00000253692:p.Trp264*	Somatic		WXS	Illumina HiSeq	Phase_I	A6NP25|C9JP52	Nonsense_Mutation	SNP	ENST00000253692.7	37	CCDS33714.1	.	.	.	.	.	.	.	.	.	.	C	38	7.260140	0.98171	.	.	ENSG00000131374	ENST00000253692;ENST00000429383;ENST00000446818;ENST00000429924	.	.	.	5.44	5.44	0.79542	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-8.9065	19.6391	0.95749	0.0:1.0:0.0:0.0	.	.	.	.	X	264;264;264;216	.	ENSP00000253692:W264X	W	-	3	0	TBC1D5	17390997	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.344000	0.79328	2.715000	0.92844	0.655000	0.94253	TGG		0.299	TBC1D5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340301.3	NM_014744		T	17415993	C	T	17415993	4	4	645	1	0	0	0	0	0	1	0	0	15635	508	18	2	1709	2	TBC1D5	3	17415993	Nonsense_Mutation	SNP	C	TCGA-KL-8346-01A-11D-2310-10	4755855	17415993	180606437	17	39925										
TOP2B	7155	broad.mit.edu;hgsc.bcm.edu	37	chr3	25647566	25647570	+	Frame_Shift_Del	DEL	GAGAA	GAGAA	-													0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	tctgagaatatgaaggaaatGagaagagatttccaaaatcc							TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	GAGAA	GAGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr3:25647566_25647570delGAGAA	ENST00000264331.4	-	32	4341_4345	c.4342_4346delTTCTC	c.(4342-4347)ttctcafs	p.FS1448fs	TOP2B_ENST00000435706.2_Frame_Shift_Del_p.FS1443fs|TOP2B_ENST00000540199.1_Frame_Shift_Del_p.FS300fs|TOP2B_ENST00000542520.1_Frame_Shift_Del_p.FS300fs	NM_001068.2	NP_001059.2	Q02880	TOP2B_HUMAN	topoisomerase (DNA) II beta 180kDa	1448					ATP catabolic process (GO:0006200)|axonogenesis (GO:0007409)|DNA topological change (GO:0006265)|DNA unwinding involved in DNA replication (GO:0006268)|forebrain development (GO:0030900)|mitotic DNA integrity checkpoint (GO:0044774)|mitotic recombination (GO:0006312)|neuron migration (GO:0001764)|resolution of meiotic recombination intermediates (GO:0000712)|sister chromatid segregation (GO:0000819)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|DNA topoisomerase complex (ATP-hydrolyzing) (GO:0009330)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding, bending (GO:0008301)|DNA topoisomerase type II (ATP-hydrolyzing) activity (GO:0003918)|enzyme binding (GO:0019899)|histone deacetylase binding (GO:0042826)|metal ion binding (GO:0046872)|protein C-terminus binding (GO:0008022)|protein heterodimerization activity (GO:0046982)|protein kinase C binding (GO:0005080)			breast(2)|endometrium(5)|kidney(1)|large_intestine(10)|lung(14)|ovary(1)|skin(2)|stomach(1)	36					Dactinomycin(DB00970)|Daunorubicin(DB00694)|Dexrazoxane(DB00380)|Etoposide(DB00773)	TGAAGGAAATGAGAAGAGATTTCCA	0.298																																																0																																										SO:0001589	frameshift_variant	7155			X68060	CCDS46776.1	3p24.2	2012-08-30	2002-08-29		ENSG00000077097	ENSG00000077097	5.99.1.3		11990	protein-coding gene	gene with protein product		126431	"topoisomerase (DNA) II beta (180kD)"			1309226, 1333583	Standard	NM_001068		Approved		uc003cdj.3	Q02880	OTTHUMG00000155596	ENST00000264331.4:c.4342_4346delTTCTC	3.37:g.25647566_25647570delGAGAA	ENSP00000264331:p.Phe1448fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q13600|Q9UMG8|Q9UQP8	Frame_Shift_Del	DEL	ENST00000264331.4	37																																																																																					0.298	TOP2B-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding				-	25647570	GAGAA	-	25647566	7	5	645	1	0	1	0	1	0	0	0	0	16378	1294	45	0	554	0	TOP2B	3	25647566	Frame_Shift_Del	DEL	GAGAA	TCGA-KL-8346-01A-11D-2310-10	8231573	25647566	172374864	18	39926	349	2								
TOP2B	7155	bcgsc.ca	37	chr3	25647567	25647571	+	Frame_Shift_Del	DEL	GAGAA	GAGAA	-													0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	ctgagaatatgaaggaaatgAgaagagatttccaaaatcct							TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	GAGAA	GAGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr3:25647567_25647571delGAGAA	ENST00000264331.4	-	32	4340_4344	c.4341_4345delTTCTC	c.(4339-4347)ctttctccafs	p.SP1448fs	TOP2B_ENST00000435706.2_Frame_Shift_Del_p.SP1443fs|TOP2B_ENST00000540199.1_Frame_Shift_Del_p.SP300fs|TOP2B_ENST00000542520.1_Frame_Shift_Del_p.SP300fs	NM_001068.2	NP_001059.2	Q02880	TOP2B_HUMAN	topoisomerase (DNA) II beta 180kDa	1448					ATP catabolic process (GO:0006200)|axonogenesis (GO:0007409)|DNA topological change (GO:0006265)|DNA unwinding involved in DNA replication (GO:0006268)|forebrain development (GO:0030900)|mitotic DNA integrity checkpoint (GO:0044774)|mitotic recombination (GO:0006312)|neuron migration (GO:0001764)|resolution of meiotic recombination intermediates (GO:0000712)|sister chromatid segregation (GO:0000819)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|DNA topoisomerase complex (ATP-hydrolyzing) (GO:0009330)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding, bending (GO:0008301)|DNA topoisomerase type II (ATP-hydrolyzing) activity (GO:0003918)|enzyme binding (GO:0019899)|histone deacetylase binding (GO:0042826)|metal ion binding (GO:0046872)|protein C-terminus binding (GO:0008022)|protein heterodimerization activity (GO:0046982)|protein kinase C binding (GO:0005080)			breast(2)|endometrium(5)|kidney(1)|large_intestine(10)|lung(14)|ovary(1)|skin(2)|stomach(1)	36					Dactinomycin(DB00970)|Daunorubicin(DB00694)|Dexrazoxane(DB00380)|Etoposide(DB00773)	GAAGGAAATGAGAAGAGATTTCCAA	0.302																																																0																																										SO:0001589	frameshift_variant	7155			X68060	CCDS46776.1	3p24.2	2012-08-30	2002-08-29		ENSG00000077097	ENSG00000077097	5.99.1.3		11990	protein-coding gene	gene with protein product		126431	"topoisomerase (DNA) II beta (180kD)"			1309226, 1333583	Standard	NM_001068		Approved		uc003cdj.3	Q02880	OTTHUMG00000155596	ENST00000264331.4:c.4341_4345delTTCTC	3.37:g.25647567_25647571delGAGAA	ENSP00000264331:p.Ser1448fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q13600|Q9UMG8|Q9UQP8	Frame_Shift_Del	DEL	ENST00000264331.4	37																																																																																					0.302	TOP2B-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding				-	25647571	GAGAA	-	25647567	7	5	645	1	0	1	0	1	0	0	0	0	16378	304	11	0	555	0	TOP2B	3	25647567	Frame_Shift_Del	DEL	GAGAA	TCGA-KL-8346-01A-11D-2310-10	1	25647567	172374863	19	39927	349	2								
ZNF35	7584	broad.mit.edu	37	chr3	44700856	44700856	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	ccacattacggaaaaatgctAtgaatgtaatgaatgtggga	10	5	0	2			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr3:44700856A>G	ENST00000396056.2	+	4	1236	c.1001A>G	c.(1000-1002)tAt>tGt	p.Y334C	RP11-944L7.4_ENST00000457331.1_RNA|ZNF35_ENST00000542250.1_Missense_Mutation_p.Y174C|ZNF35_ENST00000296092.3_3'UTR	NM_003420.3	NP_003411.3	P13682	ZNF35_HUMAN	zinc finger protein 35	334					cellular response to retinoic acid (GO:0071300)|regulation of transcription, DNA-templated (GO:0006355)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	cell (GO:0005623)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			large_intestine(3)|liver(2)|lung(4)|ovary(1)|prostate(1)|skin(1)	12		Ovarian(412;0.0228)		OV - Ovarian serous cystadenocarcinoma(275;2.49e-27)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)		GAAAAATGCTATGAATGTAAT	0.423																																																0													52	55	54					3																	44700856		2203	4300	6503	SO:0001583	missense	7584			X07289	CCDS2718.2	3p21.32	2013-01-08	2006-05-11		ENSG00000169981	ENSG00000169981		"Zinc fingers, C2H2-type"	13099	protein-coding gene	gene with protein product		194533	"zinc finger protein 35 (clone HF.10)"			2108922, 1572646	Standard	NM_003420		Approved	HF.10, HF10, Zfp105	uc003cnq.3	P13682	OTTHUMG00000133091	ENST00000396056.2:c.1001A>G	3.37:g.44700856A>G	ENSP00000379368:p.Tyr334Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBU6|Q53Y54|Q96D01	Missense_Mutation	SNP	ENST00000396056.2	37	CCDS2718.2	.	.	.	.	.	.	.	.	.	.	A	15.11	2.737589	0.49045	.	.	ENSG00000169981	ENST00000396056;ENST00000542250	T;T	0.61392	0.11;0.11	5.1	3.87	0.44632	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (2);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.42172	D	0.000754	T	0.74306	0.3699	M	0.83774	2.66	0.38106	D	0.937407	D	0.89917	1.0	D	0.91635	0.999	T	0.79090	-0.1946	10	0.72032	D	0.01	-17.2776	9.3454	0.38104	0.7633:0.0:0.0:0.2367	.	334	P13682	ZNF35_HUMAN	C	334;174	ENSP00000379368:Y334C;ENSP00000443714:Y174C	ENSP00000379368:Y334C	Y	+	2	0	ZNF35	44675860	0.057000	0.20700	1.000000	0.80357	0.994000	0.84299	0.716000	0.25836	2.279000	0.76181	0.533000	0.62120	TAT		0.423	ZNF35-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256749.4	NM_003420		G	44700856	A	G	44700856	3	3	645	1	0	0	0	0	1	0	0	0	17874	449	16	3	1011	3	ZNF35	3	44700856	Missense_Mutation	SNP	A	TCGA-KL-8346-01A-11D-2310-10	19053289	44700856	153321574	20	39928										
CHRD	8646	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr3	184100469	184100469	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	aaggccccccacagcagggcGtagggggcatcaccctgctc	13	16	1	0	rs375530942		TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr3:184100469G>A	ENST00000204604.1	+	8	1135	c.889G>A	c.(889-891)Gta>Ata	p.V297I	CHRD_ENST00000545352.1_5'UTR|CHRD_ENST00000348986.3_Missense_Mutation_p.V297I|EIF2B5_ENST00000444495.1_Intron|CHRD_ENST00000450923.1_Missense_Mutation_p.V297I	NM_003741.2	NP_003732.2	Q9H2X0	CHRD_HUMAN	chordin	297	CHRD 2. {ECO:0000255|PROSITE- ProRule:PRU00230}.				BMP signaling pathway involved in spinal cord dorsal/ventral patterning (GO:0021919)|floor plate development (GO:0033504)|forebrain development (GO:0030900)|gastrulation with mouth forming second (GO:0001702)|mesoderm formation (GO:0001707)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of cell migration (GO:0030336)|negative regulation of osteoblast differentiation (GO:0045668)|osteoblast differentiation (GO:0001649)|positive regulation of cell adhesion (GO:0045785)|positive regulation of mesenchymal cell proliferation (GO:0002053)|skeletal system development (GO:0001501)	extracellular space (GO:0005615)	cytokine binding (GO:0019955)|heparin binding (GO:0008201)			NS(1)|biliary_tract(1)|breast(2)|endometrium(2)|kidney(3)|large_intestine(5)|lung(23)|ovary(2)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	48	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ACAGCAGGGCGTAGGGGGCAT	0.597																																																0								G	ILE/VAL	0,4406		0,0,2203	67	73	71		889	0	0	3		71	1,8599	1.2+/-3.3	0,1,4299	no	missense	CHRD	NM_003741.2	29	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	benign	297/956	184100469	1,13005	2203	4300	6503	SO:0001583	missense	8646			AF076612	CCDS3266.1	3q27	2008-07-18			ENSG00000090539	ENSG00000090539			1949	protein-coding gene	gene with protein product		603475				9782094, 11472837	Standard	NM_003741		Approved		uc003fov.3	Q9H2X0	OTTHUMG00000141267	ENST00000204604.1:c.889G>A	3.37:g.184100469G>A	ENSP00000204604:p.Val297Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O95254|Q2M1I8|Q6UW83|Q9H2D3|Q9H2W8|Q9H2W9|Q9P0Z2|Q9P0Z3|Q9P0Z4|Q9P0Z5	Missense_Mutation	SNP	ENST00000204604.1	37	CCDS3266.1	.	.	.	.	.	.	.	.	.	.	G	2.523	-0.310254	0.05458	0.0	1.16E-4	ENSG00000090539	ENST00000204604;ENST00000450923;ENST00000348986	T;T;T	0.43688	0.94;0.94;0.94	5.01	0.0114	0.14087	CHRD (3);	0.610960	0.17266	N	0.180562	T	0.26268	0.0641	N	0.22421	0.69	0.09310	N	0.999998	B;B	0.11235	0.0;0.004	B;B	0.12156	0.005;0.007	T	0.17930	-1.0353	10	0.29301	T	0.29	3.3703	11.1063	0.48205	0.426:0.0:0.574:0.0	.	297;297	E7ESX1;Q9H2X0	.;CHRD_HUMAN	I	297	ENSP00000204604:V297I;ENSP00000408972:V297I;ENSP00000334036:V297I	ENSP00000204604:V297I	V	+	1	0	CHRD	185583163	0.000000	0.05858	0.005000	0.12908	0.270000	0.26580	1.059000	0.30517	-0.084000	0.12595	-1.119000	0.02030	GTA		0.597	CHRD-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000280432.1	NM_003741		A	184100469	G	A	184100469	3	1	645	1	0	0	0	0	1	0	0	0	3374	1145	40	1	919	1	CHRD	3	184100469	Missense_Mutation	SNP	G	TCGA-KL-8346-01A-11D-2310-10	139399613	184100469	13921961	21	39929										
CRIPAK	285464	mdanderson.org	37	chr4	1388524	1388524	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	cgtgtccatgtggagtgcccAcctgctcatgtgcccatgtg	12	13	1	0	rs55944930	byFrequency	TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr4:1388524A>G	ENST00000324803.4	+	1	3185	c.225A>G	c.(223-225)ccA>ccG	p.P75P		NM_175918.3	NP_787114.2	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	75					negative regulation of intracellular estrogen receptor signaling pathway (GO:0033147)|negative regulation of protein kinase activity (GO:0006469)|regulation of cytoskeleton organization (GO:0051493)|response to estrogen (GO:0043627)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				NS(3)|breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(11)|ovary(1)|pancreas(2)|prostate(6)|skin(4)|urinary_tract(1)	35			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			TGGAGTGCCCACCTGCTCATG	0.642																																																0													287	247	260					4																	1388524		2203	4300	6503	SO:0001819	synonymous_variant	285464			AK096209	CCDS3349.1	4p16.3	2011-02-10	2006-09-04		ENSG00000179979	ENSG00000179979			26619	protein-coding gene	gene with protein product		610203	"cysteine-rich PAK1inhibitor"			16278681	Standard	NM_175918		Approved	FLJ34443	uc003gdf.2	Q8N1N5	OTTHUMG00000121131	ENST00000324803.4:c.225A>G	4.37:g.1388524A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NB03	Silent	SNP	ENST00000324803.4	37	CCDS3349.1																																																																																				0.642	CRIPAK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241607.2	NM_175918		G	1388524	A	G	1388524	2	3	645	1	0	0	0	0	0	0	0	1	3879	146	6	3		3	CRIPAK	4	1388524	Silent	SNP	A	TCGA-KL-8346-01A-11D-2310-10		1388524	189765752	22	39930										
PDS5A	23244	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr4	39839775	39839775	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gctgctgttactgttcttttCtttcctcggtcactgctgat	8	11	3	1			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr4:39839775C>G	ENST00000303538.8	-	32	4250	c.3711G>C	c.(3709-3711)aaG>aaC	p.K1237N		NM_001100399.1	NP_001093869.1			PDS5, regulator of cohesion maintenance, homolog A (S. cerevisiae)											breast(2)|cervix(1)|endometrium(4)|kidney(4)|large_intestine(9)|lung(14)|prostate(3)|skin(1)|urinary_tract(1)	39						CTGTTCTTTTCTTTCCTCGGT	0.413																																																0													96	92	93					4																	39839775		1916	4133	6049	SO:0001583	missense	23244			AF294791	CCDS47045.1, CCDS54759.1	4p14	2007-06-20			ENSG00000121892	ENSG00000121892			29088	protein-coding gene	gene with protein product		613200				11076961, 15855230	Standard	NM_001100399		Approved	KIAA0648, PIG54, SCC-112	uc003guv.4	Q29RF7	OTTHUMG00000160582	ENST00000303538.8:c.3711G>C	4.37:g.39839775C>G	ENSP00000303427:p.Lys1237Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000303538.8	37	CCDS47045.1	.	.	.	.	.	.	.	.	.	.	C	20.3	3.959276	0.74016	.	.	ENSG00000121892	ENST00000303538	.	.	.	5.34	5.34	0.76211	.	0.320684	0.33309	N	0.005051	T	0.35595	0.0937	N	0.19112	0.55	0.80722	D	1	B	0.32829	0.386	B	0.31101	0.124	T	0.18272	-1.0342	8	.	.	.	-15.6347	12.8297	0.57738	0.0:0.9147:0.0:0.0852	.	1237	Q29RF7	PDS5A_HUMAN	N	1237	.	.	K	-	3	2	PDS5A	39516170	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	1.314000	0.33597	2.502000	0.84385	0.655000	0.94253	AAG		0.413	PDS5A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361287.1	NM_015200		G	39839775	C	G	39839775	3	3	645	1	0	0	0	0	1	0	0	0	11698	912	32	4	310	4	PDS5A	4	39839775	Missense_Mutation	SNP	C	TCGA-KL-8346-01A-11D-2310-10	38451251	39839775	151314501	23	39931										
PPM1K	152926	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	89199470	89199470	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	ccacattttccaagctgattTtgggaattggcttgccatac	8	10	0	1			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr4:89199470T>C	ENST00000608933.1	-	2	655	c.266A>G	c.(265-267)aAa>aGa	p.K89R	PPM1K_ENST00000506423.1_5'UTR|PPM1K_ENST00000508256.1_Intron|PPM1K_ENST00000315194.4_Missense_Mutation_p.K89R|PPM1K_ENST00000295908.7_Missense_Mutation_p.K89R|PPM1K_ENST00000514204.1_Missense_Mutation_p.K89R	NM_152542.4	NP_689755.3	Q8N3J5	PPM1K_HUMAN	protein phosphatase, Mg2+/Mn2+ dependent, 1K	89					protein dephosphorylation (GO:0006470)	mitochondrion (GO:0005739)	metal ion binding (GO:0046872)|protein serine/threonine phosphatase activity (GO:0004722)			endometrium(2)|kidney(1)|large_intestine(3)|lung(6)|urinary_tract(1)	13		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000192)		CAAGCTGATTTTGGGAATTGG	0.498																																																0													81	78	79					4																	89199470		2203	4300	6503	SO:0001583	missense	152926			BC037552	CCDS3629.1	4q22.1	2012-04-17	2010-03-05		ENSG00000163644	ENSG00000163644	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatases, Mg2+/Mn2+ dependent"	25415	protein-coding gene	gene with protein product	"PP2C-type mitochondrial phosphoprotein phosphatase", "protein phosphatase 2C kappa", "branched-chain &#945;-ketoacid dehydrogenase phosphatase"	611065	"protein phosphatase 1K (PP2C domain containing)"			22291014	Standard	NM_152542		Approved	DKFZp761G058, PP2Ckappa, hPTMP, PP2Cm, BDP	uc003hrm.5	Q8N3J5	OTTHUMG00000130952	ENST00000608933.1:c.266A>G	4.37:g.89199470T>C	ENSP00000477341:p.Lys89Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAZ1|Q05CT5|Q49AB5|Q4W5E6|Q56AN8|Q8IUZ7|Q8IXG7|Q8ND70|Q96NT4	Missense_Mutation	SNP	ENST00000608933.1	37	CCDS3629.1	.	.	.	.	.	.	.	.	.	.	T	13.94	2.386776	0.42308	.	.	ENSG00000163644	ENST00000295908;ENST00000506423;ENST00000315194	T;T;T	0.09350	2.99;2.99;2.99	4.39	4.39	0.52855	Protein phosphatase 2C-like (2);	0.165528	0.52532	D	0.000067	T	0.07369	0.0186	N	0.25890	0.77	0.47819	D	0.999524	B;B;B	0.21147	0.052;0.001;0.002	B;B;B	0.16289	0.015;0.004;0.002	T	0.24728	-1.0152	10	0.33940	T	0.23	-13.4347	7.8514	0.29457	0.0:0.0948:0.0:0.9052	.	89;89;89	Q8N3J5-2;Q8N3J5-3;Q8N3J5	.;.;PPM1K_HUMAN	R	89	ENSP00000295908:K89R;ENSP00000424155:K89R;ENSP00000324761:K89R	ENSP00000295908:K89R	K	-	2	0	PPM1K	89418494	1.000000	0.71417	1.000000	0.80357	0.950000	0.60333	6.083000	0.71326	1.984000	0.57885	0.260000	0.18958	AAA		0.498	PPM1K-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253553.4	NM_152542		C	89199470	T	C	89199470	3	2	645	1	0	0	0	0	1	0	0	0	12353	1841	64	3	876	3	PPM1K	4	89199470	Missense_Mutation	SNP	T	TCGA-KL-8346-01A-11D-2310-10	49359695	89199470	101954806	24	39932										
ANK2	287	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr4	114290874	114290874	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	cacagagaggagagctctccGcggaaaaccagcctcgtaat	11	12	1	2	rs143290935		TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr4:114290874G>A	ENST00000357077.4	+	43	11576	c.11523G>A	c.(11521-11523)ccG>ccA	p.P3841P	ANK2_ENST00000264366.6_Silent_p.P3808P|ANK2_ENST00000394537.3_Silent_p.P1756P|ANK2_ENST00000509550.1_Silent_p.P932P|ANK2_ENST00000506722.1_Silent_p.P1747P|ANK2_ENST00000510275.2_Silent_p.P408P	NM_001148.4	NP_001139.3	Q01484	ANK2_HUMAN	ankyrin 2, neuronal	3841					atrial cardiac muscle cell action potential (GO:0086014)|atrial cardiac muscle cell to AV node cell communication (GO:0086066)|atrial septum development (GO:0003283)|axon guidance (GO:0007411)|cardiac muscle contraction (GO:0060048)|cellular calcium ion homeostasis (GO:0006874)|cellular protein localization (GO:0034613)|membrane depolarization during SA node cell action potential (GO:0086046)|paranodal junction assembly (GO:0030913)|positive regulation of calcium ion transmembrane transporter activity (GO:1901021)|positive regulation of calcium ion transport (GO:0051928)|positive regulation of cation channel activity (GO:2001259)|positive regulation of gene expression (GO:0010628)|positive regulation of potassium ion transmembrane transporter activity (GO:1901018)|positive regulation of potassium ion transport (GO:0043268)|protein localization to cell surface (GO:0034394)|protein localization to endoplasmic reticulum (GO:0070972)|protein localization to M-band (GO:0036309)|protein localization to organelle (GO:0033365)|protein localization to plasma membrane (GO:0072659)|protein localization to T-tubule (GO:0036371)|protein stabilization (GO:0050821)|protein targeting to plasma membrane (GO:0072661)|regulation of calcium ion transmembrane transporter activity (GO:1901019)|regulation of calcium ion transport (GO:0051924)|regulation of cardiac muscle cell contraction (GO:0086004)|regulation of cardiac muscle cell membrane potential (GO:0086036)|regulation of cardiac muscle contraction (GO:0055117)|regulation of cardiac muscle contraction by calcium ion signaling (GO:0010882)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of heart rate (GO:0002027)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of protein stability (GO:0031647)|regulation of release of sequestered calcium ion into cytosol (GO:0051279)|regulation of ventricular cardiac muscle cell membrane repolarization (GO:0060307)|response to methylmercury (GO:0051597)|SA node cell action potential (GO:0086015)|SA node cell to atrial cardiac muscle cell communication (GO:0086070)|sarcoplasmic reticulum calcium ion transport (GO:0070296)|T-tubule organization (GO:0033292)|ventricular cardiac muscle cell action potential (GO:0086005)	A band (GO:0031672)|basolateral plasma membrane (GO:0016323)|costamere (GO:0043034)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|integral component of plasma membrane (GO:0005887)|intercalated disc (GO:0014704)|intracellular (GO:0005622)|M band (GO:0031430)|membrane raft (GO:0045121)|neuron projection (GO:0043005)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)	ATPase binding (GO:0051117)|enzyme binding (GO:0019899)|ion channel binding (GO:0044325)|potassium channel regulator activity (GO:0015459)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|biliary_tract(1)|breast(9)|central_nervous_system(10)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(54)|liver(2)|lung(112)|ovary(8)|pancreas(1)|prostate(7)|skin(11)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(10)	248		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		AGAGCTCTCCGCGGAAAACCA	0.532																																																0								G	,,	1,4405	2.1+/-5.4	0,1,2202	78	71	73		5241,11523,5268	-10.7	0	4	dbSNP_134	73	0,8600		0,0,4300	no	coding-synonymous,coding-synonymous,coding-synonymous	ANK2	NM_001127493.1,NM_001148.4,NM_020977.3	,,	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	,,	1747/1864,3841/3958,1756/1873	114290874	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	287			M37123	CCDS3702.1, CCDS43261.1, CCDS54796.1	4q25-q26	2014-09-17	2003-03-12		ENSG00000145362	ENSG00000145362		"Ankyrin repeat domain containing"	493	protein-coding gene	gene with protein product		106410	"long (electrocardiographic) QT syndrome 4"	LQT4		7485162, 12571597	Standard	NM_001148		Approved		uc003ibe.4	Q01484	OTTHUMG00000132912	ENST00000357077.4:c.11523G>A	4.37:g.114290874G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q01485|Q08AC7|Q08AC8|Q7Z3L5	Silent	SNP	ENST00000357077.4	37	CCDS3702.1	.	.	.	.	.	.	.	.	.	.	G	3.722	-0.057433	0.07317	2.27E-4	0.0	ENSG00000145362	ENST00000514960	.	.	.	5.37	-10.7	0.00240	.	.	.	.	.	T	0.14960	0.0361	.	.	.	0.22446	N	0.999094	.	.	.	.	.	.	T	0.06006	-1.0851	4	.	.	.	.	2.4666	0.04554	0.2618:0.2678:0.3197:0.1507	.	.	.	.	T	758	.	.	A	+	1	0	ANK2	114510323	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.816000	0.01720	-4.027000	0.00080	-2.218000	0.00297	GCG		0.532	ANK2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256422.2	NM_001148		A	114290874	G	A	114290874	2	1	645	1	0	0	0	0	0	0	0	1	621	1074	38	1		1	ANK2	4	114290874	Silent	SNP	G	TCGA-KL-8346-01A-11D-2310-10	25091404	114290874	76863402	25	39933										
PCDHA9	9752	mdanderson.org	37	chr5	140228473	140228473	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gacattaacgacaaccctccAgtgttcccagcgacacaaaa	6	14	0	0	rs364063		TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr5:140228473A>G	ENST00000532602.1	+	1	1426	c.393A>G	c.(391-393)ccA>ccG	p.P131P	PCDHA1_ENST00000394633.3_Intron|PCDHA4_ENST00000530339.1_Intron|PCDHA8_ENST00000531613.1_Intron|PCDHA7_ENST00000525929.1_Intron|PCDHA1_ENST00000504120.2_Intron|PCDHA9_ENST00000378122.3_Silent_p.P131P|PCDHA4_ENST00000512229.2_Intron|PCDHA2_ENST00000526136.1_Intron|PCDHA6_ENST00000527624.1_Intron|PCDHA6_ENST00000529310.1_Intron|PCDHA5_ENST00000529859.1_Intron|PCDHA5_ENST00000529619.1_Intron|PCDHA3_ENST00000522353.2_Intron	NM_031857.1	NP_114063.1	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9	131	Cadherin 1. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(1)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(17)|lung(18)|ovary(4)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	59			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAACCCTCCAGTGTTCCCAG	0.572																																					Melanoma(55;1800 1972 14909)											0													124	109	114					5																	140228473		2197	4265	6462	SO:0001819	synonymous_variant	9752			AF152487	CCDS54920.1	5q31	2010-11-26				ENSG00000204961		"Cadherins / Protocadherins : Clustered"	8675	other	complex locus constituent	"KIAA0345-like 5"	606315				10380929	Standard	NM_031857		Approved	KIAA0345, PCDH-ALPHA9		Q9Y5H5		ENST00000532602.1:c.393A>G	5.37:g.140228473A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O15053|Q2M3S5	Silent	SNP	ENST00000532602.1	37	CCDS54920.1																																																																																				0.572	PCDHA9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372896.2	NM_031857		G	140228473	A	G	140228473	2	3	645	1	0	0	0	0	0	0	0	1	11538	175	7	3		3	PCDHA9	5	140228473	Silent	SNP	A	TCGA-KL-8346-01A-11D-2310-10		140228473	40686787	26	39934										
ATP10B	23120	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr5	160044894	160044894	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	cttggcaatgcatagtgtgcGcaggccatctcttgcataca	10	11	1	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr5:160044894G>A	ENST00000327245.5	-	16	3349	c.2503C>T	c.(2503-2505)Cgc>Tgc	p.R835C	CTC-348L5.1_ENST00000523598.1_RNA	NM_025153.2	NP_079429.2	O94823	AT10B_HUMAN	ATPase, class V, type 10B	835					phospholipid translocation (GO:0045332)	cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|liver(2)|lung(37)|ovary(4)|pancreas(1)|prostate(5)|skin(3)|stomach(1)	75	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)			CATAGTGTGCGCAGGCCATCT	0.423																																																0													161	155	157					5																	160044894		1876	4106	5982	SO:0001583	missense	23120			AB018258	CCDS43394.1	5q34	2010-04-20	2007-09-19		ENSG00000118322	ENSG00000118322		"ATPases / P-type"	13543	protein-coding gene	gene with protein product			"ATPase, Class V, type 10B"			9872452, 11015572	Standard	NM_025153		Approved	ATPVB, KIAA0715, FLJ21477	uc003lym.1	O94823	OTTHUMG00000163551	ENST00000327245.5:c.2503C>T	5.37:g.160044894G>A	ENSP00000313600:p.Arg835Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H725	Missense_Mutation	SNP	ENST00000327245.5	37	CCDS43394.1	.	.	.	.	.	.	.	.	.	.	G	16.27	3.076744	0.55753	.	.	ENSG00000118322	ENST00000327245;ENST00000520108	D;D	0.87491	-2.26;-2.26	5.06	2.9	0.33743	ATPase, cation-transporting, domain N (1);HAD-like domain (1);ATPase, P-type, cytoplasmic domain N (1);	0.000000	0.85682	D	0.000000	D	0.95576	0.8562	H	0.97783	4.075	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	D	0.96374	0.9276	9	.	.	.	.	12.6608	0.56813	0.0:0.0:0.573:0.427	.	443;835	Q2YDW8;O94823	.;AT10B_HUMAN	C	835;443	ENSP00000313600:R835C;ENSP00000431081:R443C	.	R	-	1	0	ATP10B	159977472	0.987000	0.35691	0.359000	0.25824	0.612000	0.37316	1.931000	0.40134	1.225000	0.43566	0.650000	0.86243	CGC		0.423	ATP10B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374127.1	NM_025153		A	160044894	G	A	160044894	3	1	645	1	0	0	0	0	1	0	0	0	1117	1087	38	1	1926	1	ATP10B	5	160044894	Missense_Mutation	SNP	G	TCGA-KL-8346-01A-11D-2310-10	19816421	160044894	20870366	27	39935										
C6orf145	221749	ucsc.edu	37	chr6	3751696	3751696	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gctgacgatgagcctgcggaTgccgttcacccagcagccgc	13	15	1	2			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr6:3751696T>C	ENST00000380283.4	-	1	564	c.70A>G	c.(70-72)Atc>Gtc	p.I24V	RP11-420L9.5_ENST00000603791.1_RNA|PXDC1_ENST00000477592.2_5'UTR	NM_183373.3	NP_899229.2	Q5TGL8	PXDC1_HUMAN	PX domain containing 1	24	PX.						phosphatidylinositol binding (GO:0035091)										AGCCTGCGGATGCCGTTCACC	0.677																																																0													15	14	14					6																	3751696		2155	4226	6381	SO:0001583	missense	221749			AJ420534	CCDS4486.1	6p25.1	2011-11-25	2011-11-25	2011-11-25	ENSG00000168994	ENSG00000168994			21361	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 145"	C6orf145			Standard	NM_183373		Approved		uc003mvt.2	Q5TGL8	OTTHUMG00000014146	ENST00000380283.4:c.70A>G	6.37:g.3751696T>C	ENSP00000369636:p.Ile24Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0N3|Q6PGP0|Q86XB7	Missense_Mutation	SNP	ENST00000380283.4	37	CCDS4486.1	.	.	.	.	.	.	.	.	.	.	T	15.61	2.885704	0.51908	.	.	ENSG00000168994	ENST00000380283	T	0.68765	-0.35	3.74	2.57	0.30868	Phox homologous domain (1);	0.113419	0.64402	N	0.000018	T	0.39627	0.1085	L	0.57536	1.79	0.49213	D	0.999761	B	0.02656	0.0	B	0.10450	0.005	T	0.25363	-1.0134	10	0.19590	T	0.45	-14.2727	8.9994	0.36072	0.0:0.0905:0.0:0.9095	.	24	Q5TGL8	CF145_HUMAN	V	24	ENSP00000369636:I24V	ENSP00000369636:I24V	I	-	1	0	C6orf145	3696695	1.000000	0.71417	0.997000	0.53966	0.989000	0.77384	2.452000	0.44961	0.464000	0.27142	0.372000	0.22366	ATC		0.677	PXDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039688.1	NM_183373		C	3751696	T	C	3751696	3	2	645	1	0	0	0	0	1	0	0	0	2336	1464	51	3	645	3	C6orf145	6	3751696	Missense_Mutation	SNP	T	TCGA-KL-8346-01A-11D-2310-10		3751696	167363371	28	39936										
FAM65B	9750	ucsc.edu	37	chr6	24825517	24825517	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	agcgtcacagcctcactaacTtcgttgtcctctctggttaa	7	13	3	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr6:24825517T>C	ENST00000259698.4	-	20	3043	c.2868A>G	c.(2866-2868)gaA>gaG	p.E956E	FAM65B_ENST00000538035.1_Silent_p.E935E	NM_014722.2	NP_055537.2	Q9Y4F9	FA65B_HUMAN	family with sequence similarity 65, member B	956					cell differentiation (GO:0030154)|muscle organ development (GO:0007517)	cell projection (GO:0042995)|cytoskeleton (GO:0005856)|mitochondrion (GO:0005739)				breast(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(10)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	25						CCTCACTAACTTCGTTGTCCT	0.502																																																0													161	130	140					6																	24825517		692	1591	2283	SO:0001819	synonymous_variant	9750			U49187	CCDS47383.1, CCDS47384.1, CCDS69057.1, CCDS69058.1, CCDS75410.1	6p22.3-p21.32	2012-11-30	2008-06-13	2008-06-13	ENSG00000111913	ENSG00000111913			13872	protein-coding gene	gene with protein product	"myogenesis-related and NCAM-associated protein homolog (chicken)"	611410	"chromosome 6 open reading frame 32"	C6orf32		9205841, 17150207, 17825087	Standard	NM_001286447		Approved	KIAA0386, DIFF48, MYONAP	uc003neo.1	Q9Y4F9	OTTHUMG00000014375	ENST00000259698.4:c.2868A>G	6.37:g.24825517T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NHP2|Q13529|Q5VV37|Q5VV38|Q9BQ28	Silent	SNP	ENST00000259698.4	37	CCDS47383.1																																																																																				0.502	FAM65B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040024.2			C	24825517	T	C	24825517	2	2	645	1	0	0	0	0	0	0	0	1	5607	1606	56	3		3	FAM65B	6	24825517	Silent	SNP	T	TCGA-KL-8346-01A-11D-2310-10	21073821	24825517	146289550	29	39937										
TNXB	7146	broad.mit.edu	37	chr6	31977381	31977381	+	5'Flank	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	tccctccagaagtctgtctgTccatccatgcggcgctggaa	10	14	2	1			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr6:31977381T>C	ENST00000594256.1	-	0	0				CYP21A1P_ENST00000342991.6_RNA																							AGTCTGTCTGTCCATCCATGC	0.622																																																0																																										SO:0001631	upstream_gene_variant	7148																															6.37:g.31977381T>C	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I		RNA	SNP	ENST00000594256.1	37																																																																																					0.622	AL645922.1-201	NOVEL	basic|appris_principal	protein_coding	protein_coding				C	31977381	T	C	31977381	1	2	645	0	1	0	0	0	0	0	0	0	16358	1654	58	3		3	TNXB	6	31977381	5'Flank	SNP	T	TCGA-KL-8346-01A-11D-2310-10	7151864	31977381	139137686	30	39938										
RADIL	55698	bcgsc.ca	37	chr7	4917349	4917349	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	tccataattcctggatcaagAggggcttctcactgtcccca	8	13	2	1			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr7:4917349A>G	ENST00000399583.3	-	2	609	c.422T>C	c.(421-423)cTc>cCc	p.L141P	RADIL_ENST00000536091.1_Missense_Mutation_p.L141P	NM_018059.4	NP_060529.4	Q96JH8	RADIL_HUMAN	Ras association and DIL domains	141	Ras-associating. {ECO:0000255|PROSITE- ProRule:PRU00166}.				multicellular organismal development (GO:0007275)|signal transduction (GO:0007165)|substrate adhesion-dependent cell spreading (GO:0034446)	microtubule (GO:0005874)				NS(1)|biliary_tract(2)|breast(1)|central_nervous_system(3)|endometrium(2)|large_intestine(2)|lung(22)|pancreas(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	41		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		CTGGATCAAGAGGGGCTTCTC	0.617																																																0													60	67	65					7																	4917349		1940	4139	6079	SO:0001583	missense	55698			AB058752	CCDS43544.1	7p22.1	2010-08-27			ENSG00000157927	ENSG00000157927			22226	protein-coding gene	gene with protein product		611491				16051602, 17704304	Standard	NM_018059		Approved	FLJ10324, KIAA1849, RASIP2	uc003snj.1	Q96JH8	OTTHUMG00000151753	ENST00000399583.3:c.422T>C	7.37:g.4917349A>G	ENSP00000382492:p.Leu141Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1Z5|A5YM49|B7ZL20|Q0VFZ9|Q75LH3|Q9BSP5|Q9H0M6|Q9NW43|Q9NWC4	Missense_Mutation	SNP	ENST00000399583.3	37	CCDS43544.1	.	.	.	.	.	.	.	.	.	.	A	22.0	4.224795	0.79576	.	.	ENSG00000157927	ENST00000399583;ENST00000316919;ENST00000536091	T;T	0.26957	1.7;1.7	5.84	5.84	0.93424	Ras-association (3);	0.000000	0.85682	D	0.000000	T	0.57489	0.2057	M	0.86651	2.83	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.65170	-0.6233	10	0.87932	D	0	-47.2017	15.3975	0.74808	1.0:0.0:0.0:0.0	.	141	Q96JH8	RADIL_HUMAN	P	141;115;141	ENSP00000382492:L141P;ENSP00000442533:L141P	ENSP00000320946:L115P	L	-	2	0	RADIL	4883875	1.000000	0.71417	0.999000	0.59377	0.710000	0.40934	8.943000	0.92975	2.235000	0.73313	0.459000	0.35465	CTC		0.617	RADIL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323769.2	NM_018059		G	4917349	A	G	4917349	3	3	645	1	0	0	0	0	1	0	0	0	13010	304	11	3	2861	3	RADIL	7	4917349	Missense_Mutation	SNP	A	TCGA-KL-8346-01A-11D-2310-10		4917349	154221314	31	39939										
WBSCR27	155368	hgsc.bcm.edu	37	chr7	73254452	73254455	+	Splice_Site	DEL	TGTG	TGTG	-													0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	agcaccgcgtcgaaggtcccTgtgtgtgtgtgggggggggt					rs375025208		TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	TGTG	TGTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr7:73254452_73254455delTGTG	ENST00000297873.4	-	5	438		c.e5-2			NM_152559.2	NP_689772.2	Q8N6F8	WBS27_HUMAN	Williams Beuren syndrome chromosome region 27											NS(1)|central_nervous_system(1)|lung(2)|prostate(1)	5		Lung NSC(55;0.159)				CGAAGGTCCCTGTGTGTGTGTGGG	0.608																																																0																																										SO:0001630	splice_region_variant	155368			AF534110	CCDS5561.1	7q11.23	2004-07-05			ENSG00000165171	ENSG00000165171			19068	protein-coding gene	gene with protein product		612546					Standard	NM_152559		Approved		uc003tzj.2	Q8N6F8	OTTHUMG00000130033	ENST00000297873.4:c.389-2CACA>-	7.37:g.73254460_73254463delTGTG		Somatic		WXS	Illumina HiSeq	Phase_I		Splice_Site	DEL	ENST00000297873.4	37	CCDS5561.1																																																																																				0.608	WBSCR27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252312.1	NM_152559	Intron	-	73254455	TGTG	-	73254452	8	5	645	1	0	1	0	1	0	0	1	0	17278	1594	55	0	358	0	WBSCR27	7	73254452	Splice_Site	DEL	TGTG	TCGA-KL-8346-01A-11D-2310-10	68337103	73254452	85884211	32	39940										
PRSS1	5644	mdanderson.org	37	chr7	142459667	142459667	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gagcacaacatcgaagtcctGgaggggaatgagcagttcat	13	8	1	1	rs142476093		TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr7:142459667G>A	ENST00000311737.7	+	3	249	c.243G>A	c.(241-243)ctG>ctA	p.L81L	PRSS1_ENST00000486171.1_Silent_p.L95L	NM_002769.4	NP_002760.1	P07477	TRY1_HUMAN	protease, serine, 1 (trypsin 1)	81	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	metal ion binding (GO:0046872)|serine-type endopeptidase activity (GO:0004252)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(24)|prostate(2)	38	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)		Aprotinin(DB06692)	TCGAAGTCCTGGAGGGGAATG	0.542																																																0													213	200	204					7																	142459667		2203	4300	6503	SO:0001819	synonymous_variant	5644			M22612	CCDS5872.1	7q34	2012-10-02			ENSG00000204983	ENSG00000204983	3.4.21.4	"Serine peptidases / Serine peptidases"	9475	protein-coding gene	gene with protein product		276000		TRY1			Standard	NM_002769		Approved		uc003wak.2	P07477	OTTHUMG00000158923	ENST00000311737.7:c.243G>A	7.37:g.142459667G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A1A509|A6NJ71|B2R5I5|Q5NV57|Q7M4N3|Q7M4N4|Q92955|Q9HAN4|Q9HAN5|Q9HAN6|Q9HAN7	Silent	SNP	ENST00000311737.7	37	CCDS5872.1																																																																																				0.542	PRSS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352538.2			A	142459667	G	A	142459667	2	1	645	1	0	0	0	0	0	0	0	1	12624	1335	47	2		2	PRSS1	7	142459667	Silent	SNP	G	TCGA-KL-8346-01A-11D-2310-10	69205215	142459667	16678996	33	39941										
ADRA1A	148	broad.mit.edu	37	chr8	26722373	26722373	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	atgttacccagcaccccgaaAagaatgaggccccccaagat	8	14	0	3			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr8:26722373A>C	ENST00000519229.1	-	1	120	c.114T>G	c.(112-114)ctT>ctG	p.L38L	ADRA1A_ENST00000380572.3_Silent_p.L38L|ADRA1A_ENST00000380586.1_Silent_p.L38L|ADRA1A_ENST00000380587.1_Silent_p.L38L|ADRA1A_ENST00000380582.3_Silent_p.L38L|ADRA1A_ENST00000358857.5_Silent_p.L38L|ADRA1A_ENST00000354550.4_Silent_p.L38L|ADRA1A_ENST00000380581.2_Silent_p.L38L|ADRA1A_ENST00000380573.3_Silent_p.L38L|ADRA1A_ENST00000276393.4_Silent_p.L38L			P25100	ADA1D_HUMAN	adrenoceptor alpha 1A	108				MTFRDLLSVSFEGPRPDSSAGGSSAGGGGGSAGGAAPSEGP AVGGVPGGAGGGGGVVGAGSGEDNRSSAGEPGSAGAGGDVN G -> MAAALRSVMMAGYLSEWRTPTYRSTEMVQRLRMEAV QHSTS (in Ref. 1). {ECO:0000305}.	adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|adrenergic receptor signaling pathway (GO:0071875)|cell proliferation (GO:0008283)|cell-cell signaling (GO:0007267)|DNA metabolic process (GO:0006259)|G-protein coupled receptor signaling pathway (GO:0007186)|multicellular organismal development (GO:0007275)|negative regulation of the force of heart contraction involved in baroreceptor response to increased systemic arterial blood pressure (GO:0001986)|norepinephrine-epinephrine vasoconstriction involved in regulation of systemic arterial blood pressure (GO:0001994)|positive regulation of cell proliferation (GO:0008284)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	alpha1-adrenergic receptor activity (GO:0004937)			breast(2)|endometrium(3)|kidney(1)|large_intestine(10)|lung(17)|ovary(1)|prostate(1)|skin(1)	36		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Amphetamine(DB00182)|Bromocriptine(DB01200)|Cabergoline(DB00248)|Carvedilol(DB01136)|Chlorpromazine(DB00477)|Clonidine(DB00575)|Dapiprazole(DB00298)|Desipramine(DB01151)|Doxazosin(DB00590)|Doxepin(DB01142)|Dronedarone(DB04855)|Droxidopa(DB06262)|Epinephrine(DB00668)|Ergoloid mesylate(DB01049)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Imipramine(DB00458)|Labetalol(DB00598)|Maprotiline(DB00934)|Mephentermine(DB01365)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Mianserin(DB06148)|Midodrine(DB00211)|Mirtazapine(DB00370)|Nicardipine(DB00622)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Oxymetazoline(DB00935)|Pergolide(DB01186)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Prazosin(DB00457)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Sertindole(DB06144)|Silodosin(DB06207)|Tamsulosin(DB00706)|Terazosin(DB01162)|Xylometazoline(DB06694)	GCACCCCGAAAAGAATGAGGC	0.592																																																0													192	214	207					8																	26722373		2203	4300	6503	SO:0001819	synonymous_variant	148			L31774	CCDS6052.1, CCDS6053.1, CCDS6054.1, CCDS34869.1	8p21.2	2012-08-08	2012-05-09		ENSG00000120907	ENSG00000120907		"GPCR / Class A : Adrenoceptors : alpha"	277	protein-coding gene	gene with protein product		104221	"adrenergic, alpha-1A-, receptor"	ADRA1C			Standard	NM_033303		Approved	ADRA1L1	uc003xfh.1	P35348	OTTHUMG00000099459	ENST00000519229.1:c.114T>G	8.37:g.26722373A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NPY0	Silent	SNP	ENST00000519229.1	37																																																																																					0.592	ADRA1A-009	PUTATIVE	not_organism_supported|basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000376207.1	NM_033303		C	26722373	A	C	26722373	2	2	645	1	0	0	0	0	0	0	0	1	334	1	1	5		5	ADRA1A	8	26722373	Silent	SNP	A	TCGA-KL-8346-01A-11D-2310-10		26722373	119641649	34	39942										
KCNV1	27012	broad.mit.edu	37	chr8	110980349	110980349	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	atcatctcccccgctgctccTagtacttgctctttctctgc	5	17	4	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr8:110980349T>C	ENST00000524391.1	-	4	2503	c.1471A>G	c.(1471-1473)Agg>Ggg	p.R491G	KCNV1_ENST00000297404.1_Missense_Mutation_p.R491G			Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	491					potassium ion transport (GO:0006813)|protein homooligomerization (GO:0051260)|synaptic transmission (GO:0007268)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|ion channel inhibitor activity (GO:0008200)|potassium channel regulator activity (GO:0015459)			breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(20)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	37	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			CCGCTGCTCCTAGTACTTGCT	0.378																																																0													72	69	70					8																	110980349		2203	4300	6503	SO:0001583	missense	27012			AF167082	CCDS6314.1	8q23.2	2011-07-05				ENSG00000164794		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	18861	protein-coding gene	gene with protein product		608164				8670833, 16382104	Standard	NM_014379		Approved	Kv8.1	uc003ynr.4	Q6PIU1		ENST00000524391.1:c.1471A>G	8.37:g.110980349T>C	ENSP00000435954:p.Arg491Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UHJ4	Missense_Mutation	SNP	ENST00000524391.1	37	CCDS6314.1	.	.	.	.	.	.	.	.	.	.	T	17.22	3.334246	0.60853	.	.	ENSG00000164794	ENST00000524391;ENST00000297404;ENST00000545728	D;D	0.97850	-4.57;-4.57	5.4	4.21	0.49690	.	0.196595	0.43919	D	0.000513	D	0.96442	0.8839	N	0.24115	0.695	0.50813	D	0.999896	D	0.54601	0.967	P	0.60789	0.879	D	0.94623	0.7815	10	0.31617	T	0.26	.	11.6047	0.51024	0.0:0.0:0.1493:0.8507	.	491	Q6PIU1	KCNV1_HUMAN	G	491;491;367	ENSP00000435954:R491G;ENSP00000297404:R491G	ENSP00000297404:R491G	R	-	1	2	KCNV1	111049525	0.963000	0.33076	0.982000	0.44146	0.822000	0.46500	1.880000	0.39628	0.842000	0.35045	0.460000	0.39030	AGG		0.378	KCNV1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385525.1	NM_014379		C	110980349	T	C	110980349	3	2	645	1	0	0	0	0	1	0	0	0	8101	1521	53	3	35	3	KCNV1	8	110980349	Missense_Mutation	SNP	T	TCGA-KL-8346-01A-11D-2310-10	84257976	110980349	35383673	35	39943										
GDA	9615	ucsc.edu;bcgsc.ca	37	chr9	74842929	74842929	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	ccatgaacgaggagcatccaTcgcacactgtcccaattcta	7	14	1	1			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr9:74842929T>C	ENST00000358399.3	+	9	986	c.893T>C	c.(892-894)aTc>aCc	p.I298T	GDA_ENST00000545168.1_Missense_Mutation_p.I224T|GDA_ENST00000376986.1_Missense_Mutation_p.I220T|GDA_ENST00000376989.3_Missense_Mutation_p.I237T|GDA_ENST00000477618.1_3'UTR|GDA_ENST00000238018.4_Missense_Mutation_p.I298T	NM_001242505.2|NM_001242506.2|NM_004293.4	NP_001229434.1|NP_001229435.1|NP_004284.1	Q9Y2T3	GUAD_HUMAN	guanine deaminase	298					guanine catabolic process (GO:0006147)|nervous system development (GO:0007399)|nucleobase-containing compound metabolic process (GO:0006139)|nucleobase-containing small molecule metabolic process (GO:0055086)|purine nucleobase metabolic process (GO:0006144)|purine nucleotide catabolic process (GO:0006195)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)	guanine deaminase activity (GO:0008892)|zinc ion binding (GO:0008270)			central_nervous_system(4)|endometrium(1)|kidney(1)|large_intestine(1)|lung(20)|ovary(2)|skin(2)|urinary_tract(1)	32		Myeloproliferative disorder(762;0.0122)		Lung(182;0.0583)		GGAGCATCCATCGCACACTGT	0.453																																																0													135	105	115					9																	74842929		2203	4300	6503	SO:0001583	missense	9615			AF095286	CCDS6641.1, CCDS56576.1, CCDS56577.1	9q21.13	2008-05-14			ENSG00000119125	ENSG00000119125			4212	protein-coding gene	gene with protein product		139260				10075721, 3966794	Standard	NM_001242507		Approved		uc004air.3	Q9Y2T3	OTTHUMG00000020005	ENST00000358399.3:c.893T>C	9.37:g.74842929T>C	ENSP00000351170:p.Ile298Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTY5|Q5SZC7|Q9H335|Q9ULG2	Missense_Mutation	SNP	ENST00000358399.3	37	CCDS6641.1	.	.	.	.	.	.	.	.	.	.	T	19.85	3.903144	0.72754	.	.	ENSG00000119125	ENST00000545168;ENST00000238018;ENST00000376989;ENST00000376986;ENST00000358399;ENST00000414671;ENST00000436438	D;D;D;D;D;D;D	0.91011	-2.77;-2.77;-2.77;-2.77;-2.77;-2.77;-2.77	5.51	5.51	0.81932	Amidohydrolase 1 (1);	0.120479	0.64402	D	0.000015	D	0.96228	0.8770	M	0.93898	3.47	0.47621	D	0.99947	D;D;D	0.65815	0.976;0.994;0.995	D;D;D	0.70487	0.952;0.948;0.969	D	0.97056	0.9767	10	0.87932	D	0	-7.2766	13.4407	0.61112	0.0:0.0:0.0:1.0	.	220;298;298	Q5SZC6;Q9Y2T3-3;Q9Y2T3	.;.;GUAD_HUMAN	T	224;298;237;220;298;164;6	ENSP00000437972:I224T;ENSP00000238018:I298T;ENSP00000366188:I237T;ENSP00000366185:I220T;ENSP00000351170:I298T;ENSP00000403897:I164T;ENSP00000400857:I6T	ENSP00000238018:I298T	I	+	2	0	GDA	74032749	0.999000	0.42202	0.668000	0.29813	0.942000	0.58702	5.576000	0.67437	2.210000	0.71456	0.533000	0.62120	ATC		0.453	GDA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052633.1			C	74842929	T	C	74842929	3	2	645	1	0	0	0	0	1	0	0	0	6313	1435	50	3	927	3	GDA	9	74842929	Missense_Mutation	SNP	T	TCGA-KL-8346-01A-11D-2310-10		74842929	66370502	36	39944										
DUPD1	338599	mdanderson.org;bcgsc.ca	37	chr10	76803567	76803567	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	tctcttactgtggtcgtcgcTtagcgctctgtcgatgaagg	12	10	2	1	rs16931938	byFrequency	TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr10:76803567T>G	ENST00000338487.5	-	2	408	c.409A>C	c.(409-411)Agc>Cgc	p.S137R		NM_001003892.1	NP_001003892.1	Q68J44	DUPD1_HUMAN	dual specificity phosphatase and pro isomerase domain containing 1	137	Tyrosine-protein phosphatase.		S -> R (in dbSNP:rs16931938).		protein dephosphorylation (GO:0006470)	cytoplasm (GO:0005737)	protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)			breast(1)|endometrium(2)|lung(5)|ovary(2)|urinary_tract(1)	11	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					TGGTCGTCGCTTAGCGCTCTG	0.706													G|||	1507	0.300919	0.6543	0.2061	5008	,	,		6796	0.2738		0.0457	False		,,,				2504	0.181															0								G	ARG/SER	2448,1958	550.5+/-378.0	702,1044,457	67	60	62		409	-1.6	0	10	dbSNP_123	62	425,8175	797.7+/-407.4	11,403,3886	yes	missense	DUPD1	NM_001003892.1	110	713,1447,4343	GG,GT,TT		4.9419,44.4394,22.0898	benign	137/221	76803567	2873,10133	2203	4300	6503	SO:0001583	missense	338599				CCDS31223.1	10q22.3	2011-06-09			ENSG00000188716	ENSG00000188716		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Atypical dual specificity phosphatases"	23481	protein-coding gene	gene with protein product							Standard	NM_001003892		Approved	DUSP27	uc001jwq.1	Q68J44	OTTHUMG00000018512	ENST00000338487.5:c.409A>C	10.37:g.76803567T>G	ENSP00000340609:p.Ser137Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP93	Missense_Mutation	SNP	ENST00000338487.5	37	CCDS31223.1	608	0.2783882783882784	335	0.6808943089430894	71	0.19613259668508287	171	0.29895104895104896	31	0.040897097625329816	G	10.15	1.270877	0.23221	0.555606	0.049419	ENSG00000188716	ENST00000338487	T	0.61392	0.11	4.63	-1.65	0.08291	Dual specificity phosphatase, catalytic domain (1);Protein-tyrosine/Dual-specificity phosphatase (1);Dual specificity phosphatase, subgroup, catalytic domain (2);	0.810313	0.11263	N	0.582345	T	0.00012	0.0000	L	0.48260	1.515	0.80722	P	0.0	B	0.02656	0.0	B	0.04013	0.001	T	0.44967	-0.9293	9	0.23891	T	0.37	-0.524	13.1202	0.59321	0.0:0.0959:0.2121:0.692	rs16931938;rs52825920;rs16931938	137	Q68J44	DUPD1_HUMAN	R	137	ENSP00000340609:S137R	ENSP00000340609:S137R	S	-	1	0	DUPD1	76473573	0.003000	0.15002	0.000000	0.03702	0.002000	0.02628	0.125000	0.15749	-0.950000	0.03659	-0.847000	0.03039	AGC		0.706	DUPD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048777.2	XM_291741		G	76803567	T	G	76803567	3	3	645	1	0	0	0	0	1	0	0	0	4806	1609	56	5	261	5	DUPD1	10	76803567	Missense_Mutation	SNP	T	TCGA-KL-8346-01A-11D-2310-10		76803567	58731180	37	39945										
FAM35A	54537	broad.mit.edu	37	chr10	88911469	88911469	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gtgatataactagctctaatAtgcaaatatgtggatttaaa	7	4	1	1			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr10:88911469A>G	ENST00000298784.1	+	3	472	c.358A>G	c.(358-360)Atg>Gtg	p.M120V	RN7SL733P_ENST00000582253.1_RNA|FAM35A_ENST00000298786.4_Missense_Mutation_p.M120V	NM_019054.2	NP_061927.2	Q86V20	FA35A_HUMAN	family with sequence similarity 35, member A	120										endometrium(2)|kidney(2)|large_intestine(5)|lung(1)|ovary(2)|prostate(2)|skin(2)	16						TAGCTCTAATATGCAAATATG	0.348																																					Ovarian(175;703 2004 25460 32514 43441)											0													34	36	35					10																	88911469		2200	4296	6496	SO:0001583	missense	54537			BC051863	CCDS7383.1	10q23.2	2010-06-02			ENSG00000122376	ENSG00000122376			28773	protein-coding gene	gene with protein product						8619474, 9110174	Standard	NM_019054		Approved	MGC5560, bA163M19.1, FAM35A1	uc001kei.4	Q86V20	OTTHUMG00000018669	ENST00000298784.1:c.358A>G	10.37:g.88911469A>G	ENSP00000298784:p.Met120Val	Somatic		WXS	Illumina HiSeq	Phase_I	O95885|Q9H991	Missense_Mutation	SNP	ENST00000298784.1	37	CCDS7383.1	.	.	.	.	.	.	.	.	.	.	a	4.716	0.133084	0.09032	.	.	ENSG00000122376	ENST00000298786;ENST00000298784;ENST00000358313	T;T;T	0.20738	2.05;2.05;2.05	4.07	2.16	0.27623	.	1.188700	0.06644	N	0.761566	T	0.12561	0.0305	N	0.16368	0.405	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.32640	-0.9899	10	0.37606	T	0.19	0.3866	3.8289	0.08865	0.2118:0.0:0.5451:0.2432	.	120	Q86V20	FA35A_HUMAN	V	120	ENSP00000298786:M120V;ENSP00000298784:M120V;ENSP00000351064:M120V	ENSP00000298784:M120V	M	+	1	0	FAM35A	88901449	0.002000	0.14202	0.001000	0.08648	0.031000	0.12232	1.098000	0.31000	0.369000	0.24510	-0.540000	0.04249	ATG		0.348	FAM35A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049196.2	NM_019054		G	88911469	A	G	88911469	3	3	645	1	0	0	0	0	1	0	0	0	5560	449	16	3	360	3	FAM35A	10	88911469	Missense_Mutation	SNP	A	TCGA-KL-8346-01A-11D-2310-10	12107902	88911469	46623278	38	39946										
C10orf91	170393	ucsc.edu	37	chr10	134261475	134261475	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	cccgtggtagatcaagcctcAcaggcggctggaagagccag	14	12	2	2			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr10:134261475A>G	ENST00000392630.3	+	3	409	c.348A>G	c.(346-348)tcA>tcG	p.S116S	C10orf91_ENST00000321248.2_Silent_p.S116S	NM_173541.2	NP_775812.1	Q5T1B1	CJ091_HUMAN	chromosome 10 open reading frame 91	116										endometrium(1)|kidney(1)|lung(1)|ovary(2)	5		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;6.95e-05)|Epithelial(32;0.000142)|all cancers(32;0.000162)		ATCAAGCCTCACAGGCGGCTG	0.672																																																0													49	63	58					10																	134261475		2202	4296	6498	SO:0001819	synonymous_variant	170393			BC030794	CCDS7668.1	10q26.3	2004-03-16			ENSG00000180066	ENSG00000180066			27275	protein-coding gene	gene with protein product						12477932	Standard	NM_173541		Approved	bA432J24.4	uc001llm.3	Q5T1B1	OTTHUMG00000019289	ENST00000392630.3:c.348A>G	10.37:g.134261475A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N0T7	Silent	SNP	ENST00000392630.3	37	CCDS7668.1																																																																																				0.672	C10orf91-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051078.2	NM_173541		G	134261475	A	G	134261475	2	3	645	1	0	0	0	0	0	0	0	1	1626	146	6	3		3	C10orf91	10	134261475	Silent	SNP	A	TCGA-KL-8346-01A-11D-2310-10	45350006	134261475	1273272	39	39947										
TPH1	7166	ucsc.edu	37	chr11	18044471	18044471	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	ttactttggcatgtccagaaAgtgcatgctagaagacaaag	10	7	0	3			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr11:18044471A>G	ENST00000250018.2	-	9	1596	c.1034T>C	c.(1033-1035)cTt>cCt	p.L345P	RP1-59M18.2_ENST00000525523.1_RNA|TPH1_ENST00000341556.2_Missense_Mutation_p.L345P|TPH1_ENST00000525406.1_5'UTR	NM_004179.2	NP_004170.1	P17752	TPH1_HUMAN	tryptophan hydroxylase 1	345					aromatic amino acid family metabolic process (GO:0009072)|bone remodeling (GO:0046849)|cellular nitrogen compound metabolic process (GO:0034641)|circadian rhythm (GO:0007623)|indolalkylamine biosynthetic process (GO:0046219)|mammary gland alveolus development (GO:0060749)|negative regulation of ossification (GO:0030279)|response to immobilization stress (GO:0035902)|serotonin biosynthetic process (GO:0042427)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|neuron projection (GO:0043005)	amino acid binding (GO:0016597)|iron ion binding (GO:0005506)|tryptophan 5-monooxygenase activity (GO:0004510)			NS(1)|breast(1)|endometrium(1)|kidney(3)|large_intestine(3)|lung(14)|prostate(1)|stomach(1)	25					L-Tryptophan(DB00150)|Tetrahydrobiopterin(DB00360)	ATGTCCAGAAAGTGCATGCTA	0.353																																																0													90	85	87					11																	18044471		2200	4293	6493	SO:0001583	missense	7166			X52836	CCDS7829.1	11p15.3-p14	2012-10-02	2008-07-31	2003-04-04	ENSG00000129167	ENSG00000129167	1.14.16.4		12008	protein-coding gene	gene with protein product	"tryptophan 5-monooxygenase"	191060	"tryptophan hydroxylase (tryptophan 5-monooxygenase)"	TPRH, TPH		1463016	Standard	NM_004179		Approved		uc001mnp.2	P17752	OTTHUMG00000166421	ENST00000250018.2:c.1034T>C	11.37:g.18044471A>G	ENSP00000250018:p.Leu345Pro	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQX6|O95188|O95189|Q16736|Q3KPG8	Missense_Mutation	SNP	ENST00000250018.2	37	CCDS7829.1	.	.	.	.	.	.	.	.	.	.	A	24.7	4.556082	0.86231	.	.	ENSG00000129167	ENST00000250018;ENST00000341556	D;D	0.99762	-6.67;-6.67	5.78	5.78	0.91487	Aromatic amino acid hydroxylase, C-terminal (4);	0.000000	0.85682	D	0.000000	D	0.99799	0.9914	M	0.89534	3.04	0.80722	D	1	D	0.89917	1.0	D	0.74348	0.983	D	0.96961	0.9701	10	0.87932	D	0	-26.648	16.1145	0.81295	1.0:0.0:0.0:0.0	.	345	P17752	TPH1_HUMAN	P	345	ENSP00000250018:L345P;ENSP00000343550:L345P	ENSP00000250018:L345P	L	-	2	0	TPH1	18001047	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.339000	0.96797	2.205000	0.71048	0.454000	0.30748	CTT		0.353	TPH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389696.1	NM_004179		G	18044471	A	G	18044471	3	3	645	1	0	0	0	0	1	0	0	0	16413	72	3	3	308	3	TPH1	11	18044471	Missense_Mutation	SNP	A	TCGA-KL-8346-01A-11D-2310-10		18044471	116962045	40	39948										
C1QTNF4	114900	ucsc.edu	37	chr11	47612134	47612134	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gccagccgtgaaggagaagaAgtaggcgccgggcacgcggc	18	11	0	3			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr11:47612134A>G	ENST00000302514.3	-	2	745	c.229T>C	c.(229-231)Ttc>Ctc	p.F77L		NM_031909.2	NP_114115.2	Q9BXJ3	C1QT4_HUMAN	C1q and tumor necrosis factor related protein 4	77	C1q 1. {ECO:0000255|PROSITE- ProRule:PRU00368}.					extracellular space (GO:0005615)				breast(2)|endometrium(1)|kidney(1)|lung(2)	6						AAGGAGAAGAAGTAGGCGCCG	0.657																																																0													14	15	14					11																	47612134		2193	4284	6477	SO:0001583	missense	114900			AF329838	CCDS7942.1	11q11	2008-07-18				ENSG00000172247			14346	protein-coding gene	gene with protein product	"complement-c1q tumor necrosis factor-related protein 4"	614911				16094384	Standard	NM_031909		Approved	CTRP4, ZACRP4	uc001ngc.2	Q9BXJ3		ENST00000302514.3:c.229T>C	11.37:g.47612134A>G	ENSP00000302274:p.Phe77Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IV25	Missense_Mutation	SNP	ENST00000302514.3	37	CCDS7942.1	.	.	.	.	.	.	.	.	.	.	A	18.38	3.611294	0.66558	.	.	ENSG00000172247	ENST00000302514;ENST00000530097	T;T	0.74842	-0.88;-0.88	4.2	4.2	0.49525	Tumour necrosis factor-like (2);Complement C1q protein (4);	0.149149	0.46442	U	0.000298	T	0.71745	0.3376	L	0.60904	1.88	0.35460	D	0.796458	B	0.29481	0.245	B	0.31946	0.138	T	0.79555	-0.1755	10	0.72032	D	0.01	.	13.5783	0.61888	1.0:0.0:0.0:0.0	.	77	Q9BXJ3	C1QT4_HUMAN	L	77	ENSP00000302274:F77L;ENSP00000434548:F77L	ENSP00000302274:F77L	F	-	1	0	C1QTNF4	47568710	1.000000	0.71417	1.000000	0.80357	0.673000	0.39480	7.332000	0.79203	1.687000	0.51057	0.254000	0.18369	TTC		0.657	C1QTNF4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391772.1	NM_031909		G	47612134	A	G	47612134	3	3	645	1	0	0	0	0	1	0	0	0	1967	72	3	3	764	3	C1QTNF4	11	47612134	Missense_Mutation	SNP	A	TCGA-KL-8346-01A-11D-2310-10	29567663	47612134	87394382	41	39949										
CPSF7	79869	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	61183901	61183901	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	cactggggggcttatccacaCgagcagatgagggtacaagg	15	9	0	2			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr11:61183901C>T	ENST00000394888.4	-	6	813	c.641G>A	c.(640-642)cGt>cAt	p.R214H	CPSF7_ENST00000340437.4_Missense_Mutation_p.R257H|CPSF7_ENST00000439958.3_Missense_Mutation_p.R205H|CPSF7_ENST00000448745.1_Missense_Mutation_p.R205H	NM_001136040.2	NP_001129512.1	Q8N684	CPSF7_HUMAN	cleavage and polyadenylation specific factor 7, 59kDa	214					gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA splicing, via spliceosome (GO:0000398)|protein tetramerization (GO:0051262)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	membrane (GO:0016020)|mRNA cleavage factor complex (GO:0005849)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(3)|central_nervous_system(1)|cervix(2)|endometrium(1)|kidney(2)|large_intestine(5)|lung(5)|skin(2)|upper_aerodigestive_tract(1)	22						CTTATCCACACGAGCAGATGA	0.582																																																0													112	108	109					11																	61183901		2202	4299	6501	SO:0001583	missense	79869				CCDS8006.2, CCDS44619.1, CCDS44620.1	11q12.2	2013-06-18			ENSG00000149532	ENSG00000149532		"RNA binding motif (RRM) containing"	30098	protein-coding gene	gene with protein product	"pre mRNA cleavage factor I, 59 kDa subunit", "cleavage factor Im complex 59 kDa subunit"					12477932	Standard	NM_024811		Approved	FLJ12529	uc001nrp.3	Q8N684	OTTHUMG00000168198	ENST00000394888.4:c.641G>A	11.37:g.61183901C>T	ENSP00000378352:p.Arg214His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KU04|C9K0Q4|Q7Z3H9|Q9H025|Q9H9V1	Missense_Mutation	SNP	ENST00000394888.4	37	CCDS44619.1	.	.	.	.	.	.	.	.	.	.	C	17.74	3.465019	0.63513	.	.	ENSG00000149532	ENST00000340437;ENST00000394888;ENST00000439958;ENST00000448745;ENST00000477890;ENST00000539952;ENST00000544585	.	.	.	5.14	4.23	0.50019	.	0.220163	0.39834	N	0.001242	T	0.40222	0.1108	N	0.24115	0.695	0.80722	D	1	B;B;B;B	0.15141	0.001;0.002;0.012;0.003	B;B;B;B	0.08055	0.001;0.0;0.003;0.001	T	0.18808	-1.0325	9	0.17369	T	0.5	-3.5682	11.7089	0.51614	0.0:0.9178:0.0:0.0822	.	205;214;257;205	B4DGF8;Q8N684;Q8N684-3;Q8N684-2	.;CPSF7_HUMAN;.;.	H	257;214;205;205;205;205;205	.	ENSP00000345412:R257H	R	-	2	0	CPSF7	60940477	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	5.863000	0.69568	1.400000	0.46741	-0.136000	0.14681	CGT		0.582	CPSF7-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000347835.2	NM_024811		T	61183901	C	T	61183901	3	4	645	1	0	0	0	0	1	0	0	0	3832	536	19	1	790	1	CPSF7	11	61183901	Missense_Mutation	SNP	C	TCGA-KL-8346-01A-11D-2310-10	13571767	61183901	73822615	42	39950										
GDPD5	81544	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	75152734	75152734	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	agtgtagcgcaggttcagccGctggatgtggcctctccgca	14	12	2	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr11:75152734G>A	ENST00000336898.3	-	13	2119	c.1282C>T	c.(1282-1284)Cgg>Tgg	p.R428W	GDPD5_ENST00000376282.3_Missense_Mutation_p.R309W|GDPD5_ENST00000443276.2_3'UTR|GDPD5_ENST00000526177.1_Missense_Mutation_p.R290W|GDPD5_ENST00000533784.1_Missense_Mutation_p.R309W|GDPD5_ENST00000529721.1_Missense_Mutation_p.R428W|GDPD5_ENST00000533805.1_Missense_Mutation_p.R183W	NM_030792.6	NP_110419.5	Q8WTR4	GDPD5_HUMAN	glycerophosphodiester phosphodiesterase domain containing 5	428	GP-PDE.				cerebral cortex neuron differentiation (GO:0021895)|glycerol metabolic process (GO:0006071)|lipid metabolic process (GO:0006629)|negative regulation of Notch signaling pathway (GO:0045746)|neuron projection development (GO:0031175)|positive regulation of neuron differentiation (GO:0045666)|regulation of timing of cell differentiation (GO:0048505)|spinal cord motor neuron differentiation (GO:0021522)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)	glycerophosphodiester phosphodiesterase activity (GO:0008889)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(3)|lung(6)|ovary(3)|skin(2)	20						AGGTTCAGCCGCTGGATGTGG	0.667																																																0													30	28	28					11																	75152734		2200	4292	6492	SO:0001583	missense	81544			AF318377	CCDS8238.1	11q13.4-q13.5	2011-01-25				ENSG00000158555			28804	protein-coding gene	gene with protein product		609632				18667693, 17275818	Standard	NM_030792		Approved	PP1665, GDE2	uc001owp.4	Q8WTR4		ENST00000336898.3:c.1282C>T	11.37:g.75152734G>A	ENSP00000337972:p.Arg428Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q49AQ5|Q6UX76|Q7Z4S0|Q8N781|Q8NCB7|Q8TB77	Missense_Mutation	SNP	ENST00000336898.3	37	CCDS8238.1	.	.	.	.	.	.	.	.	.	.	g	16.14	3.040109	0.55003	.	.	ENSG00000158555	ENST00000526177;ENST00000533784;ENST00000529721;ENST00000336898;ENST00000533805;ENST00000376282;ENST00000534322	T;T;T;T;T;T;T	0.11604	2.76;2.76;2.76;2.76;2.76;2.76;2.76	5.14	-8.74	0.00838	PLC-like phosphodiesterase, TIM beta/alpha-barrel domain (2);	0.925450	0.09262	N	0.826356	T	0.06371	0.0164	L	0.47190	1.495	0.53005	D	0.999964	B;B	0.20671	0.047;0.004	B;B	0.12156	0.007;0.0	T	0.32214	-0.9915	10	0.37606	T	0.19	-5.4375	2.1938	0.03906	0.4485:0.0881:0.1186:0.3448	.	309;428	Q8WTR4-2;Q8WTR4	.;GDPD5_HUMAN	W	290;309;428;428;183;309;12	ENSP00000434050:R290W;ENSP00000437049:R309W;ENSP00000433214:R428W;ENSP00000337972:R428W;ENSP00000435196:R183W;ENSP00000365459:R309W;ENSP00000435728:R12W	ENSP00000337972:R428W	R	-	1	2	GDPD5	74830382	0.015000	0.18098	0.823000	0.32752	0.972000	0.66771	-0.738000	0.04871	-1.260000	0.02465	0.552000	0.68991	CGG		0.667	GDPD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384409.1	NM_030792		A	75152734	G	A	75152734	3	1	645	1	0	0	0	0	1	0	0	0	6334	1086	38	1	555	1	GDPD5	11	75152734	Missense_Mutation	SNP	G	TCGA-KL-8346-01A-11D-2310-10	13968833	75152734	59853782	43	39951										
CCDC82	79780	broad.mit.edu	37	chr11	96117896	96117896	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	atttctccttgtttcatgtcTtctaacatgtatcattttca	3	9	6	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr11:96117896T>C	ENST00000278520.5	-	3	444	c.16A>G	c.(16-18)Aga>Gga	p.R6G	CCDC82_ENST00000542662.1_Missense_Mutation_p.R6G|CCDC82_ENST00000525786.1_5'Flank|CCDC82_ENST00000423339.2_Missense_Mutation_p.R6G			Q8N4S0	CCD82_HUMAN	coiled-coil domain containing 82	6										endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(5)|lung(5)|ovary(1)|prostate(1)	19		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)		BRCA - Breast invasive adenocarcinoma(274;0.154)		GTTTCATGTCTTCTAACATGT	0.333																																																0													47	46	46					11																	96117896		2197	4292	6489	SO:0001583	missense	79780			AF245436	CCDS8307.1	11q21	2006-03-09			ENSG00000149231	ENSG00000149231			26282	protein-coding gene	gene with protein product						12477932	Standard	NM_024725		Approved	FLJ23518	uc001pfx.4	Q8N4S0	OTTHUMG00000167678	ENST00000278520.5:c.16A>G	11.37:g.96117896T>C	ENSP00000278520:p.Arg6Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPU7|Q8WV71|Q9H2Q5|Q9H5E3	Missense_Mutation	SNP	ENST00000278520.5	37	CCDS8307.1	.	.	.	.	.	.	.	.	.	.	T	18.77	3.694155	0.68386	.	.	ENSG00000149231	ENST00000278520;ENST00000542662;ENST00000423339;ENST00000538597;ENST00000530203	T;T;T;T	0.39997	1.4;1.4;1.4;1.05	5.31	4.18	0.49190	.	0.495798	0.20614	N	0.088919	T	0.57666	0.2069	M	0.68317	2.08	0.31516	N	0.663024	D;D	0.76494	0.999;0.997	D;P	0.69479	0.964;0.814	T	0.63651	-0.6589	10	0.62326	D	0.03	-16.8259	9.2464	0.37529	0.0:0.0835:0.0:0.9165	.	6;6	Q8N4S0-2;Q8N4S0	.;CCD82_HUMAN	G	6	ENSP00000278520:R6G;ENSP00000444010:R6G;ENSP00000397156:R6G;ENSP00000442723:R6G	ENSP00000278520:R6G	R	-	1	2	CCDC82	95757544	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	2.939000	0.48995	2.132000	0.65825	0.533000	0.62120	AGA		0.333	CCDC82-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395542.2	NM_024725		C	96117896	T	C	96117896	3	2	645	1	0	0	0	0	1	0	0	0	2858	1617	56	3	1646	3	CCDC82	11	96117896	Missense_Mutation	SNP	T	TCGA-KL-8346-01A-11D-2310-10	20965162	96117896	38888620	44	39952										
CACNA1C	775	mdanderson.org	37	chr12	2794937	2794937	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	tgacgaaaatcggcaactgaCgctcccagaggaggacaaga	12	10	0	4	rs201777030		TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr12:2794937C>T	ENST00000347598.4	+	46	5753	c.5753C>T	c.(5752-5754)aCg>aTg	p.T1918M	CACNA1C_ENST00000399644.1_Missense_Mutation_p.T1870M|CACNA1C_ENST00000399655.1_Missense_Mutation_p.T1870M|CACNA1C_ENST00000399637.1_Missense_Mutation_p.T1889M|CACNA1C_ENST00000335762.5_Missense_Mutation_p.T1895M|CACNA1C_ENST00000399601.1_Missense_Mutation_p.T1870M|CACNA1C_ENST00000399597.1_Missense_Mutation_p.T1870M|CACNA1C_ENST00000327702.7_Missense_Mutation_p.T1905M|CACNA1C_ENST00000344100.3_Missense_Mutation_p.T1911M|CACNA1C_ENST00000399634.1_Missense_Mutation_p.T1941M|CACNA1C_ENST00000399595.1_Missense_Mutation_p.T1878M|CACNA1C_ENST00000399591.1_Missense_Mutation_p.T1878M|CACNA1C_ENST00000402845.3_Missense_Mutation_p.T1889M|CACNA1C_ENST00000399641.1_Missense_Mutation_p.T1870M|CACNA1C_ENST00000399649.1_Missense_Mutation_p.T1876M|CACNA1C-AS1_ENST00000501371.1_RNA|CACNA1C_ENST00000406454.3_Missense_Mutation_p.T1941M|CACNA1C_ENST00000399621.1_Missense_Mutation_p.T1889M|CACNA1C_ENST00000399603.1_Missense_Mutation_p.T1870M|CACNA1C_ENST00000399617.1_Missense_Mutation_p.T1905M|CACNA1C_ENST00000399629.1_Missense_Mutation_p.T1887M|CACNA1C_ENST00000399638.1_Missense_Mutation_p.T1898M|CACNA1C_ENST00000399606.1_Missense_Mutation_p.T1890M	NM_001129827.1|NM_199460.2	NP_001123299.1|NP_955630.2	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type, alpha 1C subunit	1953					adult walking behavior (GO:0007628)|axon guidance (GO:0007411)|calcium ion import (GO:0070509)|calcium ion transport into cytosol (GO:0060402)|calcium ion-dependent exocytosis (GO:0017156)|calcium-mediated signaling using extracellular calcium source (GO:0035585)|cell communication by electrical coupling involved in cardiac conduction (GO:0086064)|energy reserve metabolic process (GO:0006112)|glucose homeostasis (GO:0042593)|growth hormone secretion (GO:0030252)|insulin secretion (GO:0030073)|membrane depolarization during action potential (GO:0086010)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|regulation of blood pressure (GO:0008217)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of insulin secretion (GO:0050796)|regulation of organ growth (GO:0046620)|regulation of vasoconstriction (GO:0019229)|small molecule metabolic process (GO:0044281)|smooth muscle contraction involved in micturition (GO:0060083)|synaptic transmission (GO:0007268)|visual learning (GO:0008542)	caveolar macromolecular signaling complex (GO:0002095)|cytoplasm (GO:0005737)|dendritic shaft (GO:0043198)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|voltage-gated calcium channel complex (GO:0005891)|Z disc (GO:0030018)	alpha-actinin binding (GO:0051393)|calmodulin binding (GO:0005516)|high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)	p.T1911M(1)|p.T1983M(1)|p.T1405M(1)		NS(3)|breast(4)|central_nervous_system(4)|cervix(2)|endometrium(12)|kidney(9)|large_intestine(20)|lung(55)|ovary(10)|pancreas(1)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)	132			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Amlodipine(DB00381)|Cinnarizine(DB00568)|Clevidipine(DB04920)|Dronedarone(DB04855)|Drotaverine(DB06751)|Felodipine(DB01023)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Verapamil(DB00661)	CGGCAACTGACGCTCCCAGAG	0.582																																																3	Substitution - Missense(3)	skin(3)											49	49	49					12																	2794937		2012	4159	6171	SO:0001583	missense	775			AF070589	CCDS44787.1, CCDS44788.1, CCDS44789.1, CCDS44790.1, CCDS44791.1, CCDS44792.1, CCDS44793.1, CCDS44794.1, CCDS44795.1, CCDS44796.1, CCDS44797.1, CCDS44798.1, CCDS44799.1, CCDS44800.1, CCDS44801.1, CCDS53733.1, CCDS53734.1, CCDS53735.1, CCDS53736.1	12p13.3	2014-09-17			ENSG00000151067	ENSG00000151067		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1390	protein-coding gene	gene with protein product		114205		CCHL1A1, CACNL1A1		1650913, 16382099	Standard	NM_001129832		Approved	Cav1.2, CACH2, CACN2, TS, LQT8	uc001qjy.3	Q13936	OTTHUMG00000150243	ENST00000347598.4:c.5753C>T	12.37:g.2794937C>T	ENSP00000266376:p.Thr1918Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2RUT3|E9PDJ0|Q13917|Q13918|Q13919|Q13920|Q13921|Q13922|Q13923|Q13924|Q13925|Q13926|Q13927|Q13928|Q13929|Q13930|Q13932|Q13933|Q14743|Q14744|Q15877|Q4VMI7|Q4VMI8|Q4VMI9|Q6PKM7|Q8N6C0|Q99025|Q99241|Q99875	Missense_Mutation	SNP	ENST00000347598.4	37	CCDS44788.1	.	.	.	.	.	.	.	.	.	.	C	15.33	2.802724	0.50315	.	.	ENSG00000151067	ENST00000335762;ENST00000399655;ENST00000399644;ENST00000399638;ENST00000399597;ENST00000399621;ENST00000399637;ENST00000399591;ENST00000399641;ENST00000347598;ENST00000399606;ENST00000399601;ENST00000344100;ENST00000399629;ENST00000327702;ENST00000399649;ENST00000402845;ENST00000399603;ENST00000399634;ENST00000399617;ENST00000406454;ENST00000399595;ENST00000322367	T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.54866	0.55;0.55;0.55;0.55;0.55;0.55;0.55;0.55;0.55;0.55;0.55;0.55;0.55;0.55;0.55;0.55;0.55;0.55;0.55;0.55;0.55;0.55	4.26	4.26	0.50523	.	29.029300	0.00550	N	0.000258	T	0.70133	0.3189	L	0.56769	1.78	0.34775	D	0.734153	P;P;D;P;P;D;D;P;P;D;P;D;P;P;D;P;P;B;P;P;D;P;P;D;D	0.65815	0.863;0.922;0.995;0.664;0.934;0.988;0.992;0.869;0.638;0.966;0.922;0.989;0.927;0.783;0.992;0.677;0.927;0.317;0.922;0.485;0.985;0.869;0.869;0.981;0.995	B;P;P;B;P;P;P;P;B;P;P;P;P;P;P;B;P;B;P;B;P;P;P;P;P	0.56916	0.238;0.595;0.809;0.146;0.756;0.647;0.795;0.595;0.282;0.553;0.595;0.736;0.521;0.595;0.65;0.391;0.521;0.299;0.595;0.229;0.542;0.595;0.595;0.46;0.809	T	0.60281	-0.7294	10	0.38643	T	0.18	.	16.9179	0.86156	0.0:1.0:0.0:0.0	.	561;1911;1867;1953;1905;1889;1870;1887;1898;1870;1890;1870;1901;1918;1870;1905;1941;1878;1876;1878;1859;1889;1889;1870;1870	B7Z7Z5;Q13936-14;Q13936-35;Q13936;Q13936-33;Q13936-13;Q13936-22;Q13936-32;Q13936-31;Q13936-21;Q13936-30;Q13936-23;Q13936-28;Q13936-11;E9PDJ1;E9PDJ0;F5GY28;Q13936-25;Q13936-15;Q13936-29;Q13936-19;Q13936-24;Q13936-27;Q13936-20;Q13936-12	.;.;.;CAC1C_HUMAN;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.	M	1895;1870;1870;1898;1870;1889;1889;1878;1870;1918;1890;1870;1911;1887;1905;1876;1889;1870;1941;1905;1941;1878;1771	ENSP00000336982:T1895M;ENSP00000382563:T1870M;ENSP00000382552:T1870M;ENSP00000382547:T1898M;ENSP00000382506:T1870M;ENSP00000382530:T1889M;ENSP00000382546:T1889M;ENSP00000382500:T1878M;ENSP00000382549:T1870M;ENSP00000266376:T1918M;ENSP00000382515:T1890M;ENSP00000382510:T1870M;ENSP00000341092:T1911M;ENSP00000382537:T1887M;ENSP00000329877:T1905M;ENSP00000382557:T1876M;ENSP00000385724:T1889M;ENSP00000382512:T1870M;ENSP00000382542:T1941M;ENSP00000382526:T1905M;ENSP00000385896:T1941M;ENSP00000382504:T1878M	ENSP00000323129:T1771M	T	+	2	0	CACNA1C	2665198	1.000000	0.71417	0.106000	0.21319	0.488000	0.33401	5.733000	0.68571	2.202000	0.70862	0.449000	0.29647	ACG		0.582	CACNA1C-017	KNOWN	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000317035.1	NM_000719		T	2794937	C	T	2794937	3	4	645	1	0	0	0	0	1	0	0	0	2542	536	19	1	6492	1	CACNA1C	12	2794937	Missense_Mutation	SNP	C	TCGA-KL-8346-01A-11D-2310-10		2794937	131056958	45	39953										
ATN1	1822	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr12	7045495	7045495	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	ggcccaactctggctccttcAccccactctctgcctcctgc	6	21	3	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr12:7045495A>C	ENST00000356654.4	+	5	1302	c.1065A>C	c.(1063-1065)tcA>tcC	p.S355S	ATN1_ENST00000396684.2_Silent_p.S355S	NM_001007026.1	NP_001007027.1	P54259	ATN1_HUMAN	atrophin 1	355					cell migration (GO:0016477)|central nervous system development (GO:0007417)|maintenance of cell polarity (GO:0030011)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron apoptotic process (GO:0051402)|toxin metabolic process (GO:0009404)|transcription, DNA-templated (GO:0006351)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)	protein domain specific binding (GO:0019904)|transcription corepressor activity (GO:0003714)			breast(5)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(15)|ovary(2)|pancreas(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	40						TGGCTCCTTCACCCCACTCTC	0.597																																																0													130	134	133					12																	7045495		2203	4300	6503	SO:0001819	synonymous_variant	1822			U23851	CCDS31734.1	12p	2007-08-01	2005-03-15	2005-03-17		ENSG00000111676			3033	protein-coding gene	gene with protein product		607462	"dentatorubral-pallidoluysian atrophy (atrophin-1)"	D12S755E, DRPLA		8136826	Standard	NM_001940		Approved	B37	uc001qrw.1	P54259		ENST00000356654.4:c.1065A>C	12.37:g.7045495A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q99495|Q99621|Q9UEK7	Silent	SNP	ENST00000356654.4	37	CCDS31734.1																																																																																				0.597	ATN1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401948.2	NM_001940		C	7045495	A	C	7045495	2	2	645	1	0	0	0	0	0	0	0	1	1111	146	6	5		5	ATN1	12	7045495	Silent	SNP	A	TCGA-KL-8346-01A-11D-2310-10	4250558	7045495	126806400	46	39954										
C1RL	51279	bcgsc.ca	37	chr12	7252316	7252316	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	agaacctcctccccatcctgTctgtctttccaggtccctgg	7	17	2	1	rs146214220		TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr12:7252316T>C	ENST00000266542.4	-	5	749	c.657A>G	c.(655-657)agA>agG	p.R219R	C1RL_ENST00000504702.2_5'Flank|C1RL_ENST00000545280.1_Intron|C1RL_ENST00000544702.1_Missense_Mutation_p.D235G	NM_016546.2	NP_057630.2	Q9NZP8	C1RL_HUMAN	complement component 1, r subcomponent-like	219					complement activation, classical pathway (GO:0006958)|innate immune response (GO:0045087)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	serine-type endopeptidase activity (GO:0004252)			breast(1)|central_nervous_system(1)|endometrium(4)|large_intestine(4)|lung(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	16						CCCCATCCTGTCTGTCTTTCC	0.552																																																0								T		0,4392		0,0,2196	77	55	62		657	-4.9	0	12	dbSNP_134	62	1,8589		0,1,4294	no	coding-synonymous	C1RL	NM_016546.2		0,1,6490	CC,CT,TT		0.0116,0.0,0.0077		219/488	7252316	1,12981	2196	4295	6491	SO:0001819	synonymous_variant	51279			AF178985	CCDS8573.1, CCDS73431.1	12p13.31	2008-02-05				ENSG00000139178			21265	protein-coding gene	gene with protein product		608974				12838346	Standard	XM_005253385		Approved	C1r-LP, C1RL1	uc001qsn.3	Q9NZP8		ENST00000266542.4:c.657A>G	12.37:g.7252316T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q53GX9	Silent	SNP	ENST00000266542.4	37	CCDS8573.1	.	.	.	.	.	.	.	.	.	.	T	11.61	1.688828	0.29962	0.0	1.16E-4	ENSG00000139178	ENST00000544702	T	0.36520	1.25	3.85	-4.92	0.03075	.	.	.	.	.	T	0.14830	0.0358	.	.	.	0.09310	N	1	B	0.06786	0.001	B	0.08055	0.003	T	0.23976	-1.0173	7	.	.	.	.	1.1981	0.01879	0.1477:0.2867:0.3024:0.2632	.	235	F5GWF3	.	G	235	ENSP00000441885:D235G	.	D	-	2	0	C1RL	7143458	0.000000	0.05858	0.000000	0.03702	0.004000	0.04260	-0.521000	0.06245	-1.021000	0.03350	0.374000	0.22700	GAC		0.552	C1RL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398367.1	NM_016546		C	7252316	T	C	7252316	2	2	645	1	0	0	0	0	0	0	0	1	1975	1664	58	3		3	C1RL	12	7252316	Silent	SNP	T	TCGA-KL-8346-01A-11D-2310-10	206821	7252316	126599579	47	39955										
PABPC3	5042	mdanderson.org	37	chr13	25670873	25670873	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	tttaagtctcgtaaagaacgAgaagctgaacttggagctag	11	6	1	3	rs77142265	byFrequency	TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr13:25670873A>G	ENST00000281589.3	+	1	574	c.537A>G	c.(535-537)cgA>cgG	p.R179R		NM_030979.2	NP_112241.2	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	179					mRNA metabolic process (GO:0016071)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)			breast(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(21)|ovary(4)|pancreas(1)|skin(3)	47		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)		GTAAAGAACGAGAAGCTGAAC	0.408													a|||	274	0.0547125	0.0779	0.0591	5008	,	,		22193	0.0347		0.0318	False		,,,				2504	0.0644															0													103	96	98					13																	25670873		2203	4300	6503	SO:0001819	synonymous_variant	5042			AF132026	CCDS9311.1	13q12-q13	2013-02-12	2001-11-28		ENSG00000151846	ENSG00000151846		"RNA binding motif (RRM) containing"	8556	protein-coding gene	gene with protein product	"testis PABP"	604680	"poly(A)-binding protein, cytoplasmic 3"	PABPL3		8432538, 10543404	Standard	NM_030979		Approved	PABP3, tPABP	uc001upy.3	Q9H361	OTTHUMG00000016601	ENST00000281589.3:c.537A>G	13.37:g.25670873A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHV0|Q9H086	Silent	SNP	ENST00000281589.3	37	CCDS9311.1																																																																																				0.408	PABPC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044220.2	NM_030979		G	25670873	A	G	25670873	2	3	645	1	0	0	0	0	0	0	0	1	11372	291	11	3		3	PABPC3	13	25670873	Silent	SNP	A	TCGA-KL-8346-01A-11D-2310-10		25670873	89499005	48	39956										
SERPINA10	51156	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	94756470	94756470	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	tgaggcccagttccaggttgCgggagagggtctctctgagt	16	9	2	3	rs61761870	byFrequency	TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr14:94756470C>T	ENST00000393096.1	-	2	926	c.461G>A	c.(460-462)cGc>cAc	p.R154H	SERPINA10_ENST00000554173.1_Missense_Mutation_p.R154H|SERPINA10_ENST00000261994.4_Missense_Mutation_p.R154H|SERPINA10_ENST00000554723.1_Missense_Mutation_p.R194H	NM_016186.2	NP_057270.1	Q9UK55	ZPI_HUMAN	serpin peptidase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 10	154					blood coagulation (GO:0007596)|negative regulation of endopeptidase activity (GO:0010951)|regulation of proteolysis (GO:0030162)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	heparin binding (GO:0008201)|serine-type endopeptidase inhibitor activity (GO:0004867)			haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(4)|lung(6)|ovary(2)|pancreas(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)	33		all_cancers(154;0.105)		Epithelial(152;0.135)|COAD - Colon adenocarcinoma(157;0.207)|all cancers(159;0.221)		TTCCAGGTTGCGGGAGAGGGT	0.517													T|||	13	0.00259585	0.0098	0.0	5008	,	,		17508	0.0		0.0	False		,,,				2504	0.0															0								T	HIS/ARG,HIS/ARG	38,4368	800.4+/-415.6	1,36,2166	55	62	60		461,461	-7.7	0	14	dbSNP_129	60	0,8600		0,0,4300	yes	missense,missense	SERPINA10	NM_001100607.1,NM_016186.2	29,29	1,36,6466	TT,TC,CC		0.0,0.8625,0.2922	benign,benign	154/445,154/445	94756470	38,12968	2203	4300	6503	SO:0001583	missense	51156			AF181467	CCDS9923.1	14q32.13	2014-02-18	2005-08-18		ENSG00000140093	ENSG00000140093		"Serine (or cysteine) peptidase inhibitors"	15996	protein-coding gene	gene with protein product		605271	"serine (or cysteine) proteinase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 10"			10460162, 9689066, 24172014	Standard	NM_016186		Approved	PZI, ZPI	uc001yct.3	Q9UK55	OTTHUMG00000171345	ENST00000393096.1:c.461G>A	14.37:g.94756470C>T	ENSP00000376809:p.Arg154His	Somatic		WXS	Illumina HiSeq	Phase_I	A5Z2A5|Q6UWX9|Q86U20	Missense_Mutation	SNP	ENST00000393096.1	37	CCDS9923.1	3	0.0013736263736263737	3	0.006097560975609756	0	0.0	0	0.0	0	0.0	T	1.618	-0.522143	0.04171	0.008625	0.0	ENSG00000140093	ENST00000554723;ENST00000393096;ENST00000261994;ENST00000554173	D;D;D;D	0.84516	-1.86;-1.86;-1.86;-1.86	4.97	-7.71	0.01254	Serpin domain (3);	2.161880	0.01822	N	0.034133	T	0.66247	0.2770	N	0.19112	0.55	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.60424	-0.7266	10	0.30854	T	0.27	.	10.0492	0.42205	0.0:0.3809:0.1627:0.4564	rs61761870	154	Q9UK55	ZPI_HUMAN	H	194;154;154;154	ENSP00000450896:R194H;ENSP00000376809:R154H;ENSP00000261994:R154H;ENSP00000450971:R154H	ENSP00000261994:R154H	R	-	2	0	SERPINA10	93826223	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-3.234000	0.00546	-2.153000	0.00793	-3.554000	0.00030	CGC		0.517	SERPINA10-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413061.1	NM_016186		T	94756470	C	T	94756470	3	4	645	1	0	0	0	0	1	0	0	0	14100	768	27	1	889	1	SERPINA10	14	94756470	Missense_Mutation	SNP	C	TCGA-KL-8346-01A-11D-2310-10		94756470	12593070	49	39957										
MAPKBP1	23005	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	42113229	42113229	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	cccatctggtcccaggaagcAtgggcaggaggcccttgaga	14	12	1	1			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr15:42113229A>C	ENST00000456763.2	+	24	2895	c.2699A>C	c.(2698-2700)cAt>cCt	p.H900P	MAPKBP1_ENST00000221214.6_Missense_Mutation_p.H777P|MAPKBP1_ENST00000514566.1_Missense_Mutation_p.H894P|MAPKBP1_ENST00000457542.2_Missense_Mutation_p.H894P|MAPKBP1_ENST00000260357.7_Missense_Mutation_p.H733P	NM_001128608.1	NP_001122080.1	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein 1	900										breast(6)|central_nervous_system(5)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(14)|lung(11)|ovary(1)|pancreas(1)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	56		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)		CCCAGGAAGCATGGGCAGGAG	0.602																																																0													67	63	65					15																	42113229		2203	4300	6503	SO:0001583	missense	23005			AB011168	CCDS32201.1, CCDS45239.1, CCDS58359.1	15q15.1	2013-01-10	2008-01-30		ENSG00000137802	ENSG00000137802		"WD repeat domain containing"	29536	protein-coding gene	gene with protein product			"mitogen activated protein kinase binding protein 1"			9628581, 10471813	Standard	NM_014994		Approved	KIAA0596	uc001zok.4	O60336	OTTHUMG00000160227	ENST00000456763.2:c.2699A>C	15.37:g.42113229A>C	ENSP00000393099:p.His900Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NM93|A8K8P9|Q14CB5|Q14CD8|Q49AJ8|Q5W9G9	Missense_Mutation	SNP	ENST00000456763.2	37	CCDS45239.1	.	.	.	.	.	.	.	.	.	.	a	5.467	0.271189	0.10349	.	.	ENSG00000137802	ENST00000457542;ENST00000221214;ENST00000260357;ENST00000456763;ENST00000514566	T;T;T;T;T	0.39229	1.25;1.42;1.09;1.3;1.38	4.59	3.43	0.39272	.	0.827610	0.10727	N	0.641001	T	0.26593	0.0650	N	0.19112	0.55	0.09310	N	1	B;B;P;P;B;P	0.39282	0.255;0.255;0.666;0.63;0.246;0.49	B;B;B;B;B;B	0.37346	0.06;0.136;0.092;0.187;0.081;0.247	T	0.07829	-1.0752	10	0.25106	T	0.35	-0.1822	7.9821	0.30190	0.792:0.208:0.0:0.0	.	733;777;733;894;900;894	F8WC21;O60336-3;B4DYK7;O60336-2;O60336;O60336-6	.;.;.;.;MABP1_HUMAN;.	P	894;777;733;900;894	ENSP00000397570:H894P;ENSP00000221214:H777P;ENSP00000260357:H733P;ENSP00000393099:H900P;ENSP00000426154:H894P	ENSP00000221214:H777P	H	+	2	0	MAPKBP1	39900521	0.171000	0.23029	0.341000	0.25589	0.061000	0.15899	1.398000	0.34554	0.758000	0.33059	0.460000	0.39030	CAT		0.602	MAPKBP1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000359745.1	NM_014994		C	42113229	A	C	42113229	3	2	645	1	0	0	0	0	1	0	0	0	9299	217	8	5	2789	5	MAPKBP1	15	42113229	Missense_Mutation	SNP	A	TCGA-KL-8346-01A-11D-2310-10		42113229	60418163	50	39958										
USP8	9101	mdanderson.org	37	chr15	50784990	50784990	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	tggaggttctggaccagctcTtactggacttcgtaacttag	11	9	2	0	rs146125856	byFrequency	TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr15:50784990T>C	ENST00000396444.3	+	15	2665	c.2327T>C	c.(2326-2328)cTt>cCt	p.L776P	RP11-562A8.5_ENST00000560159.1_lincRNA|USP8_ENST00000425032.3_Missense_Mutation_p.L670P|USP8_ENST00000307179.4_Missense_Mutation_p.L776P|USP8_ENST00000433963.1_Missense_Mutation_p.L776P	NM_001128610.1|NM_005154.3	NP_001122082.1|NP_005145.3	P40818	UBP8_HUMAN	ubiquitin specific peptidase 8	776					cell proliferation (GO:0008283)|endosome organization (GO:0007032)|mitotic cytokinesis (GO:0000281)|protein deubiquitination (GO:0016579)|protein K48-linked deubiquitination (GO:0071108)|protein K63-linked deubiquitination (GO:0070536)|Ras protein signal transduction (GO:0007265)|ubiquitin-dependent protein catabolic process (GO:0006511)	acrosomal vesicle (GO:0001669)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|early endosome (GO:0005769)|extrinsic component of plasma membrane (GO:0019897)|midbody (GO:0030496)|nucleus (GO:0005634)	cysteine-type endopeptidase activity (GO:0004197)|ubiquitin-specific protease activity (GO:0004843)	p.L776P(1)		central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(5)|lung(16)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	35				all cancers(107;0.000225)|GBM - Glioblastoma multiforme(94;0.000771)		GGACCAGCTCTTACTGGACTT	0.418																																																1	Substitution - Missense(1)	central_nervous_system(1)											126	112	117					15																	50784990		2196	4294	6490	SO:0001583	missense	9101			D29956	CCDS10137.1, CCDS61632.1	15q21.1	2014-03-03	2005-08-08		ENSG00000138592	ENSG00000138592		"Ubiquitin-specific peptidases"	12631	protein-coding gene	gene with protein product		603158	"ubiquitin specific protease 8"			12838346, 9582025, 24482476	Standard	NM_005154		Approved	HumORF8, KIAA0055, UBPY, SPG59	uc001zyl.4	P40818	OTTHUMG00000131645	ENST00000396444.3:c.2327T>C	15.37:g.50784990T>C	ENSP00000379721:p.Leu776Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DKA8|Q2TB31|Q7Z3U2|Q86VA0|Q8IWI7	Missense_Mutation	SNP	ENST00000396444.3	37	CCDS10137.1	.	.	.	.	.	.	.	.	.	.	T	20.9	4.062687	0.76187	.	.	ENSG00000138592	ENST00000396444;ENST00000433963;ENST00000307179;ENST00000425032;ENST00000419830;ENST00000396440	T;T;T;T	0.32272	1.46;1.46;1.46;1.46	5.22	5.22	0.72569	Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2 (1);	0.000000	0.85682	D	0.000000	T	0.57562	0.2062	M	0.80332	2.49	0.80722	D	1	D;D	0.67145	0.992;0.996	D;D	0.71870	0.924;0.975	T	0.63906	-0.6531	10	0.72032	D	0.01	-8.8207	15.3993	0.74827	0.0:0.0:0.0:1.0	.	670;776	B4DKA8;P40818	.;UBP8_HUMAN	P	776;776;776;670;1;1	ENSP00000379721:L776P;ENSP00000405537:L776P;ENSP00000302239:L776P;ENSP00000412682:L670P	ENSP00000302239:L776P	L	+	2	0	USP8	48572282	1.000000	0.71417	0.994000	0.49952	0.822000	0.46500	7.435000	0.80391	2.096000	0.63516	0.528000	0.53228	CTT		0.418	USP8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254541.1	NM_005154		C	50784990	T	C	50784990	3	2	645	1	0	0	0	0	1	0	0	0	17101	1609	56	3	2381	3	USP8	15	50784990	Missense_Mutation	SNP	T	TCGA-KL-8346-01A-11D-2310-10	8671761	50784990	51746402	51	39959										
DENND4A	10260	bcgsc.ca	37	chr15	65982751	65982751	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	agcaaatactaaccaaacttAccttagatgatgtggtgtac	7	8	0	2			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr15:65982751A>G	ENST00000431932.2	-	22	4256		c.e22+1		DENND4A_ENST00000567323.1_Splice_Site|DENND4A_ENST00000443035.3_Splice_Site	NM_005848.3	NP_005839.3	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A						positive regulation of Rab GTPase activity (GO:0032851)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|Rab guanyl-nucleotide exchange factor activity (GO:0017112)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(17)|lung(11)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	51						AACCAAACTTACCTTAGATGA	0.373																																																0													107	97	100					15																	65982751		2008	4163	6171	SO:0001630	splice_region_variant	10260			AF534403	CCDS45285.1, CCDS53949.1	15q22.31	2012-10-03	2006-01-27	2006-01-27				"DENN/MADD domain containing"	24321	protein-coding gene	gene with protein product		600382	"c-myc promoter binding protein"	MYCPBP		8056341, 12906859	Standard	NM_005848		Approved	IRLB	uc002api.3	Q7Z401		ENST00000431932.2:c.4047+1T>C	15.37:g.65982751A>G		Somatic		WXS	Illumina HiSeq	Phase_I	E7EPL3|Q14655|Q86T77|Q8IVX2|Q8NB93	Splice_Site	SNP	ENST00000431932.2	37	CCDS45285.1	.	.	.	.	.	.	.	.	.	.	A	12.73	2.025883	0.35701	.	.	ENSG00000174485	ENST00000443035;ENST00000431932	.	.	.	5.46	5.46	0.80206	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.5398	0.76035	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	DENND4A	63769805	1.000000	0.71417	0.969000	0.41365	0.368000	0.29767	8.310000	0.89971	2.083000	0.62718	0.528000	0.53228	.		0.373	DENND4A-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419611.1	NM_005848	Intron	G	65982751	A	G	65982751	5	3	645	1	0	0	0	0	0	0	1	0	4435	405	14	3	1586	3	DENND4A	15	65982751	Splice_Site	SNP	A	TCGA-KL-8346-01A-11D-2310-10	15197761	65982751	36548641	52	39960										
C15orf42	90381	ucsc.edu	37	chr15	90119273	90119273	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gcgctcgggggcttggtgaaCgccgtcttcctcctggcccc	14	16	1	1			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr15:90119273C>T	ENST00000268138.7	+	1	561	c.456C>T	c.(454-456)aaC>aaT	p.N152N	TICRR_ENST00000560985.1_Silent_p.N152N|RP11-429B14.1_ENST00000559041.1_RNA			Q7Z2Z1	TICRR_HUMAN	TOPBP1-interacting checkpoint and replication regulator	152				N -> Y (in Ref. 3; DR731357). {ECO:0000305}.	cell cycle checkpoint (GO:0000075)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|formation of translation preinitiation complex (GO:0001731)|mitotic DNA replication checkpoint (GO:0033314)|regulation of DNA-dependent DNA replication initiation (GO:0030174)|response to ionizing radiation (GO:0010212)	nucleus (GO:0005634)	chromatin binding (GO:0003682)										GCTTGGTGAACGCCGTCTTCC	0.716																																																0													13	18	16					15																	90119273		2024	4165	6189	SO:0001819	synonymous_variant	90381			AK123612	CCDS10352.2	15q26.1	2012-07-11	2012-07-11	2012-07-11	ENSG00000140534	ENSG00000140534			28704	protein-coding gene	gene with protein product	"TOPBP1-interacting replication-stimulating protein", "SLD3 homolog (S. cerevisiae)"	613298	"chromosome 15 open reading frame 42"	C15orf42		20116089, 20080954	Standard	NM_152259		Approved	MGC45866, FLJ41618, Treslin, SLD3	uc002boe.3	Q7Z2Z1	OTTHUMG00000149648	ENST00000268138.7:c.456C>T	15.37:g.90119273C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RE07|B3KVV9|D3IUT4|Q8N4X8|Q8NCH6|Q9BU55	Silent	SNP	ENST00000268138.7	37	CCDS10352.2																																																																																				0.716	TICRR-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000312856.1	NM_152259		T	90119273	C	T	90119273	2	4	645	1	0	0	0	0	0	0	0	1	1798	535	19	1		1	C15orf42	15	90119273	Silent	SNP	C	TCGA-KL-8346-01A-11D-2310-10	24136522	90119273	12412119	53	39961										
ALDOA	226	broad.mit.edu	37	chr16	30079974	30079974	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	ctgaccccaacaggtagacaAgggcgtggtccccctggcag	13	14	0	2			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr16:30079974A>G	ENST00000566897.1	+	7	1484	c.332A>G	c.(331-333)aAg>aGg	p.K111R	ALDOA_ENST00000338110.5_Missense_Mutation_p.K111R|ALDOA_ENST00000564546.1_Missense_Mutation_p.K111R|ALDOA_ENST00000412304.2_Missense_Mutation_p.K111R|ALDOA_ENST00000569545.1_Missense_Mutation_p.K111R|ALDOA_ENST00000564595.2_Missense_Mutation_p.K165R|ALDOA_ENST00000563060.2_Missense_Mutation_p.K111R|ALDOA_ENST00000395240.3_Missense_Mutation_p.K111R|ALDOA_ENST00000569798.1_Missense_Mutation_p.K111R|ALDOA_ENST00000395248.1_Missense_Mutation_p.K165R			P04075	ALDOA_HUMAN	aldolase A, fructose-bisphosphate	111					actin filament organization (GO:0007015)|ATP biosynthetic process (GO:0006754)|blood coagulation (GO:0007596)|carbohydrate metabolic process (GO:0005975)|fructose 1,6-bisphosphate metabolic process (GO:0030388)|fructose metabolic process (GO:0006000)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|glycolytic process (GO:0006096)|muscle cell cellular homeostasis (GO:0046716)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|protein homotetramerization (GO:0051289)|regulation of cell shape (GO:0008360)|small molecule metabolic process (GO:0044281)|striated muscle contraction (GO:0006941)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|I band (GO:0031674)|membrane (GO:0016020)|nucleus (GO:0005634)|platelet alpha granule lumen (GO:0031093)	actin binding (GO:0003779)|cytoskeletal protein binding (GO:0008092)|fructose binding (GO:0070061)|fructose-bisphosphate aldolase activity (GO:0004332)|identical protein binding (GO:0042802)|poly(A) RNA binding (GO:0044822)|tubulin binding (GO:0015631)			breast(2)|cervix(1)|endometrium(4)|large_intestine(1)|lung(6)|prostate(2)|upper_aerodigestive_tract(1)	17						CAGGTAGACAAGGGCGTGGTC	0.547																																																0													131	114	120					16																	30079974		2197	4300	6497	SO:0001583	missense	226			X05236	CCDS10668.1, CCDS58450.1	16p11.2	2008-03-06			ENSG00000149925	ENSG00000149925	4.1.2.13		414	protein-coding gene	gene with protein product		103850				3570299	Standard	NM_000034		Approved		uc010veg.2	P04075	OTTHUMG00000132107	ENST00000566897.1:c.332A>G	16.37:g.30079974A>G	ENSP00000455724:p.Lys111Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DXI7|Q6FH76|Q6FI10|Q96B15|Q9BWD9|Q9UCN2	Missense_Mutation	SNP	ENST00000566897.1	37	CCDS10668.1	.	.	.	.	.	.	.	.	.	.	A	23.4	4.408417	0.83340	.	.	ENSG00000149925	ENST00000395248;ENST00000338110;ENST00000412304;ENST00000395240	D;D;D;D	0.88741	-2.42;-2.42;-2.42;-2.42	5.79	5.79	0.91817	Aldolase-type TIM barrel (1);	0.000000	0.85682	D	0.000000	D	0.91653	0.7362	M	0.86343	2.81	0.80722	D	1	B	0.20780	0.048	B	0.32533	0.147	D	0.90146	0.4217	10	0.87932	D	0	.	15.105	0.72315	1.0:0.0:0.0:0.0	.	111	P04075	ALDOA_HUMAN	R	165;111;111;111	ENSP00000378669:K165R;ENSP00000336927:K111R;ENSP00000400452:K111R;ENSP00000378661:K111R	ENSP00000336927:K111R	K	+	2	0	ALDOA	29987475	1.000000	0.71417	1.000000	0.80357	0.933000	0.57130	9.021000	0.93673	2.208000	0.71279	0.533000	0.62120	AAG		0.547	ALDOA-004	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000435360.1	NM_000034		G	30079974	A	G	30079974	3	3	645	1	0	0	0	0	1	0	0	0	507	72	3	3	342	3	ALDOA	16	30079974	Missense_Mutation	SNP	A	TCGA-KL-8346-01A-11D-2310-10		30079974	60274779	54	39962										
MYO15A	51168	broad.mit.edu	37	chr17	18042900	18042900	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	agtgcgccaggatgtgctggAcctgttcgtacggagccgga	16	10	0	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr17:18042900A>G	ENST00000205890.5	+	19	5524	c.5186A>G	c.(5185-5187)gAc>gGc	p.D1729G	MYO15A_ENST00000412324.1_3'UTR	NM_016239.3	NP_057323.3	Q9UKN7	MYO15_HUMAN	myosin XVA	1729	Myosin motor.				inner ear morphogenesis (GO:0042472)|locomotory behavior (GO:0007626)|sensory perception of sound (GO:0007605)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|myosin complex (GO:0016459)|stereocilium (GO:0032420)	ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(5)|central_nervous_system(2)|endometrium(17)|kidney(3)|large_intestine(16)|lung(27)|ovary(3)|pancreas(1)|prostate(6)|skin(13)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	99	all_neural(463;0.228)					GATGTGCTGGACCTGTTCGTA	0.632																																																0													72	80	78					17																	18042900		2100	4213	6313	SO:0001583	missense	51168			AF144094	CCDS42271.1	17p11.2	2011-09-27			ENSG00000091536	ENSG00000091536		"Myosins / Myosin superfamily : Class XV"	7594	protein-coding gene	gene with protein product		602666		DFNB3, MYO15		9603736	Standard	NM_016239		Approved		uc021trl.1	Q9UKN7	OTTHUMG00000059390	ENST00000205890.5:c.5186A>G	17.37:g.18042900A>G	ENSP00000205890:p.Asp1729Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFC7	Missense_Mutation	SNP	ENST00000205890.5	37	CCDS42271.1	.	.	.	.	.	.	.	.	.	.	A	13.83	2.354688	0.41700	.	.	ENSG00000091536	ENST00000205890	D	0.87179	-2.22	4.6	4.6	0.57074	Myosin head, motor domain (2);	.	.	.	.	D	0.87099	0.6093	N	0.24115	0.695	0.80722	D	1	D	0.56968	0.978	P	0.62649	0.905	D	0.88388	0.3006	9	0.72032	D	0.01	.	12.0361	0.53425	1.0:0.0:0.0:0.0	.	1729	Q9UKN7	MYO15_HUMAN	G	1729	ENSP00000205890:D1729G	ENSP00000205890:D1729G	D	+	2	0	MYO15A	17983625	1.000000	0.71417	0.983000	0.44433	0.388000	0.30384	8.963000	0.93385	1.854000	0.53819	0.379000	0.24179	GAC		0.632	MYO15A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132048.1	NM_016239		G	18042900	A	G	18042900	3	3	645	1	0	0	0	0	1	0	0	0	10070	275	10	3	5252	3	MYO15A	17	18042900	Missense_Mutation	SNP	A	TCGA-KL-8346-01A-11D-2310-10		18042900	63152310	55	39963										
ITGB4	3691	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr17	73727413	73727413	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	tccaagatgttccagaagacGaggactgggtcctttcacat	10	10	1	3			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr17:73727413G>T	ENST00000200181.3	+	10	1366	c.1179G>T	c.(1177-1179)acG>acT	p.T393T	ITGB4_ENST00000449880.2_Silent_p.T393T|ITGB4_ENST00000584558.1_3'UTR|ITGB4_ENST00000450894.3_Silent_p.T393T|ITGB4_ENST00000339591.3_Silent_p.T393T|ITGB4_ENST00000579662.1_Silent_p.T393T	NM_000213.3	NP_000204.3	P16144	ITB4_HUMAN	integrin, beta 4	393					amelogenesis (GO:0097186)|autophagy (GO:0006914)|cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|cell motility (GO:0048870)|cell-matrix adhesion (GO:0007160)|digestive tract development (GO:0048565)|extracellular matrix organization (GO:0030198)|filopodium assembly (GO:0046847)|hemidesmosome assembly (GO:0031581)|integrin-mediated signaling pathway (GO:0007229)|mesodermal cell differentiation (GO:0048333)|nail development (GO:0035878)|renal system development (GO:0072001)|response to wounding (GO:0009611)|skin development (GO:0043588)	basal plasma membrane (GO:0009925)|basement membrane (GO:0005604)|cell leading edge (GO:0031252)|cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|hemidesmosome (GO:0030056)|integrin complex (GO:0008305)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	G-protein coupled receptor binding (GO:0001664)|receptor activity (GO:0004872)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|liver(1)|lung(25)|skin(1)|urinary_tract(1)	43	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			TCCAGAAGACGAGGACTGGGT	0.642																																																0													62	61	62					17																	73727413		2203	4300	6503	SO:0001819	synonymous_variant	3691				CCDS11727.1, CCDS32736.1, CCDS58599.1	17q25.1	2013-09-19			ENSG00000132470	ENSG00000132470		"CD molecules", "Integrins", "Fibronectin type III domain containing"	6158	protein-coding gene	gene with protein product		147557				2070796	Standard	XM_005257309		Approved	CD104	uc002jpg.3	P16144	OTTHUMG00000179814	ENST00000200181.3:c.1179G>T	17.37:g.73727413G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0AVL6|O14690|O14691|O15339|O15340|O15341|Q0VF97|Q9UIQ4	Silent	SNP	ENST00000200181.3	37	CCDS11727.1																																																																																				0.642	ITGB4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000448334.1			T	73727413	G	T	73727413	2	4	645	1	0	0	0	0	0	0	0	1	7904	1045	37	4		4	ITGB4	17	73727413	Silent	SNP	G	TCGA-KL-8346-01A-11D-2310-10	55684513	73727413	7467797	56	39964										
SLC38A10	124565	ucsc.edu	37	chr17	79219503	79219503	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	ggcagggggttaaggccaatGatgaccccatccctcggggc	15	12	0	2	rs10569617|rs3833102	byFrequency	TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr17:79219503G>A	ENST00000374759.3	-	16	3596	c.3213C>T	c.(3211-3213)atC>atT	p.I1071I		NM_001037984.1	NP_001033073.1	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10	1071				Missing (in Ref. 5; AAG17235). {ECO:0000305}.	amino acid transport (GO:0006865)|bone development (GO:0060348)|sodium ion transport (GO:0006814)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)				NS(1)|breast(2)|endometrium(4)|kidney(2)|large_intestine(2)|lung(7)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	23	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			TAAGGCCAATGATGACCCCAT	0.687																																																0													30	24	26					17																	79219503		2038	3935	5973	SO:0001819	synonymous_variant	124565			BC014642	CCDS11780.1, CCDS42397.1	17q25.3	2013-05-22			ENSG00000157637	ENSG00000157637		"Solute carriers"	28237	protein-coding gene	gene with protein product							Standard	XM_005257019		Approved	MGC15523, PP1744	uc002jzz.1	Q9HBR0	OTTHUMG00000168049	ENST00000374759.3:c.3213C>T	17.37:g.79219503G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZRC5|Q8NA99|Q96C66	Silent	SNP	ENST00000374759.3	37	CCDS42397.1																																																																																				0.687	SLC38A10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000397747.1	NM_138570		A	79219503	G	A	79219503	2	1	645	1	0	0	0	0	0	0	0	1	14615	1280	45	2		2	SLC38A10	17	79219503	Silent	SNP	G	TCGA-KL-8346-01A-11D-2310-10	5492090	79219503	1975707	57	39965										
VAPA	9218	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr18	9954094	9954094	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gtagcacattcggataaaccTggatcaacctcaactgcatc	7	12	2	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr18:9954094T>A	ENST00000400000.2	+	6	891	c.636T>A	c.(634-636)ccT>ccA	p.P212P	VAPA_ENST00000340541.4_Silent_p.P257P|VAPA_ENST00000584796.1_3'UTR	NM_003574.5|NM_194434.2	NP_003565.4|NP_919415.2	Q9P0L0	VAPA_HUMAN	VAMP (vesicle-associated membrane protein)-associated protein A, 33kDa	212					cell death (GO:0008219)|membrane fusion (GO:0061025)|neuron projection development (GO:0031175)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|protein localization to endoplasmic reticulum (GO:0070972)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|sphingolipid biosynthetic process (GO:0030148)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|microtubule cytoskeleton (GO:0015630)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	protein heterodimerization activity (GO:0046982)|signal transducer activity (GO:0004871)|structural molecule activity (GO:0005198)			breast(1)|lung(2)|prostate(1)	4						CGGATAAACCTGGATCAACCT	0.388																																																0													193	174	180					18																	9954094		1903	4112	6015	SO:0001819	synonymous_variant	9218				CCDS11847.2, CCDS11848.2	18p11.2	2008-07-28	2002-08-29		ENSG00000101558	ENSG00000101558			12648	protein-coding gene	gene with protein product		605703	"VAMP (vesicle-associated membrane protein)-associated protein A (33kD)"			9920726, 9657962	Standard	NM_003574		Approved	hVAP-33, VAP-A	uc002koj.3	Q9P0L0	OTTHUMG00000131603	ENST00000400000.2:c.636T>A	18.37:g.9954094T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NDZ0|D3DUI3|O75453|Q5U0E7|Q9UBZ2	Silent	SNP	ENST00000400000.2	37	CCDS11848.2																																																																																				0.388	VAPA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254490.1			A	9954094	T	A	9954094	2	1	645	1	0	0	0	0	0	0	0	1	17133	1567	55	5		5	VAPA	18	9954094	Silent	SNP	T	TCGA-KL-8346-01A-11D-2310-10		9954094	68123154	58	39966										
TBXA2R	6915	broad.mit.edu	37	chr19	3595778	3595778	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	ctggagacgccggagcacggCgcggcggaacaggatataca	16	11	0	1			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr19:3595778C>A	ENST00000375190.4	-	3	1333	c.940G>T	c.(940-942)Gcc>Tcc	p.A314S	TBXA2R_ENST00000411851.3_Missense_Mutation_p.A314S|TBXA2R_ENST00000587717.1_5'Flank|TBXA2R_ENST00000589966.1_Missense_Mutation_p.R184L	NM_001060.5|NM_201636.2	NP_001051.1|NP_963998.2	P21731	TA2R_HUMAN	thromboxane A2 receptor	314					blood coagulation (GO:0007596)|G-protein coupled receptor signaling pathway (GO:0007186)|inflammatory response (GO:0006954)|platelet activation (GO:0030168)|positive regulation of angiogenesis (GO:0045766)|positive regulation of blood pressure (GO:0045777)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of GTPase activity (GO:0043547)|positive regulation of smooth muscle contraction (GO:0045987)|positive regulation of vasoconstriction (GO:0045907)|response to drug (GO:0042493)|response to lipopolysaccharide (GO:0032496)|response to nutrient (GO:0007584)|second-messenger-mediated signaling (GO:0019932)|thromboxane A2 signaling pathway (GO:0038193)	acrosomal vesicle (GO:0001669)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	guanyl-nucleotide exchange factor activity (GO:0005085)|thromboxane A2 receptor activity (GO:0004961)			kidney(1)|lung(2)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	8		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)	CGGAGCACGGCGCGGCGGAAC	0.677																																																0													18	23	21					19																	3595778		2173	4273	6446	SO:0001583	missense	6915				CCDS42467.1, CCDS54198.1	19p13.3	2014-09-17						"GPCR / Class A : Prostanoid receptors"	11608	protein-coding gene	gene with protein product		188070				1825698	Standard	NM_001060		Approved		uc021umv.1	P21731		ENST00000375190.4:c.940G>T	19.37:g.3595778C>A	ENSP00000364336:p.Ala314Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O75228|Q6DK52|Q9UCY1|Q9UCY2	Missense_Mutation	SNP	ENST00000375190.4	37	CCDS42467.1	.	.	.	.	.	.	.	.	.	.	C	17.42	3.385036	0.61956	.	.	ENSG00000006638	ENST00000411851;ENST00000375190	T;T	0.44482	1.27;0.92	5.27	3.03	0.35002	.	0.207524	0.39615	N	0.001305	T	0.26304	0.0642	N	0.19112	0.55	0.33934	D	0.642444	P	0.37781	0.608	B	0.34346	0.18	T	0.32719	-0.9896	10	0.35671	T	0.21	-19.7154	12.63	0.56651	0.311:0.689:0.0:0.0	.	314	P21731	TA2R_HUMAN	S	314	ENSP00000393333:A314S;ENSP00000364336:A314S	ENSP00000364336:A314S	A	-	1	0	TBXA2R	3546778	0.978000	0.34361	0.513000	0.27749	0.219000	0.24729	2.240000	0.43088	0.527000	0.28560	0.561000	0.74099	GCC		0.677	TBXA2R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453081.2			A	3595778	C	A	3595778	3	1	645	1	0	0	0	0	1	0	0	0	15675	768	27	4	340	4	TBXA2R	19	3595778	Missense_Mutation	SNP	C	TCGA-KL-8346-01A-11D-2310-10		3595778	55533205	59	39967										
CACNA1A	773	broad.mit.edu	37	chr19	13372388	13372388	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gacgatgaggatgttgaagaCgtttttaagtgagttcacca	12	5	1	4			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr19:13372388C>T	ENST00000360228.5	-	26	4125	c.4126G>A	c.(4126-4128)Gtc>Atc	p.V1376I	CACNA1A_ENST00000573710.2_Missense_Mutation_p.V1377I	NM_000068.3|NM_001127222.1|NM_001174080.1|NM_023035.2	NP_000059.3|NP_001120694.1|NP_001167551.1|NP_075461.2	O00555	CAC1A_HUMAN	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	1377					adult walking behavior (GO:0007628)|behavioral response to pain (GO:0048266)|calcium ion import (GO:0070509)|calcium ion-dependent exocytosis (GO:0017156)|calcium ion-dependent exocytosis of neurotransmitter (GO:0048791)|cell death (GO:0008219)|cell growth (GO:0016049)|cellular chloride ion homeostasis (GO:0030644)|cerebellar molecular layer development (GO:0021679)|cerebellar Purkinje cell differentiation (GO:0021702)|cerebellum maturation (GO:0021590)|dendrite morphogenesis (GO:0048813)|energy reserve metabolic process (GO:0006112)|gamma-aminobutyric acid secretion (GO:0014051)|gamma-aminobutyric acid signaling pathway (GO:0007214)|glucose metabolic process (GO:0006006)|hormone metabolic process (GO:0042445)|membrane depolarization (GO:0051899)|membrane depolarization during action potential (GO:0086010)|musculoskeletal movement, spinal reflex action (GO:0050883)|negative regulation of hormone biosynthetic process (GO:0032353)|negative regulation of neuron apoptotic process (GO:0043524)|neuromuscular process controlling balance (GO:0050885)|neuromuscular synaptic transmission (GO:0007274)|neurotransmitter metabolic process (GO:0042133)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|receptor clustering (GO:0043113)|regulation of acetylcholine secretion, neurotransmission (GO:0014056)|regulation of axonogenesis (GO:0050770)|regulation of calcium ion-dependent exocytosis (GO:0017158)|regulation of insulin secretion (GO:0050796)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|spinal cord motor neuron differentiation (GO:0021522)|sulfur amino acid metabolic process (GO:0000096)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transmission of nerve impulse (GO:0019226)|vestibular nucleus development (GO:0021750)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|syntaxin binding (GO:0019905)|voltage-gated calcium channel activity (GO:0005245)			breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(25)|prostate(2)|urinary_tract(1)	42			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Loperamide(DB00836)|Pregabalin(DB00230)|Spironolactone(DB00421)|Verapamil(DB00661)	ATGTTGAAGACGTTTTTAAGT	0.522																																																0													57	56	57					19																	13372388		2078	4204	6282	SO:0001583	missense	773			U79666	CCDS45998.1, CCDS45999.1	19p13	2014-09-17			ENSG00000141837	ENSG00000141837		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1388	protein-coding gene	gene with protein product		601011		CACNL1A4, SCA6, MHP1, MHP		8825650, 16382099, 23827678	Standard	NM_000068		Approved	Cav2.1, EA2, APCA, HPCA, FHM	uc010xne.2	O00555	OTTHUMG00000044590	ENST00000360228.5:c.4126G>A	19.37:g.13372388C>T	ENSP00000353362:p.Val1376Ile	Somatic		WXS	Illumina HiSeq	Phase_I	J3KP41|P78510|P78511|Q16290|Q92690|Q99790|Q99791|Q99792|Q99793|Q9NS88|Q9UDC4	Missense_Mutation	SNP	ENST00000360228.5	37	CCDS45998.1	.	.	.	.	.	.	.	.	.	.	C	16.33	3.094267	0.56075	.	.	ENSG00000141837	ENST00000360228;ENST00000418012;ENST00000357018;ENST00000325084	D	0.98060	-4.69	4.17	4.17	0.49024	Ion transport (1);	0.087480	0.46145	D	0.000318	D	0.96920	0.8994	N	0.17564	0.495	0.80722	D	1	D;D;D	0.89917	1.0;0.999;0.999	D;D;D	0.77004	0.985;0.974;0.989	D	0.97476	1.0044	10	0.48119	T	0.1	.	15.2662	0.73663	0.0:1.0:0.0:0.0	.	1377;1380;1376	O00555;E9PD31;Q9NS88	CAC1A_HUMAN;.;.	I	1376;1380;1377;1377	ENSP00000353362:V1376I	ENSP00000317661:V1377I	V	-	1	0	CACNA1A	13233388	1.000000	0.71417	0.995000	0.50966	0.524000	0.34500	7.757000	0.85209	1.884000	0.54569	0.561000	0.74099	GTC		0.522	CACNA1A-001	KNOWN	non_canonical_U12|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000104062.2	NM_000068		T	13372388	C	T	13372388	3	4	645	1	0	0	0	0	1	0	0	0	2540	536	19	1	3584	1	CACNA1A	19	13372388	Missense_Mutation	SNP	C	TCGA-KL-8346-01A-11D-2310-10	9776610	13372388	45756595	60	39968										
ZNF676	163223	mdanderson.org	37	chr19	22363610	22363610	+	Silent	SNP	A	A	G													0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	ttgtagggtttctctccagtAtgaattctcttatgttccat					rs201622264	byFrequency	TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr19:22363610A>G	ENST00000397121.2	-	3	1226	c.909T>C	c.(907-909)caT>caC	p.H303H		NM_001001411.2	NP_001001411.2	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	303					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(49)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	67		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				TCTCTCCAGTATGAATTCTCT	0.443																																																0													81	83	83					19																	22363610		2112	4258	6370	SO:0001819	synonymous_variant	163223			AK097798	CCDS42539.1	19p12	2013-01-08				ENSG00000196109		"Zinc fingers, C2H2-type"	20429	protein-coding gene	gene with protein product							Standard	NM_001001411		Approved		uc002nqs.1	Q8N7Q3		ENST00000397121.2:c.909T>C	19.37:g.22363610A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8MVX5	Silent	SNP	ENST00000397121.2	37	CCDS42539.1																																																																																				0.443	ZNF676-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464392.1	NM_001001411		G	22363610	A	G	22363610	2	3	645	1	0	0	0	0	0	0	0	1	18095	446	16	3		3	ZNF676	19	22363610	Silent	SNP	A	TCGA-KL-8346-01A-11D-2310-10	8991222	22363610	36765373	61	39969	350	2								
ZNF676	163223	mdanderson.org	37	chr19	22363615	22363615	+	Missense_Mutation	SNP	T	T	C													0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gggtttctctccagtatgaaTtctcttatgttccatgagct					rs76328545	byFrequency	TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr19:22363615T>C	ENST00000397121.2	-	3	1221	c.904A>G	c.(904-906)Att>Gtt	p.I302V		NM_001001411.2	NP_001001411.2	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	302					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(49)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	67		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				CCAGTATGAATTCTCTTATGT	0.428																																																0													85	88	87					19																	22363615		2125	4266	6391	SO:0001583	missense	163223			AK097798	CCDS42539.1	19p12	2013-01-08				ENSG00000196109		"Zinc fingers, C2H2-type"	20429	protein-coding gene	gene with protein product							Standard	NM_001001411		Approved		uc002nqs.1	Q8N7Q3		ENST00000397121.2:c.904A>G	19.37:g.22363615T>C	ENSP00000380310:p.Ile302Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8MVX5	Missense_Mutation	SNP	ENST00000397121.2	37	CCDS42539.1	.	.	.	.	.	.	.	.	.	.	.	0.103	-1.149580	0.01714	.	.	ENSG00000196109	ENST00000397121	T	0.00986	5.47	0.85	-1.7	0.08159	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (2);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.00580	0.0019	N	0.05534	-0.03	0.20196	N	0.999929	B	0.15930	0.015	B	0.18871	0.023	T	0.51004	-0.8760	9	0.62326	D	0.03	.	0.401	0.00426	0.2032:0.1668:0.2049:0.4252	.	302	Q8N7Q3	ZN676_HUMAN	V	302	ENSP00000380310:I302V	ENSP00000380310:I302V	I	-	1	0	ZNF676	22155455	0.000000	0.05858	0.002000	0.10522	0.002000	0.02628	-0.149000	0.10204	-3.301000	0.00192	-3.318000	0.00044	ATT		0.428	ZNF676-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464392.1	NM_001001411		C	22363615	T	C	22363615	3	2	645	1	0	0	0	0	1	0	0	0	18095	1493	52	3	866	3	ZNF676	19	22363615	Missense_Mutation	SNP	T	TCGA-KL-8346-01A-11D-2310-10	5	22363615	36765368	62	39970	350	2								
THAP8	199745	broad.mit.edu	37	chr19	36526406	36526406	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	ccactgtggcaggtgcagggTcctgggcaaggaccatggct	16	11	0	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr19:36526406T>G	ENST00000292894.1	-	4	1305	c.761A>C	c.(760-762)gAc>gCc	p.D254A	CLIP3_ENST00000360535.4_5'Flank|CLIP3_ENST00000593074.1_5'Flank|AC002116.7_ENST00000586962.1_RNA|THAP8_ENST00000538849.1_Missense_Mutation_p.D109A	NM_152658.2	NP_689871.1	Q8NA92	THAP8_HUMAN	THAP domain containing 8	254							DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(2)|endometrium(2)|large_intestine(1)|lung(1)|ovary(1)	8	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			AGGTGCAGGGTCCTGGGCAAG	0.552																																																0													99	88	92					19																	36526406		2203	4300	6503	SO:0001583	missense	199745			AK057453	CCDS33000.1	19q13.13	2013-01-25			ENSG00000161277	ENSG00000161277		"THAP (C2CH-type zinc finger) domain containing"	23191	protein-coding gene	gene with protein product		612536				12575992	Standard	NM_152658		Approved	FLJ32891	uc002oda.1	Q8NA92	OTTHUMG00000048138	ENST00000292894.1:c.761A>C	19.37:g.36526406T>G	ENSP00000292894:p.Asp254Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q0P5Z7|Q96M21	Missense_Mutation	SNP	ENST00000292894.1	37	CCDS33000.1	.	.	.	.	.	.	.	.	.	.	t	4.894	0.166084	0.09339	.	.	ENSG00000161277	ENST00000292894;ENST00000392182;ENST00000538849	D;T	0.87729	-2.29;1.79	2.92	-0.456	0.12190	.	5.545120	0.01495	U	0.017275	T	0.74831	0.3768	N	0.08118	0	0.09310	N	1	B	0.10296	0.003	B	0.08055	0.003	T	0.62695	-0.6800	10	0.34782	T	0.22	.	6.8993	0.24273	0.0:0.6457:0.0:0.3543	.	254	Q8NA92	THAP8_HUMAN	A	254;254;109	ENSP00000292894:D254A;ENSP00000445493:D109A	ENSP00000292894:D254A	D	-	2	0	THAP8	41218246	0.001000	0.12720	0.033000	0.17914	0.274000	0.26718	-0.096000	0.11059	-0.007000	0.14345	-0.141000	0.14075	GAC		0.552	THAP8-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379036.1	NM_152658		G	36526406	T	G	36526406	3	3	645	1	0	0	0	0	1	0	0	0	15862	1667	58	5	67	5	THAP8	19	36526406	Missense_Mutation	SNP	T	TCGA-KL-8346-01A-11D-2310-10	14162791	36526406	22602577	63	39971										
RYR1	6261	ucsc.edu;bcgsc.ca	37	chr19	39017691	39017691	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	caaccttcaccttcagggaaAggtatgcctccttcctctgc	7	15	3	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr19:39017691A>G	ENST00000359596.3	+	72	10685	c.10685A>G	c.(10684-10686)aAg>aGg	p.K3562R	AC067969.1_ENST00000597015.1_RNA|RYR1_ENST00000360985.3_Splice_Site_p.K3562R|RYR1_ENST00000355481.4_Splice_Site_p.K3557R			P21817	RYR1_HUMAN	ryanodine receptor 1 (skeletal)	3562					calcium ion transport (GO:0006816)|cellular response to caffeine (GO:0071313)|cytosolic calcium ion homeostasis (GO:0051480)|ion transmembrane transport (GO:0034220)|muscle contraction (GO:0006936)|ossification involved in bone maturation (GO:0043931)|outflow tract morphogenesis (GO:0003151)|release of sequestered calcium ion into cytosol (GO:0051209)|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0014808)|response to caffeine (GO:0031000)|response to hypoxia (GO:0001666)|skeletal muscle fiber development (GO:0048741)|skin development (GO:0043588)|transmembrane transport (GO:0055085)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|I band (GO:0031674)|integral component of plasma membrane (GO:0005887)|junctional membrane complex (GO:0030314)|junctional sarcoplasmic reticulum membrane (GO:0014701)|plasma membrane (GO:0005886)|sarcoplasmic reticulum (GO:0016529)|sarcoplasmic reticulum membrane (GO:0033017)|smooth endoplasmic reticulum (GO:0005790)|T-tubule (GO:0030315)|terminal cisterna (GO:0014802)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)|calcium-release channel activity (GO:0015278)|calmodulin binding (GO:0005516)|ryanodine-sensitive calcium-release channel activity (GO:0005219)|voltage-gated calcium channel activity (GO:0005245)			NS(4)|autonomic_ganglia(2)|breast(3)|central_nervous_system(5)|endometrium(26)|haematopoietic_and_lymphoid_tissue(3)|kidney(34)|large_intestine(42)|liver(1)|lung(106)|ovary(11)|pancreas(5)|prostate(9)|skin(12)|stomach(11)|upper_aerodigestive_tract(4)|urinary_tract(7)	285	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Caffeine(DB00201)|Dantrolene(DB01219)|Suramin(DB04786)	CTTCAGGGAAAGGTATGCCTC	0.478																																																0													99	83	88					19																	39017691		2203	4300	6503	SO:0001630	splice_region_variant	6261			J05200	CCDS33011.1, CCDS42563.1	19q13.1	2014-09-17				ENSG00000196218		"Ion channels / Ryanodine receptors"	10483	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 137"	180901	"central core disease of muscle"	MHS, MHS1, CCO		1862346, 16621918	Standard	NM_000540		Approved	RYR, PPP1R137	uc002oit.3	P21817		ENST00000359596.3:c.10686+1A>G	19.37:g.39017691A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q16314|Q16368|Q9NPK1|Q9P1U4	Missense_Mutation	SNP	ENST00000359596.3	37	CCDS33011.1	.	.	.	.	.	.	.	.	.	.	A	14.24	2.475382	0.43942	.	.	ENSG00000196218	ENST00000359596;ENST00000355481;ENST00000360985;ENST00000538206	D;D;D	0.97505	-4.4;-4.41;-4.4	4.36	4.36	0.52297	.	0.000000	0.64402	U	0.000001	D	0.98353	0.9453	M	0.86420	2.815	0.80722	D	1	D;D;D	0.71674	0.998;0.998;0.997	D;D;D	0.78314	0.991;0.991;0.98	D	0.99126	1.0851	10	0.72032	D	0.01	.	12.6906	0.56972	1.0:0.0:0.0:0.0	.	3562;3557;3562	P21817-3;P21817-2;P21817	.;.;RYR1_HUMAN	R	3562;3557;3562;482	ENSP00000352608:K3562R;ENSP00000347667:K3557R;ENSP00000354254:K3562R	ENSP00000347667:K3557R	K	+	2	0	RYR1	43709531	1.000000	0.71417	1.000000	0.80357	0.866000	0.49608	8.857000	0.92250	1.826000	0.53198	0.383000	0.25322	AAG		0.478	RYR1-010	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000462137.1		Missense_Mutation	G	39017691	A	G	39017691	5	3	645	1	0	0	0	0	0	0	1	0	13781	86	3	3	10971	3	RYR1	19	39017691	Splice_Site	SNP	A	TCGA-KL-8346-01A-11D-2310-10	2491285	39017691	20111292	64	39972										
HAS1	3036	ucsc.edu;bcgsc.ca	37	chr19	52222713	52222713	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gtcctcgtcagcgaagacctCgcggaacatgtcgaccatgt	11	13	1	1			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr19:52222713C>T	ENST00000222115.1	-	2	482	c.448G>A	c.(448-450)Gag>Aag	p.E150K	HAS1_ENST00000601714.1_Missense_Mutation_p.E157K|HAS1_ENST00000540069.2_Missense_Mutation_p.E149K|HAS1_ENST00000594621.1_Missense_Mutation_p.E4K	NM_001523.2	NP_001514.2	Q92839	HYAS1_HUMAN	hyaluronan synthase 1	150					carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|cellular response to platelet-derived growth factor stimulus (GO:0036120)|extracellular matrix assembly (GO:0085029)|extracellular polysaccharide biosynthetic process (GO:0045226)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan metabolic process (GO:0030203)|hyaluronan biosynthetic process (GO:0030213)|hyaluronan metabolic process (GO:0030212)|negative regulation of fibroblast migration (GO:0010764)|small molecule metabolic process (GO:0044281)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	hyaluronan synthase activity (GO:0050501)			breast(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(13)|ovary(1)|pancreas(1)|prostate(1)|skin(4)	40		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00102)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		GCGAAGACCTCGCGGAACATG	0.721																																					NSCLC(132;636 2450 45807 47979)											0													12	10	11					19																	52222713		2086	4031	6117	SO:0001583	missense	3036			U59269	CCDS12838.1, CCDS74436.1	19q13.3-q13.4	2013-02-22			ENSG00000105509	ENSG00000105509	2.4.1.212	"Glycosyltransferase family 2 domain containing"	4818	protein-coding gene	gene with protein product		601463		HAS		9169154	Standard	XM_005258834		Approved		uc002pxo.1	Q92839		ENST00000222115.1:c.448G>A	19.37:g.52222713C>T	ENSP00000222115:p.Glu150Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q14470|Q9NS49	Missense_Mutation	SNP	ENST00000222115.1	37	CCDS12838.1	.	.	.	.	.	.	.	.	.	.	.	29.9	5.044425	0.93685	.	.	ENSG00000105509	ENST00000540069;ENST00000222115;ENST00000376737;ENST00000376738	T;T	0.58797	0.31;0.31	3.83	3.83	0.44106	.	0.000000	0.85682	D	0.000000	T	0.69602	0.3129	L	0.57536	1.79	0.80722	D	1	D;D;D	0.76494	0.999;0.999;0.999	D;P;P	0.68353	0.957;0.906;0.906	T	0.71133	-0.4681	10	0.46703	T	0.11	-27.3058	13.5905	0.61957	0.0:1.0:0.0:0.0	.	149;150;149	G3V1S7;Q92839;Q8IYH3	.;HAS1_HUMAN;.	K	149;150;4;4	ENSP00000445021:E149K;ENSP00000222115:E150K	ENSP00000222115:E150K	E	-	1	0	HAS1	56914525	0.999000	0.42202	1.000000	0.80357	0.953000	0.61014	4.463000	0.60128	1.832000	0.53329	0.423000	0.28283	GAG		0.721	HAS1-005	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000466953.1	NM_001523		T	52222713	C	T	52222713	3	4	645	1	0	0	0	0	1	0	0	0	6968	893	31	1	1304	1	HAS1	19	52222713	Missense_Mutation	SNP	C	TCGA-KL-8346-01A-11D-2310-10	13205022	52222713	6906270	65	39973										
ZNF28	7576	mdanderson.org	37	chr19	53303182	53303182	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gactgaaggtcttgccacacTcattacacttgtaaggtttc	8	10	2	1	rs142391659		TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr19:53303182T>C	ENST00000457749.2	-	4	2035	c.1916A>G	c.(1915-1917)gAg>gGg	p.E639G	ZNF28_ENST00000414252.2_Missense_Mutation_p.E586G|ZNF28_ENST00000438150.2_Missense_Mutation_p.E586G|ZNF28_ENST00000360272.4_Missense_Mutation_p.E586G	NM_006969.3	NP_008900.3	P17035	ZNF28_HUMAN	zinc finger protein 28	639					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(11)|liver(1)|lung(10)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	34				GBM - Glioblastoma multiforme(134;0.0386)|Lung(386;0.145)		CTTGCCACACTCATTACACTT	0.428																																																0													193	181	185					19																	53303182		2203	4300	6503	SO:0001583	missense	7576			X52355	CCDS33093.1, CCDS33093.2	19q13.41	2013-01-08	2006-05-10		ENSG00000198538	ENSG00000198538		"Zinc fingers, C2H2-type", "-"	13073	protein-coding gene	gene with protein product			"zinc finger protein 28 (KOX 24)"				Standard	NR_036599		Approved	KOX24, DKFZp781D0275	uc002qad.3	P17035	OTTHUMG00000154564	ENST00000457749.2:c.1916A>G	19.37:g.53303182T>C	ENSP00000397693:p.Glu639Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAK9|B4E3G0|B9EIK7|Q5H9V1|Q5HYM9|Q6ZML9|Q6ZN56	Missense_Mutation	SNP	ENST00000457749.2	37	CCDS33093.2	.	.	.	.	.	.	.	.	.	.	-	10.84	1.465403	0.26335	.	.	ENSG00000198538	ENST00000438150;ENST00000457749;ENST00000360272;ENST00000414252	T;T;T;T	0.35789	1.29;1.29;1.29;1.29	1.81	0.634	0.17718	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.40546	0.1121	L	0.47716	1.5	0.09310	N	1	D	0.60575	0.988	P	0.55615	0.78	T	0.22695	-1.0209	9	0.72032	D	0.01	.	5.8153	0.18490	0.2376:0.0:0.0:0.7624	.	639	P17035	ZNF28_HUMAN	G	586;639;586;586	ENSP00000412143:E586G;ENSP00000397693:E639G;ENSP00000353410:E586G;ENSP00000444965:E586G	ENSP00000353410:E586G	E	-	2	0	ZNF28	57994994	0.000000	0.05858	0.024000	0.17045	0.568000	0.35870	-0.093000	0.11111	-0.035000	0.13691	0.248000	0.18094	GAG		0.428	ZNF28-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336038.2	NM_006969		C	53303182	T	C	53303182	3	2	645	1	0	0	0	0	1	0	0	0	17825	1551	54	3	244	3	ZNF28	19	53303182	Missense_Mutation	SNP	T	TCGA-KL-8346-01A-11D-2310-10	1080469	53303182	5825801	66	39974										
ZGPAT	84619	ucsc.edu	37	chr20	62340424	62340424	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gcggaggatggctcggcgggTgtccgtgtgctttacctgta	17	9	0	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr20:62340424T>G	ENST00000328969.5	+	2	619	c.492T>G	c.(490-492)ggT>ggG	p.G164G	ARFRP1_ENST00000607873.1_5'Flank|ZGPAT_ENST00000355969.6_Silent_p.G164G|ARFRP1_ENST00000440854.1_5'Flank|ARFRP1_ENST00000609142.1_5'Flank|ZGPAT_ENST00000369967.3_Silent_p.G164G|ZGPAT_ENST00000448100.2_Silent_p.G164G|ZGPAT_ENST00000478385.1_3'UTR|ARFRP1_ENST00000359715.5_5'Flank|RP4-583P15.15_ENST00000490623.2_Missense_Mutation_p.V70G|ZGPAT_ENST00000357119.4_Silent_p.G164G|ARFRP1_ENST00000324228.2_5'Flank	NM_032527.4	NP_115916.3	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	164					negative regulation of epidermal growth factor-activated receptor activity (GO:0007175)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(2)|kidney(1)|large_intestine(1)|lung(7)|ovary(2)|prostate(1)	14	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					GCTCGGCGGGTGTCCGTGTGC	0.592																																																0													95	93	94					20																	62340424		2203	4300	6503	SO:0001819	synonymous_variant	84619			AK027878	CCDS13534.1, CCDS13535.1, CCDS56203.1	20q13.3	2013-01-28	2004-12-01	2004-12-01	ENSG00000197114	ENSG00000197114		"Zinc fingers, CCCH-type domain containing", "G patch domain containing"	15948	protein-coding gene	gene with protein product			"KIAA1847"	KIAA1847		16952911	Standard	NM_181485		Approved	dJ583P15.3, MGC44880, FLJ14972, ZC3HDC9, ZC3H9, GPATC6, GPATCH6, ZIP	uc002ygk.3	Q8N5A5	OTTHUMG00000032998	ENST00000328969.5:c.492T>G	20.37:g.62340424T>G		Somatic		WXS	Illumina HiSeq	Phase_I	E1P5K1|Q4VXN9|Q5JWI9|Q5JWJ0|Q8NC55|Q8WUV4|Q96JI0|Q96JU4|Q9H401	Silent	SNP	ENST00000328969.5	37	CCDS13534.1																																																																																				0.592	ZGPAT-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000080214.1	NM_181484		G	62340424	T	G	62340424	2	3	645	1	0	0	0	0	0	0	0	1	17686	1683	59	5		5	ZGPAT	20	62340424	Silent	SNP	T	TCGA-KL-8346-01A-11D-2310-10		62340424	685096	67	39975										
CARD10	29775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr22	37888769	37888769	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	cgcagggcagacaccagtagCggccgcaccaaactgtaggg	14	13	0	1	rs377009692	byFrequency	TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr22:37888769C>T	ENST00000403299.1	-	18	2733	c.2517G>A	c.(2515-2517)ccG>ccA	p.P839P	CARD10_ENST00000251973.5_Silent_p.P839P|CARD10_ENST00000406271.3_Silent_p.P553P			Q9BWT7	CAR10_HUMAN	caspase recruitment domain family, member 10	839					activation of NF-kappaB-inducing kinase activity (GO:0007250)|protein complex assembly (GO:0006461)|regulation of apoptotic process (GO:0042981)	CBM complex (GO:0032449)|cytoplasm (GO:0005737)	receptor signaling complex scaffold activity (GO:0030159)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(5)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	17	Melanoma(58;0.0574)					ACACCAGTAGCGGCCGCACCA	0.662													C|||	31	0.0061901	0.0	0.0	5008	,	,		14734	0.0		0.0	False		,,,				2504	0.0317															0								C		1,4405	2.1+/-5.4	0,1,2202	30	30	30		2517	-9.7	0.3	22		30	0,8598		0,0,4299	no	coding-synonymous	CARD10	NM_014550.3		0,1,6501	TT,TC,CC		0.0,0.0227,0.0077		839/1033	37888769	1,13003	2203	4299	6502	SO:0001819	synonymous_variant	29775			AF086324	CCDS13948.1	22q13.1	2008-05-22			ENSG00000100065	ENSG00000100065			16422	protein-coding gene	gene with protein product		607209				11259443, 11356195	Standard	NM_014550		Approved	CARMA3, BIMP1	uc003asu.1	Q9BWT7	OTTHUMG00000150592	ENST00000403299.1:c.2517G>A	22.37:g.37888769C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14CQ8|Q5TFG6|Q8NC81|Q9UGR5|Q9UGR6|Q9Y3H0	Silent	SNP	ENST00000403299.1	37	CCDS13948.1																																																																																				0.662	CARD10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318997.1	NM_014550		T	37888769	C	T	37888769	2	4	645	1	0	0	0	0	0	0	0	1	2646	755	27	1		1	CARD10	22	37888769	Silent	SNP	C	TCGA-KL-8346-01A-11D-2310-10		37888769	13415797	68	39976										
MICALL1	85377	broad.mit.edu;hgsc.bcm.edu	37	chr22	38328810	38328810	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	gtatctggcttccagagggcCgtgaggatgacatgctggtg	16	8	1	3			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr22:38328810C>T	ENST00000215957.6	+	12	2275	c.2149C>T	c.(2149-2151)Cgt>Tgt	p.R717C	MICALL1_ENST00000402631.1_3'UTR	NM_033386.3	NP_203744.1	Q8N3F8	MILK1_HUMAN	MICAL-like 1	717	Necessary and sufficient to associate with tubular recycling endosome membranes, mediate phosphatidic acid- binding and membrane tubulation.|RAB-binding domain (RBD); mediates the interaction with RAB13 and RAB35 and intramolecular interaction with the CH domain.				endocytosis (GO:0006897)|membrane tubulation (GO:0097320)|neuron projection development (GO:0031175)|protein localization to endosome (GO:0036010)|protein targeting to membrane (GO:0006612)|receptor-mediated endocytosis (GO:0006898)|retrograde transport, endosome to plasma membrane (GO:1990126)|slow endocytic recycling (GO:0032458)	extrinsic component of membrane (GO:0019898)|late endosome (GO:0005770)|recycling endosome membrane (GO:0055038)	identical protein binding (GO:0042802)|phosphatidic acid binding (GO:0070300)|Rab GTPase binding (GO:0017137)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(8)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	24	Melanoma(58;0.045)					TCCAGAGGGCCGTGAGGATGA	0.637																																																0													73	61	65					22																	38328810		2203	4300	6503	SO:0001583	missense	85377			BK000466	CCDS13961.1	22q13.1	2006-11-24			ENSG00000100139	ENSG00000100139			29804	protein-coding gene	gene with protein product	"molecule interacting with Rab13"					11258795, 12110185	Standard	NM_033386		Approved	MIRAB13, KIAA1668, MICAL-L1	uc003aui.3	Q8N3F8	OTTHUMG00000150670	ENST00000215957.6:c.2149C>T	22.37:g.38328810C>T	ENSP00000215957:p.Arg717Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TI16|Q7RTP5|Q8N3N8|Q9BVL9|Q9BY92|Q9UH43|Q9UH44|Q9UH45	Missense_Mutation	SNP	ENST00000215957.6	37	CCDS13961.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	15.60|15.60	2.880935|2.880935	0.51801|0.51801	.|.	.|.	ENSG00000100139|ENSG00000100139	ENST00000454685|ENST00000215957;ENST00000402631;ENST00000424008	.|T;T;T	.|0.44881	.|0.91;0.91;0.91	5.17|5.17	1.7|1.7	0.24286|0.24286	.|Domain of unknown function DUF3585 (1);	.|0.580733	.|0.17003	.|N	.|0.190850	T|T	0.29158|0.29158	0.0725|0.0725	L|L	0.36672|0.36672	1.1|1.1	0.58432|0.58432	D|D	0.999995|0.999995	.|B	.|0.20052	.|0.041	.|B	.|0.12837	.|0.008	T|T	0.08953|0.08953	-1.0697|-1.0697	5|10	.|0.72032	.|D	.|0.01	.|.	5.5158|5.5158	0.16906|0.16906	0.1382:0.5376:0.2524:0.0718|0.1382:0.5376:0.2524:0.0718	.|.	.|717	.|Q8N3F8	.|MILK1_HUMAN	L|C	292|717;144;31	.|ENSP00000215957:R717C;ENSP00000384608:R144C;ENSP00000416766:R31C	.|ENSP00000215957:R717C	P|R	+|+	2|1	0|0	MICALL1|MICALL1	36658756|36658756	0.784000|0.784000	0.28713|0.28713	0.998000|0.998000	0.56505|0.56505	0.978000|0.978000	0.69477|0.69477	1.285000|1.285000	0.33261|0.33261	0.213000|0.213000	0.20722|0.20722	-0.282000|-0.282000	0.10007|0.10007	CCG|CGT		0.637	MICALL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319545.4	NM_033386		T	38328810	C	T	38328810	3	4	645	1	0	0	0	0	1	0	0	0	9580	652	23	1	2195	1	MICALL1	22	38328810	Missense_Mutation	SNP	C	TCGA-KL-8346-01A-11D-2310-10	440041	38328810	12975756	69	39977										
CYP2D6	1565	mdanderson.org	37	chr22	42523539	42523539	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	tccccaaagcgctgcacctcAtgaatcacggcagtggtgta	10	13	2	1	rs28371726	byFrequency	TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chr22:42523539A>G	ENST00000360608.5	-	7	1197	c.1083T>C	c.(1081-1083)caT>caC	p.H361H	NDUFA6-AS1_ENST00000536447.2_RNA|NDUFA6-AS1_ENST00000416037.2_RNA|CYP2D6_ENST00000359033.4_Silent_p.H310H|NDUFA6-AS1_ENST00000439129.1_RNA|NDUFA6-AS1_ENST00000417327.1_RNA|NDUFA6-AS1_ENST00000451451.1_RNA|NDUFA6-AS1_ENST00000610250.1_RNA|NDUFA6-AS1_ENST00000600968.1_RNA|CYP2D6_ENST00000389970.3_Silent_p.H361H|NDUFA6-AS1_ENST00000595777.1_RNA|NDUFA6-AS1_ENST00000434834.1_RNA	NM_000106.5	NP_000097	P10635	CP2D6_HUMAN	cytochrome P450, family 2, subfamily D, polypeptide 6	361					alkaloid catabolic process (GO:0009822)|alkaloid metabolic process (GO:0009820)|coumarin metabolic process (GO:0009804)|drug catabolic process (GO:0042737)|drug metabolic process (GO:0017144)|heterocycle metabolic process (GO:0046483)|isoquinoline alkaloid metabolic process (GO:0033076)|monoterpenoid metabolic process (GO:0016098)|negative regulation of binding (GO:0051100)|negative regulation of cellular organofluorine metabolic process (GO:0090350)|oxidation-reduction process (GO:0055114)|oxidative demethylation (GO:0070989)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|mitochondrion (GO:0005739)	aromatase activity (GO:0070330)|drug binding (GO:0008144)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity (GO:0016491)			NS(1)|breast(2)|endometrium(1)|large_intestine(2)|lung(4)|prostate(7)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	21					Abiraterone(DB05812)|Acebutolol(DB01193)|Acetaminophen(DB00316)|Ajmaline(DB01426)|Almotriptan(DB00918)|Alogliptin(DB06203)|Alprenolol(DB00866)|Aminophenazone(DB01424)|Amiodarone(DB01118)|Amitriptyline(DB00321)|Amlodipine(DB00381)|Amodiaquine(DB00613)|Amoxapine(DB00543)|Amphetamine(DB00182)|Amprenavir(DB00701)|Amsacrine(DB00276)|Antipyrine(DB01435)|Aprindine(DB01429)|Arformoterol(DB01274)|Aripiprazole(DB01238)|Artemether(DB06697)|Asenapine(DB06216)|Astemizole(DB00637)|Atomoxetine(DB00289)|Atorvastatin(DB01076)|Azelastine(DB00972)|Benzatropine(DB00245)|Benzyl alcohol(DB06770)|Bepridil(DB01244)|Betaxolol(DB00195)|Bicalutamide(DB01128)|Biperiden(DB00810)|Bisoprolol(DB00612)|Bortezomib(DB00188)|Brompheniramine(DB00835)|Bupivacaine(DB00297)|Buprenorphine(DB00921)|Bupropion(DB01156)|Buspirone(DB00490)|Caffeine(DB00201)|Captopril(DB01197)|Carbinoxamine(DB00748)|Carteolol(DB00521)|Carvedilol(DB01136)|Celecoxib(DB00482)|Cephalexin(DB00567)|Cevimeline(DB00185)|Chlordiazepoxide(DB00475)|Chloroquine(DB00608)|Chlorphenamine(DB01114)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cholecalciferol(DB00169)|Ciclesonide(DB01410)|Cilostazol(DB01166)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Cinnarizine(DB00568)|Cisapride(DB00604)|Citalopram(DB00215)|Clemastine(DB00283)|Clevidipine(DB04920)|Clomipramine(DB01242)|Clonidine(DB00575)|Clotrimazole(DB00257)|Clozapine(DB00363)|Cocaine(DB00907)|Codeine(DB00318)|Cyclobenzaprine(DB00924)|Cyclophosphamide(DB00531)|Cyclosporine(DB00091)|Dapagliflozin(DB06292)|Darifenacin(DB00496)|Debrisoquin(DB04840)|Delavirdine(DB00705)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexamethasone(DB01234)|Dexfenfluramine(DB01191)|Dexmedetomidine(DB00633)|Dexmethylphenidate(DB06701)|Dextroamphetamine(DB01576)|Dextromethorphan(DB00514)|Dextropropoxyphene(DB00647)|Dihydrocodeine(DB01551)|Diltiazem(DB00343)|Dimethyl sulfoxide(DB01093)|Diphenhydramine(DB01075)|Dolasetron(DB00757)|Domperidone(DB01184)|Donepezil(DB00843)|Dopamine(DB00988)|Doxazosin(DB00590)|Doxepin(DB01142)|Doxorubicin(DB00997)|Dronedarone(DB04855)|Duloxetine(DB00476)|Efavirenz(DB00625)|Eletriptan(DB00216)|Encainide(DB01228)|Enzalutamide(DB08899)|Epinastine(DB00751)|Erlotinib(DB00530)|Escitalopram(DB01175)|Ethylmorphine(DB01466)|Etoricoxib(DB01628)|Felodipine(DB01023)|Fesoterodine(DB06702)|Fexofenadine(DB00950)|Fingolimod(DB08868)|Flecainide(DB01195)|Flunarizine(DB04841)|Fluoxetine(DB00472)|Fluphenazine(DB00623)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Galantamine(DB00674)|Gefitinib(DB00317)|Glutethimide(DB01437)|Granisetron(DB00889)|Halofantrine(DB01218)|Haloperidol(DB00502)|Halothane(DB01159)|Histamine Phosphate(DB00667)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Hydroxychloroquine(DB01611)|Hydroxyurea(DB01005)|Hydroxyzine(DB00557)|Idarubicin(DB01177)|Iloperidone(DB04946)|Imatinib(DB00619)|Imipramine(DB00458)|Indinavir(DB00224)|Ipratropium bromide(DB00332)|Irbesartan(DB01029)|Isoniazid(DB00951)|Itraconazole(DB01167)|Ketoconazole(DB01026)|L-DOPA(DB01235)|Labetalol(DB00598)|Lansoprazole(DB00448)|Lercanidipine(DB00528)|Levomilnacipran(DB08918)|Lidocaine(DB00281)|Lisuride(DB00589)|Lomustine(DB01206)|Loperamide(DB00836)|Lopinavir(DB01601)|Loratadine(DB00455)|Lorcaserin(DB04871)|Lovastatin(DB00227)|Lumefantrine(DB06708)|Maprotiline(DB00934)|Mefloquine(DB00358)|Mepyramine(DB06691)|Mequitazine(DB01071)|Mesoridazine(DB00933)|Methadone(DB00333)|Methamphetamine(DB01577)|Methazolamide(DB00703)|Methimazole(DB00763)|Methotrimeprazine(DB01403)|Methoxyflurane(DB01028)|Methylnaltrexone(DB06800)|Methylphenidate(DB00422)|Methyprylon(DB01107)|Metoclopramide(DB01233)|Metoprolol(DB00264)|Mexiletine(DB00379)|Mianserin(DB06148)|Miconazole(DB01110)|Midodrine(DB00211)|Mifepristone(DB00834)|Minaprine(DB00805)|Mirabegron(DB08893)|Mirtazapine(DB00370)|Moclobemide(DB01171)|Morphine(DB00295)|Nateglinide(DB00731)|Nebivolol(DB04861)|Nefazodone(DB01149)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Niacin(DB00627)|Nicardipine(DB00622)|Nicergoline(DB00699)|Nicotine(DB00184)|Nifedipine(DB01115)|Nilotinib(DB04868)|Nitrofural(DB00336)|Nortriptyline(DB00540)|Olanzapine(DB00334)|Omeprazole(DB00338)|Ondansetron(DB00904)|Oxamniquine(DB01096)|Oxprenolol(DB01580)|Oxybutynin(DB01062)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Paliperidone(DB01267)|Palonosetron(DB00377)|Paroxetine(DB00715)|Pazopanib(DB06589)|Pentamidine(DB00738)|Pergolide(DB01186)|Perhexiline(DB01074)|Perphenazine(DB00850)|Pethidine(DB00454)|Phenformin(DB00914)|Phentermine(DB00191)|Pimozide(DB01100)|Pindolol(DB00960)|Pioglitazone(DB01132)|Piperazine(DB00592)|Pipotiazine(DB01621)|Ponatinib(DB08901)|Pravastatin(DB00175)|Praziquantel(DB01058)|Primaquine(DB01087)|Procainamide(DB01035)|Prochlorperazine(DB00433)|Progesterone(DB00396)|Proguanil(DB01131)|Promethazine(DB01069)|Propafenone(DB01182)|Propofol(DB00818)|Propranolol(DB00571)|Protriptyline(DB00344)|Pseudoephedrine(DB00852)|Pyrimethamine(DB00205)|Quetiapine(DB01224)|Quinidine(DB00908)|Quinine(DB00468)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ranolazine(DB00243)|Reboxetine(DB00234)|Remoxipride(DB00409)|Rifapentine(DB01201)|Risperidone(DB00734)|Ritonavir(DB00503)|Rivastigmine(DB00989)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Rosiglitazone(DB00412)|Rotigotine(DB05271)|Saquinavir(DB01232)|Selegiline(DB01037)|Sertindole(DB06144)|Sertraline(DB01104)|Sildenafil(DB00203)|Simvastatin(DB00641)|Sorafenib(DB00398)|Sulfanilamide(DB00259)|Sulfaphenazole(DB06729)|Tamoxifen(DB00675)|Tamsulosin(DB00706)|Tapentadol(DB06204)|Telithromycin(DB00976)|Temsirolimus(DB06287)|Terbinafine(DB00857)|Tetrabenazine(DB04844)|Theophylline(DB00277)|Thioridazine(DB00679)|Thiothixene(DB01623)|Ticlopidine(DB00208)|Timolol(DB00373)|Tiotropium(DB01409)|Tipranavir(DB00932)|Tolterodine(DB01036)|Trabectedin(DB05109)|Tramadol(DB00193)|Tranylcypromine(DB00752)|Trazodone(DB00656)|Trimipramine(DB00726)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Trospium(DB00209)|Vemurafenib(DB08881)|Venlafaxine(DB00285)|Verapamil(DB00661)|Vilazodone(DB06684)|Vinblastine(DB00570)|Vinorelbine(DB00361)|Yohimbine(DB01392)|Zafirlukast(DB00549)|Zalcitabine(DB00943)|Ziprasidone(DB00246)|Zolpidem(DB00425)	GCTGCACCTCATGAATCACGG	0.602																																																0													119	93	102					22																	42523539		2202	4299	6501	SO:0001819	synonymous_variant	1565			M20403	CCDS33657.1, CCDS46721.1	22q13.1	2014-09-17	2003-01-14		ENSG00000100197	ENSG00000100197		"Cytochrome P450s"	2625	protein-coding gene	gene with protein product		124030	"cytochrome P450, subfamily IID (debrisoquine, sparteine, etc., -metabolizing), polypeptide 6", "cytochrome P450, family 2, subfamily D, polypeptide 7 pseudogene 2", "cytochrome P450, subfamily II (debrisoquine, sparteine, etc., -metabolising), polypeptide 7 pseudogene 2", "cytochrome P450, family 2, subfamily D, polypeptide 8 pseudogene 2", "cytochrome P450, subfamily IID (debrisoquine, sparteine, etc., -metabolising), polypeptide 8 pseudogene 2"	CYP2DL1, CYP2D7P2, CYP2D7BP, CYP2D8P2, CYP2D7AP		8449513	Standard	NM_000106		Approved	CPD6, P450-DB1, CYP2D, P450C2D	uc003bce.3	P10635	OTTHUMG00000150918	ENST00000360608.5:c.1083T>C	22.37:g.42523539A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q16752|Q2XND6|Q2XND7|Q2XNE0|Q6B012|Q6NXU8	Silent	SNP	ENST00000360608.5	37	CCDS46721.1																																																																																				0.602	CYP2D6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000320525.1			G	42523539	A	G	42523539	2	3	645	1	0	0	0	0	0	0	0	1	4171	214	8	3		3	CYP2D6	22	42523539	Silent	SNP	A	TCGA-KL-8346-01A-11D-2310-10	4194729	42523539	8781027	70	39978										
UBA1	7317	bcgsc.ca	37	chrX	47058254	47058254	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	cgtgtccgggcctgatccaaAgccgggttctaactgctccc	11	15	1	1			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chrX:47058254A>G	ENST00000335972.6	+	2	236	c.53A>G	c.(52-54)aAg>aGg	p.K18R	UBA1_ENST00000377351.4_Missense_Mutation_p.K18R	NM_003334.3	NP_003325.2	P22314	UBA1_HUMAN	ubiquitin-like modifier activating enzyme 1	18					cell death (GO:0008219)|cellular response to DNA damage stimulus (GO:0006974)|modification-dependent protein catabolic process (GO:0019941)|protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|ubiquitin activating enzyme activity (GO:0004839)|ubiquitin-protein transferase activity (GO:0004842)			breast(2)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(7)|ovary(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	31						CCTGATCCAAAGCCGGGTTCT	0.602																																																0													98	75	83					X																	47058254		2203	4300	6503	SO:0001583	missense	7317			AF258566	CCDS14275.1	Xp11.23	2014-08-13	2007-11-30	2007-11-30	ENSG00000130985	ENSG00000130985	6.3.2.19	"Ubiquitin-like modifier activating enzymes"	12469	protein-coding gene	gene with protein product	"UBA1, ubiquitin-activating enzyme E1 homolog (yeast)", "POC20 centriolar protein homolog (Chlamydomonas)"	314370	"ubiquitin-activating enzyme E1 (A1S9T and BN75 temperature sensitivity complementing)", "ubiquitin-activating enzyme E1"	A1S9T, GXP1, UBE1		1845793	Standard	NM_153280		Approved	UBE1X, POC20, CFAP124	uc004dhj.4	P22314	OTTHUMG00000021436	ENST00000335972.6:c.53A>G	X.37:g.47058254A>G	ENSP00000338413:p.Lys18Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JRR8|Q96E13	Missense_Mutation	SNP	ENST00000335972.6	37	CCDS14275.1	.	.	.	.	.	.	.	.	.	.	A	19.47	3.833108	0.71258	.	.	ENSG00000130985	ENST00000377351;ENST00000412206;ENST00000427561;ENST00000442035;ENST00000457753;ENST00000335972;ENST00000451702	T;T;D;T;T;T;T	0.83335	0.93;-0.09;-1.71;-0.1;-1.2;0.93;-0.76	5.3	5.3	0.74995	.	0.047429	0.85682	D	0.000000	T	0.70850	0.3271	N	0.19112	0.55	0.80722	D	1	B	0.23735	0.09	B	0.21708	0.036	T	0.65981	-0.6036	10	0.17832	T	0.49	-11.736	13.4039	0.60900	1.0:0.0:0.0:0.0	.	18	P22314	UBA1_HUMAN	R	18;18;32;32;69;18;69	ENSP00000366568:K18R;ENSP00000415033:K18R;ENSP00000397816:K32R;ENSP00000389583:K32R;ENSP00000404796:K69R;ENSP00000338413:K18R;ENSP00000401101:K69R	ENSP00000338413:K18R	K	+	2	0	UBA1	46943198	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.578000	0.74032	1.876000	0.54355	0.483000	0.47432	AAG		0.602	UBA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056389.1	NM_003334		G	47058254	A	G	47058254	3	3	645	1	0	0	0	0	1	0	0	0	16839	72	3	3	55	3	UBA1	23	47058254	Missense_Mutation	SNP	A	TCGA-KL-8346-01A-11D-2310-10		47058254	108212306	71	39979										
ABCB7	22	broad.mit.edu	37	chrX	74273332	74273332	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	ggttatcatggttctgcacaCggctgctctgtgtatgccac	11	11	3	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chrX:74273332C>T	ENST00000373394.3	-	16	2139	c.2132G>A	c.(2131-2133)cGt>cAt	p.R711H	ABCB7_ENST00000339447.4_Missense_Mutation_p.R671H|ABCB7_ENST00000253577.3_Missense_Mutation_p.R712H			O75027	ABCB7_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP), member 7	711					cellular iron ion homeostasis (GO:0006879)|heme transport (GO:0015886)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|heme transporter activity (GO:0015232)			breast(1)|endometrium(5)|large_intestine(5)|lung(6)|ovary(2)|prostate(1)	20						GTTCTGCACACGGCTGCTCTG	0.408																																																0													106	86	92					X																	74273332		2203	4298	6501	SO:0001583	missense	22			AF038950	CCDS14428.1, CCDS65290.1, CCDS65291.1, CCDS75994.1	Xq13.3	2012-03-14			ENSG00000131269	ENSG00000131269		"ATP binding cassette transporters / subfamily B"	48	protein-coding gene	gene with protein product		300135		ABC7		9143506	Standard	NM_004299		Approved	EST140535, Atm1p, ASAT	uc004ebz.4	O75027	OTTHUMG00000021862	ENST00000373394.3:c.2132G>A	X.37:g.74273332C>T	ENSP00000362492:p.Arg711His	Somatic		WXS	Illumina HiSeq	Phase_I	G3XAC4|O75345|Q5VWY7|Q5VWY8|Q9BRE1|Q9UND1|Q9UP01	Missense_Mutation	SNP	ENST00000373394.3	37		.	.	.	.	.	.	.	.	.	.	C	12.56	1.976022	0.34848	.	.	ENSG00000131269	ENST00000535115;ENST00000253577;ENST00000339447;ENST00000373394;ENST00000529949	D;D;D;D	0.88354	-1.96;-1.96;-1.96;-2.37	5.76	2.67	0.31697	.	0.194650	0.50627	N	0.000119	T	0.75932	0.3917	N	0.17800	0.525	0.39586	D	0.969512	B;B;D;B;B	0.54601	0.006;0.051;0.967;0.006;0.051	B;B;B;B;B	0.38056	0.009;0.007;0.264;0.004;0.011	T	0.73078	-0.4096	10	0.46703	T	0.11	-22.0547	6.9083	0.24321	0.0:0.5756:0.1388:0.2856	.	685;671;712;711;712	G3V1J3;G3XAC4;B3KM98;O75027;O75027-2	.;.;.;ABCB7_HUMAN;.	H	685;712;671;711;685	ENSP00000253577:R712H;ENSP00000343849:R671H;ENSP00000362492:R711H;ENSP00000436586:R685H	ENSP00000253577:R712H	R	-	2	0	ABCB7	74190057	0.315000	0.24571	0.951000	0.38953	0.991000	0.79684	0.369000	0.20416	0.508000	0.28173	0.600000	0.82982	CGT		0.408	ABCB7-002	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000057274.1	NM_004299		T	74273332	C	T	74273332	3	4	645	1	0	0	0	0	1	0	0	0	46	536	19	1	130	1	ABCB7	23	74273332	Missense_Mutation	SNP	C	TCGA-KL-8346-01A-11D-2310-10	27215078	74273332	80997228	72	39980										
TCEAL4	79921	mdanderson.org	37	chrX	102842229	102842229	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	cagggccccacgaagggacaTtgaagacattccttatgtgt	11	10	0	2	rs201993261		TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chrX:102842229T>C	ENST00000472745.1	+	3	1178	c.626T>C	c.(625-627)aTt>aCt	p.I209T	TCEAL4_ENST00000415568.2_Missense_Mutation_p.I209T|TCEAL4_ENST00000468024.1_Missense_Mutation_p.I209T|TCEAL4_ENST00000472484.1_Missense_Mutation_p.I209T|TCEAL4_ENST00000372629.4_Missense_Mutation_p.I352T|TCEAL4_ENST00000494801.1_Missense_Mutation_p.I209T			Q96EI5	TCAL4_HUMAN	transcription elongation factor A (SII)-like 4	209					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)		p.I352T(1)		endometrium(1)|kidney(1)|large_intestine(2)|skin(2)	6						CGAAGGGACATTGAAGACATT	0.498																																																1	Substitution - Missense(1)	skin(1)																																								SO:0001583	missense	79921			AF314542	CCDS14510.2, CCDS76004.1	Xq22.2	2014-03-21			ENSG00000133142	ENSG00000133142			26121	protein-coding gene	gene with protein product						14702039, 16221301	Standard	XM_005262192		Approved	FLJ21174, WEX7	uc004ekn.3	Q96EI5	OTTHUMG00000022103	ENST00000472745.1:c.626T>C	X.37:g.102842229T>C	ENSP00000424314:p.Ile209Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WY12|Q9H2H1|Q9H775	Missense_Mutation	SNP	ENST00000472745.1	37	CCDS14510.2	.	.	.	.	.	.	.	.	.	.	T	9.922	1.212528	0.22289	.	.	ENSG00000133142	ENST00000372629;ENST00000468024;ENST00000472484;ENST00000415568;ENST00000414064;ENST00000472745;ENST00000494801	T;T;T;T;T;T	0.26660	1.72;1.82;1.82;1.82;1.82;1.82	3.73	-0.255	0.12988	.	1.237680	0.05849	N	0.620821	T	0.11410	0.0278	N	0.08118	0	0.21499	N	0.999669	B	0.02656	0.0	B	0.04013	0.001	T	0.28364	-1.0046	10	0.45353	T	0.12	.	0.6663	0.00851	0.2069:0.1222:0.2101:0.4607	.	209	Q96EI5	TCAL4_HUMAN	T	352;209;209;209;180;209;209	ENSP00000361712:I352T;ENSP00000421857:I209T;ENSP00000421156:I209T;ENSP00000415564:I209T;ENSP00000424314:I209T;ENSP00000427494:I209T	ENSP00000361712:I352T	I	+	2	0	TCEAL4	102728885	0.901000	0.30685	0.921000	0.36526	0.996000	0.88848	0.097000	0.15168	-0.120000	0.11809	0.425000	0.28330	ATT		0.498	TCEAL4-004	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000252339.2	NM_024863		C	102842229	T	C	102842229	3	2	645	1	0	0	0	0	1	0	0	0	15685	1493	52	3	628	3	TCEAL4	23	102842229	Missense_Mutation	SNP	T	TCGA-KL-8346-01A-11D-2310-10	28568897	102842229	52428331	73	39981										
SLC25A5	292	mdanderson.org	37	chrX	118603756	118603756	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	tggccaatgtcatcagatacTtccccacccaggctcttaac	6	15	3	1			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chrX:118603756T>A	ENST00000317881.8	+	2	360	c.244T>A	c.(244-246)Ttc>Atc	p.F82I	SLC25A5_ENST00000460013.1_3'UTR|SLC25A5-AS1_ENST00000446986.1_RNA	NM_001152.4	NP_001143.2	P05141	ADT2_HUMAN	solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 5	82					adenine transport (GO:0015853)|chromosome segregation (GO:0007059)|energy reserve metabolic process (GO:0006112)|negative regulation of mitochondrial outer membrane permeabilization involved in apoptotic signaling pathway (GO:1901029)|positive regulation of cell proliferation (GO:0008284)|regulation of insulin secretion (GO:0050796)|small molecule metabolic process (GO:0044281)|transport (GO:0006810)|viral process (GO:0016032)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)|MMXD complex (GO:0071817)|nucleus (GO:0005634)	adenine transmembrane transporter activity (GO:0015207)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|ovary(1)|prostate(1)|stomach(2)	12					Clodronate(DB00720)	CATCAGATACTTCCCCACCCA	0.493																																																0													122	118	120					X																	118603756		2203	4300	6503	SO:0001583	missense	292			BC068199	CCDS14578.1	Xq24	2013-08-09			ENSG00000005022	ENSG00000005022		"Solute carriers"	10991	protein-coding gene	gene with protein product		300150		ANT2		2168878, 2829183	Standard	NM_001152		Approved	T2, 2F1, T3	uc004erh.4	P05141	OTTHUMG00000022715	ENST00000317881.8:c.244T>A	X.37:g.118603756T>A	ENSP00000360671:p.Phe82Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCV1|O43350	Missense_Mutation	SNP	ENST00000317881.8	37	CCDS14578.1	.	.	.	.	.	.	.	.	.	.	T	21.4	4.146439	0.77888	.	.	ENSG00000005022	ENST00000317881	T	0.78003	-1.14	4.18	4.18	0.49190	Mitochondrial carrier domain (2);	0.000000	0.85682	D	0.000000	T	0.81791	0.4897	M	0.83483	2.645	0.80722	D	1	P	0.47302	0.893	P	0.46718	0.525	D	0.84987	0.0892	10	0.87932	D	0	.	12.1849	0.54231	0.0:0.0:0.0:1.0	.	82	P05141	ADT2_HUMAN	I	82	ENSP00000360671:F82I	ENSP00000360671:F82I	F	+	1	0	SLC25A5	118487784	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	7.562000	0.82300	1.622000	0.50330	0.430000	0.28490	TTC		0.493	SLC25A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058952.2	NM_001152		A	118603756	T	A	118603756	3	1	645	1	0	0	0	0	1	0	0	0	14525	1609	56	5	250	5	SLC25A5	23	118603756	Missense_Mutation	SNP	T	TCGA-KL-8346-01A-11D-2310-10	15761527	118603756	36666804	74	39982										
MTMR1	8776	broad.mit.edu	37	chrX	149901024	149901024	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0410958904109589	3	1	1.05067567567568	8.40540540540541	0.382063882063882	1	1	0	aaaacactaggtgttgtcatGgattcatccggaaagtcaag	10	7	3	0			TCGA-KL-8346-01A-11D-2310-10	TCGA-KL-8346-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	bd2ec47b-a120-4b3b-b10d-aee09805ab33	684b307d-9053-47dc-b223-a5b491327703	g.chrX:149901024G>T	ENST00000370390.3	+	9	1035	c.878G>T	c.(877-879)tGg>tTg	p.W293L	MTMR1_ENST00000538506.1_Missense_Mutation_p.W180L|MTMR1_ENST00000445323.2_Missense_Mutation_p.W301L|MTMR1_ENST00000451863.2_Missense_Mutation_p.W293L|MTMR1_ENST00000541925.1_Missense_Mutation_p.W199L|MTMR1_ENST00000544228.1_Missense_Mutation_p.W293L|MTMR1_ENST00000542156.1_Missense_Mutation_p.W293L	NM_003828.2	NP_003819.1	Q13613	MTMR1_HUMAN	myotubularin related protein 1	293	Myotubularin phosphatase. {ECO:0000255|PROSITE-ProRule:PRU00669}.				phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|plasma membrane (GO:0005886)	phosphatidylinositol-3-phosphatase activity (GO:0004438)|protein tyrosine phosphatase activity (GO:0004725)			central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(7)|lung(5)|ovary(2)|prostate(1)	23	Acute lymphoblastic leukemia(192;6.56e-05)					GTGTTGTCATGGATTCATCCG	0.408																																																0													67	55	59					X																	149901024		2203	4300	6503	SO:0001583	missense	8776			U58032	CCDS14695.1	Xq28	2011-06-09			ENSG00000063601	ENSG00000063601		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	7449	protein-coding gene	gene with protein product		300171				9828128	Standard	XM_005274765		Approved		uc004fei.3	Q13613	OTTHUMG00000024159	ENST00000370390.3:c.878G>T	X.37:g.149901024G>T	ENSP00000359417:p.Trp293Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A0A024RC07|Q9UBX6|Q9UEM0|Q9UQD5	Missense_Mutation	SNP	ENST00000370390.3	37	CCDS14695.1	.	.	.	.	.	.	.	.	.	.	G	24.9	4.585470	0.86748	.	.	ENSG00000063601	ENST00000541925;ENST00000542156;ENST00000370390;ENST00000445323;ENST00000544228;ENST00000451863;ENST00000538506	D;D;D;D;D;D;D	0.93076	-3.16;-3.16;-3.16;-3.16;-3.16;-3.16;-3.16	5.93	5.07	0.68467	Myotubularin phosphatase domain (1);Myotubularin-related (1);	0.000000	0.85682	D	0.000000	D	0.98160	0.9392	H	0.98802	4.335	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;0.999;0.999	D	0.98869	1.0765	10	0.87932	D	0	.	14.3739	0.66860	0.0726:0.0:0.9274:0.0	.	293;301;293	Q13613;F8WA39;Q8NEC6	MTMR1_HUMAN;.;.	L	199;293;293;301;293;293;180	ENSP00000441879:W199L;ENSP00000445281:W293L;ENSP00000359417:W293L;ENSP00000414178:W301L;ENSP00000440534:W293L;ENSP00000387446:W293L;ENSP00000443444:W180L	ENSP00000359417:W293L	W	+	2	0	MTMR1	149651682	1.000000	0.71417	0.999000	0.59377	0.996000	0.88848	9.869000	0.99810	1.261000	0.44149	0.523000	0.50628	TGG		0.408	MTMR1-013	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000060863.2	NM_003828, NM_176789		T	149901024	G	T	149901024	3	4	645	1	0	0	0	0	1	0	0	0	9945	1357	47	4	912	4	MTMR1	23	149901024	Missense_Mutation	SNP	G	TCGA-KL-8346-01A-11D-2310-10	31297268	149901024	5369536	75	39983										
H6PD	9563	broad.mit.edu	37	chr1	9324408	9324408	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ccacacgcacctgtggctggTtgacgagcgctgcgtcccac	12	16	0	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr1:9324408T>G	ENST00000377403.2	+	5	2158	c.1856T>G	c.(1855-1857)gTt>gGt	p.V619G	H6PD_ENST00000602477.1_Missense_Mutation_p.V630G	NM_001282587.1|NM_004285.3	NP_001269516.1|NP_004276.2	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	619	6-phosphogluconolactonase.				pentose-phosphate shunt (GO:0006098)|response to alcohol (GO:0097305)	endoplasmic reticulum (GO:0005783)|mitochondrion (GO:0005739)	6-phosphogluconolactonase activity (GO:0017057)|carbohydrate binding (GO:0030246)|glucose 1-dehydrogenase [NAD(P)] activity (GO:0047936)|glucose-6-phosphate dehydrogenase activity (GO:0004345)|NADP binding (GO:0050661)			breast(1)|endometrium(2)|kidney(2)|large_intestine(5)|lung(11)|ovary(1)|upper_aerodigestive_tract(1)	23	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)		CTGTGGCTGGTTGACGAGCGC	0.677																																																0													19	21	20					1																	9324408		2190	4286	6476	SO:0001583	missense	9563			AJ012590	CCDS101.1, CCDS72697.1	1p36	2008-02-05	2003-10-10		ENSG00000049239	ENSG00000049239	1.1.1.47		4795	protein-coding gene	gene with protein product		138090	"glucose dehyrogenase"	GDH		10349511	Standard	NM_001282587		Approved		uc001apt.3	O95479	OTTHUMG00000001768	ENST00000377403.2:c.1856T>G	1.37:g.9324408T>G	ENSP00000366620:p.Val619Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q4TT33|Q66I35|Q68DT3	Missense_Mutation	SNP	ENST00000377403.2	37	CCDS101.1	.	.	.	.	.	.	.	.	.	.	T	17.48	3.400189	0.62177	.	.	ENSG00000049239	ENST00000377403	T	0.39406	1.08	5.16	2.85	0.33270	Glucosamine/galactosamine-6-phosphate isomerase (1);6-phosphogluconolactonase, DevB-type (1);	0.058049	0.64402	D	0.000002	T	0.48892	0.1525	L	0.31926	0.97	0.80722	D	1	D	0.89917	1.0	D	0.80764	0.994	T	0.43925	-0.9361	10	0.87932	D	0	-29.2922	8.7296	0.34491	0.0:0.1543:0.0:0.8457	.	619	O95479	G6PE_HUMAN	G	619	ENSP00000366620:V619G	ENSP00000366620:V619G	V	+	2	0	H6PD	9246995	1.000000	0.71417	0.738000	0.30950	0.966000	0.64601	3.810000	0.55613	0.321000	0.23259	0.459000	0.35465	GTT		0.677	H6PD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004928.2	NM_004285		G	9324408	T	G	9324408	3	3	646	1	0	0	0	0	1	0	0	0	6943	1725	60	5	1870	5	H6PD	1	9324408	Missense_Mutation	SNP	T	TCGA-KM-8438-01A-11D-2310-10		9324408	239926213	1	39984										
ZNF593	51042	mdanderson.org	37	chr1	26496651	26496651	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	cccgacctgccagggggcggTctgcaccgctgtctggcctg	15	16	2	0	rs7087	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr1:26496651T>C	ENST00000374266.5	+	1	290	c.177T>C	c.(175-177)ggT>ggC	p.G59G	RP11-96L14.7_ENST00000448923.1_RNA|RP11-96L14.7_ENST00000414762.1_RNA|RP11-96L14.7_ENST00000444682.1_RNA|RP11-96L14.7_ENST00000407889.2_RNA|ZNF593_ENST00000270812.5_Silent_p.G59G|RP11-96L14.7_ENST00000433939.1_RNA	NM_015871.4	NP_056955.2	O00488	ZN593_HUMAN	zinc finger protein 593	59					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription, DNA-templated (GO:0006351)	nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|transcription corepressor activity (GO:0003714)			large_intestine(4)|prostate(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;0.000154)|all_lung(284;0.00021)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0133)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.38e-26)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000946)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0143)|READ - Rectum adenocarcinoma(331;0.0649)		CAGGGGGCGGTCTGCACCGCT	0.706											OREG0013262	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	C|||	2678	0.534744	0.6301	0.5504	5008	,	,		13465	0.6429		0.2992	False		,,,				2504	0.5256															0								C		2355,1869		730,895,487	6	8	7		177	3.7	1	1	dbSNP_52	7	2256,6012		382,1492,2260	no	coding-synonymous	ZNF593	NM_015871.4		1112,2387,2747	CC,CT,TT		27.2859,44.2472,36.9116		59/135	26496651	4611,7881	2112	4134	6246	SO:0001819	synonymous_variant	51042			D45213	CCDS275.2	1p35.3	2012-10-05			ENSG00000142684	ENSG00000142684			30943	protein-coding gene	gene with protein product						9115366	Standard	NM_015871		Approved	ZT86	uc001bll.4	O00488	OTTHUMG00000007538	ENST00000374266.5:c.177T>C	1.37:g.26496651T>C		Somatic	787	WXS	Illumina HiSeq	Phase_I	B2R4S0|Q5T2H7	Silent	SNP	ENST00000374266.5	37	CCDS275.2																																																																																				0.706	ZNF593-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019842.2	NM_015871		C	26496651	T	C	26496651	2	2	646	1	0	0	0	0	0	0	0	1	18035	1654	58	3		3	ZNF593	1	26496651	Silent	SNP	T	TCGA-KM-8438-01A-11D-2310-10	17172243	26496651	222753970	2	39985										
OLFM3	118427	broad.mit.edu	37	chr1	102269842	102269842	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tggaaaagggtgacattgaaCagcacctggtggccattgtt	13	7	0	2			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr1:102269842C>T	ENST00000338858.5	-	6	1388	c.1389G>A	c.(1387-1389)ctG>ctA	p.L463L	OLFM3_ENST00000536598.1_3'UTR|OLFM3_ENST00000370103.4_Silent_p.L443L|OLFM3_ENST00000462354.1_5'UTR			Q96PB7	NOE3_HUMAN	olfactomedin 3	463	Olfactomedin-like. {ECO:0000255|PROSITE- ProRule:PRU00446}.				eye photoreceptor cell development (GO:0042462)	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex (GO:0032281)|cell junction (GO:0030054)|extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|synapse (GO:0045202)				breast(1)|endometrium(1)|kidney(1)|large_intestine(8)|lung(24)|ovary(3)|prostate(1)|skin(1)|soft_tissue(1)|upper_aerodigestive_tract(2)	43		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)		TGACATTGAACAGCACCTGGT	0.408																																																0													150	142	145					1																	102269842		2203	4300	6503	SO:0001819	synonymous_variant	118427			AF397392	CCDS30781.1, CCDS72832.1	1p22	2008-05-23			ENSG00000118733	ENSG00000118733			17990	protein-coding gene	gene with protein product	"optimedin"	607567				12019210, 16115881	Standard	NM_001288821		Approved	NOE3	uc001dug.2	Q96PB7	OTTHUMG00000010941	ENST00000338858.5:c.1389G>A	1.37:g.102269842C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3V6|Q6IMI7|Q6IMI8|Q6IMI9|Q6IMJ1|Q8TBG1|Q96PB2|Q96PB3|Q96PB4|Q96PB5|Q96PB6	Silent	SNP	ENST00000338858.5	37																																																																																					0.408	OLFM3-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000030142.1			T	102269842	C	T	102269842	2	4	646	1	0	0	0	0	0	0	0	1	10861	465	17	2		2	OLFM3	1	102269842	Silent	SNP	C	TCGA-KM-8438-01A-11D-2310-10	75773191	102269842	146980779	3	39986										
LAD1	3898	mdanderson.org	37	chr1	201358386	201358386	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	cggtgccgccgcctgcgctcGcgctcctgttcctcctcatc	10	20	1	0	rs150992211	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr1:201358386G>A	ENST00000391967.2	-	2	385	c.84C>T	c.(82-84)cgC>cgT	p.R28R	LAD1_ENST00000367313.3_Silent_p.R42R	NM_005558.3	NP_005549.2	O00515	LAD1_HUMAN	ladinin 1	28	Poly-Arg.					basement membrane (GO:0005604)	structural molecule activity (GO:0005198)			breast(2)|central_nervous_system(1)|endometrium(1)|large_intestine(5)|lung(6)|prostate(2)|skin(2)	19						GCCTGCGCTCGCGCTCCTGTT	0.672													G|||	5	0.000998403	0.0	0.0	5008	,	,		18002	0.0		0.005	False		,,,				2504	0.0															0								G		0,4406		0,0,2203	46	44	45		84	-10.3	0	1	dbSNP_134	45	5,8595	4.3+/-15.6	0,5,4295	no	coding-synonymous	LAD1	NM_005558.3		0,5,6498	AA,AG,GG		0.0581,0.0,0.0384		28/518	201358386	5,13001	2203	4300	6503	SO:0001819	synonymous_variant	3898			U42408	CCDS1410.1	1q25.1-q32.3	2008-02-05			ENSG00000159166	ENSG00000159166			6472	protein-coding gene	gene with protein product		602314				8618013, 9119369	Standard	NM_005558		Approved		uc001gwm.3	O00515	OTTHUMG00000035737	ENST00000391967.2:c.84C>T	1.37:g.201358386G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O95614|Q96GD8	Silent	SNP	ENST00000391967.2	37	CCDS1410.1																																																																																				0.672	LAD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086946.1	NM_005558		A	201358386	G	A	201358386	2	1	646	1	0	0	0	0	0	0	0	1	8606	1074	38	1		1	LAD1	1	201358386	Silent	SNP	G	TCGA-KM-8438-01A-11D-2310-10	99088544	201358386	47892235	4	39987										
CR1L	1379	broad.mit.edu	37	chr1	207896964	207896964	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	acttttgtcttccttttaggTtcacatgatgctcttatagt	6	8	3	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr1:207896964T>C	ENST00000508064.2	+	12	1704	c.1644T>C	c.(1642-1644)ggT>ggC	p.G548G		NM_175710.1	NP_783641.1	Q2VPA4	CR1L_HUMAN	complement component (3b/4b) receptor 1-like	548						cytoplasm (GO:0005737)|extracellular region (GO:0005576)|membrane (GO:0016020)|receptor complex (GO:0043235)				endometrium(1)|kidney(1)|large_intestine(2)|lung(15)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	22						TCCTTTTAGGTTCACATGATG	0.353																																																0													216	187	196					1																	207896964		1859	4113	5972	SO:0001630	splice_region_variant	1379			AY114160	CCDS44310.1	1q32.1	2008-02-05			ENSG00000197721	ENSG00000197721		"Complement system"	2335	protein-coding gene	gene with protein product		605886				2295627	Standard	NM_175710		Approved		uc001hga.4	Q2VPA4	OTTHUMG00000036354	ENST00000508064.2:c.1643-1T>C	1.37:g.207896964T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q32MC9|Q8NEU7	Silent	SNP	ENST00000508064.2	37	CCDS44310.1																																																																																				0.353	CR1L-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390247.1	XM_114735	Silent	C	207896964	T	C	207896964	5	2	646	1	0	0	0	0	0	0	1	0	3843	1739	60	3	1690	3	CR1L	1	207896964	Splice_Site	SNP	T	TCGA-KM-8438-01A-11D-2310-10	6538578	207896964	41353657	5	39988										
OR2T12	127064	mdanderson.org	37	chr1	248458419	248458419	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gtagcaacagcctgcaggagGccgtcagctgcacccaggag	14	13	1	0	rs142654576		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr1:248458419G>C	ENST00000317996.1	-	1	461	c.462C>G	c.(460-462)ggC>ggG	p.G154G		NM_001004692.1	NP_001004692.1	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T, member 12	154						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(4)|kidney(3)|large_intestine(3)|lung(25)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	43	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)			CCTGCAGGAGGCCGTCAGCTG	0.602																																																0													87	93	91					1																	248458419		2162	4286	6448	SO:0001819	synonymous_variant	127064			BK004485	CCDS31110.1	1q44	2012-08-09			ENSG00000177201	ENSG00000177201		"GPCR / Class A : Olfactory receptors"	19592	protein-coding gene	gene with protein product							Standard	NM_001004692		Approved		uc010pzj.2	Q8NG77	OTTHUMG00000040457	ENST00000317996.1:c.462C>G	1.37:g.248458419G>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000317996.1	37	CCDS31110.1																																																																																				0.602	OR2T12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097353.1	NM_001004692		C	248458419	G	C	248458419	2	2	646	1	0	0	0	0	0	0	0	1	11026	1190	42	4		4	OR2T12	1	248458419	Silent	SNP	G	TCGA-KM-8438-01A-11D-2310-10	40561455	248458419	792202	6	39989										
OR2T2	401992	bcgsc.ca	37	chr1	248616706	248616712	+	Frame_Shift_Del	DEL	TGCTGCG	TGCTGCG	-													0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tgagaccctgatgtatgcctGctgcgtgctgatgctgctta					rs199823862		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	TGCTGCG	TGCTGCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr1:248616706_248616712delTGCTGCG	ENST00000342927.3	+	1	630_636	c.608_614delTGCTGCG	c.(607-615)ttgctgcggfs	p.LLR203fs		NM_001004136.1	NP_001004136.1	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T, member 2	203						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			cervix(1)|endometrium(5)|kidney(1)|large_intestine(2)|lung(21)|ovary(1)|skin(5)|upper_aerodigestive_tract(1)	37	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)			ATGTATGCCTGCTGCGTGCTGATGCTG	0.527																																																0																																										SO:0001589	frameshift_variant	401992			BK004462	CCDS31116.1	1q44	2012-08-09	2002-11-13	2002-11-15	ENSG00000196240	ENSG00000196240		"GPCR / Class A : Olfactory receptors"	14725	protein-coding gene	gene with protein product			"olfactory receptor, family 2, subfamily T, member 2 pseudogene"	OR2T2P		14983052	Standard	NM_001004136		Approved		uc001iek.1	Q6IF00	OTTHUMG00000040480	ENST00000342927.3:c.608_614delTGCTGCG	1.37:g.248616706_248616712delTGCTGCG	ENSP00000343062:p.Leu203fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNM1|B9EH01	Frame_Shift_Del	DEL	ENST00000342927.3	37	CCDS31116.1																																																																																				0.527	OR2T2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097421.1	NM_001004136		-	248616712	TGCTGCG	-	248616706	7	5	646	1	0	1	0	1	0	0	0	0	11027	1319	46	0	610	0	OR2T2	1	248616706	Frame_Shift_Del	DEL	TGCTGCG	TCGA-KM-8438-01A-11D-2310-10	158287	248616706	633915	7	39990										
NRXN1	9378	ucsc.edu;bcgsc.ca	37	chr2	51255194	51255194	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ccaggaagtcgcagaagcccTcgtcgtcgaagtagagcacg	13	12	0	2			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr2:51255194T>C	ENST00000406316.2	-	2	1694	c.218A>G	c.(217-219)gAg>gGg	p.E73G	NRXN1_ENST00000405472.3_Missense_Mutation_p.E73G|NRXN1_ENST00000404971.1_Missense_Mutation_p.E73G|NRXN1_ENST00000401669.2_Missense_Mutation_p.E73G|NRXN1_ENST00000405581.1_Missense_Mutation_p.E73G|NRXN1_ENST00000406859.3_Missense_Mutation_p.E73G|NRXN1_ENST00000402717.3_Missense_Mutation_p.E73G	NM_004801.4	NP_004792.1	Q9ULB1	NRX1A_HUMAN	neurexin 1	73	Laminin G-like 1. {ECO:0000255|PROSITE- ProRule:PRU00122}.				adult behavior (GO:0030534)|axon guidance (GO:0007411)|calcium-dependent cell-cell adhesion (GO:0016339)|cerebellar granule cell differentiation (GO:0021707)|establishment of protein localization (GO:0045184)|extracellular matrix organization (GO:0030198)|gamma-aminobutyric acid receptor clustering (GO:0097112)|gephyrin clustering (GO:0097116)|guanylate kinase-associated protein clustering (GO:0097117)|heterophilic cell-cell adhesion (GO:0007157)|learning (GO:0007612)|N-methyl-D-aspartate receptor clustering (GO:0097114)|negative regulation of filopodium assembly (GO:0051490)|neuroligin clustering (GO:0097118)|neuromuscular process controlling balance (GO:0050885)|neuron cell-cell adhesion (GO:0007158)|neuron maturation (GO:0042551)|neurotransmitter secretion (GO:0007269)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of synapse assembly (GO:0051965)|positive regulation of synapse maturation (GO:0090129)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|postsynaptic density protein 95 clustering (GO:0097119)|postsynaptic membrane assembly (GO:0097104)|presynaptic membrane assembly (GO:0097105)|receptor localization to synapse (GO:0097120)|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:2000311)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)|synaptic vesicle clustering (GO:0097091)|vocal learning (GO:0042297)|vocalization behavior (GO:0071625)	axonal growth cone (GO:0044295)|cell junction (GO:0030054)|cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|presynaptic membrane (GO:0042734)	acetylcholine receptor binding (GO:0033130)|calcium channel regulator activity (GO:0005246)|calcium ion binding (GO:0005509)|cell adhesion molecule binding (GO:0050839)|neuroligin family protein binding (GO:0097109)|receptor activity (GO:0004872)			breast(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(33)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	58		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GCAGAAGCCCTCGTCGTCGAA	0.657																																																0													15	20	18					2																	51255194		2008	4176	6184	SO:0001583	missense	9378			AB011150	CCDS1845.1, CCDS46282.1, CCDS54360.1	2p16.3	2008-05-15			ENSG00000179915	ENSG00000179915			8008	protein-coding gene	gene with protein product		600565					Standard	NM_001135659		Approved	KIAA0578, Hs.22998	uc021vhj.1	P58400	OTTHUMG00000129263	ENST00000406316.2:c.218A>G	2.37:g.51255194T>C	ENSP00000384311:p.Glu73Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A7KRL9|O60323|Q53TJ9|Q53TQ1|Q9C079|Q9C080|Q9C081|Q9H3M2|Q9UDM6	Missense_Mutation	SNP	ENST00000406316.2	37	CCDS54360.1	.	.	.	.	.	.	.	.	.	.	T	5.027	0.190678	0.09547	.	.	ENSG00000179915	ENST00000404971;ENST00000406316;ENST00000405472;ENST00000401669;ENST00000536085;ENST00000402717;ENST00000406859;ENST00000405581	T;T;T;T;T;T;T	0.78364	-1.17;-1.17;-1.17;-1.17;-1.17;-1.17;-1.17	4.97	4.97	0.65823	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (2);Laminin G, subdomain 2 (1);	0.000000	0.26654	U	0.023183	T	0.61961	0.2389	N	0.21282	0.65	0.37779	D	0.926933	B;B;B	0.13145	0.0;0.007;0.001	B;B;B	0.12837	0.003;0.008;0.007	T	0.58763	-0.7579	10	0.02654	T	1	.	14.6578	0.68847	0.0:0.0:0.0:1.0	.	73;73;73	Q9ULB1-3;F8WB18;Q9ULB1	.;.;NRX1A_HUMAN	G	73	ENSP00000385142:E73G;ENSP00000384311:E73G;ENSP00000434015:E73G;ENSP00000385017:E73G;ENSP00000385434:E73G;ENSP00000385681:E73G;ENSP00000385310:E73G	ENSP00000385017:E73G	E	-	2	0	NRXN1	51108698	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	5.036000	0.64164	1.860000	0.53959	0.460000	0.39030	GAG		0.657	NRXN1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000325291.2			C	51255194	T	C	51255194	3	2	646	1	0	0	0	0	1	0	0	0	10672	1551	54	3	4780	3	NRXN1	2	51255194	Missense_Mutation	SNP	T	TCGA-KM-8438-01A-11D-2310-10		51255194	191944179	8	39991										
C2orf86	51057	broad.mit.edu	37	chr2	63401909	63401909	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tcttctccttgaggtgctaaAgacaggccaataaatgcttc	8	10	2	2			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr2:63401909A>G	ENST00000272321.7	-	15	2501	c.1974T>C	c.(1972-1974)tcT>tcC	p.S658S	WDPCP_ENST00000409199.1_Silent_p.S466S|WDPCP_ENST00000409120.1_Silent_p.S466S|WDPCP_ENST00000398544.3_Silent_p.S499S	NM_015910.5	NP_056994.3	O95876	FRITZ_HUMAN	WD repeat containing planar cell polarity effector	658					auditory receptor cell morphogenesis (GO:0002093)|camera-type eye development (GO:0043010)|cardiovascular system development (GO:0072358)|cilium assembly (GO:0042384)|cilium morphogenesis (GO:0060271)|digestive system development (GO:0055123)|embryonic digit morphogenesis (GO:0042733)|establishment of protein localization (GO:0045184)|glomerular visceral epithelial cell migration (GO:0090521)|kidney development (GO:0001822)|palate development (GO:0060021)|regulation of embryonic cell shape (GO:0016476)|regulation of establishment of cell polarity (GO:2000114)|regulation of fibroblast migration (GO:0010762)|regulation of focal adhesion assembly (GO:0051893)|regulation of protein localization (GO:0032880)|regulation of ruffle assembly (GO:1900027)|respiratory system development (GO:0060541)|septin cytoskeleton organization (GO:0032185)|smoothened signaling pathway (GO:0007224)	axonemal basal plate (GO:0097541)|axoneme (GO:0005930)|cytoskeleton (GO:0005856)|plasma membrane (GO:0005886)				central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(9)|lung(19)|ovary(1)|skin(1)	35						GAGGTGCTAAAGACAGGCCAA	0.408																																																0													159	146	150					2																	63401909		1863	4095	5958	SO:0001819	synonymous_variant	51057				CCDS42688.1, CCDS46301.1	2p15	2014-04-24	2011-02-01	2011-02-01	ENSG00000143951	ENSG00000143951			28027	protein-coding gene	gene with protein product		613580	"chromosome 2 open reading frame 86"	C2orf86		15654087, 20671153	Standard	NM_015910		Approved	hFrtz, fritz, BBS15	uc002sch.3	O95876	OTTHUMG00000152566	ENST00000272321.7:c.1974T>C	2.37:g.63401909A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q53RW4|Q7Z2Z3	Silent	SNP	ENST00000272321.7	37	CCDS42688.1																																																																																				0.408	WDPCP-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000326820.1	NM_015910		G	63401909	A	G	63401909	2	3	646	1	0	0	0	0	0	0	0	1	2203	59	3	3		3	C2orf86	2	63401909	Silent	SNP	A	TCGA-KM-8438-01A-11D-2310-10	12146715	63401909	179797464	9	39992										
CTNNA2	1496	broad.mit.edu	37	chr2	80816430	80816430	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ttttctgtaacccacgcaggCcatcatggcgcaactaccgc	8	15	2	0			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr2:80816430C>A	ENST00000402739.4	+	14	2014	c.2009C>A	c.(2008-2010)gCc>gAc	p.A670D	CTNNA2_ENST00000466387.1_Splice_Site_p.A670D|AC008067.2_ENST00000596887.1_RNA|AC008067.2_ENST00000430876.1_RNA|CTNNA2_ENST00000541047.1_Splice_Site_p.A670D|AC008067.2_ENST00000595478.1_RNA|CTNNA2_ENST00000540488.1_Splice_Site_p.A670D|CTNNA2_ENST00000361291.4_Splice_Site_p.A704D|CTNNA2_ENST00000496558.1_Splice_Site_p.A670D|CTNNA2_ENST00000343114.3_Splice_Site_p.A349D|AC008067.2_ENST00000609950.1_RNA	NM_001282597.1	NP_001269526.1	P26232	CTNA2_HUMAN	catenin (cadherin-associated protein), alpha 2	670					axonogenesis (GO:0007409)|brain morphogenesis (GO:0048854)|dendrite morphogenesis (GO:0048813)|muscle cell differentiation (GO:0042692)|positive regulation of muscle cell differentiation (GO:0051149)|prepulse inhibition (GO:0060134)|radial glia guided migration of Purkinje cell (GO:0021942)|regulation of synapse structural plasticity (GO:0051823)|single organismal cell-cell adhesion (GO:0016337)	actin cytoskeleton (GO:0015629)|adherens junction (GO:0005912)|axon (GO:0030424)|basolateral plasma membrane (GO:0016323)|cell-cell adherens junction (GO:0005913)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|lamellipodium (GO:0030027)	structural constituent of cytoskeleton (GO:0005200)			breast(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(12)|lung(49)|pancreas(4)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	78						CCCACGCAGGCCATCATGGCG	0.517																																																0													57	62	60					2																	80816430		2171	4282	6453	SO:0001630	splice_region_variant	1496				CCDS42703.2, CCDS62944.1, CCDS62945.1, CCDS74531.1	2p12-p11.1	2010-05-04			ENSG00000066032	ENSG00000066032			2510	protein-coding gene	gene with protein product	"cadherin-associated protein, related", "cancer/testis antigen 114"	114025				8432524	Standard	NM_004389		Approved	CAP-R, CT114	uc010ysf.2	P26232	OTTHUMG00000152903	ENST00000402739.4:c.2008-1C>A	2.37:g.80816430C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KXE5|B7Z2W7|B7Z352|B7Z898|Q4ZFW1|Q53R26|Q53R33|Q53T67|Q53T71|Q53TM8|Q7Z3L1|Q7Z3Y0	Missense_Mutation	SNP	ENST00000402739.4	37		.	.	.	.	.	.	.	.	.	.	C	13.82	2.351090	0.41599	.	.	ENSG00000066032	ENST00000466387;ENST00000496558;ENST00000361291;ENST00000402739;ENST00000541047;ENST00000540488;ENST00000343114	T;T;T;T;T;T;T	0.37235	1.21;1.21;1.21;1.21;1.21;1.21;1.21	5.76	4.89	0.63831	.	0.000000	0.85682	D	0.000000	T	0.28830	0.0715	L	0.31752	0.955	0.80722	D	1	B;B;B;B	0.24186	0.003;0.099;0.081;0.081	B;B;B;B	0.27796	0.007;0.058;0.056;0.083	T	0.04693	-1.0933	9	.	.	.	.	14.9476	0.71044	0.0:0.9314:0.0:0.0685	.	302;670;670;670	F6KRI5;P26232;P26232-3;P26232-2	.;CTNA2_HUMAN;.;.	D	670;670;704;670;670;670;349	ENSP00000418191:A670D;ENSP00000419295:A670D;ENSP00000355398:A704D;ENSP00000384638:A670D;ENSP00000444675:A670D;ENSP00000441705:A670D;ENSP00000341500:A349D	.	A	+	2	0	CTNNA2	80669941	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.915000	0.69973	1.443000	0.47586	0.655000	0.94253	GCC		0.517	CTNNA2-003	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000328511.4	NM_004389	Missense_Mutation	A	80816430	C	A	80816430	5	1	646	1	0	0	0	0	0	0	1	0	4015	753	26	4	1855	4	CTNNA2	2	80816430	Splice_Site	SNP	C	TCGA-KM-8438-01A-11D-2310-10	17414521	80816430	162382943	10	39993										
TTN	7273	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr2	179641009	179641009	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ggtagcctgttaccctgcagCggaaccttgcagtctcccct	10	15	1	0	rs140914855		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr2:179641009C>T	ENST00000591111.1	-	28	5806	c.5582G>A	c.(5581-5583)cGc>cAc	p.R1861H	RP11-88L24.4_ENST00000582038.2_RNA|TTN_ENST00000359218.5_Missense_Mutation_p.R1815H|TTN_ENST00000460472.2_Missense_Mutation_p.R1815H|TTN_ENST00000360870.5_Missense_Mutation_p.R1861H|TTN-AS1_ENST00000610005.1_RNA|TTN_ENST00000589042.1_Missense_Mutation_p.R1861H|TTN_ENST00000342992.6_Missense_Mutation_p.R1861H|TTN-AS1_ENST00000584485.1_RNA|TTN-AS1_ENST00000585451.1_RNA|TTN_ENST00000342175.6_Missense_Mutation_p.R1815H			Q8WZ42	TITIN_HUMAN	titin	12698	Ig-like 9.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TACCCTGCAGCGGAACCTTGC	0.478																																																0								C	HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG	0,4406		0,0,2203	210	199	203		5444,5582,5582,5444,5444	5.2	1	2	dbSNP_134	203	1,8599	2.2+/-6.3	0,1,4299	yes	missense,missense,missense,missense,missense	TTN	NM_003319.4,NM_133378.4,NM_133379.3,NM_133432.3,NM_133437.3	29,29,29,29,29	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging	1815/26927,1861/33424,1861/5605,1815/27052,1815/27119	179641009	1,13005	2203	4300	6503	SO:0001583	missense	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.5582G>A	2.37:g.179641009C>T	ENSP00000465570:p.Arg1861His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	c	13.46	2.243341	0.39697	0.0	1.16E-4	ENSG00000155657	ENST00000342992;ENST00000460472;ENST00000342175;ENST00000359218;ENST00000356127;ENST00000360870	T;T;T;T;T	0.67698	-0.28;-0.28;-0.28;-0.28;-0.28	5.16	5.16	0.70880	Immunoglobulin subtype (1);Immunoglobulin I-set (1);Immunoglobulin-like (1);Ribonuclease H-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.75598	0.3871	L	0.35414	1.06	0.44061	D	0.996808	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.91635	0.999;0.999;0.999;0.999;0.999	T	0.78705	-0.2100	9	0.87932	D	0	.	18.6477	0.91416	0.0:1.0:0.0:0.0	.	1815;1815;1815;1861;1861	D3DPF9;E7EQE6;E7ET18;Q8WZ42;Q8WZ42-6	.;.;.;TITIN_HUMAN;.	H	1861;1815;1815;1815;1815;1861	ENSP00000343764:R1861H;ENSP00000434586:R1815H;ENSP00000340554:R1815H;ENSP00000352154:R1815H;ENSP00000354117:R1861H	ENSP00000340554:R1815H	R	-	2	0	TTN	179349254	1.000000	0.71417	0.998000	0.56505	0.914000	0.54420	7.792000	0.85828	2.417000	0.82017	0.651000	0.88453	CGC		0.478	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		T	179641009	C	T	179641009	3	4	646	1	0	0	0	0	1	0	0	0	16747	768	27	1	105746	1	TTN	2	179641009	Missense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10	98824579	179641009	63558364	11	39994										
OSGEPL1	64172	ucsc.edu	37	chr2	190618648	190618648	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gagataaaacttaccagtacTgcattattttgaggtaacaa	7	6	0	2			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr2:190618648T>C	ENST00000264151.5	-	5	1059	c.957A>G	c.(955-957)gcA>gcG	p.A319A	OSGEPL1_ENST00000522700.1_Silent_p.A319A|Y_RNA_ENST00000411317.1_RNA|OSGEPL1_ENST00000519810.1_Silent_p.A319A	NM_022353.2	NP_071748.2			O-sialoglycoprotein endopeptidase-like 1											large_intestine(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0293)|all cancers(119;0.0831)			TTACCAGTACTGCATTATTTT	0.368																																																0													49	48	49					2																	190618648		1868	4099	5967	SO:0001819	synonymous_variant	64172			AJ295148	CCDS46472.1	2q32	2011-08-12			ENSG00000128694	ENSG00000128694			23075	protein-coding gene	gene with protein product						19578062	Standard	NM_022353		Approved	Qri7	uc002uqz.1	Q9H4B0	OTTHUMG00000164096	ENST00000264151.5:c.957A>G	2.37:g.190618648T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000264151.5	37	CCDS46472.1																																																																																				0.368	OSGEPL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377257.1	NM_022353		C	190618648	T	C	190618648	2	2	646	1	0	0	0	0	0	0	0	1	11295	1567	55	3		3	OSGEPL1	2	190618648	Silent	SNP	T	TCGA-KM-8438-01A-11D-2310-10	10977639	190618648	52580725	12	39995										
EEF1B2	1933	broad.mit.edu	37	chr2	207025365	207025365	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tgaagccgtgtccagcccacCgcctgccgacttgtgtcatg	11	15	1	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr2:207025365C>T	ENST00000392222.2	+	2	509	c.134C>T	c.(133-135)cCg>cTg	p.P45L	NDUFS1_ENST00000432169.1_5'Flank|NDUFS1_ENST00000455934.2_5'Flank|EEF1B2_ENST00000392221.1_Missense_Mutation_p.P45L|NDUFS1_ENST00000457011.1_5'Flank|SNORA41_ENST00000384675.1_RNA|NDUFS1_ENST00000440274.1_5'Flank|SNORD51_ENST00000384320.2_RNA|NDUFS1_ENST00000449699.1_5'Flank|NDUFS1_ENST00000423725.1_5'Flank|NDUFS1_ENST00000233190.6_5'Flank|EEF1B2_ENST00000236957.5_Missense_Mutation_p.P45L	NM_001959.3	NP_001950.1	P24534	EF1B_HUMAN	eukaryotic translation elongation factor 1 beta 2	45	GST C-terminal.				cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|translation (GO:0006412)|translational elongation (GO:0006414)	cytosol (GO:0005829)|eukaryotic translation elongation factor 1 complex (GO:0005853)	translation elongation factor activity (GO:0003746)			breast(1)|endometrium(5)|kidney(3)|large_intestine(1)|lung(6)	16						TCCAGCCCACCGCCTGCCGAC	0.453																																																0													109	100	103					2																	207025365		2203	4300	6503	SO:0001583	missense	1933			X60489	CCDS2367.1	2q33.3	2011-04-28			ENSG00000114942	ENSG00000114942			3208	protein-coding gene	gene with protein product		600655				8250921	Standard	NM_001959		Approved		uc002vbf.1	P24534	OTTHUMG00000132891	ENST00000392222.2:c.134C>T	2.37:g.207025365C>T	ENSP00000376056:p.Pro45Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K795|Q6IBH9	Missense_Mutation	SNP	ENST00000392222.2	37	CCDS2367.1	.	.	.	.	.	.	.	.	.	.	C	16.38	3.106668	0.56291	.	.	ENSG00000114942	ENST00000236957;ENST00000392221;ENST00000392222;ENST00000445505	T;T;T;T	0.47177	0.85;0.85;0.85;0.85	5.47	5.47	0.80525	Glutathione S-transferase, C-terminal-like (2);	0.000000	0.85682	D	0.000000	T	0.56558	0.1993	M	0.88979	2.995	0.80722	D	1	P	0.43431	0.807	B	0.35655	0.207	T	0.69837	-0.5037	10	0.72032	D	0.01	-5.866	19.3282	0.94273	0.0:1.0:0.0:0.0	.	45	P24534	EF1B_HUMAN	L	45	ENSP00000236957:P45L;ENSP00000376055:P45L;ENSP00000376056:P45L;ENSP00000407730:P45L	ENSP00000236957:P45L	P	+	2	0	EEF1B2	206733610	1.000000	0.71417	0.649000	0.29536	0.233000	0.25261	5.440000	0.66563	2.584000	0.87258	0.561000	0.74099	CCG		0.453	EEF1B2-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336436.1	NM_001037663		T	207025365	C	T	207025365	3	4	646	1	0	0	0	0	1	0	0	0	4927	652	23	1	140	1	EEF1B2	2	207025365	Missense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10	16406717	207025365	36174008	13	39996										
ALPP	250	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr2	233244614	233244614	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	aggaggggtgccaggacatcGctacgcagctcatctccaac	12	13	2	0	rs138033708		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr2:233244614G>A	ENST00000392027.2	+	5	894	c.625G>A	c.(625-627)Gct>Act	p.A209T	AC068134.8_ENST00000441266.1_RNA|AC068134.8_ENST00000439072.1_RNA	NM_001632.3	NP_001623.3	P05187	PPB1_HUMAN	alkaline phosphatase, placental	209					dephosphorylation (GO:0016311)	anchored component of membrane (GO:0031225)|cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	alkaline phosphatase activity (GO:0004035)|magnesium ion binding (GO:0000287)|zinc ion binding (GO:0008270)			NS(1)|biliary_tract(1)|endometrium(1)|kidney(4)|large_intestine(2)|liver(1)|lung(10)|ovary(2)	22		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		CCAGGACATCGCTACGCAGCT	0.682													G|||	1	0.000199681	0.0	0.0	5008	,	,		18710	0.0		0.0	False		,,,				2504	0.001															0													69	70	70					2																	233244614		2203	4299	6502	SO:0001583	missense	250			M14169	CCDS2490.1	2q37.1	2010-06-24	2010-06-24		ENSG00000163283	ENSG00000163283	3.1.3.1		439	protein-coding gene	gene with protein product	"Regan isozyme"	171800	"alkaline phosphatase, placental (Regan isozyme)"			3001717, 3461452	Standard	XM_005246439		Approved		uc002vsq.3	P05187	OTTHUMG00000133255	ENST00000392027.2:c.625G>A	2.37:g.233244614G>A	ENSP00000375881:p.Ala209Thr	Somatic		WXS	Illumina HiSeq	Phase_I	P05188|P06861|Q53S78|Q96DB7	Missense_Mutation	SNP	ENST00000392027.2	37	CCDS2490.1	.	.	.	.	.	.	.	.	.	.	.	14.15	2.449547	0.43531	.	.	ENSG00000163283	ENST00000392027	D	0.96940	-4.18	2.31	1.36	0.22044	Alkaline phosphatase-like, alpha/beta/alpha (1);Alkaline-phosphatase-like, core domain (1);	0.000000	0.85682	D	0.000000	D	0.97729	0.9255	M	0.88842	2.985	0.53005	D	0.999963	D	0.89917	1.0	D	0.70016	0.967	D	0.96819	0.9602	10	0.66056	D	0.02	.	9.4929	0.38971	0.0:0.0:0.6243:0.3757	.	209	P05187	PPB1_HUMAN	T	209	ENSP00000375881:A209T	ENSP00000375881:A209T	A	+	1	0	ALPP	232952858	0.743000	0.28239	0.326000	0.25389	0.024000	0.10985	0.952000	0.29149	0.266000	0.21894	0.298000	0.19748	GCT		0.682	ALPP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257032.3	NM_001632		A	233244614	G	A	233244614	3	1	646	1	0	0	0	0	1	0	0	0	548	1087	38	1	643	1	ALPP	2	233244614	Missense_Mutation	SNP	G	TCGA-KM-8438-01A-11D-2310-10	26219249	233244614	9954759	14	39997										
LRRN1	57633	bcgsc.ca	37	chr3	3887089	3887089	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	taacaaactggttaaagtccCtcaacttgccctgcaaaaag	6	11	1	0			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr3:3887089C>A	ENST00000319331.3	+	2	1525	c.764C>A	c.(763-765)cCt>cAt	p.P255H	SUMF1_ENST00000534863.1_Intron	NM_020873.5	NP_065924.3	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1	255						integral component of membrane (GO:0016021)				NS(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(6)|lung(9)|prostate(1)|skin(1)|urinary_tract(2)	26				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		GTTAAAGTCCCTCAACTTGCC	0.403																																																0													79	87	84					3																	3887089		2202	4300	6502	SO:0001583	missense	57633			AB040930	CCDS33685.1	3p26.2	2013-01-11			ENSG00000175928	ENSG00000175928		"Immunoglobulin superfamily / I-set domain containing"	20980	protein-coding gene	gene with protein product	"fibronectin type III, immunoglobulin and leucine rich repeat domains 3"					10819331	Standard	NM_020873		Approved	FIGLER3	uc003bpt.4	Q6UXK5	OTTHUMG00000154934	ENST00000319331.3:c.764C>A	3.37:g.3887089C>A	ENSP00000314901:p.Pro255His	Somatic		WXS	Illumina HiSeq	Phase_I	Q3LID5|Q8IYV5|Q9H8V1|Q9P231	Missense_Mutation	SNP	ENST00000319331.3	37	CCDS33685.1	.	.	.	.	.	.	.	.	.	.	C	22.5	4.296416	0.81025	.	.	ENSG00000175928	ENST00000319331	T	0.34472	1.36	5.46	5.46	0.80206	.	0.000000	0.85682	D	0.000000	T	0.63873	0.2548	M	0.79011	2.435	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.65598	-0.6129	10	0.54805	T	0.06	.	19.313	0.94199	0.0:1.0:0.0:0.0	.	255	Q6UXK5	LRRN1_HUMAN	H	255	ENSP00000314901:P255H	ENSP00000314901:P255H	P	+	2	0	LRRN1	3862089	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	7.755000	0.85180	2.557000	0.86248	0.585000	0.79938	CCT		0.403	LRRN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337704.2	NM_020873		A	3887089	C	A	3887089	3	1	646	1	0	0	0	0	1	0	0	0	9041	681	24	4	766	4	LRRN1	3	3887089	Missense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10		3887089	194135341	15	39998										
TRANK1	9881	bcgsc.ca	37	chr3	36898643	36898643	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gaatggcaaggatgattttcTtcttgatgaccttggtcatt	10	6	3	3			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr3:36898643T>C	ENST00000429976.2	-	12	2685	c.2438A>G	c.(2437-2439)aAg>aGg	p.K813R	TRANK1_ENST00000301807.6_Missense_Mutation_p.K263R|TRANK1_ENST00000428977.2_Missense_Mutation_p.K263R	NM_014831.2	NP_055646.2	O15050	TRNK1_HUMAN	tetratricopeptide repeat and ankyrin repeat containing 1	813							ATP binding (GO:0005524)|hydrolase activity (GO:0016787)			NS(2)|autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(18)|lung(20)|ovary(1)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(2)	73						GATGATTTTCTTCTTGATGAC	0.507																																																0													171	168	169					3																	36898643		2012	4168	6180	SO:0001583	missense	9881			AK096678	CCDS46789.1, CCDS46789.2	3p22.2	2013-01-11			ENSG00000168016	ENSG00000168016		"Ankyrin repeat domain containing", "Tetratricopeptide (TTC) repeat domain containing"	29011	protein-coding gene	gene with protein product	"lupus brain antigen 1", "KIAA0342"					9205841	Standard	NM_014831		Approved	LBA1, KIAA0342	uc003cgj.3	O15050	OTTHUMG00000155848	ENST00000429976.2:c.2438A>G	3.37:g.36898643T>C	ENSP00000416168:p.Lys813Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N8K0	Missense_Mutation	SNP	ENST00000429976.2	37	CCDS46789.2	.	.	.	.	.	.	.	.	.	.	T	10.38	1.333210	0.24167	.	.	ENSG00000168016	ENST00000428977;ENST00000429976;ENST00000301807	T;T;T	0.32988	1.43;1.83;1.43	5.64	3.29	0.37713	.	0.193295	0.37304	N	0.002150	T	0.15522	0.0374	N	0.14661	0.345	0.28734	N	0.902325	B	0.16166	0.016	B	0.10450	0.005	T	0.10965	-1.0607	10	0.30078	T	0.28	.	6.672	0.23074	0.0:0.1436:0.1404:0.716	.	813	O15050	TRNK1_HUMAN	R	263;813;263	ENSP00000416826:K263R;ENSP00000416168:K813R;ENSP00000301807:K263R	ENSP00000301807:K263R	K	-	2	0	TRANK1	36873647	1.000000	0.71417	1.000000	0.80357	0.957000	0.61999	2.181000	0.42547	1.093000	0.41377	0.533000	0.62120	AAG		0.507	TRANK1-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_014831		C	36898643	T	C	36898643	3	2	646	1	0	0	0	0	1	0	0	0	16466	1609	56	3	6387	3	TRANK1	3	36898643	Missense_Mutation	SNP	T	TCGA-KM-8438-01A-11D-2310-10	33011554	36898643	161123787	16	39999										
ITGA9	3680	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	37785427	37785427	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	cctctttcagaatcatgtctCcaacctcctttgtatatggc	5	13	4	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr3:37785427C>A	ENST00000264741.5	+	22	2591	c.2335C>A	c.(2335-2337)Cca>Aca	p.P779T	AC093415.2_ENST00000449586.1_RNA	NM_002207.2	NP_002198.2	Q13797	ITA9_HUMAN	integrin, alpha 9	779					axon guidance (GO:0007411)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|integrin-mediated signaling pathway (GO:0007229)|neutrophil chemotaxis (GO:0030593)|wound healing (GO:0042060)	basal plasma membrane (GO:0009925)|integrin alpha9-beta1 complex (GO:0034679)|integrin complex (GO:0008305)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)			breast(3)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(9)|lung(17)|pancreas(1)|prostate(2)|skin(6)|stomach(1)|urinary_tract(1)	44				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		AATCATGTCTCCAACCTCCTT	0.483																																																0													159	128	138					3																	37785427		2203	4300	6503	SO:0001583	missense	3680			L24158	CCDS2669.1	3p21.3	2010-03-23			ENSG00000144668	ENSG00000144668		"Integrins"	6145	protein-coding gene	gene with protein product	"integrin, alpha 4-like"	603963				8245132, 8290272	Standard	NM_002207		Approved	RLC, ITGA4L, ALPHA-RLC	uc003chd.3	Q13797	OTTHUMG00000130815	ENST00000264741.5:c.2335C>A	3.37:g.37785427C>A	ENSP00000264741:p.Pro779Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q14638	Missense_Mutation	SNP	ENST00000264741.5	37	CCDS2669.1	.	.	.	.	.	.	.	.	.	.	C	21.4	4.144022	0.77888	.	.	ENSG00000144668	ENST00000264741	T	0.74632	-0.86	5.41	5.41	0.78517	Integrin alpha-2 (1);	0.051257	0.85682	D	0.000000	D	0.86715	0.5999	M	0.77103	2.36	0.58432	D	0.999997	D	0.69078	0.997	D	0.77557	0.99	D	0.87897	0.2688	10	0.87932	D	0	.	18.3243	0.90248	0.0:1.0:0.0:0.0	.	779	Q13797	ITA9_HUMAN	T	779	ENSP00000264741:P779T	ENSP00000264741:P779T	P	+	1	0	ITGA9	37760431	1.000000	0.71417	0.999000	0.59377	0.910000	0.53928	5.900000	0.69853	2.686000	0.91538	0.655000	0.94253	CCA		0.483	ITGA9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253361.1	NM_002207		A	37785427	C	A	37785427	3	1	646	1	0	0	0	0	1	0	0	0	7890	855	30	4	2421	4	ITGA9	3	37785427	Missense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10	886784	37785427	160237003	17	40000										
CCDC13	152206	hgsc.bcm.edu	37	chr3	42777231	42777231	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ttgtccgatctccatctccaGctgtcgcactttggcctccc	7	17	2	0			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr3:42777231G>A	ENST00000310232.6	-	10	1422	c.1339C>T	c.(1339-1341)Ctg>Ttg	p.L447L	CCDC13-AS1_ENST00000418161.1_RNA|CCDC13-AS1_ENST00000446950.1_RNA	NM_144719.3	NP_653320.3	Q8IYE1	CCD13_HUMAN	coiled-coil domain containing 13	447										endometrium(1)|kidney(1)|large_intestine(5)|liver(1)|lung(11)|ovary(1)|prostate(3)|skin(1)|urinary_tract(1)	25						TCCATCTCCAGCTGTCGCACT	0.602																																																0													128	115	119					3																	42777231		2203	4300	6503	SO:0001819	synonymous_variant	152206			AK058196	CCDS2705.1	3p22.1	2005-01-25			ENSG00000244607	ENSG00000244607			26358	protein-coding gene	gene with protein product						12477932	Standard	NM_144719		Approved	FLJ25467	uc003cly.4	Q8IYE1	OTTHUMG00000133046	ENST00000310232.6:c.1339C>T	3.37:g.42777231G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000310232.6	37	CCDS2705.1																																																																																				0.602	CCDC13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256652.1	NM_144719		A	42777231	G	A	42777231	2	1	646	1	0	0	0	0	0	0	0	1	2767	962	34	2		2	CCDC13	3	42777231	Silent	SNP	G	TCGA-KM-8438-01A-11D-2310-10	4991804	42777231	155245199	18	40001										
SETD2	29072	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	47084094	47084094	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	aatcttcccttctggatctcGagctgtcttccagttgggag	10	11	4	0			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr3:47084094G>A	ENST00000409792.3	-	17	7237	c.7195C>T	c.(7195-7197)Cga>Tga	p.R2399*		NM_014159.6	NP_054878.5	Q9BYW2	SETD2_HUMAN	SET domain containing 2	2399	WW. {ECO:0000255|PROSITE- ProRule:PRU00224}.				angiogenesis (GO:0001525)|cell migration involved in vasculogenesis (GO:0035441)|coronary vasculature morphogenesis (GO:0060977)|embryonic cranial skeleton morphogenesis (GO:0048701)|embryonic placenta morphogenesis (GO:0060669)|forebrain development (GO:0030900)|histone H3-K36 trimethylation (GO:0097198)|mesoderm morphogenesis (GO:0048332)|mismatch repair (GO:0006298)|morphogenesis of a branching structure (GO:0001763)|neural tube closure (GO:0001843)|nucleosome organization (GO:0034728)|pericardium development (GO:0060039)|regulation of mRNA export from nucleus (GO:0010793)|regulation of transcription, DNA-templated (GO:0006355)|stem cell development (GO:0048864)|transcription elongation from RNA polymerase II promoter (GO:0006368)	chromosome (GO:0005694)|nucleus (GO:0005634)	histone-lysine N-methyltransferase activity (GO:0018024)	p.R1896*(2)|p.R2399*(2)		breast(6)|central_nervous_system(5)|endometrium(4)|kidney(63)|large_intestine(18)|lung(26)|ovary(6)|prostate(2)|skin(3)|soft_tissue(1)|stomach(2)|urinary_tract(5)	141		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		TCTGGATCTCGAGCTGTCTTC	0.453			"N, F, S, Mis"		clear cell renal carcinoma																																		Rec	yes		3	3p21.31	29072	SET domain containing 2		E	4	Substitution - Nonsense(4)	large_intestine(2)|breast(2)											113	112	112					3																	47084094		2203	4300	6503	SO:0001587	stop_gained	29072			AJ238403	CCDS2749.2	3p21.31	2014-09-17			ENSG00000181555	ENSG00000181555		"Chromatin-modifying enzymes / K-methyltransferases"	18420	protein-coding gene	gene with protein product		612778				16118227, 11461154	Standard	NM_014159		Approved	HYPB, HIF-1, KIAA1732, FLJ23184, KMT3A	uc003cqs.3	Q9BYW2	OTTHUMG00000133514	ENST00000409792.3:c.7195C>T	3.37:g.47084094G>A	ENSP00000386759:p.Arg2399*	Somatic		WXS	Illumina HiSeq	Phase_I	O75397|O75405|Q17RW8|Q5BKS9|Q5QGN2|Q69YI5|Q6IN64|Q6ZN53|Q6ZS25|Q8N3R0|Q8TCN0|Q9C0D1|Q9H696|Q9NZW9	Nonsense_Mutation	SNP	ENST00000409792.3	37	CCDS2749.2	.	.	.	.	.	.	.	.	.	.	G	48	14.190842	0.99783	.	.	ENSG00000181555	ENST00000451092;ENST00000409792	.	.	.	5.51	3.7	0.42460	.	0.000000	0.43110	D	0.000617	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	10.4304	0.44405	0.0695:0.0:0.796:0.1346	.	.	.	.	X	2399	.	ENSP00000386759:R2399X	R	-	1	2	SETD2	47059098	1.000000	0.71417	0.995000	0.50966	0.974000	0.67602	3.171000	0.50824	0.685000	0.31468	-0.182000	0.12963	CGA		0.453	SETD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257479.2	NM_014159		A	47084094	G	A	47084094	4	1	646	1	0	0	0	0	0	1	0	0	14144	1066	37	1	519	1	SETD2	3	47084094	Nonsense_Mutation	SNP	G	TCGA-KM-8438-01A-11D-2310-10	4306863	47084094	150938336	19	40002										
ATP11B	23200	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	182631695	182631695	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gtgcttggactccatgtgctGtttcccggaaggagaagcag	14	9	0	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr3:182631695G>T	ENST00000323116.5	+	29	3625	c.3365G>T	c.(3364-3366)tGt>tTt	p.C1122F		NM_014616.2	NP_055431.1	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	1122					aminophospholipid transport (GO:0015917)|ion transmembrane transport (GO:0034220)|ion transport (GO:0006811)|phospholipid translocation (GO:0045332)|transmembrane transport (GO:0055085)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nuclear inner membrane (GO:0005637)|plasma membrane (GO:0005886)|recycling endosome (GO:0055037)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|ion transmembrane transporter activity (GO:0015075)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			breast(3)|cervix(2)|endometrium(2)|kidney(4)|large_intestine(6)|liver(2)|lung(14)|ovary(2)|pancreas(2)|prostate(1)|skin(2)|urinary_tract(1)	41	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			TCCATGTGCTGTTTCCCGGAA	0.453																																																0													251	244	247					3																	182631695		2203	4300	6503	SO:0001583	missense	23200			AF156548	CCDS33896.1	3q27	2010-04-20	2007-09-19		ENSG00000058063	ENSG00000058063		"ATPases / P-type"	13553	protein-coding gene	gene with protein product		605869	"ATPase, Class VI, type 11B"			10231032, 11015572	Standard	NM_014616		Approved	ATPIF, ATPIR, KIAA0956	uc003flb.3	Q9Y2G3	OTTHUMG00000158295	ENST00000323116.5:c.3365G>T	3.37:g.182631695G>T	ENSP00000321195:p.Cys1122Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q96FN1|Q9UKK7	Missense_Mutation	SNP	ENST00000323116.5	37	CCDS33896.1	.	.	.	.	.	.	.	.	.	.	G	21.8	4.206191	0.79127	.	.	ENSG00000058063	ENST00000323116;ENST00000484691	T	0.38887	1.11	5.24	5.24	0.73138	.	0.431079	0.26567	N	0.023660	T	0.51432	0.1674	M	0.67953	2.075	0.80722	D	1	P;P	0.50710	0.938;0.664	P;B	0.47470	0.548;0.216	T	0.50398	-0.8833	10	0.35671	T	0.21	.	19.1816	0.93625	0.0:0.0:1.0:0.0	.	696;1122	B3KSJ2;Q9Y2G3	.;AT11B_HUMAN	F	1122;100	ENSP00000321195:C1122F	ENSP00000321195:C1122F	C	+	2	0	ATP11B	184114389	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.374000	0.90133	2.601000	0.87937	0.655000	0.94253	TGT		0.453	ATP11B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350598.1	NM_014616		T	182631695	G	T	182631695	3	4	646	1	0	0	0	0	1	0	0	0	1120	1377	48	4	3479	4	ATP11B	3	182631695	Missense_Mutation	SNP	G	TCGA-KM-8438-01A-11D-2310-10	135547601	182631695	15390735	20	40003										
DGKQ	1609	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	956357	956357	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tacggagaacgggtcctcgcCgctgtagcccgccccccagc	12	18	0	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr4:956357C>T	ENST00000273814.3	-	18	2153	c.2080G>A	c.(2080-2082)Ggc>Agc	p.G694S	DGKQ_ENST00000502309.1_5'Flank	NM_001347.3	NP_001338.2	P52824	DGKQ_HUMAN	diacylglycerol kinase, theta 110kDa	694	DAGKc. {ECO:0000255|PROSITE- ProRule:PRU00783}.				blood coagulation (GO:0007596)|cAMP-mediated signaling (GO:0019933)|G-protein coupled receptor signaling pathway (GO:0007186)|platelet activation (GO:0030168)|protein kinase C signaling (GO:0070528)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to ATP (GO:0033198)|thrombin receptor signaling pathway (GO:0070493)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	activating transcription factor binding (GO:0033613)|ATP binding (GO:0005524)|diacylglycerol kinase activity (GO:0004143)|kinase binding (GO:0019900)|metal ion binding (GO:0046872)|NAD+ kinase activity (GO:0003951)|phospholipase binding (GO:0043274)			breast(1)|endometrium(2)|kidney(2)|lung(2)|prostate(2)	9			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			GGGTCCTCGCCGCTGTAGCCC	0.662																																					Esophageal Squamous(17;537 645 4447 26373)											0													47	46	46					4																	956357		2200	4299	6499	SO:0001583	missense	1609			L38707	CCDS3342.1	4p16.3	2008-08-29	2002-08-29		ENSG00000145214	ENSG00000145214			2856	protein-coding gene	gene with protein product		601207	"diacylglycerol kinase, theta (110kD)"	DAGK4		8617502, 9099683	Standard	NM_001347		Approved	DAGK, DAGK7	uc003gbw.4	P52824	OTTHUMG00000088629	ENST00000273814.3:c.2080G>A	4.37:g.956357C>T	ENSP00000273814:p.Gly694Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P3W4	Missense_Mutation	SNP	ENST00000273814.3	37	CCDS3342.1	.	.	.	.	.	.	.	.	.	.	C	22.8	4.333433	0.81801	.	.	ENSG00000145214	ENST00000273814	T	0.21361	2.01	4.9	4.9	0.64082	Diacylglycerol kinase, catalytic domain (3);	0.100622	0.64402	D	0.000002	T	0.34687	0.0906	L	0.38692	1.165	0.58432	D	0.999996	D;D	0.76494	0.998;0.999	P;D	0.63703	0.806;0.917	T	0.05241	-1.0897	10	0.56958	D	0.05	.	15.9132	0.79488	0.0:1.0:0.0:0.0	.	694;694	E9KL49;P52824	.;DGKQ_HUMAN	S	694	ENSP00000273814:G694S	ENSP00000273814:G694S	G	-	1	0	DGKQ	946357	0.798000	0.28890	0.638000	0.29380	0.430000	0.31655	1.737000	0.38197	2.395000	0.81488	0.655000	0.94253	GGC		0.662	DGKQ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000200888.1			T	956357	C	T	956357	3	4	646	1	0	0	0	0	1	0	0	0	4475	652	23	1	772	1	DGKQ	4	956357	Missense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10		956357	190197919	21	40004										
ARSK	153642	broad.mit.edu;hgsc.bcm.edu	37	chr5	94936601	94936601	+	Frame_Shift_Del	DEL	C	C	-													0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tgagtggatactctttgttgCcgttatcatcagaaacattt							TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr5:94936601delC	ENST00000380009.4	+	7	1352	c.1147delC	c.(1147-1149)ccgfs	p.P383fs		NM_198150.2	NP_937793.1	Q6UWY0	ARSK_HUMAN	arylsulfatase family, member K	383					cellular protein metabolic process (GO:0044267)|glycosphingolipid metabolic process (GO:0006687)|post-translational protein modification (GO:0043687)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	arylsulfatase activity (GO:0004065)|metal ion binding (GO:0046872)			endometrium(2)|kidney(1)|large_intestine(3)|lung(8)|pancreas(1)|skin(1)	16		all_cancers(142;3.38e-06)|all_epithelial(76;6.57e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.00473)		all cancers(79;6.5e-16)		CTCTTTGTTGCCGTTATCATC	0.358																																																0													140	137	138					5																	94936601		2203	4300	6503	SO:0001589	frameshift_variant	153642				CCDS4073.1	5q15	2013-02-14	2006-03-07		ENSG00000164291	ENSG00000164291		"Arylsulfatase family"	25239	protein-coding gene	gene with protein product		610011	"arylsulfatase K"			12975309, 16174644	Standard	NM_198150		Approved	DKFZp313G1735, TSULF	uc003kld.3	Q6UWY0	OTTHUMG00000121166	ENST00000380009.4:c.1147delC	5.37:g.94936601delC	ENSP00000369346:p.Pro383fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2BDE3|B4E1I4|Q3ZCW3|Q8N3Q8	Frame_Shift_Del	DEL	ENST00000380009.4	37	CCDS4073.1																																																																																				0.358	ARSK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241652.2	NM_198150		-	94936601	C	-	94936601	7	5	646	1	0	1	0	1	0	0	0	0	996	739	26	0	1173	0	ARSK	5	94936601	Frame_Shift_Del	DEL	C	TCGA-KM-8438-01A-11D-2310-10		94936601	85978659	22	40005	351	2								
ARSK	153642	bcgsc.ca	37	chr5	94936602	94936602	+	Frame_Shift_Del	DEL	C	C	-													0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gagtggatactctttgttgcCgttatcatcagaaacattta							TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr5:94936602delC	ENST00000380009.4	+	7	1353	c.1148delC	c.(1147-1149)ccgfs	p.P383fs		NM_198150.2	NP_937793.1	Q6UWY0	ARSK_HUMAN	arylsulfatase family, member K	383					cellular protein metabolic process (GO:0044267)|glycosphingolipid metabolic process (GO:0006687)|post-translational protein modification (GO:0043687)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	arylsulfatase activity (GO:0004065)|metal ion binding (GO:0046872)			endometrium(2)|kidney(1)|large_intestine(3)|lung(8)|pancreas(1)|skin(1)	16		all_cancers(142;3.38e-06)|all_epithelial(76;6.57e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.00473)		all cancers(79;6.5e-16)		TCTTTGTTGCCGTTATCATCA	0.363																																																0													141	138	139					5																	94936602		2203	4300	6503	SO:0001589	frameshift_variant	153642				CCDS4073.1	5q15	2013-02-14	2006-03-07		ENSG00000164291	ENSG00000164291		"Arylsulfatase family"	25239	protein-coding gene	gene with protein product		610011	"arylsulfatase K"			12975309, 16174644	Standard	NM_198150		Approved	DKFZp313G1735, TSULF	uc003kld.3	Q6UWY0	OTTHUMG00000121166	ENST00000380009.4:c.1148delC	5.37:g.94936602delC	ENSP00000369346:p.Pro383fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2BDE3|B4E1I4|Q3ZCW3|Q8N3Q8	Frame_Shift_Del	DEL	ENST00000380009.4	37	CCDS4073.1																																																																																				0.363	ARSK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241652.2	NM_198150		-	94936602	C	-	94936602	7	5	646	1	0	1	0	1	0	0	0	0	996	652	23	0	1174	0	ARSK	5	94936602	Frame_Shift_Del	DEL	C	TCGA-KM-8438-01A-11D-2310-10	1	94936602	85978658	23	40006	351	2								
RNF39	80352	ucsc.edu;bcgsc.ca	37	chr6	30043356	30043356	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ccccgggcccagctcgggcgCatccatggaaagccaggatc	13	16	0	0			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr6:30043356C>T	ENST00000244360.6	-	1	308	c.211G>A	c.(211-213)Gcg>Acg	p.A71T	RNF39_ENST00000376751.3_Missense_Mutation_p.A71T	NM_025236.3	NP_079512.2	Q9H2S5	RNF39_HUMAN	ring finger protein 39	71						cytoplasm (GO:0005737)	zinc ion binding (GO:0008270)										AGCTCGGGCGCATCCATGGAA	0.706																																					NSCLC(8;188 360 1520 20207 31481)											0													13	16	15					6																	30043356		2199	4296	6495	SO:0001583	missense	80352			AF238315	CCDS4673.1, CCDS4674.1	6p21.3	2013-01-09			ENSG00000204618	ENSG00000204618		"RING-type (C3HC4) zinc fingers"	18064	protein-coding gene	gene with protein product		607524				11130983, 11716498	Standard	NM_170769		Approved	HZFw1, LIRF	uc003npe.3	Q9H2S5	OTTHUMG00000031288	ENST00000244360.6:c.211G>A	6.37:g.30043356C>T	ENSP00000244360:p.Ala71Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A2BEK3|A6NCD6|B0S858|Q5SPM8|Q5SPM9|Q5SPN0|Q5SRJ9|Q5SRK1|Q5SS29|Q9H2S3|Q9H2S4	Missense_Mutation	SNP	ENST00000244360.6	37	CCDS4673.1	.	.	.	.	.	.	.	.	.	.	c	15.90	2.968922	0.53614	.	.	ENSG00000204618	ENST00000376751;ENST00000244360;ENST00000376746	T;T	0.70516	-0.01;-0.49	3.81	1.81	0.25067	.	.	.	.	.	T	0.32823	0.0842	L	0.31157	0.91	0.23632	N	0.99724	B;P	0.36535	0.421;0.557	B;B	0.33750	0.081;0.169	T	0.05517	-1.0880	9	0.27785	T	0.31	.	6.7546	0.23505	0.0:0.713:0.1793:0.1077	.	71;71	Q9H2S5;Q9H2S5-2	RNF39_HUMAN;.	T	71	ENSP00000365942:A71T;ENSP00000244360:A71T	ENSP00000244360:A71T	A	-	1	0	RNF39	30151335	0.018000	0.18449	0.962000	0.40283	0.892000	0.51952	0.642000	0.24735	0.732000	0.32470	0.436000	0.28706	GCG		0.706	RNF39-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000076625.3	NM_170769		T	30043356	C	T	30043356	3	4	646	1	0	0	0	0	1	0	0	0	13504	710	25	2	1067	2	RNF39	6	30043356	Missense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10		30043356	141071711	24	40007										
HLA-DRB1	3123	mdanderson.org	37	chr6	32557477	32557477	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	caccatcagtgtcactgtcaGcgctgtcatgcaggagcctc	10	14	4	0	rs150644773	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr6:32557477G>A	ENST00000360004.5	-	1	148	c.43C>T	c.(43-45)Ctg>Ttg	p.L15L		NM_002124.3	NP_002115.2	Q30167	2B1A_HUMAN	major histocompatibility complex, class II, DR beta 1	15					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|late endosome membrane (GO:0031902)|lysosomal membrane (GO:0005765)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)				large_intestine(3)|lung(2)|ovary(1)|prostate(1)|skin(2)|stomach(1)	10						GTCACTGTCAGCGCTGTCATG	0.592										Multiple Myeloma(14;0.17)																																						0													87	106	99					6																	32557477		1511	2709	4220	SO:0001819	synonymous_variant	3123			AJ297583	CCDS47409.1	6p21.3	2013-01-11			ENSG00000196126	ENSG00000196126		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4948	protein-coding gene	gene with protein product		142857		HLA-DR1B			Standard	NM_001243965		Approved		uc011eri.2	P01911	OTTHUMG00000031196	ENST00000360004.5:c.43C>T	6.37:g.32557477G>A		Somatic		WXS	Illumina HiSeq	Phase_I	P01914|Q9MYF5	Silent	SNP	ENST00000360004.5	37	CCDS47409.1																																																																																				0.592	HLA-DRB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076393.3	NM_002124		A	32557477	G	A	32557477	2	1	646	1	0	0	0	0	0	0	0	1	7215	962	34	2		2	HLA-DRB1	6	32557477	Silent	SNP	G	TCGA-KM-8438-01A-11D-2310-10	2514121	32557477	138557590	25	40008										
COL12A1	1303	broad.mit.edu;bcgsc.ca	37	chr6	75875301	75875301	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tactgaaattctgtatttggTctctggctgcagattttcta	8	7	3	2			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr6:75875301T>C	ENST00000322507.8	-	14	3214	c.2905A>G	c.(2905-2907)Acc>Gcc	p.T969A	COL12A1_ENST00000483888.2_Missense_Mutation_p.T969A|COL12A1_ENST00000345356.6_Intron|COL12A1_ENST00000416123.2_Missense_Mutation_p.T969A	NM_004370.5	NP_004361.3	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1	969	Fibronectin type-III 6. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|skeletal system development (GO:0001501)	collagen type XII trimer (GO:0005595)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|vesicle (GO:0031982)	extracellular matrix structural constituent conferring tensile strength (GO:0030020)			breast(7)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(5)|kidney(5)|large_intestine(44)|liver(1)|lung(77)|ovary(7)|prostate(3)|skin(4)|stomach(2)|upper_aerodigestive_tract(4)|urinary_tract(2)	169						CTGTATTTGGTCTCTGGCTGC	0.413																																																0													133	129	130					6																	75875301		1890	4114	6004	SO:0001583	missense	1303			U73779	CCDS43481.1, CCDS43482.1	6q12-q13	2013-02-11	2003-07-24		ENSG00000111799	ENSG00000111799		"Proteoglycans / Extracellular Matrix : Collagen proteoglycans", "Collagens", "Fibronectin type III domain containing"	2188	protein-coding gene	gene with protein product	"collagen type XII proteoglycan"	120320	"collagen, type XII, alpha 1-like"	COL12A1L		9143499	Standard	XM_006715334		Approved		uc003phs.3	Q99715	OTTHUMG00000015051	ENST00000322507.8:c.2905A>G	6.37:g.75875301T>C	ENSP00000325146:p.Thr969Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O43853|Q15955|Q5VYK1|Q5VYK2|Q71UR3|Q99716	Missense_Mutation	SNP	ENST00000322507.8	37	CCDS43482.1	.	.	.	.	.	.	.	.	.	.	T	23.1	4.370089	0.82573	.	.	ENSG00000111799	ENST00000322507;ENST00000432784;ENST00000416123;ENST00000483888	T;T;T	0.61627	0.09;0.09;0.09	5.55	5.55	0.83447	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.000000	0.64402	D	0.000003	T	0.74974	0.3787	M	0.87381	2.88	0.54753	D	0.99998	D	0.76494	0.999	D	0.85130	0.997	T	0.80158	-0.1499	10	0.62326	D	0.03	.	15.6872	0.77421	0.0:0.0:0.0:1.0	.	969	Q99715	COCA1_HUMAN	A	969	ENSP00000325146:T969A;ENSP00000412864:T969A;ENSP00000421216:T969A	ENSP00000325146:T969A	T	-	1	0	COL12A1	75932021	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.466000	0.80914	2.100000	0.63781	0.533000	0.62120	ACC		0.413	COL12A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041249.3	NM_004370		C	75875301	T	C	75875301	3	2	646	1	0	0	0	0	1	0	0	0	3671	1667	58	3	6498	3	COL12A1	6	75875301	Missense_Mutation	SNP	T	TCGA-KM-8438-01A-11D-2310-10	43317824	75875301	95239766	26	40009										
ARPC1B	10095	bcgsc.ca	37	chr7	98988571	98988571	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ggccggcacccaccccgtggGgctccaagatgccctttggg	14	16	0	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr7:98988571G>T	ENST00000451682.1	+	8	865	c.556G>T	c.(556-558)Ggc>Tgc	p.G186C	PDAP1_ENST00000496335.1_5'Flank|ARPC1B_ENST00000252725.5_Missense_Mutation_p.G186C			O15143	ARC1B_HUMAN	actin related protein 2/3 complex, subunit 1B, 41kDa	186					Arp2/3 complex-mediated actin nucleation (GO:0034314)|cellular component movement (GO:0006928)	actin cytoskeleton (GO:0015629)|Arp2/3 protein complex (GO:0005885)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)	structural constituent of cytoskeleton (GO:0005200)			central_nervous_system(1)|endometrium(2)|large_intestine(5)|liver(2)|lung(1)	11	all_cancers(62;3.49e-09)|all_epithelial(64;2.57e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			CACCCCGTGGGGCTCCAAGAT	0.597																																																0													49	48	48					7																	98988571		2203	4300	6503	SO:0001583	missense	10095			AF006084	CCDS5661.1	7q22.1	2013-03-14	2002-08-29		ENSG00000130429	ENSG00000130429		"Actin related protein 2/3 complex subunits", "WD repeat domain containing"	704	protein-coding gene	gene with protein product	"ARP2/3 protein complex subunit p41", "actin related protein 2/3 complex, subunit 1A (41 kD)"	604223	"actin related protein 2/3 complex, subunit 1B (41 kD)"			9230079, 9359840	Standard	NM_005720		Approved	ARC41, p40-ARC, p41-ARC	uc003upz.3	O15143	OTTHUMG00000154552	ENST00000451682.1:c.556G>T	7.37:g.98988571G>T	ENSP00000389631:p.Gly186Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BU00	Missense_Mutation	SNP	ENST00000451682.1	37	CCDS5661.1	.	.	.	.	.	.	.	.	.	.	G	26.7	4.767210	0.90020	.	.	ENSG00000130429	ENST00000252725;ENST00000451682	T;T	0.67171	-0.25;-0.25	5.81	4.93	0.64822	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);	0.000000	0.85682	D	0.000000	D	0.85478	0.5706	M	0.93062	3.375	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.85130	0.997;0.997	D	0.88995	0.3417	10	0.72032	D	0.01	-55.2488	14.663	0.68888	0.0705:0.0:0.9295:0.0	.	186;186	A4D275;O15143	.;ARC1B_HUMAN	C	186	ENSP00000252725:G186C;ENSP00000389631:G186C	ENSP00000252725:G186C	G	+	1	0	ARPC1B	98826507	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.764000	0.98949	1.469000	0.48083	0.561000	0.74099	GGC		0.597	ARPC1B-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335894.1	NM_005720		T	98988571	G	T	98988571	3	4	646	1	0	0	0	0	1	0	0	0	970	1232	43	4	574	4	ARPC1B	7	98988571	Missense_Mutation	SNP	G	TCGA-KM-8438-01A-11D-2310-10		98988571	60150092	27	40010										
CFTR	1080	broad.mit.edu	37	chr7	117188705	117188705	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tttttaacagggatttggggAattatttgagaaagcaaaac	10	3	0	1	rs397508180		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr7:117188705A>T	ENST00000003084.6	+	10	1352	c.1220A>T	c.(1219-1221)gAa>gTa	p.E407V	CFTR_ENST00000454343.1_Intron	NM_000492.3	NP_000483.3	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance regulator (ATP-binding cassette sub-family C, member 7)	407					cellular response to cAMP (GO:0071320)|cellular response to hormone stimulus (GO:0032870)|chloride transmembrane transport (GO:1902476)|cholesterol biosynthetic process (GO:0006695)|cholesterol transport (GO:0030301)|intracellular pH elevation (GO:0051454)|iodide transport (GO:0015705)|lung development (GO:0030324)|membrane hyperpolarization (GO:0060081)|positive regulation of vasodilation (GO:0045909)|positive regulation of voltage-gated chloride channel activity (GO:1902943)|respiratory gaseous exchange (GO:0007585)|response to cytokine (GO:0034097)|response to drug (GO:0042493)|response to estrogen (GO:0043627)|response to peptide hormone (GO:0043434)|sperm capacitation (GO:0048240)|transepithelial chloride transport (GO:0030321)|transmembrane transport (GO:0055085)|transport (GO:0006810)|vasodilation (GO:0042311)|water transport (GO:0006833)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|chloride channel complex (GO:0034707)|cytoplasmic vesicle membrane (GO:0030659)|early endosome (GO:0005769)|extracellular vesicular exosome (GO:0070062)|microvillus (GO:0005902)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	ATP binding (GO:0005524)|ATP-binding and phosphorylation-dependent chloride channel activity (GO:0005224)|bicarbonate transmembrane transporter activity (GO:0015106)|channel-conductance-controlling ATPase activity (GO:0005260)|chloride channel activity (GO:0005254)|chloride channel inhibitor activity (GO:0019869)|chloride transmembrane transporter activity (GO:0015108)|enzyme binding (GO:0019899)|PDZ domain binding (GO:0030165)			NS(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(5)|kidney(6)|large_intestine(15)|lung(22)|ovary(2)|pancreas(1)|prostate(3)|skin(9)	69	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Crofelemer(DB04941)|Glyburide(DB01016)|Ibuprofen(DB01050)|Ivacaftor(DB08820)	GGATTTGGGGAATTATTTGAG	0.328									Cystic Fibrosis																																							0			GRCh37	CM993855	CFTR	M							18	18	18					7																	117188705		2198	4290	6488	SO:0001583	missense	1080	Familial Cancer Database	CF	M28668	CCDS5773.1	7q31-q32	2014-09-17	2006-09-18		ENSG00000001626	ENSG00000001626		"Ion channels / Chloride channels : Cystic fibrosis transmembrane conductance regulators", "ATP binding cassette transporters / subfamily C"	1884	protein-coding gene	gene with protein product	"ATP-binding cassette sub-family C, member 7"	602421	"cystic fibrosis transmembrane conductance regulator, ATP-binding cassette (sub-family C, member 7)"	CF, ABCC7		2772657	Standard	XM_006715842		Approved	MRP7, ABC35, TNR-CFTR, dJ760C5.1, CFTR/MRP	uc003vjd.3	P13569	OTTHUMG00000023076	ENST00000003084.6:c.1220A>T	7.37:g.117188705A>T	ENSP00000003084:p.Glu407Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q20BG8|Q20BH2|Q2I0A1|Q2I102	Missense_Mutation	SNP	ENST00000003084.6	37	CCDS5773.1	.	.	.	.	.	.	.	.	.	.	A	15.26	2.781907	0.49891	.	.	ENSG00000001626	ENST00000003084;ENST00000426809	D;D	0.93189	-3.12;-3.18	4.85	3.7	0.42460	ABC transporter, transmembrane domain, type 1 (1);	0.149774	0.64402	D	0.000018	D	0.92698	0.7679	M	0.81802	2.56	0.80722	D	1	B	0.27882	0.192	B	0.32022	0.139	D	0.90227	0.4276	10	0.56958	D	0.05	-10.5798	10.1866	0.43002	0.9212:0.0:0.0788:0.0	.	407	P13569	CFTR_HUMAN	V	407;377	ENSP00000003084:E407V;ENSP00000389119:E377V	ENSP00000003084:E407V	E	+	2	0	CFTR	116975941	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	6.730000	0.74780	0.822000	0.34565	0.528000	0.53228	GAA		0.328	CFTR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059397.3	NM_000492		T	117188705	A	T	117188705	3	4	646	1	0	0	0	0	1	0	0	0	3296	246	9	5	1258	5	CFTR	7	117188705	Missense_Mutation	SNP	A	TCGA-KM-8438-01A-11D-2310-10	18200134	117188705	41949958	28	40011										
LMOD2	442721	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	123302156	123302156	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tttaaaagtcaaatagagaaCataaatttgaccaatggcag	7	5	1	2			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr7:123302156C>A	ENST00000458573.2	+	2	673	c.516C>A	c.(514-516)aaC>aaA	p.N172K	LMOD2_ENST00000456238.2_Intron	NM_207163.1	NP_997046.1	Q6P5Q4	LMOD2_HUMAN	leiomodin 2 (cardiac)	172						cytoskeleton (GO:0005856)											AAATAGAGAACATAAATTTGA	0.393																																																0													39	39	39					7																	123302156		1902	4103	6005	SO:0001583	missense	442721			AC006333	CCDS47693.1	7q31.32	2008-08-08			ENSG00000170807	ENSG00000170807			6648	protein-coding gene	gene with protein product		608006					Standard	NM_207163		Approved		uc003vky.2	Q6P5Q4	OTTHUMG00000157149	ENST00000458573.2:c.516C>A	7.37:g.123302156C>A	ENSP00000411932:p.Asn172Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A4D0W9|A4D0Y2|Q8WVJ8	Missense_Mutation	SNP	ENST00000458573.2	37	CCDS47693.1	.	.	.	.	.	.	.	.	.	.	C	4.545	0.101182	0.08731	.	.	ENSG00000170807	ENST00000458573;ENST00000444702;ENST00000332074	D	0.89050	-2.46	5.22	3.37	0.38596	.	.	.	.	.	D	0.83538	0.5276	M	0.61703	1.905	0.58432	D	0.999996	B	0.27625	0.183	B	0.19666	0.026	T	0.75747	-0.3209	9	0.14252	T	0.57	-15.6113	8.691	0.34267	0.0:0.6316:0.0:0.3684	.	172	Q6P5Q4	LMOD2_HUMAN	K	172;132;143	ENSP00000411932:N172K	ENSP00000405123:N143K	N	+	3	2	LMOD2	123089392	0.097000	0.21791	0.975000	0.42487	0.913000	0.54294	-0.128000	0.10531	1.168000	0.42723	0.591000	0.81541	AAC		0.393	LMOD2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348525.1			A	123302156	C	A	123302156	3	1	646	1	0	0	0	0	1	0	0	0	8864	477	17	4	522	4	LMOD2	7	123302156	Missense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10	6113451	123302156	35836507	29	40012										
GCC1	79571	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	127224826	127224826	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ctgctactgctaacgccactCtcggaccaactggcctcttc	7	17	2	0			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr7:127224826C>A	ENST00000321407.2	-	1	835	c.411G>T	c.(409-411)gaG>gaT	p.E137D	GCC1_ENST00000497650.1_Intron	NM_024523.5	NP_078799.2	Q96CN9	GCC1_HUMAN	GRIP and coiled-coil domain containing 1	137					protein targeting to Golgi (GO:0000042)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)				breast(2)|endometrium(6)|kidney(4)|large_intestine(6)|lung(13)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	38						TAACGCCACTCTCGGACCAAC	0.577																																																0													135	124	128					7																	127224826		2203	4300	6503	SO:0001583	missense	79571			AF525417	CCDS5796.1	7q22.3	2004-03-05	2003-10-17		ENSG00000179562	ENSG00000179562			19095	protein-coding gene	gene with protein product		607418	"golgi coiled-coil 1"			10209125	Standard	NM_024523		Approved	FLJ22035, GCC88, GCC1P, MGC20706	uc003vma.3	Q96CN9	OTTHUMG00000023590	ENST00000321407.2:c.411G>T	7.37:g.127224826C>A	ENSP00000318821:p.Glu137Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H6N7	Missense_Mutation	SNP	ENST00000321407.2	37	CCDS5796.1	.	.	.	.	.	.	.	.	.	.	C	10.14	1.269087	0.23221	.	.	ENSG00000179562	ENST00000321407	T	0.14022	2.54	5.89	5.01	0.66863	.	0.251271	0.42294	D	0.000738	T	0.15003	0.0362	L	0.39397	1.21	0.50467	D	0.999871	B	0.29936	0.262	B	0.34489	0.184	T	0.02471	-1.1154	10	0.23302	T	0.38	-31.1941	15.946	0.79792	0.0:0.9272:0.0:0.0728	.	137	Q96CN9	GCC1_HUMAN	D	137	ENSP00000318821:E137D	ENSP00000318821:E137D	E	-	3	2	GCC1	127012062	1.000000	0.71417	1.000000	0.80357	0.089000	0.18198	2.048000	0.41278	0.844000	0.35094	-0.797000	0.03246	GAG		0.577	GCC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059911.3	NM_024523		A	127224826	C	A	127224826	3	1	646	1	0	0	0	0	1	0	0	0	6292	912	32	4	1924	4	GCC1	7	127224826	Missense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10	3922670	127224826	31913837	30	40013										
SLC4A2	6522	broad.mit.edu;hgsc.bcm.edu	37	chr7	150772848	150772851	+	Frame_Shift_Del	DEL	ACTT	ACTT	-													0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ccaaacaccacccagatgtcActtacgtcaagaaggtgagc							TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	ACTT	ACTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr7:150772848_150772851delACTT	ENST00000485713.1	+	21	4497_4500	c.3457_3460delACTT	c.(3457-3462)acttacfs	p.TY1153fs	SLC4A2_ENST00000392826.2_Frame_Shift_Del_p.TY1144fs|SLC4A2_ENST00000413384.2_Frame_Shift_Del_p.TY1153fs|SLC4A2_ENST00000310317.5_Frame_Shift_Del_p.TY1071fs|RP11-148K1.12_ENST00000485974.1_RNA|FASTK_ENST00000489884.1_5'Flank|SLC4A2_ENST00000461735.1_Frame_Shift_Del_p.TY1139fs	NM_001199692.1	NP_001186621.1	P04920	B3A2_HUMAN	solute carrier family 4 (anion exchanger), member 2	1153	Membrane (anion exchange).				anion transport (GO:0006820)|bicarbonate transport (GO:0015701)|ion transport (GO:0006811)|transmembrane transport (GO:0055085)	basolateral plasma membrane (GO:0016323)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	anion transmembrane transporter activity (GO:0008509)|chloride transmembrane transporter activity (GO:0015108)|inorganic anion exchanger activity (GO:0005452)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(2)|liver(2)|lung(14)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	33			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CCCAGATGTCACTTACGTCAAGAA	0.588																																																0																																										SO:0001589	frameshift_variant	6522				CCDS5917.1, CCDS56520.1, CCDS56521.1	7q36.1	2013-07-19	2013-07-19		ENSG00000164889	ENSG00000164889		"Solute carriers"	11028	protein-coding gene	gene with protein product	"anion exchanger 2 type a", "anion exchanger 2 type b1", "anion exchanger 2 type b2"	109280	"erythrocyte membrane protein band 3-like 1", "solute carrier family 4, anion exchanger, member 2 (erythrocyte membrane protein band 3-like 1)"	EPB3L1, AE2		8434259	Standard	NM_003040		Approved	HKB3, BND3L, NBND3	uc003wit.4	P04920	OTTHUMG00000158443	ENST00000485713.1:c.3457_3460delACTT	7.37:g.150772848_150772851delACTT	ENSP00000419412:p.Thr1153fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6T0|B4DIT0|D3DX05|F8W682|Q45EY5|Q969L3	Frame_Shift_Del	DEL	ENST00000485713.1	37	CCDS5917.1																																																																																				0.588	SLC4A2-002	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000351039.1	NM_003040		-	150772851	ACTT	-	150772848	7	5	646	1	0	1	0	1	0	0	0	0	14667	159	6	0	3535	0	SLC4A2	7	150772848	Frame_Shift_Del	DEL	ACTT	TCGA-KM-8438-01A-11D-2310-10	23548022	150772848	8365815	31	40014	352	2								
SLC4A2	6522	bcgsc.ca	37	chr7	150772849	150772852	+	Frame_Shift_Del	DEL	ACTT	ACTT	-													0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	caaacaccacccagatgtcaCttacgtcaagaaggtgagcc							TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	ACTT	ACTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr7:150772849_150772852delACTT	ENST00000485713.1	+	21	4498_4501	c.3458_3461delACTT	c.(3457-3462)aacttcfs	p.NF1153fs	SLC4A2_ENST00000392826.2_Frame_Shift_Del_p.NF1144fs|SLC4A2_ENST00000413384.2_Frame_Shift_Del_p.NF1153fs|SLC4A2_ENST00000310317.5_Frame_Shift_Del_p.NF1071fs|RP11-148K1.12_ENST00000485974.1_RNA|FASTK_ENST00000489884.1_5'Flank|SLC4A2_ENST00000461735.1_Frame_Shift_Del_p.NF1139fs	NM_001199692.1	NP_001186621.1	P04920	B3A2_HUMAN	solute carrier family 4 (anion exchanger), member 2	1153	Membrane (anion exchange).				anion transport (GO:0006820)|bicarbonate transport (GO:0015701)|ion transport (GO:0006811)|transmembrane transport (GO:0055085)	basolateral plasma membrane (GO:0016323)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	anion transmembrane transporter activity (GO:0008509)|chloride transmembrane transporter activity (GO:0015108)|inorganic anion exchanger activity (GO:0005452)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(2)|liver(2)|lung(14)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	33			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CCAGATGTCACTTACGTCAAGAAG	0.593																																																0																																										SO:0001589	frameshift_variant	6522				CCDS5917.1, CCDS56520.1, CCDS56521.1	7q36.1	2013-07-19	2013-07-19		ENSG00000164889	ENSG00000164889		"Solute carriers"	11028	protein-coding gene	gene with protein product	"anion exchanger 2 type a", "anion exchanger 2 type b1", "anion exchanger 2 type b2"	109280	"erythrocyte membrane protein band 3-like 1", "solute carrier family 4, anion exchanger, member 2 (erythrocyte membrane protein band 3-like 1)"	EPB3L1, AE2		8434259	Standard	NM_003040		Approved	HKB3, BND3L, NBND3	uc003wit.4	P04920	OTTHUMG00000158443	ENST00000485713.1:c.3458_3461delACTT	7.37:g.150772849_150772852delACTT	ENSP00000419412:p.Asn1153fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6T0|B4DIT0|D3DX05|F8W682|Q45EY5|Q969L3	Frame_Shift_Del	DEL	ENST00000485713.1	37	CCDS5917.1																																																																																				0.593	SLC4A2-002	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000351039.1	NM_003040		-	150772852	ACTT	-	150772849	7	5	646	1	0	1	0	1	0	0	0	0	14667	565	20	0	3536	0	SLC4A2	7	150772849	Frame_Shift_Del	DEL	ACTT	TCGA-KM-8438-01A-11D-2310-10	1	150772849	8365814	32	40015	352	2								
MLL3	58508	mdanderson.org	37	chr7	151945349	151945349	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	agaattttctttctgttcctTttctccttgtagcctttcta	4	10	4	1	rs201039690		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr7:151945349T>A	ENST00000262189.6	-	14	2388	c.2170A>T	c.(2170-2172)Aag>Tag	p.K724*	KMT2C_ENST00000355193.2_Nonsense_Mutation_p.K724*	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	724					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)	p.K724*(4)									TTCTGTTCCTTTTCTCCTTGT	0.398																																																4	Substitution - Nonsense(4)	kidney(2)|skin(2)											70	69	69					7																	151945349		2203	4300	6503	SO:0001587	stop_gained	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.2170A>T	7.37:g.151945349T>A	ENSP00000262189:p.Lys724*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Nonsense_Mutation	SNP	ENST00000262189.6	37	CCDS5931.1	.	.	.	.	.	.	.	.	.	.	T	37	6.120169	0.97300	.	.	ENSG00000055609	ENST00000262189;ENST00000355193	.	.	.	5.13	-1.83	0.07833	.	0.648456	0.13994	N	0.348586	.	.	.	.	.	.	0.09310	N	0.999999	.	.	.	.	.	.	.	.	.	.	0.49607	T	0.09	.	1.3853	0.02239	0.12:0.2536:0.2465:0.3799	.	.	.	.	X	724	.	ENSP00000262189:K724X	K	-	1	0	MLL3	151576282	0.000000	0.05858	0.029000	0.17559	0.083000	0.17756	-0.061000	0.11693	-0.613000	0.05694	-0.321000	0.08615	AAG		0.398	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			A	151945349	T	A	151945349	4	1	646	1	0	0	0	0	0	1	0	0	9629	1850	64	5	12749	5	MLL3	7	151945349	Nonsense_Mutation	SNP	T	TCGA-KM-8438-01A-11D-2310-10	1172500	151945349	7193314	33	40016										
EFHA2	286097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	16935352	16935352	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	aaggctcatcgaagctatttCgaaatcttaaagaaaaaggt	8	6	2	1	rs150021056		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr8:16935352C>T	ENST00000318063.5	+	4	670	c.628C>T	c.(628-630)Cga>Tga	p.R210*		NM_181723.2	NP_859074.1	Q86XE3	MICU3_HUMAN	mitochondrial calcium uptake family, member 3	210						integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)	calcium ion binding (GO:0005509)	p.R210*(2)									GAAGCTATTTCGAAATCTTAA	0.303																																																2	Substitution - Nonsense(2)	large_intestine(1)|skin(1)						C	stop/ARG	2,4404	4.2+/-10.8	0,2,2201	66	62	63		628	3	1	8	dbSNP_134	63	0,8598		0,0,4299	yes	stop-gained	EFHA2	NM_181723.2		0,2,6500	TT,TC,CC		0.0,0.0454,0.0154		210/531	16935352	2,13002	2203	4299	6502	SO:0001587	stop_gained	286097			BC032868	CCDS5999.1	8p22	2013-03-26	2013-03-26	2013-03-14	ENSG00000155970	ENSG00000155970		"EF-hand domain containing"	27820	protein-coding gene	gene with protein product		610633	"EF hand domain family A2", "EF-hand domain family, member A2"	EFHA2		23409044	Standard	NM_181723		Approved	DKFZp313A0139	uc003wxd.2	Q86XE3	OTTHUMG00000096965	ENST00000318063.5:c.628C>T	8.37:g.16935352C>T	ENSP00000321455:p.Arg210*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYZ3	Nonsense_Mutation	SNP	ENST00000318063.5	37	CCDS5999.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	16.10|16.10	3.028534|3.028534	0.54790|0.54790	4.54E-4|4.54E-4	0.0|0.0	ENSG00000155970|ENSG00000155970	ENST00000318063|ENST00000517398	.|.	.|.	.|.	4.88|4.88	3.05|3.05	0.35203|0.35203	.|.	0.148150|.	0.46758|.	D|.	0.000269|.	.|T	.|0.51500	.|0.1678	.|.	.|.	.|.	0.80722|0.80722	A|A	1|1	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.59386	.|-0.7464	.|3	0.07644|.	T|.	0.81|.	-27.3167|-27.3167	9.9373|9.9373	0.41559|0.41559	0.1382:0.7888:0.0:0.073|0.1382:0.7888:0.0:0.073	.|.	.|.	.|.	.|.	X|L	210|49	.|.	ENSP00000321455:R210X|.	R|S	+|+	1|2	2|0	EFHA2|EFHA2	16979723|16979723	1.000000|1.000000	0.71417|0.71417	0.999000|0.999000	0.59377|0.59377	0.792000|0.792000	0.44763|0.44763	3.275000|3.275000	0.51639|0.51639	0.564000|0.564000	0.29238|0.29238	-0.535000|-0.535000	0.04281|0.04281	CGA|TCG		0.303	MICU3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214031.1	NM_181723		T	16935352	C	T	16935352	4	4	646	1	0	0	0	0	0	1	0	0	4946	876	31	1	642	1	EFHA2	8	16935352	Nonsense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10		16935352	129428670	34	40017										
RNF122	79845	broad.mit.edu;bcgsc.ca	37	chr8	33408896	33408896	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	atcgctcactctgtgcctggTtccgcagtttgctgggagaa	12	11	2	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr8:33408896T>C	ENST00000256257.1	-	3	595	c.194A>G	c.(193-195)aAc>aGc	p.N65S		NM_024787.2	NP_079063.2	Q9H9V4	RN122_HUMAN	ring finger protein 122	65						endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	zinc ion binding (GO:0008270)			endometrium(2)|large_intestine(3)|ovary(1)|upper_aerodigestive_tract(1)	7				KIRC - Kidney renal clear cell carcinoma(67;0.0966)|Kidney(114;0.116)		CTGTGCCTGGTTCCGCAGTTT	0.493																																																0													132	113	120					8																	33408896		2203	4300	6503	SO:0001583	missense	79845			AK022588	CCDS6091.1	8p12	2013-01-09			ENSG00000133874	ENSG00000133874		"RING-type (C3HC4) zinc fingers"	21147	protein-coding gene	gene with protein product							Standard	NM_024787		Approved	FLJ12526	uc003xjo.1	Q9H9V4	OTTHUMG00000163960	ENST00000256257.1:c.194A>G	8.37:g.33408896T>C	ENSP00000256257:p.Asn65Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LK3	Missense_Mutation	SNP	ENST00000256257.1	37	CCDS6091.1	.	.	.	.	.	.	.	.	.	.	T	17.66	3.444231	0.63067	.	.	ENSG00000133874	ENST00000256257	T	0.30448	1.53	5.88	5.88	0.94601	.	0.088003	0.85682	D	0.000000	T	0.19565	0.0470	N	0.14661	0.345	0.39976	D	0.974855	B	0.06786	0.001	B	0.04013	0.001	T	0.10291	-1.0636	10	0.21540	T	0.41	-33.6107	14.5307	0.67923	0.0:0.0:0.0:1.0	.	65	Q9H9V4	RN122_HUMAN	S	65	ENSP00000256257:N65S	ENSP00000256257:N65S	N	-	2	0	RNF122	33528438	1.000000	0.71417	1.000000	0.80357	0.942000	0.58702	7.110000	0.77069	2.246000	0.74042	0.533000	0.62120	AAC		0.493	RNF122-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376562.1	NM_024787		C	33408896	T	C	33408896	3	2	646	1	0	0	0	0	1	0	0	0	13445	1725	60	3	289	3	RNF122	8	33408896	Missense_Mutation	SNP	T	TCGA-KM-8438-01A-11D-2310-10	16473544	33408896	112955126	35	40018										
RP1	6101	bcgsc.ca	37	chr8	55538990	55538990	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	catctgggtatttgagaggaAtggcaaagaagagtttagtt	13	3	1	3	rs112884043		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr8:55538990A>G	ENST00000220676.1	+	4	2696	c.2548A>G	c.(2548-2550)Atg>Gtg	p.M850V		NM_006269.1	NP_006260.1	P56715	RP1_HUMAN	retinitis pigmentosa 1 (autosomal dominant)	850					axoneme assembly (GO:0035082)|cellular response to light stimulus (GO:0071482)|intracellular signal transduction (GO:0035556)|photoreceptor cell development (GO:0042461)|photoreceptor cell maintenance (GO:0045494)|photoreceptor cell outer segment organization (GO:0035845)|phototransduction, visible light (GO:0007603)|retinal cone cell development (GO:0046549)|retinal rod cell development (GO:0046548)|visual perception (GO:0007601)	axoneme (GO:0005930)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|photoreceptor connecting cilium (GO:0032391)|photoreceptor inner segment (GO:0001917)|photoreceptor outer segment (GO:0001750)	microtubule binding (GO:0008017)			NS(4)|breast(6)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(4)|kidney(7)|large_intestine(29)|lung(69)|ovary(6)|pancreas(1)|prostate(9)|skin(17)|upper_aerodigestive_tract(3)|urinary_tract(2)	169		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)			TTTGAGAGGAATGGCAAAGAA	0.343																																					Colon(91;1014 1389 7634 14542 40420)											0													44	47	46					8																	55538990		2203	4299	6502	SO:0001583	missense	6101			AF146592	CCDS6160.1	8q12.1	2013-01-08				ENSG00000104237			10263	protein-coding gene	gene with protein product		603937				1783394	Standard	NM_006269		Approved	DCDC4A	uc003xsd.1	P56715		ENST00000220676.1:c.2548A>G	8.37:g.55538990A>G	ENSP00000220676:p.Met850Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000220676.1	37	CCDS6160.1	.	.	.	.	.	.	.	.	.	.	A	6.248	0.413831	0.11812	.	.	ENSG00000104237	ENST00000220676	T	0.50277	0.75	5.63	0.138	0.14793	.	0.513050	0.19509	N	0.112549	T	0.29061	0.0722	L	0.43152	1.355	0.23416	N	0.997725	B	0.26318	0.146	B	0.15870	0.014	T	0.08953	-1.0697	10	0.25751	T	0.34	.	2.7202	0.05199	0.622:0.1239:0.1352:0.119	.	850	P56715	RP1_HUMAN	V	850	ENSP00000220676:M850V	ENSP00000220676:M850V	M	+	1	0	RP1	55701543	0.214000	0.23563	0.390000	0.26220	0.771000	0.43674	0.675000	0.25232	0.073000	0.16731	0.533000	0.62120	ATG		0.343	RP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378532.2	NM_006269		G	55538990	A	G	55538990	3	3	646	1	0	0	0	0	1	0	0	0	13545	101	4	3	2558	3	RP1	8	55538990	Missense_Mutation	SNP	A	TCGA-KM-8438-01A-11D-2310-10	22130094	55538990	90825032	36	40019										
FAM82B	51115	broad.mit.edu;hgsc.bcm.edu	37	chr8	87487151	87487154	+	Frame_Shift_Del	DEL	AAGT	AAGT	-													0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	aagtatgtctttcctaaaagAagtaagtttttgctgtagaa							TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	AAGT	AAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr8:87487151_87487154delAAGT	ENST00000406452.3	-	9	948_951	c.789_792delACTT	c.(787-792)ttacttfs	p.LL265fs	RMDN1_ENST00000523911.1_Intron|RMDN1_ENST00000430676.2_Frame_Shift_Del_p.LL235fs|RMDN1_ENST00000519966.1_Intron	NM_016033.2	NP_057117.2	Q96DB5	RMD1_HUMAN	regulator of microtubule dynamics 1	265						microtubule (GO:0005874)|mitochondrion (GO:0005739)											TTCCTAAAAGAAGTAAGTTTTTGC	0.368																																																0																																										SO:0001589	frameshift_variant	51115			AK000672	CCDS34918.1, CCDS69509.1, CCDS69510.1	8q21.3	2013-01-11	2013-01-11	2013-01-11	ENSG00000176623	ENSG00000176623			24285	protein-coding gene	gene with protein product		611871	"family with sequence similarity 82, member B"	FAM82B		10810093	Standard	NM_016033		Approved	CGI-90, FLJ20665, RMD1	uc003ydu.3	Q96DB5	OTTHUMG00000163692	ENST00000406452.3:c.789_792delACTT	8.37:g.87487155_87487158delAAGT	ENSP00000385927:p.Leu265fs	Somatic		WXS	Illumina HiSeq	Phase_I	A9UMZ8|B4DNF5|B4DZW6|B5MC61|C9JSC6|E7EVI2|Q9Y398	Frame_Shift_Del	DEL	ENST00000406452.3	37	CCDS34918.1																																																																																				0.368	RMDN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374770.2	NM_016033		-	87487154	AAGT	-	87487151	7	5	646	1	0	1	0	1	0	0	0	0	5639	233	9	0	160	0	FAM82B	8	87487151	Frame_Shift_Del	DEL	AAGT	TCGA-KM-8438-01A-11D-2310-10	31948161	87487151	58876871	37	40020	353	2								
FAM82B	51115	bcgsc.ca	37	chr8	87487152	87487155	+	Frame_Shift_Del	DEL	AAGT	AAGT	-													0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	agtatgtctttcctaaaagaAgtaagtttttgctgtagaag							TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	AAGT	AAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr8:87487152_87487155delAAGT	ENST00000406452.3	-	9	947_950	c.788_791delACTT	c.(787-792)tactttfs	p.YF263fs	RMDN1_ENST00000523911.1_Intron|RMDN1_ENST00000430676.2_Frame_Shift_Del_p.YF233fs|RMDN1_ENST00000519966.1_Intron	NM_016033.2	NP_057117.2	Q96DB5	RMD1_HUMAN	regulator of microtubule dynamics 1	263						microtubule (GO:0005874)|mitochondrion (GO:0005739)											TCCTAAAAGAAGTAAGTTTTTGCT	0.368																																																0																																										SO:0001589	frameshift_variant	51115			AK000672	CCDS34918.1, CCDS69509.1, CCDS69510.1	8q21.3	2013-01-11	2013-01-11	2013-01-11	ENSG00000176623	ENSG00000176623			24285	protein-coding gene	gene with protein product		611871	"family with sequence similarity 82, member B"	FAM82B		10810093	Standard	NM_016033		Approved	CGI-90, FLJ20665, RMD1	uc003ydu.3	Q96DB5	OTTHUMG00000163692	ENST00000406452.3:c.788_791delACTT	8.37:g.87487152_87487155delAAGT	ENSP00000385927:p.Tyr263fs	Somatic		WXS	Illumina HiSeq	Phase_I	A9UMZ8|B4DNF5|B4DZW6|B5MC61|C9JSC6|E7EVI2|Q9Y398	Frame_Shift_Del	DEL	ENST00000406452.3	37	CCDS34918.1																																																																																				0.368	RMDN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374770.2	NM_016033		-	87487155	AAGT	-	87487152	7	5	646	1	0	1	0	1	0	0	0	0	5639	72	3	0	161	0	FAM82B	8	87487152	Frame_Shift_Del	DEL	AAGT	TCGA-KM-8438-01A-11D-2310-10	1	87487152	58876870	38	40021	353	2								
RPL30	6156	ucsc.edu	37	chr8	99054067	99054067	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ttctggcatgcttctaatgaTgtcagagtcacctaaaaaat	7	8	4	2			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr8:99054067T>C	ENST00000521291.1	-	4	456	c.310A>G	c.(310-312)Atc>Gtc	p.I104V	RPL30_ENST00000518164.1_Intron|SNORA72_ENST00000384339.1_RNA|RPL30_ENST00000287038.3_Missense_Mutation_p.I104V|RPL30_ENST00000523172.1_Missense_Mutation_p.I40V|KB-1208A12.3_ENST00000501016.2_RNA|RPL30_ENST00000396070.2_Missense_Mutation_p.I85V			P62888	RL30_HUMAN	ribosomal protein L30	104					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|structural constituent of ribosome (GO:0003735)			kidney(2)|lung(4)|skin(1)	7	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.192)			CTTCTAATGATGTCAGAGTCA	0.303																																																0													51	52	51					8																	99054067		2203	4300	6503	SO:0001583	missense	6156				CCDS34928.1	8q22	2013-05-09			ENSG00000156482	ENSG00000156482		"L ribosomal proteins"	10333	protein-coding gene	gene with protein product		180467				1577483	Standard	NM_000989		Approved	L30	uc003yif.3	P62888	OTTHUMG00000164796	ENST00000521291.1:c.310A>G	8.37:g.99054067T>C	ENSP00000428085:p.Ile104Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R591|P04645|Q502Z6	Missense_Mutation	SNP	ENST00000521291.1	37	CCDS34928.1	.	.	.	.	.	.	.	.	.	.	T	15.44	2.835143	0.50951	.	.	ENSG00000156482	ENST00000521291;ENST00000396070;ENST00000287038;ENST00000523172;ENST00000521726	T;T;T;T	0.58060	0.36;0.36;0.36;0.36	5.1	3.92	0.45320	Ribosomal protein L7Ae/L30e/S12e/Gadd45 (1);	0.000000	0.85682	D	0.000000	T	0.64494	0.2603	H	0.95437	3.67	0.58432	D	0.999999	B	0.15141	0.012	B	0.22152	0.038	T	0.65961	-0.6041	10	0.66056	D	0.02	-2.787	10.1382	0.42719	0.1491:0.0:0.0:0.8509	.	104	P62888	RL30_HUMAN	V	104;85;104;40;104	ENSP00000428085:I104V;ENSP00000287038:I104V;ENSP00000430506:I40V;ENSP00000429483:I104V	ENSP00000287038:I104V	I	-	1	0	RPL30	99123243	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	7.529000	0.81952	0.854000	0.35336	0.454000	0.30748	ATC		0.303	RPL30-007	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380450.1			C	99054067	T	C	99054067	3	2	646	1	0	0	0	0	1	0	0	0	13593	1464	51	3	41	3	RPL30	8	99054067	Missense_Mutation	SNP	T	TCGA-KM-8438-01A-11D-2310-10	11566915	99054067	47309955	39	40022										
FLJ46321	389763	mdanderson.org	37	chr9	84607651	84607651	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	catcaagcttccctagaagcTtccacgagaggagctcaaat	8	12	2	2			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr9:84607651T>C	ENST00000344803.2	+	4	2313	c.2266T>C	c.(2266-2268)Ttc>Ctc	p.F756L		NM_001001670.2	NP_001001670.1	Q6ZQQ2	S31D1_HUMAN	SPATA31 subfamily D, member 1	756					cell differentiation (GO:0030154)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)											CCCTAGAAGCTTCCACGAGAG	0.463																																																0													50	45	47					9																	84607651		1814	4071	5885	SO:0001583	missense	389763				CCDS47986.1	9q21.32	2012-10-12	2012-10-12	2012-10-12	ENSG00000214929	ENSG00000214929			37283	protein-coding gene	gene with protein product			"family with sequence similarity 75, member D1"	FAM75D1			Standard	NM_001001670		Approved	FLJ46321	uc004amn.3	Q6ZQQ2	OTTHUMG00000169122	ENST00000344803.2:c.2266T>C	9.37:g.84607651T>C	ENSP00000341988:p.Phe756Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000344803.2	37	CCDS47986.1	.	.	.	.	.	.	.	.	.	.	T	8.889	0.953501	0.18431	.	.	ENSG00000214929	ENST00000344803	T	0.05258	3.47	2.81	-1.47	0.08772	.	1.033220	0.07726	N	0.944536	T	0.05044	0.0135	L	0.53249	1.67	0.09310	N	1	P	0.35456	0.502	B	0.34722	0.188	T	0.39057	-0.9632	10	0.10377	T	0.69	-6.7016	0.374	0.00384	0.2211:0.1411:0.2268:0.411	.	756	Q6ZQQ2	F75D1_HUMAN	L	756	ENSP00000341988:F756L	ENSP00000341988:F756L	F	+	1	0	FAM75D1	83797471	0.000000	0.05858	0.003000	0.11579	0.011000	0.07611	-1.518000	0.02246	-0.290000	0.09025	0.418000	0.28097	TTC		0.463	SPATA31D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402325.1	NM_001001670		C	84607651	T	C	84607651	3	2	646	1	0	0	0	0	1	0	0	0	5939	1609	56	3	2280	3	FLJ46321	9	84607651	Missense_Mutation	SNP	T	TCGA-KM-8438-01A-11D-2310-10		84607651	56605780	40	40023										
GAS1	2619	ucsc.edu	37	chr9	89561028	89561028	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ccgctcgaggccgtcgcacaCgcagtcgttgagcagcgccg	14	16	0	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr9:89561028C>T	ENST00000298743.7	-	1	1076	c.667G>A	c.(667-669)Gtg>Atg	p.V223M	RP11-276H19.1_ENST00000415801.1_lincRNA	NM_002048.2	NP_002039.2	P54826	GAS1_HUMAN	growth arrest-specific 1	223					axon guidance (GO:0007411)|camera-type eye development (GO:0043010)|cell cycle arrest (GO:0007050)|cell fate commitment (GO:0045165)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|cerebellum morphogenesis (GO:0021587)|developmental growth (GO:0048589)|dorsal/ventral neural tube patterning (GO:0021904)|embryonic cranial skeleton morphogenesis (GO:0048701)|embryonic digit morphogenesis (GO:0042733)|eye morphogenesis (GO:0048592)|middle ear morphogenesis (GO:0042474)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of mitotic cell cycle (GO:0045930)|negative regulation of protein processing (GO:0010955)|negative regulation of smoothened signaling pathway (GO:0045879)|odontogenesis (GO:0042476)|outer ear morphogenesis (GO:0042473)|palate development (GO:0060021)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of smoothened signaling pathway (GO:0045880)|programmed cell death (GO:0012501)|regulation of apoptotic process (GO:0042981)|regulation of ER to Golgi vesicle-mediated transport (GO:0060628)|regulation of smoothened signaling pathway (GO:0008589)	anchored component of plasma membrane (GO:0046658)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				kidney(1)|lung(2)|skin(1)	4						CCGTCGCACACGCAGTCGTTG	0.677																																																0													26	25	25					9																	89561028		2203	4300	6503	SO:0001583	missense	2619				CCDS6674.1	9q21.3-q22	2008-07-21			ENSG00000180447	ENSG00000180447			4165	protein-coding gene	gene with protein product	"Growth arrest-specific gene-1"	139185				8307588	Standard	NM_002048		Approved		uc004aox.4	P54826	OTTHUMG00000020141	ENST00000298743.7:c.667G>A	9.37:g.89561028C>T	ENSP00000298743:p.Val223Met	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGM4|Q6B086	Missense_Mutation	SNP	ENST00000298743.7	37	CCDS6674.1	.	.	.	.	.	.	.	.	.	.	C	14.48	2.547253	0.45383	.	.	ENSG00000180447	ENST00000298743	T	0.63255	-0.03	4.49	3.51	0.40186	GDNF/GAS1 (2);	0.098848	0.40640	U	0.001049	T	0.70439	0.3224	L	0.48642	1.525	0.42504	D	0.992941	D	0.89917	1.0	D	0.74674	0.984	T	0.70149	-0.4951	10	0.38643	T	0.18	1.9743	13.1526	0.59498	0.1608:0.8392:0.0:0.0	.	223	P54826	GAS1_HUMAN	M	223	ENSP00000298743:V223M	ENSP00000298743:V223M	V	-	1	0	GAS1	88750848	1.000000	0.71417	1.000000	0.80357	0.015000	0.08874	4.172000	0.58243	2.046000	0.60703	0.549000	0.68633	GTG		0.677	GAS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052928.1	NM_002048		T	89561028	C	T	89561028	3	4	646	1	0	0	0	0	1	0	0	0	6251	536	19	1	374	1	GAS1	9	89561028	Missense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10	4953377	89561028	51652403	41	40024										
NCS1	23413	ucsc.edu	37	chr9	132934986	132934986	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gaagcccgaagttgtggaggAgctgaccaggaagacctact	14	9	0	2			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr9:132934986A>G	ENST00000372398.3	+	1	130	c.44A>G	c.(43-45)gAg>gGg	p.E15G		NM_014286.3	NP_055101.2	P62166	NCS1_HUMAN	neuronal calcium sensor 1	15					calcium ion transmembrane transport (GO:0070588)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of exocytosis (GO:0045921)|regulation of neuron projection development (GO:0010975)	axon (GO:0030424)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|dendrite (GO:0030425)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	calcium ion binding (GO:0005509)|magnesium ion binding (GO:0000287)|voltage-gated calcium channel activity (GO:0005245)			large_intestine(1)|lung(4)|stomach(1)	6						GTTGTGGAGGAGCTGACCAGG	0.756																																					Melanoma(30;182 1162 22581 33240)											0													24	17	20					9																	132934986		2184	4280	6464	SO:0001583	missense	23413			AF186409	CCDS6932.1	9q34.11	2013-01-10	2010-01-27	2010-01-27	ENSG00000107130	ENSG00000107130		"EF-hand domain containing"	3953	protein-coding gene	gene with protein product		603315	"frequenin (Drosophila) homolog", "frequenin homolog (Drosophila)"	FREQ		11092894	Standard	NM_014286		Approved	NCS-1	uc004bzi.2	P62166	OTTHUMG00000020801	ENST00000372398.3:c.44A>G	9.37:g.132934986A>G	ENSP00000361475:p.Glu15Gly	Somatic		WXS	Illumina HiSeq	Phase_I	E9PAY3|P36610|Q9UK26	Missense_Mutation	SNP	ENST00000372398.3	37	CCDS6932.1	.	.	.	.	.	.	.	.	.	.	a	13.10	2.136236	0.37728	.	.	ENSG00000107130	ENST00000372398	T	0.30981	1.51	2.38	2.38	0.29361	EF-hand-like domain (1);	0.071909	0.53938	U	0.000054	T	0.41604	0.1166	H	0.94964	3.605	0.80722	D	1	B	0.25719	0.132	B	0.18561	0.022	T	0.47699	-0.9097	10	0.62326	D	0.03	.	8.2937	0.31973	1.0:0.0:0.0:0.0	.	15	P62166	NCS1_HUMAN	G	15	ENSP00000361475:E15G	ENSP00000361475:E15G	E	+	2	0	NCS1	131974807	1.000000	0.71417	0.998000	0.56505	0.724000	0.41520	2.598000	0.46223	0.850000	0.35239	0.149000	0.16113	GAG		0.756	NCS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054637.1	NM_014286		G	132934986	A	G	132934986	3	3	646	1	0	0	0	0	1	0	0	0	10247	304	11	3	46	3	NCS1	9	132934986	Missense_Mutation	SNP	A	TCGA-KM-8438-01A-11D-2310-10	43373958	132934986	8278445	42	40025										
TUBB8	347688	mdanderson.org	37	chr10	93804	93804	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tagggctccaccacggtgtcCgacaccttgggcgagggcag	15	13	0	0	rs9329304	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr10:93804C>T	ENST00000309812.4	-	4	590	c.528G>A	c.(526-528)tcG>tcA	p.S176S	TUBB8_ENST00000332708.5_3'UTR|TUBB8_ENST00000413237.3_5'UTR|TUBB8_ENST00000447903.2_Silent_p.S104S	NM_177987.2	NP_817124.1	Q3ZCM7	TBB8_HUMAN	tubulin, beta 8 class VIII	176					microtubule-based process (GO:0007017)|protein polymerization (GO:0051258)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|cervix(1)|endometrium(4)|large_intestine(5)|lung(12)|ovary(2)|prostate(3)|skin(3)|stomach(1)	32		all_cancers(4;0.00131)|all_lung(4;0.000777)|Lung NSC(4;0.0043)|all_epithelial(10;0.0154)|Colorectal(49;0.235)		Epithelial(11;0.00341)|all cancers(11;0.00922)|OV - Ovarian serous cystadenocarcinoma(14;0.0508)|Lung(33;0.132)		CCACGGTGTCCGACACCTTGG	0.537																																					Pancreas(192;2041 3010 9013 18103)											0								T		308,4098	763.7+/-413.2	0,308,1895	102	92	95		528		0.2	10	dbSNP_119	95	11,8573	794.8+/-407.5	0,11,4281	no	coding-synonymous	TUBB8	NM_177987.2		0,319,6176	TT,TC,CC		0.1281,6.9905,2.4557		176/445	93804	319,12671	2203	4292	6495	SO:0001819	synonymous_variant	347688			AF355127	CCDS7051.1	10p15.3	2014-05-06			ENSG00000173876			"Tubulins"	20773	protein-coding gene	gene with protein product	"class VIII beta-tubulin"						Standard	NM_177987		Approved	bA631M21.2	uc001ifi.2	Q3ZCM7	OTTHUMG00000174803	ENST00000309812.4:c.528G>A	10.37:g.93804C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SQX9|Q8WZ78	Silent	SNP	ENST00000309812.4	37	CCDS7051.1																																																																																				0.537	TUBB8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467795.1	NM_177987		T	93804	C	T	93804	2	4	646	1	0	0	0	0	0	0	0	1	16773	639	23	1		1	TUBB8	10	93804	Silent	SNP	C	TCGA-KM-8438-01A-11D-2310-10		93804	135440943	43	40026										
MUC6	4588	mdanderson.org	37	chr11	1016871	1016871	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	taggacctgtggaagagaagGgactgctccctgtaggtggg	17	7	0	1	rs554068781		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr11:1016871G>T	ENST00000421673.2	-	31	5980	c.5930C>A	c.(5929-5931)cCc>cAc	p.P1977H		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1977	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GGAAGAGAAGGGACTGCTCCC	0.587																																																0													1308	1300	1302					11																	1016871		2203	4299	6502	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5930C>A	11.37:g.1016871G>T	ENSP00000406861:p.Pro1977His	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	12.39	1.923756	0.34002	.	.	ENSG00000184956	ENST00000421673	T	0.18657	2.2	2.69	1.71	0.24356	.	.	.	.	.	T	0.14614	0.0353	L	0.29908	0.895	0.09310	N	1	B	0.29212	0.237	B	0.28553	0.091	T	0.22382	-1.0218	9	0.56958	D	0.05	.	7.0992	0.25327	0.0:0.0:0.7301:0.2699	.	1977	Q6W4X9	MUC6_HUMAN	H	1977	ENSP00000406861:P1977H	ENSP00000406861:P1977H	P	-	2	0	MUC6	1006871	0.015000	0.18098	0.001000	0.08648	0.026000	0.11368	1.250000	0.32850	0.416000	0.25844	0.306000	0.20318	CCC		0.587	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		T	1016871	G	T	1016871	3	4	646	1	0	0	0	0	1	0	0	0	9987	1232	43	4	1401	4	MUC6	11	1016871	Missense_Mutation	SNP	G	TCGA-KM-8438-01A-11D-2310-10		1016871	133989645	44	40027										
MUC6	4588	mdanderson.org	37	chr11	1017152	1017152	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tgggtggaccctgtggccttGatcgtggtcggtggaggaat	18	7	0	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr11:1017152G>C	ENST00000421673.2	-	31	5699	c.5649C>G	c.(5647-5649)atC>atG	p.I1883M		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1883	Approximate repeats.|Thr-rich.			PTTIKA -> LTTLMN (in Ref. 5; AAA35866). {ECO:0000305}.	cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		CTGTGGCCTTGATCGTGGTCG	0.562																																																0													568	561	564					11																	1017152		2202	4287	6489	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5649C>G	11.37:g.1017152G>C	ENSP00000406861:p.Ile1883Met	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	10.70	1.422707	0.25639	.	.	ENSG00000184956	ENST00000421673	T	0.22539	1.95	2.4	-2.53	0.06326	.	.	.	.	.	T	0.19127	0.0459	N	0.21448	0.665	0.09310	N	1	D	0.54207	0.965	P	0.59012	0.85	T	0.11470	-1.0586	9	0.33940	T	0.23	.	2.4101	0.04422	0.1196:0.3184:0.3879:0.174	.	1883	Q6W4X9	MUC6_HUMAN	M	1883	ENSP00000406861:I1883M	ENSP00000406861:I1883M	I	-	3	3	MUC6	1007152	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.412000	0.07132	-0.608000	0.05731	-0.657000	0.03884	ATC		0.562	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		C	1017152	G	C	1017152	3	2	646	1	0	0	0	0	1	0	0	0	9987	1280	45	4	1682	4	MUC6	11	1017152	Missense_Mutation	SNP	G	TCGA-KM-8438-01A-11D-2310-10	281	1017152	133989364	45	40028										
MUC5B	727897	mdanderson.org	37	chr11	1270383	1270383	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	accaccccgggccacaccacGgccacctccaggaccacggc	9	22	0	0	rs61869661	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr11:1270383G>A	ENST00000529681.1	+	31	12331	c.12273G>A	c.(12271-12273)acG>acA	p.T4091T	MUC5B_ENST00000447027.1_Silent_p.T4094T|RP11-532E4.2_ENST00000532061.2_RNA	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	4091	7 X Cys-rich subdomain repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		GCCACACCACGGCCACCTCCA	0.701													G|||	37	0.00738818	0.0	0.0173	5008	,	,		14467	0.002		0.0199	False		,,,				2504	0.0031															0								G		19,4175		1,17,2079	91	126	114		12273	-4.3	0	11	dbSNP_129	114	160,8248		5,150,4049	no	coding-synonymous	MUC5B	NM_002458.2		6,167,6128	AA,AG,GG		1.9029,0.453,1.4204		4091/5763	1270383	179,12423	2097	4204	6301	SO:0001819	synonymous_variant	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.12273G>A	11.37:g.1270383G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Silent	SNP	ENST00000529681.1	37	CCDS44515.2																																																																																				0.701	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		A	1270383	G	A	1270383	2	1	646	1	0	0	0	0	0	0	0	1	9986	1103	39	1		1	MUC5B	11	1270383	Silent	SNP	G	TCGA-KM-8438-01A-11D-2310-10	253231	1270383	133736133	46	40029			1	92		2	2	19	G		5.232974e-05
MUC5B	727897	mdanderson.org	37	chr11	1270401	1270401	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	acggccacctccaggaccacGgccacggccacacccagcaa	9	20	0	0	rs201512746	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr11:1270401G>A	ENST00000529681.1	+	31	12349	c.12291G>A	c.(12289-12291)acG>acA	p.T4097T	MUC5B_ENST00000447027.1_Silent_p.T4100T|RP11-532E4.2_ENST00000532061.2_RNA	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	4097	7 X Cys-rich subdomain repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)		p.A4055_T4056delAT(1)		cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		CCAGGACCACGGCCACGGCCA	0.711																																																1	Deletion - In frame(1)	ovary(1)											68	100	89					11																	1270401		2087	4191	6278	SO:0001819	synonymous_variant	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.12291G>A	11.37:g.1270401G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Silent	SNP	ENST00000529681.1	37	CCDS44515.2																																																																																				0.711	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		A	1270401	G	A	1270401	2	1	646	1	0	0	0	0	0	0	0	1	9986	1103	39	1		1	MUC5B	11	1270401	Silent	SNP	G	TCGA-KM-8438-01A-11D-2310-10	18	1270401	133736115	47	40030			1	92		2	2	19	G		5.232974e-05
TRPM5	29850	mdanderson.org	37	chr11	2435946	2435946	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ccagccgccggtcactcaccAagggccagccgctcgtattt	10	17	2	0	rs4929981	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr11:2435946A>G	ENST00000155858.6	-	11	1751	c.1743T>C	c.(1741-1743)ctT>ctC	p.L581L	TRPM5_ENST00000528453.1_Splice_Site_p.L581L|TRPM5_ENST00000533060.1_Splice_Site_p.L581L|TRPM5_ENST00000452833.1_Splice_Site_p.L583L	NM_014555.3	NP_055370.1			transient receptor potential cation channel, subfamily M, member 5											breast(1)|central_nervous_system(1)|endometrium(4)|liver(1)|lung(8)|ovary(2)|prostate(2)|skin(2)|urinary_tract(2)	23		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)		gTCACTCACCAAGGGCCAGCC	0.711													A|||	3808	0.760383	0.6286	0.83	5008	,	,		13145	0.9048		0.7117	False		,,,				2504	0.7904				NSCLC(1;49 61 17205 18850 43201)											0								A		2544,1064		900,744,160	4	5	5		1743	-0.7	1	11	dbSNP_111	5	5370,1840		2019,1332,254	no	coding-synonymous-near-splice	TRPM5	NM_014555.3		2919,2076,414	GG,GA,AA		25.5201,29.49,26.8441		581/1166	2435946	7914,2904	1804	3605	5409	SO:0001630	splice_region_variant	29850			AF177473	CCDS31340.1	11p15.5	2011-12-14			ENSG00000070985	ENSG00000070985		"Voltage-gated ion channels / Transient receptor potential cation channels"	14323	protein-coding gene	gene with protein product		604600				10607831, 16382100	Standard	NM_014555		Approved	LTRPC5, MTR1	uc001lwm.4	Q9NZQ8	OTTHUMG00000009896	ENST00000155858.6:c.1744+1T>C	11.37:g.2435946A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000155858.6	37	CCDS31340.1																																																																																				0.711	TRPM5-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000027378.1	NM_014555	Silent	G	2435946	A	G	2435946	5	3	646	1	0	0	0	0	0	0	1	0	16601	144	5	3	1810	3	TRPM5	11	2435946	Splice_Site	SNP	A	TCGA-KM-8438-01A-11D-2310-10	1165545	2435946	132570570	48	40031										
SYT9	143425	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	7324616	7324616	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gtcacagagccaacctcgtcGgcccggtcagtaatgccttc	10	15	2	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr11:7324616G>A	ENST00000318881.6	+	2	729	c.492G>A	c.(490-492)tcG>tcA	p.S164S	SYT9_ENST00000396716.2_Silent_p.S132S	NM_175733.3	NP_783860.1	Q86SS6	SYT9_HUMAN	synaptotagmin IX	164					positive regulation of calcium ion-dependent exocytosis (GO:0045956)|regulation of insulin secretion (GO:0050796)	cell junction (GO:0030054)|dense core granule (GO:0031045)|integral component of membrane (GO:0016021)|secretory granule membrane (GO:0030667)|synaptic vesicle (GO:0008021)	metal ion binding (GO:0046872)|transporter activity (GO:0005215)			NS(1)|endometrium(2)|large_intestine(9)|lung(17)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	38				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		CAACCTCGTCGGCCCGGTCAG	0.587																																																0																																										SO:0001819	synonymous_variant	143425			AK055003	CCDS7778.1	11p15.4	2013-01-21			ENSG00000170743	ENSG00000170743		"Synaptotagmins"	19265	protein-coding gene	gene with protein product		613528				11543631	Standard	NM_175733		Approved		uc001mfe.3	Q86SS6	OTTHUMG00000165499	ENST00000318881.6:c.492G>A	11.37:g.7324616G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000318881.6	37	CCDS7778.1																																																																																				0.587	SYT9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384483.1	NM_175733		A	7324616	G	A	7324616	2	1	646	1	0	0	0	0	0	0	0	1	15493	1103	39	1		1	SYT9	11	7324616	Silent	SNP	G	TCGA-KM-8438-01A-11D-2310-10	4888670	7324616	127681900	49	40032										
CALCB	797	broad.mit.edu;mdanderson.org	37	chr11	15096731	15096731	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	agctgaagcaggagcaggagAcacagggctccaggtgaggt	17	8	0	3			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr11:15096731A>G	ENST00000533448.1	+	3	322	c.211A>G	c.(211-213)Aca>Gca	p.T71A	CALCB_ENST00000523376.1_Missense_Mutation_p.T82A|CALCB_ENST00000324229.6_Missense_Mutation_p.T71A			P10092	CALCB_HUMAN	calcitonin-related polypeptide beta	71					cellular calcium ion homeostasis (GO:0006874)|signal transduction (GO:0007165)	extracellular region (GO:0005576)	neuropeptide hormone activity (GO:0005184)			endometrium(1)|large_intestine(1)|lung(1)|skin(2)	5						GGAGCAGGAGACACAGGGCTC	0.617											OREG0020793	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													66	69	68					11																	15096731		2200	4294	6494	SO:0001583	missense	797				CCDS7820.1	11p14.2-p12	2013-02-25	2008-02-20			ENSG00000175868		"Endogenous ligands"	1438	protein-coding gene	gene with protein product		114160	"calcitonin 2"	CALC2			Standard	NM_000728		Approved	FLJ30166, CGRP-II	uc001mlx.1	P10092		ENST00000533448.1:c.211A>G	11.37:g.15096731A>G	ENSP00000433490:p.Thr71Ala	Somatic	700	WXS	Illumina HiSeq	Phase_I	A8K573|D3DQX4|Q569I0|Q9UCN9	Missense_Mutation	SNP	ENST00000533448.1	37	CCDS7820.1	.	.	.	.	.	.	.	.	.	.	A	3.803	-0.041286	0.07452	.	.	ENSG00000175868	ENST00000523376;ENST00000324229;ENST00000533448	T;T;T	0.22743	1.94;1.94;1.94	4.21	-4.08	0.03963	.	0.664761	0.14008	N	0.347681	T	0.10121	0.0248	L	0.39514	1.22	0.09310	N	1	B	0.06786	0.001	B	0.10450	0.005	T	0.40534	-0.9558	10	0.08837	T	0.75	-2.6446	1.9945	0.03453	0.4014:0.1338:0.3345:0.1303	.	71	P10092	CALCB_HUMAN	A	82;71;71	ENSP00000428882:T82A;ENSP00000346017:T71A;ENSP00000433490:T71A	ENSP00000346017:T71A	T	+	1	0	CALCB	15053307	0.013000	0.17824	0.000000	0.03702	0.187000	0.23431	0.309000	0.19332	-0.830000	0.04262	0.454000	0.30748	ACA		0.617	CALCB-003	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387433.1	NM_000728		G	15096731	A	G	15096731	3	3	646	1	0	0	0	0	1	0	0	0	2578	275	10	3	217	3	CALCB	11	15096731	Missense_Mutation	SNP	A	TCGA-KM-8438-01A-11D-2310-10	7772115	15096731	119909785	50	40033										
FOLH1	2346	mdanderson.org	37	chr11	49204779	49204779	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	caacagcctctgcaattccaCgcctataagcatattctgaa	5	13	2	1	rs116795343	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr11:49204779C>T	ENST00000256999.2	-	7	1102	c.842G>A	c.(841-843)cGt>cAt	p.R281H	FOLH1_ENST00000343844.4_De_novo_Start_OutOfFrame|FOLH1_ENST00000340334.7_Missense_Mutation_p.R266H|FOLH1_ENST00000356696.3_Missense_Mutation_p.R281H|FOLH1_ENST00000533034.1_Missense_Mutation_p.R266H	NM_004476.1	NP_004467.1	Q04609	FOLH1_HUMAN	folate hydrolase (prostate-specific membrane antigen) 1	281	NAALADase.				folic acid-containing compound metabolic process (GO:0006760)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	carboxypeptidase activity (GO:0004180)|dipeptidase activity (GO:0016805)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)|peptidase activity (GO:0008233)	p.R281L(1)		NS(2)|breast(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(7)|lung(34)|ovary(1)|skin(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	60					Capromab(DB00089)	TGCAATTCCACGCCTATAAGC	0.348																																																1	Substitution - Missense(1)	lung(1)											72	73	73					11																	49204779		2201	4298	6499	SO:0001583	missense	2346			M99487	CCDS7946.1, CCDS31493.1, CCDS53626.1, CCDS53627.1, CCDS53628.1	11p11.2	2011-07-22			ENSG00000086205	ENSG00000086205	3.4.17.21		3788	protein-coding gene	gene with protein product	"glutamate carboxylase II", "glutamate carboxypeptidase II"	600934		FOLH		9838072	Standard	NM_001193472		Approved	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII	uc001ngy.3	Q04609	OTTHUMG00000166625	ENST00000256999.2:c.842G>A	11.37:g.49204779C>T	ENSP00000256999:p.Arg281His	Somatic		WXS	Illumina HiSeq	Phase_I	A4UU12|A9CB79|B7Z312|B7Z343|D3DQS5|E9PDX8|O43748|Q16305|Q541A4|Q8TAY3|Q9NP15|Q9NYE2|Q9P1P8	Missense_Mutation	SNP	ENST00000256999.2	37	CCDS7946.1	.	.	.	.	.	.	.	.	.	.	C	2.929	-0.221410	0.06061	.	.	ENSG00000086205	ENST00000256999;ENST00000356696;ENST00000340334;ENST00000533034;ENST00000389724	T;T;T;T	0.43294	0.95;0.95;0.95;0.95	2.76	-1.12	0.09808	.	0.978445	0.08346	N	0.960084	T	0.21427	0.0516	N	0.14661	0.345	0.80722	D	1	B;B;B;B	0.06786	0.001;0.001;0.0;0.0	B;B;B;B	0.06405	0.001;0.0;0.002;0.0	T	0.23655	-1.0182	10	0.14656	T	0.56	.	6.6038	0.22714	0.0:0.3193:0.0:0.6807	.	266;266;281;281	Q04609-9;Q04609-7;Q04609-8;Q04609	.;.;.;FOLH1_HUMAN	H	281;281;266;266;281	ENSP00000256999:R281H;ENSP00000349129:R281H;ENSP00000344131:R266H;ENSP00000431463:R266H	ENSP00000256999:R281H	R	-	2	0	FOLH1	49161355	0.002000	0.14202	0.792000	0.32020	0.272000	0.26649	-0.922000	0.04004	-0.085000	0.12573	0.194000	0.17425	CGT		0.348	FOLH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390896.1	NM_004476		T	49204779	C	T	49204779	3	4	646	1	0	0	0	0	1	0	0	0	5986	536	19	1	1462	1	FOLH1	11	49204779	Missense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10	34108048	49204779	85801737	51	40034			2	93	47934378	2	2	12	N	C_A	3.197961e-05
FOLH1	2346	mdanderson.org	37	chr11	49204790	49204790	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gcaattccacgcctataagcAtattctgaaaaaaaaaattg	5	8	1	1	rs76509850	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr11:49204790A>G	ENST00000256999.2	-	7	1091	c.831T>C	c.(829-831)taT>taC	p.Y277Y	FOLH1_ENST00000343844.4_5'UTR|FOLH1_ENST00000340334.7_Silent_p.Y262Y|FOLH1_ENST00000356696.3_Silent_p.Y277Y|FOLH1_ENST00000533034.1_Silent_p.Y262Y	NM_004476.1	NP_004467.1	Q04609	FOLH1_HUMAN	folate hydrolase (prostate-specific membrane antigen) 1	277	NAALADase.				folic acid-containing compound metabolic process (GO:0006760)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	carboxypeptidase activity (GO:0004180)|dipeptidase activity (GO:0016805)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)|peptidase activity (GO:0008233)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(7)|lung(34)|ovary(1)|skin(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	60					Capromab(DB00089)	GCCTATAAGCATATTCTGAAA	0.343																																																0													61	61	61					11																	49204790		2201	4298	6499	SO:0001819	synonymous_variant	2346			M99487	CCDS7946.1, CCDS31493.1, CCDS53626.1, CCDS53627.1, CCDS53628.1	11p11.2	2011-07-22			ENSG00000086205	ENSG00000086205	3.4.17.21		3788	protein-coding gene	gene with protein product	"glutamate carboxylase II", "glutamate carboxypeptidase II"	600934		FOLH		9838072	Standard	NM_001193472		Approved	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII	uc001ngy.3	Q04609	OTTHUMG00000166625	ENST00000256999.2:c.831T>C	11.37:g.49204790A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A4UU12|A9CB79|B7Z312|B7Z343|D3DQS5|E9PDX8|O43748|Q16305|Q541A4|Q8TAY3|Q9NP15|Q9NYE2|Q9P1P8	Silent	SNP	ENST00000256999.2	37	CCDS7946.1																																																																																				0.343	FOLH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390896.1	NM_004476		G	49204790	A	G	49204790	2	3	646	1	0	0	0	0	0	0	0	1	5986	224	8	3		3	FOLH1	11	49204790	Silent	SNP	A	TCGA-KM-8438-01A-11D-2310-10	11	49204790	85801726	52	40035			2	93	47934378	2	2	12	N	C_A	3.197961e-05
OR4D10	390197	broad.mit.edu	37	chr11	59245050	59245050	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tcctcatcatggtcactgttAcctgtgaatctcgccttcac	6	14	5	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr11:59245050A>G	ENST00000530162.1	+	1	205	c.148A>G	c.(148-150)Acc>Gcc	p.T50A		NM_001004705.1	NP_001004705.1	Q8NGI6	OR4DA_HUMAN	olfactory receptor, family 4, subfamily D, member 10	50						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|breast(2)|endometrium(2)|kidney(2)|large_intestine(4)|lung(12)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	30						GGTCACTGTTACCTGTGAATC	0.448																																																0													188	194	192					11																	59245050		2142	4275	6417	SO:0001583	missense	390197			AB065808	CCDS53636.1	11q12.1	2012-10-03		2004-03-10	ENSG00000254466	ENSG00000254466		"GPCR / Class A : Olfactory receptors"	15173	protein-coding gene	gene with protein product				OR4D10P			Standard	NM_001004705		Approved	OST711	uc001nnz.1	Q8NGI6	OTTHUMG00000167341	ENST00000530162.1:c.148A>G	11.37:g.59245050A>G	ENSP00000436424:p.Thr50Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNH6	Missense_Mutation	SNP	ENST00000530162.1	37	CCDS53636.1	.	.	.	.	.	.	.	.	.	.	A	5.242	0.230125	0.09969	.	.	ENSG00000254466	ENST00000530162	T	0.01068	5.38	4.4	4.4	0.53042	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.01353	0.0044	L	0.33189	0.99	0.24281	N	0.995208	P	0.37663	0.604	B	0.38327	0.271	T	0.52631	-0.8550	9	0.40728	T	0.16	.	8.3873	0.32508	0.8249:0.0:0.0:0.1751	.	50	Q8NGI6	OR4DA_HUMAN	A	50	ENSP00000436424:T50A	ENSP00000436424:T50A	T	+	1	0	OR4D10	59001626	0.000000	0.05858	0.669000	0.29828	0.016000	0.09150	0.428000	0.21395	1.733000	0.51620	0.533000	0.62120	ACC		0.448	OR4D10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394235.1	NM_001004705		G	59245050	A	G	59245050	3	3	646	1	0	0	0	0	1	0	0	0	11061	391	14	3	150	3	OR4D10	11	59245050	Missense_Mutation	SNP	A	TCGA-KM-8438-01A-11D-2310-10	10040260	59245050	75761466	53	40036										
TBC1D10C	374403	ucsc.edu	37	chr11	67176906	67176906	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	cgtggtgctgtcagagcgggAcctgcagcgggagatcaagg	18	9	2	2			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr11:67176906A>G	ENST00000542590.1	+	9	1036	c.1022A>G	c.(1021-1023)gAc>gGc	p.D341G	TBC1D10C_ENST00000526387.1_Silent_p.G276G|TBC1D10C_ENST00000312390.5_Missense_Mutation_p.D341G			Q8IV04	TB10C_HUMAN	TBC1 domain family, member 10C	341					retrograde transport, endosome to Golgi (GO:0042147)	filopodium membrane (GO:0031527)|membrane (GO:0016020)|plasma membrane (GO:0005886)	Rab GTPase activator activity (GO:0005097)			cervix(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(5)|ovary(1)|prostate(2)|skin(1)|urinary_tract(1)	16			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			TCAGAGCGGGACCTGCAGCGG	0.706																																																0													4	6	5					11																	67176906		1833	3735	5568	SO:0001583	missense	374403			BC035630	CCDS8162.1, CCDS58150.1	11q13.1	2013-07-09			ENSG00000175463	ENSG00000175463			24702	protein-coding gene	gene with protein product		610831				17230191, 20404108	Standard	NM_001256508		Approved	FLJ00332, Carabin, EPI64C	uc001ola.4	Q8IV04	OTTHUMG00000167139	ENST00000542590.1:c.1022A>G	11.37:g.67176906A>G	ENSP00000443654:p.Asp341Gly	Somatic		WXS	Illumina HiSeq	Phase_I	G3V1D6	Missense_Mutation	SNP	ENST00000542590.1	37	CCDS8162.1	.	.	.	.	.	.	.	.	.	.	A	13.69	2.312459	0.40895	.	.	ENSG00000175463	ENST00000312390;ENST00000542590	T;T	0.07908	3.15;3.15	5.05	2.62	0.31277	.	0.122213	0.36854	N	0.002374	T	0.07188	0.0182	L	0.36672	1.1	0.53005	D	0.999966	B	0.27416	0.178	B	0.31442	0.13	T	0.32348	-0.9910	10	0.39692	T	0.17	.	6.5476	0.22414	0.6848:0.1611:0.0:0.1541	.	341	Q8IV04	TB10C_HUMAN	G	341	ENSP00000310193:D341G;ENSP00000443654:D341G	ENSP00000310193:D341G	D	+	2	0	TBC1D10C	66933482	0.987000	0.35691	0.962000	0.40283	0.631000	0.37964	2.832000	0.48152	0.357000	0.24183	0.459000	0.35465	GAC		0.706	TBC1D10C-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395492.2	NM_198517		G	67176906	A	G	67176906	3	3	646	1	0	0	0	0	1	0	0	0	15612	275	10	3	1056	3	TBC1D10C	11	67176906	Missense_Mutation	SNP	A	TCGA-KM-8438-01A-11D-2310-10	7931856	67176906	67829610	54	40037										
PRB1	5542	broad.mit.edu	37	chr12	11506383	11506383	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tgtgggggtggtccttgtggCtttcctggaggagattggga	19	5	0	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr12:11506383C>T	ENST00000500254.2	-	4	351				PRB1_ENST00000546254.1_Intron|PRB1_ENST00000545626.1_Intron	NM_005039.3|NM_199353.2	NP_005030.2|NP_955385.1	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1							extracellular region (GO:0005576)				NS(1)|central_nervous_system(1)|kidney(4)|large_intestine(1)|lung(9)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	20			OV - Ovarian serous cystadenocarcinoma(49;0.185)			GTCCTTGTGGCTTTCCTGGAG	0.602																																																0													10	7	8					12																	11506383		1016	2010	3026	SO:0001627	intron_variant	5542				CCDS8642.1, CCDS55805.1	12p13.2	2012-10-02							9337	protein-coding gene	gene with protein product		180989				8317492	Standard	NM_199353		Approved	PM, PMF, PMS, PRB1M, PRB1L	uc001qzu.1	P04280		ENST00000500254.2:c.314-59G>A	12.37:g.11506383C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q08805|Q15186|Q15187|Q15214|Q15215|Q16038	Silent	SNP	ENST00000500254.2	37	CCDS8642.1																																																																																				0.602	PRB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000402312.1	NM_005039		T	11506383	C	T	11506383	1	4	646	0	1	0	0	0	0	0	0	0	12452	796	28	2		2	PRB1	12	11506383	Intron	SNP	C	TCGA-KM-8438-01A-11D-2310-10		11506383	122345512	55	40038										
TESC	54997	ucsc.edu	37	chr12	117513078	117513078	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	acccgctgccaatcttaccgAatggtaggctgatctccact	8	14	2	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr12:117513078A>G	ENST00000335209.7	-	2	312	c.126T>C	c.(124-126)atT>atC	p.I42I	TESC_ENST00000541210.1_Silent_p.I42I|TESC_ENST00000392545.4_Silent_p.I95I			Q96BS2	CHP3_HUMAN	tescalcin	42					cell differentiation (GO:0030154)|cellular response to retinoic acid (GO:0071300)|negative regulation of catalytic activity (GO:0043086)|negative regulation of cell proliferation (GO:0008285)|positive regulation of gene expression (GO:0010628)|positive regulation of granulocyte differentiation (GO:0030854)|positive regulation of megakaryocyte differentiation (GO:0045654)|positive regulation of sodium:proton antiporter activity (GO:0032417)|positive regulation of transcription, DNA-templated (GO:0045893)|protein maturation (GO:0051604)|protein stabilization (GO:0050821)|protein targeting to plasma membrane (GO:0072661)|regulation of cell adhesion mediated by integrin (GO:0033628)	cytoplasm (GO:0005737)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	calcium ion binding (GO:0005509)|magnesium ion binding (GO:0000287)|phosphatase inhibitor activity (GO:0019212)|protein homodimerization activity (GO:0042803)|protein kinase inhibitor activity (GO:0004860)			endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|upper_aerodigestive_tract(1)	6	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0297)		AATCTTACCGAATGGTAGGCT	0.512																																																0													87	84	85					12																	117513078		2203	4300	6503	SO:0001819	synonymous_variant	54997			AF443207	CCDS9183.2, CCDS9183.3, CCDS53835.1	12q24.22	2013-01-10			ENSG00000088992	ENSG00000088992		"EF-hand domain containing"	26065	protein-coding gene	gene with protein product	"calcineurin-like EF hand protein 3"	611585				11145610, 11696366, 12809501, 14661968	Standard	NM_017899		Approved	TSC, FLJ20607, CHP3	uc001twh.3	Q96BS2	OTTHUMG00000144168	ENST00000335209.7:c.126T>C	12.37:g.117513078A>G		Somatic		WXS	Illumina HiSeq	Phase_I	F5H1Y5|Q9NWT9	Silent	SNP	ENST00000335209.7	37	CCDS9183.3																																																																																				0.512	TESC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000291363.2	NM_017899		G	117513078	A	G	117513078	2	3	646	1	0	0	0	0	0	0	0	1	15778	242	9	3		3	TESC	12	117513078	Silent	SNP	A	TCGA-KM-8438-01A-11D-2310-10	106006695	117513078	16338817	56	40039										
HNF1A	6927	broad.mit.edu;hgsc.bcm.edu	37	chr12	121431369	121431370	+	Frame_Shift_Ins	INS	-	-	G													0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tgattgaagagcccacaggtINSgatgagctaccaaccaagaa							TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr12:121431369_121431370insG	ENST00000257555.6	+	3	799_800	c.573_574insG	c.(574-576)gatfs	p.D192fs	HNF1A_ENST00000544413.1_Frame_Shift_Ins_p.D192fs|HNF1A_ENST00000402929.1_Frame_Shift_Ins_p.D192fs|HNF1A_ENST00000400024.2_Frame_Shift_Ins_p.D192fs|HNF1A_ENST00000541395.1_Frame_Shift_Ins_p.D192fs|HNF1A_ENST00000538626.1_Intron|HNF1A_ENST00000543427.1_Frame_Shift_Ins_p.D75fs			P20823	HNF1A_HUMAN	HNF1 homeobox A	192					glucose homeostasis (GO:0042593)|glucose import (GO:0046323)|insulin secretion (GO:0030073)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription initiation from RNA polymerase II promoter (GO:0060261)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|renal glucose absorption (GO:0035623)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|protein complex (GO:0043234)	DNA binding (GO:0003677)|protein dimerization activity (GO:0046983)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)	p.G191fs*26(1)		breast(3)|central_nervous_system(2)|cervix(1)|endometrium(8)|large_intestine(19)|liver(175)|lung(9)|ovary(2)|prostate(1)|urinary_tract(1)	221	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					AGCCCACAGGTGATGAGCTACC	0.589									Hepatic Adenoma, Familial Clustering of																																							1	Deletion - Frameshift(1)	liver(1)																																								SO:0001589	frameshift_variant	6927	Familial Cancer Database	incl. Maturity-Onset Diabetes of the Young type 3, MODY3	M57732	CCDS9209.1	12q24.31	2014-09-17	2007-08-24	2007-08-24	ENSG00000135100	ENSG00000135100		"Homeoboxes / HNF class"	11621	protein-coding gene	gene with protein product		142410	"transcription factor 1, hepatic; LF-B1, hepatic nuclear factor (HNF1), albumin proximal factor"	MODY3, TCF1		1535333, 7795649	Standard	NM_000545		Approved	HNF1, LFB1	uc001tzg.3	P20823	OTTHUMG00000151015	ENST00000257555.6:c.574dupG	12.37:g.121431370_121431370dupG	ENSP00000257555:p.Asp192fs	Somatic		WXS	Illumina HiSeq	Phase_I	A5Z2R8|E0YMJ5|E0YMK0|E0YMK1|E2I9R4|E2I9R5|F5H5U3|Q2M3H2|Q99861	Frame_Shift_Ins	INS	ENST00000257555.6	37	CCDS9209.1																																																																																				0.589	HNF1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320957.5	NM_000545		G	121431370	-	G	121431369	7	5	646	1	0	1	1	0	0	0	0	0	7258	1683	59	0	583	0	HNF1A	12	121431369	Frame_Shift_Ins	INS	-	TCGA-KM-8438-01A-11D-2310-10	3918291	121431369	12420526	57	40040										
C1QTNF9	338872	mdanderson.org	37	chr13	24895797	24895797	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tgtcctgcagctgaagctcgGggatgaggtgtggctgcagg	18	8	0	2			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr13:24895797G>A	ENST00000382071.2	+	4	978	c.893G>A	c.(892-894)gGg>gAg	p.G298E	C1QTNF9_ENST00000332018.4_Missense_Mutation_p.G298E|C1QTNF9-AS1_ENST00000449656.1_RNA|AL359736.1_ENST00000422229.2_5'Flank			P0C862	C1T9A_HUMAN	C1q and tumor necrosis factor related protein 9	298	C1q. {ECO:0000255|PROSITE- ProRule:PRU00368}.					collagen trimer (GO:0005581)|extracellular region (GO:0005576)				endometrium(1)|kidney(2)|lung(6)	9		all_cancers(29;3.55e-20)|all_epithelial(30;4.25e-17)|all_lung(29;1.04e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.00565)|Epithelial(112;0.027)|OV - Ovarian serous cystadenocarcinoma(117;0.115)|Lung(94;0.159)		CTGAAGCTCGGGGATGAGGTG	0.507																																																0													102	106	105					13																	24895797		2203	4300	6503	SO:0001583	missense	338872			BC040438	CCDS9306.1	13q12.12	2010-08-18			ENSG00000240654	ENSG00000240654			28732	protein-coding gene	gene with protein product		614285				12975309, 18787108	Standard	NM_178540		Approved	MGC48915, CTRP9, C1QTNF9A, AQL1	uc001upj.3	P0C862	OTTHUMG00000016576	ENST00000382071.2:c.893G>A	13.37:g.24895797G>A	ENSP00000371503:p.Gly298Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3T6|Q0VGC5|Q5VX65|Q5VX66|Q8IUU4	Missense_Mutation	SNP	ENST00000382071.2	37	CCDS9306.1	.	.	.	.	.	.	.	.	.	.	g	20.4	3.980211	0.74474	.	.	ENSG00000240654	ENST00000382071;ENST00000332018	D;D	0.82255	-1.59;-1.59	3.96	3.96	0.45880	Tumour necrosis factor-like (2);Complement C1q protein (4);	0.100850	0.64402	D	0.000002	D	0.90154	0.6923	M	0.78285	2.405	0.80722	D	1	D	0.76494	0.999	D	0.75020	0.985	D	0.90374	0.4383	10	0.44086	T	0.13	.	15.5078	0.75753	0.0:0.0:1.0:0.0	.	298	P0C862	C1T9A_HUMAN	E	298	ENSP00000371503:G298E;ENSP00000333737:G298E	ENSP00000333737:G298E	G	+	2	0	C1QTNF9	23793797	1.000000	0.71417	0.915000	0.36163	0.687000	0.40016	6.425000	0.73370	2.180000	0.69256	0.430000	0.28490	GGG		0.507	C1QTNF9-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044177.1	NM_178540		A	24895797	G	A	24895797	3	1	646	1	0	0	0	0	1	0	0	0	1972	1232	43	2	903	2	C1QTNF9	13	24895797	Missense_Mutation	SNP	G	TCGA-KM-8438-01A-11D-2310-10		24895797	90274081	58	40041										
NIN	51199	mdanderson.org;bcgsc.ca	37	chr14	51237220	51237220	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tgctgcaggatctgctctctCtcttttcggagttcattttt	8	10	4	0			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr14:51237220C>A	ENST00000382041.3	-	12	1510	c.1320G>T	c.(1318-1320)gaG>gaT	p.E440D	NIN_ENST00000245441.5_Missense_Mutation_p.E440D|NIN_ENST00000324330.9_Missense_Mutation_p.E440D|NIN_ENST00000389868.3_Missense_Mutation_p.E440D|NIN_ENST00000530997.2_Missense_Mutation_p.E440D|NIN_ENST00000382043.4_Missense_Mutation_p.E440D|NIN_ENST00000453196.1_Missense_Mutation_p.E440D	NM_016350.4|NM_182946.1	NP_057434.4|NP_891991	Q8N4C6	NIN_HUMAN	ninein (GSK3B interacting protein)	440					centrosome localization (GO:0051642)|centrosome-templated microtubule nucleation (GO:0090222)|microtubule anchoring at centrosome (GO:0034454)	centriole (GO:0005814)|centrosome (GO:0005813)|microtubule (GO:0005874)|nucleolus (GO:0005730)|spindle pole (GO:0000922)	calcium ion binding (GO:0005509)|GTP binding (GO:0005525)			breast(4)|central_nervous_system(1)|cervix(2)|endometrium(10)|kidney(5)|large_intestine(13)|lung(16)|ovary(1)|pancreas(1)|prostate(5)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(5)	71	all_epithelial(31;0.00244)|Breast(41;0.127)					TCTGCTCTCTCTCTTTTCGGA	0.448			T	PDGFRB	MPD																																		Dom	yes		14	14q24	51199	ninein (GSK3B interacting protein)		L	0													177	156	163					14																	51237220		2203	4300	6503	SO:0001583	missense	51199			AF212162	CCDS32078.1, CCDS32079.1, CCDS32078.2	14q21-q22	2013-01-10			ENSG00000100503	ENSG00000100503		"EF-hand domain containing"	14906	protein-coding gene	gene with protein product		608684				11004522, 11162463	Standard	NM_020921		Approved		uc001wyi.3	Q8N4C6	OTTHUMG00000029569	ENST00000382041.3:c.1320G>T	14.37:g.51237220C>A	ENSP00000371472:p.Glu440Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDB8|B7WPA3|C9JSB6|C9JSG2|C9JXL2|Q5BKU3|Q6P0P6|Q9BWU6|Q9C012|Q9C013|Q9C014|Q9H5I6|Q9HAT7|Q9HBY5|Q9HCK7|Q9UH61	Missense_Mutation	SNP	ENST00000382041.3	37	CCDS32079.1	.	.	.	.	.	.	.	.	.	.	C	19.78	3.891097	0.72524	.	.	ENSG00000100503	ENST00000245441;ENST00000311149;ENST00000389868;ENST00000382043;ENST00000324292;ENST00000382041;ENST00000324330;ENST00000453196	T;T;T;T;T;T	0.22134	1.97;1.97;1.97;1.97;1.97;1.97	5.61	5.61	0.85477	.	0.000000	0.85682	D	0.000000	T	0.50411	0.1614	M	0.78637	2.42	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;0.999;0.999;0.996	D;D;D;D;D	0.87578	0.998;0.998;0.993;0.991;0.987	T	0.50110	-0.8866	10	0.59425	D	0.04	-18.9462	18.6203	0.91318	0.0:1.0:0.0:0.0	.	446;440;440;440;440	Q8N4C6-5;C9J066;Q8N4C6;Q5BKU3;Q8N4C6-7	.;.;NIN_HUMAN;.;.	D	440;440;440;440;446;440;440;440	ENSP00000245441:E440D;ENSP00000374518:E440D;ENSP00000371474:E440D;ENSP00000371472:E440D;ENSP00000324210:E440D;ENSP00000412391:E440D	ENSP00000245441:E440D	E	-	3	2	NIN	50306970	1.000000	0.71417	1.000000	0.80357	0.417000	0.31264	3.064000	0.49986	2.658000	0.90341	0.650000	0.86243	GAG		0.448	NIN-016	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000395207.2	NM_182946		A	51237220	C	A	51237220	3	1	646	1	0	0	0	0	1	0	0	0	10424	912	32	4	5309	4	NIN	14	51237220	Missense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10		51237220	56112320	59	40042										
MARK3	4140	broad.mit.edu	37	chr14	103941508	103941508	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gcaagtaatcctaataaggcGgatattcctgaacgcaagaa	9	8	0	2	rs549864859		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr14:103941508G>A	ENST00000429436.2	+	13	1953	c.1443G>A	c.(1441-1443)gcG>gcA	p.A481A	MARK3_ENST00000303622.9_Silent_p.A481A|MARK3_ENST00000335102.5_Silent_p.A504A|MARK3_ENST00000561071.1_Intron|MARK3_ENST00000416682.2_Silent_p.A504A|MARK3_ENST00000216288.7_Silent_p.A465A|MARK3_ENST00000553942.1_Silent_p.A481A|MARK3_ENST00000440884.3_Silent_p.A402A	NM_001128918.1|NM_001128919.1	NP_001122390.1|NP_001122391.1	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	481						plasma membrane (GO:0005886)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			autonomic_ganglia(1)|breast(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(6)|lung(10)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	30		Melanoma(154;0.155)	Epithelial(46;0.241)			CTAATAAGGCGGATATTCCTG	0.483													G|||	1	0.000199681	0.0	0.0	5008	,	,		20146	0.001		0.0	False		,,,				2504	0.0															0													103	100	101					14																	103941508		1941	4132	6073	SO:0001819	synonymous_variant	4140			M80359	CCDS41993.1, CCDS45165.1, CCDS45166.1, CCDS45167.1, CCDS55947.1	14q32.32	2014-04-07			ENSG00000075413	ENSG00000075413			6897	protein-coding gene	gene with protein product		602678				9533022	Standard	NM_002376		Approved	CTAK1, KP78, PAR-1A	uc001ymz.4	P27448	OTTHUMG00000171789	ENST00000429436.2:c.1443G>A	14.37:g.103941508G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60219|Q86TT8|Q8TB41|Q8WX83|Q96RG1|Q9UMY9|Q9UN34	Silent	SNP	ENST00000429436.2	37	CCDS45165.1	.	.	.	.	.	.	.	.	.	.	G	10.55	1.381168	0.24944	.	.	ENSG00000075413	ENST00000554627	.	.	.	5.65	-10.3	0.00346	.	.	.	.	.	T	0.32224	0.0822	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.41592	-0.9500	4	.	.	.	.	2.0884	0.03651	0.2373:0.08:0.2825:0.4002	.	.	.	.	Q	233	.	.	R	+	2	0	MARK3	103011261	0.000000	0.05858	0.826000	0.32828	0.989000	0.77384	-2.962000	0.00672	-1.547000	0.01715	-0.253000	0.11424	CGG		0.483	MARK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415144.1	NM_001128918		A	103941508	G	A	103941508	2	1	646	1	0	0	0	0	0	0	0	1	9321	1103	39	1		1	MARK3	14	103941508	Silent	SNP	G	TCGA-KM-8438-01A-11D-2310-10	52704288	103941508	3408032	60	40043										
KIF26A	26153	mdanderson.org	37	chr14	104643409	104643409	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	cgggccagcaaggtagaagcAgcacaccgtcttgccggaca	13	13	1	1	rs2487303	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr14:104643409A>G	ENST00000423312.2	+	12	4284	c.4284A>G	c.(4282-4284)gcA>gcG	p.A1428A	KIF26A_ENST00000315264.7_Silent_p.A1289A	NM_015656.1	NP_056471.1	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	1428					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|blood coagulation (GO:0007596)|enteric nervous system development (GO:0048484)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|negative regulation of signal transduction (GO:0009968)|regulation of cell growth by extracellular stimulus (GO:0001560)	cytosol (GO:0005829)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|microtubule binding (GO:0008017)|microtubule motor activity (GO:0003777)			autonomic_ganglia(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(8)|pancreas(1)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)	21		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		AGGTAGAAGCAGCACACCGTC	0.706													G|||	3872	0.773163	0.826	0.7176	5008	,	,		14740	0.7827		0.7048	False		,,,				2504	0.8016															0								G		3386,734		1393,600,67	11	16	14		4284	-7.2	0	14	dbSNP_100	14	6044,2232		2231,1582,325	no	coding-synonymous	KIF26A	NM_015656.1		3624,2182,392	GG,GA,AA		26.9696,17.8155,23.9271		1428/1883	104643409	9430,2966	2060	4138	6198	SO:0001819	synonymous_variant	26153			AB033062	CCDS45171.1	14q32.33	2009-03-19			ENSG00000066735	ENSG00000066735		"Kinesins"	20226	protein-coding gene	gene with protein product		613231				10574462, 11416179	Standard	NM_015656		Approved	KIAA1236, DKFZP434N178	uc001yos.4	Q9ULI4	OTTHUMG00000154986	ENST00000423312.2:c.4284A>G	14.37:g.104643409A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TAZ7|Q96GK3|Q9UFL3	Silent	SNP	ENST00000423312.2	37	CCDS45171.1																																																																																				0.706	KIF26A-002	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414356.1			G	104643409	A	G	104643409	2	3	646	1	0	0	0	0	0	0	0	1	8301	175	7	3		3	KIF26A	14	104643409	Silent	SNP	A	TCGA-KM-8438-01A-11D-2310-10	701901	104643409	2706131	61	40044										
SQRDL	58472	broad.mit.edu;hgsc.bcm.edu	37	chr15	45951304	45951305	+	Frame_Shift_Ins	INS	-	-	A													0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gaatcaccatggctgcccgcINSatgaagaggaaagtgggtgc							TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr15:45951304_45951305insA	ENST00000260324.7	+	2	569_570	c.183_184insA	c.(184-186)atgfs	p.M62fs	RP11-96O20.4_ENST00000564080.1_Frame_Shift_Ins_p.M62fs|SQRDL_ENST00000568606.1_Frame_Shift_Ins_p.M62fs	NM_021199.3	NP_067022.1	Q9Y6N5	SQRD_HUMAN	sulfide quinone reductase-like (yeast)	62					cellular nitrogen compound metabolic process (GO:0034641)|small molecule metabolic process (GO:0044281)|sulfide oxidation, using sulfide:quinone oxidoreductase (GO:0070221)|sulfur amino acid catabolic process (GO:0000098)|sulfur amino acid metabolic process (GO:0000096)	mitochondrial inner membrane (GO:0005743)	sulfide:quinone oxidoreductase activity (GO:0070224)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|ovary(1)|prostate(2)	11		Lung NSC(122;0.000117)|all_lung(180;0.000737)|Melanoma(134;0.0417)		all cancers(107;5.89e-18)|GBM - Glioblastoma multiforme(94;1.21e-06)|COAD - Colon adenocarcinoma(120;0.17)|Colorectal(133;0.188)		TGGCTGCCCGCATGAAGAGGAA	0.609																																																0																																										SO:0001589	frameshift_variant	58472			AF042284	CCDS10127.1	15q21.1	2010-08-05			ENSG00000137767	ENSG00000137767			20390	protein-coding gene	gene with protein product						10810093, 10224084	Standard	NM_021199		Approved	CGI-44	uc001zvu.4	Q9Y6N5	OTTHUMG00000131476	ENST00000260324.7:c.184dupA	15.37:g.45951305_45951305dupA	ENSP00000260324:p.Met62fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UQM8	Frame_Shift_Ins	INS	ENST00000260324.7	37	CCDS10127.1																																																																																				0.609	SQRDL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254319.2			A	45951305	-	A	45951304	7	5	646	1	0	1	1	0	0	0	0	0	15141	697	25	0	185	0	SQRDL	15	45951304	Frame_Shift_Ins	INS	-	TCGA-KM-8438-01A-11D-2310-10		45951304	56580088	62	40045	354	2								
SQRDL	58472	bcgsc.ca	37	chr15	45951305	45951306	+	Frame_Shift_Ins	INS	-	-	A													0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	aatcaccatggctgcccgcaINStgaagaggaaagtgggtgca							TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr15:45951305_45951306insA	ENST00000260324.7	+	2	570_571	c.184_185insA	c.(184-186)atgfs	p.M62fs	RP11-96O20.4_ENST00000564080.1_Frame_Shift_Ins_p.M62fs|SQRDL_ENST00000568606.1_Frame_Shift_Ins_p.M62fs	NM_021199.3	NP_067022.1	Q9Y6N5	SQRD_HUMAN	sulfide quinone reductase-like (yeast)	62					cellular nitrogen compound metabolic process (GO:0034641)|small molecule metabolic process (GO:0044281)|sulfide oxidation, using sulfide:quinone oxidoreductase (GO:0070221)|sulfur amino acid catabolic process (GO:0000098)|sulfur amino acid metabolic process (GO:0000096)	mitochondrial inner membrane (GO:0005743)	sulfide:quinone oxidoreductase activity (GO:0070224)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|ovary(1)|prostate(2)	11		Lung NSC(122;0.000117)|all_lung(180;0.000737)|Melanoma(134;0.0417)		all cancers(107;5.89e-18)|GBM - Glioblastoma multiforme(94;1.21e-06)|COAD - Colon adenocarcinoma(120;0.17)|Colorectal(133;0.188)		GGCTGCCCGCATGAAGAGGAAA	0.609																																																0																																										SO:0001589	frameshift_variant	58472			AF042284	CCDS10127.1	15q21.1	2010-08-05			ENSG00000137767	ENSG00000137767			20390	protein-coding gene	gene with protein product						10810093, 10224084	Standard	NM_021199		Approved	CGI-44	uc001zvu.4	Q9Y6N5	OTTHUMG00000131476	ENST00000260324.7:c.184dupA	15.37:g.45951305_45951305dupA	ENSP00000260324:p.Met62fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UQM8	Frame_Shift_Ins	INS	ENST00000260324.7	37	CCDS10127.1																																																																																				0.609	SQRDL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254319.2			A	45951306	-	A	45951305	7	5	646	1	0	1	1	0	0	0	0	0	15141	217	8	0	186	0	SQRDL	15	45951305	Frame_Shift_Ins	INS	-	TCGA-KM-8438-01A-11D-2310-10	1	45951305	56580087	63	40046	354	2								
DMXL2	23312	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	51768854	51768854	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tttctgtccttagtcttctaCgatcacttaaaagaagtcct	5	10	4	1	rs200609180	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr15:51768854C>A	ENST00000251076.5	-	27	7180	c.6893G>T	c.(6892-6894)cGt>cTt	p.R2298L	DMXL2_ENST00000543779.2_Missense_Mutation_p.R2299L|DMXL2_ENST00000449909.3_Missense_Mutation_p.R1662L|RP11-707P17.1_ENST00000561007.1_RNA	NM_001174116.1|NM_015263.3	NP_001167587.1|NP_056078.2	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	2298						cell junction (GO:0030054)|extracellular space (GO:0005615)|membrane (GO:0016020)|synaptic vesicle (GO:0008021)	Rab GTPase binding (GO:0017137)			breast(4)|central_nervous_system(1)|cervix(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(26)|liver(1)|lung(28)|ovary(7)|prostate(7)|skin(4)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	101				all cancers(107;0.00494)		TAGTCTTCTACGATCACTTAA	0.353																																																0													147	141	143					15																	51768854		2196	4293	6489	SO:0001583	missense	23312			AB020663	CCDS10141.1, CCDS53945.1, CCDS53946.1	15q21.2	2013-01-10			ENSG00000104093	ENSG00000104093		"WD repeat domain containing"	2938	protein-coding gene	gene with protein product	"rabconnectin 3"	612186					Standard	NM_001174116		Approved	RC3, KIAA0856	uc010ufy.2	Q8TDJ6	OTTHUMG00000131749	ENST00000251076.5:c.6893G>T	15.37:g.51768854C>A	ENSP00000251076:p.Arg2298Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTR3|B7ZMH3|F5GWF1|O94938	Missense_Mutation	SNP	ENST00000251076.5	37	CCDS10141.1	.	.	.	.	.	.	.	.	.	.	C	32	5.127413	0.94473	.	.	ENSG00000104093	ENST00000251076;ENST00000543779;ENST00000449909	T;T;T	0.25414	1.94;1.94;1.8	5.34	5.34	0.76211	.	0.000000	0.85682	D	0.000000	T	0.51805	0.1696	M	0.65975	2.015	0.80722	D	1	D;D;D;P	0.89917	1.0;0.995;0.997;0.956	D;D;D;P	0.76071	0.985;0.968;0.987;0.688	T	0.52909	-0.8512	10	0.66056	D	0.02	.	19.0467	0.93022	0.0:1.0:0.0:0.0	.	2299;1662;2298;2299	F5GWF1;B2RTR3;Q8TDJ6;B7ZMH3	.;.;DMXL2_HUMAN;.	L	2298;2299;1662	ENSP00000251076:R2298L;ENSP00000441858:R2299L;ENSP00000400855:R1662L	ENSP00000251076:R2298L	R	-	2	0	DMXL2	49556146	1.000000	0.71417	0.999000	0.59377	0.988000	0.76386	7.270000	0.78493	2.502000	0.84385	0.655000	0.94253	CGT		0.353	DMXL2-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000254671.2	NM_015263		A	51768854	C	A	51768854	3	1	646	1	0	0	0	0	1	0	0	0	4597	536	19	4	2285	4	DMXL2	15	51768854	Missense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10	5817549	51768854	50762538	64	40047										
CHRNB4	1143	broad.mit.edu;mdanderson.org	37	chr15	78921471	78921471	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gacttggaagctgcagaggcGgggttcacaaagtacatgga	15	7	1	1	rs142694602		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr15:78921471G>A	ENST00000261751.3	-	5	1287	c.1176C>T	c.(1174-1176)ccC>ccT	p.P392P	CHRNB4_ENST00000560511.1_5'Flank|CHRNB4_ENST00000412074.2_Intron|RP11-335K5.2_ENST00000559120.1_RNA	NM_000750.3	NP_000741.1	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4 (neuronal)	392					action potential (GO:0001508)|behavioral response to nicotine (GO:0035095)|cation transmembrane transport (GO:0098655)|cation transport (GO:0006812)|ion transmembrane transport (GO:0034220)|ion transport (GO:0006811)|locomotory behavior (GO:0007626)|regulation of neurotransmitter secretion (GO:0046928)|regulation of smooth muscle contraction (GO:0006940)|signal transduction (GO:0007165)|smooth muscle contraction (GO:0006939)|synaptic transmission (GO:0007268)|synaptic transmission involved in micturition (GO:0060084)|synaptic transmission, cholinergic (GO:0007271)	acetylcholine-gated channel complex (GO:0005892)|cell junction (GO:0030054)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	acetylcholine receptor activity (GO:0015464)|acetylcholine-activated cation-selective channel activity (GO:0004889)|ligand-gated ion channel activity (GO:0015276)			endometrium(7)|kidney(1)|lung(13)|prostate(1)	22					Dextromethorphan(DB00514)|Galantamine(DB00674)|Levomethadyl Acetate(DB01227)|Nicotine(DB00184)|Pentolinium(DB01090)	CTGCAGAGGCGGGGTTCACAA	0.627													G|||	1	0.000199681	0.0008	0.0	5008	,	,		16160	0.0		0.0	False		,,,				2504	0.0															0								G		3,4389	6.2+/-15.9	0,3,2193	50	52	51		1176	-7.4	0	15	dbSNP_134	51	0,8586		0,0,4293	no	coding-synonymous	CHRNB4	NM_000750.3		0,3,6486	AA,AG,GG		0.0,0.0683,0.0231		392/499	78921471	3,12975	2196	4293	6489	SO:0001819	synonymous_variant	1143			U48861	CCDS10306.1, CCDS58392.1	15q24	2012-02-11	2012-02-07		ENSG00000117971	ENSG00000117971		"Cholinergic receptors", "Ligand-gated ion channels / Acetylcholine receptors, nicotinic"	1964	protein-coding gene	gene with protein product	"acetylcholine receptor, nicotinic, beta 4 (neuronal)"	118509	"cholinergic receptor, nicotinic, beta polypeptide 4"			2004777	Standard	NM_000750		Approved		uc002bed.1	P30926	OTTHUMG00000143860	ENST00000261751.3:c.1176C>T	15.37:g.78921471G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4FTX5|E9PHE8|Q16607|Q4VBA5|Q8WXC8|Q9BQR4	Silent	SNP	ENST00000261751.3	37	CCDS10306.1																																																																																				0.627	CHRNB4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000290108.1			A	78921471	G	A	78921471	2	1	646	1	0	0	0	0	0	0	0	1	3395	1103	39	1		1	CHRNB4	15	78921471	Silent	SNP	G	TCGA-KM-8438-01A-11D-2310-10	27152617	78921471	23609921	65	40048										
ZP2	7783	broad.mit.edu	37	chr16	21218242	21218242	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	agctggacagaagaactgatAcatgacagctccgtgtctta	10	9	1	4			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr16:21218242A>G	ENST00000574002.1	-	6	882	c.400T>C	c.(400-402)Tat>Cat	p.Y134H	ZP2_ENST00000574091.1_Missense_Mutation_p.Y134H|AF001550.7_ENST00000572747.1_RNA|ZP2_ENST00000219593.4_Missense_Mutation_p.Y134H			Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 (sperm receptor)	134					binding of sperm to zona pellucida (GO:0007339)|intracellular protein transport (GO:0006886)|multicellular organism reproduction (GO:0032504)|prevention of polyspermy (GO:0060468)|signal transduction (GO:0007165)|single fertilization (GO:0007338)	endoplasmic reticulum (GO:0005783)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|multivesicular body (GO:0005771)|plasma membrane (GO:0005886)|proteinaceous extracellular matrix (GO:0005578)|secretory granule (GO:0030141)	acrosin binding (GO:0032190)|coreceptor activity (GO:0015026)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(12)|lung(16)|ovary(1)|prostate(1)|stomach(1)	41				GBM - Glioblastoma multiforme(48;0.0573)		AAGAACTGATACATGACAGCT	0.488																																																0													237	199	212					16																	21218242		2199	4300	6499	SO:0001583	missense	7783			M90366	CCDS10596.1, CCDS73843.1	16p12	2014-07-04			ENSG00000103310	ENSG00000103310		"Zona pellucida glycoproteins"	13188	protein-coding gene	gene with protein product		182888				8385033	Standard	XM_005255562		Approved	ZPA	uc002dii.2	Q05996	OTTHUMG00000090681	ENST00000574002.1:c.400T>C	16.37:g.21218242A>G	ENSP00000460971:p.Tyr134His	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7J2|Q4VAN9|Q4VAP0|Q4VAP1	Missense_Mutation	SNP	ENST00000574002.1	37	CCDS10596.1	.	.	.	.	.	.	.	.	.	.	A	4.571	0.106025	0.08780	.	.	ENSG00000103310	ENST00000219593	T	0.29142	1.58	4.21	3.11	0.35812	.	0.000000	0.64402	D	0.000005	T	0.29588	0.0738	M	0.66378	2.025	0.09310	N	0.999997	B;B;B	0.31752	0.099;0.338;0.338	B;B;B	0.33890	0.041;0.172;0.172	T	0.22347	-1.0219	10	0.49607	T	0.09	-13.0883	6.2931	0.21071	0.8859:0.0:0.1141:0.0	.	134;134;134	B4DEV1;Q4VAP1;Q05996	.;.;ZP2_HUMAN	H	134	ENSP00000219593:Y134H	ENSP00000219593:Y134H	Y	-	1	0	ZP2	21125743	0.023000	0.18921	0.019000	0.16419	0.099000	0.18886	0.610000	0.24253	0.773000	0.33404	0.482000	0.46254	TAT		0.488	ZP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000207365.2			G	21218242	A	G	21218242	3	3	646	1	0	0	0	0	1	0	0	0	18228	391	14	3	1897	3	ZP2	16	21218242	Missense_Mutation	SNP	A	TCGA-KM-8438-01A-11D-2310-10		21218242	69136511	66	40049										
DNAH9	1770	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr17	11833188	11833188	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	cttccttcccactagaacatTcacctggtggccaagtggct	8	14	1	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr17:11833188T>C	ENST00000262442.4	+	63	11951	c.11883T>C	c.(11881-11883)atT>atC	p.I3961I	DNAH9_ENST00000396001.2_3'UTR|DNAH9_ENST00000608377.1_Silent_p.I273I|DNAH9_ENST00000454412.2_Intron	NM_001372.3	NP_001363.2	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9	3961	AAA 6. {ECO:0000250}.				cell projection organization (GO:0030030)|cellular component movement (GO:0006928)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|spermatogenesis (GO:0007283)	axoneme (GO:0005930)|cytoskeleton (GO:0005856)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)|motor activity (GO:0003774)			NS(2)|autonomic_ganglia(1)|breast(15)|central_nervous_system(5)|endometrium(17)|haematopoietic_and_lymphoid_tissue(6)|kidney(17)|large_intestine(49)|liver(2)|lung(123)|ovary(6)|pancreas(1)|prostate(6)|skin(21)|stomach(2)|upper_aerodigestive_tract(13)|urinary_tract(4)	290		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)		ACTAGAACATTCACCTGGTGG	0.557																																																0													47	40	42					17																	11833188		2203	4299	6502	SO:0001819	synonymous_variant	1770			U61740	CCDS11160.1, CCDS11161.1	17p12	2009-05-07	2006-09-04		ENSG00000007174	ENSG00000007174		"Axonemal dyneins"	2953	protein-coding gene	gene with protein product		603330	"dynein, axonemal, heavy polypeptide 17-like", "dynein, axonemal, heavy polypeptide 9"	DNAH17L		8812413, 11247663	Standard	NM_001372		Approved	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9	uc002gne.3	Q9NYC9	OTTHUMG00000130383	ENST00000262442.4:c.11883T>C	17.37:g.11833188T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2VCQ8|O15064|O95494|Q9NQ28	Silent	SNP	ENST00000262442.4	37	CCDS11160.1																																																																																				0.557	DNAH9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252756.2	NM_001372		C	11833188	T	C	11833188	2	2	646	1	0	0	0	0	0	0	0	1	4610	1771	62	3		3	DNAH9	17	11833188	Silent	SNP	T	TCGA-KM-8438-01A-11D-2310-10		11833188	69362022	67	40050										
CDC27	996	mdanderson.org	37	chr17	45219669	45219669	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ttttcccttctgaaatgatgGaagagtccaattttgtaatt	7	6	1	3	rs11491191		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr17:45219669G>A	ENST00000066544.3	-	11	1397	c.1304C>T	c.(1303-1305)tCc>tTc	p.S435F	CDC27_ENST00000527547.1_Missense_Mutation_p.S435F|CDC27_ENST00000446365.2_Missense_Mutation_p.S374F|CDC27_ENST00000531206.1_Missense_Mutation_p.S441F	NM_001114091.1|NM_001256.3	NP_001107563.1|NP_001247.3	P30260	CDC27_HUMAN	cell division cycle 27	435					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|cell proliferation (GO:0008283)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|mitotic cell cycle (GO:0000278)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K11-linked ubiquitination (GO:0070979)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	anaphase-promoting complex (GO:0005680)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle (GO:0005819)	protein phosphatase binding (GO:0019903)			NS(1)|breast(5)|central_nervous_system(3)|cervix(1)|endometrium(2)|kidney(17)|large_intestine(18)|lung(11)|ovary(5)|pancreas(1)|prostate(19)|skin(5)|upper_aerodigestive_tract(2)	90						TGAAATGATGGAAGAGTCCAA	0.333																																																0													25	24	25					17																	45219669		2202	4290	6492	SO:0001583	missense	996			U00001	CCDS11509.1, CCDS45720.1, CCDS74090.1	17q21.32	2013-01-17	2013-01-17		ENSG00000004897	ENSG00000004897		"Anaphase promoting complex subunits", "Tetratricopeptide (TTC) repeat domain containing"	1728	protein-coding gene	gene with protein product	"anaphase promoting complex subunit 3"	116946	"cell division cycle 27", "cell division cycle 27 homolog (S. cerevisiae)"	D0S1430E, D17S978E		8234252	Standard	XM_005257892		Approved	APC3, ANAPC3, NUC2	uc002ile.4	P30260	OTTHUMG00000166429	ENST00000066544.3:c.1304C>T	17.37:g.45219669G>A	ENSP00000066544:p.Ser435Phe	Somatic		WXS	Illumina HiSeq	Phase_I	G3V1C4|Q16349|Q96F35	Missense_Mutation	SNP	ENST00000066544.3	37	CCDS11509.1	.	.	.	.	.	.	.	.	.	.	G	17.55	3.418475	0.62622	.	.	ENSG00000004897	ENST00000066544;ENST00000531206;ENST00000446365;ENST00000527547	T;T;T;T	0.69435	-0.4;-0.39;-0.12;-0.4	5.45	5.45	0.79879	.	0.229124	0.46442	D	0.000286	T	0.71693	0.3370	L	0.38175	1.15	0.51233	D	0.999911	D;D;D;D	0.63880	0.993;0.988;0.989;0.991	P;P;P;P	0.58172	0.79;0.774;0.834;0.687	T	0.74241	-0.3729	10	0.66056	D	0.02	-29.963	16.7931	0.85594	0.0:0.0:1.0:0.0	rs11491191	374;435;441;435	B4DL80;G5EA36;G3V1C4;P30260	.;.;.;CDC27_HUMAN	F	435;441;374;435	ENSP00000066544:S435F;ENSP00000434614:S441F;ENSP00000392802:S374F;ENSP00000437339:S435F	ENSP00000066544:S435F	S	-	2	0	CDC27	42574668	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	4.973000	0.63763	2.568000	0.86640	0.460000	0.39030	TCC		0.333	CDC27-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000389742.2			A	45219669	G	A	45219669	3	1	646	1	0	0	0	0	1	0	0	0	3068	1174	41	2	1206	2	CDC27	17	45219669	Missense_Mutation	SNP	G	TCGA-KM-8438-01A-11D-2310-10	33386481	45219669	35975541	68	40051										
TMEM49	81671	broad.mit.edu	37	chr17	57895131	57895131	+	Frame_Shift_Del	DEL	T	T	-													0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ggagcaaatggtggctttcaTtgggtaagtaattcttcaag							TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr17:57895131delT	ENST00000262291.4	+	10	1281	c.971delT	c.(970-972)attfs	p.I324fs	VMP1_ENST00000536180.1_Frame_Shift_Del_p.I227fs|VMP1_ENST00000539763.1_Frame_Shift_Del_p.I132fs|VMP1_ENST00000545362.1_Frame_Shift_Del_p.I268fs|VMP1_ENST00000537567.1_Frame_Shift_Del_p.I190fs	NM_030938.3	NP_112200.2	Q96GC9	VMP1_HUMAN	vacuole membrane protein 1	324					autophagy (GO:0006914)|cell junction assembly (GO:0034329)|embryo implantation (GO:0007566)|regulation of autophagy (GO:0010506)|single organismal cell-cell adhesion (GO:0016337)	autophagic vacuole membrane (GO:0000421)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|pre-autophagosomal structure (GO:0000407)				breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(4)|skin(2)	16						GTGGCTTTCATTGGGTAAGTA	0.274																																																0													40	41	41					17																	57895131		2201	4287	6488	SO:0001589	frameshift_variant	81671				CCDS11619.1	17q23.1	2014-05-20	2011-03-02	2011-03-02	ENSG00000062716	ENSG00000062716			29559	protein-coding gene	gene with protein product	"ectopic P-granules autophagy protein 3 homolog (C. elegans)", "transport and golgi organization 5 homolog (Drosophila)"	611753	"transmembrane protein 49"	TMEM49		11230166, 11785947	Standard	NM_030938		Approved	EPG3, TANGO5	uc002ixu.4	Q96GC9	OTTHUMG00000179882	ENST00000262291.4:c.971delT	17.37:g.57895131delT	ENSP00000262291:p.Ile324fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DVV9|Q9H0P4|Q9P089	Frame_Shift_Del	DEL	ENST00000262291.4	37	CCDS11619.1																																																																																				0.274	VMP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000448793.1	NM_030938		-	57895131	T	-	57895131	7	5	646	1	0	1	0	1	0	0	0	0	16185	1493	52	0	1005	0	TMEM49	17	57895131	Frame_Shift_Del	DEL	T	TCGA-KM-8438-01A-11D-2310-10	12675462	57895131	23300079	69	40052	355	2								
TMEM49	81671	bcgsc.ca	37	chr17	57895132	57895132	+	Frame_Shift_Del	DEL	T	T	-													0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gagcaaatggtggctttcatTgggtaagtaattcttcaagg							TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr17:57895132delT	ENST00000262291.4	+	10	1282	c.972delT	c.(970-972)attfs	p.I324fs	VMP1_ENST00000536180.1_Frame_Shift_Del_p.I227fs|VMP1_ENST00000539763.1_Frame_Shift_Del_p.I132fs|VMP1_ENST00000545362.1_Frame_Shift_Del_p.I268fs|VMP1_ENST00000537567.1_Frame_Shift_Del_p.I190fs	NM_030938.3	NP_112200.2	Q96GC9	VMP1_HUMAN	vacuole membrane protein 1	324					autophagy (GO:0006914)|cell junction assembly (GO:0034329)|embryo implantation (GO:0007566)|regulation of autophagy (GO:0010506)|single organismal cell-cell adhesion (GO:0016337)	autophagic vacuole membrane (GO:0000421)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|pre-autophagosomal structure (GO:0000407)				breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(4)|skin(2)	16						TGGCTTTCATTGGGTAAGTAA	0.279																																																0													40	40	40					17																	57895132		2202	4286	6488	SO:0001589	frameshift_variant	81671				CCDS11619.1	17q23.1	2014-05-20	2011-03-02	2011-03-02	ENSG00000062716	ENSG00000062716			29559	protein-coding gene	gene with protein product	"ectopic P-granules autophagy protein 3 homolog (C. elegans)", "transport and golgi organization 5 homolog (Drosophila)"	611753	"transmembrane protein 49"	TMEM49		11230166, 11785947	Standard	NM_030938		Approved	EPG3, TANGO5	uc002ixu.4	Q96GC9	OTTHUMG00000179882	ENST00000262291.4:c.972delT	17.37:g.57895132delT	ENSP00000262291:p.Ile324fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DVV9|Q9H0P4|Q9P089	Frame_Shift_Del	DEL	ENST00000262291.4	37	CCDS11619.1																																																																																				0.279	VMP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000448793.1	NM_030938		-	57895132	T	-	57895132	7	5	646	1	0	1	0	1	0	0	0	0	16185	1800	63	0	1006	0	TMEM49	17	57895132	Frame_Shift_Del	DEL	T	TCGA-KM-8438-01A-11D-2310-10	1	57895132	23300078	70	40053	355	2								
ABCA10	10349	ucsc.edu	37	chr17	67190540	67190540	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tctcaccttctgtagaaacaGacaatccactaagaatgttt	5	10	2	3	rs113082690|rs200155538	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr17:67190540G>A	ENST00000269081.4	-	13	2240	c.1331C>T	c.(1330-1332)tCt>tTt	p.S444F	ABCA10_ENST00000416101.2_Missense_Mutation_p.S444F	NM_080282.3	NP_525021.3	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 10	444	ABC transporter 1. {ECO:0000255|PROSITE- ProRule:PRU00434}.				transport (GO:0006810)	integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)			breast(2)|central_nervous_system(1)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(20)|lung(34)|ovary(2)|prostate(1)|skin(2)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(4)	81	Breast(10;6.95e-12)					TGTAGAAACAGACAATCCACT	0.328																																																0													116	111	113					17																	67190540		2192	4289	6481	SO:0001583	missense	10349			AY247065	CCDS11684.1	17q24	2012-03-14			ENSG00000154263	ENSG00000154263		"ATP binding cassette transporters / subfamily A"	30	protein-coding gene	gene with protein product		612508				12821155, 11435397	Standard	NM_080282		Approved	EST698739	uc010dfa.1	Q8WWZ4	OTTHUMG00000164716	ENST00000269081.4:c.1331C>T	17.37:g.67190540G>A	ENSP00000269081:p.Ser444Phe	Somatic		WXS	Illumina HiSeq	Phase_I	C9JZH2|C9K035|Q6PIQ6|Q7Z2I9|Q7Z7P7|Q86TD2	Missense_Mutation	SNP	ENST00000269081.4	37	CCDS11684.1	.	.	.	.	.	.	.	.	.	.	G	14.31	2.497627	0.44455	.	.	ENSG00000154263	ENST00000269081;ENST00000416101	T;D	0.93247	1.12;-3.19	3.8	-0.228	0.13098	ATPase, AAA+ type, core (1);ABC transporter-like (2);	0.000000	0.30118	U	0.010364	D	0.84915	0.5578	N	0.11845	0.185	0.24712	N	0.993191	B;B	0.30146	0.27;0.116	B;B	0.31245	0.126;0.118	T	0.66536	-0.5899	10	0.09338	T	0.73	.	18.3875	0.90471	0.0:0.741:0.259:0.0	.	444;444	E5RFN6;Q8WWZ4	.;ABCAA_HUMAN	F	444	ENSP00000269081:S444F;ENSP00000407772:S444F	ENSP00000269081:S444F	S	-	2	0	ABCA10	64702135	0.000000	0.05858	0.000000	0.03702	0.611000	0.37282	0.017000	0.13399	-0.209000	0.10156	0.557000	0.71058	TCT		0.328	ABCA10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379881.4	NM_080282		A	67190540	G	A	67190540	3	1	646	1	0	0	0	0	1	0	0	0	29	942	33	2	3412	2	ABCA10	17	67190540	Missense_Mutation	SNP	G	TCGA-KM-8438-01A-11D-2310-10	9295408	67190540	14004670	71	40054										
AATK	9625	broad.mit.edu	37	chr17	79102327	79102327	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	aggaggctgtgccggcccacGtctgtggacttgaggagctg	17	10	1	1	rs56384363	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr17:79102327G>A	ENST00000326724.4	-	4	381	c.357C>T	c.(355-357)gaC>gaT	p.D119D	MIR338_ENST00000390137.2_RNA|AATK_ENST00000572339.1_5'UTR|AATK_ENST00000417379.1_Silent_p.D16D	NM_001080395.2	NP_001073864.2	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	119					brain development (GO:0007420)|negative regulation of axon extension (GO:0030517)|neuron apoptotic process (GO:0051402)|peptidyl-tyrosine autophosphorylation (GO:0038083)|Rab protein signal transduction (GO:0032482)	axonal growth cone (GO:0044295)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)|recycling endosome (GO:0055037)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)|protein tyrosine kinase activity (GO:0004713)			endometrium(2)|kidney(2)|lung(8)|ovary(3)|prostate(1)|stomach(4)|upper_aerodigestive_tract(1)	21	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			GCCGGCCCACGTCTGTGGACT	0.677													G|||	11	0.00219649	0.0	0.0029	5008	,	,		16832	0.0		0.0089	False		,,,				2504	0.0															0								G	,	4,3428		0,4,1712	31	39	36		357,48	3.1	1	17	dbSNP_129	36	50,6930		0,50,3440	no	coding-synonymous,coding-synonymous	AATK	NM_001080395.2,NM_004920.2	,	0,54,5152	AA,AG,GG		0.7163,0.1166,0.5186	,	119/1375,16/1272	79102327	54,10358	1716	3490	5206	SO:0001819	synonymous_variant	9625			AB014541	CCDS45807.1, CCDS58607.1	17q25.3	2014-06-12			ENSG00000181409	ENSG00000181409			21	protein-coding gene	gene with protein product	"lemur tyrosine kinase 1", "protein phosphatase 1, regulatory subunit 77"	605276				9734811, 10083745	Standard	NM_001080395		Approved	AATYK, KIAA0641, LMTK1, LMR1, AATYK1, PPP1R77	uc010dia.3	Q6ZMQ8	OTTHUMG00000132717	ENST00000326724.4:c.357C>T	17.37:g.79102327G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O75136|Q6ZN31|Q86X28	Silent	SNP	ENST00000326724.4	37	CCDS45807.1	7	0.003205128205128205	0	0.0	1	0.0027624309392265192	0	0.0	6	0.0079155672823219	G	9.994	1.231624	0.22626	0.001166	0.007163	ENSG00000181409	ENST00000417379	.	.	.	4.09	3.1	0.35709	.	.	.	.	.	T	0.46870	0.1415	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.42531	-0.9446	4	.	.	.	.	6.4447	0.21869	0.0983:0.0:0.724:0.1777	rs56384363	.	.	.	M	72	.	.	T	-	2	0	AATK	76716922	0.997000	0.39634	0.999000	0.59377	0.905000	0.53344	0.360000	0.20250	0.696000	0.31696	0.467000	0.42956	ACG		0.677	AATK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256055.1	NM_004920		A	79102327	G	A	79102327	2	1	646	1	0	0	0	0	0	0	0	1	26	1136	40	1		1	AATK	17	79102327	Silent	SNP	G	TCGA-KM-8438-01A-11D-2310-10	11911787	79102327	2092883	72	40055										
NFATC1	4772	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	77208855	77208855	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ggcggacgaccgcctgctgcGcccgcacgccttctaccagg	13	18	1	0	rs139150912		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr18:77208855G>A	ENST00000427363.2	+	4	1460	c.1460G>A	c.(1459-1461)cGc>cAc	p.R487H	NFATC1_ENST00000329101.4_Missense_Mutation_p.R474H|NFATC1_ENST00000318065.5_Missense_Mutation_p.R474H|NFATC1_ENST00000545796.1_Missense_Mutation_p.R15H|NFATC1_ENST00000253506.5_Missense_Mutation_p.R487H|NFATC1_ENST00000586434.1_Missense_Mutation_p.R474H|NFATC1_ENST00000592223.1_Missense_Mutation_p.R474H|NFATC1_ENST00000397790.2_Missense_Mutation_p.R15H|NFATC1_ENST00000587635.1_Missense_Mutation_p.R487H|NFATC1_ENST00000542384.1_Missense_Mutation_p.R487H|NFATC1_ENST00000591814.1_Missense_Mutation_p.R487H			O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 1	487	RHD. {ECO:0000255|PROSITE- ProRule:PRU00265}.				calcium ion transport (GO:0006816)|epithelial to mesenchymal transition (GO:0001837)|Fc-epsilon receptor signaling pathway (GO:0038095)|G1/S transition of mitotic cell cycle (GO:0000082)|heart development (GO:0007507)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|osteoclast differentiation (GO:0030316)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|transcription factor complex (GO:0005667)	FK506 binding (GO:0005528)|mitogen-activated protein kinase p38 binding (GO:0048273)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001205)|RNA polymerase II transcription factor binding (GO:0001085)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			NS(2)|breast(1)|endometrium(7)|kidney(1)|large_intestine(4)|lung(17)|ovary(2)|prostate(4)|skin(1)|soft_tissue(1)	40		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)	Pseudoephedrine(DB00852)	CGCCTGCTGCGCCCGCACGCC	0.602																																					GBM(151;1210 2593 28719 45011)											0								G	HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG	1,4405	2.1+/-5.4	0,1,2202	81	72	75		1460,1421,44,1421,1460	4.3	1	18	dbSNP_134	75	0,8600		0,0,4300	no	missense,missense,missense,missense,missense	NFATC1	NM_006162.3,NM_172387.1,NM_172388.1,NM_172389.1,NM_172390.1	29,29,29,29,29	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging	487/826,474/931,15/354,474/813,487/717	77208855	1,13005	2203	4300	6503	SO:0001583	missense	4772			U08015	CCDS12015.1, CCDS12016.1, CCDS32850.1, CCDS59326.1, CCDS59327.1, CCDS62467.1, CCDS62468.1, CCDS62469.1, CCDS62470.1, CCDS62471.1	18q23	2009-11-24			ENSG00000131196	ENSG00000131196		"Nuclear factor of activated T-cells"	7775	protein-coding gene	gene with protein product		600489				8202141	Standard	NM_001278669		Approved	NF-ATC, NFATc, NFAT2	uc002lnf.3	O95644	OTTHUMG00000132897	ENST00000427363.2:c.1460G>A	18.37:g.77208855G>A	ENSP00000389377:p.Arg487His	Somatic		WXS	Illumina HiSeq	Phase_I	B5B2M4|B5B2M5|B5B2M6|B5B2M7|B5B2M8|B5B2M9|B5B2N1|Q12865|Q15793|Q2M1S3	Missense_Mutation	SNP	ENST00000427363.2	37		.	.	.	.	.	.	.	.	.	.	G	22.1	4.244410	0.79912	2.27E-4	0.0	ENSG00000131196	ENST00000318065;ENST00000253506;ENST00000397790;ENST00000542384;ENST00000329101;ENST00000545796;ENST00000427363;ENST00000397794	T;T;T;T;T	0.50277	0.75;0.75;0.75;0.75;0.75	4.31	4.31	0.51392	Rel homology (3);p53-like transcription factor, DNA-binding (1);	0.000000	0.85682	D	0.000000	T	0.67951	0.2948	M	0.72479	2.2	0.48185	D	0.9996	D;D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D;D	0.79784	0.983;0.983;0.983;0.992;0.992;0.993;0.983	T	0.73458	-0.3976	10	0.87932	D	0	-25.1669	16.9798	0.86324	0.0:0.0:1.0:0.0	.	474;474;487;487;487;474;487	B5B2M7;B5B2N1;B5B2M6;O95644;B5B2M4;B5B2M5;Q2M1S3	.;.;.;NFAC1_HUMAN;.;.;.	H	487;487;15;487;474;15;474;451	ENSP00000253506:R487H;ENSP00000380892:R15H;ENSP00000442435:R487H;ENSP00000327850:R474H;ENSP00000439992:R15H	ENSP00000253506:R487H	R	+	2	0	NFATC1	75309843	1.000000	0.71417	1.000000	0.80357	0.894000	0.52154	4.991000	0.63883	2.230000	0.72887	0.561000	0.74099	CGC		0.602	NFATC1-007	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000450507.1	NM_172390		A	77208855	G	A	77208855	3	1	646	1	0	0	0	0	1	0	0	0	10368	1087	38	1	1566	1	NFATC1	18	77208855	Missense_Mutation	SNP	G	TCGA-KM-8438-01A-11D-2310-10		77208855	868393	73	40056										
SLC39A3	29985	mdanderson.org	37	chr19	2732986	2732986	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	cccagggggatcatggcgctTacggtgaccgccagcttggc	15	13	1	1	rs759073	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr19:2732986T>C	ENST00000269740.4	-	3	1037	c.708A>G	c.(706-708)gtA>gtG	p.V236V	AC006538.4_ENST00000586572.1_Intron|SLC39A3_ENST00000545664.1_Silent_p.V236V	NM_144564.4	NP_653165.2	Q9BRY0	S39A3_HUMAN	solute carrier family 39 (zinc transporter), member 3	236					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	zinc ion transmembrane transporter activity (GO:0005385)			endometrium(1)|kidney(1)|large_intestine(1)|lung(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	10		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)		TCATGGCGCTTACGGTGACCG	0.736													C|||	3132	0.625399	0.907	0.3905	5008	,	,		14002	0.6468		0.4414	False		,,,				2504	0.5787															0								C		3669,719		1542,585,67	19	22	21		708	2.4	1	19	dbSNP_86	21	3873,4701		921,2031,1335	no	coding-synonymous	SLC39A3	NM_144564.4		2463,2616,1402	CC,CT,TT		45.1714,16.3856,41.8145		236/315	2732986	7542,5420	2194	4287	6481	SO:0001819	synonymous_variant	29985			AF052125	CCDS12093.1, CCDS45909.1	19p13.3	2013-05-22			ENSG00000141873	ENSG00000141873		"Solute carriers"	17128	protein-coding gene	gene with protein product		612168				10681536	Standard	NM_144564		Approved	ZIP3	uc002lwg.3	Q9BRY0		ENST00000269740.4:c.708A>G	19.37:g.2732986T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KMJ3|Q8WUG1	Silent	SNP	ENST00000269740.4	37	CCDS12093.1																																																																																				0.736	SLC39A3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451354.2			C	2732986	T	C	2732986	2	2	646	1	0	0	0	0	0	0	0	1	14632	1741	61	3		3	SLC39A3	19	2732986	Silent	SNP	T	TCGA-KM-8438-01A-11D-2310-10		2732986	56395997	74	40057										
ZNRF4	148066	mdanderson.org	37	chr19	5455976	5455976	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	aaccgctctctgggcgccatCgtgctgatccgccgctacga	11	16	1	1	rs386806230|rs61740902	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr19:5455976C>T	ENST00000222033.4	+	1	551	c.474C>T	c.(472-474)atC>atT	p.I158I		NM_181710.3	NP_859061.3	Q8WWF5	ZNRF4_HUMAN	zinc and ring finger 4	158	PA.			AIV -> SIA (in Ref. 4; AAH17592). {ECO:0000305}.		cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)	zinc ion binding (GO:0008270)			NS(1)|kidney(2)|large_intestine(5)|lung(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	16				UCEC - Uterine corpus endometrioid carcinoma (162;0.0002)		TGGGCGCCATCGTGCTGATCC	0.682													C|||	596	0.11901	0.0477	0.1729	5008	,	,		15731	0.004		0.2296	False		,,,				2504	0.182															0								C		259,3999		8,243,1878	28	31	30		474	-9.3	0	19	dbSNP_129	30	1616,6844		228,1160,2842	no	coding-synonymous	ZNRF4	NM_181710.3		236,1403,4720	TT,TC,CC		19.1017,6.0827,14.7429		158/430	5455976	1875,10843	2129	4230	6359	SO:0001819	synonymous_variant	148066			AK098722	CCDS42475.1	19p13.3	2013-01-09				ENSG00000105428		"RING-type (C3HC4) zinc fingers"	17726	protein-coding gene	gene with protein product		612063					Standard	NM_181710		Approved	spzn, Ssrzf1, RNF204	uc002mca.4	Q8WWF5		ENST00000222033.4:c.474C>T	19.37:g.5455976C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K886|O75866	Silent	SNP	ENST00000222033.4	37	CCDS42475.1																																																																																				0.682	ZNRF4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450924.1	NM_181710		T	5455976	C	T	5455976	2	4	646	1	0	0	0	0	0	0	0	1	18226	874	31	1		1	ZNRF4	19	5455976	Silent	SNP	C	TCGA-KM-8438-01A-11D-2310-10	2722990	5455976	53673007	75	40058										
MUC16	94025	mdanderson.org	37	chr19	8999443	8999443	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gtaggggcccagctcagtgaTgctgtgggtcagctggctca	16	10	3	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr19:8999443T>C	ENST00000397910.4	-	56	40935	c.40732A>G	c.(40732-40734)Atc>Gtc	p.I13578V	MUC16_ENST00000380951.5_Missense_Mutation_p.I219V	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13580	SEA 10. {ECO:0000255|PROSITE- ProRule:PRU00188}.			Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						AGCTCAGTGATGCTGTGGGTC	0.572																																																0													231	194	206					19																	8999443		2060	4204	6264	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.40732A>G	19.37:g.8999443T>C	ENSP00000381008:p.Ile13578Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	.	0.060	-1.225501	0.01530	.	.	ENSG00000181143	ENST00000397910;ENST00000380951	T;T	0.35236	1.32;1.32	2.95	-5.02	0.02982	SEA (2);	.	.	.	.	T	0.27900	0.0687	N	0.21508	0.67	.	.	.	B;B	0.28933	0.018;0.228	B;P	0.44561	0.008;0.453	T	0.52064	-0.8625	8	0.18276	T	0.48	.	8.2204	0.31539	0.0:0.3117:0.0:0.6883	.	21223;13578	Q8WXI7;B5ME49	MUC16_HUMAN;.	V	13578;219	ENSP00000381008:I13578V;ENSP00000370338:I219V	ENSP00000370338:I219V	I	-	1	0	MUC16	8860443	0.000000	0.05858	0.001000	0.08648	0.020000	0.10135	-2.491000	0.00974	-0.945000	0.03681	0.454000	0.30748	ATC		0.572	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		C	8999443	T	C	8999443	3	2	646	1	0	0	0	0	1	0	0	0	9980	1464	51	3	2907	3	MUC16	19	8999443	Missense_Mutation	SNP	T	TCGA-KM-8438-01A-11D-2310-10	3543467	8999443	50129540	76	40059										
RFX1	5989	mdanderson.org	37	chr19	14083761	14083761	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ggccccagccccagtgctggTggagctggcgacgacctggc	16	15	0	0	rs2305780	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr19:14083761T>C	ENST00000254325.4	-	9	1342	c.1108A>G	c.(1108-1110)Acc>Gcc	p.T370A		NM_002918.4	NP_002909.4	P22670	RFX1_HUMAN	regulatory factor X, 1 (influences HLA class II expression)	370			T -> A (in dbSNP:rs2305780). {ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:2253877}.		immune response (GO:0006955)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)			NS(1)|breast(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(8)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	21			OV - Ovarian serous cystadenocarcinoma(19;6.67e-23)			CCAGTGCTGGTGGAGCTGGCG	0.741													T|||	2661	0.53135	0.7496	0.5	5008	,	,		10294	0.4454		0.4742	False		,,,				2504	0.4059															0								T	ALA/THR	3076,1206		1147,782,212	13	14	14		1108	-2.8	0.2	19	dbSNP_100	14	3917,4527		951,2015,1256	yes	missense	RFX1	NM_002918.4	58	2098,2797,1468	CC,CT,TT		46.388,28.1644,45.0495	benign	370/980	14083761	6993,5733	2141	4222	6363	SO:0001583	missense	5989				CCDS12301.1	19p13.1	2008-07-17				ENSG00000132005			9982	protein-coding gene	gene with protein product	"trans-acting regulatory factor 1", "enhancer factor C", "MHC class II regulatory factor RFX"	600006				1505960, 8289803	Standard	NM_002918		Approved	EF-C	uc002mxv.3	P22670		ENST00000254325.4:c.1108A>G	19.37:g.14083761T>C	ENSP00000254325:p.Thr370Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000254325.4	37	CCDS12301.1	1139	0.5215201465201466	351	0.7134146341463414	190	0.5248618784530387	248	0.43356643356643354	350	0.46174142480211083	T	9.229	1.035327	0.19590	0.718356	0.46388	ENSG00000132005	ENST00000254325	T	0.39997	1.05	4.02	-2.85	0.05734	RFX1 transcription activation region (1);	0.529736	0.19468	N	0.113536	T	0.00012	0.0000	N	0.22421	0.69	0.80722	P	0.0	B	0.16396	0.017	B	0.22152	0.038	T	0.41538	-0.9503	9	0.08837	T	0.75	-17.3917	0.6272	0.00788	0.2668:0.1627:0.1302:0.4403	rs2305780;rs17854587;rs60197642	370	P22670	RFX1_HUMAN	A	370	ENSP00000254325:T370A	ENSP00000254325:T370A	T	-	1	0	RFX1	13944761	0.996000	0.38824	0.227000	0.23927	0.383000	0.30230	0.368000	0.20399	-0.867000	0.04063	-0.441000	0.05720	ACC		0.741	RFX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458510.1	NM_002918		C	14083761	T	C	14083761	3	2	646	1	0	0	0	0	1	0	0	0	13275	1696	59	3	1883	3	RFX1	19	14083761	Missense_Mutation	SNP	T	TCGA-KM-8438-01A-11D-2310-10	5084318	14083761	45045222	77	40060										
NOTCH3	4854	mdanderson.org	37	chr19	15285052	15285052	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ctggaacgcagtagctcctcTggcggcagcagcactgtgag	14	12	1	1	rs1044006	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr19:15285052T>C	ENST00000263388.2	-	25	4638	c.4563A>G	c.(4561-4563)ccA>ccG	p.P1521P		NM_000435.2	NP_000426.2	Q9UM47	NOTC3_HUMAN	notch 3	1521					forebrain development (GO:0030900)|gene expression (GO:0010467)|glomerular capillary formation (GO:0072104)|negative regulation of neuron differentiation (GO:0045665)|neuron fate commitment (GO:0048663)|Notch receptor processing (GO:0007220)|Notch signaling pathway (GO:0007219)|positive regulation of smooth muscle cell proliferation (GO:0048661)|regulation of transcription, DNA-templated (GO:0006355)|transcription initiation from RNA polymerase II promoter (GO:0006367)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)			breast(4)|central_nervous_system(3)|endometrium(10)|kidney(3)|large_intestine(16)|liver(1)|lung(31)|ovary(8)|prostate(3)|skin(7)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	93			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			GTAGCTCCTCTGGCGGCAGCA	0.706													C|||	4366	0.871805	0.9879	0.7637	5008	,	,		14411	0.8006		0.8817	False		,,,				2504	0.8548															0								C		4249,97		2076,97,0	11	14	13		4563	-9.2	0.8	19	dbSNP_86	13	7663,853		3451,761,46	no	coding-synonymous	NOTCH3	NM_000435.2		5527,858,46	CC,CT,TT		10.0164,2.2319,7.3861		1521/2322	15285052	11912,950	2173	4258	6431	SO:0001819	synonymous_variant	4854			U97669	CCDS12326.1	19p13.2-p13.1	2013-01-10	2010-06-24			ENSG00000074181		"Ankyrin repeat domain containing"	7883	protein-coding gene	gene with protein product		600276	"Notch (Drosophila) homolog 3", "Notch homolog 3 (Drosophila)"	CADASIL		7835890	Standard	NM_000435		Approved	CASIL	uc002nan.3	Q9UM47		ENST00000263388.2:c.4563A>G	19.37:g.15285052T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UEB3|Q9UPL3|Q9Y6L8	Silent	SNP	ENST00000263388.2	37	CCDS12326.1																																																																																				0.706	NOTCH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465714.1	NM_000435		C	15285052	T	C	15285052	2	2	646	1	0	0	0	0	0	0	0	1	10557	1567	55	3		3	NOTCH3	19	15285052	Silent	SNP	T	TCGA-KM-8438-01A-11D-2310-10	1201291	15285052	43843931	78	40061										
OR10H2	26538	mdanderson.org	37	chr19	15839311	15839311	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ctgctcctgggctggtggctCggtcatggggatggtggtga	19	8	1	1	rs139469467		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr19:15839311C>T	ENST00000305899.3	+	1	478	c.458C>T	c.(457-459)tCg>tTg	p.S153L		NM_013939.2	NP_039227.1	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H, member 2	153						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(10)|ovary(2)|skin(3)|stomach(1)	27	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					GCTGGTGGCTCGGTCATGGGG	0.592																																																0													91	75	81					19																	15839311		2203	4300	6503	SO:0001583	missense	26538			AC004597	CCDS12333.1	19p13.1	2012-08-09				ENSG00000171942		"GPCR / Class A : Olfactory receptors"	8173	protein-coding gene	gene with protein product							Standard	NM_013939		Approved		uc002nbm.2	O60403		ENST00000305899.3:c.458C>T	19.37:g.15839311C>T	ENSP00000306095:p.Ser153Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFQ1|Q96R58	Missense_Mutation	SNP	ENST00000305899.3	37	CCDS12333.1	.	.	.	.	.	.	.	.	.	.	.	0.360	-0.939686	0.02322	.	.	ENSG00000171942	ENST00000305899	T	0.00019	9.06	3.4	-2.39	0.06602	GPCR, rhodopsin-like superfamily (1);	1.096810	0.07137	N	0.846687	T	0.00039	0.0001	N	0.02973	-0.45	0.09310	N	1	B	0.12630	0.006	B	0.19946	0.027	T	0.00510	-1.1697	10	0.10902	T	0.67	.	6.8361	0.23937	0.0:0.2906:0.0:0.7094	.	153	O60403	O10H2_HUMAN	L	153	ENSP00000306095:S153L	ENSP00000306095:S153L	S	+	2	0	OR10H2	15700311	0.000000	0.05858	0.002000	0.10522	0.174000	0.22865	-0.238000	0.08977	-0.296000	0.08947	0.537000	0.68136	TCG		0.592	OR10H2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460917.1			T	15839311	C	T	15839311	3	4	646	1	0	0	0	0	1	0	0	0	10913	893	31	1	460	1	OR10H2	19	15839311	Missense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10	554259	15839311	43289672	79	40062										
FCGBP	8857	mdanderson.org	37	chr19	40368733	40368733	+	Silent	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gcgccatgatagctgctgggGagcgtcacgtctacccgcca	13	14	2	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr19:40368733G>C	ENST00000221347.6	-	28	12622	c.12615C>G	c.(12613-12615)ctC>ctG	p.L4205L		NM_003890.2	NP_003881.2	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein	4205	VWFD 10. {ECO:0000255|PROSITE- ProRule:PRU00580}.					extracellular vesicular exosome (GO:0070062)				NS(3)|autonomic_ganglia(1)|breast(7)|central_nervous_system(5)|endometrium(13)|kidney(9)|large_intestine(27)|lung(49)|ovary(8)|pancreas(3)|prostate(13)|skin(9)|stomach(9)|upper_aerodigestive_tract(6)|urinary_tract(3)	165	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)			AGCTGCTGGGGAGCGTCACGT	0.597																																																0													292	295	294					19																	40368733		2203	4300	6503	SO:0001819	synonymous_variant	8857			D84239		19q13.2	2013-09-20			ENSG00000090920	ENSG00000275395			13572	protein-coding gene	gene with protein product	"IgG Fc binding protein", "Human Fc gamma BP"					9182547	Standard	NM_003890		Approved	FC(GAMMA)BP	uc002omp.4	Q9Y6R7	OTTHUMG00000182580	ENST00000221347.6:c.12615C>G	19.37:g.40368733G>C		Somatic		WXS	Illumina HiSeq	Phase_I	O95784	Silent	SNP	ENST00000221347.6	37	CCDS12546.1																																																																																				0.597	FCGBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462507.1	NM_003890		C	40368733	G	C	40368733	2	2	646	1	0	0	0	0	0	0	0	1	5785	1161	41	4		4	FCGBP	19	40368733	Silent	SNP	G	TCGA-KM-8438-01A-11D-2310-10	24529422	40368733	18760250	80	40063										
LMTK3	114783	ucsc.edu	37	chr19	48994716	48994716	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ggggtggcggggtggggaggTgtcgggggcgctggaggcgt	28	5	0	0			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr19:48994716T>G	ENST00000600059.1	-	13	4400	c.4173A>C	c.(4171-4173)acA>acC	p.T1391T	LMTK3_ENST00000270238.3_Silent_p.T1420T			Q96Q04	LMTK3_HUMAN	lemur tyrosine kinase 3	1391	Pro-rich.				negative regulation of phosphatase activity (GO:0010923)	integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(3)|central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(9)|prostate(1)	16		all_lung(116;0.000147)|Lung NSC(112;0.000251)|all_epithelial(76;0.000326)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000114)|all cancers(93;0.000141)|Epithelial(262;0.00854)|GBM - Glioblastoma multiforme(486;0.0231)		GGTGGGGAGGTGTCGGGGGCG	0.711																																																0													3	4	3					19																	48994716		1503	3609	5112	SO:0001819	synonymous_variant	114783			AB067470	CCDS46136.1	19q13.33	2014-06-12				ENSG00000142235			19295	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 101"						Standard	NM_001080434		Approved	KIAA1883, LMR3, TYKLM3, PPP1R101	uc002pjk.3	Q96Q04		ENST00000600059.1:c.4173A>C	19.37:g.48994716T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0U1	Silent	SNP	ENST00000600059.1	37																																																																																					0.711	LMTK3-002	KNOWN	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000466137.1	NM_052895		G	48994716	T	G	48994716	2	3	646	1	0	0	0	0	0	0	0	1	8867	1683	59	5		5	LMTK3	19	48994716	Silent	SNP	T	TCGA-KM-8438-01A-11D-2310-10	8625983	48994716	10134267	81	40064										
LILRB5	10990	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr19	54756385	54756385	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	ggtccttgggctctggccccGcagcccctgcaggacggtag	15	15	1	0			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr19:54756385G>A	ENST00000316219.5	-	10	1606	c.1499C>T	c.(1498-1500)gCg>gTg	p.A500V	LILRB5_ENST00000450632.1_Missense_Mutation_p.A492V|LILRB5_ENST00000449561.2_Missense_Mutation_p.A501V|LILRB5_ENST00000345866.6_Missense_Mutation_p.A401V|CTD-2337J16.1_ENST00000595133.1_lincRNA	NM_001081442.1|NM_006840.3	NP_001074911.1|NP_006831.1	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 5	500					cell surface receptor signaling pathway (GO:0007166)|defense response (GO:0006952)|immune system process (GO:0002376)	integral component of membrane (GO:0016021)	transmembrane signaling receptor activity (GO:0004888)			NS(1)|breast(1)|endometrium(3)|kidney(5)|large_intestine(12)|lung(25)|ovary(1)|pancreas(1)|prostate(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	56	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)		CTCTGGCCCCGCAGCCCCTGC	0.617																																																0													91	88	89					19																	54756385		2203	4300	6503	SO:0001583	missense	10990			AF025534	CCDS12885.1, CCDS42611.1, CCDS46176.1	19q13.4	2013-01-11			ENSG00000105609	ENSG00000105609		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6609	protein-coding gene	gene with protein product		604814				9548455	Standard	NM_006840		Approved	LIR-8, LIR8, CD85c	uc002qey.3	O75023	OTTHUMG00000066636	ENST00000316219.5:c.1499C>T	19.37:g.54756385G>A	ENSP00000320390:p.Ala500Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N760	Missense_Mutation	SNP	ENST00000316219.5	37	CCDS12885.1	.	.	.	.	.	.	.	.	.	.	G	0.094	-1.161755	0.01673	.	.	ENSG00000105609	ENST00000316219;ENST00000450632;ENST00000449561;ENST00000345866	T;T;T;T	0.00485	7.12;7.07;7.11;7.13	1.91	-0.491	0.12045	.	.	.	.	.	T	0.00241	0.0007	N	0.25890	0.77	0.09310	N	1	B;B;B;B	0.32862	0.349;0.172;0.055;0.387	B;B;B;B	0.24541	0.022;0.054;0.027;0.037	T	0.22695	-1.0209	9	0.14656	T	0.56	.	4.6532	0.12605	0.3582:0.0:0.6418:0.0	.	492;401;501;500	C9JMK7;O75023-2;O75023-3;O75023	.;.;.;LIRB5_HUMAN	V	500;492;501;401	ENSP00000320390:A500V;ENSP00000414225:A492V;ENSP00000406478:A501V;ENSP00000263430:A401V	ENSP00000320390:A500V	A	-	2	0	LILRB5	59448197	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.285000	0.08410	-0.045000	0.13468	-0.459000	0.05422	GCG		0.617	LILRB5-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000142877.2			A	54756385	G	A	54756385	3	1	646	1	0	0	0	0	1	0	0	0	8801	1087	38	1	289	1	LILRB5	19	54756385	Missense_Mutation	SNP	G	TCGA-KM-8438-01A-11D-2310-10	5761669	54756385	4372598	82	40065										
TGM6	343641	bcgsc.ca	37	chr20	2384095	2384095	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	cccggcaggacctaggccccTcttacaatggctggcaggtt	12	14	1	0			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr20:2384095T>C	ENST00000202625.2	+	8	1103	c.1042T>C	c.(1042-1044)Tct>Cct	p.S348P	TGM6_ENST00000381423.1_Missense_Mutation_p.S348P	NM_198994.2	NP_945345.2	O95932	TGM3L_HUMAN	transglutaminase 6	348					cell death (GO:0008219)|peptide cross-linking (GO:0018149)	cytoplasm (GO:0005737)	metal ion binding (GO:0046872)|protein-glutamine gamma-glutamyltransferase activity (GO:0003810)			breast(1)|endometrium(6)|kidney(2)|large_intestine(2)|lung(32)|ovary(4)|prostate(1)|skin(4)	52					L-Glutamine(DB00130)	CCTAGGCCCCTCTTACAATGG	0.567																																																0													56	53	54					20																	2384095		2203	4300	6503	SO:0001583	missense	343641			AF540970	CCDS13025.1, CCDS58761.1	20p13	2010-12-19	2004-07-05	2004-07-07	ENSG00000166948	ENSG00000166948		"Transglutaminases"	16255	protein-coding gene	gene with protein product	"spinocerebellar ataxia 35"	613900	"transglutaminase 3-like"	TGM3L		11390390, 21106500	Standard	NM_198994		Approved	dJ734P14.3, TGY, SCA35	uc002wfy.1	O95932	OTTHUMG00000031692	ENST00000202625.2:c.1042T>C	20.37:g.2384095T>C	ENSP00000202625:p.Ser348Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JXU4|Q5JXU5|Q719M2|Q719M3|Q9Y4U8	Missense_Mutation	SNP	ENST00000202625.2	37	CCDS13025.1	.	.	.	.	.	.	.	.	.	.	T	18.38	3.610753	0.66558	.	.	ENSG00000166948	ENST00000202625;ENST00000381423	D;D	0.87412	-2.25;-2.25	4.9	-0.758	0.11049	Transglutaminase-like (2);	0.663319	0.16355	N	0.218045	D	0.84871	0.5568	M	0.66939	2.045	0.25024	N	0.991311	P;P	0.48911	0.797;0.917	P;P	0.45712	0.491;0.48	T	0.77308	-0.2636	10	0.59425	D	0.04	-1.3682	8.462	0.32934	0.1442:0.0:0.5177:0.3382	.	348;348	O95932-2;O95932	.;TGM3L_HUMAN	P	348	ENSP00000202625:S348P;ENSP00000370831:S348P	ENSP00000202625:S348P	S	+	1	0	TGM6	2332095	0.000000	0.05858	0.931000	0.37212	0.970000	0.65996	0.078000	0.14761	-0.220000	0.09988	0.449000	0.29647	TCT		0.567	TGM6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077581.2	NM_198994		C	2384095	T	C	2384095	3	2	646	1	0	0	0	0	1	0	0	0	15846	1551	54	3	1072	3	TGM6	20	2384095	Missense_Mutation	SNP	T	TCGA-KM-8438-01A-11D-2310-10		2384095	60641425	83	40066										
XKR7	343702	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr20	30584474	30584474	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gcccgcggcctggccttcgcGctcttcgccagcgtctacaa	11	18	2	0	rs375135448		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr20:30584474G>A	ENST00000562532.2	+	3	1128	c.954G>A	c.(952-954)gcG>gcA	p.A318A		NM_001011718.1	NP_001011718.1	Q5GH72	XKR7_HUMAN	XK, Kell blood group complex subunit-related family, member 7	318						integral component of membrane (GO:0016021)				breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(2)|liver(1)|lung(19)|ovary(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	34			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			TGGCCTTCGCGCTCTTCGCCA	0.632																																																0										1,4405	2.1+/-5.4	0,1,2202	72	70	70		954	-2.9	1	20		70	0,8600		0,0,4300	no	coding-synonymous	XKR7	NM_001011718.1		0,1,6502	AA,AG,GG		0.0,0.0227,0.0077		318/580	30584474	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	343702			AY534245	CCDS33459.1	20q11.21	2014-07-16	2006-01-12		ENSG00000260903	ENSG00000260903			23062	protein-coding gene	gene with protein product			"X Kell blood group precursor-related family, member 7", "chromosome 20 open reading frame 159"	C20orf159			Standard	NM_001011718		Approved	dJ310O13.4	uc002wxe.3	Q5GH72	OTTHUMG00000032198	ENST00000562532.2:c.954G>A	20.37:g.30584474G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NUG5	Silent	SNP	ENST00000562532.2	37	CCDS33459.1																																																																																				0.632	XKR7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078597.3	NM_001011718		A	30584474	G	A	30584474	2	1	646	1	0	0	0	0	0	0	0	1	17448	1074	38	1		1	XKR7	20	30584474	Silent	SNP	G	TCGA-KM-8438-01A-11D-2310-10	28200379	30584474	32441046	84	40067										
NNAT	4826	broad.mit.edu	37	chr20	36149782	36149782	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	aactgctcatcatcggctggTacatcttccgcgtgctgctg	10	13	3	0			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr20:36149782T>C	ENST00000062104.2	+	1	166	c.49T>C	c.(49-51)Tac>Cac	p.Y17H	BLCAP_ENST00000414542.2_5'UTR|NNAT_ENST00000346199.2_Missense_Mutation_p.Y17H|BLCAP_ENST00000373537.2_Intron|BLCAP_ENST00000397137.1_Intron|BLCAP_ENST00000397131.1_Intron|BLCAP_ENST00000397135.1_Intron|BLCAP_ENST00000397134.1_5'Flank	NM_005386.2	NP_005377.1	Q16517	NNAT_HUMAN	neuronatin	17					brain development (GO:0007420)|neuron differentiation (GO:0030182)|positive regulation of insulin secretion (GO:0032024)|protein lipoylation (GO:0009249)|regulation of protein localization (GO:0032880)|response to glucose (GO:0009749)|transport (GO:0006810)	cytoplasm (GO:0005737)				endometrium(1)|kidney(1)|lung(1)	3		Myeloproliferative disorder(115;0.00878)				CATCGGCTGGTACATCTTCCG	0.617																																																0													140	140	140					20																	36149782		2203	4300	6503	SO:0001583	missense	4826				CCDS13296.1, CCDS13297.1	20q11.2-q12	2007-12-07			ENSG00000053438	ENSG00000053438			7860	protein-coding gene	gene with protein product		603106				8660979	Standard	NM_005386		Approved	Peg5	uc002xhd.3	Q16517	OTTHUMG00000032420	ENST00000062104.2:c.49T>C	20.37:g.36149782T>C	ENSP00000062104:p.Tyr17His	Somatic		WXS	Illumina HiSeq	Phase_I	B2R558|E1P5V6|Q16596|Q5U0N3	Missense_Mutation	SNP	ENST00000062104.2	37	CCDS13296.1	.	.	.	.	.	.	.	.	.	.	T	18.07	3.542446	0.65198	.	.	ENSG00000053438	ENST00000062104;ENST00000346199	.	.	.	4.35	4.35	0.52113	.	0.000000	0.41823	D	0.000817	T	0.66761	0.2822	.	.	.	0.31677	N	0.643627	D;P	0.62365	0.991;0.89	D;P	0.65323	0.934;0.607	T	0.73014	-0.4116	8	0.87932	D	0	-7.5239	10.2286	0.43241	0.0:0.0:0.0:1.0	.	17;17	Q16517-2;Q16517	.;NNAT_HUMAN	H	17	.	ENSP00000062104:Y17H	Y	+	1	0	NNAT	35583196	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	3.088000	0.50175	2.197000	0.70478	0.533000	0.62120	TAC		0.617	NNAT-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000079116.2	NM_005386		C	36149782	T	C	36149782	3	2	646	1	0	0	0	0	1	0	0	0	10515	1638	57	3	51	3	NNAT	20	36149782	Missense_Mutation	SNP	T	TCGA-KM-8438-01A-11D-2310-10	5565308	36149782	26875738	85	40068										
RALGAPB	57148	broad.mit.edu	37	chr20	37126161	37126161	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gccccaccaactgttcaaggTttgtttatttttttttttct	5	9	2	0			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr20:37126161T>C	ENST00000262879.6	+	4	837		c.e4+2		RALGAPB_ENST00000537204.1_Splice_Site|RALGAPB_ENST00000397038.1_Splice_Site|RALGAPB_ENST00000397040.1_Splice_Site|RALGAPB_ENST00000397042.3_Splice_Site			Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit (non-catalytic)						activation of Ral GTPase activity (GO:0032859)|membrane organization (GO:0061024)|Ral protein signal transduction (GO:0032484)|regulation of exocyst localization (GO:0060178)		protein heterodimerization activity (GO:0046982)|Ral GTPase activator activity (GO:0017123)			breast(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(8)|lung(29)|ovary(1)|pancreas(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	65						CTGTTCAAGGTTTGTTTATTT	0.393																																																0													101	99	99					20																	37126161		2203	4300	6503	SO:0001630	splice_region_variant	57148			AB033045	CCDS13305.1, CCDS63272.1	20q11.23	2009-09-09	2009-09-09	2009-09-09	ENSG00000170471	ENSG00000170471			29221	protein-coding gene	gene with protein product			"KIAA1219"	KIAA1219		19520869	Standard	XM_005260462		Approved	DKFZp781M2411, RalGAPbeta	uc002xiw.3	Q86X10	OTTHUMG00000140270	ENST00000262879.6:c.553+2T>C	20.37:g.37126161T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2A2E8|A2A2E9|Q5TG31|Q8N3D1|Q8WWC0|Q9H3X8|Q9UJR1|Q9ULK1|Q9Y3G9	Splice_Site	SNP	ENST00000262879.6	37	CCDS13305.1	.	.	.	.	.	.	.	.	.	.	T	19.52	3.843339	0.71488	.	.	ENSG00000170471	ENST00000262879;ENST00000397042;ENST00000304939;ENST00000537204;ENST00000397040;ENST00000438490	.	.	.	5.32	5.32	0.75619	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.319	0.74105	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	RALGAPB	36559575	1.000000	0.71417	0.999000	0.59377	0.968000	0.65278	7.472000	0.80996	2.004000	0.58718	0.528000	0.53228	.		0.393	RALGAPB-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000079191.1	NM_020336	Intron	C	37126161	T	C	37126161	5	2	646	1	0	0	0	0	0	0	1	0	13028	1739	60	3	565	3	RALGAPB	20	37126161	Splice_Site	SNP	T	TCGA-KM-8438-01A-11D-2310-10	976379	37126161	25899359	86	40069										
RBM11	54033	mdanderson.org	37	chr21	15599340	15599340	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	cagctcatataaatggactcAccaacaaccaagtgactctg	6	12	3	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr21:15599340A>G	ENST00000400577.3	+	5	581	c.572A>G	c.(571-573)cAc>cGc	p.H191R	RBM11_ENST00000468643.1_3'UTR	NM_144770.3	NP_658983.3	P57052	RBM11_HUMAN	RNA binding motif protein 11	191					cell differentiation (GO:0030154)|cellular response to oxidative stress (GO:0034599)|mRNA processing (GO:0006397)|multicellular organismal development (GO:0007275)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|RNA splicing (GO:0008380)	nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(U) RNA binding (GO:0008266)|protein homodimerization activity (GO:0042803)			endometrium(3)|kidney(3)|lung(7)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	16				Epithelial(23;0.000314)|COAD - Colon adenocarcinoma(22;0.00242)|Colorectal(24;0.0129)|Lung(58;0.141)		AAATGGACTCACCAACAACCA	0.453																																																0													271	258	263					21																	15599340		1964	4154	6118	SO:0001583	missense	54033			AF130358	CCDS46635.1	21q11	2013-02-12			ENSG00000185272	ENSG00000185272		"RNA binding motif (RRM) containing"	9897	protein-coding gene	gene with protein product						12036298	Standard	NM_144770		Approved		uc002yjo.4	P57052	OTTHUMG00000074263	ENST00000400577.3:c.572A>G	21.37:g.15599340A>G	ENSP00000383421:p.His191Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6YNC2|Q8NBA1|Q8NFF6	Missense_Mutation	SNP	ENST00000400577.3	37	CCDS46635.1	.	.	.	.	.	.	.	.	.	.	A	1.477	-0.558202	0.03967	.	.	ENSG00000185272	ENST00000400577	T	0.07216	3.21	1.87	0.568	0.17333	.	1.040610	0.07512	N	0.908963	T	0.03305	0.0096	N	0.08118	0	0.20307	N	0.999915	B	0.16166	0.016	B	0.04013	0.001	T	0.46775	-0.9167	10	0.17832	T	0.49	.	0.217	0.00163	0.3713:0.2386:0.1563:0.2338	.	191	P57052	RBM11_HUMAN	R	191	ENSP00000383421:H191R	ENSP00000383421:H191R	H	+	2	0	RBM11	14521211	0.764000	0.28473	0.756000	0.31282	0.615000	0.37417	0.317000	0.19487	0.130000	0.18549	0.164000	0.16699	CAC		0.453	RBM11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157818.1	NM_144770		G	15599340	A	G	15599340	3	3	646	1	0	0	0	0	1	0	0	0	13125	159	6	3	590	3	RBM11	21	15599340	Missense_Mutation	SNP	A	TCGA-KM-8438-01A-11D-2310-10		15599340	32530555	87	40070										
KRTAP10-2	386679	mdanderson.org	37	chr21	45971109	45971109	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	agctagactgctggcagcacGagggcgtgcaggagctggtg	18	9	0	1	rs200984587	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr21:45971109G>A	ENST00000391621.1	-	1	279	c.233C>T	c.(232-234)tCg>tTg	p.S78L	TSPEAR_ENST00000397916.1_Intron|TSPEAR_ENST00000323084.4_Intron|KRTAP10-2_ENST00000498210.1_Intron	NM_198693.2	NP_941966.1	P60368	KR102_HUMAN	keratin associated protein 10-2	78	22 X 5 AA repeats of C-C-X(3).					keratin filament (GO:0045095)				large_intestine(1)|lung(4)|skin(1)	6						CTGGCAGCACGAGGGCGTGCA	0.687																																																0																																										SO:0001583	missense	386679			AJ566381	CCDS42955.1	21q22.3	2007-10-05			ENSG00000205445	ENSG00000205445		"Keratin associated proteins"	22967	protein-coding gene	gene with protein product				KRTAP18-2			Standard	NM_198693		Approved	KAP10.2, KAP18.2	uc002zfi.1	P60368	OTTHUMG00000057625	ENST00000391621.1:c.233C>T	21.37:g.45971109G>A	ENSP00000375479:p.Ser78Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q70LJ5	Missense_Mutation	SNP	ENST00000391621.1	37	CCDS42955.1	.	.	.	.	.	.	.	.	.	.	g	5.987	0.366047	0.11352	.	.	ENSG00000205445	ENST00000391621	T	0.01572	4.76	3.44	1.48	0.22813	.	.	.	.	.	T	0.03305	0.0096	M	0.87682	2.9	0.09310	N	1	B	0.22683	0.073	B	0.16289	0.015	T	0.40384	-0.9566	9	0.51188	T	0.08	.	2.1189	0.03721	0.1176:0.1948:0.4883:0.1993	.	78	P60368	KR102_HUMAN	L	78	ENSP00000375479:S78L	ENSP00000375479:S78L	S	-	2	0	KRTAP10-2	44795537	0.060000	0.20803	0.001000	0.08648	0.073000	0.16967	1.997000	0.40786	0.133000	0.18654	0.456000	0.33151	TCG		0.687	KRTAP10-2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128027.1			A	45971109	G	A	45971109	3	1	646	1	0	0	0	0	1	0	0	0	8516	1059	37	1	538	1	KRTAP10-2	21	45971109	Missense_Mutation	SNP	G	TCGA-KM-8438-01A-11D-2310-10	30371769	45971109	2158786	88	40071										
SUSD2	56241	mdanderson.org	37	chr22	24579219	24579219	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	agatgtccagccccacagacGccagtgtgatctgcaggttg	12	12	1	3	rs399140		TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr22:24579219G>A	ENST00000358321.3	+	2	532	c.271G>A	c.(271-273)Gcc>Acc	p.A91T		NM_019601.3	NP_062547.1	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2	91					immune response (GO:0006955)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	polysaccharide binding (GO:0030247)|scavenger receptor activity (GO:0005044)	p.A91T(1)		NS(2)|breast(2)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(8)|ovary(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	26						CCCCACAGACGCCAGTGTGAT	0.627																																																1	Substitution - Missense(1)	skin(1)											38	38	38					22																	24579219		2202	4276	6478	SO:0001583	missense	56241			AK026431	CCDS13824.1	22q11-q12	2005-08-16			ENSG00000099994	ENSG00000099994			30667	protein-coding gene	gene with protein product		615825				12477932	Standard	NM_019601		Approved	BK65A6.2, FLJ22778	uc002zzn.1	Q9UGT4	OTTHUMG00000150792	ENST00000358321.3:c.271G>A	22.37:g.24579219G>A	ENSP00000351075:p.Ala91Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H5Y6	Missense_Mutation	SNP	ENST00000358321.3	37	CCDS13824.1	.	.	.	.	.	.	.	.	.	.	G	2.736	-0.263316	0.05754	.	.	ENSG00000099994	ENST00000358321	T	0.05649	3.41	3.33	-1.69	0.08186	.	1.453820	0.04535	N	0.386942	T	0.03095	0.0091	N	0.08118	0	0.09310	N	1	B	0.25772	0.134	B	0.09377	0.004	T	0.43327	-0.9398	10	0.12766	T	0.61	.	7.7082	0.28663	0.5771:0.0:0.4229:0.0	rs399140;rs4398360	91	Q9UGT4	SUSD2_HUMAN	T	91	ENSP00000351075:A91T	ENSP00000351075:A91T	A	+	1	0	SUSD2	22909219	0.000000	0.05858	0.000000	0.03702	0.036000	0.12997	-0.783000	0.04638	-0.189000	0.10482	-0.418000	0.06021	GCC		0.627	SUSD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320088.1	NM_019601		A	24579219	G	A	24579219	3	1	646	1	0	0	0	0	1	0	0	0	15420	1087	38	1	277	1	SUSD2	22	24579219	Missense_Mutation	SNP	G	TCGA-KM-8438-01A-11D-2310-10		24579219	26725347	89	40072										
PMM1	5372	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	41973907	41973907	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gtcccagccctcggggaagaCgtcaaagctgatcatgcctc	11	14	2	2			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chr22:41973907C>T	ENST00000216259.7	-	7	655	c.571G>A	c.(571-573)Gtc>Atc	p.V191I		NM_002676.2	NP_002667.2	Q92871	PMM1_HUMAN	phosphomannomutase 1	191					cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|GDP-mannose biosynthetic process (GO:0009298)|mannose biosynthetic process (GO:0019307)|mannose metabolic process (GO:0006013)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)	cytosol (GO:0005829)|neuronal cell body (GO:0043025)	metal ion binding (GO:0046872)|phosphomannomutase activity (GO:0004615)			NS(1)|large_intestine(4)|lung(3)|ovary(1)|urinary_tract(2)	11						TCGGGGAAGACGTCAAAGCTG	0.572																																																0													114	87	96					22																	41973907		2203	4300	6503	SO:0001583	missense	5372				CCDS14020.1	22q13	2008-12-01			ENSG00000100417	ENSG00000100417	5.4.2.8		9114	protein-coding gene	gene with protein product	"brain glucose-1,6-bisphosphatase"	601786				9070917, 9271215	Standard	NM_002676		Approved	Sec53	uc003bal.2	Q92871	OTTHUMG00000150972	ENST00000216259.7:c.571G>A	22.37:g.41973907C>T	ENSP00000216259:p.Val191Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K003|Q92586	Missense_Mutation	SNP	ENST00000216259.7	37	CCDS14020.1	.	.	.	.	.	.	.	.	.	.	C	11.75	1.732968	0.30684	.	.	ENSG00000100417	ENST00000216259	D	0.99023	-5.34	5.24	4.22	0.49857	HAD-like domain (2);	0.196740	0.46145	N	0.000313	D	0.97558	0.9200	M	0.70108	2.13	0.48632	D	0.999684	B	0.10296	0.003	B	0.10450	0.005	D	0.96235	0.9171	10	0.27785	T	0.31	-27.3831	10.0097	0.41979	0.0:0.8453:0.0:0.1547	.	191	Q92871	PMM1_HUMAN	I	191	ENSP00000216259:V191I	ENSP00000216259:V191I	V	-	1	0	PMM1	40303853	0.852000	0.29690	0.787000	0.31911	0.045000	0.14185	1.391000	0.34475	1.205000	0.43262	0.555000	0.69702	GTC		0.572	PMM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320711.3	NM_002676		T	41973907	C	T	41973907	3	4	646	1	0	0	0	0	1	0	0	0	12143	536	19	1	225	1	PMM1	22	41973907	Missense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10	17394688	41973907	9330659	90	40073										
TLR7	51284	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	12904430	12904430	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	tcgttgttataatgccccatTtccttgtgcgccgtgtaaaa	8	10	0	0			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chrX:12904430T>C	ENST00000380659.3	+	3	942	c.803T>C	c.(802-804)tTt>tCt	p.F268S		NM_016562.3	NP_057646.1	Q9NYK1	TLR7_HUMAN	toll-like receptor 7	268					cellular response to mechanical stimulus (GO:0071260)|defense response to virus (GO:0051607)|I-kappaB phosphorylation (GO:0007252)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|microglial cell activation involved in immune response (GO:0002282)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|pathogen-associated molecular pattern dependent induction by symbiont of host innate immune response (GO:0052033)|positive regulation of chemokine production (GO:0032722)|positive regulation of inflammatory response (GO:0050729)|positive regulation of interferon-alpha biosynthetic process (GO:0045356)|positive regulation of interferon-beta biosynthetic process (GO:0045359)|positive regulation of interferon-gamma biosynthetic process (GO:0045078)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of interleukin-8 biosynthetic process (GO:0045416)|positive regulation of interleukin-8 production (GO:0032757)|positive regulation of NF-kappaB import into nucleus (GO:0042346)|toll-like receptor 7 signaling pathway (GO:0034154)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)	cytoplasm (GO:0005737)|early phagosome (GO:0032009)|endolysosome membrane (GO:0036020)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|endosome (GO:0005768)|endosome membrane (GO:0010008)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	double-stranded RNA binding (GO:0003725)|drug binding (GO:0008144)|single-stranded RNA binding (GO:0003727)|siRNA binding (GO:0035197)|transmembrane signaling receptor activity (GO:0004888)			NS(1)|breast(4)|endometrium(5)|kidney(1)|large_intestine(8)|lung(18)|ovary(2)|pancreas(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	44					Hydroxychloroquine(DB01611)|Imiquimod(DB00724)	AATGCCCCATTTCCTTGTGCG	0.368																																																0													109	102	104					X																	12904430		2203	4300	6503	SO:0001583	missense	51284			AF240467	CCDS14151.1	Xp22.3	2008-02-05			ENSG00000196664	ENSG00000196664			15631	protein-coding gene	gene with protein product		300365				11022119	Standard	NM_016562		Approved		uc004cvc.3	Q9NYK1	OTTHUMG00000021137	ENST00000380659.3:c.803T>C	X.37:g.12904430T>C	ENSP00000370034:p.Phe268Ser	Somatic		WXS	Illumina HiSeq	Phase_I	D1CS69|Q9NR98	Missense_Mutation	SNP	ENST00000380659.3	37	CCDS14151.1	.	.	.	.	.	.	.	.	.	.	T	11.73	1.726644	0.30593	.	.	ENSG00000196664	ENST00000380659	T	0.36699	1.24	5.63	-2.51	0.06365	.	0.270338	0.35708	N	0.003022	T	0.55832	0.1945	M	0.80746	2.51	0.39016	D	0.959651	P	0.42735	0.788	P	0.58928	0.848	T	0.61667	-0.7016	10	0.72032	D	0.01	.	15.153	0.72717	0.7566:0.0:0.0:0.2434	.	268	Q9NYK1	TLR7_HUMAN	S	268	ENSP00000370034:F268S	ENSP00000370034:F268S	F	+	2	0	TLR7	12814351	1.000000	0.71417	0.176000	0.23000	0.039000	0.13416	0.763000	0.26517	-0.939000	0.03709	-1.676000	0.00740	TTT		0.368	TLR7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055769.1	NM_016562		C	12904430	T	C	12904430	3	2	646	1	0	0	0	0	1	0	0	0	15968	1841	64	3	809	3	TLR7	23	12904430	Missense_Mutation	SNP	T	TCGA-KM-8438-01A-11D-2310-10		12904430	142366130	91	40074										
PRICKLE3	4007	broad.mit.edu	37	chrX	49034679	49034679	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	catggtgacgcccgcagtagAccttgccaacatggtagaag	12	11	0	3			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chrX:49034679A>G	ENST00000376317.3	-	6	804	c.710T>C	c.(709-711)gTc>gCc	p.V237A	PRICKLE3_ENST00000538114.1_Missense_Mutation_p.V224A|PRICKLE3_ENST00000540849.1_Missense_Mutation_p.V169A|PRICKLE3_ENST00000536904.1_Missense_Mutation_p.V156A	NM_006150.3	NP_006141.2	O43900	PRIC3_HUMAN	prickle homolog 3 (Drosophila)	237	LIM zinc-binding 1. {ECO:0000255|PROSITE- ProRule:PRU00125}.						zinc ion binding (GO:0008270)			breast(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(8)|skin(2)	22						CCCGCAGTAGACCTTGCCAAC	0.627																																																0													66	44	51					X																	49034679		2202	4298	6500	SO:0001583	missense	4007			BC016856	CCDS14320.1	Xp11.23	2008-02-05	2007-09-18	2007-09-18	ENSG00000012211	ENSG00000012211			6645	protein-coding gene	gene with protein product		300111	"LIM domain only 6"	LMO6		9344658	Standard	XM_005272605		Approved		uc004dmy.1	O43900	OTTHUMG00000024134	ENST00000376317.3:c.710T>C	X.37:g.49034679A>G	ENSP00000365494:p.Val237Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8F2|O76007|Q53XR5	Missense_Mutation	SNP	ENST00000376317.3	37	CCDS14320.1	.	.	.	.	.	.	.	.	.	.	A	18.19	3.569778	0.65765	.	.	ENSG00000012211	ENST00000376317;ENST00000536904;ENST00000540849;ENST00000538114	D;D;D;D	0.87650	-2.28;-2.28;-2.28;-2.28	5.14	5.14	0.70334	Zinc finger, LIM-type (4);	0.000000	0.34652	N	0.003797	D	0.88808	0.6537	L	0.42581	1.335	0.44652	D	0.997632	B;D;P;P	0.60160	0.417;0.987;0.594;0.803	B;P;B;P	0.60609	0.374;0.81;0.374;0.877	D	0.88252	0.2917	10	0.44086	T	0.13	-3.6123	11.8433	0.52368	1.0:0.0:0.0:0.0	.	237;199;156;237	B2RBS3;B7Z6S4;B7Z8F2;O43900	.;.;.;PRIC3_HUMAN	A	237;156;169;224	ENSP00000365494:V237A;ENSP00000441385:V156A;ENSP00000446051:V169A;ENSP00000441743:V224A	ENSP00000365494:V237A	V	-	2	0	PRICKLE3	48921623	1.000000	0.71417	0.999000	0.59377	0.859000	0.49053	9.154000	0.94694	1.699000	0.51192	0.416000	0.27883	GTC		0.627	PRICKLE3-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000060811.1	NM_006150		G	49034679	A	G	49034679	3	3	646	1	0	0	0	0	1	0	0	0	12498	275	10	3	1153	3	PRICKLE3	23	49034679	Missense_Mutation	SNP	A	TCGA-KM-8438-01A-11D-2310-10	36130249	49034679	106235881	92	40075										
WNK3	65267	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	54276507	54276507	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	gagtctcacggtttcttatcGtctgattgatacagaatcgc	9	9	3	3			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chrX:54276507G>A	ENST00000375159.2	-	15	2632	c.2633C>T	c.(2632-2634)aCg>aTg	p.T878M	WNK3_ENST00000375169.3_Missense_Mutation_p.T878M|WNK3_ENST00000354646.2_Missense_Mutation_p.T878M			Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3	878					intracellular signal transduction (GO:0035556)|negative regulation of apoptotic process (GO:0043066)|positive regulation of calcium ion transport (GO:0051928)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of ion transmembrane transporter activity (GO:0032414)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of rubidium ion transmembrane transporter activity (GO:2000688)|positive regulation of rubidium ion transport (GO:2000682)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|positive regulation of sodium ion transport (GO:0010765)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of ion homeostasis (GO:2000021)	adherens junction (GO:0005912)|cytoplasm (GO:0005737)|tight junction (GO:0005923)	ATP binding (GO:0005524)|chloride channel inhibitor activity (GO:0019869)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			autonomic_ganglia(1)|biliary_tract(1)|breast(4)|central_nervous_system(2)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(17)|lung(24)|ovary(4)|pancreas(2)|prostate(4)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	80						GTTTCTTATCGTCTGATTGAT	0.448																																																0													51	45	47					X																	54276507		2203	4300	6503	SO:0001583	missense	65267			AJ409088	CCDS14357.1, CCDS35302.1	Xp11.22	2008-05-14	2005-01-19	2005-01-22	ENSG00000196632	ENSG00000196632			14543	protein-coding gene	gene with protein product		300358	"protein kinase, lysine deficient 3"	PRKWNK3			Standard	NM_020922		Approved		uc004dtc.2	Q9BYP7	OTTHUMG00000021626	ENST00000375159.2:c.2633C>T	X.37:g.54276507G>A	ENSP00000364301:p.Thr878Met	Somatic		WXS	Illumina HiSeq	Phase_I	B1AKG2|Q5JRC1|Q6JP76|Q8TCX6|Q9HCK6	Missense_Mutation	SNP	ENST00000375159.2	37	CCDS14357.1	.	.	.	.	.	.	.	.	.	.	G	23.8	4.462626	0.84425	.	.	ENSG00000196632	ENST00000375169;ENST00000354646;ENST00000375159	T;T;T	0.28666	1.6;1.6;1.6	5.5	5.5	0.81552	.	0.000000	0.64402	D	0.000020	T	0.46776	0.1410	L	0.32530	0.975	0.43238	D	0.995146	D;D	0.89917	1.0;1.0	D;D	0.83275	0.996;0.992	T	0.46610	-0.9179	10	0.72032	D	0.01	-12.1503	17.1006	0.86648	0.0:0.0:1.0:0.0	.	878;878	Q9BYP7-3;Q9BYP7	.;WNK3_HUMAN	M	878	ENSP00000364312:T878M;ENSP00000346667:T878M;ENSP00000364301:T878M	ENSP00000346667:T878M	T	-	2	0	WNK3	54293232	1.000000	0.71417	0.975000	0.42487	0.969000	0.65631	7.917000	0.87498	2.302000	0.77476	0.506000	0.49869	ACG		0.448	WNK3-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000056799.2	NM_020922		A	54276507	G	A	54276507	3	1	646	1	0	0	0	0	1	0	0	0	17391	1145	40	1	2805	1	WNK3	23	54276507	Missense_Mutation	SNP	G	TCGA-KM-8438-01A-11D-2310-10	5241828	54276507	100994053	93	40076										
ARR3	407	broad.mit.edu	37	chrX	69498391	69498391	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	attccagcttctcccagagcTttgcagtaaccccaatcctg	6	15	1	1			TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chrX:69498391T>C	ENST00000307959.8	+	12	856	c.805T>C	c.(805-807)Ttt>Ctt	p.F269L	ARR3_ENST00000374495.3_Missense_Mutation_p.F269L	NM_004312.2	NP_004303.2	P36575	ARRC_HUMAN	arrestin 3, retinal (X-arrestin)	269					endocytosis (GO:0006897)|regulation of protein phosphorylation (GO:0001932)|signal transduction (GO:0007165)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|photoreceptor inner segment (GO:0001917)|photoreceptor outer segment (GO:0001750)|synapse (GO:0045202)				endometrium(3)|kidney(1)|large_intestine(4)|lung(4)|ovary(2)|prostate(1)|skin(1)	16						CTCCCAGAGCTTTGCAGTAAC	0.493																																																0													63	60	61					X																	69498391		2203	4300	6503	SO:0001583	missense	407				CCDS14399.1	Xq13.1	2013-10-11			ENSG00000120500	ENSG00000120500			710	protein-coding gene	gene with protein product	"arrestin 4"	301770				8224247	Standard	NM_004312		Approved	ARRX	uc004dyb.2	P36575	OTTHUMG00000021768	ENST00000307959.8:c.805T>C	X.37:g.69498391T>C	ENSP00000311538:p.Phe269Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B5B0B9|Q5JT23|Q5JT24|Q6IBF5|Q96EN2	Missense_Mutation	SNP	ENST00000307959.8	37	CCDS14399.1	.	.	.	.	.	.	.	.	.	.	T	12.40	1.927921	0.34002	.	.	ENSG00000120500	ENST00000374495;ENST00000374480;ENST00000307959	T;T	0.15718	2.4;2.4	3.92	3.92	0.45320	Immunoglobulin E-set (1);Arrestin, C-terminal (1);Arrestin-like, C-terminal (1);	0.294134	0.37906	N	0.001899	T	0.12561	0.0305	N	0.25825	0.765	0.38402	D	0.945681	B;B	0.27823	0.19;0.023	B;B	0.32762	0.152;0.04	T	0.15178	-1.0446	10	0.17369	T	0.5	.	11.4823	0.50333	0.0:0.0:0.0:1.0	.	269;269	P36575;P36575-2	ARRC_HUMAN;.	L	269	ENSP00000363619:F269L;ENSP00000311538:F269L	ENSP00000311538:F269L	F	+	1	0	ARR3	69415116	1.000000	0.71417	0.998000	0.56505	0.756000	0.42949	7.229000	0.78088	1.354000	0.45846	0.417000	0.27973	TTT		0.493	ARR3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057055.2	NM_004312		C	69498391	T	C	69498391	3	2	646	1	0	0	0	0	1	0	0	0	979	1609	56	3	847	3	ARR3	23	69498391	Missense_Mutation	SNP	T	TCGA-KM-8438-01A-11D-2310-10	15221884	69498391	85772169	94	40077										
SERPINA7	6906	mdanderson.org;bcgsc.ca	37	chrX	105278361	105278361	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	2	1	0.51029810298103	3.06178861788618	0.278344419807834	1	1	0	atggaaaactttggaacaaaCaagtcaacccatctgtggga	9	8	2	0	rs1804495	byFrequency	TCGA-KM-8438-01A-11D-2310-10	TCGA-KM-8438-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	148536ce-ee2a-4952-a19d-10d6f44146b9	503f8648-a261-4fad-9062-769d85f140df	g.chrX:105278361C>A	ENST00000327674.4	-	3	1244	c.909G>T	c.(907-909)ttG>ttT	p.L303F	SERPINA7_ENST00000372563.1_Missense_Mutation_p.L303F|SERPINA7_ENST00000487487.1_5'UTR			P05543	THBG_HUMAN	serpin peptidase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 7	303			L -> F (common polymorphism; dbSNP:rs1804495).		aging (GO:0007568)|negative regulation of endopeptidase activity (GO:0010951)|post-embryonic development (GO:0009791)|regulation of proteolysis (GO:0030162)|response to corticosterone (GO:0051412)|response to drug (GO:0042493)|response to peptide hormone (GO:0043434)|response to prostaglandin E (GO:0034695)|response to vitamin A (GO:0033189)|thyroid hormone transport (GO:0070327)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	hormone binding (GO:0042562)|serine-type endopeptidase inhibitor activity (GO:0004867)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(14)|ovary(1)|skin(3)	24					Levothyroxine(DB00451)|Liothyronine(DB00279)|Liotrix(DB01583)	TTGGAACAAACAAGTCAACCC	0.408													C|||	678	0.179603	0.084	0.0778	3775	,	,		15263	0.1964		0.0855	False		,,,				2504	0.2342															0			GRCh37	CD013484|CM920665	SERPINA7	D|M	rs1804495	C	PHE/LEU	472,3363		32,335,73,1265,498	91	75	80	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	909	2.5	0.8	X	dbSNP_89	80	751,5977		33,464,221,1931,1651	yes	missense	SERPINA7	NM_000354.5	22	65,799,294,3196,2149	AA,AC,A,CC,C		11.1623,12.3077,11.5782	probably-damaging	303/416	105278361	1223,9340	2203	4300	6503	SO:0001583	missense	6906			M14091	CCDS14518.1	Xq21-q22	2014-02-18	2005-08-18		ENSG00000123561	ENSG00000123561		"Serine (or cysteine) peptidase inhibitors"	11583	protein-coding gene	gene with protein product	"thyroxin-binding globulin", "thyroxine-binding globulin", "alpha-1 antiproteinase, antitrypsin"	314200	"serine (or cysteine) proteinase inhibitor, clade A (alpha-1 antiproteinase, antitrypsin), member 7"	TBG		24172014	Standard	NM_000354		Approved		uc004eme.2	P05543	OTTHUMG00000022144	ENST00000327674.4:c.909G>T	X.37:g.105278361C>A	ENSP00000329374:p.Leu303Phe	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUX1	Missense_Mutation	SNP	ENST00000327674.4	37	CCDS14518.1	228	0.13743218806509946	32	0.06779661016949153	27	0.07894736842105263	62	0.11877394636015326	43	0.059722222222222225	C	14.90	2.672593	0.47781	0.123077	0.111623	ENSG00000123561	ENST00000327674;ENST00000372563	D;D	0.91068	-2.78;-2.78	4.83	2.51	0.30379	Serpin domain (3);	0.628220	0.12570	N	0.457388	T	0.19565	0.0470	M	0.86028	2.79	0.58432	P	5.999999999950489E-6	D	0.58620	0.983	P	0.53809	0.735	T	0.68918	-0.5282	9	0.72032	D	0.01	.	1.9978	0.03460	0.2538:0.3548:0.0:0.3915	rs1804495;rs2071772;rs17347153;rs52796729;rs59668572;rs1804495	303	P05543	THBG_HUMAN	F	303	ENSP00000329374:L303F;ENSP00000361644:L303F	ENSP00000329374:L303F	L	-	3	2	SERPINA7	105165017	0.000000	0.05858	0.766000	0.31476	0.852000	0.48524	-0.651000	0.05372	0.352000	0.24053	0.594000	0.82650	TTG		0.408	SERPINA7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057790.1	NM_000354		A	105278361	C	A	105278361	3	1	646	1	0	0	0	0	1	0	0	0	14107	477	17	4	346	4	SERPINA7	23	105278361	Missense_Mutation	SNP	C	TCGA-KM-8438-01A-11D-2310-10	35779970	105278361	49992199	95	40078										
COL16A1	1307	broad.mit.edu;hgsc.bcm.edu	37	chr1	32149324	32149324	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	tcacctggggtccctggactCcccttcctggaggccctggc	12	17	1	0			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr1:32149324C>T	ENST00000373672.3	-	34	2879	c.2363G>A	c.(2362-2364)gGa>gAa	p.G788E	COL16A1_ENST00000373668.3_Missense_Mutation_p.G788E|COL16A1_ENST00000271069.6_Missense_Mutation_p.G787E	NM_001856.3	NP_001847.3	Q07092	COGA1_HUMAN	collagen, type XVI, alpha 1	788	Collagen-like 4.|Triple-helical region 5 (COL5) with 3 imperfections.				cell adhesion (GO:0007155)|cellular response to amino acid stimulus (GO:0071230)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|female pregnancy (GO:0007565)|integrin-mediated signaling pathway (GO:0007229)	collagen type XVI trimer (GO:0005597)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	integrin binding (GO:0005178)			breast(4)|central_nervous_system(2)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(7)|lung(15)|ovary(8)|prostate(4)	48		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		TCCCTGGACTCCCCTTCCTGG	0.607																																					Colon(143;498 1786 21362 25193 36625)											0													74	93	87					1																	32149324		1980	4153	6133	SO:0001583	missense	1307			M92642	CCDS41297.1	1p35-p34	2013-01-16			ENSG00000084636	ENSG00000084636		"Collagens"	2193	protein-coding gene	gene with protein product		120326				1631157	Standard	NM_001856		Approved		uc001btk.1	Q07092	OTTHUMG00000003883	ENST00000373672.3:c.2363G>A	1.37:g.32149324C>T	ENSP00000362776:p.Gly788Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q16593|Q59F89|Q71RG9	Missense_Mutation	SNP	ENST00000373672.3	37	CCDS41297.1	.	.	.	.	.	.	.	.	.	.	C	13.85	2.360954	0.41801	.	.	ENSG00000084636	ENST00000373672;ENST00000271069;ENST00000458715;ENST00000373668	D;D;D;D	0.99353	-5.77;-5.77;-5.52;-5.77	5.17	2.28	0.28536	.	0.126713	0.51477	D	0.000088	D	0.99042	0.9672	H	0.98333	4.205	0.23978	N	0.996285	B;B;B	0.15473	0.013;0.003;0.002	B;B;B	0.23419	0.046;0.013;0.008	D	0.99838	1.1059	10	0.72032	D	0.01	.	7.1895	0.25818	0.0:0.7033:0.1397:0.157	.	788;788;788	A6NCT7;Q07092;Q07092-2	.;COGA1_HUMAN;.	E	788;787;9;788	ENSP00000362776:G788E;ENSP00000271069:G787E;ENSP00000411457:G9E;ENSP00000362772:G788E	ENSP00000271069:G787E	G	-	2	0	COL16A1	31921911	0.001000	0.12720	0.028000	0.17463	0.897000	0.52465	0.032000	0.13732	0.414000	0.25790	-0.191000	0.12829	GGA		0.607	COL16A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000011057.2	NM_001856		T	32149324	C	T	32149324	3	4	647	1	0	0	0	0	1	0	0	0	3675	855	30	2	2603	2	COL16A1	1	32149324	Missense_Mutation	SNP	C	TCGA-KM-8439-01A-11D-2310-10		32149324	217101297	1	40079										
RSBN1	54665	mdanderson.org	37	chr1	114354654	114354654	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	acagttggggctgcattcgtTggcggcagcggcccaggatg	17	10	0	0	rs3195954	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr1:114354654T>C	ENST00000261441.5	-	1	444	c.381A>G	c.(379-381)ccA>ccG	p.P127P	RP5-1073O3.2_ENST00000429398.1_RNA|RP5-1073O3.2_ENST00000418238.1_RNA	NM_018364.3	NP_060834.2	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	127	Pro-rich.					nucleus (GO:0005634)				breast(1)|endometrium(2)|large_intestine(4)|lung(16)|ovary(1)|prostate(3)|urinary_tract(2)	29	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTGCATTCGTTGGCGGCAGCG	0.746													T|||	610	0.121805	0.0045	0.1311	5008	,	,		11529	0.2282		0.1869	False		,,,				2504	0.0971															0								T		149,4053		2,145,1954	13	24	21		381	-4.9	0.5	1	dbSNP_105	21	1412,6854		115,1182,2836	no	coding-synonymous	RSBN1	NM_018364.3		117,1327,4790	CC,CT,TT		17.082,3.5459,12.5201		127/803	114354654	1561,10907	2101	4133	6234	SO:0001819	synonymous_variant	54665			AK002082	CCDS862.1	1p13.1	2008-02-05			ENSG00000081019	ENSG00000081019			25642	protein-coding gene	gene with protein product		615858				12477932	Standard	NM_018364		Approved	FLJ11220, ROSBIN	uc001edq.3	Q5VWQ0	OTTHUMG00000011938	ENST00000261441.5:c.381A>G	1.37:g.114354654T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K937|Q6AI21|Q8TC33|Q9HA80|Q9NUP6	Silent	SNP	ENST00000261441.5	37	CCDS862.1																																																																																				0.746	RSBN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033022.2	NM_018364		C	114354654	T	C	114354654	2	2	647	1	0	0	0	0	0	0	0	1	13709	1799	63	3		3	RSBN1	1	114354654	Silent	SNP	T	TCGA-KM-8439-01A-11D-2310-10	82205330	114354654	134895967	2	40080										
NBPF10	100132406	broad.mit.edu	37	chr1	145299779	145299779	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	gtcagcatggtggtatcagcCggccctttgtccagcgagaa	13	11	2	1			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr1:145299779C>T	ENST00000369338.1	+	2	205	c.15C>T	c.(13-15)gcC>gcT	p.A5A	NBPF10_ENST00000369339.3_Intron|NBPF10_ENST00000342960.5_Silent_p.A276A|RP11-458D21.5_ENST00000468030.1_3'UTR			Q6P3W6	NBPFA_HUMAN	neuroblastoma breakpoint family, member 10	276						cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(3)|breast(1)|central_nervous_system(3)|endometrium(12)|kidney(23)|lung(15)|ovary(1)|prostate(7)|skin(6)|urinary_tract(2)	73	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		TGGTATCAGCCGGCCCTTTGT	0.498																																																0													3	2	2					1																	145299779		615	1282	1897	SO:0001819	synonymous_variant	100132406			BC021111		1q21.1	2013-01-17			ENSG00000163386	ENSG00000271425		"neuroblastoma breakpoint family"	31992	protein-coding gene	gene with protein product		614000				16079250	Standard	NM_001039703		Approved	AG1		Q6P3W6	OTTHUMG00000013757	ENST00000369338.1:c.15C>T	1.37:g.145299779C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5RHC0|Q9NWN6	Silent	SNP	ENST00000369338.1	37																																																																																					0.498	NBPF10-003	KNOWN	not_best_in_genome_evidence|basic	protein_coding	protein_coding	OTTHUMT00000038552.1	NM_001039703		T	145299779	C	T	145299779	2	4	647	1	0	0	0	0	0	0	0	1	10200	639	23	1		1	NBPF10	1	145299779	Silent	SNP	C	TCGA-KM-8439-01A-11D-2310-10	30945125	145299779	103950842	3	40081										
FLG	2312	mdanderson.org	37	chr1	152284576	152284576	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	acccctctgattgtccctggCctgcctgtgagtgtctagag	11	13	2	3	rs143382793	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr1:152284576C>A	ENST00000368799.1	-	3	2821	c.2786G>T	c.(2785-2787)gGc>gTc	p.G929V	FLG-AS1_ENST00000420707.1_RNA|FLG-AS1_ENST00000593011.1_RNA|FLG-AS1_ENST00000392688.2_RNA	NM_002016.1	NP_002007.1	P20930	FILA_HUMAN	filaggrin	929	Ser-rich.				establishment of skin barrier (GO:0061436)|keratinocyte differentiation (GO:0030216)|multicellular organismal development (GO:0007275)	cytoplasmic membrane-bounded vesicle (GO:0016023)|intermediate filament (GO:0005882)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|structural molecule activity (GO:0005198)			autonomic_ganglia(1)|breast(13)|central_nervous_system(5)|cervix(2)|endometrium(38)|haematopoietic_and_lymphoid_tissue(1)|kidney(16)|large_intestine(57)|lung(211)|ovary(13)|pancreas(1)|prostate(15)|skin(24)|stomach(5)|upper_aerodigestive_tract(10)|urinary_tract(12)	424	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTGTCCCTGGCCTGCCTGTGA	0.557									Ichthyosis																																							0													327	313	318					1																	152284576		2203	4300	6503	SO:0001583	missense	2312	Familial Cancer Database	X-linked Ichthyosis, Steroid Sulfatase Deficiency, Ichthyosis Vulgaris	XM_048104	CCDS30860.1	1q21.3	2013-01-10			ENSG00000143631	ENSG00000143631		"EF-hand domain containing"	3748	protein-coding gene	gene with protein product		135940				2740331, 2248957, 16444271	Standard	NM_002016		Approved		uc001ezu.1	P20930	OTTHUMG00000012202	ENST00000368799.1:c.2786G>T	1.37:g.152284576C>A	ENSP00000357789:p.Gly929Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q01720|Q5T583|Q9UC71	Missense_Mutation	SNP	ENST00000368799.1	37	CCDS30860.1	.	.	.	.	.	.	.	.	.	.	-	1.719	-0.497190	0.04291	.	.	ENSG00000143631	ENST00000368799;ENST00000392689	T	0.06528	3.29	1.17	0.0422	0.14216	.	.	.	.	.	T	0.06142	0.0159	M	0.77820	2.39	0.09310	N	1	D	0.67145	0.996	P	0.58970	0.849	T	0.24977	-1.0145	9	0.21014	T	0.42	.	4.8967	0.13753	0.0:0.6064:0.3936:0.0	.	929	P20930	FILA_HUMAN	V	929;136	ENSP00000357789:G929V	ENSP00000357789:G929V	G	-	2	0	FLG	150551200	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.167000	0.09940	0.033000	0.15463	0.479000	0.44913	GGC		0.557	FLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033742.1	NM_002016		A	152284576	C	A	152284576	3	1	647	1	0	0	0	0	1	0	0	0	5929	739	26	4	9403	4	FLG	1	152284576	Missense_Mutation	SNP	C	TCGA-KM-8439-01A-11D-2310-10	6984797	152284576	96966045	4	40082										
KISS1	3814	mdanderson.org	37	chr1	204159787	204159787	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	cggacaggcccggctgctggGggctcccggagctctcgggg	19	14	1	0	rs4889	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr1:204159787G>C	ENST00000367194.4	-	3	390	c.242C>G	c.(241-243)cCc>cGc	p.P81R		NM_002256.3	NP_002247.3	Q15726	KISS1_HUMAN	KiSS-1 metastasis-suppressor	81			P -> R (in dbSNP:rs4889). {ECO:0000269|PubMed:15598687, ECO:0000269|PubMed:9806840, ECO:0000269|Ref.4}.		cytoskeleton organization (GO:0007010)|generation of ovulation cycle rhythm (GO:0060112)|negative regulation of cell proliferation (GO:0008285)|positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G-protein coupled signaling pathway (GO:0051482)|positive regulation of growth hormone secretion (GO:0060124)|positive regulation of luteinizing hormone secretion (GO:0033686)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of synaptic transmission (GO:0050806)	apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)				large_intestine(1)|lung(1)|ovary(1)	3	all_cancers(21;0.0165)|Breast(84;0.179)|all_epithelial(62;0.242)	Breast(1374;9.42e-05)	KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.069)|Kidney(21;0.0934)|Epithelial(59;0.239)	Colorectal(1306;0.0129)		CGGCTGCTGGGGGCTCCCGGA	0.731													G|||	1652	0.329872	0.4009	0.3156	5008	,	,		8959	0.4216		0.2545	False		,,,				2504	0.227															0								G	ARG/PRO	673,1913		94,485,714	3	5	4		242	0.6	0	1	dbSNP_52	4	1170,5064		125,920,2072	no	missense	KISS1	NM_002256.3	103	219,1405,2786	CC,CG,GG		18.768,26.0247,20.8957	probably-damaging	81/139	204159787	1843,6977	1293	3117	4410	SO:0001583	missense	3814			U43527	CCDS41454.1	1q32	2014-01-30			ENSG00000170498	ENSG00000170498		"Endogenous ligands"	6341	protein-coding gene	gene with protein product	"prepro-kisspeptin", "kisspeptin"	603286				9192814, 9806840	Standard	NM_002256		Approved		uc001har.3	Q15726	OTTHUMG00000036060	ENST00000367194.4:c.242C>G	1.37:g.204159787G>C	ENSP00000356162:p.Pro81Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6N0|Q9HBP1	Missense_Mutation	SNP	ENST00000367194.4	37	CCDS41454.1	717	0.3282967032967033	196	0.3983739837398374	99	0.27348066298342544	230	0.4020979020979021	192	0.2532981530343008	G	11.85	1.760696	0.31137	0.260247	0.18768	ENSG00000170498	ENST00000367194	T	0.80653	-1.4	4.91	0.555	0.17247	.	0.163973	0.29799	N	0.011175	T	0.00012	0.0000	N	0.12961	0.28	0.80722	P	0.0	P	0.35844	0.524	B	0.35550	0.205	T	0.32322	-0.9911	9	0.02654	T	1	-5.226	2.4672	0.04555	0.0963:0.1644:0.4016:0.3376	rs4889;rs1132315;rs3192998	81	Q15726	KISS1_HUMAN	R	81	ENSP00000356162:P81R	ENSP00000356162:P81R	P	-	2	0	KISS1	202426410	0.450000	0.25697	0.017000	0.16124	0.061000	0.15899	1.748000	0.38308	0.119000	0.18210	0.655000	0.94253	CCC		0.731	KISS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087892.1	NM_002256		C	204159787	G	C	204159787	3	2	647	1	0	0	0	0	1	0	0	0	8334	1232	43	4	178	4	KISS1	1	204159787	Missense_Mutation	SNP	G	TCGA-KM-8439-01A-11D-2310-10	51875211	204159787	45090834	5	40083										
FMN2	56776	mdanderson.org	37	chr1	240370995	240370995	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	cctccgccccctcttcccggGgcaggcataccccttcctcc	7	23	1	0	rs201866430	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr1:240370995G>A	ENST00000319653.9	+	5	3113	c.2883G>A	c.(2881-2883)ggG>ggA	p.G961G		NM_020066.4	NP_064450.3	Q9NZ56	FMN2_HUMAN	formin 2	961	FH1.|Pro-rich.				cellular response to DNA damage stimulus (GO:0006974)|cellular response to hypoxia (GO:0071456)|establishment of meiotic spindle localization (GO:0051295)|formin-nucleated actin cable assembly (GO:0070649)|homologous chromosome movement towards spindle pole involved in homologous chromosome segregation (GO:0051758)|intracellular signal transduction (GO:0035556)|intracellular transport (GO:0046907)|multicellular organismal development (GO:0007275)|negative regulation of apoptotic process (GO:0043066)|negative regulation of protein catabolic process (GO:0042177)|oogenesis (GO:0048477)|polar body extrusion after meiotic divisions (GO:0040038)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	cell cortex (GO:0005938)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|microvillus (GO:0005902)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)|spindle (GO:0005819)	actin binding (GO:0003779)			NS(1)|breast(7)|central_nervous_system(6)|cervix(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(13)|lung(87)|ovary(6)|pancreas(3)|prostate(12)|skin(7)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(2)	178	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CTCTTCCCGGGGCAGGCATAC	0.692																																																0													20	23	22					1																	240370995		2199	4297	6496	SO:0001819	synonymous_variant	56776			AF218942	CCDS31069.2	1q43	2008-02-05			ENSG00000155816	ENSG00000155816			14074	protein-coding gene	gene with protein product		606373				10781961	Standard	NM_020066		Approved		uc010pyd.2	Q9NZ56	OTTHUMG00000039883	ENST00000319653.9:c.2883G>A	1.37:g.240370995G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B0QZA7|B4DP05|Q59GF6|Q5VU37|Q9NZ55	Silent	SNP	ENST00000319653.9	37	CCDS31069.2																																																																																				0.692	FMN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096217.2	XM_371352		A	240370995	G	A	240370995	2	1	647	1	0	0	0	0	0	0	0	1	5957	1219	43	2		2	FMN2	1	240370995	Silent	SNP	G	TCGA-KM-8439-01A-11D-2310-10	36211208	240370995	8879626	6	40084										
FMN2	56776	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	240371393	240371393	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	acctccccctctacccggagCgggcataccccctccgcccc	7	24	1	0	rs201701711		TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr1:240371393C>T	ENST00000319653.9	+	5	3511	c.3281C>T	c.(3280-3282)gCg>gTg	p.A1094V		NM_020066.4	NP_064450.3	Q9NZ56	FMN2_HUMAN	formin 2	1094	FH1.|Pro-rich.				cellular response to DNA damage stimulus (GO:0006974)|cellular response to hypoxia (GO:0071456)|establishment of meiotic spindle localization (GO:0051295)|formin-nucleated actin cable assembly (GO:0070649)|homologous chromosome movement towards spindle pole involved in homologous chromosome segregation (GO:0051758)|intracellular signal transduction (GO:0035556)|intracellular transport (GO:0046907)|multicellular organismal development (GO:0007275)|negative regulation of apoptotic process (GO:0043066)|negative regulation of protein catabolic process (GO:0042177)|oogenesis (GO:0048477)|polar body extrusion after meiotic divisions (GO:0040038)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	cell cortex (GO:0005938)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|microvillus (GO:0005902)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)|spindle (GO:0005819)	actin binding (GO:0003779)			NS(1)|breast(7)|central_nervous_system(6)|cervix(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(13)|lung(87)|ovary(6)|pancreas(3)|prostate(12)|skin(7)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(2)	178	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CTACCCGGAGCGGGCATACCC	0.731																																																0								C	VAL/ALA	2,3774		0,2,1886	5	7	6		3281	-1	0	1		6	15,7769		0,15,3877	no	missense	FMN2	NM_020066.4	64	0,17,5763	TT,TC,CC		0.1927,0.053,0.1471	benign	1094/1723	240371393	17,11543	1888	3892	5780	SO:0001583	missense	56776			AF218942	CCDS31069.2	1q43	2008-02-05			ENSG00000155816	ENSG00000155816			14074	protein-coding gene	gene with protein product		606373				10781961	Standard	NM_020066		Approved		uc010pyd.2	Q9NZ56	OTTHUMG00000039883	ENST00000319653.9:c.3281C>T	1.37:g.240371393C>T	ENSP00000318884:p.Ala1094Val	Somatic		WXS	Illumina HiSeq	Phase_I	B0QZA7|B4DP05|Q59GF6|Q5VU37|Q9NZ55	Missense_Mutation	SNP	ENST00000319653.9	37	CCDS31069.2	.	.	.	.	.	.	.	.	.	.	c	8.534	0.871605	0.17322	5.3E-4	0.001927	ENSG00000155816	ENST00000319653	T	0.58940	0.3	3.16	-1.05	0.10036	Actin-binding FH2/DRF autoregulatory (1);Formin Homology 1 (2);	2.671950	0.01759	N	0.030419	T	0.45196	0.1330	L	0.41573	1.285	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.06144	-1.0843	9	.	.	.	.	3.0177	0.06065	0.364:0.3658:0.0:0.2702	.	1094	Q9NZ56	FMN2_HUMAN	V	1094	ENSP00000318884:A1094V	.	A	+	2	0	FMN2	238438016	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-2.328000	0.01112	-0.352000	0.08237	-0.350000	0.07774	GCG		0.731	FMN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096217.2	XM_371352		T	240371393	C	T	240371393	3	4	647	1	0	0	0	0	1	0	0	0	5957	768	27	1	3299	1	FMN2	1	240371393	Missense_Mutation	SNP	C	TCGA-KM-8439-01A-11D-2310-10	398	240371393	8879228	7	40085										
EPT1	85465	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	26608003	26608003	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	tggaacagcttttgccaacaGtacagtaagatttttttctt	7	7	1	1			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr2:26608003G>A	ENST00000260585.7	+	8	1027	c.908G>A	c.(907-909)aGt>aAt	p.S303N		NM_033505.2	NP_277040.1	Q9C0D9	EPT1_HUMAN	ethanolaminephosphotransferase 1 (CDP-ethanolamine-specific)	303					glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylethanolamine biosynthetic process (GO:0006646)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	ethanolaminephosphotransferase activity (GO:0004307)|metal ion binding (GO:0046872)										TTTGCCAACAGTACAGTAAGA	0.284																																																0													60	51	54					2																	26608003		1802	4063	5865	SO:0001583	missense	85465				CCDS46240.1	2p23.3	2012-03-01			ENSG00000138018	ENSG00000138018	2.7.8.1		29361	protein-coding gene	gene with protein product	"selenoprotein I"	607915				11214970, 17132865	Standard	NM_033505		Approved	KIAA1724, SELI, SEPI	uc021veu.1	Q9C0D9	OTTHUMG00000151931	ENST00000260585.7:c.908G>A	2.37:g.26608003G>A	ENSP00000260585:p.Ser303Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q63ZE3	Missense_Mutation	SNP	ENST00000260585.7	37	CCDS46240.1	.	.	.	.	.	.	.	.	.	.	G	12.87	2.068278	0.36470	.	.	ENSG00000138018	ENST00000260585;ENST00000447170	T	0.45668	0.89	5.97	-8.32	0.00996	.	0.347133	0.32901	N	0.005501	T	0.27134	0.0665	L	0.33339	1.005	0.21445	N	0.999682	B	0.13594	0.008	B	0.09377	0.004	T	0.02498	-1.1150	10	0.72032	D	0.01	-11.6859	16.1861	0.81955	0.092:0.0:0.6776:0.2304	.	303	Q9C0D9	EPT1_HUMAN	N	303;179	ENSP00000260585:S303N	ENSP00000260585:S303N	S	+	2	0	EPT1	26461507	1.000000	0.71417	0.052000	0.19188	0.946000	0.59487	1.312000	0.33574	-1.757000	0.01316	-0.275000	0.10095	AGT		0.284	EPT1-001	KNOWN	basic|appris_principal|CCDS|seleno	protein_coding	protein_coding	OTTHUMT00000324484.3	NM_033505.2		A	26608003	G	A	26608003	3	1	647	1	0	0	0	0	1	0	0	0	5201	1029	36	2	938	2	EPT1	2	26608003	Missense_Mutation	SNP	G	TCGA-KM-8439-01A-11D-2310-10		26608003	216591370	8	40086										
DUSP11	8446	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	74007178	74007178	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	cgccctcaatgccaggataaGaccctaaacaggaaaagact	8	12	1	2	rs574278061	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr2:74007178G>A	ENST00000272444.3	-	1	106	c.65C>T	c.(64-66)tCt>tTt	p.S22F	DUSP11_ENST00000377706.4_5'UTR|DUSP11_ENST00000443070.1_Missense_Mutation_p.S22F|DUSP11_ENST00000480948.1_5'Flank	NM_003584.2	NP_003575.2	O75319	DUS11_HUMAN	dual specificity phosphatase 11 (RNA/RNP complex 1-interacting)	0					peptidyl-tyrosine dephosphorylation (GO:0035335)|polynucleotide 5' dephosphorylation (GO:0098507)|RNA metabolic process (GO:0016070)|RNA processing (GO:0006396)	nucleus (GO:0005634)	nucleotide phosphatase activity, acting on free nucleotides (GO:0098519)|phosphatase activity (GO:0016791)|poly(A) RNA binding (GO:0044822)|polynucleotide 5'-phosphatase activity (GO:0004651)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)|RNA binding (GO:0003723)			breast(1)|cervix(1)|endometrium(1)|large_intestine(4)|lung(4)|skin(1)	12						GCCAGGATAAGACCCTAAACA	0.637											OREG0014714	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	G|||	2	0.000399361	0.0015	0.0	5008	,	,		17848	0.0		0.0	False		,,,				2504	0.0															0													30	40	37					2																	74007178		692	1591	2283	SO:0001583	missense	8446			AF023917	CCDS1928.2	2p13.1	2011-06-09			ENSG00000144048	ENSG00000144048		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Atypical dual specificity phosphatases"	3066	protein-coding gene	gene with protein product		603092				9685386	Standard	NM_003584		Approved	PIR1	uc002sjp.3	O75319	OTTHUMG00000129816	ENST00000272444.3:c.65C>T	2.37:g.74007178G>A	ENSP00000272444:p.Ser22Phe	Somatic	1149	WXS	Illumina HiSeq	Phase_I	B2RCT8|Q6AI47|Q9BWE3	Missense_Mutation	SNP	ENST00000272444.3	37	CCDS1928.2	.	.	.	.	.	.	.	.	.	.	G	14.78	2.638396	0.47153	.	.	ENSG00000144048	ENST00000272444;ENST00000443070	T	0.36699	1.24	3.97	0.177	0.15054	.	.	.	.	.	T	0.15046	0.0363	N	0.08118	0	0.20196	N	0.999924	B	0.10296	0.003	B	0.06405	0.002	T	0.32745	-0.9895	9	0.12103	T	0.63	.	6.2359	0.20762	0.4426:0.0:0.5574:0.0	.	22	C9JYA6	.	F	22	ENSP00000413444:S22F	ENSP00000272444:S22F	S	-	2	0	DUSP11	73860686	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	0.512000	0.22755	0.011000	0.14865	-0.258000	0.10820	TCT		0.637	DUSP11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252047.3			A	74007178	G	A	74007178	3	1	647	1	0	0	0	0	1	0	0	0	4813	942	33	2	1104	2	DUSP11	2	74007178	Missense_Mutation	SNP	G	TCGA-KM-8439-01A-11D-2310-10	47399175	74007178	169192195	9	40087										
KCMF1	56888	broad.mit.edu;hgsc.bcm.edu	37	chr2	85262268	85262268	+	Frame_Shift_Del	DEL	C	C	-													0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	ttctgaacatgcagaaacatCaacagaagtggtaagtgaag							TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr2:85262268delC	ENST00000409785.4	+	3	673	c.314delC	c.(313-315)tcafs	p.S105fs		NM_020122.4	NP_064507.3	Q9P0J7	KCMF1_HUMAN	potassium channel modulatory factor 1	105							ligase activity (GO:0016874)|zinc ion binding (GO:0008270)			ovary(3)	3						GCAGAAACATCAACAGAAGTG	0.373																																																0													81	70	73					2																	85262268		1876	4123	5999	SO:0001589	frameshift_variant	56888			AF155652	CCDS46350.1	2p11.2	2010-11-23			ENSG00000176407	ENSG00000176407		"Zinc fingers, ZZ-type"	20589	protein-coding gene	gene with protein product		614719					Standard	NM_020122		Approved	DEBT91, PCMF, DKFZP434L1021, ZZZ1	uc002sox.4	Q9P0J7	OTTHUMG00000153004	ENST00000409785.4:c.314delC	2.37:g.85262268delC	ENSP00000386738:p.Ser105fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZG04|Q53SC7|Q9BWK2|Q9H8P5|Q9UFE8	Frame_Shift_Del	DEL	ENST00000409785.4	37	CCDS46350.1																																																																																				0.373	KCMF1-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328942.4	NM_020122		-	85262268	C	-	85262268	7	5	647	1	0	1	0	1	0	0	0	0	8007	838	29	0	324	0	KCMF1	2	85262268	Frame_Shift_Del	DEL	C	TCGA-KM-8439-01A-11D-2310-10	11255090	85262268	157937105	10	40088	356	2								
KCMF1	56888	bcgsc.ca	37	chr2	85262269	85262269	+	Frame_Shift_Del	DEL	C	C	-													0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	tctgaacatgcagaaacatcAacagaagtggtaagtgaagc							TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr2:85262269delC	ENST00000409785.4	+	3	674	c.315delC	c.(313-315)tccfs	p.S105fs		NM_020122.4	NP_064507.3	Q9P0J7	KCMF1_HUMAN	potassium channel modulatory factor 1	105							ligase activity (GO:0016874)|zinc ion binding (GO:0008270)			ovary(3)	3						CAGAAACATCAACAGAAGTGG	0.373																																																0													79	68	71					2																	85262269		1875	4123	5998	SO:0001589	frameshift_variant	56888			AF155652	CCDS46350.1	2p11.2	2010-11-23			ENSG00000176407	ENSG00000176407		"Zinc fingers, ZZ-type"	20589	protein-coding gene	gene with protein product		614719					Standard	NM_020122		Approved	DEBT91, PCMF, DKFZP434L1021, ZZZ1	uc002sox.4	Q9P0J7	OTTHUMG00000153004	ENST00000409785.4:c.315delC	2.37:g.85262269delC	ENSP00000386738:p.Ser105fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZG04|Q53SC7|Q9BWK2|Q9H8P5|Q9UFE8	Frame_Shift_Del	DEL	ENST00000409785.4	37	CCDS46350.1																																																																																				0.373	KCMF1-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328942.4	NM_020122		-	85262269	C	-	85262269	7	5	647	1	0	1	0	1	0	0	0	0	8007	117	5	0	325	0	KCMF1	2	85262269	Frame_Shift_Del	DEL	C	TCGA-KM-8439-01A-11D-2310-10	1	85262269	157937104	11	40089	356	2								
POTEE	445582	mdanderson.org	37	chr2	132021475	132021475	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	cctgaaccccaaggccaaccGcgagaagatgacccagatca	9	15	1	5	rs11546936		TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr2:132021475G>A	ENST00000356920.5	+	15	2541	c.2447G>A	c.(2446-2448)cGc>cAc	p.R816H	POTEE_ENST00000358087.5_3'UTR|PLEKHB2_ENST00000404460.1_Intron|PLEKHB2_ENST00000303908.3_Intron	NM_001083538.1	NP_001077007.1	Q6S8J3	POTEE_HUMAN	POTE ankyrin domain family, member E	816	Actin-like.				retina homeostasis (GO:0001895)|substantia nigra development (GO:0021762)	blood microparticle (GO:0072562)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)											AAGGCCAACCGCGAGAAGATG	0.607																																																0													78	80	79					2																	132021475		2127	4190	6317	SO:0001583	missense	445582			AY462868	CCDS46414.1	2q21.1	2014-04-10	2008-11-26	2008-11-26	ENSG00000188219	ENSG00000188219		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33895	protein-coding gene	gene with protein product	"cancer/testis antigen family 104, member 2"	608914	"ANKRD26-like family C, member 1A"	A26C1A			Standard	NM_001083538		Approved	POTE2, POTE-2, A26C1, POTE2gamma, CT104.2	uc002tsn.2	Q6S8J3	OTTHUMG00000186974	ENST00000356920.5:c.2447G>A	2.37:g.132021475G>A	ENSP00000439189:p.Arg816His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6S8J4|Q6S8J5|Q6S8J8	Missense_Mutation	SNP	ENST00000356920.5	37	CCDS46414.1	.	.	.	.	.	.	.	.	.	.	.	18.42	3.621132	0.66787	.	.	ENSG00000188219	ENST00000356920	D	0.97066	-4.23	.	.	.	Actin/actin-like conserved site (1);	.	.	.	.	D	0.98817	0.9601	H	0.99261	4.49	0.80722	D	1	D	0.89917	1.0	D	0.72625	0.978	D	0.96667	0.9493	8	0.87932	D	0	.	5.9051	0.18992	8.0E-4:0.0:0.9992:0.0	rs11546936	816	Q6S8J3	POTEE_HUMAN	H	816	ENSP00000439189:R816H	ENSP00000439189:R816H	R	+	2	0	AC131180.1	131737945	1.000000	0.71417	0.216000	0.23742	0.219000	0.24729	6.504000	0.73704	0.119000	0.18210	0.121000	0.15741	CGC		0.607	POTEE-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001083538		A	132021475	G	A	132021475	3	1	647	1	0	0	0	0	1	0	0	0	12271	1087	38	1	2505	1	POTEE	2	132021475	Missense_Mutation	SNP	G	TCGA-KM-8439-01A-11D-2310-10	46759206	132021475	111177898	12	40090										
LRBA	987	broad.mit.edu	37	chr4	151842427	151842427	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	atgctttaacacagacagcaActtcccagcatgtggaggct	9	11	0	1			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr4:151842427A>G	ENST00000357115.3	-	5	811	c.568T>C	c.(568-570)Ttg>Ctg	p.L190L	LRBA_ENST00000535741.1_Silent_p.L190L|LRBA_ENST00000507224.1_Silent_p.L190L|LRBA_ENST00000510413.1_Silent_p.L190L	NM_006726.4	NP_006717.2	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and anchor containing	190						cytoplasmic membrane-bounded vesicle (GO:0016023)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|lysosome (GO:0005764)|membrane (GO:0016020)|plasma membrane (GO:0005886)				breast(6)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(20)|lung(32)|ovary(4)|prostate(6)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	91	all_hematologic(180;0.151)					ACAGACAGCAACTTCCCAGCA	0.338																																																0													130	126	127					4																	151842427		2203	4300	6503	SO:0001819	synonymous_variant	987			AF216648	CCDS3773.1, CCDS58928.1	4q13	2013-01-10		2001-10-05	ENSG00000198589	ENSG00000198589		"WD repeat domain containing"	1742	protein-coding gene	gene with protein product		606453		CDC4L		1505956, 11254716	Standard	NM_006726		Approved	BGL, LAB300, LBA	uc010ipj.3	P50851	OTTHUMG00000161443	ENST00000357115.3:c.568T>C	4.37:g.151842427A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5J4|Q4W5L6|Q8NFQ0|Q9H2U3|Q9H2U4	Silent	SNP	ENST00000357115.3	37	CCDS3773.1																																																																																				0.338	LRBA-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000364939.1			G	151842427	A	G	151842427	2	3	647	1	0	0	0	0	0	0	0	1	8938	40	2	3		3	LRBA	4	151842427	Silent	SNP	A	TCGA-KM-8439-01A-11D-2310-10		151842427	39311849	13	40091										
DND1	373863	mdanderson.org	37	chr5	140052407	140052407	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	ggcccacgcgctggaacagcGggataagctggtgctcgtac	15	12	0	0	rs72800920		TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr5:140052407G>A	ENST00000542735.1	-	3	270	c.227C>T	c.(226-228)cCg>cTg	p.P76L		NM_194249.2	NP_919225.1	Q8IYX4	DND1_HUMAN	DND microRNA-mediated repression inhibitor 1	76	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				germ cell development (GO:0007281)|multicellular organismal development (GO:0007275)|negative regulation of gene silencing by miRNA (GO:0060965)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	AU-rich element binding (GO:0017091)|nucleotide binding (GO:0000166)	p.P76L(1)		central_nervous_system(1)|prostate(4)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGAACAGCGGGATAAGCTG	0.667																																																1	Substitution - Missense(1)	prostate(1)											13	20	17					5																	140052407		2184	4291	6475	SO:0001583	missense	373863			AY321065	CCDS4236.1	5q31.3	2013-07-31	2013-07-31		ENSG00000256453	ENSG00000256453		"RNA binding motif (RRM) containing"	23799	protein-coding gene	gene with protein product		609385	"dead end homolog 1 (zebrafish)"			12932328	Standard	NM_194249		Approved	MGC34750, RBMS4	uc003lgt.3	Q8IYX4	OTTHUMG00000129499	ENST00000542735.1:c.227C>T	5.37:g.140052407G>A	ENSP00000445366:p.Pro76Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000542735.1	37	CCDS4236.1	.	.	.	.	.	.	.	.	.	.	G	22.1	4.250143	0.80024	.	.	ENSG00000256453	ENST00000542735	T	0.15718	2.4	5.35	5.35	0.76521	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.000000	0.64402	D	0.000003	T	0.51058	0.1652	M	0.88450	2.955	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.60403	-0.7270	10	0.87932	D	0	-9.8139	18.6578	0.91460	0.0:0.0:1.0:0.0	.	76	Q8IYX4	DND1_HUMAN	L	76	ENSP00000445366:P76L	ENSP00000445366:P76L	P	-	2	0	DND1	140032591	1.000000	0.71417	1.000000	0.80357	0.232000	0.25224	9.637000	0.98443	2.499000	0.84300	0.467000	0.42956	CCG		0.667	DND1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251669.2	NM_194249		A	140052407	G	A	140052407	3	1	647	1	0	0	0	0	1	0	0	0	4668	1116	39	1	842	1	DND1	5	140052407	Missense_Mutation	SNP	G	TCGA-KM-8439-01A-11D-2310-10		140052407	40862853	14	40092										
PCDHA5	56143	hgsc.bcm.edu	37	chr5	140201458	140201458	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	gagcggccagctccactactCgatcccggaggaagccaaac	11	15	0	0	rs144627570		TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr5:140201458C>T	ENST00000529859.1	+	1	98	c.98C>T	c.(97-99)tCg>tTg	p.S33L	PCDHA2_ENST00000526136.1_Intron|PCDHA4_ENST00000512229.2_Intron|PCDHA1_ENST00000394633.3_Intron|PCDHA3_ENST00000522353.2_Intron|PCDHA5_ENST00000529619.1_Missense_Mutation_p.S33L|PCDHA4_ENST00000530339.1_Intron|PCDHA5_ENST00000378126.3_Missense_Mutation_p.S33L|PCDHA1_ENST00000504120.2_Intron	NM_018908.2	NP_061731.1	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5	33	Cadherin 1. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(4)|kidney(6)|large_intestine(8)|liver(1)|lung(22)|ovary(2)|prostate(6)|skin(4)|upper_aerodigestive_tract(3)	60			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCCACTACTCGATCCCGGAG	0.647																																																0								C	,,,,LEU/SER,,LEU/SER	1,4405	2.1+/-5.4	0,1,2202	53	60	58		,,,,98,,98	3.9	1	5	dbSNP_134	58	0,8600		0,0,4300	no	intron,intron,intron,intron,missense,intron,missense	PCDHA5,PCDHA4,PCDHA3,PCDHA2,PCDHA1	NM_018900.2,NM_018905.2,NM_018906.2,NM_018907.2,NM_018908.2,NM_031411.1,NM_031501.1	,,,,145,,145	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	,,,,,,	,,,,33/937,,33/817	140201458	1,13005	2203	4300	6503	SO:0001583	missense	56143			AF152483	CCDS54917.1	5q31	2010-11-26				ENSG00000204965		"Cadherins / Protocadherins : Clustered"	8671	other	complex locus constituent	"ortholog of mouse CNR6", "KIAA0345-like 9"	606311		CNRS6		10380929, 10662547	Standard	NM_018908		Approved	CNR6, CRNR6, CNRN6, PCDH-ALPHA5		Q9Y5H7		ENST00000529859.1:c.98C>T	5.37:g.140201458C>T	ENSP00000436557:p.Ser33Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O75284|Q8N4R3	Missense_Mutation	SNP	ENST00000529859.1	37	CCDS54917.1	.	.	.	.	.	.	.	.	.	.	C	14.89	2.669759	0.47677	2.27E-4	0.0	ENSG00000204965	ENST00000529619;ENST00000529859;ENST00000378126	T;T;T	0.36340	1.26;1.26;1.26	3.87	3.87	0.44632	Cadherin, N-terminal (1);Cadherin (2);Cadherin-like (1);	.	.	.	.	T	0.48150	0.1484	H	0.96111	3.77	0.25383	N	0.988592	B;P;B	0.36599	0.287;0.56;0.374	B;B;B	0.27608	0.081;0.06;0.07	T	0.57562	-0.7790	9	0.66056	D	0.02	.	9.9783	0.41797	0.0:0.9042:0.0:0.0958	.	33;33;33	Q9Y5H7;Q9Y5H7-3;Q9Y5H7-2	PCDA5_HUMAN;.;.	L	33	ENSP00000433416:S33L;ENSP00000436557:S33L;ENSP00000367366:S33L	ENSP00000367366:S33L	S	+	2	0	PCDHA5	140181642	0.998000	0.40836	0.995000	0.50966	0.957000	0.61999	4.077000	0.57598	1.858000	0.53909	0.585000	0.79938	TCG		0.647	PCDHA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372883.2	NM_018908		T	140201458	C	T	140201458	3	4	647	1	0	0	0	0	1	0	0	0	11534	893	31	1	100	1	PCDHA5	5	140201458	Missense_Mutation	SNP	C	TCGA-KM-8439-01A-11D-2310-10	149051	140201458	40713802	15	40093										
FAM8A1	51439	mdanderson.org	37	chr6	17602863	17602863	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	cttggcccacagatttatggCagagatggtggatttcttta	11	7	1	2	rs80120441	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr6:17602863C>T	ENST00000259963.3	+	2	810	c.755C>T	c.(754-756)gCa>gTa	p.A252V		NM_016255.2	NP_057339.1	Q9UBU6	FA8A1_HUMAN	family with sequence similarity 8, member A1	252	RDD.					integral component of membrane (GO:0016021)				endometrium(1)|large_intestine(2)|lung(3)	6	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.143)	all cancers(50;0.176)|Epithelial(50;0.204)			AGATTTATGGCAGAGATGGTG	0.348																																																0													137	138	138					6																	17602863		2203	4299	6502	SO:0001583	missense	51439			AF097027	CCDS4540.1	6p23	2010-11-22			ENSG00000137414	ENSG00000137414			16372	protein-coding gene	gene with protein product						11707071	Standard	NM_016255		Approved	AHCP	uc003ncc.3	Q9UBU6	OTTHUMG00000014309	ENST00000259963.3:c.755C>T	6.37:g.17602863C>T	ENSP00000259963:p.Ala252Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R725	Missense_Mutation	SNP	ENST00000259963.3	37	CCDS4540.1	.	.	.	.	.	.	.	.	.	.	C	32	5.151658	0.94645	.	.	ENSG00000137414	ENST00000542476;ENST00000259963	.	.	.	5.1	5.1	0.69264	RDD (1);	0.058285	0.64402	D	0.000002	T	0.81341	0.4802	M	0.82517	2.595	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.84502	0.0617	9	0.87932	D	0	-6.6518	18.5673	0.91121	0.0:1.0:0.0:0.0	.	252	Q9UBU6	FA8A1_HUMAN	V	2;252	.	ENSP00000259963:A252V	A	+	2	0	FAM8A1	17710842	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.481000	0.81124	2.356000	0.79943	0.644000	0.83932	GCA		0.348	FAM8A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039950.1			T	17602863	C	T	17602863	3	4	647	1	0	0	0	0	1	0	0	0	5656	710	25	2	761	2	FAM8A1	6	17602863	Missense_Mutation	SNP	C	TCGA-KM-8439-01A-11D-2310-10		17602863	153512204	16	40094			1	94		3	3	48	N	G_C_A	2.284128e-09
FAM8A1	51439	mdanderson.org	37	chr6	17602895	17602895	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	atttctttattctcttctttAtaaaagcaaccattgtctta	2	8	4	0	rs79412549	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr6:17602895A>G	ENST00000259963.3	+	2	842	c.787A>G	c.(787-789)Ata>Gta	p.I263V		NM_016255.2	NP_057339.1	Q9UBU6	FA8A1_HUMAN	family with sequence similarity 8, member A1	263	RDD.					integral component of membrane (GO:0016021)				endometrium(1)|large_intestine(2)|lung(3)	6	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.143)	all cancers(50;0.176)|Epithelial(50;0.204)			TCTCTTCTTTATAAAAGCAAC	0.333																																																0													126	129	128					6																	17602895		2203	4299	6502	SO:0001583	missense	51439			AF097027	CCDS4540.1	6p23	2010-11-22			ENSG00000137414	ENSG00000137414			16372	protein-coding gene	gene with protein product						11707071	Standard	NM_016255		Approved	AHCP	uc003ncc.3	Q9UBU6	OTTHUMG00000014309	ENST00000259963.3:c.787A>G	6.37:g.17602895A>G	ENSP00000259963:p.Ile263Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R725	Missense_Mutation	SNP	ENST00000259963.3	37	CCDS4540.1	.	.	.	.	.	.	.	.	.	.	A	11.33	1.607815	0.28623	.	.	ENSG00000137414	ENST00000542476;ENST00000259963	.	.	.	5.14	3.99	0.46301	RDD (1);	0.111766	0.64402	D	0.000020	T	0.15435	0.0372	N	0.11560	0.145	0.50467	D	0.999878	B	0.26577	0.153	B	0.20577	0.03	T	0.06752	-1.0809	9	0.27082	T	0.32	-7.5971	10.2614	0.43430	0.9218:0.0:0.0782:0.0	.	263	Q9UBU6	FA8A1_HUMAN	V	13;263	.	ENSP00000259963:I263V	I	+	1	0	FAM8A1	17710874	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.699000	0.54778	1.912000	0.55364	0.528000	0.53228	ATA		0.333	FAM8A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039950.1			G	17602895	A	G	17602895	3	3	647	1	0	0	0	0	1	0	0	0	5656	449	16	3	793	3	FAM8A1	6	17602895	Missense_Mutation	SNP	A	TCGA-KM-8439-01A-11D-2310-10	32	17602895	153512172	17	40095			1	94		3	3	48	N	G_C_A	2.284128e-09
FAM8A1	51439	mdanderson.org	37	chr6	17602910	17602910	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	tctttataaaagcaaccattGtcttaagcattatgcacctc	4	10	2	0	rs144013791	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr6:17602910G>A	ENST00000259963.3	+	2	857	c.802G>A	c.(802-804)Gtc>Atc	p.V268I		NM_016255.2	NP_057339.1	Q9UBU6	FA8A1_HUMAN	family with sequence similarity 8, member A1	268	RDD.					integral component of membrane (GO:0016021)				endometrium(1)|large_intestine(2)|lung(3)	6	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.143)	all cancers(50;0.176)|Epithelial(50;0.204)			AGCAACCATTGTCTTAAGCAT	0.343																																																0													129	131	130					6																	17602910		2203	4299	6502	SO:0001583	missense	51439			AF097027	CCDS4540.1	6p23	2010-11-22			ENSG00000137414	ENSG00000137414			16372	protein-coding gene	gene with protein product						11707071	Standard	NM_016255		Approved	AHCP	uc003ncc.3	Q9UBU6	OTTHUMG00000014309	ENST00000259963.3:c.802G>A	6.37:g.17602910G>A	ENSP00000259963:p.Val268Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2R725	Missense_Mutation	SNP	ENST00000259963.3	37	CCDS4540.1	.	.	.	.	.	.	.	.	.	.	G	16.46	3.129586	0.56721	.	.	ENSG00000137414	ENST00000542476;ENST00000259963	.	.	.	5.14	5.14	0.70334	RDD (1);	0.294262	0.32068	N	0.006636	T	0.14657	0.0354	N	0.12746	0.255	0.38313	D	0.943307	P	0.44776	0.843	B	0.40659	0.336	T	0.03619	-1.1019	9	0.17832	T	0.49	-14.4303	10.2941	0.43613	0.1541:0.0:0.8459:0.0	.	268	Q9UBU6	FA8A1_HUMAN	I	18;268	.	ENSP00000259963:V268I	V	+	1	0	FAM8A1	17710889	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.361000	0.52306	2.361000	0.80049	0.650000	0.86243	GTC		0.343	FAM8A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039950.1			A	17602910	G	A	17602910	3	1	647	1	0	0	0	0	1	0	0	0	5656	1377	48	2	808	2	FAM8A1	6	17602910	Missense_Mutation	SNP	G	TCGA-KM-8439-01A-11D-2310-10	15	17602910	153512157	18	40096			1	94		3	3	48	N	G_C_A	2.284128e-09
C6orf134	79969	broad.mit.edu	37	chr6	30610646	30610646	+	Frame_Shift_Del	DEL	T	T	-													0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	gctccagcagcctgggaaacTcaccagaacgaggtcccctc							TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr6:30610646delT	ENST00000376485.4	+	10	856	c.826delT	c.(826-828)tcafs	p.S276fs	ATAT1_ENST00000376483.4_Frame_Shift_Del_p.S276fs|ATAT1_ENST00000468713.1_Intron|ATAT1_ENST00000329992.8_Frame_Shift_Del_p.S276fs|ATAT1_ENST00000318999.7_Frame_Shift_Del_p.S253fs|ATAT1_ENST00000376478.2_Frame_Shift_Del_p.S253fs|ATAT1_ENST00000330083.5_Frame_Shift_Del_p.S264fs|ATAT1_ENST00000319027.5_Frame_Shift_Del_p.S253fs					alpha tubulin acetyltransferase 1											cervix(1)|endometrium(1)|large_intestine(1)|lung(1)|ovary(3)|prostate(1)|upper_aerodigestive_tract(1)	9						CCTGGGAAACTCACCAGAACG	0.682																																																0													25	20	22					6																	30610646		2201	4298	6499	SO:0001589	frameshift_variant	79969			AK023220	CCDS4683.2, CCDS54978.1, CCDS59002.1	6p21.32	2014-06-17	2010-10-11	2010-10-11	ENSG00000137343	ENSG00000137343	2.3.1.108		21186	protein-coding gene	gene with protein product	"alpha-tubulin N-acetyltransferase"	615556	"chromosome 6 open reading frame 134"	C6orf134		20829795	Standard	NM_024909		Approved	FLJ13158, Em:AB023049.7, MEC17	uc003nqv.3	Q5SQI0	OTTHUMG00000031219	ENST00000376485.4:c.826delT	6.37:g.30610646delT	ENSP00000365668:p.Ser276fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000376485.4	37																																																																																					0.682	ATAT1-002	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000076449.2	NM_024909		-	30610646	T	-	30610646	7	5	647	1	0	1	0	1	0	0	0	0	2332	1551	54	0	864	0	C6orf134	6	30610646	Frame_Shift_Del	DEL	T	TCGA-KM-8439-01A-11D-2310-10	13007736	30610646	140504421	19	40097										
MUC21	394263	mdanderson.org	37	chr6	30955201	30955201	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	ccagcacagtgtccagtgggGccagcactgccaccaattct	10	15	1	0	rs2508018	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr6:30955201G>A	ENST00000376296.3	+	2	1490	c.1249G>A	c.(1249-1251)Gcc>Acc	p.A417T	MUC21_ENST00000486149.2_5'UTR	NM_001010909.2	NP_001010909.2	Q5SSG8	MUC21_HUMAN	mucin 21, cell surface associated	417	28 X 15 AA approximate tandem repeats.|Ser-rich.			A -> I (in Ref. 3; AAQ88781 and 4; CAQ08321). {ECO:0000305}.	cellular protein metabolic process (GO:0044267)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-substrate adhesion (GO:0010812)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(4)|breast(1)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(3)|prostate(4)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	42						GTCCAGTGGGGCCAGCACTGC	0.627													g|||	404	0.0806709	0.0749	0.1427	5008	,	,		20374	0.0556		0.0805	False		,,,				2504	0.0706															0													140	136	137					6																	30955201		2203	4300	6503	SO:0001583	missense	394263			AK056612	CCDS34388.1	6p21.33	2008-05-14	2008-05-14	2008-05-14	ENSG00000204544	ENSG00000204544		"Mucins"	21661	protein-coding gene	gene with protein product	"epiglycanin"		"chromosome 6 open reading frame 205"	C6orf205		17977904	Standard	NM_001010909		Approved	bCX31G15.2	uc003nsh.2	Q5SSG8	OTTHUMG00000031216	ENST00000376296.3:c.1249G>A	6.37:g.30955201G>A	ENSP00000365473:p.Ala417Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B0UZT7|B4DQ55|C9JMK2|D9N007|Q0VGF1|Q3B7T2|Q5SS94|Q6UXC5	Missense_Mutation	SNP	ENST00000376296.3	37	CCDS34388.1	217	0.09935897435897435	48	0.0975609756097561	60	0.16574585635359115	55	0.09615384615384616	54	0.0712401055408971	g	0.076	-1.192559	0.01607	.	.	ENSG00000204544	ENST00000450707;ENST00000376296	T	0.01287	5.05	3.58	-7.16	0.01516	.	.	.	.	.	T	0.00178	0.0005	N	0.04508	-0.205	0.09310	N	1	B	0.11235	0.004	B	0.09377	0.004	T	0.45026	-0.9289	9	0.06625	T	0.88	-0.4275	6.7193	0.23321	0.1341:0.0:0.3783:0.4876	rs2508018;rs2508018	417	Q5SSG8	MUC21_HUMAN	T	267;417	ENSP00000365473:A417T	ENSP00000365473:A417T	A	+	1	0	MUC21	31063180	0.000000	0.05858	0.000000	0.03702	0.029000	0.11900	-1.607000	0.02070	-2.884000	0.00318	0.586000	0.80456	GCC		0.627	MUC21-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000128579.3	NM_001010909		A	30955201	G	A	30955201	3	1	647	1	0	0	0	0	1	0	0	0	9984	1203	42	2	1255	2	MUC21	6	30955201	Missense_Mutation	SNP	G	TCGA-KM-8439-01A-11D-2310-10	344555	30955201	140159866	20	40098										
FAM26F	441168	mdanderson.org	37	chr6	116783330	116783330	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	gcacgtggcgcctgctcaccGgatgctgctccagcgcccgc	13	18	1	0	rs1057192	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr6:116783330G>A	ENST00000368605.1	+	2	333	c.238G>A	c.(238-240)Gga>Aga	p.G80R	FAM26F_ENST00000368606.3_Intron|RP1-93H18.6_ENST00000476099.1_RNA	NM_001010919.1	NP_001010919.1	Q5R3K3	FA26F_HUMAN	family with sequence similarity 26, member F	80			G -> R (in dbSNP:rs1057192).		ion transport (GO:0006811)	integral component of membrane (GO:0016021)				large_intestine(2)|lung(1)	3				GBM - Glioblastoma multiforme(226;0.0402)|all cancers(137;0.0627)|OV - Ovarian serous cystadenocarcinoma(136;0.0655)|Epithelial(106;0.231)		CCTGCTCACCGGATGCTGCTC	0.721													G|||	1200	0.239617	0.0628	0.17	5008	,	,		13100	0.3651		0.2485	False		,,,				2504	0.3896															0								G	ARG/GLY	285,3437		11,263,1587	4	4	4		238	4.2	1	6	dbSNP_86	4	1331,5787		122,1087,2350	yes	missense	FAM26F	NM_001010919.1	125	133,1350,3937	AA,AG,GG		18.6991,7.6572,14.9077	probably-damaging	80/316	116783330	1616,9224	1861	3559	5420	SO:0001583	missense	441168			AF086130	CCDS34519.1, CCDS64506.1	6q22.1	2007-06-20			ENSG00000188820	ENSG00000188820			33391	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 187"	C6orf187			Standard	NM_001010919		Approved	RP1-93H18.5, OTTHUMP00000017061, OTTHUMP00000017062, dJ93H18.5	uc003pwv.4	Q5R3K3	OTTHUMG00000015438	ENST00000368605.1:c.238G>A	6.37:g.116783330G>A	ENSP00000357594:p.Gly80Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B9EJB0|Q5R3K4	Missense_Mutation	SNP	ENST00000368605.1	37	CCDS34519.1	492	0.22527472527472528	23	0.046747967479674794	64	0.17679558011049723	209	0.36538461538461536	196	0.25857519788918204	G	19.26	3.793370	0.70452	0.076572	0.186991	ENSG00000188820	ENST00000368605	T	0.24908	1.83	5.1	4.22	0.49857	.	0.060943	0.64402	D	0.000004	T	0.45498	0.1345	M	0.83223	2.63	0.09310	P	0.999999384292	D	0.89917	1.0	D	0.79784	0.993	T	0.59150	-0.7508	9	0.87932	D	0	-20.7189	15.7243	0.77743	0.0:0.137:0.863:0.0	rs1057192;rs3173147	80	Q5R3K3	FA26F_HUMAN	R	80	ENSP00000357594:G80R	ENSP00000357594:G80R	G	+	1	0	FAM26F	116890023	1.000000	0.71417	1.000000	0.80357	0.014000	0.08584	4.925000	0.63425	1.372000	0.46190	0.491000	0.48974	GGA		0.721	FAM26F-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041946.1	NM_001010919		A	116783330	G	A	116783330	3	1	647	1	0	0	0	0	1	0	0	0	5558	1117	39	1	240	1	FAM26F	6	116783330	Missense_Mutation	SNP	G	TCGA-KM-8439-01A-11D-2310-10	85828129	116783330	54331737	21	40099										
EYA4	2070	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr6	133789819	133789819	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	cgatggcacaccctcttcaaCctctacttatcagttgcagg	7	14	4	0			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr6:133789819C>A	ENST00000367895.5	+	11	1384	c.920C>A	c.(919-921)aCc>aAc	p.T307N	EYA4_ENST00000452339.2_Missense_Mutation_p.T253N|EYA4_ENST00000355167.3_Missense_Mutation_p.T307N|EYA4_ENST00000355286.6_Missense_Mutation_p.T284N|EYA4_ENST00000525849.1_Missense_Mutation_p.T284N|EYA4_ENST00000531901.1_Missense_Mutation_p.T307N|EYA4_ENST00000431403.2_Missense_Mutation_p.T307N|EYA4_ENST00000430974.2_Missense_Mutation_p.T253N	NM_004100.4	NP_004091.3	O95677	EYA4_HUMAN	EYA transcriptional coactivator and phosphatase 4	307					anatomical structure morphogenesis (GO:0009653)|chromatin modification (GO:0016568)|DNA repair (GO:0006281)|inner ear development (GO:0048839)|middle ear morphogenesis (GO:0042474)|regulation of transcription, DNA-templated (GO:0006355)|sensory perception of sound (GO:0007605)|transcription, DNA-templated (GO:0006351)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|protein tyrosine phosphatase activity (GO:0004725)			breast(1)|central_nervous_system(3)|endometrium(5)|kidney(2)|large_intestine(11)|lung(25)|skin(1)	48	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		CCCTCTTCAACCTCTACTTAT	0.428																																					Melanoma(57;398 1237 3528 4702 7415)											0													144	134	137					6																	133789819		2203	4300	6503	SO:0001583	missense	2070			Y17114	CCDS5165.1, CCDS5166.1, CCDS43506.1, CCDS75521.1, CCDS75523.1	6q23	2014-09-17	2014-06-19		ENSG00000112319	ENSG00000112319		"Protein tyrosine phosphatases / Asp-based PTPs"	3522	protein-coding gene	gene with protein product		603550	"eyes absent (Drosophila) homolog 4", "eyes absent homolog 4 (Drosophila)"	DFNA10, CMD1J		9887327, 11159937	Standard	NM_004100		Approved		uc003qed.4	O95677	OTTHUMG00000015602	ENST00000367895.5:c.920C>A	6.37:g.133789819C>A	ENSP00000356870:p.Thr307Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7F7|O95464|O95679|Q8IW39|Q9NTR7	Missense_Mutation	SNP	ENST00000367895.5	37	CCDS5165.1	.	.	.	.	.	.	.	.	.	.	C	9.714	1.157769	0.21454	.	.	ENSG00000112319	ENST00000452339;ENST00000430974;ENST00000367895;ENST00000355167;ENST00000355286;ENST00000531901;ENST00000525849;ENST00000431403	T;T;T;T;T;T;T;T	0.81415	-1.49;-1.49;-1.49;-1.49;-1.49;-1.49;-1.49;-1.49	5.73	5.73	0.89815	.	0.362558	0.29348	N	0.012408	T	0.64843	0.2635	L	0.29908	0.895	0.40010	D	0.975276	B;B;B;B;B;B	0.26845	0.001;0.001;0.161;0.05;0.004;0.0	B;B;B;B;B;B	0.29176	0.004;0.007;0.099;0.067;0.011;0.004	T	0.61197	-0.7111	10	0.24483	T	0.36	0.0301	20.27	0.98469	0.0:1.0:0.0:0.0	.	307;253;253;284;307;307	F2Z2Y1;E7ESD5;E7EN58;O95677-2;O95677-4;O95677	.;.;.;.;.;EYA4_HUMAN	N	253;253;307;307;284;307;284;307	ENSP00000395916:T253N;ENSP00000388670:T253N;ENSP00000356870:T307N;ENSP00000347294:T307N;ENSP00000347434:T284N;ENSP00000432770:T307N;ENSP00000433219:T284N;ENSP00000404558:T307N	ENSP00000347294:T307N	T	+	2	0	EYA4	133831512	0.982000	0.34865	0.257000	0.24404	0.034000	0.12701	5.675000	0.68123	2.854000	0.98071	0.655000	0.94253	ACC		0.428	EYA4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000042282.2	NM_004100		A	133789819	C	A	133789819	3	1	647	1	0	0	0	0	1	0	0	0	5333	507	18	4	958	4	EYA4	6	133789819	Missense_Mutation	SNP	C	TCGA-KM-8439-01A-11D-2310-10	17006489	133789819	37325248	22	40100										
CYP2W1	54905	mdanderson.org	37	chr7	1023013	1023013	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	tgtcgcaacaggaccggtccCtgatggaggtaagtcaggga	15	9	1	1	rs2272375	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr7:1023013C>T	ENST00000308919.7	+	1	179	c.166C>T	c.(166-168)Ctg>Ttg	p.L56L	CYP2W1_ENST00000340150.6_5'UTR	NM_017781.2	NP_060251.2	Q8TAV3	CP2W1_HUMAN	cytochrome P450, family 2, subfamily W, polypeptide 1	56					small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)	heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen (GO:0016705)			breast(1)|large_intestine(1)|lung(4)|urinary_tract(1)	7		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.74e-15)		GGACCGGTCCCTGATGGAGGT	0.711													C|||	1804	0.360224	0.5098	0.3343	5008	,	,		12799	0.3115		0.2744	False		,,,				2504	0.3149															0								C		1532,2094		347,838,628	11	10	10		166	4.5	0.8	7	dbSNP_100	10	1881,5021		306,1269,1876	no	coding-synonymous	CYP2W1	NM_017781.2		653,2107,2504	TT,TC,CC		27.253,42.2504,32.4183		56/491	1023013	3413,7115	1813	3451	5264	SO:0001819	synonymous_variant	54905			AK000366	CCDS5319.2	7p22.3	2004-07-05			ENSG00000073067	ENSG00000073067		"Cytochrome P450s"	20243	protein-coding gene	gene with protein product		615967					Standard	XM_005249792		Approved	FLJ20359, MGC34287	uc003sjq.1	Q8TAV3	OTTHUMG00000074071	ENST00000308919.7:c.166C>T	7.37:g.1023013C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000308919.7	37	CCDS5319.2																																																																																				0.711	CYP2W1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157249.1	NM_017781		T	1023013	C	T	1023013	2	4	647	1	0	0	0	0	0	0	0	1	4178	680	24	2		2	CYP2W1	7	1023013	Silent	SNP	C	TCGA-KM-8439-01A-11D-2310-10		1023013	158115650	23	40101										
TNRC18	84629	ucsc.edu	37	chr7	5401630	5401630	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	ggaagtccagctccagggcgTccatgtcctccagggaggac	14	13	0	0			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr7:5401630T>C	ENST00000430969.1	-	13	4778	c.4430A>G	c.(4429-4431)gAc>gGc	p.D1477G	TNRC18_ENST00000399537.4_Missense_Mutation_p.D1477G	NM_001080495.2	NP_001073964.2	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	1477							chromatin binding (GO:0003682)			central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(8)	11		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		CTCCAGGGCGTCCATGTCCTC	0.657																																																0													27	30	29					7																	5401630		2077	4195	6272	SO:0001583	missense	84629			U80753	CCDS47534.1	7p22.1	2012-04-17			ENSG00000182095	ENSG00000182095		"Trinucleotide (CAG) repeat containing"	11962	protein-coding gene	gene with protein product						9225980	Standard	NM_001080495		Approved	CAGL79, TNRC18A, KIAA1856	uc003soi.4	O15417	OTTHUMG00000151831	ENST00000430969.1:c.4430A>G	7.37:g.5401630T>C	ENSP00000395538:p.Asp1477Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MX41|Q96JH1|Q96K91	Missense_Mutation	SNP	ENST00000430969.1	37	CCDS47534.1	.	.	.	.	.	.	.	.	.	.	T	20.5	4.001004	0.74818	.	.	ENSG00000182095	ENST00000399537;ENST00000430969;ENST00000399544;ENST00000440081	T;T;T	0.26067	1.91;1.91;1.76	5.52	4.36	0.52297	.	0.146929	0.31734	N	0.007157	T	0.30854	0.0778	M	0.78637	2.42	0.58432	D	0.999996	B	0.22541	0.071	B	0.17722	0.019	T	0.08493	-1.0719	10	0.54805	T	0.06	.	11.2443	0.48987	0.0:0.072:0.0:0.928	.	1477	O15417	TNC18_HUMAN	G	1477;1477;532;10	ENSP00000382452:D1477G;ENSP00000395538:D1477G;ENSP00000395990:D10G	ENSP00000382452:D1477G	D	-	2	0	TNRC18	5368156	1.000000	0.71417	0.948000	0.38648	0.829000	0.46940	3.427000	0.52785	0.933000	0.37291	0.459000	0.35465	GAC		0.657	TNRC18-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding				C	5401630	T	C	5401630	3	2	647	1	0	0	0	0	1	0	0	0	16351	1667	58	3	4548	3	TNRC18	7	5401630	Missense_Mutation	SNP	T	TCGA-KM-8439-01A-11D-2310-10	4378617	5401630	153737033	24	40102										
WIPF3	644150	broad.mit.edu	37	chr7	29924113	29924114	+	Frame_Shift_Ins	INS	-	-	C													0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	taaatcccccagcttccaggINSccccaccgcagaaggccggt							TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr7:29924113_29924114insC	ENST00000409290.1	+	4	1003_1004	c.1003_1004insC	c.(1003-1005)gccfs	p.A335fs	WIPF3_ENST00000242140.5_Frame_Shift_Ins_p.A335fs|WIPF3_ENST00000409123.1_Frame_Shift_Ins_p.A335fs	NM_001080529.2	NP_001073998.2	A6NGB9	WIPF3_HUMAN	WAS/WASL interacting protein family, member 3	335					cell differentiation (GO:0030154)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	cytosol (GO:0005829)				breast(2)|large_intestine(3)|lung(6)|ovary(1)	12						CAGCTTCCAGGCCCCACCGCAG	0.668																																																0																																										SO:0001589	frameshift_variant	644150			AK094250	CCDS56472.1	7p15.1	2006-10-12			ENSG00000122574	ENSG00000122574			22004	protein-coding gene	gene with protein product		612432					Standard	NM_001080529		Approved	CR16, FLJ36931	uc022aaz.1	A6NGB9	OTTHUMG00000152761	ENST00000409290.1:c.1007dupC	7.37:g.29924117_29924117dupC	ENSP00000386878:p.Ala335fs	Somatic		WXS	Illumina HiSeq	Phase_I	B8ZZV2	Frame_Shift_Ins	INS	ENST00000409290.1	37	CCDS56472.1																																																																																				0.668	WIPF3-002	NOVEL	basic|appris_candidate_longest|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000327705.1			C	29924114	-	C	29924113	7	5	647	1	0	1	1	0	0	0	0	0	17381	1203	42	0	1017	0	WIPF3	7	29924113	Frame_Shift_Ins	INS	-	TCGA-KM-8439-01A-11D-2310-10	24522483	29924113	129214550	25	40103										
CALU	813	broad.mit.edu	37	chr7	128407599	128407599	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	ttgagtttcgggataagaacCgtgatgggaagatggacaag	15	4	0	4			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr7:128407599C>T	ENST00000249364.4	+	6	835	c.733C>T	c.(733-735)Cgt>Tgt	p.R245C	CALU_ENST00000542996.2_Missense_Mutation_p.R253C|CALU_ENST00000449187.2_Missense_Mutation_p.R245C|CALU_ENST00000535623.1_3'UTR|CALU_ENST00000479257.1_Missense_Mutation_p.R253C|CALU_ENST00000535011.2_Intron|CALU_ENST00000538546.1_Missense_Mutation_p.R94C	NM_001219.4	NP_001210.1	O43852	CALU_HUMAN	calumenin	245	EF-hand 5. {ECO:0000255|PROSITE- ProRule:PRU00448}.				blood coagulation (GO:0007596)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)	endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|sarcoplasmic reticulum (GO:0016529)	calcium ion binding (GO:0005509)			kidney(2)|large_intestine(3)|lung(5)	10						GGATAAGAACCGTGATGGGAA	0.488																																																0													192	179	183					7																	128407599		2203	4300	6503	SO:0001583	missense	813			AF013759	CCDS5805.1, CCDS47703.1, CCDS56506.1, CCDS56507.1, CCDS56508.1	7q32	2013-01-10			ENSG00000128595	ENSG00000128595		"EF-hand domain containing"	1458	protein-coding gene	gene with protein product		603420				9598325	Standard	NM_001219		Approved		uc003vnq.3	O43852	OTTHUMG00000158274	ENST00000249364.4:c.733C>T	7.37:g.128407599C>T	ENSP00000249364:p.Arg245Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPG9|D6QS48|D6QS49|D6QS50|D6QS51|D6QS52|D6QS53|D6QS54|D6QS55|D6QS56|D6QS57|D6QS58|D6QS59|F5H1Q9|F5H879|O60456|Q6FHB9|Q96RL3|Q9NR43	Missense_Mutation	SNP	ENST00000249364.4	37	CCDS5805.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	15.88|15.88	2.964695|2.964695	0.53507|0.53507	.|.	.|.	ENSG00000128595|ENSG00000128595	ENST00000493278|ENST00000542996;ENST00000538546;ENST00000249364;ENST00000449187;ENST00000479257	.|T;T;T;T;T	.|0.56103	.|0.48;0.48;0.48;0.48;0.48	5.44|5.44	4.56|4.56	0.56223|0.56223	.|EF-hand-like domain (1);	.|0.267158	.|0.39759	.|N	.|0.001271	T|T	0.48519|0.48519	0.1504|0.1504	L|L	0.34521|0.34521	1.04|1.04	0.49798|0.49798	D|D	0.99982|0.99982	.|B;P	.|0.41102	.|0.002;0.738	.|B;P	.|0.44860	.|0.001;0.462	T|T	0.51826|0.51826	-0.8656|-0.8656	5|10	.|0.62326	.|D	.|0.03	-2.8562|-2.8562	13.5218|13.5218	0.61572|0.61572	0.1568:0.8432:0.0:0.0|0.1568:0.8432:0.0:0.0	.|.	.|253;245	.|D6QS48;O43852	.|.;CALU_HUMAN	L|C	76|253;94;245;245;253	.|ENSP00000438248:R253C;ENSP00000438994:R94C;ENSP00000249364:R245C;ENSP00000408838:R245C;ENSP00000420381:R253C	.|ENSP00000249364:R245C	P|R	+|+	2|1	0|0	CALU|CALU	128194835|128194835	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.991000|0.991000	0.79684|0.79684	2.613000|2.613000	0.46351|0.46351	1.287000|1.287000	0.44583|0.44583	0.563000|0.563000	0.77884|0.77884	CCG|CGT		0.488	CALU-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350533.1	NM_001219		T	128407599	C	T	128407599	3	4	647	1	0	0	0	0	1	0	0	0	2596	652	23	1	949	1	CALU	7	128407599	Missense_Mutation	SNP	C	TCGA-KM-8439-01A-11D-2310-10	98483486	128407599	30731064	26	40104										
IRF5	3663	ucsc.edu	37	chr7	128586594	128586594	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	ttactcttttggtgcaggagAggaggaggaagaagaggaag	17	3	1	3			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr7:128586594A>G	ENST00000402030.2	+	4	497	c.425A>G	c.(424-426)gAg>gGg	p.E142G	IRF5_ENST00000249375.4_Missense_Mutation_p.E142G|IRF5_ENST00000473745.1_Missense_Mutation_p.E142G|IRF5_ENST00000357234.5_Missense_Mutation_p.E142G|IRF5_ENST00000477535.1_Missense_Mutation_p.E142G	NM_001098629.1|NM_001098630.1	NP_001092099.1|NP_001092100.1	Q13568	IRF5_HUMAN	interferon regulatory factor 5	142	Poly-Glu.				cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of apoptotic process (GO:0043065)|positive regulation of interferon-alpha production (GO:0032727)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|response to muramyl dipeptide (GO:0032495)|response to peptidoglycan (GO:0032494)|transcription, DNA-templated (GO:0006351)|type I interferon signaling pathway (GO:0060337)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	regulatory region DNA binding (GO:0000975)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(1)|prostate(1)	15						GGTGCAGGAGAGGAGGAGGAA	0.577																																																0													54	46	49					7																	128586594		2203	4300	6503	SO:0001583	missense	3663				CCDS5808.1, CCDS43645.1, CCDS56512.1	7q32	2008-07-18			ENSG00000128604	ENSG00000128604			6120	protein-coding gene	gene with protein product		607218					Standard	XM_005250317		Approved		uc003vog.3	Q13568	OTTHUMG00000158410	ENST00000402030.2:c.425A>G	7.37:g.128586594A>G	ENSP00000385352:p.Glu142Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1J8|A8DUA8|A8DUA9|E7EQ16|E7EW54|Q1A7B4|Q64GA9|Q64GB1|Q64GB2|Q6RCM8|Q9BQF0	Missense_Mutation	SNP	ENST00000402030.2	37	CCDS5808.1	.	.	.	.	.	.	.	.	.	.	A	16.71	3.200015	0.58126	.	.	ENSG00000128604	ENST00000489702;ENST00000357234;ENST00000477535;ENST00000430204;ENST00000402030;ENST00000249375;ENST00000453794;ENST00000473745;ENST00000412326	D;D;D;D;D;D	0.98192	-4.78;-4.45;-4.48;-4.41;-4.41;-4.41	5.31	5.31	0.75309	.	1.083730	0.07191	N	0.855684	D	0.98570	0.9522	L	0.56769	1.78	0.35070	D	0.762351	B;D;B;D;D;B	0.76494	0.049;0.999;0.013;0.998;0.998;0.007	B;D;B;D;D;B	0.78314	0.039;0.991;0.01;0.991;0.979;0.006	D	0.95955	0.8957	10	0.37606	T	0.19	2.376	11.9478	0.52938	1.0:0.0:0.0:0.0	.	142;142;142;142;142;142	B4DLN8;F5H3H8;E7EW54;E9PC81;Q13568;Q13568-2	.;.;.;.;IRF5_HUMAN;.	G	142	ENSP00000418037:E142G;ENSP00000349770:E142G;ENSP00000419950:E142G;ENSP00000385352:E142G;ENSP00000249375:E142G;ENSP00000419149:E142G	ENSP00000249375:E142G	E	+	2	0	IRF5	128373830	1.000000	0.71417	1.000000	0.80357	0.931000	0.56810	1.674000	0.37544	2.134000	0.65973	0.533000	0.62120	GAG		0.577	IRF5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350934.1	NM_001098627		G	128586594	A	G	128586594	3	3	647	1	0	0	0	0	1	0	0	0	7840	304	11	3	435	3	IRF5	7	128586594	Missense_Mutation	SNP	A	TCGA-KM-8439-01A-11D-2310-10	178995	128586594	30552069	27	40105										
CNTLN	54875	broad.mit.edu	37	chr9	17409364	17409364	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	catcccagaaaataagtcctAcggaagatggaaaagaccag	9	9	0	3			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr9:17409364A>G	ENST00000380647.3	+	16	2773	c.2689A>G	c.(2689-2691)Acg>Gcg	p.T897A	CNTLN_ENST00000262360.5_Missense_Mutation_p.T897A|CNTLN_ENST00000425824.1_Missense_Mutation_p.T897A			Q9NXG0	CNTLN_HUMAN	centlein, centrosomal protein	897					centriole-centriole cohesion (GO:0010457)|protein localization to organelle (GO:0033365)	centriole (GO:0005814)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	phosphorelay sensor kinase activity (GO:0000155)|protein binding, bridging (GO:0030674)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)			breast(6)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(5)|kidney(3)|large_intestine(10)|lung(17)|ovary(1)|pancreas(1)|prostate(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	53				GBM - Glioblastoma multiforme(50;6.14e-10)		AATAAGTCCTACGGAAGATGG	0.358																																																0													114	114	114					9																	17409364		1817	4080	5897	SO:0001583	missense	54875			AK000283	CCDS43789.1, CCDS47953.1	9p22.2-p22.1	2008-11-11	2008-02-08	2008-02-08	ENSG00000044459	ENSG00000044459			23432	protein-coding gene	gene with protein product		611870	"chromosome 9 open reading frame 101", "chromosome 9 open reading frame 39"	C9orf101, C9orf39		18086554	Standard	XM_005251492		Approved	FLJ20276, bA340N12.1, OTTHUMG00000019597	uc003zmy.3	Q9NXG0	OTTHUMG00000019599	ENST00000380647.3:c.2689A>G	9.37:g.17409364A>G	ENSP00000370021:p.Thr897Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A5Z2X6|Q5VYJ0|Q8N1G9|Q9HAJ5	Missense_Mutation	SNP	ENST00000380647.3	37	CCDS43789.1	.	.	.	.	.	.	.	.	.	.	A	5.196	0.221771	0.09863	.	.	ENSG00000044459	ENST00000380647;ENST00000425824;ENST00000262360	T;T;T	0.17854	2.25;2.25;2.51	5.39	-0.865	0.10662	.	.	.	.	.	T	0.11665	0.0284	L	0.40543	1.245	0.09310	N	1	B;B;B	0.22604	0.072;0.0;0.0	B;B;B	0.24541	0.054;0.001;0.001	T	0.43163	-0.9408	9	0.08837	T	0.75	.	8.7416	0.34560	0.5684:0.0:0.4316:0.0	.	897;897;897	Q9NXG0;C9J1F9;Q9NXG0-2	CNTLN_HUMAN;.;.	A	897	ENSP00000370021:T897A;ENSP00000392798:T897A;ENSP00000262360:T897A	ENSP00000262360:T897A	T	+	1	0	CNTLN	17399364	0.014000	0.17966	0.056000	0.19401	0.994000	0.84299	0.053000	0.14184	-0.319000	0.08652	0.482000	0.46254	ACG		0.358	CNTLN-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000051793.3	NM_017738		G	17409364	A	G	17409364	3	3	647	1	0	0	0	0	1	0	0	0	3641	391	14	3	2781	3	CNTLN	9	17409364	Missense_Mutation	SNP	A	TCGA-KM-8439-01A-11D-2310-10		17409364	123804067	28	40106										
HSPA14	51182	broad.mit.edu	37	chr10	14890641	14890641	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	caagctcagaaatacatcgcGgaaagtaaatgtttagtgag	10	6	1	2	rs550196167	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr10:14890641G>A	ENST00000378372.3	+	4	494	c.255G>A	c.(253-255)gcG>gcA	p.A85A		NM_016299.2	NP_057383.2	Q0VDF9	HSP7E_HUMAN	heat shock 70kDa protein 14	85			A -> V (in a breast cancer sample; somatic mutation). {ECO:0000269|PubMed:16959974}.		'de novo' cotranslational protein folding (GO:0051083)	cytosol (GO:0005829)|membrane (GO:0016020)	ATP binding (GO:0005524)			breast(4)|endometrium(2)|kidney(2)|large_intestine(3)|lung(4)|ovary(2)	17						AATACATCGCGGAAAGTAAAT	0.328													G|||	4	0.000798722	0.0	0.0	5008	,	,		15226	0.0		0.0	False		,,,				2504	0.0041															0													107	94	99					10																	14890641		2203	4299	6502	SO:0001819	synonymous_variant	51182			AF112210	CCDS7103.1, CCDS60487.1	10p13	2011-09-02			ENSG00000187522	ENSG00000187522		"Heat shock proteins / HSP70"	29526	protein-coding gene	gene with protein product		610369				12477932	Standard	NM_016299		Approved	HSP70-4, HSP70L1	uc001ind.4	Q0VDF9	OTTHUMG00000017712	ENST00000378372.3:c.255G>A	10.37:g.14890641G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K8F8|B0YIY9|Q9P0X2|Q9UI07	Silent	SNP	ENST00000378372.3	37	CCDS7103.1	.	.	.	.	.	.	.	.	.	.	G	7.783	0.710013	0.15239	.	.	ENSG00000187522	ENST00000441647	.	.	.	5.89	-1.69	0.08186	.	.	.	.	.	T	0.39279	0.1072	.	.	.	0.43885	D	0.996505	.	.	.	.	.	.	T	0.28776	-1.0033	4	.	.	.	1.9634	1.2653	0.02010	0.47:0.1264:0.1488:0.2548	.	.	.	.	Q	74	.	.	R	+	2	0	HSPA14	14930647	0.001000	0.12720	0.105000	0.21289	0.995000	0.86356	-0.269000	0.08596	-0.193000	0.10415	0.655000	0.94253	CGG		0.328	HSPA14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046910.1	NM_016299		A	14890641	G	A	14890641	2	1	647	1	0	0	0	0	0	0	0	1	7414	1103	39	1		1	HSPA14	10	14890641	Silent	SNP	G	TCGA-KM-8439-01A-11D-2310-10		14890641	120644106	29	40107										
ECHS1	1892	hgsc.bcm.edu	37	chr10	135186806	135186806	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	ggggcctcagcgggccgcggAcgcaggacagcaggacacgc	18	14	1	0	rs10466126	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr10:135186806A>G	ENST00000368547.3	-	1	387	c.32T>C	c.(31-33)gTc>gCc	p.V11A	MIR3944_ENST00000581277.1_RNA	NM_004092.3	NP_004083.3	P30084	ECHM_HUMAN	enoyl CoA hydratase, short chain, 1, mitochondrial	11			V -> A (in dbSNP:rs10466126). {ECO:0000269|PubMed:8012501, ECO:0000269|PubMed:9073515}.		cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation (GO:0006635)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	enoyl-CoA hydratase activity (GO:0004300)	p.V11A(1)		NS(1)|central_nervous_system(1)|kidney(1)|large_intestine(2)|lung(1)|ovary(2)|prostate(1)|skin(1)	10		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;1.62e-06)|OV - Ovarian serous cystadenocarcinoma(35;5.75e-06)|Epithelial(32;7.58e-06)		CGGGCCGCGGACGCAGGACAG	0.731													a|||	3385	0.675919	0.2829	0.6988	5008	,	,		4830	0.9355		0.7674	False		,,,				2504	0.8292				GBM(132;1720 1771 5373 10277 21402)											1	Substitution - Missense(1)	NS(1)							ALA/VAL	1391,2679		274,843,918	9	14	12		32	-2.2	0	10	dbSNP_119	12	5886,2076		2263,1360,358	yes	missense	ECHS1	NM_004092.3	64	2537,2203,1276	GG,GA,AA		26.0739,34.1769,39.5196	benign	11/291	135186806	7277,4755	2035	3981	6016	SO:0001583	missense	1892				CCDS7681.1	10q26.2-q26.3	2010-05-04	2010-04-30		ENSG00000127884	ENSG00000127884	4.2.1.17		3151	protein-coding gene	gene with protein product		602292	"enoyl Coenzyme A hydratase, short chain, 1, mitochondrial"			8012501	Standard	NM_004092		Approved	SCEH	uc001lmu.3	P30084	OTTHUMG00000019320	ENST00000368547.3:c.32T>C	10.37:g.135186806A>G	ENSP00000357535:p.Val11Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O00739|Q5VWY1|Q96H54	Missense_Mutation	SNP	ENST00000368547.3	37	CCDS7681.1	1504	0.6886446886446886	143	0.29065040650406504	246	0.6795580110497238	528	0.9230769230769231	587	0.7744063324538258	a	3.615	-0.078697	0.07141	0.341769	0.739261	ENSG00000127884	ENST00000368547	T	0.61980	0.06	3.77	-2.17	0.07059	.	7.595850	0.03474	N	0.214060	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.30387	-0.9980	9	0.08179	T	0.78	.	5.2902	0.15723	0.257:0.3372:0.4058:0.0	rs10466126;rs11542964;rs17348892	11	P30084	ECHM_HUMAN	A	11	ENSP00000357535:V11A	ENSP00000357535:V11A	V	-	2	0	ECHS1	135036796	0.001000	0.12720	0.002000	0.10522	0.007000	0.05969	-0.071000	0.11505	-0.255000	0.09486	-0.857000	0.03018	GTC		0.731	ECHS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051156.1			G	135186806	A	G	135186806	3	3	647	1	0	0	0	0	1	0	0	0	4898	275	10	3	872	3	ECHS1	10	135186806	Missense_Mutation	SNP	A	TCGA-KM-8439-01A-11D-2310-10	120296165	135186806	347941	30	40108										
TUB	7275	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr11	8120345	8120345	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	agttcactgtttatgacaatGgagtcaaccctcagaaggcc	9	10	3	2			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr11:8120345G>A	ENST00000299506.2	+	9	1188	c.1039G>A	c.(1039-1041)Gga>Aga	p.G347R	TUB_ENST00000305253.4_Missense_Mutation_p.G402R|TUB_ENST00000534099.1_Missense_Mutation_p.G353R	NM_177972.2	NP_813977.1	P50607	TUB_HUMAN	tubby bipartite transcription factor	347					multicellular organismal macromolecule metabolic process (GO:0044259)|phagocytosis (GO:0006909)|phototransduction (GO:0007602)|positive regulation of phagocytosis (GO:0050766)|response to hormone (GO:0009725)|retina development in camera-type eye (GO:0060041)|sensory perception of sound (GO:0007605)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	G-protein coupled photoreceptor activity (GO:0008020)|protein complex binding (GO:0032403)			breast(1)|cervix(1)|endometrium(9)|large_intestine(7)|lung(5)|ovary(1)|stomach(1)|upper_aerodigestive_tract(1)	26		all_lung(207;6.91e-20)|Lung NSC(207;3.36e-17)		Epithelial(150;1.69e-62)|BRCA - Breast invasive adenocarcinoma(625;8.54e-06)|LUSC - Lung squamous cell carcinoma(625;0.000184)		TTATGACAATGGAGTCAACCC	0.517											OREG0020732	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													167	148	155					11																	8120345		2201	4296	6497	SO:0001583	missense	7275			U54644	CCDS7786.1, CCDS7787.1	11p15.5	2013-08-06	2013-08-06		ENSG00000166402	ENSG00000166402			12406	protein-coding gene	gene with protein product		601197	"tubby (mouse) homolog", "tubby homolog (mouse)"			8612280	Standard	NM_003320		Approved	rd5	uc001mfy.3	P50607	OTTHUMG00000165690	ENST00000299506.2:c.1039G>A	11.37:g.8120345G>A	ENSP00000299506:p.Gly347Arg	Somatic	646	WXS	Illumina HiSeq	Phase_I	D3DQU4|O00293|Q6B007	Missense_Mutation	SNP	ENST00000299506.2	37	CCDS7787.1	.	.	.	.	.	.	.	.	.	.	G	28.0	4.884132	0.91814	.	.	ENSG00000166402	ENST00000534099;ENST00000305253;ENST00000299506	D;D;D	0.96587	-4.06;-4.06;-4.06	5.12	5.12	0.69794	Tubby, C-terminal (4);	0.000000	0.85682	D	0.000000	D	0.98356	0.9454	M	0.87547	2.89	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.99;0.998;0.998	D	0.99264	1.0891	10	0.72032	D	0.01	0.6721	18.9192	0.92518	0.0:0.0:1.0:0.0	.	353;347;402	E9PQR4;P50607;P50607-2	.;TUB_HUMAN;.	R	353;402;347	ENSP00000434400:G353R;ENSP00000305426:G402R;ENSP00000299506:G347R	ENSP00000299506:G347R	G	+	1	0	TUB	8076921	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.869000	0.99810	2.523000	0.85059	0.555000	0.69702	GGA		0.517	TUB-003	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385823.1	NM_003320		A	8120345	G	A	8120345	3	1	647	1	0	0	0	0	1	0	0	0	16754	1349	47	2	1284	2	TUB	11	8120345	Missense_Mutation	SNP	G	TCGA-KM-8439-01A-11D-2310-10		8120345	126886171	31	40109										
OR5M10	390167	broad.mit.edu	37	chr11	56344713	56344713	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	agaaggataagtgaaaggtcAgcagtgtctgagagagccca	14	6	2	4	rs140389540	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr11:56344713A>T	ENST00000526812.2	-	1	550	c.485T>A	c.(484-486)cTg>cAg	p.L162Q		NM_001004741.1	NP_001004741.1	Q6IEU7	OR5MA_HUMAN	olfactory receptor, family 5, subfamily M, member 10	162						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			central_nervous_system(1)|cervix(1)|endometrium(2)|large_intestine(2)|lung(15)|upper_aerodigestive_tract(2)|urinary_tract(2)	25						GTGAAAGGTCAGCAGTGTCTG	0.468													A|||	9	0.00179712	0.0068	0.0	5008	,	,		20628	0.0		0.0	False		,,,				2504	0.0															0								A	GLN/LEU	60,3982		0,60,1961	141	137	139		485	4	0.4	11	dbSNP_134	139	1,8375		0,1,4187	yes	missense	OR5M10	NM_001004741.1	113	0,61,6148	TT,TA,AA		0.0119,1.4844,0.4912	probably-damaging	162/316	56344713	61,12357	2021	4188	6209	SO:0001583	missense	390167			BK004515	CCDS53630.1	11q11	2012-08-09				ENSG00000254834		"GPCR / Class A : Olfactory receptors"	15290	protein-coding gene	gene with protein product							Standard	NM_001004741		Approved		uc001niz.1	Q6IEU7		ENST00000526812.2:c.485T>A	11.37:g.56344713A>T	ENSP00000436004:p.Leu162Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B9EIL9	Missense_Mutation	SNP	ENST00000526812.2	37	CCDS53630.1	4	0.0018315018315018315	4	0.008130081300813009	0	0.0	0	0.0	0	0.0	A	14.64	2.594840	0.46318	0.014844	1.19E-4	ENSG00000254834	ENST00000526812	T	0.00202	8.56	4.04	4.04	0.47022	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.00328	0.0010	M	0.70842	2.15	0.26437	N	0.97585	D	0.76494	0.999	D	0.78314	0.991	T	0.55159	-0.8184	9	0.32370	T	0.25	.	7.7792	0.29056	0.7875:0.2125:0.0:0.0	.	162	Q6IEU7	OR5MA_HUMAN	Q	162	ENSP00000436004:L162Q	ENSP00000436004:L162Q	L	-	2	0	OR5M10	56101289	0.000000	0.05858	0.364000	0.25888	0.012000	0.07955	0.260000	0.18424	1.816000	0.52996	0.514000	0.50259	CTG		0.468	OR5M10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391609.1	NM_001004741		T	56344713	A	T	56344713	3	4	647	1	0	0	0	0	1	0	0	0	11180	188	7	5	466	5	OR5M10	11	56344713	Missense_Mutation	SNP	A	TCGA-KM-8439-01A-11D-2310-10	48224368	56344713	78661803	32	40110										
MS4A14	84689	broad.mit.edu	37	chr11	60165391	60165391	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	tatttgcacttaattacatcGgtttctcccaaagacttccc	4	12	1	1	rs368053345		TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr11:60165391G>A	ENST00000300187.6	+	2	482	c.205G>A	c.(205-207)Ggt>Agt	p.G69S	MS4A14_ENST00000531783.1_Missense_Mutation_p.G69S|MS4A14_ENST00000531787.1_Intron|MS4A14_ENST00000395005.2_Missense_Mutation_p.G69S|MS4A14_ENST00000395001.1_5'UTR	NM_032597.4	NP_115986.3	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member 14	69						integral component of membrane (GO:0016021)				autonomic_ganglia(1)|breast(4)|cervix(1)|endometrium(2)|kidney(5)|large_intestine(9)|lung(31)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	62						TAATTACATCGGTTTCTCCCA	0.433													c|||	1	0.000199681	0.0	0.0	5008	,	,		20648	0.001		0.0	False		,,,				2504	0.0															0													172	155	161					11																	60165391		2203	4300	6503	SO:0001583	missense	84689			AY584610	CCDS31569.1, CCDS41652.1, CCDS58136.1, CCDS73295.1	11q12.2	2008-04-10	2008-04-10	2008-04-10		ENSG00000166928			30706	protein-coding gene	gene with protein product			"membrane-spanning 4-domains, subfamily A, member 16"	MS4A16			Standard	NM_032597		Approved	NYD-SP21, FLJ32856, DKFZp434H092	uc031qbd.1	Q96JA4		ENST00000300187.6:c.205G>A	11.37:g.60165391G>A	ENSP00000300187:p.Gly69Ser	Somatic		WXS	Illumina HiSeq	Phase_I	E9PJE3|Q2TVT5|Q3B7W3|Q86XH8|Q9NTC2	Missense_Mutation	SNP	ENST00000300187.6	37	CCDS31569.1	.	.	.	.	.	.	.	.	.	.	c	14.63	2.593541	0.46214	.	.	ENSG00000166928	ENST00000300187;ENST00000395005;ENST00000526375;ENST00000531783	T;T;T;T	0.28255	4.66;1.62;4.66;4.66	4.73	-9.46	0.00597	.	2.873630	0.00892	N	0.002244	T	0.08758	0.0217	N	0.01874	-0.695	0.09310	N	0.999999	B;B	0.09022	0.001;0.002	B;B	0.01281	0.0;0.0	T	0.23332	-1.0191	10	0.21014	T	0.42	7.4637	2.2494	0.04040	0.1554:0.43:0.1417:0.2729	.	69;69	Q96JA4-2;Q96JA4	.;M4A14_HUMAN	S	69	ENSP00000300187:G69S;ENSP00000378453:G69S;ENSP00000435764:G69S;ENSP00000433761:G69S	ENSP00000300187:G69S	G	+	1	0	MS4A14	59921967	0.000000	0.05858	0.000000	0.03702	0.007000	0.05969	-2.184000	0.01254	-2.949000	0.00294	-2.276000	0.00273	GGT		0.433	MS4A14-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000395383.2			A	60165391	G	A	60165391	3	1	647	1	0	0	0	0	1	0	0	0	9865	1116	39	1	211	1	MS4A14	11	60165391	Missense_Mutation	SNP	G	TCGA-KM-8439-01A-11D-2310-10	3820678	60165391	74841125	33	40111										
PLCB3	5331	mdanderson.org	37	chr11	64026685	64026685	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	tctgccctgagcgagagctcCgcggccaccgagccctcctc	11	19	1	2	rs28395882	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr11:64026685C>T	ENST00000540288.1	+	13	1597	c.1494C>T	c.(1492-1494)tcC>tcT	p.S498S	PLCB3_ENST00000325234.5_Silent_p.S431S|PLCB3_ENST00000279230.6_Silent_p.S498S	NM_000932.2	NP_000923.1	Q01970	PLCB3_HUMAN	phospholipase C, beta 3 (phosphatidylinositol-specific)	498					inositol phosphate metabolic process (GO:0043647)|intracellular signal transduction (GO:0035556)|lipid catabolic process (GO:0016042)|regulation of systemic arterial blood pressure (GO:0003073)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)	cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)|protein complex (GO:0043234)	calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|phosphatidylinositol phospholipase C activity (GO:0004435)|phospholipase C activity (GO:0004629)|signal transducer activity (GO:0004871)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(14)|ovary(1)|pancreas(1)|prostate(3)|urinary_tract(1)	33						GCGAGAGCTCCGCGGCCACCG	0.706													C|||	865	0.172724	0.0234	0.147	5008	,	,		12937	0.1339		0.3012	False		,,,				2504	0.3006															0								C	,	242,4066		8,226,1920	9	11	11		1494,1293	-9.8	0	11	dbSNP_126	11	2553,5907		423,1707,2100	no	coding-synonymous,coding-synonymous	PLCB3	NM_000932.2,NM_001184883.1	,	431,1933,4020	TT,TC,CC		30.1773,5.6175,21.8907	,	498/1235,431/1168	64026685	2795,9973	2154	4230	6384	SO:0001819	synonymous_variant	5331			Z26649	CCDS8064.1, CCDS53654.1	11q13	2008-03-18			ENSG00000149782	ENSG00000149782	3.1.4.11		9056	protein-coding gene	gene with protein product		600230				7849701	Standard	NM_000932		Approved		uc009ypg.2	Q01970	OTTHUMG00000167816	ENST00000540288.1:c.1494C>T	11.37:g.64026685C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A5PKZ6|G5E960|Q8N1A4	Silent	SNP	ENST00000540288.1	37	CCDS8064.1																																																																																				0.706	PLCB3-002	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396405.1			T	64026685	C	T	64026685	2	4	647	1	0	0	0	0	0	0	0	1	12036	639	23	1		1	PLCB3	11	64026685	Silent	SNP	C	TCGA-KM-8439-01A-11D-2310-10	3861294	64026685	70979831	34	40112										
GOLGA3	2802	broad.mit.edu	37	chr12	133357472	133357472	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	gcttcatctggcgatcctccTcttctttgcgctgcaaaact	7	14	4	0			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr12:133357472T>C	ENST00000450791.2	-	17	3677	c.3494A>G	c.(3493-3495)gAg>gGg	p.E1165G	GOLGA3_ENST00000456883.2_Missense_Mutation_p.E1165G|GOLGA3_ENST00000204726.3_Missense_Mutation_p.E1165G			Q08378	GOGA3_HUMAN	golgin A3	1165					intra-Golgi vesicle-mediated transport (GO:0006891)	cytosol (GO:0005829)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extrinsic component of Golgi membrane (GO:0090498)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi transport complex (GO:0017119)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	transporter activity (GO:0005215)			breast(1)|central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(4)|lung(33)|ovary(3)|pancreas(1)|prostate(4)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	64	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GCGATCCTCCTCTTCTTTGCG	0.542																																																0													159	127	138					12																	133357472		2203	4300	6503	SO:0001583	missense	2802			AF485338	CCDS9281.1, CCDS53846.1	12q24.33	2010-02-12	2010-02-12		ENSG00000090615	ENSG00000090615			4426	protein-coding gene	gene with protein product	"SY2/SY10 protein", "Golgi complex-associated protein of 170 kD"	602581	"golgi autoantigen, golgin subfamily a, 3"			8315394, 15829563	Standard	NM_001172557		Approved	golgin-160, GCP170, MEA-2	uc001ukz.1	Q08378	OTTHUMG00000168023	ENST00000450791.2:c.3494A>G	12.37:g.133357472T>C	ENSP00000410378:p.Glu1165Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKX6|O43241|Q6P9C7|Q86XW3|Q8TDA9|Q8WZA3	Missense_Mutation	SNP	ENST00000450791.2	37	CCDS9281.1	.	.	.	.	.	.	.	.	.	.	T	28.6	4.938390	0.92526	.	.	ENSG00000090615	ENST00000204726;ENST00000450791;ENST00000456883	T;T;T	0.31769	1.48;1.48;1.48	5.61	5.61	0.85477	.	0.044464	0.85682	D	0.000000	T	0.54431	0.1858	M	0.66939	2.045	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.997;0.999	T	0.55811	-0.8082	10	0.54805	T	0.06	.	15.4487	0.75257	0.0:0.0:0.0:1.0	.	1165;1165	Q08378-2;Q08378	.;GOGA3_HUMAN	G	1165	ENSP00000204726:E1165G;ENSP00000410378:E1165G;ENSP00000409303:E1165G	ENSP00000204726:E1165G	E	-	2	0	GOLGA3	131867545	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	7.487000	0.81328	2.123000	0.65237	0.523000	0.50628	GAG		0.542	GOLGA3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000397569.2	NM_005895		C	133357472	T	C	133357472	3	2	647	1	0	0	0	0	1	0	0	0	6561	1551	54	3	1030	3	GOLGA3	12	133357472	Missense_Mutation	SNP	T	TCGA-KM-8439-01A-11D-2310-10		133357472	494423	35	40113										
TPP2	7174	broad.mit.edu	37	chr13	103328696	103328696	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	gtaaataaaatgtatgggagAggccttaaatttgcaactaa	9	4	0	1			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr13:103328696A>G	ENST00000376065.4	+	28	3627	c.3591A>G	c.(3589-3591)agA>agG	p.R1197R	TPP2_ENST00000466153.1_3'UTR|TPP2_ENST00000376052.3_Silent_p.R1210R	NM_003291.2	NP_003282.2	P29144	TPP2_HUMAN	tripeptidyl peptidase II	1197					antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|protein polyubiquitination (GO:0000209)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	aminopeptidase activity (GO:0004177)|endopeptidase activity (GO:0004175)|serine-type endopeptidase activity (GO:0004252)|tripeptidyl-peptidase activity (GO:0008240)			breast(2)|endometrium(5)|kidney(2)|large_intestine(12)|lung(21)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	52	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TGTATGGGAGAGGCCTTAAAT	0.264																																																0													61	62	62					13																	103328696		2200	4296	6496	SO:0001819	synonymous_variant	7174			M55169	CCDS9502.1	13q32-q33	2008-02-05			ENSG00000134900	ENSG00000134900	3.4.14.10		12016	protein-coding gene	gene with protein product		190470				1670990	Standard	NM_003291		Approved		uc001vpi.4	P29144	OTTHUMG00000017305	ENST00000376065.4:c.3591A>G	13.37:g.103328696A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VZU8	Silent	SNP	ENST00000376065.4	37	CCDS9502.1																																																																																				0.264	TPP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045683.2			G	103328696	A	G	103328696	2	3	647	1	0	0	0	0	0	0	0	1	16424	301	11	3		3	TPP2	13	103328696	Silent	SNP	A	TCGA-KM-8439-01A-11D-2310-10		103328696	11841182	36	40114										
ZNF629	23361	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr16	30794552	30794552	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	ggtcctcgcgcaggtgagtcCgctggtgcttgatgagggtg	18	9	0	3			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr16:30794552C>T	ENST00000262525.4	-	3	1304	c.1097G>A	c.(1096-1098)cGg>cAg	p.R366Q		NM_001080417.1	NP_001073886.1	Q9UEG4	ZN629_HUMAN	zinc finger protein 629	366					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(8)|ovary(1)|prostate(3)|urinary_tract(1)	22			Colorectal(24;0.198)			CAGGTGAGTCCGCTGGTGCTT	0.662																																																0													33	34	34					16																	30794552		2197	4300	6497	SO:0001583	missense	23361			AB002324	CCDS45463.1	16p11.2	2013-01-08				ENSG00000102870		"Zinc fingers, C2H2-type"	29008	protein-coding gene	gene with protein product			"zinc finger protein 65"	ZNF65		9205841	Standard	NM_001080417		Approved	KIAA0326	uc002dzs.1	Q9UEG4		ENST00000262525.4:c.1097G>A	16.37:g.30794552C>T	ENSP00000262525:p.Arg366Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q15938	Missense_Mutation	SNP	ENST00000262525.4	37	CCDS45463.1	.	.	.	.	.	.	.	.	.	.	C	19.74	3.883279	0.72410	.	.	ENSG00000102870	ENST00000262525	T	0.24723	1.84	5.59	5.59	0.84812	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.42294	D	0.000729	T	0.50650	0.1628	M	0.67397	2.05	0.35010	D	0.756778	D	0.76494	0.999	D	0.69479	0.964	T	0.61515	-0.7047	10	0.72032	D	0.01	-41.13	18.352	0.90342	0.0:1.0:0.0:0.0	.	366	Q9UEG4	ZN629_HUMAN	Q	366	ENSP00000262525:R366Q	ENSP00000262525:R366Q	R	-	2	0	ZNF629	30702053	0.000000	0.05858	0.991000	0.47740	0.994000	0.84299	0.578000	0.23773	2.629000	0.89072	0.561000	0.74099	CGG		0.662	ZNF629-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000434291.1	NM_015309		T	30794552	C	T	30794552	3	4	647	1	0	0	0	0	1	0	0	0	18065	652	23	1	1516	1	ZNF629	16	30794552	Missense_Mutation	SNP	C	TCGA-KM-8439-01A-11D-2310-10		30794552	59560201	37	40115										
CHST6	4166	broad.mit.edu	37	chr16	75512651	75512651	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	cgtcctcagagtacacaggcCggtagcccagcagctgcagc	12	15	1	1			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr16:75512651C>T	ENST00000332272.4	-	3	1255	c.1076G>A	c.(1075-1077)cGg>cAg	p.R359Q	RP11-77K12.4_ENST00000530512.3_RNA|CHST6_ENST00000390664.2_Missense_Mutation_p.R359Q	NM_021615.4	NP_067628.1	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O) sulfotransferase 6	359					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate metabolic process (GO:0042339)|N-acetylglucosamine metabolic process (GO:0006044)|small molecule metabolic process (GO:0044281)|sulfur compound metabolic process (GO:0006790)	Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	N-acetylglucosamine 6-O-sulfotransferase activity (GO:0001517)			central_nervous_system(1)|cervix(1)|endometrium(1)|large_intestine(1)|lung(7)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	17						GTACACAGGCCGGTAGCCCAG	0.662																																																0													53	52	52					16																	75512651		2198	4300	6498	SO:0001583	missense	4166			AF280086	CCDS10918.1	16q22	2008-02-05			ENSG00000183196	ENSG00000183196		"Sulfotransferases, membrane-bound"	6938	protein-coding gene	gene with protein product		605294		MCDC1		8644739, 11017086	Standard	NM_021615		Approved		uc002fef.3	Q9GZX3	OTTHUMG00000137612	ENST00000332272.4:c.1076G>A	16.37:g.75512651C>T	ENSP00000328983:p.Arg359Gln	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUK3	Missense_Mutation	SNP	ENST00000332272.4	37	CCDS10918.1	.	.	.	.	.	.	.	.	.	.	C	11.45	1.643316	0.29246	.	.	ENSG00000183196	ENST00000332272;ENST00000390664	D;D	0.99741	-6.6;-6.6	4.8	3.85	0.44370	.	0.286130	0.34676	N	0.003771	D	0.98080	0.9367	L	0.50919	1.6	0.32964	D	0.521424	P	0.35411	0.5	B	0.23150	0.044	D	0.99974	1.2126	10	0.26408	T	0.33	.	7.3925	0.26917	0.0:0.8004:0.0:0.1996	.	359	Q9GZX3	CHST6_HUMAN	Q	359	ENSP00000328983:R359Q;ENSP00000375079:R359Q	ENSP00000328983:R359Q	R	-	2	0	CHST6	74070152	0.978000	0.34361	0.995000	0.50966	0.593000	0.36681	1.106000	0.31098	1.021000	0.39600	0.591000	0.81541	CGG		0.662	CHST6-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000435478.1	NM_021615		T	75512651	C	T	75512651	3	4	647	1	0	0	0	0	1	0	0	0	3410	652	23	1	115	1	CHST6	16	75512651	Missense_Mutation	SNP	C	TCGA-KM-8439-01A-11D-2310-10	44718099	75512651	14842102	38	40116										
GUCY2D	3000	mdanderson.org	37	chr17	7906519	7906519	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	tgcagccccccgccctctccGccgtgttcacggtgggggtc	13	18	2	0	rs61749665	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr17:7906519G>T	ENST00000254854.4	+	2	304	c.154G>T	c.(154-156)Gcc>Tcc	p.A52S		NM_000180.3	NP_000171.1	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	52			A -> S (in LCA1; unknown pathological significance; dbSNP:rs61749665). {ECO:0000269|PubMed:21602930, ECO:0000269|PubMed:8944027}.		intracellular signal transduction (GO:0035556)|phototransduction, visible light (GO:0007603)|receptor guanylyl cyclase signaling pathway (GO:0007168)|regulation of rhodopsin mediated signaling pathway (GO:0022400)|rhodopsin mediated signaling pathway (GO:0016056)|visual perception (GO:0007601)	integral component of plasma membrane (GO:0005887)|nuclear outer membrane (GO:0005640)|photoreceptor disc membrane (GO:0097381)	ATP binding (GO:0005524)|GTP binding (GO:0005525)|guanylate cyclase activity (GO:0004383)|protein kinase activity (GO:0004672)|receptor activity (GO:0004872)			skin(1)	1		Prostate(122;0.157)				cgccctctccgccgTGTTCAC	0.776													G|||	2083	0.415935	0.1369	0.4107	5008	,	,		7307	0.6935		0.327	False		,,,				2504	0.6022															0								G	SER/ALA	396,2736		31,334,1201	2	2	2	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	154	0.2	0	17	dbSNP_129	2	1601,4981		200,1201,1890	no	missense	GUCY2D	NM_000180.3	99	231,1535,3091	TT,TG,GG		24.3239,12.6437,20.558	benign	52/1104	7906519	1997,7717	1566	3291	4857	SO:0001583	missense	3000			L26921	CCDS11127.1	17p13.1	2013-06-06			ENSG00000132518	ENSG00000132518			4689	protein-coding gene	gene with protein product		600179	"cone rod dystrophy 6"	CORD6, LCA, GUC2D, GUC1A4		1356371, 12552567	Standard	NM_000180		Approved	retGC, RETGC-1, ROS-GC1, CYGD, LCA1	uc002gjt.2	Q02846	OTTHUMG00000108169	ENST00000254854.4:c.154G>T	17.37:g.7906519G>T	ENSP00000254854:p.Ala52Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6LEA7	Missense_Mutation	SNP	ENST00000254854.4	37	CCDS11127.1	823	0.3768315018315018	61	0.12398373983739837	132	0.36464088397790057	383	0.6695804195804196	247	0.3258575197889182	G	10.96	1.499163	0.26861	0.126437	0.243239	ENSG00000132518	ENST00000254854	D	0.83075	-1.68	4.65	0.187	0.15109	.	0.608923	0.13562	N	0.378720	T	0.00012	0.0000	M	0.65498	2.005	0.80722	P	0.0	B	0.27117	0.168	B	0.21546	0.035	T	0.48681	-0.9014	9	0.09590	T	0.72	.	3.8844	0.09091	0.2473:0.0:0.4661:0.2866	rs61749665	52	Q02846	GUC2D_HUMAN	S	52	ENSP00000254854:A52S	ENSP00000254854:A52S	A	+	1	0	GUCY2D	7847244	0.000000	0.05858	0.000000	0.03702	0.026000	0.11368	-0.039000	0.12124	-0.193000	0.10415	-0.188000	0.12872	GCC		0.776	GUCY2D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000226973.2			T	7906519	G	T	7906519	3	4	647	1	0	0	0	0	1	0	0	0	6904	1087	38	4	156	4	GUCY2D	17	7906519	Missense_Mutation	SNP	G	TCGA-KM-8439-01A-11D-2310-10		7906519	73288691	39	40117										
WNT3	7473	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	44847153	44847153	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	gggtagccgggctcaccgtgCggcccgcctcgttgttgtgc	16	14	1	0			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr17:44847153C>T	ENST00000225512.5	-	3	746	c.584G>A	c.(583-585)cGc>cAc	p.R195H		NM_030753.4	NP_110380.1	P56703	WNT3_HUMAN	wingless-type MMTV integration site family, member 3	195					anterior/posterior axis specification (GO:0009948)|axon guidance (GO:0007411)|canonical Wnt signaling pathway (GO:0060070)|canonical Wnt signaling pathway involved in mesenchymal stem cell differentiation (GO:0044338)|canonical Wnt signaling pathway involved in osteoblast differentiation (GO:0044339)|cell fate commitment (GO:0045165)|cell morphogenesis (GO:0000902)|cellular response to retinoic acid (GO:0071300)|dorsal/ventral axis specification (GO:0009950)|embryonic forelimb morphogenesis (GO:0035115)|embryonic hindlimb morphogenesis (GO:0035116)|gamete generation (GO:0007276)|head morphogenesis (GO:0060323)|limb bud formation (GO:0060174)|mammary gland epithelium development (GO:0061180)|mesoderm formation (GO:0001707)|negative regulation of axon extension involved in axon guidance (GO:0048843)|neuron differentiation (GO:0030182)|positive regulation of collateral sprouting in absence of injury (GO:0048697)|positive regulation of gene expression (GO:0010628)|Spemann organizer formation at the anterior end of the primitive streak (GO:0060064)	endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi lumen (GO:0005796)|plasma membrane (GO:0005886)|proteinaceous extracellular matrix (GO:0005578)	frizzled binding (GO:0005109)|receptor agonist activity (GO:0048018)			endometrium(2)|large_intestine(6)|lung(4)|prostate(1)	13			BRCA - Breast invasive adenocarcinoma(9;0.0257)			GCTCACCGTGCGGCCCGCCTC	0.701																																																0													30	29	29					17																	44847153		2201	4299	6500	SO:0001583	missense	7473			AY009397	CCDS11505.1	17q21-q22	2013-02-28				ENSG00000108379		"Wingless-type MMTV integration sites", "Endogenous ligands"	12782	protein-coding gene	gene with protein product	"WNT-3 proto-oncogene protein"	165330		INT4		8244403	Standard	NM_030753		Approved	MGC131950, MGC138321, MGC138323	uc002ikv.3	P56703		ENST00000225512.5:c.584G>A	17.37:g.44847153C>T	ENSP00000225512:p.Arg195His	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M237|Q9H1J9	Missense_Mutation	SNP	ENST00000225512.5	37	CCDS11505.1	.	.	.	.	.	.	.	.	.	.	C	35	5.452269	0.96223	.	.	ENSG00000108379	ENST00000225512	D	0.81739	-1.53	4.49	4.49	0.54785	.	0.000000	0.85682	D	0.000000	D	0.93048	0.7787	H	0.97465	4.01	0.80722	D	1	D	0.76494	0.999	D	0.66602	0.945	D	0.95710	0.8757	10	0.87932	D	0	.	17.3636	0.87358	0.0:1.0:0.0:0.0	.	195	P56703	WNT3_HUMAN	H	195	ENSP00000225512:R195H	ENSP00000225512:R195H	R	-	2	0	WNT3	42202321	1.000000	0.71417	1.000000	0.80357	0.792000	0.44763	7.608000	0.82898	2.330000	0.79161	0.561000	0.74099	CGC		0.701	WNT3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440427.1	NM_030753		T	44847153	C	T	44847153	3	4	647	1	0	0	0	0	1	0	0	0	17400	768	27	1	491	1	WNT3	17	44847153	Missense_Mutation	SNP	C	TCGA-KM-8439-01A-11D-2310-10	36940634	44847153	36348057	40	40118										
LAMA3	3909	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr18	21404467	21404467	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	tccctggaaatggttttgcaGacccattttcaatcacacca	6	12	2	1			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr18:21404467G>T	ENST00000313654.9	+	21	2750	c.2509G>T	c.(2509-2511)Gac>Tac	p.D837Y	LAMA3_ENST00000399516.3_Missense_Mutation_p.D837Y	NM_198129.1	NP_937762.1	Q16787	LAMA3_HUMAN	laminin, alpha 3	837	Domain IV 1 (domain IV B).				cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|endodermal cell differentiation (GO:0035987)|epidermis development (GO:0008544)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of embryonic development (GO:0045995)	basement membrane (GO:0005604)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)|laminin-5 complex (GO:0005610)	structural molecule activity (GO:0005198)	p.D837N(1)		NS(2)|breast(4)|central_nervous_system(3)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(24)|lung(54)|ovary(8)|prostate(6)|skin(7)|urinary_tract(4)	128	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)					TGGTTTTGCAGACCCATTTTC	0.458																																																1	Substitution - Missense(1)	lung(1)											128	127	127					18																	21404467		1909	4116	6025	SO:0001583	missense	3909			L34155	CCDS11880.1, CCDS42419.1, CCDS45838.1, CCDS59307.1	18q11.2	2013-03-01	2002-08-29		ENSG00000053747	ENSG00000053747		"Laminins"	6483	protein-coding gene	gene with protein product		600805	"laminin, alpha 3 (nicein (150kD), kalinin (165kD), BM600 (150kD), epilegrin)"	LAMNA		8077230	Standard	NM_000227		Approved	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin	uc002kuq.3	Q16787	OTTHUMG00000131874	ENST00000313654.9:c.2509G>T	18.37:g.21404467G>T	ENSP00000324532:p.Asp837Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ33|Q13679|Q13680|Q6VU67|Q6VU68|Q6VU69|Q76E14|Q96TG0	Missense_Mutation	SNP	ENST00000313654.9	37	CCDS42419.1	.	.	.	.	.	.	.	.	.	.	G	15.94	2.981565	0.53827	.	.	ENSG00000053747	ENST00000313654;ENST00000399516;ENST00000416669	T;T	0.18502	2.22;2.21	5.95	4.13	0.48395	.	.	.	.	.	T	0.16557	0.0398	L	0.36672	1.1	0.80722	D	1	P;P	0.46706	0.818;0.883	B;B	0.39876	0.23;0.312	T	0.01416	-1.1360	9	0.87932	D	0	.	16.6665	0.85254	0.0:0.2449:0.7551:0.0	.	837;837	Q6VU67;Q16787	.;LAMA3_HUMAN	Y	837;837;835	ENSP00000324532:D837Y;ENSP00000382432:D837Y	ENSP00000324532:D837Y	D	+	1	0	LAMA3	19658465	1.000000	0.71417	0.707000	0.30419	0.968000	0.65278	4.162000	0.58177	0.814000	0.34374	0.655000	0.94253	GAC		0.458	LAMA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254824.3	NM_000227, NM_198129		T	21404467	G	T	21404467	3	4	647	1	0	0	0	0	1	0	0	0	8614	942	33	4	2591	4	LAMA3	18	21404467	Missense_Mutation	SNP	G	TCGA-KM-8439-01A-11D-2310-10		21404467	56672781	41	40119										
TSHZ1	10194	broad.mit.edu	37	chr18	72997839	72997839	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	agctccgcccccacccccacAccccccacctgccccgtcag	5	27	1	0			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr18:72997839A>C	ENST00000580243.1	+	2	825	c.477A>C	c.(475-477)acA>acC	p.T159T	TSHZ1_ENST00000322038.5_Silent_p.T114T			Q6ZSZ6	TSH1_HUMAN	teashirt zinc finger homeobox 1	159	Ser-rich.				anterior/posterior pattern specification (GO:0009952)|middle ear morphogenesis (GO:0042474)|regulation of transcription, DNA-templated (GO:0006355)|soft palate development (GO:0060023)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(11)|liver(1)|lung(14)|ovary(1)|skin(6)|upper_aerodigestive_tract(2)	42		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		ccacccccacaccccccacct	0.642																																																0													8	9	9					18																	72997839		2191	4276	6467	SO:0001819	synonymous_variant	10194			AF039698	CCDS12009.1	18q22.3	2013-11-20	2007-07-16	2006-03-14	ENSG00000179981	ENSG00000179981		"Teashirt zinc fingers", "Homeoboxes / ZF class", "Zinc fingers, C2H2-type"	10669	protein-coding gene	gene with protein product		614427	"serologically defined colon cancer antigen 33", "teashirt zinc finger 1", "teashirt family zinc finger 1"	SDCCAG33		17586487	Standard	NM_005786		Approved	NY-CO-33, TSH1	uc002lly.4	Q6ZSZ6	OTTHUMG00000132859	ENST00000580243.1:c.477A>C	18.37:g.72997839A>C		Somatic		WXS	Illumina HiSeq	Phase_I	O60534|Q4LE29|Q53EU4	Silent	SNP	ENST00000580243.1	37																																																																																					0.642	TSHZ1-005	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000444913.1	NM_005786		C	72997839	A	C	72997839	2	2	647	1	0	0	0	0	0	0	0	1	16635	146	6	5		5	TSHZ1	18	72997839	Silent	SNP	A	TCGA-KM-8439-01A-11D-2310-10	51593372	72997839	5079409	42	40120										
UPF1	5976	ucsc.edu	37	chr19	18976950	18976950	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	ggcttaccagcatggcggggTgacggggctgtcccagtatt	16	10	0	1			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr19:18976950T>G	ENST00000599848.1	+	23	3577	c.3368T>G	c.(3367-3369)gTg>gGg	p.V1123G	UPF1_ENST00000262803.5_Missense_Mutation_p.V1112G			Q92900	RENT1_HUMAN	UPF1 regulator of nonsense transcripts homolog (yeast)	1123	Gln/Ser-rich.				ATP catabolic process (GO:0006200)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|dosage compensation by inactivation of X chromosome (GO:0009048)|gene expression (GO:0010467)|histone mRNA catabolic process (GO:0071044)|mRNA export from nucleus (GO:0006406)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process (GO:0000956)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|regulation of translational termination (GO:0006449)|RNA metabolic process (GO:0016070)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|exon-exon junction complex (GO:0035145)|nucleus (GO:0005634)|supraspliceosomal complex (GO:0044530)	ATP binding (GO:0005524)|ATP-dependent RNA helicase activity (GO:0004004)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(11)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	40						CATGGCGGGGTGACGGGGCTG	0.617																																																0													38	34	35					19																	18976950		2203	4300	6503	SO:0001583	missense	5976			AF074016	CCDS12386.1, CCDS74315.1	19p13.2-p13.11	2012-02-29	2006-02-07	2006-02-07	ENSG00000005007	ENSG00000005007			9962	protein-coding gene	gene with protein product	"UP Frameshift 1", "smg-2 homolog, nonsense mediated mRNA decay factor (C. elegans)"	601430	"regulator of nonsense transcripts 1"	RENT1		8855285, 9064659	Standard	XM_005260015		Approved	HUPF1, KIAA0221, NORF1, pNORF1, smg-2	uc002nkf.3	Q92900		ENST00000599848.1:c.3368T>G	19.37:g.18976950T>G	ENSP00000470142:p.Val1123Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O00239|O43343|Q86Z25|Q92842	Missense_Mutation	SNP	ENST00000599848.1	37		.	.	.	.	.	.	.	.	.	.	t	19.56	3.850660	0.71719	.	.	ENSG00000005007	ENST00000262803	D	0.90676	-2.71	4.99	4.99	0.66335	.	0.000000	0.85682	D	0.000000	T	0.79811	0.4510	N	0.08118	0	0.80722	D	1	P;P	0.38167	0.487;0.621	B;B	0.34385	0.088;0.181	T	0.80790	-0.1225	10	0.34782	T	0.22	-33.7285	13.4981	0.61438	0.0:0.0:0.0:1.0	.	1123;1112	Q92900;Q92900-2	RENT1_HUMAN;.	G	1112	ENSP00000262803:V1112G	ENSP00000262803:V1112G	V	+	2	0	UPF1	18837950	1.000000	0.71417	0.996000	0.52242	0.966000	0.64601	7.680000	0.84062	1.883000	0.54544	0.398000	0.26397	GTG		0.617	UPF1-002	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000464684.1	NM_002911		G	18976950	T	G	18976950	3	3	647	1	0	0	0	0	1	0	0	0	17015	1696	59	5	3425	5	UPF1	19	18976950	Missense_Mutation	SNP	T	TCGA-KM-8439-01A-11D-2310-10		18976950	40152033	43	40121										
SOX12	6666	mdanderson.org	37	chr20	307249	307249	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	ccgtcggaggacgaggagccGgaggaagaggaggaggaggc	22	7	0	1	rs147752920|rs532036846	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr20:307249G>A	ENST00000342665.2	+	1	1011	c.681G>A	c.(679-681)ccG>ccA	p.P227P	SOX12_ENST00000544632.1_Silent_p.P227P|RP5-1103G7.4_ENST00000442637.1_RNA|RP5-1103G7.4_ENST00000414676.1_RNA	NM_006943.2	NP_008874.2	O15370	SOX12_HUMAN	SRY (sex determining region Y)-box 12	227	Asp/Glu-rich (acidic).|Poly-Glu.				cell fate commitment (GO:0045165)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein-DNA complex assembly (GO:0065004)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|spinal cord development (GO:0021510)	nucleus (GO:0005634)|protein-DNA complex (GO:0032993)	DNA binding (GO:0003677)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II transcription coactivator activity (GO:0001105)|transcription regulatory region sequence-specific DNA binding (GO:0000976)			haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)	2		all_cancers(10;0.000331)|Lung NSC(37;0.0496)|all_lung(30;0.0831)|all_epithelial(17;0.0868)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.149)			acgaggagccggaggaagagg	0.756													G|||	11	0.00219649	0.0	0.0	5008	,	,		9459	0.0		0.0109	False		,,,				2504	0.0															0													8	6	7					20																	307249		1920	3767	5687	SO:0001819	synonymous_variant	6666			U35612	CCDS12995.1	20p13	2008-07-28	2002-07-22	2002-07-26	ENSG00000177732	ENSG00000177732		"SRY (sex determining region Y)-boxes"	11198	protein-coding gene	gene with protein product		601947	"SRY (sex determining region Y)-box 22"	SOX22		9215677	Standard	NM_006943		Approved		uc002wdh.4	O15370	OTTHUMG00000031623	ENST00000342665.2:c.681G>A	20.37:g.307249G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5D038|Q9NUD4	Silent	SNP	ENST00000342665.2	37	CCDS12995.1																																																																																				0.756	SOX12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077435.2	NM_006943		A	307249	G	A	307249	2	1	647	1	0	0	0	0	0	0	0	1	14956	1103	39	1		1	SOX12	20	307249	Silent	SNP	G	TCGA-KM-8439-01A-11D-2310-10		307249	62718271	44	40122										
GDF5	8200	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr20	34021967	34021967	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	aaggggtgcgatgatccagtCgtcccagcccatgtccttga	12	12	0	2			TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr20:34021967C>T	ENST00000374372.1	-	4	1749	c.1246G>A	c.(1246-1248)Gac>Aac	p.D416N	GDF5OS_ENST00000374375.1_Missense_Mutation_p.S4L|GDF5_ENST00000374369.3_Missense_Mutation_p.D416N			P43026	GDF5_HUMAN	growth differentiation factor 5	416					cell-cell signaling (GO:0007267)|chondrocyte differentiation (GO:0002062)|embryonic limb morphogenesis (GO:0030326)|extracellular matrix organization (GO:0030198)|forelimb morphogenesis (GO:0035136)|growth (GO:0040007)|hindlimb morphogenesis (GO:0035137)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of mesenchymal cell apoptotic process (GO:2001054)|negative regulation of neuron apoptotic process (GO:0043524)|positive regulation of chondrocyte differentiation (GO:0032332)|positive regulation of neuron differentiation (GO:0045666)|regulation of multicellular organism growth (GO:0040014)|transforming growth factor beta receptor signaling pathway (GO:0007179)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|plasma membrane (GO:0005886)	growth factor activity (GO:0008083)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(3)|lung(9)|skin(3)	26	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			ATGATCCAGTCGTCCCAGCCC	0.602																																																0													127	110	116					20																	34021967		2203	4300	6503	SO:0001583	missense	8200			X80915	CCDS13254.1	20q11.2	2008-05-22	2007-04-12		ENSG00000125965	ENSG00000125965			4220	protein-coding gene	gene with protein product	"cartilage-derived morphogenetic protein-1"	601146				9288091, 9288098	Standard	NM_000557		Approved	CDMP1, BMP14	uc002xck.1	P43026	OTTHUMG00000032341	ENST00000374372.1:c.1246G>A	20.37:g.34021967C>T	ENSP00000363492:p.Asp416Asn	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5Q2|Q96SB1	Missense_Mutation	SNP	ENST00000374372.1	37	CCDS13254.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	25.7|25.7	4.664367|4.664367	0.88251|0.88251	.|.	.|.	ENSG00000125965|ENSG00000204183	ENST00000374369;ENST00000374372|ENST00000374375	D;D|.	0.89343|.	-2.5;-2.5|.	4.4|4.4	4.4|4.4	0.53042|0.53042	Transforming growth factor-beta, C-terminal (3);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.74604|0.74604	0.3738|0.3738	M|M	0.69248|0.69248	2.105|2.105	0.80722|0.80722	D|D	1|1	D;D|.	0.89917|.	1.0;1.0|.	D;D|.	0.97110|.	1.0;1.0|.	T|T	0.78909|0.78909	-0.2018|-0.2018	10|6	0.87932|0.87932	D|D	0|0	.|.	17.1668|17.1668	0.86818|0.86818	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	416;416|.	F1T0J1;P43026|.	.;GDF5_HUMAN|.	N|L	416|4	ENSP00000363489:D416N;ENSP00000363492:D416N|.	ENSP00000363489:D416N|ENSP00000363495:S4L	D|S	-|+	1|2	0|0	GDF5|GDF5OS	33485381|33485381	1.000000|1.000000	0.71417|0.71417	0.997000|0.997000	0.53966|0.53966	0.997000|0.997000	0.91878|0.91878	7.651000|7.651000	0.83577|0.83577	2.266000|2.266000	0.75297|0.75297	0.462000|0.462000	0.41574|0.41574	GAC|TCG		0.602	GDF5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078875.2			T	34021967	C	T	34021967	3	4	647	1	0	0	0	0	1	0	0	0	6323	884	31	1	263	1	GDF5	20	34021967	Missense_Mutation	SNP	C	TCGA-KM-8439-01A-11D-2310-10	33714718	34021967	29003553	45	40123										
PKDREJ	10343	mdanderson.org;bcgsc.ca	37	chr22	46656278	46656278	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0222222222222222	1	1	0.391356066613799	0	0.407010309278351	1	1	0	gaaagctaaacccacctgtcGtcttcttcaaggacccatca	6	14	4	0	rs117787407	byFrequency	TCGA-KM-8439-01A-11D-2310-10	TCGA-KM-8439-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d3b0b87-5fc5-4d09-9c63-4d5fc4bc46d0	1f433ac7-b321-46a9-87ac-c72ad5b1b4e5	g.chr22:46656278G>A	ENST00000253255.5	-	1	2941	c.2942C>T	c.(2941-2943)aCg>aTg	p.T981M		NM_006071.1	NP_006062.1	Q9NTG1	PKDRE_HUMAN	polycystin (PKD) family receptor for egg jelly	981					acrosome reaction (GO:0007340)|calcium ion transmembrane transport (GO:0070588)|detection of mechanical stimulus (GO:0050982)|neuropeptide signaling pathway (GO:0007218)|regulation of acrosome reaction (GO:0060046)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)			NS(2)|breast(7)|central_nervous_system(1)|cervix(3)|endometrium(4)|kidney(5)|large_intestine(21)|lung(16)|ovary(2)|prostate(6)|skin(4)|upper_aerodigestive_tract(2)	73		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		CCCACCTGTCGTCTTCTTCAA	0.483													G|||	3	0.000599042	0.0	0.0	5008	,	,		22339	0.0		0.003	False		,,,				2504	0.0															0								G	MET/THR	0,4406		0,0,2203	148	143	145		2942	5.2	0.1	22	dbSNP_132	145	1,8599	1.2+/-3.3	0,1,4299	yes	missense	PKDREJ	NM_006071.1	81	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	981/2254	46656278	1,13005	2203	4300	6503	SO:0001583	missense	10343			AF116458	CCDS14073.1	22q13.31	2013-07-31	2013-07-31		ENSG00000130943	ENSG00000130943			9015	protein-coding gene	gene with protein product		604670	"polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly, sea urchin homolog)-like", "polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly homolog, sea urchin)-like", "polycystic kidney disease (polycystin) and REJ homolog (sperm receptor for egg jelly homolog, sea urchin)"			9949214, 10591208	Standard	NM_006071		Approved		uc003bhh.3	Q9NTG1	OTTHUMG00000150493	ENST00000253255.5:c.2942C>T	22.37:g.46656278G>A	ENSP00000253255:p.Thr981Met	Somatic		WXS	Illumina HiSeq	Phase_I	B1AJY3|O95850	Missense_Mutation	SNP	ENST00000253255.5	37	CCDS14073.1	3	0.0013736263736263737	0	0.0	0	0.0	0	0.0	3	0.00395778364116095	G	19.28	3.796581	0.70567	0.0	1.16E-4	ENSG00000130943	ENST00000253255	T	0.54279	0.58	5.18	5.18	0.71444	.	0.000000	0.64402	D	0.000006	T	0.71600	0.3359	M	0.65498	2.005	0.34984	D	0.754398	D	0.89917	1.0	D	0.77004	0.989	T	0.79455	-0.1796	10	0.66056	D	0.02	-18.7004	18.0551	0.89362	0.0:0.0:1.0:0.0	.	981	Q9NTG1	PKDRE_HUMAN	M	981	ENSP00000253255:T981M	ENSP00000253255:T981M	T	-	2	0	PKDREJ	45034942	0.993000	0.37304	0.108000	0.21378	0.082000	0.17680	3.927000	0.56499	2.598000	0.87819	0.655000	0.94253	ACG		0.483	PKDREJ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318466.1	NM_006071		A	46656278	G	A	46656278	3	1	647	1	0	0	0	0	1	0	0	0	11977	1145	40	1	3823	1	PKDREJ	22	46656278	Missense_Mutation	SNP	G	TCGA-KM-8439-01A-11D-2310-10		46656278	4648288	46	40124										
CR1	1378	mdanderson.org	37	chr1	207787831	207787831	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	atagcagtgttccagtgtgtGaacgtgagtagaaagaacta	12	5	0	4			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr1:207787831G>T	ENST00000367049.4	+	40	6658	c.6658G>T	c.(6658-6660)Gaa>Taa	p.E2220*	CR1_ENST00000367052.1_Nonsense_Mutation_p.E1770*|CR1_ENST00000367051.1_Nonsense_Mutation_p.E1770*|CR1_ENST00000367053.1_Nonsense_Mutation_p.E1770*|CR1_ENST00000400960.2_Nonsense_Mutation_p.E1770*	NM_000651.4	NP_000642.3	P17927	CR1_HUMAN	complement component (3b/4b) receptor 1 (Knops blood group)	1770					complement activation, classical pathway (GO:0006958)|complement receptor mediated signaling pathway (GO:0002430)|innate immune response (GO:0045087)|negative regulation of complement activation, alternative pathway (GO:0045957)|negative regulation of complement activation, classical pathway (GO:0045959)|negative regulation of serine-type endopeptidase activity (GO:1900004)|positive regulation of serine-type endopeptidase activity (GO:1900005)|regulation of complement activation (GO:0030449)	cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	complement component C3b binding (GO:0001851)|complement component C3b receptor activity (GO:0004877)|complement component C4b binding (GO:0001855)|complement component C4b receptor activity (GO:0001861)	p.E2220*(6)|p.E1775*(6)		NS(1)|breast(1)|central_nervous_system(1)|endometrium(9)|kidney(11)|large_intestine(13)|lung(33)|ovary(3)|prostate(6)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	82						TCCAGTGTGTGAACGTGAGTA	0.408																																																12	Substitution - Nonsense(12)	kidney(8)|endometrium(4)											131	122	125					1																	207787831		1887	4127	6014	SO:0001587	stop_gained	1378			Y00816	CCDS44308.1, CCDS44309.1	1q32	2014-07-19	2006-01-12		ENSG00000203710	ENSG00000203710		"CD molecules", "Blood group antigens", "Complement system"	2334	protein-coding gene	gene with protein product		120620	"complement component (3b/4b) receptor 1, including Knops blood group system"			1708809	Standard	XM_005273064		Approved	CD35, KN	uc001hfx.3	P17927	OTTHUMG00000036311	ENST00000367049.4:c.6658G>T	1.37:g.207787831G>T	ENSP00000356016:p.Glu2220*	Somatic		WXS	Illumina HiSeq	Phase_I	Q16744|Q16745|Q5SR43|Q5SR45|Q9UQV2	Nonsense_Mutation	SNP	ENST00000367049.4	37	CCDS44308.1	.	.	.	.	.	.	.	.	.	.	G	45	12.061806	0.99632	.	.	ENSG00000203710	ENST00000367052;ENST00000367051;ENST00000367053;ENST00000400960;ENST00000367049	.	.	.	4.29	4.29	0.51040	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.06236	T	0.91	.	12.9543	0.58418	0.0:0.0:1.0:0.0	.	.	.	.	X	1770;1770;1770;1770;2220	.	ENSP00000356016:E2220X	E	+	1	0	CR1	205854454	1.000000	0.71417	0.999000	0.59377	0.893000	0.52053	2.536000	0.45693	2.316000	0.78162	0.436000	0.28706	GAA		0.408	CR1-012	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382527.1	NM_000573		T	207787831	G	T	207787831	4	4	648	1	0	0	0	0	0	1	0	0	3842	1291	45	4	6816	4	CR1	1	207787831	Nonsense_Mutation	SNP	G	TCGA-KM-8440-01A-11D-2310-10		207787831	41462790	1	40125										
EXOC8	149371	ucsc.edu;bcgsc.ca	37	chr1	231473244	231473244	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	aatggctgagctggtacatcTcgctctccaggtaggagatc	12	10	2	2			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr1:231473244T>C	ENST00000360394.2	-	1	334	c.248A>G	c.(247-249)gAg>gGg	p.E83G	SPRTN_ENST00000008440.9_5'Flank|SPRTN_ENST00000295050.7_5'Flank|SPRTN_ENST00000391858.4_5'UTR|EXOC8_ENST00000366645.1_Missense_Mutation_p.E79G	NM_175876.3	NP_787072.2	Q8IYI6	EXOC8_HUMAN	exocyst complex component 8	83					cellular protein localization (GO:0034613)|cellular protein metabolic process (GO:0044267)|exocytosis (GO:0006887)|membrane organization (GO:0061024)|protein transport (GO:0015031)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|exocyst (GO:0000145)|membrane (GO:0016020)|plasma membrane (GO:0005886)				cervix(2)|endometrium(1)|large_intestine(2)|liver(1)|lung(5)|prostate(1)|skin(1)|stomach(1)	14	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				CTGGTACATCTCGCTCTCCAG	0.637																																																0													57	47	50					1																	231473244		2203	4300	6503	SO:0001583	missense	149371			AL117352	CCDS1593.1	1q42.2	2013-01-22			ENSG00000116903	ENSG00000116903			24659	protein-coding gene	gene with protein product		615283				12477932	Standard	NM_175876		Approved	SEC84, EXO84, Exo84p	uc001huq.3	Q8IYI6	OTTHUMG00000038025	ENST00000360394.2:c.248A>G	1.37:g.231473244T>C	ENSP00000353564:p.Glu83Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KU33|Q5TE82	Missense_Mutation	SNP	ENST00000360394.2	37	CCDS1593.1	.	.	.	.	.	.	.	.	.	.	T	21.1	4.095866	0.76870	.	.	ENSG00000116903	ENST00000360394;ENST00000366645	D;D	0.84660	-1.88;-1.88	5.78	4.59	0.56863	.	0.053552	0.64402	D	0.000001	D	0.92198	0.7526	M	0.87269	2.87	0.80722	D	1	D	0.69078	0.997	D	0.68483	0.958	D	0.93047	0.6462	10	0.62326	D	0.03	-27.3345	12.6391	0.56698	0.0:0.0:0.1379:0.8621	.	83	Q8IYI6	EXOC8_HUMAN	G	83;79	ENSP00000353564:E83G;ENSP00000355605:E79G	ENSP00000353564:E83G	E	-	2	0	EXOC8	229539867	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	6.049000	0.71053	2.198000	0.70561	0.528000	0.53228	GAG		0.637	EXOC8-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_175876		C	231473244	T	C	231473244	3	2	648	1	0	0	0	0	1	0	0	0	5313	1551	54	3	1933	3	EXOC8	1	231473244	Missense_Mutation	SNP	T	TCGA-KM-8440-01A-11D-2310-10	23685413	231473244	17777377	2	40126										
BIRC6	57448	broad.mit.edu;mdanderson.org	37	chr2	32694461	32694461	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	actgttttctttcttgtaatAggacactctgttcctgcagt	7	9	3	0			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr2:32694461A>G	ENST00000421745.2	+	30	6261		c.e30-1			NM_016252.3	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat containing 6						apoptotic process (GO:0006915)|labyrinthine layer development (GO:0060711)|mitotic nuclear division (GO:0007067)|negative regulation of apoptotic process (GO:0043066)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|positive regulation of cell proliferation (GO:0008284)|protein phosphorylation (GO:0006468)|protein ubiquitination (GO:0016567)|regulation of cell proliferation (GO:0042127)|regulation of cytokinesis (GO:0032465)|spongiotrophoblast layer development (GO:0060712)	endosome (GO:0005768)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)|midbody (GO:0030496)|spindle pole (GO:0000922)|trans-Golgi network (GO:0005802)	acid-amino acid ligase activity (GO:0016881)|cysteine-type endopeptidase inhibitor activity (GO:0004869)|ubiquitin-protein transferase activity (GO:0004842)			NS(4)|breast(8)|central_nervous_system(3)|endometrium(21)|haematopoietic_and_lymphoid_tissue(1)|kidney(15)|large_intestine(31)|lung(65)|ovary(7)|pancreas(1)|prostate(5)|skin(5)|stomach(1)|urinary_tract(5)	172	Acute lymphoblastic leukemia(172;0.155)					TTCTTGTAATAGGACACTCTG	0.368																																					Pancreas(94;175 1509 16028 18060 45422)											0													82	80	81					2																	32694461		2203	4300	6503	SO:0001630	splice_region_variant	57448			AF265555	CCDS33175.2	2p22.3	2011-01-25	2011-01-25		ENSG00000115760	ENSG00000115760		"Baculoviral IAP repeat containing", "Ubiquitin-conjugating enzymes E2"	13516	protein-coding gene	gene with protein product	"apollon"	605638	"baculoviral IAP repeat-containing 6"			10544019	Standard	NM_016252		Approved	BRUCE	uc010ezu.3	Q9NR09	OTTHUMG00000150528	ENST00000421745.2:c.6128-1A>G	2.37:g.32694461A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9ULD1	Splice_Site	SNP	ENST00000421745.2	37	CCDS33175.2	.	.	.	.	.	.	.	.	.	.	A	23.3	4.395497	0.83011	.	.	ENSG00000115760	ENST00000421745	.	.	.	4.99	4.99	0.66335	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.0416	0.71796	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	BIRC6	32547965	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	9.287000	0.95975	2.014000	0.59158	0.477000	0.44152	.		0.368	BIRC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318769.3	NM_016252	Intron	G	32694461	A	G	32694461	5	3	648	1	0	0	0	0	0	0	1	0	1438	434	15	3	6244	3	BIRC6	2	32694461	Splice_Site	SNP	A	TCGA-KM-8440-01A-11D-2310-10		32694461	210504912	3	40127										
CTNNA2	1496	broad.mit.edu;mdanderson.org	37	chr2	80816475	80816475	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	ggagaaggcaaaaatagctgAgcaggtggagatattccatc	13	6	0	3			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr2:80816475A>T	ENST00000402739.4	+	14	2059	c.2054A>T	c.(2053-2055)gAg>gTg	p.E685V	CTNNA2_ENST00000466387.1_Missense_Mutation_p.E685V|AC008067.2_ENST00000596887.1_RNA|CTNNA2_ENST00000541047.1_Missense_Mutation_p.E685V|AC008067.2_ENST00000609950.1_RNA|CTNNA2_ENST00000361291.4_Missense_Mutation_p.E719V|CTNNA2_ENST00000496558.1_Missense_Mutation_p.E685V|AC008067.2_ENST00000595478.1_RNA|AC008067.2_ENST00000430876.1_RNA|CTNNA2_ENST00000343114.3_Missense_Mutation_p.E364V|CTNNA2_ENST00000540488.1_Missense_Mutation_p.E685V	NM_001282597.1	NP_001269526.1	P26232	CTNA2_HUMAN	catenin (cadherin-associated protein), alpha 2	685					axonogenesis (GO:0007409)|brain morphogenesis (GO:0048854)|dendrite morphogenesis (GO:0048813)|muscle cell differentiation (GO:0042692)|positive regulation of muscle cell differentiation (GO:0051149)|prepulse inhibition (GO:0060134)|radial glia guided migration of Purkinje cell (GO:0021942)|regulation of synapse structural plasticity (GO:0051823)|single organismal cell-cell adhesion (GO:0016337)	actin cytoskeleton (GO:0015629)|adherens junction (GO:0005912)|axon (GO:0030424)|basolateral plasma membrane (GO:0016323)|cell-cell adherens junction (GO:0005913)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|lamellipodium (GO:0030027)	structural constituent of cytoskeleton (GO:0005200)			breast(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(12)|lung(49)|pancreas(4)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	78						AAAATAGCTGAGCAGGTGGAG	0.507																																																0													90	98	95					2																	80816475		2191	4299	6490	SO:0001583	missense	1496				CCDS42703.2, CCDS62944.1, CCDS62945.1, CCDS74531.1	2p12-p11.1	2010-05-04			ENSG00000066032	ENSG00000066032			2510	protein-coding gene	gene with protein product	"cadherin-associated protein, related", "cancer/testis antigen 114"	114025				8432524	Standard	NM_004389		Approved	CAP-R, CT114	uc010ysf.2	P26232	OTTHUMG00000152903	ENST00000402739.4:c.2054A>T	2.37:g.80816475A>T	ENSP00000384638:p.Glu685Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXE5|B7Z2W7|B7Z352|B7Z898|Q4ZFW1|Q53R26|Q53R33|Q53T67|Q53T71|Q53TM8|Q7Z3L1|Q7Z3Y0	Missense_Mutation	SNP	ENST00000402739.4	37		.	.	.	.	.	.	.	.	.	.	A	21.6	4.172010	0.78452	.	.	ENSG00000066032	ENST00000466387;ENST00000496558;ENST00000361291;ENST00000402739;ENST00000541047;ENST00000540488;ENST00000343114	T;T;T;T;T;T;T	0.56611	0.45;0.45;0.45;0.45;0.45;0.45;0.45	5.97	5.97	0.96955	.	0.000000	0.85682	D	0.000000	T	0.72293	0.3442	M	0.77616	2.38	0.80722	D	1	B;D;D;D	0.65815	0.354;0.993;0.991;0.995	B;D;P;D	0.65987	0.355;0.94;0.9;0.931	T	0.73786	-0.3873	9	.	.	.	.	16.4608	0.84044	1.0:0.0:0.0:0.0	.	317;685;685;685	F6KRI5;P26232;P26232-3;P26232-2	.;CTNA2_HUMAN;.;.	V	685;685;719;685;685;685;364	ENSP00000418191:E685V;ENSP00000419295:E685V;ENSP00000355398:E719V;ENSP00000384638:E685V;ENSP00000444675:E685V;ENSP00000441705:E685V;ENSP00000341500:E364V	.	E	+	2	0	CTNNA2	80669986	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.109000	0.94291	2.288000	0.76882	0.533000	0.62120	GAG		0.507	CTNNA2-003	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000328511.4	NM_004389		T	80816475	A	T	80816475	3	4	648	1	0	0	0	0	1	0	0	0	4015	304	11	5	1900	5	CTNNA2	2	80816475	Missense_Mutation	SNP	A	TCGA-KM-8440-01A-11D-2310-10	48122014	80816475	162382898	4	40128										
RNF181	51255	ucsc.edu	37	chr2	85823695	85823695	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	ggggttggtagtagattgggAccaccacctgcctccaccag	13	12	0	1			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr2:85823695A>G	ENST00000306368.4	+	2	170	c.140A>G	c.(139-141)gAc>gGc	p.D47G	RNF181_ENST00000441634.1_Missense_Mutation_p.D47G	NM_016494.3	NP_057578.1	Q9P0P0	RN181_HUMAN	ring finger protein 181	47					protein autoubiquitination (GO:0051865)		ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			lung(1)|stomach(1)	2						GTAGATTGGGACCACCACCTG	0.498																																																0													65	66	66					2																	85823695		2203	4300	6503	SO:0001583	missense	51255			AF151072	CCDS1981.1	2p11.2	2013-01-09			ENSG00000168894	ENSG00000168894		"RING-type (C3HC4) zinc fingers"	28037	protein-coding gene	gene with protein product		612490				11042152	Standard	XM_005264359		Approved	HSPC238	uc002spv.1	Q9P0P0	OTTHUMG00000130182	ENST00000306368.4:c.140A>G	2.37:g.85823695A>G	ENSP00000306906:p.Asp47Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q53H81	Missense_Mutation	SNP	ENST00000306368.4	37	CCDS1981.1	.	.	.	.	.	.	.	.	.	.	A	16.50	3.141952	0.57044	.	.	ENSG00000168894	ENST00000441634;ENST00000306368;ENST00000414390	D;D	0.90504	-2.68;-2.68	5.75	4.58	0.56647	.	0.191798	0.52532	D	0.000063	D	0.85805	0.5782	L	0.47016	1.485	0.41740	D	0.989605	B	0.06786	0.001	B	0.08055	0.003	T	0.79122	-0.1933	10	0.21540	T	0.41	.	11.1994	0.48733	0.8458:0.1542:0.0:0.0	.	47	Q9P0P0	RN181_HUMAN	G	47	ENSP00000412025:D47G;ENSP00000306906:D47G	ENSP00000306906:D47G	D	+	2	0	RNF181	85677206	1.000000	0.71417	0.966000	0.40874	0.041000	0.13682	7.088000	0.76901	0.976000	0.38417	0.533000	0.62120	GAC		0.498	RNF181-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252500.1	NM_016494		G	85823695	A	G	85823695	3	3	648	1	0	0	0	0	1	0	0	0	13478	275	10	3	146	3	RNF181	2	85823695	Missense_Mutation	SNP	A	TCGA-KM-8440-01A-11D-2310-10	5007220	85823695	157375678	5	40129										
RBMS3	27303	broad.mit.edu;bcgsc.ca	37	chr3	29628650	29628650	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	tcctgcagccgcacagaaagCggtagcatctctcaaggcaa	10	13	2	1			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr3:29628650C>T	ENST00000383767.2	+	4	689	c.353C>T	c.(352-354)gCg>gTg	p.A118V	RBMS3_ENST00000383766.2_Missense_Mutation_p.A117V|RBMS3_ENST00000396583.3_Missense_Mutation_p.A118V|RBMS3_ENST00000434693.2_Missense_Mutation_p.A117V|RBMS3_ENST00000273139.9_Missense_Mutation_p.A118V|RBMS3_ENST00000456853.1_Missense_Mutation_p.A118V|RBMS3_ENST00000445033.1_Missense_Mutation_p.A118V|RBMS3_ENST00000452462.1_Missense_Mutation_p.A118V			Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting protein 3	118	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				positive regulation of translation (GO:0045727)	cytoplasm (GO:0005737)	mRNA 3'-UTR binding (GO:0003730)|nucleotide binding (GO:0000166)			breast(1)|central_nervous_system(1)|large_intestine(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)	11		Ovarian(412;0.0956)				GCACAGAAAGCGGTAGCATCT	0.388																																																0													124	131	129					3																	29628650		2203	4300	6503	SO:0001583	missense	27303			AF023259	CCDS33724.1, CCDS33725.1, CCDS33726.1, CCDS54557.1, CCDS54558.1	3p24-p23	2013-02-12	2010-04-20		ENSG00000144642	ENSG00000144642		"RNA binding motif (RRM) containing"	13427	protein-coding gene	gene with protein product	"RNA-binding protein"	605786	"RNA binding motif, single stranded interacting protein"			10675610	Standard	NM_001003793		Approved		uc003cel.3	Q6XE24	OTTHUMG00000155699	ENST00000383767.2:c.353C>T	3.37:g.29628650C>T	ENSP00000373277:p.Ala118Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9S4|B7ZL17|G5E9J9|O75876|Q17RI0|Q6XE23	Missense_Mutation	SNP	ENST00000383767.2	37	CCDS33724.1	.	.	.	.	.	.	.	.	.	.	C	36	5.609392	0.96637	.	.	ENSG00000144642	ENST00000434693;ENST00000396583;ENST00000383767;ENST00000445033;ENST00000273139;ENST00000383766;ENST00000452462;ENST00000456853	T;T;T;T;T;T;T;T	0.62788	-0.0;1.28;-0.0;-0.0;-0.0;1.28;-0.0;1.28	5.77	5.77	0.91146	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.000000	0.85682	D	0.000000	T	0.73799	0.3633	L	0.52011	1.625	0.80722	D	1	D;D;D;D	0.69078	0.997;0.985;0.996;0.99	P;P;P;P	0.62014	0.841;0.897;0.836;0.843	T	0.70392	-0.4884	9	.	.	.	.	19.9655	0.97263	0.0:1.0:0.0:0.0	.	118;118;117;118	G5E9J9;Q6XE24-2;Q6XE24-3;Q6XE24	.;.;.;RBMS3_HUMAN	V	117;118;118;118;118;117;118;118	ENSP00000395592:A117V;ENSP00000379828:A118V;ENSP00000373277:A118V;ENSP00000391934:A118V;ENSP00000273139:A118V;ENSP00000373276:A117V;ENSP00000397926:A118V;ENSP00000400519:A118V	.	A	+	2	0	RBMS3	29603654	1.000000	0.71417	0.990000	0.47175	0.983000	0.72400	7.818000	0.86416	2.732000	0.93576	0.542000	0.68232	GCG		0.388	RBMS3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000341306.1	NM_001003792		T	29628650	C	T	29628650	3	4	648	1	0	0	0	0	1	0	0	0	13163	768	27	1	367	1	RBMS3	3	29628650	Missense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10		29628650	168393780	6	40130										
RAD54L2	23132	broad.mit.edu	37	chr3	51690165	51690165	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	agcgtgcaggagtccttgtgCagaaggtggtcaccacgaca	14	10	1	1			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr3:51690165C>T	ENST00000409535.2	+	19	3330	c.3205C>T	c.(3205-3207)Cag>Tag	p.Q1069*	RAD54L2_ENST00000296477.3_Nonsense_Mutation_p.Q763*	NM_015106.2	NP_055921.2	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2 (S. cerevisiae)	1069						nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|transcription cofactor activity (GO:0003712)			NS(2)|breast(1)|cervix(2)|endometrium(4)|large_intestine(5)|liver(2)|lung(9)|ovary(4)|skin(2)	31				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		AGTCCTTGTGCAGAAGGTGGT	0.493																																																0													73	64	67					3																	51690165		2203	4300	6503	SO:0001587	stop_gained	23132			AB018352	CCDS33765.2	3p21.2	2006-01-17			ENSG00000164080	ENSG00000164080			29123	protein-coding gene	gene with protein product						9872452	Standard	NM_015106		Approved	KIAA0809, SRISNF2L	uc011bdt.2	Q9Y4B4	OTTHUMG00000152936	ENST00000409535.2:c.3205C>T	3.37:g.51690165C>T	ENSP00000386520:p.Gln1069*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TB57|Q9BV54	Nonsense_Mutation	SNP	ENST00000409535.2	37	CCDS33765.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	43|43	9.947530|9.947530	0.99302|0.99302	.|.	.|.	ENSG00000164080|ENSG00000164080	ENST00000432863|ENST00000409535;ENST00000296477	.|.	.|.	.|.	5.68|5.68	5.68|5.68	0.88126|0.88126	.|.	.|0.000000	.|0.85682	.|D	.|0.000000	T|.	0.77785|.	0.4182|.	.|.	.|.	.|.	0.80722|0.80722	A|A	1|1	.|.	.|.	.|.	.|.	.|.	.|.	T|.	0.78448|.	-0.2200|.	3|.	.|0.56958	.|D	.|0.05	-14.7333|-14.7333	18.7862|18.7862	0.91955|0.91955	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|.	.|.	.|.	V|X	897|1069;763	.|.	.|ENSP00000296477:Q763X	A|Q	+|+	2|1	0|0	RAD54L2|RAD54L2	51665205|51665205	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.990000|0.990000	0.78478|0.78478	7.453000|7.453000	0.80700|0.80700	2.677000|2.677000	0.91161|0.91161	0.563000|0.563000	0.77884|0.77884	GCA|CAG		0.493	RAD54L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328700.2	NM_015106		T	51690165	C	T	51690165	4	4	648	1	0	0	0	0	0	1	0	0	13007	711	25	2	3275	2	RAD54L2	3	51690165	Nonsense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10	22061515	51690165	146332265	7	40131										
DGKQ	1609	broad.mit.edu	37	chr4	961063	961063	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	gccttgcccccagcccaggcGtcacaggcctgagaggaagg	14	15	1	1	rs376274353		TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr4:961063G>A	ENST00000273814.3	-	9	1147	c.1074C>T	c.(1072-1074)gaC>gaT	p.D358D	DGKQ_ENST00000502309.1_5'Flank	NM_001347.3	NP_001338.2	P52824	DGKQ_HUMAN	diacylglycerol kinase, theta 110kDa	358					blood coagulation (GO:0007596)|cAMP-mediated signaling (GO:0019933)|G-protein coupled receptor signaling pathway (GO:0007186)|platelet activation (GO:0030168)|protein kinase C signaling (GO:0070528)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to ATP (GO:0033198)|thrombin receptor signaling pathway (GO:0070493)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	activating transcription factor binding (GO:0033613)|ATP binding (GO:0005524)|diacylglycerol kinase activity (GO:0004143)|kinase binding (GO:0019900)|metal ion binding (GO:0046872)|NAD+ kinase activity (GO:0003951)|phospholipase binding (GO:0043274)			breast(1)|endometrium(2)|kidney(2)|lung(2)|prostate(2)	9			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			CAGCCCAGGCGTCACAGGCCT	0.726													G|||	1	0.000199681	0.0	0.0	5008	,	,		10427	0.0		0.0	False		,,,				2504	0.001				Esophageal Squamous(17;537 645 4447 26373)											0								G		0,4126		0,0,2063	8	11	10		1074	-7.6	0	4		10	1,8143		0,1,4071	no	coding-synonymous	DGKQ	NM_001347.2		0,1,6134	AA,AG,GG		0.0123,0.0,0.0081		358/943	961063	1,12269	2063	4072	6135	SO:0001819	synonymous_variant	1609			L38707	CCDS3342.1	4p16.3	2008-08-29	2002-08-29		ENSG00000145214	ENSG00000145214			2856	protein-coding gene	gene with protein product		601207	"diacylglycerol kinase, theta (110kD)"	DAGK4		8617502, 9099683	Standard	NM_001347		Approved	DAGK, DAGK7	uc003gbw.4	P52824	OTTHUMG00000088629	ENST00000273814.3:c.1074C>T	4.37:g.961063G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6P3W4	Silent	SNP	ENST00000273814.3	37	CCDS3342.1	.	.	.	.	.	.	.	.	.	.	G	4.346	0.063712	0.08388	0.0	1.23E-4	ENSG00000145214	ENST00000509465	.	.	.	3.78	-7.55	0.01327	.	.	.	.	.	T	0.23210	0.0561	.	.	.	0.09310	N	1	.	.	.	.	.	.	T	0.19745	-1.0296	4	.	.	.	.	5.4238	0.16415	0.6615:0.1082:0.1219:0.1084	.	.	.	.	M	305	.	.	T	-	2	0	DGKQ	951063	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.351000	0.07711	-2.330000	0.00633	-1.723000	0.00705	ACG		0.726	DGKQ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000200888.1			A	961063	G	A	961063	2	1	648	1	0	0	0	0	0	0	0	1	4475	1136	40	1		1	DGKQ	4	961063	Silent	SNP	G	TCGA-KM-8440-01A-11D-2310-10		961063	190193213	8	40132										
KLB	152831	mdanderson.org	37	chr4	39448542	39448542	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	tacgaccggcagttcaggccCtcacagcgcggggccgtgtc	14	15	2	0	rs7685429	byFrequency	TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr4:39448542C>G	ENST00000257408.4	+	4	2293	c.2196C>G	c.(2194-2196)ccC>ccG	p.P732P		NM_175737.3	NP_783864.1	Q86Z14	KLOTB_HUMAN	klotho beta	732	Glycosyl hydrolase-1 2.				carbohydrate metabolic process (GO:0005975)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell proliferation (GO:0008284)|positive regulation of MAPKKK cascade by fibroblast growth factor receptor signaling pathway (GO:0090080)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	fibroblast growth factor binding (GO:0017134)|hydrolase activity, hydrolyzing O-glycosyl compounds (GO:0004553)			NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(11)|skin(6)	29						AGTTCAGGCCCTCACAGCGCG	0.701													G|||	3832	0.765176	0.7201	0.8516	5008	,	,		16291	0.7212		0.7505	False		,,,				2504	0.8252															0								G		3156,1242		1134,888,177	25	27	26		2196	-2.3	0	4	dbSNP_116	26	6590,1996		2531,1528,234	no	coding-synonymous	KLB	NM_175737.3		3665,2416,411	GG,GC,CC		23.2471,28.2401,24.9384		732/1045	39448542	9746,3238	2199	4293	6492	SO:0001819	synonymous_variant	152831			AB079373	CCDS3451.1	4p14	2008-02-05			ENSG00000134962	ENSG00000134962			15527	protein-coding gene	gene with protein product		611135					Standard	NM_175737		Approved		uc003gua.3	Q86Z14	OTTHUMG00000128577	ENST00000257408.4:c.2196C>G	4.37:g.39448542C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3K8	Silent	SNP	ENST00000257408.4	37	CCDS3451.1																																																																																				0.701	KLB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250429.1	NM_175737		G	39448542	C	G	39448542	2	3	648	1	0	0	0	0	0	0	0	1	8339	668	24	4		4	KLB	4	39448542	Silent	SNP	C	TCGA-KM-8440-01A-11D-2310-10	38487479	39448542	151705734	9	40133										
NUDT9	53343	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr4	88379168	88379168	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	ctgaagctgactgccatgcgTtgtagctgatggtctccgtg	13	10	1	3			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr4:88379168T>C	ENST00000302174.4	+	8	1372	c.1048T>C	c.(1048-1050)Ttg>Ctg	p.L350L	NUDT9_ENST00000473942.1_Silent_p.L300L|RP11-710E1.2_ENST00000609450.1_lincRNA	NM_024047.4	NP_076952.1	Q9BW91	NUDT9_HUMAN	nudix (nucleoside diphosphate linked moiety X)-type motif 9	350					ADP catabolic process (GO:0046032)|IDP catabolic process (GO:0046709)|nucleobase-containing small molecule catabolic process (GO:0034656)|nucleobase-containing small molecule metabolic process (GO:0055086)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|mitochondrial matrix (GO:0005759)	adenosine-diphosphatase activity (GO:0043262)|ADP-ribose diphosphatase activity (GO:0047631)|ADP-sugar diphosphatase activity (GO:0019144)			endometrium(1)|large_intestine(4)|lung(6)	11		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000937)		CTGCCATGCGTTGTAGCTGAT	0.458																																																0													83	72	75					4																	88379168		2203	4300	6503	SO:0001819	synonymous_variant	53343			AY026252	CCDS3620.1, CCDS3621.1	4q22.1	2008-08-29			ENSG00000170502	ENSG00000170502		"Nudix motif containing"	8056	protein-coding gene	gene with protein product		606022				11385575, 12427752	Standard	NM_024047		Approved	MGC3037	uc003hqq.3	Q9BW91	OTTHUMG00000130591	ENST00000302174.4:c.1048T>C	4.37:g.88379168T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NBN1|Q8NCB9|Q8NG25	Silent	SNP	ENST00000302174.4	37	CCDS3620.1																																																																																				0.458	NUDT9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253035.2			C	88379168	T	C	88379168	2	2	648	1	0	0	0	0	0	0	0	1	10753	1722	60	3		3	NUDT9	4	88379168	Silent	SNP	T	TCGA-KM-8440-01A-11D-2310-10	48930626	88379168	102775108	10	40134										
H2AFZ	3015	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr4	100870503	100870503	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	ccacacgtccatgactggtcGtcctagattttaggtgtcga	10	11	0	2			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr4:100870503G>T	ENST00000296417.5	-	3	339	c.122C>A	c.(121-123)aCg>aAg	p.T41K	DNAJB14_ENST00000471738.1_5'Flank|RP11-15B17.1_ENST00000501976.2_RNA|H2AFZ_ENST00000529158.1_5'UTR|DNAJB14_ENST00000442697.2_5'Flank|RP11-15B17.1_ENST00000507494.1_RNA|RP11-15B17.1_ENST00000514624.1_RNA	NM_002106.3	NP_002097.1	P0C0S5	H2AZ_HUMAN	H2A histone family, member Z	41					cellular response to estradiol stimulus (GO:0071392)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	extracellular vesicular exosome (GO:0070062)|nuclear euchromatin (GO:0005719)|nuclear heterochromatin (GO:0005720)|nucleosome (GO:0000786)|nucleus (GO:0005634)	chromatin DNA binding (GO:0031490)|nucleosomal DNA binding (GO:0031492)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)			breast(1)|endometrium(3)|lung(1)	5				OV - Ovarian serous cystadenocarcinoma(123;2.32e-08)		ATGACTGGTCGTCCTAGATTT	0.488											OREG0016271	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													60	59	59					4																	100870503		2203	4300	6503	SO:0001583	missense	3015			X52317	CCDS3654.1	4q23	2011-01-27			ENSG00000164032	ENSG00000164032		"Histones / Replication-independent"	4741	protein-coding gene	gene with protein product		142763		H2AZ		1697587	Standard	XM_005262971		Approved	H2A.Z	uc003hvo.1	P0C0S5	OTTHUMG00000131048	ENST00000296417.5:c.122C>A	4.37:g.100870503G>T	ENSP00000296417:p.Thr41Lys	Somatic	1354	WXS	Illumina HiSeq	Phase_I	B2RD56|P17317|Q6I9U0	Missense_Mutation	SNP	ENST00000296417.5	37	CCDS3654.1	.	.	.	.	.	.	.	.	.	.	G	17.22	3.333693	0.60853	.	.	ENSG00000164032	ENST00000296417	T	0.67523	-0.27	3.76	3.76	0.43208	Histone-fold (2);Histone core (1);Histone H2A (1);	0.000000	0.85682	D	0.000000	T	0.44644	0.1303	N	0.10945	0.07	0.80722	D	1	P	0.39022	0.655	B	0.29598	0.104	T	0.58289	-0.7662	10	0.72032	D	0.01	.	15.7927	0.78380	0.0:0.0:1.0:0.0	.	41	P0C0S5	H2AZ_HUMAN	K	41	ENSP00000296417:T41K	ENSP00000296417:T41K	T	-	2	0	H2AFZ	101089526	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	8.608000	0.90895	1.938000	0.56188	0.555000	0.69702	ACG		0.488	H2AFZ-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000253695.1	NM_002106		T	100870503	G	T	100870503	3	4	648	1	0	0	0	0	1	0	0	0	6938	1145	40	4	276	4	H2AFZ	4	100870503	Missense_Mutation	SNP	G	TCGA-KM-8440-01A-11D-2310-10	12491335	100870503	90283773	11	40135										
FRG1	2483	mdanderson.org	37	chr4	190874235	190874235	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	tccaatagttgatgagggccCtagtcctccagagcagttta	10	10	0	3			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr4:190874235C>T	ENST00000226798.4	+	4	494	c.272C>T	c.(271-273)cCt>cTt	p.P91L	FRG1_ENST00000514482.1_3'UTR	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1	91					mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		GATGAGGGCCCTAGTCCTCCA	0.284																																																0													11	11	11					4																	190874235		2004	4059	6063	SO:0001583	missense	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.272C>T	4.37:g.190874235C>T	ENSP00000226798:p.Pro91Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Missense_Mutation	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	.	20.5	4.005972	0.74932	.	.	ENSG00000109536	ENST00000226798;ENST00000531991	T;T	0.71817	2.12;-0.6	3.71	3.71	0.42584	Actin cross-linking (1);	0.000000	0.85682	D	0.000000	D	0.84042	0.5385	M	0.89904	3.07	0.80722	D	1	P	0.46987	0.888	P	0.57776	0.827	D	0.87755	0.2594	10	0.72032	D	0.01	-24.9555	13.8593	0.63550	0.0:1.0:0.0:0.0	.	91	Q14331	FRG1_HUMAN	L	91;28	ENSP00000226798:P91L;ENSP00000435943:P28L	ENSP00000226798:P91L	P	+	2	0	FRG1	191111229	1.000000	0.71417	0.998000	0.56505	0.944000	0.59088	5.379000	0.66196	2.022000	0.59522	0.632000	0.83419	CCT		0.284	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477		T	190874235	C	T	190874235	3	4	648	1	0	0	0	0	1	0	0	0	6053	681	24	2	286	2	FRG1	4	190874235	Missense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10	90003732	190874235	280041	12	40136										
TCERG1	10915	hgsc.bcm.edu	37	chr5	145838641	145838641	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	gcccaggctcaggctcaggcCcaggcccaggcccaggccca	13	19	2	0			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr5:145838641C>T	ENST00000296702.5	+	4	671	c.633C>T	c.(631-633)gcC>gcT	p.A211A	TCERG1_ENST00000394421.2_Silent_p.A211A	NM_006706.3	NP_006697.2	O14776	TCRG1_HUMAN	transcription elongation regulator 1	211	Ala/Gln-rich.				negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|RNA polymerase II repressing transcription factor binding (GO:0001103)|RNA polymerase II transcription corepressor activity (GO:0001106)|transcription coactivator activity (GO:0003713)	p.A211A(1)		breast(1)|central_nervous_system(3)|endometrium(5)|kidney(4)|large_intestine(18)|lung(9)|ovary(2)|prostate(3)|skin(1)	46		Lung NSC(249;0.00188)|all_lung(500;0.00307)|all_neural(839;0.0424)|Breast(839;0.0743)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			aggctcaggcccaggcccagg	0.731																																																1	Substitution - coding silent(1)	central_nervous_system(1)											11	15	13					5																	145838641		2184	4278	6462	SO:0001819	synonymous_variant	10915			AF017789	CCDS4282.1, CCDS43379.1	5q31	2010-01-25	2002-01-24	2002-01-25	ENSG00000113649	ENSG00000113649			15630	protein-coding gene	gene with protein product	"transcription factor CA150", "co-activator of 150 kDa", "TATA box binding protein (TBP)-associated factor, RNA polymerase II, S, 150kD", "TATA box-binding protein-associated factor 2S"	605409	"TATA box binding protein (TBP)-associated factor, RNA polymerase II, S, 150kD"	TAF2S		9315662, 11003711	Standard	XM_005268365		Approved	CA150, Urn1	uc003lob.3	O14776	OTTHUMG00000129683	ENST00000296702.5:c.633C>T	5.37:g.145838641C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKN2|Q59EA1	Silent	SNP	ENST00000296702.5	37	CCDS4282.1																																																																																				0.731	TCERG1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251886.1	NM_001040006		T	145838641	C	T	145838641	2	4	648	1	0	0	0	0	0	0	0	1	15697	610	22	2		2	TCERG1	5	145838641	Silent	SNP	C	TCGA-KM-8440-01A-11D-2310-10		145838641	35076619	13	40137										
MUC21	394263	mdanderson.org	37	chr6	30955119	30955119	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	gtgtccagtggggccagcacAgccaccacctctgagtccag	12	15	1	1	rs55918804	byFrequency	TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr6:30955119A>T	ENST00000376296.3	+	2	1408	c.1167A>T	c.(1165-1167)acA>acT	p.T389T	MUC21_ENST00000486149.2_5'UTR	NM_001010909.2	NP_001010909.2	Q5SSG8	MUC21_HUMAN	mucin 21, cell surface associated	389	28 X 15 AA approximate tandem repeats.|Ser-rich.				cellular protein metabolic process (GO:0044267)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-substrate adhesion (GO:0010812)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(4)|breast(1)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(3)|prostate(4)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	42						GGGCCAGCACAGCCACCACCT	0.637																																																0													143	140	141					6																	30955119		2203	4294	6497	SO:0001819	synonymous_variant	394263			AK056612	CCDS34388.1	6p21.33	2008-05-14	2008-05-14	2008-05-14	ENSG00000204544	ENSG00000204544		"Mucins"	21661	protein-coding gene	gene with protein product	"epiglycanin"		"chromosome 6 open reading frame 205"	C6orf205		17977904	Standard	NM_001010909		Approved	bCX31G15.2	uc003nsh.2	Q5SSG8	OTTHUMG00000031216	ENST00000376296.3:c.1167A>T	6.37:g.30955119A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0UZT7|B4DQ55|C9JMK2|D9N007|Q0VGF1|Q3B7T2|Q5SS94|Q6UXC5	Silent	SNP	ENST00000376296.3	37	CCDS34388.1																																																																																				0.637	MUC21-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000128579.3	NM_001010909		T	30955119	A	T	30955119	2	4	648	1	0	0	0	0	0	0	0	1	9984	175	7	5		5	MUC21	6	30955119	Silent	SNP	A	TCGA-KM-8440-01A-11D-2310-10		30955119	140159948	14	40138										
KCNK16	83795	ucsc.edu;bcgsc.ca	37	chr6	39290273	39290273	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	cataggccagcagcaggggcAgcacccggccaccccagcag	13	17	0	0			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr6:39290273A>G	ENST00000373229.5	-	1	57	c.44T>C	c.(43-45)cTg>cCg	p.L15P	KCNK16_ENST00000373227.4_Missense_Mutation_p.L15P|KCNK16_ENST00000425054.2_Missense_Mutation_p.L15P|KCNK16_ENST00000437525.2_Missense_Mutation_p.L15P|KCNK16_ENST00000507712.1_Intron	NM_032115.3	NP_115491.1	Q96T55	KCNKG_HUMAN	potassium channel, subfamily K, member 16	15					potassium ion transport (GO:0006813)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	potassium channel activity (GO:0005267)|voltage-gated ion channel activity (GO:0005244)			large_intestine(1)|lung(7)|ovary(2)|prostate(1)|skin(2)	13						CAGCAGGGGCAGCACCCGGCC	0.662																																																0													24	22	23					6																	39290273		2203	4298	6501	SO:0001583	missense	83795			AF358909	CCDS4843.1, CCDS47420.1, CCDS47421.1, CCDS47422.1	6p21.2-p21.1	2012-03-07			ENSG00000095981	ENSG00000095981		"Potassium channels", "Voltage-gated ion channels / Potassium channels, Two-P"	14464	protein-coding gene	gene with protein product		607369				11263999, 16382106	Standard	NM_032115		Approved	K2p16.1, TALK-1, TALK1	uc003ooq.3	Q96T55	OTTHUMG00000014645	ENST00000373229.5:c.44T>C	6.37:g.39290273A>G	ENSP00000362326:p.Leu15Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B5TJL9|Q2M2N9|Q5TCF3|Q6X6Z3|Q6X6Z4|Q6X6Z5|Q9H591	Missense_Mutation	SNP	ENST00000373229.5	37	CCDS4843.1	.	.	.	.	.	.	.	.	.	.	A	15.28	2.785389	0.49997	.	.	ENSG00000095981	ENST00000373229;ENST00000425054;ENST00000373227;ENST00000437525	T;T;T;T	0.27720	1.65;1.65;1.65;1.65	5.79	5.79	0.91817	.	0.279371	0.30519	N	0.009456	T	0.23886	0.0578	M	0.78049	2.395	0.80722	D	1	B;B;B;B	0.31769	0.076;0.125;0.339;0.076	B;B;B;B	0.33620	0.016;0.037;0.167;0.016	T	0.21655	-1.0239	10	0.87932	D	0	.	9.8431	0.41010	0.9213:0.0:0.0787:0.0	.	15;15;15;15	B5TJL9;Q96T55-5;Q96T55-4;Q96T55	.;.;.;KCNKG_HUMAN	P	15	ENSP00000362326:L15P;ENSP00000391498:L15P;ENSP00000362324:L15P;ENSP00000415375:L15P	ENSP00000362324:L15P	L	-	2	0	KCNK16	39398251	0.992000	0.36948	0.992000	0.48379	0.454000	0.32378	1.697000	0.37784	2.208000	0.71279	0.459000	0.35465	CTG		0.662	KCNK16-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000040452.2	NM_032115		G	39290273	A	G	39290273	3	3	648	1	0	0	0	0	1	0	0	0	8070	188	7	3	1294	3	KCNK16	6	39290273	Missense_Mutation	SNP	A	TCGA-KM-8440-01A-11D-2310-10	8335154	39290273	131824794	15	40139										
POM121C	100101267	broad.mit.edu	37	chr7	75055685	75055686	+	Frame_Shift_Ins	INS	-	-	CC													0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	ccggtgtctgggagcgggatINSgaggctgggctagagaaggg							TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr7:75055685_75055686insCC	ENST00000257665.5	-	6	1255_1256	c.1256_1257insGG	c.(1255-1257)tcafs	p.S419fs	POM121C_ENST00000453279.2_Frame_Shift_Ins_p.S177fs|POM121C_ENST00000473168.1_Intron			A8CG34	P121C_HUMAN	POM121 transmembrane nucleoporin C	419	Pore side. {ECO:0000255}.|Ser-rich.				mRNA transport (GO:0051028)|protein transport (GO:0015031)	endoplasmic reticulum (GO:0005783)|nuclear pore (GO:0005643)				central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(6)|prostate(1)|skin(1)|urinary_tract(1)	14						GGGAGCGGGATGAGGCTGGGCT	0.505																																																0																																										SO:0001589	frameshift_variant	100101267				CCDS47617.1	7q11.23	2012-03-13	2012-03-13		ENSG00000135213	ENSG00000272391			34005	protein-coding gene	gene with protein product		615754	"POM121 membrane glycoprotein C"			17900573	Standard	NM_001099415		Approved		uc003udk.4	A8CG34	OTTHUMG00000156238	ENST00000257665.5:c.1256_1257insGG	7.37:g.75055685_75055686insCC	ENSP00000257665:p.Ser419fs	Somatic		WXS	Illumina HiSeq	Phase_I	O75115|Q9Y2N3|Q9Y4S7	Frame_Shift_Ins	INS	ENST00000257665.5	37																																																																																					0.505	POM121C-003	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000343919.2	NM_001099415		CC	75055686	-	CC	75055685	7	5	648	1	0	1	1	0	0	0	0	0	12247	1451	51	0	2464	0	POM121C	7	75055685	Frame_Shift_Ins	INS	-	TCGA-KM-8440-01A-11D-2310-10		75055685	84082978	16	40140										
TRIM4	89122	broad.mit.edu	37	chr7	99514382	99514382	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	cttctcttccattcatccacGtggatgtcaaagttacctgt	6	12	3	0			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr7:99514382G>A	ENST00000355947.2	-	2	543	c.414C>T	c.(412-414)caC>caT	p.H138H	TRIM4_ENST00000354241.5_Intron|TRIM4_ENST00000349062.2_Intron	NM_033017.3	NP_148977.2	Q9C037	TRIM4_HUMAN	tripartite motif containing 4	138					protein trimerization (GO:0070206)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	zinc ion binding (GO:0008270)			breast(2)|endometrium(1)|kidney(1)|large_intestine(3)|lung(8)|ovary(1)|skin(1)	17	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)	Ovarian(593;0.238)				attcatccacgtggatgtcaa	0.403																																																0													208	216	213					7																	99514382		2203	4300	6503	SO:0001819	synonymous_variant	89122			AF220023	CCDS5678.1, CCDS5679.1	7q22-q31.1	2013-01-09	2011-01-25		ENSG00000146833	ENSG00000146833		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	16275	protein-coding gene	gene with protein product	"tripartite motif protein TRIM4", "tripartite motif protein 4"		"tripartite motif-containing 4"			11331580	Standard	NM_033017		Approved	RNF87	uc003use.3	Q9C037	OTTHUMG00000156648	ENST00000355947.2:c.414C>T	7.37:g.99514382G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D298|Q75MK1|Q96F06|Q9C036	Silent	SNP	ENST00000355947.2	37	CCDS5679.1																																																																																				0.403	TRIM4-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000345050.1	NM_033017		A	99514382	G	A	99514382	2	1	648	1	0	0	0	0	0	0	0	1	16526	1136	40	1		1	TRIM4	7	99514382	Silent	SNP	G	TCGA-KM-8440-01A-11D-2310-10	24458697	99514382	59624281	17	40141										
KLF14	136259	mdanderson.org	37	chr7	130418525	130418525	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	gggatcgggtcggagaagccGgacgaggcgcgtggagcttc	20	9	0	1	rs76603546	byFrequency	TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr7:130418525G>A	ENST00000310992.4	-	1	363	c.336C>T	c.(334-336)tcC>tcT	p.S112S		NM_138693.2	NP_619638.2	Q8TD94	KLF14_HUMAN	Kruppel-like factor 14	112					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			large_intestine(3)|lung(1)|skin(1)|upper_aerodigestive_tract(1)	6	Melanoma(18;0.0435)					CGGAGAAGCCGGACGAGGCGC	0.746													G|||	1930	0.385383	0.1067	0.4697	5008	,	,		9011	0.5397		0.498	False		,,,				2504	0.4274															0								G		729,3497		105,519,1489	6	10	8		336	-6.1	0	7	dbSNP_131	8	3856,4508		998,1860,1324	no	coding-synonymous	KLF14	NM_138693.2		1103,2379,2813	AA,AG,GG		46.1023,17.2504,36.4178		112/324	130418525	4585,8005	2113	4182	6295	SO:0001819	synonymous_variant	136259			AF490374	CCDS5825.1	7q32.3	2014-05-06			ENSG00000174595	ENSG00000266265		"Kruppel-like transcription factors", "Zinc fingers, C2H2-type"	23025	protein-coding gene	gene with protein product		609393				17480121	Standard	NM_138693		Approved	BTEB5	uc003vqk.2	Q8TD94	OTTHUMG00000188298	ENST00000310992.4:c.336C>T	7.37:g.130418525G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q19A42|Q19A43	Silent	SNP	ENST00000310992.4	37	CCDS5825.1																																																																																				0.746	KLF14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338013.1	NM_138693		A	130418525	G	A	130418525	2	1	648	1	0	0	0	0	0	0	0	1	8349	1103	39	1		1	KLF14	7	130418525	Silent	SNP	G	TCGA-KM-8440-01A-11D-2310-10	30904143	130418525	28720138	18	40142										
PRSS1	5644	mdanderson.org	37	chr7	142460779	142460779	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	aaggagttgtctcctggggtGatggctgtgcccagaagaac	15	8	1	3	rs574391339		TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr7:142460779G>T	ENST00000311737.7	+	5	658	c.652G>T	c.(652-654)Gat>Tat	p.D218Y	PRSS1_ENST00000486171.1_Missense_Mutation_p.D232Y	NM_002769.4	NP_002760.1	P07477	TRY1_HUMAN	protease, serine, 1 (trypsin 1)	218	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	metal ion binding (GO:0046872)|serine-type endopeptidase activity (GO:0004252)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(24)|prostate(2)	38	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)		Aprotinin(DB06692)	CTCCTGGGGTGATGGCTGTGC	0.522													g|||	1	0.000199681	0.0	0.0	5008	,	,		16476	0.001		0.0	False		,,,				2504	0.0															0													81	82	82					7																	142460779		2203	4300	6503	SO:0001583	missense	5644			M22612	CCDS5872.1	7q34	2012-10-02			ENSG00000204983	ENSG00000204983	3.4.21.4	"Serine peptidases / Serine peptidases"	9475	protein-coding gene	gene with protein product		276000		TRY1			Standard	NM_002769		Approved		uc003wak.2	P07477	OTTHUMG00000158923	ENST00000311737.7:c.652G>T	7.37:g.142460779G>T	ENSP00000308720:p.Asp218Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A1A509|A6NJ71|B2R5I5|Q5NV57|Q7M4N3|Q7M4N4|Q92955|Q9HAN4|Q9HAN5|Q9HAN6|Q9HAN7	Missense_Mutation	SNP	ENST00000311737.7	37	CCDS5872.1	.	.	.	.	.	.	.	.	.	.	g	0.001	-3.097197	0.00034	.	.	ENSG00000204983	ENST00000486171;ENST00000311737;ENST00000529243	D;D	0.88896	-2.44;-2.44	3.18	1.99	0.26369	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	0.434585	0.27223	N	0.020352	T	0.65417	0.2689	N	0.02765	-0.5	0.24198	N	0.995522	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.56444	-0.7978	10	0.02654	T	1	.	4.1291	0.10141	0.3145:0.0:0.1737:0.5118	.	232;218	E7EQ64;P07477	.;TRY1_HUMAN	Y	232;218;208	ENSP00000417854:D232Y;ENSP00000308720:D218Y	ENSP00000308720:D218Y	D	+	1	0	PRSS1	142140353	0.000000	0.05858	0.995000	0.50966	0.013000	0.08279	0.233000	0.17911	0.385000	0.24970	-1.375000	0.01183	GAT		0.522	PRSS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352538.2			T	142460779	G	T	142460779	3	4	648	1	0	0	0	0	1	0	0	0	12624	1290	45	4	670	4	PRSS1	7	142460779	Missense_Mutation	SNP	G	TCGA-KM-8440-01A-11D-2310-10	12042254	142460779	16677884	19	40143										
MLL3	58508	mdanderson.org	37	chr7	151962290	151962290	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	actgcacagtttgcatcttcCttcgctataattaacagtga	6	10	1	1			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr7:151962290C>G	ENST00000262189.6	-	8	1235	c.1017G>C	c.(1015-1017)aaG>aaC	p.K339N	KMT2C_ENST00000355193.2_Missense_Mutation_p.K339N	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	339					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)										TTGCATCTTCCTTCGCTATAA	0.368																																																0													77	71	73					7																	151962290		2203	4299	6502	SO:0001583	missense	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.1017G>C	7.37:g.151962290C>G	ENSP00000262189:p.Lys339Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Missense_Mutation	SNP	ENST00000262189.6	37	CCDS5931.1	.	.	.	.	.	.	.	.	.	.	C	6.180	0.401340	0.11696	.	.	ENSG00000055609	ENST00000262189;ENST00000355193	D;D	0.98822	-5.16;-5.16	4.65	3.77	0.43336	Zinc finger, RING/FYVE/PHD-type (1);Protein kinase C-like, phorbol ester/diacylglycerol binding (1);Zinc finger, FYVE/PHD-type (1);	0.000000	0.43416	U	0.000576	D	0.97807	0.9280	L	0.34521	1.04	0.80722	D	1	D	0.76494	0.999	D	0.78314	0.991	D	0.95779	0.8815	10	0.14656	T	0.56	.	11.2491	0.49015	0.0:0.8451:0.0:0.1549	.	339	Q8NEZ4	MLL3_HUMAN	N	339	ENSP00000262189:K339N;ENSP00000347325:K339N	ENSP00000262189:K339N	K	-	3	2	MLL3	151593223	1.000000	0.71417	1.000000	0.80357	0.006000	0.05464	1.789000	0.38724	1.072000	0.40860	-0.262000	0.10625	AAG		0.368	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			G	151962290	C	G	151962290	3	3	648	1	0	0	0	0	1	0	0	0	9629	680	24	4	13926	4	MLL3	7	151962290	Missense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10	9501511	151962290	7176373	20	40144										
EEF1D	1936	mdanderson.org	37	chr8	144671244	144671244	+	Intron	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	gcttcgaggcaccaggccacCcgcagggcctcggcagcgtg	15	16	0	0	rs4874160	byFrequency	TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr8:144671244C>A	ENST00000529272.1	-	2	397				EEF1D_ENST00000442189.2_Silent_p.R336R|EEF1D_ENST00000528610.1_Intron|EEF1D_ENST00000532741.1_Silent_p.R386R|EEF1D_ENST00000419152.2_Intron|EEF1D_ENST00000423316.2_Silent_p.R336R|EEF1D_ENST00000524624.1_Intron|EEF1D_ENST00000317198.6_Intron|EEF1D_ENST00000395119.3_Intron|EEF1D_ENST00000531621.1_Intron|EEF1D_ENST00000532400.1_Intron|EEF1D_ENST00000526838.1_Intron			P29692	EF1D_HUMAN	eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein)						cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)|translation (GO:0006412)|translational elongation (GO:0006414)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|eukaryotic translation elongation factor 1 complex (GO:0005853)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)|signal transducer activity (GO:0004871)|translation elongation factor activity (GO:0003746)|translation factor activity, nucleic acid binding (GO:0008135)			breast(2)|cervix(1)|endometrium(1)|kidney(4)|lung(2)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	14	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)			ACCAGGCCACCCGCAGGGCCT	0.662													G|||	3218	0.642572	0.4879	0.7536	5008	,	,		16212	0.5149		0.8499	False		,,,				2504	0.6912															0								G	,,,,,,	2422,1970		730,962,504	22	21	22		1008,,,,,,1008	2.6	1	8	dbSNP_111	22	7854,740		3631,592,74	no	coding-synonymous,intron,intron,intron,intron,intron,coding-synonymous	EEF1D	NM_001130053.2,NM_001130055.2,NM_001130056.2,NM_001130057.2,NM_001195203.1,NM_001960.4,NM_032378.4	,,,,,,	4361,1554,578	AA,AC,CC		8.6107,44.8543,20.8686	,,,,,,	336/648,,,,,,336/648	144671244	10276,2710	2196	4297	6493	SO:0001627	intron_variant	1936			AK024550	CCDS6404.1, CCDS6405.1, CCDS47930.1, CCDS56559.1	8q24	2011-09-15			ENSG00000104529	ENSG00000104529			3211	protein-coding gene	gene with protein product		130592				8334168	Standard	NM_001960		Approved	EF-1D, FLJ20897	uc003yyt.3	P29692	OTTHUMG00000165191	ENST00000529272.1:c.4-2225G>T	8.37:g.144671244C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DDU4|D3DWK3|E9PBQ9|Q4VBZ6|Q969J1|Q96I38	Silent	SNP	ENST00000529272.1	37	CCDS6405.1																																																																																				0.662	EEF1D-006	NOVEL	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000382592.2	NM_032378		A	144671244	C	A	144671244	1	1	648	0	1	0	0	0	0	0	0	0	4928	610	22	4		4	EEF1D	8	144671244	Intron	SNP	C	TCGA-KM-8440-01A-11D-2310-10		144671244	1692778	21	40145										
ZNF658	26149	mdanderson.org	37	chr9	40775035	40775035	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	atgtgatcaactttaaaataCcctaaaatgagaaaaattga	5	5	1	3	rs62561230	byFrequency	TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr9:40775035C>T	ENST00000602553.1	-	5	534	c.240G>A	c.(238-240)ggG>ggA	p.G80G	ZNF658_ENST00000377626.3_Splice_Site_p.G80G|ZNF658_ENST00000441795.1_Splice_Site_p.G78G			Q5TYW1	ZN658_HUMAN	zinc finger protein 658	80					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(3)|central_nervous_system(1)|endometrium(6)|kidney(1)|large_intestine(9)|lung(21)|ovary(2)|prostate(1)|upper_aerodigestive_tract(2)	46				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		CTTTAAAATACCCTAAAATGA	0.299													T|||	3162	0.63139	0.6687	0.7046	5008	,	,		6646	0.748		0.6451	False		,,,				2504	0.3947															0													15	18	17					9																	40775035		714	1718	2432	SO:0001630	splice_region_variant	26149			AA482262	CCDS75846.1	9p13.1	2013-01-08			ENSG00000196409	ENSG00000274349		"Zinc fingers, C2H2-type", "-"	25226	protein-coding gene	gene with protein product							Standard	NM_033160		Approved	MGC35232, DKFZp572C163, FLJ32813	uc004abs.2	Q5TYW1	OTTHUMG00000013392	ENST00000602553.1:c.239-1G>A	9.37:g.40775035C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6PIP3|Q96M55|Q9H9S6|Q9UG02	Silent	SNP	ENST00000602553.1	37	CCDS35023.1																																																																																				0.299	ZNF658-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467800.1	NM_033160	Silent	T	40775035	C	T	40775035	5	4	648	1	0	0	0	0	0	0	1	0	18081	521	18	2	2943	2	ZNF658	9	40775035	Splice_Site	SNP	C	TCGA-KM-8440-01A-11D-2310-10		40775035	100438396	22	40146										
TTC16	158248	mdanderson.org	37	chr9	130487157	130487157	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	tgctgcaggagaagatgggcTtctgcgagcagaggcgcaag	17	8	1	3	rs77630455	byFrequency	TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr9:130487157T>G	ENST00000373289.3	+	9	1320	c.1240T>G	c.(1240-1242)Ttc>Gtc	p.F414V	PTRH1_ENST00000429848.1_5'Flank|TTC16_ENST00000393748.4_3'UTR|PTRH1_ENST00000419060.1_5'Flank|TTC16_ENST00000489226.1_Intron	NM_144965.1	NP_659402.1	Q8NEE8	TTC16_HUMAN	tetratricopeptide repeat domain 16	414										central_nervous_system(2)|endometrium(3)|lung(7)|ovary(3)|pancreas(2)|prostate(4)|skin(1)	22						GAAGATGGGCTTCTGCGAGCA	0.726													T|||	33	0.00658946	0.0234	0.0029	5008	,	,		12083	0.0		0.0	False		,,,				2504	0.0															0								T	VAL/PHE	100,4252		2,96,2078	8	9	8		1240	1	0	9	dbSNP_131	8	0,8550		0,0,4275	yes	missense	TTC16	NM_144965.1	50	2,96,6353	GG,GT,TT		0.0,2.2978,0.7751	benign	414/874	130487157	100,12802	2176	4275	6451	SO:0001583	missense	158248			AK057342	CCDS6875.1	9q34.13	2013-01-10			ENSG00000167094	ENSG00000167094		"Tetratricopeptide (TTC) repeat domain containing"	26536	protein-coding gene	gene with protein product						12477932	Standard	NM_144965		Approved	FLJ32780	uc004brq.1	Q8NEE8	OTTHUMG00000020711	ENST00000373289.3:c.1240T>G	9.37:g.130487157T>G	ENSP00000362386:p.Phe414Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYG4|B5ME24|Q5JU66|Q96M72	Missense_Mutation	SNP	ENST00000373289.3	37	CCDS6875.1	9	0.004120879120879121	8	0.016260162601626018	1	0.0027624309392265192	0	0.0	0	0.0	T	10.99	1.506864	0.26949	0.022978	0.0	ENSG00000167094	ENST00000373289	T	0.62498	0.02	4.86	1.03	0.20045	Tetratricopeptide-like helical (1);Tetratricopeptide repeat-containing (1);	0.802502	0.11065	N	0.603527	T	0.26122	0.0637	L	0.27053	0.805	0.19300	N	0.99998	P;P	0.45176	0.852;0.852	B;B	0.39217	0.294;0.294	T	0.12016	-1.0564	10	0.38643	T	0.18	-5.8329	4.0479	0.09781	0.0:0.3269:0.182:0.4912	.	401;414	B4DZ42;Q8NEE8	.;TTC16_HUMAN	V	414	ENSP00000362386:F414V	ENSP00000362386:F414V	F	+	1	0	TTC16	129526978	0.000000	0.05858	0.010000	0.14722	0.018000	0.09664	-0.338000	0.07842	0.211000	0.20683	0.260000	0.18958	TTC		0.726	TTC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054224.1	NM_144965		G	130487157	T	G	130487157	3	3	648	1	0	0	0	0	1	0	0	0	16695	1609	56	5	1274	5	TTC16	9	130487157	Missense_Mutation	SNP	T	TCGA-KM-8440-01A-11D-2310-10	89712122	130487157	10726274	23	40147										
TUBB8	347688	mdanderson.org	37	chr10	94006	94006	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	ctgactccatcagctccgcgCcttcggtgtagtgtcccttg	10	15	1	1	rs368995010		TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr10:94006C>T	ENST00000309812.4	-	4	388	c.326G>A	c.(325-327)gGc>gAc	p.G109D	TUBB8_ENST00000413237.3_5'UTR|TUBB8_ENST00000447903.2_Missense_Mutation_p.G37D|TUBB8_ENST00000332708.5_Missense_Mutation_p.A73T	NM_177987.2	NP_817124.1	Q3ZCM7	TBB8_HUMAN	tubulin, beta 8 class VIII	109					microtubule-based process (GO:0007017)|protein polymerization (GO:0051258)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|cervix(1)|endometrium(4)|large_intestine(5)|lung(12)|ovary(2)|prostate(3)|skin(3)|stomach(1)	32		all_cancers(4;0.00131)|all_lung(4;0.000777)|Lung NSC(4;0.0043)|all_epithelial(10;0.0154)|Colorectal(49;0.235)		Epithelial(11;0.00341)|all cancers(11;0.00922)|OV - Ovarian serous cystadenocarcinoma(14;0.0508)|Lung(33;0.132)		CAGCTCCGCGCCTTCGGTGTA	0.607																																					Pancreas(192;2041 3010 9013 18103)											0													73	62	66					10																	94006		2203	4300	6503	SO:0001583	missense	347688			AF355127	CCDS7051.1	10p15.3	2014-05-06			ENSG00000173876			"Tubulins"	20773	protein-coding gene	gene with protein product	"class VIII beta-tubulin"						Standard	NM_177987		Approved	bA631M21.2	uc001ifi.2	Q3ZCM7	OTTHUMG00000174803	ENST00000309812.4:c.326G>A	10.37:g.94006C>T	ENSP00000311042:p.Gly109Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SQX9|Q8WZ78	Missense_Mutation	SNP	ENST00000309812.4	37	CCDS7051.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	12.54|12.54	1.968692|1.968692	0.34754|0.34754	.|.	.|.	ENSG00000173876|ENSG00000173876	ENST00000309812;ENST00000332708|ENST00000447903;ENST00000272035;ENST00000440680;ENST00000328974	.|T	.|0.75704	.|-0.96	.|.	.|.	.|.	.|Tubulin/FtsZ, GTPase domain (4);	.|0.000000	.|0.64402	.|U	.|0.000010	D|D	0.90594|0.90594	0.7051|0.7051	H|H	0.99777|0.99777	4.77|4.77	0.39819|0.39819	D|D	0.972819|0.972819	.|D;D	.|0.89917	.|0.997;1.0	.|D;D	.|0.97110	.|0.982;1.0	D|D	0.86775|0.86775	0.1975|0.1975	5|9	0.87932|0.87932	D|D	0|0	.|.	5.9051|5.9051	0.18992|0.18992	0.0:0.9992:0.0:8.0E-4|0.0:0.9992:0.0:8.0E-4	.|.	.|72;109	.|C9JAA5;Q3ZCM7	.|.;TBB8_HUMAN	T|D	117;73|37;75;72;109	.|ENSP00000403895:G37D	ENSP00000311042:A117T|ENSP00000272035:G75D	A|G	-|-	1|2	0|0	RP11-631M21.2|RP11-631M21.2	84006|84006	0.998000|0.998000	0.40836|0.40836	0.282000|0.282000	0.24776|0.24776	0.286000|0.286000	0.27126|0.27126	5.268000|5.268000	0.65536|0.65536	0.119000|0.119000	0.18210|0.18210	0.121000|0.121000	0.15741|0.15741	GCG|GGC		0.607	TUBB8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467795.1	NM_177987		T	94006	C	T	94006	3	4	648	1	0	0	0	0	1	0	0	0	16773	739	26	2	1012	2	TUBB8	10	94006	Missense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10		94006	135440741	24	40148										
CELF2	10659	hgsc.bcm.edu	37	chr10	11207550	11207550	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	acagatcccccggtcatggtCggaaaaggagctgaaagaac	12	10	1	3			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr10:11207550C>T	ENST00000379261.4	+	2	247	c.155C>T	c.(154-156)tCg>tTg	p.S52L	CELF2_ENST00000354897.3_Missense_Mutation_p.S28L|CELF2_ENST00000542579.1_Missense_Mutation_p.S59L|CELF2_ENST00000450189.1_Missense_Mutation_p.S59L|CELF2_ENST00000399850.3_Missense_Mutation_p.S28L|CELF2_ENST00000608830.1_Missense_Mutation_p.S28L|CELF2_ENST00000354440.2_Missense_Mutation_p.S28L|CELF2_ENST00000609692.1_Missense_Mutation_p.S28L|CELF2_ENST00000537122.1_5'UTR|CELF2_ENST00000427450.1_Missense_Mutation_p.S28L|CELF2_ENST00000416382.2_Missense_Mutation_p.S52L|CELF2_ENST00000315874.4_Missense_Mutation_p.S28L|CELF2_ENST00000417956.2_Missense_Mutation_p.S28L	NM_001025077.2	NP_001020248.1	O95319	CELF2_HUMAN	CUGBP, Elav-like family member 2	52	Necessary for RNA-binding, TNNT2 exon 5 and NMDA R1 exon 21 inclusion.|RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				mRNA processing (GO:0006397)|regulation of heart contraction (GO:0008016)|RNA processing (GO:0006396)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			breast(2)|central_nervous_system(1)|endometrium(4)|large_intestine(2)|lung(5)|prostate(1)|skin(1)	16						CGGTCATGGTCGGAAAAGGAG	0.527																																																0													89	94	93					10																	11207550		1945	4147	6092	SO:0001583	missense	10659			U69546	CCDS41488.1, CCDS44354.1, CCDS44355.1, CCDS44356.1	10p13	2013-02-12	2010-02-19	2010-02-19	ENSG00000048740	ENSG00000048740		"RNA binding motif (RRM) containing"	2550	protein-coding gene	gene with protein product		602538	"CUG triplet repeat, RNA-binding protein 2", "CUG triplet repeat, RNA binding protein 2"	CUGBP2		7869393, 9887331	Standard	NM_006561		Approved	Etr-3, NAPOR-2, BRUNOL3	uc001ikl.4	O95319	OTTHUMG00000017668	ENST00000379261.4:c.155C>T	10.37:g.11207550C>T	ENSP00000368563:p.Ser52Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZAN9|Q7KYU4|Q8N499|Q92950|Q96NW9|Q96RQ5|Q96RQ6|Q9UL67	Missense_Mutation	SNP	ENST00000379261.4	37	CCDS44354.1	.	.	.	.	.	.	.	.	.	.	C	18.53	3.644377	0.67244	.	.	ENSG00000048740	ENST00000379261;ENST00000416382;ENST00000450189;ENST00000542579;ENST00000399850;ENST00000417956;ENST00000315874;ENST00000354440;ENST00000354897;ENST00000427450	T;T;T;T;T;T;T;T;T	0.18016	2.24;2.24;2.24;2.24;2.24;2.24;2.24;2.24;2.24	5.51	5.51	0.81932	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.000000	0.85682	D	0.000000	T	0.29093	0.0723	L	0.46157	1.445	0.80722	D	1	D;D;P;P;D;D;D	0.56035	0.957;0.957;0.802;0.92;0.974;0.969;0.957	P;P;B;B;P;P;P	0.51582	0.556;0.674;0.138;0.381;0.558;0.544;0.674	T	0.00546	-1.1678	10	0.62326	D	0.03	-5.2597	19.807	0.96535	0.0:1.0:0.0:0.0	.	36;52;28;47;59;47;52	B4DDE7;B4DS31;B4DSZ2;B2RA86;E9PC62;O95319-3;O95319	.;.;.;.;.;.;CELF2_HUMAN	L	52;52;59;59;28;28;28;28;28;28	ENSP00000368563:S52L;ENSP00000406451:S52L;ENSP00000389951:S59L;ENSP00000443926:S59L;ENSP00000382743:S28L;ENSP00000404834:S28L;ENSP00000315328:S28L;ENSP00000346426:S28L;ENSP00000388530:S28L	ENSP00000315328:S28L	S	+	2	0	CELF2	11247556	1.000000	0.71417	0.976000	0.42696	0.967000	0.64934	5.846000	0.69444	2.759000	0.94783	0.563000	0.77884	TCG		0.527	CELF2-201	KNOWN	basic|CCDS	protein_coding	protein_coding				T	11207550	C	T	11207550	3	4	648	1	0	0	0	0	1	0	0	0	3218	893	31	1	239	1	CELF2	10	11207550	Missense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10	11113544	11207550	124327197	25	40149										
PDCD11	22984	ucsc.edu	37	chr10	105160258	105160258	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	gaaagcagcaagtccgcaagAgagaagtttgaaatccttag	11	7	0	3			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr10:105160258A>G	ENST00000369797.3	+	3	301	c.207A>G	c.(205-207)agA>agG	p.R69R		NM_014976.1	NP_055791.1	Q14690	RRP5_HUMAN	programmed cell death 11	69					mRNA processing (GO:0006397)|rRNA processing (GO:0006364)	cytosol (GO:0005829)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|transcription factor binding (GO:0008134)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(9)|kidney(2)|large_intestine(10)|lung(29)|ovary(2)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	64		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)		AGTCCGCAAGAGAGAAGTTTG	0.373																																																0													121	133	129					10																	105160258		2203	4300	6503	SO:0001819	synonymous_variant	22984			D80007	CCDS31276.1	10q24.32	2010-07-06			ENSG00000148843	ENSG00000148843			13408	protein-coding gene	gene with protein product		612333				10229231	Standard	XM_005269647		Approved	KIAA0185, ALG-4, RRP5	uc001kwy.1	Q14690	OTTHUMG00000018988	ENST00000369797.3:c.207A>G	10.37:g.105160258A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q2TA92|Q5W093|Q6P2J3|Q86VQ8|Q9H4P1	Silent	SNP	ENST00000369797.3	37	CCDS31276.1																																																																																				0.373	PDCD11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050151.1			G	105160258	A	G	105160258	2	3	648	1	0	0	0	0	0	0	0	1	11624	301	11	3		3	PDCD11	10	105160258	Silent	SNP	A	TCGA-KM-8440-01A-11D-2310-10	93952708	105160258	30374489	26	40150										
KRTAP5-4	387267	hgsc.bcm.edu	37	chr11	1643255	1643255	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	cccccacagccagagccacaGcccccacagccggagccaca	8	22	0	1			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr11:1643255G>A	ENST00000399682.1	-	1	113	c.69C>T	c.(67-69)ggC>ggT	p.G23G		NM_001012709.1	NP_001012727	Q6L8H1	KRA54_HUMAN	keratin associated protein 5-4	0						keratin filament (GO:0045095)		p.G23G(1)		NS(1)|endometrium(9)|kidney(2)|lung(2)|pancreas(1)|prostate(3)|skin(2)	20		all_epithelial(84;0.00819)|Breast(177;0.00832)|Ovarian(85;0.0256)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		cagagccacagcccccacagc	0.687																																																1	Substitution - coding silent(1)	kidney(1)											4	8	7					11																	1643255		646	1526	2172	SO:0001819	synonymous_variant	387267			AB126073		11p15.5	2012-04-19			ENSG00000241598	ENSG00000241598		"Keratin associated proteins"	23599	protein-coding gene	gene with protein product						15144888	Standard	NM_001012709		Approved	KRTAP5.4	uc009ycy.1	Q6L8H1	OTTHUMG00000057553	ENST00000399682.1:c.69C>T	11.37:g.1643255G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000399682.1	37																																																																																					0.687	KRTAP5-4-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000127918.1	NM_001012709		A	1643255	G	A	1643255	2	1	648	1	0	0	0	0	0	0	0	1	8570	958	34	2		2	KRTAP5-4	11	1643255	Silent	SNP	G	TCGA-KM-8440-01A-11D-2310-10		1643255	133363261	27	40151										
VWCE	220001	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	61026257	61026257	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	agaggtggtgggagaaagcaCgcgaggcccgaggagggtga	21	6	0	3	rs550040653		TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr11:61026257C>T	ENST00000335613.5	-	20	3144	c.2758G>A	c.(2758-2760)Gtg>Atg	p.V920M	VWCE_ENST00000535710.1_Missense_Mutation_p.V385M	NM_152718.2	NP_689931.2	Q96DN2	VWCE_HUMAN	von Willebrand factor C and EGF domains	920						extracellular region (GO:0005576)	calcium ion binding (GO:0005509)			biliary_tract(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(17)|ovary(3)|prostate(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	37						GGAGAAAGCACGCGAGGCCCG	0.667																																																0													58	65	63					11																	61026257		2203	4299	6502	SO:0001583	missense	220001			AK056571	CCDS8002.1	11q12.2	2006-08-04			ENSG00000167992	ENSG00000167992			26487	protein-coding gene	gene with protein product		611115				12869306	Standard	NM_152718		Approved	URG11, FLJ32009, VWC1	uc001nra.3	Q96DN2	OTTHUMG00000168208	ENST00000335613.5:c.2758G>A	11.37:g.61026257C>T	ENSP00000334186:p.Val920Met	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKV0|Q7Z7L6|Q86WK8	Missense_Mutation	SNP	ENST00000335613.5	37	CCDS8002.1	.	.	.	.	.	.	.	.	.	.	T	9.953	1.220611	0.22457	.	.	ENSG00000167992	ENST00000335613;ENST00000535710	T;T	0.69175	-0.38;3.49	4.81	2.16	0.27623	.	0.708805	0.11573	N	0.550511	T	0.42630	0.1211	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.26780	-1.0093	10	0.40728	T	0.16	.	5.9278	0.19122	0.0:0.3978:0.0:0.6022	.	920	Q96DN2	VWCE_HUMAN	M	920;385	ENSP00000334186:V920M;ENSP00000442570:V385M	ENSP00000334186:V920M	V	-	1	0	VWCE	60782833	0.000000	0.05858	0.001000	0.08648	0.000000	0.00434	0.048000	0.14078	0.290000	0.22444	-0.361000	0.07541	GTG		0.667	VWCE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398811.1	NM_152718		T	61026257	C	T	61026257	3	4	648	1	0	0	0	0	1	0	0	0	17257	536	19	1	113	1	VWCE	11	61026257	Missense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10	59383002	61026257	73980259	28	40152										
AHNAK	79026	broad.mit.edu	37	chr11	62294617	62294617	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	ccctcaatgtcaatgtctggCccactgacatccacatgtgg	8	14	3	1	rs143003772		TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr11:62294617C>T	ENST00000378024.4	-	5	7546	c.7272G>A	c.(7270-7272)ggG>ggA	p.G2424G	AHNAK_ENST00000257247.7_Intron|AHNAK_ENST00000530124.1_Intron	NM_001620.1	NP_001611.1	Q09666	AHNK_HUMAN	AHNAK nucleoprotein	2424					protein oligomerization (GO:0051259)|regulation of RNA splicing (GO:0043484)|regulation of voltage-gated calcium channel activity (GO:1901385)	actin cytoskeleton (GO:0015629)|cell-cell contact zone (GO:0044291)|costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|vesicle (GO:0031982)	poly(A) RNA binding (GO:0044822)|S100 protein binding (GO:0044548)|structural molecule activity conferring elasticity (GO:0097493)			NS(3)|autonomic_ganglia(1)|breast(10)|central_nervous_system(5)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(33)|large_intestine(40)|liver(1)|lung(108)|ovary(13)|pancreas(4)|prostate(5)|skin(16)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(6)	268		Melanoma(852;0.155)				CAATGTCTGGCCCACTGACAT	0.478																																																0													78	76	77					11																	62294617		2202	4299	6501	SO:0001819	synonymous_variant	79026			M80899	CCDS31584.1, CCDS44625.1	11q12-q13	2008-02-05	2007-03-30		ENSG00000124942	ENSG00000124942			347	protein-coding gene	gene with protein product	"desmoyokin"	103390	"AHNAK nucleoprotein (desmoyokin)"			7987395, 12153988	Standard	NM_024060		Approved	MGC5395	uc001ntl.3	Q09666	OTTHUMG00000167558	ENST00000378024.4:c.7272G>A	11.37:g.62294617C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A1A586	Silent	SNP	ENST00000378024.4	37	CCDS31584.1																																																																																				0.478	AHNAK-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395572.1	NM_024060		T	62294617	C	T	62294617	2	4	648	1	0	0	0	0	0	0	0	1	414	726	26	2		2	AHNAK	11	62294617	Silent	SNP	C	TCGA-KM-8440-01A-11D-2310-10	1268360	62294617	72711899	29	40153										
MAML2	84441	hgsc.bcm.edu	37	chr11	95825362	95825362	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	tgttgctgttgctgttgctgCtgctgctgctgttgctgctg	14	9	0	0			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr11:95825362C>T	ENST00000524717.1	-	2	3117	c.1833G>A	c.(1831-1833)caG>caA	p.Q611Q		NM_032427.1	NP_115803.1	Q8IZL2	MAML2_HUMAN	mastermind-like 2 (Drosophila)	611					gene expression (GO:0010467)|Notch signaling pathway (GO:0007219)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription initiation from RNA polymerase II promoter (GO:0006367)	Golgi apparatus (GO:0005794)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)	p.Q611Q(2)	CRTC3/MAML2(26)|CRTC1/MAML2(516)	breast(2)|cervix(1)|endometrium(11)|kidney(4)|large_intestine(8)|lung(12)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	43		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				gctgttgctgctgctgctgct	0.542			T	"MECT1, CRTC3"	salivary gland mucoepidermoid																																		Dom	yes		11	11q22-q23	84441	mastermind-like 2 (Drosophila)		E	2	Substitution - coding silent(2)	endometrium(1)|kidney(1)											39	44	42					11																	95825362		2057	4042	6099	SO:0001819	synonymous_variant	84441			AB058722	CCDS44714.1	11q	2008-02-05	2001-11-28		ENSG00000184384	ENSG00000184384			16259	protein-coding gene	gene with protein product		607537	"mastermind (Drosophila)-like 2"			12370315, 12386158	Standard	NM_032427		Approved	KIAA1819, MAM3	uc001pfw.1	Q8IZL2	OTTHUMG00000167677	ENST00000524717.1:c.1833G>A	11.37:g.95825362C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7MD26|Q6AI23|Q6Y3A3|Q8IUL3|Q96JK6	Silent	SNP	ENST00000524717.1	37	CCDS44714.1																																																																																				0.542	MAML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395540.1			T	95825362	C	T	95825362	2	4	648	1	0	0	0	0	0	0	0	1	9213	796	28	2		2	MAML2	11	95825362	Silent	SNP	C	TCGA-KM-8440-01A-11D-2310-10	33530745	95825362	39181154	30	40154										
MLL2	8085	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	49436390	49436390	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	gaggcctgggtaggagtccaTtgggctgctggagggcagat	19	7	0	1	rs372271746		TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr12:49436390T>C	ENST00000301067.7	-	27	5820	c.5821A>G	c.(5821-5823)Atg>Gtg	p.M1941V		NM_003482.3	NP_003473.3	O14686	KMT2D_HUMAN	lysine (K)-specific methyltransferase 2D	1941					chromatin silencing (GO:0006342)|histone H3-K4 methylation (GO:0051568)|oocyte growth (GO:0001555)|oogenesis (GO:0048477)|positive regulation of cell proliferation (GO:0008284)|positive regulation of intracellular estrogen receptor signaling pathway (GO:0033148)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|response to estrogen (GO:0043627)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)										TAGGAGTCCATTGGGCTGCTG	0.562																																																0								T	VAL/MET	1,3979		0,1,1989	63	69	67		5821	4.2	1	12		67	0,8330		0,0,4165	no	missense	MLL2	NM_003482.3	21	0,1,6154	CC,CT,TT		0.0,0.0251,0.0081	benign	1941/5538	49436390	1,12309	1990	4165	6155	SO:0001583	missense	8085			AF010403	CCDS44873.1	12q13.12	2013-05-09	2013-05-09	2013-05-09	ENSG00000167548	ENSG00000167548		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	7133	protein-coding gene	gene with protein product		602113	"trinucleotide repeat containing 21", "myeloid/lymphoid or mixed-lineage leukemia 2"	TNRC21, MLL2		9247308	Standard	NM_003482		Approved	ALR, MLL4, CAGL114		O14686	OTTHUMG00000166524	ENST00000301067.7:c.5821A>G	12.37:g.49436390T>C	ENSP00000301067:p.Met1941Val	Somatic		WXS	Illumina HiSeq	Phase_I	O14687	Missense_Mutation	SNP	ENST00000301067.7	37	CCDS44873.1	.	.	.	.	.	.	.	.	.	.	T	9.790	1.177703	0.21787	2.51E-4	0.0	ENSG00000167548	ENST00000301067	T	0.79352	-1.26	5.36	4.18	0.49190	.	0.163095	0.29424	N	0.012200	T	0.60508	0.2274	N	0.12182	0.205	0.31552	N	0.658643	B	0.14012	0.009	B	0.11329	0.006	T	0.61888	-0.6970	10	0.87932	D	0	.	9.4065	0.38464	0.1589:0.0:0.0:0.8411	.	1941	O14686	MLL2_HUMAN	V	1941	ENSP00000301067:M1941V	ENSP00000301067:M1941V	M	-	1	0	MLL2	47722657	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	1.991000	0.40727	0.836000	0.34901	0.459000	0.35465	ATG		0.562	KMT2D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390183.2			C	49436390	T	C	49436390	3	2	648	1	0	0	0	0	1	0	0	0	9628	1493	52	3	10904	3	MLL2	12	49436390	Missense_Mutation	SNP	T	TCGA-KM-8440-01A-11D-2310-10		49436390	84415505	31	40155										
RBM19	9904	hgsc.bcm.edu;ucsc.edu	37	chr12	114261040	114261040	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	ggtgccagctcacagctgaaGggtctgctcctcgctgtcgc	13	14	2	1			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr12:114261040G>T	ENST00000545145.2	-	24	2950	c.2872C>A	c.(2872-2874)Ctt>Att	p.L958I	RBM19_ENST00000261741.5_Missense_Mutation_p.L958I|RBM19_ENST00000392561.3_Missense_Mutation_p.L958I	NM_001146699.1	NP_001140171.1	Q9Y4C8	RBM19_HUMAN	RNA binding motif protein 19	958					multicellular organismal development (GO:0007275)|positive regulation of embryonic development (GO:0040019)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(10)|liver(1)|lung(22)|ovary(1)|skin(3)|stomach(4)	55	Medulloblastoma(191;0.163)|all_neural(191;0.178)					CACAGCTGAAGGGTCTGCTCC	0.657																																																0													46	40	42					12																	114261040		2203	4300	6503	SO:0001583	missense	9904			AL117547	CCDS9172.1	12q24.21	2013-02-12				ENSG00000122965		"RNA binding motif (RRM) containing"	29098	protein-coding gene	gene with protein product						9734811, 11230166	Standard	NM_016196		Approved	DKFZp586F1023, KIAA0682	uc009zwi.2	Q9Y4C8	OTTHUMG00000169646	ENST00000545145.2:c.2872C>A	12.37:g.114261040G>T	ENSP00000442053:p.Leu958Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5X9|Q9BPY6|Q9UFN5	Missense_Mutation	SNP	ENST00000545145.2	37	CCDS9172.1	.	.	.	.	.	.	.	.	.	.	G	18.65	3.670262	0.67814	.	.	ENSG00000122965	ENST00000545145;ENST00000392561;ENST00000261741	T;T;T	0.05786	3.39;3.39;3.39	4.39	4.39	0.52855	.	0.000000	0.43579	D	0.000543	T	0.05318	0.0141	N	0.22421	0.69	0.22479	N	0.999061	B	0.15719	0.014	B	0.15870	0.014	T	0.28396	-1.0045	10	0.52906	T	0.07	-2.5835	11.2472	0.49004	0.0:0.0:0.818:0.182	.	958	Q9Y4C8	RBM19_HUMAN	I	958	ENSP00000442053:L958I;ENSP00000376344:L958I;ENSP00000261741:L958I	ENSP00000261741:L958I	L	-	1	0	RBM19	112745423	1.000000	0.71417	0.974000	0.42286	0.971000	0.66376	3.487000	0.53222	2.281000	0.76405	0.462000	0.41574	CTT		0.657	RBM19-003	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405251.1	NM_016196		T	114261040	G	T	114261040	3	4	648	1	0	0	0	0	1	0	0	0	13134	1000	35	4	14	4	RBM19	12	114261040	Missense_Mutation	SNP	G	TCGA-KM-8440-01A-11D-2310-10	64824650	114261040	19590855	32	40156										
FOXO1	2308	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr13	41134356	41134356	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	atgctggattggccatatgtAtatttttggtagtttgggct	12	4	0	0			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr13:41134356A>T	ENST00000379561.5	-	2	1656	c.1272T>A	c.(1270-1272)taT>taA	p.Y424*	FOXO1_ENST00000473775.1_5'Flank	NM_002015.3	NP_002006.2	Q12778	FOXO1_HUMAN	forkhead box O1	424	Required for interaction with RUNX2. {ECO:0000250}.|Sufficient for interaction with NLK. {ECO:0000250}.				apoptotic process (GO:0006915)|autophagy (GO:0006914)|blood vessel development (GO:0001568)|cellular glucose homeostasis (GO:0001678)|cellular response to cold (GO:0070417)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to hyperoxia (GO:0071455)|cellular response to insulin stimulus (GO:0032869)|cellular response to nitric oxide (GO:0071732)|cellular response to oxidative stress (GO:0034599)|cellular response to starvation (GO:0009267)|endocrine pancreas development (GO:0031018)|epidermal growth factor receptor signaling pathway (GO:0007173)|fat cell differentiation (GO:0045444)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|negative regulation of apoptotic process (GO:0043066)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of stress-activated MAPK cascade (GO:0032873)|negative regulation of transcription, DNA-templated (GO:0045892)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of apoptotic process (GO:0043065)|positive regulation of autophagy (GO:0010508)|positive regulation of gluconeogenesis (GO:0045722)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein acetylation (GO:0006473)|regulation of cell proliferation (GO:0042127)|regulation of energy homeostasis (GO:2000505)|regulation of gluconeogenesis by regulation of transcription from RNA polymerase II promoter (GO:0035947)|temperature homeostasis (GO:0001659)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|protein phosphatase 2A binding (GO:0051721)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|sequence-specific DNA binding (GO:0043565)|transcription factor binding transcription factor activity (GO:0000989)|ubiquitin protein ligase binding (GO:0031625)		PAX7/FOXO1(197)|PAX3/FOXO1(749)	central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(7)|kidney(1)|large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)	20		Lung NSC(96;1.18e-05)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;7.32e-09)|Epithelial(112;2.87e-06)|OV - Ovarian serous cystadenocarcinoma(117;6.98e-05)|GBM - Glioblastoma multiforme(144;0.00394)|BRCA - Breast invasive adenocarcinoma(63;0.0815)		GGCCATATGTATATTTTTGGT	0.488																																																0													127	115	119					13																	41134356		2203	4300	6503	SO:0001587	stop_gained	2308				CCDS9371.1	13q14.1	2011-08-01	2007-05-02	2007-05-02	ENSG00000150907	ENSG00000150907		"Forkhead boxes"	3819	protein-coding gene	gene with protein product		136533	"forkhead homolog in rhabdomyosarcoma"	FKHR, FOXO1A		8275086, 15057823	Standard	NM_002015		Approved	FKH1	uc001uxl.4	Q12778	OTTHUMG00000016775	ENST00000379561.5:c.1272T>A	13.37:g.41134356A>T	ENSP00000368880:p.Tyr424*	Somatic		WXS	Illumina HiSeq	Phase_I	O43523|Q5VYC7|Q6NSK6	Nonsense_Mutation	SNP	ENST00000379561.5	37	CCDS9371.1	.	.	.	.	.	.	.	.	.	.	A	36	5.891446	0.97074	.	.	ENSG00000150907	ENST00000379561	.	.	.	5.78	-3.28	0.05033	.	0.164042	0.56097	D	0.000027	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-9.8585	14.9205	0.70835	0.6511:0.0:0.3489:0.0	.	.	.	.	X	424	.	ENSP00000368880:Y424X	Y	-	3	2	FOXO1	40032356	0.044000	0.20184	0.032000	0.17829	0.584000	0.36387	-0.617000	0.05584	-0.725000	0.04901	-0.959000	0.02639	TAT		0.488	FOXO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044634.3	NM_002015		T	41134356	A	T	41134356	4	4	648	1	0	0	0	0	0	1	0	0	6030	456	16	5	699	5	FOXO1	13	41134356	Nonsense_Mutation	SNP	A	TCGA-KM-8440-01A-11D-2310-10		41134356	74035522	33	40157										
DZIP1	22873	bcgsc.ca	37	chr13	96293631	96293631	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	gtttgcactcttccttgagcGtcttgatctcccccgcctgc	8	16	3	2	rs9561921	byFrequency	TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr13:96293631G>A	ENST00000376829.2	-	5	1366	c.515C>T	c.(514-516)aCg>aTg	p.T172M	DZIP1_ENST00000361396.2_Missense_Mutation_p.T172M|DZIP1_ENST00000361156.3_Missense_Mutation_p.T172M|DZIP1_ENST00000347108.3_Missense_Mutation_p.T172M|DZIP1_ENST00000466027.1_5'UTR	NM_198968.3	NP_945319.1	Q86YF9	DZIP1_HUMAN	DAZ interacting zinc finger protein 1	172			T -> M (in dbSNP:rs9561921).		cilium assembly (GO:0042384)|germ cell development (GO:0007281)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)			endometrium(1)|kidney(1)|large_intestine(20)|lung(11)|ovary(2)|pancreas(1)|skin(1)|stomach(1)	38	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)			TTCCTTGAGCGTCTTGATCTC	0.602													G|||	493	0.0984425	0.112	0.0922	5008	,	,		16754	0.1716		0.0656	False		,,,				2504	0.0429															0								G	MET/THR,MET/THR	475,3931	223.9+/-240.3	30,415,1758	112	71	85		515,515	3.5	0.1	13	dbSNP_119	85	758,7842	181.3+/-230.0	34,690,3576	yes	missense,missense	DZIP1	NM_014934.3,NM_198968.2	81,81	64,1105,5334	AA,AG,GG		8.814,10.7808,9.4802	benign,benign	172/849,172/868	96293631	1233,11773	2203	4300	6503	SO:0001583	missense	22873			AB023213	CCDS9477.1, CCDS9478.1	13q32.1	2013-05-22	2013-05-22		ENSG00000134874	ENSG00000134874		"Zinc fingers, C2H2-type"	20908	protein-coding gene	gene with protein product		608671	"DAZ interacting protein 1"				Standard	NM_014934		Approved	KIAA0996, DZIP	uc001vmk.4	Q86YF9	OTTHUMG00000017224	ENST00000376829.2:c.515C>T	13.37:g.96293631G>A	ENSP00000366025:p.Thr172Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5W078|Q5W079|Q8WY45|Q8WY46|Q9UGA5|Q9Y2K0	Missense_Mutation	SNP	ENST00000376829.2	37	CCDS9478.1	265	0.12133699633699634	68	0.13821138211382114	43	0.11878453038674033	102	0.17832167832167833	52	0.06860158311345646	G	1.494	-0.553964	0.03996	0.107808	0.08814	ENSG00000134874	ENST00000347108;ENST00000361156;ENST00000361396;ENST00000376829	T;T;T;T	0.42513	0.97;0.97;0.97;0.97	4.68	3.49	0.39957	.	1.685550	0.02965	N	0.143627	T	0.00039	0.0001	N	0.02011	-0.69	0.80722	P	0.0	B;B	0.06786	0.001;0.001	B;B	0.01281	0.0;0.0	T	0.09840	-1.0656	9	0.39692	T	0.17	-7.0E-4	4.2879	0.10863	0.5511:0.1859:0.263:0.0	rs9561921;rs57792076;rs9561921	172;172	Q86YF9-2;Q86YF9	.;DZIP1_HUMAN	M	172	ENSP00000257312:T172M;ENSP00000355018:T172M;ENSP00000355175:T172M;ENSP00000366025:T172M	ENSP00000257312:T172M	T	-	2	0	DZIP1	95091632	0.000000	0.05858	0.139000	0.22197	0.002000	0.02628	0.646000	0.24797	0.661000	0.30985	-0.238000	0.12139	ACG		0.602	DZIP1-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000045496.3	NM_014934		A	96293631	G	A	96293631	3	1	648	1	0	0	0	0	1	0	0	0	4865	1145	40	1	2164	1	DZIP1	13	96293631	Missense_Mutation	SNP	G	TCGA-KM-8440-01A-11D-2310-10	55159275	96293631	18876247	34	40158										
DDX24	57062	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr14	94524209	94524209	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	gactttaggaatatccagacCccgagctgccacatctgttg	9	12	1	1			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr14:94524209C>A	ENST00000330836.5	-	6	2079	c.1948G>T	c.(1948-1950)Ggt>Tgt	p.G650C	DDX24_ENST00000555054.1_Missense_Mutation_p.G607C|DDX24_ENST00000544005.1_Missense_Mutation_p.G400C	NM_020414.3	NP_065147.1	Q9GZR7	DDX24_HUMAN	DEAD (Asp-Glu-Ala-Asp) box helicase 24	650	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				RNA metabolic process (GO:0016070)	membrane (GO:0016020)|nucleolus (GO:0005730)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|poly(A) RNA binding (GO:0044822)|RNA helicase activity (GO:0003724)			cervix(3)|endometrium(4)|kidney(4)|large_intestine(5)|lung(3)|ovary(2)|skin(1)|urinary_tract(1)	23		all_cancers(154;0.12)		Epithelial(152;0.114)|all cancers(159;0.19)|COAD - Colon adenocarcinoma(157;0.207)		ATATCCAGACCCCGAGCTGCC	0.423																																																0													56	56	56					14																	94524209		2203	4300	6503	SO:0001583	missense	57062			AF214731	CCDS9918.1	14q32	2013-07-16	2013-07-16			ENSG00000089737		"DEAD-boxes"	13266	protein-coding gene	gene with protein product		606181	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 24", "DEAD (Asp-Glu-Ala-Asp) box polypeptide 24"			10936056, 18289627	Standard	NM_020414		Approved		uc001ycj.3	Q9GZR7		ENST00000330836.5:c.1948G>T	14.37:g.94524209C>A	ENSP00000328690:p.Gly650Cys	Somatic		WXS	Illumina HiSeq	Phase_I	E7EMJ4|Q4V9L5	Missense_Mutation	SNP	ENST00000330836.5	37	CCDS9918.1	.	.	.	.	.	.	.	.	.	.	C	28.5	4.926437	0.92319	.	.	ENSG00000089737	ENST00000330836;ENST00000544005;ENST00000440370;ENST00000543787;ENST00000555054;ENST00000542247	T;T;T	0.63417	-0.04;-0.04;-0.04	5.5	5.5	0.81552	Helicase, C-terminal (3);	0.000000	0.85682	D	0.000000	D	0.87861	0.6284	H	0.98199	4.17	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.91925	0.5550	10	0.87932	D	0	8.0052	19.7499	0.96263	0.0:1.0:0.0:0.0	.	650	Q9GZR7	DDX24_HUMAN	C	650;400;595;276;607;607	ENSP00000328690:G650C;ENSP00000440623:G400C;ENSP00000452145:G607C	ENSP00000328690:G650C	G	-	1	0	DDX24	93593962	1.000000	0.71417	0.998000	0.56505	0.983000	0.72400	7.818000	0.86416	2.729000	0.93468	0.563000	0.77884	GGT		0.423	DDX24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412861.1	NM_020414		A	94524209	C	A	94524209	3	1	648	1	0	0	0	0	1	0	0	0	4353	623	22	4	647	4	DDX24	14	94524209	Missense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10		94524209	12825331	35	40159										
CSK	1445	broad.mit.edu	37	chr15	75093415	75093415	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	cgtggaggagaagggcgggcTctacatcgtcactgagtaca	15	9	2	2			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr15:75093415T>C	ENST00000220003.9	+	9	1514	c.785T>C	c.(784-786)cTc>cCc	p.L262P	CSK_ENST00000567571.1_Missense_Mutation_p.L262P|CSK_ENST00000309470.9_Missense_Mutation_p.L262P|CSK_ENST00000439220.2_Missense_Mutation_p.L262P	NM_004383.2	NP_004374.1	P41240	CSK_HUMAN	c-src tyrosine kinase	262	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				adherens junction organization (GO:0034332)|blood coagulation (GO:0007596)|brain development (GO:0007420)|cellular response to peptide hormone stimulus (GO:0071375)|epidermal growth factor receptor signaling pathway (GO:0007173)|negative regulation of bone resorption (GO:0045779)|negative regulation of cell proliferation (GO:0008285)|negative regulation of ERK1 and ERK2 cascade (GO:0070373)|negative regulation of Golgi to plasma membrane protein transport (GO:0042997)|negative regulation of interleukin-6 production (GO:0032715)|negative regulation of kinase activity (GO:0033673)|negative regulation of low-density lipoprotein particle clearance (GO:0010989)|negative regulation of phagocytosis (GO:0050765)|oligodendrocyte differentiation (GO:0048709)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet activation (GO:0030168)|positive regulation of MAP kinase activity (GO:0043406)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of Fc receptor mediated stimulatory signaling pathway (GO:0060368)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein C-terminus binding (GO:0008022)|protein tyrosine kinase activity (GO:0004713)	p.L262R(1)		central_nervous_system(1)|lung(2)	3						AAGGGCGGGCTCTACATCGTC	0.642																																																1	Substitution - Missense(1)	skin(1)											86	87	86					15																	75093415		2197	4296	6493	SO:0001583	missense	1445				CCDS10269.1	15q24.1	2013-02-14			ENSG00000103653	ENSG00000103653	2.7.10.1	"SH2 domain containing"	2444	protein-coding gene	gene with protein product		124095				1377109	Standard	NM_004383		Approved		uc010bka.3	P41240	OTTHUMG00000142814	ENST00000220003.9:c.785T>C	15.37:g.75093415T>C	ENSP00000220003:p.Leu262Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3N2|Q6FGZ6	Missense_Mutation	SNP	ENST00000220003.9	37	CCDS10269.1	.	.	.	.	.	.	.	.	.	.	T	23.2	4.382491	0.82792	.	.	ENSG00000103653	ENST00000220003;ENST00000439220;ENST00000451345;ENST00000309470	T;T;T	0.38560	1.13;1.13;1.13	5.4	5.4	0.78164	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.64402	D	0.000004	T	0.50017	0.1591	L	0.33189	0.99	0.80722	D	1	D	0.59357	0.985	D	0.66351	0.943	T	0.52983	-0.8502	10	0.87932	D	0	-20.0374	10.6013	0.45369	0.0:0.0779:0.0:0.9221	.	262	P41240	CSK_HUMAN	P	262;262;211;262	ENSP00000220003:L262P;ENSP00000414764:L262P;ENSP00000438808:L262P	ENSP00000220003:L262P	L	+	2	0	CSK	72880468	1.000000	0.71417	0.997000	0.53966	0.990000	0.78478	7.553000	0.82203	2.043000	0.60533	0.482000	0.46254	CTC		0.642	CSK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286398.2	NM_004383		C	75093415	T	C	75093415	3	2	648	1	0	0	0	0	1	0	0	0	3945	1551	54	3	815	3	CSK	15	75093415	Missense_Mutation	SNP	T	TCGA-KM-8440-01A-11D-2310-10		75093415	27437977	36	40160										
KIAA0430	9665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	15695994	15695994	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	agtatgaagtaaagaccgcaCattctttgcaaacaaataca	6	8	1	2			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr16:15695994C>A	ENST00000396368.3	-	23	4686	c.4480G>T	c.(4480-4482)Gtg>Ttg	p.V1494L	KIAA0430_ENST00000548025.1_Missense_Mutation_p.V1491L|KIAA0430_ENST00000547936.1_5'UTR|KIAA0430_ENST00000551742.1_Missense_Mutation_p.V1494L|KIAA0430_ENST00000540441.2_Missense_Mutation_p.V1329L|KIAA0430_ENST00000602337.1_Missense_Mutation_p.V1491L|KIAA0430_ENST00000344181.3_Missense_Mutation_p.V1177L	NM_001184998.1|NM_001184999.1|NM_014647.3	NP_001171927.1|NP_001171928.1|NP_055462.2	Q9Y4F3	MARF1_HUMAN	KIAA0430	1494	HTH OST-type 8. {ECO:0000255|PROSITE- ProRule:PRU00975}.				double-strand break repair (GO:0006302)|female meiotic division (GO:0007143)|negative regulation of phosphatase activity (GO:0010923)|oogenesis (GO:0048477)|regulation of gene expression (GO:0010468)	membrane (GO:0016020)|peroxisome (GO:0005777)	nucleotide binding (GO:0000166)|RNA binding (GO:0003723)			breast(4)|endometrium(8)|kidney(4)|large_intestine(2)|lung(13)|ovary(3)|prostate(5)|skin(1)	40						AAAGACCGCACATTCTTTGCA	0.388																																																0													205	206	206					16																	15695994		1888	4121	6009	SO:0001583	missense	9665			AB007890	CCDS10562.2, CCDS53990.1, CCDS55991.1	16p13.11	2013-01-11			ENSG00000166783	ENSG00000166783		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	29562	protein-coding gene	gene with protein product	"limkain b1", "protein phosphatase 1, regulatory subunit 34", "meiosis arrest female 1"	614593				9455477, 10493829, 15932519, 22442484, 23090997	Standard	NM_014647		Approved	LKAP, PPP1R34, Marf1	uc010uzw.2	Q9Y4F3	OTTHUMG00000129884	ENST00000396368.3:c.4480G>T	16.37:g.15695994C>A	ENSP00000379654:p.Val1494Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8MSK2|B2RNX2|B4DYY9|B7ZMG1|B7ZMG2|F8VV09|Q6P1R6|Q8WYR2|Q9Y4J9	Missense_Mutation	SNP	ENST00000396368.3	37	CCDS10562.2	.	.	.	.	.	.	.	.	.	.	C	16.56	3.157561	0.57368	.	.	ENSG00000166783	ENST00000396368;ENST00000540441;ENST00000321370;ENST00000344181;ENST00000548025;ENST00000551742;ENST00000551298	T;T;T;T;T	0.29655	1.56;1.56;1.56;1.56;1.56	5.69	5.69	0.88448	.	0.063140	0.64402	D	0.000007	T	0.45256	0.1333	L	0.36672	1.1	0.28960	N	0.88988	D;P;P;D	0.71674	0.997;0.88;0.88;0.998	D;B;B;D	0.80764	0.99;0.23;0.23;0.994	T	0.36138	-0.9760	10	0.11485	T	0.65	.	19.816	0.96568	0.0:1.0:0.0:0.0	.	1493;1491;1490;1493	Q9Y4F3-5;F8VV09;Q9Y4F3-4;Q9Y4F3	.;.;.;LKAP_HUMAN	L	1494;1329;1434;1177;1491;1494;1355	ENSP00000379654:V1494L;ENSP00000439819:V1329L;ENSP00000341939:V1177L;ENSP00000449376:V1491L;ENSP00000450309:V1494L	ENSP00000315718:V1434L	V	-	1	0	KIAA0430	15603495	1.000000	0.71417	0.985000	0.45067	0.188000	0.23474	4.643000	0.61390	2.687000	0.91594	0.561000	0.74099	GTG		0.388	KIAA0430-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252131.2	NM_014647		A	15695994	C	A	15695994	3	1	648	1	0	0	0	0	1	0	0	0	8184	478	17	4	768	4	KIAA0430	16	15695994	Missense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10		15695994	74658759	37	40161										
COQ7	10229	mdanderson.org;bcgsc.ca	37	chr16	19085298	19085298	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	gttcaatgagttgatggttaCgttcagggtccggccaacag	13	8	2	2	rs11074359	byFrequency	TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr16:19085298C>T	ENST00000321998.5	+	3	374	c.308C>T	c.(307-309)aCg>aTg	p.T103M	COQ7_ENST00000568985.1_Missense_Mutation_p.T103M|COQ7_ENST00000544894.2_Missense_Mutation_p.T65M|COQ7_ENST00000569127.1_Missense_Mutation_p.T80M	NM_016138.4	NP_057222.2	Q99807	COQ7_HUMAN	coenzyme Q7 homolog, ubiquinone (yeast)	103	2 X approximate tandem repeats.		T -> M (in dbSNP:rs11074359). {ECO:0000269|PubMed:10373327, ECO:0000269|PubMed:10501970, ECO:0000269|PubMed:11230166, ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:9020081}.		age-dependent response to oxidative stress (GO:0001306)|cellular response to oxidative stress (GO:0034599)|determination of adult lifespan (GO:0008340)|in utero embryonic development (GO:0001701)|mitochondrial ATP synthesis coupled electron transport (GO:0042775)|mitochondrion morphogenesis (GO:0070584)|neural tube formation (GO:0001841)|neurogenesis (GO:0022008)|small molecule metabolic process (GO:0044281)|ubiquinone biosynthetic process (GO:0006744)	mitochondrial inner membrane (GO:0005743)|nucleus (GO:0005634)	metal ion binding (GO:0046872)			breast(1)|large_intestine(1)|lung(3)|prostate(1)|skin(3)|urinary_tract(1)	10						TTGATGGTTACGTTCAGGGTC	0.448													C|||	2878	0.574681	0.2655	0.6196	5008	,	,		19214	0.8145		0.6461	False		,,,				2504	0.6401															0								C	MET/THR,MET/THR	1489,2905	475.2+/-357.2	229,1031,937	125	104	111		194,308	5.9	0.3	16	dbSNP_120	111	5496,3104	657.7+/-401.5	1773,1950,577	yes	missense,missense	COQ7	NM_001190983.1,NM_016138.4	81,81	2002,2981,1514	TT,TC,CC		36.093,33.8871,46.2444	possibly-damaging,possibly-damaging	65/180,103/218	19085298	6985,6009	2197	4300	6497	SO:0001583	missense	10229			U81276	CCDS10574.1, CCDS53993.1	16p12.3	2008-05-14	2001-11-28		ENSG00000167186	ENSG00000167186			2244	protein-coding gene	gene with protein product		601683	"coenzyme Q, 7 (rat, yeast) homolog"			9020081, 10373325	Standard	NM_016138		Approved	CLK-1, CAT5	uc002dfr.3	Q99807	OTTHUMG00000131455	ENST00000321998.5:c.308C>T	16.37:g.19085298C>T	ENSP00000322316:p.Thr103Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDA9|Q9BTT7|Q9H0T5|Q9UEW5|Q9UNR5	Missense_Mutation	SNP	ENST00000321998.5	37	CCDS10574.1	1329	0.6085164835164835	146	0.2967479674796748	225	0.6215469613259669	473	0.8269230769230769	485	0.6398416886543535	C	18.35	3.605641	0.66445	0.338871	0.63907	ENSG00000167186	ENST00000321998;ENST00000544894	T;T	0.43688	0.94;0.94	5.91	5.91	0.95273	Ferritin/ribonucleotide reductase-like (1);Ferritin-related (1);	0.424017	0.29616	N	0.011650	T	0.00012	0.0000	L	0.39898	1.24	0.80722	P	0.0	P	0.47034	0.889	P	0.50109	0.631	T	0.13791	-1.0496	9	0.66056	D	0.02	-4.7588	19.9089	0.97019	0.0:1.0:0.0:0.0	rs11074359;rs17357840;rs60588972;rs11074359	103	Q99807	COQ7_HUMAN	M	103;65	ENSP00000322316:T103M;ENSP00000442923:T65M	ENSP00000322316:T103M	T	+	2	0	COQ7	18992799	0.228000	0.23718	0.328000	0.25416	0.913000	0.54294	3.071000	0.50041	2.793000	0.96121	0.655000	0.94253	ACG		0.448	COQ7-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254275.3	NM_016138		T	19085298	C	T	19085298	3	4	648	1	0	0	0	0	1	0	0	0	3752	536	19	1	318	1	COQ7	16	19085298	Missense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10	3389304	19085298	71269455	38	40162										
CES7	221223	bcgsc.ca	37	chr16	55883563	55883563	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	aacaatgtcccccttcaggaAggcaccaccgaacacaaagc	7	15	1	0			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr16:55883563A>G	ENST00000290567.9	-	11	1517	c.1396T>C	c.(1396-1398)Ttc>Ctc	p.F466L	CES5A_ENST00000541580.1_5'UTR|CES5A_ENST00000319165.9_Intron|CES5A_ENST00000521992.1_Missense_Mutation_p.F495L|CES5A_ENST00000518005.1_Missense_Mutation_p.F360L|CES5A_ENST00000520435.1_Missense_Mutation_p.F436L	NM_001143685.1	NP_001137157.1	Q6NT32	EST5A_HUMAN	carboxylesterase 5A	466						extracellular region (GO:0005576)	carboxylic ester hydrolase activity (GO:0052689)			breast(2)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(8)|lung(13)|ovary(4)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	39						CCCTTCAGGAAGGCACCACCG	0.552																																																0													190	164	172					16																	55883563		1568	3582	5150	SO:0001583	missense	221223			AK090997	CCDS10755.1, CCDS45490.1, CCDS54012.1	16q13	2010-10-12	2010-10-12	2010-10-12	ENSG00000159398	ENSG00000159398	3.1.1.1	"Carboxylesterases"	26459	protein-coding gene	gene with protein product			"carboxylesterase 7"	CES7		20931200	Standard	NM_145024		Approved	FLJ31547, CES4C1, CES5, CAUXIN	uc021tir.1	Q6NT32	OTTHUMG00000133236	ENST00000290567.9:c.1396T>C	16.37:g.55883563A>G	ENSP00000290567:p.Phe466Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z252|B7ZLB6|Q8NBC8|Q96DN9	Missense_Mutation	SNP	ENST00000290567.9	37	CCDS45490.1	.	.	.	.	.	.	.	.	.	.	.	15.06	2.721874	0.48728	.	.	ENSG00000159398	ENST00000521992;ENST00000518005;ENST00000290567;ENST00000520435;ENST00000541580	T;T;T;T	0.64991	-0.13;-0.13;-0.13;-0.13	5.16	4.07	0.47477	Carboxylesterase, type B (1);	0.594901	0.15246	N	0.272633	T	0.46171	0.1379	N	0.25380	0.74	0.39277	D	0.964483	B	0.19331	0.035	B	0.26202	0.067	T	0.24584	-1.0156	10	0.10111	T	0.7	.	9.7766	0.40623	0.9157:0.0:0.0843:0.0	.	466	Q6NT32	EST5A_HUMAN	L	495;360;466;436;246	ENSP00000428864:F495L;ENSP00000428571:F360L;ENSP00000290567:F466L;ENSP00000428887:F436L	ENSP00000290567:F466L	F	-	1	0	CES5A	54441064	0.999000	0.42202	1.000000	0.80357	0.950000	0.60333	0.852000	0.27764	1.046000	0.40249	-0.274000	0.10170	TTC		0.552	CES5A-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000256975.3	NM_145024		G	55883563	A	G	55883563	3	3	648	1	0	0	0	0	1	0	0	0	3274	72	3	3	343	3	CES7	16	55883563	Missense_Mutation	SNP	A	TCGA-KM-8440-01A-11D-2310-10	36798265	55883563	34471190	39	40163										
PKD1L2	114780	hgsc.bcm.edu;bcgsc.ca	37	chr16	81213360	81213360	+	RNA	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	aggaccttggccaaaatcctCtgagtctgcaggcatccagg	11	12	2	1			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr16:81213360C>T	ENST00000527937.1	-	0	208				PKD1L2_ENST00000531391.1_RNA|PKD1L2_ENST00000337114.4_RNA|PKD1L2_ENST00000525539.1_RNA|PKD1L2_ENST00000533478.1_RNA			Q7Z442	PK1L2_HUMAN	polycystic kidney disease 1-like 2						ion transport (GO:0006811)|neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)|carbohydrate binding (GO:0030246)			breast(2)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(9)|lung(20)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	44						CCAAAATCCTCTGAGTCTGCA	0.597																																																0													61	63	63					16																	81213360		1958	4156	6114			114780			AY164483	CCDS61998.1, CCDS61999.1	16q23.2	2014-09-11			ENSG00000166473	ENSG00000166473			21715	protein-coding gene	gene with protein product		607894				12782129	Standard	NM_052892		Approved	KIAA1879	uc002fgf.1	Q7Z442	OTTHUMG00000166126		16.37:g.81213360C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UEE1|Q6ZN46|Q6ZSP2|Q8N1H9|Q96CL2|Q96Q08	Missense_Mutation	SNP	ENST00000527937.1	37		.	.	.	.	.	.	.	.	.	.	C	7.712	0.695352	0.15106	.	.	ENSG00000166473	ENST00000531391;ENST00000337114;ENST00000527937	T;T;T	0.69306	2.5;-0.39;2.15	5.02	-3.31	0.04988	Egg jelly receptor, REJ-like (1);PKD/REJ-like protein (1);	1.373740	0.04784	N	0.430403	T	0.52256	0.1723	.	.	.	0.09310	N	1	B;B;B	0.28933	0.103;0.228;0.082	B;B;B	0.28011	0.085;0.083;0.019	T	0.42413	-0.9453	9	0.54805	T	0.06	7.5086	5.859	0.18736	0.0:0.3056:0.3519:0.3425	.	32;717;717	Q7Z442-6;Q7Z442-3;Q7Z442	.;.;PK1L2_HUMAN	K	32;717;32	ENSP00000436309:R32K;ENSP00000337397:R717K;ENSP00000432818:R32K	ENSP00000337397:R717K	R	-	2	0	PKD1L2	79770861	0.000000	0.05858	0.000000	0.03702	0.044000	0.14063	-2.213000	0.01224	-1.028000	0.03321	0.462000	0.41574	AGA		0.597	PKD1L2-007	KNOWN	basic|exp_conf	protein_coding	polymorphic_pseudogene	OTTHUMT00000387978.1			T	81213360	C	T	81213360	1	4	648	0	1	0	0	0	0	0	0	0	11972	913	32	2		2	PKD1L2	16	81213360	RNA	SNP	C	TCGA-KM-8440-01A-11D-2310-10	25329797	81213360	9141393	40	40164										
GLP2R	9340	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr17	9763353	9763353	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	tgaaggcctctacctccacaCgctgctggagcccacagtgc	10	16	1	1	rs145296340		TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr17:9763353C>T	ENST00000262441.5	+	7	1373	c.860C>T	c.(859-861)aCg>aTg	p.T287M	GLP2R_ENST00000574745.1_Missense_Mutation_p.T107M	NM_004246.1	NP_004237.1	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor	287					adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|positive regulation of cell proliferation (GO:0008284)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|glucagon receptor activity (GO:0004967)			endometrium(4)|large_intestine(7)|lung(22)|ovary(2)|prostate(2)|skin(6)|upper_aerodigestive_tract(1)	44					Glucagon recombinant(DB00040)|Teduglutide(DB08900)	TACCTCCACACGCTGCTGGAG	0.577													C|||	1	0.000199681	0.0	0.0	5008	,	,		14640	0.0		0.001	False		,,,				2504	0.0															0								C	MET/THR	1,4405	2.1+/-5.4	0,1,2202	81	70	74		860	3.2	0	17	dbSNP_134	74	17,8583	11.9+/-42.8	0,17,4283	yes	missense	GLP2R	NM_004246.1	81	0,18,6485	TT,TC,CC		0.1977,0.0227,0.1384	possibly-damaging	287/554	9763353	18,12988	2203	4300	6503	SO:0001583	missense	9340			AF105367	CCDS11150.1	17p13.3	2012-08-10			ENSG00000065325	ENSG00000065325		"GPCR / Class B : Glucagon receptors"	4325	protein-coding gene	gene with protein product		603659				9990065	Standard	NM_004246		Approved		uc002gmd.1	O95838	OTTHUMG00000130269	ENST00000262441.5:c.860C>T	17.37:g.9763353C>T	ENSP00000262441:p.Thr287Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VAT3	Missense_Mutation	SNP	ENST00000262441.5	37	CCDS11150.1	1|1	4.578754578754579E-4|4.578754578754579E-4	0|0	0.0|0.0	0|0	0.0|0.0	0|0	0.0|0.0	1|1	0.0013192612137203166|0.0013192612137203166	C|C	2.108|2.108	-0.404495|-0.404495	0.04832|0.04832	2.27E-4|2.27E-4	0.001977|0.001977	ENSG00000065325|ENSG00000065325	ENST00000458005|ENST00000396206;ENST00000304773;ENST00000262441	.|T	.|0.36699	.|1.24	5.34|5.34	3.25|3.25	0.37280|0.37280	.|GPCR, family 2-like (1);	.|1.422570	.|0.05107	.|N	.|0.488161	T|T	0.50274|0.50274	0.1606|0.1606	L|L	0.56124|0.56124	1.755|1.755	0.09310|0.09310	N|N	1|1	.|P	.|0.43412	.|0.806	.|P	.|0.48770	.|0.589	T|T	0.52328|0.52328	-0.8590|-0.8590	5|10	.|0.87932	.|D	.|0	.|.	14.9932|14.9932	0.71406|0.71406	0.0:0.5598:0.4402:0.0|0.0:0.5598:0.4402:0.0	.|.	.|287	.|O95838	.|GLP2R_HUMAN	C|M	140|287;262;287	.|ENSP00000262441:T287M	.|ENSP00000262441:T287M	R|T	+|+	1|2	0|0	GLP2R|GLP2R	9704078|9704078	0.026000|0.026000	0.19158|0.19158	0.000000|0.000000	0.03702|0.03702	0.012000|0.012000	0.07955|0.07955	0.682000|0.682000	0.25335|0.25335	0.657000|0.657000	0.30906|0.30906	0.655000|0.655000	0.94253|0.94253	CGC|ACG		0.577	GLP2R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252601.4			T	9763353	C	T	9763353	3	4	648	1	0	0	0	0	1	0	0	0	6460	536	19	1	886	1	GLP2R	17	9763353	Missense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10		9763353	71431857	41	40165										
KCNJ12	3768	hgsc.bcm.edu	37	chr17	21318691	21318692	+	Frame_Shift_Del	DEL	GT	GT	-													0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	gggccaacccctacagcatcGtgtcatcggaggaggacggg					rs556074330	byFrequency	TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr17:21318691_21318692delGT	ENST00000583088.1	+	3	932_933	c.37_38delGT	c.(37-39)gtgfs	p.V13fs	KCNJ12_ENST00000331718.5_Frame_Shift_Del_p.V13fs	NM_021012.4	NP_066292.2	Q14500	KCJ12_HUMAN	potassium inwardly-rectifying channel, subfamily J, member 12	13					muscle contraction (GO:0006936)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|protein homotetramerization (GO:0051289)|regulation of heart contraction (GO:0008016)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|intrinsic component of membrane (GO:0031224)|plasma membrane (GO:0005886)	inward rectifier potassium channel activity (GO:0005242)			NS(1)|breast(4)|endometrium(4)|kidney(1)|large_intestine(5)|lung(39)|ovary(5)|skin(8)|stomach(3)	70				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)|Yohimbine(DB01392)	CTACAGCATCGTGTCATCGGAG	0.708										Prostate(3;0.18)				24	0.00479233	0.0174	0.0014	5008	,	,		32853	0.0		0.0	False		,,,				2504	0.0															0																																										SO:0001589	frameshift_variant	100134444			L36069	CCDS11219.1	17p11.1	2011-07-05	2004-01-13		ENSG00000184185	ENSG00000184185		"Potassium channels", "Voltage-gated ion channels / Potassium channels, Inwardly rectifying"	6258	protein-coding gene	gene with protein product		602323	"potassium inwardly-rectifying channel, subfamily J, inhibitor 1"	KCNJN1		7859381, 12417321, 16382105	Standard	NM_021012		Approved	Kir2.2, Kir2.2v, IRK2, hIRK1	uc021tss.1	Q14500	OTTHUMG00000132039	ENST00000583088.1:c.37_38delGT	17.37:g.21318693_21318694delGT	ENSP00000463778:p.Val13fs	Somatic		WXS	Illumina HiSeq	Phase_I	O43401|Q15756|Q8NG63	Frame_Shift_Del	DEL	ENST00000583088.1	37	CCDS11219.1																																																																																				0.708	KCNJ12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255060.2	NM_021012		-	21318692	GT	-	21318691	7	5	648	1	0	1	0	1	0	0	0	0	8053	1145	40	0	39	0	KCNJ12	17	21318691	Frame_Shift_Del	DEL	GT	TCGA-KM-8440-01A-11D-2310-10	11555338	21318691	59876519	42	40166										
HEXIM1	10614	ucsc.edu	37	chr17	43226939	43226939	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	cttgtcatgactccgaggccAgtaagttgggggctcctgcc	13	12	1	1			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr17:43226939A>G	ENST00000332499.2	+	1	2256	c.382A>G	c.(382-384)Agt>Ggt	p.S128G	AC002117.1_ENST00000589950.1_RNA|AC002117.1_ENST00000452741.1_RNA	NM_006460.2	NP_006451.1	O94992	HEXI1_HUMAN	hexamethylene bis-acetamide inducible 1	128					heart development (GO:0007507)|negative regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045736)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	cyclin-dependent protein serine/threonine kinase inhibitor activity (GO:0004861)|snRNA binding (GO:0017069)			breast(1)|kidney(2)|lung(3)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11						CTCCGAGGCCAGTAAGTTGGG	0.652											OREG0024474	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													9	12	11					17																	43226939		2179	4275	6454	SO:0001583	missense	10614			AB021179	CCDS11495.1	17q21.31	2006-03-28				ENSG00000186834			24953	protein-coding gene	gene with protein product		607328				12119119, 12832472	Standard	NM_006460		Approved	CLP-1, HIS1, MAQ1, EDG1	uc002iig.3	O94992		ENST00000332499.2:c.382A>G	17.37:g.43226939A>G	ENSP00000328773:p.Ser128Gly	Somatic	914	WXS	Illumina HiSeq	Phase_I	B2R8Y5	Missense_Mutation	SNP	ENST00000332499.2	37	CCDS11495.1	.	.	.	.	.	.	.	.	.	.	A	9.214	1.031790	0.19590	.	.	ENSG00000186834	ENST00000332499	.	.	.	4.33	0.526	0.17078	.	0.614097	0.13321	U	0.396724	T	0.14874	0.0359	N	0.08118	0	0.22803	N	0.998716	B	0.02656	0.0	B	0.01281	0.0	T	0.22626	-1.0211	9	0.23302	T	0.38	-5.1148	4.2217	0.10561	0.4485:0.429:0.1225:0.0	.	128	O94992	HEXI1_HUMAN	G	128	.	ENSP00000328773:S128G	S	+	1	0	HEXIM1	40582722	0.900000	0.30661	0.829000	0.32907	0.695000	0.40330	1.409000	0.34680	0.189000	0.20188	0.459000	0.35465	AGT		0.652	HEXIM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449821.2	NM_006460		G	43226939	A	G	43226939	3	3	648	1	0	0	0	0	1	0	0	0	7083	188	7	3	384	3	HEXIM1	17	43226939	Missense_Mutation	SNP	A	TCGA-KM-8440-01A-11D-2310-10	21908248	43226939	37968271	43	40167										
TSEN54	283989	mdanderson.org	37	chr17	73518328	73518328	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	ggagctgctgcagcggcggcAggtgcagaggagccagcgcc	19	12	0	1	rs77247739	byFrequency	TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr17:73518328A>C	ENST00000333213.6	+	8	1202	c.1166A>C	c.(1165-1167)cAg>cCg	p.Q389P		NM_207346.2	NP_997229.2	Q7Z6J9	SEN54_HUMAN	TSEN54 tRNA splicing endonuclease subunit	389					mRNA processing (GO:0006397)|tRNA splicing, via endonucleolytic cleavage and ligation (GO:0006388)	nucleus (GO:0005634)				endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(1)|lung(5)|ovary(2)	13	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			CAGCGGCGGCAGGTGCAGAGG	0.716													A|||	354	0.0706869	0.0976	0.0648	5008	,	,		13683	0.0		0.0984	False		,,,				2504	0.0828															0								A	PRO/GLN	290,3664		11,268,1698	5	5	5		1166	-0.1	0	17	dbSNP_131	5	522,7188		9,504,3342	no	missense	TSEN54	NM_207346.2	76	20,772,5040	CC,CA,AA		6.7704,7.3343,6.9616	benign	389/527	73518328	812,10852	1977	3855	5832	SO:0001583	missense	283989			AK097583	CCDS11724.1	17q25.1	2013-08-06	2013-08-06		ENSG00000182173	ENSG00000182173		"tRNA splicing endonuclease subunits"	27561	protein-coding gene	gene with protein product		608755	"tRNA splicing endonuclease 54 homolog (SEN54, S. cerevisiae)", "tRNA splicing endonuclease 54 homolog (S. cerevisiae)"			15109492	Standard	NM_207346		Approved	SEN54, SEN54L	uc002jof.1	Q7Z6J9		ENST00000333213.6:c.1166A>C	17.37:g.73518328A>C	ENSP00000327487:p.Gln389Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q86WV3|Q86XE4|Q8N9H2	Missense_Mutation	SNP	ENST00000333213.6	37	CCDS11724.1	162	0.07417582417582418	55	0.11178861788617886	36	0.09944751381215469	0	0.0	71	0.09366754617414248	A	3.847	-0.032674	0.07543	0.073343	0.067704	ENSG00000182173	ENST00000333213	T	0.58060	0.36	5.47	-0.0634	0.13777	.	0.913377	0.09679	N	0.770042	T	0.00936	0.0031	L	0.43152	1.355	0.80722	P	0.0	B	0.25609	0.13	B	0.22601	0.04	T	0.12528	-1.0544	9	0.33141	T	0.24	-2.0841	9.9457	0.41607	0.3984:0.0:0.6016:0.0	.	389	Q7Z6J9	SEN54_HUMAN	P	389	ENSP00000327487:Q389P	ENSP00000327487:Q389P	Q	+	2	0	TSEN54	71029923	0.000000	0.05858	0.004000	0.12327	0.007000	0.05969	0.306000	0.19279	0.036000	0.15547	0.533000	0.62120	CAG		0.716	TSEN54-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447618.1	NM_207346		C	73518328	A	C	73518328	3	2	648	1	0	0	0	0	1	0	0	0	16626	188	7	5	1196	5	TSEN54	17	73518328	Missense_Mutation	SNP	A	TCGA-KM-8440-01A-11D-2310-10	30291389	73518328	7676882	44	40168										
DNAH17	8632	bcgsc.ca	37	chr17	76455172	76455172	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	tgcctgcctcttgggcgccaCgtcgcagtagacctcgtaga	12	14	1	2			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr17:76455172C>T	ENST00000585328.1	-	61	9881	c.9757G>A	c.(9757-9759)Gtg>Atg	p.V3253M	DNAH17_ENST00000389840.5_Missense_Mutation_p.V3244M|DNAH17_ENST00000586052.1_5'UTR	NM_173628.3	NP_775899.3	Q9UFH2	DYH17_HUMAN	dynein, axonemal, heavy chain 17	3244	Stalk. {ECO:0000250}.				cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(2)|breast(7)|central_nervous_system(5)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(13)|large_intestine(8)|lung(37)|ovary(8)|prostate(7)|skin(4)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(3)	116			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			TTGGGCGCCACGTCGCAGTAG	0.612																																																0													142	140	141					17																	76455172		2203	4300	6503	SO:0001583	missense	8632			AJ000522		17q25.3	2012-04-19	2006-09-04		ENSG00000187775	ENSG00000187775		"Axonemal dyneins"	2946	protein-coding gene	gene with protein product		610063	"dynein, axonemal, heavy polypeptide 17", "dynein, axonemal, heavy chain like 1", "dynein, axonemal, heavy like 1"	DNAHL1		9545504	Standard	NM_173628		Approved	DNEL2, FLJ40457	uc010dhp.2	Q9UFH2		ENST00000585328.1:c.9757G>A	17.37:g.76455172C>T	ENSP00000465516:p.Val3253Met	Somatic		WXS	Illumina HiSeq	Phase_I	O00431|O15206|Q2M2Y1|Q6ZRQ2|Q8N7Q7	Missense_Mutation	SNP	ENST00000585328.1	37		.	.	.	.	.	.	.	.	.	.	C	25.0	4.597316	0.87055	.	.	ENSG00000187775	ENST00000300671;ENST00000389840	T	0.80566	-1.39	5.35	5.35	0.76521	.	0.221905	0.31612	N	0.007342	D	0.94430	0.8208	H	0.99042	4.41	0.38273	D	0.942201	D	0.89917	1.0	D	0.97110	1.0	D	0.97749	1.0213	10	0.87932	D	0	.	18.6873	0.91570	0.0:1.0:0.0:0.0	.	3253	E7EUM8	.	M	3253;3244	ENSP00000374490:V3244M	ENSP00000300671:V3253M	V	-	1	0	DNAH17	73966767	1.000000	0.71417	0.999000	0.59377	0.967000	0.64934	7.254000	0.78329	2.491000	0.84063	0.655000	0.94253	GTG		0.612	DNAH17-001	PUTATIVE	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000318962.2	NM_173628		T	76455172	C	T	76455172	3	4	648	1	0	0	0	0	1	0	0	0	4603	536	19	1	3700	1	DNAH17	17	76455172	Missense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10	2936844	76455172	4740038	45	40169										
PIK3C3	5289	mdanderson.org;bcgsc.ca	37	chr18	39607490	39607490	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	gtacttgaacgtaatgagaaGattcagccaagcattgttga	10	6	1	4			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr18:39607490G>T	ENST00000262039.4	+	14	1654	c.1568G>T	c.(1567-1569)aGa>aTa	p.R523I	PIK3C3_ENST00000398870.3_Missense_Mutation_p.R460I|PIK3C3_ENST00000593098.1_Missense_Mutation_p.R8I	NM_002647.2	NP_002638.2	Q8NEB9	PK3C3_HUMAN	phosphatidylinositol 3-kinase, catalytic subunit type 3	523					autophagic vacuole assembly (GO:0000045)|cytokinesis (GO:0000910)|early endosome to late endosome transport (GO:0045022)|endosome organization (GO:0007032)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-3-phosphate biosynthetic process (GO:0036092)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|protein processing (GO:0016485)|regulation of protein secretion (GO:0050708)|response to leucine (GO:0043201)|small molecule metabolic process (GO:0044281)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)	axoneme (GO:0005930)|cytosol (GO:0005829)|late endosome (GO:0005770)|membrane (GO:0016020)|midbody (GO:0030496)|phagocytic vesicle (GO:0045335)|phosphatidylinositol 3-kinase complex (GO:0005942)	1-phosphatidylinositol-3-kinase activity (GO:0016303)|ATP binding (GO:0005524)|protein kinase activity (GO:0004672)			breast(2)|cervix(2)|endometrium(3)|kidney(2)|large_intestine(10)|liver(1)|lung(25)|ovary(1)|skin(2)|urinary_tract(1)	49						GTAATGAGAAGATTCAGCCAA	0.423										TSP Lung(28;0.18)																											NSCLC(37;552 1060 2683 16430 37914)											0													119	97	104					18																	39607490		2203	4300	6503	SO:0001583	missense	5289			Z46973	CCDS11920.1	18q12.3	2012-07-13	2012-07-13		ENSG00000078142	ENSG00000078142	2.7.1.137		8974	protein-coding gene	gene with protein product		602609	"phosphoinositide-3-kinase, class 3"			7628435	Standard	NM_002647		Approved	Vps34	uc002lap.3	Q8NEB9	OTTHUMG00000132593	ENST00000262039.4:c.1568G>T	18.37:g.39607490G>T	ENSP00000262039:p.Arg523Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q15134	Missense_Mutation	SNP	ENST00000262039.4	37	CCDS11920.1	.	.	.	.	.	.	.	.	.	.	G	18.20	3.570993	0.65765	.	.	ENSG00000078142	ENST00000262039;ENST00000398870	T;T	0.66099	-0.19;0.2	5.73	5.73	0.89815	Phosphoinositide 3-kinase, accessory (PIK) domain (1);	0.166870	0.52532	D	0.000076	T	0.64114	0.2569	M	0.64567	1.98	0.80722	D	1	B;B	0.26547	0.152;0.039	B;B	0.32928	0.155;0.065	T	0.58853	-0.7563	9	.	.	.	.	18.1556	0.89689	0.0:0.0:1.0:0.0	.	460;523	A8MYT4;Q8NEB9	.;PK3C3_HUMAN	I	523;460	ENSP00000262039:R523I;ENSP00000381845:R460I	.	R	+	2	0	PIK3C3	37861488	1.000000	0.71417	1.000000	0.80357	0.817000	0.46193	9.723000	0.98772	2.724000	0.93272	0.586000	0.80456	AGA		0.423	PIK3C3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255804.1	NM_002647		T	39607490	G	T	39607490	3	4	648	1	0	0	0	0	1	0	0	0	11919	942	33	4	1622	4	PIK3C3	18	39607490	Missense_Mutation	SNP	G	TCGA-KM-8440-01A-11D-2310-10		39607490	38469758	46	40170										
SIRT6	51548	mdanderson.org	37	chr19	4174859	4174859	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	cacacgggggccgtcccaggCggggatctccagccccaggt	15	16	1	0	rs74317014	byFrequency	TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr19:4174859C>T	ENST00000337491.2	-	8	887	c.823G>A	c.(823-825)Gcc>Acc	p.A275T	SIRT6_ENST00000381935.3_Missense_Mutation_p.A203T|SIRT6_ENST00000601488.1_3'UTR|SIRT6_ENST00000594279.1_3'UTR|SIRT6_ENST00000305232.6_Missense_Mutation_p.A248T	NM_016539.2	NP_057623.2	Q8N6T7	SIR6_HUMAN	sirtuin 6	275					histone deacetylation (GO:0016575)|histone H3 deacetylation (GO:0070932)|protein ADP-ribosylation (GO:0006471)|regulation of double-strand break repair via homologous recombination (GO:0010569)	nuclear telomeric heterochromatin (GO:0005724)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|NAD(P)+-protein-arginine ADP-ribosyltransferase activity (GO:0003956)|NAD+ ADP-ribosyltransferase activity (GO:0003950)|NAD+ binding (GO:0070403)|NAD-dependent histone deacetylase activity (GO:0017136)|NAD-dependent histone deacetylase activity (H3-K9 specific) (GO:0046969)|zinc ion binding (GO:0008270)			central_nervous_system(1)|kidney(1)|lung(4)|ovary(1)|skin(1)	8		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.023)|STAD - Stomach adenocarcinoma(1328;0.18)		CCGTCCCAGGCGGGGATCTCC	0.697													C|||	70	0.0139776	0.0492	0.0072	5008	,	,		6715	0.0		0.0	False		,,,				2504	0.0															0								C	THR/ALA,THR/ALA	133,4099		1,131,1984	15	13	14		742,823	-0.8	0.7	19	dbSNP_131	14	2,8254		0,2,4126	yes	missense,missense	SIRT6	NM_001193285.1,NM_016539.2	58,58	1,133,6110	TT,TC,CC		0.0242,3.1427,1.081	benign,benign	248/329,275/356	4174859	135,12353	2116	4128	6244	SO:0001583	missense	51548			AF233396	CCDS12122.1, CCDS54199.1	19p13.3	2010-06-25	2010-06-25			ENSG00000077463			14934	protein-coding gene	gene with protein product		606211	"sirtuin (silent mating type information regulation 2, S. cerevisiae, homolog) 6", "sirtuin (silent mating type information regulation 2 homolog) 6 (S. cerevisiae)"			10873683	Standard	NM_016539		Approved		uc002lzo.3	Q8N6T7		ENST00000337491.2:c.823G>A	19.37:g.4174859C>T	ENSP00000337332:p.Ala275Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCD0|O75291|Q6IAF5|Q6PK99|Q8NCD2|Q9BSI5|Q9BWP3|Q9NRC7|Q9UQD1	Missense_Mutation	SNP	ENST00000337491.2	37	CCDS12122.1	26	0.011904761904761904	24	0.04878048780487805	2	0.0055248618784530384	0	0.0	0	0.0	C	10.99	1.507377	0.27036	0.031427	2.42E-4	ENSG00000077463	ENST00000337491;ENST00000305232;ENST00000381935	T;T;T	0.16897	2.31;2.31;2.31	4.28	-0.788	0.10939	.	0.510295	0.21114	N	0.079938	T	0.01092	0.0036	N	0.17723	0.515	0.26940	N	0.966267	B;B	0.09022	0.002;0.001	B;B	0.06405	0.002;0.001	T	0.34775	-0.9815	10	0.18276	T	0.48	-23.0487	5.7039	0.17897	0.0:0.6019:0.1408:0.2573	.	248;275	Q8N6T7-2;Q8N6T7	.;SIRT6_HUMAN	T	275;248;203	ENSP00000337332:A275T;ENSP00000305310:A248T;ENSP00000371360:A203T	ENSP00000305310:A248T	A	-	1	0	SIRT6	4125859	0.000000	0.05858	0.749000	0.31150	0.888000	0.51559	-0.184000	0.09698	-0.344000	0.08338	0.462000	0.41574	GCC		0.697	SIRT6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457931.2			T	4174859	C	T	4174859	3	4	648	1	0	0	0	0	1	0	0	0	14355	768	27	1	248	1	SIRT6	19	4174859	Missense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10		4174859	54954124	47	40171										
CACNA1A	773	mdanderson.org	37	chr19	13319693	13319693	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	tccttgtcggggggcgggggAtggtggtggtggtggtggtg	25	4	0	0	rs16051	byFrequency	TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr19:13319693A>G	ENST00000360228.5	-	46	6656	c.6657T>C	c.(6655-6657)caT>caC	p.H2219H	CACNA1A_ENST00000573710.2_Silent_p.H2220H	NM_000068.3|NM_001127222.1|NM_001174080.1|NM_023035.2	NP_000059.3|NP_001120694.1|NP_001167551.1|NP_075461.2	O00555	CAC1A_HUMAN	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	2220	Poly-His.				adult walking behavior (GO:0007628)|behavioral response to pain (GO:0048266)|calcium ion import (GO:0070509)|calcium ion-dependent exocytosis (GO:0017156)|calcium ion-dependent exocytosis of neurotransmitter (GO:0048791)|cell death (GO:0008219)|cell growth (GO:0016049)|cellular chloride ion homeostasis (GO:0030644)|cerebellar molecular layer development (GO:0021679)|cerebellar Purkinje cell differentiation (GO:0021702)|cerebellum maturation (GO:0021590)|dendrite morphogenesis (GO:0048813)|energy reserve metabolic process (GO:0006112)|gamma-aminobutyric acid secretion (GO:0014051)|gamma-aminobutyric acid signaling pathway (GO:0007214)|glucose metabolic process (GO:0006006)|hormone metabolic process (GO:0042445)|membrane depolarization (GO:0051899)|membrane depolarization during action potential (GO:0086010)|musculoskeletal movement, spinal reflex action (GO:0050883)|negative regulation of hormone biosynthetic process (GO:0032353)|negative regulation of neuron apoptotic process (GO:0043524)|neuromuscular process controlling balance (GO:0050885)|neuromuscular synaptic transmission (GO:0007274)|neurotransmitter metabolic process (GO:0042133)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|receptor clustering (GO:0043113)|regulation of acetylcholine secretion, neurotransmission (GO:0014056)|regulation of axonogenesis (GO:0050770)|regulation of calcium ion-dependent exocytosis (GO:0017158)|regulation of insulin secretion (GO:0050796)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|spinal cord motor neuron differentiation (GO:0021522)|sulfur amino acid metabolic process (GO:0000096)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transmission of nerve impulse (GO:0019226)|vestibular nucleus development (GO:0021750)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|syntaxin binding (GO:0019905)|voltage-gated calcium channel activity (GO:0005245)			breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(25)|prostate(2)|urinary_tract(1)	42			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Loperamide(DB00836)|Pregabalin(DB00230)|Spironolactone(DB00421)|Verapamil(DB00661)	GGGGCGGGGGAtggtggtggt	0.731													g|||	3440	0.686901	0.7874	0.6081	5008	,	,		6615	0.7897		0.6252	False		,,,				2504	0.5644															0									,,,,	2283,905		898,487,209	3	4	3		6675,6660,6657,6666,6675		1	19	dbSNP_54	3	3993,3127		1321,1351,888	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	CACNA1A	NM_000068.3,NM_001127221.1,NM_001127222.1,NM_001174080.1,NM_023035.2	,,,,	2219,1838,1097	GG,GA,AA		43.9185,28.3877,39.1153	,,,,	2225/2267,2220/2262,2219/2507,2222/2264,2225/2513	13319693	6276,4032	1594	3560	5154	SO:0001819	synonymous_variant	773			U79666	CCDS45998.1, CCDS45999.1	19p13	2014-09-17			ENSG00000141837	ENSG00000141837		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1388	protein-coding gene	gene with protein product		601011		CACNL1A4, SCA6, MHP1, MHP		8825650, 16382099, 23827678	Standard	NM_000068		Approved	Cav2.1, EA2, APCA, HPCA, FHM	uc010xne.2	O00555	OTTHUMG00000044590	ENST00000360228.5:c.6657T>C	19.37:g.13319693A>G		Somatic		WXS	Illumina HiSeq	Phase_I	J3KP41|P78510|P78511|Q16290|Q92690|Q99790|Q99791|Q99792|Q99793|Q9NS88|Q9UDC4	Silent	SNP	ENST00000360228.5	37	CCDS45998.1																																																																																				0.731	CACNA1A-001	KNOWN	non_canonical_U12|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000104062.2	NM_000068		G	13319693	A	G	13319693	2	3	648	1	0	0	0	0	0	0	0	1	2540	330	12	3		3	CACNA1A	19	13319693	Silent	SNP	A	TCGA-KM-8440-01A-11D-2310-10	9144834	13319693	45809290	48	40172										
CLEC17A	388512	broad.mit.edu	37	chr19	14710546	14710548	+	In_Frame_Del	DEL	CTA	CTA	-													0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	cagtgactggcatggcagggCtagctggcctgaagcatgac							TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	CTA	CTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr19:14710546_14710548delCTA	ENST00000417570.1	+	11	702_704	c.664_666delCTA	c.(664-666)ctadel	p.L222del	CLEC17A_ENST00000397439.2_In_Frame_Del_p.L205del|CLEC17A_ENST00000547437.1_In_Frame_Del_p.L222del	NM_001204118.1	NP_001191047.1	Q6ZS10	CL17A_HUMAN	C-type lectin domain family 17, member A	222						cell surface (GO:0009986)|integral component of membrane (GO:0016021)	fucose binding (GO:0042806)|mannose binding (GO:0005537)|metal ion binding (GO:0046872)										CATGGCAGGGCTAGCTGGCCTGA	0.547																																																0																																										SO:0001651	inframe_deletion	388512			AK127809	CCDS46002.1, CCDS46002.2, CCDS56087.1	19p13.12	2009-06-26			ENSG00000187912	ENSG00000187912		"C-type lectin domain containing"	34520	protein-coding gene	gene with protein product	"prolectin"					19419970	Standard	NM_207390		Approved	FLJ45910	uc010dzn.2	Q6ZS10		ENST00000417570.1:c.664_666delCTA	19.37:g.14710546_14710548delCTA	ENSP00000393719:p.Leu222del	Somatic		WXS	Illumina HiSeq	Phase_I	A8MX68|B2RTX0|B7ZMM4	In_Frame_Del	DEL	ENST00000417570.1	37	CCDS56087.1																																																																																				0.547	CLEC17A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403400.1	NM_207390		-	14710548	CTA	-	14710546	7	5	648	1	0	1	0	1	0	0	0	0	3503	796	28	0	651	0	CLEC17A	19	14710546	In_Frame_Del	DEL	CTA	TCGA-KM-8440-01A-11D-2310-10	1390853	14710546	44418437	49	40173										
MRPS12	6183	bcgsc.ca	37	chr19	39423174	39423175	+	Frame_Shift_Ins	INS	-	-	GGCTCAGCACTGGCCGCGA													0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	cgcaagtgctgtcgagtgcgINSgctcagcactggccgcgagg					rs35977895	byFrequency	TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr19:39423174_39423175insGGCTCAGCACTGGCCGCGA	ENST00000407800.2	+	2	592_593	c.251_252insGGCTCAGCACTGGCCGCGA	c.(250-255)cggctcfs	p.L85fs	CTC-360G5.8_ENST00000599996.1_Intron|SARS2_ENST00000448145.2_Intron|SARS2_ENST00000430193.3_5'Flank|SARS2_ENST00000594171.1_5'Flank|SARS2_ENST00000221431.6_5'Flank|MRPS12_ENST00000402029.3_Frame_Shift_Ins_p.L85fs|CTC-360G5.9_ENST00000599320.1_lincRNA|MRPS12_ENST00000308018.4_Frame_Shift_Ins_p.L85fs|SARS2_ENST00000600042.1_5'Flank	NM_021107.1	NP_066930.1	O15235	RT12_HUMAN	mitochondrial ribosomal protein S12	85					translation (GO:0006412)	mitochondrial ribosome (GO:0005761)|small ribosomal subunit (GO:0015935)	poly(A) RNA binding (GO:0044822)|structural constituent of ribosome (GO:0003735)			endometrium(1)|large_intestine(1)	2	all_cancers(60;8.37e-07)|all_lung(34;3.71e-07)|Lung NSC(34;4.17e-07)|all_epithelial(25;1.13e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			TGTCGAGTGCGGCTCAGCACTG	0.663																																																0																																										SO:0001589	frameshift_variant	6183			Y11681	CCDS12525.1	19q13.1-q13.2	2012-09-13			ENSG00000128626	ENSG00000128626		"Mitochondrial ribosomal proteins / small subunits"	10380	protein-coding gene	gene with protein product		603021		RPMS12		9545647, 9790755	Standard	NM_021107		Approved	RPS12, RPSM12	uc002oke.3	O15235		Exception_encountered	19.37:g.39423174_39423175insGGCTCAGCACTGGCCGCGA	ENSP00000384952:p.Leu85fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q53X98	Frame_Shift_Ins	INS	ENST00000407800.2	37	CCDS12525.1																																																																																				0.663	MRPS12-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463154.1			GGCTCAGCACTGGCCGCGA	39423175	-	GGCTCAGCACTGGCCGCGA	39423174	7	5	648	1	0	1	1	0	0	0	0	0	9830	1116	39	0	257	0	MRPS12	19	39423174	Frame_Shift_Ins	INS	-	TCGA-KM-8440-01A-11D-2310-10	24712628	39423174	19705809	50	40174										
LIPE	3991	mdanderson.org	37	chr19	42905986	42905986	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	agtgtcgccccccgcagcccCcgtctacccccgcagccccc	8	25	1	0			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr19:42905986C>A	ENST00000244289.4	-	10	3485	c.3209G>T	c.(3208-3210)gGg>gTg	p.G1070V	LIPE-AS1_ENST00000593491.2_RNA|LIPE-AS1_ENST00000597203.1_RNA|LIPE-AS1_ENST00000599276.1_RNA|LIPE-AS1_ENST00000594624.2_RNA	NM_005357.2	NP_005348.2	Q05469	LIPS_HUMAN	lipase, hormone-sensitive	1070					cholesterol metabolic process (GO:0008203)|diacylglycerol catabolic process (GO:0046340)|lipid catabolic process (GO:0016042)|long-chain fatty acid catabolic process (GO:0042758)|protein phosphorylation (GO:0006468)|small molecule metabolic process (GO:0044281)|triglyceride catabolic process (GO:0019433)	cytosol (GO:0005829)|lipid particle (GO:0005811)|plasma membrane (GO:0005886)	hormone-sensitive lipase activity (GO:0033878)|triglyceride lipase activity (GO:0004806)			breast(2)|endometrium(4)|kidney(7)|large_intestine(6)|lung(8)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	32		Prostate(69;0.00682)				CCCGCAGCCCCCGTCTACCCC	0.736																																																0													2	3	2					19																	42905986		1240	2515	3755	SO:0001583	missense	3991			L11706	CCDS12607.1	19q13.1-q13.2	2014-03-14			ENSG00000079435	ENSG00000079435	3.1.1.3		6621	protein-coding gene	gene with protein product		151750				8506334	Standard	NM_005357		Approved	HSL	uc002otr.3	Q05469	OTTHUMG00000182814	ENST00000244289.4:c.3209G>T	19.37:g.42905986C>A	ENSP00000244289:p.Gly1070Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q3LRT2|Q6NSL7	Missense_Mutation	SNP	ENST00000244289.4	37	CCDS12607.1	.	.	.	.	.	.	.	.	.	.	C	11.04	1.522287	0.27211	.	.	ENSG00000079435	ENST00000244289	T	0.04317	3.65	3.11	2.05	0.26809	.	.	.	.	.	T	0.03695	0.0105	N	0.08118	0	0.18873	N	0.999986	P	0.52316	0.952	P	0.49140	0.601	T	0.45775	-0.9238	9	0.32370	T	0.25	.	5.9892	0.19452	0.0:0.7376:0.0:0.2624	.	1070	Q05469	LIPS_HUMAN	V	1070	ENSP00000244289:G1070V	ENSP00000244289:G1070V	G	-	2	0	LIPE	47597826	0.000000	0.05858	0.081000	0.20488	0.198000	0.23893	-0.333000	0.07894	0.595000	0.29777	-0.480000	0.04831	GGG		0.736	LIPE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463861.1	NM_005357		A	42905986	C	A	42905986	3	1	648	1	0	0	0	0	1	0	0	0	8828	623	22	4	25	4	LIPE	19	42905986	Missense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10	3482812	42905986	16222997	51	40175										
KPTN	11133	broad.mit.edu	37	chr19	47987306	47987307	+	Frame_Shift_Ins	INS	-	-	C													0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	gcggccagcagctccccgcgINScccgccggcgccgcctgcca					rs540521125		TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr19:47987306_47987307insC	ENST00000338134.3	-	1	218_219	c.111_112insG	c.(109-114)gggcgcfs	p.R38fs	NAPA-AS1_ENST00000594367.1_RNA|KPTN_ENST00000595484.1_5'UTR|NAPA-AS1_ENST00000593284.1_RNA|KPTN_ENST00000536339.1_5'UTR	NM_007059.2	NP_008990.2	Q9Y664	KPTN_HUMAN	kaptin (actin binding protein)	38					actin filament organization (GO:0007015)|cellular component movement (GO:0006928)|sensory perception of sound (GO:0007605)	actin cytoskeleton (GO:0015629)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|microtubule organizing center (GO:0005815)|nucleus (GO:0005634)	actin binding (GO:0003779)			breast(1)|lung(3)|ovary(2)|pancreas(2)	8		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;0.000428)|all cancers(93;0.000631)|Epithelial(262;0.0153)|GBM - Glioblastoma multiforme(486;0.0694)		AGCTccccgcgcccgccggcgc	0.683											OREG0025593	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0																																										SO:0001589	frameshift_variant	11133			AF105369	CCDS42583.1	19q13.32	2014-08-13	2001-11-28		ENSG00000118162	ENSG00000118162			6404	protein-coding gene	gene with protein product		615620	"kaptin (actin-binding protein)"			10099934	Standard	XM_005258467		Approved	2E4	uc002pgy.3	Q9Y664	OTTHUMG00000183443	ENST00000338134.3:c.112dupG	19.37:g.47987309_47987309dupC	ENSP00000337850:p.Arg38fs	Somatic	951	WXS	Illumina HiSeq	Phase_I	B3KN86|B4DQ76|Q96GT1	Frame_Shift_Ins	INS	ENST00000338134.3	37	CCDS42583.1																																																																																				0.683	KPTN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466672.2			C	47987307	-	C	47987306	7	5	648	1	0	1	1	0	0	0	0	0	8444	1087	38	0	1246	0	KPTN	19	47987306	Frame_Shift_Ins	INS	-	TCGA-KM-8440-01A-11D-2310-10	5081320	47987306	11141677	52	40176										
DEFB132	400830	ucsc.edu	37	chr20	238441	238441	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	tgaagttcctgctcctggtcTtggcagccctcggattcctg	11	13	1	1	rs66489228|rs398088193|rs371825938|rs74636637		TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr20:238441T>C	ENST00000382376.3	+	1	65	c.22T>C	c.(22-24)Ttg>Ctg	p.L8L		NM_207469.2	NP_997352.1	Q7Z7B7	DB132_HUMAN	defensin, beta 132	8					defense response to bacterium (GO:0042742)	extracellular region (GO:0005576)				breast(1)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	4						GCTCCTGGTCTTGGCAGCCCT	0.527																																																0													60	54	56					20																	238441		1843	3522	5365	SO:0001819	synonymous_variant	400830			AF525932	CCDS12993.1	20p13	2009-12-04	2008-10-23		ENSG00000186458	ENSG00000186458		"Defensins, beta"	33806	protein-coding gene	gene with protein product						18416833	Standard	NM_207469		Approved	RP5-1103G7.6, DEFB32	uc002wdb.3	Q7Z7B7	OTTHUMG00000043061	ENST00000382376.3:c.22T>C	20.37:g.238441T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RP72|Q4QY40	Silent	SNP	ENST00000382376.3	37	CCDS12993.1																																																																																				0.527	DEFB132-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000101365.1	NM_207469		C	238441	T	C	238441	2	2	648	1	0	0	0	0	0	0	0	1	4419	1606	56	3		3	DEFB132	20	238441	Silent	SNP	T	TCGA-KM-8440-01A-11D-2310-10		238441	62787079	53	40177										
SIRPB1	10326	mdanderson.org	37	chr20	1592120	1592120	+	Intron	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	tggggtgatgttactgatgcGgatggaaaagtccatgttgt	15	4	0	2	rs1135201		TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr20:1592120G>T	ENST00000381605.4	-	1	141				SIRPB1_ENST00000279477.7_Missense_Mutation_p.R106S|RP4-576H24.4_ENST00000564763.1_Intron|SIRPB1_ENST00000568365.1_Missense_Mutation_p.R106S|SIRPB1_ENST00000381596.1_5'UTR|SIRPB1_ENST00000381603.3_Intron	NM_006065.3	NP_006056.2	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1						cell surface receptor signaling pathway (GO:0007166)|innate immune response (GO:0045087)|signal transduction (GO:0007165)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)				central_nervous_system(2)|kidney(2)|large_intestine(4)|lung(16)|ovary(1)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)	31						TTACTGATGCGGATGGAAAAG	0.512																																																0													105	121	117					20																	1592120		448	1337	1785	SO:0001627	intron_variant	10326			Y10376	CCDS13019.1, CCDS42850.1, CCDS46571.1	20p13	2013-01-11			ENSG00000101307	ENSG00000101307		"Signal-regulatory proteins", "CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C1-set domain containing"	15928	protein-coding gene	gene with protein product		603889				9062191, 16339511	Standard	NM_001083910		Approved	SIRP-BETA-1, CD172b	uc010gai.3	O00241	OTTHUMG00000031676	ENST00000381605.4:c.76+8394C>A	20.37:g.1592120G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NLM2|B2R8V0|Q5TFQ9|Q5TFR0|Q8TB12|Q9H1U5|Q9Y4V0	Missense_Mutation	SNP	ENST00000381605.4	37	CCDS13019.1	560	0.2564102564102564	150	0.3048780487804878	74	0.20441988950276244	183	0.31993006993006995	153	0.20184696569920843	.	2.402	-0.337253	0.05278	.	.	ENSG00000101307	ENST00000279477;ENST00000381596	T	0.65364	-0.15	2.65	-2.79	0.05841	Immunoglobulin subtype (1);Immunoglobulin V-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.00012	0.0000	L	0.52266	1.64	0.34870	D	0.743495	B	0.31435	0.323	B	0.31869	0.137	T	0.37753	-0.9692	9	0.37606	T	0.19	.	4.2858	0.10855	0.1304:0.0:0.2968:0.5727	rs1135201;rs3197735	106	Q5TFQ8	SIRBL_HUMAN	S	106	ENSP00000279477:R106S	ENSP00000279477:R106S	R	-	1	0	SIRPB1	1540120	0.081000	0.21417	0.142000	0.22268	0.020000	0.10135	0.000000	0.12993	-0.294000	0.08973	-2.062000	0.00397	CGC		0.512	SIRPB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000077555.2	NM_006065		T	1592120	G	T	1592120	1	4	648	0	1	0	0	0	0	0	0	0	14346	1116	39	4		4	SIRPB1	20	1592120	Intron	SNP	G	TCGA-KM-8440-01A-11D-2310-10	1353679	1592120	61433400	54	40178										
DSCAM	1826	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr21	42080523	42080523	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	tgccgttggggtggacgtggCggatcccggggacatcgtag	19	9	0	0			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr21:42080523C>T	ENST00000400454.1	-	2	695	c.218G>A	c.(217-219)cGc>cAc	p.R73H		NM_001271534.1|NM_001389.3	NP_001258463.1|NP_001380.2	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule	73	Ig-like C2-type 1.				cell adhesion (GO:0007155)|dendrite morphogenesis (GO:0048813)|dendrite self-avoidance (GO:0070593)|locomotory behavior (GO:0007626)|negative regulation of cell adhesion (GO:0007162)|nervous system development (GO:0007399)|positive regulation of axon extension involved in axon guidance (GO:0048842)|positive regulation of phosphorylation (GO:0042327)|post-embryonic retina morphogenesis in camera-type eye (GO:0060060)	axon (GO:0030424)|extracellular region (GO:0005576)|growth cone (GO:0030426)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)		p.R73L(1)		NS(2)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(22)|haematopoietic_and_lymphoid_tissue(4)|kidney(6)|large_intestine(22)|lung(47)|ovary(7)|pancreas(2)|prostate(3)|skin(14)|upper_aerodigestive_tract(6)|urinary_tract(4)	142		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				GTGGACGTGGCGGATCCCGGG	0.547																																					Melanoma(134;970 1778 1785 21664 32388)											1	Substitution - Missense(1)	lung(1)											92	95	94					21																	42080523		1965	4156	6121	SO:0001583	missense	1826			AF023449	CCDS42929.1	21q22.2-q22.3	2013-02-11			ENSG00000171587	ENSG00000171587		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	3039	protein-coding gene	gene with protein product		602523				9426258	Standard	NM_001271534		Approved	CHD2-42, CHD2-52	uc002yyq.1	O60469	OTTHUMG00000086732	ENST00000400454.1:c.218G>A	21.37:g.42080523C>T	ENSP00000383303:p.Arg73His	Somatic		WXS	Illumina HiSeq	Phase_I	O60468	Missense_Mutation	SNP	ENST00000400454.1	37	CCDS42929.1	.	.	.	.	.	.	.	.	.	.	C	29.3	4.998174	0.93227	.	.	ENSG00000171587	ENST00000400454	T	0.38887	1.11	5.1	5.1	0.69264	Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	T	0.62672	0.2447	M	0.64404	1.975	0.51767	D	0.999936	D	0.76494	0.999	D	0.80764	0.994	T	0.64918	-0.6294	10	0.66056	D	0.02	.	17.0669	0.86561	0.0:1.0:0.0:0.0	.	73	O60469	DSCAM_HUMAN	H	73	ENSP00000383303:R73H	ENSP00000383303:R73H	R	-	2	0	DSCAM	41002393	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.354000	0.79424	2.547000	0.85894	0.585000	0.79938	CGC		0.547	DSCAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195029.1	NM_001389		T	42080523	C	T	42080523	3	4	648	1	0	0	0	0	1	0	0	0	4770	768	27	1	5948	1	DSCAM	21	42080523	Missense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10		42080523	6049372	55	40179										
KRTAP10-10	353333	mdanderson.org	37	chr21	46058034	46058034	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	tttccctcctctgccgccccGtgtgctcccgccctgcctgc	8	22	1	0	rs142158982	byFrequency	TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr21:46058034G>A	ENST00000380095.1	+	1	762	c.700G>A	c.(700-702)Gtg>Atg	p.V234M	TSPEAR_ENST00000323084.4_Intron	NM_181688.1	NP_859016.1	P60014	KR10A_HUMAN	keratin associated protein 10-10	234						keratin filament (GO:0045095)				NS(1)|endometrium(2)|kidney(1)|lung(6)|prostate(1)|skin(2)	13						CTGCCGCCCCGTGTGCTCCCG	0.692																																																0								G	,MET/VAL	54,4352		0,54,2149	54	58	57		,700	-2.9	0	21	dbSNP_134	57	16,8582		0,16,4283	no	intron,missense	TSPEAR,KRTAP10-10	NM_144991.2,NM_181688.1	,21	0,70,6432	AA,AG,GG		0.1861,1.2256,0.5383	,possibly-damaging	,234/252	46058034	70,12934	2203	4299	6502	SO:0001583	missense	353333			AJ566387	CCDS33585.1	21q22.3	2006-03-13			ENSG00000221859	ENSG00000221859		"Keratin associated proteins"	22972	protein-coding gene	gene with protein product							Standard	NM_181688		Approved	KAP10.10, KAP18.10, KRTAP18-10	uc002zfq.3	P60014	OTTHUMG00000057631	ENST00000380095.1:c.700G>A	21.37:g.46058034G>A	ENSP00000369438:p.Val234Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000380095.1	37	CCDS33585.1	94	0.04304029304029304	28	0.056910569105691054	7	0.019337016574585635	29	0.050699300699300696	30	0.0395778364116095	g	0.883	-0.728095	0.03135	0.012256	0.001861	ENSG00000221859	ENST00000380095	T	0.01215	5.16	3.52	-2.88	0.05682	.	.	.	.	.	T	0.00241	0.0007	M	0.71206	2.165	0.09310	N	1	B	0.20459	0.045	B	0.20955	0.032	T	0.38178	-0.9673	9	0.42905	T	0.14	.	5.1831	0.15171	0.3582:0.0:0.4952:0.1466	.	234	P60014	KR10A_HUMAN	M	234	ENSP00000369438:V234M	ENSP00000369438:V234M	V	+	1	0	KRTAP10-10	44882462	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.581000	0.02119	-0.564000	0.06070	-1.314000	0.01303	GTG		0.692	KRTAP10-10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128034.1	NM_181688		A	46058034	G	A	46058034	3	1	648	1	0	0	0	0	1	0	0	0	8513	1145	40	1	702	1	KRTAP10-10	21	46058034	Missense_Mutation	SNP	G	TCGA-KM-8440-01A-11D-2310-10	3977511	46058034	2071861	56	40180										
CLTCL1	8218	broad.mit.edu;bcgsc.ca	37	chr22	19203748	19203748	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	ttcaggatcccgtgtttctgAcaatgctgtctgtaccacct	8	12	3	1			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr22:19203748A>G	ENST00000263200.10	-	19	3010	c.2938T>C	c.(2938-2940)Tca>Cca	p.S980P	CLTCL1_ENST00000353891.5_Missense_Mutation_p.S980P|CLTCL1_ENST00000427926.1_Missense_Mutation_p.S980P	NM_007098.3	NP_009029.3	P53675	CLH2_HUMAN	clathrin, heavy chain-like 1	980	Heavy chain arm.|Proximal segment.				anatomical structure morphogenesis (GO:0009653)|intracellular protein transport (GO:0006886)|mitotic nuclear division (GO:0007067)|positive regulation of glucose import (GO:0046326)|receptor-mediated endocytosis (GO:0006898)|signal transduction (GO:0007165)	clathrin coat of coated pit (GO:0030132)|clathrin coat of trans-Golgi network vesicle (GO:0030130)|clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|coated vesicle (GO:0030135)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|spindle (GO:0005819)|trans-Golgi network (GO:0005802)	signal transducer activity (GO:0004871)|structural molecule activity (GO:0005198)			breast(2)|central_nervous_system(3)|cervix(2)|endometrium(9)|kidney(3)|large_intestine(11)|lung(9)|ovary(5)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	49	Colorectal(54;0.0993)					CGTGTTTCTGACAATGCTGTC	0.408			T	?	ALCL																																		Dom	yes		22	22q11.21	8218	"clathrin, heavy polypeptide-like 1"		L	0													90	86	88					22																	19203748		1866	4109	5975	SO:0001583	missense	8218				CCDS46662.1, CCDS54497.1, CCDS46662.2, CCDS54497.2	22q11.2	2008-06-10	2006-09-29		ENSG00000070371	ENSG00000070371			2093	protein-coding gene	gene with protein product		601273	"clathrin, heavy polypeptide-like 1"	CLTCL		8844170, 15133132	Standard	NM_007098		Approved	CLTD, CLH22, CHC22	uc021wle.1	P53675	OTTHUMG00000150109	ENST00000263200.10:c.2938T>C	22.37:g.19203748A>G	ENSP00000445677:p.Ser980Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7U5|Q14017|Q15808|Q15809	Missense_Mutation	SNP	ENST00000263200.10	37	CCDS46662.1	.	.	.	.	.	.	.	.	.	.	A	0.617	-0.822774	0.02755	.	.	ENSG00000070371	ENST00000353891;ENST00000263200;ENST00000427926	T;T;T	0.18657	2.2;2.2;2.2	3.4	2.35	0.29111	Tetratricopeptide-like helical (1);Armadillo-type fold (1);	0.095551	0.44902	N	0.000401	T	0.08088	0.0202	N	0.04275	-0.24	0.58432	D	0.999999	B;B	0.13145	0.002;0.007	B;B	0.28638	0.022;0.092	T	0.27606	-1.0069	10	0.02654	T	1	-1.3257	8.3632	0.32372	0.9031:0.0:0.0969:0.0	.	980;980	P53675-2;P53675	.;CLH2_HUMAN	P	980	ENSP00000439662:S980P;ENSP00000445677:S980P;ENSP00000441158:S980P	ENSP00000445677:S980P	S	-	1	0	CLTCL1	17583748	1.000000	0.71417	0.988000	0.46212	0.591000	0.36615	3.759000	0.55227	0.495000	0.27882	0.460000	0.39030	TCA		0.408	CLTCL1-001	KNOWN	non_canonical_genome_sequence_error|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316397.5	NM_007098		G	19203748	A	G	19203748	3	3	648	1	0	0	0	0	1	0	0	0	3569	275	10	3	2040	3	CLTCL1	22	19203748	Missense_Mutation	SNP	A	TCGA-KM-8440-01A-11D-2310-10		19203748	32100818	57	40181										
SCARF2	91179	broad.mit.edu	37	chr22	20791941	20791943	+	In_Frame_Del	DEL	AGC	AGC	-													0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	cggtgtccggcagcatccagAgcagcagcagcagcagcagc							TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	AGC	AGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr22:20791941_20791943delAGC	ENST00000266214.5	-	1	203_205	c.99_101delGCT	c.(97-102)ctgctc>ctc	p.33_34LL>L	SCARF2_ENST00000405555.3_In_Frame_Del_p.33_34LL>L	NM_153334.4	NP_699165.2	Q96GP6	SREC2_HUMAN	scavenger receptor class F, member 2	33					cell adhesion (GO:0007155)	focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)				breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(1)|lung(3)|prostate(1)|skin(2)	10	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CAGCATCCAGagcagcagcagca	0.778																																																0									,	41,2921		6,29,1446					,	2.4	1			4	128,6158		10,108,3025	no	coding,coding	SCARF2	NM_182895.2,NM_153334.4	,	16,137,4471	A1A1,A1R,RR		2.0363,1.3842,1.8274	,	,		169,9079				SO:0001651	inframe_deletion	91179			AF522196	CCDS13779.1, CCDS46666.1	22q11.21	2011-10-10			ENSG00000244486	ENSG00000244486			19869	protein-coding gene	gene with protein product		613619				12154095	Standard	XM_006724364		Approved	SREC-II, SREC2, HUMZD58C02	uc002zsk.2	Q96GP6	OTTHUMG00000150779	ENST00000266214.5:c.99_101delGCT	22.37:g.20791950_20791952delAGC	ENSP00000266214:p.Leu34del	Somatic		WXS	Illumina HiSeq	Phase_I	E5RFB8|Q58A83|Q8IXF3|Q9BW74	In_Frame_Del	DEL	ENST00000266214.5	37	CCDS13779.1																																																																																				0.778	SCARF2-001	NOVEL	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000320047.1			-	20791943	AGC	-	20791941	7	5	648	1	0	1	0	1	0	0	0	0	13897	304	11	0	2555	0	SCARF2	22	20791941	In_Frame_Del	DEL	AGC	TCGA-KM-8440-01A-11D-2310-10	1588193	20791941	30512625	58	40182										
PKDREJ	10343	broad.mit.edu	37	chr22	46653502	46653502	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.397142857142857	0	0.43167701863354	1	1	0	gcccatgtcttctcatccagCcaattgctttcttgaagttc	6	13	3	1			TCGA-KM-8440-01A-11D-2310-10	TCGA-KM-8440-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cdf313c8-59f9-41c6-9bd2-f47cb4287da5	f6d8bf61-9da3-4ce4-b6cc-e1391c0c0186	g.chr22:46653502C>T	ENST00000253255.5	-	1	5717	c.5718G>A	c.(5716-5718)tgG>tgA	p.W1906*		NM_006071.1	NP_006062.1	Q9NTG1	PKDRE_HUMAN	polycystin (PKD) family receptor for egg jelly	1906					acrosome reaction (GO:0007340)|calcium ion transmembrane transport (GO:0070588)|detection of mechanical stimulus (GO:0050982)|neuropeptide signaling pathway (GO:0007218)|regulation of acrosome reaction (GO:0060046)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)			NS(2)|breast(7)|central_nervous_system(1)|cervix(3)|endometrium(4)|kidney(5)|large_intestine(21)|lung(16)|ovary(2)|prostate(6)|skin(4)|upper_aerodigestive_tract(2)	73		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		TCTCATCCAGCCAATTGCTTT	0.393																																																0													109	115	113					22																	46653502		2203	4300	6503	SO:0001587	stop_gained	10343			AF116458	CCDS14073.1	22q13.31	2013-07-31	2013-07-31		ENSG00000130943	ENSG00000130943			9015	protein-coding gene	gene with protein product		604670	"polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly, sea urchin homolog)-like", "polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly homolog, sea urchin)-like", "polycystic kidney disease (polycystin) and REJ homolog (sperm receptor for egg jelly homolog, sea urchin)"			9949214, 10591208	Standard	NM_006071		Approved		uc003bhh.3	Q9NTG1	OTTHUMG00000150493	ENST00000253255.5:c.5718G>A	22.37:g.46653502C>T	ENSP00000253255:p.Trp1906*	Somatic		WXS	Illumina HiSeq	Phase_I	B1AJY3|O95850	Nonsense_Mutation	SNP	ENST00000253255.5	37	CCDS14073.1	.	.	.	.	.	.	.	.	.	.	C	45	11.351184	0.99550	.	.	ENSG00000130943	ENST00000253255	.	.	.	5.55	5.55	0.83447	.	0.000000	0.56097	D	0.000023	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-21.1151	16.215	0.82206	0.0:1.0:0.0:0.0	.	.	.	.	X	1906	.	ENSP00000253255:W1906X	W	-	3	0	PKDREJ	45032166	1.000000	0.71417	1.000000	0.80357	0.722000	0.41435	4.876000	0.63079	2.618000	0.88619	0.455000	0.32223	TGG		0.393	PKDREJ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318466.1	NM_006071		T	46653502	C	T	46653502	4	4	648	1	0	0	0	0	0	1	0	0	11977	740	26	2	1047	2	PKDREJ	22	46653502	Nonsense_Mutation	SNP	C	TCGA-KM-8440-01A-11D-2310-10	25861561	46653502	4651064	59	40183										
MEGF6	1953	mdanderson.org	37	chr1	3413868	3413868	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	tgacgtggtggcaggcagcgCcaggcgggcagctgcagcgc	19	12	0	1	rs4648506	byFrequency	TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr1:3413868C>G	ENST00000356575.4	-	27	3636	c.3410G>C	c.(3409-3411)gGc>gCc	p.G1137A	MEGF6_ENST00000294599.4_Missense_Mutation_p.G946A	NM_001409.3	NP_001400.3	O75095	MEGF6_HUMAN	multiple EGF-like-domains 6	1137	EGF-like 21. {ECO:0000255|PROSITE- ProRule:PRU00076}.		G -> A (in dbSNP:rs4648506). {ECO:0000269|PubMed:9693030}.			extracellular region (GO:0005576)	calcium ion binding (GO:0005509)			cervix(2)|endometrium(3)|large_intestine(3)|lung(8)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	19	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)		GCAGGCAGCGCCAGGCGGGCA	0.716													C|||	1222	0.24401	0.146	0.3357	5008	,	,		12528	0.1865		0.3201	False		,,,				2504	0.2924				Ovarian(73;978 3658)											0								C	ALA/GLY	547,3569		48,451,1559	8	13	11		3410	0.1	0	1	dbSNP_111	11	2204,6092		339,1526,2283	no	missense	MEGF6	NM_001409.3	60	387,1977,3842	GG,GC,CC		26.567,13.2896,22.164	possibly-damaging	1137/1542	3413868	2751,9661	2058	4148	6206	SO:0001583	missense	1953			AB011539	CCDS41237.1	1p36.3	2008-02-05	2006-03-31	2006-03-31	ENSG00000162591	ENSG00000162591			3232	protein-coding gene	gene with protein product		604266	"EGF-like-domain, multiple 3"	EGFL3		9693030	Standard	NM_001409		Approved		uc001akl.3	O75095	OTTHUMG00000000611	ENST00000356575.4:c.3410G>C	1.37:g.3413868C>G	ENSP00000348982:p.Gly1137Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q4AC86|Q5VV39	Missense_Mutation	SNP	ENST00000356575.4	37	CCDS41237.1	532	0.24358974358974358	83	0.16869918699186992	101	0.27900552486187846	130	0.22727272727272727	218	0.287598944591029	C	12.32	1.903437	0.33628	0.132896	0.26567	ENSG00000162591	ENST00000294599;ENST00000356575	T;T	0.71934	-0.09;-0.61	4.36	0.0897	0.14460	EGF-like, laminin (2);Epidermal growth factor-like, type 3 (1);	0.182174	0.48286	N	0.000200	T	0.00012	0.0000	M	0.91663	3.23	0.40306	P	0.021338999999999997	P;P	0.51147	0.942;0.929	P;P	0.62435	0.902;0.841	T	0.05022	-1.0911	9	0.62326	D	0.03	-7.763	6.2955	0.21083	0.0:0.6314:0.1331:0.2355	rs4648506	1137;946	O75095;O75095-2	MEGF6_HUMAN;.	A	946;1137	ENSP00000294599:G946A;ENSP00000348982:G1137A	ENSP00000294599:G946A	G	-	2	0	MEGF6	3403728	0.002000	0.14202	0.000000	0.03702	0.135000	0.20990	0.253000	0.18296	-0.064000	0.13043	0.561000	0.74099	GGC		0.716	MEGF6-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354866.1	NM_001409		G	3413868	C	G	3413868	3	3	649	1	0	0	0	0	1	0	0	0	9469	739	26	4	1259	4	MEGF6	1	3413868	Missense_Mutation	SNP	C	TCGA-KM-8441-01A-11D-2310-10		3413868	245836753	1	40184										
MTOR	2475	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	11187847	11187847	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	gccagaggatggccactcggAtcagctcctcgctcacctga	11	15	2	2			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr1:11187847A>G	ENST00000361445.4	-	44	6126	c.6050T>C	c.(6049-6051)aTc>aCc	p.I2017T	MTOR_ENST00000376838.1_Missense_Mutation_p.I222T	NM_004958.3	NP_004949.1	P42345	MTOR_HUMAN	mechanistic target of rapamycin (serine/threonine kinase)	2017	Sufficient for interaction with the FKBP1A/rapamycin complex. {ECO:0000250}.				cell growth (GO:0016049)|cellular response to hypoxia (GO:0071456)|cellular response to nutrient levels (GO:0031669)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|germ cell development (GO:0007281)|growth (GO:0040007)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|negative regulation of autophagy (GO:0010507)|negative regulation of cell size (GO:0045792)|negative regulation of macroautophagy (GO:0016242)|negative regulation of NFAT protein import into nucleus (GO:0051534)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|phosphatidylinositol-mediated signaling (GO:0048015)|phosphorylation (GO:0016310)|positive regulation of actin filament polymerization (GO:0030838)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of gene expression (GO:0010628)|positive regulation of lamellipodium assembly (GO:0010592)|positive regulation of lipid biosynthetic process (GO:0046889)|positive regulation of myotube differentiation (GO:0010831)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of stress fiber assembly (GO:0051496)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|positive regulation of translation (GO:0045727)|protein autophosphorylation (GO:0046777)|protein catabolic process (GO:0030163)|protein phosphorylation (GO:0006468)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of carbohydrate utilization (GO:0043610)|regulation of fatty acid beta-oxidation (GO:0031998)|regulation of glycogen biosynthetic process (GO:0005979)|regulation of protein kinase activity (GO:0045859)|regulation of Rac GTPase activity (GO:0032314)|regulation of response to food (GO:0032095)|response to amino acid (GO:0043200)|response to nutrient (GO:0007584)|response to stress (GO:0006950)|ruffle organization (GO:0031529)|signal transduction (GO:0007165)|T cell costimulation (GO:0031295)|TOR signaling (GO:0031929)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endomembrane system (GO:0012505)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|membrane (GO:0016020)|mitochondrial outer membrane (GO:0005741)|phosphatidylinositol 3-kinase complex (GO:0005942)|PML body (GO:0016605)|TORC1 complex (GO:0031931)|TORC2 complex (GO:0031932)	ATP binding (GO:0005524)|drug binding (GO:0008144)|kinase activity (GO:0016301)|phosphoprotein binding (GO:0051219)|protein serine/threonine kinase activity (GO:0004674)|ribosome binding (GO:0043022)|RNA polymerase III type 1 promoter DNA binding (GO:0001030)|RNA polymerase III type 2 promoter DNA binding (GO:0001031)|RNA polymerase III type 3 promoter DNA binding (GO:0001032)|TFIIIC-class transcription factor binding (GO:0001156)			breast(5)|central_nervous_system(7)|endometrium(20)|kidney(34)|large_intestine(21)|lung(43)|ovary(9)|prostate(3)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	149					Everolimus(DB01590)|Pimecrolimus(DB00337)|Sirolimus(DB00877)|Temsirolimus(DB06287)	GGCCACTCGGATCAGCTCCTC	0.498																																																0													155	161	159					1																	11187847		2203	4300	6503	SO:0001583	missense	2475			L34075	CCDS127.1	1p36	2014-09-17	2009-05-29	2009-05-29	ENSG00000198793	ENSG00000198793			3942	protein-coding gene	gene with protein product	"FK506 binding protein 12-rapamycin associated protein 2", "rapamycin target protein", "FKBP12-rapamycin complex-associated protein 1", "FKBP-rapamycin associated protein", "rapamycin associated protein FRAP2", "dJ576K7.1 (FK506 binding protein 12-rapamycin associated protein 1)", "rapamycin and FKBP12 target 1", "mammalian target of rapamycin"	601231	"FK506 binding protein 12-rapamycin associated protein 1"	FRAP, FRAP2, FRAP1		8008069, 8660990	Standard	NM_004958		Approved	RAFT1, RAPT1, FLJ44809	uc001asd.3	P42345	OTTHUMG00000002001	ENST00000361445.4:c.6050T>C	1.37:g.11187847A>G	ENSP00000354558:p.Ile2017Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q4LE76|Q5TER1|Q6LE87|Q96QG3|Q9Y4I3	Missense_Mutation	SNP	ENST00000361445.4	37	CCDS127.1	.	.	.	.	.	.	.	.	.	.	A	24.0	4.480085	0.84747	.	.	ENSG00000198793	ENST00000361445;ENST00000376838	T;T	0.12039	2.91;2.72	5.8	5.8	0.92144	FKBP12-rapamycin-associated protein, FKBP12-rapamycin-binding (1);	0.000000	0.85682	D	0.000000	T	0.49541	0.1563	M	0.93854	3.465	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.63368	-0.6653	10	0.87932	D	0	-10.5918	16.1549	0.81657	1.0:0.0:0.0:0.0	.	2017	P42345	MTOR_HUMAN	T	2017;222	ENSP00000354558:I2017T;ENSP00000366034:I222T	ENSP00000354558:I2017T	I	-	2	0	MTOR	11110434	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	8.923000	0.92808	2.209000	0.71365	0.533000	0.62120	ATC		0.498	MTOR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005558.1	NM_004958		G	11187847	A	G	11187847	3	3	649	1	0	0	0	0	1	0	0	0	9961	333	12	3	1659	3	MTOR	1	11187847	Missense_Mutation	SNP	A	TCGA-KM-8441-01A-11D-2310-10	7773979	11187847	238062774	2	40185										
FOXJ3	22887	hgsc.bcm.edu	37	chr1	42693588	42693588	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	gtgccctcttctttggccgaGtaggcagcacatcttccttc	9	14	3	0			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr1:42693588G>A	ENST00000372572.1	-	7	805	c.494C>T	c.(493-495)aCt>aTt	p.T165I	FOXJ3_ENST00000361346.1_Missense_Mutation_p.T165I|FOXJ3_ENST00000361776.1_Missense_Mutation_p.T165I|FOXJ3_ENST00000372573.1_Missense_Mutation_p.T165I|FOXJ3_ENST00000545068.1_Missense_Mutation_p.T165I	NM_001198851.1	NP_001185780.1	Q9UPW0	FOXJ3_HUMAN	forkhead box J3	165					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(3)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	18	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CTTTGGCCGAGTAGGCAGCAC	0.383																																																0													107	97	100					1																	42693588		2203	4300	6503	SO:0001583	missense	22887			AB028964	CCDS30689.1, CCDS55594.1	1p34.2	2008-04-10			ENSG00000198815	ENSG00000198815		"Forkhead boxes"	29178	protein-coding gene	gene with protein product							Standard	NM_014947		Approved	KIAA1041	uc001chf.3	Q9UPW0	OTTHUMG00000007026	ENST00000372572.1:c.494C>T	1.37:g.42693588G>A	ENSP00000361653:p.Thr165Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A7MBL7|A7MD18|D3DPW2|Q9NSS7	Missense_Mutation	SNP	ENST00000372572.1	37	CCDS30689.1	.	.	.	.	.	.	.	.	.	.	G	18.53	3.644135	0.67244	.	.	ENSG00000198815	ENST00000372573;ENST00000372572;ENST00000361346;ENST00000361776;ENST00000545068;ENST00000445886	D;D;D;D;D;D	0.95447	-3.71;-3.71;-3.71;-3.71;-3.71;-3.71	5.68	5.68	0.88126	Winged helix-turn-helix transcription repressor DNA-binding (1);Transcription factor, fork head (2);	0.121361	0.52532	D	0.000065	D	0.93621	0.7963	L	0.34521	1.04	0.54753	D	0.999985	B;P	0.35363	0.018;0.497	B;B	0.42188	0.053;0.379	D	0.92467	0.5982	10	0.36615	T	0.2	.	17.2843	0.87137	0.0:0.0:1.0:0.0	.	165;165	Q9UPW0-2;Q9UPW0	.;FOXJ3_HUMAN	I	165	ENSP00000361654:T165I;ENSP00000361653:T165I;ENSP00000354620:T165I;ENSP00000354449:T165I;ENSP00000439044:T165I;ENSP00000393408:T165I	ENSP00000354620:T165I	T	-	2	0	FOXJ3	42466175	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.932000	0.70121	2.666000	0.90696	0.655000	0.94253	ACT		0.383	FOXJ3-002	NOVEL	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000018310.1	NM_014947		A	42693588	G	A	42693588	3	1	649	1	0	0	0	0	1	0	0	0	6020	1029	36	2	1410	2	FOXJ3	1	42693588	Missense_Mutation	SNP	G	TCGA-KM-8441-01A-11D-2310-10	31505741	42693588	206557033	3	40186										
STIL	6491	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	47717422	47717422	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	acaattattttggttcgatcGagtgacagacagttgtgaca	10	6	0	3			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr1:47717422G>A	ENST00000360380.3	-	18	3613	c.3250C>T	c.(3250-3252)Cga>Tga	p.R1084*	STIL_ENST00000243182.6_Nonsense_Mutation_p.R1084*|STIL_ENST00000337817.5_Nonsense_Mutation_p.R1084*|STIL_ENST00000396221.2_Nonsense_Mutation_p.R1067*|STIL_ENST00000371877.3_Nonsense_Mutation_p.R1085*	NM_001282936.1	NP_001269865.1	Q15468	STIL_HUMAN	SCL/TAL1 interrupting locus	1084					cell proliferation (GO:0008283)|determination of left/right symmetry (GO:0007368)|embryonic axis specification (GO:0000578)|floor plate development (GO:0033504)|forebrain development (GO:0030900)|heart looping (GO:0001947)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|negative regulation of apoptotic process (GO:0043066)|neural tube closure (GO:0001843)|neural tube development (GO:0021915)|notochord development (GO:0030903)|smoothened signaling pathway (GO:0007224)	centrosome (GO:0005813)|cytoplasm (GO:0005737)				central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(9)|lung(14)|pancreas(1)|skin(1)|upper_aerodigestive_tract(3)	36		Acute lymphoblastic leukemia(5;0.00116)|all_hematologic(5;0.00444)				TGGTTCGATCGAGTGACAGAC	0.408																																																0													145	149	147					1																	47717422		2203	4300	6503	SO:0001587	stop_gained	6491			M74558	CCDS548.1, CCDS41329.1, CCDS72785.1, CCDS72786.1	1p32	2010-02-09	2005-11-29	2005-11-29	ENSG00000123473	ENSG00000123473			10879	protein-coding gene	gene with protein product		181590	"TAL1 (SCL) interrupting locus"	SIL		2209547	Standard	NM_003035		Approved	MCPH7	uc001crd.1	Q15468	OTTHUMG00000007851	ENST00000360380.3:c.3250C>T	1.37:g.47717422G>A	ENSP00000353544:p.Arg1084*	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T0C5|Q68CN9	Nonsense_Mutation	SNP	ENST00000360380.3	37	CCDS548.1	.	.	.	.	.	.	.	.	.	.	G	42	9.376454	0.99153	.	.	ENSG00000123473	ENST00000360380;ENST00000337817;ENST00000371877;ENST00000396221;ENST00000243182	.	.	.	5.58	5.58	0.84498	.	0.406128	0.29760	N	0.011275	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-3.4228	19.5713	0.95421	0.0:0.0:1.0:0.0	.	.	.	.	X	1084;1084;1085;1067;1084	.	ENSP00000243182:R1084X	R	-	1	2	STIL	47490009	0.983000	0.35010	0.999000	0.59377	0.985000	0.73830	4.224000	0.58593	2.623000	0.88846	0.460000	0.39030	CGA		0.408	STIL-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000021649.2	NM_003035		A	47717422	G	A	47717422	4	1	649	1	0	0	0	0	0	1	0	0	15294	1066	37	1	617	1	STIL	1	47717422	Nonsense_Mutation	SNP	G	TCGA-KM-8441-01A-11D-2310-10	5023834	47717422	201533199	4	40187										
FAM69A	388650	broad.mit.edu	37	chr1	93341936	93341936	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	aatccagcttccaacaaaaaCcactaaccaggaaaagaaaa	4	11	0	1			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr1:93341936C>A	ENST00000370310.4	-	2	176	c.106G>T	c.(106-108)Gtt>Ttt	p.V36F		NM_001006605.4|NM_001252269.1|NM_001252271.1	NP_001006606.2|NP_001239198.1|NP_001239200.1	Q5T7M9	FA69A_HUMAN	family with sequence similarity 69, member A	36						endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)				endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(1)	4		all_lung(203;0.00265)|Lung NSC(277;0.00562)|all_neural(321;0.185)|Melanoma(281;0.192)|Glioma(108;0.203)		GBM - Glioblastoma multiforme(16;0.000563)|all cancers(265;0.000751)|Epithelial(280;0.127)		CCAACAAAAACCACTAACCAG	0.338																																																0													72	69	70					1																	93341936		1841	4095	5936	SO:0001583	missense	388650			AK027146	CCDS44173.1, CCDS72822.1, CCDS72823.1, CCDS72824.1, CCDS72825.1	1p22	2014-06-25			ENSG00000154511	ENSG00000154511			32213	protein-coding gene	gene with protein product		614542				21334309	Standard	NM_001006605		Approved	FLJ23493	uc001dpg.3	Q5T7M9	OTTHUMG00000010894	ENST00000370310.4:c.106G>T	1.37:g.93341936C>A	ENSP00000359333:p.Val36Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IRV2	Missense_Mutation	SNP	ENST00000370310.4	37	CCDS44173.1	.	.	.	.	.	.	.	.	.	.	C	18.35	3.604035	0.66445	.	.	ENSG00000154511	ENST00000370310;ENST00000401027	T	0.53423	0.62	5.48	5.48	0.80851	.	0.061173	0.64402	D	0.000004	T	0.60534	0.2276	L	0.54323	1.7	0.80722	D	1	D;D;D	0.89917	0.998;0.998;1.0	D;D;D	0.80764	0.994;0.994;0.989	T	0.62329	-0.6877	10	0.87932	D	0	-14.4428	19.2974	0.94128	0.0:1.0:0.0:0.0	.	29;36;36	B4E174;Q5T7M9;Q5T7M9-2	.;FA69A_HUMAN;.	F	36	ENSP00000359333:V36F	ENSP00000359333:V36F	V	-	1	0	FAM69A	93114524	1.000000	0.71417	0.938000	0.37757	0.492000	0.33523	4.552000	0.60747	2.724000	0.93272	0.655000	0.94253	GTT		0.338	FAM69A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030046.2	NM_001006605		A	93341936	C	A	93341936	3	1	649	1	0	0	0	0	1	0	0	0	5609	507	18	4	1196	4	FAM69A	1	93341936	Missense_Mutation	SNP	C	TCGA-KM-8441-01A-11D-2310-10	45624514	93341936	155908685	5	40188										
ABCD3	5825	ucsc.edu	37	chr1	94884103	94884103	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	ggtgccgcgttcctgctgctCtgcctgctccacaagcggcg	13	16	1	0			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr1:94884103C>T	ENST00000370214.4	+	1	93	c.69C>T	c.(67-69)ctC>ctT	p.L23L	ABCD3_ENST00000454898.2_Silent_p.L23L|ABCD3_ENST00000536817.1_5'UTR|ABCD3_ENST00000394233.2_Silent_p.L23L|ABCD3_ENST00000315713.5_Silent_p.L23L	NM_002858.3	NP_002849.1	P28288	ABCD3_HUMAN	ATP-binding cassette, sub-family D (ALD), member 3	23	Interaction with PEX19.|Targeting to peroxisomes.				ATP catabolic process (GO:0006200)|fatty acid beta-oxidation (GO:0006635)|peroxisome organization (GO:0007031)|transmembrane transport (GO:0055085)|very long-chain fatty acid catabolic process (GO:0042760)	cytosol (GO:0005829)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|peroxisomal matrix (GO:0005782)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|protein homodimerization activity (GO:0042803)			breast(1)|endometrium(1)|kidney(3)|large_intestine(5)|liver(2)|lung(10)|ovary(1)|pancreas(1)|skin(2)	26		all_lung(203;0.000434)|Lung NSC(277;0.0019)		all cancers(265;0.0261)|Epithelial(280;0.165)		TCCTGCTGCTCTGCCTGCTCC	0.716																																																0													22	19	20					1																	94884103		2201	4291	6492	SO:0001819	synonymous_variant	5825			M81182	CCDS749.1, CCDS44175.1	1p21.3	2012-05-16			ENSG00000117528	ENSG00000117528		"ATP binding cassette transporters / subfamily D"	67	protein-coding gene	gene with protein product		170995		PXMP1		1301993, 8449508	Standard	NM_002858		Approved	PMP70, ZWS2	uc001dqn.4	P28288	OTTHUMG00000010717	ENST00000370214.4:c.69C>T	1.37:g.94884103C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DT46|Q15271|Q6NUN5|Q96DA3|Q9H529	Silent	SNP	ENST00000370214.4	37	CCDS749.1																																																																																				0.716	ABCD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029597.1	NM_002858		T	94884103	C	T	94884103	2	4	649	1	0	0	0	0	0	0	0	1	62	900	32	2		2	ABCD3	1	94884103	Silent	SNP	C	TCGA-KM-8441-01A-11D-2310-10	1542167	94884103	154366518	6	40189										
EPHX1	2052	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	226027678	226027678	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	ccgtcaaggagaaggtattcTacagcctgatgagggagagc	14	8	2	4			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr1:226027678T>C	ENST00000366837.4	+	6	1067	c.871T>C	c.(871-873)Tac>Cac	p.Y291H	RP11-285F7.2_ENST00000424332.1_RNA|EPHX1_ENST00000272167.5_Missense_Mutation_p.Y291H	NM_000120.3	NP_000111.1	P07099	HYEP_HUMAN	epoxide hydrolase 1, microsomal (xenobiotic)	291					aromatic compound catabolic process (GO:0019439)|response to toxic substance (GO:0009636)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	cis-stilbene-oxide hydrolase activity (GO:0033961)|epoxide hydrolase activity (GO:0004301)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(6)|lung(7)|ovary(3)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	28	Breast(184;0.197)					GAAGGTATTCTACAGCCTGAT	0.602																																																0													143	124	130					1																	226027678		2203	4300	6503	SO:0001583	missense	2052			J03518	CCDS1547.1	1q42.1	2009-07-10			ENSG00000143819	ENSG00000143819	3.3.2.9		3401	protein-coding gene	gene with protein product		132810		EPHX		9925921	Standard	NM_000120		Approved		uc001hpk.3	P07099	OTTHUMG00000037743	ENST00000366837.4:c.871T>C	1.37:g.226027678T>C	ENSP00000355802:p.Tyr291His	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8N0|Q5VTJ6|Q9NP75|Q9NPE7|Q9NQU6|Q9NQU7|Q9NQU8|Q9NQU9|Q9NQV0|Q9NQV1|Q9NQV2	Missense_Mutation	SNP	ENST00000366837.4	37	CCDS1547.1	.	.	.	.	.	.	.	.	.	.	T	10.73	1.432369	0.25813	.	.	ENSG00000143819	ENST00000272167;ENST00000366837	T;T	0.61510	0.1;0.1	5.57	3.13	0.36017	Alpha/beta hydrolase fold-1 (1);	0.477487	0.24198	N	0.040659	T	0.38268	0.1034	L	0.31420	0.93	0.09310	N	1	B	0.11235	0.004	B	0.21151	0.033	T	0.08659	-1.0711	10	0.17369	T	0.5	-21.0142	5.624	0.17473	0.2271:0.1197:0.0:0.6532	.	291	P07099	HYEP_HUMAN	H	291	ENSP00000272167:Y291H;ENSP00000355802:Y291H	ENSP00000272167:Y291H	Y	+	1	0	EPHX1	224094301	0.062000	0.20869	0.864000	0.33941	0.491000	0.33493	-0.281000	0.08456	2.126000	0.65437	0.482000	0.46254	TAC		0.602	EPHX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092064.1	NM_000120		C	226027678	T	C	226027678	3	2	649	1	0	0	0	0	1	0	0	0	5181	1522	53	3	889	3	EPHX1	1	226027678	Missense_Mutation	SNP	T	TCGA-KM-8441-01A-11D-2310-10	131143575	226027678	23222943	7	40190										
VPS54	51542	mdanderson.org	37	chr2	64124722	64124722	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	gcattaattcttaaaaataaCatctgaaaaagaaataaaac	3	5	2	2	rs11558741	byFrequency	TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr2:64124722C>A	ENST00000272322.4	-	22	2890	c.2736G>T	c.(2734-2736)atG>atT	p.M912I	VPS54_ENST00000354504.3_Missense_Mutation_p.M759I|VPS54_ENST00000409558.4_Missense_Mutation_p.M900I			Q9P1Q0	VPS54_HUMAN	vacuolar protein sorting 54 homolog (S. cerevisiae)	912			M -> I (in dbSNP:rs11558741).		growth (GO:0040007)|homeostasis of number of cells within a tissue (GO:0048873)|musculoskeletal movement (GO:0050881)|neurofilament cytoskeleton organization (GO:0060052)|protein transport (GO:0015031)|retrograde transport, endosome to Golgi (GO:0042147)	GARP complex (GO:0000938)				endometrium(3)|kidney(4)|large_intestine(8)|lung(10)|ovary(1)|upper_aerodigestive_tract(1)	27						TTAAAAATAACATCTGAAAAA	0.254													C|||	691	0.137979	0.1611	0.1441	5008	,	,		16567	0.0813		0.164	False		,,,				2504	0.1339															0								C	ILE/MET,ILE/MET	600,3794		38,524,1635	53	55	54		2700,2736	4.7	1	2	dbSNP_120	54	1292,7294		118,1056,3119	yes	missense,missense	VPS54	NM_001005739.1,NM_016516.2	10,10	156,1580,4754	AA,AC,CC		15.0478,13.655,14.5763	benign,benign	900/966,912/978	64124722	1892,11088	2197	4293	6490	SO:0001583	missense	51542			AF102177	CCDS33208.1, CCDS46302.1	2p15-p14	2014-06-13	2006-12-19		ENSG00000143952	ENSG00000143952			18652	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 164"	614633	"vacuolar protein sorting 54 (yeast)"			12039048	Standard	NM_016516		Approved	HCC8, PPP1R164	uc002scq.3	Q9P1Q0	OTTHUMG00000152627	ENST00000272322.4:c.2736G>T	2.37:g.64124722C>A	ENSP00000272322:p.Met912Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VIR5|Q86YF7|Q8N6G3|Q9NPV0|Q9NT07|Q9NUJ0	Missense_Mutation	SNP	ENST00000272322.4	37	CCDS33208.1	328	0.15018315018315018	96	0.1951219512195122	45	0.12430939226519337	54	0.0944055944055944	133	0.17546174142480211	C	13.89	2.373226	0.42105	0.13655	0.150478	ENSG00000143952	ENST00000354504;ENST00000272322;ENST00000409558;ENST00000483277;ENST00000394400	T;T;T	0.33438	1.41;1.42;1.42	5.58	4.69	0.59074	.	0.038119	0.85682	D	0.000000	T	0.00039	0.0001	L	0.47716	1.5	0.21652	P	0.999607941	B;B;B	0.09022	0.002;0.0;0.0	B;B;B	0.08055	0.001;0.0;0.003	T	0.10753	-1.0616	9	0.21540	T	0.41	.	9.7045	0.40207	0.1378:0.7903:0.0:0.072	rs11558741;rs17619976;rs60970434;rs17619976	759;912;900	Q9P1Q0-3;Q9P1Q0;Q9P1Q0-4	.;VPS54_HUMAN;.	I	759;912;900;900;912	ENSP00000346499:M759I;ENSP00000272322:M912I;ENSP00000386980:M900I	ENSP00000272322:M912I	M	-	3	0	VPS54	63978226	1.000000	0.71417	1.000000	0.80357	0.965000	0.64279	3.329000	0.52060	2.611000	0.88343	0.543000	0.68304	ATG		0.254	VPS54-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327062.2	NM_016516		A	64124722	C	A	64124722	3	1	649	1	0	0	0	0	1	0	0	0	17228	478	17	4	205	4	VPS54	2	64124722	Missense_Mutation	SNP	C	TCGA-KM-8441-01A-11D-2310-10		64124722	179074651	8	40191										
NCK2	8440	ucsc.edu	37	chr2	106509538	106509538	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	cattgggcagcggcgcttccAcaccatggacgagctggtgg	15	12	0	0			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr2:106509538A>G	ENST00000233154.4	+	5	1491	c.1049A>G	c.(1048-1050)cAc>cGc	p.H350R	NCK2_ENST00000451463.2_3'UTR|NCK2_ENST00000522586.1_3'UTR|NCK2_ENST00000393349.2_Missense_Mutation_p.H350R	NM_003581.4	NP_003572.2	O43639	NCK2_HUMAN	NCK adaptor protein 2	350	SH2. {ECO:0000255|PROSITE- ProRule:PRU00191}.				actin filament organization (GO:0007015)|axon guidance (GO:0007411)|cell migration (GO:0016477)|epidermal growth factor receptor signaling pathway (GO:0007173)|lamellipodium assembly (GO:0030032)|negative regulation of cell proliferation (GO:0008285)|positive regulation of actin filament polymerization (GO:0030838)|positive regulation of T cell proliferation (GO:0042102)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of epidermal growth factor-activated receptor activity (GO:0007176)|regulation of translation (GO:0006417)|signal complex assembly (GO:0007172)|signal transduction (GO:0007165)|T cell activation (GO:0042110)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|vesicle membrane (GO:0012506)	cytoskeletal adaptor activity (GO:0008093)|receptor signaling complex scaffold activity (GO:0030159)			endometrium(1)|lung(3)|ovary(1)	5						CGGCGCTTCCACACCATGGAC	0.587																																																0													76	68	71					2																	106509538		2203	4300	6503	SO:0001583	missense	8440			AF043119	CCDS33266.1	2q12	2013-02-14			ENSG00000071051	ENSG00000071051		"SH2 domain containing"	7665	protein-coding gene	gene with protein product		604930				9737977, 16752908	Standard	NM_001004720		Approved	NCKbeta	uc002tdi.3	O43639	OTTHUMG00000153116	ENST00000233154.4:c.1049A>G	2.37:g.106509538A>G	ENSP00000233154:p.His350Arg	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVK1|Q9BWN9|Q9UIC3	Missense_Mutation	SNP	ENST00000233154.4	37	CCDS33266.1	.	.	.	.	.	.	.	.	.	.	A	10.17	1.276996	0.23307	.	.	ENSG00000071051	ENST00000233154;ENST00000393349	T;T	0.62364	0.03;0.03	5.3	4.15	0.48705	SH2 motif (5);	0.303418	0.38663	N	0.001610	T	0.40423	0.1116	N	0.12887	0.27	0.80722	D	1	B	0.02656	0.0	B	0.08055	0.003	T	0.13522	-1.0506	10	0.17832	T	0.49	.	10.7944	0.46451	0.9258:0.0:0.0742:0.0	.	350	O43639	NCK2_HUMAN	R	350	ENSP00000233154:H350R;ENSP00000377018:H350R	ENSP00000233154:H350R	H	+	2	0	NCK2	105875970	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	2.954000	0.49113	0.875000	0.35847	0.459000	0.35465	CAC		0.587	NCK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329634.1	NM_003581		G	106509538	A	G	106509538	3	3	649	1	0	0	0	0	1	0	0	0	10227	159	6	3	1059	3	NCK2	2	106509538	Missense_Mutation	SNP	A	TCGA-KM-8441-01A-11D-2310-10	42384816	106509538	136689835	9	40192										
TANC1	85461	ucsc.edu	37	chr2	160031482	160031482	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	aggtggtggcctaccactacTgccaggctgacaacacgtac	11	13	0	1			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr2:160031482T>C	ENST00000263635.6	+	12	1759	c.1522T>C	c.(1522-1524)Tgc>Cgc	p.C508R	TANC1_ENST00000454300.1_Missense_Mutation_p.C402R	NM_001145909.1|NM_033394.2	NP_001139381.1|NP_203752.2	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 1	508					dendritic spine maintenance (GO:0097062)|myoblast fusion (GO:0007520)|visual learning (GO:0008542)	axon terminus (GO:0043679)|cell junction (GO:0030054)|dendrite (GO:0030425)|neuronal cell body (GO:0043025)|postsynaptic membrane (GO:0045211)				breast(3)|central_nervous_system(4)|cervix(2)|endometrium(6)|kidney(4)|large_intestine(9)|lung(25)|ovary(7)|pancreas(1)|prostate(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(2)	77						CTACCACTACTGCCAGGCTGA	0.572																																																0													290	292	291					2																	160031482		2149	4251	6400	SO:0001583	missense	85461			AB051515	CCDS42766.1	2q24.2	2013-01-11			ENSG00000115183	ENSG00000115183		"Ankyrin repeat domain containing", "Tetratricopeptide (TTC) repeat domain containing"	29364	protein-coding gene	gene with protein product	"rolling pebbles homolog B (Drosophila)"	611397				15673434	Standard	NM_033394		Approved	KIAA1728, ROLSB	uc002uag.3	Q9C0D5	OTTHUMG00000153945	ENST00000263635.6:c.1522T>C	2.37:g.160031482T>C	ENSP00000263635:p.Cys508Arg	Somatic		WXS	Illumina HiSeq	Phase_I	C9JD88|Q49AI8	Missense_Mutation	SNP	ENST00000263635.6	37	CCDS42766.1	.	.	.	.	.	.	.	.	.	.	T	24.1	4.492544	0.84962	.	.	ENSG00000115183	ENST00000454300;ENST00000263635	D;D	0.82984	-1.59;-1.67	5.71	5.71	0.89125	.	0.000000	0.85682	D	0.000000	D	0.91908	0.7438	M	0.84585	2.705	0.80722	D	1	D;D;D	0.89917	0.999;1.0;1.0	D;D;D	0.91635	0.996;0.998;0.999	D	0.93127	0.6530	10	0.87932	D	0	.	15.9958	0.80243	0.0:0.0:0.0:1.0	.	500;402;508	B9EK39;Q9C0D5-2;Q9C0D5	.;.;TANC1_HUMAN	R	402;508	ENSP00000396339:C402R;ENSP00000263635:C508R	ENSP00000263635:C508R	C	+	1	0	TANC1	159739728	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	8.040000	0.89188	2.188000	0.69820	0.533000	0.62120	TGC		0.572	TANC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333135.1			C	160031482	T	C	160031482	3	2	649	1	0	0	0	0	1	0	0	0	15556	1580	55	3	1560	3	TANC1	2	160031482	Missense_Mutation	SNP	T	TCGA-KM-8441-01A-11D-2310-10	53521944	160031482	83167891	10	40193										
FASTKD1	79675	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr2	170428445	170428445	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	gtggttcacaactgatgggtCgaaattgaaacactctccag	10	9	2	2	rs376071696		TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr2:170428445C>T	ENST00000453153.2	-	2	441	c.95G>A	c.(94-96)cGa>cAa	p.R32Q	FASTKD1_ENST00000453929.2_Missense_Mutation_p.R32Q	NM_024622.3	NP_078898.3	Q53R41	FAKD1_HUMAN	FAST kinase domains 1	32					cellular respiration (GO:0045333)	mitochondrion (GO:0005739)	poly(A) RNA binding (GO:0044822)|protein kinase activity (GO:0004672)	p.R32Q(1)		breast(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(5)|large_intestine(10)|lung(9)|ovary(4)|prostate(3)	37						ACTGATGGGTCGAAATTGAAA	0.343																																																1	Substitution - Missense(1)	large_intestine(1)											73	70	71					2																	170428445		2203	4300	6503	SO:0001583	missense	79675			AL832058	CCDS33318.1, CCDS63051.1	2q31.1	2008-02-05			ENSG00000138399	ENSG00000138399			26150	protein-coding gene	gene with protein product						11347906	Standard	NM_024622		Approved	FLJ21901	uc002uev.4	Q53R41	OTTHUMG00000154953	ENST00000453153.2:c.95G>A	2.37:g.170428445C>T	ENSP00000400513:p.Arg32Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N583|Q8TEA9|Q96JM5|Q96N71|Q9H6T4	Missense_Mutation	SNP	ENST00000453153.2	37	CCDS33318.1	.	.	.	.	.	.	.	.	.	.	C	13.62	2.291846	0.40594	.	.	ENSG00000138399	ENST00000453153;ENST00000453929;ENST00000438035;ENST00000445210	T;T	0.20200	2.09;2.09	5.07	4.19	0.49359	.	0.372834	0.27981	N	0.017078	T	0.21550	0.0519	M	0.64997	1.995	0.39070	D	0.960702	P;D;P	0.53885	0.938;0.963;0.883	B;B;B	0.38500	0.142;0.275;0.082	T	0.12319	-1.0552	10	0.38643	T	0.18	-26.2444	13.6022	0.62026	0.0:0.9246:0.0:0.0754	.	32;32;32	D3DPC4;Q53R41-2;Q53R41	.;.;FAKD1_HUMAN	Q	32	ENSP00000400513:R32Q;ENSP00000403229:R32Q	ENSP00000396769:R32Q	R	-	2	0	FASTKD1	170136691	1.000000	0.71417	0.840000	0.33206	0.441000	0.31987	2.348000	0.44045	1.257000	0.44085	0.591000	0.81541	CGA		0.343	FASTKD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000337788.2	NM_024622		T	170428445	C	T	170428445	3	4	649	1	0	0	0	0	1	0	0	0	5692	884	31	1	2504	1	FASTKD1	2	170428445	Missense_Mutation	SNP	C	TCGA-KM-8441-01A-11D-2310-10	10396963	170428445	72770928	11	40194										
MTMR14	64419	bcgsc.ca	37	chr3	9712769	9712769	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	tttttgataaggtcagaggcTatgacatcaagctgcttcga	10	7	2	3			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr3:9712769T>C	ENST00000296003.4	+	6	714	c.592T>C	c.(592-594)Tat>Cat	p.Y198H	MTMR14_ENST00000420925.1_Intron|MTMR14_ENST00000351233.5_Missense_Mutation_p.Y198H|MTMR14_ENST00000353332.5_Missense_Mutation_p.Y198H	NM_001077525.2	NP_001070993.1	Q8NCE2	MTMRE_HUMAN	myotubularin related protein 14	198					phosphatidylinositol biosynthetic process (GO:0006661)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|perinuclear region of cytoplasm (GO:0048471)|ruffle (GO:0001726)	phosphatidylinositol-3-phosphatase activity (GO:0004438)|protein tyrosine phosphatase activity (GO:0004725)			breast(1)|endometrium(3)|kidney(2)|lung(10)|skin(3)|upper_aerodigestive_tract(2)	21	Medulloblastoma(99;0.227)					GGTCAGAGGCTATGACATCAA	0.473																																																0													142	135	137					3																	9712769		1999	4179	6178	SO:0001583	missense	64419			BC001674	CCDS43043.1, CCDS43044.1, CCDS43045.1	3p26	2011-06-09	2006-12-18	2006-12-18	ENSG00000163719	ENSG00000163719		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	26190	protein-coding gene	gene with protein product	"egg-derived tyrosine phosphatase homolog (Drosophila)"	611089	"chromosome 3 open reading frame 29"	C3orf29		15186772	Standard	NM_022485		Approved	FLJ22405, FLJ90311, hJumpy, hEDTP	uc003brz.3	Q8NCE2	OTTHUMG00000155111	ENST00000296003.4:c.592T>C	3.37:g.9712769T>C	ENSP00000296003:p.Tyr198His	Somatic		WXS	Illumina HiSeq	Phase_I	Q0JTH5|Q0JU83|Q6PIZ4|Q6QE21|Q86VK9|Q8IYK1|Q8TCM7|Q9H6C0	Missense_Mutation	SNP	ENST00000296003.4	37	CCDS43043.1	.	.	.	.	.	.	.	.	.	.	T	11.23	1.577865	0.28180	.	.	ENSG00000163719	ENST00000353332;ENST00000296003;ENST00000351233;ENST00000419048	D;D;D	0.89939	-2.59;-2.59;-2.59	5.91	4.87	0.63330	.	0.270310	0.42420	N	0.000717	T	0.64260	0.2582	N	0.00801	-1.175	0.35982	D	0.836093	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.04013	0.001;0.001;0.001	T	0.58825	-0.7568	10	0.18276	T	0.48	-12.3384	3.5246	0.07755	0.0:0.5382:0.0:0.4617	.	198;198;198	Q8NCE2-3;Q8NCE2-2;Q8NCE2	.;.;MTMRE_HUMAN	H	198	ENSP00000323462:Y198H;ENSP00000296003:Y198H;ENSP00000334070:Y198H	ENSP00000296003:Y198H	Y	+	1	0	MTMR14	9687769	0.998000	0.40836	1.000000	0.80357	0.994000	0.84299	2.061000	0.41403	1.112000	0.41740	0.533000	0.62120	TAT		0.473	MTMR14-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000338435.1	NM_022485		C	9712769	T	C	9712769	3	2	649	1	0	0	0	0	1	0	0	0	9949	1522	53	3	614	3	MTMR14	3	9712769	Missense_Mutation	SNP	T	TCGA-KM-8441-01A-11D-2310-10		9712769	188309661	12	40195										
DNAH1	25981	broad.mit.edu	37	chr3	52416340	52416340	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	aaacttctgcctccagggccGagtacgagtgcttccagatt	10	12	1	1			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr3:52416340G>A	ENST00000420323.2	+	50	8071	c.7810G>A	c.(7810-7812)Gag>Aag	p.E2604K		NM_015512.4	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2604	AAA 4. {ECO:0000250}.				cilium movement (GO:0003341)|cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|response to mechanical stimulus (GO:0009612)	axonemal dynein complex (GO:0005858)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			cervix(2)|endometrium(18)|kidney(6)|large_intestine(3)|lung(31)|prostate(1)|urinary_tract(1)	62				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)		CTCCAGGGCCGAGTACGAGTG	0.567																																																0													126	130	128					3																	52416340		2132	4259	6391	SO:0001583	missense	25981			U61738	CCDS46842.1	3p21-p14	2008-02-05	2006-09-04		ENSG00000114841	ENSG00000114841		"Axonemal dyneins"	2940	protein-coding gene	gene with protein product		603332	"dynein, axonemal, heavy polypeptide 1"			8812413, 9256245	Standard	NM_015512		Approved	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11	uc011bef.2	Q9P2D7	OTTHUMG00000158378	ENST00000420323.2:c.7810G>A	3.37:g.52416340G>A	ENSP00000401514:p.Glu2604Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1R6|O00436|O15435|O95491|Q6ZU48|Q86YK7|Q8TEJ4|Q92863|Q9H8E6|Q9UFW6|Q9Y4Z7	Missense_Mutation	SNP	ENST00000420323.2	37	CCDS46842.1	.	.	.	.	.	.	.	.	.	.	G	20.3	3.968473	0.74131	.	.	ENSG00000114841	ENST00000420323	T	0.39229	1.09	4.49	4.49	0.54785	.	0.000000	0.51477	D	0.000088	T	0.57636	0.2067	M	0.76838	2.35	0.47905	D	0.999541	D	0.63880	0.993	P	0.58620	0.842	T	0.56529	-0.7964	10	0.25751	T	0.34	.	13.1715	0.59602	0.0:0.1602:0.8398:0.0	.	2604	C9JXH6	.	K	2604	ENSP00000401514:E2604K	ENSP00000401514:E2604K	E	+	1	0	DNAH1	52391380	1.000000	0.71417	0.953000	0.39169	0.827000	0.46813	4.931000	0.63469	2.322000	0.78497	0.462000	0.41574	GAG		0.567	DNAH1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350816.1	NM_015512		A	52416340	G	A	52416340	3	1	649	1	0	0	0	0	1	0	0	0	4599	1059	37	1	8004	1	DNAH1	3	52416340	Missense_Mutation	SNP	G	TCGA-KM-8441-01A-11D-2310-10	42703571	52416340	145606090	13	40196										
HRG	3273	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	186395001	186395001	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	gacccccacctcctccagatGaaagagatcactcacatgga	7	15	2	3			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr3:186395001G>T	ENST00000232003.4	+	7	987	c.907G>T	c.(907-909)Gaa>Taa	p.E303*		NM_000412.2	NP_000403.1	P04196	HRG_HUMAN	histidine-rich glycoprotein	303	Pro-rich.				angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|chemotaxis (GO:0006935)|defense response to fungus (GO:0050832)|fibrinolysis (GO:0042730)|heme export (GO:0097037)|negative regulation of angiogenesis (GO:0016525)|negative regulation of blood vessel endothelial cell migration (GO:0043537)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell adhesion mediated by integrin (GO:0033629)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of endothelial cell chemotaxis (GO:2001027)|negative regulation of fibrinolysis (GO:0051918)|negative regulation of lamellipodium assembly (GO:0010593)|negative regulation of vascular endothelial growth factor signaling pathway (GO:1900747)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of apoptotic process (GO:0043065)|positive regulation of blood vessel remodeling (GO:2000504)|positive regulation of focal adhesion assembly (GO:0051894)|positive regulation of immune response to tumor cell (GO:0002839)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of blood coagulation (GO:0030193)|regulation of gene expression (GO:0010468)|regulation of peptidyl-tyrosine phosphorylation (GO:0050730)|regulation of platelet activation (GO:0010543)|regulation of protein complex assembly (GO:0043254)|regulation of transcription from RNA polymerase II promoter in response to iron (GO:0034395)|response to organic cyclic compound (GO:0014070)	blood microparticle (GO:0072562)|endolysosome (GO:0036019)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|phagolysosome membrane (GO:0061474)|plasma membrane (GO:0005886)|platelet alpha granule lumen (GO:0031093)	cysteine-type endopeptidase inhibitor activity (GO:0004869)|heme binding (GO:0020037)|heparan sulfate proteoglycan binding (GO:0043395)|heparin binding (GO:0008201)|immunoglobulin binding (GO:0019865)|metal ion binding (GO:0046872)|receptor binding (GO:0005102)|serine-type endopeptidase inhibitor activity (GO:0004867)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(4)|large_intestine(12)|lung(13)|ovary(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	37	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		TCCTCCAGATGAAAGAGATCA	0.527																																																0													209	170	184					3																	186395001		2203	4300	6503	SO:0001587	stop_gained	3273				CCDS3280.1	3q27	2008-07-18			ENSG00000113905	ENSG00000113905			5181	protein-coding gene	gene with protein product	"histidine-proline rich glycoprotein", "thrombophilia due to elevated HRG"	142640				1678514	Standard	NM_000412		Approved	HRGP, HPRG	uc003fqq.3	P04196	OTTHUMG00000156578	ENST00000232003.4:c.907G>T	3.37:g.186395001G>T	ENSP00000232003:p.Glu303*	Somatic		WXS	Illumina HiSeq	Phase_I	B9EK35|D3DNU7	Nonsense_Mutation	SNP	ENST00000232003.4	37	CCDS3280.1	.	.	.	.	.	.	.	.	.	.	G	16.08	3.021615	0.54576	.	.	ENSG00000113905	ENST00000232003	.	.	.	3.76	1.92	0.25849	.	1.401000	0.04631	N	0.403727	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.08381	T	0.77	2.1006	5.4632	0.16627	0.1138:0.203:0.6831:0.0	.	.	.	.	X	303	.	ENSP00000232003:E303X	E	+	1	0	HRG	187877695	0.007000	0.16637	0.004000	0.12327	0.001000	0.01503	1.745000	0.38278	0.401000	0.25424	-0.226000	0.12346	GAA		0.527	HRG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344655.1	NM_000412		T	186395001	G	T	186395001	4	4	649	1	0	0	0	0	0	1	0	0	7361	1291	45	4	933	4	HRG	3	186395001	Nonsense_Mutation	SNP	G	TCGA-KM-8441-01A-11D-2310-10	133978661	186395001	11627429	14	40197										
PDE6B	5158	ucsc.edu	37	chr4	656004	656004	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	ggcgccacggcttcaacgtgGcccagacgatgttcacgctg	13	14	2	1			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr4:656004G>T	ENST00000496514.1	+	13	1717	c.1696G>T	c.(1696-1698)Gcc>Tcc	p.A566S	PDE6B_ENST00000429163.2_Missense_Mutation_p.A287S|RP11-1191J2.5_ENST00000609172.1_RNA|PDE6B_ENST00000255622.6_Missense_Mutation_p.A566S			P35913	PDE6B_HUMAN	phosphodiesterase 6B, cGMP-specific, rod, beta	566					cytosolic calcium ion homeostasis (GO:0051480)|GMP metabolic process (GO:0046037)|phototransduction, visible light (GO:0007603)|regulation of rhodopsin mediated signaling pathway (GO:0022400)|retina development in camera-type eye (GO:0060041)|rhodopsin mediated signaling pathway (GO:0016056)|visual perception (GO:0007601)	photoreceptor disc membrane (GO:0097381)|plasma membrane (GO:0005886)	3',5'-cyclic-GMP phosphodiesterase activity (GO:0047555)|metal ion binding (GO:0046872)			NS(1)|breast(3)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(5)|lung(11)|ovary(2)|prostate(2)|urinary_tract(1)	30					Caffeine(DB00201)	CTTCAACGTGGCCCAGACGAT	0.617																																					GBM(71;463 1194 9848 25922 46834)											0													47	36	40					4																	656004		2193	4293	6486	SO:0001583	missense	5158			BC000249	CCDS33932.1, CCDS46993.1, CCDS54703.1	4p16.3	2014-01-28	2008-07-31		ENSG00000133256	ENSG00000133256	3.1.4.17	"Phosphodiesterases"	8786	protein-coding gene	gene with protein product	"congenital stationary night blindness 3, autosomal dominant"	180072		PDEB		1313787	Standard	NM_001145292		Approved	CSNB3, rd1, RP40, CSNBAD2	uc003gap.3	P35913	OTTHUMG00000159909	ENST00000496514.1:c.1696G>T	4.37:g.656004G>T	ENSP00000420295:p.Ala566Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z9T9|E7ETT3|Q53XN5|Q9BWH5|Q9UD49	Missense_Mutation	SNP	ENST00000496514.1	37	CCDS33932.1	.	.	.	.	.	.	.	.	.	.	G	18.06	3.539461	0.65085	.	.	ENSG00000133256	ENST00000255622;ENST00000496514;ENST00000429163	T;T;T	0.77750	-1.12;-1.12;-1.12	4.41	4.41	0.53225	Metal-dependent phosphohydrolase, HD domain (1);5&apos (2);-cyclic nucleotide phosphodiesterase, catalytic domain (2);3&apos (2);	0.060860	0.64402	D	0.000004	T	0.69878	0.3160	L	0.28556	0.865	0.51012	D	0.999906	B;B	0.22983	0.078;0.063	B;B	0.29267	0.1;0.089	T	0.70396	-0.4883	10	0.66056	D	0.02	.	14.5094	0.67774	0.0:0.0:1.0:0.0	.	566;566	P35913;P35913-2	PDE6B_HUMAN;.	S	566;566;287	ENSP00000255622:A566S;ENSP00000420295:A566S;ENSP00000406334:A287S	ENSP00000255622:A566S	A	+	1	0	PDE6B	646004	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	9.246000	0.95438	2.001000	0.58596	0.558000	0.71614	GCC		0.617	PDE6B-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000358109.1	NM_000283		T	656004	G	T	656004	3	4	649	1	0	0	0	0	1	0	0	0	11653	1203	42	4	1746	4	PDE6B	4	656004	Missense_Mutation	SNP	G	TCGA-KM-8441-01A-11D-2310-10		656004	190498272	15	40198										
RASL11B	65997	hgsc.bcm.edu	37	chr4	53728693	53728694	+	Frame_Shift_Del	DEL	AT	AT	-													0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	cgatgcgcctcattcagaacAtgtgcaccatcgccgagtac							TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr4:53728693_53728694delAT	ENST00000248706.3	+	1	237_238	c.19_20delAT	c.(19-21)atgfs	p.M7fs		NM_023940.2	NP_076429.1			RAS-like, family 11, member B											autonomic_ganglia(1)|central_nervous_system(1)|lung(5)|ovary(1)|stomach(1)	9			LUSC - Lung squamous cell carcinoma(32;0.0302)			CATTCAGAACATGTGCACCATC	0.733																																																0																																										SO:0001589	frameshift_variant	65997			BK001672	CCDS3490.1	4q12	2014-05-09			ENSG00000128045	ENSG00000128045			23804	protein-coding gene	gene with protein product		612404					Standard	NM_023940		Approved		uc003gzt.3	Q9BPW5	OTTHUMG00000102097	ENST00000248706.3:c.19_20delAT	4.37:g.53728693_53728694delAT	ENSP00000248706:p.Met7fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000248706.3	37	CCDS3490.1																																																																																				0.733	RASL11B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219931.2	NM_023940		-	53728694	AT	-	53728693	7	5	649	1	0	1	0	1	0	0	0	0	13095	217	8	0	21	0	RASL11B	4	53728693	Frame_Shift_Del	DEL	AT	TCGA-KM-8441-01A-11D-2310-10	53072689	53728693	137425583	16	40199										
UGT2B7	7364	broad.mit.edu	37	chr4	69962648	69962648	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	agtttcaaataagaaatttaTgaaaaaagtacaagagtcaa	6	3	2	3	rs368476298		TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr4:69962648T>C	ENST00000508661.1	+	1	437	c.410T>C	c.(409-411)aTg>aCg	p.M137T	UGT2B7_ENST00000509763.1_Intron|UGT2B7_ENST00000305231.7_Missense_Mutation_p.M137T			P16662	UD2B7_HUMAN	UDP glucuronosyltransferase 2 family, polypeptide B7	137					androgen metabolic process (GO:0008209)|cellular glucuronidation (GO:0052695)|lipid metabolic process (GO:0006629)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	glucuronosyltransferase activity (GO:0015020)			autonomic_ganglia(1)|endometrium(3)|kidney(4)|large_intestine(6)|lung(16)|ovary(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	38					Atorvastatin(DB01076)|Carbamazepine(DB00564)|Chenodeoxycholic acid(DB06777)|Codeine(DB00318)|Dabigatran etexilate(DB06695)|Dapagliflozin(DB06292)|Diclofenac(DB00586)|Epirubicin(DB00445)|Etodolac(DB00749)|Ezetimibe(DB00973)|Flunitrazepam(DB01544)|Flurbiprofen(DB00712)|Fluvastatin(DB01095)|Ibuprofen(DB01050)|Indomethacin(DB00328)|Losartan(DB00678)|Lovastatin(DB00227)|Mitiglinide(DB01252)|Morphine(DB00295)|Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|Naproxen(DB00788)|Oxazepam(DB00842)|Pitavastatin(DB08860)|Silodosin(DB06207)|Simvastatin(DB00641)|Suprofen(DB00870)|Tapentadol(DB06204)|Valproic Acid(DB00313)|Zidovudine(DB00495)	AAGAAATTTATGAAAAAAGTA	0.323																																																0								T	THR/MET	0,4400		0,0,2200	70	71	70		410	2.5	0	4		70	1,8593	1.2+/-3.3	0,1,4296	no	missense	UGT2B7	NM_001074.2	81	0,1,6496	CC,CT,TT		0.0116,0.0,0.0077	possibly-damaging	137/530	69962648	1,12993	2200	4297	6497	SO:0001583	missense	7364			BC030974	CCDS3526.1	4q13	2008-02-05	2005-07-20		ENSG00000171234	ENSG00000171234		"UDP glucuronosyltransferases"	12554	protein-coding gene	gene with protein product		600068	"UDP glycosyltransferase 2 family, polypeptide B7"			2159463, 7835904	Standard	NM_001074		Approved	UGT2B9	uc003heg.4	P16662	OTTHUMG00000129404	ENST00000508661.1:c.410T>C	4.37:g.69962648T>C	ENSP00000427659:p.Met137Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R810|Q6GTW0	Missense_Mutation	SNP	ENST00000508661.1	37		.	.	.	.	.	.	.	.	.	.	T	9.836	1.189712	0.21954	0.0	1.16E-4	ENSG00000171234	ENST00000305231;ENST00000508661	T;T	0.61510	0.1;0.1	2.54	2.54	0.30619	.	0.286793	0.30338	U	0.009850	T	0.64046	0.2563	M	0.90814	3.15	0.27669	N	0.946838	B;P	0.35192	0.087;0.489	B;B	0.39935	0.168;0.314	T	0.62144	-0.6916	9	.	.	.	.	8.5583	0.33494	0.0:0.0:0.0:1.0	.	137;137	E9PBP8;P16662	.;UD2B7_HUMAN	T	137	ENSP00000304811:M137T;ENSP00000427659:M137T	.	M	+	2	0	UGT2B7	69997237	0.436000	0.25586	0.007000	0.13788	0.014000	0.08584	3.768000	0.55295	1.157000	0.42530	0.260000	0.18958	ATG		0.323	UGT2B7-002	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000362103.1	NM_001074		C	69962648	T	C	69962648	3	2	649	1	0	0	0	0	1	0	0	0	16974	1464	51	3	412	3	UGT2B7	4	69962648	Missense_Mutation	SNP	T	TCGA-KM-8441-01A-11D-2310-10	16233955	69962648	121191628	17	40200										
PLK4	10733	broad.mit.edu;bcgsc.ca	37	chr4	128814529	128814529	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	aaagtgaaagtgaagttaatAgcttgaaagaggagataaaa	11	1	0	5			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr4:128814529A>C	ENST00000270861.5	+	11	2552	c.2278A>C	c.(2278-2280)Agc>Cgc	p.S760R	PLK4_ENST00000507249.1_Missense_Mutation_p.S699R|PLK4_ENST00000515069.1_Missense_Mutation_p.S682R|PLK4_ENST00000514379.1_Missense_Mutation_p.S719R|RNU6-583P_ENST00000516012.1_RNA|PLK4_ENST00000513090.1_Missense_Mutation_p.S728R	NM_014264.4	NP_055079.3	O00444	PLK4_HUMAN	polo-like kinase 4	760					centriole replication (GO:0007099)|de novo centriole assembly (GO:0098535)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|positive regulation of centriole replication (GO:0046601)|protein phosphorylation (GO:0006468)|trophoblast giant cell differentiation (GO:0060707)	centriole (GO:0005814)|centrosome (GO:0005813)|cytosol (GO:0005829)|deuterosome (GO:0098536)|nucleolus (GO:0005730)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(10)|lung(12)|prostate(1)|upper_aerodigestive_tract(1)	31						TGAAGTTAATAGCTTGAAAGA	0.299																																					Colon(135;508 1718 19061 31832 42879)											0													81	85	84					4																	128814529		2202	4299	6501	SO:0001583	missense	10733			Y13115	CCDS3735.1, CCDS54803.1, CCDS54804.1	4q27-q28	2013-01-18	2010-06-24	2004-01-28	ENSG00000142731	ENSG00000142731			11397	protein-coding gene	gene with protein product		605031	"serine/threonine kinase 18", "polo-like kinase 4 (Drosophila)"	STK18			Standard	NM_014264		Approved	Sak	uc003ifo.3	O00444	OTTHUMG00000133301	ENST00000270861.5:c.2278A>C	4.37:g.128814529A>C	ENSP00000270861:p.Ser760Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAL0|B7Z837|B7Z8G7|Q8IYF0|Q96Q95|Q9UD84|Q9UDE2	Missense_Mutation	SNP	ENST00000270861.5	37	CCDS3735.1	.	.	.	.	.	.	.	.	.	.	A	17.46	3.395123	0.62066	.	.	ENSG00000142731	ENST00000270861;ENST00000515069;ENST00000513090;ENST00000507249;ENST00000514379	T;T;T;T;T	0.69306	-0.24;-0.24;-0.39;-0.24;-0.31	5.08	3.86	0.44501	.	0.293682	0.43260	D	0.000594	T	0.57403	0.2051	L	0.47716	1.5	0.27142	N	0.961622	P;P	0.48089	0.905;0.684	P;B	0.44518	0.452;0.265	T	0.57177	-0.7856	10	0.66056	D	0.02	-0.3977	4.2527	0.10702	0.7068:0.0:0.1166:0.1766	.	728;760	O00444-2;O00444	.;PLK4_HUMAN	R	760;682;728;699;719	ENSP00000270861:S760R;ENSP00000421774:S682R;ENSP00000427554:S728R;ENSP00000423412:S699R;ENSP00000423582:S719R	ENSP00000270861:S760R	S	+	1	0	PLK4	129033979	1.000000	0.71417	0.654000	0.29608	0.874000	0.50279	3.069000	0.50026	0.905000	0.36596	0.533000	0.62120	AGC		0.299	PLK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257095.3			C	128814529	A	C	128814529	3	2	649	1	0	0	0	0	1	0	0	0	12105	420	15	5	2320	5	PLK4	4	128814529	Missense_Mutation	SNP	A	TCGA-KM-8441-01A-11D-2310-10	58851881	128814529	62339747	18	40201										
ENPP6	133121	bcgsc.ca	37	chr4	185138788	185138788	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	tagggaagtctggagtcaagTaatccacttttactcccctg	9	10	2	0			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr4:185138788T>A	ENST00000296741.2	-	1	326	c.185A>T	c.(184-186)tAc>tTc	p.Y62F		NM_153343.3	NP_699174.1	Q6UWR7	ENPP6_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase 6	62					choline metabolic process (GO:0019695)|lipid catabolic process (GO:0016042)|lipid metabolic process (GO:0006629)	anchored component of membrane (GO:0031225)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	glycerophosphocholine cholinephosphodiesterase activity (GO:0047390)|glycerophosphodiester phosphodiesterase activity (GO:0008889)|phosphoric diester hydrolase activity (GO:0008081)			breast(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(5)|skin(2)	15		all_lung(41;7.99e-12)|Lung NSC(41;1.46e-11)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;4.98e-27)|Epithelial(43;3.15e-24)|OV - Ovarian serous cystadenocarcinoma(60;4.09e-12)|Colorectal(24;3.78e-05)|STAD - Stomach adenocarcinoma(60;4.5e-05)|COAD - Colon adenocarcinoma(29;0.000154)|GBM - Glioblastoma multiforme(59;0.000167)|BRCA - Breast invasive adenocarcinoma(30;0.000378)|LUSC - Lung squamous cell carcinoma(40;0.0151)		TGGAGTCAAGTAATCCACTTT	0.493																																																0													86	80	82					4																	185138788		2203	4300	6503	SO:0001583	missense	133121			AK057370	CCDS3834.1	4q35.1	2008-02-05			ENSG00000164303	ENSG00000164303			23409	protein-coding gene	gene with protein product							Standard	NM_153343		Approved	MGC33971	uc003iwc.3	Q6UWR7	OTTHUMG00000160617	ENST00000296741.2:c.185A>T	4.37:g.185138788T>A	ENSP00000296741:p.Tyr62Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5Q1|Q96M57	Missense_Mutation	SNP	ENST00000296741.2	37	CCDS3834.1	.	.	.	.	.	.	.	.	.	.	T	16.90	3.248979	0.59103	.	.	ENSG00000164303	ENST00000296741	T	0.73789	-0.78	5.28	5.28	0.74379	Alkaline phosphatase-like, alpha/beta/alpha (1);Alkaline-phosphatase-like, core domain (1);	0.000000	0.85682	D	0.000000	T	0.77003	0.4067	L	0.60845	1.875	0.80722	D	1	P	0.46706	0.883	P	0.49887	0.625	T	0.74671	-0.3587	10	0.26408	T	0.33	-28.6202	15.3844	0.74684	0.0:0.0:0.0:1.0	.	62	Q6UWR7	ENPP6_HUMAN	F	62	ENSP00000296741:Y62F	ENSP00000296741:Y62F	Y	-	2	0	ENPP6	185375782	1.000000	0.71417	0.962000	0.40283	0.152000	0.21847	7.412000	0.80091	2.210000	0.71456	0.533000	0.62120	TAC		0.493	ENPP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361428.1	NM_153343		A	185138788	T	A	185138788	3	1	649	1	0	0	0	0	1	0	0	0	5136	1638	57	5	1169	5	ENPP6	4	185138788	Missense_Mutation	SNP	T	TCGA-KM-8441-01A-11D-2310-10	56324259	185138788	6015488	19	40202										
ISOC1	51015	ucsc.edu;mdanderson.org	37	chr5	128430757	128430757	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	gcaaggtgcgcctcgtgccgTtgcagatccaggtgggtcct	15	12	0	1	rs1127827	byFrequency	TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr5:128430757T>C	ENST00000173527.5	+	1	314	c.298T>C	c.(298-300)Ttg>Ctg	p.L100L	MIR4633_ENST00000584064.1_RNA	NM_016048.2	NP_057132.2	Q96CN7	ISOC1_HUMAN	isochorismatase domain containing 1	100						extracellular vesicular exosome (GO:0070062)|peroxisome (GO:0005777)	catalytic activity (GO:0003824)			kidney(2)|lung(7)	9		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)		CCTCGTGCCGTTGCAGATCCA	0.692													C|||	4039	0.80651	0.9682	0.7464	5008	,	,		11507	0.8661		0.6004	False		,,,				2504	0.7812															0								C		3754,388		1706,342,23	17	21	20		298	3.4	1	5	dbSNP_86	20	5111,3281		1551,2009,636	no	coding-synonymous	ISOC1	NM_016048.2		3257,2351,659	CC,CT,TT		39.0968,9.3675,29.2724		100/299	128430757	8865,3669	2071	4196	6267	SO:0001819	synonymous_variant	51015			AF151869	CCDS43357.1	5q22.1-q33.3	2010-03-19			ENSG00000066583	ENSG00000066583			24254	protein-coding gene	gene with protein product						10810093, 18566572	Standard	NM_016048		Approved	CGI-111	uc003kva.3	Q96CN7	OTTHUMG00000163144	ENST00000173527.5:c.298T>C	5.37:g.128430757T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z770	Silent	SNP	ENST00000173527.5	37	CCDS43357.1																																																																																				0.692	ISOC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371826.1	NM_016048		C	128430757	T	C	128430757	2	2	649	1	0	0	0	0	0	0	0	1	7869	1722	60	3		3	ISOC1	5	128430757	Silent	SNP	T	TCGA-KM-8441-01A-11D-2310-10		128430757	52484503	20	40203										
MRPS10	55173	broad.mit.edu	37	chr6	42179589	42179589	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	ataactgtccaatacagcctTatcgtgacctttcaccaaaa	4	12	1	1			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr6:42179589T>C	ENST00000053468.3	-	4	268	c.253A>G	c.(253-255)Aag>Gag	p.K85E		NM_018141.3	NP_060611.2	P82664	RT10_HUMAN	mitochondrial ribosomal protein S10	85						mitochondrion (GO:0005739)|ribosome (GO:0005840)				endometrium(1)|lung(1)	2	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|Epithelial(12;0.00528)			AATACAGCCTTATCGTGACCT	0.388																																																0													115	112	113					6																	42179589		2203	4300	6503	SO:0001583	missense	55173				CCDS4866.1	6p21.1	2012-09-13			ENSG00000048544	ENSG00000048544		"Mitochondrial ribosomal proteins / small subunits"	14502	protein-coding gene	gene with protein product		611976				11279123	Standard	NM_018141		Approved	FLJ10567	uc003osa.4	P82664	OTTHUMG00000014694	ENST00000053468.3:c.253A>G	6.37:g.42179589T>C	ENSP00000053468:p.Lys85Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE89|Q9H3E5|Q9NVR3	Missense_Mutation	SNP	ENST00000053468.3	37	CCDS4866.1	.	.	.	.	.	.	.	.	.	.	T	16.43	3.120923	0.56613	.	.	ENSG00000048544	ENST00000053468	.	.	.	5.78	4.58	0.56647	.	0.182436	0.64402	D	0.000017	T	0.42426	0.1202	L	0.43152	1.355	0.38608	D	0.950836	D	0.56746	0.977	P	0.54544	0.755	T	0.35176	-0.9799	9	0.33940	T	0.23	-11.204	11.2704	0.49136	0.1371:0.0:0.0:0.8629	.	85	P82664	RT10_HUMAN	E	85	.	ENSP00000053468:K85E	K	-	1	0	MRPS10	42287567	1.000000	0.71417	0.998000	0.56505	0.971000	0.66376	7.294000	0.78760	0.963000	0.38082	0.533000	0.62120	AAG		0.388	MRPS10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040547.1			C	42179589	T	C	42179589	3	2	649	1	0	0	0	0	1	0	0	0	9828	1763	61	3	368	3	MRPS10	6	42179589	Missense_Mutation	SNP	T	TCGA-KM-8441-01A-11D-2310-10		42179589	128935478	21	40204										
PRDM13	59336	bcgsc.ca	37	chr6	100057081	100057081	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	agatcttctaccgagcattgCgagacgtccagccaggggag	13	11	2	2			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr6:100057081C>T	ENST00000369215.4	+	3	600	c.295C>T	c.(295-297)Cga>Tga	p.R99*		NM_021620.3	NP_067633.2	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	99	SET. {ECO:0000255|PROSITE- ProRule:PRU00190}.				negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neurogenesis (GO:0022008)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)|methyltransferase activity (GO:0008168)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|lung(9)|prostate(1)	17		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		CCGAGCATTGCGAGACGTCCA	0.507																																																0													56	61	59					6																	100057081		2089	4228	6317	SO:0001587	stop_gained	59336			AY004253	CCDS43487.1	6q16.2	2012-03-28			ENSG00000112238	ENSG00000112238			13998	protein-coding gene	gene with protein product							Standard	NM_021620		Approved		uc003pqg.1	Q9H4Q3	OTTHUMG00000015269	ENST00000369215.4:c.295C>T	6.37:g.100057081C>T	ENSP00000358217:p.Arg99*	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TGC1|Q5TGC2	Nonsense_Mutation	SNP	ENST00000369215.4	37	CCDS43487.1	.	.	.	.	.	.	.	.	.	.	C	38	7.278789	0.98182	.	.	ENSG00000112238	ENST00000369215;ENST00000369214	.	.	.	5.51	1.15	0.20763	.	0.000000	0.32372	N	0.006183	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-1.1248	14.7894	0.69827	0.597:0.403:0.0:0.0	.	.	.	.	X	99;109	.	ENSP00000358216:R109X	R	+	1	2	PRDM13	100163802	0.998000	0.40836	0.638000	0.29380	0.992000	0.81027	1.143000	0.31553	0.655000	0.30866	0.456000	0.33151	CGA		0.507	PRDM13-002	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041619.2			T	100057081	C	T	100057081	4	4	649	1	0	0	0	0	0	1	0	0	12464	760	27	1	305	1	PRDM13	6	100057081	Nonsense_Mutation	SNP	C	TCGA-KM-8441-01A-11D-2310-10	57877492	100057081	71057986	22	40205										
MEST	4232	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr7	130140638	130140638	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	ggactctttcagtctcacccCagtctttgggccgtatactc	8	14	4	0			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr7:130140638C>T	ENST00000223215.4	+	9	877	c.656C>T	c.(655-657)cCa>cTa	p.P219L	MEST_ENST00000416162.2_Intron|MEST_ENST00000341441.5_Missense_Mutation_p.P210L|MEST_ENST00000378576.4_Intron|MEST_ENST00000393187.1_Missense_Mutation_p.P210L|MEST_ENST00000462132.1_3'UTR|hsa-mir-335_ENST00000604666.1_RNA|MEST_ENST00000437945.1_Missense_Mutation_p.P219L	NM_001253900.1|NM_002402.3	NP_001240829.1|NP_002393.2	Q5EB52	MEST_HUMAN	mesoderm specific transcript	219					mesoderm development (GO:0007498)|regulation of lipid storage (GO:0010883)|response to retinoic acid (GO:0032526)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	hydrolase activity (GO:0016787)			breast(1)|endometrium(2)|large_intestine(3)|lung(4)|ovary(2)	12	Melanoma(18;0.0435)					AGTCTCACCCCAGTCTTTGGG	0.517																																					Colon(126;2182 2305 6517 35181)											0													62	55	57					7																	130140638		2203	4300	6503	SO:0001583	missense	4232				CCDS5822.1, CCDS5823.1, CCDS59081.1	7q32	2014-08-22	2012-12-07		ENSG00000106484	ENSG00000106484			7028	protein-coding gene	gene with protein product	"Paternally-expressed gene 1"	601029	"mesoderm specific transcript (mouse) homolog", "mesoderm specific transcript homolog (mouse)"			8884280	Standard	NM_002402		Approved	PEG1	uc003vqg.3	Q5EB52	OTTHUMG00000156661	ENST00000223215.4:c.656C>T	7.37:g.130140638C>T	ENSP00000223215:p.Pro219Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6S1|O14973|O15007|Q6AI49|Q92571	Missense_Mutation	SNP	ENST00000223215.4	37	CCDS5822.1	.	.	.	.	.	.	.	.	.	.	C	14.44	2.536649	0.45176	.	.	ENSG00000106484	ENST00000341441;ENST00000393187;ENST00000223215;ENST00000437945	T;T;T;T	0.03801	3.8;3.8;3.8;3.8	5.95	3.9	0.45041	.	0.000000	0.52532	D	0.000067	T	0.04182	0.0116	L	0.39898	1.24	0.37717	D	0.924792	B;B;B	0.30146	0.021;0.27;0.042	B;B;B	0.24541	0.011;0.054;0.026	T	0.40079	-0.9582	10	0.30854	T	0.27	-8.4069	8.3751	0.32438	0.1582:0.755:0.0:0.0867	.	205;219;219	B4DQW6;C9JW74;Q5EB52	.;.;MEST_HUMAN	L	210;210;219;219	ENSP00000342749:P210L;ENSP00000376884:P210L;ENSP00000223215:P219L;ENSP00000401657:P219L	ENSP00000223215:P219L	P	+	2	0	MEST	129927874	0.913000	0.31002	0.971000	0.41717	0.992000	0.81027	1.823000	0.39062	2.821000	0.97095	0.561000	0.74099	CCA		0.517	MEST-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345183.2	NM_002402		T	130140638	C	T	130140638	3	4	649	1	0	0	0	0	1	0	0	0	9491	594	21	2	690	2	MEST	7	130140638	Missense_Mutation	SNP	C	TCGA-KM-8441-01A-11D-2310-10		130140638	28998025	23	40206										
FAM160B2	64760	broad.mit.edu;hgsc.bcm.edu	37	chr8	21956855	21956855	+	Frame_Shift_Del	DEL	C	C	-													0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	tcttcgtggagaccctgcagCcccagctcctgcacgtgtaa							TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr8:21956855delC	ENST00000289921.7	+	9	1181	c.1135delC	c.(1135-1137)cccfs	p.P379fs		NM_022749.5	NP_073586.5	Q86V87	F16B2_HUMAN	family with sequence similarity 160, member B2	379										endometrium(2)|kidney(1)|lung(2)|prostate(3)|urinary_tract(1)	9						GACCCTGCAGCCCCAGCTCCT	0.587																																																0													48	54	52					8																	21956855		2138	4235	6373	SO:0001589	frameshift_variant	64760			AK025454	CCDS6021.2	8p21.3	2012-11-30	2008-06-05	2008-06-05	ENSG00000158863	ENSG00000158863			16492	protein-coding gene	gene with protein product			"retinoic acid induced 16"	RAI16		22971576, 15626329	Standard	XR_247128		Approved	FLJ21801	uc011kyx.2	Q86V87	OTTHUMG00000097088	ENST00000289921.7:c.1135delC	8.37:g.21956855delC	ENSP00000289921:p.Pro379fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDQ5|B3KNX1|Q2M211|Q71JB5|Q7L3J6|Q969T0|Q9H6W4	Frame_Shift_Del	DEL	ENST00000289921.7	37	CCDS6021.2																																																																																				0.587	FAM160B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375334.2			-	21956855	C	-	21956855	7	5	649	1	0	1	0	1	0	0	0	0	5475	739	26	0	968	0	FAM160B2	8	21956855	Frame_Shift_Del	DEL	C	TCGA-KM-8441-01A-11D-2310-10		21956855	124407167	24	40207	357	2								
FAM160B2	64760	bcgsc.ca	37	chr8	21956856	21956856	+	Frame_Shift_Del	DEL	C	C	-													0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	cttcgtggagaccctgcagcCccagctcctgcacgtgtaag							TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr8:21956856delC	ENST00000289921.7	+	9	1182	c.1136delC	c.(1135-1137)cccfs	p.P379fs		NM_022749.5	NP_073586.5	Q86V87	F16B2_HUMAN	family with sequence similarity 160, member B2	379										endometrium(2)|kidney(1)|lung(2)|prostate(3)|urinary_tract(1)	9						ACCCTGCAGCCCCAGCTCCTG	0.582																																																0													49	54	52					8																	21956856		2138	4235	6373	SO:0001589	frameshift_variant	64760			AK025454	CCDS6021.2	8p21.3	2012-11-30	2008-06-05	2008-06-05	ENSG00000158863	ENSG00000158863			16492	protein-coding gene	gene with protein product			"retinoic acid induced 16"	RAI16		22971576, 15626329	Standard	XR_247128		Approved	FLJ21801	uc011kyx.2	Q86V87	OTTHUMG00000097088	ENST00000289921.7:c.1136delC	8.37:g.21956856delC	ENSP00000289921:p.Pro379fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDQ5|B3KNX1|Q2M211|Q71JB5|Q7L3J6|Q969T0|Q9H6W4	Frame_Shift_Del	DEL	ENST00000289921.7	37	CCDS6021.2																																																																																				0.582	FAM160B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375334.2			-	21956856	C	-	21956856	7	5	649	1	0	1	0	1	0	0	0	0	5475	623	22	0	969	0	FAM160B2	8	21956856	Frame_Shift_Del	DEL	C	TCGA-KM-8441-01A-11D-2310-10	1	21956856	124407166	25	40208	357	2								
MCM4	4173	broad.mit.edu	37	chr8	48882495	48882495	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	gccttgatgaagaagcagaaCagaaacttttttcagagaaa	9	6	1	6			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr8:48882495C>T	ENST00000262105.2	+	10	1521	c.1312C>T	c.(1312-1314)Cag>Tag	p.Q438*	MCM4_ENST00000523944.1_Nonsense_Mutation_p.Q438*|MCM4_ENST00000518680.1_3'UTR	NM_005914.3	NP_005905.2	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	438					DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA strand elongation involved in DNA replication (GO:0006271)|DNA unwinding involved in DNA replication (GO:0006268)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)	MCM complex (GO:0042555)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA helicase activity (GO:0003678)|single-stranded DNA binding (GO:0003697)			biliary_tract(1)|breast(1)|endometrium(7)|kidney(4)|large_intestine(5)|lung(16)|ovary(2)|prostate(3)|skin(3)|urinary_tract(2)	44		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				AGAAGCAGAACAGAAACTTTT	0.413																																																0													150	146	147					8																	48882495		2203	4300	6503	SO:0001587	stop_gained	4173				CCDS6143.1	8q12-q13	2008-02-05	2007-04-04		ENSG00000104738	ENSG00000104738			6947	protein-coding gene	gene with protein product		602638	"MCM4 minichromosome maintenance deficient 4 (S. cerevisiae)"	CDC21		7601140	Standard	NM_005914		Approved	CDC54, hCdc21, P1-Cdc21, MGC33310	uc003xql.2	P33991	OTTHUMG00000164205	ENST00000262105.2:c.1312C>T	8.37:g.48882495C>T	ENSP00000262105:p.Gln438*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NEH1|Q99658	Nonsense_Mutation	SNP	ENST00000262105.2	37	CCDS6143.1	.	.	.	.	.	.	.	.	.	.	C	35	5.491914	0.96339	.	.	ENSG00000104738	ENST00000523944;ENST00000262105;ENST00000396826;ENST00000429229;ENST00000520637	.	.	.	6.17	6.17	0.99709	.	0.103011	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.20046	T	0.44	-17.1867	20.8794	0.99867	0.0:1.0:0.0:0.0	.	.	.	.	X	438;438;425;398;156	.	ENSP00000262105:Q438X	Q	+	1	0	MCM4	49045048	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.416000	0.80143	2.941000	0.99782	0.655000	0.94253	CAG		0.413	MCM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377791.1	NM_005914		T	48882495	C	T	48882495	4	4	649	1	0	0	0	0	0	1	0	0	9396	479	17	2	1350	2	MCM4	8	48882495	Nonsense_Mutation	SNP	C	TCGA-KM-8441-01A-11D-2310-10	26925639	48882495	97481527	26	40209										
PCMTD1	115294	mdanderson.org	37	chr8	52733016	52733016	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	ggtggctcctctggcttcatTgcttcattgtgatctttttc	9	10	4	1	rs117828481		TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr8:52733016T>C	ENST00000360540.5	-	7	1375	c.969A>G	c.(967-969)gcA>gcG	p.A323A	PCMTD1_ENST00000519559.1_5'UTR|PCMTD1_ENST00000544451.1_Silent_p.A247A|PCMTD1_ENST00000522514.1_Silent_p.A323A	NM_052937.2	NP_443169.2	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	323						cytoplasm (GO:0005737)	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity (GO:0004719)			NS(2)|endometrium(1)|kidney(3)|large_intestine(3)|lung(17)|prostate(2)|skin(8)|soft_tissue(1)	37		Lung NSC(129;0.0795)|all_lung(136;0.144)				CTGGCTTCATTGCTTCATTGT	0.393																																																0													100	84	89					8																	52733016		2203	4300	6503	SO:0001819	synonymous_variant	115294				CCDS6148.1, CCDS69480.1	8q11.23	2010-08-05			ENSG00000168300	ENSG00000168300			30483	protein-coding gene	gene with protein product							Standard	XM_005251146		Approved	FLJ10883	uc003xqx.4	Q96MG8	OTTHUMG00000164246	ENST00000360540.5:c.969A>G	8.37:g.52733016T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q96FK9	Silent	SNP	ENST00000360540.5	37	CCDS6148.1																																																																																				0.393	PCMTD1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377909.2	NM_052937		C	52733016	T	C	52733016	2	2	649	1	0	0	0	0	0	0	0	1	11593	1799	63	3		3	PCMTD1	8	52733016	Silent	SNP	T	TCGA-KM-8441-01A-11D-2310-10	3850521	52733016	93631006	27	40210										
C9orf43	257169	hgsc.bcm.edu;bcgsc.ca	37	chr9	116183413	116183413	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	tgaatttgaatgagacgcaaCttccctgccctgaagatgtt	9	9	0	5			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr9:116183413C>T	ENST00000288462.4	+	5	822	c.376C>T	c.(376-378)Ctt>Ttt	p.L126F	C9orf43_ENST00000490544.1_3'UTR|C9orf43_ENST00000374165.1_Missense_Mutation_p.L126F	NM_152786.1	NP_689999.1	Q8TAL5	CI043_HUMAN	chromosome 9 open reading frame 43	126										breast(2)|large_intestine(6)|lung(2)|ovary(1)|pancreas(1)|prostate(3)	15						TGAGACGCAACTTCCCTGCCC	0.398																																																0													162	141	148					9																	116183413		2203	4300	6503	SO:0001583	missense	257169			BC026884	CCDS6796.1	9q33.1	2012-03-15			ENSG00000157653	ENSG00000157653			23570	protein-coding gene	gene with protein product						12477932	Standard	NM_152786		Approved	MGC17358	uc004bhp.3	Q8TAL5	OTTHUMG00000020526	ENST00000288462.4:c.376C>T	9.37:g.116183413C>T	ENSP00000288462:p.Leu126Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000288462.4	37	CCDS6796.1	.	.	.	.	.	.	.	.	.	.	C	13.46	2.245199	0.39697	.	.	ENSG00000157653	ENST00000374165;ENST00000288462	T;T	0.56444	0.46;0.46	5.45	3.53	0.40419	.	0.576149	0.14604	N	0.309427	T	0.59018	0.2163	L	0.34521	1.04	0.23589	N	0.997348	D	0.67145	0.996	D	0.68943	0.961	T	0.49224	-0.8962	10	0.44086	T	0.13	-6.1702	11.0582	0.47931	0.367:0.633:0.0:0.0	.	126	Q8TAL5	CI043_HUMAN	F	126	ENSP00000363280:L126F;ENSP00000288462:L126F	ENSP00000288462:L126F	L	+	1	0	C9orf43	115223234	0.119000	0.22226	0.251000	0.24312	0.236000	0.25371	0.171000	0.16685	0.694000	0.31654	0.655000	0.94253	CTT		0.398	C9orf43-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053739.1	NM_152786		T	116183413	C	T	116183413	3	4	649	1	0	0	0	0	1	0	0	0	2485	565	20	2	390	2	C9orf43	9	116183413	Missense_Mutation	SNP	C	TCGA-KM-8441-01A-11D-2310-10		116183413	25030018	28	40211										
PAPPA	5069	broad.mit.edu	37	chr9	118950340	118950340	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	cacgacggcggggattgccgCcacctgcgccaccctgcctt	12	18	0	0			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr9:118950340C>T	ENST00000328252.3	+	2	1692	c.1323C>T	c.(1321-1323)cgC>cgT	p.R441R	PAPPA_ENST00000534838.1_5'Flank	NM_002581.3	NP_002572.2	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A, pappalysin 1	441	Metalloprotease.				cell differentiation (GO:0030154)|cellular protein metabolic process (GO:0044267)|female pregnancy (GO:0007565)|response to follicle-stimulating hormone (GO:0032354)|response to glucocorticoid (GO:0051384)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|membrane (GO:0016020)	endopeptidase activity (GO:0004175)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)	p.R441R(1)		NS(1)|breast(4)|endometrium(9)|kidney(2)|large_intestine(23)|lung(33)|ovary(4)|pancreas(2)|prostate(5)|skin(7)|stomach(1)|upper_aerodigestive_tract(6)|urinary_tract(1)	98						GGGATTGCCGCCACCTGCGCC	0.587																																																1	Substitution - coding silent(1)	lung(1)											76	56	63					9																	118950340		2203	4300	6503	SO:0001819	synonymous_variant	5069				CCDS6813.1	9q33.1	2014-03-05			ENSG00000182752	ENSG00000182752			8602	protein-coding gene	gene with protein product	"insulin-like growth factor-dependent IGF binding protein-4 protease", "aspecific BCL2 ARE-binding protein 2", "differentially placenta 1 expressed protein"	176385				7679961	Standard	NM_002581		Approved	PAPP-A, PAPPA1, IGFBP-4ase, PAPA, ASBABP2, DIPLA1	uc004bjn.3	Q13219	OTTHUMG00000021045	ENST00000328252.3:c.1323C>T	9.37:g.118950340C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B1AMF9|Q08371|Q68G52|Q9UDK7	Silent	SNP	ENST00000328252.3	37	CCDS6813.1																																																																																				0.587	PAPPA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055546.1	NM_002581		T	118950340	C	T	118950340	2	4	649	1	0	0	0	0	0	0	0	1	11439	726	26	2		2	PAPPA	9	118950340	Silent	SNP	C	TCGA-KM-8441-01A-11D-2310-10	2766927	118950340	22263091	29	40212										
BAG3	9531	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr10	121431909	121431909	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	gatacacgagcagaacgttaCccggccagcagcccagccct	10	16	0	1			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr10:121431909C>T	ENST00000369085.3	+	3	956	c.650C>T	c.(649-651)aCc>aTc	p.T217I		NM_004281.3	NP_004272.2	O95817	BAG3_HUMAN	BCL2-associated athanogene 3	217					brain development (GO:0007420)|cellular response to mechanical stimulus (GO:0071260)|extrinsic apoptotic signaling pathway in absence of ligand (GO:0097192)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|negative regulation of apoptotic process (GO:0043066)|negative regulation of striated muscle cell apoptotic process (GO:0010664)|protein folding (GO:0006457)|protein stabilization (GO:0050821)|spinal cord development (GO:0021510)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)|Z disc (GO:0030018)				endometrium(3)|kidney(1)|large_intestine(3)|liver(2)|lung(5)|ovary(2)|prostate(1)|skin(2)|urinary_tract(1)	20		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00187)|BRCA - Breast invasive adenocarcinoma(275;0.148)		CAGAACGTTACCCGGCCAGCA	0.647																																																0													85	83	83					10																	121431909		2203	4300	6503	SO:0001583	missense	9531			AF095193	CCDS7615.1	10q25.2-q26.2	2014-09-17			ENSG00000151929	ENSG00000151929			939	protein-coding gene	gene with protein product		603883				9873016, 18094623	Standard	XM_005270287		Approved		uc001lem.3	O95817	OTTHUMG00000019155	ENST00000369085.3:c.650C>T	10.37:g.121431909C>T	ENSP00000358081:p.Thr217Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5L8|Q3B763|Q9NT20|Q9P120	Missense_Mutation	SNP	ENST00000369085.3	37	CCDS7615.1	.	.	.	.	.	.	.	.	.	.	C	11.72	1.723148	0.30503	.	.	ENSG00000151929	ENST00000369085;ENST00000450186	T;T	0.74632	-0.86;-0.84	6.17	1.97	0.26223	.	0.855613	0.10915	N	0.620169	T	0.64057	0.2564	L	0.51422	1.61	0.09310	N	1	B;B	0.24823	0.112;0.112	B;B	0.19148	0.024;0.024	T	0.51756	-0.8665	10	0.33141	T	0.24	-2.95	6.1116	0.20104	0.2229:0.4998:0.2167:0.0607	.	217;217	O95817;Q53GY1	BAG3_HUMAN;.	I	217;159	ENSP00000358081:T217I;ENSP00000410036:T159I	ENSP00000358081:T217I	T	+	2	0	BAG3	121421899	0.000000	0.05858	0.562000	0.28370	0.963000	0.63663	-0.043000	0.12043	0.875000	0.35847	0.655000	0.94253	ACC		0.647	BAG3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050662.1	NM_004281		T	121431909	C	T	121431909	3	4	649	1	0	0	0	0	1	0	0	0	1288	507	18	2	660	2	BAG3	10	121431909	Missense_Mutation	SNP	C	TCGA-KM-8441-01A-11D-2310-10		121431909	14102838	30	40213										
PAMR1	25891	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	35492290	35492290	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	acgcttgatgatctggccatCgcggttgtctccatcacgaa	10	12	3	2			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr11:35492290C>T	ENST00000378880.2	-	5	1016	c.571G>A	c.(571-573)Gat>Aat	p.D191N	PAMR1_ENST00000534803.1_5'UTR|PAMR1_ENST00000278360.3_Missense_Mutation_p.D191N|PAMR1_ENST00000378878.3_Intron|PAMR1_ENST00000532848.1_Missense_Mutation_p.D151N	NM_001001991.1	NP_001001991.1	Q6UXH9	PAMR1_HUMAN	peptidase domain containing associated with muscle regeneration 1	191	CUB. {ECO:0000255|PROSITE- ProRule:PRU00059}.					extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)			breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(8)|ovary(3)|upper_aerodigestive_tract(1)	26						ATCTGGCCATCGCGGTTGTCT	0.542																																																0													141	107	119					11																	35492290		2202	4298	6500	SO:0001583	missense	25891				CCDS7898.1, CCDS31460.1, CCDS60759.1, CCDS60760.1	11p13	2009-09-30			ENSG00000149090	ENSG00000149090			24554	protein-coding gene	gene with protein product	"regeneration-associated muscle protease"					15111323	Standard	NM_001282675		Approved	RAMP, DKFZP586H2123	uc001mwf.3	Q6UXH9	OTTHUMG00000166328	ENST00000378880.2:c.571G>A	11.37:g.35492290C>T	ENSP00000368158:p.Asp191Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8MQ58|B7ZA73|Q5EBL7|Q5JPI4|Q6N062|Q71RE9|Q96JW2|Q9Y432	Missense_Mutation	SNP	ENST00000378880.2	37	CCDS31460.1	.	.	.	.	.	.	.	.	.	.	C	1.701	-0.501550	0.04261	.	.	ENSG00000149090	ENST00000278360;ENST00000378880;ENST00000532848;ENST00000527605	T;T;T;T	0.18016	2.24;2.24;2.24;2.24	5.39	3.43	0.39272	CUB (5);	0.199701	0.52532	N	0.000080	T	0.09905	0.0243	N	0.11756	0.17	0.80722	D	1	B;B	0.16802	0.019;0.015	B;B	0.15052	0.012;0.012	T	0.10567	-1.0624	10	0.87932	D	0	.	9.4997	0.39011	0.1413:0.7822:0.0:0.0765	.	191;191	Q6UXH9;Q6UXH9-2	PAMR1_HUMAN;.	N	191;191;151;151	ENSP00000278360:D191N;ENSP00000368158:D191N;ENSP00000433868:D151N;ENSP00000432591:D151N	ENSP00000278360:D191N	D	-	1	0	PAMR1	35448866	0.984000	0.35163	0.009000	0.14445	0.011000	0.07611	2.568000	0.45965	0.574000	0.29417	0.655000	0.94253	GAT		0.542	PAMR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389177.1	NM_015430		T	35492290	C	T	35492290	3	4	649	1	0	0	0	0	1	0	0	0	11420	884	31	1	1674	1	PAMR1	11	35492290	Missense_Mutation	SNP	C	TCGA-KM-8441-01A-11D-2310-10		35492290	99514226	31	40214										
CNTN5	53942	ucsc.edu	37	chr11	100141946	100141946	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	caggagatccaagcaccccaTctcgaatgatccgcacaaat	7	14	1	2			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr11:100141946T>C	ENST00000524871.1	+	18	2577	c.2287T>C	c.(2287-2289)Tct>Cct	p.S763P	CNTN5_ENST00000418526.2_Missense_Mutation_p.S689P|CNTN5_ENST00000524560.1_3'UTR|CNTN5_ENST00000528682.1_Missense_Mutation_p.S763P|CNTN5_ENST00000279463.3_Missense_Mutation_p.S763P|CNTN5_ENST00000527185.1_Missense_Mutation_p.S763P	NM_014361.3	NP_055176.1	O94779	CNTN5_HUMAN	contactin 5	763	Fibronectin type-III 1. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell adhesion (GO:0007155)|sensory perception of sound (GO:0007605)	anchored component of membrane (GO:0031225)|cytoplasm (GO:0005737)|plasma membrane (GO:0005886)				NS(2)|breast(2)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(12)|lung(38)|ovary(2)|pancreas(2)|prostate(2)|skin(7)|upper_aerodigestive_tract(2)|urinary_tract(1)	81		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)		AAGCACCCCATCTCGAATGAT	0.453																																																0													95	92	93					11																	100141946		1931	4133	6064	SO:0001583	missense	53942			AB013802	CCDS53696.1, CCDS53697.1, CCDS58168.1	11q22.1	2013-02-11			ENSG00000149972	ENSG00000149972		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	2175	protein-coding gene	gene with protein product		607219					Standard	NM_014361		Approved	NB-2, hNB-2	uc021qpb.1	O94779	OTTHUMG00000167579	ENST00000524871.1:c.2287T>C	11.37:g.100141946T>C	ENSP00000435637:p.Ser763Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A1L4P0|B7ZM07|E9PKE8|O94780|Q49AF3	Missense_Mutation	SNP	ENST00000524871.1	37	CCDS53696.1	.	.	.	.	.	.	.	.	.	.	T	24.7	4.562517	0.86335	.	.	ENSG00000149972	ENST00000527185;ENST00000528682;ENST00000524871;ENST00000418526;ENST00000279463	T;T;T;T;T	0.55588	0.51;0.51;0.51;0.51;0.51	5.51	5.51	0.81932	Fibronectin, type III (2);Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	D	0.83096	0.5180	H	0.98682	4.3	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.85130	0.997;0.994	D	0.89696	0.3901	10	0.87932	D	0	.	14.8139	0.70017	0.0:0.0:0.0:1.0	.	689;763	O94779-2;O94779	.;CNTN5_HUMAN	P	763;763;763;689;763	ENSP00000433575:S763P;ENSP00000436185:S763P;ENSP00000435637:S763P;ENSP00000393229:S689P;ENSP00000279463:S763P	ENSP00000279463:S763P	S	+	1	0	CNTN5	99647156	1.000000	0.71417	1.000000	0.80357	0.972000	0.66771	7.589000	0.82641	2.094000	0.63399	0.383000	0.25322	TCT		0.453	CNTN5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395148.2	NM_014361		C	100141946	T	C	100141946	3	2	649	1	0	0	0	0	1	0	0	0	3646	1435	50	3	2349	3	CNTN5	11	100141946	Missense_Mutation	SNP	T	TCGA-KM-8441-01A-11D-2310-10	64649656	100141946	34864570	32	40215										
ACAT1	38	mdanderson.org	37	chr11	107992346	107992346	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	ctgcgaccatggctgtgctgGcggcacttctgcgcagcggc	15	14	1	0	rs11540420|rs3741056	byFrequency	TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr11:107992346G>C	ENST00000265838.4	+	1	104	c.13G>C	c.(13-15)Gcg>Ccg	p.A5P	RP11-144G7.2_ENST00000525548.1_RNA|ACAT1_ENST00000299355.6_Missense_Mutation_p.A5P	NM_000019.3	NP_000010.1	P24752	THIL_HUMAN	acetyl-CoA acetyltransferase 1	5			A -> P (in dbSNP:rs3741056).		adipose tissue development (GO:0060612)|brain development (GO:0007420)|branched-chain amino acid catabolic process (GO:0009083)|cellular ketone body metabolic process (GO:0046950)|cellular lipid metabolic process (GO:0044255)|cellular nitrogen compound metabolic process (GO:0034641)|ketone body biosynthetic process (GO:0046951)|ketone body catabolic process (GO:0046952)|liver development (GO:0001889)|metanephric proximal convoluted tubule development (GO:0072229)|protein homooligomerization (GO:0051260)|response to hormone (GO:0009725)|response to organic cyclic compound (GO:0014070)|response to starvation (GO:0042594)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	acetyl-CoA C-acetyltransferase activity (GO:0003985)|coenzyme binding (GO:0050662)|metal ion binding (GO:0046872)			endometrium(1)|large_intestine(1)|lung(3)|ovary(3)|prostate(2)	10		all_cancers(61;6.41e-10)|all_epithelial(67;2.83e-06)|Melanoma(852;1.46e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;2.96e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.00108)|OV - Ovarian serous cystadenocarcinoma(223;0.192)	Sulfasalazine(DB00795)	GGCTGTGCTGGCGGCACTTCT	0.726													G|||	1662	0.331869	0.1293	0.4222	5008	,	,		13418	0.3601		0.3419	False		,,,				2504	0.502															0								G	PRO/ALA	498,3570		40,418,1576	7	7	7		13	0.2	0	11	dbSNP_107	7	2021,5923		259,1503,2210	yes	missense	ACAT1	NM_000019.3	27	299,1921,3786	CC,CG,GG		25.4406,12.2419,20.9707	possibly-damaging	5/428	107992346	2519,9493	2034	3972	6006	SO:0001583	missense	38			D90228	CCDS8339.1	11q22.3	2010-04-30	2010-04-30		ENSG00000075239	ENSG00000075239	2.3.1.9		93	protein-coding gene	gene with protein product	"acetoacetyl Coenzyme A thiolase"	607809	"acetyl-Coenzyme A acetyltransferase 1"	ACAT		1979337	Standard	NM_000019		Approved	THIL	uc001pjy.3	P24752	OTTHUMG00000166381	ENST00000265838.4:c.13G>C	11.37:g.107992346G>C	ENSP00000265838:p.Ala5Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6H1|G3XAB4|Q96FG8	Missense_Mutation	SNP	ENST00000265838.4	37	CCDS8339.1	677	0.309981684981685	73	0.1483739837398374	142	0.39226519337016574	210	0.36713286713286714	252	0.3324538258575198	G	16.39	3.111218	0.56398	0.122419	0.254406	ENSG00000075239	ENST00000265838;ENST00000299355	D;D	0.93906	-3.13;-3.31	3.31	0.195	0.15151	.	.	.	.	.	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	P;P	0.37864	0.61;0.514	B;B	0.35688	0.103;0.208	T	0.11792	-1.0573	8	0.66056	D	0.02	-1.264	2.6303	0.04942	0.2756:0.0:0.4998:0.2246	rs3741056;rs17800684;rs17845275;rs17858107;rs3741056	5;5	P24752;G3XAB4	THIL_HUMAN;.	P	5	ENSP00000265838:A5P;ENSP00000299355:A5P	ENSP00000265838:A5P	A	+	1	0	ACAT1	107497556	0.001000	0.12720	0.002000	0.10522	0.760000	0.43138	-0.118000	0.10692	0.050000	0.15949	-0.475000	0.04921	GCG		0.726	ACAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389474.1	NM_000019		C	107992346	G	C	107992346	3	2	649	1	0	0	0	0	1	0	0	0	121	1203	42	4	15	4	ACAT1	11	107992346	Missense_Mutation	SNP	G	TCGA-KM-8441-01A-11D-2310-10	7850400	107992346	27014170	33	40216										
FOXM1	2305	ucsc.edu	37	chr12	2968317	2968317	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	gtcttaaaaggtcctcccacTtcctgggagtagctgagctg	11	11	1	1			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr12:2968317T>C	ENST00000359843.3	-	9	1847	c.1779A>G	c.(1777-1779)gaA>gaG	p.E593E	FOXM1_ENST00000361953.3_Silent_p.E578E|FOXM1_ENST00000342628.2_Silent_p.E631E|ITFG2_ENST00000545509.1_Intron|AC005841.1_ENST00000382678.3_5'Flank|Y_RNA_ENST00000410561.1_RNA	NM_021953.3	NP_068772.2	Q08050	FOXM1_HUMAN	forkhead box M1	593					cell cycle (GO:0007049)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA repair (GO:0006281)|G2/M transition of mitotic cell cycle (GO:0000086)|liver development (GO:0001889)|mitotic cell cycle (GO:0000278)|negative regulation of cell aging (GO:0090344)|negative regulation of stress-activated MAPK cascade (GO:0032873)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)|positive regulation of double-strand break repair (GO:2000781)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cell cycle (GO:0051726)|regulation of cell cycle arrest (GO:0071156)|regulation of cell growth (GO:0001558)|regulation of cell proliferation (GO:0042127)|regulation of Ras protein signal transduction (GO:0046578)|regulation of reactive oxygen species metabolic process (GO:2000377)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)|transcription, DNA-templated (GO:0006351)|vasculogenesis (GO:0001570)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|protein kinase binding (GO:0019901)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(7)|lung(9)|prostate(1)|skin(1)|urinary_tract(3)	24			OV - Ovarian serous cystadenocarcinoma(31;0.000622)			GTCCTCCCACTTCCTGGGAGT	0.602																																																0													49	57	54					12																	2968317		2194	4287	6481	SO:0001819	synonymous_variant	2305			Y12773	CCDS8515.1, CCDS8516.1, CCDS8517.1	12p13	2007-09-18			ENSG00000111206	ENSG00000111206		"Forkhead boxes"	3818	protein-coding gene	gene with protein product	"M-phase phosphoprotein 2"	602341		FKHL16		9032290, 9441747	Standard	NM_202002		Approved	HFH-11, trident, HNF-3, INS-1, MPP2, MPHOSPH2, TGT3	uc001qlf.3	Q08050	OTTHUMG00000168118	ENST00000359843.3:c.1779A>G	12.37:g.2968317T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O43258|O43259|O43260|Q4ZGG7|Q9BRL2	Silent	SNP	ENST00000359843.3	37	CCDS8515.1																																																																																				0.602	FOXM1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000398272.1	NM_021953		C	2968317	T	C	2968317	2	2	649	1	0	0	0	0	0	0	0	1	6025	1606	56	3		3	FOXM1	12	2968317	Silent	SNP	T	TCGA-KM-8441-01A-11D-2310-10		2968317	130883578	34	40217										
OR4K5	79317	broad.mit.edu	37	chr14	20389392	20389392	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	agtggaattctttccctaagCactttctctctcttggtcag	7	11	4	0			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr14:20389392C>T	ENST00000315915.4	+	1	652	c.627C>T	c.(625-627)agC>agT	p.S209S		NM_001005483.1	NP_001005483.1	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K, member 5	209						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			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)		TTTCCCTAAGCACTTTCTCTC	0.428																																																0													266	276	273					14																	20389392		2203	4300	6503	SO:0001819	synonymous_variant	79317			BK004355	CCDS32024.1	14q11.22	2012-08-09				ENSG00000176281		"GPCR / Class A : Olfactory receptors"	14745	protein-coding gene	gene with protein product						14983052	Standard	NM_001005483		Approved		uc010tkw.2	Q8NGD3		ENST00000315915.4:c.627C>T	14.37:g.20389392C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFA7	Silent	SNP	ENST00000315915.4	37	CCDS32024.1																																																																																				0.428	OR4K5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409867.1	NM_001005483		T	20389392	C	T	20389392	2	4	649	1	0	0	0	0	0	0	0	1	11080	709	25	2		2	OR4K5	14	20389392	Silent	SNP	C	TCGA-KM-8441-01A-11D-2310-10		20389392	86960148	35	40218										
FLRT2	23768	broad.mit.edu	37	chr14	86088695	86088695	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	tcaaatctgcgtaagctggaAcggctggatatatccaacaa	9	9	2	0			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr14:86088695A>G	ENST00000330753.4	+	2	1604	c.837A>G	c.(835-837)gaA>gaG	p.E279E	FLRT2_ENST00000554746.1_Silent_p.E279E	NM_013231.4	NP_037363.1	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	279					axon guidance (GO:0007411)|cell adhesion (GO:0007155)|intracellular signal transduction (GO:0035556)|regulation of neuron migration (GO:2001222)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|proteinaceous extracellular matrix (GO:0005578)	chemorepellent activity (GO:0045499)|protein binding, bridging (GO:0030674)|receptor signaling protein activity (GO:0005057)			NS(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|large_intestine(21)|lung(27)|ovary(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	73				BRCA - Breast invasive adenocarcinoma(234;0.0319)		GTAAGCTGGAACGGCTGGATA	0.488																																																0													161	163	163					14																	86088695		2203	4300	6503	SO:0001819	synonymous_variant	23768			AF169676	CCDS9877.1	14q24-q32	2013-02-11				ENSG00000185070		"Fibronectin type III domain containing"	3761	protein-coding gene	gene with protein product		604807				10644439, 16872596	Standard	XM_005267490		Approved		uc001xvr.3	O43155		ENST00000330753.4:c.837A>G	14.37:g.86088695A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0AV84|B7ZLP3	Silent	SNP	ENST00000330753.4	37	CCDS9877.1																																																																																				0.488	FLRT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413193.1			G	86088695	A	G	86088695	2	3	649	1	0	0	0	0	0	0	0	1	5946	40	2	3		3	FLRT2	14	86088695	Silent	SNP	A	TCGA-KM-8441-01A-11D-2310-10	65699303	86088695	21260845	36	40219										
SLC25A29	123096	mdanderson.org	37	chr14	100759046	100759046	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	aagtagacgccgaagctgggCgtctcacgcagcaacgtgga	14	11	1	1	rs3825555	byFrequency	TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr14:100759046C>A	ENST00000359232.3	-	4	786	c.486G>T	c.(484-486)acG>acT	p.T162T	SLC25A29_ENST00000555927.1_Silent_p.T96T|SLC25A29_ENST00000392908.3_3'UTR|RP11-638I2.6_ENST00000556458.1_lincRNA|SLC25A29_ENST00000556505.1_Silent_p.T96T|AL157871.2_ENST00000553954.1_RNA|SLC25A29_ENST00000554912.1_Silent_p.T96T|SLC25A29_ENST00000539621.1_Silent_p.T96T	NM_001039355.1	NP_001034444.1	Q8N8R3	MCATL_HUMAN	solute carrier family 25 (mitochondrial carnitine/acylcarnitine carrier), member 29	162						integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)	acyl carnitine transmembrane transporter activity (GO:0015227)			NS(1)|endometrium(1)|ovary(1)	3		Melanoma(154;0.152)			L-Carnitine(DB00583)	CGAAGCTGGGCGTCTCACGCA	0.682													C|||	2656	0.530351	0.3865	0.6081	5008	,	,		13189	0.7083		0.5676	False		,,,				2504	0.4479															0								C		1913,2477		431,1051,713	29	19	22		486	1.1	1	14	dbSNP_107	22	4870,3718		1397,2076,821	no	coding-synonymous	SLC25A29	NM_001039355.1		1828,3127,1534	AA,AC,CC		43.293,43.5763,47.7346		162/304	100759046	6783,6195	2195	4294	6489	SO:0001819	synonymous_variant	123096			AK095532	CCDS32156.1	14q32.2	2013-05-22	2012-03-29	2004-01-21	ENSG00000197119	ENSG00000197119		"Solute carriers"	20116	protein-coding gene	gene with protein product		615064	"chromosome 14 open reading frame 69", "solute carrier family 25, member 29"	C14orf69			Standard	XM_005267343		Approved	FLJ38975	uc010twx.2	Q8N8R3	OTTHUMG00000171569	ENST00000359232.3:c.486G>T	14.37:g.100759046C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A3KMR5|Q541V0	Silent	SNP	ENST00000359232.3	37	CCDS32156.1																																																																																				0.682	SLC25A29-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000072449.3			A	100759046	C	A	100759046	2	1	649	1	0	0	0	0	0	0	0	1	14505	755	27	4		4	SLC25A29	14	100759046	Silent	SNP	C	TCGA-KM-8441-01A-11D-2310-10	14670351	100759046	6590494	37	40220										
PLD4	122618	broad.mit.edu	37	chr14	105393529	105393529	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	cccccacatggccatgctccAtgccgccccgccgcccgtgg	10	22	0	0			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr14:105393529A>G	ENST00000392593.4	+	2	220	c.52A>G	c.(52-54)Atg>Gtg	p.M18V	PLD4_ENST00000540372.1_Missense_Mutation_p.M25V	NM_138790.2	NP_620145.2	Q96BZ4	PLD4_HUMAN	phospholipase D family, member 4	18					glycerophospholipid biosynthetic process (GO:0046474)|hematopoietic progenitor cell differentiation (GO:0002244)|inositol phosphate metabolic process (GO:0043647)|lipid catabolic process (GO:0016042)|phagocytosis (GO:0006909)|phosphatidylglycerol biosynthetic process (GO:0006655)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|phagocytic vesicle (GO:0045335)|trans-Golgi network membrane (GO:0032588)	N-acylphosphatidylethanolamine-specific phospholipase D activity (GO:0070290)|phosphatidylinositol phospholipase C activity (GO:0004435)|phospholipase D activity (GO:0004630)			central_nervous_system(1)|kidney(1)|large_intestine(1)|lung(7)|ovary(1)|skin(1)|urinary_tract(1)	13		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.00067)|OV - Ovarian serous cystadenocarcinoma(23;0.00976)|Epithelial(46;0.0201)|GBM - Glioblastoma multiforme(11;0.116)			GCCATGCTCCATGCCGCCCCG	0.662																																																0													11	13	13					14																	105393529		1937	4121	6058	SO:0001583	missense	122618				CCDS9995.2	14q32.33	2014-01-28	2005-05-20	2005-05-20	ENSG00000166428	ENSG00000166428			23792	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 175"	C14orf175			Standard	XM_006720024		Approved		uc001ypu.1	Q96BZ4	OTTHUMG00000144167	ENST00000392593.4:c.52A>G	14.37:g.105393529A>G	ENSP00000376372:p.Met18Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UWD2	Missense_Mutation	SNP	ENST00000392593.4	37	CCDS9995.2	.	.	.	.	.	.	.	.	.	.	A	2.297	-0.361131	0.05103	.	.	ENSG00000166428	ENST00000540372;ENST00000392593;ENST00000557573	T;T;T	0.19669	2.13;2.13;2.13	2.57	-1.83	0.07833	.	.	.	.	.	T	0.06690	0.0171	N	0.08118	0	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.37934	-0.9684	9	0.06757	T	0.87	-4.4028	2.3307	0.04235	0.4379:0.0:0.3314:0.2307	.	25;18	F5H2B5;Q96BZ4	.;PLD4_HUMAN	V	25;18;18	ENSP00000438677:M25V;ENSP00000376372:M18V;ENSP00000451278:M18V	ENSP00000376372:M18V	M	+	1	0	PLD4	104464574	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.225000	0.02956	-0.406000	0.07588	-0.385000	0.06624	ATG		0.662	PLD4-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000291348.2	NM_138790		G	105393529	A	G	105393529	3	3	649	1	0	0	0	0	1	0	0	0	12055	217	8	3	54	3	PLD4	14	105393529	Missense_Mutation	SNP	A	TCGA-KM-8441-01A-11D-2310-10	4634483	105393529	1956011	38	40221										
SECISBP2L	9728	hgsc.bcm.edu;bcgsc.ca	37	chr15	49304956	49304956	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	gatgtcaaacagggctgactTttggttaaaggttttctatt	10	5	2	1			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr15:49304956T>A	ENST00000559471.1	-	12	1883	c.1620A>T	c.(1618-1620)aaA>aaT	p.K540N	SECISBP2L_ENST00000261847.3_Missense_Mutation_p.K495N	NM_001193489.1	NP_001180418.1	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	540							poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(5)|kidney(8)|large_intestine(12)|lung(11)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|urinary_tract(1)	46						AGGGCTGACTTTTGGTTAAAG	0.363																																																0													111	117	115					15																	49304956		2197	4295	6492	SO:0001583	missense	9728			BC033001	CCDS32234.1, CCDS53942.1	15q21.1	2014-02-12				ENSG00000138593			28997	protein-coding gene	gene with protein product		615756					Standard	NM_001193489		Approved	KIAA0256	uc001zxe.2	Q93073		ENST00000559471.1:c.1620A>T	15.37:g.49304956T>A	ENSP00000453854:p.Lys540Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N767	Missense_Mutation	SNP	ENST00000559471.1	37	CCDS53942.1	.	.	.	.	.	.	.	.	.	.	T	16.71	3.198546	0.58126	.	.	ENSG00000138593	ENST00000261847;ENST00000380927	T	0.74209	-0.82	5.76	4.65	0.58169	.	0.146472	0.64402	D	0.000012	T	0.67655	0.2916	L	0.60455	1.87	0.38431	D	0.946435	P;P	0.39480	0.664;0.675	B;B	0.38106	0.157;0.265	T	0.70389	-0.4885	10	0.72032	D	0.01	.	6.2599	0.20893	0.0:0.2924:0.0:0.7076	.	540;495	Q93073;Q93073-2	SBP2L_HUMAN;.	N	495;540	ENSP00000261847:K495N	ENSP00000261847:K495N	K	-	3	2	SECISBP2L	47092248	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	1.105000	0.31086	1.026000	0.39733	0.528000	0.53228	AAA		0.363	SECISBP2L-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000417277.1	NM_014701		A	49304956	T	A	49304956	3	1	649	1	0	0	0	0	1	0	0	0	14020	1838	64	5	1713	5	SECISBP2L	15	49304956	Missense_Mutation	SNP	T	TCGA-KM-8441-01A-11D-2310-10		49304956	53226436	39	40222										
FOXB1	27023	ucsc.edu;bcgsc.ca	37	chr15	60297497	60297497	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	ccgcaagcgcttcaaggtgcTtaagtccgaccacctggcgc	11	15	1	0			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr15:60297497T>C	ENST00000396057.4	+	2	814	c.335T>C	c.(334-336)cTt>cCt	p.L112P	FOXB1_ENST00000560857.1_Intron	NM_012182.2	NP_036314.2	Q99853	FOXB1_HUMAN	forkhead box B1	112					axon target recognition (GO:0007412)|cell migration in diencephalon (GO:0061381)|epithelial cell differentiation involved in mammary gland alveolus development (GO:0061030)|floor plate development (GO:0033504)|hypothalamus cell migration (GO:0021855)|inferior colliculus development (GO:0061379)|lactation (GO:0007595)|mammary gland lobule development (GO:0061377)|mammillary body development (GO:0021767)|mammillothalamic axonal tract development (GO:0061374)|midbrain development (GO:0030901)|negative regulation of neuron apoptotic process (GO:0043524)|somitogenesis (GO:0001756)|spinal cord development (GO:0021510)|telencephalon cell migration (GO:0022029)|thalamus development (GO:0021794)|transcription, DNA-templated (GO:0006351)|urogenital system development (GO:0001655)|visual learning (GO:0008542)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|kidney(1)|lung(3)|ovary(1)	6						TTCAAGGTGCTTAAGTCCGAC	0.697																																																0													16	18	17					15																	60297497		2201	4296	6497	SO:0001583	missense	27023			AF055080	CCDS32255.1	15q22.2	2014-09-09			ENSG00000171956	ENSG00000171956		"Forkhead boxes"	3799	protein-coding gene	gene with protein product							Standard	NM_012182		Approved	HFKH-5, FKH5	uc002agj.1	Q99853	OTTHUMG00000172011	ENST00000396057.4:c.335T>C	15.37:g.60297497T>C	ENSP00000379369:p.Leu112Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O60652|O75917|Q14CL2	Missense_Mutation	SNP	ENST00000396057.4	37	CCDS32255.1	.	.	.	.	.	.	.	.	.	.	T	13.12	2.142675	0.37825	.	.	ENSG00000171956	ENST00000396057	D	0.95756	-3.8	3.72	3.72	0.42706	.	0.611409	0.14027	U	0.346420	D	0.88603	0.6481	N	0.11131	0.1	0.80722	D	1	B	0.02656	0.0	B	0.04013	0.001	T	0.83225	-0.0066	10	0.27785	T	0.31	.	11.3903	0.49811	0.0:0.0:0.0:1.0	.	112	Q99853	FOXB1_HUMAN	P	112	ENSP00000379369:L112P	ENSP00000379369:L112P	L	+	2	0	FOXB1	58084789	0.210000	0.23517	0.998000	0.56505	0.951000	0.60555	2.577000	0.46042	1.529000	0.49120	0.528000	0.53228	CTT		0.697	FOXB1-001	KNOWN	upstream_uORF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416378.1			C	60297497	T	C	60297497	3	2	649	1	0	0	0	0	1	0	0	0	5999	1609	56	3	337	3	FOXB1	15	60297497	Missense_Mutation	SNP	T	TCGA-KM-8441-01A-11D-2310-10	10992541	60297497	42233895	40	40223										
SCAPER	49855	broad.mit.edu;bcgsc.ca	37	chr15	77046256	77046256	+	Missense_Mutation	SNP	G	G	T													0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	catcctgcgtcgttgatctaGcaattcttccttccacttcc							TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr15:77046256G>T	ENST00000563290.1	-	15	1854	c.1759C>A	c.(1759-1761)Cta>Ata	p.L587I	SCAPER_ENST00000324767.7_Missense_Mutation_p.L587I|SCAPER_ENST00000538941.2_Missense_Mutation_p.L341I			Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	587	Glu-rich.					endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)	metal ion binding (GO:0046872)			NS(1)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(8)|lung(16)|ovary(2)|prostate(2)|skin(1)|urinary_tract(2)	39						CGTTGATCTAGCAATTCTTCC	0.358																																																0													226	212	216					15																	77046256		1860	4098	5958	SO:0001583	missense	49855			AB040887, AF242528	CCDS53961.1, CCDS53962.1	15q24.3	2012-10-05	2009-03-11	2007-08-20	ENSG00000140386	ENSG00000140386		"Zinc fingers, C2H2-type"	13081	protein-coding gene	gene with protein product		611611	"zinc finger protein 291"	ZNF291		17698606	Standard	NM_020843		Approved	Zfp291	uc002bby.3	Q9BY12	OTTHUMG00000172655	ENST00000563290.1:c.1759C>A	15.37:g.77046256G>T	ENSP00000454973:p.Leu587Ile	Somatic		WXS	Illumina HiSeq	Phase_I	F5H7X8|H3BNR7|Q3B7X7|Q96BS9|Q9H3D8|Q9NT03|Q9P274	Missense_Mutation	SNP	ENST00000563290.1	37	CCDS53962.1	.	.	.	.	.	.	.	.	.	.	G	12.97	2.096071	0.36952	.	.	ENSG00000140386	ENST00000324767;ENST00000538941;ENST00000303521	T;T	0.23754	1.9;1.89	5.77	0.596	0.17496	.	0.000000	0.85682	D	0.000000	T	0.14098	0.0341	N	0.05441	-0.05	0.38119	D	0.937796	P;P	0.37276	0.539;0.589	B;B	0.41988	0.372;0.284	T	0.14144	-1.0483	10	0.33940	T	0.23	.	9.9934	0.41885	0.6168:0.0:0.3832:0.0	.	608;341	Q9BY12-2;F5H7X8	.;.	I	587;341;609	ENSP00000326924:L587I;ENSP00000442190:L341I	ENSP00000303560:L609I	L	-	1	2	SCAPER	74833311	0.924000	0.31332	0.810000	0.32431	0.962000	0.63368	0.245000	0.18142	-0.135000	0.11495	0.655000	0.94253	CTA		0.358	SCAPER-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419698.1	NM_020843		T	77046256	G	T	77046256	3	4	649	1	0	0	0	0	1	0	0	0	13891	962	34	4	2515	4	SCAPER	15	77046256	Missense_Mutation	SNP	G	TCGA-KM-8441-01A-11D-2310-10	16748759	77046256	25485136	41	40224	358	2								
SCAPER	49855	bcgsc.ca	37	chr15	77046257	77046257	+	Missense_Mutation	SNP	C	C	A													0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	atcctgcgtcgttgatctagCaattcttccttccacttccg							TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr15:77046257C>A	ENST00000563290.1	-	15	1853	c.1758G>T	c.(1756-1758)ttG>ttT	p.L586F	SCAPER_ENST00000324767.7_Missense_Mutation_p.L586F|SCAPER_ENST00000538941.2_Missense_Mutation_p.L340F			Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	586	Glu-rich.					endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)	metal ion binding (GO:0046872)			NS(1)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(8)|lung(16)|ovary(2)|prostate(2)|skin(1)|urinary_tract(2)	39						GTTGATCTAGCAATTCTTCCT	0.363																																																0													225	211	215					15																	77046257		1860	4098	5958	SO:0001583	missense	49855			AB040887, AF242528	CCDS53961.1, CCDS53962.1	15q24.3	2012-10-05	2009-03-11	2007-08-20	ENSG00000140386	ENSG00000140386		"Zinc fingers, C2H2-type"	13081	protein-coding gene	gene with protein product		611611	"zinc finger protein 291"	ZNF291		17698606	Standard	NM_020843		Approved	Zfp291	uc002bby.3	Q9BY12	OTTHUMG00000172655	ENST00000563290.1:c.1758G>T	15.37:g.77046257C>A	ENSP00000454973:p.Leu586Phe	Somatic		WXS	Illumina HiSeq	Phase_I	F5H7X8|H3BNR7|Q3B7X7|Q96BS9|Q9H3D8|Q9NT03|Q9P274	Missense_Mutation	SNP	ENST00000563290.1	37	CCDS53962.1	.	.	.	.	.	.	.	.	.	.	c	17.66	3.445129	0.63178	.	.	ENSG00000140386	ENST00000324767;ENST00000538941;ENST00000303521	T;T	0.32753	1.48;1.44	5.77	-0.477	0.12097	.	0.000000	0.85682	D	0.000000	T	0.47248	0.1435	M	0.64170	1.965	0.43263	D	0.995206	D;D	0.89917	1.0;1.0	D;D	0.81914	0.992;0.995	T	0.29397	-1.0013	10	0.44086	T	0.13	.	12.4807	0.55839	0.0:0.4418:0.0:0.5582	.	607;340	Q9BY12-2;F5H7X8	.;.	F	586;340;608	ENSP00000326924:L586F;ENSP00000442190:L340F	ENSP00000303560:L608F	L	-	3	2	SCAPER	74833312	0.939000	0.31865	0.804000	0.32291	0.951000	0.60555	0.619000	0.24388	-0.346000	0.08312	-1.057000	0.02308	TTG		0.363	SCAPER-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419698.1	NM_020843		A	77046257	C	A	77046257	3	1	649	1	0	0	0	0	1	0	0	0	13891	709	25	4	2516	4	SCAPER	15	77046257	Missense_Mutation	SNP	C	TCGA-KM-8441-01A-11D-2310-10	1	77046257	25485135	42	40225	358	2								
TSC2	7249	bcgsc.ca	37	chr16	2131706	2131706	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	ccctcatggcggctgagcgcTtcaaggagcaccgggacaca	13	14	2	1			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr16:2131706T>C	ENST00000219476.3	+	31	4351	c.3721T>C	c.(3721-3723)Ttc>Ctc	p.F1241L	TSC2_ENST00000353929.4_Missense_Mutation_p.F1198L|TSC2_ENST00000401874.2_Missense_Mutation_p.F1197L|TSC2_ENST00000439673.2_Missense_Mutation_p.F1161L|TSC2_ENST00000568454.1_Missense_Mutation_p.F1208L|TSC2_ENST00000382538.6_Missense_Mutation_p.F1149L|TSC2_ENST00000350773.4_Missense_Mutation_p.F1241L	NM_000548.3	NP_000539.2	P49815	TSC2_HUMAN	tuberous sclerosis 2	1241					acute-phase response (GO:0006953)|cell cycle arrest (GO:0007050)|cell projection organization (GO:0030030)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|insulin-like growth factor receptor signaling pathway (GO:0048009)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of TOR signaling (GO:0032007)|negative regulation of Wnt signaling pathway (GO:0030178)|neural tube closure (GO:0001843)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol-mediated signaling (GO:0048015)|positive chemotaxis (GO:0050918)|positive regulation of Ras GTPase activity (GO:0032320)|protein heterooligomerization (GO:0051291)|protein homooligomerization (GO:0051260)|protein import into nucleus (GO:0006606)|protein kinase B signaling (GO:0043491)|protein localization (GO:0008104)|regulation of cell cycle (GO:0051726)|regulation of endocytosis (GO:0030100)|regulation of insulin receptor signaling pathway (GO:0046626)|response to hypoxia (GO:0001666)|vesicle-mediated transport (GO:0016192)	caveola (GO:0005901)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|Golgi apparatus (GO:0005794)|growth cone (GO:0030426)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|TSC1-TSC2 complex (GO:0033596)	GTPase activator activity (GO:0005096)|phosphatase binding (GO:0019902)|protein homodimerization activity (GO:0042803)			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(4)|cervix(2)|endometrium(8)|kidney(2)|large_intestine(3)|lung(19)|ovary(2)|pancreas(1)|prostate(2)|skin(7)|soft_tissue(1)	56		Hepatocellular(780;0.0202)				GGCTGAGCGCTTCAAGGAGCA	0.627			"D, Mis, N, F, S"			"hamartoma, renal cell"			Tuberous Sclerosis																													yes	Rec		Tuberous sclerosis 2	16	16p13.3	7249	tuberous sclerosis 2 gene		"E, O"	0													74	62	66					16																	2131706		2198	4299	6497	SO:0001583	missense	7249	Familial Cancer Database	TS, Tuberous Sclerosis Complex, TSC, Bourneville-Pringle disease	AB014460	CCDS10458.1, CCDS45384.1, CCDS58408.1	16p13.3	2014-09-17			ENSG00000103197	ENSG00000103197			12363	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 160"	191092		TSC4		1303246, 7558029	Standard	NM_001077183		Approved	tuberin, LAM, PPP1R160	uc002con.3	P49815	OTTHUMG00000128745	ENST00000219476.3:c.3721T>C	16.37:g.2131706T>C	ENSP00000219476:p.Phe1241Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2E2|B4DIL8|B4DIQ7|B4DRN2|B7Z2B8|C9J378|O75275|Q4LE71|Q8TAZ1	Missense_Mutation	SNP	ENST00000219476.3	37	CCDS10458.1	.	.	.	.	.	.	.	.	.	.	T	14.28	2.486907	0.44249	.	.	ENSG00000103197	ENST00000219476;ENST00000401874;ENST00000353929;ENST00000439673;ENST00000382538;ENST00000350773	D;D;D;D;D	0.88277	-2.3;-2.3;-2.36;-2.34;-2.29	4.7	4.7	0.59300	.	0.199293	0.45126	D	0.000394	D	0.86514	0.5951	L	0.31294	0.92	0.37284	D	0.907948	B;B;B;B;B;D	0.54964	0.008;0.013;0.013;0.003;0.141;0.969	B;B;B;B;B;D	0.63381	0.019;0.043;0.043;0.043;0.049;0.914	T	0.83306	-0.0025	10	0.07175	T	0.84	-37.4738	7.2036	0.25895	0.0:0.1691:0.0:0.8309	.	1149;1161;1241;1197;1197;1241	B4DIL8;P49815-6;P49815-4;P49815-3;P49815-5;P49815	.;.;.;.;.;TSC2_HUMAN	L	1241;1198;1198;1161;1149;1241	ENSP00000219476:F1241L;ENSP00000248099:F1198L;ENSP00000399232:F1161L;ENSP00000371978:F1149L;ENSP00000344383:F1241L	ENSP00000219476:F1241L	F	+	1	0	TSC2	2071707	1.000000	0.71417	1.000000	0.80357	0.938000	0.57974	3.291000	0.51764	1.767000	0.52121	0.459000	0.35465	TTC		0.627	TSC2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000250657.2	NM_000548		C	2131706	T	C	2131706	3	2	649	1	0	0	0	0	1	0	0	0	16618	1609	56	3	3839	3	TSC2	16	2131706	Missense_Mutation	SNP	T	TCGA-KM-8441-01A-11D-2310-10		2131706	88223047	43	40226										
ZNF668	79759	broad.mit.edu	37	chr16	31072731	31072731	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	ggcttctcgtcagcctcctcAccccccgcctcgcctgcccc	7	24	3	0			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr16:31072731A>C	ENST00000538906.1	-	3	2302	c.1518T>G	c.(1516-1518)ggT>ggG	p.G506G	ZNF668_ENST00000426488.2_Silent_p.G529G|ZNF668_ENST00000300849.4_Silent_p.G506G|ZNF668_ENST00000394983.2_Silent_p.G506G|ZNF668_ENST00000535577.1_Silent_p.G506G|ZNF668_ENST00000539836.3_Silent_p.G529G|ZNF668_ENST00000417110.2_5'Flank	NM_001172668.1	NP_001166139	Q96K58	ZN668_HUMAN	zinc finger protein 668	506					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(6)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(3)|lung(9)|ovary(1)|prostate(1)|urinary_tract(1)	27						CAGCCTCCTCACCCCCCGCCT	0.652																																					Colon(181;1111 1980 5060 10512 25785)											0													45	50	48					16																	31072731		2197	4300	6497	SO:0001819	synonymous_variant	79759				CCDS10701.1, CCDS54003.1	16p11.2	2013-01-08			ENSG00000167394	ENSG00000167394		"Zinc fingers, C2H2-type"	25821	protein-coding gene	gene with protein product						12477932	Standard	NM_024706		Approved	FLJ13479	uc021tgt.1	Q96K58	OTTHUMG00000047357	ENST00000538906.1:c.1518T>G	16.37:g.31072731A>C		Somatic		WXS	Illumina HiSeq	Phase_I	C9JHH8|F5H7E7|Q59EV1|Q8N669|Q9H8L4	Silent	SNP	ENST00000538906.1	37	CCDS10701.1																																																																																				0.652	ZNF668-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000108516.2	NM_024706		C	31072731	A	C	31072731	2	2	649	1	0	0	0	0	0	0	0	1	18087	146	6	5		5	ZNF668	16	31072731	Silent	SNP	A	TCGA-KM-8441-01A-11D-2310-10	28941025	31072731	59282022	44	40227										
ITGAX	3687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	31393193	31393193	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	gacaaattgccccagaaaacGggacacagacccccagcccg	9	16	0	2			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr16:31393193G>A	ENST00000268296.4	+	30	3578	c.3457G>A	c.(3457-3459)Ggg>Agg	p.G1153R	ITGAX_ENST00000562522.1_Missense_Mutation_p.G1153R	NM_000887.3	NP_000878.2	P20702	ITAX_HUMAN	integrin, alpha X (complement component 3 receptor 4 subunit)	1153					blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|heterotypic cell-cell adhesion (GO:0034113)|integrin-mediated signaling pathway (GO:0007229)|leukocyte migration (GO:0050900)|organ morphogenesis (GO:0009887)	cell surface (GO:0009986)|integrin complex (GO:0008305)|membrane (GO:0016020)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|receptor activity (GO:0004872)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(8)|lung(42)|ovary(2)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	77						CCCAGAAAACGGGACACAGAC	0.537																																																0													137	145	142					16																	31393193		2197	4300	6497	SO:0001583	missense	3687			BC038237	CCDS10711.1, CCDS67014.1	16p11.2	2010-03-23	2006-02-10		ENSG00000140678	ENSG00000140678		"CD molecules", "Complement system", "Integrins"	6152	protein-coding gene	gene with protein product		151510	"integrin, alpha X (antigen CD11C (p150), alpha polypeptide)"	CD11C		3284962, 2303426	Standard	NM_001286375		Approved	CD11c	uc002ebu.1	P20702	OTTHUMG00000132465	ENST00000268296.4:c.3457G>A	16.37:g.31393193G>A	ENSP00000268296:p.Gly1153Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVA6	Missense_Mutation	SNP	ENST00000268296.4	37	CCDS10711.1	.	.	.	.	.	.	.	.	.	.	G	11.00	1.511074	0.27036	.	.	ENSG00000140678	ENST00000268296	T	0.59772	0.24	5.41	3.45	0.39498	.	.	.	.	.	T	0.49355	0.1552	L	0.55990	1.75	0.09310	N	1	B;B	0.24258	0.022;0.1	B;B	0.15870	0.003;0.014	T	0.37753	-0.9692	9	0.36615	T	0.2	.	8.6787	0.34196	0.1788:0.0:0.8212:0.0	.	1153;338	P20702;Q8TES5	ITAX_HUMAN;.	R	1153	ENSP00000268296:G1153R	ENSP00000268296:G1153R	G	+	1	0	ITGAX	31300694	0.001000	0.12720	0.001000	0.08648	0.027000	0.11550	0.532000	0.23067	0.755000	0.32990	-0.216000	0.12614	GGG		0.537	ITGAX-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000255628.2	NM_000887		A	31393193	G	A	31393193	3	1	649	1	0	0	0	0	1	0	0	0	7896	1116	39	1	3575	1	ITGAX	16	31393193	Missense_Mutation	SNP	G	TCGA-KM-8441-01A-11D-2310-10	320462	31393193	58961560	45	40228										
SETD6	79918	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr16	58550764	58550764	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	aaaaggagcccaactcccccGtgatggtgcctgctgcagac	11	14	0	2	rs530582932		TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr16:58550764G>A	ENST00000219315.4	+	5	774	c.724G>A	c.(724-726)Gtg>Atg	p.V242M	SETD6_ENST00000394266.4_Missense_Mutation_p.V173M|SETD6_ENST00000418480.1_3'UTR|SETD6_ENST00000310682.2_Missense_Mutation_p.V218M			Q8TBK2	SETD6_HUMAN	SET domain containing 6	242	SET. {ECO:0000255|PROSITE- ProRule:PRU00190}.				negative regulation of NF-kappaB transcription factor activity (GO:0032088)|peptidyl-lysine monomethylation (GO:0018026)|regulation of inflammatory response (GO:0050727)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	NF-kappaB binding (GO:0051059)|protein-lysine N-methyltransferase activity (GO:0016279)			endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)|skin(1)	7						CAACTCCCCCGTGATGGTGCC	0.517													G|||	1	0.000199681	0.0008	0.0	5008	,	,		19309	0.0		0.0	False		,,,				2504	0.0															0													200	199	200					16																	58550764		2198	4300	6498	SO:0001583	missense	79918			AK024801	CCDS10798.1, CCDS54013.1	16q21	2008-02-05			ENSG00000103037	ENSG00000103037			26116	protein-coding gene	gene with protein product						12477932	Standard	NM_024860		Approved	FLJ21148	uc002ens.3	Q8TBK2	OTTHUMG00000150276	ENST00000219315.4:c.724G>A	16.37:g.58550764G>A	ENSP00000219315:p.Val242Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K380|B5ME38|Q9H787	Missense_Mutation	SNP	ENST00000219315.4	37	CCDS54013.1	.	.	.	.	.	.	.	.	.	.	G	6.139	0.393900	0.11638	.	.	ENSG00000103037	ENST00000310682;ENST00000394266;ENST00000219315	T;T;T	0.14516	2.5;2.5;2.5	5.42	-1.46	0.08800	SET domain (2);	0.157090	0.51477	D	0.000082	T	0.02807	0.0084	N	0.01188	-0.97	0.24770	N	0.992877	B;B;B	0.22003	0.063;0.011;0.044	B;B;B	0.15484	0.013;0.006;0.002	T	0.32719	-0.9896	10	0.38643	T	0.18	-14.0441	0.105	0.00051	0.2572:0.1857:0.2408:0.3163	.	218;242;218	E9PC53;Q8TBK2;Q8TBK2-2	.;SETD6_HUMAN;.	M	218;173;242	ENSP00000310082:V218M;ENSP00000377809:V173M;ENSP00000219315:V242M	ENSP00000219315:V242M	V	+	1	0	SETD6	57108265	0.810000	0.29049	0.886000	0.34754	0.715000	0.41141	1.450000	0.35134	0.037000	0.15575	-0.500000	0.04577	GTG		0.517	SETD6-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000317274.2	NM_024860		A	58550764	G	A	58550764	3	1	649	1	0	0	0	0	1	0	0	0	14148	1145	40	1	742	1	SETD6	16	58550764	Missense_Mutation	SNP	G	TCGA-KM-8441-01A-11D-2310-10	27157571	58550764	31803989	46	40229										
HYDIN	54768	mdanderson.org	37	chr16	71025245	71025245	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	gagatcacactggaagctttCgtttttcttagttctttttc	7	8	3	1	rs1774516	byFrequency	TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr16:71025245C>T	ENST00000393567.2	-	25	3990	c.3840G>A	c.(3838-3840)acG>acA	p.T1280T		NM_001270974.1	NP_001257903.1	Q4G0P3	HYDIN_HUMAN	HYDIN, axonemal central pair apparatus protein	1280					cilium assembly (GO:0042384)|cilium movement (GO:0003341)|epithelial cell development (GO:0002064)|trachea development (GO:0060438)|ventricular system development (GO:0021591)	cell projection (GO:0042995)				breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(17)|lung(12)|ovary(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)	43		Ovarian(137;0.0654)				TGGAAGCTTTCGTTTTTCTTA	0.463																																																0													130	119	122					16																	71025245		1909	4145	6054	SO:0001819	synonymous_variant	54768			AK074472	CCDS10897.1, CCDS56004.1, CCDS56005.1, CCDS59269.1	16q22.2	2014-02-05	2012-01-06		ENSG00000157423	ENSG00000157423		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	19368	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 31"	610812	"hydrocephalus inducing", "hydrocephalus inducing homolog (mouse)"			12719380, 23022101	Standard	NM_001198542		Approved	DKFZp434D0513, KIAA1864, PPP1R31, CILD5	uc031qwy.1	Q4G0P3	OTTHUMG00000137584	ENST00000393567.2:c.3840G>A	16.37:g.71025245C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NC70|A6NLZ0|B4DQY4|B4DRN4|F5H6V3|Q8N3H8|Q8N3P6|Q8TC08|Q96JG3|Q96SS4|Q9H5U3|Q9H9B8|Q9NTI0|Q9UBE5	Silent	SNP	ENST00000393567.2	37	CCDS59269.1																																																																																				0.463	HYDIN-001	PUTATIVE	not_organism_supported|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000398624.3			T	71025245	C	T	71025245	2	4	649	1	0	0	0	0	0	0	0	1	7474	871	31	1		1	HYDIN	16	71025245	Silent	SNP	C	TCGA-KM-8441-01A-11D-2310-10	12474481	71025245	19329508	47	40230										
GALNS	2588	broad.mit.edu;hgsc.bcm.edu	37	chr16	88908341	88908346	+	In_Frame_Del	DEL	TGCGGA	TGCGGA	-													0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	gttggtggtgtagaagccatTgcggatgggtagccgtcctg					rs118204441		TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	TGCGGA	TGCGGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr16:88908341_88908346delTGCGGA	ENST00000268695.5	-	3	366_371	c.278_283delTCCGCA	c.(277-285)atccgcaat>aat	p.IR93del	GALNS_ENST00000542788.1_Intron|GALNS_ENST00000565364.1_5'UTR	NM_000512.4	NP_000503.1	P34059	GALNS_HUMAN	galactosamine (N-acetyl)-6-sulfatase	93	Catalytic domain.				carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate catabolic process (GO:0042340)|keratan sulfate metabolic process (GO:0042339)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)	metal ion binding (GO:0046872)|N-acetylgalactosamine-4-sulfatase activity (GO:0003943)|N-acetylgalactosamine-6-sulfatase activity (GO:0043890)|sulfuric ester hydrolase activity (GO:0008484)			breast(1)|endometrium(4)|kidney(2)|large_intestine(7)|lung(8)	22				BRCA - Breast invasive adenocarcinoma(80;0.0496)		TAGAAGCCATTGCGGATGGGTAGCCG	0.617																																					GBM(129;1929 2344 25209 33204)											0			GRCh37	CM054741|CM950526|CM950527	GALNS	M	rs118204441																																			SO:0001651	inframe_deletion	2588			D17629	CCDS10970.1	16q24.3	2014-07-03	2014-07-03		ENSG00000141012	ENSG00000141012	3.1.6.4	"Arylsulfatase family"	4122	protein-coding gene	gene with protein product	"Morquio syndrome", "mucopolysaccharidosis type IVA"	612222	"galactosamine (N-acetyl)-6-sulfate sulfatase"			1755850	Standard	NM_000512		Approved	GAS, GALNAC6S	uc002fly.4	P34059	OTTHUMG00000137862	ENST00000268695.5:c.278_283delTCCGCA	16.37:g.88908341_88908346delTGCGGA	ENSP00000268695:p.Ile93_Arg94del	Somatic		WXS	Illumina HiSeq	Phase_I	Q86VK3	In_Frame_Del	DEL	ENST00000268695.5	37	CCDS10970.1																																																																																				0.617	GALNS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269543.1			-	88908346	TGCGGA	-	88908341	7	5	649	1	0	1	0	1	0	0	0	0	6213	1812	63	0	1333	0	GALNS	16	88908341	In_Frame_Del	DEL	TGCGGA	TCGA-KM-8441-01A-11D-2310-10	17883096	88908341	1446412	48	40231	359	2	1	95		3	2	15	N	TGCGGA_C	2.62298e-05
GALNS	2588	bcgsc.ca	37	chr16	88908342	88908347	+	In_Frame_Del	DEL	TGCGGA	TGCGGA	-													0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	ttggtggtgtagaagccattGcggatgggtagccgtcctgt					rs118204441		TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	TGCGGA	TGCGGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr16:88908342_88908347delTGCGGA	ENST00000268695.5	-	3	365_370	c.277_282delTCCGCA	c.(277-282)tccgcadel	p.SA93del	GALNS_ENST00000542788.1_Intron|GALNS_ENST00000565364.1_5'UTR	NM_000512.4	NP_000503.1	P34059	GALNS_HUMAN	galactosamine (N-acetyl)-6-sulfatase	93	Catalytic domain.				carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate catabolic process (GO:0042340)|keratan sulfate metabolic process (GO:0042339)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)	metal ion binding (GO:0046872)|N-acetylgalactosamine-4-sulfatase activity (GO:0003943)|N-acetylgalactosamine-6-sulfatase activity (GO:0043890)|sulfuric ester hydrolase activity (GO:0008484)			breast(1)|endometrium(4)|kidney(2)|large_intestine(7)|lung(8)	22				BRCA - Breast invasive adenocarcinoma(80;0.0496)		AGAAGCCATTGCGGATGGGTAGCCGT	0.621																																					GBM(129;1929 2344 25209 33204)											0			GRCh37	CM054741|CM950526|CM950527	GALNS	M	rs118204441																																			SO:0001651	inframe_deletion	2588			D17629	CCDS10970.1	16q24.3	2014-07-03	2014-07-03		ENSG00000141012	ENSG00000141012	3.1.6.4	"Arylsulfatase family"	4122	protein-coding gene	gene with protein product	"Morquio syndrome", "mucopolysaccharidosis type IVA"	612222	"galactosamine (N-acetyl)-6-sulfate sulfatase"			1755850	Standard	NM_000512		Approved	GAS, GALNAC6S	uc002fly.4	P34059	OTTHUMG00000137862	ENST00000268695.5:c.277_282delTCCGCA	16.37:g.88908342_88908347delTGCGGA	ENSP00000268695:p.Ser93_Ala94del	Somatic		WXS	Illumina HiSeq	Phase_I	Q86VK3	In_Frame_Del	DEL	ENST00000268695.5	37	CCDS10970.1																																																																																				0.621	GALNS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269543.1			-	88908347	TGCGGA	-	88908342	7	5	649	1	0	1	0	1	0	0	0	0	6213	1306	46	0	1334	0	GALNS	16	88908342	In_Frame_Del	DEL	TGCGGA	TCGA-KM-8441-01A-11D-2310-10	1	88908342	1446411	49	40232	359	2	1	95		3	2	15	N	TGCGGA_C	2.62298e-05
GALNS	2588	bcgsc.ca	37	chr16	88908355	88908355	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	agccattgcggatgggtagcCgtcctgtgagcagtgccgcc	15	12	0	1			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr16:88908355C>T	ENST00000268695.5	-	3	357	c.269G>A	c.(268-270)cGg>cAg	p.R90Q	GALNS_ENST00000542788.1_Intron|GALNS_ENST00000565364.1_5'UTR	NM_000512.4	NP_000503.1	P34059	GALNS_HUMAN	galactosamine (N-acetyl)-6-sulfatase	90	Catalytic domain.		R -> W (in MPS4A; severe form). {ECO:0000269|PubMed:24726177, ECO:0000269|PubMed:7633425, ECO:0000269|PubMed:7668283}.		carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate catabolic process (GO:0042340)|keratan sulfate metabolic process (GO:0042339)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)	metal ion binding (GO:0046872)|N-acetylgalactosamine-4-sulfatase activity (GO:0003943)|N-acetylgalactosamine-6-sulfatase activity (GO:0043890)|sulfuric ester hydrolase activity (GO:0008484)			breast(1)|endometrium(4)|kidney(2)|large_intestine(7)|lung(8)	22				BRCA - Breast invasive adenocarcinoma(80;0.0496)		GATGGGTAGCCGTCCTGTGAG	0.612																																					GBM(129;1929 2344 25209 33204)											0													156	115	129					16																	88908355		2194	4299	6493	SO:0001583	missense	2588			D17629	CCDS10970.1	16q24.3	2014-07-03	2014-07-03		ENSG00000141012	ENSG00000141012	3.1.6.4	"Arylsulfatase family"	4122	protein-coding gene	gene with protein product	"Morquio syndrome", "mucopolysaccharidosis type IVA"	612222	"galactosamine (N-acetyl)-6-sulfate sulfatase"			1755850	Standard	NM_000512		Approved	GAS, GALNAC6S	uc002fly.4	P34059	OTTHUMG00000137862	ENST00000268695.5:c.269G>A	16.37:g.88908355C>T	ENSP00000268695:p.Arg90Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q86VK3	Missense_Mutation	SNP	ENST00000268695.5	37	CCDS10970.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	17.41|17.41	3.382732|3.382732	0.61845|0.61845	.|.	.|.	ENSG00000141012|ENSG00000141012	ENST00000439266|ENST00000268695	.|D	.|0.98862	.|-5.19	5.24|5.24	5.24|5.24	0.73138|0.73138	.|Alkaline phosphatase-like, alpha/beta/alpha (1);Sulfatase (1);Alkaline-phosphatase-like, core domain (1);	.|0.048636	.|0.85682	.|D	.|0.000000	D|D	0.98732|0.98732	0.9574|0.9574	L|L	0.52364|0.52364	1.645|1.645	0.80722|0.80722	D|D	1|1	.|D;D	.|0.89917	.|0.999;1.0	.|D;D	.|0.97110	.|0.958;1.0	D|D	0.99327|0.99327	1.0908|1.0908	6|10	0.87932|0.40728	D|T	0|0.16	.|.	19.199|19.199	0.93701|0.93701	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|90;90	.|B2R6P1;P34059	.|.;GALNS_HUMAN	S|Q	49|90	.|ENSP00000268695:R90Q	ENSP00000402127:G49S|ENSP00000268695:R90Q	G|R	-|-	1|2	0|0	GALNS|GALNS	87435856|87435856	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.692000|0.692000	0.40212|0.40212	7.578000|7.578000	0.82498|0.82498	2.620000|2.620000	0.88729|0.88729	0.561000|0.561000	0.74099|0.74099	GGC|CGG		0.612	GALNS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269543.1			T	88908355	C	T	88908355	3	4	649	1	0	0	0	0	1	0	0	0	6213	652	23	1	1347	1	GALNS	16	88908355	Missense_Mutation	SNP	C	TCGA-KM-8441-01A-11D-2310-10	13	88908355	1446398	50	40233			1	95		3	2	15	N	TGCGGA_C	2.62298e-05
CCDC144NL	339184	mdanderson.org	37	chr17	20768730	20768730	+	Nonstop_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	gtttttggttgtgaatgtttAccttacaacattagacacat	7	6	0	2	rs4605228	byFrequency	TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr17:20768730A>G	ENST00000327925.5	-	4	783	c.664T>C	c.(664-666)Taa>Caa	p.*222Q	CCDC144NL_ENST00000539484.1_Splice_Site	NM_001004306.1	NP_001004306.1	Q6NUI1	C144L_HUMAN	coiled-coil domain containing 144 family, N-terminal like	0										large_intestine(3)|lung(3)|skin(1)	7						GTGAATGTTTACCTTACAACA	0.358													N|||	51	0.0101837	0.0333	0.0029	5008	,	,		19241	0.0		0.001	False		,,,				2504	0.0041															0													101	93	96					17																	20768730		2203	4300	6503	SO:0001578	stop_lost	339184				CCDS32591.1	17p11.2	2009-01-15			ENSG00000205212	ENSG00000205212			33735	protein-coding gene	gene with protein product							Standard	NM_001004306		Approved	MGC87631	uc002gyf.3	Q6NUI1	OTTHUMG00000132271	ENST00000327925.5:c.664T>C	17.37:g.20768730A>G	ENSP00000328054:p.*222Gluext*26	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000327925.5	37	CCDS32591.1	.	.	.	.	.	.	.	.	.	.	N	0.770	-0.766154	0.02974	.	.	ENSG00000205212	ENST00000327925	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	0.80722	P	0.0	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	rs4605228;rs52789726;rs4605228	.	.	.	Q	222	.	.	X	-	1	0	CCDC144NL	20709322	0.038000	0.19896	0.003000	0.11579	0.003000	0.03518	-1.896000	0.01605	-1.871000	0.01138	-1.895000	0.00532	TAA		0.358	CCDC144NL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255361.2	NM_001004306		G	20768730	A	G	20768730	4	3	649	1	0	0	0	0	0	0	0	0	2781	404	14	3	5	3	CCDC144NL	17	20768730	Nonstop_Mutation	SNP	A	TCGA-KM-8441-01A-11D-2310-10		20768730	60426480	51	40234										
SPATA20	64847	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr17	48629513	48629513	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	tgcagtgaggctgagctgggGgctggcctgcccctgcgtct	17	12	1	2			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr17:48629513G>T	ENST00000356488.4	+	13	1964	c.1881G>T	c.(1879-1881)ggG>ggT	p.G627G	SPATA20_ENST00000006658.6_Silent_p.G643G|SPATA20_ENST00000393244.3_Silent_p.G583G|SPATA20_ENST00000511937.1_3'UTR	NM_001258372.1	NP_001245301.1	Q8TB22	SPT20_HUMAN	spermatogenesis associated 20	627					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	extracellular region (GO:0005576)	catalytic activity (GO:0003824)			endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(5)|lung(9)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	24	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;9.38e-09)			CTGAGCTGGGGGCTGGCCTGC	0.652																																																0													24	29	27					17																	48629513		2203	4300	6503	SO:0001819	synonymous_variant	64847				CCDS11571.1, CCDS58563.1, CCDS58564.1	17q21.33	2011-03-17			ENSG00000006282	ENSG00000006282			26125	protein-coding gene	gene with protein product	"hypothetical protein FLJ21347"	613939				12477932	Standard	NM_022827		Approved	FLJ21347, SSP411, Tisp78	uc002ird.3	Q8TB22	OTTHUMG00000162162	ENST00000356488.4:c.1881G>T	17.37:g.48629513G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2TA99|Q2XUZ6|Q6P0P1|Q8WVW3|Q9H747	Silent	SNP	ENST00000356488.4	37	CCDS58563.1																																																																																				0.652	SPATA20-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000367651.1	NM_022827		T	48629513	G	T	48629513	2	4	649	1	0	0	0	0	0	0	0	1	15018	1219	43	4		4	SPATA20	17	48629513	Silent	SNP	G	TCGA-KM-8441-01A-11D-2310-10	27860783	48629513	32565697	52	40235										
DCC	1630	broad.mit.edu	37	chr18	50734080	50734080	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	tgatggactatcttataaacTggaaggcctgaaaaaattca	8	6	2	2			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr18:50734080T>C	ENST00000442544.2	+	11	2370	c.1754T>C	c.(1753-1755)cTg>cCg	p.L585P	DCC_ENST00000581580.1_Missense_Mutation_p.L240P|DCC_ENST00000412726.1_Missense_Mutation_p.L433P	NM_005215.3	NP_005206.2	P43146	DCC_HUMAN	DCC netrin 1 receptor	585	Fibronectin type-III 2. {ECO:0000255|PROSITE-ProRule:PRU00316}.				anterior/posterior axon guidance (GO:0033564)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|axonogenesis (GO:0007409)|dorsal/ventral axon guidance (GO:0033563)|negative regulation of collateral sprouting (GO:0048671)|negative regulation of dendrite development (GO:2000171)|negative regulation of neuron projection development (GO:0010977)|neuron migration (GO:0001764)|positive regulation of apoptotic process (GO:0043065)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of neuron projection development (GO:0010976)|regulation of apoptotic process (GO:0042981)|response to amphetamine (GO:0001975)|spinal cord ventral commissure morphogenesis (GO:0021965)	axon (GO:0030424)|cytosol (GO:0005829)|growth cone membrane (GO:0032584)|integral component of membrane (GO:0016021)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)	netrin receptor activity (GO:0005042)|transcription coactivator activity (GO:0003713)|transmembrane signaling receptor activity (GO:0004888)			NS(3)|breast(2)|central_nervous_system(1)|cervix(2)|endometrium(13)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(23)|liver(1)|lung(56)|ovary(7)|pancreas(3)|prostate(2)|skin(16)|stomach(2)|upper_aerodigestive_tract(4)|urinary_tract(6)	148		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TCTTATAAACTGGAAGGCCTG	0.378																																																0													129	138	135					18																	50734080		2203	4300	6503	SO:0001583	missense	1630			X76132	CCDS11952.1	18q21.1	2014-06-20	2014-06-20		ENSG00000187323	ENSG00000187323		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	2701	protein-coding gene	gene with protein product	"immunoglobulin superfamily, DCC subclass, member 1"	120470	"deleted in colorectal carcinoma"			2294591, 24400119	Standard	NM_005215		Approved	IGDCC1, NTN1R1	uc002lfe.2	P43146	OTTHUMG00000132698	ENST00000442544.2:c.1754T>C	18.37:g.50734080T>C	ENSP00000389140:p.Leu585Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000442544.2	37	CCDS11952.1	.	.	.	.	.	.	.	.	.	.	T	13.22	2.170752	0.38315	.	.	ENSG00000187323	ENST00000442544;ENST00000304775;ENST00000412726	T;T	0.62639	0.01;0.01	5.83	5.83	0.93111	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.077446	0.51477	D	0.000084	D	0.84566	0.5500	H	0.94542	3.55	0.80722	D	1	D;D;D	0.71674	0.998;0.998;0.985	D;D;D	0.76071	0.987;0.987;0.956	D	0.88867	0.3330	10	0.87932	D	0	.	15.1823	0.72968	0.0:0.0:0.0:1.0	.	433;433;585	E7EQM8;B4DYX2;P43146	.;.;DCC_HUMAN	P	585;518;433	ENSP00000389140:L585P;ENSP00000397322:L433P	ENSP00000304146:L518P	L	+	2	0	DCC	48988078	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	6.587000	0.74071	2.240000	0.73641	0.528000	0.53228	CTG		0.378	DCC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255996.3	NM_005215		C	50734080	T	C	50734080	3	2	649	1	0	0	0	0	1	0	0	0	4284	1580	55	3	1796	3	DCC	18	50734080	Missense_Mutation	SNP	T	TCGA-KM-8441-01A-11D-2310-10		50734080	27343168	53	40236										
HNRNPM	4670	ucsc.edu	37	chr19	8550892	8550892	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	tgccatcgagcgcatgggccTgagcatggagcgcatggtgc	16	11	0	1			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr19:8550892T>C	ENST00000325495.4	+	14	1621	c.1580T>C	c.(1579-1581)cTg>cCg	p.L527P	HNRNPM_ENST00000348943.3_Missense_Mutation_p.L488P	NM_005968.4	NP_005959.2	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	527	27 X 6 AA repeats of [GEVSTPAN]-[ILMV]- [DE]-[RH]-[MLVI]-[GAV].			L -> P (in Ref. 1 and 3). {ECO:0000305}.	alternative mRNA splicing, via spliceosome (GO:0000380)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|extracellular matrix (GO:0031012)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|paraspeckles (GO:0042382)|spliceosomal complex (GO:0005681)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein domain specific binding (GO:0019904)|RNA binding (GO:0003723)			endometrium(5)|kidney(2)|large_intestine(7)|lung(10)|ovary(1)	25						CGCATGGGCCTGAGCATGGAG	0.697																																																0													48	52	51					19																	8550892		2202	4298	6500	SO:0001583	missense	4670			L03532	CCDS12203.1, CCDS12204.1	19p13.2	2013-06-12		2008-04-18	ENSG00000099783	ENSG00000099783		"RNA binding motif (RRM) containing"	5046	protein-coding gene	gene with protein product	"CEA receptor"	160994		NAGR1, HNRPM		8441656, 7558047	Standard	NM_005968		Approved	HTGR1, HNRNPM4, HNRPM4, CEAR	uc010dwe.3	P52272	OTTHUMG00000182383	ENST00000325495.4:c.1580T>C	19.37:g.8550892T>C	ENSP00000325376:p.Leu527Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q15584|Q8WZ44|Q96H56|Q9BWL9|Q9Y492	Missense_Mutation	SNP	ENST00000325495.4	37	CCDS12203.1	.	.	.	.	.	.	.	.	.	.	T	18.22	3.574642	0.65878	.	.	ENSG00000099783	ENST00000325495;ENST00000348943;ENST00000544159;ENST00000539473	T;T	0.13901	2.55;2.85	5.43	5.43	0.79202	.	0.290726	0.35124	N	0.003425	T	0.19127	0.0459	L	0.28274	0.84	0.58432	D	0.999994	D;D;D;D	0.58620	0.976;0.971;0.983;0.98	P;P;P;B	0.56700	0.656;0.641;0.804;0.445	T	0.03103	-1.1072	10	0.28530	T	0.3	.	14.3119	0.66422	0.0:0.0:0.0:1.0	.	367;527;488;412	Q7KYM9;P52272;P52272-2;Q59ES8	.;HNRPM_HUMAN;.;.	P	527;488;412;84	ENSP00000325376:L527P;ENSP00000325732:L488P	ENSP00000325376:L527P	L	+	2	0	HNRNPM	8456892	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	4.076000	0.57591	2.053000	0.61076	0.482000	0.46254	CTG		0.697	HNRNPM-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000460894.1			C	8550892	T	C	8550892	3	2	649	1	0	0	0	0	1	0	0	0	7278	1580	55	3	1634	3	HNRNPM	19	8550892	Missense_Mutation	SNP	T	TCGA-KM-8441-01A-11D-2310-10		8550892	50578091	54	40237										
MUC16	94025	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	9002616	9002616	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	tccagtccagggcttttgggGtcaggacgatgggtgcagac	16	9	1	1			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr19:9002616G>T	ENST00000397910.4	-	51	40403	c.40200C>A	c.(40198-40200)gaC>gaA	p.D13400E	MUC16_ENST00000380951.5_Missense_Mutation_p.D41E	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13402	SEA 9. {ECO:0000255|PROSITE- ProRule:PRU00188}.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						GGCTTTTGGGGTCAGGACGAT	0.572																																																0													93	85	87					19																	9002616		2009	4180	6189	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.40200C>A	19.37:g.9002616G>T	ENSP00000381008:p.Asp13400Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	12.50|12.50	1.957435|1.957435	0.34565|0.34565	.|.	.|.	ENSG00000181143|ENSG00000181143	ENST00000397910;ENST00000380951|ENST00000542240	T;T|.	0.45668|.	0.89;0.89|.	2.75|2.75	-0.779|-0.779	0.10973|0.10973	SEA (1);|.	.|.	.|.	.|.	.|.	T|T	0.16685|0.16685	0.0401|0.0401	N|N	0.14661|0.14661	0.345|0.345	.|.	.|.	.|.	P;D|.	0.56035|.	0.945;0.974|.	P;D|.	0.72075|.	0.476;0.976|.	T|T	0.27331|0.27331	-1.0077|-1.0077	8|4	0.02654|.	T|.	1|.	-2.7307|-2.7307	2.3914|2.3914	0.04379|0.04379	0.2866:0.0:0.4754:0.238|0.2866:0.0:0.4754:0.238	.|.	21045;13400|.	Q8WXI7;B5ME49|.	MUC16_HUMAN;.|.	E|N	13400;41|240	ENSP00000381008:D13400E;ENSP00000370338:D41E|.	ENSP00000370338:D41E|.	D|T	-|-	3|2	2|0	MUC16|MUC16	8863616|8863616	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.002000|0.002000	0.02628|0.02628	-1.113000|-1.113000	0.03296|0.03296	-0.070000|-0.070000	0.12908|0.12908	-0.657000|-0.657000	0.03884|0.03884	GAC|ACC		0.572	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		T	9002616	G	T	9002616	3	4	649	1	0	0	0	0	1	0	0	0	9980	1252	44	4	3459	4	MUC16	19	9002616	Missense_Mutation	SNP	G	TCGA-KM-8441-01A-11D-2310-10	451724	9002616	50126367	55	40238										
MUC16	94025	broad.mit.edu	37	chr19	9066166	9066167	+	Frame_Shift_Ins	INS	-	-	G													0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	agcagggaagggagagagctINSgggattttccagagagggag							TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr19:9066166_9066167insG	ENST00000397910.4	-	3	21482_21483	c.21279_21280insC	c.(21277-21282)cccagcfs	p.S7094fs		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	7096	Ser-rich.|Thr-rich.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						GGGAGAGAGCTGGGATTTTCCA	0.51																																																0																																										SO:0001589	frameshift_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.21280dupC	19.37:g.9066169_9066169dupG	ENSP00000381008:p.Ser7094fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Frame_Shift_Ins	INS	ENST00000397910.4	37	CCDS54212.1																																																																																				0.51	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		G	9066167	-	G	9066166	7	5	649	1	0	1	1	0	0	0	0	0	9980	1580	55	0	22571	0	MUC16	19	9066166	Frame_Shift_Ins	INS	-	TCGA-KM-8441-01A-11D-2310-10	63550	9066166	50062817	56	40239										
ZNF440	126070	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr19	11942848	11942848	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	gggagaaaaggcttatcaatGtaaggaatgtggaaaagcat	13	3	1	1	rs373425213		TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr19:11942848G>A	ENST00000304060.5	+	4	1021	c.857G>A	c.(856-858)tGt>tAt	p.C286Y		NM_152357.2	NP_689570.2	Q8IYI8	ZN440_HUMAN	zinc finger protein 440	286					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(3)|endometrium(4)|kidney(1)|large_intestine(7)|lung(9)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	27						GCTTATCAATGTAAGGAATGT	0.408																																																0													100	101	100					19																	11942848		2201	4299	6500	SO:0001583	missense	126070			AK095252	CCDS42503.1	19p13.13	2013-01-08	2006-08-14	2006-08-14	ENSG00000171295	ENSG00000171295		"Zinc fingers, C2H2-type", "-"	20874	protein-coding gene	gene with protein product							Standard	NM_152357		Approved	FLJ37933	uc002msp.1	Q8IYI8	OTTHUMG00000156403	ENST00000304060.5:c.857G>A	19.37:g.11942848G>A	ENSP00000305373:p.Cys286Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N1R9	Missense_Mutation	SNP	ENST00000304060.5	37	CCDS42503.1	.	.	.	.	.	.	.	.	.	.	g	14.74	2.624803	0.46840	.	.	ENSG00000171295	ENST00000304060	D	0.85088	-1.94	1.04	1.04	0.20106	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	D	0.92443	0.7601	M	0.91612	3.225	0.36272	D	0.855235	D	0.89917	1.0	D	0.91635	0.999	D	0.93193	0.6585	9	0.87932	D	0	.	9.6088	0.39650	0.0:0.0:1.0:0.0	.	286	Q8IYI8	ZN440_HUMAN	Y	286	ENSP00000305373:C286Y	ENSP00000305373:C286Y	C	+	2	0	ZNF440	11803848	1.000000	0.71417	0.010000	0.14722	0.019000	0.09904	7.104000	0.77024	0.865000	0.35603	0.205000	0.17691	TGT		0.408	ZNF440-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344508.1	NM_152357		A	11942848	G	A	11942848	3	1	649	1	0	0	0	0	1	0	0	0	17925	1377	48	2	871	2	ZNF440	19	11942848	Missense_Mutation	SNP	G	TCGA-KM-8441-01A-11D-2310-10	2876682	11942848	47186135	57	40240										
SIGLEC12	89858	hgsc.bcm.edu	37	chr19	52004795	52004796	+	Frame_Shift_Ins	INS	-	-	T													0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	cttacatggtcccctgcccgINSgaaccagtagccatgaactg					rs61742108|rs371016684	byFrequency	TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr19:52004795_52004796insT	ENST00000291707.3	-	1	247_248	c.192_193insA	c.(190-195)ttccggfs	p.R65fs	SIGLEC12_ENST00000598614.1_5'Flank	NM_053003.2	NP_443729.1	Q96PQ1	SIG12_HUMAN	sialic acid binding Ig-like lectin 12 (gene/pseudogene)	65	Ig-like V-type 1.				cell adhesion (GO:0007155)	integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)			NS(2)|biliary_tract(1)|breast(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(8)|liver(1)|lung(23)|ovary(4)|prostate(2)|skin(8)|stomach(3)|upper_aerodigestive_tract(2)	61		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		TCCCCTGCCCGGAACCAGTAGC	0.599																																																0										2425,1839		698,1029,405						-4.6	0		dbSNP_130	75	5278,2976		1674,1930,523	no	frameshift	SIGLEC12	NM_053003.2		2372,2959,928	A1A1,A1R,RR		36.0552,43.1285,38.4646				7703,4815				SO:0001589	frameshift_variant	89858			AF282256	CCDS12833.1, CCDS59416.1	19q13.41	2013-01-29	2011-06-29	2004-10-20	ENSG00000254521	ENSG00000254521		"Sialic acid binding Ig-like lectins", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	15482	protein-coding gene	gene with protein product		606094	"SIGLEC-like 1", "sialic acid binding Ig-like lectin 12"	SIGLECL1		11409877, 11328818, 21555517	Standard	NM_053003		Approved	SLG, S2V, Siglec-XII, Siglec-12, Siglec-L1	uc002pwx.1	Q96PQ1	OTTHUMG00000165524	ENST00000291707.3:c.192_193insA	19.37:g.52004795_52004796insT	ENSP00000291707:p.Arg65fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYH7	Frame_Shift_Ins	INS	ENST00000291707.3	37	CCDS12833.1																																																																																				0.599	SIGLEC12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384641.2	NM_053003		T	52004796	-	T	52004795	7	5	649	1	0	1	1	0	0	0	0	0	14321	1115	39	0	1699	0	SIGLEC12	19	52004795	Frame_Shift_Ins	INS	-	TCGA-KM-8441-01A-11D-2310-10	40061947	52004795	7124188	58	40241										
TGM6	343641	ucsc.edu	37	chr20	2381066	2381066	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	ctccttcgggcggaccctggAggacctgacagaagacagca	13	13	0	3			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr20:2381066A>G	ENST00000202625.2	+	7	1026	c.965A>G	c.(964-966)gAg>gGg	p.E322G	TGM6_ENST00000381423.1_Missense_Mutation_p.E322G|TGM6_ENST00000477505.1_3'UTR	NM_198994.2	NP_945345.2	O95932	TGM3L_HUMAN	transglutaminase 6	322					cell death (GO:0008219)|peptide cross-linking (GO:0018149)	cytoplasm (GO:0005737)	metal ion binding (GO:0046872)|protein-glutamine gamma-glutamyltransferase activity (GO:0003810)			breast(1)|endometrium(6)|kidney(2)|large_intestine(2)|lung(32)|ovary(4)|prostate(1)|skin(4)	52					L-Glutamine(DB00130)	CGGACCCTGGAGGACCTGACA	0.602																																																0													99	87	91					20																	2381066		2203	4300	6503	SO:0001583	missense	343641			AF540970	CCDS13025.1, CCDS58761.1	20p13	2010-12-19	2004-07-05	2004-07-07	ENSG00000166948	ENSG00000166948		"Transglutaminases"	16255	protein-coding gene	gene with protein product	"spinocerebellar ataxia 35"	613900	"transglutaminase 3-like"	TGM3L		11390390, 21106500	Standard	NM_198994		Approved	dJ734P14.3, TGY, SCA35	uc002wfy.1	O95932	OTTHUMG00000031692	ENST00000202625.2:c.965A>G	20.37:g.2381066A>G	ENSP00000202625:p.Glu322Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JXU4|Q5JXU5|Q719M2|Q719M3|Q9Y4U8	Missense_Mutation	SNP	ENST00000202625.2	37	CCDS13025.1	.	.	.	.	.	.	.	.	.	.	A	16.89	3.247643	0.59103	.	.	ENSG00000166948	ENST00000202625;ENST00000381423	D;D	0.95412	-3.7;-3.7	4.27	4.27	0.50696	Transglutaminase-like (2);	0.000000	0.52532	D	0.000080	D	0.90177	0.6930	L	0.33093	0.98	0.36318	D	0.858098	P;P	0.37781	0.554;0.608	B;B	0.37047	0.231;0.24	D	0.89656	0.3873	10	0.36615	T	0.2	-36.2913	6.5194	0.22266	0.892:0.0:0.108:0.0	.	322;322	O95932-2;O95932	.;TGM3L_HUMAN	G	322	ENSP00000202625:E322G;ENSP00000370831:E322G	ENSP00000202625:E322G	E	+	2	0	TGM6	2329066	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	4.803000	0.62546	1.939000	0.56221	0.379000	0.24179	GAG		0.602	TGM6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077581.2	NM_198994		G	2381066	A	G	2381066	3	3	649	1	0	0	0	0	1	0	0	0	15846	304	11	3	991	3	TGM6	20	2381066	Missense_Mutation	SNP	A	TCGA-KM-8441-01A-11D-2310-10		2381066	60644454	59	40242										
SFI1	9814	ucsc.edu	37	chr22	32009705	32009705	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	tcgcacccagcaggaaagtgAcgtttgagggtccccttctc	11	13	1	2			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chr22:32009705A>G	ENST00000400288.2	+	27	2965	c.2860A>G	c.(2860-2862)Acg>Gcg	p.T954A	SFI1_ENST00000443011.1_Missense_Mutation_p.T801A|SFI1_ENST00000432498.1_Missense_Mutation_p.T923A|SFI1_ENST00000414585.1_Missense_Mutation_p.T801A|SFI1_ENST00000400289.1_Missense_Mutation_p.T872A|SFI1_ENST00000443326.1_Missense_Mutation_p.T872A|SFI1_ENST00000540643.1_Missense_Mutation_p.T899A	NM_001007467.2	NP_001007468.1	A8K8P3	SFI1_HUMAN	Sfi1 homolog, spindle assembly associated (yeast)	954					G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|negative regulation of phosphatase activity (GO:0010923)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)	phosphatase binding (GO:0019902)			NS(2)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(5)|large_intestine(7)|liver(1)|lung(11)|ovary(1)|prostate(3)|upper_aerodigestive_tract(3)	38						CAGGAAAGTGACGTTTGAGGG	0.657											OREG0003527	type=REGULATORY REGION|Gene=SFI1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay																																				0													25	29	28					22																	32009705		2014	4170	6184	SO:0001583	missense	9814			AB011114	CCDS43004.1, CCDS43005.1, CCDS58803.1, CCDS58804.1	22q12.2	2014-06-13			ENSG00000198089	ENSG00000198089			29064	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 139"	612765				14504268	Standard	NM_001007467		Approved	KIAA0542, PISD, PPP1R139	uc003ale.4	A8K8P3	OTTHUMG00000030249	ENST00000400288.2:c.2860A>G	22.37:g.32009705A>G	ENSP00000383145:p.Thr954Ala	Somatic	829	WXS	Illumina HiSeq	Phase_I	A1L373|A1L387|A2A2L2|B1AKL9|B5MDB7|B7Z1V6|B7Z8G3|B7ZBE2|B7ZBE3|O60289|Q2TAN8|Q5W1B5|Q86TK0|Q8N4U8|Q8N8C1|Q8WU14	Missense_Mutation	SNP	ENST00000400288.2	37	CCDS43004.1	.	.	.	.	.	.	.	.	.	.	A	15.54	2.865159	0.51482	.	.	ENSG00000198089	ENST00000432498;ENST00000540643;ENST00000443326;ENST00000421060;ENST00000414585;ENST00000443011;ENST00000400289;ENST00000400288;ENST00000417682	T;T;T;T;T;T;T;T	0.16897	2.9;2.9;2.75;2.73;2.75;2.75;2.9;2.31	5.08	5.08	0.68730	.	0.000000	0.85682	D	0.000000	T	0.13415	0.0325	N	0.08118	0	0.41984	D	0.990818	P;P;B;P;B	0.45044	0.849;0.837;0.143;0.72;0.231	P;B;B;P;B	0.47251	0.542;0.265;0.075;0.456;0.183	T	0.11567	-1.0582	10	0.72032	D	0.01	.	12.5779	0.56373	1.0:0.0:0.0:0.0	.	899;860;872;923;954	A8K8P3-9;A8K8P3-10;A8K8P3-3;A8K8P3-2;A8K8P3	.;.;.;.;SFI1_HUMAN	A	923;899;872;703;801;801;872;954;537	ENSP00000402679:T923A;ENSP00000443025:T899A;ENSP00000416469:T872A;ENSP00000397148:T801A;ENSP00000401199:T801A;ENSP00000383146:T872A;ENSP00000383145:T954A;ENSP00000398871:T537A	ENSP00000383145:T954A	T	+	1	0	SFI1	30339705	1.000000	0.71417	0.993000	0.49108	0.022000	0.10575	2.412000	0.44609	1.916000	0.55485	0.379000	0.24179	ACG		0.657	SFI1-023	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000337180.3	NM_014775		G	32009705	A	G	32009705	3	3	649	1	0	0	0	0	1	0	0	0	14169	275	10	3	2962	3	SFI1	22	32009705	Missense_Mutation	SNP	A	TCGA-KM-8441-01A-11D-2310-10		32009705	19294861	60	40243										
TKTL1	8277	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	153556232	153556232	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.375992063492063	0	0.415570175438596	1	1	0	ttaccattaaacctctggatGtcgccaccatcgtctccagt	6	14	2	0			TCGA-KM-8441-01A-11D-2310-10	TCGA-KM-8441-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	97c1a300-978d-4df1-9e97-ce2f92b9eff1	ea82c301-a5be-463a-9549-b493cd5c95d8	g.chrX:153556232G>A	ENST00000369915.3	+	12	1735	c.1546G>A	c.(1546-1548)Gtc>Atc	p.V516I	TKTL1_ENST00000369912.2_Missense_Mutation_p.V460I|TKTL1_ENST00000482044.1_3'UTR|TKTL1_ENST00000217905.7_Missense_Mutation_p.V256I	NM_001145933.1|NM_012253.3	NP_001139405.1|NP_036385.3	P51854	TKTL1_HUMAN	transketolase-like 1	516					glucose catabolic process (GO:0006007)|thiamine metabolic process (GO:0006772)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|transketolase activity (GO:0004802)			NS(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(8)|ovary(5)|prostate(1)|skin(1)|urinary_tract(2)	34	all_cancers(53;5.05e-16)|all_epithelial(53;1.82e-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)					ACCTCTGGATGTCGCCACCAT	0.473																																																0													214	188	197					X																	153556232		2203	4300	6503	SO:0001583	missense	8277			X91817	CCDS35448.1, CCDS55541.1	Xq28	2008-02-05			ENSG00000007350	ENSG00000007350			11835	protein-coding gene	gene with protein product		300044				8838793	Standard	NM_012253		Approved	TKR, TKT2	uc004fkg.3	P51854	OTTHUMG00000022707	ENST00000369915.3:c.1546G>A	X.37:g.153556232G>A	ENSP00000358931:p.Val516Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K896|Q5TYJ8|Q5TYJ9|Q8TC75	Missense_Mutation	SNP	ENST00000369915.3	37	CCDS35448.1	.	.	.	.	.	.	.	.	.	.	G	5.168	0.216538	0.09810	.	.	ENSG00000007350	ENST00000369915;ENST00000441970;ENST00000217905;ENST00000369912	D;D;D	0.90676	-2.71;-2.71;-2.71	4.66	-4.45	0.03546	Transketolase, C-terminal (1);Transketolase, C-terminal/Pyruvate-ferredoxin oxidoreductase, domain II (1);Transketolase-like, C-terminal (1);	1.215660	0.06075	N	0.660761	T	0.78541	0.4299	N	0.16567	0.415	0.09310	N	1	B;B;B	0.17465	0.022;0.009;0.009	B;B;B	0.18263	0.021;0.014;0.014	T	0.62426	-0.6857	10	0.40728	T	0.16	0.082	1.7163	0.02902	0.3163:0.1073:0.379:0.1974	.	256;510;516	B7Z7M4;B7Z7I0;P51854	.;.;TKTL1_HUMAN	I	516;477;256;460	ENSP00000358931:V516I;ENSP00000217905:V256I;ENSP00000358928:V460I	ENSP00000217905:V256I	V	+	1	0	TKTL1	153209426	0.000000	0.05858	0.002000	0.10522	0.015000	0.08874	-0.398000	0.07259	-0.970000	0.03569	0.436000	0.28706	GTC		0.473	TKTL1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058923.1	NM_012253		A	153556232	G	A	153556232	3	1	649	1	0	0	0	0	1	0	0	0	15947	1377	48	2	1592	2	TKTL1	23	153556232	Missense_Mutation	SNP	G	TCGA-KM-8441-01A-11D-2310-10		153556232	1714328	61	40244										
MORN1	79906	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	2268198	2268198	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	aggaaggggtggtacccaggCgggggcggccccaggaggac	21	10	0	0			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr1:2268198C>T	ENST00000378531.3	-	11	1301	c.1128G>A	c.(1126-1128)ccG>ccA	p.P376P	MORN1_ENST00000606372.1_5'UTR	NM_024848.1	NP_079124.1	Q5T089	MORN1_HUMAN	MORN repeat containing 1	376										breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(1)|liver(1)|lung(1)|ovary(2)	9	all_cancers(77;0.000194)|all_epithelial(69;9.96e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;3.3e-15)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;2.21e-37)|OV - Ovarian serous cystadenocarcinoma(86;5.01e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.00137)|BRCA - Breast invasive adenocarcinoma(365;0.00488)|STAD - Stomach adenocarcinoma(132;0.00665)|KIRC - Kidney renal clear cell carcinoma(229;0.0203)|Lung(427;0.212)		GGTACCCAGGCGGGGGCGGCC	0.682																																																0													20	22	21					1																	2268198		2196	4295	6491	SO:0001819	synonymous_variant	79906			AK024003	CCDS40.1, CCDS72688.1	1p36.33-p36.32	2008-02-05			ENSG00000116151	ENSG00000116151			25852	protein-coding gene	gene with protein product						12477932	Standard	XM_005244798		Approved	FLJ13941	uc001ajb.1	Q5T089	OTTHUMG00000001402	ENST00000378531.3:c.1128G>A	1.37:g.2268198C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKZ6|Q8WW30|Q9H852	Silent	SNP	ENST00000378531.3	37	CCDS40.1																																																																																				0.682	MORN1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000004055.1	NM_024848		T	2268198	C	T	2268198	2	4	650	1	0	0	0	0	0	0	0	1	9715	755	27	1		1	MORN1	1	2268198	Silent	SNP	C	TCGA-KM-8442-01A-11D-2310-10		2268198	246982423	1	40245										
FAM131C	348487	mdanderson.org	37	chr1	16388642	16388642	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	cacgttgtagttgccggggcGggatctggagtcggacaggt	18	8	1	0	rs79991837	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr1:16388642G>A	ENST00000375662.4	-	4	403	c.220C>T	c.(220-222)Cgc>Tgc	p.R74C	FAM131C_ENST00000494078.1_5'UTR	NM_182623.2	NP_872429.2	Q96AQ9	F131C_HUMAN	family with sequence similarity 131, member C	74										large_intestine(2)|lung(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	8		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;8.32e-08)|COAD - Colon adenocarcinoma(227;5.56e-06)|BRCA - Breast invasive adenocarcinoma(304;9.12e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00656)|READ - Rectum adenocarcinoma(331;0.0649)		TTGCCGGGGCGGGATCTGGAG	0.657													G|||	33	0.00658946	0.0189	0.0072	5008	,	,		15581	0.0		0.0	False		,,,				2504	0.0031															0													77	78	78					1																	16388642		2054	4180	6234	SO:0001583	missense	348487				CCDS41270.1	1p36.13	2008-02-05	2007-03-20	2007-03-20	ENSG00000185519	ENSG00000185519			26717	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 117"	C1orf117		12477932	Standard	NM_182623		Approved	FLJ36766	uc001axz.4	Q96AQ9	OTTHUMG00000009525	ENST00000375662.4:c.220C>T	1.37:g.16388642G>A	ENSP00000364814:p.Arg74Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T5Q5|Q8N3X3|Q8N9P9	Missense_Mutation	SNP	ENST00000375662.4	37	CCDS41270.1	.	.	.	.	.	.	.	.	.	.	G	1.551	-0.539233	0.04053	.	.	ENSG00000185519	ENST00000375662	T	0.22336	1.96	4.64	2.3	0.28687	.	0.351936	0.26571	N	0.023632	T	0.04137	0.0115	N	0.00146	-1.995	0.28188	N	0.927865	B	0.02656	0.0	B	0.01281	0.0	T	0.31641	-0.9936	10	0.48119	T	0.1	-23.3619	6.0703	0.19885	0.7858:0.0:0.2142:0.0	.	74	Q96AQ9	F131C_HUMAN	C	74	ENSP00000364814:R74C	ENSP00000364814:R74C	R	-	1	0	FAM131C	16261229	0.996000	0.38824	0.987000	0.45799	0.549000	0.35272	1.524000	0.35942	0.186000	0.20125	-0.487000	0.04747	CGC		0.657	FAM131C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026319.1	NM_182623		A	16388642	G	A	16388642	3	1	650	1	0	0	0	0	1	0	0	0	5445	1116	39	1	638	1	FAM131C	1	16388642	Missense_Mutation	SNP	G	TCGA-KM-8442-01A-11D-2310-10	14120444	16388642	232861979	2	40246										
CYP4Z1	199974	mdanderson.org	37	chr1	47548113	47548113	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	tattcatcaccatgatgtctGagagtgttcggatgatgctg	11	7	3	3	rs200076743		TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr1:47548113G>A	ENST00000334194.3	+	4	475	c.472G>A	c.(472-474)Gag>Aag	p.E158K		NM_178134.2	NP_835235.1	Q86W10	CP4Z1_HUMAN	cytochrome P450, family 4, subfamily Z, polypeptide 1	158						endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	aromatase activity (GO:0070330)|heme binding (GO:0020037)|iron ion binding (GO:0005506)			cervix(1)|large_intestine(4)|lung(4)|skin(1)|stomach(1)	11						CATGATGTCTGAGAGTGTTCG	0.478																																																0													91	82	85					1																	47548113		2203	4300	6503	SO:0001583	missense	199974			AY262056	CCDS545.1	1p33	2008-02-05			ENSG00000186160	ENSG00000186160		"Cytochrome P450s"	20583	protein-coding gene	gene with protein product						15059886	Standard	NM_178134		Approved	CYP4A20	uc001cqu.1	Q86W10	OTTHUMG00000008019	ENST00000334194.3:c.472G>A	1.37:g.47548113G>A	ENSP00000334246:p.Glu158Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VVE4	Missense_Mutation	SNP	ENST00000334194.3	37	CCDS545.1	.	.	.	.	.	.	.	.	.	.	-	9.782	1.175656	0.21704	.	.	ENSG00000186160	ENST00000334194	T	0.70631	-0.5	2.4	-4.81	0.03180	.	0.343662	0.18958	U	0.126486	T	0.47563	0.1452	N	0.17764	0.52	0.09310	N	1	B	0.28470	0.213	B	0.28784	0.094	T	0.32981	-0.9886	10	0.25751	T	0.34	.	10.5223	0.44927	0.0:0.2112:0.6769:0.1119	.	158	Q86W10	CP4Z1_HUMAN	K	158	ENSP00000334246:E158K	ENSP00000334246:E158K	E	+	1	0	CYP4Z1	47320700	0.001000	0.12720	0.000000	0.03702	0.089000	0.18198	0.708000	0.25719	-1.026000	0.03330	-0.673000	0.03796	GAG		0.478	CYP4Z1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000022020.1	NM_178134		A	47548113	G	A	47548113	3	1	650	1	0	0	0	0	1	0	0	0	4196	1291	45	2	486	2	CYP4Z1	1	47548113	Missense_Mutation	SNP	G	TCGA-KM-8442-01A-11D-2310-10	31159471	47548113	201702508	3	40247										
FLG	2312	mdanderson.org	37	chr1	152278689	152278689	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	tcactgtcactgtcctggctCacactggatccctggcgcct	9	16	3	0	rs57672167	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr1:152278689C>A	ENST00000368799.1	-	3	8708	c.8673G>T	c.(8671-8673)gtG>gtT	p.V2891V	FLG-AS1_ENST00000420707.1_RNA|FLG-AS1_ENST00000593011.1_RNA	NM_002016.1	NP_002007.1	P20930	FILA_HUMAN	filaggrin	2891	Ser-rich.				establishment of skin barrier (GO:0061436)|keratinocyte differentiation (GO:0030216)|multicellular organismal development (GO:0007275)	cytoplasmic membrane-bounded vesicle (GO:0016023)|intermediate filament (GO:0005882)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|structural molecule activity (GO:0005198)			autonomic_ganglia(1)|breast(13)|central_nervous_system(5)|cervix(2)|endometrium(38)|haematopoietic_and_lymphoid_tissue(1)|kidney(16)|large_intestine(57)|lung(211)|ovary(13)|pancreas(1)|prostate(15)|skin(24)|stomach(5)|upper_aerodigestive_tract(10)|urinary_tract(12)	424	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTCCTGGCTCACACTGGATC	0.552									Ichthyosis				A|||	1985	0.396366	0.3147	0.4337	5008	,	,		31121	0.6101		0.171	False		,,,				2504	0.4918															0								A		847,3219		243,361,1429	85	137	120		8673	-5.2	0	1	dbSNP_129	120	1434,7156		126,1182,2987	no	coding-synonymous	FLG	NM_002016.1		369,1543,4416	AA,AC,CC		16.6938,20.8313,18.0231		2891/4062	152278689	2281,10375	2033	4295	6328	SO:0001819	synonymous_variant	2312	Familial Cancer Database	X-linked Ichthyosis, Steroid Sulfatase Deficiency, Ichthyosis Vulgaris	XM_048104	CCDS30860.1	1q21.3	2013-01-10			ENSG00000143631	ENSG00000143631		"EF-hand domain containing"	3748	protein-coding gene	gene with protein product		135940				2740331, 2248957, 16444271	Standard	NM_002016		Approved		uc001ezu.1	P20930	OTTHUMG00000012202	ENST00000368799.1:c.8673G>T	1.37:g.152278689C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q01720|Q5T583|Q9UC71	Silent	SNP	ENST00000368799.1	37	CCDS30860.1																																																																																				0.552	FLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033742.1	NM_002016		A	152278689	C	A	152278689	2	1	650	1	0	0	0	0	0	0	0	1	5929	813	29	4		4	FLG	1	152278689	Silent	SNP	C	TCGA-KM-8442-01A-11D-2310-10	104730576	152278689	96971932	4	40248										
FLG	2312	mdanderson.org	37	chr1	152278814	152278814	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	cgaccctgagtgcctggagcCgtctcctgattgttcctcat	10	14	2	2	rs2184952	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr1:152278814C>T	ENST00000368799.1	-	3	8583	c.8548G>A	c.(8548-8550)Ggc>Agc	p.G2850S	FLG-AS1_ENST00000420707.1_RNA|FLG-AS1_ENST00000593011.1_RNA	NM_002016.1	NP_002007.1	P20930	FILA_HUMAN	filaggrin	2850	Ser-rich.				establishment of skin barrier (GO:0061436)|keratinocyte differentiation (GO:0030216)|multicellular organismal development (GO:0007275)	cytoplasmic membrane-bounded vesicle (GO:0016023)|intermediate filament (GO:0005882)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|structural molecule activity (GO:0005198)			autonomic_ganglia(1)|breast(13)|central_nervous_system(5)|cervix(2)|endometrium(38)|haematopoietic_and_lymphoid_tissue(1)|kidney(16)|large_intestine(57)|lung(211)|ovary(13)|pancreas(1)|prostate(15)|skin(24)|stomach(5)|upper_aerodigestive_tract(10)|urinary_tract(12)	424	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGCCTGGAGCCGTCTCCTGAT	0.572									Ichthyosis																																							0								C	SER/GLY	329,3957	110.8+/-149.0	6,317,1820	409	615	546		8548	-3.9	0	1	dbSNP_96	546	448,8152	117.0+/-176.6	0,448,3852	no	missense	FLG	NM_002016.1	56	6,765,5672	TT,TC,CC		5.2093,7.6762,6.0298	benign	2850/4062	152278814	777,12109	2143	4300	6443	SO:0001583	missense	2312	Familial Cancer Database	X-linked Ichthyosis, Steroid Sulfatase Deficiency, Ichthyosis Vulgaris	XM_048104	CCDS30860.1	1q21.3	2013-01-10			ENSG00000143631	ENSG00000143631		"EF-hand domain containing"	3748	protein-coding gene	gene with protein product		135940				2740331, 2248957, 16444271	Standard	NM_002016		Approved		uc001ezu.1	P20930	OTTHUMG00000012202	ENST00000368799.1:c.8548G>A	1.37:g.152278814C>T	ENSP00000357789:p.Gly2850Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q01720|Q5T583|Q9UC71	Missense_Mutation	SNP	ENST00000368799.1	37	CCDS30860.1	.	.	.	.	.	.	.	.	.	.	C	12.10	1.837373	0.32513	0.076762	0.052093	ENSG00000143631	ENST00000368799;ENST00000368796	T	0.00824	5.65	3.42	-3.91	0.04168	.	.	.	.	.	T	0.00384	0.0012	M	0.63843	1.955	0.09310	N	1	B	0.28760	0.221	B	0.30855	0.121	T	0.33189	-0.9878	9	0.14656	T	0.56	-0.2526	8.0549	0.30600	0.0:0.2837:0.0:0.7163	.	2850	P20930	FILA_HUMAN	S	2850;112	ENSP00000357789:G2850S	ENSP00000357786:G112S	G	-	1	0	FLG	150545438	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-2.534000	0.00941	-0.915000	0.03823	0.306000	0.20318	GGC		0.572	FLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033742.1	NM_002016		T	152278814	C	T	152278814	3	4	650	1	0	0	0	0	1	0	0	0	5929	652	23	1	3641	1	FLG	1	152278814	Missense_Mutation	SNP	C	TCGA-KM-8442-01A-11D-2310-10	125	152278814	96971807	5	40249										
SNAPIN	23557	broad.mit.edu;hgsc.bcm.edu	37	chr1	153631301	153631301	+	Frame_Shift_Del	DEL	G	G	-													0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gccgcgaccttttcgccgaaGggctgctggagttcctgcga					rs35903030		TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr1:153631301delG	ENST00000368685.5	+	1	172	c.82delG	c.(82-84)gggfs	p.G28fs	SNAPIN_ENST00000478558.1_3'UTR	NM_012437.5	NP_036569.1	O95295	SNAPN_HUMAN	SNAP-associated protein	28					anterograde axon cargo transport (GO:0008089)|anterograde synaptic vesicle transport (GO:0048490)|endosome to lysosome transport (GO:0008333)|intracellular protein transport (GO:0006886)|melanosome organization (GO:0032438)|negative regulation of neuron projection development (GO:0010977)|neuron projection development (GO:0031175)|neurotransmitter secretion (GO:0007269)|positive regulation of late endosome to lysosome transport (GO:1902824)|regulation of protein binding (GO:0043393)|synaptic vesicle exocytosis (GO:0016079)|synaptic vesicle fusion to presynaptic membrane (GO:0031629)|synaptic vesicle maturation (GO:0016188)|synaptic vesicle transport (GO:0048489)|terminal button organization (GO:0072553)|viral process (GO:0016032)	BLOC-1 complex (GO:0031083)|cell junction (GO:0030054)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|nucleolus (GO:0005730)|perinuclear region of cytoplasm (GO:0048471)|secretory granule (GO:0030141)|synapse (GO:0045202)|synaptic vesicle (GO:0008021)	SNARE binding (GO:0000149)			lung(3)	3	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			TTTCGCCGAAGGGCTGCTGGA	0.692																																																0													10	13	12					1																	153631301		2167	4240	6407	SO:0001589	frameshift_variant	23557			AF086837	CCDS1049.1	1q22	2013-09-27		2007-11-14	ENSG00000143553	ENSG00000143553		"Biogenesis of lysosomal organelles complex-1 subunits"	17145	protein-coding gene	gene with protein product	"snapin", "SNAP-25-binding protein", "biogenesis of lysosomal organelles complex-1, subunit 7"	607007		SNAPAP		10195194, 12659861	Standard	NM_012437		Approved	BLOC1S7	uc001fcq.4	O95295	OTTHUMG00000037086	ENST00000368685.5:c.82delG	1.37:g.153631301delG	ENSP00000357674:p.Gly28fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DV56|Q5SXU8	Frame_Shift_Del	DEL	ENST00000368685.5	37	CCDS1049.1																																																																																				0.692	SNAPIN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090036.1	NM_012437		-	153631301	G	-	153631301	7	5	650	1	0	1	0	1	0	0	0	0	14852	1000	35	0	84	0	SNAPIN	1	153631301	Frame_Shift_Del	DEL	G	TCGA-KM-8442-01A-11D-2310-10	1352487	153631301	95619320	6	40250	360	2								
SNAPIN	23557	bcgsc.ca	37	chr1	153631302	153631302	+	Frame_Shift_Del	DEL	G	G	-													0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ccgcgaccttttcgccgaagGgctgctggagttcctgcgac							TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr1:153631302delG	ENST00000368685.5	+	1	173	c.83delG	c.(82-84)gggfs	p.G28fs	SNAPIN_ENST00000478558.1_3'UTR	NM_012437.5	NP_036569.1	O95295	SNAPN_HUMAN	SNAP-associated protein	28					anterograde axon cargo transport (GO:0008089)|anterograde synaptic vesicle transport (GO:0048490)|endosome to lysosome transport (GO:0008333)|intracellular protein transport (GO:0006886)|melanosome organization (GO:0032438)|negative regulation of neuron projection development (GO:0010977)|neuron projection development (GO:0031175)|neurotransmitter secretion (GO:0007269)|positive regulation of late endosome to lysosome transport (GO:1902824)|regulation of protein binding (GO:0043393)|synaptic vesicle exocytosis (GO:0016079)|synaptic vesicle fusion to presynaptic membrane (GO:0031629)|synaptic vesicle maturation (GO:0016188)|synaptic vesicle transport (GO:0048489)|terminal button organization (GO:0072553)|viral process (GO:0016032)	BLOC-1 complex (GO:0031083)|cell junction (GO:0030054)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|nucleolus (GO:0005730)|perinuclear region of cytoplasm (GO:0048471)|secretory granule (GO:0030141)|synapse (GO:0045202)|synaptic vesicle (GO:0008021)	SNARE binding (GO:0000149)			lung(3)	3	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			TTCGCCGAAGGGCTGCTGGAG	0.692																																																0													10	13	12					1																	153631302		2167	4241	6408	SO:0001589	frameshift_variant	23557			AF086837	CCDS1049.1	1q22	2013-09-27		2007-11-14	ENSG00000143553	ENSG00000143553		"Biogenesis of lysosomal organelles complex-1 subunits"	17145	protein-coding gene	gene with protein product	"snapin", "SNAP-25-binding protein", "biogenesis of lysosomal organelles complex-1, subunit 7"	607007		SNAPAP		10195194, 12659861	Standard	NM_012437		Approved	BLOC1S7	uc001fcq.4	O95295	OTTHUMG00000037086	ENST00000368685.5:c.83delG	1.37:g.153631302delG	ENSP00000357674:p.Gly28fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DV56|Q5SXU8	Frame_Shift_Del	DEL	ENST00000368685.5	37	CCDS1049.1																																																																																				0.692	SNAPIN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090036.1	NM_012437		-	153631302	G	-	153631302	7	5	650	1	0	1	0	1	0	0	0	0	14852	1232	43	0	85	0	SNAPIN	1	153631302	Frame_Shift_Del	DEL	G	TCGA-KM-8442-01A-11D-2310-10	1	153631302	95619319	7	40251	360	2								
CD5L	922	broad.mit.edu;mdanderson.org	37	chr1	157805633	157805633	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	tgccatactcactctcacacGatgccccagcatcttcatca	4	17	5	0	rs545632901		TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr1:157805633G>A	ENST00000368174.4	-	3	464	c.368C>T	c.(367-369)tCg>tTg	p.S123L	CD5L_ENST00000484609.1_5'Flank	NM_005894.2	NP_005885.1	O43866	CD5L_HUMAN	CD5 molecule-like	123	SRCR 1. {ECO:0000255|PROSITE- ProRule:PRU00196}.				apoptotic process (GO:0006915)|cellular defense response (GO:0006968)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	scavenger receptor activity (GO:0005044)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(9)|lung(25)|ovary(1)|prostate(1)|stomach(1)|urinary_tract(1)	52	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			ACTCTCACACGATGCCCCAGC	0.502													G|||	1	0.000199681	0.0	0.0014	5008	,	,		19102	0.0		0.0	False		,,,				2504	0.0															0													112	113	113					1																	157805633		2203	4300	6503	SO:0001583	missense	922			U82812	CCDS1171.1	1q21-q23	2008-02-05	2006-03-28		ENSG00000073754	ENSG00000073754			1690	protein-coding gene	gene with protein product		602592	"apoptosis inhibitor 6", "CD5 antigen-like (scavenger receptor cysteine rich family)"	API6		9045627	Standard	NM_005894		Approved	Spalpha	uc001frk.4	O43866	OTTHUMG00000022440	ENST00000368174.4:c.368C>T	1.37:g.157805633G>A	ENSP00000357156:p.Ser123Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7M5|Q6UX63	Missense_Mutation	SNP	ENST00000368174.4	37	CCDS1171.1	.	.	.	.	.	.	.	.	.	.	G	7.764	0.705961	0.15172	.	.	ENSG00000073754	ENST00000368174	T	0.34472	1.36	4.68	-9.36	0.00629	Speract/scavenger receptor (2);Speract/scavenger receptor-related (2);	4.788200	0.00508	N	0.000173	T	0.03348	0.0097	N	0.04686	-0.185	0.09310	N	1	B	0.06786	0.001	B	0.06405	0.002	T	0.10451	-1.0629	10	0.19590	T	0.45	.	2.6374	0.04961	0.4919:0.0815:0.173:0.2536	.	123	O43866	CD5L_HUMAN	L	123	ENSP00000357156:S123L	ENSP00000357156:S123L	S	-	2	0	CD5L	156072257	0.000000	0.05858	0.000000	0.03702	0.036000	0.12997	-3.877000	0.00344	-2.411000	0.00571	-2.010000	0.00438	TCG		0.502	CD5L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058346.1	NM_005894		A	157805633	G	A	157805633	3	1	650	1	0	0	0	0	1	0	0	0	3029	1059	37	1	691	1	CD5L	1	157805633	Missense_Mutation	SNP	G	TCGA-KM-8442-01A-11D-2310-10	4174331	157805633	91444988	8	40252										
PPP1R15B	84919	broad.mit.edu	37	chr1	204379294	204379294	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	actacaagctggtctggcagAaatgggaaggtcaccttcta	11	9	3	1			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr1:204379294A>G	ENST00000367188.4	-	1	1625	c.1246T>C	c.(1246-1248)Tct>Cct	p.S416P	RP11-739N20.2_ENST00000443515.1_RNA	NM_032833.3	NP_116222.3	Q5SWA1	PR15B_HUMAN	protein phosphatase 1, regulatory subunit 15B	416					ER overload response (GO:0006983)|regulation of translation (GO:0006417)|response to hydrogen peroxide (GO:0042542)	protein phosphatase type 1 complex (GO:0000164)	protein serine/threonine phosphatase activity (GO:0004722)			breast(3)|cervix(1)|kidney(4)|large_intestine(3)|lung(16)|ovary(1)|pancreas(2)|skin(1)|urinary_tract(3)	34	all_cancers(21;0.0032)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.179)|all_epithelial(62;0.193)|Prostate(682;0.227)		all cancers(3;1.14e-29)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.139)			GGTCTGGCAGAAATGGGAAGG	0.458																																																0													75	76	76					1																	204379294		2203	4300	6503	SO:0001583	missense	84919			AK027650	CCDS1445.1	1q32.1	2012-04-17	2011-10-04		ENSG00000158615	ENSG00000158615		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	14951	protein-coding gene	gene with protein product		613257	"protein phosphatase 1, regulatory (inhibitor) subunit 15B"			11948623	Standard	XM_005245551		Approved	FLJ14744	uc001hav.4	Q5SWA1	OTTHUMG00000036105	ENST00000367188.4:c.1246T>C	1.37:g.204379294A>G	ENSP00000356156:p.Ser416Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q53GQ4|Q658M2|Q6P156|Q96SN1	Missense_Mutation	SNP	ENST00000367188.4	37	CCDS1445.1	.	.	.	.	.	.	.	.	.	.	A	24.7	4.555518	0.86231	.	.	ENSG00000158615	ENST00000367188;ENST00000543650	T	0.29397	1.57	4.8	2.18	0.27775	Protein phosphatase 1, regulatory subunit 15A/B, C-terminal (1);	0.559998	0.18639	N	0.135345	T	0.46347	0.1388	M	0.70595	2.14	0.09310	N	1	D	0.53462	0.96	P	0.57776	0.827	T	0.29119	-1.0022	10	0.56958	D	0.05	-8.9052	10.7169	0.46017	0.5569:0.4431:0.0:0.0	.	416	Q5SWA1	PR15B_HUMAN	P	416;326	ENSP00000356156:S416P	ENSP00000356156:S416P	S	-	1	0	PPP1R15B	202645917	0.008000	0.16893	0.043000	0.18650	0.742000	0.42306	0.674000	0.25218	0.743000	0.32719	0.533000	0.62120	TCT		0.458	PPP1R15B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087974.1	NM_032833		G	204379294	A	G	204379294	3	3	650	1	0	0	0	0	1	0	0	0	12374	246	9	3	903	3	PPP1R15B	1	204379294	Missense_Mutation	SNP	A	TCGA-KM-8442-01A-11D-2310-10	46573661	204379294	44871327	9	40253										
ELMOD3	84173	ucsc.edu	37	chr2	85604502	85604502	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	cagacctgagaggcgcaggcTtccttgccctcctgcatctg	11	15	1	2			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr2:85604502T>C	ENST00000409890.2	+	11	1310	c.643T>C	c.(643-645)Ttc>Ctc	p.F215L	ELMOD3_ENST00000393852.4_Missense_Mutation_p.F215L|ELMOD3_ENST00000428955.2_Missense_Mutation_p.F215L|ELMOD3_ENST00000409013.3_Missense_Mutation_p.F215L|ELMOD3_ENST00000490508.1_3'UTR|ELMOD3_ENST00000315658.7_Missense_Mutation_p.F215L|ELMOD3_ENST00000409344.3_Missense_Mutation_p.F215L			Q96FG2	ELMD3_HUMAN	ELMO/CED-12 domain containing 3	215	ELMO. {ECO:0000255|PROSITE- ProRule:PRU00664}.				phagocytosis (GO:0006909)	cilium (GO:0005929)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)				endometrium(1)|kidney(1)|large_intestine(3)|lung(4)|ovary(2)|prostate(1)	12						AGGCGCAGGCTTCCTTGCCCT	0.582																																																0													102	80	88					2																	85604502		2203	4300	6503	SO:0001583	missense	84173			AF258573	CCDS1973.1, CCDS46352.1	2p11.2	2014-01-28	2008-08-14	2008-08-14	ENSG00000115459	ENSG00000115459		"RNA binding motif (RRM) containing"	26158	protein-coding gene	gene with protein product		615427	"RNA binding motif protein 29", "RNA binding motif and ELMO/CED-12 domain 1", "deafness, autosomal recessive 88"	RBM29, RBED1, DFNB88		24039609	Standard	NM_032213		Approved	FLJ21977	uc010ysn.2	Q96FG2	OTTHUMG00000130170	ENST00000409890.2:c.643T>C	2.37:g.85604502T>C	ENSP00000386304:p.Phe215Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B8ZZD6|D6W5K4|Q2M1K3|Q2XSU3|Q2XSU4|Q8NAC1|Q8TCK4|Q8WV70|Q8WY75|Q9H6Q8	Missense_Mutation	SNP	ENST00000409890.2	37	CCDS46352.1	.	.	.	.	.	.	.	.	.	.	T	19.81	3.895893	0.72639	.	.	ENSG00000115459	ENST00000409013;ENST00000409890;ENST00000409344;ENST00000393852;ENST00000428955;ENST00000315658	T;T;T;T;T;T	0.26223	1.75;1.75;1.75;1.75;1.75;1.75	5.76	5.76	0.90799	Engulfment/cell motility, ELMO (2);	0.051461	0.85682	D	0.000000	T	0.18130	0.0435	N	0.20483	0.58	0.47214	D	0.999357	P;B	0.40619	0.724;0.143	B;B	0.43155	0.41;0.134	T	0.07693	-1.0759	10	0.23302	T	0.38	-32.5968	8.55	0.33447	0.0:0.0852:0.0:0.9148	.	215;215	Q96FG2-6;Q96FG2	.;ELMD3_HUMAN	L	215	ENSP00000387139:F215L;ENSP00000386304:F215L;ENSP00000386248:F215L;ENSP00000377434:F215L;ENSP00000412692:F215L;ENSP00000318264:F215L	ENSP00000318264:F215L	F	+	1	0	ELMOD3	85458013	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	4.129000	0.57957	2.207000	0.71202	0.533000	0.62120	TTC		0.582	ELMOD3-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329124.1	NM_032213		C	85604502	T	C	85604502	3	2	650	1	0	0	0	0	1	0	0	0	5072	1609	56	3	673	3	ELMOD3	2	85604502	Missense_Mutation	SNP	T	TCGA-KM-8442-01A-11D-2310-10		85604502	157594871	10	40254										
KDM3A	55818	ucsc.edu;mdanderson.org	37	chr2	86693720	86693720	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	tctgttccacaagcattgacTggccttcctaaggagtgctt	9	11	1	1			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr2:86693720T>G	ENST00000409556.1	+	11	1598	c.1233T>G	c.(1231-1233)acT>acG	p.T411T	KDM3A_ENST00000542128.1_Silent_p.T359T|KDM3A_ENST00000409064.1_Silent_p.T411T|KDM3A_ENST00000312912.5_Silent_p.T411T			Q9Y4C1	KDM3A_HUMAN	lysine (K)-specific demethylase 3A	411					androgen receptor signaling pathway (GO:0030521)|formaldehyde biosynthetic process (GO:0046293)|histone H3-K9 demethylation (GO:0033169)|histone H3-K9 dimethylation (GO:0036123)|hormone-mediated signaling pathway (GO:0009755)|negative regulation of histone H3-K9 methylation (GO:0051573)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|spermatid nucleus elongation (GO:0007290)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|core promoter binding (GO:0001047)|dioxygenase activity (GO:0051213)|iron ion binding (GO:0005506)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region sequence-specific DNA binding (GO:0000976)			NS(1)|breast(3)|central_nervous_system(2)|endometrium(5)|kidney(5)|large_intestine(7)|liver(1)|lung(13)|ovary(1)|prostate(3)|skin(1)|stomach(3)|upper_aerodigestive_tract(2)	47						AAGCATTGACTGGCCTTCCTA	0.453																																					NSCLC(96;1150 1523 6936 46253 49736)											0													161	148	152					2																	86693720		2203	4300	6503	SO:0001819	synonymous_variant	55818			AB018285	CCDS1990.1	2p11.2	2011-07-01	2009-04-06	2009-04-06	ENSG00000115548	ENSG00000115548		"Chromatin-modifying enzymes / K-demethylases"	20815	protein-coding gene	gene with protein product	"jumonji C domain-containing histone demethylase 2A"	611512	"jumonji domain containing 1", "jumonji domain containing 1A"	JMJD1, JMJD1A		9872452	Standard	NM_018433		Approved	TSGA, KIAA0742, JHMD2A	uc010ytj.2	Q9Y4C1	OTTHUMG00000130204	ENST00000409556.1:c.1233T>G	2.37:g.86693720T>G		Somatic		WXS	Illumina HiSeq	Phase_I	D6W5M3|Q53S72|Q68D47|Q68UT9|Q6N050|Q8IY08	Silent	SNP	ENST00000409556.1	37	CCDS1990.1																																																																																				0.453	KDM3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252522.2	NM_018433		G	86693720	T	G	86693720	2	3	650	1	0	0	0	0	0	0	0	1	8133	1567	55	5		5	KDM3A	2	86693720	Silent	SNP	T	TCGA-KM-8442-01A-11D-2310-10	1089218	86693720	156505653	11	40255										
RGPD2	729857	mdanderson.org	37	chr2	88125234	88125234	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	aggtaccgctccccgtaggcTttgctgcgcctcatcgcacc	10	17	1	0	rs550032815	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr2:88125234T>C	ENST00000398146.3	-	1	237	c.15A>G	c.(13-15)aaA>aaG	p.K5K	RGPD2_ENST00000420840.2_Intron|RGPD2_ENST00000327544.6_5'UTR			P0DJD1	RGPD2_HUMAN	RANBP2-like and GRIP domain containing 2	5					protein targeting to Golgi (GO:0000042)					breast(1)|pancreas(1)	2						CCCCGTAGGCTTTGCTGCGCC	0.667													.|||	4	0.000798722	0.0	0.0	5008	,	,		10105	0.0		0.002	False		,,,				2504	0.002															0													36	56	50					2																	88125234		692	1591	2283	SO:0001819	synonymous_variant	729857				CCDS42710.1, CCDS42710.2	2p11.2	2013-01-10			ENSG00000185304	ENSG00000185304		"Tetratricopeptide (TTC) repeat domain containing"	32415	protein-coding gene	gene with protein product		612705				15710750, 15815621	Standard	NM_001078170		Approved	RGP2, RANBP2L2		P0DJD1	OTTHUMG00000153276	ENST00000398146.3:c.15A>G	2.37:g.88125234T>C		Somatic		WXS	Illumina HiSeq	Phase_I	P0C839|Q68DN6|Q6V1X0	Silent	SNP	ENST00000398146.3	37	CCDS42710.2																																																																																				0.667	RGPD2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000330534.2	NM_001078170		C	88125234	T	C	88125234	2	2	650	1	0	0	0	0	0	0	0	1	13299	1606	56	3		3	RGPD2	2	88125234	Silent	SNP	T	TCGA-KM-8442-01A-11D-2310-10	1431514	88125234	155074139	12	40256										
SNRNP200	23020	broad.mit.edu;bcgsc.ca	37	chr2	96953605	96953605	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ctcactgggtccttacatgcGtttgtcgatcatcttgcaga	9	11	3	1			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr2:96953605G>A	ENST00000323853.5	-	25	3438	c.3361C>T	c.(3361-3363)Cgc>Tgc	p.R1121C	SNRNP200_ENST00000349783.5_Intron	NM_014014.4	NP_054733.2	O75643	U520_HUMAN	small nuclear ribonucleoprotein 200kDa (U5)	1121	SEC63 1.				ATP catabolic process (GO:0006200)|cis assembly of pre-catalytic spliceosome (GO:0000354)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|osteoblast differentiation (GO:0001649)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)|U5 snRNP (GO:0005682)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|ATP-dependent RNA helicase activity (GO:0004004)|identical protein binding (GO:0042802)|poly(A) RNA binding (GO:0044822)			breast(3)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(18)|lung(37)|ovary(7)|prostate(4)|skin(5)|stomach(1)|urinary_tract(1)	90						CCTTACATGCGTTTGTCGATC	0.547																																																0													163	140	148					2																	96953605		2203	4300	6503	SO:0001583	missense	23020			AL831994	CCDS2020.1	2q11.2	2013-05-13	2008-10-29	2008-10-29	ENSG00000144028	ENSG00000144028			30859	protein-coding gene	gene with protein product	"U5 snRNP specific protein, 200 KD"	601664	"activating signal cointegrator 1 complex subunit 3-like 1", "retinitis pigmentosa 33 (autosomal dominant)"	ASCC3L1, RP33		9872452, 8670905, 9774689, 9539711, 16612614, 19878916	Standard	NM_014014		Approved	U5-200KD, HELIC2, KIAA0788, BRR2	uc002svu.3	O75643	OTTHUMG00000130455	ENST00000323853.5:c.3361C>T	2.37:g.96953605G>A	ENSP00000317123:p.Arg1121Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O94884|Q6NZY0|Q6PX59|Q8NBE6|Q96IF2|Q9H7S0	Missense_Mutation	SNP	ENST00000323853.5	37	CCDS2020.1	.	.	.	.	.	.	.	.	.	.	G	21.7	4.192973	0.78902	.	.	ENSG00000144028	ENST00000323853	T	0.65732	-0.17	5.3	5.3	0.74995	Sec63 domain (3);	0.000000	0.85682	D	0.000000	D	0.85155	0.5632	H	0.96861	3.895	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	D	0.88996	0.3418	10	0.87932	D	0	.	12.8995	0.58117	0.0:0.0:0.8373:0.1627	.	1121	O75643	U520_HUMAN	C	1121	ENSP00000317123:R1121C	ENSP00000317123:R1121C	R	-	1	0	SNRNP200	96317332	1.000000	0.71417	0.997000	0.53966	0.995000	0.86356	3.817000	0.55668	2.755000	0.94549	0.561000	0.74099	CGC		0.547	SNRNP200-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252846.2	NM_014014		A	96953605	G	A	96953605	3	1	650	1	0	0	0	0	1	0	0	0	14865	1145	40	1	3133	1	SNRNP200	2	96953605	Missense_Mutation	SNP	G	TCGA-KM-8442-01A-11D-2310-10	8828371	96953605	146245768	13	40257										
POTEE	445582	mdanderson.org	37	chr2	132021629	132021629	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	cacactgtgcccatctatgaGgggaatgccctcccccatgc	9	16	1	1	rs7424029		TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr2:132021629G>T	ENST00000356920.5	+	15	2695	c.2601G>T	c.(2599-2601)gaG>gaT	p.E867D	PLEKHB2_ENST00000404460.1_Intron|PLEKHB2_ENST00000303908.3_Intron|POTEE_ENST00000358087.5_3'UTR	NM_001083538.1	NP_001077007.1	Q6S8J3	POTEE_HUMAN	POTE ankyrin domain family, member E	867	Actin-like.				retina homeostasis (GO:0001895)|substantia nigra development (GO:0021762)	blood microparticle (GO:0072562)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)											CCATCTATGAGGGGAATGCCC	0.617																																																0													33	34	34					2																	132021629		2168	4216	6384	SO:0001583	missense	445582			AY462868	CCDS46414.1	2q21.1	2014-04-10	2008-11-26	2008-11-26	ENSG00000188219	ENSG00000188219		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33895	protein-coding gene	gene with protein product	"cancer/testis antigen family 104, member 2"	608914	"ANKRD26-like family C, member 1A"	A26C1A			Standard	NM_001083538		Approved	POTE2, POTE-2, A26C1, POTE2gamma, CT104.2	uc002tsn.2	Q6S8J3	OTTHUMG00000186974	ENST00000356920.5:c.2601G>T	2.37:g.132021629G>T	ENSP00000439189:p.Glu867Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6S8J4|Q6S8J5|Q6S8J8	Missense_Mutation	SNP	ENST00000356920.5	37	CCDS46414.1	.	.	.	.	.	.	.	.	.	.	.	7.447	0.641908	0.14451	.	.	ENSG00000188219	ENST00000356920	D	0.94497	-3.44	.	.	.	.	.	.	.	.	D	0.91764	0.7395	M	0.79805	2.47	0.80722	D	1	B	0.02656	0.0	B	0.04013	0.001	D	0.84711	0.0734	8	0.48119	T	0.1	.	2.6649	0.05041	0.4877:0.0:0.5123:0.0	rs7424029	867	Q6S8J3	POTEE_HUMAN	D	867	ENSP00000439189:E867D	ENSP00000439189:E867D	E	+	3	2	AC131180.1	131738099	1.000000	0.71417	0.130000	0.21974	0.132000	0.20833	2.624000	0.46444	0.119000	0.18210	0.121000	0.15741	GAG		0.617	POTEE-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001083538		T	132021629	G	T	132021629	3	4	650	1	0	0	0	0	1	0	0	0	12271	991	35	4	2659	4	POTEE	2	132021629	Missense_Mutation	SNP	G	TCGA-KM-8442-01A-11D-2310-10	35068024	132021629	111177744	14	40258										
SPEG	10290	mdanderson.org	37	chr2	220350135	220350135	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	cggaaggacaaggggttatcGccaccaaacctctctgccag	11	13	1	0			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr2:220350135G>T	ENST00000312358.7	+	31	7809	c.7677G>T	c.(7675-7677)tcG>tcT	p.S2559S	SPEG_ENST00000485813.1_3'UTR|AC053503.11_ENST00000429882.1_RNA	NM_005876.4	NP_005867.3	Q15772	SPEG_HUMAN	SPEG complex locus	2559					cardiac muscle cell development (GO:0055013)|in utero embryonic development (GO:0001701)|muscle organ development (GO:0007517)|negative regulation of cell proliferation (GO:0008285)|respiratory system development (GO:0060541)	nucleus (GO:0005634)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|central_nervous_system(3)|endometrium(10)|kidney(2)|large_intestine(9)|lung(42)|ovary(5)|pancreas(1)|prostate(8)|skin(1)|stomach(9)|upper_aerodigestive_tract(4)|urinary_tract(4)	100		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		AGGGGTTATCGCCACCAAACC	0.617																																																0													56	63	61					2																	220350135		2123	4220	6343	SO:0001819	synonymous_variant	10290			BC006346	CCDS42824.1, CCDS54432.1	2q35	2013-01-11	2006-04-27	2006-04-27	ENSG00000072195	ENSG00000072195		"Immunoglobulin superfamily / I-set domain containing"	16901	protein-coding gene	gene with protein product		615950	"aortic preferentially expressed gene 1"	APEG1		8663449, 10973969	Standard	NM_005876		Approved	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG	uc010fwg.3	Q15772	OTTHUMG00000058925	ENST00000312358.7:c.7677G>T	2.37:g.220350135G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0G6|A8MRU0|Q27J74|Q695L1|Q6FGA6|Q6ZQW1|Q6ZTL8|Q9P2P9	Silent	SNP	ENST00000312358.7	37	CCDS42824.1																																																																																				0.617	SPEG-004	NOVEL	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130252.2	NM_005876		T	220350135	G	T	220350135	2	4	650	1	0	0	0	0	0	0	0	1	15048	1074	38	4		4	SPEG	2	220350135	Silent	SNP	G	TCGA-KM-8442-01A-11D-2310-10	88328506	220350135	22849238	15	40259										
PRR21	643905	mdanderson.org	37	chr2	240982080	240982080	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	cgtgggtgaagaggcatggaCgaagggccgtgggtgaagag	21	5	0	4	rs143810849	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr2:240982080C>G	ENST00000408934.1	-	1	319	c.320G>C	c.(319-321)cGt>cCt	p.R107P		NM_001080835.1	NP_001074304.1	Q8WXC7	PRR21_HUMAN	proline rich 21	107	Pro-rich.							p.R107P(2)		NS(1)|breast(1)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(3)|lung(7)|ovary(2)|prostate(5)|skin(3)|stomach(2)|upper_aerodigestive_tract(2)	29						GAGGCATGGACGAAGGGCCGT	0.617													-|||	1250	0.249601	0.2201	0.2608	5008	,	,		21906	0.3284		0.2913	False		,,,				2504	0.1575															2	Substitution - Missense(2)	prostate(2)											32	33	33					2																	240982080		2124	4240	6364	SO:0001583	missense	643905			AF453950	CCDS33417.1	2q37.3	2009-04-20			ENSG00000221961	ENSG00000221961			33866	protein-coding gene	gene with protein product							Standard	NM_001080835		Approved		uc010zod.2	Q8WXC7	OTTHUMG00000159174	ENST00000408934.1:c.320G>C	2.37:g.240982080C>G	ENSP00000386166:p.Arg107Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000408934.1	37	CCDS33417.1	.	.	.	.	.	.	.	.	.	.	-	2.575	-0.298847	0.05532	.	.	ENSG00000221961	ENST00000408934;ENST00000486799	T;T	0.13657	2.57;2.57	1.79	-3.59	0.04583	.	.	.	.	.	T	0.05318	0.0141	N	0.08118	0	0.09310	N	1	B	0.15141	0.012	B	0.01281	0.0	T	0.39121	-0.9629	9	0.26408	T	0.33	.	5.3415	0.15986	0.0:0.5523:0.1504:0.2974	.	107	Q8WXC7	PRR21_HUMAN	P	107	ENSP00000386166:R107P;ENSP00000418240:R107P	ENSP00000386166:R107P	R	-	2	0	PRR21	240630753	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-5.287000	0.00134	-1.262000	0.02459	-1.689000	0.00729	CGT		0.617	PRR21-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001080835		G	240982080	C	G	240982080	3	3	650	1	0	0	0	0	1	0	0	0	12602	536	19	4	852	4	PRR21	2	240982080	Missense_Mutation	SNP	C	TCGA-KM-8442-01A-11D-2310-10	20631945	240982080	2217293	16	40260										
ANO10	55129	broad.mit.edu	37	chr3	43607195	43607195	+	Frame_Shift_Del	DEL	A	A	-													0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	aaaggcaatatagaagagtgAggcaaagcaattgaggaagt							TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr3:43607195delA	ENST00000292246.3	-	8	1413	c.1243delT	c.(1243-1245)tcafs	p.S415fs	ANO10_ENST00000350459.4_Frame_Shift_Del_p.S225fs|ANO10_ENST00000451430.2_Frame_Shift_Del_p.S304fs|ANO10_ENST00000414522.2_Frame_Shift_Del_p.S415fs|ANO10_ENST00000396091.3_Frame_Shift_Del_p.S349fs	NM_018075.3	NP_060545.3	Q9NW15	ANO10_HUMAN	anoctamin 10	415					cation transmembrane transport (GO:0098655)|cation transport (GO:0006812)|cell death (GO:0008219)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|intracellular (GO:0005622)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium activated cation channel activity (GO:0005227)|intracellular calcium activated chloride channel activity (GO:0005229)			NS(1)|breast(1)|endometrium(4)|kidney(2)|large_intestine(3)|lung(9)|ovary(3)|prostate(3)|skin(3)	29						TAGAAGAGTGAGGCAAAGCAA	0.333																																																0													41	39	40					3																	43607195		2200	4293	6493	SO:0001589	frameshift_variant	55129			AL832508	CCDS2710.2, CCDS56247.1, CCDS56248.1, CCDS56249.1, CCDS56250.1	3p22.1-p21.33	2014-04-09	2008-08-28	2008-08-28	ENSG00000160746	ENSG00000160746		"Ion channels / Chloride channels : Calcium activated : Anoctamins"	25519	protein-coding gene	gene with protein product		613726	"transmembrane protein 16K"	TMEM16K		12477932, 24692353	Standard	NM_001204831		Approved	FLJ10375, MGC47890, SCAR10	uc003cmv.3	Q9NW15	OTTHUMG00000133044	ENST00000292246.3:c.1243delT	3.37:g.43607195delA	ENSP00000292246:p.Ser415fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8K3|A8MV74|B3KTZ1|B3KY93|B4DJ83|B4DNK2|B7WP12|C9JHS1|Q8IXX9	Frame_Shift_Del	DEL	ENST00000292246.3	37	CCDS2710.2																																																																																				0.333	ANO10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256649.2	NM_018075		-	43607195	A	-	43607195	7	5	650	1	0	1	0	1	0	0	0	0	696	304	11	0	763	0	ANO10	3	43607195	Frame_Shift_Del	DEL	A	TCGA-KM-8442-01A-11D-2310-10		43607195	154415235	17	40261										
FLNB	2317	broad.mit.edu	37	chr3	58067357	58067357	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	caccatgtcattatcctaggTcatcactcctgaagaaatca	5	12	4	2			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr3:58067357T>C	ENST00000295956.4	+	4	806	c.641T>C	c.(640-642)gTc>gCc	p.V214A	FLNB_ENST00000358537.3_Splice_Site_p.V214A|FLNB_ENST00000357272.4_Splice_Site_p.V214A|FLNB_ENST00000348383.5_Splice_Site_p.V214A|FLNB_ENST00000490882.1_Splice_Site_p.V214A|FLNB_ENST00000429972.2_Splice_Site_p.V214A|FLNB_ENST00000493452.1_Splice_Site_p.V45A|FLNB_ENST00000419752.2_Splice_Site_p.V45A	NM_001457.3	NP_001448.2	O75369	FLNB_HUMAN	filamin B, beta	214	Actin-binding.|CH 2. {ECO:0000255|PROSITE- ProRule:PRU00044}.				actin cytoskeleton organization (GO:0030036)|cell differentiation (GO:0030154)|cytokine-mediated signaling pathway (GO:0019221)|cytoskeletal anchoring at plasma membrane (GO:0007016)|signal transduction (GO:0007165)|skeletal muscle tissue development (GO:0007519)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|stress fiber (GO:0001725)	actin binding (GO:0003779)|identical protein binding (GO:0042802)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(13)|central_nervous_system(2)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(23)|liver(2)|lung(38)|ovary(6)|prostate(3)|skin(8)|upper_aerodigestive_tract(3)|urinary_tract(5)	120				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		TTATCCTAGGTCATCACTCCT	0.458																																																0													136	129	131					3																	58067357		2203	4300	6503	SO:0001630	splice_region_variant	2317			AF043045	CCDS2885.1, CCDS54599.1, CCDS54600.1, CCDS54601.1	3p14.3	2011-02-11	2009-07-23		ENSG00000136068	ENSG00000136068			3755	protein-coding gene	gene with protein product	"actin binding protein 278"	603381	"filamin B, beta (actin binding protein 278)", "Larsen syndrome 1 (autosomal dominant)"	FLN1L, LRS1		8327473, 10449914, 14991055, 16801345	Standard	NM_001457		Approved	TAP, TABP, ABP-278, FH1	uc010hne.2	O75369	OTTHUMG00000159158	ENST00000295956.4:c.640-1T>C	3.37:g.58067357T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2ZZ83|B2ZZ84|B2ZZ85|C9JKE6|C9JMC4|Q13706|Q59EC2|Q60FE7|Q6MZJ1|Q8WXS9|Q8WXT0|Q8WXT1|Q8WXT2|Q8WXT3|Q9NRB5|Q9NT26|Q9UEV9	Missense_Mutation	SNP	ENST00000295956.4	37	CCDS2885.1	.	.	.	.	.	.	.	.	.	.	T	33	5.207103	0.95033	.	.	ENSG00000136068	ENST00000295956;ENST00000490882;ENST00000358537;ENST00000429972;ENST00000348383;ENST00000357272;ENST00000493452;ENST00000419752	D;D;D;D;D;D;D;D	0.95482	-3.72;-3.72;-3.72;-3.72;-3.72;-3.72;-3.72;-3.72	5.86	5.86	0.93980	Calponin homology domain (5);	0.051658	0.85682	D	0.000000	D	0.98015	0.9346	M	0.88105	2.93	0.80722	D	1	P;D;P;P;P;P	0.69078	0.918;0.997;0.667;0.936;0.934;0.934	P;D;B;P;P;P	0.77004	0.703;0.989;0.24;0.72;0.804;0.804	D	0.98914	1.0781	10	0.87932	D	0	.	16.5602	0.84551	0.0:0.0:0.0:1.0	.	214;214;45;45;214;214	O75369-2;B2ZZ83;E7EN95;O75369-7;Q60FE7;O75369	.;.;.;.;.;FLNB_HUMAN	A	214;214;214;214;214;214;45;45	ENSP00000295956:V214A;ENSP00000420213:V214A;ENSP00000351339:V214A;ENSP00000415599:V214A;ENSP00000232447:V214A;ENSP00000349819:V214A;ENSP00000418510:V45A;ENSP00000414532:V45A	ENSP00000295956:V214A	V	+	2	0	FLNB	58042397	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	7.954000	0.87848	2.367000	0.80283	0.528000	0.53228	GTC		0.458	FLNB-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000353569.1	NM_001457	Missense_Mutation	C	58067357	T	C	58067357	5	2	650	1	0	0	0	0	0	0	1	0	5941	1681	58	3	655	3	FLNB	3	58067357	Splice_Site	SNP	T	TCGA-KM-8442-01A-11D-2310-10	14460162	58067357	139955073	18	40262										
CRIPAK	285464	mdanderson.org	37	chr4	1389161	1389161	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gctcacatgtgccgatgtggAgtgcccgcctgctcacacgt	12	14	2	0	rs71614973	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr4:1389161A>G	ENST00000324803.4	+	1	3822	c.862A>G	c.(862-864)Agt>Ggt	p.S288G		NM_175918.3	NP_787114.2	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	288					negative regulation of intracellular estrogen receptor signaling pathway (GO:0033147)|negative regulation of protein kinase activity (GO:0006469)|regulation of cytoskeleton organization (GO:0051493)|response to estrogen (GO:0043627)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				NS(3)|breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(11)|ovary(1)|pancreas(2)|prostate(6)|skin(4)|urinary_tract(1)	35			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			GCCGATGTGGAGTGCCCGCCT	0.687													A|||	1051	0.209864	0.1362	0.2983	5008	,	,		13955	0.0536		0.3748	False		,,,				2504	0.2382															0													127	128	128					4																	1389161		2202	4298	6500	SO:0001583	missense	285464			AK096209	CCDS3349.1	4p16.3	2011-02-10	2006-09-04		ENSG00000179979	ENSG00000179979			26619	protein-coding gene	gene with protein product		610203	"cysteine-rich PAK1inhibitor"			16278681	Standard	NM_175918		Approved	FLJ34443	uc003gdf.2	Q8N1N5	OTTHUMG00000121131	ENST00000324803.4:c.862A>G	4.37:g.1389161A>G	ENSP00000323978:p.Ser288Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NB03	Missense_Mutation	SNP	ENST00000324803.4	37	CCDS3349.1	.	.	.	.	.	.	.	.	.	.	A	1.586	-0.530434	0.04112	.	.	ENSG00000179979	ENST00000324803;ENST00000382944	T	0.21734	1.99	0.815	-1.63	0.08345	.	.	.	.	.	T	0.06917	0.0176	N	0.08118	0	0.80722	P	0.0	B	0.10296	0.003	B	0.04013	0.001	T	0.39761	-0.9598	8	0.07175	T	0.84	.	2.8991	0.05700	0.2283:0.0:0.4427:0.329	.	288	Q8N1N5	CRPAK_HUMAN	G	288;230	ENSP00000323978:S288G	ENSP00000323978:S288G	S	+	1	0	CRIPAK	1379161	0.046000	0.20272	0.000000	0.03702	0.001000	0.01503	-1.350000	0.02624	-1.564000	0.01678	-0.530000	0.04314	AGT		0.687	CRIPAK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241607.2	NM_175918		G	1389161	A	G	1389161	3	3	650	1	0	0	0	0	1	0	0	0	3879	304	11	3	864	3	CRIPAK	4	1389161	Missense_Mutation	SNP	A	TCGA-KM-8442-01A-11D-2310-10		1389161	189765115	19	40263										
CYP4V2	285440	mdanderson.org	37	chr4	187113041	187113041	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	tgtggggcgcggcgagtgccCtttccctggccggcgccagt	17	14	0	0	rs1055138	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr4:187113041C>G	ENST00000378802.4	+	1	368	c.64C>G	c.(64-66)Ctt>Gtt	p.L22V	AC110771.1_ENST00000596414.1_5'Flank	NM_207352.3	NP_997235.3	Q6ZWL3	CP4V2_HUMAN	cytochrome P450, family 4, subfamily V, polypeptide 2	22			L -> V (in dbSNP:rs1055138). {ECO:0000269|Ref.3}.		fatty acid omega-oxidation (GO:0010430)|response to stimulus (GO:0050896)|visual perception (GO:0007601)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen (GO:0016705)			breast(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(9)|skin(1)|stomach(2)	20		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.33e-10)|BRCA - Breast invasive adenocarcinoma(30;3.84e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000293)|LUSC - Lung squamous cell carcinoma(40;0.00242)|READ - Rectum adenocarcinoma(43;0.17)		GGCGAGTGCCCTTTCCCTGGC	0.731													G|||	2052	0.409744	0.4327	0.438	5008	,	,		10614	0.2748		0.5239	False		,,,				2504	0.3804															0								G	VAL/LEU	1786,2542		418,950,796	14	15	15		64	0.7	0	4	dbSNP_86	15	4174,4354		1064,2046,1154	yes	missense	CYP4V2	NM_207352.3	32	1482,2996,1950	GG,GC,CC		48.9447,41.2662,46.3597	possibly-damaging	22/526	187113041	5960,6896	2164	4264	6428	SO:0001583	missense	285440			AK022114	CCDS34119.1	4q35.2	2004-07-05			ENSG00000145476	ENSG00000145476		"Cytochrome P450s"	23198	protein-coding gene	gene with protein product		608614				15042513	Standard	NM_207352		Approved	CYP4AH1	uc003iyw.4	Q6ZWL3	OTTHUMG00000160379	ENST00000378802.4:c.64C>G	4.37:g.187113041C>G	ENSP00000368079:p.Leu22Val	Somatic		WXS	Illumina HiSeq	Phase_I	B7U6W2|Q6ZTM4	Missense_Mutation	SNP	ENST00000378802.4	37	CCDS34119.1	958	0.43864468864468864	211	0.42886178861788615	171	0.4723756906077348	169	0.29545454545454547	407	0.5369393139841688	G	0.008	-1.922890	0.00498	0.412662	0.489447	ENSG00000145476	ENST00000378802;ENST00000274118	T	0.65916	-0.18	3.89	0.679	0.17975	.	1.335020	0.05117	N	0.489936	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.42137	-0.9469	9	0.14656	T	0.56	.	7.1201	0.25440	0.1277:0.4839:0.3883:0.0	rs1055138;rs3087670;rs3175018;rs60467258	22;22	Q6UWV9;Q6ZWL3	.;CP4V2_HUMAN	V	22	ENSP00000368079:L22V	ENSP00000274118:L22V	L	+	1	0	CYP4V2	187350035	0.000000	0.05858	0.002000	0.10522	0.024000	0.10985	-1.333000	0.02667	-0.003000	0.14444	-0.444000	0.05651	CTT		0.731	CYP4V2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360398.1	XM_209612		G	187113041	C	G	187113041	3	3	650	1	0	0	0	0	1	0	0	0	4194	681	24	4	66	4	CYP4V2	4	187113041	Missense_Mutation	SNP	C	TCGA-KM-8442-01A-11D-2310-10	185723880	187113041	4041235	20	40264										
PRDM9	56979	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr5	23521146	23521146	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ttaaagggaatgcccaaggcGtcattcagtaatgaatctag	10	7	3	1			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr5:23521146G>A	ENST00000296682.3	+	6	548	c.366G>A	c.(364-366)gcG>gcA	p.A122A		NM_020227.2	NP_064612.2	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	122					meiotic gene conversion (GO:0006311)|positive regulation of meiosis I (GO:0060903)|positive regulation of reciprocal meiotic recombination (GO:0010845)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)	histone methyltransferase activity (H3-K4 specific) (GO:0042800)|metal ion binding (GO:0046872)|recombination hotspot binding (GO:0010844)|sequence-specific DNA binding (GO:0043565)	p.A122A(1)		NS(1)|breast(1)|central_nervous_system(3)|endometrium(15)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(27)|lung(87)|ovary(6)|pancreas(2)|prostate(4)|skin(10)|upper_aerodigestive_tract(11)	172						TGCCCAAGGCGTCATTCAGTA	0.398										HNSCC(3;0.000094)																																						1	Substitution - coding silent(1)	endometrium(1)											81	77	78					5																	23521146		1874	4107	5981	SO:0001819	synonymous_variant	56979			AF275816	CCDS43307.1	5p14.2	2014-06-03			ENSG00000164256	ENSG00000164256		"-", "Zinc fingers, C2H2-type"	13994	protein-coding gene	gene with protein product	"PR-domain containing protein 9"	609760	"minisatellite binding protein 3, 115kDa", "minisatellite binding protein 3 (115kD)"	MSBP3		10668202, 2062643, 24634223	Standard	NM_020227		Approved	PFM6, ZNF899	uc003jgo.3	Q9NQV7	OTTHUMG00000161918	ENST00000296682.3:c.366G>A	5.37:g.23521146G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DX22|Q27Q50	Silent	SNP	ENST00000296682.3	37	CCDS43307.1																																																																																				0.398	PRDM9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366375.1	NM_020227		A	23521146	G	A	23521146	2	1	650	1	0	0	0	0	0	0	0	1	12473	1132	40	1		1	PRDM9	5	23521146	Silent	SNP	G	TCGA-KM-8442-01A-11D-2310-10		23521146	157394114	21	40265										
ELOVL7	79993	ucsc.edu	37	chr5	60067915	60067915	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gaggagccaatcttcaactcTtggatctaagagaaaaacaa	8	8	4	1			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr5:60067915T>C	ENST00000508821.1	-	4	384	c.70A>G	c.(70-72)Aga>Gga	p.R24G	ELOVL7_ENST00000505959.1_Missense_Mutation_p.R11G|ELOVL7_ENST00000425382.1_Missense_Mutation_p.R24G|ELOVL7_ENST00000438340.1_Missense_Mutation_p.R24G	NM_024930.2	NP_079206.2	A1L3X0	ELOV7_HUMAN	ELOVL fatty acid elongase 7	24					cellular lipid metabolic process (GO:0044255)|fatty acid elongation, polyunsaturated fatty acid (GO:0034626)|fatty acid elongation, saturated fatty acid (GO:0019367)|long-chain fatty-acyl-CoA biosynthetic process (GO:0035338)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)|very long-chain fatty acid biosynthetic process (GO:0042761)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	transferase activity (GO:0016740)			endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|skin(1)|urinary_tract(1)	9		Lung NSC(810;2.56e-06)|Prostate(74;0.0115)|Breast(144;0.0244)|Ovarian(174;0.0481)				TCTTCAACTCTTGGATCTAAG	0.443																																																0													41	38	39					5																	60067915		2203	4300	6503	SO:0001583	missense	79993			AK027216	CCDS34164.1	5q12	2011-05-25	2011-05-25			ENSG00000164181			26292	protein-coding gene	gene with protein product		614451	"ELOVL family member 7, elongation of long chain fatty acids (yeast)"			19826053	Standard	NM_024930		Approved	FLJ23563	uc010iwk.3	A1L3X0		ENST00000508821.1:c.70A>G	5.37:g.60067915T>C	ENSP00000424123:p.Arg24Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q589T3|Q9H5D0|Q9NT66	Missense_Mutation	SNP	ENST00000508821.1	37	CCDS34164.1	.	.	.	.	.	.	.	.	.	.	T	17.78	3.473027	0.63737	.	.	ENSG00000164181	ENST00000508821;ENST00000438340;ENST00000425382;ENST00000505959;ENST00000507047;ENST00000511799	T;T;T;T	0.26957	1.74;1.74;1.74;1.7	5.73	3.11	0.35812	.	0.000000	0.85682	D	0.000000	T	0.60274	0.2256	H	0.94345	3.525	0.54753	D	0.999982	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.72253	-0.4347	10	0.87932	D	0	-17.6806	12.9079	0.58162	0.0:0.0:0.3725:0.6275	.	11;24	D6RHD0;A1L3X0	.;ELOV7_HUMAN	G	24;24;24;11;24;24	ENSP00000424123:R24G;ENSP00000411255:R24G;ENSP00000402634:R24G;ENSP00000421043:R11G	ENSP00000402634:R24G	R	-	1	2	ELOVL7	60103672	0.988000	0.35896	0.994000	0.49952	0.997000	0.91878	1.989000	0.40707	1.062000	0.40625	0.454000	0.30748	AGA		0.443	ELOVL7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368195.1			C	60067915	T	C	60067915	3	2	650	1	0	0	0	0	1	0	0	0	5081	1617	56	3	799	3	ELOVL7	5	60067915	Missense_Mutation	SNP	T	TCGA-KM-8442-01A-11D-2310-10	36546769	60067915	120847345	22	40266										
NEDD9	4739	broad.mit.edu;mdanderson.org	37	chr6	11185614	11185614	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gcagtcacctgccgtgtcagCgtgtctccaatgaacaccag	10	14	3	1			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr6:11185614C>T	ENST00000379446.5	-	7	2452	c.2286G>A	c.(2284-2286)acG>acA	p.T762T	NEDD9_ENST00000504387.1_Silent_p.T762T|RP3-510L9.1_ENST00000500636.2_RNA	NM_001271033.1|NM_006403.3	NP_001257962.1|NP_006394.1	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally down-regulated 9	762					actin filament bundle assembly (GO:0051017)|cell adhesion (GO:0007155)|cytoskeleton organization (GO:0007010)|integrin-mediated signaling pathway (GO:0007229)|mitotic nuclear division (GO:0007067)|regulation of growth (GO:0040008)|signal transduction (GO:0007165)	cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|spindle (GO:0005819)|spindle pole (GO:0000922)				endometrium(3)|kidney(2)|large_intestine(8)|liver(1)|lung(9)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	26	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			GCCGTGTCAGCGTGTCTCCAA	0.537																																																0													189	156	167					6																	11185614		2203	4300	6503	SO:0001819	synonymous_variant	4739			L43821	CCDS4520.1, CCDS34340.1, CCDS47373.1, CCDS75400.1	6p25-p24	2011-04-13			ENSG00000111859	ENSG00000111859		"Cas scaffolding proteins"	7733	protein-coding gene	gene with protein product	"Cas scaffolding protein family member 2", "Cas-like"	602265					Standard	NM_182966		Approved	HEF1, CAS-L, CASS2	uc003mzv.2	Q14511	OTTHUMG00000014255	ENST00000379446.5:c.2286G>A	6.37:g.11185614C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K9G7|A8MSJ9|G5E9Y9|Q5T9R4|Q5XKI0	Silent	SNP	ENST00000379446.5	37	CCDS4520.1																																																																																				0.537	NEDD9-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000039853.2	NM_006403		T	11185614	C	T	11185614	2	4	650	1	0	0	0	0	0	0	0	1	10320	755	27	1		1	NEDD9	6	11185614	Silent	SNP	C	TCGA-KM-8442-01A-11D-2310-10		11185614	159929453	23	40267										
HLA-DQA2	3118	mdanderson.org	37	chr6	32709265	32709266	+	Missense_Mutation	DNP	TG	TG	CA													0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ctgggggccctcgccctgacTgccgtgatgagcccctgtgg					rs201984640|rs200986700	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr6:32709265_32709266TG>CA	ENST00000374940.3	+	1	147_148	c.45_46TG>CA	c.(43-48)acTGcc>acCAcc	p.A16T		NM_020056.4	NP_064440.1	P01906	DQA2_HUMAN	major histocompatibility complex, class II, DQ alpha 2	16					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|immune response (GO:0006955)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|endosome (GO:0005768)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)	MHC class II receptor activity (GO:0032395)			endometrium(2)|large_intestine(3)|lung(7)|skin(1)	13					"""Insulin(DB00071)"	TCGCCCTGACTGCCGTGATGAG	0.505																																																0																																										SO:0001583	missense	3118				CCDS4753.1	6p21.3	2013-01-11			ENSG00000237541	ENSG00000237541		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4943	protein-coding gene	gene with protein product		613503		HLA-DXA			Standard	NM_020056		Approved		uc003obx.3	P01906	OTTHUMG00000031108	Exception_encountered	6.37:g.32709265_32709266delinsCA	ENSP00000364076:p.Ala16Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A2BF37|B0V0E7|O19789|Q5SQ94|Q5SR04	Missense_Mutation	DNP	ENST00000374940.3	37	CCDS4753.1																																																																																				0.505	HLA-DQA2-001	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076179.2	NM_020056		CA	32709266	TG	CA	32709265	3	2	650	1	0	0	0	0	1	0	0	0	7212	1567	55	3	47	3	HLA-DQA2	6	32709265	Missense_Mutation	DNP	TG	TCGA-KM-8442-01A-11D-2310-10	21523651	32709265	138405802	24	40268										
TTBK1	84630	mdanderson.org	37	chr6	43252029	43252029	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ccatggcgcggccccagcatTggacacagccatcaccagca	10	17	1	0	rs3800298	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr6:43252029T>C	ENST00000259750.4	+	14	3634	c.3551T>C	c.(3550-3552)tTg>tCg	p.L1184S		NM_032538.1	NP_115927.1	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	1184			L -> S (in dbSNP:rs3800298). {ECO:0000269|PubMed:17344846}.		substantia nigra development (GO:0021762)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(10)|liver(1)|lung(21)|ovary(3)|prostate(3)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	53			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			GCCCCAGCATTGGACACAGCC	0.682													C|||	1827	0.364816	0.5628	0.2378	5008	,	,		16925	0.3849		0.2515	False		,,,				2504	0.2832															0								C	SER/LEU	1274,1956		249,776,590	12	14	13		3551	4.8	0.2	6	dbSNP_107	13	1385,5175		125,1135,2020	yes	missense	TTBK1	NM_032538.1	145	374,1911,2610	CC,CT,TT		21.1128,39.4427,27.1604	benign	1184/1322	43252029	2659,7131	1615	3280	4895	SO:0001583	missense	84630			AB058758	CCDS34455.1	6p21.1	2008-02-05			ENSG00000146216	ENSG00000146216			19140	protein-coding gene	gene with protein product						11347906	Standard	XM_006715229		Approved	KIAA1855	uc003ouq.1	Q5TCY1	OTTHUMG00000014725	ENST00000259750.4:c.3551T>C	6.37:g.43252029T>C	ENSP00000259750:p.Leu1184Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2U5|Q2L6C6|Q6ZNH0|Q8N444|Q96JH2	Missense_Mutation	SNP	ENST00000259750.4	37	CCDS34455.1	773	0.35393772893772896	282	0.573170731707317	94	0.2596685082872928	207	0.3618881118881119	190	0.25065963060686014	C	0.003	-2.531159	0.00145	0.394427	0.211128	ENSG00000146216	ENST00000259750	T	0.51574	0.7	4.77	4.77	0.60923	.	0.586807	0.15128	N	0.278991	T	0.04724	0.0128	N	0.00621	-1.32	0.58432	P	2.9999999999752447E-6	B	0.02656	0.0	B	0.01281	0.0	T	0.34976	-0.9807	9	0.08381	T	0.77	.	7.4137	0.27032	0.0:0.808:0.0:0.192	rs3800298;rs58957853;rs3800298	1184	Q5TCY1	TTBK1_HUMAN	S	1184	ENSP00000259750:L1184S	ENSP00000259750:L1184S	L	+	2	0	TTBK1	43360007	0.001000	0.12720	0.242000	0.24170	0.258000	0.26162	1.185000	0.32065	1.258000	0.44101	-0.215000	0.12644	TTG		0.682	TTBK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040584.3			C	43252029	T	C	43252029	3	2	650	1	0	0	0	0	1	0	0	0	16688	1821	63	3	3601	3	TTBK1	6	43252029	Missense_Mutation	SNP	T	TCGA-KM-8442-01A-11D-2310-10	10542764	43252029	127863038	25	40269										
ARMC2	84071	ucsc.edu;bcgsc.ca	37	chr6	109232139	109232139	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gaatcttcttaatgtctgcaAacttatatttaaaattagca	4	6	3	0			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr6:109232139A>G	ENST00000392644.4	+	9	1229	c.1061A>G	c.(1060-1062)aAa>aGa	p.K354R	ARMC2_ENST00000368972.3_Missense_Mutation_p.K189R	NM_032131.4	NP_115507.4	Q8NEN0	ARMC2_HUMAN	armadillo repeat containing 2	354										endometrium(3)|large_intestine(8)|lung(10)|ovary(1)|prostate(1)|skin(1)	24		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)		AATGTCTGCAAACTTATATTT	0.328																																																0													41	42	42					6																	109232139		2201	4294	6495	SO:0001583	missense	84071			BC030603	CCDS5069.2, CCDS69168.1	6q21	2013-02-14			ENSG00000118690	ENSG00000118690		"Armadillo repeat containing"	23045	protein-coding gene	gene with protein product							Standard	XM_005267154		Approved	DKFZp434P0714, bA787I22.1	uc003pss.4	Q8NEN0	OTTHUMG00000015335	ENST00000392644.4:c.1061A>G	6.37:g.109232139A>G	ENSP00000376417:p.Lys354Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8Y4|B4DGF5|G5E993|Q5VVY8|Q9H0K9	Missense_Mutation	SNP	ENST00000392644.4	37	CCDS5069.2	.	.	.	.	.	.	.	.	.	.	A	21.8	4.208748	0.79240	.	.	ENSG00000118690	ENST00000368972;ENST00000392644	T;T	0.46819	0.86;0.86	5.19	5.19	0.71726	Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.59959	0.2232	M	0.83012	2.62	0.49915	D	0.999838	D	0.69078	0.997	P	0.59546	0.859	T	0.67313	-0.5702	10	0.56958	D	0.05	.	15.0498	0.71858	1.0:0.0:0.0:0.0	.	354	Q8NEN0	ARMC2_HUMAN	R	189;354	ENSP00000357968:K189R;ENSP00000376417:K354R	ENSP00000357968:K189R	K	+	2	0	ARMC2	109338832	1.000000	0.71417	0.999000	0.59377	0.997000	0.91878	6.658000	0.74407	1.939000	0.56221	0.482000	0.46254	AAA		0.328	ARMC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041732.2	NM_032131		G	109232139	A	G	109232139	3	3	650	1	0	0	0	0	1	0	0	0	951	14	1	3	1091	3	ARMC2	6	109232139	Missense_Mutation	SNP	A	TCGA-KM-8442-01A-11D-2310-10	65980110	109232139	61882928	26	40270										
FRK	2444	hgsc.bcm.edu	37	chr6	116265504	116265504	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gatctctgtgaatgtagttcCgagactccagataggccatt	10	9	1	3	rs190064484	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr6:116265504C>T	ENST00000606080.1	-	6	1489	c.1043G>A	c.(1042-1044)cGg>cAg	p.R348Q	FRK_ENST00000538210.1_Missense_Mutation_p.R206Q	NM_002031.2	NP_002022.1	P42685	FRK_HUMAN	fyn-related Src family tyrosine kinase	348	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cell differentiation (GO:0030154)|negative regulation of cell proliferation (GO:0008285)|peptidyl-tyrosine phosphorylation (GO:0018108)|protein phosphorylation (GO:0006468)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)			breast(1)|endometrium(4)|kidney(2)|large_intestine(4)|lung(10)|ovary(3)|pancreas(1)|skin(1)|urinary_tract(1)	27		all_cancers(87;0.00559)|all_epithelial(87;0.00738)|Colorectal(196;0.0465)		all cancers(137;0.0128)|OV - Ovarian serous cystadenocarcinoma(136;0.0209)|GBM - Glioblastoma multiforme(226;0.0459)|Epithelial(106;0.0625)	Regorafenib(DB08896)	AATGTAGTTCCGAGACTCCAG	0.438													C|||	2	0.000399361	0.0	0.0	5008	,	,		15988	0.002		0.0	False		,,,				2504	0.0															0													93	90	91					6																	116265504		2203	4300	6503	SO:0001583	missense	2444			U00803	CCDS5103.1	6q21-q22.3	2014-06-25	2014-06-25		ENSG00000111816	ENSG00000111816	2.7.10.1	"SH2 domain containing"	3955	protein-coding gene	gene with protein product		606573	"PTK5 protein tyrosine kinase 5", "fyn-related kinase"	PTK5		7510261	Standard	NM_002031		Approved	RAK, GTK	uc003pwi.1	P42685	OTTHUMG00000015424	ENST00000606080.1:c.1043G>A	6.37:g.116265504C>T	ENSP00000476145:p.Arg348Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DY49|Q13128|Q9NTR5	Missense_Mutation	SNP	ENST00000606080.1	37	CCDS5103.1	2	9.157509157509158E-4	0	0.0	0	0.0	2	0.0034965034965034965	0	0.0	C	8.843	0.942704	0.18281	.	.	ENSG00000111816	ENST00000368626;ENST00000538210	D;D	0.82803	-1.65;-1.65	5.6	4.37	0.52481	Serine-threonine/tyrosine-protein kinase (2);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.113303	0.38436	N	0.001691	T	0.41282	0.1152	N	0.05592	-0.015	0.33879	D	0.635881	B	0.02656	0.0	B	0.01281	0.0	T	0.09314	-1.0680	10	0.05351	T	0.99	.	11.351	0.49587	0.0:0.0719:0.0:0.9281	.	348	P42685	FRK_HUMAN	Q	348;206	ENSP00000357615:R348Q;ENSP00000443075:R206Q	ENSP00000357615:R348Q	R	-	2	0	FRK	116372197	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	6.280000	0.72626	0.930000	0.37217	-0.423000	0.05987	CGG		0.438	FRK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041924.2	NM_002031		T	116265504	C	T	116265504	3	4	650	1	0	0	0	0	1	0	0	0	6055	652	23	1	486	1	FRK	6	116265504	Missense_Mutation	SNP	C	TCGA-KM-8442-01A-11D-2310-10	7033365	116265504	54849563	27	40271										
PHF10	55274	mdanderson.org	37	chr6	170115851	170115851	+	Missense_Mutation	SNP	G	G	A													0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	tctttcttccatgcgttcccGgtttaagttgctattaaatt					rs77919800		TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr6:170115851G>A	ENST00000339209.4	-	6	769	c.646C>T	c.(646-648)Cgg>Tgg	p.R216W	PHF10_ENST00000366780.4_Missense_Mutation_p.R214W|PHF10_ENST00000464779.1_5'Flank	NM_018288.3|NM_133325.2	NP_060758.2|NP_579866.2	Q8WUB8	PHF10_HUMAN	PHD finger protein 10	216	SAY.				nervous system development (GO:0007399)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	npBAF complex (GO:0071564)	zinc ion binding (GO:0008270)			endometrium(2)|large_intestine(2)|liver(3)|lung(4)|prostate(2)|urinary_tract(1)	14		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.4e-21)|BRCA - Breast invasive adenocarcinoma(81;1.4e-07)|GBM - Glioblastoma multiforme(31;0.00176)		ATGCGTTCCCGGTTTAAGTTG	0.358																																																0													120	123	122					6																	170115851		2203	4300	6503	SO:0001583	missense	55274			AF338735	CCDS5308.2, CCDS5309.2	6q27	2014-05-13			ENSG00000130024	ENSG00000130024		"Zinc fingers, PHD-type"	18250	protein-coding gene	gene with protein product		613069				11827455	Standard	NM_018288		Approved	FLJ10975, XAP135, BAF45a	uc011egy.2	Q8WUB8	OTTHUMG00000016058	ENST00000339209.4:c.646C>T	6.37:g.170115851G>A	ENSP00000341805:p.Arg216Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q2YDA3|Q53HG8|Q9BXD2|Q9NV26	Missense_Mutation	SNP	ENST00000339209.4	37	CCDS5308.2	.	.	.	.	.	.	.	.	.	.	G	24.2	4.501168	0.85176	.	.	ENSG00000130024	ENST00000366780;ENST00000339209	T;T	0.32272	1.46;1.46	5.91	5.91	0.95273	.	0.052032	0.85682	D	0.000000	T	0.49321	0.1550	M	0.62723	1.935	0.58432	D	0.999999	D;D;D	0.89917	0.996;1.0;0.999	P;D;P	0.85130	0.702;0.997;0.794	T	0.46679	-0.9174	10	0.87932	D	0	-20.118	19.2865	0.94077	0.0:0.0:1.0:0.0	.	128;214;216	Q5T069;Q8WUB8-2;Q8WUB8	.;.;PHF10_HUMAN	W	214;216	ENSP00000355743:R214W;ENSP00000341805:R216W	ENSP00000341805:R216W	R	-	1	2	PHF10	169857776	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	3.685000	0.54678	2.802000	0.96397	0.655000	0.94253	CGG		0.358	PHF10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000346732.1	NM_018288		A	170115851	G	A	170115851	3	1	650	1	0	0	0	0	1	0	0	0	11828	1115	39	1	878	1	PHF10	6	170115851	Missense_Mutation	SNP	G	TCGA-KM-8442-01A-11D-2310-10	53850347	170115851	999216	28	40272	361	4								
PHF10	55274	mdanderson.org	37	chr6	170115857	170115857	+	Missense_Mutation	SNP	A	A	C													0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ttccatgcgttcccggtttaAgttgctattaaattctgctg					rs144595699		TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr6:170115857A>C	ENST00000339209.4	-	6	763	c.640T>G	c.(640-642)Tta>Gta	p.L214V	PHF10_ENST00000366780.4_Missense_Mutation_p.L212V|PHF10_ENST00000464779.1_5'Flank	NM_018288.3|NM_133325.2	NP_060758.2|NP_579866.2	Q8WUB8	PHF10_HUMAN	PHD finger protein 10	214	SAY.				nervous system development (GO:0007399)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	npBAF complex (GO:0071564)	zinc ion binding (GO:0008270)			endometrium(2)|large_intestine(2)|liver(3)|lung(4)|prostate(2)|urinary_tract(1)	14		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.4e-21)|BRCA - Breast invasive adenocarcinoma(81;1.4e-07)|GBM - Glioblastoma multiforme(31;0.00176)		TCCCGGTTTAAGTTGCTATTA	0.373																																																0																																										SO:0001583	missense	55274			AF338735	CCDS5308.2, CCDS5309.2	6q27	2014-05-13			ENSG00000130024	ENSG00000130024		"Zinc fingers, PHD-type"	18250	protein-coding gene	gene with protein product		613069				11827455	Standard	NM_018288		Approved	FLJ10975, XAP135, BAF45a	uc011egy.2	Q8WUB8	OTTHUMG00000016058	ENST00000339209.4:c.640T>G	6.37:g.170115857A>C	ENSP00000341805:p.Leu214Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q2YDA3|Q53HG8|Q9BXD2|Q9NV26	Missense_Mutation	SNP	ENST00000339209.4	37	CCDS5308.2	.	.	.	.	.	.	.	.	.	.	A	19.89	3.910262	0.72983	.	.	ENSG00000130024	ENST00000366780;ENST00000339209	T;T	0.32272	1.46;1.46	5.91	-0.532	0.11890	.	0.058333	0.64402	D	0.000001	T	0.18002	0.0432	M	0.65975	2.015	0.42139	D	0.991505	P;P;P	0.52316	0.894;0.739;0.952	B;B;B	0.43990	0.438;0.225;0.437	T	0.07028	-1.0794	10	0.62326	D	0.03	-9.8963	9.7614	0.40534	0.6235:0.0:0.3765:0.0	.	126;212;214	Q5T069;Q8WUB8-2;Q8WUB8	.;.;PHF10_HUMAN	V	212;214	ENSP00000355743:L212V;ENSP00000341805:L214V	ENSP00000341805:L214V	L	-	1	2	PHF10	169857782	0.998000	0.40836	0.488000	0.27440	0.991000	0.79684	0.855000	0.27805	-0.303000	0.08856	0.533000	0.62120	TTA		0.373	PHF10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000346732.1	NM_018288		C	170115857	A	C	170115857	3	2	650	1	0	0	0	0	1	0	0	0	11828	69	3	5	884	5	PHF10	6	170115857	Missense_Mutation	SNP	A	TCGA-KM-8442-01A-11D-2310-10	6	170115857	999210	29	40273	361	4								
PHF10	55274	mdanderson.org	37	chr6	170115864	170115864	+	Silent	SNP	A	A	G													0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	cgttcccggtttaagttgctAttaaattctgctgctttttt							TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr6:170115864A>G	ENST00000339209.4	-	6	756	c.633T>C	c.(631-633)aaT>aaC	p.N211N	PHF10_ENST00000366780.4_Silent_p.N209N|PHF10_ENST00000464779.1_5'Flank	NM_018288.3|NM_133325.2	NP_060758.2|NP_579866.2	Q8WUB8	PHF10_HUMAN	PHD finger protein 10	211	SAY.				nervous system development (GO:0007399)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	npBAF complex (GO:0071564)	zinc ion binding (GO:0008270)			endometrium(2)|large_intestine(2)|liver(3)|lung(4)|prostate(2)|urinary_tract(1)	14		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.4e-21)|BRCA - Breast invasive adenocarcinoma(81;1.4e-07)|GBM - Glioblastoma multiforme(31;0.00176)		TTAAGTTGCTATTAAATTCTG	0.363																																																0													111	113	112					6																	170115864		2203	4300	6503	SO:0001819	synonymous_variant	55274			AF338735	CCDS5308.2, CCDS5309.2	6q27	2014-05-13			ENSG00000130024	ENSG00000130024		"Zinc fingers, PHD-type"	18250	protein-coding gene	gene with protein product		613069				11827455	Standard	NM_018288		Approved	FLJ10975, XAP135, BAF45a	uc011egy.2	Q8WUB8	OTTHUMG00000016058	ENST00000339209.4:c.633T>C	6.37:g.170115864A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q2YDA3|Q53HG8|Q9BXD2|Q9NV26	Silent	SNP	ENST00000339209.4	37	CCDS5308.2																																																																																				0.363	PHF10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000346732.1	NM_018288		G	170115864	A	G	170115864	2	3	650	1	0	0	0	0	0	0	0	1	11828	446	16	3		3	PHF10	6	170115864	Silent	SNP	A	TCGA-KM-8442-01A-11D-2310-10	7	170115864	999203	30	40274	361	4								
PHF10	55274	mdanderson.org	37	chr6	170115873	170115873	+	Silent	SNP	T	T	A													0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	tttaagttgctattaaattcTgctgcttttttggcagcttt							TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr6:170115873T>A	ENST00000339209.4	-	6	747	c.624A>T	c.(622-624)gcA>gcT	p.A208A	PHF10_ENST00000366780.4_Silent_p.A206A|PHF10_ENST00000464779.1_5'Flank	NM_018288.3|NM_133325.2	NP_060758.2|NP_579866.2	Q8WUB8	PHF10_HUMAN	PHD finger protein 10	208	SAY.				nervous system development (GO:0007399)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	npBAF complex (GO:0071564)	zinc ion binding (GO:0008270)			endometrium(2)|large_intestine(2)|liver(3)|lung(4)|prostate(2)|urinary_tract(1)	14		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.4e-21)|BRCA - Breast invasive adenocarcinoma(81;1.4e-07)|GBM - Glioblastoma multiforme(31;0.00176)		TATTAAATTCTGCTGCTTTTT	0.363																																																0													106	108	108					6																	170115873		2203	4300	6503	SO:0001819	synonymous_variant	55274			AF338735	CCDS5308.2, CCDS5309.2	6q27	2014-05-13			ENSG00000130024	ENSG00000130024		"Zinc fingers, PHD-type"	18250	protein-coding gene	gene with protein product		613069				11827455	Standard	NM_018288		Approved	FLJ10975, XAP135, BAF45a	uc011egy.2	Q8WUB8	OTTHUMG00000016058	ENST00000339209.4:c.624A>T	6.37:g.170115873T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2YDA3|Q53HG8|Q9BXD2|Q9NV26	Silent	SNP	ENST00000339209.4	37	CCDS5308.2																																																																																				0.363	PHF10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000346732.1	NM_018288		A	170115873	T	A	170115873	2	1	650	1	0	0	0	0	0	0	0	1	11828	1567	55	5		5	PHF10	6	170115873	Silent	SNP	T	TCGA-KM-8442-01A-11D-2310-10	9	170115873	999194	31	40275	361	4								
CREB5	9586	broad.mit.edu	37	chr7	28848967	28848967	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ccgctgcagacagaagaggaAggtctgggtgatgtcattgg	16	7	2	4			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr7:28848967A>G	ENST00000357727.2	+	9	1580	c.1190A>G	c.(1189-1191)aAg>aGg	p.K397R	CREB5_ENST00000396298.2_Missense_Mutation_p.K258R|CREB5_ENST00000396299.2_Missense_Mutation_p.K364R|CREB5_ENST00000409603.1_Missense_Mutation_p.K364R|CREB5_ENST00000396300.2_Missense_Mutation_p.K390R	NM_182898.2	NP_878901.2	Q02930	CREB5_HUMAN	cAMP responsive element binding protein 5	397	Basic motif. {ECO:0000255|PROSITE- ProRule:PRU00978}.|bZIP. {ECO:0000255|PROSITE- ProRule:PRU00978}.				adipose tissue development (GO:0060612)|fat cell differentiation (GO:0045444)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription from RNA polymerase II promoter (GO:0006366)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(7)|liver(1)|lung(13)|prostate(1)|skin(3)	32						CAGAAGAGGAAGGTCTGGGTG	0.592																																																0													45	51	49					7																	28848967		2203	4300	6503	SO:0001583	missense	9586			L05515	CCDS5417.1, CCDS5418.1, CCDS43562.1, CCDS43563.1	7p15	2013-01-10			ENSG00000146592	ENSG00000146592		"basic leucine zipper proteins"	16844	protein-coding gene	gene with protein product	"cAMP response element binding protein CRE-Bpa"					8378084, 8440710	Standard	XM_005249906		Approved	H_GS165L15.1, CRE-BPA	uc003szr.3	Q02930	OTTHUMG00000097081	ENST00000357727.2:c.1190A>G	7.37:g.28848967A>G	ENSP00000350359:p.Lys397Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA51|B4DU13|B5BUH3|C9JK47|Q05886|Q06246|Q75N02|Q86UJ9	Missense_Mutation	SNP	ENST00000357727.2	37	CCDS5417.1	.	.	.	.	.	.	.	.	.	.	A	34	5.314023	0.95655	.	.	ENSG00000146592	ENST00000396299;ENST00000357727;ENST00000396300;ENST00000409603;ENST00000396298	T;T;T;T;T	0.58210	0.35;0.35;0.35;0.35;0.35	5.99	5.99	0.97316	Basic-leucine zipper (bZIP) transcription factor (2);bZIP transcription factor, bZIP-1 (1);	0.000000	0.85682	D	0.000000	T	0.69369	0.3103	L	0.53617	1.68	0.58432	D	0.999996	D;D	0.89917	1.0;0.999	D;D	0.97110	1.0;0.999	T	0.71679	-0.4520	10	0.87932	D	0	-28.5584	16.4943	0.84223	1.0:0.0:0.0:0.0	.	258;397	B4DU13;Q02930	.;CREB5_HUMAN	R	364;397;390;364;258	ENSP00000379593:K364R;ENSP00000350359:K397R;ENSP00000379594:K390R;ENSP00000387197:K364R;ENSP00000379592:K258R	ENSP00000350359:K397R	K	+	2	0	CREB5	28815492	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.339000	0.96797	2.291000	0.77112	0.533000	0.62120	AAG		0.592	CREB5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000214204.4	NM_004904		G	28848967	A	G	28848967	3	3	650	1	0	0	0	0	1	0	0	0	3862	72	3	3	1275	3	CREB5	7	28848967	Missense_Mutation	SNP	A	TCGA-KM-8442-01A-11D-2310-10		28848967	130289696	32	40276										
AVL9	23080	bcgsc.ca	37	chr7	32591845	32591845	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	aatctatattttataggagcTttatgaacatatgaatagtt	6	3	1	2			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr7:32591845T>C	ENST00000318709.4	+	6	688	c.467T>C	c.(466-468)cTt>cCt	p.L156P	AVL9_ENST00000404479.1_Missense_Mutation_p.L156P|AVL9_ENST00000409301.1_Missense_Mutation_p.L156P	NM_015060.1	NP_055875.1	Q8NBF6	AVL9_HUMAN	AVL9 homolog (S. cerevisiase)	156					cell migration (GO:0016477)	integral component of membrane (GO:0016021)|recycling endosome (GO:0055037)				endometrium(3)|kidney(1)|large_intestine(3)|lung(7)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	18						TTATAGGAGCTTTATGAACAT	0.313																																																0													38	40	39					7																	32591845		2202	4298	6500	SO:0001583	missense	23080			D87682	CCDS34613.1	7p14.3	2013-05-01	2008-10-03	2008-10-03	ENSG00000105778	ENSG00000105778			28994	protein-coding gene	gene with protein product		612927	"KIAA0241"	KIAA0241		17229886, 22595670	Standard	XM_005249668		Approved		uc003tcv.1	Q8NBF6	OTTHUMG00000152929	ENST00000318709.4:c.467T>C	7.37:g.32591845T>C	ENSP00000315568:p.Leu156Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q92573	Missense_Mutation	SNP	ENST00000318709.4	37	CCDS34613.1	.	.	.	.	.	.	.	.	.	.	T	21.8	4.208264	0.79240	.	.	ENSG00000105778	ENST00000318709;ENST00000409301;ENST00000329714;ENST00000404479;ENST00000446718	T;T;T;T	0.53206	0.63;0.63;0.63;0.63	5.65	5.65	0.86999	.	0.000000	0.85682	D	0.000000	T	0.70762	0.3261	M	0.81802	2.56	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.999	T	0.73864	-0.3848	10	0.54805	T	0.06	-14.4166	16.1864	0.81955	0.0:0.0:0.0:1.0	.	156;156	Q8N6Z3;Q8NBF6	.;AVL9_HUMAN	P	156;156;156;156;87	ENSP00000315568:L156P;ENSP00000387011:L156P;ENSP00000385242:L156P;ENSP00000395134:L87P	ENSP00000315568:L156P	L	+	2	0	AVL9	32558370	1.000000	0.71417	0.991000	0.47740	0.931000	0.56810	7.467000	0.80930	2.281000	0.76405	0.528000	0.53228	CTT		0.313	AVL9-003	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328643.1	NM_015060		C	32591845	T	C	32591845	3	2	650	1	0	0	0	0	1	0	0	0	1228	1609	56	3	489	3	AVL9	7	32591845	Missense_Mutation	SNP	T	TCGA-KM-8442-01A-11D-2310-10	3742878	32591845	126546818	33	40277										
ZAN	7455	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	100346036	100346036	+	RNA	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	atggtggacactgggccctcGgacataaaaatggacccgtc	12	11	0	0	rs574016648		TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr7:100346036G>A	ENST00000348028.3	+	0	1357				ZAN_ENST00000449052.1_RNA|ZAN_ENST00000538115.1_RNA|ZAN_ENST00000542585.1_RNA|ZAN_ENST00000443370.1_RNA|ZAN_ENST00000427578.1_RNA|ZAN_ENST00000546213.1_RNA|ZAN_ENST00000349350.6_RNA|ZAN_ENST00000546292.1_RNA|ZAN_ENST00000421100.1_RNA			Q9Y493	ZAN_HUMAN	zonadhesin (gene/pseudogene)						binding of sperm to zona pellucida (GO:0007339)|single organismal cell-cell adhesion (GO:0016337)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(2)|breast(3)|central_nervous_system(3)|endometrium(21)|kidney(6)|large_intestine(18)|lung(60)|ovary(4)|pancreas(3)|prostate(5)|skin(8)|stomach(3)|upper_aerodigestive_tract(3)	139	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CTGGGCCCTCGGACATAAAAA	0.567													G|||	1	0.000199681	0.0	0.0014	5008	,	,		17018	0.0		0.0	False		,,,				2504	0.0															0													51	52	52					7																	100346036		1906	4111	6017			7455			U83191		7q22.1	2013-10-10	2013-10-10		ENSG00000146839	ENSG00000146839			12857	protein-coding gene	gene with protein product		602372	"zonadhesin"			9799793, 17033959	Standard	NM_003386		Approved		uc003uwk.3	Q9Y493	OTTHUMG00000157037		7.37:g.100346036G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0FKC8|D6W5W4|O00218|Q96L85|Q96L86|Q96L87|Q96L88|Q96L89|Q96L90|Q9BXN9|Q9BZ83|Q9BZ84|Q9BZ85|Q9BZ86|Q9BZ87|Q9BZ88	Missense_Mutation	SNP	ENST00000348028.3	37		.	.	.	.	.	.	.	.	.	.	G	16.16	3.045328	0.55110	.	.	ENSG00000146839	ENST00000546292;ENST00000538115;ENST00000542585	T;T;T	0.02140	4.43;4.43;4.43	4.81	2.99	0.34606	Concanavalin A-like lectin/glucanase (1);MAM domain (3);	0.000000	0.38605	N	0.001638	T	0.06826	0.0174	L	0.50847	1.595	0.20821	N	0.999845	D;D	0.89917	1.0;1.0	D;D	0.76575	0.98;0.988	T	0.08027	-1.0742	10	0.72032	D	0.01	.	6.3795	0.21525	0.2137:0.0:0.7863:0.0	.	398;398	F5H0T8;Q9Y493	.;ZAN_HUMAN	R	398	ENSP00000445943:G398R;ENSP00000445091:G398R;ENSP00000444427:G398R	ENSP00000423579:G398R	G	+	1	0	ZAN	100183972	0.009000	0.17119	0.103000	0.21229	0.027000	0.11550	1.225000	0.32551	1.340000	0.45581	0.555000	0.69702	GGA		0.567	ZAN-006	KNOWN	basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000347214.1	NM_003386		A	100346036	G	A	100346036	1	1	650	0	1	0	0	0	0	0	0	0	17525	1117	39	1		1	ZAN	7	100346036	RNA	SNP	G	TCGA-KM-8442-01A-11D-2310-10	67754191	100346036	58792627	34	40278										
KCNH2	3757	broad.mit.edu	37	chr7	150642468	150642469	+	Frame_Shift_Ins	INS	-	-	G													0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	cccactaactgcccgggtccINSgagccgtgtctgtgcagggg							TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr7:150642468_150642469insG	ENST00000262186.5	-	15	3865_3866	c.3464_3465insC	c.(3463-3465)tcgfs	p.S1155fs	KCNH2_ENST00000330883.4_Frame_Shift_Ins_p.S815fs|KCNH2_ENST00000392968.2_Frame_Shift_Ins_p.S1059fs	NM_000238.3	NP_000229.1	Q12809	KCNH2_HUMAN	potassium voltage-gated channel, subfamily H (eag-related), member 2	1155					cardiac muscle contraction (GO:0060048)|cellular response to drug (GO:0035690)|membrane depolarization during action potential (GO:0086010)|membrane repolarization during action potential (GO:0086011)|membrane repolarization during cardiac muscle cell action potential (GO:0086013)|negative regulation of potassium ion export (GO:1902303)|negative regulation of potassium ion transmembrane transport (GO:1901380)|positive regulation of potassium ion transmembrane transport (GO:1901381)|potassium ion export (GO:0071435)|potassium ion homeostasis (GO:0055075)|potassium ion transmembrane transport (GO:0071805)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of heart rate by hormone (GO:0003064)|regulation of membrane potential (GO:0042391)|regulation of membrane repolarization (GO:0060306)|regulation of potassium ion transmembrane transport (GO:1901379)|regulation of ventricular cardiac muscle cell membrane repolarization (GO:0060307)|synaptic transmission (GO:0007268)|ventricular cardiac muscle cell action potential (GO:0086005)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|nuclear envelope (GO:0005635)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|identical protein binding (GO:0042802)|inward rectifier potassium channel activity (GO:0005242)|phosphorelay sensor kinase activity (GO:0000155)|protein homodimerization activity (GO:0042803)|ubiquitin protein ligase binding (GO:0031625)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated potassium channel activity involved in ventricular cardiac muscle cell action potential repolarization (GO:1902282)			NS(1)|cervix(1)|endometrium(10)|kidney(1)|large_intestine(5)|lung(14)|ovary(1)|prostate(2)|skin(6)|upper_aerodigestive_tract(1)	42	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Chlorpromazine(DB00477)|Cisapride(DB00604)|Dofetilide(DB00204)|Doxazosin(DB00590)|Doxepin(DB01142)|Dronedarone(DB04855)|Halofantrine(DB01218)|Ibutilide(DB00308)|Imipramine(DB00458)|Miconazole(DB01110)|Pimozide(DB01100)|Prazosin(DB00457)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terazosin(DB01162)|Thioridazine(DB00679)|Verapamil(DB00661)	TGCCCGGGTCCGAGCCGTGTCT	0.718																																					GBM(137;110 1844 13671 20123 45161)											0																																										SO:0001589	frameshift_variant	3757			U04270	CCDS5910.1, CCDS5911.1	7q36.1	2014-09-17			ENSG00000055118	ENSG00000055118		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6251	protein-coding gene	gene with protein product		152427		LQT2		18616963, 7842012, 8159766, 16382104	Standard	NM_000238		Approved	Kv11.1, HERG, erg1	uc003wic.3	Q12809	OTTHUMG00000158341	ENST00000262186.5:c.3465dupC	7.37:g.150642469_150642469dupG	ENSP00000262186:p.Ser1155fs	Somatic		WXS	Illumina HiSeq	Phase_I	A5H1P7|C4PFH9|D3DX04|O75418|O75680|Q708S9|Q9BT72|Q9BUT7|Q9H3P0	Frame_Shift_Ins	INS	ENST00000262186.5	37	CCDS5910.1																																																																																				0.718	KCNH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350741.2	NM_000238		G	150642469	-	G	150642468	7	5	650	1	0	1	1	0	0	0	0	0	8039	639	23	0	18	0	KCNH2	7	150642468	Frame_Shift_Ins	INS	-	TCGA-KM-8442-01A-11D-2310-10	50296432	150642468	8496195	35	40279										
MLL3	58508	broad.mit.edu;bcgsc.ca	37	chr7	151917680	151917680	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	aggggtctgaaggacggccaCgctattctgatttataatct	11	8	3	2			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr7:151917680C>T	ENST00000262189.6	-	23	3858	c.3640G>A	c.(3640-3642)Gtg>Atg	p.V1214M	KMT2C_ENST00000355193.2_Missense_Mutation_p.V1214M	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	1214					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)										AGGACGGCCACGCTATTCTGA	0.393																																																0													92	86	88					7																	151917680		2203	4300	6503	SO:0001583	missense	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.3640G>A	7.37:g.151917680C>T	ENSP00000262189:p.Val1214Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Missense_Mutation	SNP	ENST00000262189.6	37	CCDS5931.1	.	.	.	.	.	.	.	.	.	.	C	17.47	3.398057	0.62177	.	.	ENSG00000055609	ENST00000262189;ENST00000355193	D;D	0.84516	-1.85;-1.86	4.44	4.44	0.53790	.	0.000000	0.39210	U	0.001435	D	0.89993	0.6876	L	0.54323	1.7	0.80722	D	1	D;D	0.89917	0.999;1.0	D;D	0.67382	0.921;0.951	D	0.90635	0.4570	10	0.52906	T	0.07	.	17.4147	0.87496	0.0:1.0:0.0:0.0	.	1214;275	Q8NEZ4;Q8NEZ4-2	MLL3_HUMAN;.	M	1214	ENSP00000262189:V1214M;ENSP00000347325:V1214M	ENSP00000262189:V1214M	V	-	1	0	MLL3	151548613	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.392000	0.79840	2.161000	0.67846	0.484000	0.47621	GTG		0.393	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			T	151917680	C	T	151917680	3	4	650	1	0	0	0	0	1	0	0	0	9629	536	19	1	11243	1	MLL3	7	151917680	Missense_Mutation	SNP	C	TCGA-KM-8442-01A-11D-2310-10	1275212	151917680	7220983	36	40280										
TMEM70	54968	mdanderson.org	37	chr8	74888616	74888616	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ccgcgctccgaggtccccggGcctctgtctcccgggcgtcc	13	20	2	0	rs8075	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr8:74888616G>C	ENST00000312184.5	+	1	173	c.100G>C	c.(100-102)Gcc>Ccc	p.A34P	TMEM70_ENST00000523794.1_3'UTR|TMEM70_ENST00000517439.1_Missense_Mutation_p.A34P	NM_001040613.2|NM_017866.5	NP_001035703.1|NP_060336.3	Q9BUB7	TMM70_HUMAN	transmembrane protein 70	34			A -> P (in dbSNP:rs8075).		mitochondrial proton-transporting ATP synthase complex assembly (GO:0033615)	integral component of mitochondrial membrane (GO:0032592)|mitochondrial inner membrane (GO:0005743)				breast(1)|kidney(1)|large_intestine(2)|lung(1)|ovary(2)|skin(1)	8	Breast(64;0.0311)		Epithelial(68;0.0186)|BRCA - Breast invasive adenocarcinoma(89;0.0499)|all cancers(69;0.0564)			AGGTCCCCGGGCCTCTGTCTC	0.731													G|||	882	0.176118	0.2595	0.1715	5008	,	,		10013	0.1171		0.1491	False		,,,				2504	0.1554															0								G	PRO/ALA,PRO/ALA	1119,3259		156,807,1226	12	13	13		100,100	2.7	0	8	dbSNP_52	13	1112,7432		88,936,3248	no	missense,missense	TMEM70	NM_001040613.2,NM_017866.5	27,27	244,1743,4474	CC,CG,GG		13.015,25.5596,17.2651	probably-damaging,probably-damaging	34/108,34/261	74888616	2231,10691	2189	4272	6461	SO:0001583	missense	54968			BC002748	CCDS6215.1, CCDS47876.1	8q21.11	2013-05-23				ENSG00000175606			26050	protein-coding gene	gene with protein product		612418				21945727, 22986587	Standard	NM_017866		Approved	FLJ20533	uc003yab.3	Q9BUB7		ENST00000312184.5:c.100G>C	8.37:g.74888616G>C	ENSP00000312599:p.Ala34Pro	Somatic		WXS	Illumina HiSeq	Phase_I	E9PDY9|Q9NWY5	Missense_Mutation	SNP	ENST00000312184.5	37	CCDS6215.1	377	0.17261904761904762	154	0.3130081300813008	63	0.17403314917127072	63	0.11013986013986014	97	0.1279683377308707	G	18.66	3.671897	0.67928	0.255596	0.13015	ENSG00000175606	ENST00000517439;ENST00000312184	T;T	0.50001	0.76;1.09	3.61	2.71	0.32032	.	1.008340	0.07980	N	0.985433	T	0.00012	0.0000	N	0.24115	0.695	0.80722	P	0.0	D;P	0.55385	0.971;0.917	P;B	0.55391	0.775;0.445	T	0.24512	-1.0158	9	0.38643	T	0.18	-1.4075	7.4815	0.27408	0.122:0.0:0.878:0.0	rs8075;rs3193742;rs17295004;rs17349529	34;34	E9PDY9;Q9BUB7	.;TMM70_HUMAN	P	34	ENSP00000429467:A34P;ENSP00000312599:A34P	ENSP00000312599:A34P	A	+	1	0	TMEM70	75051170	0.013000	0.17824	0.002000	0.10522	0.009000	0.06853	1.407000	0.34657	1.077000	0.40990	0.491000	0.48974	GCC		0.731	TMEM70-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379028.1	NM_017866		C	74888616	G	C	74888616	3	2	650	1	0	0	0	0	1	0	0	0	16211	1203	42	4	102	4	TMEM70	8	74888616	Missense_Mutation	SNP	G	TCGA-KM-8442-01A-11D-2310-10		74888616	71475406	37	40281										
ADAMTSL1	92949	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr9	18777867	18777867	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	acccaaggcctaccatcagcTgggccaggaatggagaagaa	12	11	1	2			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr9:18777867T>A	ENST00000380548.4	+	19	3979	c.3640T>A	c.(3640-3642)Tgg>Agg	p.W1214R		NM_001040272.5	NP_001035362.3	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1	1214	Ig-like C2-type 2.					proteinaceous extracellular matrix (GO:0005578)	metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)	p.W1214R(1)		breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|liver(2)|lung(17)|ovary(3)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	42				GBM - Glioblastoma multiforme(50;1.29e-17)		TACCATCAGCTGGGCCAGGAA	0.612																																																1	Substitution - Missense(1)	endometrium(1)											50	51	51					9																	18777867		2030	4187	6217	SO:0001583	missense	92949			AF176313	CCDS6485.1, CCDS47954.1	9p21.3	2013-01-11			ENSG00000178031	ENSG00000178031		"Immunoglobulin superfamily / I-set domain containing"	14632	protein-coding gene	gene with protein product	"punctin"	609198	"chromosome 9 open reading frame 94"	C9orf94		9628581, 11805097	Standard	NM_001040272		Approved	ADAMTSR1, FLJ35283	uc003zne.4	Q8N6G6	OTTHUMG00000019604	ENST00000380548.4:c.3640T>A	9.37:g.18777867T>A	ENSP00000369921:p.Trp1214Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6PVN1|A8K7E1|Q496M6|Q496M8|Q5T708|Q5VZT8|Q8NAI9|Q96RW4|Q9BXY3	Missense_Mutation	SNP	ENST00000380548.4	37	CCDS47954.1	.	.	.	.	.	.	.	.	.	.	T	18.95	3.730924	0.69074	.	.	ENSG00000178031	ENST00000380548	D	0.96300	-3.97	5.9	5.9	0.94986	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.64402	D	0.000004	D	0.98931	0.9637	H	0.98178	4.165	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.99466	1.0944	10	0.87932	D	0	.	16.326	0.82979	0.0:0.0:0.0:1.0	.	1214	Q8N6G6	ATL1_HUMAN	R	1214	ENSP00000369921:W1214R	ENSP00000369921:W1214R	W	+	1	0	ADAMTSL1	18767867	1.000000	0.71417	1.000000	0.80357	0.809000	0.45718	5.568000	0.67385	2.258000	0.74832	0.528000	0.53228	TGG		0.612	ADAMTSL1-012	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401206.1			A	18777867	T	A	18777867	3	1	650	1	0	0	0	0	1	0	0	0	274	1580	55	5	3718	5	ADAMTSL1	9	18777867	Missense_Mutation	SNP	T	TCGA-KM-8442-01A-11D-2310-10		18777867	122435564	38	40282										
AQP7	364	mdanderson.org;bcgsc.ca	37	chr9	33385808	33385808	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gttcctggcagtgctgggttGttctcctggtccgtgatggc	15	10	1	1	rs62542744		TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr9:33385808G>T	ENST00000537089.1	-	6	624	c.306C>A	c.(304-306)aaC>aaA	p.N102K	AQP7_ENST00000541274.1_Missense_Mutation_p.Q63K|AQP7_ENST00000539936.1_Missense_Mutation_p.N194K|AQP7_ENST00000377425.4_Missense_Mutation_p.N137K			O14520	AQP7_HUMAN	aquaporin 7	194					excretion (GO:0007588)|generation of precursor metabolites and energy (GO:0006091)|glycerol transport (GO:0015793)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	glycerol channel activity (GO:0015254)|water channel activity (GO:0015250)			NS(1)|large_intestine(1)|lung(7)|ovary(1)|prostate(4)|skin(2)|stomach(1)	17			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.191)		GTGCTGGGTTGTTCTCCTGGT	0.607																																																0													122	107	112					9																	33385808		2203	4300	6503	SO:0001583	missense	364			AB006190	CCDS6541.1	9p13	2008-02-05			ENSG00000165269	ENSG00000165269		"Ion channels / Aquaporins"	640	protein-coding gene	gene with protein product		602974		AQP7L		9252401	Standard	NM_001170		Approved	AQP9, AQPap	uc003zst.3	O14520	OTTHUMG00000019773	ENST00000537089.1:c.306C>A	9.37:g.33385808G>T	ENSP00000441619:p.Asn102Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q08E94|Q5T5L9|Q8NHM3	Missense_Mutation	SNP	ENST00000537089.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	g|g	15.08|15.08	2.727222|2.727222	0.48833|0.48833	.|.	.|.	ENSG00000165269|ENSG00000165269	ENST00000537089;ENST00000379507;ENST00000447660;ENST00000297988;ENST00000377425;ENST00000439678;ENST00000379506;ENST00000539936;ENST00000379503|ENST00000541274	D;D;D;D;D;D;D;D;D|T	0.83755|0.43688	-1.76;-1.76;-1.76;-1.76;-1.76;-1.76;-1.76;-1.76;-1.76|0.94	5.02|5.02	4.12|4.12	0.48240|0.48240	Aquaporin-like (2);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.54711|0.54711	0.1875|0.1875	L|L	0.56396|0.56396	1.775|1.775	0.80722|0.80722	D|D	1|1	D;D;D;D|D	0.89917|0.76494	1.0;0.999;1.0;1.0|0.999	D;D;D;D|D	0.87578|0.72338	0.995;0.995;0.993;0.998|0.977	T|T	0.53143|0.53143	-0.8480|-0.8480	10|8	0.87932|.	D|.	0|.	-24.7401|-24.7401	7.8517|7.8517	0.29459|0.29459	0.1855:0.0:0.8145:0.0|0.1855:0.0:0.8145:0.0	rs62542744|rs62542744	193;194;137;194|63	Q5T5M0;B7Z4U2;Q6P5T0;O14520|B7Z7F6	.;.;.;AQP7_HUMAN|.	K|K	102;193;62;194;137;102;193;194;130|63	ENSP00000441619:N102K;ENSP00000368821:N193K;ENSP00000412868:N62K;ENSP00000297988:N194K;ENSP00000396111:N137K;ENSP00000410138:N102K;ENSP00000368820:N193K;ENSP00000439534:N194K;ENSP00000368817:N130K|ENSP00000438860:Q63K	ENSP00000297988:N194K|.	N|Q	-|-	3|1	2|0	AQP7|AQP7	33375808|33375808	1.000000|1.000000	0.71417|0.71417	0.740000|0.740000	0.30986|0.30986	0.116000|0.116000	0.19942|0.19942	2.130000|2.130000	0.42064|0.42064	1.319000|1.319000	0.45190|0.45190	0.645000|0.645000	0.84053|0.84053	AAC|CAA		0.607	AQP7-202	KNOWN	basic	protein_coding	protein_coding		NM_001170		T	33385808	G	T	33385808	3	4	650	1	0	0	0	0	1	0	0	0	831	1368	48	4	454	4	AQP7	9	33385808	Missense_Mutation	SNP	G	TCGA-KM-8442-01A-11D-2310-10	14607941	33385808	107827623	39	40283										
PRSS3	5646	mdanderson.org	37	chr9	33796801	33796801	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gcagctcactgctacaagacGtaagtgtggggcccctgact	12	12	1	2	rs143707562		TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr9:33796801G>A	ENST00000361005.5	+	2	371		c.e2+1		PRSS3_ENST00000379405.3_Splice_Site|PRSS3_ENST00000429677.3_Splice_Site|PRSS3_ENST00000342836.4_Splice_Site|RP11-133O22.6_ENST00000454429.2_RNA	NM_007343.3	NP_031369	P35030	TRY3_HUMAN	protease, serine, 3						cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|endothelial cell migration (GO:0043542)|innate immune response (GO:0045087)|proteolysis (GO:0006508)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)|zymogen activation (GO:0031638)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			large_intestine(3)|lung(4)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	13			LUSC - Lung squamous cell carcinoma(29;0.0176)			GCTACAAGACGTAAGTGTGGG	0.597													G|||	1	0.000199681	0.0	0.0	5008	,	,		18879	0.001		0.0	False		,,,				2504	0.0															0													70	70	70					9																	33796801		2203	4300	6503	SO:0001630	splice_region_variant	5646				CCDS6545.1, CCDS47958.1, CCDS56570.1, CCDS56571.1	9p13	2010-05-07	2008-03-11		ENSG00000010438	ENSG00000010438	3.4.21.4	"Serine peptidases / Serine peptidases"	9486	protein-coding gene	gene with protein product	"mesotrypsin"	613578	"protease, serine, 4 (trypsin 4, brain)", "protease, serine, 3 (mesotrypsin)"	PRSS4		2326201, 8294000	Standard	NM_002771		Approved	TRY3, TRY4	uc003ztj.4	P35030	OTTHUMG00000019798	ENST00000361005.5:c.371+1G>A	9.37:g.33796801G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8CED1|A8CED3|A9Z1Y4|E7ES07|F8W7P3|P15951|Q15665|Q5VXV0|Q6ISJ4|Q9UQV3	Splice_Site	SNP	ENST00000361005.5	37	CCDS47958.1	.	.	.	.	.	.	.	.	.	.	G	7.509	0.654290	0.14580	.	.	ENSG00000010438	ENST00000361005;ENST00000457896;ENST00000342836;ENST00000429677;ENST00000379405	.	.	.	3.21	2.29	0.28610	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	8.1922	0.31374	0.1286:0.0:0.8714:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	PRSS3	33786801	1.000000	0.71417	0.775000	0.31657	0.032000	0.12392	8.277000	0.89896	0.482000	0.27582	0.306000	0.20318	.		0.597	PRSS3-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000052121.1	NM_002771	Intron	A	33796801	G	A	33796801	5	1	650	1	0	0	0	0	0	0	1	0	12632	1159	40	1	422	1	PRSS3	9	33796801	Splice_Site	SNP	G	TCGA-KM-8442-01A-11D-2310-10	410993	33796801	107416630	40	40284										
KIAA1217	56243	ucsc.edu	37	chr10	24790406	24790406	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gcacctcagccatccacatgAgcctgcttgagatgaggcgg	12	13	1	3			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr10:24790406A>G	ENST00000376454.3	+	9	1963	c.1933A>G	c.(1933-1935)Agc>Ggc	p.S645G	KIAA1217_ENST00000376462.1_Missense_Mutation_p.S565G|KIAA1217_ENST00000376452.3_Missense_Mutation_p.S610G|KIAA1217_ENST00000458595.1_Missense_Mutation_p.S610G|KIAA1217_ENST00000376451.2_Missense_Mutation_p.S328G|KIAA1217_ENST00000430453.2_Missense_Mutation_p.S531G|KIAA1217_ENST00000307544.6_Missense_Mutation_p.S328G|KIAA1217_ENST00000396446.1_Missense_Mutation_p.S328G|KIAA1217_ENST00000396445.1_Missense_Mutation_p.S328G	NM_019590.3	NP_062536.2	Q5T5P2	SKT_HUMAN	KIAA1217	645					embryonic skeletal system development (GO:0048706)	cytoplasm (GO:0005737)				breast(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(19)|lung(19)|ovary(5)|prostate(3)|skin(3)|urinary_tract(1)	70						CATCCACATGAGCCTGCTTGA	0.637																																																0													77	68	71					10																	24790406		2203	4300	6503	SO:0001583	missense	56243			BX640796	CCDS31165.1, CCDS41496.1, CCDS60501.1, CCDS60502.1, CCDS60504.1, CCDS60505.1	10p12.31	2009-09-16			ENSG00000120549	ENSG00000120549			25428	protein-coding gene	gene with protein product	"sickle tail"					10574462	Standard	XM_005252500		Approved	DKFZP761L0424, SKT	uc001iru.4	Q5T5P2	OTTHUMG00000017824	ENST00000376454.3:c.1933A>G	10.37:g.24790406A>G	ENSP00000365637:p.Ser645Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A5LHW9|A6NLF3|A6PVQ5|A6PVQ6|A6PVQ7|B9EGK4|Q4KMG4|Q5T5P3|Q5T7H3|Q6MZZ6|Q6ZUI4|Q8WV45|Q9NSR2|Q9ULK3	Missense_Mutation	SNP	ENST00000376454.3	37	CCDS31165.1	.	.	.	.	.	.	.	.	.	.	A	19.85	3.902898	0.72754	.	.	ENSG00000120549	ENST00000376462;ENST00000376456;ENST00000458595;ENST00000442879;ENST00000376454;ENST00000376452;ENST00000438429;ENST00000430453;ENST00000307544;ENST00000450158;ENST00000396445;ENST00000376451;ENST00000396446	T;T;T;T;T;T;T;T;T;T;T	0.49720	0.77;0.77;0.77;0.77;0.77;0.77;0.77;0.77;0.77;0.77;0.77	5.71	5.71	0.89125	.	0.160790	0.64402	D	0.000002	T	0.64494	0.2603	L	0.60455	1.87	0.50467	D	0.999877	D;D;D;D;D;D;D;D	0.76494	0.999;0.973;0.999;0.984;0.999;0.999;0.992;0.975	D;P;D;P;D;D;D;P	0.85130	0.991;0.633;0.99;0.798;0.997;0.991;0.986;0.647	T	0.60637	-0.7224	10	0.27785	T	0.31	.	15.9709	0.80019	1.0:0.0:0.0:0.0	.	610;610;328;328;328;328;645;645	Q5T5P2-7;A6NLF3;Q5T5P2-4;Q5T5P2-8;Q5T5P2-3;Q5T5P2-6;Q5T5P2;Q5T5P2-2	.;.;.;.;.;.;SKT_HUMAN;.	G	565;610;610;328;645;610;460;531;328;328;328;328;328	ENSP00000365645:S565G;ENSP00000365639:S610G;ENSP00000392625:S610G;ENSP00000365637:S645G;ENSP00000365635:S610G;ENSP00000404798:S460G;ENSP00000389680:S531G;ENSP00000302343:S328G;ENSP00000379722:S328G;ENSP00000365634:S328G;ENSP00000379723:S328G	ENSP00000302343:S328G	S	+	1	0	KIAA1217	24830412	1.000000	0.71417	0.976000	0.42696	0.577000	0.36160	6.249000	0.72427	2.182000	0.69389	0.533000	0.62120	AGC		0.637	KIAA1217-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000047223.2	NM_019590		G	24790406	A	G	24790406	3	3	650	1	0	0	0	0	1	0	0	0	8223	304	11	3	1967	3	KIAA1217	10	24790406	Missense_Mutation	SNP	A	TCGA-KM-8442-01A-11D-2310-10		24790406	110744341	41	40285										
ZRANB1	54764	bcgsc.ca	37	chr10	126631811	126631811	+	Frame_Shift_Del	DEL	A	A	-													0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ggaacttgaagtagactttaAaaaactaaagcaaattaaaa							TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr10:126631811delA	ENST00000359653.4	+	1	1120	c.749delA	c.(748-750)aaafs	p.K251fs	RP11-298J20.4_ENST00000508096.1_RNA|RP11-298J20.3_ENST00000449984.1_RNA	NM_017580.2	NP_060050.2	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	251					cell migration (GO:0016477)|cytoskeleton organization (GO:0007010)|positive regulation of Wnt signaling pathway (GO:0030177)|protein deubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0071947)|protein K29-linked deubiquitination (GO:0035523)|protein K33-linked deubiquitination (GO:1990168)|protein K63-linked deubiquitination (GO:0070536)|regulation of cell morphogenesis (GO:0022604)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	K63-linked polyubiquitin binding (GO:0070530)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|endometrium(5)|kidney(5)|large_intestine(2)|lung(3)|ovary(2)|prostate(1)|skin(2)|urinary_tract(1)	23		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.172)		Colorectal(40;0.113)|COAD - Colon adenocarcinoma(40;0.119)		GTAGACTTTAAAAAACTAAAG	0.413																																																0													43	47	46					10																	126631811		2203	4300	6503	SO:0001589	frameshift_variant	54764			AJ252060	CCDS7642.1	10q26.12	2014-02-24			ENSG00000019995	ENSG00000019995		"Zinc fingers, RAN-binding domain containing", "OTU domain containing"	18224	protein-coding gene	gene with protein product		611749				11463333	Standard	NM_017580		Approved	TRABID	uc001lic.3	Q9UGI0	OTTHUMG00000019223	ENST00000359653.4:c.749delA	10.37:g.126631811delA	ENSP00000352676:p.Lys251fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ98|D3DRF4|Q5SQP6|Q69YK3	Frame_Shift_Del	DEL	ENST00000359653.4	37	CCDS7642.1																																																																																				0.413	ZRANB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050898.1	NM_017580		-	126631811	A	-	126631811	7	5	650	1	0	1	0	1	0	0	0	0	18234	14	1	0	751	0	ZRANB1	10	126631811	Frame_Shift_Del	DEL	A	TCGA-KM-8442-01A-11D-2310-10	101841405	126631811	8902936	42	40286										
CAPRIN1	4076	broad.mit.edu	37	chr11	34074126	34074126	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ggcgctgtccagaccgaggcCatgaagcagattctcggggt	15	11	1	3			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr11:34074126C>T	ENST00000341394.4	+	2	348	c.159C>T	c.(157-159)gcC>gcT	p.A53A	CAPRIN1_ENST00000389645.3_Silent_p.A53A|CAPRIN1_ENST00000529307.1_5'Flank|CAPRIN1_ENST00000532820.1_Silent_p.A53A|CAPRIN1_ENST00000530820.1_Silent_p.A53A	NM_005898.4	NP_005889.3	Q14444	CAPR1_HUMAN	cell cycle associated protein 1	53					negative regulation of translation (GO:0017148)|positive regulation of dendrite morphogenesis (GO:0050775)|positive regulation of dendritic spine morphogenesis (GO:0061003)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic mRNA processing body (GO:0000932)|cytoplasmic stress granule (GO:0010494)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			breast(2)|endometrium(2)|kidney(1)|large_intestine(6)|lung(5)|ovary(1)|prostate(1)	18		Acute lymphoblastic leukemia(5;0.00045)|all_hematologic(20;0.0016)				AGACCGAGGCCATGAAGCAGA	0.692																																																0													15	16	16					11																	34074126		2181	4272	6453	SO:0001819	synonymous_variant	4076			BC001731	CCDS31453.1, CCDS31454.1	11p13	2010-08-03	2007-03-27	2007-03-27	ENSG00000135387	ENSG00000135387			6743	protein-coding gene	gene with protein product	"cytoplasmic activation/proliferation-associated protein-1"	601178	"membrane component, chromosome 11, surface marker 1", "GPI-anchored membrane protein 1"	M11S1, GPIAP1		7657653, 16177067, 17210633, 14764709, 15471883	Standard	NM_005898		Approved	caprin-1, RNG105	uc001mvh.1	Q14444	OTTHUMG00000166248	ENST00000341394.4:c.159C>T	11.37:g.34074126C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NMY7|D3DR06|Q15074|Q6IMN4|Q6IMN7|Q9BV09	Silent	SNP	ENST00000341394.4	37	CCDS31453.1																																																																																				0.692	CAPRIN1-001	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000388680.2	NM_005898		T	34074126	C	T	34074126	2	4	650	1	0	0	0	0	0	0	0	1	2637	581	21	2		2	CAPRIN1	11	34074126	Silent	SNP	C	TCGA-KM-8442-01A-11D-2310-10		34074126	100932390	43	40287										
OR4X1	390113	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	48285540	48285540	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	tgtgctgggcaatggcctcaTtgtggtgaccatcctggcca	13	11	1	1	rs144193033		TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr11:48285540T>C	ENST00000320048.1	+	1	128	c.128T>C	c.(127-129)aTt>aCt	p.I43T		NM_001004726.1	NP_001004726.1	Q8NH49	OR4X1_HUMAN	olfactory receptor, family 4, subfamily X, member 1 (gene/pseudogene)	43						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(11)|ovary(1)|pancreas(1)|prostate(1)|skin(5)|stomach(1)	28						AATGGCCTCATTGTGGTGACC	0.478																																																0								T	THR/ILE	1,4401	2.1+/-5.4	0,1,2200	181	162	169		128	3.1	1	11	dbSNP_134	169	0,8596		0,0,4298	no	missense	OR4X1	NM_001004726.1	89	0,1,6498	CC,CT,TT		0.0,0.0227,0.0077	possibly-damaging	43/306	48285540	1,12997	2201	4298	6499	SO:0001583	missense	390113			AB065544	CCDS31487.1	11p11.2	2013-10-10	2013-10-10		ENSG00000176567	ENSG00000176567		"GPCR / Class A : Olfactory receptors"	14854	protein-coding gene	gene with protein product			"olfactory receptor, family 4, subfamily X, member 1"				Standard	NM_001004726		Approved		uc010rht.2	Q8NH49	OTTHUMG00000165301	ENST00000320048.1:c.128T>C	11.37:g.48285540T>C	ENSP00000321506:p.Ile43Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF74	Missense_Mutation	SNP	ENST00000320048.1	37	CCDS31487.1	.	.	.	.	.	.	.	.	.	.	T	10.68	1.419124	0.25552	2.27E-4	0.0	ENSG00000176567	ENST00000320048	T	0.00531	6.76	4.23	3.09	0.35607	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.01124	0.0037	M	0.84585	2.705	0.23221	N	0.998095	D	0.55800	0.973	P	0.51229	0.663	T	0.44236	-0.9341	9	0.54805	T	0.06	.	8.1785	0.31296	0.0:0.0987:0.0:0.9013	.	43	Q8NH49	OR4X1_HUMAN	T	43	ENSP00000321506:I43T	ENSP00000321506:I43T	I	+	2	0	OR4X1	48242116	0.081000	0.21417	0.996000	0.52242	0.048000	0.14542	2.657000	0.46724	0.757000	0.33036	-0.458000	0.05436	ATT		0.478	OR4X1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383373.1	NM_001004726		C	48285540	T	C	48285540	3	2	650	1	0	0	0	0	1	0	0	0	11091	1493	52	3	130	3	OR4X1	11	48285540	Missense_Mutation	SNP	T	TCGA-KM-8442-01A-11D-2310-10	14211414	48285540	86720976	44	40288										
OR4C12	283093	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	50004015	50004015	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gacctattaaaatgaattcaGtcacattctttttcttctcc	3	10	5	1			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr11:50004015G>A	ENST00000335238.4	-	1	56	c.23C>T	c.(22-24)aCt>aTt	p.T8I		NM_001005270.2	NP_001005270.2	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C, member 12	8						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|kidney(4)|large_intestine(3)|liver(1)|lung(19)|ovary(2)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	36						AATGAATTCAGTCACATTCTT	0.338																																																0													48	44	45					11																	50004015		2201	4296	6497	SO:0001583	missense	283093			BK004413	CCDS31496.1	11p11.12	2012-08-09			ENSG00000221954	ENSG00000221954		"GPCR / Class A : Olfactory receptors"	15168	protein-coding gene	gene with protein product							Standard	NM_001005270		Approved		uc010ria.2	Q96R67	OTTHUMG00000166687	ENST00000335238.4:c.23C>T	11.37:g.50004015G>A	ENSP00000334418:p.Thr8Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNF0|Q6IF49	Missense_Mutation	SNP	ENST00000335238.4	37	CCDS31496.1	.	.	.	.	.	.	.	.	.	.	.	15.69	2.908473	0.52333	.	.	ENSG00000221954	ENST00000335238	T	0.02158	4.42	3.31	3.31	0.37934	.	0.000000	0.43260	U	0.000595	T	0.11879	0.0289	M	0.86028	2.79	0.26673	N	0.971689	D	0.63046	0.992	D	0.65010	0.931	T	0.00907	-1.1519	10	0.87932	D	0	.	12.6176	0.56586	0.0:0.0:1.0:0.0	.	8	Q96R67	OR4CC_HUMAN	I	8	ENSP00000334418:T8I	ENSP00000334418:T8I	T	-	2	0	OR4C12	49960591	0.000000	0.05858	0.983000	0.44433	0.764000	0.43329	0.307000	0.19296	1.878000	0.54408	0.398000	0.26397	ACT		0.338	OR4C12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391104.1	NM_001005270		A	50004015	G	A	50004015	3	1	650	1	0	0	0	0	1	0	0	0	11053	1029	36	2	910	2	OR4C12	11	50004015	Missense_Mutation	SNP	G	TCGA-KM-8442-01A-11D-2310-10	1718475	50004015	85002501	45	40289										
OR5M9	390162	mdanderson.org;bcgsc.ca	37	chr11	56230678	56230678	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	tggaggagaagcacacgtccGcaaaagacagatgactcagg	13	9	1	4	rs61902871	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr11:56230678G>A	ENST00000279791.1	-	1	199	c.200C>T	c.(199-201)gCg>gTg	p.A67V		NM_001004743.1	NP_001004743.1	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M, member 9	67						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(17)|ovary(1)|prostate(1)|skin(4)|urinary_tract(2)	36	Esophageal squamous(21;0.00448)					GCACACGTCCGCAAAAGACAG	0.428													a|||	519	0.103634	0.2481	0.062	5008	,	,		21278	0.001		0.0934	False		,,,				2504	0.0542															0								A	VAL/ALA	946,3456	735.1+/-410.6	118,710,1373	80	82	81		200	3.7	1	11	dbSNP_129	81	698,7894	787.4+/-407.6	35,628,3633	yes	missense	OR5M9	NM_001004743.1	64	153,1338,5006	AA,AG,GG		8.1238,21.4902,12.652	benign	67/311	56230678	1644,11350	2201	4296	6497	SO:0001583	missense	390162			AB065747	CCDS31531.1	11q11	2012-08-09			ENSG00000150269	ENSG00000150269		"GPCR / Class A : Olfactory receptors"	15294	protein-coding gene	gene with protein product							Standard	NM_001004743		Approved		uc010rjj.2	Q8NGP3	OTTHUMG00000166874	ENST00000279791.1:c.200C>T	11.37:g.56230678G>A	ENSP00000279791:p.Ala67Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEW5|Q96RB9	Missense_Mutation	SNP	ENST00000279791.1	37	CCDS31531.1	236	0.10805860805860806	146	0.2967479674796748	20	0.055248618784530384	0	0.0	70	0.09234828496042216	A	0.026	-1.372847	0.01214	0.214902	0.081238	ENSG00000150269	ENST00000279791	T	0.02837	4.14	4.85	3.72	0.42706	GPCR, rhodopsin-like superfamily (1);	0.000000	0.41194	N	0.000938	T	0.00012	0.0000	N	0.00602	-1.34	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.44251	-0.9340	9	0.02654	T	1	-16.2914	6.9898	0.24750	0.7313:0.0:0.2687:0.0	rs61902871	67	Q8NGP3	OR5M9_HUMAN	V	67	ENSP00000279791:A67V	ENSP00000279791:A67V	A	-	2	0	OR5M9	55987254	0.000000	0.05858	0.971000	0.41717	0.666000	0.39218	0.408000	0.21065	0.296000	0.22592	-1.839000	0.00587	GCG		0.428	OR5M9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391638.1	NM_001004743		A	56230678	G	A	56230678	3	1	650	1	0	0	0	0	1	0	0	0	11184	1087	38	1	734	1	OR5M9	11	56230678	Missense_Mutation	SNP	G	TCGA-KM-8442-01A-11D-2310-10	6226663	56230678	78775838	46	40290										
P2RY2	5029	ucsc.edu;mdanderson.org	37	chr11	72945651	72945651	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	cgctggggccgggcccgctaCgctcgccgggtggccggggc	20	16	0	0	rs147817701	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr11:72945651C>T	ENST00000311131.2	+	3	914	c.447C>T	c.(445-447)taC>taT	p.Y149Y	P2RY2_ENST00000393597.2_Silent_p.Y149Y|P2RY2_ENST00000393596.2_Silent_p.Y149Y	NM_002564.2|NM_176072.1	NP_002555|NP_788086	P41231	P2RY2_HUMAN	purinergic receptor P2Y, G-protein coupled, 2	149					cellular ion homeostasis (GO:0006873)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|positive regulation of mucus secretion (GO:0070257)|regulation of vasodilation (GO:0042312)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled purinergic nucleotide receptor activity (GO:0045028)|receptor activity (GO:0004872)			endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(3)|lung(8)|ovary(2)|prostate(1)|skin(2)|urinary_tract(2)	25					Suramin(DB04786)	GGGCCCGCTACGCTCGCCGGG	0.697													C|||	29	0.00579073	0.0008	0.0	5008	,	,		14981	0.0		0.002	False		,,,				2504	0.0266															0								C	,,	3,4397	6.2+/-15.9	0,3,2197	37	38	38		447,447,447	-9.3	0.8	11	dbSNP_134	38	12,8572	9.1+/-34.3	0,12,4280	no	coding-synonymous,coding-synonymous,coding-synonymous	P2RY2	NM_002564.2,NM_176071.1,NM_176072.1	,,	0,15,6477	TT,TC,CC		0.1398,0.0682,0.1155	,,	149/378,149/378,149/378	72945651	15,12969	2200	4292	6492	SO:0001819	synonymous_variant	5029			U07225	CCDS8219.1	11q13.5-q14.1	2012-08-08				ENSG00000175591		"Purinergic receptors", "GPCR / Class A : Purinergic receptors, P2Y"	8541	protein-coding gene	gene with protein product		600041				8159738, 9286708	Standard	NM_002564		Approved	P2U	uc001otj.4	P41231		ENST00000311131.2:c.447C>T	11.37:g.72945651C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9W3|Q96EM8	Silent	SNP	ENST00000311131.2	37	CCDS8219.1																																																																																				0.697	P2RY2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397336.1	NM_176072		T	72945651	C	T	72945651	2	4	650	1	0	0	0	0	0	0	0	1	11359	547	19	1		1	P2RY2	11	72945651	Silent	SNP	C	TCGA-KM-8442-01A-11D-2310-10	16714973	72945651	62060865	47	40291										
MPZL3	196264	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	118111082	118111082	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	cgaatctccaaggaaaagacGatataaacacctaatcaaag	6	9	2	1	rs565159411		TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr11:118111082G>A	ENST00000278949.4	-	2	139	c.84C>T	c.(82-84)atC>atT	p.I28I	MPZL3_ENST00000527472.1_Intron|MPZL3_ENST00000525386.1_Intron			Q6UWV2	MPZL3_HUMAN	myelin protein zero-like 3	28					cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|hair cycle (GO:0042633)	integral component of membrane (GO:0016021)				autonomic_ganglia(1)|endometrium(1)|large_intestine(1)|lung(2)|stomach(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.046)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		AGGAAAAGACGATATAAACAC	0.388													G|||	1	0.000199681	0.0	0.0	5008	,	,		19877	0.0		0.0	False		,,,				2504	0.001															0													132	116	121					11																	118111082		2200	4296	6496	SO:0001819	synonymous_variant	196264			AK095399	CCDS8392.1, CCDS66241.1	11q23.3	2013-01-11			ENSG00000160588	ENSG00000160588		"Immunoglobulin superfamily / V-set domain containing"	27279	protein-coding gene	gene with protein product		611707				17273165	Standard	NM_198275		Approved		uc001psm.3	Q6UWV2	OTTHUMG00000166966	ENST00000278949.4:c.84C>T	11.37:g.118111082G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K025|B4DLD5|B4E2I8	Silent	SNP	ENST00000278949.4	37	CCDS8392.1																																																																																				0.388	MPZL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392109.1	NM_198275		A	118111082	G	A	118111082	2	1	650	1	0	0	0	0	0	0	0	1	9758	1048	37	1		1	MPZL3	11	118111082	Silent	SNP	G	TCGA-KM-8442-01A-11D-2310-10	45165431	118111082	16895434	48	40292										
KRT6A	3853	mdanderson.org	37	chr12	52886641	52886641	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ggccggctccaccacccagaCcaaagccaatgccggctcca	9	19	0	1	rs681063	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr12:52886641C>T	ENST00000330722.6	-	1	400	c.332G>A	c.(331-333)gGt>gAt	p.G111D		NM_005554.3	NP_005545.1	P02538	K2C6A_HUMAN	keratin 6A	111	Head.		G -> D (in dbSNP:rs681063).		cell differentiation (GO:0030154)|positive regulation of cell proliferation (GO:0008284)	extracellular vesicular exosome (GO:0070062)|keratin filament (GO:0045095)|membrane (GO:0016020)|nucleus (GO:0005634)	structural constituent of cytoskeleton (GO:0005200)			breast(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|liver(1)|lung(14)|ovary(4)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	39				BRCA - Breast invasive adenocarcinoma(357;0.189)		ACCACCCAGACCAAAGCCAAT	0.647																																																0													30	33	32					12																	52886641		2200	4271	6471	SO:0001583	missense	3853			BC014152, L42593, L42610	CCDS41786.1	12q13.13	2013-01-16			ENSG00000205420	ENSG00000205420		"-", "Intermediate filaments type II, keratins (basic)"	6443	protein-coding gene	gene with protein product		148041	"keratin 6C", "keratin 6D"	KRT6C, KRT6D		1713141, 16831889	Standard	NM_005554		Approved	CK6C, K6C, CK6D, K6D	uc001sam.3	P02538	OTTHUMG00000169597	ENST00000330722.6:c.332G>A	12.37:g.52886641C>T	ENSP00000369317:p.Gly111Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A4QPC1|P48667|Q08AR4|Q6NT67|Q96CL4	Missense_Mutation	SNP	ENST00000330722.6	37	CCDS41786.1	.	.	.	.	.	.	.	.	.	.	C	13.97	2.396691	0.42512	.	.	ENSG00000205420	ENST00000330722;ENST00000452121	D	0.97941	-4.62	5.24	5.24	0.73138	.	0.000000	0.50627	D	0.000103	D	0.99048	0.9674	M	0.93328	3.405	0.48452	D	0.999659	D	0.89917	1.0	D	0.71414	0.973	D	0.99116	1.0848	10	0.49607	T	0.09	.	19.2638	0.93979	0.0:1.0:0.0:0.0	rs681063	111	P02538	K2C6A_HUMAN	D	111;67	ENSP00000369317:G111D	ENSP00000369317:G111D	G	-	2	0	KRT6A	51172908	0.999000	0.42202	0.995000	0.50966	0.400000	0.30750	5.876000	0.69667	2.626000	0.88956	0.549000	0.68633	GGT		0.647	KRT6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404978.2	NM_005554		T	52886641	C	T	52886641	3	4	650	1	0	0	0	0	1	0	0	0	8487	507	18	2	1398	2	KRT6A	12	52886641	Missense_Mutation	SNP	C	TCGA-KM-8442-01A-11D-2310-10		52886641	80965254	49	40293										
SRGAP1	57522	hgsc.bcm.edu	37	chr12	64536390	64536390	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ctgctgttcttccaaaaacaAatcctaccataggacctgcc	5	14	1	0			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr12:64536390A>C	ENST00000355086.3	+	22	3720	c.3196A>C	c.(3196-3198)Aat>Cat	p.N1066H	SRGAP1_ENST00000357825.3_Missense_Mutation_p.N1043H|SRGAP1_ENST00000543397.1_Missense_Mutation_p.N1003H	NM_020762.2	NP_065813.1	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	1066					axon guidance (GO:0007411)|cell migration (GO:0016477)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	Rho GTPase activator activity (GO:0005100)			breast(4)|central_nervous_system(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(26)|ovary(2)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	65			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		TCCAAAAACAAATCCTACCAT	0.507																																																0													113	115	115					12																	64536390		2203	4300	6503	SO:0001583	missense	57522			AB037725	CCDS8967.1	12q13.13	2011-07-04			ENSG00000196935	ENSG00000196935		"Rho GTPase activating proteins"	17382	protein-coding gene	gene with protein product		606523				11672528	Standard	NM_020762		Approved	KIAA1304, ARHGAP13	uc010ssp.1	Q7Z6B7	OTTHUMG00000168750	ENST00000355086.3:c.3196A>C	12.37:g.64536390A>C	ENSP00000347198:p.Asn1066His	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H8A3|Q9P2P2	Missense_Mutation	SNP	ENST00000355086.3	37	CCDS8967.1	.	.	.	.	.	.	.	.	.	.	A	20.5	4.003655	0.74932	.	.	ENSG00000196935	ENST00000355086;ENST00000357825;ENST00000543397	T;T;T	0.32272	1.46;1.46;1.46	5.91	4.75	0.60458	.	0.000000	0.37809	U	0.001926	T	0.36880	0.0983	L	0.38175	1.15	0.43355	D	0.995427	P;P	0.48764	0.511;0.915	B;P	0.53988	0.101;0.739	T	0.03863	-1.0997	9	.	.	.	.	13.3793	0.60759	0.8686:0.1314:0.0:0.0	.	1066;1003	Q7Z6B7;G5EA48	SRGP1_HUMAN;.	H	1066;1043;1003	ENSP00000347198:N1066H;ENSP00000350480:N1043H;ENSP00000437948:N1003H	.	N	+	1	0	SRGAP1	62822657	1.000000	0.71417	0.990000	0.47175	0.964000	0.63967	6.976000	0.76135	1.046000	0.40249	0.379000	0.24179	AAT		0.507	SRGAP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000400896.1			C	64536390	A	C	64536390	3	2	650	1	0	0	0	0	1	0	0	0	15157	14	1	5	3282	5	SRGAP1	12	64536390	Missense_Mutation	SNP	A	TCGA-KM-8442-01A-11D-2310-10	11649749	64536390	69315505	50	40294										
C1QTNF9B	387911	ucsc.edu	37	chr13	24465600	24465600	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	cagagctcacgtaagcatctCtggtgtgcagtatttttact	9	9	2	1	rs3864969	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr13:24465600C>T	ENST00000382140.2	-	5	890	c.830G>A	c.(829-831)aGa>aAa	p.R277K	C1QTNF9B_ENST00000556521.1_5'UTR|MIPEP_ENST00000382172.3_5'Flank|C1QTNF9B-AS1_ENST00000435039.2_RNA|C1QTNF9B-AS1_ENST00000417034.1_RNA|C1QTNF9B_ENST00000382137.3_Missense_Mutation_p.R277K|C1QTNF9B_ENST00000382145.1_3'UTR|C1QTNF9B-AS1_ENST00000382133.4_RNA|MIPEP_ENST00000469167.1_5'Flank			B2RNN3	C1T9B_HUMAN	C1q and tumor necrosis factor related protein 9B	277	C1q. {ECO:0000255|PROSITE- ProRule:PRU00368}.					collagen trimer (GO:0005581)|extracellular vesicular exosome (GO:0070062)				breast(1)|central_nervous_system(1)|large_intestine(3)|lung(1)	6						GTAAGCATCTCTGGTGTGCAG	0.512													T|||	68	0.0135783	0.0348	0.0115	5008	,	,		17990	0.0		0.0089	False		,,,				2504	0.0051															0													124	107	113					13																	24465600		2188	4275	6463	SO:0001583	missense	387911			BC110413	CCDS31947.1	13q12.12	2011-05-08			ENSG00000205863	ENSG00000205863			34072	protein-coding gene	gene with protein product		614148				17544811	Standard	NM_001007537		Approved	CTRP9B	uc010tcv.1	B2RNN3	OTTHUMG00000016570	ENST00000382140.2:c.830G>A	13.37:g.24465600C>T	ENSP00000371575:p.Arg277Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3T6|B9EH31|Q0VGC5|Q5VX65|Q5VX66|Q8IUU4	Missense_Mutation	SNP	ENST00000382140.2	37	CCDS31947.1	58	0.026556776556776556	31	0.06300813008130081	8	0.022099447513812154	1	0.0017482517482517483	18	0.023746701846965697	t	3.628	-0.076110	0.07184	.	.	ENSG00000205863	ENST00000382137;ENST00000382140	T;T	0.74632	-0.86;-0.86	3.96	3.96	0.45880	Tumour necrosis factor-like (2);Complement C1q protein (3);	0.107337	0.64402	N	0.000004	T	0.06872	0.0175	N	0.02721	-0.515	0.80722	D	1	B	0.02656	0.0	B	0.01281	0.0	T	0.03453	-1.1035	10	0.25751	T	0.34	.	1.5902	0.02653	0.1778:0.0991:0.1595:0.5636	rs3864969;rs52833573;rs3864969	277	B2RNN3	C1T9B_HUMAN	K	277	ENSP00000371572:R277K;ENSP00000371575:R277K	ENSP00000371572:R277K	R	-	2	0	C1QTNF9B	23363600	0.993000	0.37304	0.983000	0.44433	0.120000	0.20174	1.648000	0.37271	0.533000	0.28675	-0.535000	0.04281	AGA		0.512	C1QTNF9B-001	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044162.3	NM_001007537		T	24465600	C	T	24465600	3	4	650	1	0	0	0	0	1	0	0	0	1973	913	32	2	174	2	C1QTNF9B	13	24465600	Missense_Mutation	SNP	C	TCGA-KM-8442-01A-11D-2310-10		24465600	90704278	51	40295										
PRMT5	10419	broad.mit.edu	37	chr14	23393288	23393288	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	cagcaaatgagcccagaagcTcactgacaatgatgtctgct	9	11	2	4			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr14:23393288T>C	ENST00000324366.8	-	12	1527	c.1304A>G	c.(1303-1305)gAg>gGg	p.E435G	PRMT5-AS1_ENST00000599580.2_RNA|PRMT5_ENST00000397440.4_Missense_Mutation_p.E264G|PRMT5-AS1_ENST00000424245.2_RNA|PRMT5_ENST00000553897.1_Missense_Mutation_p.E391G|PRMT5_ENST00000216350.8_Missense_Mutation_p.E374G|PRMT5_ENST00000397441.2_Missense_Mutation_p.E418G|PRMT5-AS1_ENST00000587245.2_RNA|PRMT5_ENST00000553641.1_5'Flank|PRMT5-AS1_ENST00000595662.1_RNA|PRMT5-AS1_ENST00000457443.2_RNA|PRMT5_ENST00000538452.1_Missense_Mutation_p.E329G|PRMT5-AS1_ENST00000609885.1_RNA|PRMT5-AS1_ENST00000590290.1_RNA	NM_006109.3	NP_006100.2	O14744	ANM5_HUMAN	protein arginine methyltransferase 5	435	SAM-dependent MTase PRMT-type. {ECO:0000255|PROSITE-ProRule:PRU01015}.				cell proliferation (GO:0008283)|circadian regulation of gene expression (GO:0032922)|endothelial cell activation (GO:0042118)|gene expression (GO:0010467)|histone H4-R3 methylation (GO:0043985)|ncRNA metabolic process (GO:0034660)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|peptidyl-arginine methylation (GO:0018216)|peptidyl-arginine methylation, to symmetrical-dimethyl arginine (GO:0019918)|peptidyl-arginine N-methylation (GO:0035246)|regulation of mitosis (GO:0007088)|regulation of transcription, DNA-templated (GO:0006355)|RNA metabolic process (GO:0016070)|spliceosomal snRNP assembly (GO:0000387)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|methylosome (GO:0034709)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|core promoter sequence-specific DNA binding (GO:0001046)|histone-arginine N-methyltransferase activity (GO:0008469)|methyltransferase activity (GO:0008168)|protein-arginine omega-N symmetric methyltransferase activity (GO:0035243)|ribonucleoprotein complex binding (GO:0043021)|transcription corepressor activity (GO:0003714)			endometrium(4)|kidney(3)|large_intestine(3)|lung(9)|ovary(1)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	25	all_cancers(95;2.76e-05)			GBM - Glioblastoma multiforme(265;0.0126)		GCCCAGAAGCTCACTGACAAT	0.532																																																0													106	97	100					14																	23393288		2203	4300	6503	SO:0001583	missense	10419			AF015913	CCDS9579.1, CCDS41922.1, CCDS61394.1, CCDS61395.1, CCDS61396.1	14q11.2	2014-06-12	2006-02-16	2006-02-16	ENSG00000100462	ENSG00000100462	2.1.1.125	"Protein arginine methyltransferases"	10894	protein-coding gene	gene with protein product		604045	"skb1 (S. pombe) homolog", "SKB1 homolog (S. pombe)"	HRMT1L5, SKB1		9843966	Standard	NM_001282955		Approved	SKB1Hs	uc001whm.1	O14744	OTTHUMG00000028709	ENST00000324366.8:c.1304A>G	14.37:g.23393288T>C	ENSP00000319169:p.Glu435Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MTP3|A8MZ91|B4DX49|B4DY30|B5BU10|D3DS33|E2QRE7|Q6IBR1|Q9UKH1	Missense_Mutation	SNP	ENST00000324366.8	37	CCDS9579.1	.	.	.	.	.	.	.	.	.	.	T	23.5	4.419250	0.83559	.	.	ENSG00000100462	ENST00000324366;ENST00000397441;ENST00000397440;ENST00000216350;ENST00000555454;ENST00000538452;ENST00000553897	T;T;T;T;T;T;T	0.23552	1.9;1.9;1.9;1.9;1.9;1.9;1.9	5.5	5.5	0.81552	.	0.089817	0.85682	D	0.000000	T	0.59797	0.2220	M	0.91196	3.185	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.97110	0.999;0.999;1.0;0.999;1.0	T	0.69476	-0.5135	10	0.87932	D	0	-22.6753	14.731	0.69383	0.0:0.0:0.0:1.0	.	391;374;264;435;418	G3V5W5;B4DX49;A8MTP3;O14744;A8MZ91	.;.;.;ANM5_HUMAN;.	G	435;418;264;374;34;329;391	ENSP00000319169:E435G;ENSP00000380583:E418G;ENSP00000380582:E264G;ENSP00000216350:E374G;ENSP00000451245:E34G;ENSP00000444915:E329G;ENSP00000452555:E391G	ENSP00000216350:E374G	E	-	2	0	PRMT5	22463128	1.000000	0.71417	1.000000	0.80357	0.820000	0.46376	7.304000	0.78882	2.313000	0.78055	0.454000	0.30748	GAG		0.532	PRMT5-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071674.3			C	23393288	T	C	23393288	3	2	650	1	0	0	0	0	1	0	0	0	12549	1551	54	3	633	3	PRMT5	14	23393288	Missense_Mutation	SNP	T	TCGA-KM-8442-01A-11D-2310-10		23393288	83956252	52	40296										
AHNAK2	113146	broad.mit.edu	37	chr14	105412335	105412335	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ggggcagacaccccgaacgaCggcatcttgaacttgggcat	13	12	1	2	rs202104959	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr14:105412335C>T	ENST00000333244.5	-	7	9572	c.9453G>A	c.(9451-9453)ccG>ccA	p.P3151P	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3151						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)		p.P3151P(1)		cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			CCCCGAACGACGGCATCTTGA	0.602																																																1	Substitution - coding silent(1)	endometrium(1)											198	138	157					14																	105412335		1921	4005	5926	SO:0001819	synonymous_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.9453G>A	14.37:g.105412335C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Silent	SNP	ENST00000333244.5	37	CCDS45177.1																																																																																				0.602	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		T	105412335	C	T	105412335	2	4	650	1	0	0	0	0	0	0	0	1	415	523	19	1		1	AHNAK2	14	105412335	Silent	SNP	C	TCGA-KM-8442-01A-11D-2310-10	82019047	105412335	1937205	53	40297										
EIF2AK4	440275	broad.mit.edu	37	chr15	40257897	40257897	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	taatgtgcaggcagtgatgaAcaacttggaaaattagtcta	10	5	1	2			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr15:40257897A>G	ENST00000263791.5	+	8	913	c.870A>G	c.(868-870)gaA>gaG	p.E290E	EIF2AK4_ENST00000382727.2_Silent_p.E290E|EIF2AK4_ENST00000559624.1_Silent_p.E290E	NM_001013703.2	NP_001013725.2	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha kinase 4	290					cellular response to starvation (GO:0009267)|endoplasmic reticulum unfolded protein response (GO:0030968)|negative regulation of translation (GO:0017148)|protein phosphorylation (GO:0006468)|regulation of translational initiation (GO:0006446)|regulation of translational initiation in response to stress (GO:0043558)	cytosolic ribosome (GO:0022626)	ATP binding (GO:0005524)|eukaryotic translation initiation factor 2alpha kinase activity (GO:0004694)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(2)|endometrium(1)|kidney(3)|large_intestine(8)|lung(18)|ovary(1)|prostate(3)|skin(2)|stomach(1)	40		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)		GCAGTGATGAACAACTTGGAA	0.418																																																0													170	163	165					15																	40257897		1886	4125	6011	SO:0001819	synonymous_variant	440275			AB037759	CCDS42016.1	15q13.3	2008-08-18				ENSG00000128829			19687	protein-coding gene	gene with protein product		609280				10504407	Standard	XM_005254392		Approved	GCN2, KIAA1338	uc001zkm.1	Q9P2K8		ENST00000263791.5:c.870A>G	15.37:g.40257897A>G		Somatic		WXS	Illumina HiSeq	Phase_I	C9JEC4|Q69YL7|Q6DC97|Q96GN6|Q9H5K1|Q9NSQ3|Q9NSZ5|Q9UJ56	Silent	SNP	ENST00000263791.5	37	CCDS42016.1																																																																																				0.418	EIF2AK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418395.1			G	40257897	A	G	40257897	2	3	650	1	0	0	0	0	0	0	0	1	5001	40	2	3		3	EIF2AK4	15	40257897	Silent	SNP	A	TCGA-KM-8442-01A-11D-2310-10		40257897	62273495	54	40298										
DPP8	54878	bcgsc.ca	37	chr15	65743404	65743404	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	tactggtatgtgcaaaatggAcattctcatccaggaaacca	8	9	1	0			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr15:65743404A>G	ENST00000341861.5	-	19	4087	c.2507T>C	c.(2506-2508)gTc>gCc	p.V836A	DPP8_ENST00000339244.5_Missense_Mutation_p.V663A|DPP8_ENST00000358939.4_Missense_Mutation_p.V720A|DPP8_ENST00000559233.1_Missense_Mutation_p.V836A|DPP8_ENST00000560048.2_5'UTR|DPP8_ENST00000321147.6_Missense_Mutation_p.V785A|DPP8_ENST00000321118.7_Missense_Mutation_p.V787A|DPP8_ENST00000300141.6_Missense_Mutation_p.V820A	NM_197960.2	NP_932064.1	Q6V1X1	DPP8_HUMAN	dipeptidyl-peptidase 8	836					immune response (GO:0006955)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	dipeptidyl-peptidase activity (GO:0008239)|serine-type peptidase activity (GO:0008236)			NS(1)|breast(2)|endometrium(3)|large_intestine(11)|lung(11)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	36						TGCAAAATGGACATTCTCATC	0.363																																																0													136	146	143					15																	65743404		2201	4299	6500	SO:0001583	missense	54878			AF221634	CCDS10207.1, CCDS10208.1, CCDS10209.1, CCDS10210.1	15q22	2008-07-18	2006-01-12		ENSG00000074603	ENSG00000074603			16490	protein-coding gene	gene with protein product	"dipeptidyl peptidase VIII", "dipeptidyl peptidase IV-related protein-1", "prolyl dipeptidase DPP8"	606819	"dipeptidylpeptidase 8"			11012666	Standard	XM_005254500		Approved	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191	uc002aox.3	Q6V1X1	OTTHUMG00000133150	ENST00000341861.5:c.2507T>C	15.37:g.65743404A>G	ENSP00000339208:p.Val836Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z4C8|Q7Z4D3|Q7Z4E1|Q8IWG7|Q8NEM5|Q96JX1|Q9HBM2|Q9HBM3|Q9HBM4|Q9HBM5|Q9NXF4	Missense_Mutation	SNP	ENST00000341861.5	37	CCDS10207.1	.	.	.	.	.	.	.	.	.	.	A	20.0	3.930737	0.73327	.	.	ENSG00000074603	ENST00000341861;ENST00000358939;ENST00000300141;ENST00000321147;ENST00000321118;ENST00000339244	T;T;T;T;T;T	0.49432	0.78;0.78;0.78;0.78;0.78;0.78	5.31	5.31	0.75309	Peptidase S9, prolyl oligopeptidase, catalytic domain (1);	0.000000	0.64402	D	0.000006	T	0.73210	0.3558	M	0.89478	3.035	0.58432	D	0.999999	D;D;D;D;D	0.89917	1.0;1.0;0.99;1.0;1.0	D;D;D;D;D	0.97110	1.0;1.0;0.98;1.0;1.0	T	0.79420	-0.1811	10	0.87932	D	0	-14.4712	14.4796	0.67573	1.0:0.0:0.0:0.0	.	787;820;720;785;836	Q6V1X1-5;Q6V1X1-3;Q6V1X1-4;Q6V1X1-2;Q6V1X1	.;.;.;.;DPP8_HUMAN	A	836;720;820;785;787;663	ENSP00000339208:V836A;ENSP00000351817:V720A;ENSP00000300141:V820A;ENSP00000318111:V785A;ENSP00000316373:V787A;ENSP00000341230:V663A	ENSP00000300141:V820A	V	-	2	0	DPP8	63530457	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.332000	0.96446	2.009000	0.58944	0.528000	0.53228	GTC		0.363	DPP8-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256847.1	NM_017743		G	65743404	A	G	65743404	3	3	650	1	0	0	0	0	1	0	0	0	4734	275	10	3	197	3	DPP8	15	65743404	Missense_Mutation	SNP	A	TCGA-KM-8442-01A-11D-2310-10	25485507	65743404	36787988	55	40299										
ADAMTS7	11173	ucsc.edu;mdanderson.org	37	chr15	79092750	79092750	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	cggtattgtagctcgtagaaGgcgggcgcgtctcggcgcac	16	11	1	1	rs7173267	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr15:79092750G>C	ENST00000388820.4	-	2	450	c.240C>G	c.(238-240)gcC>gcG	p.A80A	ADAMTS7_ENST00000566303.1_5'UTR	NM_014272.3	NP_055087.2	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 7	80					cellular response to BMP stimulus (GO:0071773)|cellular response to interleukin-1 (GO:0071347)|cellular response to tumor necrosis factor (GO:0071356)|negative regulation of chondrocyte differentiation (GO:0032331)|proteolysis involved in cellular protein catabolic process (GO:0051603)	cell surface (GO:0009986)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(2)|lung(23)|ovary(1)|prostate(8)|skin(9)	54						GCTCGTAGAAGGCGGGCGCGT	0.692													G|||	1245	0.248602	0.1044	0.2968	5008	,	,		12618	0.1518		0.4284	False		,,,				2504	0.3241															0								G		628,3716		55,518,1599	11	12	11		240	1.1	0.9	15	dbSNP_116	11	3580,4914		781,2018,1448	no	coding-synonymous	ADAMTS7	NM_014272.3		836,2536,3047	CC,CG,GG		42.1474,14.4567,32.7777		80/1687	79092750	4208,8630	2172	4247	6419	SO:0001819	synonymous_variant	11173			AF140675	CCDS32303.1	15q25.1	2012-05-16	2005-08-19		ENSG00000136378	ENSG00000136378		"ADAM metallopeptidases with thrombospondin type 1 motif"	223	protein-coding gene	gene with protein product	"COMPase", "a disintegrin and metalloprotease with thrombospondin motifs-7 preproprotein"	605009	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 7"			10464288	Standard	NM_014272		Approved	ADAM-TS7, DKFZp434H204	uc002bej.4	Q9UKP4	OTTHUMG00000172907	ENST00000388820.4:c.240C>G	15.37:g.79092750G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q14F51|Q6P7J9	Silent	SNP	ENST00000388820.4	37	CCDS32303.1																																																																																				0.692	ADAMTS7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000421331.1	NM_014272		C	79092750	G	C	79092750	2	2	650	1	0	0	0	0	0	0	0	1	271	987	35	4		4	ADAMTS7	15	79092750	Silent	SNP	G	TCGA-KM-8442-01A-11D-2310-10	13349346	79092750	23438642	56	40300										
FSD2	123722	broad.mit.edu;mdanderson.org	37	chr15	83451563	83451563	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	tgacctttatgaaatccaccTtctcctcgtgacacatctcc	4	15	2	3			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr15:83451563T>C	ENST00000334574.8	-	4	1131	c.950A>G	c.(949-951)aAg>aGg	p.K317R	FSD2_ENST00000541889.1_Missense_Mutation_p.K317R			A1L4K1	FSD2_HUMAN	fibronectin type III and SPRY domain containing 2	317										breast(2)|central_nervous_system(1)|large_intestine(5)|lung(10)	18						GAAATCCACCTTCTCCTCGTG	0.378																																																0													266	253	257					15																	83451563		1926	4125	6051	SO:0001583	missense	123722			AK122875	CCDS45332.1, CCDS61738.1	15q25.2	2013-02-11	2006-01-11	2006-01-11		ENSG00000186628		"Fibronectin type III domain containing"	18024	protein-coding gene	gene with protein product			"SPRY domain containing 1"	SPRYD1			Standard	NM_001007122		Approved	RP11-127F21	uc002bjd.2	A1L4K1		ENST00000334574.8:c.950A>G	15.37:g.83451563T>C	ENSP00000335651:p.Lys317Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVG1|B7ZM02	Missense_Mutation	SNP	ENST00000334574.8	37	CCDS45332.1	.	.	.	.	.	.	.	.	.	.	T	21.9	4.211095	0.79240	.	.	ENSG00000186628	ENST00000334574;ENST00000541889	T;T	0.63580	0.43;-0.05	6.04	6.04	0.98038	.	0.000000	0.85682	D	0.000000	T	0.74382	0.3709	L	0.50333	1.59	0.37277	D	0.907671	P;D	0.89917	0.624;1.0	P;D	0.83275	0.599;0.996	T	0.76217	-0.3040	10	0.38643	T	0.18	-49.0724	15.7575	0.78046	0.0:0.0:0.0:1.0	.	317;317	B7ZM02;A1L4K1	.;FSD2_HUMAN	R	317	ENSP00000335651:K317R;ENSP00000444078:K317R	ENSP00000335651:K317R	K	-	2	0	FSD2	81248617	1.000000	0.71417	0.994000	0.49952	0.805000	0.45488	6.684000	0.74538	2.317000	0.78254	0.459000	0.35465	AAG		0.378	FSD2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418385.1	NM_001007122		C	83451563	T	C	83451563	3	2	650	1	0	0	0	0	1	0	0	0	6078	1609	56	3	1339	3	FSD2	15	83451563	Missense_Mutation	SNP	T	TCGA-KM-8442-01A-11D-2310-10	4358813	83451563	19079829	57	40301										
WFIKKN1	117166	mdanderson.org	37	chr16	681284	681284	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	tacgtccactcctgccgctcCtgctcctcctccggctgacc	7	21	0	1	rs8062289	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr16:681284C>T	ENST00000319070.2	+	1	353	c.31C>T	c.(31-33)Ctg>Ttg	p.L11L		NM_053284.2	NP_444514.1	Q96NZ8	WFKN1_HUMAN	WAP, follistatin/kazal, immunoglobulin, kunitz and netrin domain containing 1	11					muscle fiber development (GO:0048747)|negative regulation of DNA binding (GO:0043392)|negative regulation of protein binding (GO:0032091)|palate development (GO:0060021)|skeletal system development (GO:0001501)	extracellular region (GO:0005576)	metalloendopeptidase inhibitor activity (GO:0008191)|serine-type endopeptidase inhibitor activity (GO:0004867)			breast(1)|endometrium(1)|prostate(1)|upper_aerodigestive_tract(1)	4		Hepatocellular(780;0.00335)				CCTGCCGCTCCTGCTCCTCCT	0.741													c|||	1093	0.218251	0.3986	0.0965	5008	,	,		11117	0.0357		0.1859	False		,,,				2504	0.2822															0										1488,2824		287,914,955	10	11	11		31	0.8	0	16	dbSNP_116	11	1579,6943		165,1249,2847	no	coding-synonymous	WFIKKN1	NM_053284.2		452,2163,3802	TT,TC,CC		18.5285,34.5083,23.8975		11/549	681284	3067,9767	2156	4261	6417	SO:0001819	synonymous_variant	117166			AK075356	CCDS10414.1	16p13	2013-01-21			ENSG00000127578	ENSG00000127578		"Immunoglobulin superfamily / I-set domain containing", "WAP four-disulfide core domain containing"	30912	protein-coding gene	gene with protein product	"WAP four-disulfide core domain 20A"	608021	"chromosome 16 open reading frame 12"	C16orf12		11274388, 11928817	Standard	NM_053284		Approved	RJD2, WFIKKN, WFDC20A	uc002cht.1	Q96NZ8	OTTHUMG00000090359	ENST00000319070.2:c.31C>T	16.37:g.681284C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q7LDW0|Q8NBQ1|Q96S20	Silent	SNP	ENST00000319070.2	37	CCDS10414.1																																																																																				0.741	WFIKKN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206731.2	NM_053284		T	681284	C	T	681284	2	4	650	1	0	0	0	0	0	0	0	1	17370	680	24	2		2	WFIKKN1	16	681284	Silent	SNP	C	TCGA-KM-8442-01A-11D-2310-10		681284	89673469	58	40302										
CACNA1H	8912	mdanderson.org	37	chr16	1252259	1252259	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	actgccgctgccagcctcagActggccacagggctgggcac	13	16	1	1	rs9934839	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr16:1252259A>G	ENST00000348261.5	+	9	2057	c.1809A>G	c.(1807-1809)agA>agG	p.R603R	CACNA1H_ENST00000358590.4_Silent_p.R603R|CACNA1H_ENST00000565831.1_Silent_p.R603R	NM_021098.2	NP_066921.2	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type, alpha 1H subunit	603					aldosterone biosynthetic process (GO:0032342)|axon guidance (GO:0007411)|calcium ion import (GO:0070509)|cellular response to hormone stimulus (GO:0032870)|cellular response to potassium ion (GO:0035865)|cortisol biosynthetic process (GO:0034651)|membrane depolarization during action potential (GO:0086010)|muscle contraction (GO:0006936)|muscle organ development (GO:0007517)|myoblast fusion (GO:0007520)|positive regulation of acrosome reaction (GO:2000344)|regulation of heart contraction (GO:0008016)|regulation of membrane potential (GO:0042391)|transport (GO:0006810)	caveola (GO:0005901)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|voltage-gated calcium channel complex (GO:0005891)	low voltage-gated calcium channel activity (GO:0008332)|metal ion binding (GO:0046872)|scaffold protein binding (GO:0097110)			breast(4)|endometrium(5)|kidney(2)|lung(23)	34		Hepatocellular(780;0.00369)			Amiodarone(DB01118)|Bepridil(DB01244)|Cinnarizine(DB00568)|Felodipine(DB01023)|Flunarizine(DB04841)|Isradipine(DB00270)|Nifedipine(DB01115)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Zonisamide(DB00909)	CCAGCCTCAGACTGGCCACAG	0.677													G|||	1986	0.396565	0.5877	0.379	5008	,	,		14978	0.119		0.4901	False		,,,				2504	0.3405															0			GRCh37	CM071579	CACNA1H	M	rs9934839	G	,	2248,1408		734,780,314	5	6	6		1809,1809	2.3	0.9	16	dbSNP_119	6	4058,3834		1155,1748,1043	no	coding-synonymous,coding-synonymous	CACNA1H	NM_001005407.1,NM_021098.2	,	1889,2528,1357	GG,GA,AA		48.5808,38.512,45.3931	,	603/2348,603/2354	1252259	6306,5242	1828	3946	5774	SO:0001819	synonymous_variant	8912			AL031703	CCDS45375.1, CCDS45376.1	16p13.3	2012-03-07	2007-02-16					"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1395	protein-coding gene	gene with protein product		607904				9670923, 16382099	Standard	NM_021098		Approved	Cav3.2	uc002cks.3	O95180		ENST00000348261.5:c.1809A>G	16.37:g.1252259A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B5ME00|F8WFD1|O95802|Q8WWI6|Q96QI6|Q96RZ9|Q9NYY4|Q9NYY5	Silent	SNP	ENST00000348261.5	37	CCDS45375.1																																																																																				0.677	CACNA1H-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000421601.1	NM_001005407		G	1252259	A	G	1252259	2	3	650	1	0	0	0	0	0	0	0	1	2547	272	10	3		3	CACNA1H	16	1252259	Silent	SNP	A	TCGA-KM-8442-01A-11D-2310-10	570975	1252259	89102494	59	40303										
NME3	4832	mdanderson.org	37	chr16	1820992	1820992	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	accacgtccagcccctgccaTacctgtgcggaggaacgggc	12	16	0	0	rs11890	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr16:1820992T>A	ENST00000219302.3	-	4	477	c.282A>T	c.(280-282)gtA>gtT	p.V94V	NME3_ENST00000563498.1_Silent_p.V10V|EME2_ENST00000307394.7_5'Flank|EME2_ENST00000568449.1_5'Flank	NM_002513.2	NP_002504.2	Q13232	NDK3_HUMAN	NME/NM23 nucleoside diphosphate kinase 3	94					apoptotic process (GO:0006915)|CTP biosynthetic process (GO:0006241)|GTP biosynthetic process (GO:0006183)|UTP biosynthetic process (GO:0006228)	extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|nucleoside diphosphate kinase activity (GO:0004550)			lung(1)	1						GCCCCTGCCATACCTGTGCGG	0.741													T|||	3824	0.763578	0.848	0.8761	5008	,	,		10226	0.6369		0.7903	False		,,,				2504	0.6728															0								T		3531,581		1515,501,40	9	12	11		282	1.4	1	16	dbSNP_52	11	6820,1398		2822,1176,111	no	coding-synonymous	NME3	NM_002513.2		4337,1677,151	AA,AT,TT		17.0114,14.1294,16.0503		94/170	1820992	10351,1979	2056	4109	6165	SO:0001819	synonymous_variant	4832			U29656	CCDS10443.1	16q13.3	2013-04-29	2012-05-18		ENSG00000103024	ENSG00000103024			7851	protein-coding gene	gene with protein product		601817	"non-metastatic cells 3, protein expressed in"			9067290, 19852809	Standard	NM_002513		Approved	DR-nm23, NM23-H3, NDPKC	uc002cmm.3	Q13232	OTTHUMG00000128635	ENST00000219302.3:c.282A>T	16.37:g.1820992T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BWH4	Silent	SNP	ENST00000219302.3	37	CCDS10443.1																																																																																				0.741	NME3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250505.2	NM_002513		A	1820992	T	A	1820992	2	1	650	1	0	0	0	0	0	0	0	1	10499	1393	49	5		5	NME3	16	1820992	Silent	SNP	T	TCGA-KM-8442-01A-11D-2310-10	568733	1820992	88533761	60	40304										
KRTAP4-3	85290	mdanderson.org	37	chr17	39324139	39324139	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ggggcggcagcaggtggtccTgcagcagctgggtttgcagc	19	10	0	0	rs12603046		TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr17:39324139T>G	ENST00000391356.2	-	1	285	c.286A>C	c.(286-288)Agg>Cgg	p.R96R		NM_033187.1	NP_149443.1	Q9BYR4	KRA43_HUMAN	keratin associated protein 4-3	96	29 X 5 AA repeats of C-C-[GIKRQVH]-[SPT]- [STA].				aging (GO:0007568)|hair cycle (GO:0042633)	keratin filament (GO:0045095)				breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(2)|upper_aerodigestive_tract(1)	12		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000449)			CAGGTGGTCCTgcagcagctg	0.612																																																0													8	11	10					17																	39324139		2005	4178	6183	SO:0001819	synonymous_variant	85290			AJ406935	CCDS42331.1	17q21.2	2013-06-25			ENSG00000196156	ENSG00000196156		"Keratin associated proteins"	18908	protein-coding gene	gene with protein product							Standard	NM_033187		Approved	KAP4.3	uc010cxl.3	Q9BYR4	OTTHUMG00000133639	ENST00000391356.2:c.286A>C	17.37:g.39324139T>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000391356.2	37	CCDS42331.1																																																																																				0.612	KRTAP4-3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257784.1			G	39324139	T	G	39324139	2	3	650	1	0	0	0	0	0	0	0	1	8559	1579	55	5		5	KRTAP4-3	17	39324139	Silent	SNP	T	TCGA-KM-8442-01A-11D-2310-10		39324139	41871071	61	40305										
GFAP	2670	ucsc.edu	37	chr17	42985455	42985455	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	tccatcccgcatctccacggTcttcaccacgatgttcctct	5	18	4	0			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr17:42985455T>C	ENST00000253408.5	-	8	1299	c.1234A>G	c.(1234-1236)Acc>Gcc	p.T412A	GFAP_ENST00000588735.1_Missense_Mutation_p.T38A	NM_002055.4	NP_002046.1	P14136	GFAP_HUMAN	glial fibrillary acidic protein	412	Tail.				astrocyte development (GO:0014002)|Bergmann glial cell differentiation (GO:0060020)|extracellular matrix organization (GO:0030198)|intermediate filament organization (GO:0045109)|long-term synaptic potentiation (GO:0060291)|negative regulation of neuron projection development (GO:0010977)|neuron projection regeneration (GO:0031102)|positive regulation of Schwann cell proliferation (GO:0010625)|regulation of neurotransmitter uptake (GO:0051580)|response to wounding (GO:0009611)	astrocyte projection (GO:0097449)|cell body (GO:0044297)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|intermediate filament (GO:0005882)|membrane (GO:0016020)	structural constituent of cytoskeleton (GO:0005200)			endometrium(3)|kidney(1)|large_intestine(2)|liver(1)|lung(11)|ovary(1)|pancreas(1)|skin(2)|urinary_tract(1)	23		Prostate(33;0.0959)				ATCTCCACGGTCTTCACCACG	0.587																																																0													233	199	211					17																	42985455		2203	4300	6503	SO:0001583	missense	2670			S40719	CCDS11491.1, CCDS45708.1, CCDS59296.1	17q21	2013-01-16						"Intermediate filaments type III"	4235	protein-coding gene	gene with protein product	"intermediate filament protein"	137780				9693047	Standard	NM_002055		Approved	FLJ45472	uc002ihq.3	P14136		ENST00000253408.5:c.1234A>G	17.37:g.42985455T>C	ENSP00000253408:p.Thr412Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RD44|D3DX59|E9PAX3|Q53H98|Q5D055|Q6ZQS3|Q7Z5J6|Q7Z5J7|Q96KS4|Q96P18|Q9UFD0	Missense_Mutation	SNP	ENST00000253408.5	37	CCDS11491.1	.	.	.	.	.	.	.	.	.	.	T	26.7	4.766810	0.90020	.	.	ENSG00000131095	ENST00000253408;ENST00000421021	D	0.99515	-6.06	5.13	5.13	0.70059	.	0.058374	0.64402	D	0.000002	D	0.99281	0.9749	M	0.80847	2.515	0.80722	D	1	P	0.34837	0.472	P	0.48089	0.566	D	0.99376	1.0921	10	0.87932	D	0	.	15.1002	0.72269	0.0:0.0:0.0:1.0	.	412	P14136	GFAP_HUMAN	A	412;387	ENSP00000253408:T412A	ENSP00000253408:T412A	T	-	1	0	GFAP	40340981	1.000000	0.71417	0.997000	0.53966	0.987000	0.75469	5.782000	0.68973	2.163000	0.67991	0.448000	0.29417	ACC		0.587	GFAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000448701.1	NM_002055		C	42985455	T	C	42985455	3	2	650	1	0	0	0	0	1	0	0	0	6344	1667	58	3	72	3	GFAP	17	42985455	Missense_Mutation	SNP	T	TCGA-KM-8442-01A-11D-2310-10	3661316	42985455	38209755	62	40306										
TCF3	6929	mdanderson.org	37	chr19	1622116	1622116	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ccactgctgcccaccgggccGctaccgggcgggaggggcag	17	16	0	0	rs2240590	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr19:1622116G>A	ENST00000262965.5	-	10	1103	c.759C>T	c.(757-759)agC>agT	p.S253S	TCF3_ENST00000453954.2_Silent_p.S169S|TCF3_ENST00000395423.3_Silent_p.S202S|TCF3_ENST00000588136.1_Silent_p.S253S|TCF3_ENST00000344749.5_Silent_p.S253S	NM_003200.3	NP_003191.1	Q9HCS4	TF7L1_HUMAN	transcription factor 3	0	Pro-rich.				anterior/posterior axis specification, embryo (GO:0008595)|axial mesoderm morphogenesis (GO:0048319)|brain development (GO:0007420)|canonical Wnt signaling pathway (GO:0060070)|chromatin organization (GO:0006325)|generation of neurons (GO:0048699)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription from RNA polymerase II promoter during mitosis (GO:0046022)|regulation of stem cell maintenance (GO:2000036)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|regulation of Wnt signaling pathway (GO:0030111)|skin development (GO:0043588)|somatic stem cell maintenance (GO:0035019)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|transcription factor complex (GO:0005667)	beta-catenin binding (GO:0008013)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|central_nervous_system(1)|kidney(2)|large_intestine(2)|lung(6)|ovary(1)|skin(2)	16		Acute lymphoblastic leukemia(61;5.94e-12)|all_hematologic(61;1.27e-07)		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)		CCACCGGGCCGCTACCGGGCG	0.741			T	"PBX1, HLF, TFPT"	pre B-ALL								g|||	1698	0.339058	0.593	0.2925	5008	,	,		10107	0.244		0.1163	False		,,,				2504	0.3558						Dom	yes		19	19p13.3	6929	transcription factor 3 (E2A immunoglobulin enhancer binding factors E12/E47)		L	0								G	,	1908,2318		433,1042,638	6	7	7		759,759	2.7	0.2	19	dbSNP_98	7	1001,7343		85,831,3256	no	coding-synonymous,coding-synonymous	TCF3	NM_001136139.2,NM_003200.3	,	518,1873,3894	AA,AG,GG		11.9966,45.1491,23.1424	,	253/652,253/655	1622116	2909,9661	2113	4172	6285	SO:0001819	synonymous_variant	6929			M65214	CCDS12074.1, CCDS45899.1	19p13.3	2014-02-13	2013-02-26		ENSG00000071564	ENSG00000071564		"Basic helix-loop-helix proteins"	11633	protein-coding gene	gene with protein product	"transcription factor E2-alpha", "immunoglobulin transcription factor 1", "kappa-E2-binding factor", "E2A immunoglobulin enhancer-binding factor E12/E47", "VDR interacting repressor"	147141				2308859, 1967983	Standard	NM_003200		Approved	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47	uc002ltt.4	P15923	OTTHUMG00000180031	ENST00000262965.5:c.759C>T	19.37:g.1622116G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q53R97|Q6PD70|Q9NP00	Silent	SNP	ENST00000262965.5	37	CCDS12074.1																																																																																				0.741	TCF3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000449367.1	NM_003200		A	1622116	G	A	1622116	2	1	650	1	0	0	0	0	0	0	0	1	15706	1078	38	1		1	TCF3	19	1622116	Silent	SNP	G	TCGA-KM-8442-01A-11D-2310-10		1622116	57506867	63	40307										
IL12RB1	3594	mdanderson.org;bcgsc.ca	37	chr19	18188408	18188408	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ccggggtctcccactccataCgcagctgcccggccaacttg	10	18	1	0	rs11575926	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr19:18188408C>T	ENST00000600835.2	-	6	765	c.467G>A	c.(466-468)cGt>cAt	p.R156H	IL12RB1_ENST00000322153.7_Missense_Mutation_p.R156H|IL12RB1_ENST00000593993.2_Missense_Mutation_p.R156H			P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1	156	Fibronectin type-III 2. {ECO:0000255|PROSITE-ProRule:PRU00316}.		R -> H (in dbSNP:rs11575926). {ECO:0000269|Ref.3}.		cellular response to interferon-gamma (GO:0071346)|cytokine-mediated signaling pathway (GO:0019221)|interleukin-12-mediated signaling pathway (GO:0035722)|interleukin-23-mediated signaling pathway (GO:0038155)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of activated T cell proliferation (GO:0042104)|positive regulation of defense response to virus by host (GO:0002230)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of memory T cell differentiation (GO:0043382)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|positive regulation of T-helper 1 type immune response (GO:0002827)|positive regulation of T-helper 17 cell lineage commitment (GO:2000330)|positive regulation of T-helper 17 type immune response (GO:2000318)|signal transduction (GO:0007165)	external side of plasma membrane (GO:0009897)|interleukin-12 receptor complex (GO:0042022)|interleukin-23 receptor complex (GO:0072536)	cytokine receptor activity (GO:0004896)			endometrium(1)|kidney(1)|lung(3)|pancreas(1)|skin(2)	8						CCACTCCATACGCAGCTGCCC	0.582													C|||	280	0.0559105	0.0068	0.0692	5008	,	,		16517	0.001		0.1551	False		,,,				2504	0.0675															0								C	HIS/ARG,HIS/ARG	158,4248	107.8+/-146.2	3,152,2048	65	54	58		467,467	-7.8	0	19	dbSNP_120	58	1494,7106	283.3+/-296.1	127,1240,2933	no	missense,missense	IL12RB1	NM_005535.1,NM_153701.1	29,29	130,1392,4981	TT,TC,CC		17.3721,3.586,12.7018	benign,benign	156/663,156/382	18188408	1652,11354	2203	4300	6503	SO:0001583	missense	3594			U03187	CCDS32957.1, CCDS54232.1	19p13.1	2014-09-17						"Interleukins and interleukin receptors", "CD molecules", "Fibronectin type III domain containing"	5971	protein-coding gene	gene with protein product		601604		IL12RB		9284929	Standard	XM_005259893		Approved	CD212	uc002nhw.1	P42701		ENST00000600835.2:c.467G>A	19.37:g.18188408C>T	ENSP00000470788:p.Arg156His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K308|B2RPF1|B7ZKK3|Q8N6Q7	Missense_Mutation	SNP	ENST00000600835.2	37	CCDS54232.1	146	0.06684981684981685	2	0.0040650406504065045	26	0.0718232044198895	1	0.0017482517482517483	117	0.15435356200527706	C	9.619	1.133424	0.21041	0.03586	0.173721	ENSG00000096996	ENST00000430026;ENST00000322153	T;D	0.85955	-1.49;-2.05	3.9	-7.79	0.01218	Immunoglobulin-like fold (1);	1.817980	0.03453	N	0.210996	T	0.00440	0.0014	L	0.29908	0.895	0.09310	N	1	B;B;B	0.29862	0.025;0.259;0.014	B;B;B	0.17433	0.007;0.018;0.003	T	0.18023	-1.0350	10	0.30854	T	0.27	-1.1907	6.7248	0.23350	0.6568:0.1478:0.0:0.1953	rs11575926;rs17884715	156;156;156	P42701-2;P42701-3;P42701	.;.;I12R1_HUMAN	H	156	ENSP00000403103:R156H;ENSP00000314425:R156H	ENSP00000314425:R156H	R	-	2	0	IL12RB1	18049408	0.000000	0.05858	0.001000	0.08648	0.015000	0.08874	-1.507000	0.02268	-1.510000	0.01796	-0.302000	0.09304	CGT		0.582	IL12RB1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466525.3			T	18188408	C	T	18188408	3	4	650	1	0	0	0	0	1	0	0	0	7633	536	19	1	1702	1	IL12RB1	19	18188408	Missense_Mutation	SNP	C	TCGA-KM-8442-01A-11D-2310-10	16566292	18188408	40940575	64	40308										
FCGBP	8857	broad.mit.edu	37	chr19	40380652	40380652	+	Frame_Shift_Del	DEL	A	A	-													0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gggtgccgacaggctcgggcAgctcccaggacaggagtcac							TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr19:40380652delA	ENST00000221347.6	-	23	10670	c.10663delT	c.(10663-10665)tgcfs	p.C3555fs	FCGBP_ENST00000595713.1_5'Flank	NM_003890.2	NP_003881.2	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein	3555	Cys-rich.|TIL 8.					extracellular vesicular exosome (GO:0070062)				NS(3)|autonomic_ganglia(1)|breast(7)|central_nervous_system(5)|endometrium(13)|kidney(9)|large_intestine(27)|lung(49)|ovary(8)|pancreas(3)|prostate(13)|skin(9)|stomach(9)|upper_aerodigestive_tract(6)|urinary_tract(3)	165	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)			AGGCTCGGGCAGCTCCCAGGA	0.637																																																0													1	2	2					19																	40380652		246	1429	1675	SO:0001589	frameshift_variant	8857			D84239		19q13.2	2013-09-20			ENSG00000090920	ENSG00000275395			13572	protein-coding gene	gene with protein product	"IgG Fc binding protein", "Human Fc gamma BP"					9182547	Standard	NM_003890		Approved	FC(GAMMA)BP	uc002omp.4	Q9Y6R7	OTTHUMG00000182580	ENST00000221347.6:c.10663delT	19.37:g.40380652delA	ENSP00000221347:p.Cys3555fs	Somatic		WXS	Illumina HiSeq	Phase_I	O95784	Frame_Shift_Del	DEL	ENST00000221347.6	37	CCDS12546.1																																																																																				0.637	FCGBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462507.1	NM_003890		-	40380652	A	-	40380652	7	5	650	1	0	1	0	1	0	0	0	0	5785	188	7	0	5610	0	FCGBP	19	40380652	Frame_Shift_Del	DEL	A	TCGA-KM-8442-01A-11D-2310-10	22192244	40380652	18748331	65	40309										
MAP3K10	4294	hgsc.bcm.edu;ucsc.edu	37	chr19	40719458	40719458	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gcagaggatggaggcagcagCgtgcccccttccccctactc	12	16	0	1			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr19:40719458C>T	ENST00000253055.3	+	9	2160	c.1872C>T	c.(1870-1872)agC>agT	p.S624S		NM_002446.3	NP_002437.2	Q02779	M3K10_HUMAN	mitogen-activated protein kinase kinase kinase 10	624					activation of JNKK activity (GO:0007256)|activation of JUN kinase activity (GO:0007257)|apoptotic process (GO:0006915)|JNK cascade (GO:0007254)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription, DNA-templated (GO:0045892)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|positive regulation of apoptotic process (GO:0043065)|positive regulation of JNK cascade (GO:0046330)|positive regulation of JUN kinase activity (GO:0043507)|protein autophosphorylation (GO:0046777)|signal transduction (GO:0007165)|smoothened signaling pathway (GO:0007224)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|bHLH transcription factor binding (GO:0043425)|JUN kinase kinase kinase activity (GO:0004706)|protein homodimerization activity (GO:0042803)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|transcription corepressor activity (GO:0003714)			NS(1)|breast(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(5)|ovary(2)|pancreas(1)|prostate(1)|skin(2)	24						GAGGCAGCAGCGTGCCCCCTT	0.726																																																0													16	18	17					19																	40719458		2200	4293	6493	SO:0001819	synonymous_variant	4294			X90846	CCDS12549.1	19q13.2	2014-08-12			ENSG00000130758		2.7.11.1	"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6849	protein-coding gene	gene with protein product	"MKN28 kinase", "mixed lineage kinase 2", "MKN28 derived nonreceptor_type serine/threonine kinase"	600137		MLK2		8536694, 7731697	Standard	NM_002446		Approved	MST, MEKK10	uc002ona.3	Q02779	OTTHUMG00000182591	ENST00000253055.3:c.1872C>T	19.37:g.40719458C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q12761|Q14871	Silent	SNP	ENST00000253055.3	37	CCDS12549.1																																																																																				0.726	MAP3K10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462552.1	NM_002446		T	40719458	C	T	40719458	2	4	650	1	0	0	0	0	0	0	0	1	9251	767	27	1		1	MAP3K10	19	40719458	Silent	SNP	C	TCGA-KM-8442-01A-11D-2310-10	338806	40719458	18409525	66	40310										
CYP2A6	1548	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	41354576	41354576	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	ctcctcctggatgcgctcctCgatgcctcgcttgcccaccc	8	20	0	0	rs200793736		TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr19:41354576C>T	ENST00000301141.5	-	3	456	c.436G>A	c.(436-438)Gag>Aag	p.E146K	CTC-490E21.12_ENST00000601627.1_Intron	NM_000762.5	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A, polypeptide 6	146					coumarin catabolic process (GO:0046226)|coumarin metabolic process (GO:0009804)|drug metabolic process (GO:0017144)|exogenous drug catabolic process (GO:0042738)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|xenobiotic metabolic process (GO:0006805)	cytoplasmic microtubule (GO:0005881)|endoplasmic reticulum membrane (GO:0005789)	coumarin 7-hydroxylase activity (GO:0008389)|enzyme binding (GO:0019899)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen (GO:0016712)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(7)|lung(9)|ovary(3)|prostate(5)|skin(2)|upper_aerodigestive_tract(2)	37			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Acetaminophen(DB00316)|Amiodarone(DB01118)|Amlodipine(DB00381)|Amobarbital(DB01351)|Amphetamine(DB00182)|Antipyrine(DB01435)|Arformoterol(DB01274)|Azelastine(DB00972)|Azithromycin(DB00207)|Buprenorphine(DB00921)|Bupropion(DB01156)|Chlorzoxazone(DB00356)|Cinnarizine(DB00568)|Cisapride(DB00604)|Clofibrate(DB00636)|Clomifene(DB00882)|Clotrimazole(DB00257)|Clozapine(DB00363)|Cyclophosphamide(DB00531)|Dapagliflozin(DB06292)|Desipramine(DB01151)|Dexamethasone(DB01234)|Dexfenfluramine(DB01191)|Diethylstilbestrol(DB00255)|Dronabinol(DB00470)|Eletriptan(DB00216)|Ezogabine(DB04953)|Flunarizine(DB04841)|Flunitrazepam(DB01544)|Fluorouracil(DB00544)|Flurazepam(DB00690)|Fomepizole(DB01213)|Formoterol(DB00983)|Halothane(DB01159)|Ifosfamide(DB01181)|Isoniazid(DB00951)|Ketoconazole(DB01026)|Letrozole(DB01006)|Lidocaine(DB00281)|Lorcaserin(DB04871)|Memantine(DB01043)|Menadione(DB00170)|Methimazole(DB00763)|Methoxsalen(DB00553)|Methoxyflurane(DB01028)|Metyrapone(DB01011)|Miconazole(DB01110)|Montelukast(DB00471)|Nevirapine(DB00238)|Nicotine(DB00184)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Norfloxacin(DB01059)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Pilocarpine(DB01085)|Prednisolone(DB00860)|Progesterone(DB00396)|Propofol(DB00818)|Rifampicin(DB01045)|Rosiglitazone(DB00412)|Selegiline(DB01037)|Sevoflurane(DB01236)|Sulfaphenazole(DB06729)|Tamoxifen(DB00675)|Tranylcypromine(DB00752)|Tretinoin(DB00755)|Troleandomycin(DB01361)|Valproic Acid(DB00313)|Zidovudine(DB00495)	ATGCGCTCCTCGATGCCTCGC	0.692													.|||	1	0.000199681	0.0	0.0	5008	,	,		14358	0.0		0.001	False		,,,				2504	0.0															0													39	42	41					19																	41354576		2203	4299	6502	SO:0001583	missense	1548			AF182275	CCDS12568.1	19q13.2	2013-11-11	2003-01-14		ENSG00000255974	ENSG00000255974		"Cytochrome P450s"	2610	protein-coding gene	gene with protein product		122720	"cytochrome P450, subfamily IIA (phenobarbital-inducible), polypeptide 6"	CYP2A3		7668294, 2748347	Standard	NM_000762		Approved	CPA6, CYP2A	uc002opl.4	P11509	OTTHUMG00000182713	ENST00000301141.5:c.436G>A	19.37:g.41354576C>T	ENSP00000301141:p.Glu146Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A7YAE5|B2R7F6|P00190|P10890|Q16803|Q4VAT9|Q4VAU0|Q4VAU1|Q9H1Z7|Q9UCU0|Q9UK48	Missense_Mutation	SNP	ENST00000301141.5	37	CCDS12568.1	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	-	22.0	4.226482	0.79576	.	.	ENSG00000255974	ENST00000301141	T	0.71934	-0.61	2.95	0.646	0.17789	.	0.000000	0.85682	U	0.000000	T	0.75459	0.3852	M	0.88512	2.96	0.34218	D	0.675097	D	0.60575	0.988	P	0.49451	0.611	T	0.79543	-0.1760	10	0.87932	D	0	.	6.8491	0.24005	0.0:0.714:0.1771:0.1089	.	146	P11509	CP2A6_HUMAN	K	146	ENSP00000301141:E146K	ENSP00000301141:E146K	E	-	1	0	CYP2A6	46046416	0.919000	0.31177	0.236000	0.24074	0.340000	0.28889	2.445000	0.44899	0.023000	0.15187	-0.544000	0.04233	GAG		0.692	CYP2A6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463259.1	NM_000762		T	41354576	C	T	41354576	3	4	650	1	0	0	0	0	1	0	0	0	4164	893	31	1	1076	1	CYP2A6	19	41354576	Missense_Mutation	SNP	C	TCGA-KM-8442-01A-11D-2310-10	635118	41354576	17774407	67	40311										
C20orf166	128826	mdanderson.org	37	chr20	61162267	61162267	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	cgtggagaggacccagcaggTggcgcggggagagcccggct	20	11	0	2	rs6062251	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr20:61162267T>C	ENST00000370527.3	+	3	859	c.80T>C	c.(79-81)gTg>gCg	p.V27A	C20orf166_ENST00000370524.2_Intron|MIR133A2_ENST00000347538.2_RNA|C20orf166_ENST00000370523.1_Intron	NM_178463.3	NP_848558.1			chromosome 20 open reading frame 166											endometrium(1)|kidney(1)|lung(2)	4	Breast(26;1.04e-08)		BRCA - Breast invasive adenocarcinoma(19;7.17e-06)			ACCCAGCAGGTGGCGCGGGGA	0.677													C|||	2888	0.576677	0.7042	0.5605	5008	,	,		12968	0.3284		0.6243	False		,,,				2504	0.6227															0								C	ALA/VAL	2917,1443		1016,885,279	11	12	12		80	-7.9	0	20	dbSNP_114	12	5233,3313		1652,1929,692	yes	missense	C20orf166	NM_178463.3	64	2668,2814,971	CC,CT,TT		38.7667,33.0963,36.8511	benign	27/118	61162267	8150,4756	2180	4273	6453	SO:0001583	missense	128826			AL449263	CCDS46627.1	20q13.33	2014-01-21			ENSG00000174407	ENSG00000174407			16159	protein-coding gene	gene with protein product	"MIR133A2 host gene"						Standard	NM_178463		Approved	dJ353C17.1, MIR1-1HG, MIR133A2HG	uc011aaj.2	Q9H1L0	OTTHUMG00000048000	ENST00000370527.3:c.80T>C	20.37:g.61162267T>C	ENSP00000359558:p.Val27Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000370527.3	37	CCDS46627.1	1208	0.5531135531135531	341	0.693089430894309	211	0.5828729281767956	191	0.3339160839160839	465	0.6134564643799473	C	9.871	1.198845	0.22121	0.669037	0.612333	ENSG00000174407	ENST00000370527	T	0.36520	1.25	3.93	-7.86	0.01187	.	.	.	.	.	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.39522	-0.9610	8	0.09084	T	0.74	.	3.8336	0.08885	0.2485:0.1229:0.4735:0.1551	rs6062251;rs7268727	27	Q9H1L0	CT166_HUMAN	A	27	ENSP00000359558:V27A	ENSP00000359558:V27A	V	+	2	0	C20orf166	60572712	0.000000	0.05858	0.000000	0.03702	0.007000	0.05969	-2.298000	0.01140	-1.689000	0.01434	-0.320000	0.08662	GTG		0.677	C20orf166-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109262.1	NM_178463		C	61162267	T	C	61162267	3	2	650	1	0	0	0	0	1	0	0	0	2097	1696	59	3	86	3	C20orf166	20	61162267	Missense_Mutation	SNP	T	TCGA-KM-8442-01A-11D-2310-10		61162267	1863253	68	40312										
PRIC285	85441	mdanderson.org	37	chr20	62195087	62195087	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	atgtccctggcagagtaggcAgagcccccatggcccagcgc	13	15	0	2	rs310630	byFrequency	TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr20:62195087A>G	ENST00000467148.1	-	8	5157	c.5088T>C	c.(5086-5088)tcT>tcC	p.S1696S	HELZ2_ENST00000427522.2_Silent_p.S1127S	NM_001037335.2	NP_001032412.2	Q9BYK8	HELZ2_HUMAN	helicase with zinc finger 2, transcriptional coactivator	1696					cellular lipid metabolic process (GO:0044255)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	membrane (GO:0016020)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)										CAGAGTAGGCAGAGCCCCCAT	0.677													G|||	2264	0.452077	0.7141	0.4409	5008	,	,		15038	0.1567		0.4732	False		,,,				2504	0.3885															0								G	,	2906,1454		977,952,251	13	14	14		5088,3381	-2.3	0	20	dbSNP_79	14	3958,4606		948,2062,1272	no	coding-synonymous,coding-synonymous	PRIC285	NM_001037335.2,NM_033405.3	,	1925,3014,1523	GG,GA,AA		46.2167,33.3486,46.8895	,	1696/2650,1127/2081	62195087	6864,6060	2180	4282	6462	SO:0001819	synonymous_variant	85441			AB201715	CCDS13527.1, CCDS33508.1	20q13.33	2012-09-26			ENSG00000130589	ENSG00000130589			30021	protein-coding gene	gene with protein product	"peroxisomal proliferator activated receptor A interacting complex 285", "PPARG-DBD-interacting protein 1"	611265				11214970, 12189208, 16239304	Standard	NM_001037335		Approved	PDIP1, PRIC285, KIAA1769	uc002yfm.2	Q9BYK8	OTTHUMG00000032969	ENST00000467148.1:c.5088T>C	20.37:g.62195087A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q3C2G2|Q4VXQ1|Q8TEF3|Q96ND3|Q9C094	Silent	SNP	ENST00000467148.1	37	CCDS33508.1																																																																																				0.677	HELZ2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354127.1	NM_001037335		G	62195087	A	G	62195087	2	3	650	1	0	0	0	0	0	0	0	1	12495	175	7	3		3	PRIC285	20	62195087	Silent	SNP	A	TCGA-KM-8442-01A-11D-2310-10	1032820	62195087	830433	69	40313										
BAGE2	85319	mdanderson.org	37	chr21	11058197	11058197	+	RNA	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gtcaatgtgttctggacaaaGcaggaagatgtgactgaaat	12	5	2	3			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr21:11058197G>A	ENST00000470054.1	-	0	450							Q86Y30	BAGE2_HUMAN	B melanoma antigen family, member 2							extracellular region (GO:0005576)								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)		TCTGGACAAAGCAGGAAGATG	0.393																																																0													87	71	76					21																	11058197		692	1591	2283			85319			AF218570		21p	2009-03-13			ENSG00000187172	ENSG00000187172			15723	protein-coding gene	gene with protein product	"cancer/testis antigen family 2, member 2"					12461691	Standard	NM_182482		Approved	CT2.2		Q86Y30	OTTHUMG00000074128		21.37:g.11058197G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K925|Q08ER0	Silent	SNP	ENST00000470054.1	37																																																																																					0.393	BAGE2-001	KNOWN	basic	processed_transcript	pseudogene	OTTHUMT00000157417.3	NM_182482		A	11058197	G	A	11058197	1	1	650	0	1	0	0	0	0	0	0	0	1292	963	34	2		2	BAGE2	21	11058197	RNA	SNP	G	TCGA-KM-8442-01A-11D-2310-10		11058197	37071698	70	40314										
SON	6651	broad.mit.edu	37	chr21	34927419	34927420	+	Frame_Shift_Ins	INS	-	-	C													0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	cgccgcagccgcacccccagINSccgccgcagccgcaccccca							TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr21:34927419_34927420insC	ENST00000356577.4	+	3	6357_6358	c.5882_5883insC	c.(5881-5886)agccgcfs	p.R1962fs	SON_ENST00000300278.4_Frame_Shift_Ins_p.R1962fs|SON_ENST00000290239.6_Frame_Shift_Ins_p.R1962fs|SON_ENST00000381679.4_Frame_Shift_Ins_p.R1962fs|SON_ENST00000381692.2_Intron	NM_138927.1	NP_620305	P18583	SON_HUMAN	SON DNA binding protein	1962	2 X 19 AA repeats of P-S-R-R-R-R-S-R-S-V- V-R-R-R-S-F-S-I-S.|7 X 7 AA repeats of P-S-R-R-S-R-[TS].				cytokinesis (GO:0000910)|microtubule cytoskeleton organization (GO:0000226)|mRNA processing (GO:0006397)|negative regulation of apoptotic process (GO:0043066)|regulation of cell cycle (GO:0051726)|regulation of RNA splicing (GO:0043484)|RNA splicing (GO:0008380)	nuclear speck (GO:0016607)|nucleus (GO:0005634)	DNA binding (GO:0003677)|nucleic acid binding (GO:0003676)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			breast(3)|central_nervous_system(2)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(13)|lung(25)|ovary(4)|prostate(2)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	72						cgcacccccagccgccgcagcc	0.713																																																0																																										SO:0001589	frameshift_variant	6651			AF380181	CCDS13629.1, CCDS13631.1, CCDS74784.1	21q22.1-q22.2	2013-01-28			ENSG00000159140	ENSG00000159140		"G patch domain containing"	11183	protein-coding gene	gene with protein product	"NRE-binding protein", "negative regulatory element-binding protein", "Bax antagonist selected in Saccharomyces 1"	182465		C21orf50		8318737, 21551269	Standard	NM_032195		Approved	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914	uc002yse.1	P18583	OTTHUMG00000065806	ENST00000356577.4:c.5884dupC	21.37:g.34927421_34927421dupC	ENSP00000348984:p.Arg1962fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSF5|D3DSF6|E7ETE8|E7EU67|E7EVW3|E9PFQ2|O14487|O95981|Q14120|Q6PKE0|Q9H7B1|Q9P070|Q9P072|Q9UKP9|Q9UPY0	Frame_Shift_Ins	INS	ENST00000356577.4	37	CCDS13629.1																																																																																				0.713	SON-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000140978.2	NM_138927		C	34927420	-	C	34927419	7	5	650	1	0	1	1	0	0	0	0	0	14939	971	34	0	5892	0	SON	21	34927419	Frame_Shift_Ins	INS	-	TCGA-KM-8442-01A-11D-2310-10	23869222	34927419	13202476	71	40315										
DGCR8	54487	broad.mit.edu	37	chr22	20094117	20094117	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gtctgttttctcttaaagaaAccatgggatgggtgacacgt	11	7	2	2			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr22:20094117A>G	ENST00000351989.3	+	11	2321	c.1892A>G	c.(1891-1893)aAc>aGc	p.N631S	DGCR8_ENST00000407755.1_Missense_Mutation_p.N598S|DGCR8_ENST00000383024.2_Missense_Mutation_p.N598S	NM_022720.6	NP_073557.3	Q8WYQ5	DGCR8_HUMAN	DGCR8 microprocessor complex subunit	631	DRBM 2. {ECO:0000255|PROSITE- ProRule:PRU00266}.|Necessary for heme-binding and pri-miRNA processing.|Necessary for interaction with DROSHA.				gene expression (GO:0010467)|primary miRNA processing (GO:0031053)	cytoplasm (GO:0005737)|microtubule cytoskeleton (GO:0015630)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	double-stranded RNA binding (GO:0003725)|metal ion binding (GO:0046872)			NS(2)|breast(1)|endometrium(5)|large_intestine(5)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	22	Colorectal(54;0.0993)					TCTTAAAGAAACCATGGGATG	0.532																																																0													106	103	104					22																	20094117		2203	4300	6503	SO:0001583	missense	54487			AF165527, AB050770	CCDS13773.1, CCDS54501.1	22q11.2	2013-05-02	2013-05-02		ENSG00000128191	ENSG00000128191			2847	protein-coding gene	gene with protein product		609030	"chromosome 22 open reading frame 12", "DiGeorge syndrome critical region gene 8"	C22orf12		21454614	Standard	NM_001190326		Approved	DGCRK6, Gy1, pasha	uc002zri.3	Q8WYQ5	OTTHUMG00000150503	ENST00000351989.3:c.1892A>G	22.37:g.20094117A>G	ENSP00000263209:p.Asn631Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8G1|Q6DCB2|Q6MZE9|Q6Y2L0|Q96G39|Q96GP8|Q9H6L8|Q9H6T7|Q9NRW2	Missense_Mutation	SNP	ENST00000351989.3	37	CCDS13773.1	.	.	.	.	.	.	.	.	.	.	A	21.1	4.093845	0.76870	.	.	ENSG00000128191	ENST00000351989;ENST00000383024;ENST00000407755	T;T;T	0.77229	-1.08;-1.08;-1.08	4.97	4.97	0.65823	Double-stranded RNA-binding (2);	0.000000	0.85682	D	0.000000	D	0.83755	0.5323	L	0.48642	1.525	0.80722	D	1	D;D	0.67145	0.996;0.987	D;D	0.77557	0.99;0.931	D	0.85377	0.1117	10	0.72032	D	0.01	-23.0085	13.7567	0.62942	1.0:0.0:0.0:0.0	.	598;631	Q8WYQ5-3;Q8WYQ5	.;DGCR8_HUMAN	S	631;598;598	ENSP00000263209:N631S;ENSP00000372488:N598S;ENSP00000384726:N598S	ENSP00000263209:N631S	N	+	2	0	DGCR8	18474117	1.000000	0.71417	1.000000	0.80357	0.932000	0.56968	8.420000	0.90256	2.084000	0.62774	0.383000	0.25322	AAC		0.532	DGCR8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318654.1			G	20094117	A	G	20094117	3	3	650	1	0	0	0	0	1	0	0	0	4466	43	2	3	1930	3	DGCR8	22	20094117	Missense_Mutation	SNP	A	TCGA-KM-8442-01A-11D-2310-10		20094117	31210449	72	40316										
PIWIL3	440822	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr22	25124310	25124310	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	tttttatgctgtcatatctaCgtttgtcatcattgggcagg	9	7	4	0	rs574938118		TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr22:25124310C>T	ENST00000332271.5	-	15	2182	c.1766G>A	c.(1765-1767)cGt>cAt	p.R589H	PIWIL3_ENST00000527701.1_Missense_Mutation_p.R471H|PIWIL3_ENST00000533313.1_Missense_Mutation_p.R471H|PIWIL3_ENST00000532537.2_5'UTR	NM_001008496.3|NM_001255975.1	NP_001008496.2|NP_001242904.1	Q7Z3Z3	PIWL3_HUMAN	piwi-like RNA-mediated gene silencing 3	589	Piwi. {ECO:0000255|PROSITE- ProRule:PRU00150}.		R -> C (in dbSNP:rs738826).		cell differentiation (GO:0030154)|gene silencing by RNA (GO:0031047)|meiotic nuclear division (GO:0007126)|multicellular organismal development (GO:0007275)|regulation of translation (GO:0006417)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)	RNA binding (GO:0003723)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(14)|lung(15)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	50						GTCATATCTACGTTTGTCATC	0.403													C|||	1	0.000199681	0.0008	0.0	5008	,	,		18874	0.0		0.0	False		,,,				2504	0.0															0													158	145	150					22																	25124310		2203	4300	6503	SO:0001583	missense	440822			AB079368	CCDS33623.1	22q11.23	2013-02-15	2013-02-15		ENSG00000184571	ENSG00000184571		"Argonaute/PIWI family"	18443	protein-coding gene	gene with protein product		610314	"piwi-like 3 (Drosophila)"			12906857	Standard	NM_001008496		Approved	HIWI3	uc003abd.2	Q7Z3Z3	OTTHUMG00000150788	ENST00000332271.5:c.1766G>A	22.37:g.25124310C>T	ENSP00000330031:p.Arg589His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000332271.5	37	CCDS33623.1	.	.	.	.	.	.	.	.	.	.	C	10.29	1.309628	0.23821	.	.	ENSG00000184571	ENST00000332271;ENST00000533313;ENST00000527701	T;T;T	0.29655	1.56;1.56;1.56	2.71	0.392	0.16288	Stem cell self-renewal protein Piwi (3);Ribonuclease H-like (1);	0.394272	0.26352	N	0.024871	T	0.13457	0.0326	N	0.17631	0.505	0.19575	N	0.999967	P;B;B	0.35700	0.516;0.0;0.0	B;B;B	0.22152	0.038;0.0;0.0	T	0.13683	-1.0500	10	0.72032	D	0.01	0.0032	5.9588	0.19289	0.0:0.2603:0.0:0.7397	.	471;580;589	E9PIP6;B4DYF7;Q7Z3Z3	.;.;PIWL3_HUMAN	H	589;471;471	ENSP00000330031:R589H;ENSP00000431843:R471H;ENSP00000435718:R471H	ENSP00000330031:R589H	R	-	2	0	PIWIL3	23454310	0.960000	0.32886	0.000000	0.03702	0.001000	0.01503	1.185000	0.32065	-0.076000	0.12775	-0.458000	0.05436	CGT		0.403	PIWIL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320084.2	NM_001008496		T	25124310	C	T	25124310	3	4	650	1	0	0	0	0	1	0	0	0	11966	536	19	1	910	1	PIWIL3	22	25124310	Missense_Mutation	SNP	C	TCGA-KM-8442-01A-11D-2310-10	5030193	25124310	26180256	73	40317										
MOV10L1	54456	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr22	50581577	50581577	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gattctgagtggtgactgccGtcccctcccgtatattctct	9	13	2	2	rs140536899		TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chr22:50581577G>A	ENST00000262794.5	+	17	2368	c.2285G>A	c.(2284-2286)cGt>cAt	p.R762H	MOV10L1_ENST00000395858.3_Missense_Mutation_p.R762H|MOV10L1_ENST00000545383.1_Missense_Mutation_p.R762H|MOV10L1_ENST00000540615.1_Missense_Mutation_p.R742H|MOV10L1_ENST00000395843.1_5'UTR	NM_018995.2	NP_061868.1	Q9BXT6	M10L1_HUMAN	Mov10 RISC complex RNA helicase like 1	762					ATP catabolic process (GO:0006200)|germ cell development (GO:0007281)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	intracellular (GO:0005622)	ATP binding (GO:0005524)|ATP-dependent RNA helicase activity (GO:0004004)|magnesium ion binding (GO:0000287)|RNA binding (GO:0003723)			breast(2)|endometrium(2)|kidney(5)|large_intestine(18)|lung(20)|ovary(3)|prostate(1)|skin(9)|stomach(4)|urinary_tract(3)	67		all_cancers(38;3.31e-11)|all_epithelial(38;5.69e-10)|all_lung(38;3.73e-05)|Breast(42;0.000525)|Lung NSC(38;0.000954)|Ovarian(80;0.0367)|Lung SC(80;0.114)		LUAD - Lung adenocarcinoma(64;0.0215)|BRCA - Breast invasive adenocarcinoma(115;0.24)		GGTGACTGCCGTCCCCTCCCG	0.468																																																0								G	HIS/ARG,HIS/ARG,HIS/ARG	1,4405	2.1+/-5.4	0,1,2202	132	139	136		2285,2225,2285	5.6	1	22	dbSNP_134	136	0,8600		0,0,4300	no	missense,missense,missense	MOV10L1	NM_001164104.1,NM_001164105.1,NM_018995.2	29,29,29	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	probably-damaging,probably-damaging,probably-damaging	762/1166,742/1166,762/1212	50581577	1,13005	2203	4300	6503	SO:0001583	missense	54456			AF285604	CCDS14084.1, CCDS54541.1, CCDS54542.1, CCDS54543.1	22q13.33	2014-07-02	2014-07-02		ENSG00000073146	ENSG00000073146			7201	protein-coding gene	gene with protein product	"cardiac helicase activated by MEF2C protein"	605794	"Mov10 (mouse)-like 1", "Mov10l1, Moloney leukemia virus 10-like 1, homolog (mouse)"			11279525	Standard	NM_018995		Approved	DJ402G11.8, DKFZp434B0717, CHAMP	uc003bjj.3	Q9BXT6	OTTHUMG00000044648	ENST00000262794.5:c.2285G>A	22.37:g.50581577G>A	ENSP00000262794:p.Arg762His	Somatic		WXS	Illumina HiSeq	Phase_I	A7E211|A8MXC6|B7WPP1|B7Z7R1|F5H403|Q5TGD5|Q8NBD4|Q9NXW3|Q9UFB3|Q9UGX9	Missense_Mutation	SNP	ENST00000262794.5	37	CCDS14084.1	.	.	.	.	.	.	.	.	.	.	G	22.2	4.252396	0.80135	2.27E-4	0.0	ENSG00000073146	ENST00000545383;ENST00000262794;ENST00000395858;ENST00000540615	D;D;D;D	0.86956	-2.01;-2.01;-1.61;-2.19	5.61	5.61	0.85477	.	0.049309	0.85682	D	0.000000	D	0.93096	0.7802	M	0.68728	2.09	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	1.0;1.0;0.999;0.999	D	0.93039	0.6455	10	0.62326	D	0.03	-19.6794	19.6476	0.95789	0.0:0.0:1.0:0.0	.	523;742;762;762	B7Z893;F5H403;A8MXC6;Q9BXT6	.;.;.;M10L1_HUMAN	H	762;762;762;742	ENSP00000438978:R762H;ENSP00000262794:R762H;ENSP00000379199:R762H;ENSP00000438542:R742H	ENSP00000262794:R762H	R	+	2	0	MOV10L1	48923704	1.000000	0.71417	1.000000	0.80357	0.139000	0.21198	7.388000	0.79795	2.647000	0.89833	0.655000	0.94253	CGT		0.468	MOV10L1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000075009.2	NM_018995		A	50581577	G	A	50581577	3	1	650	1	0	0	0	0	1	0	0	0	9726	1145	40	1	2392	1	MOV10L1	22	50581577	Missense_Mutation	SNP	G	TCGA-KM-8442-01A-11D-2310-10	25457267	50581577	722989	74	40318										
CACNA1F	778	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chrX	49084509	49084509	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gtccctcacccactcaggacGccaagcacaaggttgaggac	10	15	2	1			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chrX:49084509G>A	ENST00000376265.2	-	8	1168	c.1107C>T	c.(1105-1107)ggC>ggT	p.G369G	CACNA1F_ENST00000323022.5_Silent_p.G369G|CACNA1F_ENST00000376251.1_Silent_p.G304G	NM_005183.2	NP_005174.2	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type, alpha 1F subunit	369			G -> D (in CSNB2A). {ECO:0000269|PubMed:11281458, ECO:0000269|PubMed:12111638, ECO:0000269|PubMed:9662399}.		axonogenesis (GO:0007409)|calcium ion import (GO:0070509)|cellular calcium ion homeostasis (GO:0006874)|dendrite morphogenesis (GO:0048813)|detection of light stimulus involved in visual perception (GO:0050908)|membrane depolarization during action potential (GO:0086010)|retina development in camera-type eye (GO:0060041)|visual perception (GO:0007601)	integral component of membrane (GO:0016021)|perikaryon (GO:0043204)|photoreceptor outer segment (GO:0001750)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)			autonomic_ganglia(1)|breast(8)|central_nervous_system(3)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(17)|lung(24)|ovary(5)|prostate(3)|skin(4)|urinary_tract(1)	85					Cinnarizine(DB00568)|Clevidipine(DB04920)|Dronedarone(DB04855)|Nimodipine(DB00393)|Spironolactone(DB00421)|Verapamil(DB00661)	CACTCAGGACGCCAAGCACAA	0.552																																																0													115	72	87					X																	49084509		2203	4300	6503	SO:0001819	synonymous_variant	778			AA019975	CCDS35253.1, CCDS59166.1, CCDS59167.1	Xp11.23	2013-01-23	2007-02-16		ENSG00000102001	ENSG00000102001		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1393	protein-coding gene	gene with protein product		300110	"Aland island eye disease (Forsius-Eriksson ocular albinism, ocular albinism type 2)"	CSNB2, AIED		9344658, 9662400, 16382099, 12111638, 17525176	Standard	NM_005183		Approved	Cav1.4, JM8, JMC8, CSNBX2, CORDX3, CSNB2A, OA2	uc010nip.3	O60840	OTTHUMG00000022703	ENST00000376265.2:c.1107C>T	X.37:g.49084509G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NI29|F5CIQ9|O43901|O95226|Q9UHB1	Silent	SNP	ENST00000376265.2	37	CCDS35253.1																																																																																				0.552	CACNA1F-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358157.1	NM_005183		A	49084509	G	A	49084509	2	1	650	1	0	0	0	0	0	0	0	1	2545	1074	38	1		1	CACNA1F	23	49084509	Silent	SNP	G	TCGA-KM-8442-01A-11D-2310-10		49084509	106186051	75	40319										
SLC7A3	84889	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	70145693	70145693	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	tggacatagagagtgccgggAtcaaggtctacagttttggc	14	7	2	1			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chrX:70145693A>T	ENST00000374299.3	-	12	1974	c.1830T>A	c.(1828-1830)gaT>gaA	p.D610E	SLC7A3_ENST00000298085.4_Missense_Mutation_p.D610E			Q8WY07	CTR3_HUMAN	solute carrier family 7 (cationic amino acid transporter, y+ system), member 3	610					amino acid transport (GO:0006865)|ion transport (GO:0006811)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	arginine transmembrane transporter activity (GO:0015181)|L-lysine transmembrane transporter activity (GO:0015189)			breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|liver(1)|lung(9)|ovary(1)|urinary_tract(1)	31	Renal(35;0.156)				L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	GAGTGCCGGGATCAAGGTCTA	0.502																																																0													247	189	208					X																	70145693		2203	4300	6503	SO:0001583	missense	84889			AF320612	CCDS14404.1	Xq12	2013-05-22			ENSG00000165349	ENSG00000165349		"Solute carriers"	11061	protein-coding gene	gene with protein product		300443				11591158	Standard	NM_001048164		Approved	CAT-3, ATRC3, FLJ14541	uc004dyn.3	Q8WY07	OTTHUMG00000021780	ENST00000374299.3:c.1830T>A	X.37:g.70145693A>T	ENSP00000363417:p.Asp610Glu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVU7|Q5JQR2|Q8N185|Q8NCA7|Q96SZ7	Missense_Mutation	SNP	ENST00000374299.3	37	CCDS14404.1	.	.	.	.	.	.	.	.	.	.	A	11.85	1.762611	0.31228	.	.	ENSG00000165349	ENST00000374299;ENST00000298085	D;D	0.87966	-2.32;-2.32	4.41	-3.07	0.05363	.	0.364776	0.31268	N	0.007942	T	0.61160	0.2325	N	0.08118	0	0.25017	N	0.991362	B	0.09022	0.002	B	0.10450	0.005	T	0.57254	-0.7843	10	0.02654	T	1	.	2.9368	0.05817	0.3414:0.0:0.3184:0.3402	.	610	Q8WY07	CTR3_HUMAN	E	610	ENSP00000363417:D610E;ENSP00000298085:D610E	ENSP00000298085:D610E	D	-	3	2	SLC7A3	70062418	0.950000	0.32346	0.771000	0.31576	0.057000	0.15508	0.389000	0.20751	-0.392000	0.07751	0.314000	0.21332	GAT		0.502	SLC7A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057080.1	NM_032803		T	70145693	A	T	70145693	3	4	650	1	0	0	0	0	1	0	0	0	14711	330	12	5	33	5	SLC7A3	23	70145693	Missense_Mutation	SNP	A	TCGA-KM-8442-01A-11D-2310-10	21061184	70145693	85124867	76	40320										
PCDH11X	27328	mdanderson.org	37	chrX	91134112	91134112	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0273972602739726	2	1	0.487812804679883	0	0.552854511970534	0.4	1	0	gcctgaaactcccctgaattCgaagcaccacatcatccaag	6	15	1	2			TCGA-KM-8442-01A-11D-2310-10	TCGA-KM-8442-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9fb73d89-f7c4-47b2-810b-3ce37cd8a3c9	6fc570c7-dca7-4892-bbf8-94afd186a057	g.chrX:91134112C>T	ENST00000373094.1	+	2	3718	c.2873C>T	c.(2872-2874)tCg>tTg	p.S958L	PCDH11X_ENST00000373097.1_Missense_Mutation_p.S958L|PCDH11X_ENST00000361655.2_Missense_Mutation_p.S958L|PCDH11X_ENST00000406881.1_Missense_Mutation_p.S958L|PCDH11X_ENST00000361724.1_Missense_Mutation_p.S958L|PCDH11X_ENST00000298274.8_Missense_Mutation_p.S958L|PCDH11X_ENST00000395337.2_Missense_Mutation_p.S958L|PCDH11X_ENST00000373088.1_Missense_Mutation_p.S958L|PCDH11X_ENST00000504220.2_Missense_Mutation_p.S958L	NM_032968.3	NP_116750.1	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked	958					homophilic cell adhesion (GO:0007156)|negative regulation of phosphatase activity (GO:0010923)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|autonomic_ganglia(1)|biliary_tract(1)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(30)|liver(4)|lung(92)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	159						CCCCTGAATTCGAAGCACCAC	0.507																																					NSCLC(38;925 1092 2571 38200 45895)											0													252	207	222					X																	91134112		2203	4300	6503	SO:0001583	missense	27328			AB026187	CCDS14461.1, CCDS14462.1, CCDS55458.1, CCDS55459.1, CCDS55460.1, CCDS55461.1	Xq21.3	2014-06-13	2002-05-22	2002-05-24	ENSG00000102290	ENSG00000102290		"Cadherins / Protocadherins : Non-clustered"	8656	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 119"	300246	"protocadherin 11"	PCDH11		10644456	Standard	NM_001168360		Approved	PCDH-X, PCDHX, PPP1R119	uc004efm.2	Q9BZA7	OTTHUMG00000021965	ENST00000373094.1:c.2873C>T	X.37:g.91134112C>T	ENSP00000362186:p.Ser958Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NIQ4|Q2TJH0|Q2TJH1|Q2TJH3|Q5JVZ0|Q70LR8|Q70LS7|Q70LS8|Q70LS9|Q70LT7|Q70LT8|Q70LT9|Q70LU0|Q70LU1|Q96RV4|Q96RW0|Q9BZA6|Q9H4E0|Q9P2M0|Q9P2X5	Missense_Mutation	SNP	ENST00000373094.1	37	CCDS14461.1	.	.	.	.	.	.	.	.	.	.	C	10.16	1.272807	0.23221	.	.	ENSG00000102290	ENST00000395337;ENST00000373094;ENST00000373097;ENST00000361724;ENST00000373088;ENST00000504220;ENST00000361655;ENST00000406881;ENST00000356934;ENST00000298274	T;T;T;T;T;T;T;T;T	0.30981	1.51;1.51;1.51;1.51;1.51;1.51;1.51;1.51;1.51	4.82	3.06	0.35304	Protocadherin (1);	0.195197	0.44285	N	0.000476	T	0.30230	0.0758	M	0.65498	2.005	0.30108	N	0.806795	B;B;B;B;B;B;B;B	0.19073	0.027;0.027;0.027;0.027;0.027;0.033;0.027;0.027	B;B;B;B;B;B;B;B	0.18263	0.013;0.013;0.013;0.013;0.013;0.021;0.013;0.013	T	0.20907	-1.0261	10	0.39692	T	0.17	.	9.5293	0.39185	0.0:0.8253:0.0:0.1747	.	958;958;958;958;958;958;958;958	Q9BZA7-6;Q9BZA7-5;Q9BZA7-4;Q9BZA7-8;Q9BZA7-3;Q9BZA7;Q9BZA7-7;Q9BZA7-2	.;.;.;.;.;PC11X_HUMAN;.;.	L	958	ENSP00000378746:S958L;ENSP00000362186:S958L;ENSP00000362189:S958L;ENSP00000355040:S958L;ENSP00000362180:S958L;ENSP00000423762:S958L;ENSP00000355105:S958L;ENSP00000384758:S958L;ENSP00000298274:S958L	ENSP00000298274:S958L	S	+	2	0	PCDH11X	91020768	1.000000	0.71417	0.880000	0.34516	0.809000	0.45718	3.614000	0.54160	0.460000	0.27045	-0.192000	0.12808	TCG		0.507	PCDH11X-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000057436.1	NM_032969		T	91134112	C	T	91134112	3	4	650	1	0	0	0	0	1	0	0	0	11515	893	31	1	2879	1	PCDH11X	23	91134112	Missense_Mutation	SNP	C	TCGA-KM-8442-01A-11D-2310-10	20988419	91134112	64136448	77	40321										
ZBTB48	3104	ucsc.edu	37	chr1	6646821	6646821	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	agctgcgggtgcacatggtgTctcacacaggggagatgccc	15	11	1	1			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr1:6646821T>C	ENST00000377674.4	+	5	1269	c.1111T>C	c.(1111-1113)Tct>Cct	p.S371P		NM_001278647.1|NM_001278648.1|NM_005341.2	NP_001265576.1|NP_001265577.1|NP_005332.1	P10074	ZBT48_HUMAN	zinc finger and BTB domain containing 48	371					transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|kidney(1)|large_intestine(1)|liver(2)|lung(3)|ovary(1)|skin(1)|urinary_tract(1)	11	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.35e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00109)|STAD - Stomach adenocarcinoma(132;0.017)|READ - Rectum adenocarcinoma(331;0.0642)		GCACATGGTGTCTCACACAGG	0.632																																					Esophageal Squamous(125;1449 1657 4031 29866 49542)											0													94	69	78					1																	6646821		2203	4300	6503	SO:0001583	missense	3104			BC013573	CCDS84.1	1p36.3	2013-01-08	2006-09-20	2006-09-20	ENSG00000204859	ENSG00000204859		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	4930	protein-coding gene	gene with protein product		165270	"GLI-Kruppel family member HKR3"	HKR3		2850480, 8661141	Standard	NM_001278647		Approved	ZNF855	uc001anx.3	P10074	OTTHUMG00000001438	ENST00000377674.4:c.1111T>C	1.37:g.6646821T>C	ENSP00000366902:p.Ser371Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SY19	Missense_Mutation	SNP	ENST00000377674.4	37	CCDS84.1	.	.	.	.	.	.	.	.	.	.	T	19.07	3.755996	0.69648	.	.	ENSG00000204859	ENST00000377674;ENST00000545645	T	0.19105	2.17	5.62	4.47	0.54385	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.148877	0.64402	D	0.000006	T	0.35008	0.0917	L	0.49256	1.55	0.44635	D	0.997611	P	0.47841	0.901	P	0.57548	0.823	T	0.05801	-1.0863	10	0.72032	D	0.01	-36.1725	12.3143	0.54946	0.0:0.0:0.1416:0.8583	.	371	P10074	ZBT48_HUMAN	P	371;9	ENSP00000366902:S371P	ENSP00000366902:S371P	S	+	1	0	ZBTB48	6569408	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	1.631000	0.37092	1.053000	0.40415	0.459000	0.35465	TCT		0.632	ZBTB48-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004193.1	NM_005341		C	6646821	T	C	6646821	3	2	651	1	0	0	0	0	1	0	0	0	17561	1667	58	3	1125	3	ZBTB48	1	6646821	Missense_Mutation	SNP	T	TCGA-KM-8443-01A-11D-2310-10		6646821	242603800	1	40322										
HSPG2	3339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	22207292	22207292	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	gccacgggccaactcgtagcGcacgttgtaacgcagggagc	14	13	0	0			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr1:22207292G>A	ENST00000374695.3	-	15	1934	c.1855C>T	c.(1855-1857)Cgc>Tgc	p.R619C		NM_005529.5	NP_005520.4	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2	619	Laminin IV type A 1. {ECO:0000255|PROSITE-ProRule:PRU00458}.				angiogenesis (GO:0001525)|brain development (GO:0007420)|carbohydrate metabolic process (GO:0005975)|cardiac muscle tissue development (GO:0048738)|cartilage development involved in endochondral bone morphogenesis (GO:0060351)|chondrocyte differentiation (GO:0002062)|chondroitin sulfate metabolic process (GO:0030204)|embryonic skeletal system morphogenesis (GO:0048704)|endochondral ossification (GO:0001958)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|lipoprotein metabolic process (GO:0042157)|phototransduction, visible light (GO:0007603)|protein localization (GO:0008104)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)	basal lamina (GO:0005605)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi lumen (GO:0005796)|lysosomal lumen (GO:0043202)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|protein C-terminus binding (GO:0008022)			breast(6)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(15)|liver(1)|lung(44)|ovary(10)|pancreas(1)|prostate(10)|skin(9)|upper_aerodigestive_tract(3)|urinary_tract(3)	127		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)	Palifermin(DB00039)	AACTCGTAGCGCACGTTGTAA	0.657																																																0													31	31	31					1																	22207292		2195	4289	6484	SO:0001583	missense	3339			M85289	CCDS30625.1	1p36.1-p35	2013-01-29	2007-02-16	2007-02-16	ENSG00000142798	ENSG00000142798		"Proteoglycans / Extracellular Matrix : Other", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5273	protein-coding gene	gene with protein product	"perlecan proteoglycan"	142461	"Schwartz-Jampel syndrome 1 (chondrodystrophic myotonia)"	SJS1		1685141, 11941538	Standard	XM_005245863		Approved	perlecan, PRCAN	uc001bfj.3	P98160	OTTHUMG00000002674	ENST00000374695.3:c.1855C>T	1.37:g.22207292G>A	ENSP00000363827:p.Arg619Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q16287|Q5SZI3|Q9H3V5	Missense_Mutation	SNP	ENST00000374695.3	37	CCDS30625.1	.	.	.	.	.	.	.	.	.	.	G	17.63	3.436733	0.62955	.	.	ENSG00000142798	ENST00000374695	T	0.37584	1.19	5.51	4.59	0.56863	Laminin B type IV (2);Laminin B, subgroup (1);	0.000000	0.40302	N	0.001137	T	0.60663	0.2286	M	0.80982	2.52	0.54753	D	0.999984	D	0.89917	1.0	D	0.87578	0.998	T	0.65697	-0.6105	10	0.87932	D	0	.	11.9832	0.53131	0.0846:0.0:0.9154:0.0	.	619	P98160	PGBM_HUMAN	C	619	ENSP00000363827:R619C	ENSP00000363827:R619C	R	-	1	0	HSPG2	22079879	1.000000	0.71417	1.000000	0.80357	0.533000	0.34776	3.767000	0.55288	1.313000	0.45069	0.561000	0.74099	CGC		0.657	HSPG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000007598.1	NM_005529		A	22207292	G	A	22207292	3	1	651	1	0	0	0	0	1	0	0	0	7437	1087	38	1	11652	1	HSPG2	1	22207292	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10	15560471	22207292	227043329	2	40323										
ASXL2	55252	broad.mit.edu;hgsc.bcm.edu	37	chr2	25966455	25966455	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	gaagctgctggcaaagtgctCgagggtggagctgatccagc	16	9	0	1			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr2:25966455C>T	ENST00000435504.4	-	13	3044	c.2751G>A	c.(2749-2751)tcG>tcA	p.S917S	ASXL2_ENST00000404843.1_Intron|ASXL2_ENST00000336112.4_Silent_p.S889S|ASXL2_ENST00000272341.4_Intron			Q76L83	ASXL2_HUMAN	additional sex combs like transcriptional regulator 2	917					adult heart development (GO:0007512)|embryonic skeletal system morphogenesis (GO:0048704)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of bone mineralization involved in bone maturation (GO:1900159)|positive regulation of fat cell differentiation (GO:0045600)|positive regulation of histone H3-K27 trimethylation (GO:1902466)|positive regulation of osteoclast differentiation (GO:0045672)|positive regulation of peroxisome proliferator activated receptor signaling pathway (GO:0035360)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nuclear chromatin (GO:0000790)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|peroxisome proliferator activated receptor binding (GO:0042975)			NS(1)|breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(4)|lung(7)|pancreas(1)|prostate(4)|skin(3)|urinary_tract(3)	33	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCAAAGTGCTCGAGGGTGGAG	0.473																																																0													96	98	97					2																	25966455		1935	4140	6075	SO:0001819	synonymous_variant	55252					2p24.1	2014-06-17	2014-06-17		ENSG00000143970	ENSG00000143970			23805	protein-coding gene	gene with protein product		612991	"additional sex combs like 2 (Drosophila)"			12888926	Standard	NM_018263		Approved	ASXH2, FLJ10898, KIAA1685	uc002rgs.2	Q76L83	OTTHUMG00000152176	ENST00000435504.4:c.2751G>A	2.37:g.25966455C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q53TC9|Q5H9U4|Q76L81|Q86XM1|Q9C0H8|Q9NV67	Silent	SNP	ENST00000435504.4	37																																																																																					0.473	ASXL2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000325593.3	NM_018263		T	25966455	C	T	25966455	2	4	651	1	0	0	0	0	0	0	0	1	1067	871	31	1		1	ASXL2	2	25966455	Silent	SNP	C	TCGA-KM-8443-01A-11D-2310-10		25966455	217232918	3	40324										
CCT7	10574	ucsc.edu	37	chr2	73467611	73467611	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	gccacaattctgaaacttctTgatgttgtccatcctgcagc	7	12	2	2			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr2:73467611T>C	ENST00000258091.5	+	3	348	c.207T>C	c.(205-207)ctT>ctC	p.L69L	CCT7_ENST00000538797.1_5'UTR|CCT7_ENST00000539919.1_Silent_p.L25L|CCT7_ENST00000537131.1_Intron|CCT7_ENST00000473786.1_Intron|CCT7_ENST00000398422.2_Intron|CCT7_ENST00000540468.1_Intron	NM_006429.3	NP_006420.1	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 (eta)	69					'de novo' posttranslational protein folding (GO:0051084)|binding of sperm to zona pellucida (GO:0007339)|cellular protein metabolic process (GO:0044267)|protein folding (GO:0006457)	cell body (GO:0044297)|chaperonin-containing T-complex (GO:0005832)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|mitochondrion (GO:0005739)|zona pellucida receptor complex (GO:0002199)	ATP binding (GO:0005524)|unfolded protein binding (GO:0051082)			breast(1)|cervix(1)|endometrium(1)|lung(3)|stomach(1)	7						TGAAACTTCTTGATGTTGTCC	0.383																																																0													119	111	114					2																	73467611		1858	4101	5959	SO:0001819	synonymous_variant	10574			AF026292	CCDS42696.1, CCDS46336.1, CCDS54366.1, CCDS54367.1	2p13.2	2011-09-02			ENSG00000135624	ENSG00000135624		"Heat Shock Proteins / Chaperonins"	1622	protein-coding gene	gene with protein product		605140				9819444	Standard	NM_006429		Approved	Ccth, Nip7-1	uc002siz.3	Q99832	OTTHUMG00000152765	ENST00000258091.5:c.207T>C	2.37:g.73467611T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7E6|A8MWI8|B7WNW9|B7Z4T9|B7Z4Z7|O14871|Q6FI26	Silent	SNP	ENST00000258091.5	37	CCDS46336.1																																																																																				0.383	CCT7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327714.2			C	73467611	T	C	73467611	2	2	651	1	0	0	0	0	0	0	0	1	2961	1799	63	3		3	CCT7	2	73467611	Silent	SNP	T	TCGA-KM-8443-01A-11D-2310-10	47501156	73467611	169731762	4	40325										
NBEAL2	23218	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr3	47041771	47041771	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	actccttcgccactggatggGccgcggccctttcctgctgc	11	17	0	0			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr3:47041771G>A	ENST00000450053.3	+	27	4361	c.4182G>A	c.(4180-4182)ggG>ggA	p.G1394G	NBEAL2_ENST00000383740.2_5'UTR|NBEAL2_ENST00000292309.5_Silent_p.G1210G	NM_015175.2	NP_055990.1	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	1394					blood coagulation (GO:0007596)|megakaryocyte development (GO:0035855)|platelet alpha granule organization (GO:0070889)|platelet formation (GO:0030220)	endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)				NS(1)|breast(1)|central_nervous_system(3)|cervix(2)|endometrium(8)|kidney(5)|large_intestine(9)|lung(9)|ovary(4)|pancreas(1)|prostate(3)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	51		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)		CACTGGATGGGCCGCGGCCCT	0.642																																																0													23	28	26					3																	47041771		2074	4213	6287	SO:0001819	synonymous_variant	23218			AB011112	CCDS46817.1	3p21.31	2014-09-17			ENSG00000160796	ENSG00000160796		"WD repeat domain containing"	31928	protein-coding gene	gene with protein product		614169					Standard	NM_015175		Approved	KIAA0540	uc003cqp.3	Q6ZNJ1	OTTHUMG00000156497	ENST00000450053.3:c.4182G>A	3.37:g.47041771G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60288|Q6P994|Q6UX91|Q8NAC9	Silent	SNP	ENST00000450053.3	37	CCDS46817.1	.	.	.	.	.	.	.	.	.	.	G	2.245	-0.372895	0.05034	.	.	ENSG00000160796	ENST00000416683	T	0.56611	0.45	5.48	1.58	0.23477	.	0.554048	0.19794	N	0.105905	T	0.46425	0.1392	.	.	.	0.51482	D	0.999921	.	.	.	.	.	.	T	0.31194	-0.9952	7	0.38643	T	0.18	.	2.157	0.03814	0.1597:0.2694:0.4148:0.1562	.	.	.	.	D	682	ENSP00000410405:G682D	ENSP00000410405:G682D	G	+	2	0	NBEAL2	47016775	0.927000	0.31430	0.985000	0.45067	0.362000	0.29581	0.410000	0.21098	0.006000	0.14734	-0.397000	0.06425	GGC		0.642	NBEAL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344363.3	XM_291064		A	47041771	G	A	47041771	2	1	651	1	0	0	0	0	0	0	0	1	10196	1190	42	2		2	NBEAL2	3	47041771	Silent	SNP	G	TCGA-KM-8443-01A-11D-2310-10		47041771	150980659	5	40326										
BSN	8927	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	49691694	49691694	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	catctgacgcctccagccagAccaggatggtacatgccagt	10	14	1	2			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr3:49691694A>T	ENST00000296452.4	+	5	4819	c.4705A>T	c.(4705-4707)Acc>Tcc	p.T1569S		NM_003458.3	NP_003449.2	Q9UPA5	BSN_HUMAN	bassoon presynaptic cytomatrix protein	1569					synaptic transmission (GO:0007268)	axon (GO:0030424)|cell junction (GO:0030054)|dendrite (GO:0030425)|neuron projection terminus (GO:0044306)|nucleus (GO:0005634)|presynaptic cytoskeletal matrix assembled at active zones (GO:0048788)	metal ion binding (GO:0046872)			breast(8)|central_nervous_system(2)|cervix(2)|endometrium(16)|kidney(3)|large_intestine(17)|lung(37)|ovary(7)|pancreas(1)|prostate(4)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	106				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CTCCAGCCAGACCAGGATGGT	0.607																																																0													81	80	81					3																	49691694		2203	4300	6503	SO:0001583	missense	8927			AF052224	CCDS2800.1	3p21	2013-01-07	2013-01-07		ENSG00000164061	ENSG00000164061			1117	protein-coding gene	gene with protein product	"zinc finger protein 231", "neuronal double zinc finger protein"	604020	"bassoon (presynaptic cytomatrix protein)"	ZNF231		9806829, 10329005	Standard	NM_003458		Approved		uc003cxe.4	Q9UPA5	OTTHUMG00000133750	ENST00000296452.4:c.4705A>T	3.37:g.49691694A>T	ENSP00000296452:p.Thr1569Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O43161|Q7LGH3	Missense_Mutation	SNP	ENST00000296452.4	37	CCDS2800.1	.	.	.	.	.	.	.	.	.	.	A	12.69	2.014371	0.35511	.	.	ENSG00000164061	ENST00000296452	T	0.20200	2.09	5.47	4.3	0.51218	.	0.221290	0.46758	D	0.000272	T	0.19208	0.0461	L	0.50333	1.59	0.40821	D	0.983501	B	0.27229	0.172	B	0.24155	0.051	T	0.03761	-1.1006	10	0.29301	T	0.29	.	11.1166	0.48264	0.9274:0.0:0.0726:0.0	.	1569	Q9UPA5	BSN_HUMAN	S	1569	ENSP00000296452:T1569S	ENSP00000296452:T1569S	T	+	1	0	BSN	49666698	1.000000	0.71417	0.992000	0.48379	0.923000	0.55619	1.847000	0.39299	0.917000	0.36895	0.379000	0.24179	ACC		0.607	BSN-001	KNOWN	NMD_exception|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000258164.1	NM_003458		T	49691694	A	T	49691694	3	4	651	1	0	0	0	0	1	0	0	0	1532	275	10	5	4723	5	BSN	3	49691694	Missense_Mutation	SNP	A	TCGA-KM-8443-01A-11D-2310-10	2649923	49691694	148330736	6	40327										
DRD3	1814	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	113890761	113890761	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	ggcatagtaggcatgtgggcGggcctggctggcacctgtgg	19	9	0	0			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr3:113890761G>A	ENST00000460779.1	-	3	368	c.79C>T	c.(79-81)Cgc>Tgc	p.R27C	DRD3_ENST00000383673.2_Missense_Mutation_p.R27C|DRD3_ENST00000295881.7_Missense_Mutation_p.R27C|DRD3_ENST00000467632.1_Missense_Mutation_p.R27C	NM_001282563.1	NP_001269492.1	P35462	DRD3_HUMAN	dopamine receptor D3	27					acid secretion (GO:0046717)|adenylate cyclase-activating dopamine receptor signaling pathway (GO:0007191)|adenylate cyclase-inhibiting dopamine receptor signaling pathway (GO:0007195)|arachidonic acid secretion (GO:0050482)|behavioral response to cocaine (GO:0048148)|cellular calcium ion homeostasis (GO:0006874)|circadian regulation of gene expression (GO:0032922)|dopamine metabolic process (GO:0042417)|G-protein coupled receptor internalization (GO:0002031)|G-protein coupled receptor signaling pathway (GO:0007186)|gastric emptying (GO:0035483)|learning (GO:0007612)|learning or memory (GO:0007611)|locomotory behavior (GO:0007626)|musculoskeletal movement, spinal reflex action (GO:0050883)|negative regulation of adenylate cyclase activity (GO:0007194)|negative regulation of blood pressure (GO:0045776)|negative regulation of dopamine receptor signaling pathway (GO:0060160)|negative regulation of oligodendrocyte differentiation (GO:0048715)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein secretion (GO:0050709)|negative regulation of sodium:proton antiporter activity (GO:0032416)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cytokinesis (GO:0032467)|positive regulation of dopamine receptor signaling pathway (GO:0060161)|positive regulation of mitosis (GO:0045840)|positive regulation of renal sodium excretion (GO:0035815)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|prepulse inhibition (GO:0060134)|regulation of blood volume by renin-angiotensin (GO:0002016)|regulation of cAMP metabolic process (GO:0030814)|regulation of circadian sleep/wake cycle, sleep (GO:0045187)|regulation of dopamine secretion (GO:0014059)|regulation of dopamine uptake involved in synaptic transmission (GO:0051584)|regulation of lipid metabolic process (GO:0019216)|regulation of locomotion involved in locomotory behavior (GO:0090325)|regulation of multicellular organism growth (GO:0040014)|response to amphetamine (GO:0001975)|response to cocaine (GO:0042220)|response to drug (GO:0042493)|response to histamine (GO:0034776)|response to morphine (GO:0043278)|social behavior (GO:0035176)|synaptic transmission, dopaminergic (GO:0001963)|visual learning (GO:0008542)	apical part of cell (GO:0045177)|cell projection (GO:0042995)|endocytic vesicle (GO:0030139)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	dopamine binding (GO:0035240)|dopamine neurotransmitter receptor activity, coupled via Gi/Go (GO:0001591)|drug binding (GO:0008144)			central_nervous_system(2)|endometrium(1)|kidney(2)|large_intestine(4)|liver(1)|lung(23)|ovary(1)|pancreas(1)|skin(1)	36					Amisulpride(DB06288)|Amoxapine(DB00543)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Asenapine(DB06216)|Bromocriptine(DB01200)|Cabergoline(DB00248)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Clozapine(DB00363)|Domperidone(DB01184)|Dopamine(DB00988)|Haloperidol(DB00502)|Iloperidone(DB04946)|L-DOPA(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Pimozide(DB01100)|Pramipexole(DB00413)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Rotigotine(DB05271)|Sulpiride(DB00391)|Yohimbine(DB01392)|Ziprasidone(DB00246)	GCATGTGGGCGGGCCTGGCTG	0.627																																																0													41	36	38					3																	113890761		2203	4300	6503	SO:0001583	missense	1814				CCDS2978.1, CCDS33829.1	3q13.3	2012-08-08			ENSG00000151577	ENSG00000151577		"GPCR / Class A : Dopamine receptors"	3024	protein-coding gene	gene with protein product		126451				1916765	Standard	XM_005247171		Approved		uc003ebc.1	P35462	OTTHUMG00000159334	ENST00000460779.1:c.79C>T	3.37:g.113890761G>A	ENSP00000419402:p.Arg27Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4V5|Q4VBM8	Missense_Mutation	SNP	ENST00000460779.1	37	CCDS2978.1	.	.	.	.	.	.	.	.	.	.	G	22.3	4.276566	0.80580	.	.	ENSG00000151577	ENST00000460779;ENST00000467632;ENST00000383673;ENST00000281274;ENST00000295881	T;T;T;T	0.37584	1.19;1.19;1.19;1.19	5.0	5.0	0.66597	.	0.587132	0.18863	N	0.129078	T	0.30978	0.0782	N	0.19112	0.55	0.20489	N	0.999893	D;D;D;P	0.63046	0.977;0.977;0.992;0.857	P;P;B;P	0.44860	0.462;0.462;0.386;0.462	T	0.18335	-1.0340	10	0.46703	T	0.11	.	18.4938	0.90856	0.0:0.0:1.0:0.0	.	27;27;27;27	A1A4V4;A8K8E4;P35462;E9PCM4	.;.;DRD3_HUMAN;.	C	27	ENSP00000419402:R27C;ENSP00000420662:R27C;ENSP00000373169:R27C;ENSP00000295881:R27C	ENSP00000281274:R27C	R	-	1	0	DRD3	115373451	0.912000	0.30974	0.651000	0.29564	0.276000	0.26787	3.919000	0.56439	2.603000	0.88011	0.655000	0.94253	CGC		0.627	DRD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354699.1	NM_000796.3		A	113890761	G	A	113890761	3	1	651	1	0	0	0	0	1	0	0	0	4760	1116	39	1	1147	1	DRD3	3	113890761	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10	64199067	113890761	84131669	7	40328										
TIGIT	201633	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr3	114018494	114018494	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	cattgcttggagccatggccGcgacgctggtggtcatctgc	14	12	2	0	rs369133784		TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr3:114018494G>A	ENST00000486257.1	+	4	699	c.442G>A	c.(442-444)Gcg>Acg	p.A148T	TIGIT_ENST00000383671.3_Missense_Mutation_p.A148T|TIGIT_ENST00000481065.1_Missense_Mutation_p.A215T			Q495A1	TIGIT_HUMAN	T cell immunoreceptor with Ig and ITIM domains	148					negative regulation of interleukin-12 production (GO:0032695)|negative regulation of T cell activation (GO:0050868)|positive regulation of interleukin-10 production (GO:0032733)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	receptor binding (GO:0005102)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|large_intestine(4)|lung(7)|prostate(1)	17						AGCCATGGCCGCGACGCTGGT	0.582																																																0								G	THR/ALA	0,4406		0,0,2203	91	76	81		442	-8.2	0	3		81	1,8599	1.2+/-3.3	0,1,4299	no	missense	TIGIT	NM_173799.3	58	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	benign	148/245	114018494	1,13005	2203	4300	6503	SO:0001583	missense	201633			AK097192	CCDS2980.1	3q13.31	2013-01-11	2008-10-13	2008-10-13	ENSG00000181847	ENSG00000181847		"Immunoglobulin superfamily / V-set domain containing"	26838	protein-coding gene	gene with protein product		612859	"V-set and immunoglobulin domain containing 9", "V-set and transmembrane domain containing 3"	VSIG9, VSTM3		19011627	Standard	NM_173799		Approved	FLJ39873, DKFZp667A205	uc003ebg.2	Q495A1	OTTHUMG00000159331	ENST00000486257.1:c.442G>A	3.37:g.114018494G>A	ENSP00000419085:p.Ala148Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q495A3|Q5JPD8|Q6MZS2|Q8N877	Missense_Mutation	SNP	ENST00000486257.1	37	CCDS2980.1	.	.	.	.	.	.	.	.	.	.	G	0.030	-1.340308	0.01277	0.0	1.16E-4	ENSG00000181847	ENST00000461158;ENST00000481065;ENST00000486257;ENST00000383671;ENST00000484319	T;T;T;T;T	0.56611	0.51;0.45;0.49;0.49;0.51	4.09	-8.19	0.01049	.	1.743640	0.02883	N	0.133134	T	0.29190	0.0726	N	0.17082	0.46	0.09310	N	1	B	0.10296	0.003	B	0.01281	0.0	T	0.29882	-0.9997	10	0.07813	T	0.8	4.6473	8.6741	0.34167	0.1485:0.0:0.5321:0.3194	.	148	Q495A1	TIGIT_HUMAN	T	127;215;148;148;127	ENSP00000418917:A127T;ENSP00000420552:A215T;ENSP00000419085:A148T;ENSP00000373167:A148T;ENSP00000419706:A127T	ENSP00000373167:A148T	A	+	1	0	TIGIT	115501184	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-2.907000	0.00700	-2.557000	0.00476	-1.140000	0.01884	GCG		0.582	TIGIT-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354690.1	NM_173799		A	114018494	G	A	114018494	3	1	651	1	0	0	0	0	1	0	0	0	15914	1087	38	1	452	1	TIGIT	3	114018494	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10	127733	114018494	84003936	8	40329										
CLCN2	1181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	184075816	184075816	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	atgaccttagctataaaggtCttgagtgtgaggtattcttt	10	5	2	3			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr3:184075816C>G	ENST00000265593.4	-	5	720	c.549G>C	c.(547-549)aaG>aaC	p.K183N	CLCN2_ENST00000344937.7_Missense_Mutation_p.K183N|CLCN2_ENST00000475279.1_5'Flank|CLCN2_ENST00000423355.2_5'UTR|CLCN2_ENST00000457512.1_Missense_Mutation_p.K183N|CLCN2_ENST00000434054.2_Missense_Mutation_p.K139N|EIF2B5_ENST00000444495.1_Intron	NM_004366.5	NP_004357.3	P51788	CLCN2_HUMAN	chloride channel, voltage-sensitive 2	183					cell differentiation involved in salivary gland development (GO:0060689)|ion transmembrane transport (GO:0034220)|regulation of anion transport (GO:0044070)|retina development in camera-type eye (GO:0060041)|transmembrane transport (GO:0055085)|transport (GO:0006810)	chloride channel complex (GO:0034707)|plasma membrane (GO:0005886)	adenyl nucleotide binding (GO:0030554)|voltage-gated chloride channel activity (GO:0005247)			breast(2)|central_nervous_system(4)|endometrium(1)|kidney(3)|large_intestine(4)|lung(9)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	27	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)	CTATAAAGGTCTTGAGTGTGA	0.562																																																0													85	81	82					3																	184075816		2203	4300	6503	SO:0001583	missense	1181			S77770	CCDS3263.1, CCDS54690.1, CCDS54691.1, CCDS54692.1	3q27.1	2013-09-19	2012-02-23		ENSG00000114859	ENSG00000114859		"Ion channels / Chloride channels : Voltage-sensitive"	2020	protein-coding gene	gene with protein product		600570	"chloride channel 2"			7795595	Standard	NM_004366		Approved	CLC2, EJM6, ClC-2	uc003foi.4	P51788	OTTHUMG00000156747	ENST00000265593.4:c.549G>C	3.37:g.184075816C>G	ENSP00000265593:p.Lys183Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B4DQT9|B4DZ58|E9PBD9|E9PCD2|O14864|Q6IPA9|Q8WU13	Missense_Mutation	SNP	ENST00000265593.4	37	CCDS3263.1	.	.	.	.	.	.	.	.	.	.	c	17.24	3.340551	0.60963	.	.	ENSG00000114859	ENST00000265593;ENST00000344937;ENST00000434054;ENST00000457512	D;D;D;D	0.94862	-3.54;-3.54;-3.54;-3.54	4.34	4.34	0.51931	Chloride channel, core (2);	0.000000	0.85682	D	0.000000	D	0.96595	0.8889	M	0.81497	2.545	0.80722	D	1	P;P;D;P;P	0.76494	0.936;0.931;0.999;0.553;0.733	P;P;D;B;P	0.74674	0.827;0.635;0.984;0.35;0.538	D	0.96554	0.9410	10	0.87932	D	0	-20.6668	10.337	0.43856	0.0:0.9085:0.0:0.0915	.	183;139;183;183;183	B4DYE3;E9PBD9;E9PCD2;P51788-3;P51788	.;.;.;.;CLCN2_HUMAN	N	183;183;139;183	ENSP00000265593:K183N;ENSP00000345056:K183N;ENSP00000400425:K139N;ENSP00000391928:K183N	ENSP00000265593:K183N	K	-	3	2	CLCN2	185558510	0.981000	0.34729	1.000000	0.80357	0.907000	0.53573	0.165000	0.16564	2.250000	0.74265	0.462000	0.41574	AAG		0.562	CLCN2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000345571.1			G	184075816	C	G	184075816	3	3	651	1	0	0	0	0	1	0	0	0	3465	912	32	4	2227	4	CLCN2	3	184075816	Missense_Mutation	SNP	C	TCGA-KM-8443-01A-11D-2310-10	70057322	184075816	13946614	9	40330										
TNK2	10188	broad.mit.edu	37	chr3	195594314	195594314	+	Frame_Shift_Del	DEL	G	G	-													0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	gcagccgagcagtggccctcGggggtggtggccgggcccct							TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr3:195594314delG	ENST00000333602.6	-	12	3427	c.2810delC	c.(2809-2811)ccgfs	p.P937fs	TNK2_ENST00000428187.1_Frame_Shift_Del_p.P969fs|TNK2_ENST00000381916.2_Frame_Shift_Del_p.P1015fs|TNK2_ENST00000392400.1_Frame_Shift_Del_p.P937fs	NM_005781.4	NP_005772.3	Q07912	ACK1_HUMAN	tyrosine kinase, non-receptor, 2	937	Pro-rich.			Missing (in Ref. 4; AAH08884). {ECO:0000305}.	cell surface receptor signaling pathway (GO:0007166)|endocytosis (GO:0006897)|negative regulation of catalytic activity (GO:0043086)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphorylation (GO:0016310)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|regulation of clathrin-mediated endocytosis (GO:2000369)|small GTPase mediated signal transduction (GO:0007264)	axon (GO:0030424)|cell junction (GO:0030054)|clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|endosome (GO:0005768)|Grb2-EGFR complex (GO:0070436)|growth cone (GO:0030426)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|epidermal growth factor receptor binding (GO:0005154)|GTPase inhibitor activity (GO:0005095)|metal ion binding (GO:0046872)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein serine/threonine kinase activity (GO:0004674)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|protein tyrosine kinase activity (GO:0004713)|WW domain binding (GO:0050699)			central_nervous_system(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(11)|ovary(3)|prostate(4)|skin(2)|stomach(1)|urinary_tract(1)	29	all_cancers(143;6.48e-09)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;1.46e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.3e-19)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;0.000757)	Adenosine triphosphate(DB00171)	AGTGGCCCTCGGGGGTGGTGG	0.716																																																0													7	10	9					3																	195594314		2037	4141	6178	SO:0001589	frameshift_variant	10188			L13738	CCDS33927.1, CCDS33928.1	3q29	2013-09-02			ENSG00000061938	ENSG00000061938			19297	protein-coding gene	gene with protein product	"activated Cdc42-associated kinase 1"	606994				8497321, 14506255	Standard	XM_006713460		Approved	p21cdc42Hs, ACK, ACK1	uc003fvt.1	Q07912	OTTHUMG00000155737	ENST00000333602.6:c.2810delC	3.37:g.195594314delG	ENSP00000329425:p.Pro937fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZMQ0|Q8N6U7|Q96H59	Frame_Shift_Del	DEL	ENST00000333602.6	37	CCDS33928.1																																																																																				0.716	TNK2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341437.3	NM_005781		-	195594314	G	-	195594314	7	5	651	1	0	1	0	1	0	0	0	0	16330	1116	39	0	322	0	TNK2	3	195594314	Frame_Shift_Del	DEL	G	TCGA-KM-8443-01A-11D-2310-10	11518498	195594314	2428116	10	40331										
UGT2B4	7363	mdanderson.org	37	chr4	70361420	70361420	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	agctgaagatgccaatacagTcacctcatgacctctctgga	8	12	3	3			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr4:70361420T>C	ENST00000305107.6	-	1	206	c.160A>G	c.(160-162)Act>Gct	p.T54A	UGT2B4_ENST00000506580.1_5'UTR|UGT2B4_ENST00000381096.3_Intron|UGT2B4_ENST00000512583.1_Missense_Mutation_p.T54A	NM_021139.2	NP_066962.2	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2 family, polypeptide B4	54					cellular glucuronidation (GO:0052695)|estrogen catabolic process (GO:0006711)|metabolic process (GO:0008152)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	glucuronosyltransferase activity (GO:0015020)			autonomic_ganglia(1)|breast(1)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(29)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	47					Canagliflozin(DB08907)|Codeine(DB00318)|Dapagliflozin(DB06292)|Flurbiprofen(DB00712)|Ibuprofen(DB01050)|Morphine(DB00295)	GCCAATACAGTCACCTCATGA	0.423																																																0													111	115	113					4																	70361420		2202	4300	6502	SO:0001583	missense	7363			BC026264	CCDS43234.1, CCDS75137.1	4q13	2008-02-05	2005-07-20			ENSG00000156096		"UDP glucuronosyltransferases"	12553	protein-coding gene	gene with protein product		600067	"UDP glycosyltransferase 2 family, polypeptide B4"			3109396, 7835904	Standard	NM_021139		Approved	UGT2B11	uc003hek.4	P06133		ENST00000305107.6:c.160A>G	4.37:g.70361420T>C	ENSP00000305221:p.Thr54Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6NCP7|B4DT75|G5E9X8|O60731|O60867|O75614|P36538|Q1HBF9|Q6QQX7	Missense_Mutation	SNP	ENST00000305107.6	37	CCDS43234.1	.	.	.	.	.	.	.	.	.	.	T	16.56	3.158757	0.57368	.	.	ENSG00000156096	ENST00000512583;ENST00000305107;ENST00000510114	T;T;T	0.70516	-0.49;-0.49;0.28	2.41	2.41	0.29592	.	0.000000	0.64402	U	0.000014	T	0.80539	0.4642	M	0.88450	2.955	0.80722	D	1	D;P	0.63046	0.992;0.925	P;P	0.56648	0.775;0.803	T	0.82127	-0.0611	10	0.87932	D	0	.	8.376	0.32442	0.0:0.0:0.0:1.0	.	54;54	G5E9X8;P06133	.;UD2B4_HUMAN	A	54	ENSP00000421290:T54A;ENSP00000305221:T54A;ENSP00000421113:T54A	ENSP00000305221:T54A	T	-	1	0	UGT2B4	70396009	0.525000	0.26290	0.459000	0.27081	0.088000	0.18126	1.953000	0.40352	1.105000	0.41606	0.254000	0.18369	ACT		0.423	UGT2B4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365526.1	NM_021139		C	70361420	T	C	70361420	3	2	651	1	0	0	0	0	1	0	0	0	16973	1667	58	3	1450	3	UGT2B4	4	70361420	Missense_Mutation	SNP	T	TCGA-KM-8443-01A-11D-2310-10		70361420	120792856	11	40332										
SNX25	83891	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	186283807	186283807	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	acagcaaaatgcccgccacgGtataataaaaatattcaatg	6	9	1	0			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr4:186283807G>A	ENST00000504273.1	+	18	2678	c.2384G>A	c.(2383-2385)gGt>gAt	p.G795D	SNX25_ENST00000264694.8_Missense_Mutation_p.G795D|SNX25_ENST00000512853.1_3'UTR			Q9H3E2	SNX25_HUMAN	sorting nexin 25	795					negative regulation of pathway-restricted SMAD protein phosphorylation (GO:0060394)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|protein transport (GO:0015031)|receptor catabolic process (GO:0032801)|termination of G-protein coupled receptor signaling pathway (GO:0038032)	endosome (GO:0005768)|membrane (GO:0016020)	phosphatidylinositol binding (GO:0035091)			NS(1)|breast(4)|endometrium(2)|kidney(4)|large_intestine(8)|lung(13)|ovary(2)|pancreas(2)|prostate(2)|urinary_tract(2)	40		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)		GCCCGCCACGGTATAATAAAA	0.383																																																0													152	168	163					4																	186283807		2203	4300	6503	SO:0001583	missense	83891			AF113223	CCDS34116.1	4q35.1	2011-05-03			ENSG00000109762	ENSG00000109762		"Sorting nexins"	21883	protein-coding gene	gene with protein product						12461558	Standard	NM_031953		Approved	SBBI31	uc003ixh.3	Q9H3E2	OTTHUMG00000160475	ENST00000504273.1:c.2384G>A	4.37:g.186283807G>A	ENSP00000426255:p.Gly795Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q3ZT30|Q8N6K3	Missense_Mutation	SNP	ENST00000504273.1	37	CCDS34116.1	.	.	.	.	.	.	.	.	.	.	G	24.1	4.490916	0.84962	.	.	ENSG00000109762	ENST00000504273;ENST00000264694;ENST00000264693	T;T	0.36157	1.27;1.27	5.09	4.22	0.49857	Sorting nexin, C-terminal (1);	0.108154	0.64402	D	0.000005	T	0.64918	0.2642	M	0.87456	2.885	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	0.991;1.0;0.993	T	0.72077	-0.4399	10	0.87932	D	0	-17.0607	15.7978	0.78424	0.0:0.1355:0.8645:0.0	.	511;328;795	Q8N6K3;Q9H5Q8;Q9H3E2	.;.;SNX25_HUMAN	D	795;795;328	ENSP00000426255:G795D;ENSP00000264694:G795D	ENSP00000264693:G328D	G	+	2	0	SNX25	186520801	1.000000	0.71417	0.993000	0.49108	0.988000	0.76386	8.748000	0.91615	2.667000	0.90743	0.561000	0.74099	GGT		0.383	SNX25-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360756.1	NM_031953		A	186283807	G	A	186283807	3	1	651	1	0	0	0	0	1	0	0	0	14909	1261	44	2	2450	2	SNX25	4	186283807	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10	115922387	186283807	4870469	12	40333										
KIAA0947	23379	broad.mit.edu;hgsc.bcm.edu	37	chr5	5463283	5463284	+	Frame_Shift_Ins	INS	-	-	TA													0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	aattctgaagattgcaatggINStaaagatactggcagtttat							TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr5:5463283_5463284insTA	ENST00000296564.7	+	13	4058_4059	c.3836_3837insTA	c.(3835-3840)ggtaaafs	p.K1280fs		NM_015325.2	NP_056140.1	Q9Y2F5	ICE1_HUMAN		1280					positive regulation of intracellular protein transport (GO:0090316)|positive regulation of protein complex assembly (GO:0031334)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|snRNA transcription from RNA polymerase II promoter (GO:0042795)|snRNA transcription from RNA polymerase III promoter (GO:0042796)	Cajal body (GO:0015030)|histone locus body (GO:0035363)|transcription elongation factor complex (GO:0008023)|transcriptionally active chromatin (GO:0035327)	protein homodimerization activity (GO:0042803)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(5)|lung(14)|ovary(1)|prostate(4)|upper_aerodigestive_tract(1)	35						GATTGCAATGGTAAAGATACTG	0.371																																																0																																										SO:0001589	frameshift_variant	23379																														ENST00000296564.7:c.3837_3838dupTA	5.37:g.5463284_5463285dupTA	ENSP00000296564:p.Lys1280fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DE1|Q6ZT40|Q7L587|Q7Z3A9|Q9NTH9	Frame_Shift_Ins	INS	ENST00000296564.7	37	CCDS47187.1																																																																																				0.371	KIAA0947-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365575.1			TA	5463284	-	TA	5463283	7	5	651	1	0	1	1	0	0	0	0	0	8209	1261	44	0	3886	0	KIAA0947	5	5463283	Frame_Shift_Ins	INS	-	TCGA-KM-8443-01A-11D-2310-10		5463283	175451977	13	40334	362	2								
KIAA0947	23379	bcgsc.ca	37	chr5	5463284	5463285	+	Frame_Shift_Ins	INS	-	-	TA													0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	attctgaagattgcaatggtINSaaagatactggcagtttatt							TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr5:5463284_5463285insTA	ENST00000296564.7	+	13	4059_4060	c.3837_3838insTA	c.(3838-3840)aaafs	p.K1280fs		NM_015325.2	NP_056140.1	Q9Y2F5	ICE1_HUMAN		1280					positive regulation of intracellular protein transport (GO:0090316)|positive regulation of protein complex assembly (GO:0031334)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|snRNA transcription from RNA polymerase II promoter (GO:0042795)|snRNA transcription from RNA polymerase III promoter (GO:0042796)	Cajal body (GO:0015030)|histone locus body (GO:0035363)|transcription elongation factor complex (GO:0008023)|transcriptionally active chromatin (GO:0035327)	protein homodimerization activity (GO:0042803)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(5)|lung(14)|ovary(1)|prostate(4)|upper_aerodigestive_tract(1)	35						ATTGCAATGGTAAAGATACTGG	0.376																																																0																																										SO:0001589	frameshift_variant	23379																														Exception_encountered	5.37:g.5463284_5463285insTA	ENSP00000296564:p.Lys1280fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DE1|Q6ZT40|Q7L587|Q7Z3A9|Q9NTH9	Frame_Shift_Ins	INS	ENST00000296564.7	37	CCDS47187.1																																																																																				0.376	KIAA0947-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365575.1			TA	5463285	-	TA	5463284	7	5	651	1	0	1	1	0	0	0	0	0	8209	1625	57	0	3887	0	KIAA0947	5	5463284	Frame_Shift_Ins	INS	-	TCGA-KM-8443-01A-11D-2310-10	1	5463284	175451976	14	40335	362	2								
TAS2R1	50834	hgsc.bcm.edu;ucsc.edu	37	chr5	9629359	9629359	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	tatataccaatcacaaggatGaagaacagaaagatgaacct	7	7	1	5			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr5:9629359G>A	ENST00000382492.2	-	1	1104	c.786C>T	c.(784-786)ttC>ttT	p.F262F	CTD-2001E22.1_ENST00000504182.2_RNA	NM_019599.2	NP_062545.1	Q9NYW7	TA2R1_HUMAN	taste receptor, type 2, member 1	262					chemosensory behavior (GO:0007635)|detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)|G-protein coupled receptor signaling pathway (GO:0007186)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)|taste receptor activity (GO:0008527)			breast(5)|central_nervous_system(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(19)|ovary(3)|prostate(1)|skin(1)|stomach(1)	39						TCACAAGGATGAAGAACAGAA	0.373																																																0													99	103	102					5																	9629359		2203	4300	6503	SO:0001819	synonymous_variant	50834			AF227129	CCDS3876.1	5p15	2012-08-22			ENSG00000169777	ENSG00000169777		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	14909	protein-coding gene	gene with protein product		604796				10761934, 10766242	Standard	NM_019599		Approved	T2R1, TRB7	uc003jem.1	Q9NYW7	OTTHUMG00000090500	ENST00000382492.2:c.786C>T	5.37:g.9629359G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q646G8	Silent	SNP	ENST00000382492.2	37	CCDS3876.1																																																																																				0.373	TAS2R1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206988.2			A	9629359	G	A	9629359	2	1	651	1	0	0	0	0	0	0	0	1	15577	1281	45	2		2	TAS2R1	5	9629359	Silent	SNP	G	TCGA-KM-8443-01A-11D-2310-10	4166075	9629359	171285901	15	40336										
GPBP1	65056	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	56545266	56545266	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	caaattcctcttctcctgttGacaaacttaatcagcagcct	4	13	3	1			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr5:56545266G>A	ENST00000506184.2	+	9	1940	c.835G>A	c.(835-837)Gac>Aac	p.D279N	GPBP1_ENST00000454432.2_Missense_Mutation_p.D299N|GPBP1_ENST00000424459.3_Missense_Mutation_p.D299N|GPBP1_ENST00000264779.6_Missense_Mutation_p.D286N|GPBP1_ENST00000538707.1_Missense_Mutation_p.D286N|GPBP1_ENST00000511209.1_Intron|GPBP1_ENST00000514387.2_Missense_Mutation_p.D108N			Q86WP2	GPBP1_HUMAN	GC-rich promoter binding protein 1	279					positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(2)|large_intestine(3)|lung(4)|ovary(1)|skin(1)|urinary_tract(1)	19		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)		TTCTCCTGTTGACAAACTTAA	0.363																																																0													104	97	100					5																	56545266		2202	4298	6500	SO:0001583	missense	65056				CCDS34162.1, CCDS47211.1, CCDS47212.1, CCDS47212.2, CCDS56368.1	5q11.2	2008-02-05				ENSG00000062194			29520	protein-coding gene	gene with protein product		608412				12842993	Standard	NM_022913		Approved	DKFZp761C169, vasculin	uc003jrk.4	Q86WP2		ENST00000506184.2:c.835G>A	5.37:g.56545266G>A	ENSP00000421202:p.Asp279Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKW3|Q6NSH6|Q9H0D4|Q9H785|Q9NSN4	Missense_Mutation	SNP	ENST00000506184.2	37	CCDS34162.1	.	.	.	.	.	.	.	.	.	.	G	33	5.240017	0.95240	.	.	ENSG00000062194	ENST00000424459;ENST00000514387;ENST00000506184;ENST00000454432;ENST00000264779;ENST00000538707	T;T;T;T;T;T	0.49139	1.79;0.79;1.8;1.79;1.83;1.82	6.16	6.16	0.99307	.	0.111909	0.64402	D	0.000006	T	0.68165	0.2971	M	0.61703	1.905	0.41698	D	0.989386	D;P;P	0.71674	0.998;0.72;0.72	D;P;B	0.81914	0.995;0.506;0.429	T	0.67086	-0.5759	10	0.62326	D	0.03	-12.6167	19.0403	0.92995	0.0:0.0:1.0:0.0	.	299;286;279	D4PHA4;Q86WP2-2;Q86WP2	.;.;GPBP1_HUMAN	N	299;108;279;299;286;286	ENSP00000401596:D299N;ENSP00000421709:D108N;ENSP00000421202:D279N;ENSP00000403522:D299N;ENSP00000264779:D286N;ENSP00000440090:D286N	ENSP00000264779:D286N	D	+	1	0	GPBP1	56581023	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	6.747000	0.74872	2.937000	0.99478	0.650000	0.86243	GAC		0.363	GPBP1-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000374496.1	NM_022913		A	56545266	G	A	56545266	3	1	651	1	0	0	0	0	1	0	0	0	6602	1290	45	2	886	2	GPBP1	5	56545266	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10	46915907	56545266	124369994	16	40337										
GPBP1	65056	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr5	56545374	56545374	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	acagagtagaagaggaacatGaagatgaaagccgtgctggc	14	6	0	6			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr5:56545374G>A	ENST00000506184.2	+	9	2048	c.943G>A	c.(943-945)Gaa>Aaa	p.E315K	GPBP1_ENST00000454432.2_Missense_Mutation_p.E335K|GPBP1_ENST00000424459.3_Missense_Mutation_p.E335K|GPBP1_ENST00000264779.6_Missense_Mutation_p.E322K|GPBP1_ENST00000538707.1_Missense_Mutation_p.E322K|GPBP1_ENST00000511209.1_Missense_Mutation_p.E307K|GPBP1_ENST00000514387.2_Missense_Mutation_p.E144K			Q86WP2	GPBP1_HUMAN	GC-rich promoter binding protein 1	315					positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(2)|large_intestine(3)|lung(4)|ovary(1)|skin(1)|urinary_tract(1)	19		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)		AGAGGAACATGAAGATGAAAG	0.373																																																0													94	94	94					5																	56545374		2201	4299	6500	SO:0001583	missense	65056				CCDS34162.1, CCDS47211.1, CCDS47212.1, CCDS47212.2, CCDS56368.1	5q11.2	2008-02-05				ENSG00000062194			29520	protein-coding gene	gene with protein product		608412				12842993	Standard	NM_022913		Approved	DKFZp761C169, vasculin	uc003jrk.4	Q86WP2		ENST00000506184.2:c.943G>A	5.37:g.56545374G>A	ENSP00000421202:p.Glu315Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKW3|Q6NSH6|Q9H0D4|Q9H785|Q9NSN4	Missense_Mutation	SNP	ENST00000506184.2	37	CCDS34162.1	.	.	.	.	.	.	.	.	.	.	G	20.9	4.067775	0.76301	.	.	ENSG00000062194	ENST00000424459;ENST00000514387;ENST00000506184;ENST00000454432;ENST00000511209;ENST00000264779;ENST00000538707	T;T;T;T;T;T;T	0.50548	1.77;0.74;1.78;1.77;1.79;1.75;1.76	6.16	6.16	0.99307	.	0.100833	0.64402	D	0.000002	T	0.59932	0.2230	L	0.31926	0.97	0.45464	D	0.998434	B;B;D;B	0.67145	0.027;0.004;0.996;0.004	B;B;D;B	0.76071	0.031;0.011;0.987;0.006	T	0.55566	-0.8121	10	0.45353	T	0.12	-17.1056	18.0158	0.89239	0.0:0.0:1.0:0.0	.	335;322;307;315	D4PHA4;Q86WP2-2;Q86WP2-3;Q86WP2	.;.;.;GPBP1_HUMAN	K	335;144;315;335;307;322;322	ENSP00000401596:E335K;ENSP00000421709:E144K;ENSP00000421202:E315K;ENSP00000403522:E335K;ENSP00000422337:E307K;ENSP00000264779:E322K;ENSP00000440090:E322K	ENSP00000264779:E322K	E	+	1	0	GPBP1	56581131	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	3.660000	0.54496	2.937000	0.99478	0.650000	0.86243	GAA		0.373	GPBP1-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000374496.1	NM_022913		A	56545374	G	A	56545374	3	1	651	1	0	0	0	0	1	0	0	0	6602	1291	45	2	994	2	GPBP1	5	56545374	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10	108	56545374	124369886	17	40338										
MAP1B	4131	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	71493836	71493836	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	atatggagggtgtggcctcaGtgtccacagcctcagtggct	14	10	2	0			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr5:71493836G>A	ENST00000296755.7	+	5	4952	c.4654G>A	c.(4654-4656)Gtg>Atg	p.V1552M		NM_005909.3	NP_005900.2	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	1552					axon extension (GO:0048675)|cellular process (GO:0009987)|dendrite development (GO:0016358)|establishment of monopolar cell polarity (GO:0061162)|microtubule bundle formation (GO:0001578)|mitochondrion transport along microtubule (GO:0047497)|negative regulation of intracellular transport (GO:0032387)|positive regulation of axon extension (GO:0045773)	cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|plasma membrane (GO:0005886)|synapse (GO:0045202)	structural molecule activity (GO:0005198)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(42)|liver(1)|lung(28)|ovary(1)|pancreas(1)|prostate(3)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(3)	104		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)		TGTGGCCTCAGTGTCCACAGC	0.517																																					Melanoma(17;367 822 11631 31730 47712)											0													112	94	100					5																	71493836		2203	4300	6503	SO:0001583	missense	4131			L06237	CCDS4012.1	5q13	2014-06-12			ENSG00000131711	ENSG00000131711			6836	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 102"	157129				1881920	Standard	NM_005909		Approved	MAP5, PPP1R102	uc003kbw.4	P46821	OTTHUMG00000100952	ENST00000296755.7:c.4654G>A	5.37:g.71493836G>A	ENSP00000296755:p.Val1552Met	Somatic		WXS	Illumina HiSeq	Phase_I	A2BDK5	Missense_Mutation	SNP	ENST00000296755.7	37	CCDS4012.1	.	.	.	.	.	.	.	.	.	.	G	15.22	2.769918	0.49680	.	.	ENSG00000131711	ENST00000296755	T	0.03580	3.88	5.19	5.19	0.71726	.	0.000000	0.56097	D	0.000032	T	0.10380	0.0254	N	0.24115	0.695	0.58432	D	0.999997	D;D	0.76494	0.999;0.999	D;D	0.68192	0.956;0.956	T	0.18587	-1.0332	10	0.72032	D	0.01	-16.387	18.7095	0.91651	0.0:0.0:1.0:0.0	.	1426;1552	A2BDK6;P46821	.;MAP1B_HUMAN	M	1552	ENSP00000296755:V1552M	ENSP00000296755:V1552M	V	+	1	0	MAP1B	71529592	1.000000	0.71417	0.907000	0.35723	0.750000	0.42670	9.869000	0.99810	2.435000	0.82474	0.313000	0.20887	GTG		0.517	MAP1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000218561.6	NM_005909		A	71493836	G	A	71493836	3	1	651	1	0	0	0	0	1	0	0	0	9235	1029	36	2	4672	2	MAP1B	5	71493836	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10	14948462	71493836	109421424	18	40339										
RASA1	5921	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr5	86675579	86675579	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	catcaaagttagaaaaaaatGaagatgtgaacactaattta	6	4	1	4			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr5:86675579G>A	ENST00000274376.6	+	19	3079	c.2515G>A	c.(2515-2517)Gaa>Aaa	p.E839K	RASA1_ENST00000512763.1_Missense_Mutation_p.E672K|RASA1_ENST00000506290.1_Missense_Mutation_p.E673K|CTC-428H11.2_ENST00000607486.1_RNA|RASA1_ENST00000456692.2_Missense_Mutation_p.E662K	NM_002890.2	NP_002881.1	P20936	RASA1_HUMAN	RAS p21 protein activator (GTPase activating protein) 1	839	Ras-GAP. {ECO:0000255|PROSITE- ProRule:PRU00167}.				blood vessel morphogenesis (GO:0048514)|embryo development (GO:0009790)|intracellular signal transduction (GO:0035556)|mitotic cytokinesis (GO:0000281)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of Ras protein signal transduction (GO:0046580)|positive regulation of Ras GTPase activity (GO:0032320)|regulation of actin filament polymerization (GO:0030833)|regulation of cell shape (GO:0008360)|regulation of RNA metabolic process (GO:0051252)|signal transduction (GO:0007165)|vasculogenesis (GO:0001570)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)|ruffle (GO:0001726)	glycoprotein binding (GO:0001948)|GTPase binding (GO:0051020)|potassium channel inhibitor activity (GO:0019870)|Ras GTPase activator activity (GO:0005099)|receptor binding (GO:0005102)			NS(1)|cervix(1)|endometrium(7)|kidney(4)|large_intestine(12)|lung(13)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	48		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		AGAAAAAAATGAAGATGTGAA	0.318																																																0													81	82	82					5																	86675579		2203	4296	6499	SO:0001583	missense	5921				CCDS34200.1, CCDS47243.1	5q13	2013-02-14			ENSG00000145715	ENSG00000145715		"Pleckstrin homology (PH) domain containing", "SH2 domain containing"	9871	protein-coding gene	gene with protein product	"capillary malformation-arteriovenous malformation"	139150		RASA		15917201	Standard	NM_022650		Approved	GAP, CM-AVM, p120GAP, p120RASGAP	uc003kiw.3	P20936	OTTHUMG00000162605	ENST00000274376.6:c.2515G>A	5.37:g.86675579G>A	ENSP00000274376:p.Glu839Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6W3|Q9UDI1	Missense_Mutation	SNP	ENST00000274376.6	37	CCDS34200.1	.	.	.	.	.	.	.	.	.	.	G	20.5	3.995383	0.74703	.	.	ENSG00000145715	ENST00000274376;ENST00000456692;ENST00000512763;ENST00000506290	T;T;T;T	0.21361	2.01;2.01;2.01;2.01	5.06	5.06	0.68205	Rho GTPase activation protein (1);Ras GTPase-activating protein (4);	0.046382	0.85682	D	0.000000	T	0.27454	0.0674	M	0.69185	2.1	0.80722	D	1	B;B;B;B;B	0.25743	0.004;0.057;0.133;0.046;0.088	B;B;B;B;B	0.20577	0.004;0.03;0.03;0.017;0.011	T	0.04678	-1.0934	10	0.42905	T	0.14	.	18.8001	0.92013	0.0:0.0:1.0:0.0	.	673;672;673;662;839	E9PGC0;B4DTL2;B4DTX4;P20936-2;P20936	.;.;.;.;RASA1_HUMAN	K	839;662;672;673	ENSP00000274376:E839K;ENSP00000411221:E662K;ENSP00000422008:E672K;ENSP00000420905:E673K	ENSP00000274376:E839K	E	+	1	0	RASA1	86711335	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.745000	0.98856	2.500000	0.84329	0.655000	0.94253	GAA		0.318	RASA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000369729.1	NM_002890		A	86675579	G	A	86675579	3	1	651	1	0	0	0	0	1	0	0	0	13073	1291	45	2	2601	2	RASA1	5	86675579	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10	15181743	86675579	94239681	19	40340										
EBF1	1879	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr5	158526463	158526463	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	atgctgcttccactccgttgGatgctttcctgaatcccaaa	7	13	0	1			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr5:158526463G>T	ENST00000313708.6	-	1	306	c.24C>A	c.(22-24)atC>atA	p.I8I	EBF1_ENST00000518836.1_5'UTR|EBF1_ENST00000380654.4_Silent_p.I8I|EBF1_ENST00000517373.1_Silent_p.I8I|RP11-175K6.1_ENST00000499583.1_lincRNA	NM_024007.3	NP_076870.1	Q9UH73	COE1_HUMAN	early B-cell factor 1	8					multicellular organismal development (GO:0007275)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)		HMGA2/EBF1(2)	breast(3)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(7)|lung(18)|ovary(1)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	42	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)			CACTCCGTTGGATGCTTTCCT	0.493			T	HMGA2	lipoma																																		Dom	yes		5	5q34	1879	early B-cell factor 1		M	0													103	120	115					5																	158526463		2203	4300	6503	SO:0001819	synonymous_variant	1879			AF208502	CCDS4343.1	5q34	2008-02-05	2006-09-26	2006-09-26	ENSG00000164330	ENSG00000164330			3126	protein-coding gene	gene with protein product		164343	"early B-cell factor"	EBF		8012110	Standard	NM_024007		Approved	OLF1	uc010jip.3	Q9UH73	OTTHUMG00000130304	ENST00000313708.6:c.24C>A	5.37:g.158526463G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IW11	Silent	SNP	ENST00000313708.6	37	CCDS4343.1																																																																																				0.493	EBF1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000252649.1	NM_024007		T	158526463	G	T	158526463	2	4	651	1	0	0	0	0	0	0	0	1	4882	1164	41	4		4	EBF1	5	158526463	Silent	SNP	G	TCGA-KM-8443-01A-11D-2310-10	71850884	158526463	22388797	20	40341										
PPP1R11	6992	broad.mit.edu	37	chr6	30035207	30035207	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	catggccgaggcaggggctgGgctgagcgagaccgtcactg	18	11	1	2			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr6:30035207G>A	ENST00000376772.3	+	1	343	c.20G>A	c.(19-21)gGg>gAg	p.G7E	PPP1R11_ENST00000376773.1_Intron|PPP1R11_ENST00000376765.2_5'Flank|PPP1R11_ENST00000376758.1_5'Flank|PPP1R11_ENST00000376769.2_5'UTR|PPP1R11_ENST00000376763.1_5'Flank	NM_021959.2	NP_068778.1	O60927	PP1RB_HUMAN	protein phosphatase 1, regulatory (inhibitor) subunit 11	7						cytoplasm (GO:0005737)	protein phosphatase inhibitor activity (GO:0004864)			lung(2)|ovary(1)|prostate(1)|skin(2)	6						GCAGGGGCTGGGCTGAGCGAG	0.607																																					Pancreas(185;1767 3918 43793)											0													57	56	56					6																	30035207		2203	4300	6503	SO:0001583	missense	6992			X81003	CCDS4671.1	6p21.3	2012-04-17			ENSG00000204619	ENSG00000204619		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	9285	protein-coding gene	gene with protein product		606670		TCTE5		9843442, 8781118	Standard	NM_021959		Approved	HCGV, Tctex5, HCG-V	uc003npb.3	O60927	OTTHUMG00000031260	ENST00000376772.3:c.20G>A	6.37:g.30035207G>A	ENSP00000365963:p.Gly7Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000376772.3	37	CCDS4671.1	.	.	.	.	.	.	.	.	.	.	G	16.35	3.097254	0.56075	.	.	ENSG00000204619	ENST00000376772	.	.	.	5.15	5.15	0.70609	.	0.189098	0.45361	D	0.000364	T	0.22742	0.0549	N	0.14661	0.345	0.80722	D	1	B	0.18863	0.031	B	0.13407	0.009	T	0.08249	-1.0731	9	0.15499	T	0.54	-0.3005	13.998	0.64414	0.0:0.0:1.0:0.0	.	7	O60927	PP1RB_HUMAN	E	7	.	ENSP00000365963:G7E	G	+	2	0	PPP1R11	30143186	1.000000	0.71417	0.998000	0.56505	0.980000	0.70556	4.711000	0.61881	2.683000	0.91414	0.643000	0.83706	GGG		0.607	PPP1R11-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076557.3	NM_021959		A	30035207	G	A	30035207	3	1	651	1	0	0	0	0	1	0	0	0	12363	1232	43	2	22	2	PPP1R11	6	30035207	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10		30035207	141079860	21	40342										
SP8	221833	ucsc.edu	37	chr7	20824901	20824901	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	ggtgtgcaccttggagatgaAcaccggctggtgggagccgt	17	9	0	2			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr7:20824901A>G	ENST00000361443.4	-	3	718	c.481T>C	c.(481-483)Ttc>Ctc	p.F161L	SP8_ENST00000418710.2_Missense_Mutation_p.F179L	NM_198956.2	NP_945194.1	Q8IXZ3	SP8_HUMAN	Sp8 transcription factor	161					dorsal/ventral pattern formation (GO:0009953)|embryonic limb morphogenesis (GO:0030326)|proximal/distal pattern formation (GO:0009954)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|large_intestine(2)|lung(1)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	8						TTGGAGATGAACACCGGCTGG	0.726																																																0													5	6	6					7																	20824901		1660	3287	4947	SO:0001583	missense	221833				CCDS5372.1, CCDS43555.1	7p21.2	2013-01-08			ENSG00000164651	ENSG00000164651		"Specificity protein transcription factors", "Zinc fingers, C2H2-type"	19196	protein-coding gene	gene with protein product		608306					Standard	NM_182700		Approved		uc003suz.3	Q8IXZ3	OTTHUMG00000094788	ENST00000361443.4:c.481T>C	7.37:g.20824901A>G	ENSP00000354482:p.Phe161Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z615|Q7Z616|Q96MJ1	Missense_Mutation	SNP	ENST00000361443.4	37	CCDS5372.1	.	.	.	.	.	.	.	.	.	.	A	11.84	1.757824	0.31137	.	.	ENSG00000164651	ENST00000297210;ENST00000418710;ENST00000361443	T;T	0.08896	3.04;3.07	3.26	3.26	0.37387	.	0.000000	0.85682	U	0.000000	T	0.05593	0.0147	L	0.33093	0.98	0.48185	D	0.999604	B;B	0.31837	0.342;0.342	B;B	0.24848	0.056;0.056	T	0.30765	-0.9967	10	0.09338	T	0.73	.	11.4081	0.49911	1.0:0.0:0.0:0.0	.	161;161	Q7Z615;Q8IXZ3	.;SP8_HUMAN	L	137;179;161	ENSP00000408792:F179L;ENSP00000354482:F161L	ENSP00000297210:F137L	F	-	1	0	SP8	20791426	1.000000	0.71417	0.997000	0.53966	0.980000	0.70556	4.629000	0.61290	1.355000	0.45865	0.260000	0.18958	TTC		0.726	SP8-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000326904.2			G	20824901	A	G	20824901	3	3	651	1	0	0	0	0	1	0	0	0	14983	43	2	3	995	3	SP8	7	20824901	Missense_Mutation	SNP	A	TCGA-KM-8443-01A-11D-2310-10		20824901	138313762	22	40343										
MYL7	58498	broad.mit.edu;hgsc.bcm.edu	37	chr7	44179423	44179423	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	tgccgctggggtcaaacatgCggaaggcactcaggatggct	15	10	2	0			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr7:44179423C>T	ENST00000223364.3	-	5	361	c.335G>A	c.(334-336)cGc>cAc	p.R112H	MYL7_ENST00000458240.1_Missense_Mutation_p.R85H|MYL7_ENST00000434895.1_5'UTR	NM_021223.2	NP_067046.1	Q01449	MLRA_HUMAN	myosin, light chain 7, regulatory	112	EF-hand 2. {ECO:0000255|PROSITE- ProRule:PRU00448}.					A band (GO:0031672)|dendritic spine (GO:0043197)|myosin complex (GO:0016459)	calcium ion binding (GO:0005509)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(4)|prostate(1)|skin(1)	12						GTCAAACATGCGGAAGGCACT	0.627																																																0													66	58	61					7																	44179423		2203	4300	6503	SO:0001583	missense	58498			M94547	CCDS5478.1	7p21-p11.2	2013-01-10	2006-09-29		ENSG00000106631	ENSG00000106631		"Myosins / Light chain", "EF-hand domain containing"	21719	protein-coding gene	gene with protein product		613993	"myosin, light polypeptide 7, regulatory"			8207020	Standard	NM_021223		Approved	MYLC2A, MYL2A	uc003tkg.3	Q01449	OTTHUMG00000023125	ENST00000223364.3:c.335G>A	7.37:g.44179423C>T	ENSP00000223364:p.Arg112His	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4L3	Missense_Mutation	SNP	ENST00000223364.3	37	CCDS5478.1	.	.	.	.	.	.	.	.	.	.	C	25.5	4.639708	0.87760	.	.	ENSG00000106631	ENST00000446581;ENST00000223364;ENST00000458240;ENST00000457314;ENST00000447951	T;T;T;T;T	0.73047	2.84;-0.71;-0.71;-0.71;-0.49	5.05	5.05	0.67936	EF-hand-like domain (1);	0.063686	0.64402	D	0.000008	T	0.67011	0.2848	M	0.67700	2.07	0.41070	D	0.985441	B	0.20887	0.049	B	0.25759	0.063	T	0.68383	-0.5423	10	0.72032	D	0.01	.	7.8513	0.29457	0.0:0.8213:0.0:0.1787	.	112	Q01449	MLRA_HUMAN	H	39;112;85;134;141	ENSP00000416010:R39H;ENSP00000223364:R112H;ENSP00000403360:R85H;ENSP00000389202:R134H;ENSP00000403988:R141H	ENSP00000223364:R112H	R	-	2	0	MYL7	44145948	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	4.258000	0.58822	2.348000	0.79779	0.551000	0.68910	CGC		0.627	MYL7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059446.4	NM_021223		T	44179423	C	T	44179423	3	4	651	1	0	0	0	0	1	0	0	0	10060	768	27	1	204	1	MYL7	7	44179423	Missense_Mutation	SNP	C	TCGA-KM-8443-01A-11D-2310-10	23354522	44179423	114959240	23	40344										
CACNA2D1	781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	81641523	81641523	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	ttgcttagctttgtctcctgCtaaaaccattggtcttccca	6	12	2	0			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr7:81641523C>T	ENST00000356253.5	-	15	1564	c.1309G>A	c.(1309-1311)Gca>Aca	p.A437T	MIR1255B1_ENST00000439234.1_RNA|CACNA2D1_ENST00000464354.1_5'UTR|MIR1255B1_ENST00000454066.1_RNA|CACNA2D1_ENST00000356860.3_Missense_Mutation_p.A437T			P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha 2/delta subunit 1	437					calcium ion transport (GO:0006816)|regulation of calcium ion transport (GO:0051924)	extracellular vesicular exosome (GO:0070062)|sarcoplasmic reticulum (GO:0016529)|T-tubule (GO:0030315)|voltage-gated calcium channel complex (GO:0005891)	metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)			breast(2)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(15)|liver(1)|lung(42)|ovary(6)|pancreas(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	81					Amlodipine(DB00381)|Cyclandelate(DB04838)|Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Spironolactone(DB00421)	TTGTCTCCTGCTAAAACCATT	0.363																																																0													175	157	163					7																	81641523		2203	4300	6503	SO:0001583	missense	781			M76559	CCDS5598.1	7q21-q22	2014-09-17			ENSG00000153956	ENSG00000153956		"Calcium channel subunits"	1399	protein-coding gene	gene with protein product		114204	"long intergenic non-protein coding RNA 1112"	CACNL2A, CACNA2, MHS3, LINC01112		8188232	Standard	XM_005250570		Approved	lncRNA-N3	uc003uhr.1	P54289	OTTHUMG00000023622	ENST00000356253.5:c.1309G>A	7.37:g.81641523C>T	ENSP00000348589:p.Ala437Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q17R45|Q9UD80|Q9UD81|Q9UD82	Missense_Mutation	SNP	ENST00000356253.5	37		.	.	.	.	.	.	.	.	.	.	C	31	5.069378	0.93950	.	.	ENSG00000153956	ENST00000356860;ENST00000284088;ENST00000356253	T;T	0.08008	3.15;3.14	5.41	5.41	0.78517	.	0.046028	0.85682	D	0.000000	T	0.23926	0.0579	M	0.70595	2.14	0.80722	D	1	P	0.47191	0.891	P	0.54759	0.76	T	0.00097	-1.2072	10	0.38643	T	0.18	-21.2337	18.325	0.90251	0.0:1.0:0.0:0.0	.	437	P54289-2	.	T	437	ENSP00000349320:A437T;ENSP00000348589:A437T	ENSP00000284088:A437T	A	-	1	0	CACNA2D1	81479459	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.137000	0.77295	2.694000	0.91930	0.585000	0.79938	GCA		0.363	CACNA2D1-201	KNOWN	basic	protein_coding	protein_coding				T	81641523	C	T	81641523	3	4	651	1	0	0	0	0	1	0	0	0	2550	797	28	2	2066	2	CACNA2D1	7	81641523	Missense_Mutation	SNP	C	TCGA-KM-8443-01A-11D-2310-10	37462100	81641523	77497140	24	40345										
TOX	9760	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	60031454	60031454	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	agagcgttcaccttgttgcaAtagtaggggtccaggcaggg	15	8	1	1			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr8:60031454A>T	ENST00000361421.1	-	1	313	c.93T>A	c.(91-93)taT>taA	p.Y31*	RP11-25K19.1_ENST00000518993.1_RNA|RP11-25K19.1_ENST00000523683.1_RNA|RP11-25K19.1_ENST00000517898.1_RNA	NM_014729.2	NP_055544.1	O94900	TOX_HUMAN	thymocyte selection-associated high mobility group box	31						nucleus (GO:0005634)	DNA binding (GO:0003677)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(13)|prostate(1)|skin(2)|stomach(1)	33		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)				CCTTGTTGCAATAGTAGGGGT	0.632																																					Pancreas(161;610 1969 17913 21374 22725)											0													80	78	78					8																	60031454		2203	4300	6503	SO:0001587	stop_gained	9760				CCDS34897.1	8q12.2-q12.3	2009-04-17			ENSG00000198846	ENSG00000198846			18988	protein-coding gene	gene with protein product		606863				9872452, 11850626	Standard	NM_014729		Approved	KIAA0808, TOX1	uc003xtw.1	O94900	OTTHUMG00000164331	ENST00000361421.1:c.93T>A	8.37:g.60031454A>T	ENSP00000354842:p.Tyr31*	Somatic		WXS	Illumina HiSeq	Phase_I	Q96AV5	Nonsense_Mutation	SNP	ENST00000361421.1	37	CCDS34897.1	.	.	.	.	.	.	.	.	.	.	A	37	6.025795	0.97216	.	.	ENSG00000198846	ENST00000361421	.	.	.	4.76	4.76	0.60689	.	0.328792	0.22187	N	0.063421	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	7.498	0.27500	0.8348:0.0:0.1652:0.0	.	.	.	.	X	31	.	.	Y	-	3	2	TOX	60194008	1.000000	0.71417	1.000000	0.80357	0.535000	0.34838	1.807000	0.38902	1.903000	0.55091	0.459000	0.35465	TAT		0.632	TOX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378307.1	NM_014729		T	60031454	A	T	60031454	4	4	651	1	0	0	0	0	0	1	0	0	16389	108	4	5	1523	5	TOX	8	60031454	Nonsense_Mutation	SNP	A	TCGA-KM-8443-01A-11D-2310-10		60031454	86332568	25	40346										
EYA1	2138	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr8	72211306	72211306	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	tgtgggatctgtaactgcttGgctggtgatgccagatggcg	16	7	1	2			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr8:72211306G>T	ENST00000340726.3	-	9	1441	c.802C>A	c.(802-804)Caa>Aaa	p.Q268K	EYA1_ENST00000303824.7_Missense_Mutation_p.Q262K|EYA1_ENST00000419131.1_Missense_Mutation_p.Q263K|EYA1_ENST00000388740.3_Missense_Mutation_p.Q235K|EYA1_ENST00000388742.4_Missense_Mutation_p.Q268K|EYA1_ENST00000388741.2_Missense_Mutation_p.Q234K|EYA1_ENST00000388743.2_Missense_Mutation_p.Q267K	NM_000503.4	NP_000494.2	Q99502	EYA1_HUMAN	EYA transcriptional coactivator and phosphatase 1	268					anatomical structure morphogenesis (GO:0009653)|aorta morphogenesis (GO:0035909)|branching involved in ureteric bud morphogenesis (GO:0001658)|cellular protein localization (GO:0034613)|cochlea morphogenesis (GO:0090103)|double-strand break repair (GO:0006302)|embryonic skeletal system morphogenesis (GO:0048704)|establishment of mitotic spindle orientation (GO:0000132)|establishment or maintenance of apical/basal cell polarity (GO:0035088)|histone dephosphorylation (GO:0016576)|lung epithelial cell differentiation (GO:0060487)|metanephros development (GO:0001656)|middle ear morphogenesis (GO:0042474)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|neuron fate specification (GO:0048665)|otic vesicle morphogenesis (GO:0071600)|outer ear morphogenesis (GO:0042473)|outflow tract morphogenesis (GO:0003151)|pattern specification process (GO:0007389)|pharyngeal system development (GO:0060037)|positive regulation of DNA repair (GO:0045739)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of Notch signaling pathway (GO:0045747)|positive regulation of secondary heart field cardioblast proliferation (GO:0072513)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein sumoylation (GO:0016925)|regulation of neuron differentiation (GO:0045664)|response to ionizing radiation (GO:0010212)|semicircular canal morphogenesis (GO:0048752)|sensory perception of sound (GO:0007605)|striated muscle tissue development (GO:0014706)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|protein tyrosine phosphatase activity (GO:0004725)|RNA binding (GO:0003723)			NS(2)|breast(3)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(8)|lung(15)|ovary(4)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	44	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			GTAACTGCTTGGCTGGTGATG	0.433																																																0													225	194	204					8																	72211306		2203	4300	6503	SO:0001583	missense	2138			AJ000098	CCDS34906.1, CCDS34907.1, CCDS47873.1, CCDS75750.1	8q13.3	2014-06-19	2014-06-19		ENSG00000104313	ENSG00000104313		"Protein tyrosine phosphatases / Asp-based PTPs"	3519	protein-coding gene	gene with protein product		601653	"eyes absent (Drosophila) homolog 1", "eyes absent homolog 1 (Drosophila)"	BOR		9020840	Standard	XM_005251184		Approved		uc003xys.4	Q99502	OTTHUMG00000149894	ENST00000340726.3:c.802C>A	8.37:g.72211306G>T	ENSP00000342626:p.Gln268Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHQ0|G5E9R4|Q0P516|Q8WX80	Missense_Mutation	SNP	ENST00000340726.3	37	CCDS34906.1	.	.	.	.	.	.	.	.	.	.	G	19.87	3.907619	0.72868	.	.	ENSG00000104313	ENST00000388742;ENST00000340726;ENST00000388744;ENST00000388740;ENST00000303824;ENST00000388741;ENST00000388743;ENST00000419131	D;D;D;D;D;D;D	0.82344	-1.6;-1.6;-1.6;-1.6;-1.6;-1.6;-1.6	5.33	5.33	0.75918	.	0.000000	0.85682	D	0.000000	D	0.88926	0.6570	L	0.61218	1.895	0.80722	D	1	P;B;P;P;B	0.50369	0.934;0.321;0.516;0.934;0.0	D;B;B;D;B	0.66351	0.943;0.205;0.281;0.943;0.004	D	0.84403	0.0561	10	0.13853	T	0.58	-4.204	19.38	0.94529	0.0:0.0:1.0:0.0	.	262;195;235;268;263	A6NCB9;Q0P517;Q99502-2;Q99502;G5E9R4	.;.;.;EYA1_HUMAN;.	K	268;268;236;235;262;234;267;263	ENSP00000373394:Q268K;ENSP00000342626:Q268K;ENSP00000373392:Q235K;ENSP00000303221:Q262K;ENSP00000373393:Q234K;ENSP00000373395:Q267K;ENSP00000410176:Q263K	ENSP00000303221:Q262K	Q	-	1	0	EYA1	72373860	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.420000	0.97426	2.654000	0.90174	0.585000	0.79938	CAA		0.433	EYA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000313788.2	NM_000503, NM_172060		T	72211306	G	T	72211306	3	4	651	1	0	0	0	0	1	0	0	0	5330	1357	47	4	1016	4	EYA1	8	72211306	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10	12179852	72211306	74152716	26	40347										
GEM	2669	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr8	95264412	95264412	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	gacaatcaggtatgcgtcccCgacctgcatgcagtggtcat	11	12	2	0			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr8:95264412C>T	ENST00000297596.2	-	4	712	c.448G>A	c.(448-450)Ggg>Agg	p.G150R	GEM_ENST00000396194.2_Missense_Mutation_p.G150R	NM_005261.3	NP_005252.1	P55040	GEM_HUMAN	GTP binding protein overexpressed in skeletal muscle	150					cell surface receptor signaling pathway (GO:0007166)|chromosome organization (GO:0051276)|immune response (GO:0006955)|metaphase plate congression (GO:0051310)|mitotic nuclear division (GO:0007067)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	cytoplasmic side of plasma membrane (GO:0009898)|midbody (GO:0030496)|mitotic spindle (GO:0072686)|nucleus (GO:0005634)|spindle midzone (GO:0051233)	GDP binding (GO:0019003)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|magnesium ion binding (GO:0000287)			endometrium(3)|kidney(1)|large_intestine(7)|lung(9)|prostate(1)|upper_aerodigestive_tract(1)	22	Breast(36;4.65e-06)	Myeloproliferative disorder(644;0.204)	BRCA - Breast invasive adenocarcinoma(8;0.00691)			TATGCGTCCCCGACCTGCATG	0.517																																					GBM(125;80 1653 28655 32188 47338)|Esophageal Squamous(19;97 579 13602 49091 51766)											0													82	73	76					8																	95264412		2203	4300	6503	SO:0001583	missense	2669				CCDS6261.1	8q13-q21	2014-05-09	2001-11-28		ENSG00000164949	ENSG00000164949			4234	protein-coding gene	gene with protein product	"kinase-inducible Ras-like protein"	600164	"GTP-binding protein overexpressed in skeletal muscle"			7912851, 11956230	Standard	NM_005261		Approved	KIR	uc003ygj.3	P55040	OTTHUMG00000164392	ENST00000297596.2:c.448G>A	8.37:g.95264412C>T	ENSP00000297596:p.Gly150Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RA31	Missense_Mutation	SNP	ENST00000297596.2	37	CCDS6261.1	.	.	.	.	.	.	.	.	.	.	C	35	5.510098	0.96386	.	.	ENSG00000164949	ENST00000396194;ENST00000297596	T;T	0.79653	-1.29;-1.29	6.17	6.17	0.99709	Small GTP-binding protein domain (1);	0.101171	0.64402	D	0.000002	D	0.92335	0.7568	M	0.90309	3.105	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.92503	0.6010	10	0.87932	D	0	.	20.8794	0.99867	0.0:1.0:0.0:0.0	.	150	P55040	GEM_HUMAN	R	150	ENSP00000379497:G150R;ENSP00000297596:G150R	ENSP00000297596:G150R	G	-	1	0	GEM	95333588	1.000000	0.71417	0.977000	0.42913	0.958000	0.62258	7.818000	0.86416	2.941000	0.99782	0.655000	0.94253	GGG		0.517	GEM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378566.1	NM_181702		T	95264412	C	T	95264412	3	4	651	1	0	0	0	0	1	0	0	0	6336	652	23	1	450	1	GEM	8	95264412	Missense_Mutation	SNP	C	TCGA-KM-8443-01A-11D-2310-10	23053106	95264412	51099610	27	40348										
PRSS3	5646	mdanderson.org	37	chr9	33797881	33797881	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	aaagtcctggaggggaatgaGcagttcatcaatgcggccaa	13	8	2	1	rs372122039		TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr9:33797881G>A	ENST00000361005.5	+	3	426	c.426G>A	c.(424-426)gaG>gaA	p.E142E	PRSS3_ENST00000379405.3_Silent_p.E85E|PRSS3_ENST00000429677.3_Silent_p.E78E|PRSS3_ENST00000342836.4_Silent_p.E99E|RP11-133O22.6_ENST00000454429.2_RNA	NM_007343.3	NP_031369	P35030	TRY3_HUMAN	protease, serine, 3	142	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|endothelial cell migration (GO:0043542)|innate immune response (GO:0045087)|proteolysis (GO:0006508)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)|zymogen activation (GO:0031638)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			large_intestine(3)|lung(4)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	13			LUSC - Lung squamous cell carcinoma(29;0.0176)			AGGGGAATGAGCAGTTCATCA	0.547																																																0													202	166	178					9																	33797881		2203	4300	6503	SO:0001819	synonymous_variant	5646				CCDS6545.1, CCDS47958.1, CCDS56570.1, CCDS56571.1	9p13	2010-05-07	2008-03-11		ENSG00000010438	ENSG00000010438	3.4.21.4	"Serine peptidases / Serine peptidases"	9486	protein-coding gene	gene with protein product	"mesotrypsin"	613578	"protease, serine, 4 (trypsin 4, brain)", "protease, serine, 3 (mesotrypsin)"	PRSS4		2326201, 8294000	Standard	NM_002771		Approved	TRY3, TRY4	uc003ztj.4	P35030	OTTHUMG00000019798	ENST00000361005.5:c.426G>A	9.37:g.33797881G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8CED1|A8CED3|A9Z1Y4|E7ES07|F8W7P3|P15951|Q15665|Q5VXV0|Q6ISJ4|Q9UQV3	Silent	SNP	ENST00000361005.5	37	CCDS47958.1																																																																																				0.547	PRSS3-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000052121.1	NM_002771		A	33797881	G	A	33797881	2	1	651	1	0	0	0	0	0	0	0	1	12632	962	34	2		2	PRSS3	9	33797881	Silent	SNP	G	TCGA-KM-8443-01A-11D-2310-10		33797881	107415550	28	40349										
TLE1	7088	broad.mit.edu	37	chr9	84199172	84199172	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	cgagccagtgactatgtactTatcatccacagagatgtcac	8	11	2	2			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr9:84199172T>C	ENST00000376499.3	-	20	3318	c.2254A>G	c.(2254-2256)Aag>Gag	p.K752E		NM_005077.3	NP_005068.2	Q04724	TLE1_HUMAN	transducin-like enhancer of split 1 (E(sp1) homolog, Drosophila)	752					multicellular organismal development (GO:0007275)|negative regulation of anoikis (GO:2000811)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of Wnt signaling pathway (GO:0030178)|Notch signaling pathway (GO:0007219)|organ morphogenesis (GO:0009887)|positive regulation of gene expression (GO:0010628)|signal transduction (GO:0007165)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|identical protein binding (GO:0042802)|RNA polymerase II transcription corepressor activity (GO:0001106)|transcription factor binding (GO:0008134)			NS(1)|endometrium(5)|kidney(2)|large_intestine(2)|lung(11)|ovary(1)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	29						ACTATGTACTTATCATCCACA	0.423																																					NSCLC(155;1437 1995 30668 39354 45875)|Melanoma(16;266 781 14000 47728 51870)											0													140	128	132					9																	84199172		2203	4300	6503	SO:0001583	missense	7088				CCDS6661.1	9q21.32	2013-01-10	2001-11-28		ENSG00000196781	ENSG00000196781		"WD repeat domain containing"	11837	protein-coding gene	gene with protein product	"enhancer of split groucho 1"	600189	"transducin-like enhancer of split 1, homolog of Drosophila E(sp1)"			8365415, 8808280	Standard	NM_005077		Approved	ESG1, GRG1, ESG	uc004aly.3	Q04724	OTTHUMG00000021008	ENST00000376499.3:c.2254A>G	9.37:g.84199172T>C	ENSP00000365682:p.Lys752Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K495|Q5T3G4|Q969V9	Missense_Mutation	SNP	ENST00000376499.3	37	CCDS6661.1	.	.	.	.	.	.	.	.	.	.	t	29.1	4.976325	0.92982	.	.	ENSG00000196781	ENST00000376499	T	0.11712	2.75	5.14	5.14	0.70334	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.100652	0.64402	D	0.000002	T	0.29256	0.0728	L	0.57536	1.79	0.80722	D	1	D;D	0.76494	0.999;0.992	D;P	0.70716	0.97;0.901	T	0.01165	-1.1431	10	0.87932	D	0	-20.0631	15.415	0.74960	0.0:0.0:0.0:1.0	.	737;752	B4DEF9;Q04724	.;TLE1_HUMAN	E	752	ENSP00000365682:K752E	ENSP00000365682:K752E	K	-	1	0	TLE1	83388992	1.000000	0.71417	0.983000	0.44433	0.999000	0.98932	7.800000	0.85949	2.281000	0.76405	0.533000	0.62120	AAG		0.423	TLE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055407.1	NM_005077		C	84199172	T	C	84199172	3	2	651	1	0	0	0	0	1	0	0	0	15950	1763	61	3	62	3	TLE1	9	84199172	Missense_Mutation	SNP	T	TCGA-KM-8443-01A-11D-2310-10	50401291	84199172	57014259	29	40350										
OR1L1	26737	broad.mit.edu	37	chr9	125424320	125424320	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	ctttttcttagcctttggaaAcacagacagttacctgctag	7	10	1	1			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr9:125424320A>G	ENST00000373686.1	+	1	476	c.476A>G	c.(475-477)aAc>aGc	p.N159S	OR1L1_ENST00000309623.1_Missense_Mutation_p.N109S			Q8NH94	OR1L1_HUMAN	olfactory receptor, family 1, subfamily L, member 1	159						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|kidney(2)|large_intestine(2)|lung(4)|ovary(1)|pancreas(1)|skin(5)|upper_aerodigestive_tract(1)	17						GCCTTTGGAAACACAGACAGT	0.448																																																0													223	212	216					9																	125424320		2203	4300	6503	SO:0001583	missense	26737				CCDS35127.1, CCDS35127.2	9q33.2	2013-09-20			ENSG00000173679	ENSG00000173679		"GPCR / Class A : Olfactory receptors"	8213	protein-coding gene	gene with protein product				OR1L2			Standard	NM_001005236		Approved	OR9-C	uc022bmz.1	Q8NH94	OTTHUMG00000020618	ENST00000373686.1:c.476A>G	9.37:g.125424320A>G	ENSP00000362790:p.Asn159Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T7Z3|Q6IFN2	Missense_Mutation	SNP	ENST00000373686.1	37		.	.	.	.	.	.	.	.	.	.	A	16.37	3.105085	0.56291	.	.	ENSG00000173679	ENST00000373686;ENST00000309623	T;T	0.02863	4.13;4.13	3.11	0.772	0.18510	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.01940	0.0061	N	0.02225	-0.63	0.09310	N	1	D	0.53462	0.96	P	0.54174	0.744	T	0.47100	-0.9143	9	0.23891	T	0.37	.	3.1547	0.06500	0.4118:0.2383:0.3498:0.0	.	159	Q8NH94	OR1L1_HUMAN	S	159;109	ENSP00000362790:N159S;ENSP00000310773:N109S	ENSP00000310773:N109S	N	+	2	0	OR1L1	124464141	0.000000	0.05858	0.001000	0.08648	0.806000	0.45545	-1.143000	0.03200	0.394000	0.25230	0.260000	0.18958	AAC		0.448	OR1L1-201	KNOWN	basic	protein_coding	protein_coding				G	125424320	A	G	125424320	3	3	651	1	0	0	0	0	1	0	0	0	10970	43	2	3	328	3	OR1L1	9	125424320	Missense_Mutation	SNP	A	TCGA-KM-8443-01A-11D-2310-10	41225148	125424320	15789111	30	40351										
ABL1	25	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr9	133748274	133748274	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	cacccgggagcccccgttctAtatcatcactgagttcatga	8	14	4	2			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr9:133748274A>G	ENST00000318560.5	+	6	1316	c.935A>G	c.(934-936)tAt>tGt	p.Y312C		NM_005157.4	NP_005148.2	P00519	ABL1_HUMAN	ABL proto-oncogene 1, non-receptor tyrosine kinase	312	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				actin cytoskeleton organization (GO:0030036)|autophagy (GO:0006914)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cellular protein modification process (GO:0006464)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to dopamine (GO:1903351)|cellular response to oxidative stress (GO:0034599)|DNA damage induced protein phosphorylation (GO:0006975)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|mismatch repair (GO:0006298)|mitochondrial depolarization (GO:0051882)|mitotic nuclear division (GO:0007067)|muscle cell differentiation (GO:0042692)|negative regulation of phospholipase C activity (GO:1900275)|negative regulation of protein serine/threonine kinase activity (GO:0071901)|negative regulation of ubiquitin-protein transferase activity (GO:0051444)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of oxidoreductase activity (GO:0051353)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|regulation of actin cytoskeleton reorganization (GO:2000249)|regulation of autophagy (GO:0010506)|regulation of cell adhesion (GO:0030155)|regulation of cell motility (GO:2000145)|regulation of endocytosis (GO:0030100)|regulation of response to DNA damage stimulus (GO:2001020)|regulation of transcription, DNA-templated (GO:0006355)|response to oxidative stress (GO:0006979)|signal transduction in response to DNA damage (GO:0042770)	actin cytoskeleton (GO:0015629)|cell leading edge (GO:0031252)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	actin monomer binding (GO:0003785)|ATP binding (GO:0005524)|DNA binding (GO:0003677)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|mitogen-activated protein kinase binding (GO:0051019)|nicotinate-nucleotide adenylyltransferase activity (GO:0004515)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|proline-rich region binding (GO:0070064)|protein C-terminus binding (GO:0008022)|protein kinase activity (GO:0004672)|protein tyrosine kinase activity (GO:0004713)|SH3 domain binding (GO:0017124)|syntaxin binding (GO:0019905)			breast(3)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1149)|kidney(3)|large_intestine(7)|lung(15)|ovary(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	1195		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Bosutinib(DB06616)|Dasatinib(DB01254)|Imatinib(DB00619)|Nilotinib(DB04868)|Ponatinib(DB08901)|Regorafenib(DB08896)	CCCCCGTTCTATATCATCACT	0.552			"T, Mis"	"BCR, ETV6, NUP214"	"CML, ALL, T-ALL"																																		Dom	yes		9	9q34.1	25	v-abl Abelson murine leukemia viral oncogene homolog 1		L	0													82	82	82					9																	133748274		2203	4300	6503	SO:0001583	missense	25			M14752	CCDS35165.1, CCDS35166.1	9q34.1	2014-09-17	2014-06-26		ENSG00000097007	ENSG00000097007		"SH2 domain containing"	76	protein-coding gene	gene with protein product		189980	"v-abl Abelson murine leukemia viral oncogene homolog 1", "c-abl oncogene 1, receptor tyrosine kinase", "c-abl oncogene 1, non-receptor tyrosine kinase"	ABL		1857987, 12626632	Standard	NM_007313		Approved	JTK7, c-ABL, p150	uc004bzv.3	P00519	OTTHUMG00000020813	ENST00000318560.5:c.935A>G	9.37:g.133748274A>G	ENSP00000323315:p.Tyr312Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A3KFJ3|Q13869|Q13870|Q16133|Q17R61|Q45F09	Missense_Mutation	SNP	ENST00000318560.5	37	CCDS35166.1	.	.	.	.	.	.	.	.	.	.	A	27.5	4.841408	0.91197	.	.	ENSG00000097007	ENST00000444970;ENST00000372348;ENST00000318560	T;T	0.65178	-0.14;-0.14	6.04	6.04	0.98038	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.66519	0.2797	N	0.15975	0.35	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.72659	-0.4226	10	0.87932	D	0	.	15.7697	0.78157	1.0:0.0:0.0:0.0	.	312;349	P00519;Q59FK4	ABL1_HUMAN;.	C	127;331;312	ENSP00000361423:Y331C;ENSP00000323315:Y312C	ENSP00000323315:Y312C	Y	+	2	0	ABL1	132738095	1.000000	0.71417	0.986000	0.45419	0.873000	0.50193	9.339000	0.96797	2.317000	0.78254	0.460000	0.39030	TAT		0.552	ABL1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000054684.1	NM_007313		G	133748274	A	G	133748274	3	3	651	1	0	0	0	0	1	0	0	0	92	449	16	3	1097	3	ABL1	9	133748274	Missense_Mutation	SNP	A	TCGA-KM-8443-01A-11D-2310-10	8323954	133748274	7465157	31	40352										
LCN10	414332	broad.mit.edu	37	chr9	139636409	139636409	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	cgcccccagcttcctcttgtCcctggccggcaagaatccct	8	19	1	1	rs373041848		TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr9:139636409C>T	ENST00000474369.1	-	2	180	c.181G>A	c.(181-183)Gac>Aac	p.D61N	LCN6_ENST00000435202.1_3'UTR|LCN10_ENST00000527229.1_Missense_Mutation_p.D61N|LCN6_ENST00000480584.1_5'UTR|LCN10_ENST00000497771.1_Missense_Mutation_p.D61N|LCN6_ENST00000471509.1_5'Flank			Q6JVE6	LCN10_HUMAN	lipocalin 10	61					transport (GO:0006810)	extracellular region (GO:0005576)				breast(2)|cervix(1)|large_intestine(1)	4	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.32e-06)|Epithelial(140;7.83e-05)		TTCCTCTTGTCCCTGGCCGGC	0.647																																																0									ASN/ASP	0,4402		0,0,2201	52	44	47		181	1	0.1	9		47	1,8599	1.2+/-3.3	0,1,4299	no	missense	LCN10	NM_001001712.2	23	0,1,6500	TT,TC,CC		0.0116,0.0,0.0077	possibly-damaging	61/201	139636409	1,13001	2201	4300	6501	SO:0001583	missense	414332			AY301271	CCDS35182.2	9q34.3	2011-10-24			ENSG00000187922	ENSG00000187922		"Lipocalins"	20892	protein-coding gene	gene with protein product		612904				15363845	Standard	NM_001001712		Approved		uc004civ.3	Q6JVE6	OTTHUMG00000150428	ENST00000474369.1:c.181G>A	9.37:g.139636409C>T	ENSP00000420564:p.Asp61Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A2RUU3|B0QZ79	Missense_Mutation	SNP	ENST00000474369.1	37	CCDS35182.2	.	.	.	.	.	.	.	.	.	.	C	17.05	3.288725	0.59976	0.0	1.16E-4	ENSG00000187922	ENST00000527229;ENST00000497771;ENST00000474369	T;T;T	0.12039	2.72;2.72;2.72	4.07	1.03	0.20045	Calycin-like (1);Calycin (1);	0.982436	0.08310	N	0.965576	T	0.12561	0.0305	.	.	.	0.09310	N	1	P;P;P	0.46784	0.884;0.884;0.884	B;B;B	0.43103	0.408;0.408;0.408	T	0.25606	-1.0127	9	0.48119	T	0.1	-5.8772	5.5735	0.17210	0.0:0.4825:0.4041:0.1134	.	61;61;61	E9PK15;Q6JVE6;Q6JVE6-2	.;LCN10_HUMAN;.	N	61	ENSP00000431726:D61N;ENSP00000418491:D61N;ENSP00000420564:D61N	ENSP00000435948:D61N	D	-	1	0	LCN10	138756230	0.094000	0.21725	0.088000	0.20740	0.757000	0.42996	0.802000	0.27069	0.413000	0.25759	0.552000	0.68991	GAC		0.647	LCN10-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318062.2	NM_001001712		T	139636409	C	T	139636409	3	4	651	1	0	0	0	0	1	0	0	0	8688	855	30	2	441	2	LCN10	9	139636409	Missense_Mutation	SNP	C	TCGA-KM-8443-01A-11D-2310-10	5888135	139636409	1577022	32	40353										
TUBB8	347688	broad.mit.edu	37	chr10	93637	93637	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	acgtggtgaccccactcatgGtagcagacaccaggtggttc	12	12	1	2			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr10:93637G>A	ENST00000309812.4	-	4	757	c.695C>T	c.(694-696)aCc>aTc	p.T232I	TUBB8_ENST00000413237.3_5'UTR|TUBB8_ENST00000447903.2_Missense_Mutation_p.T160I|TUBB8_ENST00000332708.5_3'UTR	NM_177987.2	NP_817124.1	Q3ZCM7	TBB8_HUMAN	tubulin, beta 8 class VIII	232					microtubule-based process (GO:0007017)|protein polymerization (GO:0051258)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)	p.T232I(1)		NS(1)|cervix(1)|endometrium(4)|large_intestine(5)|lung(12)|ovary(2)|prostate(3)|skin(3)|stomach(1)	32		all_cancers(4;0.00131)|all_lung(4;0.000777)|Lung NSC(4;0.0043)|all_epithelial(10;0.0154)|Colorectal(49;0.235)		Epithelial(11;0.00341)|all cancers(11;0.00922)|OV - Ovarian serous cystadenocarcinoma(14;0.0508)|Lung(33;0.132)		CCCACTCATGGTAGCAGACAC	0.557																																					Pancreas(192;2041 3010 9013 18103)											1	Substitution - Missense(1)	skin(1)											19	20	20					10																	93637		1983	3806	5789	SO:0001583	missense	347688			AF355127	CCDS7051.1	10p15.3	2014-05-06			ENSG00000173876			"Tubulins"	20773	protein-coding gene	gene with protein product	"class VIII beta-tubulin"						Standard	NM_177987		Approved	bA631M21.2	uc001ifi.2	Q3ZCM7	OTTHUMG00000174803	ENST00000309812.4:c.695C>T	10.37:g.93637G>A	ENSP00000311042:p.Thr232Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SQX9|Q8WZ78	Missense_Mutation	SNP	ENST00000309812.4	37	CCDS7051.1	.	.	.	.	.	.	.	.	.	.	G	10.48	1.363066	0.24684	.	.	ENSG00000173876	ENST00000447903;ENST00000272035;ENST00000440680;ENST00000328974	T	0.67698	-0.28	.	.	.	Tubulin/FtsZ, GTPase domain (3);	0.000000	0.64402	U	0.000006	T	0.63177	0.2489	N	0.17764	0.52	0.36197	D	0.85048	D;D	0.65815	0.995;0.961	D;P	0.70487	0.969;0.891	T	0.66236	-0.5974	9	0.87932	D	0	.	5.9051	0.18992	8.0E-4:0.0:0.9992:0.0	.	195;232	C9JAA5;Q3ZCM7	.;TBB8_HUMAN	I	160;198;195;232	ENSP00000403895:T160I	ENSP00000272035:T198I	T	-	2	0	RP11-631M21.2	83637	1.000000	0.71417	0.111000	0.21465	0.113000	0.19764	6.543000	0.73874	0.119000	0.18210	0.121000	0.15741	ACC		0.557	TUBB8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467795.1	NM_177987		A	93637	G	A	93637	3	1	651	1	0	0	0	0	1	0	0	0	16773	1261	44	2	643	2	TUBB8	10	93637	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10		93637	135441110	33	40354										
CDH23	64072	ucsc.edu	37	chr10	73572329	73572329	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	cctaccggagaacctgagtgAgatcgccgacctgtggaaca	12	12	0	3			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr10:73572329A>G	ENST00000224721.6	+	66	9493	c.9488A>G	c.(9487-9489)gAg>gGg	p.E3163G	CDH23_ENST00000475158.1_3'UTR|CDH23_ENST00000398788.3_Missense_Mutation_p.E918G	NM_022124.5	NP_071407.4	Q9H251	CAD23_HUMAN	cadherin-related 23	3158					calcium ion transport (GO:0006816)|calcium-dependent cell-cell adhesion (GO:0016339)|cytosolic calcium ion homeostasis (GO:0051480)|equilibrioception (GO:0050957)|homophilic cell adhesion (GO:0007156)|photoreceptor cell maintenance (GO:0045494)|response to stimulus (GO:0050896)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|stereocilium (GO:0032420)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|central_nervous_system(6)|endometrium(15)|haematopoietic_and_lymphoid_tissue(5)|kidney(7)|large_intestine(27)|lung(49)|ovary(3)|pancreas(1)|prostate(7)|stomach(7)|upper_aerodigestive_tract(3)	133						AACCTGAGTGAGATCGCCGAC	0.637																																																0													57	63	61					10																	73572329		2012	4177	6189	SO:0001583	missense	64072			AY010111	CCDS53540.1, CCDS73146.1	10q22.1	2014-08-08	2010-01-25		ENSG00000107736	ENSG00000107736		"Cadherins / Cadherin-related"	13733	protein-coding gene	gene with protein product	"cadherin-related family member 23"	605516	"cadherin related 23", "cadherin-like 23"	DFNB12, USH1D		11090341	Standard	NM_022124		Approved	CDHR23	uc001jrx.4	Q9H251	OTTHUMG00000019347	ENST00000224721.6:c.9488A>G	10.37:g.73572329A>G	ENSP00000224721:p.Glu3163Gly	Somatic		WXS	Illumina HiSeq	Phase_I	C4IXS9|F6U049|Q5QGS1|Q5QGS2|Q5QGS5|Q5QGS6|Q5XKN2|Q6UWW1|Q96JL3|Q9H4K9	Missense_Mutation	SNP	ENST00000224721.6	37		.	.	.	.	.	.	.	.	.	.	A	20.7	4.034027	0.75504	.	.	ENSG00000107736	ENST00000398860;ENST00000398855;ENST00000224721;ENST00000398788	T	0.80994	-1.44	5.44	5.44	0.79542	.	0.061549	0.64402	D	0.000004	D	0.85089	0.5617	L	0.36672	1.1	0.58432	D	0.999997	D;D;P;P	0.69078	0.992;0.997;0.651;0.651	P;D;B;B	0.77557	0.813;0.99;0.115;0.115	D	0.86393	0.1737	10	0.62326	D	0.03	.	15.6681	0.77247	1.0:0.0:0.0:0.0	.	55;55;3158;3158	Q5QGS5;Q5QGS6;E9PEX1;Q9H251	.;.;.;CAD23_HUMAN	G	3163;3158;3161;918	ENSP00000381768:E918G	ENSP00000224721:E3163G	E	+	2	0	CDH23	73242335	1.000000	0.71417	0.999000	0.59377	0.913000	0.54294	9.100000	0.94213	2.288000	0.76882	0.533000	0.62120	GAG		0.637	CDH23-001	PUTATIVE	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000051227.4	NM_052836		G	73572329	A	G	73572329	3	3	651	1	0	0	0	0	1	0	0	0	3110	304	11	3	10155	3	CDH23	10	73572329	Missense_Mutation	SNP	A	TCGA-KM-8443-01A-11D-2310-10	73478692	73572329	61962418	34	40355										
AMPD3	272	ucsc.edu	37	chr11	10506508	10506508	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	gctggagcaccaggagccgcAcagcctaccctaccccgacc	10	19	0	0			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr11:10506508A>G	ENST00000396554.3	+	5	1099	c.758A>G	c.(757-759)cAc>cGc	p.H253R	AMPD3_ENST00000444303.2_Missense_Mutation_p.H85R	NM_000480.2	NP_000471.1	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3	244					ADP metabolic process (GO:0046031)|AMP catabolic process (GO:0006196)|ATP metabolic process (GO:0046034)|energy homeostasis (GO:0097009)|IMP salvage (GO:0032264)|nucleobase-containing small molecule metabolic process (GO:0055086)|purine nucleobase metabolic process (GO:0006144)|purine-containing compound salvage (GO:0043101)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	AMP deaminase activity (GO:0003876)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(12)|ovary(1)|prostate(3)|skin(1)	25				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		CAGGAGCCGCACAGCCTACCC	0.582																																																0													88	77	81					11																	10506508		2201	4294	6495	SO:0001583	missense	272			M84722	CCDS7802.1, CCDS41617.1, CCDS44537.1, CCDS53601.1	11p15	2010-02-10	2010-02-10			ENSG00000133805	3.5.4.6		470	protein-coding gene	gene with protein product	"erythrocyte-specific AMP deaminase"	102772	"adenosine monophosphate deaminase (isoform E)"			1400401	Standard	NM_001172430		Approved		uc001min.1	Q01432		ENST00000396554.3:c.758A>G	11.37:g.10506508A>G	ENSP00000379802:p.His253Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A0AUX0|B7Z2S2|B7Z763|B7Z877	Missense_Mutation	SNP	ENST00000396554.3	37	CCDS7802.1	.	.	.	.	.	.	.	.	.	.	A	12.82	2.053576	0.36277	.	.	ENSG00000133805	ENST00000444303;ENST00000396554;ENST00000524866;ENST00000396553;ENST00000528723;ENST00000529507	D;D;D;D;D;D	0.90788	-2.73;-2.73;-2.73;-2.73;-2.73;-2.73	5.97	4.85	0.62838	.	0.089199	0.85682	D	0.000000	T	0.74935	0.3782	N	0.04705	-0.18	0.35951	D	0.833941	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.04013	0.001;0.0;0.001	T	0.69859	-0.5031	10	0.20519	T	0.43	-32.6972	3.4323	0.07433	0.6868:0.0:0.3132:0.0	.	251;244;253	B7Z763;Q01432;A0AUX0	.;AMPD3_HUMAN;.	R	85;253;244;244;251;244	ENSP00000396000:H85R;ENSP00000379802:H253R;ENSP00000433284:H244R;ENSP00000379801:H244R;ENSP00000436987:H251R;ENSP00000431648:H244R	ENSP00000379801:H244R	H	+	2	0	AMPD3	10463084	0.999000	0.42202	1.000000	0.80357	0.970000	0.65996	1.627000	0.37050	2.288000	0.76882	0.533000	0.62120	CAC		0.582	AMPD3-001	PUTATIVE	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000385783.2	NM_000480		G	10506508	A	G	10506508	3	3	651	1	0	0	0	0	1	0	0	0	587	159	6	3	796	3	AMPD3	11	10506508	Missense_Mutation	SNP	A	TCGA-KM-8443-01A-11D-2310-10		10506508	124500008	35	40356										
SYT7	9066	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	61291299	61291299	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	ctgctggagaagccccgtacCtgatgtgcccccgatgtcca	11	15	0	2	rs567302490		TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr11:61291299C>A	ENST00000263846.4	-	7	1234	c.907G>T	c.(907-909)Gac>Tac	p.D303Y	SYT7_ENST00000539008.1_Splice_Site_p.D586Y|SYT7_ENST00000540677.1_Splice_Site_p.D378Y|SYT7_ENST00000540831.1_5'Flank|SYT7_ENST00000535826.1_Splice_Site_p.D422Y|SYT7_ENST00000542670.1_Splice_Site_p.D511Y|SYT7_ENST00000542836.1_Splice_Site_p.D347Y	NM_004200.3	NP_004191.2	O43581	SYT7_HUMAN	synaptotagmin VII	303	C2 2. {ECO:0000255|PROSITE- ProRule:PRU00041}.				exocytosis (GO:0006887)|plasma membrane repair (GO:0001778)|positive regulation of calcium ion-dependent exocytosis (GO:0045956)|regulation of insulin secretion (GO:0050796)	cell junction (GO:0030054)|dense core granule (GO:0031045)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)	calcium ion binding (GO:0005509)|calcium-dependent phospholipid binding (GO:0005544)|transporter activity (GO:0005215)			kidney(2)|large_intestine(3)|lung(4)|ovary(3)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	15						AGCCCCGTACCTGATGTGCCC	0.592													C|||	1	0.000199681	0.0008	0.0	5008	,	,		17118	0.0		0.0	False		,,,				2504	0.0															0													264	253	257					11																	61291299		2202	4299	6501	SO:0001630	splice_region_variant	9066			AF038535	CCDS31577.1, CCDS58139.1, CCDS73298.1	11q12-q13.1	2013-01-21			ENSG00000011347	ENSG00000011347		"Synaptotagmins"	11514	protein-coding gene	gene with protein product		604146	"prostate cancer associated protein 7"	PCANAP7		9615227	Standard	NM_001252065		Approved	IPCA-7, SYT-VII, MGC150517	uc009ynr.3	O43581	OTTHUMG00000168199	ENST00000263846.4:c.907+1G>T	11.37:g.61291299C>A		Somatic		WXS	Illumina HiSeq	Phase_I	F5GZU9|Q08AH6	Missense_Mutation	SNP	ENST00000263846.4	37	CCDS31577.1	.	.	.	.	.	.	.	.	.	.	C	22.9	4.355550	0.82243	.	.	ENSG00000011347	ENST00000263846;ENST00000540677;ENST00000539008;ENST00000542836;ENST00000542670;ENST00000535826	T;T;T;T;T;T	0.81078	-1.45;-1.45;-1.45;-1.45;-1.45;-1.45	4.48	4.48	0.54585	C2 membrane targeting protein (1);C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);	0.000000	0.85682	D	0.000000	D	0.93729	0.7996	H	0.97829	4.085	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.96390	0.9288	9	.	.	.	.	17.5306	0.87813	0.0:1.0:0.0:0.0	.	378;303	F5GZU9;O43581	.;SYT7_HUMAN	Y	303;378;586;347;511;422	ENSP00000263846:D303Y;ENSP00000444201:D378Y;ENSP00000439694:D586Y;ENSP00000444568:D347Y;ENSP00000444019:D511Y;ENSP00000437720:D422Y	.	D	-	1	0	SYT7	61047875	1.000000	0.71417	1.000000	0.80357	0.822000	0.46500	7.760000	0.85248	2.192000	0.70111	0.462000	0.41574	GAC		0.592	SYT7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398733.1	NM_004200	Missense_Mutation	A	61291299	C	A	61291299	5	1	651	1	0	0	0	0	0	0	1	0	15491	695	24	4	316	4	SYT7	11	61291299	Splice_Site	SNP	C	TCGA-KM-8443-01A-11D-2310-10	50784791	61291299	73715217	36	40357										
PTS	5805	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr11	112101359	112101359	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	tattctttagattgaccctgCtacgggaatggttatgaatc	9	7	1	3			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr11:112101359C>G	ENST00000280362.3	+	4	276	c.197C>G	c.(196-198)gCt>gGt	p.A66G	PTS_ENST00000525803.1_Intron|PTS_ENST00000524931.1_5'UTR	NM_000317.2	NP_000308.1	Q03393	PTPS_HUMAN	6-pyruvoyltetrahydropterin synthase	66					cellular amino acid metabolic process (GO:0006520)|central nervous system development (GO:0007417)|nitric oxide metabolic process (GO:0046209)|regulation of nitric-oxide synthase activity (GO:0050999)|small molecule metabolic process (GO:0044281)|tetrahydrobiopterin biosynthetic process (GO:0006729)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|mitochondrion (GO:0005739)	6-pyruvoyltetrahydropterin synthase activity (GO:0003874)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)			breast(1)|large_intestine(1)	2		all_cancers(61;2.51e-14)|all_epithelial(67;1.64e-08)|Melanoma(852;8.81e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;1.27e-06)|BRCA - Breast invasive adenocarcinoma(274;1.43e-06)|all cancers(92;2.1e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0519)		ATTGACCCTGCTACGGGAATG	0.373																																																0													178	177	177					11																	112101359		2201	4297	6498	SO:0001583	missense	5805			U63382	CCDS8359.1	11q22.3	2014-04-01				ENSG00000150787	4.2.3.12		9689	protein-coding gene	gene with protein product		612719				8188266	Standard	NM_000317		Approved	PTPS	uc001pnj.4	Q03393		ENST00000280362.3:c.197C>G	11.37:g.112101359C>G	ENSP00000280362:p.Ala66Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ87|Q8WVG8	Missense_Mutation	SNP	ENST00000280362.3	37	CCDS8359.1	.	.	.	.	.	.	.	.	.	.	C	10.54	1.378147	0.24944	.	.	ENSG00000150787	ENST00000280362	D	0.99388	-5.81	5.39	-0.156	0.13391	.	0.319540	0.33792	N	0.004555	D	0.96071	0.8720	L	0.39397	1.21	0.80722	D	1	B	0.06786	0.001	B	0.13407	0.009	D	0.87920	0.2703	10	0.23302	T	0.38	-16.4062	1.042	0.01561	0.1483:0.1913:0.1537:0.5067	.	66	Q03393	PTPS_HUMAN	G	66	ENSP00000280362:A66G	ENSP00000280362:A66G	A	+	2	0	PTS	111606569	0.793000	0.28825	0.988000	0.46212	0.919000	0.55068	0.412000	0.21131	-0.174000	0.10743	-0.225000	0.12378	GCT		0.373	PTS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393541.1	NM_000317		G	112101359	C	G	112101359	3	3	651	1	0	0	0	0	1	0	0	0	12831	797	28	4	211	4	PTS	11	112101359	Missense_Mutation	SNP	C	TCGA-KM-8443-01A-11D-2310-10	50810060	112101359	22905157	37	40358										
KRT76	51350	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr12	53169235	53169235	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	ctccctccaggttccccctcTcccctagaagtgaatctagc	6	18	2	2			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr12:53169235T>C	ENST00000332411.2	-	2	805	c.752A>G	c.(751-753)gAg>gGg	p.E251G		NM_015848.4	NP_056932.2	Q01546	K22O_HUMAN	keratin 76	251	Coil 1B.|Rod.				cytoskeleton organization (GO:0007010)	extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)|keratin filament (GO:0045095)|nucleus (GO:0005634)	structural molecule activity (GO:0005198)			breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(10)|prostate(1)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	27						GTTCCCCCTCTCCCCTAGAAG	0.552																																																0													140	142	141					12																	53169235		2203	4300	6503	SO:0001583	missense	51350			M99063	CCDS8838.1	12q13.13	2013-06-25			ENSG00000185069	ENSG00000185069		"-", "Intermediate filaments type II, keratins (basic)"	24430	protein-coding gene	gene with protein product						1282112, 16831889	Standard	NM_015848		Approved	HUMCYT2A, KRT2B, KRT2P	uc001sax.3	Q01546	OTTHUMG00000169797	ENST00000332411.2:c.752A>G	12.37:g.53169235T>C	ENSP00000330101:p.Glu251Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRR3|Q7Z795	Missense_Mutation	SNP	ENST00000332411.2	37	CCDS8838.1	.	.	.	.	.	.	.	.	.	.	T	15.22	2.767701	0.49574	.	.	ENSG00000185069	ENST00000332411	D	0.90620	-2.7	4.56	3.38	0.38709	Filament (1);	0.144593	0.31612	N	0.007350	D	0.95236	0.8455	M	0.90082	3.085	0.42102	D	0.991342	D	0.67145	0.996	D	0.67725	0.953	D	0.95005	0.8146	10	0.59425	D	0.04	.	11.511	0.50494	0.0:0.0:0.1563:0.8437	.	251	Q01546	K22O_HUMAN	G	251	ENSP00000330101:E251G	ENSP00000330101:E251G	E	-	2	0	KRT76	51455502	0.925000	0.31364	0.067000	0.19924	0.330000	0.28571	5.173000	0.65010	0.825000	0.34637	0.379000	0.24179	GAG		0.552	KRT76-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405928.1	NM_015848		C	53169235	T	C	53169235	3	2	651	1	0	0	0	0	1	0	0	0	8496	1551	54	3	1196	3	KRT76	12	53169235	Missense_Mutation	SNP	T	TCGA-KM-8443-01A-11D-2310-10		53169235	80682660	38	40359										
ITGA5	3678	broad.mit.edu	37	chr12	54812840	54812840	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	gccccgagagtactgctgggGcctccgcgtctaagttgaag	14	12	1	2			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr12:54812840G>T	ENST00000293379.4	-	1	404	c.143C>A	c.(142-144)gCc>gAc	p.A48D	RP11-753H16.3_ENST00000552053.1_RNA|RP11-753H16.3_ENST00000550474.1_RNA|RP11-753H16.5_ENST00000552785.1_RNA	NM_002205.2	NP_002196.2	P08648	ITA5_HUMAN	integrin, alpha 5 (fibronectin receptor, alpha polypeptide)	48					angiogenesis (GO:0001525)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell-cell adhesion mediated by integrin (GO:0033631)|cell-substrate adhesion (GO:0031589)|cell-substrate junction assembly (GO:0007044)|endodermal cell differentiation (GO:0035987)|extracellular matrix organization (GO:0030198)|heterophilic cell-cell adhesion (GO:0007157)|heterotypic cell-cell adhesion (GO:0034113)|integrin-mediated signaling pathway (GO:0007229)|leukocyte cell-cell adhesion (GO:0007159)|leukocyte migration (GO:0050900)|memory (GO:0007613)|negative regulation of anoikis (GO:2000811)|positive regulation of cell migration (GO:0030335)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030949)|viral process (GO:0016032)|wound healing, spreading of epidermal cells (GO:0035313)	alphav-beta3 integrin-vitronectin complex (GO:0071062)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|external side of plasma membrane (GO:0009897)|focal adhesion (GO:0005925)|integrin complex (GO:0008305)|plasma membrane (GO:0005886)|ruffle (GO:0001726)|synapse (GO:0045202)	metal ion binding (GO:0046872)|platelet-derived growth factor receptor binding (GO:0005161)|vascular endothelial growth factor receptor 2 binding (GO:0043184)			NS(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(11)|ovary(2)|prostate(1)|upper_aerodigestive_tract(2)	34						TACTGCTGGGGCCTCCGCGTC	0.706																																																0													13	19	17					12																	54812840		2110	4214	6324	SO:0001583	missense	3678				CCDS8880.1	12q11-q13	2010-03-23				ENSG00000161638		"CD molecules", "Integrins"	6141	protein-coding gene	gene with protein product		135620		FNRA		2454952	Standard	NM_002205		Approved	CD49e	uc001sga.3	P08648	OTTHUMG00000169841	ENST00000293379.4:c.143C>A	12.37:g.54812840G>T	ENSP00000293379:p.Ala48Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q96HA5	Missense_Mutation	SNP	ENST00000293379.4	37	CCDS8880.1	.	.	.	.	.	.	.	.	.	.	G	11.64	1.699146	0.30142	.	.	ENSG00000161638	ENST00000293379	T	0.69685	-0.42	4.54	3.64	0.41730	.	0.339088	0.30959	N	0.008525	T	0.50411	0.1614	L	0.28400	0.85	0.38871	D	0.956695	B	0.32781	0.384	B	0.28305	0.088	T	0.53078	-0.8489	10	0.39692	T	0.17	.	10.6553	0.45671	0.0:0.1943:0.8057:0.0	.	48	P08648	ITA5_HUMAN	D	48	ENSP00000293379:A48D	ENSP00000293379:A48D	A	-	2	0	ITGA5	53099107	1.000000	0.71417	1.000000	0.80357	0.778000	0.44026	2.524000	0.45589	1.254000	0.44035	0.462000	0.41574	GCC		0.706	ITGA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406174.1			T	54812840	G	T	54812840	3	4	651	1	0	0	0	0	1	0	0	0	7886	1203	42	4	3126	4	ITGA5	12	54812840	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10	1643605	54812840	79039055	39	40360										
TBC1D15	64786	broad.mit.edu	37	chr12	72314554	72314554	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	tacaaatttccatcttcttcTctgttgtgctattctggaat	5	9	4	0			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr12:72314554T>C	ENST00000550746.1	+	16	1758	c.1694T>C	c.(1693-1695)cTc>cCc	p.L565P	TBC1D15_ENST00000485960.2_Missense_Mutation_p.L548P|TBC1D15_ENST00000319106.8_Missense_Mutation_p.L556P|TBC1D15_ENST00000393309.3_Missense_Mutation_p.L319P	NM_001146213.1|NM_022771.4	NP_001139685.2|NP_073608.4	Q8TC07	TBC15_HUMAN	TBC1 domain family, member 15	565					positive regulation of Rab GTPase activity (GO:0032851)|regulation of Rab GTPase activity (GO:0032313)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	Rab GTPase activator activity (GO:0005097)			NS(1)|endometrium(3)|kidney(1)|large_intestine(6)|lung(8)|prostate(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	24						CATCTTCTTCTCTGTTGTGCT	0.323																																																0													219	217	217					12																	72314554		2203	4300	6503	SO:0001583	missense	64786			AL157464	CCDS31858.1, CCDS53814.1, CCDS55849.1	12q15	2013-07-09			ENSG00000121749	ENSG00000121749			25694	protein-coding gene	gene with protein product		612662				16055087	Standard	NM_022771		Approved	FLJ12085, DKFZp761D0223	uc001swu.3	Q8TC07	OTTHUMG00000158553	ENST00000550746.1:c.1694T>C	12.37:g.72314554T>C	ENSP00000448182:p.Leu565Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DMT9|B9A6L6|J3KNI9|Q9HA83	Missense_Mutation	SNP	ENST00000550746.1	37	CCDS31858.1	.	.	.	.	.	.	.	.	.	.	T	22.2	4.254728	0.80135	.	.	ENSG00000121749	ENST00000550746;ENST00000319106;ENST00000485960;ENST00000393309	T;T;T;T	0.25085	1.82;1.82;1.82;1.82	5.49	5.49	0.81192	Rab-GAP/TBC domain (3);	0.214306	0.40385	N	0.001113	T	0.44664	0.1304	L	0.57536	1.79	0.80722	D	1	D;P;P	0.54397	0.966;0.913;0.912	P;P;P	0.59424	0.857;0.503;0.635	T	0.41016	-0.9532	10	0.87932	D	0	-0.4369	15.6355	0.76949	0.0:0.0:0.0:1.0	.	556;548;565	E9PH93;Q8TC07-2;Q8TC07	.;.;TBC15_HUMAN	P	565;556;548;319	ENSP00000448182:L565P;ENSP00000318262:L556P;ENSP00000420678:L548P;ENSP00000376986:L319P	ENSP00000318262:L556P	L	+	2	0	TBC1D15	70600821	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.948000	0.87774	2.105000	0.64084	0.472000	0.43445	CTC		0.323	TBC1D15-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000351266.2	NM_022771		C	72314554	T	C	72314554	3	2	651	1	0	0	0	0	1	0	0	0	15616	1551	54	3	1880	3	TBC1D15	12	72314554	Missense_Mutation	SNP	T	TCGA-KM-8443-01A-11D-2310-10	17501714	72314554	61537341	40	40361										
DDX55	57696	broad.mit.edu;mdanderson.org	37	chr12	124092052	124092052	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	ggtcctgtcgcatttcacgaAgcacttccccgagttcaggt	10	13	2	0			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr12:124092052A>G	ENST00000238146.4	+	4	370	c.320A>G	c.(319-321)aAg>aGg	p.K107R	DDX55_ENST00000538744.1_Missense_Mutation_p.K107R	NM_020936.1	NP_065987.1	Q8NHQ9	DDX55_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 55	107	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.					membrane (GO:0016020)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|poly(A) RNA binding (GO:0044822)			autonomic_ganglia(1)|breast(1)|endometrium(1)|large_intestine(3)|liver(1)|lung(4)|ovary(1)|prostate(1)|skin(1)	14	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)		CATTTCACGAAGCACTTCCCC	0.493																																																0													260	207	225					12																	124092052		2203	4300	6503	SO:0001583	missense	57696			AB046815	CCDS9251.1	12q24.31	2003-06-13			ENSG00000111364	ENSG00000111364		"DEAD-boxes"	20085	protein-coding gene	gene with protein product						10997877	Standard	NM_020936		Approved	KIAA1595	uc001ufi.3	Q8NHQ9	OTTHUMG00000168695	ENST00000238146.4:c.320A>G	12.37:g.124092052A>G	ENSP00000238146:p.Lys107Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q658L6|Q8IYH0|Q9HCH7	Missense_Mutation	SNP	ENST00000238146.4	37	CCDS9251.1	.	.	.	.	.	.	.	.	.	.	A	11.83	1.756016	0.31137	.	.	ENSG00000111364	ENST00000238146;ENST00000538449;ENST00000538744	T;T	0.18338	2.22;2.22	5.71	1.99	0.26369	DEAD-like helicase (2);DNA/RNA helicase, DEAD/DEAH box type, N-terminal (1);	0.152410	0.64402	N	0.000018	T	0.12603	0.0306	L	0.31845	0.965	0.80722	D	1	B	0.06786	0.001	B	0.12837	0.008	T	0.09487	-1.0672	10	0.41790	T	0.15	.	9.837	0.40975	0.8026:0.0:0.1974:0.0	.	107	Q8NHQ9	DDX55_HUMAN	R	107	ENSP00000238146:K107R;ENSP00000443114:K107R	ENSP00000238146:K107R	K	+	2	0	DDX55	122658005	1.000000	0.71417	0.977000	0.42913	0.816000	0.46133	2.882000	0.48546	0.090000	0.17273	-0.400000	0.06385	AAG		0.493	DDX55-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400616.2			G	124092052	A	G	124092052	3	3	651	1	0	0	0	0	1	0	0	0	4375	72	3	3	334	3	DDX55	12	124092052	Missense_Mutation	SNP	A	TCGA-KM-8443-01A-11D-2310-10	51777498	124092052	9759843	41	40362										
CHFR	55743	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr12	133435693	133435693	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	ggtcctggcagatgatgcatGtcagcgtctcctccatcttg	11	12	3	2			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr12:133435693G>A	ENST00000432561.2	-	8	981	c.908C>T	c.(907-909)aCa>aTa	p.T303I	CHFR_ENST00000541837.2_5'UTR|CHFR_ENST00000450056.2_Missense_Mutation_p.T291I|CHFR_ENST00000315585.7_Missense_Mutation_p.T262I|CHFR_ENST00000537522.1_5'Flank|CHFR_ENST00000266880.7_Missense_Mutation_p.T303I|CHFR_ENST00000443047.2_Missense_Mutation_p.T211I			Q96EP1	CHFR_HUMAN	checkpoint with forkhead and ring finger domains, E3 ubiquitin protein ligase	303					mitotic cell cycle checkpoint (GO:0007093)|mitotic nuclear division (GO:0007067)|modification-dependent protein catabolic process (GO:0019941)|protein polyubiquitination (GO:0000209)|ubiquitin-dependent protein catabolic process (GO:0006511)	nucleus (GO:0005634)|PML body (GO:0016605)	ligase activity (GO:0016874)|nucleotide binding (GO:0000166)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(10)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	26	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)		GATGATGCATGTCAGCGTCTC	0.602																																																0													243	138	174					12																	133435693		2203	4300	6503	SO:0001583	missense	55743			AK001658	CCDS31937.1, CCDS53847.1, CCDS53848.1, CCDS53849.1	12q24.33	2012-02-23	2012-02-23			ENSG00000072609		"RING-type (C3HC4) zinc fingers"	20455	protein-coding gene	gene with protein product		605209	"checkpoint with forkhead and ring finger domains"			10935642, 11807090	Standard	NM_001161344		Approved	FLJ10796, RNF196	uc001ulf.2	Q96EP1		ENST00000432561.2:c.908C>T	12.37:g.133435693G>A	ENSP00000392395:p.Thr303Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEN5|B4DZ77|B4E2L6|Q96SL3|Q9NRT4|Q9NT32|Q9NVD5	Missense_Mutation	SNP	ENST00000432561.2	37	CCDS53849.1	.	.	.	.	.	.	.	.	.	.	G	18.20	3.570504	0.65765	.	.	ENSG00000072609	ENST00000315585;ENST00000443047;ENST00000450056;ENST00000266880;ENST00000541228;ENST00000432561	T;T;T;T;T	0.44482	0.92;0.92;0.92;0.92;0.92	5.49	3.64	0.41730	Zinc finger, RING/FYVE/PHD-type (1);	0.000000	0.85682	D	0.000000	T	0.45316	0.1336	N	0.17674	0.51	0.58432	D	0.999997	D;P;P;P;P	0.76494	0.999;0.853;0.879;0.676;0.916	D;P;P;P;P	0.77004	0.989;0.805;0.877;0.733;0.503	T	0.22871	-1.0204	10	0.30078	T	0.28	-15.3446	11.2006	0.48739	0.0693:0.1281:0.8027:0.0	.	211;303;303;291;262	Q96EP1-5;Q96EP1-4;Q96EP1;Q96EP1-2;Q96EP1-3	.;.;CHFR_HUMAN;.;.	I	262;211;291;303;103;303	ENSP00000320557:T262I;ENSP00000416431:T211I;ENSP00000398735:T291I;ENSP00000266880:T303I;ENSP00000392395:T303I	ENSP00000266880:T303I	T	-	2	0	CHFR	131945766	1.000000	0.71417	0.310000	0.25168	0.974000	0.67602	9.312000	0.96287	0.660000	0.30964	0.655000	0.94253	ACA		0.602	CHFR-002	NOVEL	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000397130.2			A	133435693	G	A	133435693	3	1	651	1	0	0	0	0	1	0	0	0	3339	1377	48	2	1130	2	CHFR	12	133435693	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10	9343641	133435693	416202	42	40363										
SACS	26278	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr13	23915268	23915268	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	cttgaataattcttttctctTtctcactgctatcggttaaa	4	9	3	1			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr13:23915268T>G	ENST00000382292.3	-	9	3020	c.2747A>C	c.(2746-2748)aAa>aCa	p.K916T	SACS_ENST00000402364.1_Missense_Mutation_p.K166T|SACS_ENST00000382298.3_Missense_Mutation_p.K916T			Q9NZJ4	SACS_HUMAN	sacsin molecular chaperone	916					cell death (GO:0008219)|negative regulation of inclusion body assembly (GO:0090084)|protein folding (GO:0006457)	axon (GO:0030424)|cell body fiber (GO:0070852)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	chaperone binding (GO:0051087)|Hsp70 protein binding (GO:0030544)|proteasome binding (GO:0070628)			NS(1)|biliary_tract(1)|breast(3)|central_nervous_system(2)|endometrium(22)|haematopoietic_and_lymphoid_tissue(1)|kidney(15)|large_intestine(54)|lung(49)|ovary(7)|pancreas(1)|prostate(4)|skin(10)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(11)	189		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)		TCTTTTCTCTTTCTCACTGCT	0.363																																																0													132	134	133					13																	23915268		2203	4300	6503	SO:0001583	missense	26278			AF193556	CCDS9300.2	13q11	2014-06-13	2014-01-30		ENSG00000151835	ENSG00000151835		"Heat shock proteins / DNAJ (HSP40)"	10519	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 138"	604490	"spastic ataxia of Charlevoix-Saguenay (sacsin)"			10610707, 15057823, 21726565	Standard	NM_001278055		Approved	ARSACS, KIAA0730, DKFZp686B15167, DNAJC29, SPAX6, PPP1R138	uc001uon.3	Q9NZJ4	OTTHUMG00000016562	ENST00000382292.3:c.2747A>C	13.37:g.23915268T>G	ENSP00000371729:p.Lys916Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O94835|Q5T9J5|Q5T9J7|Q5T9J8|Q68DF5|Q6MZR4|Q8NBF9	Missense_Mutation	SNP	ENST00000382292.3	37	CCDS9300.2	.	.	.	.	.	.	.	.	.	.	T	11.97	1.796919	0.31777	.	.	ENSG00000151835	ENST00000382292;ENST00000402364;ENST00000382298	D;D;D	0.87809	-2.15;-2.3;-2.15	6.05	4.87	0.63330	.	0.154450	0.56097	D	0.000028	T	0.78304	0.4262	L	0.32530	0.975	0.30980	N	0.722627	P	0.34815	0.47	B	0.28916	0.096	T	0.74475	-0.3653	10	0.23891	T	0.37	.	11.899	0.52671	0.0:0.0675:0.0:0.9325	.	916	Q9NZJ4	SACS_HUMAN	T	916;166;916	ENSP00000371729:K916T;ENSP00000385844:K166T;ENSP00000371735:K916T	ENSP00000371729:K916T	K	-	2	0	SACS	22813268	1.000000	0.71417	0.995000	0.50966	0.913000	0.54294	2.117000	0.41939	1.118000	0.41863	0.528000	0.53228	AAA		0.363	SACS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044148.3	NM_014363		G	23915268	T	G	23915268	3	3	651	1	0	0	0	0	1	0	0	0	13817	1841	64	5	10996	5	SACS	13	23915268	Missense_Mutation	SNP	T	TCGA-KM-8443-01A-11D-2310-10		23915268	91254610	43	40364										
HOMEZ	57594	broad.mit.edu	37	chr14	23745955	23745955	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	ctattccaataccaacttgcTctggagctggcactggagga	10	11	1	0			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr14:23745955T>C	ENST00000357460.5	-	2	646	c.482A>G	c.(481-483)gAg>gGg	p.E161G	HOMEZ_ENST00000431326.2_Missense_Mutation_p.E163G|HOMEZ_ENST00000561013.1_Missense_Mutation_p.E163G	NM_020834.2	NP_065885.2	Q8IX15	HOMEZ_HUMAN	homeobox and leucine zipper encoding	161	Pro-rich.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)			endometrium(5)|lung(7)	12	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		ACCAACTTGCTCTGGAGCTGG	0.547																																																0													124	125	125					14																	23745955		1926	4139	6065	SO:0001583	missense	57594			AB037864	CCDS45085.1	14q11.2	2011-06-20	2007-02-15	2007-02-15		ENSG00000215271		"Homeoboxes / ZF class"	20164	protein-coding gene	gene with protein product		608119	"KIAA1443"	KIAA1443		12925734	Standard	NM_020834		Approved		uc001wja.2	Q8IX15		ENST00000357460.5:c.482A>G	14.37:g.23745955T>C	ENSP00000350049:p.Glu161Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A1L445|B4DZ80|F8WCA3|Q6P049|Q86XB6|Q9P2A5	Missense_Mutation	SNP	ENST00000357460.5	37	CCDS45085.1	.	.	.	.	.	.	.	.	.	.	T	11.79	1.743102	0.30865	.	.	ENSG00000215271	ENST00000357460;ENST00000431326	T;T	0.27557	1.66;1.66	5.62	5.62	0.85841	.	0.212459	0.41396	D	0.000884	T	0.21921	0.0528	L	0.29908	0.895	0.09310	N	1	P;P	0.40731	0.728;0.608	B;B	0.39339	0.297;0.156	T	0.15636	-1.0430	10	0.24483	T	0.36	-24.2871	9.9553	0.41663	0.0:0.0:0.1703:0.8297	.	163;161	F8WCA3;Q8IX15	.;HOMEZ_HUMAN	G	161;163	ENSP00000350049:E161G;ENSP00000406579:E163G	ENSP00000350049:E161G	E	-	2	0	HOMEZ	22815795	0.232000	0.23762	0.990000	0.47175	0.964000	0.63967	1.454000	0.35178	2.159000	0.67721	0.533000	0.62120	GAG		0.547	HOMEZ-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000416939.2	NM_020834		C	23745955	T	C	23745955	3	2	651	1	0	0	0	0	1	0	0	0	7288	1551	54	3	1174	3	HOMEZ	14	23745955	Missense_Mutation	SNP	T	TCGA-KM-8443-01A-11D-2310-10		23745955	83603585	44	40365										
DTWD1	56986	broad.mit.edu	37	chr15	49935536	49935536	+	Frame_Shift_Del	DEL	C	C	-													0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	tttttttgacagggttgttaCaagttgagttgaaaacaaga					rs368454338		TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr15:49935536delC	ENST00000251250.6	+	6	883	c.676delC	c.(676-678)caafs	p.Q226fs	DTWD1_ENST00000558653.1_Frame_Shift_Del_p.Q226fs|DTWD1_ENST00000415425.1_Frame_Shift_Del_p.Q139fs|DTWD1_ENST00000403028.3_Frame_Shift_Del_p.Q226fs	NM_020234.5	NP_064619.2	Q8N5C7	DTWD1_HUMAN	DTW domain containing 1	226										endometrium(1)|large_intestine(4)|lung(2)|ovary(1)|upper_aerodigestive_tract(1)	9		all_lung(180;0.0384)		all cancers(107;3.27e-08)|GBM - Glioblastoma multiforme(94;7.6e-05)		AGGGTTGTTACAAGTTGAGTT	0.299																																																0													20	21	21					15																	49935536		2190	4291	6481	SO:0001589	frameshift_variant	56986			BC032535	CCDS10132.1	15q21.2	2005-08-09			ENSG00000104047	ENSG00000104047			30926	protein-coding gene	gene with protein product							Standard	NM_020234		Approved	MDS009, MGC111207	uc001zxs.3	Q8N5C7	OTTHUMG00000131567	ENST00000251250.6:c.676delC	15.37:g.49935536delC	ENSP00000251250:p.Gln226fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q567Q3|Q8WVG9|Q9NRU6	Frame_Shift_Del	DEL	ENST00000251250.6	37	CCDS10132.1																																																																																				0.299	DTWD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254431.2	NM_020234		-	49935536	C	-	49935536	7	5	651	1	0	1	0	1	0	0	0	0	4793	479	17	0	690	0	DTWD1	15	49935536	Frame_Shift_Del	DEL	C	TCGA-KM-8443-01A-11D-2310-10		49935536	52595856	45	40366										
SIN3A	25942	broad.mit.edu	37	chr15	75682085	75682085	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	cagtgaatcttcatactgtgAtgagtctatgttgccatcca	8	9	3	3			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr15:75682085A>G	ENST00000394947.3	-	16	3243	c.2929T>C	c.(2929-2931)Tca>Cca	p.S977P	SIN3A_ENST00000360439.4_Missense_Mutation_p.S977P|SIN3A_ENST00000394949.4_Missense_Mutation_p.S977P	NM_001145358.1	NP_001138830.1			SIN3 transcription regulator family member A											breast(2)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(16)|lung(15)|ovary(3)|prostate(2)|skin(5)|upper_aerodigestive_tract(2)	63						TCATACTGTGATGAGTCTATG	0.478																																																0													218	171	187					15																	75682085		2197	4294	6491	SO:0001583	missense	25942			AK027559	CCDS10279.1	15q22.33	2013-08-21	2013-08-21		ENSG00000169375	ENSG00000169375			19353	protein-coding gene	gene with protein product		607776	"SIN3 homolog A, transcription regulator (yeast)", "SIN3 transcription regulator homolog A (yeast)"			10773092, 7601471	Standard	NM_001145357		Approved	KIAA0700, DKFZP434K2235	uc002bai.3	Q96ST3	OTTHUMG00000142834	ENST00000394947.3:c.2929T>C	15.37:g.75682085A>G	ENSP00000378402:p.Ser977Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000394947.3	37	CCDS10279.1	.	.	.	.	.	.	.	.	.	.	A	17.67	3.446218	0.63178	.	.	ENSG00000169375	ENST00000394947;ENST00000394949;ENST00000360439	T;T;T	0.49139	0.79;0.79;0.79	5.78	5.78	0.91487	.	0.108661	0.64402	D	0.000004	T	0.39410	0.1077	L	0.50333	1.59	0.80722	D	1	P	0.37370	0.592	B	0.33339	0.162	T	0.31052	-0.9957	10	0.37606	T	0.19	-11.3245	10.5229	0.44929	0.8558:0.0:0.0:0.1442	.	977	Q96ST3	SIN3A_HUMAN	P	977	ENSP00000378402:S977P;ENSP00000378403:S977P;ENSP00000353622:S977P	ENSP00000353622:S977P	S	-	1	0	SIN3A	73469138	1.000000	0.71417	0.880000	0.34516	0.996000	0.88848	4.891000	0.63185	2.214000	0.71695	0.528000	0.53228	TCA		0.478	SIN3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286469.1	NM_015477		G	75682085	A	G	75682085	3	3	651	1	0	0	0	0	1	0	0	0	14338	333	12	3	916	3	SIN3A	15	75682085	Missense_Mutation	SNP	A	TCGA-KM-8443-01A-11D-2310-10	25746549	75682085	26849307	46	40367										
BCAR1	9564	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr16	75270827	75270827	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	cttctccacactggggggcaCgtcatacacctccagcaacg	9	16	2	0	rs370653589		TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr16:75270827C>T	ENST00000162330.5	-	4	991	c.865G>A	c.(865-867)Gtg>Atg	p.V289M	BCAR1_ENST00000566982.1_5'UTR|BCAR1_ENST00000546196.1_Missense_Mutation_p.V260M|BCAR1_ENST00000542031.2_Missense_Mutation_p.V287M|BCAR1_ENST00000535626.2_Missense_Mutation_p.V141M|BCAR1_ENST00000420641.3_Missense_Mutation_p.V307M|BCAR1_ENST00000538440.2_Missense_Mutation_p.V289M|BCAR1_ENST00000393422.2_Missense_Mutation_p.V307M|BCAR1_ENST00000418647.3_Missense_Mutation_p.V335M|BCAR1_ENST00000393420.6_Missense_Mutation_p.V289M	NM_001170717.1|NM_014567.3	NP_001164188.1|NP_055382.2	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	289	Substrate for kinases. {ECO:0000250}.				actin filament organization (GO:0007015)|antigen receptor-mediated signaling pathway (GO:0050851)|B cell receptor signaling pathway (GO:0050853)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell chemotaxis (GO:0060326)|cell division (GO:0051301)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|cellular response to hepatocyte growth factor stimulus (GO:0035729)|epidermal growth factor receptor signaling pathway (GO:0007173)|G-protein coupled receptor signaling pathway (GO:0007186)|hepatocyte growth factor receptor signaling pathway (GO:0048012)|insulin receptor signaling pathway (GO:0008286)|integrin-mediated signaling pathway (GO:0007229)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet activation (GO:0030168)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of cell migration (GO:0030335)|positive regulation of endothelial cell migration (GO:0010595)|regulation of apoptotic process (GO:0042981)|regulation of cell growth (GO:0001558)|T cell receptor signaling pathway (GO:0050852)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	protein kinase binding (GO:0019901)|signal transducer activity (GO:0004871)			breast(2)|central_nervous_system(5)|endometrium(1)|kidney(6)|large_intestine(1)|liver(1)|lung(13)|ovary(1)|prostate(3)|upper_aerodigestive_tract(2)	35				BRCA - Breast invasive adenocarcinoma(221;0.169)		CTGGGGGGCACGTCATACACC	0.632																																																0								C	MET/VAL,MET/VAL,MET/VAL,MET/VAL,MET/VAL,MET/VAL,MET/VAL,MET/VAL,MET/VAL	2,4394	4.2+/-10.8	0,2,2196	85	80	82		1003,919,919,865,865,859,421,235,865	3.9	1	16		82	0,8600		0,0,4300	no	missense,missense,missense,missense,missense,missense,missense,missense,missense	BCAR1	NM_001170714.1,NM_001170715.1,NM_001170716.1,NM_001170717.1,NM_001170718.1,NM_001170719.1,NM_001170720.1,NM_001170721.1,NM_014567.3	21,21,21,21,21,21,21,21,21	0,2,6496	TT,TC,CC		0.0,0.0455,0.0154	probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging	335/917,307/889,307/889,289/889,289/871,287/869,141/723,79/661,289/871	75270827	2,12994	2198	4300	6498	SO:0001583	missense	9564			AJ242987	CCDS10915.1, CCDS54037.1, CCDS54038.1, CCDS54039.1, CCDS54040.1, CCDS54041.1, CCDS54042.1, CCDS54043.1	16q22-q23	2011-04-13			ENSG00000050820	ENSG00000050820		"Cas scaffolding proteins"	971	protein-coding gene	gene with protein product	"Crk-associated substrate", "Cas scaffolding protein family member 1"	602941				8413311, 10639512	Standard	NM_001170714		Approved	P130Cas, Crkas, CAS, CASS1	uc010vnb.2	P56945	OTTHUMG00000137604	ENST00000162330.5:c.865G>A	16.37:g.75270827C>T	ENSP00000162330:p.Val289Met	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWD7|B4DEV4|B4DGB5|B4DIW5|B7Z7X7|E9PCL5|E9PCV2|F5GXA2|F5GXV6|F5H7Z0|F8WA69|Q6QEF7	Missense_Mutation	SNP	ENST00000162330.5	37	CCDS10915.1	.	.	.	.	.	.	.	.	.	.	C	15.88	2.963648	0.53507	4.55E-4	0.0	ENSG00000050820	ENST00000162330;ENST00000393422;ENST00000420641;ENST00000538440;ENST00000418647;ENST00000535626;ENST00000393420;ENST00000542031;ENST00000546196	T;T;T;T;T;T;T;T;T	0.47869	0.83;0.83;0.83;0.83;0.83;0.83;0.83;0.83;0.83	3.93	3.93	0.45458	.	0.396664	0.25076	N	0.033324	T	0.60104	0.2243	L	0.47016	1.485	0.38522	D	0.948762	D;D;D;D;D;D;D;D;D	0.89917	0.968;1.0;1.0;1.0;0.967;1.0;1.0;0.966;0.999	P;D;D;D;P;D;D;B;D	0.80764	0.546;0.994;0.945;0.994;0.734;0.981;0.994;0.321;0.987	T	0.63301	-0.6668	10	0.46703	T	0.11	-22.7831	13.8451	0.63463	0.0:1.0:0.0:0.0	.	307;141;335;287;289;307;289;289;79	B4DIW5;F5GXV6;E9PCL5;F5GXA2;F8WA69;E9PCV2;F5H7Z0;P56945;B3KWE2	.;.;.;.;.;.;.;BCAR1_HUMAN;.	M	289;307;307;289;335;141;289;287;260	ENSP00000162330:V289M;ENSP00000377074:V307M;ENSP00000392708:V307M;ENSP00000443841:V289M;ENSP00000391669:V335M;ENSP00000440370:V141M;ENSP00000377072:V289M;ENSP00000440415:V287M;ENSP00000442161:V260M	ENSP00000162330:V289M	V	-	1	0	BCAR1	73828328	0.976000	0.34144	0.980000	0.43619	0.703000	0.40648	2.234000	0.43035	2.199000	0.70637	0.549000	0.68633	GTG		0.632	BCAR1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000269017.1	NM_014567		T	75270827	C	T	75270827	3	4	651	1	0	0	0	0	1	0	0	0	1348	536	19	1	1817	1	BCAR1	16	75270827	Missense_Mutation	SNP	C	TCGA-KM-8443-01A-11D-2310-10		75270827	15083926	47	40368										
SMCHD1	23347	mdanderson.org	37	chr18	2707619	2707619	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	atgaattattgcctaatgagGttaggcctgctggaacccct	10	9	0	2	rs2276092	byFrequency	TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr18:2707619G>A	ENST00000320876.6	+	16	2460	c.2122G>A	c.(2122-2124)Gtt>Att	p.V708I	SMCHD1_ENST00000261598.8_Missense_Mutation_p.V708I|RP11-703M24.5_ENST00000583546.1_RNA	NM_015295.2	NP_056110.2	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible hinge domain containing 1	708			V -> I (in dbSNP:rs2276092).		chromosome organization (GO:0051276)|inactivation of X chromosome by DNA methylation (GO:0060821)	Barr body (GO:0001740)	ATP binding (GO:0005524)			NS(3)|breast(3)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(16)|lung(15)|pancreas(1)	45						GCCTAATGAGGTTAGGCCTGC	0.363													A|||	3457	0.690296	0.7141	0.7839	5008	,	,		14767	0.6528		0.6909	False		,,,				2504	0.6299															0								A	ILE/VAL	2659,981		969,721,130	179	168	171		2122	0.4	0.4	18	dbSNP_100	171	5737,2423		2009,1719,352	yes	missense	SMCHD1	NM_015295.2	29	2978,2440,482	AA,AG,GG		29.6936,26.9505,28.8475	benign	708/2006	2707619	8396,3404	1820	4080	5900	SO:0001583	missense	23347			AB014550	CCDS45822.1	18p11.32	2010-05-12			ENSG00000101596	ENSG00000101596			29090	protein-coding gene	gene with protein product		614982				9734811	Standard	NM_015295		Approved	KIAA0650	uc002klm.4	A6NHR9		ENST00000320876.6:c.2122G>A	18.37:g.2707619G>A	ENSP00000326603:p.Val708Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O75141|Q6AHX6|Q6ZTQ8|Q9H6Q2|Q9UG39	Missense_Mutation	SNP	ENST00000320876.6	37	CCDS45822.1	1490	0.6822344322344323	354	0.7195121951219512	279	0.7707182320441989	348	0.6083916083916084	509	0.6715039577836411	A	11.19	1.566563	0.28003	0.730495	0.703064	ENSG00000101596	ENST00000320876;ENST00000261598	T;T	0.22539	1.95;1.95	5.46	0.384	0.16244	.	0.723872	0.12914	N	0.428667	T	0.00012	0.0000	N	0.24115	0.695	0.80722	P	0.0	B	0.02656	0.0	B	0.04013	0.001	T	0.19031	-1.0318	9	0.18710	T	0.47	-1.9438	11.4814	0.50328	0.4902:0.0:0.5098:0.0	rs2276092;rs61228446;rs2276092	708	A6NHR9	SMHD1_HUMAN	I	708	ENSP00000326603:V708I;ENSP00000261598:V708I	ENSP00000261598:V708I	V	+	1	0	SMCHD1	2697619	0.000000	0.05858	0.397000	0.26308	0.982000	0.71751	0.281000	0.18810	-0.155000	0.11098	-0.360000	0.07572	GTT		0.363	SMCHD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441082.2			A	2707619	G	A	2707619	3	1	651	1	0	0	0	0	1	0	0	0	14801	1261	44	2	2184	2	SMCHD1	18	2707619	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10		2707619	75369629	48	40369										
SERPINB3	6317	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr18	61323171	61323171	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	ccattcccatggttctcaacGtgtccttgaggtcatagctc	8	13	2	1	rs377088096		TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr18:61323171G>A	ENST00000283752.5	-	8	1036	c.893C>T	c.(892-894)aCg>aTg	p.T298M	SERPINB3_ENST00000332821.8_Missense_Mutation_p.T246M|SERPINB11_ENST00000489748.1_RNA	NM_006919.2	NP_008850.1	P29508	SPB3_HUMAN	serpin peptidase inhibitor, clade B (ovalbumin), member 3	298					negative regulation of catalytic activity (GO:0043086)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of peptidase activity (GO:0010466)|negative regulation of proteolysis (GO:0045861)|regulation of proteolysis (GO:0030162)|response to virus (GO:0009615)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|vesicle (GO:0031982)	serine-type endopeptidase inhibitor activity (GO:0004867)|virus receptor activity (GO:0001618)	p.T298M(1)		breast(2)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(14)|ovary(1)|skin(5)|upper_aerodigestive_tract(2)	36						GGTTCTCAACGTGTCCTTGAG	0.488																																																1	Substitution - Missense(1)	lung(1)						G	MET/THR	1,4405	2.1+/-5.4	0,1,2202	180	154	163		893	-3.2	0	18		163	0,8600		0,0,4300	no	missense	SERPINB3	NM_006919.2	81	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	probably-damaging	298/391	61323171	1,13005	2203	4300	6503	SO:0001583	missense	6317			U19568	CCDS11987.1	18q21.3	2014-02-18	2005-08-18		ENSG00000057149	ENSG00000057149		"Serine (or cysteine) peptidase inhibitors"	10569	protein-coding gene	gene with protein product		600517	"serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 3"	SCC, SCCA1		7724531, 24172014	Standard	NM_006919		Approved	T4-A, HsT1196	uc002lji.3	P29508	OTTHUMG00000060403	ENST00000283752.5:c.893C>T	18.37:g.61323171G>A	ENSP00000283752:p.Thr298Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDM2|B2RBT5|B3W5Y6|Q53H28|Q53YB5|Q86VF3|Q86W04|Q8IWL4|Q8IXI3|Q96J21|Q9BYF8	Missense_Mutation	SNP	ENST00000283752.5	37	CCDS11987.1	.	.	.	.	.	.	.	.	.	.	G	8.978	0.974626	0.18736	2.27E-4	0.0	ENSG00000057149	ENST00000283752;ENST00000332821	D;D	0.84800	-1.9;-1.9	3.07	-3.17	0.05202	Serpin domain (3);	1.383540	0.04944	N	0.459085	D	0.87732	0.6251	M	0.80746	2.51	0.09310	N	1	B;D	0.55385	0.334;0.971	B;P	0.47941	0.146;0.562	T	0.81123	-0.1076	10	0.66056	D	0.02	.	11.7335	0.51752	0.6699:0.0:0.3301:0.0	.	246;298	P29508-2;P29508	.;SPB3_HUMAN	M	298;246	ENSP00000283752:T298M;ENSP00000329498:T246M	ENSP00000283752:T298M	T	-	2	0	SERPINB3	59474151	0.000000	0.05858	0.000000	0.03702	0.034000	0.12701	-3.514000	0.00445	-0.831000	0.04256	-0.403000	0.06358	ACG		0.488	SERPINB3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000133791.1	NM_006919		A	61323171	G	A	61323171	3	1	651	1	0	0	0	0	1	0	0	0	14115	1145	40	1	283	1	SERPINB3	18	61323171	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10	58615552	61323171	16754077	49	40370										
SEMA6B	10501	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	4557004	4557004	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	acacacgtttatgtcgctggGgttagatctccaggtcagct	11	10	2	1			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr19:4557004G>A	ENST00000586582.1	-	5	638	c.328C>T	c.(328-330)Ccc>Tcc	p.P110S	SEMA6B_ENST00000586965.1_Missense_Mutation_p.P110S|SEMA6B_ENST00000301293.3_Missense_Mutation_p.P110S	NM_032108.3	NP_115484.2	Q9H3T3	SEM6B_HUMAN	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B	110	Sema. {ECO:0000255|PROSITE- ProRule:PRU00352}.				cell differentiation (GO:0030154)|nervous system development (GO:0007399)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	receptor activity (GO:0004872)			breast(1)|central_nervous_system(2)|large_intestine(4)|lung(11)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	21		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		ATGTCGCTGGGGTTAGATCTC	0.627																																																0													66	47	54					19																	4557004		2203	4299	6502	SO:0001583	missense	10501			AB022433	CCDS12131.1	19p13.3	2008-07-22				ENSG00000167680		"Semaphorins"	10739	protein-coding gene	gene with protein product	"Sema VIb", "semaphorin Z", "semaphorin VIB"	608873		SEMAN		9361278	Standard	NM_032108		Approved	semaZ, SEMA-VIB, SEM-SEMA-Y	uc010dud.2	Q9H3T3		ENST00000586582.1:c.328C>T	19.37:g.4557004G>A	ENSP00000467290:p.Pro110Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKU4|F6IB19|Q9NRK9	Missense_Mutation	SNP	ENST00000586582.1	37	CCDS12131.1	.	.	.	.	.	.	.	.	.	.	G	13.24	2.178855	0.38511	.	.	ENSG00000167680	ENST00000301293;ENST00000301292	T	0.10192	2.9	3.7	3.7	0.42460	WD40/YVTN repeat-like-containing domain (1);Semaphorin/CD100 antigen (4);	0.291091	0.33631	N	0.004705	T	0.17152	0.0412	L	0.33710	1.025	0.32361	N	0.557213	B;P	0.46064	0.126;0.872	B;P	0.53988	0.145;0.739	T	0.05084	-1.0907	10	0.62326	D	0.03	.	14.532	0.67934	0.0:0.0:1.0:0.0	.	110;110	B4DT36;Q9H3T3	.;SEM6B_HUMAN	S	110	ENSP00000301293:P110S	ENSP00000301292:P110S	P	-	1	0	SEMA6B	4508004	0.995000	0.38212	0.995000	0.50966	0.234000	0.25298	3.531000	0.53546	2.084000	0.62774	0.313000	0.20887	CCC		0.627	SEMA6B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458656.2	NM_032108		A	4557004	G	A	4557004	3	1	651	1	0	0	0	0	1	0	0	0	14053	1232	43	2	2390	2	SEMA6B	19	4557004	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10		4557004	54571979	50	40371										
CLEC4G	339390	ucsc.edu	37	chr19	7796207	7796207	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	gccgcgcgctccgtggaggcTgaggagagaggctcctgcag	18	12	0	2			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr19:7796207T>C	ENST00000328853.5	-	3	235		c.e3-2		CLEC4G_ENST00000598081.1_5'UTR	NM_001244856.1|NM_198492.3	NP_001231785.1|NP_940894.1	Q6UXB4	CLC4G_HUMAN	C-type lectin domain family 4, member G							integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)			breast(1)|cervix(2)|endometrium(1)|large_intestine(1)|lung(1)	6						CCGTGGAGGCTGAGGAGAGAG	0.751																																					Esophageal Squamous(146;540 1807 3349 19438 30853)											0													6	6	6					19																	7796207		2130	4188	6318	SO:0001630	splice_region_variant	339390			AY358431	CCDS12185.1	19p13.2	2010-04-27	2008-11-04			ENSG00000182566		"C-type lectin domain containing"	24591	protein-coding gene	gene with protein product			"C-type lectin superfamily 4, member G"			12975309	Standard	NM_198492		Approved	UNQ431, LSECtin	uc002mhp.4	Q6UXB4		ENST00000328853.5:c.167-2A>G	19.37:g.7796207T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Splice_Site	SNP	ENST00000328853.5	37	CCDS12185.1	.	.	.	.	.	.	.	.	.	.	T	14.07	2.427072	0.43122	.	.	ENSG00000182566	ENST00000328853	.	.	.	3.47	3.47	0.39725	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	8.6526	0.34044	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	CLEC4G	7702207	0.996000	0.38824	0.935000	0.37517	0.179000	0.23085	1.767000	0.38501	1.801000	0.52704	0.454000	0.30748	.		0.751	CLEC4G-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000461989.1	NM_198492	Intron	C	7796207	T	C	7796207	5	2	651	1	0	0	0	0	0	0	1	0	3519	1594	55	3	744	3	CLEC4G	19	7796207	Splice_Site	SNP	T	TCGA-KM-8443-01A-11D-2310-10	3239203	7796207	51332776	51	40372										
MYO1F	4542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	8615207	8615207	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	tctcctgcagtcgcccgctgTcaatgcccagcaggtaggcg	12	15	2	0			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr19:8615207T>A	ENST00000338257.8	-	10	1205	c.938A>T	c.(937-939)gAc>gTc	p.D313V	AC092316.1_ENST00000598703.1_RNA	NM_012335.3	NP_036467.2	O00160	MYO1F_HUMAN	myosin IF	313	Myosin motor.				defense response to Gram-positive bacterium (GO:0050830)|negative regulation of cell adhesion (GO:0007162)|neutrophil degranulation (GO:0043312)|positive regulation of cell migration (GO:0030335)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of innate immune response (GO:0045088)	cortical actin cytoskeleton (GO:0030864)|filamentous actin (GO:0031941)|unconventional myosin complex (GO:0016461)	actin binding (GO:0003779)|ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(6)|large_intestine(7)|lung(13)|ovary(3)|prostate(3)|skin(3)|urinary_tract(1)	42						TCGCCCGCTGTCAATGCCCAG	0.627																																																0													19	22	21					19																	8615207		2022	4193	6215	SO:0001583	missense	4542			X98411	CCDS42494.1	19p13.3-p13.2	2011-09-27			ENSG00000142347	ENSG00000142347		"Myosins / Myosin superfamily : Class I"	7600	protein-coding gene	gene with protein product		601480				9119401, 8884266	Standard	NM_012335		Approved		uc002mkg.3	O00160	OTTHUMG00000156005	ENST00000338257.8:c.938A>T	19.37:g.8615207T>A	ENSP00000344871:p.Asp313Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WWN7	Missense_Mutation	SNP	ENST00000338257.8	37	CCDS42494.1	.	.	.	.	.	.	.	.	.	.	T	23.4	4.411157	0.83340	.	.	ENSG00000142347	ENST00000305795;ENST00000338257	D	0.90676	-2.71	5.14	5.14	0.70334	Myosin head, motor domain (2);	0.332056	0.30714	N	0.009038	D	0.94098	0.8108	M	0.91612	3.225	0.80722	D	1	P;P	0.36909	0.573;0.573	P;B	0.45119	0.47;0.367	D	0.94932	0.8083	10	0.87932	D	0	.	14.1276	0.65233	0.0:0.0:0.0:1.0	.	313;313	B0I1T1;O00160	.;MYO1F_HUMAN	V	358;313	ENSP00000344871:D313V	ENSP00000304899:D358V	D	-	2	0	MYO1F	8521207	1.000000	0.71417	0.816000	0.32577	0.926000	0.56050	6.235000	0.72332	1.941000	0.56285	0.455000	0.32223	GAC		0.627	MYO1F-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342716.2			A	8615207	T	A	8615207	3	1	651	1	0	0	0	0	1	0	0	0	10080	1667	58	5	2434	5	MYO1F	19	8615207	Missense_Mutation	SNP	T	TCGA-KM-8443-01A-11D-2310-10	819000	8615207	50513776	52	40373										
RFX1	5989	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	14076447	14076447	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	cgagcactcactggggatggGccgcagcacgtcgggaatga	16	11	1	1			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr19:14076447G>A	ENST00000254325.4	-	15	2338	c.2104C>T	c.(2104-2106)Ccc>Tcc	p.P702S		NM_002918.4	NP_002909.4	P22670	RFX1_HUMAN	regulatory factor X, 1 (influences HLA class II expression)	702					immune response (GO:0006955)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)			NS(1)|breast(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(8)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	21			OV - Ovarian serous cystadenocarcinoma(19;6.67e-23)			CTGGGGATGGGCCGCAGCACG	0.662																																																0													75	59	64					19																	14076447		2202	4300	6502	SO:0001583	missense	5989				CCDS12301.1	19p13.1	2008-07-17				ENSG00000132005			9982	protein-coding gene	gene with protein product	"trans-acting regulatory factor 1", "enhancer factor C", "MHC class II regulatory factor RFX"	600006				1505960, 8289803	Standard	NM_002918		Approved	EF-C	uc002mxv.3	P22670		ENST00000254325.4:c.2104C>T	19.37:g.14076447G>A	ENSP00000254325:p.Pro702Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000254325.4	37	CCDS12301.1	.	.	.	.	.	.	.	.	.	.	G	22.1	4.239777	0.79912	.	.	ENSG00000132005	ENST00000254325	T	0.07567	3.18	4.09	4.09	0.47781	.	0.000000	0.85682	D	0.000000	T	0.24890	0.0604	M	0.66939	2.045	0.80722	D	1	D	0.76494	0.999	D	0.73380	0.98	T	0.01781	-1.1275	10	0.29301	T	0.29	-27.3527	15.2377	0.73443	0.0:0.0:1.0:0.0	.	702	P22670	RFX1_HUMAN	S	702	ENSP00000254325:P702S	ENSP00000254325:P702S	P	-	1	0	RFX1	13937447	1.000000	0.71417	1.000000	0.80357	0.910000	0.53928	9.565000	0.98154	2.100000	0.63781	0.462000	0.41574	CCC		0.662	RFX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458510.1	NM_002918		A	14076447	G	A	14076447	3	1	651	1	0	0	0	0	1	0	0	0	13275	1203	42	2	863	2	RFX1	19	14076447	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10	5461240	14076447	45052536	53	40374										
CYP4F2	8529	broad.mit.edu	37	chr19	16000303	16000303	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	tggcttggaggaagtcatcaAcaccctggctagggagagtg	15	8	2	1			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr19:16000303A>G	ENST00000221700.6	-	7	943	c.848T>C	c.(847-849)gTt>gCt	p.V283A	CYP4F2_ENST00000011989.7_Missense_Mutation_p.V134A	NM_001082.3	NP_001073.3			cytochrome P450, family 4, subfamily F, polypeptide 2											NS(2)|breast(1)|endometrium(6)|kidney(2)|large_intestine(9)|liver(1)|lung(18)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	46						GAAGTCATCAACACCCTGGCT	0.577																																																0													78	74	76					19																	16000303		2203	4300	6503	SO:0001583	missense	8529			U02388	CCDS12336.1	19p13.12	2013-11-11	2003-01-14		ENSG00000186115	ENSG00000186115		"Cytochrome P450s"	2645	protein-coding gene	gene with protein product		604426	"cytochrome P450, subfamily IVF, polypeptide 2"			8424651, 8026587	Standard	NM_001082		Approved		uc002nbs.1	P78329	OTTHUMG00000185995	ENST00000221700.6:c.848T>C	19.37:g.16000303A>G	ENSP00000221700:p.Val283Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000221700.6	37	CCDS12336.1	.	.	.	.	.	.	.	.	.	.	a	0.523	-0.861336	0.02610	.	.	ENSG00000186115	ENST00000221700;ENST00000392846;ENST00000011989	T;T	0.69806	-0.43;1.94	2.72	-1.14	0.09741	.	1.188650	0.06624	U	0.757982	T	0.47322	0.1439	L	0.33245	0.995	0.09310	N	1	B;B	0.06786	0.001;0.001	B;B	0.11329	0.006;0.005	T	0.19745	-1.0296	10	0.11485	T	0.65	.	2.902	0.05708	0.5057:0.0:0.2878:0.2066	.	134;283	B4DV75;P78329	.;CP4F2_HUMAN	A	283;134;134	ENSP00000221700:V283A;ENSP00000011989:V134A	ENSP00000011989:V134A	V	-	2	0	CYP4F2	15861303	0.000000	0.05858	0.001000	0.08648	0.803000	0.45373	-0.291000	0.08343	-0.171000	0.10797	0.254000	0.18369	GTT		0.577	CYP4F2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460372.3	NM_001082		G	16000303	A	G	16000303	3	3	651	1	0	0	0	0	1	0	0	0	4190	43	2	3	742	3	CYP4F2	19	16000303	Missense_Mutation	SNP	A	TCGA-KM-8443-01A-11D-2310-10	1923856	16000303	43128680	54	40375										
RYR1	6261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	38976258	38976258	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	acatcctggagctgtcggagCgcctggacctgcagcgcttc	13	14	0	0	rs371777056		TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr19:38976258C>T	ENST00000359596.3	+	34	4963	c.4963C>T	c.(4963-4965)Cgc>Tgc	p.R1655C	RYR1_ENST00000355481.4_Missense_Mutation_p.R1655C|RYR1_ENST00000360985.3_Missense_Mutation_p.R1655C			P21817	RYR1_HUMAN	ryanodine receptor 1 (skeletal)	1655	6 X approximate repeats.				calcium ion transport (GO:0006816)|cellular response to caffeine (GO:0071313)|cytosolic calcium ion homeostasis (GO:0051480)|ion transmembrane transport (GO:0034220)|muscle contraction (GO:0006936)|ossification involved in bone maturation (GO:0043931)|outflow tract morphogenesis (GO:0003151)|release of sequestered calcium ion into cytosol (GO:0051209)|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0014808)|response to caffeine (GO:0031000)|response to hypoxia (GO:0001666)|skeletal muscle fiber development (GO:0048741)|skin development (GO:0043588)|transmembrane transport (GO:0055085)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|I band (GO:0031674)|integral component of plasma membrane (GO:0005887)|junctional membrane complex (GO:0030314)|junctional sarcoplasmic reticulum membrane (GO:0014701)|plasma membrane (GO:0005886)|sarcoplasmic reticulum (GO:0016529)|sarcoplasmic reticulum membrane (GO:0033017)|smooth endoplasmic reticulum (GO:0005790)|T-tubule (GO:0030315)|terminal cisterna (GO:0014802)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)|calcium-release channel activity (GO:0015278)|calmodulin binding (GO:0005516)|ryanodine-sensitive calcium-release channel activity (GO:0005219)|voltage-gated calcium channel activity (GO:0005245)			NS(4)|autonomic_ganglia(2)|breast(3)|central_nervous_system(5)|endometrium(26)|haematopoietic_and_lymphoid_tissue(3)|kidney(34)|large_intestine(42)|liver(1)|lung(106)|ovary(11)|pancreas(5)|prostate(9)|skin(12)|stomach(11)|upper_aerodigestive_tract(4)|urinary_tract(7)	285	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Caffeine(DB00201)|Dantrolene(DB01219)|Suramin(DB04786)	GCTGTCGGAGCGCCTGGACCT	0.627																																																0								C	CYS/ARG,CYS/ARG	1,4399		0,1,2199	44	42	42		4963,4963	4	1	19		42	0,8586		0,0,4293	no	missense,missense	RYR1	NM_000540.2,NM_001042723.1	180,180	0,1,6492	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging,probably-damaging	1655/5039,1655/5034	38976258	1,12985	2200	4293	6493	SO:0001583	missense	6261			J05200	CCDS33011.1, CCDS42563.1	19q13.1	2014-09-17				ENSG00000196218		"Ion channels / Ryanodine receptors"	10483	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 137"	180901	"central core disease of muscle"	MHS, MHS1, CCO		1862346, 16621918	Standard	NM_000540		Approved	RYR, PPP1R137	uc002oit.3	P21817		ENST00000359596.3:c.4963C>T	19.37:g.38976258C>T	ENSP00000352608:p.Arg1655Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q16314|Q16368|Q9NPK1|Q9P1U4	Missense_Mutation	SNP	ENST00000359596.3	37	CCDS33011.1	.	.	.	.	.	.	.	.	.	.	C	17.33	3.362048	0.61403	2.27E-4	0.0	ENSG00000196218	ENST00000359596;ENST00000355481;ENST00000360985	D;D;D	0.96830	-4.14;-4.14;-4.14	3.98	3.98	0.46160	.	0.078316	0.48767	U	0.000169	D	0.97081	0.9046	L	0.51422	1.61	0.53005	D	0.999962	D;D	0.89917	1.0;0.999	D;D	0.75020	0.985;0.973	D	0.97725	1.0199	10	0.66056	D	0.02	.	15.8478	0.78905	0.0:1.0:0.0:0.0	.	1655;1655	P21817-2;P21817	.;RYR1_HUMAN	C	1655	ENSP00000352608:R1655C;ENSP00000347667:R1655C;ENSP00000354254:R1655C	ENSP00000347667:R1655C	R	+	1	0	RYR1	43668098	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.839000	0.69395	2.043000	0.60533	0.650000	0.86243	CGC		0.627	RYR1-010	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000462137.1			T	38976258	C	T	38976258	3	4	651	1	0	0	0	0	1	0	0	0	13781	768	27	1	5097	1	RYR1	19	38976258	Missense_Mutation	SNP	C	TCGA-KM-8443-01A-11D-2310-10	22975955	38976258	20152725	55	40376										
RSPH6A	81492	ucsc.edu	37	chr19	46318402	46318402	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	cggcccggaggctgctgggcAgggcgctcagggtagggcgg	22	11	1	0			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr19:46318402A>G	ENST00000221538.3	-	1	175	c.33T>C	c.(31-33)ccT>ccC	p.P11P	SYMPK_ENST00000598155.1_5'Flank|RSPH6A_ENST00000597055.1_Silent_p.P11P	NM_030785.3	NP_110412.1	Q9H0K4	RSH6A_HUMAN	radial spoke head 6 homolog A (Chlamydomonas)	11						intracellular (GO:0005622)				central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(6)|liver(1)|lung(14)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	32						GCTGCTGGGCAGGGCGCTCAG	0.677																																																0													12	13	13					19																	46318402		2190	4279	6469	SO:0001819	synonymous_variant	81492			AL136761	CCDS12675.1	19q13.3	2010-02-17	2009-11-18	2009-11-18	ENSG00000104941	ENSG00000104941			14241	protein-coding gene	gene with protein product		607548	"radial spokehead-like 1"	RSHL1		11237735	Standard	NM_030785		Approved	RSP4, RSP6, RSPH4B	uc002pdm.3	Q9H0K4		ENST00000221538.3:c.33T>C	19.37:g.46318402A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q53FE2|Q6PEZ9	Silent	SNP	ENST00000221538.3	37	CCDS12675.1																																																																																				0.677	RSPH6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000461657.1			G	46318402	A	G	46318402	2	3	651	1	0	0	0	0	0	0	0	1	13720	175	7	3		3	RSPH6A	19	46318402	Silent	SNP	A	TCGA-KM-8443-01A-11D-2310-10	7342144	46318402	12810581	56	40377										
EHD2	30846	broad.mit.edu;bcgsc.ca	37	chr19	48220038	48220038	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	tggaggacgcagacttcgacGgcaagcccatggtgctggtg	16	10	0	1	rs34140460	byFrequency	TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr19:48220038G>A	ENST00000263277.3	+	2	420	c.169G>A	c.(169-171)Ggc>Agc	p.G57S	CTD-2571L23.8_ENST00000599924.1_lincRNA|EHD2_ENST00000538399.1_Intron	NM_014601.3	NP_055416.2	Q9NZN4	EHD2_HUMAN	EH-domain containing 2	57	Dynamin-type G.		G -> S (in dbSNP:rs34140460).		blood coagulation (GO:0007596)|cortical actin cytoskeleton organization (GO:0030866)|endocytic recycling (GO:0032456)|endocytosis (GO:0006897)|positive regulation of endocytic recycling (GO:2001137)|positive regulation of myoblast fusion (GO:1901741)|protein localization to plasma membrane (GO:0072659)	caveola (GO:0005901)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|recycling endosome membrane (GO:0055038)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|nucleic acid binding (GO:0003676)			endometrium(3)|large_intestine(7)|lung(2)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)	19		all_cancers(25;6.74e-07)|all_lung(116;2.02e-05)|Lung NSC(112;3.77e-05)|all_epithelial(76;4.89e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		OV - Ovarian serous cystadenocarcinoma(262;0.000336)|all cancers(93;0.000415)|Epithelial(262;0.0132)|GBM - Glioblastoma multiforme(486;0.0537)		AGACTTCGACGGCAAGCCCAT	0.682													G|||	6	0.00119808	0.0045	0.0	5008	,	,		16363	0.0		0.0	False		,,,				2504	0.0															0								G	SER/GLY	16,4390	22.3+/-47.3	0,16,2187	38	31	33		169	2.7	1	19	dbSNP_126	33	0,8600		0,0,4300	yes	missense	EHD2	NM_014601.3	56	0,16,6487	AA,AG,GG		0.0,0.3631,0.123	benign	57/544	48220038	16,12990	2203	4300	6503	SO:0001583	missense	30846			AF181263	CCDS12704.1	19q13.3	2014-08-12			ENSG00000024422	ENSG00000024422		"EF-hand domain containing"	3243	protein-coding gene	gene with protein product		605890		PAST2		10673336	Standard	NM_014601		Approved		uc002phj.4	Q9NZN4	OTTHUMG00000183266	ENST00000263277.3:c.169G>A	19.37:g.48220038G>A	ENSP00000263277:p.Gly57Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDH9|B4DNU6|Q96CB6	Missense_Mutation	SNP	ENST00000263277.3	37	CCDS12704.1	3	0.0013736263736263737	3	0.006097560975609756	0	0.0	0	0.0	0	0.0	G	11.14	1.551905	0.27739	0.003631	0.0	ENSG00000024422	ENST00000263277;ENST00000539439;ENST00000540364	D	0.95342	-3.68	3.75	2.7	0.31948	.	0.182929	0.46758	N	0.000267	T	0.75946	0.3919	N	0.02539	-0.55	0.80722	D	1	B	0.11235	0.004	B	0.08055	0.003	T	0.68938	-0.5277	10	0.17369	T	0.5	-30.8741	6.1058	0.20073	0.2377:0.0:0.7623:0.0	rs34140460	57	Q9NZN4	EHD2_HUMAN	S	57	ENSP00000263277:G57S	ENSP00000263277:G57S	G	+	1	0	EHD2	52911850	1.000000	0.71417	1.000000	0.80357	0.915000	0.54546	3.462000	0.53042	0.931000	0.37242	0.407000	0.27541	GGC		0.682	EHD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465851.1			A	48220038	G	A	48220038	3	1	651	1	0	0	0	0	1	0	0	0	4980	1116	39	1	171	1	EHD2	19	48220038	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10	1901636	48220038	10908945	57	40378										
RNF160	26046	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr21	30331996	30331996	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	tctaacaatgattctttcaaCatatacgtctccaatcaagt	3	10	5	1			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr21:30331996C>T	ENST00000361371.5	-	13	2456	c.2377G>A	c.(2377-2379)Gtt>Att	p.V793I	LTN1_ENST00000389194.2_Missense_Mutation_p.V839I			O94822	LTN1_HUMAN	listerin E3 ubiquitin protein ligase 1	793					protein ubiquitination (GO:0016567)		ligase activity (GO:0016874)|zinc ion binding (GO:0008270)			NS(1)|central_nervous_system(1)|endometrium(4)|kidney(5)|large_intestine(12)|lung(19)|ovary(5)|pancreas(1)|prostate(2)|skin(6)|stomach(2)|upper_aerodigestive_tract(2)	60						ATTCTTTCAACATATACGTCT	0.279																																																0													36	31	33					21																	30331996		2203	4300	6503	SO:0001583	missense	26046			AK001915	CCDS33527.1, CCDS33527.2	21q21.3	2013-01-09	2010-09-17	2010-09-17	ENSG00000198862	ENSG00000198862		"RING-type (C3HC4) zinc fingers"	13082	protein-coding gene	gene with protein product	"listerin"	613083	"chromosome 21 open reading frame 98", "zinc finger protein 294", "ring finger protein 160"	C21orf98, C21orf10, ZNF294, RNF160		20835226, 19196968	Standard	NM_015565		Approved	KIAA0714, FLJ11053, LISTERIN	uc002ymr.2	O94822	OTTHUMG00000078803	ENST00000361371.5:c.2377G>A	21.37:g.30331996C>T	ENSP00000354977:p.Val793Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NL41|A7E2D0|B2RTS0|C9J7U3|J3KPL4|Q05C47|Q9H8M4|Q9NUY5|Q9P0E9	Missense_Mutation	SNP	ENST00000361371.5	37		.	.	.	.	.	.	.	.	.	.	C	14.19	2.460243	0.43736	.	.	ENSG00000198862	ENST00000389194;ENST00000361371	T;T	0.19532	2.14;2.15	5.65	2.78	0.32641	.	0.346007	0.30602	N	0.009270	T	0.10035	0.0246	N	0.08118	0	0.51767	D	0.999939	B	0.24721	0.11	B	0.16722	0.016	T	0.11966	-1.0566	10	0.54805	T	0.06	.	8.7649	0.34698	0.1226:0.7461:0.0:0.1313	.	793	O94822	LTN1_HUMAN	I	839;793	ENSP00000373846:V839I;ENSP00000354977:V793I	ENSP00000354977:V793I	V	-	1	0	LTN1	29253867	1.000000	0.71417	0.994000	0.49952	0.599000	0.36880	1.160000	0.31761	0.911000	0.36747	0.655000	0.94253	GTT		0.279	LTN1-008	NOVEL	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000472108.1	NM_015565		T	30331996	C	T	30331996	3	4	651	1	0	0	0	0	1	0	0	0	13468	478	17	2	2995	2	RNF160	21	30331996	Missense_Mutation	SNP	C	TCGA-KM-8443-01A-11D-2310-10		30331996	17797899	58	40379										
MX2	4600	bcgsc.ca	37	chr21	42770882	42770882	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	ccaccagaaggcgaccgaggAgctgcggcgttgcggggctg	18	12	0	1			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr21:42770882A>G	ENST00000330714.3	+	9	1392	c.1208A>G	c.(1207-1209)gAg>gGg	p.E403G	MX2_ENST00000496774.1_3'UTR	NM_002463.1	NP_002454.1	P20592	MX2_HUMAN	MX dynamin-like GTPase 2	403					cytokine-mediated signaling pathway (GO:0019221)|defense response (GO:0006952)|defense response to virus (GO:0051607)|GTP catabolic process (GO:0006184)|mRNA transport (GO:0051028)|protein transport (GO:0015031)|regulation of cell cycle (GO:0051726)|regulation of nucleocytoplasmic transport (GO:0046822)|response to interferon-alpha (GO:0035455)|response to virus (GO:0009615)|type I interferon signaling pathway (GO:0060337)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear pore (GO:0005643)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			breast(2)|endometrium(3)|large_intestine(6)|lung(12)|ovary(2)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(3)	34		Prostate(19;1.57e-07)|all_epithelial(19;0.0222)				GCGACCGAGGAGCTGCGGCGT	0.517																																																0													82	87	86					21																	42770882		2203	4300	6503	SO:0001583	missense	4600				CCDS13672.1	21q22.3	2014-07-15	2014-07-15		ENSG00000183486	ENSG00000183486			7533	protein-coding gene	gene with protein product	"interferon-regulated resistance GTP-binding protein MXB", "second interferon-induced protein p78"	147890	"myxovirus (influenza) resistance 2, homolog of murine", "myxovirus (influenza virus) resistance 2 (mouse)"			2481229, 8798556	Standard	NM_002463		Approved	MXB	uc002yzf.1	P20592	OTTHUMG00000086753	ENST00000330714.3:c.1208A>G	21.37:g.42770882A>G	ENSP00000333657:p.Glu403Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z5D3|D3DSI7	Missense_Mutation	SNP	ENST00000330714.3	37	CCDS13672.1	.	.	.	.	.	.	.	.	.	.	A	15.80	2.940961	0.52972	.	.	ENSG00000183486	ENST00000330714	T	0.78816	-1.21	3.94	3.94	0.45596	Dynamin central domain (1);	0.110683	0.64402	D	0.000013	D	0.88411	0.6429	M	0.88570	2.965	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.89852	0.4010	10	0.87932	D	0	-27.61	10.8405	0.46712	1.0:0.0:0.0:0.0	.	403	P20592	MX2_HUMAN	G	403	ENSP00000333657:E403G	ENSP00000333657:E403G	E	+	2	0	MX2	41692752	1.000000	0.71417	0.994000	0.49952	0.066000	0.16364	3.858000	0.55979	1.731000	0.51592	0.482000	0.46254	GAG		0.517	MX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195147.1	NM_002463		G	42770882	A	G	42770882	3	3	651	1	0	0	0	0	1	0	0	0	10005	304	11	3	1238	3	MX2	21	42770882	Missense_Mutation	SNP	A	TCGA-KM-8443-01A-11D-2310-10	12438886	42770882	5359013	59	40380										
MCM3AP	8888	ucsc.edu	37	chr21	47697480	47697480	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	tctctggtcaagcaggcggtActtctccttggatgtctcag	11	11	4	0			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr21:47697480A>G	ENST00000397708.1	-	6	2073	c.1819T>C	c.(1819-1821)Tac>Cac	p.Y607H	MCM3AP_ENST00000291688.1_Missense_Mutation_p.Y607H			O60318	GANP_HUMAN	minichromosome maintenance complex component 3 associated protein	607					DNA replication (GO:0006260)|immune system process (GO:0002376)|mRNA transport (GO:0051028)|protein import into nucleus (GO:0006606)	cytosol (GO:0005829)|nuclear pore (GO:0005643)|nucleus (GO:0005634)	DNA binding (GO:0003677)|transferase activity, transferring acyl groups (GO:0016746)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(10)|kidney(5)|large_intestine(17)|lung(24)|ovary(4)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	72	Breast(49;0.112)					AGCAGGCGGTACTTCTCCTTG	0.592																																																0													163	132	143					21																	47697480		2203	4300	6503	SO:0001583	missense	8888			AB005543	CCDS13734.1	21q22.3	2012-12-19	2007-04-04		ENSG00000160294	ENSG00000160294			6946	protein-coding gene	gene with protein product	"germinal-centre associated nuclear protein"	603294	"minichromosome maintenance deficient (S. cerevisiae) 3-associated protein", "MCM3 minichromosome maintenance deficient 3 (S. cerevisiae) associated protein"			9712829, 16914116, 21195085	Standard	XM_005261205		Approved	Map80, KIAA0572, GANP, SAC3	uc002zir.1	O60318	OTTHUMG00000090630	ENST00000397708.1:c.1819T>C	21.37:g.47697480A>G	ENSP00000380820:p.Tyr607His	Somatic		WXS	Illumina HiSeq	Phase_I	C9JL56|Q2M3C1|Q6PJP6|Q9BSY5|Q9UMT4	Missense_Mutation	SNP	ENST00000397708.1	37	CCDS13734.1	.	.	.	.	.	.	.	.	.	.	A	28.5	4.927853	0.92389	.	.	ENSG00000160294	ENST00000397708;ENST00000291688	T;T	0.04706	3.57;3.57	5.74	5.74	0.90152	.	0.057126	0.64402	D	0.000001	T	0.19886	0.0478	M	0.68952	2.095	0.58432	D	0.999999	D	0.71674	0.998	D	0.78314	0.991	T	0.00189	-1.1938	10	0.45353	T	0.12	-19.4308	16.0421	0.80691	1.0:0.0:0.0:0.0	.	607	O60318	MCM3A_HUMAN	H	607	ENSP00000380820:Y607H;ENSP00000291688:Y607H	ENSP00000291688:Y607H	Y	-	1	0	MCM3AP	46521908	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.131000	0.94446	2.192000	0.70111	0.533000	0.62120	TAC		0.592	MCM3AP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207254.1	NM_003906		G	47697480	A	G	47697480	3	3	651	1	0	0	0	0	1	0	0	0	9395	391	14	3	4219	3	MCM3AP	21	47697480	Missense_Mutation	SNP	A	TCGA-KM-8443-01A-11D-2310-10	4926598	47697480	432415	60	40381										
CSF2RB	1439	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr22	37334203	37334203	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	ggtcaccaaggaacaatcctGtcccccctgaggccaaaagc	9	15	1	1			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr22:37334203G>T	ENST00000403662.3	+	14	2575	c.2353G>T	c.(2353-2355)Gtc>Ttc	p.V785F	CSF2RB_ENST00000406230.1_Missense_Mutation_p.V791F|CSF2RB_ENST00000262825.5_Missense_Mutation_p.V791F|CSF2RB_ENST00000536485.1_Missense_Mutation_p.V732F			P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta, low-affinity (granulocyte-macrophage)	785					cellular response to interleukin-3 (GO:0036016)|interleukin-3-mediated signaling pathway (GO:0038156)|interleukin-5-mediated signaling pathway (GO:0038043)|respiratory gaseous exchange (GO:0007585)|response to lipopolysaccharide (GO:0032496)|signal transduction (GO:0007165)	granulocyte macrophage colony-stimulating factor receptor complex (GO:0030526)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cytokine receptor activity (GO:0004896)|receptor activity (GO:0004872)			breast(2)|endometrium(2)|kidney(1)|large_intestine(8)|lung(18)|ovary(3)|pancreas(1)|skin(5)|upper_aerodigestive_tract(2)	42					Sargramostim(DB00020)	GAACAATCCTGTCCCCCCTGA	0.642																																																0													52	51	51					22																	37334203		2203	4300	6503	SO:0001583	missense	1439			M59941	CCDS13936.1	22q12.3	2014-09-09			ENSG00000100368	ENSG00000100368		"CD molecules", "Fibronectin type III domain containing"	2436	protein-coding gene	gene with protein product		138981		IL3RB		1833064, 1424804	Standard	NM_000395		Approved	IL5RB, CD131	uc003aqa.4	P32927	OTTHUMG00000150546	ENST00000403662.3:c.2353G>T	22.37:g.37334203G>T	ENSP00000384053:p.Val785Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JZI1|Q6ICE0	Missense_Mutation	SNP	ENST00000403662.3	37	CCDS13936.1	.	.	.	.	.	.	.	.	.	.	G	15.85	2.954914	0.53293	.	.	ENSG00000100368	ENST00000403662;ENST00000539104;ENST00000262825;ENST00000406230;ENST00000536485	D;D;D;D	0.92397	-2.52;-3.03;-3.03;-3.03	5.38	1.62	0.23740	.	0.614872	0.14560	N	0.312136	D	0.88994	0.6589	L	0.29908	0.895	0.09310	N	1	D;D	0.61080	0.986;0.989	P;P	0.54100	0.742;0.726	T	0.79964	-0.1581	10	0.52906	T	0.07	-8.6352	5.7541	0.18162	0.1998:0.1672:0.633:0.0	.	791;785	P32927-2;P32927	.;IL3RB_HUMAN	F	785;785;791;791;732	ENSP00000384053:V785F;ENSP00000262825:V791F;ENSP00000385271:V791F;ENSP00000440003:V732F	ENSP00000262825:V791F	V	+	1	0	CSF2RB	35664149	0.000000	0.05858	0.002000	0.10522	0.004000	0.04260	0.125000	0.15749	0.632000	0.30432	0.555000	0.69702	GTC		0.642	CSF2RB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318854.1	NM_000395		T	37334203	G	T	37334203	3	4	651	1	0	0	0	0	1	0	0	0	3937	1377	48	4	2403	4	CSF2RB	22	37334203	Missense_Mutation	SNP	G	TCGA-KM-8443-01A-11D-2310-10		37334203	13970363	61	40382										
TTLL1	25809	broad.mit.edu	37	chr22	43459837	43459837	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	accccgtgtttctggatggcGacgttggtgagatgaacgaa	14	8	1	2			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr22:43459837G>A	ENST00000266254.7	-	7	969	c.729C>T	c.(727-729)gtC>gtT	p.V243V	TTLL1_ENST00000331018.7_Silent_p.V243V	NM_012263.4	NP_036395.1	O95922	TTLL1_HUMAN	tubulin tyrosine ligase-like family, member 1	243	TTL. {ECO:0000255|PROSITE- ProRule:PRU00568}.				axoneme assembly (GO:0035082)|epithelial cilium movement (GO:0003351)|protein polyglutamylation (GO:0018095)	cytoplasm (GO:0005737)|microtubule (GO:0005874)	tubulin-glutamic acid ligase activity (GO:0070740)			breast(3)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(7)|ovary(1)|skin(2)|stomach(1)	23		Ovarian(80;0.0694)		BRCA - Breast invasive adenocarcinoma(115;0.00461)		TCTGGATGGCGACGTTGGTGA	0.532																																																0													219	189	199					22																	43459837		2203	4300	6503	SO:0001819	synonymous_variant	25809			AL096886	CCDS14043.1	22q13.1	2013-02-14			ENSG00000100271	ENSG00000100271		"Tubulin tyrosine ligase-like family"	1312	protein-coding gene	gene with protein product		608955	"tubulin tyrosine ligase-like 1"	C22orf7		10591208, 11054573	Standard	NM_012263		Approved		uc003bdi.3	O95922	OTTHUMG00000150699	ENST00000266254.7:c.729C>T	22.37:g.43459837G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RDS7|Q9BR27|Q9NRS9|Q9UMU0	Silent	SNP	ENST00000266254.7	37	CCDS14043.1	.	.	.	.	.	.	.	.	.	.	G	10.04	1.241791	0.22711	.	.	ENSG00000100271	ENST00000495814	.	.	.	5.98	-12.0	0.00017	.	.	.	.	.	T	0.40815	0.1132	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.52041	-0.8628	4	.	.	.	.	5.8419	0.18639	0.4626:0.2157:0.2617:0.06	.	.	.	.	L	169	.	.	S	-	2	0	TTLL1	41789781	0.019000	0.18553	0.798000	0.32154	0.939000	0.58152	-0.794000	0.04584	-1.237000	0.02539	-0.964000	0.02622	TCG		0.532	TTLL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319659.1	NM_012263		A	43459837	G	A	43459837	2	1	651	1	0	0	0	0	0	0	0	1	16734	1045	37	1		1	TTLL1	22	43459837	Silent	SNP	G	TCGA-KM-8443-01A-11D-2310-10	6125634	43459837	7844729	62	40383										
ARHGAP8	23779	ucsc.edu	37	chr22	45243892	45243892	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	gttccggagatccgccagcgTgcagaccgtccgcgagatcc	13	15	0	3			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr22:45243892T>C	ENST00000389774.2	+	10	944	c.803T>C	c.(802-804)gTg>gCg	p.V268A	ARHGAP8_ENST00000356099.6_Missense_Mutation_p.V237A|PRR5-ARHGAP8_ENST00000361473.5_Missense_Mutation_p.V368A|ARHGAP8_ENST00000389773.5_Missense_Mutation_p.V359A|ARHGAP8_ENST00000517296.3_Missense_Mutation_p.V447A|ARHGAP8_ENST00000336963.4_Missense_Mutation_p.V237A|PRR5-ARHGAP8_ENST00000352766.7_Missense_Mutation_p.V447A	NM_001017526.1	NP_001017526.1	P85298	RHG08_HUMAN	Rho GTPase activating protein 8	268	Rho-GAP. {ECO:0000255|PROSITE- ProRule:PRU00172}.				positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of Rho GTPase activity (GO:0032321)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	Rho GTPase activator activity (GO:0005100)			breast(2)|central_nervous_system(1)|endometrium(2)|large_intestine(7)|lung(9)|prostate(1)|skin(7)	29		all_neural(38;0.00409)|Ovarian(80;0.00976)|Glioma(61;0.0649)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0204)		TCCGCCAGCGTGCAGACCGTC	0.662																																																0													66	58	61					22																	45243892		2203	4300	6503	SO:0001583	missense	553158			AF177331	CCDS14060.2, CCDS33664.1, CCDS56233.1	22q13.3	2010-05-11			ENSG00000241484	ENSG00000241484		"Rho GTPase activating proteins"	677	protein-coding gene	gene with protein product		609405				10591208	Standard	NM_001198726		Approved	FLJ20185, BPGAP1		P85298	OTTHUMG00000030234	ENST00000389774.2:c.803T>C	22.37:g.45243892T>C	ENSP00000374424:p.Val268Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6ZJ79|A6ZJ80|O75983|O95695|Q96RW1|Q96RW2|Q9HA49|Q9HC46|Q9NSG0|Q9NVX8|Q9NXL1|Q9UH20	Missense_Mutation	SNP	ENST00000389774.2	37	CCDS33664.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	t|t	2.592|2.592	-0.294895|-0.294895	0.05568|0.05568	.|.	.|.	ENSG00000248405|ENSG00000248405;ENSG00000248405;ENSG00000241484;ENSG00000241484;ENSG00000241484;ENSG00000241484;ENSG00000241484	ENST00000515632|ENST00000361473;ENST00000352766;ENST00000517296;ENST00000389773;ENST00000389774;ENST00000336963;ENST00000356099	.|T;T;T;T;T;T;T	.|0.16324	.|2.35;2.35;2.35;2.35;2.35;2.35;2.35	4.67|4.67	-0.485|-0.485	0.12067|0.12067	.|Rho GTPase-activating protein domain (4);Rho GTPase activation protein (1);	.|0.215683	.|0.23077	.|N	.|0.052192	T|T	0.06234|0.06234	0.0161|0.0161	N|N	0.05306|0.05306	-0.075|-0.075	0.09310|0.09310	N|N	1|1	.|B;B;B;B;B;B;B	.|0.15930	.|0.001;0.001;0.012;0.001;0.001;0.001;0.015	.|B;B;B;B;B;B;B	.|0.19946	.|0.008;0.008;0.011;0.002;0.012;0.01;0.027	T|T	0.42531|0.42531	-0.9446|-0.9446	5|10	.|0.09843	.|T	.|0.71	.|.	8.0784|8.0784	0.30731|0.30731	0.0:0.5089:0.0:0.4911|0.0:0.5089:0.0:0.4911	.|.	.|273;237;273;268;278;447;368	.|B7ZMA4;A6ZJ79;A2RU51;P85298;Q6PCC7;B1AHC4;B1AHC3	.|.;.;.;RHG08_HUMAN;.;.;.	R|A	291|368;447;447;359;268;237;237	.|ENSP00000354732:V368A;ENSP00000262731:V447A;ENSP00000429240:V447A;ENSP00000374423:V359A;ENSP00000374424:V268A;ENSP00000337287:V237A;ENSP00000348407:V237A	.|ENSP00000337287:V237A	C|V	+|+	1|2	0|0	PRR5-ARHGAP8|PRR5-ARHGAP8;ARHGAP8	43622556|43622556	0.208000|0.208000	0.23494|0.23494	0.002000|0.002000	0.10522|0.10522	0.092000|0.092000	0.18411|0.18411	1.180000|1.180000	0.32005|0.32005	-0.310000|-0.310000	0.08766|0.08766	-0.253000|-0.253000	0.11424|0.11424	TGC|GTG		0.662	ARHGAP8-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000075088.4	NM_017701		C	45243892	T	C	45243892	3	2	651	1	0	0	0	0	1	0	0	0	888	1696	59	3	837	3	ARHGAP8	22	45243892	Missense_Mutation	SNP	T	TCGA-KM-8443-01A-11D-2310-10	1784055	45243892	6060674	63	40384										
NUP50	10762	mdanderson.org	37	chr22	45574342	45574342	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	gatctgacacctatctttaaAgactatgagaaatatttagc	6	7	2	3			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chr22:45574342A>G	ENST00000347635.4	+	5	1030	c.564A>G	c.(562-564)aaA>aaG	p.K188K	CTA-268H5.12_ENST00000610217.1_RNA|NUP50_ENST00000425733.2_5'UTR|NUP50_ENST00000407019.2_Silent_p.K160K|NUP50_ENST00000396096.2_Silent_p.K160K	NM_007172.3	NP_009103.2	Q9UKX7	NUP50_HUMAN	nucleoporin 50kDa	188	5 X 2 AA repeats of F-G.|Binding to CDKN1B. {ECO:0000250}.				carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|intracellular transport (GO:0046907)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|protein transport (GO:0015031)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	nuclear membrane (GO:0031965)|nuclear pore (GO:0005643)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				endometrium(1)|kidney(1)|large_intestine(2)|lung(3)|skin(1)|upper_aerodigestive_tract(1)	9		Ovarian(80;0.00965)|all_neural(38;0.0244)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		CTATCTTTAAAGACTATGAGA	0.453																																																0													42	42	42					22																	45574342		2202	4296	6498	SO:0001819	synonymous_variant	10762			AF107840	CCDS14062.1, CCDS14063.1	22q13.3	2007-01-22	2002-08-29		ENSG00000093000	ENSG00000093000			8065	protein-coding gene	gene with protein product		604646	"nucleoporin 50kD"	NPAP60L		10449902	Standard	XM_005261312		Approved		uc003bfr.3	Q9UKX7	OTTHUMG00000151265	ENST00000347635.4:c.564A>G	22.37:g.45574342A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B1AHA4|B2RB15|O75644|Q8N6V5|Q9NPM9|Q9NPR6|Q9P1K5	Silent	SNP	ENST00000347635.4	37	CCDS14062.1																																																																																				0.453	NUP50-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321993.2			G	45574342	A	G	45574342	2	3	651	1	0	0	0	0	0	0	0	1	10773	69	3	3		3	NUP50	22	45574342	Silent	SNP	A	TCGA-KM-8443-01A-11D-2310-10	330450	45574342	5730224	64	40385										
MAGEC1	9947	mdanderson.org	37	chrX	140994087	140994087	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.078125	5	1	1.32748538011696	3.98245614035088	1.13784461152882	0.206349206349206	1	0	agtacttttgagggttttccCcagtctcctctccagattcc	7	13	2	2			TCGA-KM-8443-01A-11D-2310-10	TCGA-KM-8443-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c00de7a0-0b09-4e07-988c-ef2a7f8e932a	982dbbf8-fdf8-4653-91ed-2e857e1a7708	g.chrX:140994087C>A	ENST00000285879.4	+	4	1183	c.897C>A	c.(895-897)ccC>ccA	p.P299P	MAGEC1_ENST00000406005.2_Intron	NM_005462.4	NP_005453.2	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	299				P -> A (in Ref. 1 and 2). {ECO:0000305}.						breast(3)|central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(22)|lung(60)|ovary(1)|pancreas(1)|prostate(1)|skin(7)|stomach(5)|upper_aerodigestive_tract(7)|urinary_tract(1)	127	Acute lymphoblastic leukemia(192;6.56e-05)					AGGGTTTTCCCCAGTCTCCTC	0.493										HNSCC(15;0.026)																																						0													124	116	119					X																	140994087		2199	4293	6492	SO:0001819	synonymous_variant	9947			AF064589	CCDS35417.1	Xq26	2009-03-18			ENSG00000155495	ENSG00000155495			6812	protein-coding gene	gene with protein product	"cancer/testis antigen family 7, member 1"	300223				9485030, 9618514	Standard	NM_005462		Approved	MAGE-C1, CT7, MGC39366, CT7.1	uc004fbt.3	O60732	OTTHUMG00000022569	ENST00000285879.4:c.897C>A	X.37:g.140994087C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0PK03|O75451|Q8TCV4	Silent	SNP	ENST00000285879.4	37	CCDS35417.1																																																																																				0.493	MAGEC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058604.1	NM_005462		A	140994087	C	A	140994087	2	1	651	1	0	0	0	0	0	0	0	1	9187	610	22	4		4	MAGEC1	23	140994087	Silent	SNP	C	TCGA-KM-8443-01A-11D-2310-10		140994087	14276473	65	40386										
PLEKHG5	57449	ucsc.edu	37	chr1	6531590	6531590	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tccccgggctgtagcagcgcTcgcgtgcgccgcgccttctc	13	18	1	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr1:6531590T>C	ENST00000400915.3	-	13	1473	c.1407A>G	c.(1405-1407)cgA>cgG	p.R469R	PLEKHG5_ENST00000535355.1_Silent_p.R482R|PLEKHG5_ENST00000544978.1_Silent_p.R413R|PLEKHG5_ENST00000377732.1_Silent_p.R450R|PLEKHG5_ENST00000377725.1_Silent_p.R413R|PLEKHG5_ENST00000377748.1_Silent_p.R490R|PLEKHG5_ENST00000400913.1_Silent_p.R413R|PLEKHG5_ENST00000377728.3_Silent_p.R413R|PLEKHG5_ENST00000340850.5_Silent_p.R413R|PLEKHG5_ENST00000377737.2_Silent_p.R413R|PLEKHG5_ENST00000377740.3_Silent_p.R490R|PLEKHG5_ENST00000537245.1_Silent_p.R492R	NM_001042663.1	NP_001036128.1	O94827	PKHG5_HUMAN	pleckstrin homology domain containing, family G (with RhoGef domain) member 5	469	DH. {ECO:0000255|PROSITE- ProRule:PRU00062}.				apoptotic signaling pathway (GO:0097190)|endothelial cell chemotaxis (GO:0035767)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endocytic vesicle (GO:0030139)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)|signal transducer activity (GO:0004871)			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)		GTAGCAGCGCTCGCGTGCGCC	0.706																																																0													13	17	15					1																	6531590		2198	4283	6481	SO:0001819	synonymous_variant	57449			AK024676	CCDS79.1, CCDS41240.1, CCDS41241.1, CCDS57967.1, CCDS57968.1, CCDS57969.1	1p36.31	2014-09-17		2005-08-09	ENSG00000171680	ENSG00000171680		"Pleckstrin homology (PH) domain containing"	29105	protein-coding gene	gene with protein product	"synectin-binding guanine exchange factor"	611101				17564964	Standard	NM_001042663		Approved	KIAA0720, Syx, GEF720, Tech	uc010nzr.1	O94827	OTTHUMG00000000905	ENST00000400915.3:c.1407A>G	1.37:g.6531590T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KU07|B7Z2M3|B7Z5X2|F5GZ21|F5H1I0|Q5SY17|Q5T8W5|Q5T8W9|Q6ZNM0|Q7Z436|Q86YD8|Q96BS1	Silent	SNP	ENST00000400915.3	37	CCDS41241.1																																																																																				0.706	PLEKHG5-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000002631.1	NM_020631		C	6531590	T	C	6531590	2	2	652	1	0	0	0	0	0	0	0	1	12080	1538	54	3		3	PLEKHG5	1	6531590	Silent	SNP	T	TCGA-KM-8476-01A-11D-2310-10		6531590	242719031	1	40387										
SFPQ	6421	ucsc.edu;bcgsc.ca	37	chr1	35658491	35658491	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gatcggaggcttagggccgcTctggcccgggccaggaccca	16	14	1	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr1:35658491T>C	ENST00000357214.5	-	1	258	c.160A>G	c.(160-162)Agc>Ggc	p.S54G		NM_005066.2	NP_005057.1	P23246	SFPQ_HUMAN	splicing factor proline/glutamine-rich	54	Gln/Glu/Pro-rich.				alternative mRNA splicing, via spliceosome (GO:0000380)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|histone H3 deacetylation (GO:0070932)|mRNA processing (GO:0006397)|negative regulation of circadian rhythm (GO:0042754)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902177)|regulation of circadian rhythm (GO:0042752)|rhythmic process (GO:0048511)|RNA splicing (GO:0008380)|transcription, DNA-templated (GO:0006351)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|paraspeckles (GO:0042382)	core promoter binding (GO:0001047)|histone deacetylase binding (GO:0042826)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|transcription regulatory region DNA binding (GO:0044212)|transcription regulatory region sequence-specific DNA binding (GO:0000976)		SFPQ/TFE3(6)	NS(1)|breast(2)|endometrium(2)|kidney(1)|large_intestine(10)|lung(4)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	25		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.196)				TTAGGGCCGCTCTGGCCCGGG	0.731			T	TFE3	papillary renal cell																																		Dom	yes		1	1p34.3	6421	splicing factor proline/glutamine rich(polypyrimidine tract binding protein associated)		E	0													11	13	12					1																	35658491		1964	3988	5952	SO:0001583	missense	6421			X70944	CCDS388.1	1p34.3	2014-06-13	2010-05-04		ENSG00000116560	ENSG00000116560		"RNA binding motif (RRM) containing"	10774	protein-coding gene	gene with protein product	"polypyrimidine tract binding protein associated", "protein phosphatase 1, regulatory subunit 140"	605199	"splicing factor proline/glutamine rich (polypyrimidine tract-binding protein-associated)"			8449401	Standard	NM_005066		Approved	PSF, PPP1R140	uc001bys.3	P23246	OTTHUMG00000004157	ENST00000357214.5:c.160A>G	1.37:g.35658491T>C	ENSP00000349748:p.Ser54Gly	Somatic		WXS	Illumina HiSeq	Phase_I	P30808|Q5SZ71	Missense_Mutation	SNP	ENST00000357214.5	37	CCDS388.1	.	.	.	.	.	.	.	.	.	.	T	5.418	0.262247	0.10239	.	.	ENSG00000116560	ENST00000357214	T	0.24350	1.86	2.69	0.382	0.16234	.	2.256580	0.01555	N	0.019877	T	0.13628	0.0330	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.17745	-1.0359	10	0.22706	T	0.39	.	5.7667	0.18231	0.0:0.6264:0.0:0.3736	.	54	P23246	SFPQ_HUMAN	G	54	ENSP00000349748:S54G	ENSP00000349748:S54G	S	-	1	0	SFPQ	35431078	0.004000	0.15560	0.884000	0.34674	0.067000	0.16453	0.060000	0.14342	0.317000	0.23160	-0.425000	0.05940	AGC		0.731	SFPQ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000011984.4	NM_005066		C	35658491	T	C	35658491	3	2	652	1	0	0	0	0	1	0	0	0	14173	1551	54	3	2003	3	SFPQ	1	35658491	Missense_Mutation	SNP	T	TCGA-KM-8476-01A-11D-2310-10	29126901	35658491	213592130	2	40388										
CAP1	5538	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	40537164	40537164	+	IGR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	agttcaagaccctatggaacGggcagaagttggtcaccaca	11	10	2	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr1:40537164G>A	ENST00000433473.3	-	0	2740				CAP1_ENST00000372798.1_Missense_Mutation_p.G462R|CAP1_ENST00000479759.1_3'UTR|CAP1_ENST00000340450.3_Missense_Mutation_p.G462R|CAP1_ENST00000372802.1_Missense_Mutation_p.G462R|PPT1_ENST00000372775.2_5'Flank|CAP1_ENST00000372797.3_Missense_Mutation_p.G463R|CAP1_ENST00000372792.2_Missense_Mutation_p.G463R|CAP1_ENST00000372805.3_Missense_Mutation_p.G463R	NM_000310.3	NP_000301.1	P50897	PPT1_HUMAN	palmitoyl-protein thioesterase 1						adult locomotory behavior (GO:0008344)|associative learning (GO:0008306)|brain development (GO:0007420)|cell death (GO:0008219)|cellular protein catabolic process (GO:0044257)|cofactor metabolic process (GO:0051186)|cofactor transport (GO:0051181)|grooming behavior (GO:0007625)|lipid catabolic process (GO:0016042)|lysosomal lumen acidification (GO:0007042)|membrane raft organization (GO:0031579)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of neuron apoptotic process (GO:0043524)|nervous system development (GO:0007399)|neuron development (GO:0048666)|neurotransmitter secretion (GO:0007269)|pinocytosis (GO:0006907)|positive regulation of pinocytosis (GO:0048549)|positive regulation of receptor-mediated endocytosis (GO:0048260)|protein catabolic process (GO:0030163)|protein depalmitoylation (GO:0002084)|protein transport (GO:0015031)|receptor-mediated endocytosis (GO:0006898)|regulation of phospholipase A2 activity (GO:0032429)|regulation of synapse structure and activity (GO:0050803)|sphingolipid catabolic process (GO:0030149)|visual perception (GO:0007601)	axon (GO:0030424)|cytosol (GO:0005829)|dendrite (GO:0030425)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|lysosome (GO:0005764)|membrane (GO:0016020)|membrane raft (GO:0045121)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|synaptic vesicle (GO:0008021)	palmitoyl-(protein) hydrolase activity (GO:0008474)|palmitoyl-CoA hydrolase activity (GO:0016290)			endometrium(5)|large_intestine(1)|lung(3)|ovary(1)|stomach(1)	11	Lung NSC(20;3.43e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1e-18)|Epithelial(16;3.6e-17)|all cancers(16;1.1e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			CCTATGGAACGGGCAGAAGTT	0.463																																																0													73	66	68					1																	40537164		1897	4098	5995	SO:0001628	intergenic_variant	10487			U44772	CCDS447.1, CCDS44119.1	1p32	2014-09-17	2008-07-31		ENSG00000131238	ENSG00000131238	3.1.2.22		9325	protein-coding gene	gene with protein product	"ceroid-lipofuscinosis, neuronal 1, infantile"	600722		PPT		7637805, 8325646	Standard	NM_000310		Approved	CLN1, INCL	uc001cfb.2	P50897	OTTHUMG00000004495		1.37:g.40537164G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DY24|Q6FGQ4	Missense_Mutation	SNP	ENST00000433473.3	37	CCDS447.1	.	.	.	.	.	.	.	.	.	.	G	26.4	4.736430	0.89482	.	.	ENSG00000131236	ENST00000372797;ENST00000372802;ENST00000372792;ENST00000538246;ENST00000372798;ENST00000340450;ENST00000372805	T;T;T;T;T;T	0.09073	3.02;3.02;3.02;3.02;3.02;3.02	5.45	5.45	0.79879	Cyclase-associated protein CAP/septum formation inhibitor MinC, C-terminal (1);Adenylate cyclase-associated CAP, C-terminal (2);	0.000000	0.85682	D	0.000000	T	0.32496	0.0831	M	0.90082	3.085	0.80722	D	1	P;D	0.64830	0.925;0.994	B;P	0.56474	0.409;0.799	T	0.23940	-1.0174	10	0.87932	D	0	-6.457	18.4515	0.90705	0.0:0.0:1.0:0.0	.	410;463	E7ENY9;Q01518	.;CAP1_HUMAN	R	463;462;463;440;462;462;463	ENSP00000361883:G463R;ENSP00000361888:G462R;ENSP00000361878:G463R;ENSP00000361884:G462R;ENSP00000344832:G462R;ENSP00000361891:G463R	ENSP00000344832:G462R	G	+	1	0	CAP1	40309751	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.507000	0.97996	2.838000	0.97847	0.650000	0.86243	GGG		0.463	PPT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000013126.2	NM_000310		A	40537164	G	A	40537164	1	1	652	0	1	0	0	0	0	0	0	0	2621	1116	39	1		1	CAP1	1	40537164	IGR	SNP	G	TCGA-KM-8476-01A-11D-2310-10	4878673	40537164	208713457	3	40389										
TCHHL1	126637	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	152060616	152060616	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gacatttctcaggagctgagGcatctttacaaactcaggag	10	9	3	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr1:152060616G>A	ENST00000368806.1	-	2	68	c.4C>T	c.(4-6)Cct>Tct	p.P2S		NM_001008536.1	NP_001008536.1	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	2							calcium ion binding (GO:0005509)			breast(4)|endometrium(1)|kidney(2)|large_intestine(9)|lung(33)|ovary(2)|prostate(1)|skin(7)|stomach(1)	60	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			AGGAGCTGAGGCATCTTTACA	0.448																																																0													78	74	76					1																	152060616		2203	4300	6503	SO:0001583	missense	126637				CCDS30857.1	1q21.3	2011-10-11	2004-10-05	2006-01-27	ENSG00000182898	ENSG00000182898		"S100 calcium binding proteins"	31796	protein-coding gene	gene with protein product			"S100 calcium binding protein A17"	S100A17, THHL1			Standard	NM_001008536		Approved		uc001ezo.1	Q5QJ38	OTTHUMG00000013058	ENST00000368806.1:c.4C>T	1.37:g.152060616G>A	ENSP00000357796:p.Pro2Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPK8|Q5VTJ9	Missense_Mutation	SNP	ENST00000368806.1	37	CCDS30857.1	.	.	.	.	.	.	.	.	.	.	.	11.63	1.695254	0.30052	.	.	ENSG00000182898	ENST00000368806	T	0.11821	2.74	5.9	4.02	0.46733	EF-hand-like domain (1);	0.000000	0.36101	N	0.002784	T	0.08492	0.0211	L	0.35542	1.07	0.31578	N	0.655416	D	0.67145	0.996	D	0.66084	0.941	T	0.04294	-1.0962	10	0.09843	T	0.71	-2.446	9.5029	0.39028	0.165:0.0:0.835:0.0	.	2	Q5QJ38	TCHL1_HUMAN	S	2	ENSP00000357796:P2S	ENSP00000357796:P2S	P	-	1	0	TCHHL1	150327240	0.999000	0.42202	0.987000	0.45799	0.256000	0.26092	0.457000	0.21875	0.813000	0.34350	0.655000	0.94253	CCT		0.448	TCHHL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000036638.2	XM_060104		A	152060616	G	A	152060616	3	1	652	1	0	0	0	0	1	0	0	0	15713	1203	42	2	2718	2	TCHHL1	1	152060616	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10	111523452	152060616	97190005	4	40390										
HRNR	388697	mdanderson.org	37	chr1	152187510	152187510	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tgagccagacccatgttggcCgtggctggaggagtgccccg	16	12	0	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr1:152187510C>T	ENST00000368801.2	-	3	6670	c.6595G>A	c.(6595-6597)Ggc>Agc	p.G2199S	FLG-AS1_ENST00000593011.1_RNA|FLG-AS1_ENST00000420707.1_RNA	NM_001009931.1	NP_001009931.1	Q86YZ3	HORN_HUMAN	hornerin	2199					establishment of skin barrier (GO:0061436)|hematopoietic progenitor cell differentiation (GO:0002244)|keratinization (GO:0031424)	cornified envelope (GO:0001533)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)			autonomic_ganglia(1)|breast(6)|central_nervous_system(2)|cervix(2)|endometrium(22)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(19)|liver(1)|lung(84)|ovary(5)|prostate(6)|skin(12)|stomach(9)|upper_aerodigestive_tract(5)|urinary_tract(6)	192	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCATGTTGGCCGTGGCTGGAG	0.632																																																0													49	66	61					1																	152187510		2172	4285	6457	SO:0001583	missense	388697			AB104446	CCDS30859.1	1q21.3	2013-01-10			ENSG00000197915	ENSG00000197915		"EF-hand domain containing"	20846	protein-coding gene	gene with protein product	"filaggrin family member 3"						Standard	NM_001009931		Approved	S100a18, S100A16, FLG3	uc001ezt.2	Q86YZ3	OTTHUMG00000012243	ENST00000368801.2:c.6595G>A	1.37:g.152187510C>T	ENSP00000357791:p.Gly2199Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5DT20|Q5U1F4	Missense_Mutation	SNP	ENST00000368801.2	37	CCDS30859.1	.	.	.	.	.	.	.	.	.	.	-	8.711	0.912060	0.17907	.	.	ENSG00000197915	ENST00000368801	T	0.17370	2.28	3.28	0.982	0.19762	.	.	.	.	.	T	0.01156	0.0038	N	0.04880	-0.145	0.09310	N	1	P	0.48162	0.906	B	0.27380	0.079	T	0.37197	-0.9716	9	0.11794	T	0.64	.	5.1396	0.14952	0.0:0.51:0.0:0.49	rs61814942	2199	Q86YZ3	HORN_HUMAN	S	2199	ENSP00000357791:G2199S	ENSP00000357791:G2199S	G	-	1	0	HRNR	150454134	0.000000	0.05858	0.001000	0.08648	0.004000	0.04260	-1.145000	0.03194	0.054000	0.16065	0.558000	0.71614	GGC		0.632	HRNR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034016.1	XM_373868		T	152187510	C	T	152187510	3	4	652	1	0	0	0	0	1	0	0	0	7366	652	23	1	1961	1	HRNR	1	152187510	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	126894	152187510	97063111	5	40391										
RC3H1	149041	mdanderson.org;bcgsc.ca	37	chr1	173921192	173921192	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tttggttccaatgtaggagcCgatggtgtcacatgaccagg	13	8	1	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr1:173921192C>A	ENST00000367696.2	-	14	2806	c.2455G>T	c.(2455-2457)Ggc>Tgc	p.G819C	RC3H1_ENST00000367694.2_Missense_Mutation_p.G819C|RC3H1_ENST00000258349.4_Missense_Mutation_p.G819C			Q5TC82	RC3H1_HUMAN	ring finger and CCCH-type domains 1	819					B cell homeostasis (GO:0001782)|cytoplasmic mRNA processing body assembly (GO:0033962)|lymph node development (GO:0048535)|negative regulation of activated T cell proliferation (GO:0046007)|negative regulation of B cell proliferation (GO:0030889)|negative regulation of germinal center formation (GO:0002635)|negative regulation of T-helper cell differentiation (GO:0045623)|nuclear-transcribed mRNA catabolic process (GO:0000956)|positive regulation of NIK/NF-kappaB signaling (GO:1901224)|posttranscriptional regulation of gene expression (GO:0010608)|protein ubiquitination (GO:0016567)|regulation of germinal center formation (GO:0002634)|regulation of mRNA stability (GO:0043488)|regulation of T cell receptor signaling pathway (GO:0050856)|spleen development (GO:0048536)|T cell homeostasis (GO:0043029)|T cell proliferation (GO:0042098)|T follicular helper cell differentiation (GO:0061470)	cytoplasmic mRNA processing body (GO:0000932)|cytoplasmic stress granule (GO:0010494)	mRNA 3'-UTR binding (GO:0003730)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(7)|lung(20)|ovary(2)|pancreas(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(4)|urinary_tract(1)	50						ATGTAGGAGCCGATGGTGTCA	0.408																																																0													143	124	131					1																	173921192		2203	4300	6503	SO:0001583	missense	149041			AK093501	CCDS30940.1, CCDS72987.1	1q25.1	2013-01-18	2010-09-15		ENSG00000135870	ENSG00000135870		"RING-type (C3HC4) zinc fingers", "Zinc fingers, CCCH-type domain containing"	29434	protein-coding gene	gene with protein product	"KIAA2025 protein"	609424	"ring finger and CCCH-type zinc finger domains 1"			15917799	Standard	XM_005244918		Approved	KIAA2025, roquin, RP5-1198E17.5, RNF198	uc001gju.4	Q5TC82	OTTHUMG00000037275	ENST00000367696.2:c.2455G>T	1.37:g.173921192C>A	ENSP00000356669:p.Gly819Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVK1|Q5W180|Q5W181|Q8IVE6|Q8N9V1	Missense_Mutation	SNP	ENST00000367696.2	37	CCDS30940.1	.	.	.	.	.	.	.	.	.	.	C	28.2	4.895293	0.91962	.	.	ENSG00000135870	ENST00000367696;ENST00000258349;ENST00000367694	T;T;T	0.59638	0.26;0.26;0.25	5.77	5.77	0.91146	.	0.043803	0.85682	N	0.000000	T	0.67915	0.2944	L	0.55481	1.735	0.80722	D	1	D;D;D;D	0.67145	0.993;0.993;0.996;0.993	P;P;D;P	0.65874	0.87;0.87;0.939;0.87	T	0.69030	-0.5253	10	0.72032	D	0.01	-12.1335	19.9913	0.97366	0.0:1.0:0.0:0.0	.	819;819;819;819	B9EGU6;B7ZMB3;Q5TC82-2;Q5TC82	.;.;.;RC3H1_HUMAN	C	819	ENSP00000356669:G819C;ENSP00000258349:G819C;ENSP00000356667:G819C	ENSP00000258349:G819C	G	-	1	0	RC3H1	172187815	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.761000	0.68801	2.734000	0.93682	0.585000	0.79938	GGC		0.408	RC3H1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090733.2	NM_172071		A	173921192	C	A	173921192	3	1	652	1	0	0	0	0	1	0	0	0	13179	652	23	4	974	4	RC3H1	1	173921192	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	21733682	173921192	75329429	6	40392										
OR2M2	391194	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	248343361	248343361	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	caatcacagcccaccacacaCgttcctcttctttctggtcc	4	18	4	0	rs146796261		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr1:248343361C>T	ENST00000359682.2	+	1	74	c.74C>T	c.(73-75)aCg>aTg	p.T25M		NM_001004688.1	NP_001004688.1	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M, member 2	25						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|autonomic_ganglia(1)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(45)|ovary(3)|prostate(1)|skin(3)	70	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)			CCACCACACACGTTCCTCTTC	0.498																																																0								C	MET/THR	1,4405	2.1+/-5.4	0,1,2202	255	248	250		74	-2.9	0	1	dbSNP_134	250	0,8600		0,0,4300	no	missense	OR2M2	NM_001004688.1	81	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	possibly-damaging	25/348	248343361	1,13005	2203	4300	6503	SO:0001583	missense	391194			AF399616	CCDS31106.1	1q44	2012-08-09			ENSG00000198601	ENSG00000198601		"GPCR / Class A : Olfactory receptors"	8268	protein-coding gene	gene with protein product						12213199	Standard	NM_001004688		Approved	OST423, OR2M2Q	uc010pzf.2	Q96R28	OTTHUMG00000040460	ENST00000359682.2:c.74C>T	1.37:g.248343361C>T	ENSP00000352710:p.Thr25Met	Somatic		WXS	Illumina HiSeq	Phase_I	A3KFT4	Missense_Mutation	SNP	ENST00000359682.2	37	CCDS31106.1	.	.	.	.	.	.	.	.	.	.	c	4.933	0.173437	0.09391	2.27E-4	0.0	ENSG00000198601	ENST00000359682	T	0.00441	7.41	1.44	-2.87	0.05700	.	1.263570	0.06373	U	0.713836	T	0.00178	0.0005	N	0.20574	0.59	0.09310	N	1	P	0.42337	0.776	B	0.28991	0.097	T	0.30060	-0.9991	10	0.34782	T	0.22	.	0.3199	0.00301	0.3623:0.2502:0.1964:0.191	.	25	Q96R28	OR2M2_HUMAN	M	25	ENSP00000352710:T25M	ENSP00000352710:T25M	T	+	2	0	OR2M2	246409984	0.000000	0.05858	0.015000	0.15790	0.152000	0.21847	-1.494000	0.02296	-0.693000	0.05121	0.298000	0.19748	ACG		0.498	OR2M2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097356.2	NM_001004688		T	248343361	C	T	248343361	3	4	652	1	0	0	0	0	1	0	0	0	11017	536	19	1	76	1	OR2M2	1	248343361	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	74422169	248343361	907260	7	40393										
ARHGAP15	55843	broad.mit.edu	37	chr2	143959765	143959765	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gatgtcattcctccattggaAcaactggtgagtgtttaagt	10	7	1	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr2:143959765A>G	ENST00000295095.6	+	3	395	c.228A>G	c.(226-228)gaA>gaG	p.E76E	ARHGAP15_ENST00000409869.1_Silent_p.E76E	NM_018460.3	NP_060930.3	Q53QZ3	RHG15_HUMAN	Rho GTPase activating protein 15	76					positive regulation of Rac GTPase activity (GO:0032855)|regulation of cell shape (GO:0008360)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)	Rac GTPase activator activity (GO:0030675)			endometrium(1)|kidney(5)|large_intestine(8)|liver(2)|lung(15)|ovary(1)|skin(2)	34				BRCA - Breast invasive adenocarcinoma(221;0.151)		CTCCATTGGAACAACTGGTGA	0.313																																																0													104	104	104					2																	143959765		2203	4300	6503	SO:0001819	synonymous_variant	55843			AY219338	CCDS2184.1	2q22.2-q22.3	2013-01-10			ENSG00000075884	ENSG00000075884		"Rho GTPase activating proteins", "Pleckstrin homology (PH) domain containing"	21030	protein-coding gene	gene with protein product		610578				12650940, 11042152	Standard	NM_018460		Approved	BM046	uc002tvm.4	Q53QZ3	OTTHUMG00000131845	ENST00000295095.6:c.228A>G	2.37:g.143959765A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q53R36|Q53RD7|Q53RT6|Q53SX9|Q584N9|Q6PJE6|Q86WP1|Q8IXX1|Q9NRL8|Q9NZ77|Q9NZ91	Silent	SNP	ENST00000295095.6	37	CCDS2184.1																																																																																				0.313	ARHGAP15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254793.2	NM_018460		G	143959765	A	G	143959765	2	3	652	1	0	0	0	0	0	0	0	1	866	40	2	3		3	ARHGAP15	2	143959765	Silent	SNP	A	TCGA-KM-8476-01A-11D-2310-10		143959765	99239608	8	40394										
OR6B3	150681	broad.mit.edu	37	chr2	240984793	240984793	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gaagaaggctctccagcagcCggtggccgaggggatgcgca	17	11	1	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr2:240984793C>T	ENST00000319423.4	-	1	696	c.697G>A	c.(697-699)Ggc>Agc	p.G233S	PRR21_ENST00000408934.1_5'Flank	NM_173351.1	NP_775486.1	Q8NGW1	OR6B3_HUMAN	olfactory receptor, family 6, subfamily B, member 3	233						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(1)|large_intestine(10)|lung(4)|ovary(2)|prostate(1)	18		all_epithelial(40;1.64e-11)|Breast(86;0.000327)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;1.05e-29)|all cancers(36;3.52e-28)|OV - Ovarian serous cystadenocarcinoma(60;4.63e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.56e-05)|Lung(119;0.00344)|LUSC - Lung squamous cell carcinoma(224;0.0148)|Colorectal(34;0.019)|COAD - Colon adenocarcinoma(134;0.141)		CTCCAGCAGCCGGTGGCCGAG	0.577																																																0													46	53	51					2																	240984793		2098	4229	6327	SO:0001583	missense	150681				CCDS42837.1	2q37.3	2013-09-23	2002-11-13	2002-11-15	ENSG00000178586	ENSG00000178586		"GPCR / Class A : Olfactory receptors"	15042	protein-coding gene	gene with protein product			"olfactory receptor, family 6, subfamily B, member 3 pseudogene"	OR6B3P			Standard	NM_173351		Approved	OR6B3Q	uc010zoe.2	Q8NGW1	OTTHUMG00000152399	ENST00000319423.4:c.697G>A	2.37:g.240984793C>T	ENSP00000322435:p.Gly233Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFH3	Missense_Mutation	SNP	ENST00000319423.4	37	CCDS42837.1	.	.	.	.	.	.	.	.	.	.	c	10.51	1.369882	0.24771	.	.	ENSG00000178586	ENST00000319423	T	0.00293	8.26	4.09	1.35	0.21983	GPCR, rhodopsin-like superfamily (1);	0.000000	0.47455	D	0.000223	T	0.00468	0.0015	M	0.65498	2.005	0.09310	N	1	D	0.89917	1.0	D	0.97110	1.0	T	0.48115	-0.9063	10	0.72032	D	0.01	.	6.6505	0.22959	0.0:0.6118:0.0:0.3882	.	233	Q8NGW1	OR6B3_HUMAN	S	233	ENSP00000322435:G233S	ENSP00000322435:G233S	G	-	1	0	OR6B3	240633466	0.000000	0.05858	0.003000	0.11579	0.004000	0.04260	0.167000	0.16602	0.284000	0.22305	-0.931000	0.02705	GGC		0.577	OR6B3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000326078.1			T	240984793	C	T	240984793	3	4	652	1	0	0	0	0	1	0	0	0	11196	652	23	1	301	1	OR6B3	2	240984793	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	97025028	240984793	2214580	9	40395										
SLC4A7	9497	mdanderson.org	37	chr3	27444780	27444780	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	atcgagtaatataacacacaAggctgcttgcatctgttgca	8	9	1	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr3:27444780A>G	ENST00000295736.5	-	15	2214	c.2144T>C	c.(2143-2145)cTt>cCt	p.L715P	SLC4A7_ENST00000454389.1_Missense_Mutation_p.L724P|SLC4A7_ENST00000388777.4_Missense_Mutation_p.L265P|SLC4A7_ENST00000435667.2_Missense_Mutation_p.L600P|SLC4A7_ENST00000445684.1_Missense_Mutation_p.L711P|SLC4A7_ENST00000455077.1_Missense_Mutation_p.L596P|SLC4A7_ENST00000440156.1_Missense_Mutation_p.L711P|SLC4A7_ENST00000437179.1_Missense_Mutation_p.L596P|SLC4A7_ENST00000428386.1_Missense_Mutation_p.L591P|SLC4A7_ENST00000446700.1_Missense_Mutation_p.L707P|SLC4A7_ENST00000425128.2_3'UTR	NM_003615.4	NP_003606.3	Q9Y6M7	S4A7_HUMAN	solute carrier family 4, sodium bicarbonate cotransporter, member 7	715					auditory receptor cell development (GO:0060117)|bicarbonate transport (GO:0015701)|cochlear nucleus development (GO:0021747)|ion transport (GO:0006811)|retina vasculature morphogenesis in camera-type eye (GO:0061299)|retinal cell programmed cell death (GO:0046666)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|cell projection (GO:0042995)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	inorganic anion exchanger activity (GO:0005452)|sodium:bicarbonate symporter activity (GO:0008510)			NS(2)|breast(3)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(12)|lung(9)|ovary(4)|skin(1)	38					Sodium bicarbonate(DB01390)	ATAACACACAAGGCTGCTTGC	0.378																																																0													105	104	104					3																	27444780		2203	4300	6503	SO:0001583	missense	9497			AB012130	CCDS33721.1, CCDS58819.1, CCDS58820.1	3p24.1	2013-05-22			ENSG00000033867	ENSG00000033867		"Solute carriers"	11033	protein-coding gene	gene with protein product		603353		SLC4A6		10198178, 9610397	Standard	NM_003615		Approved	NBC3, SBC2	uc003cdv.4	Q9Y6M7	OTTHUMG00000155679	ENST00000295736.5:c.2144T>C	3.37:g.27444780A>G	ENSP00000295736:p.Leu715Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NIA8|B2CI53|B5M449|B5M451|B5M452|B5M453|B6DY52|B6DY53|C9JST9|D3K174|D3K175|O60350|Q6AHZ9|Q9HC88|Q9UIB9	Missense_Mutation	SNP	ENST00000295736.5	37	CCDS33721.1	.	.	.	.	.	.	.	.	.	.	A	18.63	3.665776	0.67700	.	.	ENSG00000033867	ENST00000419036;ENST00000295736;ENST00000428386;ENST00000454389;ENST00000440156;ENST00000437179;ENST00000446700;ENST00000455077;ENST00000445684;ENST00000435667;ENST00000388777;ENST00000428179	D;D;D;D;D;D;D;D;D;D;D;D	0.83591	-1.74;-1.74;-1.74;-1.74;-1.74;-1.74;-1.74;-1.74;-1.74;-1.74;-1.74;-1.74	5.14	5.14	0.70334	Bicarbonate transporter, C-terminal (1);	0.000000	0.64402	D	0.000001	D	0.94049	0.8093	H	0.96889	3.9	0.80722	D	1	P;P;P;D;P;P;P;P;P	0.89917	0.576;0.606;0.576;1.0;0.576;0.552;0.552;0.576;0.606	P;P;P;D;P;P;P;P;P	0.97110	0.496;0.582;0.496;1.0;0.496;0.447;0.447;0.496;0.582	D	0.95937	0.8943	10	0.87932	D	0	.	14.9553	0.71107	1.0:0.0:0.0:0.0	.	711;596;707;711;724;265;591;715;596	E9PFN4;B5M452;E9PGC1;B5M453;E9PDL9;F8W7E6;Q9Y6M7-2;Q9Y6M7;B2CI53	.;.;.;.;.;.;.;S4A7_HUMAN;.	P	266;715;591;724;711;596;707;596;711;600;265;611	ENSP00000411031:L266P;ENSP00000295736:L715P;ENSP00000416368:L591P;ENSP00000390394:L724P;ENSP00000414797:L711P;ENSP00000394252:L596P;ENSP00000406605:L707P;ENSP00000407382:L596P;ENSP00000406804:L711P;ENSP00000395336:L600P;ENSP00000373429:L265P;ENSP00000388703:L611P	ENSP00000295736:L715P	L	-	2	0	SLC4A7	27419784	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	9.339000	0.96797	1.945000	0.56424	0.459000	0.35465	CTT		0.378	SLC4A7-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000341230.2	NM_003615		G	27444780	A	G	27444780	3	3	652	1	0	0	0	0	1	0	0	0	14671	72	3	3	1544	3	SLC4A7	3	27444780	Missense_Mutation	SNP	A	TCGA-KM-8476-01A-11D-2310-10		27444780	170577650	10	40396										
LAMB2	3913	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	49162828	49162828	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	acgctggcagcggtcacagcGaagcccaaaggcaccagttc	12	14	1	0	rs563405094		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr3:49162828G>A	ENST00000418109.1	-	20	2742	c.2578C>T	c.(2578-2580)Cgc>Tgc	p.R860C	LAMB2_ENST00000464891.1_5'UTR|LAMB2_ENST00000305544.4_Missense_Mutation_p.R860C	NM_002292.3	NP_002283.3	P55268	LAMB2_HUMAN	laminin, beta 2 (laminin S)	860	Laminin EGF-like 7. {ECO:0000255|PROSITE- ProRule:PRU00460}.				astrocyte development (GO:0014002)|axon extension involved in regeneration (GO:0048677)|axon guidance (GO:0007411)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|metanephric glomerular basement membrane development (GO:0072274)|metanephric glomerular visceral epithelial cell development (GO:0072249)|neuromuscular junction development (GO:0007528)|retina development in camera-type eye (GO:0060041)|Schwann cell development (GO:0014044)|visual perception (GO:0007601)	basal lamina (GO:0005605)|basement membrane (GO:0005604)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|laminin-11 complex (GO:0043260)|laminin-3 complex (GO:0005608)|synapse (GO:0045202)	structural molecule activity (GO:0005198)			NS(1)|breast(1)|endometrium(15)|kidney(3)|large_intestine(6)|lung(21)|ovary(4)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	61				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CGGTCACAGCGAAGCCCAAAG	0.607													G|||	1	0.000199681	0.0008	0.0	5008	,	,		16151	0.0		0.0	False		,,,				2504	0.0															0													62	59	60					3																	49162828		2203	4300	6503	SO:0001583	missense	3913				CCDS2789.1	3p21.3-p21.2	2013-03-01			ENSG00000172037	ENSG00000172037		"Laminins"	6487	protein-coding gene	gene with protein product	"laminin S"	150325		LAMS		2922051, 10393422	Standard	NM_002292		Approved		uc003cwe.3	P55268	OTTHUMG00000156807	ENST00000418109.1:c.2578C>T	3.37:g.49162828G>A	ENSP00000388325:p.Arg860Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q16321	Missense_Mutation	SNP	ENST00000418109.1	37	CCDS2789.1	.	.	.	.	.	.	.	.	.	.	G	21.6	4.170780	0.78452	.	.	ENSG00000172037	ENST00000418109;ENST00000305544	T;T	0.63417	-0.04;-0.04	6.08	6.08	0.98989	EGF-like, laminin (4);EGF-like region, conserved site (1);	0.166713	0.51477	D	0.000090	D	0.83492	0.5266	M	0.93106	3.38	0.58432	D	0.999999	D	0.89917	1.0	D	0.73380	0.98	D	0.86585	0.1856	10	0.87932	D	0	.	15.3887	0.74726	0.0:0.0:0.8608:0.1392	.	860	P55268	LAMB2_HUMAN	C	860	ENSP00000388325:R860C;ENSP00000307156:R860C	ENSP00000307156:R860C	R	-	1	0	LAMB2	49137832	0.738000	0.28186	1.000000	0.80357	0.991000	0.79684	3.900000	0.56295	2.894000	0.99253	0.655000	0.94253	CGC		0.607	LAMB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345939.1	NM_002292		A	49162828	G	A	49162828	3	1	652	1	0	0	0	0	1	0	0	0	8618	1058	37	1	2874	1	LAMB2	3	49162828	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10	21718048	49162828	148859602	11	40397										
CYB561D2	11068	broad.mit.edu;bcgsc.ca	37	chr3	50391044	50391044	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gcctcttgctgggcatgtgcTcactctggttcactgcctct	10	14	5	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr3:50391044T>C	ENST00000418577.1	+	3	1114	c.538T>C	c.(538-540)Tca>Cca	p.S180P	NPRL2_ENST00000232501.3_5'Flank|CYB561D2_ENST00000232508.5_Missense_Mutation_p.S180P|CYB561D2_ENST00000425346.1_Missense_Mutation_p.S180P|CYB561D2_ENST00000424512.1_Missense_Mutation_p.S180P|XXcos-LUCA11.5_ENST00000606589.1_Intron			O14569	C56D2_HUMAN	cytochrome b561 family, member D2	180	Cytochrome b561. {ECO:0000255|PROSITE- ProRule:PRU00242}.				oxidation-reduction process (GO:0055114)	integral component of membrane (GO:0016021)	metal ion binding (GO:0046872)			endometrium(1)|lung(1)|urinary_tract(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		GGGCATGTGCTCACTCTGGTT	0.582																																																0													143	135	138					3																	50391044		2203	4300	6503	SO:0001583	missense	11068			AF040704	CCDS2827.1	3p21.3	2013-03-14	2013-03-14		ENSG00000114395	ENSG00000114395		"Cytochrome b genes"	30253	protein-coding gene	gene with protein product	"putative tumor suppressor 101F6"	607068	"cytochrome b-561 domain containing 2"			9122200, 11085536, 23249217	Standard	XM_005264832		Approved	101F6, TSP10	uc003dal.3	O14569	OTTHUMG00000156813	ENST00000418577.1:c.538T>C	3.37:g.50391044T>C	ENSP00000391209:p.Ser180Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K552	Missense_Mutation	SNP	ENST00000418577.1	37	CCDS2827.1	.	.	.	.	.	.	.	.	.	.	T	26.0	4.691986	0.88735	.	.	ENSG00000114395	ENST00000425346;ENST00000424512;ENST00000232508;ENST00000418577	T;T;T;T	0.47177	0.85;0.85;0.85;0.85	5.68	5.68	0.88126	Cytochrome b561, eukaryote (1);Cytochrome b561/ferric reductase transmembrane (1);	0.057497	0.64402	D	0.000001	T	0.72301	0.3443	M	0.85041	2.73	0.80722	D	1	D	0.76494	0.999	D	0.87578	0.998	T	0.77117	-0.2706	10	0.66056	D	0.02	.	15.6089	0.76699	0.0:0.0:0.0:1.0	.	180	O14569	C56D2_HUMAN	P	180	ENSP00000400454:S180P;ENSP00000410663:S180P;ENSP00000232508:S180P;ENSP00000391209:S180P	ENSP00000232508:S180P	S	+	1	0	CYB561D2	50366048	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	8.040000	0.89188	2.179000	0.69175	0.459000	0.35465	TCA		0.582	CYB561D2-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345973.1	NM_007022		C	50391044	T	C	50391044	3	2	652	1	0	0	0	0	1	0	0	0	4123	1551	54	3	548	3	CYB561D2	3	50391044	Missense_Mutation	SNP	T	TCGA-KM-8476-01A-11D-2310-10	1228216	50391044	147631386	12	40398										
DNAH1	25981	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	52365211	52365211	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	acaaatggtgcgaggtcggcGtcctggactacgacgaggag	16	9	0	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr3:52365211G>A	ENST00000420323.2	+	7	1180	c.919G>A	c.(919-921)Gtc>Atc	p.V307I		NM_015512.4	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	307	Stem. {ECO:0000250}.				cilium movement (GO:0003341)|cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|response to mechanical stimulus (GO:0009612)	axonemal dynein complex (GO:0005858)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			cervix(2)|endometrium(18)|kidney(6)|large_intestine(3)|lung(31)|prostate(1)|urinary_tract(1)	62				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)		CGAGGTCGGCGTCCTGGACTA	0.577																																																0													56	59	58					3																	52365211		2039	4188	6227	SO:0001583	missense	25981			U61738	CCDS46842.1	3p21-p14	2008-02-05	2006-09-04		ENSG00000114841	ENSG00000114841		"Axonemal dyneins"	2940	protein-coding gene	gene with protein product		603332	"dynein, axonemal, heavy polypeptide 1"			8812413, 9256245	Standard	NM_015512		Approved	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11	uc011bef.2	Q9P2D7	OTTHUMG00000158378	ENST00000420323.2:c.919G>A	3.37:g.52365211G>A	ENSP00000401514:p.Val307Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1R6|O00436|O15435|O95491|Q6ZU48|Q86YK7|Q8TEJ4|Q92863|Q9H8E6|Q9UFW6|Q9Y4Z7	Missense_Mutation	SNP	ENST00000420323.2	37	CCDS46842.1	.	.	.	.	.	.	.	.	.	.	G	15.61	2.883725	0.51908	.	.	ENSG00000114841	ENST00000420323	T	0.25912	1.77	5.38	5.38	0.77491	.	0.000000	0.46145	D	0.000309	T	0.49355	0.1552	M	0.77820	2.39	0.50467	D	0.999876	P;D	0.64830	0.939;0.994	B;P	0.57009	0.292;0.811	T	0.51803	-0.8659	10	0.54805	T	0.06	.	19.1396	0.93443	0.0:0.0:1.0:0.0	.	307;307	C9JXH6;Q9P2D7-3	.;.	I	307	ENSP00000401514:V307I	ENSP00000401514:V307I	V	+	1	0	DNAH1	52340251	1.000000	0.71417	0.945000	0.38365	0.215000	0.24574	6.830000	0.75319	2.521000	0.84997	0.462000	0.41574	GTC		0.577	DNAH1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350816.1	NM_015512		A	52365211	G	A	52365211	3	1	652	1	0	0	0	0	1	0	0	0	4599	1145	40	1	941	1	DNAH1	3	52365211	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10	1974167	52365211	145657219	13	40399										
DNAH12	201625	broad.mit.edu	37	chr3	57438684	57438684	+	Frame_Shift_Del	DEL	A	A	-													0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	atacgaactcgggcattctcAttttcccaataatatcggag							TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr3:57438684delA	ENST00000351747.2	-	25	3783	c.3603delT	c.(3601-3603)aatfs	p.N1201fs		NM_178504.4	NP_848599.3	Q6ZR08	DYH12_HUMAN	dynein, axonemal, heavy chain 12	1201	Stem. {ECO:0000250}.				microtubule-based movement (GO:0007018)	cilium (GO:0005929)|cytoplasm (GO:0005737)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			breast(3)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(4)|lung(7)|pancreas(1)|prostate(1)|skin(1)	25						GGGCATTCTCATTTTCCCAAT	0.368																																																0													83	83	83					3																	57438684		692	1591	2283	SO:0001589	frameshift_variant	201625			U53532, AK126276	CCDS33771.1	3p21.1	2009-02-04	2006-09-04		ENSG00000174844	ENSG00000174844		"Axonemal dyneins"	2943	protein-coding gene	gene with protein product		603340	"dynein, axonemal, heavy polypeptide 12", "dynein heavy chain domain 2", "dynein heavy domain 2", "dynein, axonemal, heavy chain 12-like", "dynein, axonemal, heavy chain 7-like"	DNHD2, DNAH12L, DNAH7L		8812413, 8666668	Standard	NM_198564		Approved	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290	uc003dit.2	Q6ZR08	OTTHUMG00000158598	ENST00000351747.2:c.3603delT	3.37:g.57438684delA	ENSP00000295937:p.Asn1201fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGI2|Q6ZTR8|Q8N7R9|Q8WXK2|Q92816	Frame_Shift_Del	DEL	ENST00000351747.2	37																																																																																					0.368	DNAH12-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_178504		-	57438684	A	-	57438684	7	5	652	1	0	1	0	1	0	0	0	0	4602	214	8	0	5815	0	DNAH12	3	57438684	Frame_Shift_Del	DEL	A	TCGA-KM-8476-01A-11D-2310-10	5073473	57438684	140583746	14	40400										
DCBLD2	131566	mdanderson.org	37	chr3	98620083	98620083	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gagggagcgggagagggggaGcgcggcccaggcgggggcgg	27	8	0	1	rs190637453	byFrequency	TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr3:98620083G>C	ENST00000326840.6	-	1	450	c.88C>G	c.(88-90)Ctc>Gtc	p.L30V	DCBLD2_ENST00000326857.9_Missense_Mutation_p.L30V|DCBLD2_ENST00000469648.1_5'Flank|CTD-2021J15.1_ENST00000474798.1_RNA	NM_080927.3	NP_563615.3	Q96PD2	DCBD2_HUMAN	discoidin, CUB and LCCL domain containing 2	30					cell adhesion (GO:0007155)|intracellular receptor signaling pathway (GO:0030522)|negative regulation of cell growth (GO:0030308)|wound healing (GO:0042060)	cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)				breast(1)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(3)|lung(7)|ovary(2)|prostate(1)|stomach(2)	25						gagagggggagcgcggcccag	0.731													G|||	24	0.00479233	0.0	0.0101	5008	,	,		10431	0.0		0.0139	False		,,,				2504	0.0031															0								G	VAL/LEU	8,3348		0,8,1670	8	9	9		88	0.5	1	3		9	71,7025		0,71,3477	no	missense	DCBLD2	NM_080927.3	32	0,79,5147	CC,CG,GG		1.0006,0.2384,0.7558	possibly-damaging	30/776	98620083	79,10373	1678	3548	5226	SO:0001583	missense	131566				CCDS46878.1	3q12.2	2006-04-12			ENSG00000057019	ENSG00000057019			24627	protein-coding gene	gene with protein product		608698				11447234	Standard	NM_080927		Approved	CLCP1, ESDN	uc003dtd.3	Q96PD2	OTTHUMG00000151985	ENST00000326840.6:c.88C>G	3.37:g.98620083G>C	ENSP00000321573:p.Leu30Val	Somatic		WXS	Illumina HiSeq	Phase_I	B7WNL1|D3DN41|Q8N6M4|Q8TDX2	Missense_Mutation	SNP	ENST00000326840.6	37	CCDS46878.1	18	0.008241758241758242	0	0.0	6	0.016574585635359115	0	0.0	12	0.0158311345646438	G	10.06	1.247539	0.22880	0.002384	0.010006	ENSG00000057019	ENST00000326840;ENST00000326857	D;D	0.91124	-2.78;-2.79	2.37	0.476	0.16779	.	1.549460	0.04531	N	0.386306	T	0.70413	0.3221	N	0.14661	0.345	0.22280	N	0.999231	B;B	0.17465	0.022;0.013	B;B	0.12837	0.008;0.003	T	0.65459	-0.6163	10	0.44086	T	0.13	-0.8532	4.8872	0.13708	0.3129:0.0:0.6871:0.0	.	30;30	Q96PD2-2;Q96PD2	.;DCBD2_HUMAN	V	30	ENSP00000321573:L30V;ENSP00000321646:L30V	ENSP00000321573:L30V	L	-	1	0	DCBLD2	100102773	0.959000	0.32827	0.967000	0.41034	0.231000	0.25187	0.336000	0.19823	0.128000	0.18479	0.121000	0.15741	CTC		0.731	DCBLD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324675.2	NM_080927		C	98620083	G	C	98620083	3	2	652	1	0	0	0	0	1	0	0	0	4283	971	34	4	2303	4	DCBLD2	3	98620083	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10	41181399	98620083	99402347	15	40401										
ABTB1	80325	hgsc.bcm.edu	37	chr3	127396057	127396057	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	aaggtgctgaccatcgagccCccacctgcagacccccgcct	9	19	0	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr3:127396057C>T	ENST00000232744.8	+	8	776	c.690C>T	c.(688-690)ccC>ccT	p.P230P	ABTB1_ENST00000468137.1_Silent_p.P88P|ABTB1_ENST00000453791.2_Silent_p.P88P|ABTB1_ENST00000393363.3_Silent_p.P88P					ankyrin repeat and BTB (POZ) domain containing 1											central_nervous_system(1)|endometrium(1)|large_intestine(2)|lung(4)|ovary(1)|prostate(1)	10						CCATCGAGCCCCCACCTGCAG	0.682																																																0													32	29	30					3																	127396057		2200	4298	6498	SO:0001819	synonymous_variant	80325			AB053324	CCDS3045.1, CCDS46901.1	3q21	2013-01-10			ENSG00000114626	ENSG00000114626		"BTB/POZ domain containing", "Ankyrin repeat domain containing"	18275	protein-coding gene	gene with protein product		608308				10891360, 11494141	Standard	NM_172027		Approved	BPOZ, EF1ABP, Btb3, BTBD21	uc003ejt.3	Q969K4	OTTHUMG00000159636	ENST00000232744.8:c.690C>T	3.37:g.127396057C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000232744.8	37	CCDS3045.1																																																																																				0.682	ABTB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356595.1	NM_172027		T	127396057	C	T	127396057	2	4	652	1	0	0	0	0	0	0	0	1	102	610	22	2		2	ABTB1	3	127396057	Silent	SNP	C	TCGA-KM-8476-01A-11D-2310-10	28775974	127396057	70626373	16	40402										
TRPC1	7220	broad.mit.edu	37	chr3	142525034	142525034	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tgaaataagggatttacttgGctttcggacttctaaatatg	9	5	1	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr3:142525034G>T	ENST00000476941.1	+	13	2825	c.2339G>T	c.(2338-2340)gGc>gTc	p.G780V	TRPC1_ENST00000273482.6_Missense_Mutation_p.G746V	NM_001251845.1	NP_001238774.1	P48995	TRPC1_HUMAN	transient receptor potential cation channel, subfamily C, member 1	780					axon guidance (GO:0007411)|calcium ion transmembrane transport (GO:0070588)|calcium ion transport (GO:0006816)|cytosolic calcium ion homeostasis (GO:0051480)|ion transmembrane transport (GO:0034220)|positive regulation of release of sequestered calcium ion into cytosol (GO:0051281)|response to calcium ion (GO:0051592)|saliva secretion (GO:0046541)|transmembrane transport (GO:0055085)	basolateral plasma membrane (GO:0016323)|costamere (GO:0043034)|integral component of plasma membrane (GO:0005887)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|sarcomere (GO:0030017)	calcium channel activity (GO:0005262)|cation channel activity (GO:0005261)|inositol 1,4,5 trisphosphate binding (GO:0070679)|ion channel binding (GO:0044325)|store-operated calcium channel activity (GO:0015279)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(18)|ovary(2)|skin(2)|stomach(3)|urinary_tract(1)	37						GATTTACTTGGCTTTCGGACT	0.338																																																0													70	70	70					3																	142525034		2203	4300	6503	SO:0001583	missense	7220			X89066	CCDS3126.1, CCDS58856.1	3q23	2011-12-14			ENSG00000144935	ENSG00000144935		"Voltage-gated ion channels / Transient receptor potential cation channels"	12333	protein-coding gene	gene with protein product		602343				7568191, 16382100	Standard	NM_001251845		Approved	HTRP-1	uc003evc.3	P48995	OTTHUMG00000159301	ENST00000476941.1:c.2339G>T	3.37:g.142525034G>T	ENSP00000419313:p.Gly780Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q14CE4	Missense_Mutation	SNP	ENST00000476941.1	37	CCDS58856.1	.	.	.	.	.	.	.	.	.	.	G	22.8	4.339985	0.81911	.	.	ENSG00000144935	ENST00000476941;ENST00000273482	T;T	0.79247	-0.93;-1.25	5.59	5.59	0.84812	.	0.000000	0.85682	D	0.000000	D	0.87341	0.6153	M	0.61703	1.905	0.80722	D	1	D;D	0.89917	1.0;0.981	D;P	0.83275	0.996;0.899	D	0.87462	0.2408	10	0.62326	D	0.03	-19.8713	19.5907	0.95509	0.0:0.0:1.0:0.0	.	780;746	P48995;P48995-2	TRPC1_HUMAN;.	V	780;746	ENSP00000419313:G780V;ENSP00000273482:G746V	ENSP00000273482:G746V	G	+	2	0	TRPC1	144007724	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.455000	0.97625	2.642000	0.89623	0.563000	0.77884	GGC		0.338	TRPC1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000354520.1	NM_003304		T	142525034	G	T	142525034	3	4	652	1	0	0	0	0	1	0	0	0	16590	1203	42	4	2283	4	TRPC1	3	142525034	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10	15128977	142525034	55497396	17	40403										
TP63	8626	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	189455532	189455532	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	atttttgtccttttaagtttCgtagaaaccccagctcattt	5	9	1	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr3:189455532C>A	ENST00000264731.3	+	2	155	c.66C>A	c.(64-66)ttC>ttA	p.F22L	TP63_ENST00000392460.3_Missense_Mutation_p.F22L|TP63_ENST00000382063.4_Missense_Mutation_p.F22L|TP63_ENST00000418709.2_Missense_Mutation_p.F22L|TP63_ENST00000320472.5_Missense_Mutation_p.F22L|TP63_ENST00000440651.2_Missense_Mutation_p.F22L	NM_001114978.1|NM_003722.4	NP_001108450.1|NP_003713.3	Q9H3D4	P63_HUMAN	tumor protein p63	22	Transcription activation.				apoptotic process (GO:0006915)|cell aging (GO:0007569)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to UV (GO:0034644)|chromatin remodeling (GO:0006338)|cloacal septation (GO:0060197)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|ectoderm and mesoderm interaction (GO:0007499)|embryonic limb morphogenesis (GO:0030326)|epidermal cell division (GO:0010481)|epithelial cell development (GO:0002064)|establishment of planar polarity (GO:0001736)|establishment of skin barrier (GO:0061436)|female genitalia morphogenesis (GO:0048807)|hair follicle morphogenesis (GO:0031069)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|keratinocyte differentiation (GO:0030216)|keratinocyte proliferation (GO:0043616)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organismal aging (GO:0010259)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cellular senescence (GO:2000773)|negative regulation of keratinocyte differentiation (GO:0045617)|negative regulation of mesoderm development (GO:2000381)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|odontogenesis of dentin-containing tooth (GO:0042475)|polarized epithelial cell differentiation (GO:0030859)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell cycle G1/S phase transition (GO:1902808)|positive regulation of fibroblast apoptotic process (GO:2000271)|positive regulation of keratinocyte proliferation (GO:0010838)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of Notch signaling pathway (GO:0045747)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|post-anal tail morphogenesis (GO:0036342)|prostatic bud formation (GO:0060513)|protein homotetramerization (GO:0051289)|proximal/distal pattern formation (GO:0009954)|regulation of epidermal cell division (GO:0010482)|regulation of neuron apoptotic process (GO:0043523)|response to gamma radiation (GO:0010332)|response to X-ray (GO:0010165)|skeletal system development (GO:0001501)|smooth muscle tissue development (GO:0048745)|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development (GO:0060529)|sympathetic nervous system development (GO:0048485)|urinary bladder development (GO:0060157)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|double-stranded DNA binding (GO:0003690)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|p53 binding (GO:0002039)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding transcription factor activity (GO:0000989)|transcription regulatory region DNA binding (GO:0044212)|WW domain binding (GO:0050699)			breast(2)|central_nervous_system(2)|cervix(1)|endometrium(7)|kidney(5)|large_intestine(12)|lung(15)|ovary(2)|skin(9)|upper_aerodigestive_tract(6)	61	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		TTTTAAGTTTCGTAGAAACCC	0.348										HNSCC(45;0.13)																																						0													70	74	73					3																	189455532		2203	4300	6503	SO:0001583	missense	8626			AB010153	CCDS3293.1, CCDS46976.1, CCDS46977.1, CCDS46978.1, CCDS46979.1, CCDS46980.1	3q27-q29	2014-09-17			ENSG00000073282	ENSG00000073282			15979	protein-coding gene	gene with protein product		603273	"tumor protein p73-like", "tumor protein p53-like", "tumor protein p53-competing protein"	TP73L, TP53L, TP53CP		9774969, 9662378, 11181441, 11181451	Standard	NM_003722		Approved	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP	uc003fry.2	Q9H3D4	OTTHUMG00000156313	ENST00000264731.3:c.66C>A	3.37:g.189455532C>A	ENSP00000264731:p.Phe22Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O75080|O75195|O75922|O76078|Q6VEG2|Q6VEG3|Q6VEG4|Q6VFJ1|Q6VFJ2|Q6VFJ3|Q6VH20|Q7LDI3|Q7LDI4|Q7LDI5|Q96KR0|Q9H3D2|Q9H3D3|Q9H3P8|Q9NPH7|Q9P1B4|Q9P1B5|Q9P1B6|Q9P1B7|Q9UBV9|Q9UE10|Q9UP26|Q9UP27|Q9UP28|Q9UP74	Missense_Mutation	SNP	ENST00000264731.3	37	CCDS3293.1	.	.	.	.	.	.	.	.	.	.	C	16.47	3.133012	0.56828	.	.	ENSG00000073282	ENST00000264731;ENST00000418709;ENST00000320472;ENST00000392460;ENST00000440651;ENST00000382063	D;D;D;D;D;D	0.99557	-5.8;-6.11;-6.04;-6.03;-5.8;-6.16	5.67	-5.27	0.02763	.	0.063913	0.64402	D	0.000005	D	0.96423	0.8833	N	0.08118	0	0.80722	D	1	B;B;B;B	0.21147	0.052;0.018;0.031;0.018	B;B;B;B	0.16722	0.016;0.016;0.005;0.016	T	0.82851	-0.0253	9	.	.	.	-5.9382	16.2055	0.82126	0.0:0.1538:0.0:0.8462	.	22;22;22;22	Q9H3D4-7;Q9H3D4-3;Q9H3D4;Q9H3D4-5	.;.;P63_HUMAN;.	L	22	ENSP00000264731:F22L;ENSP00000407144:F22L;ENSP00000317510:F22L;ENSP00000376253:F22L;ENSP00000394337:F22L;ENSP00000371495:F22L	.	F	+	3	2	TP63	190938226	0.013000	0.17824	0.793000	0.32043	0.991000	0.79684	-1.643000	0.02004	-1.002000	0.03429	0.650000	0.86243	TTC		0.348	TP63-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000343865.1	NM_003722		A	189455532	C	A	189455532	3	1	652	1	0	0	0	0	1	0	0	0	16404	883	31	4	72	4	TP63	3	189455532	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	46930498	189455532	8566898	18	40404										
GK2	2712	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	80327734	80327734	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tcttgctccaattagcattaCcatgctactcactataaaaa	3	11	2	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr4:80327734C>T	ENST00000358842.3	-	1	1638	c.1621G>A	c.(1621-1623)Gta>Ata	p.V541I		NM_033214.2	NP_149991.2	Q01415	GALK2_HUMAN	glycerol kinase 2	44					carbohydrate metabolic process (GO:0005975)|galactose metabolic process (GO:0006012)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|galactokinase activity (GO:0004335)|N-acetylgalactosamine kinase activity (GO:0033858)			autonomic_ganglia(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(13)|ovary(2)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)	39						ATTAGCATTACCATGCTACTC	0.398																																																0													84	82	83					4																	80327734		2203	4300	6503	SO:0001583	missense	2712			BC029820	CCDS3585.1	4q13	2008-02-05	2002-10-03	2002-10-04	ENSG00000196475	ENSG00000196475		"Glycerol kinases"	4291	protein-coding gene	gene with protein product		600148	"glycerol kinase pseudogene 2"	GKP2		7987308	Standard	NM_033214		Approved	GKTA	uc003hlu.3	Q14410	OTTHUMG00000130199	ENST00000358842.3:c.1621G>A	4.37:g.80327734C>T	ENSP00000351706:p.Val541Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z4Q4	Missense_Mutation	SNP	ENST00000358842.3	37	CCDS3585.1	.	.	.	.	.	.	.	.	.	.	C	2.028	-0.423139	0.04734	.	.	ENSG00000196475	ENST00000358842	T	0.14022	2.54	4.11	2.9	0.33743	.	0.620022	0.16540	N	0.210016	T	0.06188	0.0160	N	0.14661	0.345	0.22330	N	0.999192	B	0.02656	0.0	B	0.04013	0.001	T	0.41466	-0.9507	10	0.11485	T	0.65	-11.0196	4.7749	0.13175	0.0:0.3368:0.0:0.6632	.	541	Q14410	GLPK2_HUMAN	I	541	ENSP00000351706:V541I	ENSP00000351706:V541I	V	-	1	0	GK2	80546758	0.627000	0.27129	0.998000	0.56505	0.950000	0.60333	-0.533000	0.06157	0.881000	0.35993	0.585000	0.79938	GTA		0.398	GK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252517.2	NM_033214		T	80327734	C	T	80327734	3	4	652	1	0	0	0	0	1	0	0	0	6428	507	18	2	44	2	GK2	4	80327734	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10		80327734	110826542	19	40405										
FNIP2	57600	broad.mit.edu;mdanderson.org	37	chr4	159780275	159780275	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	aatccagctatggttaggagGaagaaaattgccataagcat	10	6	0	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr4:159780275G>A	ENST00000264433.6	+	9	999	c.924G>A	c.(922-924)agG>agA	p.R308R	FNIP2_ENST00000379346.3_Silent_p.R331R	NM_020840.1	NP_065891.1	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	308					intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|protein phosphorylation (GO:0006468)|regulation of protein phosphorylation (GO:0001932)	cytoplasm (GO:0005737)|microtubule organizing center (GO:0005815)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(3)|prostate(1)	9	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		TGGTTAGGAGGAAGAAAATTG	0.398																																																0													79	78	78					4																	159780275		1845	4097	5942	SO:0001819	synonymous_variant	57600			AB040883	CCDS47155.1	4q32.1	2012-10-31			ENSG00000052795	ENSG00000052795			29280	protein-coding gene	gene with protein product	"O6-methylguanine-induced apoptosis 1"	612768				18403135	Standard	NM_020840		Approved	KIAA1450, FNIPL, MAPO1	uc003iqe.4	Q9P278	OTTHUMG00000161983	ENST00000264433.6:c.924G>A	4.37:g.159780275G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q05DC3|Q96I31|Q9H994	Silent	SNP	ENST00000264433.6	37	CCDS47155.1																																																																																				0.398	FNIP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366602.1	NM_020840		A	159780275	G	A	159780275	2	1	652	1	0	0	0	0	0	0	0	1	5983	1165	41	2		2	FNIP2	4	159780275	Silent	SNP	G	TCGA-KM-8476-01A-11D-2310-10	79452541	159780275	31374001	20	40406										
FRG1	2483	mdanderson.org	37	chr4	190883004	190883004	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tttcagagcttccaagaccaCaaacttaaaataagtaaaga	5	8	1	3			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr4:190883004C>A	ENST00000226798.4	+	8	879	c.657C>A	c.(655-657)caC>caA	p.H219Q		NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1	219					mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		TCCAAGACCACAAACTTAAAA	0.289																																																0													66	82	77					4																	190883004		2129	4195	6324	SO:0001583	missense	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.657C>A	4.37:g.190883004C>A	ENSP00000226798:p.His219Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Missense_Mutation	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	.	9.796	1.179300	0.21787	.	.	ENSG00000109536	ENST00000226798;ENST00000524583	T	0.28255	1.62	3.89	2.08	0.27032	.	0.353012	0.32884	N	0.005540	T	0.22781	0.0550	L	0.50333	1.59	0.27511	N	0.951693	B	0.25904	0.137	B	0.22880	0.042	T	0.22034	-1.0228	10	0.15952	T	0.53	-5.3563	8.561	0.33511	0.0:0.8087:0.0:0.1913	.	219	Q14331	FRG1_HUMAN	Q	219;91	ENSP00000226798:H219Q	ENSP00000226798:H219Q	H	+	3	2	FRG1	191119998	0.733000	0.28132	1.000000	0.80357	0.952000	0.60782	-0.200000	0.09478	0.227000	0.20999	0.479000	0.44913	CAC		0.289	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477		A	190883004	C	A	190883004	3	1	652	1	0	0	0	0	1	0	0	0	6053	477	17	4	687	4	FRG1	4	190883004	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	31102729	190883004	271272	21	40407										
PRDM9	56979	broad.mit.edu;mdanderson.org	37	chr5	23527628	23527628	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	atgtctgcagggagtgtgggCggggctttagcaataagtca	16	6	2	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr5:23527628C>T	ENST00000296682.3	+	11	2613	c.2431C>T	c.(2431-2433)Cgg>Tgg	p.R811W		NM_020227.2	NP_064612.2	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	811					meiotic gene conversion (GO:0006311)|positive regulation of meiosis I (GO:0060903)|positive regulation of reciprocal meiotic recombination (GO:0010845)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)	histone methyltransferase activity (H3-K4 specific) (GO:0042800)|metal ion binding (GO:0046872)|recombination hotspot binding (GO:0010844)|sequence-specific DNA binding (GO:0043565)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(15)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(27)|lung(87)|ovary(6)|pancreas(2)|prostate(4)|skin(10)|upper_aerodigestive_tract(11)	172						GGAGTGTGGGCGGGGCTTTAG	0.572										HNSCC(3;0.000094)																																						0													40	50	46					5																	23527628		2149	4270	6419	SO:0001583	missense	56979			AF275816	CCDS43307.1	5p14.2	2014-06-03			ENSG00000164256	ENSG00000164256		"-", "Zinc fingers, C2H2-type"	13994	protein-coding gene	gene with protein product	"PR-domain containing protein 9"	609760	"minisatellite binding protein 3, 115kDa", "minisatellite binding protein 3 (115kD)"	MSBP3		10668202, 2062643, 24634223	Standard	NM_020227		Approved	PFM6, ZNF899	uc003jgo.3	Q9NQV7	OTTHUMG00000161918	ENST00000296682.3:c.2431C>T	5.37:g.23527628C>T	ENSP00000296682:p.Arg811Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DX22|Q27Q50	Missense_Mutation	SNP	ENST00000296682.3	37	CCDS43307.1	.	.	.	.	.	.	.	.	.	.	C	3.066	-0.192235	0.06259	.	.	ENSG00000164256	ENST00000296682	T	0.19806	2.12	3.02	1.12	0.20585	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.20373	0.0490	M	0.72576	2.205	0.20975	N	0.999817	B	0.22800	0.075	B	0.18561	0.022	T	0.26710	-1.0095	9	0.46703	T	0.11	.	3.8662	0.09018	0.4206:0.4551:0.0:0.1244	.	811	Q9NQV7	PRDM9_HUMAN	W	811	ENSP00000296682:R811W	ENSP00000296682:R811W	R	+	1	2	PRDM9	23563385	0.002000	0.14202	0.775000	0.31657	0.007000	0.05969	1.748000	0.38308	0.307000	0.22880	-0.575000	0.04146	CGG		0.572	PRDM9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366375.1	NM_020227		T	23527628	C	T	23527628	3	4	652	1	0	0	0	0	1	0	0	0	12473	759	27	1	2469	1	PRDM9	5	23527628	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10		23527628	157387632	22	40408										
PCDHA8	56140	broad.mit.edu	37	chr5	140223107	140223107	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	cactgagggcgggtgccgggCgggcaagcccactctggtgt	18	12	1	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr5:140223107C>T	ENST00000531613.1	+	1	2201	c.2201C>T	c.(2200-2202)gCg>gTg	p.A734V	PCDHA8_ENST00000378123.3_Missense_Mutation_p.A734V|PCDHA4_ENST00000512229.2_Intron|PCDHA5_ENST00000529619.1_Intron|PCDHA7_ENST00000525929.1_Intron|PCDHA3_ENST00000522353.2_Intron|PCDHA2_ENST00000526136.1_Intron|PCDHA5_ENST00000529859.1_Intron|PCDHA6_ENST00000529310.1_Intron|PCDHA1_ENST00000504120.2_Intron|PCDHA6_ENST00000527624.1_Intron|PCDHA1_ENST00000394633.3_Intron|PCDHA4_ENST00000530339.1_Intron	NM_018911.2	NP_061734.1	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8	734					cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			NS(2)|breast(3)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(10)|lung(31)|ovary(2)|prostate(2)|skin(4)|stomach(2)|upper_aerodigestive_tract(6)	78			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGTGCCGGGCGGGCAAGCCC	0.662																																																0													49	49	49					5																	140223107		2196	4266	6462	SO:0001583	missense	56140			AF152486	CCDS54919.1	5q31	2010-11-26				ENSG00000204962		"Cadherins / Protocadherins : Clustered"	8674	other	complex locus constituent	"KIAA0345-like 6"	606314				10380929	Standard	NM_018911		Approved			Q9Y5H6		ENST00000531613.1:c.2201C>T	5.37:g.140223107C>T	ENSP00000434655:p.Ala734Val	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGT7|O75281	Missense_Mutation	SNP	ENST00000531613.1	37	CCDS54919.1	.	.	.	.	.	.	.	.	.	.	C	5.825	0.336386	0.11013	.	.	ENSG00000204962	ENST00000531613;ENST00000378123	T;T	0.11712	2.75;2.75	3.06	3.06	0.35304	.	0.235442	0.21287	U	0.077055	T	0.08223	0.0205	N	0.22421	0.69	0.23346	N	0.997868	B;B	0.13145	0.002;0.007	B;B	0.08055	0.001;0.003	T	0.25641	-1.0126	10	0.42905	T	0.14	.	13.3249	0.60454	0.0:1.0:0.0:0.0	.	734;734	Q9Y5H6;Q9Y5H6-2	PCDA8_HUMAN;.	V	734	ENSP00000434655:A734V;ENSP00000367363:A734V	ENSP00000367363:A734V	A	+	2	0	PCDHA8	140203291	0.355000	0.24921	0.151000	0.22473	0.037000	0.13140	2.945000	0.49043	1.692000	0.51112	0.460000	0.39030	GCG		0.662	PCDHA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372830.2	NM_018911		T	140223107	C	T	140223107	3	4	652	1	0	0	0	0	1	0	0	0	11537	768	27	1	2203	1	PCDHA8	5	140223107	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	116695479	140223107	40692153	23	40409										
SLC25A2	83884	broad.mit.edu	37	chr5	140683388	140683388	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gctgtcccccctgcggccccCgctgtgaggtcgatggcggc	15	17	0	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr5:140683388C>T	ENST00000239451.4	-	1	224	c.45G>A	c.(43-45)gcG>gcA	p.A15A		NM_031947.2	NP_114153.1	Q9BXI2	ORNT2_HUMAN	solute carrier family 25 (mitochondrial carrier; ornithine transporter) member 2	15					cellular nitrogen compound metabolic process (GO:0034641)|small molecule metabolic process (GO:0044281)|transport (GO:0006810)|urea cycle (GO:0000050)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)				breast(3)|kidney(1)|large_intestine(2)|lung(7)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	19		all_lung(500;0.000249)|Lung NSC(810;0.0011)|Ovarian(839;0.00556)|Breast(839;0.0173)|all_hematologic(541;0.152)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.00204)	L-Ornithine(DB00129)	CTGCGGCCCCCGCTGTGAGGT	0.607																																																0													45	47	47					5																	140683388		2203	4300	6503	SO:0001819	synonymous_variant	83884			AF332005	CCDS4258.1	5q31.3	2013-05-22			ENSG00000120329	ENSG00000120329		"Solute carriers"	22921	protein-coding gene	gene with protein product		608157				11004451	Standard	NM_031947		Approved	ORNT2	uc003ljf.3	Q9BXI2	OTTHUMG00000129604	ENST00000239451.4:c.45G>A	5.37:g.140683388C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q496C1|Q6XUI0|Q8NFZ2	Silent	SNP	ENST00000239451.4	37	CCDS4258.1																																																																																				0.607	SLC25A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251799.2	NM_031947		T	140683388	C	T	140683388	2	4	652	1	0	0	0	0	0	0	0	1	14495	639	23	1		1	SLC25A2	5	140683388	Silent	SNP	C	TCGA-KM-8476-01A-11D-2310-10	460281	140683388	40231872	24	40410										
PCDH12	51294	broad.mit.edu;mdanderson.org	37	chr5	141335867	141335867	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tcagtgacctctgagcagtgAcctctcctgtgttggagtca	11	11	4	3			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr5:141335867A>G	ENST00000231484.3	-	1	2760	c.1550T>C	c.(1549-1551)gTc>gCc	p.V517A	PCDH12_ENST00000512221.1_5'Flank|AC005740.6_ENST00000607378.1_RNA	NM_016580.2	NP_057664.1	Q9NPG4	PCD12_HUMAN	protocadherin 12	517	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|glycogen metabolic process (GO:0005977)|homophilic cell adhesion (GO:0007156)|labyrinthine layer development (GO:0060711)|neuron recognition (GO:0008038)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(13)|lung(14)|ovary(3)|prostate(2)|skin(1)	38		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGAGCAGTGACCTCTCCTGT	0.517																																																0													90	87	88					5																	141335867		2203	4300	6503	SO:0001583	missense	51294			AF231025	CCDS4269.1	5q31.3	2010-01-26			ENSG00000113555	ENSG00000113555		"Cadherins / Protocadherins : Non-clustered"	8657	protein-coding gene	gene with protein product		605622				10716726, 10380929	Standard	NM_016580		Approved	VE-cadherin-2	uc003llx.3	Q9NPG4	OTTHUMG00000129658	ENST00000231484.3:c.1550T>C	5.37:g.141335867A>G	ENSP00000231484:p.Val517Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXB6|Q96KB8|Q9H7Y6|Q9H8E0	Missense_Mutation	SNP	ENST00000231484.3	37	CCDS4269.1	.	.	.	.	.	.	.	.	.	.	A	19.72	3.880823	0.72294	.	.	ENSG00000113555	ENST00000231484	T	0.67171	-0.25	5.16	5.16	0.70880	Cadherin (5);Cadherin-like (1);	0.194189	0.41823	D	0.000817	T	0.65995	0.2745	M	0.79123	2.44	0.45690	D	0.998607	P	0.43938	0.822	B	0.37550	0.253	T	0.73375	-0.4002	10	0.72032	D	0.01	.	12.9983	0.58660	1.0:0.0:0.0:0.0	.	517	Q9NPG4	PCD12_HUMAN	A	517	ENSP00000231484:V517A	ENSP00000231484:V517A	V	-	2	0	PCDH12	141316051	0.984000	0.35163	1.000000	0.80357	0.984000	0.73092	9.139000	0.94554	2.169000	0.68431	0.533000	0.62120	GTC		0.517	PCDH12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251858.1	NM_016580		G	141335867	A	G	141335867	3	3	652	1	0	0	0	0	1	0	0	0	11517	275	10	3	2020	3	PCDH12	5	141335867	Missense_Mutation	SNP	A	TCGA-KM-8476-01A-11D-2310-10	652479	141335867	39579393	25	40411										
GRIA1	2890	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr5	153065877	153065877	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gtgattgaaatgaaacatgaCggcatccgaaaggtaaggtc	12	6	0	4	rs140876127		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr5:153065877C>T	ENST00000285900.5	+	8	1465	c.1122C>T	c.(1120-1122)gaC>gaT	p.D374D	GRIA1_ENST00000448073.4_Silent_p.D384D|GRIA1_ENST00000340592.5_Silent_p.D374D|GRIA1_ENST00000518783.1_Silent_p.D384D|GRIA1_ENST00000521843.2_Silent_p.D305D|GRIA1_ENST00000518142.1_Silent_p.D294D	NM_000827.3|NM_001258019.1	NP_000818.2|NP_001244948.1	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1	374					ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|long-term memory (GO:0007616)|receptor internalization (GO:0031623)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex (GO:0032281)|axonal spine (GO:0044308)|cell junction (GO:0030054)|cell surface (GO:0009986)|dendrite (GO:0030425)|dendrite membrane (GO:0032590)|dendritic spine (GO:0043197)|endocytic vesicle membrane (GO:0030666)|endoplasmic reticulum (GO:0005783)|neuron spine (GO:0044309)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)|synaptic vesicle (GO:0008021)	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:0004971)|extracellular-glutamate-gated ion channel activity (GO:0005234)|glutamate receptor activity (GO:0008066)|PDZ domain binding (GO:0030165)	p.D374D(2)		NS(1)|breast(4)|endometrium(7)|kidney(3)|large_intestine(24)|liver(2)|lung(23)|ovary(4)|pancreas(1)|prostate(5)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	81		Medulloblastoma(196;0.0391)|all_neural(177;0.16)|all_hematologic(541;0.21)	Kidney(363;0.000173)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Perampanel(DB08883)|Sevoflurane(DB01236)	TGAAACATGACGGCATCCGAA	0.502													C|||	1	0.000199681	0.0	0.0	5008	,	,		17294	0.001		0.0	False		,,,				2504	0.0															2	Substitution - coding silent(2)	large_intestine(2)						C	,	0,4406		0,0,2203	116	104	108		1122,1122	-10.5	0.8	5	dbSNP_134	108	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous,coding-synonymous	GRIA1	NM_000827.3,NM_001114183.1	,	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	,	374/907,374/907	153065877	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	2890				CCDS4322.1, CCDS47318.1, CCDS58986.1, CCDS58987.1, CCDS58988.1, CCDS58989.1	5q33	2012-08-29			ENSG00000155511	ENSG00000155511		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4571	protein-coding gene	gene with protein product		138248		GLUR1		1652753, 1319477	Standard	NM_000827		Approved	GluA1, GLURA	uc011dcy.2	P42261	OTTHUMG00000130148	ENST00000285900.5:c.1122C>T	5.37:g.153065877C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2S0|B7Z2W8|B7Z3F6|B7Z9G9|D3DQI4|E7ESV8|Q2NKM6	Silent	SNP	ENST00000285900.5	37	CCDS4322.1																																																																																				0.502	GRIA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252456.3			T	153065877	C	T	153065877	2	4	652	1	0	0	0	0	0	0	0	1	6774	535	19	1		1	GRIA1	5	153065877	Silent	SNP	C	TCGA-KM-8476-01A-11D-2310-10	11730010	153065877	27849383	26	40412										
FLT4	2324	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr5	180053237	180053237	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	cagggcatgtggactgtggcGcccggacagtgcctttccat	14	12	0	0	rs372947534		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr5:180053237G>A	ENST00000261937.6	-	9	1210	c.1132C>T	c.(1132-1134)Cgc>Tgc	p.R378C	FLT4_ENST00000424276.2_5'UTR|FLT4_ENST00000502649.1_Missense_Mutation_p.R378C|FLT4_ENST00000393347.3_Missense_Mutation_p.R378C	NM_182925.4	NP_891555.2	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4	378	Ig-like C2-type 4.		R -> C (in a renal clear cell carcinoma sample; somatic mutation). {ECO:0000269|PubMed:17344846}.		blood vessel morphogenesis (GO:0048514)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|lymph vessel development (GO:0001945)|lymphangiogenesis (GO:0001946)|negative regulation of apoptotic process (GO:0043066)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of cell proliferation (GO:0008284)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of JNK cascade (GO:0046330)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of protein kinase C signaling (GO:0090037)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation vascular endothelial growth factor production (GO:0010575)|protein autophosphorylation (GO:0046777)|regulation of blood vessel remodeling (GO:0060312)|sprouting angiogenesis (GO:0002040)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)|vascular endothelial growth factor signaling pathway (GO:0038084)|vasculature development (GO:0001944)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|growth factor binding (GO:0019838)|protein phosphatase binding (GO:0019903)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)|vascular endothelial growth factor-activated receptor activity (GO:0005021)	p.R378C(1)		NS(1)|breast(3)|central_nervous_system(2)|endometrium(1)|kidney(6)|large_intestine(5)|liver(2)|lung(37)|ovary(6)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	71	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)	Axitinib(DB06626)|Pazopanib(DB06589)|Regorafenib(DB08896)|Sorafenib(DB00398)|Sunitinib(DB01268)	GGACTGTGGCGCCCGGACAGT	0.647																																					Colon(97;1075 1466 27033 27547 35871)											1	Substitution - Missense(1)	kidney(1)						G	CYS/ARG,CYS/ARG	0,4406		0,0,2203	94	99	98		1132,1132	4.5	1	5		98	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense	FLT4	NM_002020.4,NM_182925.4	180,180	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging,probably-damaging	378/1299,378/1364	180053237	1,13005	2203	4300	6503	SO:0001583	missense	2324			X68203	CCDS4457.1, CCDS43412.1	5q34-q35	2013-01-29			ENSG00000037280	ENSG00000037280	2.7.10.1	"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	3767	protein-coding gene	gene with protein product		136352				1319394	Standard	NM_002020		Approved	VEGFR3, PCL	uc003mlz.4	P35916	OTTHUMG00000130931	ENST00000261937.6:c.1132C>T	5.37:g.180053237G>A	ENSP00000261937:p.Arg378Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6L4|B5A926|Q16067|Q86W07|Q86W08	Missense_Mutation	SNP	ENST00000261937.6	37	CCDS4457.1	.	.	.	.	.	.	.	.	.	.	G	16.91	3.251534	0.59212	0.0	1.16E-4	ENSG00000037280	ENST00000261937;ENST00000393347;ENST00000502649;ENST00000376868	T;T;T	0.13307	2.6;2.6;2.6	4.5	4.5	0.54988	Immunoglobulin subtype (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.36936	0.0985	M	0.84683	2.71	0.46874	D	0.999231	D;D;D	0.89917	1.0;0.997;0.998	D;P;P	0.71184	0.972;0.901;0.901	T	0.22173	-1.0224	9	0.72032	D	0.01	.	8.8586	0.35242	0.1038:0.0:0.8962:0.0	.	378;378;378	P35916-3;E9PD35;P35916	.;.;VGFR3_HUMAN	C	378;378;378;188	ENSP00000261937:R378C;ENSP00000377016:R378C;ENSP00000426057:R378C	ENSP00000261937:R378C	R	-	1	0	FLT4	179985843	0.049000	0.20398	0.995000	0.50966	0.593000	0.36681	1.754000	0.38369	2.236000	0.73375	0.561000	0.74099	CGC		0.647	FLT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253527.4			A	180053237	G	A	180053237	3	1	652	1	0	0	0	0	1	0	0	0	5951	1087	38	1	3055	1	FLT4	5	180053237	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10	26987360	180053237	862023	27	40413										
HIVEP1	3096	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	12162043	12162043	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gtgctgcgagagatgaaaacGacacaattccgtctgtagac	11	9	1	3			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr6:12162043G>A	ENST00000379388.2	+	8	7191	c.6859G>A	c.(6859-6861)Gac>Aac	p.D2287N	HIVEP1_ENST00000541134.1_Missense_Mutation_p.D152N	NM_002114.2	NP_002105.2	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer binding protein 1	2287					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription, DNA-templated (GO:0006351)	mitochondrion (GO:0005739)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(5)|central_nervous_system(1)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(11)|liver(1)|lung(31)|ovary(4)|prostate(1)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(3)	90	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				AGATGAAAACGACACAATTCC	0.512																																																0													98	100	99					6																	12162043		2095	4234	6329	SO:0001583	missense	3096			J05011	CCDS43426.1	6p24-p22.3	2012-10-05	2001-11-28		ENSG00000095951	ENSG00000095951		"Zinc fingers, C2H2-type"	4920	protein-coding gene	gene with protein product		194540	"human immunodeficiency virus type I enhancer-binding protein 1", "zinc finger protein 40"	ZNF40		2037300	Standard	XR_241895		Approved	CIRIP, MBP-1, CRYBP1, PRDII-BF1, ZAS1, Schnurri-1, ZNF40A	uc003nac.3	P15822	OTTHUMG00000014265	ENST00000379388.2:c.6859G>A	6.37:g.12162043G>A	ENSP00000368698:p.Asp2287Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTU3|Q14122|Q5MPB1|Q5VW60	Missense_Mutation	SNP	ENST00000379388.2	37	CCDS43426.1	.	.	.	.	.	.	.	.	.	.	G	11.90	1.777903	0.31502	.	.	ENSG00000095951	ENST00000379388;ENST00000442081;ENST00000541134;ENST00000542327	T;T	0.31769	3.0;1.48	5.77	2.92	0.33932	.	1.573320	0.04254	N	0.339229	T	0.08447	0.0210	N	0.22421	0.69	0.09310	N	1	B	0.25850	0.136	B	0.18871	0.023	T	0.31696	-0.9934	10	0.29301	T	0.29	-0.2298	10.3306	0.43820	0.0695:0.3587:0.5718:0.0	.	2287	P15822	ZEP1_HUMAN	N	2287;214;152;269	ENSP00000368698:D2287N;ENSP00000445617:D152N	ENSP00000368698:D2287N	D	+	1	0	HIVEP1	12270029	0.002000	0.14202	0.001000	0.08648	0.015000	0.08874	1.237000	0.32695	0.310000	0.22990	0.655000	0.94253	GAC		0.512	HIVEP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039870.2	NM_002114		A	12162043	G	A	12162043	3	1	652	1	0	0	0	0	1	0	0	0	7193	1058	37	1	6885	1	HIVEP1	6	12162043	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10		12162043	158953024	28	40414										
MUC21	394263	mdanderson.org	37	chr6	30955158	30955158	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	agcacgacctccagtggggcCagcacagccaccaactctga	10	16	1	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr6:30955158C>T	ENST00000376296.3	+	2	1447	c.1206C>T	c.(1204-1206)gcC>gcT	p.A402A	MUC21_ENST00000486149.2_5'UTR	NM_001010909.2	NP_001010909.2	Q5SSG8	MUC21_HUMAN	mucin 21, cell surface associated	402	28 X 15 AA approximate tandem repeats.|Ser-rich.				cellular protein metabolic process (GO:0044267)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-substrate adhesion (GO:0010812)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(4)|breast(1)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(3)|prostate(4)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	42						CCAGTGGGGCCAGCACAGCCA	0.627																																																0													140	138	138					6																	30955158		2203	4300	6503	SO:0001819	synonymous_variant	394263			AK056612	CCDS34388.1	6p21.33	2008-05-14	2008-05-14	2008-05-14	ENSG00000204544	ENSG00000204544		"Mucins"	21661	protein-coding gene	gene with protein product	"epiglycanin"		"chromosome 6 open reading frame 205"	C6orf205		17977904	Standard	NM_001010909		Approved	bCX31G15.2	uc003nsh.2	Q5SSG8	OTTHUMG00000031216	ENST00000376296.3:c.1206C>T	6.37:g.30955158C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0UZT7|B4DQ55|C9JMK2|D9N007|Q0VGF1|Q3B7T2|Q5SS94|Q6UXC5	Silent	SNP	ENST00000376296.3	37	CCDS34388.1																																																																																				0.627	MUC21-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000128579.3	NM_001010909		T	30955158	C	T	30955158	2	4	652	1	0	0	0	0	0	0	0	1	9984	581	21	2		2	MUC21	6	30955158	Silent	SNP	C	TCGA-KM-8476-01A-11D-2310-10	18793115	30955158	140159909	29	40415										
SYNGAP1	8831	ucsc.edu	37	chr6	33400504	33400504	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	taaaaagctccatcaaacgaAcgaagtcacaacccaaactt	4	12	2	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr6:33400504A>G	ENST00000418600.2	+	5	531	c.430A>G	c.(430-432)Acg>Gcg	p.T144A	SYNGAP1_ENST00000428982.2_Missense_Mutation_p.T85A|SYNGAP1_ENST00000293748.5_Missense_Mutation_p.T144A|SYNGAP1_ENST00000496374.1_3'UTR	NM_006772.2	NP_006763.2	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	144					dendrite development (GO:0016358)|negative regulation of axonogenesis (GO:0050771)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of Ras protein signal transduction (GO:0046580)|pattern specification process (GO:0007389)|positive regulation of Ras GTPase activity (GO:0032320)|Ras protein signal transduction (GO:0007265)|receptor clustering (GO:0043113)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of MAPK cascade (GO:0043408)|regulation of synapse structure and activity (GO:0050803)|regulation of synaptic plasticity (GO:0048167)|visual learning (GO:0008542)	cytoplasm (GO:0005737)|dendritic shaft (GO:0043198)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)	Rab GTPase activator activity (GO:0005097)|Ras GTPase activator activity (GO:0005099)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(9)|lung(15)|ovary(7)|pancreas(1)|stomach(1)|urinary_tract(1)	43						CATCAAACGAACGAAGTCACA	0.582																																																0													75	64	67					6																	33400504		2203	4300	6503	SO:0001583	missense	8831			AB067525	CCDS34434.2	6p21.3	2010-06-25	2010-06-25		ENSG00000197283	ENSG00000197283			11497	protein-coding gene	gene with protein product		603384	"synaptic Ras GTPase activating protein 1 homolog (rat)"			9581761, 18323856	Standard	NM_006772		Approved	SYNGAP, RASA5, KIAA1938	uc011dri.2	Q96PV0	OTTHUMG00000031096	ENST00000418600.2:c.430A>G	6.37:g.33400504A>G	ENSP00000403636:p.Thr144Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A2AB17|A2BEL6|A2BEL7|A8MQC4|Q8TCS2|Q9UGE2	Missense_Mutation	SNP	ENST00000418600.2	37	CCDS34434.2	.	.	.	.	.	.	.	.	.	.	A	12.86	2.065748	0.36470	.	.	ENSG00000197283	ENST00000293748;ENST00000418600;ENST00000449372;ENST00000428982	T;T;T	0.19938	2.11;2.21;2.3	4.36	4.36	0.52297	Pleckstrin homology domain (1);	0.117466	0.64402	N	0.000019	T	0.07324	0.0185	N	0.26130	0.795	0.44976	D	0.997994	B;B;B	0.14438	0.0;0.0;0.01	B;B;B	0.15870	0.001;0.001;0.014	T	0.06899	-1.0801	10	0.51188	T	0.08	.	11.5483	0.50706	1.0:0.0:0.0:0.0	.	144;144;144	Q96PV0;Q96PV0-4;B7ZCA0	SYGP1_HUMAN;.;.	A	144;144;144;85	ENSP00000293748:T144A;ENSP00000403636:T144A;ENSP00000412475:T85A	ENSP00000293748:T144A	T	+	1	0	SYNGAP1	33508482	1.000000	0.71417	0.998000	0.56505	0.989000	0.77384	5.143000	0.64826	1.840000	0.53500	0.383000	0.25322	ACG		0.582	SYNGAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076151.4	XM_166407		G	33400504	A	G	33400504	3	3	652	1	0	0	0	0	1	0	0	0	15459	43	2	3	448	3	SYNGAP1	6	33400504	Missense_Mutation	SNP	A	TCGA-KM-8476-01A-11D-2310-10	2445346	33400504	137714563	30	40416										
GRM1	2911	broad.mit.edu;ucsc.edu	37	chr6	146720023	146720023	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gtcaccctaatctttgtactGtaccgggacacaccagtggt	9	12	2	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr6:146720023G>T	ENST00000282753.1	+	7	2083	c.1848G>T	c.(1846-1848)ctG>ctT	p.L616L	GRM1_ENST00000392299.2_Silent_p.L616L|GRM1_ENST00000355289.4_Silent_p.L616L|GRM1_ENST00000507907.1_Silent_p.L616L|GRM1_ENST00000361719.2_Silent_p.L616L|GRM1_ENST00000492807.2_Silent_p.L616L			Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1	616					activation of MAPK activity (GO:0000187)|activation of MAPKK activity (GO:0000186)|cell death (GO:0008219)|cellular response to electrical stimulus (GO:0071257)|dimeric G-protein coupled receptor signaling pathway (GO:0038042)|G-protein coupled glutamate receptor signaling pathway (GO:0007216)|G-protein coupled receptor signaling pathway (GO:0007186)|locomotory behavior (GO:0007626)|positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G-protein coupled signaling pathway (GO:0051482)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|regulation of sensory perception of pain (GO:0051930)|regulation of synaptic transmission, glutamatergic (GO:0051966)|sensory perception of pain (GO:0019233)|synaptic transmission (GO:0007268)	dendrite (GO:0030425)|G-protein coupled receptor dimeric complex (GO:0038037)|G-protein coupled receptor homodimeric complex (GO:0038038)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)	G-protein coupled receptor activity (GO:0004930)|glutamate receptor activity (GO:0008066)			NS(2)|breast(5)|central_nervous_system(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(23)|lung(54)|ovary(7)|pancreas(2)|prostate(5)|skin(7)|upper_aerodigestive_tract(4)|urinary_tract(1)	126		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)		TCTTTGTACTGTACCGGGACA	0.483																																																0													264	221	236					6																	146720023		2203	4300	6503	SO:0001819	synonymous_variant	2911			U31215	CCDS5209.1, CCDS47497.1, CCDS64548.1	6q24	2014-06-12			ENSG00000152822	ENSG00000152822		"GPCR / Class C : Glutamate receptors, metabotropic", "Glutamate receptors"	4593	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 85"	604473				9076744, 9376535	Standard	NM_001278064		Approved	GPRC1A, mGlu1, MGLUR1, PPP1R85	uc010khw.2	Q13255	OTTHUMG00000015752	ENST00000282753.1:c.1848G>T	6.37:g.146720023G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B9EG79|F8W805|Q13256|Q14757|Q14758|Q5VTF7|Q5VTF8|Q9NU10|Q9UGS9|Q9UGT0	Silent	SNP	ENST00000282753.1	37	CCDS5209.1																																																																																				0.483	GRM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042574.1	NM_000838		T	146720023	G	T	146720023	2	4	652	1	0	0	0	0	0	0	0	1	6803	1364	48	4		4	GRM1	6	146720023	Silent	SNP	G	TCGA-KM-8476-01A-11D-2310-10	113319519	146720023	24395044	31	40417										
PLG	5340	bcgsc.ca	37	chr6	161143514	161143514	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gctaccgaggcacatcctccAccaccaccacaggaaagaag	8	16	0	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr6:161143514A>T	ENST00000308192.9	+	10	1234	c.1171A>T	c.(1171-1173)Acc>Tcc	p.T391S		NM_000301.3	NP_000292.1	P00747	PLMN_HUMAN	plasminogen	391	Kringle 4. {ECO:0000255|PROSITE- ProRule:PRU00121}.				blood coagulation (GO:0007596)|cellular protein metabolic process (GO:0044267)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|fibrinolysis (GO:0042730)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell-cell adhesion mediated by cadherin (GO:2000048)|negative regulation of cell-substrate adhesion (GO:0010812)|negative regulation of fibrinolysis (GO:0051918)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of fibrinolysis (GO:0051919)|tissue remodeling (GO:0048771)	blood microparticle (GO:0072562)|cell surface (GO:0009986)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|extrinsic component of external side of plasma membrane (GO:0031232)|plasma membrane (GO:0005886)|platelet alpha granule lumen (GO:0031093)	apolipoprotein binding (GO:0034185)|protein domain specific binding (GO:0019904)|serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(12)|lung(19)|ovary(1)|prostate(3)|skin(9)|upper_aerodigestive_tract(1)	59				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Alteplase(DB00009)|Aminocaproic Acid(DB00513)|Anistreplase(DB00029)|Aprotinin(DB06692)|Reteplase(DB00015)|Streptokinase(DB00086)|Tenecteplase(DB00031)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	CACATCCTCCACCACCACCAC	0.483																																																0													138	124	128					6																	161143514		2203	4300	6503	SO:0001583	missense	5340			M74220	CCDS5279.1, CCDS55074.1	6q26	2012-10-02			ENSG00000122194	ENSG00000122194			9071	protein-coding gene	gene with protein product		173350					Standard	NM_000301		Approved		uc003qtm.4	P00747	OTTHUMG00000015957	ENST00000308192.9:c.1171A>T	6.37:g.161143514A>T	ENSP00000308938:p.Thr391Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q15146|Q5TEH4|Q6PA00	Missense_Mutation	SNP	ENST00000308192.9	37	CCDS5279.1	.	.	.	.	.	.	.	.	.	.	A	16.00	2.999575	0.54147	.	.	ENSG00000122194	ENST00000308192	T	0.63744	-0.06	5.18	5.18	0.71444	Kringle (5);Kringle-like fold (1);	0.641780	0.12774	U	0.440292	T	0.65698	0.2716	M	0.81341	2.54	0.23113	N	0.99828	P	0.37015	0.578	P	0.51297	0.665	T	0.64525	-0.6387	10	0.62326	D	0.03	.	10.6335	0.45551	0.8391:0.1609:0.0:0.0	.	391	P00747	PLMN_HUMAN	S	391	ENSP00000308938:T391S	ENSP00000308938:T391S	T	+	1	0	PLG	161063504	0.981000	0.34729	0.394000	0.26270	0.502000	0.33828	2.748000	0.47483	1.952000	0.56665	0.383000	0.25322	ACC		0.483	PLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042959.2	NM_000301		T	161143514	A	T	161143514	3	4	652	1	0	0	0	0	1	0	0	0	12093	159	6	5	1213	5	PLG	6	161143514	Missense_Mutation	SNP	A	TCGA-KM-8476-01A-11D-2310-10	14423491	161143514	9971553	32	40418										
SFT2D1	113402	broad.mit.edu	37	chr6	166736357	166736357	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	aagcttaccttgcatatgggAtgtacgacaggctatacctg	10	9	0	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr6:166736357A>G	ENST00000361731.3	-	7	537	c.428T>C	c.(427-429)aTc>aCc	p.I143T	SFT2D1_ENST00000487841.1_5'UTR	NM_145169.1	NP_660152.1			SFT2 domain containing 1											NS(1)|central_nervous_system(1)|large_intestine(3)|upper_aerodigestive_tract(1)	6		Breast(66;0.000148)|Prostate(117;0.109)|Ovarian(120;0.199)		OV - Ovarian serous cystadenocarcinoma(33;2.63e-19)|BRCA - Breast invasive adenocarcinoma(81;4.92e-06)|GBM - Glioblastoma multiforme(31;4.58e-05)		TGCATATGGGATGTACGACAG	0.318																																																0													130	124	126					6																	166736357		2203	4300	6503	SO:0001583	missense	113402			AF041429	CCDS5292.1	6q27	2008-02-05	2005-07-25	2005-07-25	ENSG00000198818	ENSG00000198818			21102	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 83"	C6orf83			Standard	NM_145169		Approved	MGC19825, pRGR1	uc003qux.3	Q8WV19	OTTHUMG00000016001	ENST00000361731.3:c.428T>C	6.37:g.166736357A>G	ENSP00000354590:p.Ile143Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000361731.3	37	CCDS5292.1	.	.	.	.	.	.	.	.	.	.	A	14.73	2.623451	0.46840	.	.	ENSG00000198818	ENST00000361731	T	0.51071	0.72	4.93	4.93	0.64822	.	0.000000	0.85682	D	0.000000	T	0.57475	0.2056	H	0.97682	4.055	0.80722	D	1	B	0.31752	0.338	B	0.37015	0.239	T	0.70378	-0.4888	10	0.87932	D	0	-24.6251	12.8362	0.57775	1.0:0.0:0.0:0.0	.	143	Q8WV19	SFT2A_HUMAN	T	143	ENSP00000354590:I143T	ENSP00000354590:I143T	I	-	2	0	SFT2D1	166656347	1.000000	0.71417	1.000000	0.80357	0.892000	0.51952	5.854000	0.69503	1.964000	0.57103	0.443000	0.29094	ATC		0.318	SFT2D1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043061.2	NM_145169		G	166736357	A	G	166736357	3	3	652	1	0	0	0	0	1	0	0	0	14198	333	12	3	59	3	SFT2D1	6	166736357	Missense_Mutation	SNP	A	TCGA-KM-8476-01A-11D-2310-10	5592843	166736357	4378710	33	40419										
MUC17	140453	mdanderson.org	37	chr7	100680472	100680472	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tcaactcctagggaaggaagGcctccattaacaagtatacc	8	11	1	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr7:100680472G>C	ENST00000306151.4	+	3	5839	c.5775G>C	c.(5773-5775)agG>agC	p.R1925S		NM_001040105.1	NP_001035194.1	Q685J3	MUC17_HUMAN	mucin 17, cell surface associated	1925	59 X approximate tandem repeats.|Ser-rich.				cellular homeostasis (GO:0019725)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	apical plasma membrane (GO:0016324)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)	extracellular matrix constituent, lubricant activity (GO:0030197)|PDZ domain binding (GO:0030165)			NS(3)|breast(14)|central_nervous_system(2)|cervix(2)|endometrium(27)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(28)|lung(179)|ovary(19)|pancreas(1)|prostate(13)|skin(26)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(4)	343	Lung NSC(181;0.136)|all_lung(186;0.182)					GGGAAGGAAGGCCTCCATTAA	0.502																																																0													246	243	244					7																	100680472		2203	4300	6503	SO:0001583	missense	140453			AJ606307	CCDS34711.1	7q22	2007-01-17	2006-03-14		ENSG00000169876	ENSG00000169876		"Mucins"	16800	protein-coding gene	gene with protein product		608424				11855812	Standard	NM_001040105		Approved		uc003uxp.1	Q685J3	OTTHUMG00000157030	ENST00000306151.4:c.5775G>C	7.37:g.100680472G>C	ENSP00000302716:p.Arg1925Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O14761|Q685J2|Q8TDH7	Missense_Mutation	SNP	ENST00000306151.4	37	CCDS34711.1	.	.	.	.	.	.	.	.	.	.	N	0.005	-2.151273	0.00325	.	.	ENSG00000169876	ENST00000306151	T	0.02787	4.16	0.579	-1.16	0.09678	.	.	.	.	.	T	0.00815	0.0027	N	0.01576	-0.805	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.40683	-0.9550	9	0.02654	T	1	.	0.1144	0.00059	0.2275:0.1978:0.2306:0.3441	.	1925	Q685J3	MUC17_HUMAN	S	1925	ENSP00000302716:R1925S	ENSP00000302716:R1925S	R	+	3	2	MUC17	100467192	0.007000	0.16637	0.000000	0.03702	0.002000	0.02628	0.028000	0.13644	-2.485000	0.00520	-3.513000	0.00033	AGG		0.502	MUC17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347161.1	NM_001040105		C	100680472	G	C	100680472	3	2	652	1	0	0	0	0	1	0	0	0	9981	1194	42	4	5785	4	MUC17	7	100680472	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10		100680472	58458191	34	40420										
PMPCB	9512	broad.mit.edu	37	chr7	102944340	102944340	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	cagcacattgggagaagcagAgattgaacgtgagcgtggag	16	6	0	4			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr7:102944340A>G	ENST00000249269.4	+	5	547	c.509A>G	c.(508-510)gAg>gGg	p.E170G	PMPCB_ENST00000428154.1_Missense_Mutation_p.E170G|PMPCB_ENST00000420236.2_Missense_Mutation_p.E65G	NM_004279.2	NP_004270.2	O75439	MPPB_HUMAN	peptidase (mitochondrial processing) beta	170					cellular protein metabolic process (GO:0044267)|protein targeting to mitochondrion (GO:0006626)	mitochondrial inner membrane (GO:0005743)	metal ion binding (GO:0046872)|metalloendopeptidase activity (GO:0004222)			central_nervous_system(1)|endometrium(1)|large_intestine(1)|liver(1)|lung(9)|ovary(4)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	21						GGAGAAGCAGAGATTGAACGT	0.348																																																0													97	93	95					7																	102944340		2203	4300	6503	SO:0001583	missense	9512			AF054182	CCDS5730.1	7q22.1	2007-07-30			ENSG00000105819	ENSG00000105819			9119	protein-coding gene	gene with protein product		603131				9653160	Standard	XM_005250717		Approved	MPPB, MPPP52	uc003vbl.3	O75439	OTTHUMG00000157205	ENST00000249269.4:c.509A>G	7.37:g.102944340A>G	ENSP00000249269:p.Glu170Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O60416|Q96FV4	Missense_Mutation	SNP	ENST00000249269.4	37	CCDS5730.1	.	.	.	.	.	.	.	.	.	.	A	24.8	4.571301	0.86542	.	.	ENSG00000105819	ENST00000249269;ENST00000428154;ENST00000420236	T;T;T	0.21191	2.02;2.02;2.02	5.2	5.2	0.72013	Peptidase M16, core (1);Metalloenzyme, LuxS/M16 peptidase-like, metal-binding (1);Peptidase M16, N-terminal (1);	0.000000	0.85682	D	0.000000	T	0.54415	0.1857	M	0.93328	3.405	0.80722	D	1	P;P;D;D;D;D;D	0.69078	0.613;0.952;0.986;0.986;0.986;0.986;0.997	P;P;P;P;P;P;P	0.62649	0.788;0.842;0.842;0.842;0.842;0.842;0.905	T	0.67669	-0.5611	10	0.59425	D	0.04	.	15.0883	0.72174	1.0:0.0:0.0:0.0	.	65;65;170;170;161;170;170	E7ERZ4;B4DM90;A8K1E9;B3KM34;Q96CP5;O75439;G3V0E4	.;.;.;.;.;MPPB_HUMAN;.	G	170;170;65	ENSP00000249269:E170G;ENSP00000390035:E170G;ENSP00000410393:E65G	ENSP00000249269:E170G	E	+	2	0	PMPCB	102731576	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.339000	0.96797	1.959000	0.56917	0.528000	0.53228	GAG		0.348	PMPCB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347913.1	NM_004279		G	102944340	A	G	102944340	3	3	652	1	0	0	0	0	1	0	0	0	12148	304	11	3	527	3	PMPCB	7	102944340	Missense_Mutation	SNP	A	TCGA-KM-8476-01A-11D-2310-10	2263868	102944340	56194323	35	40421										
ABP1	26	broad.mit.edu;mdanderson.org	37	chr7	150555109	150555109	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	actcacttggtgcactaccgCgtagacctggatgtggcagg	13	11	1	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr7:150555109C>T	ENST00000493429.1	+	4	2135	c.1551C>T	c.(1549-1551)cgC>cgT	p.R517R	AOC1_ENST00000467291.1_Silent_p.R517R|AOC1_ENST00000416793.2_Silent_p.R517R|AOC1_ENST00000480582.1_3'UTR|AOC1_ENST00000360937.4_Silent_p.R517R			P19801	AOC1_HUMAN	amine oxidase, copper containing 1	517					amine metabolic process (GO:0009308)|cellular response to azide (GO:0097185)|cellular response to copper ion (GO:0071280)|cellular response to copper ion starvation (GO:0035874)|cellular response to heparin (GO:0071504)|cellular response to histamine (GO:0071420)|oxidation-reduction process (GO:0055114)|response to antibiotic (GO:0046677)|response to drug (GO:0042493)|sodium ion transmembrane transport (GO:0035725)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|peroxisome (GO:0005777)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	calcium ion binding (GO:0005509)|cation channel activity (GO:0005261)|copper ion binding (GO:0005507)|diamine oxidase activity (GO:0052597)|drug binding (GO:0008144)|heparin binding (GO:0008201)|histamine oxidase activity (GO:0052598)|methylputrescine oxidase activity (GO:0052599)|primary amine oxidase activity (GO:0008131)|propane-1,3-diamine oxidase activity (GO:0052600)|protein complex binding (GO:0032403)|protein homodimerization activity (GO:0042803)|quinone binding (GO:0048038)|receptor activity (GO:0004872)|sodium channel activity (GO:0005272)|zinc ion binding (GO:0008270)									Amiloride(DB00594)	TGCACTACCGCGTAGACCTGG	0.567																																																0													53	59	57					7																	150555109		2162	4257	6419	SO:0001819	synonymous_variant	26			AK092514	CCDS43679.1, CCDS64797.1	7q36.1	2013-06-19	2013-06-19	2013-06-19	ENSG00000002726	ENSG00000002726	1.4.3.22		80	protein-coding gene	gene with protein product	"diamine oxidase"	104610	"amiloride binding protein 1 (amine oxidase (copper-containing))"	ABP1		8182053	Standard	NM_001091		Approved	DAO	uc003wia.2	P19801	OTTHUMG00000158306	ENST00000493429.1:c.1551C>T	7.37:g.150555109C>T		Somatic		WXS	Illumina HiSeq	Phase_I	C9J690|Q16683|Q16684|Q56II4|Q6GU42	Silent	SNP	ENST00000493429.1	37	CCDS43679.1																																																																																				0.567	AOC1-009	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350628.1	NM_001091		T	150555109	C	T	150555109	2	4	652	1	0	0	0	0	0	0	0	1	98	755	27	1		1	ABP1	7	150555109	Silent	SNP	C	TCGA-KM-8476-01A-11D-2310-10	47610769	150555109	8583554	36	40422										
DEFA1	1668	mdanderson.org	37	chr8	6873603	6873603	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	ctggtattctgcaatagcagTccatgtttttccttgagcct	8	10	1	1	rs145076681		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr8:6873603T>G	ENST00000327857.2	-	3	285	c.194A>C	c.(193-195)gAc>gCc	p.D65A	DEFA1B_ENST00000535841.1_Intron	NM_005217.3	NP_005208.1	P59666	DEF3_HUMAN	defensin, alpha 3, neutrophil-specific	65					antibacterial humoral response (GO:0019731)|defense response to fungus (GO:0050832)|defense response to Gram-positive bacterium (GO:0050830)|defense response to virus (GO:0051607)|innate immune response (GO:0045087)|innate immune response in mucosa (GO:0002227)|intracellular estrogen receptor signaling pathway (GO:0030520)|killing of cells of other organism (GO:0031640)	azurophil granule lumen (GO:0035578)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)		p.D65A(1)		endometrium(1)|prostate(2)	3				COAD - Colon adenocarcinoma(149;0.0561)|READ - Rectum adenocarcinoma(644;0.118)		GCAATAGCAGTCCATGTTTTT	0.498																																																1	Substitution - Missense(1)	prostate(1)											156	118	130					8																	6873603		1957	4128	6085	SO:0001583	missense	1668			M23281	CCDS5962.1	8p23.1	2009-08-05			ENSG00000239839	ENSG00000239839		"Defensins, alpha"	2762	protein-coding gene	gene with protein product		604522		DEF3		8477861, 17214878, 15944200	Standard	NM_005217		Approved	HNP-3		P59666	OTTHUMG00000090381	ENST00000327857.2:c.194A>C	8.37:g.6873603T>G	ENSP00000328359:p.Asp65Ala	Somatic		WXS	Illumina HiSeq	Phase_I	P11479|Q14125	Missense_Mutation	SNP	ENST00000327857.2	37	CCDS5962.1	.	.	.	.	.	.	.	.	.	.	.	0.006	-2.042516	0.00402	.	.	ENSG00000239839	ENST00000327857	T	0.41400	1.0	1.01	-2.03	0.07365	.	.	.	.	.	T	0.15046	0.0363	.	.	.	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.24154	-1.0168	7	0.08179	T	0.78	.	0.1742	0.00116	0.3008:0.2168:0.2655:0.217	.	65	P59666	DEF3_HUMAN	A	65	ENSP00000328359:D65A	ENSP00000328359:D65A	D	-	2	0	DEFA3	6861013	0.002000	0.14202	0.000000	0.03702	0.011000	0.07611	-0.189000	0.09629	-1.937000	0.01047	-0.806000	0.03193	GAC		0.498	DEFA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206753.2	NM_005217		G	6873603	T	G	6873603	3	3	652	1	0	0	0	0	1	0	0	0	4390	1667	58	5	680	5	DEFA1	8	6873603	Missense_Mutation	SNP	T	TCGA-KM-8476-01A-11D-2310-10		6873603	139490419	37	40423										
MFHAS1	9258	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr8	8748357	8748357	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	atccctctggaagaagacatTgaggatgtcgatgaggcggg	15	7	1	4			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr8:8748357T>A	ENST00000276282.6	-	1	2798	c.2212A>T	c.(2212-2214)Aat>Tat	p.N738Y		NM_004225.2	NP_004216.2	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified sequence 1	738										endometrium(1)|kidney(3)|large_intestine(7)|lung(6)|ovary(1)|prostate(2)|stomach(1)	21		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)		AAGAAGACATTGAGGATGTCG	0.587																																					Melanoma(103;1201 2045 17515 28966)											0													71	67	68					8																	8748357		2203	4300	6503	SO:0001583	missense	9258			AB016816	CCDS34844.1	8p23.1	2014-03-07			ENSG00000147324	ENSG00000147324			16982	protein-coding gene	gene with protein product	"leucine rich repeat containing 65", "malignant fibrous histiocytoma-amplified sequences with leucine-rich tandem repeats 1"	605352				9973190	Standard	NM_004225		Approved	MASL1, LRRC65	uc003wsj.1	Q9Y4C4	OTTHUMG00000163676	ENST00000276282.6:c.2212A>T	8.37:g.8748357T>A	ENSP00000276282:p.Asn738Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q96CI0	Missense_Mutation	SNP	ENST00000276282.6	37	CCDS34844.1	.	.	.	.	.	.	.	.	.	.	T	16.90	3.251286	0.59212	.	.	ENSG00000147324	ENST00000276282	T	0.36157	1.27	4.76	4.76	0.60689	.	0.000000	0.85682	D	0.000000	T	0.55000	0.1893	L	0.56769	1.78	0.58432	D	0.999999	D	0.76494	0.999	D	0.81914	0.995	T	0.57429	-0.7813	10	0.59425	D	0.04	.	13.6484	0.62297	0.0:0.0:0.0:1.0	.	738	Q9Y4C4	MFHA1_HUMAN	Y	738	ENSP00000276282:N738Y	ENSP00000276282:N738Y	N	-	1	0	MFHAS1	8785767	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.499000	0.81566	2.008000	0.58898	0.533000	0.62120	AAT		0.587	MFHAS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374724.2	NM_004225		A	8748357	T	A	8748357	3	1	652	1	0	0	0	0	1	0	0	0	9528	1812	63	5	958	5	MFHAS1	8	8748357	Missense_Mutation	SNP	T	TCGA-KM-8476-01A-11D-2310-10	1874754	8748357	137615665	38	40424										
PABPC1	26986	broad.mit.edu	37	chr8	101724606	101724606	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	ttacctttgcactagtgattGtaccaaatggagaaaactct	7	8	1	2	rs202060459		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr8:101724606G>A	ENST00000318607.5	-	7	2084	c.956C>T	c.(955-957)aCa>aTa	p.T319I	PABPC1_ENST00000519596.1_5'UTR|PABPC1_ENST00000519004.1_Missense_Mutation_p.T274I|PABPC1_ENST00000522387.1_Missense_Mutation_p.T287I	NM_002568.3	NP_002559.2	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	319	RRM 4. {ECO:0000255|PROSITE- ProRule:PRU00176}.				cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|mRNA polyadenylation (GO:0006378)|mRNA splicing, via spliceosome (GO:0000398)|mRNA stabilization (GO:0048255)|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:2000623)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|positive regulation of translation (GO:0045727)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)|poly(U) RNA binding (GO:0008266)|protein C-terminus binding (GO:0008022)|translation activator activity (GO:0008494)	p.T319I(2)		breast(2)|endometrium(4)|kidney(15)|large_intestine(4)|lung(13)|prostate(1)|skin(1)	40	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			ACTAGTGATTGTACCAAATGG	0.284																																																2	Substitution - Missense(2)	kidney(1)|endometrium(1)											154	166	162					8																	101724606		2203	4298	6501	SO:0001583	missense	26986			Y00345	CCDS6289.1	8q22.2-q23	2013-02-12	2004-04-20		ENSG00000070756	ENSG00000070756		"RNA binding motif (RRM) containing"	8554	protein-coding gene	gene with protein product		604679	"poly(A)-binding protein, cytoplasmic 2"	PAB1, PABPC2		2885805	Standard	XM_005250861		Approved	PABP1, PABPL1	uc003yjs.1	P11940	OTTHUMG00000164779	ENST00000318607.5:c.956C>T	8.37:g.101724606G>A	ENSP00000313007:p.Thr319Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q15097|Q93004	Missense_Mutation	SNP	ENST00000318607.5	37	CCDS6289.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	26.8|26.8	4.768189|4.768189	0.90020|0.90020	.|.	.|.	ENSG00000070756|ENSG00000070756	ENST00000519100|ENST00000318607;ENST00000347137;ENST00000519004;ENST00000522387	.|T;T;T	.|0.16196	.|2.36;2.36;2.36	5.65|5.65	5.65|5.65	0.86999|0.86999	.|Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	.|0.000000	.|0.64402	.|D	.|0.000009	.|T	.|0.37652	.|0.1011	M|M	0.62154|0.62154	1.92|1.92	0.80722|0.80722	D|D	1|1	.|P;P;D	.|0.54964	.|0.917;0.784;0.969	.|P;B;P	.|0.56916	.|0.747;0.442;0.809	.|T	.|0.03784	.|-1.1004	.|10	.|0.87932	.|D	.|0	.|.	20.0919|20.0919	0.97823|0.97823	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|287;319;319	.|E7ERJ7;B3KT93;P11940	.|.;.;PABP1_HUMAN	X|I	188|319;319;274;287	.|ENSP00000313007:T319I;ENSP00000429594:T274I;ENSP00000429395:T287I	.|ENSP00000313007:T319I	Q|T	-|-	1|2	0|0	PABPC1|PABPC1	101793782|101793782	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.999000|0.999000	0.98932|0.98932	9.776000|9.776000	0.99001|0.99001	2.824000|2.824000	0.97209|0.97209	0.655000|0.655000	0.94253|0.94253	CAA|ACA		0.284	PABPC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380217.1	NM_002568		A	101724606	G	A	101724606	3	1	652	1	0	0	0	0	1	0	0	0	11370	1377	48	2	986	2	PABPC1	8	101724606	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10	92976249	101724606	44639416	39	40425										
ADCY8	114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	131922101	131922101	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	caacatcgtgttttgtccttGaccgcacatacctgttgaca	7	12	0	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr8:131922101G>A	ENST00000286355.5	-	6	3585	c.1493C>T	c.(1492-1494)tCa>tTa	p.S498L	ADCY8_ENST00000377928.3_Missense_Mutation_p.S498L	NM_001115.2	NP_001106.1	P40145	ADCY8_HUMAN	adenylate cyclase 8 (brain)	498					activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|learning or memory (GO:0007611)|long-term memory (GO:0007616)|neurotrophin TRK receptor signaling pathway (GO:0048011)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	adenylate cyclase activity (GO:0004016)|ATP binding (GO:0005524)|calcium- and calmodulin-responsive adenylate cyclase activity (GO:0008294)|metal ion binding (GO:0046872)			NS(1)|breast(4)|central_nervous_system(2)|cervix(1)|endometrium(10)|kidney(5)|large_intestine(21)|lung(67)|pancreas(1)|prostate(3)|skin(12)|upper_aerodigestive_tract(5)|urinary_tract(2)	134	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TTTTGTCCTTGACCGCACATA	0.448										HNSCC(32;0.087)																																						0													169	129	143					8																	131922101		2203	4300	6503	SO:0001583	missense	114			Z35309	CCDS6363.1	8q24	2013-02-04			ENSG00000155897	ENSG00000155897	4.6.1.1	"Adenylate cyclases"	239	protein-coding gene	gene with protein product		103070		ADCY3		8076676	Standard	NM_001115		Approved	HBAC1, AC8	uc003ytd.4	P40145	OTTHUMG00000164756	ENST00000286355.5:c.1493C>T	8.37:g.131922101G>A	ENSP00000286355:p.Ser498Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000286355.5	37	CCDS6363.1	.	.	.	.	.	.	.	.	.	.	G	22.7	4.318073	0.81469	.	.	ENSG00000155897	ENST00000286355;ENST00000377928;ENST00000522949	T;T;T	0.80653	-1.4;-1.4;-1.4	5.8	5.8	0.92144	Adenylyl cyclase class-3/4/guanylyl cyclase (5);	0.120729	0.64402	D	0.000017	T	0.79540	0.4463	N	0.11789	0.175	0.36692	D	0.879639	P;D	0.54047	0.948;0.964	P;P	0.57204	0.682;0.815	D	0.84098	0.0394	10	0.54805	T	0.06	.	19.0419	0.93004	0.0:0.0:1.0:0.0	.	498;498	E7EVL1;P40145	.;ADCY8_HUMAN	L	498;498;113	ENSP00000286355:S498L;ENSP00000367161:S498L;ENSP00000428010:S113L	ENSP00000286355:S498L	S	-	2	0	ADCY8	131991283	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	4.658000	0.61497	2.758000	0.94735	0.561000	0.74099	TCA		0.448	ADCY8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380080.1			A	131922101	G	A	131922101	3	1	652	1	0	0	0	0	1	0	0	0	300	1294	45	2	2314	2	ADCY8	8	131922101	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10	30197495	131922101	14441921	40	40426										
CNTNAP3	79937	mdanderson.org	37	chr9	39103743	39103743	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	ccagagtggcgagcttaccaCgcagctcaatcctgatgaaa	10	12	1	3	rs7852039	byFrequency	TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr9:39103743C>T	ENST00000297668.6	-	16	2607	c.2534G>A	c.(2533-2535)cGt>cAt	p.R845H	CNTNAP3_ENST00000377656.2_Missense_Mutation_p.R844H|CNTNAP3_ENST00000358144.2_Missense_Mutation_p.R757H	NM_033655.3	NP_387504.2	Q9BZ76	CNTP3_HUMAN	contactin associated protein-like 3	845	Laminin G-like 3. {ECO:0000255|PROSITE- ProRule:PRU00122}.		R -> H (in dbSNP:rs7852039). {ECO:0000269|PubMed:11214970}.		cell adhesion (GO:0007155)|cell recognition (GO:0008037)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(1)|endometrium(3)|kidney(2)|large_intestine(5)|liver(2)|lung(8)|ovary(1)|upper_aerodigestive_tract(2)	24				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		GAGCTTACCACGCAGCTCAAT	0.418													C|||	934	0.186502	0.062	0.1354	5008	,	,		15532	0.3036		0.2376	False		,,,				2504	0.2178															0								C	HIS/ARG	392,4014	190.5+/-216.4	24,344,1835	39	43	42		2534	-1.3	0	9	dbSNP_116	42	1860,6740	331.0+/-319.4	208,1444,2648	yes	missense	CNTNAP3	NM_033655.3	29	232,1788,4483	TT,TC,CC		21.6279,8.897,17.3151	benign	845/1289	39103743	2252,10754	2203	4300	6503	SO:0001583	missense	79937			AF333769	CCDS6616.1	9q12	2008-02-05			ENSG00000106714	ENSG00000106714			13834	protein-coding gene	gene with protein product	"cell recognition molecule CASPR3 (FLJ14195, KIAA1714)"	610517				12093160	Standard	NM_033655		Approved	CASPR3, KIAA1714, FLJ14195, CNTNAP3A	uc004abi.3	Q9BZ76	OTTHUMG00000019954	ENST00000297668.6:c.2534G>A	9.37:g.39103743C>T	ENSP00000297668:p.Arg845His	Somatic		WXS	Illumina HiSeq	Phase_I	B1AMA0|Q9C0E9	Missense_Mutation	SNP	ENST00000297668.6	37	CCDS6616.1	439	0.20100732600732601	26	0.052845528455284556	58	0.16022099447513813	164	0.2867132867132867	191	0.2519788918205805	C	11.25	1.582659	0.28180	0.08897	0.216279	ENSG00000106714	ENST00000297668;ENST00000377656;ENST00000358144	T;T;T	0.42513	0.97;0.97;0.97	3.23	-1.29	0.09288	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (2);Laminin G, subdomain 2 (1);	.	.	.	.	T	0.00012	0.0000	L	0.42487	1.325	0.50813	P	1.0299999999996423E-4	B;B;B	0.27286	0.174;0.076;0.032	B;B;B	0.30179	0.048;0.112;0.032	T	0.37596	-0.9699	8	0.16896	T	0.51	.	3.4899	0.07634	0.195:0.2478:0.0:0.5572	rs7852039;rs7852039	845;844;845	Q9BZ76-2;A6NC89;Q9BZ76	.;.;CNTP3_HUMAN	H	845;844;757	ENSP00000297668:R845H;ENSP00000366884:R844H;ENSP00000350863:R757H	ENSP00000297668:R845H	R	-	2	0	CNTNAP3	39093743	0.000000	0.05858	0.008000	0.14137	0.241000	0.25554	-0.236000	0.09003	-0.130000	0.11599	0.485000	0.47835	CGT		0.418	CNTNAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052511.1	NM_033655		T	39103743	C	T	39103743	3	4	652	1	0	0	0	0	1	0	0	0	3650	536	19	1	1368	1	CNTNAP3	9	39103743	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10		39103743	102109688	41	40427										
PCSK5	5125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	78749078	78749078	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tattgtcaggacttcccgtgCgggacatttgaacgctaatg	11	9	1	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr9:78749078C>T	ENST00000545128.1	+	10	1800	c.1262C>T	c.(1261-1263)gCg>gTg	p.A421V	PCSK5_ENST00000376752.4_Missense_Mutation_p.A421V|PCSK5_ENST00000376767.3_Missense_Mutation_p.A421V	NM_001190482.1	NP_001177411.1	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	421	Peptidase S8.				anterior/posterior pattern specification (GO:0009952)|cell-cell signaling (GO:0007267)|cytokine biosynthetic process (GO:0042089)|embryo implantation (GO:0007566)|embryonic digestive tract development (GO:0048566)|embryonic skeletal system development (GO:0048706)|heart development (GO:0007507)|kidney development (GO:0001822)|limb morphogenesis (GO:0035108)|nerve growth factor processing (GO:0032455)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptide biosynthetic process (GO:0043043)|peptide hormone processing (GO:0016486)|protein processing (GO:0016485)|renin secretion into blood stream (GO:0002001)|respiratory tube development (GO:0030323)|signal peptide processing (GO:0006465)|viral life cycle (GO:0019058)	extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|secretory granule (GO:0030141)	peptidase activity (GO:0008233)|peptide binding (GO:0042277)|serine-type endopeptidase activity (GO:0004252)			NS(1)|breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(7)|liver(2)|lung(25)|ovary(2)|pancreas(1)|prostate(2)|skin(3)	55						ACTTCCCGTGCGGGACATTTG	0.398																																																0													129	119	122					9																	78749078		2203	4299	6502	SO:0001583	missense	5125				CCDS6652.1, CCDS55320.1	9q21.13	2013-09-24			ENSG00000099139	ENSG00000099139			8747	protein-coding gene	gene with protein product		600488				7782070	Standard	NM_001190482		Approved	PC5, PC6, SPC6	uc004akc.2	Q92824	OTTHUMG00000020039	ENST00000545128.1:c.1262C>T	9.37:g.78749078C>T	ENSP00000446280:p.Ala421Val	Somatic		WXS	Illumina HiSeq	Phase_I	F5H2G7|Q13527|Q96EP4	Missense_Mutation	SNP	ENST00000545128.1	37	CCDS55320.1	.	.	.	.	.	.	.	.	.	.	C	24.9	4.579348	0.86645	.	.	ENSG00000099139	ENST00000545128;ENST00000376754;ENST00000376767;ENST00000396108;ENST00000376752;ENST00000424854	D;D;D;D	0.87729	-2.29;-2.29;-2.29;-2.29	5.65	5.65	0.86999	.	0.210963	0.49916	D	0.000139	T	0.81403	0.4815	N	0.25789	0.76	0.45704	D	0.998616	P;P	0.45957	0.599;0.869	B;B	0.41666	0.248;0.363	D	0.84046	0.0367	10	0.72032	D	0.01	-19.0199	14.869	0.70441	0.1436:0.8564:0.0:0.0	.	421;421	Q92824-2;B1AMG5	.;.	V	421;124;421;421;421;94	ENSP00000446280:A421V;ENSP00000365958:A421V;ENSP00000365943:A421V;ENSP00000411654:A94V	ENSP00000365943:A421V	A	+	2	0	PCSK5	77938898	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.581000	0.67471	2.817000	0.96982	0.563000	0.77884	GCG		0.398	PCSK5-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding				T	78749078	C	T	78749078	3	4	652	1	0	0	0	0	1	0	0	0	11610	768	27	1	1300	1	PCSK5	9	78749078	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	39645335	78749078	62464353	42	40428										
ODF2	4957	broad.mit.edu	37	chr9	131245156	131245156	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	agagctccttcaggaaatacAatgtgagaaggtagtgtgct	12	6	1	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr9:131245156A>G	ENST00000434106.3	+	10	1340	c.977A>G	c.(976-978)cAa>cGa	p.Q326R	ODF2_ENST00000535026.1_3'UTR|ODF2_ENST00000393527.3_Missense_Mutation_p.Q302R|ODF2_ENST00000546203.1_Missense_Mutation_p.Q307R|ODF2_ENST00000448249.3_Missense_Mutation_p.Q245R|ODF2_ENST00000372807.5_Missense_Mutation_p.Q321R|ODF2_ENST00000604420.1_Missense_Mutation_p.Q326R|ODF2_ENST00000372791.3_Missense_Mutation_p.Q307R|ODF2_ENST00000351030.3_Missense_Mutation_p.Q321R|ODF2_ENST00000372814.3_Missense_Mutation_p.Q370R|ODF2_ENST00000393533.2_Missense_Mutation_p.Q326R|ODF2_ENST00000444119.2_Missense_Mutation_p.Q302R	NM_153433.1	NP_702911.1	Q5BJF6	ODFP2_HUMAN	outer dense fiber of sperm tails 2	326					G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|multicellular organismal development (GO:0007275)|regulation of cilium assembly (GO:1902017)|spermatid development (GO:0007286)	centriole (GO:0005814)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytosol (GO:0005829)|microtubule (GO:0005874)|nucleus (GO:0005634)|outer dense fiber (GO:0001520)|primary cilium (GO:0072372)	Rab GTPase binding (GO:0017137)|structural molecule activity (GO:0005198)			autonomic_ganglia(1)|breast(7)|cervix(1)|endometrium(4)|kidney(5)|large_intestine(7)|lung(8)|ovary(1)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	37						CAGGAAATACAATGTGAGAAG	0.522																																																0													77	80	79					9																	131245156		2203	4300	6503	SO:0001583	missense	4957			AF012549	CCDS6902.1, CCDS56585.1, CCDS56586.1, CCDS56587.1, CCDS56588.1, CCDS56589.1, CCDS56590.1	9q34	2010-04-23	2002-10-21		ENSG00000136811	ENSG00000136811			8114	protein-coding gene	gene with protein product	"cancer/testis antigen 134"	602015	"outer dense fibre of sperm tails 2"			9045620, 10072582	Standard	NM_153435		Approved	ODF84, CT134	uc004bvc.3	Q5BJF6	OTTHUMG00000020748	ENST00000434106.3:c.977A>G	9.37:g.131245156A>G	ENSP00000403453:p.Gln326Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B1AND3|B4DRK4|B4DX73|B4DZ02|E7EWL2|F5H6J4|O14721|O60631|Q1W2J6|Q6UN26|Q7Z5I6|Q96FN2	Missense_Mutation	SNP	ENST00000434106.3	37	CCDS56588.1	.	.	.	.	.	.	.	.	.	.	A	16.16	3.043499	0.55003	.	.	ENSG00000136811	ENST00000393533;ENST00000372814;ENST00000351030;ENST00000372796;ENST00000303890;ENST00000448249;ENST00000546203;ENST00000372791	T;T;T;T;T;T;T;T	0.41065	1.01;1.01;1.01;1.01;1.87;1.01;1.01;1.01	5.66	5.66	0.87406	.	0.455332	0.26750	N	0.022693	T	0.39627	0.1085	L	0.46157	1.445	0.80722	D	1	B;B;B;B;B;B;B;B;B;B	0.19706	0.038;0.003;0.038;0.003;0.035;0.035;0.003;0.038;0.012;0.006	B;B;B;B;B;B;B;B;B;B	0.19391	0.008;0.013;0.014;0.01;0.008;0.013;0.013;0.008;0.025;0.013	T	0.19614	-1.0300	10	0.51188	T	0.08	-16.8018	14.703	0.69168	1.0:0.0:0.0:0.0	.	307;321;245;260;326;370;321;307;326;302	Q5BJF6-8;Q5BJF6-4;Q5BJF6-9;Q5BJF6-2;B4DX73;Q5BJF6-7;B1AND4;Q5BJF6-5;Q5BJF6;Q5BJF6-3	.;.;.;.;.;.;.;.;ODFP2_HUMAN;.	R	326;370;321;326;302;245;307;307	ENSP00000377166:Q326R;ENSP00000361901:Q370R;ENSP00000342581:Q321R;ENSP00000361882:Q326R;ENSP00000307781:Q302R;ENSP00000396687:Q245R;ENSP00000437579:Q307R;ENSP00000361877:Q307R	ENSP00000307781:Q302R	Q	+	2	0	ODF2	130284977	0.998000	0.40836	0.964000	0.40570	0.995000	0.86356	6.107000	0.71517	2.153000	0.67306	0.459000	0.35465	CAA		0.522	ODF2-011	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000054449.3			G	131245156	A	G	131245156	3	3	652	1	0	0	0	0	1	0	0	0	10834	130	5	3	1066	3	ODF2	9	131245156	Missense_Mutation	SNP	A	TCGA-KM-8476-01A-11D-2310-10	52496078	131245156	9968275	43	40429										
NUP188	23511	broad.mit.edu	37	chr9	131750367	131750367	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gcagggccagctgctgatcaAgacagtgaaactggcattct	12	10	2	3			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr9:131750367A>G	ENST00000372577.2	+	24	2456	c.2435A>G	c.(2434-2436)aAg>aGg	p.K812R		NM_015354.1	NP_056169.1	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	812					carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|protein transport (GO:0015031)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	membrane (GO:0016020)|nuclear envelope (GO:0005635)|nuclear pore (GO:0005643)				breast(2)|central_nervous_system(3)|endometrium(6)|kidney(4)|large_intestine(9)|lung(20)|ovary(6)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(3)	60						CTGCTGATCAAGACAGTGAAA	0.502																																																0													187	169	175					9																	131750367		2203	4300	6503	SO:0001583	missense	23511			D79991	CCDS35156.1	9q34.13	2014-01-28	2004-03-19	2004-03-24	ENSG00000095319	ENSG00000095319			17859	protein-coding gene	gene with protein product		615587	"KIAA0169"	KIAA0169		11029043	Standard	NM_015354		Approved		uc004bws.2	Q5SRE5	OTTHUMG00000020768	ENST00000372577.2:c.2435A>G	9.37:g.131750367A>G	ENSP00000361658:p.Lys812Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q14675|Q2TA87|Q7Z3K8|Q8IWF1	Missense_Mutation	SNP	ENST00000372577.2	37	CCDS35156.1	.	.	.	.	.	.	.	.	.	.	A	15.10	2.732046	0.48939	.	.	ENSG00000095319	ENST00000356693;ENST00000372577	T	0.64991	-0.13	5.87	5.87	0.94306	.	0.046254	0.85682	D	0.000000	T	0.46229	0.1382	N	0.08118	0	0.42132	D	0.991474	B;B	0.31125	0.02;0.309	B;B	0.35182	0.035;0.197	T	0.48375	-0.9041	10	0.32370	T	0.25	-4.2014	15.7569	0.78037	1.0:0.0:0.0:0.0	.	145;812	E9PET9;Q5SRE5	.;NU188_HUMAN	R	701;812	ENSP00000361658:K812R	ENSP00000349125:K701R	K	+	2	0	NUP188	130790188	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.901000	0.75693	2.371000	0.80710	0.533000	0.62120	AAG		0.502	NUP188-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054529.2			G	131750367	A	G	131750367	3	3	652	1	0	0	0	0	1	0	0	0	10765	72	3	3	2529	3	NUP188	9	131750367	Missense_Mutation	SNP	A	TCGA-KM-8476-01A-11D-2310-10	505211	131750367	9463064	44	40430										
PPAPDC3	84814	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	134165625	134165625	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	acccctccttcaagggcatcGccttcaactccctgctggcc	7	19	2	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr9:134165625G>A	ENST00000372264.3	+	1	545	c.241G>A	c.(241-243)Gcc>Acc	p.A81T	PPAPDC3_ENST00000372261.1_Missense_Mutation_p.A81T	NM_032728.3	NP_116117.3	Q8NBV4	PPAC3_HUMAN	phosphatidic acid phosphatase type 2 domain containing 3	81	interaction with MTOR. {ECO:0000250}.				negative regulation of myotube differentiation (GO:0010832)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|nuclear envelope (GO:0005635)	hydrolase activity (GO:0016787)			breast(2)|central_nervous_system(1)|kidney(1)|large_intestine(2)|lung(9)|skin(1)	16	all_hematologic(7;0.0119)			OV - Ovarian serous cystadenocarcinoma(145;1.22e-05)|Epithelial(140;0.000173)		CAAGGGCATCGCCTTCAACTC	0.657																																																0													77	73	75					9																	134165625		2203	4300	6503	SO:0001583	missense	84814			AK027568	CCDS6942.1	9q34.2-q34.3	2008-02-26	2005-07-15	2005-07-15	ENSG00000160539	ENSG00000160539			28174	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 67"	C9orf67		12958361	Standard	NM_032728		Approved	MGC12921, FLJ14662, NET39	uc004cal.2	Q8NBV4	OTTHUMG00000020822	ENST00000372264.3:c.241G>A	9.37:g.134165625G>A	ENSP00000361338:p.Ala81Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6P0|Q96SS7|Q9BRC3	Missense_Mutation	SNP	ENST00000372264.3	37	CCDS6942.1	.	.	.	.	.	.	.	.	.	.	G	35	5.433692	0.96150	.	.	ENSG00000160539	ENST00000372264;ENST00000372261	T;T	0.58506	1.31;0.33	5.38	5.38	0.77491	.	0.000000	0.85682	D	0.000000	T	0.72003	0.3407	L	0.55213	1.73	0.80722	D	1	D	0.76494	0.999	D	0.75020	0.985	T	0.69997	-0.4993	10	0.39692	T	0.17	-31.0681	18.1257	0.89585	0.0:0.0:1.0:0.0	.	81	Q8NBV4	PPAC3_HUMAN	T	81	ENSP00000361338:A81T;ENSP00000361335:A81T	ENSP00000361335:A81T	A	+	1	0	PPAPDC3	133155446	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.424000	0.97464	2.530000	0.85305	0.561000	0.74099	GCC		0.657	PPAPDC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054724.1	NM_032728		A	134165625	G	A	134165625	3	1	652	1	0	0	0	0	1	0	0	0	12303	1087	38	1	243	1	PPAPDC3	9	134165625	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10	2415258	134165625	7047806	45	40431										
ZMYND11	10771	bcgsc.ca	37	chr10	283550	283550	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	agatcttaataaaaaggggaAggacaataaacacccgatgt	9	6	1	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr10:283550A>G	ENST00000397962.3	+	6	970	c.542A>G	c.(541-543)aAg>aGg	p.K181R	ZMYND11_ENST00000381591.1_Missense_Mutation_p.K181R|ZMYND11_ENST00000402736.1_Intron|ZMYND11_ENST00000381604.4_Missense_Mutation_p.K141R|ZMYND11_ENST00000381607.4_Missense_Mutation_p.K87R|ZMYND11_ENST00000558098.2_Missense_Mutation_p.K181R|ZMYND11_ENST00000535374.1_Missense_Mutation_p.K24R|ZMYND11_ENST00000381584.1_Missense_Mutation_p.K164R|ZMYND11_ENST00000509513.2_Missense_Mutation_p.K181R|ZMYND11_ENST00000403354.1_Missense_Mutation_p.K127R|ZMYND11_ENST00000309776.4_Missense_Mutation_p.K141R|ZMYND11_ENST00000602682.1_Intron|ZMYND11_ENST00000397959.3_Intron|ZMYND11_ENST00000545619.1_Missense_Mutation_p.K87R|ZMYND11_ENST00000381602.4_Missense_Mutation_p.K141R			Q15326	ZMY11_HUMAN	zinc finger, MYND-type containing 11	181	Bromo. {ECO:0000255|PROSITE- ProRule:PRU00035}.				cell cycle (GO:0007049)|cell proliferation (GO:0008283)|chromatin modification (GO:0016568)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of JNK cascade (GO:0046329)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of transcription elongation from RNA polymerase II promoter (GO:0034243)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	chromosome (GO:0005694)|nucleus (GO:0005634)	DNA binding (GO:0003677)|methylated histone binding (GO:0035064)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(10)|skin(2)	24		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		AAAAAGGGGAAGGACAATAAA	0.408																																																0													103	99	101					10																	283550		2203	4300	6503	SO:0001583	missense	10771			X86098	CCDS7052.1, CCDS7053.1, CCDS7052.2, CCDS55696.1, CCDS55697.1, CCDS7053.2, CCDS73060.1, CCDS73061.1	10p14	2011-01-26	2011-01-26		ENSG00000015171	ENSG00000015171		"Zinc fingers, MYND-type"	16966	protein-coding gene	gene with protein product		608668	"zinc finger, MYND domain containing 11"			7621829, 10734313	Standard	NM_006624		Approved	BS69	uc010pzx.2	Q15326	OTTHUMG00000017526	ENST00000397962.3:c.542A>G	10.37:g.283550A>G	ENSP00000381053:p.Lys181Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6G8|B7Z293|F6UH50|Q2LD45|Q2LD46|Q2LD47|Q2LD48|Q5VUI1|Q8N4B3	Missense_Mutation	SNP	ENST00000397962.3	37	CCDS7052.2	.	.	.	.	.	.	.	.	.	.	A	31	5.083659	0.94050	.	.	ENSG00000015171	ENST00000439456;ENST00000397962;ENST00000309776;ENST00000381602;ENST00000509513;ENST00000381591;ENST00000403354;ENST00000381607;ENST00000381604;ENST00000397955;ENST00000381584;ENST00000545619;ENST00000535374	T;T;T;T;T;T;T;T;T;T	0.18960	2.18;2.18;2.18;2.18;2.18;2.18;2.18;2.18;2.18;2.18	5.4	5.4	0.78164	Bromodomain (3);	0.000000	0.85682	D	0.000000	T	0.36193	0.0958	L	0.44542	1.39	.	.	.	D;D;P;D;D;P;P	0.63046	0.984;0.992;0.795;0.984;0.979;0.948;0.948	P;P;P;P;D;P;P	0.71414	0.743;0.872;0.636;0.743;0.973;0.584;0.482	T	0.13495	-1.0507	9	0.18710	T	0.47	-29.9056	15.7172	0.77677	1.0:0.0:0.0:0.0	.	141;181;127;181;127;127;127	Q15326;Q2LD45;B7Z2J6;Q2LD48;B0QZE2;Q2LD46;Q2LD47	ZMY11_HUMAN;.;.;.;.;.;.	R	127;181;141;141;181;181;127;87;141;196;164;87;24	ENSP00000381053:K181R;ENSP00000309992:K141R;ENSP00000371015:K141R;ENSP00000424205:K181R;ENSP00000371003:K181R;ENSP00000385484:K127R;ENSP00000371020:K87R;ENSP00000371017:K141R;ENSP00000370996:K164R;ENSP00000438461:K87R	ENSP00000309992:K141R	K	+	2	0	ZMYND11	273550	1.000000	0.71417	1.000000	0.80357	0.905000	0.53344	8.880000	0.92407	2.170000	0.68504	0.460000	0.39030	AAG		0.408	ZMYND11-206	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046382.4	NM_006624		G	283550	A	G	283550	3	3	652	1	0	0	0	0	1	0	0	0	17718	72	3	3	560	3	ZMYND11	10	283550	Missense_Mutation	SNP	A	TCGA-KM-8476-01A-11D-2310-10		283550	135251197	46	40432										
CUL2	8453	ucsc.edu;bcgsc.ca	37	chr10	35333504	35333504	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tatttcttaccttttccataTactgtgagcagtttgattct	5	8	2	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr10:35333504T>C	ENST00000374748.1	-	9	1017	c.704A>G	c.(703-705)tAt>tGt	p.Y235C	CUL2_ENST00000602371.1_Missense_Mutation_p.Y178C|CUL2_ENST00000374742.1_Missense_Mutation_p.Y235C|CUL2_ENST00000374751.3_Missense_Mutation_p.Y235C|CUL2_ENST00000374749.3_Missense_Mutation_p.Y235C|CUL2_ENST00000537177.1_Missense_Mutation_p.Y254C|CUL2_ENST00000374746.1_Missense_Mutation_p.Y235C			Q13617	CUL2_HUMAN	cullin 2	235					cell cycle arrest (GO:0007050)|cellular response to hypoxia (GO:0071456)|G1/S transition of mitotic cell cycle (GO:0000082)|intrinsic apoptotic signaling pathway (GO:0097193)|negative regulation of cell proliferation (GO:0008285)|protein ubiquitination (GO:0016567)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|ubiquitin-dependent protein catabolic process (GO:0006511)|viral process (GO:0016032)	Cul2-RING ubiquitin ligase complex (GO:0031462)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|VCB complex (GO:0030891)	ubiquitin protein ligase binding (GO:0031625)			breast(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(11)|ovary(3)|prostate(2)|skin(1)|urinary_tract(2)	31						CTTTTCCATATACTGTGAGCA	0.299																																																0													61	66	64					10																	35333504		2201	4287	6488	SO:0001583	missense	8453			U83410	CCDS7179.1, CCDS73086.1	10p11.2	2011-05-24			ENSG00000108094	ENSG00000108094			2552	protein-coding gene	gene with protein product		603135				8681378	Standard	NM_003591		Approved		uc021ppa.1	Q13617	OTTHUMG00000017950	ENST00000374748.1:c.704A>G	10.37:g.35333504T>C	ENSP00000363880:p.Tyr235Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KT95|B7Z6K8|D3DRY6|G3V1S2|O00200|Q5T2B6|Q9UNF9	Missense_Mutation	SNP	ENST00000374748.1	37	CCDS7179.1	.	.	.	.	.	.	.	.	.	.	T	23.2	4.388686	0.82902	.	.	ENSG00000108094	ENST00000374751;ENST00000374748;ENST00000374746;ENST00000374749;ENST00000374754;ENST00000374742;ENST00000537177	T;T;T;T;T;T	0.61510	0.1;0.1;0.1;0.1;0.1;0.1	5.88	5.88	0.94601	Cullin, N-terminal (1);Cullin repeat-like-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.80391	0.4614	M	0.88979	2.995	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.84297	0.0503	10	0.87932	D	0	-14.4811	16.2961	0.82769	0.0:0.0:0.0:1.0	.	235;254;235	Q5T2B5;G3V1S2;Q13617	.;.;CUL2_HUMAN	C	235;235;235;235;178;235;254	ENSP00000363883:Y235C;ENSP00000363880:Y235C;ENSP00000363878:Y235C;ENSP00000363881:Y235C;ENSP00000363874:Y235C;ENSP00000444856:Y254C	ENSP00000363874:Y235C	Y	-	2	0	CUL2	35373510	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	8.040000	0.89188	2.250000	0.74265	0.454000	0.30748	TAT		0.299	CUL2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047538.1	NM_003591		C	35333504	T	C	35333504	3	2	652	1	0	0	0	0	1	0	0	0	4057	1406	49	3	1589	3	CUL2	10	35333504	Missense_Mutation	SNP	T	TCGA-KM-8476-01A-11D-2310-10	35049954	35333504	100201243	47	40433										
ANK3	288	broad.mit.edu	37	chr10	61832802	61832802	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tttgccatttttagggcgtgCctttttctctggggactgca	11	9	1	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr10:61832802C>T	ENST00000280772.2	-	37	8028	c.7837G>A	c.(7837-7839)Gca>Aca	p.A2613T	ANK3_ENST00000355288.2_Intron|ANK3_ENST00000373827.2_Intron|ANK3_ENST00000503366.1_Intron	NM_020987.3	NP_066267.2	Q12955	ANK3_HUMAN	ankyrin 3, node of Ranvier (ankyrin G)	2613					axon guidance (GO:0007411)|axonogenesis (GO:0007409)|cytoskeletal anchoring at plasma membrane (GO:0007016)|establishment of protein localization (GO:0045184)|Golgi to plasma membrane protein transport (GO:0043001)|maintenance of protein location in plasma membrane (GO:0072660)|membrane assembly (GO:0071709)|mitotic cytokinesis (GO:0000281)|neuromuscular junction development (GO:0007528)|neuronal action potential (GO:0019228)|plasma membrane organization (GO:0007009)|positive regulation of cell communication by electrical coupling (GO:0010650)|positive regulation of gene expression (GO:0010628)|positive regulation of homotypic cell-cell adhesion (GO:0034112)|positive regulation of membrane depolarization during cardiac muscle cell action potential (GO:1900827)|positive regulation of membrane potential (GO:0045838)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|positive regulation of sodium ion transport (GO:0010765)|protein localization to plasma membrane (GO:0072659)|protein targeting to plasma membrane (GO:0072661)|regulation of potassium ion transport (GO:0043266)|signal transduction (GO:0007165)	axon initial segment (GO:0043194)|basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|costamere (GO:0043034)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|intercalated disc (GO:0014704)|lateral plasma membrane (GO:0016328)|lysosome (GO:0005764)|neuromuscular junction (GO:0031594)|node of Ranvier (GO:0033268)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|sarcoplasmic reticulum (GO:0016529)|spectrin-associated cytoskeleton (GO:0014731)|T-tubule (GO:0030315)|Z disc (GO:0030018)	cadherin binding (GO:0045296)|cytoskeletal protein binding (GO:0008092)|ion channel binding (GO:0044325)|protein binding, bridging (GO:0030674)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)			NS(4)|breast(7)|central_nervous_system(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(5)|kidney(14)|large_intestine(30)|liver(2)|lung(59)|ovary(8)|pancreas(2)|prostate(5)|skin(26)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(7)	196						TTAGGGCGTGCCTTTTTCTCT	0.443																																																0																																										SO:0001583	missense	288			U13616	CCDS7258.1, CCDS7259.1, CCDS55711.1, CCDS55712.1	10q21	2013-01-10			ENSG00000151150	ENSG00000151150		"Ankyrin repeat domain containing"	494	protein-coding gene	gene with protein product	"ankyrin-3, node of Ranvier", "ankyrin-G"	600465				7665168	Standard	NM_020987		Approved		uc001jky.3	Q12955	OTTHUMG00000018288	ENST00000280772.2:c.7837G>A	10.37:g.61832802C>T	ENSP00000280772:p.Ala2613Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B1AQT2|B4DIL1|E9PE32|Q13484|Q5CZH9|Q5VXD5|Q7Z3G4|Q9H0P5	Missense_Mutation	SNP	ENST00000280772.2	37	CCDS7258.1	.	.	.	.	.	.	.	.	.	.	C	12.07	1.828684	0.32329	.	.	ENSG00000151150	ENST00000280772	T	0.63255	-0.03	5.66	-1.93	0.07594	.	1.079830	0.07306	N	0.874907	T	0.40670	0.1126	N	0.14661	0.345	0.80722	D	1	B	0.12630	0.006	B	0.12156	0.007	T	0.19321	-1.0309	10	0.18710	T	0.47	.	8.9934	0.36037	0.1972:0.339:0.4638:0.0	.	2613	Q12955	ANK3_HUMAN	T	2613	ENSP00000280772:A2613T	ENSP00000280772:A2613T	A	-	1	0	ANK3	61502808	0.995000	0.38212	0.991000	0.47740	0.990000	0.78478	0.581000	0.23819	-0.208000	0.10171	0.462000	0.41574	GCA		0.443	ANK3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048201.4	NM_020987		T	61832802	C	T	61832802	3	4	652	1	0	0	0	0	1	0	0	0	622	739	26	2	5637	2	ANK3	10	61832802	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	26499298	61832802	73701945	48	40434										
NRAP	4892	hgsc.bcm.edu;mdanderson.org	37	chr10	115381805	115381805	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	cattgggatttggtgtcctcGaatcccttcttgtactccag	9	11	1	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr10:115381805G>A	ENST00000359988.3	-	24	2836	c.2592C>T	c.(2590-2592)ttC>ttT	p.F864F	NRAP_ENST00000360478.3_Silent_p.F829F|NRAP_ENST00000369360.3_Silent_p.F837F|NRAP_ENST00000369358.4_Silent_p.F872F	NM_001261463.1|NM_198060.3	NP_001248392.1|NP_932326.2			nebulin-related anchoring protein											autonomic_ganglia(1)|breast(2)|central_nervous_system(4)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(18)|lung(39)|ovary(6)|prostate(3)|skin(1)|stomach(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	95		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		TGGTGTCCTCGAATCCCTTCT	0.527																																																0													230	174	193					10																	115381805		2203	4300	6503	SO:0001819	synonymous_variant	4892				CCDS7578.1, CCDS7579.1, CCDS73199.1	10q24-q26	2008-08-01			ENSG00000197893	ENSG00000197893			7988	protein-coding gene	gene with protein product		602873				12789664, 10320340	Standard	NM_006175		Approved		uc001lal.4	Q86VF7	OTTHUMG00000019072	ENST00000359988.3:c.2592C>T	10.37:g.115381805G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000359988.3	37	CCDS7579.1																																																																																				0.527	NRAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050425.2	NM_006175		A	115381805	G	A	115381805	2	1	652	1	0	0	0	0	0	0	0	1	10645	1049	37	1		1	NRAP	10	115381805	Silent	SNP	G	TCGA-KM-8476-01A-11D-2310-10	53549003	115381805	20152942	49	40435										
TCERG1L	256536	broad.mit.edu	37	chr10	132932683	132932683	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tcttggtcttccctgttgtcTtcagaactggacccatcgct	8	13	4	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr10:132932683T>C	ENST00000368642.4	-	8	1303	c.1218A>G	c.(1216-1218)gaA>gaG	p.E406E		NM_174937.3	NP_777597.2	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	406										cervix(1)|endometrium(2)|kidney(1)|large_intestine(10)|lung(13)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	31		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)		CCCTGTTGTCTTCAGAACTGG	0.507																																																0													119	94	102					10																	132932683		2203	4299	6502	SO:0001819	synonymous_variant	256536			AK096269	CCDS7662.2	10q26.3	2006-04-12			ENSG00000176769	ENSG00000176769			23533	protein-coding gene	gene with protein product							Standard	NM_174937		Approved	FLJ38950	uc001lkp.3	Q5VWI1	OTTHUMG00000019276	ENST00000368642.4:c.1218A>G	10.37:g.132932683T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VWI2|Q86XM8	Silent	SNP	ENST00000368642.4	37	CCDS7662.2																																																																																				0.507	TCERG1L-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091619.2	NM_174937		C	132932683	T	C	132932683	2	2	652	1	0	0	0	0	0	0	0	1	15698	1606	56	3		3	TCERG1L	10	132932683	Silent	SNP	T	TCGA-KM-8476-01A-11D-2310-10	17550878	132932683	2602064	50	40436										
FRG2B	441581	mdanderson.org	37	chr10	135439015	135439015	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	aacgtcccctatggtgggcaTcacaggtctcctggatttca	10	12	3	0	rs75470891		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr10:135439015T>C	ENST00000425520.1	-	4	477	c.425A>G	c.(424-426)gAt>gGt	p.D142G	FRG2B_ENST00000443774.1_Missense_Mutation_p.D143G	NM_001080998.1	NP_001074467.1	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	142						nucleus (GO:0005634)		p.D143G(1)|p.D142G(1)		endometrium(2)|kidney(2)|lung(14)|ovary(1)|prostate(1)	20		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		ATGGTGGGCATCACAGGTCTC	0.517																																																2	Substitution - Missense(2)	prostate(2)											94	106	102					10																	135439015		2200	4298	6498	SO:0001583	missense	441581			AY744466	CCDS44502.1	10q26.3	2012-10-02			ENSG00000225899	ENSG00000225899			33518	protein-coding gene	gene with protein product						15520407	Standard	NM_001080998		Approved		uc010qvg.2	Q96QU4	OTTHUMG00000019328	ENST00000425520.1:c.425A>G	10.37:g.135439015T>C	ENSP00000401310:p.Asp142Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VSQ1	Missense_Mutation	SNP	ENST00000425520.1	37	CCDS44502.1	.	.	.	.	.	.	.	.	.	.	.	7.820	0.717602	0.15372	.	.	ENSG00000225899	ENST00000443774;ENST00000425520	T;T	0.46063	0.88;0.88	.	.	.	.	2.387620	0.01707	N	0.027493	T	0.45115	0.1326	N	0.19112	0.55	0.80722	P	0.0	D	0.61697	0.99	D	0.66351	0.943	T	0.44967	-0.9293	7	0.25751	T	0.34	-0.0211	.	.	.	.	142	Q96QU4	FRG2B_HUMAN	G	143;142	ENSP00000408343:D143G;ENSP00000401310:D142G	ENSP00000401310:D142G	D	-	2	0	FRG2B	135289005	0.038000	0.19896	0.258000	0.24420	0.260000	0.26232	0.264000	0.18497	0.103000	0.17682	0.102000	0.15555	GAT		0.517	FRG2B-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000467780.1	NM_001080998		C	135439015	T	C	135439015	3	2	652	1	0	0	0	0	1	0	0	0	6054	1435	50	3	414	3	FRG2B	10	135439015	Missense_Mutation	SNP	T	TCGA-KM-8476-01A-11D-2310-10	2506332	135439015	95732	51	40437										
SIRT3	23410	broad.mit.edu	37	chr11	224195	224195	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	atgtcgggcttcacaacgccGgtgcagaccgggcagcgggg	17	12	1	1	rs202035351	byFrequency	TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr11:224195G>A	ENST00000382743.4	-	5	954	c.852C>T	c.(850-852)acC>acT	p.T284T	SIRT3_ENST00000532956.1_Intron|SIRT3_ENST00000528702.1_5'Flank|SIRT3_ENST00000529382.1_Silent_p.T142T|SIRT3_ENST00000524564.1_Silent_p.T220T|SIRT3_ENST00000525319.1_Silent_p.T203T	NM_001017524.2|NM_012239.5	NP_001017524.1|NP_036371.1	Q9NTG7	SIR3_HUMAN	sirtuin 3	284	Deacetylase sirtuin-type. {ECO:0000255|PROSITE-ProRule:PRU00236}.				aerobic respiration (GO:0009060)|peptidyl-lysine deacetylation (GO:0034983)|protein ADP-ribosylation (GO:0006471)|protein deacetylation (GO:0006476)	membrane (GO:0016020)|mitochondrion (GO:0005739)	NAD+ ADP-ribosyltransferase activity (GO:0003950)|NAD+ binding (GO:0070403)|NAD-dependent histone deacetylase activity (H3-K14 specific) (GO:0032041)|zinc ion binding (GO:0008270)			endometrium(1)|lung(5)|urinary_tract(1)	7		all_cancers(49;1.58e-09)|all_epithelial(84;2.71e-06)|Breast(177;0.000162)|Ovarian(85;0.000626)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;3.66e-27)|Epithelial(43;2.02e-26)|OV - Ovarian serous cystadenocarcinoma(40;2.9e-21)|BRCA - Breast invasive adenocarcinoma(625;3.88e-05)|Lung(200;0.111)|LUSC - Lung squamous cell carcinoma(625;0.129)		TCACAACGCCGGTGCAGACCG	0.572													G|||	2	0.000399361	0.0	0.0	5008	,	,		17366	0.001		0.0	False		,,,				2504	0.001															0													61	55	57					11																	224195		2203	4300	6503	SO:0001819	synonymous_variant	23410			AF083108	CCDS7691.1, CCDS53590.1	11p15.5	2010-06-25	2010-06-25		ENSG00000142082	ENSG00000142082			14931	protein-coding gene	gene with protein product		604481	"sirtuin (silent mating type information regulation 2, S.cerevisiae, homolog) 3", "sirtuin (silent mating type information regulation 2 homolog) 3 (S. cerevisiae)"			10381378, 18215119	Standard	NM_012239		Approved	SIR2L3	uc001lok.4	Q9NTG7	OTTHUMG00000119074	ENST00000382743.4:c.852C>T	11.37:g.224195G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z5U6|Q9Y6E8	Silent	SNP	ENST00000382743.4	37	CCDS7691.1																																																																																				0.572	SIRT3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239288.3			A	224195	G	A	224195	2	1	652	1	0	0	0	0	0	0	0	1	14352	1103	39	1		1	SIRT3	11	224195	Silent	SNP	G	TCGA-KM-8476-01A-11D-2310-10		224195	134782321	52	40438										
MUC2	4583	mdanderson.org	37	chr11	1093452	1093452	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	accacggtgaccccaaccccGacacccaccggcacacagac	7	21	0	2	rs34136803		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr11:1093452G>A	ENST00000441003.2	+	30	5298	c.5271G>A	c.(5269-5271)ccG>ccA	p.P1757P	MUC2_ENST00000333592.6_Silent_p.P45P|MUC2_ENST00000361558.6_Intron|MUC2_ENST00000359061.5_Silent_p.P1724P	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0					cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)		p.P1724P(1)|p.P1757P(1)		NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	ccccaaccccgacacccaccg	0.617																																																2	Substitution - coding silent(2)	prostate(2)											107	134	125					11																	1093452		2040	4045	6085	SO:0001819	synonymous_variant	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.5271G>A	11.37:g.1093452G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Silent	SNP	ENST00000441003.2	37																																																																																					0.617	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		A	1093452	G	A	1093452	2	1	652	1	0	0	0	0	0	0	0	1	9982	1045	37	1		1	MUC2	11	1093452	Silent	SNP	G	TCGA-KM-8476-01A-11D-2310-10	869257	1093452	133913064	53	40439										
DNHD1	144132	bcgsc.ca	37	chr11	6591281	6591281	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gttcttcagacccaagaccaGctgtgggcaagtcttagcaa	10	11	3	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr11:6591281G>T	ENST00000527990.2	+	38	12906	c.12906G>T	c.(12904-12906)caG>caT	p.Q4302H	DNHD1_ENST00000254579.6_Missense_Mutation_p.Q4302H			Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1	4302					microtubule-based movement (GO:0007018)	dynein complex (GO:0030286)|extracellular vesicular exosome (GO:0070062)	microtubule motor activity (GO:0003777)			NS(1)|autonomic_ganglia(1)|breast(4)|endometrium(13)|kidney(6)|large_intestine(11)|lung(14)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	55		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		CCCAAGACCAGCTGTGGGCAA	0.557																																																0													89	88	88					11																	6591281		1964	4165	6129	SO:0001583	missense	144132			AK128064	CCDS44532.1, CCDS7767.1	11p15.4	2011-02-10		2005-11-28	ENSG00000179532	ENSG00000179532			26532	protein-coding gene	gene with protein product			"chromosome 11 open reading frame 47", "dynein heavy chain domain 1-like", "coiled-coil domain containing 35"	DHCD1, C11orf47, DNHD1L, CCDC35		12975309	Standard	NM_173589		Approved	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796	uc001mdw.4	Q96M86	OTTHUMG00000133403	ENST00000527990.2:c.12906G>T	11.37:g.6591281G>T	ENSP00000436180:p.Gln4302His	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKK8|Q6UWI9|Q8NAA2|Q8TEE6|Q9NSZ9	Missense_Mutation	SNP	ENST00000527990.2	37	CCDS44532.1	.	.	.	.	.	.	.	.	.	.	G	5.424	0.263402	0.10294	.	.	ENSG00000179532	ENST00000254579;ENST00000527990;ENST00000525883;ENST00000530197	T;T	0.08634	3.07;3.07	4.69	3.77	0.43336	Dynein heavy chain (1);	0.425959	0.23362	N	0.049015	T	0.08447	0.0210	L	0.50919	1.6	0.25206	N	0.990016	B;B;B;B	0.14805	0.011;0.005;0.011;0.011	B;B;B;B	0.15052	0.008;0.002;0.008;0.012	T	0.31251	-0.9950	10	0.15952	T	0.53	-4.8843	10.8944	0.47015	0.0:0.1891:0.8109:0.0	.	3390;570;355;4302	B0I1S4;D3DQT9;Q9NSW8;Q96M86	.;.;.;DNHD1_HUMAN	H	4302;4302;570;570	ENSP00000254579:Q4302H;ENSP00000436180:Q4302H	ENSP00000254579:Q4302H	Q	+	3	2	DNHD1	6547857	0.923000	0.31300	0.967000	0.41034	0.346000	0.29079	1.124000	0.31320	1.192000	0.43071	0.655000	0.94253	CAG		0.557	DNHD1-007	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384673.2	NM_144666		T	6591281	G	T	6591281	3	4	652	1	0	0	0	0	1	0	0	0	4670	962	34	4	13065	4	DNHD1	11	6591281	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10	5497829	6591281	128415235	54	40440										
MICALCL	84953	mdanderson.org	37	chr11	12316389	12316389	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	ctcctcctcctcctcctcctAcagcgggaggtgcaggtaag	10	16	0	0	rs3812754|rs542581403|rs199786165	byFrequency	TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr11:12316389A>C	ENST00000256186.2	+	3	1702	c.1411A>C	c.(1411-1413)Aca>Cca	p.T471P		NM_032867.2	NP_116256.2	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	471			T -> P (in dbSNP:rs3812754).		cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)	mitogen-activated protein kinase binding (GO:0051019)	p.T471delT(2)		breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(5)|lung(5)|ovary(3)|skin(3)|upper_aerodigestive_tract(1)	30				Epithelial(150;0.00177)		tcctcctcctACAGCGGGAGG	0.572													A|||	1475	0.294529	0.1331	0.3386	5008	,	,		4509	0.1815		0.5537	False		,,,				2504	0.3313															2	Deletion - In frame(2)	upper_aerodigestive_tract(1)|skin(1)						A	PRO/THR	721,2429		137,447,991	4	4	4		1411	-0.8	0	11	dbSNP_107	4	3523,3545		1029,1465,1040	yes	missense	MICALCL	NM_032867.2	38	1166,1912,2031	CC,CA,AA		49.8444,22.8889,41.5345	benign	471/696	12316389	4244,5974	1575	3534	5109	SO:0001583	missense	84953			BK000463	CCDS41620.1	11p15.3	2005-11-01			ENSG00000133808	ENSG00000133808			25933	protein-coding gene	gene with protein product		612355				12110185	Standard	NM_032867		Approved	FLJ14966	uc001mkg.1	Q6ZW33	OTTHUMG00000165777	ENST00000256186.2:c.1411A>C	11.37:g.12316389A>C	ENSP00000256186:p.Thr471Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q7RTP7|Q96JU6	Missense_Mutation	SNP	ENST00000256186.2	37	CCDS41620.1	766	0.3507326007326007	103	0.20934959349593496	147	0.40607734806629836	106	0.1853146853146853	410	0.5408970976253298	A	0.021	-1.425527	0.01126	0.228889	0.498444	ENSG00000133808	ENST00000256186	T	0.13307	2.6	0.418	-0.835	0.10775	.	.	.	.	.	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	P	0.38110	0.618	B	0.25759	0.063	T	0.38045	-0.9679	7	0.23302	T	0.38	.	.	.	.	rs3812754	471	Q6ZW33	MICLK_HUMAN	P	471	ENSP00000256186:T471P	ENSP00000256186:T471P	T	+	1	0	MICALCL	12272965	0.001000	0.12720	0.028000	0.17463	0.023000	0.10783	-0.872000	0.04219	-0.631000	0.05560	-0.661000	0.03856	ACA		0.572	MICALCL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386164.1	NM_032867		C	12316389	A	C	12316389	3	2	652	1	0	0	0	0	1	0	0	0	9579	391	14	5	1417	5	MICALCL	11	12316389	Missense_Mutation	SNP	A	TCGA-KM-8476-01A-11D-2310-10	5725108	12316389	122690127	55	40441										
SLC43A1	8501	broad.mit.edu	37	chr11	57268329	57268329	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gaatatcaacggagacagagCtggaaaggggaaagcagcag	15	6	1	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr11:57268329C>T	ENST00000278426.3	-	5	744		c.e5-1		SLC43A1_ENST00000533515.1_5'Flank|SLC43A1_ENST00000528450.1_Splice_Site	NM_003627.5	NP_003618.1			solute carrier family 43 (amino acid system L transporter), member 1											breast(1)|endometrium(2)|large_intestine(5)|liver(1)|lung(6)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	19						GGAGACAGAGCTGGAAAGGGG	0.562																																																0													104	106	105					11																	57268329		2201	4296	6497	SO:0001630	splice_region_variant	8501			AF045584	CCDS7958.1	11q12.1	2013-07-17	2013-07-17	2003-09-12	ENSG00000149150	ENSG00000149150		"Solute carriers"	9225	protein-coding gene	gene with protein product		603733	"prostate cancer overexpressed gene 1"	POV1		9255310, 9722952	Standard	NM_003627		Approved	R00504, PB39	uc001nkk.3	O75387	OTTHUMG00000167030	ENST00000278426.3:c.389-1G>A	11.37:g.57268329C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Splice_Site	SNP	ENST00000278426.3	37	CCDS7958.1	.	.	.	.	.	.	.	.	.	.	C	15.55	2.867231	0.51588	.	.	ENSG00000149150	ENST00000278426;ENST00000528450;ENST00000525764;ENST00000533066	.	.	.	5.25	5.25	0.73442	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.7628	0.78101	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	SLC43A1	57024905	1.000000	0.71417	0.969000	0.41365	0.446000	0.32137	6.810000	0.75216	2.445000	0.82738	0.655000	0.94253	.		0.562	SLC43A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392541.1	NM_003627	Intron	T	57268329	C	T	57268329	5	4	652	1	0	0	0	0	0	0	1	0	14645	811	28	2	1335	2	SLC43A1	11	57268329	Splice_Site	SNP	C	TCGA-KM-8476-01A-11D-2310-10	44951940	57268329	77738187	56	40442										
ARHGEF17	9828	hgsc.bcm.edu	37	chr11	73073258	73073258	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	atcctctgcatcggggcggtGcccgggctgcagcctcgctg	15	15	1	0	rs148923147	byFrequency	TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr11:73073258G>T	ENST00000263674.3	+	13	5018	c.4668G>T	c.(4666-4668)gtG>gtT	p.V1556V		NM_014786.3	NP_055601.2	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	1556					actin cytoskeleton organization (GO:0030036)|apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	guanyl-nucleotide exchange factor activity (GO:0005085)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(15)|ovary(2)|skin(2)	32						TCGGGGCGGTGCCCGGGCTGC	0.741													G|||	51	0.0101837	0.0023	0.0101	5008	,	,		11811	0.0		0.0129	False		,,,				2504	0.0286															0								G		8,4170		0,8,2081	9	9	9		4668	2	1	11	dbSNP_134	9	59,8021		1,57,3982	no	coding-synonymous	ARHGEF17	NM_014786.3		1,65,6063	TT,TG,GG		0.7302,0.1915,0.5466		1556/2064	73073258	67,12191	2089	4040	6129	SO:0001819	synonymous_variant	9828			AF378754	CCDS8221.1	11q13.3	2011-11-16			ENSG00000110237	ENSG00000110237		"Rho guanine nucleotide exchange factors"	21726	protein-coding gene	gene with protein product	"Rho-specific guanine-nucleotide exchange factor 164 kDa", "tumor endothelial marker 4"					11559528, 12071859	Standard	NM_014786		Approved	TEM4, KIAA0337, p164-RhoGEF	uc001otu.3	Q96PE2	OTTHUMG00000167971	ENST00000263674.3:c.4668G>T	11.37:g.73073258G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RP20|Q86XU2|Q8N2S0|Q9Y4G3	Silent	SNP	ENST00000263674.3	37	CCDS8221.1																																																																																				0.741	ARHGEF17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397365.1	NM_014786		T	73073258	G	T	73073258	2	4	652	1	0	0	0	0	0	0	0	1	900	1306	46	4		4	ARHGEF17	11	73073258	Silent	SNP	G	TCGA-KM-8476-01A-11D-2310-10	15804929	73073258	61933258	57	40443										
INTS4	92105	mdanderson.org	37	chr11	77614592	77614592	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	ctgaataagcttacctgtttCgctgctgctgaggccaaatc	9	11	0	2	rs565544206	byFrequency	TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr11:77614592C>T	ENST00000534064.1	-	17	2125	c.2091G>A	c.(2089-2091)gcG>gcA	p.A697A	INTS4_ENST00000535943.1_Silent_p.A72A|AAMDC_ENST00000532481.1_Intron	NM_033547.3	NP_291025.3	Q96HW7	INT4_HUMAN	integrator complex subunit 4	697					snRNA processing (GO:0016180)	integrator complex (GO:0032039)		p.A697A(1)	INTS4/GAB2(2)	NS(2)|cervix(3)|endometrium(3)|kidney(3)|large_intestine(4)|lung(9)|ovary(2)|prostate(5)|upper_aerodigestive_tract(1)	32	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		Epithelial(5;1.13e-46)|all cancers(3;8.92e-44)|BRCA - Breast invasive adenocarcinoma(5;8.4e-26)|OV - Ovarian serous cystadenocarcinoma(8;1.05e-23)			TTACCTGTTTCGCTGCTGCTG	0.483													C|||	7	0.00139776	0.0045	0.0	5008	,	,		22683	0.001		0.0	False		,,,				2504	0.0															1	Substitution - coding silent(1)	prostate(1)											63	54	57					11																	77614592		2200	4292	6492	SO:0001819	synonymous_variant	92105			BC015664	CCDS31644.1	11q14.1	2006-04-26			ENSG00000149262	ENSG00000149262			25048	protein-coding gene	gene with protein product		611348				16239144	Standard	NM_033547		Approved	INT4, MGC16733, MST093	uc001oys.3	Q96HW7	OTTHUMG00000166629	ENST00000534064.1:c.2091G>A	11.37:g.77614592C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2YD62|Q6PJG4|Q7Z4E7|Q96G32|Q96GA1|Q9BRC0	Silent	SNP	ENST00000534064.1	37	CCDS31644.1																																																																																				0.483	INTS4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390927.1	NM_033547		T	77614592	C	T	77614592	2	4	652	1	0	0	0	0	0	0	0	1	7787	871	31	1		1	INTS4	11	77614592	Silent	SNP	C	TCGA-KM-8476-01A-11D-2310-10	4541334	77614592	57391924	58	40444										
TRIM49	57093	mdanderson.org	37	chr11	89531533	89531533	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	acccaagaagaaagagtcccGcctttccatctatcttctca	5	14	3	3	rs146898780	byFrequency	TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr11:89531533G>T	ENST00000329758.1	-	8	1452	c.1124C>A	c.(1123-1125)gCg>gAg	p.A375E	TRIM49_ENST00000532501.2_Missense_Mutation_p.A298E	NM_020358.2	NP_065091.1	P0CI25	TRI49_HUMAN	tripartite motif containing 49	375	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.					intracellular (GO:0005622)	zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|liver(1)|lung(14)|prostate(1)|skin(2)|stomach(1)	27		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				AAAGAGTCCCGCCTTTCCATC	0.448													t|||	168	0.0335463	0.0507	0.0504	5008	,	,		18300	0.0446		0.0109	False		,,,				2504	0.0102															0													78	85	83					11																	89531533		2129	4278	6407	SO:0001583	missense	57093			AB037682	CCDS8287.1	11p11.12-q12	2012-05-21	2011-01-25	2004-11-17	ENSG00000168930	ENSG00000168930		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	13431	protein-coding gene	gene with protein product		606124	"ring finger protein 18", "tripartite motif-containing 49"	RNF18		11018261	Standard	NM_020358		Approved	TRIM49A	uc001pdb.3	P0CI25		ENST00000329758.1:c.1124C>A	11.37:g.89531533G>T	ENSP00000327604:p.Ala375Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVR7|A0AVR9|Q6DJV1|Q9NS80	Missense_Mutation	SNP	ENST00000329758.1	37	CCDS8287.1	.	.	.	.	.	.	.	.	.	.	T	0.003	-2.430515	0.00184	.	.	ENSG00000168930	ENST00000329758;ENST00000532501	T	0.68331	-0.32	0.812	0.812	0.18744	Concanavalin A-like lectin/glucanase (1);B30.2/SPRY domain (1);SPla/RYanodine receptor SPRY (1);	.	.	.	.	T	0.24160	0.0585	N	0.00332	-1.63	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.25813	-1.0121	8	.	.	.	.	3.6708	0.08273	0.0:0.0:0.4123:0.5877	.	375	P0CI25	TRI49_HUMAN	E	375;298	ENSP00000327604:A375E	.	A	-	2	0	TRIM49	89171181	0.000000	0.05858	0.001000	0.08648	0.011000	0.07611	0.249000	0.18216	-0.171000	0.10797	-1.228000	0.01579	GCG		0.448	TRIM49-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395435.1	NM_020358		T	89531533	G	T	89531533	3	4	652	1	0	0	0	0	1	0	0	0	16536	1087	38	4	238	4	TRIM49	11	89531533	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10	11916941	89531533	45474983	59	40445										
PGR	5241	ucsc.edu	37	chr11	100999187	100999187	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	ggcttcactggggccccggaCcagtgagggctctcagaggc	16	13	2	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr11:100999187C>T	ENST00000325455.5	-	1	2068	c.615G>A	c.(613-615)tgG>tgA	p.W205*	PGR_ENST00000263463.5_Nonsense_Mutation_p.W205*|PGR_ENST00000534013.1_Intron	NM_000926.4|NM_001202474.1|NM_001271162.1	NP_000917.3|NP_001189403.1|NP_001258091.1	P06401	PRGR_HUMAN	progesterone receptor	205	Modulating, Pro-Rich.				cell-cell signaling (GO:0007267)|epithelial cell maturation (GO:0002070)|gene expression (GO:0010467)|negative regulation of gene expression (GO:0010629)|ovulation from ovarian follicle (GO:0001542)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|progesterone receptor signaling pathway (GO:0050847)|regulation of epithelial cell proliferation (GO:0050678)|signal transduction (GO:0007165)|tertiary branching involved in mammary gland duct morphogenesis (GO:0060748)|transcription initiation from RNA polymerase II promoter (GO:0006367)	mitochondrial outer membrane (GO:0005741)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|enzyme binding (GO:0019899)|ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|receptor binding (GO:0005102)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|steroid binding (GO:0005496)|steroid hormone receptor activity (GO:0003707)|zinc ion binding (GO:0008270)	p.W205C(1)		NS(1)|breast(2)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(4)|liver(1)|lung(18)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	36		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)	Allylestrenol(DB01431)|Danazol(DB01406)|Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol(DB00823)|Etonogestrel(DB00294)|Fluticasone Propionate(DB00588)|Levonorgestrel(DB00367)|Medroxyprogesterone Acetate(DB00603)|Megestrol acetate(DB00351)|Mifepristone(DB00834)|Norelgestromin(DB06713)|Norethindrone(DB00717)|Norgestimate(DB00957)|Progesterone(DB00396)|Spironolactone(DB00421)	GGGCCCCGGACCAGTGAGGGC	0.687																																					Pancreas(124;2271 2354 21954 22882)											1	Substitution - Missense(1)	lung(1)											7	9	9					11																	100999187		2081	4166	6247	SO:0001587	stop_gained	5241			M15716	CCDS8310.1, CCDS59229.1	11q22-q23	2013-01-16			ENSG00000082175	ENSG00000082175		"Nuclear hormone receptors"	8910	protein-coding gene	gene with protein product		607311					Standard	NM_000926		Approved	PR, NR3C3	uc001pgh.2	P06401	OTTHUMG00000167531	ENST00000325455.5:c.615G>A	11.37:g.100999187C>T	ENSP00000325120:p.Trp205*	Somatic		WXS	Illumina HiSeq	Phase_I	A7LQ08|A7X8B0|B4E3T0|Q8TDS3|Q9UPF7	Nonsense_Mutation	SNP	ENST00000325455.5	37	CCDS8310.1	.	.	.	.	.	.	.	.	.	.	c	16.97	3.267528	0.59540	.	.	ENSG00000082175	ENST00000325455;ENST00000263463;ENST00000537623	.	.	.	4.44	3.53	0.40419	.	0.717914	0.12600	N	0.454809	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	6.4107	0.21690	0.0:0.7115:0.1883:0.1003	.	.	.	.	X	205	.	ENSP00000263463:W205X	W	-	3	0	PGR	100504397	0.714000	0.27936	0.601000	0.28877	0.101000	0.19017	1.009000	0.29886	0.864000	0.35578	-0.217000	0.12591	TGG		0.687	PGR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394934.1			T	100999187	C	T	100999187	4	4	652	1	0	0	0	0	0	1	0	0	11812	508	18	2	2218	2	PGR	11	100999187	Nonsense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	11467654	100999187	34007329	60	40446										
CASP4	837	broad.mit.edu	37	chr11	104825546	104825546	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	ttgtcctgccatacgttgctTctcttgcatagagtctgcca	8	12	2	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr11:104825546T>C	ENST00000444739.2	-	2	1100	c.190A>G	c.(190-192)Aag>Gag	p.K64E	CASP4_ENST00000531333.1_5'UTR|CASP4_ENST00000393150.3_Missense_Mutation_p.K8E	NM_001225.3	NP_001216.1	P49662	CASP4_HUMAN	caspase 4, apoptosis-related cysteine peptidase	64	CARD. {ECO:0000255|PROSITE- ProRule:PRU00046}.				apoptotic process (GO:0006915)|execution phase of apoptosis (GO:0097194)|proteolysis (GO:0006508)|regulation of apoptotic process (GO:0042981)|regulation of inflammatory response (GO:0050727)	AIM2 inflammasome complex (GO:0097169)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|IPAF inflammasome complex (GO:0072557)|membrane (GO:0016020)|mitochondrion (GO:0005739)|NLRP3 inflammasome complex (GO:0072559)	cysteine-type endopeptidase activity (GO:0004197)			central_nervous_system(1)|endometrium(2)|large_intestine(5)|lung(11)|ovary(1)|skin(1)|urinary_tract(2)	23		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)		ATACGTTGCTTCTCTTGCATA	0.363																																																0													213	199	204					11																	104825546		2202	4299	6501	SO:0001583	missense	837			U25804	CCDS8327.1, CCDS41704.1	11q22.2-q22.3	2006-02-17	2005-08-17		ENSG00000196954	ENSG00000196954		"Caspases"	1505	protein-coding gene	gene with protein product		602664	"caspase 4, apoptosis-related cysteine protease"			7797510, 9250871	Standard	NM_001225		Approved	ICE(rel)II, ICH-2, TX	uc001pid.1	P49662	OTTHUMG00000166078	ENST00000444739.2:c.190A>G	11.37:g.104825546T>C	ENSP00000388566:p.Lys64Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A2NHL8|A2NHM0	Missense_Mutation	SNP	ENST00000444739.2	37	CCDS8327.1	.	.	.	.	.	.	.	.	.	.	T	13.61	2.288516	0.40494	.	.	ENSG00000196954	ENST00000444739;ENST00000393150;ENST00000417440	T;T;T	0.29397	1.57;4.16;1.57	3.46	2.24	0.28232	DEATH-like (2);Caspase Recruitment (3);	0.171234	0.51477	D	0.000082	T	0.48132	0.1483	M	0.71871	2.18	0.09310	N	1	P;D;D	0.69078	0.943;0.997;0.975	P;D;D	0.71414	0.672;0.973;0.933	T	0.29427	-1.0012	10	0.72032	D	0.01	.	7.8029	0.29185	0.0:0.0:0.2125:0.7875	.	64;64;64	B4DJH5;B4E2D2;P49662	.;.;CASP4_HUMAN	E	64;8;64	ENSP00000388566:K64E;ENSP00000376857:K8E;ENSP00000401673:K64E	ENSP00000376857:K8E	K	-	1	0	CASP4	104330756	0.040000	0.19996	0.001000	0.08648	0.002000	0.02628	1.676000	0.37565	0.457000	0.26962	0.459000	0.35465	AAG		0.363	CASP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387751.1	NM_001225		C	104825546	T	C	104825546	3	2	652	1	0	0	0	0	1	0	0	0	2675	1792	62	3	971	3	CASP4	11	104825546	Missense_Mutation	SNP	T	TCGA-KM-8476-01A-11D-2310-10	3826359	104825546	30180970	61	40447										
HSPA8	3312	mdanderson.org	37	chr11	122931403	122931403	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tctcccttgtattctacttgGaccttgggcctgccagcatc	8	14	2	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr11:122931403G>A	ENST00000532636.1	-	3	428	c.309C>T	c.(307-309)gtC>gtT	p.V103V	HSPA8_ENST00000534624.1_Silent_p.V103V|SNORD14D_ENST00000384390.1_RNA|HSPA8_ENST00000534319.1_5'Flank|SNORD14C_ENST00000365382.1_RNA|HSPA8_ENST00000227378.3_Silent_p.V103V|HSPA8_ENST00000526110.1_Silent_p.V103V|HSPA8_ENST00000526862.1_5'Flank|HSPA8_ENST00000453788.2_Silent_p.V103V|HSPA8_ENST00000533540.1_Intron|SNORD14E_ENST00000364009.1_RNA			P11142	HSP7C_HUMAN	heat shock 70kDa protein 8	103					ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|chaperone mediated protein folding requiring cofactor (GO:0051085)|clathrin coat disassembly (GO:0072318)|gene expression (GO:0010467)|membrane organization (GO:0061024)|mRNA metabolic process (GO:0016071)|mRNA processing (GO:0006397)|negative regulation of fibril organization (GO:1902904)|negative regulation of transcription, DNA-templated (GO:0045892)|neurotransmitter secretion (GO:0007269)|post-Golgi vesicle-mediated transport (GO:0006892)|protein folding (GO:0006457)|protein refolding (GO:0042026)|regulation of cell cycle (GO:0051726)|response to unfolded protein (GO:0006986)|RNA metabolic process (GO:0016070)|RNA splicing (GO:0008380)|synaptic transmission (GO:0007268)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	blood microparticle (GO:0072562)|clathrin-sculpted gamma-aminobutyric acid transport vesicle membrane (GO:0061202)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|intracellular (GO:0005622)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|Prp19 complex (GO:0000974)|ribonucleoprotein complex (GO:0030529)|spliceosomal complex (GO:0005681)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled (GO:0042623)|enzyme binding (GO:0019899)|G-protein coupled receptor binding (GO:0001664)|heat shock protein binding (GO:0031072)|MHC class II protein complex binding (GO:0023026)|poly(A) RNA binding (GO:0044822)|ubiquitin protein ligase binding (GO:0031625)|unfolded protein binding (GO:0051082)			breast(1)|central_nervous_system(7)|endometrium(1)|kidney(9)|large_intestine(4)|lung(13)|upper_aerodigestive_tract(1)	36		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		ATTCTACTTGGACCTTGGGCC	0.463																																					Colon(21;486 594 5900 6733 14272)											0													85	84	84					11																	122931403		2202	4299	6501	SO:0001819	synonymous_variant	3312			Y00371	CCDS8440.1, CCDS44754.1	11q24.1	2011-09-02	2002-08-29		ENSG00000109971	ENSG00000109971		"Heat shock proteins / HSP70"	5241	protein-coding gene	gene with protein product		600816	"heat shock 70kD protein 8"	HSPA10		8530083, 3037489	Standard	NM_006597		Approved	HSC71, HSC70, HSP73	uc001pyo.3	P11142	OTTHUMG00000166030	ENST00000532636.1:c.309C>T	11.37:g.122931403G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H3R6	Silent	SNP	ENST00000532636.1	37	CCDS8440.1																																																																																				0.463	HSPA8-004	PUTATIVE	alternative_5_UTR|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000387515.1			A	122931403	G	A	122931403	2	1	652	1	0	0	0	0	0	0	0	1	7423	1161	41	2		2	HSPA8	11	122931403	Silent	SNP	G	TCGA-KM-8476-01A-11D-2310-10	18105857	122931403	12075113	62	40448										
GALNT8	26290	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	4854614	4854614	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gggcagagccaatcttggctCggattcaggaggaccgcact	14	11	2	1	rs202166380	byFrequency	TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr12:4854614C>T	ENST00000252318.2	+	5	1217	c.880C>T	c.(880-882)Cgg>Tgg	p.R294W		NM_017417.1	NP_059113.1	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	294	Catalytic subdomain A.				cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(13)|ovary(2)|pancreas(1)|prostate(4)|skin(2)|urinary_tract(1)	35						AATCTTGGCTCGGATTCAGGA	0.483													C|||	3	0.000599042	0.0008	0.0	5008	,	,		23971	0.001		0.0	False		,,,				2504	0.001				Colon(108;631 1558 7270 20097 39846)											0								C	TRP/ARG	1,4405	2.1+/-5.4	0,1,2202	113	92	99		880	-1.5	0.9	12		99	0,8600		0,0,4300	no	missense	GALNT8	NM_017417.1	101	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging	294/638	4854614	1,13005	2203	4300	6503	SO:0001583	missense	26290			AJ271385	CCDS8533.1	12p13.32	2014-03-13	2014-03-13		ENSG00000130035	ENSG00000130035	2.4.1.41	"Glycosyltransferase family 2 domain containing"	4130	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 8"	606250	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 8 (GalNAc-T8)"			10767557	Standard	NM_017417		Approved	GALNAC-T8	uc001qne.1	Q9NY28	OTTHUMG00000166188	ENST00000252318.2:c.880C>T	12.37:g.4854614C>T	ENSP00000252318:p.Arg294Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B2RU02	Missense_Mutation	SNP	ENST00000252318.2	37	CCDS8533.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	C	17.19	3.326160	0.60743	2.27E-4	0.0	ENSG00000130035	ENST00000252318	T	0.62105	0.05	4.11	-1.5	0.08691	Glycosyl transferase, family 2 (1);	0.081559	0.48767	N	0.000161	T	0.71459	0.3342	M	0.83953	2.67	0.26121	N	0.980544	D	0.89917	1.0	D	0.85130	0.997	T	0.62704	-0.6798	10	0.87932	D	0	.	1.1486	0.01781	0.425:0.2546:0.1392:0.1812	.	294	Q9NY28	GALT8_HUMAN	W	294	ENSP00000252318:R294W	ENSP00000252318:R294W	R	+	1	2	GALNT8	4724875	0.027000	0.19231	0.903000	0.35520	0.955000	0.61496	-0.254000	0.08781	-0.573000	0.05998	0.491000	0.48974	CGG		0.483	GALNT8-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000388277.2	NM_017417		T	4854614	C	T	4854614	3	4	652	1	0	0	0	0	1	0	0	0	6226	875	31	1	898	1	GALNT8	12	4854614	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10		4854614	128997281	63	40449										
PRB2	653247	mdanderson.org	37	chr12	11546262	11546262	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gggggaccttggggctggttGcctccttgtgggggtggtcc	20	9	0	0	rs199808121	byFrequency	TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr12:11546262G>A	ENST00000389362.4	-	3	785	c.750C>T	c.(748-750)ggC>ggT	p.G250G	PRB2_ENST00000545829.1_5'Flank|PRB1_ENST00000546254.1_Intron	NM_006248.3	NP_006239.3	P02812	PRB2_HUMAN	proline-rich protein BstNI subfamily 2	250	15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-P-Q-G-[GD]-[NKS]-[KSQ]- [PRS]-[QRS] [GPS]-[PSAR]-[PSR].					extracellular region (GO:0005576)				NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(14)|pancreas(1)|prostate(5)|skin(4)|stomach(2)|urinary_tract(1)	37		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			GGGGCTGGTTGCCTCCTTGTG	0.607																																																0													111	144	133					12																	11546262		2188	4276	6464	SO:0001819	synonymous_variant	653247			K03208	CCDS41757.2	12p13.2	2012-10-02			ENSG00000121335	ENSG00000121335			9338	protein-coding gene	gene with protein product		168810				8554050	Standard	NM_006248		Approved	PRPPRB1, Ps, cP7	uc010shk.1	P02812	OTTHUMG00000156975	ENST00000389362.4:c.750C>T	12.37:g.11546262G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O00599|P02811|P04281	Silent	SNP	ENST00000389362.4	37	CCDS41757.2																																																																																				0.607	PRB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346925.2	NM_006248		A	11546262	G	A	11546262	2	1	652	1	0	0	0	0	0	0	0	1	12453	1306	46	2		2	PRB2	12	11546262	Silent	SNP	G	TCGA-KM-8476-01A-11D-2310-10	6691648	11546262	122305633	64	40450										
EIF4B	1975	broad.mit.edu	37	chr12	53416356	53416356	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gactggagggctcgtcctgcTacagacagctttgatgacta	12	10	0	3			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr12:53416356T>C	ENST00000262056.9	+	6	938	c.612T>C	c.(610-612)gcT>gcC	p.A204A	EIF4B_ENST00000416762.3_Silent_p.A165A|RP11-983P16.4_ENST00000552905.1_RNA|EIF4B_ENST00000420463.3_Silent_p.A204A	NM_001417.4	NP_001408.2	P23588	IF4B_HUMAN	eukaryotic translation initiation factor 4B	204	Arg-rich.|Asp-rich.				cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|insulin receptor signaling pathway (GO:0008286)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|regulation of translational initiation (GO:0006446)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)	cytosol (GO:0005829)|eukaryotic translation initiation factor 4F complex (GO:0016281)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|translation initiation factor activity (GO:0003743)			breast(4)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(10)|stomach(1)|upper_aerodigestive_tract(1)	22						CTCGTCCTGCTACAGACAGCT	0.433																																																0													105	90	94					12																	53416356		1879	4110	5989	SO:0001819	synonymous_variant	1975			X55733	CCDS41788.1, CCDS73474.1	12q13.13	2013-02-12			ENSG00000063046	ENSG00000063046		"RNA binding motif (RRM) containing"	3285	protein-coding gene	gene with protein product		603928					Standard	XM_005268709		Approved		uc001sbh.4	P23588	OTTHUMG00000169570	ENST00000262056.9:c.612T>C	12.37:g.53416356T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0E3|Q53HQ2|Q6GPH5|Q6IB46|Q8WYK5	Silent	SNP	ENST00000262056.9	37	CCDS41788.1																																																																																				0.433	EIF4B-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000404852.2	NM_001417		C	53416356	T	C	53416356	2	2	652	1	0	0	0	0	0	0	0	1	5029	1509	53	3		3	EIF4B	12	53416356	Silent	SNP	T	TCGA-KM-8476-01A-11D-2310-10	41870094	53416356	80435539	65	40451										
OR6C74	254783	mdanderson.org	37	chr12	55641157	55641157	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	ggtgattatttttcttctccTttttttcacctacatgttga	5	8	3	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr12:55641157T>C	ENST00000343870.4	+	1	176	c.86T>C	c.(85-87)cTt>cCt	p.L29P		NM_001005490.1	NP_001005490.1	A6NCV1	O6C74_HUMAN	olfactory receptor, family 6, subfamily C, member 74	29						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			central_nervous_system(1)|large_intestine(3)|lung(7)|prostate(1)	12						TTTCTTCTCCTTTTTTTCACC	0.378																																																0													183	177	179					12																	55641157		2203	4300	6503	SO:0001583	missense	254783				CCDS31816.1	12q13.13	2012-08-09			ENSG00000197706	ENSG00000197706		"GPCR / Class A : Olfactory receptors"	31303	protein-coding gene	gene with protein product							Standard	NM_001005490		Approved		uc010spg.2	A6NCV1	OTTHUMG00000165162	ENST00000343870.4:c.86T>C	12.37:g.55641157T>C	ENSP00000342836:p.Leu29Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000343870.4	37	CCDS31816.1	.	.	.	.	.	.	.	.	.	.	t	12.35	1.911727	0.33721	.	.	ENSG00000197706	ENST00000343870	T	0.00580	6.43	4.83	4.83	0.62350	.	0.000000	0.43747	D	0.000537	T	0.03739	0.0106	M	0.90759	3.145	0.30755	N	0.744759	D	0.89917	1.0	D	0.79784	0.993	T	0.00763	-1.1576	10	0.72032	D	0.01	.	14.4929	0.67665	0.0:0.0:0.0:1.0	.	29	A6NCV1	O6C74_HUMAN	P	29	ENSP00000342836:L29P	ENSP00000342836:L29P	L	+	2	0	OR6C74	53927424	0.629000	0.27146	0.074000	0.20217	0.175000	0.22909	5.237000	0.65360	2.139000	0.66308	0.450000	0.29827	CTT		0.378	OR6C74-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382312.1			C	55641157	T	C	55641157	3	2	652	1	0	0	0	0	1	0	0	0	11205	1609	56	3	88	3	OR6C74	12	55641157	Missense_Mutation	SNP	T	TCGA-KM-8476-01A-11D-2310-10	2224801	55641157	78210738	66	40452										
ACACB	32	broad.mit.edu	37	chr12	109577282	109577282	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tcctggttaaaaatctggggGaaaatgacggactccaagcc	11	9	1	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr12:109577282G>A	ENST00000338432.7	+	2	191	c.72G>A	c.(70-72)ggG>ggA	p.G24G	ACACB_ENST00000377854.5_Silent_p.G24G|ACACB_ENST00000377848.3_Silent_p.G24G			O00763	ACACB_HUMAN	acetyl-CoA carboxylase beta	24					acetyl-CoA metabolic process (GO:0006084)|biotin metabolic process (GO:0006768)|carnitine shuttle (GO:0006853)|cellular lipid metabolic process (GO:0044255)|energy reserve metabolic process (GO:0006112)|fatty acid biosynthetic process (GO:0006633)|malonyl-CoA biosynthetic process (GO:2001295)|positive regulation of cellular metabolic process (GO:0031325)|protein homotetramerization (GO:0051289)|response to drug (GO:0042493)|response to organic cyclic compound (GO:0014070)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	acetyl-CoA carboxylase activity (GO:0003989)|ATP binding (GO:0005524)|biotin binding (GO:0009374)|biotin carboxylase activity (GO:0004075)|metal ion binding (GO:0046872)			NS(1)|breast(2)|endometrium(9)|kidney(5)|large_intestine(20)|lung(40)|ovary(6)|pancreas(1)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	95					Adenine(DB00173)|Biotin(DB00121)	AAATCTGGGGGAAAATGACGG	0.463																																																0													95	95	95					12																	109577282		2203	4300	6503	SO:0001819	synonymous_variant	32			U89344	CCDS31898.1	12q24.1	2010-05-07	2010-04-30		ENSG00000076555	ENSG00000076555	6.4.1.2		85	protein-coding gene	gene with protein product	"acetyl-CoA carboxylase 2"	601557	"acetyl-Coenzyme A carboxylase beta"			8670171	Standard	NM_001093		Approved	HACC275, ACC2, ACCB	uc001toc.3	O00763	OTTHUMG00000169250	ENST00000338432.7:c.72G>A	12.37:g.109577282G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NK36|Q16852|Q1HEC1|Q6KE87|Q6KE89|Q6TY48	Silent	SNP	ENST00000338432.7	37	CCDS31898.1																																																																																				0.463	ACACB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403077.1	NM_001093		A	109577282	G	A	109577282	2	1	652	1	0	0	0	0	0	0	0	1	107	1161	41	2		2	ACACB	12	109577282	Silent	SNP	G	TCGA-KM-8476-01A-11D-2310-10	53936125	109577282	24274613	67	40453										
C12orf51	283450	ucsc.edu	37	chr12	112607414	112607414	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	acgacggcactgaggccagcTgcctggcagcctgacagaag	14	13	0	3			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr12:112607414T>C	ENST00000430131.2	-	69	11980	c.10835A>G	c.(10834-10836)cAg>cGg	p.Q3612R	HECTD4_ENST00000550722.1_Missense_Mutation_p.Q3888R|HECTD4_ENST00000377560.5_Missense_Mutation_p.Q3862R			Q9Y4D8	HECD4_HUMAN	HECT domain containing E3 ubiquitin protein ligase 4	3612					glucose homeostasis (GO:0042593)|glucose metabolic process (GO:0006006)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)										TGAGGCCAGCTGCCTGGCAGC	0.597																																																0													46	52	50					12																	112607414		2047	4188	6235	SO:0001583	missense	283450			AK091473		12q24.13	2013-07-17	2012-08-14	2012-08-14	ENSG00000173064	ENSG00000173064			26611	protein-coding gene	gene with protein product			"chromosome 12 open reading frame 51"	C12orf51		21270382	Standard	NM_001109662		Approved	FLJ34154, KIAA0614	uc021reb.1	Q9Y4D8	OTTHUMG00000150719	ENST00000430131.2:c.10835A>G	12.37:g.112607414T>C	ENSP00000404379:p.Gln3612Arg	Somatic		WXS	Illumina HiSeq	Phase_I	L8B0P6|Q3MJD5|Q6P0A0|Q7L530|Q8NB70|Q8WU73|Q96NT9|Q9NZS4|Q9UFT6	Missense_Mutation	SNP	ENST00000430131.2	37		.	.	.	.	.	.	.	.	.	.	T	27.5	4.835640	0.91117	.	.	ENSG00000173064	ENST00000377560;ENST00000430131;ENST00000550722;ENST00000547085	T;T;T	0.50813	0.73;0.73;0.73	5.88	5.88	0.94601	.	.	.	.	.	T	0.52677	0.1749	N	0.19112	0.55	0.53005	D	0.999965	P	0.45126	0.851	P	0.58391	0.838	T	0.57585	-0.7786	9	0.72032	D	0.01	.	16.2794	0.82664	0.0:0.0:0.0:1.0	.	3612	Q9Y4D8	K0614_HUMAN	R	3862;3612;3888;77	ENSP00000366783:Q3862R;ENSP00000404379:Q3612R;ENSP00000449784:Q3888R	ENSP00000366783:Q3862R	Q	-	2	0	C12orf51	111091797	1.000000	0.71417	1.000000	0.80357	0.959000	0.62525	7.509000	0.81698	2.251000	0.74343	0.482000	0.46254	CAG		0.597	HECTD4-202	KNOWN	basic	protein_coding	protein_coding		NM_173813		C	112607414	T	C	112607414	3	2	652	1	0	0	0	0	1	0	0	0	1698	1580	55	3	1183	3	C12orf51	12	112607414	Missense_Mutation	SNP	T	TCGA-KM-8476-01A-11D-2310-10	3030132	112607414	21244481	68	40454										
TMEM132B	114795	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	126137027	126137027	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	ctccatcctggctgagaagaCggtgattgtcctggatgacc	12	11	0	4			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr12:126137027C>T	ENST00000299308.3	+	8	1948	c.1940C>T	c.(1939-1941)aCg>aTg	p.T647M	TMEM132B_ENST00000535886.1_Missense_Mutation_p.T159M	NM_052907.2	NP_443139.2	Q14DG7	T132B_HUMAN	transmembrane protein 132B	647						integral component of membrane (GO:0016021)				NS(1)|breast(9)|central_nervous_system(1)|cervix(1)|endometrium(7)|kidney(2)|large_intestine(11)|liver(1)|lung(45)|ovary(5)|pancreas(1)|prostate(4)|skin(15)|upper_aerodigestive_tract(3)|urinary_tract(1)	107	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)		GCTGAGAAGACGGTGATTGTC	0.567																																																0													32	34	34					12																	126137027		2073	4228	6301	SO:0001583	missense	114795			AB067493	CCDS41859.1, CCDS66501.1	12q24.31	2006-03-02							29397	protein-coding gene	gene with protein product						11572484	Standard	NM_001286219		Approved	KIAA1906, KIAA1786	uc001uhe.1	Q14DG7		ENST00000299308.3:c.1940C>T	12.37:g.126137027C>T	ENSP00000299308:p.Thr647Met	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRG8|Q8NA73|Q96JN9|Q96PY1	Missense_Mutation	SNP	ENST00000299308.3	37	CCDS41859.1	.	.	.	.	.	.	.	.	.	.	C	20.4	3.988608	0.74589	.	.	ENSG00000139364	ENST00000299308;ENST00000535886	T;T	0.54866	0.55;0.55	5.34	5.34	0.76211	.	0.000000	0.64402	D	0.000002	T	0.69260	0.3091	L	0.54965	1.715	0.80722	D	1	D	0.89917	1.0	D	0.74023	0.982	T	0.69146	-0.5222	10	0.49607	T	0.09	.	19.0468	0.93022	0.0:1.0:0.0:0.0	.	647	Q14DG7	T132B_HUMAN	M	647;159	ENSP00000299308:T647M;ENSP00000440436:T159M	ENSP00000299308:T647M	T	+	2	0	TMEM132B	124702980	1.000000	0.71417	0.947000	0.38551	0.510000	0.34073	4.569000	0.60865	2.471000	0.83476	0.655000	0.94253	ACG		0.567	TMEM132B-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000400043.1	NM_052907		T	126137027	C	T	126137027	3	4	652	1	0	0	0	0	1	0	0	0	16058	536	19	1	1970	1	TMEM132B	12	126137027	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	13529613	126137027	7714868	69	40455										
HEATR5A	25938	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr14	31844040	31844040	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	accacacagtgcaccagctcGtccttccagggtcacctgcc	8	18	1	0	rs376522134		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr14:31844040G>A	ENST00000389961.3	-	11	1824	c.1825C>T	c.(1825-1827)Cga>Tga	p.R609*	HEATR5A_ENST00000543095.2_Nonsense_Mutation_p.R615*|HEATR5A_ENST00000439348.1_Nonsense_Mutation_p.R609*|HEATR5A_ENST00000404677.3_Nonsense_Mutation_p.R615*|HEATR5A_ENST00000439727.1_Nonsense_Mutation_p.R322*			Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A	609										breast(1)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(5)|lung(13)|ovary(1)	26	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		GCACCAGCTCGTCCTTCCAGG	0.443																																																0								G	stop/ARG	0,3952		0,0,1976	61	65	64		1843	2.8	1	14		64	1,8323		0,1,4161	no	stop-gained	HEATR5A	NM_015473.3		0,1,6137	AA,AG,GG		0.012,0.0,0.0081		615/2047	31844040	1,12275	1976	4162	6138	SO:0001587	stop_gained	25938			AB037737		14q12	2012-04-19	2007-01-02	2007-01-02	ENSG00000129493	ENSG00000129493			20276	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 125"	C14orf125			Standard	NM_015473		Approved	DKFZP434I1735	uc001wrf.4	Q86XA9	OTTHUMG00000169043	ENST00000389961.3:c.1825C>T	14.37:g.31844040G>A	ENSP00000374611:p.Arg609*	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DD8|Q6P3S5|Q6P5R9|Q9H8D7|Q9NXB7|Q9P2N0|Q9UFQ3	Nonsense_Mutation	SNP	ENST00000389961.3	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	39|39	7.474218|7.474218	0.98306|0.98306	0.0|0.0	1.2E-4|1.2E-4	ENSG00000129493|ENSG00000129493	ENST00000389961;ENST00000439348;ENST00000439727;ENST00000543095;ENST00000404677|ENST00000550366	.|.	.|.	.|.	5.75|5.75	2.84|2.84	0.33178|0.33178	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	.|T	.|0.50137	.|0.1598	.|.	.|.	.|.	0.80722|0.80722	A|A	1|1	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.58070	.|-0.7701	.|3	0.02654|.	T|.	1|.	.|.	8.9064|8.9064	0.35526|0.35526	0.131:0.0:0.7483:0.1206|0.131:0.0:0.7483:0.1206	.|.	.|.	.|.	.|.	X|M	609;609;322;615;615|257	.|.	ENSP00000374611:R609X|.	R|T	-|-	1|2	2|0	HEATR5A|HEATR5A	30913791|30913791	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.999000|0.999000	0.98932|0.98932	7.887000|7.887000	0.87295|0.87295	0.734000|0.734000	0.32515|0.32515	0.650000|0.650000	0.86243|0.86243	CGA|ACG		0.443	HEATR5A-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_015473		A	31844040	G	A	31844040	4	1	652	1	0	0	0	0	0	1	0	0	7038	1153	40	1	4397	1	HEATR5A	14	31844040	Nonsense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10		31844040	75505500	70	40456										
C14orf73	91828	mdanderson.org	37	chr14	103568981	103568981	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tatgcggcggccggcttcccAgcgtgggaggtctatctgcg	16	12	2	0	rs77071436	byFrequency	TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr14:103568981A>C	ENST00000380069.3	+	2	997	c.921A>C	c.(919-921)ccA>ccC	p.P307P		NM_001077594.1	NP_001071062.1	Q17RC7	EX3L4_HUMAN	exocyst complex component 3-like 4	307					exocytosis (GO:0006887)	exocyst (GO:0000145)				cervix(2)|endometrium(2)|lung(4)|ovary(1)|skin(1)	10						CCGGCTTCCCAGCGTGGGAGG	0.706													A|||	1073	0.214257	0.1006	0.1931	5008	,	,		11366	0.2579		0.2396	False		,,,				2504	0.3119															0								A		378,3714		22,334,1690	6	9	8		921	-8.7	0	14	dbSNP_131	8	1547,6535		144,1259,2638	no	coding-synonymous	EXOC3L4	NM_001077594.1		166,1593,4328	CC,CA,AA		19.1413,9.2375,15.8124		307/723	103568981	1925,10249	2046	4041	6087	SO:0001819	synonymous_variant	91828			AK000671	CCDS32163.1	14q32.32	2011-01-31	2011-01-31	2011-01-31	ENSG00000205436	ENSG00000205436			20120	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 73"	C14orf73			Standard	NM_001077594		Approved		uc001ymk.3	Q17RC7		ENST00000380069.3:c.921A>C	14.37:g.103568981A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q14CR2	Silent	SNP	ENST00000380069.3	37	CCDS32163.1																																																																																				0.706	EXOC3L4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415663.1	XM_941093		C	103568981	A	C	103568981	2	2	652	1	0	0	0	0	0	0	0	1	1781	175	7	5		5	C14orf73	14	103568981	Silent	SNP	A	TCGA-KM-8476-01A-11D-2310-10	71724941	103568981	3780559	71	40457										
AHNAK2	113146	mdanderson.org	37	chr14	105416223	105416223	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	atggaggggaggctcacttcGgcctccaccttcggcgcaga	14	13	1	1	rs141406015	byFrequency	TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr14:105416223G>A	ENST00000333244.5	-	7	5684	c.5565C>T	c.(5563-5565)gcC>gcT	p.A1855A	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1855						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			GGCTCACTTCGGCCTCCACCT	0.617													.|||	198	0.0395367	0.0983	0.0101	5008	,	,		17388	0.0089		0.003	False		,,,				2504	0.0501															0													134	170	158					14																	105416223		1938	4106	6044	SO:0001819	synonymous_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.5565C>T	14.37:g.105416223G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Silent	SNP	ENST00000333244.5	37	CCDS45177.1																																																																																				0.617	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		A	105416223	G	A	105416223	2	1	652	1	0	0	0	0	0	0	0	1	415	1103	39	1		1	AHNAK2	14	105416223	Silent	SNP	G	TCGA-KM-8476-01A-11D-2310-10	1847242	105416223	1933317	72	40458										
MYO5A	4644	broad.mit.edu;mdanderson.org	37	chr15	52613683	52613683	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	aggcagtgttcattctggcgAgatgtgttgtgcttcataaa	12	6	3	1	rs368705747		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr15:52613683A>G	ENST00000399231.3	-	37	4992	c.4749T>C	c.(4747-4749)tcT>tcC	p.S1583S	MYO5A_ENST00000356338.6_Silent_p.S1556S|MYO5A_ENST00000399233.2_Silent_p.S1580S|MYO5A_ENST00000553916.1_Silent_p.S1581S|MYO5A_ENST00000358212.6_Silent_p.S1608S	NM_000259.3	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA (heavy chain 12, myoxin)	1583	Dilute. {ECO:0000255|PROSITE- ProRule:PRU00503}.				actin filament-based movement (GO:0030048)|anagen (GO:0042640)|cellular protein metabolic process (GO:0044267)|cellular response to insulin stimulus (GO:0032869)|endoplasmic reticulum localization (GO:0051643)|exocytosis (GO:0006887)|insulin secretion (GO:0030073)|locomotion involved in locomotory behavior (GO:0031987)|long-chain fatty acid biosynthetic process (GO:0042759)|melanin biosynthetic process (GO:0042438)|melanocyte differentiation (GO:0030318)|melanosome transport (GO:0032402)|membrane organization (GO:0061024)|myelination (GO:0042552)|odontogenesis (GO:0042476)|post-Golgi vesicle-mediated transport (GO:0006892)|protein localization to plasma membrane (GO:0072659)|protein transport (GO:0015031)|regulation of inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0031585)|secretory granule localization (GO:0032252)|synapse organization (GO:0050808)|synaptic transmission (GO:0007268)|transport (GO:0006810)|vesicle transport along actin filament (GO:0030050)|vesicle-mediated transport (GO:0016192)|visual perception (GO:0007601)	actomyosin (GO:0042641)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|filopodium tip (GO:0032433)|Golgi apparatus (GO:0005794)|growth cone (GO:0030426)|insulin-responsive compartment (GO:0032593)|intermediate filament (GO:0005882)|melanosome (GO:0042470)|membrane (GO:0016020)|microtubule plus-end (GO:0035371)|myosin complex (GO:0016459)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|photoreceptor outer segment (GO:0001750)|ruffle (GO:0001726)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|microfilament motor activity (GO:0000146)|poly(A) RNA binding (GO:0044822)|Rab GTPase binding (GO:0017137)			breast(4)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(7)|large_intestine(12)|lung(19)|ovary(3)|skin(3)|stomach(1)	57				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		CATTCTGGCGAGATGTGTTGT	0.458																																																0								A	,	0,4092		0,0,2046	142	141	141		4749,4668	2.6	1	15		141	1,8413		0,1,4206	no	coding-synonymous,coding-synonymous	MYO5A	NM_000259.3,NM_001142495.1	,	0,1,6252	GG,GA,AA		0.0119,0.0,0.0080	,	1583/1856,1556/1829	52613683	1,12505	2046	4207	6253	SO:0001819	synonymous_variant	4644				CCDS42037.1, CCDS45262.1	15q21	2014-09-17	2006-09-29		ENSG00000197535	ENSG00000197535		"Myosins / Myosin superfamily : Class V"	7602	protein-coding gene	gene with protein product	"myosin, heavy polypeptide kinase", "myosin heavy chain 12", "myoxin", "myosin V"	160777	"myosin VA (heavy polypeptide 12, myoxin)"	MYH12		8188282, 8022818	Standard	NM_000259		Approved	MYO5, GS1, MYR12	uc002aby.2	Q9Y4I1	OTTHUMG00000137383	ENST00000399231.3:c.4749T>C	15.37:g.52613683A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8MZC5|O60653|Q07902|Q16249|Q9UE30|Q9UE31	Silent	SNP	ENST00000399231.3	37	CCDS42037.1																																																																																				0.458	MYO5A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000268102.1	NM_000259		G	52613683	A	G	52613683	2	3	652	1	0	0	0	0	0	0	0	1	10085	291	11	3		3	MYO5A	15	52613683	Silent	SNP	A	TCGA-KM-8476-01A-11D-2310-10		52613683	49917709	73	40459										
SLC24A1	9187	broad.mit.edu;mdanderson.org	37	chr15	65946296	65946296	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gtttgtgatctcttcaattgCgtcatgtaaatggagaatga	10	5	3	3			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr15:65946296C>T	ENST00000261892.6	+	10	3466	c.3179C>T	c.(3178-3180)gCg>gTg	p.A1060V	SLC24A1_ENST00000449142.2_3'UTR|SLC24A1_ENST00000537259.1_Intron|SLC24A1_ENST00000399033.4_Missense_Mutation_p.A1030V|SLC24A1_ENST00000339868.6_Missense_Mutation_p.A1042V|SLC24A1_ENST00000544319.2_Missense_Mutation_p.A946V|SLC24A1_ENST00000546330.1_Missense_Mutation_p.A1042V	NM_001254740.1|NM_004727.2	NP_001241669.1|NP_004718.1	O60721	NCKX1_HUMAN	solute carrier family 24 (sodium/potassium/calcium exchanger), member 1	1060					calcium ion transport (GO:0006816)|ion transport (GO:0006811)|phototransduction, visible light (GO:0007603)|response to light intensity (GO:0009642)|rhodopsin mediated signaling pathway (GO:0016056)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)|transport (GO:0006810)|visual perception (GO:0007601)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|outer membrane (GO:0019867)|plasma membrane (GO:0005886)	calcium, potassium:sodium antiporter activity (GO:0008273)|symporter activity (GO:0015293)	p.A1060V(1)		breast(2)|endometrium(7)|kidney(1)|large_intestine(4)|lung(6)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	23						TCTTCAATTGCGTCATGTAAA	0.383																																																1	Substitution - Missense(1)	large_intestine(1)											288	268	274					15																	65946296		1952	4142	6094	SO:0001583	missense	9187			AF062922	CCDS45284.1, CCDS73742.1, CCDS73743.1, CCDS73744.1	15q22.31	2014-01-28			ENSG00000074621	ENSG00000074621		"Solute carriers"	10975	protein-coding gene	gene with protein product		603617				9856482	Standard	NM_004727		Approved	NCKX1, NCKX, RODX, KIAA0702, HsT17412, CSNB1D	uc010ujf.2	O60721	OTTHUMG00000167960	ENST00000261892.6:c.3179C>T	15.37:g.65946296C>T	ENSP00000261892:p.Ala1060Val	Somatic		WXS	Illumina HiSeq	Phase_I	O43485|O75184|Q17RM9	Missense_Mutation	SNP	ENST00000261892.6	37	CCDS45284.1	.	.	.	.	.	.	.	.	.	.	C	24.0	4.480885	0.84747	.	.	ENSG00000074621	ENST00000261892;ENST00000339868;ENST00000544319;ENST00000399033;ENST00000546330	T;T;T;T;T	0.62105	0.05;0.05;0.05;0.05;0.05	5.51	5.51	0.81932	Sodium/calcium exchanger membrane region (1);	0.115247	0.64402	D	0.000014	T	0.77883	0.4197	M	0.73753	2.245	0.80722	D	1	D;D;D;D	0.76494	0.999;0.985;0.973;0.999	D;D;D;D	0.79108	0.983;0.915;0.919;0.992	T	0.72956	-0.4134	10	0.16896	T	0.51	.	18.3861	0.90466	0.0:1.0:0.0:0.0	.	387;1042;1030;1060	B4DUG1;O60721-2;Q17RM9;O60721	.;.;.;NCKX1_HUMAN	V	1060;1042;946;1030;1042	ENSP00000261892:A1060V;ENSP00000341837:A1042V;ENSP00000445163:A946V;ENSP00000381991:A1030V;ENSP00000439190:A1042V	ENSP00000261892:A1060V	A	+	2	0	SLC24A1	63733350	1.000000	0.71417	0.210000	0.23637	0.748000	0.42578	7.818000	0.86416	2.572000	0.86782	0.585000	0.79938	GCG		0.383	SLC24A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397304.1	NM_004727		T	65946296	C	T	65946296	3	4	652	1	0	0	0	0	1	0	0	0	14478	768	27	1	1319	1	SLC24A1	15	65946296	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	13332613	65946296	36585096	74	40460										
SH3GL3	6457	broad.mit.edu	37	chr15	84286962	84286962	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	atcaaatagatgaaaactggTatgaaggaatgatacacgga	10	4	1	4			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr15:84286962T>C	ENST00000427482.2	+	9	1273	c.967T>C	c.(967-969)Tat>Cat	p.Y323H	SH3GL3_ENST00000324537.5_Missense_Mutation_p.Y331H|SH3GL3_ENST00000564054.1_3'UTR|SH3GL3_ENST00000535412.1_3'UTR|SH3GL3_ENST00000434347.1_Missense_Mutation_p.Y331H|AC087738.1_ENST00000411248.1_RNA	NM_003027.3	NP_003018.3	Q99963	SH3G3_HUMAN	SH3-domain GRB2-like 3	323	SH3. {ECO:0000255|PROSITE- ProRule:PRU00192}.				central nervous system development (GO:0007417)|endocytosis (GO:0006897)|signal transduction (GO:0007165)	endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	identical protein binding (GO:0042802)|lipid binding (GO:0008289)			central_nervous_system(1)|endometrium(3)|large_intestine(9)|lung(11)|ovary(1)|pancreas(1)|skin(3)|urinary_tract(1)	30						TGAAAACTGGTATGAAGGAAT	0.398																																																0													116	106	110					15																	84286962		2203	4300	6503	SO:0001583	missense	6457			AF036271	CCDS10325.2, CCDS73772.1	15q24	2006-11-24			ENSG00000140600	ENSG00000140600			10832	protein-coding gene	gene with protein product		603362				9169142	Standard	NR_026799		Approved	SH3D2C, SH3P13, CNSA3, EEN-B2, HsT19371	uc002bjw.3	Q99963	OTTHUMG00000147361	ENST00000427482.2:c.967T>C	15.37:g.84286962T>C	ENSP00000391372:p.Tyr323His	Somatic		WXS	Illumina HiSeq	Phase_I	O43553|O43554	Missense_Mutation	SNP	ENST00000427482.2	37	CCDS10325.2	.	.	.	.	.	.	.	.	.	.	T	25.2	4.609438	0.87258	.	.	ENSG00000140600	ENST00000427482;ENST00000324537;ENST00000434347	T;T;T	0.31769	1.48;1.48;1.48	5.54	5.54	0.83059	Src homology-3 domain (5);	0.181657	0.51477	D	0.000100	T	0.63070	0.2480	M	0.91354	3.2	0.80722	D	1	D;D	0.71674	0.998;0.978	D;P	0.69479	0.964;0.707	T	0.72747	-0.4200	10	0.87932	D	0	-17.6148	14.8615	0.70384	0.0:0.0:0.0:1.0	.	323;331	Q99963;Q99963-3	SH3G3_HUMAN;.	H	323;331;331	ENSP00000391372:Y323H;ENSP00000320092:Y331H;ENSP00000397871:Y331H	ENSP00000320092:Y331H	Y	+	1	0	SH3GL3	82077966	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	7.590000	0.82653	2.101000	0.63845	0.460000	0.39030	TAT		0.398	SH3GL3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347797.1	NM_003027		C	84286962	T	C	84286962	3	2	652	1	0	0	0	0	1	0	0	0	14265	1638	57	3	1001	3	SH3GL3	15	84286962	Missense_Mutation	SNP	T	TCGA-KM-8476-01A-11D-2310-10	18340666	84286962	18244430	75	40461										
SOX8	30812	mdanderson.org	37	chr16	1034954	1034954	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	cccgagccgggccaggcctaTgggggcgcctacttccacgc	14	17	0	0	rs11542178	byFrequency	TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr16:1034954T>C	ENST00000293894.3	+	3	1024	c.909T>C	c.(907-909)taT>taC	p.Y303Y		NM_014587.3	NP_055402.2	P57073	SOX8_HUMAN	SRY (sex determining region Y)-box 8	303					adipose tissue development (GO:0060612)|astrocyte fate commitment (GO:0060018)|cell fate commitment (GO:0045165)|cell maturation (GO:0048469)|enteric nervous system development (GO:0048484)|fat cell differentiation (GO:0045444)|in utero embryonic development (GO:0001701)|male gonad development (GO:0008584)|metanephric nephron tubule formation (GO:0072289)|morphogenesis of a branching epithelium (GO:0061138)|negative regulation of apoptotic process (GO:0043066)|negative regulation of myoblast differentiation (GO:0045662)|negative regulation of photoreceptor cell differentiation (GO:0046533)|negative regulation of transcription, DNA-templated (GO:0045892)|neural crest cell migration (GO:0001755)|oligodendrocyte differentiation (GO:0048709)|osteoblast differentiation (GO:0001649)|peripheral nervous system development (GO:0007422)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|positive regulation of gliogenesis (GO:0014015)|positive regulation of kidney development (GO:0090184)|positive regulation of osteoblast proliferation (GO:0033690)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of hormone levels (GO:0010817)|renal vesicle induction (GO:0072034)|retina development in camera-type eye (GO:0060041)|retinal rod cell differentiation (GO:0060221)|Sertoli cell development (GO:0060009)|signal transduction (GO:0007165)|skeletal muscle cell differentiation (GO:0035914)|spermatogenesis (GO:0007283)|ureter morphogenesis (GO:0072197)	cytoplasm (GO:0005737)|nuclear transcription factor complex (GO:0044798)|nucleus (GO:0005634)	DNA binding (GO:0003677)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)			central_nervous_system(1)|kidney(1)|lung(5)|prostate(2)|skin(1)	10		Hepatocellular(780;0.00308)				GCCAGGCCTATGGGGGCGCCT	0.751													C|||	1718	0.343051	0.5772	0.2867	5008	,	,		9222	0.1052		0.3091	False		,,,				2504	0.3466															0								C		2425,1917		709,1007,455	9	11	11		909	-6.6	0	16	dbSNP_120	11	2368,6146		350,1668,2239	no	coding-synonymous	SOX8	NM_014587.3		1059,2675,2694	CC,CT,TT		27.813,44.1502,37.2822		303/447	1034954	4793,8063	2171	4257	6428	SO:0001819	synonymous_variant	30812			AF164104	CCDS10428.1	16p13.3	2008-05-23			ENSG00000005513	ENSG00000005513		"SRY (sex determining region Y)-boxes"	11203	protein-coding gene	gene with protein product		605923				10662550, 10684944	Standard	NM_014587		Approved		uc002ckn.3	P57073	OTTHUMG00000122101	ENST00000293894.3:c.909T>C	16.37:g.1034954T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NZW2	Silent	SNP	ENST00000293894.3	37	CCDS10428.1																																																																																				0.751	SOX8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000242867.1			C	1034954	T	C	1034954	2	2	652	1	0	0	0	0	0	0	0	1	14970	1471	51	3		3	SOX8	16	1034954	Silent	SNP	T	TCGA-KM-8476-01A-11D-2310-10		1034954	89319799	76	40462										
XYLT1	64131	hgsc.bcm.edu	37	chr16	17202636	17202636	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	ctccaggccgtctggctgcaGgtctgcatgaccgggcaggc	15	14	2	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr16:17202636G>A	ENST00000261381.6	-	12	2880	c.2796C>T	c.(2794-2796)acC>acT	p.T932T		NM_022166.3	NP_071449.1	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	932					cellular response to heat (GO:0034605)|chondroitin sulfate biosynthetic process (GO:0030206)|glycosaminoglycan biosynthetic process (GO:0006024)|heparan sulfate proteoglycan biosynthetic process (GO:0015012)	endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	acetylglucosaminyltransferase activity (GO:0008375)|protein xylosyltransferase activity (GO:0030158)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(9)|kidney(2)|large_intestine(7)|lung(35)|ovary(4)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	67						TCTGGCTGCAGGTCTGCATGA	0.667																																																0													34	30	31					16																	17202636		2197	4300	6497	SO:0001819	synonymous_variant	64131			AJ277441	CCDS10569.1	16p12	2013-02-25			ENSG00000103489	ENSG00000103489	2.4.2.26	"Glucosaminyl (N-acetyl) transferase and xylosyltransferase family"	15516	protein-coding gene	gene with protein product	"protein xylosyltransferase 1"	608124				11099377	Standard	NM_022166		Approved	XT-I, PXYLT1	uc002dfa.3	Q86Y38	OTTHUMG00000129975	ENST00000261381.6:c.2796C>T	16.37:g.17202636G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H1B6	Silent	SNP	ENST00000261381.6	37	CCDS10569.1																																																																																				0.667	XYLT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252241.2	NM_022166		A	17202636	G	A	17202636	2	1	652	1	0	0	0	0	0	0	0	1	17475	987	35	2		2	XYLT1	16	17202636	Silent	SNP	G	TCGA-KM-8476-01A-11D-2310-10	16167682	17202636	73152117	77	40463										
IL4R	3566	broad.mit.edu	37	chr16	27374339	27374339	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	cctgggagcagatcctccgcCgaaatgtcctccagcatggg	12	14	0	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr16:27374339C>T	ENST00000395762.2	+	11	1925	c.1666C>T	c.(1666-1668)Cga>Tga	p.R556*	IL4R_ENST00000543915.2_Nonsense_Mutation_p.R556*|IL4R_ENST00000170630.2_Nonsense_Mutation_p.R556*|IL4R_ENST00000380922.3_Nonsense_Mutation_p.R541*	NM_000418.3	NP_000409.1	P24394	IL4RA_HUMAN	interleukin 4 receptor	556	Required for IRS1 activation and IL4- induced cell growth.				defense response to protozoan (GO:0042832)|immune response (GO:0006955)|interleukin-4-mediated signaling pathway (GO:0035771)|intracellular signal transduction (GO:0035556)|negative regulation of T-helper 1 cell differentiation (GO:0045626)|ovulation (GO:0030728)|positive regulation of chemokine secretion (GO:0090197)|positive regulation of macrophage activation (GO:0043032)|positive regulation of T-helper 2 cell differentiation (GO:0045630)|production of molecular mediator involved in inflammatory response (GO:0002532)|regulation of cell proliferation (GO:0042127)|response to estrogen (GO:0043627)|signal transduction (GO:0007165)	extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)	interleukin-4 receptor activity (GO:0004913)|receptor signaling protein activity (GO:0005057)			breast(3)|endometrium(2)|kidney(2)|large_intestine(2)|lung(15)|ovary(2)|prostate(2)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)	33						GATCCTCCGCCGAAATGTCCT	0.637																																																0													29	33	31					16																	27374339		2196	4300	6496	SO:0001587	stop_gained	3566			X52425	CCDS10629.1, CCDS58441.1	16p12.1-p11.2	2008-05-14			ENSG00000077238	ENSG00000077238		"Interleukins and interleukin receptors", "CD molecules"	6015	protein-coding gene	gene with protein product		147781				1679753	Standard	NM_000418		Approved	CD124	uc010bxy.4	P24394	OTTHUMG00000097015	ENST00000395762.2:c.1666C>T	16.37:g.27374339C>T	ENSP00000379111:p.Arg556*	Somatic		WXS	Illumina HiSeq	Phase_I	B4E076|B9EKU8|H3BSY5|Q96P01|Q9H181|Q9H182|Q9H183|Q9H184|Q9H185|Q9H186|Q9H187|Q9H188	Nonsense_Mutation	SNP	ENST00000395762.2	37	CCDS10629.1	.	.	.	.	.	.	.	.	.	.	C	37	6.259888	0.97421	.	.	ENSG00000077238	ENST00000395762;ENST00000543915;ENST00000380922;ENST00000170630	.	.	.	5.16	3.14	0.36123	.	6.252000	0.00166	N	0.000001	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.10111	T	0.7	-6.6276	6.1989	0.20565	0.1908:0.7127:0.0:0.0965	.	.	.	.	X	556;556;541;556	.	ENSP00000170630:R556X	R	+	1	2	IL4R	27281840	0.010000	0.17322	0.005000	0.12908	0.109000	0.19521	1.471000	0.35365	0.532000	0.28657	0.555000	0.69702	CGA		0.637	IL4R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214104.4			T	27374339	C	T	27374339	4	4	652	1	0	0	0	0	0	1	0	0	7705	644	23	1	1718	1	IL4R	16	27374339	Nonsense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	10171703	27374339	62980414	78	40464										
MAPK3	5595	broad.mit.edu	37	chr16	30128535	30128535	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	cttggtcttggagggcagagActgtaggtagtttcgggcct	16	7	1	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr16:30128535A>G	ENST00000263025.4	-	6	931	c.847T>C	c.(847-849)Tct>Cct	p.S283P	MAPK3_ENST00000395202.1_Intron|MAPK3_ENST00000484663.1_Missense_Mutation_p.S169P|MAPK3_ENST00000494643.1_5'Flank|MAPK3_ENST00000322266.5_Intron|MAPK3_ENST00000403394.1_Missense_Mutation_p.S283P|MAPK3_ENST00000395199.3_Missense_Mutation_p.S283P|MAPK3_ENST00000395200.1_Missense_Mutation_p.S215P	NM_002746.2	NP_002737.2	P27361	MK03_HUMAN	mitogen-activated protein kinase 3	283	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of MAPK activity (GO:0000187)|activation of MAPKK activity (GO:0000186)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|BMP signaling pathway (GO:0030509)|cartilage development (GO:0051216)|caveolin-mediated endocytosis (GO:0072584)|cell cycle (GO:0007049)|cellular response to mechanical stimulus (GO:0071260)|cytokine-mediated signaling pathway (GO:0019221)|DNA damage induced protein phosphorylation (GO:0006975)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|interleukin-1-mediated signaling pathway (GO:0070498)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|lipopolysaccharide-mediated signaling pathway (GO:0031663)|MAPK cascade (GO:0000165)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apolipoprotein binding (GO:2000657)|neurotrophin TRK receptor signaling pathway (GO:0048011)|organ morphogenesis (GO:0009887)|peptidyl-tyrosine autophosphorylation (GO:0038083)|phosphorylation (GO:0016310)|platelet activation (GO:0030168)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of histone acetylation (GO:0035066)|positive regulation of histone phosphorylation (GO:0033129)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein phosphorylation (GO:0006468)|Ras protein signal transduction (GO:0007265)|regulation of cytoskeleton organization (GO:0051493)|regulation of early endosome to late endosome transport (GO:2000641)|regulation of Golgi inheritance (GO:0090170)|regulation of sequence-specific DNA binding transcription factor activity (GO:0051090)|regulation of stress-activated MAPK cascade (GO:0032872)|response to epidermal growth factor (GO:0070849)|response to exogenous dsRNA (GO:0043330)|sensory perception of pain (GO:0019233)|small GTPase mediated signal transduction (GO:0007264)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transcription from RNA polymerase I promoter (GO:0006360)|transcription initiation from RNA polymerase I promoter (GO:0006361)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)|viral process (GO:0016032)	caveola (GO:0005901)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|early endosome (GO:0005769)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi apparatus (GO:0005794)|late endosome (GO:0005770)|microtubule cytoskeleton (GO:0015630)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|pseudopodium (GO:0031143)	ATP binding (GO:0005524)|MAP kinase activity (GO:0004707)|phosphatase binding (GO:0019902)									Arsenic trioxide(DB01169)|Sulindac(DB00605)	GAGGGCAGAGACTGTAGGTAG	0.532																																																0													137	126	129					16																	30128535		2197	4300	6497	SO:0001583	missense	5595			M84490	CCDS10672.1, CCDS42148.1, CCDS42149.1	16p11.2	2011-06-10			ENSG00000102882	ENSG00000102882	2.7.11.1	"Mitogen-activated protein kinase cascade / Kinases"	6877	protein-coding gene	gene with protein product		601795		PRKM3		9628824	Standard	NM_001109891		Approved	ERK1, p44mapk, p44erk1	uc002dws.3	P27361	OTTHUMG00000132149	ENST00000263025.4:c.847T>C	16.37:g.30128535A>G	ENSP00000263025:p.Ser283Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8CZ58|B0LPG3|Q8NHX1	Missense_Mutation	SNP	ENST00000263025.4	37	CCDS10672.1	.	.	.	.	.	.	.	.	.	.	A	32	5.128040	0.94473	.	.	ENSG00000102882	ENST00000263025;ENST00000484663;ENST00000403394;ENST00000395200;ENST00000478356;ENST00000395199	T;T;T;T;T;T	0.43294	0.95;0.95;0.95;0.95;2.77;0.95	5.7	5.7	0.88788	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.056597	0.64402	D	0.000001	T	0.49695	0.1572	L	0.49256	1.55	0.80722	D	1	P;P	0.49559	0.925;0.891	P;P	0.50617	0.594;0.646	T	0.52815	-0.8525	10	0.87932	D	0	0.1679	14.9339	0.70938	1.0:0.0:0.0:0.0	.	283;283	P27361-3;P27361	.;MK03_HUMAN	P	283;169;283;215;46;283	ENSP00000263025:S283P;ENSP00000432742:S169P;ENSP00000384895:S283P;ENSP00000378626:S215P;ENSP00000432292:S46P;ENSP00000378625:S283P	ENSP00000263025:S283P	S	-	1	0	MAPK3	30036036	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.269000	0.95684	2.171000	0.68590	0.482000	0.46254	TCT		0.532	MAPK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255196.2			G	30128535	A	G	30128535	3	3	652	1	0	0	0	0	1	0	0	0	9286	275	10	3	361	3	MAPK3	16	30128535	Missense_Mutation	SNP	A	TCGA-KM-8476-01A-11D-2310-10	2754196	30128535	60226218	79	40465										
ST3GAL2	6483	broad.mit.edu	37	chr16	70432188	70432188	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	aagtggctgtcaaaccagtcGgaggcaccggcatcgcccat	12	13	1	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr16:70432188G>A	ENST00000393640.4	-	1	2353	c.246C>T	c.(244-246)tcC>tcT	p.S82S	RP11-529K1.4_ENST00000566960.1_RNA|ST3GAL2_ENST00000342907.2_Silent_p.S82S|ST3GAL2_ENST00000566097.1_5'Flank			Q16842	SIA4B_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase 2	82					amino sugar metabolic process (GO:0006040)|carbohydrate metabolic process (GO:0005975)|cellular protein metabolic process (GO:0044267)|cellular protein modification process (GO:0006464)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate metabolic process (GO:0042339)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|sialylation (GO:0097503)|small molecule metabolic process (GO:0044281)	extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)	beta-galactoside (CMP) alpha-2,3-sialyltransferase activity (GO:0003836)	p.S82S(1)		breast(1)|endometrium(1)|large_intestine(2)|lung(4)|ovary(2)|prostate(1)	11		Ovarian(137;0.0694)				CAAACCAGTCGGAGGCACCGG	0.627																																																1	Substitution - coding silent(1)	large_intestine(1)											65	62	63					16																	70432188		2198	4300	6498	SO:0001819	synonymous_variant	6483			U63090	CCDS10890.1	16q22.3	2013-03-01	2003-01-14	2005-02-07	ENSG00000157350	ENSG00000157350	2.4.99.4	"Sialyltransferases"	10863	protein-coding gene	gene with protein product		607188	"sialyltransferase 4B (beta-galactosidase alpha-2,3-sialytransferase)"	SIAT4B		9266697, 8920913	Standard	NM_006927		Approved	ST3GALII, ST3GalA.2	uc002eyx.2	Q16842	OTTHUMG00000137580	ENST00000393640.4:c.246C>T	16.37:g.70432188G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O00654	Silent	SNP	ENST00000393640.4	37	CCDS10890.1																																																																																				0.627	ST3GAL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268968.1	NM_006927		A	70432188	G	A	70432188	2	1	652	1	0	0	0	0	0	0	0	1	15227	1103	39	1		1	ST3GAL2	16	70432188	Silent	SNP	G	TCGA-KM-8476-01A-11D-2310-10	40303653	70432188	19922565	80	40466										
SDR42E1	93517	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr16	82032717	82032717	+	Nonstop_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	cttatttctggcccctccttCacagtgacagaatcacagaa	6	13	3	3			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr16:82032717C>A	ENST00000328945.5	-	3	1308	c.1181G>T	c.(1180-1182)tGa>tTa	p.*394L	SDR42E1_ENST00000534209.1_5'Flank	NM_145168.2	NP_660151.2	Q8WUS8	D42E1_HUMAN	short chain dehydrogenase/reductase family 42E, member 1	0					steroid biosynthetic process (GO:0006694)	integral component of membrane (GO:0016021)	3-beta-hydroxy-delta5-steroid dehydrogenase activity (GO:0003854)			NS(2)|endometrium(1)|lung(4)|skin(3)	10						GCCCCTCCTTCACAGTGACAG	0.453																																																0													52	50	51					16																	82032717		1924	4143	6067	SO:0001578	stop_lost	93517			AF161368	CCDS42205.1	16q23.3	2011-09-14				ENSG00000184860	1.1.1.-	"Short chain dehydrogenase/reductase superfamily / Extended SDR fold"	29834	protein-coding gene	gene with protein product						19027726	Standard	NM_145168		Approved	HSPC105	uc002fgu.3	Q8WUS8		ENST00000328945.5:c.1181G>T	16.37:g.82032717C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RDS1|Q9P0D1	Missense_Mutation	SNP	ENST00000328945.5	37	CCDS42205.1	.	.	.	.	.	.	.	.	.	.	C	8.094	0.775064	0.16051	.	.	ENSG00000184860	ENST00000328945	.	.	.	5.52	4.56	0.56223	.	.	.	.	.	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	12.0364	0.53427	0.0:0.9198:0.0:0.0802	.	.	.	.	L	394	.	.	X	-	2	2	SDR42E1	80590218	0.065000	0.20965	0.785000	0.31869	0.099000	0.18886	0.580000	0.23803	1.310000	0.45006	0.655000	0.94253	TGA		0.453	SDR42E1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388081.2	NM_145168		A	82032717	C	A	82032717	4	1	652	1	0	0	0	0	0	0	0	0	13986	837	29	4	4	4	SDR42E1	16	82032717	Nonstop_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	11600529	82032717	8322036	81	40467										
USP10	9100	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr16	84793019	84793019	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	atgtaccacctgatgaagttCattcctctgtattccaaagt	6	10	2	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr16:84793019C>A	ENST00000219473.7	+	6	1448	c.1335C>A	c.(1333-1335)ttC>ttA	p.F445L	USP10_ENST00000570191.1_Missense_Mutation_p.F449L	NM_001272075.1|NM_005153.2	NP_001259004.1|NP_005144.2	Q14694	UBP10_HUMAN	ubiquitin specific peptidase 10	445	USP.				autophagy (GO:0006914)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA repair (GO:0006281)|protein deubiquitination (GO:0016579)|regulation of autophagy (GO:0010506)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|early endosome (GO:0005769)|intermediate filament cytoskeleton (GO:0045111)|nucleus (GO:0005634)	cysteine-type endopeptidase activity (GO:0004197)|ion channel binding (GO:0044325)|p53 binding (GO:0002039)|poly(A) RNA binding (GO:0044822)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			endometrium(3)|kidney(1)|large_intestine(7)|lung(3)|prostate(1)|stomach(1)|urinary_tract(1)	17						TGATGAAGTTCATTCCTCTGT	0.463																																																0													119	108	112					16																	84793019		2002	4166	6168	SO:0001583	missense	9100			D80012	CCDS45537.1, CCDS62004.1	16q	2008-03-25	2005-08-08			ENSG00000103194		"Ubiquitin-specific peptidases"	12608	protein-coding gene	gene with protein product		609818	"ubiquitin specific protease 10"			12838346	Standard	NM_005153		Approved	UBPO, KIAA0190	uc002fii.3	Q14694		ENST00000219473.7:c.1335C>A	16.37:g.84793019C>A	ENSP00000219473:p.Phe445Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDJ8|B4DS84|Q9BWG7|Q9NSL7	Missense_Mutation	SNP	ENST00000219473.7	37	CCDS45537.1	.	.	.	.	.	.	.	.	.	.	C	13.17	2.156402	0.38119	.	.	ENSG00000103194	ENST00000219473;ENST00000397953	T	0.29397	1.57	5.51	5.51	0.81932	Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2 (2);	0.496131	0.22318	N	0.061647	T	0.15998	0.0385	N	0.03324	-0.35	0.35949	D	0.833793	B;B	0.09022	0.002;0.0	B;B	0.10450	0.002;0.005	T	0.14868	-1.0457	10	0.10636	T	0.68	-11.3568	18.7823	0.91939	0.0:1.0:0.0:0.0	.	449;445	Q14694-3;Q14694	.;UBP10_HUMAN	L	445;7	ENSP00000219473:F445L	ENSP00000219473:F445L	F	+	3	2	USP10	83350520	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	4.322000	0.59215	2.746000	0.94184	0.591000	0.81541	TTC		0.463	USP10-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000433660.1			A	84793019	C	A	84793019	3	1	652	1	0	0	0	0	1	0	0	0	17053	825	29	4	1357	4	USP10	16	84793019	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	2760302	84793019	5561734	82	40468										
MYH1	4619	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	10395792	10395792	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	cttcaccctcagcttgttgaCctgggactcagcaatgtcag	9	13	4	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr17:10395792C>T	ENST00000226207.5	-	40	5855	c.5761G>A	c.(5761-5763)Gtc>Atc	p.V1921I	RP11-799N11.1_ENST00000581304.1_RNA|RP11-799N11.1_ENST00000399342.2_RNA|CTC-297N7.11_ENST00000587182.2_RNA	NM_005963.3	NP_005954.3	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1921					muscle contraction (GO:0006936)	A band (GO:0031672)|cytoplasmic ribonucleoprotein granule (GO:0036464)|intercalated disc (GO:0014704)|muscle myosin complex (GO:0005859)|myosin filament (GO:0032982)	ATP binding (GO:0005524)|motor activity (GO:0003774)			NS(7)|breast(4)|central_nervous_system(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(22)|lung(78)|ovary(11)|pancreas(1)|prostate(3)|skin(13)|upper_aerodigestive_tract(4)|urinary_tract(5)	176						AGCTTGTTGACCTGGGACTCA	0.483																																																0													196	179	185					17																	10395792		2203	4300	6503	SO:0001583	missense	4619				CCDS11155.1	17p13.1	2013-09-19	2006-09-29		ENSG00000109061	ENSG00000109061		"Myosins / Myosin superfamily : Class II"	7567	protein-coding gene	gene with protein product	"myosin heavy chain IIx/d"	160730	"myosin, heavy polypeptide 1, skeletal muscle, adult"			6304733	Standard	NM_005963		Approved	MYHSA1, MYHa, MyHC-2X/D, MGC133384	uc002gmo.3	P12882	OTTHUMG00000130362	ENST00000226207.5:c.5761G>A	17.37:g.10395792C>T	ENSP00000226207:p.Val1921Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q14CA4|Q9Y622	Missense_Mutation	SNP	ENST00000226207.5	37	CCDS11155.1	.	.	.	.	.	.	.	.	.	.	C	21.9	4.213942	0.79352	.	.	ENSG00000109061	ENST00000226207	T	0.77750	-1.12	4.63	4.63	0.57726	Myosin tail (1);	0.000000	0.36234	U	0.002701	T	0.79370	0.4434	M	0.79258	2.445	0.54753	D	0.999985	B	0.14805	0.011	B	0.20577	0.03	T	0.76729	-0.2852	10	0.39692	T	0.17	.	18.0186	0.89249	0.0:1.0:0.0:0.0	.	1921	P12882	MYH1_HUMAN	I	1921	ENSP00000226207:V1921I	ENSP00000226207:V1921I	V	-	1	0	MYH1	10336517	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	7.568000	0.82369	2.546000	0.85860	0.655000	0.94253	GTC		0.483	MYH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252725.1	NM_005963		T	10395792	C	T	10395792	3	4	652	1	0	0	0	0	1	0	0	0	10036	507	18	2	62	2	MYH1	17	10395792	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10		10395792	70799418	83	40469										
TRIM16	10626	broad.mit.edu	37	chr17	15534987	15534987	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tttggaagtccaatatttgcGctgaacaacggcagacactt	9	9	0	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr17:15534987G>A	ENST00000578237.1	-	10	1912	c.1057C>T	c.(1057-1059)Cgc>Tgc	p.R353C	RP11-385D13.1_ENST00000455584.2_Missense_Mutation_p.R353C|TRIM16_ENST00000416464.2_Missense_Mutation_p.R223C|TRIM16_ENST00000336708.7_Missense_Mutation_p.R353C|TRIM16_ENST00000579219.1_Intron|TRIM16_ENST00000577886.1_Missense_Mutation_p.R137C			O95361	TRI16_HUMAN	tripartite motif containing 16	353					histone H3 acetylation (GO:0043966)|histone H4 acetylation (GO:0043967)|positive regulation of interleukin-1 beta secretion (GO:0050718)|positive regulation of keratinocyte differentiation (GO:0045618)|positive regulation of retinoic acid receptor signaling pathway (GO:0048386)|positive regulation of transcription, DNA-templated (GO:0045893)|response to growth hormone (GO:0060416)|response to organophosphorus (GO:0046683)|response to retinoic acid (GO:0032526)	cytoplasm (GO:0005737)|PML body (GO:0016605)	DNA binding (GO:0003677)|interleukin-1 binding (GO:0019966)|NACHT domain binding (GO:0032089)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(4)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|stomach(1)	19				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		CAATATTTGCGCTGAACAACG	0.483																																																0													163	133	143					17																	15534987		2203	4300	6503	SO:0001583	missense	10626			AF096870	CCDS11171.1	17p11.2	2011-04-20	2011-01-25		ENSG00000221926	ENSG00000221926		"Tripartite motif containing / Tripartite motif containing"	17241	protein-coding gene	gene with protein product	"estrogen-responsive B box protein"	609505	"tripartite motif-containing 16"			11331580	Standard	NM_006470		Approved	EBBP	uc002gor.1	O95361	OTTHUMG00000059067	ENST00000578237.1:c.1057C>T	17.37:g.15534987G>A	ENSP00000463188:p.Arg353Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IAL8|Q7Z6I2|Q96BE8|Q96J43	Missense_Mutation	SNP	ENST00000578237.1	37	CCDS11171.1	.	.	.	.	.	.	.	.	.	.	.	9.308	1.054847	0.19907	.	.	ENSG00000221926	ENST00000336708;ENST00000416464	T;T	0.69040	-0.13;-0.37	4.61	4.61	0.57282	.	1.272180	0.05169	N	0.499214	T	0.66587	0.2804	L	0.47716	1.5	0.09310	N	1	D;D;D	0.63880	0.987;0.987;0.993	P;P;B	0.46144	0.505;0.505;0.446	T	0.55179	-0.8181	10	0.39692	T	0.17	.	10.5666	0.45175	0.0:0.0:0.8072:0.1928	.	223;353;367	B3KP96;O95361;Q59EB2	.;TRI16_HUMAN;.	C	353;223	ENSP00000338989:R353C;ENSP00000399918:R223C	ENSP00000338989:R353C	R	-	1	0	TRIM16	15475712	0.505000	0.26131	0.009000	0.14445	0.923000	0.55619	1.783000	0.38664	2.262000	0.75019	0.555000	0.69702	CGC		0.483	TRIM16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130700.2	NM_006470		A	15534987	G	A	15534987	3	1	652	1	0	0	0	0	1	0	0	0	16503	1087	38	1	645	1	TRIM16	17	15534987	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10	5139195	15534987	65660223	84	40470										
ULK2	9706	ucsc.edu	37	chr17	19705212	19705212	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	ggaagcccatggggctggtgTtggaccttcgtaccactgca	14	11	0	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr17:19705212T>C	ENST00000395544.4	-	16	1818	c.1319A>G	c.(1318-1320)aAc>aGc	p.N440S	ULK2_ENST00000580130.1_5'UTR|ULK2_ENST00000361658.2_Missense_Mutation_p.N440S	NM_014683.3	NP_055498.3	Q8IYT8	ULK2_HUMAN	unc-51 like autophagy activating kinase 2	440					autophagic vacuole assembly (GO:0000045)|axon extension (GO:0048675)|negative regulation of collateral sprouting (GO:0048671)|protein autophosphorylation (GO:0046777)|regulation of autophagy (GO:0010506)|response to starvation (GO:0042594)|signal transduction (GO:0007165)	ATG1/UKL1 signaling complex (GO:0034273)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|pre-autophagosomal structure membrane (GO:0034045)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			large_intestine(1)|skin(4)|stomach(1)	6	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					GGGGCTGGTGTTGGACCTTCG	0.483																																																0													163	166	165					17																	19705212		2203	4300	6503	SO:0001583	missense	9706			AB014523	CCDS11213.1	17p11.2	2014-02-12	2013-07-02		ENSG00000083290	ENSG00000083290	2.7.11.1		13480	protein-coding gene	gene with protein product		608650	"unc-51 (C. elegans)-like kinase 2", "unc-51-like kinase 2 (C. elegans)"			10557072	Standard	NM_014683		Approved	KIAA0623, Unc51.2, ATG1B	uc002gwn.3	Q8IYT8	OTTHUMG00000059511	ENST00000395544.4:c.1319A>G	17.37:g.19705212T>C	ENSP00000378914:p.Asn440Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8MY69|O75119	Missense_Mutation	SNP	ENST00000395544.4	37	CCDS11213.1	.	.	.	.	.	.	.	.	.	.	T	9.279	1.047567	0.19827	.	.	ENSG00000083290	ENST00000361658;ENST00000395544	T;T	0.44083	0.93;0.93	6.02	6.02	0.97574	.	0.000000	0.85682	D	0.000000	T	0.35158	0.0922	N	0.02916	-0.46	0.49915	D	0.999834	D	0.69078	0.997	D	0.70716	0.97	T	0.31888	-0.9927	10	0.02654	T	1	-23.0341	15.7258	0.77756	0.0:0.0:0.0:1.0	.	440	Q8IYT8	ULK2_HUMAN	S	440	ENSP00000354877:N440S;ENSP00000378914:N440S	ENSP00000354877:N440S	N	-	2	0	ULK2	19645804	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	7.465000	0.80898	2.311000	0.77944	0.533000	0.62120	AAC		0.483	ULK2-001	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132375.2	NM_014683		C	19705212	T	C	19705212	3	2	652	1	0	0	0	0	1	0	0	0	16988	1725	60	3	1839	3	ULK2	17	19705212	Missense_Mutation	SNP	T	TCGA-KM-8476-01A-11D-2310-10	4170225	19705212	61489998	85	40471										
LRRC37A	9884	ucsc.edu	37	chr17	44408776	44408776	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	ttttctggaagtatctgctcTttcagaacattttatagaga	7	6	4	2	rs273532		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr17:44408776T>C	ENST00000320254.5	+	9	4136	c.4133T>C	c.(4132-4134)cTt>cCt	p.L1378P	ARL17B_ENST00000575960.1_Intron|LRRC37A_ENST00000393465.3_Missense_Mutation_p.L1378P|ARL17B_ENST00000570618.1_Intron|LRRC37A_ENST00000496930.1_Missense_Mutation_p.L416P|ARL17B_ENST00000575698.1_Intron|ARL17B_ENST00000434041.2_Intron	NM_014834.4	NP_055649.4	A6NMS7	L37A1_HUMAN	leucine rich repeat containing 37A	1378						integral component of membrane (GO:0016021)				endometrium(1)|lung(2)|pancreas(6)|prostate(1)|skin(1)	11		Melanoma(429;0.211)		BRCA - Breast invasive adenocarcinoma(366;0.232)		GTATCTGCTCTTTCAGAACAT	0.388																																																0													23	18	20					17																	44408776		1771	1871	3642	SO:0001583	missense	9884			BC040501	CCDS11504.2	17q21.31	2014-04-01			ENSG00000176681	ENSG00000176681			29069	protein-coding gene	gene with protein product						9628581, 15533724	Standard	NM_014834		Approved	KIAA0563	uc031rbr.1	A6NMS7	OTTHUMG00000149841	ENST00000320254.5:c.4133T>C	17.37:g.44408776T>C	ENSP00000326324:p.Leu1378Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DY2|Q8IWC7	Missense_Mutation	SNP	ENST00000320254.5	37	CCDS11504.2	63	0.028846153846153848	2	0.0040650406504065045	19	0.052486187845303865	5	0.008741258741258742	37	0.048812664907651716	c	4.196	0.035078	0.08101	.	.	ENSG00000176681	ENST00000496930;ENST00000393466;ENST00000393465;ENST00000320254	T;T;T	0.56103	1.64;0.5;0.48	2.1	-2.82	0.05787	.	.	.	.	.	T	0.02156	0.0067	N	0.00648	-1.295	0.09310	N	0.999999	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.12863	-1.0531	9	0.05721	T	0.95	.	7.6392	0.28284	0.0:0.341:0.0:0.659	.	416;1378	E9PP10;A6NMS7	.;L37A1_HUMAN	P	416;1378;1378;1378	ENSP00000437021:L416P;ENSP00000377108:L1378P;ENSP00000326324:L1378P	ENSP00000326324:L1378P	L	+	2	0	LRRC37A	41764537	0.000000	0.05858	0.000000	0.03702	0.030000	0.12068	-2.004000	0.01461	-1.201000	0.02659	-0.495000	0.04643	CTT		0.388	LRRC37A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000313519.3	NM_014834		C	44408776	T	C	44408776	3	2	652	1	0	0	0	0	1	0	0	0	8998	1609	56	3	4167	3	LRRC37A	17	44408776	Missense_Mutation	SNP	T	TCGA-KM-8476-01A-11D-2310-10	24703564	44408776	36786434	86	40472										
DLX3	1747	ucsc.edu	37	chr17	48072253	48072253	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tgtagtagcccaggtcagtgAcagaagactcgggcagggta	15	8	1	3			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr17:48072253A>G	ENST00000434704.2	-	1	335	c.110T>C	c.(109-111)gTc>gCc	p.V37A	RP11-1094H24.3_ENST00000511867.1_lincRNA|DLX3_ENST00000512495.2_5'Flank	NM_005220.2	NP_005211.1	O60479	DLX3_HUMAN	distal-less homeobox 3	37					blood vessel development (GO:0001568)|odontoblast differentiation (GO:0071895)|odontogenesis of dentin-containing tooth (GO:0042475)|placenta development (GO:0001890)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	12						CAGGTCAGTGACAGAAGACTC	0.592																																																0													95	92	93					17																	48072253		2203	4300	6503	SO:0001583	missense	1747				CCDS11556.1	17q21.33	2011-06-20	2005-12-22			ENSG00000064195		"Homeoboxes / ANTP class : NKL subclass"	2916	protein-coding gene	gene with protein product		600525	"distal-less homeo box 3"			7613049	Standard	NM_005220		Approved		uc002ipy.3	O60479		ENST00000434704.2:c.110T>C	17.37:g.48072253A>G	ENSP00000389870:p.Val37Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQL6	Missense_Mutation	SNP	ENST00000434704.2	37	CCDS11556.1	.	.	.	.	.	.	.	.	.	.	A	4.173	0.030746	0.08101	.	.	ENSG00000064195	ENST00000434704	D	0.89123	-2.47	5.01	5.01	0.66863	.	0.075441	0.53938	D	0.000058	T	0.66257	0.2771	N	0.01522	-0.82	0.80722	D	1	B	0.06786	0.001	B	0.11329	0.006	T	0.64935	-0.6290	10	0.02654	T	1	-31.6637	7.3354	0.26607	0.9044:0.0:0.0956:0.0	.	37	O60479	DLX3_HUMAN	A	37	ENSP00000389870:V37A	ENSP00000389870:V37A	V	-	2	0	DLX3	45427252	0.999000	0.42202	0.995000	0.50966	0.996000	0.88848	1.415000	0.34748	2.115000	0.64714	0.402000	0.26972	GTC		0.592	DLX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366307.1			G	48072253	A	G	48072253	3	3	652	1	0	0	0	0	1	0	0	0	4574	275	10	3	765	3	DLX3	17	48072253	Missense_Mutation	SNP	A	TCGA-KM-8476-01A-11D-2310-10	3663477	48072253	33122957	87	40473										
RNF43	54894	ucsc.edu	37	chr17	56439960	56439960	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gcaccgaagccaggatgatcAcaaagatggtgcccaccact	10	13	1	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr17:56439960A>G	ENST00000584437.1	-	5	2587	c.632T>C	c.(631-633)gTg>gCg	p.V211A	RNF43_ENST00000407977.2_Missense_Mutation_p.V211A|RNF43_ENST00000500597.2_Missense_Mutation_p.V170A|RNF43_ENST00000577625.1_Missense_Mutation_p.V84A|RNF43_ENST00000577716.1_Missense_Mutation_p.V211A|RNF43_ENST00000581868.1_Missense_Mutation_p.V84A|RNF43_ENST00000583753.1_Missense_Mutation_p.V170A|BZRAP1-AS1_ENST00000583841.1_RNA			Q68DV7	RNF43_HUMAN	ring finger protein 43	211					negative regulation of Wnt signaling pathway (GO:0030178)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|stem cell proliferation (GO:0072089)|Wnt receptor catabolic process (GO:0038018)|Wnt signaling pathway (GO:0016055)	endoplasmic reticulum (GO:0005783)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)	frizzled binding (GO:0005109)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|biliary_tract(5)|breast(1)|central_nervous_system(1)|endometrium(10)|kidney(2)|large_intestine(14)|lung(9)|ovary(2)|pancreas(10)|prostate(1)|skin(4)	60	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CAGGATGATCACAAAGATGGT	0.602																																																0													105	88	94					17																	56439960		2203	4300	6503	SO:0001583	missense	54894				CCDS11607.1	17q23.2	2013-01-09						"RING-type (C3HC4) zinc fingers"	18505	protein-coding gene	gene with protein product		612482					Standard	NM_017763		Approved	FLJ20315, DKFZp781H0392, URCC	uc002iwh.4	Q68DV7		ENST00000584437.1:c.632T>C	17.37:g.56439960A>G	ENSP00000463069:p.Val211Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4R2|B7Z443|B7Z5D5|B7Z5J5|Q65ZA4|Q6AI04|Q9NXD0	Missense_Mutation	SNP	ENST00000584437.1	37	CCDS11607.1	.	.	.	.	.	.	.	.	.	.	A	25.5	4.643799	0.87859	.	.	ENSG00000108375	ENST00000407977;ENST00000500597	T;T	0.10382	3.01;2.88	5.43	5.43	0.79202	.	0.274603	0.36303	N	0.002671	T	0.15739	0.0379	N	0.24115	0.695	0.36538	D	0.871114	P;D;P	0.58970	0.952;0.984;0.951	P;P;P	0.55871	0.713;0.786;0.622	T	0.13602	-1.0503	10	0.40728	T	0.16	-15.9882	14.6434	0.68742	1.0:0.0:0.0:0.0	.	170;211;211	Q68DV7-2;Q68DV7-4;Q68DV7	.;.;RNF43_HUMAN	A	211;170	ENSP00000385328:V211A;ENSP00000441969:V170A	ENSP00000385328:V211A	V	-	2	0	RNF43	53794959	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	5.542000	0.67218	2.058000	0.61347	0.402000	0.26972	GTG		0.602	RNF43-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444713.1	NM_017763		G	56439960	A	G	56439960	3	3	652	1	0	0	0	0	1	0	0	0	13508	159	6	3	1739	3	RNF43	17	56439960	Missense_Mutation	SNP	A	TCGA-KM-8476-01A-11D-2310-10	8367707	56439960	24755250	88	40474										
LRRC37A3	374819	bcgsc.ca	37	chr17	62892919	62892919	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gctccaacgctgagctggatCtttcttcagcttcttgggcg	11	12	4	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr17:62892919C>A	ENST00000584306.1	-	3	987	c.457G>T	c.(457-459)Gat>Tat	p.D153Y	LRRC37A3_ENST00000319651.5_Missense_Mutation_p.D153Y|LRRC37A3_ENST00000339474.5_Intron|RP11-927P21.1_ENST00000577938.1_RNA|LRRC37A3_ENST00000577487.1_5'Flank|RP11-927P21.2_ENST00000581622.1_RNA|RP11-927P21.1_ENST00000584131.1_RNA|RP11-927P21.1_ENST00000584959.1_RNA|LRRC37A3_ENST00000400877.3_Intron	NM_199340.2	NP_955372.2	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	153						integral component of membrane (GO:0016021)				NS(1)|breast(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(6)|liver(1)|lung(10)|pancreas(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	40						TGAGCTGGATCTTTCTTCAGC	0.478																																																0													49	88	75					17																	62892919		1639	3463	5102	SO:0001583	missense	374819			AB011135	CCDS32708.1	17q24.1	2008-10-22			ENSG00000176809	ENSG00000176809			32427	protein-coding gene	gene with protein product							Standard	NM_199340		Approved	FLJ34306, KIAA0563	uc031rbi.1	O60309	OTTHUMG00000132307	ENST00000584306.1:c.457G>T	17.37:g.62892919C>A	ENSP00000464535:p.Asp153Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q49A01|Q49A80|Q8NB33	Missense_Mutation	SNP	ENST00000584306.1	37	CCDS32708.1	.	.	.	.	.	.	.	.	.	.	.	8.215	0.801125	0.16397	.	.	ENSG00000176809	ENST00000319651	T	0.70164	-0.46	1.87	0.862	0.19056	.	.	.	.	.	T	0.65312	0.2679	L	0.50333	1.59	0.09310	N	1	D	0.53462	0.96	P	0.52856	0.711	T	0.54925	-0.8220	9	0.66056	D	0.02	.	4.5234	0.11969	0.0:0.7977:0.0:0.2023	.	153	O60309	L37A3_HUMAN	Y	153	ENSP00000325713:D153Y	ENSP00000325713:D153Y	D	-	1	0	LRRC37A3	60323381	0.017000	0.18338	0.000000	0.03702	0.043000	0.13939	0.844000	0.27654	0.349000	0.23975	0.162000	0.16502	GAT		0.478	LRRC37A3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445377.1	NM_199340		A	62892919	C	A	62892919	3	1	652	1	0	0	0	0	1	0	0	0	9000	913	32	4	4495	4	LRRC37A3	17	62892919	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	6452959	62892919	18302291	89	40475										
ESCO1	114799	hgsc.bcm.edu;ucsc.edu	37	chr18	19116141	19116141	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tcaaccatctctctaatctcGtcaacctgccaaataaagaa	3	13	5	1	rs369669502		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr18:19116141G>A	ENST00000269214.5	-	10	2986	c.2049C>T	c.(2047-2049)gaC>gaT	p.D683D		NM_052911.2	NP_443143.2	Q5FWF5	ESCO1_HUMAN	establishment of sister chromatid cohesion N-acetyltransferase 1	683					mitotic cell cycle (GO:0000278)|post-translational protein acetylation (GO:0034421)|regulation of DNA replication (GO:0006275)|sister chromatid cohesion (GO:0007062)	chromatin (GO:0000785)|nucleoplasm (GO:0005654)	metal ion binding (GO:0046872)|transferase activity, transferring acyl groups (GO:0016746)			breast(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(11)|lung(10)|prostate(3)|upper_aerodigestive_tract(1)	35						CTCTAATCTCGTCAACCTGCC	0.308																																																0								G		1,4405	2.1+/-5.4	0,1,2202	89	87	88		2049	-4.2	1	18		88	0,8600		0,0,4300	no	coding-synonymous	ESCO1	NM_052911.2		0,1,6502	AA,AG,GG		0.0,0.0227,0.0077		683/841	19116141	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	114799			AL832041	CCDS32800.1	18q11.2	2013-05-02	2013-05-02		ENSG00000141446	ENSG00000141446			24645	protein-coding gene	gene with protein product		609674	"establishment of cohesion 1 homolog 1 (S. cerevisiae)"			11572484, 14576321, 15958495	Standard	NM_052911		Approved	ESO1, EFO1, KIAA1911	uc002kth.1	Q5FWF5		ENST00000269214.5:c.2049C>T	18.37:g.19116141G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ11|B0YJ12|Q69YG4|Q69YS3|Q6IMD7|Q8N3Z5|Q8NBG2|Q96PX7	Silent	SNP	ENST00000269214.5	37	CCDS32800.1																																																																																				0.308	ESCO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443942.1	NM_052911		A	19116141	G	A	19116141	2	1	652	1	0	0	0	0	0	0	0	1	5250	1136	40	1		1	ESCO1	18	19116141	Silent	SNP	G	TCGA-KM-8476-01A-11D-2310-10		19116141	58961107	90	40476										
FAM69C	125704	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr18	72114400	72114400	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	cgggccggccgcgccagtcgGcctgcagcaccttcttgcct	13	18	1	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr18:72114400G>T	ENST00000343998.6	-	2	325	c.317C>A	c.(316-318)gCc>gAc	p.A106D	FAM69C_ENST00000400291.2_Intron	NM_001044369.2	NP_001037834.2	Q0P6D2	FA69C_HUMAN	family with sequence similarity 69, member C	106						endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	transferase activity, transferring phosphorus-containing groups (GO:0016772)			breast(1)|large_intestine(2)|ovary(2)	5						GCGCCAGTCGGCCTGCAGCAC	0.677																																																0													9	10	10					18																	72114400		688	1586	2274	SO:0001583	missense	125704			BC019628	CCDS42445.2	18q22.3	2012-08-03	2009-07-23	2009-07-23	ENSG00000187773	ENSG00000187773			31729	protein-coding gene	gene with protein product		614544	"chromosome 18 open reading frame 51"	C18orf51		21334309	Standard	NM_001044369		Approved		uc002llk.3	Q0P6D2	OTTHUMG00000156984	ENST00000343998.6:c.317C>A	18.37:g.72114400G>T	ENSP00000344331:p.Ala106Asp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000343998.6	37	CCDS42445.2	.	.	.	.	.	.	.	.	.	.	G	17.61	3.432118	0.62844	.	.	ENSG00000187773	ENST00000343998	T	0.54071	0.59	3.77	3.77	0.43336	.	.	.	.	.	T	0.65396	0.2687	L	0.46157	1.445	0.58432	D	0.999999	D	0.76494	0.999	D	0.70935	0.971	T	0.69989	-0.4995	9	0.66056	D	0.02	.	16.1637	0.81739	0.0:0.0:1.0:0.0	.	106	Q0P6D2	FA69C_HUMAN	D	106	ENSP00000344331:A106D	ENSP00000344331:A106D	A	-	2	0	FAM69C	70265380	1.000000	0.71417	0.952000	0.39060	0.348000	0.29142	9.115000	0.94336	2.084000	0.62774	0.491000	0.48974	GCC		0.677	FAM69C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346971.2	XM_058931		T	72114400	G	T	72114400	3	4	652	1	0	0	0	0	1	0	0	0	5611	1203	42	4	954	4	FAM69C	18	72114400	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10	52998259	72114400	5962848	91	40477										
ATP9B	374868	broad.mit.edu	37	chr18	77090010	77090010	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gtttatttttgttctttgatAggatgaatccacggcagaaa	9	5	1	3			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr18:77090010A>G	ENST00000426216.2	+	17	1952		c.e17-1		ATP9B_ENST00000543761.1_5'Flank|ATP9B_ENST00000307671.7_Splice_Site	NM_198531.3	NP_940933.3	O43861	ATP9B_HUMAN	ATPase, class II, type 9B						establishment of protein localization to Golgi (GO:0072600)|phospholipid translocation (GO:0045332)	integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)|trans-Golgi network (GO:0005802)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			NS(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(15)|ovary(3)|prostate(1)|skin(2)|stomach(1)	38		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)		GTTCTTTGATAGGATGAATCC	0.423																																																0													117	108	111					18																	77090010		2203	4300	6503	SO:0001630	splice_region_variant	374868			R51412	CCDS12014.1	18q23	2010-04-20	2007-09-19		ENSG00000166377	ENSG00000166377		"ATPases / P-type"	13541	protein-coding gene	gene with protein product		614446	"ATPase, Class II, type 9B"			9548971, 11015572	Standard	NM_198531		Approved	ATPIIB	uc002lmx.3	O43861	OTTHUMG00000132898	ENST00000426216.2:c.1936-1A>G	18.37:g.77090010A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O60872|Q08AD8|Q08AD9	Splice_Site	SNP	ENST00000426216.2	37	CCDS12014.1	.	.	.	.	.	.	.	.	.	.	A	12.78	2.040743	0.35989	.	.	ENSG00000166377	ENST00000426216;ENST00000307671	.	.	.	5.04	5.04	0.67666	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.1027	0.72292	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	ATP9B	75190998	1.000000	0.71417	0.984000	0.44739	0.294000	0.27393	8.880000	0.92407	2.018000	0.59344	0.533000	0.62120	.		0.423	ATP9B-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256402.3	NM_198531	Intron	G	77090010	A	G	77090010	5	3	652	1	0	0	0	0	0	0	1	0	1199	434	15	3	2000	3	ATP9B	18	77090010	Splice_Site	SNP	A	TCGA-KM-8476-01A-11D-2310-10	4975610	77090010	987238	92	40478										
ICAM1	3383	mdanderson.org;bcgsc.ca	37	chr19	10395799	10395799	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tcctccccacagccccccggTatgagattgtcatcatcact	6	17	3	1			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr19:10395799T>C	ENST00000264832.3	+	7	1760	c.1435T>C	c.(1435-1437)Tat>Cat	p.Y479H	ICAM1_ENST00000423829.2_Missense_Mutation_p.Y257H|ICAM4_ENST00000393717.2_5'Flank|CTD-2369P2.8_ENST00000589379.1_RNA|ICAM4_ENST00000340992.4_5'Flank|CTD-2369P2.5_ENST00000592893.1_RNA|ICAM4_ENST00000380770.3_5'Flank	NM_000201.2	NP_000192.2	P05362	ICAM1_HUMAN	intercellular adhesion molecule 1	479					adhesion of symbiont to host (GO:0044406)|cell adhesion (GO:0007155)|cell adhesion mediated by integrin (GO:0033627)|cell aging (GO:0007569)|cellular response to alkaloid (GO:0071312)|cellular response to glucose stimulus (GO:0071333)|cellular response to hypoxia (GO:0071456)|cellular response to interleukin-1 (GO:0071347)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to nutrient levels (GO:0031669)|cellular response to tumor necrosis factor (GO:0071356)|cytokine-mediated signaling pathway (GO:0019221)|establishment of endothelial barrier (GO:0061028)|extracellular matrix organization (GO:0030198)|heterophilic cell-cell adhesion (GO:0007157)|interferon-gamma-mediated signaling pathway (GO:0060333)|leukocyte cell-cell adhesion (GO:0007159)|leukocyte migration (GO:0050900)|membrane to membrane docking (GO:0022614)|negative regulation of calcium ion transport (GO:0051926)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|ovarian follicle development (GO:0001541)|positive regulation of actin filament polymerization (GO:0030838)|positive regulation of cellular extravasation (GO:0002693)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of nitric oxide biosynthetic process (GO:0045429)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of vasoconstriction (GO:0045907)|receptor-mediated virion attachment to host cell (GO:0046813)|regulation of cell adhesion (GO:0030155)|regulation of cell shape (GO:0008360)|regulation of immune response (GO:0050776)|regulation of leukocyte mediated cytotoxicity (GO:0001910)|regulation of ruffle assembly (GO:1900027)|response to amino acid (GO:0043200)|response to amphetamine (GO:0001975)|response to copper ion (GO:0046688)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to gonadotropin (GO:0034698)|response to ionizing radiation (GO:0010212)|response to organic cyclic compound (GO:0014070)|response to sulfur dioxide (GO:0010477)|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell (GO:0002291)|T cell antigen processing and presentation (GO:0002457)	cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|immunological synapse (GO:0001772)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	integrin binding (GO:0005178)|receptor activity (GO:0004872)|transmembrane signaling receptor activity (GO:0004888)|virus receptor activity (GO:0001618)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(4)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	14			OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;2.81e-06)|all cancers(31;6.56e-06)		Hyaluronan(DB08818)|Natalizumab(DB00108)	AGCCCCCCGGTATGAGATTGT	0.582																																																0													95	99	98					19																	10395799		2203	4300	6503	SO:0001583	missense	3383				CCDS12231.1	19p13.3-p13.2	2014-01-30	2008-07-18			ENSG00000090339		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Endogenous ligands"	5344	protein-coding gene	gene with protein product	"human rhinovirus receptor"	147840				2453850, 3871395	Standard	NM_000201		Approved	BB2, CD54	uc002mnq.2	P05362		ENST00000264832.3:c.1435T>C	19.37:g.10395799T>C	ENSP00000264832:p.Tyr479His	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6M3|Q5NKV7|Q96B50	Missense_Mutation	SNP	ENST00000264832.3	37	CCDS12231.1	.	.	.	.	.	.	.	.	.	.	T	6.128	0.391854	0.11581	.	.	ENSG00000090339	ENST00000264832;ENST00000423829	T;T	0.15139	2.45;2.45	5.22	-8.02	0.01118	.	4.968880	0.00728	N	0.000934	T	0.07863	0.0197	N	0.22421	0.69	0.09310	N	1	B;B	0.15473	0.004;0.013	B;B	0.08055	0.003;0.001	T	0.27536	-1.0071	10	0.15499	T	0.54	0.0697	0.8733	0.01219	0.2333:0.1331:0.3035:0.3301	.	257;479	E7ESS4;P05362	.;ICAM1_HUMAN	H	479;257	ENSP00000264832:Y479H;ENSP00000413124:Y257H	ENSP00000264832:Y479H	Y	+	1	0	ICAM1	10256799	0.000000	0.05858	0.000000	0.03702	0.005000	0.04900	-0.518000	0.06267	-1.908000	0.01086	-0.337000	0.08149	TAT		0.582	ICAM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451207.1			C	10395799	T	C	10395799	3	2	652	1	0	0	0	0	1	0	0	0	7486	1638	57	3	1461	3	ICAM1	19	10395799	Missense_Mutation	SNP	T	TCGA-KM-8476-01A-11D-2310-10		10395799	48733184	93	40479										
QTRT1	81890	broad.mit.edu	37	chr19	10823283	10823283	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	ggatgtgacatgttcgactgCgtcttccccacacggacagc	11	13	1	1	rs568267343		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr19:10823283C>T	ENST00000250237.5	+	7	850	c.840C>T	c.(838-840)tgC>tgT	p.C280C		NM_031209.2	NP_112486.1	Q9BXR0	TGT_HUMAN	queuine tRNA-ribosyltransferase 1	280					queuosine biosynthetic process (GO:0008616)|tRNA modification (GO:0006400)	mitochondrion (GO:0005739)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|queuine tRNA-ribosyltransferase activity (GO:0008479)			large_intestine(2)|lung(7)|prostate(1)|skin(1)|urinary_tract(1)	12			Epithelial(33;1.55e-05)|all cancers(31;3.42e-05)			TGTTCGACTGCGTCTTCCCCA	0.642													C|||	1	0.000199681	0.0	0.0	5008	,	,		14819	0.0		0.001	False		,,,				2504	0.0															0													130	119	123					19																	10823283		2203	4300	6503	SO:0001819	synonymous_variant	81890			AF302783	CCDS12248.1	19p13.3	2014-06-11	2008-07-31		ENSG00000213339	ENSG00000213339	2.4.2.29		23797	protein-coding gene	gene with protein product	"tRNA-guanine transglycosylase"	609615				20354154	Standard	NM_031209		Approved	TGT	uc002mpr.3	Q9BXR0		ENST00000250237.5:c.840C>T	19.37:g.10823283C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DFM7|Q96BQ4|Q9BXQ9	Silent	SNP	ENST00000250237.5	37	CCDS12248.1																																																																																				0.642	QTRT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452086.1	NM_031209		T	10823283	C	T	10823283	2	4	652	1	0	0	0	0	0	0	0	1	12898	776	27	1		1	QTRT1	19	10823283	Silent	SNP	C	TCGA-KM-8476-01A-11D-2310-10	427484	10823283	48305700	94	40480										
ZNF701	55762	broad.mit.edu;mdanderson.org	37	chr19	53086657	53086657	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	aatgtggcaaggtttttaatCgaaaatcaaaccttgaacgt	8	6	1	1	rs370144367		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr19:53086657C>T	ENST00000540331.1	+	5	1768	c.1543C>T	c.(1543-1545)Cga>Tga	p.R515*	ZNF701_ENST00000301093.2_Nonsense_Mutation_p.R515*|ZNF701_ENST00000391785.3_Nonsense_Mutation_p.R449*|CTD-3099C6.7_ENST00000599222.1_RNA	NM_001172655.1	NP_001166126.1	Q9NV72	ZN701_HUMAN	zinc finger protein 701	515					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)	p.R449*(1)		endometrium(5)|kidney(1)|large_intestine(2)|lung(6)	14				OV - Ovarian serous cystadenocarcinoma(262;0.0105)|GBM - Glioblastoma multiforme(134;0.0402)		GGTTTTTAATCGAAAATCAAA	0.358													C|||	1	0.000199681	0.0	0.0014	5008	,	,		22676	0.0		0.0	False		,,,				2504	0.0				NSCLC(89;451 1475 9611 20673 52284)											1	Substitution - Nonsense(1)	large_intestine(1)						C	stop/ARG,stop/ARG	0,4396		0,0,2198	41	41	41		1543,1345	0.6	0	19		41	1,8591	1.2+/-3.3	0,1,4295	no	stop-gained,stop-gained	ZNF701	NM_001172655.1,NM_018260.2	,	0,1,6493	TT,TC,CC		0.0116,0.0,0.0077	,	515/532,449/466	53086657	1,12987	2198	4296	6494	SO:0001587	stop_gained	55762			AK001753	CCDS33092.1, CCDS54311.1	19q13.41	2013-01-08				ENSG00000167562		"Zinc fingers, C2H2-type", "-"	25597	protein-coding gene	gene with protein product							Standard	NM_018260		Approved	FLJ10891	uc021uyw.1	Q9NV72		ENST00000540331.1:c.1543C>T	19.37:g.53086657C>T	ENSP00000444339:p.Arg515*	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRM8|B9EGF2|F5GZM6|Q66K42	Nonsense_Mutation	SNP	ENST00000540331.1	37	CCDS54311.1	.	.	.	.	.	.	.	.	.	.	C	24.2	4.500805	0.85176	0.0	1.16E-4	ENSG00000167562	ENST00000391785;ENST00000301093;ENST00000540331	.	.	.	1.81	0.618	0.17624	.	.	.	.	.	.	.	.	.	.	.	0.23834	N	0.996711	.	.	.	.	.	.	.	.	.	.	0.10111	T	0.7	.	8.7109	0.34382	0.0:0.7615:0.2385:0.0	.	.	.	.	X	449;515;515	.	ENSP00000301093:R515X	R	+	1	2	ZNF701	57778469	.	.	0.000000	0.03702	0.027000	0.11550	.	.	0.072000	0.16694	0.306000	0.20318	CGA		0.358	ZNF701-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000463467.1	NM_018260		T	53086657	C	T	53086657	4	4	652	1	0	0	0	0	0	1	0	0	18117	876	31	1	1557	1	ZNF701	19	53086657	Nonsense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	42263374	53086657	6042326	95	40481										
LILRA3	11026	broad.mit.edu	37	chr19	54803112	54803112	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gtacgaccacctgcgacttgGgctcacggggcccacggaga	14	14	1	1	rs568235562		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr19:54803112G>A	ENST00000251390.3	-	4	656	c.565C>T	c.(565-567)Cca>Tca	p.P189S	LILRA3_ENST00000391744.3_Intron|LILRA3_ENST00000391745.1_Missense_Mutation_p.P206S	NM_006865.3	NP_006856.3	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor, subfamily A (without TM domain), member 3	189	Ig-like C2-type 2.				defense response (GO:0006952)|immune system process (GO:0002376)|signal transduction (GO:0007165)	extracellular region (GO:0005576)|plasma membrane (GO:0005886)	antigen binding (GO:0003823)|receptor activity (GO:0004872)			NS(3)|breast(1)|kidney(1)|large_intestine(3)|lung(12)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	28	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CTGCGACTTGGGCTCACGGGG	0.592																																																0													135	115	122					19																	54803112		2195	4164	6359	SO:0001583	missense	11026			U91926		19q13.4	2013-01-11						"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6604	protein-coding gene	gene with protein product		604818				9278324, 9548455	Standard	XM_006710242		Approved	LIR-4, HM43, ILT6, HM31, LIR4, CD85e		Q8N6C8		ENST00000251390.3:c.565C>T	19.37:g.54803112G>A	ENSP00000251390:p.Pro189Ser	Somatic		WXS	Illumina HiSeq	Phase_I	J3KPM2|O15469|O15470|O75016|Q8N151|Q8N154|Q8NHJ1|Q8NHJ2|Q8NHJ3|Q8NHJ4	Missense_Mutation	SNP	ENST00000251390.3	37	CCDS12887.1	.	.	.	.	.	.	.	.	.	.	G	6.760	0.509147	0.12883	.	.	ENSG00000170866	ENST00000251390;ENST00000391745	T;T	0.02863	4.13;4.13	1.96	-0.554	0.11811	Immunoglobulin-like fold (1);	0.692657	0.13156	N	0.409475	T	0.03651	0.0104	L	0.52573	1.65	0.09310	N	1	B	0.20780	0.048	B	0.30251	0.113	T	0.38373	-0.9664	10	0.52906	T	0.07	.	6.2264	0.20710	0.0:0.0:0.467:0.533	.	189	Q8N6C8	LIRA3_HUMAN	S	189;206	ENSP00000251390:P189S;ENSP00000375625:P206S	ENSP00000251390:P189S	P	-	1	0	LILRA3	59494924	0.000000	0.05858	0.001000	0.08648	0.005000	0.04900	-1.571000	0.02138	-0.025000	0.13918	0.485000	0.47835	CCA		0.592	LILRA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140236.1			A	54803112	G	A	54803112	3	1	652	1	0	0	0	0	1	0	0	0	8793	1232	43	2	770	2	LILRA3	19	54803112	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10	1716455	54803112	4325871	96	40482										
MYH7B	57644	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr20	33575696	33575696	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	ttcatcggggttctggacatCgctgggtttgagatctttga	13	7	3	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr20:33575696C>T	ENST00000262873.7	+	16	1613	c.1521C>T	c.(1519-1521)atC>atT	p.I507I	MIR499A_ENST00000384903.1_RNA	NM_020884.3	NP_065935.2	A7E2Y1	MYH7B_HUMAN	myosin, heavy chain 7B, cardiac muscle, beta	465	Myosin motor.					membrane (GO:0016020)|myosin filament (GO:0032982)	ATP binding (GO:0005524)|motor activity (GO:0003774)			NS(2)|breast(5)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(8)|lung(19)|ovary(5)|prostate(3)|upper_aerodigestive_tract(2)|urinary_tract(3)	54			BRCA - Breast invasive adenocarcinoma(18;0.00691)			TTCTGGACATCGCTGGGTTTG	0.602																																																0													55	64	61					20																	33575696		2159	4287	6446	SO:0001819	synonymous_variant	57644			AB040945	CCDS42869.1	20q11	2011-09-27	2006-09-29		ENSG00000078814	ENSG00000078814		"Myosins / Myosin superfamily : Class II"	15906	protein-coding gene	gene with protein product		609928	"myosin, heavy polypeptide 7B, cardiac muscle, beta"			11919279, 15014174	Standard	XM_006723839		Approved	KIAA1512, dJ756N5.1, MYH14, MHC14	uc002xbi.2	A7E2Y1	OTTHUMG00000032320	ENST00000262873.7:c.1521C>T	20.37:g.33575696C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JVW7|Q6NT44|Q6NT57|Q6WG75|Q96I57|Q9NWE2|Q9P216	Silent	SNP	ENST00000262873.7	37	CCDS42869.1																																																																																				0.602	MYH7B-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000078833.2	NM_020884		T	33575696	C	T	33575696	2	4	652	1	0	0	0	0	0	0	0	1	10047	874	31	1		1	MYH7B	20	33575696	Silent	SNP	C	TCGA-KM-8476-01A-11D-2310-10		33575696	29449824	97	40483										
B3GALT5	10317	ucsc.edu	37	chr21	41033240	41033240	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	ttgtggggctctgcctcgaaAggctgaacatcagattggag	14	8	2	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr21:41033240A>G	ENST00000380620.4	+	5	1346	c.754A>G	c.(754-756)Agg>Ggg	p.R252G	B3GALT5_ENST00000398714.2_Missense_Mutation_p.R252G|AF064860.5_ENST00000416555.1_RNA|B3GALT5_ENST00000343118.4_Missense_Mutation_p.R252G|B3GALT5_ENST00000380618.1_Missense_Mutation_p.R252G			Q9Y2C3	B3GT5_HUMAN	UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 5	252					protein glycosylation (GO:0006486)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity (GO:0008499)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(5)|prostate(1)|skin(4)|stomach(1)|urinary_tract(1)	16		Prostate(19;2.55e-06)				CTGCCTCGAAAGGCTGAACAT	0.547																																																0													94	93	94					21																	41033240		2203	4300	6503	SO:0001583	missense	10317			AB020337	CCDS13667.1, CCDS74795.1	21q22.3	2013-02-19			ENSG00000183778	ENSG00000183778		"Beta 3-glycosyltransferases"	920	protein-coding gene	gene with protein product	"homolog of C. elegans Bt toxin resistance gene bre-5", "GlcNAc-beta-1,3-galactosyltransferase 5"	604066				10212226	Standard	NM_006057		Approved	beta3Gal-T5, B3GalT-V, GLCT5, B3T5	uc002yyj.1	Q9Y2C3	OTTHUMG00000086725	ENST00000380620.4:c.754A>G	21.37:g.41033240A>G	ENSP00000369994:p.Arg252Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA86|D3DSI3|Q2M3L5|Q53Z19|Q9NY96|Q9P1X6|Q9P1X7	Missense_Mutation	SNP	ENST00000380620.4	37	CCDS13667.1	.	.	.	.	.	.	.	.	.	.	A	9.108	1.005925	0.19199	.	.	ENSG00000183778	ENST00000380620;ENST00000380618;ENST00000343118;ENST00000398714	D;D;D;D	0.86230	-2.09;-2.09;-2.09;-2.09	5.64	3.23	0.37069	.	0.697068	0.13081	N	0.415340	D	0.82481	0.5046	L	0.57536	1.79	0.09310	N	1	P	0.35124	0.485	B	0.33295	0.161	T	0.74948	-0.3490	10	0.72032	D	0.01	.	5.8292	0.18570	0.6958:0.1628:0.1414:0.0	.	252	Q9Y2C3	B3GT5_HUMAN	G	252	ENSP00000369994:R252G;ENSP00000369992:R252G;ENSP00000343318:R252G;ENSP00000381699:R252G	ENSP00000343318:R252G	R	+	1	2	B3GALT5	39955110	0.997000	0.39634	0.001000	0.08648	0.034000	0.12701	3.644000	0.54381	0.926000	0.37118	0.533000	0.62120	AGG		0.547	B3GALT5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195008.2	NM_033170		G	41033240	A	G	41033240	3	3	652	1	0	0	0	0	1	0	0	0	1250	63	3	3	756	3	B3GALT5	21	41033240	Missense_Mutation	SNP	A	TCGA-KM-8476-01A-11D-2310-10		41033240	7096655	98	40484										
HIC2	23119	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	21800335	21800335	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	cctggctagtggggctggccCtagcgggccctatggggagc	18	12	0	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr22:21800335C>G	ENST00000443632.2	+	2	1523	c.1151C>G	c.(1150-1152)cCt>cGt	p.P384R	HIC2_ENST00000407464.2_Missense_Mutation_p.P384R|HIC2_ENST00000407598.2_Missense_Mutation_p.P384R			Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	384					negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|plasma membrane (GO:0005886)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|protein C-terminus binding (GO:0008022)			NS(1)|endometrium(4)|large_intestine(1)|lung(7)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	16	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				GGGGCTGGCCCTAGCGGGCCC	0.687																																					NSCLC(23;437 858 2282 27947 40366)											0																																										SO:0001583	missense	23119			AB028943	CCDS13789.1	22q11.21	2013-01-09			ENSG00000169635	ENSG00000169635		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	18595	protein-coding gene	gene with protein product		607712				11554746	Standard	NM_015094		Approved	KIAA1020, HRG22, ZBTB30, ZNF907	uc002zur.4	Q96JB3	OTTHUMG00000150781	ENST00000443632.2:c.1151C>G	22.37:g.21800335C>G	ENSP00000387757:p.Pro384Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q504T6|Q96KR3|Q9NSM9|Q9UPX9	Missense_Mutation	SNP	ENST00000443632.2	37	CCDS13789.1	.	.	.	.	.	.	.	.	.	.	C	2.050	-0.417999	0.04766	.	.	ENSG00000169635	ENST00000407464;ENST00000407598;ENST00000443632	T;T;T	0.10763	2.84;2.84;2.84	4.63	3.58	0.41010	.	1.024570	0.07770	N	0.951539	T	0.05868	0.0153	N	0.08118	0	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.35699	-0.9778	10	0.33141	T	0.24	.	5.5125	0.16888	0.2208:0.6782:0.0:0.101	.	384	Q96JB3	HIC2_HUMAN	R	384	ENSP00000385319:P384R;ENSP00000384889:P384R;ENSP00000387757:P384R	ENSP00000385319:P384R	P	+	2	0	HIC2	20130335	0.004000	0.15560	0.801000	0.32222	0.286000	0.27126	0.749000	0.26320	1.235000	0.43724	0.655000	0.94253	CCT		0.687	HIC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320061.2			G	21800335	C	G	21800335	3	3	652	1	0	0	0	0	1	0	0	0	7109	681	24	4	1157	4	HIC2	22	21800335	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10		21800335	29504231	99	40485										
ZNF280B	140883	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr22	22842485	22842485	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gtttctacatcagcaaagacCgacgatctataatggcaaac	7	10	3	1	rs141102079	byFrequency	TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr22:22842485C>T	ENST00000406426.1	-	4	1981	c.1239G>A	c.(1237-1239)tcG>tcA	p.S413S	ZNF280B_ENST00000360412.2_Silent_p.S413S			Q86YH2	Z280B_HUMAN	zinc finger protein 280B	413					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			autonomic_ganglia(1)|endometrium(2)|kidney(1)|large_intestine(6)|liver(1)|lung(9)|ovary(2)	22	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)		CAGCAAAGACCGACGATCTAT	0.403													C|||	2	0.000399361	0.0015	0.0	5008	,	,		19648	0.0		0.0	False		,,,				2504	0.0															0								C		3,4403	6.2+/-15.9	0,3,2200	131	122	125		1239	-9.2	0	22	dbSNP_134	125	0,8600		0,0,4300	no	coding-synonymous	ZNF280B	NM_080764.2		0,3,6500	TT,TC,CC		0.0,0.0681,0.0231		413/544	22842485	3,13003	2203	4300	6503	SO:0001819	synonymous_variant	140883			AK097608	CCDS13799.1	22q11.2	2007-09-20	2007-09-20	2007-09-20	ENSG00000198477	ENSG00000275004			23022	protein-coding gene	gene with protein product			"zinc finger protein 279", "suppressor of hairy wing homolog 2 (Drosophila)"	ZNF279, SUHW2		9074928	Standard	NM_080764		Approved	5'OY11.1, ZNF632	uc002zwc.1	Q86YH2	OTTHUMG00000151066	ENST00000406426.1:c.1239G>A	22.37:g.22842485C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000406426.1	37	CCDS13799.1																																																																																				0.403	ZNF280B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321170.2	NM_080764		T	22842485	C	T	22842485	2	4	652	1	0	0	0	0	0	0	0	1	17827	639	23	1		1	ZNF280B	22	22842485	Silent	SNP	C	TCGA-KM-8476-01A-11D-2310-10	1042150	22842485	28462081	100	40486										
HPS4	89781	broad.mit.edu	37	chr22	26860415	26860415	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	aaggagccctgccatctggaAcaggcacatgtaggaaggca	13	10	1	0			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr22:26860415A>G	ENST00000398145.2	-	11	1797	c.1181T>C	c.(1180-1182)gTt>gCt	p.V394A	HPS4_ENST00000493455.2_5'Flank|HPS4_ENST00000336873.5_Missense_Mutation_p.V394A|HPS4_ENST00000398141.1_Missense_Mutation_p.V407A|HPS4_ENST00000402105.3_Missense_Mutation_p.V389A	NM_022081.5	NP_071364.4	Q9NQG7	HPS4_HUMAN	Hermansky-Pudlak syndrome 4	394					blood coagulation (GO:0007596)|hemostasis (GO:0007599)|lysosome organization (GO:0007040)|melanocyte differentiation (GO:0030318)|positive regulation of eye pigmentation (GO:0048075)|protein stabilization (GO:0050821)|protein targeting (GO:0006605)	BLOC-3 complex (GO:0031085)|cytoplasm (GO:0005737)|lysosome (GO:0005764)|melanosome (GO:0042470)|membrane (GO:0016020)|platelet dense granule (GO:0042827)	protein dimerization activity (GO:0046983)|protein homodimerization activity (GO:0042803)			breast(2)|endometrium(3)|kidney(5)|large_intestine(4)|lung(12)|pancreas(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	32						GCCATCTGGAACAGGCACATG	0.552									Hermansky-Pudlak syndrome																																							0													73	66	68					22																	26860415		2203	4300	6503	SO:0001583	missense	89781	Familial Cancer Database	HPS, HPS1-8		CCDS13835.1, CCDS46677.1	22q12.1	2014-09-17			ENSG00000100099	ENSG00000100099			15844	protein-coding gene	gene with protein product		606682				11836498, 12663659	Standard	NM_022081		Approved	KIAA1667, LE	uc003aci.4	Q9NQG7	OTTHUMG00000030459	ENST00000398145.2:c.1181T>C	22.37:g.26860415A>G	ENSP00000381213:p.Val394Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B1AHQ4|Q5H8V6|Q96LX6|Q9BY93|Q9UH37|Q9UH38	Missense_Mutation	SNP	ENST00000398145.2	37	CCDS13835.1	.	.	.	.	.	.	.	.	.	.	A	0.060	-1.226539	0.01518	.	.	ENSG00000100099	ENST00000398145;ENST00000398141;ENST00000402105;ENST00000336873;ENST00000312736;ENST00000422379	T;T;T;T;T	0.52526	1.73;1.69;1.73;1.73;0.66	3.99	0.277	0.15668	.	0.653399	0.13948	N	0.351736	T	0.13243	0.0321	N	0.01410	-0.885	0.09310	N	1	B;B;B;B;B;B	0.06786	0.0;0.0;0.0;0.0;0.001;0.0	B;B;B;B;B;B	0.04013	0.001;0.001;0.001;0.001;0.001;0.001	T	0.25813	-1.0121	10	0.07482	T	0.82	-3.4244	2.9116	0.05739	0.361:0.2352:0.4038:0.0	.	394;394;394;394;407;389	Q6ICH6;Q6P1K3;Q9NQG7;A8K2E6;Q9NQG7-4;Q9NQG7-3	.;.;HPS4_HUMAN;.;.;.	A	394;407;389;394;412;412	ENSP00000381213:V394A;ENSP00000381210:V407A;ENSP00000384185:V389A;ENSP00000338457:V394A;ENSP00000415081:V412A	ENSP00000325840:V412A	V	-	2	0	HPS4	25190415	0.020000	0.18652	0.000000	0.03702	0.022000	0.10575	1.574000	0.36482	-0.090000	0.12462	0.533000	0.62120	GTT		0.552	HPS4-005	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320778.1	NM_022081		G	26860415	A	G	26860415	3	3	652	1	0	0	0	0	1	0	0	0	7348	43	2	3	961	3	HPS4	22	26860415	Missense_Mutation	SNP	A	TCGA-KM-8476-01A-11D-2310-10	4017930	26860415	24444151	101	40487										
MGAT3	4248	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr22	39884300	39884300	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	gacgacgtcttcatcattgaCgatgcggacgagatcccggc	12	12	3	2			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chr22:39884300C>T	ENST00000341184.6	+	2	1163	c.948C>T	c.(946-948)gaC>gaT	p.D316D		NM_001098270.1|NM_002409.4	NP_001091740.1|NP_002400.3	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein beta-1,4-N-acetylglucosaminyltransferase	316					cellular protein metabolic process (GO:0044267)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity (GO:0003830)			endometrium(4)|kidney(1)|large_intestine(5)|lung(12)|prostate(1)|skin(1)	24	Melanoma(58;0.04)					TCATCATTGACGATGCGGACG	0.647																																																0													72	74	73					22																	39884300		2203	4297	6500	SO:0001819	synonymous_variant	4248			D13789	CCDS13994.2	22q13.1	2013-02-25			ENSG00000128268	ENSG00000128268	2.4.1.144	"Mannosyl-glycoprotein beta N-acetylglucosaminyltransferases"	7046	protein-coding gene	gene with protein product		604621				8370666	Standard	NM_002409		Approved	GNT-III	uc010gxy.3	Q09327	OTTHUMG00000030185	ENST00000341184.6:c.948C>T	22.37:g.39884300C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NGD0|Q14CK5|Q6IC49|Q9UH32	Silent	SNP	ENST00000341184.6	37	CCDS13994.2																																																																																				0.647	MGAT3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075039.2	NM_002409		T	39884300	C	T	39884300	2	4	652	1	0	0	0	0	0	0	0	1	9551	535	19	1		1	MGAT3	22	39884300	Silent	SNP	C	TCGA-KM-8476-01A-11D-2310-10	13023885	39884300	11420266	102	40488										
RBM3	5935	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	48434802	48434802	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tgggcgtggtcgcagctactCtagaggtgagtgcagtgatc	16	8	1	3			TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chrX:48434802C>T	ENST00000376759.3	+	4	374	c.311C>T	c.(310-312)tCt>tTt	p.S104F	RBM3_ENST00000466764.1_3'UTR|RBM3_ENST00000376755.1_Missense_Mutation_p.S104F|RBM3_ENST00000430348.2_Silent_p.L77L|AC115618.1_ENST00000376775.2_5'Flank|RBM3_ENST00000354480.2_Silent_p.L77L	NM_006743.4	NP_006734.1	P98179	RBM3_HUMAN	RNA binding motif (RNP1, RRM) protein 3	104	Gly-rich.				positive regulation of translation (GO:0045727)|production of miRNAs involved in gene silencing by miRNA (GO:0035196)|regulation of translation (GO:0006417)|response to cold (GO:0009409)|RNA processing (GO:0006396)|translation (GO:0006412)	cytoplasm (GO:0005737)|dendrite (GO:0030425)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|ribosomal large subunit binding (GO:0043023)|RNA binding (GO:0003723)			endometrium(1)|large_intestine(1)|lung(1)|ovary(1)	4						CGCAGCTACTCTAGAGGTGAG	0.537																																																0													69	57	61					X																	48434802		2203	4300	6503	SO:0001583	missense	5935			BC006825	CCDS14301.1	Xp11.2	2014-05-19	2004-04-23		ENSG00000102317	ENSG00000102317		"RNA binding motif (RRM) containing"	9900	protein-coding gene	gene with protein product		300027	"RNA binding motif protein 3"			8634703	Standard	NM_006743		Approved	IS1-RNPL	uc004dkf.2	P98179	OTTHUMG00000024121	ENST00000376759.3:c.311C>T	X.37:g.48434802C>T	ENSP00000365950:p.Ser104Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000376759.3	37	CCDS14301.1	.	.	.	.	.	.	.	.	.	.	C	4.891	0.165533	0.09339	.	.	ENSG00000102317	ENST00000376759;ENST00000376755	T;T	0.74632	-0.86;-0.86	5.05	4.17	0.49024	.	0.406828	0.17473	U	0.173017	T	0.57607	0.2065	L	0.29908	0.895	0.80722	D	1	B	0.02656	0.0	B	0.01281	0.0	T	0.51482	-0.8700	10	0.19147	T	0.46	-10.0799	6.7782	0.23630	0.0:0.7154:0.1801:0.1044	.	104	P98179	RBM3_HUMAN	F	104	ENSP00000365950:S104F;ENSP00000365946:S104F	ENSP00000365946:S104F	S	+	2	0	RBM3	48319746	0.997000	0.39634	0.999000	0.59377	0.978000	0.69477	2.732000	0.47352	2.222000	0.72286	0.513000	0.50165	TCT		0.537	RBM3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060755.1	NM_006743		T	48434802	C	T	48434802	3	4	652	1	0	0	0	0	1	0	0	0	13142	913	32	2	321	2	RBM3	23	48434802	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10		48434802	106835758	103	40489										
ZCCHC5	203430	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	77913571	77913571	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	actcccgggttgctggaggcGccagggactctggggctgct	17	12	1	0	rs144237768		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chrX:77913571G>A	ENST00000321110.1	-	2	642	c.347C>T	c.(346-348)gCg>gTg	p.A116V		NM_152694.2	NP_689907.1	Q8N8U3	ZCHC5_HUMAN	zinc finger, CCHC domain containing 5	116	Pro-rich.						nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)	p.A116V(1)		breast(3)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(3)|large_intestine(6)|lung(18)|ovary(1)|prostate(1)|skin(1)	37						TGCTGGAGGCGCCAGGGACTC	0.627																																																1	Substitution - Missense(1)	prostate(1)						G	VAL/ALA	1,3834		0,1,1631,571	23	26	25		347	1.8	0	X	dbSNP_134	25	0,6724		0,0,2428,1868	no	missense	ZCCHC5	NM_152694.2	64	0,1,4059,2439	AA,AG,GG,G		0.0,0.0261,0.0095	benign	116/476	77913571	1,10558	2203	4296	6499	SO:0001583	missense	203430			AK096184	CCDS14440.1	Xq13.3	2008-02-05			ENSG00000179300	ENSG00000179300		"Zinc fingers, CCHC domain containing"	22997	protein-coding gene	gene with protein product						15716091, 16093683	Standard	NM_152694		Approved	FLJ38865, Mar3, Mart3, ZHC5	uc004edc.1	Q8N8U3	OTTHUMG00000021892	ENST00000321110.1:c.347C>T	X.37:g.77913571G>A	ENSP00000316794:p.Ala116Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMZ0|Q5JQE9	Missense_Mutation	SNP	ENST00000321110.1	37	CCDS14440.1	.	.	.	.	.	.	.	.	.	.	G	9.004	0.980926	0.18812	2.61E-4	0.0	ENSG00000179300	ENST00000321110	T	0.18502	2.21	3.01	1.84	0.25277	.	.	.	.	.	T	0.08626	0.0214	N	0.08118	0	0.09310	N	1	B	0.15719	0.014	B	0.11329	0.006	T	0.31223	-0.9951	9	0.51188	T	0.08	.	7.1902	0.25821	0.0:0.0:0.2253:0.7747	.	116	Q8N8U3	ZCHC5_HUMAN	V	116	ENSP00000316794:A116V	ENSP00000316794:A116V	A	-	2	0	ZCCHC5	77800227	0.000000	0.05858	0.001000	0.08648	0.039000	0.13416	-0.294000	0.08309	0.411000	0.25702	-0.623000	0.04022	GCG		0.627	ZCCHC5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057319.1	NM_152694		A	77913571	G	A	77913571	3	1	652	1	0	0	0	0	1	0	0	0	17603	1087	38	1	1084	1	ZCCHC5	23	77913571	Missense_Mutation	SNP	G	TCGA-KM-8476-01A-11D-2310-10	29478769	77913571	77356989	104	40490										
MAGEC1	9947	mdanderson.org	37	chrX	140994352	140994352	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.019047619047619	2	1	0.296048827497591	0	0.313128567545529	0.454545454545454	1	0	tctcctccactttactgagtCttttccagagttcccctgag	6	14	2	3	rs113701062		TCGA-KM-8476-01A-11D-2310-10	TCGA-KM-8476-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	5bebc389-de0d-45b8-9d2f-6476988c358a	69f24cd1-4ec4-4ef0-876f-4eda31a72245	g.chrX:140994352C>A	ENST00000285879.4	+	4	1448	c.1162C>A	c.(1162-1164)Ctt>Att	p.L388I	MAGEC1_ENST00000406005.2_Intron	NM_005462.4	NP_005453.2	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	388										breast(3)|central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(22)|lung(60)|ovary(1)|pancreas(1)|prostate(1)|skin(7)|stomach(5)|upper_aerodigestive_tract(7)|urinary_tract(1)	127	Acute lymphoblastic leukemia(192;6.56e-05)					TTTACTGAGTCTTTTCCAGAG	0.493										HNSCC(15;0.026)			-|||	52	0.0137748	0.028	0.0115	3775	,	,		13425	0.0		0.005	False		,,,				2504	0.002															0													104	111	109					X																	140994352		2202	4293	6495	SO:0001583	missense	9947			AF064589	CCDS35417.1	Xq26	2009-03-18			ENSG00000155495	ENSG00000155495			6812	protein-coding gene	gene with protein product	"cancer/testis antigen family 7, member 1"	300223				9485030, 9618514	Standard	NM_005462		Approved	MAGE-C1, CT7, MGC39366, CT7.1	uc004fbt.3	O60732	OTTHUMG00000022569	ENST00000285879.4:c.1162C>A	X.37:g.140994352C>A	ENSP00000285879:p.Leu388Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A0PK03|O75451|Q8TCV4	Missense_Mutation	SNP	ENST00000285879.4	37	CCDS35417.1	.	.	.	.	.	.	.	.	.	.	c	0.007	-1.943046	0.00479	.	.	ENSG00000155495	ENST00000285879	T	0.02345	4.33	.	.	.	.	.	.	.	.	T	0.01353	0.0044	N	0.08118	0	0.09310	N	1	B	0.32829	0.386	B	0.23150	0.044	T	0.43605	-0.9381	8	0.87932	D	0	.	5.684	0.17792	0.0:0.6646:0.3354:0.0	.	388	O60732	MAGC1_HUMAN	I	388	ENSP00000285879:L388I	ENSP00000285879:L388I	L	+	1	0	MAGEC1	140822018	0.009000	0.17119	0.040000	0.18447	0.040000	0.13550	0.074000	0.14662	-1.619000	0.01566	-1.645000	0.00762	CTT		0.493	MAGEC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058604.1	NM_005462		A	140994352	C	A	140994352	3	1	652	1	0	0	0	0	1	0	0	0	9187	913	32	4	1168	4	MAGEC1	23	140994352	Missense_Mutation	SNP	C	TCGA-KM-8476-01A-11D-2310-10	63080781	140994352	14276208	105	40491										
HNRNPCL1	343069	bcgsc.ca	37	chr1	12907358	12907358	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	actccagctggtcatcccccTgatcttcattaacatcatca	4	15	5	1	rs74587302|rs559905244	byFrequency	TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr1:12907358T>C	ENST00000317869.6	-	2	1010	c.785A>G	c.(784-786)cAg>cGg	p.Q262R		NM_001013631.1|NM_001136561.2|NM_001146181.1	NP_001013653.1|NP_001130033.2|NP_001139653.1	O60812	HNRC1_HUMAN	heterogeneous nuclear ribonucleoprotein C-like 1	262						nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(15)|prostate(1)|skin(1)|stomach(2)	29						GTCATCCCCCTGATCTTCATT	0.498																																																0													143	157	152					1																	12907358		2203	4300	6503	SO:0001583	missense	343069			BC002696	CCDS30591.1	1p36.21	2013-02-12		2008-04-18	ENSG00000179172	ENSG00000179172		"RNA binding motif (RRM) containing"	29295	protein-coding gene	gene with protein product				HNRPCL1			Standard	NM_001013631		Approved			O60812	OTTHUMG00000001931	ENST00000317869.6:c.785A>G	1.37:g.12907358T>C	ENSP00000365370:p.Gln262Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP44	Missense_Mutation	SNP	ENST00000317869.6	37	CCDS30591.1	.	.	.	.	.	.	.	.	.	.	.	0.006	-2.089806	0.00367	.	.	ENSG00000179172	ENST00000317869	T	0.09445	2.98	0.343	-0.686	0.11324	.	2.239460	0.02976	N	0.145045	T	0.04724	0.0128	N	0.02830	-0.485	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.33650	-0.9860	10	0.33940	T	0.23	.	3.9448	0.09344	0.0:0.3889:0.0:0.6111	.	262	O60812	HNRCL_HUMAN	R	262	ENSP00000365370:Q262R	ENSP00000365370:Q262R	Q	-	2	0	HNRNPCL1	12829945	0.213000	0.23551	0.005000	0.12908	0.003000	0.03518	0.096000	0.15147	-0.605000	0.05753	-0.620000	0.04034	CAG		0.498	HNRNPCL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005462.1	NM_001013631		C	12907358	T	C	12907358	3	2	653	1	0	0	0	0	1	0	0	0	7270	1580	55	3	98	3	HNRNPCL1	1	12907358	Missense_Mutation	SNP	T	TCGA-KM-8477-01A-11D-2310-10		12907358	236343263	1	40492										
RBMXL1	494115	mdanderson.org	37	chr1	89449135	89449135	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ccatcatccatgtgtcctccTcgtgaaggaggtcccctggt	10	14	1	1			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr1:89449135T>C	ENST00000321792.5	-	2	802	c.375A>G	c.(373-375)cgA>cgG	p.R125R	CCBL2_ENST00000446900.2_Intron|RBMXL1_ENST00000413769.1_5'UTR|CCBL2_ENST00000370485.2_Intron|RBMXL1_ENST00000399794.2_Silent_p.R125R|CCBL2_ENST00000370491.3_Intron|CCBL2_ENST00000260508.4_Intron	NM_019610.5	NP_062556.2	Q96E39	RMXL1_HUMAN	RNA binding motif protein, X-linked-like 1	125					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|RNA binding (GO:0003723)										TGTGTCCTCCTCGTGAAGGAG	0.527																																																0													110	118	116					1																	89449135		2203	4300	6503	SO:0001819	synonymous_variant	494115			BC012942	CCDS716.1	1p22.2	2013-02-12	2007-01-04	2007-01-04	ENSG00000213516	ENSG00000213516		"RNA binding motif (RRM) containing"	25073	protein-coding gene	gene with protein product	"kynurenine aminotransferase III"					10441733	Standard	NM_019610		Approved	KAT3	uc001dms.3	Q96E39	OTTHUMG00000010661	ENST00000321792.5:c.375A>G	1.37:g.89449135T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000321792.5	37	CCDS716.1																																																																																				0.527	RBMXL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029403.3	NM_019610		C	89449135	T	C	89449135	2	2	653	1	0	0	0	0	0	0	0	1	13166	1538	54	3		3	RBMXL1	1	89449135	Silent	SNP	T	TCGA-KM-8477-01A-11D-2310-10	76541777	89449135	159801486	2	40493										
CHIA	27159	broad.mit.edu;bcgsc.ca	37	chr1	111857960	111857960	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ctcagtcatcaaattcctgcGccagtatgagtttgacgggc	10	11	3	2	rs140031055		TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr1:111857960G>A	ENST00000369740.1	+	6	486	c.383G>A	c.(382-384)cGc>cAc	p.R128H	CHIA_ENST00000451398.2_5'UTR|CHIA_ENST00000483391.1_Intron|CHIA_ENST00000430615.1_Missense_Mutation_p.R20H|RP5-1125M8.2_ENST00000426321.1_RNA|CHIA_ENST00000353665.6_Intron|CHIA_ENST00000343320.6_Missense_Mutation_p.R128H	NM_001258001.1|NM_201653.3	NP_001244930.1|NP_970615.2	Q9BZP6	CHIA_HUMAN	chitinase, acidic	128					apoptotic process (GO:0006915)|cell wall chitin metabolic process (GO:0006037)|chitin catabolic process (GO:0006032)|chitin metabolic process (GO:0006030)|digestion (GO:0007586)|immune response (GO:0006955)|polysaccharide catabolic process (GO:0000272)|positive regulation of chemokine secretion (GO:0090197)|production of molecular mediator involved in inflammatory response (GO:0002532)|response to fungus (GO:0009620)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)	carbohydrate binding (GO:0030246)|chitin binding (GO:0008061)|chitinase activity (GO:0004568)|kinase binding (GO:0019900)|lysozyme activity (GO:0003796)			central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(3)|lung(9)|ovary(1)|skin(1)	23		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)		AAATTCCTGCGCCAGTATGAG	0.547																																																0								G	HIS/ARG,HIS/ARG	0,4406		0,0,2203	110	106	107		59,383	1.8	0.9	1	dbSNP_134	107	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense	CHIA	NM_021797.2,NM_201653.2	29,29	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging,probably-damaging	20/369,128/477	111857960	1,13005	2203	4300	6503	SO:0001583	missense	27159			AF290004	CCDS832.1, CCDS41368.1, CCDS58017.1	1p13.2	2008-05-14			ENSG00000134216	ENSG00000134216			17432	protein-coding gene	gene with protein product		606080				11085997	Standard	NM_021797		Approved	AMCase, TSA1902, CHIT2	uc001eas.4	Q9BZP6	OTTHUMG00000011165	ENST00000369740.1:c.383G>A	1.37:g.111857960G>A	ENSP00000358755:p.Arg128His	Somatic		WXS	Illumina HiSeq	Phase_I	Q32W79|Q32W80|Q3B866|Q5U5Z5|Q5VUV4|Q86UD8|Q9ULY3|Q9ULY4	Missense_Mutation	SNP	ENST00000369740.1	37	CCDS41368.1	.	.	.	.	.	.	.	.	.	.	G	16.14	3.039601	0.55003	0.0	1.16E-4	ENSG00000134216	ENST00000422815;ENST00000369740;ENST00000343320;ENST00000430615	T;T;T;T	0.07114	3.22;3.22;3.22;3.22	4.72	1.77	0.24775	Chitinase II (1);Glycoside hydrolase, family 18, catalytic domain (1);Glycoside hydrolase, subgroup, catalytic domain (1);Glycoside hydrolase, superfamily (1);	0.159070	0.41194	N	0.000933	T	0.05547	0.0146	M	0.79343	2.45	0.80722	D	1	P	0.38642	0.641	B	0.38296	0.27	T	0.10268	-1.0637	10	0.62326	D	0.03	-14.2335	8.9773	0.35944	0.2554:0.0:0.7446:0.0	.	128	Q9BZP6	CHIA_HUMAN	H	72;128;128;20	ENSP00000387671:R72H;ENSP00000358755:R128H;ENSP00000341828:R128H;ENSP00000391132:R20H	ENSP00000341828:R128H	R	+	2	0	CHIA	111659483	0.995000	0.38212	0.854000	0.33618	0.835000	0.47333	1.857000	0.39399	0.160000	0.19432	-0.123000	0.14984	CGC		0.547	CHIA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030710.1			A	111857960	G	A	111857960	3	1	653	1	0	0	0	0	1	0	0	0	3344	1087	38	1	401	1	CHIA	1	111857960	Missense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10	22408825	111857960	137392661	3	40494										
NOTCH2	4853	broad.mit.edu	37	chr1	120539668	120539668	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	gtcaccagtctgccgacaggTgcctccattgacacaaggtg	11	13	2	1	rs200464440		TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr1:120539668T>A	ENST00000256646.2	-	4	922	c.703A>T	c.(703-705)Acc>Tcc	p.T235S	NOTCH2_ENST00000602566.1_Missense_Mutation_p.T196S	NM_024408.3	NP_077719.2	Q04721	NOTC2_HUMAN	notch 2	235	EGF-like 6. {ECO:0000255|PROSITE- ProRule:PRU00076}.				apoptotic process (GO:0006915)|atrial septum morphogenesis (GO:0060413)|bone remodeling (GO:0046849)|cell cycle arrest (GO:0007050)|cell fate determination (GO:0001709)|cell growth (GO:0016049)|ciliary body morphogenesis (GO:0061073)|determination of left/right symmetry (GO:0007368)|embryonic limb morphogenesis (GO:0030326)|gene expression (GO:0010467)|hemopoiesis (GO:0030097)|humoral immune response (GO:0006959)|in utero embryonic development (GO:0001701)|inflammatory response to antigenic stimulus (GO:0002437)|interleukin-4 secretion (GO:0072602)|intracellular receptor signaling pathway (GO:0030522)|morphogenesis of an epithelial sheet (GO:0002011)|multicellular organismal development (GO:0007275)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nervous system development (GO:0007399)|Notch receptor processing (GO:0007220)|Notch signaling involved in heart development (GO:0061314)|Notch signaling pathway (GO:0007219)|organ morphogenesis (GO:0009887)|placenta blood vessel development (GO:0060674)|positive regulation of apoptotic process (GO:0043065)|positive regulation of BMP signaling pathway (GO:0030513)|positive regulation of cell proliferation (GO:0008284)|positive regulation of Ras protein signal transduction (GO:0046579)|pulmonary valve morphogenesis (GO:0003184)|regulation of transcription, DNA-templated (GO:0006355)|stem cell maintenance (GO:0019827)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cell surface (GO:0009986)|cilium (GO:0005929)|endoplasmic reticulum membrane (GO:0005789)|extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)|ligand-activated RNA polymerase II transcription factor binding transcription factor activity (GO:0038049)|receptor activity (GO:0004872)			breast(4)|central_nervous_system(6)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(9)|kidney(9)|large_intestine(19)|liver(1)|lung(57)|ovary(4)|pancreas(1)|prostate(7)|skin(24)|stomach(2)|upper_aerodigestive_tract(5)|urinary_tract(1)	158	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)		TGCCGACAGGTGCCTCCATTG	0.572			"N, F, Mis"		"marginal zone lymphoma, DLBCL"				Alagille Syndrome																														Dom	yes		1	1p13-p11	4853	Notch homolog 2		L	0													50	40	43					1																	120539668		2203	4299	6502	SO:0001583	missense	4853	Familial Cancer Database	ALGS1, ALGS2.Alagille-Watson syndrome	AF315356	CCDS908.1	1p13-p11	2013-01-10	2010-06-24		ENSG00000134250	ENSG00000134250		"Ankyrin repeat domain containing"	7882	protein-coding gene	gene with protein product		600275	"Notch (Drosophila) homolog 2", "Notch homolog 2 (Drosophila)"			7698746	Standard	NM_001200001		Approved		uc001eik.3	Q04721	OTTHUMG00000012177	ENST00000256646.2:c.703A>T	1.37:g.120539668T>A	ENSP00000256646:p.Thr235Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3X7|Q99734|Q9H240	Missense_Mutation	SNP	ENST00000256646.2	37	CCDS908.1	.	.	.	.	.	.	.	.	.	.	T	24.2	4.508758	0.85282	.	.	ENSG00000134250	ENST00000256646;ENST00000539617;ENST00000401649;ENST00000369342	T	0.33438	1.41	5.83	5.83	0.93111	Epidermal growth factor-like (1);Epidermal growth factor-like, type 3 (1);	0.000000	0.38897	U	0.001527	T	0.42471	0.1204	L	0.58510	1.815	0.80722	D	1	P;D;D	0.71674	0.924;0.998;0.965	P;D;P	0.77004	0.585;0.989;0.834	T	0.25082	-1.0142	10	0.41790	T	0.15	.	15.3661	0.74523	0.0:0.0:0.0:1.0	.	196;235;235	D2WEZ3;Q6IQ50;Q04721	.;.;NOTC2_HUMAN	S	235;196;208;196	ENSP00000256646:T235S	ENSP00000256646:T235S	T	-	1	0	NOTCH2	120341191	1.000000	0.71417	1.000000	0.80357	0.971000	0.66376	6.185000	0.72013	2.216000	0.71823	0.477000	0.44152	ACC		0.572	NOTCH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033679.1	NM_024408		A	120539668	T	A	120539668	3	1	653	1	0	0	0	0	1	0	0	0	10555	1696	59	5	6836	5	NOTCH2	1	120539668	Missense_Mutation	SNP	T	TCGA-KM-8477-01A-11D-2310-10	8681708	120539668	128710953	4	40495										
POLR3C	10623	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	145594109	145594109	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	gatcatctcctctatttcttGtaactgtgcttcctctgcac	5	13	5	0			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr1:145594109G>T	ENST00000334163.3	-	14	1613	c.1453C>A	c.(1453-1455)Caa>Aaa	p.Q485K	POLR3C_ENST00000369294.1_Intron	NM_006468.6	NP_006459.3	Q9BUI4	RPC3_HUMAN	polymerase (RNA) III (DNA directed) polypeptide C (62kD)	485					defense response to virus (GO:0051607)|gene expression (GO:0010467)|innate immune response (GO:0045087)|positive regulation of innate immune response (GO:0045089)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of type I interferon production (GO:0032481)|regulation of transcription from RNA polymerase III promoter (GO:0006359)|termination of RNA polymerase III transcription (GO:0006386)|transcription elongation from RNA polymerase III promoter (GO:0006385)|transcription from RNA polymerase III promoter (GO:0006383)	cytosol (GO:0005829)|DNA-directed RNA polymerase III complex (GO:0005666)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)			breast(2)|endometrium(4)|kidney(1)|large_intestine(3)|liver(1)|lung(8)|ovary(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	25	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)		Epithelial(2;7.55e-13)			TCTATTTCTTGTAACTGTGCT	0.438																																																0													241	212	222					1																	145594109		2203	4300	6503	SO:0001583	missense	10623			AJ238234	CCDS72864.1	1q21	2013-01-21			ENSG00000186141	ENSG00000186141		"RNA polymerase subunits"	30076	protein-coding gene	gene with protein product						9171375, 12391170	Standard	NM_006468		Approved	RPC62, RPC3	uc001eoh.3	Q9BUI4	OTTHUMG00000013753	ENST00000334163.3:c.1453C>A	1.37:g.145594109G>T	ENSP00000334564:p.Gln485Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O15317|Q9Y3R6	Missense_Mutation	SNP	ENST00000334163.3	37	CCDS921.1	.	.	.	.	.	.	.	.	.	.	G	6.912	0.537952	0.13188	.	.	ENSG00000186141	ENST00000334163	T	0.40756	1.02	5.63	5.63	0.86233	.	0.124751	0.56097	D	0.000040	T	0.12944	0.0314	N	0.22421	0.69	0.80722	D	1	B;B	0.30326	0.2;0.276	B;B	0.22601	0.021;0.04	T	0.05068	-1.0908	10	0.08599	T	0.76	-14.2576	15.1849	0.72993	0.0:0.0:1.0:0.0	.	485;485	Q9BUI4;Q53F76	RPC3_HUMAN;.	K	485	ENSP00000334564:Q485K	ENSP00000334564:Q485K	Q	-	1	0	POLR3C	144305466	1.000000	0.71417	0.513000	0.27749	0.769000	0.43574	4.916000	0.63362	2.665000	0.90641	0.563000	0.77884	CAA		0.438	POLR3C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000038542.1	NM_006468		T	145594109	G	T	145594109	3	4	653	1	0	0	0	0	1	0	0	0	12237	1386	48	4	159	4	POLR3C	1	145594109	Missense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10	25054441	145594109	103656512	5	40496										
FLG	2312	mdanderson.org	37	chr1	152280597	152280597	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	gacccagaccgcctctcagaAtcttctgagtgtccctcact	7	16	4	3	rs3126077		TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr1:152280597A>G	ENST00000368799.1	-	3	6800	c.6765T>C	c.(6763-6765)gaT>gaC	p.D2255D	FLG-AS1_ENST00000593011.1_RNA|FLG-AS1_ENST00000420707.1_RNA	NM_002016.1	NP_002007.1	P20930	FILA_HUMAN	filaggrin	2255	Ser-rich.				establishment of skin barrier (GO:0061436)|keratinocyte differentiation (GO:0030216)|multicellular organismal development (GO:0007275)	cytoplasmic membrane-bounded vesicle (GO:0016023)|intermediate filament (GO:0005882)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|structural molecule activity (GO:0005198)			autonomic_ganglia(1)|breast(13)|central_nervous_system(5)|cervix(2)|endometrium(38)|haematopoietic_and_lymphoid_tissue(1)|kidney(16)|large_intestine(57)|lung(211)|ovary(13)|pancreas(1)|prostate(15)|skin(24)|stomach(5)|upper_aerodigestive_tract(10)|urinary_tract(12)	424	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCCTCTCAGAATCTTCTGAGT	0.582									Ichthyosis																																							0													197	197	197					1																	152280597		2203	4300	6503	SO:0001819	synonymous_variant	2312	Familial Cancer Database	X-linked Ichthyosis, Steroid Sulfatase Deficiency, Ichthyosis Vulgaris	XM_048104	CCDS30860.1	1q21.3	2013-01-10			ENSG00000143631	ENSG00000143631		"EF-hand domain containing"	3748	protein-coding gene	gene with protein product		135940				2740331, 2248957, 16444271	Standard	NM_002016		Approved		uc001ezu.1	P20930	OTTHUMG00000012202	ENST00000368799.1:c.6765T>C	1.37:g.152280597A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q01720|Q5T583|Q9UC71	Silent	SNP	ENST00000368799.1	37	CCDS30860.1																																																																																				0.582	FLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033742.1	NM_002016		G	152280597	A	G	152280597	2	3	653	1	0	0	0	0	0	0	0	1	5929	98	4	3		3	FLG	1	152280597	Silent	SNP	A	TCGA-KM-8477-01A-11D-2310-10	6686488	152280597	96970024	6	40497										
BIRC6	57448	ucsc.edu	37	chr2	32617105	32617105	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	cataaagtatgtttacttttAgatcactgatgtatagtgaa	7	4	1	3			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr2:32617105A>G	ENST00000421745.2	+	5	973		c.e5-1			NM_016252.3	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat containing 6						apoptotic process (GO:0006915)|labyrinthine layer development (GO:0060711)|mitotic nuclear division (GO:0007067)|negative regulation of apoptotic process (GO:0043066)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|positive regulation of cell proliferation (GO:0008284)|protein phosphorylation (GO:0006468)|protein ubiquitination (GO:0016567)|regulation of cell proliferation (GO:0042127)|regulation of cytokinesis (GO:0032465)|spongiotrophoblast layer development (GO:0060712)	endosome (GO:0005768)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)|midbody (GO:0030496)|spindle pole (GO:0000922)|trans-Golgi network (GO:0005802)	acid-amino acid ligase activity (GO:0016881)|cysteine-type endopeptidase inhibitor activity (GO:0004869)|ubiquitin-protein transferase activity (GO:0004842)			NS(4)|breast(8)|central_nervous_system(3)|endometrium(21)|haematopoietic_and_lymphoid_tissue(1)|kidney(15)|large_intestine(31)|lung(65)|ovary(7)|pancreas(1)|prostate(5)|skin(5)|stomach(1)|urinary_tract(5)	172	Acute lymphoblastic leukemia(172;0.155)					GTTTACTTTTAGATCACTGAT	0.378																																					Pancreas(94;175 1509 16028 18060 45422)											0													48	46	47					2																	32617105		2199	4298	6497	SO:0001630	splice_region_variant	57448			AF265555	CCDS33175.2	2p22.3	2011-01-25	2011-01-25		ENSG00000115760	ENSG00000115760		"Baculoviral IAP repeat containing", "Ubiquitin-conjugating enzymes E2"	13516	protein-coding gene	gene with protein product	"apollon"	605638	"baculoviral IAP repeat-containing 6"			10544019	Standard	NM_016252		Approved	BRUCE	uc010ezu.3	Q9NR09	OTTHUMG00000150528	ENST00000421745.2:c.840-1A>G	2.37:g.32617105A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9ULD1	Splice_Site	SNP	ENST00000421745.2	37	CCDS33175.2	.	.	.	.	.	.	.	.	.	.	A	21.0	4.089774	0.76756	.	.	ENSG00000115760	ENST00000421745	.	.	.	5.93	5.93	0.95920	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.3766	0.83401	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	BIRC6	32470609	1.000000	0.71417	1.000000	0.80357	0.816000	0.46133	9.180000	0.94867	2.263000	0.75096	0.533000	0.62120	.		0.378	BIRC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318769.3	NM_016252	Intron	G	32617105	A	G	32617105	5	3	653	1	0	0	0	0	0	0	1	0	1438	434	15	3	856	3	BIRC6	2	32617105	Splice_Site	SNP	A	TCGA-KM-8477-01A-11D-2310-10		32617105	210582268	7	40498										
DNAH6	1768	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr2	84928427	84928427	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	gagcttatcaatctttacctGtctatgctgtctgaaaaaag	7	8	4	1			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr2:84928427G>T	ENST00000237449.6	+	48	8033	c.8025G>T	c.(8023-8025)ctG>ctT	p.L2675L	DNAH6_ENST00000389394.3_Silent_p.L2675L			Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy chain 6	2675					cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(2)|breast(9)|central_nervous_system(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(3)|lung(14)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	57						ATCTTTACCTGTCTATGCTGT	0.423																																																0													138	114	121					2																	84928427		692	1591	2283	SO:0001819	synonymous_variant	1768			U61736	CCDS46348.1	2p11.2	2011-05-24	2006-09-04		ENSG00000115423	ENSG00000115423		"Axonemal dyneins"	2951	protein-coding gene	gene with protein product		603336	"dynein, axonemal, heavy polypeptide 6", "dynein heavy chain-like 1"	DNHL1		8812413	Standard	NM_001370		Approved	Dnahc6, HL-2, FLJ37357	uc010fgb.3	Q9C0G6	OTTHUMG00000128957	ENST00000237449.6:c.8025G>T	2.37:g.84928427G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJN9|B5MEE0|B7ZL99|O95493|Q53QZ1|Q53TE5|Q8N1W6|Q92861|Q96BL6|Q9H030|Q9H5E1	Silent	SNP	ENST00000237449.6	37	CCDS46348.1																																																																																				0.423	DNAH6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328537.2	NM_001370		T	84928427	G	T	84928427	2	4	653	1	0	0	0	0	0	0	0	1	4607	1364	48	4		4	DNAH6	2	84928427	Silent	SNP	G	TCGA-KM-8477-01A-11D-2310-10	52311322	84928427	158270946	8	40499										
LCT	3938	broad.mit.edu	37	chr2	136555689	136555689	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	cattcttgaaaataggatgtGcaaaccagcctcccatgaac	7	11	1	2			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr2:136555689G>A	ENST00000264162.2	-	13	4896	c.4886C>T	c.(4885-4887)gCa>gTa	p.A1629V		NM_002299.2	NP_002290.2	P09848	LPH_HUMAN	lactase	1629	4 X approximate repeats.				carbohydrate metabolic process (GO:0005975)|polysaccharide digestion (GO:0044245)|small molecule metabolic process (GO:0044281)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	glycosylceramidase activity (GO:0017042)|lactase activity (GO:0000016)			breast(6)|central_nervous_system(3)|cervix(1)|endometrium(8)|kidney(2)|large_intestine(26)|lung(57)|ovary(7)|pancreas(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(4)	124				BRCA - Breast invasive adenocarcinoma(221;0.169)	Vitamin C(DB00126)	AATAGGATGTGCAAACCAGCC	0.567											OREG0014998	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													99	90	93					2																	136555689		2203	4300	6503	SO:0001583	missense	3938			X07994	CCDS2178.1	2q21	2014-09-17			ENSG00000115850	ENSG00000115850	3.2.1.108, 3.2.1.62		6530	protein-coding gene	gene with protein product		603202					Standard	NM_002299		Approved		uc002tuu.1	P09848	OTTHUMG00000131738	ENST00000264162.2:c.4886C>T	2.37:g.136555689G>A	ENSP00000264162:p.Ala1629Val	Somatic	1626	WXS	Illumina HiSeq	Phase_I	Q4ZG58	Missense_Mutation	SNP	ENST00000264162.2	37	CCDS2178.1	.	.	.	.	.	.	.	.	.	.	G	33	5.275201	0.95459	.	.	ENSG00000115850	ENST00000264162	T	0.56275	0.47	5.76	5.76	0.90799	Glycoside hydrolase, subgroup, catalytic domain (1);Glycoside hydrolase, superfamily (1);	0.051426	0.85682	D	0.000000	T	0.65512	0.2698	M	0.80422	2.495	0.80722	D	1	P	0.38535	0.635	B	0.43536	0.423	T	0.69312	-0.5178	10	0.72032	D	0.01	-9.126	19.9759	0.97304	0.0:0.0:1.0:0.0	.	1629	P09848	LPH_HUMAN	V	1629	ENSP00000264162:A1629V	ENSP00000264162:A1629V	A	-	2	0	LCT	136272159	1.000000	0.71417	0.997000	0.53966	0.886000	0.51366	9.859000	0.99545	2.713000	0.92767	0.655000	0.94253	GCA		0.567	LCT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254657.1	NM_002299		A	136555689	G	A	136555689	3	1	653	1	0	0	0	0	1	0	0	0	8700	1319	46	2	917	2	LCT	2	136555689	Missense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10	51627262	136555689	106643684	9	40500										
FZD7	8324	broad.mit.edu	37	chr2	202901005	202901005	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	atcgtcggcatcaccactggCttctggatctggtcgggcaa	12	12	3	0			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr2:202901005C>T	ENST00000286201.1	+	1	1696	c.1635C>T	c.(1633-1635)ggC>ggT	p.G545G	RP11-107N15.1_ENST00000608741.1_lincRNA	NM_003507.1	NP_003498.1	O75084	FZD7_HUMAN	frizzled class receptor 7	545					axonogenesis (GO:0007409)|brain development (GO:0007420)|canonical Wnt signaling pathway (GO:0060070)|cellular response to retinoic acid (GO:0071300)|G-protein coupled receptor signaling pathway coupled to cGMP nucleotide second messenger (GO:0007199)|gonad development (GO:0008406)|mesenchymal to epithelial transition (GO:0060231)|negative regulation of cell-substrate adhesion (GO:0010812)|negative regulation of ectodermal cell fate specification (GO:0042666)|neuron differentiation (GO:0030182)|non-canonical Wnt signaling pathway via JNK cascade (GO:0038031)|positive regulation of epithelial cell proliferation involved in wound healing (GO:0060054)|positive regulation of JNK cascade (GO:0046330)|positive regulation of phosphorylation (GO:0042327)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of catenin import into nucleus (GO:0035412)|regulation of transcription, DNA-templated (GO:0006355)|skeletal muscle satellite cell maintenance involved in skeletal muscle regeneration (GO:0014834)|somatic stem cell division (GO:0048103)|stem cell maintenance (GO:0019827)|substrate adhesion-dependent cell spreading (GO:0034446)|T cell differentiation in thymus (GO:0033077)|vasculature development (GO:0001944)|Wnt signaling pathway, calcium modulating pathway (GO:0007223)	apical part of cell (GO:0045177)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|neuron projection membrane (GO:0032589)|plasma membrane (GO:0005886)	frizzled binding (GO:0005109)|G-protein coupled receptor activity (GO:0004930)|PDZ domain binding (GO:0030165)|Wnt-activated receptor activity (GO:0042813)|Wnt-protein binding (GO:0017147)			breast(1)|endometrium(6)|large_intestine(6)|lung(11)|ovary(2)|skin(3)|upper_aerodigestive_tract(2)	31						TCACCACTGGCTTCTGGATCT	0.637											OREG0015146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													56	58	57					2																	202901005		2203	4299	6502	SO:0001819	synonymous_variant	8324			AB010881	CCDS2351.1	2q33	2014-01-29	2014-01-29		ENSG00000155760	ENSG00000155760		"GPCR / Class F : Frizzled receptors"	4045	protein-coding gene	gene with protein product		603410	"frizzled (Drosophila) homolog 7", "frizzled homolog 7 (Drosophila)", "frizzled 7, seven transmembrane spanning receptor", "frizzled family receptor 7"			9707618, 9813155	Standard	NM_003507		Approved	FzE3	uc002uyw.1	O75084	OTTHUMG00000132841	ENST00000286201.1:c.1635C>T	2.37:g.202901005C>T		Somatic	2133	WXS	Illumina HiSeq	Phase_I	O94816|Q53S59|Q96B74	Silent	SNP	ENST00000286201.1	37	CCDS2351.1																																																																																				0.637	FZD7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256314.1	NM_003507		T	202901005	C	T	202901005	2	4	653	1	0	0	0	0	0	0	0	1	6142	784	28	2		2	FZD7	2	202901005	Silent	SNP	C	TCGA-KM-8477-01A-11D-2310-10	66345316	202901005	40298368	10	40501										
PAK2	5062	mdanderson.org	37	chr3	196529982	196529982	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ggctgtgctggatgtcctaaAgttctacgactccaacacag	10	11	1	0	rs78043821	byFrequency	TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr3:196529982A>G	ENST00000327134.3	+	4	705	c.383A>G	c.(382-384)aAg>aGg	p.K128R		NM_002577.4	NP_002568.2	Q13177	PAK2_HUMAN	p21 protein (Cdc42/Rac)-activated kinase 2	128	Autoregulatory region. {ECO:0000250}.				apoptotic process (GO:0006915)|axon guidance (GO:0007411)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in execution phase of apoptosis (GO:2001271)|negative regulation of protein kinase activity (GO:0006469)|peptidyl-serine phosphorylation (GO:0018105)|phosphorylation (GO:0016310)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein tyrosine kinase activity (GO:0061098)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of apoptotic process (GO:0042981)|regulation of defense response to virus by virus (GO:0050690)|regulation of growth (GO:0040008)|signal transduction (GO:0007165)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)|protein tyrosine kinase activator activity (GO:0030296)			breast(1)|cervix(1)|kidney(2)|large_intestine(1)|lung(4)|ovary(1)|prostate(2)	12	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;6.38e-22)|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;0.00405)		GATGTCCTAAAGTTCTACGAC	0.463																																																0													107	95	99					3																	196529982		2203	4300	6503	SO:0001583	missense	5062			U24153	CCDS3321.1	3q29	2008-06-17	2008-06-17			ENSG00000180370	2.7.11.1		8591	protein-coding gene	gene with protein product	"S6/H4 kinase"	605022	"p21 (CDKN1A)-activated kinase 2"			7744004, 7618083	Standard	NM_002577		Approved	PAK65, PAKgamma	uc003fwy.4	Q13177		ENST00000327134.3:c.383A>G	3.37:g.196529982A>G	ENSP00000314067:p.Lys128Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q13154|Q6ISC3	Missense_Mutation	SNP	ENST00000327134.3	37	CCDS3321.1	.	.	.	.	.	.	.	.	.	.	A	21.6	4.176399	0.78564	.	.	ENSG00000180370	ENST00000327134	D	0.86230	-2.09	5.27	5.27	0.74061	PAK-box/P21-Rho-binding (1);	0.000000	0.85682	D	0.000000	D	0.86990	0.6066	L	0.55743	1.74	0.80722	D	1	P	0.37015	0.578	B	0.43155	0.41	D	0.86926	0.2070	10	0.48119	T	0.1	.	14.3609	0.66771	1.0:0.0:0.0:0.0	.	128	Q13177	PAK2_HUMAN	R	128	ENSP00000314067:K128R	ENSP00000314067:K128R	K	+	2	0	PAK2	198014379	1.000000	0.71417	0.990000	0.47175	0.859000	0.49053	6.986000	0.76200	2.002000	0.58637	0.460000	0.39030	AAG		0.463	PAK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340548.1	NM_002577		G	196529982	A	G	196529982	3	3	653	1	0	0	0	0	1	0	0	0	11408	72	3	3	393	3	PAK2	3	196529982	Missense_Mutation	SNP	A	TCGA-KM-8477-01A-11D-2310-10		196529982	1492448	11	40502										
WDFY3	23001	broad.mit.edu	37	chr4	85630103	85630103	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	gatccaggggaagacaggatActgcatgagatcattatatg	12	6	1	2			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr4:85630103A>G	ENST00000295888.4	-	53	8583	c.8176T>C	c.(8176-8178)Tat>Cat	p.Y2726H	WDFY3_ENST00000322366.6_Missense_Mutation_p.Y2709H	NM_014991.4	NP_055806.2	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3	2726	BEACH. {ECO:0000255|PROSITE- ProRule:PRU00026}.|Interaction with SQSTM1.|Sufficient for translocalization to p62 bodies/ALIS.				aggrephagy (GO:0035973)|positive regulation of macroautophagy (GO:0016239)	autophagic vacuole (GO:0005776)|cytoplasm (GO:0005737)|extrinsic component of membrane (GO:0019898)|inclusion body (GO:0016234)|nuclear envelope (GO:0005635)|PML body (GO:0016605)	1-phosphatidylinositol binding (GO:0005545)|beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity (GO:0003831)|metal ion binding (GO:0046872)			breast(5)|central_nervous_system(5)|endometrium(15)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(32)|lung(50)|ovary(3)|prostate(5)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	134		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		AAGACAGGATACTGCATGAGA	0.338																																																0													102	104	103					4																	85630103		2203	4300	6503	SO:0001583	missense	23001			AB023210	CCDS3609.1	4q21.3	2013-01-09			ENSG00000163625	ENSG00000163625		"Zinc fingers, FYVE domain containing", "WD repeat domain containing"	20751	protein-coding gene	gene with protein product						10231032	Standard	NM_014991		Approved	KIAA0993, ALFY, ZFYVE25	uc003hpd.3	Q8IZQ1	OTTHUMG00000130424	ENST00000295888.4:c.8176T>C	4.37:g.85630103A>G	ENSP00000295888:p.Tyr2726His	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5K5|Q6P0Q5|Q8N1T2|Q8NAV6|Q96BS7|Q96D33|Q96N85|Q9Y2J7	Missense_Mutation	SNP	ENST00000295888.4	37	CCDS3609.1	.	.	.	.	.	.	.	.	.	.	A	25.4	4.629736	0.87660	.	.	ENSG00000163625	ENST00000322366;ENST00000295888;ENST00000514711	D;D;D	0.90955	-2.76;-2.76;-2.76	5.41	5.41	0.78517	BEACH domain (4);	0.114190	0.64402	D	0.000008	D	0.94456	0.8216	M	0.67953	2.075	0.80722	D	1	D	0.89917	1.0	D	0.79784	0.993	D	0.94834	0.7999	10	0.66056	D	0.02	.	15.6304	0.76904	1.0:0.0:0.0:0.0	.	2726	Q8IZQ1	WDFY3_HUMAN	H	2709;2726;329	ENSP00000318466:Y2709H;ENSP00000295888:Y2726H;ENSP00000424987:Y329H	ENSP00000295888:Y2726H	Y	-	1	0	WDFY3	85849127	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.083000	0.94067	2.279000	0.76181	0.528000	0.53228	TAT		0.338	WDFY3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252811.2	NM_014991		G	85630103	A	G	85630103	3	3	653	1	0	0	0	0	1	0	0	0	17282	391	14	3	2468	3	WDFY3	4	85630103	Missense_Mutation	SNP	A	TCGA-KM-8477-01A-11D-2310-10		85630103	105524173	12	40503										
CEP72	55722	hgsc.bcm.edu	37	chr5	612536	612536	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	gcggttcgggcgaagagcggCttagggcctcaccgcgacct	16	13	1	1	rs545143344	byFrequency	TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr5:612536C>T	ENST00000264935.5	+	1	150	c.60C>T	c.(58-60)ggC>ggT	p.G20G	RP11-310P5.1_ENST00000506629.1_RNA|CEP72_ENST00000444221.1_Silent_p.G20G	NM_018140.3	NP_060610.2	Q9P209	CEP72_HUMAN	centrosomal protein 72kDa	20					G2/M transition of mitotic cell cycle (GO:0000086)|gamma-tubulin complex localization (GO:0033566)|mitotic cell cycle (GO:0000278)|spindle organization (GO:0007051)	centrosome (GO:0005813)|cytosol (GO:0005829)				autonomic_ganglia(1)|central_nervous_system(1)|cervix(1)|endometrium(1)|large_intestine(1)|liver(1)|lung(5)|ovary(2)|prostate(3)|skin(1)|stomach(1)|urinary_tract(2)	20			Epithelial(17;0.000339)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|Lung(60;0.0863)			CGAAGAGCGGCTTAGGGCCTC	0.771													C|||	27	0.00539137	0.0197	0.0014	5008	,	,		5075	0.0		0.0	False		,,,				2504	0.0															0													4	4	4					5																	612536		1488	2785	4273	SO:0001819	synonymous_variant	55722			BC000132	CCDS34126.1	5p15.33	2014-02-20			ENSG00000112877	ENSG00000112877			25547	protein-coding gene	gene with protein product						10819331	Standard	NM_018140		Approved	KIAA1519, FLJ10565	uc003jbf.3	Q9P209	OTTHUMG00000161745	ENST00000264935.5:c.60C>T	5.37:g.612536C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DR26|Q9BV03|Q9BWM3|Q9NVR4	Silent	SNP	ENST00000264935.5	37	CCDS34126.1																																																																																				0.771	CEP72-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000365967.3	NM_018140		T	612536	C	T	612536	2	4	653	1	0	0	0	0	0	0	0	1	3262	784	28	2		2	CEP72	5	612536	Silent	SNP	C	TCGA-KM-8477-01A-11D-2310-10		612536	180302724	13	40504										
RXFP3	51289	broad.mit.edu	37	chr5	33937368	33937368	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ccagcgtgttcttcctcactGccatgagtgtgacgcgctac	10	14	2	2			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr5:33937368G>A	ENST00000330120.3	+	1	878	c.523G>A	c.(523-525)Gcc>Acc	p.A175T		NM_016568.3	NP_057652.1	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	175					G-protein coupled receptor signaling pathway (GO:0007186)|positive regulation of cytokinesis (GO:0032467)|positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G-protein coupled signaling pathway (GO:0051482)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled peptide receptor activity (GO:0008528)|G-protein coupled receptor activity (GO:0004930)			endometrium(4)|large_intestine(9)|lung(24)|ovary(1)|skin(1)|upper_aerodigestive_tract(3)	42						CTTCCTCACTGCCATGAGTGT	0.617																																																0													92	88	89					5																	33937368		2203	4300	6503	SO:0001583	missense	51289			D88437	CCDS3900.1	5p15.1-p14	2012-08-08	2006-05-09	2006-03-15	ENSG00000182631	ENSG00000182631		"GPCR / Class A : Relaxin family peptide receptors"	24883	protein-coding gene	gene with protein product		609445	"relaxin 3 receptor 1", "relaxin family peptide receptor 3"	RLN3R1		15956688, 16507880	Standard	NM_016568		Approved	SALPR, GPCR135, RXFPR3	uc003jic.2	Q9NSD7	OTTHUMG00000090685	ENST00000330120.3:c.523G>A	5.37:g.33937368G>A	ENSP00000328708:p.Ala175Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q14DA5	Missense_Mutation	SNP	ENST00000330120.3	37	CCDS3900.1	.	.	.	.	.	.	.	.	.	.	G	22.6	4.315132	0.81358	.	.	ENSG00000182631	ENST00000330120	T	0.19806	2.12	5.53	1.51	0.23008	GPCR, rhodopsin-like superfamily (1);	0.161807	0.53938	D	0.000044	T	0.42787	0.1218	M	0.85462	2.755	0.41941	D	0.990619	P	0.38250	0.624	P	0.52758	0.708	T	0.33879	-0.9851	10	0.37606	T	0.19	-20.1582	13.2994	0.60315	0.0:0.0959:0.7683:0.1358	.	175	Q9NSD7	RL3R1_HUMAN	T	175	ENSP00000328708:A175T	ENSP00000328708:A175T	A	+	1	0	RXFP3	33973125	1.000000	0.71417	0.685000	0.30070	0.955000	0.61496	3.155000	0.50700	-0.026000	0.13895	0.650000	0.86243	GCC		0.617	RXFP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207369.1	NM_016568		A	33937368	G	A	33937368	3	1	653	1	0	0	0	0	1	0	0	0	13774	1319	46	2	525	2	RXFP3	5	33937368	Missense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10	33324832	33937368	146977892	14	40505										
LRRTM2	26045	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr5	138209476	138209476	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	atttcatttccagtcaggtcTagcttttctaaagtgcccca	6	11	4	0			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr5:138209476T>G	ENST00000274711.6	-	2	1152	c.774A>C	c.(772-774)ctA>ctC	p.L258L	CTNNA1_ENST00000520400.1_Intron|LRRTM2_ENST00000518785.1_3'UTR|LRRTM2_ENST00000521094.2_Intron|CTNNA1_ENST00000540387.1_5'Flank|LRRTM2_ENST00000523537.1_5'Flank|CTNNA1_ENST00000355078.5_Intron|CTNNA1_ENST00000302763.7_Intron|CTNNA1_ENST00000518825.1_Intron	NM_015564.2	NP_056379.1	O43300	LRRT2_HUMAN	leucine rich repeat transmembrane neuronal 2	258					long-term synaptic potentiation (GO:0060291)|negative regulation of receptor internalization (GO:0002091)|synapse organization (GO:0050808)	cell junction (GO:0030054)|excitatory synapse (GO:0060076)|integral component of membrane (GO:0016021)|postsynaptic membrane (GO:0045211)				NS(1)|breast(1)|endometrium(4)|kidney(1)|large_intestine(7)|lung(1)|urinary_tract(1)	16			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CAGTCAGGTCTAGCTTTTCTA	0.438																																																0													311	303	306					5																	138209476		1926	4143	6069	SO:0001819	synonymous_variant	26045			AB007876	CCDS47272.1	5q31	2008-02-05				ENSG00000146006			19409	protein-coding gene	gene with protein product		610868				12676565	Standard	NM_015564		Approved	KIAA0416	uc011cyz.1	O43300		ENST00000274711.6:c.774A>C	5.37:g.138209476T>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0AVL3|A8K4U9|B7ZLN8|Q7L770	Silent	SNP	ENST00000274711.6	37	CCDS47272.1																																																																																				0.438	LRRTM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374043.2			G	138209476	T	G	138209476	2	3	653	1	0	0	0	0	0	0	0	1	9047	1509	53	5		5	LRRTM2	5	138209476	Silent	SNP	T	TCGA-KM-8477-01A-11D-2310-10	104272108	138209476	42705784	15	40506										
GTF2H4	2968	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr6	30879492	30879492	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ggaaggtatgagtgattctcTgttgaacttcctgcaacatc	10	8	1	3			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr6:30879492T>A	ENST00000259895.4	+	9	996	c.773T>A	c.(772-774)cTg>cAg	p.L258Q	VARS2_ENST00000321897.5_5'Flank|VARS2_ENST00000542001.1_5'Flank|VARS2_ENST00000416670.2_5'Flank|GTF2H4_ENST00000376316.2_Missense_Mutation_p.L258Q|VARS2_ENST00000541562.1_5'Flank|GTF2H4_ENST00000539324.1_Missense_Mutation_p.L202Q	NM_001517.4	NP_001508.1	Q92759	TF2H4_HUMAN	general transcription factor IIH, polypeptide 4, 52kDa	258					7-methylguanosine mRNA capping (GO:0006370)|ATP catabolic process (GO:0006200)|DNA repair (GO:0006281)|gene expression (GO:0010467)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair, DNA damage removal (GO:0000718)|positive regulation of viral transcription (GO:0050434)|protein phosphorylation (GO:0006468)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase I promoter (GO:0006360)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase I promoter (GO:0006361)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription-coupled nucleotide-excision repair (GO:0006283)|viral process (GO:0016032)	core TFIIH complex (GO:0000439)|holo TFIIH complex (GO:0005675)|nucleoplasm (GO:0005654)	ATP-dependent DNA helicase activity (GO:0004003)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(3)|lung(3)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	11						AGTGATTCTCTGTTGAACTTC	0.498								Nucleotide excision repair (NER)																																								0													117	109	111					6																	30879492		1511	2709	4220	SO:0001583	missense	2968			Y07595	CCDS34386.1	6p21.3	2012-11-05	2002-08-29		ENSG00000213780	ENSG00000213780		"General transcription factors", "General transcription factor IIH complex subunits"	4658	protein-coding gene	gene with protein product		601760	"general transcription factor IIH, polypeptide 4 (52kD subunit)"			9118947	Standard	NM_001517		Approved	TFB2, TFIIH, P52	uc003nsa.1	Q92759	OTTHUMG00000031043	ENST00000259895.4:c.773T>A	6.37:g.30879492T>A	ENSP00000259895:p.Leu258Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTJ5|Q76KU4	Missense_Mutation	SNP	ENST00000259895.4	37	CCDS34386.1	.	.	.	.	.	.	.	.	.	.	T	15.75	2.925877	0.52759	.	.	ENSG00000213780	ENST00000259895;ENST00000539324;ENST00000376316	T;T;T	0.35789	1.29;1.29;1.29	5.42	5.42	0.78866	.	0.000000	0.56097	U	0.000028	T	0.07728	0.0194	N	0.05230	-0.09	0.80722	D	1	P;P;P;P	0.40681	0.727;0.528;0.528;0.528	B;B;B;B	0.37601	0.254;0.214;0.214;0.214	T	0.11991	-1.0565	10	0.10377	T	0.69	0.0	13.4215	0.61001	0.0:0.0:0.0:1.0	.	264;202;258;258	B4DNU0;B4DTJ5;Q53HH3;Q92759	.;.;.;TF2H4_HUMAN	Q	258;202;258	ENSP00000259895:L258Q;ENSP00000442700:L202Q;ENSP00000365493:L258Q	ENSP00000259895:L258Q	L	+	2	0	GTF2H4	30987471	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.389000	0.79806	2.050000	0.60909	0.533000	0.62120	CTG		0.498	GTF2H4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076044.3	NM_001517		A	30879492	T	A	30879492	3	1	653	1	0	0	0	0	1	0	0	0	6872	1580	55	5	803	5	GTF2H4	6	30879492	Missense_Mutation	SNP	T	TCGA-KM-8477-01A-11D-2310-10		30879492	140235575	16	40507										
DDX56	54606	broad.mit.edu	37	chr7	44611269	44611269	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	tttgtcttcctcagtctcacAgaccacctgaaactgctgta	6	13	3	2			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr7:44611269A>G	ENST00000258772.5	-	6	818	c.712T>C	c.(712-714)Tgt>Cgt	p.C238R	DDX56_ENST00000431640.1_Missense_Mutation_p.C238R|DDX56_ENST00000485367.1_5'UTR	NM_001257189.1|NM_019082.3	NP_001244118.1|NP_061955.1	Q9NY93	DDX56_HUMAN	DEAD (Asp-Glu-Ala-Asp) box helicase 56	238	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				ATP catabolic process (GO:0006200)|rRNA processing (GO:0006364)	membrane (GO:0016020)|nucleolus (GO:0005730)	ATP binding (GO:0005524)|ATP-dependent RNA helicase activity (GO:0004004)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(5)|lung(5)|upper_aerodigestive_tract(1)	16						TCAGTCTCACAGACCACCTGA	0.522																																																0													81	70	73					7																	44611269		2203	4300	6503	SO:0001583	missense	54606			AJ131712	CCDS5492.1, CCDS59053.1	7p13	2012-02-23	2012-02-23		ENSG00000136271	ENSG00000136271		"DEAD-boxes"	18193	protein-coding gene	gene with protein product	"nucleolar helicase of 61 kDa"	608023	"DEAD (Asp-Glu-Ala-Asp) box polypeptide 56"			10749921	Standard	NM_019082		Approved	NOH61	uc003tlg.4	Q9NY93	OTTHUMG00000129211	ENST00000258772.5:c.712T>C	7.37:g.44611269A>G	ENSP00000258772:p.Cys238Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2K9|C9JV95|Q6IAE2|Q9H9I8	Missense_Mutation	SNP	ENST00000258772.5	37	CCDS5492.1	.	.	.	.	.	.	.	.	.	.	.	23.3	4.403569	0.83230	.	.	ENSG00000136271	ENST00000258772;ENST00000431640	T;T	0.04119	3.7;3.75	5.82	5.82	0.92795	Helicase, C-terminal (1);	0.000000	0.85682	D	0.000000	T	0.19525	0.0469	M	0.76938	2.355	0.80722	D	1	D;D	0.69078	0.985;0.997	D;P	0.64237	0.923;0.887	T	0.00391	-1.1769	10	0.41790	T	0.15	-11.8194	14.1208	0.65186	1.0:0.0:0.0:0.0	.	238;238	C9JV95;Q9NY93	.;DDX56_HUMAN	R	238	ENSP00000258772:C238R;ENSP00000393488:C238R	ENSP00000258772:C238R	C	-	1	0	DDX56	44577794	1.000000	0.71417	1.000000	0.80357	0.969000	0.65631	6.718000	0.74713	2.214000	0.71695	0.460000	0.39030	TGT		0.522	DDX56-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251291.1	NM_019082		G	44611269	A	G	44611269	3	3	653	1	0	0	0	0	1	0	0	0	4376	188	7	3	967	3	DDX56	7	44611269	Missense_Mutation	SNP	A	TCGA-KM-8477-01A-11D-2310-10		44611269	114527394	17	40508										
ASB4	51666	broad.mit.edu	37	chr7	95166910	95166910	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	gggatttttaccactctctcTttactgtgtgctgtaactct	7	10	3	0			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr7:95166910T>C	ENST00000325885.5	+	5	1191	c.1120T>C	c.(1120-1122)Ttt>Ctt	p.F374L		NM_016116.2	NP_057200.1	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box containing 4	374	SOCS box. {ECO:0000255|PROSITE- ProRule:PRU00194}.				intracellular signal transduction (GO:0035556)|positive regulation of vasculogenesis (GO:2001214)|protein autoubiquitination (GO:0051865)	Cul2-RING ubiquitin ligase complex (GO:0031462)|Cul5-RING ubiquitin ligase complex (GO:0031466)	ubiquitin-protein transferase activity (GO:0004842)			central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(8)|pancreas(1)|prostate(1)|skin(2)	20	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)			CCACTCTCTCTTTACTGTGTG	0.398																																																0													166	156	160					7																	95166910		2203	4300	6503	SO:0001583	missense	51666			AF156779	CCDS5641.1, CCDS5642.1	7q21-q22	2013-01-10	2011-01-25		ENSG00000005981	ENSG00000005981		"Ankyrin repeat domain containing"	16009	protein-coding gene	gene with protein product		605761	"ankyrin repeat and SOCS box-containing 4"				Standard	NM_145872		Approved	ASB-4	uc011kij.2	Q9Y574	OTTHUMG00000153960	ENST00000325885.5:c.1120T>C	7.37:g.95166910T>C	ENSP00000321388:p.Phe374Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1H6|O14586|Q14D68|Q8TBT2	Missense_Mutation	SNP	ENST00000325885.5	37	CCDS5641.1	.	.	.	.	.	.	.	.	.	.	T	17.97	3.518046	0.64634	.	.	ENSG00000005981	ENST00000325885	T	0.27256	1.68	5.05	5.05	0.67936	.	0.120873	0.64402	D	0.000010	T	0.32436	0.0829	L	0.39514	1.22	0.80722	D	1	P	0.51147	0.942	P	0.51016	0.656	T	0.03221	-1.1059	10	0.46703	T	0.11	-31.2114	15.1364	0.72569	0.0:0.0:0.0:1.0	.	374	Q9Y574	ASB4_HUMAN	L	374	ENSP00000321388:F374L	ENSP00000321388:F374L	F	+	1	0	ASB4	95004846	1.000000	0.71417	1.000000	0.80357	0.940000	0.58332	6.071000	0.71229	2.039000	0.60335	0.533000	0.62120	TTT		0.398	ASB4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333225.2	NM_016116		C	95166910	T	C	95166910	3	2	653	1	0	0	0	0	1	0	0	0	1025	1609	56	3	1210	3	ASB4	7	95166910	Missense_Mutation	SNP	T	TCGA-KM-8477-01A-11D-2310-10	50555641	95166910	63971753	18	40509										
AHCYL2	23382	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	129037098	129037098	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ctgggtgctctgggggcccaGtgccgatgggctgcctgcaa	17	12	1	0			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr7:129037098G>T	ENST00000325006.3	+	5	810	c.756G>T	c.(754-756)caG>caT	p.Q252H	AHCYL2_ENST00000446544.2_Missense_Mutation_p.Q251H|AHCYL2_ENST00000446212.1_Missense_Mutation_p.Q150H|AHCYL2_ENST00000531335.2_Missense_Mutation_p.Q171H|AHCYL2_ENST00000472554.1_3'UTR|AHCYL2_ENST00000474594.1_Missense_Mutation_p.Q149H|AHCYL2_ENST00000490911.1_Missense_Mutation_p.Q149H	NM_001130720.2|NM_015328.3	NP_001124192.1|NP_056143.1	Q96HN2	SAHH3_HUMAN	adenosylhomocysteinase-like 2	252					one-carbon metabolic process (GO:0006730)		adenosylhomocysteinase activity (GO:0004013)			breast(1)|endometrium(3)|kidney(2)|large_intestine(9)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	22						TGGGGGCCCAGTGCCGATGGG	0.493																																					Pancreas(160;1736 1964 29875 40941 45605)											0													97	95	96					7																	129037098		2203	4300	6503	SO:0001583	missense	23382			AB020635	CCDS5812.1, CCDS47706.1, CCDS47707.1, CCDS47708.1, CCDS47707.2	7q32.1	2009-06-12	2009-06-12		ENSG00000158467	ENSG00000158467			22204	protein-coding gene	gene with protein product			"S-adenosylhomocysteine hydrolase-like 2"				Standard	NM_001130720		Approved	KIAA0828	uc011kov.2	Q96HN2	OTTHUMG00000157677	ENST00000325006.3:c.756G>T	7.37:g.129037098G>T	ENSP00000315931:p.Gln252His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DIZ5|D9N155|O94917	Missense_Mutation	SNP	ENST00000325006.3	37	CCDS5812.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	27.2|27.2	4.812740|4.812740	0.90707|0.90707	.|.	.|.	ENSG00000158467|ENSG00000158467	ENST00000325006;ENST00000446544;ENST00000531335;ENST00000474594;ENST00000446212;ENST00000490911;ENST00000466993|ENST00000466924	T;T;T;T;T;T;T|.	0.77620|.	-1.11;-1.11;-1.11;-1.11;-1.11;-1.11;-1.08|.	5.27|5.27	5.27|5.27	0.74061|0.74061	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	D|D	0.83977|0.83977	0.5371|0.5371	M|M	0.89214|0.89214	3.015|3.015	0.58432|0.58432	D|D	0.999997|0.999997	P;P;P;P;P|.	0.52577|.	0.878;0.878;0.954;0.878;0.943|.	P;P;P;P;P|.	0.57009|.	0.71;0.71;0.811;0.71;0.713|.	D|D	0.86448|0.86448	0.1771|0.1771	10|5	0.87932|.	D|.	0|.	-9.8208|-9.8208	17.8185|17.8185	0.88643|0.88643	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	149;150;252;149;251|.	B4DIZ5;D7UEQ7;Q96HN2;D9N155;Q96HN2-2|.	.;.;SAHH3_HUMAN;.;.|.	H|I	252;251;171;149;150;149;150|159	ENSP00000315931:Q252H;ENSP00000413639:Q251H;ENSP00000431787:Q171H;ENSP00000420459:Q149H;ENSP00000405267:Q150H;ENSP00000420801:Q149H;ENSP00000419608:Q150H|.	ENSP00000315931:Q252H|.	Q|S	+|+	3|2	2|0	AHCYL2|AHCYL2	128824334|128824334	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.985000|0.985000	0.73830|0.73830	5.386000|5.386000	0.66238|0.66238	2.631000|2.631000	0.89168|0.89168	0.650000|0.650000	0.86243|0.86243	CAG|AGT		0.493	AHCYL2-012	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000354065.1			T	129037098	G	T	129037098	3	4	653	1	0	0	0	0	1	0	0	0	411	1020	36	4	896	4	AHCYL2	7	129037098	Missense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10	33870188	129037098	30101565	19	40510										
EBF2	64641	broad.mit.edu	37	chr8	25744302	25744302	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	aaccttcctggggctcctttGcagaactgtttagatttata	8	9	0	2			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr8:25744302G>T	ENST00000520164.1	-	10	1515	c.978C>A	c.(976-978)tgC>tgA	p.C326*	EBF2_ENST00000535548.1_Nonsense_Mutation_p.C57*|EBF2_ENST00000408929.3_Nonsense_Mutation_p.C178*	NM_022659.3	NP_073150.2	Q9HAK2	COE2_HUMAN	early B-cell factor 2	326	IPT/TIG.				adipose tissue development (GO:0060612)|brown fat cell differentiation (GO:0050873)|cell fate determination (GO:0001709)|positive regulation of chromatin binding (GO:0035563)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(3)|kidney(2)|large_intestine(3)|lung(22)|ovary(3)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	39		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		GGGCTCCTTTGCAGAACTGTT	0.493																																					Esophageal Squamous(166;1018 1046 3854 8328 13429 13634 14071 26624 32918)											0													100	96	98					8																	25744302		1860	4106	5966	SO:0001587	stop_gained	64641			AK021562, AK001144	CCDS43726.1	8p21.1	2007-07-26			ENSG00000221818	ENSG00000221818			19090	protein-coding gene	gene with protein product		609934				9151732	Standard	NM_022659		Approved	FLJ11500, COE2	uc003xes.2	Q9HAK2	OTTHUMG00000163838	ENST00000520164.1:c.978C>A	8.37:g.25744302G>T	ENSP00000430241:p.Cys326*	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJM4|A6NMF7|F5H645|Q66VZ3|Q6DK36|Q6IS86|Q6ISA4	Nonsense_Mutation	SNP	ENST00000520164.1	37	CCDS43726.1	.	.	.	.	.	.	.	.	.	.	G	41	9.069919	0.99055	.	.	ENSG00000221818	ENST00000520164;ENST00000408929;ENST00000535548	.	.	.	5.58	5.58	0.84498	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-22.803	19.5831	0.95478	0.0:0.0:1.0:0.0	.	.	.	.	X	326;178;57	.	ENSP00000386178:C178X	C	-	3	2	EBF2	25800219	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	5.479000	0.66813	2.641000	0.89580	0.563000	0.77884	TGC		0.493	EBF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375886.2	NM_022659		T	25744302	G	T	25744302	4	4	653	1	0	0	0	0	0	1	0	0	4883	1311	46	4	777	4	EBF2	8	25744302	Nonsense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10		25744302	120619720	20	40511										
RDH10	157506	broad.mit.edu	37	chr8	74235228	74235228	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	gtacccctttattgctcaaaGaaagcaagccacaaacaata	5	11	1	1			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr8:74235228G>A	ENST00000240285.5	+	6	1661	c.983G>A	c.(982-984)aGa>aAa	p.R328K	RP11-434I12.2_ENST00000517475.1_RNA|RDH10_ENST00000519380.1_Missense_Mutation_p.R163K|RP11-434I12.2_ENST00000514599.1_RNA	NM_172037.4	NP_742034.1	Q8IZV5	RDH10_HUMAN	retinol dehydrogenase 10 (all-trans)	328					bud elongation involved in lung branching (GO:0060449)|ear development (GO:0043583)|embryonic camera-type eye development (GO:0031076)|embryonic forelimb morphogenesis (GO:0035115)|embryonic viscerocranium morphogenesis (GO:0048703)|gonad development (GO:0008406)|in utero embryonic development (GO:0001701)|metanephros development (GO:0001656)|neural crest cell development (GO:0014032)|nose development (GO:0043584)|phototransduction, visible light (GO:0007603)|primary lung bud formation (GO:0060431)|retinal metabolic process (GO:0042574)|retinoic acid biosynthetic process (GO:0002138)|retinoid metabolic process (GO:0001523)|retinol metabolic process (GO:0042572)|visual perception (GO:0007601)	cell body (GO:0044297)|cytoplasm (GO:0005737)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	NADP-retinol dehydrogenase activity (GO:0052650)|retinol dehydrogenase activity (GO:0004745)			breast(1)|endometrium(1)|large_intestine(3)|lung(5)|skin(1)	11	Breast(64;0.0954)		Epithelial(68;0.0105)|all cancers(69;0.0465)|BRCA - Breast invasive adenocarcinoma(89;0.0608)			ATTGCTCAAAGAAAGCAAGCC	0.383																																																0													65	59	61					8																	74235228		2203	4300	6503	SO:0001583	missense	157506			AF456765	CCDS6213.1	8q21.11	2011-09-20			ENSG00000121039	ENSG00000121039	1.1.1.-	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 3"	19975	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 16C, member 4"	607599				12407145, 19027726	Standard	NM_172037		Approved	SDR16C4	uc003xzi.3	Q8IZV5	OTTHUMG00000164492	ENST00000240285.5:c.983G>A	8.37:g.74235228G>A	ENSP00000240285:p.Arg328Lys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000240285.5	37	CCDS6213.1	.	.	.	.	.	.	.	.	.	.	G	11.31	1.600327	0.28534	.	.	ENSG00000121039	ENST00000240285;ENST00000519380	D;T	0.83837	-1.77;0.03	5.55	5.55	0.83447	.	0.000000	0.85682	D	0.000000	T	0.69602	0.3129	N	0.16201	0.385	0.49389	D	0.999784	B	0.18166	0.026	B	0.12837	0.008	T	0.65541	-0.6143	10	0.02654	T	1	.	19.7069	0.96076	0.0:0.0:1.0:0.0	.	328	Q8IZV5	RDH10_HUMAN	K	328;163	ENSP00000240285:R328K;ENSP00000428132:R163K	ENSP00000240285:R328K	R	+	2	0	RDH10	74397782	1.000000	0.71417	0.995000	0.50966	0.987000	0.75469	7.743000	0.85020	2.894000	0.99253	0.591000	0.81541	AGA		0.383	RDH10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378982.1			A	74235228	G	A	74235228	3	1	653	1	0	0	0	0	1	0	0	0	13202	942	33	2	1005	2	RDH10	8	74235228	Missense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10	48490926	74235228	72128794	21	40512										
NCALD	83988	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr8	102705065	102705065	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	aagatcttttctgttcttttCtctggggttgactcatcttc	7	9	6	2			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr8:102705065C>T	ENST00000311028.3	-	6	816	c.438G>A	c.(436-438)gaG>gaA	p.E146E	NCALD_ENST00000522951.1_Silent_p.E146E|NCALD_ENST00000395923.1_Silent_p.E146E|NCALD_ENST00000521599.1_Silent_p.E146E|NCALD_ENST00000220931.6_Silent_p.E146E|NCALD_ENST00000519508.2_Silent_p.E146E	NM_001040624.1|NM_001040626.1	NP_001035714.1|NP_001035716.1	P61601	NCALD_HUMAN	neurocalcin delta	146	EF-hand 4. {ECO:0000255|PROSITE- ProRule:PRU00448}.				calcium-mediated signaling (GO:0019722)|regulation of systemic arterial blood pressure (GO:0003073)|synaptic transmission (GO:0007268)|vesicle-mediated transport (GO:0016192)	clathrin coat of trans-Golgi network vesicle (GO:0030130)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)	actin binding (GO:0003779)|calcium ion binding (GO:0005509)|clathrin binding (GO:0030276)|tubulin binding (GO:0015631)			endometrium(1)|large_intestine(2)|lung(4)|prostate(1)	8	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)			CTGTTCTTTTCTCTGGGGTTG	0.493																																																0													166	155	159					8																	102705065		2203	4300	6503	SO:0001819	synonymous_variant	83988			AF052142	CCDS6292.1	8q22.3	2014-08-12			ENSG00000104490	ENSG00000104490		"EF-hand domain containing"	7655	protein-coding gene	gene with protein product		606722				11267673	Standard	XM_006716672		Approved		uc003ykk.3	P61601	OTTHUMG00000164876	ENST00000311028.3:c.438G>A	8.37:g.102705065C>T		Somatic		WXS	Illumina HiSeq	Phase_I	P29554|Q8IYC3|Q9H0W2	Silent	SNP	ENST00000311028.3	37	CCDS6292.1																																																																																				0.493	NCALD-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380732.2			T	102705065	C	T	102705065	2	4	653	1	0	0	0	0	0	0	0	1	10208	912	32	2		2	NCALD	8	102705065	Silent	SNP	C	TCGA-KM-8477-01A-11D-2310-10	28469837	102705065	43658957	22	40513										
DPYS	1807	mdanderson.org	37	chr8	105478933	105478933	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	gaccgcgagcccatgaagggGaactgcatgtgcgtgtgtgt	16	9	0	1	rs2298840	byFrequency	TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr8:105478933G>A	ENST00000351513.2	-	1	348	c.216C>T	c.(214-216)ttC>ttT	p.F72F		NM_001385.2	NP_001376.1	Q14117	DPYS_HUMAN	dihydropyrimidinase	72					beta-alanine metabolic process (GO:0019482)|nucleobase-containing small molecule metabolic process (GO:0055086)|protein homotetramerization (GO:0051289)|pyrimidine nucleobase catabolic process (GO:0006208)|pyrimidine nucleobase metabolic process (GO:0006206)|pyrimidine nucleoside catabolic process (GO:0046135)|small molecule metabolic process (GO:0044281)|thymine catabolic process (GO:0006210)|uracil catabolic process (GO:0006212)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	amino acid binding (GO:0016597)|dihydropyrimidinase activity (GO:0004157)|thymine binding (GO:0002059)|uracil binding (GO:0002058)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|endometrium(2)|kidney(2)|large_intestine(7)|lung(23)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	41			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CCATGAAGGGGAACTGCATGT	0.736													G|||	1160	0.231629	0.2867	0.2133	5008	,	,		9267	0.3085		0.175	False		,,,				2504	0.1493															0								G		728,2942		64,600,1171	18	11	14		216	3	1	8	dbSNP_100	14	1026,5972		73,880,2546	no	coding-synonymous	DPYS	NM_001385.2		137,1480,3717	AA,AG,GG		14.6613,19.8365,16.4417		72/520	105478933	1754,8914	1835	3499	5334	SO:0001819	synonymous_variant	1807			D78011	CCDS6302.1	8q22	2004-01-22			ENSG00000147647	ENSG00000147647			3013	protein-coding gene	gene with protein product		613326				8973361	Standard	NM_001385		Approved	DHPase	uc003yly.4	Q14117	OTTHUMG00000164891	ENST00000351513.2:c.216C>T	8.37:g.105478933G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000351513.2	37	CCDS6302.1																																																																																				0.736	DPYS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380814.1	NM_001385		A	105478933	G	A	105478933	2	1	653	1	0	0	0	0	0	0	0	1	4748	1165	41	2		2	DPYS	8	105478933	Silent	SNP	G	TCGA-KM-8477-01A-11D-2310-10	2773868	105478933	40885089	23	40514										
PRUNE2	158471	hgsc.bcm.edu	37	chr9	79324154	79324154	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	gatgactgttgcagtgactgAggaggaatgtcagtctcctc	13	8	2	3			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr9:79324154A>T	ENST00000376718.3	-	8	3159	c.3036T>A	c.(3034-3036)ccT>ccA	p.P1012P	PRUNE2_ENST00000428286.1_Silent_p.P653P	NM_015225.2	NP_056040.2	Q8WUY3	PRUN2_HUMAN	prune homolog 2 (Drosophila)	1012					apoptotic process (GO:0006915)	cytoplasm (GO:0005737)	metal ion binding (GO:0046872)|pyrophosphatase activity (GO:0016462)			endometrium(1)|kidney(4)|large_intestine(3)|lung(7)|prostate(1)	16						GCAGTGACTGAGGAGGAATGT	0.443																																																0													121	94	102					9																	79324154		1568	3582	5150	SO:0001819	synonymous_variant	158471			BC019095	CCDS47982.1	9q21.32	2013-04-29	2006-11-24	2006-11-24	ENSG00000106772	ENSG00000106772			25209	protein-coding gene	gene with protein product	"olfaxin"	610691	"chromosome 9 open reading frame 65", "KIAA0367"	C9orf65, KIAA0367		16288218	Standard	NM_015225		Approved	BMCC1, BNIPXL, A214N16.3, bA214N16.3	uc010mpk.3	Q8WUY3	OTTHUMG00000020047	ENST00000376718.3:c.3036T>A	9.37:g.79324154A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KYC4|B4DQH8|O15073|Q58A63|Q5JUB6|Q5T304|Q5T476|Q6T2V6|Q6T2V7|Q8N665	Silent	SNP	ENST00000376718.3	37	CCDS47982.1	.	.	.	.	.	.	.	.	.	.	A	8.946	0.967023	0.18659	.	.	ENSG00000106772	ENST00000426088	.	.	.	5.94	-4.91	0.03085	.	.	.	.	.	T	0.19927	0.0479	.	.	.	0.09310	N	0.999999	.	.	.	.	.	.	T	0.27262	-1.0079	4	.	.	.	-1.3206	4.1748	0.10346	0.1906:0.3724:0.3387:0.0983	.	.	.	.	T	334	.	.	S	-	1	0	PRUNE2	78513974	.	.	0.000000	0.03702	0.268000	0.26511	.	.	-1.189000	0.02702	0.459000	0.35465	TCA		0.443	PRUNE2-003	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052730.2	NM_138818		T	79324154	A	T	79324154	2	4	653	1	0	0	0	0	0	0	0	1	12651	291	11	5		5	PRUNE2	9	79324154	Silent	SNP	A	TCGA-KM-8477-01A-11D-2310-10		79324154	61889277	24	40515										
PTPN3	5774	broad.mit.edu	37	chr9	112219611	112219612	+	Frame_Shift_Del	DEL	AT	AT	-													0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	tcatcatgctgtaaaccaaaAtattccttttcagtcacacc							TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr9:112219611_112219612delAT	ENST00000374541.2	-	3	310_311	c.206_207delAT	c.(205-207)tatfs	p.Y69fs	PTPN3_ENST00000262539.3_5'UTR	NM_001145368.1|NM_002829.3	NP_001138840.1|NP_002820.3	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type 3	69	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.				negative regulation of membrane protein ectodomain proteolysis (GO:0051045)|negative regulation of mitotic cell cycle (GO:0045930)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)|regulation of membrane depolarization during action potential (GO:0098902)|regulation of sodium ion transmembrane transporter activity (GO:2000649)	cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytoskeleton (GO:0005856)	ATPase binding (GO:0051117)|phosphotyrosine binding (GO:0001784)|protein tyrosine phosphatase activity (GO:0004725)|sodium channel regulator activity (GO:0017080)			breast(1)|endometrium(2)|kidney(2)|large_intestine(8)|liver(1)|lung(14)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	41						GTAAACCAAAATATTCCTTTTC	0.401																																																0																																										SO:0001589	frameshift_variant	5774				CCDS6776.1, CCDS48000.1, CCDS48001.1	9q31	2011-06-09			ENSG00000070159	ENSG00000070159		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Non-receptor"	9655	protein-coding gene	gene with protein product		176877				1648725	Standard	NM_002829		Approved	PTPH1	uc004bed.2	P26045	OTTHUMG00000020475	ENST00000374541.2:c.206_207delAT	9.37:g.112219613_112219614delAT	ENSP00000363667:p.Tyr69fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0AUW9|E7EN99|E9PGU7	Frame_Shift_Del	DEL	ENST00000374541.2	37	CCDS6776.1																																																																																				0.401	PTPN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053598.4			-	112219612	AT	-	112219611	7	5	653	1	0	1	0	1	0	0	0	0	12802	108	4	0	2630	0	PTPN3	9	112219611	Frame_Shift_Del	DEL	AT	TCGA-KM-8477-01A-11D-2310-10	32895457	112219611	28993820	25	40516	363	2								
PTPN3	5774	bcgsc.ca	37	chr9	112219612	112219613	+	Frame_Shift_Del	DEL	AT	AT	-													0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	catcatgctgtaaaccaaaaTattccttttcagtcacaccc							TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr9:112219612_112219613delAT	ENST00000374541.2	-	3	309_310	c.205_206delAT	c.(205-207)attfs	p.I69fs	PTPN3_ENST00000262539.3_5'UTR	NM_001145368.1|NM_002829.3	NP_001138840.1|NP_002820.3	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type 3	69	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.				negative regulation of membrane protein ectodomain proteolysis (GO:0051045)|negative regulation of mitotic cell cycle (GO:0045930)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)|regulation of membrane depolarization during action potential (GO:0098902)|regulation of sodium ion transmembrane transporter activity (GO:2000649)	cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytoskeleton (GO:0005856)	ATPase binding (GO:0051117)|phosphotyrosine binding (GO:0001784)|protein tyrosine phosphatase activity (GO:0004725)|sodium channel regulator activity (GO:0017080)			breast(1)|endometrium(2)|kidney(2)|large_intestine(8)|liver(1)|lung(14)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	41						TAAACCAAAATATTCCTTTTCA	0.406																																																0																																										SO:0001589	frameshift_variant	5774				CCDS6776.1, CCDS48000.1, CCDS48001.1	9q31	2011-06-09			ENSG00000070159	ENSG00000070159		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Non-receptor"	9655	protein-coding gene	gene with protein product		176877				1648725	Standard	NM_002829		Approved	PTPH1	uc004bed.2	P26045	OTTHUMG00000020475	ENST00000374541.2:c.205_206delAT	9.37:g.112219612_112219613delAT	ENSP00000363667:p.Ile69fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0AUW9|E7EN99|E9PGU7	Frame_Shift_Del	DEL	ENST00000374541.2	37	CCDS6776.1																																																																																				0.406	PTPN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053598.4			-	112219613	AT	-	112219612	7	5	653	1	0	1	0	1	0	0	0	0	12802	1406	49	0	2631	0	PTPN3	9	112219612	Frame_Shift_Del	DEL	AT	TCGA-KM-8477-01A-11D-2310-10	1	112219612	28993819	26	40517	363	2								
C10orf71	118461	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr10	50533936	50533936	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ggagggaggacctgacccacGccctcgtgtgggagggcggc	19	12	0	1			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr10:50533936G>A	ENST00000374144.3	+	3	3634	c.3346G>A	c.(3346-3348)Gcc>Acc	p.A1116T	C10orf71_ENST00000323868.4_Intron			Q711Q0	CJ071_HUMAN	chromosome 10 open reading frame 71	1116										endometrium(1)	1						CCTGACCCACGCCCTCGTGTG	0.657																																																0													19	24	23					10																	50533936		692	1591	2283	SO:0001583	missense	118461			AL833265	CCDS44387.1	10q11.23	2012-05-31			ENSG00000177354	ENSG00000177354			26973	protein-coding gene	gene with protein product							Standard	NM_001135196		Approved	FLJ45913	uc021pqa.2	Q711Q0	OTTHUMG00000018190	ENST00000374144.3:c.3346G>A	10.37:g.50533936G>A	ENSP00000363259:p.Ala1116Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVL8	Missense_Mutation	SNP	ENST00000374144.3	37	CCDS44387.1	.	.	.	.	.	.	.	.	.	.	G	22.4	4.284061	0.80803	.	.	ENSG00000177354	ENST00000374144	T	0.04970	3.52	5.38	3.52	0.40303	.	0.647217	0.12708	N	0.445729	T	0.05960	0.0155	L	0.27053	0.805	0.09310	N	0.999991	.	.	.	.	.	.	T	0.39502	-0.9611	8	0.45353	T	0.12	.	5.1637	0.15075	0.2522:0.164:0.5838:0.0	.	.	.	.	T	1116	ENSP00000363259:A1116T	ENSP00000363259:A1116T	A	+	1	0	C10orf71	50203942	0.688000	0.27680	0.115000	0.21578	0.504000	0.33889	1.462000	0.35266	0.651000	0.30788	0.491000	0.48974	GCC		0.657	C10orf71-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000047984.2	NM_199459		A	50533936	G	A	50533936	3	1	653	1	0	0	0	0	1	0	0	0	1616	1087	38	1	3348	1	C10orf71	10	50533936	Missense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10		50533936	85000811	27	40518										
MYPN	84665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	69881358	69881358	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ctggggccgctgaaggaggcGgaggccaagatgaccttcca	16	11	0	3			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr10:69881358G>A	ENST00000358913.5	+	2	651	c.163G>A	c.(163-165)Gga>Aga	p.G55R	MYPN_ENST00000540630.1_Missense_Mutation_p.G55R|MYPN_ENST00000354393.2_Intron|MYPN_ENST00000373675.3_Missense_Mutation_p.G55R	NM_001256267.1|NM_032578.3	NP_001243196.1|NP_115967.2	Q86TC9	MYPN_HUMAN	myopalladin	55	Interaction with CARP.|Poly-Gly.				sarcomere organization (GO:0045214)	I band (GO:0031674)|nucleus (GO:0005634)|Z disc (GO:0030018)	cytoskeletal protein binding (GO:0008092)|muscle alpha-actinin binding (GO:0051371)|SH3 domain binding (GO:0017124)			breast(2)|central_nervous_system(1)|endometrium(13)|kidney(6)|large_intestine(13)|liver(1)|lung(43)|ovary(3)|prostate(1)|skin(6)|upper_aerodigestive_tract(5)	94						TGAAGGAGGCGGAGGCCAAGA	0.527																																																0													54	53	53					10																	69881358		2203	4300	6503	SO:0001583	missense	84665			AL834247	CCDS7275.1, CCDS73142.1	10q22.1	2014-09-17			ENSG00000138347	ENSG00000138347		"Immunoglobulin superfamily / I-set domain containing"	23246	protein-coding gene	gene with protein product	"sarcomeric protein myopalladin, 145 kDa"	608517				11309420, 12482578	Standard	NM_032578		Approved	MYOP	uc001jnm.5	Q86TC9	OTTHUMG00000018344	ENST00000358913.5:c.163G>A	10.37:g.69881358G>A	ENSP00000351790:p.Gly55Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VV35|Q5VV36|Q86T37|Q8N3L4|Q96K90|Q96KF5	Missense_Mutation	SNP	ENST00000358913.5	37	CCDS7275.1	.	.	.	.	.	.	.	.	.	.	G	6.927	0.540685	0.13250	.	.	ENSG00000138347	ENST00000358913;ENST00000540630;ENST00000373675	T;T;T	0.60920	0.52;0.5;0.15	6.03	5.12	0.69794	.	0.388870	0.27886	N	0.017449	T	0.37999	0.1024	N	0.16478	0.41	0.09310	N	1	B;B	0.21381	0.055;0.033	B;B	0.12156	0.007;0.003	T	0.11060	-1.0603	9	.	.	.	.	11.0662	0.47976	0.0689:0.1304:0.8007:0.0	.	55;55	Q86TC9-3;Q86TC9	.;MYPN_HUMAN	R	55	ENSP00000351790:G55R;ENSP00000441668:G55R;ENSP00000362779:G55R	.	G	+	1	0	MYPN	69551364	0.999000	0.42202	0.999000	0.59377	0.682000	0.39822	3.009000	0.49552	2.861000	0.98227	0.655000	0.94253	GGA		0.527	MYPN-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048307.1	NM_032578		A	69881358	G	A	69881358	3	1	653	1	0	0	0	0	1	0	0	0	10105	1117	39	1	165	1	MYPN	10	69881358	Missense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10	19347422	69881358	65653389	28	40519										
TET1	80312	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr10	70426913	70426913	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	tcatcatggtgtgggatggcAtccctcttccaatggccgac	11	12	3	0			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr10:70426913A>G	ENST00000373644.4	+	7	4782	c.4573A>G	c.(4573-4575)Atc>Gtc	p.I1525V		NM_030625.2	NP_085128.2	Q8NFU7	TET1_HUMAN	tet methylcytosine dioxygenase 1	1525					chromatin modification (GO:0016568)|DNA demethylation (GO:0080111)|inner cell mass cell differentiation (GO:0001826)|negative regulation of methylation-dependent chromatin silencing (GO:0090310)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein O-linked glycosylation (GO:0006493)|regulation of DNA methylation (GO:0044030)|stem cell maintenance (GO:0019827)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	iron ion binding (GO:0005506)|methylcytosine dioxygenase activity (GO:0070579)|structure-specific DNA binding (GO:0043566)|zinc ion binding (GO:0008270)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(9)|lung(2)|ovary(5)|prostate(1)|upper_aerodigestive_tract(2)	21						GTGGGATGGCATCCCTCTTCC	0.502																																																0													118	97	104					10																	70426913		2203	4300	6503	SO:0001583	missense	80312			AF430147	CCDS7281.1	10q21	2014-02-18	2011-09-30	2008-03-12	ENSG00000138336	ENSG00000138336			29484	protein-coding gene	gene with protein product	"leukemia-associated protein with a CXXC domain", "ten-eleven translocation-1"	607790	"CXXC zinc finger 6", "tet oncogene 1"	CXXC6		12124344, 12646957	Standard	NM_030625		Approved	LCX, KIAA1676, bA119F7.1	uc001jok.4	Q8NFU7	OTTHUMG00000018359	ENST00000373644.4:c.4573A>G	10.37:g.70426913A>G	ENSP00000362748:p.Ile1525Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUP7|Q7Z6B6|Q8TCR1|Q9C0I7	Missense_Mutation	SNP	ENST00000373644.4	37	CCDS7281.1	.	.	.	.	.	.	.	.	.	.	A	16.16	3.045305	0.55110	.	.	ENSG00000138336	ENST00000373644	T	0.33654	1.4	5.21	2.83	0.33086	TET cysteine-rich domain (1);	0.062135	0.64402	D	0.000005	T	0.45597	0.1350	L	0.39326	1.205	0.33750	D	0.620563	D	0.63046	0.992	D	0.80764	0.994	T	0.56517	-0.7966	10	0.87932	D	0	.	7.197	0.25858	0.7982:0.0:0.0714:0.1304	.	1525	Q8NFU7	TET1_HUMAN	V	1525	ENSP00000362748:I1525V	ENSP00000362748:I1525V	I	+	1	0	TET1	70096919	1.000000	0.71417	0.527000	0.27925	0.429000	0.31625	4.491000	0.60326	0.366000	0.24427	0.477000	0.44152	ATC		0.502	TET1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048354.1	NM_030625		G	70426913	A	G	70426913	3	3	653	1	0	0	0	0	1	0	0	0	15781	217	8	3	4595	3	TET1	10	70426913	Missense_Mutation	SNP	A	TCGA-KM-8477-01A-11D-2310-10	545555	70426913	65107834	29	40520										
SEC24C	9632	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr10	75519464	75519464	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	cagccctatggccctcccccGacaagtgcacaggtggctac	10	17	0	0	rs375764899		TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr10:75519464G>A	ENST00000339365.2	+	5	555	c.393G>A	c.(391-393)ccG>ccA	p.P131P	SEC24C_ENST00000345254.4_Silent_p.P131P|SEC24C_ENST00000411652.2_5'UTR|SEC24C_ENST00000540668.1_Intron|SEC24C_ENST00000535742.1_Intron|SEC24C_ENST00000546025.1_5'UTR	NM_004922.3	NP_004913.2	P53992	SC24C_HUMAN	SEC24 family member C	131					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular protein metabolic process (GO:0044267)|COPII vesicle coating (GO:0048208)|ER to Golgi vesicle-mediated transport (GO:0006888)|intracellular protein transport (GO:0006886)|membrane organization (GO:0061024)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)|small molecule metabolic process (GO:0044281)	COPII vesicle coat (GO:0030127)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)	zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(3)|lung(12)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	32	Prostate(51;0.0112)					GCCCTCCCCCGACAAGTGCAC	0.617																																																0								G	,	1,4405	2.1+/-5.4	0,1,2202	52	47	49		393,393	-7.4	0.5	10		49	0,8600		0,0,4300	no	coding-synonymous,coding-synonymous	SEC24C	NM_004922.3,NM_198597.2	,	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	,	131/1095,131/1095	75519464	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	9632			D38555	CCDS7332.1	10q22	2013-10-21	2013-10-21		ENSG00000176986	ENSG00000176986			10705	protein-coding gene	gene with protein product		607185	"SEC24 (S. cerevisiae) related gene family, member C", "SEC24 family, member C (S. cerevisiae)"			10214955, 7584044	Standard	NM_004922		Approved	KIAA0079	uc001jux.3	P53992	OTTHUMG00000018476	ENST00000339365.2:c.393G>A	10.37:g.75519464G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DZT4|Q8WV25	Silent	SNP	ENST00000339365.2	37	CCDS7332.1																																																																																				0.617	SEC24C-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048679.1			A	75519464	G	A	75519464	2	1	653	1	0	0	0	0	0	0	0	1	14009	1045	37	1		1	SEC24C	10	75519464	Silent	SNP	G	TCGA-KM-8477-01A-11D-2310-10	5092551	75519464	60015283	30	40521										
PTPRE	5791	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr10	129866455	129866455	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ttcaccagctggcccgacttCggagtgccttttacccccat	8	16	1	0			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr10:129866455C>T	ENST00000254667.3	+	12	1191	c.912C>T	c.(910-912)ttC>ttT	p.F304F	PTPRE_ENST00000419012.2_Silent_p.F304F|PTPRE_ENST00000306042.5_Silent_p.F246F|PTPRE_ENST00000430713.2_3'UTR	NM_006504.4	NP_006495.1	P23469	PTPRE_HUMAN	protein tyrosine phosphatase, receptor type, E	304	Tyrosine-protein phosphatase 1. {ECO:0000255|PROSITE-ProRule:PRU00160}.				negative regulation of insulin receptor signaling pathway (GO:0046627)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)|regulation of mast cell activation (GO:0033003)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)	p.F304F(1)|p.F246F(1)		endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(5)|lung(4)|ovary(1)|prostate(2)|skin(2)|stomach(1)|urinary_tract(1)	22		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)			Alendronate(DB00630)	GGCCCGACTTCGGAGTGCCTT	0.622																																					Colon(52;977 1184 20575 41685)											2	Substitution - coding silent(2)	prostate(2)											58	56	57					10																	129866455		2203	4300	6503	SO:0001819	synonymous_variant	5791			AF406557	CCDS7657.1, CCDS7658.1	10q26	2011-06-09			ENSG00000132334	ENSG00000132334		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like"	9669	protein-coding gene	gene with protein product		600926				8595895	Standard	NM_130435		Approved	PTPE	uc001lkb.3	P23469	OTTHUMG00000019254	ENST00000254667.3:c.912C>T	10.37:g.129866455C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q13345|Q5VWH3|Q5VWH4|Q96KQ6	Silent	SNP	ENST00000254667.3	37	CCDS7657.1																																																																																				0.622	PTPRE-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050990.1			T	129866455	C	T	129866455	2	4	653	1	0	0	0	0	0	0	0	1	12813	883	31	1		1	PTPRE	10	129866455	Silent	SNP	C	TCGA-KM-8477-01A-11D-2310-10	54346991	129866455	5668292	31	40522										
SMPD1	6609	ucsc.edu	37	chr11	6411941	6411941	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ttggatgggcctggtgctggCgctggcgctggcgctggcgc	20	11	0	0	rs550365194|rs550067660|rs71467507|rs78250081|rs558809956|rs3838786	byFrequency	TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr11:6411941C>T	ENST00000342245.4	+	1	281	c.113C>T	c.(112-114)gCg>gTg	p.A38V	SMPD1_ENST00000299397.3_Missense_Mutation_p.A38V|SMPD1_ENST00000527275.1_Missense_Mutation_p.A38V|SMPD1_ENST00000533196.1_3'UTR|SMPD1_ENST00000356761.2_Missense_Mutation_p.A38V	NM_000543.4|NM_001007593.2	NP_000534.3|NP_001007594.2	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid lysosomal	38					cell death (GO:0008219)|ceramide biosynthetic process (GO:0046513)|glycosphingolipid metabolic process (GO:0006687)|negative regulation of MAP kinase activity (GO:0043407)|nervous system development (GO:0007399)|positive regulation of apoptotic process (GO:0043065)|positive regulation of protein dephosphorylation (GO:0035307)|response to cocaine (GO:0042220)|response to drug (GO:0042493)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)|sphingomyelin catabolic process (GO:0006685)|sphingomyelin metabolic process (GO:0006684)|termination of signal transduction (GO:0023021)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|lamellar body (GO:0042599)|lysosomal lumen (GO:0043202)	hydrolase activity, acting on glycosyl bonds (GO:0016798)|sphingomyelin phosphodiesterase activity (GO:0004767)			breast(1)|central_nervous_system(2)|kidney(1)|large_intestine(8)|lung(5)|ovary(1)|pancreas(1)|prostate(1)|urinary_tract(3)	23		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Amlodipine(DB00381)|Chlorpromazine(DB00477)|Desipramine(DB01151)	ctggtgctggcgctggcgctg	0.711																																																0													11	14	13					11																	6411941		2185	4258	6443	SO:0001583	missense	6609			AB209775	CCDS31409.1, CCDS44531.1, CCDS31409.2	11p15.4-p15.1	2010-04-28	2008-02-04		ENSG00000166311	ENSG00000166311	3.1.4.12		11120	protein-coding gene	gene with protein product	"acid sphingomyelinase"	607608				1711683	Standard	NM_000543		Approved	ASM	uc001mcw.3	P17405	OTTHUMG00000165453	ENST00000342245.4:c.113C>T	11.37:g.6411941C>T	ENSP00000340409:p.Ala38Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8M3|E9PKS3|P17406|Q13811|Q16837|Q16841	Missense_Mutation	SNP	ENST00000342245.4	37	CCDS44531.1	.	.	.	.	.	.	.	.	.	.	C	13.43	2.234305	0.39498	.	.	ENSG00000166311	ENST00000299397;ENST00000356761;ENST00000342245;ENST00000527275	T;T;T;T	0.09723	2.95;2.95;2.95;2.95	4.54	-1.08	0.09936	.	.	.	.	.	T	0.04363	0.0120	N	0.08118	0	0.09310	N	1	B;B	0.15473	0.002;0.013	B;B	0.10450	0.002;0.005	T	0.47275	-0.9130	9	0.12103	T	0.63	.	6.8659	0.24093	0.0:0.5614:0.262:0.1766	.	38;38	E9PKS3;G3XAB5	.;.	V	38	ENSP00000299397:A38V;ENSP00000349203:A38V;ENSP00000340409:A38V;ENSP00000435350:A38V	ENSP00000299397:A38V	A	+	2	0	SMPD1	6368517	0.000000	0.05858	0.130000	0.21974	0.033000	0.12548	-2.110000	0.01334	-0.479000	0.06813	-1.305000	0.01319	GCG		0.711	SMPD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000384205.1	NM_000543		T	6411941	C	T	6411941	3	4	653	1	0	0	0	0	1	0	0	0	14817	768	27	1	115	1	SMPD1	11	6411941	Missense_Mutation	SNP	C	TCGA-KM-8477-01A-11D-2310-10		6411941	128594575	32	40523										
OR5F1	338674	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	55762021	55762021	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	atcacaagaaaaaacaaaaaGaggataatctgtagctccag	7	7	2	2			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr11:55762021G>A	ENST00000278409.1	-	1	80	c.81C>T	c.(79-81)ctC>ctT	p.L27L		NM_003697.1	NP_003688.1	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F, member 1	27					detection of chemical stimulus involved in sensory perception of smell (GO:0050911)|sensory perception of smell (GO:0007608)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(6)|kidney(1)|large_intestine(11)|liver(1)|lung(33)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	58	Esophageal squamous(21;0.00448)					AAAACAAAAAGAGGATAATCT	0.378																																																0													62	62	62					11																	55762021		2201	4296	6497	SO:0001819	synonymous_variant	338674			AF065863	CCDS31515.1	11q11	2012-08-09			ENSG00000149133	ENSG00000149133		"GPCR / Class A : Olfactory receptors"	8343	protein-coding gene	gene with protein product		608492				9787077	Standard	NM_003697		Approved	OR11-10	uc010riv.2	O95221	OTTHUMG00000166825	ENST00000278409.1:c.81C>T	11.37:g.55762021G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q495D1|Q6IFB9	Silent	SNP	ENST00000278409.1	37	CCDS31515.1																																																																																				0.378	OR5F1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391532.1	NM_003697		A	55762021	G	A	55762021	2	1	653	1	0	0	0	0	0	0	0	1	11165	929	33	2		2	OR5F1	11	55762021	Silent	SNP	G	TCGA-KM-8477-01A-11D-2310-10	49350080	55762021	79244495	33	40524										
FOLR2	2350	hgsc.bcm.edu;mdanderson.org	37	chr11	71932761	71932761	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	cttcatgggactgggggtctCctgctcagtctggccctgat	13	12	4	1			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr11:71932761C>T	ENST00000298223.6	+	5	910	c.723C>T	c.(721-723)ctC>ctT	p.L241L	FOLR2_ENST00000454954.2_Silent_p.L200L|FOLR2_ENST00000449475.2_Silent_p.L237L	NM_000803.4|NM_001113534.1|NM_001113535.1|NM_001113536.1	NP_000794.3|NP_001107006.1|NP_001107007.1|NP_001107008.1	P14207	FOLR2_HUMAN	folate receptor 2 (fetal)	241					folic acid transport (GO:0015884)	anchored component of external side of plasma membrane (GO:0031362)|extracellular region (GO:0005576)|membrane (GO:0016020)	folic acid binding (GO:0005542)|folic acid transporter activity (GO:0008517)			breast(3)|large_intestine(3)|ovary(1)|skin(1)	8					Folic Acid(DB00158)	CTGGGGGTCTCCTGCTCAGTC	0.582																																																0													63	64	64					11																	71932761		2200	4293	6493	SO:0001819	synonymous_variant	2350			AK222539	CCDS8212.1	11q13.3-q14.1	2010-04-08			ENSG00000165457	ENSG00000165457			3793	protein-coding gene	gene with protein product		136425				1133088, 7698003	Standard	NM_000803		Approved		uc009ytf.3	P14207	OTTHUMG00000150394	ENST00000298223.6:c.723C>T	11.37:g.71932761C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q05CA5|Q6GTE8	Silent	SNP	ENST00000298223.6	37	CCDS8212.1																																																																																				0.582	FOLR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317923.2	NM_000803		T	71932761	C	T	71932761	2	4	653	1	0	0	0	0	0	0	0	1	5989	842	30	2		2	FOLR2	11	71932761	Silent	SNP	C	TCGA-KM-8477-01A-11D-2310-10	16170740	71932761	63073755	34	40525										
SORL1	6653	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr11	121444978	121444978	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	atctgtgacctggacacccaGtttcgttgccaggagtctgg	12	11	2	1	rs200656084		TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr11:121444978G>C	ENST00000260197.7	+	24	3495	c.3366G>C	c.(3364-3366)caG>caC	p.Q1122H	SORL1_ENST00000534286.1_5'Flank|SORL1_ENST00000525532.1_Missense_Mutation_p.Q66H|SORL1_ENST00000532694.1_5'Flank	NM_003105.5	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor, L(DLR class) A repeats containing	1122	LDL-receptor class A 2. {ECO:0000255|PROSITE-ProRule:PRU00124}.				cell death (GO:0008219)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|cholesterol metabolic process (GO:0008203)|lipid transport (GO:0006869)|negative regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process (GO:1902960)|negative regulation of beta-amyloid formation (GO:1902430)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of metalloendopeptidase activity involved in amyloid precursor protein catabolic process (GO:1902963)|negative regulation of neurofibrillary tangle assembly (GO:1902997)|negative regulation of neurogenesis (GO:0050768)|negative regulation of neuron death (GO:1901215)|negative regulation of protein binding (GO:0032091)|negative regulation of protein oligomerization (GO:0032460)|negative regulation of tau-protein kinase activity (GO:1902948)|positive regulation of choline O-acetyltransferase activity (GO:1902771)|positive regulation of early endosome to recycling endosome transport (GO:1902955)|positive regulation of endocytic recycling (GO:2001137)|positive regulation of ER to Golgi vesicle-mediated transport (GO:1902953)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of protein exit from endoplasmic reticulum (GO:0070863)|positive regulation of protein localization to early endosome (GO:1902966)|post-Golgi vesicle-mediated transport (GO:0006892)|protein maturation (GO:0051604)|protein retention in Golgi apparatus (GO:0045053)|protein targeting (GO:0006605)|protein targeting to Golgi (GO:0000042)|protein targeting to lysosome (GO:0006622)|receptor-mediated endocytosis (GO:0006898)|regulation of smooth muscle cell migration (GO:0014910)|signal transduction (GO:0007165)	early endosome (GO:0005769)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|Golgi cisterna (GO:0031985)|integral component of plasma membrane (GO:0005887)|low-density lipoprotein particle (GO:0034362)|membrane (GO:0016020)|multivesicular body (GO:0005771)|neuronal cell body (GO:0043025)|nuclear envelope lumen (GO:0005641)|recycling endosome (GO:0055037)|trans-Golgi network (GO:0005802)	ADP-ribosylation factor binding (GO:0030306)|beta-amyloid binding (GO:0001540)|low-density lipoprotein particle binding (GO:0030169)|transmembrane signaling receptor activity (GO:0004888)			NS(1)|breast(5)|central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(14)|liver(2)|lung(34)|ovary(5)|pancreas(1)|skin(12)|stomach(2)|upper_aerodigestive_tract(2)	91		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)		TGGACACCCAGTTTCGTTGCC	0.438																																																0													224	196	205					11																	121444978		2203	4299	6502	SO:0001583	missense	6653			Y08110	CCDS8436.1	11q23.2-q24.4	2014-06-05	2011-01-25		ENSG00000137642	ENSG00000137642		"Fibronectin type III domain containing"	11185	protein-coding gene	gene with protein product	"LDLR relative with 11 ligand-binding repeats"	602005	"chromosome 11 open reading frame 32", "sortilin-related receptor, L(DLR class) A repeats-containing"	C11orf32		9157966, 8940146	Standard	NM_003105		Approved	gp250, LR11, LRP9, SorLA, SorLA-1	uc001pxx.3	Q92673	OTTHUMG00000166057	ENST00000260197.7:c.3366G>C	11.37:g.121444978G>C	ENSP00000260197:p.Gln1122His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNX7|Q92856	Missense_Mutation	SNP	ENST00000260197.7	37	CCDS8436.1	.	.	.	.	.	.	.	.	.	.	G	19.95	3.920831	0.73213	.	.	ENSG00000137642	ENST00000260197;ENST00000525532	D;D	0.95821	-3.82;-3.82	5.72	4.81	0.61882	.	0.058304	0.64402	D	0.000001	D	0.96494	0.8856	L	0.55834	1.745	0.80722	D	1	D	0.67145	0.996	D	0.68192	0.956	D	0.95860	0.8882	10	0.39692	T	0.17	.	14.7022	0.69164	0.0692:0.0:0.9308:0.0	.	1122	Q92673	SORL_HUMAN	H	1122;66	ENSP00000260197:Q1122H;ENSP00000434634:Q66H	ENSP00000260197:Q1122H	Q	+	3	2	SORL1	120950188	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.267000	0.78462	1.419000	0.47118	0.655000	0.94253	CAG		0.438	SORL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387626.2	NM_003105		C	121444978	G	C	121444978	3	2	653	1	0	0	0	0	1	0	0	0	14947	1020	36	4	3460	4	SORL1	11	121444978	Missense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10	49512217	121444978	13561538	35	40526										
WNT5B	81029	broad.mit.edu;bcgsc.ca	37	chr12	1742019	1742019	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	cagttccggcagcggcggtgGaattgcagcacagcggacaa	15	11	0	0			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr12:1742019G>A	ENST00000397196.2	+	3	508	c.276G>A	c.(274-276)tgG>tgA	p.W92*	WNT5B_ENST00000537031.1_Nonsense_Mutation_p.W92*|WNT5B_ENST00000542408.1_Nonsense_Mutation_p.W92*|WNT5B_ENST00000310594.3_Nonsense_Mutation_p.W92*	NM_032642.2	NP_116031.1	Q9H1J7	WNT5B_HUMAN	wingless-type MMTV integration site family, member 5B	92					cell fate commitment (GO:0045165)|cellular response to retinoic acid (GO:0071300)|chondrocyte differentiation (GO:0002062)|fat cell differentiation (GO:0045444)|lens fiber cell development (GO:0070307)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|neuron differentiation (GO:0030182)|positive regulation of cell migration (GO:0030335)|positive regulation of fat cell differentiation (GO:0045600)|Wnt signaling pathway (GO:0016055)|wound healing (GO:0042060)	cell surface (GO:0009986)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|plasma membrane (GO:0005886)|proteinaceous extracellular matrix (GO:0005578)	frizzled binding (GO:0005109)|receptor binding (GO:0005102)			skin(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00109)			AGCGGCGGTGGAATTGCAGCA	0.567																																																0													61	62	61					12																	1742019		2203	4300	6503	SO:0001587	stop_gained	81029			AB060966	CCDS8510.1	12p13.3	2008-07-07			ENSG00000111186	ENSG00000111186		"Wingless-type MMTV integration sites"	16265	protein-coding gene	gene with protein product		606361				11445850	Standard	NM_030775		Approved		uc001qjk.3	Q9H1J7	OTTHUMG00000090375	ENST00000397196.2:c.276G>A	12.37:g.1742019G>A	ENSP00000380379:p.Trp92*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K315|D3DUP9|Q96S49|Q9BV04	Nonsense_Mutation	SNP	ENST00000397196.2	37	CCDS8510.1	.	.	.	.	.	.	.	.	.	.	G	41	8.843801	0.98974	.	.	ENSG00000111186	ENST00000539198;ENST00000545811;ENST00000537031;ENST00000310594;ENST00000397196;ENST00000543071;ENST00000542408	.	.	.	5.09	5.09	0.68999	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	18.931	0.92566	0.0:0.0:1.0:0.0	.	.	.	.	X	92	.	ENSP00000308887:W92X	W	+	3	0	WNT5B	1612280	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	9.751000	0.98889	2.540000	0.85666	0.644000	0.83932	TGG		0.567	WNT5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206747.2			A	1742019	G	A	1742019	4	1	653	1	0	0	0	0	0	1	0	0	17404	1183	41	2	282	2	WNT5B	12	1742019	Nonsense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10		1742019	132109876	36	40527										
VAMP1	6843	broad.mit.edu	37	chr12	6574085	6574085	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ctaccacgatgatggcacagAtggctcccagcatgatcatc	9	13	1	3			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr12:6574085A>G	ENST00000396308.3	-	4	456	c.311T>C	c.(310-312)aTc>aCc	p.I104T	VAMP1_ENST00000544432.1_5'UTR|VAMP1_ENST00000400911.3_Missense_Mutation_p.I104T|VAMP1_ENST00000361716.3_Missense_Mutation_p.I104T|TAPBPL_ENST00000545700.1_Intron|VAMP1_ENST00000535180.1_Missense_Mutation_p.I104T	NM_014231.3|NM_199245.1	NP_055046.1|NP_954740.1	P23763	VAMP1_HUMAN	vesicle-associated membrane protein 1 (synaptobrevin 1)	104					neurotransmitter secretion (GO:0007269)|SNARE complex assembly (GO:0035493)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|cell surface (GO:0009986)|endocytic vesicle membrane (GO:0030666)|integral component of plasma membrane (GO:0005887)|mitochondrial outer membrane (GO:0005741)|neuron projection (GO:0043005)|synapse (GO:0045202)				endometrium(1)|large_intestine(1)|prostate(1)	3					Botulinum Toxin Type B(DB00042)	GATGGCACAGATGGCTCCCAG	0.488																																																0													228	197	207					12																	6574085		2203	4300	6503	SO:0001583	missense	6843				CCDS31731.1, CCDS41740.1, CCDS44809.1, CCDS73422.1	12p	2013-02-13			ENSG00000139190	ENSG00000139190		"Vesicle-associated membrane proteins"	12642	protein-coding gene	gene with protein product		185880		SYB1		1976629	Standard	XM_006719011		Approved	VAMP-1	uc001qok.3	P23763	OTTHUMG00000168269	ENST00000396308.3:c.311T>C	12.37:g.6574085A>G	ENSP00000379602:p.Ile104Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8MVP3|D3DUR3|O75468|Q15857|Q6FG94|Q8IVC9	Missense_Mutation	SNP	ENST00000396308.3	37	CCDS41740.1	.	.	.	.	.	.	.	.	.	.	A	20.6	4.020662	0.75275	.	.	ENSG00000139190	ENST00000400911;ENST00000361716;ENST00000535180;ENST00000396308;ENST00000396943	T;T;T;T	0.50277	0.75;0.75;0.75;0.75	5.73	5.73	0.89815	Synaptobrevin (2);	0.057713	0.64402	D	0.000002	T	0.57902	0.2085	M	0.78456	2.415	0.80722	D	1	P;B;P	0.46512	0.782;0.283;0.879	P;B;P	0.46076	0.503;0.324;0.503	T	0.65364	-0.6186	10	0.87932	D	0	.	16.0174	0.80450	1.0:0.0:0.0:0.0	.	104;104;104	P23763-3;P23763;P23763-2	.;VAMP1_HUMAN;.	T	104	ENSP00000383702:I104T;ENSP00000355122:I104T;ENSP00000444181:I104T;ENSP00000379602:I104T	ENSP00000355122:I104T	I	-	2	0	VAMP1	6444346	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.339000	0.96797	2.186000	0.69663	0.533000	0.62120	ATC		0.488	VAMP1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399078.1			G	6574085	A	G	6574085	3	3	653	1	0	0	0	0	1	0	0	0	17124	333	12	3	82	3	VAMP1	12	6574085	Missense_Mutation	SNP	A	TCGA-KM-8477-01A-11D-2310-10	4832066	6574085	127277810	37	40528										
ACCN2	41	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	50472361	50472361	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ccgcatggtgcacatgccagGtcaggcctggggctccgagc	15	14	1	0			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr12:50472361G>A	ENST00000447966.2	+	6	1223		c.e6+1		ASIC1_ENST00000228468.4_Splice_Site|ASIC1_ENST00000552438.1_Splice_Site	NM_001095.3	NP_001086.2	P78348	ASIC1_HUMAN	acid-sensing (proton-gated) ion channel 1						associative learning (GO:0008306)|calcium ion transmembrane transport (GO:0070588)|cellular response to pH (GO:0071467)|ion transmembrane transport (GO:0034220)|memory (GO:0007613)|negative regulation of neurotransmitter secretion (GO:0046929)|protein homotrimerization (GO:0070207)|regulation of membrane potential (GO:0042391)|response to acidic pH (GO:0010447)|response to pH (GO:0009268)|sensory perception of sour taste (GO:0050915)|signal transduction (GO:0007165)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|synapse (GO:0045202)	acid-sensing ion channel activity (GO:0044736)|ion gated channel activity (GO:0022839)|ligand-gated sodium channel activity (GO:0015280)									Amiloride(DB00594)|Diclofenac(DB00586)	CACATGCCAGGTCAGGCCTGG	0.597																																																0													118	118	118					12																	50472361		2203	4300	6503	SO:0001630	splice_region_variant	41			U78181	CCDS8796.1, CCDS44876.1, CCDS58228.1	12q12	2012-02-23	2012-02-22	2012-02-22		ENSG00000110881		"Ion channels / Acid-sensing (proton-gated) ion channels"	100	protein-coding gene	gene with protein product		602866	"amiloride-sensitive cation channel 2, neuronal"	ACCN2		9037075	Standard	NM_001095		Approved	BNaC2, hBNaC2	uc001rvv.4	P78348	OTTHUMG00000169812	ENST00000447966.2:c.994+1G>A	12.37:g.50472361G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A3KN86|E5KBL7|P78349|Q96CV2	Splice_Site	SNP	ENST00000447966.2	37	CCDS44876.1	.	.	.	.	.	.	.	.	.	.	G	20.1	3.935661	0.73442	.	.	ENSG00000110881	ENST00000228468;ENST00000447966;ENST00000453327;ENST00000552438	.	.	.	3.82	3.82	0.43975	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	17.0278	0.86452	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	ACCN2	48758628	1.000000	0.71417	0.996000	0.52242	0.924000	0.55760	9.584000	0.98220	2.414000	0.81942	0.462000	0.41574	.		0.597	ASIC1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406004.2	NM_020039	Intron	A	50472361	G	A	50472361	5	1	653	1	0	0	0	0	0	0	1	0	129	1275	44	2	1013	2	ACCN2	12	50472361	Splice_Site	SNP	G	TCGA-KM-8477-01A-11D-2310-10	43898276	50472361	83379534	38	40529										
SOS2	6655	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr14	50619875	50619875	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	atgatgttcaacccaatgccGaaatacatttaagatcctga	6	9	1	3			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr14:50619875G>A	ENST00000216373.5	-	13	2348	c.2074C>T	c.(2074-2076)Cgg>Tgg	p.R692W	SOS2_ENST00000543680.1_Missense_Mutation_p.R659W|SOS2_ENST00000555794.1_5'Flank	NM_006939.2	NP_008870.2	Q07890	SOS2_HUMAN	son of sevenless homolog 2 (Drosophila)	692	N-terminal Ras-GEF. {ECO:0000255|PROSITE- ProRule:PRU00135}.				apoptotic signaling pathway (GO:0097190)|axon guidance (GO:0007411)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of small GTPase mediated signal transduction (GO:0051057)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	DNA binding (GO:0003677)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(13)|lung(16)|ovary(2)|skin(1)	39	all_epithelial(31;0.000822)|Breast(41;0.0065)					ACCCAATGCCGAAATACATTT	0.313																																																0													90	94	93					14																	50619875		2202	4297	6499	SO:0001583	missense	6655			L13858	CCDS9697.1	14q21	2013-01-10	2001-12-04		ENSG00000100485	ENSG00000100485		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	11188	protein-coding gene	gene with protein product		601247	"son of sevenless (Drosophilia) homolog 2"			8276400	Standard	NM_006939		Approved		uc001wxs.4	Q07890	OTTHUMG00000140292	ENST00000216373.5:c.2074C>T	14.37:g.50619875G>A	ENSP00000216373:p.Arg692Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKT6|D3DSB4|Q15503|Q17RN1	Missense_Mutation	SNP	ENST00000216373.5	37	CCDS9697.1	.	.	.	.	.	.	.	.	.	.	G	29.6	5.017239	0.93404	.	.	ENSG00000100485	ENST00000216373;ENST00000543680	T;T	0.52754	0.65;0.65	5.96	5.96	0.96718	Ras guanine nucleotide exchange factor, domain (1);Ras-like guanine nucleotide exchange factor, N-terminal (3);	0.000000	0.85682	D	0.000000	T	0.78207	0.4247	M	0.92219	3.285	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.996	T	0.82277	-0.0537	10	0.87932	D	0	.	20.4192	0.99033	0.0:0.0:1.0:0.0	.	659;692	B7ZKT6;Q07890	.;SOS2_HUMAN	W	692;659	ENSP00000216373:R692W;ENSP00000445328:R659W	ENSP00000216373:R692W	R	-	1	2	SOS2	49689625	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.869000	0.99810	2.831000	0.97527	0.650000	0.86243	CGG		0.313	SOS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276878.2			A	50619875	G	A	50619875	3	1	653	1	0	0	0	0	1	0	0	0	14950	1057	37	1	1968	1	SOS2	14	50619875	Missense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10		50619875	56729665	39	40530										
HERC2	8924	mdanderson.org	37	chr15	28482158	28482158	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ggtgtgctcattgccaaataCgaagcgtgtaatccgagaag	12	8	1	1	rs3881419		TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr15:28482158C>G	ENST00000261609.7	-	26	4062	c.3954G>C	c.(3952-3954)tcG>tcC	p.S1318S		NM_004667.5	NP_004658.3			HECT and RLD domain containing E3 ubiquitin protein ligase 2											NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(3)|cervix(3)|endometrium(20)|kidney(11)|large_intestine(33)|lung(95)|ovary(7)|prostate(8)|skin(7)|upper_aerodigestive_tract(8)|urinary_tract(4)	204		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)		TTGCCAAATACGAAGCGTGTA	0.453																																																0													106	95	99					15																	28482158		2202	4299	6501	SO:0001819	synonymous_variant	8924			AF071172	CCDS10021.1	15q13	2012-02-23	2012-02-23		ENSG00000128731	ENSG00000128731			4868	protein-coding gene	gene with protein product		605837	"hect domain and RLD 2"			9949213	Standard	NM_004667		Approved	jdf2, p528, D15F37S1	uc001zbj.4	O95714	OTTHUMG00000129251	ENST00000261609.7:c.3954G>C	15.37:g.28482158C>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000261609.7	37	CCDS10021.1																																																																																				0.453	HERC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251358.2	NM_004667		G	28482158	C	G	28482158	2	3	653	1	0	0	0	0	0	0	0	1	7065	523	19	4		4	HERC2	15	28482158	Silent	SNP	C	TCGA-KM-8477-01A-11D-2310-10		28482158	74049234	40	40531										
UNC13C	440279	broad.mit.edu	37	chr15	54557616	54557616	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	tagtgatccatatgttacagTtcaagttggaaagaacaaaa	8	5	1	2			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr15:54557616T>C	ENST00000260323.11	+	9	3740	c.3740T>C	c.(3739-3741)gTt>gCt	p.V1247A	UNC13C_ENST00000537900.1_Missense_Mutation_p.V1245A|UNC13C_ENST00000545554.1_Missense_Mutation_p.V1247A	NM_001080534.1	NP_001074003.1	Q8NB66	UN13C_HUMAN	unc-13 homolog C (C. elegans)	1247	C2 1. {ECO:0000255|PROSITE- ProRule:PRU00041}.				exocytosis (GO:0006887)|intracellular signal transduction (GO:0035556)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|plasma membrane (GO:0005886)|presynaptic active zone (GO:0048786)	diacylglycerol binding (GO:0019992)|metal ion binding (GO:0046872)			breast(3)|endometrium(5)|kidney(5)|large_intestine(20)|lung(70)|ovary(6)|pancreas(2)|prostate(2)|upper_aerodigestive_tract(4)|urinary_tract(4)	121				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TATGTTACAGTTCAAGTTGGA	0.328																																																0													56	52	53					15																	54557616		1802	4065	5867	SO:0001583	missense	440279			AK091491	CCDS45264.1	15q21.3	2012-10-02			ENSG00000137766	ENSG00000137766			23149	protein-coding gene	gene with protein product		614568					Standard	NM_001080534		Approved	Munc13-3, DKFZp547H074	uc021smr.1	Q8NB66	OTTHUMG00000172542	ENST00000260323.11:c.3740T>C	15.37:g.54557616T>C	ENSP00000260323:p.Val1247Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q0P613|Q8ND48|Q96NP3	Missense_Mutation	SNP	ENST00000260323.11	37	CCDS45264.1	.	.	.	.	.	.	.	.	.	.	T	22.1	4.241956	0.79912	.	.	ENSG00000137766	ENST00000260323;ENST00000545554;ENST00000537900	T;T;T	0.73897	-0.79;-0.79;-0.79	5.04	5.04	0.67666	C2 membrane targeting protein (1);C2 region (1);C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);	0.000000	0.85682	D	0.000000	D	0.82628	0.5078	L	0.54908	1.71	0.58432	D	0.999993	P;D	0.76494	0.833;0.999	P;D	0.87578	0.83;0.998	T	0.83086	-0.0135	10	0.48119	T	0.1	.	14.2363	0.65929	0.0:0.0:0.0:1.0	.	1247;1247	F5H090;Q8NB66	.;UN13C_HUMAN	A	1247;1247;1245	ENSP00000260323:V1247A;ENSP00000438156:V1247A;ENSP00000442569:V1245A	ENSP00000260323:V1247A	V	+	2	0	UNC13C	52344908	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.982000	0.88131	2.011000	0.59026	0.482000	0.46254	GTT		0.328	UNC13C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000419028.3	NM_173166		C	54557616	T	C	54557616	3	2	653	1	0	0	0	0	1	0	0	0	16998	1725	60	3	3770	3	UNC13C	15	54557616	Missense_Mutation	SNP	T	TCGA-KM-8477-01A-11D-2310-10	26075458	54557616	47973776	41	40532										
HBQ1	3049	mdanderson.org	37	chr16	230578	230578	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	tacacgacagaggccctggaAaggtgcggcaggctgggcgc	17	11	0	1	rs11863726	byFrequency	TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr16:230578A>G	ENST00000199708.2	+	1	127	c.93A>G	c.(91-93)gaA>gaG	p.E31E	Y_RNA_ENST00000384514.1_RNA	NM_005331.4	NP_005322.1	P09105	HBAT_HUMAN	hemoglobin, theta 1	31					oxygen transport (GO:0015671)	hemoglobin complex (GO:0005833)	heme binding (GO:0020037)|iron ion binding (GO:0005506)|oxygen binding (GO:0019825)|oxygen transporter activity (GO:0005344)			large_intestine(1)	1		all_cancers(16;2.03e-06)|all_epithelial(16;5.16e-06)|Hepatocellular(16;0.000325)|Lung NSC(18;0.0138)|all_lung(18;0.0306)				AGGCCCTGGAAAGGTGCGGCA	0.736													G|||	1021	0.203874	0.5522	0.1081	5008	,	,		7023	0.004		0.0974	False		,,,				2504	0.1166															0								G		1020,2422		86,848,787	2	3	3		93	2.5	1	16	dbSNP_120	3	483,6397		14,455,2971	no	coding-synonymous	HBQ1	NM_005331.4		100,1303,3758	GG,GA,AA		7.0203,29.6339,14.5611		31/143	230578	1503,8819	1721	3440	5161	SO:0001819	synonymous_variant	3049			BC056686	CCDS10400.1	16p13.3	2014-05-19			ENSG00000086506	ENSG00000086506			4833	protein-coding gene	gene with protein product		142240				2649166	Standard	NM_005331		Approved	HBQ	uc002cfz.3	P09105	OTTHUMG00000060727	ENST00000199708.2:c.93A>G	16.37:g.230578A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q13723|Q1W6G5	Silent	SNP	ENST00000199708.2	37	CCDS10400.1																																																																																				0.736	HBQ1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000134226.1	NM_005331		G	230578	A	G	230578	2	3	653	1	0	0	0	0	0	0	0	1	6993	11	1	3		3	HBQ1	16	230578	Silent	SNP	A	TCGA-KM-8477-01A-11D-2310-10		230578	90124175	42	40533										
CRAMP1L	57585	ucsc.edu	37	chr16	1706144	1706144	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	acggcccggggccaggtgaaAtgcccgcggagcggagctga	18	12	0	2			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr16:1706144A>G	ENST00000397412.3	+	10	1485	c.1386A>G	c.(1384-1386)aaA>aaG	p.K462K	CRAMP1L_ENST00000262317.4_Intron|CRAMP1L_ENST00000293925.5_Silent_p.K462K|CRAMP1L_ENST00000436138.3_Silent_p.K459K|LA16c-431H6.6_ENST00000454337.1_Intron			Q96RY5	CRML_HUMAN	Crm, cramped-like (Drosophila)	462						nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			NS(2)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(3)|lung(6)|pancreas(1)	22						GCCAGGTGAAATGCCCGCGGA	0.726																																																0													8	11	11					16																	1706144		1859	4028	5887	SO:0001819	synonymous_variant	57585			AB037847	CCDS10440.2	16p13.3	2008-07-30	2001-11-28		ENSG00000007545	ENSG00000007545			14122	protein-coding gene	gene with protein product			"Crm (Cramped Drosophila)-like"				Standard	NM_020825		Approved	KIAA1426	uc010uvh.2	Q96RY5	OTTHUMG00000074087	ENST00000397412.3:c.1386A>G	16.37:g.1706144A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8MZL1|B1AJY1|Q8NDN1|Q9P2C1	Silent	SNP	ENST00000397412.3	37	CCDS10440.2																																																																																				0.726	CRAMP1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157297.4			G	1706144	A	G	1706144	2	3	653	1	0	0	0	0	0	0	0	1	3848	98	4	3		3	CRAMP1L	16	1706144	Silent	SNP	A	TCGA-KM-8477-01A-11D-2310-10	1475566	1706144	88648609	43	40534										
SRRM2	23524	mdanderson.org	37	chr16	2813441	2813441	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	gccaagatacagtcattctgGgtcctcctcaccagatacca	7	14	3	2			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr16:2813441G>T	ENST00000301740.8	+	11	3461	c.2912G>T	c.(2911-2913)gGg>gTg	p.G971V		NM_016333.3	NP_057417.3	Q9UQ35	SRRM2_HUMAN	serine/arginine repetitive matrix 2	971	Ser-rich.				mRNA splicing, via spliceosome (GO:0000398)	Cajal body (GO:0015030)|catalytic step 2 spliceosome (GO:0071013)|nuclear speck (GO:0016607)|nucleus (GO:0005634)	C2H2 zinc finger domain binding (GO:0070742)|poly(A) RNA binding (GO:0044822)|protein N-terminus binding (GO:0047485)			breast(3)|central_nervous_system(1)|cervix(3)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(20)|lung(34)|ovary(6)|pancreas(3)|prostate(2)|skin(6)|upper_aerodigestive_tract(3)|urinary_tract(7)	105						AGTCATTCTGGGTCCTCCTCA	0.493																																																0													132	131	131					16																	2813441		2198	4300	6498	SO:0001583	missense	23524			AF201422	CCDS32373.1	16p13.3	2012-07-02			ENSG00000167978	ENSG00000167978			16639	protein-coding gene	gene with protein product		606032				10668804, 11004489	Standard	NM_016333		Approved	SRm300, SRL300, KIAA0324, Cwc21	uc002crk.3	Q9UQ35	OTTHUMG00000177358	ENST00000301740.8:c.2912G>T	16.37:g.2813441G>T	ENSP00000301740:p.Gly971Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB9|D3DU97|O15038|O94803|Q6NSL3|Q6PIM3|Q6PK40|Q8IW17|Q96GY7|Q9P0G1|Q9UHA8|Q9UQ36|Q9UQ37|Q9UQ38|Q9UQ40	Missense_Mutation	SNP	ENST00000301740.8	37	CCDS32373.1	.	.	.	.	.	.	.	.	.	.	G	6.263	0.416561	0.11870	.	.	ENSG00000167978	ENST00000301740;ENST00000382301;ENST00000544933;ENST00000426305	T	0.24151	1.87	5.61	5.61	0.85477	.	0.171178	0.41294	D	0.000918	T	0.22475	0.0542	L	0.29908	0.895	0.43824	D	0.996394	B	0.19583	0.037	B	0.20384	0.029	T	0.02208	-1.1195	10	0.37606	T	0.19	-3.6856	17.1288	0.86721	0.0:0.0:1.0:0.0	.	971	Q9UQ35	SRRM2_HUMAN	V	971;971;223;936	ENSP00000301740:G971V	ENSP00000301740:G971V	G	+	2	0	SRRM2	2753442	1.000000	0.71417	1.000000	0.80357	0.939000	0.58152	5.416000	0.66417	2.656000	0.90262	0.655000	0.94253	GGG		0.493	SRRM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000436411.1			T	2813441	G	T	2813441	3	4	653	1	0	0	0	0	1	0	0	0	15181	1232	43	4	2950	4	SRRM2	16	2813441	Missense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10	1107297	2813441	87541312	44	40535										
AMAC1L3	643664	mdanderson.org	37	chr17	7386234	7386234	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ctgtggcaccttctgacatcGtgggggcaggggttgtgctg	17	9	1	1	rs200251320	byFrequency	TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr17:7386234G>A	ENST00000412468.2	+	2	1046	c.931G>A	c.(931-933)Gtg>Atg	p.V311M	POLR2A_ENST00000572844.1_5'Flank|POLR2A_ENST00000322644.6_5'Flank|ZBTB4_ENST00000311403.4_Intron	NM_001102614.1	NP_001096084.1	P0C7Q6	S35G6_HUMAN	solute carrier family 35, member G6	311	EamA 2.					integral component of membrane (GO:0016021)		p.V311M(1)									TTCTGACATCGTGGGGGCAGG	0.572																																																1	Substitution - Missense(1)	skin(1)											119	108	112					17																	7386234		2203	4300	6503	SO:0001583	missense	643664				CCDS45603.1	17p13.1	2013-05-22	2011-08-03	2011-08-03		ENSG00000259224		"Solute carriers"	31351	protein-coding gene	gene with protein product			"transmembrane protein 21B", "acyl-malonyl condensing enzyme 1-like 3"	TMEM21B, AMAC1L3			Standard	NM_001102614		Approved		uc010cmj.1	P0C7Q6		ENST00000412468.2:c.931G>A	17.37:g.7386234G>A	ENSP00000396523:p.Val311Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000412468.2	37	CCDS45603.1	.	.	.	.	.	.	.	.	.	.	G	0.036	-1.304956	0.01353	.	.	ENSG00000181222	ENST00000412468	T	0.53857	0.6	4.38	3.29	0.37713	.	.	.	.	.	T	0.31670	0.0804	N	0.14661	0.345	0.23581	N	0.997368	B	0.06786	0.001	B	0.04013	0.001	T	0.19516	-1.0303	9	0.13108	T	0.6	-2.3468	9.3381	0.38062	0.911:0.0:0.089:0.0	.	311	P0C7Q6	S35G6_HUMAN	M	311	ENSP00000396523:V311M	ENSP00000396523:V311M	V	+	1	0	SLC35G6	7326958	1.000000	0.71417	1.000000	0.80357	0.650000	0.38633	1.343000	0.33930	0.645000	0.30675	-0.383000	0.06682	GTG		0.572	SLC35G6-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001102614		A	7386234	G	A	7386234	3	1	653	1	0	0	0	0	1	0	0	0	561	1145	40	1	937	1	AMAC1L3	17	7386234	Missense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10		7386234	73808976	45	40536										
MLLT6	4302	broad.mit.edu	37	chr17	36873792	36873793	+	Frame_Shift_Ins	INS	-	-	C													0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ggggcccccagggacctcggINSccctgccccgcctcagccgc							TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr17:36873792_36873793insC	ENST00000325718.7	+	11	1850_1851	c.1759_1760insC	c.(1759-1761)gccfs	p.A587fs	CTB-58E17.9_ENST00000579499.1_RNA|MIR4726_ENST00000577947.1_RNA	NM_005937.3	NP_005928	P55198	AF17_HUMAN	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 6	587					regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	zinc ion binding (GO:0008270)			breast(3)|lung(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	8	Breast(7;4.43e-21)					AGGGACCTCGGCCCTGCCCCGC	0.663			T	MLL	AL																																		Dom	yes		17	17q21	4302	"myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 6 (AF17)"		L	0																																										SO:0001589	frameshift_variant	4302				CCDS11327.1	17q21	2014-04-10	2001-11-28		ENSG00000108292	ENSG00000275023		"Zinc fingers, PHD-type"	7138	protein-coding gene	gene with protein product	"Myeloid/lymphoid or mixed-lineage leukemia, translocated to, 6", "trithorax homolog"	600328	"myeloid/lymphoid or mixed-lineage leukemia (trithorax (Drosophila) homolog); translocated to, 6"			8058765	Standard	NM_005937		Approved	AF17, FLJ23480	uc002hqi.4	P55198	OTTHUMG00000188498	ENST00000325718.7:c.1762dupC	17.37:g.36873795_36873795dupC	ENSP00000316426:p.Ala587fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q59F28|Q96IU3|Q9H5F6|Q9UF49	Frame_Shift_Ins	INS	ENST00000325718.7	37	CCDS11327.1																																																																																				0.663	MLLT6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256799.1	NM_005937		C	36873793	-	C	36873792	7	5	653	1	0	1	1	0	0	0	0	0	9637	1203	42	0	1801	0	MLLT6	17	36873792	Frame_Shift_Ins	INS	-	TCGA-KM-8477-01A-11D-2310-10	29487558	36873792	44321418	46	40537										
ZNF136	7695	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr19	12296934	12296934	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	gggtctctgttttagggaaaAaatggaaggaccagaacatt	12	5	1	1	rs536989294		TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr19:12296934A>C	ENST00000343979.4	+	3	276	c.136A>C	c.(136-138)Aaa>Caa	p.K46Q	ZNF136_ENST00000398616.2_5'UTR	NM_003437.3	NP_003428.1	P52737	ZN136_HUMAN	zinc finger protein 136	46	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|transcription corepressor activity (GO:0003714)			NS(1)|biliary_tract(1)|kidney(3)|large_intestine(2)|lung(6)|ovary(1)|pancreas(1)|skin(1)|upper_aerodigestive_tract(2)	18						TTTAGGGAAAAAATGGAAGGA	0.343																																																0													37	36	36					19																	12296934		2202	4299	6501	SO:0001583	missense	7695			U09367	CCDS32916.1	19p13.2	2013-01-08	2006-06-13		ENSG00000196646	ENSG00000196646		"Zinc fingers, C2H2-type", "-"	12920	protein-coding gene	gene with protein product		604078	"zinc finger protein 136 (clone pHZ-20)"			7557990	Standard	NM_003437		Approved	pHZ-20	uc002mti.3	P52737	OTTHUMG00000156429	ENST00000343979.4:c.136A>C	19.37:g.12296934A>C	ENSP00000344162:p.Lys46Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000343979.4	37	CCDS32916.1	.	.	.	.	.	.	.	.	.	.	A	9.230	1.035503	0.19590	.	.	ENSG00000196646	ENST00000425827;ENST00000343979;ENST00000418338	T;T;T	0.44881	1.79;5.69;0.91	1.93	0.672	0.17935	Krueppel-associated box (3);	.	.	.	.	T	0.17874	0.0429	N	0.16066	0.365	0.18873	N	0.999988	B	0.29862	0.259	B	0.19666	0.026	T	0.15178	-1.0446	9	0.18710	T	0.47	.	2.3354	0.04246	0.4933:0.3087:0.198:0.0	.	46	P52737	ZN136_HUMAN	Q	14;46;14	ENSP00000403707:K14Q;ENSP00000344162:K46Q;ENSP00000397176:K14Q	ENSP00000344162:K46Q	K	+	1	0	ZNF136	12157934	0.115000	0.22152	0.003000	0.11579	0.127000	0.20565	2.578000	0.46051	0.888000	0.36160	0.533000	0.62120	AAA		0.343	ZNF136-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344151.2	NM_003437		C	12296934	A	C	12296934	3	2	653	1	0	0	0	0	1	0	0	0	17738	15	1	5	146	5	ZNF136	19	12296934	Missense_Mutation	SNP	A	TCGA-KM-8477-01A-11D-2310-10		12296934	46832049	47	40538										
F2RL3	9002	mdanderson.org	37	chr19	17000632	17000632	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	tgctgctgatgaacctcgcgGctgctgacctcctgctggcc	12	15	0	3	rs773902	byFrequency	TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr19:17000632G>A	ENST00000248076.3	+	2	688	c.358G>A	c.(358-360)Gct>Act	p.A120T	F2RL3_ENST00000599210.1_3'UTR	NM_003950.2	NP_003941.2	Q96RI0	PAR4_HUMAN	coagulation factor II (thrombin) receptor-like 3	120			A -> T (in dbSNP:rs773902). {ECO:0000269|PubMed:9618465, ECO:0000269|PubMed:9716134, ECO:0000269|PubMed:9722561}.		blood coagulation (GO:0007596)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|platelet activation (GO:0030168)|platelet dense granule organization (GO:0060155)|positive regulation of release of sequestered calcium ion into cytosol (GO:0051281)|response to wounding (GO:0009611)|signal transduction (GO:0007165)	extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	thrombin receptor activity (GO:0015057)			cervix(1)|lung(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	7						GAACCTCGCGGCTGCTGACCT	0.741													G|||	1713	0.342053	0.615	0.2911	5008	,	,		14611	0.2371		0.2058	False		,,,				2504	0.2577															0								G	THR/ALA	2354,1990		672,1010,490	11	10	11		358	0.9	0	19	dbSNP_86	11	1691,6781		190,1311,2735	yes	missense	F2RL3	NM_003950.2	58	862,2321,3225	AA,AG,GG		19.9599,45.8103,31.5621	benign	120/386	17000632	4045,8771	2172	4236	6408	SO:0001583	missense	9002			AF055917	CCDS12350.1	19p12	2012-08-08						"GPCR / Class A : Protease activated receptors"	3540	protein-coding gene	gene with protein product	"proteinase-activated receptor-4"	602779				9618465	Standard	XM_005260139		Approved	PAR4	uc002nfa.3	Q96RI0		ENST00000248076.3:c.358G>A	19.37:g.17000632G>A	ENSP00000248076:p.Ala120Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O76067|Q6DK42	Missense_Mutation	SNP	ENST00000248076.3	37	CCDS12350.1	647	0.29624542124542125	263	0.5345528455284553	108	0.2983425414364641	130	0.22727272727272727	146	0.19261213720316622	G	8.642	0.896247	0.17686	0.541897	0.199599	ENSG00000127533	ENST00000248076	T	0.37752	1.18	4.3	0.917	0.19380	GPCR, rhodopsin-like superfamily (1);	0.571113	0.15977	U	0.235519	T	0.00012	0.0000	L	0.50333	1.59	0.80722	P	0.0	B	0.33135	0.399	B	0.40782	0.34	T	0.45920	-0.9228	9	0.36615	T	0.2	.	5.4574	0.16598	0.244:0.0:0.6162:0.1398	rs773902;rs936378;rs58632682;rs773902	120	Q96RI0	PAR4_HUMAN	T	120	ENSP00000248076:A120T	ENSP00000248076:A120T	A	+	1	0	F2RL3	16861632	0.002000	0.14202	0.001000	0.08648	0.142000	0.21351	1.267000	0.33050	0.003000	0.14656	-0.336000	0.08194	GCT		0.741	F2RL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462875.1			A	17000632	G	A	17000632	3	1	653	1	0	0	0	0	1	0	0	0	5348	1203	42	2	364	2	F2RL3	19	17000632	Missense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10	4703698	17000632	42128351	48	40539										
SLC7A10	56301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	33702229	33702229	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	tagcccagcagcttctccccGaaggtctgggtgggcacagt	13	13	2	0			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr19:33702229G>A	ENST00000253188.4	-	7	1064	c.918C>T	c.(916-918)ttC>ttT	p.F306F		NM_019849.2	NP_062823.1	Q9NS82	AAA1_HUMAN	solute carrier family 7 (neutral amino acid transporter light chain, asc system), member 10	306					amino acid transport (GO:0006865)|blood coagulation (GO:0007596)|D-alanine transport (GO:0042941)|D-serine transport (GO:0042942)|ion transport (GO:0006811)|L-serine transport (GO:0015825)|leukocyte migration (GO:0050900)|neutral amino acid transport (GO:0015804)|transmembrane transport (GO:0055085)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	L-serine transmembrane transporter activity (GO:0015194)|neutral amino acid transmembrane transporter activity (GO:0015175)			central_nervous_system(1)|kidney(1)|large_intestine(4)|lung(8)|ovary(2)|skin(1)|stomach(1)	18	Esophageal squamous(110;0.137)					GCTTCTCCCCGAAGGTCTGGG	0.622																																																0													60	56	57					19																	33702229		2203	4300	6503	SO:0001819	synonymous_variant	56301			AB037670	CCDS12431.1	19q13.11	2013-05-28	2011-07-12		ENSG00000130876	ENSG00000130876		"Solute carriers"	11058	protein-coding gene	gene with protein product		607959				10734121, 10863037	Standard	NM_019849		Approved	asc-1	uc002num.2	Q9NS82	OTTHUMG00000180344	ENST00000253188.4:c.918C>T	19.37:g.33702229G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RE84	Silent	SNP	ENST00000253188.4	37	CCDS12431.1																																																																																				0.622	SLC7A10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450846.2	NM_019849		A	33702229	G	A	33702229	2	1	653	1	0	0	0	0	0	0	0	1	14706	1049	37	1		1	SLC7A10	19	33702229	Silent	SNP	G	TCGA-KM-8477-01A-11D-2310-10	16701597	33702229	25426754	49	40540										
CEACAM5	1048	broad.mit.edu	37	chr19	42219764	42219764	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	tagtggatcctatacgtgccAagcccataactcagacactg	8	12	1	1			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr19:42219764A>G	ENST00000221992.6	+	4	1013	c.899A>G	c.(898-900)cAa>cGa	p.Q300R	CEA_ENST00000598976.1_Intron|CEACAM5_ENST00000398599.4_Missense_Mutation_p.Q300R|CEACAM5_ENST00000405816.1_Missense_Mutation_p.Q300R	NM_004363.2	NP_004354.2	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion molecule 5	300	Ig-like 3.				homotypic cell-cell adhesion (GO:0034109)|negative regulation of anoikis (GO:2000811)|negative regulation of apoptotic process (GO:0043066)|negative regulation of myotube differentiation (GO:0010832)	anchored component of membrane (GO:0031225)|basolateral plasma membrane (GO:0016323)|extracellular vesicular exosome (GO:0070062)|integral component of external side of plasma membrane (GO:0071575)|integral component of plasma membrane (GO:0005887)	GPI anchor binding (GO:0034235)|identical protein binding (GO:0042802)|protein homodimerization activity (GO:0042803)			breast(1)|endometrium(3)|kidney(5)|large_intestine(4)|lung(10)|ovary(2)|skin(7)|stomach(1)|urinary_tract(1)	34				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		TATACGTGCCAAGCCCATAAC	0.473																																																0													128	107	114					19																	42219764		2203	4300	6503	SO:0001583	missense	1048			M17303	CCDS12584.1	19q13.1-q13.2	2013-01-29			ENSG00000105388	ENSG00000105388		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	1817	protein-coding gene	gene with protein product		114890		CEA			Standard	XM_005258413		Approved	CD66e	uc002orl.3	P06731	OTTHUMG00000151061	ENST00000221992.6:c.899A>G	19.37:g.42219764A>G	ENSP00000221992:p.Gln300Arg	Somatic		WXS	Illumina HiSeq	Phase_I	H9KVA7	Missense_Mutation	SNP	ENST00000221992.6	37	CCDS12584.1	.	.	.	.	.	.	.	.	.	.	-	1.424	-0.572155	0.03882	.	.	ENSG00000105388	ENST00000221992;ENST00000405816	T;T	0.10763	2.84;2.84	3.12	0.291	0.15732	Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.07503	0.0189	N	0.16037	0.36	0.09310	N	1	B;B	0.21688	0.027;0.059	B;B	0.36335	0.161;0.222	T	0.49560	-0.8927	9	0.25106	T	0.35	.	6.413	0.21702	0.5553:0.0:0.0:0.4447	.	300;300	P06731;Q53G30	CEAM5_HUMAN;.	R	300	ENSP00000221992:Q300R;ENSP00000385072:Q300R	ENSP00000221992:Q300R	Q	+	2	0	CEACAM5	46911604	0.000000	0.05858	0.009000	0.14445	0.278000	0.26855	-1.272000	0.02826	-0.559000	0.06110	0.172000	0.16884	CAA		0.473	CEACAM5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000321132.2	NM_004363		G	42219764	A	G	42219764	3	3	653	1	0	0	0	0	1	0	0	0	3197	130	5	3	913	3	CEACAM5	19	42219764	Missense_Mutation	SNP	A	TCGA-KM-8477-01A-11D-2310-10	8517535	42219764	16909219	50	40541										
PAX1	5075	mdanderson.org	37	chr20	21695347	21695347	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	cggcccgcggggtgcacgccCagccagcccccaggcccagc	14	21	0	0	rs17861061	byFrequency	TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr20:21695347C>T	ENST00000398485.2	+	5	1565	c.1511C>T	c.(1510-1512)cCa>cTa	p.P504L	PAX1_ENST00000444366.2_3'UTR	NM_001257096.1|NM_006192.4	NP_001244025.1|NP_006183.2	P15863	PAX1_HUMAN	paired box 1	504			P -> L (in dbSNP:rs17861061). {ECO:0000269|Ref.2}.		bone morphogenesis (GO:0060349)|CD4-positive, alpha-beta T cell differentiation (GO:0043367)|CD8-positive, alpha-beta T cell differentiation (GO:0043374)|cell proliferation (GO:0008283)|parathyroid gland development (GO:0060017)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|sclerotome development (GO:0061056)|skeletal system development (GO:0001501)|somitogenesis (GO:0001756)|thymus development (GO:0048538)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)			autonomic_ganglia(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(2)|lung(21)|prostate(3)|skin(1)|upper_aerodigestive_tract(3)	38						GGTGCACGCCCAGCCAGCCCC	0.682													C|||	36	0.0071885	0.0008	0.0058	5008	,	,		12098	0.0		0.0199	False		,,,				2504	0.0112															0								C	LEU/PRO	13,4389	19.1+/-41.9	0,13,2188	40	38	38		1511	-6.6	0	20	dbSNP_123	38	162,8436	73.8+/-136.5	3,156,4140	no	missense	PAX1	NM_006192.3	98	3,169,6328	TT,TC,CC		1.8842,0.2953,1.3462	probably-damaging	504/535	21695347	175,12825	2201	4299	6500	SO:0001583	missense	5075				CCDS13146.2, CCDS74709.1	20p11.22	2007-07-12	2007-07-12		ENSG00000125813	ENSG00000125813		"Paired boxes"	8615	protein-coding gene	gene with protein product		167411	"paired box gene 1"			1358810	Standard	NM_006192		Approved		uc002wsj.3	P15863	OTTHUMG00000032034	ENST00000398485.2:c.1511C>T	20.37:g.21695347C>T	ENSP00000381499:p.Pro504Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4E0D6|Q642X9|Q6NTC0|Q9Y558	Missense_Mutation	SNP	ENST00000398485.2	37	CCDS13146.2	18	0.008241758241758242	1	0.0020325203252032522	4	0.011049723756906077	0	0.0	13	0.017150395778364115	C	4.886	0.164741	0.09287	0.002953	0.018842	ENSG00000125813	ENST00000398485	D	0.97575	-4.44	3.31	-6.62	0.01813	.	.	.	.	.	D	0.84401	0.5464	N	0.14661	0.345	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.78033	-0.2362	9	0.87932	D	0	.	8.4104	0.32640	0.0:0.2143:0.5872:0.1985	rs17861061	504	P15863	PAX1_HUMAN	L	504	ENSP00000381499:P504L	ENSP00000381499:P504L	P	+	2	0	PAX1	21643347	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-1.001000	0.03690	-1.400000	0.02061	-1.365000	0.01206	CCA		0.682	PAX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078282.3			T	21695347	C	T	21695347	3	4	653	1	0	0	0	0	1	0	0	0	11485	594	21	2	1529	2	PAX1	20	21695347	Missense_Mutation	SNP	C	TCGA-KM-8477-01A-11D-2310-10		21695347	41330173	51	40542										
CTNNBL1	56259	broad.mit.edu;hgsc.bcm.edu	37	chr20	36470751	36470752	+	Frame_Shift_Ins	INS	-	-	A													0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ctctttcaggttgacagactINSaatggagttgcattttaaat							TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr20:36470751_36470752insA	ENST00000361383.6	+	13	1439_1440	c.1322_1323insA	c.(1321-1326)ctaatgfs	p.M442fs	CTNNBL1_ENST00000373473.1_Frame_Shift_Ins_p.M255fs|CTNNBL1_ENST00000473857.1_3'UTR|CTNNBL1_ENST00000373469.1_Frame_Shift_Ins_p.M190fs|CTNNBL1_ENST00000405275.2_Frame_Shift_Ins_p.M415fs	NM_030877.3	NP_110517.2	Q8WYA6	CTBL1_HUMAN	catenin, beta like 1	442					apoptotic process (GO:0006915)|mRNA processing (GO:0006397)|positive regulation of apoptotic process (GO:0043065)|RNA splicing (GO:0008380)|somatic diversification of immunoglobulins (GO:0016445)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)|Prp19 complex (GO:0000974)|spliceosomal complex (GO:0005681)	enzyme binding (GO:0019899)			autonomic_ganglia(1)|breast(2)|endometrium(9)|large_intestine(6)|lung(6)|ovary(3)|urinary_tract(1)	28		Myeloproliferative disorder(115;0.00878)				GTTGACAGACTAATGGAGTTGC	0.46																																					Ovarian(184;582 2038 3273 4106 42608)											0																																										SO:0001589	frameshift_variant	56259			AL023804	CCDS13298.1	20q11.23-q12	2011-06-03	2002-05-27	2002-05-31	ENSG00000132792	ENSG00000132792			15879	protein-coding gene	gene with protein product	"nuclear associated protein"	611537	"chromosome 20 open reading frame 33"	C20orf33		12659813, 21385873	Standard	NM_030877		Approved	FLJ21108, P14L, P14, NAP, NYD-SP19	uc021wdj.1	Q8WYA6	OTTHUMG00000032428	ENST00000361383.6:c.1324dupA	20.37:g.36470753_36470753dupA	ENSP00000355050:p.Met442fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DE16|Q0VAL9|Q0VAM0|Q53HI8|Q5JWZ2|Q5JWZ3|Q5JWZ7|Q5JWZ8|Q8N454|Q8NCL2|Q8TBD6|Q96KD2|Q9H7A5|Q9NQF9|Q9NTX0|Q9Y3M7	Frame_Shift_Ins	INS	ENST00000361383.6	37	CCDS13298.1																																																																																				0.46	CTNNBL1-001	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079125.1	NM_030877		A	36470752	-	A	36470751	7	5	653	1	0	1	1	0	0	0	0	0	4020	1522	53	0	1372	0	CTNNBL1	20	36470751	Frame_Shift_Ins	INS	-	TCGA-KM-8477-01A-11D-2310-10	14775404	36470751	26554769	52	40543	364	2								
CTNNBL1	56259	bcgsc.ca	37	chr20	36470752	36470753	+	Frame_Shift_Ins	INS	-	-	A													0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	tctttcaggttgacagactaINSatggagttgcattttaaata							TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr20:36470752_36470753insA	ENST00000361383.6	+	13	1440_1441	c.1323_1324insA	c.(1324-1326)atgfs	p.M442fs	CTNNBL1_ENST00000373473.1_Frame_Shift_Ins_p.M255fs|CTNNBL1_ENST00000473857.1_3'UTR|CTNNBL1_ENST00000373469.1_Frame_Shift_Ins_p.M190fs|CTNNBL1_ENST00000405275.2_Frame_Shift_Ins_p.M415fs	NM_030877.3	NP_110517.2	Q8WYA6	CTBL1_HUMAN	catenin, beta like 1	442					apoptotic process (GO:0006915)|mRNA processing (GO:0006397)|positive regulation of apoptotic process (GO:0043065)|RNA splicing (GO:0008380)|somatic diversification of immunoglobulins (GO:0016445)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)|Prp19 complex (GO:0000974)|spliceosomal complex (GO:0005681)	enzyme binding (GO:0019899)			autonomic_ganglia(1)|breast(2)|endometrium(9)|large_intestine(6)|lung(6)|ovary(3)|urinary_tract(1)	28		Myeloproliferative disorder(115;0.00878)				TTGACAGACTAATGGAGTTGCA	0.455																																					Ovarian(184;582 2038 3273 4106 42608)											0																																										SO:0001589	frameshift_variant	56259			AL023804	CCDS13298.1	20q11.23-q12	2011-06-03	2002-05-27	2002-05-31	ENSG00000132792	ENSG00000132792			15879	protein-coding gene	gene with protein product	"nuclear associated protein"	611537	"chromosome 20 open reading frame 33"	C20orf33		12659813, 21385873	Standard	NM_030877		Approved	FLJ21108, P14L, P14, NAP, NYD-SP19	uc021wdj.1	Q8WYA6	OTTHUMG00000032428	ENST00000361383.6:c.1324dupA	20.37:g.36470753_36470753dupA	ENSP00000355050:p.Met442fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DE16|Q0VAL9|Q0VAM0|Q53HI8|Q5JWZ2|Q5JWZ3|Q5JWZ7|Q5JWZ8|Q8N454|Q8NCL2|Q8TBD6|Q96KD2|Q9H7A5|Q9NQF9|Q9NTX0|Q9Y3M7	Frame_Shift_Ins	INS	ENST00000361383.6	37	CCDS13298.1																																																																																				0.455	CTNNBL1-001	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079125.1	NM_030877		A	36470753	-	A	36470752	7	5	653	1	0	1	1	0	0	0	0	0	4020	349	13	0	1373	0	CTNNBL1	20	36470752	Frame_Shift_Ins	INS	-	TCGA-KM-8477-01A-11D-2310-10	1	36470752	26554768	53	40544	364	2								
NTSR1	4923	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr20	61386087	61386087	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	atggtggtcatctcggtcctGaacaccatcatcgccaacaa	8	13	3	1			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr20:61386087G>T	ENST00000370501.3	+	2	1136	c.765G>T	c.(763-765)ctG>ctT	p.L255L		NM_002531.2	NP_002522.2	P30989	NTR1_HUMAN	neurotensin receptor 1 (high affinity)	255					adult locomotory behavior (GO:0008344)|G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of apoptotic process (GO:0043066)|neuropeptide signaling pathway (GO:0007218)|synaptic transmission (GO:0007268)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)	G-protein coupled neurotensin receptor activity (GO:0016492)|G-protein coupled receptor activity (GO:0004930)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(16)|prostate(1)|skin(3)	27	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;3.63e-06)			TCTCGGTCCTGAACACCATCA	0.607																																					GBM(37;400 780 6403 19663 35669)											0													162	134	144					20																	61386087		2203	4300	6503	SO:0001819	synonymous_variant	4923				CCDS13502.1	20q13	2012-08-08			ENSG00000101188	ENSG00000101188		"GPCR / Class A : Neurotensin receptors"	8039	protein-coding gene	gene with protein product		162651				8075503	Standard	NM_002531		Approved	NTR	uc002ydf.3	P30989	OTTHUMG00000032932	ENST00000370501.3:c.765G>T	20.37:g.61386087G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H4H1|Q9H4T5	Silent	SNP	ENST00000370501.3	37	CCDS13502.1																																																																																				0.607	NTSR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080061.1			T	61386087	G	T	61386087	2	4	653	1	0	0	0	0	0	0	0	1	10717	1277	45	4		4	NTSR1	20	61386087	Silent	SNP	G	TCGA-KM-8477-01A-11D-2310-10	24915335	61386087	1639433	54	40545										
PRIC285	85441	ucsc.edu	37	chr20	62196705	62196705	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	cacagtccaggcggcccctgAcctggatggggcccgaggag	16	14	0	1			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chr20:62196705A>G	ENST00000467148.1	-	8	3539	c.3470T>C	c.(3469-3471)gTc>gCc	p.V1157A	HELZ2_ENST00000427522.2_Missense_Mutation_p.V588A	NM_001037335.2	NP_001032412.2	Q9BYK8	HELZ2_HUMAN	helicase with zinc finger 2, transcriptional coactivator	1157					cellular lipid metabolic process (GO:0044255)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	membrane (GO:0016020)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)										GCGGCCCCTGACCTGGATGGG	0.711																																																0													9	10	9					20																	62196705		2164	4260	6424	SO:0001583	missense	85441			AB201715	CCDS13527.1, CCDS33508.1	20q13.33	2012-09-26			ENSG00000130589	ENSG00000130589			30021	protein-coding gene	gene with protein product	"peroxisomal proliferator activated receptor A interacting complex 285", "PPARG-DBD-interacting protein 1"	611265				11214970, 12189208, 16239304	Standard	NM_001037335		Approved	PDIP1, PRIC285, KIAA1769	uc002yfm.2	Q9BYK8	OTTHUMG00000032969	ENST00000467148.1:c.3470T>C	20.37:g.62196705A>G	ENSP00000417401:p.Val1157Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q3C2G2|Q4VXQ1|Q8TEF3|Q96ND3|Q9C094	Missense_Mutation	SNP	ENST00000467148.1	37	CCDS33508.1	.	.	.	.	.	.	.	.	.	.	A	11.49	1.653072	0.29336	.	.	ENSG00000130589	ENST00000427522;ENST00000467148	T;T	0.28069	1.63;1.63	4.63	4.63	0.57726	.	0.946184	0.08776	N	0.895455	T	0.31638	0.0803	L	0.44542	1.39	0.33592	D	0.601212	P;P	0.42692	0.682;0.787	B;B	0.39258	0.218;0.295	T	0.45644	-0.9247	10	0.87932	D	0	-24.4941	14.036	0.64644	1.0:0.0:0.0:0.0	.	1157;588	Q9BYK8;Q9BYK8-2	PR285_HUMAN;.	A	588;1157	ENSP00000393257:V588A;ENSP00000417401:V1157A	ENSP00000393257:V588A	V	-	2	0	RP4-697K14.7	61667149	1.000000	0.71417	0.505000	0.27651	0.119000	0.20118	5.905000	0.69893	1.724000	0.51502	0.402000	0.26972	GTC		0.711	HELZ2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354127.1	NM_001037335		G	62196705	A	G	62196705	3	3	653	1	0	0	0	0	1	0	0	0	12495	275	10	3	4527	3	PRIC285	20	62196705	Missense_Mutation	SNP	A	TCGA-KM-8477-01A-11D-2310-10	810618	62196705	828815	55	40546										
USP9X	8239	broad.mit.edu	37	chrX	41010226	41010226	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	tcgctttatagaagaacttcGcacaaatgacaaatgggtta	8	7	0	3			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chrX:41010226G>T	ENST00000324545.8	+	13	2312	c.1679G>T	c.(1678-1680)cGc>cTc	p.R560L	USP9X_ENST00000378308.2_Missense_Mutation_p.R560L	NM_001039590.2|NM_001039591.2	NP_001034679.2|NP_001034680.2	Q93008	USP9X_HUMAN	ubiquitin specific peptidase 9, X-linked	560					axon extension (GO:0048675)|BMP signaling pathway (GO:0030509)|cerebellar cortex structural organization (GO:0021698)|chromosome segregation (GO:0007059)|female gamete generation (GO:0007292)|gene expression (GO:0010467)|hippocampus development (GO:0021766)|in utero embryonic development (GO:0001701)|mitotic nuclear division (GO:0007067)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron migration (GO:0001764)|post-embryonic development (GO:0009791)|protein deubiquitination (GO:0016579)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|ubiquitin-dependent protein catabolic process (GO:0006511)	apical part of cell (GO:0045177)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|growth cone (GO:0030426)|membrane (GO:0016020)	co-SMAD binding (GO:0070410)|cysteine-type endopeptidase activity (GO:0004197)|cysteine-type peptidase activity (GO:0008234)|ubiquitin thiolesterase activity (GO:0004221)			NS(3)|breast(6)|central_nervous_system(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(6)|large_intestine(16)|lung(29)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	87						GAAGAACTTCGCACAAATGAC	0.338																																					Ovarian(172;1807 2695 35459 49286)											0													49	44	46					X																	41010226		2165	4277	6442	SO:0001583	missense	8239			X98296	CCDS43930.1, CCDS55403.1	Xp11.4	2010-08-03	2006-02-14		ENSG00000124486	ENSG00000124486		"Ubiquitin-specific peptidases"	12632	protein-coding gene	gene with protein product		300072	"ubiquitin specific protease 9, X chromosome (fat facets-like Drosophila)", "ubiquitin specific protease 9, X-linked (fat facets-like, Drosophila)", "ubiquitin specific peptidase 9, X-linked (fat facets-like, Drosophila)"			8922996	Standard	NM_001039590		Approved	DFFRX, FAF	uc004dfb.3	Q93008	OTTHUMG00000021367	ENST00000324545.8:c.1679G>T	X.37:g.41010226G>T	ENSP00000316357:p.Arg560Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O75550|Q8WWT3|Q8WX12	Missense_Mutation	SNP	ENST00000324545.8	37	CCDS43930.1	.	.	.	.	.	.	.	.	.	.	G	17.02	3.281499	0.59758	.	.	ENSG00000124486	ENST00000378308;ENST00000324545	T;T	0.02974	4.1;4.09	5.19	5.19	0.71726	Armadillo-like helical (1);	0.000000	0.85682	D	0.000000	T	0.04952	0.0133	L	0.31664	0.95	0.80722	D	1	P;P	0.48640	0.913;0.858	P;B	0.47044	0.535;0.334	T	0.55952	-0.8059	10	0.37606	T	0.19	.	17.8627	0.88786	0.0:0.0:1.0:0.0	.	560;560	Q93008-1;Q93008	.;USP9X_HUMAN	L	560	ENSP00000367558:R560L;ENSP00000316357:R560L	ENSP00000316357:R560L	R	+	2	0	USP9X	40895170	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.357000	0.97099	2.151000	0.67156	0.468000	0.43344	CGC		0.338	USP9X-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000056250.4	NM_004652		T	41010226	G	T	41010226	3	4	653	1	0	0	0	0	1	0	0	0	17102	1087	38	4	1725	4	USP9X	23	41010226	Missense_Mutation	SNP	G	TCGA-KM-8477-01A-11D-2310-10		41010226	114260334	56	40547										
RBM10	8241	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	47041266	47041266	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0545454545454545	3	1	0.9232	0	1.00347826086957	0.142857142857143	1	0	ggaatcctacagccagtaccGtgagtagccacagcctgtgg	12	12	0	1			TCGA-KM-8477-01A-11D-2310-10	TCGA-KM-8477-10A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4ecbfd89-393f-4126-aa1c-951a2c23ef89	685b8712-1fe3-49fc-8f73-a1d25a089282	g.chrX:47041266G>A	ENST00000377604.3	+	15	2435		c.e15+1		RBM10_ENST00000329236.7_Splice_Site|RBM10_ENST00000345781.6_Splice_Site	NM_001204467.1|NM_001204468.1|NM_005676.4	NP_001191396.1|NP_001191397.1|NP_005667.2	P98175	RBM10_HUMAN	RNA binding motif protein 10						3'-UTR-mediated mRNA stabilization (GO:0070935)|mRNA processing (GO:0006397)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of smooth muscle cell apoptotic process (GO:0034393)|RNA splicing (GO:0008380)	nucleus (GO:0005634)	identical protein binding (GO:0042802)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein complex binding (GO:0032403)|zinc ion binding (GO:0008270)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(8)|large_intestine(10)|liver(1)|lung(14)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	48						AGCCAGTACCGTGAGTAGCCA	0.592																																					Melanoma(171;120 2705 19495 39241)											0													44	39	41					X																	47041266		2203	4300	6503	SO:0001630	splice_region_variant	8241			U35373	CCDS14274.1, CCDS56600.1, CCDS75969.1	Xp11.3	2014-06-09			ENSG00000182872	ENSG00000182872		"Zinc fingers, RAN-binding domain containing", "G patch domain containing", "RNA binding motif (RRM) containing"	9896	protein-coding gene	gene with protein product		300080				8590280, 8808293	Standard	NM_005676		Approved	DXS8237E, KIAA0122, GPATC9, ZRANB5, GPATCH9	uc004dhi.3	P98175	OTTHUMG00000021432	ENST00000377604.3:c.1693+1G>A	X.37:g.47041266G>A		Somatic		WXS	Illumina HiSeq	Phase_I	C4AM81|Q14136|Q5JRR2|Q9BTE4|Q9BTX0|Q9NTB1	Splice_Site	SNP	ENST00000377604.3	37	CCDS14274.1	.	.	.	.	.	.	.	.	.	.	G	17.07	3.293838	0.60086	.	.	ENSG00000182872	ENST00000377604;ENST00000329236;ENST00000345781	.	.	.	4.75	4.75	0.60458	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	12.1129	0.53850	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	RBM10	46926210	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	5.386000	0.66238	2.347000	0.79759	0.525000	0.51046	.		0.592	RBM10-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056381.1	NM_005676	Intron	A	47041266	G	A	47041266	5	1	653	1	0	0	0	0	0	0	1	0	13124	1159	40	1	1748	1	RBM10	23	47041266	Splice_Site	SNP	G	TCGA-KM-8477-01A-11D-2310-10	6031040	47041266	108229294	57	40548										
BMP8A	353500	broad.mit.edu	37	chr1	39987055	39987055	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ctttctgtctcagggcacagCgtggatcctggcctggccgg	14	13	2	0			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr1:39987055C>T	ENST00000331593.5	+	4	1027	c.681C>T	c.(679-681)agC>agT	p.S227S	RP11-69E11.4_ENST00000440190.1_RNA|RP11-69E11.4_ENST00000450157.1_RNA|RP11-69E11.4_ENST00000331856.2_RNA|RP11-69E11.4_ENST00000458207.1_RNA|RP11-69E11.4_ENST00000441741.1_RNA|RP11-69E11.4_ENST00000417869.1_RNA|RP11-69E11.4_ENST00000431553.1_RNA	NM_181809.3	NP_861525.2	Q7Z5Y6	BMP8A_HUMAN	bone morphogenetic protein 8a	227					cartilage development (GO:0051216)|cell differentiation (GO:0030154)|diet induced thermogenesis (GO:0002024)|growth (GO:0040007)|negative regulation of insulin secretion (GO:0046676)|ossification (GO:0001503)|regulation of energy homeostasis (GO:2000505)	extracellular space (GO:0005615)				kidney(1)|large_intestine(2)|lung(1)|skin(1)	5	Lung NSC(20;2.08e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;9.69e-19)|Epithelial(16;9.34e-17)|all cancers(16;1.73e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			CAGGGCACAGCGTGGATCCTG	0.672																																																0													17	15	16					1																	39987055		1801	3426	5227	SO:0001819	synonymous_variant	353500			AY303954	CCDS437.1	1p35-p32	2014-01-30			ENSG00000183682	ENSG00000183682		"Bone morphogenetic proteins", "Endogenous ligands"	21650	protein-coding gene	gene with protein product							Standard	NM_181809		Approved		uc001cdi.3	Q7Z5Y6	OTTHUMG00000008394	ENST00000331593.5:c.681C>T	1.37:g.39987055C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3A5	Silent	SNP	ENST00000331593.5	37	CCDS437.1																																																																																				0.672	BMP8A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023079.1	NM_181809		T	39987055	C	T	39987055	2	4	654	1	0	0	0	0	0	0	0	1	1466	767	27	1		1	BMP8A	1	39987055	Silent	SNP	C	TCGA-KM-8639-01A-11D-2397-10		39987055	209263566	1	40549										
MYBPHL	343263	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	109840820	109840820	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	gattagtaggttcactgtgtCcccaaccttccggatgtagg	11	10	1	0			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr1:109840820C>A	ENST00000357155.1	-	2	254	c.205G>T	c.(205-207)Gac>Tac	p.D69Y	MYBPHL_ENST00000477962.1_Intron	NM_001010985.2|NM_001265613.1	NP_001010985.2|NP_001252542.1	A2RUH7	MBPHL_HUMAN	myosin binding protein H-like	69	Ig-like C2-type 1.									central_nervous_system(1)|large_intestine(3)|lung(5)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(2)	14		all_lung(203;0.00519)|all_epithelial(167;0.00575)|Lung NSC(277;0.00822)		Colorectal(144;0.0306)|Lung(183;0.0681)|COAD - Colon adenocarcinoma(174;0.117)|Epithelial(280;0.197)|all cancers(265;0.225)		TTCACTGTGTCCCCAACCTTC	0.532																																																0													177	156	163					1																	109840820		2203	4300	6503	SO:0001583	missense	343263			AK129834	CCDS30793.1	1p13	2013-02-11			ENSG00000221986	ENSG00000221986		"Myosin binding proteins", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	30434	protein-coding gene	gene with protein product							Standard	NM_001010985		Approved		uc001dxk.1	A2RUH7	OTTHUMG00000012002	ENST00000357155.1:c.205G>T	1.37:g.109840820C>A	ENSP00000349678:p.Asp69Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZME5|Q5T2Z7	Missense_Mutation	SNP	ENST00000357155.1	37	CCDS30793.1	.	.	.	.	.	.	.	.	.	.	C	32	5.107050	0.94292	.	.	ENSG00000221986	ENST00000357155	T	0.47177	0.85	5.53	5.53	0.82687	Immunoglobulin subtype (1);Immunoglobulin I-set (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.62183	0.2407	M	0.72353	2.195	0.42276	D	0.992075	D;P	0.62365	0.991;0.942	D;P	0.68621	0.959;0.853	T	0.63296	-0.6669	9	0.66056	D	0.02	.	17.004	0.86388	0.0:1.0:0.0:0.0	.	69;69	B7ZME5;A2RUH7	.;MBPHL_HUMAN	Y	69	ENSP00000349678:D69Y	ENSP00000349678:D69Y	D	-	1	0	MYBPHL	109642343	1.000000	0.71417	0.979000	0.43373	0.996000	0.88848	7.240000	0.78192	2.882000	0.98803	0.655000	0.94253	GAC		0.532	MYBPHL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033197.1	NM_001010985		A	109840820	C	A	109840820	3	1	654	1	0	0	0	0	1	0	0	0	10022	855	30	4	887	4	MYBPHL	1	109840820	Missense_Mutation	SNP	C	TCGA-KM-8639-01A-11D-2397-10	69853765	109840820	139409801	2	40550										
GSTM5	2949	mdanderson.org	37	chr1	110257835	110257836	+	Silent	DNP	CT	CT	TC													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	tgcttggacgccttcctaaaCttgaaggacttcatctcccg					rs386634508|rs67757008|rs78183574|rs61744262	byFrequency	TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr1:110257835_110257836CT>TC	ENST00000256593.3	+	7	598_599	c.540_541CT>TC	c.(538-543)aaCTtg>aaTCtg	p.180_181NL>NL	GSTM5_ENST00000492718.1_3'UTR|GSTM5_ENST00000369812.5_Silent_p.199_200NL>NL|GSTM5_ENST00000369813.1_Silent_p.139_140NL>NL	NM_000851.3	NP_000842.2	P46439	GSTM5_HUMAN	glutathione S-transferase mu 5	180	GST C-terminal.				glutathione derivative biosynthetic process (GO:1901687)|glutathione metabolic process (GO:0006749)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)	glutathione transferase activity (GO:0004364)			NS(1)|central_nervous_system(6)|large_intestine(1)|lung(7)|ovary(1)|prostate(1)|skin(2)|urinary_tract(2)	21		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Colorectal(144;0.0131)|all cancers(265;0.0252)|Epithelial(280;0.0265)|Lung(183;0.0425)|COAD - Colon adenocarcinoma(174;0.0474)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	CCTTCCTAAACTTGAAGGACTT	0.48																																																0																																										SO:0001819	synonymous_variant	2949			L02321	CCDS811.1	1p13.3	2012-06-21	2008-11-26		ENSG00000134201	ENSG00000134201	2.5.1.18	"Glutathione S-transferases / Soluble"	4637	protein-coding gene	gene with protein product		138385	"glutathione S-transferase M5"			8473333	Standard	NM_000851		Approved		uc001dyn.3	P46439	OTTHUMG00000011644	Exception_encountered	1.37:g.110257835_110257836delinsTC		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0V8|Q6PD78	Silent	DNP	ENST00000256593.3	37	CCDS811.1																																																																																				0.48	GSTM5-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000032200.1	NM_000851		TC	110257836	CT	TC	110257835	2	4	654	1	0	0	0	0	0	0	0	1	6848	564	20	2		2	GSTM5	1	110257835	Silent	DNP	CT	TCGA-KM-8639-01A-11D-2397-10	417015	110257835	138992786	3	40551										
RNPEP	6051	broad.mit.edu	37	chr1	201969125	201969125	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	aaaacccactcaacaagctcCgcgtgaagattgaaccaggt	8	12	1	3	rs140770038		TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr1:201969125C>T	ENST00000295640.4	+	6	1229	c.1186C>T	c.(1186-1188)Cgc>Tgc	p.R396C	RNPEP_ENST00000471105.1_3'UTR|RP11-465N4.4_ENST00000415582.1_RNA|RP11-465N4.4_ENST00000419190.1_RNA|RNPEP_ENST00000367286.3_Missense_Mutation_p.R357C	NM_020216.3	NP_064601.3	Q9H4A4	AMPB_HUMAN	arginyl aminopeptidase (aminopeptidase B)	396					leukotriene biosynthetic process (GO:0019370)|proteolysis (GO:0006508)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	aminopeptidase activity (GO:0004177)|epoxide hydrolase activity (GO:0004301)|metalloexopeptidase activity (GO:0008235)|zinc ion binding (GO:0008270)			breast(1)|endometrium(4)|large_intestine(4)|lung(6)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	21				KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|Colorectal(1306;0.005)		CAACAAGCTCCGCGTGAAGAT	0.567											OREG0014093	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																									GBM(19;39 479 7473 13131 19462)											0													88	77	81					1																	201969125		2203	4300	6503	SO:0001583	missense	6051			BC001064	CCDS1418.1	1q32	2008-02-05			ENSG00000176393	ENSG00000176393	3.4.11.6		10078	protein-coding gene	gene with protein product		602675				9533033, 10467730	Standard	NM_020216		Approved		uc001gxd.3	Q9H4A4	OTTHUMG00000035866	ENST00000295640.4:c.1186C>T	1.37:g.201969125C>T	ENSP00000295640:p.Arg396Cys	Somatic	2125	WXS	Illumina HiSeq	Phase_I	Q9BVM9|Q9H1D4|Q9NPT7	Missense_Mutation	SNP	ENST00000295640.4	37	CCDS1418.1	.	.	.	.	.	.	.	.	.	.	C	14.71	2.615601	0.46631	.	.	ENSG00000176393	ENST00000295640;ENST00000367286;ENST00000447312	T;T;T	0.06294	3.95;3.32;3.78	5.21	4.29	0.51040	Peptidase M1, membrane alanine aminopeptidase, N-terminal (1);	0.000000	0.64402	D	0.000004	T	0.15305	0.0369	L	0.45698	1.435	0.54753	D	0.999983	D;D	0.89917	1.0;1.0	D;D	0.85130	0.993;0.997	T	0.00719	-1.1595	10	0.36615	T	0.2	-16.7858	8.8552	0.35223	0.1475:0.7705:0.0:0.0821	.	404;396	Q7RU04;Q9H4A4	.;AMPB_HUMAN	C	396;357;265	ENSP00000295640:R396C;ENSP00000356255:R357C;ENSP00000389602:R265C	ENSP00000295640:R396C	R	+	1	0	RNPEP	200235748	0.985000	0.35326	0.533000	0.28001	0.993000	0.82548	2.471000	0.45127	2.432000	0.82394	0.491000	0.48974	CGC		0.567	RNPEP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087345.1	NM_020216		T	201969125	C	T	201969125	3	4	654	1	0	0	0	0	1	0	0	0	13522	652	23	1	1208	1	RNPEP	1	201969125	Missense_Mutation	SNP	C	TCGA-KM-8639-01A-11D-2397-10	91711290	201969125	47281496	4	40552										
OBSCN	84033	broad.mit.edu	37	chr1	228471449	228471449	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	acattggccaggcccagtccCgggcccagctcctagtgcaa	11	16	0	0	rs376064743		TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr1:228471449C>T	ENST00000422127.1	+	33	9027	c.8983C>T	c.(8983-8985)Cgg>Tgg	p.R2995W	OBSCN_ENST00000284548.11_Missense_Mutation_p.R2995W|OBSCN_ENST00000366709.4_Missense_Mutation_p.R114W|OBSCN_ENST00000570156.2_Missense_Mutation_p.R3424W|OBSCN_ENST00000366707.4_Missense_Mutation_p.R114W|OBSCN_ENST00000359599.6_Missense_Mutation_p.R1842W	NM_001098623.2	NP_001092093.2	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF	2995	Ig-like 29.				apoptotic signaling pathway (GO:0097190)|multicellular organismal development (GO:0007275)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|protein localization to M-band (GO:0036309)|regulation of small GTPase mediated signal transduction (GO:0051056)|sarcomere organization (GO:0045214)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|M band (GO:0031430)|myofibril (GO:0030016)|Z disc (GO:0030018)	ankyrin binding (GO:0030506)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			NS(2)|breast(7)|central_nervous_system(5)|cervix(2)|endometrium(30)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(37)|lung(89)|ovary(8)|pancreas(3)|prostate(13)|skin(6)|stomach(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	223		Prostate(94;0.0405)				GGCCCAGTCCCGGGCCCAGCT	0.647													c|||	1	0.000199681	0.0008	0.0	5008	,	,		18543	0.0		0.0	False		,,,				2504	0.0															0									TRP/ARG,TRP/ARG	1,4075		0,1,2037	43	49	47		8983,8983	5.6	1	1		47	0,8344		0,0,4172	no	missense,missense	OBSCN	NM_001098623.1,NM_052843.2	101,101	0,1,6209	TT,TC,CC		0.0,0.0245,0.0081	probably-damaging,probably-damaging	2995/7969,2995/6621	228471449	1,12419	2038	4172	6210	SO:0001583	missense	84033			AJ002535	CCDS1570.2, CCDS58065.1, CCDS59204.1	1q42	2014-09-17			ENSG00000154358	ENSG00000154358		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	15719	protein-coding gene	gene with protein product		608616				11448995, 11814696	Standard	NM_001098623		Approved	KIAA1556, UNC89, KIAA1639, ARHGEF30	uc001hsq.2	Q5VST9	OTTHUMG00000039772	ENST00000422127.1:c.8983C>T	1.37:g.228471449C>T	ENSP00000409493:p.Arg2995Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q2A664|Q5T7G8|Q5T7G9|Q5VSU2|Q86YC7|Q8NHN0|Q8NHN1|Q8NHN2|Q8NHN3|Q8NHN4|Q8NHN5|Q8NHN6|Q8NHN7|Q8NHN8|Q8NHN9|Q96AA2|Q9HCD3|Q9HCL6	Missense_Mutation	SNP	ENST00000422127.1	37	CCDS58065.1	.	.	.	.	.	.	.	.	.	.	c	18.95	3.732170	0.69189	2.45E-4	0.0	ENSG00000154358	ENST00000284548;ENST00000422127;ENST00000366707;ENST00000366709;ENST00000359599;ENST00000366706;ENST00000366704	T;T;T;T;T	0.04917	3.53;3.53;3.53;3.53;3.53	5.6	5.6	0.85130	Immunoglobulin subtype (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.315524	0.27447	N	0.019329	T	0.21761	0.0524	M	0.82323	2.585	0.24539	N	0.994075	D;D;D	0.71674	0.998;0.969;0.998	P;P;P	0.56916	0.809;0.533;0.764	T	0.10042	-1.0647	10	0.72032	D	0.01	.	12.695	0.56999	0.2754:0.7246:0.0:0.0	.	2995;2995;2995	Q5VST9;Q5VST9-2;Q5VST9-3	OBSCN_HUMAN;.;.	W	2995;2995;114;114;1842;694;401	ENSP00000284548:R2995W;ENSP00000409493:R2995W;ENSP00000355668:R114W;ENSP00000355670:R114W;ENSP00000352613:R1842W	ENSP00000284548:R2995W	R	+	1	2	OBSCN	226538072	1.000000	0.71417	0.972000	0.41901	0.013000	0.08279	4.607000	0.61133	2.637000	0.89404	0.550000	0.68814	CGG		0.647	OBSCN-204	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_052843		T	228471449	C	T	228471449	3	4	654	1	0	0	0	0	1	0	0	0	10819	643	23	1	9109	1	OBSCN	1	228471449	Missense_Mutation	SNP	C	TCGA-KM-8639-01A-11D-2397-10	26502324	228471449	20779172	5	40553										
SLC4A5	57835	broad.mit.edu;mdanderson.org	37	chr2	74492256	74492256	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	atctgtggtaaggagccactGtccaaatccagcagcaccgt	10	12	1	0			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr2:74492256G>C	ENST00000377634.4	-	9	936	c.537C>G	c.(535-537)gaC>gaG	p.D179E	SLC4A5_ENST00000357822.5_Missense_Mutation_p.D179E|RP11-287D1.3_ENST00000451608.2_3'UTR|SLC4A5_ENST00000483195.1_5'UTR|SLC4A5_ENST00000358683.4_Missense_Mutation_p.D115E|SLC4A5_ENST00000394019.2_Missense_Mutation_p.D179E|SLC4A5_ENST00000359484.4_Missense_Mutation_p.D115E|SLC4A5_ENST00000377632.1_Missense_Mutation_p.D179E|SLC4A5_ENST00000423644.1_Missense_Mutation_p.D179E|SLC4A5_ENST00000346834.4_Missense_Mutation_p.D179E					solute carrier family 4 (sodium bicarbonate cotransporter), member 5											breast(5)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(12)|lung(13)|ovary(5)|pancreas(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	48						AGGAGCCACTGTCCAAATCCA	0.617																																																0													107	98	101					2																	74492256		2203	4300	6503	SO:0001583	missense	57835			AF243499	CCDS1936.1, CCDS1937.1	2p13.1	2013-07-19	2013-07-19		ENSG00000188687	ENSG00000188687		"Solute carriers"	18168	protein-coding gene	gene with protein product		606757	"solute carrier family 4, sodium bicarbonate cotransporter, member 5"			10978526, 11087115	Standard	NM_133478		Approved	NBC4	uc002sko.1	Q9BY07	OTTHUMG00000090263	ENST00000377634.4:c.537C>G	2.37:g.74492256G>C	ENSP00000366861:p.Asp179Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000377634.4	37	CCDS1936.1	.	.	.	.	.	.	.	.	.	.	G	1.881	-0.457883	0.04508	.	.	ENSG00000188687	ENST00000394019;ENST00000451608;ENST00000346834;ENST00000359484;ENST00000423644;ENST00000358683;ENST00000357822;ENST00000377632;ENST00000377634;ENST00000425249;ENST00000432728	T;T;T;T;T;T;T;T;T;T	0.78924	-1.22;-1.22;-1.22;-1.22;-1.22;-1.22;-1.22;-1.22;-1.22;-1.22	4.79	-1.45	0.08828	Bicarbonate transporter, cytoplasmic (2);Phosphotransferase/anion transporter (1);	0.150608	0.64402	N	0.000015	T	0.43478	0.1249	N	0.02213	-0.635	0.25440	N	0.988106	B;B;B;B;B	0.19935	0.004;0.04;0.0;0.022;0.001	B;B;B;B;B	0.28991	0.009;0.078;0.005;0.097;0.012	T	0.47947	-0.9077	10	0.02654	T	1	.	5.4722	0.16676	0.4958:0.1464:0.3579:0.0	.	179;179;115;179;179	Q9BY07-4;E7EQT3;Q9BY07-7;Q9BY07;Q9BY07-3	.;.;.;S4A5_HUMAN;.	E	179;179;179;115;179;115;179;179;179;179;63	ENSP00000377587:D179E;ENSP00000251768:D179E;ENSP00000352461:D115E;ENSP00000395804:D179E;ENSP00000351513:D115E;ENSP00000350475:D179E;ENSP00000366859:D179E;ENSP00000366861:D179E;ENSP00000405678:D179E;ENSP00000414162:D63E	ENSP00000251768:D179E	D	-	3	2	SLC4A5	74345764	0.050000	0.20438	0.152000	0.22495	0.983000	0.72400	-0.518000	0.06267	-0.165000	0.10908	0.591000	0.81541	GAC		0.617	SLC4A5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000206583.3			C	74492256	G	C	74492256	3	2	654	1	0	0	0	0	1	0	0	0	14670	1368	48	4	2968	4	SLC4A5	2	74492256	Missense_Mutation	SNP	G	TCGA-KM-8639-01A-11D-2397-10		74492256	168707117	6	40554										
PARD3B	117583	broad.mit.edu;hgsc.bcm.edu	37	chr2	206110537	206110538	+	Frame_Shift_Ins	INS	-	-	A													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ggttcactcattggctggacINSaaaaatcgggtaagaaattc							TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr2:206110537_206110538insA	ENST00000406610.2	+	16	2383_2384	c.2176_2177insA	c.(2176-2178)caafs	p.Q726fs	PARD3B_ENST00000462231.1_Frame_Shift_Ins_p.Q726fs|PARD3B_ENST00000351153.1_Frame_Shift_Ins_p.Q726fs|PARD3B_ENST00000349953.3_Frame_Shift_Ins_p.Q726fs|PARD3B_ENST00000358768.2_Frame_Shift_Ins_p.Q664fs	NM_057177.6|NM_152526.5|NM_205863.3	NP_476518.4|NP_689739.4|NP_995585.2	Q8TEW8	PAR3L_HUMAN	par-3 family cell polarity regulator beta	726					cell cycle (GO:0007049)|cell division (GO:0051301)	membrane (GO:0016020)|tight junction (GO:0005923)				breast(1)|endometrium(9)|kidney(2)|large_intestine(6)|liver(4)|lung(33)|ovary(1)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)	65		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		ATTGGCTGGACAAAAATCGGGT	0.401																																																0																																										SO:0001589	frameshift_variant	117583			AB053321	CCDS42804.1, CCDS42805.1, CCDS42806.1	2q33.3	2013-08-28	2013-08-28	2006-09-28	ENSG00000116117	ENSG00000116117			14446	protein-coding gene	gene with protein product			"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 19", "par-3 partitioning defective 3 homolog B (C. elegans)"	ALS2CR19		11586298, 12459187	Standard	NM_057177		Approved	Par3L, PAR3beta	uc002vap.2	Q8TEW8	OTTHUMG00000154562	ENST00000406610.2:c.2181dupA	2.37:g.206110542_206110542dupA	ENSP00000385848:p.Gln726fs	Somatic		WXS	Illumina HiSeq	Phase_I	E9PE87|Q8IUC7|Q8IUC9|Q96DK9|Q96N09|Q96NX6|Q96NX7|Q96Q29	Frame_Shift_Ins	INS	ENST00000406610.2	37																																																																																					0.401	PARD3B-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000335992.1	NM_057177		A	206110538	-	A	206110537	7	5	654	1	0	1	1	0	0	0	0	0	11451	479	17	0	2238	0	PARD3B	2	206110537	Frame_Shift_Ins	INS	-	TCGA-KM-8639-01A-11D-2397-10	131618281	206110537	37088836	7	40555	365	2								
PARD3B	117583	bcgsc.ca	37	chr2	206110538	206110539	+	Frame_Shift_Ins	INS	-	-	A													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	gttcactcattggctggacaINSaaaatcgggtaagaaattcc							TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr2:206110538_206110539insA	ENST00000406610.2	+	16	2384_2385	c.2177_2178insA	c.(2176-2181)caaaaafs	p.QK726fs	PARD3B_ENST00000462231.1_Frame_Shift_Ins_p.QK726fs|PARD3B_ENST00000351153.1_Frame_Shift_Ins_p.QK726fs|PARD3B_ENST00000349953.3_Frame_Shift_Ins_p.QK726fs|PARD3B_ENST00000358768.2_Frame_Shift_Ins_p.QK664fs	NM_057177.6|NM_152526.5|NM_205863.3	NP_476518.4|NP_689739.4|NP_995585.2	Q8TEW8	PAR3L_HUMAN	par-3 family cell polarity regulator beta	726					cell cycle (GO:0007049)|cell division (GO:0051301)	membrane (GO:0016020)|tight junction (GO:0005923)				breast(1)|endometrium(9)|kidney(2)|large_intestine(6)|liver(4)|lung(33)|ovary(1)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)	65		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		TTGGCTGGACAAAAATCGGGTA	0.401																																																0																																										SO:0001589	frameshift_variant	117583			AB053321	CCDS42804.1, CCDS42805.1, CCDS42806.1	2q33.3	2013-08-28	2013-08-28	2006-09-28	ENSG00000116117	ENSG00000116117			14446	protein-coding gene	gene with protein product			"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 19", "par-3 partitioning defective 3 homolog B (C. elegans)"	ALS2CR19		11586298, 12459187	Standard	NM_057177		Approved	Par3L, PAR3beta	uc002vap.2	Q8TEW8	OTTHUMG00000154562	ENST00000406610.2:c.2181dupA	2.37:g.206110542_206110542dupA	ENSP00000385848:p.Gln726fs	Somatic		WXS	Illumina HiSeq	Phase_I	E9PE87|Q8IUC7|Q8IUC9|Q96DK9|Q96N09|Q96NX6|Q96NX7|Q96Q29	Frame_Shift_Ins	INS	ENST00000406610.2	37																																																																																					0.401	PARD3B-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000335992.1	NM_057177		A	206110539	-	A	206110538	7	5	654	1	0	1	1	0	0	0	0	0	11451	130	5	0	2239	0	PARD3B	2	206110538	Frame_Shift_Ins	INS	-	TCGA-KM-8639-01A-11D-2397-10	1	206110538	37088835	8	40556	365	2								
TRIP12	9320	broad.mit.edu	37	chr2	230650546	230650546	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	tcacagactccgcctgtttcAgcagctcctctcggttcaca	7	16	4	1			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr2:230650546A>C	ENST00000283943.5	-	33	4974	c.4796T>G	c.(4795-4797)cTg>cGg	p.L1599R	TRIP12_ENST00000389045.3_Missense_Mutation_p.L1329R|TRIP12_ENST00000389044.4_Missense_Mutation_p.L1647R	NM_001284214.1|NM_004238.1	NP_001271143.1|NP_004229.1	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1599					cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|embryo development (GO:0009790)|negative regulation of double-strand break repair (GO:2000780)|negative regulation of histone H2A K63-linked ubiquitination (GO:1901315)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ligase activity (GO:0016874)|thyroid hormone receptor binding (GO:0046966)|ubiquitin-protein transferase activity (GO:0004842)			breast(2)|central_nervous_system(4)|cervix(1)|endometrium(5)|kidney(6)|large_intestine(19)|lung(32)|ovary(5)|prostate(4)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	87		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		CGCCTGTTTCAGCAGCTCCTC	0.463																																																0													104	105	104					2																	230650546		2203	4300	6503	SO:0001583	missense	9320			L40383	CCDS33391.1, CCDS63145.1, CCDS63146.1	2q36.3	2008-05-27			ENSG00000153827	ENSG00000153827			12306	protein-coding gene	gene with protein product		604506				7776974	Standard	XM_005246961		Approved	KIAA0045	uc002vpw.1	Q14669	OTTHUMG00000153623	ENST00000283943.5:c.4796T>G	2.37:g.230650546A>C	ENSP00000283943:p.Leu1599Arg	Somatic		WXS	Illumina HiSeq	Phase_I	D4HL82|Q14CA3|Q14CF1|Q15644|Q53R87|Q53TE7	Missense_Mutation	SNP	ENST00000283943.5	37	CCDS33391.1	.	.	.	.	.	.	.	.	.	.	A	26.3	4.719648	0.89205	.	.	ENSG00000153827	ENST00000283943;ENST00000389045;ENST00000389044	T;T;T	0.51817	0.69;0.69;0.69	5.66	5.66	0.87406	HECT (2);	0.000000	0.85682	D	0.000000	T	0.68284	0.2984	M	0.72576	2.205	0.80722	D	1	D;D;D	0.71674	0.995;0.998;0.995	D;D;D	0.78314	0.986;0.991;0.986	T	0.72080	-0.4398	10	0.87932	D	0	.	15.8971	0.79344	1.0:0.0:0.0:0.0	.	1329;1647;1599	Q14CF1;Q14CA3;Q14669	.;.;TRIPC_HUMAN	R	1599;1329;1647	ENSP00000283943:L1599R;ENSP00000373697:L1329R;ENSP00000373696:L1647R	ENSP00000283943:L1599R	L	-	2	0	TRIP12	230358790	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.860000	0.92272	2.150000	0.67090	0.477000	0.44152	CTG		0.463	TRIP12-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000331861.3	NM_004238		C	230650546	A	C	230650546	3	2	654	1	0	0	0	0	1	0	0	0	16568	188	7	5	1218	5	TRIP12	2	230650546	Missense_Mutation	SNP	A	TCGA-KM-8639-01A-11D-2397-10	24540008	230650546	12548827	9	40557										
NCL	4691	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	232325533	232325533	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	aggaacaacttttgcagcttTctttcctttggctggtgtag	10	8	1	0	rs375808034		TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr2:232325533T>C	ENST00000322723.4	-	4	898	c.658A>G	c.(658-660)Aaa>Gaa	p.K220E	SNORD82_ENST00000365530.1_RNA	NM_005381.2	NP_005372.2	P19338	NUCL_HUMAN	nucleolin	220					angiogenesis (GO:0001525)|positive regulation of transcription of nuclear large rRNA transcript from RNA polymerase I promoter (GO:1901838)	cell cortex (GO:0005938)|cytoplasmic ribonucleoprotein granule (GO:0036464)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	identical protein binding (GO:0042802)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)|RNA binding (GO:0003723)|telomeric DNA binding (GO:0042162)			breast(3)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(8)|lung(7)|ovary(2)|pancreas(2)|prostate(2)|skin(3)	35		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)		TTTGCAGCTTTCTTTCCTTTG	0.448																																																0								T	GLU/LYS	1,4405	2.1+/-5.4	0,1,2202	187	169	175		658	4.3	1	2		175	0,8600		0,0,4300	no	missense	NCL	NM_005381.2	56	0,1,6502	CC,CT,TT		0.0,0.0227,0.0077	benign	220/711	232325533	1,13005	2203	4300	6503	SO:0001583	missense	4691				CCDS33397.1	2q37.1	2013-09-19			ENSG00000115053	ENSG00000115053		"RNA binding motif (RRM) containing"	7667	protein-coding gene	gene with protein product		164035				2394707, 3409881	Standard	NM_005381		Approved	C23	uc002vru.3	P19338	OTTHUMG00000153866	ENST00000322723.4:c.658A>G	2.37:g.232325533T>C	ENSP00000318195:p.Lys220Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q53SK1|Q8NB06|Q9UCF0|Q9UDG1	Missense_Mutation	SNP	ENST00000322723.4	37	CCDS33397.1	.	.	.	.	.	.	.	.	.	.	T	16.95	3.263223	0.59431	2.27E-4	0.0	ENSG00000115053	ENST00000322723	T	0.40476	1.03	5.46	4.29	0.51040	.	0.232532	0.49916	D	0.000131	T	0.40171	0.1106	M	0.66939	2.045	0.42701	D	0.993619	B	0.29212	0.237	B	0.27887	0.084	T	0.40757	-0.9546	10	0.46703	T	0.11	-14.5577	10.8196	0.46597	0.0:0.0754:0.0:0.9246	.	220	P19338	NUCL_HUMAN	E	220	ENSP00000318195:K220E	ENSP00000318195:K220E	K	-	1	0	NCL	232033777	1.000000	0.71417	0.990000	0.47175	0.908000	0.53690	2.623000	0.46435	2.078000	0.62432	0.524000	0.50904	AAA		0.448	NCL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000332731.1	NM_005381		C	232325533	T	C	232325533	3	2	654	1	0	0	0	0	1	0	0	0	10233	1792	62	3	1518	3	NCL	2	232325533	Missense_Mutation	SNP	T	TCGA-KM-8639-01A-11D-2397-10	1674987	232325533	10873840	10	40558										
DNAJC13	23317	bcgsc.ca	37	chr3	132226100	132226100	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	gggtgattgtgacaaaacttAtggatcagaatttgtctaca	10	5	2	3	rs79953286	byFrequency	TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr3:132226100A>G	ENST00000260818.6	+	43	5266	c.5018A>G	c.(5017-5019)tAt>tGt	p.Y1673C		NM_015268.3	NP_056083.3	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1673					osteoblast differentiation (GO:0001649)	extracellular vesicular exosome (GO:0070062)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)				breast(4)|endometrium(2)|kidney(2)|large_intestine(5)|lung(15)|ovary(1)|pancreas(2)|prostate(2)|urinary_tract(1)	34						GACAAAACTTATGGATCAGAA	0.318													A|||	121	0.0241613	0.0023	0.0461	5008	,	,		17967	0.0		0.0586	False		,,,				2504	0.0276															0								A	CYS/TYR	60,4346	56.2+/-92.4	0,60,2143	158	161	160		5018	5.8	1	3	dbSNP_131	160	519,8081	146.3+/-201.9	15,489,3796	yes	missense	DNAJC13	NM_015268.3	194	15,549,5939	GG,GA,AA		6.0349,1.3618,4.4518	benign	1673/2244	132226100	579,12427	2203	4300	6503	SO:0001583	missense	23317			AB014578	CCDS33857.1	3q22.1	2011-09-02			ENSG00000138246	ENSG00000138246		"Heat shock proteins / DNAJ (HSP40)"	30343	protein-coding gene	gene with protein product		614334				12438707	Standard	NM_015268		Approved	RME8, KIAA0678	uc003eor.3	O75165	OTTHUMG00000159674	ENST00000260818.6:c.5018A>G	3.37:g.132226100A>G	ENSP00000260818:p.Tyr1673Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q3L0T1|Q6PI82|Q6UJ77|Q6ZSW1|Q6ZUT5|Q86XG3|Q96DC1|Q9BWK9	Missense_Mutation	SNP	ENST00000260818.6	37	CCDS33857.1	70	0.03205128205128205	3	0.006097560975609756	16	0.04419889502762431	0	0.0	51	0.06728232189973615	A	13.17	2.156410	0.38119	0.013618	0.060349	ENSG00000138246	ENST00000260818;ENST00000538066	T	0.18502	2.21	5.75	5.75	0.90469	Armadillo-type fold (1);	0.071085	0.64402	D	0.000016	T	0.01661	0.0053	L	0.38175	1.15	0.53688	D	0.999972	D	0.63046	0.992	P	0.49708	0.62	T	0.00130	-1.2014	10	0.54805	T	0.06	.	16.0503	0.80755	1.0:0.0:0.0:0.0	.	1673	O75165	DJC13_HUMAN	C	1673;320	ENSP00000260818:Y1673C	ENSP00000260818:Y1673C	Y	+	2	0	DNAJC13	133708790	1.000000	0.71417	0.977000	0.42913	0.998000	0.95712	5.344000	0.65981	2.181000	0.69327	0.477000	0.44152	TAT		0.318	DNAJC13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356807.2	NM_015268		G	132226100	A	G	132226100	3	3	654	1	0	0	0	0	1	0	0	0	4634	449	16	3	5184	3	DNAJC13	3	132226100	Missense_Mutation	SNP	A	TCGA-KM-8639-01A-11D-2397-10		132226100	65796330	11	40559										
OTOL1	131149	broad.mit.edu	37	chr3	161220991	161220991	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	caagggagagaagggggagaTgggggagaagggggagatgg	25	1	0	4			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr3:161220991T>G	ENST00000327928.4	+	4	695	c.695T>G	c.(694-696)aTg>aGg	p.M232R		NM_001080440.1	NP_001073909.1	A6NHN0	OTOL1_HUMAN	otolin 1	232	Collagen-like 2.					collagen trimer (GO:0005581)|extracellular region (GO:0005576)				central_nervous_system(2)|kidney(2)|large_intestine(8)|lung(11)|ovary(1)|prostate(2)|skin(1)	27						aagggggagatgggggagaag	0.577																																																0													4	4	4					3																	161220991		1609	3660	5269	SO:0001583	missense	131149				CCDS46948.1	3q26.1	2011-05-19	2011-05-19			ENSG00000182447			34071	protein-coding gene	gene with protein product	"C1q and tumor necrosis factor related protein 15"		"otolin 1 homolog (zebrafish)"			17544811, 15905077	Standard	NM_001080440		Approved	C1QTNF15	uc011bpb.2	A6NHN0		ENST00000327928.4:c.695T>G	3.37:g.161220991T>G	ENSP00000330808:p.Met232Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000327928.4	37	CCDS46948.1	.	.	.	.	.	.	.	.	.	.	t	2.467	-0.322756	0.05350	.	.	ENSG00000182447	ENST00000327928	D	0.93133	-3.17	.	.	.	.	.	.	.	.	T	0.77698	0.4169	N	0.02286	-0.61	0.19300	N	0.999973	.	.	.	.	.	.	T	0.67325	-0.5699	5	0.16896	T	0.51	.	.	.	.	.	232	A6NHN0	OTOL1_HUMAN	R	232	ENSP00000330808:M232R	ENSP00000330808:M232R	M	+	2	0	OTOL1	162703685	0.987000	0.35691	0.850000	0.33497	0.539000	0.34962	0.065000	0.14466	0.000000	0.14550	0.000000	0.15137	ATG		0.577	OTOL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353184.1	NM_001080440		G	161220991	T	G	161220991	3	3	654	1	0	0	0	0	1	0	0	0	11311	1464	51	5	709	5	OTOL1	3	161220991	Missense_Mutation	SNP	T	TCGA-KM-8639-01A-11D-2397-10	28994891	161220991	36801439	12	40560										
CAMK2N2	94032	broad.mit.edu	37	chr3	183977958	183977959	+	Frame_Shift_Del	DEL	GG	GG	-													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ggcgcgtctacactccggacGgcggcttctcccccatcccc							TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr3:183977958_183977959delGG	ENST00000296238.3	-	2	403_404	c.226_227delCC	c.(226-228)ccgfs	p.P76fs	ECE2_ENST00000402825.3_Intron|EIF2B5_ENST00000444495.1_Intron	NM_033259.2	NP_150284.1	Q96S95	CK2N2_HUMAN	calcium/calmodulin-dependent protein kinase II inhibitor 2	76						cytoplasm (GO:0005737)|nucleus (GO:0005634)	calcium-dependent protein kinase inhibitor activity (GO:0008427)					all_cancers(143;1.09e-10)|Ovarian(172;0.0339)		Epithelial(37;2.51e-33)|OV - Ovarian serous cystadenocarcinoma(80;5.69e-22)			CACTCCGGACGGCGGCTTCTCC	0.767																																																0																																										SO:0001589	frameshift_variant	94032			AY037149	CCDS3257.1	3q27.1	2006-03-27			ENSG00000163888	ENSG00000163888			24197	protein-coding gene	gene with protein product		608721				11444830, 9724800	Standard	NM_033259		Approved	CaM-KIIN	uc003fnj.1	Q96S95	OTTHUMG00000156821	ENST00000296238.3:c.226_227delCC	3.37:g.183977958_183977959delGG	ENSP00000296238:p.Pro76fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000296238.3	37	CCDS3257.1																																																																																				0.767	CAMK2N2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346010.1	NM_033259		-	183977959	GG	-	183977958	7	5	654	1	0	1	0	1	0	0	0	0	2606	1116	39	0	16	0	CAMK2N2	3	183977958	Frame_Shift_Del	DEL	GG	TCGA-KM-8639-01A-11D-2397-10	22756967	183977958	14044472	13	40561										
ANKRD17	26057	broad.mit.edu;hgsc.bcm.edu	37	chr4	74012976	74012979	+	Frame_Shift_Del	DEL	TAAC	TAAC	-													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	acctgcagctaataagtattTaactaactccaaatgaccct							TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	TAAC	TAAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr4:74012976_74012979delTAAC	ENST00000358602.4	-	9	1854_1857	c.1738_1741delGTTA	c.(1738-1743)gttaaafs	p.VK580fs	ANKRD17_ENST00000330838.6_Frame_Shift_Del_p.VK580fs|ANKRD17_ENST00000514252.1_Intron|ANKRD17_ENST00000509867.2_Frame_Shift_Del_p.VK467fs	NM_032217.3	NP_115593.3	O75179	ANR17_HUMAN	ankyrin repeat domain 17	580					blood vessel maturation (GO:0001955)|negative regulation of smooth muscle cell differentiation (GO:0051151)|viral process (GO:0016032)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			NS(3)|breast(2)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(15)|lung(39)|ovary(6)|pancreas(1)|prostate(3)|skin(5)|upper_aerodigestive_tract(3)	96	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			AATAAGTATTTAACTAACTCCAAA	0.363																																																0																																										SO:0001589	frameshift_variant	26057			AB014597	CCDS34003.1, CCDS34004.1, CCDS68721.1	4q21.1-q21.21	2013-01-10			ENSG00000132466	ENSG00000132466		"Ankyrin repeat domain containing"	23575	protein-coding gene	gene with protein product		615929				11165478	Standard	NM_032217		Approved	GTAR, KIAA0697, FLJ22206, NY-BR-16	uc003hgp.3	O75179	OTTHUMG00000160826	ENST00000358602.4:c.1738_1741delGTTA	4.37:g.74012980_74012983delTAAC	ENSP00000351416:p.Val580fs	Somatic		WXS	Illumina HiSeq	Phase_I	E7EUV3|G5E964|Q6PJ85|Q6PK85|Q6PKA2|Q86XI3|Q8NDR5|Q96I86|Q9H288|Q9H6J9	Frame_Shift_Del	DEL	ENST00000358602.4	37	CCDS34004.1																																																																																				0.363	ANKRD17-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000362475.1	NM_032217		-	74012979	TAAC	-	74012976	7	5	654	1	0	1	0	1	0	0	0	0	646	1763	61	0	6174	0	ANKRD17	4	74012976	Frame_Shift_Del	DEL	TAAC	TCGA-KM-8639-01A-11D-2397-10		74012976	117141300	14	40562	366	2								
ANKRD17	26057	bcgsc.ca	37	chr4	74012977	74012980	+	Frame_Shift_Del	DEL	TAAC	TAAC	-													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	cctgcagctaataagtatttAactaactccaaatgaccctc							TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	TAAC	TAAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr4:74012977_74012980delTAAC	ENST00000358602.4	-	9	1853_1856	c.1737_1740delGTTA	c.(1735-1740)ttgttafs	p.LL579fs	ANKRD17_ENST00000330838.6_Frame_Shift_Del_p.LL579fs|ANKRD17_ENST00000514252.1_Intron|ANKRD17_ENST00000509867.2_Frame_Shift_Del_p.LL466fs	NM_032217.3	NP_115593.3	O75179	ANR17_HUMAN	ankyrin repeat domain 17	579					blood vessel maturation (GO:0001955)|negative regulation of smooth muscle cell differentiation (GO:0051151)|viral process (GO:0016032)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			NS(3)|breast(2)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(15)|lung(39)|ovary(6)|pancreas(1)|prostate(3)|skin(5)|upper_aerodigestive_tract(3)	96	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			ATAAGTATTTAACTAACTCCAAAT	0.358																																																0																																										SO:0001589	frameshift_variant	26057			AB014597	CCDS34003.1, CCDS34004.1, CCDS68721.1	4q21.1-q21.21	2013-01-10			ENSG00000132466	ENSG00000132466		"Ankyrin repeat domain containing"	23575	protein-coding gene	gene with protein product		615929				11165478	Standard	NM_032217		Approved	GTAR, KIAA0697, FLJ22206, NY-BR-16	uc003hgp.3	O75179	OTTHUMG00000160826	ENST00000358602.4:c.1737_1740delGTTA	4.37:g.74012977_74012980delTAAC	ENSP00000351416:p.Leu579fs	Somatic		WXS	Illumina HiSeq	Phase_I	E7EUV3|G5E964|Q6PJ85|Q6PK85|Q6PKA2|Q86XI3|Q8NDR5|Q96I86|Q9H288|Q9H6J9	Frame_Shift_Del	DEL	ENST00000358602.4	37	CCDS34004.1																																																																																				0.358	ANKRD17-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000362475.1	NM_032217		-	74012980	TAAC	-	74012977	7	5	654	1	0	1	0	1	0	0	0	0	646	349	13	0	6175	0	ANKRD17	4	74012977	Frame_Shift_Del	DEL	TAAC	TCGA-KM-8639-01A-11D-2397-10	1	74012977	117141299	15	40563	366	2								
ABCE1	6059	mdanderson.org;bcgsc.ca	37	chr4	146044692	146044692	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	tgacttcatcatggccacctAtctagcggatcgcgtcatcg	9	13	4	1			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr4:146044692A>G	ENST00000296577.4	+	16	2095	c.1580A>G	c.(1579-1581)tAt>tGt	p.Y527C	OTUD4_ENST00000455611.2_Intron	NM_001040876.1|NM_002940.2	NP_001035809.1|NP_002931.2	P61221	ABCE1_HUMAN	ATP-binding cassette, sub-family E (OABP), member 1	527	ABC transporter 2. {ECO:0000255|PROSITE- ProRule:PRU00434}.				negative regulation of catalytic activity (GO:0043086)|response to virus (GO:0009615)|RNA catabolic process (GO:0006401)|viral process (GO:0016032)	cytoplasm (GO:0005737)|membrane (GO:0016020)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|iron-sulfur cluster binding (GO:0051536)|ribonuclease inhibitor activity (GO:0008428)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|lung(5)|prostate(2)|skin(3)	18	all_hematologic(180;0.151)					ATGGCCACCTATCTAGCGGAT	0.338																																																0													71	67	68					4																	146044692		2203	4297	6500	SO:0001583	missense	6059			X74987	CCDS34071.1	4q31	2012-03-14			ENSG00000164163	ENSG00000164163		"ATP binding cassette transporters / subfamily E"	69	protein-coding gene	gene with protein product		601213		RNASEL1, RNASELI, RNS4I		7539425	Standard	NM_002940		Approved	RLI, OABP	uc003ijy.3	P61221	OTTHUMG00000161478	ENST00000296577.4:c.1580A>G	4.37:g.146044692A>G	ENSP00000296577:p.Tyr527Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O88793|Q13181|Q13864|Q6NR76|Q96AL0|Q96B10|Q99K66	Missense_Mutation	SNP	ENST00000296577.4	37	CCDS34071.1	.	.	.	.	.	.	.	.	.	.	A	24.6	4.553083	0.86127	.	.	ENSG00000164163	ENST00000296577	D	0.85013	-1.93	5.69	5.69	0.88448	ATPase, AAA+ type, core (1);ABC transporter-like (1);	0.000000	0.85682	D	0.000000	D	0.90034	0.6888	L	0.48218	1.51	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	D	0.91002	0.4843	10	0.87932	D	0	-16.4189	16.2484	0.82467	1.0:0.0:0.0:0.0	.	527	P61221	ABCE1_HUMAN	C	527	ENSP00000296577:Y527C	ENSP00000296577:Y527C	Y	+	2	0	ABCE1	146264142	1.000000	0.71417	1.000000	0.80357	0.858000	0.48976	9.201000	0.95017	2.291000	0.77112	0.533000	0.62120	TAT		0.338	ABCE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365104.1	NM_002940		G	146044692	A	G	146044692	3	3	654	1	0	0	0	0	1	0	0	0	64	449	16	3	1638	3	ABCE1	4	146044692	Missense_Mutation	SNP	A	TCGA-KM-8639-01A-11D-2397-10	72031715	146044692	45109584	16	40564										
CLPTM1L	81037	hgsc.bcm.edu	37	chr5	1344897	1344897	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	atgacccagcaggtgtgcacCacgtagaccacgaacacgcc	10	15	0	2			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr5:1344897C>A	ENST00000320895.5	-	1	317	c.60G>T	c.(58-60)gtG>gtT	p.V20V	CLPTM1L_ENST00000320927.6_Silent_p.V20V	NM_030782.3	NP_110409.2	Q96KA5	CLP1L_HUMAN	CLPTM1-like	20					apoptotic process (GO:0006915)	integral component of membrane (GO:0016021)|membrane (GO:0016020)				breast(2)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(2)|lung(6)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	24	Lung NSC(6;5.78e-14)|all_lung(6;4.47e-13)|all_epithelial(6;4.47e-09)		Epithelial(17;0.00931)|OV - Ovarian serous cystadenocarcinoma(19;0.0116)|all cancers(22;0.0181)	KIRC - Kidney renal clear cell carcinoma(5;0.177)|Kidney(13;0.208)		AGGTGTGCACCACGTAGACCA	0.721																																																0													24	22	23					5																	1344897		2188	4293	6481	SO:0001819	synonymous_variant	81037			AK027306	CCDS3862.1	5p15.33	2008-02-05			ENSG00000049656	ENSG00000049656			24308	protein-coding gene	gene with protein product	"cisplatin resistance related protein"	612585				11162647	Standard	NM_030782		Approved	FLJ14400, CRR9	uc003jch.3	Q96KA5	OTTHUMG00000131015	ENST00000320895.5:c.60G>T	5.37:g.1344897C>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DTC1|Q658W6|Q7LG29|Q96AZ0|Q9H3N4	Silent	SNP	ENST00000320895.5	37	CCDS3862.1																																																																																				0.721	CLPTM1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253649.2	NM_030782		A	1344897	C	A	1344897	2	1	654	1	0	0	0	0	0	0	0	1	3557	581	21	4		4	CLPTM1L	5	1344897	Silent	SNP	C	TCGA-KM-8639-01A-11D-2397-10		1344897	179570363	17	40565										
NUDT12	83594	hgsc.bcm.edu	37	chr5	102891744	102891744	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	gttgcatttccacaggttggGcaaaacttgtatcgactgtg	11	8	0	0			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr5:102891744G>A	ENST00000230792.2	-	4	948	c.852C>T	c.(850-852)tgC>tgT	p.C284C	NUDT12_ENST00000515407.1_5'UTR|NUDT12_ENST00000507423.1_Silent_p.C266C	NM_031438.2	NP_113626.1	Q9BQG2	NUD12_HUMAN	nudix (nucleoside diphosphate linked moiety X)-type motif 12	284					NAD catabolic process (GO:0019677)|NADP catabolic process (GO:0006742)	nucleus (GO:0005634)|peroxisome (GO:0005777)	metal ion binding (GO:0046872)|NAD+ diphosphatase activity (GO:0000210)|NADH pyrophosphatase activity (GO:0035529)			endometrium(1)|kidney(1)|large_intestine(2)|liver(1)|lung(6)|urinary_tract(1)	12		all_cancers(142;6.38e-08)|all_epithelial(76;1.99e-10)|Prostate(80;0.0138)|Lung NSC(167;0.0212)|Colorectal(57;0.0247)|all_lung(232;0.0283)|Ovarian(225;0.0423)		Epithelial(69;9.3e-13)|COAD - Colon adenocarcinoma(37;0.0221)		CACAGGTTGGGCAAAACTTGT	0.368																																																0													103	100	101					5																	102891744		2202	4300	6502	SO:0001819	synonymous_variant	83594			AL136592	CCDS4096.1, CCDS75284.1	5q15	2013-01-10			ENSG00000112874	ENSG00000112874		"Nudix motif containing", "Ankyrin repeat domain containing"	18826	protein-coding gene	gene with protein product	"nucleoside diphosphate linked moiety X-type motif 12"	609232				11230166	Standard	XM_005272095		Approved	DKFZP761I172	uc003koi.3	Q9BQG2	OTTHUMG00000128739	ENST00000230792.2:c.852C>T	5.37:g.102891744G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KUW2|Q8TAL7	Silent	SNP	ENST00000230792.2	37	CCDS4096.1																																																																																				0.368	NUDT12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250650.1	NM_031438		A	102891744	G	A	102891744	2	1	654	1	0	0	0	0	0	0	0	1	10735	1195	42	2		2	NUDT12	5	102891744	Silent	SNP	G	TCGA-KM-8639-01A-11D-2397-10	101546847	102891744	78023516	18	40566										
FER	2241	mdanderson.org	37	chr5	108133967	108133967	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ttacggttactggaaacagtAaagaaatttatggccctgag	10	6	0	2	rs2229085	byFrequency	TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr5:108133967A>G	ENST00000281092.4	+	3	468	c.84A>G	c.(82-84)gtA>gtG	p.V28V	FER_ENST00000536402.1_Silent_p.V28V|FER_ENST00000438717.2_5'UTR|FER_ENST00000502752.1_3'UTR	NM_005246.2	NP_005237.2	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	28	FCH. {ECO:0000255|PROSITE- ProRule:PRU00083}.|Important for interaction with membranes containing phosphoinositides.				actin cytoskeleton reorganization (GO:0031532)|cell proliferation (GO:0008283)|cell-cell adhesion mediated by cadherin (GO:0044331)|cellular response to insulin stimulus (GO:0032869)|cellular response to macrophage colony-stimulating factor stimulus (GO:0036006)|cellular response to reactive oxygen species (GO:0034614)|chemotaxis (GO:0006935)|cytokine-mediated signaling pathway (GO:0019221)|diapedesis (GO:0050904)|extracellular matrix-cell signaling (GO:0035426)|Fc-epsilon receptor signaling pathway (GO:0038095)|insulin receptor signaling pathway via phosphatidylinositol 3-kinase (GO:0038028)|interleukin-6-mediated signaling pathway (GO:0070102)|intracellular signal transduction (GO:0035556)|Kit signaling pathway (GO:0038109)|microtubule cytoskeleton organization (GO:0000226)|mitotic cell cycle (GO:0000278)|negative regulation of mast cell activation involved in immune response (GO:0033007)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of actin filament polymerization (GO:0030838)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of epidermal growth factor receptor signaling pathway (GO:0042058)|regulation of fibroblast migration (GO:0010762)|regulation of lamellipodium assembly (GO:0010591)|regulation of protein phosphorylation (GO:0001932)|response to lipopolysaccharide (GO:0032496)|response to platelet-derived growth factor (GO:0036119)|substrate adhesion-dependent cell spreading (GO:0034446)|tyrosine phosphorylation of Stat3 protein (GO:0042503)	cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)|nucleus (GO:0005634)	ATP binding (GO:0005524)|epidermal growth factor receptor binding (GO:0005154)|lipid binding (GO:0008289)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein tyrosine kinase activity (GO:0004713)			NS(2)|biliary_tract(1)|endometrium(1)|kidney(2)|large_intestine(8)|lung(12)|ovary(1)|skin(2)|stomach(1)|urinary_tract(2)	32		all_cancers(142;2.86e-06)|all_epithelial(76;9.81e-08)|Prostate(80;0.00972)|Lung NSC(167;0.039)|Ovarian(225;0.0448)|all_lung(232;0.0496)|Colorectal(57;0.0986)|Breast(839;0.152)		OV - Ovarian serous cystadenocarcinoma(64;6.77e-10)|Epithelial(69;4.13e-08)|COAD - Colon adenocarcinoma(37;0.0174)		TGGAAACAGTAAAGAAATTTA	0.363													A|||	891	0.177915	0.2988	0.17	5008	,	,		17170	0.0575		0.167	False		,,,				2504	0.1554				Colon(146;1051 1799 9836 27344 47401)											0								A		1242,3162	427.0+/-341.4	179,884,1139	87	90	89		84	1.1	1	5	dbSNP_98	89	1534,7066	288.9+/-299.0	135,1264,2901	no	coding-synonymous	FER	NM_005246.2		314,2148,4040	GG,GA,AA		17.8372,28.2016,21.3473		28/823	108133967	2776,10228	2202	4300	6502	SO:0001819	synonymous_variant	2241			J03358	CCDS4098.1	5q21	2013-02-14	2008-02-07		ENSG00000151422	ENSG00000151422	2.7.10.1	"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits", "SH2 domain containing"	3655	protein-coding gene	gene with protein product	"phosphoprotein NCP94", "protein phosphatase 1, regulatory subunit 74"	176942					Standard	NM_005246		Approved	TYK3, PPP1R74	uc003kop.1	P16591	OTTHUMG00000128751	ENST00000281092.4:c.84A>G	5.37:g.108133967A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RCR4|B4DSQ2|H2FLB8	Silent	SNP	ENST00000281092.4	37	CCDS4098.1																																																																																				0.363	FER-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250664.1	NM_005246		G	108133967	A	G	108133967	2	3	654	1	0	0	0	0	0	0	0	1	5820	349	13	3		3	FER	5	108133967	Silent	SNP	A	TCGA-KM-8639-01A-11D-2397-10	5242223	108133967	72781293	19	40567										
ADAM19	8728	mdanderson.org	37	chr5	156997987	156997987	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	gggctgccttcctcacttccTcctgccaatacaagatgcaa	7	15	1	1	rs200503236	byFrequency	TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr5:156997987T>C	ENST00000517905.1	-	2	140	c.96A>G	c.(94-96)agA>agG	p.R32R	AC106801.1_ENST00000518054.1_RNA|ADAM19_ENST00000394020.1_Splice_Site_p.R34R|ADAM19_ENST00000430702.2_5'UTR|ADAM19_ENST00000257527.4_Splice_Site_p.R32R			Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19	32				R -> SK (in Ref. 1; AAG50282). {ECO:0000305}.	heart development (GO:0007507)|membrane protein ectodomain proteolysis (GO:0006509)	integral component of membrane (GO:0016021)	metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(33)|ovary(3)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	53	Renal(175;0.00488)	Medulloblastoma(196;0.0359)|all_neural(177;0.14)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CCTCACTTCCTCCTGCCAATA	0.498																																																0													78	78	78					5																	156997987		2203	4300	6503	SO:0001630	splice_region_variant	8728			AF311317	CCDS4338.1	5q33.3	2010-06-24	2010-06-24		ENSG00000135074	ENSG00000135074		"ADAM metallopeptidase domain containing"	197	protein-coding gene	gene with protein product	"meltrin beta"	603640	"a disintegrin and metalloproteinase domain 19 (meltrin beta)"			9806848	Standard	NM_033274		Approved	MLTNB	uc003lwz.4	Q9H013	OTTHUMG00000130242	ENST00000517905.1:c.95-1A>G	5.37:g.156997987T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BZL5|Q9UHP2	Silent	SNP	ENST00000517905.1	37																																																																																					0.498	ADAM19-003	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000373918.1	NM_033274	Silent	C	156997987	T	C	156997987	5	2	654	1	0	0	0	0	0	0	1	0	240	1565	54	3	2748	3	ADAM19	5	156997987	Splice_Site	SNP	T	TCGA-KM-8639-01A-11D-2397-10	48864020	156997987	23917273	20	40568										
ADAMTS2	9509	broad.mit.edu	37	chr5	178634608	178634608	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ccagcaggacctcgatgttgTagtcatcgtccgcagcatgc	11	13	1	0			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr5:178634608T>A	ENST00000251582.7	-	4	898	c.797A>T	c.(796-798)tAc>tTc	p.Y266F	ADAMTS2_ENST00000274609.5_Missense_Mutation_p.Y266F	NM_014244.4	NP_055059.2	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 2	266	Peptidase M12B. {ECO:0000255|PROSITE- ProRule:PRU00276}.				collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular matrix organization (GO:0030198)|lung development (GO:0030324)|protein processing (GO:0016485)|skin development (GO:0043588)|spermatogenesis (GO:0007283)	extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(15)|lung(31)|ovary(1)|pancreas(3)|prostate(2)|skin(7)	72	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		CTCGATGTTGTAGTCATCGTC	0.612																																																0													180	148	159					5																	178634608		2203	4300	6503	SO:0001583	missense	9509			AJ003125	CCDS4444.1, CCDS34311.1	5q23-q24	2008-07-18	2005-08-19		ENSG00000087116	ENSG00000087116		"ADAM metallopeptidases with thrombospondin type 1 motif"	218	protein-coding gene	gene with protein product	"procollagen I N-proteinase", "procollagen N-endopeptidase"	604539	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 2"			10094461, 15373769	Standard	NM_014244		Approved	ADAMTS-3, hPCPNI, PCINP, ADAM-TS2, NPI	uc003mjw.3	O95450	OTTHUMG00000130915	ENST00000251582.7:c.797A>T	5.37:g.178634608T>A	ENSP00000251582:p.Tyr266Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000251582.7	37	CCDS4444.1	.	.	.	.	.	.	.	.	.	.	T	13.90	2.376184	0.42105	.	.	ENSG00000087116	ENST00000251582;ENST00000274609	D;D	0.86497	-2.13;-2.13	5.58	5.58	0.84498	Metallopeptidase, catalytic domain (1);Peptidase M12B, ADAM/reprolysin (1);	0.293675	0.24341	N	0.039367	T	0.80287	0.4595	L	0.27053	0.805	0.46874	D	0.999233	B;B	0.17268	0.021;0.018	B;B	0.18263	0.013;0.021	T	0.74699	-0.3577	10	0.25751	T	0.34	.	14.9253	0.70871	0.0:0.0:0.0:1.0	.	266;266	O95450-2;O95450	.;ATS2_HUMAN	F	266	ENSP00000251582:Y266F;ENSP00000274609:Y266F	ENSP00000251582:Y266F	Y	-	2	0	ADAMTS2	178567214	1.000000	0.71417	1.000000	0.80357	0.814000	0.46013	7.808000	0.86044	2.126000	0.65437	0.459000	0.35465	TAC		0.612	ADAMTS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253507.1	NM_014244		A	178634608	T	A	178634608	3	1	654	1	0	0	0	0	1	0	0	0	265	1638	57	5	2989	5	ADAMTS2	5	178634608	Missense_Mutation	SNP	T	TCGA-KM-8639-01A-11D-2397-10	21636621	178634608	2280652	21	40569										
HLA-DRB5	3127	mdanderson.org	37	chr6	32487353	32487353	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	tgctgcctggatagaaaccaTtcacagagcagaccaggagg	12	10	1	3	rs114293611	byFrequency	TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr6:32487353T>C	ENST00000374975.3	-	3	508	c.446A>G	c.(445-447)aAt>aGt	p.N149S		NM_002125.3	NP_002116.2			major histocompatibility complex, class II, DR beta 5									p.N149S(1)		NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|pancreas(1)|prostate(1)|stomach(2)	10						ATAGAAACCATTCACAGAGCA	0.537													T|||	2089	0.417133	0.559	0.415	5008	,	,		9822	0.3304		0.4414	False		,,,				2504	0.2914															1	Substitution - Missense(1)	haematopoietic_and_lymphoid_tissue(1)						T	SER/ASN	1237,2619		353,531,1044	42	53	49		446	-9.4	0	6	dbSNP_132	49	2078,6142		542,994,2574	no	missense	HLA-DRB5	NM_002125.3	46	895,1525,3618	CC,CT,TT		25.2798,32.0799,27.4511	benign	149/267	32487353	3315,8761	1928	4110	6038	SO:0001583	missense	3127				CCDS4751.1	6p21.3	2013-01-11			ENSG00000198502	ENSG00000198502		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4953	protein-coding gene	gene with protein product		604776					Standard	NM_002125		Approved		uc003obj.3	Q30154	OTTHUMG00000031027	ENST00000374975.3:c.446A>G	6.37:g.32487353T>C	ENSP00000364114:p.Asn149Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000374975.3	37	CCDS4751.1	1029	0.47115384615384615	246	0.5	177	0.4889502762430939	256	0.44755244755244755	350	0.46174142480211083	.	0.054	-1.240602	0.01493	0.320799	0.252798	ENSG00000198502	ENST00000374975	T	0.02606	4.23	4.69	-9.39	0.00619	Immunoglobulin-like (1);Immunoglobulin C1-set (2);Immunoglobulin-like fold (1);	0.532611	0.22458	N	0.059800	T	0.00210	0.0006	N	0.01242	-0.935	0.80722	P	0.0	B;B	0.10296	0.0;0.003	B;B	0.13407	0.009;0.005	T	0.39643	-0.9604	9	0.12766	T	0.61	.	3.7772	0.08665	0.0982:0.418:0.1992:0.2846	.	76;149	Q29973;Q30154	.;DRB5_HUMAN	S	149	ENSP00000364114:N149S	ENSP00000364114:N149S	N	-	2	0	HLA-DRB5	32595331	0.000000	0.05858	0.004000	0.12327	0.270000	0.26580	-1.167000	0.03126	-1.562000	0.01682	-1.365000	0.01206	AAT		0.537	HLA-DRB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076022.2	NM_002125		C	32487353	T	C	32487353	3	2	654	1	0	0	0	0	1	0	0	0	7216	1493	52	3	370	3	HLA-DRB5	6	32487353	Missense_Mutation	SNP	T	TCGA-KM-8639-01A-11D-2397-10		32487353	138627714	22	40570										
TREML2	79865	mdanderson.org	37	chr6	41165977	41165977	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ttgaccaccttggcctgggcAtcgtcctgcagcaagtagcg	12	13	0	1	rs41273770	byFrequency	TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr6:41165977A>G	ENST00000483722.1	-	2	431	c.246T>C	c.(244-246)gaT>gaC	p.D82D		NM_024807.2	NP_079083.2	Q5T2D2	TRML2_HUMAN	triggering receptor expressed on myeloid cells-like 2	82	Ig-like V-type.				T cell activation (GO:0042110)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	receptor activity (GO:0004872)			breast(1)|central_nervous_system(1)|large_intestine(1)|lung(13)|ovary(1)|prostate(1)	18	Ovarian(28;0.0418)|Colorectal(47;0.196)					TGGCCTGGGCATCGTCCTGCA	0.592													A|||	90	0.0179712	0.0008	0.0389	5008	,	,		22599	0.001		0.0318	False		,,,				2504	0.0297															0								A		31,4375		0,31,2172	132	116	121		246	0.6	0.2	6	dbSNP_127	121	365,8235		3,359,3938	no	coding-synonymous	TREML2	NM_024807.2		3,390,6110	GG,GA,AA		4.2442,0.7036,3.0447		82/322	41165977	396,12610	2203	4300	6503	SO:0001819	synonymous_variant	79865			AK023755	CCDS4853.1, CCDS4853.2	6p21.1	2013-01-11	2004-04-14	2004-04-16	ENSG00000112195	ENSG00000112195		"Immunoglobulin superfamily / V-set domain containing"	21092	protein-coding gene	gene with protein product	"TREM-like transcript 2"	609715	"chromosome 6 open reading frame 76"	C6orf76		12645956	Standard	NM_024807		Approved	FLJ13693, TLT2, dJ238O23.1	uc010jxm.1	Q5T2D2	OTTHUMG00000016349	ENST00000483722.1:c.246T>C	6.37:g.41165977A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q08AP8|Q08AP9|Q8IWY0|Q9H8E9	Silent	SNP	ENST00000483722.1	37	CCDS4853.2																																																																																				0.592	TREML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043756.3	NM_024807		G	41165977	A	G	41165977	2	3	654	1	0	0	0	0	0	0	0	1	16485	214	8	3		3	TREML2	6	41165977	Silent	SNP	A	TCGA-KM-8639-01A-11D-2397-10	8678624	41165977	129949090	23	40571										
INTS1	26173	bcgsc.ca	37	chr7	1513878	1513878	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	gctgcggaacacgtgcggctGcagcagctccagcaggccca	14	15	0	0			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr7:1513878G>T	ENST00000404767.3	-	41	5840	c.5755C>A	c.(5755-5757)Cag>Aag	p.Q1919K	INTS1_ENST00000389470.4_Missense_Mutation_p.Q2123K	NM_001080453.2	NP_001073922.2	Q8N201	INT1_HUMAN	integrator complex subunit 1	1919					inner cell mass cell proliferation (GO:0001833)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|snRNA processing (GO:0016180)|U2 snRNA 3'-end processing (GO:0034474)	integral component of membrane (GO:0016021)|integrator complex (GO:0032039)|membrane (GO:0016020)				autonomic_ganglia(1)|cervix(1)|endometrium(14)|kidney(3)|large_intestine(7)|lung(24)|ovary(1)|prostate(4)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	62		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		ACGTGCGGCTGCAGCAGCTCC	0.692											OREG0017827	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													19	26	24					7																	1513878		2102	4209	6311	SO:0001583	missense	26173			AB037861	CCDS47526.1	7p22.3	2009-11-06			ENSG00000164880	ENSG00000164880			24555	protein-coding gene	gene with protein product		611345				16239144	Standard	NM_001080453		Approved	DKFZp586J0619, KIAA1440, INT1, NET28	uc003skn.2	Q8N201	OTTHUMG00000151449	ENST00000404767.3:c.5755C>A	7.37:g.1513878G>T	ENSP00000385722:p.Gln1919Lys	Somatic	596	WXS	Illumina HiSeq	Phase_I	A6NJ44|Q6NT70|Q6UX74|Q8WV40|Q96D36|Q9NTD1|Q9P2A8|Q9Y3W8	Missense_Mutation	SNP	ENST00000404767.3	37	CCDS47526.1	.	.	.	.	.	.	.	.	.	.	G	19.30	3.801455	0.70682	.	.	ENSG00000164880	ENST00000404767;ENST00000389470	T;T	0.66815	-0.23;-0.23	4.5	4.5	0.54988	.	0.109676	0.64402	D	0.000004	T	0.63236	0.2494	M	0.68952	2.095	0.54753	D	0.999987	P	0.39116	0.66	B	0.31101	0.124	T	0.71718	-0.4508	10	0.62326	D	0.03	.	17.368	0.87368	0.0:0.0:1.0:0.0	.	1919	Q8N201	INT1_HUMAN	K	1919;2123	ENSP00000385722:Q1919K;ENSP00000374121:Q2123K	ENSP00000374121:Q2123K	Q	-	1	0	INTS1	1480404	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	9.165000	0.94761	2.351000	0.79841	0.561000	0.74099	CAG		0.692	INTS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323683.1			T	1513878	G	T	1513878	3	4	654	1	0	0	0	0	1	0	0	0	7782	1328	46	4	849	4	INTS1	7	1513878	Missense_Mutation	SNP	G	TCGA-KM-8639-01A-11D-2397-10		1513878	157624785	24	40572										
CDK13	8621	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	40132819	40132819	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	actcaggccacctccagaacCtagcactccggtgtcgggta	10	15	1	1			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr7:40132819C>G	ENST00000181839.4	+	13	4276	c.3671C>G	c.(3670-3672)cCt>cGt	p.P1224R	CDK13_ENST00000340829.5_Missense_Mutation_p.P1164R	NM_003718.4|NM_031267.3	NP_003709.3|NP_112557.2	Q14004	CDK13_HUMAN	cyclin-dependent kinase 13	1224					alternative mRNA splicing, via spliceosome (GO:0000380)|hemopoiesis (GO:0030097)|multicellular organismal development (GO:0007275)|phosphorylation of RNA polymerase II C-terminal domain (GO:0070816)|positive regulation of cell proliferation (GO:0008284)|regulation of mitosis (GO:0007088)|viral process (GO:0016032)	cyclin K-CDK13 complex (GO:0002945)|extracellular space (GO:0005615)|nuclear cyclin-dependent protein kinase holoenzyme complex (GO:0019908)|nuclear speck (GO:0016607)	ATP binding (GO:0005524)|cyclin binding (GO:0030332)|cyclin-dependent protein serine/threonine kinase activity (GO:0004693)|poly(A) RNA binding (GO:0044822)|protein kinase activity (GO:0004672)|RNA polymerase II carboxy-terminal domain kinase activity (GO:0008353)			cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(19)|ovary(1)|pancreas(2)|prostate(2)|skin(5)|stomach(2)|urinary_tract(1)	49						CCTCCAGAACCTAGCACTCCG	0.453																																																0													56	48	51					7																	40132819		2203	4299	6502	SO:0001583	missense	8621			M80629	CCDS5461.1, CCDS5462.1	7p14.1	2011-11-08	2009-12-16	2009-12-16	ENSG00000065883	ENSG00000065883		"Cyclin-dependent kinases"	1733	protein-coding gene	gene with protein product	"cholinesterase-related cell division controller"	603309	"cell division cycle 2-like 5 (cholinesterase-related cell division controller)"	CDC2L5		1731328, 19884882	Standard	NM_003718		Approved	CHED, CDC2L, KIAA1791	uc003thh.4	Q14004	OTTHUMG00000023726	ENST00000181839.4:c.3671C>G	7.37:g.40132819C>G	ENSP00000181839:p.Pro1224Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q53G78|Q6DKQ9|Q75MH4|Q75MH5|Q96JN4|Q9H4A0|Q9H4A1|Q9UDR4	Missense_Mutation	SNP	ENST00000181839.4	37	CCDS5461.1	.	.	.	.	.	.	.	.	.	.	C	22.3	4.277727	0.80692	.	.	ENSG00000065883	ENST00000181839;ENST00000340829	T;T	0.56444	0.46;0.46	5.68	5.68	0.88126	.	.	.	.	.	T	0.69975	0.3171	L	0.53249	1.67	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.996	T	0.65212	-0.6223	8	.	.	.	-11.1096	20.1615	0.98135	0.0:1.0:0.0:0.0	.	1164;1224	Q14004-2;Q14004	.;CDK13_HUMAN	R	1224;1164	ENSP00000181839:P1224R;ENSP00000340557:P1164R	.	P	+	2	0	CDK13	40099344	1.000000	0.71417	0.991000	0.47740	0.666000	0.39218	4.707000	0.61852	2.835000	0.97688	0.650000	0.86243	CCT		0.453	CDK13-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000250726.2	NM_003718		G	40132819	C	G	40132819	3	3	654	1	0	0	0	0	1	0	0	0	3131	681	24	4	3721	4	CDK13	7	40132819	Missense_Mutation	SNP	C	TCGA-KM-8639-01A-11D-2397-10	38618941	40132819	119005844	25	40573										
CNOT4	4850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr7	135079031	135079031	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ggttggtcttgaacggacagTtccttctcaatcaggtctgc	11	10	4	1			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr7:135079031T>C	ENST00000315544.5	-	10	1545	c.1266A>G	c.(1264-1266)gaA>gaG	p.E422E	CNOT4_ENST00000541284.1_Silent_p.E422E|CNOT4_ENST00000361528.4_Silent_p.E419E|CNOT4_ENST00000414802.1_Intron|CNOT4_ENST00000428680.2_Silent_p.E419E|CNOT4_ENST00000423368.2_Silent_p.E422E|CNOT4_ENST00000356162.4_Intron|CNOT4_ENST00000451834.1_Silent_p.E419E	NM_001190848.1	NP_001177777.1	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	422					gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|protein autoubiquitination (GO:0051865)|RNA metabolic process (GO:0016070)	cytosol (GO:0005829)|nucleus (GO:0005634)	ligase activity (GO:0016874)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(10)|prostate(1)|skin(1)	22						GAACGGACAGTTCCTTCTCAA	0.488																																					Ovarian(51;766 1130 5502 35047 50875)											0													134	135	134					7																	135079031		1979	4155	6134	SO:0001819	synonymous_variant	4850			AF180475	CCDS43650.1, CCDS47719.1, CCDS55164.1, CCDS55165.1, CCDS55166.1, CCDS55167.1	7q33	2013-09-19			ENSG00000080802	ENSG00000080802		"RNA binding motif (RRM) containing"	7880	protein-coding gene	gene with protein product		604911		NOT4		10637334	Standard	NM_013316		Approved	CLONE243, NOT4H	uc011kpy.2	O95628	OTTHUMG00000155568	ENST00000315544.5:c.1266A>G	7.37:g.135079031T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6I4|E7ET38|F8VQP3|O95339|O95627|Q8IYM7|Q8NCL0|Q9NPQ1|Q9NZN6	Silent	SNP	ENST00000315544.5	37	CCDS55166.1																																																																																				0.488	CNOT4-201	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_013316		C	135079031	T	C	135079031	2	2	654	1	0	0	0	0	0	0	0	1	3623	1722	60	3		3	CNOT4	7	135079031	Silent	SNP	T	TCGA-KM-8639-01A-11D-2397-10	94946212	135079031	24059632	26	40574										
ANXA13	312	bcgsc.ca	37	chr8	124710664	124710664	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	gcacaggacctcaatgaggaCggactcatctgtgcccagac	11	13	3	2	rs6995099	byFrequency	TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr8:124710664C>T	ENST00000419625.1	-	4	394	c.322G>A	c.(322-324)Gtc>Atc	p.V108I	ANXA13_ENST00000262219.6_Missense_Mutation_p.V149I	NM_004306.2	NP_004297.2	P27216	ANX13_HUMAN	annexin A13	108			V -> I (in dbSNP:rs6995099).		cell differentiation (GO:0030154)|negative regulation of Golgi to plasma membrane protein transport (GO:0042997)|positive regulation of Golgi to plasma membrane protein transport (GO:0042998)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|exocytic vesicle (GO:0070382)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|calcium-dependent phospholipid binding (GO:0005544)|phosphatidylglycerol binding (GO:1901611)|phosphatidylserine binding (GO:0001786)			breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|liver(1)|lung(11)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|urinary_tract(2)	25	Lung NSC(37;2.06e-11)|Ovarian(258;0.00579)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00288)			TCAATGAGGACGGACTCATCT	0.597													C|||	257	0.0513179	0.0643	0.062	5008	,	,		19912	0.005		0.0845	False		,,,				2504	0.0399															0								C	ILE/VAL,ILE/VAL	313,4093	170.1+/-200.6	14,285,1904	108	98	102		445,322	-2.2	0	8	dbSNP_116	102	640,7960	163.6+/-216.1	20,600,3680	yes	missense,missense	ANXA13	NM_001003954.1,NM_004306.2	29,29	34,885,5584	TT,TC,CC		7.4419,7.1039,7.3274	benign,benign	149/358,108/317	124710664	953,12053	2203	4300	6503	SO:0001583	missense	312			Z11502	CCDS34939.1, CCDS47917.1	8q24.13	2005-11-09			ENSG00000104537	ENSG00000104537		"Annexins"	536	protein-coding gene	gene with protein product		602573		ANX13		9503022	Standard	NM_004306		Approved		uc003yqt.3	P27216	OTTHUMG00000164987	ENST00000419625.1:c.322G>A	8.37:g.124710664C>T	ENSP00000390809:p.Val108Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BQR5	Missense_Mutation	SNP	ENST00000419625.1	37	CCDS47917.1	129	0.059065934065934064	39	0.07926829268292683	24	0.06629834254143646	1	0.0017482517482517483	65	0.08575197889182058	C	13.11	2.138053	0.37728	0.071039	0.074419	ENSG00000104537	ENST00000262219;ENST00000419625;ENST00000520519	T;T;T	0.03635	3.86;3.86;3.86	5.67	-2.2	0.06994	Annexin repeat, conserved site (1);	0.422095	0.27956	N	0.017164	T	0.00144	0.0004	M	0.63208	1.945	0.53005	P	3.100000000000325E-5	P;P	0.37731	0.607;0.553	B;B	0.33690	0.168;0.105	T	0.34625	-0.9821	9	0.48119	T	0.1	.	0.8559	0.01182	0.2909:0.2147:0.2937:0.2007	rs6995099;rs52822457;rs59748842;rs6995099	108;149	P27216;P27216-2	ANX13_HUMAN;.	I	149;108;79	ENSP00000262219:V149I;ENSP00000390809:V108I;ENSP00000429358:V79I	ENSP00000262219:V149I	V	-	1	0	ANXA13	124779845	0.021000	0.18746	0.014000	0.15608	0.633000	0.38033	0.327000	0.19663	-0.417000	0.07461	-0.291000	0.09656	GTC		0.597	ANXA13-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381308.1	NM_004306		T	124710664	C	T	124710664	3	4	654	1	0	0	0	0	1	0	0	0	717	536	19	1	660	1	ANXA13	8	124710664	Missense_Mutation	SNP	C	TCGA-KM-8639-01A-11D-2397-10		124710664	21653358	27	40575										
RMI1	80010	bcgsc.ca	37	chr9	86616443	86616443	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	tttccgtcttggtgttctctTattgaaaccagaaaacgtga	8	8	2	3	rs200956667		TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr9:86616443T>C	ENST00000325875.3	+	3	874	c.542T>C	c.(541-543)tTa>tCa	p.L181S		NM_024945.2	NP_079221.2	Q9H9A7	RMI1_HUMAN	RecQ mediated genome instability 1	181					DNA replication (GO:0006260)|glucose homeostasis (GO:0042593)|multicellular organism growth (GO:0035264)|reduction of food intake in response to dietary excess (GO:0002023)|response to glucose (GO:0009749)	nucleus (GO:0005634)				biliary_tract(1)|central_nervous_system(1)|kidney(2)|large_intestine(7)|lung(3)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	18						GGTGTTCTCTTATTGAAACCA	0.358																																																0								T	SER/LEU	1,4405	2.1+/-5.4	0,1,2202	68	71	70		542	5.8	1	9		70	3,8597	2.2+/-6.3	0,3,4297	yes	missense	RMI1	NM_024945.2	145	0,4,6499	CC,CT,TT		0.0349,0.0227,0.0308	probably-damaging	181/626	86616443	4,13002	2203	4300	6503	SO:0001583	missense	80010			AK022950	CCDS6669.1	9q22.1	2013-06-10	2013-06-10	2006-06-12	ENSG00000178966	ENSG00000178966			25764	protein-coding gene	gene with protein product	"BLM-Associated Polypeptide, 75 kDa"	610404	"chromosome 9 open reading frame 76", "RMI1, RecQ mediated genome instability 1, homolog (S. cerevisiae)"	C9orf76		15775963, 20826341	Standard	NM_024945		Approved	FLJ12888, BLAP75	uc004anq.4	Q9H9A7	OTTHUMG00000020113	ENST00000325875.3:c.542T>C	9.37:g.86616443T>C	ENSP00000317039:p.Leu181Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q05BX1|Q05CW3|Q5SQG8|Q5SQG9|Q6P1Q4|Q6PI89|Q7Z6L6	Missense_Mutation	SNP	ENST00000325875.3	37	CCDS6669.1	.	.	.	.	.	.	.	.	.	.	T	17.94	3.512493	0.64522	2.27E-4	3.49E-4	ENSG00000178966	ENST00000445877;ENST00000325875	T;T	0.61859	0.07;0.64	5.76	5.76	0.90799	.	0.000000	0.64402	D	0.000001	D	0.82393	0.5027	M	0.93375	3.41	0.58432	D	0.999998	D	0.89917	1.0	D	0.85130	0.997	D	0.87110	0.2184	10	0.87932	D	0	-7.9991	16.3668	0.83335	0.0:0.0:0.0:1.0	.	181	Q9H9A7	RMI1_HUMAN	S	181	ENSP00000402433:L181S;ENSP00000317039:L181S	ENSP00000317039:L181S	L	+	2	0	RMI1	85806263	1.000000	0.71417	0.995000	0.50966	0.997000	0.91878	4.994000	0.63901	2.322000	0.78497	0.528000	0.53228	TTA		0.358	RMI1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052870.1	NM_024945		C	86616443	T	C	86616443	3	2	654	1	0	0	0	0	1	0	0	0	13408	1764	61	3	544	3	RMI1	9	86616443	Missense_Mutation	SNP	T	TCGA-KM-8639-01A-11D-2397-10		86616443	54596988	28	40576										
TSC1	7248	broad.mit.edu;hgsc.bcm.edu	37	chr9	135779084	135779093	+	Frame_Shift_Del	DEL	CGGAGGAGCC	CGGAGGAGCC	-													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ctgctgctttgatcaccttgCggaggagccgcctgttccgg					rs397514803		TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	CGGAGGAGCC	CGGAGGAGCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr9:135779084_135779093delCGGAGGAGCC	ENST00000298552.3	-	17	2374_2383	c.2153_2162delGGCTCCTCCG	c.(2152-2163)cggctcctccgcfs	p.RLLR718fs	TSC1_ENST00000440111.2_Frame_Shift_Del_p.RLLR718fs|TSC1_ENST00000545250.1_Frame_Shift_Del_p.RLLR667fs	NM_000368.4|NM_001162426.1|NM_001162427.1	NP_000359.1|NP_001155898.1|NP_001155899.1	Q92574	TSC1_HUMAN	tuberous sclerosis 1	718					activation of Rho GTPase activity (GO:0032862)|cardiac muscle cell differentiation (GO:0055007)|cell cycle arrest (GO:0007050)|cell projection organization (GO:0030030)|cell-matrix adhesion (GO:0007160)|cerebral cortex development (GO:0021987)|hippocampus development (GO:0021766)|insulin receptor signaling pathway (GO:0008286)|kidney development (GO:0001822)|myelination (GO:0042552)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of TOR signaling (GO:0032007)|negative regulation of translation (GO:0017148)|neural tube closure (GO:0001843)|positive regulation of focal adhesion assembly (GO:0051894)|potassium ion transport (GO:0006813)|protein heterooligomerization (GO:0051291)|protein stabilization (GO:0050821)|regulation of cell cycle (GO:0051726)|regulation of cell-matrix adhesion (GO:0001952)|regulation of phosphoprotein phosphatase activity (GO:0043666)|regulation of protein kinase activity (GO:0045859)|regulation of stress fiber assembly (GO:0051492)|regulation of translation (GO:0006417)|response to insulin (GO:0032868)|rRNA export from nucleus (GO:0006407)|synapse organization (GO:0050808)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|growth cone (GO:0030426)|intracellular membrane-bounded organelle (GO:0043231)|lamellipodium (GO:0030027)|membrane (GO:0016020)|protein complex (GO:0043234)|TSC1-TSC2 complex (GO:0033596)	chaperone binding (GO:0051087)|GTPase regulator activity (GO:0030695)|protein N-terminus binding (GO:0047485)	p.R721fs*9(1)|p.?(1)		NS(1)|bone(1)|breast(3)|central_nervous_system(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(9)|lung(20)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(4)	65				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		GATCACCTTGCGGAGGAGCCGCCTGTTCCG	0.533			"D, Mis, N, F, S"			"hamartoma, renal cell"			Tuberous Sclerosis																													yes	Rec		Tuberous sclerosis 1	9	9q34	7248	tuberous sclerosis 1 gene		"E, O"	2	Unknown(1)|Deletion - Frameshift(1)	ovary(1)|bone(1)																																								SO:0001589	frameshift_variant	7248	Familial Cancer Database	TS, Tuberous Sclerosis Complex, TSC, Bourneville-Pringle disease	AF013168	CCDS6956.1, CCDS55350.1	9q34	2014-09-17			ENSG00000165699	ENSG00000165699			12362	protein-coding gene	gene with protein product		605284		TSC		9242607, 10806479	Standard	NM_000368		Approved	KIAA0243, LAM, hamartin	uc004cca.2	Q92574	OTTHUMG00000020844	ENST00000298552.3:c.2153_2162delGGCTCCTCCG	9.37:g.135779084_135779093delCGGAGGAGCC	ENSP00000298552:p.Arg718fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z897|Q5VVN5	Frame_Shift_Del	DEL	ENST00000298552.3	37	CCDS6956.1																																																																																				0.533	TSC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054799.1			-	135779093	CGGAGGAGCC	-	135779084	7	5	654	1	0	1	0	1	0	0	0	0	16617	768	27	0	1360	0	TSC1	9	135779084	Frame_Shift_Del	DEL	CGGAGGAGCC	TCGA-KM-8639-01A-11D-2397-10	49162641	135779084	5434347	29	40577	367	2								
TSC1	7248	bcgsc.ca	37	chr9	135779085	135779094	+	Frame_Shift_Del	DEL	CGGAGGAGCC	CGGAGGAGCC	-													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	tgctgctttgatcaccttgcGgaggagccgcctgttccgga					rs397514803|rs118203651		TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	CGGAGGAGCC	CGGAGGAGCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr9:135779085_135779094delCGGAGGAGCC	ENST00000298552.3	-	17	2373_2382	c.2152_2161delGGCTCCTCCG	c.(2152-2163)ggctcctccggcfs	p.GSSG718fs	TSC1_ENST00000440111.2_Frame_Shift_Del_p.GSSG718fs|TSC1_ENST00000545250.1_Frame_Shift_Del_p.GSSG667fs	NM_000368.4|NM_001162426.1|NM_001162427.1	NP_000359.1|NP_001155898.1|NP_001155899.1	Q92574	TSC1_HUMAN	tuberous sclerosis 1	718					activation of Rho GTPase activity (GO:0032862)|cardiac muscle cell differentiation (GO:0055007)|cell cycle arrest (GO:0007050)|cell projection organization (GO:0030030)|cell-matrix adhesion (GO:0007160)|cerebral cortex development (GO:0021987)|hippocampus development (GO:0021766)|insulin receptor signaling pathway (GO:0008286)|kidney development (GO:0001822)|myelination (GO:0042552)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of TOR signaling (GO:0032007)|negative regulation of translation (GO:0017148)|neural tube closure (GO:0001843)|positive regulation of focal adhesion assembly (GO:0051894)|potassium ion transport (GO:0006813)|protein heterooligomerization (GO:0051291)|protein stabilization (GO:0050821)|regulation of cell cycle (GO:0051726)|regulation of cell-matrix adhesion (GO:0001952)|regulation of phosphoprotein phosphatase activity (GO:0043666)|regulation of protein kinase activity (GO:0045859)|regulation of stress fiber assembly (GO:0051492)|regulation of translation (GO:0006417)|response to insulin (GO:0032868)|rRNA export from nucleus (GO:0006407)|synapse organization (GO:0050808)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|growth cone (GO:0030426)|intracellular membrane-bounded organelle (GO:0043231)|lamellipodium (GO:0030027)|membrane (GO:0016020)|protein complex (GO:0043234)|TSC1-TSC2 complex (GO:0033596)	chaperone binding (GO:0051087)|GTPase regulator activity (GO:0030695)|protein N-terminus binding (GO:0047485)	p.?(1)		NS(1)|bone(1)|breast(3)|central_nervous_system(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(9)|lung(20)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(4)	65				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		ATCACCTTGCGGAGGAGCCGCCTGTTCCGG	0.533			"D, Mis, N, F, S"			"hamartoma, renal cell"			Tuberous Sclerosis																													yes	Rec		Tuberous sclerosis 1	9	9q34	7248	tuberous sclerosis 1 gene		"E, O"	1	Unknown(1)	bone(1)																																								SO:0001589	frameshift_variant	7248	Familial Cancer Database	TS, Tuberous Sclerosis Complex, TSC, Bourneville-Pringle disease	AF013168	CCDS6956.1, CCDS55350.1	9q34	2014-09-17			ENSG00000165699	ENSG00000165699			12362	protein-coding gene	gene with protein product		605284		TSC		9242607, 10806479	Standard	NM_000368		Approved	KIAA0243, LAM, hamartin	uc004cca.2	Q92574	OTTHUMG00000020844	ENST00000298552.3:c.2152_2161delGGCTCCTCCG	9.37:g.135779085_135779094delCGGAGGAGCC	ENSP00000298552:p.Gly718fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z897|Q5VVN5	Frame_Shift_Del	DEL	ENST00000298552.3	37	CCDS6956.1																																																																																				0.533	TSC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054799.1			-	135779094	CGGAGGAGCC	-	135779085	7	5	654	1	0	1	0	1	0	0	0	0	16617	1116	39	0	1361	0	TSC1	9	135779085	Frame_Shift_Del	DEL	CGGAGGAGCC	TCGA-KM-8639-01A-11D-2397-10	1	135779085	5434346	30	40578	367	2								
GPR158	57512	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr10	25464834	25464834	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ttggtaccaggcgctggtgtGgagccttctggagggcgagc	18	9	1	0			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr10:25464834G>A	ENST00000376351.3	+	1	844	c.485G>A	c.(484-486)tGg>tAg	p.W162*	GPR158-AS1_ENST00000449643.1_RNA	NM_020752.2	NP_065803.2	Q5T848	GP158_HUMAN	G protein-coupled receptor 158	162					protein localization to plasma membrane (GO:0072659)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			breast(5)|cervix(1)|endometrium(9)|kidney(10)|large_intestine(20)|lung(56)|ovary(4)|pancreas(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	119						GCGCTGGTGTGGAGCCTTCTG	0.632																																																0													70	67	68					10																	25464834		2203	4300	6503	SO:0001587	stop_gained	57512			AB032962	CCDS31166.1	10p12.31	2012-08-21			ENSG00000151025	ENSG00000151025		"GPCR / Class C : Orphans"	23689	protein-coding gene	gene with protein product		614573					Standard	NM_020752		Approved	KIAA1136	uc001isj.3	Q5T848	OTTHUMG00000017832	ENST00000376351.3:c.485G>A	10.37:g.25464834G>A	ENSP00000365529:p.Trp162*	Somatic		WXS	Illumina HiSeq	Phase_I	Q6QR81|Q9ULT3	Nonsense_Mutation	SNP	ENST00000376351.3	37	CCDS31166.1	.	.	.	.	.	.	.	.	.	.	G	39	7.370902	0.98241	.	.	ENSG00000151025	ENST00000376351	.	.	.	4.82	4.82	0.62117	.	0.314786	0.25961	N	0.027193	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.72032	D	0.01	.	11.5502	0.50716	0.0817:0.0:0.9183:0.0	.	.	.	.	X	162	.	ENSP00000365529:W162X	W	+	2	0	GPR158	25504840	1.000000	0.71417	1.000000	0.80357	0.730000	0.41778	3.011000	0.49567	2.510000	0.84645	0.467000	0.42956	TGG		0.632	GPR158-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047248.2	XM_166110		A	25464834	G	A	25464834	4	1	654	1	0	0	0	0	0	1	0	0	6670	1357	47	2	487	2	GPR158	10	25464834	Nonsense_Mutation	SNP	G	TCGA-KM-8639-01A-11D-2397-10		25464834	110069913	31	40579										
ZNF33A	7581	bcgsc.ca	37	chr10	38344700	38344700	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	atcagagaacacacacagggCagaaaccctttgcatgtccc	8	13	1	2	rs2505232	byFrequency	TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr10:38344700C>G	ENST00000458705.2	+	5	1803	c.1645C>G	c.(1645-1647)Cag>Gag	p.Q549E	ZNF33A_ENST00000374618.3_Missense_Mutation_p.Q550E|ZNF33A_ENST00000307441.9_Missense_Mutation_p.Q549E|ZNF33A_ENST00000469037.2_Intron|ZNF33A_ENST00000432900.2_Missense_Mutation_p.Q556E			Q06730	ZN33A_HUMAN	zinc finger protein 33A	549			Q -> E (in dbSNP:rs2505232). {ECO:0000269|PubMed:14702039}.		regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			cervix(2)|endometrium(2)|large_intestine(8)|liver(2)|lung(27)|ovary(2)|prostate(1)|skin(2)	46						ACACACAGGGCAGAAACCCTT	0.433													G|||	2389	0.477037	0.5272	0.5173	5008	,	,		19110	0.5754		0.493	False		,,,				2504	0.2628															0								G	GLU/GLN,GLU/GLN	2268,2138	579.8+/-385.0	553,1162,488	100	102	102		1648,1645	1.7	1	10	dbSNP_100	102	4103,4497	591.5+/-392.8	963,2177,1160	no	missense,missense	ZNF33A	NM_006954.1,NM_006974.2	29,29	1516,3339,1648	GG,GC,CC		47.7093,48.5247,48.9851	benign,benign	550/812,549/811	38344700	6371,6635	2203	4300	6503	SO:0001583	missense	7581			D31763	CCDS31182.1, CCDS60514.1, CCDS73088.1, CCDS73089.1	10p11.2	2013-01-08	2005-03-18		ENSG00000189180	ENSG00000189180		"Zinc fingers, C2H2-type", "-"	13096	protein-coding gene	gene with protein product	"zinc finger and ZAK associated protein with KRAB domain"	194521	"zinc finger protein 33a (KOX 31)", "zinc finger protein 11A"	ZNF33, ZNF11A		2014798, 8464732	Standard	NM_006974		Approved	KOX5, KOX31, KIAA0065, FLJ23404, ZZAPK	uc031pui.1	Q06730	OTTHUMG00000017983	ENST00000458705.2:c.1645C>G	10.37:g.38344700C>G	ENSP00000387713:p.Gln549Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9X9|B4E0M8|F6TH33|F8WAJ5|P17013|Q5VZ86	Missense_Mutation	SNP	ENST00000458705.2	37	CCDS31182.1	1117	0.5114468864468864	241	0.4898373983739837	181	0.5	314	0.548951048951049	381	0.5026385224274407	G	0.003	-2.414126	0.00191	0.514753	0.477093	ENSG00000189180	ENST00000374618;ENST00000432900;ENST00000458705;ENST00000307441	T;T;T;T	0.11712	2.75;2.75;2.75;2.75	1.68	1.68	0.24146	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.36591	N	0.002514	T	0.00012	0.0000	N	0.00783	-1.19	0.58432	P	1.0000000000287557E-6	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.43572	-0.9383	9	0.02654	T	1	.	7.6052	0.28097	0.0:0.2686:0.7313:0.0	rs2505232;rs17609186;rs59756517;rs2505232	556;549;550	F6TH33;Q06730;F8WAJ5	.;ZN33A_HUMAN;.	E	550;556;549;549	ENSP00000363747:Q550E;ENSP00000402467:Q556E;ENSP00000387713:Q549E;ENSP00000304268:Q549E	ENSP00000304268:Q549E	Q	+	1	0	ZNF33A	38384706	1.000000	0.71417	0.973000	0.42090	0.105000	0.19272	4.342000	0.59341	0.044000	0.15775	-0.676000	0.03789	CAG		0.433	ZNF33A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000047614.1	NM_006974		G	38344700	C	G	38344700	3	3	654	1	0	0	0	0	1	0	0	0	17866	711	25	4	1662	4	ZNF33A	10	38344700	Missense_Mutation	SNP	C	TCGA-KM-8639-01A-11D-2397-10	12879866	38344700	97190047	32	40580										
SEC23IP	11196	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	121652313	121652313	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ccatggccgagagaaaacctAacggtggcagcggcggcgcc	15	13	0	1			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr10:121652313A>C	ENST00000369075.3	+	1	91	c.19A>C	c.(19-21)Aac>Cac	p.N7H	SEC23IP_ENST00000543134.1_5'UTR	NM_007190.3	NP_009121.1	Q9Y6Y8	S23IP_HUMAN	SEC23 interacting protein	7	Interaction with SEC23A.				acrosome assembly (GO:0001675)|Golgi organization (GO:0007030)|intracellular protein transport (GO:0006886)|single fertilization (GO:0007338)	cis-Golgi network (GO:0005801)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum exit site (GO:0070971)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|perinuclear endoplasmic reticulum (GO:0097038)	metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			NS(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(12)|ovary(3)|prostate(1)|stomach(3)|urinary_tract(1)	36		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		GAGAAAACCTAACGGTGGCAG	0.612																																																0													38	35	36					10																	121652313		2203	4300	6503	SO:0001583	missense	11196			AB019435	CCDS7618.1	10q26.11-q26.12	2013-01-10			ENSG00000107651	ENSG00000107651		"Sterile alpha motif (SAM) domain containing"	17018	protein-coding gene	gene with protein product						10400679	Standard	NM_007190		Approved	p125	uc001leu.2	Q9Y6Y8	OTTHUMG00000019161	ENST00000369075.3:c.19A>C	10.37:g.121652313A>C	ENSP00000358071:p.Asn7His	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRD2|Q8IXH5|Q9BUK5	Missense_Mutation	SNP	ENST00000369075.3	37	CCDS7618.1	.	.	.	.	.	.	.	.	.	.	A	17.29	3.352138	0.61183	.	.	ENSG00000107651	ENST00000369075	D	0.97209	-4.29	5.5	5.5	0.81552	.	0.123358	0.64402	D	0.000001	D	0.97148	0.9068	M	0.63843	1.955	0.80722	D	1	D	0.64830	0.994	P	0.57371	0.819	D	0.97201	0.9864	10	0.87932	D	0	-14.952	10.3789	0.44099	0.8533:0.0:0.0:0.1466	.	7	Q9Y6Y8	S23IP_HUMAN	H	7	ENSP00000358071:N7H	ENSP00000358071:N7H	N	+	1	0	SEC23IP	121642303	0.942000	0.31987	0.943000	0.38184	0.268000	0.26511	2.234000	0.43035	2.090000	0.63153	0.460000	0.39030	AAC		0.612	SEC23IP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050688.1			C	121652313	A	C	121652313	3	2	654	1	0	0	0	0	1	0	0	0	14006	362	13	5	21	5	SEC23IP	10	121652313	Missense_Mutation	SNP	A	TCGA-KM-8639-01A-11D-2397-10	83307613	121652313	13882434	33	40581										
TRIM22	10346	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr11	5717467	5717467	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ccaagggagcagtgcaatggAtttctcagtaaaggtagaca	12	7	1	1			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr11:5717467A>G	ENST00000379965.3	+	2	282	c.5A>G	c.(4-6)gAt>gGt	p.D2G	TRIM5_ENST00000380027.1_Intron	NM_001199573.1|NM_006074.4	NP_001186502.1|NP_006065.2	Q8IYM9	TRI22_HUMAN	tripartite motif containing 22	2					defense response to virus (GO:0051607)|immune response (GO:0006955)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|protein trimerization (GO:0070206)|protein ubiquitination (GO:0016567)|regulation of transcription, DNA-templated (GO:0006355)|response to virus (GO:0009615)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ligase activity (GO:0016874)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			kidney(3)|large_intestine(8)|lung(9)|prostate(1)|stomach(2)	23		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;7.54e-09)|BRCA - Breast invasive adenocarcinoma(625;0.14)		AGTGCAATGGATTTCTCAGTA	0.507																																					GBM(104;491 2336 5222)											0													73	79	77					11																	5717467		2201	4297	6498	SO:0001583	missense	10346			X82200	CCDS41612.1	11p15	2013-01-09	2011-01-25		ENSG00000132274	ENSG00000132274		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	16379	protein-coding gene	gene with protein product		606559	"tripartite motif-containing 22"			11331580, 11096452	Standard	NM_006074		Approved	STAF50, GPSTAF50, RNF94	uc001mbr.3	Q8IYM9	OTTHUMG00000066904	ENST00000379965.3:c.5A>G	11.37:g.5717467A>G	ENSP00000369299:p.Asp2Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q05CQ0|Q15521	Missense_Mutation	SNP	ENST00000379965.3	37	CCDS41612.1	.	.	.	.	.	.	.	.	.	.	A	12.20	1.867032	0.32977	.	.	ENSG00000132274	ENST00000379965;ENST00000425490;ENST00000454828;ENST00000414641;ENST00000455293	T;T;T;T	0.72835	-0.23;-0.51;-0.16;-0.69	4.24	0.943	0.19531	.	.	.	.	.	T	0.49847	0.1581	N	0.11201	0.11	0.23559	N	0.99741	P;B;B	0.34662	0.462;0.053;0.113	B;B;B	0.31946	0.045;0.138;0.05	T	0.39683	-0.9602	9	0.72032	D	0.01	.	10.8196	0.46597	0.5695:0.4305:0.0:0.0	.	2;2;2	C9JWC5;Q8IYM9-2;Q8IYM9	.;.;TRI22_HUMAN	G	2	ENSP00000369299:D2G;ENSP00000400417:D2G;ENSP00000393250:D2G;ENSP00000396849:D2G	ENSP00000369299:D2G	D	+	2	0	TRIM22	5674043	0.005000	0.15991	0.241000	0.24154	0.214000	0.24535	-0.085000	0.11250	0.050000	0.15949	0.383000	0.25322	GAT		0.507	TRIM22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000143387.2	NM_006074		G	5717467	A	G	5717467	3	3	654	1	0	0	0	0	1	0	0	0	16508	333	12	3	7	3	TRIM22	11	5717467	Missense_Mutation	SNP	A	TCGA-KM-8639-01A-11D-2397-10		5717467	129289049	34	40582										
PACS1	55690	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	66008957	66008957	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ggtggactactggctgggccAccccggggagcggaggaggg	21	10	0	0			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr11:66008957A>G	ENST00000320580.4	+	22	2522	c.2489A>G	c.(2488-2490)cAc>cGc	p.H830R	PACS1_ENST00000529757.1_Missense_Mutation_p.H366R|PACS1_ENST00000524815.1_5'UTR	NM_018026.3	NP_060496.2	Q6VY07	PACS1_HUMAN	phosphofurin acidic cluster sorting protein 1	830					protein targeting to Golgi (GO:0000042)|protein targeting to plasma membrane (GO:0072661)|regulation of defense response to virus by virus (GO:0050690)|viral process (GO:0016032)	COPI-coated vesicle (GO:0030137)|cytosol (GO:0005829)	ion channel binding (GO:0044325)		RBM14/PACS1(2)	breast(1)|central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(8)|lung(8)|ovary(6)|skin(2)|urinary_tract(1)	37						TGGCTGGGCCACCCCGGGGAG	0.617																																																0													47	35	39					11																	66008957		2200	4295	6495	SO:0001583	missense	55690			AB033001	CCDS8129.1	11q13.1-q13.2	2008-02-05			ENSG00000175115	ENSG00000175115			30032	protein-coding gene	gene with protein product		607492				12855553, 14608369	Standard	NM_018026		Approved	FLJ10209, KIAA1175	uc001oha.2	Q6VY07	OTTHUMG00000166889	ENST00000320580.4:c.2489A>G	11.37:g.66008957A>G	ENSP00000316454:p.His830Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PJY6|Q6PKB6|Q7Z590|Q7Z5W4|Q8N8K6|Q96MW0|Q9NW92|Q9ULP5	Missense_Mutation	SNP	ENST00000320580.4	37	CCDS8129.1	.	.	.	.	.	.	.	.	.	.	A	13.25	2.180267	0.38511	.	.	ENSG00000175115	ENST00000320580;ENST00000529757	T;T	0.40756	1.02;1.02	5.42	5.42	0.78866	.	0.318327	0.36703	N	0.002442	T	0.22282	0.0537	N	0.05078	-0.115	0.80722	D	1	B	0.25441	0.126	B	0.25614	0.062	T	0.12708	-1.0537	10	0.15066	T	0.55	-27.2436	13.2975	0.60305	1.0:0.0:0.0:0.0	.	830	Q6VY07	PACS1_HUMAN	R	830;366	ENSP00000316454:H830R;ENSP00000432858:H366R	ENSP00000316454:H830R	H	+	2	0	PACS1	65765533	0.257000	0.24022	1.000000	0.80357	0.979000	0.70002	1.621000	0.36986	2.196000	0.70406	0.533000	0.62120	CAC		0.617	PACS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391690.2	NM_018026		G	66008957	A	G	66008957	3	3	654	1	0	0	0	0	1	0	0	0	11379	159	6	3	2575	3	PACS1	11	66008957	Missense_Mutation	SNP	A	TCGA-KM-8639-01A-11D-2397-10	60291490	66008957	68997559	35	40583										
RBM14	10432	broad.mit.edu	37	chr11	66384364	66384365	+	Frame_Shift_Ins	INS	-	-	T													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	atcgaagccctgcacggccaINScgagctgcggccggggcgcg					rs543247447		TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr11:66384364_66384365insT	ENST00000310137.4	+	1	312_313	c.173_174insT	c.(172-177)cacgagfs	p.E59fs	RBM4_ENST00000514361.3_Frame_Shift_Ins_p.E59fs|RBM14_ENST00000409372.1_Frame_Shift_Ins_p.E59fs|RBM4_ENST00000503028.2_5'UTR|RBM14_ENST00000409738.4_Frame_Shift_Ins_p.E59fs|RBM14_ENST00000443702.1_Frame_Shift_Ins_p.E59fs|RNU4-39P_ENST00000362455.1_RNA|RBM14-RBM4_ENST00000500635.2_Frame_Shift_Ins_p.E59fs|RBM14-RBM4_ENST00000412278.2_Frame_Shift_Ins_p.E59fs|RBM14_ENST00000393979.3_Frame_Shift_Ins_p.E59fs|RBM14-RBM4_ENST00000511114.1_3'UTR	NM_006328.3	NP_006319.1	Q96PK6	RBM14_HUMAN	RNA binding motif protein 14	59	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				DNA recombination (GO:0006310)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|glucocorticoid receptor signaling pathway (GO:0042921)|histone deacetylation (GO:0016575)|intracellular estrogen receptor signaling pathway (GO:0030520)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|response to hormone (GO:0009725)|transcription from RNA polymerase II promoter (GO:0006366)	mediator complex (GO:0016592)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)|transcription factor complex (GO:0005667)	ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein binding, bridging (GO:0030674)|RNA binding (GO:0003723)|RNA polymerase II transcription cofactor activity (GO:0001104)		RBM14/PACS1(2)	breast(2)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(3)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	17						CTGCACGGCCACGAGCTGCGGC	0.644																																																0																																										SO:0001589	frameshift_variant	100526737			AF080561	CCDS8147.1, CCDS55772.1, CCDS55773.1	11q13.2	2013-02-12			ENSG00000239306	ENSG00000239306		"RNA binding motif (RRM) containing"	14219	protein-coding gene	gene with protein product	"coactivator activator", "SYT interacting protein"	612409				9285794	Standard	NM_006328		Approved	SIP, SYTIP1, COAA, DKFZp779J0927	uc001oit.3	Q96PK6	OTTHUMG00000140380	Exception_encountered	11.37:g.66384364_66384365insT	ENSP00000311747:p.Glu59fs	Somatic		WXS	Illumina HiSeq	Phase_I	B0LM41|B3KMN4|D6RGD8|O75932|Q2PYN1|Q53GV1|Q68DQ9|Q96PK5	Frame_Shift_Ins	INS	ENST00000310137.4	37	CCDS8147.1																																																																																				0.644	RBM14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277128.1	NM_006328		T	66384365	-	T	66384364	7	5	654	1	0	1	1	0	0	0	0	0	13128	159	6	0	175	0	RBM14	11	66384364	Frame_Shift_Ins	INS	-	TCGA-KM-8639-01A-11D-2397-10	375407	66384364	68622152	36	40584										
BIRC3	330	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	102206944	102206944	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	gaagctgtgttatatgagcaTttatttggtgagtgatagaa	12	2	0	4			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr11:102206944T>G	ENST00000263464.3	+	7	4322	c.1572T>G	c.(1570-1572)caT>caG	p.H524Q	BIRC3_ENST00000532808.1_Missense_Mutation_p.H524Q	NM_001165.4	NP_001156.1	Q13489	BIRC3_HUMAN	baculoviral IAP repeat containing 3	524	CARD. {ECO:0000255|PROSITE- ProRule:PRU00046}.				apoptotic process (GO:0006915)|cell surface receptor signaling pathway (GO:0007166)|innate immune response (GO:0045087)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of necroptotic process (GO:0060546)|negative regulation of phosphorylation (GO:0042326)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|NIK/NF-kappaB signaling (GO:0038061)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of protein ubiquitination (GO:0031398)|protein heterooligomerization (GO:0051291)|protein ubiquitination (GO:0016567)|regulation of apoptotic process (GO:0042981)|regulation of cysteine-type endopeptidase activity (GO:2000116)|regulation of inflammatory response (GO:0050727)|regulation of innate immune response (GO:0045088)|regulation of necroptotic process (GO:0060544)|regulation of nucleotide-binding oligomerization domain containing signaling pathway (GO:0070424)|regulation of RIG-I signaling pathway (GO:0039535)|regulation of toll-like receptor signaling pathway (GO:0034121)|spermatogenesis (GO:0007283)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor signaling pathway (GO:0002224)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane raft (GO:0045121)|nucleus (GO:0005634)|protein complex (GO:0043234)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			endometrium(3)|kidney(2)|large_intestine(7)|lung(5)|ovary(3)|skin(1)	21	all_cancers(8;0.00044)|all_epithelial(12;0.00348)|Lung NSC(15;0.227)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0093)	Lung(13;0.109)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0146)		TATATGAGCATTTATTTGGTG	0.294			T	MALT1	MALT																																		Dom	yes		11	11q22-q23	330	baculoviral IAP repeat-containing 3		L	0													83	89	87					11																	102206944		2203	4299	6502	SO:0001583	missense	330			L49432	CCDS8315.1	11q22	2011-01-25	2011-01-25			ENSG00000023445		"Baculoviral IAP repeat containing", "RING-type (C3HC4) zinc fingers"	591	protein-coding gene	gene with protein product	"apoptosis inhibitor 2", "TNFR2-TRAF signaling complex protein", "mammalian IAP homolog C", "inhibitor of apoptosis protein 1"	601721	"baculoviral IAP repeat-containing 3"	API2		8552191, 8548810	Standard	NM_001165		Approved	cIAP2, hiap-1, MIHC, RNF49, MALT2, c-IAP2	uc001pgx.3	Q13489		ENST00000263464.3:c.1572T>G	11.37:g.102206944T>G	ENSP00000263464:p.His524Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q16628|Q9HC27|Q9UP46	Missense_Mutation	SNP	ENST00000263464.3	37	CCDS8315.1	.	.	.	.	.	.	.	.	.	.	T	1.193	-0.634855	0.03584	.	.	ENSG00000023445	ENST00000263464;ENST00000532808;ENST00000532609	T;T	0.19532	2.14;2.14	5.19	2.8	0.32819	DEATH-like (2);Caspase Recruitment (3);	0.758047	0.13895	N	0.355330	T	0.09598	0.0236	N	0.12182	0.205	0.09310	N	1	B	0.11235	0.004	B	0.19666	0.026	T	0.38134	-0.9675	10	0.12430	T	0.62	.	4.7537	0.13073	0.1358:0.2514:0.0:0.6127	.	524	Q13489	BIRC3_HUMAN	Q	524;524;292	ENSP00000263464:H524Q;ENSP00000432907:H524Q	ENSP00000263464:H524Q	H	+	3	2	BIRC3	101712154	0.908000	0.30866	0.680000	0.29994	0.155000	0.21991	-0.157000	0.10085	0.994000	0.38892	0.482000	0.46254	CAT		0.294	BIRC3-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394159.1	NM_001165		G	102206944	T	G	102206944	3	3	654	1	0	0	0	0	1	0	0	0	1436	1490	52	5	1594	5	BIRC3	11	102206944	Missense_Mutation	SNP	T	TCGA-KM-8639-01A-11D-2397-10	35822580	102206944	32799572	37	40585										
KCNH5	27133	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr14	63174364	63174364	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	gcctggggtacgcttttttcCgacagtatttttaaaatttc	8	8	0	0			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr14:63174364C>T	ENST00000322893.7	-	11	3097	c.2829G>A	c.(2827-2829)tcG>tcA	p.S943S	KCNH5_ENST00000420622.2_3'UTR	NM_139318.3	NP_647479.2	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H (eag-related), member 5	943	CAD (involved in subunit assembly). {ECO:0000250}.				potassium ion transmembrane transport (GO:0071805)|regulation of G2/M transition of mitotic cell cycle (GO:0010389)|regulation of membrane potential (GO:0042391)|synaptic transmission (GO:0007268)	cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|plasma membrane (GO:0005886)	phosphorelay sensor kinase activity (GO:0000155)|voltage-gated potassium channel activity (GO:0005249)			NS(1)|biliary_tract(1)|breast(3)|central_nervous_system(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(22)|lung(33)|ovary(5)|prostate(2)|skin(17)|upper_aerodigestive_tract(4)|urinary_tract(2)	99				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		CGCTTTTTTCCGACAGTATTT	0.478																																																0													129	139	136					14																	63174364		2203	4300	6503	SO:0001819	synonymous_variant	27133			U69185	CCDS9756.1, CCDS45122.1	14q23.1	2012-07-05			ENSG00000140015	ENSG00000140015		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6254	protein-coding gene	gene with protein product		605716				9738473, 16382104	Standard	NM_139318		Approved	Kv10.2, H-EAG2, eag2	uc001xfx.3	Q8NCM2	OTTHUMG00000029041	ENST00000322893.7:c.2829G>A	14.37:g.63174364C>T		Somatic		WXS	Illumina HiSeq	Phase_I	C9JP98	Silent	SNP	ENST00000322893.7	37	CCDS9756.1																																																																																				0.478	KCNH5-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411747.1	NM_139318		T	63174364	C	T	63174364	2	4	654	1	0	0	0	0	0	0	0	1	8042	639	23	1		1	KCNH5	14	63174364	Silent	SNP	C	TCGA-KM-8639-01A-11D-2397-10		63174364	44175176	38	40586										
VPS18	57617	bcgsc.ca	37	chr15	41191887	41191887	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	tcgcctggatgatgggggatGgtgtgttgtatggggcattg	19	4	0	1			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr15:41191887G>T	ENST00000220509.5	+	4	1210	c.871G>T	c.(871-873)Ggt>Tgt	p.G291C	VPS18_ENST00000558474.1_Intron	NM_020857.2	NP_065908.1	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18 homolog (S. cerevisiae)	291					endosome organization (GO:0007032)|intracellular protein transport (GO:0006886)|lysosome organization (GO:0007040)|vesicle-mediated transport (GO:0016192)|viral entry into host cell (GO:0046718)	actin filament (GO:0005884)|early endosome (GO:0005769)|HOPS complex (GO:0030897)|lysosomal membrane (GO:0005765)	metal ion binding (GO:0046872)			autonomic_ganglia(1)|endometrium(5)|kidney(4)|large_intestine(4)|lung(6)|ovary(2)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	28		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		GATGGGGGATGGTGTGTTGTA	0.642																																																0													69	68	68					15																	41191887		2203	4300	6503	SO:0001583	missense	57617			AF308802	CCDS10069.1	15q14-q15	2006-12-19	2006-12-19		ENSG00000104142	ENSG00000104142			15972	protein-coding gene	gene with protein product		608551	"vacuolar protein sorting protein 18"			11250079, 16203730	Standard	NM_020857		Approved	KIAA1475, PEP3	uc001zne.3	Q9P253	OTTHUMG00000130135	ENST00000220509.5:c.871G>T	15.37:g.41191887G>T	ENSP00000220509:p.Gly291Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TCG0|Q96DI3|Q9H268	Missense_Mutation	SNP	ENST00000220509.5	37	CCDS10069.1	.	.	.	.	.	.	.	.	.	.	G	19.79	3.892126	0.72524	.	.	ENSG00000104142	ENST00000220509	T	0.66638	-0.22	4.81	4.81	0.61882	Pep3/Vps18/deep orange (1);	0.000000	0.85682	D	0.000000	D	0.83041	0.5168	M	0.80982	2.52	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.85483	0.1180	10	0.87932	D	0	-28.7849	18.4344	0.90640	0.0:0.0:1.0:0.0	.	291	Q9P253	VPS18_HUMAN	C	291	ENSP00000220509:G291C	ENSP00000220509:G291C	G	+	1	0	VPS18	38979179	1.000000	0.71417	0.803000	0.32268	0.979000	0.70002	9.601000	0.98297	2.646000	0.89796	0.655000	0.94253	GGT		0.642	VPS18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252443.2			T	41191887	G	T	41191887	3	4	654	1	0	0	0	0	1	0	0	0	17206	1348	47	4	885	4	VPS18	15	41191887	Missense_Mutation	SNP	G	TCGA-KM-8639-01A-11D-2397-10		41191887	61339505	39	40587										
SPTBN5	51332	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	42143342	42143342	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	gtcaaggagggctatggaagCtactttctgaggagagatga	15	5	2	3			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr15:42143342C>T	ENST00000320955.6	-	65	10977	c.10750G>A	c.(10750-10752)Gct>Act	p.A3584T	RNA5SP393_ENST00000363423.1_RNA	NM_016642.2	NP_057726.4	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	3584	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				actin cytoskeleton organization (GO:0030036)|actin filament capping (GO:0051693)|axon guidance (GO:0007411)|Golgi organization (GO:0007030)|lysosomal transport (GO:0007041)|protein homooligomerization (GO:0051260)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|photoreceptor connecting cilium (GO:0032391)|photoreceptor disc membrane (GO:0097381)|spectrin (GO:0008091)	actin binding (GO:0003779)|dynactin binding (GO:0034452)|dynein intermediate chain binding (GO:0045505)|kinesin binding (GO:0019894)|myosin tail binding (GO:0032029)|protein self-association (GO:0043621)|spectrin binding (GO:0030507)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(6)|lung(18)|ovary(5)|prostate(8)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	62		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		GCTATGGAAGCTACTTTCTGA	0.617																																																0													33	36	35					15																	42143342		2037	4183	6220	SO:0001583	missense	51332			AF233523	CCDS61599.1	15q21	2010-08-17			ENSG00000137877	ENSG00000137877			15680	protein-coding gene	gene with protein product	"beta V spectrin"	605916				10764729	Standard	NM_016642		Approved	HUSPECV, BSPECV, HUBSPECV	uc001zos.4	Q9NRC6		ENST00000320955.6:c.10750G>A	15.37:g.42143342C>T	ENSP00000317790:p.Ala3584Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000320955.6	37		.	.	.	.	.	.	.	.	.	.	.	14.93	2.683294	0.47991	.	.	ENSG00000137877	ENST00000320955	T	0.30182	1.54	4.22	3.28	0.37604	Pleckstrin homology-type (1);Pleckstrin homology domain (2);	0.220258	0.27886	N	0.017458	T	0.28797	0.0714	L	0.38175	1.15	0.09310	N	1	D	0.60160	0.987	P	0.47102	0.537	T	0.08534	-1.0717	10	0.48119	T	0.1	.	11.7679	0.51941	0.0:0.8225:0.1775:0.0	.	3584	Q9NRC6	SPTN5_HUMAN	T	3584	ENSP00000317790:A3584T	ENSP00000317790:A3584T	A	-	1	0	SPTBN5	39930634	0.000000	0.05858	0.005000	0.12908	0.042000	0.13812	-0.280000	0.08468	1.106000	0.41623	0.561000	0.74099	GCT		0.617	SPTBN5-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000420237.1	NM_016642		T	42143342	C	T	42143342	3	4	654	1	0	0	0	0	1	0	0	0	15134	797	28	2	290	2	SPTBN5	15	42143342	Missense_Mutation	SNP	C	TCGA-KM-8639-01A-11D-2397-10	951455	42143342	60388050	40	40588										
CYP1A2	1544	ucsc.edu	37	chr15	75047426	75047426	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	cggctgcgcttctccatcaaCtgaagaagacaccaccattc	7	15	2	3	rs2470890	byFrequency	TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr15:75047426C>T	ENST00000343932.4	+	7	1611	c.1548C>T	c.(1546-1548)aaC>aaT	p.N516N		NM_000761.3	NP_000752.2	P05177	CP1A2_HUMAN	cytochrome P450, family 1, subfamily A, polypeptide 2	515					alkaloid metabolic process (GO:0009820)|arachidonic acid metabolic process (GO:0019369)|cellular respiration (GO:0045333)|cellular response to cadmium ion (GO:0071276)|dibenzo-p-dioxin metabolic process (GO:0018894)|drug catabolic process (GO:0042737)|drug metabolic process (GO:0017144)|epoxygenase P450 pathway (GO:0019373)|exogenous drug catabolic process (GO:0042738)|heterocycle metabolic process (GO:0046483)|hydrogen peroxide biosynthetic process (GO:0050665)|lung development (GO:0030324)|methylation (GO:0032259)|monocarboxylic acid metabolic process (GO:0032787)|monoterpenoid metabolic process (GO:0016098)|omega-hydroxylase P450 pathway (GO:0097267)|oxidation-reduction process (GO:0055114)|oxidative deethylation (GO:0071615)|oxidative demethylation (GO:0070989)|porphyrin-containing compound metabolic process (GO:0006778)|post-embryonic development (GO:0009791)|regulation of gene expression (GO:0010468)|response to estradiol (GO:0032355)|response to lipopolysaccharide (GO:0032496)|small molecule metabolic process (GO:0044281)|steroid catabolic process (GO:0006706)|toxin biosynthetic process (GO:0009403)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)|intracellular membrane-bounded organelle (GO:0043231)	aromatase activity (GO:0070330)|caffeine oxidase activity (GO:0034875)|demethylase activity (GO:0032451)|electron carrier activity (GO:0009055)|enzyme binding (GO:0019899)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity (GO:0016491)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen (GO:0016712)			breast(2)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(7)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	33					"""Insulin(DB00071)|Acenocoumarol(DB01418)|Acetaminophen(DB00316)|Agomelatine(DB06594)|Albendazole(DB00518)|Alitretinoin(DB00523)|Almotriptan(DB00918)|Alosetron(DB00969)|Aminoglutethimide(DB00357)|Aminophenazone(DB01424)|Aminophylline(DB01223)|Amiodarone(DB01118)|Amitriptyline(DB00321)|Amlodipine(DB00381)|Anagrelide(DB00261)|Anastrozole(DB01217)|Antipyrine(DB01435)|Apixaban(DB06605)|Aprepitant(DB00673)|Asenapine(DB06216)|Atropine(DB00572)|Axitinib(DB06626)|Azelastine(DB00972)|Azithromycin(DB00207)|Benzyl alcohol(DB06770)|Betaxolol(DB00195)|Bortezomib(DB00188)|Bromazepam(DB01558)|Bromocriptine(DB01200)|Bupivacaine(DB00297)|Buprenorphine(DB00921)|Bupropion(DB01156)|Caffeine(DB00201)|Carbamazepine(DB00564)|Carmustine(DB00262)|Carvedilol(DB01136)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Cinnarizine(DB00568)|Ciprofloxacin(DB00537)|Cisapride(DB00604)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clenbuterol(DB01407)|Clevidipine(DB04920)|Clobetasol propionate(DB01013)|Clomifene(DB00882)|Clomipramine(DB01242)|Clonidine(DB00575)|Clopidogrel(DB00758)|Clotrimazole(DB00257)|Clozapine(DB00363)|Conjugated Estrogens(DB00286)|Cyclobenzaprine(DB00924)|Dacarbazine(DB00851)|Dapagliflozin(DB06292)|Dasatinib(DB01254)|Daunorubicin(DB00694)|Delavirdine(DB00705)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexfenfluramine(DB01191)|Dexmedetomidine(DB00633)|Diazepam(DB00829)|Diclofenac(DB00586)|Dinoprostone(DB00917)|Diphenhydramine(DB01075)|Domperidone(DB01184)|Dopamine(DB00988)|Doxepin(DB01142)|Duloxetine(DB00476)|Edetic Acid(DB00974)|Efavirenz(DB00625)|Eltrombopag(DB06210)|Enoxacin(DB00467)|Epinephrine(DB00668)|Ergotamine(DB00696)|Erlotinib(DB00530)|Erythromycin(DB00199)|Estradiol(DB00783)|Estrone(DB00655)|Estropipate(DB04574)|Ethanol(DB00898)|Etoposide(DB00773)|Etoricoxib(DB01628)|Flunarizine(DB04841)|Flunitrazepam(DB01544)|Fluorouracil(DB00544)|Fluoxetine(DB00472)|Fluphenazine(DB00623)|Flutamide(DB00499)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Frovatriptan(DB00998)|Gemfibrozil(DB01241)|Griseofulvin(DB00400)|Guanabenz(DB00629)|Haloperidol(DB00502)|Hesperetin(DB01094)|Hexobarbital(DB01355)|Iloperidone(DB04946)|Imatinib(DB00619)|Imipramine(DB00458)|Imiquimod(DB00724)|inhaled insulin(DB05278)|Insulin Aspart(DB01306)|Insulin Detemir(DB01307)|Insulin Glargine(DB00047)|Insulin Glulisine(DB01309)|Insulin Lispro(DB00046)|Insulin Regular(DB00030)|Irbesartan(DB01029)|Isoniazid(DB00951)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Leflunomide(DB01097)|Levobupivacaine(DB01002)|Levofloxacin(DB01137)|Lidocaine(DB00281)|Lomefloxacin(DB00978)|Lopinavir(DB01601)|Lorcaserin(DB04871)|Losartan(DB00678)|Lumiracoxib(DB01283)|Malathion(DB00772)|Maprotiline(DB00934)|Meclizine(DB00737)|Melatonin(DB01065)|Menadione(DB00170)|Methadone(DB00333)|Methimazole(DB00763)|Methotrimeprazine(DB01403)|Methoxsalen(DB00553)|Methoxyflurane(DB01028)|Mexiletine(DB00379)|Mianserin(DB06148)|Miconazole(DB01110)|Mirtazapine(DB00370)|Moclobemide(DB01171)|Modafinil(DB00745)|Nabumetone(DB00461)|Nafcillin(DB00607)|Naproxen(DB00788)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Niclosamide(DB06803)|Nicotine(DB00184)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nisoldipine(DB00401)|Nitric Oxide(DB00435)|Nitroprusside(DB00325)|Norepinephrine(DB00368)|Norfloxacin(DB01059)|Nortriptyline(DB00540)|Ofloxacin(DB01165)|Olanzapine(DB00334)|Omeprazole(DB00338)|Ondansetron(DB00904)|Oxaliplatin(DB00526)|Oxtriphylline(DB01303)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Pazopanib(DB06589)|Pefloxacin(DB00487)|Pentamidine(DB00738)|Pentoxifylline(DB00806)|Perphenazine(DB00850)|Phenobarbital(DB01174)|Phentermine(DB00191)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Pimozide(DB01100)|Pipotiazine(DB01621)|Pomalidomide(DB08910)|Praziquantel(DB01058)|Primaquine(DB01087)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Propafenone(DB01182)|Propofol(DB00818)|Propranolol(DB00571)|Pyrazinamide(DB00339)|Quinidine(DB00908)|Quinine(DB00468)|Rabeprazole(DB01129)|Ramelteon(DB00980)|Ranitidine(DB00863)|Rasagiline(DB01367)|Rifabutin(DB00615)|Rifampicin(DB01045)|Rilpivirine(DB08864)|Riluzole(DB00740)|Ritonavir(DB00503)|Rizatriptan(DB00953)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Rosiglitazone(DB00412)|Rotigotine(DB05271)|Roxithromycin(DB00778)|Secobarbital(DB00418)|Selegiline(DB01037)|Sertraline(DB01104)|SIMEPREVIR(DB06290)|Sorafenib(DB00398)|Streptozocin(DB00428)|Sulindac(DB00605)|Tamoxifen(DB00675)|Telithromycin(DB00976)|Tenofovir(DB00300)|Terbinafine(DB00857)|Thalidomide(DB01041)|Theobromine(DB01412)|Theophylline(DB00277)|Thiabendazole(DB00730)|Thioridazine(DB00679)|Thiothixene(DB01623)|Ticlopidine(DB00208)|Tioconazole(DB01007)|Tizanidine(DB00697)|Tocainide(DB01056)|Toremifene(DB00539)|Tranylcypromine(DB00752)|Triamterene(DB00384)|Trifluoperazine(DB00831)|Valproic Acid(DB00313)|Vemurafenib(DB08881)|Verapamil(DB00661)|Warfarin(DB00682)|Zafirlukast(DB00549)|Zileuton(DB00744)|Ziprasidone(DB00246)|Zolmitriptan(DB00315)|Zolpidem(DB00425)"	TCTCCATCAACTGAAGAAGAC	0.577													C|||	1183	0.236222	0.028	0.3271	5008	,	,		14798	0.1637		0.5964	False		,,,				2504	0.1575															0								C		547,3847	238.0+/-249.6	40,467,1690	30	28	28		1548	0.6	0.3	15	dbSNP_100	28	5619,2973	631.2+/-398.5	1863,1893,540	no	coding-synonymous	CYP1A2	NM_000761.3		1903,2360,2230	TT,TC,CC		34.602,12.4488,47.4819		516/517	75047426	6166,6820	2197	4296	6493	SO:0001819	synonymous_variant	1544			AF182274	CCDS32293.1	15q24.1	2013-11-11	2003-01-14		ENSG00000140505	ENSG00000140505	1.14.14.1	"Cytochrome P450s"	2596	protein-coding gene	gene with protein product		124060	"cytochrome P450, subfamily I (aromatic compound-inducible), polypeptide 2"			15128046	Standard	NM_000761		Approved	P3-450, CP12	uc002ayr.1	P05177	OTTHUMG00000172901	ENST00000343932.4:c.1548C>T	15.37:g.75047426C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q16754|Q6NWU5|Q9BXX7|Q9UK49	Silent	SNP	ENST00000343932.4	37	CCDS32293.1																																																																																				0.577	CYP1A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000421263.2	NM_000761		T	75047426	C	T	75047426	2	4	654	1	0	0	0	0	0	0	0	1	4152	564	20	2		2	CYP1A2	15	75047426	Silent	SNP	C	TCGA-KM-8639-01A-11D-2397-10	32904084	75047426	27483966	41	40589										
AMDHD2	51005	broad.mit.edu	37	chr16	2570776	2570776	+	Frame_Shift_Del	DEL	T	T	-													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	cactgcgtccccagggaggaTctgtgggtgcgcggaggccg							TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr16:2570776delT	ENST00000293971.6	+	2	184	c.90delT	c.(88-90)gatfs	p.D30fs	AMDHD2_ENST00000302956.4_Frame_Shift_Del_p.D30fs|AMDHD2_ENST00000413459.3_Frame_Shift_Del_p.D30fs|ATP6C_ENST00000569317.1_Intron	NM_015944.3	NP_057028.2	Q9Y303	NAGA_HUMAN	amidohydrolase domain containing 2	30					carbohydrate metabolic process (GO:0005975)|N-acetylglucosamine metabolic process (GO:0006044)|N-acetylneuraminate catabolic process (GO:0019262)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|N-acetylglucosamine-6-phosphate deacetylase activity (GO:0008448)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(5)|prostate(3)|skin(2)|urinary_tract(2)	19						CCAGGGAGGATCTGTGGGTGC	0.746																																																0													11	13	12					16																	2570776		2178	4266	6444	SO:0001589	frameshift_variant	51005			AF132948	CCDS10471.1, CCDS53984.1	16p13.3	2008-02-05			ENSG00000162066	ENSG00000162066			24262	protein-coding gene	gene with protein product						10810093	Standard	NM_001145815		Approved	CGI-14	uc010uwc.2	Q9Y303	OTTHUMG00000128866	ENST00000293971.6:c.90delT	16.37:g.2570776delT	ENSP00000293971:p.Asp30fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DL77|Q8WV54	Frame_Shift_Del	DEL	ENST00000293971.6	37																																																																																					0.746	AMDHD2-004	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000435652.1	NM_015944		-	2570776	T	-	2570776	7	5	654	1	0	1	0	1	0	0	0	0	568	1432	50	0	96	0	AMDHD2	16	2570776	Frame_Shift_Del	DEL	T	TCGA-KM-8639-01A-11D-2397-10		2570776	87783977	42	40590	368	2								
AMDHD2	51005	broad.mit.edu	37	chr16	2570778	2570778	+	Frame_Shift_Del	DEL	T	T	-													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ctgcgtccccagggaggatcTgtgggtgcgcggaggccgca							TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr16:2570778delT	ENST00000293971.6	+	2	186	c.92delT	c.(91-93)ctgfs	p.L31fs	AMDHD2_ENST00000302956.4_Frame_Shift_Del_p.L31fs|AMDHD2_ENST00000413459.3_Frame_Shift_Del_p.L31fs|ATP6C_ENST00000569317.1_Intron	NM_015944.3	NP_057028.2	Q9Y303	NAGA_HUMAN	amidohydrolase domain containing 2	31					carbohydrate metabolic process (GO:0005975)|N-acetylglucosamine metabolic process (GO:0006044)|N-acetylneuraminate catabolic process (GO:0019262)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|N-acetylglucosamine-6-phosphate deacetylase activity (GO:0008448)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(5)|prostate(3)|skin(2)|urinary_tract(2)	19						AGGGAGGATCTGTGGGTGCGC	0.741																																																0													11	13	12					16																	2570778		2182	4272	6454	SO:0001589	frameshift_variant	51005			AF132948	CCDS10471.1, CCDS53984.1	16p13.3	2008-02-05			ENSG00000162066	ENSG00000162066			24262	protein-coding gene	gene with protein product						10810093	Standard	NM_001145815		Approved	CGI-14	uc010uwc.2	Q9Y303	OTTHUMG00000128866	ENST00000293971.6:c.92delT	16.37:g.2570778delT	ENSP00000293971:p.Leu31fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DL77|Q8WV54	Frame_Shift_Del	DEL	ENST00000293971.6	37																																																																																					0.741	AMDHD2-004	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000435652.1	NM_015944		-	2570778	T	-	2570778	7	5	654	1	0	1	0	1	0	0	0	0	568	1580	55	0	98	0	AMDHD2	16	2570778	Frame_Shift_Del	DEL	T	TCGA-KM-8639-01A-11D-2397-10	2	2570778	87783975	43	40591	368	2								
DNAJA2	10294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	46991077	46991077	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	cctgaagctctacctcctctGtttctccaattatgttagga	6	12	3	1			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr16:46991077G>A	ENST00000317089.5	-	9	1318	c.1103C>T	c.(1102-1104)aCa>aTa	p.T368I		NM_005880.3	NP_005871.1	O60884	DNJA2_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 2	368					positive regulation of cell proliferation (GO:0008284)|protein refolding (GO:0042026)|response to heat (GO:0009408)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|metal ion binding (GO:0046872)|unfolded protein binding (GO:0051082)			endometrium(1)|kidney(1)|large_intestine(2)|lung(7)|prostate(2)|upper_aerodigestive_tract(1)	14		all_cancers(37;0.00125)|all_lung(18;0.00338)|all_epithelial(9;0.00358)|Lung NSC(13;0.0309)|Breast(268;0.116)				TACCTCCTCTGTTTCTCCAAT	0.418																																																0													232	232	232					16																	46991077		2203	4300	6503	SO:0001583	missense	10294			AF116720	CCDS10726.1	16q12.1	2011-09-02			ENSG00000069345	ENSG00000069345		"Heat shock proteins / DNAJ (HSP40)"	14884	protein-coding gene	gene with protein product		611322				9710638, 11147971	Standard	NM_005880		Approved	HIRIP4, DNAJ, CPR3, DNJ3	uc002eeo.2	O60884	OTTHUMG00000133104	ENST00000317089.5:c.1103C>T	16.37:g.46991077G>A	ENSP00000314030:p.Thr368Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7L7|O14711	Missense_Mutation	SNP	ENST00000317089.5	37	CCDS10726.1	.	.	.	.	.	.	.	.	.	.	G	11.15	1.554228	0.27739	.	.	ENSG00000069345	ENST00000317089	T	0.37584	1.19	5.57	5.57	0.84162	.	0.049770	0.85682	D	0.000000	T	0.34919	0.0914	L	0.43923	1.385	0.49915	D	0.999831	B	0.16802	0.019	B	0.15484	0.013	T	0.06180	-1.0841	10	0.27785	T	0.31	-6.023	19.5403	0.95271	0.0:0.0:1.0:0.0	.	368	O60884	DNJA2_HUMAN	I	368	ENSP00000314030:T368I	ENSP00000314030:T368I	T	-	2	0	DNAJA2	45548578	1.000000	0.71417	0.985000	0.45067	0.937000	0.57800	5.020000	0.64066	2.623000	0.88846	0.561000	0.74099	ACA		0.418	DNAJA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256769.2			A	46991077	G	A	46991077	3	1	654	1	0	0	0	0	1	0	0	0	4614	1377	48	2	139	2	DNAJA2	16	46991077	Missense_Mutation	SNP	G	TCGA-KM-8639-01A-11D-2397-10	44420299	46991077	43363676	44	40592										
TMCO7	79613	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	68961835	68961835	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	cactactacaagtcagaaatCtggaagcgtaaccacagaac	7	11	2	2			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr16:68961835C>G	ENST00000261778.1	+	13	2504	c.2492C>G	c.(2491-2493)tCt>tGt	p.S831C	RP11-521L9.1_ENST00000562790.1_lincRNA	NM_024562.1	NP_078838.1	Q9C0B7	TNG6_HUMAN	transport and golgi organization 6 homolog (Drosophila)	831						integral component of membrane (GO:0016021)											AGTCAGAAATCTGGAAGCGTA	0.522																																																0													57	59	58					16																	68961835		1957	4157	6114	SO:0001583	missense	79613				CCDS45516.1	16q22.1	2012-12-13	2012-12-13	2012-12-13	ENSG00000103047	ENSG00000103047			25749	protein-coding gene	gene with protein product			"transmembrane and coiled-coil domains 7"	TMCO7		11214970	Standard	NM_024562		Approved	FLJ12688, KIAA1746	uc002ewi.4	Q9C0B7	OTTHUMG00000176743	ENST00000261778.1:c.2492C>G	16.37:g.68961835C>G	ENSP00000261778:p.Ser831Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q569F9|Q9H9K1	Missense_Mutation	SNP	ENST00000261778.1	37	CCDS45516.1	.	.	.	.	.	.	.	.	.	.	C	8.651	0.898148	0.17686	.	.	ENSG00000103047	ENST00000261778	.	.	.	5.37	4.42	0.53409	Armadillo-type fold (1);	1.039830	0.07516	N	0.909757	T	0.25531	0.0621	N	0.19112	0.55	0.09310	N	1	D	0.55800	0.973	P	0.46975	0.533	T	0.10314	-1.0635	9	0.48119	T	0.1	-0.0017	6.1402	0.20255	0.136:0.6561:0.1319:0.076	.	831	Q9C0B7	TMCO7_HUMAN	C	831	.	ENSP00000261778:S831C	S	+	2	0	TMCO7	67519336	0.003000	0.15002	0.002000	0.10522	0.156000	0.22039	1.705000	0.37867	1.269000	0.44280	0.655000	0.94253	TCT		0.522	TANGO6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000433471.2	XM_928235.2		G	68961835	C	G	68961835	3	3	654	1	0	0	0	0	1	0	0	0	16013	913	32	4	2542	4	TMCO7	16	68961835	Missense_Mutation	SNP	C	TCGA-KM-8639-01A-11D-2397-10	21970758	68961835	21392918	45	40593										
BCAR1	9564	broad.mit.edu	37	chr16	75263529	75263530	+	Frame_Shift_Del	DEL	CT	CT	-													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	gggtactgcaaggcagcggcCttggtggtggccacgatgcc							TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr16:75263529_75263530delCT	ENST00000162330.5	-	7	2618_2619	c.2492_2493delAG	c.(2491-2493)aagfs	p.K831fs	BCAR1_ENST00000393420.6_Frame_Shift_Del_p.K849fs|BCAR1_ENST00000538440.2_Frame_Shift_Del_p.K831fs|BCAR1_ENST00000418647.3_Frame_Shift_Del_p.K877fs|RP11-331F4.4_ENST00000489723.1_RNA|BCAR1_ENST00000542031.2_Frame_Shift_Del_p.K829fs|BCAR1_ENST00000535626.2_Frame_Shift_Del_p.K683fs|BCAR1_ENST00000566982.1_5'UTR|BCAR1_ENST00000393422.2_Frame_Shift_Del_p.K849fs|BCAR1_ENST00000420641.3_Frame_Shift_Del_p.K849fs|BCAR1_ENST00000546196.1_Frame_Shift_Del_p.K802fs	NM_001170717.1|NM_014567.3	NP_001164188.1|NP_055382.2	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	831					actin filament organization (GO:0007015)|antigen receptor-mediated signaling pathway (GO:0050851)|B cell receptor signaling pathway (GO:0050853)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell chemotaxis (GO:0060326)|cell division (GO:0051301)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|cellular response to hepatocyte growth factor stimulus (GO:0035729)|epidermal growth factor receptor signaling pathway (GO:0007173)|G-protein coupled receptor signaling pathway (GO:0007186)|hepatocyte growth factor receptor signaling pathway (GO:0048012)|insulin receptor signaling pathway (GO:0008286)|integrin-mediated signaling pathway (GO:0007229)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet activation (GO:0030168)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of cell migration (GO:0030335)|positive regulation of endothelial cell migration (GO:0010595)|regulation of apoptotic process (GO:0042981)|regulation of cell growth (GO:0001558)|T cell receptor signaling pathway (GO:0050852)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	protein kinase binding (GO:0019901)|signal transducer activity (GO:0004871)			breast(2)|central_nervous_system(5)|endometrium(1)|kidney(6)|large_intestine(1)|liver(1)|lung(13)|ovary(1)|prostate(3)|upper_aerodigestive_tract(2)	35				BRCA - Breast invasive adenocarcinoma(221;0.169)		AGGCAGCGGCCTTGGTGGTGGC	0.668																																																0																																										SO:0001589	frameshift_variant	9564			AJ242987	CCDS10915.1, CCDS54037.1, CCDS54038.1, CCDS54039.1, CCDS54040.1, CCDS54041.1, CCDS54042.1, CCDS54043.1	16q22-q23	2011-04-13			ENSG00000050820	ENSG00000050820		"Cas scaffolding proteins"	971	protein-coding gene	gene with protein product	"Crk-associated substrate", "Cas scaffolding protein family member 1"	602941				8413311, 10639512	Standard	NM_001170714		Approved	P130Cas, Crkas, CAS, CASS1	uc010vnb.2	P56945	OTTHUMG00000137604	ENST00000162330.5:c.2492_2493delAG	16.37:g.75263529_75263530delCT	ENSP00000162330:p.Lys831fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWD7|B4DEV4|B4DGB5|B4DIW5|B7Z7X7|E9PCL5|E9PCV2|F5GXA2|F5GXV6|F5H7Z0|F8WA69|Q6QEF7	Frame_Shift_Del	DEL	ENST00000162330.5	37	CCDS10915.1																																																																																				0.668	BCAR1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000269017.1	NM_014567		-	75263530	CT	-	75263529	7	5	654	1	0	1	0	1	0	0	0	0	1348	680	24	0	123	0	BCAR1	16	75263529	Frame_Shift_Del	DEL	CT	TCGA-KM-8639-01A-11D-2397-10	6301694	75263529	15091224	46	40594	369	2								
BCAR1	9564	broad.mit.edu	37	chr16	75263533	75263534	+	Frame_Shift_Ins	INS	-	-	T													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ctgcaaggcagcggccttggINStggtggccacgatgccgcgc							TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr16:75263533_75263534insT	ENST00000162330.5	-	7	2614_2615	c.2488_2489insA	c.(2488-2490)accfs	p.T830fs	BCAR1_ENST00000393420.6_Frame_Shift_Ins_p.T848fs|BCAR1_ENST00000538440.2_Frame_Shift_Ins_p.T830fs|BCAR1_ENST00000418647.3_Frame_Shift_Ins_p.T876fs|RP11-331F4.4_ENST00000489723.1_RNA|BCAR1_ENST00000542031.2_Frame_Shift_Ins_p.T828fs|BCAR1_ENST00000535626.2_Frame_Shift_Ins_p.T682fs|BCAR1_ENST00000566982.1_5'UTR|BCAR1_ENST00000393422.2_Frame_Shift_Ins_p.T848fs|BCAR1_ENST00000420641.3_Frame_Shift_Ins_p.T848fs|BCAR1_ENST00000546196.1_Frame_Shift_Ins_p.T801fs	NM_001170717.1|NM_014567.3	NP_001164188.1|NP_055382.2	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	830					actin filament organization (GO:0007015)|antigen receptor-mediated signaling pathway (GO:0050851)|B cell receptor signaling pathway (GO:0050853)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell chemotaxis (GO:0060326)|cell division (GO:0051301)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|cellular response to hepatocyte growth factor stimulus (GO:0035729)|epidermal growth factor receptor signaling pathway (GO:0007173)|G-protein coupled receptor signaling pathway (GO:0007186)|hepatocyte growth factor receptor signaling pathway (GO:0048012)|insulin receptor signaling pathway (GO:0008286)|integrin-mediated signaling pathway (GO:0007229)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet activation (GO:0030168)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of cell migration (GO:0030335)|positive regulation of endothelial cell migration (GO:0010595)|regulation of apoptotic process (GO:0042981)|regulation of cell growth (GO:0001558)|T cell receptor signaling pathway (GO:0050852)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	protein kinase binding (GO:0019901)|signal transducer activity (GO:0004871)			breast(2)|central_nervous_system(5)|endometrium(1)|kidney(6)|large_intestine(1)|liver(1)|lung(13)|ovary(1)|prostate(3)|upper_aerodigestive_tract(2)	35				BRCA - Breast invasive adenocarcinoma(221;0.169)		AGCGGCCTTGGTGGTGGCCACG	0.673																																																0																																										SO:0001589	frameshift_variant	9564			AJ242987	CCDS10915.1, CCDS54037.1, CCDS54038.1, CCDS54039.1, CCDS54040.1, CCDS54041.1, CCDS54042.1, CCDS54043.1	16q22-q23	2011-04-13			ENSG00000050820	ENSG00000050820		"Cas scaffolding proteins"	971	protein-coding gene	gene with protein product	"Crk-associated substrate", "Cas scaffolding protein family member 1"	602941				8413311, 10639512	Standard	NM_001170714		Approved	P130Cas, Crkas, CAS, CASS1	uc010vnb.2	P56945	OTTHUMG00000137604	ENST00000162330.5:c.2489dupA	16.37:g.75263534_75263534dupT	ENSP00000162330:p.Thr830fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWD7|B4DEV4|B4DGB5|B4DIW5|B7Z7X7|E9PCL5|E9PCV2|F5GXA2|F5GXV6|F5H7Z0|F8WA69|Q6QEF7	Frame_Shift_Ins	INS	ENST00000162330.5	37	CCDS10915.1																																																																																				0.673	BCAR1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000269017.1	NM_014567		T	75263534	-	T	75263533	7	5	654	1	0	1	1	0	0	0	0	0	1348	1261	44	0	127	0	BCAR1	16	75263533	Frame_Shift_Ins	INS	-	TCGA-KM-8639-01A-11D-2397-10	4	75263533	15091220	47	40595	369	2								
USP10	9100	mdanderson.org	37	chr16	84797726	84797726	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	aacggccccaaaaaccactcGgtcaatgaagaagagcagga	10	11	1	3	rs117002428	byFrequency	TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr16:84797726G>A	ENST00000219473.7	+	10	1802	c.1689G>A	c.(1687-1689)tcG>tcA	p.S563S	USP10_ENST00000570191.1_Silent_p.S567S	NM_001272075.1|NM_005153.2	NP_001259004.1|NP_005144.2	Q14694	UBP10_HUMAN	ubiquitin specific peptidase 10	563	USP.				autophagy (GO:0006914)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA repair (GO:0006281)|protein deubiquitination (GO:0016579)|regulation of autophagy (GO:0010506)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|early endosome (GO:0005769)|intermediate filament cytoskeleton (GO:0045111)|nucleus (GO:0005634)	cysteine-type endopeptidase activity (GO:0004197)|ion channel binding (GO:0044325)|p53 binding (GO:0002039)|poly(A) RNA binding (GO:0044822)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			endometrium(3)|kidney(1)|large_intestine(7)|lung(3)|prostate(1)|stomach(1)|urinary_tract(1)	17						AAAACCACTCGGTCAATGAAG	0.478																																																0													45	47	46					16																	84797726		1883	4099	5982	SO:0001819	synonymous_variant	9100			D80012	CCDS45537.1, CCDS62004.1	16q	2008-03-25	2005-08-08			ENSG00000103194		"Ubiquitin-specific peptidases"	12608	protein-coding gene	gene with protein product		609818	"ubiquitin specific protease 10"			12838346	Standard	NM_005153		Approved	UBPO, KIAA0190	uc002fii.3	Q14694		ENST00000219473.7:c.1689G>A	16.37:g.84797726G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RDJ8|B4DS84|Q9BWG7|Q9NSL7	Silent	SNP	ENST00000219473.7	37	CCDS45537.1																																																																																				0.478	USP10-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000433660.1			A	84797726	G	A	84797726	2	1	654	1	0	0	0	0	0	0	0	1	17053	1103	39	1		1	USP10	16	84797726	Silent	SNP	G	TCGA-KM-8639-01A-11D-2397-10	9534193	84797726	5557027	48	40596										
LMNB2	84823	broad.mit.edu	37	chr19	2434856	2434857	+	Frame_Shift_Ins	INS	-	-	A													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ggcctccttcagctcctcgcINSgagccgcactggccgccttg					rs140495297|rs567796688		TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr19:2434856_2434857insA	ENST00000582871.1	-	6	936_937	c.850_851insT	c.(850-852)cgcfs	p.R284fs	LMNB2_ENST00000325327.3_Frame_Shift_Ins_p.R304fs	NM_032737.3	NP_116126.3	Q03252	LMNB2_HUMAN	lamin B2	284	Coil 2.|Rod.					lamin filament (GO:0005638)|nuclear inner membrane (GO:0005637)	structural molecule activity (GO:0005198)			NS(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(8)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	18		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)		CAGCTCCTCGCGAGCCGCACTG	0.708																																																0																																										SO:0001589	frameshift_variant	84823			M94362	CCDS12090.1, CCDS12090.2	19p13.3	2013-01-16			ENSG00000176619	ENSG00000176619		"Intermediate filaments type V, lamins"	6638	protein-coding gene	gene with protein product		150341		LMN2		1630457	Standard	NM_032737		Approved		uc002lvy.4	Q03252	OTTHUMG00000150626	ENST00000582871.1:c.850_851insT	19.37:g.2434856_2434857insA	ENSP00000462730:p.Arg284fs	Somatic		WXS	Illumina HiSeq	Phase_I	O75292|Q14734|Q96DF6	Frame_Shift_Ins	INS	ENST00000582871.1	37																																																																																					0.708	LMNB2-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_032737		A	2434857	-	A	2434856	7	5	654	1	0	1	1	0	0	0	0	0	8857	768	27	0	979	0	LMNB2	19	2434856	Frame_Shift_Ins	INS	-	TCGA-KM-8639-01A-11D-2397-10		2434856	56694127	49	40597										
TMED1	11018	broad.mit.edu;hgsc.bcm.edu	37	chr19	10943859	10943865	+	Frame_Shift_Del	DEL	CCAGCCG	CCAGCCG	-													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	gagcatctggatgctgcgctCcagccgggtccgcatggtct					rs140257821		TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	CCAGCCG	CCAGCCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr19:10943859_10943865delCCAGCCG	ENST00000214869.2	-	4	588_594	c.490_496delCGGCTGG	c.(490-498)cggctggagfs	p.RLE164fs	TMED1_ENST00000591695.1_Frame_Shift_Del_p.PGW102fs|TMED1_ENST00000588289.1_Frame_Shift_Del_p.RLE19fs	NM_006858.2	NP_006849.1	Q13445	TMED1_HUMAN	transmembrane emp24 protein transport domain containing 1	164					cell-cell signaling (GO:0007267)|protein transport (GO:0015031)|signal transduction (GO:0007165)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	receptor binding (GO:0005102)			breast(1)|central_nervous_system(2)|lung(2)|ovary(3)|prostate(1)|skin(1)	10						ATGCTGCGCTCCAGCCGGGTCCGCATG	0.623																																																0																																										SO:0001589	frameshift_variant	11018			U41804	CCDS12249.1	19p13.2	2008-02-05	2005-08-26			ENSG00000099203			17291	protein-coding gene	gene with protein product		605395	"transmembrane emp24 domain containing 1"			11466339, 8621446	Standard	NM_006858		Approved	ST2L, MGC1270, IL1RL1LG, Il1rl1l	uc002mpy.3	Q13445		ENST00000214869.2:c.490_496delCGGCTGG	19.37:g.10943859_10943865delCCAGCCG	ENSP00000214869:p.Arg164fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000214869.2	37	CCDS12249.1																																																																																				0.623	TMED1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452614.1	NM_006858		-	10943865	CCAGCCG	-	10943859	7	5	654	1	0	1	0	1	0	0	0	0	16014	864	30	0	191	0	TMED1	19	10943859	Frame_Shift_Del	DEL	CCAGCCG	TCGA-KM-8639-01A-11D-2397-10	8509003	10943859	48185124	50	40598	370	2								
TMED1	11018	bcgsc.ca	37	chr19	10943860	10943866	+	Frame_Shift_Del	DEL	CCAGCCG	CCAGCCG	-													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	agcatctggatgctgcgctcCagccgggtccgcatggtctc					rs140257821		TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	CCAGCCG	CCAGCCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr19:10943860_10943866delCCAGCCG	ENST00000214869.2	-	4	587_593	c.489_495delCGGCTGG	c.(487-495)accggctggfs	p.TGW163fs	TMED1_ENST00000591695.1_Frame_Shift_Del_p.PAG102fs|TMED1_ENST00000588289.1_Frame_Shift_Del_p.TGW18fs	NM_006858.2	NP_006849.1	Q13445	TMED1_HUMAN	transmembrane emp24 protein transport domain containing 1	163					cell-cell signaling (GO:0007267)|protein transport (GO:0015031)|signal transduction (GO:0007165)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	receptor binding (GO:0005102)			breast(1)|central_nervous_system(2)|lung(2)|ovary(3)|prostate(1)|skin(1)	10						TGCTGCGCTCCAGCCGGGTCCGCATGG	0.623																																																0																																										SO:0001589	frameshift_variant	11018			U41804	CCDS12249.1	19p13.2	2008-02-05	2005-08-26			ENSG00000099203			17291	protein-coding gene	gene with protein product		605395	"transmembrane emp24 domain containing 1"			11466339, 8621446	Standard	NM_006858		Approved	ST2L, MGC1270, IL1RL1LG, Il1rl1l	uc002mpy.3	Q13445		ENST00000214869.2:c.489_495delCGGCTGG	19.37:g.10943860_10943866delCCAGCCG	ENSP00000214869:p.Thr163fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000214869.2	37	CCDS12249.1																																																																																				0.623	TMED1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452614.1	NM_006858		-	10943866	CCAGCCG	-	10943860	7	5	654	1	0	1	0	1	0	0	0	0	16014	581	21	0	192	0	TMED1	19	10943860	Frame_Shift_Del	DEL	CCAGCCG	TCGA-KM-8639-01A-11D-2397-10	1	10943860	48185123	51	40599	370	2								
ZNF799	90576	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	12501695	12501695	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	aggctttcttacatgtgttaCactcataaggtttctctcct	6	10	3	0	rs201843472		TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr19:12501695C>A	ENST00000430385.3	-	4	1717	c.1517G>T	c.(1516-1518)tGt>tTt	p.C506F	ZNF799_ENST00000419318.1_Missense_Mutation_p.C474F|CTD-3105H18.14_ENST00000435033.1_Intron	NM_001080821.2	NP_001074290.1	Q96GE5	ZN799_HUMAN	zinc finger protein 799	506					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(3)|kidney(2)|large_intestine(4)|lung(4)|ovary(2)|prostate(2)|skin(2)	19						ACATGTGTTACACTCATAAGG	0.388													C|||	1	0.000199681	0.0	0.0014	5008	,	,		21476	0.0		0.0	False		,,,				2504	0.0															0													96	100	99					19																	12501695		2202	4300	6502	SO:0001583	missense	90576			BC009517	CCDS45989.1	19p13.2	2013-01-08			ENSG00000196466	ENSG00000196466		"Zinc fingers, C2H2-type", "-"	28071	protein-coding gene	gene with protein product			"zinc finger protein 842"	ZNF842			Standard	NM_001080821		Approved	HIT-40, MGC71805	uc002mts.4	Q96GE5	OTTHUMG00000156408	ENST00000430385.3:c.1517G>T	19.37:g.12501695C>A	ENSP00000411084:p.Cys506Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000430385.3	37	CCDS45989.1	1	4.578754578754579E-4	0	0.0	1	0.0027624309392265192	0	0.0	0	0.0	C	15.76	2.928813	0.52759	.	.	ENSG00000196466	ENST00000419318;ENST00000430385	D;D	0.85088	-1.94;-1.94	1.14	1.14	0.20703	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	D	0.94238	0.8150	H	0.98295	4.195	0.37708	D	0.924487	D	0.76494	0.999	D	0.69479	0.964	D	0.94528	0.7733	9	0.87932	D	0	.	9.8115	0.40826	0.0:1.0:0.0:0.0	.	506	Q96GE5	ZN799_HUMAN	F	474;506	ENSP00000415278:C474F;ENSP00000411084:C506F	ENSP00000415278:C474F	C	-	2	0	ZNF799	12362695	0.984000	0.35163	0.023000	0.16930	0.370000	0.29829	3.155000	0.50700	0.922000	0.37019	0.195000	0.17529	TGT		0.388	ZNF799-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344099.2	NM_001080821		A	12501695	C	A	12501695	3	1	654	1	0	0	0	0	1	0	0	0	18178	478	17	4	418	4	ZNF799	19	12501695	Missense_Mutation	SNP	C	TCGA-KM-8639-01A-11D-2397-10	1557835	12501695	46627288	52	40600										
GIPC1	10755	broad.mit.edu	37	chr19	14593617	14593618	+	Frame_Shift_Ins	INS	-	-	A													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	agctgggtgtggaacacgagINSgcggggccgcagggctgggg							TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr19:14593617_14593618insA	ENST00000393033.4	-	4	440_441	c.171_172insT	c.(169-174)cgcctcfs	p.L58fs	GIPC1_ENST00000586027.1_Frame_Shift_Ins_p.L58fs|GIPC1_ENST00000345425.2_Frame_Shift_Ins_p.L58fs|GIPC1_ENST00000393029.3_Intron|GIPC1_ENST00000591349.1_Intron|GIPC1_ENST00000393028.1_Intron	NM_005716.3	NP_005707.1	O14908	GIPC1_HUMAN	GIPC PDZ domain containing family, member 1	58					endothelial cell migration (GO:0043542)|G-protein coupled receptor signaling pathway (GO:0007186)|glutamate secretion (GO:0014047)|negative regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032435)|positive regulation of cytokinesis (GO:0032467)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|protein targeting (GO:0006605)|regulation of protein stability (GO:0031647)|regulation of synaptic plasticity (GO:0048167)|synaptic transmission (GO:0007268)	brush border (GO:0005903)|cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|dendritic shaft (GO:0043198)|dendritic spine (GO:0043197)|endocytic vesicle (GO:0030139)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|synaptic vesicle (GO:0008021)|vesicle membrane (GO:0012506)	actin binding (GO:0003779)|myosin binding (GO:0017022)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)			endometrium(1)|lung(4)|upper_aerodigestive_tract(1)	6						TGGAACACGAGGCGGGGCCGCA	0.718																																					Pancreas(33;78 923 2910 41023 52850)											0																																										SO:0001589	frameshift_variant	10755			AF089816	CCDS12310.1, CCDS12311.1	19p13.1	2009-09-22	2005-06-28	2005-06-28					1226	protein-coding gene	gene with protein product		605072	"chromosome 19 open reading frame 3", "regulator of G-protein signalling 19 interacting protein 1"	C19orf3, RGS19IP1		9770488, 9482110	Standard	NM_005716		Approved	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP	uc002myx.4	O14908		ENST00000393033.4:c.171_172insT	19.37:g.14593617_14593618insA	ENSP00000376753:p.Leu58fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4I3|A8MZG3|Q9BTC9	Frame_Shift_Ins	INS	ENST00000393033.4	37	CCDS12310.1																																																																																				0.718	GIPC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460239.2			A	14593618	-	A	14593617	7	5	654	1	0	1	1	0	0	0	0	0	6399	1000	35	0	853	0	GIPC1	19	14593617	Frame_Shift_Ins	INS	-	TCGA-KM-8639-01A-11D-2397-10	2091922	14593617	44535366	53	40601										
ZNF101	94039	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr19	19790063	19790063	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ctttcagccagattcctgatTgtcacctgaacaagaaaagt	7	10	2	4			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr19:19790063T>C	ENST00000592502.1	+	4	375	c.265T>C	c.(265-267)Tgt>Cgt	p.C89R	ZNF101_ENST00000415784.2_5'UTR|ZNF101_ENST00000444249.2_3'UTR			Q8IZC7	ZN101_HUMAN	zinc finger protein 101	89					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|endometrium(1)|kidney(1)|large_intestine(6)|lung(4)|ovary(2)|prostate(1)	17						GATTCCTGATTGTCACCTGAA	0.443																																																0													93	84	87					19																	19790063		2203	4300	6503	SO:0001583	missense	94039			AK097169	CCDS32971.1	19p13.11	2013-01-08	2004-02-10		ENSG00000181896	ENSG00000181896		"Zinc fingers, C2H2-type", "-"	12881	protein-coding gene	gene with protein product		603983	"zinc finger protein 101 (Y2)"			11441184	Standard	XM_005260165		Approved	HZF12, DKFZp570I0164	uc002nni.2	Q8IZC7	OTTHUMG00000167736	ENST00000592502.1:c.265T>C	19.37:g.19790063T>C	ENSP00000468049:p.Cys89Arg	Somatic		WXS	Illumina HiSeq	Phase_I	C9JU83|Q0VDG9	Missense_Mutation	SNP	ENST00000592502.1	37	CCDS32971.1	.	.	.	.	.	.	.	.	.	.	T	0.221	-1.028890	0.02045	.	.	ENSG00000181896	ENST00000318110;ENST00000415440	T	0.14516	2.5	0.235	0.235	0.15431	.	.	.	.	.	T	0.05181	0.0138	N	0.08118	0	0.09310	N	0.999991	B	0.30914	0.3	B	0.22753	0.041	T	0.33954	-0.9848	9	0.51188	T	0.08	.	2.6085	0.04884	0.0:0.4385:0.0:0.5614	.	89	Q8IZC7	ZN101_HUMAN	R	89	ENSP00000319716:C89R	ENSP00000319716:C89R	C	+	1	0	ZNF101	19651063	0.000000	0.05858	0.256000	0.24389	0.257000	0.26127	-0.506000	0.06359	0.263000	0.21812	0.260000	0.18958	TGT		0.443	ZNF101-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460559.1	NM_033204		C	19790063	T	C	19790063	3	2	654	1	0	0	0	0	1	0	0	0	17726	1812	63	3	279	3	ZNF101	19	19790063	Missense_Mutation	SNP	T	TCGA-KM-8639-01A-11D-2397-10	5196446	19790063	39338920	54	40602										
CEACAM5	1048	mdanderson.org	37	chr19	42213772	42213772	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	tggatggcaaccgtcaaattAtaggatatgtaataggaact	10	5	1	0	rs12971352	byFrequency	TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr19:42213772A>G	ENST00000221992.6	+	2	352	c.238A>G	c.(238-240)Ata>Gta	p.I80V	CEACAM5_ENST00000398599.4_Missense_Mutation_p.I80V|CEA_ENST00000598976.1_Missense_Mutation_p.I80V|CEACAM7_ENST00000599715.1_5'Flank|CEACAM5_ENST00000405816.1_Missense_Mutation_p.I80V	NM_004363.2	NP_004354.2	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion molecule 5	80	Ig-like 1.		I -> V (in dbSNP:rs12971352).		homotypic cell-cell adhesion (GO:0034109)|negative regulation of anoikis (GO:2000811)|negative regulation of apoptotic process (GO:0043066)|negative regulation of myotube differentiation (GO:0010832)	anchored component of membrane (GO:0031225)|basolateral plasma membrane (GO:0016323)|extracellular vesicular exosome (GO:0070062)|integral component of external side of plasma membrane (GO:0071575)|integral component of plasma membrane (GO:0005887)	GPI anchor binding (GO:0034235)|identical protein binding (GO:0042802)|protein homodimerization activity (GO:0042803)			breast(1)|endometrium(3)|kidney(5)|large_intestine(4)|lung(10)|ovary(2)|skin(7)|stomach(1)|urinary_tract(1)	34				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		CCGTCAAATTATAGGATATGT	0.478													a|||	818	0.163339	0.3986	0.1037	5008	,	,		18246	0.0		0.1958	False		,,,				2504	0.0225															0								A	VAL/ILE	1325,3081		310,705,1188	154	163	160		238	-1.3	0	19	dbSNP_121	160	1069,7531		115,839,3346	no	missense	CEACAM5	NM_004363.2	29	425,1544,4534	GG,GA,AA		12.4302,30.0726,18.4069	benign	80/703	42213772	2394,10612	2203	4300	6503	SO:0001583	missense	1048			M17303	CCDS12584.1	19q13.1-q13.2	2013-01-29			ENSG00000105388	ENSG00000105388		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	1817	protein-coding gene	gene with protein product		114890		CEA			Standard	XM_005258413		Approved	CD66e	uc002orl.3	P06731	OTTHUMG00000151061	ENST00000221992.6:c.238A>G	19.37:g.42213772A>G	ENSP00000221992:p.Ile80Val	Somatic		WXS	Illumina HiSeq	Phase_I	H9KVA7	Missense_Mutation	SNP	ENST00000221992.6	37	CCDS12584.1	303|303	0.13873626373626374|0.13873626373626374	131|131	0.266260162601626|0.266260162601626	40|40	0.11049723756906077|0.11049723756906077	0|0	0.0|0.0	132|132	0.1741424802110818|0.1741424802110818	-|-	0.004|0.004	-2.303796|-2.303796	0.00240|0.00240	0.300726|0.300726	0.124302|0.124302	ENSG00000105388|ENSG00000105388	ENST00000221992;ENST00000405816;ENST00000378181|ENST00000398599	T;T|.	0.66099|.	-0.19;-0.19|.	2.56|2.56	-1.31|-1.31	0.09230|0.09230	Immunoglobulin V-set (1);Immunoglobulin-like fold (1);|.	.|.	.|.	.|.	.|.	T|T	0.00012|0.00012	0.0000|0.0000	N|N	0.11724|0.11724	0.165|0.165	0.80722|0.80722	P|P	0.0|0.0	B;B;B|.	0.12013|.	0.005;0.0;0.0|.	B;B;B|.	0.26517|.	0.07;0.005;0.016|.	T|T	0.44697|0.44697	-0.9311|-0.9311	8|4	0.05721|.	T|.	0.95|.	.|.	4.8298|4.8298	0.13434|0.13434	0.1374:0.4321:0.4306:0.0|0.1374:0.4321:0.4306:0.0	rs12971352|rs12971352	80;80;80|.	Q8N4D0;P06731;Q53G30|.	.;CEAM5_HUMAN;.|.	V|C	80|76	ENSP00000221992:I80V;ENSP00000385072:I80V|.	ENSP00000221992:I80V|.	I|Y	+|+	1|2	0|0	CEACAM5|CEACAM5	46905612|46905612	0.001000|0.001000	0.12720|0.12720	0.002000|0.002000	0.10522|0.10522	0.000000|0.000000	0.00434|0.00434	-0.284000|-0.284000	0.08422|0.08422	-0.113000|-0.113000	0.11958|0.11958	-2.226000|-2.226000	0.00293|0.00293	ATA|TAT		0.478	CEACAM5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000321132.2	NM_004363		G	42213772	A	G	42213772	3	3	654	1	0	0	0	0	1	0	0	0	3197	449	16	3	244	3	CEACAM5	19	42213772	Missense_Mutation	SNP	A	TCGA-KM-8639-01A-11D-2397-10	22423709	42213772	16915211	55	40603										
MYH7B	57644	broad.mit.edu;bcgsc.ca	37	chr20	33577581	33577581	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	atcctggaggaggaatgcatGttccccaaggcctcagacgc	12	12	1	1			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr20:33577581G>A	ENST00000262873.7	+	18	1844	c.1752G>A	c.(1750-1752)atG>atA	p.M584I	MIR499A_ENST00000384903.1_RNA	NM_020884.3	NP_065935.2	A7E2Y1	MYH7B_HUMAN	myosin, heavy chain 7B, cardiac muscle, beta	542	Myosin motor.					membrane (GO:0016020)|myosin filament (GO:0032982)	ATP binding (GO:0005524)|motor activity (GO:0003774)			NS(2)|breast(5)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(8)|lung(19)|ovary(5)|prostate(3)|upper_aerodigestive_tract(2)|urinary_tract(3)	54			BRCA - Breast invasive adenocarcinoma(18;0.00691)			AGGAATGCATGTTCCCCAAGG	0.587																																																0													56	61	59					20																	33577581		2200	4300	6500	SO:0001583	missense	57644			AB040945	CCDS42869.1	20q11	2011-09-27	2006-09-29		ENSG00000078814	ENSG00000078814		"Myosins / Myosin superfamily : Class II"	15906	protein-coding gene	gene with protein product		609928	"myosin, heavy polypeptide 7B, cardiac muscle, beta"			11919279, 15014174	Standard	XM_006723839		Approved	KIAA1512, dJ756N5.1, MYH14, MHC14	uc002xbi.2	A7E2Y1	OTTHUMG00000032320	ENST00000262873.7:c.1752G>A	20.37:g.33577581G>A	ENSP00000262873:p.Met584Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JVW7|Q6NT44|Q6NT57|Q6WG75|Q96I57|Q9NWE2|Q9P216	Missense_Mutation	SNP	ENST00000262873.7	37	CCDS42869.1	.	.	.	.	.	.	.	.	.	.	G	29.3	4.994859	0.93167	.	.	ENSG00000078814	ENST00000262873	T	0.71341	-0.56	4.5	4.5	0.54988	Myosin head, motor domain (2);	0.000000	0.45867	D	0.000321	T	0.81351	0.4804	L	0.54863	1.705	0.58432	D	0.999999	D	0.53885	0.963	D	0.76575	0.988	T	0.81892	-0.0724	10	0.51188	T	0.08	.	17.7562	0.88450	0.0:0.0:1.0:0.0	.	542	A7E2Y1	MYH7B_HUMAN	I	584	ENSP00000262873:M584I	ENSP00000262873:M584I	M	+	3	0	MYH7B	33041242	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	9.657000	0.98554	2.503000	0.84419	0.561000	0.74099	ATG		0.587	MYH7B-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000078833.2	NM_020884		A	33577581	G	A	33577581	3	1	654	1	0	0	0	0	1	0	0	0	10047	1377	48	2	1822	2	MYH7B	20	33577581	Missense_Mutation	SNP	G	TCGA-KM-8639-01A-11D-2397-10		33577581	29447939	56	40604										
C20orf111	51526	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	42825743	42825743	+	Nonsense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	attttcttgggaatatacaaGtaatactccatgtagcctga	7	7	1	1			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr20:42825743G>C	ENST00000372970.2	-	6	1008	c.828C>G	c.(826-828)taC>taG	p.Y276*	OSER1_ENST00000255174.2_Nonsense_Mutation_p.Y276*			Q9NX31	OSER1_HUMAN	oxidative stress responsive serine-rich 1	276					cellular response to hydrogen peroxide (GO:0070301)												GAATATACAAGTAATACTCCA	0.448																																																0													106	104	105					20																	42825743		2203	4300	6503	SO:0001587	stop_gained	51526			AL035447	CCDS13327.1	20q13.11	2013-05-17	2013-05-17	2013-05-17	ENSG00000132823	ENSG00000132823			16105	protein-coding gene	gene with protein product	"peroxide-inducible transcript 1", "oxidative stress-responsive 1"		"chromosome 20 open reading frame 111"	C20orf111		17148688	Standard	NM_016470		Approved	dJ1183I21.1, HSPC207, Perit1, Osr1		Q9NX31	OTTHUMG00000032518	ENST00000372970.2:c.828C>G	20.37:g.42825743G>C	ENSP00000362061:p.Tyr276*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCK4|O95912|Q9NZ84|Q9P0R8	Nonsense_Mutation	SNP	ENST00000372970.2	37	CCDS13327.1	.	.	.	.	.	.	.	.	.	.	G	36	5.646283	0.96704	.	.	ENSG00000132823	ENST00000255174;ENST00000372970	.	.	.	6.03	4.08	0.47627	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.52099	D	0.999946	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-10.4897	12.2023	0.54333	0.1364:0.0:0.8636:0.0	.	.	.	.	X	276	.	ENSP00000255174:Y276X	Y	-	3	2	C20orf111	42259157	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.336000	0.43938	1.547000	0.49401	0.655000	0.94253	TAC		0.448	OSER1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079334.2	NM_016470		C	42825743	G	C	42825743	4	2	654	1	0	0	0	0	0	1	0	0	2082	1024	36	4	54	4	C20orf111	20	42825743	Nonsense_Mutation	SNP	G	TCGA-KM-8639-01A-11D-2397-10	9248162	42825743	20199777	57	40605										
NCOA3	8202	hgsc.bcm.edu	37	chr20	46279839	46279839	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	cagcagcagcagcagcaacaGcagcagcagcagcagcagca	12	14	0	0	rs147879509|rs2664555|rs397778717|rs3830809		TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr20:46279839G>A	ENST00000371998.3	+	20	3956	c.3765G>A	c.(3763-3765)caG>caA	p.Q1255Q	NCOA3_ENST00000372004.3_Silent_p.Q1251Q|NCOA3_ENST00000341724.6_Silent_p.Q1181Q|NCOA3_ENST00000371997.3_Silent_p.Q1246Q			Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3	1255	Acetyltransferase.|Poly-Gln.				androgen receptor signaling pathway (GO:0030521)|developmental growth (GO:0048589)|histone acetylation (GO:0016573)|labyrinthine layer morphogenesis (GO:0060713)|mammary gland branching involved in thelarche (GO:0060744)|multicellular organism growth (GO:0035264)|positive regulation of gene expression (GO:0010628)|positive regulation of keratinocyte differentiation (GO:0045618)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|receptor transactivation (GO:0035624)|regulation of RNA biosynthetic process (GO:2001141)|transcription, DNA-templated (GO:0006351)|vagina development (GO:0060068)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|chromatin binding (GO:0003682)|histone acetyltransferase activity (GO:0004402)|ligand-dependent nuclear receptor binding (GO:0016922)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|nuclear hormone receptor binding (GO:0035257)|protein N-terminus binding (GO:0047485)|signal transducer activity (GO:0004871)|thyroid hormone receptor binding (GO:0046966)|transcription coactivator activity (GO:0003713)	p.Q1255delQ(1)		breast(3)|endometrium(3)|kidney(4)|large_intestine(12)|lung(19)|ovary(4)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	52						agcagcaacagcagcagcagc	0.557																																																1	Deletion - In frame(1)	upper_aerodigestive_tract(1)											41	44	43					20																	46279839		2202	4300	6502	SO:0001819	synonymous_variant	8202			AF012108	CCDS13406.1, CCDS13407.1, CCDS54472.1	20q12	2011-07-01			ENSG00000124151	ENSG00000124151		"Chromatin-modifying enzymes / K-acetyltransferases", "Basic helix-loop-helix proteins"	7670	protein-coding gene	gene with protein product	"receptor-associated coactivator 3", "thyroid hormone receptor activator molecule 1"	601937				9252329, 9346901	Standard	NM_181659		Approved	RAC3, AIB1, ACTR, p/CIP, TRAM-1, CAGH16, TNRC16, KAT13B, bHLHe42, SRC-3, SRC3	uc002xtk.3	Q9Y6Q9	OTTHUMG00000033061	ENST00000371998.3:c.3765G>A	20.37:g.46279839G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4LAZ5|Q0VF45|Q5JYD9|Q5JYE0|Q9BR49|Q9UPC9|Q9UPG4|Q9UPG7	Silent	SNP	ENST00000371998.3	37	CCDS13407.1																																																																																				0.557	NCOA3-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000080405.1	NM_006534		A	46279839	G	A	46279839	2	1	654	1	0	0	0	0	0	0	0	1	10237	962	34	2		2	NCOA3	20	46279839	Silent	SNP	G	TCGA-KM-8639-01A-11D-2397-10	3454096	46279839	16745681	58	40606										
MYO18B	84700	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr22	26351240	26351240	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	cagcagcgggagagcagccaGtactaccagcggcgcctgga	15	13	0	1			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr22:26351240G>C	ENST00000407587.2	+	39	6238	c.6069G>C	c.(6067-6069)caG>caC	p.Q2023H	MYO18B_ENST00000335473.7_Missense_Mutation_p.Q2022H|MYO18B_ENST00000536101.1_Missense_Mutation_p.Q2022H			Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2022	Tail.					cytoplasm (GO:0005737)|nucleus (GO:0005634)|unconventional myosin complex (GO:0016461)	ATP binding (GO:0005524)|motor activity (GO:0003774)			NS(2)|breast(6)|central_nervous_system(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(4)|kidney(5)|large_intestine(27)|liver(2)|lung(60)|ovary(7)|prostate(8)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(2)	146						AGAGCAGCCAGTACTACCAGC	0.662																																																0													22	29	26					22																	26351240		1967	4148	6115	SO:0001583	missense	84700			AJ310931	CCDS54507.1	22q12.1	2011-09-27			ENSG00000133454	ENSG00000133454		"Myosins / Myosin superfamily : Class XVIII"	18150	protein-coding gene	gene with protein product		607295				12209013, 12547197	Standard	NM_032608		Approved	BK125H2.1	uc003abz.1	Q8IUG5	OTTHUMG00000151129	ENST00000407587.2:c.6069G>C	22.37:g.26351240G>C	ENSP00000386096:p.Gln2023His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RWP3|F5GYU7|Q8NDI8|Q8TE65|Q8WWS0|Q96KH2|Q96KR8|Q96KR9	Missense_Mutation	SNP	ENST00000407587.2	37		.	.	.	.	.	.	.	.	.	.	G	13.81	2.347182	0.41599	.	.	ENSG00000133454	ENST00000536101;ENST00000335473;ENST00000407587	D;D;D	0.87412	-2.22;-2.22;-2.25	4.86	-3.03	0.05429	.	0.165305	0.42172	D	0.000742	T	0.80834	0.4699	L	0.36672	1.1	0.32480	N	0.541574	P;P;P;P;P	0.47604	0.898;0.836;0.836;0.874;0.898	P;B;B;P;P	0.49752	0.526;0.326;0.326;0.621;0.526	T	0.78617	-0.2134	10	0.72032	D	0.01	.	5.1107	0.14808	0.3885:0.2584:0.3531:0.0	.	1535;2024;2022;2023;2022	Q8IUG5-2;B0QYF5;Q8IUG5;F5GXR6;F5GYU7	.;.;MY18B_HUMAN;.;.	H	2022;2022;2023	ENSP00000441229:Q2022H;ENSP00000334563:Q2022H;ENSP00000386096:Q2023H	ENSP00000334563:Q2022H	Q	+	3	2	MYO18B	24681240	0.005000	0.15991	0.939000	0.37840	0.335000	0.28730	-0.611000	0.05622	-0.278000	0.09180	-0.226000	0.12346	CAG		0.662	MYO18B-006	NOVEL	non_canonical_conserved|basic|appris_candidate_longest|exp_conf	protein_coding	protein_coding	OTTHUMT00000400691.1	NM_032608		C	26351240	G	C	26351240	3	2	654	1	0	0	0	0	1	0	0	0	10073	1020	36	4	6216	4	MYO18B	22	26351240	Missense_Mutation	SNP	G	TCGA-KM-8639-01A-11D-2397-10		26351240	24953326	59	40607										
APOL5	80831	mdanderson.org	37	chr22	36122931	36122931	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	agacacatccctttctggacGgctagaggggtgcagagagc	14	10	1	3	rs370593513		TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chr22:36122931G>A	ENST00000249044.2	+	3	816	c.816G>A	c.(814-816)acG>acA	p.T272T		NM_030642.1	NP_085145.1	Q9BWW9	APOL5_HUMAN	apolipoprotein L, 5	272			T -> M (in dbSNP:rs2076671).		lipid metabolic process (GO:0006629)|lipid transport (GO:0006869)|lipoprotein metabolic process (GO:0042157)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)	high-density lipoprotein particle binding (GO:0008035)|lipid binding (GO:0008289)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(4)|lung(6)|skin(2)|urinary_tract(1)	19						CTTTCTGGACGGCTAGAGGGG	0.527													G|||	1	0.000199681	0.0008	0.0	5008	,	,		18487	0.0		0.0	False		,,,				2504	0.0															0								G		3,4403	4.2+/-10.8	0,3,2200	138	145	143		816	-4.8	0	22		143	0,8600		0,0,4300	no	coding-synonymous	APOL5	NM_030642.1		0,3,6500	AA,AG,GG		0.0,0.0681,0.0231		272/434	36122931	3,13003	2203	4300	6503	SO:0001819	synonymous_variant	80831			AY014878	CCDS13920.1	22q12.3	2013-01-24			ENSG00000128313	ENSG00000128313		"Apolipoproteins"	14869	protein-coding gene	gene with protein product		607255				11374903	Standard	NM_030642		Approved	APOLV	uc003aof.3	Q9BWW9	OTTHUMG00000150588	ENST00000249044.2:c.816G>A	22.37:g.36122931G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TFL9|Q9UGW5	Silent	SNP	ENST00000249044.2	37	CCDS13920.1																																																																																				0.527	APOL5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318979.1	NM_030642		A	36122931	G	A	36122931	2	1	654	1	0	0	0	0	0	0	0	1	809	1103	39	1		1	APOL5	22	36122931	Silent	SNP	G	TCGA-KM-8639-01A-11D-2397-10	9771691	36122931	15181635	60	40608										
NLGN4X	57502	mdanderson.org;bcgsc.ca	37	chrX	6069116	6069116	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	aggtcatcaaagtatccaaaTtggcggtaaaccagatgggc	11	8	2	1	rs145307351		TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chrX:6069116T>C	ENST00000381095.3	-	2	1019	c.392A>G	c.(391-393)aAt>aGt	p.N131S	NLGN4X_ENST00000381093.2_Missense_Mutation_p.N131S|NLGN4X_ENST00000538097.1_Missense_Mutation_p.N131S|NLGN4X_ENST00000381092.1_Missense_Mutation_p.N131S|NLGN4X_ENST00000469740.1_5'UTR|NLGN4X_ENST00000275857.6_Missense_Mutation_p.N131S	NM_001282145.1|NM_001282146.1|NM_181332.1	NP_001269074.1|NP_001269075.1|NP_851849.1	Q8N0W4	NLGNX_HUMAN	neuroligin 4, X-linked	131					adult behavior (GO:0030534)|brainstem development (GO:0003360)|cell-cell junction organization (GO:0045216)|cerebellum development (GO:0021549)|learning (GO:0007612)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|neuron cell-cell adhesion (GO:0007158)|neuron differentiation (GO:0030182)|organ growth (GO:0035265)|presynaptic membrane assembly (GO:0097105)|social behavior (GO:0035176)|synapse organization (GO:0050808)|vocalization behavior (GO:0071625)	cell junction (GO:0030054)|cell surface (GO:0009986)|dendrite (GO:0030425)|excitatory synapse (GO:0060076)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|synapse (GO:0045202)	cell adhesion molecule binding (GO:0050839)|chloride ion binding (GO:0031404)|neurexin family protein binding (GO:0042043)|protein homodimerization activity (GO:0042803)|receptor activity (GO:0004872)			breast(1)|cervix(2)|endometrium(4)|large_intestine(21)|lung(39)|ovary(4)|prostate(2)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)	81						AGTATCCAAATTGGCGGTAAA	0.468																																																0								T	SER/ASN,SER/ASN	0,3835		0,0,0,1632,571	157	133	141		392,392	4.1	0.2	X	dbSNP_134	141	5,6723		0,4,1,2424,1871	yes	missense,missense	NLGN4X	NM_020742.2,NM_181332.1	46,46	0,4,1,4056,2442	CC,CT,C,TT,T		0.0743,0.0,0.0473	benign,benign	131/817,131/817	6069116	5,10558	2203	4300	6503	SO:0001583	missense	57502			AB033086	CCDS14126.1	Xp22.33	2008-02-05	2004-05-21	2004-05-26	ENSG00000146938	ENSG00000146938			14287	protein-coding gene	gene with protein product		300427	"neuroligin 4"	NLGN4		10574462	Standard	XM_005274564		Approved	KIAA1260, NLGN, HLNX	uc004crr.3	Q8N0W4	OTTHUMG00000021093	ENST00000381095.3:c.392A>G	X.37:g.6069116T>C	ENSP00000370485:p.Asn131Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UX10|Q9ULG0	Missense_Mutation	SNP	ENST00000381095.3	37	CCDS14126.1	.	.	.	.	.	.	.	.	.	.	T	10.35	1.326202	0.24080	0.0	7.43E-4	ENSG00000146938	ENST00000381095;ENST00000381093;ENST00000275857;ENST00000381092;ENST00000538097	T;T;T;T;T	0.68181	-0.31;-0.31;-0.31;-0.31;-0.31	4.08	4.08	0.47627	Carboxylesterase, type B (1);	.	.	.	.	T	0.58680	0.2139	L	0.48935	1.535	0.58432	D	0.999998	B;B	0.06786	0.001;0.0	B;B	0.09377	0.004;0.002	T	0.56920	-0.7899	9	0.46703	T	0.11	.	11.7027	0.51579	0.0:0.0:0.0:1.0	.	131;131	Q8N0W4;Q8N0W4-2	NLGNX_HUMAN;.	S	131	ENSP00000370485:N131S;ENSP00000370483:N131S;ENSP00000275857:N131S;ENSP00000370482:N131S;ENSP00000439203:N131S	ENSP00000275857:N131S	N	-	2	0	NLGN4X	6079116	1.000000	0.71417	0.208000	0.23602	0.214000	0.24535	6.568000	0.73987	1.338000	0.45544	0.481000	0.45027	AAT		0.468	NLGN4X-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000055673.1	NM_020742		C	6069116	T	C	6069116	3	2	654	1	0	0	0	0	1	0	0	0	10471	1493	52	3	2078	3	NLGN4X	23	6069116	Missense_Mutation	SNP	T	TCGA-KM-8639-01A-11D-2397-10		6069116	149201444	61	40609										
WWC3	55841	broad.mit.edu	37	chrX	10085451	10085452	+	Frame_Shift_Ins	INS	-	-	A													0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	acgccccagtccctggcatcINSgctgtcctcccgctcctcgc							TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chrX:10085451_10085452insA	ENST00000380861.4	+	11	1743_1744	c.1352_1353insA	c.(1351-1356)tcgctgfs	p.L452fs	WWC3_ENST00000454666.1_Frame_Shift_Ins_p.L452fs	NM_015691.3	NP_056506.2	Q9ULE0	WWC3_HUMAN	WWC family member 3	452	Ser-rich.				negative regulation of hippo signaling (GO:0035331)|negative regulation of organ growth (GO:0046621)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)	cytosol (GO:0005829)	kinase binding (GO:0019900)|protein complex scaffold (GO:0032947)			NS(1)|breast(3)|endometrium(10)|kidney(1)|large_intestine(11)|lung(17)|ovary(5)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	52						TCCCTGGCATCGCTGTCCTCCC	0.698																																																0																																										SO:0001589	frameshift_variant	55841			AK091936	CCDS14136.1	Xp22.32	2008-02-05			ENSG00000047644	ENSG00000047644		"WW, C2 and coiled-coil domain containing"	29237	protein-coding gene	gene with protein product						10574462	Standard	NM_015691		Approved	KIAA1280, BM042	uc004csx.4	Q9ULE0	OTTHUMG00000021123	Exception_encountered	X.37:g.10085451_10085452insA	ENSP00000370242:p.Leu452fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA96|Q659C1|Q9BTQ1	Frame_Shift_Ins	INS	ENST00000380861.4	37	CCDS14136.1																																																																																				0.698	WWC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055725.1	NM_015691		A	10085452	-	A	10085451	7	5	654	1	0	1	1	0	0	0	0	0	17425	893	31	0	1390	0	WWC3	23	10085451	Frame_Shift_Ins	INS	-	TCGA-KM-8639-01A-11D-2397-10	4016335	10085451	145185109	62	40610										
TBC1D25	4943	bcgsc.ca	37	chrX	48418659	48418659	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	cccccagccaagtggcagacGctggttttggtggccacagg	14	13	0	1	rs235836	byFrequency	TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chrX:48418659G>A	ENST00000376771.4	+	6	1704	c.1363G>A	c.(1363-1365)Gct>Act	p.A455T	TBC1D25_ENST00000537536.1_Missense_Mutation_p.A201T|snoU13_ENST00000459609.1_RNA	NM_002536.2	NP_002527.1	Q3MII6	TBC25_HUMAN	TBC1 domain family, member 25	455				A -> T (in Ref. 2; AAI01818/AAI01820/ AAI25089). {ECO:0000305}.	autophagy (GO:0006914)|positive regulation of Rab GTPase activity (GO:0032851)|regulation of autophagic vacuole maturation (GO:1901096)	autophagic vacuole (GO:0005776)|cytoplasmic vesicle (GO:0031410)	Rab GTPase activator activity (GO:0005097)			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						AGTGGCAGACGCTGGTTTTGG	0.607													A|||	2101	0.556556	0.6089	0.3285	3775	,	,		14249	0.4127		0.3082	False		,,,				2504	0.3497															0								A	THR/ALA	2926,909		957,587,425,88,146	28	23	25		1363	-7.3	0	X	dbSNP_79	25	2876,3852		481,1133,781,814,1091	yes	missense	TBC1D25	NM_002536.2	58	1438,1720,1206,902,1237	AA,AG,A,GG,G		42.7467,23.7027,45.0724	benign	455/689	48418659	5802,4761	2203	4300	6503	SO:0001583	missense	4943			L08240	CCDS35242.1	Xp11.23	2014-01-28	2007-01-12	2007-01-12	ENSG00000068354	ENSG00000068354			8092	protein-coding gene	gene with protein product		311240	"ornithine aminotransferase-like 1"	OATL1		21383079	Standard	NM_002536		Approved		uc004dka.1	Q3MII6	OTTHUMG00000024123	ENST00000376771.4:c.1363G>A	X.37:g.48418659G>A	ENSP00000365962:p.Ala455Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q08AN9|Q3MII4|Q8TAR9	Missense_Mutation	SNP	ENST00000376771.4	37	CCDS35242.1	892	0.5376732971669681	208	0.6459627329192547	80	0.28169014084507044	157	0.3866995073891626	162	0.2691029900332226	A	0.018	-1.479371	0.01035	0.762973	0.427467	ENSG00000068354	ENST00000376771;ENST00000537536	T;T	0.21543	2.0;2.0	4.05	-7.34	0.01427	Rab-GAP/TBC domain (2);	2.072600	0.01690	N	0.026624	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.34825	-0.9813	9	0.02654	T	1	2.5694	3.1069	0.06345	0.2791:0.2206:0.3908:0.1095	rs235836	459;397;455	B4DF03;B4DGU3;Q3MII6	.;.;TBC25_HUMAN	T	455;201	ENSP00000365962:A455T;ENSP00000444091:A201T	ENSP00000365962:A455T	A	+	1	0	TBC1D25	48303603	0.000000	0.05858	0.015000	0.15790	0.736000	0.42039	-1.130000	0.03241	-2.436000	0.00553	-0.573000	0.04149	GCT		0.607	TBC1D25-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060764.2	NM_002536		A	48418659	G	A	48418659	3	1	654	1	0	0	0	0	1	0	0	0	15627	1087	38	1	1385	1	TBC1D25	23	48418659	Missense_Mutation	SNP	G	TCGA-KM-8639-01A-11D-2397-10	38333208	48418659	106851901	63	40611										
SATL1	340562	mdanderson.org	37	chrX	84363716	84363716	+	5'UTR	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ttcttgttgcagcatgcctgGttggctcctacctaattgcc	9	12	1	0	rs141330942		TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chrX:84363716G>C	ENST00000395409.3	-	0	258				SATL1_ENST00000332921.5_5'UTR|SATL1_ENST00000509231.1_Missense_Mutation_p.P87A			Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1								N-acetyltransferase activity (GO:0008080)			NS(1)|breast(5)|endometrium(2)|large_intestine(3)|lung(13)|skin(3)|stomach(1)|urinary_tract(1)	29						AGCATGCCTGGTTGGCTCCTA	0.527											OREG0019887	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	-|||	6	0.0015894	0.0	0.0029	3775	,	,		17578	0.0		0.002	False		,,,				2504	0.002															0									ALA/PRO	0,1209		0,0,0,517,175	415	264	310		259	-5	0	X	dbSNP_134	310	17,2374		0,12,5,788,786	yes	missense	SATL1	NM_001012980.2	27	0,12,5,1305,961	CC,CG,C,GG,G		0.711,0.0,0.4722	possibly-damaging	87/633	84363716	17,3583	692	1591	2283	SO:0001623	5_prime_UTR_variant	340562			BC043215	CCDS35343.1, CCDS35343.2	Xq21	2008-02-05			ENSG00000184788	ENSG00000184788			27992	protein-coding gene	gene with protein product						12477932	Standard	NM_001012980		Approved		uc004een.3	Q86VE3	OTTHUMG00000021931	ENST00000395409.3:c.-303C>G	X.37:g.84363716G>C		Somatic	1228	WXS	Illumina HiSeq	Phase_I	A0AVK7|E9PB72|Q5H8V9	Missense_Mutation	SNP	ENST00000395409.3	37		1	6.027727546714888E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	-	3.720	-0.057793	0.07317	0.0	0.00711	ENSG00000184788	ENST00000509231	T	0.39592	1.07	2.81	-5.03	0.02973	.	.	.	.	.	T	0.16128	0.0388	L	0.43152	1.355	0.20403	N	0.999904	P	0.40332	0.713	B	0.33339	0.162	T	0.11717	-1.0576	8	.	.	.	.	1.0108	0.01497	0.3:0.1614:0.3765:0.1621	.	87	E9PB72	.	A	87	ENSP00000425421:P87A	.	P	-	1	0	SATL1	84250372	0.001000	0.12720	0.000000	0.03702	0.005000	0.04900	0.952000	0.29149	-0.781000	0.04548	0.431000	0.28591	CCA		0.527	SATL1-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		XM_291339		C	84363716	G	C	84363716	1	2	654	0	1	0	0	0	0	0	0	0	13868	1261	44	4		4	SATL1	23	84363716	5'UTR	SNP	G	TCGA-KM-8639-01A-11D-2397-10	35945057	84363716	70906844	64	40612										
HCFC1	3054	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	153220585	153220585	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.40282131661442	1.26600985221675	0	1	1	0	ggtggcggtggtggcggtgtTggtggtgcccgtctcgtggg	23	7	1	0			TCGA-KM-8639-01A-11D-2397-10	TCGA-KM-8639-10A-01D-2397-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0b811c6a-8f05-44bd-ac33-fb720d189e71	04e0d4a3-5826-41d0-9e72-19c5d4ce08ff	g.chrX:153220585T>C	ENST00000310441.7	-	17	4231	c.3265A>G	c.(3265-3267)Aac>Gac	p.N1089D	HCFC1_ENST00000369984.4_Missense_Mutation_p.N1089D|HCFC1_ENST00000354233.3_Missense_Mutation_p.N1020D	NM_005334.2	NP_005325.2	P51610	HCFC1_HUMAN	host cell factor C1	1089					cell cycle (GO:0007049)|chromatin organization (GO:0006325)|histone H4-K16 acetylation (GO:0043984)|histone H4-K5 acetylation (GO:0043981)|histone H4-K8 acetylation (GO:0043982)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of cell cycle (GO:0045787)|positive regulation of gene expression (GO:0010628)|protein stabilization (GO:0050821)|regulation of protein complex assembly (GO:0043254)|regulation of transcription, DNA-templated (GO:0006355)|release from viral latency (GO:0019046)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|histone acetyltransferase complex (GO:0000123)|membrane (GO:0016020)|mitochondrion (GO:0005739)|MLL1 complex (GO:0071339)|MLL5-L complex (GO:0070688)|neuronal cell body (GO:0043025)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|Set1C/COMPASS complex (GO:0048188)	chromatin binding (GO:0003682)|identical protein binding (GO:0042802)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001205)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)			NS(1)|breast(2)|central_nervous_system(2)|endometrium(12)|kidney(3)|large_intestine(3)|lung(18)|ovary(2)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	47	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					gtggcggtgttggtggtgCCC	0.642																																																0													35	43	41					X																	153220585		2173	4254	6427	SO:0001583	missense	3054				CCDS44020.1	Xq28	2014-06-12	2014-06-09		ENSG00000172534	ENSG00000172534			4839	protein-coding gene	gene with protein product	"VP16-accessory protein", "protein phosphatase 1, regulatory subunit 89"	300019	"mental retardation, X-linked 3", "host cell factor C1 (VP16-accessory protein)"	HFC1, MRX3		8392914, 23000143	Standard	XM_005274664		Approved	HCF-1, HCF1, CFF, VCAF, MGC70925, PPP1R89	uc004fjp.3	P51610	OTTHUMG00000024222	ENST00000310441.7:c.3265A>G	X.37:g.153220585T>C	ENSP00000309555:p.Asn1089Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P4G5	Missense_Mutation	SNP	ENST00000310441.7	37	CCDS44020.1	.	.	.	.	.	.	.	.	.	.	t	13.39	2.221672	0.39300	.	.	ENSG00000172534	ENST00000310441;ENST00000369984;ENST00000354233	T;T;T	0.04551	3.65;3.64;3.6	4.9	0.883	0.19177	.	0.576812	0.19428	N	0.114508	T	0.06096	0.0158	L	0.49126	1.545	0.42729	D	0.993701	B	0.15141	0.012	B	0.16289	0.015	T	0.26430	-1.0103	10	0.39692	T	0.17	.	12.6669	0.56848	0.0:0.0:0.6157:0.3843	.	1089	P51610	HCFC1_HUMAN	D	1089;1089;1020	ENSP00000309555:N1089D;ENSP00000359001:N1089D;ENSP00000346174:N1020D	ENSP00000309555:N1089D	N	-	1	0	HCFC1	152873779	1.000000	0.71417	0.632000	0.29296	0.666000	0.39218	1.816000	0.38992	-0.194000	0.10399	0.427000	0.28365	AAC		0.642	HCFC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000061099.4	NM_005334		C	153220585	T	C	153220585	3	2	654	1	0	0	0	0	1	0	0	0	6998	1812	63	3	2882	3	HCFC1	23	153220585	Missense_Mutation	SNP	T	TCGA-KM-8639-01A-11D-2397-10	68856869	153220585	2049975	65	40613										
ESPN	83715	ucsc.edu;bcgsc.ca	37	chr1	6512010	6512010	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	tggttcccgtgccgcccactActcctgcgccgggagtgcag	13	16	0	0			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr1:6512010A>G	ENST00000377828.1	+	10	2347	c.2179A>G	c.(2179-2181)Act>Gct	p.T727A	ESPN_ENST00000461727.1_Missense_Mutation_p.T161A|ESPN_ENST00000475228.1_3'UTR|ESPN_ENST00000416731.1_Missense_Mutation_p.T161A	NM_031475.2	NP_113663.2	B1AK53	ESPN_HUMAN	espin	727	Pro-rich.				locomotory behavior (GO:0007626)|negative regulation of cytoskeleton organization (GO:0051494)|parallel actin filament bundle assembly (GO:0030046)|positive regulation of filopodium assembly (GO:0051491)|sensory perception of sound (GO:0007605)	brush border (GO:0005903)|cytoplasm (GO:0005737)|filamentous actin (GO:0031941)|microvillus (GO:0005902)|stereocilium bundle tip (GO:0032426)	actin filament binding (GO:0051015)|SH3 domain binding (GO:0017124)			NS(1)|breast(2)|cervix(1)|kidney(1)|large_intestine(2)|lung(7)|ovary(1)|prostate(1)|skin(1)	17	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)		GCCGCCCACTACTCCTGCGCC	0.667																																																0													22	24	23					1																	6512010		2200	4298	6498	SO:0001583	missense	83715			AF134401	CCDS70.1	1p36.31	2013-01-10			ENSG00000187017	ENSG00000187017		"Ankyrin repeat domain containing"	13281	protein-coding gene	gene with protein product		606351	"deafness, autosomal recessive 36"	DFNB36		10975527, 15286153	Standard	NM_031475		Approved		uc001amy.3	B1AK53	OTTHUMG00000000753	ENST00000377828.1:c.2179A>G	1.37:g.6512010A>G	ENSP00000367059:p.Thr727Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6XYB2|Q9H0A2|Q9Y329	Missense_Mutation	SNP	ENST00000377828.1	37	CCDS70.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	4.577|4.577	0.107208|0.107208	0.08780|0.08780	.|.	.|.	ENSG00000187017|ENSG00000187017	ENST00000377828;ENST00000416731|ENST00000434576	T;D|.	0.82803|.	-0.1;-1.65|.	4.61|4.61	4.61|4.61	0.57282|0.57282	.|.	0.745694|.	0.13365|.	N|.	0.393397|.	T|T	0.38746|0.38746	0.1052|0.1052	L|L	0.31294|0.31294	0.92|0.92	0.31964|0.31964	N|N	0.608001|0.608001	P;B|.	0.44241|.	0.829;0.004|.	B;B|.	0.40864|.	0.342;0.006|.	T|T	0.45891|0.45891	-0.9230|-0.9230	10|5	0.13108|.	T|.	0.6|.	-25.3007|-25.3007	7.7898|7.7898	0.29114|0.29114	0.9056:0.0:0.0944:0.0|0.9056:0.0:0.0944:0.0	.|.	161;727|.	B1AK53-2;B1AK53|.	.;ESPN_HUMAN|.	A|C	727;161|70	ENSP00000367059:T727A;ENSP00000399239:T161A|.	ENSP00000367059:T727A|.	T|Y	+|+	1|2	0|0	ESPN|ESPN	6434597|6434597	0.938000|0.938000	0.31826|0.31826	1.000000|1.000000	0.80357|0.80357	0.183000|0.183000	0.23260|0.23260	3.684000|3.684000	0.54671|0.54671	1.943000|1.943000	0.56356|0.56356	0.402000|0.402000	0.26972|0.26972	ACT|TAC		0.667	ESPN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000001887.3	NM_031475		G	6512010	A	G	6512010	3	3	655	1	0	0	0	0	1	0	0	0	5256	391	14	3	2217	3	ESPN	1	6512010	Missense_Mutation	SNP	A	TCGA-KN-8418-01A-11D-2310-10		6512010	242738611	1	40614										
PARS2	25973	ucsc.edu	37	chr1	55224826	55224826	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	gctctgcatcttgtcagcagCccttccatgacaccctggca	8	16	3	1			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr1:55224826C>T	ENST00000371279.3	-	2	91	c.9G>A	c.(7-9)ggG>ggA	p.G3G		NM_152268.3	NP_689481.2	Q7L3T8	SYPM_HUMAN	prolyl-tRNA synthetase 2, mitochondrial (putative)	3					gene expression (GO:0010467)|prolyl-tRNA aminoacylation (GO:0006433)|tRNA aminoacylation for protein translation (GO:0006418)	mitochondrion (GO:0005739)	ATP binding (GO:0005524)|proline-tRNA ligase activity (GO:0004827)			breast(1)|endometrium(3)|kidney(2)|lung(4)|ovary(2)|prostate(2)|skin(1)	15					L-Proline(DB00172)	TTGTCAGCAGCCCTTCCATGA	0.572																																																0													18	17	17					1																	55224826		2201	4299	6500	SO:0001819	synonymous_variant	25973			AK025585	CCDS597.1	1p32.2	2011-07-01	2007-02-23		ENSG00000162396	ENSG00000162396	6.1.1.15	"Aminoacyl tRNA synthetases / Class II"	30563	protein-coding gene	gene with protein product	"proline tRNA ligase 2, mitochondrial (putative)"	612036				15779907	Standard	NM_152268		Approved	DKFZp727A071	uc001cxy.3	Q7L3T8	OTTHUMG00000009915	ENST00000371279.3:c.9G>A	1.37:g.55224826C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0W4|Q9H6S5|Q9UFT1	Silent	SNP	ENST00000371279.3	37	CCDS597.1																																																																																				0.572	PARS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000027436.1	NM_152268		T	55224826	C	T	55224826	2	4	655	1	0	0	0	0	0	0	0	1	11474	726	26	2		2	PARS2	1	55224826	Silent	SNP	C	TCGA-KN-8418-01A-11D-2310-10	48712816	55224826	194025795	2	40615										
AMPD2	271	broad.mit.edu	37	chr1	110169839	110169839	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	gctggagcagcacccgtatgAgcactgtgagccaagcacca	12	13	0	2			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr1:110169839A>G	ENST00000256578.3	+	7	1283	c.923A>G	c.(922-924)gAg>gGg	p.E308G	AMPD2_ENST00000528667.1_Missense_Mutation_p.E308G|AMPD2_ENST00000526301.1_3'UTR|AMPD2_ENST00000528454.1_Missense_Mutation_p.E190G|RP5-1160K1.6_ENST00000369843.3_RNA|AMPD2_ENST00000393688.3_Missense_Mutation_p.E189G|AMPD2_ENST00000342115.4_Missense_Mutation_p.E227G|AMPD2_ENST00000358729.4_Missense_Mutation_p.E233G	NM_004037.7	NP_004028.3	Q01433	AMPD2_HUMAN	adenosine monophosphate deaminase 2	308					cell death (GO:0008219)|cyclic purine nucleotide metabolic process (GO:0052652)|energy homeostasis (GO:0097009)|IMP biosynthetic process (GO:0006188)|IMP salvage (GO:0032264)|nucleobase-containing small molecule metabolic process (GO:0055086)|purine nucleobase metabolic process (GO:0006144)|purine-containing compound salvage (GO:0043101)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	AMP deaminase activity (GO:0003876)|metal ion binding (GO:0046872)			breast(1)|large_intestine(3)|ovary(2)|skin(1)	7		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0425)|all cancers(265;0.0884)|Colorectal(144;0.109)|Epithelial(280;0.111)|LUSC - Lung squamous cell carcinoma(189;0.228)		CACCCGTATGAGCACTGTGAG	0.662																																																0													81	88	86					1																	110169839		2203	4300	6503	SO:0001583	missense	271			S47833	CCDS804.1, CCDS805.1, CCDS30796.1, CCDS58016.1	1p13.3	2014-03-03	2010-02-10		ENSG00000116337	ENSG00000116337	3.5.4.6		469	protein-coding gene	gene with protein product	"AMPD isoform L"	102771	"adenosine monophosphate deaminase 2 (isoform L)"			1400401, 24482476	Standard	NM_004037		Approved	SPG63	uc009wfh.2	Q01433	OTTHUMG00000011649	ENST00000256578.3:c.923A>G	1.37:g.110169839A>G	ENSP00000256578:p.Glu308Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DK50|B4DZI5|E9PNG0|Q14856|Q14857|Q16686|Q16687|Q16688|Q16729|Q5T693|Q5T695|Q96IA1|Q9UDX8|Q9UDX9|Q9UMU4	Missense_Mutation	SNP	ENST00000256578.3	37	CCDS805.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	16.18|16.18	3.048861|3.048861	0.55110|0.55110	.|.	.|.	ENSG00000116337|ENSG00000116337	ENST00000342115;ENST00000528667;ENST00000256578;ENST00000358729;ENST00000528454;ENST00000393688|ENST00000369840	D;D;D;D;D;D|.	0.83419|.	-1.72;-1.72;-1.72;-1.72;-1.72;-1.72|.	4.71|4.71	4.71|4.71	0.59529|0.59529	.|.	0.129125|.	0.51477|.	D|.	0.000096|.	T|.	0.45677|.	0.1354|.	L|L	0.40543|0.40543	1.245|1.245	0.49915|0.49915	D|D	0.999834|0.999834	P;B;B;B|.	0.35908|.	0.527;0.001;0.001;0.31|.	B;B;B;B|.	0.32624|.	0.149;0.003;0.002;0.084|.	T|.	0.43180|.	-0.9407|.	10|.	0.36615|.	T|.	0.2|.	-32.0982|-32.0982	13.3042|13.3042	0.60342|0.60342	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	233;189;308;227|.	Q01433-4;Q01433-3;Q01433;Q01433-2|.	.;.;AMPD2_HUMAN;.|.	G|W	227;308;308;233;190;189|278	ENSP00000345498:E227G;ENSP00000436541:E308G;ENSP00000256578:E308G;ENSP00000351573:E233G;ENSP00000437164:E190G;ENSP00000377292:E189G|.	ENSP00000256578:E308G|.	E|X	+|+	2|3	0|0	AMPD2|AMPD2	109971362|109971362	1.000000|1.000000	0.71417|0.71417	0.994000|0.994000	0.49952|0.49952	0.910000|0.910000	0.53928|0.53928	5.672000|5.672000	0.68102|0.68102	1.974000|1.974000	0.57490|0.57490	0.379000|0.379000	0.24179|0.24179	GAG|TGA		0.662	AMPD2-011	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000390615.1			G	110169839	A	G	110169839	3	3	655	1	0	0	0	0	1	0	0	0	586	304	11	3	990	3	AMPD2	1	110169839	Missense_Mutation	SNP	A	TCGA-KN-8418-01A-11D-2310-10	54945013	110169839	139080782	3	40616										
PRG4	10216	bcgsc.ca	37	chr1	186276175	186276175	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	ctgcacccaccacccccaagAagcctgccccaactaccccc	4	24	0	1	rs140988757	byFrequency	TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr1:186276175A>G	ENST00000445192.2	+	7	1369	c.1324A>G	c.(1324-1326)Aag>Gag	p.K442E	PRG4_ENST00000367483.4_Missense_Mutation_p.K401E|PRG4_ENST00000367486.3_Missense_Mutation_p.K399E|PRG4_ENST00000367485.4_Missense_Mutation_p.K349E|PRG4_ENST00000367484.3_Intron	NM_005807.3	NP_005798.2	Q92954	PRG4_HUMAN	proteoglycan 4	442	59 X 8 AA repeats of K-X-P-X-P-T-T-X.				cell proliferation (GO:0008283)|hematopoietic stem cell proliferation (GO:0071425)|immune response (GO:0006955)|negative regulation of interleukin-6 biosynthetic process (GO:0045409)|regulation of cell proliferation (GO:0042127)	extracellular space (GO:0005615)	polysaccharide binding (GO:0030247)|scavenger receptor activity (GO:0005044)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(12)|lung(33)|prostate(7)|skin(9)|upper_aerodigestive_tract(2)|urinary_tract(1)	102						CACCCCCAAGAAGCCTGCCCC	0.657													-|||	20	0.00399361	0.0144	0.0014	5008	,	,		8466	0.0		0.0	False		,,,				2504	0.0															0													75	83	80					1																	186276175		2203	4296	6499	SO:0001583	missense	10216			U70136	CCDS1369.1, CCDS44287.1, CCDS44288.1	1q25-q31	2008-07-18	2004-11-15		ENSG00000116690	ENSG00000116690			9364	protein-coding gene	gene with protein product	"lubricin", "megakaryocyte stimulating factor", "articular superficial zone protein", "Jacobs camptodactyly-arthropathy-pericarditis syndrome", "camptodactyly, arthropathy, coxa vara, pericarditis syndrome", "bG174L6.2 (MSF: megakaryocyte stimulating factor )"	604283	"proteoglycan 4, (megakaryocyte stimulating factor, articular superficial zone protein, camptodactyly, arthropathy, coxa vara, pericarditis syndrome)"	CACP		10545950, 9920774	Standard	NM_005807		Approved	JCAP, SZP, MSF, HAPO, bG174L6.2, FLJ32635	uc001gru.4	Q92954	OTTHUMG00000035574	ENST00000445192.2:c.1324A>G	1.37:g.186276175A>G	ENSP00000399679:p.Lys442Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6DNC4|Q6DNC5|Q6ZMZ5|Q9BX49	Missense_Mutation	SNP	ENST00000445192.2	37	CCDS1369.1	.	.	.	.	.	.	.	.	.	.	-	6.561	0.471796	0.12461	.	.	ENSG00000116690	ENST00000367486;ENST00000367482;ENST00000367483;ENST00000367485;ENST00000445192	T;T;T;T	0.04809	3.55;3.66;3.57;3.67	3.62	-0.972	0.10300	.	428.404000	0.00941	N	0.002827	T	0.01421	0.0046	N	0.00332	-1.63	0.09310	N	0.999999	B;B;B;B	0.02656	0.0;0.0;0.0;0.0	B;B;B;B	0.04013	0.001;0.001;0.0;0.001	T	0.42548	-0.9445	9	.	.	.	.	5.2924	0.15735	0.3354:0.2617:0.403:0.0	.	308;349;442;401	Q92954-4;Q92954-3;Q92954;Q92954-2	.;.;PRG4_HUMAN;.	E	399;308;401;349;442	ENSP00000356456:K399E;ENSP00000356453:K401E;ENSP00000356455:K349E;ENSP00000399679:K442E	.	K	+	1	0	PRG4	184542798	.	.	0.001000	0.08648	0.010000	0.07245	.	.	-0.119000	0.11830	-0.386000	0.06593	AAG		0.657	PRG4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000086346.1	NM_005807		G	186276175	A	G	186276175	3	3	655	1	0	0	0	0	1	0	0	0	12491	247	9	3	1346	3	PRG4	1	186276175	Missense_Mutation	SNP	A	TCGA-KN-8418-01A-11D-2310-10	76106336	186276175	62974446	4	40617										
FBXO41	150726	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	73493739	73493739	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	ggagctcctcaatgaactgcTgcagccgcagcttggcgctg	13	13	1	1			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr2:73493739T>G	ENST00000521871.1	-	3	1392	c.977A>C	c.(976-978)cAg>cCg	p.Q326P	FBXO41_ENST00000295133.5_Missense_Mutation_p.Q387P|FBXO41_ENST00000520530.2_Missense_Mutation_p.Q326P			Q8TF61	FBX41_HUMAN	F-box protein 41	326										breast(2)|central_nervous_system(1)|endometrium(1)|lung(6)|pancreas(1)|prostate(1)|skin(1)	13						AATGAACTGCTGCAGCCGCAG	0.677																																																0													26	30	29					2																	73493739		2012	4173	6185	SO:0001583	missense	150726			AB075820	CCDS46337.1, CCDS46337.2	2p13.2	2004-08-24				ENSG00000163013		"F-boxes /  "other""	29409	protein-coding gene	gene with protein product		609108				11853319	Standard	NM_001080410		Approved	KIAA1940, Fbx41	uc021vjh.1	Q8TF61		ENST00000521871.1:c.977A>C	2.37:g.73493739T>G	ENSP00000428646:p.Gln326Pro	Somatic		WXS	Illumina HiSeq	Phase_I	G3V0Z7|Q2M1V8	Missense_Mutation	SNP	ENST00000521871.1	37	CCDS46337.2	.	.	.	.	.	.	.	.	.	.	T	18.00	3.525616	0.64860	.	.	ENSG00000163013	ENST00000295133;ENST00000521871;ENST00000520530	T;T	0.39997	1.05;1.05	5.17	5.17	0.71159	.	0.198803	0.44902	D	0.000409	T	0.60676	0.2287	L	0.61218	1.895	0.80722	D	1	D	0.65815	0.995	D	0.72982	0.979	T	0.63024	-0.6729	10	0.56958	D	0.05	.	13.8113	0.63266	0.0:0.0:0.0:1.0	.	326	Q8TF61	FBX41_HUMAN	P	387;326;387	ENSP00000295133:Q387P;ENSP00000428646:Q326P	ENSP00000295133:Q387P	Q	-	2	0	FBXO41	73347247	1.000000	0.71417	1.000000	0.80357	0.925000	0.55904	6.001000	0.70685	1.948000	0.56530	0.372000	0.22366	CAG		0.677	FBXO41-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377381.1			G	73493739	T	G	73493739	3	3	655	1	0	0	0	0	1	0	0	0	5757	1580	55	5	1694	5	FBXO41	2	73493739	Missense_Mutation	SNP	T	TCGA-KN-8418-01A-11D-2310-10		73493739	169705634	5	40618										
TMEM127	55654	broad.mit.edu	37	chr2	96920609	96920609	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	aggcatagcgacgagtgatcTtcagagcaggatgcttcggc	14	9	2	2	rs377430566		TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr2:96920609T>C	ENST00000258439.3	-	3	627	c.371A>G	c.(370-372)aAg>aGg	p.K124R	TMEM127_ENST00000435268.1_Missense_Mutation_p.K40R|TMEM127_ENST00000432959.1_Missense_Mutation_p.K124R	NM_001193304.2|NM_017849.3	NP_001180233.1|NP_060319.1	O75204	TM127_HUMAN	transmembrane protein 127	124					negative regulation of cell proliferation (GO:0008285)|negative regulation of TOR signaling (GO:0032007)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				endometrium(1)|large_intestine(1)|lung(1)|prostate(1)|stomach(1)	5						ACGAGTGATCTTCAGAGCAGG	0.582																																																0								T	ARG/LYS,ARG/LYS	1,4405	2.1+/-5.4	0,1,2202	158	152	154		371,371	5.9	1	2		154	0,8600		0,0,4300	no	missense,missense	TMEM127	NM_001193304.2,NM_017849.3	26,26	0,1,6502	CC,CT,TT		0.0,0.0227,0.0077	probably-damaging,probably-damaging	124/239,124/239	96920609	1,13005	2203	4300	6503	SO:0001583	missense	55654			AK000514	CCDS2018.1	2q11.2	2014-09-17			ENSG00000135956	ENSG00000135956			26038	protein-coding gene	gene with protein product		613403				10493829	Standard	NM_017849		Approved	FLJ20507, FLJ22257	uc002svr.3	O75204	OTTHUMG00000130454	ENST00000258439.3:c.371A>G	2.37:g.96920609T>C	ENSP00000258439:p.Lys124Arg	Somatic		WXS	Illumina HiSeq	Phase_I	D3DXH0	Missense_Mutation	SNP	ENST00000258439.3	37	CCDS2018.1	.	.	.	.	.	.	.	.	.	.	T	18.42	3.619625	0.66787	2.27E-4	0.0	ENSG00000135956	ENST00000258439;ENST00000432959;ENST00000435268	D;D;D	0.83506	-1.73;-1.73;-1.73	5.91	5.91	0.95273	.	0.000000	0.85682	D	0.000000	T	0.78792	0.4339	N	0.03608	-0.345	0.80722	D	1	D	0.56035	0.974	D	0.67725	0.953	T	0.78028	-0.2364	10	0.16420	T	0.52	-27.9347	15.3262	0.74164	0.0:0.0:0.0:1.0	.	124	O75204	TM127_HUMAN	R	124;124;40	ENSP00000258439:K124R;ENSP00000416660:K124R;ENSP00000411810:K40R	ENSP00000258439:K124R	K	-	2	0	TMEM127	96284336	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.589000	0.82641	2.269000	0.75478	0.533000	0.62120	AAG		0.582	TMEM127-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252845.3	NM_017849		C	96920609	T	C	96920609	3	2	655	1	0	0	0	0	1	0	0	0	16052	1609	56	3	353	3	TMEM127	2	96920609	Missense_Mutation	SNP	T	TCGA-KN-8418-01A-11D-2310-10	23426870	96920609	146278764	6	40619										
INPP4A	3631	broad.mit.edu;mdanderson.org	37	chr2	99163146	99163146	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	aagctgcacaaatttgaagaGaccaagaaacagtaagtagc	9	7	0	3			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr2:99163146G>A	ENST00000523221.1	+	11	1152	c.1152G>A	c.(1150-1152)gaG>gaA	p.E384E	INPP4A_ENST00000409463.1_Intron|INPP4A_ENST00000074304.5_Silent_p.E384E|INPP4A_ENST00000409540.3_Silent_p.E384E|INPP4A_ENST00000545415.1_Silent_p.E384E|INPP4A_ENST00000409851.3_Silent_p.E384E|INPP4A_ENST00000409016.4_Silent_p.E384E			Q96PE3	INP4A_HUMAN	inositol polyphosphate-4-phosphatase, type I, 107kDa	384					inositol phosphate metabolic process (GO:0043647)|phosphatidylinositol biosynthetic process (GO:0006661)|phospholipid metabolic process (GO:0006644)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity (GO:0016316)|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity (GO:0034597)			breast(1)|endometrium(9)|kidney(2)|large_intestine(5)|lung(16)|ovary(2)|prostate(4)|upper_aerodigestive_tract(4)	43						AATTTGAAGAGACCAAGAAAC	0.438																																																0													55	56	56					2																	99163146		1874	4115	5989	SO:0001819	synonymous_variant	3631			U26398	CCDS46369.1, CCDS46370.1, CCDS46371.1, CCDS46372.1	2q11.2	2008-05-27	2002-08-29		ENSG00000040933	ENSG00000040933			6074	protein-coding gene	gene with protein product		600916	"inositol polyphosphate-4-phosphatase, type I, 107kD"	INPP4		7608176, 9295334	Standard	NM_004027		Approved		uc002syy.3	Q96PE3	OTTHUMG00000153106	ENST00000523221.1:c.1152G>A	2.37:g.99163146G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O15326|Q13187|Q53TD8|Q8TC02	Silent	SNP	ENST00000523221.1	37	CCDS46369.1																																																																																				0.438	INPP4A-009	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000376095.1	NM_001566		A	99163146	G	A	99163146	2	1	655	1	0	0	0	0	0	0	0	1	7759	933	33	2		2	INPP4A	2	99163146	Silent	SNP	G	TCGA-KN-8418-01A-11D-2310-10	2242537	99163146	144036227	7	40620										
FOXD4L1	200350	mdanderson.org	37	chr2	114257162	114257162	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	gcagccggcaaagcccccctActcgtacatcgcgctcatca	8	18	2	0	rs201655302		TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr2:114257162A>C	ENST00000306507.5	+	1	502	c.329A>C	c.(328-330)tAc>tCc	p.Y110S		NM_012184.4	NP_036316.1	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	110					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(10)|prostate(1)|skin(2)	26						AAGCCCCCCTACTCGTACATC	0.662																																																0													33	45	41					2																	114257162		2197	4271	6468	SO:0001583	missense	200350			AF452723	CCDS2117.1	2q14.1	2008-02-05			ENSG00000184492	ENSG00000184492			18521	protein-coding gene	gene with protein product		611084				12421752, 15233989	Standard	NM_012184		Approved	FOXD5	uc002tjw.4	Q9NU39	OTTHUMG00000131359	ENST00000306507.5:c.329A>C	2.37:g.114257162A>C	ENSP00000302756:p.Tyr110Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWN1|B9EGF3	Missense_Mutation	SNP	ENST00000306507.5	37	CCDS2117.1	.	.	.	.	.	.	.	.	.	.	.	16.46	3.128625	0.56721	.	.	ENSG00000184492	ENST00000306507	D	0.95980	-3.87	2.85	2.85	0.33270	Winged helix-turn-helix transcription repressor DNA-binding (1);Transcription factor, fork head (4);Transcription factor, fork head, conserved site (1);	0.000000	0.31404	U	0.007714	D	0.96222	0.8768	H	0.96048	3.76	0.58432	D	0.999999	B	0.27068	0.167	B	0.30716	0.119	D	0.95549	0.8619	10	0.62326	D	0.03	.	9.1315	0.36848	1.0:0.0:0.0:0.0	.	110	Q9NU39	FX4L1_HUMAN	S	110	ENSP00000302756:Y110S	ENSP00000302756:Y110S	Y	+	2	0	FOXD4L1	113973632	1.000000	0.71417	1.000000	0.80357	0.689000	0.40095	5.507000	0.66999	1.309000	0.44985	0.155000	0.16302	TAC		0.662	FOXD4L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254148.1	NM_012184		C	114257162	A	C	114257162	3	2	655	1	0	0	0	0	1	0	0	0	6007	391	14	5	331	5	FOXD4L1	2	114257162	Missense_Mutation	SNP	A	TCGA-KN-8418-01A-11D-2310-10	15094016	114257162	128942211	8	40621										
SCN3A	6328	ucsc.edu	37	chr2	166032778	166032778	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	tggtttgttctcatcatcatTatcttgttcctttttgggct	7	8	4	0	rs34236036|rs72471101	byFrequency	TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr2:166032778T>C	ENST00000360093.3	-	3	618	c.127A>G	c.(127-129)Aat>Gat	p.N43D	SCN3A_ENST00000283254.7_Missense_Mutation_p.N43D|SCN3A_ENST00000409101.3_Missense_Mutation_p.N43D	NM_001081677.1	NP_001075146.1	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha subunit	43			Missing. {ECO:0000269|PubMed:12610651}.		membrane depolarization during action potential (GO:0086010)|neuronal action potential (GO:0019228)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)			NS(1)|breast(7)|central_nervous_system(2)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(19)|liver(2)|lung(47)|ovary(6)|prostate(3)|skin(10)|upper_aerodigestive_tract(4)|urinary_tract(3)	120					Lacosamide(DB06218)|Valproic Acid(DB00313)|Zonisamide(DB00909)	TCATCATCATTATCTTGTTCC	0.428																																																0													217	198	204					2																	166032778		2201	4280	6481	SO:0001583	missense	6328			AF035685	CCDS33312.1, CCDS46440.1	2q24	2012-02-26	2007-01-23		ENSG00000153253	ENSG00000153253		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10590	protein-coding gene	gene with protein product		182391	"sodium channel, voltage-gated, type III, alpha polypeptide"			9589372, 16382098	Standard	NM_001081676		Approved	Nav1.3	uc002ucx.3	Q9NY46	OTTHUMG00000044171	ENST00000360093.3:c.127A>G	2.37:g.166032778T>C	ENSP00000353206:p.Asn43Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q16142|Q53SX0|Q9BZB3|Q9C006|Q9NYK2|Q9P2J1|Q9UPD1|Q9Y6P4	Missense_Mutation	SNP	ENST00000360093.3	37		.	.	.	.	.	.	.	.	.	.	T	2.695	-0.272189	0.05716	.	.	ENSG00000153253	ENST00000360093;ENST00000283254;ENST00000409101;ENST00000440431;ENST00000453007	D;D;D;D;T	0.95656	-3.77;-3.77;-3.72;-3.6;8.06	4.68	3.34	0.38264	.	0.615244	0.15295	N	0.269958	T	0.73345	0.3575	N	0.00122	-2.065	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.08055	0.0;0.003;0.0	T	0.73770	-0.3878	10	0.06236	T	0.91	.	3.2823	0.06920	0.0:0.3988:0.0:0.6012	.	43;43;43	Q9NY46-2;Q9NY46-4;Q9NY46-3	.;.;.	D	43	ENSP00000353206:N43D;ENSP00000283254:N43D;ENSP00000386726:N43D;ENSP00000403348:N43D;ENSP00000391569:N43D	ENSP00000283254:N43D	N	-	1	0	SCN3A	165741024	0.797000	0.28877	0.992000	0.48379	0.893000	0.52053	1.361000	0.34136	1.873000	0.54277	0.260000	0.18958	AAT		0.428	SCN3A-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_006922		C	166032778	T	C	166032778	3	2	655	1	0	0	0	0	1	0	0	0	13931	1754	61	3	6075	3	SCN3A	2	166032778	Missense_Mutation	SNP	T	TCGA-KN-8418-01A-11D-2310-10	51775616	166032778	77166595	9	40622										
TUBA4A	7277	broad.mit.edu	37	chr2	220115802	220115802	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	gcagatgtcatagattgcttCgttgtccaccatgaaggcac	10	10	1	3			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr2:220115802C>T	ENST00000248437.4	-	4	792	c.619G>A	c.(619-621)Gaa>Aaa	p.E207K	TUBA4A_ENST00000392088.2_Missense_Mutation_p.E192K|TUBA4B_ENST00000490341.1_RNA|TUBA4A_ENST00000498660.1_5'UTR	NM_006000.2	NP_005991.1	P68366	TBA4A_HUMAN	tubulin, alpha 4a	207					'de novo' posttranslational protein folding (GO:0051084)|blood coagulation (GO:0007596)|cellular protein metabolic process (GO:0044267)|G2/M transition of mitotic cell cycle (GO:0000086)|microtubule-based process (GO:0007017)|mitotic cell cycle (GO:0000278)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|protein folding (GO:0006457)|protein polymerization (GO:0051258)	cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(6)|ovary(3)|prostate(1)|upper_aerodigestive_tract(1)	20		Renal(207;0.0474)		Epithelial(149;1.16e-06)|all cancers(144;0.000191)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)	Cabazitaxel(DB06772)|Podofilox(DB01179)|Vincristine(DB00541)	TAGATTGCTTCGTTGTCCACC	0.562																																																0													117	115	116					2																	220115802		2203	4300	6503	SO:0001583	missense	7277			AK054731	CCDS2438.1, CCDS63131.1	2q36.1	2012-10-02	2007-02-12	2007-02-12	ENSG00000127824	ENSG00000127824		"Tubulins"	12407	protein-coding gene	gene with protein product		191110	"tubulin, alpha 1 (testis specific)", "tubulin, alpha 1"	TUBA1		3785200	Standard	NM_006000		Approved	FLJ30169, H2-ALPHA	uc002vkt.1	P68366	OTTHUMG00000133126	ENST00000248437.4:c.619G>A	2.37:g.220115802C>T	ENSP00000248437:p.Glu207Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUB1|B3KNQ6|P05215	Missense_Mutation	SNP	ENST00000248437.4	37	CCDS2438.1	.	.	.	.	.	.	.	.	.	.	C	17.18	3.323188	0.60634	.	.	ENSG00000127824	ENST00000248437;ENST00000392088;ENST00000398989	T;T;T	0.70631	-0.5;-0.5;-0.5	5.44	5.44	0.79542	Tubulin/FtsZ, GTPase domain (4);	0.000000	0.85682	D	0.000000	D	0.83348	0.5235	H	0.94847	3.59	0.80722	D	1	P	0.43477	0.808	P	0.44946	0.465	D	0.87852	0.2658	10	0.87932	D	0	.	19.4628	0.94924	0.0:1.0:0.0:0.0	.	207	P68366	TBA4A_HUMAN	K	207;192;54	ENSP00000248437:E207K;ENSP00000375938:E192K;ENSP00000396212:E54K	ENSP00000248437:E207K	E	-	1	0	TUBA4A	219824046	1.000000	0.71417	0.982000	0.44146	0.712000	0.41017	7.538000	0.82048	2.837000	0.97791	0.655000	0.94253	GAA		0.562	TUBA4A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256816.3	NM_006000		T	220115802	C	T	220115802	3	4	655	1	0	0	0	0	1	0	0	0	16761	893	31	1	731	1	TUBA4A	2	220115802	Missense_Mutation	SNP	C	TCGA-KN-8418-01A-11D-2310-10	54083024	220115802	23083571	10	40623										
SPEG	10290	hgsc.bcm.edu;ucsc.edu	37	chr2	220354242	220354242	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	cctagccaggccttgtcctcGctcaaggctgtgggtccacc	11	16	1	0	rs148685205	byFrequency	TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr2:220354242G>A	ENST00000312358.7	+	36	8634	c.8502G>A	c.(8500-8502)tcG>tcA	p.S2834S	SPEG_ENST00000485813.1_3'UTR|AC053503.11_ENST00000429882.1_RNA	NM_005876.4	NP_005867.3	Q15772	SPEG_HUMAN	SPEG complex locus	2834	Pro-rich.				cardiac muscle cell development (GO:0055013)|in utero embryonic development (GO:0001701)|muscle organ development (GO:0007517)|negative regulation of cell proliferation (GO:0008285)|respiratory system development (GO:0060541)	nucleus (GO:0005634)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|central_nervous_system(3)|endometrium(10)|kidney(2)|large_intestine(9)|lung(42)|ovary(5)|pancreas(1)|prostate(8)|skin(1)|stomach(9)|upper_aerodigestive_tract(4)|urinary_tract(4)	100		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		CCTTGTCCTCGCTCAAGGCTG	0.682													G|||	11	0.00219649	0.0008	0.0	5008	,	,		9136	0.0079		0.001	False		,,,				2504	0.001															0								G		1,3893		0,1,1946	43	48	46		8502	-10.1	0.8	2	dbSNP_134	46	0,8246		0,0,4123	no	coding-synonymous	SPEG	NM_005876.4		0,1,6069	AA,AG,GG		0.0,0.0257,0.0082		2834/3268	220354242	1,12139	1947	4123	6070	SO:0001819	synonymous_variant	10290			BC006346	CCDS42824.1, CCDS54432.1	2q35	2013-01-11	2006-04-27	2006-04-27	ENSG00000072195	ENSG00000072195		"Immunoglobulin superfamily / I-set domain containing"	16901	protein-coding gene	gene with protein product		615950	"aortic preferentially expressed gene 1"	APEG1		8663449, 10973969	Standard	NM_005876		Approved	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG	uc010fwg.3	Q15772	OTTHUMG00000058925	ENST00000312358.7:c.8502G>A	2.37:g.220354242G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0G6|A8MRU0|Q27J74|Q695L1|Q6FGA6|Q6ZQW1|Q6ZTL8|Q9P2P9	Silent	SNP	ENST00000312358.7	37	CCDS42824.1																																																																																				0.682	SPEG-004	NOVEL	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130252.2	NM_005876		A	220354242	G	A	220354242	2	1	655	1	0	0	0	0	0	0	0	1	15048	1074	38	1		1	SPEG	2	220354242	Silent	SNP	G	TCGA-KN-8418-01A-11D-2310-10	238440	220354242	22845131	11	40624										
SEPT2	4735	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr2	242283310	242283310	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	ctgaagctgagaaccatgctCatgtaagacatttggtgtgt	11	7	1	3			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr2:242283310C>A	ENST00000391973.2	+	9	1368	c.840C>A	c.(838-840)ctC>ctA	p.L280L	SEPT2_ENST00000391971.2_Silent_p.L280L|SEPT2_ENST00000402092.2_Silent_p.L280L|SEPT2_ENST00000407971.1_Silent_p.L240L|SEPT2_ENST00000360051.3_Silent_p.L280L|SEPT2_ENST00000401990.1_Silent_p.L290L	NM_006155.1	NP_006146.1	Q15019	SEPT2_HUMAN	septin 2	280	Septin-type G.				cilium assembly (GO:0042384)|mitotic nuclear division (GO:0007067)|neuron projection development (GO:0031175)|regulation of L-glutamate transport (GO:0002036)|regulation of protein localization (GO:0032880)|smoothened signaling pathway (GO:0007224)	actin cytoskeleton (GO:0015629)|cell surface (GO:0009986)|ciliary membrane (GO:0060170)|ciliary transition zone (GO:0035869)|cytoplasm (GO:0005737)|exocyst (GO:0000145)|extracellular vesicular exosome (GO:0070062)|kinetochore (GO:0000776)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|septin complex (GO:0031105)|synapse (GO:0045202)	enzyme regulator activity (GO:0030234)|GTP binding (GO:0005525)			central_nervous_system(2)|endometrium(1)|large_intestine(4)|lung(3)|skin(2)	12		all_cancers(19;7.62e-41)|all_epithelial(40;1.71e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.24e-34)|all cancers(36;7.15e-32)|OV - Ovarian serous cystadenocarcinoma(60;1.21e-15)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;3.16e-06)|Lung(119;7.81e-05)|LUSC - Lung squamous cell carcinoma(224;0.000742)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0889)		GAACCATGCTCATGTAAGACA	0.507																																																0													168	160	163					2																	242283310		2203	4300	6503	SO:0001819	synonymous_variant	4735			D28540	CCDS2548.1, CCDS63195.1, CCDS74682.1	2q37.3	2013-01-21	2005-01-11	2005-01-12	ENSG00000168385	ENSG00000168385		"Septins"	7729	protein-coding gene	gene with protein product		601506	"neural precursor cell expressed, developmentally down-regulated 5"	DIFF6, NEDD5		8697812	Standard	XM_005247011		Approved	KIAA0158, hNedd5, Pnutl3	uc002wbd.3	Q15019	OTTHUMG00000133394	ENST00000391973.2:c.840C>A	2.37:g.242283310C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DGE8|Q14132|Q53QU3|Q8IUK9|Q96CB0	Silent	SNP	ENST00000391973.2	37	CCDS2548.1																																																																																				0.507	SEPT2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323177.3	NM_006155		A	242283310	C	A	242283310	2	1	655	1	0	0	0	0	0	0	0	1	14077	813	29	4		4	SEPT2	2	242283310	Silent	SNP	C	TCGA-KN-8418-01A-11D-2310-10	21929068	242283310	916063	12	40625										
RFT1	91869	broad.mit.edu	37	chr3	53139767	53139767	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	aaactttcctctattggctgGaaaattaatctggccacaag	7	9	2	0			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr3:53139767G>A	ENST00000296292.3	-	9	940	c.879C>T	c.(877-879)ttC>ttT	p.F293F	RFT1_ENST00000394738.3_Silent_p.F254F	NM_052859.3	NP_443091.1	Q96AA3	RFT1_HUMAN	RFT1 homolog (S. cerevisiae)	293					carbohydrate transport (GO:0008643)|cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)	integral component of membrane (GO:0016021)	lipid transporter activity (GO:0005319)			NS(1)|breast(1)|kidney(1)|lung(5)|skin(2)|urinary_tract(2)	12				BRCA - Breast invasive adenocarcinoma(193;6.98e-05)|Kidney(197;0.0017)|KIRC - Kidney renal clear cell carcinoma(197;0.00192)|OV - Ovarian serous cystadenocarcinoma(275;0.104)		CTATTGGCTGGAAAATTAATC	0.358																																																0													54	60	58					3																	53139767		2203	4300	6503	SO:0001819	synonymous_variant	91869			AJ318099	CCDS2869.1	3p21.1	2014-02-06	2005-01-26		ENSG00000163933	ENSG00000163933			30220	protein-coding gene	gene with protein product	"congenital disorder of glycosylation 1N"	611908	"RFT1, requiring fifty three 1 homolog (S. cerevisiae)"			12477932	Standard	NM_052859		Approved	CDG1N	uc003dgj.3	Q96AA3	OTTHUMG00000074035	ENST00000296292.3:c.879C>T	3.37:g.53139767G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q96J03	Silent	SNP	ENST00000296292.3	37	CCDS2869.1																																																																																				0.358	RFT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157136.2	NM_052859		A	53139767	G	A	53139767	2	1	655	1	0	0	0	0	0	0	0	1	13270	1165	41	2		2	RFT1	3	53139767	Silent	SNP	G	TCGA-KN-8418-01A-11D-2310-10		53139767	144882663	13	40626										
ALCAM	214	broad.mit.edu	37	chr3	105269023	105269023	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	ttatagtaaaattatcatttCccctgaagagaatgttacat	5	6	1	2			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr3:105269023C>T	ENST00000306107.5	+	12	1927	c.1427C>T	c.(1426-1428)tCc>tTc	p.S476F	ALCAM_ENST00000389927.4_Missense_Mutation_p.S198F|ALCAM_ENST00000486979.2_Missense_Mutation_p.S425F|ALCAM_ENST00000472644.2_Missense_Mutation_p.S476F	NM_001627.3	NP_001618.2	Q13740	CD166_HUMAN	activated leukocyte cell adhesion molecule	476	Ig-like C2-type 3.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|motor neuron axon guidance (GO:0008045)|signal transduction (GO:0007165)	axon (GO:0030424)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)	receptor binding (GO:0005102)			breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(14)|ovary(2)|prostate(1)|skin(2)|urinary_tract(1)	28						ATTATCATTTCCCCTGAAGAG	0.343																																																0													91	110	104					3																	105269023		2201	4294	6495	SO:0001583	missense	214			AK054632	CCDS33810.1, CCDS58841.1	3q13.1	2013-01-29	2002-08-08		ENSG00000170017	ENSG00000170017		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	400	protein-coding gene	gene with protein product		601662	"activated leucocyte cell adhesion molecule"			7760007	Standard	NM_001627		Approved	CD166, MEMD	uc003dvx.3	Q13740	OTTHUMG00000159192	ENST00000306107.5:c.1427C>T	3.37:g.105269023C>T	ENSP00000305988:p.Ser476Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNS3|B4DTU0|O60892|Q1HGM8|Q1HGM9|Q6PEY4|Q6ZS95	Missense_Mutation	SNP	ENST00000306107.5	37	CCDS33810.1	.	.	.	.	.	.	.	.	.	.	C	21.7	4.187352	0.78789	.	.	ENSG00000170017	ENST00000306107;ENST00000472644;ENST00000486979;ENST00000389927	T;T;T;T	0.16324	3.78;3.78;3.78;2.35	5.92	5.92	0.95590	Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.362066	0.33005	N	0.005388	T	0.31104	0.0786	N	0.24115	0.695	0.48288	D	0.999628	D;D;D	0.71674	0.998;0.995;0.995	D;P;D	0.68483	0.958;0.876;0.913	T	0.02958	-1.1089	10	0.66056	D	0.02	-9.5915	20.3343	0.98733	0.0:1.0:0.0:0.0	.	198;476;476	Q6ZS95;B4DTU0;Q13740	.;.;CD166_HUMAN	F	476;476;425;198	ENSP00000305988:S476F;ENSP00000419236:S476F;ENSP00000418213:S425F;ENSP00000374577:S198F	ENSP00000305988:S476F	S	+	2	0	ALCAM	106751713	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.059000	0.64306	2.822000	0.97130	0.650000	0.86243	TCC		0.343	ALCAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353764.1	NM_001627		T	105269023	C	T	105269023	3	4	655	1	0	0	0	0	1	0	0	0	487	855	30	2	1473	2	ALCAM	3	105269023	Missense_Mutation	SNP	C	TCGA-KN-8418-01A-11D-2310-10	52129256	105269023	92753407	14	40627										
PARP14	54625	broad.mit.edu	37	chr3	122433231	122433231	+	Frame_Shift_Del	DEL	G	G	-													0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	cctctgttttgcaggagtgtGaaaaaaaaaattactcatcc							TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr3:122433231delG	ENST00000474629.2	+	12	4221	c.3955delG	c.(3955-3957)gaafs	p.E1319fs		NM_017554.2	NP_060024.2	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	1319	Macro 3. {ECO:0000255|PROSITE- ProRule:PRU00490}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	NAD+ ADP-ribosyltransferase activity (GO:0003950)			NS(2)|breast(5)|cervix(2)|endometrium(7)|kidney(5)|large_intestine(8)|lung(14)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|urinary_tract(1)	50				GBM - Glioblastoma multiforme(114;0.0531)		GCAGGAGTGTGAAAAAAAAAA	0.423																																																0													58	56	57					3																	122433231		1887	4111	5998	SO:0001589	frameshift_variant	54625			AB033094	CCDS46894.1	3q21	2010-02-16			ENSG00000173193	ENSG00000173193		"Poly (ADP-ribose) polymerases"	29232	protein-coding gene	gene with protein product		610028				15273990	Standard	NM_017554		Approved	KIAA1268, pART8	uc003efq.4	Q460N5	OTTHUMG00000159552	ENST00000474629.2:c.3955delG	3.37:g.122433231delG	ENSP00000418194:p.Glu1319fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2H0|Q460N4|Q8J027|Q9H9X9|Q9NV60|Q9ULF2	Frame_Shift_Del	DEL	ENST00000474629.2	37	CCDS46894.1																																																																																				0.423	PARP14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356173.2	NM_017554		-	122433231	G	-	122433231	7	5	655	1	0	1	0	1	0	0	0	0	11465	1291	45	0	4001	0	PARP14	3	122433231	Frame_Shift_Del	DEL	G	TCGA-KN-8418-01A-11D-2310-10	17164208	122433231	75589199	15	40628										
C3orf34	84984	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	196434505	196434505	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	ttcaacctcaatgtcataaaCaaaatttggatcatccttct	3	10	5	0			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr3:196434505C>A	ENST00000399942.4	-	2	598	c.304G>T	c.(304-306)Gtt>Ttt	p.V102F	CEP19_ENST00000409690.3_Missense_Mutation_p.V141F|RNU6-646P_ENST00000364571.1_RNA			Q96LK0	CEP19_HUMAN	centrosomal protein 19kDa	137						centriole (GO:0005814)|ciliary basal body (GO:0036064)|spindle pole (GO:0000922)				NS(1)|breast(2)|kidney(1)|large_intestine(2)|lung(2)|ovary(1)|upper_aerodigestive_tract(1)	10						ATGTCATAAACAAAATTTGGA	0.408																																																0													154	143	147					3																	196434505		1913	4132	6045	SO:0001583	missense	84984			BC007827	CCDS43193.2	3q29	2014-02-20	2011-05-06	2011-05-06	ENSG00000174007	ENSG00000174007			28209	protein-coding gene	gene with protein product		615586	"chromosome 3 open reading frame 34"	C3orf34		21399614	Standard	XM_005269370		Approved	MGC14126	uc011btw.2	Q96LK0	OTTHUMG00000153933	ENST00000399942.4:c.304G>T	3.37:g.196434505C>A	ENSP00000382823:p.Val102Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2RA74|Q96I48	Missense_Mutation	SNP	ENST00000399942.4	37		.	.	.	.	.	.	.	.	.	.	C	20.1	3.932672	0.73442	.	.	ENSG00000174007	ENST00000409690;ENST00000399942	.	.	.	5.66	5.66	0.87406	.	0.112186	0.64402	D	0.000011	T	0.69753	0.3146	M	0.73962	2.25	0.48395	D	0.999649	D	0.56746	0.977	P	0.56648	0.803	T	0.70981	-0.4724	9	0.51188	T	0.08	-19.7616	12.9512	0.58401	0.0:0.8851:0.0:0.1149	.	137	Q96LK0	CEP19_HUMAN	F	141;102	.	ENSP00000382823:V102F	V	-	1	0	CEP19	197918902	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	2.777000	0.47717	2.832000	0.97577	0.655000	0.94253	GTT		0.408	CEP19-002	NOVEL	not_organism_supported|basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000333081.1	NM_032898		A	196434505	C	A	196434505	3	1	655	1	0	0	0	0	1	0	0	0	2226	478	17	4	86	4	C3orf34	3	196434505	Missense_Mutation	SNP	C	TCGA-KN-8418-01A-11D-2310-10	74001274	196434505	1587925	16	40629										
PRKAA1	5562	broad.mit.edu	37	chr5	40775606	40775606	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	gtgtactgatgacctggtacCtggtgagagaaaacattgtc	12	7	0	4			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr5:40775606C>T	ENST00000397128.2	-	3	278		c.e3-1		PRKAA1_ENST00000354209.3_Splice_Site|PRKAA1_ENST00000296800.4_Splice_Site	NM_006251.5|NM_206907.3	NP_006242.5|NP_996790.3	Q13131	AAPK1_HUMAN	protein kinase, AMP-activated, alpha 1 catalytic subunit						activation of MAPK activity (GO:0000187)|autophagy (GO:0006914)|cell cycle arrest (GO:0007050)|cellular response to ethanol (GO:0071361)|cellular response to glucose starvation (GO:0042149)|cellular response to hydrogen peroxide (GO:0070301)|cellular response to hypoxia (GO:0071456)|cellular response to nutrient levels (GO:0031669)|cholesterol biosynthetic process (GO:0006695)|cold acclimation (GO:0009631)|fatty acid biosynthetic process (GO:0006633)|fatty acid homeostasis (GO:0055089)|fatty acid oxidation (GO:0019395)|glucose homeostasis (GO:0042593)|glucose metabolic process (GO:0006006)|insulin receptor signaling pathway (GO:0008286)|lipid biosynthetic process (GO:0008610)|negative regulation of apoptotic process (GO:0043066)|negative regulation of glucose import in response to insulin stimulus (GO:2001274)|negative regulation of glucosylceramide biosynthetic process (GO:0046318)|negative regulation of lipid catabolic process (GO:0050995)|negative regulation of TOR signaling (GO:0032007)|positive regulation of autophagy (GO:0010508)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cholesterol biosynthetic process (GO:0045542)|positive regulation of gene expression (GO:0010628)|positive regulation of glycolytic process (GO:0045821)|protein heterooligomerization (GO:0051291)|protein phosphorylation (GO:0006468)|regulation of circadian rhythm (GO:0042752)|regulation of energy homeostasis (GO:2000505)|regulation of transcription, DNA-templated (GO:0006355)|regulation of vesicle-mediated transport (GO:0060627)|response to activity (GO:0014823)|response to caffeine (GO:0031000)|response to camptothecin (GO:1901563)|response to gamma radiation (GO:0010332)|response to hypoxia (GO:0001666)|response to UV (GO:0009411)|rhythmic process (GO:0048511)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)|Wnt signaling pathway (GO:0016055)	AMP-activated protein kinase complex (GO:0031588)|apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|intracellular (GO:0005622)|nucleus (GO:0005634)	[acetyl-CoA carboxylase] kinase activity (GO:0050405)|[hydroxymethylglutaryl-CoA reductase (NADPH)] kinase activity (GO:0047322)|AMP-activated protein kinase activity (GO:0004679)|ATP binding (GO:0005524)|cAMP-dependent protein kinase activity (GO:0004691)|chromatin binding (GO:0003682)|histone serine kinase activity (GO:0035174)|metal ion binding (GO:0046872)|protein kinase activity (GO:0004672)|tau-protein kinase activity (GO:0050321)			breast(1)	1					Acetylsalicylic acid(DB00945)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)|Phenformin(DB00914)	GACCTGGTACCTGGTGAGAGA	0.353																																																0													105	92	96					5																	40775606		1836	4079	5915	SO:0001630	splice_region_variant	5562				CCDS3932.2, CCDS3933.2	5p13.1	2012-10-03			ENSG00000132356	ENSG00000132356			9376	protein-coding gene	gene with protein product	"AMPK, alpha, 1"	602739				8557660	Standard	XM_006714481		Approved	AMPKa1	uc003jmb.3	Q13131	OTTHUMG00000162269	ENST00000397128.2:c.270-1G>A	5.37:g.40775606C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MTQ6|B2R7E1|O00286|Q5D0E1|Q86VS1|Q9UNQ4	Splice_Site	SNP	ENST00000397128.2	37	CCDS3932.2	.	.	.	.	.	.	.	.	.	.	C	24.0	4.477067	0.84640	.	.	ENSG00000132356	ENST00000397128;ENST00000354209;ENST00000296800	.	.	.	5.17	5.17	0.71159	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	18.2799	0.90096	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	AC008810.1	40811363	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.461000	0.80834	2.391000	0.81399	0.585000	0.79938	.		0.353	PRKAA1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253833.2	NM_006251	Intron	T	40775606	C	T	40775606	5	4	655	1	0	0	0	0	0	0	1	0	12503	695	24	2	1487	2	PRKAA1	5	40775606	Splice_Site	SNP	C	TCGA-KN-8418-01A-11D-2310-10		40775606	140139654	17	40630										
HEATR7B2	133558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr5	41045851	41045851	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	tcagctgaaaaaccaaccttCtcagtggagttattgctgta	8	9	2	1			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr5:41045851C>T	ENST00000399564.4	-	18	2283	c.1833G>A	c.(1831-1833)gaG>gaA	p.E611E	MROH2B_ENST00000506092.2_Silent_p.E166E	NM_173489.4	NP_775760.3	Q7Z745	MRO2B_HUMAN	maestro heat-like repeat family member 2B	611								p.E611E(1)									AACCAACCTTCTCAGTGGAGT	0.443																																																1	Substitution - coding silent(1)	kidney(1)											170	162	164					5																	41045851		1949	4152	6101	SO:0001819	synonymous_variant	133558				CCDS47202.1	5p13.1	2012-12-19	2012-12-19	2012-12-19	ENSG00000171495	ENSG00000171495		"maestro heat-like repeat containing"	26857	protein-coding gene	gene with protein product			"HEAT repeat family member 7B2"	HEATR7B2		12477932	Standard	NM_173489		Approved	DKFZp781F0822, FLJ40243	uc003jmj.4	Q7Z745	OTTHUMG00000162151	ENST00000399564.4:c.1833G>A	5.37:g.41045851C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q68DM1|Q7Z4U4|Q8N7X3	Silent	SNP	ENST00000399564.4	37	CCDS47202.1																																																																																				0.443	MROH2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367558.2	NM_173489		T	41045851	C	T	41045851	2	4	655	1	0	0	0	0	0	0	0	1	7042	912	32	2		2	HEATR7B2	5	41045851	Silent	SNP	C	TCGA-KN-8418-01A-11D-2310-10	270245	41045851	139869409	18	40631										
DHFR	1719	broad.mit.edu;mdanderson.org	37	chr5	79945302	79945302	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	cttcttacccataatcaccaGattctgtttacctataaaat	2	11	3	1			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr5:79945302G>A	ENST00000439211.2	-	3	641	c.148C>T	c.(148-150)Ctg>Ttg	p.L50L	DHFR_ENST00000504396.1_5'UTR|DHFR_ENST00000505337.1_Silent_p.L50L|DHFR_ENST00000513048.1_5'UTR|DHFR_ENST00000511032.1_Silent_p.L50L	NM_000791.3	NP_000782.1	P00374	DYR_HUMAN	dihydrofolate reductase	50	DHFR. {ECO:0000255|PROSITE- ProRule:PRU00660}.				folic acid metabolic process (GO:0046655)|G1/S transition of mitotic cell cycle (GO:0000082)|glycine biosynthetic process (GO:0006545)|mitotic cell cycle (GO:0000278)|nitric oxide metabolic process (GO:0046209)|nucleotide biosynthetic process (GO:0009165)|one-carbon metabolic process (GO:0006730)|regulation of nitric-oxide synthase activity (GO:0050999)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)|response to methotrexate (GO:0031427)|small molecule metabolic process (GO:0044281)|tetrahydrofolate biosynthetic process (GO:0046654)|tetrahydrofolate metabolic process (GO:0046653)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)	dihydrofolate reductase activity (GO:0004146)|drug binding (GO:0008144)|mRNA binding (GO:0003729)|NADP binding (GO:0050661)			kidney(1)|large_intestine(1)	2		Lung NSC(167;0.00475)|all_lung(232;0.00502)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;2.69e-46)|Epithelial(54;7.49e-41)|all cancers(79;1.54e-35)	Methotrexate(DB00563)|Pemetrexed(DB00642)|Pralatrexate(DB06813)|Proguanil(DB01131)|Pyrimethamine(DB00205)|Trimethoprim(DB00440)|Trimetrexate(DB01157)	ATAATCACCAGATTCTGTTTA	0.323																																																0													74	71	72					5																	79945302		2010	4199	6209	SO:0001819	synonymous_variant	1719				CCDS47240.1	5q11.2-q13.2	2012-10-02			ENSG00000228716	ENSG00000228716	1.5.1.3		2861	protein-coding gene	gene with protein product		126060					Standard	XM_005248455		Approved		uc003kgy.1	P00374	OTTHUMG00000162529	ENST00000439211.2:c.148C>T	5.37:g.79945302G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DDD2|Q14130|Q6IRW8	Silent	SNP	ENST00000439211.2	37	CCDS47240.1																																																																																				0.323	DHFR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369450.1	NM_000791		A	79945302	G	A	79945302	2	1	655	1	0	0	0	0	0	0	0	1	4483	933	33	2		2	DHFR	5	79945302	Silent	SNP	G	TCGA-KN-8418-01A-11D-2310-10	38899451	79945302	100969958	19	40632										
ATXN1	6310	broad.mit.edu	37	chr6	16326646	16326646	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	tgggctcggtgctccccgacGgcgaactgtatcacggccac	13	15	1	0			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr6:16326646G>A	ENST00000244769.4	-	8	2832	c.1896C>T	c.(1894-1896)gcC>gcT	p.A632A	ATXN1_ENST00000436367.1_Silent_p.A632A	NM_000332.3	NP_000323.2	P54253	ATX1_HUMAN	ataxin 1	632	AXH. {ECO:0000255|PROSITE- ProRule:PRU00496}.|Interaction with USP7.|RNA-binding.				adult locomotory behavior (GO:0008344)|cell death (GO:0008219)|negative regulation of insulin-like growth factor receptor signaling pathway (GO:0043569)|negative regulation of phosphorylation (GO:0042326)|negative regulation of transcription, DNA-templated (GO:0045892)|nuclear export (GO:0051168)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|RNA processing (GO:0006396)|transcription, DNA-templated (GO:0006351)|visual learning (GO:0008542)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nuclear inclusion body (GO:0042405)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|identical protein binding (GO:0042802)|poly(G) binding (GO:0034046)|poly(U) RNA binding (GO:0008266)|protein C-terminus binding (GO:0008022)|protein self-association (GO:0043621)			NS(1)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(2)|kidney(3)|large_intestine(11)|lung(12)|prostate(2)|skin(7)|upper_aerodigestive_tract(2)	44	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				GCTCCCCGACGGCGAACTGTA	0.577																																																0													64	67	66					6																	16326646		2203	4300	6503	SO:0001819	synonymous_variant	6310			X79204	CCDS34342.1	6p23	2014-09-17	2004-08-12	2004-08-13	ENSG00000124788	ENSG00000124788		"Ataxins"	10548	protein-coding gene	gene with protein product		601556	"spinocerebellar ataxia 1 (olivopontocerebellar ataxia 1, autosomal dominant, ataxin 1)"	SCA1		1582256	Standard	NM_000332		Approved	D6S504E, ATX1	uc010jpi.3	P54253	OTTHUMG00000014303	ENST00000244769.4:c.1896C>T	6.37:g.16326646G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q17S02|Q9UJG2|Q9Y4J1	Silent	SNP	ENST00000244769.4	37	CCDS34342.1																																																																																				0.577	ATXN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039943.3	NM_000332		A	16326646	G	A	16326646	2	1	655	1	0	0	0	0	0	0	0	1	1209	1103	39	1		1	ATXN1	6	16326646	Silent	SNP	G	TCGA-KN-8418-01A-11D-2310-10		16326646	154788421	20	40633										
HEATR2	54919	mdanderson.org	37	chr7	814788	814788	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	ggatccagagaaactcatcaGgatttatcctggtaggacat	10	8	2	1	rs3922641	byFrequency	TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr7:814788G>A	ENST00000297440.6	+	11	2248	c.2228G>A	c.(2227-2229)aGg>aAg	p.R743K	HEATR2_ENST00000403952.3_Missense_Mutation_p.R168K|HEATR2_ENST00000313147.5_Missense_Mutation_p.R743K	NM_017802.3	NP_060272.3	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	743			R -> K (in dbSNP:rs3922641). {ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:17974005}.			cytoplasm (GO:0005737)				breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(3)|ovary(2)|prostate(4)|skin(1)	22		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		AAACTCATCAGGATTTATCCT	0.498											OREG0026740	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	A|||	3349	0.66873	0.7413	0.6744	5008	,	,		19595	0.62		0.6054	False		,,,				2504	0.682															0									LYS/ARG	3053,1353	448.3+/-348.6	1066,921,216	78	78	78		2228	2.8	0.8	7	dbSNP_108	78	5101,3499	509.6+/-377.3	1531,2039,730	yes	missense	HEATR2	NM_017802.3	26	2597,2960,946	AA,AG,GG		40.686,30.7081,37.3059	benign	743/856	814788	8154,4852	2203	4300	6503	SO:0001583	missense	54919			AL832914, AK000404, NM_017802, AK056233	CCDS34580.1	7p22.3	2014-05-06	2006-05-19		ENSG00000164818	ENSG00000164818			26013	protein-coding gene	gene with protein product		614864				23040496	Standard	NM_017802		Approved	FLJ20397, FLJ31671, FLJ39381, FLJ25564, CILD18	uc010krz.1	Q86Y56	OTTHUMG00000151416	ENST00000297440.6:c.2228G>A	7.37:g.814788G>A	ENSP00000297440:p.Arg743Lys	Somatic	591	WXS	Illumina HiSeq	Phase_I	Q69YL1|Q96FI9|Q9NX75	Missense_Mutation	SNP	ENST00000297440.6	37	CCDS34580.1	1426	0.6529304029304029	382	0.7764227642276422	238	0.6574585635359116	362	0.6328671328671329	444	0.5857519788918206	A	3.916	-0.019136	0.07634	0.692919	0.59314	ENSG00000164818	ENST00000297440;ENST00000313147;ENST00000537862;ENST00000403952	T;T;T	0.65916	-0.18;-0.18;-0.18	5.15	2.76	0.32466	Armadillo-like helical (1);Armadillo-type fold (1);	0.158601	0.56097	N	0.000039	T	0.00012	0.0000	N	0.00419	-1.52	0.54753	P	1.0999999999983245E-5	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.44997	-0.9291	9	0.02654	T	1	-37.6408	8.382	0.32477	0.7649:0.0:0.2351:0.0	rs3922641;rs4333481;rs17135871;rs17355743;rs35235720;rs3922641	743;168;489	Q86Y56;E9PGY2;F5H8D4	HEAT2_HUMAN;.;.	K	743;743;489;168	ENSP00000297440:R743K;ENSP00000321451:R743K;ENSP00000384884:R168K	ENSP00000297440:R743K	R	+	2	0	HEATR2	781314	1.000000	0.71417	0.786000	0.31890	0.907000	0.53573	0.903000	0.28475	0.009000	0.14813	-0.361000	0.07541	AGG		0.498	HEATR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322542.1	NM_017802		A	814788	G	A	814788	3	1	655	1	0	0	0	0	1	0	0	0	7035	1000	35	2	2270	2	HEATR2	7	814788	Missense_Mutation	SNP	G	TCGA-KN-8418-01A-11D-2310-10		814788	158323875	21	40634										
SRRM3	222183	broad.mit.edu	37	chr7	75914932	75914933	+	Splice_Site	INS	-	-	C													0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	cagctttttcttcccggcagINScgccgcaagcgtcctattcc							TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr7:75914932_75914933insC	ENST00000326382.8	+	15	1940_1941		c.e15-1		SRRM3_ENST00000388802.4_Splice_Site	NM_001110199.1	NP_001103669.1	A6NNA2	SRRM3_HUMAN	serine/arginine repetitive matrix 3											NS(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|pancreas(1)	8						CTTCCCGGCAGCGCCGCAAGCG	0.658																																																0																																										SO:0001630	splice_region_variant	222183			AK092590		7q11.23	2014-02-12			ENSG00000177679	ENSG00000177679			26729	protein-coding gene	gene with protein product							Standard	NM_001291831		Approved	FLJ37078	uc010ldi.2	A6NNA2	OTTHUMG00000130489	ENST00000326382.8:c.1734-1->C	7.37:g.75914933_75914933dupC		Somatic		WXS	Illumina HiSeq	Phase_I	A6ND75	Splice_Site	INS	ENST00000326382.8	37																																																																																					0.658	SRRM3-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000252889.2	NM_001110199	Intron	C	75914933	-	C	75914932	8	5	655	1	0	1	1	0	0	0	1	0	15182	985	34	0	1787	0	SRRM3	7	75914932	Splice_Site	INS	-	TCGA-KN-8418-01A-11D-2310-10	75100144	75914932	83223731	22	40635										
MLL3	58508	mdanderson.org	37	chr7	151932990	151932990	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	gtcctgcacctcgaggtctcCgctttcctggaaatccagac	9	15	1	1	rs76844681		TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr7:151932990C>T	ENST00000262189.6	-	16	2899	c.2681G>A	c.(2680-2682)cGg>cAg	p.R894Q	KMT2C_ENST00000355193.2_Missense_Mutation_p.R894Q	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	894					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)										TCGAGGTCTCCGCTTTCCTGG	0.502																																																0													33	34	33					7																	151932990		2202	4295	6497	SO:0001583	missense	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.2681G>A	7.37:g.151932990C>T	ENSP00000262189:p.Arg894Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Missense_Mutation	SNP	ENST00000262189.6	37	CCDS5931.1	.	.	.	.	.	.	.	.	.	.	C	26.2	4.710284	0.89018	.	.	ENSG00000055609	ENST00000262189;ENST00000355193	D;D	0.89485	-2.5;-2.52	5.1	5.1	0.69264	.	0.000000	0.42294	D	0.000721	D	0.93314	0.7869	M	0.63843	1.955	0.80722	D	1	D	0.76494	0.999	D	0.72625	0.978	D	0.93742	0.7051	10	0.66056	D	0.02	.	17.0444	0.86498	0.0:1.0:0.0:0.0	.	894	Q8NEZ4	MLL3_HUMAN	Q	894	ENSP00000262189:R894Q;ENSP00000347325:R894Q	ENSP00000262189:R894Q	R	-	2	0	MLL3	151563923	1.000000	0.71417	0.996000	0.52242	0.951000	0.60555	7.268000	0.78473	2.530000	0.85305	0.650000	0.86243	CGG		0.502	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			T	151932990	C	T	151932990	3	4	655	1	0	0	0	0	1	0	0	0	9629	652	23	1	12230	1	MLL3	7	151932990	Missense_Mutation	SNP	C	TCGA-KN-8418-01A-11D-2310-10	76018058	151932990	7205673	23	40636										
FAM86B1	85002	mdanderson.org	37	chr8	12042969	12042969	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	aggagcccgcttgtgctcccGgcaggcagccagcctctgca	13	16	1	0	rs201172089	byFrequency	TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr8:12042969G>A	ENST00000448228.2	-	6	755	c.706C>T	c.(706-708)Cgg>Tgg	p.R236W	FAM86B1_ENST00000533852.2_Missense_Mutation_p.R270W|FAM86B1_ENST00000534520.1_Missense_Mutation_p.P147L|FAM86B1_ENST00000321602.8_Missense_Mutation_p.R42W	NM_001083537.1	NP_001077006.1	Q8N7N1	F86B1_HUMAN	family with sequence similarity 86, member B1	236										kidney(1)|prostate(1)|stomach(1)	3			STAD - Stomach adenocarcinoma(15;0.033)	COAD - Colon adenocarcinoma(149;0.0965)		TTGTGCTCCCGGCAGGCAGCC	0.612																																																0													7	9	8					8																	12042969		1359	2492	3851	SO:0001583	missense	85002			BC007983	CCDS59512.1	8p23.1	2014-02-12	2005-08-19		ENSG00000186523	ENSG00000186523			28268	protein-coding gene	gene with protein product						12477932	Standard	NM_001083537		Approved	MGC16279	uc010lse.3	Q8N7N1	OTTHUMG00000165298	ENST00000448228.2:c.706C>T	8.37:g.12042969G>A	ENSP00000407067:p.Arg236Trp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000448228.2	37	CCDS59512.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	-|-	7.982|7.982	0.751471|0.751471	0.15778|0.15778	.|.	.|.	ENSG00000186523|ENSG00000186523	ENST00000340537;ENST00000534520|ENST00000431227;ENST00000448228;ENST00000321602;ENST00000526708	T;T|T;T	0.19806|0.26810	2.12;2.12|3.26;1.71	1.17|1.17	1.17|1.17	0.20885|0.20885	.|.	35.965900|.	0.00520|.	U|.	0.000195|.	T|T	0.20536|0.20536	0.0494|0.0494	M|M	0.66378|0.66378	2.025|2.025	0.09310|0.09310	N|N	1|1	.|B;B;P;B	.|0.35481	.|0.001;0.013;0.504;0.127	.|B;B;B;B	.|0.20955	.|0.01;0.016;0.032;0.009	T|T	0.18903|0.18903	-1.0322|-1.0322	8|9	0.87932|0.56958	D|D	0|0.05	.|.	5.7595|5.7595	0.18192|0.18192	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|236;270;42;79	.|Q8N7N1;E9PN63;F6QN85;Q4KMP3	.|F86B1_HUMAN;.;.;.	L|W	147|270;236;42;270	ENSP00000342610:P147L;ENSP00000431362:P147L|ENSP00000407067:R236W;ENSP00000439686:R42W	ENSP00000342610:P147L|ENSP00000439686:R42W	P|R	-|-	2|1	0|2	FAM86B1|FAM86B1	12080378|12080378	0.886000|0.886000	0.30341|0.30341	0.007000|0.007000	0.13788|0.13788	0.004000|0.004000	0.04260|0.04260	0.669000|0.669000	0.25142|0.25142	0.950000|0.950000	0.37743|0.37743	0.173000|0.173000	0.16961|0.16961	CCG|CGG		0.612	FAM86B1-016	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000383317.1	NM_032916		A	12042969	G	A	12042969	3	1	655	1	0	0	0	0	1	0	0	0	5651	1115	39	1	192	1	FAM86B1	8	12042969	Missense_Mutation	SNP	G	TCGA-KN-8418-01A-11D-2310-10		12042969	134321053	24	40637										
FAM86B2	653333	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr8	12287958	12287958	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	ggctccgtgtggacagcctcGtgctgggggcagacagagtg	18	10	0	2	rs567088130	byFrequency	TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr8:12287958G>T	ENST00000262365.4	-	4	242	c.243C>A	c.(241-243)caC>caA	p.H81Q	FAM86B2_ENST00000393715.3_Intron|FAM86B2_ENST00000309608.5_Intron|FAM86B2_ENST00000351291.4_Intron	NM_001137610.1	NP_001131082.1	P0C5J1	F86B2_HUMAN	family with sequence similarity 86, member B2	81										endometrium(1)|kidney(2)	3						GGACAGCCTCGTGCTGGGGGC	0.537																																																0													8	13	11					8																	12287958		680	1574	2254	SO:0001583	missense	653333				CCDS59092.1	8p23.1	2011-07-01			ENSG00000145002	ENSG00000145002			32222	protein-coding gene	gene with protein product							Standard	NM_001137610		Approved		uc003wvt.4	P0C5J1	OTTHUMG00000165462	ENST00000262365.4:c.243C>A	8.37:g.12287958G>T	ENSP00000262365:p.His81Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000262365.4	37	CCDS59092.1	.	.	.	.	.	.	.	.	.	.	-	4.395	0.072989	0.08485	.	.	ENSG00000145002	ENST00000262365	T	0.24538	1.85	1.16	0.223	0.15292	.	.	.	.	.	T	0.20495	0.0493	L	0.56769	1.78	0.80722	D	1	B	0.17852	0.024	B	0.14578	0.011	T	0.08166	-1.0735	9	0.51188	T	0.08	.	3.3083	0.07007	0.2978:0.0:0.7022:0.0	.	81	P0C5J1	F86B2_HUMAN	Q	81	ENSP00000262365:H81Q	ENSP00000262365:H81Q	H	-	3	2	FAM86B2	12332329	0.305000	0.24481	0.987000	0.45799	0.116000	0.19942	-0.569000	0.05902	0.061000	0.16311	0.162000	0.16502	CAC		0.537	FAM86B2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		XM_928336		T	12287958	G	T	12287958	3	4	655	1	0	0	0	0	1	0	0	0	5652	1136	40	4	769	4	FAM86B2	8	12287958	Missense_Mutation	SNP	G	TCGA-KN-8418-01A-11D-2310-10	244989	12287958	134076064	25	40638										
NOTCH1	4851	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr9	139395222	139395222	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	gtcggagatgacggccggcgCgtcctcctcttcctcgctgt	13	15	1	2			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr9:139395222C>T	ENST00000277541.6	-	31	5791	c.5716G>A	c.(5716-5718)Gcg>Acg	p.A1906T		NM_017617.3	NP_060087.3	P46531	NOTC1_HUMAN	notch 1	1906					anagen (GO:0042640)|aortic valve morphogenesis (GO:0003180)|apoptotic process involved in embryonic digit morphogenesis (GO:1902263)|arterial endothelial cell differentiation (GO:0060842)|atrioventricular node development (GO:0003162)|atrioventricular valve morphogenesis (GO:0003181)|auditory receptor cell fate commitment (GO:0009912)|axonogenesis (GO:0007409)|branching morphogenesis of an epithelial tube (GO:0048754)|cardiac atrium morphogenesis (GO:0003209)|cardiac chamber formation (GO:0003207)|cardiac epithelial to mesenchymal transition (GO:0060317)|cardiac left ventricle morphogenesis (GO:0003214)|cardiac muscle cell proliferation (GO:0060038)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac right atrium morphogenesis (GO:0003213)|cardiac right ventricle formation (GO:0003219)|cardiac septum morphogenesis (GO:0060411)|cardiac vascular smooth muscle cell development (GO:0060948)|cardiac ventricle morphogenesis (GO:0003208)|cell fate specification (GO:0001708)|cell migration involved in endocardial cushion formation (GO:0003273)|cellular response to follicle-stimulating hormone stimulus (GO:0071372)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|cilium morphogenesis (GO:0060271)|collecting duct development (GO:0072044)|compartment pattern specification (GO:0007386)|coronary artery morphogenesis (GO:0060982)|coronary vein morphogenesis (GO:0003169)|determination of left/right symmetry (GO:0007368)|distal tubule development (GO:0072017)|embryonic hindlimb morphogenesis (GO:0035116)|endocardial cell differentiation (GO:0060956)|endocardial cushion morphogenesis (GO:0003203)|endocardium development (GO:0003157)|endocardium morphogenesis (GO:0003160)|endoderm development (GO:0007492)|epithelial to mesenchymal transition (GO:0001837)|epithelial to mesenchymal transition involved in endocardial cushion formation (GO:0003198)|forebrain development (GO:0030900)|foregut morphogenesis (GO:0007440)|gene expression (GO:0010467)|glial cell differentiation (GO:0010001)|glomerular mesangial cell development (GO:0072144)|growth involved in heart morphogenesis (GO:0003241)|hair follicle morphogenesis (GO:0031069)|heart development (GO:0007507)|heart looping (GO:0001947)|heart trabecula morphogenesis (GO:0061384)|humoral immune response (GO:0006959)|immune response (GO:0006955)|in utero embryonic development (GO:0001701)|inflammatory response to antigenic stimulus (GO:0002437)|interleukin-4 secretion (GO:0072602)|keratinocyte differentiation (GO:0030216)|left/right axis specification (GO:0070986)|liver development (GO:0001889)|lung development (GO:0030324)|mesenchymal cell development (GO:0014031)|mitral valve formation (GO:0003192)|negative regulation of anoikis (GO:2000811)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of calcium ion-dependent exocytosis (GO:0045955)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of catalytic activity (GO:0043086)|negative regulation of cell migration involved in sprouting angiogenesis (GO:0090051)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell-substrate adhesion (GO:0010812)|negative regulation of endothelial cell chemotaxis (GO:2001027)|negative regulation of glial cell proliferation (GO:0060253)|negative regulation of myoblast differentiation (GO:0045662)|negative regulation of myotube differentiation (GO:0010832)|negative regulation of neurogenesis (GO:0050768)|negative regulation of oligodendrocyte differentiation (GO:0048715)|negative regulation of ossification (GO:0030279)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of photoreceptor cell differentiation (GO:0046533)|negative regulation of pro-B cell differentiation (GO:2000974)|negative regulation of stem cell differentiation (GO:2000737)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neural tube development (GO:0021915)|neuronal stem cell maintenance (GO:0097150)|Notch receptor processing (GO:0007220)|Notch signaling involved in heart development (GO:0061314)|Notch signaling pathway (GO:0007219)|Notch signaling pathway involved in regulation of secondary heart field cardioblast proliferation (GO:0003270)|pericardium morphogenesis (GO:0003344)|positive regulation of apoptotic process (GO:0043065)|positive regulation of astrocyte differentiation (GO:0048711)|positive regulation of BMP signaling pathway (GO:0030513)|positive regulation of cardiac muscle cell proliferation (GO:0060045)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of JAK-STAT cascade (GO:0046427)|positive regulation of keratinocyte differentiation (GO:0045618)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061419)|positive regulation of transcription of Notch receptor target (GO:0007221)|positive regulation of transcription, DNA-templated (GO:0045893)|prostate gland epithelium morphogenesis (GO:0060740)|pulmonary valve morphogenesis (GO:0003184)|regulation of epithelial cell proliferation involved in prostate gland development (GO:0060768)|regulation of extracellular matrix assembly (GO:1901201)|regulation of somitogenesis (GO:0014807)|regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation (GO:0003256)|regulation of transcription, DNA-templated (GO:0006355)|response to muramyl dipeptide (GO:0032495)|secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development (GO:0060528)|skeletal muscle cell differentiation (GO:0035914)|somatic stem cell division (GO:0048103)|sprouting angiogenesis (GO:0002040)|transcription initiation from RNA polymerase II promoter (GO:0006367)|tube formation (GO:0035148)|vasculogenesis involved in coronary vascular morphogenesis (GO:0060979)|venous endothelial cell differentiation (GO:0060843)|ventricular septum morphogenesis (GO:0060412)|ventricular trabecula myocardium morphogenesis (GO:0003222)	cell surface (GO:0009986)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|MAML1-RBP-Jkappa- ICN1 complex (GO:0002193)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)|chromatin DNA binding (GO:0031490)|core promoter binding (GO:0001047)|enzyme binding (GO:0019899)|enzyme inhibitor activity (GO:0004857)|receptor activity (GO:0004872)|RNA polymerase II transcription factor binding transcription factor activity involved in positive regulation of transcription (GO:0001190)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(16)|central_nervous_system(17)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1183)|kidney(4)|large_intestine(1)|lung(57)|oesophagus(2)|ovary(3)|pancreas(1)|prostate(3)|skin(21)|upper_aerodigestive_tract(39)|urinary_tract(3)	1359	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		ACGGCCGGCGCGTCCTCCTCT	0.682			"T, Mis, O"	TRB@	T-ALL					HNSCC(8;0.001)																													Dom	yes		9	9q34.3	4851	"Notch homolog 1, translocation-associated (Drosophila) (TAN1)"		L	0													37	46	43					9																	139395222		2113	4229	6342	SO:0001583	missense	4851			AF308602	CCDS43905.1	9q34.3	2013-01-10	2010-06-24		ENSG00000148400	ENSG00000148400		"Ankyrin repeat domain containing"	7881	protein-coding gene	gene with protein product		190198	"Notch (Drosophila) homolog 1 (translocation-associated)", "Notch homolog 1, translocation-associated (Drosophila)"	TAN1		1831692	Standard	NM_017617		Approved		uc004chz.3	P46531	OTTHUMG00000020935	ENST00000277541.6:c.5716G>A	9.37:g.139395222C>T	ENSP00000277541:p.Ala1906Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q59ED8|Q5SXM3	Missense_Mutation	SNP	ENST00000277541.6	37	CCDS43905.1	.	.	.	.	.	.	.	.	.	.	C	16.94	3.261608	0.59431	.	.	ENSG00000148400	ENST00000277541	D	0.82255	-1.59	4.6	3.7	0.42460	Ankyrin repeat-containing domain (3);	0.168956	0.51477	D	0.000085	T	0.78761	0.4334	L	0.27053	0.805	0.58432	D	0.999992	P	0.40332	0.713	P	0.48840	0.592	T	0.74420	-0.3671	10	0.27082	T	0.32	.	11.9893	0.53166	0.0:0.9143:0.0:0.0857	.	1906	P46531	NOTC1_HUMAN	T	1906	ENSP00000277541:A1906T	ENSP00000277541:A1906T	A	-	1	0	NOTCH1	138515043	1.000000	0.71417	0.828000	0.32881	0.220000	0.24768	3.737000	0.55060	1.084000	0.41184	0.536000	0.68110	GCG		0.682	NOTCH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055087.1	NM_017617		T	139395222	C	T	139395222	3	4	655	1	0	0	0	0	1	0	0	0	10554	768	27	1	1967	1	NOTCH1	9	139395222	Missense_Mutation	SNP	C	TCGA-KN-8418-01A-11D-2310-10		139395222	1818209	26	40639										
PITRM1	10531	mdanderson.org	37	chr10	3208557	3208557	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	ccagtactgtccatgggagtAgtacggaactgcacgctagg	13	10	0	0	rs12359035	byFrequency	TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr10:3208557A>G	ENST00000224949.4	-	4	316	c.282T>C	c.(280-282)acT>acC	p.T94T	PITRM1-AS1_ENST00000601046.1_RNA|PITRM1_ENST00000380989.2_Silent_p.T94T|PITRM1-AS1_ENST00000598280.1_RNA|PITRM1_ENST00000451104.2_Silent_p.T62T			Q5JRX3	PREP_HUMAN	pitrilysin metallopeptidase 1	94					positive regulation of catalytic activity (GO:0043085)|proteolysis (GO:0006508)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	enzyme activator activity (GO:0008047)|metal ion binding (GO:0046872)|metalloendopeptidase activity (GO:0004222)			breast(2)|cervix(1)|endometrium(2)|kidney(5)|large_intestine(5)|liver(1)|lung(5)|ovary(1)|pancreas(1)|prostate(4)|skin(1)|stomach(2)|urinary_tract(3)	33						CCATGGGAGTAGTACGGAACT	0.493													G|||	3203	0.639577	0.5915	0.5807	5008	,	,		19010	0.6042		0.7018	False		,,,				2504	0.7188															0								G	,,	2671,1411		877,917,247	107	107	107		282,186,282	-5.1	0.2	10	dbSNP_120	107	6043,2313		2165,1713,300	no	coding-synonymous,coding-synonymous,coding-synonymous	PITRM1	NM_001242307.1,NM_001242309.1,NM_014889.3	,,	3042,2630,547	GG,GA,AA		27.6807,34.5664,29.9405	,,	94/1039,62/940,94/1038	3208557	8714,3724	2041	4178	6219	SO:0001819	synonymous_variant	10531			AB029027	CCDS55699.1, CCDS55700.1, CCDS59208.1	10p15.2	2008-07-30	2005-08-17		ENSG00000107959	ENSG00000107959			17663	protein-coding gene	gene with protein product	"PreP peptidasome"		"pitrilysin metalloproteinase 1"			1036083, 10470851, 16849325	Standard	NM_014889		Approved	MP1, KIAA1104, hMP1, PreP	uc009xhv.2	Q5JRX3	OTTHUMG00000017557	ENST00000224949.4:c.282T>C	10.37:g.3208557A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KMJ6|B4E0J8|C9JSL2|E7ES23|O95204|Q2M2G6|Q4VBR1|Q5JRW7|Q7L5Z7|Q9BSI6|Q9BVJ5|Q9UPP8	Silent	SNP	ENST00000224949.4	37	CCDS59208.1																																																																																				0.493	PITRM1-007	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000046469.2			G	3208557	A	G	3208557	2	3	655	1	0	0	0	0	0	0	0	1	11960	407	15	3		3	PITRM1	10	3208557	Silent	SNP	A	TCGA-KN-8418-01A-11D-2310-10		3208557	132326190	27	40640										
MSRB2	22921	broad.mit.edu	37	chr10	23399207	23399207	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	acctgaataacaaggaagcaGgaatgtatcattgcgtgtgc	11	7	1	1			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr10:23399207G>A	ENST00000376510.3	+	3	359	c.256G>A	c.(256-258)Gga>Aga	p.G86R		NM_012228.3	NP_036360.3	Q9Y3D2	MSRB2_HUMAN	methionine sulfoxide reductase B2	86					actin filament polymerization (GO:0030041)|protein repair (GO:0030091)|regulation of transcription, DNA-templated (GO:0006355)|response to oxidative stress (GO:0006979)	mitochondrion (GO:0005739)	actin binding (GO:0003779)|peptide-methionine (R)-S-oxide reductase activity (GO:0033743)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			endometrium(1)|large_intestine(2)|lung(4)|skin(1)|urinary_tract(1)	9					L-Methionine(DB00134)	CAAGGAAGCAGGAATGTATCA	0.433																																					Esophageal Squamous(89;1240 1363 4973 30188 42299)											0													101	97	99					10																	23399207		1932	4138	6070	SO:0001583	missense	22921			AF122004	CCDS41495.1	10p12	2004-12-07	2004-12-06	2004-12-07	ENSG00000148450	ENSG00000148450			17061	protein-coding gene	gene with protein product		613782	"methionine sulfoxide reductase B"	MSRB		8749308, 10375640	Standard	NM_012228		Approved	PILB, CGI-131, CBS1, CBS-1	uc001iro.3	Q9Y3D2	OTTHUMG00000017812	ENST00000376510.3:c.256G>A	10.37:g.23399207G>A	ENSP00000365693:p.Gly86Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q17R44|Q4G1C7|Q9Y5W6	Missense_Mutation	SNP	ENST00000376510.3	37	CCDS41495.1	.	.	.	.	.	.	.	.	.	.	G	23.5	4.420404	0.83559	.	.	ENSG00000148450	ENST00000376510	D	0.93247	-3.19	5.83	5.83	0.93111	Mss4-like (1);Methionine sulphoxide reductase B (3);	0.000000	0.85682	D	0.000000	D	0.98220	0.9411	H	0.98199	4.17	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.99215	1.0877	10	0.87932	D	0	-21.1633	18.8761	0.92337	0.0:0.0:1.0:0.0	.	86	Q9Y3D2	MSRB2_HUMAN	R	86	ENSP00000365693:G86R	ENSP00000365693:G86R	G	+	1	0	MSRB2	23439213	1.000000	0.71417	0.289000	0.24876	0.741000	0.42261	7.676000	0.84012	2.762000	0.94881	0.655000	0.94253	GGA		0.433	MSRB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047205.1	NM_012228		A	23399207	G	A	23399207	3	1	655	1	0	0	0	0	1	0	0	0	9895	1001	35	2	266	2	MSRB2	10	23399207	Missense_Mutation	SNP	G	TCGA-KN-8418-01A-11D-2310-10	20190650	23399207	112135540	28	40641										
EIF5AL1	143244	mdanderson.org	37	chr10	81272627	81272627	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	aaatatgaagatatctgcccGtcaactcataatatggatgt	7	7	3	2	rs200689309		TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr10:81272627G>A	ENST00000520547.2	+	1	271	c.222G>A	c.(220-222)ccG>ccA	p.P74P	AL133481.1_ENST00000538322.1_5'Flank	NM_001099692.1	NP_001093162.1	Q6IS14	IF5AL_HUMAN	eukaryotic translation initiation factor 5A-like 1	74					mRNA transport (GO:0051028)|peptidyl-lysine modification to peptidyl-hypusine (GO:0008612)|positive regulation of translational elongation (GO:0045901)|positive regulation of translational termination (GO:0045905)|protein transport (GO:0015031)|translational frameshifting (GO:0006452)	endoplasmic reticulum (GO:0005783)|nuclear pore (GO:0005643)	ribosome binding (GO:0043022)|translation elongation factor activity (GO:0003746)			endometrium(1)	1	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			ATATCTGCCCGTCAACTCATA	0.498																																																0													30	32	32					10																	81272627		2202	4289	6491	SO:0001819	synonymous_variant	143244				CCDS53546.1	10q22.3	2012-04-19			ENSG00000253626	ENSG00000253626			17419	protein-coding gene	gene with protein product			"eukaryotic translation initiation factor 5A pseudogene 1"	EIF5AP1			Standard	NM_001099692		Approved	bA342M3.3	uc009xrx.3	Q6IS14	OTTHUMG00000018563	ENST00000520547.2:c.222G>A	10.37:g.81272627G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000520547.2	37	CCDS53546.1																																																																																				0.498	EIF5AL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048954.4	NM_001099692		A	81272627	G	A	81272627	2	1	655	1	0	0	0	0	0	0	0	1	5045	1132	40	1		1	EIF5AL1	10	81272627	Silent	SNP	G	TCGA-KN-8418-01A-11D-2310-10	57873420	81272627	54262120	29	40642										
INPP5F	79892	ucsc.edu	37	chr10	121587065	121587065	+	IGR	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	cagggcttcatgtaactcctTctccttcagagagcagtagc	9	12	3	1	rs201053908|rs148162878	byFrequency	TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr10:121587065T>C	ENST00000360003.3	-	0	4113				INPP5F_ENST00000361976.2_Missense_Mutation_p.S1058P|INPP5F_ENST00000369080.3_Missense_Mutation_p.S448P	NM_001256378.1|NM_001256379.1|NM_024834.3	NP_001243307.1|NP_001243308.1|NP_079110.1	Q9BTE3	MCMBP_HUMAN	minichromosome maintenance complex binding protein						DNA-dependent DNA replication (GO:0006261)|mitotic nuclear division (GO:0007067)|sister chromatid cohesion (GO:0007062)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	chromatin binding (GO:0003682)			breast(1)|endometrium(3)|large_intestine(4)|lung(9)|ovary(2)|skin(2)	21						TGTAACTCCTTCTCCTTCAGA	0.493																																																0								T	PRO/SER	1,4405	2.1+/-5.4	0,1,2202	106	104	105		3172	4.5	1	10	dbSNP_134	105	0,8600		0,0,4300	yes	missense	INPP5F	NM_014937.3	74	0,1,6502	CC,CT,TT		0.0,0.0227,0.0077	probably-damaging	1058/1133	121587065	1,13005	2203	4300	6503	SO:0001628	intergenic_variant	22876			BC007219	CCDS7617.1, CCDS58099.1	10q26.13	2013-10-11	2011-01-05	2011-01-05	ENSG00000197771	ENSG00000197771			25782	protein-coding gene	gene with protein product		610909	"chromosome 10 open reading frame 119"	C10orf119		17296731	Standard	NM_024834		Approved	FLJ13081, MCM-BP	uc001ler.3	Q9BTE3	OTTHUMG00000019159		10.37:g.121587065T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KSP7|Q6IA56|Q9BVT9|Q9H916	Missense_Mutation	SNP	ENST00000360003.3	37	CCDS7617.1	.	.	.	.	.	.	.	.	.	.	T	19.08	3.757919	0.69648	2.27E-4	0.0	ENSG00000198825	ENST00000361976;ENST00000369080	T;T	0.59906	0.65;0.23	5.63	4.5	0.54988	.	0.296722	0.37483	N	0.002064	T	0.70718	0.3256	L	0.58101	1.795	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.83275	0.996;0.994	T	0.72337	-0.4324	10	0.87932	D	0	-18.4272	11.441	0.50096	0.0:0.0707:0.0:0.9293	.	448;1058	Q5W135;Q9Y2H2	.;SAC2_HUMAN	P	1058;448	ENSP00000354519:S1058P;ENSP00000358076:S448P	ENSP00000354519:S1058P	S	+	1	0	INPP5F	121577055	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	6.090000	0.71397	0.983000	0.38602	0.358000	0.22013	TCT		0.493	MCMBP-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000050684.1	NM_024834		C	121587065	T	C	121587065	1	2	655	0	1	0	0	0	0	0	0	0	7765	1783	62	3		3	INPP5F	10	121587065	IGR	SNP	T	TCGA-KN-8418-01A-11D-2310-10	40314438	121587065	13947682	30	40643										
BDNF	627	mdanderson.org;bcgsc.ca	37	chr11	27679447	27679447	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	gccagccaattctctttttgCtatccatggtaagggcccgc	9	13	1	0			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr11:27679447C>T	ENST00000525528.1	-	1	1758	c.665G>A	c.(664-666)aGc>aAc	p.S222N	BDNF_ENST00000439476.2_Missense_Mutation_p.S222N|BDNF-AS_ENST00000501176.2_RNA|BDNF_ENST00000395983.3_Missense_Mutation_p.S222N|BDNF_ENST00000533131.1_Missense_Mutation_p.S222N|BDNF-AS_ENST00000530313.1_RNA|BDNF_ENST00000584049.1_5'UTR|BDNF-AS_ENST00000532965.1_RNA|BDNF_ENST00000418212.1_Missense_Mutation_p.S222N|BDNF_ENST00000395980.2_Missense_Mutation_p.S222N|BDNF-AS_ENST00000499008.3_RNA|BDNF-AS_ENST00000499568.2_RNA|BDNF_ENST00000525950.1_Missense_Mutation_p.S222N|BDNF_ENST00000395981.3_Missense_Mutation_p.S222N|BDNF_ENST00000420794.1_Missense_Mutation_p.S222N|BDNF_ENST00000533246.1_Missense_Mutation_p.S222N|BDNF_ENST00000395978.3_Missense_Mutation_p.S222N|BDNF_ENST00000532997.1_Missense_Mutation_p.S222N|BDNF-AS_ENST00000502161.2_RNA|BDNF_ENST00000314915.6_Missense_Mutation_p.S230N|BDNF_ENST00000356660.4_Missense_Mutation_p.S222N|BDNF_ENST00000438929.1_Missense_Mutation_p.S304N|BDNF-AS_ENST00000530686.1_RNA|BDNF_ENST00000530861.1_Missense_Mutation_p.S222N|BDNF-AS_ENST00000500662.2_RNA|BDNF_ENST00000395986.2_Missense_Mutation_p.S237N	NM_170735.5	NP_733931.1	P23560	BDNF_HUMAN	brain-derived neurotrophic factor	222					axon extension (GO:0048675)|axon guidance (GO:0007411)|axon target recognition (GO:0007412)|behavioral fear response (GO:0001662)|chronic inflammatory response (GO:0002544)|circadian rhythm (GO:0007623)|dendrite development (GO:0016358)|dendrite extension (GO:0097484)|feeding behavior (GO:0007631)|gamma-aminobutyric acid signaling pathway (GO:0007214)|glutamate secretion (GO:0014047)|inner ear development (GO:0048839)|learning or memory (GO:0007611)|mechanoreceptor differentiation (GO:0042490)|mitochondrial electron transport, NADH to ubiquinone (GO:0006120)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of striated muscle tissue development (GO:0045843)|negative regulation of synaptic transmission, GABAergic (GO:0032229)|nerve development (GO:0021675)|nervous system development (GO:0007399)|neuron recognition (GO:0008038)|positive regulation of long-term neuronal synaptic plasticity (GO:0048170)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of synapse assembly (GO:0051965)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of retinal cell programmed cell death (GO:0046668)|regulation of short-term neuronal synaptic plasticity (GO:0048172)|response to anesthetic (GO:0072347)|response to fluoxetine (GO:0014076)|response to hormone (GO:0009725)|response to hyperoxia (GO:0055093)|response to hypoxia (GO:0001666)|response to vitamin A (GO:0033189)|taste bud development (GO:0061193)|ureteric bud development (GO:0001657)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|perinuclear region of cytoplasm (GO:0048471)|synaptic vesicle (GO:0008021)	growth factor activity (GO:0008083)			breast(1)|large_intestine(3)|lung(2)	6						TCTCTTTTTGCTATCCATGGT	0.443																																																0													113	116	115					11																	27679447		2202	4299	6501	SO:0001583	missense	627			AB038670	CCDS7865.1, CCDS7866.1, CCDS44558.1, CCDS41628.1	11p14.1	2014-01-30			ENSG00000176697	ENSG00000176697		"Endogenous ligands"	1033	protein-coding gene	gene with protein product	"neurotrophin"	113505				2236018, 1889806, 17942328, 17493809	Standard	NM_170731		Approved		uc009yje.3	P23560	OTTHUMG00000178797	ENST00000525528.1:c.665G>A	11.37:g.27679447C>T	ENSP00000437138:p.Ser222Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A7LA85|A7LA92|D3DQZ2|Q598Q1|Q6DN19|Q6YNR2|Q6YNR3|Q9BYY7|Q9UC24	Missense_Mutation	SNP	ENST00000525528.1	37	CCDS7866.1	.	.	.	.	.	.	.	.	.	.	C	9.994	1.231555	0.22626	.	.	ENSG00000176697	ENST00000439476;ENST00000525528;ENST00000395986;ENST00000533131;ENST00000356660;ENST00000418212;ENST00000533246;ENST00000530861;ENST00000395983;ENST00000438929;ENST00000395980;ENST00000532997;ENST00000395981;ENST00000395978;ENST00000525950;ENST00000314915;ENST00000420794;ENST00000528035	T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.68903	-0.36;-0.36;-0.36;-0.36;-0.36;-0.36;-0.36;-0.36;-0.36;-0.36;-0.36;-0.36;-0.36;-0.36;-0.36;-0.36;-0.36	6.08	4.01	0.46588	Nerve growth factor-related (4);	0.121472	0.85682	N	0.000000	T	0.43986	0.1272	N	0.10972	0.075	0.50467	D	0.999871	B;B;B;B;B	0.02656	0.0;0.0;0.0;0.0;0.0	B;B;B;B;B	0.04013	0.001;0.001;0.0;0.0;0.0	T	0.42241	-0.9463	10	0.87932	D	0	-9.2797	6.7291	0.23373	0.0:0.699:0.0:0.301	.	251;304;230;222;237	P23560-5;P23560-4;P23560-2;P23560;P23560-3	.;.;.;BDNF_HUMAN;.	N	222;222;237;222;222;222;222;222;222;304;222;222;222;222;222;230;222;174	ENSP00000389345:S222N;ENSP00000437138:S222N;ENSP00000379309:S237N;ENSP00000432727:S222N;ENSP00000349084:S222N;ENSP00000400502:S222N;ENSP00000432376:S222N;ENSP00000435564:S222N;ENSP00000379307:S222N;ENSP00000414303:S304N;ENSP00000379304:S222N;ENSP00000435805:S222N;ENSP00000379305:S222N;ENSP00000379302:S222N;ENSP00000432035:S222N;ENSP00000320002:S230N;ENSP00000389564:S222N	ENSP00000320002:S230N	S	-	2	0	BDNF	27636023	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.053000	0.49901	1.575000	0.49775	0.591000	0.81541	AGC		0.443	BDNF-016	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388135.1	NM_170735		T	27679447	C	T	27679447	3	4	655	1	0	0	0	0	1	0	0	0	1394	797	28	2	82	2	BDNF	11	27679447	Missense_Mutation	SNP	C	TCGA-KN-8418-01A-11D-2310-10		27679447	107327069	31	40644										
MTA2	9219	broad.mit.edu	37	chr11	62367694	62367694	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	aaatgtccctgcgccggaaaAgacagacaacctttgcctcc	8	14	0	2			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr11:62367694A>G	ENST00000278823.2	-	3	523	c.134T>C	c.(133-135)cTt>cCt	p.L45P	MTA2_ENST00000524902.1_5'Flank|MTA2_ENST00000527204.1_5'UTR	NM_004739.3	NP_004730.2	O94776	MTA2_HUMAN	metastasis associated 1 family, member 2	45	BAH. {ECO:0000255|PROSITE- ProRule:PRU00370}.				ATP-dependent chromatin remodeling (GO:0043044)|chromatin assembly or disassembly (GO:0006333)|DNA methylation (GO:0006306)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	histone deacetylase complex (GO:0000118)|membrane (GO:0016020)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|NuRD complex (GO:0016581)|protein complex (GO:0043234)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|histone deacetylase activity (GO:0004407)|RNA polymerase II repressing transcription factor binding (GO:0001103)|RNA polymerase II transcription factor binding (GO:0001085)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding transcription factor activity (GO:0000989)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(2)|large_intestine(5)|lung(7)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(4)	26						gcgccggaaaagacagacaac	0.443																																																0													125	125	125					11																	62367694		2202	4299	6501	SO:0001583	missense	9219			AB016591	CCDS8022.1	11q12-q13.1	2013-01-25	2004-12-15	2003-12-17	ENSG00000149480	ENSG00000149480		"GATA zinc finger domain containing"	7411	protein-coding gene	gene with protein product		603947	"metastasis associated gene family, member 2"	MTA1L1		9929979	Standard	NM_004739		Approved	MTA1-L1	uc001ntq.2	O94776	OTTHUMG00000167684	ENST00000278823.2:c.134T>C	11.37:g.62367694A>G	ENSP00000278823:p.Leu45Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DB1|Q9UQB5	Missense_Mutation	SNP	ENST00000278823.2	37	CCDS8022.1	.	.	.	.	.	.	.	.	.	.	A	25.0	4.589262	0.86851	.	.	ENSG00000149480	ENST00000278823	D	0.86432	-2.12	5.56	5.56	0.83823	Bromo adjacent homology (BAH) domain (3);	0.000000	0.85682	D	0.000000	D	0.85639	0.5743	N	0.08118	0	0.80722	D	1	D	0.69078	0.997	D	0.81914	0.995	D	0.87777	0.2609	10	0.56958	D	0.05	-13.1504	12.1235	0.53905	1.0:0.0:0.0:0.0	.	45	O94776	MTA2_HUMAN	P	45	ENSP00000278823:L45P	ENSP00000278823:L45P	L	-	2	0	MTA2	62124270	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.461000	0.66699	2.125000	0.65367	0.533000	0.62120	CTT		0.443	MTA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395578.1	NM_004739		G	62367694	A	G	62367694	3	3	655	1	0	0	0	0	1	0	0	0	9916	72	3	3	1936	3	MTA2	11	62367694	Missense_Mutation	SNP	A	TCGA-KN-8418-01A-11D-2310-10	34688247	62367694	72638822	32	40645										
BACE1	23621	broad.mit.edu;hgsc.bcm.edu	37	chr11	117163878	117163880	+	In_Frame_Del	DEL	CAG	CAG	-													0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	taccagagactgcctgtgtaCagcgagtggtcgatacctcc							TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr11:117163878_117163880delCAG	ENST00000313005.6	-	5	1190_1192	c.730_732delCTG	c.(730-732)ctgdel	p.L244del	BACE1_ENST00000445823.2_In_Frame_Del_p.L200del|BACE1_ENST00000392937.6_In_Frame_Del_p.L144del|BACE1_ENST00000528053.1_In_Frame_Del_p.L244del|BACE1_ENST00000513780.1_In_Frame_Del_p.L219del|BACE1_ENST00000514464.1_5'Flank|BACE1_ENST00000510630.1_In_Frame_Del_p.L119del|BACE1_ENST00000428381.2_In_Frame_Del_p.L175del	NM_012104.4|NM_138971.3|NM_138972.3|NM_138973.3	NP_036236|NP_620427.1|NP_620428.1|NP_620429.1	P56817	BACE1_HUMAN	beta-site APP-cleaving enzyme 1	244					beta-amyloid metabolic process (GO:0050435)|membrane protein ectodomain proteolysis (GO:0006509)|proteolysis (GO:0006508)	axon (GO:0030424)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|multivesicular body (GO:0005771)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)	aspartic-type endopeptidase activity (GO:0004190)|beta-amyloid binding (GO:0001540)|beta-aspartyl-peptidase activity (GO:0008798)|enzyme binding (GO:0019899)			breast(2)|endometrium(4)|kidney(1)|large_intestine(2)|lung(7)|ovary(2)|prostate(1)	19	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000563)|all cancers(92;0.0032)		TGCCTGTGTACAGCGAGTGGTCG	0.512																																																0																																										SO:0001651	inframe_deletion	23621			AF190725	CCDS8383.1, CCDS44739.1, CCDS44740.1, CCDS44741.1, CCDS55787.1, CCDS55786.1	11q23-q24	2011-07-27	2004-04-02	2004-04-02	ENSG00000186318	ENSG00000186318			933	protein-coding gene	gene with protein product		604252	"beta-site APP-cleaving enzyme"	BACE		10531052	Standard	NM_012104		Approved		uc001pqz.3	P56817	OTTHUMG00000160636	ENST00000313005.6:c.730_732delCTG	11.37:g.117163878_117163880delCAG	ENSP00000318585:p.Leu244del	Somatic		WXS	Illumina HiSeq	Phase_I	A0M8W7|B0YIU9|E9PE65|H7BXJ9|Q9BYB9|Q9BYC0|Q9BYC1|Q9UJT5|Q9ULS1	In_Frame_Del	DEL	ENST00000313005.6	37	CCDS8383.1																																																																																				0.512	BACE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361505.1			-	117163880	CAG	-	117163878	7	5	655	1	0	1	0	1	0	0	0	0	1281	465	17	0	793	0	BACE1	11	117163878	In_Frame_Del	DEL	CAG	TCGA-KN-8418-01A-11D-2310-10	54796184	117163878	17842638	33	40646	371	2								
BACE1	23621	bcgsc.ca	37	chr11	117163879	117163881	+	In_Frame_Del	DEL	CAG	CAG	-													0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	accagagactgcctgtgtacAgcgagtggtcgatacctcca							TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr11:117163879_117163881delCAG	ENST00000313005.6	-	5	1189_1191	c.729_731delCTG	c.(727-732)tcctgg>tcg	p.W244del	BACE1_ENST00000445823.2_In_Frame_Del_p.W200del|BACE1_ENST00000392937.6_In_Frame_Del_p.W144del|BACE1_ENST00000528053.1_In_Frame_Del_p.W244del|BACE1_ENST00000513780.1_In_Frame_Del_p.W219del|BACE1_ENST00000514464.1_5'Flank|BACE1_ENST00000510630.1_In_Frame_Del_p.W119del|BACE1_ENST00000428381.2_In_Frame_Del_p.W175del	NM_012104.4|NM_138971.3|NM_138972.3|NM_138973.3	NP_036236|NP_620427.1|NP_620428.1|NP_620429.1	P56817	BACE1_HUMAN	beta-site APP-cleaving enzyme 1	244					beta-amyloid metabolic process (GO:0050435)|membrane protein ectodomain proteolysis (GO:0006509)|proteolysis (GO:0006508)	axon (GO:0030424)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|multivesicular body (GO:0005771)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)	aspartic-type endopeptidase activity (GO:0004190)|beta-amyloid binding (GO:0001540)|beta-aspartyl-peptidase activity (GO:0008798)|enzyme binding (GO:0019899)			breast(2)|endometrium(4)|kidney(1)|large_intestine(2)|lung(7)|ovary(2)|prostate(1)	19	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000563)|all cancers(92;0.0032)		GCCTGTGTACAGCGAGTGGTCGA	0.512																																																0																																										SO:0001651	inframe_deletion	23621			AF190725	CCDS8383.1, CCDS44739.1, CCDS44740.1, CCDS44741.1, CCDS55787.1, CCDS55786.1	11q23-q24	2011-07-27	2004-04-02	2004-04-02	ENSG00000186318	ENSG00000186318			933	protein-coding gene	gene with protein product		604252	"beta-site APP-cleaving enzyme"	BACE		10531052	Standard	NM_012104		Approved		uc001pqz.3	P56817	OTTHUMG00000160636	ENST00000313005.6:c.729_731delCTG	11.37:g.117163879_117163881delCAG	ENSP00000318585:p.Trp244del	Somatic		WXS	Illumina HiSeq	Phase_I	A0M8W7|B0YIU9|E9PE65|H7BXJ9|Q9BYB9|Q9BYC0|Q9BYC1|Q9UJT5|Q9ULS1	In_Frame_Del	DEL	ENST00000313005.6	37	CCDS8383.1																																																																																				0.512	BACE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361505.1			-	117163881	CAG	-	117163879	7	5	655	1	0	1	0	1	0	0	0	0	1281	188	7	0	794	0	BACE1	11	117163879	In_Frame_Del	DEL	CAG	TCGA-KN-8418-01A-11D-2310-10	1	117163879	17842637	34	40647	371	2								
VWF	7450	ucsc.edu	37	chr12	6181608	6181608	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	cttcatccaggagctgtcccTctggggtcaagggcatcaag	12	12	4	0			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr12:6181608T>C	ENST00000261405.5	-	9	1252	c.998A>G	c.(997-999)gAg>gGg	p.E333G		NM_000552.3	NP_000543	P04275	VWF_HUMAN	von Willebrand factor	333	TIL 1.				blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|cell adhesion (GO:0007155)|cell-substrate adhesion (GO:0031589)|extracellular matrix organization (GO:0030198)|hemostasis (GO:0007599)|liver development (GO:0001889)|placenta development (GO:0001890)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|protein homooligomerization (GO:0051260)|response to wounding (GO:0009611)	endoplasmic reticulum (GO:0005783)|external side of plasma membrane (GO:0009897)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|platelet alpha granule (GO:0031091)|platelet alpha granule lumen (GO:0031093)|proteinaceous extracellular matrix (GO:0005578)|Weibel-Palade body (GO:0033093)	chaperone binding (GO:0051087)|collagen binding (GO:0005518)|glycoprotein binding (GO:0001948)|identical protein binding (GO:0042802)|immunoglobulin binding (GO:0019865)|integrin binding (GO:0005178)|protease binding (GO:0002020)|protein homodimerization activity (GO:0042803)|protein N-terminus binding (GO:0047485)			NS(1)|breast(6)|central_nervous_system(5)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(25)|lung(41)|ovary(7)|pancreas(2)|prostate(6)|skin(15)|stomach(1)|upper_aerodigestive_tract(5)	129					Antihemophilic Factor(DB00025)	GAGCTGTCCCTCTGGGGTCAA	0.572																																																0													74	58	63					12																	6181608		2203	4300	6503	SO:0001630	splice_region_variant	7450				CCDS8539.1	12p13.3	2014-09-17			ENSG00000110799	ENSG00000110799		"Endogenous ligands"	12726	protein-coding gene	gene with protein product		613160		F8VWF		2251280	Standard	NM_000552		Approved		uc001qnn.1	P04275	OTTHUMG00000168265	ENST00000261405.5:c.998-1A>G	12.37:g.6181608T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TCE8|Q99806	Missense_Mutation	SNP	ENST00000261405.5	37	CCDS8539.1	.	.	.	.	.	.	.	.	.	.	T	19.66	3.868610	0.72065	.	.	ENSG00000110799	ENST00000261405	D	0.91577	-2.87	5.55	5.55	0.83447	Protease inhibitor I8, cysteine-rich trypsin inhibitor-like (2);	0.000000	0.43919	D	0.000511	D	0.95847	0.8648	M	0.88450	2.955	0.80722	D	1	P;D	0.71674	0.775;0.998	B;D	0.83275	0.438;0.996	D	0.96404	0.9299	10	0.66056	D	0.02	.	14.5333	0.67942	0.0:0.0:0.0:1.0	.	333;333	B4DNX0;P04275	.;VWF_HUMAN	G	333	ENSP00000261405:E333G	ENSP00000261405:E333G	E	-	2	0	VWF	6051869	1.000000	0.71417	1.000000	0.80357	0.901000	0.52897	1.258000	0.32944	2.112000	0.64535	0.459000	0.35465	GAG		0.572	VWF-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399020.1	NM_000552	Missense_Mutation	C	6181608	T	C	6181608	5	2	655	1	0	0	0	0	0	0	1	0	17258	1565	54	3	7619	3	VWF	12	6181608	Splice_Site	SNP	T	TCGA-KN-8418-01A-11D-2310-10		6181608	127670287	35	40648										
SPERT	220082	mdanderson.org	37	chr13	46288145	46288145	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	aggagctgcgcgccctgcggAagatggtcagcaacatgtcc	14	12	1	1	rs7317245	byFrequency	TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr13:46288145A>G	ENST00000310521.1	+	3	1065	c.985A>G	c.(985-987)Aag>Gag	p.K329E	SPERT_ENST00000378966.3_Missense_Mutation_p.K293E	NM_152719.1	NP_689932.1	Q8NA61	SPERT_HUMAN	spermatid associated	329			K -> E (in dbSNP:rs7317245).			cytoplasmic membrane-bounded vesicle (GO:0016023)				NS(1)|central_nervous_system(1)|large_intestine(5)|lung(5)|ovary(1)|pancreas(1)|prostate(1)	15		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)		CGCCCTGCGGAAGATGGTCAG	0.716													g|||	2477	0.494609	0.3003	0.4914	5008	,	,		15278	0.5		0.6869	False		,,,				2504	0.5562															0									GLU/LYS	1638,2406		401,836,785	4	4	4		985	3.2	0.9	13	dbSNP_116	4	5608,2244		2132,1344,450	yes	missense	SPERT	NM_152719.1	56	2533,2180,1235	GG,GA,AA		28.5787,40.5045,39.0888	benign	329/449	46288145	7246,4650	2022	3926	5948	SO:0001583	missense	220082			AK093129	CCDS9399.1, CCDS66540.1	13q14.13	2010-03-23			ENSG00000174015	ENSG00000174015			30720	protein-coding gene	gene with protein product	"spermatid flower-like structure protein", "testis specific leucine zipper protein nurit", "chibby homolog 2 (Drosophila)"					12204287, 20096028	Standard	NM_001286341		Approved	NURIT, CBY2	uc001van.1	Q8NA61	OTTHUMG00000016861	ENST00000310521.1:c.985A>G	13.37:g.46288145A>G	ENSP00000309189:p.Lys329Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8I5|Q8NHV2	Missense_Mutation	SNP	ENST00000310521.1	37	CCDS9399.1	1169	0.5352564102564102	163	0.3313008130081301	196	0.5414364640883977	285	0.4982517482517482	525	0.6926121372031663	G	0.009	-1.812861	0.00600	0.405045	0.714213	ENSG00000174015	ENST00000310521;ENST00000378966	T;T	0.39056	1.1;1.19	4.9	3.16	0.36331	.	0.382628	0.22713	N	0.056559	T	0.00012	0.0000	N	0.01352	-0.895	0.58432	P	1.999999999946489E-6	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.44050	-0.9353	9	0.02654	T	1	.	5.0269	0.14389	0.19:0.1856:0.6243:0.0	rs7317245;rs61188622;rs7317245	293;329	Q8NA61-2;Q8NA61	.;SPERT_HUMAN	E	329;293	ENSP00000309189:K329E;ENSP00000368249:K293E	ENSP00000309189:K329E	K	+	1	0	SPERT	45186146	0.996000	0.38824	0.890000	0.34922	0.030000	0.12068	1.217000	0.32455	0.277000	0.22141	-0.119000	0.15052	AAG		0.716	SPERT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044786.2	NM_152719		G	46288145	A	G	46288145	3	3	655	1	0	0	0	0	1	0	0	0	15051	247	9	3	995	3	SPERT	13	46288145	Missense_Mutation	SNP	A	TCGA-KN-8418-01A-11D-2310-10		46288145	68881733	36	40649										
DMXL2	23312	broad.mit.edu	37	chr15	51787229	51787229	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	tgagtgaattaccttgatgaAgtagctgcactcggtataaa	10	6	0	4			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr15:51787229A>G	ENST00000251076.5	-	19	5062	c.4775T>C	c.(4774-4776)cTt>cCt	p.L1592P	DMXL2_ENST00000449909.3_Missense_Mutation_p.L956P|DMXL2_ENST00000543779.2_Missense_Mutation_p.L1592P|RP11-707P17.1_ENST00000561007.1_RNA	NM_001174116.1|NM_015263.3	NP_001167587.1|NP_056078.2	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	1592						cell junction (GO:0030054)|extracellular space (GO:0005615)|membrane (GO:0016020)|synaptic vesicle (GO:0008021)	Rab GTPase binding (GO:0017137)			breast(4)|central_nervous_system(1)|cervix(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(26)|liver(1)|lung(28)|ovary(7)|prostate(7)|skin(4)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	101				all cancers(107;0.00494)		ACCTTGATGAAGTAGCTGCAC	0.403																																																0													106	95	99					15																	51787229		2195	4293	6488	SO:0001583	missense	23312			AB020663	CCDS10141.1, CCDS53945.1, CCDS53946.1	15q21.2	2013-01-10			ENSG00000104093	ENSG00000104093		"WD repeat domain containing"	2938	protein-coding gene	gene with protein product	"rabconnectin 3"	612186					Standard	NM_001174116		Approved	RC3, KIAA0856	uc010ufy.2	Q8TDJ6	OTTHUMG00000131749	ENST00000251076.5:c.4775T>C	15.37:g.51787229A>G	ENSP00000251076:p.Leu1592Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTR3|B7ZMH3|F5GWF1|O94938	Missense_Mutation	SNP	ENST00000251076.5	37	CCDS10141.1	.	.	.	.	.	.	.	.	.	.	A	25.1	4.602697	0.87157	.	.	ENSG00000104093	ENST00000251076;ENST00000543779;ENST00000449909	T;T;T	0.41758	0.99;0.99;0.99	5.75	5.75	0.90469	.	0.000000	0.85682	D	0.000000	T	0.61652	0.2364	L	0.59436	1.845	0.80722	D	1	D;D;D	0.89917	0.999;0.999;1.0	D;D;D	0.91635	0.965;0.998;0.999	T	0.62950	-0.6745	10	0.56958	D	0.05	.	15.7131	0.77646	1.0:0.0:0.0:0.0	.	1592;956;1592	F5GWF1;B2RTR3;Q8TDJ6	.;.;DMXL2_HUMAN	P	1592;1592;956	ENSP00000251076:L1592P;ENSP00000441858:L1592P;ENSP00000400855:L956P	ENSP00000251076:L1592P	L	-	2	0	DMXL2	49574521	1.000000	0.71417	0.998000	0.56505	0.991000	0.79684	8.930000	0.92872	2.194000	0.70268	0.482000	0.46254	CTT		0.403	DMXL2-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000254671.2	NM_015263		G	51787229	A	G	51787229	3	3	655	1	0	0	0	0	1	0	0	0	4597	72	3	3	4438	3	DMXL2	15	51787229	Missense_Mutation	SNP	A	TCGA-KN-8418-01A-11D-2310-10		51787229	50744163	37	40650										
HEXA	3073	broad.mit.edu	37	chr15	72640036	72640037	+	Frame_Shift_Ins	INS	-	-	T													0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	cccggctcacctttactttaINSttatcaaacacctcctgcca							TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr15:72640036_72640037insT	ENST00000268097.5	-	10	1639_1640	c.1136_1137insA	c.(1135-1137)aatfs	p.N379fs	RP11-106M3.3_ENST00000570175.1_RNA|RP11-106M3.2_ENST00000379915.4_RNA|HEXA_ENST00000566304.1_Frame_Shift_Ins_p.N390fs|HEXA_ENST00000567159.1_Frame_Shift_Ins_p.N379fs|HEXA_ENST00000429918.2_Frame_Shift_Ins_p.N206fs|HEXA_ENST00000457859.2_Intron	NM_000520.4	NP_000511.2	P06865	HEXA_HUMAN	hexosaminidase A (alpha polypeptide)	379					carbohydrate metabolic process (GO:0005975)|cell death (GO:0008219)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|glycosaminoglycan metabolic process (GO:0030203)|glycosphingolipid metabolic process (GO:0006687)|hyaluronan catabolic process (GO:0030214)|hyaluronan metabolic process (GO:0030212)|keratan sulfate catabolic process (GO:0042340)|keratan sulfate metabolic process (GO:0042339)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)	beta-N-acetylhexosaminidase activity (GO:0004563)|protein heterodimerization activity (GO:0046982)			breast(2)|cervix(1)|endometrium(3)|kidney(3)|lung(7)|ovary(3)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	24						CCTTTACTTTATTATCAAACAC	0.545																																																0																																										SO:0001589	frameshift_variant	3073			M13520	CCDS10243.1	15q24.1	2012-10-02			ENSG00000213614	ENSG00000213614	3.2.1.52		4878	protein-coding gene	gene with protein product	"Tay Sachs disease", "GM2 gangliosidosis"	606869				2952641, 3013851	Standard	NM_000520		Approved		uc002aun.4	P06865	OTTHUMG00000133445	ENST00000268097.5:c.1137dupA	15.37:g.72640038_72640038dupT	ENSP00000268097:p.Asn379fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DKE7|E7ENH7|Q53HS8|Q6AI32	Frame_Shift_Ins	INS	ENST00000268097.5	37	CCDS10243.1																																																																																				0.545	HEXA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257317.2	NM_000520		T	72640037	-	T	72640036	7	5	655	1	0	1	1	0	0	0	0	0	7080	446	16	0	472	0	HEXA	15	72640036	Frame_Shift_Ins	INS	-	TCGA-KN-8418-01A-11D-2310-10	20852807	72640036	29891356	38	40651										
CHTF18	63922	broad.mit.edu	37	chr16	840180	840180	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	tcctcccttccccacagggcTctctcctccacgtcccatgg	6	21	1	0			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr16:840180T>C	ENST00000262315.9	+	5	673	c.610T>C	c.(610-612)Tct>Cct	p.S204P	RPUSD1_ENST00000007264.2_5'Flank|CHTF18_ENST00000455171.2_Missense_Mutation_p.S232P|RPUSD1_ENST00000567114.1_5'Flank|RPUSD1_ENST00000565809.1_5'Flank|CHTF18_ENST00000491530.1_3'UTR|CHTF18_ENST00000317063.6_Missense_Mutation_p.S401P|RPUSD1_ENST00000561734.1_5'Flank	NM_022092.2	NP_071375.1	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor 18 homolog (S. cerevisiae)	204					cell cycle (GO:0007049)|DNA replication (GO:0006260)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)			endometrium(1)|kidney(3)|liver(2)|lung(4)|prostate(1)	11		Hepatocellular(780;0.00335)				CCCACAGGGCTCTCTCCTCCA	0.657																																																0													32	36	35					16																	840180		2047	4196	6243	SO:0001583	missense	63922			BC018184	CCDS45371.1	16p13.3	2010-04-21	2003-12-09		ENSG00000127586	ENSG00000127586		"ATPases / AAA-type"	18435	protein-coding gene	gene with protein product		613201	"chromosome 16 open reading frame 41"	C16orf41		12171929	Standard	NM_022092		Approved	CHL12, C321D2.4, Ctf18	uc002cke.4	Q8WVB6	OTTHUMG00000047838	ENST00000262315.9:c.610T>C	16.37:g.840180T>C	ENSP00000262315:p.Ser204Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBA2|D3DU68|Q7Z6Y4|Q7Z6Y6|Q9BR83|Q9BRG5|Q9H7K3	Missense_Mutation	SNP	ENST00000262315.9	37	CCDS45371.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	8.836|8.836	0.941125|0.941125	0.18281|0.18281	.|.	.|.	ENSG00000127586|ENSG00000127586	ENST00000426047|ENST00000317063;ENST00000455171;ENST00000262315	.|T;T;T	.|0.11169	.|2.8;2.86;2.86	4.9|4.9	0.411|0.411	0.16392|0.16392	.|.	.|1.230480	.|0.05417	.|N	.|0.543613	T|T	0.03178|0.03178	0.0093|0.0093	N|N	0.00841|0.00841	-1.15|-1.15	0.09310|0.09310	N|N	1|1	.|B;B;B	.|0.02656	.|0.0;0.0;0.0	.|B;B;B	.|0.06405	.|0.0;0.002;0.0	T|T	0.37361|0.37361	-0.9709|-0.9709	5|10	.|0.26408	.|T	.|0.33	-3.3244|-3.3244	4.3262|4.3262	0.11041|0.11041	0.0:0.6021:0.185:0.2129|0.0:0.6021:0.185:0.2129	.|.	.|204;232;204	.|B4DEY3;Q8WVB6-2;Q8WVB6	.|.;.;CTF18_HUMAN	P|P	99|401;232;204	.|ENSP00000313029:S401P;ENSP00000406252:S232P;ENSP00000262315:S204P	.|ENSP00000262315:S204P	L|S	+|+	2|1	0|0	CHTF18|CHTF18	780181|780181	0.000000|0.000000	0.05858|0.05858	0.003000|0.003000	0.11579|0.11579	0.002000|0.002000	0.02628|0.02628	0.161000|0.161000	0.16481|0.16481	1.123000|1.123000	0.41961|0.41961	-0.876000|-0.876000	0.02978|0.02978	CTC|TCT		0.657	CHTF18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109061.3	NM_022092		C	840180	T	C	840180	3	2	655	1	0	0	0	0	1	0	0	0	3416	1551	54	3	628	3	CHTF18	16	840180	Missense_Mutation	SNP	T	TCGA-KN-8418-01A-11D-2310-10		840180	89514573	39	40652										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	7578396	7578396	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	ctatctgagcagcgctcatgGtgggggcagcgcctcacaac	13	13	3	1			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr17:7578396G>T	ENST00000269305.4	-	5	723	c.534C>A	c.(532-534)caC>caA	p.H178Q	TP53_ENST00000455263.2_Missense_Mutation_p.H178Q|TP53_ENST00000420246.2_Missense_Mutation_p.H178Q|TP53_ENST00000445888.2_Missense_Mutation_p.H178Q|TP53_ENST00000574684.1_5'UTR|TP53_ENST00000359597.4_Missense_Mutation_p.H178Q|TP53_ENST00000413465.2_Missense_Mutation_p.H178Q	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	178	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with FBXO42.|Required for interaction with ZNF385A.		H -> D (in sporadic cancers; somatic mutation).|H -> HPHP (in a Burkitt lymphoma). {ECO:0000269|PubMed:1303181}.|H -> L (in a sporadic cancer; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> Q (in sporadic cancers; somatic mutation).|H -> R (in sporadic cancers; somatic mutation).|H -> Y (in sporadic cancers; somatic mutation).|HH -> QS (in a sporadic cancer; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.P177_C182delPHHERC(8)|p.H179Y(8)|p.0?(8)|p.H178Q(5)|p.C176_R181delCPHHER(3)|p.R174fs*24(3)|p.H178_S183delHHERCS(3)|p.R175_E180delRCPHHE(3)|p.P177fs*3(2)|p.H178H(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.C176fs*65(1)|p.C176fs*68(1)|p.P177_H179delPHH(1)|p.V173fs*23(1)|p.R175_H178>X(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.H179del(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.H178del(1)|p.R174_E180>K(1)|p.H46_S51delHHERCS(1)|p.H178fs*6(1)|p.P177_E180delPHHE(1)|p.R42fs*24(1)|p.H178fs*3(1)|p.H85_S90delHHERCS(1)|p.R174fs*3(1)|p.H178_H179>QY(1)|p.E171fs*61(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	AGCGCTCATGGTGGGGGCAGC	0.642		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	71	Deletion - In frame(26)|Deletion - Frameshift(18)|Substitution - Missense(13)|Whole gene deletion(8)|Complex - deletion inframe(2)|Substitution - coding silent(2)|Insertion - Frameshift(1)|Complex - compound substitution(1)	large_intestine(17)|upper_aerodigestive_tract(12)|skin(8)|breast(8)|central_nervous_system(4)|haematopoietic_and_lymphoid_tissue(4)|oesophagus(4)|bone(4)|ovary(3)|lung(2)|pancreas(2)|stomach(1)|thymus(1)|liver(1)											47	48	47					17																	7578396		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.534C>A	17.37:g.7578396G>T	ENSP00000269305:p.His178Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	G	21.4	4.143016	0.77888	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944;ENST00000414315	D;D;D;D;D;D;D;D	0.99778	-6.73;-6.73;-6.73;-6.73;-6.73;-6.73;-6.73;-6.73	5.59	1.36	0.22044	p53, DNA-binding domain (1);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.050213	0.85682	D	0.000000	D	0.99504	0.9823	M	0.69248	2.105	0.58432	D	0.999995	D;D;D;D;D;D;D	0.89917	0.998;1.0;0.975;1.0;1.0;1.0;1.0	D;D;P;D;D;D;D	0.97110	0.973;0.999;0.808;0.997;1.0;1.0;0.999	D	0.99425	1.0934	10	0.87932	D	0	-32.3354	5.932	0.19144	0.2114:0.0:0.6512:0.1374	.	139;178;178;85;178;178;178	B4E095;P04637-2;P04637-3;E9PFT5;P04637;Q1MSW8;E7EQX7	.;.;.;.;P53_HUMAN;.;.	Q	178;178;178;178;178;178;167;85;46;85;46	ENSP00000410739:H178Q;ENSP00000352610:H178Q;ENSP00000269305:H178Q;ENSP00000398846:H178Q;ENSP00000391127:H178Q;ENSP00000391478:H178Q;ENSP00000425104:H46Q;ENSP00000423862:H85Q	ENSP00000269305:H178Q	H	-	3	2	TP53	7519121	1.000000	0.71417	0.990000	0.47175	0.866000	0.49608	4.023000	0.57211	0.113000	0.18004	-0.140000	0.14226	CAC		0.642	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		T	7578396	G	T	7578396	3	4	655	1	0	0	0	0	1	0	0	0	16393	1252	44	4	764	4	TP53	17	7578396	Missense_Mutation	SNP	G	TCGA-KN-8418-01A-11D-2310-10		7578396	73616814	40	40653										
ATAD5	79915	broad.mit.edu	37	chr17	29161986	29161986	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	ttgtgttccttctgaaactgTcgacgaaatagtcaaaagtg	9	7	2	1			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr17:29161986T>C	ENST00000321990.4	+	2	1265	c.887T>C	c.(886-888)gTc>gCc	p.V296A	CTD-2349P21.11_ENST00000580873.1_RNA	NM_024857.3	NP_079133.3	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	296					cellular response to DNA damage stimulus (GO:0006974)	nucleus (GO:0005634)	ATP binding (GO:0005524)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(8)|kidney(3)|large_intestine(18)|lung(13)|ovary(3)|pancreas(1)	51		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				TCTGAAACTGTCGACGAAATA	0.363																																																0													43	45	45					17																	29161986		2203	4299	6502	SO:0001583	missense	79915				CCDS11260.1	17q11.2	2010-04-21	2007-02-08	2007-02-08	ENSG00000176208	ENSG00000176208		"ATPases / AAA-type"	25752	protein-coding gene	gene with protein product	"enhanced level of genomic instability 1 homolog (S. cerevisiae)"	609534	"chromosome 17 open reading frame 41"	C17orf41		15983387, 11468690, 19755857	Standard	NM_024857		Approved	FLJ12735, FRAG1, ELG1	uc002hfs.1	Q96QE3	OTTHUMG00000132794	ENST00000321990.4:c.887T>C	17.37:g.29161986T>C	ENSP00000313171:p.Val296Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q05DH0|Q69YR6|Q9H9I1	Missense_Mutation	SNP	ENST00000321990.4	37	CCDS11260.1	.	.	.	.	.	.	.	.	.	.	T	5.654	0.305365	0.10678	.	.	ENSG00000176208	ENST00000321990	T	0.14266	2.52	5.91	-0.71	0.11234	.	1.819450	0.02672	N	0.108661	T	0.07728	0.0194	N	0.21448	0.665	0.09310	N	1	B;B	0.16603	0.018;0.003	B;B	0.12156	0.007;0.001	T	0.21075	-1.0256	10	0.08837	T	0.75	.	1.8808	0.03227	0.1166:0.3259:0.2497:0.3077	.	296;296	Q96QE3-2;Q96QE3	.;ATAD5_HUMAN	A	296	ENSP00000313171:V296A	ENSP00000313171:V296A	V	+	2	0	ATAD5	26186112	0.010000	0.17322	0.001000	0.08648	0.567000	0.35839	-0.188000	0.09642	-0.091000	0.12440	0.533000	0.62120	GTC		0.363	ATAD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256206.2	NM_024857		C	29161986	T	C	29161986	3	2	655	1	0	0	0	0	1	0	0	0	1076	1667	58	3	893	3	ATAD5	17	29161986	Missense_Mutation	SNP	T	TCGA-KN-8418-01A-11D-2310-10	21583590	29161986	52033224	41	40654										
GRB7	2886	ucsc.edu	37	chr17	37901742	37901742	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	tgctgggcgtgtcattgagaAcccccgggaggctctgagtg	16	10	2	2			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr17:37901742A>G	ENST00000309156.4	+	11	1417	c.1160A>G	c.(1159-1161)aAc>aGc	p.N387S	GRB7_ENST00000394209.2_Missense_Mutation_p.N387S|GRB7_ENST00000445327.2_Missense_Mutation_p.N410S|GRB7_ENST00000309185.3_Missense_Mutation_p.N387S|GRB7_ENST00000394204.1_Missense_Mutation_p.N387S|GRB7_ENST00000394211.3_Missense_Mutation_p.N387S	NM_005310.3	NP_005301.2	Q14451	GRB7_HUMAN	growth factor receptor-bound protein 7	387					blood coagulation (GO:0007596)|epidermal growth factor receptor signaling pathway (GO:0007173)|leukocyte migration (GO:0050900)|negative regulation of translation (GO:0017148)|positive regulation of cell migration (GO:0030335)|positive regulation of signal transduction (GO:0009967)|stress granule assembly (GO:0034063)	cell projection (GO:0042995)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|plasma membrane (GO:0005886)	identical protein binding (GO:0042802)|phosphatidylinositol binding (GO:0035091)|protein kinase binding (GO:0019901)|RNA binding (GO:0003723)|SH3/SH2 adaptor activity (GO:0005070)			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	18	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;6.86e-60)|all cancers(3;1.65e-53)|BRCA - Breast invasive adenocarcinoma(8;2.03e-43)|STAD - Stomach adenocarcinoma(3;1.43e-12)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			GTCATTGAGAACCCCCGGGAG	0.607																																																0													63	67	66					17																	37901742		2203	4300	6503	SO:0001583	missense	2886			D43772	CCDS11345.1, CCDS56028.1	17q12	2013-02-14			ENSG00000141738	ENSG00000141738		"Pleckstrin homology (PH) domain containing", "SH2 domain containing"	4567	protein-coding gene	gene with protein product		601522					Standard	NM_005310		Approved		uc021twu.1	Q14451	OTTHUMG00000133253	ENST00000309156.4:c.1160A>G	17.37:g.37901742A>G	ENSP00000310771:p.Asn387Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAV1|B3KNL0|B3KWP9|B7WP75|J3KQM4|Q53YD3|Q92568|Q96DF9|Q9Y220	Missense_Mutation	SNP	ENST00000309156.4	37	CCDS11345.1	.	.	.	.	.	.	.	.	.	.	A	17.46	3.394536	0.62066	.	.	ENSG00000141738	ENST00000309185;ENST00000309156;ENST00000394211;ENST00000394209;ENST00000445327;ENST00000394204	T;T;T;T;T;T	0.63255	-0.03;1.29;1.29;1.29;1.26;-0.03	5.97	5.97	0.96955	BPS (Between PH and SH2) domain (1);	0.000000	0.85682	D	0.000000	T	0.79429	0.4444	M	0.78049	2.395	0.80722	D	1	D;D	0.89917	0.998;1.0	D;D	0.80764	0.994;0.991	T	0.81111	-0.1081	10	0.56958	D	0.05	-35.7628	15.433	0.75116	1.0:0.0:0.0:0.0	.	387;387	Q14451-2;Q14451	.;GRB7_HUMAN	S	387;387;387;387;410;387	ENSP00000311752:N387S;ENSP00000310771:N387S;ENSP00000377761:N387S;ENSP00000377759:N387S;ENSP00000403459:N410S;ENSP00000377754:N387S	ENSP00000310771:N387S	N	+	2	0	GRB7	35155268	1.000000	0.71417	1.000000	0.80357	0.011000	0.07611	7.419000	0.80179	2.288000	0.76882	0.533000	0.62120	AAC		0.607	GRB7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257024.2	NM_005310		G	37901742	A	G	37901742	3	3	655	1	0	0	0	0	1	0	0	0	6766	43	2	3	1198	3	GRB7	17	37901742	Missense_Mutation	SNP	A	TCGA-KN-8418-01A-11D-2310-10	8739756	37901742	43293468	42	40655										
BPTF	2186	broad.mit.edu;mdanderson.org	37	chr17	65889530	65889530	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	gaaatttcacggttgagcacCaaaaaggaagtgatcatgaa	10	6	2	3			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr17:65889530C>T	ENST00000321892.4	+	8	2539	c.2478C>T	c.(2476-2478)acC>acT	p.T826T	BPTF_ENST00000424123.3_Silent_p.T687T|BPTF_ENST00000335221.5_Silent_p.T826T|BPTF_ENST00000306378.6_Silent_p.T700T			Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	826					anterior/posterior pattern specification (GO:0009952)|ATP catabolic process (GO:0006200)|brain development (GO:0007420)|chromatin remodeling (GO:0006338)|embryonic placenta development (GO:0001892)|endoderm development (GO:0007492)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|microtubule cytoskeleton (GO:0015630)|nucleolus (GO:0005730)|nucleus (GO:0005634)|NURF complex (GO:0016589)	sequence-specific DNA binding (GO:0043565)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(16)|lung(23)|ovary(3)|pancreas(2)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	78	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)			GGTTGAGCACCAAAAAGGAAG	0.343																																																0													55	53	53					17																	65889530		2202	4300	6502	SO:0001819	synonymous_variant	2186			AY282495	CCDS11673.1	17q24	2013-01-28	2006-12-01	2006-12-01	ENSG00000171634	ENSG00000171634		"Zinc fingers, PHD-type"	3581	protein-coding gene	gene with protein product		601819	"fetal Alzheimer antigen"	FALZ		8975731, 10662542, 16728976	Standard	NM_182641		Approved	FAC1, NURF301	uc002jgf.3	Q12830	OTTHUMG00000132254	ENST00000321892.4:c.2478C>T	17.37:g.65889530C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6NX67|Q7Z7D6|Q9UIG2	Silent	SNP	ENST00000321892.4	37																																																																																					0.343	BPTF-201	KNOWN	basic	protein_coding	protein_coding		NM_182641, NM_004459		T	65889530	C	T	65889530	2	4	655	1	0	0	0	0	0	0	0	1	1497	581	21	2		2	BPTF	17	65889530	Silent	SNP	C	TCGA-KN-8418-01A-11D-2310-10	27987788	65889530	15305680	43	40656										
MUC16	94025	mdanderson.org	37	chr19	8999395	8999395	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	acatcacaactactcaccatTgacatagagactgtccctgt	5	13	2	2	rs200813849		TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr19:8999395T>C	ENST00000397910.4	-	56	40983	c.40780A>G	c.(40780-40782)Aat>Gat	p.N13594D	MUC16_ENST00000380951.5_Missense_Mutation_p.N235D	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13596	SEA 10. {ECO:0000255|PROSITE- ProRule:PRU00188}.			Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TACTCACCATTGACATAGAGA	0.562																																																0													231	193	205					19																	8999395		2076	4217	6293	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.40780A>G	19.37:g.8999395T>C	ENSP00000381008:p.Asn13594Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	.	13.42	2.232301	0.39498	.	.	ENSG00000181143	ENST00000397910;ENST00000380951	T;T	0.37584	1.19;1.19	3.48	2.46	0.29980	SEA (1);	.	.	.	.	T	0.56891	0.2016	M	0.86343	2.81	.	.	.	B;P	0.48911	0.235;0.917	B;D	0.63488	0.029;0.915	T	0.63659	-0.6587	8	0.52906	T	0.07	.	5.163	0.15071	0.0:0.1391:0.0:0.8609	.	21239;13594	Q8WXI7;B5ME49	MUC16_HUMAN;.	D	13594;235	ENSP00000381008:N13594D;ENSP00000370338:N235D	ENSP00000370338:N235D	N	-	1	0	MUC16	8860395	1.000000	0.71417	1.000000	0.80357	0.750000	0.42670	1.033000	0.30191	0.554000	0.29061	0.454000	0.30748	AAT		0.562	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		C	8999395	T	C	8999395	3	2	655	1	0	0	0	0	1	0	0	0	9980	1812	63	3	2859	3	MUC16	19	8999395	Missense_Mutation	SNP	T	TCGA-KN-8418-01A-11D-2310-10		8999395	50129588	44	40657										
MUC16	94025	mdanderson.org	37	chr19	9002587	9002587	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	ggctcagcttccagtacagcCgctctctgtccagtccaggg	11	15	2	0	rs201053591		TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr19:9002587C>T	ENST00000397910.4	-	51	40432	c.40229G>A	c.(40228-40230)cGg>cAg	p.R13410Q	MUC16_ENST00000380951.5_Missense_Mutation_p.R51Q	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13412	SEA 9. {ECO:0000255|PROSITE- ProRule:PRU00188}.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						CCAGTACAGCCGCTCTCTGTC	0.597																																																0													133	121	125					19																	9002587		2098	4222	6320	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.40229G>A	19.37:g.9002587C>T	ENSP00000381008:p.Arg13410Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	6.604|6.604	0.479880|0.479880	0.12581|0.12581	.|.	.|.	ENSG00000181143|ENSG00000181143	ENST00000542240|ENST00000397910;ENST00000380951	.|T;T	.|0.28666	.|1.6;1.6	2.75|2.75	-5.21|-5.21	0.02815|0.02815	.|SEA (1);	.|.	.|.	.|.	.|.	T|T	0.24236|0.24236	0.0587|0.0587	.|.	.|.	.|.	.|.	.|.	.|.	.|B;P	.|0.50528	.|0.007;0.936	.|B;P	.|0.48089	.|0.003;0.566	T|T	0.32693|0.32693	-0.9897|-0.9897	3|7	.|0.08381	.|T	.|0.77	1.1855|1.1855	14.8189|14.8189	0.70055|0.70055	0.0:0.774:0.0:0.226|0.0:0.774:0.0:0.226	.|.	.|21055;13410	.|Q8WXI7;B5ME49	.|MUC16_HUMAN;.	S|Q	250|13410;51	.|ENSP00000381008:R13410Q;ENSP00000370338:R51Q	.|ENSP00000370338:R51Q	G|R	-|-	1|2	0|0	MUC16|MUC16	8863587|8863587	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.001000|0.001000	0.01503|0.01503	-2.436000|-2.436000	0.01019|0.01019	-2.287000|-2.287000	0.00669|0.00669	-2.545000|-2.545000	0.00179|0.00179	GGC|CGG		0.597	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		T	9002587	C	T	9002587	3	4	655	1	0	0	0	0	1	0	0	0	9980	652	23	1	3430	1	MUC16	19	9002587	Missense_Mutation	SNP	C	TCGA-KN-8418-01A-11D-2310-10	3192	9002587	50126396	45	40658										
MUC16	94025	mdanderson.org	37	chr19	9018539	9018539	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	atggtgaagttgagggtgaaCagcaccaggagagggccagc	17	7	0	4			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr19:9018539C>T	ENST00000397910.4	-	24	37838	c.37635G>A	c.(37633-37635)ctG>ctA	p.L12545L		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	12547	SEA 4. {ECO:0000255|PROSITE- ProRule:PRU00188}.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TGAGGGTGAACAGCACCAGGA	0.468																																																0													214	183	193					19																	9018539		1952	4160	6112	SO:0001819	synonymous_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.37635G>A	19.37:g.9018539C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Silent	SNP	ENST00000397910.4	37	CCDS54212.1																																																																																				0.468	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		T	9018539	C	T	9018539	2	4	655	1	0	0	0	0	0	0	0	1	9980	465	17	2		2	MUC16	19	9018539	Silent	SNP	C	TCGA-KN-8418-01A-11D-2310-10	15952	9018539	50110444	46	40659										
CACNA1A	773	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	13340907	13340907	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	acttcttaccaagctgcgggGtcatactcggcccagacacg	10	14	2	1	rs372083869		TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr19:13340907G>A	ENST00000360228.5	-	36	5516	c.5517C>T	c.(5515-5517)gaC>gaT	p.D1839D	CACNA1A_ENST00000573710.2_Silent_p.D1840D|CACNA1A_ENST00000574822.1_5'UTR	NM_000068.3|NM_001127222.1|NM_001174080.1|NM_023035.2	NP_000059.3|NP_001120694.1|NP_001167551.1|NP_075461.2	O00555	CAC1A_HUMAN	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	1840					adult walking behavior (GO:0007628)|behavioral response to pain (GO:0048266)|calcium ion import (GO:0070509)|calcium ion-dependent exocytosis (GO:0017156)|calcium ion-dependent exocytosis of neurotransmitter (GO:0048791)|cell death (GO:0008219)|cell growth (GO:0016049)|cellular chloride ion homeostasis (GO:0030644)|cerebellar molecular layer development (GO:0021679)|cerebellar Purkinje cell differentiation (GO:0021702)|cerebellum maturation (GO:0021590)|dendrite morphogenesis (GO:0048813)|energy reserve metabolic process (GO:0006112)|gamma-aminobutyric acid secretion (GO:0014051)|gamma-aminobutyric acid signaling pathway (GO:0007214)|glucose metabolic process (GO:0006006)|hormone metabolic process (GO:0042445)|membrane depolarization (GO:0051899)|membrane depolarization during action potential (GO:0086010)|musculoskeletal movement, spinal reflex action (GO:0050883)|negative regulation of hormone biosynthetic process (GO:0032353)|negative regulation of neuron apoptotic process (GO:0043524)|neuromuscular process controlling balance (GO:0050885)|neuromuscular synaptic transmission (GO:0007274)|neurotransmitter metabolic process (GO:0042133)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|receptor clustering (GO:0043113)|regulation of acetylcholine secretion, neurotransmission (GO:0014056)|regulation of axonogenesis (GO:0050770)|regulation of calcium ion-dependent exocytosis (GO:0017158)|regulation of insulin secretion (GO:0050796)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|spinal cord motor neuron differentiation (GO:0021522)|sulfur amino acid metabolic process (GO:0000096)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transmission of nerve impulse (GO:0019226)|vestibular nucleus development (GO:0021750)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|syntaxin binding (GO:0019905)|voltage-gated calcium channel activity (GO:0005245)			breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(25)|prostate(2)|urinary_tract(1)	42			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Loperamide(DB00836)|Pregabalin(DB00230)|Spironolactone(DB00421)|Verapamil(DB00661)	AAGCTGCGGGGTCATACTCGG	0.597																																																0													63	69	67					19																	13340907		2063	4228	6291	SO:0001819	synonymous_variant	773			U79666	CCDS45998.1, CCDS45999.1	19p13	2014-09-17			ENSG00000141837	ENSG00000141837		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1388	protein-coding gene	gene with protein product		601011		CACNL1A4, SCA6, MHP1, MHP		8825650, 16382099, 23827678	Standard	NM_000068		Approved	Cav2.1, EA2, APCA, HPCA, FHM	uc010xne.2	O00555	OTTHUMG00000044590	ENST00000360228.5:c.5517C>T	19.37:g.13340907G>A		Somatic		WXS	Illumina HiSeq	Phase_I	J3KP41|P78510|P78511|Q16290|Q92690|Q99790|Q99791|Q99792|Q99793|Q9NS88|Q9UDC4	Silent	SNP	ENST00000360228.5	37	CCDS45998.1																																																																																				0.597	CACNA1A-001	KNOWN	non_canonical_U12|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000104062.2	NM_000068		A	13340907	G	A	13340907	2	1	655	1	0	0	0	0	0	0	0	1	2540	1252	44	2		2	CACNA1A	19	13340907	Silent	SNP	G	TCGA-KN-8418-01A-11D-2310-10	4322368	13340907	45788076	47	40660										
SPINT2	10653	broad.mit.edu;mdanderson.org	37	chr19	38782514	38782514	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	gggctgttcgtgatggtgttGatcctcttcctgggagcctc	14	10	1	2			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr19:38782514G>A	ENST00000301244.7	+	7	1062	c.627G>A	c.(625-627)ttG>ttA	p.L209L	SPINT2_ENST00000454580.3_Silent_p.L152L|SPINT2_ENST00000587090.1_Silent_p.L159L|Y_RNA_ENST00000363339.1_RNA|CTB-102L5.4_ENST00000591889.1_Intron	NM_021102.3	NP_066925.1	O43291	SPIT2_HUMAN	serine peptidase inhibitor, Kunitz type, 2	209					cellular component movement (GO:0006928)|negative regulation of endopeptidase activity (GO:0010951)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)	endopeptidase inhibitor activity (GO:0004866)|serine-type endopeptidase inhibitor activity (GO:0004867)			large_intestine(2)|lung(1)|ovary(1)	4	all_cancers(60;6.83e-07)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TGATGGTGTTGATCCTCTTCC	0.647																																																0													89	71	77					19																	38782514		2203	4300	6503	SO:0001819	synonymous_variant	10653			U78095	CCDS12510.1, CCDS54261.1	19q13.2	2010-05-12	2005-08-17		ENSG00000167642	ENSG00000167642			11247	protein-coding gene	gene with protein product	"placental bikunin"	605124	"serine protease inhibitor, Kunitz type, 2"			9115294, 9346890	Standard	NM_021102		Approved	Kop, HAI-2	uc002ohr.2	O43291		ENST00000301244.7:c.627G>A	19.37:g.38782514G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K667|B4DLU1|O00271|O14895|Q5TZQ3|Q969E0	Silent	SNP	ENST00000301244.7	37	CCDS12510.1																																																																																				0.647	SPINT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458151.2			A	38782514	G	A	38782514	2	1	655	1	0	0	0	0	0	0	0	1	15081	1281	45	2		2	SPINT2	19	38782514	Silent	SNP	G	TCGA-KN-8418-01A-11D-2310-10	25441607	38782514	20346469	48	40661										
ZNF28	7576	mdanderson.org	37	chr19	53303332	53303332	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	gtgccaggtgtgaatccctcCggaaagccttgtcacaaacc	10	13	1	1	rs142442328		TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr19:53303332C>T	ENST00000457749.2	-	4	1885	c.1766G>A	c.(1765-1767)cGg>cAg	p.R589Q	ZNF28_ENST00000414252.2_Missense_Mutation_p.R536Q|ZNF28_ENST00000360272.4_Missense_Mutation_p.R536Q|ZNF28_ENST00000438150.2_Missense_Mutation_p.R536Q	NM_006969.3	NP_008900.3	P17035	ZNF28_HUMAN	zinc finger protein 28	589					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(11)|liver(1)|lung(10)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	34				GBM - Glioblastoma multiforme(134;0.0386)|Lung(386;0.145)		TGAATCCCTCCGGAAAGCCTT	0.443																																																0													161	161	161					19																	53303332		2203	4300	6503	SO:0001583	missense	7576			X52355	CCDS33093.1, CCDS33093.2	19q13.41	2013-01-08	2006-05-10		ENSG00000198538	ENSG00000198538		"Zinc fingers, C2H2-type", "-"	13073	protein-coding gene	gene with protein product			"zinc finger protein 28 (KOX 24)"				Standard	NR_036599		Approved	KOX24, DKFZp781D0275	uc002qad.3	P17035	OTTHUMG00000154564	ENST00000457749.2:c.1766G>A	19.37:g.53303332C>T	ENSP00000397693:p.Arg589Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAK9|B4E3G0|B9EIK7|Q5H9V1|Q5HYM9|Q6ZML9|Q6ZN56	Missense_Mutation	SNP	ENST00000457749.2	37	CCDS33093.2	.	.	.	.	.	.	.	.	.	.	-	0.725	-0.782048	0.02907	.	.	ENSG00000198538	ENST00000438150;ENST00000457749;ENST00000360272;ENST00000414252;ENST00000391783	T;T;T;T;T	0.07444	3.19;3.19;3.19;3.19;3.19	1.61	-3.23	0.05109	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.05823	0.0152	L	0.39085	1.19	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.27468	-1.0073	9	0.46703	T	0.11	.	3.1903	0.06615	0.1094:0.4603:0.1859:0.2444	.	589	P17035	ZNF28_HUMAN	Q	536;589;536;536;536	ENSP00000412143:R536Q;ENSP00000397693:R589Q;ENSP00000353410:R536Q;ENSP00000444965:R536Q;ENSP00000375661:R536Q	ENSP00000353410:R536Q	R	-	2	0	ZNF28	57995144	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-6.783000	0.00054	-4.045000	0.00079	-2.453000	0.00207	CGG		0.443	ZNF28-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336038.2	NM_006969		T	53303332	C	T	53303332	3	4	655	1	0	0	0	0	1	0	0	0	17825	652	23	1	394	1	ZNF28	19	53303332	Missense_Mutation	SNP	C	TCGA-KN-8418-01A-11D-2310-10	14520818	53303332	5825651	49	40662										
USP29	57663	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr19	57641826	57641826	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	gtgattccctggttctacccGttgaaccagacaagaatgcc	9	12	1	4	rs141050797		TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr19:57641826G>A	ENST00000254181.4	+	4	2237	c.1783G>A	c.(1783-1785)Gtt>Att	p.V595I	USP29_ENST00000598197.1_Missense_Mutation_p.V595I	NM_020903.2	NP_065954.1	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	595	USP.				ubiquitin-dependent protein catabolic process (GO:0006511)		cysteine-type peptidase activity (GO:0008234)|ubiquitin thiolesterase activity (GO:0004221)			breast(3)|endometrium(4)|kidney(3)|large_intestine(15)|lung(47)|ovary(2)|pancreas(1)|prostate(2)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	85		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)		GGTTCTACCCGTTGAACCAGA	0.488													A|||	1	0.000199681	0.0008	0.0	5008	,	,		19382	0.0		0.0	False		,,,				2504	0.0															0								A	ILE/VAL	3,4403	824.5+/-416.5	0,3,2200	69	68	68		1783	-4.2	0	19	dbSNP_134	68	0,8600		0,0,4300	yes	missense	USP29	NM_020903.2	29	0,3,6500	AA,AG,GG		0.0,0.0681,0.0231	benign	595/923	57641826	3,13003	2203	4300	6503	SO:0001583	missense	57663				CCDS33124.1	19q13.4	2008-06-23	2005-08-08			ENSG00000131864		"Ubiquitin-specific peptidases"	18563	protein-coding gene	gene with protein product		609546	"ubiquitin specific protease 29"			12838346	Standard	NM_020903		Approved		uc002qny.3	Q9HBJ7		ENST00000254181.4:c.1783G>A	19.37:g.57641826G>A	ENSP00000254181:p.Val595Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000254181.4	37	CCDS33124.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	A	0.004	-2.321542	0.00232	6.81E-4	0.0	ENSG00000131864	ENST00000254181	T	0.48522	0.81	2.09	-4.19	0.03835	Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2 (2);	.	.	.	.	T	0.14356	0.0347	N	0.01048	-1.04	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.23762	-1.0179	9	0.06236	T	0.91	-0.3075	10.5526	0.45099	0.4498:0.0:0.5502:0.0	.	595	Q9HBJ7	UBP29_HUMAN	I	595	ENSP00000254181:V595I	ENSP00000254181:V595I	V	+	1	0	USP29	62333638	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.795000	0.04580	-2.562000	0.00473	-2.832000	0.00106	GTT		0.488	USP29-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465075.1			A	57641826	G	A	57641826	3	1	655	1	0	0	0	0	1	0	0	0	17071	1145	40	1	1785	1	USP29	19	57641826	Missense_Mutation	SNP	G	TCGA-KN-8418-01A-11D-2310-10	4338494	57641826	1487157	50	40663										
TIAM1	7074	broad.mit.edu;hgsc.bcm.edu	37	chr21	32624307	32624307	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	gctcatctccagctcccgccGgaagttctcgtacaccccct	7	19	3	0			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr21:32624307G>A	ENST00000286827.3	-	6	1633	c.1162C>T	c.(1162-1164)Cgg>Tgg	p.R388W	TIAM1_ENST00000541036.1_Missense_Mutation_p.R388W|TIAM1_ENST00000469412.1_5'UTR	NM_003253.2	NP_003244.2	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	388					apoptotic signaling pathway (GO:0097190)|cell migration (GO:0016477)|cell-matrix adhesion (GO:0007160)|ephrin receptor signaling pathway (GO:0048013)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of axonogenesis (GO:0050772)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of Rho GTPase activity (GO:0032321)|Rac protein signal transduction (GO:0016601)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cell-cell contact zone (GO:0044291)|cell-cell junction (GO:0005911)|cytosol (GO:0005829)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)	phospholipid binding (GO:0005543)|Rac guanyl-nucleotide exchange factor activity (GO:0030676)|receptor signaling protein activity (GO:0005057)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			autonomic_ganglia(3)|breast(7)|central_nervous_system(2)|endometrium(13)|kidney(4)|large_intestine(33)|lung(44)|ovary(2)|prostate(3)|skin(2)|urinary_tract(2)	115						AGCTCCCGCCGGAAGTTCTCG	0.687																																																0													44	51	49					21																	32624307		2203	4299	6502	SO:0001583	missense	7074				CCDS13609.1	21q22.1	2013-01-10			ENSG00000156299	ENSG00000156299		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	11805	protein-coding gene	gene with protein product		600687				8595894, 15340013	Standard	NM_003253		Approved		uc002yow.1	Q13009	OTTHUMG00000084869	ENST00000286827.3:c.1162C>T	21.37:g.32624307G>A	ENSP00000286827:p.Arg388Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLR6|F5GZ53|Q17RT7	Missense_Mutation	SNP	ENST00000286827.3	37	CCDS13609.1	.	.	.	.	.	.	.	.	.	.	G	19.92	3.915919	0.73098	.	.	ENSG00000156299	ENST00000286827;ENST00000399841;ENST00000541036	T;T	0.48836	0.84;0.8	4.86	0.664	0.17890	.	0.000000	0.85682	D	0.000000	T	0.61311	0.2337	L	0.55481	1.735	0.54753	D	0.999986	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.998;0.999	T	0.61978	-0.6951	10	0.66056	D	0.02	.	14.2083	0.65748	0.0:0.0:0.4736:0.5264	.	388;388;388	F5GZ53;B7ZLR6;Q13009	.;.;TIAM1_HUMAN	W	388;229;388	ENSP00000286827:R388W;ENSP00000441570:R388W	ENSP00000286827:R388W	R	-	1	2	TIAM1	31546178	1.000000	0.71417	0.056000	0.19401	0.957000	0.61999	2.596000	0.46205	-0.066000	0.12998	0.655000	0.94253	CGG		0.687	TIAM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000192552.1	NM_003253		A	32624307	G	A	32624307	3	1	655	1	0	0	0	0	1	0	0	0	15902	1115	39	1	3709	1	TIAM1	21	32624307	Missense_Mutation	SNP	G	TCGA-KN-8418-01A-11D-2310-10		32624307	15505588	51	40664										
IFNAR1	3454	broad.mit.edu	37	chr21	34727798	34727798	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	caagattcaggaaattattcTaatgaagatgaaagcgaaag	9	4	2	4			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr21:34727798T>C	ENST00000270139.3	+	11	1769	c.1617T>C	c.(1615-1617)tcT>tcC	p.S539S	IFNAR1_ENST00000442357.2_Silent_p.S478S|IFNAR1_ENST00000416947.2_Silent_p.S470S	NM_000629.2	NP_000620.2	P17181	INAR1_HUMAN	interferon (alpha, beta and omega) receptor 1	539					cell surface receptor signaling pathway (GO:0007166)|cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|JAK-STAT cascade (GO:0007259)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interleukin-1 beta secretion (GO:0050718)|regulation of type I interferon-mediated signaling pathway (GO:0060338)|response to virus (GO:0009615)|T cell activation (GO:0042110)|type I interferon biosynthetic process (GO:0045351)|type I interferon signaling pathway (GO:0060337)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	type I interferon receptor activity (GO:0004905)			breast(2)|central_nervous_system(1)|cervix(1)|kidney(2)|large_intestine(3)|liver(1)|lung(2)|skin(2)	14					"""Interferon Alfa-2a(DB00034)|""Interferon Alfa-2b(DB00105)|Interferon alfa-n1(DB00011)|Interferon alfa-n3(DB00018)|Interferon alfacon-1(DB00069)|Interferon beta-1a(DB00060)|Interferon beta-1b(DB00068)|Natural alpha interferon(DB05258)|Peginterferon alfa-2a(DB00008)|Peginterferon alfa-2b(DB00022)"	GAAATTATTCTAATGAAGATG	0.333																																					Esophageal Squamous(73;817 1211 32990 35667 42746)											0													86	94	91					21																	34727798		2203	4300	6503	SO:0001819	synonymous_variant	3454				CCDS13624.1	21q22.1	2008-05-02			ENSG00000142166	ENSG00000142166		"Interferons"	5432	protein-coding gene	gene with protein product		107450		IFNAR		8181059	Standard	NM_000629		Approved	IFRC	uc002yrn.3	P17181	OTTHUMG00000065126	ENST00000270139.3:c.1617T>C	21.37:g.34727798T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R6L9|B4DNT3|D3DSF0|Q53GW9|Q53H11|Q6PKD7|Q7M4L2|Q8WTZ2	Silent	SNP	ENST00000270139.3	37	CCDS13624.1																																																																																				0.333	IFNAR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000139823.4			C	34727798	T	C	34727798	2	2	655	1	0	0	0	0	0	0	0	1	7551	1509	53	3		3	IFNAR1	21	34727798	Silent	SNP	T	TCGA-KN-8418-01A-11D-2310-10	2103491	34727798	13402097	52	40665										
DIP2A	23181	broad.mit.edu	37	chr21	47970588	47970588	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	ttctggaagggacgctgcacCcgtgtaatgtgctgatgtgc	14	9	1	1			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr21:47970588C>T	ENST00000417564.2	+	23	2791	c.2770C>T	c.(2770-2772)Ccg>Tcg	p.P924S	DIP2A_ENST00000400274.1_Missense_Mutation_p.P920S|DIP2A_ENST00000427143.2_Missense_Mutation_p.P860S|DIP2A_ENST00000318711.7_Missense_Mutation_p.P925S			Q14689	DIP2A_HUMAN	DIP2 disco-interacting protein 2 homolog A (Drosophila)	924					multicellular organismal development (GO:0007275)|negative regulation of gene expression (GO:0010629)|regulation of apoptotic process (GO:0042981)	cell surface (GO:0009986)|nucleus (GO:0005634)	catalytic activity (GO:0003824)			cervix(1)|endometrium(7)|kidney(2)|large_intestine(6)|lung(22)|ovary(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	43	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		GACGCTGCACCCGTGTAATGT	0.532																																																0													77	76	76					21																	47970588		2048	4208	6256	SO:0001583	missense	23181			AF490768	CCDS46655.1, CCDS46656.1, CCDS46657.1, CCDS54490.1, CCDS54491.1	21q22.3	2010-08-20	2006-01-13	2006-01-13	ENSG00000160305	ENSG00000160305			17217	protein-coding gene	gene with protein product		607711	"chromosome 21 open reading frame 106"	C21orf106			Standard	NM_015151		Approved	Dip2, KIAA0184	uc002zjo.2	Q14689	OTTHUMG00000090717	ENST00000417564.2:c.2770C>T	21.37:g.47970588C>T	ENSP00000392066:p.Pro924Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6P4T3|B4E0F0|E7EMA5|Q8IVA3|Q8N4S2|Q8TD89|Q96ML9	Missense_Mutation	SNP	ENST00000417564.2	37	CCDS46655.1	.	.	.	.	.	.	.	.	.	.	C	28.2	4.900007	0.92035	.	.	ENSG00000160305	ENST00000400274;ENST00000427143;ENST00000318711;ENST00000417564	T;T;T;T	0.41065	1.01;1.01;1.01;1.01	5.26	5.26	0.73747	.	0.000000	0.85682	D	0.000000	T	0.64114	0.2569	M	0.76574	2.34	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.996;0.994	T	0.58476	-0.7630	10	0.19590	T	0.45	-30.2615	18.2448	0.89981	0.0:1.0:0.0:0.0	.	925;860;924	E9PER1;E7EMA5;Q14689	.;.;DIP2A_HUMAN	S	920;860;925;924	ENSP00000383133:P920S;ENSP00000400528:P860S;ENSP00000323633:P925S;ENSP00000392066:P924S	ENSP00000323633:P925S	P	+	1	0	DIP2A	46795016	1.000000	0.71417	0.997000	0.53966	0.876000	0.50452	7.680000	0.84062	2.639000	0.89480	0.655000	0.94253	CCG		0.532	DIP2A-012	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000376736.1	NM_015151		T	47970588	C	T	47970588	3	4	655	1	0	0	0	0	1	0	0	0	4529	623	22	2	2942	2	DIP2A	21	47970588	Missense_Mutation	SNP	C	TCGA-KN-8418-01A-11D-2310-10	13242790	47970588	159307	53	40666										
NAGA	4668	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr22	42456379	42456379	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0754716981132075	4	1	1.08403575989783	NA	1.08403575989783	0.0476190476190476	0.92989417989418	0	gtgaagttggtttcatctcgGaggccactgatgatgtcacc	12	9	3	3			TCGA-KN-8418-01A-11D-2310-10	TCGA-KN-8418-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9a90f951-ad96-4883-b97f-ac43395dae5d	3fd6a085-bd95-4632-af35-79f1ba65fe96	g.chr22:42456379G>A	ENST00000396398.3	-	9	1672	c.1140C>T	c.(1138-1140)ctC>ctT	p.L380L	NAGA_ENST00000402937.1_Silent_p.L380L|NAGA_ENST00000403363.1_Silent_p.L380L	NM_000262.2	NP_000253.1	P17050	NAGAB_HUMAN	N-acetylgalactosaminidase, alpha-	380					carbohydrate catabolic process (GO:0016052)|glycolipid catabolic process (GO:0019377)|glycoside catabolic process (GO:0016139)|glycosylceramide catabolic process (GO:0046477)|oligosaccharide metabolic process (GO:0009311)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|lysosome (GO:0005764)	alpha-galactosidase activity (GO:0004557)|alpha-N-acetylgalactosaminidase activity (GO:0008456)|protein homodimerization activity (GO:0042803)			central_nervous_system(1)|endometrium(2)|large_intestine(2)|lung(5)|upper_aerodigestive_tract(1)	11						TTTCATCTCGGAGGCCACTGA	0.567																																																0													179	158	165					22																	42456379		2203	4300	6503	SO:0001819	synonymous_variant	4668				CCDS14030.1	22q13.2	2010-07-09			ENSG00000198951	ENSG00000198951	3.2.1.49		7631	protein-coding gene	gene with protein product		104170					Standard	NM_000262		Approved	D22S674	uc003bbw.4	P17050	OTTHUMG00000151276	ENST00000396398.3:c.1140C>T	22.37:g.42456379G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000396398.3	37	CCDS14030.1																																																																																				0.567	NAGA-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322056.1			A	42456379	G	A	42456379	2	1	655	1	0	0	0	0	0	0	0	1	10148	1161	41	2		2	NAGA	22	42456379	Silent	SNP	G	TCGA-KN-8418-01A-11D-2310-10		42456379	8848187	54	40667										
CTH	1491	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr1	70897872	70897872	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	aaaaacggaatggcagttgcCcagttcctggaatctaatcc	9	10	1	0			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr1:70897872C>A	ENST00000370938.3	+	8	975	c.831C>A	c.(829-831)gcC>gcA	p.A277A	CTH_ENST00000346806.2_Silent_p.A233A|CTH_ENST00000411986.2_Silent_p.A245A	NM_001902.5	NP_001893.2	Q96IQ7	VSIG2_HUMAN	cystathionine gamma-lyase	0						integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)				breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(6)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	18						TGGCAGTTGCCCAGTTCCTGG	0.403																																																0													112	107	109					1																	70897872		2203	4300	6503	SO:0001819	synonymous_variant	1491			BC015807	CCDS650.1, CCDS651.1, CCDS53333.1	1p31.1	2014-06-24	2014-06-24		ENSG00000116761	ENSG00000116761	4.4.1.1		2501	protein-coding gene	gene with protein product		607657	"cystathionase (cystathionine gamma-lyase)"			1339280	Standard	NM_001902		Approved		uc001dfd.3	P32929	OTTHUMG00000009352	ENST00000370938.3:c.831C>A	1.37:g.70897872C>A		Somatic		WXS	Illumina HiSeq	Phase_I	O95791|Q9NX42	Silent	SNP	ENST00000370938.3	37	CCDS650.1																																																																																				0.403	CTH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025918.1	NM_001902		A	70897872	C	A	70897872	2	1	656	1	0	0	0	0	0	0	0	1	4011	610	22	4		4	CTH	1	70897872	Silent	SNP	C	TCGA-KN-8419-01A-11D-2310-10		70897872	178352749	1	40668										
RPRD2	23248	broad.mit.edu	37	chr1	150445701	150445701	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	agactttcggcctagggaacCttttctcagcagagacccat	9	12	1	2	rs377477495		TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr1:150445701C>T	ENST00000369068.4	+	11	4281	c.4277C>T	c.(4276-4278)cCt>cTt	p.P1426L	RPRD2_ENST00000401000.4_Missense_Mutation_p.P1400L|RPRD2_ENST00000492220.1_3'UTR	NM_015203.3	NP_056018.2	Q5VT52	RPRD2_HUMAN	regulation of nuclear pre-mRNA domain containing 2	1426	Pro-rich.					DNA-directed RNA polymerase II, holoenzyme (GO:0016591)				central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(4)|lung(20)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	37						CCTAGGGAACCTTTTCTCAGC	0.567																																																0								C	LEU/PRO	1,3791		0,1,1895	78	79	79		4277	4.6	1	1		79	0,8218		0,0,4109	no	missense	RPRD2	NM_015203.3	98	0,1,6004	TT,TC,CC		0.0,0.0264,0.0083	benign	1426/1462	150445701	1,12009	1896	4109	6005	SO:0001583	missense	23248			BX641025	CCDS44216.1, CCDS72907.1	1q21.2	2012-02-09	2008-08-15	2008-07-28	ENSG00000163125	ENSG00000163125			29039	protein-coding gene	gene with protein product		614695	"KIAA0460"	KIAA0460		22231121	Standard	XM_005245033		Approved	FLJ32145, HSPC099	uc009wlr.3	Q5VT52	OTTHUMG00000012808	ENST00000369068.4:c.4277C>T	1.37:g.150445701C>T	ENSP00000358064:p.Pro1426Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6N8|B3KPT1|B4E2Q6|O75048|Q5VT51|Q5VT53|Q6MZL4|Q86XD2|Q9P0D7	Missense_Mutation	SNP	ENST00000369068.4	37	CCDS44216.1	.	.	.	.	.	.	.	.	.	.	C	13.87	2.365145	0.41902	2.64E-4	0.0	ENSG00000163125	ENST00000401000;ENST00000369068	T;T	0.43294	0.95;0.95	4.57	4.57	0.56435	.	0.301676	0.28977	N	0.013525	T	0.16300	0.0392	N	0.24115	0.695	0.80722	D	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.0;0.001	T	0.08554	-1.0716	10	0.87932	D	0	-1.5661	10.3448	0.43899	0.0:0.9097:0.0:0.0903	.	1426;1400	Q5VT52;Q5VT52-3	RPRD2_HUMAN;.	L	1400;1426	ENSP00000383785:P1400L;ENSP00000358064:P1426L	ENSP00000358064:P1426L	P	+	2	0	RPRD2	148712325	1.000000	0.71417	1.000000	0.80357	0.936000	0.57629	3.717000	0.54911	2.351000	0.79841	0.655000	0.94253	CCT		0.567	RPRD2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000035844.1	NM_015203		T	150445701	C	T	150445701	3	4	656	1	0	0	0	0	1	0	0	0	13630	681	24	2	4319	2	RPRD2	1	150445701	Missense_Mutation	SNP	C	TCGA-KN-8419-01A-11D-2310-10	79547829	150445701	98804920	2	40669										
NAV1	89796	mdanderson.org	37	chr1	201618543	201618543	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	ctggagcagctgctcttcagCcagatgctgggtaagtcctg	13	11	2	1	rs6665525	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr1:201618543C>T	ENST00000367296.4	+	1	1167	c.747C>T	c.(745-747)agC>agT	p.S249S	NAV1_ENST00000367297.4_Silent_p.S249S|NAV1_ENST00000367302.1_Silent_p.S262S|NAV1_ENST00000295624.6_Silent_p.S249S|NAV1_ENST00000367300.3_Silent_p.S249S	NM_020443.4	NP_065176.3	Q8NEY1	NAV1_HUMAN	neuron navigator 1	249					microtubule bundle formation (GO:0001578)|neuron migration (GO:0001764)	cytoplasm (GO:0005737)|microtubule (GO:0005874)				breast(5)|central_nervous_system(4)|endometrium(4)|haematopoietic_and_lymphoid_tissue(5)|kidney(3)|large_intestine(10)|lung(29)|ovary(4)|prostate(3)|skin(1)|stomach(2)	70						TGCTCTTCAGCCAGATGCTGG	0.682													C|||	13	0.00259585	0.0098	0.0	5008	,	,		12043	0.0		0.0	False		,,,				2504	0.0															0								C		40,4282		1,38,2122	9	11	10		747	1.8	1	1	dbSNP_116	10	0,8510		0,0,4255	no	coding-synonymous	NAV1	NM_020443.4		1,38,6377	TT,TC,CC		0.0,0.9255,0.3117		249/1878	201618543	40,12792	2161	4255	6416	SO:0001819	synonymous_variant	89796			AF086348	CCDS1414.1, CCDS1414.2, CCDS53456.1	1q32.3	2008-07-18			ENSG00000134369	ENSG00000134369			15989	protein-coding gene	gene with protein product	"neuron navigator-1", "pore membrane and/or filament interacting like protein 3"	611628				12079279, 12062803	Standard	NM_020443		Approved	FLJ12560, FLJ14203, KIAA1151, MGC14961, POMFIL3, steerin-1, DKFZp781D0314	uc001gwu.3	Q8NEY1	OTTHUMG00000035766	ENST00000367296.4:c.747C>T	1.37:g.201618543C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MS88|Q5SVH1|Q5SVH2|Q5SVH3|Q5SVH7|Q5VUY9|Q8IVL2|Q96II1|Q9H7V9|Q9H9S9|Q9H9T5|Q9UGI1|Q9ULK7|Q9ULR9	Silent	SNP	ENST00000367296.4	37	CCDS1414.2																																																																																				0.682	NAV1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000087013.1	NM_020443		T	201618543	C	T	201618543	2	4	656	1	0	0	0	0	0	0	0	1	10190	738	26	2		2	NAV1	1	201618543	Silent	SNP	C	TCGA-KN-8419-01A-11D-2310-10	51172842	201618543	47632078	3	40670										
FLVCR1	28982	mdanderson.org	37	chr1	213031948	213031948	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gcaccttcccggtgaatgggGccccccgggacagcctcgct	13	17	0	1	rs11120047	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr1:213031948G>C	ENST00000366971.4	+	1	352	c.154G>C	c.(154-156)Gcc>Ccc	p.A52P	FLVCR1-AS1_ENST00000356684.3_lincRNA	NM_014053.3	NP_054772.1	Q9Y5Y0	FLVC1_HUMAN	feline leukemia virus subgroup C cellular receptor 1	52			A -> P (in dbSNP:rs11120047). {ECO:0000269|PubMed:15489334}.		blood vessel development (GO:0001568)|cell death (GO:0008219)|cellular iron ion homeostasis (GO:0006879)|embryonic digit morphogenesis (GO:0042733)|embryonic skeletal system morphogenesis (GO:0048704)|erythrocyte differentiation (GO:0030218)|erythrocyte maturation (GO:0043249)|head morphogenesis (GO:0060323)|heme export (GO:0097037)|heme transport (GO:0015886)|in utero embryonic development (GO:0001701)|mitochondrial transport (GO:0006839)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|regulation of organ growth (GO:0046620)|spleen development (GO:0048536)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	heme transporter activity (GO:0015232)|transporter activity (GO:0005215)			cervix(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(1)|ovary(1)|prostate(1)|stomach(1)|urinary_tract(2)	12				OV - Ovarian serous cystadenocarcinoma(81;0.00733)|all cancers(67;0.013)|GBM - Glioblastoma multiforme(131;0.0845)|Epithelial(68;0.11)		GGTGAATGGGGCCCCCCGGGA	0.716													G|||	2226	0.444489	0.2269	0.3084	5008	,	,		12077	0.5476		0.5646	False		,,,				2504	0.6053				Esophageal Squamous(199;2235 2952 19233 26256)											0								G	PRO/ALA	992,2868		199,594,1137	3	6	5		154	3.2	0	1	dbSNP_120	5	3551,4103		951,1649,1227	yes	missense	FLVCR1	NM_014053.3	27	1150,2243,2364	CC,CG,GG		46.394,25.6995,39.4563	benign	52/556	213031948	4543,6971	1930	3827	5757	SO:0001583	missense	28982			AF118637	CCDS1510.1	1q32.3	2014-05-30			ENSG00000162769	ENSG00000162769		"Solute carriers"	24682	protein-coding gene	gene with protein product		609144	"ataxia, posterior column 1, with retinitis pigmentosa"	AXPC1		10400745, 10648427, 21070897	Standard	NM_014053		Approved	FLVCR, MFSD7B, PCA	uc001hjt.3	Q9Y5Y0	OTTHUMG00000036924	ENST00000366971.4:c.154G>C	1.37:g.213031948G>C	ENSP00000355938:p.Ala52Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q1HE16|Q86XY9|Q9NVR9	Missense_Mutation	SNP	ENST00000366971.4	37	CCDS1510.1	986	0.45146520146520147	129	0.2621951219512195	129	0.356353591160221	315	0.5506993006993007	413	0.5448548812664907	G	13.29	2.193274	0.38707	0.256995	0.46394	ENSG00000162769	ENST00000366971	D	0.83250	-1.7	5.04	3.17	0.36434	.	1.238010	0.05829	N	0.617282	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	B	0.22604	0.072	B	0.23018	0.043	T	0.38845	-0.9642	9	0.30078	T	0.28	-10.6878	10.1458	0.42762	0.1646:0.0:0.8354:0.0	rs11120047;rs17846435;rs17859484;rs56728027;rs11120047	52	Q9Y5Y0	FLVC1_HUMAN	P	52	ENSP00000355938:A52P	ENSP00000355938:A52P	A	+	1	0	FLVCR1	211098571	1.000000	0.71417	0.002000	0.10522	0.010000	0.07245	5.238000	0.65366	0.534000	0.28695	-0.253000	0.11424	GCC		0.716	FLVCR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089678.2	NM_014053		C	213031948	G	C	213031948	3	2	656	1	0	0	0	0	1	0	0	0	5952	1203	42	4	156	4	FLVCR1	1	213031948	Missense_Mutation	SNP	G	TCGA-KN-8419-01A-11D-2310-10	11413405	213031948	36218673	4	40671										
HHIPL2	79802	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	222721242	222721242	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	agggggctggaaagggggccCgtaatccaggcactgggggt	20	8	0	0			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr1:222721242C>T	ENST00000343410.6	-	1	203	c.145G>A	c.(145-147)Ggg>Agg	p.G49R		NM_024746.3	NP_079022.2	Q6UWX4	HIPL2_HUMAN	HHIP-like 2	49					carbohydrate metabolic process (GO:0005975)	extracellular region (GO:0005576)	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor (GO:0016901)|quinone binding (GO:0048038)			NS(2)|endometrium(8)|kidney(4)|large_intestine(7)|lung(28)|ovary(1)|prostate(3)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	59				GBM - Glioblastoma multiforme(131;0.0185)		AAAGGGGGCCCGTAATCCAGG	0.617																																																0													29	33	32					1																	222721242		1911	4126	6037	SO:0001583	missense	79802			BC007638	CCDS1530.2	1q41	2008-02-05	2008-01-16	2008-01-16	ENSG00000143512	ENSG00000143512			25842	protein-coding gene	gene with protein product			"KIAA1822-like"	KIAA1822L		12975309	Standard	NM_024746		Approved	FLJ13840	uc001hnh.1	Q6UWX4	OTTHUMG00000037545	ENST00000343410.6:c.145G>A	1.37:g.222721242C>T	ENSP00000342118:p.Gly49Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GU65|Q96BT4|Q96BU5|Q9H8A0	Missense_Mutation	SNP	ENST00000343410.6	37	CCDS1530.2	.	.	.	.	.	.	.	.	.	.	C	0.031	-1.332411	0.01298	.	.	ENSG00000143512	ENST00000343410	T	0.70282	-0.47	4.93	-0.274	0.12910	Folate receptor-like (1);	0.414878	0.26321	N	0.025047	T	0.48390	0.1497	L	0.28400	0.85	0.21220	N	0.999754	B	0.10296	0.003	B	0.18263	0.021	T	0.29150	-1.0021	10	0.08599	T	0.76	-2.0086	6.0319	0.19684	0.0:0.5884:0.1257:0.2859	.	49	Q6UWX4	HIPL2_HUMAN	R	49	ENSP00000342118:G49R	ENSP00000342118:G49R	G	-	1	0	HHIPL2	220787865	0.006000	0.16342	0.193000	0.23327	0.352000	0.29268	0.347000	0.20014	-0.366000	0.08064	-0.136000	0.14681	GGG		0.617	HHIPL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091499.2	NM_024746		T	222721242	C	T	222721242	3	4	656	1	0	0	0	0	1	0	0	0	7101	652	23	1	2065	1	HHIPL2	1	222721242	Missense_Mutation	SNP	C	TCGA-KN-8419-01A-11D-2310-10	9689294	222721242	26529379	5	40672										
MERTK	10461	mdanderson.org	37	chr2	112656372	112656372	+	Splice_Site	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	ctccccgcgctctggcgtagAggtgagtgcgcccggctggg	17	14	1	2	rs35898499	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr2:112656372A>T	ENST00000295408.4	+	1	317	c.60A>T	c.(58-60)agA>agT	p.R20S	MERTK_ENST00000409780.1_5'UTR|MERTK_ENST00000421804.2_Splice_Site_p.R20S			Q12866	MERTK_HUMAN	MER proto-oncogene, tyrosine kinase	20			R -> S (in dbSNP:rs35898499). {ECO:0000269|PubMed:11062461, ECO:0000269|PubMed:17344846}.		apoptotic cell clearance (GO:0043277)|blood coagulation (GO:0007596)|cell surface receptor signaling pathway (GO:0007166)|cell-cell signaling (GO:0007267)|leukocyte migration (GO:0050900)|natural killer cell differentiation (GO:0001779)|negative regulation of lymphocyte activation (GO:0051250)|peptidyl-tyrosine phosphorylation (GO:0018108)|phagocytosis (GO:0006909)|platelet activation (GO:0030168)|positive regulation of phagocytosis (GO:0050766)|protein kinase B signaling (GO:0043491)|protein phosphorylation (GO:0006468)|retina development in camera-type eye (GO:0060041)|secretion by cell (GO:0032940)|spermatogenesis (GO:0007283)|substrate adhesion-dependent cell spreading (GO:0034446)|vagina development (GO:0060068)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)|photoreceptor outer segment (GO:0001750)|plasma membrane (GO:0005886)|rhabdomere (GO:0016028)	ATP binding (GO:0005524)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			breast(1)|endometrium(3)|kidney(2)|large_intestine(6)|liver(1)|lung(18)|pancreas(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(10)	46						TCTGGCGTAGAGGTGAGTGCG	0.741													A|||	87	0.0173722	0.0038	0.0259	5008	,	,		9832	0.0		0.0497	False		,,,				2504	0.0143															0								A	SER/ARG	29,4105		1,27,2039	5	7	6	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	60	2.3	0.7	2	dbSNP_126	6	408,7922		8,392,3765	no	missense-near-splice	MERTK	NM_006343.2	110	9,419,5804	TT,TA,AA		4.898,0.7015,3.5061	benign	20/1000	112656372	437,12027	2067	4165	6232	SO:0001630	splice_region_variant	10461			U08023	CCDS2094.1	2q14.1	2014-06-26	2014-06-26		ENSG00000153208	ENSG00000153208		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	7027	protein-coding gene	gene with protein product		604705	"c-mer proto-oncogene tyrosine kinase"			8086340, 10343112	Standard	XM_005263565		Approved	mer, RP38	uc002thk.1	Q12866	OTTHUMG00000131278	ENST00000295408.4:c.61+1A>T	2.37:g.112656372A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9HBB4	Missense_Mutation	SNP	ENST00000295408.4	37	CCDS2094.1	48	0.02197802197802198	1	0.0020325203252032522	12	0.03314917127071823	2	0.0034965034965034965	33	0.04353562005277045	A	4.634	0.117901	0.08881	0.007015	0.04898	ENSG00000153208	ENST00000295408;ENST00000421804	T;T	0.74421	-0.84;-0.84	3.57	2.34	0.29019	.	.	.	.	.	T	0.13927	0.0337	N	0.08118	0	0.20196	N	0.999922	B	0.14012	0.009	B	0.08055	0.003	T	0.11227	-1.0596	9	0.41790	T	0.15	.	4.9993	0.14257	0.8402:0.0:0.1598:0.0	rs35898499	20	Q12866	MERTK_HUMAN	S	20	ENSP00000295408:R20S;ENSP00000389152:R20S	ENSP00000295408:R20S	R	+	3	2	MERTK	112372843	0.688000	0.27680	0.700000	0.30305	0.009000	0.06853	0.673000	0.25203	0.694000	0.31654	0.482000	0.46254	AGA		0.741	MERTK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254046.2		Missense_Mutation	T	112656372	A	T	112656372	5	4	656	1	0	0	0	0	0	0	1	0	9486	318	11	5	62	5	MERTK	2	112656372	Splice_Site	SNP	A	TCGA-KN-8419-01A-11D-2310-10		112656372	130543001	6	40673										
RBPJ	3516	broad.mit.edu	37	chr4	26432510	26432511	+	Frame_Shift_Ins	INS	-	-	G													0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	tgcagcaggagcaatccttcINSgagccaattcaagccaggtg					rs1064403|rs202024680		TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr4:26432510_26432511insG	ENST00000361572.6	+	11	1578_1579	c.1384_1385insG	c.(1384-1386)cgafs	p.R462fs	RBPJ_ENST00000507561.1_Frame_Shift_Ins_p.R427fs|RBPJ_ENST00000345843.3_Frame_Shift_Ins_p.R447fs|RBPJ_ENST00000504907.1_3'UTR|RBPJ_ENST00000348160.4_Frame_Shift_Ins_p.R449fs|RBPJ_ENST00000355476.3_Frame_Shift_Ins_p.R448fs|RBPJ_ENST00000342295.1_Frame_Shift_Ins_p.R462fs|RBPJ_ENST00000342320.4_Frame_Shift_Ins_p.R448fs			Q06330	SUH_HUMAN	recombination signal binding protein for immunoglobulin kappa J region	462				R -> P (in Ref. 1; AAA60258). {ECO:0000305}.	angiogenesis (GO:0001525)|arterial endothelial cell fate commitment (GO:0060844)|atrioventricular canal development (GO:0036302)|auditory receptor cell fate commitment (GO:0009912)|B cell differentiation (GO:0030183)|blood vessel endothelial cell fate specification (GO:0097101)|blood vessel lumenization (GO:0072554)|blood vessel remodeling (GO:0001974)|cardiac left ventricle morphogenesis (GO:0003214)|Clara cell differentiation (GO:0060486)|defense response to bacterium (GO:0042742)|DNA recombination (GO:0006310)|dorsal aorta morphogenesis (GO:0035912)|endocardium morphogenesis (GO:0003160)|epidermal cell fate specification (GO:0009957)|epithelial to mesenchymal transition (GO:0001837)|epithelial to mesenchymal transition involved in endocardial cushion formation (GO:0003198)|gene expression (GO:0010467)|hair follicle maturation (GO:0048820)|humoral immune response (GO:0006959)|inflammatory response to antigenic stimulus (GO:0002437)|interleukin-4 secretion (GO:0072602)|keratinocyte differentiation (GO:0030216)|labyrinthine layer blood vessel development (GO:0060716)|negative regulation of cell proliferation (GO:0008285)|negative regulation of ossification (GO:0030279)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|Notch signaling involved in heart development (GO:0061314)|Notch signaling pathway (GO:0007219)|outflow tract morphogenesis (GO:0003151)|pituitary gland development (GO:0021983)|positive regulation of BMP signaling pathway (GO:0030513)|positive regulation of canonical Wnt signaling pathway involved in cardiac muscle cell fate commitment (GO:1901297)|positive regulation of cardiac muscle cell proliferation (GO:0060045)|positive regulation of cell proliferation involved in heart morphogenesis (GO:2000138)|positive regulation of ephrin receptor signaling pathway (GO:1901189)|positive regulation of ERBB signaling pathway (GO:1901186)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription of Notch receptor target (GO:0007221)|regulation of timing of cell differentiation (GO:0048505)|regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation (GO:0003256)|sebaceous gland development (GO:0048733)|secondary heart field specification (GO:0003139)|somatic stem cell maintenance (GO:0035019)|transcription initiation from RNA polymerase II promoter (GO:0006367)|ventricular trabecula myocardium morphogenesis (GO:0003222)	cytoplasm (GO:0005737)|MAML1-RBP-Jkappa- ICN1 complex (GO:0002193)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|recombinase activity (GO:0000150)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II repressing transcription factor binding (GO:0001103)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(2)|kidney(3)|large_intestine(5)|lung(4)|ovary(1)	15		Breast(46;0.0503)				AGCAATCCTTCGAGCCAATTCA	0.5																																																0																																										SO:0001589	frameshift_variant	3516			L07872	CCDS3436.1, CCDS3437.1, CCDS33969.1, CCDS43219.1	4p15.2	2013-10-18	2007-02-26	2007-02-26	ENSG00000168214	ENSG00000168214			5724	protein-coding gene	gene with protein product	"suppressor of hairless homolog (Drosophila)"	147183	"recombining binding protein suppressor of hairless (Drosophila)"	IGKJRB1, RBPSUH		8406481, 9290259	Standard	NM_005349		Approved	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1	uc003gsb.2	Q06330	OTTHUMG00000097793	ENST00000361572.6:c.1385dupG	4.37:g.26432511_26432511dupG	ENSP00000354528:p.Arg462fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DY22|Q5XKH9|Q6P1N3	Frame_Shift_Ins	INS	ENST00000361572.6	37	CCDS3437.1																																																																																				0.5	RBPJ-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000215046.2	NM_015874		G	26432511	-	G	26432510	7	5	656	1	0	1	1	0	0	0	0	0	13174	876	31	0	1489	0	RBPJ	4	26432510	Frame_Shift_Ins	INS	-	TCGA-KN-8419-01A-11D-2310-10		26432510	164721766	7	40674										
KIAA1211	57482	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr4	57182677	57182677	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gacccagagccaagtgagccGtccaaggaggaccaggagag	15	11	0	3	rs369933689		TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr4:57182677G>A	ENST00000504228.1	+	6	3114	c.3009G>A	c.(3007-3009)ccG>ccA	p.P1003P	KIAA1211_ENST00000264229.6_Silent_p.P1003P|KIAA1211_ENST00000541073.1_Silent_p.P996P			Q6ZU35	K1211_HUMAN	KIAA1211	1003	Pro-rich.									endometrium(7)|large_intestine(10)|lung(39)|ovary(2)|prostate(3)|skin(3)|stomach(1)	65	Glioma(25;0.08)|all_neural(26;0.101)					CAAGTGAGCCGTCCAAGGAGG	0.657																																																0								G		0,4048		0,0,2024	30	38	35		3009	-4.3	0	4		35	1,8335		0,1,4167	no	coding-synonymous	KIAA1211	NM_020722.1		0,1,6191	AA,AG,GG		0.012,0.0,0.0081		1003/1234	57182677	1,12383	2024	4168	6192	SO:0001819	synonymous_variant	57482			AB033037	CCDS43230.1	4q12	2012-08-03			ENSG00000109265	ENSG00000109265			29219	protein-coding gene	gene with protein product						10574462, 11230166	Standard	NM_020722		Approved		uc003hbk.2	Q6ZU35	OTTHUMG00000160749	ENST00000504228.1:c.3009G>A	4.37:g.57182677G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NTE2|Q9NTP8|Q9ULK9	Silent	SNP	ENST00000504228.1	37	CCDS43230.1																																																																																				0.657	KIAA1211-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362097.2	NM_020722		A	57182677	G	A	57182677	2	1	656	1	0	0	0	0	0	0	0	1	8222	1132	40	1		1	KIAA1211	4	57182677	Silent	SNP	G	TCGA-KN-8419-01A-11D-2310-10	30750167	57182677	133971599	8	40675										
DSPP	1834	broad.mit.edu	37	chr4	88536259	88536264	+	In_Frame_Del	DEL	CAGTGA	CAGTGA	-													0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	agcagtgatagcagtgacagCagtgatagcgacagcagcaa							TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	CAGTGA	CAGTGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr4:88536259_88536264delCAGTGA	ENST00000282478.7	+	4	2478_2483	c.2445_2450delCAGTGA	c.(2443-2451)agcagtgat>agt	p.SD818del	DSPP_ENST00000399271.1_In_Frame_Del_p.SD818del|RP11-742B18.1_ENST00000506480.1_RNA			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	818	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		gcagtgacagcagtgatagcgacagc	0.515																																																0																																										SO:0001651	inframe_deletion	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.2445_2450delCAGTGA	4.37:g.88536259_88536264delCAGTGA	ENSP00000282478:p.Ser818_Asp819del	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	In_Frame_Del	DEL	ENST00000282478.7	37	CCDS43248.1																																																																																				0.515	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		-	88536264	CAGTGA	-	88536259	7	5	656	1	0	1	0	1	0	0	0	0	4784	709	25	0	2459	0	DSPP	4	88536259	In_Frame_Del	DEL	CAGTGA	TCGA-KN-8419-01A-11D-2310-10	31353582	88536259	102618017	9	40676										
FRG1	2483	mdanderson.org	37	chr4	190876268	190876268	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	ttgttgggcgttcagatgcaAttggaccaagagaacaatgg	13	6	1	2	rs528665769		TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr4:190876268A>G	ENST00000226798.4	+	5	616	c.394A>G	c.(394-396)Att>Gtt	p.I132V	FRG1_ENST00000514482.1_3'UTR	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1	132					mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		TTCAGATGCAATTGGACCAAG	0.358																																																0													91	91	91					4																	190876268		2203	4300	6503	SO:0001583	missense	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.394A>G	4.37:g.190876268A>G	ENSP00000226798:p.Ile132Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Missense_Mutation	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	.	11.81	1.749824	0.30955	.	.	ENSG00000109536	ENST00000226798;ENST00000531991	T;T	0.44083	2.0;0.93	4.04	4.04	0.47022	Actin cross-linking (1);	0.133249	0.64402	D	0.000004	T	0.31918	0.0812	L	0.42686	1.345	0.80722	D	1	B	0.18741	0.03	B	0.26693	0.072	T	0.07009	-1.0795	10	0.06891	T	0.86	2.1537	11.3071	0.49342	1.0:0.0:0.0:0.0	.	132	Q14331	FRG1_HUMAN	V	132;69	ENSP00000226798:I132V;ENSP00000435943:I69V	ENSP00000226798:I132V	I	+	1	0	FRG1	191113262	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	6.941000	0.75922	1.599000	0.50093	0.462000	0.41574	ATT		0.358	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477		G	190876268	A	G	190876268	3	3	656	1	0	0	0	0	1	0	0	0	6053	101	4	3	412	3	FRG1	4	190876268	Missense_Mutation	SNP	A	TCGA-KN-8419-01A-11D-2310-10	102340009	190876268	278008	10	40677										
KIF4B	285643	broad.mit.edu	37	chr5	154394949	154394949	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	acaagcaggtcttctgacgcTtttaccactcagcatgctct	7	13	4	1			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr5:154394949T>C	ENST00000435029.4	+	1	1690	c.1530T>C	c.(1528-1530)gcT>gcC	p.A510A		NM_001099293.1	NP_001092763.1	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	510					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	cytosol (GO:0005829)|kinesin complex (GO:0005871)|microtubule (GO:0005874)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|DNA binding (GO:0003677)|plus-end-directed microtubule motor activity (GO:0008574)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(6)|large_intestine(13)|lung(27)|ovary(2)|upper_aerodigestive_tract(1)	58	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CTTCTGACGCTTTTACCACTC	0.488																																																0													95	100	99					5																	154394949		2203	4300	6503	SO:0001819	synonymous_variant	285643			AF241316	CCDS47324.1	5q33.2	2010-06-22			ENSG00000226650	ENSG00000226650		"Kinesins"	6322	protein-coding gene	gene with protein product		609184					Standard	NM_001099293		Approved		uc010jih.1	Q2VIQ3	OTTHUMG00000164143	ENST00000435029.4:c.1530T>C	5.37:g.154394949T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000435029.4	37	CCDS47324.1																																																																																				0.488	KIF4B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377478.1			C	154394949	T	C	154394949	2	2	656	1	0	0	0	0	0	0	0	1	8311	1596	56	3		3	KIF4B	5	154394949	Silent	SNP	T	TCGA-KN-8419-01A-11D-2310-10		154394949	26520311	11	40678										
F12	2161	mdanderson.org	37	chr5	176831544	176831544	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	ccccagttccgcgcttgctcGgcagtcacgttccggtaggt	12	15	1	0	rs41309752	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr5:176831544G>A	ENST00000253496.3	-	8	804	c.756C>T	c.(754-756)gcC>gcT	p.A252A	F12_ENST00000514943.1_5'Flank	NM_000505.3	NP_000496.2	P00748	FA12_HUMAN	coagulation factor XII (Hageman factor)	252	Kringle. {ECO:0000255|PROSITE- ProRule:PRU00121}.				blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|Factor XII activation (GO:0002542)|fibrinolysis (GO:0042730)|innate immune response (GO:0045087)|plasma kallikrein-kinin cascade (GO:0002353)|positive regulation of blood coagulation (GO:0030194)|positive regulation of fibrinolysis (GO:0051919)|positive regulation of plasminogen activation (GO:0010756)|protein autoprocessing (GO:0016540)|protein processing (GO:0016485)|response to misfolded protein (GO:0051788)|zymogen activation (GO:0031638)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	misfolded protein binding (GO:0051787)|serine-type aminopeptidase activity (GO:0070009)|serine-type endopeptidase activity (GO:0004252)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(5)|skin(1)|urinary_tract(1)	12	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)		Ethanolamine Oleate(DB06689)	GCGCTTGCTCGGCAGTCACGT	0.761									Hereditary Angioedema		OREG0017088	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	G|||	138	0.0275559	0.0567	0.0101	5008	,	,		13984	0.0		0.007	False		,,,				2504	0.0501															0								G		211,4127		1,209,1959	10	13	12		756	-10.1	0	5	dbSNP_127	12	32,8508		0,32,4238	no	coding-synonymous	F12	NM_000505.3		1,241,6197	AA,AG,GG		0.3747,4.864,1.8869		252/616	176831544	243,12635	2169	4270	6439	SO:0001819	synonymous_variant	2161	Familial Cancer Database	HAE, type I-III, Hereditary Angioneurotic Edema, HANE,	M31315	CCDS34302.1	5q35.3	2014-09-17			ENSG00000131187	ENSG00000131187	3.4.21.38		3530	protein-coding gene	gene with protein product		610619					Standard	NM_000505		Approved		uc003mgo.4	P00748	OTTHUMG00000163403	ENST00000253496.3:c.756C>T	5.37:g.176831544G>A		Somatic	1934	WXS	Illumina HiSeq	Phase_I	P78339	Silent	SNP	ENST00000253496.3	37	CCDS34302.1																																																																																				0.761	F12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373217.1			A	176831544	G	A	176831544	2	1	656	1	0	0	0	0	0	0	0	1	5341	1103	39	1		1	F12	5	176831544	Silent	SNP	G	TCGA-KN-8419-01A-11D-2310-10	22436595	176831544	4083716	12	40679										
FLT4	2324	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr5	180057729	180057729	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	tcgcaccacccccgtgtcctCgctgtccttgtctccggtgg	10	18	1	0	rs202015753	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr5:180057729C>T	ENST00000261937.6	-	3	304	c.226G>A	c.(226-228)Gag>Aag	p.E76K	FLT4_ENST00000502649.1_Missense_Mutation_p.E76K|FLT4_ENST00000393347.3_Missense_Mutation_p.E76K|FLT4_ENST00000424276.2_5'UTR	NM_182925.4	NP_891555.2	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4	76	Ig-like C2-type 1.				blood vessel morphogenesis (GO:0048514)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|lymph vessel development (GO:0001945)|lymphangiogenesis (GO:0001946)|negative regulation of apoptotic process (GO:0043066)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of cell proliferation (GO:0008284)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of JNK cascade (GO:0046330)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of protein kinase C signaling (GO:0090037)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation vascular endothelial growth factor production (GO:0010575)|protein autophosphorylation (GO:0046777)|regulation of blood vessel remodeling (GO:0060312)|sprouting angiogenesis (GO:0002040)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)|vascular endothelial growth factor signaling pathway (GO:0038084)|vasculature development (GO:0001944)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|growth factor binding (GO:0019838)|protein phosphatase binding (GO:0019903)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)|vascular endothelial growth factor-activated receptor activity (GO:0005021)			NS(1)|breast(3)|central_nervous_system(2)|endometrium(1)|kidney(6)|large_intestine(5)|liver(2)|lung(37)|ovary(6)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	71	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)	Axitinib(DB06626)|Pazopanib(DB06589)|Regorafenib(DB08896)|Sorafenib(DB00398)|Sunitinib(DB01268)	CCCGTGTCCTCGCTGTCCTTG	0.662													c|||	10	0.00199681	0.0	0.0014	5008	,	,		17527	0.0		0.0	False		,,,				2504	0.0092				Colon(97;1075 1466 27033 27547 35871)											0													129	111	117					5																	180057729		2202	4299	6501	SO:0001583	missense	2324			X68203	CCDS4457.1, CCDS43412.1	5q34-q35	2013-01-29			ENSG00000037280	ENSG00000037280	2.7.10.1	"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	3767	protein-coding gene	gene with protein product		136352				1319394	Standard	NM_002020		Approved	VEGFR3, PCL	uc003mlz.4	P35916	OTTHUMG00000130931	ENST00000261937.6:c.226G>A	5.37:g.180057729C>T	ENSP00000261937:p.Glu76Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6L4|B5A926|Q16067|Q86W07|Q86W08	Missense_Mutation	SNP	ENST00000261937.6	37	CCDS4457.1	1	4.578754578754579E-4	0	0.0	1	0.0027624309392265192	0	0.0	0	0.0	C	2.214	-0.380086	0.05000	.	.	ENSG00000037280	ENST00000261937;ENST00000393347;ENST00000502649	T;T;T	0.29397	1.57;1.57;1.57	4.94	1.91	0.25777	Immunoglobulin subtype (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.17789	0.0427	L	0.41573	1.285	0.09310	N	1	B;B;B;B;B	0.33940	0.433;0.311;0.112;0.004;0.002	B;B;B;B;B	0.25884	0.064;0.03;0.01;0.004;0.005	T	0.12243	-1.0555	9	0.23891	T	0.37	.	3.6906	0.08344	0.1438:0.5735:0.1397:0.143	.	76;76;76;76;76	B5A928;B5A927;P35916-3;E9PD35;P35916	.;.;.;.;VGFR3_HUMAN	K	76	ENSP00000261937:E76K;ENSP00000377016:E76K;ENSP00000426057:E76K	ENSP00000261937:E76K	E	-	1	0	FLT4	179990335	0.065000	0.20965	0.238000	0.24106	0.056000	0.15407	1.126000	0.31344	1.212000	0.43366	0.456000	0.33151	GAG		0.662	FLT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253527.4			T	180057729	C	T	180057729	3	4	656	1	0	0	0	0	1	0	0	0	5951	893	31	1	3985	1	FLT4	5	180057729	Missense_Mutation	SNP	C	TCGA-KN-8419-01A-11D-2310-10	3226185	180057729	857531	13	40680										
HLA-A	3105	mdanderson.org	37	chr6	29911119	29911119	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	tcctccgcgggtaccggcagGacgcctacgacggcaaggat	14	14	0	0	rs3173419	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr6:29911119G>C	ENST00000396634.1	+	5	759	c.418G>C	c.(418-420)Gac>Cac	p.D140H	HLA-A_ENST00000376806.5_Missense_Mutation_p.D140H|HLA-A_ENST00000376809.5_Missense_Mutation_p.D140H|HLA-A_ENST00000376802.2_Missense_Mutation_p.D140H			P16189	1A31_HUMAN	major histocompatibility complex, class I, A	140	Alpha-2.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	beta-2-microglobulin binding (GO:0030881)|peptide antigen binding (GO:0042605)|TAP binding (GO:0046977)			central_nervous_system(2)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	30						GTACCGGCAGGACGCCTACGA	0.662									Osteosarcoma, Familial Clustering of;Naso-/Oropharyngeal/Laryngeal Cancer, Familial Clustering of;Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of	Multiple Myeloma(9;0.094)			N|||	273	0.0545128	0.1399	0.0461	5008	,	,		11816	0.0159		0.0308	False		,,,				2504	0.0092															0													36	27	30					6																	29911119		1496	2698	4194	SO:0001583	missense	3105	Familial Cancer Database	Familial Osteogenic Sarcoma;incl.: Familial Head and Neck Cancer; ;Lichen Sclerosis, Familial	D32129	CCDS34373.1	6p21.3	2013-01-11			ENSG00000206503	ENSG00000206503		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4931	protein-coding gene	gene with protein product		142800				8838351	Standard	NM_001242758		Approved		uc003nol.3	P01891	OTTHUMG00000130501	ENST00000396634.1:c.418G>C	6.37:g.29911119G>C	ENSP00000379873:p.Asp140His	Somatic		WXS	Illumina HiSeq	Phase_I	O62924|O98009|O98137|Q8MHM1|Q9TPQ3|Q9TQ24|Q9UQU6|Q9UQU7	Missense_Mutation	SNP	ENST00000396634.1	37	CCDS34373.1	.	.	.	.	.	.	.	.	.	.	.	0.014	-1.580111	0.00879	.	.	ENSG00000206503	ENST00000396634;ENST00000376806;ENST00000376809;ENST00000376802	T;T;T;T	0.00009	9.49;9.49;9.49;9.49	3.78	-7.56	0.01322	MHC class I, alpha chain, alpha1/alpha2 (6);MHC classes I/II-like antigen recognition protein (3);MHC class I-like antigen recognition (3);	79.907900	0.01339	U	0.011517	T	0.00039	0.0001	L	0.47190	1.495	0.09310	N	1	B;B;B;B;B;B	0.16603	0.018;0.001;0.001;0.003;0.003;0.001	B;B;B;B;B;B	0.26969	0.064;0.051;0.061;0.075;0.075;0.051	T	0.10706	-1.0618	10	0.23302	T	0.38	.	5.3314	0.15934	0.102:0.2286:0.5197:0.1496	rs3173419;rs3175999;rs16896879;rs28749152;rs41549418	19;140;140;140;140;140	B4DVB9;P13746;Q5SRN7;Q5SRN5;P30455;P04439	.;1A11_HUMAN;.;.;1A36_HUMAN;1A03_HUMAN	H	140	ENSP00000379873:D140H;ENSP00000366002:D140H;ENSP00000366005:D140H;ENSP00000365998:D140H	ENSP00000365998:D140H	D	+	1	0	HLA-A	30019098	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-9.138000	0.00013	-2.332000	0.00632	-4.658000	0.00004	GAC		0.662	HLA-A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252909.1	NM_002116		C	29911119	G	C	29911119	3	2	656	1	0	0	0	0	1	0	0	0	7202	1174	41	4	428	4	HLA-A	6	29911119	Missense_Mutation	SNP	G	TCGA-KN-8419-01A-11D-2310-10		29911119	141203948	14	40681										
RSPH10B	728194	mdanderson.org	37	chr7	6836259	6836259	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	caacacgtgggtcaataataCgtacgtcttctttgtgaaca	8	9	3	1	rs2528353	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr7:6836259C>T	ENST00000403107.1	+	19	2681	c.2294C>T	c.(2293-2295)aCg>aTg	p.T765M	CCZ1B_ENST00000597208.1_Intron|RSPH10B2_ENST00000297186.3_Missense_Mutation_p.T765M|RSPH10B2_ENST00000463354.2_3'UTR|RSPH10B2_ENST00000404077.1_Missense_Mutation_p.T765M|RSPH10B2_ENST00000433859.2_Missense_Mutation_p.T765M|RSPH10B2_ENST00000359718.3_3'UTR			B2RC85	R10B2_HUMAN	radial spoke head 10 homolog B2 (Chlamydomonas)	765				T -> M (in Ref. 1; BAG37482 and 3; AAH34495/AAI57865/AAI57872). {ECO:0000305}.						breast(3)|endometrium(1)|large_intestine(4)|lung(2)|ovary(2)|pancreas(1)|skin(2)	15						GTCAATAATACGTACGTCTTC	0.433													.|||	1201	0.239816	0.18	0.2233	5008	,	,		10379	0.2639		0.1332	False		,,,				2504	0.4172															0													195	196	196					7																	6836259		1823	3749	5572	SO:0001583	missense	728194				CCDS43552.1	7p22.1	2008-07-04			ENSG00000169402	ENSG00000169402			34385	protein-coding gene	gene with protein product							Standard	NM_001099697		Approved		uc003sqw.1	B2RC85	OTTHUMG00000151856	ENST00000403107.1:c.2294C>T	7.37:g.6836259C>T	ENSP00000384766:p.Thr765Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMW7|B2RXI4|B2RXJ0|Q86ST9|Q8NE68	Missense_Mutation	SNP	ENST00000403107.1	37	CCDS43552.1	.	.	.	.	.	.	.	.	.	.	T	0.830	-0.745624	0.03065	.	.	ENSG00000169402	ENST00000403107;ENST00000404077;ENST00000297186;ENST00000433859	T;T;T;T	0.49432	0.78;0.78;0.78;0.78	2.94	1.75	0.24633	.	1.687920	0.03443	N	0.209514	T	0.20292	0.0488	N	0.01576	-0.805	0.80722	P	0.0	B	0.09022	0.002	B	0.04013	0.001	T	0.19353	-1.0308	9	0.13108	T	0.6	.	5.0327	0.14419	0.0:0.2814:0.0:0.7186	.	765	B2RC85	R10B2_HUMAN	M	765	ENSP00000384766:T765M;ENSP00000386102:T765M;ENSP00000297186:T765M;ENSP00000416710:T765M	ENSP00000297186:T765M	T	+	2	0	RSPH10B2	6802784	0.257000	0.24022	0.001000	0.08648	0.058000	0.15608	1.923000	0.40055	-0.033000	0.13736	-1.381000	0.01174	ACG		0.433	RSPH10B2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324184.4	NM_001099697		T	6836259	C	T	6836259	3	4	656	1	0	0	0	0	1	0	0	0	13716	536	19	1	5053	1	RSPH10B	7	6836259	Missense_Mutation	SNP	C	TCGA-KN-8419-01A-11D-2310-10		6836259	152302404	15	40682										
DDC	1644	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr7	50596997	50596997	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gccgatggatcactttggtcCgagcggccagcagggccacc	14	14	1	0			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr7:50596997C>T	ENST00000444124.2	-	5	679	c.479G>A	c.(478-480)cGg>cAg	p.R160Q	AC018705.5_ENST00000454521.1_RNA|DDC_ENST00000489162.1_5'UTR|DDC_ENST00000431062.1_Intron|DDC_ENST00000380984.4_Missense_Mutation_p.R160Q|DDC_ENST00000357936.5_Missense_Mutation_p.R160Q|DDC_ENST00000426377.1_Missense_Mutation_p.R82Q	NM_001082971.1	NP_001076440	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid decarboxylase)	160	2 X approximate tandem repeats.				catecholamine biosynthetic process (GO:0042423)|cellular amino acid metabolic process (GO:0006520)|cellular nitrogen compound metabolic process (GO:0034641)|cellular response to alkaloid (GO:0071312)|cellular response to drug (GO:0035690)|cellular response to growth factor stimulus (GO:0071363)|circadian rhythm (GO:0007623)|dopamine biosynthetic process (GO:0042416)|indolalkylamine biosynthetic process (GO:0046219)|isoquinoline alkaloid metabolic process (GO:0033076)|multicellular organismal aging (GO:0010259)|phytoalexin metabolic process (GO:0052314)|response to pyrethroid (GO:0046684)|serotonin biosynthetic process (GO:0042427)|small molecule metabolic process (GO:0044281)|synaptic vesicle amine transport (GO:0015842)	axon (GO:0030424)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|neuronal cell body (GO:0043025)|synaptic vesicle (GO:0008021)	amino acid binding (GO:0016597)|aromatic-L-amino-acid decarboxylase activity (GO:0004058)|enzyme binding (GO:0019899)|L-dopa decarboxylase activity (GO:0036468)|pyridoxal phosphate binding (GO:0030170)			breast(1)|endometrium(4)|kidney(3)|large_intestine(2)|lung(23)|ovary(4)|skin(2)|stomach(1)	40	Glioma(55;0.08)|all_neural(89;0.245)				Amantadine(DB00915)|Carbidopa(DB00190)|Cycloserine(DB00260)|Droxidopa(DB06262)|Flupentixol(DB00875)|L-DOPA(DB01235)|L-Tryptophan(DB00150)|Methyldopa(DB00968)	CACTTTGGTCCGAGCGGCCAG	0.557																																																0													53	53	53					7																	50596997		2203	4300	6503	SO:0001583	missense	1644				CCDS5511.1, CCDS56485.1, CCDS56486.1, CCDS56487.1, CCDS75598.1, CCDS75599.1	7p12.1	2012-08-30			ENSG00000132437	ENSG00000132437	4.1.1.28		2719	protein-coding gene	gene with protein product		107930				1612608	Standard	NM_001082971		Approved	AADC	uc003tpf.4	P20711	OTTHUMG00000023353	ENST00000444124.2:c.479G>A	7.37:g.50596997C>T	ENSP00000403644:p.Arg160Gln	Somatic		WXS	Illumina HiSeq	Phase_I	C9IYA0|E7ER62|E7EU95|Q16723|Q5W5T9|Q75MJ6	Missense_Mutation	SNP	ENST00000444124.2	37	CCDS5511.1	.	.	.	.	.	.	.	.	.	.	C	33	5.194391	0.94960	.	.	ENSG00000132437	ENST00000357936;ENST00000426377;ENST00000444124;ENST00000380984	T;T;T;T	0.53640	0.61;0.61;0.61;0.61	5.15	5.15	0.70609	Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (1);Pyridoxal phosphate-dependent transferase, major domain (1);	0.101870	0.64402	D	0.000005	T	0.80460	0.4627	H	0.97516	4.02	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.87383	0.2358	10	0.87932	D	0	-1.2889	17.5599	0.87903	0.0:1.0:0.0:0.0	.	160	P20711	DDC_HUMAN	Q	160;82;160;160	ENSP00000350616:R160Q;ENSP00000395069:R82Q;ENSP00000403644:R160Q;ENSP00000370371:R160Q	ENSP00000350616:R160Q	R	-	2	0	DDC	50564491	1.000000	0.71417	0.997000	0.53966	0.688000	0.40055	6.680000	0.74518	2.673000	0.90976	0.655000	0.94253	CGG		0.557	DDC-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342593.1			T	50596997	C	T	50596997	3	4	656	1	0	0	0	0	1	0	0	0	4327	652	23	1	1003	1	DDC	7	50596997	Missense_Mutation	SNP	C	TCGA-KN-8419-01A-11D-2310-10	43760738	50596997	108541666	16	40683										
MUC17	140453	mdanderson.org	37	chr7	100680117	100680117	+	Missense_Mutation	SNP	T	T	C													0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	ctcgactcttagtgaaggaaTgactccattaacaagcacac					rs147353603	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr7:100680117T>C	ENST00000306151.4	+	3	5484	c.5420T>C	c.(5419-5421)aTg>aCg	p.M1807T		NM_001040105.1	NP_001035194.1	Q685J3	MUC17_HUMAN	mucin 17, cell surface associated	1807	59 X approximate tandem repeats.|Ser-rich.				cellular homeostasis (GO:0019725)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	apical plasma membrane (GO:0016324)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)	extracellular matrix constituent, lubricant activity (GO:0030197)|PDZ domain binding (GO:0030165)			NS(3)|breast(14)|central_nervous_system(2)|cervix(2)|endometrium(27)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(28)|lung(179)|ovary(19)|pancreas(1)|prostate(13)|skin(26)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(4)	343	Lung NSC(181;0.136)|all_lung(186;0.182)					AGTGAAGGAATGACTCCATTA	0.507													-|||	4	0.000798722	0.0008	0.0	5008	,	,		27011	0.003		0.0	False		,,,				2504	0.0															0													250	253	252					7																	100680117		2203	4300	6503	SO:0001583	missense	140453			AJ606307	CCDS34711.1	7q22	2007-01-17	2006-03-14		ENSG00000169876	ENSG00000169876		"Mucins"	16800	protein-coding gene	gene with protein product		608424				11855812	Standard	NM_001040105		Approved		uc003uxp.1	Q685J3	OTTHUMG00000157030	ENST00000306151.4:c.5420T>C	7.37:g.100680117T>C	ENSP00000302716:p.Met1807Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O14761|Q685J2|Q8TDH7	Missense_Mutation	SNP	ENST00000306151.4	37	CCDS34711.1	.	.	.	.	.	.	.	.	.	.	N	0.005	-2.166907	0.00318	.	.	ENSG00000169876	ENST00000306151	T	0.01854	4.6	0.373	-0.746	0.11095	.	.	.	.	.	T	0.00998	0.0033	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.48670	-0.9015	8	0.09338	T	0.73	.	.	.	.	.	1807	Q685J3	MUC17_HUMAN	T	1807	ENSP00000302716:M1807T	ENSP00000302716:M1807T	M	+	2	0	MUC17	100466837	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-3.274000	0.00531	-4.523000	0.00044	-3.958000	0.00015	ATG		0.507	MUC17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347161.1	NM_001040105		C	100680117	T	C	100680117	3	2	656	1	0	0	0	0	1	0	0	0	9981	1464	51	3	5430	3	MUC17	7	100680117	Missense_Mutation	SNP	T	TCGA-KN-8419-01A-11D-2310-10	50083120	100680117	58458546	17	40684	372	2								
MUC17	140453	mdanderson.org	37	chr7	100680120	100680120	+	Missense_Mutation	SNP	C	C	A													0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gactcttagtgaaggaatgaCtccattaacaagcacacctg					rs147991653	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr7:100680120C>A	ENST00000306151.4	+	3	5487	c.5423C>A	c.(5422-5424)aCt>aAt	p.T1808N		NM_001040105.1	NP_001035194.1	Q685J3	MUC17_HUMAN	mucin 17, cell surface associated	1808	59 X approximate tandem repeats.|Ser-rich.				cellular homeostasis (GO:0019725)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	apical plasma membrane (GO:0016324)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)	extracellular matrix constituent, lubricant activity (GO:0030197)|PDZ domain binding (GO:0030165)	p.T1808N(1)		NS(3)|breast(14)|central_nervous_system(2)|cervix(2)|endometrium(27)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(28)|lung(179)|ovary(19)|pancreas(1)|prostate(13)|skin(26)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(4)	343	Lung NSC(181;0.136)|all_lung(186;0.182)					GAAGGAATGACTCCATTAACA	0.512													-|||	4	0.000798722	0.0008	0.0	5008	,	,		25905	0.003		0.0	False		,,,				2504	0.0															1	Substitution - Missense(1)	skin(1)											246	249	248					7																	100680120		2203	4300	6503	SO:0001583	missense	140453			AJ606307	CCDS34711.1	7q22	2007-01-17	2006-03-14		ENSG00000169876	ENSG00000169876		"Mucins"	16800	protein-coding gene	gene with protein product		608424				11855812	Standard	NM_001040105		Approved		uc003uxp.1	Q685J3	OTTHUMG00000157030	ENST00000306151.4:c.5423C>A	7.37:g.100680120C>A	ENSP00000302716:p.Thr1808Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O14761|Q685J2|Q8TDH7	Missense_Mutation	SNP	ENST00000306151.4	37	CCDS34711.1	76	0.0347985347985348	28	0.056910569105691054	21	0.058011049723756904	12	0.02097902097902098	15	0.01978891820580475	c	0.142	-1.100945	0.01843	.	.	ENSG00000169876	ENST00000306151	T	0.02177	4.41	0.471	-0.615	0.11587	.	.	.	.	.	T	0.00210	0.0006	N	0.19112	0.55	0.09310	N	1	D	0.58620	0.983	B	0.40677	0.337	T	0.51988	-0.8635	8	0.32370	T	0.25	.	.	.	.	.	1808	Q685J3	MUC17_HUMAN	N	1808	ENSP00000302716:T1808N	ENSP00000302716:T1808N	T	+	2	0	MUC17	100466840	0.003000	0.15002	0.000000	0.03702	0.000000	0.00434	0.305000	0.19254	-0.243000	0.09653	-1.404000	0.01136	ACT		0.512	MUC17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347161.1	NM_001040105		A	100680120	C	A	100680120	3	1	656	1	0	0	0	0	1	0	0	0	9981	565	20	4	5433	4	MUC17	7	100680120	Missense_Mutation	SNP	C	TCGA-KN-8419-01A-11D-2310-10	3	100680120	58458543	18	40685	372	2								
GIMAP8	155038	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	150171183	150171183	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	cagtcctccttgtggggaaaCgcggtgctggaaaaagtgca	14	9	0	0	rs576578780		TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr7:150171183C>T	ENST00000307271.3	+	4	1340	c.766C>T	c.(766-768)Cgc>Tgc	p.R256C		NM_175571.2	NP_783161.1	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	256	AIG1-type G 2.					cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	GTP binding (GO:0005525)			breast(3)|central_nervous_system(3)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(11)|lung(26)|ovary(2)|skin(7)|stomach(1)|urinary_tract(1)	62			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		TGTGGGGAAACGCGGTGCTGG	0.557													C|||	1	0.000199681	0.0008	0.0	5008	,	,		17518	0.0		0.0	False		,,,				2504	0.0															0													89	89	89					7																	150171183		2203	4300	6503	SO:0001583	missense	155038			AL834361	CCDS34777.1	7q36.1	2014-04-04			ENSG00000171115	ENSG00000171115		"GTPases, IMAP"	21792	protein-coding gene	gene with protein product	"immune-associated nucleotide-binding protein 9"					15474311	Standard	XM_005249951		Approved	DKFZp667I133, hIAN6, IAN9	uc003whj.3	Q8ND71	OTTHUMG00000158327	ENST00000307271.3:c.766C>T	7.37:g.150171183C>T	ENSP00000305107:p.Arg256Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000307271.3	37	CCDS34777.1	.	.	.	.	.	.	.	.	.	.	C	12.78	2.040312	0.35989	.	.	ENSG00000171115	ENST00000307271	T	0.61392	0.11	4.47	3.56	0.40772	AIG1 (1);	0.309039	0.23636	N	0.046066	T	0.74574	0.3734	M	0.82630	2.6	0.19300	N	0.999978	D	0.89917	1.0	D	0.91635	0.999	T	0.65162	-0.6235	10	0.72032	D	0.01	.	9.4363	0.38641	0.2119:0.7881:0.0:0.0	.	256	Q8ND71	GIMA8_HUMAN	C	256	ENSP00000305107:R256C	ENSP00000305107:R256C	R	+	1	0	GIMAP8	149802116	0.005000	0.15991	0.231000	0.23993	0.139000	0.21198	0.617000	0.24359	1.074000	0.40909	0.650000	0.86243	CGC		0.557	GIMAP8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350701.1	NM_175571		T	150171183	C	T	150171183	3	4	656	1	0	0	0	0	1	0	0	0	6392	536	19	1	776	1	GIMAP8	7	150171183	Missense_Mutation	SNP	C	TCGA-KN-8419-01A-11D-2310-10	49491063	150171183	8967480	19	40686										
EN2	2020	hgsc.bcm.edu	37	chr7	155251201	155251201	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	ccgggcgaagcggacaccggGcgccggcgggctctgatgct	18	14	1	1			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr7:155251201G>A	ENST00000297375.4	+	1	378	c.129G>A	c.(127-129)ggG>ggA	p.G43G	AC008060.8_ENST00000419225.1_lincRNA	NM_001427.3	NP_001418.2	P19622	HME2_HUMAN	engrailed homeobox 2	43					hindbrain development (GO:0030902)|midbrain development (GO:0030901)|multicellular organismal development (GO:0007275)|neuron development (GO:0048666)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	membrane (GO:0016020)|nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)			central_nervous_system(1)|large_intestine(1)|lung(2)	4	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGGACACCGGGCGCCGGCGGG	0.746																																																0													3	3	3					7																	155251201		1605	3163	4768	SO:0001819	synonymous_variant	2020				CCDS5940.1	7q36.2	2011-06-20	2007-02-15		ENSG00000164778	ENSG00000164778		"Homeoboxes / ANTP class : NKL subclass"	3343	protein-coding gene	gene with protein product		131310					Standard	NM_001427		Approved		uc003wmb.3	P19622	OTTHUMG00000151354	ENST00000297375.4:c.129G>A	7.37:g.155251201G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D252|Q549U3|Q9UD58	Silent	SNP	ENST00000297375.4	37	CCDS5940.1																																																																																				0.746	EN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322337.1	NM_001427		A	155251201	G	A	155251201	2	1	656	1	0	0	0	0	0	0	0	1	5112	1190	42	2		2	EN2	7	155251201	Silent	SNP	G	TCGA-KN-8419-01A-11D-2310-10	5080018	155251201	3887462	20	40687										
AMAC1L2	83650	mdanderson.org	37	chr8	11189604	11189604	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	tacagcccggaacctcagctGtgagaggacagggaaggtgg	16	9	1	1			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr8:11189604G>T	ENST00000382435.4	+	1	1208	c.989G>T	c.(988-990)tGt>tTt	p.C330F		NM_001282300.1|NM_054028.1	NP_001269229.1|NP_473369.1	Q96KT7	S35G5_HUMAN	solute carrier family 35, member G5	330						integral component of membrane (GO:0016021)											AACCTCAGCTGTGAGAGGACA	0.507																																																0													65	66	66					8																	11189604		2203	4300	6503	SO:0001583	missense	83650			AJ291677	CCDS5980.1	8p23.1	2013-05-22	2011-08-03	2011-08-03	ENSG00000177710	ENSG00000177710		"Solute carriers"	15546	protein-coding gene	gene with protein product		615199	"acyl-malonyl condensing enzyme 1-like 2"	AMAC, AMAC1L2			Standard	NM_054028		Approved		uc003wtp.1	Q96KT7	OTTHUMG00000090653	ENST00000382435.4:c.989G>T	8.37:g.11189604G>T	ENSP00000371872:p.Cys330Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRL6	Missense_Mutation	SNP	ENST00000382435.4	37	CCDS5980.1	.	.	.	.	.	.	.	.	.	.	g	1.779	-0.482469	0.04383	.	.	ENSG00000177710	ENST00000382435	T	0.26957	1.7	.	.	.	.	0.000000	0.48767	D	0.000176	T	0.14787	0.0357	L	0.44542	1.39	0.32802	D	0.500314	B	0.06786	0.001	B	0.04013	0.001	T	0.41963	-0.9479	8	0.02654	T	1	-4.1531	.	.	.	.	330	Q96KT7	S35G5_HUMAN	F	330	ENSP00000371872:C330F	ENSP00000371872:C330F	C	+	2	0	SLC35G5	11227014	0.285000	0.24296	0.299000	0.25016	0.299000	0.27559	1.275000	0.33144	0.064000	0.16427	0.064000	0.15345	TGT		0.507	SLC35G5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207313.2	NM_054028		T	11189604	G	T	11189604	3	4	656	1	0	0	0	0	1	0	0	0	560	1377	48	4	991	4	AMAC1L2	8	11189604	Missense_Mutation	SNP	G	TCGA-KN-8419-01A-11D-2310-10		11189604	135174418	21	40688			1	96		2	2	13	G		2.48085e-05
AMAC1L2	83650	mdanderson.org	37	chr8	11189616	11189616	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	cctcagctgtgagaggacagGgaaggtggaggagtgagata	18	5	1	2	rs200495954		TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr8:11189616G>A	ENST00000382435.4	+	1	1220	c.1001G>A	c.(1000-1002)gGg>gAg	p.G334E		NM_001282300.1|NM_054028.1	NP_001269229.1|NP_473369.1	Q96KT7	S35G5_HUMAN	solute carrier family 35, member G5	334						integral component of membrane (GO:0016021)											GAGAGGACAGGGAAGGTGGAG	0.498																																																0													55	58	57					8																	11189616		2203	4300	6503	SO:0001583	missense	83650			AJ291677	CCDS5980.1	8p23.1	2013-05-22	2011-08-03	2011-08-03	ENSG00000177710	ENSG00000177710		"Solute carriers"	15546	protein-coding gene	gene with protein product		615199	"acyl-malonyl condensing enzyme 1-like 2"	AMAC, AMAC1L2			Standard	NM_054028		Approved		uc003wtp.1	Q96KT7	OTTHUMG00000090653	ENST00000382435.4:c.1001G>A	8.37:g.11189616G>A	ENSP00000371872:p.Gly334Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRL6	Missense_Mutation	SNP	ENST00000382435.4	37	CCDS5980.1	.	.	.	.	.	.	.	.	.	.	g	5.777	0.327688	0.10956	.	.	ENSG00000177710	ENST00000382435	T	0.38560	1.13	.	.	.	.	0.350088	0.20838	N	0.084754	T	0.26484	0.0647	L	0.50333	1.59	0.28172	N	0.928524	B	0.06786	0.001	B	0.04013	0.001	T	0.35574	-0.9783	8	0.02654	T	1	-1.4658	.	.	.	.	334	Q96KT7	S35G5_HUMAN	E	334	ENSP00000371872:G334E	ENSP00000371872:G334E	G	+	2	0	SLC35G5	11227026	0.086000	0.21541	0.277000	0.24703	0.278000	0.26855	-0.233000	0.09041	0.064000	0.16427	0.064000	0.15345	GGG		0.498	SLC35G5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207313.2	NM_054028		A	11189616	G	A	11189616	3	1	656	1	0	0	0	0	1	0	0	0	560	1232	43	2	1003	2	AMAC1L2	8	11189616	Missense_Mutation	SNP	G	TCGA-KN-8419-01A-11D-2310-10	12	11189616	135174406	22	40689			1	96		2	2	13	G		2.48085e-05
TNFRSF10C	8794	broad.mit.edu	37	chr8	22974315	22974315	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	agctgctgaagagacaatgaAcaccagcccggggactcctg	12	12	0	3	rs61736405		TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr8:22974315A>C	ENST00000356864.3	+	5	1083	c.551A>C	c.(550-552)aAc>aCc	p.N184T	TNFRSF10C_ENST00000540813.1_Missense_Mutation_p.N82T	NM_003841.3	NP_003832	O14798	TR10C_HUMAN	tumor necrosis factor receptor superfamily, member 10c, decoy without an intracellular domain	184					apoptotic process (GO:0006915)|signal transduction (GO:0007165)	anchored component of membrane (GO:0031225)|integral component of plasma membrane (GO:0005887)	transmembrane signaling receptor activity (GO:0004888)	p.N184T(1)		endometrium(1)|large_intestine(6)|lung(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)	15		Prostate(55;0.0421)|Breast(100;0.067)		Colorectal(74;0.0147)|COAD - Colon adenocarcinoma(73;0.0612)		GAGACAATGAACACCAGCCCG	0.602																																																1	Substitution - Missense(1)	skin(1)											68	80	76					8																	22974315		2203	4297	6500	SO:0001583	missense	8794			AF012536	CCDS6037.1	8p22-p21	2006-02-22			ENSG00000173535	ENSG00000173535		"Tumor necrosis factor receptor superfamily", "CD molecules"	11906	protein-coding gene	gene with protein product		603613				9314565, 9325248	Standard	NM_003841		Approved	DcR1, TRAILR3, LIT, TRID, CD263	uc003xcy.3	O14798	OTTHUMG00000097844	ENST00000356864.3:c.551A>C	8.37:g.22974315A>C	ENSP00000349324:p.Asn184Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O14755|Q08AS6|Q6FH98|Q6UXM5	Missense_Mutation	SNP	ENST00000356864.3	37	CCDS6037.1	.	.	.	.	.	.	.	.	.	.	A	1.881	-0.457883	0.04508	.	.	ENSG00000173535	ENST00000356864;ENST00000540813;ENST00000544885	T;T	0.62788	0.0;1.25	.	.	.	.	0.568776	0.17737	U	0.163718	T	0.28400	0.0702	N	0.03608	-0.345	0.22213	N	0.999289	P	0.38110	0.618	B	0.33690	0.168	T	0.14924	-1.0455	9	0.37606	T	0.19	.	2.8413	0.05530	0.5024:0.497:2.0E-4:3.0E-4	rs61736405	184	O14798	TR10C_HUMAN	T	184;82;184	ENSP00000349324:N184T;ENSP00000437612:N82T	ENSP00000349324:N184T	N	+	2	0	TNFRSF10C	23030260	0.001000	0.12720	0.054000	0.19295	0.104000	0.19210	0.918000	0.28678	0.077000	0.16863	0.076000	0.15429	AAC		0.602	TNFRSF10C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215134.3			C	22974315	A	C	22974315	3	2	656	1	0	0	0	0	1	0	0	0	16294	43	2	5	569	5	TNFRSF10C	8	22974315	Missense_Mutation	SNP	A	TCGA-KN-8419-01A-11D-2310-10	11784699	22974315	123389707	23	40690										
DENND3	22898	broad.mit.edu	37	chr8	142175380	142175380	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gacctcgacacccagtcggaGgaggacaggtgcttcactgt	13	12	1	0			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr8:142175380G>A	ENST00000262585.2	+	11	1583	c.1305G>A	c.(1303-1305)gaG>gaA	p.E435E	DENND3_ENST00000519811.1_Silent_p.E515E|DENND3_ENST00000424248.1_Silent_p.E383E	NM_014957.2	NP_055772.2	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	435					cellular protein catabolic process (GO:0044257)|endosome to lysosome transport (GO:0008333)|positive regulation of Rab GTPase activity (GO:0032851)		Rab guanyl-nucleotide exchange factor activity (GO:0017112)			breast(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(12)|lung(19)|ovary(1)|prostate(3)|skin(4)|stomach(2)|urinary_tract(1)	55	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			CCCAGTCGGAGGAGGACAGGT	0.468																																																0													137	136	136					8																	142175380		2203	4300	6503	SO:0001819	synonymous_variant	22898			AB020677	CCDS34947.1	8q24.3	2013-01-10				ENSG00000105339		"DENN/MADD domain containing", "WD repeat domain containing"	29134	protein-coding gene	gene with protein product						10048485	Standard	NM_014957		Approved	KIAA0870	uc003yvy.3	A2RUS2		ENST00000262585.2:c.1305G>A	8.37:g.142175380G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZM28|O94947|Q2TAM7|Q6ZMS6|Q96DK3	Silent	SNP	ENST00000262585.2	37	CCDS34947.1	.	.	.	.	.	.	.	.	.	.	G	2.980	-0.210423	0.06140	.	.	ENSG00000105339	ENST00000518668	.	.	.	5.42	-6.03	0.02185	.	.	.	.	.	T	0.54631	0.1870	.	.	.	0.44702	D	0.997698	.	.	.	.	.	.	T	0.58086	-0.7698	4	.	.	.	-28.1093	12.2339	0.54503	0.7261:0.0996:0.1743:0.0	.	.	.	.	R	440	.	.	G	+	1	0	DENND3	142244562	0.927000	0.31430	0.025000	0.17156	0.514000	0.34195	0.069000	0.14552	-1.210000	0.02627	-0.258000	0.10820	GGA		0.468	DENND3-201	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_014957		A	142175380	G	A	142175380	2	1	656	1	0	0	0	0	0	0	0	1	4434	991	35	2		2	DENND3	8	142175380	Silent	SNP	G	TCGA-KN-8419-01A-11D-2310-10	119201065	142175380	4188642	24	40691										
SLC45A4	57210	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	142221657	142221657	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	caactcgctgaggaaaagaaGatacgtcattcttctaagag	9	8	3	4			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr8:142221657G>A	ENST00000024061.3	-	8	2588	c.2281C>T	c.(2281-2283)Ctt>Ttt	p.L761F	SLC45A4_ENST00000433583.2_3'UTR|SLC45A4_ENST00000517878.1_3'UTR|SLC45A4_ENST00000519067.1_3'UTR	NM_001080431.1	NP_001073900.1	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4						transport (GO:0006810)	integral component of membrane (GO:0016021)				breast(1)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(6)|lung(9)|ovary(3)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	31	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)			AGGAAAAGAAGATACGTCATT	0.493																																																0													83	95	91					8																	142221657		2203	4300	6503	SO:0001583	missense	57210			AB032952	CCDS34948.1, CCDS69550.1, CCDS75795.1	8q24.3	2013-05-22						"Solute carriers"	29196	protein-coding gene	gene with protein product							Standard	NM_001080431		Approved	KIAA1126	uc003ywd.1	Q5BKX6		ENST00000024061.3:c.2281C>T	8.37:g.142221657G>A	ENSP00000024061:p.Leu761Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZRI2|Q9ULU3	Missense_Mutation	SNP	ENST00000024061.3	37	CCDS34948.1	.	.	.	.	.	.	.	.	.	.	G	8.015	0.758385	0.15846	.	.	ENSG00000022567	ENST00000024061	T	0.18338	2.22	3.9	0.867	0.19085	.	.	.	.	.	T	0.10380	0.0254	.	.	.	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.34825	-0.9813	8	0.87932	D	0	.	1.1891	0.01861	0.2061:0.2557:0.3799:0.1582	.	761	Q5BKX6-3	.	F	761	ENSP00000024061:L761F	ENSP00000024061:L761F	L	-	1	0	SLC45A4	142290839	0.007000	0.16637	0.001000	0.08648	0.070000	0.16714	0.710000	0.25748	0.435000	0.26365	0.655000	0.94253	CTT		0.493	SLC45A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378571.3	XM_050325		A	142221657	G	A	142221657	3	1	656	1	0	0	0	0	1	0	0	0	14656	942	33	2	119	2	SLC45A4	8	142221657	Missense_Mutation	SNP	G	TCGA-KN-8419-01A-11D-2310-10	46277	142221657	4142365	25	40692										
AQP7	364	mdanderson.org	37	chr9	33385786	33385786	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gatgcctatcaccagcgcctCtgttcctggcagtgctgggt	12	13	2	0	rs76908057		TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr9:33385786C>G	ENST00000537089.1	-	6	646	c.328G>C	c.(328-330)Gag>Cag	p.E110Q	AQP7_ENST00000539936.1_Missense_Mutation_p.E202Q|AQP7_ENST00000541274.1_Missense_Mutation_p.R70T|AQP7_ENST00000377425.4_Missense_Mutation_p.E145Q			O14520	AQP7_HUMAN	aquaporin 7	202					excretion (GO:0007588)|generation of precursor metabolites and energy (GO:0006091)|glycerol transport (GO:0015793)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	glycerol channel activity (GO:0015254)|water channel activity (GO:0015250)			NS(1)|large_intestine(1)|lung(7)|ovary(1)|prostate(4)|skin(2)|stomach(1)	17			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.191)		ACCAGCGCCTCTGTTCCTGGC	0.617																																																0													112	100	104					9																	33385786		2203	4300	6503	SO:0001583	missense	364			AB006190	CCDS6541.1	9p13	2008-02-05			ENSG00000165269	ENSG00000165269		"Ion channels / Aquaporins"	640	protein-coding gene	gene with protein product		602974		AQP7L		9252401	Standard	NM_001170		Approved	AQP9, AQPap	uc003zst.3	O14520	OTTHUMG00000019773	ENST00000537089.1:c.328G>C	9.37:g.33385786C>G	ENSP00000441619:p.Glu110Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q08E94|Q5T5L9|Q8NHM3	Missense_Mutation	SNP	ENST00000537089.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	c|c	3.965|3.965	-0.009525|-0.009525	0.07727|0.07727	.|.	.|.	ENSG00000165269|ENSG00000165269	ENST00000537089;ENST00000379507;ENST00000447660;ENST00000297988;ENST00000377425;ENST00000439678;ENST00000379506;ENST00000539936;ENST00000379503|ENST00000541274	D;D;D;D;D;D;D;D;D|T	0.85171|0.51325	-1.95;-1.95;-1.95;-1.95;-1.95;-1.95;-1.95;-1.95;-1.95|0.71	5.02|5.02	3.11|3.11	0.35812|0.35812	Aquaporin-like (2);|.	0.285780|.	0.38326|.	N|.	0.001735|.	T|T	0.23688|0.23688	0.0573|0.0573	N|N	0.01817|0.01817	-0.705|-0.705	0.40946|0.40946	P|P	0.015494000000000008|0.015494000000000008	B;B;B;B|B	0.06786|0.02656	0.0;0.0;0.001;0.001|0.0	B;B;B;B|B	0.12837|0.01281	0.001;0.001;0.004;0.008|0.0	T|T	0.10109|0.10109	-1.0644|-1.0644	9|8	0.26408|0.32370	T|T	0.33|0.25	-2.4877|-2.4877	14.8905|14.8905	0.70606|0.70606	0.0:0.6125:0.3875:0.0|0.0:0.6125:0.3875:0.0	.|.	201;202;145;202|70	Q5T5M0;B7Z4U2;Q6P5T0;O14520|B7Z7F6	.;.;.;AQP7_HUMAN|.	Q|T	110;201;70;202;145;110;201;202;138|70	ENSP00000441619:E110Q;ENSP00000368821:E201Q;ENSP00000412868:E70Q;ENSP00000297988:E202Q;ENSP00000396111:E145Q;ENSP00000410138:E110Q;ENSP00000368820:E201Q;ENSP00000439534:E202Q;ENSP00000368817:E138Q|ENSP00000438860:R70T	ENSP00000297988:E202Q|ENSP00000438860:R70T	E|R	-|-	1|2	0|0	AQP7|AQP7	33375786|33375786	0.056000|0.056000	0.20664|0.20664	0.962000|0.962000	0.40283|0.40283	0.164000|0.164000	0.22412|0.22412	0.682000|0.682000	0.25335|0.25335	0.263000|0.263000	0.21812|0.21812	-0.139000|-0.139000	0.14373|0.14373	GAG|AGA		0.617	AQP7-202	KNOWN	basic	protein_coding	protein_coding		NM_001170		G	33385786	C	G	33385786	3	3	656	1	0	0	0	0	1	0	0	0	831	922	32	4	432	4	AQP7	9	33385786	Missense_Mutation	SNP	C	TCGA-KN-8419-01A-11D-2310-10		33385786	107827645	26	40693										
TMEM2	23670	ucsc.edu;bcgsc.ca	37	chr9	74300250	74300250	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gccctgtccagcaggactggTaaatagcttagtccatgatg	11	10	0	1			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr9:74300250T>C	ENST00000377044.4	-	24	4554	c.4015A>G	c.(4015-4017)Acc>Gcc	p.T1339A	TMEM2_ENST00000377066.5_Missense_Mutation_p.T1276A|TMEM2_ENST00000396272.3_Missense_Mutation_p.T332A	NM_001135820.1|NM_013390.2	NP_001129292.1|NP_037522.1	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2	1339					multicellular organismal development (GO:0007275)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(15)|liver(1)|lung(19)|ovary(2)|prostate(5)|skin(1)|stomach(1)|urinary_tract(2)	56		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)		GCAGGACTGGTAAATAGCTTA	0.398																																																0													83	77	79					9																	74300250		2203	4300	6503	SO:0001583	missense	23670				CCDS6638.1, CCDS47979.1	9q21.13	2011-07-19			ENSG00000135048	ENSG00000135048			11869	protein-coding gene	gene with protein product		605835					Standard	NM_013390		Approved		uc011lsa.1	Q9UHN6	OTTHUMG00000020000	ENST00000377044.4:c.4015A>G	9.37:g.74300250T>C	ENSP00000366243:p.Thr1339Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8W9|B2RTQ6|Q5T838|Q5T839|Q5T840|Q5T841|Q8NBP6|Q9P2D5	Missense_Mutation	SNP	ENST00000377044.4	37	CCDS6638.1	.	.	.	.	.	.	.	.	.	.	T	12.48	1.950605	0.34377	.	.	ENSG00000135048	ENST00000377044;ENST00000377066;ENST00000396272	T;T;T	0.74632	-0.86;-0.78;2.32	5.53	4.38	0.52667	.	0.226336	0.43919	D	0.000502	T	0.64204	0.2577	L	0.33485	1.01	0.48632	D	0.999688	B;B	0.18968	0.019;0.032	B;B	0.23275	0.02;0.045	T	0.64007	-0.6508	10	0.56958	D	0.05	.	11.5812	0.50891	0.0:0.071:0.0:0.929	.	1339;1276	Q9UHN6;Q9UHN6-2	TMEM2_HUMAN;.	A	1339;1276;332	ENSP00000366243:T1339A;ENSP00000366266:T1276A;ENSP00000379569:T332A	ENSP00000366243:T1339A	T	-	1	0	TMEM2	73490070	1.000000	0.71417	0.953000	0.39169	0.996000	0.88848	4.180000	0.58296	2.103000	0.63969	0.454000	0.30748	ACC		0.398	TMEM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052618.2	NM_013390		C	74300250	T	C	74300250	3	2	656	1	0	0	0	0	1	0	0	0	16133	1638	57	3	140	3	TMEM2	9	74300250	Missense_Mutation	SNP	T	TCGA-KN-8419-01A-11D-2310-10	40914464	74300250	66913181	27	40694										
SLC46A2	57864	bcgsc.ca	37	chr9	115652859	115652859	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gagtagccccgcatcgtagaGggaggcagccacctgggacg	16	12	0	1			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr9:115652859G>A	ENST00000374228.4	-	1	334	c.103C>T	c.(103-105)Ctc>Ttc	p.L35F		NM_033051.3	NP_149040.3	Q9BY10	TSCOT_HUMAN	solute carrier family 46, member 2	35					negative regulation of T cell apoptotic process (GO:0070233)|regulation of T cell differentiation (GO:0045580)|T cell homeostasis (GO:0043029)|thymus development (GO:0048538)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	symporter activity (GO:0015293)			central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(11)|pancreas(1)|skin(1)	18						GCATCGTAGAGGGAGGCAGCC	0.701																																																0													45	47	46					9																	115652859		2203	4300	6503	SO:0001583	missense	57864			AF242557	CCDS6786.1	9q32	2013-05-22	2007-03-29	2007-03-29	ENSG00000119457	ENSG00000119457		"Solute carriers"	16055	protein-coding gene	gene with protein product		608956	"thymic stromal co-transporter"	TSCOT		10978518, 12826694	Standard	NM_033051		Approved	Ly110	uc004bgk.3	Q9BY10	OTTHUMG00000020513	ENST00000374228.4:c.103C>T	9.37:g.115652859G>A	ENSP00000363345:p.Leu35Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALK1|Q86VT0|Q96NE2	Missense_Mutation	SNP	ENST00000374228.4	37	CCDS6786.1	.	.	.	.	.	.	.	.	.	.	G	7.339	0.620583	0.14193	.	.	ENSG00000119457	ENST00000374228	T	0.52754	0.65	5.11	3.0	0.34707	.	0.224065	0.45606	D	0.000352	T	0.23330	0.0564	N	0.12182	0.205	0.32707	N	0.512117	B	0.14012	0.009	B	0.10450	0.005	T	0.12682	-1.0538	10	0.23302	T	0.38	-16.569	4.2995	0.10918	0.4949:0.0:0.5051:0.0	.	35	Q9BY10	TSCOT_HUMAN	F	35	ENSP00000363345:L35F	ENSP00000363345:L35F	L	-	1	0	SLC46A2	114692680	1.000000	0.71417	0.983000	0.44433	0.892000	0.51952	3.606000	0.54095	1.145000	0.42336	0.650000	0.86243	CTC		0.701	SLC46A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053702.1	NM_033051		A	115652859	G	A	115652859	3	1	656	1	0	0	0	0	1	0	0	0	14658	1000	35	2	1340	2	SLC46A2	9	115652859	Missense_Mutation	SNP	G	TCGA-KN-8419-01A-11D-2310-10	41352609	115652859	25560572	28	40695										
ZBTB34	403341	ucsc.edu	37	chr9	129642226	129642226	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gcagcccaccgcaagcagtgAcctccggatggagacgaccc	12	16	0	2			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr9:129642226A>G	ENST00000373452.2	+	1	600	c.536A>G	c.(535-537)gAc>gGc	p.D179G	ZBTB34_ENST00000319119.4_Missense_Mutation_p.D183G			Q8NCN2	ZBT34_HUMAN	zinc finger and BTB domain containing 34	179					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(3)|large_intestine(2)|lung(2)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	12						GCAAGCAGTGACCTCCGGATG	0.587																																																0													48	53	52					9																	129642226		1979	4155	6134	SO:0001583	missense	403341			DQ227306	CCDS48023.1	9q33.3	2013-01-08			ENSG00000177125	ENSG00000177125		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	31446	protein-coding gene	gene with protein product		611692				16718364	Standard	NM_001099270		Approved	KIAA1993, MGC24652, ZNF918	uc004bqm.4	Q8NCN2	OTTHUMG00000020694	ENST00000373452.2:c.536A>G	9.37:g.129642226A>G	ENSP00000362551:p.Asp179Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q38IA7|Q5VYE9	Missense_Mutation	SNP	ENST00000373452.2	37	CCDS48023.1	.	.	.	.	.	.	.	.	.	.	A	18.94	3.728981	0.69074	.	.	ENSG00000177125	ENST00000319119;ENST00000373452	T;T	0.13420	2.59;2.61	5.54	5.54	0.83059	.	0.105167	0.64402	D	0.000006	T	0.10680	0.0261	N	0.24115	0.695	0.58432	D	0.999997	B	0.20780	0.048	B	0.20384	0.029	T	0.19224	-1.0312	10	0.16896	T	0.51	.	15.9596	0.79918	1.0:0.0:0.0:0.0	.	179	Q8NCN2	ZBT34_HUMAN	G	183;179	ENSP00000317534:D183G;ENSP00000362551:D179G	ENSP00000317534:D183G	D	+	2	0	ZBTB34	128682047	1.000000	0.71417	0.258000	0.24420	0.704000	0.40688	8.601000	0.90864	2.220000	0.72140	0.533000	0.62120	GAC		0.587	ZBTB34-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001099270		G	129642226	A	G	129642226	3	3	656	1	0	0	0	0	1	0	0	0	17549	275	10	3	538	3	ZBTB34	9	129642226	Missense_Mutation	SNP	A	TCGA-KN-8419-01A-11D-2310-10	13989367	129642226	11571205	29	40696										
TUBB8	347688	mdanderson.org	37	chr10	93778	93778	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gctggtggactgagagggtgGcgttgtagggctccaccacg	18	9	0	1			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr10:93778G>A	ENST00000309812.4	-	4	616	c.554C>T	c.(553-555)gCc>gTc	p.A185V	TUBB8_ENST00000332708.5_3'UTR|TUBB8_ENST00000447903.2_Missense_Mutation_p.A113V|TUBB8_ENST00000413237.3_5'UTR	NM_177987.2	NP_817124.1	Q3ZCM7	TBB8_HUMAN	tubulin, beta 8 class VIII	185					microtubule-based process (GO:0007017)|protein polymerization (GO:0051258)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|cervix(1)|endometrium(4)|large_intestine(5)|lung(12)|ovary(2)|prostate(3)|skin(3)|stomach(1)	32		all_cancers(4;0.00131)|all_lung(4;0.000777)|Lung NSC(4;0.0043)|all_epithelial(10;0.0154)|Colorectal(49;0.235)		Epithelial(11;0.00341)|all cancers(11;0.00922)|OV - Ovarian serous cystadenocarcinoma(14;0.0508)|Lung(33;0.132)		TGAGAGGGTGGCGTTGTAGGG	0.517																																					Pancreas(192;2041 3010 9013 18103)											0													109	99	102					10																	93778		2203	4296	6499	SO:0001583	missense	347688			AF355127	CCDS7051.1	10p15.3	2014-05-06			ENSG00000173876			"Tubulins"	20773	protein-coding gene	gene with protein product	"class VIII beta-tubulin"						Standard	NM_177987		Approved	bA631M21.2	uc001ifi.2	Q3ZCM7	OTTHUMG00000174803	ENST00000309812.4:c.554C>T	10.37:g.93778G>A	ENSP00000311042:p.Ala185Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SQX9|Q8WZ78	Missense_Mutation	SNP	ENST00000309812.4	37	CCDS7051.1	.	.	.	.	.	.	.	.	.	.	G	14.79	2.641506	0.47153	.	.	ENSG00000173876	ENST00000447903;ENST00000272035;ENST00000440680;ENST00000328974	T	0.77358	-1.09	.	.	.	Tubulin/FtsZ, GTPase domain (4);	0.000000	0.56097	U	0.000022	D	0.87470	0.6185	M	0.92459	3.31	0.36968	D	0.893686	D;D	0.76494	0.997;0.999	D;D	0.75020	0.983;0.985	D	0.86042	0.1520	9	0.87932	D	0	.	5.9051	0.18992	8.0E-4:0.0:0.9992:0.0	.	148;185	C9JAA5;Q3ZCM7	.;TBB8_HUMAN	V	113;151;148;185	ENSP00000403895:A113V	ENSP00000272035:A151V	A	-	2	0	RP11-631M21.2	83778	1.000000	0.71417	0.341000	0.25589	0.344000	0.29017	6.543000	0.73874	0.119000	0.18210	0.121000	0.15741	GCC		0.517	TUBB8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467795.1	NM_177987		A	93778	G	A	93778	3	1	656	1	0	0	0	0	1	0	0	0	16773	1203	42	2	784	2	TUBB8	10	93778	Missense_Mutation	SNP	G	TCGA-KN-8419-01A-11D-2310-10		93778	135440969	30	40697										
FRG2B	441581	mdanderson.org	37	chr10	135439077	135439077	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gatcttgattttttattcaaTgacaagctgcactccttttc	5	9	2	2	rs201483744		TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr10:135439077T>C	ENST00000425520.1	-	4	415	c.363A>G	c.(361-363)tcA>tcG	p.S121S	FRG2B_ENST00000443774.1_Silent_p.S122S	NM_001080998.1	NP_001074467.1	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	121						nucleus (GO:0005634)		p.S122S(1)		endometrium(2)|kidney(2)|lung(14)|ovary(1)|prostate(1)	20		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		TTTTATTCAATGACAAGCTGC	0.517																																																1	Substitution - coding silent(1)	kidney(1)											33	40	37					10																	135439077		2128	4248	6376	SO:0001819	synonymous_variant	441581			AY744466	CCDS44502.1	10q26.3	2012-10-02			ENSG00000225899	ENSG00000225899			33518	protein-coding gene	gene with protein product						15520407	Standard	NM_001080998		Approved		uc010qvg.2	Q96QU4	OTTHUMG00000019328	ENST00000425520.1:c.363A>G	10.37:g.135439077T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VSQ1	Silent	SNP	ENST00000425520.1	37	CCDS44502.1																																																																																				0.517	FRG2B-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000467780.1	NM_001080998		C	135439077	T	C	135439077	2	2	656	1	0	0	0	0	0	0	0	1	6054	1451	51	3		3	FRG2B	10	135439077	Silent	SNP	T	TCGA-KN-8419-01A-11D-2310-10	135345299	135439077	95670	31	40698										
TRIM48	79097	mdanderson.org	37	chr11	55032663	55032663	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	tgaggagcaaatgtgtggcaTtcacagggagacaaagaaga	14	5	1	4	rs200778682	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr11:55032663T>C	ENST00000417545.2	+	2	418	c.332T>C	c.(331-333)aTt>aCt	p.I111T		NM_024114.3	NP_077019.2	Q8IWZ4	TRI48_HUMAN	tripartite motif containing 48	95						intracellular (GO:0005622)	zinc ion binding (GO:0008270)			endometrium(13)|lung(19)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	38						ATGTGTGGCATTCACAGGGAG	0.498																																																0													98	90	93					11																	55032663		2188	4256	6444	SO:0001583	missense	79097			AF521869	CCDS7947.2	11q12	2013-01-09	2011-01-25		ENSG00000150244	ENSG00000150244		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	19021	protein-coding gene	gene with protein product			"tripartite motif-containing 48"				Standard	NM_024114		Approved	RNF101	uc010rid.2	Q8IWZ4	OTTHUMG00000157011	ENST00000417545.2:c.332T>C	11.37:g.55032663T>C	ENSP00000402414:p.Ile111Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BUW4	Missense_Mutation	SNP	ENST00000417545.2	37	CCDS7947.2	.	.	.	.	.	.	.	.	.	.	c	0	-2.612529	0.00120	.	.	ENSG00000150244	ENST00000417545	T	0.40476	1.03	0.596	0.596	0.17496	Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, B-box (3);	.	.	.	.	T	0.13114	0.0318	N	0.03324	-0.35	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.28038	-1.0056	9	0.02654	T	1	.	1.7225	0.02915	0.3221:0.4182:0.0:0.2597	.	95	Q8IWZ4	TRI48_HUMAN	T	111	ENSP00000402414:I111T	ENSP00000402414:I111T	I	+	2	0	TRIM48	54789239	0.000000	0.05858	0.154000	0.22540	0.130000	0.20726	-4.117000	0.00292	-0.174000	0.10743	-1.141000	0.01876	ATT		0.498	TRIM48-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347088.1			C	55032663	T	C	55032663	3	2	656	1	0	0	0	0	1	0	0	0	16535	1493	52	3	338	3	TRIM48	11	55032663	Missense_Mutation	SNP	T	TCGA-KN-8419-01A-11D-2310-10		55032663	79973853	32	40699										
NAA40	79829	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	63719920	63719920	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	ctggaaggaccgagagaaacGggaggaaatgacagatgacc	15	7	0	4			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr11:63719920G>A	ENST00000377793.4	+	5	394	c.293G>A	c.(292-294)cGg>cAg	p.R98Q	NAA40_ENST00000542163.1_Missense_Mutation_p.R77Q|NAA40_ENST00000539656.1_Intron|NAA40_ENST00000456907.2_Missense_Mutation_p.R58Q|NAA40_ENST00000536939.1_3'UTR	NM_024771.2	NP_079047.2	Q86UY6	NAA40_HUMAN	N(alpha)-acetyltransferase 40, NatD catalytic subunit	98	N-acetyltransferase. {ECO:0000255|PROSITE-ProRule:PRU00532}.				lipid metabolic process (GO:0006629)		N-acetyltransferase activity (GO:0008080)			NS(1)|endometrium(1)|lung(2)|prostate(1)	5						CGAGAGAAACGGGAGGAAATG	0.577																																																0													178	164	169					11																	63719920		2201	4297	6498	SO:0001583	missense	79829			AK023910	CCDS8053.1, CCDS73311.1	11q13.1	2013-10-11	2013-08-28	2010-01-14	ENSG00000110583	ENSG00000110583		"N(alpha)-acetyltransferase subunits"	25845	protein-coding gene	gene with protein product			"N-acetyltransferase 11", "N-acetyltransferase 11 (GCN5-related, putative)", "N(alpha)-acetyltransferase 40, NatD catalytic subunit, homolog (S. cerevisiae)"	NAT11		19660095	Standard	XM_005274296		Approved	FLJ13848	uc009yoz.3	Q86UY6	OTTHUMG00000167784	ENST00000377793.4:c.293G>A	11.37:g.63719920G>A	ENSP00000367024:p.Arg98Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DR03|B4DU10|Q5HYL5|Q9H897	Missense_Mutation	SNP	ENST00000377793.4	37	CCDS8053.1	.	.	.	.	.	.	.	.	.	.	G	24.1	4.491315	0.84962	.	.	ENSG00000110583	ENST00000377793;ENST00000456907;ENST00000542163	T;T;T	0.44482	0.92;0.92;0.92	5.72	4.8	0.61643	GCN5-related N-acetyltransferase (GNAT) domain (1);Acyl-CoA N-acyltransferase (2);	0.051476	0.64402	D	0.000001	T	0.40645	0.1125	N	0.26092	0.79	0.80722	D	1	B;D	0.69078	0.019;0.997	B;P	0.53062	0.003;0.717	T	0.05818	-1.0862	10	0.26408	T	0.33	-0.0172	13.9782	0.64285	0.0754:0.0:0.9245:0.0	.	58;98	B4DU10;Q86UY6	.;NAA40_HUMAN	Q	98;58;77	ENSP00000367024:R98Q;ENSP00000407578:R58Q;ENSP00000442055:R77Q	ENSP00000367024:R98Q	R	+	2	0	NAA40	63476496	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	5.585000	0.67497	2.692000	0.91855	0.555000	0.69702	CGG		0.577	NAA40-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396266.1	NM_024771		A	63719920	G	A	63719920	3	1	656	1	0	0	0	0	1	0	0	0	10132	1116	39	1	311	1	NAA40	11	63719920	Missense_Mutation	SNP	G	TCGA-KN-8419-01A-11D-2310-10	8687257	63719920	71286596	33	40700										
KRT84	3890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	52777475	52777475	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	aactgcctccgcaggttggtGatgtagctctcgaagagtgg	14	9	1	2			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr12:52777475G>A	ENST00000257951.3	-	2	720	c.654C>T	c.(652-654)atC>atT	p.I218I	RP3-416H24.4_ENST00000547174.1_RNA	NM_033045.3	NP_149034.2	Q9NSB2	KRT84_HUMAN	keratin 84	218	Coil 1B.|Rod.				hair follicle development (GO:0001942)|nail development (GO:0035878)|regulation of keratinocyte differentiation (GO:0045616)	extracellular vesicular exosome (GO:0070062)|keratin filament (GO:0045095)	structural constituent of cytoskeleton (GO:0005200)|structural constituent of epidermis (GO:0030280)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|liver(1)|lung(10)|skin(3)	27	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		GCAGGTTGGTGATGTAGCTCT	0.547																																																0													77	73	74					12																	52777475		2203	4300	6503	SO:0001819	synonymous_variant	3890			Y19209	CCDS8825.1	12q13	2013-06-25	2006-07-17	2006-07-17	ENSG00000161849	ENSG00000161849		"-", "Intermediate filaments type II, keratins (basic)"	6461	protein-coding gene	gene with protein product	"hard keratin type II 4"	602766	"keratin, hair, basic, 4"	KRTHB4		2431943, 16831889	Standard	NM_033045		Approved	Hb-4	uc001sah.1	Q9NSB2	OTTHUMG00000169634	ENST00000257951.3:c.654C>T	12.37:g.52777475G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RA43|Q6ISB0|Q701L6	Silent	SNP	ENST00000257951.3	37	CCDS8825.1																																																																																				0.547	KRT84-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405187.1	NM_033045		A	52777475	G	A	52777475	2	1	656	1	0	0	0	0	0	0	0	1	8505	1280	45	2		2	KRT84	12	52777475	Silent	SNP	G	TCGA-KN-8419-01A-11D-2310-10		52777475	81074420	34	40701										
IRAK3	11213	bcgsc.ca	37	chr12	66597673	66597673	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	ttcatttaattacaaactatGgtaaatgctgattcttataa	4	5	2	1			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr12:66597673G>T	ENST00000261233.4	+	2	737	c.316G>T	c.(316-318)Gga>Tga	p.G106*	IRAK3_ENST00000457197.2_Intron	NM_007199.2	NP_009130.2			interleukin-1 receptor-associated kinase 3											breast(3)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(17)|ovary(2)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	36				GBM - Glioblastoma multiforme(28;0.0203)		TACAAACTATGGTAAATGCTG	0.378																																																0													104	104	104					12																	66597673		2203	4300	6503	SO:0001630	splice_region_variant	11213			AF113136	CCDS8975.1, CCDS44937.1	12q13.13	2008-05-02			ENSG00000090376	ENSG00000090376			17020	protein-coding gene	gene with protein product		604459				10383454	Standard	NM_001142523		Approved	IRAK-M	uc001sth.3	Q9Y616	OTTHUMG00000169002	ENST00000261233.4:c.316+1G>T	12.37:g.66597673G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000261233.4	37	CCDS8975.1	.	.	.	.	.	.	.	.	.	.	G	37	6.621589	0.97714	.	.	ENSG00000090376	ENST00000261233	.	.	.	5.93	5.93	0.95920	.	0.067824	0.56097	D	0.000026	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-22.5857	15.8335	0.78778	0.0:0.0:1.0:0.0	.	.	.	.	X	106	.	.	G	+	1	0	IRAK3	64883940	1.000000	0.71417	0.969000	0.41365	0.031000	0.12232	4.823000	0.62694	2.818000	0.97014	0.591000	0.81541	GGA		0.378	IRAK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401908.1		Nonsense_Mutation	T	66597673	G	T	66597673	5	4	656	1	0	0	0	0	0	0	1	0	7831	1362	47	4	322	4	IRAK3	12	66597673	Splice_Site	SNP	G	TCGA-KN-8419-01A-11D-2310-10	13820198	66597673	67254222	35	40702										
SELPLG	6404	hgsc.bcm.edu	37	chr12	109017489	109017489	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	tgcagtggtctgtgcctccaTggctgctggtgcagtggtct	15	10	2	0	rs559346809	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr12:109017489T>G	ENST00000550948.1	-	2	819	c.595A>C	c.(595-597)Atg>Ctg	p.M199L	SELPLG_ENST00000228463.6_Missense_Mutation_p.M215L|SELPLG_ENST00000388962.3_Missense_Mutation_p.M189L			Q14242	SELPL_HUMAN	selectin P ligand	199	12 X 10 AA tandem repeats.				blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cellular response to interleukin-6 (GO:0071354)|leukocyte adhesive activation (GO:0050902)|leukocyte migration (GO:0050900)|leukocyte tethering or rolling (GO:0050901)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	receptor binding (GO:0005102)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(3)|prostate(3)|skin(1)	12						TGTGCCTCCATGGCTGCTGGT	0.617													T|||	11	0.00219649	0.0076	0.0	5008	,	,		18945	0.0		0.0	False		,,,				2504	0.001															0													163	141	148					12																	109017489		2203	4300	6503	SO:0001583	missense	6404				CCDS31895.1, CCDS31895.2, CCDS55881.1	12q24	2014-01-30						"CD molecules", "Endogenous ligands"	10722	protein-coding gene	gene with protein product		600738				7505206	Standard	NM_003006		Approved	PSGL-1, CD162	uc010sxe.2	Q14242		ENST00000550948.1:c.595A>C	12.37:g.109017489T>G	ENSP00000447752:p.Met199Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2Y0|B4DQC3|B7Z5C7|J3KMX6|Q12775|Q6GTW7|Q8N7J7	Missense_Mutation	SNP	ENST00000550948.1	37	CCDS31895.2	.	.	.	.	.	.	.	.	.	.	T	6.805	0.517561	0.13005	.	.	ENSG00000110876	ENST00000388962;ENST00000550948;ENST00000228463	T;T;T	0.13538	2.58;2.58;2.58	3.31	2.09	0.27110	.	0.862879	0.09676	N	0.770477	T	0.11281	0.0275	L	0.38175	1.15	0.09310	N	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.29761	-1.0001	10	0.66056	D	0.02	-6.6031	5.9197	0.19076	0.2255:0.0:0.1387:0.6358	.	215;199;159	B7Z5C7;Q14242;B4DHR9	.;SELPL_HUMAN;.	L	189;199;215	ENSP00000373614:M189L;ENSP00000447752:M199L;ENSP00000228463:M215L	ENSP00000228463:M215L	M	-	1	0	SELPLG	107541618	0.002000	0.14202	0.004000	0.12327	0.004000	0.04260	0.391000	0.20784	0.599000	0.29845	0.402000	0.26972	ATG		0.617	SELPLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403904.1			G	109017489	T	G	109017489	3	3	656	1	0	0	0	0	1	0	0	0	14033	1464	51	5	647	5	SELPLG	12	109017489	Missense_Mutation	SNP	T	TCGA-KN-8419-01A-11D-2310-10	42419816	109017489	24834406	36	40703										
OASL	8638	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	121471492	121471492	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gaaacagctcagaaacgccaCcagctccacctctctggtgc	8	16	2	1			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr12:121471492C>A	ENST00000257570.5	-	2	523	c.253G>T	c.(253-255)Gtg>Ttg	p.V85L	OASL_ENST00000339275.5_Missense_Mutation_p.V85L	NM_003733.3	NP_003724.1	Q15646	OASL_HUMAN	2'-5'-oligoadenylate synthetase-like	85					cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|interferon-gamma-mediated signaling pathway (GO:0060333)|negative regulation of viral genome replication (GO:0045071)|response to virus (GO:0009615)|type I interferon signaling pathway (GO:0060337)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleolus (GO:0005730)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|double-stranded RNA binding (GO:0003725)|poly(A) RNA binding (GO:0044822)|thyroid hormone receptor binding (GO:0046966)|transferase activity (GO:0016740)			NS(1)|endometrium(3)|large_intestine(4)|lung(4)|skin(2)	14	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					AGAAACGCCACCAGCTCCACC	0.577																																					Colon(192;517 2041 31392 31913 39966)											0													108	108	108					12																	121471492		2203	4300	6503	SO:0001583	missense	8638			AF063611	CCDS9211.1, CCDS9212.1, CCDS73536.1	12q24.2	2008-08-05			ENSG00000135114	ENSG00000135114			8090	protein-coding gene	gene with protein product		603281				10087211	Standard	NM_003733		Approved	TRIP14, p59OASL	uc001tzj.2	Q15646	OTTHUMG00000154981	ENST00000257570.5:c.253G>T	12.37:g.121471492C>A	ENSP00000257570:p.Val85Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAZ2|I1YDD2|O75686|Q17R95|Q9Y6K6|Q9Y6K7	Missense_Mutation	SNP	ENST00000257570.5	37	CCDS9211.1	.	.	.	.	.	.	.	.	.	.	C	22.0	4.231115	0.79688	.	.	ENSG00000135114	ENST00000257570;ENST00000339275	T;T	0.11821	2.74;2.74	4.52	4.52	0.55395	2-5-oligoadenylate synthetase, N-terminal (1);2-5-oligoadenylate synthetase, conserved site (1);	0.000000	0.47852	D	0.000203	T	0.29458	0.0734	M	0.74647	2.275	0.26569	N	0.973596	P;B	0.48089	0.905;0.423	P;B	0.54460	0.753;0.063	T	0.05178	-1.0901	10	0.52906	T	0.07	-1.1453	12.9391	0.58333	0.0:1.0:0.0:0.0	.	85;85	Q15646-2;Q15646	.;OASL_HUMAN	L	85	ENSP00000257570:V85L;ENSP00000341125:V85L	ENSP00000257570:V85L	V	-	1	0	OASL	119955875	1.000000	0.71417	1.000000	0.80357	0.928000	0.56348	4.113000	0.57851	2.496000	0.84212	0.555000	0.69702	GTG		0.577	OASL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337875.2	NM_003733		A	121471492	C	A	121471492	3	1	656	1	0	0	0	0	1	0	0	0	10809	507	18	4	1311	4	OASL	12	121471492	Missense_Mutation	SNP	C	TCGA-KN-8419-01A-11D-2310-10	12454003	121471492	12380403	37	40704										
SPTB	6710	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	65245965	65245965	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	agcctctcctccacccaaagCtgcagagaccaggaggcagg	11	15	1	1			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr14:65245965C>T	ENST00000389721.5	-	21	4506		c.e21-1		SPTB_ENST00000389722.3_Splice_Site|SPTB_ENST00000556626.1_Splice_Site|SPTB_ENST00000542895.1_Splice_Site|SPTB_ENST00000389720.3_Splice_Site	NM_000347.5	NP_000338.3	P11277	SPTB1_HUMAN	spectrin, beta, erythrocytic						actin filament capping (GO:0051693)|axon guidance (GO:0007411)|hemopoiesis (GO:0030097)|plasma membrane organization (GO:0007009)|porphyrin-containing compound biosynthetic process (GO:0006779)	actin cytoskeleton (GO:0015629)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)|protein complex (GO:0043234)|spectrin (GO:0008091)|spectrin-associated cytoskeleton (GO:0014731)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|ankyrin binding (GO:0030506)|structural constituent of cytoskeleton (GO:0005200)			breast(5)|central_nervous_system(4)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(18)|lung(36)|ovary(8)|pancreas(1)|prostate(4)|skin(10)|urinary_tract(3)	106		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)		CCACCCAAAGCTGCAGAGACC	0.572																																																0													56	61	59					14																	65245965		2203	4300	6503	SO:0001630	splice_region_variant	6710				CCDS32099.1, CCDS32100.1	14q24.1-q24.2	2013-01-10	2008-07-29			ENSG00000070182		"Pleckstrin homology (PH) domain containing"	11274	protein-coding gene	gene with protein product	"spherocytosis, clinical type I"	182870				2209094	Standard	NM_001024858		Approved		uc001xhr.3	P11277		ENST00000389721.5:c.4474-1G>A	14.37:g.65245965C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q15510|Q15519	Splice_Site	SNP	ENST00000389721.5	37	CCDS32100.1	.	.	.	.	.	.	.	.	.	.	C	23.7	4.445979	0.84101	.	.	ENSG00000070182	ENST00000389723;ENST00000389722;ENST00000335612;ENST00000553938;ENST00000556626;ENST00000389721;ENST00000542895;ENST00000389720	.	.	.	5.22	5.22	0.72569	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	17.9238	0.88976	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	SPTB	64315718	1.000000	0.71417	1.000000	0.80357	0.934000	0.57294	7.781000	0.85668	2.579000	0.87056	0.561000	0.74099	.		0.572	SPTB-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000414080.1		Intron	T	65245965	C	T	65245965	5	4	656	1	0	0	0	0	0	0	1	0	15130	811	28	2	2642	2	SPTB	14	65245965	Splice_Site	SNP	C	TCGA-KN-8419-01A-11D-2310-10		65245965	42103575	38	40705										
KIAA0284	283638	ucsc.edu;mdanderson.org	37	chr14	105349472	105349472	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	cggcgggagcccagctacttCgagatccccacgaaggagac	13	14	0	2	rs12101026	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr14:105349472C>T	ENST00000414716.3	+	8	906	c.678C>T	c.(676-678)ttC>ttT	p.F226F	CEP170B_ENST00000418279.1_Silent_p.F156F|CEP170B_ENST00000453495.1_Silent_p.F227F|CEP170B_ENST00000556508.1_Silent_p.F156F	NM_001112726.2	NP_001106197.1	Q9Y4F5	C170B_HUMAN	centrosomal protein 170B	226						cytoplasm (GO:0005737)|microtubule (GO:0005874)											CCAGCTACTTCGAGATCCCCA	0.716													c|||	432	0.086262	0.3116	0.0187	5008	,	,		12202	0.0		0.005	False		,,,				2504	0.002															0									,	835,3005		84,667,1169	11	16	14		678,468	-3.9	1	14	dbSNP_120	14	29,8183		0,29,4077	no	coding-synonymous,coding-synonymous	KIAA0284	NM_001112726.2,NM_015005.2	,	84,696,5246	TT,TC,CC		0.3531,21.7448,7.1689	,	226/1555,156/1520	105349472	864,11188	1920	4106	6026	SO:0001819	synonymous_variant	283638			AB006622	CCDS45175.1, CCDS45176.1, CCDS45176.2	14q32.33	2014-02-20	2012-11-30	2012-11-30	ENSG00000099814	ENSG00000099814			20362	protein-coding gene	gene with protein product	"Cep170-related"		"KIAA0284"	KIAA0284		23087211	Standard	NM_015005		Approved	FAM68C, Cep170R	uc010axb.4	Q9Y4F5	OTTHUMG00000170763	ENST00000414716.3:c.678C>T	14.37:g.105349472C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2KHR7|Q86TI7	Silent	SNP	ENST00000414716.3	37	CCDS45175.1																																																																																				0.716	CEP170B-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000410289.2	NM_001112726		T	105349472	C	T	105349472	2	4	656	1	0	0	0	0	0	0	0	1	8173	883	31	1		1	KIAA0284	14	105349472	Silent	SNP	C	TCGA-KN-8419-01A-11D-2310-10	40103507	105349472	2000068	39	40706										
AHNAK2	113146	mdanderson.org	37	chr14	105410417	105410417	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	agtcacatccttgtcggccaGggacaggtccccctccagct	10	16	1	0	rs200284292	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr14:105410417G>A	ENST00000333244.5	-	7	11490	c.11371C>T	c.(11371-11373)Ctg>Ttg	p.L3791L	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3791						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			TTGTCGGCCAGGGACAGGTCC	0.582													.|||	177	0.0353435	0.053	0.0231	5008	,	,		20409	0.0417		0.004	False		,,,				2504	0.046															0													216	217	217					14																	105410417		1998	4162	6160	SO:0001819	synonymous_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.11371C>T	14.37:g.105410417G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Silent	SNP	ENST00000333244.5	37	CCDS45177.1																																																																																				0.582	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		A	105410417	G	A	105410417	2	1	656	1	0	0	0	0	0	0	0	1	415	991	35	2		2	AHNAK2	14	105410417	Silent	SNP	G	TCGA-KN-8419-01A-11D-2310-10	60945	105410417	1939123	40	40707			2	97		3	3	2727	G		1.581542e-05
AHNAK2	113146	mdanderson.org	37	chr14	105410435	105410435	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	cagggacaggtccccctccaGctgtgcactatccagtttgg	11	14	0	0	rs201237638	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr14:105410435G>A	ENST00000333244.5	-	7	11472	c.11353C>T	c.(11353-11355)Ctg>Ttg	p.L3785L	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3785						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			TCCCCCTCCAGCTGTGCACTA	0.582													.|||	181	0.0361422	0.0545	0.0245	5008	,	,		20290	0.0437		0.004	False		,,,				2504	0.045															0													195	197	196					14																	105410435		1999	4161	6160	SO:0001819	synonymous_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.11353C>T	14.37:g.105410435G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Silent	SNP	ENST00000333244.5	37	CCDS45177.1																																																																																				0.582	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		A	105410435	G	A	105410435	2	1	656	1	0	0	0	0	0	0	0	1	415	962	34	2		2	AHNAK2	14	105410435	Silent	SNP	G	TCGA-KN-8419-01A-11D-2310-10	18	105410435	1939105	41	40708			2	97		3	3	2727	G		1.581542e-05
AHNAK2	113146	mdanderson.org	37	chr14	105413143	105413143	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	cctcgggaacgtggccctctGggagtttcacgtccacctgg	13	14	2	0	rs201434975	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr14:105413143G>A	ENST00000333244.5	-	7	8764	c.8645C>T	c.(8644-8646)cCa>cTa	p.P2882L	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2882						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			GTGGCCCTCTGGGAGTTTCAC	0.622																																																0													121	131	128					14																	105413143		1909	4115	6024	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.8645C>T	14.37:g.105413143G>A	ENSP00000353114:p.Pro2882Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	.	.	.	.	.	.	.	.	.	.	a	8.332	0.826661	0.16749	.	.	ENSG00000185567	ENST00000333244	T	0.03272	3.99	3.27	1.39	0.22231	.	.	.	.	.	T	0.07728	0.0194	M	0.83384	2.64	0.09310	N	1	B	0.15473	0.013	B	0.17979	0.02	T	0.18178	-1.0345	9	0.72032	D	0.01	.	8.7413	0.34558	0.0941:0.0:0.7578:0.1481	.	2882	Q8IVF2	AHNK2_HUMAN	L	2882	ENSP00000353114:P2882L	ENSP00000353114:P2882L	P	-	2	0	AHNAK2	104484188	0.015000	0.18098	0.000000	0.03702	0.000000	0.00434	1.021000	0.30040	-0.178000	0.10672	-4.235000	0.00009	CCA		0.622	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		A	105413143	G	A	105413143	3	1	656	1	0	0	0	0	1	0	0	0	415	1348	47	2	8746	2	AHNAK2	14	105413143	Missense_Mutation	SNP	G	TCGA-KN-8419-01A-11D-2310-10	2708	105413143	1936397	42	40709			2	97		3	3	2727	G		1.581542e-05
OR4N4	283694	mdanderson.org	37	chr15	22383138	22383138	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gcttcctatgcagtcatcctCtgccatgttcgtagggcagc	10	13	2	0			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr15:22383138C>G	ENST00000328795.4	+	1	757	c.666C>G	c.(664-666)ctC>ctG	p.L222L	RP11-69H14.6_ENST00000558896.1_RNA	NM_001005241.2	NP_001005241.2	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N, member 4	222						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(3)|kidney(3)|large_intestine(6)|lung(19)|ovary(4)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	40		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)		CAGTCATCCTCTGCCATGTTC	0.498																																																0													163	135	145					15																	22383138		2192	4261	6453	SO:0001819	synonymous_variant	283694			AI018459	CCDS32173.1	15q11.2	2012-08-09				ENSG00000183706		"GPCR / Class A : Olfactory receptors"	15375	protein-coding gene	gene with protein product							Standard	NM_001005241		Approved		uc010tzv.2	Q8N0Y3		ENST00000328795.4:c.666C>G	15.37:g.22383138C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEY3|Q6IF56	Silent	SNP	ENST00000328795.4	37	CCDS32173.1																																																																																				0.498	OR4N4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414922.1			G	22383138	C	G	22383138	2	3	656	1	0	0	0	0	0	0	0	1	11085	900	32	4		4	OR4N4	15	22383138	Silent	SNP	C	TCGA-KN-8419-01A-11D-2310-10		22383138	80148254	43	40710										
CHTF18	63922	mdanderson.org	37	chr16	840607	840607	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	acggtcaagacgcctccagtCactgcctctgggtggatgag	13	12	3	2	rs149274107	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr16:840607C>G	ENST00000262315.9	+	7	898	c.835C>G	c.(835-837)Cac>Gac	p.H279D	CHTF18_ENST00000455171.2_Missense_Mutation_p.H307D|CHTF18_ENST00000491530.1_3'UTR|RPUSD1_ENST00000007264.2_5'Flank|RPUSD1_ENST00000567114.1_5'Flank|RPUSD1_ENST00000561734.1_5'Flank|RPUSD1_ENST00000565809.1_5'Flank|CHTF18_ENST00000317063.6_Missense_Mutation_p.H474D	NM_022092.2	NP_071375.1	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor 18 homolog (S. cerevisiae)	279					cell cycle (GO:0007049)|DNA replication (GO:0006260)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)			endometrium(1)|kidney(3)|liver(2)|lung(4)|prostate(1)	11		Hepatocellular(780;0.00335)				CGCCTCCAGTCACTGCCTCTG	0.632													C|||	39	0.00778754	0.0295	0.0	5008	,	,		13649	0.0		0.0	False		,,,				2504	0.0															0								C	ASP/HIS	97,4023		1,95,1964	34	39	38		835	4.2	0.9	16	dbSNP_134	38	0,8378		0,0,4189	yes	missense	CHTF18	NM_022092.2	81	1,95,6153	GG,GC,CC		0.0,2.3544,0.7761	benign	279/976	840607	97,12401	2060	4189	6249	SO:0001583	missense	63922			BC018184	CCDS45371.1	16p13.3	2010-04-21	2003-12-09		ENSG00000127586	ENSG00000127586		"ATPases / AAA-type"	18435	protein-coding gene	gene with protein product		613201	"chromosome 16 open reading frame 41"	C16orf41		12171929	Standard	NM_022092		Approved	CHL12, C321D2.4, Ctf18	uc002cke.4	Q8WVB6	OTTHUMG00000047838	ENST00000262315.9:c.835C>G	16.37:g.840607C>G	ENSP00000262315:p.His279Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBA2|D3DU68|Q7Z6Y4|Q7Z6Y6|Q9BR83|Q9BRG5|Q9H7K3	Missense_Mutation	SNP	ENST00000262315.9	37	CCDS45371.1	18|18	0.008241758241758242|0.008241758241758242	18|18	0.036585365853658534|0.036585365853658534	0|0	0.0|0.0	0|0	0.0|0.0	0|0	0.0|0.0	C|C	10.75|10.75	1.439532|1.439532	0.25900|0.25900	0.023544|0.023544	0.0|0.0	ENSG00000127586|ENSG00000127586	ENST00000317063;ENST00000455171;ENST00000262315|ENST00000426047	T;T;T|.	0.09723|.	2.95;3.0;2.99|.	5.2|5.2	4.18|4.18	0.49190|0.49190	.|.	0.215873|.	0.48767|.	D|.	0.000165|.	T|.	0.22244|.	0.0536|.	L|L	0.34521|0.34521	1.04|1.04	0.49582|0.49582	D|D	0.999803|0.999803	P;P|.	0.44006|.	0.824;0.73|.	B;B|.	0.38020|.	0.263;0.135|.	T|.	0.17137|.	-1.0379|.	10|.	0.12103|0.30854	T|T	0.63|0.27	-28.5535|-28.5535	12.2151|12.2151	0.54402|0.54402	0.1711:0.8288:0.0:0.0|0.1711:0.8288:0.0:0.0	.|.	307;279|.	Q8WVB6-2;Q8WVB6|.	.;CTF18_HUMAN|.	D|X	474;307;279|174	ENSP00000313029:H474D;ENSP00000406252:H307D;ENSP00000262315:H279D|.	ENSP00000262315:H279D|ENSP00000412015:S174X	H|S	+|+	1|2	0|0	CHTF18|CHTF18	780608|780608	0.929000|0.929000	0.31497|0.31497	0.872000|0.872000	0.34217|0.34217	0.050000|0.050000	0.14768|0.14768	3.112000|3.112000	0.50368|0.50368	2.436000|2.436000	0.82500|0.82500	0.478000|0.478000	0.44815|0.44815	CAC|TCA		0.632	CHTF18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109061.3	NM_022092		G	840607	C	G	840607	3	3	656	1	0	0	0	0	1	0	0	0	3416	826	29	4	861	4	CHTF18	16	840607	Missense_Mutation	SNP	C	TCGA-KN-8419-01A-11D-2310-10		840607	89514146	44	40711										
CHTF18	63922	mdanderson.org	37	chr16	845819	845819	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	ctgctcctggacattcttgcAcccaagctccgccccgtgag	9	17	1	1	rs2294446	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr16:845819A>G	ENST00000262315.9	+	17	2373	c.2310A>G	c.(2308-2310)gcA>gcG	p.A770A	CHTF18_ENST00000455171.2_Silent_p.A798A|CHTF18_ENST00000317063.6_Silent_p.A979A	NM_022092.2	NP_071375.1	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor 18 homolog (S. cerevisiae)	770					cell cycle (GO:0007049)|DNA replication (GO:0006260)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)			endometrium(1)|kidney(3)|liver(2)|lung(4)|prostate(1)	11		Hepatocellular(780;0.00335)				ACATTCTTGCACCCAAGCTCC	0.687													N|||	988	0.197284	0.357	0.0865	5008	,	,		11945	0.1012		0.0169	False		,,,				2504	0.3446															0										1164,3060		143,878,1091	18	26	24		2310	-8.4	0	16	dbSNP_100	24	179,8245		1,177,4034	yes	coding-synonymous	CHTF18	NM_022092.2		144,1055,5125	GG,GA,AA		2.1249,27.5568,10.6183		770/976	845819	1343,11305	2112	4212	6324	SO:0001819	synonymous_variant	63922			BC018184	CCDS45371.1	16p13.3	2010-04-21	2003-12-09		ENSG00000127586	ENSG00000127586		"ATPases / AAA-type"	18435	protein-coding gene	gene with protein product		613201	"chromosome 16 open reading frame 41"	C16orf41		12171929	Standard	NM_022092		Approved	CHL12, C321D2.4, Ctf18	uc002cke.4	Q8WVB6	OTTHUMG00000047838	ENST00000262315.9:c.2310A>G	16.37:g.845819A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBA2|D3DU68|Q7Z6Y4|Q7Z6Y6|Q9BR83|Q9BRG5|Q9H7K3	Silent	SNP	ENST00000262315.9	37	CCDS45371.1																																																																																				0.687	CHTF18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109061.3	NM_022092		G	845819	A	G	845819	2	3	656	1	0	0	0	0	0	0	0	1	3416	146	6	3		3	CHTF18	16	845819	Silent	SNP	A	TCGA-KN-8419-01A-11D-2310-10	5212	845819	89508934	45	40712										
TAOK2	9344	mdanderson.org	37	chr16	29999225	29999225	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gctagggccccctgcctcccGccagccactgccagggactc	11	20	0	0	rs11864149	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr16:29999225G>A	ENST00000308893.4	+	16	4675	c.3632G>A	c.(3631-3633)cGc>cAc	p.R1211H	TAOK2_ENST00000416441.2_Missense_Mutation_p.R1038H|TAOK2_ENST00000543033.1_Missense_Mutation_p.R1098H|TAOK2_ENST00000279394.3_Intron	NM_001252043.1|NM_016151.3	NP_001238972.1|NP_057235.2	Q9UL54	TAOK2_HUMAN	TAO kinase 2	1211				R -> H (in Ref. 1; AAD45616). {ECO:0000305}.	actin cytoskeleton organization (GO:0030036)|activation of MAPKK activity (GO:0000186)|apoptotic process (GO:0006915)|cell migration (GO:0016477)|cellular response to DNA damage stimulus (GO:0006974)|focal adhesion assembly (GO:0048041)|G2 DNA damage checkpoint (GO:0031572)|positive regulation of JNK cascade (GO:0046330)|positive regulation of stress-activated MAPK cascade (GO:0032874)|protein targeting to membrane (GO:0006612)|regulation of cell growth (GO:0001558)|regulation of cell shape (GO:0008360)|response to stress (GO:0006950)|stress-activated MAPK cascade (GO:0051403)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytoskeleton (GO:0005856)|integral component of membrane (GO:0016021)|nucleolus (GO:0005730)|nucleus (GO:0005634)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|mitogen-activated protein kinase kinase binding (GO:0031434)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|endometrium(3)|large_intestine(5)|lung(8)|ovary(1)|prostate(3)|skin(1)	22						CCTGCCTCCCGCCAGCCACTG	0.721													G|||	368	0.0734824	0.1604	0.0706	5008	,	,		11363	0.003		0.0835	False		,,,				2504	0.0204															0								G	,HIS/ARG	479,3449		22,435,1507	6	7	6		,3632	0.6	0.1	16	dbSNP_120	6	507,7365		18,471,3447	no	intron,missense	TAOK2	NM_004783.2,NM_016151.2	,29	40,906,4954	AA,AG,GG		6.4405,12.1945,8.3559	,possibly-damaging	,1211/1236	29999225	986,10814	1964	3936	5900	SO:0001583	missense	9344			AB020688	CCDS10662.1, CCDS10663.1, CCDS58448.1	16p11.2	2008-02-05			ENSG00000149930	ENSG00000149930			16835	protein-coding gene	gene with protein product		613199				10048485, 9786855	Standard	NM_016151		Approved	TAO1, KIAA0881, PSK, PSK1, TAO2, MAP3K17	uc002dva.2	Q9UL54	OTTHUMG00000132111	ENST00000308893.4:c.3632G>A	16.37:g.29999225G>A	ENSP00000310094:p.Arg1211His	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKY1|A7MCZ2|B2RN35|B7ZM88|O94957|Q6UW73|Q7LC09|Q9NSW2	Missense_Mutation	SNP	ENST00000308893.4	37	CCDS10663.1	174	0.07967032967032966	79	0.16056910569105692	33	0.09116022099447514	1	0.0017482517482517483	61	0.08047493403693931	G	0.054	-1.241336	0.01493	0.121945	0.064405	ENSG00000149930	ENST00000308893;ENST00000543033	T;T	0.71222	-0.52;-0.55	4.04	0.591	0.17465	.	1.515130	0.04227	N	0.334654	T	0.00271	0.0008	N	0.08118	0	0.80722	P	0.0	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.02625	-1.1132	8	.	.	.	.	7.7362	0.28815	0.2033:0.1469:0.6498:0.0	rs11864149	1402;1038;1211	Q86V37;Q9UL54-3;Q9UL54	.;.;TAOK2_HUMAN	H	1211;1098	ENSP00000310094:R1211H;ENSP00000440336:R1098H	.	R	+	2	0	TAOK2	29906726	0.000000	0.05858	0.100000	0.21137	0.027000	0.11550	0.386000	0.20702	0.037000	0.15575	-1.119000	0.02030	CGC		0.721	TAOK2-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000255152.2	NM_016151		A	29999225	G	A	29999225	3	1	656	1	0	0	0	0	1	0	0	0	15560	1087	38	1	3690	1	TAOK2	16	29999225	Missense_Mutation	SNP	G	TCGA-KN-8419-01A-11D-2310-10	29153406	29999225	60355528	46	40713										
HSF5	124535	broad.mit.edu	37	chr17	56565433	56565434	+	In_Frame_Ins	INS	-	-	CGGCCC													0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	ggttttgaagagctcgggctINScggccccggcccccgcagtc					rs550036152	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr17:56565433_56565434insCGGCCC	ENST00000323777.3	-	1	311_312	c.202_203insGGGCCG	c.(202-204)gag>gGGGCCGag	p.67_68insGA		NM_001080439.1	NP_001073908.1	Q4G112	HSF5_HUMAN	heat shock transcription factor family member 5	67					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(7)|ovary(3)|skin(1)	16	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GAGCTCGGGCTcggccccggcc	0.723														23	0.00459265	0.0106	0.0058	5008	,	,		9066	0.0		0.004	False		,,,				2504	0.001															0										14,3682		1,12,1835						3.7	1			10	32,7446		5,22,3712	no	coding	HSF5	NM_001080439.1		6,34,5547	A1A1,A1R,RR		0.4279,0.3788,0.4117				46,11128				SO:0001652	inframe_insertion	124535			BC033020	CCDS32690.1	17q23.2	2006-04-25				ENSG00000176160			26862	protein-coding gene	gene with protein product							Standard	NM_001080439		Approved	FLJ40311	uc002iwi.1	Q4G112		ENST00000323777.3:c.197_202dupGGGCCG	17.37:g.56565434_56565439dupCGGCCC	ENSP00000313243:p.Gly66_Ala67dup	Somatic		WXS	Illumina HiSeq	Phase_I	Q08EH7|Q8N7V2	In_Frame_Ins	INS	ENST00000323777.3	37	CCDS32690.1																																																																																				0.723	HSF5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444719.1	XM_064190		CGGCCC	56565434	-	CGGCCC	56565433	7	5	656	1	0	1	1	0	0	0	0	0	7406	1551	54	0	1611	0	HSF5	17	56565433	In_Frame_Ins	INS	-	TCGA-KN-8419-01A-11D-2310-10		56565433	24629777	47	40714										
MED13	9969	ucsc.edu;bcgsc.ca	37	chr17	60030379	60030379	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	tcctggagaatgtacaggagAaccagttggagaagcaggaa	14	6	0	3			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr17:60030379A>G	ENST00000397786.2	-	27	6140	c.6064T>C	c.(6064-6066)Tct>Cct	p.S2022P		NM_005121.2	NP_005112.2	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	2022					androgen receptor signaling pathway (GO:0030521)|gene expression (GO:0010467)|intracellular steroid hormone receptor signaling pathway (GO:0030518)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription initiation from RNA polymerase II promoter (GO:0006367)	mediator complex (GO:0016592)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|receptor activity (GO:0004872)|RNA polymerase II transcription cofactor activity (GO:0001104)|thyroid hormone receptor binding (GO:0046966)|transcription coactivator activity (GO:0003713)|transcription cofactor activity (GO:0003712)|vitamin D receptor binding (GO:0042809)			breast(4)|central_nervous_system(1)|endometrium(10)|kidney(24)|large_intestine(15)|liver(1)|lung(20)|ovary(1)|prostate(3)|skin(2)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	88						TGTACAGGAGAACCAGTTGGA	0.458																																																0													125	123	124					17																	60030379		1884	4116	6000	SO:0001583	missense	9969			AB011165	CCDS42366.1	17q22-q23	2007-07-30	2007-07-30	2007-07-30		ENSG00000108510			22474	protein-coding gene	gene with protein product		603808	"thyroid hormone receptor associated protein 1"	THRAP1		1019863	Standard	NM_005121		Approved	KIAA0593, TRAP240	uc002izo.3	Q9UHV7		ENST00000397786.2:c.6064T>C	17.37:g.60030379A>G	ENSP00000380888:p.Ser2022Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RU05|O60334	Missense_Mutation	SNP	ENST00000397786.2	37	CCDS42366.1	.	.	.	.	.	.	.	.	.	.	A	23.1	4.373983	0.82573	.	.	ENSG00000108510	ENST00000397786;ENST00000262436	D	0.83673	-1.75	5.41	5.41	0.78517	.	0.000000	0.85682	D	0.000000	D	0.89667	0.6781	M	0.66439	2.03	0.80722	D	1	D	0.69078	0.997	D	0.81914	0.995	D	0.89487	0.3754	10	0.44086	T	0.13	-15.3752	15.4442	0.75216	1.0:0.0:0.0:0.0	.	2022	Q9UHV7	MED13_HUMAN	P	2022;2021	ENSP00000380888:S2022P	ENSP00000262436:S2021P	S	-	1	0	MED13	57385161	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	8.957000	0.93082	2.045000	0.60652	0.460000	0.39030	TCT		0.458	MED13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445461.1	NM_005121		G	60030379	A	G	60030379	3	3	656	1	0	0	0	0	1	0	0	0	9437	246	9	3	476	3	MED13	17	60030379	Missense_Mutation	SNP	A	TCGA-KN-8419-01A-11D-2310-10	3464946	60030379	21164831	48	40715										
DSG1	1828	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	28926018	28926018	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gaggaggagagagaatgacaGgatttgaactaacagaggga	16	3	0	5			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr18:28926018G>A	ENST00000257192.4	+	14	2169	c.1957G>A	c.(1957-1959)Gga>Aga	p.G653R	DSG1_ENST00000462981.2_Missense_Mutation_p.G12R|RP11-534N16.1_ENST00000578119.1_RNA|RP11-534N16.1_ENST00000578477.1_RNA|RNU6-167P_ENST00000384292.1_RNA|RP11-534N16.1_ENST00000581856.1_RNA	NM_001942.2	NP_001933.2	Q02413	DSG1_HUMAN	desmoglein 1	653					apoptotic process (GO:0006915)|calcium-dependent cell-cell adhesion (GO:0016339)|cell-cell junction assembly (GO:0007043)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|homophilic cell adhesion (GO:0007156)|maternal process involved in female pregnancy (GO:0060135)|protein stabilization (GO:0050821)|response to progesterone (GO:0032570)|single organismal cell-cell adhesion (GO:0016337)	apical plasma membrane (GO:0016324)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|desmosome (GO:0030057)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|lateral plasma membrane (GO:0016328)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|gamma-catenin binding (GO:0045295)|toxic substance binding (GO:0015643)			NS(2)|central_nervous_system(2)|endometrium(5)|kidney(7)|large_intestine(11)|lung(36)|ovary(3)|prostate(1)|skin(7)|stomach(1)|upper_aerodigestive_tract(1)	76			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			GAGAATGACAGGATTTGAACT	0.353																																																0													86	85	85					18																	28926018		2203	4300	6503	SO:0001583	missense	1828			X56654	CCDS11896.1	18q12.1	2014-05-13			ENSG00000134760	ENSG00000134760		"Cadherins / Major cadherins"	3048	protein-coding gene	gene with protein product		125670		DSG		1889810	Standard	NM_001942		Approved	CDHF4	uc002kwp.3	Q02413	OTTHUMG00000131983	ENST00000257192.4:c.1957G>A	18.37:g.28926018G>A	ENSP00000257192:p.Gly653Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z845	Missense_Mutation	SNP	ENST00000257192.4	37	CCDS11896.1	.	.	.	.	.	.	.	.	.	.	G	10.37	1.331856	0.24167	.	.	ENSG00000134760	ENST00000257192	T	0.76186	-1.0	5.95	4.15	0.48705	Cadherin, cytoplasmic domain (1);	0.000000	0.64402	D	0.000002	T	0.80396	0.4615	L	0.52573	1.65	0.34238	D	0.677296	D	0.76494	0.999	D	0.74348	0.983	D	0.85203	0.1016	10	0.56958	D	0.05	.	10.1071	0.42539	0.073:0.135:0.7921:0.0	.	653	Q02413	DSG1_HUMAN	R	653	ENSP00000257192:G653R	ENSP00000257192:G653R	G	+	1	0	DSG1	27180016	1.000000	0.71417	1.000000	0.80357	0.471000	0.32888	2.890000	0.48609	1.521000	0.48983	0.609000	0.83330	GGA		0.353	DSG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254947.1	NM_001942		A	28926018	G	A	28926018	3	1	656	1	0	0	0	0	1	0	0	0	4778	1001	35	2	2011	2	DSG1	18	28926018	Missense_Mutation	SNP	G	TCGA-KN-8419-01A-11D-2310-10		28926018	49151230	49	40716										
ZCCHC2	54877	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	60242420	60242420	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	taaatagttactattatcctAatccaatgcctggaccaatg	5	9	0	0			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr18:60242420A>T	ENST00000269499.5	+	13	3524	c.3106A>T	c.(3106-3108)Aat>Tat	p.N1036Y	ZCCHC2_ENST00000586834.1_Missense_Mutation_p.N715Y	NM_017742.4	NP_060212.4	Q9C0B9	ZCHC2_HUMAN	zinc finger, CCHC domain containing 2	1036						cytoplasm (GO:0005737)	nucleic acid binding (GO:0003676)|phosphatidylinositol binding (GO:0035091)|zinc ion binding (GO:0008270)			breast(2)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(4)|lung(10)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	25						CTATTATCCTAATCCAATGCC	0.493																																																0													74	83	80					18																	60242420		2074	4203	6277	SO:0001583	missense	54877			AB051531	CCDS45880.1	18q21.33	2012-04-19			ENSG00000141664	ENSG00000141664		"Zinc fingers, CCHC domain containing"	22916	protein-coding gene	gene with protein product			"chromosome 18 open reading frame 49"	C18orf49		11214970	Standard	NM_017742		Approved	FLJ20281, KIAA1744, FLJ20222	uc002lip.4	Q9C0B9		ENST00000269499.5:c.3106A>T	18.37:g.60242420A>T	ENSP00000269499:p.Asn1036Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPG6|Q8N3S1|Q9NXF6	Missense_Mutation	SNP	ENST00000269499.5	37	CCDS45880.1	.	.	.	.	.	.	.	.	.	.	A	14.59	2.581891	0.46006	.	.	ENSG00000141664	ENST00000269499	T	0.25579	1.79	5.29	4.13	0.48395	.	0.292895	0.34200	N	0.004174	T	0.35711	0.0941	L	0.51422	1.61	0.31721	N	0.638306	D	0.53885	0.963	P	0.54401	0.751	T	0.46091	-0.9216	10	0.66056	D	0.02	-7.6496	11.3077	0.49345	0.9282:0.0:0.0718:0.0	.	1036	Q9C0B9	ZCHC2_HUMAN	Y	1036	ENSP00000269499:N1036Y	ENSP00000269499:N1036Y	N	+	1	0	ZCCHC2	58393400	0.015000	0.18098	0.031000	0.17742	0.926000	0.56050	2.296000	0.43584	0.944000	0.37579	0.528000	0.53228	AAT		0.493	ZCCHC2-005	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000450083.1	NM_017742		T	60242420	A	T	60242420	3	4	656	1	0	0	0	0	1	0	0	0	17599	362	13	5	3156	5	ZCCHC2	18	60242420	Missense_Mutation	SNP	A	TCGA-KN-8419-01A-11D-2310-10	31316402	60242420	17834828	50	40717										
MED16	10025	mdanderson.org	37	chr19	871135	871135	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	tgcttgggctgcaggcggctAaccaggccgtcgctggctgg	17	12	0	0	rs1683569	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr19:871135A>G	ENST00000589119.1	-	12	2216	c.2217T>C	c.(2215-2217)gtT>gtC	p.V739V	MED16_ENST00000395808.3_Silent_p.V739V|MED16_ENST00000269814.4_Missense_Mutation_p.L675S|MED16_ENST00000325464.1_Silent_p.V739V|MED16_ENST00000606828.1_5'Flank|MED16_ENST00000312090.6_Silent_p.V758V			Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	739					androgen receptor signaling pathway (GO:0030521)|gene expression (GO:0010467)|intracellular steroid hormone receptor signaling pathway (GO:0030518)|positive regulation of receptor activity (GO:2000273)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)	mediator complex (GO:0016592)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	catalytic activity (GO:0003824)|receptor activity (GO:0004872)|thyroid hormone receptor binding (GO:0046966)|thyroid hormone receptor coactivator activity (GO:0030375)|transcription coactivator activity (GO:0003713)|transcription cofactor activity (GO:0003712)|vitamin D receptor binding (GO:0042809)			NS(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(12)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	21		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)		GCAGGCGGCTAACCAGGCCGT	0.701													g|||	1326	0.264776	0.5008	0.2205	5008	,	,		12505	0.0317		0.2873	False		,,,				2504	0.1943															0										1482,2440		291,900,770	9	11	10		2217	3.1	1	19	dbSNP_89	10	1843,5871		223,1397,2237	no	coding-synonymous	MED16	NM_005481.2		514,2297,3007	GG,GA,AA		23.8916,37.7868,28.5751		739/878	871135	3325,8311	1961	3857	5818	SO:0001819	synonymous_variant	10025			AF121228	CCDS12047.1	19p13.3	2013-01-10	2007-07-30	2007-07-30		ENSG00000175221		"WD repeat domain containing"	17556	protein-coding gene	gene with protein product		604062	"thyroid hormone receptor associated protein 5"	THRAP5		10235266, 10198638	Standard	NM_005481		Approved	DRIP92, TRAP95	uc002lqd.1	Q9Y2X0		ENST00000589119.1:c.2217T>C	19.37:g.871135A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6PJT2|Q96AD4|Q96I35|Q9Y652	Silent	SNP	ENST00000589119.1	37	CCDS12047.1	567	0.25961538461538464	240	0.4878048780487805	89	0.24585635359116023	20	0.03496503496503497	218	0.287598944591029	g	18.38	3.611665	0.66558	0.377868	0.238916	ENSG00000175221	ENST00000269814	.	.	.	4.13	3.06	0.35304	.	.	.	.	.	T	0.00012	0.0000	.	.	.	0.47065	P	6.960000000000299E-4	B	0.02656	0.0	B	0.01281	0.0	T	0.44711	-0.9310	6	0.09590	T	0.72	-40.3568	9.783	0.40660	0.177:0.0:0.823:0.0	rs1683569;rs59662712;rs1683569	675	Q9Y2X0-4	.	S	675	.	ENSP00000269814:L675S	L	-	2	0	MED16	822135	1.000000	0.71417	0.984000	0.44739	0.793000	0.44817	2.176000	0.42500	0.718000	0.32166	-0.258000	0.10820	TTA		0.701	MED16-006	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000457902.3	NM_005481		G	871135	A	G	871135	2	3	656	1	0	0	0	0	0	0	0	1	9441	349	13	3		3	MED16	19	871135	Silent	SNP	A	TCGA-KN-8419-01A-11D-2310-10		871135	58257848	51	40718										
WDR18	57418	mdanderson.org	37	chr19	984533	984533	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gcggcgcagctgggcaagaaTtacatcagcgcctgggagct	15	11	1	1	rs2301810	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr19:984533T>C	ENST00000251289.5	+	1	203	c.180T>C	c.(178-180)aaT>aaC	p.N60N	WDR18_ENST00000587001.2_Silent_p.N60N|WDR18_ENST00000591997.1_Intron	NM_024100.3	NP_077005.2	Q9BV38	WDR18_HUMAN	WD repeat domain 18	60					multicellular organismal development (GO:0007275)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				endometrium(1)|kidney(2)|lung(2)|skin(2)	7		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGGCAAGAATTACATCAGCG	0.711													.|||	2246	0.448482	0.4667	0.438	5008	,	,		11366	0.3899		0.5577	False		,,,				2504	0.3793															0								C		1857,2351		456,945,703	7	9	9		180	3.3	1	19	dbSNP_100	9	4066,4176		1101,1864,1156	no	coding-synonymous	WDR18	NM_024100.3		1557,2809,1859	CC,CT,TT		49.3327,44.1302,47.5743		60/433	984533	5923,6527	2104	4121	6225	SO:0001819	synonymous_variant	57418				CCDS12051.1	19p13.3	2013-01-09				ENSG00000065268		"WD repeat domain containing"	17956	protein-coding gene	gene with protein product	"Involved in Processing ITS2 3 homolog (S. cerevisiae)"					22190735	Standard	NM_024100		Approved	Ipi3	uc002lqm.1	Q9BV38		ENST00000251289.5:c.180T>C	19.37:g.984533T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O60390|Q9BWR2	Silent	SNP	ENST00000251289.5	37	CCDS12051.1																																																																																				0.711	WDR18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458225.2			C	984533	T	C	984533	2	2	656	1	0	0	0	0	0	0	0	1	17290	1490	52	3		3	WDR18	19	984533	Silent	SNP	T	TCGA-KN-8419-01A-11D-2310-10	113398	984533	58144450	52	40719										
HMHA1	23526	broad.mit.edu;bcgsc.ca	37	chr19	1073206	1073206	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	ctgggtgaggctctgcgtgtCatgcatcagatcatctccaa	11	11	5	2			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr19:1073206C>A	ENST00000313093.2	+	3	711	c.480C>A	c.(478-480)gtC>gtA	p.V160V	HMHA1_ENST00000586866.1_Silent_p.V164V|HMHA1_ENST00000536472.1_De_novo_Start_InFrame|HMHA1_ENST00000592335.1_Nonsense_Mutation_p.S41*|HMHA1_ENST00000543365.1_Silent_p.V43V|HMHA1_ENST00000590214.1_Silent_p.V187V|HMHA1_ENST00000539243.2_Silent_p.V176V	NM_012292.3	NP_036424.2	Q92619	HMHA1_HUMAN	histocompatibility (minor) HA-1	160					regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)	GTPase activator activity (GO:0005096)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|lung(7)|ovary(1)|prostate(2)	16		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCTGCGTGTCATGCATCAGA	0.647																																																0													66	64	64					19																	1073206		2203	4300	6503	SO:0001819	synonymous_variant	23526			D86976	CCDS32863.1, CCDS58637.1, CCDS74242.1, CCDS74243.1	19p13.3	2011-09-07				ENSG00000180448		"Rho GTPase activating proteins"	17102	protein-coding gene	gene with protein product		601155				9820596, 9039502	Standard	NM_012292		Approved	KIAA0223, HA-1, ARHGAP45	uc010xgd.2	Q92619		ENST00000313093.2:c.480C>A	19.37:g.1073206C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DTS4|F6QP70|Q6P189|Q7LE26|Q86WS1|Q8HX84|Q9GJN9|Q9GJP0|Q9GJP1|Q9MY24	Silent	SNP	ENST00000313093.2	37	CCDS32863.1																																																																																				0.647	HMHA1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458026.1			A	1073206	C	A	1073206	2	1	656	1	0	0	0	0	0	0	0	1	7247	813	29	4		4	HMHA1	19	1073206	Silent	SNP	C	TCGA-KN-8419-01A-11D-2310-10	88673	1073206	58055777	53	40720										
PRAM1	84106	mdanderson.org	37	chr19	8564469	8564469	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	cttggggaggtcagtgacctCaggcggcgggggcttcaagg	19	9	3	1	rs371461475|rs4990821	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr19:8564469C>G	ENST00000423345.4	-	2	743	c.223G>C	c.(223-225)Gag>Cag	p.E75Q	PRAM1_ENST00000255612.3_Missense_Mutation_p.E75Q			Q96QH2	PRAM_HUMAN	PML-RARA regulated adaptor molecule 1	123	8 X 12 AA repeats of K-P-P-[PQ]-P-[EQ]- [VAF]-T-D-L-P-K.|Pro-rich.				integrin-mediated signaling pathway (GO:0007229)|regulation of neutrophil degranulation (GO:0043313)		lipid binding (GO:0008289)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(5)|prostate(1)|skin(1)	19						TCAGTGACCTCAGGCGGCGGG	0.642													C|||	1814	0.36222	0.6346	0.2968	5008	,	,		12296	0.1587		0.3062	False		,,,				2504	0.3078															0													41	53	49					19																	8564469		1849	4082	5931	SO:0001583	missense	84106			BC028012	CCDS45954.1, CCDS45954.2	19p13.2	2009-01-21				ENSG00000133246			30091	protein-coding gene	gene with protein product		606466				11301322, 15572693	Standard	NM_032152		Approved	PML-RAR	uc002mkd.3	Q96QH2		ENST00000423345.4:c.223G>C	19.37:g.8564469C>G	ENSP00000408342:p.Glu75Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N6W7	Missense_Mutation	SNP	ENST00000423345.4	37	CCDS45954.2	824	0.3772893772893773	382	0.7764227642276422	110	0.30386740331491713	82	0.14335664335664336	250	0.32981530343007914	c	8.200	0.797994	0.16327	.	.	ENSG00000133246	ENST00000255612;ENST00000423345	T;T	0.14144	2.53;2.53	3.74	-1.55	0.08558	.	2.531360	0.02280	N	0.069320	T	0.00012	0.0000	L	0.41824	1.3	0.80722	P	0.0	B;B	0.33940	0.433;0.433	B;B	0.27887	0.084;0.084	T	0.36065	-0.9763	9	0.24483	T	0.36	.	6.2323	0.20742	0.0:0.3333:0.4737:0.193	rs4990821	75;123	Q96QH2-2;Q96QH2	.;PRAM_HUMAN	Q	75	ENSP00000255612:E75Q;ENSP00000408342:E75Q	ENSP00000255612:E75Q	E	-	1	0	PRAM1	8470469	0.000000	0.05858	0.000000	0.03702	0.013000	0.08279	-0.203000	0.09438	-0.252000	0.09528	-0.187000	0.12897	GAG		0.642	PRAM1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000397040.3	NM_032152		G	8564469	C	G	8564469	3	3	656	1	0	0	0	0	1	0	0	0	12433	835	29	4	1822	4	PRAM1	19	8564469	Missense_Mutation	SNP	C	TCGA-KN-8419-01A-11D-2310-10	7491263	8564469	50564514	54	40721										
MUC16	94025	mdanderson.org	37	chr19	8999449	8999449	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gcccagctcagtgatgctgtGggtcagctggctcagctccc	13	14	3	1	rs76798407	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr19:8999449G>T	ENST00000397910.4	-	56	40929	c.40726C>A	c.(40726-40728)Cac>Aac	p.H13576N	MUC16_ENST00000380951.5_Missense_Mutation_p.H217N	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13578	SEA 10. {ECO:0000255|PROSITE- ProRule:PRU00188}.			Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						GTGATGCTGTGGGTCAGCTGG	0.572																																																0													227	190	202					19																	8999449		2053	4200	6253	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.40726C>A	19.37:g.8999449G>T	ENSP00000381008:p.His13576Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	.	2.590	-0.295337	0.05532	.	.	ENSG00000181143	ENST00000397910;ENST00000380951	T;T	0.35605	1.3;1.3	2.95	1.87	0.25490	SEA (2);	.	.	.	.	T	0.35158	0.0922	L	0.31752	0.955	.	.	.	P;P	0.44281	0.458;0.831	B;P	0.54664	0.192;0.758	T	0.39482	-0.9612	8	0.23891	T	0.37	.	7.1711	0.25719	0.0:0.0:0.7333:0.2667	.	21221;13576	Q8WXI7;B5ME49	MUC16_HUMAN;.	N	13576;217	ENSP00000381008:H13576N;ENSP00000370338:H217N	ENSP00000370338:H217N	H	-	1	0	MUC16	8860449	0.000000	0.05858	0.319000	0.25293	0.150000	0.21749	-0.331000	0.07914	0.784000	0.33661	0.555000	0.69702	CAC		0.572	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		T	8999449	G	T	8999449	3	4	656	1	0	0	0	0	1	0	0	0	9980	1348	47	4	2913	4	MUC16	19	8999449	Missense_Mutation	SNP	G	TCGA-KN-8419-01A-11D-2310-10	434980	8999449	50129534	55	40722			3	98		3	3	6157	N	T_G_A	8.029039e-05
MUC16	94025	mdanderson.org	37	chr19	8999478	8999478	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	ggctcagctcccagtatagcTgctctctgtccagtccaggg	11	14	2	0	rs73493659	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr19:8999478T>C	ENST00000397910.4	-	56	40900	c.40697A>G	c.(40696-40698)cAg>cGg	p.Q13566R	MUC16_ENST00000380951.5_Missense_Mutation_p.Q207R	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13568	SEA 10. {ECO:0000255|PROSITE- ProRule:PRU00188}.			Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						CCAGTATAGCTGCTCTCTGTC	0.587																																																0													176	148	157					19																	8999478		2001	4182	6183	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.40697A>G	19.37:g.8999478T>C	ENSP00000381008:p.Gln13566Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	0.200|0.200	-1.045174|-1.045174	0.01997|0.01997	.|.	.|.	ENSG00000181143|ENSG00000181143	ENST00000397910;ENST00000380951|ENST00000542240	T;T|.	0.29397|.	1.57;1.57|.	3.48|3.48	-4.27|-4.27	0.03744|0.03744	SEA (2);|.	.|.	.|.	.|.	.|.	T|T	0.46464|0.46464	0.1394|0.1394	L|L	0.42245|0.42245	1.32|1.32	.|.	.|.	.|.	B;P|.	0.39576|.	0.001;0.679|.	B;P|.	0.51101|.	0.002;0.659|.	T|T	0.52290|0.52290	-0.8595|-0.8595	8|4	0.11485|.	T|.	0.65|.	-0.0012|-0.0012	11.6309|11.6309	0.51173|0.51173	0.0:0.6859:0.0:0.3141|0.0:0.6859:0.0:0.3141	.|.	21211;13566|.	Q8WXI7;B5ME49|.	MUC16_HUMAN;.|.	R|G	13566;207|406	ENSP00000381008:Q13566R;ENSP00000370338:Q207R|.	ENSP00000370338:Q207R|.	Q|S	-|-	2|1	0|0	MUC16|MUC16	8860478|8860478	0.000000|0.000000	0.05858|0.05858	0.018000|0.018000	0.16275|0.16275	0.063000|0.063000	0.16089|0.16089	-2.569000|-2.569000	0.00915|0.00915	-1.289000|-1.289000	0.02375|0.02375	0.454000|0.454000	0.30748|0.30748	CAG|AGC		0.587	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		C	8999478	T	C	8999478	3	2	656	1	0	0	0	0	1	0	0	0	9980	1580	55	3	2942	3	MUC16	19	8999478	Missense_Mutation	SNP	T	TCGA-KN-8419-01A-11D-2310-10	29	8999478	50129505	56	40723			3	98		3	3	6157	N	T_G_A	8.029039e-05
MUC16	94025	mdanderson.org	37	chr19	9005605	9005605	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	agggtgtagggtcccagctcAgtgatgctgtgggtcagctg	17	8	2	1	rs74835716		TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr19:9005605A>T	ENST00000397910.4	-	46	40004	c.39801T>A	c.(39799-39801)acT>acA	p.T13267T	MUC16_ENST00000380951.5_5'Flank	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13269	SEA 8. {ECO:0000255|PROSITE- ProRule:PRU00188}.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						GTCCCAGCTCAGTGATGCTGT	0.567																																																0													175	158	164					19																	9005605		2043	4185	6228	SO:0001819	synonymous_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.39801T>A	19.37:g.9005605A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Silent	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	.	3.366	-0.129417	0.06753	.	.	ENSG00000181143	ENST00000542240	.	.	.	3.51	-5.81	0.02340	.	.	.	.	.	T	0.11965	0.0291	.	.	.	.	.	.	.	.	.	.	.	.	T	0.27297	-1.0078	3	.	.	.	-11.8867	0.269	0.00229	0.2614:0.1578:0.3056:0.2752	.	.	.	.	Q	107	.	.	L	-	2	0	MUC16	8866605	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.577000	0.05847	-1.052000	0.03222	-2.889000	0.00095	CTG		0.567	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		T	9005605	A	T	9005605	2	4	656	1	0	0	0	0	0	0	0	1	9980	175	7	5		5	MUC16	19	9005605	Silent	SNP	A	TCGA-KN-8419-01A-11D-2310-10	6127	9005605	50123378	57	40724			3	98		3	3	6157	N	T_G_A	8.029039e-05
NLRP9	338321	ucsc.edu;bcgsc.ca	37	chr19	56241255	56241255	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	tttgcaaagaatcgccagggAgggatcatcaaggctggtat	13	7	2	1			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr19:56241255A>G	ENST00000332836.2	-	3	1963	c.1936T>C	c.(1936-1938)Tcc>Ccc	p.S646P		NM_176820.2	NP_789790.2	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	646						cytoplasm (GO:0005737)	ATP binding (GO:0005524)			NS(2)|breast(5)|cervix(1)|endometrium(7)|kidney(8)|large_intestine(15)|lung(21)|ovary(2)|prostate(3)|skin(7)|urinary_tract(3)	74		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		ATCGCCAGGGAGGGATCATCA	0.438																																																0													96	95	96					19																	56241255		2203	4300	6503	SO:0001583	missense	338321			AY154464	CCDS12934.1	19q13.43	2006-12-08	2006-12-08	2006-12-08				"Nucleotide-binding domain and leucine rich repeat containing"	22941	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 9"	609663	"NACHT, leucine rich repeat and PYD containing 9"	NALP9		12563287	Standard	NM_176820		Approved	NOD6, PAN12, CLR19.1	uc002qly.3	Q7RTR0		ENST00000332836.2:c.1936T>C	19.37:g.56241255A>G	ENSP00000331857:p.Ser646Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN12|Q86W27	Missense_Mutation	SNP	ENST00000332836.2	37	CCDS12934.1	.	.	.	.	.	.	.	.	.	.	a	13.31	2.199816	0.38905	.	.	ENSG00000185792	ENST00000332836;ENST00000333452	T	0.54675	0.56	3.4	1.22	0.21188	.	.	.	.	.	T	0.59595	0.2205	M	0.75264	2.295	0.09310	N	1	P	0.52692	0.955	P	0.55871	0.786	T	0.48222	-0.9054	9	0.42905	T	0.14	.	3.3706	0.07219	0.6306:0.2404:0.129:0.0	.	646	Q7RTR0	NALP9_HUMAN	P	646	ENSP00000331857:S646P	ENSP00000331857:S646P	S	-	1	0	NLRP9	60933067	0.001000	0.12720	0.001000	0.08648	0.003000	0.03518	0.706000	0.25690	0.205000	0.20568	0.514000	0.50259	TCC		0.438	NLRP9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453653.1	NM_176820		G	56241255	A	G	56241255	3	3	656	1	0	0	0	0	1	0	0	0	10491	304	11	3	1067	3	NLRP9	19	56241255	Missense_Mutation	SNP	A	TCGA-KN-8419-01A-11D-2310-10	47235650	56241255	2887728	58	40725										
ZNF831	128611	mdanderson.org	37	chr20	57767041	57767041	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	agcggcagcaggcgacggcaGcggagaagccctgggatgcc	18	12	0	1	rs564350771		TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr20:57767041G>A	ENST00000371030.2	+	1	967	c.967G>A	c.(967-969)Gcg>Acg	p.A323T		NM_178457.1	NP_848552.1	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	323							metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(15)|lung(71)|ovary(2)|pancreas(1)|prostate(4)|skin(16)|upper_aerodigestive_tract(2)|urinary_tract(3)	125	all_lung(29;0.0085)					GGCGACGGCAGCGGAGAAGCC	0.716													.|||	1	0.000199681	0.0008	0.0	5008	,	,		11993	0.0		0.0	False		,,,				2504	0.0															0													11	14	13					20																	57767041		1658	3888	5546	SO:0001583	missense	128611			AL121919	CCDS42894.1	20q13.32	2008-10-20	2008-03-25	2008-03-25	ENSG00000124203	ENSG00000124203			16167	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 174"	C20orf174			Standard	NM_178457		Approved	dJ492J12.1	uc002yan.3	Q5JPB2	OTTHUMG00000032864	ENST00000371030.2:c.967G>A	20.37:g.57767041G>A	ENSP00000360069:p.Ala323Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TDR4|Q8TCP0	Missense_Mutation	SNP	ENST00000371030.2	37	CCDS42894.1	.	.	.	.	.	.	.	.	.	.	G	5.466	0.271092	0.10349	.	.	ENSG00000124203	ENST00000371030	T	0.04234	3.67	5.19	-3.85	0.04243	.	.	.	.	.	T	0.03390	0.0098	L	0.36672	1.1	0.09310	N	1	B	0.18863	0.031	B	0.09377	0.004	T	0.43718	-0.9374	9	0.30078	T	0.28	0.0026	4.3551	0.11174	0.1062:0.1416:0.505:0.2472	.	323	Q5JPB2	ZN831_HUMAN	T	323	ENSP00000360069:A323T	ENSP00000360069:A323T	A	+	1	0	ZNF831	57200436	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	0.006000	0.13152	-0.627000	0.05589	-0.293000	0.09583	GCG		0.716	ZNF831-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000079916.2	NM_178457		A	57767041	G	A	57767041	3	1	656	1	0	0	0	0	1	0	0	0	18197	971	34	2	969	2	ZNF831	20	57767041	Missense_Mutation	SNP	G	TCGA-KN-8419-01A-11D-2310-10		57767041	5258479	59	40726										
KRTAP10-1	386677	mdanderson.org	37	chr21	45959195	45959195	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	agcagaggcctcagcaggccGggcgggagcacgcggggcgg	21	12	1	1	rs233316	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr21:45959195G>A	ENST00000400375.1	-	1	883	c.839C>T	c.(838-840)cCg>cTg	p.P280L	TSPEAR_ENST00000397916.1_Intron|TSPEAR_ENST00000323084.4_Intron	NM_198691.2	NP_941964.2	P60331	KR101_HUMAN	keratin associated protein 10-1	280			P -> L (in dbSNP:rs233316). {ECO:0000269|PubMed:15489334}.			keratin filament (GO:0045095)				breast(1)|central_nervous_system(1)|endometrium(1)|lung(3)|prostate(4)|skin(1)	11						TCAGCAGGCCGGGCGGGAGCA	0.721													G|||	3114	0.621805	0.7519	0.6081	5008	,	,		14955	0.4861		0.6531	False		,,,				2504	0.5634															0								G	LEU/PRO,	3137,1143		1169,799,172	16	21	19		839,	-1.1	0	21	dbSNP_79	19	5643,2789		1911,1821,484	no	missense,intron	TSPEAR,KRTAP10-1	NM_198691.2,NM_144991.2	98,	3080,2620,656	AA,AG,GG		33.0764,26.7056,30.9314	probably-damaging,	280/283,	45959195	8780,3932	2140	4216	6356	SO:0001583	missense	386677			AJ566380	CCDS42954.1	21q22.3	2007-10-05			ENSG00000215455	ENSG00000215455		"Keratin associated proteins"	22966	protein-coding gene	gene with protein product				KRTAP18-1			Standard	NM_198691		Approved	KAP10.1, KAP18.1	uc002zfh.1	P60331	OTTHUMG00000057627	ENST00000400375.1:c.839C>T	21.37:g.45959195G>A	ENSP00000383226:p.Pro280Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAR0|Q0VAR1	Missense_Mutation	SNP	ENST00000400375.1	37	CCDS42954.1	1309	0.5993589743589743	333	0.676829268292683	238	0.6574585635359116	276	0.4825174825174825	462	0.6094986807387863	a	0.384	-0.927214	0.02377	0.732944	0.669236	ENSG00000215455	ENST00000400375	T	0.00816	5.66	3.28	-1.15	0.09709	.	.	.	.	.	T	0.00012	0.0000	L	0.42581	1.335	0.80722	P	0.0	D	0.54047	0.964	B	0.42522	0.39	T	0.02901	-1.1096	8	0.33141	T	0.24	.	4.1151	0.10077	0.2988:0.0:0.5346:0.1666	rs233316	280	P60331	KR101_HUMAN	L	280	ENSP00000383226:P280L	ENSP00000383226:P280L	P	-	2	0	KRTAP10-1	44783623	0.001000	0.12720	0.000000	0.03702	0.056000	0.15407	-0.233000	0.09041	-0.403000	0.07622	-0.186000	0.12905	CCG		0.721	KRTAP10-1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128030.1			A	45959195	G	A	45959195	3	1	656	1	0	0	0	0	1	0	0	0	8512	1116	39	1	13	1	KRTAP10-1	21	45959195	Missense_Mutation	SNP	G	TCGA-KN-8419-01A-11D-2310-10		45959195	2170700	60	40727										
PI4KA	5297	mdanderson.org	37	chr22	21088357	21088357	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	cggggcccgatggccgccacGtgccggttcatgctcccctt	13	17	1	0			TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr22:21088357G>A	ENST00000572273.1	-	34	4082	c.3852C>T	c.(3850-3852)caC>caT	p.H1284H	PI4KA_ENST00000255882.6_Silent_p.H1342H|PI4KA_ENST00000414196.3_Silent_p.H94H			P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase, catalytic, alpha	1284					phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi-associated vesicle membrane (GO:0030660)|membrane (GO:0016020)|plasma membrane (GO:0005886)	1-phosphatidylinositol 4-kinase activity (GO:0004430)|ATP binding (GO:0005524)			breast(3)|endometrium(8)|kidney(9)|large_intestine(19)|lung(29)|ovary(1)|pancreas(1)|prostate(3)|salivary_gland(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	79	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)			TGGCCGCCACGTGCCGGTTCA	0.637																																					GBM(136;1332 1831 3115 23601 50806)											0													21	19	19					22																	21088357		2198	4289	6487	SO:0001819	synonymous_variant	5297			L36151	CCDS33603.1, CCDS33603.2	22q11.21	2011-05-25	2007-08-14	2007-08-02	ENSG00000241973	ENSG00000241973			8983	protein-coding gene	gene with protein product		600286		PIK4CA		7961848, 8662589	Standard	NM_002650		Approved	PI4K-ALPHA, pi4K230	uc002zsz.5	P42356	OTTHUMG00000167440	ENST00000572273.1:c.3852C>T	22.37:g.21088357G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z625|Q9UPG2	Silent	SNP	ENST00000572273.1	37																																																																																					0.637	PI4KA-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_058004		A	21088357	G	A	21088357	2	1	656	1	0	0	0	0	0	0	0	1	11880	1136	40	1		1	PI4KA	22	21088357	Silent	SNP	G	TCGA-KN-8419-01A-11D-2310-10		21088357	30216209	61	40728										
OSBP2	23762	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr22	31266429	31266429	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	tccacagatgactctggggaCgacgacgaggctaccacccc	11	15	1	2	rs376288614		TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr22:31266429C>T	ENST00000332585.6	+	3	971	c.867C>T	c.(865-867)gaC>gaT	p.D289D	OSBP2_ENST00000403222.3_Silent_p.D124D|OSBP2_ENST00000382310.3_Silent_p.D289D|OSBP2_ENST00000401475.1_5'UTR|OSBP2_ENST00000407373.1_Silent_p.D116D|OSBP2_ENST00000446658.2_Silent_p.D289D|OSBP2_ENST00000437268.2_Silent_p.D31D	NM_001282739.1|NM_001282740.1|NM_001282741.1|NM_001282742.1|NM_030758.3	NP_001269668.1|NP_001269669.1|NP_001269670.1|NP_001269671.1|NP_110385.1	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2	289					lipid transport (GO:0006869)	membrane (GO:0016020)	cholesterol binding (GO:0015485)			breast(3)|central_nervous_system(1)|endometrium(2)|kidney(2)|lung(6)|ovary(1)|skin(3)|urinary_tract(1)	19						ACTCTGGGGACGACGACGAGG	0.557																																																0								C		1,4199		0,1,2099	63	65	65		867	-0.7	1	22		65	1,8441		0,1,4220	no	coding-synonymous	OSBP2	NM_030758.3		0,2,6319	TT,TC,CC		0.0118,0.0238,0.0158		289/917	31266429	2,12640	2100	4221	6321	SO:0001819	synonymous_variant	23762				CCDS43002.1, CCDS63448.1, CCDS63449.1, CCDS63450.1, CCDS63451.1	22q12.2	2013-01-10			ENSG00000184792	ENSG00000184792		"Oxysterol binding proteins", "Pleckstrin homology (PH) domain containing"	8504	protein-coding gene	gene with protein product		606729		OSBPL1		10591208, 11278871, 11802775	Standard	NM_001282738		Approved	KIAA1664, ORP-4, ORP4	uc003aiy.1	Q969R2	OTTHUMG00000151153	ENST00000332585.6:c.867C>T	22.37:g.31266429C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0QYG1|B4DK24|B4DKE4|B4DTR3|F5H2A3|O60396|Q0VF99|Q8NA37|Q9BY96|Q9BZF0	Silent	SNP	ENST00000332585.6	37	CCDS43002.1																																																																																				0.557	OSBP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000321547.2	NM_030758		T	31266429	C	T	31266429	2	4	656	1	0	0	0	0	0	0	0	1	11281	535	19	1		1	OSBP2	22	31266429	Silent	SNP	C	TCGA-KN-8419-01A-11D-2310-10	10178072	31266429	20038137	62	40729										
SSTR3	6753	hgsc.bcm.edu	37	chr22	37603327	37603327	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	accacgggcagcaccaccacGgctgaggccacccacacagc	10	19	0	1	rs141903633	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr22:37603327G>A	ENST00000328544.3	-	2	1049	c.516C>T	c.(514-516)gcC>gcT	p.A172A	SSTR3_ENST00000402501.1_Silent_p.A172A	NM_001051.3	NP_001042.1	P32745	SSR3_HUMAN	somatostatin receptor 3	172					cell-cell signaling (GO:0007267)|cellular response to estradiol stimulus (GO:0071392)|cellular response to glucocorticoid stimulus (GO:0071385)|cerebellum development (GO:0021549)|forebrain development (GO:0030900)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|hormone-mediated apoptotic signaling pathway (GO:0008628)|negative regulation of cell proliferation (GO:0008285)|response to starvation (GO:0042594)|somatostatin signaling pathway (GO:0038170)|spermatogenesis (GO:0007283)	ciliary membrane (GO:0060170)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|nonmotile primary cilium (GO:0031513)|plasma membrane (GO:0005886)	somatostatin receptor activity (GO:0004994)			NS(1)|breast(1)|kidney(1)|large_intestine(1)|lung(9)|ovary(1)	14					Pasireotide(DB06663)	GCACCACCACGGCTGAGGCCA	0.741													G|||	15	0.00299521	0.0106	0.0	5008	,	,		13508	0.001		0.0	False		,,,				2504	0.0															0								G		33,4367		0,33,2167	24	26	25		516	-11.3	0.1	22	dbSNP_134	25	1,8571		0,1,4285	no	coding-synonymous	SSTR3	NM_001051.2		0,34,6452	AA,AG,GG		0.0117,0.75,0.2621		172/419	37603327	34,12938	2200	4286	6486	SO:0001819	synonymous_variant	6753				CCDS13944.1	22q13.1	2012-08-08			ENSG00000183473	ENSG00000278195		"GPCR / Class A : Somatostatin receptors"	11332	protein-coding gene	gene with protein product		182453				8449518	Standard	XM_006724311		Approved		uc003arb.3	P32745	OTTHUMG00000150537	ENST00000328544.3:c.516C>T	22.37:g.37603327G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K550|Q53ZR7	Silent	SNP	ENST00000328544.3	37	CCDS13944.1																																																																																				0.741	SSTR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318802.1			A	37603327	G	A	37603327	2	1	656	1	0	0	0	0	0	0	0	1	15211	1103	39	1		1	SSTR3	22	37603327	Silent	SNP	G	TCGA-KN-8419-01A-11D-2310-10	6336898	37603327	13701239	63	40730										
TYMP	1890	mdanderson.org	37	chr22	50965102	50965102	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gcgtggcccacgcagcgaccCaggggcttgtccatggcggt	16	14	0	0	rs8141558	byFrequency	TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chr22:50965102C>T	ENST00000252029.3	-	7	993	c.831G>A	c.(829-831)ctG>ctA	p.L277L	TYMP_ENST00000395680.1_Silent_p.L277L|SCO2_ENST00000395693.3_5'Flank|TYMP_ENST00000395678.3_Silent_p.L277L|SCO2_ENST00000535425.1_5'Flank|CTA-384D8.36_ENST00000608319.1_RNA|SCO2_ENST00000543927.1_5'Flank|SCO2_ENST00000252785.3_5'Flank|TYMP_ENST00000395681.1_Silent_p.L277L	NM_001113755.2|NM_001113756.2|NM_001257988.1|NM_001257989.1|NM_001953.4	NP_001107227.1|NP_001107228.1|NP_001244917.1|NP_001244918.1|NP_001944.1	P19971	TYPH_HUMAN	thymidine phosphorylase	277					angiogenesis (GO:0001525)|cell differentiation (GO:0030154)|chemotaxis (GO:0006935)|DNA replication (GO:0006260)|mitochondrial genome maintenance (GO:0000002)|nucleobase-containing small molecule metabolic process (GO:0055086)|pyrimidine nucleobase metabolic process (GO:0006206)|pyrimidine nucleoside catabolic process (GO:0046135)|pyrimidine nucleoside salvage (GO:0043097)|pyrimidine nucleotide metabolic process (GO:0006220)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	phosphorylase activity (GO:0004645)|platelet-derived growth factor receptor binding (GO:0005161)|pyrimidine-nucleoside phosphorylase activity (GO:0016154)|thymidine phosphorylase activity (GO:0009032)|transferase activity, transferring pentosyl groups (GO:0016763)			large_intestine(1)|lung(2)|ovary(1)|prostate(1)	5		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;0.206)|LUAD - Lung adenocarcinoma(64;0.247)	Capecitabine(DB01101)|Cidofovir(DB00369)|Floxuridine(DB00322)|Fluorouracil(DB00544)|Trifluridine(DB00432)	CGCAGCGACCCAGGGGCTTGT	0.711													C|||	177	0.0353435	0.1256	0.0159	5008	,	,		12653	0.0		0.0	False		,,,				2504	0.0															0								C	,,	381,3875		17,347,1764	8	8	8		831,831,831	4.6	0.7	22	dbSNP_116	8	10,8426		0,10,4208	no	coding-synonymous,coding-synonymous,coding-synonymous	TYMP	NM_001113755.1,NM_001113756.1,NM_001953.3	,,	17,357,5972	TT,TC,CC		0.1185,8.9521,3.0807	,,	277/483,277/483,277/483	50965102	391,12301	2128	4218	6346	SO:0001819	synonymous_variant	1890			M63193	CCDS14096.1, CCDS58811.1	22q13	2014-09-17	2008-01-21	2008-01-21	ENSG00000025708	ENSG00000025708	2.4.2.4		3148	protein-coding gene	gene with protein product	"gliostatin"	131222	"endothelial cell growth factor 1 (platelet-derived)"	MNGIE, ECGF1		1590793, 11733540	Standard	NM_001113755		Approved		uc003bme.5	P19971	OTTHUMG00000150249	ENST00000252029.3:c.831G>A	22.37:g.50965102C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MW15|H9KVA0|Q13390|Q8WVB7	Silent	SNP	ENST00000252029.3	37	CCDS14096.1																																																																																				0.711	TYMP-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000317081.1	NM_001953		T	50965102	C	T	50965102	2	4	656	1	0	0	0	0	0	0	0	1	16823	581	21	2		2	TYMP	22	50965102	Silent	SNP	C	TCGA-KN-8419-01A-11D-2310-10	13361775	50965102	339464	64	40731										
NUDT10	170685	broad.mit.edu	37	chrX	51076024	51076024	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.09375	6	1	1.73090481786134	7.11594202898551	0.688639551192146	0.592074592074592	1	0	gtccgagaggtgtacgaagaGgcgggagtcaaggggaagtt	19	5	1	2	rs143435240		TCGA-KN-8419-01A-11D-2310-10	TCGA-KN-8419-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a592e80a-3b1a-46aa-be30-bcd87d6bca6f	04adced3-96c5-4ec2-8e06-293544f0c3d7	g.chrX:51076024G>A	ENST00000376006.3	+	2	427	c.207G>A	c.(205-207)gaG>gaA	p.E69E	NUDT10_ENST00000356450.2_Silent_p.E69E	NM_153183.2	NP_694853.1	Q9BW91	NUDT9_HUMAN	nudix (nucleoside diphosphate linked moiety X)-type motif 10	234					ADP catabolic process (GO:0046032)|IDP catabolic process (GO:0046709)|nucleobase-containing small molecule catabolic process (GO:0034656)|nucleobase-containing small molecule metabolic process (GO:0055086)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|mitochondrial matrix (GO:0005759)	adenosine-diphosphatase activity (GO:0043262)|ADP-ribose diphosphatase activity (GO:0047631)|ADP-sugar diphosphatase activity (GO:0019144)	p.E69E(8)		cervix(1)|endometrium(8)|kidney(1)|large_intestine(1)|lung(1)|prostate(3)|upper_aerodigestive_tract(1)	16	Ovarian(276;0.236)					TGTACGAAGAGGCGGGAGTCA	0.657																																					NSCLC(90;1817 2035 37909 38249)											8	Substitution - coding silent(8)	endometrium(5)|cervix(1)|prostate(1)|lung(1)											52	62	59					X																	51076024		2203	4300	6503	SO:0001819	synonymous_variant	170685			AF469196	CCDS35278.1	Xp11.22-p11.1	2014-05-20			ENSG00000122824	ENSG00000122824		"Nudix motif containing"	17621	protein-coding gene	gene with protein product		300527				12105228	Standard	NM_153183		Approved	DIPP3a, hDIPP3alpha	uc004dph.3	Q8NFP7	OTTHUMG00000021530	ENST00000376006.3:c.207G>A	X.37:g.51076024G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NBN1|Q8NCB9|Q8NG25	Silent	SNP	ENST00000376006.3	37	CCDS35278.1																																																																																				0.657	NUDT10-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056578.1	NM_153183		A	51076024	G	A	51076024	2	1	656	1	0	0	0	0	0	0	0	1	10733	991	35	2		2	NUDT10	23	51076024	Silent	SNP	G	TCGA-KN-8419-01A-11D-2310-10		51076024	104194536	65	40732										
HCRTR1	3061	ucsc.edu	37	chr1	32085198	32085198	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	actacttcattgtcaacctgTccctggctgacgttctggtg	9	12	3	1			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr1:32085198T>C	ENST00000373706.5	+	2	418	c.265T>C	c.(265-267)Tcc>Ccc	p.S89P	HCRTR1_ENST00000373705.1_Missense_Mutation_p.S89P|HCRTR1_ENST00000468521.1_Intron|HCRTR1_ENST00000403528.2_Missense_Mutation_p.S89P			O43613	OX1R_HUMAN	hypocretin (orexin) receptor 1	89					feeding behavior (GO:0007631)|neuropeptide signaling pathway (GO:0007218)|synaptic transmission (GO:0007268)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|orexin receptor activity (GO:0016499)|peptide hormone binding (GO:0017046)			breast(2)|large_intestine(1)|lung(2)|ovary(1)|prostate(1)	7		Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.053)		TGTCAACCTGTCCCTGGCTGA	0.602																																																0													140	99	113					1																	32085198		2203	4299	6502	SO:0001583	missense	3061			AF041243	CCDS344.1	1p33	2012-08-08			ENSG00000121764	ENSG00000121764		"GPCR / Class A : Hypocretin (orexin) receptors"	4848	protein-coding gene	gene with protein product		602392				9491897	Standard	NM_001525		Approved	OX1R	uc009vtx.2	O43613	OTTHUMG00000003876	ENST00000373706.5:c.265T>C	1.37:g.32085198T>C	ENSP00000362810:p.Ser89Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3A6|Q9HBV6	Missense_Mutation	SNP	ENST00000373706.5	37	CCDS344.1	.	.	.	.	.	.	.	.	.	.	T	21.3	4.124151	0.77436	.	.	ENSG00000121764	ENST00000403528;ENST00000373706;ENST00000373705	T;T;T	0.12255	2.7;2.7;2.7	4.45	4.45	0.53987	GPCR, rhodopsin-like superfamily (1);	0.000000	0.85682	D	0.000000	T	0.43033	0.1229	M	0.89840	3.065	0.45129	D	0.998146	D;D	0.76494	0.999;0.999	D;D	0.77557	0.99;0.98	T	0.52786	-0.8529	10	0.87932	D	0	.	12.31	0.54924	0.0:0.0:0.0:1.0	.	89;89	A6NMV7;O43613	.;OX1R_HUMAN	P	89	ENSP00000384387:S89P;ENSP00000362810:S89P;ENSP00000362809:S89P	ENSP00000362809:S89P	S	+	1	0	HCRTR1	31857785	1.000000	0.71417	1.000000	0.80357	0.795000	0.44927	7.645000	0.83430	1.931000	0.55961	0.533000	0.62120	TCC		0.602	HCRTR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000011042.1	NM_001525		C	32085198	T	C	32085198	3	2	657	1	0	0	0	0	1	0	0	0	7008	1667	58	3	271	3	HCRTR1	1	32085198	Missense_Mutation	SNP	T	TCGA-KN-8421-01A-11D-2310-10		32085198	217165423	1	40733										
ZC3H12A	80149	ucsc.edu;bcgsc.ca	37	chr1	37947246	37947246	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	agaagaagaagatcctggtgTtcacaccatcacgacgcgtg	11	10	2	4			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr1:37947246T>C	ENST00000373087.6	+	4	744	c.628T>C	c.(628-630)Ttc>Ctc	p.F210L		NM_025079.2	NP_079355.2			zinc finger CCCH-type containing 12A											NS(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(3)|lung(5)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	21		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GATCCTGGTGTTCACACCATC	0.592																																																0													236	213	221					1																	37947246		2203	4300	6503	SO:0001583	missense	80149				CCDS417.1	1p34.3	2012-07-05			ENSG00000163874	ENSG00000163874		"Zinc fingers, CCCH-type domain containing"	26259	protein-coding gene	gene with protein product	"MCP induced protein 1"	610562				18178554, 22055188	Standard	NM_025079		Approved	FLJ23231, MCPIP1	uc001cbb.4	Q5D1E8	OTTHUMG00000004221	ENST00000373087.6:c.628T>C	1.37:g.37947246T>C	ENSP00000362179:p.Phe210Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000373087.6	37	CCDS417.1	.	.	.	.	.	.	.	.	.	.	T	35	5.467320	0.96257	.	.	ENSG00000163874	ENST00000373087;ENST00000373082	T	0.39787	1.06	5.42	5.42	0.78866	Ribonuclease Zc3h12a-like (1);	0.000000	0.85682	D	0.000000	T	0.59676	0.2211	M	0.61703	1.905	0.80722	D	1	P	0.49447	0.924	P	0.61397	0.888	T	0.60005	-0.7347	10	0.48119	T	0.1	-30.0237	15.4665	0.75406	0.0:0.0:0.0:1.0	.	210	Q5D1E8	ZC12A_HUMAN	L	210	ENSP00000362179:F210L	ENSP00000362174:F210L	F	+	1	0	ZC3H12A	37719833	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	7.991000	0.88244	2.054000	0.61138	0.459000	0.35465	TTC		0.592	ZC3H12A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012154.2	NM_025079		C	37947246	T	C	37947246	3	2	657	1	0	0	0	0	1	0	0	0	17573	1725	60	3	638	3	ZC3H12A	1	37947246	Missense_Mutation	SNP	T	TCGA-KN-8421-01A-11D-2310-10	5862048	37947246	211303375	2	40734										
DNASE2B	58511	broad.mit.edu;mdanderson.org	37	chr1	84876612	84876612	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	gaagaaggctatgattatccAcccacagggagacgaaatgg	12	8	0	3			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr1:84876612A>T	ENST00000370665.3	+	4	510	c.477A>T	c.(475-477)ccA>ccT	p.P159P	DNASE2B_ENST00000370662.3_5'UTR	NM_021233.2	NP_067056.2	Q8WZ79	DNS2B_HUMAN	deoxyribonuclease II beta	159					apoptotic DNA fragmentation (GO:0006309)	extracellular region (GO:0005576)|intracellular (GO:0005622)|lysosome (GO:0005764)	deoxyribonuclease II activity (GO:0004531)			endometrium(1)|lung(4)|skin(1)	6				all cancers(265;0.00303)|Epithelial(280;0.0112)|OV - Ovarian serous cystadenocarcinoma(397;0.0808)		ATGATTATCCACCCACAGGGA	0.428																																					Pancreas(54;788 1175 11852 16034 30034)											0													89	83	85					1																	84876612		1904	4127	6031	SO:0001819	synonymous_variant	58511			AF274571	CCDS694.1, CCDS44167.1	1p22.3	2008-02-05			ENSG00000137976	ENSG00000137976			28875	protein-coding gene	gene with protein product		608057				12594037, 11376952	Standard	NM_021233		Approved	DLAD	uc001djt.1	Q8WZ79	OTTHUMG00000009860	ENST00000370665.3:c.477A>T	1.37:g.84876612A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VXD0|Q5VXD1|Q8WZ80|Q9NQW3	Silent	SNP	ENST00000370665.3	37	CCDS44167.1																																																																																				0.428	DNASE2B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000027248.1	NM_021233		T	84876612	A	T	84876612	2	4	657	1	0	0	0	0	0	0	0	1	4667	146	6	5		5	DNASE2B	1	84876612	Silent	SNP	A	TCGA-KN-8421-01A-11D-2310-10	46929366	84876612	164374009	3	40735										
STX6	10228	hgsc.bcm.edu;ucsc.edu	37	chr1	180945772	180945772	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	aggatggctatggcacaccaTtggcgccgatctggaaggca	14	10	1	0			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr1:180945772T>C	ENST00000258301.5	-	8	939	c.702A>G	c.(700-702)caA>caG	p.Q234Q	RP11-46A10.5_ENST00000358073.2_RNA|STX6_ENST00000469135.1_5'UTR|STX6_ENST00000542060.1_Silent_p.Q133Q|AL162431.1_ENST00000457152.2_Intron	NM_005819.4	NP_005810.1	O43752	STX6_HUMAN	syntaxin 6	234					endosome organization (GO:0007032)|Golgi vesicle transport (GO:0048193)|intracellular protein transport (GO:0006886)|retrograde transport, endosome to Golgi (GO:0042147)|vesicle fusion (GO:0006906)	clathrin-coated vesicle (GO:0030136)|early endosome (GO:0005769)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|SNARE complex (GO:0031201)|trans-Golgi network membrane (GO:0032588)	SNAP receptor activity (GO:0005484)			breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(2)|lung(1)|ovary(1)|prostate(1)	10						TGGCACACCATTGGCGCCGAT	0.532																																																0													149	119	129					1																	180945772		2203	4300	6503	SO:0001819	synonymous_variant	10228			AJ002078	CCDS1341.1, CCDS65738.1	1q25.3	2008-02-05			ENSG00000135823	ENSG00000135823			11441	protein-coding gene	gene with protein product		603944				10080545	Standard	XM_005244824		Approved		uc021pfr.1	O43752	OTTHUMG00000035179	ENST00000258301.5:c.702A>G	1.37:g.180945772T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R652|B4DR17|Q5VY08|Q6FH83	Silent	SNP	ENST00000258301.5	37	CCDS1341.1																																																																																				0.532	STX6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085143.1	NM_005819		C	180945772	T	C	180945772	2	2	657	1	0	0	0	0	0	0	0	1	15361	1490	52	3		3	STX6	1	180945772	Silent	SNP	T	TCGA-KN-8421-01A-11D-2310-10	96069160	180945772	68304849	4	40736										
PRKD3	23683	broad.mit.edu	37	chr2	37483813	37483813	+	Frame_Shift_Del	DEL	G	G	-													0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	ttttttttttaccttcaccaGaaatttctctccatggattt							TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr2:37483813delG	ENST00000379066.1	-	17	3167	c.2405delC	c.(2404-2406)tctfs	p.S802fs	PRKD3_ENST00000234179.2_Frame_Shift_Del_p.S802fs			O94806	KPCD3_HUMAN	protein kinase D3	802	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				intracellular signal transduction (GO:0035556)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|protein phosphorylation (GO:0006468)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein kinase C activity (GO:0004697)			breast(3)|central_nervous_system(2)|kidney(3)|large_intestine(8)|lung(9)|ovary(3)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	33		all_hematologic(82;0.21)				ACCTTCACCAGAAATTTCTCT	0.323																																					Melanoma(80;621 1355 8613 11814 51767)											0													56	54	54					2																	37483813		2203	4300	6503	SO:0001589	frameshift_variant	23683			AB015982	CCDS1789.1	2p21	2013-01-10	2004-10-28	2004-10-30	ENSG00000115825	ENSG00000115825		"Pleckstrin homology (PH) domain containing"	9408	protein-coding gene	gene with protein product		607077	"protein kinase C, nu"	PRKCN		10231560	Standard	NM_005813		Approved	EPK2	uc002rqd.3	O94806	OTTHUMG00000100961	ENST00000379066.1:c.2405delC	2.37:g.37483813delG	ENSP00000368356:p.Ser802fs	Somatic		WXS	Illumina HiSeq	Phase_I	D6W587|Q53TR7|Q8NEL8	Frame_Shift_Del	DEL	ENST00000379066.1	37	CCDS1789.1																																																																																				0.323	PRKD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000218570.3	NM_005813		-	37483813	G	-	37483813	7	5	657	1	0	1	0	1	0	0	0	0	12530	942	33	0	279	0	PRKD3	2	37483813	Frame_Shift_Del	DEL	G	TCGA-KN-8421-01A-11D-2310-10		37483813	205715560	5	40737										
CCDC85A	114800	broad.mit.edu;mdanderson.org	37	chr2	56420144	56420144	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	agcctgtggaaccccagatcGccccaaagcactcaaaggac	9	15	1	1			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr2:56420144G>A	ENST00000407595.2	+	2	1311	c.809G>A	c.(808-810)cGc>cAc	p.R270H	RP11-482H16.1_ENST00000607540.1_RNA	NM_001080433.1	NP_001073902.1	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	270	His-rich.									breast(6)|cervix(2)|endometrium(5)|kidney(1)|lung(18)|ovary(2)|pancreas(1)|prostate(3)	38			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			ACCCCAGATCGCCCCAAAGCA	0.652																																																0													42	56	52					2																	56420144		1996	4190	6186	SO:0001583	missense	114800			AB067499	CCDS46290.1	2p16.1	2006-03-29			ENSG00000055813	ENSG00000055813			29400	protein-coding gene	gene with protein product						11572484	Standard	NM_001080433		Approved	KIAA1912	uc002rzn.3	Q96PX6	OTTHUMG00000152033	ENST00000407595.2:c.809G>A	2.37:g.56420144G>A	ENSP00000384040:p.Arg270His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000407595.2	37	CCDS46290.1	.	.	.	.	.	.	.	.	.	.	G	2.918	-0.223868	0.06061	.	.	ENSG00000055813	ENST00000407595	T	0.45668	0.89	5.35	3.0	0.34707	.	0.137823	0.64402	N	0.000003	T	0.13329	0.0323	N	0.01209	-0.955	0.80722	D	1	B	0.06786	0.001	B	0.01281	0.0	T	0.09335	-1.0679	10	0.08599	T	0.76	-6.8881	9.1145	0.36748	0.8509:0.0:0.1491:0.0	.	270	Q96PX6	CC85A_HUMAN	H	270	ENSP00000384040:R270H	ENSP00000384040:R270H	R	+	2	0	CCDC85A	56273648	0.999000	0.42202	0.998000	0.56505	0.944000	0.59088	1.851000	0.39338	0.881000	0.35993	-0.312000	0.09012	CGC		0.652	CCDC85A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324993.1			A	56420144	G	A	56420144	3	1	657	1	0	0	0	0	1	0	0	0	2861	1087	38	1	815	1	CCDC85A	2	56420144	Missense_Mutation	SNP	G	TCGA-KN-8421-01A-11D-2310-10	18936331	56420144	186779229	6	40738										
RAB11FIP5	26056	mdanderson.org	37	chr2	73316240	73316240	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	cctctatggcgctgcttgggAggatggcagaggcagattcc	15	10	1	2			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr2:73316240A>G	ENST00000258098.6	-	2	875	c.635T>C	c.(634-636)cTc>cCc	p.L212P	RAB11FIP5_ENST00000493523.2_5'UTR	NM_015470.2	NP_056285.1	Q9BXF6	RFIP5_HUMAN	RAB11 family interacting protein 5 (class I)	212					cellular response to acidic pH (GO:0071468)|insulin secretion involved in cellular response to glucose stimulus (GO:0035773)|protein transport (GO:0015031)|regulated secretory pathway (GO:0045055)|regulation of protein localization to cell surface (GO:2000008)	early endosome (GO:0005769)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|microtubule organizing center (GO:0005815)|mitochondrial outer membrane (GO:0005741)|recycling endosome (GO:0055037)|secretory granule (GO:0030141)	gamma-tubulin binding (GO:0043015)			biliary_tract(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(9)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	23						GCTGCTTGGGAGGATGGCAGA	0.557																																																0													176	166	170					2																	73316240		2203	4300	6503	SO:0001583	missense	26056			AF334812	CCDS1923.1	2p13	2008-02-05			ENSG00000135631	ENSG00000135631			24845	protein-coding gene	gene with protein product		605536				10048485, 11163216	Standard	NM_015470		Approved	GAF1, KIAA0857, RIP11, pp75	uc002sis.4	Q9BXF6	OTTHUMG00000129779	ENST00000258098.6:c.635T>C	2.37:g.73316240A>G	ENSP00000258098:p.Leu212Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O94939|Q9P0M1	Missense_Mutation	SNP	ENST00000258098.6	37	CCDS1923.1	.	.	.	.	.	.	.	.	.	.	A	18.11	3.551239	0.65311	.	.	ENSG00000135631	ENST00000258098	T	0.33865	1.39	4.77	3.62	0.41486	.	0.190105	0.37304	N	0.002149	T	0.42063	0.1186	L	0.39898	1.24	0.58432	D	0.999999	D;D	0.63880	0.989;0.993	P;P	0.59288	0.726;0.855	T	0.14952	-1.0454	10	0.38643	T	0.18	-20.2281	9.4493	0.38717	0.9148:0.0:0.0852:0.0	.	212;212	Q9BXF6;Q2Z1P3	RFIP5_HUMAN;.	P	212	ENSP00000258098:L212P	ENSP00000258098:L212P	L	-	2	0	RAB11FIP5	73169748	1.000000	0.71417	0.997000	0.53966	0.996000	0.88848	9.139000	0.94554	0.976000	0.38417	0.459000	0.35465	CTC		0.557	RAB11FIP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251995.1	NM_015470		G	73316240	A	G	73316240	3	3	657	1	0	0	0	0	1	0	0	0	12910	304	11	3	1342	3	RAB11FIP5	2	73316240	Missense_Mutation	SNP	A	TCGA-KN-8421-01A-11D-2310-10	16896096	73316240	169883133	7	40739										
R3HDM1	23518	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	136473266	136473266	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	ccttttgtccccgggcaaggTaagtgcacatgaaactagtc	10	11	0	1			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr2:136473266T>A	ENST00000264160.4	+	23	3146		c.e23+2		R3HDM1_ENST00000409478.1_Splice_Site|R3HDM1_ENST00000410054.1_Splice_Site|R3HDM1_ENST00000329971.3_Splice_Site|R3HDM1_ENST00000409606.1_Splice_Site	NM_001282798.1|NM_015361.2	NP_001269727.1|NP_056176.2	Q15032	R3HD1_HUMAN	R3H domain containing 1								poly(A) RNA binding (GO:0044822)			breast(2)|endometrium(6)|kidney(5)|large_intestine(3)|lung(14)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|urinary_tract(3)	38				BRCA - Breast invasive adenocarcinoma(221;0.127)		CCGGGCAAGGTAAGTGCACAT	0.443																																																0													138	120	126					2																	136473266		2203	4300	6503	SO:0001630	splice_region_variant	23518			D21852	CCDS2177.1, CCDS63024.1, CCDS63025.1, CCDS63026.1	2q21.3	2012-09-20	2005-09-02	2005-09-02	ENSG00000048991	ENSG00000048991			9757	protein-coding gene	gene with protein product			"R3H domain (binds single-stranded nucleic acids) containing"	R3HDM		7584026	Standard	NM_001282798		Approved	KIAA0029	uc002tuo.3	Q15032	OTTHUMG00000131740	ENST00000264160.4:c.2776+2T>A	2.37:g.136473266T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1V0|B3KXQ9|E9PBB4|E9PG42|G5E9G8|Q8IW32	Splice_Site	SNP	ENST00000264160.4	37	CCDS2177.1	.	.	.	.	.	.	.	.	.	.	T	17.30	3.355569	0.61293	.	.	ENSG00000048991	ENST00000409478;ENST00000264160;ENST00000329971;ENST00000410054;ENST00000409606;ENST00000429703	.	.	.	5.36	5.36	0.76844	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.352	0.74396	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	R3HDM1	136189736	1.000000	0.71417	0.998000	0.56505	0.483000	0.33249	7.603000	0.82811	2.026000	0.59711	0.379000	0.24179	.		0.443	R3HDM1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000254659.1	NM_015361	Intron	A	136473266	T	A	136473266	5	1	657	1	0	0	0	0	0	0	1	0	12900	1652	57	5	2860	5	R3HDM1	2	136473266	Splice_Site	SNP	T	TCGA-KN-8421-01A-11D-2310-10	63157026	136473266	106726107	8	40740										
PRPF40A	151188	hgsc.bcm.edu;ucsc.edu	37	chr2	153573942	153573942	+	5'Flank	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	ctgctccgccggcggccactGccgctacacataccaacaag	9	18	0	0			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr2:153573942G>A	ENST00000326446.5	+	0	0				PRPF40A_ENST00000410080.1_Silent_p.G4G|PRPF40A_ENST00000486100.1_5'UTR	NM_152522.5	NP_689735.1	Q8N6S5	AR6P6_HUMAN	ADP-ribosylation factor-like 6 interacting protein 6							integral component of membrane (GO:0016021)				kidney(1)|large_intestine(1)|lung(2)|pancreas(1)	5						GGCGGCCACTGCCGCTACACA	0.652																																																0													33	40	38					2																	153573942		1956	4148	6104	SO:0001631	upstream_gene_variant	55660			AK023109	CCDS2197.1	2q23	2014-05-12	2014-05-12		ENSG00000177917	ENSG00000177917			24048	protein-coding gene	gene with protein product							Standard	NM_152522		Approved	MGC33864	uc002tyn.3	Q8N6S5	OTTHUMG00000131901		2.37:g.153573942G>A	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDS6|Q7Z4G7	Silent	SNP	ENST00000326446.5	37	CCDS2197.1																																																																																				0.652	ARL6IP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254852.3	NM_152522		A	153573942	G	A	153573942	1	1	657	0	1	0	0	0	0	0	0	0	12581	1306	46	2		2	PRPF40A	2	153573942	5'Flank	SNP	G	TCGA-KN-8421-01A-11D-2310-10	17100676	153573942	89625431	9	40741										
SCN3A	6328	broad.mit.edu;mdanderson.org	37	chr2	165987817	165987817	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	agaccaagctccattaaactGaggctgacaataattccatc	6	11	0	3			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr2:165987817G>T	ENST00000360093.3	-	16	2993	c.2502C>A	c.(2500-2502)ctC>ctA	p.L834L	SCN3A_ENST00000283254.7_Silent_p.L834L|SCN3A_ENST00000409101.3_Silent_p.L785L	NM_001081677.1	NP_001075146.1	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha subunit	834					membrane depolarization during action potential (GO:0086010)|neuronal action potential (GO:0019228)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)			NS(1)|breast(7)|central_nervous_system(2)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(19)|liver(2)|lung(47)|ovary(6)|prostate(3)|skin(10)|upper_aerodigestive_tract(4)|urinary_tract(3)	120					Lacosamide(DB06218)|Valproic Acid(DB00313)|Zonisamide(DB00909)	CCATTAAACTGAGGCTGACAA	0.403																																																0													115	113	114					2																	165987817		2203	4300	6503	SO:0001819	synonymous_variant	6328			AF035685	CCDS33312.1, CCDS46440.1	2q24	2012-02-26	2007-01-23		ENSG00000153253	ENSG00000153253		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10590	protein-coding gene	gene with protein product		182391	"sodium channel, voltage-gated, type III, alpha polypeptide"			9589372, 16382098	Standard	NM_001081676		Approved	Nav1.3	uc002ucx.3	Q9NY46	OTTHUMG00000044171	ENST00000360093.3:c.2502C>A	2.37:g.165987817G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q16142|Q53SX0|Q9BZB3|Q9C006|Q9NYK2|Q9P2J1|Q9UPD1|Q9Y6P4	Silent	SNP	ENST00000360093.3	37																																																																																					0.403	SCN3A-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_006922		T	165987817	G	T	165987817	2	4	657	1	0	0	0	0	0	0	0	1	13931	1277	45	4		4	SCN3A	2	165987817	Silent	SNP	G	TCGA-KN-8421-01A-11D-2310-10	12413875	165987817	77211556	10	40742										
FASTKD1	79675	bcgsc.ca	37	chr2	170393737	170393737	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	taacctacccaataacttacCtactttgtggtaataaggcg	6	10	0	0	rs139576803		TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr2:170393737C>T	ENST00000453153.2	-	12	2534	c.2188G>A	c.(2188-2190)Gat>Aat	p.D730N	FASTKD1_ENST00000453929.2_Splice_Site_p.D687N|FASTKD1_ENST00000495505.1_Intron	NM_024622.3	NP_078898.3	Q53R41	FAKD1_HUMAN	FAST kinase domains 1	730					cellular respiration (GO:0045333)	mitochondrion (GO:0005739)	poly(A) RNA binding (GO:0044822)|protein kinase activity (GO:0004672)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(5)|large_intestine(10)|lung(9)|ovary(4)|prostate(3)	37						AATAACTTACCTACTTTGTGG	0.313																																																0																																										SO:0001630	splice_region_variant	79675			AL832058	CCDS33318.1, CCDS63051.1	2q31.1	2008-02-05			ENSG00000138399	ENSG00000138399			26150	protein-coding gene	gene with protein product						11347906	Standard	NM_024622		Approved	FLJ21901	uc002uev.4	Q53R41	OTTHUMG00000154953	ENST00000453153.2:c.2188+1G>A	2.37:g.170393737C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N583|Q8TEA9|Q96JM5|Q96N71|Q9H6T4	Missense_Mutation	SNP	ENST00000453153.2	37	CCDS33318.1	.	.	.	.	.	.	.	.	.	.	C	22.9	4.349299	0.82132	.	.	ENSG00000138399	ENST00000453153;ENST00000453929	T;T	0.78126	-1.15;-1.15	5.63	3.78	0.43462	FAST kinase-like protein, subdomain 2 (1);	0.177498	0.64402	D	0.000013	D	0.87111	0.6096	M	0.82716	2.605	0.58432	D	0.99999	D;D	0.71674	0.997;0.998	D;D	0.68353	0.928;0.957	D	0.87499	0.2432	10	0.72032	D	0.01	-0.4604	11.836	0.52323	0.1385:0.7284:0.133:0.0	.	687;730	Q53R41-2;Q53R41	.;FAKD1_HUMAN	N	730;687	ENSP00000400513:D730N;ENSP00000403229:D687N	ENSP00000400513:D730N	D	-	1	0	FASTKD1	170101983	1.000000	0.71417	0.995000	0.50966	0.813000	0.45954	4.060000	0.57477	0.697000	0.31718	0.491000	0.48974	GAT		0.313	FASTKD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000337788.2	NM_024622	Missense_Mutation	T	170393737	C	T	170393737	5	4	657	1	0	0	0	0	0	0	1	0	5692	695	24	2	371	2	FASTKD1	2	170393737	Splice_Site	SNP	C	TCGA-KN-8421-01A-11D-2310-10	4405920	170393737	72805636	11	40743										
TTN	7273	broad.mit.edu	37	chr2	179401232	179401232	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	cctccatcactggcaggtggCttccaggccacaacacaaga	9	15	1	1			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr2:179401232C>T	ENST00000591111.1	-	307	95543	c.95319G>A	c.(95317-95319)aaG>aaA	p.K31773K	TTN-AS1_ENST00000585487.1_RNA|TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000592689.1_RNA|TTN-AS1_ENST00000592836.1_RNA|TTN_ENST00000342175.6_Silent_p.K24541K|TTN-AS1_ENST00000588244.1_RNA|TTN-AS1_ENST00000590807.1_RNA|TTN-AS1_ENST00000588257.1_RNA|TTN-AS1_ENST00000586831.1_RNA|TTN-AS1_ENST00000431259.2_RNA|TTN-AS1_ENST00000591867.1_RNA|TTN-AS1_ENST00000589434.1_RNA|TTN-AS1_ENST00000592630.1_RNA|TTN-AS1_ENST00000589391.1_RNA|TTN-AS1_ENST00000586707.1_RNA|TTN_ENST00000359218.5_Silent_p.K24474K|TTN-AS1_ENST00000588716.1_RNA|TTN_ENST00000460472.2_Silent_p.K24349K|TTN-AS1_ENST00000415561.1_RNA|TTN-AS1_ENST00000589842.1_RNA|TTN-AS1_ENST00000585358.1_RNA|TTN-AS1_ENST00000591466.1_RNA|TTN-AS1_ENST00000592750.1_RNA|TTN-AS1_ENST00000591332.1_RNA|TTN-AS1_ENST00000592600.1_RNA|TTN_ENST00000342992.6_Silent_p.K30846K|TTN-AS1_ENST00000419746.1_RNA|TTN-AS1_ENST00000592182.1_RNA|TTN-AS1_ENST00000588804.1_RNA|TTN-AS1_ENST00000586452.1_RNA|TTN-AS1_ENST00000456053.1_RNA|TTN-AS1_ENST00000450692.2_RNA|TTN-AS1_ENST00000590040.1_RNA|TTN-AS1_ENST00000442329.2_RNA|TTN_ENST00000589042.1_Silent_p.K33414K			Q8WZ42	TITIN_HUMAN	titin	31773	Fibronectin type-III 131. {ECO:0000255|PROSITE-ProRule:PRU00316}.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGCAGGTGGCTTCCAGGCCA	0.403																																																0													68	67	67					2																	179401232		1840	4101	5941	SO:0001819	synonymous_variant	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.95319G>A	2.37:g.179401232C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Silent	SNP	ENST00000591111.1	37																																																																																					0.403	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		T	179401232	C	T	179401232	2	4	657	1	0	0	0	0	0	0	0	1	16747	796	28	2		2	TTN	2	179401232	Silent	SNP	C	TCGA-KN-8421-01A-11D-2310-10	9007495	179401232	63798141	12	40744										
WDR52	55779	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	113114596	113114596	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	agacaaataataatgacttaCatgagacatgggagaccaca	8	7	0	4			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr3:113114596C>T	ENST00000295868.2	-	15	2053		c.e15+1		WDR52_ENST00000475568.1_Splice_Site|WDR52_ENST00000393845.2_Splice_Site	NM_018338.3	NP_060808.2														breast(2)|central_nervous_system(3)|endometrium(3)|kidney(5)|large_intestine(7)|lung(26)|prostate(1)|urinary_tract(2)	49						TAATGACTTACATGAGACATG	0.358																																																0													116	110	112					3																	113114596		2203	4300	6503	SO:0001630	splice_region_variant	55779																														ENST00000295868.2:c.1890+1G>A	3.37:g.113114596C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Splice_Site	SNP	ENST00000295868.2	37	CCDS2972.1	.	.	.	.	.	.	.	.	.	.	C	15.97	2.988779	0.53934	.	.	ENSG00000206530	ENST00000393845;ENST00000295868	.	.	.	5.18	5.18	0.71444	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	18.5256	0.90971	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	WDR52	114597286	1.000000	0.71417	1.000000	0.80357	0.512000	0.34134	6.419000	0.73345	2.719000	0.93026	0.650000	0.86243	.		0.358	WDR52-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000354128.3		Intron	T	113114596	C	T	113114596	5	4	657	1	0	0	0	0	0	0	1	0	17316	492	17	2	3772	2	WDR52	3	113114596	Splice_Site	SNP	C	TCGA-KN-8421-01A-11D-2310-10		113114596	84907834	13	40745										
TLR1	7096	hgsc.bcm.edu	37	chr4	38798159	38798159	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	agttagcccaaaaaaggccaCgtttgctcttttccttgggc	9	11	1	0			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr4:38798159C>T	ENST00000502213.2	-	3	2523	c.2294G>A	c.(2293-2295)cGt>cAt	p.R765H	TLR1_ENST00000308979.2_Missense_Mutation_p.R765H|TLR1_ENST00000510552.1_5'Flank			Q15399	TLR1_HUMAN	toll-like receptor 1	765	TIR. {ECO:0000255|PROSITE- ProRule:PRU00204}.				cellular response to triacyl bacterial lipopeptide (GO:0071727)|detection of triacyl bacterial lipopeptide (GO:0042495)|immune response (GO:0006955)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|macrophage activation (GO:0042116)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|positive regulation of interleukin-6 biosynthetic process (GO:0045410)|positive regulation of tumor necrosis factor biosynthetic process (GO:0042535)|regulation of cytokine secretion (GO:0050707)|signal transduction (GO:0007165)|toll-like receptor 1 signaling pathway (GO:0034130)	cytoplasmic vesicle (GO:0031410)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)|Toll-like receptor 1-Toll-like receptor 2 protein complex (GO:0035354)	protein heterodimerization activity (GO:0046982)|receptor activity (GO:0004872)|transmembrane signaling receptor activity (GO:0004888)	p.R765H(1)		cervix(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(11)|ovary(1)|prostate(1)|skin(4)|stomach(2)	28						AAAAAGGCCACGTTTGCTCTT	0.423																																					GBM(5;216 373 40795 46382)											1	Substitution - Missense(1)	lung(1)											93	87	89					4																	38798159		2203	4300	6503	SO:0001583	missense	7096			U88540	CCDS33973.1	4p14	2008-02-05				ENSG00000174125		"CD molecules"	11847	protein-coding gene	gene with protein product		601194				9435236, 7584026	Standard	NM_003263		Approved	rsc786, KIAA0012, CD281	uc003gtl.3	Q15399		ENST00000502213.2:c.2294G>A	4.37:g.38798159C>T	ENSP00000421259:p.Arg765His	Somatic		WXS	Illumina HiSeq	Phase_I	D1CS39|D1CS41|O15452|Q32MK3|Q32MK4|Q9UG90	Missense_Mutation	SNP	ENST00000502213.2	37	CCDS33973.1	.	.	.	.	.	.	.	.	.	.	C	0.008	-1.890829	0.00527	.	.	ENSG00000174125	ENST00000308979;ENST00000502213	D;D	0.83419	-1.72;-1.72	5.1	1.3	0.21679	Toll/interleukin-1 receptor homology (TIR) domain (4);	0.370723	0.25369	N	0.031163	T	0.61362	0.2341	N	0.12831	0.26	0.31308	N	0.687515	B	0.02656	0.0	B	0.01281	0.0	T	0.53129	-0.8482	10	0.02654	T	1	.	9.444	0.38686	0.0:0.2814:0.0:0.7186	.	765	Q15399	TLR1_HUMAN	H	765	ENSP00000354932:R765H;ENSP00000421259:R765H	ENSP00000354932:R765H	R	-	2	0	TLR1	38474554	0.768000	0.28519	0.998000	0.56505	0.163000	0.22366	1.128000	0.31369	0.073000	0.16731	-1.166000	0.01754	CGT		0.423	TLR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360510.3			T	38798159	C	T	38798159	3	4	657	1	0	0	0	0	1	0	0	0	15961	536	19	1	70	1	TLR1	4	38798159	Missense_Mutation	SNP	C	TCGA-KN-8421-01A-11D-2310-10		38798159	152356117	14	40746										
DSPP	1834	mdanderson.org	37	chr4	88537088	88537088	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	gtgatagcagtgacagcagcAatagcagtgacagcagcgat	13	8	0	3	rs201754564	byFrequency	TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr4:88537088A>G	ENST00000282478.7	+	4	3307	c.3274A>G	c.(3274-3276)Aat>Gat	p.N1092D	RP11-742B18.1_ENST00000506480.1_RNA|DSPP_ENST00000399271.1_Missense_Mutation_p.N1092D			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	1092	Asp/Ser-rich.			Missing (in Ref. 1; AAF42472 and 3; AAD16120). {ECO:0000305}.	biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		tgacagcagcaatagcagtga	0.542													G|||	3443	0.6875	0.8207	0.7291	5008	,	,		11661	0.6498		0.671	False		,,,				2504	0.5337															0													20	29	26					4																	88537088		783	1640	2423	SO:0001583	missense	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.3274A>G	4.37:g.88537088A>G	ENSP00000282478:p.Asn1092Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	Missense_Mutation	SNP	ENST00000282478.7	37	CCDS43248.1	.	.	.	.	.	.	.	.	.	.	g	2.684	-0.274594	0.05679	.	.	ENSG00000152591	ENST00000399271;ENST00000282478	D;D	0.87887	-2.31;-2.31	1.51	-0.39	0.12450	.	.	.	.	.	T	0.62466	0.2430	N	0.02539	-0.55	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.54456	-0.8291	8	0.07644	T	0.81	.	5.2031	0.15275	0.5656:0.0:0.4344:0.0	.	1092	Q9NZW4	DSPP_HUMAN	D	1092	ENSP00000382213:N1092D;ENSP00000282478:N1092D	ENSP00000282478:N1092D	N	+	1	0	DSPP	88756112	0.033000	0.19621	0.000000	0.03702	0.001000	0.01503	-0.014000	0.12656	-0.601000	0.05783	-2.064000	0.00396	AAT		0.542	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		G	88537088	A	G	88537088	3	3	657	1	0	0	0	0	1	0	0	0	4784	130	5	3	3288	3	DSPP	4	88537088	Missense_Mutation	SNP	A	TCGA-KN-8421-01A-11D-2310-10	49738929	88537088	102617188	15	40747										
POMZP3	22932	mdanderson.org	37	chr7	76255328	76255328	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	aatactcacatcgcagaacgCgaaaatcttctgtcaggagg	9	10	4	1	rs199608185		TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr7:76255328C>T	ENST00000310842.4	-	2	738	c.54G>A	c.(52-54)tcG>tcA	p.S18S	POMZP3_ENST00000275569.4_Silent_p.S18S|UPK3B_ENST00000443097.2_Intron|AC004980.7_ENST00000418663.1_RNA|UPK3B_ENST00000419923.2_Intron	NM_012230.3	NP_036362.3	Q6PJE2	POZP3_HUMAN	POM121 and ZP3 fusion	18										kidney(3)|lung(2)	5		Myeloproliferative disorder(862;0.204)				TCGCAGAACGCGAAAATCTTC	0.483																																																0													106	78	87					7																	76255328		2202	4300	6502	SO:0001819	synonymous_variant	22932			U10099	CCDS5590.1, CCDS43606.1	7q11.2	2010-06-24	2010-06-24		ENSG00000146707	ENSG00000146707			9203	protein-coding gene	gene with protein product	"POM-ZP3 fusion protein", "POM121/ZP3 fusion protein"	600587	"POM (POM121 rat homolog) and ZP3 fusion", "POM (POM121 homolog, rat) and ZP3 fusion"			7789967	Standard	NM_012230		Approved	POM-ZP3, POM121	uc003uft.3	Q6PJE2	OTTHUMG00000023514	ENST00000310842.4:c.54G>A	7.37:g.76255328C>T		Somatic		WXS	Illumina HiSeq	Phase_I	F6STJ3|Q12903|Q9BWB4	Silent	SNP	ENST00000310842.4	37	CCDS43606.1																																																																																				0.483	POMZP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341775.1	NM_012230		T	76255328	C	T	76255328	2	4	657	1	0	0	0	0	0	0	0	1	12254	755	27	1		1	POMZP3	7	76255328	Silent	SNP	C	TCGA-KN-8421-01A-11D-2310-10		76255328	82883335	16	40748										
PCLO	27445	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	82579951	82579951	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	ttccagaagggtcatagttaTactggtagatctgccgaatc	10	8	2	2	rs376865880		TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr7:82579951T>C	ENST00000333891.9	-	6	10290	c.9953A>G	c.(9952-9954)tAt>tGt	p.Y3318C	PCLO_ENST00000423517.2_Missense_Mutation_p.Y3318C|PCLO_ENST00000437081.1_Missense_Mutation_p.Y38C	NM_033026.5	NP_149015.2			piccolo presynaptic cytomatrix protein											breast(3)|central_nervous_system(3)|cervix(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(3)|kidney(19)|large_intestine(35)|lung(145)|ovary(7)|prostate(4)|upper_aerodigestive_tract(14)|urinary_tract(2)	259						GTCATAGTTATACTGGTAGAT	0.483																																																0								T	CYS/TYR,CYS/TYR	1,3899		0,1,1949	136	126	129		9953,9953	5.3	1	7		129	0,8304		0,0,4152	no	missense,missense	PCLO	NM_014510.2,NM_033026.5	194,194	0,1,6101	CC,CT,TT		0.0,0.0256,0.0082	probably-damaging,probably-damaging	3318/4936,3318/5143	82579951	1,12203	1950	4152	6102	SO:0001583	missense	27445			AB011131	CCDS47630.1, CCDS47631.1	7q11.23-q21.3	2013-01-07	2013-01-07		ENSG00000186472	ENSG00000186472			13406	protein-coding gene	gene with protein product	"aczonin"	604918	"piccolo (presynaptic cytomatrix protein)"			8900486, 9628581	Standard	NM_014510		Approved	KIAA0559, DKFZp779G1236, ACZ	uc003uhx.2	Q9Y6V0	OTTHUMG00000154853	ENST00000333891.9:c.9953A>G	7.37:g.82579951T>C	ENSP00000334319:p.Tyr3318Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000333891.9	37	CCDS47630.1	.	.	.	.	.	.	.	.	.	.	T	13.49	2.253482	0.39797	2.56E-4	0.0	ENSG00000186472	ENST00000431819;ENST00000333891;ENST00000423517;ENST00000437081	T;T;T	0.35236	2.26;2.26;1.32	5.29	5.29	0.74685	.	.	.	.	.	T	0.56499	0.1989	L	0.59436	1.845	0.40882	D	0.984007	D;D;D	0.89917	0.999;1.0;1.0	P;D;D	0.73380	0.887;0.98;0.98	T	0.61397	-0.7071	9	0.87932	D	0	.	15.5102	0.75776	0.0:0.0:0.0:1.0	.	3249;3318;3318	Q9Y6V0;Q9Y6V0-5;Q9Y6V0-6	PCLO_HUMAN;.;.	C	3249;3318;3318;38	ENSP00000334319:Y3318C;ENSP00000388393:Y3318C;ENSP00000393760:Y38C	ENSP00000334319:Y3318C	Y	-	2	0	PCLO	82417887	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.672000	0.74477	2.128000	0.65567	0.460000	0.39030	TAT		0.483	PCLO-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337368.5	NM_014510		C	82579951	T	C	82579951	3	2	657	1	0	0	0	0	1	0	0	0	11590	1406	49	3	5572	3	PCLO	7	82579951	Missense_Mutation	SNP	T	TCGA-KN-8421-01A-11D-2310-10	6324623	82579951	76558712	17	40749										
C7orf51	222950	broad.mit.edu	37	chr7	100087171	100087171	+	Silent	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	atctcctgtgcccacgtcatCgccagcgcagggacaccaga	10	16	2	1	rs141655359	byFrequency	TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr7:100087171C>A	ENST00000300179.2	+	4	1986	c.1827C>A	c.(1825-1827)atC>atA	p.I609I	NYAP1_ENST00000423930.1_Silent_p.I609I|NYAP1_ENST00000454988.1_Silent_p.I552I	NM_173564.2	NP_775835.2	Q6ZVC0	NYAP1_HUMAN	neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adaptor 1	609					neuron projection morphogenesis (GO:0048812)|phosphatidylinositol 3-kinase signaling (GO:0014065)			p.I609I(1)									CCCACGTCATCGCCAGCGCAG	0.642																																																1	Substitution - coding silent(1)	lung(1)											44	47	46					7																	100087171		2203	4299	6502	SO:0001819	synonymous_variant	222950			AK094857	CCDS5696.1	7q22.1	2011-11-30	2011-11-30	2011-11-30	ENSG00000166924	ENSG00000166924			22009	protein-coding gene	gene with protein product		615477	"chromosome 7 open reading frame 51", "KIAA1486-like"	C7orf51, KIAA1486L		21946561	Standard	NM_173564		Approved	FLJ37538	uc003uvd.2	Q6ZVC0	OTTHUMG00000155290	ENST00000300179.2:c.1827C>A	7.37:g.100087171C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6U9Y3|Q8N1V0	Silent	SNP	ENST00000300179.2	37	CCDS5696.1																																																																																				0.642	NYAP1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000339335.2	NM_173564		A	100087171	C	A	100087171	2	1	657	1	0	0	0	0	0	0	0	1	2402	874	31	4		4	C7orf51	7	100087171	Silent	SNP	C	TCGA-KN-8421-01A-11D-2310-10	17507220	100087171	59051492	18	40750										
FAM86B1	85002	mdanderson.org	37	chr8	12044010	12044010	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	cattgagaaggacattccctCggagctgctcgaggacccgg	13	12	0	1	rs201876260	byFrequency	TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr8:12044010C>T	ENST00000448228.2	-	5	540	c.491G>A	c.(490-492)cGa>cAa	p.R164Q	FAM86B1_ENST00000533513.1_3'UTR|FAM86B1_ENST00000321602.8_Intron|FAM86B1_ENST00000534520.1_Intron|FAM86B1_ENST00000533852.2_Missense_Mutation_p.R198Q	NM_001083537.1	NP_001077006.1	Q8N7N1	F86B1_HUMAN	family with sequence similarity 86, member B1	164										kidney(1)|prostate(1)|stomach(1)	3			STAD - Stomach adenocarcinoma(15;0.033)	COAD - Colon adenocarcinoma(149;0.0965)		GACATTCCCTCGGAGCTGCTC	0.617																																																0													39	43	42					8																	12044010		1489	2646	4135	SO:0001583	missense	85002			BC007983	CCDS59512.1	8p23.1	2014-02-12	2005-08-19		ENSG00000186523	ENSG00000186523			28268	protein-coding gene	gene with protein product						12477932	Standard	NM_001083537		Approved	MGC16279	uc010lse.3	Q8N7N1	OTTHUMG00000165298	ENST00000448228.2:c.491G>A	8.37:g.12044010C>T	ENSP00000407067:p.Arg164Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000448228.2	37	CCDS59512.1	.	.	.	.	.	.	.	.	.	.	-	11.09	1.537041	0.27475	.	.	ENSG00000186523	ENST00000431227;ENST00000448228;ENST00000526708	T	0.20881	2.04	1.17	1.17	0.20885	.	.	.	.	.	T	0.12689	0.0308	L	0.33624	1.015	0.80722	D	1	B;B	0.32573	0.376;0.123	B;B	0.28385	0.089;0.046	T	0.13124	-1.0521	9	0.24483	T	0.36	.	8.2654	0.31810	0.0:1.0:0.0:0.0	.	164;198	Q8N7N1;E9PN63	F86B1_HUMAN;.	Q	198;164;198	ENSP00000407067:R164Q	ENSP00000444227:R198Q	R	-	2	0	FAM86B1	12081419	0.000000	0.05858	0.202000	0.23494	0.276000	0.26787	-0.432000	0.06956	0.950000	0.37743	0.173000	0.16961	CGA		0.617	FAM86B1-016	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000383317.1	NM_032916		T	12044010	C	T	12044010	3	4	657	1	0	0	0	0	1	0	0	0	5651	884	31	1	411	1	FAM86B1	8	12044010	Missense_Mutation	SNP	C	TCGA-KN-8421-01A-11D-2310-10		12044010	134320012	19	40751										
MYC	4609	broad.mit.edu	37	chr8	128752827	128752827	+	Frame_Shift_Del	DEL	A	A	-													0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	actacgcagcgcctccctccActcggaaggactatcctgct							TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr8:128752827delA	ENST00000377970.2	+	3	1498	c.988delA	c.(988-990)actfs	p.T330fs	MYC_ENST00000524013.1_Frame_Shift_Del_p.T329fs	NM_002467.4	NP_002458	P01106	MYC_HUMAN	v-myc avian myelocytomatosis viral oncogene homolog	315					branching involved in ureteric bud morphogenesis (GO:0001658)|canonical Wnt signaling pathway (GO:0060070)|cell cycle arrest (GO:0007050)|cellular iron ion homeostasis (GO:0006879)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to UV (GO:0034644)|chromatin remodeling (GO:0006338)|chromosome organization (GO:0051276)|energy reserve metabolic process (GO:0006112)|fibroblast apoptotic process (GO:0044346)|gene expression (GO:0010467)|MAPK cascade (GO:0000165)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell division (GO:0051782)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of monocyte differentiation (GO:0045656)|negative regulation of stress-activated MAPK cascade (GO:0032873)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|oxygen transport (GO:0015671)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of DNA biosynthetic process (GO:2000573)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of metanephric cap mesenchymal cell proliferation (GO:0090096)|positive regulation of response to DNA damage stimulus (GO:2001022)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of gene expression (GO:0010468)|regulation of telomere maintenance (GO:0032204)|response to drug (GO:0042493)|response to gamma radiation (GO:0010332)|response to growth factor (GO:0070848)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|protein complex (GO:0043234)	DNA binding (GO:0003677)|E-box binding (GO:0070888)|protein complex binding (GO:0032403)|repressing transcription factor binding (GO:0070491)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)			central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|lung(7)|ovary(1)|pancreas(1)|skin(1)|urinary_tract(1)	16	all_cancers(1;6.19e-134)|all_epithelial(1;1.75e-119)|all_lung(1;5.66e-51)|Breast(1;1.08e-22)|all_neural(1;4.45e-21)|Medulloblastoma(1;1.88e-20)|Colorectal(1;1.92e-09)|Lung SC(1;4.52e-07)|Ovarian(5;0.000122)|Esophageal squamous(12;0.000995)|Renal(1;0.0921)|Hepatocellular(40;0.108)|Myeloproliferative disorder(2;0.135)|Melanoma(291;0.185)	Myeloproliferative disorder(644;0.0255)|Ovarian(118;0.0654)|Breast(495;0.212)|Acute lymphoblastic leukemia(644;0.22)	Epithelial(1;1.63e-94)|all cancers(1;5.82e-87)|OV - Ovarian serous cystadenocarcinoma(1;2.12e-71)|BRCA - Breast invasive adenocarcinoma(1;4.3e-14)|Lung(2;0.000381)|Colorectal(2;0.0102)|LUAD - Lung adenocarcinoma(14;0.0172)|READ - Rectum adenocarcinoma(2;0.0723)|LUSC - Lung squamous cell carcinoma(258;0.151)	KIRC - Kidney renal clear cell carcinoma(542;0.248)	Nadroparin(DB08813)	GCCTCCCTCCACTCGGAAGGA	0.577		3	"A, T"	"IGK@, BCL5, BCL7A , BTG1, TRA@, IGH@"	"Burkitt lymphoma,  amplified in other cancers, B-CLL"																																		Dom	yes		8	8q24.12-q24.13	4609	v-myc myelocytomatosis viral oncogene homolog (avian)		"L, E"	0													81	63	69					8																	128752827		2203	4300	6503	SO:0001589	frameshift_variant	4609				CCDS6359.2	8q24	2013-07-09	2013-07-09		ENSG00000136997	ENSG00000136997		"Basic helix-loop-helix proteins"	7553	protein-coding gene	gene with protein product		190080					Standard	NM_002467		Approved	c-Myc, bHLHe39, MYCC	uc003ysi.3	P01106	OTTHUMG00000128475	ENST00000377970.2:c.988delA	8.37:g.128752827delA	ENSP00000367207:p.Thr330fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8WFE7|P01107|Q14026	Frame_Shift_Del	DEL	ENST00000377970.2	37	CCDS6359.2																																																																																				0.577	MYC-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000250277.3			-	128752827	A	-	128752827	7	5	657	1	0	1	0	1	0	0	0	0	10023	159	6	0	998	0	MYC	8	128752827	Frame_Shift_Del	DEL	A	TCGA-KN-8421-01A-11D-2310-10	116708817	128752827	17611195	20	40752										
ARC	23237	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr8	143694490	143694490	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	acggactcgctgttgggggcGggcgtgagggtctccgcctc	18	12	1	1			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr8:143694490G>A	ENST00000356613.2	-	1	2343	c.1143C>T	c.(1141-1143)ccC>ccT	p.P381P	ARC_ENST00000581404.1_5'Flank	NM_015193.4	NP_056008.1	O60936	NOL3_HUMAN	activity-regulated cytoskeleton-associated protein	0					apoptotic process (GO:0006915)|mRNA processing (GO:0006397)|negative regulation of apoptotic process (GO:0043066)|regulation of gene expression (GO:0010468)|response to hypoxia (GO:0001666)|response to injury involved in regulation of muscle adaptation (GO:0014876)|RNA splicing (GO:0008380)	cytosol (GO:0005829)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|sarcoplasm (GO:0016528)	identical protein binding (GO:0042802)|RNA binding (GO:0003723)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(4)|lung(3)|upper_aerodigestive_tract(1)	13	all_cancers(97;3.55e-12)|all_epithelial(106;1.03e-08)|Lung NSC(106;0.000353)|all_lung(105;0.00092)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.0279)				TGTTGGGGGCGGGCGTGAGGG	0.706																																																0													7	9	8					8																	143694490		2150	4240	6390	SO:0001819	synonymous_variant	23237			AF193421	CCDS34950.1	8q24.3	2008-08-01			ENSG00000198576	ENSG00000198576			648	protein-coding gene	gene with protein product		612461				10970730, 17466953	Standard	NM_015193		Approved	KIAA0278, Arg3.1	uc003ywn.2	Q7LC44	OTTHUMG00000134310	ENST00000356613.2:c.1143C>T	8.37:g.143694490G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DFL0|O60937	Silent	SNP	ENST00000356613.2	37	CCDS34950.1																																																																																				0.706	ARC-001	KNOWN	NMD_exception|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000259274.2			A	143694490	G	A	143694490	2	1	657	1	0	0	0	0	0	0	0	1	841	1103	39	1		1	ARC	8	143694490	Silent	SNP	G	TCGA-KN-8421-01A-11D-2310-10	14941663	143694490	2669532	21	40753										
PLEC	5339	mdanderson.org	37	chr8	144996111	144996111	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	agtgcatcccggccattgggCagggtctttgtggcagccac	14	12	1	0	rs34803322	byFrequency	TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr8:144996111C>T	ENST00000322810.4	-	32	8458	c.8289G>A	c.(8287-8289)ctG>ctA	p.L2763L	PLEC_ENST00000357649.2_Silent_p.L2630L|PLEC_ENST00000436759.2_Silent_p.L2653L|PLEC_ENST00000354958.2_Silent_p.L2604L|PLEC_ENST00000398774.2_Silent_p.L2594L|PLEC_ENST00000345136.3_Silent_p.L2626L|PLEC_ENST00000356346.3_Silent_p.L2612L|PLEC_ENST00000527096.1_Silent_p.L2649L|PLEC_ENST00000354589.3_Silent_p.L2626L	NM_201380.2	NP_958782.1	Q15149	PLEC_HUMAN	plectin	2763	Globular 2.				apoptotic process (GO:0006915)|cell junction assembly (GO:0034329)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)	costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|intermediate filament cytoskeleton (GO:0045111)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcoplasm (GO:0016528)	ankyrin binding (GO:0030506)|poly(A) RNA binding (GO:0044822)|structural constituent of muscle (GO:0008307)			NS(1)|breast(3)|central_nervous_system(4)|cervix(7)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(8)|lung(57)|ovary(4)|pancreas(2)|prostate(11)|skin(9)|stomach(2)|upper_aerodigestive_tract(10)	137						GGCCATTGGGCAGGGTCTTTG	0.687													C|||	373	0.0744808	0.0121	0.147	5008	,	,		17788	0.0456		0.0626	False		,,,				2504	0.1493															0								C	,,,,,,,	66,4038		1,64,1987	15	19	17		7959,7836,7812,8289,7782,7878,7890,7878	2.1	1	8	dbSNP_126	17	487,7773		10,467,3653	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	PLEC	NM_000445.3,NM_201378.2,NM_201379.1,NM_201380.2,NM_201381.1,NM_201382.2,NM_201383.1,NM_201384.1	,,,,,,,	11,531,5640	TT,TC,CC		5.8959,1.6082,4.4727	,,,,,,,	2653/4575,2612/4534,2604/4526,2763/4685,2594/4516,2626/4548,2630/4552,2626/4548	144996111	553,11811	2052	4130	6182	SO:0001819	synonymous_variant	5339			U53204	CCDS43769.1, CCDS43770.1, CCDS43771.1, CCDS43772.1, CCDS43773.1, CCDS43774.1, CCDS43775.1, CCDS47936.1	8q24	2010-02-04	2010-02-04	2010-02-04	ENSG00000178209	ENSG00000178209			9069	protein-coding gene	gene with protein product		601282	"plectin 1, intermediate filament binding protein, 500kD", "epidermolysis bullosa simplex 1 (Ogna)", "plectin 1, intermediate filament binding protein 500kDa"	EBS1, PLEC1		8633055, 8696340	Standard	XM_005250976		Approved	PCN, PLTN	uc003zaf.1	Q15149	OTTHUMG00000165291	ENST00000322810.4:c.8289G>A	8.37:g.144996111C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q15148|Q16640|Q6S376|Q6S377|Q6S378|Q6S379|Q6S380|Q6S381|Q6S382|Q6S383	Silent	SNP	ENST00000322810.4	37	CCDS43772.1	118	0.05402930402930403	3	0.006097560975609756	45	0.12430939226519337	19	0.033216783216783216	51	0.06728232189973615	C	0.062	-1.222671	0.01530	0.016082	0.058959	ENSG00000178209	ENST00000527303	.	.	.	3.95	2.09	0.27110	.	.	.	.	.	T	0.00845	0.0028	.	.	.	0.09310	P	0.9999999999999596	.	.	.	.	.	.	T	0.13469	-1.0508	3	.	.	.	.	8.6493	0.34025	0.0:0.7593:0.1535:0.0873	rs34803322;rs34803322	.	.	.	Y	196	.	.	C	-	2	0	PLEC	145068099	0.994000	0.37717	0.997000	0.53966	0.022000	0.10575	0.364000	0.20325	0.427000	0.26145	0.448000	0.29417	TGC		0.687	PLEC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383281.1	NM_000445		T	144996111	C	T	144996111	2	4	657	1	0	0	0	0	0	0	0	1	12059	697	25	2		2	PLEC	8	144996111	Silent	SNP	C	TCGA-KN-8421-01A-11D-2310-10	1301621	144996111	1367911	22	40754										
PTPRD	5789	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr9	8521528	8521528	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	tagtgggtgggatagagaatCttggtgggacacggcgaact	17	5	1	1			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr9:8521528C>G	ENST00000381196.4	-	17	1253	c.710G>C	c.(709-711)aGa>aCa	p.R237T	PTPRD_ENST00000358503.5_Missense_Mutation_p.R224T|PTPRD_ENST00000397617.3_Missense_Mutation_p.R227T|PTPRD_ENST00000355233.5_Missense_Mutation_p.R237T|PTPRD_ENST00000397606.3_Missense_Mutation_p.R227T|PTPRD_ENST00000537002.1_Missense_Mutation_p.R234T|PTPRD_ENST00000397611.3_Missense_Mutation_p.R234T|PTPRD_ENST00000356435.5_Missense_Mutation_p.R237T|PTPRD_ENST00000360074.4_Missense_Mutation_p.R224T|PTPRD_ENST00000540109.1_Missense_Mutation_p.R237T|PTPRD_ENST00000486161.1_Missense_Mutation_p.R237T	NM_002839.3	NP_002830.1	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	237	Ig-like C2-type 3.				heterophilic cell-cell adhesion (GO:0007157)|neuron differentiation (GO:0030182)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphate-containing compound metabolic process (GO:0006796)|positive regulation of dendrite morphogenesis (GO:0050775)|presynaptic membrane assembly (GO:0097105)|protein dephosphorylation (GO:0006470)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	cell adhesion molecule binding (GO:0050839)|receptor binding (GO:0005102)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(1)|breast(7)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(22)|liver(1)|lung(83)|ovary(4)|pancreas(1)|prostate(7)|skin(19)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	168		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)		GATAGAGAATCTTGGTGGGAC	0.448										TSP Lung(15;0.13)																																						0													102	87	92					9																	8521528		2203	4300	6503	SO:0001583	missense	5789			X54133	CCDS6472.1, CCDS43786.1, CCDS6472.2, CCDS55288.1, CCDS55289.1, CCDS55290.1, CCDS75813.1	9p24.1-p23	2013-02-11			ENSG00000153707	ENSG00000153707		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	9668	protein-coding gene	gene with protein product		601598				7896816, 8355697	Standard	NM_002839		Approved	PTPD, HPTP	uc003zkk.3	P23468	OTTHUMG00000021005	ENST00000381196.4:c.710G>C	9.37:g.8521528C>G	ENSP00000370593:p.Arg237Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALA0|F5GWT7|Q3KPJ0|Q3KPJ1|Q3KPJ2	Missense_Mutation	SNP	ENST00000381196.4	37	CCDS43786.1	.	.	.	.	.	.	.	.	.	.	C	23.8	4.463524	0.84425	.	.	ENSG00000153707	ENST00000381196;ENST00000356435;ENST00000360074;ENST00000358503;ENST00000355233;ENST00000397617;ENST00000397611;ENST00000537002;ENST00000346816;ENST00000540109;ENST00000486161;ENST00000397606	T;T;T;T;T;T;T;T;T;T;T	0.67171	-0.25;-0.25;-0.25;-0.25;-0.25;-0.25;-0.25;-0.25;-0.25;-0.25;-0.25	5.68	5.68	0.88126	Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	T	0.72653	0.3487	N	0.21142	0.635	0.80722	D	1	D;D;D;D;D;D;P;D;P	0.89917	1.0;1.0;0.999;1.0;0.994;1.0;0.764;1.0;0.802	D;D;D;D;P;D;B;D;P	0.81914	0.995;0.995;0.986;0.995;0.859;0.995;0.225;0.972;0.459	T	0.70037	-0.4982	9	.	.	.	.	19.7917	0.96461	0.0:1.0:0.0:0.0	.	227;231;237;237;234;234;224;237;237	Q3KPJ2;Q3KPI9;Q3KPJ0;Q3KPJ1;F5GWT7;F5GWY7;G3XAE2;Q2HXI4;P23468	.;.;.;.;.;.;.;.;PTPRD_HUMAN	T	237;237;224;224;237;227;234;234;237;237;237;227	ENSP00000370593:R237T;ENSP00000348812:R237T;ENSP00000353187:R224T;ENSP00000351293:R224T;ENSP00000347373:R237T;ENSP00000380741:R227T;ENSP00000380735:R234T;ENSP00000440515:R234T;ENSP00000438164:R237T;ENSP00000417093:R237T;ENSP00000380731:R227T	.	R	-	2	0	PTPRD	8511528	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.770000	0.85390	2.688000	0.91661	0.563000	0.77884	AGA		0.448	PTPRD-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055395.3			G	8521528	C	G	8521528	3	3	657	1	0	0	0	0	1	0	0	0	12812	913	32	4	5204	4	PTPRD	9	8521528	Missense_Mutation	SNP	C	TCGA-KN-8421-01A-11D-2310-10		8521528	132691903	23	40755										
PRSS3	5646	mdanderson.org	37	chr9	33798016	33798016	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	tccaccatctctctgcccacCacccctccagctgctggcac	5	22	2	0			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr9:33798016C>T	ENST00000361005.5	+	3	561	c.561C>T	c.(559-561)acC>acT	p.T187T	PRSS3_ENST00000429677.3_Silent_p.T123T|RP11-133O22.6_ENST00000454429.2_RNA|PRSS3_ENST00000342836.4_Silent_p.T144T|PRSS3_ENST00000379405.3_Silent_p.T130T	NM_007343.3	NP_031369	P35030	TRY3_HUMAN	protease, serine, 3	187	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|endothelial cell migration (GO:0043542)|innate immune response (GO:0045087)|proteolysis (GO:0006508)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)|zymogen activation (GO:0031638)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			large_intestine(3)|lung(4)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	13			LUSC - Lung squamous cell carcinoma(29;0.0176)			CTCTGCCCACCACCCCTCCAG	0.562																																																0													177	135	149					9																	33798016		2203	4300	6503	SO:0001819	synonymous_variant	5646				CCDS6545.1, CCDS47958.1, CCDS56570.1, CCDS56571.1	9p13	2010-05-07	2008-03-11		ENSG00000010438	ENSG00000010438	3.4.21.4	"Serine peptidases / Serine peptidases"	9486	protein-coding gene	gene with protein product	"mesotrypsin"	613578	"protease, serine, 4 (trypsin 4, brain)", "protease, serine, 3 (mesotrypsin)"	PRSS4		2326201, 8294000	Standard	NM_002771		Approved	TRY3, TRY4	uc003ztj.4	P35030	OTTHUMG00000019798	ENST00000361005.5:c.561C>T	9.37:g.33798016C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8CED1|A8CED3|A9Z1Y4|E7ES07|F8W7P3|P15951|Q15665|Q5VXV0|Q6ISJ4|Q9UQV3	Silent	SNP	ENST00000361005.5	37	CCDS47958.1																																																																																				0.562	PRSS3-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000052121.1	NM_002771		T	33798016	C	T	33798016	2	4	657	1	0	0	0	0	0	0	0	1	12632	581	21	2		2	PRSS3	9	33798016	Silent	SNP	C	TCGA-KN-8421-01A-11D-2310-10	25276488	33798016	107415415	24	40756										
FAM120AOS	158293	mdanderson.org	37	chr9	96214928	96214928	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	gacacttgagggctgggagaGagccccggaccagaattcgg	16	10	0	3	rs1055710	byFrequency	TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr9:96214928G>A	ENST00000375412.5	-	1	946	c.64C>T	c.(64-66)Ctc>Ttc	p.L22F	FAM120A_ENST00000375389.3_Intron|FAM120A_ENST00000340893.4_Intron|FAM120AOS_ENST00000479094.1_5'Flank|FAM120AOS_ENST00000423591.1_5'Flank|FAM120A_ENST00000333936.5_Intron|FAM120A_ENST00000277165.6_Intron	NM_198841.2	NP_942138.2	Q5T036	F120S_HUMAN	family with sequence similarity 120A opposite strand	22			L -> F (in dbSNP:rs1055710). {ECO:0000269|PubMed:14702039}.							kidney(1)|large_intestine(1)|lung(3)|skin(1)	6						GGCTGGGAGAGAGCCCCGGAC	0.627													G|||	1451	0.289736	0.2247	0.33	5008	,	,		14673	0.4187		0.3509	False		,,,				2504	0.1534															0								G	,PHE/LEU	862,3084		96,670,1207	22	25	24		,64	-6.6	0	9	dbSNP_86	24	2380,5512		372,1636,1938	yes	intron,missense	FAM120A,FAM120AOS	NM_014612.3,NM_198841.2	,22	468,2306,3145	AA,AG,GG		30.1571,21.8449,27.3864	,benign	,22/257	96214928	3242,8596	1973	3946	5919	SO:0001583	missense	158293			AK056096	CCDS6705.1	9q22.32	2008-02-05	2006-07-04	2006-07-04	ENSG00000188938	ENSG00000188938			23389	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 10 opposite strand"	C9orf10OS		14585507	Standard	NM_198841		Approved		uc004atu.4	Q5T036	OTTHUMG00000020251	ENST00000375412.5:c.64C>T	9.37:g.96214928G>A	ENSP00000364561:p.Leu22Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A6NN20	Missense_Mutation	SNP	ENST00000375412.5	37	CCDS6705.1	781	0.3576007326007326	114	0.23170731707317074	137	0.3784530386740331	258	0.45104895104895104	272	0.35883905013192613	G	13.52	2.262325	0.39995	0.218449	0.301571	ENSG00000188938	ENST00000375412	T	0.55588	0.51	3.32	-6.63	0.01807	.	.	.	.	.	T	0.00012	0.0000	N	0.08118	0	0.58432	P	2.9999999999752447E-6	B	0.20780	0.048	B	0.16289	0.015	T	0.41052	-0.9530	8	0.32370	T	0.25	.	2.1198	0.03723	0.1008:0.2486:0.2257:0.4248	rs1055710;rs3196205;rs58279967;rs1055710	22	Q5T036	F120S_HUMAN	F	22	ENSP00000364561:L22F	ENSP00000364561:L22F	L	-	1	0	FAM120AOS	95254749	0.000000	0.05858	0.000000	0.03702	0.011000	0.07611	-1.624000	0.02038	-1.502000	0.01814	0.591000	0.81541	CTC		0.627	FAM120AOS-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053154.1			A	96214928	G	A	96214928	3	1	657	1	0	0	0	0	1	0	0	0	5420	942	33	2	718	2	FAM120AOS	9	96214928	Missense_Mutation	SNP	G	TCGA-KN-8421-01A-11D-2310-10	62416912	96214928	44998503	25	40757										
MUC6	4588	mdanderson.org	37	chr11	1017684	1017684	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	tggtggtagaagttgaggtgGcttcagcatggtgtgtggag	19	3	1	2	rs112886536	byFrequency	TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr11:1017684G>A	ENST00000421673.2	-	31	5167	c.5117C>T	c.(5116-5118)gCc>gTc	p.A1706V		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1706	Approximate repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		AGTTGAGGTGGCTTCAGCATG	0.552																																																0								A	VAL/ALA	52,4350	752.1+/-412.3	0,52,2149	681	675	677		5117	-2.6	0	11	dbSNP_132	677	13,8559	797.0+/-407.5	0,13,4273	no	missense	MUC6	NM_005961.2	64	0,65,6422	AA,AG,GG		0.1517,1.1813,0.501	benign	1706/2440	1017684	65,12909	2201	4286	6487	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5117C>T	11.37:g.1017684G>A	ENSP00000406861:p.Ala1706Val	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	A	4.055	0.007944	0.07866	0.011813	0.001517	ENSG00000184956	ENST00000421673	T	0.19669	2.13	1.69	-2.64	0.06114	.	.	.	.	.	T	0.05593	0.0147	N	0.08118	0	0.09310	N	1	B	0.06786	0.001	B	0.01281	0.0	T	0.30268	-0.9984	9	0.34782	T	0.22	.	3.8045	0.08771	0.1451:0.0:0.4591:0.3957	.	1706	Q6W4X9	MUC6_HUMAN	V	1706	ENSP00000406861:A1706V	ENSP00000406861:A1706V	A	-	2	0	MUC6	1007684	0.000000	0.05858	0.000000	0.03702	0.010000	0.07245	-0.275000	0.08525	-0.637000	0.05516	-0.850000	0.03035	GCC		0.552	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1017684	G	A	1017684	3	1	657	1	0	0	0	0	1	0	0	0	9987	1203	42	2	2214	2	MUC6	11	1017684	Missense_Mutation	SNP	G	TCGA-KN-8421-01A-11D-2310-10		1017684	133988832	26	40758										
MUC2	4583	mdanderson.org	37	chr11	1093575	1093575	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	cccatcaccaccacaactacGgtgaccgcaaccccaacacc	4	21	1	1	rs201450769		TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr11:1093575G>T	ENST00000441003.2	+	30	5421	c.5394G>T	c.(5392-5394)acG>acT	p.T1798T	MUC2_ENST00000333592.6_Silent_p.T86T|MUC2_ENST00000359061.5_Silent_p.T1754T|MUC2_ENST00000361558.6_Intron	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0					cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)		p.T1798T(1)|p.T1754T(1)		NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	ccacaactacGGTGACCGCAA	0.582																																																2	Substitution - coding silent(2)	lung(2)											92	124	113					11																	1093575		2192	4266	6458	SO:0001819	synonymous_variant	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.5394G>T	11.37:g.1093575G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Silent	SNP	ENST00000441003.2	37																																																																																					0.582	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		T	1093575	G	T	1093575	2	4	657	1	0	0	0	0	0	0	0	1	9982	1103	39	4		4	MUC2	11	1093575	Silent	SNP	G	TCGA-KN-8421-01A-11D-2310-10	75891	1093575	133912941	27	40759										
OR9G1	390174	mdanderson.org	37	chr11	56468440	56468440	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	tggcctgtggcgagaagggcGgctataaaattatgatgtac	14	6	0	2	rs397849038|rs12421330		TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr11:56468440G>T	ENST00000312153.1	+	1	577	c.577G>T	c.(577-579)Ggc>Tgc	p.G193C		NM_001005213.1	NP_001005213.1	Q8NH87	OR9G1_HUMAN	olfactory receptor, family 9, subfamily G, member 1	193						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(2)|kidney(1)|lung(25)|stomach(2)|upper_aerodigestive_tract(1)	31						CGAGAAGGGCGGCTATAAAAT	0.478																																																0													117	118	118					11																	56468440		2201	4296	6497	SO:0001583	missense	390174			AB065500	CCDS31536.1	11q11	2012-08-09			ENSG00000174914	ENSG00000174914		"GPCR / Class A : Olfactory receptors"	15319	protein-coding gene	gene with protein product				OR9G5			Standard	NM_001005213		Approved			Q8NH87	OTTHUMG00000167112	ENST00000312153.1:c.577G>T	11.37:g.56468440G>T	ENSP00000309012:p.Gly193Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEU9|Q8NGQ0	Missense_Mutation	SNP	ENST00000312153.1	37	CCDS31536.1	.	.	.	.	.	.	.	.	.	.	G	5.488	0.275107	0.10403	.	.	ENSG00000174914	ENST00000312153	T	0.00091	8.74	4.52	3.6	0.41247	GPCR, rhodopsin-like superfamily (1);	0.649761	0.14366	N	0.324095	T	0.00241	0.0007	L	0.28400	0.85	0.09310	N	1	P	0.46859	0.885	P	0.62184	0.899	T	0.56208	-0.8017	10	0.72032	D	0.01	-12.3577	8.9994	0.36072	0.2548:0.0:0.7452:0.0	rs12421330	193	Q8NH87	OR9G1_HUMAN	C	193	ENSP00000309012:G193C	ENSP00000309012:G193C	G	+	1	0	OR9G1	56225016	0.000000	0.05858	0.002000	0.10522	0.000000	0.00434	-1.080000	0.03407	0.630000	0.30394	-1.202000	0.01658	GGC		0.478	OR9G1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393253.1	NM_001005213		T	56468440	G	T	56468440	3	4	657	1	0	0	0	0	1	0	0	0	11257	1116	39	4	579	4	OR9G1	11	56468440	Missense_Mutation	SNP	G	TCGA-KN-8421-01A-11D-2310-10	55374865	56468440	78538076	28	40760										
ATG2A	23130	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	64664265	64664265	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	gcccacgcctcccagcaggcCgggcagctggttcttgcgga	14	16	1	0			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr11:64664265C>T	ENST00000377264.3	-	38	5339	c.5227G>A	c.(5227-5229)Ggc>Agc	p.G1743S	ATG2A_ENST00000421419.2_Missense_Mutation_p.G1745S	NM_015104.2	NP_055919.2	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	1743					autophagic vacuole assembly (GO:0000045)|cellular response to nitrogen starvation (GO:0006995)|mitochondrion degradation (GO:0000422)|nucleophagy (GO:0044804)	extrinsic component of membrane (GO:0019898)|lipid particle (GO:0005811)|pre-autophagosomal structure (GO:0000407)				breast(3)|central_nervous_system(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(19)|ovary(3)|prostate(5)|skin(1)|stomach(1)|urinary_tract(3)	55						CCCAGCAGGCCGGGCAGCTGG	0.622											OREG0004026	type=REGULATORY REGION|Gene=BC027481|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay																																				0													58	60	59					11																	64664265		2201	4297	6498	SO:0001583	missense	23130				CCDS31602.1	11q13.1	2014-02-12	2012-06-06		ENSG00000110046	ENSG00000110046			29028	protein-coding gene	gene with protein product			"ATG2 autophagy related 2 homolog A (S. cerevisiae)"			21887408	Standard	NM_015104		Approved	KIAA0404	uc001obx.3	Q2TAZ0	OTTHUMG00000066831	ENST00000377264.3:c.5227G>A	11.37:g.64664265C>T	ENSP00000366475:p.Gly1743Ser	Somatic	1078	WXS	Illumina HiSeq	Phase_I	O43154|Q14DM2|Q6ZTV2|Q7Z6K8|Q8IVY5|Q8TAI8|Q96HH7	Missense_Mutation	SNP	ENST00000377264.3	37	CCDS31602.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	22.8|22.8	4.331934|4.331934	0.81801|0.81801	.|.	.|.	ENSG00000110046|ENSG00000110046	ENST00000421419;ENST00000377262;ENST00000377264|ENST00000418259	T;T|.	0.08370|.	3.1;3.1|.	4.05|4.05	3.13|3.13	0.36017|0.36017	.|.	0.000000|.	0.64402|.	D|.	0.000001|.	T|T	0.43255|0.43255	0.1239|0.1239	N|N	0.26130|0.26130	0.795|0.795	0.54753|0.54753	D|D	0.999981|0.999981	D;D|.	0.89917|.	1.0;1.0|.	D;D|.	0.91635|.	0.999;0.999|.	T|T	0.18935|0.18935	-1.0321|-1.0321	10|5	0.35671|.	T|.	0.21|.	.|.	9.7877|9.7877	0.40686|0.40686	0.0:0.8963:0.0:0.1037|0.0:0.8963:0.0:0.1037	.|.	1743;1745|.	Q2TAZ0;Q2TAZ0-3|.	ATG2A_HUMAN;.|.	S|Q	1745;136;1743|1546	ENSP00000410522:G1745S;ENSP00000366475:G1743S|.	ENSP00000366473:G136S|.	G|R	-|-	1|2	0|0	ATG2A|ATG2A	64420841|64420841	1.000000|1.000000	0.71417|0.71417	0.987000|0.987000	0.45799|0.45799	0.971000|0.971000	0.66376|0.66376	5.233000|5.233000	0.65337|0.65337	1.067000|1.067000	0.40740|0.40740	-0.258000|-0.258000	0.10820|0.10820	GGC|CGG		0.622	ATG2A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000143224.1	NM_015104		T	64664265	C	T	64664265	3	4	657	1	0	0	0	0	1	0	0	0	1093	652	23	1	605	1	ATG2A	11	64664265	Missense_Mutation	SNP	C	TCGA-KN-8421-01A-11D-2310-10	8195825	64664265	70342251	29	40761										
KRTAP5-10	387273	mdanderson.org	37	chr11	71276702	71276702	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	tgtggctccggctgtgggggCtgtggctccggctgtggggg	22	9	0	0	rs113977776		TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr11:71276702C>T	ENST00000398531.1	+	1	94	c.69C>T	c.(67-69)ggC>ggT	p.G23G	KRTAP5-10_ENST00000376536.4_Silent_p.G23G	NM_001012710.1	NP_001012728.1	Q6L8G5	KR510_HUMAN	keratin associated protein 5-10	23						keratin filament (GO:0045095)				endometrium(2)|large_intestine(1)|lung(4)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	12						GCTGTGGGGGCTGTGGCTCCG	0.662																																																0													29	40	37					11																	71276702		2178	4275	6453	SO:0001819	synonymous_variant	387273			AB126079	CCDS41684.1	11q13.4	2008-02-05			ENSG00000204572	ENSG00000204572		"Keratin associated proteins"	23605	protein-coding gene	gene with protein product						15144888	Standard	NM_001012710		Approved	KRTAP5.10	uc001oqt.1	Q6L8G5	OTTHUMG00000057585	ENST00000398531.1:c.69C>T	11.37:g.71276702C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B9EHA4	Silent	SNP	ENST00000398531.1	37	CCDS41684.1																																																																																				0.662	KRTAP5-10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000127968.2			T	71276702	C	T	71276702	2	4	657	1	0	0	0	0	0	0	0	1	8566	784	28	2		2	KRTAP5-10	11	71276702	Silent	SNP	C	TCGA-KN-8421-01A-11D-2310-10	6612437	71276702	63729814	30	40762										
DLG2	1740	mdanderson.org	37	chr11	84245725	84245725	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	ctcttacttcgtgggttagtCgaggtaaggaatgatcatgt	12	6	2	1			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr11:84245725C>T	ENST00000532653.1	-	2	394	c.92G>A	c.(91-93)cGa>cAa	p.R31Q	DLG2_ENST00000543673.1_Missense_Mutation_p.R136Q|DLG2_ENST00000376104.2_Missense_Mutation_p.R136Q|DLG2_ENST00000524982.1_Missense_Mutation_p.R31Q|DLG2_ENST00000398309.2_Missense_Mutation_p.R31Q			Q14168	MPP2_HUMAN	discs, large homolog 2 (Drosophila)	0	L27 1. {ECO:0000255|PROSITE- ProRule:PRU00365}.				nucleotide phosphorylation (GO:0046939)|signal transduction (GO:0007165)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	guanylate kinase activity (GO:0004385)			breast(1)|central_nervous_system(1)|endometrium(8)|kidney(3)|large_intestine(11)|lung(35)|ovary(3)|pancreas(2)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	71		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				GTGGGTTAGTCGAGGTAAGGA	0.388																																																0													194	180	184					11																	84245725		1876	4115	5991	SO:0001583	missense	1740			U32376	CCDS41696.1, CCDS44690.1, CCDS44691.1, CCDS44692.1, CCDS55782.1, CCDS73357.1	11q21	2012-04-17	2008-12-15		ENSG00000150672	ENSG00000150672		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	2901	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 58"	603583	"discs, large homolog 2, chapsyn-110 (Drosophila)"			8755482, 9806853	Standard	NM_001142702		Approved	PSD-93, PSD93, chapsyn-110, PPP1R58	uc001pak.2	Q15700	OTTHUMG00000134309	ENST00000532653.1:c.92G>A	11.37:g.84245725C>T	ENSP00000435849:p.Arg31Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DGE9|B4DRJ0|B7Z3G8|E7EV80|E7EV91|E7EX01|Q53ES9|Q5CZB9|Q9BQJ2	Missense_Mutation	SNP	ENST00000532653.1	37		.	.	.	.	.	.	.	.	.	.	C	21.2	4.113970	0.77210	.	.	ENSG00000150672	ENST00000398309;ENST00000376104;ENST00000543673;ENST00000524982;ENST00000532653;ENST00000546021;ENST00000527088	T;T;T;T;T;T	0.39787	1.06;1.06;1.06;1.06;1.06;1.06	5.88	5.88	0.94601	Membrane-associated guanylate kinase (MAGUK), PEST domain, N-terminal (1);	0.000000	0.50627	D	0.000107	T	0.31071	0.0785	N	0.03948	-0.315	0.80722	D	1	D;B;D;B	0.63046	0.982;0.051;0.992;0.083	P;B;P;B	0.48901	0.59;0.01;0.594;0.025	T	0.22277	-1.0221	9	.	.	.	.	20.2279	0.98344	0.0:1.0:0.0:0.0	.	31;31;136;31	B7Z2T4;E9PN83;Q15700-2;Q15700	.;.;.;DLG2_HUMAN	Q	31;136;136;31;31;136;52	ENSP00000381355:R31Q;ENSP00000365272:R136Q;ENSP00000441994:R136Q;ENSP00000432894:R31Q;ENSP00000435849:R31Q;ENSP00000435809:R52Q	.	R	-	2	0	DLG2	83923373	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.624000	0.67764	2.778000	0.95560	0.655000	0.94253	CGA		0.388	DLG2-009	NOVEL	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000259253.2	NM_001364		T	84245725	C	T	84245725	3	4	657	1	0	0	0	0	1	0	0	0	4557	884	31	1	2767	1	DLG2	11	84245725	Missense_Mutation	SNP	C	TCGA-KN-8421-01A-11D-2310-10	12969023	84245725	50760791	31	40763										
OR10G4	390264	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr11	123886665	123886665	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	tacttggccatcagttacccGctcaggtacaccagcatgat	8	13	2	1			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr11:123886665G>A	ENST00000320891.4	+	1	384	c.384G>A	c.(382-384)ccG>ccA	p.P128P		NM_001004462.1	NP_001004462.1	Q8NGN3	O10G4_HUMAN	olfactory receptor, family 10, subfamily G, member 4	128						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(8)|lung(19)|ovary(1)|prostate(1)|skin(4)|stomach(6)|upper_aerodigestive_tract(1)	48		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)		TCAGTTACCCGCTCAGGTACA	0.557																																																0																																										SO:0001819	synonymous_variant	390264			AB065757	CCDS31702.1	11q24.1	2012-08-09			ENSG00000254737	ENSG00000254737		"GPCR / Class A : Olfactory receptors"	14809	protein-coding gene	gene with protein product							Standard	NM_001004462		Approved		uc010sac.2	Q8NGN3	OTTHUMG00000165966	ENST00000320891.4:c.384G>A	11.37:g.123886665G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEW0	Silent	SNP	ENST00000320891.4	37	CCDS31702.1																																																																																				0.557	OR10G4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387268.1	NM_001004462		A	123886665	G	A	123886665	2	1	657	1	0	0	0	0	0	0	0	1	10908	1074	38	1		1	OR10G4	11	123886665	Silent	SNP	G	TCGA-KN-8421-01A-11D-2310-10	39640940	123886665	11119851	32	40764										
PRB2	653247	mdanderson.org	37	chr12	11546006	11546006	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	tggaggtgggggaccttgagGtttgttgcctccttgtgggg	19	6	0	1			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr12:11546006G>A	ENST00000389362.4	-	3	1041	c.1006C>T	c.(1006-1008)Cct>Tct	p.P336S	PRB1_ENST00000546254.1_Intron|PRB2_ENST00000545829.1_5'Flank	NM_006248.3	NP_006239.3	P02812	PRB2_HUMAN	proline-rich protein BstNI subfamily 2	336	15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-P-Q-G-[GD]-[NKS]-[KSQ]- [PRS]-[QRS] [GPS]-[PSAR]-[PSR].					extracellular region (GO:0005576)				NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(14)|pancreas(1)|prostate(5)|skin(4)|stomach(2)|urinary_tract(1)	37		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			GGACCTTGAGGTTTGTTGCCT	0.612																																																0													64	77	72					12																	11546006		2154	4213	6367	SO:0001583	missense	653247			K03208	CCDS41757.2	12p13.2	2012-10-02			ENSG00000121335	ENSG00000121335			9338	protein-coding gene	gene with protein product		168810				8554050	Standard	NM_006248		Approved	PRPPRB1, Ps, cP7	uc010shk.1	P02812	OTTHUMG00000156975	ENST00000389362.4:c.1006C>T	12.37:g.11546006G>A	ENSP00000374013:p.Pro336Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O00599|P02811|P04281	Missense_Mutation	SNP	ENST00000389362.4	37	CCDS41757.2	.	.	.	.	.	.	.	.	.	.	.	0.008	-1.910201	0.00508	.	.	ENSG00000121335	ENST00000389362	T	0.05382	3.45	1.28	1.28	0.21552	.	.	.	.	.	T	0.02267	0.0070	N	0.04090	-0.28	0.09310	N	1	B	0.23540	0.087	B	0.15870	0.014	T	0.47586	-0.9106	9	0.10111	T	0.7	.	4.2319	0.10608	0.2535:0.0:0.7465:0.0	.	336	P02812	PRB2_HUMAN	S	336	ENSP00000374013:P336S	ENSP00000374013:P336S	P	-	1	0	PRB2	11437273	0.003000	0.15002	0.001000	0.08648	0.001000	0.01503	1.293000	0.33353	0.634000	0.30469	0.492000	0.49549	CCT		0.612	PRB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346925.2	NM_006248		A	11546006	G	A	11546006	3	1	657	1	0	0	0	0	1	0	0	0	12453	1261	44	2	248	2	PRB2	12	11546006	Missense_Mutation	SNP	G	TCGA-KN-8421-01A-11D-2310-10		11546006	122305889	33	40765										
GALNT6	11226	broad.mit.edu	37	chr12	51757967	51757967	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	ggaggaagtgtttcccagccGaaggtcaggctccagtcaaa	13	10	2	0			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr12:51757967G>A	ENST00000543196.2	-	5	1192	c.987C>T	c.(985-987)ttC>ttT	p.F329F	GALNT6_ENST00000356317.3_Silent_p.F329F			Q8NCL4	GALT6_HUMAN	polypeptide N-acetylgalactosaminyltransferase 6	329					cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein O-linked glycosylation (GO:0006493)	Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			endometrium(2)|large_intestine(6)|lung(7)|ovary(3)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	27						TTTCCCAGCCGAAGGTCAGGC	0.572																																																0													119	111	114					12																	51757967		2203	4300	6503	SO:0001819	synonymous_variant	11226			Y08565	CCDS8813.1	12q13	2014-03-13	2014-03-13		ENSG00000139629	ENSG00000139629		"Glycosyltransferase family 2 domain containing"	4128	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 6"	605148	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 6 (GalNAc-T6)"			10464263	Standard	NM_007210		Approved	GalNAc-T6	uc001ryl.1	Q8NCL4		ENST00000543196.2:c.987C>T	12.37:g.51757967G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYH4|Q9H6G2|Q9UIV5	Silent	SNP	ENST00000543196.2	37	CCDS8813.1																																																																																				0.572	GALNT6-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000469735.1	NM_007210		A	51757967	G	A	51757967	2	1	657	1	0	0	0	0	0	0	0	1	6224	1049	37	1		1	GALNT6	12	51757967	Silent	SNP	G	TCGA-KN-8421-01A-11D-2310-10	40211961	51757967	82093928	34	40766										
C13orf26	122046	ucsc.edu	37	chr13	31531011	31531011	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	attatgtttgctttgataggAcattttcctgtggacactac	8	7	0	1			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr13:31531011A>G	ENST00000380473.3	+	4	327	c.314A>G	c.(313-315)gAc>gGc	p.D105G		NM_152325.1	NP_689538.1	Q8N6G2	TEX26_HUMAN	testis expressed 26	105																	CTTTGATAGGACATTTTCCTG	0.403																																																0													93	85	87					13																	31531011		2203	4300	6503	SO:0001630	splice_region_variant	122046			BC030277	CCDS9339.1	13q12.3	2012-02-06	2012-02-06	2012-02-06	ENSG00000175664	ENSG00000175664			28622	protein-coding gene	gene with protein product			"chromosome 13 open reading frame 26"	C13orf26		12477932	Standard	NM_152325		Approved	MGC40178	uc001uti.3	Q8N6G2	OTTHUMG00000016682	ENST00000380473.3:c.313-1A>G	13.37:g.31531011A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000380473.3	37	CCDS9339.1	.	.	.	.	.	.	.	.	.	.	A	2.912	-0.225094	0.06022	.	.	ENSG00000175664	ENST00000380473	T	0.46451	0.87	4.81	-2.77	0.05877	.	0.976673	0.08367	N	0.956788	T	0.28234	0.0697	L	0.31294	0.92	0.23681	N	0.997123	B	0.02656	0.0	B	0.01281	0.0	T	0.25813	-1.0121	10	0.20519	T	0.43	0.4607	10.9049	0.47073	0.5433:0.0:0.4567:0.0	.	105	Q8N6G2	CM026_HUMAN	G	105	ENSP00000369840:D105G	ENSP00000369840:D105G	D	+	2	0	C13orf26	30429011	0.005000	0.15991	0.000000	0.03702	0.000000	0.00434	0.149000	0.16243	-1.433000	0.01977	-1.676000	0.00740	GAC		0.403	TEX26-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044380.2	NM_152325	Missense_Mutation	G	31531011	A	G	31531011	5	3	657	1	0	0	0	0	0	0	1	0	1724	289	10	3	328	3	C13orf26	13	31531011	Splice_Site	SNP	A	TCGA-KN-8421-01A-11D-2310-10		31531011	83638867	35	40767										
KBTBD6	89890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr13	41704863	41704863	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	aatgtggtacctatattaatCcattggtctcccctaatatc	5	10	1	0			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr13:41704863C>A	ENST00000379485.1	-	1	2019	c.1785G>T	c.(1783-1785)tgG>tgT	p.W595C	KBTBD6_ENST00000499385.2_Missense_Mutation_p.W529C	NM_152903.4	NP_690867.3	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain containing 6	595										NS(1)|breast(1)|endometrium(8)|kidney(4)|large_intestine(9)|lung(9)|ovary(1)|prostate(2)|skin(4)|urinary_tract(4)	43		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		CTATATTAATCCATTGGTCTC	0.438																																																0													180	178	178					13																	41704863		2203	4300	6503	SO:0001583	missense	89890			AK056633	CCDS9376.1	13q13.3	2013-01-08			ENSG00000165572	ENSG00000165572		"BTB/POZ domain containing"	25340	protein-coding gene	gene with protein product						12477932	Standard	NM_152903		Approved	DKFZp547E1912	uc001uxu.1	Q86V97	OTTHUMG00000016786	ENST00000379485.1:c.1785G>T	13.37:g.41704863C>A	ENSP00000368799:p.Trp595Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6Y8|Q8N8L0|Q8NDM5|Q96MP6	Missense_Mutation	SNP	ENST00000379485.1	37	CCDS9376.1	.	.	.	.	.	.	.	.	.	.	c	16.59	3.165208	0.57476	.	.	ENSG00000165572	ENST00000379485;ENST00000499385	T;T	0.75589	-0.95;-0.95	3.8	3.8	0.43715	Kelch-type beta propeller (1);	0.000000	0.85682	D	0.000000	T	0.79540	0.4463	L	0.36672	1.1	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.81938	-0.0704	10	0.87932	D	0	.	13.5205	0.61566	0.0:1.0:0.0:0.0	.	529;595	F5GZN7;Q86V97	.;KBTB6_HUMAN	C	595;529	ENSP00000368799:W595C;ENSP00000444326:W529C	ENSP00000368799:W595C	W	-	3	0	KBTBD6	40602863	1.000000	0.71417	0.998000	0.56505	0.992000	0.81027	4.462000	0.60121	2.132000	0.65825	0.462000	0.41574	TGG		0.438	KBTBD6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044657.1	NM_152903		A	41704863	C	A	41704863	3	1	657	1	0	0	0	0	1	0	0	0	8004	856	30	4	243	4	KBTBD6	13	41704863	Missense_Mutation	SNP	C	TCGA-KN-8421-01A-11D-2310-10	10173852	41704863	73465015	36	40768										
POTEG	404785	mdanderson.org	37	chr14	19558994	19558994	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	tggtgtaatactgacaggccGtacaatgccgggaagatgaa	13	7	0	3	rs138773680		TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr14:19558994G>A	ENST00000409832.3	+	3	692	c.640G>A	c.(640-642)Gta>Ata	p.V214I		NM_001005356.2	NP_001005356.1	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	214										cervix(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(31)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	47						CTGACAGGCCGTACAATGCCG	0.383																																																0													161	182	175					14																	19558994		1924	3884	5808	SO:0001583	missense	404785				CCDS73610.1	14q11.2	2013-01-10	2008-11-26	2008-11-26	ENSG00000222036	ENSG00000222036		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33896	protein-coding gene	gene with protein product	"cancer/testis antigen family 104, member 4"	608916	"ANKRD26-like family C, member 2"	A26C2			Standard	NR_027480		Approved	POTE14, POTE-14, POTE14alpha, CT104.4	uc001vuz.1	Q6S5H5	OTTHUMG00000170340	ENST00000409832.3:c.640G>A	14.37:g.19558994G>A	ENSP00000386971:p.Val214Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A1L153|A6NMI9|Q6S5H6|Q6S8J2	Missense_Mutation	SNP	ENST00000409832.3	37	CCDS32018.1	.	.	.	.	.	.	.	.	.	.	g	7.950	0.744672	0.15710	.	.	ENSG00000222036	ENST00000409832	T	0.66638	-0.22	1.87	0.387	0.16259	Ankyrin repeat-containing domain (4);	0.710225	0.12028	N	0.506284	T	0.47710	0.1460	L	0.28694	0.88	0.20926	N	0.999823	B	0.18968	0.032	B	0.16289	0.015	T	0.29488	-1.0010	10	0.35671	T	0.21	.	4.2876	0.10862	0.3015:0.0:0.6985:0.0	.	214	Q6S5H5	POTEG_HUMAN	I	214	ENSP00000386971:V214I	ENSP00000386971:V214I	V	+	1	0	POTEG	18628994	0.882000	0.30256	0.041000	0.18516	0.038000	0.13279	1.019000	0.30014	0.095000	0.17434	0.184000	0.17185	GTA		0.383	POTEG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408579.1	NM_001005356		A	19558994	G	A	19558994	3	1	657	1	0	0	0	0	1	0	0	0	12273	1145	40	1	650	1	POTEG	14	19558994	Missense_Mutation	SNP	G	TCGA-KN-8421-01A-11D-2310-10		19558994	87790546	37	40769										
OR4N2	390429	broad.mit.edu	37	chr14	20296067	20296067	+	Frame_Shift_Del	DEL	G	G	-													0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	ctctgtggcttgggggttttGtccactccattatccaggtg							TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr14:20296067delG	ENST00000315947.1	+	1	460	c.460delG	c.(460-462)gtcfs	p.V154fs	OR4N2_ENST00000568211.1_Frame_Shift_Del_p.V154fs	NM_001004723.1	NP_001004723.1	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N, member 2	154						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|liver(1)|lung(32)|ovary(2)|prostate(1)|skin(2)|stomach(2)	52	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGGGGGTTTTGTCCACTCCAT	0.527																																																0													126	138	134					14																	20296067		2203	4298	6501	SO:0001589	frameshift_variant	390429				CCDS32022.1	14q11.2	2013-09-23				ENSG00000176294		"GPCR / Class A : Olfactory receptors"	14742	protein-coding gene	gene with protein product							Standard	NM_001004723		Approved		uc010tkv.2	Q8NGD1		ENST00000315947.1:c.460delG	14.37:g.20296067delG	ENSP00000319601:p.Val154fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEY9|Q6IFA2	Frame_Shift_Del	DEL	ENST00000315947.1	37	CCDS32022.1																																																																																				0.527	OR4N2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409821.2			-	20296067	G	-	20296067	7	5	657	1	0	1	0	1	0	0	0	0	11084	1377	48	0	462	0	OR4N2	14	20296067	Frame_Shift_Del	DEL	G	TCGA-KN-8421-01A-11D-2310-10	737073	20296067	87053473	38	40770										
RFX7	64864	ucsc.edu	37	chr15	56388708	56388708	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	tggggagtctttggtgcctgTttcacagactgcatgtgctg	14	8	2	1			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr15:56388708T>C	ENST00000559447.2	-	9	1198	c.927A>G	c.(925-927)aaA>aaG	p.K309K	RFX7_ENST00000317318.6_Silent_p.K406K|RFX7_ENST00000422057.1_Silent_p.K309K|RFX7_ENST00000423270.1_Silent_p.K406K			Q2KHR2	RFX7_HUMAN	regulatory factor X, 7	309					regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	DNA binding (GO:0003677)			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(3)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	19						TTGGTGCCTGTTTCACAGACT	0.532																																																0													99	101	100					15																	56388708		2024	4188	6212	SO:0001819	synonymous_variant	64864					15q21.3	2008-08-04	2008-08-04	2008-08-04		ENSG00000181827			25777	protein-coding gene	gene with protein product		612660	"regulatory factor X domain containing 2"	RFXDC2			Standard	NM_022841		Approved	FLJ12994	uc010bfn.3	Q2KHR2		ENST00000559447.2:c.927A>G	15.37:g.56388708T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZRR1|Q6ZTY6|Q8N3J0|Q9H7A9|Q9H956	Silent	SNP	ENST00000559447.2	37																																																																																					0.532	RFX7-001	KNOWN	non_canonical_U12|basic	protein_coding	protein_coding	OTTHUMT00000418841.3	NM_022841		C	56388708	T	C	56388708	2	2	657	1	0	0	0	0	0	0	0	1	13281	1722	60	3		3	RFX7	15	56388708	Silent	SNP	T	TCGA-KN-8421-01A-11D-2310-10		56388708	46142684	39	40771										
ELMO3	1874	ucsc.edu	37	chr16	67233116	67233116	+	IGR	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	gcgagtgcgggacaccgaggTcaggtctcggaaagggagga	19	8	2	0			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr16:67233116T>C	ENST00000379378.3	+	0	2096				ELMO3_ENST00000477898.1_5'Flank|ELMO3_ENST00000393997.2_Missense_Mutation_p.S16P|ELMO3_ENST00000360833.1_Missense_Mutation_p.S16P	NM_001950.3	NP_001941.2	Q16254	E2F4_HUMAN	E2F transcription factor 4, p107/p130-binding						blood circulation (GO:0008015)|cell volume homeostasis (GO:0006884)|cilium assembly (GO:0042384)|epithelial cell development (GO:0002064)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|organ morphogenesis (GO:0009887)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of cell proliferation (GO:0042127)|regulation of cell size (GO:0008361)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|protein domain specific binding (GO:0019904)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)			breast(4)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(2)	11		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000697)|Epithelial(162;0.00303)|all cancers(182;0.0325)		GACACCGAGGTCAGGTCTCGG	0.692																																																0													21	30	27					16																	67233116		2087	4209	6296	SO:0001628	intergenic_variant	79767			BC021050	CCDS32464.1	16q22.1	2014-05-06			ENSG00000205250	ENSG00000205250			3118	protein-coding gene	gene with protein product		600659				7958924, 7892279	Standard	NM_001950		Approved	E2F-4	uc002erz.3	Q16254	OTTHUMG00000172975		16.37:g.67233116T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NGR8|B5BU56|Q12991|Q15328	Missense_Mutation	SNP	ENST00000379378.3	37	CCDS32464.1	.	.	.	.	.	.	.	.	.	.	T	17.29	3.352548	0.61293	.	.	ENSG00000102890	ENST00000360833;ENST00000393997	T;T	0.15952	2.39;2.38	4.18	-5.95	0.02241	.	.	.	.	.	T	0.06005	0.0156	N	0.08118	0	0.09310	N	0.999995	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.36915	-0.9728	9	0.87932	D	0	5.329	0.5961	0.00736	0.2758:0.1806:0.1364:0.4072	.	16;16	F8W9E7;Q96BJ8-3	.;.	P	16	ENSP00000354077:S16P;ENSP00000377566:S16P	ENSP00000354077:S16P	S	+	1	0	ELMO3	65790617	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-1.328000	0.02680	-0.679000	0.05217	-0.468000	0.05107	TCA		0.692	E2F4-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000421565.1	NM_001950		C	67233116	T	C	67233116	1	2	657	0	1	0	0	0	0	0	0	0	5069	1667	58	3		3	ELMO3	16	67233116	IGR	SNP	T	TCGA-KN-8421-01A-11D-2310-10		67233116	23121637	40	40772										
KIAA0753	9851	hgsc.bcm.edu	37	chr17	6510586	6510586	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	agtttcagcatcaagccaagCgagcctagcagacagtcaaa	9	11	3	1			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr17:6510586C>T	ENST00000361413.3	-	11	2192	c.1834G>A	c.(1834-1836)Gct>Act	p.A612T	KIAA0753_ENST00000542606.1_Missense_Mutation_p.A313T|KIAA0753_ENST00000589033.1_Missense_Mutation_p.A68T|KIAA0753_ENST00000572370.1_Missense_Mutation_p.A313T|KIAA0753_ENST00000575027.1_5'Flank	NM_014804.2	NP_055619.2	Q2KHM9	K0753_HUMAN	KIAA0753	612						centrosome (GO:0005813)|cytoplasm (GO:0005737)				endometrium(4)|large_intestine(11)|lung(5)|prostate(4)	24				COAD - Colon adenocarcinoma(228;0.157)		TCAAGCCAAGCGAGCCTAGCA	0.438																																																0													107	105	106					17																	6510586		1944	4143	6087	SO:0001583	missense	9851				CCDS42247.1	17p13.1	2014-04-04			ENSG00000198920	ENSG00000198920			29110	protein-coding gene	gene with protein product						24613305	Standard	NM_014804		Approved		uc002gde.4	Q2KHM9	OTTHUMG00000177928	ENST00000361413.3:c.1834G>A	17.37:g.6510586C>T	ENSP00000355250:p.Ala612Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA11|B7Z479|O94853|Q05D97|Q2KHN0|Q9UG45	Missense_Mutation	SNP	ENST00000361413.3	37	CCDS42247.1	.	.	.	.	.	.	.	.	.	.	C	14.18	2.458604	0.43634	.	.	ENSG00000198920	ENST00000361413;ENST00000542606;ENST00000542826	D;D	0.86562	-2.14;-2.14	5.31	3.28	0.37604	.	0.225713	0.46145	D	0.000313	T	0.79839	0.4515	L	0.59436	1.845	0.27718	N	0.945211	P	0.39964	0.697	B	0.30029	0.11	T	0.74861	-0.3520	10	0.72032	D	0.01	-8.8009	6.7333	0.23395	0.1801:0.7305:0.0:0.0894	.	612	Q2KHM9	K0753_HUMAN	T	612;313;68	ENSP00000355250:A612T;ENSP00000444634:A313T	ENSP00000355250:A612T	A	-	1	0	KIAA0753	6451310	0.990000	0.36364	1.000000	0.80357	0.999000	0.98932	0.501000	0.22578	0.890000	0.36211	0.650000	0.86243	GCT		0.438	KIAA0753-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000439769.3	NM_014804		T	6510586	C	T	6510586	3	4	657	1	0	0	0	0	1	0	0	0	8198	768	27	1	1105	1	KIAA0753	17	6510586	Missense_Mutation	SNP	C	TCGA-KN-8421-01A-11D-2310-10		6510586	74684624	41	40773										
BCAS3	54828	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	59118255	59118255	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	cagttcctgcttgctggccgTaagtagttcagatttttttt	9	8	1	1			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr17:59118255T>G	ENST00000390652.5	+	20	2105		c.e20+2		BCAS3_ENST00000407086.3_Splice_Site|BCAS3_ENST00000589222.1_Splice_Site|BCAS3_ENST00000588462.1_Splice_Site|BCAS3_ENST00000588874.1_Splice_Site|BCAS3_ENST00000408905.3_Splice_Site|BCAS3_ENST00000585744.1_Splice_Site|RP11-264B14.1_ENST00000588604.1_RNA	NM_001099432.1	NP_001092902.1			breast carcinoma amplified sequence 3											NS(1)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(5)|lung(24)|ovary(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	44			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			TTGCTGGCCGTAAGTAGTTCA	0.428																																																0													114	110	111					17																	59118255		1919	4140	6059	SO:0001630	splice_region_variant	54828			AF361219	CCDS11626.1, CCDS45749.1	17q23.2	2013-06-25			ENSG00000141376	ENSG00000141376		"WD repeat domain containing"	14347	protein-coding gene	gene with protein product		607470				12378525	Standard	NM_017679		Approved	FLJ20128	uc002iyv.4	Q9H6U6	OTTHUMG00000180064	ENST00000390652.5:c.2074+2T>G	17.37:g.59118255T>G		Somatic		WXS	Illumina HiSeq	Phase_I		Splice_Site	SNP	ENST00000390652.5	37	CCDS45749.1	.	.	.	.	.	.	.	.	.	.	T	24.0	4.476995	0.84640	.	.	ENSG00000141376	ENST00000390652;ENST00000407086;ENST00000408905;ENST00000360207	.	.	.	5.29	5.29	0.74685	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.2267	0.73357	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	BCAS3	56473037	1.000000	0.71417	0.988000	0.46212	0.910000	0.53928	7.194000	0.77789	2.007000	0.58848	0.528000	0.53228	.		0.428	BCAS3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000449578.1	NM_017679	Intron	G	59118255	T	G	59118255	5	3	657	1	0	0	0	0	0	0	1	0	1352	1652	57	5	2150	5	BCAS3	17	59118255	Splice_Site	SNP	T	TCGA-KN-8421-01A-11D-2310-10	52607669	59118255	22076955	42	40774										
XAB2	56949	mdanderson.org	37	chr19	7694393	7694393	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	tccggccgctcgggccgcgaGagtcgcgccatcaccaccat	12	18	1	1	rs4134809	byFrequency	TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr19:7694393G>A	ENST00000358368.4	-	1	58	c.21C>T	c.(19-21)ctC>ctT	p.L7L	XAB2_ENST00000534844.1_Silent_p.L4L|PET100_ENST00000594797.1_5'Flank|PET100_ENST00000601406.1_5'Flank|CTD-3214H19.4_ENST00000595866.1_5'Flank|PET100_ENST00000456958.3_5'Flank	NM_020196.2	NP_064581.2	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	7					blastocyst development (GO:0001824)|DNA repair (GO:0006281)|mRNA splicing, via spliceosome (GO:0000398)|nucleotide-excision repair (GO:0006289)|transcription, DNA-templated (GO:0006351)|transcription-coupled nucleotide-excision repair (GO:0006283)	catalytic step 2 spliceosome (GO:0071013)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				breast(1)|central_nervous_system(2)|cervix(2)|endometrium(2)|kidney(2)|large_intestine(2)|lung(11)|prostate(1)|skin(2)|urinary_tract(1)	26						CGGGCCGCGAGAGTCGCGCCA	0.667								Direct reversal of damage;Nucleotide excision repair (NER)					G|||	1320	0.263578	0.2103	0.2219	5008	,	,		14881	0.2083		0.3777	False		,,,				2504	0.3047															0								G		915,3483		96,723,1380	25	27	26		21	-8.9	0	19	dbSNP_108	26	3162,5430		573,2016,1707	no	coding-synonymous	XAB2	NM_020196.2		669,2739,3087	AA,AG,GG		36.8017,20.8049,31.3857		7/856	7694393	4077,8913	2199	4296	6495	SO:0001819	synonymous_variant	56949			AB026111	CCDS32892.1	19p13.3	2013-08-21				ENSG00000076924			14089	protein-coding gene	gene with protein product	"SYF1 homolog, RNA splicing factor (S. cerevisiae)", "SYF1 pre-mRNA-splicing factor"	610850				10944529	Standard	NM_020196		Approved	HCNP, HCRN, SYF1, NTC90	uc002mgx.3	Q9HCS7		ENST00000358368.4:c.21C>T	19.37:g.7694393G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TET6|Q96HB0|Q96IW0|Q9NRG6|Q9ULP3	Silent	SNP	ENST00000358368.4	37	CCDS32892.1																																																																																				0.667	XAB2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000461021.1	NM_020196		A	7694393	G	A	7694393	2	1	657	1	0	0	0	0	0	0	0	1	17430	929	33	2		2	XAB2	19	7694393	Silent	SNP	G	TCGA-KN-8421-01A-11D-2310-10		7694393	51434590	43	40775										
VSTM1	284415	hgsc.bcm.edu;mdanderson.org	37	chr19	54561798	54561798	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	gtcacattgctctcggcttcAaccaccgagctgggccaggc	11	15	3	0			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr19:54561798A>T	ENST00000338372.2	-	3	292	c.117T>A	c.(115-117)gtT>gtA	p.V39V	VSTM1_ENST00000425006.2_Silent_p.V39V|VSTM1_ENST00000376626.1_Silent_p.V39V|VSTM1_ENST00000366170.2_Intron	NM_198481.3	NP_940883.2	Q6UX27	VSTM1_HUMAN	V-set and transmembrane domain containing 1	39	Ig-like V-type.				immune system process (GO:0002376)	extracellular space (GO:0005615)|integral component of membrane (GO:0016021)				breast(1)|large_intestine(3)|lung(11)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	18	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.165)		TCTCGGCTTCAACCACCGAGC	0.502																																																0													90	92	91					19																	54561798		2203	4300	6503	SO:0001819	synonymous_variant	284415			AY358542	CCDS12872.1, CCDS74441.1, CCDS74442.1	19q13.42	2013-01-11			ENSG00000189068	ENSG00000189068		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	29455	protein-coding gene	gene with protein product						12975309	Standard	NM_198481		Approved	UNQ3033	uc002qcw.4	Q6UX27	OTTHUMG00000064906	ENST00000338372.2:c.117T>A	19.37:g.54561798A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B6A8C6|D2DJS3|D2DJS4|Q496B6|Q496B7	Silent	SNP	ENST00000338372.2	37	CCDS12872.1																																																																																				0.502	VSTM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000139358.3	NM_198481		T	54561798	A	T	54561798	2	4	657	1	0	0	0	0	0	0	0	1	17240	117	5	5		5	VSTM1	19	54561798	Silent	SNP	A	TCGA-KN-8421-01A-11D-2310-10	46867405	54561798	4567185	44	40776										
NLRP7	199713	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	55447692	55447692	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	acagcatcagcatcatcgtgCgttcccactcgatgtgccct	8	15	2	0			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr19:55447692C>T	ENST00000590030.1	-	5	2277	c.2237G>A	c.(2236-2238)cGc>cAc	p.R746H	NLRP7_ENST00000328092.5_Missense_Mutation_p.R718H|NLRP7_ENST00000446217.1_Missense_Mutation_p.R774H|NLRP7_ENST00000592784.1_Missense_Mutation_p.R746H|NLRP7_ENST00000588756.1_Missense_Mutation_p.R746H|NLRP7_ENST00000448121.2_Missense_Mutation_p.R718H|NLRP7_ENST00000340844.2_Missense_Mutation_p.R746H			Q8WX94	NALP7_HUMAN	NLR family, pyrin domain containing 7	746							ATP binding (GO:0005524)	p.R746H(1)|p.R718H(1)		autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(17)|liver(1)|lung(33)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(3)	73				GBM - Glioblastoma multiforme(193;0.0325)		CATCATCGTGCGTTCCCACTC	0.572																																																2	Substitution - Missense(2)	lung(2)											127	95	106					19																	55447692		2203	4300	6503	SO:0001583	missense	199713			AF464765	CCDS12912.1, CCDS33109.1, CCDS46183.1	19q13.42	2008-02-05	2006-12-08	2006-12-08		ENSG00000167634		"Nucleotide-binding domain and leucine rich repeat containing"	22947	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 7"	609661	"NACHT, leucine rich repeat and PYD containing 7"	NALP7		12563287, 12019269	Standard	NM_139176		Approved	PYPAF3, NOD12, PAN7, CLR19.4	uc002qii.4	Q8WX94		ENST00000590030.1:c.2237G>A	19.37:g.55447692C>T	ENSP00000465520:p.Arg746His	Somatic		WXS	Illumina HiSeq	Phase_I	E9PE16|Q32MH8|Q7RTR1	Missense_Mutation	SNP	ENST00000590030.1	37	CCDS33109.1	.	.	.	.	.	.	.	.	.	.	C	11.68	1.710327	0.30322	.	.	ENSG00000167634	ENST00000328092;ENST00000448121;ENST00000340844;ENST00000446217;ENST00000399724	T;T;T	0.53206	0.63;0.63;0.63	1.95	0.909	0.19332	.	.	.	.	.	T	0.43986	0.1272	L	0.33485	1.01	0.09310	N	1	D;D;D;D	0.71674	0.998;0.998;0.998;0.997	P;P;P;P	0.57468	0.813;0.743;0.743;0.821	T	0.22487	-1.0215	9	0.34782	T	0.22	.	3.3391	0.07111	0.0:0.24:0.0:0.76	.	774;746;746;718	E7EPM2;Q32MH9;Q8WX94;Q8WX94-2	.;.;NALP7_HUMAN;.	H	746;718;746;774;513	ENSP00000409137:R718H;ENSP00000339491:R746H;ENSP00000414273:R774H	ENSP00000329568:R746H	R	-	2	0	NLRP7	60139504	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.980000	0.03770	0.240000	0.21263	-0.367000	0.07326	CGC		0.572	NLRP7-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000451396.1	NM_139176		T	55447692	C	T	55447692	3	4	657	1	0	0	0	0	1	0	0	0	10489	768	27	1	900	1	NLRP7	19	55447692	Missense_Mutation	SNP	C	TCGA-KN-8421-01A-11D-2310-10	885894	55447692	3681291	45	40777										
SNRPB2	6629	mdanderson.org;bcgsc.ca	37	chr20	16717906	16717906	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	ttttcaaataattaaaacagCgaatacagtatgcaaaaaca	4	6	1	0			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr20:16717906C>T	ENST00000246071.6	+	4	454	c.238C>T	c.(238-240)Cga>Tga	p.R80*	SNRPB2_ENST00000377943.5_Splice_Site_p.R80*	NM_003092.4	NP_003083.1	P08579	RU2B_HUMAN	small nuclear ribonucleoprotein polypeptide B	80	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				gene expression (GO:0010467)|mRNA processing (GO:0006397)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)|U2 snRNP (GO:0005686)	nucleotide binding (GO:0000166)|snRNA binding (GO:0017069)			large_intestine(2)|lung(2)|urinary_tract(1)	5						ATTAAAACAGCGAATACAGTA	0.299																																																0													48	47	47					20																	16717906		2202	4300	6502	SO:0001630	splice_region_variant	6629				CCDS13123.1	20p12.1	2013-02-12	2010-07-07		ENSG00000125870	ENSG00000125870		"RNA binding motif (RRM) containing"	11155	protein-coding gene	gene with protein product		603520	"small nuclear ribonucleoprotein polypeptide B2", "small nuclear ribonucleoprotein polypeptide B''"			2951739	Standard	NM_198220		Approved	Msl1	uc002wpi.2	P08579	OTTHUMG00000031933	ENST00000246071.6:c.238-1C>T	20.37:g.16717906C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R7J3|D3DW21|Q9UJD4	Nonsense_Mutation	SNP	ENST00000246071.6	37	CCDS13123.1	.	.	.	.	.	.	.	.	.	.	C	37	6.507542	0.97624	.	.	ENSG00000125870	ENST00000377943;ENST00000246071	.	.	.	5.76	3.74	0.42951	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-9.9868	13.6047	0.62039	0.4197:0.5803:0.0:0.0	.	.	.	.	X	80	.	.	R	+	1	2	SNRPB2	16665906	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	0.811000	0.27198	0.710000	0.31997	0.655000	0.94253	CGA		0.299	SNRPB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078110.1	NM_003092	Nonsense_Mutation	T	16717906	C	T	16717906	5	4	657	1	0	0	0	0	0	0	1	0	14875	782	27	1	248	1	SNRPB2	20	16717906	Splice_Site	SNP	C	TCGA-KN-8421-01A-11D-2310-10		16717906	46307614	46	40778										
SFRS6	6431	broad.mit.edu	37	chr20	42089576	42089576	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	gagccagtcccgttccaattCgccgctacctgttccaccct	7	18	0	0			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr20:42089576C>T	ENST00000244020.3	+	6	1014	c.908C>T	c.(907-909)tCg>tTg	p.S303L		NM_006275.5	NP_006266.2	Q13247	SRSF6_HUMAN	serine/arginine-rich splicing factor 6	303	Arg/Ser-rich (RS domain).				alternative mRNA splicing, via spliceosome (GO:0000380)|gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA export from nucleus (GO:0006406)|mRNA splice site selection (GO:0006376)|mRNA splicing, via spliceosome (GO:0000398)|negative regulation of cell death (GO:0060548)|negative regulation of keratinocyte differentiation (GO:0045617)|negative regulation of mRNA splicing, via spliceosome (GO:0048025)|positive regulation of epithelial cell proliferation involved in lung morphogenesis (GO:0060501)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|regulation of keratinocyte proliferation (GO:0010837)|regulation of wound healing (GO:0061041)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|pre-mRNA binding (GO:0036002)|RNA binding (GO:0003723)			haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|upper_aerodigestive_tract(2)	5						CGTTCCAATTCGCCGCTACCT	0.493																																																0													83	81	82					20																	42089576		2203	4300	6503	SO:0001583	missense	6431			U30883	CCDS13318.1	20q12-q13.1	2013-02-12	2010-06-22	2010-06-22	ENSG00000124193	ENSG00000124193		"Serine/arginine-rich splicing factors", "RNA binding motif (RRM) containing"	10788	protein-coding gene	gene with protein product	"pre-mRNA splicing factor SRP55", "SR splicing factor 6"	601944	"splicing factor, arginine/serine-rich 6"	SFRS6		7556075, 20516191	Standard	NM_006275		Approved	SRP55, B52	uc010zwg.2	Q13247	OTTHUMG00000032502	ENST00000244020.3:c.908C>T	20.37:g.42089576C>T	ENSP00000244020:p.Ser303Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6J3|E1P5W6|Q13244|Q13245|Q96J06|Q9UJB8|Q9Y3N7	Missense_Mutation	SNP	ENST00000244020.3	37	CCDS13318.1	.	.	.	.	.	.	.	.	.	.	C	14.62	2.589874	0.46214	.	.	ENSG00000124193	ENST00000244020	T	0.39997	1.05	5.93	5.93	0.95920	.	0.115021	0.64402	D	0.000012	T	0.50667	0.1629	M	0.79693	2.465	0.42950	D	0.994375	B	0.15473	0.013	B	0.06405	0.002	T	0.48714	-0.9011	10	0.52906	T	0.07	.	19.1112	0.93317	0.0:1.0:0.0:0.0	.	303	Q13247	SRSF6_HUMAN	L	303	ENSP00000244020:S303L	ENSP00000244020:S303L	S	+	2	0	SRSF6	41522990	.	.	0.998000	0.56505	0.906000	0.53458	.	.	2.803000	0.96430	0.585000	0.79938	TCG		0.493	SRSF6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079292.1	NM_006275		T	42089576	C	T	42089576	3	4	657	1	0	0	0	0	1	0	0	0	14194	893	31	1	930	1	SFRS6	20	42089576	Missense_Mutation	SNP	C	TCGA-KN-8421-01A-11D-2310-10	25371670	42089576	20935944	47	40779										
WFDC5	149708	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr20	43739299	43739299	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	agaccctggggacacactggCggaagcaagctctgtagcag	14	11	1	1	rs370436377		TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr20:43739299C>T	ENST00000307971.4	-	2	281	c.203G>A	c.(202-204)cGc>cAc	p.R68H	WFDC5_ENST00000372789.4_Missense_Mutation_p.R68H			Q8TCV5	WFDC5_HUMAN	WAP four-disulfide core domain 5	68	WAP 1. {ECO:0000255|PROSITE- ProRule:PRU00722}.					extracellular region (GO:0005576)	serine-type endopeptidase inhibitor activity (GO:0004867)			kidney(1)|large_intestine(1)|lung(1)|ovary(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				GACACACTGGCGGAAGCAAGC	0.622																																					NSCLC(199;98 2227 9943 13455 41914)											0								C	HIS/ARG	0,4406		0,0,2203	73	59	64		203	-1.9	1	20		64	1,8599	1.2+/-3.3	0,1,4299	no	missense	WFDC5	NM_145652.3	29	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	68/124	43739299	1,13005	2203	4300	6503	SO:0001583	missense	149708			AY038181	CCDS33475.1	20q13.11	2013-01-21			ENSG00000175121	ENSG00000175121		"WAP four-disulfide core domain containing"	20477	protein-coding gene	gene with protein product		605161				12206714, 10680116	Standard	NM_145652		Approved	WAP1, dJ211D12.5	uc002xne.2	Q8TCV5	OTTHUMG00000046411	ENST00000307971.4:c.203G>A	20.37:g.43739299C>T	ENSP00000312381:p.Arg68His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5H981|Q6UWE4	Missense_Mutation	SNP	ENST00000307971.4	37		.	.	.	.	.	.	.	.	.	.	C	21.4	4.148427	0.78001	0.0	1.16E-4	ENSG00000175121	ENST00000372789;ENST00000307971	T;T	0.74002	-0.8;-0.8	5.24	-1.92	0.07618	Whey acidic protein, 4-disulphide core (5);	0.707661	0.12732	N	0.443738	T	0.77336	0.4115	L	0.41961	1.31	0.24345	N	0.994946	D	0.89917	1.0	D	0.78314	0.991	T	0.69323	-0.5175	10	0.14252	T	0.57	-35.335	14.0095	0.64486	0.6716:0.3284:0.0:0.0	.	68	Q8TCV5	WFDC5_HUMAN	H	68	ENSP00000361875:R68H;ENSP00000312381:R68H	ENSP00000312381:R68H	R	-	2	0	WFDC5	43172713	0.994000	0.37717	0.997000	0.53966	0.920000	0.55202	-0.019000	0.12546	-0.117000	0.11872	0.585000	0.79938	CGC		0.622	WFDC5-002	KNOWN	not_organism_supported|basic	protein_coding	protein_coding	OTTHUMT00000107192.1			T	43739299	C	T	43739299	3	4	657	1	0	0	0	0	1	0	0	0	17366	768	27	1	180	1	WFDC5	20	43739299	Missense_Mutation	SNP	C	TCGA-KN-8421-01A-11D-2310-10	1649723	43739299	19286221	48	40780										
TMPRSS15	5651	broad.mit.edu;mdanderson.org	37	chr21	19744529	19744529	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	ccacacattttattgtcttcGtcagaaccatctggacagtt	6	11	3	1			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr21:19744529G>A	ENST00000284885.3	-	6	678	c.645C>T	c.(643-645)gaC>gaT	p.D215D		NM_002772.2	NP_002763	P98073	ENTK_HUMAN	transmembrane protease, serine 15	215	LDL-receptor class A 1. {ECO:0000255|PROSITE-ProRule:PRU00124}.					brush border (GO:0005903)|integral component of membrane (GO:0016021)	scavenger receptor activity (GO:0005044)|serine-type endopeptidase activity (GO:0004252)			NS(1)|breast(2)|cervix(1)|endometrium(4)|kidney(7)|large_intestine(19)|lung(36)|ovary(6)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)	85						TATTGTCTTCGTCAGAACCAT	0.443																																																0													139	117	124					21																	19744529		2203	4300	6503	SO:0001819	synonymous_variant	5651				CCDS13571.1	21q21	2010-12-09	2010-04-21	2010-04-21	ENSG00000154646	ENSG00000154646		"Serine peptidases / Transmembrane"	9490	protein-coding gene	gene with protein product	"proenterokinase", "enteropeptidase"	606635	"protease, serine, 7 (enterokinase)"	PRSS7		8052624	Standard	NM_002772		Approved	ENTK, MGC133046	uc002ykw.3	P98073	OTTHUMG00000074518	ENST00000284885.3:c.645C>T	21.37:g.19744529G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKL7	Silent	SNP	ENST00000284885.3	37	CCDS13571.1																																																																																				0.443	TMPRSS15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000158231.2	NM_002772		A	19744529	G	A	19744529	2	1	657	1	0	0	0	0	0	0	0	1	16258	1136	40	1		1	TMPRSS15	21	19744529	Silent	SNP	G	TCGA-KN-8421-01A-11D-2310-10		19744529	28385366	49	40781										
B3GALT5	10317	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr21	41033159	41033159	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	gctacgtgttttctggcgacGtggcgagtcaggtgtacaat	14	8	2	0	rs144752439		TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr21:41033159G>A	ENST00000380620.4	+	5	1265	c.673G>A	c.(673-675)Gtg>Atg	p.V225M	AF064860.5_ENST00000416555.1_RNA|B3GALT5_ENST00000343118.4_Missense_Mutation_p.V225M|B3GALT5_ENST00000380618.1_Missense_Mutation_p.V225M|B3GALT5_ENST00000398714.2_Missense_Mutation_p.V225M			Q9Y2C3	B3GT5_HUMAN	UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 5	225					protein glycosylation (GO:0006486)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity (GO:0008499)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(5)|prostate(1)|skin(4)|stomach(1)|urinary_tract(1)	16		Prostate(19;2.55e-06)				TTCTGGCGACGTGGCGAGTCA	0.522																																																0								G	MET/VAL,MET/VAL,MET/VAL,MET/VAL,MET/VAL	1,4405	2.1+/-5.4	0,1,2202	86	85	86		673,673,673,673,673	3.3	0.1	21	dbSNP_134	86	0,8600		0,0,4300	no	missense,missense,missense,missense,missense	B3GALT5	NM_006057.1,NM_033170.1,NM_033171.1,NM_033172.1,NM_033173.1	21,21,21,21,21	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging	225/311,225/311,225/311,225/311,225/311	41033159	1,13005	2203	4300	6503	SO:0001583	missense	10317			AB020337	CCDS13667.1, CCDS74795.1	21q22.3	2013-02-19			ENSG00000183778	ENSG00000183778		"Beta 3-glycosyltransferases"	920	protein-coding gene	gene with protein product	"homolog of C. elegans Bt toxin resistance gene bre-5", "GlcNAc-beta-1,3-galactosyltransferase 5"	604066				10212226	Standard	NM_006057		Approved	beta3Gal-T5, B3GalT-V, GLCT5, B3T5	uc002yyj.1	Q9Y2C3	OTTHUMG00000086725	ENST00000380620.4:c.673G>A	21.37:g.41033159G>A	ENSP00000369994:p.Val225Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA86|D3DSI3|Q2M3L5|Q53Z19|Q9NY96|Q9P1X6|Q9P1X7	Missense_Mutation	SNP	ENST00000380620.4	37	CCDS13667.1	.	.	.	.	.	.	.	.	.	.	G	12.47	1.947287	0.34377	2.27E-4	0.0	ENSG00000183778	ENST00000380620;ENST00000380618;ENST00000343118;ENST00000398714	T;T;T;T	0.45276	0.9;0.9;0.9;0.9	5.49	3.35	0.38373	.	0.114937	0.36555	N	0.002538	T	0.61073	0.2318	M	0.72576	2.205	0.42482	D	0.992867	D	0.89917	1.0	D	0.76071	0.987	T	0.65639	-0.6119	10	0.59425	D	0.04	.	12.7459	0.57281	0.1557:0.0:0.8443:0.0	.	225	Q9Y2C3	B3GT5_HUMAN	M	225	ENSP00000369994:V225M;ENSP00000369992:V225M;ENSP00000343318:V225M;ENSP00000381699:V225M	ENSP00000343318:V225M	V	+	1	0	B3GALT5	39955029	0.643000	0.27269	0.114000	0.21550	0.059000	0.15707	0.976000	0.29462	1.324000	0.45282	0.655000	0.94253	GTG		0.522	B3GALT5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195008.2	NM_033170		A	41033159	G	A	41033159	3	1	657	1	0	0	0	0	1	0	0	0	1250	1145	40	1	675	1	B3GALT5	21	41033159	Missense_Mutation	SNP	G	TCGA-KN-8421-01A-11D-2310-10	21288630	41033159	7096736	50	40782										
KRTAP10-2	386679	mdanderson.org	37	chr21	45971081	45971081	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	ggggaggaggtgcagcaagcCggctggcagctagactgctg	19	9	0	1			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr21:45971081C>T	ENST00000391621.1	-	1	307	c.261G>A	c.(259-261)ccG>ccA	p.P87P	TSPEAR_ENST00000323084.4_Intron|KRTAP10-2_ENST00000498210.1_Intron|TSPEAR_ENST00000397916.1_Intron	NM_198693.2	NP_941966.1	P60368	KR102_HUMAN	keratin associated protein 10-2	87	22 X 5 AA repeats of C-C-X(3).					keratin filament (GO:0045095)				large_intestine(1)|lung(4)|skin(1)	6						TGCAGCAAGCCGGCTGGCAGC	0.687																																																0													57	61	60					21																	45971081		2202	4292	6494	SO:0001819	synonymous_variant	386679			AJ566381	CCDS42955.1	21q22.3	2007-10-05			ENSG00000205445	ENSG00000205445		"Keratin associated proteins"	22967	protein-coding gene	gene with protein product				KRTAP18-2			Standard	NM_198693		Approved	KAP10.2, KAP18.2	uc002zfi.1	P60368	OTTHUMG00000057625	ENST00000391621.1:c.261G>A	21.37:g.45971081C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q70LJ5	Silent	SNP	ENST00000391621.1	37	CCDS42955.1																																																																																				0.687	KRTAP10-2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128027.1			T	45971081	C	T	45971081	2	4	657	1	0	0	0	0	0	0	0	1	8516	639	23	1		1	KRTAP10-2	21	45971081	Silent	SNP	C	TCGA-KN-8421-01A-11D-2310-10	4937922	45971081	2158814	51	40783										
GAS2L1	10634	ucsc.edu;mdanderson.org	37	chr22	29704662	29704662	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	gacaccactgaaaccgccccCgcaccagggactcctgcccg	9	20	0	1	rs56037813	byFrequency	TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr22:29704662C>G	ENST00000406549.3	+	2	717	c.567C>G	c.(565-567)ccC>ccG	p.P189P	GAS2L1_ENST00000471961.1_Silent_p.P189P|GAS2L1_ENST00000360113.2_Silent_p.P189P|GAS2L1_ENST00000407647.2_Silent_p.P189P|GAS2L1_ENST00000403764.1_Silent_p.P189P|GAS2L1_ENST00000407854.1_Silent_p.P189P|GAS2L1_ENST00000341313.6_Silent_p.P189P	NM_001278730.1	NP_001265659.1	Q99501	GA2L1_HUMAN	growth arrest-specific 2 like 1	189					cell cycle arrest (GO:0007050)|cellular response to starvation (GO:0009267)|cellular response to thyroid hormone stimulus (GO:0097067)|microtubule bundle formation (GO:0001578)|negative regulation of cell growth (GO:0030308)|negative regulation of erythrocyte differentiation (GO:0045647)|negative regulation of gene expression (GO:0010629)|negative regulation of microtubule depolymerization (GO:0007026)|regulation of cell cycle (GO:0051726)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)	cytoskeletal adaptor activity (GO:0008093)|microtubule binding (GO:0008017)|thyroid hormone receptor binding (GO:0046966)			endometrium(2)|lung(2)|prostate(1)	5						AAACCGCCCCCGCACCAGGGA	0.706													C|||	99	0.0197684	0.0023	0.0274	5008	,	,		13609	0.0		0.0706	False		,,,				2504	0.0061															0								C	,,	51,4287		0,51,2118	8	12	11		567,567,567	-9.1	0	22	dbSNP_129	11	506,8000		17,472,3764	no	coding-synonymous,coding-synonymous,coding-synonymous	GAS2L1	NM_006478.3,NM_152236.1,NM_152237.1	,,	17,523,5882	GG,GC,CC		5.9487,1.1757,4.3367	,,	189/682,189/682,189/338	29704662	557,12287	2169	4253	6422	SO:0001819	synonymous_variant	10634			BC001782	CCDS63438.1, CCDS74840.1	22q12.2	2008-06-11			ENSG00000185340	ENSG00000185340			16955	protein-coding gene	gene with protein product		602128				8975699, 12584248, 1607387	Standard	NM_001278730		Approved	GAR22	uc003afc.1	Q99501	OTTHUMG00000151108	ENST00000406549.3:c.567C>G	22.37:g.29704662C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B5MCR7|Q53EN7|Q92640|Q9BUY9	Silent	SNP	ENST00000406549.3	37																																																																																					0.706	GAS2L1-002	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000321365.1	NM_006478		G	29704662	C	G	29704662	2	3	657	1	0	0	0	0	0	0	0	1	6253	639	23	4		4	GAS2L1	22	29704662	Silent	SNP	C	TCGA-KN-8421-01A-11D-2310-10		29704662	21599904	52	40784										
ELFN2	114794	bcgsc.ca	37	chr22	37770611	37770611	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	gtactgcacgaggatgtacaTcttgctgtaggggtgtggga	16	6	1	0			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chr22:37770611T>C	ENST00000402918.2	-	3	1749	c.964A>G	c.(964-966)Atg>Gtg	p.M322V	RP1-63G5.8_ENST00000609322.1_RNA|ELFN2_ENST00000435824.1_5'Flank|RP1-63G5.5_ENST00000430883.1_RNA	NM_052906.3	NP_443138.2	Q5R3F8	PPR29_HUMAN	extracellular leucine-rich repeat and fibronectin type III domain containing 2	322	Fibronectin type-III.				negative regulation of phosphatase activity (GO:0010923)	extracellular space (GO:0005615)|integral component of membrane (GO:0016021)	phosphatase binding (GO:0019902)|protein phosphatase inhibitor activity (GO:0004864)			NS(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(13)|ovary(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	35	Melanoma(58;0.0574)					AGGATGTACATCTTGCTGTAG	0.582																																																0													355	319	331					22																	37770611		2203	4300	6503	SO:0001583	missense	114794			BC041596	CCDS33642.1	22q13.1	2013-02-11	2011-10-27	2011-10-27	ENSG00000166897	ENSG00000166897		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits", "Fibronectin type III domain containing"	29396	protein-coding gene	gene with protein product			"leucine rich repeat containing 62", "extracellular leucine-rich repeat and fibronectin type III containing 2", "extracellular leucine-rich repeat and fibronectin type III domain containing 2", "protein phosphatase 1, regulatory subunit 29"	LRRC62, PPP1R29		17868438	Standard	XR_244427		Approved	dJ63G5.3, KIAA1904	uc003asq.4	Q5R3F8	OTTHUMG00000150558	ENST00000402918.2:c.964A>G	22.37:g.37770611T>C	ENSP00000385277:p.Met322Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q96PY3	Missense_Mutation	SNP	ENST00000402918.2	37	CCDS33642.1	.	.	.	.	.	.	.	.	.	.	T	10.64	1.406807	0.25378	.	.	ENSG00000166897	ENST00000349653;ENST00000402918	T;T	0.04194	3.68;3.68	5.24	4.12	0.48240	.	0.045384	0.85682	D	0.000000	T	0.08223	0.0205	M	0.64997	1.995	0.45594	D	0.998538	P	0.36412	0.552	B	0.37731	0.257	T	0.07347	-1.0777	10	0.62326	D	0.03	-38.7595	12.568	0.56320	0.0:0.0:0.2406:0.7594	.	322	Q5R3F8	PPR29_HUMAN	V	322	ENSP00000300147:M322V;ENSP00000385277:M322V	ENSP00000300147:M322V	M	-	1	0	ELFN2	36100557	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	4.084000	0.57650	1.979000	0.57680	0.496000	0.49642	ATG		0.582	ELFN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318900.2	NM_052906		C	37770611	T	C	37770611	3	2	657	1	0	0	0	0	1	0	0	0	5060	1435	50	3	1502	3	ELFN2	22	37770611	Missense_Mutation	SNP	T	TCGA-KN-8421-01A-11D-2310-10	8065949	37770611	13533955	53	40785										
ZRSR2	8233	mdanderson.org	37	chrX	15838366	15838366	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	gcagccctttctctgtttaaCggacgatggtatgcaggacg	12	10	1	0	rs2301724	byFrequency	TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chrX:15838366C>T	ENST00000307771.7	+	10	888	c.864C>T	c.(862-864)aaC>aaT	p.N288N		NM_005089.3	NP_005080.1	Q15696	U2AFM_HUMAN	zinc finger (CCCH type), RNA-binding motif and serine/arginine rich 2	288	RRM. {ECO:0000255|PROSITE- ProRule:PRU00176}.				mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|spliceosomal complex assembly (GO:0000245)	U12-type spliceosomal complex (GO:0005689)	metal ion binding (GO:0046872)|nucleotide binding (GO:0000166)|pre-mRNA 3'-splice site binding (GO:0030628)			breast(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(38)|kidney(1)|large_intestine(2)|ovary(2)	48	Hepatocellular(33;0.183)					CTCTGTTTAACGGACGATGGT	0.413			"F, S, Mis"		"MDS, CLL"								C|||	2105	0.557616	0.4191	0.4035	3775	,	,		15276	0.4504		0.3976	False		,,,				2504	0.4264				NSCLC(197;1631 3042 5741 31152)		Rec	yes		X	Xp22.1	8233	"zinc finger (CCCH type), RNA-binding motif and serine/arginine rich 2"		L	0								C		2087,1748		475,822,315,335,256	162	153	156		864	-3.4	0.7	X	dbSNP_100	156	3278,3450		555,1233,935,640,937	no	coding-synonymous	ZRSR2	NM_005089.3		1030,2055,1250,975,1193	TT,TC,T,CC,C		48.7218,45.5802,49.2095		288/483	15838366	5365,5198	2203	4300	6503	SO:0001819	synonymous_variant	8233			BC050451	CCDS14172.1	Xp22.1	2014-09-17	2006-09-26	2006-09-26	ENSG00000169249	ENSG00000169249		"Zinc fingers, CCCH-type domain containing", "RNA binding motif (RRM) containing"	23019	protein-coding gene	gene with protein product		300028	"U2(RNU2) small nuclear RNA auxiliary factor 1-like 2", "U2 small nuclear RNA auxiliary factor 1-like 2"	U2AF1L2		8586425, 9237760, 15146077	Standard	NM_005089		Approved	U2AF1-RS2, URP	uc004cxg.4	Q15696	OTTHUMG00000021184	ENST00000307771.7:c.864C>T	X.37:g.15838366C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14D69	Silent	SNP	ENST00000307771.7	37	CCDS14172.1																																																																																				0.413	ZRSR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055889.1	NM_005089		T	15838366	C	T	15838366	2	4	657	1	0	0	0	0	0	0	0	1	18237	535	19	1		1	ZRSR2	23	15838366	Silent	SNP	C	TCGA-KN-8421-01A-11D-2310-10		15838366	139432194	54	40786										
NKAP	79576	broad.mit.edu	37	chrX	119072773	119072773	+	Splice_Site	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	ctctctctctcacttaatctCctagcagataaagacatgta	4	12	4	2			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chrX:119072773C>T	ENST00000371410.3	-	2	553	c.387G>A	c.(385-387)aaG>aaA	p.K129K	NKAP_ENST00000477789.1_5'Flank	NM_024528.3	NP_078804.2	Q8N5F7	NKAP_HUMAN	NFKB activating protein	129					granulocyte differentiation (GO:0030851)|hematopoietic stem cell proliferation (GO:0071425)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|Notch signaling pathway (GO:0007219)|positive regulation of alpha-beta T cell differentiation (GO:0046638)|stem cell maintenance (GO:0019827)|T cell differentiation in thymus (GO:0033077)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|chromatin DNA binding (GO:0031490)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(1)|lung(4)|ovary(2)|prostate(1)	20						CACTTAATCTCCTAGCAGATA	0.348																																																0													70	71	70					X																	119072773		2203	4297	6500	SO:0001630	splice_region_variant	79576			BC012770	CCDS14592.1	Xq24	2010-07-20			ENSG00000101882	ENSG00000101882			29873	protein-coding gene	gene with protein product	"NF kappaB activating protein"	300766				14550261	Standard	NM_024528		Approved	FLJ22626	uc004esh.3	Q8N5F7	OTTHUMG00000022284	ENST00000371410.3:c.387-1G>A	X.37:g.119072773C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IPW6|Q96BQ2|Q9H638	Silent	SNP	ENST00000371410.3	37	CCDS14592.1																																																																																				0.348	NKAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058072.1	NM_024528	Silent	T	119072773	C	T	119072773	5	4	657	1	0	0	0	0	0	0	1	0	10446	869	30	2	892	2	NKAP	23	119072773	Splice_Site	SNP	C	TCGA-KN-8421-01A-11D-2310-10	103234407	119072773	36197787	55	40787										
ZBTB33	10009	broad.mit.edu	37	chrX	119389135	119389135	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0535714285714286	3	1	0.889894419306184	5.04273504273504	0.63034188034188	1	1	0	tgggtataaggttgacactgGaaaagaacctccagtaggga	13	6	0	2			TCGA-KN-8421-01A-11D-2310-10	TCGA-KN-8421-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ba686386-8113-4885-b20f-6ad09a295604	9d5ee3f8-490f-4865-bb90-fe0a1bbf3643	g.chrX:119389135G>A	ENST00000326624.2	+	2	2093	c.1865G>A	c.(1864-1866)gGa>gAa	p.G622E	ZBTB33_ENST00000557385.1_Missense_Mutation_p.G622E	NM_006777.3	NP_006768.1	Q86T24	KAISO_HUMAN	zinc finger and BTB domain containing 33	622	Interaction with CTNND1. {ECO:0000250}.|Required for DNA-binding. {ECO:0000250}.				intracellular signal transduction (GO:0035556)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|methyl-CpG binding (GO:0008327)|sequence-specific DNA binding (GO:0043565)			breast(2)|central_nervous_system(2)|endometrium(6)|large_intestine(6)|lung(5)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	26						GTTGACACTGGAAAAGAACCT	0.378																																																0													108	102	104					X																	119389135		2202	4300	6502	SO:0001583	missense	10009			BC042753	CCDS14596.1	Xq23	2013-01-09			ENSG00000177485	ENSG00000177485		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	16682	protein-coding gene	gene with protein product		300329					Standard	NM_001184742		Approved	ZNF-kaiso, kaiso, WUGSC:H_DJ525N14.1, KAISO, ZNF348	uc004esn.1	Q86T24	OTTHUMG00000171159	ENST00000326624.2:c.1865G>A	X.37:g.119389135G>A	ENSP00000314153:p.Gly622Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5U6|O00319|Q7Z361|Q8IVP6|Q8N3P0	Missense_Mutation	SNP	ENST00000326624.2	37	CCDS14596.1	.	.	.	.	.	.	.	.	.	.	G	7.271	0.607135	0.14002	.	.	ENSG00000177485;ENSG00000177485;ENSG00000258974	ENST00000326624;ENST00000540105;ENST00000557385	T;T	0.09255	3.0;3.0	5.88	5.88	0.94601	.	0.436525	0.22660	N	0.057216	T	0.06371	0.0164	N	0.14661	0.345	0.36328	D	0.85869	P	0.37500	0.597	B	0.33799	0.17	T	0.35076	-0.9803	10	0.45353	T	0.12	-4.2508	8.8319	0.35089	0.0812:0.1475:0.7713:0.0	.	622	Q86T24	KAISO_HUMAN	E	622	ENSP00000314153:G622E;ENSP00000450969:G622E	ENSP00000314153:G622E	G	+	2	0	ZBTB33;AC002086.1	119273163	0.999000	0.42202	0.994000	0.49952	0.986000	0.74619	3.660000	0.54496	2.474000	0.83562	0.600000	0.82982	GGA		0.378	ZBTB33-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058085.2	NM_006777		A	119389135	G	A	119389135	3	1	657	1	0	0	0	0	1	0	0	0	17548	1174	41	2	1867	2	ZBTB33	23	119389135	Missense_Mutation	SNP	G	TCGA-KN-8421-01A-11D-2310-10	316362	119389135	35881425	56	40788										
PRAMEF1	65121	mdanderson.org	37	chr1	12854401	12854401	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	tatacctgaatagtattcaaGagctggaaattcgcaacatg	8	7	1	2	rs201717831		TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr1:12854401G>T	ENST00000332296.7	+	3	728	c.625G>T	c.(625-627)Gag>Tag	p.E209*	PRAMEF1_ENST00000400814.3_5'Flank	NM_023013.2	NP_075389.1	O95521	PRAM1_HUMAN	PRAME family member 1	209					negative regulation of apoptotic process (GO:0043066)|negative regulation of cell differentiation (GO:0045596)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)					cervix(1)|endometrium(2)|kidney(3)|large_intestine(6)|lung(14)|ovary(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	35	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TAGTATTCAAGAGCTGGAAAT	0.398																																																0													363	333	343					1																	12854401		2203	4300	6503	SO:0001587	stop_gained	65121			AL049686	CCDS148.1	1p36.21	2013-01-17			ENSG00000116721	ENSG00000116721		"-"	28840	protein-coding gene	gene with protein product							Standard	NM_023013		Approved		uc001auj.2	O95521	OTTHUMG00000001928	ENST00000332296.7:c.625G>T	1.37:g.12854401G>T	ENSP00000332134:p.Glu209*	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UQP2	Nonsense_Mutation	SNP	ENST00000332296.7	37	CCDS148.1	.	.	.	.	.	.	.	.	.	.	.	16.09	3.023241	0.54683	.	.	ENSG00000116721	ENST00000332296	.	.	.	1.74	0.76	0.18442	.	0.742629	0.12834	N	0.435382	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	0.72032	D	0.01	.	3.5875	0.07977	0.2694:0.0:0.7306:0.0	.	.	.	.	X	209	.	ENSP00000332134:E209X	E	+	1	0	PRAMEF1	12776988	0.002000	0.14202	0.001000	0.08648	0.004000	0.04260	0.426000	0.21363	0.256000	0.21614	0.543000	0.68304	GAG		0.398	PRAMEF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005458.1	NM_023013		T	12854401	G	T	12854401	4	4	658	1	0	0	0	0	0	1	0	0	12435	943	33	4	631	4	PRAMEF1	1	12854401	Nonsense_Mutation	SNP	G	TCGA-KN-8422-01A-11D-2310-10		12854401	236396220	1	40789										
PRAMEF4	400735	mdanderson.org	37	chr1	12939548	12939548	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	tcagcaccataactctcccgGggggcaggatacagctccac	10	15	2	0	rs28599804	byFrequency	TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr1:12939548G>C	ENST00000235349.5	-	4	1324	c.1254C>G	c.(1252-1254)ccC>ccG	p.P418P		NM_001009611.2	NP_001009611.1	O60810	PRAM4_HUMAN	PRAME family member 4	418					negative regulation of apoptotic process (GO:0043066)|negative regulation of cell differentiation (GO:0045596)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)					breast(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(10)|ovary(2)|prostate(3)|skin(1)	24	Ovarian(185;0.249)	Lung NSC(185;3.67e-05)|all_lung(284;4.03e-05)|Renal(390;0.000147)|Breast(348;0.000278)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AACTCTCCCGGGGGGCAGGAT	0.517																																																0													93	104	100					1																	12939548		1503	2686	4189	SO:0001819	synonymous_variant	400735				CCDS30592.1	1p36.21	2013-01-17			ENSG00000243073	ENSG00000243073		"-"	31971	protein-coding gene	gene with protein product							Standard	NM_001009611		Approved	RP5-845O24.6	uc001aun.2	O60810	OTTHUMG00000001987	ENST00000235349.5:c.1254C>G	1.37:g.12939548G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5LJB5	Silent	SNP	ENST00000235349.5	37	CCDS30592.1																																																																																				0.517	PRAMEF4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005518.1	NM_001009611		C	12939548	G	C	12939548	2	2	658	1	0	0	0	0	0	0	0	1	12447	1219	43	4		4	PRAMEF4	1	12939548	Silent	SNP	G	TCGA-KN-8422-01A-11D-2310-10	85147	12939548	236311073	2	40790										
CPT2	1376	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	53676357	53676357	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	cccattaaggaccttgtccaCttgtcccacaatatgctgca	6	14	0	0			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr1:53676357C>G	ENST00000371486.3	+	4	1526	c.1011C>G	c.(1009-1011)caC>caG	p.H337Q	RP5-1024G6.2_ENST00000452466.1_RNA	NM_000098.2	NP_000089.1	P23786	CPT2_HUMAN	carnitine palmitoyltransferase 2	337					carnitine shuttle (GO:0006853)|cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation (GO:0006635)|small molecule metabolic process (GO:0044281)	mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|nucleus (GO:0005634)	carnitine O-palmitoyltransferase activity (GO:0004095)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(2)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	15					L-Carnitine(DB00583)|Perhexiline(DB01074)	ACCTTGTCCACTTGTCCCACA	0.498																																																0													81	75	77					1																	53676357		2203	4300	6503	SO:0001583	missense	1376			BC002445	CCDS575.1	1p32.3	2014-01-09	2009-03-04		ENSG00000157184	ENSG00000157184	2.3.1.21		2330	protein-coding gene	gene with protein product		600650	"carnitine palmitoyltransferase II"	CPT1		1339389	Standard	NM_000098		Approved	CPTASE	uc001cvb.4	P23786	OTTHUMG00000008942	ENST00000371486.3:c.1011C>G	1.37:g.53676357C>G	ENSP00000360541:p.His337Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6S0|Q5SW68|Q9BQ26	Missense_Mutation	SNP	ENST00000371486.3	37	CCDS575.1	.	.	.	.	.	.	.	.	.	.	C	7.566	0.665649	0.14710	.	.	ENSG00000157184	ENST00000371486	D	0.88741	-2.42	5.72	-1.81	0.07882	.	0.086182	0.85682	D	0.000000	D	0.86184	0.5872	L	0.42008	1.315	0.31634	N	0.648631	D	0.55800	0.973	P	0.52514	0.701	D	0.84180	0.0439	10	0.28530	T	0.3	-10.899	11.4141	0.49941	0.0:0.5086:0.0:0.4914	.	337	P23786	CPT2_HUMAN	Q	337	ENSP00000360541:H337Q	ENSP00000360541:H337Q	H	+	3	2	CPT2	53448945	0.998000	0.40836	0.416000	0.26546	0.686000	0.39977	1.073000	0.30691	-0.338000	0.08413	-0.767000	0.03436	CAC		0.498	CPT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000024757.1	NM_000098		G	53676357	C	G	53676357	3	3	658	1	0	0	0	0	1	0	0	0	3836	564	20	4	1025	4	CPT2	1	53676357	Missense_Mutation	SNP	C	TCGA-KN-8422-01A-11D-2310-10	40736809	53676357	195574264	3	40791										
RBMXL1	494115	mdanderson.org	37	chr1	89448841	89448841	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	tcacgagaacttgggtaatcTctgcttgaatagctgtcttt	9	8	3	2	rs150045246		TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr1:89448841T>C	ENST00000321792.5	-	2	1096	c.669A>G	c.(667-669)agA>agG	p.R223R	CCBL2_ENST00000370491.3_Intron|RBMXL1_ENST00000399794.2_Silent_p.R223R|RBMXL1_ENST00000413769.1_5'Flank|CCBL2_ENST00000446900.2_Intron|CCBL2_ENST00000260508.4_Intron|CCBL2_ENST00000370485.2_Intron	NM_019610.5	NP_062556.2	Q96E39	RMXL1_HUMAN	RNA binding motif protein, X-linked-like 1	223					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|RNA binding (GO:0003723)										TTGGGTAATCTCTGCTTGAAT	0.448																																																0													185	168	174					1																	89448841		2203	4300	6503	SO:0001819	synonymous_variant	494115			BC012942	CCDS716.1	1p22.2	2013-02-12	2007-01-04	2007-01-04	ENSG00000213516	ENSG00000213516		"RNA binding motif (RRM) containing"	25073	protein-coding gene	gene with protein product	"kynurenine aminotransferase III"					10441733	Standard	NM_019610		Approved	KAT3	uc001dms.3	Q96E39	OTTHUMG00000010661	ENST00000321792.5:c.669A>G	1.37:g.89448841T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000321792.5	37	CCDS716.1																																																																																				0.448	RBMXL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029403.3	NM_019610		C	89448841	T	C	89448841	2	2	658	1	0	0	0	0	0	0	0	1	13166	1548	54	3		3	RBMXL1	1	89448841	Silent	SNP	T	TCGA-KN-8422-01A-11D-2310-10	35772484	89448841	159801780	4	40792			1	99		2	2	28	N	T_A	5.930681e-05
RBMXL1	494115	mdanderson.org	37	chr1	89448868	89448868	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	gaatagctgtctttagtagaAtacccatcatctcttgggga	9	8	3	1	rs200907077		TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr1:89448868A>T	ENST00000321792.5	-	2	1069	c.642T>A	c.(640-642)taT>taA	p.Y214*	CCBL2_ENST00000370491.3_Intron|RBMXL1_ENST00000399794.2_Nonsense_Mutation_p.Y214*|RBMXL1_ENST00000413769.1_5'Flank|CCBL2_ENST00000446900.2_Intron|CCBL2_ENST00000260508.4_Intron|CCBL2_ENST00000370485.2_Intron	NM_019610.5	NP_062556.2	Q96E39	RMXL1_HUMAN	RNA binding motif protein, X-linked-like 1	214					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|RNA binding (GO:0003723)										CTTTAGTAGAATACCCATCAT	0.453																																																0													158	152	154					1																	89448868		2203	4298	6501	SO:0001587	stop_gained	494115			BC012942	CCDS716.1	1p22.2	2013-02-12	2007-01-04	2007-01-04	ENSG00000213516	ENSG00000213516		"RNA binding motif (RRM) containing"	25073	protein-coding gene	gene with protein product	"kynurenine aminotransferase III"					10441733	Standard	NM_019610		Approved	KAT3	uc001dms.3	Q96E39	OTTHUMG00000010661	ENST00000321792.5:c.642T>A	1.37:g.89448868A>T	ENSP00000318415:p.Tyr214*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000321792.5	37	CCDS716.1	.	.	.	.	.	.	.	.	.	.	A	38	7.031767	0.98013	.	.	ENSG00000213516	ENST00000321792;ENST00000399794	.	.	.	1.53	-0.998	0.10212	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-4.4608	5.5401	0.17033	0.3541:0.0:0.6459:0.0	.	.	.	.	X	214	.	ENSP00000318415:Y214X	Y	-	3	2	RBMXL1	89221456	0.964000	0.33143	0.990000	0.47175	0.840000	0.47671	-0.198000	0.09505	-0.074000	0.12820	0.254000	0.18369	TAT		0.453	RBMXL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029403.3	NM_019610		T	89448868	A	T	89448868	4	4	658	1	0	0	0	0	0	1	0	0	13166	108	4	5	534	5	RBMXL1	1	89448868	Nonsense_Mutation	SNP	A	TCGA-KN-8422-01A-11D-2310-10	27	89448868	159801753	5	40793			1	99		2	2	28	N	T_A	5.930681e-05
RPRD2	23248	broad.mit.edu	37	chr1	150432553	150432553	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	cagtcgaggacaggaaggaaAaacctgcagagaagtcagct	13	8	1	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr1:150432553A>G	ENST00000369068.4	+	9	1175	c.1171A>G	c.(1171-1173)Aaa>Gaa	p.K391E	RPRD2_ENST00000401000.4_Missense_Mutation_p.K365E|RPRD2_ENST00000539519.1_Missense_Mutation_p.K365E|RPRD2_ENST00000492220.1_3'UTR	NM_015203.3	NP_056018.2	Q5VT52	RPRD2_HUMAN	regulation of nuclear pre-mRNA domain containing 2	391						DNA-directed RNA polymerase II, holoenzyme (GO:0016591)				central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(4)|lung(20)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	37						CAGGAAGGAAAAACCTGCAGA	0.403																																																0													90	88	89					1																	150432553		1895	4123	6018	SO:0001583	missense	23248			BX641025	CCDS44216.1, CCDS72907.1	1q21.2	2012-02-09	2008-08-15	2008-07-28	ENSG00000163125	ENSG00000163125			29039	protein-coding gene	gene with protein product		614695	"KIAA0460"	KIAA0460		22231121	Standard	XM_005245033		Approved	FLJ32145, HSPC099	uc009wlr.3	Q5VT52	OTTHUMG00000012808	ENST00000369068.4:c.1171A>G	1.37:g.150432553A>G	ENSP00000358064:p.Lys391Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6N8|B3KPT1|B4E2Q6|O75048|Q5VT51|Q5VT53|Q6MZL4|Q86XD2|Q9P0D7	Missense_Mutation	SNP	ENST00000369068.4	37	CCDS44216.1	.	.	.	.	.	.	.	.	.	.	A	15.63	2.889132	0.52014	.	.	ENSG00000163125	ENST00000401000;ENST00000539519;ENST00000369068	T;T;T	0.46451	0.87;0.87;0.87	5.02	5.02	0.67125	.	0.323100	0.33980	N	0.004380	T	0.37679	0.1012	L	0.50333	1.59	0.36784	D	0.884518	P;D;D	0.58268	0.941;0.97;0.982	P;P;P	0.58013	0.453;0.681;0.831	T	0.27226	-1.0080	10	0.33940	T	0.23	-12.9847	9.3946	0.38394	0.9192:0.0:0.0808:0.0	.	365;391;365	B4E2Q6;Q5VT52;Q5VT52-3	.;RPRD2_HUMAN;.	E	365;365;391	ENSP00000383785:K365E;ENSP00000445482:K365E;ENSP00000358064:K391E	ENSP00000358064:K391E	K	+	1	0	RPRD2	148699177	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	5.345000	0.65987	2.235000	0.73313	0.459000	0.35465	AAA		0.403	RPRD2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000035844.1	NM_015203		G	150432553	A	G	150432553	3	3	658	1	0	0	0	0	1	0	0	0	13630	15	1	3	1205	3	RPRD2	1	150432553	Missense_Mutation	SNP	A	TCGA-KN-8422-01A-11D-2310-10	60983685	150432553	98818068	6	40794										
FLG	2312	mdanderson.org	37	chr1	152276282	152276282	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	tgaccggccacgtgtggactCttggtggctctgctgatggg	16	10	2	2	rs55707024	byFrequency	TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr1:152276282C>G	ENST00000368799.1	-	3	11115	c.11080G>C	c.(11080-11082)Gag>Cag	p.E3694Q	FLG-AS1_ENST00000593011.1_RNA|FLG-AS1_ENST00000420707.1_RNA	NM_002016.1	NP_002007.1	P20930	FILA_HUMAN	filaggrin	3694	Ser-rich.				establishment of skin barrier (GO:0061436)|keratinocyte differentiation (GO:0030216)|multicellular organismal development (GO:0007275)	cytoplasmic membrane-bounded vesicle (GO:0016023)|intermediate filament (GO:0005882)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|structural molecule activity (GO:0005198)	p.E3694Q(1)		autonomic_ganglia(1)|breast(13)|central_nervous_system(5)|cervix(2)|endometrium(38)|haematopoietic_and_lymphoid_tissue(1)|kidney(16)|large_intestine(57)|lung(211)|ovary(13)|pancreas(1)|prostate(15)|skin(24)|stomach(5)|upper_aerodigestive_tract(10)|urinary_tract(12)	424	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CGTGTGGACTCTTGGTGGCTC	0.587									Ichthyosis				C|||	911	0.181909	0.0772	0.232	5008	,	,		20697	0.3452		0.1004	False		,,,				2504	0.2035															1	Substitution - Missense(1)	skin(1)											50	56	54					1																	152276282		2202	4278	6480	SO:0001583	missense	2312	Familial Cancer Database	X-linked Ichthyosis, Steroid Sulfatase Deficiency, Ichthyosis Vulgaris	XM_048104	CCDS30860.1	1q21.3	2013-01-10			ENSG00000143631	ENSG00000143631		"EF-hand domain containing"	3748	protein-coding gene	gene with protein product		135940				2740331, 2248957, 16444271	Standard	NM_002016		Approved		uc001ezu.1	P20930	OTTHUMG00000012202	ENST00000368799.1:c.11080G>C	1.37:g.152276282C>G	ENSP00000357789:p.Glu3694Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q01720|Q5T583|Q9UC71	Missense_Mutation	SNP	ENST00000368799.1	37	CCDS30860.1	.	.	.	.	.	.	.	.	.	.	C	8.701	0.909632	0.17833	.	.	ENSG00000143631	ENST00000368799	T	0.01787	4.64	2.52	-3.46	0.04767	.	.	.	.	.	T	0.01454	0.0047	M	0.75447	2.3	0.09310	N	1	D	0.65815	0.995	P	0.61070	0.883	T	0.34254	-0.9836	9	0.20519	T	0.43	.	0.3502	0.00348	0.1921:0.291:0.2301:0.2868	rs55707024;rs58436539	3694	P20930	FILA_HUMAN	Q	3694	ENSP00000357789:E3694Q	ENSP00000357789:E3694Q	E	-	1	0	FLG	150542906	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-1.189000	0.03061	-0.738000	0.04817	0.552000	0.68991	GAG		0.587	FLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033742.1	NM_002016		G	152276282	C	G	152276282	3	3	658	1	0	0	0	0	1	0	0	0	5929	922	32	4	1109	4	FLG	1	152276282	Missense_Mutation	SNP	C	TCGA-KN-8422-01A-11D-2310-10	1843729	152276282	96974339	7	40795										
PEAR1	375033	broad.mit.edu	37	chr1	156877478	156877478	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	cttgccaaaatggaggtgtcTtccaaaccccacagggctcc	9	14	1	0			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr1:156877478T>C	ENST00000338302.3	+	8	946	c.721T>C	c.(721-723)Ttc>Ctc	p.F241L	PEAR1_ENST00000292357.7_Missense_Mutation_p.F241L			Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	241	EGF-like 2. {ECO:0000255|PROSITE- ProRule:PRU00076}.				recognition of apoptotic cell (GO:0043654)	integral component of membrane (GO:0016021)|phagocytic cup (GO:0001891)				breast(1)|central_nervous_system(2)|endometrium(4)|large_intestine(6)|lung(22)|ovary(4)|skin(3)|upper_aerodigestive_tract(1)	43	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TGGAGGTGTCTTCCAAACCCC	0.617																																																0													126	129	128					1																	156877478		2203	4300	6503	SO:0001583	missense	375033			AK098809	CCDS30892.1	1q23.1	2008-02-05	2007-10-25	2007-10-25	ENSG00000187800	ENSG00000187800			33631	protein-coding gene	gene with protein product		610278	"multiple EGF-like-domains 12"	MEGF12		15851471	Standard	NM_001080471		Approved	JEDI, FLJ00193	uc001fqj.1	Q5VY43	OTTHUMG00000041293	ENST00000338302.3:c.721T>C	1.37:g.156877478T>C	ENSP00000344465:p.Phe241Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TEK2	Missense_Mutation	SNP	ENST00000338302.3	37	CCDS30892.1	.	.	.	.	.	.	.	.	.	.	T	17.77	3.470186	0.63625	.	.	ENSG00000187800	ENST00000338302;ENST00000292357	T;T	0.33216	1.42;1.42	5.04	3.91	0.45181	Epidermal growth factor-like (1);Epidermal growth factor-like, type 3 (1);	0.873050	0.09701	N	0.766941	T	0.10852	0.0265	L	0.36672	1.1	0.23063	N	0.998359	B;B	0.17465	0.022;0.002	B;B	0.06405	0.002;0.001	T	0.34625	-0.9821	10	0.87932	D	0	.	8.4374	0.32795	0.0:0.0967:0.0:0.9033	.	42;241	Q8N780;Q5VY43	.;PEAR1_HUMAN	L	241	ENSP00000344465:F241L;ENSP00000292357:F241L	ENSP00000292357:F241L	F	+	1	0	PEAR1	155144102	0.994000	0.37717	0.778000	0.31720	0.882000	0.50991	5.023000	0.64084	0.887000	0.36136	0.459000	0.35465	TTC		0.617	PEAR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098937.2	NM_001080471		C	156877478	T	C	156877478	3	2	658	1	0	0	0	0	1	0	0	0	11719	1609	56	3	743	3	PEAR1	1	156877478	Missense_Mutation	SNP	T	TCGA-KN-8422-01A-11D-2310-10	4601196	156877478	92373143	8	40796										
OR10Z1	128368	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	158576392	158576392	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	catcaggctggatagccatcTgcacacccccatgtacctct	7	16	3	0			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr1:158576392T>A	ENST00000361284.1	+	1	164	c.164T>A	c.(163-165)cTg>cAg	p.L55Q		NM_001004478.1	NP_001004478.1	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z, member 1	55						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(2)|large_intestine(6)|lung(21)|pancreas(1)|prostate(3)|skin(4)	37	all_hematologic(112;0.0378)					GATAGCCATCTGCACACCCCC	0.512																																																0													257	247	250					1																	158576392		2203	4300	6503	SO:0001583	missense	128368			AB065635	CCDS30901.1	1q23.1	2012-08-23			ENSG00000198967	ENSG00000198967		"GPCR / Class A : Olfactory receptors"	14996	protein-coding gene	gene with protein product							Standard	NM_001004478		Approved		uc010pio.2	Q8NGY1	OTTHUMG00000019637	ENST00000361284.1:c.164T>A	1.37:g.158576392T>A	ENSP00000354707:p.Leu55Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VYL0|Q6IFR7	Missense_Mutation	SNP	ENST00000361284.1	37	CCDS30901.1	.	.	.	.	.	.	.	.	.	.	T	17.74	3.465083	0.63513	.	.	ENSG00000198967	ENST00000361284	T	0.14893	2.47	5.36	5.36	0.76844	GPCR, rhodopsin-like superfamily (1);	0.000000	0.32244	N	0.006371	T	0.55000	0.1893	H	0.99689	4.705	0.28824	N	0.897528	D	0.89917	1.0	D	0.87578	0.998	T	0.71417	-0.4599	10	0.87932	D	0	.	14.4836	0.67599	0.0:0.0:0.0:1.0	.	55	Q8NGY1	O10Z1_HUMAN	Q	55	ENSP00000354707:L55Q	ENSP00000354707:L55Q	L	+	2	0	OR10Z1	156843016	1.000000	0.71417	0.142000	0.22268	0.716000	0.41182	7.809000	0.86057	2.246000	0.74042	0.533000	0.62120	CTG		0.512	OR10Z1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051853.1	NM_001004478		A	158576392	T	A	158576392	3	1	658	1	0	0	0	0	1	0	0	0	10930	1580	55	5	166	5	OR10Z1	1	158576392	Missense_Mutation	SNP	T	TCGA-KN-8422-01A-11D-2310-10	1698914	158576392	90674229	9	40797										
ACBD3	64746	broad.mit.edu;hgsc.bcm.edu	37	chr1	226349254	226349255	+	In_Frame_Ins	INS	-	-	TTC													0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	tgctgctccaaccgaagcctINSttcttcttctatccgtctcc							TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr1:226349254_226349255insTTC	ENST00000366812.5	-	4	759_760	c.705_706insGAA	c.(703-708)gaaagg>gaaGAAagg	p.235_236insE	ACBD3_ENST00000464927.1_5'UTR	NM_022735.3	NP_073572.2	Q9H3P7	GCP60_HUMAN	acyl-CoA binding domain containing 3	235	Arg-rich.|Glu-rich.				steroid biosynthetic process (GO:0006694)|transport (GO:0006810)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|mitochondrion (GO:0005739)	fatty-acyl-CoA binding (GO:0000062)			breast(2)|endometrium(3)|large_intestine(5)|lung(7)|skin(1)|urinary_tract(2)	20	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.121)		AACCGAAGcctttcttcttcta	0.396																																																0																																										SO:0001652	inframe_insertion	64746			AB043587	CCDS1551.1	1q41	2013-10-16	2010-04-30	2003-11-12	ENSG00000182827	ENSG00000182827		"A-kinase anchor proteins"	15453	protein-coding gene	gene with protein product	"PBR- and PKA-associated protein 7"	606809	"golgi complex associated protein 1, 60kDa", "acyl-Coenzyme A binding domain containing 3"	GOLPH1, GOCAP1		12692076, 20150326	Standard	NM_022735		Approved	GCP60, PAP7	uc001hpy.3	Q9H3P7	OTTHUMG00000037560	ENST00000366812.5:c.703_705dupGAA	1.37:g.226349261_226349263dupTTC	ENSP00000355777:p.Glu235_Glu235dup	Somatic		WXS	Illumina HiSeq	Phase_I	B2RB29|Q5VTJ0|Q6P9F1|Q8IZC5|Q8N4D6|Q9H6U3	In_Frame_Ins	INS	ENST00000366812.5	37	CCDS1551.1																																																																																				0.396	ACBD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091528.1	NM_022735		TTC	226349255	-	TTC	226349254	7	5	658	1	0	1	1	0	0	0	0	0	123	1608	56	0	900	0	ACBD3	1	226349254	In_Frame_Ins	INS	-	TCGA-KN-8422-01A-11D-2310-10	67772862	226349254	22901367	10	40798	373	2								
ACBD3	64746	bcgsc.ca	37	chr1	226349255	226349256	+	In_Frame_Ins	INS	-	-	TTC													0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	gctgctccaaccgaagccttINStcttcttctatccgtctcct							TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr1:226349255_226349256insTTC	ENST00000366812.5	-	4	758_759	c.704_705insGAA	c.(703-705)gaa>gaGAAa	p.235_236insK	ACBD3_ENST00000464927.1_5'UTR	NM_022735.3	NP_073572.2	Q9H3P7	GCP60_HUMAN	acyl-CoA binding domain containing 3	235	Arg-rich.|Glu-rich.				steroid biosynthetic process (GO:0006694)|transport (GO:0006810)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|mitochondrion (GO:0005739)	fatty-acyl-CoA binding (GO:0000062)			breast(2)|endometrium(3)|large_intestine(5)|lung(7)|skin(1)|urinary_tract(2)	20	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.121)		ACCGAAGcctttcttcttctat	0.401																																																0																																										SO:0001652	inframe_insertion	64746			AB043587	CCDS1551.1	1q41	2013-10-16	2010-04-30	2003-11-12	ENSG00000182827	ENSG00000182827		"A-kinase anchor proteins"	15453	protein-coding gene	gene with protein product	"PBR- and PKA-associated protein 7"	606809	"golgi complex associated protein 1, 60kDa", "acyl-Coenzyme A binding domain containing 3"	GOLPH1, GOCAP1		12692076, 20150326	Standard	NM_022735		Approved	GCP60, PAP7	uc001hpy.3	Q9H3P7	OTTHUMG00000037560	ENST00000366812.5:c.704_705insGAA	1.37:g.226349255_226349256insTTC	ENSP00000355777:p.Glu235_Arg236insLys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RB29|Q5VTJ0|Q6P9F1|Q8IZC5|Q8N4D6|Q9H6U3	In_Frame_Ins	INS	ENST00000366812.5	37	CCDS1551.1																																																																																				0.401	ACBD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091528.1	NM_022735		TTC	226349256	-	TTC	226349255	7	5	658	1	0	1	1	0	0	0	0	0	123	1838	64	0	901	0	ACBD3	1	226349255	In_Frame_Ins	INS	-	TCGA-KN-8422-01A-11D-2310-10	1	226349255	22901366	11	40799	373	2								
MARCO	8685	hgsc.bcm.edu	37	chr2	119750740	119750740	+	Frame_Shift_Del	DEL	C	C	-													0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	aggattgtcggcagtagtaaCcgaggccgggctgaagttta							TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr2:119750740delC	ENST00000327097.4	+	16	1428	c.1293delC	c.(1291-1293)aacfs	p.N431fs	MARCO_ENST00000541757.1_Frame_Shift_Del_p.N353fs	NM_006770.3	NP_006761.1	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	431	SRCR. {ECO:0000255|PROSITE- ProRule:PRU00196}.				apoptotic cell clearance (GO:0043277)|cell surface receptor signaling pathway (GO:0007166)|innate immune response (GO:0045087)|pattern recognition receptor signaling pathway (GO:0002221)	collagen trimer (GO:0005581)|endocytic vesicle membrane (GO:0030666)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	scavenger receptor activity (GO:0005044)|signaling pattern recognition receptor activity (GO:0008329)|transmembrane signaling receptor activity (GO:0004888)	p.N431K(1)		breast(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|large_intestine(12)|lung(37)|ovary(4)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	70						GCAGTAGTAACCGAGGCCGGG	0.532																																					GBM(8;18 374 7467 11269 32796)											1	Substitution - Missense(1)	large_intestine(1)											132	124	126					2																	119750740		2203	4300	6503	SO:0001589	frameshift_variant	8685			AF035819	CCDS2124.1	2q14.2	2011-10-11			ENSG00000019169	ENSG00000019169			6895	protein-coding gene	gene with protein product	"scavenger receptor class A, member 2"	604870				9468508, 7867067, 10331948	Standard	NM_006770		Approved	SCARA2	uc002tln.1	Q9UEW3	OTTHUMG00000131400	ENST00000327097.4:c.1293delC	2.37:g.119750740delC	ENSP00000318916:p.Asn431fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DW79|Q9Y5S3	Frame_Shift_Del	DEL	ENST00000327097.4	37	CCDS2124.1																																																																																				0.532	MARCO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254190.2	NM_006770		-	119750740	C	-	119750740	7	5	658	1	0	1	0	1	0	0	0	0	9318	506	18	0	1355	0	MARCO	2	119750740	Frame_Shift_Del	DEL	C	TCGA-KN-8422-01A-11D-2310-10		119750740	123448633	12	40800	374	2								
MARCO	8685	bcgsc.ca	37	chr2	119750741	119750741	+	Frame_Shift_Del	DEL	C	C	-													0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ggattgtcggcagtagtaacCgaggccgggctgaagtttac							TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr2:119750741delC	ENST00000327097.4	+	16	1429	c.1294delC	c.(1294-1296)cgafs	p.R432fs	MARCO_ENST00000541757.1_Frame_Shift_Del_p.R354fs	NM_006770.3	NP_006761.1	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	432	SRCR. {ECO:0000255|PROSITE- ProRule:PRU00196}.				apoptotic cell clearance (GO:0043277)|cell surface receptor signaling pathway (GO:0007166)|innate immune response (GO:0045087)|pattern recognition receptor signaling pathway (GO:0002221)	collagen trimer (GO:0005581)|endocytic vesicle membrane (GO:0030666)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	scavenger receptor activity (GO:0005044)|signaling pattern recognition receptor activity (GO:0008329)|transmembrane signaling receptor activity (GO:0004888)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|large_intestine(12)|lung(37)|ovary(4)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	70						CAGTAGTAACCGAGGCCGGGC	0.527																																					GBM(8;18 374 7467 11269 32796)											0													132	124	127					2																	119750741		2203	4300	6503	SO:0001589	frameshift_variant	8685			AF035819	CCDS2124.1	2q14.2	2011-10-11			ENSG00000019169	ENSG00000019169			6895	protein-coding gene	gene with protein product	"scavenger receptor class A, member 2"	604870				9468508, 7867067, 10331948	Standard	NM_006770		Approved	SCARA2	uc002tln.1	Q9UEW3	OTTHUMG00000131400	ENST00000327097.4:c.1294delC	2.37:g.119750741delC	ENSP00000318916:p.Arg432fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DW79|Q9Y5S3	Frame_Shift_Del	DEL	ENST00000327097.4	37	CCDS2124.1																																																																																				0.527	MARCO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254190.2	NM_006770		-	119750741	C	-	119750741	7	5	658	1	0	1	0	1	0	0	0	0	9318	644	23	0	1356	0	MARCO	2	119750741	Frame_Shift_Del	DEL	C	TCGA-KN-8422-01A-11D-2310-10	1	119750741	123448632	13	40801	374	2								
MFSD6	54842	broad.mit.edu	37	chr2	191364759	191364759	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	aggggaccaatgagaataggGaaaattctcctgctggtaga	13	6	1	2			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr2:191364759G>A	ENST00000392328.1	+	8	2515	c.2191G>A	c.(2191-2193)Gaa>Aaa	p.E731K	MFSD6_ENST00000535751.1_Missense_Mutation_p.E193K|MFSD6_ENST00000281416.7_Missense_Mutation_p.E731K	NM_017694.3	NP_060164.3	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing 6	731					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|membrane (GO:0016020)				breast(1)|central_nervous_system(1)|cervix(1)|endometrium(6)|large_intestine(2)|lung(5)|ovary(2)|prostate(1)|skin(3)|stomach(1)	23						TGAGAATAGGGAAAATTCTCC	0.468																																																0													65	60	62					2																	191364759		2203	4300	6503	SO:0001583	missense	54842				CCDS2306.1	2q32.2	2008-10-29			ENSG00000151690	ENSG00000151690			24711	protein-coding gene	gene with protein product		613476					Standard	NM_017694		Approved	FLJ20160	uc002urz.2	Q6ZSS7	OTTHUMG00000132671	ENST00000392328.1:c.2191G>A	2.37:g.191364759G>A	ENSP00000376141:p.Glu731Lys	Somatic		WXS	Illumina HiSeq	Phase_I	D3KSZ4|Q86TH2|Q9NXM3	Missense_Mutation	SNP	ENST00000392328.1	37	CCDS2306.1	.	.	.	.	.	.	.	.	.	.	G	5.451	0.268328	0.10349	.	.	ENSG00000151690	ENST00000392328;ENST00000281416;ENST00000542423;ENST00000535751	T;T	0.32515	1.45;1.45	5.13	2.36	0.29203	.	1.482540	0.03781	N	0.261270	T	0.16642	0.0400	N	0.12182	0.205	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.22941	-1.0202	10	0.10636	T	0.68	-0.2343	4.8252	0.13412	0.2523:0.1555:0.5922:0.0	.	731	Q6ZSS7	MFSD6_HUMAN	K	731;731;171;193	ENSP00000376141:E731K;ENSP00000281416:E731K	ENSP00000281416:E731K	E	+	1	0	MFSD6	191073004	0.006000	0.16342	0.006000	0.13384	0.472000	0.32918	0.495000	0.22483	0.328000	0.23435	-0.122000	0.15005	GAA		0.468	MFSD6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255931.1			A	191364759	G	A	191364759	3	1	658	1	0	0	0	0	1	0	0	0	9542	1175	41	2	2213	2	MFSD6	2	191364759	Missense_Mutation	SNP	G	TCGA-KN-8422-01A-11D-2310-10	71614018	191364759	51834614	14	40802										
BHLHE40	8553	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	5025274	5025274	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ggctcccttgctcatgccccAgagactcccttctcccttgc	7	19	2	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr3:5025274A>C	ENST00000256495.3	+	5	1739	c.1136A>C	c.(1135-1137)cAg>cCg	p.Q379P		NM_003670.2	NP_003661.1	O14503	BHE40_HUMAN	basic helix-loop-helix family, member e40	379					circadian regulation of gene expression (GO:0032922)|entrainment of circadian clock by photoperiod (GO:0043153)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	Golgi apparatus (GO:0005794)|nucleolus (GO:0005730)|nucleus (GO:0005634)	bHLH transcription factor binding (GO:0043425)|E-box binding (GO:0070888)|MRF binding (GO:0043426)|protein domain specific binding (GO:0019904)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|large_intestine(1)|lung(2)|ovary(1)|skin(2)	12						CTCATGCCCCAGAGACTCCCT	0.557																																																0													145	142	143					3																	5025274		2203	4300	6503	SO:0001583	missense	8553			AB004066	CCDS2565.1	3p26	2009-01-12	2009-01-12	2009-01-12	ENSG00000134107	ENSG00000134107		"Basic helix-loop-helix proteins"	1046	protein-coding gene	gene with protein product	"differentially expressed in chondrocytes 1", " differentiated embryo chondrocyte expressed gene 1"	604256	"basic helix-loop-helix domain containing, class B, 2"	STRA13, BHLHB2		9240428, 10449910, 18557763	Standard	NM_003670		Approved	DEC1, bHLHe40	uc003bqf.3	O14503	OTTHUMG00000119035	ENST00000256495.3:c.1136A>C	3.37:g.5025274A>C	ENSP00000256495:p.Gln379Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q96TD3	Missense_Mutation	SNP	ENST00000256495.3	37	CCDS2565.1	.	.	.	.	.	.	.	.	.	.	A	11.57	1.676777	0.29783	.	.	ENSG00000134107	ENST00000256495	T	0.37411	1.2	5.51	5.51	0.81932	.	0.000000	0.56097	D	0.000024	T	0.26085	0.0636	N	0.25144	0.715	0.53688	D	0.999975	B	0.09022	0.002	B	0.09377	0.004	T	0.06320	-1.0833	10	0.18710	T	0.47	.	15.6247	0.76845	1.0:0.0:0.0:0.0	.	379	O14503	BHE40_HUMAN	P	379	ENSP00000256495:Q379P	ENSP00000256495:Q379P	Q	+	2	0	BHLHE40	5000274	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	6.403000	0.73264	2.093000	0.63338	0.533000	0.62120	CAG		0.557	BHLHE40-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239244.2	NM_003670		C	5025274	A	C	5025274	3	2	658	1	0	0	0	0	1	0	0	0	1423	188	7	5	1154	5	BHLHE40	3	5025274	Missense_Mutation	SNP	A	TCGA-KN-8422-01A-11D-2310-10		5025274	192997156	15	40803										
CLASP2	23122	ucsc.edu;mdanderson.org	37	chr3	33586217	33586217	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ccattgccagtgtttcgaagGtgattatgaagaagcttggt	12	6	0	3			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr3:33586217G>A	ENST00000468888.2	-	31	3340	c.3294C>T	c.(3292-3294)caC>caT	p.H1098H	CLASP2_ENST00000307312.7_Silent_p.H579H|CLASP2_ENST00000461133.3_Silent_p.H857H|CLASP2_ENST00000399362.4_Silent_p.H1097H|CLASP2_ENST00000480013.1_Silent_p.H877H|CLASP2_ENST00000539981.1_Silent_p.H867H|CLASP2_ENST00000359576.5_Silent_p.H1089H			O75122	CLAP2_HUMAN	cytoplasmic linker associated protein 2	878	Interaction with RSN and localization to the Golgi and kinetochores.|Required for cortical localization.				axon guidance (GO:0007411)|establishment or maintenance of cell polarity (GO:0007163)|fucosylation (GO:0036065)|microtubule anchoring (GO:0034453)|microtubule nucleation (GO:0007020)|microtubule organizing center organization (GO:0031023)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of microtubule depolymerization (GO:0007026)|regulation of microtubule polymerization or depolymerization (GO:0031110)|regulation of microtubule-based process (GO:0032886)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytoplasmic microtubule (GO:0005881)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|kinetochore (GO:0000776)|kinetochore microtubule (GO:0005828)|membrane (GO:0016020)|microtubule (GO:0005874)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)|trans-Golgi network (GO:0005802)	galactoside 2-alpha-L-fucosyltransferase activity (GO:0008107)|microtubule plus-end binding (GO:0051010)			breast(2)|central_nervous_system(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(19)|ovary(3)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	48						TGTTTCGAAGGTGATTATGAA	0.328																																																0													97	93	94					3																	33586217		1840	4082	5922	SO:0001819	synonymous_variant	23122			AB014527		3p24.3	2013-01-18			ENSG00000163539	ENSG00000163539			17078	protein-coding gene	gene with protein product		605853				9734811, 10899121	Standard	NM_015097		Approved	KIAA0627	uc021wvc.1	O75122	OTTHUMG00000156489	ENST00000468888.2:c.3294C>T	3.37:g.33586217G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q7L8F6|Q8N6R6|Q9BQT3|Q9BQT4|Q9H7A3|Q9NSZ2	Silent	SNP	ENST00000468888.2	37		.	.	.	.	.	.	.	.	.	.	G	8.326	0.825430	0.16749	.	.	ENSG00000163539	ENST00000480385	.	.	.	5.62	4.74	0.60224	.	.	.	.	.	T	0.62073	0.2398	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.58836	-0.7566	4	.	.	.	-10.8157	11.1819	0.48633	0.1383:0.0:0.8617:0.0	.	.	.	.	S	154	.	.	P	-	1	0	CLASP2	33561221	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.305000	0.51873	2.631000	0.89168	0.650000	0.86243	CCT		0.328	CLASP2-001	NOVEL	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000344320.4	NM_001207044		A	33586217	G	A	33586217	2	1	658	1	0	0	0	0	0	0	0	1	3457	1252	44	2		2	CLASP2	3	33586217	Silent	SNP	G	TCGA-KN-8422-01A-11D-2310-10	28560943	33586217	164436213	16	40804										
KBTBD5	131377	hgsc.bcm.edu	37	chr3	42730128	42730128	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	caaatggggtgaatcggaccCgctgccttacgtggtgtatg	14	9	0	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr3:42730128C>T	ENST00000287777.4	+	3	1440	c.1340C>T	c.(1339-1341)cCg>cTg	p.P447L		NM_152393.2	NP_689606.2	Q2TBA0	KLH40_HUMAN	kelch-like family member 40	447					multicellular organismal development (GO:0007275)	cytoplasm (GO:0005737)											GAATCGGACCCGCTGCCTTAC	0.612																																																0													82	67	72					3																	42730128		2203	4300	6503	SO:0001583	missense	131377			AK056577	CCDS2703.1	3p21.33	2013-07-30	2013-02-22	2013-01-08	ENSG00000157119	ENSG00000157119		"Kelch-like", "BTB/POZ domain containing"	30372	protein-coding gene	gene with protein product	"sarcosynapsin", "nemaline myopathy type 8"	615340	"kelch repeat and BTB (POZ) domain containing 5", "kelch-like 40 (Drosophila)"	KBTBD5		23746549	Standard	NM_152393		Approved	SRYP, NEM8	uc003clv.1	Q2TBA0	OTTHUMG00000133045	ENST00000287777.4:c.1340C>T	3.37:g.42730128C>T	ENSP00000287777:p.Pro447Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q86SI1|Q96MR2	Missense_Mutation	SNP	ENST00000287777.4	37	CCDS2703.1	.	.	.	.	.	.	.	.	.	.	c	15.52	2.857538	0.51376	.	.	ENSG00000157119	ENST00000287777;ENST00000452129	T	0.69806	-0.43	4.55	4.55	0.56014	Kelch-type beta propeller (1);	0.359095	0.32093	N	0.006600	T	0.81716	0.4881	H	0.94345	3.525	0.58432	D	0.999996	P	0.49696	0.927	P	0.49387	0.609	D	0.88197	0.2881	10	0.72032	D	0.01	.	17.3734	0.87384	0.0:1.0:0.0:0.0	.	447	Q2TBA0	KBTB5_HUMAN	L	447;192	ENSP00000287777:P447L	ENSP00000287777:P447L	P	+	2	0	KBTBD5	42705132	1.000000	0.71417	1.000000	0.80357	0.594000	0.36715	5.884000	0.69729	2.107000	0.64212	0.444000	0.29173	CCG		0.612	KLHL40-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256651.1	NM_152393		T	42730128	C	T	42730128	3	4	658	1	0	0	0	0	1	0	0	0	8003	652	23	1	1350	1	KBTBD5	3	42730128	Missense_Mutation	SNP	C	TCGA-KN-8422-01A-11D-2310-10	9143911	42730128	155292302	17	40805										
C3orf38	285237	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	88205252	88205252	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	gtcattggttctttggacttCttaattctcagaatcctttt	6	8	4	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr3:88205252C>A	ENST00000318887.3	+	3	767	c.457C>A	c.(457-459)Ctt>Att	p.L153I	C3orf38_ENST00000486971.1_Intron	NM_173824.3	NP_776185.2	Q5JPI3	CC038_HUMAN	chromosome 3 open reading frame 38	153					apoptotic process (GO:0006915)					breast(1)|large_intestine(2)|lung(6)|prostate(1)|skin(1)|urinary_tract(1)	12		Lung NSC(201;0.17)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		CTTTGGACTTCTTAATTCTCA	0.378																																																0													69	67	68					3																	88205252		2203	4300	6503	SO:0001583	missense	285237			AL832398	CCDS2921.1, CCDS2921.2	3p11.1	2011-01-25			ENSG00000179021	ENSG00000179021			28384	protein-coding gene	gene with protein product						12477932	Standard	NM_173824		Approved	MGC26717	uc003dqw.3	Q5JPI3	OTTHUMG00000155752	ENST00000318887.3:c.457C>A	3.37:g.88205252C>A	ENSP00000322469:p.Leu153Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8X6|Q8TC85	Missense_Mutation	SNP	ENST00000318887.3	37	CCDS2921.2	.	.	.	.	.	.	.	.	.	.	C	20.8	4.051753	0.75960	.	.	ENSG00000179021	ENST00000318887	.	.	.	5.83	5.83	0.93111	.	0.000000	0.85682	D	0.000000	T	0.77558	0.4148	M	0.75615	2.305	0.80722	D	1	D	0.89917	1.0	D	0.81914	0.995	T	0.79412	-0.1814	9	0.87932	D	0	-21.3008	12.4168	0.55498	0.0:0.9238:0.0:0.0762	.	153	Q5JPI3	CC038_HUMAN	I	153	.	ENSP00000322469:L153I	L	+	1	0	C3orf38	88287942	1.000000	0.71417	1.000000	0.80357	0.922000	0.55478	3.365000	0.52335	2.745000	0.94114	0.563000	0.77884	CTT		0.378	C3orf38-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341513.1	NM_173824		A	88205252	C	A	88205252	3	1	658	1	0	0	0	0	1	0	0	0	2230	913	32	4	467	4	C3orf38	3	88205252	Missense_Mutation	SNP	C	TCGA-KN-8422-01A-11D-2310-10	45475124	88205252	109817178	18	40806										
SDAD1	55153	broad.mit.edu	37	chr4	76896979	76896979	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	gctatctcttaacatggtgtAcatgaaattttgcaatacct	6	8	1	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr4:76896979A>G	ENST00000356260.5	-	6	614	c.496T>C	c.(496-498)Tac>Cac	p.Y166H	SDAD1_ENST00000513089.1_5'Flank|SDAD1_ENST00000395711.4_Missense_Mutation_p.Y129H	NM_018115.2	NP_060585.2	Q9NVU7	SDA1_HUMAN	SDA1 domain containing 1	166					actin cytoskeleton organization (GO:0030036)|protein transport (GO:0015031)|ribosomal large subunit biogenesis (GO:0042273)|ribosomal large subunit export from nucleus (GO:0000055)	nucleolus (GO:0005730)				breast(2)|endometrium(2)|kidney(2)|large_intestine(1)|lung(9)|ovary(1)|prostate(1)|skin(1)	19			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			AACATGGTGTACATGAAATTT	0.378																																																0													151	142	145					4																	76896979		2203	4300	6503	SO:0001583	missense	55153			AF132198	CCDS3573.2, CCDS75147.1	4q21.21	2010-11-24			ENSG00000198301	ENSG00000198301			25537	protein-coding gene	gene with protein product						11483580	Standard	NM_001288984		Approved	FLJ10498	uc003hje.4	Q9NVU7	OTTHUMG00000130111	ENST00000356260.5:c.496T>C	4.37:g.76896979A>G	ENSP00000348596:p.Tyr166His	Somatic		WXS	Illumina HiSeq	Phase_I	Q32Q11|Q68D52|Q7Z5U4|Q9H831|Q9H9P6	Missense_Mutation	SNP	ENST00000356260.5	37	CCDS3573.2	.	.	.	.	.	.	.	.	.	.	A	22.8	4.333274	0.81801	.	.	ENSG00000198301	ENST00000356260;ENST00000395711	T;T	0.74002	-0.8;2.65	5.31	5.31	0.75309	Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	D	0.83788	0.5330	M	0.66939	2.045	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.76071	0.987;0.987	D	0.84275	0.0491	10	0.48119	T	0.1	-14.0096	13.4856	0.61364	1.0:0.0:0.0:0.0	.	129;166	E7EW05;Q9NVU7	.;SDA1_HUMAN	H	166;129	ENSP00000348596:Y166H;ENSP00000379061:Y129H	ENSP00000348596:Y166H	Y	-	1	0	SDAD1	77116003	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	8.923000	0.92808	2.128000	0.65567	0.533000	0.62120	TAC		0.378	SDAD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252418.3	NM_018115		G	76896979	A	G	76896979	3	3	658	1	0	0	0	0	1	0	0	0	13963	391	14	3	1635	3	SDAD1	4	76896979	Missense_Mutation	SNP	A	TCGA-KN-8422-01A-11D-2310-10		76896979	114257297	19	40807										
AGPAT9	84803	mdanderson.org	37	chr4	84502873	84502873	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	tttcctcagaggagctagtgTcatggaatctcctcacaaga	9	10	4	2			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr4:84502873T>C	ENST00000395226.2	+	4	585	c.367T>C	c.(367-369)Tca>Cca	p.S123P	AGPAT9_ENST00000264409.4_Missense_Mutation_p.S123P	NM_001256421.1	NP_001243350.1	Q53EU6	GPAT3_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 9	123					CDP-diacylglycerol biosynthetic process (GO:0016024)|cellular lipid metabolic process (GO:0044255)|glycerophospholipid biosynthetic process (GO:0046474)|phosphatidic acid biosynthetic process (GO:0006654)|phospholipid metabolic process (GO:0006644)|regulation of TOR signaling (GO:0032006)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	1-acylglycerol-3-phosphate O-acyltransferase activity (GO:0003841)|glycerol-3-phosphate O-acyltransferase activity (GO:0004366)			endometrium(1)|kidney(1)|large_intestine(4)|lung(4)|skin(3)	13		Hepatocellular(203;0.114)				GGAGCTAGTGTCATGGAATCT	0.473																																																0													204	189	194					4																	84502873		2203	4300	6503	SO:0001583	missense	84803			AK055749	CCDS3606.1	4q21.23	2014-02-13	2008-01-29		ENSG00000138678	ENSG00000138678	2.3.1.15	"1-acylglycerol-3-phosphate O-acyltransferases"	28157	protein-coding gene	gene with protein product	"lysophosphatidic acid acyltransferase, theta"	610958	"1-acylglycerol-3-phosphate O-acyltransferase 9 (lysophosphatidic acid acyltransferase, theta)"			12975309	Standard	NM_001256421		Approved	MGC11324, LPAAT-theta, MAG1, HMFN0839	uc003how.4	Q53EU6	OTTHUMG00000130431	ENST00000395226.2:c.367T>C	4.37:g.84502873T>C	ENSP00000378651:p.Ser123Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q68CJ4|Q6GPI6|Q96NA3	Missense_Mutation	SNP	ENST00000395226.2	37	CCDS3606.1	.	.	.	.	.	.	.	.	.	.	T	29.0	4.970641	0.92919	.	.	ENSG00000138678	ENST00000395226;ENST00000264409	T;T	0.50001	0.76;0.76	5.66	5.66	0.87406	.	0.063176	0.64402	D	0.000002	T	0.64821	0.2633	L	0.58969	1.84	0.80722	D	1	D	0.76494	0.999	D	0.80764	0.994	T	0.62987	-0.6737	10	0.37606	T	0.19	-8.3228	15.9352	0.79698	0.0:0.0:0.0:1.0	.	123	Q53EU6	GPAT3_HUMAN	P	123	ENSP00000378651:S123P;ENSP00000264409:S123P	ENSP00000264409:S123P	S	+	1	0	AGPAT9	84721897	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.997000	0.88414	2.174000	0.68829	0.524000	0.50904	TCA		0.473	AGPAT9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252821.3	NM_032717		C	84502873	T	C	84502873	3	2	658	1	0	0	0	0	1	0	0	0	392	1667	58	3	377	3	AGPAT9	4	84502873	Missense_Mutation	SNP	T	TCGA-KN-8422-01A-11D-2310-10	7605894	84502873	106651403	20	40808										
NDST4	64579	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr4	115767025	115767025	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	aggggtcaatgaggatggtgAtgatcttggctttggggaca	17	4	2	3			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr4:115767025A>T	ENST00000264363.2	-	10	2747	c.2069T>A	c.(2068-2070)aTc>aAc	p.I690N		NM_022569.1	NP_072091.1	Q9H3R1	NDST4_HUMAN	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 4	690	Heparan sulfate N-sulfotransferase 4.				heparan sulfate proteoglycan biosynthetic process (GO:0015012)|heparin biosynthetic process (GO:0030210)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	[heparan sulfate]-glucosamine N-sulfotransferase activity (GO:0015016)|deacetylase activity (GO:0019213)			NS(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(4)|large_intestine(5)|lung(43)|ovary(1)|prostate(7)|skin(11)|upper_aerodigestive_tract(1)|urinary_tract(1)	81		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		GAGGATGGTGATGATCTTGGC	0.428																																																0													134	125	128					4																	115767025		2203	4300	6503	SO:0001583	missense	64579			AB036429	CCDS3706.1	4q26	2008-02-05			ENSG00000138653	ENSG00000138653		"Sulfotransferases, membrane-bound"	20779	protein-coding gene	gene with protein product		615039				11087757	Standard	NM_022569		Approved		uc003ibu.3	Q9H3R1	OTTHUMG00000132916	ENST00000264363.2:c.2069T>A	4.37:g.115767025A>T	ENSP00000264363:p.Ile690Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q2KHM8	Missense_Mutation	SNP	ENST00000264363.2	37	CCDS3706.1	.	.	.	.	.	.	.	.	.	.	A	24.8	4.573228	0.86542	.	.	ENSG00000138653	ENST00000264363	T	0.72167	-0.63	5.61	5.61	0.85477	Sulfotransferase domain (1);	0.000000	0.85682	D	0.000000	D	0.88047	0.6332	M	0.93898	3.47	0.80722	D	1	D	0.76494	0.999	D	0.76071	0.987	D	0.91197	0.4988	10	0.87932	D	0	.	15.8104	0.78557	1.0:0.0:0.0:0.0	.	690	Q9H3R1	NDST4_HUMAN	N	690	ENSP00000264363:I690N	ENSP00000264363:I690N	I	-	2	0	NDST4	115986474	1.000000	0.71417	1.000000	0.80357	0.971000	0.66376	8.851000	0.92205	2.125000	0.65367	0.533000	0.62120	ATC		0.428	NDST4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256427.1	NM_022569		T	115767025	A	T	115767025	3	4	658	1	0	0	0	0	1	0	0	0	10265	333	12	5	569	5	NDST4	4	115767025	Missense_Mutation	SNP	A	TCGA-KN-8422-01A-11D-2310-10	31264152	115767025	75387251	21	40809										
ABCE1	6059	broad.mit.edu	37	chr4	146041093	146041093	+	Frame_Shift_Del	DEL	T	T	-													0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	cttcccaacaggcataaacaTttttttggatggctatgttc							TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr4:146041093delT	ENST00000296577.4	+	11	1447	c.932delT	c.(931-933)attfs	p.I311fs	OTUD4_ENST00000455611.2_Intron|ABCE1_ENST00000502803.1_3'UTR	NM_001040876.1|NM_002940.2	NP_001035809.1|NP_002931.2	P61221	ABCE1_HUMAN	ATP-binding cassette, sub-family E (OABP), member 1	311	ABC transporter 1. {ECO:0000255|PROSITE- ProRule:PRU00434}.				negative regulation of catalytic activity (GO:0043086)|response to virus (GO:0009615)|RNA catabolic process (GO:0006401)|viral process (GO:0016032)	cytoplasm (GO:0005737)|membrane (GO:0016020)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|iron-sulfur cluster binding (GO:0051536)|ribonuclease inhibitor activity (GO:0008428)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|lung(5)|prostate(2)|skin(3)	18	all_hematologic(180;0.151)					GGCATAAACATTTTTTTGGAT	0.358																																																0													37	37	37					4																	146041093		2203	4299	6502	SO:0001589	frameshift_variant	6059			X74987	CCDS34071.1	4q31	2012-03-14			ENSG00000164163	ENSG00000164163		"ATP binding cassette transporters / subfamily E"	69	protein-coding gene	gene with protein product		601213		RNASEL1, RNASELI, RNS4I		7539425	Standard	NM_002940		Approved	RLI, OABP	uc003ijy.3	P61221	OTTHUMG00000161478	ENST00000296577.4:c.932delT	4.37:g.146041093delT	ENSP00000296577:p.Ile311fs	Somatic		WXS	Illumina HiSeq	Phase_I	O88793|Q13181|Q13864|Q6NR76|Q96AL0|Q96B10|Q99K66	Frame_Shift_Del	DEL	ENST00000296577.4	37	CCDS34071.1																																																																																				0.358	ABCE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365104.1	NM_002940		-	146041093	T	-	146041093	7	5	658	1	0	1	0	1	0	0	0	0	64	1493	52	0	970	0	ABCE1	4	146041093	Frame_Shift_Del	DEL	T	TCGA-KN-8422-01A-11D-2310-10	30274068	146041093	45113183	22	40810										
ADAM29	11086	mdanderson.org	37	chr4	175899075	175899076	+	Missense_Mutation	DNP	CA	CA	TG													0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ccagagtcaacctcctgtgaCaccctcccagaggcaacctc					rs140568401|rs61744599	byFrequency	TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr4:175899075_175899076CA>TG	ENST00000359240.3	+	5	3069_3070	c.2399_2400CA>TG	c.(2398-2400)aCA>aTG	p.T800M	ADAM29_ENST00000445694.1_Missense_Mutation_p.T800M|RP13-577H12.2_ENST00000507525.1_RNA|ADAM29_ENST00000514159.1_Missense_Mutation_p.T800M|ADAM29_ENST00000404450.4_Missense_Mutation_p.T800M	NM_001278125.1|NM_014269.4	NP_001265054.1|NP_055084.3	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29	800	9 X 9 AA approximate repeats.				spermatogenesis (GO:0007283)	integral component of plasma membrane (GO:0005887)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(16)|lung(25)|ovary(3)|pancreas(1)|prostate(7)|skin(24)|urinary_tract(2)	93		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)		CCTCCTGTGACACCCTCCCAGA	0.564																																					Ovarian(140;1727 1835 21805 25838 41440)											0																																										SO:0001583	missense	11086			AF171929	CCDS3823.1	4q34.1	2012-05-16	2005-08-18		ENSG00000168594	ENSG00000168594		"ADAM metallopeptidase domain containing"	207	protein-coding gene	gene with protein product	"cancer/testis antigen 73"	604778	"a disintegrin and metalloproteinase domain 29"			10644455	Standard	NM_014269		Approved	svph1, CT73	uc031shw.1	Q9UKF5	OTTHUMG00000160764	Exception_encountered	4.37:g.175899075_175899076delinsTG	ENSP00000352177:p.Thr800Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5F3|Q9UHP1|Q9UKF3|Q9UKF4	Silent	DNP	ENST00000359240.3	37	CCDS3823.1																																																																																				0.564	ADAM29-201	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding				TG	175899076	CA	TG	175899075	3	4	658	1	0	0	0	0	1	0	0	0	247	478	17	2	2401	2	ADAM29	4	175899075	Missense_Mutation	DNP	CA	TCGA-KN-8422-01A-11D-2310-10	29857982	175899075	15255201	23	40811										
PRDM9	56979	mdanderson.org	37	chr5	23527323	23527323	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ctggcagtcagtcctcctcaCtcaccagaggacacacacag	8	16	3	1	rs200539936	byFrequency	TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr5:23527323C>G	ENST00000296682.3	+	11	2308	c.2126C>G	c.(2125-2127)aCt>aGt	p.T709S		NM_020227.2	NP_064612.2	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	709					meiotic gene conversion (GO:0006311)|positive regulation of meiosis I (GO:0060903)|positive regulation of reciprocal meiotic recombination (GO:0010845)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)	histone methyltransferase activity (H3-K4 specific) (GO:0042800)|metal ion binding (GO:0046872)|recombination hotspot binding (GO:0010844)|sequence-specific DNA binding (GO:0043565)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(15)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(27)|lung(87)|ovary(6)|pancreas(2)|prostate(4)|skin(10)|upper_aerodigestive_tract(11)	172						GTCCTCCTCACTCACCAGAGG	0.587										HNSCC(3;0.000094)			c|||	492	0.0982428	0.2398	0.0893	5008	,	,		21450	0.0387		0.0298	False		,,,				2504	0.045															0													16	15	15					5																	23527323		1825	3640	5465	SO:0001583	missense	56979			AF275816	CCDS43307.1	5p14.2	2014-06-03			ENSG00000164256	ENSG00000164256		"-", "Zinc fingers, C2H2-type"	13994	protein-coding gene	gene with protein product	"PR-domain containing protein 9"	609760	"minisatellite binding protein 3, 115kDa", "minisatellite binding protein 3 (115kD)"	MSBP3		10668202, 2062643, 24634223	Standard	NM_020227		Approved	PFM6, ZNF899	uc003jgo.3	Q9NQV7	OTTHUMG00000161918	ENST00000296682.3:c.2126C>G	5.37:g.23527323C>G	ENSP00000296682:p.Thr709Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DX22|Q27Q50	Missense_Mutation	SNP	ENST00000296682.3	37	CCDS43307.1	.	.	.	.	.	.	.	.	.	.	c	0.001	-4.409211	0.00000	.	.	ENSG00000164256	ENST00000296682	T	0.17370	2.28	2.57	-5.13	0.02884	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	3.203060	0.01089	N	0.005146	T	0.07999	0.0200	N	0.12920	0.275	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.32771	-0.9894	10	0.10111	T	0.7	.	1.0864	0.01654	0.2843:0.3342:0.1048:0.2768	.	709	Q9NQV7	PRDM9_HUMAN	S	709	ENSP00000296682:T709S	ENSP00000296682:T709S	T	+	2	0	PRDM9	23563080	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-20.000000	0.00000	-6.649000	0.00003	-6.748000	0.00000	ACT		0.587	PRDM9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366375.1	NM_020227		G	23527323	C	G	23527323	3	3	658	1	0	0	0	0	1	0	0	0	12473	565	20	4	2164	4	PRDM9	5	23527323	Missense_Mutation	SNP	C	TCGA-KN-8422-01A-11D-2310-10		23527323	157387937	24	40812										
CDC23	8697	broad.mit.edu	37	chr5	137524673	137524673	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ttgagagtagccaactatggCgtgacagaagacaagttgag	13	6	0	5			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr5:137524673C>T	ENST00000394886.2	-	16	1818	c.1788G>A	c.(1786-1788)acG>acA	p.T596T		NM_004661.3	NP_004652.2	Q9UJX2	CDC23_HUMAN	cell division cycle 23	596					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|mitotic cell cycle (GO:0000278)|mitotic metaphase plate congression (GO:0007080)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K11-linked ubiquitination (GO:0070979)|regulation of exit from mitosis (GO:0007096)|regulation of mitotic metaphase/anaphase transition (GO:0030071)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|ubiquitin-dependent protein catabolic process (GO:0006511)	anaphase-promoting complex (GO:0005680)|cytosol (GO:0005829)|intracellular (GO:0005622)|nucleoplasm (GO:0005654)	ubiquitin-protein transferase activity (GO:0004842)			autonomic_ganglia(1)|endometrium(2)|kidney(2)|large_intestine(9)|lung(6)|prostate(2)|skin(1)	23			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CCAACTATGGCGTGACAGAAG	0.493																																																0													122	115	117					5																	137524673		2203	4300	6503	SO:0001819	synonymous_variant	8697			AF053977	CCDS4200.2	5q31	2013-01-17	2013-01-17		ENSG00000094880	ENSG00000094880		"Anaphase promoting complex subunits", "Tetratricopeptide (TTC) repeat domain containing"	1724	protein-coding gene	gene with protein product	"anaphase promoting complex subunit 8"	603462	"CDC23 (cell division cycle 23, yeast, homolog)", "cell division cycle 23 homolog (S. cerevisiae)"			9790767	Standard	NM_004661		Approved	APC8, ANAPC8, CUT23	uc003lcl.3	Q9UJX2	OTTHUMG00000129198	ENST00000394886.2:c.1788G>A	5.37:g.137524673C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6E5|B4E3A2|B7WP05|D3DQB7|O75433|Q53FN2|Q9BS73	Silent	SNP	ENST00000394886.2	37	CCDS4200.2																																																																																				0.493	CDC23-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251275.2			T	137524673	C	T	137524673	2	4	658	1	0	0	0	0	0	0	0	1	3063	755	27	1		1	CDC23	5	137524673	Silent	SNP	C	TCGA-KN-8422-01A-11D-2310-10	113997350	137524673	43390587	25	40813										
FAM184A	79632	ucsc.edu	37	chr6	119332586	119332586	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	gtttatctttgttatgttgtTcttccaaatccttagaaaaa	5	6	2	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr6:119332586T>C	ENST00000338891.7	-	6	1984	c.1541A>G	c.(1540-1542)gAa>gGa	p.E514G	FAM184A_ENST00000522284.1_Missense_Mutation_p.E394G|FAM184A_ENST00000368475.4_Missense_Mutation_p.E394G|RP11-351A11.1_ENST00000518570.1_RNA|FAM184A_ENST00000521531.1_Missense_Mutation_p.E514G|FAM184A_ENST00000352896.5_Missense_Mutation_p.E394G	NM_024581.4	NP_078857.5	Q8NB25	F184A_HUMAN	family with sequence similarity 184, member A	514						extracellular space (GO:0005615)				breast(2)|central_nervous_system(2)|endometrium(2)|kidney(5)|large_intestine(19)|lung(13)|ovary(2)|pancreas(1)|prostate(1)|skin(5)	52						GTTATGTTGTTCTTCCAAATC	0.279																																																0													85	73	77					6																	119332586		1791	4055	5846	SO:0001583	missense	79632			BC009055	CCDS43499.1, CCDS43500.1, CCDS75508.1	6q22.31	2008-08-14	2008-08-14	2008-08-14	ENSG00000111879	ENSG00000111879			20991	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 60"	C6orf60		11230166	Standard	NM_024581		Approved	FLJ13942	uc003pyj.3	Q8NB25	OTTHUMG00000015471	ENST00000338891.7:c.1541A>G	6.37:g.119332586T>C	ENSP00000342604:p.Glu514Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B9DI75|F8W8D6|Q5TBS9|Q7Z323|Q96GY8|Q9H0J8|Q9H851	Missense_Mutation	SNP	ENST00000338891.7	37	CCDS43499.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	15.33|15.33	2.801527|2.801527	0.50315|0.50315	.|.	.|.	ENSG00000111879|ENSG00000111879	ENST00000338891;ENST00000352896;ENST00000368475;ENST00000521531;ENST00000522284|ENST00000448815	T;T;T;T;T|.	0.00362|.	7.84;7.84;7.84;7.84;7.84|.	4.9|4.9	3.73|3.73	0.42828|0.42828	.|.	0.185306|.	0.47455|.	D|.	0.000234|.	T|T	0.42787|0.42787	0.1218|0.1218	L|L	0.44542|0.44542	1.39|1.39	0.36858|0.36858	D|D	0.888276|0.888276	P;P;P|.	0.49559|.	0.925;0.634;0.897|.	P;B;B|.	0.46758|.	0.526;0.234;0.371|.	T|T	0.35101|0.35101	-0.9802|-0.9802	10|5	0.41790|.	T|.	0.15|.	-5.3679|-5.3679	11.9853|11.9853	0.53145|0.53145	0.0:0.0:0.1449:0.855|0.0:0.0:0.1449:0.855	.|.	514;394;514|.	Q8NB25-2;F8W8D6;Q8NB25|.	.;.;F184A_HUMAN|.	G|D	514;394;394;514;394|100	ENSP00000342604:E514G;ENSP00000326608:E394G;ENSP00000357460:E394G;ENSP00000430442:E514G;ENSP00000429826:E394G|.	ENSP00000342604:E514G|.	E|N	-|-	2|1	0|0	FAM184A|FAM184A	119374285|119374285	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.394000|0.394000	0.30568|0.30568	4.388000|4.388000	0.59633|0.59633	0.886000|0.886000	0.36113|0.36113	0.397000|0.397000	0.26171|0.26171	GAA|AAC		0.279	FAM184A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042009.3	NM_024581		C	119332586	T	C	119332586	3	2	658	1	0	0	0	0	1	0	0	0	5515	1783	62	3	1933	3	FAM184A	6	119332586	Missense_Mutation	SNP	T	TCGA-KN-8422-01A-11D-2310-10		119332586	51782481	26	40814										
COL28A1	340267	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	7477054	7477054	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	aggtggtccaggaattgatgTtccaggcattccaaaagggc	13	8	0	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr7:7477054T>C	ENST00000399429.3	-	22	1902	c.1762A>G	c.(1762-1764)Aca>Gca	p.T588A		NM_001037763.2	NP_001032852.2	Q2UY09	COSA1_HUMAN	collagen, type XXVIII, alpha 1	588					cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)	basement membrane (GO:0005604)|collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	serine-type endopeptidase inhibitor activity (GO:0004867)			cervix(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(23)|prostate(1)|skin(4)|stomach(1)|urinary_tract(1)	42		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		GGAATTGATGTTCCAGGCATT	0.398																																																0													64	60	61					7																	7477054		1815	4076	5891	SO:0001583	missense	340267			AJ890451	CCDS43553.1	7p21.3	2013-01-16			ENSG00000215018	ENSG00000215018		"Collagens"	22442	protein-coding gene	gene with protein product		609996				16330543	Standard	NM_001037763		Approved		uc003src.1	Q2UY09	OTTHUMG00000150034	ENST00000399429.3:c.1762A>G	7.37:g.7477054T>C	ENSP00000382356:p.Thr588Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A4D101|A4D106|A4D107|A8MVR2|B9EGX9|Q2UY07|Q2UY08	Missense_Mutation	SNP	ENST00000399429.3	37	CCDS43553.1	.	.	.	.	.	.	.	.	.	.	T	1.279	-0.610799	0.03690	.	.	ENSG00000215018	ENST00000399429;ENST00000435823;ENST00000399419	D;D	0.94092	-3.35;-2.19	4.68	0.111	0.14619	.	1.291790	0.06060	N	0.658230	T	0.80308	0.4599	N	0.03029	-0.43	0.09310	N	0.99999	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.04013	0.001;0.0;0.001	T	0.68930	-0.5279	10	0.13853	T	0.58	-0.0421	4.3873	0.11323	0.0:0.3617:0.3764:0.2619	.	588;588;588	Q2UY09-2;B5MDS6;Q2UY09	.;.;COSA1_HUMAN	A	588;5;588	ENSP00000382356:T588A;ENSP00000410557:T5A	ENSP00000382347:T588A	T	-	1	0	COL28A1	7443579	0.948000	0.32251	0.978000	0.43139	0.977000	0.68977	-0.431000	0.06965	-0.077000	0.12752	-0.408000	0.06270	ACA		0.398	COL28A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000315899.1	NM_001037763		C	7477054	T	C	7477054	3	2	658	1	0	0	0	0	1	0	0	0	3688	1725	60	3	1671	3	COL28A1	7	7477054	Missense_Mutation	SNP	T	TCGA-KN-8422-01A-11D-2310-10		7477054	151661609	27	40815										
AMAC1L2	83650	mdanderson.org	37	chr8	11189601	11189601	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	cattacagcccggaacctcaGctgtgagaggacagggaagg	14	10	1	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr8:11189601G>T	ENST00000382435.4	+	1	1205	c.986G>T	c.(985-987)aGc>aTc	p.S329I		NM_001282300.1|NM_054028.1	NP_001269229.1|NP_473369.1	Q96KT7	S35G5_HUMAN	solute carrier family 35, member G5	329						integral component of membrane (GO:0016021)											CGGAACCTCAGCTGTGAGAGG	0.517																																																0													67	68	68					8																	11189601		2203	4300	6503	SO:0001583	missense	83650			AJ291677	CCDS5980.1	8p23.1	2013-05-22	2011-08-03	2011-08-03	ENSG00000177710	ENSG00000177710		"Solute carriers"	15546	protein-coding gene	gene with protein product		615199	"acyl-malonyl condensing enzyme 1-like 2"	AMAC, AMAC1L2			Standard	NM_054028		Approved		uc003wtp.1	Q96KT7	OTTHUMG00000090653	ENST00000382435.4:c.986G>T	8.37:g.11189601G>T	ENSP00000371872:p.Ser329Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRL6	Missense_Mutation	SNP	ENST00000382435.4	37	CCDS5980.1	.	.	.	.	.	.	.	.	.	.	g	0.299	-0.974907	0.02215	.	.	ENSG00000177710	ENST00000382435	T	0.28666	1.6	.	.	.	.	0.000000	0.52532	D	0.000061	T	0.22244	0.0536	L	0.54323	1.7	0.26188	N	0.979621	B	0.02656	0.0	B	0.06405	0.002	T	0.18241	-1.0343	8	0.22706	T	0.39	-1.3917	.	.	.	.	329	Q96KT7	S35G5_HUMAN	I	329	ENSP00000371872:S329I	ENSP00000371872:S329I	S	+	2	0	SLC35G5	11227011	0.173000	0.23056	0.298000	0.25002	0.299000	0.27559	0.335000	0.19806	0.064000	0.16427	0.064000	0.15345	AGC		0.517	SLC35G5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207313.2	NM_054028		T	11189601	G	T	11189601	3	4	658	1	0	0	0	0	1	0	0	0	560	971	34	4	988	4	AMAC1L2	8	11189601	Missense_Mutation	SNP	G	TCGA-KN-8422-01A-11D-2310-10		11189601	135174421	28	40816										
DOCK5	80005	broad.mit.edu	37	chr8	25203089	25203089	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	acgaggcaagctcgcagcttCtgagcaacatcctggaggtg	13	11	1	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr8:25203089C>T	ENST00000276440.7	+	26	2760	c.2716C>T	c.(2716-2718)Ctg>Ttg	p.L906L		NM_024940.6	NP_079216.4	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	906					positive regulation of GTPase activity (GO:0043547)|small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)	guanyl-nucleotide exchange factor activity (GO:0005085)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(12)|kidney(9)|large_intestine(13)|lung(20)|ovary(3)|prostate(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	72		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)		CTCGCAGCTTCTGAGCAACAT	0.552																																					Pancreas(145;34 1887 3271 10937 30165)											0													162	140	148					8																	25203089		2203	4300	6503	SO:0001819	synonymous_variant	80005				CCDS6047.1	8p21.2	2009-04-17			ENSG00000147459	ENSG00000147459			23476	protein-coding gene	gene with protein product						12432077	Standard	NM_024940		Approved	FLJ21034	uc003xeg.3	Q9H7D0	OTTHUMG00000131991	ENST00000276440.7:c.2716C>T	8.37:g.25203089C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RNY0|Q5XKD5|Q6AI11|Q6PJS6|Q6ZTS6	Silent	SNP	ENST00000276440.7	37	CCDS6047.1	.	.	.	.	.	.	.	.	.	.	C	9.928	1.213958	0.22289	.	.	ENSG00000147459	ENST00000444569	.	.	.	6.17	6.17	0.99709	.	.	.	.	.	T	0.70842	0.3270	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.67845	-0.5565	4	.	.	.	.	13.9957	0.64397	0.0:0.9315:0.0:0.0685	.	.	.	.	F	677	.	.	S	+	2	0	DOCK5	25259006	1.000000	0.71417	1.000000	0.80357	0.940000	0.58332	4.643000	0.61390	2.941000	0.99782	0.655000	0.94253	TCT		0.552	DOCK5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254955.2	NM_024940		T	25203089	C	T	25203089	2	4	658	1	0	0	0	0	0	0	0	1	4692	912	32	2		2	DOCK5	8	25203089	Silent	SNP	C	TCGA-KN-8422-01A-11D-2310-10	14013488	25203089	121160933	29	40817										
CNGB3	54714	bcgsc.ca	37	chr8	87660049	87660049	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ctttaacatcctatttgctcTaaacattggattaaacccaa	3	10	1	0			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr8:87660049T>C	ENST00000320005.5	-	8	1017	c.970A>G	c.(970-972)Aga>Gga	p.R324G		NM_019098.4	NP_061971.3	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	324					cation transport (GO:0006812)|phototransduction, visible light (GO:0007603)|potassium ion transmembrane transport (GO:0071805)|regulation of membrane potential (GO:0042391)|signal transduction (GO:0007165)|transport (GO:0006810)|visual perception (GO:0007601)	integral component of plasma membrane (GO:0005887)|photoreceptor outer segment (GO:0001750)|transmembrane transporter complex (GO:1902495)	cGMP binding (GO:0030553)|intracellular cAMP activated cation channel activity (GO:0005222)|intracellular cGMP activated cation channel activity (GO:0005223)|voltage-gated potassium channel activity (GO:0005249)			NS(1)|breast(2)|endometrium(4)|kidney(6)|large_intestine(15)|lung(44)|ovary(2)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	80						CTATTTGCTCTAAACATTGGA	0.294																																																0													99	97	98					8																	87660049		2203	4298	6501	SO:0001583	missense	54714			AF228520	CCDS6244.1	8q21.3	2013-01-23	2003-06-25		ENSG00000170289	ENSG00000170289		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	2153	protein-coding gene	gene with protein product		605080	"achromatopsia (rod monochromacy) 3", "achromatopsia (rod monochromacy) 1"	ACHM3, ACHM1, RMCH		10888875, 10958649, 16382102	Standard	NM_019098		Approved		uc003ydx.3	Q9NQW8	OTTHUMG00000163738	ENST00000320005.5:c.970A>G	8.37:g.87660049T>C	ENSP00000316605:p.Arg324Gly	Somatic		WXS	Illumina HiSeq	Phase_I	C9JA51|Q9NRE9	Missense_Mutation	SNP	ENST00000320005.5	37	CCDS6244.1	.	.	.	.	.	.	.	.	.	.	T	17.92	3.506625	0.64410	.	.	ENSG00000170289	ENST00000320005	D	0.98792	-5.14	5.93	5.93	0.95920	.	0.000000	0.85682	D	0.000000	D	0.99369	0.9778	H	0.95712	3.71	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.998;0.999	D	0.98737	1.0715	10	0.87932	D	0	.	13.385	0.60791	0.0:0.0:0.1308:0.8692	.	324;324	Q9NQW8-2;Q9NQW8	.;CNGB3_HUMAN	G	324	ENSP00000316605:R324G	ENSP00000316605:R324G	R	-	1	2	CNGB3	87729165	1.000000	0.71417	1.000000	0.80357	0.649000	0.38597	3.316000	0.51960	2.270000	0.75569	0.482000	0.46254	AGA		0.294	CNGB3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375107.1	NM_019098		C	87660049	T	C	87660049	3	2	658	1	0	0	0	0	1	0	0	0	3603	1530	53	3	1503	3	CNGB3	8	87660049	Missense_Mutation	SNP	T	TCGA-KN-8422-01A-11D-2310-10	62456960	87660049	58703973	30	40818										
ORM1	5004	broad.mit.edu	37	chr9	117088629	117088629	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	agaggaaacaggaggaggggGaatcctagcaggacacagcc	16	8	0	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr9:117088629G>A	ENST00000259396.8	+	6	676	c.598G>A	c.(598-600)Gaa>Aaa	p.E200K		NM_000607.2	NP_000598.2	P02763	A1AG1_HUMAN	orosomucoid 1	200					acute-phase response (GO:0006953)|inflammatory response (GO:0006954)|regulation of immune system process (GO:0002682)|transport (GO:0006810)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)				endometrium(2)|large_intestine(4)|lung(2)	8		Myeloproliferative disorder(63;0.163)			Abiraterone(DB05812)|Acenocoumarol(DB01418)|Ajmaline(DB01426)|Alfentanil(DB00802)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Aprindine(DB01429)|Bupropion(DB01156)|Canagliflozin(DB08907)|Celecoxib(DB00482)|Chlorpromazine(DB00477)|Desipramine(DB01151)|Disopyramide(DB00280)|Doxazosin(DB00590)|Doxepin(DB01142)|Erlotinib(DB00530)|Fluoxetine(DB00472)|Gefitinib(DB00317)|Imatinib(DB00619)|Imipramine(DB00458)|Ivacaftor(DB08820)|Maprotiline(DB00934)|Mirabegron(DB08893)|Nateglinide(DB00731)|Nortriptyline(DB00540)|Olanzapine(DB00334)|Oxycodone(DB00497)|Penbutolol(DB01359)|Pethidine(DB00454)|Phenprocoumon(DB00946)|Pitavastatin(DB08860)|Prazosin(DB00457)|Propranolol(DB00571)|Quinidine(DB00908)|Saquinavir(DB01232)|Tacrolimus(DB00864)|Tamsulosin(DB00706)|Telaprevir(DB05521)|Thalidomide(DB01041)|Trazodone(DB00656)|Vandetanib(DB05294)|Vemurafenib(DB08881)|Vismodegib(DB08828)|Warfarin(DB00682)	GGAGGAGGGGGAATCCTAGCA	0.567																																																0													10	14	13					9																	117088629		2135	4212	6347	SO:0001583	missense	5004				CCDS6803.1	9q32	2013-09-19			ENSG00000229314	ENSG00000229314		"Lipocalins"	8498	protein-coding gene	gene with protein product		138600					Standard	NM_000607		Approved		uc004bik.4	P02763	OTTHUMG00000021012	ENST00000259396.8:c.598G>A	9.37:g.117088629G>A	ENSP00000259396:p.Glu200Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKQ5|Q5T539|Q5U067|Q8TC16	Missense_Mutation	SNP	ENST00000259396.8	37	CCDS6803.1	.	.	.	.	.	.	.	.	.	.	-	8.126	0.781943	0.16189	.	.	ENSG00000229314	ENST00000259396	T	0.09538	2.97	2.31	1.4	0.22301	.	4.185410	0.00481	N	0.000130	T	0.10423	0.0255	L	0.37630	1.12	0.09310	N	0.999999	B	0.21821	0.061	B	0.11329	0.006	T	0.27938	-1.0059	10	0.45353	T	0.12	3.0E-4	5.045	0.14479	0.1769:0.0:0.8231:0.0	.	200	P02763	A1AG1_HUMAN	K	200	ENSP00000259396:E200K	ENSP00000259396:E200K	E	+	1	0	ORM1	116128450	0.007000	0.16637	0.000000	0.03702	0.263000	0.26337	1.175000	0.31944	0.539000	0.28788	0.164000	0.16699	GAA		0.567	ORM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055426.1			A	117088629	G	A	117088629	3	1	658	1	0	0	0	0	1	0	0	0	11274	1175	41	2	620	2	ORM1	9	117088629	Missense_Mutation	SNP	G	TCGA-KN-8422-01A-11D-2310-10		117088629	24124802	31	40819										
TFAM	7019	ucsc.edu	37	chr10	60148464	60148464	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ttatagggcggagtggcaggTatataaagaagagataagca	14	3	0	2	rs77418790		TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr10:60148464T>G	ENST00000487519.1	+	4	852	c.326T>G	c.(325-327)gTa>gGa	p.V109G	TFAM_ENST00000373899.3_3'UTR|TFAM_ENST00000373895.3_Missense_Mutation_p.V109G	NM_001270782.1|NM_003201.2	NP_001257711.1|NP_003192.1	Q00059	TFAM_HUMAN	transcription factor A, mitochondrial	109					DNA-dependent DNA replication (GO:0006261)|gene expression (GO:0010467)|mitochondrial respiratory chain complex assembly (GO:0033108)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase I promoter (GO:0006356)|transcription from mitochondrial promoter (GO:0006390)|transcription initiation from mitochondrial promoter (GO:0006391)	mitochondrial matrix (GO:0005759)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding, bending (GO:0008301)|mitochondrial light strand promoter sense binding (GO:0070363)|poly(A) RNA binding (GO:0044822)|sequence-specific DNA binding transcription factor activity (GO:0003700)			kidney(1)|large_intestine(1)|lung(4)|prostate(1)	7						GAGTGGCAGGTATATAAAGAA	0.348																																																0																																										SO:0001583	missense	7019			BC018628	CCDS7253.1, CCDS59217.1	10q21	2010-09-24			ENSG00000108064	ENSG00000108064			11741	protein-coding gene	gene with protein product		600438		TCF6, TCF6L2		7789991	Standard	NM_003201		Approved		uc001jkf.4	Q00059	OTTHUMG00000018270	ENST00000487519.1:c.326T>G	10.37:g.60148464T>G	ENSP00000420588:p.Val109Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MRB2|A9QXC6|B5BU05|Q5U0C6	Missense_Mutation	SNP	ENST00000487519.1	37	CCDS7253.1	.	.	.	.	.	.	.	.	.	.	T	9.686	1.150562	0.21371	.	.	ENSG00000108064	ENST00000487519;ENST00000373895	D;D	0.97941	-4.62;-4.62	5.93	-1.14	0.09741	High mobility group, superfamily (1);High mobility group, HMG1/HMG2 (4);	0.851711	0.10843	N	0.627976	D	0.95815	0.8638	M	0.66939	2.045	0.26014	N	0.981958	P;P	0.48694	0.811;0.914	B;P	0.45167	0.433;0.472	D	0.90352	0.4367	10	0.33940	T	0.23	.	6.2978	0.21095	0.0:0.4583:0.1274:0.4143	.	109;109	A8MRB2;Q00059	.;TFAM_HUMAN	G	109	ENSP00000420588:V109G;ENSP00000363002:V109G	ENSP00000363002:V109G	V	+	2	0	TFAM	59818470	0.014000	0.17966	0.565000	0.28409	0.047000	0.14425	-0.297000	0.08276	-0.097000	0.12307	-0.242000	0.12053	GTA		0.348	TFAM-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048146.1	NM_003201		G	60148464	T	G	60148464	3	3	658	1	0	0	0	0	1	0	0	0	15798	1638	57	5	340	5	TFAM	10	60148464	Missense_Mutation	SNP	T	TCGA-KN-8422-01A-11D-2310-10		60148464	75386283	32	40820										
TYSND1	219743	mdanderson.org	37	chr10	71905695	71905695	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ccgcagaccagcaatggcgcAcccttgggcacggccccgag	13	17	0	1	rs35587847|rs10999158	byFrequency	TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr10:71905695A>G	ENST00000287078.6	-	1	647	c.648T>C	c.(646-648)ggT>ggC	p.G216G	TYSND1_ENST00000335494.5_Silent_p.G216G|TYSND1_ENST00000494143.1_5'Flank	NM_173555.2	NP_775826.2	Q2T9J0	TYSD1_HUMAN	trypsin domain containing 1	216					protein homooligomerization (GO:0051260)|protein processing (GO:0016485)|proteolysis (GO:0006508)|regulation of fatty acid beta-oxidation (GO:0031998)	membrane (GO:0016020)|peroxisome (GO:0005777)	identical protein binding (GO:0042802)|protease binding (GO:0002020)|serine-type endopeptidase activity (GO:0004252)			endometrium(2)|large_intestine(2)|liver(1)|lung(3)|prostate(1)	9						GCAATGGCGCACCCTTGGGCA	0.701													G|||	1634	0.326278	0.3775	0.2911	5008	,	,		12458	0.0615		0.4791	False		,,,				2504	0.3978															0								G	,	1632,2678		358,916,881	11	13	12		648,648	0.9	1	10	dbSNP_120	12	3557,4851		845,1867,1492	no	coding-synonymous,coding-synonymous	TYSND1	NM_001040273.1,NM_173555.2	,	1203,2783,2373	GG,GA,AA		42.3049,37.8654,40.8004	,	216/399,216/567	71905695	5189,7529	2155	4204	6359	SO:0001819	synonymous_variant	219743			BC016840	CCDS31213.1, CCDS31214.1	10q22.1	2009-11-06		2006-09-21	ENSG00000156521	ENSG00000156521			28531	protein-coding gene	gene with protein product		611017				17255948	Standard	NM_173555		Approved	MGC34695, NET41	uc001jqr.4	Q2T9J0	OTTHUMG00000018397	ENST00000287078.6:c.648T>C	10.37:g.71905695A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SQT4|Q5SQU1|Q8N6H2|Q96AR5	Silent	SNP	ENST00000287078.6	37	CCDS31213.1																																																																																				0.701	TYSND1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048483.1	NM_173555		G	71905695	A	G	71905695	2	3	658	1	0	0	0	0	0	0	0	1	16829	146	6	3		3	TYSND1	10	71905695	Silent	SNP	A	TCGA-KN-8422-01A-11D-2310-10	11757231	71905695	63629052	33	40821										
TBC1D12	23232	ucsc.edu	37	chr10	96163181	96163181	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	tgggcttttctgacattcacTtcaactctcgcaacacgttc	6	13	4	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr10:96163181T>C	ENST00000225235.4	+	1	921	c.811T>C	c.(811-813)Ttc>Ctc	p.F271L		NM_015188.1	NP_056003.1	O60347	TBC12_HUMAN	TBC1 domain family, member 12	271							Rab GTPase activator activity (GO:0005097)			breast(1)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(5)|upper_aerodigestive_tract(2)	20		Colorectal(252;0.0429)				TGACATTCACTTCAACTCTCG	0.731																																																0													8	11	10					10																	96163181		1754	3895	5649	SO:0001583	missense	23232			AB011180	CCDS41553.1	10q23.33	2013-09-20			ENSG00000108239	ENSG00000108239			29082	protein-coding gene	gene with protein product						9628581	Standard	NM_015188		Approved	KIAA0608	uc001kjr.2	O60347	OTTHUMG00000018794	ENST00000225235.4:c.811T>C	10.37:g.96163181T>C	ENSP00000225235:p.Phe271Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VYA6|Q8WX26|Q8WX59|Q9UG83	Missense_Mutation	SNP	ENST00000225235.4	37	CCDS41553.1	.	.	.	.	.	.	.	.	.	.	T	9.097	1.003103	0.19121	.	.	ENSG00000108239	ENST00000225235	T	0.03468	3.92	3.63	2.44	0.29823	.	2.556960	0.02013	N	0.047196	T	0.02304	0.0071	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.40997	-0.9533	10	0.02654	T	1	1.4128	6.9045	0.24301	0.0:0.0:0.2373:0.7627	.	271	O60347	TBC12_HUMAN	L	271	ENSP00000225235:F271L	ENSP00000225235:F271L	F	+	1	0	TBC1D12	96153171	0.048000	0.20356	0.002000	0.10522	0.197000	0.23852	0.095000	0.15127	0.540000	0.28808	0.379000	0.24179	TTC		0.731	TBC1D12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049482.2			C	96163181	T	C	96163181	3	2	658	1	0	0	0	0	1	0	0	0	15613	1609	56	3	813	3	TBC1D12	10	96163181	Missense_Mutation	SNP	T	TCGA-KN-8422-01A-11D-2310-10	24257486	96163181	39371566	34	40822										
MUC6	4588	mdanderson.org	37	chr11	1017530	1017530	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	gttgaggtgacttcaggatgGtgtgtggaggaagtgtgtga	19	2	1	3			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr11:1017530G>A	ENST00000421673.2	-	31	5321	c.5271C>T	c.(5269-5271)caC>caT	p.H1757H		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1757	Approximate repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		CTTCAGGATGGTGTGTGGAGG	0.562																																																0													794	752	766					11																	1017530		2201	4294	6495	SO:0001819	synonymous_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5271C>T	11.37:g.1017530G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Silent	SNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.562	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1017530	G	A	1017530	2	1	658	1	0	0	0	0	0	0	0	1	9987	1252	44	2		2	MUC6	11	1017530	Silent	SNP	G	TCGA-KN-8422-01A-11D-2310-10		1017530	133988986	35	40823										
MUC6	4588	mdanderson.org	37	chr11	1018394	1018394	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ttggaggcagatgtggccatCtgtgcgtgggtaggggtgat	19	5	1	2	rs111444881		TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr11:1018394C>T	ENST00000421673.2	-	31	4457	c.4407G>A	c.(4405-4407)caG>caA	p.Q1469Q		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1469	Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		ATGTGGCCATCTGTGCGTGGG	0.567																																																0													271	265	267					11																	1018394		2190	4284	6474	SO:0001819	synonymous_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4407G>A	11.37:g.1018394C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Silent	SNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.567	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		T	1018394	C	T	1018394	2	4	658	1	0	0	0	0	0	0	0	1	9987	912	32	2		2	MUC6	11	1018394	Silent	SNP	C	TCGA-KN-8422-01A-11D-2310-10	864	1018394	133988122	36	40824										
EML3	256364	mdanderson.org	37	chr11	62378660	62378660	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	cctccttcagattgggtcccGctaggctcttcgctggcccc	10	17	2	1	rs12808829	byFrequency	TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr11:62378660G>A	ENST00000394773.2	-	3	658	c.351C>T	c.(349-351)agC>agT	p.S117S	EML3_ENST00000278845.4_Silent_p.S118S|ROM1_ENST00000534093.1_5'Flank|EML3_ENST00000529309.1_Silent_p.S117S|ROM1_ENST00000278833.3_5'Flank|EML3_ENST00000531557.1_5'Flank|EML3_ENST00000494176.2_Silent_p.S89S	NM_153265.2	NP_694997.2	Q32P44	EMAL3_HUMAN	echinoderm microtubule associated protein like 3	117						cytoplasm (GO:0005737)|microtubule (GO:0005874)				biliary_tract(1)|breast(3)|endometrium(4)|kidney(2)|large_intestine(1)|lung(11)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	26						ATTGGGTCCCGCTAGGCTCTT	0.687													A|||	972	0.194089	0.1936	0.2032	5008	,	,		15245	0.0506		0.3161	False		,,,				2504	0.2106															0								A		926,3418		102,722,1348	11	14	13		351	-5.5	0.1	11	dbSNP_121	13	2990,5538		549,1892,1823	no	coding-synonymous	EML3	NM_153265.2		651,2614,3171	AA,AG,GG		35.061,21.3168,30.4226		117/897	62378660	3916,8956	2172	4264	6436	SO:0001819	synonymous_variant	256364			AK093146	CCDS8023.2	11q12.3	2013-01-10			ENSG00000149499	ENSG00000149499		"WD repeat domain containing"	26666	protein-coding gene	gene with protein product						15225882, 14744259	Standard	NM_153265		Approved	FLJ35827, ELP95	uc001ntu.1	Q32P44	OTTHUMG00000149817	ENST00000394773.2:c.351C>T	11.37:g.62378660G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW7|Q8NA55	Silent	SNP	ENST00000394773.2	37	CCDS8023.2	472	0.21611721611721613	112	0.22764227642276422	91	0.2513812154696133	32	0.055944055944055944	237	0.31266490765171506	A	4.052	0.007268	0.07866	0.213168	0.35061	ENSG00000149499	ENST00000394776	.	.	.	5.05	-5.49	0.02584	.	.	.	.	.	T	0.00012	0.0000	.	.	.	0.09310	P	0.9999999872094	.	.	.	.	.	.	T	0.37865	-0.9687	3	.	.	.	-0.0522	7.3335	0.26596	0.2996:0.2839:0.4165:0.0	rs12808829	.	.	.	W	112	.	.	R	-	1	2	EML3	62135236	0.008000	0.16893	0.095000	0.20976	0.334000	0.28698	-0.688000	0.05150	-1.005000	0.03417	-0.521000	0.04368	CGG		0.687	EML3-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000313432.1	NM_153265		A	62378660	G	A	62378660	2	1	658	1	0	0	0	0	0	0	0	1	5100	1078	38	1		1	EML3	11	62378660	Silent	SNP	G	TCGA-KN-8422-01A-11D-2310-10	61360266	62378660	72627856	37	40825										
EFEMP2	30008	ucsc.edu	37	chr11	65635766	65635766	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ctggcatcgaattgactcacTtctcagagacctggatgtag	10	10	2	2			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr11:65635766T>C	ENST00000307998.6	-	9	1204	c.974A>G	c.(973-975)aAc>aGc	p.N325S	EFEMP2_ENST00000528176.1_Splice_Site_p.N325S|EFEMP2_ENST00000532648.1_5'Flank	NM_016938.4	NP_058634.4	O95967	FBLN4_HUMAN	EGF containing fibulin-like extracellular matrix protein 2	325	EGF-like 6; calcium-binding. {ECO:0000255|PROSITE-ProRule:PRU00076}.				blood coagulation (GO:0007596)|extracellular matrix organization (GO:0030198)	basement membrane (GO:0005604)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|vesicle (GO:0031982)	calcium ion binding (GO:0005509)|extracellular matrix structural constituent (GO:0005201)|transmembrane signaling receptor activity (GO:0004888)			cervix(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(12)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	21				READ - Rectum adenocarcinoma(159;0.169)		ATTGACTCACTTCTCAGAGAC	0.602																																																0													37	36	36					11																	65635766		2201	4296	6497	SO:0001630	splice_region_variant	30008			AF109121	CCDS8116.1	11q13	2011-06-17	2011-01-25		ENSG00000172638	ENSG00000172638		"Fibulins"	3219	protein-coding gene	gene with protein product	"fibulin 4"	604633	"EGF-containing fibulin-like extracellular matrix protein 2"			10601734, 10982184	Standard	NR_037718		Approved	FBLN4, UPH1	uc001ofy.4	O95967	OTTHUMG00000166664	ENST00000307998.6:c.974+1A>G	11.37:g.65635766T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7R4|B3KM31|B3KQT1|O75967	Missense_Mutation	SNP	ENST00000307998.6	37	CCDS8116.1	.	.	.	.	.	.	.	.	.	.	T	9.495	1.101722	0.20632	.	.	ENSG00000172638	ENST00000531645;ENST00000528176;ENST00000307998	D;D;D	0.91740	-2.9;-2.9;-2.9	4.82	4.82	0.62117	Epidermal growth factor-like (1);EGF-like calcium-binding (1);	0.000000	0.53938	D	0.000051	D	0.89842	0.6832	L	0.48877	1.53	0.58432	D	0.999998	P;P	0.40731	0.63;0.728	B;B	0.43728	0.191;0.429	D	0.88380	0.3001	9	.	.	.	.	12.3479	0.55132	0.0:0.0:0.0:1.0	.	325;325	E9PRU1;O95967	.;FBLN4_HUMAN	S	41;325;325	ENSP00000436521:N41S;ENSP00000434151:N325S;ENSP00000309953:N325S	.	N	-	2	0	EFEMP2	65392342	1.000000	0.71417	1.000000	0.80357	0.038000	0.13279	5.764000	0.68826	1.814000	0.52955	0.374000	0.22700	AAC		0.602	EFEMP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391047.4	NM_016938	Missense_Mutation	C	65635766	T	C	65635766	5	2	658	1	0	0	0	0	0	0	1	0	4944	1623	56	3	369	3	EFEMP2	11	65635766	Splice_Site	SNP	T	TCGA-KN-8422-01A-11D-2310-10	3257106	65635766	69370750	38	40826										
PPFIA1	8500	ucsc.edu	37	chr11	70178163	70178163	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	agagacgctcccggaggtggAggcggagctggcccagaggg	20	10	0	2			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr11:70178163A>G	ENST00000253925.7	+	9	1390	c.1175A>G	c.(1174-1176)gAg>gGg	p.E392G	AP000487.6_ENST00000528607.1_RNA|PPFIA1_ENST00000389547.3_Missense_Mutation_p.E392G	NM_003626.3	NP_003617.1	Q13136	LIPA1_HUMAN	protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 1	392					cell-matrix adhesion (GO:0007160)|negative regulation of establishment of protein localization to plasma membrane (GO:0090005)|negative regulation of stress fiber assembly (GO:0051497)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|presynaptic active zone (GO:0048786)	signal transducer activity (GO:0004871)			breast(3)|cervix(1)|endometrium(5)|kidney(5)|large_intestine(11)|lung(31)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	65			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			CCGGAGGTGGAGGCGGAGCTG	0.572																																																0													107	103	105					11																	70178163		2200	4294	6494	SO:0001583	missense	8500			U22816	CCDS31627.1, CCDS31628.1	11q13.3	2013-01-10			ENSG00000131626	ENSG00000131626		"Sterile alpha motif (SAM) domain containing"	9245	protein-coding gene	gene with protein product	"Liprin-alpha1"	611054				7796809, 9624153	Standard	NM_003626		Approved	LIP.1, LIPRIN	uc001opo.3	Q13136	OTTHUMG00000167266	ENST00000253925.7:c.1175A>G	11.37:g.70178163A>G	ENSP00000253925:p.Glu392Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLE3|Q13135|Q14567|Q8N4I2	Missense_Mutation	SNP	ENST00000253925.7	37	CCDS31627.1	.	.	.	.	.	.	.	.	.	.	A	31	5.069588	0.93950	.	.	ENSG00000131626	ENST00000253925;ENST00000389547	T;T	0.37915	1.17;1.17	5.13	5.13	0.70059	.	0.000000	0.85682	U	0.000000	T	0.66781	0.2824	M	0.89601	3.045	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.81914	0.992;0.995	T	0.75365	-0.3343	10	0.87932	D	0	.	14.9748	0.71264	1.0:0.0:0.0:0.0	.	392;392	Q13136;Q13136-2	LIPA1_HUMAN;.	G	392	ENSP00000253925:E392G;ENSP00000374198:E392G	ENSP00000253925:E392G	E	+	2	0	PPFIA1	69855811	1.000000	0.71417	0.998000	0.56505	0.964000	0.63967	9.116000	0.94341	1.931000	0.55961	0.533000	0.62120	GAG		0.572	PPFIA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000393905.1	NM_003626		G	70178163	A	G	70178163	3	3	658	1	0	0	0	0	1	0	0	0	12316	304	11	3	1205	3	PPFIA1	11	70178163	Missense_Mutation	SNP	A	TCGA-KN-8422-01A-11D-2310-10	4542397	70178163	64828353	39	40827										
FOLH1B	219595	broad.mit.edu;mdanderson.org	37	chr11	89421805	89421805	+	RNA	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ggtgttcttccaacgacttgGaattgcttcaggcagagcac	11	10	2	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr11:89421805G>C	ENST00000532352.1	+	0	1475							Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B							cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	dipeptidase activity (GO:0016805)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(7)|lung(26)|ovary(4)|skin(4)|urinary_tract(2)	48						CAACGACTTGGAATTGCTTCA	0.299																																																0													61	69	66					11																	89421805		2196	4294	6490			219595			AF261715		11q14.3	2014-03-18			ENSG00000134612	ENSG00000134612			13636	protein-coding gene	gene with protein product	"prostate specific membrane antigen like protein", "Cell growth-inhibiting gene 26 protein", "glutamate carboxypeptidase III"	609020	"folate hydrolase 2"	FOLH2, FOLHP		9838072, 14716746	Standard	NM_153696		Approved	PSMAL, GCPIII	uc001pda.3	Q9HBA9	OTTHUMG00000167376		11.37:g.89421805G>C		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000532352.1	37																																																																																					0.299	FOLH1B-004	KNOWN	basic	processed_transcript	pseudogene	OTTHUMT00000395421.1	NM_153696		C	89421805	G	C	89421805	1	2	658	0	1	0	0	0	0	0	0	0	5987	1174	41	4		4	FOLH1B	11	89421805	RNA	SNP	G	TCGA-KN-8422-01A-11D-2310-10	19243642	89421805	45584711	40	40828										
PGR	5241	broad.mit.edu	37	chr11	100999089	100999089	+	Frame_Shift_Del	DEL	T	T	-													0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ccagagcccgaggtttgcccTtcagaagcggacccgcagac							TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr11:100999089delT	ENST00000325455.5	-	1	2166	c.713delA	c.(712-714)aagfs	p.K238fs	PGR_ENST00000263463.5_Frame_Shift_Del_p.K238fs|PGR_ENST00000534013.1_Intron	NM_000926.4|NM_001202474.1|NM_001271162.1	NP_000917.3|NP_001189403.1|NP_001258091.1	P06401	PRGR_HUMAN	progesterone receptor	238	Modulating, Pro-Rich.				cell-cell signaling (GO:0007267)|epithelial cell maturation (GO:0002070)|gene expression (GO:0010467)|negative regulation of gene expression (GO:0010629)|ovulation from ovarian follicle (GO:0001542)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|progesterone receptor signaling pathway (GO:0050847)|regulation of epithelial cell proliferation (GO:0050678)|signal transduction (GO:0007165)|tertiary branching involved in mammary gland duct morphogenesis (GO:0060748)|transcription initiation from RNA polymerase II promoter (GO:0006367)	mitochondrial outer membrane (GO:0005741)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|enzyme binding (GO:0019899)|ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|receptor binding (GO:0005102)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|steroid binding (GO:0005496)|steroid hormone receptor activity (GO:0003707)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(4)|liver(1)|lung(18)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	36		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)	Allylestrenol(DB01431)|Danazol(DB01406)|Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol(DB00823)|Etonogestrel(DB00294)|Fluticasone Propionate(DB00588)|Levonorgestrel(DB00367)|Medroxyprogesterone Acetate(DB00603)|Megestrol acetate(DB00351)|Mifepristone(DB00834)|Norelgestromin(DB06713)|Norethindrone(DB00717)|Norgestimate(DB00957)|Progesterone(DB00396)|Spironolactone(DB00421)	AGGTTTGCCCTTCAGAAGCGG	0.721																																					Pancreas(124;2271 2354 21954 22882)											0													9	11	11					11																	100999089		2129	4263	6392	SO:0001589	frameshift_variant	5241			M15716	CCDS8310.1, CCDS59229.1	11q22-q23	2013-01-16			ENSG00000082175	ENSG00000082175		"Nuclear hormone receptors"	8910	protein-coding gene	gene with protein product		607311					Standard	NM_000926		Approved	PR, NR3C3	uc001pgh.2	P06401	OTTHUMG00000167531	ENST00000325455.5:c.713delA	11.37:g.100999089delT	ENSP00000325120:p.Lys238fs	Somatic		WXS	Illumina HiSeq	Phase_I	A7LQ08|A7X8B0|B4E3T0|Q8TDS3|Q9UPF7	Frame_Shift_Del	DEL	ENST00000325455.5	37	CCDS8310.1																																																																																				0.721	PGR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394934.1			-	100999089	T	-	100999089	7	5	658	1	0	1	0	1	0	0	0	0	11812	1609	56	0	2120	0	PGR	11	100999089	Frame_Shift_Del	DEL	T	TCGA-KN-8422-01A-11D-2310-10	11577284	100999089	34007427	41	40829										
CEP164	22897	hgsc.bcm.edu;mdanderson.org	37	chr11	117214946	117214946	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	gaaccagaactgatgtggctGgcgcgagagggcatcgtggc	17	9	0	3			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr11:117214946G>T	ENST00000278935.3	+	4	294	c.147G>T	c.(145-147)ctG>ctT	p.L49L		NM_001271933.1|NM_014956.4	NP_001258862.1|NP_055771.4	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	49	Interaction with ATRIP.				cilium assembly (GO:0042384)|DNA repair (GO:0006281)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	centriole (GO:0005814)|centrosome (GO:0005813)|ciliary transition fiber (GO:0097539)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular space (GO:0005615)|nucleus (GO:0005634)				breast(3)|central_nervous_system(1)|kidney(7)|large_intestine(12)|lung(18)|ovary(3)|prostate(3)	47	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)		TGATGTGGCTGGCGCGAGAGG	0.557																																																0													41	38	39					11																	117214946		2201	4296	6497	SO:0001819	synonymous_variant	22897			AB028975	CCDS31683.1	11q23.3	2014-02-20			ENSG00000110274	ENSG00000110274			29182	protein-coding gene	gene with protein product		614848				10470851, 14654843	Standard	NM_014956		Approved	KIAA1052, NPHP15	uc001prc.3	Q9UPV0	OTTHUMG00000167070	ENST00000278935.3:c.147G>T	11.37:g.117214946G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6PKH9|Q7Z2X9|Q9NVS0|Q9UFJ6	Silent	SNP	ENST00000278935.3	37	CCDS31683.1																																																																																				0.557	CEP164-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392893.1	NM_014956		T	117214946	G	T	117214946	2	4	658	1	0	0	0	0	0	0	0	1	3251	1335	47	4		4	CEP164	11	117214946	Silent	SNP	G	TCGA-KN-8422-01A-11D-2310-10	16215857	117214946	17791570	42	40830										
TAS2R31	259290	mdanderson.org	37	chr12	11183066	11183066	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	cttgccgcaaaactgaaagaAaagtctgctttagcttcttg	8	9	2	2	rs138895028		TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr12:11183066A>T	ENST00000390675.2	-	1	940	c.869T>A	c.(868-870)tTt>tAt	p.F290Y	TAS2R14_ENST00000381852.4_Intron|PRR4_ENST00000536668.1_Intron	NM_176885.2	NP_795366.2	P59538	T2R31_HUMAN	taste receptor, type 2, member 31	290					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			kidney(1)|lung(6)	7						AACTGAAAGAAAAGTCTGCTT	0.428																																																0													205	208	207					12																	11183066		1976	4186	6162	SO:0001583	missense	259290			AX097748, AF494228	CCDS53747.1	12p13.2	2012-08-22				ENSG00000256436		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19113	protein-coding gene	gene with protein product		612669	"taste receptor, type 2, member 44"	TAS2R44			Standard	NM_176885		Approved	T2R31, T2R53	uc001qzo.1	P59538		ENST00000390675.2:c.869T>A	12.37:g.11183066A>T	ENSP00000375093:p.Phe290Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	P59547|Q17R84|Q645X5	Missense_Mutation	SNP	ENST00000390675.2	37	CCDS53747.1	.	.	.	.	.	.	.	.	.	.	.	11.50	1.657910	0.29425	.	.	ENSG00000256436	ENST00000390675	T	0.42131	0.98	2.41	2.41	0.29592	.	.	.	.	.	T	0.43787	0.1263	M	0.81614	2.55	0.09310	N	1	P	0.35944	0.529	B	0.37451	0.25	T	0.36866	-0.9730	9	0.42905	T	0.14	.	6.6503	0.22959	1.0:0.0:0.0:0.0	.	290	P59538	T2R31_HUMAN	Y	290	ENSP00000375093:F290Y	ENSP00000375093:F290Y	F	-	2	0	TAS2R31	11074333	0.000000	0.05858	0.003000	0.11579	0.127000	0.20565	0.972000	0.29409	1.128000	0.42052	0.155000	0.16302	TTT		0.428	TAS2R31-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400233.1	NM_176885		T	11183066	A	T	11183066	3	4	658	1	0	0	0	0	1	0	0	0	15586	14	1	5	64	5	TAS2R31	12	11183066	Missense_Mutation	SNP	A	TCGA-KN-8422-01A-11D-2310-10		11183066	122668829	43	40831										
TAS2R31	259290	mdanderson.org	37	chr12	11183496	11183496	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	tacaatctctttcatgtttaTcacaaaaagttgacaagcca	4	9	3	1	rs199736450		TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr12:11183496T>C	ENST00000390675.2	-	1	510	c.439A>G	c.(439-441)Ata>Gta	p.I147V	TAS2R14_ENST00000381852.4_Intron|PRR4_ENST00000536668.1_Intron	NM_176885.2	NP_795366.2	P59538	T2R31_HUMAN	taste receptor, type 2, member 31	147					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			kidney(1)|lung(6)	7						TTCATGTTTATCACAAAAAGT	0.383																																																0													78	80	79					12																	11183496		2077	4242	6319	SO:0001583	missense	259290			AX097748, AF494228	CCDS53747.1	12p13.2	2012-08-22				ENSG00000256436		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19113	protein-coding gene	gene with protein product		612669	"taste receptor, type 2, member 44"	TAS2R44			Standard	NM_176885		Approved	T2R31, T2R53	uc001qzo.1	P59538		ENST00000390675.2:c.439A>G	12.37:g.11183496T>C	ENSP00000375093:p.Ile147Val	Somatic		WXS	Illumina HiSeq	Phase_I	P59547|Q17R84|Q645X5	Missense_Mutation	SNP	ENST00000390675.2	37	CCDS53747.1	.	.	.	.	.	.	.	.	.	.	.	0.060	-1.225300	0.01530	.	.	ENSG00000256436	ENST00000390675	T	0.00792	5.69	2.45	-4.89	0.03103	.	.	.	.	.	T	0.00468	0.0015	N	0.11818	0.18	0.09310	N	1	B	0.06786	0.001	B	0.11329	0.006	T	0.43114	-0.9411	9	0.17832	T	0.49	.	4.2721	0.10792	0.1787:0.2132:0.0:0.6081	.	147	P59538	T2R31_HUMAN	V	147	ENSP00000375093:I147V	ENSP00000375093:I147V	I	-	1	0	TAS2R31	11074763	0.000000	0.05858	0.000000	0.03702	0.012000	0.07955	-1.931000	0.01556	-1.115000	0.02973	-1.140000	0.01884	ATA		0.383	TAS2R31-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400233.1	NM_176885		C	11183496	T	C	11183496	3	2	658	1	0	0	0	0	1	0	0	0	15586	1435	50	3	494	3	TAS2R31	12	11183496	Missense_Mutation	SNP	T	TCGA-KN-8422-01A-11D-2310-10	430	11183496	122668399	44	40832										
MLL2	8085	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	49432249	49432249	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	gctcgacgggggccggttgaCcagctccaaaccagttggca	14	13	0	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr12:49432249C>A	ENST00000301067.7	-	34	8889	c.8890G>T	c.(8890-8892)Gtc>Ttc	p.V2964F	KMT2D_ENST00000549743.1_5'Flank	NM_003482.3	NP_003473.3	O14686	KMT2D_HUMAN	lysine (K)-specific methyltransferase 2D	2964	Pro-rich.				chromatin silencing (GO:0006342)|histone H3-K4 methylation (GO:0051568)|oocyte growth (GO:0001555)|oogenesis (GO:0048477)|positive regulation of cell proliferation (GO:0008284)|positive regulation of intracellular estrogen receptor signaling pathway (GO:0033148)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|response to estrogen (GO:0043627)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)										GGCCGGTTGACCAGCTCCAAA	0.607																																																0													69	75	73					12																	49432249		1922	4121	6043	SO:0001583	missense	8085			AF010403	CCDS44873.1	12q13.12	2013-05-09	2013-05-09	2013-05-09	ENSG00000167548	ENSG00000167548		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	7133	protein-coding gene	gene with protein product		602113	"trinucleotide repeat containing 21", "myeloid/lymphoid or mixed-lineage leukemia 2"	TNRC21, MLL2		9247308	Standard	NM_003482		Approved	ALR, MLL4, CAGL114		O14686	OTTHUMG00000166524	ENST00000301067.7:c.8890G>T	12.37:g.49432249C>A	ENSP00000301067:p.Val2964Phe	Somatic		WXS	Illumina HiSeq	Phase_I	O14687	Missense_Mutation	SNP	ENST00000301067.7	37	CCDS44873.1	.	.	.	.	.	.	.	.	.	.	C	9.138	1.013049	0.19277	.	.	ENSG00000167548	ENST00000301067	T	0.79454	-1.27	5.73	5.73	0.89815	.	0.000000	0.34906	N	0.003589	T	0.60064	0.2240	N	0.08118	0	0.25068	N	0.991018	P	0.44195	0.828	B	0.38880	0.284	T	0.62770	-0.6784	10	0.87932	D	0	.	13.4164	0.60972	0.0:0.8427:0.1573:0.0	.	2964	O14686	MLL2_HUMAN	F	2964	ENSP00000301067:V2964F	ENSP00000301067:V2964F	V	-	1	0	MLL2	47718516	0.444000	0.25649	1.000000	0.80357	0.865000	0.49528	1.100000	0.31025	2.882000	0.98803	0.655000	0.94253	GTC		0.607	KMT2D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390183.2			A	49432249	C	A	49432249	3	1	658	1	0	0	0	0	1	0	0	0	9628	507	18	4	7807	4	MLL2	12	49432249	Missense_Mutation	SNP	C	TCGA-KN-8422-01A-11D-2310-10	38248753	49432249	84419646	45	40833										
SMARCC2	6601	hgsc.bcm.edu	37	chr12	56565715	56565715	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ccagtcatctttgtacatttCcagtgcctggtggtagtggt	11	9	2	0			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr12:56565715C>T	ENST00000267064.4	-	20	1926	c.1840G>A	c.(1840-1842)Gaa>Aaa	p.E614K	SMARCC2_ENST00000550164.1_Missense_Mutation_p.E645K|SMARCC2_ENST00000394023.3_Missense_Mutation_p.E645K|RP11-977G19.5_ENST00000553176.1_RNA|SMARCC2_ENST00000347471.4_Missense_Mutation_p.E645K	NM_003075.3	NP_003066.2	Q8TAQ2	SMRC2_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2	614	SANT. {ECO:0000255|PROSITE- ProRule:PRU00624}.				ATP-dependent chromatin remodeling (GO:0043044)|chromatin remodeling (GO:0006338)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|nucleosome disassembly (GO:0006337)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription from RNA polymerase II promoter involved in forebrain neuron fate commitment (GO:0021882)|transcription, DNA-templated (GO:0006351)	nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|protein complex (GO:0043234)|SWI/SNF complex (GO:0016514)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|transcription coactivator activity (GO:0003713)	p.E614K(1)		breast(1)|central_nervous_system(3)|endometrium(6)|kidney(3)|large_intestine(3)|lung(20)|ovary(1)|skin(2)|soft_tissue(1)|upper_aerodigestive_tract(1)	41			OV - Ovarian serous cystadenocarcinoma(18;0.123)			TTGTACATTTCCAGTGCCTGG	0.507																																																1	Substitution - Missense(1)	skin(1)											77	65	69					12																	56565715		2203	4300	6503	SO:0001583	missense	6601			U66616	CCDS8907.1, CCDS8908.1, CCDS55835.1	12q13.2	2008-05-14				ENSG00000139613			11105	protein-coding gene	gene with protein product		601734				8804307, 9693044	Standard	NM_001130420		Approved	BAF170, Rsc8, CRACC2	uc001skb.3	Q8TAQ2	OTTHUMG00000170288	ENST00000267064.4:c.1840G>A	12.37:g.56565715C>T	ENSP00000267064:p.Glu614Lys	Somatic		WXS	Illumina HiSeq	Phase_I	F8VTJ5|Q59GV3|Q92923|Q96E12|Q96GY4	Missense_Mutation	SNP	ENST00000267064.4	37	CCDS8907.1	.	.	.	.	.	.	.	.	.	.	C	27.1	4.798517	0.90538	.	.	ENSG00000139613	ENST00000394023;ENST00000550164;ENST00000347471;ENST00000267064	T;T;T;T	0.39787	1.06;1.06;1.06;1.06	3.89	3.0	0.34707	Myb, DNA-binding (1);SANT domain, DNA binding (1);Homeodomain-related (1);Homeodomain-like (1);SANT, eukarya (1);	0.122444	0.52532	D	0.000069	T	0.38134	0.1029	L	0.61387	1.9	0.58432	D	0.999994	B;B;B;B;B	0.33345	0.409;0.356;0.409;0.409;0.356	B;B;B;B;B	0.30572	0.117;0.071;0.117;0.117;0.115	T	0.40308	-0.9570	10	0.56958	D	0.05	-11.0784	11.0341	0.47791	0.0:0.9047:0.0:0.0953	.	534;645;649;614;645	B4DF22;F8VTJ5;Q59G16;Q8TAQ2;Q8TAQ2-2	.;.;.;SMRC2_HUMAN;.	K	645;645;645;614	ENSP00000377591:E645K;ENSP00000449396:E645K;ENSP00000302919:E645K;ENSP00000267064:E614K	ENSP00000267064:E614K	E	-	1	0	SMARCC2	54851982	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.609000	0.82925	1.211000	0.43351	0.655000	0.94253	GAA		0.507	SMARCC2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000408370.1			T	56565715	C	T	56565715	3	4	658	1	0	0	0	0	1	0	0	0	14789	864	30	2	1840	2	SMARCC2	12	56565715	Missense_Mutation	SNP	C	TCGA-KN-8422-01A-11D-2310-10	7133466	56565715	77286180	46	40834										
MPHOSPH8	54737	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr13	20220943	20220943	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	atttaaagacgaaaacaagaGaagatcccaaagaaaataga	7	5	0	5			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr13:20220943G>C	ENST00000361479.5	+	3	798	c.730G>C	c.(730-732)Gaa>Caa	p.E244Q	MPHOSPH8_ENST00000414242.2_Missense_Mutation_p.E244Q	NM_017520.3	NP_059990.2	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	244	Lys-rich.				negative regulation of transcription, DNA-templated (GO:0045892)|regulation of DNA methylation (GO:0044030)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nuclear heterochromatin (GO:0005720)|nuclear nucleosome (GO:0000788)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	methylated histone binding (GO:0035064)			breast(2)|endometrium(1)|large_intestine(2)|lung(8)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	16		all_cancers(29;2.83e-16)|all_lung(29;1.16e-17)|all_epithelial(30;8.13e-16)|Lung NSC(5;6.91e-15)|Lung SC(185;0.0367)		all cancers(112;8.43e-05)|Epithelial(112;0.000426)|OV - Ovarian serous cystadenocarcinoma(117;0.00596)|Lung(94;0.015)|LUSC - Lung squamous cell carcinoma(192;0.0795)		gaaaacaagagaagatcccaa	0.313																																																0													24	28	27					13																	20220943		2135	4255	6390	SO:0001583	missense	54737			AK056785, AJ293409	CCDS9287.1	13q12.11	2013-01-10			ENSG00000196199	ENSG00000196199		"Ankyrin repeat domain containing"	29810	protein-coding gene	gene with protein product		611626				8885239	Standard	NM_017520		Approved	mpp8, HSMPP8	uc001umh.3	Q99549	OTTHUMG00000016498	ENST00000361479.5:c.730G>C	13.37:g.20220943G>C	ENSP00000355388:p.Glu244Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6F9|Q5JPE5|Q5JTQ0|Q86TK3|Q96MK4|Q9BTP1	Missense_Mutation	SNP	ENST00000361479.5	37	CCDS9287.1	.	.	.	.	.	.	.	.	.	.	G	21.7	4.186009	0.78789	.	.	ENSG00000196199	ENST00000414242;ENST00000361479;ENST00000538024	T;T	0.38887	1.11;1.11	6.02	6.02	0.97574	.	0.778438	0.12648	N	0.450698	T	0.62380	0.2423	L	0.56769	1.78	0.58432	D	0.999996	D;D;D	0.67145	0.987;0.996;0.993	P;P;P	0.61658	0.638;0.892;0.782	T	0.58103	-0.7695	10	0.56958	D	0.05	.	19.5254	0.95203	0.0:0.0:1.0:0.0	.	244;244;244	Q99549;Q99549-2;B3KS10	MPP8_HUMAN;.;.	Q	244	ENSP00000414663:E244Q;ENSP00000355388:E244Q	ENSP00000355388:E244Q	E	+	1	0	MPHOSPH8	19118943	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	5.921000	0.70028	2.857000	0.98124	0.650000	0.86243	GAA		0.313	MPHOSPH8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044028.2	NM_017520		C	20220943	G	C	20220943	3	2	658	1	0	0	0	0	1	0	0	0	9734	943	33	4	740	4	MPHOSPH8	13	20220943	Missense_Mutation	SNP	G	TCGA-KN-8422-01A-11D-2310-10		20220943	94948935	47	40835										
SRP14	6727	broad.mit.edu	37	chr15	40328594	40328595	+	In_Frame_Ins	INS	-	-	GGG													0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	gtgctgttgctgctgcggcaINSggtgctgctgctgctgctgc							TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr15:40328594_40328595insGGG	ENST00000267884.6	-	5	421_422	c.350_351insCCC	c.(349-351)cct>ccCCCt	p.117_117P>PP	SRP14_ENST00000558527.1_5'UTR|SRP14_ENST00000558720.1_In_Frame_Ins_p.37_37P>PP|SRP14_ENST00000560773.1_In_Frame_Ins_p.37_37P>PP|SRP14-AS1_ENST00000504245.1_lincRNA	NM_003134.4	NP_003125.3	P37108	SRP14_HUMAN	signal recognition particle 14kDa (homologous Alu RNA binding protein)	117	Ala/Thr-rich.				cellular protein metabolic process (GO:0044267)|cotranslational protein targeting to membrane (GO:0006613)|gene expression (GO:0010467)|protein targeting to ER (GO:0045047)|response to drug (GO:0042493)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|intercellular bridge (GO:0045171)|nucleolus (GO:0005730)|nucleus (GO:0005634)|signal recognition particle, endoplasmic reticulum targeting (GO:0005786)	7S RNA binding (GO:0008312)|endoplasmic reticulum signal peptide binding (GO:0030942)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			endometrium(1)|skin(1)|upper_aerodigestive_tract(1)	3		all_cancers(109;7.56e-18)|all_epithelial(112;4.02e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.84e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0505)		ctgctgcggcaggtgctgctgc	0.48																																																0																																										SO:0001652	inframe_insertion	6727				CCDS42017.1	15q22	2008-08-15	2002-08-29		ENSG00000140319	ENSG00000140319			11299	protein-coding gene	gene with protein product		600708	"signal recognition particle 14kD (homologous Alu RNA-binding protein)"			8196634	Standard	NM_003134		Approved	ALURBP, MGC14326	uc001zkq.2	P37108		ENST00000267884.6:c.350_351insCCC	15.37:g.40328594_40328595insGGG	ENSP00000267884:p.Pro117dup	Somatic		WXS	Illumina HiSeq	Phase_I	B5BUF5|Q6B0K5|Q96Q14	In_Frame_Ins	INS	ENST00000267884.6	37	CCDS42017.1																																																																																				0.48	SRP14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418262.2	NM_003134		GGG	40328595	-	GGG	40328594	7	5	658	1	0	1	1	0	0	0	0	0	15165	175	7	0	63	0	SRP14	15	40328594	In_Frame_Ins	INS	-	TCGA-KN-8422-01A-11D-2310-10		40328594	62202798	48	40836										
GOLGA6A	342096	mdanderson.org	37	chr15	74363307	74363307	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ctgctgtacagtggggttgtCatggggagaaccctccctgg	15	10	1	1	rs201661955		TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr15:74363307C>T	ENST00000290438.3	-	18	2066	c.2026G>A	c.(2026-2028)Gac>Aac	p.D676N	RN7SL429P_ENST00000479090.2_RNA	NM_001038640.2	NP_001033729.2	Q9NYA3	GOG6A_HUMAN	golgin A6 family, member A	676						Golgi apparatus (GO:0005794)				endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|liver(1)|lung(6)|prostate(1)|urinary_tract(1)	16						GTGGGGTTGTCATGGGGAGAA	0.587																																																0													29	30	29					15																	74363307		1471	3135	4606	SO:0001583	missense	342096			AF263742	CCDS32290.1	15q24.1	2013-05-10	2010-02-12	2009-09-28	ENSG00000159289	ENSG00000159289			13567	protein-coding gene	gene with protein product		610288	"golgi autoantigen, golgin subfamily a, member 6", "golgi autoantigen, golgin subfamily a, 6", "golgi autoantigen, golgin subfamily a, 6A"	GOLGA6		11161787	Standard	NM_001038640		Approved	GLP	uc002axa.1	Q9NYA3	OTTHUMG00000173035	ENST00000290438.3:c.2026G>A	15.37:g.74363307C>T	ENSP00000290438:p.Asp676Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K959|Q9NYA7	Missense_Mutation	SNP	ENST00000290438.3	37	CCDS32290.1	.	.	.	.	.	.	.	.	.	.	C	12.59	1.983824	0.35036	.	.	ENSG00000159289	ENST00000290438	T	0.23754	1.89	0.856	0.856	0.19019	.	.	.	.	.	T	0.42449	0.1203	M	0.66506	2.035	0.22081	N	0.999372	D	0.69078	0.997	D	0.73380	0.98	T	0.14254	-1.0479	9	0.38643	T	0.18	.	7.6108	0.28129	0.0:0.9999:0.0:1.0E-4	.	676	Q9NYA3	GOG6A_HUMAN	N	676	ENSP00000290438:D676N	ENSP00000290438:D676N	D	-	1	0	GOLGA6A	72150360	0.983000	0.35010	0.319000	0.25293	0.013000	0.08279	2.223000	0.42936	0.770000	0.33336	0.162000	0.16502	GAC		0.587	GOLGA6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000421835.1	XM_292357		T	74363307	C	T	74363307	3	4	658	1	0	0	0	0	1	0	0	0	6564	826	29	2	59	2	GOLGA6A	15	74363307	Missense_Mutation	SNP	C	TCGA-KN-8422-01A-11D-2310-10	34034713	74363307	28168085	49	40837										
RGMA	56963	broad.mit.edu	37	chr15	93588500	93588500	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	cttctccttgcacttggccaCggctgtctcgtatgggaagg	12	12	2	0			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr15:93588500C>T	ENST00000329082.7	-	4	1352	c.1081G>A	c.(1081-1083)Gtg>Atg	p.V361M	RGMA_ENST00000425933.2_Missense_Mutation_p.V345M|RGMA_ENST00000543599.1_Missense_Mutation_p.V345M|RGMA_ENST00000556658.1_Missense_Mutation_p.V252M|RGMA_ENST00000538818.1_Missense_Mutation_p.V252M|RGMA_ENST00000542321.2_Missense_Mutation_p.V345M|RGMA_ENST00000557301.1_Missense_Mutation_p.V369M|RGMA_ENST00000557420.1_3'UTR	NM_020211.2	NP_064596	Q96B86	RGMA_HUMAN	repulsive guidance molecule family member a	361					axon guidance (GO:0007411)|BMP signaling pathway (GO:0030509)|neural tube closure (GO:0001843)|regulation of BMP signaling pathway (GO:0030510)	anchored component of membrane (GO:0031225)|cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	coreceptor activity (GO:0015026)			breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(2)|prostate(1)	9	Lung NSC(78;0.0542)|all_lung(78;0.0786)		BRCA - Breast invasive adenocarcinoma(143;0.0312)|OV - Ovarian serous cystadenocarcinoma(32;0.108)			CACTTGGCCACGGCTGTCTCG	0.667																																																0																																										SO:0001583	missense	56963			AL390083	CCDS45357.1, CCDS53973.1, CCDS53974.1	15q26.1	2013-11-06	2013-11-06			ENSG00000182175			30308	protein-coding gene	gene with protein product		607362	"RGM domain family, member A"			15975920	Standard	NM_020211		Approved	RGM, RGMa	uc010urc.2	Q96B86		ENST00000329082.7:c.1081G>A	15.37:g.93588500C>T	ENSP00000330005:p.Val361Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTW1|B7Z5S8|F5GXQ7|F5GZU6|G3V518|Q0JV97|Q8NC80|Q9H0E6|Q9NPM3	Missense_Mutation	SNP	ENST00000329082.7	37	CCDS45357.1	.	.	.	.	.	.	.	.	.	.	C	10.54	1.378059	0.24944	.	.	ENSG00000182175	ENST00000543599;ENST00000425933;ENST00000329082;ENST00000542321;ENST00000538818;ENST00000557301	D;D;D;D;D;D	0.84442	-1.85;-1.85;-1.85;-1.85;-1.85;-1.85	4.87	2.7	0.31948	Repulsive guidance molecule, C-terminal (1);	0.698695	0.14162	N	0.337299	T	0.67850	0.2937	N	0.08118	0	0.09310	N	1	B;B	0.18741	0.03;0.021	B;B	0.20184	0.016;0.028	T	0.55970	-0.8056	10	0.32370	T	0.25	-14.2297	6.0953	0.20017	0.0:0.6333:0.0:0.3667	.	369;361	G3V518;Q96B86	.;RGMA_HUMAN	M	345;345;361;345;252;369	ENSP00000442498:V345M;ENSP00000404442:V345M;ENSP00000330005:V361M;ENSP00000440025:V345M;ENSP00000442546:V252M;ENSP00000452126:V369M	ENSP00000330005:V361M	V	-	1	0	RGMA	91389504	0.013000	0.17824	0.916000	0.36221	0.692000	0.40212	2.102000	0.41796	1.033000	0.39918	0.491000	0.48974	GTG		0.667	RGMA-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000415091.1	NM_020211		T	93588500	C	T	93588500	3	4	658	1	0	0	0	0	1	0	0	0	13293	536	19	1	275	1	RGMA	15	93588500	Missense_Mutation	SNP	C	TCGA-KN-8422-01A-11D-2310-10	19225193	93588500	8942892	50	40838										
SRRM2	23524	broad.mit.edu	37	chr16	2818052	2818053	+	Frame_Shift_Ins	INS	-	-	C													0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ccccactctgatgtgggggaINSgccacctgcctctactgggg							TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr16:2818052_2818053insC	ENST00000301740.8	+	11	8072_8073	c.7523_7524insC	c.(7522-7527)gagccafs	p.EP2508fs	SRRM2_ENST00000574593.1_3'UTR|AC092117.2_ENST00000581119.1_RNA	NM_016333.3	NP_057417.3	Q9UQ35	SRRM2_HUMAN	serine/arginine repetitive matrix 2	2508	Ser-rich.				mRNA splicing, via spliceosome (GO:0000398)	Cajal body (GO:0015030)|catalytic step 2 spliceosome (GO:0071013)|nuclear speck (GO:0016607)|nucleus (GO:0005634)	C2H2 zinc finger domain binding (GO:0070742)|poly(A) RNA binding (GO:0044822)|protein N-terminus binding (GO:0047485)			breast(3)|central_nervous_system(1)|cervix(3)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(20)|lung(34)|ovary(6)|pancreas(3)|prostate(2)|skin(6)|upper_aerodigestive_tract(3)|urinary_tract(7)	105						GATGTGGGGGAGCCACCTGCCT	0.639																																																0																																										SO:0001589	frameshift_variant	23524			AF201422	CCDS32373.1	16p13.3	2012-07-02			ENSG00000167978	ENSG00000167978			16639	protein-coding gene	gene with protein product		606032				10668804, 11004489	Standard	NM_016333		Approved	SRm300, SRL300, KIAA0324, Cwc21	uc002crk.3	Q9UQ35	OTTHUMG00000177358	Exception_encountered	16.37:g.2818052_2818053insC	ENSP00000301740:p.Glu2508fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB9|D3DU97|O15038|O94803|Q6NSL3|Q6PIM3|Q6PK40|Q8IW17|Q96GY7|Q9P0G1|Q9UHA8|Q9UQ36|Q9UQ37|Q9UQ38|Q9UQ40	Frame_Shift_Ins	INS	ENST00000301740.8	37	CCDS32373.1																																																																																				0.639	SRRM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000436411.1			C	2818053	-	C	2818052	7	5	658	1	0	1	1	0	0	0	0	0	15181	304	11	0	7561	0	SRRM2	16	2818052	Frame_Shift_Ins	INS	-	TCGA-KN-8422-01A-11D-2310-10		2818052	87536701	51	40839										
MEFV	4210	mdanderson.org	37	chr16	3304654	3304654	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ctgcaccgcaggctggcagcTccgcccccgtacggccgagg	14	18	0	0	rs224224	byFrequency	TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr16:3304654T>C	ENST00000219596.1	-	2	453	c.414A>G	c.(412-414)ggA>ggG	p.G138G	MEFV_ENST00000536379.1_Intron|MEFV_ENST00000339854.4_Intron|MEFV_ENST00000541159.1_Intron	NM_000243.2	NP_000234.1	O15553	MEFV_HUMAN	Mediterranean fever	138			G -> A (association with renal amyloidosis). {ECO:0000269|PubMed:11139244}.		inflammatory response (GO:0006954)|innate immune response (GO:0045087)|negative regulation of inflammatory response (GO:0050728)|negative regulation of interleukin-1 beta production (GO:0032691)|negative regulation of interleukin-12 production (GO:0032695)|negative regulation of macrophage inflammatory protein 1 alpha production (GO:0071641)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|positive regulation of cysteine-type endopeptidase activity (GO:2001056)	cell projection (GO:0042995)|cytosol (GO:0005829)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|nucleus (GO:0005634)	actin binding (GO:0003779)|zinc ion binding (GO:0008270)			NS(2)|biliary_tract(1)|breast(5)|central_nervous_system(2)|endometrium(2)|kidney(3)|large_intestine(6)|lung(19)|ovary(3)|prostate(1)|skin(6)	50						GGCTGGCAGCTCCGCCCCCGT	0.716													C|||	1936	0.386581	0.5257	0.5937	5008	,	,		11024	0.1587		0.4742	False		,,,				2504	0.1963															0								C	,	2119,2193		569,981,606	13	15	14		414,	-2.9	0	16	dbSNP_79	14	3830,4614		944,1942,1336	no	coding-synonymous,intron	MEFV	NM_000243.2,NM_001198536.1	,	1513,2923,1942	CC,CT,TT		45.3577,49.1419,46.6369	,	138/782,	3304654	5949,6807	2156	4222	6378	SO:0001819	synonymous_variant	4210			AF018080	CCDS10498.1, CCDS55981.1	16p13.3	2014-09-17			ENSG00000103313	ENSG00000103313		"Tripartite motif containing / Tripartite motif containing"	6998	protein-coding gene	gene with protein product	"pyrin"	608107		MEF		9288094	Standard	NM_000243		Approved	FMF, TRIM20	uc002cun.1	O15553	OTTHUMG00000129324	ENST00000219596.1:c.414A>G	16.37:g.3304654T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DUC0|F5H0Q3|Q3MJ84|Q96PN4|Q96PN5	Silent	SNP	ENST00000219596.1	37	CCDS10498.1																																																																																				0.716	MEFV-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251464.1	NM_000243		C	3304654	T	C	3304654	2	2	658	1	0	0	0	0	0	0	0	1	9466	1538	54	3		3	MEFV	16	3304654	Silent	SNP	T	TCGA-KN-8422-01A-11D-2310-10	486602	3304654	87050099	52	40840										
FAM86A	196483	mdanderson.org	37	chr16	5141852	5141852	+	Silent	SNP	C	C	T													0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	gccatcagggtctccgccagCgcttcatacagctcgtccaa					rs540885158	byFrequency	TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr16:5141852C>T	ENST00000427587.4	-	4	353	c.285G>A	c.(283-285)gcG>gcA	p.A95A	FAM86A_ENST00000458008.4_Intron|FAM86A_ENST00000587133.1_Intron	NM_201400.2	NP_958802.1	Q96G04	FA86A_HUMAN	family with sequence similarity 86, member A	95						cytoplasm (GO:0005737)				endometrium(1)|large_intestine(2)|lung(4)|prostate(3)|skin(2)	12						TCTCCGCCAGCGCTTCATACA	0.577													c|||	30	0.00599042	0.0219	0.0014	5008	,	,		19555	0.0		0.0	False		,,,				2504	0.0															0													45	43	44					16																	5141852		2197	4300	6497	SO:0001819	synonymous_variant	196483			BC010084	CCDS10529.1, CCDS10530.1, CCDS73823.1	16p13.3	2012-11-07			ENSG00000118894	ENSG00000118894			32221	protein-coding gene	gene with protein product		615263					Standard	NM_201400		Approved	SB153, MGC19636	uc002cyo.2	Q96G04	OTTHUMG00000129527	ENST00000427587.4:c.285G>A	16.37:g.5141852C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DUF0|Q96S85	Silent	SNP	ENST00000427587.4	37	CCDS10529.1																																																																																				0.577	FAM86A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251713.1	NM_201400		T	5141852	C	T	5141852	2	4	658	1	0	0	0	0	0	0	0	1	5650	755	27	1		1	FAM86A	16	5141852	Silent	SNP	C	TCGA-KN-8422-01A-11D-2310-10	1837198	5141852	85212901	53	40841	375	2								
FAM86A	196483	mdanderson.org	37	chr16	5141855	5141855	+	Silent	SNP	T	T	C													0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	atcagggtctccgccagcgcTtcatacagctcgtccaaagg					rs529631996	byFrequency	TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr16:5141855T>C	ENST00000427587.4	-	4	350	c.282A>G	c.(280-282)gaA>gaG	p.E94E	FAM86A_ENST00000458008.4_Intron|FAM86A_ENST00000587133.1_Intron	NM_201400.2	NP_958802.1	Q96G04	FA86A_HUMAN	family with sequence similarity 86, member A	94						cytoplasm (GO:0005737)				endometrium(1)|large_intestine(2)|lung(4)|prostate(3)|skin(2)	12						CCGCCAGCGCTTCATACAGCT	0.572													t|||	30	0.00599042	0.0219	0.0014	5008	,	,		18725	0.0		0.0	False		,,,				2504	0.0															0													46	44	45					16																	5141855		2197	4300	6497	SO:0001819	synonymous_variant	196483			BC010084	CCDS10529.1, CCDS10530.1, CCDS73823.1	16p13.3	2012-11-07			ENSG00000118894	ENSG00000118894			32221	protein-coding gene	gene with protein product		615263					Standard	NM_201400		Approved	SB153, MGC19636	uc002cyo.2	Q96G04	OTTHUMG00000129527	ENST00000427587.4:c.282A>G	16.37:g.5141855T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DUF0|Q96S85	Silent	SNP	ENST00000427587.4	37	CCDS10529.1																																																																																				0.572	FAM86A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251713.1	NM_201400		C	5141855	T	C	5141855	2	2	658	1	0	0	0	0	0	0	0	1	5650	1606	56	3		3	FAM86A	16	5141855	Silent	SNP	T	TCGA-KN-8422-01A-11D-2310-10	3	5141855	85212898	54	40842	375	2								
CLEC18B	497190	mdanderson.org	37	chr16	74444923	74444923	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	cttgatctgggccagcacccCgcctttcctctgtaacccca	7	18	2	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr16:74444923C>T	ENST00000339953.5	-	9	1115	c.994G>A	c.(994-996)Ggg>Agg	p.G332R		NM_001011880.2	NP_001011880.2	Q6UXF7	CL18B_HUMAN	C-type lectin domain family 18, member B	332	C-type lectin. {ECO:0000255|PROSITE- ProRule:PRU00040}.					extracellular region (GO:0005576)	carbohydrate binding (GO:0030246)	p.G332R(6)		endometrium(3)|kidney(9)|large_intestine(3)|lung(7)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	27						GCCAGCACCCCGCCTTTCCTC	0.612																																																6	Substitution - Missense(6)	kidney(6)											61	70	67					16																	74444923		2189	4246	6435	SO:0001583	missense	497190			AY358373	CCDS32484.1	16q22.3	2010-04-27	2009-03-10	2009-03-10		ENSG00000140839		"C-type lectin domain containing"	33849	protein-coding gene	gene with protein product							Standard	NM_001011880		Approved		uc002fct.3	Q6UXF7		ENST00000339953.5:c.994G>A	16.37:g.74444923C>T	ENSP00000341051:p.Gly332Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DF90	Missense_Mutation	SNP	ENST00000339953.5	37	CCDS32484.1	.	.	.	.	.	.	.	.	.	.	N	16.90	3.249709	0.59212	.	.	ENSG00000140839	ENST00000429489;ENST00000339953	T	0.25749	1.78	3.14	3.14	0.36123	C-type lectin fold (1);C-type lectin-like (1);C-type lectin (3);	0.131736	0.49916	D	0.000130	T	0.59770	0.2218	H	0.95884	3.735	0.45354	D	0.998344	D;D	0.89917	1.0;1.0	D;D	0.75484	0.986;0.986	T	0.69716	-0.5070	10	0.87932	D	0	.	9.6467	0.39872	0.0:1.0:0.0:0.0	.	332;332	C9JSV1;Q6UXF7	.;CL18B_HUMAN	R	332	ENSP00000341051:G332R	ENSP00000341051:G332R	G	-	1	0	CLEC18B	73002424	0.998000	0.40836	0.928000	0.36995	0.695000	0.40330	6.316000	0.72857	1.602000	0.50124	0.425000	0.28330	GGG		0.612	CLEC18B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000434697.1	NM_001011880		T	74444923	C	T	74444923	3	4	658	1	0	0	0	0	1	0	0	0	3505	652	23	1	393	1	CLEC18B	16	74444923	Missense_Mutation	SNP	C	TCGA-KN-8422-01A-11D-2310-10	69303068	74444923	15909830	55	40843										
WDR59	79726	mdanderson.org	37	chr16	74942828	74942828	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	cggagtaggctctgtgggagAcaccgcccgatgcattgtca	14	11	2	1	rs201965155	byFrequency	TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr16:74942828A>G	ENST00000262144.6	-	17	1820	c.1690T>C	c.(1690-1692)Tct>Cct	p.S564P		NM_030581.3	NP_085058.3	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	564										breast(3)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(13)|ovary(1)|prostate(1)	27						TCTGTGGGAGACACCGCCCGA	0.567																																																0								A	PRO/SER	1,4395	2.1+/-5.4	0,1,2197	84	72	76		1690	5.4	1	16		76	1,8599	1.2+/-3.3	0,1,4299	yes	missense	WDR59	NM_030581.3	74	0,2,6496	GG,GA,AA		0.0116,0.0227,0.0154	benign	564/975	74942828	2,12994	2198	4300	6498	SO:0001583	missense	79726			AB067510	CCDS32488.1	16q22.3	2013-01-09				ENSG00000103091		"WD repeat domain containing"	25706	protein-coding gene	gene with protein product						11572484	Standard	XM_005256146		Approved	FLJ12270	uc002fdh.1	Q6PJI9		ENST00000262144.6:c.1690T>C	16.37:g.74942828A>G	ENSP00000262144:p.Ser564Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRC3|Q71RE7|Q96PW5|Q9BSW6|Q9HA43	Missense_Mutation	SNP	ENST00000262144.6	37	CCDS32488.1	.	.	.	.	.	.	.	.	.	.	A	14.64	2.595306	0.46318	2.27E-4	1.16E-4	ENSG00000103091	ENST00000262144	T	0.69435	-0.4	5.45	5.45	0.79879	.	0.052446	0.85682	D	0.000000	T	0.50582	0.1624	N	0.14661	0.345	0.50632	D	0.99988	B	0.02656	0.0	B	0.04013	0.001	T	0.43829	-0.9367	10	0.29301	T	0.29	-21.7048	15.8122	0.78573	1.0:0.0:0.0:0.0	.	564	Q6PJI9	WDR59_HUMAN	P	564	ENSP00000262144:S564P	ENSP00000262144:S564P	S	-	1	0	WDR59	73500329	1.000000	0.71417	1.000000	0.80357	0.923000	0.55619	6.070000	0.71220	2.200000	0.70718	0.477000	0.44152	TCT		0.567	WDR59-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410601.3	NM_030581		G	74942828	A	G	74942828	3	3	658	1	0	0	0	0	1	0	0	0	17320	275	10	3	1274	3	WDR59	16	74942828	Missense_Mutation	SNP	A	TCGA-KN-8422-01A-11D-2310-10	497905	74942828	15411925	56	40844			2	100		3	3	38	N	T_A	3.213353e-09
WDR59	79726	mdanderson.org	37	chr16	74942844	74942844	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ggagacaccgcccgatgcatTgtcatgggccttgtgaaata	12	10	1	2	rs147993698	byFrequency	TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr16:74942844T>C	ENST00000262144.6	-	17	1804	c.1674A>G	c.(1672-1674)acA>acG	p.T558T		NM_030581.3	NP_085058.3	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	558										breast(3)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(13)|ovary(1)|prostate(1)	27						CCCGATGCATTGTCATGGGCC	0.567													C|||	77	0.0153754	0.0325	0.0086	5008	,	,		17777	0.0079		0.0099	False		,,,				2504	0.0102															0													91	80	84					16																	74942844		2198	4300	6498	SO:0001819	synonymous_variant	79726			AB067510	CCDS32488.1	16q22.3	2013-01-09				ENSG00000103091		"WD repeat domain containing"	25706	protein-coding gene	gene with protein product						11572484	Standard	XM_005256146		Approved	FLJ12270	uc002fdh.1	Q6PJI9		ENST00000262144.6:c.1674A>G	16.37:g.74942844T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KRC3|Q71RE7|Q96PW5|Q9BSW6|Q9HA43	Silent	SNP	ENST00000262144.6	37	CCDS32488.1																																																																																				0.567	WDR59-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410601.3	NM_030581		C	74942844	T	C	74942844	2	2	658	1	0	0	0	0	0	0	0	1	17320	1799	63	3		3	WDR59	16	74942844	Silent	SNP	T	TCGA-KN-8422-01A-11D-2310-10	16	74942844	15411909	57	40845			2	100		3	3	38	N	T_A	3.213353e-09
WDR59	79726	mdanderson.org	37	chr16	74942865	74942865	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	gtcatgggccttgtgaaataTaccaggtaacctaaaggagg	12	7	1	1	rs141093453	byFrequency	TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr16:74942865T>C	ENST00000262144.6	-	17	1783	c.1653A>G	c.(1651-1653)gtA>gtG	p.V551V		NM_030581.3	NP_085058.3	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	551										breast(3)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(13)|ovary(1)|prostate(1)	27						TTGTGAAATATACCAGGTAAC	0.547																																																0													90	79	83					16																	74942865		2198	4300	6498	SO:0001819	synonymous_variant	79726			AB067510	CCDS32488.1	16q22.3	2013-01-09				ENSG00000103091		"WD repeat domain containing"	25706	protein-coding gene	gene with protein product						11572484	Standard	XM_005256146		Approved	FLJ12270	uc002fdh.1	Q6PJI9		ENST00000262144.6:c.1653A>G	16.37:g.74942865T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KRC3|Q71RE7|Q96PW5|Q9BSW6|Q9HA43	Silent	SNP	ENST00000262144.6	37	CCDS32488.1																																																																																				0.547	WDR59-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410601.3	NM_030581		C	74942865	T	C	74942865	2	2	658	1	0	0	0	0	0	0	0	1	17320	1393	49	3		3	WDR59	16	74942865	Silent	SNP	T	TCGA-KN-8422-01A-11D-2310-10	21	74942865	15411888	58	40846			2	100		3	3	38	N	T_A	3.213353e-09
CDH13	1012	broad.mit.edu	37	chr16	83636109	83636110	+	Frame_Shift_Ins	INS	-	-	G													0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	tcgaggctcaagatatggctINSggactggatgttggattaac							TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr16:83636109_83636110insG	ENST00000566620.1	+	8	1301_1302	c.1011_1012insG	c.(1012-1014)ggafs	p.G338fs	CDH13_ENST00000428848.3_Frame_Shift_Ins_p.G299fs|CDH13_ENST00000268613.10_Frame_Shift_Ins_p.G385fs	NM_001220488.1|NM_001220489.1|NM_001220490.1|NM_001257.4	NP_001207417.1|NP_001207418.1|NP_001207419.1|NP_001248.1	P55290	CAD13_HUMAN	cadherin 13	338	Cadherin 2. {ECO:0000255|PROSITE- ProRule:PRU00043}.				adherens junction organization (GO:0034332)|calcium-dependent cell-cell adhesion (GO:0016339)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|endothelial cell migration (GO:0043542)|homophilic cell adhesion (GO:0007156)|keratinocyte proliferation (GO:0043616)|lamellipodium assembly (GO:0030032)|localization within membrane (GO:0051668)|low-density lipoprotein particle mediated signaling (GO:0055096)|mitotic cell cycle (GO:0000278)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell proliferation (GO:0008285)|positive regulation of calcium-mediated signaling (GO:0050850)|positive regulation of cell migration (GO:0030335)|positive regulation of cell-matrix adhesion (GO:0001954)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of positive chemotaxis (GO:0050927)|positive regulation of smooth muscle cell proliferation (GO:0048661)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|Rac protein signal transduction (GO:0016601)|regulation of cell growth (GO:0001558)|regulation of endocytosis (GO:0030100)|regulation of epidermal growth factor receptor signaling pathway (GO:0042058)|Rho protein signal transduction (GO:0007266)|sprouting angiogenesis (GO:0002040)	anchored component of membrane (GO:0031225)|caveola (GO:0005901)|cytoplasm (GO:0005737)|external side of plasma membrane (GO:0009897)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|neuron projection (GO:0043005)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	adiponectin binding (GO:0055100)|cadherin binding (GO:0045296)|calcium ion binding (GO:0005509)|lipoprotein particle binding (GO:0071813)|low-density lipoprotein particle binding (GO:0030169)			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		AAGATATGGCTGGACTGGATGT	0.421																																																0																																										SO:0001589	frameshift_variant	1012			U59288	CCDS56009.1, CCDS56010.1, CCDS58485.1, CCDS58486.1, CCDS58487.1	16q23.3	2013-08-27	2013-08-27			ENSG00000140945		"Cadherins / Major cadherins"	1753	protein-coding gene	gene with protein product	"T-cadherin", "H-cadherin (heart)"	601364				8673923, 9468307	Standard	NM_001257		Approved	CDHH	uc010vns.2	P55290		ENST00000566620.1:c.1013dupG	16.37:g.83636111_83636111dupG	ENSP00000454435:p.Gly338fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8W476|A8W477|B7Z590|C9JRI6|J3KN62|Q6GTW4|Q8TBX3	Frame_Shift_Ins	INS	ENST00000566620.1	37	CCDS58486.1																																																																																				0.421	CDH13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000432917.1	NM_001257		G	83636110	-	G	83636109	7	5	658	1	0	1	1	0	0	0	0	0	3101	1567	55	0	1041	0	CDH13	16	83636109	Frame_Shift_Ins	INS	-	TCGA-KN-8422-01A-11D-2310-10	8693244	83636109	6718644	59	40847										
SPAG5	10615	broad.mit.edu	37	chr17	26919762	26919762	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	cctcctctctcaccagatcgTctgttctcaaaggtccattt	5	15	4	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr17:26919762T>C	ENST00000321765.5	-	3	832	c.500A>G	c.(499-501)gAc>gGc	p.D167G		NM_006461.3	NP_006452.3	Q96R06	SPAG5_HUMAN	sperm associated antigen 5	167					chromosome segregation (GO:0007059)|mitotic sister chromatid segregation (GO:0000070)|regulation of attachment of spindle microtubules to kinetochore (GO:0051988)|spindle organization (GO:0007051)	cytoplasm (GO:0005737)|kinetochore (GO:0000776)|microtubule plus-end (GO:0035371)|mitotic spindle (GO:0072686)				NS(1)|breast(3)|central_nervous_system(1)|endometrium(5)|kidney(4)|large_intestine(8)|lung(17)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	43	Lung NSC(42;0.00431)					CACCAGATCGTCTGTTCTCAA	0.478																																																0													149	146	147					17																	26919762		2203	4300	6503	SO:0001583	missense	10615			AF063308	CCDS32594.1	17q11.2	2008-07-18			ENSG00000076382	ENSG00000076382			13452	protein-coding gene	gene with protein product	"mitotic spindle coiled-coil related protein", "astrin", "mitotic spindle associated protein p126"	615562				11549262	Standard	NM_006461		Approved	DEEPEST, MAP126, hMAP126	uc002hbq.3	Q96R06	OTTHUMG00000166586	ENST00000321765.5:c.500A>G	17.37:g.26919762T>C	ENSP00000323300:p.Asp167Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O95213|Q9BWE8|Q9NT17|Q9UFE6	Missense_Mutation	SNP	ENST00000321765.5	37	CCDS32594.1	.	.	.	.	.	.	.	.	.	.	T	2.541	-0.306243	0.05458	.	.	ENSG00000076382	ENST00000321765	T	0.18810	2.19	5.94	-1.78	0.07957	.	0.956671	0.08687	N	0.908487	T	0.03739	0.0106	N	0.00162	-1.95	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.43180	-0.9407	10	0.17369	T	0.5	0.0	6.4053	0.21660	0.0:0.4283:0.1351:0.4366	.	167	Q96R06	SPAG5_HUMAN	G	167	ENSP00000323300:D167G	ENSP00000323300:D167G	D	-	2	0	SPAG5	23943889	0.001000	0.12720	0.068000	0.19968	0.132000	0.20833	-1.047000	0.03521	-0.106000	0.12110	-0.132000	0.14878	GAC		0.478	SPAG5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390564.2	NM_006461		C	26919762	T	C	26919762	3	2	658	1	0	0	0	0	1	0	0	0	14994	1667	58	3	3169	3	SPAG5	17	26919762	Missense_Mutation	SNP	T	TCGA-KN-8422-01A-11D-2310-10		26919762	54275448	60	40848										
ADCYAP1	116	mdanderson.org	37	chr18	907710	907710	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	aaacccgctgccagacttcgAtggctcggagccgccgggcg	14	15	0	1	rs2856966	byFrequency	TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr18:907710A>G	ENST00000579794.1	+	2	439	c.161A>G	c.(160-162)gAt>gGt	p.D54G	RP11-672L10.2_ENST00000577358.1_RNA|RP11-672L10.3_ENST00000582554.1_RNA|RP11-672L10.2_ENST00000580612.1_RNA|ADCYAP1_ENST00000450565.3_Missense_Mutation_p.D54G|RP11-672L10.2_ENST00000581719.2_RNA	NM_001117.3	NP_001108.2	P18509	PACA_HUMAN	adenylate cyclase activating polypeptide 1 (pituitary)	54			D -> G (in dbSNP:rs2856966). {ECO:0000269|PubMed:11968092, ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:1730060, ECO:0000269|PubMed:1739432}.		activation of adenylate cyclase activity (GO:0007190)|ATP metabolic process (GO:0046034)|behavioral fear response (GO:0001662)|cAMP-mediated signaling (GO:0019933)|cell-cell signaling (GO:0007267)|cellular response to glucocorticoid stimulus (GO:0071385)|female pregnancy (GO:0007565)|histamine secretion (GO:0001821)|negative regulation of acute inflammatory response to antigenic stimulus (GO:0002865)|negative regulation of acute inflammatory response to non-antigenic stimulus (GO:0002878)|negative regulation of cell cycle (GO:0045786)|negative regulation of glial cell proliferation (GO:0060253)|negative regulation of muscle cell apoptotic process (GO:0010656)|negative regulation of potassium ion transport (GO:0043267)|negative regulation of Rho GTPase activity (GO:0034259)|neuron projection development (GO:0031175)|neuropeptide signaling pathway (GO:0007218)|neurotrophin TRK receptor signaling pathway (GO:0048011)|ovarian follicle development (GO:0001541)|pituitary gland development (GO:0021983)|positive regulation of adenylate cyclase activity involved in G-protein coupled receptor signaling pathway (GO:0010579)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of growth hormone secretion (GO:0060124)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of neuron projection development (GO:0010976)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of Rap GTPase activity (GO:0032854)|positive regulation of somatostatin secretion (GO:0090274)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of vasodilation (GO:0045909)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|regulation of oligodendrocyte progenitor proliferation (GO:0070445)|regulation of postsynaptic membrane potential (GO:0060078)|regulation of protein localization (GO:0032880)|response to ethanol (GO:0045471)|response to starvation (GO:0042594)|sensory perception of pain (GO:0019233)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|terminal bouton (GO:0043195)	neuropeptide hormone activity (GO:0005184)|peptide hormone receptor binding (GO:0051428)|pituitary adenylate cyclase activating polypeptide activity (GO:0016521)|receptor binding (GO:0005102)|receptor signaling protein activity (GO:0005057)			endometrium(1)|large_intestine(3)|lung(7)|upper_aerodigestive_tract(1)	12						CCAGACTTCGATGGCTCGGAg	0.736													A|||	721	0.14397	0.0953	0.1527	5008	,	,		7649	0.0565		0.2495	False		,,,				2504	0.1851															0								A	GLY/ASP,GLY/ASP	372,3918		17,338,1790	6	8	7		161,161	4	0.2	18	dbSNP_100	7	1799,6595		196,1407,2594	yes	missense,missense	ADCYAP1	NM_001099733.1,NM_001117.3	94,94	213,1745,4384	GG,GA,AA		21.432,8.6713,17.1161	benign,benign	54/177,54/177	907710	2171,10513	2145	4197	6342	SO:0001583	missense	116			S83513	CCDS11825.1	18p11	2013-02-28			ENSG00000141433	ENSG00000141433		"Endogenous ligands"	241	protein-coding gene	gene with protein product	"prepro-PACAP"	102980				1730060	Standard	NM_001099733		Approved	PACAP	uc010dkh.4	P18509	OTTHUMG00000131479	ENST00000579794.1:c.161A>G	18.37:g.907710A>G	ENSP00000462647:p.Asp54Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7N4|Q52LQ0	Missense_Mutation	SNP	ENST00000579794.1	37	CCDS11825.1	321	0.14697802197802198	55	0.11178861788617886	62	0.1712707182320442	34	0.05944055944055944	170	0.22427440633245382	A	1.915	-0.449794	0.04572	0.086713	0.21432	ENSG00000141433	ENST00000450565;ENST00000400219;ENST00000269200	.	.	.	3.95	3.95	0.45737	.	0.459988	0.24710	N	0.036227	T	0.00012	0.0000	N	0.08118	0	0.52501	P	4.099999999995774E-5	B	0.09022	0.002	B	0.01281	0.0	T	0.13980	-1.0489	8	0.21014	T	0.42	.	7.8153	0.29256	0.9042:0.0:0.0958:0.0	rs2856966;rs58369534;rs2856966	54	P18509	PACA_HUMAN	G	193;54;54	.	ENSP00000269200:D54G	D	+	2	0	ADCYAP1	897710	0.778000	0.28640	0.216000	0.23742	0.004000	0.04260	1.322000	0.33689	2.019000	0.59389	0.379000	0.24179	GAT		0.736	ADCYAP1-003	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440765.3	NM_001117		G	907710	A	G	907710	3	3	658	1	0	0	0	0	1	0	0	0	302	333	12	3	167	3	ADCYAP1	18	907710	Missense_Mutation	SNP	A	TCGA-KN-8422-01A-11D-2310-10		907710	77169538	61	40849										
MAST1	1777	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr19	12985463	12985463	+	IGR	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	tgagcggtcctcgctccaagCccgcctccccaaagctctcc	8	20	1	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr19:12985463C>A	ENST00000222219.3	-	0	1955				AC020934.1_ENST00000578125.1_RNA|MAST1_ENST00000251472.4_Missense_Mutation_p.P1498T	NM_001375.2	NP_001366.1	O00115	DNS2A_HUMAN	deoxyribonuclease II, lysosomal						apoptotic DNA fragmentation (GO:0006309)|DNA metabolic process (GO:0006259)|erythrocyte differentiation (GO:0030218)	extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|lysosome (GO:0005764)	deoxyribonuclease II activity (GO:0004531)|DNA binding (GO:0003677)			breast(1)|large_intestine(1)|lung(4)|ovary(1)	7						TCGCTCCAAGCCCGCCTCCCC	0.721																																																0													21	19	20					19																	12985463		2195	4294	6489	SO:0001628	intergenic_variant	22983			AF045937	CCDS12284.1	19p13.2	2012-10-02			ENSG00000105612	ENSG00000105612	3.1.22.1		2960	protein-coding gene	gene with protein product		126350		DNL, DNL2		1586130	Standard	NM_001375		Approved		uc002mvn.1	O00115			19.37:g.12985463C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RD06|B7Z4K6|O43910	Missense_Mutation	SNP	ENST00000222219.3	37	CCDS12284.1	.	.	.	.	.	.	.	.	.	.	C	12.76	2.033777	0.35893	.	.	ENSG00000105613	ENST00000251472	T	0.66995	-0.24	5.49	5.49	0.81192	.	0.520555	0.17475	N	0.172942	T	0.67107	0.2858	N	0.14661	0.345	0.44927	D	0.997947	D	0.89917	1.0	D	0.79108	0.992	T	0.61128	-0.7125	10	0.16896	T	0.51	-17.0268	14.8889	0.70590	0.0:1.0:0.0:0.0	.	1498	Q9Y2H9	MAST1_HUMAN	T	1498	ENSP00000251472:P1498T	ENSP00000251472:P1498T	P	+	1	0	MAST1	12846463	0.998000	0.40836	0.994000	0.49952	0.383000	0.30230	2.684000	0.46951	2.589000	0.87451	0.650000	0.86243	CCC		0.721	DNASE2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451790.1			A	12985463	C	A	12985463	1	1	658	0	1	0	0	0	0	0	0	0	9331	739	26	4		4	MAST1	19	12985463	IGR	SNP	C	TCGA-KN-8422-01A-11D-2310-10		12985463	46143520	62	40850										
MYO9B	4650	broad.mit.edu	37	chr19	17321179	17321179	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ggggttttcgtctccctatgAgggggtcctggtatgtacgc	15	9	1	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr19:17321179A>G	ENST00000594824.1	+	37	5933	c.5786A>G	c.(5785-5787)gAg>gGg	p.E1929G	CTD-3032J10.3_ENST00000601929.1_RNA|MYO9B_ENST00000397274.2_Missense_Mutation_p.E1929G|MYO9B_ENST00000595618.1_Missense_Mutation_p.E1929G			Q13459	MYO9B_HUMAN	myosin IXB	1929	Tail.				actin filament-based movement (GO:0030048)|establishment of cell polarity (GO:0030010)|lamellipodium morphogenesis (GO:0072673)|macrophage chemotaxis (GO:0048246)|monocyte chemotaxis (GO:0002548)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	actin cytoskeleton (GO:0015629)|cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|filamentous actin (GO:0031941)|filopodium tip (GO:0032433)|lamellipodium (GO:0030027)|membrane (GO:0016020)|myosin complex (GO:0016459)|perinuclear region of cytoplasm (GO:0048471)|ruffle (GO:0001726)	actin binding (GO:0003779)|actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|calmodulin binding (GO:0005516)|microfilament motor activity (GO:0000146)|Rho GTPase activator activity (GO:0005100)|zinc ion binding (GO:0008270)			breast(3)|endometrium(9)|kidney(2)|large_intestine(1)|lung(19)|soft_tissue(1)|urinary_tract(4)	39						TCTCCCTATGAGGGGGTCCTG	0.632																																																0													79	78	78					19																	17321179		2027	4190	6217	SO:0001583	missense	4650				CCDS46010.1	19p13.1	2011-09-27				ENSG00000099331		"Myosins / Myosin superfamily : Class IX"	7609	protein-coding gene	gene with protein product		602129		CELIAC4		9226381	Standard	NM_004145		Approved		uc010eak.3	Q13459		ENST00000594824.1:c.5786A>G	19.37:g.17321179A>G	ENSP00000471367:p.Glu1929Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O75314|Q9NUJ2|Q9UHN0	Missense_Mutation	SNP	ENST00000594824.1	37		.	.	.	.	.	.	.	.	.	.	A	23.8	4.457778	0.84317	.	.	ENSG00000099331	ENST00000397274;ENST00000319396	D	0.85339	-1.97	4.86	4.86	0.63082	.	0.000000	0.49305	D	0.000144	D	0.89884	0.6844	L	0.56769	1.78	0.44668	D	0.997659	D;D	0.76494	0.999;0.999	D;D	0.75484	0.986;0.986	D	0.89121	0.3503	10	0.38643	T	0.18	.	13.6066	0.62050	1.0:0.0:0.0:0.0	.	1929;1935	Q13459;Q4LE74	MYO9B_HUMAN;.	G	1929;274	ENSP00000380444:E1929G	ENSP00000314032:E274G	E	+	2	0	MYO9B	17182179	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.366000	0.79548	1.818000	0.53035	0.459000	0.35465	GAG		0.632	MYO9B-002	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000463236.1			G	17321179	A	G	17321179	3	3	658	1	0	0	0	0	1	0	0	0	10092	304	11	3	5928	3	MYO9B	19	17321179	Missense_Mutation	SNP	A	TCGA-KN-8422-01A-11D-2310-10	4335716	17321179	41807804	63	40851										
PSG9	5678	mdanderson.org	37	chr19	43763023	43763023	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	actcacagaggacatttaggAtgactgggttactgcggagg	14	7	1	2	rs1135905	byFrequency	TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr19:43763023A>G	ENST00000270077.3	-	4	1070	c.974T>C	c.(973-975)aTc>aCc	p.I325T	PSG9_ENST00000291752.5_Intron|PSG9_ENST00000593948.1_Intron|PSG9_ENST00000244293.7_Intron|PSG9_ENST00000418820.2_Missense_Mutation_p.I232T|PSG9_ENST00000443718.3_Missense_Mutation_p.I232T|PSG9_ENST00000596730.1_Intron	NM_002784.3	NP_002775.3	Q00887	PSG9_HUMAN	pregnancy specific beta-1-glycoprotein 9	325	Ig-like C2-type 2.		I -> T (in dbSNP:rs1135905).		female pregnancy (GO:0007565)	extracellular region (GO:0005576)				central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(15)|ovary(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	41		Prostate(69;0.00682)				GACATTTAGGATGACTGGGTT	0.502													A|||	285	0.0569089	0.0567	0.0403	5008	,	,		15899	0.0685		0.0487	False		,,,				2504	0.0654															0								A	THR/ILE	171,4097		36,99,1999	98	101	100		974	0.2	0	19	dbSNP_86	100	278,8278		25,228,4025	no	missense	PSG9	NM_002784.3	89	61,327,6024	GG,GA,AA		3.2492,4.0066,3.5012	benign	325/427	43763023	449,12375	2134	4278	6412	SO:0001583	missense	5678			M34481	CCDS12618.1	19q13.2	2013-01-29			ENSG00000183668	ENSG00000183668		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9526	protein-coding gene	gene with protein product		176398		PSG11		7806221	Standard	XM_005259076		Approved	PSGII	uc002owd.4	Q00887	OTTHUMG00000182826	ENST00000270077.3:c.974T>C	19.37:g.43763023A>G	ENSP00000270077:p.Ile325Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R869|Q15227|Q15236|Q15237|Q8WW78|Q9UQ73	Missense_Mutation	SNP	ENST00000270077.3	37	CCDS12618.1	106	0.048534798534798536	19	0.03861788617886179	19	0.052486187845303865	37	0.06468531468531469	31	0.040897097625329816	N	0	-2.853274	0.00066	0.040066	0.032492	ENSG00000183668	ENST00000270077;ENST00000443718;ENST00000435220	T;T	0.11063	2.81;2.81	1.39	0.2	0.15181	Immunoglobulin subtype (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.00210	0.0006	N	0.00101	-2.135	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.0;0.001	T	0.41610	-0.9499	9	0.02654	T	1	.	4.0401	0.09748	0.2545:0.0:0.7455:0.0	rs1135905;rs3179039;rs3198901;rs17420337	232;325	E7EW65;Q00887	.;PSG9_HUMAN	T	325;232;286	ENSP00000270077:I325T;ENSP00000396753:I232T	ENSP00000270077:I325T	I	-	2	0	PSG9	48454863	0.008000	0.16893	0.013000	0.15412	0.002000	0.02628	0.050000	0.14120	-0.070000	0.12908	-1.355000	0.01225	ATC		0.502	PSG9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323065.1	NM_002784		G	43763023	A	G	43763023	3	3	658	1	0	0	0	0	1	0	0	0	12672	333	12	3	318	3	PSG9	19	43763023	Missense_Mutation	SNP	A	TCGA-KN-8422-01A-11D-2310-10	26441844	43763023	15365960	64	40852										
TPRX1	284355	mdanderson.org	37	chr19	48305555	48305555	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ctgagattgggcctgggatcGggcctgggttcgggcctgag	19	9	0	2	rs147380237		TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr19:48305555G>A	ENST00000322175.3	-	2	868	c.713C>T	c.(712-714)cCg>cTg	p.P238L	TPRX1_ENST00000543508.1_Missense_Mutation_p.P228L|TPRX1_ENST00000535759.1_Missense_Mutation_p.P335L	NM_198479.2	NP_940881.2	Q8N7U7	TPRX1_HUMAN	tetra-peptide repeat homeobox 1	238	Gly-rich.					nucleus (GO:0005634)	DNA binding (GO:0003677)			endometrium(5)|kidney(1)|large_intestine(4)|lung(4)|ovary(1)|prostate(2)|skin(1)	18		all_cancers(25;3.02e-09)|all_epithelial(76;7e-07)|all_lung(116;2.48e-06)|Lung NSC(112;5.15e-06)|Ovarian(192;0.0139)|all_neural(266;0.0146)|Breast(70;0.133)		OV - Ovarian serous cystadenocarcinoma(262;0.000241)|all cancers(93;0.00036)|Epithelial(262;0.0127)|GBM - Glioblastoma multiforme(486;0.048)		gcctgggatcgggcctgggtt	0.662																																					Esophageal Squamous(123;175 2281 3051 32395)											0													10	8	9					19																	48305555		2095	4129	6224	SO:0001583	missense	284355				CCDS33066.1	19q13.33	2011-07-08			ENSG00000178928	ENSG00000178928		"Homeoboxes / PRD class"	32174	protein-coding gene	gene with protein product		611166					Standard	XM_005258788		Approved	FLJ40321	uc002php.2	Q8N7U7		ENST00000322175.3:c.713C>T	19.37:g.48305555G>A	ENSP00000323455:p.Pro238Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A5D8Y3|B2RPL5	Missense_Mutation	SNP	ENST00000322175.3	37	CCDS33066.1	24	0.01098901098901099	0	0.0	3	0.008287292817679558	0	0.0	21	0.027704485488126648	g	8.014	0.758252	0.15846	.	.	ENSG00000178928	ENST00000322175;ENST00000535759;ENST00000543508	D;D	0.93659	-2.01;-3.26	0.495	0.495	0.16890	.	.	.	.	.	T	0.79936	0.4532	N	0.14661	0.345	0.09310	N	1	D	0.76494	0.999	P	0.60286	0.872	T	0.76977	-0.2759	8	0.45353	T	0.12	.	.	.	.	.	238	Q8N7U7	TPRX1_HUMAN	L	238;335;228	ENSP00000323455:P238L;ENSP00000438832:P335L	ENSP00000323455:P238L	P	-	2	0	TPRX1	52997367	0.000000	0.05858	0.020000	0.16555	0.015000	0.08874	-2.180000	0.01258	0.561000	0.29186	0.420000	0.28162	CCG		0.662	TPRX1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000409868.1	NM_198479		A	48305555	G	A	48305555	3	1	658	1	0	0	0	0	1	0	0	0	16434	1116	39	1	526	1	TPRX1	19	48305555	Missense_Mutation	SNP	G	TCGA-KN-8422-01A-11D-2310-10	4542532	48305555	10823428	65	40853										
SIGLEC14	100049587	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr19	52149193	52149193	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	gggggctgagggcattccccGtccaggagaatgtgagaggt	18	8	0	3			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr19:52149193G>A	ENST00000360844.6	-	3	583	c.542C>T	c.(541-543)aCg>aTg	p.T181M	SIGLEC5_ENST00000534261.2_5'Flank|SIGLEC5_ENST00000429354.3_Intron|SIGLEC5_ENST00000222107.4_Intron|SIGLEC5_ENST00000599649.1_Intron	NM_001098612.1	NP_001092082.1	Q08ET2	SIG14_HUMAN	sialic acid binding Ig-like lectin 14	181	Ig-like C2-type 1.				cell adhesion (GO:0007155)|innate immune response (GO:0045087)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)	p.T181M(2)		breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(3)|lung(15)|ovary(1)|upper_aerodigestive_tract(1)	29		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000965)|OV - Ovarian serous cystadenocarcinoma(262;0.0195)		GGCATTCCCCGTCCAGGAGAA	0.657																																																2	Substitution - Missense(2)	ovary(2)																																								SO:0001583	missense	100049587			AY854038	CCDS42604.1	19q13.41	2013-01-29			ENSG00000254415	ENSG00000254415		"Sialic acid binding Ig-like lectins", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	32926	protein-coding gene	gene with protein product						17012248	Standard	NM_001098612		Approved		uc002pxf.4	Q08ET2	OTTHUMG00000165511	ENST00000360844.6:c.542C>T	19.37:g.52149193G>A	ENSP00000354090:p.Thr181Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXG0	Missense_Mutation	SNP	ENST00000360844.6	37	CCDS42604.1	.	.	.	.	.	.	.	.	.	.	G	4.638	0.118691	0.08881	.	.	ENSG00000254415	ENST00000360844	D	0.86432	-2.12	3.09	-6.18	0.02085	Immunoglobulin-like (1);Immunoglobulin (1);Immunoglobulin-like fold (1);	2.183180	0.02203	N	0.062409	T	0.73401	0.3582	N	0.16266	0.395	0.09310	N	1	D	0.55172	0.97	P	0.45232	0.474	T	0.68712	-0.5336	10	0.07990	T	0.79	.	4.391	0.11341	0.5534:0.0:0.1647:0.2819	.	181	Q08ET2	SIG14_HUMAN	M	181	ENSP00000354090:T181M	ENSP00000354090:T181M	T	-	2	0	SIGLEC14	56841005	0.000000	0.05858	0.000000	0.03702	0.045000	0.14185	-5.926000	0.00090	-1.582000	0.01640	0.508000	0.49915	ACG		0.657	SIGLEC14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466899.2	NM_001098612		A	52149193	G	A	52149193	3	1	658	1	0	0	0	0	1	0	0	0	14322	1145	40	1	668	1	SIGLEC14	19	52149193	Missense_Mutation	SNP	G	TCGA-KN-8422-01A-11D-2310-10	3843638	52149193	6979790	66	40854										
ZNF528	84436	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	52909852	52909852	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	gcagagtgaagagaaaatagCaaacgatccagacggcaggg	14	7	0	4			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr19:52909852C>T	ENST00000360465.3	+	6	653	c.227C>T	c.(226-228)gCa>gTa	p.A76V	ZNF528_ENST00000594530.1_Missense_Mutation_p.A76V|ZNF528_ENST00000598192.1_Missense_Mutation_p.A76V|ZNF528_ENST00000391788.2_Missense_Mutation_p.A66V	NM_032423.2	NP_115799.2	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	76	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(13)|lung(6)|ovary(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	39				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)		GAGAAAATAGCAAACGATCCA	0.463																																																0													103	99	100					19																	52909852		2203	4300	6503	SO:0001583	missense	84436			AB058730	CCDS33091.1	19q13	2013-01-08			ENSG00000167555	ENSG00000167555		"Zinc fingers, C2H2-type", "-"	29384	protein-coding gene	gene with protein product		615580				11347906	Standard	NM_032423		Approved	KIAA1827	uc002pzh.3	Q3MIS6	OTTHUMG00000156494	ENST00000360465.3:c.227C>T	19.37:g.52909852C>T	ENSP00000353652:p.Ala76Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPN4|Q86T88|Q96JK0	Missense_Mutation	SNP	ENST00000360465.3	37	CCDS33091.1	.	.	.	.	.	.	.	.	.	.	C	8.296	0.818786	0.16607	.	.	ENSG00000167555	ENST00000391788;ENST00000391787;ENST00000360465	T;T;T	0.05199	5.56;5.63;3.48	1.47	-1.01	0.10169	Krueppel-associated box (1);	.	.	.	.	T	0.04998	0.0134	L	0.47078	1.49	0.09310	N	1	B	0.18610	0.029	B	0.12837	0.008	T	0.44832	-0.9302	9	0.22109	T	0.4	.	2.7793	0.05356	0.0:0.487:0.3032:0.2098	.	76	Q3MIS6	ZN528_HUMAN	V	66;76;76	ENSP00000375665:A66V;ENSP00000375664:A76V;ENSP00000353652:A76V	ENSP00000353652:A76V	A	+	2	0	ZNF528	57601664	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-1.449000	0.02392	-0.197000	0.10350	-0.373000	0.07131	GCA		0.463	ZNF528-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344336.1	NM_032423		T	52909852	C	T	52909852	3	4	658	1	0	0	0	0	1	0	0	0	17981	710	25	2	237	2	ZNF528	19	52909852	Missense_Mutation	SNP	C	TCGA-KN-8422-01A-11D-2310-10	760659	52909852	6219131	67	40855										
NLRP7	199713	hgsc.bcm.edu;mdanderson.org	37	chr19	55450827	55450827	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ggagactctgtcctggcggaGgatgtctccgtccaggaaca	14	11	2	1			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr19:55450827G>A	ENST00000590030.1	-	3	1400	c.1360C>T	c.(1360-1362)Ctc>Ttc	p.L454F	NLRP7_ENST00000448121.2_Missense_Mutation_p.L454F|NLRP7_ENST00000588756.1_Missense_Mutation_p.L454F|NLRP7_ENST00000328092.5_Missense_Mutation_p.L454F|NLRP7_ENST00000340844.2_Missense_Mutation_p.L454F|NLRP7_ENST00000446217.1_Missense_Mutation_p.L482F|NLRP7_ENST00000592784.1_Missense_Mutation_p.L454F			Q8WX94	NALP7_HUMAN	NLR family, pyrin domain containing 7	454	NACHT. {ECO:0000255|PROSITE- ProRule:PRU00136}.						ATP binding (GO:0005524)			autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(17)|liver(1)|lung(33)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(3)	73				GBM - Glioblastoma multiforme(193;0.0325)		TCCTGGCGGAGGATGTCTCCG	0.617																																																0													35	33	34					19																	55450827		2203	4296	6499	SO:0001583	missense	199713			AF464765	CCDS12912.1, CCDS33109.1, CCDS46183.1	19q13.42	2008-02-05	2006-12-08	2006-12-08		ENSG00000167634		"Nucleotide-binding domain and leucine rich repeat containing"	22947	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 7"	609661	"NACHT, leucine rich repeat and PYD containing 7"	NALP7		12563287, 12019269	Standard	NM_139176		Approved	PYPAF3, NOD12, PAN7, CLR19.4	uc002qii.4	Q8WX94		ENST00000590030.1:c.1360C>T	19.37:g.55450827G>A	ENSP00000465520:p.Leu454Phe	Somatic		WXS	Illumina HiSeq	Phase_I	E9PE16|Q32MH8|Q7RTR1	Missense_Mutation	SNP	ENST00000590030.1	37	CCDS33109.1	.	.	.	.	.	.	.	.	.	.	G	13.16	2.153871	0.38021	.	.	ENSG00000167634	ENST00000328092;ENST00000448121;ENST00000340844;ENST00000446217;ENST00000399724	T;T;T;T	0.72615	-0.64;-0.64;-0.67;-0.62	1.92	0.761	0.18448	.	0.000000	0.30134	N	0.010329	T	0.68100	0.2964	L	0.52905	1.665	0.09310	N	1	P;P;P;P	0.52842	0.927;0.927;0.927;0.956	P;P;P;P	0.53593	0.685;0.542;0.542;0.73	T	0.57260	-0.7842	10	0.33940	T	0.23	.	5.2422	0.15477	0.0:0.0:0.6591:0.3409	.	482;454;454;454	E7EPM2;Q32MH9;Q8WX94;Q8WX94-2	.;.;NALP7_HUMAN;.	F	454;454;454;482;221	ENSP00000329568:L454F;ENSP00000409137:L454F;ENSP00000339491:L454F;ENSP00000414273:L482F	ENSP00000329568:L454F	L	-	1	0	NLRP7	60142639	0.042000	0.20092	0.010000	0.14722	0.052000	0.14988	1.187000	0.32090	0.313000	0.23062	0.462000	0.41574	CTC		0.617	NLRP7-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000451396.1	NM_139176		A	55450827	G	A	55450827	3	1	658	1	0	0	0	0	1	0	0	0	10489	1000	35	2	1785	2	NLRP7	19	55450827	Missense_Mutation	SNP	G	TCGA-KN-8422-01A-11D-2310-10	2540975	55450827	3678156	68	40856										
GART	2618	mdanderson.org	37	chr21	34903861	34903861	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ccagctgccccaaaggctttCtcctgattgtaagatttttt	7	11	1	2	rs142038738		TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr21:34903861C>A	ENST00000381831.3	-	6	794	c.531G>T	c.(529-531)gaG>gaT	p.E177D	GART_ENST00000381839.3_Missense_Mutation_p.E177D|GART_ENST00000361093.5_Missense_Mutation_p.E177D|GART_ENST00000381815.4_Missense_Mutation_p.E177D|GART_ENST00000497313.1_5'UTR	NM_001136005.1	NP_001129477.1	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazole synthetase	177	ATP-grasp.				'de novo' IMP biosynthetic process (GO:0006189)|brainstem development (GO:0003360)|cerebellum development (GO:0021549)|cerebral cortex development (GO:0021987)|glycine metabolic process (GO:0006544)|nucleobase-containing small molecule metabolic process (GO:0055086)|purine nucleobase biosynthetic process (GO:0009113)|purine nucleobase metabolic process (GO:0006144)|purine ribonucleoside monophosphate biosynthetic process (GO:0009168)|response to inorganic substance (GO:0010035)|response to organic substance (GO:0010033)|small molecule metabolic process (GO:0044281)|tetrahydrofolate biosynthetic process (GO:0046654)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|methyltransferase activity (GO:0008168)|phosphoribosylamine-glycine ligase activity (GO:0004637)|phosphoribosylformylglycinamidine cyclo-ligase activity (GO:0004641)|phosphoribosylglycinamide formyltransferase activity (GO:0004644)			NS(2)|breast(1)|endometrium(3)|large_intestine(3)|lung(13)|ovary(3)|prostate(5)|urinary_tract(1)	31					Pemetrexed(DB00642)	CAAAGGCTTTCTCCTGATTGT	0.328													C|||	1	0.000199681	0.0	0.0014	5008	,	,		13906	0.0		0.0	False		,,,				2504	0.0															0								C	ASP/GLU,ASP/GLU,ASP/GLU,ASP/GLU	2,4404	4.2+/-10.8	0,2,2201	100	101	101		531,531,531,531	-3.2	0.9	21	dbSNP_134	101	16,8584	11.9+/-42.8	0,16,4284	yes	missense,missense,missense,missense	GART	NM_000819.4,NM_001136005.1,NM_001136006.1,NM_175085.2	45,45,45,45	0,18,6485	AA,AC,CC		0.186,0.0454,0.1384	benign,benign,benign,benign	177/1011,177/1011,177/1011,177/434	34903861	18,12988	2203	4300	6503	SO:0001583	missense	2618			M32082	CCDS13627.1, CCDS13628.1	21q22.11	2012-10-02			ENSG00000159131	ENSG00000159131	2.1.2.2, 6.3.3.1, 6.3.4.13		4163	protein-coding gene	gene with protein product		138440		PRGS, PGFT		2050105	Standard	NM_001136005		Approved		uc002yrx.3	P22102	OTTHUMG00000065628	ENST00000381831.3:c.531G>T	21.37:g.34903861C>A	ENSP00000371253:p.Glu177Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K945|A8KA32|D3DSF3|D3DSF4|O14659|Q52M77	Missense_Mutation	SNP	ENST00000381831.3	37	CCDS13627.1	.	.	.	.	.	.	.	.	.	.	C	5.450	0.268162	0.10349	4.54E-4	0.00186	ENSG00000159131	ENST00000381815;ENST00000381831;ENST00000381839;ENST00000361093;ENST00000430874;ENST00000426819	T;T;T;T;T;T	0.44482	1.53;1.53;1.53;1.54;0.94;0.92	6.07	-3.18	0.05186	ATP-grasp fold (1);ATP-grasp fold, subdomain 1 (1);Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain (1);	0.172604	0.64402	N	0.000009	T	0.09818	0.0241	N	0.01003	-1.06	0.80722	D	1	B	0.02656	0.0	B	0.01281	0.0	T	0.09618	-1.0666	10	0.33141	T	0.24	-6.3852	0.8613	0.01194	0.4025:0.2436:0.1422:0.2117	.	177	P22102	PUR2_HUMAN	D	177	ENSP00000371236:E177D;ENSP00000371253:E177D;ENSP00000371261:E177D;ENSP00000354388:E177D;ENSP00000413040:E177D;ENSP00000398631:E177D	ENSP00000354388:E177D	E	-	3	2	GART	33825731	0.902000	0.30710	0.936000	0.37596	0.897000	0.52465	0.030000	0.13688	-0.809000	0.04381	0.650000	0.86243	GAG		0.328	GART-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140626.3	NM_000819		A	34903861	C	A	34903861	3	1	658	1	0	0	0	0	1	0	0	0	6250	912	32	4	2573	4	GART	21	34903861	Missense_Mutation	SNP	C	TCGA-KN-8422-01A-11D-2310-10		34903861	13226034	69	40857										
SLC19A1	6573	mdanderson.org	37	chr21	46951556	46951556	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	cccagcttcccgcctgggccAggattcatgcgctccagctc	10	18	1	0	rs12659	byFrequency	TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chr21:46951556A>G	ENST00000311124.4	-	3	848	c.696T>C	c.(694-696)ccT>ccC	p.P232P	SLC19A1_ENST00000485649.2_Silent_p.P192P|SLC19A1_ENST00000567670.1_Silent_p.P232P|SLC19A1_ENST00000380010.4_Silent_p.P232P	NM_194255.2	NP_919231.1	P41440	S19A1_HUMAN	solute carrier family 19 (folate transporter), member 1	232					folic acid metabolic process (GO:0046655)|folic acid transport (GO:0015884)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	folic acid binding (GO:0005542)|folic acid transporter activity (GO:0008517)|methotrexate transporter activity (GO:0015350)			endometrium(4)|kidney(1)|large_intestine(1)|lung(1)|prostate(1)|skin(1)|urinary_tract(1)	10				Colorectal(79;0.0569)|READ - Rectum adenocarcinoma(84;0.172)	Methotrexate(DB00563)|Pralatrexate(DB06813)	CGCCTGGGCCAGGATTCATGC	0.711													G|||	2770	0.553115	0.5189	0.5908	5008	,	,		12778	0.4752		0.5557	False		,,,				2504	0.6503															0								G	,,	2461,1943		713,1035,454	31	37	35		696,576,696	-6.6	0	21	dbSNP_52	35	4985,3615		1473,2039,788	no	coding-synonymous,coding-synonymous,coding-synonymous	SLC19A1	NM_001205206.1,NM_001205207.1,NM_194255.2	,,	2186,3074,1242	GG,GA,AA		42.0349,44.119,42.7407	,,	232/490,192/552,232/592	46951556	7446,5558	2202	4300	6502	SO:0001819	synonymous_variant	6573			U15939	CCDS13725.1, CCDS56217.1, CCDS56218.1	21q22.3	2013-05-22			ENSG00000173638	ENSG00000173638		"Solute carriers"	10937	protein-coding gene	gene with protein product		600424				9570943	Standard	NM_194255		Approved	FOLT	uc002zhl.2	P41440	OTTHUMG00000090397	ENST00000311124.4:c.696T>C	21.37:g.46951556A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R7U8|B7Z8C3|E9PFY4|O00553|O60227|Q13026|Q9BTX8	Silent	SNP	ENST00000311124.4	37	CCDS13725.1																																																																																				0.711	SLC19A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206796.1			G	46951556	A	G	46951556	2	3	658	1	0	0	0	0	0	0	0	1	14441	175	7	3		3	SLC19A1	21	46951556	Silent	SNP	A	TCGA-KN-8422-01A-11D-2310-10	12047695	46951556	1178339	70	40858										
FAM9A	171482	broad.mit.edu	37	chrX	8767124	8767124	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0735294117647059	5	1	1.63617886178862	2.61788617886179	1.30894308943089	1	1	0	ctgtcctgggaagttagaggCgatccctgaacctggttgag	14	9	0	3			TCGA-KN-8422-01A-11D-2310-10	TCGA-KN-8422-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	d648c804-4eaf-4252-8b6f-13378158a07d	e13915df-0ba2-4242-b4f7-27733b6a01c1	g.chrX:8767124C>T	ENST00000543214.1	-	3	238	c.103G>A	c.(103-105)Gcc>Acc	p.A35T	FAM9A_ENST00000381003.3_Missense_Mutation_p.A35T	NM_001171186.1	NP_001164657.1	Q8IZU1	FAM9A_HUMAN	family with sequence similarity 9, member A	35						nucleus (GO:0005634)				endometrium(11)|kidney(2)|large_intestine(1)|lung(3)|upper_aerodigestive_tract(1)	18		Hepatocellular(5;0.219)				AAGTTAGAGGCGATCCCTGAA	0.542																																																0													55	42	46					X																	8767124		2202	4277	6479	SO:0001583	missense	171482				CCDS14131.1	Xp22.32	2012-11-29			ENSG00000183304	ENSG00000183304			18403	protein-coding gene	gene with protein product	"testis expressed 39A"	300477					Standard	NM_174951		Approved	TEX39A	uc004csg.3	Q8IZU1	OTTHUMG00000021110	ENST00000543214.1:c.103G>A	X.37:g.8767124C>T	ENSP00000440163:p.Ala35Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLH5|Q2M2D1	Missense_Mutation	SNP	ENST00000543214.1	37	CCDS14131.1	.	.	.	.	.	.	.	.	.	.	c	4.889	0.165142	0.09339	.	.	ENSG00000183304	ENST00000381003;ENST00000543214	.	.	.	0.439	-0.879	0.10613	.	.	.	.	.	T	0.20577	0.0495	L	0.27053	0.805	0.09310	N	1	D	0.65815	0.995	P	0.45971	0.499	T	0.12243	-1.0555	7	0.48119	T	0.1	.	.	.	.	.	35	Q8IZU1	FAM9A_HUMAN	T	35	.	ENSP00000370391:A35T	A	-	1	0	FAM9A	8727124	0.184000	0.23200	0.002000	0.10522	0.002000	0.02628	0.759000	0.26461	-0.536000	0.06298	-0.544000	0.04233	GCC		0.542	FAM9A-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055697.1	NM_174951		T	8767124	C	T	8767124	3	4	658	1	0	0	0	0	1	0	0	0	5666	768	27	1	923	1	FAM9A	23	8767124	Missense_Mutation	SNP	C	TCGA-KN-8422-01A-11D-2310-10		8767124	146503436	71	40859										
NRD1	4898	mdanderson.org	37	chr1	52306079	52306079	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	catcatcttcttcttcttccTccacctcctcttcttcttca	0	18	9	0	rs62648104		TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr1:52306079T>A	ENST00000354831.7	-	2	638	c.449A>T	c.(448-450)gAg>gTg	p.E150V	NRD1_ENST00000352171.7_Missense_Mutation_p.E150V|NRD1_ENST00000539524.1_Missense_Mutation_p.E18V|NRD1_ENST00000544028.1_Missense_Mutation_p.E18V|NRD1_ENST00000485608.1_5'UTR	NM_002525.2	NP_002516.2	O43847	NRDC_HUMAN	nardilysin (N-arginine dibasic convertase)	0	Asp/Glu-rich (highly acidic).|Poly-Glu.				cell migration (GO:0016477)|cell proliferation (GO:0008283)|neuromuscular junction development (GO:0007528)|positive regulation of membrane protein ectodomain proteolysis (GO:0051044)|proteolysis (GO:0006508)|regulation of endopeptidase activity (GO:0052548)	cell surface (GO:0009986)|cytosol (GO:0005829)	epidermal growth factor binding (GO:0048408)|metal ion binding (GO:0046872)|metalloendopeptidase activity (GO:0004222)			NS(1)|breast(2)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(6)|lung(9)|pancreas(1)|prostate(1)|skin(1)	27						ttcttcttcctccacctcctc	0.378																																																0													163	138	146					1																	52306079		2203	4300	6503	SO:0001583	missense	4898			X93207	CCDS559.1, CCDS41335.1, CCDS55599.1	1p32.2-p32.1	2008-07-18			ENSG00000078618	ENSG00000078618			7995	protein-coding gene	gene with protein product		602651				9581555, 9479496	Standard	NM_002525		Approved	hNRD1, hNRD2	uc001ctc.4	O43847	OTTHUMG00000008278	ENST00000354831.7:c.449A>T	1.37:g.52306079T>A	ENSP00000346890:p.Glu150Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NI41|O15241|O15242|Q5VUL0|Q96HB2|Q9NU57	Missense_Mutation	SNP	ENST00000354831.7	37	CCDS559.1	.	.	.	.	.	.	.	.	.	.	T	3.056	-0.194350	0.06259	.	.	ENSG00000078618	ENST00000352171;ENST00000354831;ENST00000539524;ENST00000546169;ENST00000544028	T;T;T;T	0.38240	1.31;3.15;1.15;1.22	5.25	2.92	0.33932	Metalloenzyme, LuxS/M16 peptidase-like, metal-binding (1);	0.525899	0.19688	N	0.108344	T	0.18341	0.0440	N	0.14661	0.345	0.09310	N	1	B;B;B	0.23650	0.062;0.089;0.01	B;B;B	0.17098	0.017;0.007;0.007	T	0.14755	-1.0461	10	0.38643	T	0.18	-0.0317	5.1939	0.15225	0.0:0.1704:0.2022:0.6274	rs62648104	150;150;150	F5H6R2;O43847;B1AKJ5	.;NRDC_HUMAN;.	V	150;150;18;150;18	ENSP00000262679:E150V;ENSP00000346890:E150V;ENSP00000444416:E18V;ENSP00000442262:E18V	ENSP00000262679:E150V	E	-	2	0	NRD1	52078667	0.129000	0.22400	0.012000	0.15200	0.145000	0.21501	0.870000	0.28010	0.317000	0.23160	0.454000	0.30748	GAG		0.378	NRD1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000023045.1	NM_002525		A	52306079	T	A	52306079	3	1	659	1	0	0	0	0	1	0	0	0	10652	1551	54	5	3338	5	NRD1	1	52306079	Missense_Mutation	SNP	T	TCGA-KN-8423-01A-11D-2310-10		52306079	196944542	1	40860										
MTX1	4580	mdanderson.org	37	chr1	155178782	155178782	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	cttggacgaggcgccgtgacActccgaggcgcgccgggccg	17	15	0	1	rs760077	byFrequency	TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr1:155178782A>T	ENST00000368376.3	+	1	293	c.187A>T	c.(187-189)Act>Tct	p.T63S	THBS3_ENST00000457183.2_5'Flank|MTX1_ENST00000609421.1_5'Flank|THBS3_ENST00000368378.3_5'Flank|THBS3_ENST00000486260.1_5'UTR|RP11-263K19.6_ENST00000455788.1_RNA|MTX1_ENST00000316721.4_Missense_Mutation_p.T63S|THBS3_ENST00000541990.1_5'Flank	NM_002455.3	NP_002446.2	Q13505	MTX1_HUMAN	metaxin 1	63			T -> S (in dbSNP:rs760077). {ECO:0000269|PubMed:15489334, ECO:0000269|Ref.5}.		cellular protein metabolic process (GO:0044267)|protein targeting to mitochondrion (GO:0006626)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrial outer membrane (GO:0005741)				breast(1)|endometrium(1)|large_intestine(1)|lung(2)|prostate(1)|skin(1)	7	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)			GCGCCGTGACACTCCGAGGCG	0.761													T|||	3339	0.666733	0.6331	0.7608	5008	,	,		8727	0.7738		0.6054	False		,,,				2504	0.5982															0								T	SER/THR,SER/THR	2914,1394		1026,862,266	7	11	10		187,187	-2.4	0	1	dbSNP_86	10	5140,3348		1612,1916,716	yes	missense,missense	MTX1	NM_002455.3,NM_198883.2	58,58	2638,2778,982	TT,TA,AA		39.4439,32.3584,37.0585	benign,benign	63/467,63/436	155178782	8054,4742	2154	4244	6398	SO:0001583	missense	4580				CCDS1100.1, CCDS1101.1	1q21	2008-07-18			ENSG00000173171	ENSG00000173171			7504	protein-coding gene	gene with protein product		600605		MTX		7753840	Standard	XM_006711338		Approved	MTXN	uc001fjb.3	Q13505	OTTHUMG00000035708	ENST00000368376.3:c.187A>T	1.37:g.155178782A>T	ENSP00000357360:p.Thr63Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B1AVR9|B1AVS0|B2R9P4|Q9BUU3	Missense_Mutation	SNP	ENST00000368376.3	37	CCDS1100.1	1515	0.6936813186813187	314	0.6382113821138211	252	0.6961325966850829	474	0.8286713286713286	475	0.6266490765171504	T	10.85	1.466570	0.26335	0.676416	0.605561	ENSG00000173171	ENST00000368376;ENST00000316721	T;T	0.27890	1.64;1.64	4.25	-2.39	0.06602	.	0.398228	0.18519	N	0.138831	T	0.01320	0.0043	N	0.01168	-0.975	0.80722	P	0.0	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.22591	-1.0212	9	0.02654	T	1	-7.2218	0.3438	0.00338	0.2917:0.2744:0.1499:0.2841	rs760077;rs57404131	63;63	Q13505-2;Q13505	.;MTX1_HUMAN	S	63	ENSP00000357360:T63S;ENSP00000317106:T63S	ENSP00000317106:T63S	T	+	1	0	MTX1	153445406	0.001000	0.12720	0.000000	0.03702	0.015000	0.08874	-0.293000	0.08320	-0.656000	0.05380	-0.257000	0.10917	ACT		0.761	MTX1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000086844.1	NM_198883		T	155178782	A	T	155178782	3	4	659	1	0	0	0	0	1	0	0	0	9974	159	6	5	189	5	MTX1	1	155178782	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10	102872703	155178782	94071839	2	40861										
HNRNPU	3192	broad.mit.edu	37	chr1	245022136	245022136	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	gaatacccataagaaaattcTtcttcacctaagaaaataat	3	8	3	2			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr1:245022136T>C	ENST00000283179.9	-	6	1288	c.1125A>G	c.(1123-1125)gaA>gaG	p.E375E	HNRNPU_ENST00000444376.2_Silent_p.E356E			Q00839	HNRPU_HUMAN	heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A)	375	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.				CRD-mediated mRNA stabilization (GO:0070934)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|osteoblast differentiation (GO:0001649)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|CRD-mediated mRNA stability complex (GO:0070937)|cytoplasmic ribonucleoprotein granule (GO:0036464)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			NS(1)|endometrium(2)|large_intestine(1)|lung(10)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	20	all_cancers(71;6.97e-06)|all_epithelial(71;0.000104)|all_neural(11;0.0269)|Breast(184;0.0545)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0989)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.00868)			AAGAAAATTCTTCTTCACCTA	0.289																																					NSCLC(33;911 1010 3329 23631 49995)											0													69	69	69					1																	245022136		2202	4292	6494	SO:0001819	synonymous_variant	3192			X65488	CCDS31081.1, CCDS41479.1	1q44	2011-10-24		2007-08-16	ENSG00000153187	ENSG00000153187			5048	protein-coding gene	gene with protein product		602869		HNRPU		7509195, 8068679	Standard	NM_031844		Approved	SAF-A, hnRNPU	uc001iaz.1	Q00839	OTTHUMG00000040396	ENST00000283179.9:c.1125A>G	1.37:g.245022136T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O75507|Q8N174|Q96HY9|Q9BQ09	Silent	SNP	ENST00000283179.9	37	CCDS41479.1																																																																																				0.289	HNRNPU-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000097163.3	NM_031844		C	245022136	T	C	245022136	2	2	659	1	0	0	0	0	0	0	0	1	7280	1606	56	3		3	HNRNPU	1	245022136	Silent	SNP	T	TCGA-KN-8423-01A-11D-2310-10	89843354	245022136	4228485	3	40862										
KYNU	8942	broad.mit.edu	37	chr2	143718278	143718278	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	agtgatcctgttcagtggggTgcatttttacactggacagc	12	8	1	1			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr2:143718278T>C	ENST00000264170.4	+	8	926	c.668T>C	c.(667-669)gTg>gCg	p.V223A	KYNU_ENST00000375773.2_Missense_Mutation_p.V223A|KYNU_ENST00000409512.1_Missense_Mutation_p.V223A	NM_003937.2	NP_003928.1			kynureninase											large_intestine(10)|liver(1)|lung(18)|prostate(3)|skin(4)	36				BRCA - Breast invasive adenocarcinoma(221;0.072)		TTCAGTGGGGTGCATTTTTAC	0.428																																																0													143	139	140					2																	143718278		2203	4300	6503	SO:0001583	missense	8942			U57721	CCDS2183.1, CCDS33299.1	2q22.2	2010-11-23	2010-11-23		ENSG00000115919	ENSG00000115919	3.7.1.3		6469	protein-coding gene	gene with protein product	"L-kynurenine hydrolase"	605197	"kynureninase (L-kynurenine hydrolase)"			8706755, 9180257	Standard	NM_001199241		Approved		uc002tvl.3	Q16719	OTTHUMG00000131829	ENST00000264170.4:c.668T>C	2.37:g.143718278T>C	ENSP00000264170:p.Val223Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000264170.4	37	CCDS2183.1	.	.	.	.	.	.	.	.	.	.	T	19.87	3.906706	0.72868	.	.	ENSG00000115919	ENST00000264170;ENST00000375773;ENST00000409512	T;T;T	0.56776	0.44;0.44;0.44	5.35	5.35	0.76521	Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (1);Pyridoxal phosphate-dependent transferase, major domain (1);Aminotransferase, class V/Cysteine desulfurase (1);	0.467479	0.21519	N	0.073244	T	0.77425	0.4128	M	0.90019	3.08	0.80722	D	1	D;P	0.55800	0.973;0.785	D;P	0.69824	0.966;0.852	T	0.82341	-0.0505	10	0.87932	D	0	.	15.3368	0.74263	0.0:0.0:0.0:1.0	.	223;223	Q16719;Q9BVW3	KYNU_HUMAN;.	A	223	ENSP00000264170:V223A;ENSP00000364928:V223A;ENSP00000386731:V223A	ENSP00000264170:V223A	V	+	2	0	KYNU	143434748	1.000000	0.71417	0.907000	0.35723	0.507000	0.33981	7.639000	0.83342	2.156000	0.67533	0.524000	0.50904	GTG		0.428	KYNU-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254772.1	NM_001032998		C	143718278	T	C	143718278	3	2	659	1	0	0	0	0	1	0	0	0	8594	1696	59	3	694	3	KYNU	2	143718278	Missense_Mutation	SNP	T	TCGA-KN-8423-01A-11D-2310-10		143718278	99481095	4	40863										
DNAJB2	3300	hgsc.bcm.edu	37	chr2	220149586	220149586	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	gaggcacagcaccgacggcaGgggcggcccaaggcccagca	16	15	0	0			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr2:220149586G>T	ENST00000336576.5	+	9	1140	c.852G>T	c.(850-852)caG>caT	p.Q284H	DNAJB2_ENST00000392086.4_Intron	NM_006736.5	NP_006727.2	P25686	DNJB2_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 2	284					cell death (GO:0008219)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of inclusion body assembly (GO:0090084)|negative regulation of protein deubiquitination (GO:0090086)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein ubiquitination (GO:0031398)|protein folding (GO:0006457)|protein refolding (GO:0042026)|response to unfolded protein (GO:0006986)	cytosol (GO:0005829)|inclusion body (GO:0016234)|nucleus (GO:0005634)	chaperone binding (GO:0051087)|Hsp70 protein binding (GO:0030544)|polyubiquitin binding (GO:0031593)|proteasome binding (GO:0070628)|unfolded protein binding (GO:0051082)			endometrium(4)|large_intestine(1)|lung(6)|prostate(1)|skin(1)|urinary_tract(1)	14		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)		ACCGACGGCAGGGGCGGCCCA	0.662																																																0													17	19	18					2																	220149586		2199	4297	6496	SO:0001583	missense	3300				CCDS2439.1, CCDS46519.1	2q32-q34	2011-09-02			ENSG00000135924	ENSG00000135924		"Heat shock proteins / DNAJ (HSP40)"	5228	protein-coding gene	gene with protein product		604139		HSJ1		1599432, 10516435	Standard	NM_006736		Approved	HSPF3	uc002vkx.1	P25686	OTTHUMG00000133134	ENST00000336576.5:c.852G>T	2.37:g.220149586G>T	ENSP00000338019:p.Gln284His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9P6|Q8IUK1|Q8IUK2|Q96F52	Missense_Mutation	SNP	ENST00000336576.5	37	CCDS2439.1	.	.	.	.	.	.	.	.	.	.	G	11.67	1.708121	0.30322	.	.	ENSG00000135924	ENST00000336576	T	0.61627	0.09	4.79	2.83	0.33086	.	7739.210000	0.00166	N	0.000000	T	0.46367	0.1389	N	0.19112	0.55	0.80722	D	1	B	0.02656	0.0	B	0.01281	0.0	T	0.17776	-1.0358	10	0.34782	T	0.22	.	9.4716	0.38847	0.0:0.1193:0.5069:0.3738	.	284	P25686	DNJB2_HUMAN	H	284	ENSP00000338019:Q284H	ENSP00000338019:Q284H	Q	+	3	2	DNAJB2	219857830	0.994000	0.37717	0.999000	0.59377	0.654000	0.38779	1.245000	0.32790	1.195000	0.43115	0.456000	0.33151	CAG		0.662	DNAJB2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256823.2			T	220149586	G	T	220149586	3	4	659	1	0	0	0	0	1	0	0	0	4622	991	35	4	882	4	DNAJB2	2	220149586	Missense_Mutation	SNP	G	TCGA-KN-8423-01A-11D-2310-10	76431308	220149586	23049787	5	40864										
DAZL	1618	broad.mit.edu	37	chr3	16638275	16638275	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	acctgaacatactgagttatAggattcatcgtggttgtggg	12	6	1	2			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr3:16638275A>G	ENST00000399444.2	-	6	773	c.480T>C	c.(478-480)ccT>ccC	p.P160P	DAZL_ENST00000250863.8_Silent_p.P180P	NM_001351.3	NP_001342.2	Q92904	DAZL_HUMAN	deleted in azoospermia-like	160					female meiosis II (GO:0007147)|germ cell development (GO:0007281)|multicellular organismal development (GO:0007275)|oocyte maturation (GO:0001556)|positive regulation of meiosis (GO:0045836)|positive regulation of translational initiation (GO:0045948)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|polysome (GO:0005844)	mRNA 3'-UTR binding (GO:0003730)|nucleotide binding (GO:0000166)|RNA binding (GO:0003723)|translation activator activity (GO:0008494)		RAF1/DAZL(2)	endometrium(1)|large_intestine(3)|lung(4)|prostate(3)	11						ACTGAGTTATAGGATTCATCG	0.383																																																0													189	184	186					3																	16638275		2052	4207	6259	SO:0001819	synonymous_variant	1618			BC027595	CCDS43059.1, CCDS54556.1	3p24	2013-02-12			ENSG00000092345	ENSG00000092345		"RNA binding motif (RRM) containing"	2685	protein-coding gene	gene with protein product		601486		DAZLA		8896558	Standard	NM_001351		Approved	DAZH, SPGYLA, MGC26406, DAZL1	uc003cbb.3	Q92904	OTTHUMG00000157050	ENST00000399444.2:c.480T>C	3.37:g.16638275A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O15396|Q5HYB4|Q92909	Silent	SNP	ENST00000399444.2	37	CCDS43059.1																																																																																				0.383	DAZL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347261.2	NM_001351		G	16638275	A	G	16638275	2	3	659	1	0	0	0	0	0	0	0	1	4248	407	15	3		3	DAZL	3	16638275	Silent	SNP	A	TCGA-KN-8423-01A-11D-2310-10		16638275	181384155	6	40865										
LEKR1	389170	broad.mit.edu	37	chr3	156745919	156745919	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	acttaatcacaggcgctacaAgagatctaaggcaggaagtg	11	8	2	1			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr3:156745919A>G	ENST00000470811.1	+	13	1819	c.484A>G	c.(484-486)Aga>Gga	p.R162G	LEKR1_ENST00000356539.4_Missense_Mutation_p.R466G			Q6ZMV7	LEKR1_HUMAN	leucine, glutamate and lysine rich 1	162										breast(1)|large_intestine(5)|lung(3)|ovary(1)|skin(1)	11			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			AGGCGCTACAAGAGATCTAAG	0.343																																																0													55	58	57					3																	156745919		2203	4300	6503	SO:0001583	missense	389170			AK131473	CCDS54660.1	3q25.31	2014-02-12	2008-02-21		ENSG00000197980	ENSG00000197980			33765	protein-coding gene	gene with protein product		613536					Standard	NM_001004316		Approved	FLJ16641	uc021xgh.1	Q6ZMV7	OTTHUMG00000160130	ENST00000470811.1:c.484A>G	3.37:g.156745919A>G	ENSP00000418214:p.Arg162Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000470811.1	37		.	.	.	.	.	.	.	.	.	.	A	11.02	1.515270	0.27123	.	.	ENSG00000178110	ENST00000470811;ENST00000356539	T;T	0.44881	0.91;0.91	5.48	2.93	0.34026	.	0.575833	0.16682	N	0.203903	T	0.31575	0.0801	L	0.51422	1.61	0.22819	N	0.998697	B	0.34015	0.435	B	0.30495	0.116	T	0.11941	-1.0567	10	0.27785	T	0.31	-5.3815	7.0189	0.24902	0.5714:0.2895:0.0:0.1392	.	162	Q6ZMV7	LEKR1_HUMAN	G	162;466	ENSP00000418214:R162G;ENSP00000348936:R466G	ENSP00000348936:R466G	R	+	1	2	LEKR1	158228613	0.055000	0.20627	0.992000	0.48379	0.984000	0.73092	0.717000	0.25851	0.883000	0.36040	0.533000	0.62120	AGA		0.343	LEKR1-010	KNOWN	upstream_ATG|basic	protein_coding	protein_coding	OTTHUMT00000351625.3	NM_001004316		G	156745919	A	G	156745919	3	3	659	1	0	0	0	0	1	0	0	0	8724	64	3	3	1438	3	LEKR1	3	156745919	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10	140107644	156745919	41276511	7	40866										
HTT	3064	broad.mit.edu	37	chr4	3234985	3234985	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	ggagccctgcacggcgtcctCtatgtgctggagtgcgacct	14	13	1	0			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr4:3234985C>G	ENST00000355072.5	+	61	8506	c.8361C>G	c.(8359-8361)ctC>ctG	p.L2787L	HTT_ENST00000513806.1_Intron	NM_002111.6	NP_002102	P42858	HD_HUMAN	huntingtin	2787					anterior/posterior pattern specification (GO:0009952)|axon cargo transport (GO:0008088)|cell aging (GO:0007569)|citrulline metabolic process (GO:0000052)|determination of adult lifespan (GO:0008340)|dopamine receptor signaling pathway (GO:0007212)|endoplasmic reticulum organization (GO:0007029)|endosomal transport (GO:0016197)|ER to Golgi vesicle-mediated transport (GO:0006888)|establishment of mitotic spindle orientation (GO:0000132)|Golgi organization (GO:0007030)|grooming behavior (GO:0007625)|hormone metabolic process (GO:0042445)|insulin secretion (GO:0030073)|iron ion homeostasis (GO:0055072)|L-glutamate import (GO:0051938)|lactate biosynthetic process from pyruvate (GO:0019244)|locomotory behavior (GO:0007626)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of neuron apoptotic process (GO:0043524)|neural plate formation (GO:0021990)|neuron apoptotic process (GO:0051402)|neuron development (GO:0048666)|olfactory lobe development (GO:0021988)|organ development (GO:0048513)|paraxial mesoderm formation (GO:0048341)|positive regulation of inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0031587)|protein import into nucleus (GO:0006606)|quinolinate biosynthetic process (GO:0019805)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane potential (GO:0051881)|regulation of protein phosphatase type 2A activity (GO:0034047)|regulation of synaptic plasticity (GO:0048167)|response to calcium ion (GO:0051592)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)|social behavior (GO:0035176)|spermatogenesis (GO:0007283)|striatum development (GO:0021756)|urea cycle (GO:0000050)|vesicle transport along microtubule (GO:0047496)|visual learning (GO:0008542)	autophagic vacuole (GO:0005776)|axon (GO:0030424)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|inclusion body (GO:0016234)|late endosome (GO:0005770)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|protein complex (GO:0043234)	beta-tubulin binding (GO:0048487)|diazepam binding (GO:0050809)|dynactin binding (GO:0034452)|dynein intermediate chain binding (GO:0045505)|identical protein binding (GO:0042802)|ion channel binding (GO:0044325)|p53 binding (GO:0002039)|transcription factor binding (GO:0008134)			breast(1)|cervix(2)|endometrium(14)|kidney(5)|large_intestine(23)|lung(28)|ovary(4)|prostate(2)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	87		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		ACGGCGTCCTCTATGTGCTGG	0.642																																																0													99	111	107					4																	3234985		2121	4228	6349	SO:0001819	synonymous_variant	3064			L12392	CCDS43206.1	4p16.3	2014-09-17	2007-12-04	2007-12-04	ENSG00000197386	ENSG00000197386		"Endogenous ligands"	4851	protein-coding gene	gene with protein product		613004	"huntingtin (Huntington disease)"	HD		8458085	Standard	NM_002111		Approved	IT15	uc021xkv.1	P42858	OTTHUMG00000159916	ENST00000355072.5:c.8361C>G	4.37:g.3234985C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UQB7	Silent	SNP	ENST00000355072.5	37	CCDS43206.1																																																																																				0.642	HTT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358234.2	NM_002111		G	3234985	C	G	3234985	2	3	659	1	0	0	0	0	0	0	0	1	7464	900	32	4		4	HTT	4	3234985	Silent	SNP	C	TCGA-KN-8423-01A-11D-2310-10		3234985	187919291	8	40867										
DSPP	1834	mdanderson.org	37	chr4	88536448	88536448	+	Silent	SNP	C	C	T													0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	gacagcagcaacagcagtgaCagcagtgatagcagtgacag					rs111205175		TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr4:88536448C>T	ENST00000282478.7	+	4	2667	c.2634C>T	c.(2632-2634)gaC>gaT	p.D878D	RP11-742B18.1_ENST00000506480.1_RNA|DSPP_ENST00000399271.1_Silent_p.D878D			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	878	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		acagcagtgacagcagtgata	0.498																																																0													70	84	79					4																	88536448		1633	2930	4563	SO:0001819	synonymous_variant	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.2634C>T	4.37:g.88536448C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	Silent	SNP	ENST00000282478.7	37	CCDS43248.1																																																																																				0.498	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		T	88536448	C	T	88536448	2	4	659	1	0	0	0	0	0	0	0	1	4784	477	17	2		2	DSPP	4	88536448	Silent	SNP	C	TCGA-KN-8423-01A-11D-2310-10	85301463	88536448	102617828	9	40868	376	4								
DSPP	1834	mdanderson.org	37	chr4	88536451	88536451	+	Silent	SNP	C	C	T													0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	agcagcaacagcagtgacagCagtgatagcagtgacagcaa					rs111205176|rs149201255		TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr4:88536451C>T	ENST00000282478.7	+	4	2670	c.2637C>T	c.(2635-2637)agC>agT	p.S879S	RP11-742B18.1_ENST00000506480.1_RNA|DSPP_ENST00000399271.1_Silent_p.S879S			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	879	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		gcagtgacagcagtgatagca	0.493																																																0													71	84	80					4																	88536451		1629	2928	4557	SO:0001819	synonymous_variant	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.2637C>T	4.37:g.88536451C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	Silent	SNP	ENST00000282478.7	37	CCDS43248.1																																																																																				0.493	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		T	88536451	C	T	88536451	2	4	659	1	0	0	0	0	0	0	0	1	4784	709	25	2		2	DSPP	4	88536451	Silent	SNP	C	TCGA-KN-8423-01A-11D-2310-10	3	88536451	102617825	10	40869	376	4								
DSPP	1834	mdanderson.org	37	chr4	88536457	88536457	+	Silent	SNP	T	T	C													0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	aacagcagtgacagcagtgaTagcagtgacagcaacgaaag					rs141186173|rs111205177|rs199994008	byFrequency	TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr4:88536457T>C	ENST00000282478.7	+	4	2676	c.2643T>C	c.(2641-2643)gaT>gaC	p.D881D	RP11-742B18.1_ENST00000506480.1_RNA|DSPP_ENST00000399271.1_Silent_p.D881D			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	881	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)	p.D881_S882insSSD(1)		breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		acagcagtgatagcagtgaca	0.498																																																1	Insertion - In frame(1)	ovary(1)											73	87	82					4																	88536457		1618	2922	4540	SO:0001819	synonymous_variant	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.2643T>C	4.37:g.88536457T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	Silent	SNP	ENST00000282478.7	37	CCDS43248.1																																																																																				0.498	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		C	88536457	T	C	88536457	2	2	659	1	0	0	0	0	0	0	0	1	4784	1403	49	3		3	DSPP	4	88536457	Silent	SNP	T	TCGA-KN-8423-01A-11D-2310-10	6	88536457	102617819	11	40870	376	4								
DSPP	1834	mdanderson.org	37	chr4	88536460	88536460	+	Silent	SNP	C	C	T													0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	agcagtgacagcagtgatagCagtgacagcaacgaaagcag					rs199691318		TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr4:88536460C>T	ENST00000282478.7	+	4	2679	c.2646C>T	c.(2644-2646)agC>agT	p.S882S	RP11-742B18.1_ENST00000506480.1_RNA|DSPP_ENST00000399271.1_Silent_p.S882S			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	882	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		gcagtgatagcagtgacagca	0.498																																																0													73	87	82					4																	88536460		1617	2929	4546	SO:0001819	synonymous_variant	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.2646C>T	4.37:g.88536460C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	Silent	SNP	ENST00000282478.7	37	CCDS43248.1																																																																																				0.498	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		T	88536460	C	T	88536460	2	4	659	1	0	0	0	0	0	0	0	1	4784	709	25	2		2	DSPP	4	88536460	Silent	SNP	C	TCGA-KN-8423-01A-11D-2310-10	3	88536460	102617816	12	40871	376	4								
UGT3A1	133688	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	35957478	35957478	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	tggagccaaaggccacaaggAcaaaccctgcatccccaaag	9	14	0	0			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr5:35957478A>T	ENST00000274278.3	-	5	1244	c.887T>A	c.(886-888)gTc>gAc	p.V296D	UGT3A1_ENST00000503189.1_Missense_Mutation_p.V296D|UGT3A1_ENST00000507113.1_Missense_Mutation_p.V262D|UGT3A1_ENST00000513233.1_5'UTR	NM_152404.3	NP_689617.3	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	296						integral component of membrane (GO:0016021)|UDP-N-acetylglucosamine transferase complex (GO:0043541)	glucuronosyltransferase activity (GO:0015020)|UDP-glycosyltransferase activity (GO:0008194)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(8)|lung(28)|ovary(2)|skin(4)	46	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GGCCACAAGGACAAACCCTGC	0.493																																																0													95	83	87					5																	35957478		2203	4300	6503	SO:0001583	missense	133688				CCDS3913.1, CCDS54841.1	5p13.2	2014-05-20			ENSG00000145626	ENSG00000145626		"UDP glucuronosyltransferases"	26625	protein-coding gene	gene with protein product							Standard	NM_152404		Approved	FLJ34658	uc003jjv.2	Q6NUS8	OTTHUMG00000131107	ENST00000274278.3:c.887T>A	5.37:g.35957478A>T	ENSP00000274278:p.Val296Asp	Somatic		WXS	Illumina HiSeq	Phase_I	G5E961|Q8IYS9|Q8NAW4|Q96DM6	Missense_Mutation	SNP	ENST00000274278.3	37	CCDS3913.1	.	.	.	.	.	.	.	.	.	.	.	13.85	2.360365	0.41801	.	.	ENSG00000145626	ENST00000274278;ENST00000503189;ENST00000507113	T;T;T	0.72725	-0.68;-0.68;-0.68	3.28	3.28	0.37604	.	0.632758	0.14275	N	0.329919	D	0.87621	0.6223	H	0.95402	3.665	0.80722	D	1	D;D;D	0.76494	0.999;0.997;0.996	D;D;D	0.76071	0.981;0.98;0.987	D	0.88995	0.3417	10	0.87932	D	0	.	11.2924	0.49258	1.0:0.0:0.0:0.0	.	262;296;296	E9PD17;B7Z8Q8;Q6NUS8	.;.;UD3A1_HUMAN	D	296;296;262	ENSP00000274278:V296D;ENSP00000427079:V296D;ENSP00000426100:V262D	ENSP00000274278:V296D	V	-	2	0	UGT3A1	35993235	0.878000	0.30173	0.994000	0.49952	0.137000	0.21094	4.441000	0.59981	1.431000	0.47355	0.383000	0.25322	GTC		0.493	UGT3A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253770.2	NM_152404		T	35957478	A	T	35957478	3	4	659	1	0	0	0	0	1	0	0	0	16975	275	10	5	696	5	UGT3A1	5	35957478	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10		35957478	144957782	13	40872										
RASGRF2	5924	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	80504195	80504195	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	agtttcttgggcaggggtggAtgaagctggataaaaacgaa	15	4	1	1			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr5:80504195A>G	ENST00000265080.4	+	22	3161	c.3094A>G	c.(3094-3096)Atg>Gtg	p.M1032V	CKMT2-AS1_ENST00000511495.1_RNA|CKMT2-AS1_ENST00000503483.2_RNA	NM_006909.2	NP_008840.1	O14827	RGRF2_HUMAN	Ras protein-specific guanine nucleotide-releasing factor 2	1032	Ras-GEF. {ECO:0000255|PROSITE- ProRule:PRU00168}.				apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|synaptic transmission (GO:0007268)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|plasma membrane (GO:0005886)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			biliary_tract(1)|breast(5)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(15)|lung(28)|ovary(5)|prostate(3)|skin(4)|soft_tissue(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	75		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)		GCAGGGGTGGATGAAGCTGGA	0.413																																																0													72	69	70					5																	80504195		2203	4300	6503	SO:0001583	missense	5924			AF023130	CCDS4052.1	5q13	2013-01-10			ENSG00000113319	ENSG00000113319		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	9876	protein-coding gene	gene with protein product		606614					Standard	NM_006909		Approved	GRF2, Ras-GRF2	uc003kha.2	O14827	OTTHUMG00000119015	ENST00000265080.4:c.3094A>G	5.37:g.80504195A>G	ENSP00000265080:p.Met1032Val	Somatic		WXS	Illumina HiSeq	Phase_I	B9EG89|Q9UK56	Missense_Mutation	SNP	ENST00000265080.4	37	CCDS4052.1	.	.	.	.	.	.	.	.	.	.	A	21.3	4.131835	0.77662	.	.	ENSG00000113319	ENST00000265080	T	0.29397	1.57	5.67	5.67	0.87782	Guanine-nucleotide dissociation stimulator CDC25 (4);Ras guanine nucleotide exchange factor, domain (1);	0.102022	0.85682	D	0.000000	T	0.49081	0.1536	L	0.50919	1.6	0.58432	D	0.999999	P	0.50369	0.934	D	0.63488	0.915	T	0.44862	-0.9300	10	0.56958	D	0.05	.	15.5751	0.76373	1.0:0.0:0.0:0.0	.	1032	O14827	RGRF2_HUMAN	V	1032	ENSP00000265080:M1032V	ENSP00000265080:M1032V	M	+	1	0	RASGRF2	80539951	1.000000	0.71417	1.000000	0.80357	0.905000	0.53344	9.233000	0.95337	2.161000	0.67846	0.528000	0.53228	ATG		0.413	RASGRF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239215.2	NM_006909		G	80504195	A	G	80504195	3	3	659	1	0	0	0	0	1	0	0	0	13086	333	12	3	3180	3	RASGRF2	5	80504195	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10	44546717	80504195	100411065	14	40873										
HNRNPA0	10949	ucsc.edu;bcgsc.ca	37	chr5	137089608	137089608	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	ggagtaggtcacgaagccaaAgcaacgggagcgcttggtct	15	9	2	0			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr5:137089608A>G	ENST00000314940.4	-	1	431	c.148T>C	c.(148-150)Ttt>Ctt	p.F50L		NM_006805.3	NP_006796.1	Q13151	ROA0_HUMAN	heterogeneous nuclear ribonucleoprotein A0	50	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				3'-UTR-mediated mRNA stabilization (GO:0070935)|gene expression (GO:0010467)|inflammatory response (GO:0006954)|mRNA processing (GO:0006397)|mRNA splicing, via spliceosome (GO:0000398)|response to lipopolysaccharide (GO:0032496)|RNA splicing (GO:0008380)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	AU-rich element binding (GO:0017091)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)|RNA binding (GO:0003723)			large_intestine(1)|lung(2)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ACGAAGCCAAAGCAACGGGAG	0.657																																																0													51	52	52					5																	137089608		2203	4300	6503	SO:0001583	missense	10949			U23803	CCDS4193.1	5q31	2013-02-12		2007-08-16	ENSG00000177733	ENSG00000177733		"RNA binding motif (RRM) containing"	5030	protein-coding gene	gene with protein product		609409		HNRPA0		7585247	Standard	NM_006805		Approved	hnRNPA0	uc003lbt.3	Q13151	OTTHUMG00000129156	ENST00000314940.4:c.148T>C	5.37:g.137089608A>G	ENSP00000316042:p.Phe50Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IB18	Missense_Mutation	SNP	ENST00000314940.4	37	CCDS4193.1	.	.	.	.	.	.	.	.	.	.	A	35	5.486893	0.96323	.	.	ENSG00000177733	ENST00000314940	T	0.09350	2.99	4.93	4.93	0.64822	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.000000	0.85682	U	0.000000	T	0.41373	0.1156	M	0.91140	3.18	0.80722	D	1	D	0.89917	1.0	D	0.79784	0.993	T	0.54132	-0.8339	10	0.87932	D	0	.	14.5742	0.68235	1.0:0.0:0.0:0.0	.	50	Q13151	ROA0_HUMAN	L	50	ENSP00000316042:F50L	ENSP00000316042:F50L	F	-	1	0	HNRNPA0	137117507	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	9.261000	0.95576	1.853000	0.53794	0.374000	0.22700	TTT		0.657	HNRNPA0-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251221.1	NM_006805		G	137089608	A	G	137089608	3	3	659	1	0	0	0	0	1	0	0	0	7263	72	3	3	773	3	HNRNPA0	5	137089608	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10	56585413	137089608	43825652	15	40874										
HAVCR1	26762	ucsc.edu	37	chr5	156479568	156479568	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	acagttgtcgttggaacagtCgtcattggaacagtcgttgt	12	7	1	0	rs386693994|rs139041445|rs6149307|rs10068551|rs141023871|rs77147640	byFrequency	TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr5:156479568C>T	ENST00000339252.3	-	3	1009	c.477G>A	c.(475-477)acG>acA	p.T159T	HAVCR1_ENST00000523175.1_Silent_p.T159T|HAVCR1_ENST00000425854.1_Silent_p.T159T|HAVCR1_ENST00000522693.1_Silent_p.T159T|HAVCR1_ENST00000544197.1_Silent_p.T159T	NM_012206.2	NP_036338.2	Q96D42	HAVR1_HUMAN	hepatitis A virus cellular receptor 1	0	11 X 6 AA approximate tandem repeats of V-P-T-T-T-T].|Thr-rich.				viral process (GO:0016032)	integral component of membrane (GO:0016021)	virus receptor activity (GO:0001618)	p.T160_V161insT(1)		endometrium(3)|large_intestine(2)|lung(17)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	28	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TTGGAACAGTCGTCATTGGAA	0.488														70	0.0139776	0.0499	0.0058	5008	,	,		22483	0.0		0.0	False		,,,				2504	0.0															1	Insertion - In frame(1)	ovary(1)											463	356	392					5																	156479568		2125	4230	6355	SO:0001819	synonymous_variant	26762			AF043724	CCDS43392.1	5q33.2	2014-01-14			ENSG00000113249	ENSG00000113249		"Immunoglobulin superfamily / V-set domain containing"	17866	protein-coding gene	gene with protein product	"T-cell immunoglobulin mucin family member 1"	606518				9658108, 11725301	Standard	NM_012206		Approved	HAVCR-1, TIM-1, TIM1, HAVCR, TIMD1	uc021ygj.1	Q96D42	OTTHUMG00000163466	ENST00000339252.3:c.477G>A	5.37:g.156479568C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O43656	Silent	SNP	ENST00000339252.3	37	CCDS43392.1																																																																																				0.488	HAVCR1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373698.1			T	156479568	C	T	156479568	2	4	659	1	0	0	0	0	0	0	0	1	6980	871	31	1		1	HAVCR1	5	156479568	Silent	SNP	C	TCGA-KN-8423-01A-11D-2310-10	19389960	156479568	24435692	16	40875										
HLA-DRB1	3123	mdanderson.org	37	chr6	32549587	32549587	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	tgctgcaggggctgggtcttTgaaggatatacagtcacctt	13	8	2	1	rs2308761	byFrequency	TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr6:32549587T>G	ENST00000360004.5	-	3	504	c.399A>C	c.(397-399)tcA>tcC	p.S133S		NM_002124.3	NP_002115.2	Q30167	2B1A_HUMAN	major histocompatibility complex, class II, DR beta 1	133	Beta-2.|Ig-like C1-type.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|late endosome membrane (GO:0031902)|lysosomal membrane (GO:0005765)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)				large_intestine(3)|lung(2)|ovary(1)|prostate(1)|skin(2)|stomach(1)	10						GCTGGGTCTTTGAAGGATATA	0.512										Multiple Myeloma(14;0.17)																																						0													59	74	69					6																	32549587		1510	2709	4219	SO:0001819	synonymous_variant	3123			AJ297583	CCDS47409.1	6p21.3	2013-01-11			ENSG00000196126	ENSG00000196126		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4948	protein-coding gene	gene with protein product		142857		HLA-DR1B			Standard	NM_001243965		Approved		uc011eri.2	P01911	OTTHUMG00000031196	ENST00000360004.5:c.399A>C	6.37:g.32549587T>G		Somatic		WXS	Illumina HiSeq	Phase_I	P01914|Q9MYF5	Silent	SNP	ENST00000360004.5	37	CCDS47409.1																																																																																				0.512	HLA-DRB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076393.3	NM_002124		G	32549587	T	G	32549587	2	3	659	1	0	0	0	0	0	0	0	1	7215	1799	63	5		5	HLA-DRB1	6	32549587	Silent	SNP	T	TCGA-KN-8423-01A-11D-2310-10		32549587	138565480	17	40876										
HERPUD2	64224	ucsc.edu	37	chr7	35678074	35678074	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	cttgcccaggaaattggttgTctacatttctgcaagaaata	8	8	2	1			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr7:35678074T>C	ENST00000396081.1	-	5	1307	c.503A>G	c.(502-504)gAc>gGc	p.D168G	HERPUD2_ENST00000311350.3_Missense_Mutation_p.D168G|HERPUD2_ENST00000426180.1_5'UTR	NM_022373.4	NP_071768.3	Q9BSE4	HERP2_HUMAN	HERPUD family member 2	168					response to unfolded protein (GO:0006986)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)				kidney(3)|large_intestine(5)|lung(6)|ovary(3)|prostate(1)	18						AAATTGGTTGTCTACATTTCT	0.418																																																0													63	61	61					7																	35678074		2203	4300	6503	SO:0001583	missense	64224			BC020264	CCDS5446.1	7p14.2	2006-03-20	2006-03-20		ENSG00000122557	ENSG00000122557			21915	protein-coding gene	gene with protein product	"homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 2"						Standard	NM_022373		Approved	FLJ22313	uc003tes.4	Q9BSE4	OTTHUMG00000128687	ENST00000396081.1:c.503A>G	7.37:g.35678074T>C	ENSP00000379390:p.Asp168Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1Y8|Q9H6F9	Missense_Mutation	SNP	ENST00000396081.1	37	CCDS5446.1	.	.	.	.	.	.	.	.	.	.	T	8.314	0.822852	0.16678	.	.	ENSG00000122557	ENST00000396081;ENST00000311350;ENST00000438224;ENST00000413517	T;T;T;T	0.28666	2.79;2.79;1.6;1.98	5.04	3.71	0.42584	.	0.554792	0.20697	N	0.087357	T	0.07007	0.0178	N	0.00729	-1.24	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.23940	-1.0174	10	0.19147	T	0.46	-10.5907	1.6233	0.02718	0.2894:0.2009:0.0:0.5097	.	168	Q9BSE4	HERP2_HUMAN	G	168;168;104;142	ENSP00000379390:D168G;ENSP00000310729:D168G;ENSP00000415475:D104G;ENSP00000391015:D142G	ENSP00000310729:D168G	D	-	2	0	HERPUD2	35644599	0.563000	0.26594	0.709000	0.30452	0.988000	0.76386	2.230000	0.42999	2.008000	0.58898	0.533000	0.62120	GAC		0.418	HERPUD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250584.1	NM_022373		C	35678074	T	C	35678074	3	2	659	1	0	0	0	0	1	0	0	0	7071	1667	58	3	733	3	HERPUD2	7	35678074	Missense_Mutation	SNP	T	TCGA-KN-8423-01A-11D-2310-10		35678074	123460589	18	40877										
UPP1	7378	broad.mit.edu;hgsc.bcm.edu	37	chr7	48147910	48147911	+	Frame_Shift_Ins	INS	-	-	GGCT													0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	gtaccagcagaggccgcagcINSggctggtgagctacttcatc							TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr7:48147910_48147911insGGCT	ENST00000331803.4	+	10	1512_1513	c.889_890insGGCT	c.(889-891)cggfs	p.-298fs	UPP1_ENST00000429491.2_Frame_Shift_Ins_p.-161fs|UPP1_ENST00000341253.4_Frame_Shift_Ins_p.-298fs|UPP1_ENST00000482015.1_3'UTR|UPP1_ENST00000395564.4_Frame_Shift_Ins_p.-298fs			Q16831	UPP1_HUMAN	uridine phosphorylase 1						cellular response to glucose starvation (GO:0042149)|nucleobase-containing compound metabolic process (GO:0006139)|nucleobase-containing small molecule metabolic process (GO:0055086)|nucleotide catabolic process (GO:0009166)|pyrimidine nucleobase metabolic process (GO:0006206)|pyrimidine nucleoside catabolic process (GO:0046135)|pyrimidine nucleoside salvage (GO:0043097)|small molecule metabolic process (GO:0044281)|UMP salvage (GO:0044206)|uridine metabolic process (GO:0046108)	cytosol (GO:0005829)	uridine phosphorylase activity (GO:0004850)	p.R297Q(1)		breast(1)|endometrium(2)|large_intestine(1)|lung(12)|ovary(1)|upper_aerodigestive_tract(1)	18					Fluorouracil(DB00544)	GAGGCCGCAGCGGCTGGTGAGC	0.594																																																1	Substitution - Missense(1)	breast(1)																																								SO:0001589	frameshift_variant	7378			AK096167	CCDS5507.1	7p12.3	2012-10-02	2003-08-28	2003-08-29	ENSG00000183696	ENSG00000183696	2.4.2.3		12576	protein-coding gene	gene with protein product		191730	"uridine phosphorylase"	UP		752472, 11807789	Standard	NM_003364		Approved	UPASE, UPP, UDRPASE	uc003toj.3	Q16831	OTTHUMG00000129253	ENST00000331803.4:c.890_893dupGGCT	7.37:g.48147911_48147914dupGGCT	ENSP00000330032:p.Leu298fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVM4|Q15362	Frame_Shift_Ins	INS	ENST00000331803.4	37	CCDS5507.1																																																																																				0.594	UPP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251360.1	NM_003364		GGCT	48147911	-	GGCT	48147910	7	5	659	1	0	1	1	0	0	0	0	0	17024	759	27	0	915	0	UPP1	7	48147910	Frame_Shift_Ins	INS	-	TCGA-KN-8423-01A-11D-2310-10	12469836	48147910	110990753	19	40878	377	2								
UPP1	7378	bcgsc.ca	37	chr7	48147911	48147912	+	Frame_Shift_Ins	INS	-	-	GGCT													0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	taccagcagaggccgcagcgINSgctggtgagctacttcatca							TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr7:48147911_48147912insGGCT	ENST00000331803.4	+	10	1513_1514	c.890_891insGGCT	c.(889-894)cggctgfs	p.L298fs	UPP1_ENST00000429491.2_Frame_Shift_Ins_p.L161fs|UPP1_ENST00000341253.4_Frame_Shift_Ins_p.L298fs|UPP1_ENST00000482015.1_3'UTR|UPP1_ENST00000395564.4_Frame_Shift_Ins_p.L298fs			Q16831	UPP1_HUMAN	uridine phosphorylase 1	298					cellular response to glucose starvation (GO:0042149)|nucleobase-containing compound metabolic process (GO:0006139)|nucleobase-containing small molecule metabolic process (GO:0055086)|nucleotide catabolic process (GO:0009166)|pyrimidine nucleobase metabolic process (GO:0006206)|pyrimidine nucleoside catabolic process (GO:0046135)|pyrimidine nucleoside salvage (GO:0043097)|small molecule metabolic process (GO:0044281)|UMP salvage (GO:0044206)|uridine metabolic process (GO:0046108)	cytosol (GO:0005829)	uridine phosphorylase activity (GO:0004850)	p.R297Q(1)		breast(1)|endometrium(2)|large_intestine(1)|lung(12)|ovary(1)|upper_aerodigestive_tract(1)	18					Fluorouracil(DB00544)	AGGCCGCAGCGGCTGGTGAGCT	0.599																																																1	Substitution - Missense(1)	breast(1)																																								SO:0001589	frameshift_variant	7378			AK096167	CCDS5507.1	7p12.3	2012-10-02	2003-08-28	2003-08-29	ENSG00000183696	ENSG00000183696	2.4.2.3		12576	protein-coding gene	gene with protein product		191730	"uridine phosphorylase"	UP		752472, 11807789	Standard	NM_003364		Approved	UPASE, UPP, UDRPASE	uc003toj.3	Q16831	OTTHUMG00000129253	Exception_encountered	7.37:g.48147911_48147912insGGCT	ENSP00000330032:p.Leu298fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVM4|Q15362	Frame_Shift_Ins	INS	ENST00000331803.4	37	CCDS5507.1																																																																																				0.599	UPP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251360.1	NM_003364		GGCT	48147912	-	GGCT	48147911	7	5	659	1	0	1	1	0	0	0	0	0	17024	1116	39	0	916	0	UPP1	7	48147911	Frame_Shift_Ins	INS	-	TCGA-KN-8423-01A-11D-2310-10	1	48147911	110990752	20	40879	377	2								
IQUB	154865	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr7	123119977	123119977	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	cagagcagctttcctttcagCtccagtaaaagattggttaa	8	9	1	2			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr7:123119977C>G	ENST00000466202.1	-	8	1858	c.1282G>C	c.(1282-1284)Gct>Cct	p.A428P	IQUB_ENST00000324698.6_Missense_Mutation_p.A428P|IQUB_ENST00000434450.1_Missense_Mutation_p.A428P	NM_001282855.1	NP_001269784.1	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	428					cilium morphogenesis (GO:0060271)|smoothened signaling pathway (GO:0007224)	acrosomal vesicle (GO:0001669)|motile cilium (GO:0031514)				breast(1)|endometrium(5)|kidney(3)|large_intestine(9)|lung(18)|ovary(3)|prostate(2)|stomach(3)|upper_aerodigestive_tract(1)	45						TTCCTTTCAGCTCCAGTAAAA	0.383																																																0													111	101	104					7																	123119977		2203	4299	6502	SO:0001583	missense	154865			AK093153	CCDS5787.1	7q31.32	2010-03-19			ENSG00000164675	ENSG00000164675			21995	protein-coding gene	gene with protein product							Standard	NM_178827		Approved	FLJ35834	uc003vko.3	Q8NA54	OTTHUMG00000157347	ENST00000466202.1:c.1282G>C	7.37:g.123119977C>G	ENSP00000417769:p.Ala428Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A4D0X0|Q49AL6|Q4G189|Q5BJD9|Q6NUH6|Q8N9Y2	Missense_Mutation	SNP	ENST00000466202.1	37	CCDS5787.1	.	.	.	.	.	.	.	.	.	.	C	22.5	4.301776	0.81136	.	.	ENSG00000164675	ENST00000466202;ENST00000324698;ENST00000434450	T;T;T	0.50548	1.75;1.75;0.74	5.73	5.73	0.89815	.	0.048468	0.85682	D	0.000000	T	0.46908	0.1417	L	0.31752	0.955	0.53688	D	0.99997	P;P	0.47762	0.9;0.84	P;B	0.46940	0.532;0.405	T	0.38499	-0.9658	10	0.45353	T	0.12	.	19.4877	0.95037	0.0:1.0:0.0:0.0	.	428;428	Q8NA54-2;Q8NA54	.;IQUB_HUMAN	P	428	ENSP00000417769:A428P;ENSP00000324882:A428P;ENSP00000388498:A428P	ENSP00000324882:A428P	A	-	1	0	IQUB	122907213	1.000000	0.71417	1.000000	0.80357	0.958000	0.62258	3.219000	0.51200	2.709000	0.92574	0.563000	0.77884	GCT		0.383	IQUB-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348529.1	NM_178827		G	123119977	C	G	123119977	3	3	659	1	0	0	0	0	1	0	0	0	7827	797	28	4	1117	4	IQUB	7	123119977	Missense_Mutation	SNP	C	TCGA-KN-8423-01A-11D-2310-10	74972066	123119977	36018686	21	40880										
NOBOX	135935	bcgsc.ca	37	chr7	144096937	144096937	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	ccatttttcgccacttggccCggcgattctggaaccacacc	8	16	1	0			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr7:144096937C>T	ENST00000467773.1	-	6	1066	c.1067G>A	c.(1066-1068)cGg>cAg	p.R356Q	NOBOX_ENST00000483238.1_Missense_Mutation_p.R324Q|NOBOX_ENST00000223140.5_Missense_Mutation_p.R239Q	NM_001080413.3	NP_001073882.3	O60393	NOBOX_HUMAN	NOBOX oogenesis homeobox	356					oogenesis (GO:0048477)|ovarian follicle development (GO:0001541)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			NS(1)|breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(11)|ovary(1)|prostate(1)	26	Melanoma(164;0.14)					CCACTTGGCCCGGCGATTCTG	0.542																																																0													78	82	80					7																	144096937		1955	4150	6105	SO:0001583	missense	135935					7q35	2011-06-20			ENSG00000106410	ENSG00000106410		"Homeoboxes / PRD class"	22448	protein-coding gene	gene with protein product	"newborn ovary homeobox-encoding gene"	610934				11804785, 16597639	Standard	NM_001080413		Approved	OG2, Og2x	uc022aoj.1	O60393	OTTHUMG00000158051	ENST00000467773.1:c.1067G>A	7.37:g.144096937C>T	ENSP00000419457:p.Arg356Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NCD3|A8MZN5	Missense_Mutation	SNP	ENST00000467773.1	37		.	.	.	.	.	.	.	.	.	.	C	24.6	4.544899	0.86022	.	.	ENSG00000106410	ENST00000483238;ENST00000467773;ENST00000223140;ENST00000555556	D;D;D	0.99298	-5.48;-5.71;-5.48	5.55	4.67	0.58626	Homeodomain-related (1);Homeobox (2);	0.324668	0.29987	N	0.010695	D	0.99510	0.9825	M	0.93241	3.395	0.32825	D	0.503226	D	0.89917	1.0	D	0.91635	0.999	D	0.98597	1.0657	10	0.87932	D	0	-35.0972	12.3015	0.54876	0.0:0.918:0.0:0.082	.	356	O60393	NOBOX_HUMAN	Q	324;356;239;113	ENSP00000419565:R324Q;ENSP00000419457:R356Q;ENSP00000223140:R239Q	ENSP00000223140:R239Q	R	-	2	0	NOBOX	143727870	1.000000	0.71417	0.990000	0.47175	0.993000	0.82548	5.277000	0.65586	1.352000	0.45808	0.650000	0.86243	CGG		0.542	NOBOX-002	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000350095.1	XM_001134420		T	144096937	C	T	144096937	3	4	659	1	0	0	0	0	1	0	0	0	10519	652	23	1	1028	1	NOBOX	7	144096937	Missense_Mutation	SNP	C	TCGA-KN-8423-01A-11D-2310-10	20976960	144096937	15041726	22	40881										
PCMTD1	115294	bcgsc.ca	37	chr8	52733143	52733143	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	aagtgttaattctctgtttaActctctttcttttccttttg	4	8	3	0	rs111785933		TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr8:52733143A>G	ENST00000360540.5	-	7	1248	c.842T>C	c.(841-843)gTt>gCt	p.V281A	PCMTD1_ENST00000544451.1_Missense_Mutation_p.V205A|PCMTD1_ENST00000522514.1_Missense_Mutation_p.V281A|PCMTD1_ENST00000519559.1_5'UTR	NM_052937.2	NP_443169.2	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	281						cytoplasm (GO:0005737)	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity (GO:0004719)			NS(2)|endometrium(1)|kidney(3)|large_intestine(3)|lung(17)|prostate(2)|skin(8)|soft_tissue(1)	37		Lung NSC(129;0.0795)|all_lung(136;0.144)				TCTCTGTTTAACTCTCTTTCT	0.393																																																0													172	174	174					8																	52733143		2203	4300	6503	SO:0001583	missense	115294				CCDS6148.1, CCDS69480.1	8q11.23	2010-08-05			ENSG00000168300	ENSG00000168300			30483	protein-coding gene	gene with protein product							Standard	XM_005251146		Approved	FLJ10883	uc003xqx.4	Q96MG8	OTTHUMG00000164246	ENST00000360540.5:c.842T>C	8.37:g.52733143A>G	ENSP00000353739:p.Val281Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q96FK9	Missense_Mutation	SNP	ENST00000360540.5	37	CCDS6148.1	.	.	.	.	.	.	.	.	.	.	A	4.043	0.005592	0.07866	.	.	ENSG00000168300	ENST00000360540;ENST00000544451;ENST00000522514	T;T;T	0.46063	0.88;0.88;0.88	5.97	4.75	0.60458	.	0.260164	0.36972	N	0.002316	T	0.32556	0.0833	L	0.42245	1.32	0.29355	N	0.865105	B;B;B	0.18863	0.009;0.008;0.031	B;B;B	0.18263	0.015;0.005;0.021	T	0.15780	-1.0425	10	0.15066	T	0.55	-33.7683	11.4736	0.50284	0.6809:0.3191:0.0:0.0	.	151;205;281	B4E2B4;F5H1M8;Q96MG8	.;.;PCMD1_HUMAN	A	281;205;281	ENSP00000353739:V281A;ENSP00000444026:V205A;ENSP00000428099:V281A	ENSP00000353739:V281A	V	-	2	0	PCMTD1	52895696	1.000000	0.71417	0.992000	0.48379	0.981000	0.71138	5.794000	0.69067	2.281000	0.76405	0.533000	0.62120	GTT		0.393	PCMTD1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377909.2	NM_052937		G	52733143	A	G	52733143	3	3	659	1	0	0	0	0	1	0	0	0	11593	43	2	3	235	3	PCMTD1	8	52733143	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10		52733143	93630879	23	40882										
EYA1	2138	broad.mit.edu	37	chr8	72129213	72129213	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	tgctcaccttaggtcctgtcCgttatcatctgaagaaacat	7	11	3	2			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr8:72129213C>T	ENST00000340726.3	-	13	1825	c.1186G>A	c.(1186-1188)Gga>Aga	p.G396R	EYA1_ENST00000388740.3_Missense_Mutation_p.G363R|EYA1_ENST00000388743.2_Missense_Mutation_p.G395R|EYA1_ENST00000419131.1_Missense_Mutation_p.G361R|EYA1_ENST00000303824.7_Missense_Mutation_p.G390R|EYA1_ENST00000388742.4_Missense_Mutation_p.G396R|EYA1_ENST00000388741.2_Missense_Mutation_p.G362R	NM_000503.4	NP_000494.2	Q99502	EYA1_HUMAN	EYA transcriptional coactivator and phosphatase 1	396					anatomical structure morphogenesis (GO:0009653)|aorta morphogenesis (GO:0035909)|branching involved in ureteric bud morphogenesis (GO:0001658)|cellular protein localization (GO:0034613)|cochlea morphogenesis (GO:0090103)|double-strand break repair (GO:0006302)|embryonic skeletal system morphogenesis (GO:0048704)|establishment of mitotic spindle orientation (GO:0000132)|establishment or maintenance of apical/basal cell polarity (GO:0035088)|histone dephosphorylation (GO:0016576)|lung epithelial cell differentiation (GO:0060487)|metanephros development (GO:0001656)|middle ear morphogenesis (GO:0042474)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|neuron fate specification (GO:0048665)|otic vesicle morphogenesis (GO:0071600)|outer ear morphogenesis (GO:0042473)|outflow tract morphogenesis (GO:0003151)|pattern specification process (GO:0007389)|pharyngeal system development (GO:0060037)|positive regulation of DNA repair (GO:0045739)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of Notch signaling pathway (GO:0045747)|positive regulation of secondary heart field cardioblast proliferation (GO:0072513)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein sumoylation (GO:0016925)|regulation of neuron differentiation (GO:0045664)|response to ionizing radiation (GO:0010212)|semicircular canal morphogenesis (GO:0048752)|sensory perception of sound (GO:0007605)|striated muscle tissue development (GO:0014706)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|protein tyrosine phosphatase activity (GO:0004725)|RNA binding (GO:0003723)			NS(2)|breast(3)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(8)|lung(15)|ovary(4)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	44	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			AGGTCCTGTCCGTTATCATCT	0.338																																																0													137	129	132					8																	72129213		2203	4300	6503	SO:0001583	missense	2138			AJ000098	CCDS34906.1, CCDS34907.1, CCDS47873.1, CCDS75750.1	8q13.3	2014-06-19	2014-06-19		ENSG00000104313	ENSG00000104313		"Protein tyrosine phosphatases / Asp-based PTPs"	3519	protein-coding gene	gene with protein product		601653	"eyes absent (Drosophila) homolog 1", "eyes absent homolog 1 (Drosophila)"	BOR		9020840	Standard	XM_005251184		Approved		uc003xys.4	Q99502	OTTHUMG00000149894	ENST00000340726.3:c.1186G>A	8.37:g.72129213C>T	ENSP00000342626:p.Gly396Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHQ0|G5E9R4|Q0P516|Q8WX80	Missense_Mutation	SNP	ENST00000340726.3	37	CCDS34906.1	.	.	.	.	.	.	.	.	.	.	C	23.5	4.418716	0.83559	.	.	ENSG00000104313	ENST00000388742;ENST00000340726;ENST00000388744;ENST00000388740;ENST00000303824;ENST00000388741;ENST00000388743;ENST00000419131	D;D;D;D;D;D;D	0.91351	-1.53;-1.53;-1.53;-1.53;-1.53;-1.53;-2.83	5.34	5.34	0.76211	EYA (1);Haloacid dehalogenase-like hydrolase (1);	0.000000	0.85682	D	0.000000	D	0.95114	0.8417	M	0.72118	2.19	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.91635	0.999;0.985;0.989;0.998;0.998	D	0.95168	0.8287	10	0.87932	D	0	-13.6874	19.2408	0.93881	0.0:1.0:0.0:0.0	.	390;323;363;396;361	A6NCB9;Q0P517;Q99502-2;Q99502;G5E9R4	.;.;.;EYA1_HUMAN;.	R	396;396;364;363;390;362;395;361	ENSP00000373394:G396R;ENSP00000342626:G396R;ENSP00000373392:G363R;ENSP00000303221:G390R;ENSP00000373393:G362R;ENSP00000373395:G395R;ENSP00000410176:G361R	ENSP00000303221:G390R	G	-	1	0	EYA1	72291767	1.000000	0.71417	0.951000	0.38953	0.912000	0.54170	7.516000	0.81772	2.785000	0.95823	0.655000	0.94253	GGA		0.338	EYA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000313788.2	NM_000503, NM_172060		T	72129213	C	T	72129213	3	4	659	1	0	0	0	0	1	0	0	0	5330	661	23	1	616	1	EYA1	8	72129213	Missense_Mutation	SNP	C	TCGA-KN-8423-01A-11D-2310-10	19396070	72129213	74234809	24	40883										
C9orf150	286343	mdanderson.org	37	chr9	12775889	12775889	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	gcggcggcggctgcagtagcAgcagcagctactgcagcttc	15	13	0	0	rs3750501	byFrequency	TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr9:12775889A>G	ENST00000319264.3	+	1	870	c.175A>G	c.(175-177)Agc>Ggc	p.S59G	LURAP1L_ENST00000489107.1_3'UTR|RP11-3L8.3_ENST00000417638.1_RNA	NM_203403.1	NP_981948.1	Q8IV03	LUR1L_HUMAN	leucine rich adaptor protein 1-like	62	Gly-rich.																ctgcagtagcagcagcagcTA	0.697													A|||	3412	0.68131	0.4947	0.8372	5008	,	,		10003	0.7679		0.8241	False		,,,				2504	0.5869															0													6	5	5					9																	12775889		1946	3629	5575	SO:0001583	missense	286343			AK095824	CCDS6473.1	9p22.3	2012-02-01	2012-02-01	2012-02-01	ENSG00000153714	ENSG00000153714			31452	protein-coding gene	gene with protein product	"similar to DNA segment, Chr 4, Brigham & Womens Genetics 0951 expressed"		"chromosome 9 open reading frame 150"	C9orf150		12766061	Standard	NM_203403		Approved	MGC46502, FLJ38505, bA3L8.2	uc003zkw.3	Q8IV03	OTTHUMG00000019557	ENST00000319264.3:c.175A>G	9.37:g.12775889A>G	ENSP00000321026:p.Ser59Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VZX7|Q8N923|Q8NCG2	Missense_Mutation	SNP	ENST00000319264.3	37	CCDS6473.1	1604	0.7344322344322345	244	0.4959349593495935	298	0.8232044198895028	440	0.7692307692307693	622	0.820580474934037	A	10.39	1.336728	0.24253	.	.	ENSG00000153714	ENST00000319264	T	0.48522	0.81	5.19	1.22	0.21188	.	1.487020	0.03885	N	0.277674	T	0.00012	0.0000	N	0.22421	0.69	0.44117	P	0.003106000000000053	B	0.09022	0.002	B	0.09377	0.004	T	0.38156	-0.9674	9	0.12430	T	0.62	.	4.2654	0.10761	0.5757:0.1693:0.255:0.0	rs3750501	62	Q8IV03	CI150_HUMAN	G	59	ENSP00000321026:S59G	ENSP00000321026:S59G	S	+	1	0	C9orf150	12765889	0.840000	0.29493	0.997000	0.53966	0.601000	0.36947	1.087000	0.30865	0.824000	0.34613	-0.381000	0.06696	AGC		0.697	LURAP1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051730.1	NM_203403		G	12775889	A	G	12775889	3	3	659	1	0	0	0	0	1	0	0	0	2464	188	7	3	177	3	C9orf150	9	12775889	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10		12775889	128437542	25	40884										
SYK	6850	bcgsc.ca	37	chr9	93650875	93650875	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	ctgcagggtgtccaagagagAtgtacgatctcatgaatctg	12	8	2	3			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr9:93650875A>G	ENST00000375754.4	+	13	1949	c.1801A>G	c.(1801-1803)Atg>Gtg	p.M601V	SYK_ENST00000375747.1_Missense_Mutation_p.M578V|SYK_ENST00000375746.1_Missense_Mutation_p.M601V|SYK_ENST00000375751.4_Missense_Mutation_p.M578V	NM_003177.5	NP_003168.2	P43405	KSYK_HUMAN	spleen tyrosine kinase	601	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of JUN kinase activity (GO:0007257)|adaptive immune response (GO:0002250)|angiogenesis (GO:0001525)|B cell receptor signaling pathway (GO:0050853)|beta selection (GO:0043366)|blood coagulation (GO:0007596)|blood vessel morphogenesis (GO:0048514)|cell proliferation (GO:0008283)|cellular response to molecule of fungal origin (GO:0071226)|defense response to bacterium (GO:0042742)|enzyme linked receptor protein signaling pathway (GO:0007167)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|integrin-mediated signaling pathway (GO:0007229)|leukocyte activation involved in immune response (GO:0002366)|leukocyte cell-cell adhesion (GO:0007159)|leukotriene biosynthetic process (GO:0019370)|lymph vessel development (GO:0001945)|macrophage activation involved in immune response (GO:0002281)|neutrophil activation involved in immune response (GO:0002283)|neutrophil chemotaxis (GO:0030593)|organ morphogenesis (GO:0009887)|platelet activation (GO:0030168)|positive regulation of alpha-beta T cell differentiation (GO:0046638)|positive regulation of alpha-beta T cell proliferation (GO:0046641)|positive regulation of B cell differentiation (GO:0045579)|positive regulation of bone resorption (GO:0045780)|positive regulation of calcium-mediated signaling (GO:0050850)|positive regulation of cell adhesion mediated by integrin (GO:0033630)|positive regulation of cytokine secretion (GO:0050715)|positive regulation of gamma-delta T cell differentiation (GO:0045588)|positive regulation of granulocyte macrophage colony-stimulating factor biosynthetic process (GO:0045425)|positive regulation of interleukin-3 biosynthetic process (GO:0045401)|positive regulation of mast cell degranulation (GO:0043306)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of arachidonic acid secretion (GO:0090237)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of neutrophil degranulation (GO:0043313)|regulation of phagocytosis (GO:0050764)|regulation of platelet activation (GO:0010543)|regulation of platelet aggregation (GO:0090330)|regulation of superoxide anion generation (GO:0032928)|serotonin secretion by platelet (GO:0002554)|viral process (GO:0016032)	B cell receptor complex (GO:0019815)|cytosol (GO:0005829)|early phagosome (GO:0032009)|plasma membrane (GO:0005886)|T cell receptor complex (GO:0042101)	ATP binding (GO:0005524)|integrin binding (GO:0005178)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein kinase activity (GO:0004672)|protein tyrosine kinase activity (GO:0004713)|receptor signaling protein tyrosine kinase activity (GO:0004716)			breast(2)|endometrium(1)|kidney(3)|large_intestine(3)|lung(9)|ovary(1)|prostate(3)|skin(2)|stomach(2)	26						TCCAAGAGAGATGTACGATCT	0.488			T	"ETV6, ITK"	"MDS, peripheral T-cell lymphoma"																																		Dom	yes		9	9q22	6850	spleen tyrosine kinase		L	0													126	102	110					9																	93650875		2203	4300	6503	SO:0001583	missense	6850			L28824	CCDS6688.1, CCDS47992.1	9q22	2013-02-14			ENSG00000165025	ENSG00000165025		"SH2 domain containing"	11491	protein-coding gene	gene with protein product		600085				8082894, 1423621	Standard	XM_005252147		Approved		uc004aqz.3	P43405	OTTHUMG00000020200	ENST00000375754.4:c.1801A>G	9.37:g.93650875A>G	ENSP00000364907:p.Met601Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000375754.4	37	CCDS6688.1	.	.	.	.	.	.	.	.	.	.	A	9.236	1.037182	0.19669	.	.	ENSG00000165025	ENST00000375754;ENST00000375751;ENST00000375747;ENST00000375746	T;T;T;T	0.80738	-1.41;-1.41;-1.41;-1.41	5.22	4.08	0.47627	Serine-threonine/tyrosine-protein kinase (2);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.084773	0.85682	D	0.000000	T	0.49490	0.1560	N	0.01473	-0.845	0.58432	D	0.999994	B;B	0.13594	0.004;0.008	B;B	0.15870	0.008;0.014	T	0.49476	-0.8936	10	0.10111	T	0.7	.	6.6524	0.22969	0.8219:0.0:0.1781:0.0	.	578;601	P43405-2;P43405	.;KSYK_HUMAN	V	601;578;578;601	ENSP00000364907:M601V;ENSP00000364904:M578V;ENSP00000364899:M578V;ENSP00000364898:M601V	ENSP00000364898:M601V	M	+	1	0	SYK	92690696	1.000000	0.71417	1.000000	0.80357	0.705000	0.40729	2.699000	0.47077	2.082000	0.62665	0.455000	0.32223	ATG		0.488	SYK-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000053018.1			G	93650875	A	G	93650875	3	3	659	1	0	0	0	0	1	0	0	0	15450	333	12	3	1847	3	SYK	9	93650875	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10	80874986	93650875	47562556	26	40885										
RC3H2	54542	broad.mit.edu	37	chr9	125620200	125620200	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	aagtaattaaaacctttcttAcatccgcacgaaagtctaca	4	10	2	0			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr9:125620200A>G	ENST00000373670.1	-	12	3055		c.e12+1		RC3H2_ENST00000357244.2_Splice_Site|RC3H2_ENST00000423239.2_Splice_Site			Q9HBD1	RC3H2_HUMAN	ring finger and CCCH-type domains 2						B cell homeostasis (GO:0001782)|limb development (GO:0060173)|lung alveolus development (GO:0048286)|lymph node development (GO:0048535)|multicellular organism growth (GO:0035264)|positive regulation of NIK/NF-kappaB signaling (GO:1901224)|post-embryonic development (GO:0009791)|posttranscriptional regulation of gene expression (GO:0010608)|protein polyubiquitination (GO:0000209)|spleen development (GO:0048536)|T cell homeostasis (GO:0043029)|T cell proliferation (GO:0042098)|T follicular helper cell differentiation (GO:0061470)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	DNA binding (GO:0003677)|mRNA binding (GO:0003729)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(3)|central_nervous_system(1)|endometrium(6)|large_intestine(4)|liver(1)|lung(11)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	33						AACCTTTCTTACATCCGCACG	0.423																																																0													114	115	115					9																	125620200		1979	4148	6127	SO:0001630	splice_region_variant	54542			AK000308	CCDS43874.1, CCDS48014.1	9q34	2013-01-18	2010-09-15	2007-02-06	ENSG00000056586	ENSG00000056586		"RING-type (C3HC4) zinc fingers", "Zinc fingers, CCCH-type domain containing"	21461	protein-coding gene	gene with protein product		615231	"membrane associated DNA binding protein", "ring finger and CCCH-type zinc finger domains 2"	MNAB		10938276	Standard	NM_001100588		Approved	FLJ20301, FLJ20713, RNF164	uc010mwc.1	Q9HBD1	OTTHUMG00000020632	ENST00000373670.1:c.2454+1T>C	9.37:g.125620200A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q4VXB1|Q5JPD7|Q86ST6|Q8N3D6|Q96F27|Q9H5J2|Q9HBD2|Q9NWN9|Q9NXE1	Splice_Site	SNP	ENST00000373670.1	37	CCDS43874.1	.	.	.	.	.	.	.	.	.	.	A	17.09	3.301389	0.60195	.	.	ENSG00000056586	ENST00000373670;ENST00000357244;ENST00000373663;ENST00000423239	.	.	.	5.79	5.79	0.91817	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.8629	0.63571	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	RC3H2	124660021	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	6.339000	0.72969	2.206000	0.71126	0.533000	0.62120	.		0.423	RC3H2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053966.1	NM_018835	Intron	G	125620200	A	G	125620200	5	3	659	1	0	0	0	0	0	0	1	0	13180	405	14	3	1233	3	RC3H2	9	125620200	Splice_Site	SNP	A	TCGA-KN-8423-01A-11D-2310-10	31969325	125620200	15593231	27	40886										
NMT2	9397	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr10	15172216	15172216	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	agatcccttccaggttcactCttctagtgatctctcggatt	7	12	4	2			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr10:15172216C>T	ENST00000378165.4	-	7	895	c.815G>A	c.(814-816)aGa>aAa	p.R272K	RPP38_ENST00000451677.1_Intron|NMT2_ENST00000535341.1_Missense_Mutation_p.R259K|NMT2_ENST00000540259.1_Missense_Mutation_p.R84K|NMT2_ENST00000378150.1_Missense_Mutation_p.R259K	NM_004808.2	NP_004799.1	O60551	NMT2_HUMAN	N-myristoyltransferase 2	272					intracellular transport of virus (GO:0075733)|N-terminal protein myristoylation (GO:0006499)|phototransduction, visible light (GO:0007603)|protein lipoylation (GO:0009249)|regulation of rhodopsin mediated signaling pathway (GO:0022400)|rhodopsin mediated signaling pathway (GO:0016056)|viral process (GO:0016032)|viral protein processing (GO:0019082)|virion assembly (GO:0019068)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	catalytic activity (GO:0003824)|glycylpeptide N-tetradecanoyltransferase activity (GO:0004379)			breast(3)|endometrium(1)|kidney(4)|large_intestine(3)|lung(6)|ovary(1)|upper_aerodigestive_tract(3)	21						CAGGTTCACTCTTCTAGTGAT	0.468																																					Melanoma(117;1345 1645 4130 12688 30625)											0													119	111	114					10																	15172216		2203	4300	6503	SO:0001583	missense	9397			AF043325	CCDS7109.1	10p13	2006-07-11			ENSG00000152465	ENSG00000152465			7858	protein-coding gene	gene with protein product		603801				9506952	Standard	NM_004808		Approved		uc001inz.1	O60551	OTTHUMG00000017723	ENST00000378165.4:c.815G>A	10.37:g.15172216C>T	ENSP00000367407:p.Arg272Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ49|Q53Y38|Q5VUC8|Q9BRB4	Missense_Mutation	SNP	ENST00000378165.4	37	CCDS7109.1	.	.	.	.	.	.	.	.	.	.	C	21.7	4.193219	0.78902	.	.	ENSG00000152465	ENST00000378165;ENST00000378150;ENST00000378143;ENST00000540259;ENST00000535341	T	0.56611	0.45	5.57	5.57	0.84162	Acyl-CoA N-acyltransferase (2);Myristoyl-CoA:protein N-myristoyltransferase, N-terminal (1);	0.000000	0.85682	D	0.000000	T	0.71204	0.3312	M	0.94142	3.5	0.80722	D	1	B;B;B	0.22211	0.066;0.021;0.066	B;B;B	0.32090	0.14;0.063;0.14	T	0.74160	-0.3755	10	0.87932	D	0	-25.6325	19.98	0.97322	0.0:1.0:0.0:0.0	.	272;259;272	B2RCF3;Q5VUC6;O60551	.;.;NMT2_HUMAN	K	272;259;303;84;259	ENSP00000367407:R272K	ENSP00000367385:R303K	R	-	2	0	NMT2	15212222	1.000000	0.71417	1.000000	0.80357	0.464000	0.32679	7.776000	0.85560	2.808000	0.96608	0.650000	0.86243	AGA		0.468	NMT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046958.2	NM_004808		T	15172216	C	T	15172216	3	4	659	1	0	0	0	0	1	0	0	0	10511	913	32	2	705	2	NMT2	10	15172216	Missense_Mutation	SNP	C	TCGA-KN-8423-01A-11D-2310-10		15172216	120362531	28	40887										
FAM171A1	221061	bcgsc.ca	37	chr10	15254967	15254967	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	ctcccgtttctgccaggggcTtttcttgtcttctccttggt	9	13	4	0			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr10:15254967T>C	ENST00000378116.4	-	8	2626	c.2620A>G	c.(2620-2622)Agc>Ggc	p.S874G	FAM171A1_ENST00000477161.1_5'Flank	NM_001010924.1	NP_001010924.1	Q5VUB5	F1711_HUMAN	family with sequence similarity 171, member A1	874						extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				breast(6)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(9)|lung(20)|ovary(3)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	52						TGCCAGGGGCTTTTCTTGTCT	0.527																																																0													145	143	144					10																	15254967		2203	4300	6503	SO:0001583	missense	221061			AK022946	CCDS31154.1	10p13	2008-06-16	2008-06-16	2008-06-16	ENSG00000148468	ENSG00000148468			23522	protein-coding gene	gene with protein product			"chromosome 10 open reading frame 38"	C10orf38			Standard	NM_001010924		Approved	FLJ12884	uc001iob.3	Q5VUB5	OTTHUMG00000017732	ENST00000378116.4:c.2620A>G	10.37:g.15254967T>C	ENSP00000367356:p.Ser874Gly	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRT9|Q32M49|Q8N4I0	Missense_Mutation	SNP	ENST00000378116.4	37	CCDS31154.1	.	.	.	.	.	.	.	.	.	.	T	20.8	4.045416	0.75846	.	.	ENSG00000148468	ENST00000378116;ENST00000396781	T	0.40225	1.04	5.1	5.1	0.69264	.	0.000000	0.85682	D	0.000000	T	0.64778	0.2629	M	0.76328	2.33	0.80722	D	1	D	0.76494	0.999	D	0.83275	0.996	T	0.69221	-0.5202	10	0.72032	D	0.01	-27.741	15.0682	0.72014	0.0:0.0:0.0:1.0	.	874	Q5VUB5	F1711_HUMAN	G	874;873	ENSP00000367356:S874G	ENSP00000367356:S874G	S	-	1	0	FAM171A1	15294973	1.000000	0.71417	0.993000	0.49108	0.976000	0.68499	7.843000	0.86859	2.137000	0.66172	0.460000	0.39030	AGC		0.527	FAM171A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046984.1	XM_167709		C	15254967	T	C	15254967	3	2	659	1	0	0	0	0	1	0	0	0	5494	1609	56	3	56	3	FAM171A1	10	15254967	Missense_Mutation	SNP	T	TCGA-KN-8423-01A-11D-2310-10	82751	15254967	120279780	29	40888										
GPRIN2	9721	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	46998903	46998903	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	gagctccagccgccccgagcCgggtccctgggcacccctga	13	19	0	1	rs201821942		TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr10:46998903C>T	ENST00000374317.1	+	3	296	c.23C>T	c.(22-24)cCg>cTg	p.P8L	GPRIN2_ENST00000374314.4_Missense_Mutation_p.P8L	NM_014696.3	NP_055511.2	O60269	GRIN2_HUMAN	G protein regulated inducer of neurite outgrowth 2	8										breast(2)|central_nervous_system(1)|endometrium(6)|kidney(1)|large_intestine(1)|lung(6)|prostate(1)	18						CGCCCCGAGCCGGGTCCCTGG	0.642													C|||	1	0.000199681	0.0	0.0	5008	,	,		32033	0.0		0.001	False		,,,				2504	0.0															0													52	71	65					10																	46998903		2183	4269	6452	SO:0001583	missense	9721			BC011672	CCDS73101.1	10q11.22	2006-08-24	2006-08-24	2006-08-24	ENSG00000204175	ENSG00000204175			23730	protein-coding gene	gene with protein product		611240	"KIAA0514"	KIAA0514		9628581	Standard	NM_014696		Approved	MGC15171	uc001jec.3	O60269	OTTHUMG00000018107	ENST00000374317.1:c.23C>T	10.37:g.46998903C>T	ENSP00000363436:p.Pro8Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SVF0	Missense_Mutation	SNP	ENST00000374317.1	37	CCDS31192.1	.	.	.	.	.	.	.	.	.	.	C	1.482	-0.557032	0.03967	.	.	ENSG00000204175	ENST00000374317;ENST00000374314	T;T	0.03745	3.82;3.82	5.33	2.39	0.29439	.	0.314820	0.23345	N	0.049188	T	0.02688	0.0081	L	0.38838	1.175	0.28702	N	0.904026	P	0.41420	0.749	B	0.35770	0.21	T	0.39035	-0.9633	10	0.11182	T	0.66	-6.6511	8.5351	0.33357	0.3107:0.5393:0.15:0.0	.	8	O60269	GRIN2_HUMAN	L	8	ENSP00000363436:P8L;ENSP00000363433:P8L	ENSP00000363433:P8L	P	+	2	0	GPRIN2	46418909	0.016000	0.18221	0.062000	0.19696	0.207000	0.24258	0.730000	0.26043	0.303000	0.22785	-0.181000	0.13052	CCG		0.642	GPRIN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047836.1	NM_014696		T	46998903	C	T	46998903	3	4	659	1	0	0	0	0	1	0	0	0	6737	652	23	1	25	1	GPRIN2	10	46998903	Missense_Mutation	SNP	C	TCGA-KN-8423-01A-11D-2310-10	31743936	46998903	88535844	30	40889										
PRLHR	2834	mdanderson.org	37	chr10	120353899	120353899	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	ggcagccagcagacggcgaaCaccaccacgatcaccaccag	10	17	1	1	rs116062593	byFrequency	TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr10:120353899C>A	ENST00000369169.1	-	1	857	c.858G>T	c.(856-858)gtG>gtT	p.V286V	PRLHR_ENST00000239032.2_Silent_p.V286V			P49683	PRLHR_HUMAN	prolactin releasing hormone receptor	286					feeding behavior (GO:0007631)|female pregnancy (GO:0007565)|G-protein coupled receptor signaling pathway (GO:0007186)|hormone metabolic process (GO:0042445)|neuropeptide signaling pathway (GO:0007218)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|neuropeptide receptor activity (GO:0008188)|neuropeptide Y receptor activity (GO:0004983)			large_intestine(2)|lung(8)|ovary(1)|skin(1)	12		Colorectal(252;0.0429)|Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0166)		AGACGGCGAACACCACCACGA	0.692													C|||	71	0.0141773	0.0144	0.0058	5008	,	,		15832	0.0		0.0139	False		,,,				2504	0.0348															0								C		41,4361		0,41,2160	30	33	32		858	2.4	1	10	dbSNP_132	32	115,8467		0,115,4176	no	coding-synonymous	PRLHR	NM_004248.2		0,156,6336	AA,AC,CC		1.34,0.9314,1.2015		286/371	120353899	156,12828	2201	4291	6492	SO:0001819	synonymous_variant	2834			AB048946	CCDS7606.1	10q25.3-q26	2014-02-21	2005-11-24	2005-11-24	ENSG00000119973	ENSG00000119973		"GPCR / Class A : RF amide peptide receptors"	4464	protein-coding gene	gene with protein product		600895	"G protein-coupled receptor 10"	GPR10		8666380, 15885496	Standard	NM_004248		Approved	PrRPR	uc001ldp.1	P49683	OTTHUMG00000019136	ENST00000369169.1:c.858G>T	10.37:g.120353899C>A		Somatic		WXS	Illumina HiSeq	Phase_I	O75194|Q502U8|Q5VXR9	Silent	SNP	ENST00000369169.1	37	CCDS7606.1																																																																																				0.692	PRLHR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050610.1	NM_004248		A	120353899	C	A	120353899	2	1	659	1	0	0	0	0	0	0	0	1	12540	465	17	4		4	PRLHR	10	120353899	Silent	SNP	C	TCGA-KN-8423-01A-11D-2310-10	73354996	120353899	15180848	31	40890										
PAOX	196743	ucsc.edu;bcgsc.ca	37	chr10	135193598	135193598	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	agtacgggctgctgggggagAaggagctgtcccaggagaac	18	8	0	2			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr10:135193598A>G	ENST00000278060.5	+	2	360	c.277A>G	c.(277-279)Aag>Gag	p.K93E	AL360181.1_ENST00000597657.1_5'Flank|PAOX_ENST00000480071.2_Missense_Mutation_p.K93E|PAOX_ENST00000357296.3_Missense_Mutation_p.K93E|PAOX_ENST00000368539.4_Intron|PAOX_ENST00000368535.2_3'UTR	NM_152911.2	NP_690875.1	Q6QHF9	PAOX_HUMAN	polyamine oxidase (exo-N4-amino)	231					cellular nitrogen compound metabolic process (GO:0034641)|oxidation-reduction process (GO:0055114)|polyamine biosynthetic process (GO:0006596)|polyamine catabolic process (GO:0006598)|polyamine metabolic process (GO:0006595)|positive regulation of spermidine biosynthetic process (GO:1901307)|putrescine biosynthetic process (GO:0009446)|putrescine catabolic process (GO:0009447)|small molecule metabolic process (GO:0044281)|spermidine catabolic process (GO:0046203)|spermine catabolic process (GO:0046208)|xenobiotic metabolic process (GO:0006805)	peroxisomal matrix (GO:0005782)	N(1),N(12)-diacetylspermine:oxygen oxidoreductase (3-acetamidopropanal-forming) activity (GO:0052899)|N1-acetylspermidine:oxygen oxidoreductase (3-acetamidopropanal-forming) activity (GO:0052904)|N1-acetylspermine:oxygen oxidoreductase (3-acetamidopropanal-forming) activity (GO:0052903)|polyamine oxidase activity (GO:0046592)|receptor binding (GO:0005102)|spermidine:oxygen oxidoreductase (3-aminopropanal-forming) activity (GO:0052902)|spermine:oxygen oxidoreductase (spermidine-forming) activity (GO:0052901)			cervix(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(13)|ovary(1)|urinary_tract(2)	23		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)		GCTGGGGGAGAAGGAGCTGTC	0.701																																																0													30	33	32					10																	135193598		2192	4298	6490	SO:0001583	missense	196743			BC032778	CCDS7682.1, CCDS7683.1, CCDS7684.1	10q26.3	2003-11-13			ENSG00000148832	ENSG00000148832			20837	protein-coding gene	gene with protein product		615853				12660232	Standard	NM_207127		Approved	PAO	uc001lmv.3	Q6QHF9	OTTHUMG00000019318	ENST00000278060.5:c.277A>G	10.37:g.135193598A>G	ENSP00000278060:p.Lys93Glu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DXI6|Q5VWY0|Q6QHF5|Q6QHF6|Q6QHF7|Q6QHF8|Q6QHG0|Q6QHG1|Q6QHG2|Q6QHG3|Q6QHG4|Q6QHG5|Q6QHG6|Q86WP9|Q8N555|Q8NCX3	Missense_Mutation	SNP	ENST00000278060.5	37	CCDS7683.1	.	.	.	.	.	.	.	.	.	.	A	7.816	0.716827	0.15306	.	.	ENSG00000148832	ENST00000368542;ENST00000278060;ENST00000357296;ENST00000480071	D;D;D	0.92149	-2.98;-2.98;-2.98	4.88	3.7	0.42460	.	0.308493	0.34088	N	0.004266	D	0.82917	0.5141	N	0.25094	0.71	0.80722	D	1	B;B;B	0.22683	0.017;0.073;0.003	B;B;B	0.31390	0.021;0.129;0.007	T	0.69209	-0.5205	10	0.08179	T	0.78	-25.1848	4.8478	0.13523	0.7108:0.1921:0.0971:0.0	.	93;93;93	Q6QHF9-5;Q6QHF9-4;Q6QHF9-2	.;.;.	E	93	ENSP00000278060:K93E;ENSP00000349847:K93E;ENSP00000435514:K93E	ENSP00000278060:K93E	K	+	1	0	PAOX	135043588	0.026000	0.19158	0.952000	0.39060	0.536000	0.34869	1.138000	0.31491	0.675000	0.31264	0.460000	0.39030	AAG		0.701	PAOX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051146.2	NM_152911		G	135193598	A	G	135193598	3	3	659	1	0	0	0	0	1	0	0	0	11430	247	9	3	283	3	PAOX	10	135193598	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10	14839699	135193598	341149	32	40891										
MUC6	4588	mdanderson.org	37	chr11	1016606	1016606	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	ctggtcccactggtggtcacTgtcattggtggggctgtgtg	16	9	2	0	rs148905794		TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr11:1016606T>C	ENST00000421673.2	-	31	6245	c.6195A>G	c.(6193-6195)acA>acG	p.T2065T		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	2065	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		TGGTGGTCACTGTCATTGGTG	0.572																																																0													242	260	254					11																	1016606		2181	4269	6450	SO:0001819	synonymous_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.6195A>G	11.37:g.1016606T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Silent	SNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.572	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		C	1016606	T	C	1016606	2	2	659	1	0	0	0	0	0	0	0	1	9987	1567	55	3		3	MUC6	11	1016606	Silent	SNP	T	TCGA-KN-8423-01A-11D-2310-10		1016606	133989910	33	40892										
MUC2	4583	broad.mit.edu	37	chr11	1092849	1092849	+	Frame_Shift_Del	DEL	G	G	-													0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	ccaacacccaccggcacacaGaccccaacaacgacacccat							TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr11:1092849delG	ENST00000441003.2	+	30	4695	c.4668delG	c.(4666-4668)cagfs	p.Q1556fs	MUC2_ENST00000361558.6_Intron|MUC2_ENST00000359061.5_Frame_Shift_Del_p.Q1557fs|MUC2_ENST00000333592.6_5'Flank	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	CCGGCACACAGACCCCAACAA	0.632																																																0													102	135	123					11																	1092849		1891	3510	5401	SO:0001589	frameshift_variant	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4668delG	11.37:g.1092849delG	ENSP00000415183:p.Gln1556fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Frame_Shift_Del	DEL	ENST00000441003.2	37																																																																																					0.632	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		-	1092849	G	-	1092849	7	5	659	1	0	1	0	1	0	0	0	0	9982	933	33	0	4786	0	MUC2	11	1092849	Frame_Shift_Del	DEL	G	TCGA-KN-8423-01A-11D-2310-10	76243	1092849	133913667	34	40893										
KRTAP5-8	57830	mdanderson.org	37	chr11	71249605	71249605	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	tgctgccagtccagctgctgCaagccctgctgttcccagtc	10	16	0	0			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr11:71249605C>T	ENST00000398534.3	+	1	535	c.504C>T	c.(502-504)tgC>tgT	p.C168C		NM_021046.2	NP_066384.2	O75690	KRA58_HUMAN	keratin associated protein 5-8	168	9 X 4 AA repeats of C-C-X-P.					keratin filament (GO:0045095)	structural constituent of epidermis (GO:0030280)			cervix(1)|endometrium(1)|lung(2)|skin(1)|stomach(1)	6						CCAGCTGCTGCAAGCCCTGCT	0.592																																																0													134	144	141					11																	71249605		2200	4294	6494	SO:0001819	synonymous_variant	57830			AB126077	CCDS41683.1	11q13.4	2008-02-05			ENSG00000241233	ENSG00000241233		"Keratin associated proteins"	23603	protein-coding gene	gene with protein product						15144888	Standard	NM_021046		Approved	KRTAP5.8, UHSKerB, KRTAP5-2	uc001oqr.1	O75690	OTTHUMG00000057571	ENST00000398534.3:c.504C>T	11.37:g.71249605C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6L8G7|Q6UTX6	Silent	SNP	ENST00000398534.3	37	CCDS41683.1																																																																																				0.592	KRTAP5-8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000127954.1	NM_021046		T	71249605	C	T	71249605	2	4	659	1	0	0	0	0	0	0	0	1	8574	718	25	2		2	KRTAP5-8	11	71249605	Silent	SNP	C	TCGA-KN-8423-01A-11D-2310-10	70156756	71249605	63756911	35	40894										
KIRREL3	84623	broad.mit.edu	37	chr11	126396466	126396466	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	gcccacacccagagccaagcCgtccttgatccacagaacga	8	17	0	3			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr11:126396466C>T	ENST00000525144.2	-	3	499	c.250G>A	c.(250-252)Ggc>Agc	p.G84S	KIRREL3_ENST00000529097.2_Missense_Mutation_p.G84S|KIRREL3_ENST00000525704.2_Missense_Mutation_p.G84S	NM_032531.3	NP_115920.1	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 (Drosophila)	84	Ig-like C2-type 1.				hemopoiesis (GO:0030097)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				central_nervous_system(1)|endometrium(5)|large_intestine(11)|lung(8)|ovary(3)|prostate(1)	29	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)		AGAGCCAAGCCGTCCTTGATC	0.617																																																0													58	65	63					11																	126396466		2055	4185	6240	SO:0001583	missense	84623			AB058770	CCDS53723.1, CCDS55796.1, CCDS73413.1	11q24	2013-01-29			ENSG00000149571	ENSG00000149571		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	23204	protein-coding gene	gene with protein product		607761				12424224, 11347906	Standard	NM_032531		Approved	NEPH2, KIAA1867, KIRRE	uc001qea.3	Q8IZU9	OTTHUMG00000165831	ENST00000525144.2:c.250G>A	11.37:g.126396466C>T	ENSP00000435466:p.Gly84Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MIJ7|Q6UWJ9|Q6UWL5|Q96JG0	Missense_Mutation	SNP	ENST00000525144.2	37	CCDS53723.1	.	.	.	.	.	.	.	.	.	.	C	33	5.216205	0.95104	.	.	ENSG00000149571	ENST00000525144;ENST00000529097;ENST00000525704	T;T;T	0.37235	1.21;1.21;1.21	4.57	4.57	0.56435	Immunoglobulin subtype (1);Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	T	0.67804	0.2932	M	0.90425	3.115	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.996;0.998;0.997	T	0.76558	-0.2915	10	0.72032	D	0.01	-14.5136	17.5449	0.87858	0.0:1.0:0.0:0.0	.	84;84;84	Q8IZU9-2;E9PRX9;Q8IZU9	.;.;KIRR3_HUMAN	S	84	ENSP00000435466:G84S;ENSP00000434081:G84S;ENSP00000435094:G84S	ENSP00000435466:G84S	G	-	1	0	KIRREL3	125901676	1.000000	0.71417	0.965000	0.40720	0.921000	0.55340	7.289000	0.78701	2.343000	0.79666	0.655000	0.94253	GGC		0.617	KIRREL3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000386479.2	NM_032531		T	126396466	C	T	126396466	3	4	659	1	0	0	0	0	1	0	0	0	8333	652	23	1	2253	1	KIRREL3	11	126396466	Missense_Mutation	SNP	C	TCGA-KN-8423-01A-11D-2310-10	55146861	126396466	8610050	36	40895										
RNF10	9921	hgsc.bcm.edu	37	chr12	120972755	120972755	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	tcggcggggccagccggcgaGtctaaacccaagagcggtaa	15	12	1	1	rs374593114		TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr12:120972755G>A	ENST00000325954.4	+	1	602	c.141G>A	c.(139-141)gaG>gaA	p.E47E	RNF10_ENST00000413266.2_Silent_p.E47E	NM_014868.4	NP_055683.3	Q8N5U6	RNF10_HUMAN	ring finger protein 10	47	Ser-rich.				negative regulation of Schwann cell proliferation (GO:0010626)|positive regulation of myelination (GO:0031643)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein autoubiquitination (GO:0051865)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	transcription regulatory region DNA binding (GO:0044212)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|endometrium(4)|kidney(3)|large_intestine(5)|lung(11)|ovary(2)|upper_aerodigestive_tract(1)	27	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CAGCCGGCGAGTCTAAACCCA	0.682																																																0								G		0,4224		0,0,2112	10	15	13		141	5.1	1	12		13	1,8351		0,1,4175	no	coding-synonymous	RNF10	NM_014868.4		0,1,6287	AA,AG,GG		0.012,0.0,0.0080		47/812	120972755	1,12575	2112	4176	6288	SO:0001819	synonymous_variant	9921			AB027196	CCDS9201.1	12q23-q24	2013-01-09			ENSG00000022840	ENSG00000022840		"RING-type (C3HC4) zinc fingers"	10055	protein-coding gene	gene with protein product							Standard	NM_014868		Approved	KIAA0262, RIE2	uc001typ.4	Q8N5U6	OTTHUMG00000168999	ENST00000325954.4:c.141G>A	12.37:g.120972755G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q92550|Q9NPP8|Q9ULW4	Silent	SNP	ENST00000325954.4	37	CCDS9201.1																																																																																				0.682	RNF10-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000401898.4			A	120972755	G	A	120972755	2	1	659	1	0	0	0	0	0	0	0	1	13435	1020	36	2		2	RNF10	12	120972755	Silent	SNP	G	TCGA-KN-8423-01A-11D-2310-10		120972755	12879140	37	40896										
EP400	57634	mdanderson.org	37	chr12	132547141	132547141	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	cagcagcagcagcagcaacaGcagcagcagcaacagacgac	11	14	0	1			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr12:132547141G>A	ENST00000333577.4	+	48	8446	c.8337G>A	c.(8335-8337)caG>caA	p.Q2779Q	EP400_ENST00000389561.2_Silent_p.Q2743Q|EP400_ENST00000330386.6_Silent_p.Q2662Q|EP400_ENST00000389562.2_Silent_p.Q2742Q|EP400_ENST00000332482.4_Silent_p.Q2706Q			Q96L91	EP400_HUMAN	E1A binding protein p400	2779	Interaction with ZNF42. {ECO:0000250}.|Poly-Gln.				chromatin organization (GO:0006325)|histone H2A acetylation (GO:0043968)|histone H4 acetylation (GO:0043967)	NuA4 histone acetyltransferase complex (GO:0035267)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|Swr1 complex (GO:0000812)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|helicase activity (GO:0004386)	p.Q2742Q(2)		NS(1)|breast(6)|central_nervous_system(10)|cervix(1)|endometrium(21)|kidney(13)|large_intestine(25)|lung(56)|ovary(5)|prostate(8)|skin(6)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(3)	161	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)		agcagcaacagcagcagcagc	0.597																																																2	Substitution - coding silent(2)	kidney(2)											52	42	46					12																	132547141		2203	4300	6503	SO:0001819	synonymous_variant	57634			U80743	CCDS31929.1, CCDS31929.2	12q24.33	2008-02-01	2002-02-05	2002-02-08		ENSG00000183495			11958	protein-coding gene	gene with protein product		606265	"trinucleotide repeat containing 12"	TNRC12		9225980, 11509179	Standard	NM_015409		Approved	CAGH32, KIAA1498, P400, KIAA1818, DKFZP434I225	uc001ujn.3	Q96L91		ENST00000333577.4:c.8337G>A	12.37:g.132547141G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O15411|Q6P2F5|Q8N8Q7|Q8NE05|Q96JK7|Q9P230	Silent	SNP	ENST00000333577.4	37																																																																																					0.597	EP400-203	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_015409		A	132547141	G	A	132547141	2	1	659	1	0	0	0	0	0	0	0	1	5151	962	34	2		2	EP400	12	132547141	Silent	SNP	G	TCGA-KN-8423-01A-11D-2310-10	11574386	132547141	1304754	38	40897										
CSNK1A1L	122011	broad.mit.edu	37	chr13	37678605	37678605	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	tcctcaaagcgcagcccacgAcagtagttcaagtacatggc	9	13	2	0			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr13:37678605A>G	ENST00000379800.3	-	1	1198	c.789T>C	c.(787-789)tgT>tgC	p.C263C		NM_145203.5	NP_660204.2	Q8N752	KC1AL_HUMAN	casein kinase 1, alpha 1-like	263	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cell morphogenesis (GO:0000902)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|ribonucleoprotein complex (GO:0030529)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(3)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(10)|lung(11)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	37		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)		GCAGCCCACGACAGTAGTTCA	0.428																																																0													144	136	139					13																	37678605		2203	4300	6503	SO:0001819	synonymous_variant	122011			BC028723	CCDS9363.1	13q13.2	2008-02-05			ENSG00000180138	ENSG00000180138			20289	protein-coding gene	gene with protein product							Standard	NM_145203		Approved	MGC33182	uc001uwm.1	Q8N752	OTTHUMG00000016748	ENST00000379800.3:c.789T>C	13.37:g.37678605A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T2N2	Silent	SNP	ENST00000379800.3	37	CCDS9363.1																																																																																				0.428	CSNK1A1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044563.1	NM_145203		G	37678605	A	G	37678605	2	3	659	1	0	0	0	0	0	0	0	1	3953	273	10	3		3	CSNK1A1L	13	37678605	Silent	SNP	A	TCGA-KN-8423-01A-11D-2310-10		37678605	77491273	39	40898										
MYCBP2	23077	hgsc.bcm.edu;bcgsc.ca	37	chr13	77714270	77714270	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	ggctacggatgcgaagccccGcactgtccttggccacaaat	11	14	0	0			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr13:77714270G>A	ENST00000544440.2	-	51	7333	c.7316C>T	c.(7315-7317)gCg>gTg	p.A2439V	MYCBP2_ENST00000360084.5_5'UTR|MYCBP2_ENST00000357337.6_Missense_Mutation_p.A2439V|MYCBP2_ENST00000407578.2_Missense_Mutation_p.A2477V					MYC binding protein 2, E3 ubiquitin protein ligase											NS(1)|autonomic_ganglia(1)|breast(8)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(17)|lung(51)|ovary(5)|pancreas(2)|prostate(5)|skin(7)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	118		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		GCGAAGCCCCGCACTGTCCTT	0.418																																																0													69	67	68					13																	77714270		2203	4300	6503	SO:0001583	missense	23077			AB020723		13q22	2012-02-23	2012-02-23		ENSG00000005810	ENSG00000005810			23386	protein-coding gene	gene with protein product		610392	"MYC binding protein 2"			9689053, 15057823	Standard	NM_015057		Approved	PAM, KIAA0916, FLJ10106	uc021rks.1	O75592	OTTHUMG00000017105	ENST00000544440.2:c.7316C>T	13.37:g.77714270G>A	ENSP00000444596:p.Ala2439Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000544440.2	37		.	.	.	.	.	.	.	.	.	.	G	33	5.222024	0.95139	.	.	ENSG00000005810	ENST00000357337;ENST00000407578;ENST00000544440	T;T;T	0.34667	1.35;1.35;1.35	5.68	5.68	0.88126	.	0.057680	0.64402	N	0.000002	T	0.56529	0.1991	L	0.49778	1.585	0.80722	D	1	D	0.76494	0.999	D	0.68621	0.959	T	0.55704	-0.8099	10	0.66056	D	0.02	.	19.7837	0.96428	0.0:0.0:1.0:0.0	.	2439	O75592	MYCB2_HUMAN	V	2439;2477;2439	ENSP00000349892:A2439V;ENSP00000384288:A2477V;ENSP00000444596:A2439V	ENSP00000349892:A2439V	A	-	2	0	MYCBP2	76612271	1.000000	0.71417	0.989000	0.46669	0.839000	0.47603	9.476000	0.97823	2.673000	0.90976	0.650000	0.86243	GCG		0.418	MYCBP2-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000045326.1	NM_015057		A	77714270	G	A	77714270	3	1	659	1	0	0	0	0	1	0	0	0	10025	1087	38	1	6738	1	MYCBP2	13	77714270	Missense_Mutation	SNP	G	TCGA-KN-8423-01A-11D-2310-10	40035665	77714270	37455608	40	40899										
TPP2	7174	ucsc.edu	37	chr13	103288039	103288039	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	agaagtatttgctcaaggacAtggtattattcaggtattgt	10	4	2	1			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr13:103288039A>G	ENST00000376065.4	+	12	1532	c.1496A>G	c.(1495-1497)cAt>cGt	p.H499R	TPP2_ENST00000376052.3_Missense_Mutation_p.H499R	NM_003291.2	NP_003282.2	P29144	TPP2_HUMAN	tripeptidyl peptidase II	499	Peptidase S8.				antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|protein polyubiquitination (GO:0000209)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	aminopeptidase activity (GO:0004177)|endopeptidase activity (GO:0004175)|serine-type endopeptidase activity (GO:0004252)|tripeptidyl-peptidase activity (GO:0008240)			breast(2)|endometrium(5)|kidney(2)|large_intestine(12)|lung(21)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	52	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GCTCAAGGACATGGTATTATT	0.323																																																0													95	97	96					13																	103288039		2203	4300	6503	SO:0001583	missense	7174			M55169	CCDS9502.1	13q32-q33	2008-02-05			ENSG00000134900	ENSG00000134900	3.4.14.10		12016	protein-coding gene	gene with protein product		190470				1670990	Standard	NM_003291		Approved		uc001vpi.4	P29144	OTTHUMG00000017305	ENST00000376065.4:c.1496A>G	13.37:g.103288039A>G	ENSP00000365233:p.His499Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VZU8	Missense_Mutation	SNP	ENST00000376065.4	37	CCDS9502.1	.	.	.	.	.	.	.	.	.	.	A	17.29	3.352501	0.61293	.	.	ENSG00000134900	ENST00000376065;ENST00000376052	D;D	0.87809	-2.3;-2.3	5.83	5.83	0.93111	Peptidase S8/S53, subtilisin/kexin/sedolisin (3);	0.140126	0.64402	D	0.000004	D	0.82337	0.5015	L	0.39020	1.185	0.80722	D	1	P	0.38677	0.642	B	0.37550	0.253	T	0.81152	-0.1063	10	0.30078	T	0.28	.	16.2147	0.82198	1.0:0.0:0.0:0.0	.	499	P29144	TPP2_HUMAN	R	499	ENSP00000365233:H499R;ENSP00000365220:H499R	ENSP00000365220:H499R	H	+	2	0	TPP2	102086040	1.000000	0.71417	1.000000	0.80357	0.965000	0.64279	8.211000	0.89754	2.231000	0.72958	0.460000	0.39030	CAT		0.323	TPP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045683.2			G	103288039	A	G	103288039	3	3	659	1	0	0	0	0	1	0	0	0	16424	217	8	3	1542	3	TPP2	13	103288039	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10	25573769	103288039	11881839	41	40900										
ACIN1	22985	mdanderson.org	37	chr14	23548793	23548793	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	atgctgaacgagaacgtgaaCgtgaccttgatctggactct	11	9	2	5	rs80007670	byFrequency	TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr14:23548793C>T	ENST00000262710.1	-	6	2252	c.1925G>A	c.(1924-1926)cGt>cAt	p.R642H	ACIN1_ENST00000555352.1_5'Flank|ACIN1_ENST00000555053.1_Missense_Mutation_p.R642H|ACIN1_ENST00000605057.1_Missense_Mutation_p.R584H|ACIN1_ENST00000457657.1_Missense_Mutation_p.R602H	NM_001164814.1|NM_014977.3	NP_001158286.1|NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	642	Ser-rich.				apoptotic chromosome condensation (GO:0030263)|apoptotic process (GO:0006915)|ATP catabolic process (GO:0006200)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|erythrocyte differentiation (GO:0030218)|mRNA processing (GO:0006397)|negative regulation of mRNA splicing, via spliceosome (GO:0048025)|positive regulation of apoptotic process (GO:0043065)|positive regulation of monocyte differentiation (GO:0045657)|RNA splicing (GO:0008380)	ASAP complex (GO:0061574)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATPase activity (GO:0016887)|enzyme binding (GO:0019899)|nucleic acid binding (GO:0003676)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(6)|kidney(4)|large_intestine(9)|lung(10)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	37	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		AGAACGTGAACGTGACCTTGA	0.478																																																0								C	HIS/ARG,HIS/ARG,HIS/ARG	6,4400	6.2+/-15.9	0,6,2197	258	226	237		1925,1805,1925	3.2	0.8	14	dbSNP_131	237	24,8576	11.9+/-42.8	0,24,4276	yes	missense,missense,missense	ACIN1	NM_001164814.1,NM_001164815.1,NM_014977.3	29,29,29	0,30,6473	TT,TC,CC		0.2791,0.1362,0.2307	probably-damaging,probably-damaging,probably-damaging	642/1329,602/1302,642/1342	23548793	30,12976	2203	4300	6503	SO:0001583	missense	22985			AB014570	CCDS9587.1, CCDS53887.1, CCDS53888.1, CCDS53889.1, CCDS55905.1	14q11.2	2008-11-25	2004-03-31	2004-04-01	ENSG00000100813	ENSG00000100813			17066	protein-coding gene	gene with protein product	"functional spliceosome-associated protein 152"	604562	"apoptotic chromatin condensation inducer in the nucleus"	ACINUS		9734811, 10490026	Standard	NM_014977		Approved	KIAA0670, fSAP152	uc001wit.4	Q9UKV3	OTTHUMG00000028716	ENST00000262710.1:c.1925G>A	14.37:g.23548793C>T	ENSP00000262710:p.Arg642His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTT4|D3DS45|O75158|Q9UG91|Q9UKV1|Q9UKV2	Missense_Mutation	SNP	ENST00000262710.1	37	CCDS9587.1	9	0.004120879120879121	1	0.0020325203252032522	4	0.011049723756906077	0	0.0	4	0.005277044854881266	C	14.59	2.580077	0.46006	0.001362	0.002791	ENSG00000100813	ENST00000262710;ENST00000457657;ENST00000555053	T;T;T	0.29917	2.39;1.55;2.39	5.05	3.18	0.36537	.	0.000000	0.40144	N	0.001165	T	0.20170	0.0485	L	0.27053	0.805	0.26413	N	0.976231	D;D;D	0.67145	0.992;0.986;0.996	P;P;P	0.51582	0.674;0.475;0.572	T	0.04440	-1.0951	10	0.59425	D	0.04	-4.3727	7.238	0.26079	0.0:0.7908:0.0:0.2092	.	642;642;602	G3V3M7;Q9UKV3;E7EQT4	.;ACINU_HUMAN;.	H	642;602;642	ENSP00000262710:R642H;ENSP00000405677:R602H;ENSP00000451328:R642H	ENSP00000262710:R642H	R	-	2	0	ACIN1	22618633	0.984000	0.35163	0.847000	0.33407	0.542000	0.35054	0.703000	0.25646	0.669000	0.31146	-0.216000	0.12614	CGT		0.478	ACIN1-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000071707.3	NM_014977		T	23548793	C	T	23548793	3	4	659	1	0	0	0	0	1	0	0	0	142	536	19	1	2303	1	ACIN1	14	23548793	Missense_Mutation	SNP	C	TCGA-KN-8423-01A-11D-2310-10		23548793	83800747	42	40901										
MLH3	27030	broad.mit.edu	37	chr14	75513814	75513814	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	ctccttcagggtcataggacTttctctcaaactaggcatct	7	12	5	0			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr14:75513814T>C	ENST00000556740.1	-	1	2580	c.2545A>G	c.(2545-2547)Agt>Ggt	p.S849G	MLH3_ENST00000555671.1_5'UTR|MLH3_ENST00000355774.2_Missense_Mutation_p.S849G|MLH3_ENST00000238662.7_Missense_Mutation_p.S849G|MLH3_ENST00000380968.2_5'UTR|MLH3_ENST00000544985.1_5'Flank|MLH3_ENST00000556257.1_Missense_Mutation_p.S849G			Q9UHC1	MLH3_HUMAN	mutL homolog 3	849					ATP catabolic process (GO:0006200)|female meiosis I (GO:0007144)|male meiosis (GO:0007140)|mismatch repair (GO:0006298)|protein localization (GO:0008104)|reciprocal meiotic recombination (GO:0007131)|synaptonemal complex assembly (GO:0007130)	chiasma (GO:0005712)|male germ cell nucleus (GO:0001673)|mismatch repair complex (GO:0032300)|nucleus (GO:0005634)|synaptonemal complex (GO:0000795)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|centromeric DNA binding (GO:0019237)|chromatin binding (GO:0003682)|mismatched DNA binding (GO:0030983)|satellite DNA binding (GO:0003696)|single-stranded DNA binding (GO:0003697)			breast(5)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|liver(1)|lung(16)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	44				BRCA - Breast invasive adenocarcinoma(234;0.00688)		GTCATAGGACTTTCTCTCAAA	0.403								Mismatch excision repair (MMR)																																								0													83	88	86					14																	75513814		2203	4300	6503	SO:0001583	missense	27030			AF195657	CCDS9837.1, CCDS32123.1	14q24.3	2014-09-17	2013-09-12			ENSG00000119684			7128	protein-coding gene	gene with protein product		604395	"mutL (E. coli) homolog 3", "mutL homolog 3 (E. coli)"			10615123	Standard	XR_245681		Approved		uc001xrd.1	Q9UHC1		ENST00000556740.1:c.2545A>G	14.37:g.75513814T>C	ENSP00000452316:p.Ser849Gly	Somatic		WXS	Illumina HiSeq	Phase_I	P49751|Q56DK9|Q9P292|Q9UHC0	Missense_Mutation	SNP	ENST00000556740.1	37	CCDS32123.1	.	.	.	.	.	.	.	.	.	.	T	9.918	1.211294	0.22289	.	.	ENSG00000119684	ENST00000355774;ENST00000238662;ENST00000556257;ENST00000556740	D;D;D;D	0.88431	-2.13;-2.26;-2.38;-2.13	5.93	5.93	0.95920	.	0.106980	0.64402	D	0.000004	D	0.88411	0.6429	M	0.68952	2.095	0.80722	D	1	B;B	0.30851	0.231;0.297	B;B	0.34452	0.183;0.129	D	0.87668	0.2539	10	0.72032	D	0.01	-17.858	12.7684	0.57405	0.0:0.0:0.0:1.0	.	849;849	Q9UHC1-2;Q9UHC1	.;MLH3_HUMAN	G	849	ENSP00000348020:S849G;ENSP00000238662:S849G;ENSP00000451540:S849G;ENSP00000452316:S849G	ENSP00000238662:S849G	S	-	1	0	MLH3	74583567	1.000000	0.71417	1.000000	0.80357	0.083000	0.17756	2.687000	0.46976	2.263000	0.75096	0.533000	0.62120	AGT		0.403	MLH3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415006.1	NM_014381		C	75513814	T	C	75513814	3	2	659	1	0	0	0	0	1	0	0	0	9625	1609	56	3	1864	3	MLH3	14	75513814	Missense_Mutation	SNP	T	TCGA-KN-8423-01A-11D-2310-10	51965021	75513814	31835726	43	40902										
FLVCR2	55640	mdanderson.org	37	chr14	76045417	76045418	+	Missense_Mutation	DNP	GG	GG	CA													0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	tcggtccatcccagcgtctcGgtccatcccagcgtctccat					rs143304751	byFrequency	TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr14:76045417_76045418GG>CA	ENST00000238667.4	+	1	458_459	c.102_103GG>CA	c.(100-105)tcGGtc>tcCAtc	p.V35I	AC007182.6_ENST00000455232.1_RNA	NM_017791.2	NP_060261.2	Q9UPI3	FLVC2_HUMAN	feline leukemia virus subgroup C cellular receptor family, member 2	35	8 X 6 AA tandem repeats of P-S-[VS]-S- [VIAG]-[HNP].				heme transport (GO:0015886)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	heme binding (GO:0020037)|heme transporter activity (GO:0015232)			endometrium(3)|kidney(2)|large_intestine(4)|lung(4)|ovary(1)|upper_aerodigestive_tract(1)	15				BRCA - Breast invasive adenocarcinoma(234;0.029)		CCAGCGTCTCGGTCCATCCCAG	0.644																																																0																																										SO:0001583	missense	55640			AK000378	CCDS9844.1, CCDS55933.1	14q24.3	2013-05-22	2007-05-01	2007-05-01	ENSG00000119686	ENSG00000119686		"Solute carriers"	20105	protein-coding gene	gene with protein product		610865	"chromosome 14 open reading frame 58", "feline leukemia virus subgroup C cellular receptor 2"	C14orf58		16439531, 20206334	Standard	NM_017791		Approved	FLJ20371, MFSD7C	uc001xrs.2	Q9UPI3	OTTHUMG00000171487	Exception_encountered	14.37:g.76045417_76045418delinsCA	ENSP00000238667:p.Val35Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z485|Q53ZT9|Q96JY3|Q9NX90	Missense_Mutation	DNP	ENST00000238667.4	37	CCDS9844.1																																																																																				0.644	FLVCR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413672.1	NM_017791		CA	76045418	GG	CA	76045417	3	2	659	1	0	0	0	0	1	0	0	0	5953	1103	39	4	104	4	FLVCR2	14	76045417	Missense_Mutation	DNP	GG	TCGA-KN-8423-01A-11D-2310-10	531603	76045417	31304123	44	40903										
HSP90AA1	3320	mdanderson.org	37	chr14	102551272	102551272	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	ctcttctttttctttttcttCttctttgtcttccttttctt	1	11	8	0			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr14:102551272C>T	ENST00000216281.8	-	5	932	c.727G>A	c.(727-729)Gaa>Aaa	p.E243K	HSP90AA1_ENST00000441629.2_Missense_Mutation_p.E64K|HSP90AA1_ENST00000334701.7_Missense_Mutation_p.E365K	NM_005348.3	NP_005339.3	P07900	HS90A_HUMAN	heat shock protein 90kDa alpha (cytosolic), class A member 1	243					ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|chaperone-mediated protein complex assembly (GO:0051131)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|G2/M transition of mitotic cell cycle (GO:0000086)|innate immune response (GO:0045087)|mitochondrial transport (GO:0006839)|mitotic cell cycle (GO:0000278)|nitric oxide metabolic process (GO:0046209)|positive regulation of nitric oxide biosynthetic process (GO:0045429)|protein import into mitochondrial outer membrane (GO:0045040)|protein refolding (GO:0042026)|regulation of nitric-oxide synthase activity (GO:0050999)|response to unfolded protein (GO:0006986)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endocytic vesicle lumen (GO:0071682)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|identical protein binding (GO:0042802)|MHC class II protein complex binding (GO:0023026)|nitric-oxide synthase regulator activity (GO:0030235)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)|TPR domain binding (GO:0030911)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(6)|large_intestine(3)|liver(1)|lung(10)|ovary(2)|prostate(1)	28					Nedocromil(DB00716)|Rifabutin(DB00615)	tctttttcttcttctttgtct	0.388																																																0													53	50	51					14																	102551272		2203	4300	6503	SO:0001583	missense	3320			M27024	CCDS9967.1, CCDS32160.1	14q32.33	2011-09-02	2006-02-24	2006-02-24	ENSG00000080824	ENSG00000080824		"Heat shock proteins / HSPC"	5253	protein-coding gene	gene with protein product		140571	"heat shock 90kD protein 1, alpha", "heat shock 90kDa protein 1, alpha"	HSPC1, HSPCA		2527334, 16269234	Standard	NM_001017963		Approved	Hsp89, Hsp90, FLJ31884, HSP90N	uc001ykv.4	P07900		ENST00000216281.8:c.727G>A	14.37:g.102551272C>T	ENSP00000216281:p.Glu243Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K500|B3KPJ9|Q2PP14|Q5CAQ6|Q5CAQ7|Q9BVQ5	Missense_Mutation	SNP	ENST00000216281.8	37	CCDS9967.1	.	.	.	.	.	.	.	.	.	.	c	11.94	1.788323	0.31593	.	.	ENSG00000080824	ENST00000216281;ENST00000334701;ENST00000441629;ENST00000553585	T;T;T;T	0.55052	0.54;0.54;0.54;0.54	3.73	3.73	0.42828	.	0.841759	0.10114	N	0.714232	T	0.42854	0.1221	L	0.37466	1.105	0.42720	D	0.993678	B;B;B	0.11235	0.0;0.004;0.001	B;B;B	0.13407	0.004;0.009;0.004	T	0.17806	-1.0357	10	0.21014	T	0.42	-20.443	11.761	0.51903	0.0:1.0:0.0:0.0	.	64;365;243	Q86U12;P07900-2;P07900	.;.;HS90A_HUMAN	K	243;365;64;174	ENSP00000216281:E243K;ENSP00000335153:E365K;ENSP00000396189:E64K;ENSP00000450712:E174K	ENSP00000216281:E243K	E	-	1	0	HSP90AA1	101621025	0.901000	0.30685	0.981000	0.43875	0.591000	0.36615	2.204000	0.42761	2.040000	0.60383	0.591000	0.81541	GAA		0.388	HSP90AA1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414952.2	NM_005348		T	102551272	C	T	102551272	3	4	659	1	0	0	0	0	1	0	0	0	7408	922	32	2	1499	2	HSP90AA1	14	102551272	Missense_Mutation	SNP	C	TCGA-KN-8423-01A-11D-2310-10	26505855	102551272	4798268	45	40904										
AHNAK2	113146	mdanderson.org	37	chr14	105411957	105411957	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	ttggctcctggggcctcgacGtccacctccatgctgggctg	13	15	0	0	rs373797895		TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr14:105411957G>A	ENST00000333244.5	-	7	9950	c.9831C>T	c.(9829-9831)gaC>gaT	p.D3277D	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3277						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			GGGCCTCGACGTCCACCTCCA	0.612																																																0													110	81	90					14																	105411957		1923	4091	6014	SO:0001819	synonymous_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.9831C>T	14.37:g.105411957G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Silent	SNP	ENST00000333244.5	37	CCDS45177.1																																																																																				0.612	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		A	105411957	G	A	105411957	2	1	659	1	0	0	0	0	0	0	0	1	415	1136	40	1		1	AHNAK2	14	105411957	Silent	SNP	G	TCGA-KN-8423-01A-11D-2310-10	2860685	105411957	1937583	46	40905			1	101		2	2	15	N	T_G	2.713427e-05
AHNAK2	113146	mdanderson.org	37	chr14	105411971	105411971	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	ctcgacgtccacctccatgcTgggctgagacacctccacgt	9	17	0	1	rs28737397	byFrequency	TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr14:105411971T>C	ENST00000333244.5	-	7	9936	c.9817A>G	c.(9817-9819)Agc>Ggc	p.S3273G	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3273						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			ACCTCCATGCTGGGCTGAGAC	0.632													.|||	1310	0.261581	0.1369	0.3069	5008	,	,		15097	0.0843		0.4851	False		,,,				2504	0.3507															0								C	GLY/SER	34,3684		2,30,1827	104	79	87		9817	1.5	0.1	14	dbSNP_125	87	457,6761		37,383,3189	no	missense	AHNAK2	NM_138420.2	56	39,413,5016	CC,CT,TT		6.3314,0.9145,4.4898	benign	3273/5796	105411971	491,10445	1859	3609	5468	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.9817A>G	14.37:g.105411971T>C	ENSP00000353114:p.Ser3273Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	222	0.10164835164835165	21	0.042682926829268296	49	0.13535911602209943	8	0.013986013986013986	144	0.18997361477572558	N	2.209	-0.381113	0.05000	0.009145	0.063314	ENSG00000185567	ENST00000333244	T	0.00682	5.86	3.87	1.45	0.22620	.	.	.	.	.	T	0.00012	0.0000	L	0.50333	1.59	0.80722	P	0.0	B	0.20261	0.043	B	0.20184	0.028	T	0.33497	-0.9866	8	0.22706	T	0.39	.	6.2963	0.21087	0.0:0.2172:0.0:0.7828	rs28737397	3273	Q8IVF2	AHNK2_HUMAN	G	3273	ENSP00000353114:S3273G	ENSP00000353114:S3273G	S	-	1	0	AHNAK2	104483016	0.007000	0.16637	0.102000	0.21198	0.005000	0.04900	0.903000	0.28475	0.023000	0.15187	-0.502000	0.04539	AGC		0.632	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		C	105411971	T	C	105411971	3	2	659	1	0	0	0	0	1	0	0	0	415	1580	55	3	7574	3	AHNAK2	14	105411971	Missense_Mutation	SNP	T	TCGA-KN-8423-01A-11D-2310-10	14	105411971	1937569	47	40906			1	101		2	2	15	N	T_G	2.713427e-05
MTA1	9112	bcgsc.ca	37	chr14	105932850	105932850	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	gcccgccaaggtggcccccgTcatcaacaacggctccccca	9	20	2	0			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr14:105932850T>C	ENST00000331320.7	+	17	1926	c.1712T>C	c.(1711-1713)gTc>gCc	p.V571A	MTA1_ENST00000405646.1_Missense_Mutation_p.V554A|MTA1_ENST00000406191.1_Missense_Mutation_p.V571A|MTA1_ENST00000435036.2_Missense_Mutation_p.V107A|RP11-521B24.5_ENST00000552675.1_RNA	NM_001203258.1|NM_004689.3	NP_001190187.1|NP_004680.2	Q13330	MTA1_HUMAN	metastasis associated 1	571					circadian regulation of gene expression (GO:0032922)|double-strand break repair (GO:0006302)|entrainment of circadian clock by photoperiod (GO:0043153)|locomotor rhythm (GO:0045475)|positive regulation of protein autoubiquitination (GO:1902499)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|regulation of gene expression, epigenetic (GO:0040029)|regulation of inflammatory response (GO:0050727)|response to ionizing radiation (GO:0010212)|response to lipopolysaccharide (GO:0032496)|secretory granule organization (GO:0033363)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|intracellular membrane-bounded organelle (GO:0043231)|microtubule (GO:0005874)|nuclear envelope (GO:0005635)|nucleus (GO:0005634)|NuRD complex (GO:0016581)	chromatin binding (GO:0003682)|core promoter binding (GO:0001047)|core promoter sequence-specific DNA binding (GO:0001046)|RNA polymerase II repressing transcription factor binding (GO:0001103)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(1)|lung(5)|stomach(1)	14		all_cancers(154;0.0293)|all_epithelial(191;0.128)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.19)		GTGGCCCCCGTCATCAACAAC	0.697																																																0													17	19	18					14																	105932850		2178	4275	6453	SO:0001583	missense	9112			U35113	CCDS32169.1, CCDS55954.1	14q32.33	2013-01-25			ENSG00000182979	ENSG00000182979		"GATA zinc finger domain containing"	7410	protein-coding gene	gene with protein product		603526				8083195, 7607577	Standard	NM_004689		Approved		uc001yqx.3	Q13330	OTTHUMG00000150362	ENST00000331320.7:c.1712T>C	14.37:g.105932850T>C	ENSP00000333633:p.Val571Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A5PLK4|Q86SW2|Q8NFI8|Q96GI8	Missense_Mutation	SNP	ENST00000331320.7	37	CCDS32169.1	.	.	.	.	.	.	.	.	.	.	T	11.76	1.735576	0.30774	.	.	ENSG00000182979	ENST00000414153;ENST00000331320;ENST00000406191;ENST00000405646;ENST00000434050;ENST00000435036	T;T;T;T;T	0.44881	1.5;1.57;1.49;1.49;0.91	5.12	5.12	0.69794	.	0.152498	0.45361	D	0.000378	T	0.29914	0.0748	L	0.29908	0.895	0.49389	D	0.999785	B;B	0.09022	0.002;0.0	B;B	0.09377	0.004;0.001	T	0.09122	-1.0689	10	0.15952	T	0.53	-42.1318	12.8585	0.57899	0.0:0.0:0.0:1.0	.	363;571	Q59FW1;Q13330	.;MTA1_HUMAN	A	480;571;571;554;363;107	ENSP00000333633:V571A;ENSP00000385702:V571A;ENSP00000384180:V554A;ENSP00000394106:V363A;ENSP00000389425:V107A	ENSP00000333633:V571A	V	+	2	0	MTA1	105003895	1.000000	0.71417	1.000000	0.80357	0.698000	0.40448	4.901000	0.63259	1.930000	0.55929	0.459000	0.35465	GTC		0.697	MTA1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000317849.15			C	105932850	T	C	105932850	3	2	659	1	0	0	0	0	1	0	0	0	9915	1667	58	3	1778	3	MTA1	14	105932850	Missense_Mutation	SNP	T	TCGA-KN-8423-01A-11D-2310-10	520879	105932850	1416690	48	40907										
MGA	23269	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr15	42052530	42052530	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	tgtttggacaggctccaccaAttcctctaaaactgaagcct	7	12	1	1			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr15:42052530A>G	ENST00000570161.1	+	19	7201	c.7201A>G	c.(7201-7203)Att>Gtt	p.I2401V	MGA_ENST00000219905.7_Missense_Mutation_p.I2401V|MGA_ENST00000389936.4_Missense_Mutation_p.I2362V|MGA_ENST00000566586.1_Missense_Mutation_p.I2192V|MGA_ENST00000545763.1_Missense_Mutation_p.I2192V			O43451	MGA_HUMAN	MGA, MAX dimerization protein	0					carbohydrate metabolic process (GO:0005975)|polysaccharide digestion (GO:0044245)|small molecule metabolic process (GO:0044281)|starch catabolic process (GO:0005983)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	alpha-1,4-glucosidase activity (GO:0004558)|amylase activity (GO:0016160)|carbohydrate binding (GO:0030246)|catalytic activity (GO:0003824)|glucan 1,4-alpha-glucosidase activity (GO:0004339)|maltose alpha-glucosidase activity (GO:0032450)			NS(1)|breast(4)|central_nervous_system(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(18)|lung(33)|ovary(8)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	95		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)	Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	GGCTCCACCAATTCCTCTAAA	0.463																																																0													87	87	87					15																	42052530		1913	4128	6041	SO:0001583	missense	23269			AB011090	CCDS55959.1, CCDS55960.1	15q15	2012-11-15	2012-11-15		ENSG00000174197	ENSG00000174197		"MAX dimerization proteins", "T-boxes"	14010	protein-coding gene	gene with protein product			"MAX gene associated"				Standard	NM_001080541		Approved	KIAA0518, MAD5, MXD5, FLJ12634	uc010ucy.2	Q8IWI9		ENST00000570161.1:c.7201A>G	15.37:g.42052530A>G	ENSP00000457035:p.Ile2401Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAX6|Q75ME7|Q86UM5	Missense_Mutation	SNP	ENST00000570161.1	37	CCDS55959.1	.	.	.	.	.	.	.	.	.	.	a	5.324	0.245095	0.10077	.	.	ENSG00000174197	ENST00000219905;ENST00000389936;ENST00000545763	D;D;D	0.83591	-1.72;-1.73;-1.74	5.53	-11.1	0.00147	.	1.465370	0.04622	N	0.402182	T	0.58524	0.2128	N	0.08118	0	0.09310	N	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.04013	0.0;0.001;0.0	T	0.49370	-0.8947	10	0.32370	T	0.25	.	4.9521	0.14019	0.5099:0.0734:0.2689:0.1478	.	1017;2192;2401	B4DVS1;F5H7K2;E7ENI0	.;.;.	V	2401;2362;2192	ENSP00000219905:I2401V;ENSP00000374586:I2362V;ENSP00000442467:I2192V	ENSP00000219905:I2401V	I	+	1	0	MGA	39839822	0.000000	0.05858	0.000000	0.03702	0.038000	0.13279	-2.442000	0.01014	-2.453000	0.00541	-1.779000	0.00650	ATT		0.463	MGA-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000420229.1	NM_001164273.1		G	42052530	A	G	42052530	3	3	659	1	0	0	0	0	1	0	0	0	9547	101	4	3	7275	3	MGA	15	42052530	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10		42052530	60478862	49	40908										
METTL9	51108	hgsc.bcm.edu	37	chr16	21611112	21611112	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	cgtccgtgtggctggcgcggAggatgtggacgctgcggagc	20	10	0	0	rs200797380		TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr16:21611112A>T	ENST00000358154.3	+	1	316	c.58A>T	c.(58-60)Agg>Tgg	p.R20W	METTL9_ENST00000396014.4_Missense_Mutation_p.R20W	NM_001077180.1|NM_016025.3	NP_001070648.1|NP_057109.3	Q9H1A3	METL9_HUMAN	methyltransferase like 9	20										endometrium(1)|kidney(3)|large_intestine(1)|lung(1)|ovary(1)	7				GBM - Glioblastoma multiforme(48;0.0759)		GCTGGCGCGGAGGATGTGGAC	0.756																																																0								A	TRP/ARG,TRP/ARG	0,3834		0,0,1917	6	8	8		58,58	4.4	1	16		8	11,7793		0,11,3891	yes	missense,missense	METTL9	NM_001077180.1,NM_016025.3	101,101	0,11,5808	TT,TA,AA		0.141,0.0,0.0945	probably-damaging,probably-damaging	20/318,20/319	21611112	11,11627	1917	3902	5819	SO:0001583	missense	51108			NM_016025, AF151839	CCDS10598.2, CCDS45440.1	16p12.2	2008-11-06			ENSG00000197006	ENSG00000197006			24586	protein-coding gene	gene with protein product	"DORA reverse strand protein 1"	609388				10810093, 11132146	Standard	NM_001077180		Approved	DREV1	uc002dje.3	Q9H1A3	OTTHUMG00000131584	ENST00000358154.3:c.58A>T	16.37:g.21611112A>T	ENSP00000350874:p.Arg20Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NBT8|Q9BWJ7|Q9H1A2|Q9Y390	Missense_Mutation	SNP	ENST00000358154.3	37	CCDS10598.2	.	.	.	.	.	.	.	.	.	.	A	17.97	3.519579	0.64634	0.0	0.00141	ENSG00000197006	ENST00000358154;ENST00000396014	.	.	.	4.43	4.43	0.53597	.	0.187364	0.45867	U	0.000328	T	0.50154	0.1599	N	0.24115	0.695	0.37282	D	0.907887	P;D	0.63046	0.939;0.992	B;P	0.55545	0.427;0.778	T	0.60372	-0.7276	9	0.87932	D	0	-4.0636	10.3188	0.43753	1.0:0.0:0.0:0.0	.	20;20	Q9H1A3-2;Q9H1A3	.;METL9_HUMAN	W	20	.	ENSP00000350874:R20W	R	+	1	2	METTL9	21518613	1.000000	0.71417	1.000000	0.80357	0.618000	0.37518	1.133000	0.31430	1.742000	0.51746	0.391000	0.25812	AGG		0.756	METTL9-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254465.1	NM_016025		T	21611112	A	T	21611112	3	4	659	1	0	0	0	0	1	0	0	0	9515	295	11	5	60	5	METTL9	16	21611112	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10		21611112	68743641	50	40909										
FHOD1	29109	bcgsc.ca	37	chr16	67271285	67271285	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	gtccgggagcgccgccagcgTctggagggcggggataagaa	19	10	1	1			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr16:67271285T>C	ENST00000258201.4	-	9	1097	c.850A>G	c.(850-852)Acg>Gcg	p.T284A		NM_013241.2	NP_037373.2	Q9Y613	FHOD1_HUMAN	formin homology 2 domain containing 1	284	GBD/FH3. {ECO:0000255|PROSITE- ProRule:PRU00579}.				positive regulation of stress fiber assembly (GO:0051496)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|membrane (GO:0016020)|nucleus (GO:0005634)	identical protein binding (GO:0042802)			breast(4)|endometrium(3)|kidney(3)|large_intestine(5)|lung(7)|ovary(3)|prostate(1)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	34		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)		GCCGCCAGCGTCTGGAGGGCG	0.647																																																0													53	55	54					16																	67271285		2198	4300	6498	SO:0001630	splice_region_variant	29109			AF113615	CCDS10834.1	16q22	2008-02-22			ENSG00000135723	ENSG00000135723			17905	protein-coding gene	gene with protein product		606881				10352228, 16112087	Standard	NM_013241		Approved	FHOS	uc002esl.3	Q9Y613	OTTHUMG00000137521	ENST00000258201.4:c.850-1A>G	16.37:g.67271285T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q59F76|Q6Y1F2|Q76MS8|Q8N521	Missense_Mutation	SNP	ENST00000258201.4	37	CCDS10834.1	.	.	.	.	.	.	.	.	.	.	T	17.15	3.315632	0.60524	.	.	ENSG00000135723	ENST00000258201	T	0.24908	1.83	5.36	5.36	0.76844	GTPase-binding/formin homology 3 (1);Armadillo-type fold (1);	0.111140	0.64402	D	0.000014	T	0.45736	0.1357	L	0.52905	1.665	0.80722	D	1	D	0.71674	0.998	D	0.72625	0.978	T	0.37244	-0.9714	10	0.54805	T	0.06	.	14.4938	0.67670	0.0:0.0:0.0:1.0	.	284	Q9Y613	FHOD1_HUMAN	A	284	ENSP00000258201:T284A	ENSP00000258201:T284A	T	-	1	0	FHOD1	65828786	1.000000	0.71417	0.985000	0.45067	0.224000	0.24922	6.173000	0.71937	2.154000	0.67381	0.533000	0.62120	ACG		0.647	FHOD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268844.2		Missense_Mutation	C	67271285	T	C	67271285	5	2	659	1	0	0	0	0	0	0	1	0	5889	1681	58	3	2700	3	FHOD1	16	67271285	Splice_Site	SNP	T	TCGA-KN-8423-01A-11D-2310-10	45660173	67271285	23083468	51	40910										
TMCO7	79613	bcgsc.ca	37	chr16	68961955	68961955	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	gatagagcagagagaagcaaAagcccttgagatgcaagaga	13	6	0	5			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr16:68961955A>G	ENST00000261778.1	+	13	2624	c.2612A>G	c.(2611-2613)aAa>aGa	p.K871R	RP11-521L9.1_ENST00000562790.1_lincRNA	NM_024562.1	NP_078838.1	Q9C0B7	TNG6_HUMAN	transport and golgi organization 6 homolog (Drosophila)	871						integral component of membrane (GO:0016021)											AGAGAAGCAAAAGCCCTTGAG	0.483																																																0													31	29	30					16																	68961955		1898	4138	6036	SO:0001583	missense	79613				CCDS45516.1	16q22.1	2012-12-13	2012-12-13	2012-12-13	ENSG00000103047	ENSG00000103047			25749	protein-coding gene	gene with protein product			"transmembrane and coiled-coil domains 7"	TMCO7		11214970	Standard	NM_024562		Approved	FLJ12688, KIAA1746	uc002ewi.4	Q9C0B7	OTTHUMG00000176743	ENST00000261778.1:c.2612A>G	16.37:g.68961955A>G	ENSP00000261778:p.Lys871Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q569F9|Q9H9K1	Missense_Mutation	SNP	ENST00000261778.1	37	CCDS45516.1	.	.	.	.	.	.	.	.	.	.	A	10.88	1.475124	0.26511	.	.	ENSG00000103047	ENST00000261778	T	0.64991	-0.13	5.37	3.02	0.34903	Armadillo-like helical (1);Armadillo-type fold (1);	0.443179	0.27433	N	0.019385	T	0.30854	0.0778	N	0.04508	-0.205	0.23336	N	0.997886	B	0.02656	0.0	B	0.04013	0.001	T	0.14504	-1.0470	10	0.13853	T	0.58	-3.9361	3.9605	0.09409	0.6643:0.0:0.1851:0.1506	.	871	Q9C0B7	TMCO7_HUMAN	R	871	ENSP00000261778:K871R	ENSP00000261778:K871R	K	+	2	0	TMCO7	67519456	0.127000	0.22367	0.584000	0.28653	0.998000	0.95712	1.029000	0.30140	0.317000	0.23160	0.533000	0.62120	AAA		0.483	TANGO6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000433471.2	XM_928235.2		G	68961955	A	G	68961955	3	3	659	1	0	0	0	0	1	0	0	0	16013	14	1	3	2662	3	TMCO7	16	68961955	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10	1690670	68961955	21392798	52	40911										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	7577566	7577566	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	gccgcccatgcaggaactgtTacacatgtagttgtagtgga	12	9	0	0			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr17:7577566T>C	ENST00000269305.4	-	7	904	c.715A>G	c.(715-717)Aac>Gac	p.N239D	TP53_ENST00000413465.2_Missense_Mutation_p.N239D|TP53_ENST00000455263.2_Missense_Mutation_p.N239D|TP53_ENST00000445888.2_Missense_Mutation_p.N239D|TP53_ENST00000359597.4_Missense_Mutation_p.N239D|TP53_ENST00000574684.1_5'Flank|TP53_ENST00000420246.2_Missense_Mutation_p.N239D	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	239	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with ZNF385A.		N -> D (in sporadic cancers; somatic mutation).|N -> H (in a sporadic cancer; somatic mutation).|N -> I (in a sporadic cancer; somatic mutation).|N -> K (in sporadic cancers; somatic mutation).|N -> S (in sporadic cancers; somatic mutation).|N -> T (in sporadic cancers; somatic mutation).|N -> Y (in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.N239D(33)|p.N239fs*25(12)|p.0?(8)|p.N239Y(6)|p.N239fs*1(5)|p.?(5)|p.M237_N239delMCN(4)|p.N239_C242delNSSC(3)|p.N239fs*8(2)|p.N239_S240delNS(2)|p.N239fs*26(1)|p.N146D(1)|p.N146fs*1(1)|p.Y236_M243delYMCNSSCM(1)|p.V225fs*23(1)|p.N239fs*6(1)|p.N239fs*4(1)|p.C238_N239insX(1)|p.C238_M246delCNSSCMGGM(1)|p.M144_N146delMCN(1)|p.C238fs*21(1)|p.H233fs*6(1)|p.N239*(1)|p.H233_C242del10(1)|p.N239_C242del(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	CAGGAACTGTTACACATGTAG	0.572		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	95	Substitution - Missense(40)|Insertion - Frameshift(18)|Deletion - In frame(14)|Whole gene deletion(8)|Deletion - Frameshift(7)|Unknown(5)|Substitution - Nonsense(1)|Complex - frameshift(1)|Insertion - In frame(1)	ovary(14)|oesophagus(11)|haematopoietic_and_lymphoid_tissue(10)|biliary_tract(7)|central_nervous_system(7)|large_intestine(7)|lung(7)|breast(6)|upper_aerodigestive_tract(5)|endometrium(5)|bone(5)|urinary_tract(4)|stomach(3)|prostate(2)|liver(1)|pancreas(1)											133	104	114					17																	7577566		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.715A>G	17.37:g.7577566T>C	ENSP00000269305:p.Asn239Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	T	24.7	4.564934	0.86439	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944	D;D;D;D;D;D;D;D	0.99748	-6.62;-6.62;-6.62;-6.62;-6.62;-6.62;-6.62;-6.62	4.09	4.09	0.47781	p53, DNA-binding domain (1);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.000000	0.85682	D	0.000000	D	0.99648	0.9870	M	0.87381	2.88	0.58432	D	0.99999	D;D;D;D;D;D	0.89917	0.999;0.972;0.999;0.999;0.999;1.0	D;P;D;D;D;D	0.91635	0.993;0.803;0.998;0.993;0.996;0.999	D	0.97636	1.0145	10	0.87932	D	0	-35.9081	11.6823	0.51466	0.0:0.0:0.0:1.0	.	239;239;146;239;239;239	P04637-2;P04637-3;E9PFT5;P04637;Q1MSW8;E7EQX7	.;.;.;P53_HUMAN;.;.	D	239;239;239;239;239;239;228;146;107;146	ENSP00000410739:N239D;ENSP00000352610:N239D;ENSP00000269305:N239D;ENSP00000398846:N239D;ENSP00000391127:N239D;ENSP00000391478:N239D;ENSP00000425104:N107D;ENSP00000423862:N146D	ENSP00000269305:N239D	N	-	1	0	TP53	7518291	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.770000	0.85390	2.074000	0.62210	0.379000	0.24179	AAC		0.572	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		C	7577566	T	C	7577566	3	2	659	1	0	0	0	0	1	0	0	0	16393	1754	61	3	575	3	TP53	17	7577566	Missense_Mutation	SNP	T	TCGA-KN-8423-01A-11D-2310-10		7577566	73617644	53	40912										
ZNF555	148254	broad.mit.edu;hgsc.bcm.edu	37	chr19	2853382	2853382	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	caattggcccatatctttacGaaaacatatgagaacacata	5	9	1	1	rs557630264		TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr19:2853382G>A	ENST00000334241.4	+	4	1457	c.1319G>A	c.(1318-1320)cGa>cAa	p.R440Q	ZNF555_ENST00000591539.1_Missense_Mutation_p.R439Q|AC006130.3_ENST00000589365.1_RNA	NM_001172775.1|NM_152791.4	NP_001166246.1|NP_690004.4	Q8NEP9	ZN555_HUMAN	zinc finger protein 555	440					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(2)|kidney(2)|large_intestine(6)|lung(3)|ovary(1)|prostate(1)|skin(3)|urinary_tract(4)	23				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)		ATATCTTTACGAAAACATATG	0.453													G|||	1	0.000199681	0.0	0.0	5008	,	,		24089	0.001		0.0	False		,,,				2504	0.0															0													60	52	54					19																	2853382		2203	4300	6503	SO:0001583	missense	148254			AL832140	CCDS12096.1, CCDS59329.1	19p13.3	2013-09-20			ENSG00000186300	ENSG00000186300		"Zinc fingers, C2H2-type", "-"	28382	protein-coding gene	gene with protein product						12477932	Standard	NM_152791		Approved	MGC26707	uc002lwo.3	Q8NEP9	OTTHUMG00000180500	ENST00000334241.4:c.1319G>A	19.37:g.2853382G>A	ENSP00000334853:p.Arg440Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA89|K7EQM2|Q8NA46|Q96MP1	Missense_Mutation	SNP	ENST00000334241.4	37	CCDS12096.1	.	.	.	.	.	.	.	.	.	.	G	11.21	1.572211	0.28092	.	.	ENSG00000186300	ENST00000334241;ENST00000382127	T	0.04275	3.66	3.22	-0.334	0.12666	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.01870	0.0059	N	0.13168	0.305	0.09310	N	1	P;P	0.39157	0.662;0.638	B;B	0.24394	0.039;0.053	T	0.46775	-0.9167	9	0.21540	T	0.41	.	3.8104	0.08795	0.2611:0.4116:0.3272:0.0	.	440;439	Q8NEP9;A8KA89	ZN555_HUMAN;.	Q	440;439	ENSP00000334853:R440Q	ENSP00000334853:R440Q	R	+	2	0	ZNF555	2804382	0.000000	0.05858	0.001000	0.08648	0.814000	0.46013	-1.600000	0.02083	0.158000	0.19367	0.561000	0.74099	CGA		0.453	ZNF555-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000451637.3	NM_152791		A	2853382	G	A	2853382	3	1	659	1	0	0	0	0	1	0	0	0	17998	1058	37	1	1333	1	ZNF555	19	2853382	Missense_Mutation	SNP	G	TCGA-KN-8423-01A-11D-2310-10		2853382	56275601	54	40913										
MUC16	94025	mdanderson.org	37	chr19	9005616	9005616	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	tcccagctcagtgatgctgtGggtcagctggctcagctccc	12	14	3	1	rs78831402		TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr19:9005616G>T	ENST00000397910.4	-	46	39993	c.39790C>A	c.(39790-39792)Cac>Aac	p.H13264N	MUC16_ENST00000380951.5_5'Flank	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13266	SEA 8. {ECO:0000255|PROSITE- ProRule:PRU00188}.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						GTGATGCTGTGGGTCAGCTGG	0.562																																																0													168	152	157					19																	9005616		2047	4181	6228	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.39790C>A	19.37:g.9005616G>T	ENSP00000381008:p.His13264Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	.	2.713	-0.268436	0.05716	.	.	ENSG00000181143	ENST00000397910;ENST00000441155	T	0.35605	1.3	3.14	0.596	0.17496	SEA (1);	.	.	.	.	T	0.40645	0.1125	.	.	.	.	.	.	B;P	0.39044	0.001;0.656	B;P	0.48627	0.005;0.584	T	0.53837	-0.8382	7	0.87932	D	0	-0.3413	7.148	0.25593	0.0:0.0:0.5152:0.4848	.	20909;13264	Q8WXI7;B5ME49	MUC16_HUMAN;.	N	13264;395	ENSP00000381008:H13264N	ENSP00000381008:H13264N	H	-	1	0	MUC16	8866616	0.001000	0.12720	0.028000	0.17463	0.040000	0.13550	0.565000	0.23578	0.601000	0.29879	-0.373000	0.07131	CAC		0.562	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		T	9005616	G	T	9005616	3	4	659	1	0	0	0	0	1	0	0	0	9980	1348	47	4	3889	4	MUC16	19	9005616	Missense_Mutation	SNP	G	TCGA-KN-8423-01A-11D-2310-10	6152234	9005616	50123367	55	40914										
MUC16	94025	mdanderson.org	37	chr19	9018508	9018508	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	atgcatgtcctcctcatactTcaggttggtgatggtgaagt	11	8	2	2	rs74488264		TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr19:9018508T>G	ENST00000397910.4	-	24	37869	c.37666A>C	c.(37666-37668)Aag>Cag	p.K12556Q		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	12558	SEA 4. {ECO:0000255|PROSITE- ProRule:PRU00188}.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TCCTCATACTTCAGGTTGGTG	0.512																																																0													234	198	209					19																	9018508		1978	4180	6158	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.37666A>C	19.37:g.9018508T>G	ENSP00000381008:p.Lys12556Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	.	8.033	0.762173	0.15914	.	.	ENSG00000181143	ENST00000397910	T	0.29397	1.57	2.01	-4.02	0.04034	.	.	.	.	.	T	0.05547	0.0146	N	0.00138	-2.015	.	.	.	B	0.20052	0.041	B	0.09377	0.004	T	0.32534	-0.9903	8	0.87932	D	0	.	2.4995	0.04630	0.3117:0.0:0.2615:0.4268	.	12556	B5ME49	.	Q	12556	ENSP00000381008:K12556Q	ENSP00000381008:K12556Q	K	-	1	0	MUC16	8879508	0.000000	0.05858	0.008000	0.14137	0.336000	0.28762	-1.612000	0.02061	-0.971000	0.03564	0.164000	0.16699	AAG		0.512	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		G	9018508	T	G	9018508	3	3	659	1	0	0	0	0	1	0	0	0	9980	1792	62	5	6101	5	MUC16	19	9018508	Missense_Mutation	SNP	T	TCGA-KN-8423-01A-11D-2310-10	12892	9018508	50110475	56	40915										
ZNF20	7568	broad.mit.edu	37	chr19	12244276	12244276	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	gagttctttcatgtactggaAgggtagtggaacgagtaaag	14	4	2	0			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr19:12244276A>G	ENST00000334213.5	-	4	949	c.725T>C	c.(724-726)cTt>cCt	p.L242P	ZNF20_ENST00000600335.1_Intron|ZNF20_ENST00000485451.1_5'Flank|ZNF625-ZNF20_ENST00000430024.1_3'UTR	NM_001203250.1|NM_021143.3	NP_001190179.1|NP_066966.2	P17024	ZNF20_HUMAN	zinc finger protein 20	242					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|kidney(1)|lung(6)	8						ATGTACTGGAAGGGTAGTGGA	0.378																																																0													89	93	91					19																	12244276		2153	4270	6423	SO:0001583	missense	7568			X52344	CCDS45986.1	19p13.2	2013-01-08	2006-05-10		ENSG00000132010	ENSG00000132010		"Zinc fingers, C2H2-type", "-"	12992	protein-coding gene	gene with protein product		194557	"zinc finger protein 20 (KOX 13)"				Standard	NM_021143		Approved	KOX13	uc002mtf.2	P17024	OTTHUMG00000156409	ENST00000334213.5:c.725T>C	19.37:g.12244276A>G	ENSP00000335437:p.Leu242Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N457|Q9UG41	Missense_Mutation	SNP	ENST00000334213.5	37	CCDS45986.1	.	.	.	.	.	.	.	.	.	.	A	12.60	1.987020	0.35036	.	.	ENSG00000132010	ENST00000334213;ENST00000292241	T	0.26660	1.72	0.94	0.94	0.19513	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.46328	0.1387	M	0.89534	3.04	0.09310	N	0.999996	D	0.65815	0.995	P	0.56514	0.8	T	0.30446	-0.9978	9	0.87932	D	0	.	6.0337	0.19694	1.0:0.0:0.0:0.0	.	242	P17024	ZNF20_HUMAN	P	242	ENSP00000335437:L242P	ENSP00000292241:L242P	L	-	2	0	ZNF20	12105276	0.023000	0.18921	0.001000	0.08648	0.153000	0.21895	3.031000	0.49728	0.654000	0.30846	0.260000	0.18958	CTT		0.378	ZNF20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344101.1	NM_021143		G	12244276	A	G	12244276	3	3	659	1	0	0	0	0	1	0	0	0	17773	72	3	3	877	3	ZNF20	19	12244276	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10	3225768	12244276	46884707	57	40916										
CRTC1	23373	broad.mit.edu	37	chr19	18879483	18879483	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	cctggtggccccctgttgccCagcgccagcctgactcgtgg	13	17	0	1			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr19:18879483C>T	ENST00000321949.8	+	10	1226	c.1200C>T	c.(1198-1200)ccC>ccT	p.P400P	CRTC1_ENST00000601916.1_Intron|CRTC1_ENST00000594658.1_Silent_p.P359P|CRTC1_ENST00000338797.6_Silent_p.P416P	NM_015321.2	NP_056136.2			CREB regulated transcription coactivator 1										CRTC1/MAML2(516)	NS(1)|breast(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(6)|ovary(1)|skin(1)	19						CCCTGTTGCCCAGCGCCAGCC	0.756																																																0													9	9	9					19																	18879483		2174	4238	6412	SO:0001819	synonymous_variant	23373			AY040323	CCDS32963.1, CCDS42525.1	19p13	2012-07-31	2005-11-24	2005-11-24					16062	protein-coding gene	gene with protein product	"transducer of regulated cAMP response element-binding protein"	607536	"mucoepidermoid carcinoma translocated 1"	MECT1		12539049, 14536081, 14506290	Standard	NM_015321		Approved	KIAA0616, FLJ14027, TORC1	uc010ebv.3	Q6UUV9		ENST00000321949.8:c.1200C>T	19.37:g.18879483C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000321949.8	37	CCDS32963.1																																																																																				0.756	CRTC1-002	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465151.3	NM_025021		T	18879483	C	T	18879483	2	4	659	1	0	0	0	0	0	0	0	1	3901	581	21	2		2	CRTC1	19	18879483	Silent	SNP	C	TCGA-KN-8423-01A-11D-2310-10	6635207	18879483	40249500	58	40917										
GAPDHS	26330	hgsc.bcm.edu	37	chr19	36033313	36033313	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	ctccatacaggcagcttcggTaagctggggagaggtgccca	14	11	0	1	rs558746420	byFrequency	TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr19:36033313T>C	ENST00000222286.4	+	5	656		c.e5+2		AD000090.2_ENST00000444728.1_RNA|AD000090.2_ENST00000590125.1_RNA|AD000090.2_ENST00000589137.1_RNA|AD000090.2_ENST00000588286.1_RNA|AD000090.2_ENST00000590717.1_RNA	NM_014364.4	NP_055179.1	O14556	G3PT_HUMAN	glyceraldehyde-3-phosphate dehydrogenase, spermatogenic						carbohydrate metabolic process (GO:0005975)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|glycolytic process (GO:0006096)|positive regulation of glycolytic process (GO:0045821)|small molecule metabolic process (GO:0044281)|sperm motility (GO:0030317)|spermatid development (GO:0007286)	cytosol (GO:0005829)|nucleus (GO:0005634)|sperm fibrous sheath (GO:0035686)|sperm principal piece (GO:0097228)	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity (GO:0004365)|NAD binding (GO:0051287)|NADP binding (GO:0050661)			endometrium(1)|kidney(1)|large_intestine(1)|lung(8)	11	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)			GCAGCTTCGGTAAGCTGGGGA	0.637																																																0													43	42	42					19																	36033313		2203	4300	6503	SO:0001630	splice_region_variant	26330			AJ005371	CCDS12465.1	19q13.1	2008-02-05		2005-05-06		ENSG00000105679			24864	protein-coding gene	gene with protein product		609169		GAPDS		10714828	Standard	NM_014364		Approved	GAPDH-2, GAPD2	uc002oaf.1	O14556		ENST00000222286.4:c.540+2T>C	19.37:g.36033313T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RC82|O60823|Q6JTT9|Q9HCU6	Splice_Site	SNP	ENST00000222286.4	37	CCDS12465.1	.	.	.	.	.	.	.	.	.	.	T	20.7	4.031348	0.75504	.	.	ENSG00000105679	ENST00000222286	.	.	.	5.24	5.24	0.73138	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	11.8058	0.52155	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	GAPDHS	40725153	1.000000	0.71417	0.798000	0.32154	0.842000	0.47809	7.479000	0.81095	2.115000	0.64714	0.379000	0.24179	.		0.637	GAPDHS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460423.1	NM_014364	Intron	C	36033313	T	C	36033313	5	2	659	1	0	0	0	0	0	0	1	0	6244	1652	57	3	560	3	GAPDHS	19	36033313	Splice_Site	SNP	T	TCGA-KN-8423-01A-11D-2310-10	17153830	36033313	23095670	59	40918										
PTPRA	5786	broad.mit.edu;bcgsc.ca	37	chr20	2998555	2998555	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	taccaacctgaaggagagaaAggaggtaagtggaaaaattg	13	4	0	2			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr20:2998555A>G	ENST00000216877.6	+	12	1410	c.1010A>G	c.(1009-1011)aAg>aGg	p.K337R	PTPRA_ENST00000425918.2_Missense_Mutation_p.K357R|PTPRA_ENST00000358719.4_Missense_Mutation_p.K202R|PTPRA_ENST00000399903.2_Missense_Mutation_p.K346R|PTPRA_ENST00000318266.5_Missense_Mutation_p.K337R|PTPRA_ENST00000356147.3_Missense_Mutation_p.K337R|PTPRA_ENST00000380393.3_Missense_Mutation_p.K346R	NM_080840.2	NP_543030.1	P18433	PTPRA_HUMAN	protein tyrosine phosphatase, receptor type, A	346	Tyrosine-protein phosphatase 1. {ECO:0000255|PROSITE-ProRule:PRU00160}.				axon guidance (GO:0007411)|insulin receptor signaling pathway (GO:0008286)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein phosphorylation (GO:0006468)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(1)|breast(1)|endometrium(3)|large_intestine(3)|lung(5)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	17						AAGGAGAGAAAGGAGGTAAGT	0.453																																																0													99	90	93					20																	2998555		2203	4300	6503	SO:0001583	missense	5786				CCDS13038.1, CCDS13039.1	20p13	2011-06-09			ENSG00000132670	ENSG00000132670		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like"	9664	protein-coding gene	gene with protein product		176884		PTPRL2, PTPA		2172030, 2169617	Standard	NM_080840		Approved	LRP, HLPR, HPTPA, RPTPA	uc002whn.3	P18433	OTTHUMG00000031718	ENST00000216877.6:c.1010A>G	20.37:g.2998555A>G	ENSP00000216877:p.Lys337Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2G8|D3DVX5|Q14513|Q7Z2I2|Q96TD9	Missense_Mutation	SNP	ENST00000216877.6	37	CCDS13039.1	.	.	.	.	.	.	.	.	.	.	A	28.2	4.895360	0.91962	.	.	ENSG00000132670	ENST00000380393;ENST00000216877;ENST00000399903;ENST00000358719;ENST00000425918;ENST00000318266;ENST00000356147	T;T;T;T;T;T;T	0.11495	2.77;2.77;2.77;2.77;2.77;2.77;2.77	5.93	5.93	0.95920	Protein-tyrosine phosphatase, receptor/non-receptor type (3);	0.000000	0.85682	U	0.000000	T	0.28566	0.0707	L	0.49455	1.56	0.80722	D	1	P;D;P	0.61697	0.834;0.99;0.85	P;D;P	0.71870	0.512;0.975;0.51	T	0.00473	-1.1718	10	0.72032	D	0.01	.	16.3943	0.83563	1.0:0.0:0.0:0.0	.	357;346;337	B7Z2A4;P18433;P18433-4	.;PTPRA_HUMAN;.	R	346;337;346;202;357;337;337	ENSP00000369756:K346R;ENSP00000216877:K337R;ENSP00000382787:K346R;ENSP00000351559:K202R;ENSP00000393553:K357R;ENSP00000314568:K337R;ENSP00000348468:K337R	ENSP00000216877:K337R	K	+	2	0	PTPRA	2946555	1.000000	0.71417	1.000000	0.80357	0.769000	0.43574	7.204000	0.77872	2.281000	0.76405	0.533000	0.62120	AAG		0.453	PTPRA-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077682.3			G	2998555	A	G	2998555	3	3	659	1	0	0	0	0	1	0	0	0	12808	72	3	3	1075	3	PTPRA	20	2998555	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10		2998555	60026965	60	40919										
NCOA3	8202	mdanderson.org	37	chr20	46279863	46279863	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	cagcagcagcagcagcagcaGcaacagcaacagcaacagca	10	14	0	0	rs578139784|rs112826888|rs573532891	byFrequency	TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr20:46279863G>A	ENST00000371998.3	+	20	3980	c.3789G>A	c.(3787-3789)caG>caA	p.Q1263Q	NCOA3_ENST00000341724.6_Silent_p.Q1189Q|NCOA3_ENST00000372004.3_Silent_p.Q1259Q|NCOA3_ENST00000371997.3_Silent_p.Q1254Q			Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3	1263	Acetyltransferase.|Poly-Gln.				androgen receptor signaling pathway (GO:0030521)|developmental growth (GO:0048589)|histone acetylation (GO:0016573)|labyrinthine layer morphogenesis (GO:0060713)|mammary gland branching involved in thelarche (GO:0060744)|multicellular organism growth (GO:0035264)|positive regulation of gene expression (GO:0010628)|positive regulation of keratinocyte differentiation (GO:0045618)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|receptor transactivation (GO:0035624)|regulation of RNA biosynthetic process (GO:2001141)|transcription, DNA-templated (GO:0006351)|vagina development (GO:0060068)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|chromatin binding (GO:0003682)|histone acetyltransferase activity (GO:0004402)|ligand-dependent nuclear receptor binding (GO:0016922)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|nuclear hormone receptor binding (GO:0035257)|protein N-terminus binding (GO:0047485)|signal transducer activity (GO:0004871)|thyroid hormone receptor binding (GO:0046966)|transcription coactivator activity (GO:0003713)			breast(3)|endometrium(3)|kidney(4)|large_intestine(12)|lung(19)|ovary(4)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	52						agcagcagcagcaacagcaac	0.567													G|||	14	0.00279553	0.0076	0.0014	5008	,	,		14322	0.003		0.0	False		,,,				2504	0.0															0													58	62	60					20																	46279863		2203	4300	6503	SO:0001819	synonymous_variant	8202			AF012108	CCDS13406.1, CCDS13407.1, CCDS54472.1	20q12	2011-07-01			ENSG00000124151	ENSG00000124151		"Chromatin-modifying enzymes / K-acetyltransferases", "Basic helix-loop-helix proteins"	7670	protein-coding gene	gene with protein product	"receptor-associated coactivator 3", "thyroid hormone receptor activator molecule 1"	601937				9252329, 9346901	Standard	NM_181659		Approved	RAC3, AIB1, ACTR, p/CIP, TRAM-1, CAGH16, TNRC16, KAT13B, bHLHe42, SRC-3, SRC3	uc002xtk.3	Q9Y6Q9	OTTHUMG00000033061	ENST00000371998.3:c.3789G>A	20.37:g.46279863G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4LAZ5|Q0VF45|Q5JYD9|Q5JYE0|Q9BR49|Q9UPC9|Q9UPG4|Q9UPG7	Silent	SNP	ENST00000371998.3	37	CCDS13407.1																																																																																				0.567	NCOA3-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000080405.1	NM_006534		A	46279863	G	A	46279863	2	1	659	1	0	0	0	0	0	0	0	1	10237	962	34	2		2	NCOA3	20	46279863	Silent	SNP	G	TCGA-KN-8423-01A-11D-2310-10	43281308	46279863	16745657	61	40920										
KRTAP10-2	386679	mdanderson.org	37	chr21	45970772	45970772	+	Silent	SNP	A	A	G													0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	cagatggacttgcagcagacAggcttgcagcagacggacac					rs76021731|rs67692969|rs71199610	byFrequency	TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr21:45970772A>G	ENST00000391621.1	-	1	616	c.570T>C	c.(568-570)ccT>ccC	p.P190P	TSPEAR_ENST00000397916.1_Intron|TSPEAR_ENST00000323084.4_Intron|KRTAP10-2_ENST00000498210.1_Intron	NM_198693.2	NP_941966.1	P60368	KR102_HUMAN	keratin associated protein 10-2	190	22 X 5 AA repeats of C-C-X(3).					keratin filament (GO:0045095)				large_intestine(1)|lung(4)|skin(1)	6						TGCAGCAGACAGGCTTGCAGC	0.607																																																0													111	112	112					21																	45970772		2192	4282	6474	SO:0001819	synonymous_variant	386679			AJ566381	CCDS42955.1	21q22.3	2007-10-05			ENSG00000205445	ENSG00000205445		"Keratin associated proteins"	22967	protein-coding gene	gene with protein product				KRTAP18-2			Standard	NM_198693		Approved	KAP10.2, KAP18.2	uc002zfi.1	P60368	OTTHUMG00000057625	ENST00000391621.1:c.570T>C	21.37:g.45970772A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q70LJ5	Silent	SNP	ENST00000391621.1	37	CCDS42955.1																																																																																				0.607	KRTAP10-2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128027.1			G	45970772	A	G	45970772	2	3	659	1	0	0	0	0	0	0	0	1	8516	175	7	3		3	KRTAP10-2	21	45970772	Silent	SNP	A	TCGA-KN-8423-01A-11D-2310-10		45970772	2159123	62	40921	378	2								
KRTAP10-2	386679	mdanderson.org	37	chr21	45970774	45970774	+	Missense_Mutation	SNP	G	G	A													0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	gatggacttgcagcagacagGcttgcagcagacggacacac					rs76536096|rs67692969|rs71199610	byFrequency	TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr21:45970774G>A	ENST00000391621.1	-	1	614	c.568C>T	c.(568-570)Cct>Tct	p.P190S	TSPEAR_ENST00000397916.1_Intron|TSPEAR_ENST00000323084.4_Intron|KRTAP10-2_ENST00000498210.1_Intron	NM_198693.2	NP_941966.1	P60368	KR102_HUMAN	keratin associated protein 10-2	190	22 X 5 AA repeats of C-C-X(3).					keratin filament (GO:0045095)				large_intestine(1)|lung(4)|skin(1)	6						CAGCAGACAGGCTTGCAGCAG	0.607																																																0													110	112	111					21																	45970774		2192	4279	6471	SO:0001583	missense	386679			AJ566381	CCDS42955.1	21q22.3	2007-10-05			ENSG00000205445	ENSG00000205445		"Keratin associated proteins"	22967	protein-coding gene	gene with protein product				KRTAP18-2			Standard	NM_198693		Approved	KAP10.2, KAP18.2	uc002zfi.1	P60368	OTTHUMG00000057625	ENST00000391621.1:c.568C>T	21.37:g.45970774G>A	ENSP00000375479:p.Pro190Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q70LJ5	Missense_Mutation	SNP	ENST00000391621.1	37	CCDS42955.1	.	.	.	.	.	.	.	.	.	.	g	9.523	1.108901	0.20714	.	.	ENSG00000205445	ENST00000391621	T	0.01705	4.68	3.28	0.222	0.15288	.	.	.	.	.	T	0.02083	0.0065	L	0.49455	1.56	0.09310	N	1	B	0.26672	0.156	B	0.24394	0.053	T	0.42310	-0.9459	9	0.62326	D	0.03	.	4.9369	0.13944	0.2108:0.1755:0.6137:0.0	.	190	P60368	KR102_HUMAN	S	190	ENSP00000375479:P190S	ENSP00000375479:P190S	P	-	1	0	KRTAP10-2	44795202	0.105000	0.21958	0.000000	0.03702	0.002000	0.02628	1.284000	0.33249	-0.177000	0.10690	0.462000	0.41574	CCT		0.607	KRTAP10-2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128027.1			A	45970774	G	A	45970774	3	1	659	1	0	0	0	0	1	0	0	0	8516	1203	42	2	203	2	KRTAP10-2	21	45970774	Missense_Mutation	SNP	G	TCGA-KN-8423-01A-11D-2310-10	2	45970774	2159121	63	40922	378	2								
NEFH	4744	ucsc.edu;mdanderson.org	37	chr22	29885594	29885594	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	cctgagaaggccaagtccccAgagaaggaagaggccaagtc	13	11	0	3	rs79235463|rs200984527|rs267607533	byFrequency	TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr22:29885594A>T	ENST00000310624.6	+	4	1998	c.1965A>T	c.(1963-1965)ccA>ccT	p.P655P		NM_021076.3	NP_066554.2	P12036	NFH_HUMAN	neurofilament, heavy polypeptide	661	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.				axon development (GO:0061564)|axonogenesis (GO:0007409)|cell death (GO:0008219)|cell projection assembly (GO:0030031)|microtubule cytoskeleton organization (GO:0000226)|neurofilament bundle assembly (GO:0033693)|peripheral nervous system neuron axonogenesis (GO:0048936)|regulation of organelle transport along microtubule (GO:1902513)	axon (GO:0030424)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|neurofibrillary tangle (GO:0097418)|neurofilament (GO:0005883)	dynein binding (GO:0045502)|kinesin binding (GO:0019894)|microtubule binding (GO:0008017)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(12)|ovary(2)|skin(3)	30						CCAAGTCCCCAGAGAAGGAAG	0.552																																																0													83	92	89					22																	29885594		2203	4300	6503	SO:0001819	synonymous_variant	4744				CCDS13858.1	22q12.2	2013-01-16	2008-09-19		ENSG00000100285	ENSG00000100285		"Intermediate filaments type IV"	7737	protein-coding gene	gene with protein product		162230	"neurofilament, heavy polypeptide 200kDa"				Standard	NM_021076		Approved		uc003afo.3	P12036	OTTHUMG00000151155	ENST00000310624.6:c.1965A>T	22.37:g.29885594A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DYY4|Q96HF8|Q9UJS7|Q9UQ14	Silent	SNP	ENST00000310624.6	37	CCDS13858.1																																																																																				0.552	NEFH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321553.2	NM_021076		T	29885594	A	T	29885594	2	4	659	1	0	0	0	0	0	0	0	1	10321	175	7	5		5	NEFH	22	29885594	Silent	SNP	A	TCGA-KN-8423-01A-11D-2310-10		29885594	21418972	64	40923										
ENTHD1	150350	broad.mit.edu	37	chr22	40161248	40161248	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.05	3	1	1.46497584541063	4.39492753623188	1.09873188405797	1	1	0	cccgtgtggttgtcttgaggAttttatcatccatctgaatg	10	8	3	2			TCGA-KN-8423-01A-11D-2310-10	TCGA-KN-8423-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07943d6c-20fe-4b85-9c02-3b7eab4069c1	09835591-2837-4694-87b2-df002105d3e7	g.chr22:40161248A>T	ENST00000325157.6	-	6	1449	c.1199T>A	c.(1198-1200)aTc>aAc	p.I400N		NM_152512.3	NP_689725.2	Q8IYW4	ENTD1_HUMAN	ENTH domain containing 1	400								p.I400N(1)		breast(2)|endometrium(1)|kidney(6)|large_intestine(6)|lung(11)|ovary(3)|skin(3)	32	Melanoma(58;0.0749)					TGTCTTGAGGATTTTATCATC	0.418																																																1	Substitution - Missense(1)	kidney(1)											89	87	88					22																	40161248		2203	4300	6503	SO:0001583	missense	150350			AK093154	CCDS13998.1	22q13.1	2006-06-26			ENSG00000176177	ENSG00000176177			26352	protein-coding gene	gene with protein product						12477932	Standard	NM_152512		Approved	FLJ25421	uc003ayg.3	Q8IYW4	OTTHUMG00000151098	ENST00000325157.6:c.1199T>A	22.37:g.40161248A>T	ENSP00000317431:p.Ile400Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B0QYD5|Q5H9F7|Q96LK3	Missense_Mutation	SNP	ENST00000325157.6	37	CCDS13998.1	.	.	.	.	.	.	.	.	.	.	A	1.041	-0.678824	0.03378	.	.	ENSG00000176177	ENST00000325157	T	0.42900	0.96	5.91	-1.79	0.07932	.	4.854570	0.00397	N	0.000047	T	0.17662	0.0424	N	0.02247	-0.625	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.09378	-1.0677	10	0.23302	T	0.38	0.181	4.1611	0.10284	0.2446:0.291:0.0:0.4644	.	400	Q8IYW4	ENTD1_HUMAN	N	400	ENSP00000317431:I400N	ENSP00000317431:I400N	I	-	2	0	ENTHD1	38491194	0.000000	0.05858	0.000000	0.03702	0.184000	0.23303	-1.009000	0.03660	-0.427000	0.07350	-0.339000	0.08088	ATC		0.418	ENTHD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321302.1	NM_152512		T	40161248	A	T	40161248	3	4	659	1	0	0	0	0	1	0	0	0	5139	333	12	5	632	5	ENTHD1	22	40161248	Missense_Mutation	SNP	A	TCGA-KN-8423-01A-11D-2310-10	10275654	40161248	11143318	65	40924										
LOC440563	0	mdanderson.org	37	chr1	13183530	13183530	+	IGR	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	atcataataatcccgttgaaAgccatagtccaagtcaaaag	6	9	2	1	rs200046163		TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr1:13183530A>G								RP13-221M14.3 (19062 upstream) : PRAMEF26 (32825 downstream)																							TCCCGTTGAAAGCCATAGTCC	0.517																																																0													91	72	78					1																	13183530		692	1591	2283	SO:0001628	intergenic_variant	0																															1.37:g.13183530A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP		37																																																																																				0	0.517									G	13183530	A	G	13183530	1	3	660	0	1	0	0	0	0	0	0	0	8886	72	3	3		3	LOC440563	1	13183530	IGR	SNP	A	TCGA-KN-8424-01A-11D-2310-10		13183530	236067091	1	40925										
ZSCAN20	7579	bcgsc.ca	37	chr1	33958892	33958892	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tcaccagaacagccaggtgtAccgggccattgcagagcggc	13	13	1	2			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr1:33958892A>G	ENST00000361328.3	+	7	1703	c.1550A>G	c.(1549-1551)tAc>tGc	p.Y517C		NM_145238.3	NP_660281	P17040	ZSC20_HUMAN	zinc finger and SCAN domain containing 20	517					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(8)|lung(11)|ovary(2)|pancreas(1)|stomach(1)	31		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				AGCCAGGTGTACCGGGCCATT	0.567																																																0													45	48	47					1																	33958892		2024	4195	6219	SO:0001583	missense	7579			X52360	CCDS41300.1	1p34.3	2013-01-08	2007-02-20	2007-02-20	ENSG00000121903	ENSG00000121903		"-", "Zinc fingers, C2H2-type"	13093	protein-coding gene	gene with protein product		611315	"zinc finger protein 31 (KOX 29)", "zinc finger protein 31"	ZNF360, ZNF31		2288909	Standard	NM_145238		Approved	KOX29	uc001bxj.4	P17040	OTTHUMG00000004173	ENST00000361328.3:c.1550A>G	1.37:g.33958892A>G	ENSP00000355053:p.Tyr517Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2D0|B1ALI4|B1ALI5|B1ALI6|Q6ZN23|Q96FA9|Q96H84	Missense_Mutation	SNP	ENST00000361328.3	37	CCDS41300.1	.	.	.	.	.	.	.	.	.	.	A	20.5	4.005441	0.74932	.	.	ENSG00000121903	ENST00000326544;ENST00000361328;ENST00000401072	.	.	.	5.7	5.7	0.88788	SANT domain, DNA binding (1);	0.000000	0.53938	D	0.000043	T	0.81964	0.4934	M	0.90082	3.085	0.42241	D	0.991931	D;D	0.89917	1.0;1.0	D;D	0.97110	0.999;1.0	D	0.85761	0.1349	9	0.87932	D	0	-26.9717	12.6654	0.56840	1.0:0.0:0.0:0.0	.	516;517	P17040-3;P17040	.;ZSC20_HUMAN	C	517;451;451	.	ENSP00000324450:Y517C	Y	+	2	0	ZSCAN20	33731479	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.791000	0.62460	2.308000	0.77769	0.533000	0.62120	TAC		0.567	ZSCAN20-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277003.2	NM_145238		G	33958892	A	G	33958892	3	3	660	1	0	0	0	0	1	0	0	0	18244	391	14	3	1572	3	ZSCAN20	1	33958892	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10	20775362	33958892	215291729	2	40926										
CLCA1	1179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	86954776	86954776	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gtgctttaacgaggtcaaacAaagtggtgccatcatccaca	9	10	2	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr1:86954776A>T	ENST00000234701.3	+	9	1631	c.1280A>T	c.(1279-1281)cAa>cTa	p.Q427L	CLCA1_ENST00000394711.1_Missense_Mutation_p.Q427L			A8K7I4	CLCA1_HUMAN	chloride channel accessory 1	427	VWFA. {ECO:0000255|PROSITE- ProRule:PRU00219}.				calcium ion transport (GO:0006816)|cellular response to hypoxia (GO:0071456)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|transport (GO:0006810)	extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|microvillus (GO:0005902)|zymogen granule membrane (GO:0042589)	chloride channel activity (GO:0005254)			NS(1)|breast(3)|endometrium(1)|kidney(3)|large_intestine(9)|lung(14)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	38		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		GAGGTCAAACAAAGTGGTGCC	0.478																																																0													112	105	107					1																	86954776		2203	4300	6503	SO:0001583	missense	1179				CCDS709.1	1p22.3	2012-02-26	2009-01-29		ENSG00000016490	ENSG00000016490			2015	protein-coding gene	gene with protein product		603906	"chloride channel, calcium activated, family member 1", "chloride channel regulator 1"			9828122	Standard	NM_001285		Approved	CaCC, CLCRG1	uc001dlt.3	A8K7I4	OTTHUMG00000010254	ENST00000234701.3:c.1280A>T	1.37:g.86954776A>T	ENSP00000234701:p.Gln427Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAV5|O95151|Q5TDF4|Q9UNF6|Q9UPC6	Missense_Mutation	SNP	ENST00000234701.3	37	CCDS709.1	.	.	.	.	.	.	.	.	.	.	A	11.35	1.613034	0.28712	.	.	ENSG00000016490	ENST00000234701;ENST00000394711;ENST00000539889	T;T	0.15017	2.46;2.46	5.68	5.68	0.88126	von Willebrand factor, type A (3);	0.627114	0.16134	N	0.228078	T	0.16769	0.0403	M	0.73217	2.22	0.09310	N	1	B;B	0.34399	0.452;0.452	P;B	0.45913	0.497;0.428	T	0.21280	-1.0250	10	0.56958	D	0.05	-0.6591	9.4357	0.38637	0.9193:0.0:0.0807:0.0	.	427;190	A8K7I4;B4DUZ6	CLCA1_HUMAN;.	L	427;427;140	ENSP00000234701:Q427L;ENSP00000378200:Q427L	ENSP00000234701:Q427L	Q	+	2	0	CLCA1	86727364	0.002000	0.14202	0.086000	0.20670	0.092000	0.18411	1.751000	0.38339	2.152000	0.67230	0.533000	0.62120	CAA		0.478	CLCA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000028277.1	NM_001285		T	86954776	A	T	86954776	3	4	660	1	0	0	0	0	1	0	0	0	3459	130	5	5	1310	5	CLCA1	1	86954776	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10	52995884	86954776	162295845	3	40927										
WNT2B	7482	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	113062943	113062943	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gtgtctgcagcaagacatcaAaaggaacagacggttgtgaa	12	7	2	3			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr1:113062943A>G	ENST00000369684.4	+	5	1473	c.988A>G	c.(988-990)Aaa>Gaa	p.K330E	WNT2B_ENST00000256640.5_Missense_Mutation_p.K238E|RP4-671G15.2_ENST00000608357.1_RNA|WNT2B_ENST00000369686.5_Missense_Mutation_p.K311E	NM_024494.2	NP_078613.1	Q93097	WNT2B_HUMAN	wingless-type MMTV integration site family, member 2B	330					canonical Wnt signaling pathway (GO:0060070)|cell fate commitment (GO:0045165)|cellular response to starvation (GO:0009267)|chondrocyte differentiation (GO:0002062)|cornea development in camera-type eye (GO:0061303)|forebrain regionalization (GO:0021871)|hematopoietic stem cell proliferation (GO:0071425)|iris morphogenesis (GO:0061072)|lens development in camera-type eye (GO:0002088)|lung induction (GO:0060492)|male gonad development (GO:0008584)|mesenchymal-epithelial cell signaling (GO:0060638)|neuron differentiation (GO:0030182)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|Wnt signaling pathway (GO:0016055)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)	frizzled binding (GO:0005109)			breast(2)|central_nervous_system(1)|endometrium(4)|large_intestine(3)|lung(4)|ovary(2)|skin(1)|stomach(1)	18	Lung SC(450;0.246)	all_cancers(81;7.31e-07)|all_epithelial(167;4.59e-06)|all_lung(203;2.56e-05)|Lung NSC(69;4.38e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CAAGACATCAAAAGGAACAGA	0.537																																																0													137	105	116					1																	113062943		2203	4300	6503	SO:0001583	missense	7482			AB045116	CCDS847.1, CCDS846.1	1p13	2008-07-18			ENSG00000134245	ENSG00000134245		"Wingless-type MMTV integration sites"	12781	protein-coding gene	gene with protein product	"XWNT2, Xenopus, homolog of", "wingless-type MMTV integration site family, member 13"	601968		WNT13		8761309, 10944466	Standard	NM_024494		Approved	XWNT2	uc001ecb.3	Q93097	OTTHUMG00000011157	ENST00000369684.4:c.988A>G	1.37:g.113062943A>G	ENSP00000358698:p.Lys330Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O14903|Q5TEH9|Q5TEI2|Q9HDC1|Q9HDC2	Missense_Mutation	SNP	ENST00000369684.4	37	CCDS847.1	.	.	.	.	.	.	.	.	.	.	A	9.252	1.041024	0.19669	.	.	ENSG00000134245	ENST00000256640;ENST00000369686;ENST00000369684	T;T;T	0.75477	-0.94;-0.94;-0.94	5.57	4.47	0.54385	.	0.054833	0.64402	D	0.000001	T	0.33990	0.0882	L	0.31804	0.96	0.30339	N	0.785926	B;P	0.39940	0.066;0.696	B;B	0.32624	0.099;0.149	T	0.39418	-0.9615	10	0.05620	T	0.96	.	11.4493	0.50142	0.7642:0.2358:0.0:0.0	.	330;311	Q93097;Q93097-2	WNT2B_HUMAN;.	E	238;311;330	ENSP00000256640:K238E;ENSP00000358700:K311E;ENSP00000358698:K330E	ENSP00000256640:K238E	K	+	1	0	WNT2B	112864466	0.981000	0.34729	0.999000	0.59377	0.995000	0.86356	2.699000	0.47077	2.102000	0.63906	0.533000	0.62120	AAA		0.537	WNT2B-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030692.1	NM_004185		G	113062943	A	G	113062943	3	3	660	1	0	0	0	0	1	0	0	0	17399	15	1	3	1139	3	WNT2B	1	113062943	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10	26108167	113062943	136187678	4	40928										
RPTN	126638	broad.mit.edu	37	chr1	152127952	152127952	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ccatagtgggaactctggccTtgtctgtccatctgactgta	10	11	3	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr1:152127952T>C	ENST00000316073.3	-	3	1687	c.1623A>G	c.(1621-1623)caA>caG	p.Q541Q		NM_001122965.1	NP_001116437.1	Q6XPR3	RPTN_HUMAN	repetin	541	Gln-rich.					cornified envelope (GO:0001533)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)			breast(2)|central_nervous_system(1)|endometrium(14)|kidney(2)|large_intestine(1)|lung(32)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	59						AACTCTGGCCTTGTCTGTCCA	0.522																																																0													778	685	713					1																	152127952		1568	3582	5150	SO:0001819	synonymous_variant	126638			AK096436	CCDS41397.1	1q21.3	2013-01-10			ENSG00000215853	ENSG00000215853		"EF-hand domain containing"	26809	protein-coding gene	gene with protein product		613259				15854042	Standard	NM_001122965		Approved	FLJ39117	uc001ezs.1	Q6XPR3	OTTHUMG00000154095	ENST00000316073.3:c.1623A>G	1.37:g.152127952T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBZ3	Silent	SNP	ENST00000316073.3	37	CCDS41397.1																																																																																				0.522	RPTN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333867.1	XM_371312		C	152127952	T	C	152127952	2	2	660	1	0	0	0	0	0	0	0	1	13677	1606	56	3		3	RPTN	1	152127952	Silent	SNP	T	TCGA-KN-8424-01A-11D-2310-10	39065009	152127952	97122669	5	40929										
KIRREL	55243	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	158056511	158056511	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gccatccctagtggcaaggaGacttccatcgagctggatgt	12	11	0	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr1:158056511G>A	ENST00000359209.6	+	5	703	c.636G>A	c.(634-636)gaG>gaA	p.E212E	KIRREL_ENST00000360089.4_Intron|KIRREL_ENST00000368173.3_Silent_p.E212E|KIRREL_ENST00000416935.2_Silent_p.E112E|KIRREL_ENST00000392272.2_Intron|KIRREL_ENST00000368172.1_Silent_p.E10E			Q96J84	KIRR1_HUMAN	kin of IRRE like (Drosophila)	212	Ig-like C2-type 2.				excretion (GO:0007588)|negative regulation of protein phosphorylation (GO:0001933)|positive regulation of actin filament polymerization (GO:0030838)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|dendritic shaft (GO:0043198)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	myosin binding (GO:0017022)			NS(1)|autonomic_ganglia(1)|breast(2)|cervix(1)|endometrium(7)|kidney(2)|large_intestine(5)|lung(9)|ovary(1)|prostate(5)|skin(3)|stomach(1)	38	all_hematologic(112;0.0378)					GTGGCAAGGAGACTTCCATCG	0.567																																																0													116	93	100					1																	158056511		692	1591	2283	SO:0001819	synonymous_variant	55243			AK001707	CCDS1172.2, CCDS72952.1	1q21-q25	2013-01-29			ENSG00000183853	ENSG00000183853		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	15734	protein-coding gene	gene with protein product	"nephrin-like protein 1"	607428				12424224	Standard	NM_001286349		Approved	NEPH1	uc001frn.4	Q96J84	OTTHUMG00000022438	ENST00000359209.6:c.636G>A	1.37:g.158056511G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5W0F8|Q5XKC6|Q7Z696|Q7Z7N8|Q8TB15|Q9H9N1|Q9NVA5	Silent	SNP	ENST00000359209.6	37	CCDS1172.2																																																																																				0.567	KIRREL-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000058342.3	NM_018240		A	158056511	G	A	158056511	2	1	660	1	0	0	0	0	0	0	0	1	8331	933	33	2		2	KIRREL	1	158056511	Silent	SNP	G	TCGA-KN-8424-01A-11D-2310-10	5928559	158056511	91194110	6	40930										
OR6N2	81442	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	158746533	158746533	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tggtcctcttgatagctttaAtgatttccttgttacgaaga	8	7	1	3			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr1:158746533A>G	ENST00000339258.1	-	1	892	c.893T>C	c.(892-894)aTt>aCt	p.I298T		NM_001005278.1	NP_001005278.1	Q8NGY6	OR6N2_HUMAN	olfactory receptor, family 6, subfamily N, member 2	298						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(3)|large_intestine(6)|lung(10)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	24	all_hematologic(112;0.0378)					GATAGCTTTAATGATTTCCTT	0.408																																																0													169	161	164					1																	158746533		2203	4300	6503	SO:0001583	missense	81442			BK004200	CCDS30906.1	1q23.1	2012-08-09			ENSG00000188340	ENSG00000188340		"GPCR / Class A : Olfactory receptors"	15035	protein-coding gene	gene with protein product							Standard	NM_001005278		Approved		uc010pir.2	Q8NGY6	OTTHUMG00000022775	ENST00000339258.1:c.893T>C	1.37:g.158746533A>G	ENSP00000344101:p.Ile298Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFR2	Missense_Mutation	SNP	ENST00000339258.1	37	CCDS30906.1	.	.	.	.	.	.	.	.	.	.	A	4.818	0.152112	0.09185	.	.	ENSG00000188340	ENST00000339258	T	0.37058	1.22	4.64	4.64	0.57946	.	.	.	.	.	T	0.08670	0.0215	N	0.10916	0.065	0.27967	N	0.936542	B	0.25007	0.116	B	0.21546	0.035	T	0.14227	-1.0480	9	0.72032	D	0.01	-8.8046	7.5695	0.27898	0.8098:0.0:0.0:0.1902	.	298	Q8NGY6	OR6N2_HUMAN	T	298	ENSP00000344101:I298T	ENSP00000344101:I298T	I	-	2	0	OR6N2	157013157	0.942000	0.31987	1.000000	0.80357	0.176000	0.22953	1.575000	0.36493	1.928000	0.55862	0.528000	0.53228	ATT		0.408	OR6N2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059068.1			G	158746533	A	G	158746533	3	3	660	1	0	0	0	0	1	0	0	0	11214	101	4	3	63	3	OR6N2	1	158746533	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10	690022	158746533	90504088	7	40931										
C1orf27	54953	ucsc.edu	37	chr1	186388183	186388183	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tgcagtccttgctgcgggtaTctcctttcattacttcagtg	9	11	3	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr1:186388183T>C	ENST00000287859.6	+	14	1465	c.1340T>C	c.(1339-1341)aTc>aCc	p.I447T	C1orf27_ENST00000461662.1_3'UTR|C1orf27_ENST00000419367.3_Missense_Mutation_p.I415T|C1orf27_ENST00000367470.3_Missense_Mutation_p.I424T|C1orf27_ENST00000432021.3_Missense_Mutation_p.I424T	NM_017847.5	NP_060317.3	Q5SWX8	ODR4_HUMAN	chromosome 1 open reading frame 27	447						integral component of membrane (GO:0016021)	oxidoreductase activity (GO:0016491)|zinc ion binding (GO:0008270)			endometrium(1)|kidney(2)|large_intestine(2)|lung(3)|ovary(1)	9						GCTGCGGGTATCTCCTTTCAT	0.363																																																0													146	126	133					1																	186388183		1914	4127	6041	SO:0001583	missense	54953			BC003397	CCDS53448.1, CCDS53449.1, CCDS53450.1	1q25	2012-06-25			ENSG00000157181	ENSG00000157181			24299	protein-coding gene	gene with protein product	"transactivated by recombinant transforming growth factor beta"	609335				12868032	Standard	NM_017847		Approved	FLJ20505, odr-4, TTG1	uc021pgj.1	Q5SWX8	OTTHUMG00000035579	ENST00000287859.6:c.1340T>C	1.37:g.186388183T>C	ENSP00000287859:p.Ile447Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DNY0|E9PFR7|Q19CC6|Q8WYB6|Q9BTS2|Q9H6A6|Q9NX06	Missense_Mutation	SNP	ENST00000287859.6	37	CCDS53448.1	.	.	.	.	.	.	.	.	.	.	T	13.84	2.356748	0.41801	.	.	ENSG00000157181	ENST00000367470;ENST00000419367;ENST00000287859	T;T	0.51325	0.71;0.71	5.39	5.39	0.77823	.	0.553136	0.17798	N	0.161668	T	0.35970	0.0950	L	0.29908	0.895	0.34646	D	0.721136	P;B;B	0.36282	0.546;0.404;0.404	B;B;B	0.32980	0.156;0.109;0.156	T	0.54807	-0.8238	10	0.72032	D	0.01	-1.0242	11.7953	0.52096	0.0:0.0:0.0:1.0	.	415;424;447	E9PFR7;Q5SWX8-2;Q5SWX8	.;.;ODR4_HUMAN	T	424;415;447	ENSP00000395084:I415T;ENSP00000287859:I447T	ENSP00000287859:I447T	I	+	2	0	C1orf27	184654806	0.998000	0.40836	0.881000	0.34555	0.682000	0.39822	3.937000	0.56575	2.046000	0.60703	0.477000	0.44152	ATC		0.363	C1orf27-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086352.2	NM_017847		C	186388183	T	C	186388183	3	2	660	1	0	0	0	0	1	0	0	0	2038	1435	50	3	1390	3	C1orf27	1	186388183	Missense_Mutation	SNP	T	TCGA-KN-8424-01A-11D-2310-10	27641650	186388183	62862438	8	40932										
KLHL12	59349	bcgsc.ca	37	chr1	202888918	202888918	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gacaggctgcaggaagcagtTcttgtacattctccactgtc	10	11	2	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr1:202888918T>C	ENST00000367261.3	-	3	532	c.314A>G	c.(313-315)gAa>gGa	p.E105G	KLHL12_ENST00000435533.3_Missense_Mutation_p.E143G	NM_021633.2	NP_067646.1	Q53G59	KLH12_HUMAN	kelch-like family member 12	105					COPII vesicle coating (GO:0048208)|ER to Golgi vesicle-mediated transport (GO:0006888)|protein monoubiquitination (GO:0006513)|Wnt signaling pathway (GO:0016055)	Cul3-RING ubiquitin ligase complex (GO:0031463)|ER to Golgi transport vesicle (GO:0030134)|Golgi membrane (GO:0000139)				NS(3)|breast(2)|endometrium(1)|large_intestine(1)|lung(6)|stomach(1)	14			BRCA - Breast invasive adenocarcinoma(75;0.166)			AGGAAGCAGTTCTTGTACATT	0.388																																																0													97	84	89					1																	202888918		2203	4300	6503	SO:0001583	missense	59349			AF190900	CCDS1429.1	1q32.1	2013-01-30	2013-01-30		ENSG00000117153	ENSG00000117153		"Kelch-like", "BTB/POZ domain containing"	19360	protein-coding gene	gene with protein product		614522	"kelch-like 12 (Drosophila)"			12477932	Standard	NM_021633		Approved	C3IP1	uc001gyo.1	Q53G59	OTTHUMG00000041385	ENST00000367261.3:c.314A>G	1.37:g.202888918T>C	ENSP00000356230:p.Glu105Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEN8|B7Z7B8|Q9HBX5	Missense_Mutation	SNP	ENST00000367261.3	37	CCDS1429.1	.	.	.	.	.	.	.	.	.	.	T	18.75	3.690626	0.68271	.	.	ENSG00000117153	ENST00000367261;ENST00000435533;ENST00000367258	T;T;T	0.71341	-0.56;-0.56;-0.56	5.55	5.55	0.83447	BTB/POZ-like (1);BTB/POZ (1);BTB/POZ fold (2);	0.000000	0.85682	D	0.000000	T	0.71484	0.3345	N	0.14661	0.345	0.80722	D	1	B;D;D	0.62365	0.026;0.991;0.991	B;D;D	0.74023	0.036;0.982;0.982	T	0.70579	-0.4833	10	0.25106	T	0.35	.	15.9826	0.80125	0.0:0.0:0.0:1.0	.	143;143;105	B7Z7B8;A6NEN8;Q53G59	.;.;KLH12_HUMAN	G	105;143;143	ENSP00000356230:E105G;ENSP00000416886:E143G;ENSP00000356227:E143G	ENSP00000356227:E143G	E	-	2	0	KLHL12	201155541	1.000000	0.71417	0.957000	0.39632	0.975000	0.68041	8.040000	0.89188	2.235000	0.73313	0.460000	0.39030	GAA		0.388	KLHL12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000099151.1	NM_021633		C	202888918	T	C	202888918	3	2	660	1	0	0	0	0	1	0	0	0	8375	1783	62	3	1432	3	KLHL12	1	202888918	Missense_Mutation	SNP	T	TCGA-KN-8424-01A-11D-2310-10	16500735	202888918	46361703	9	40933										
MARCO	8685	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr2	119731958	119731958	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	atgcctggtgcccctggcccGccgggaccacctgctgagaa	13	16	0	1	rs140866852	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr2:119731958G>A	ENST00000327097.4	+	5	645	c.510G>A	c.(508-510)ccG>ccA	p.P170P	MARCO_ENST00000541757.1_Silent_p.P92P	NM_006770.3	NP_006761.1	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	170	Collagen-like.				apoptotic cell clearance (GO:0043277)|cell surface receptor signaling pathway (GO:0007166)|innate immune response (GO:0045087)|pattern recognition receptor signaling pathway (GO:0002221)	collagen trimer (GO:0005581)|endocytic vesicle membrane (GO:0030666)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	scavenger receptor activity (GO:0005044)|signaling pattern recognition receptor activity (GO:0008329)|transmembrane signaling receptor activity (GO:0004888)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|large_intestine(12)|lung(37)|ovary(4)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	70						CCCCTGGCCCGCCGGGACCAC	0.567													G|||	2	0.000399361	0.0	0.0	5008	,	,		18864	0.001		0.001	False		,,,				2504	0.0				GBM(8;18 374 7467 11269 32796)											0								G		1,4401	2.1+/-5.4	0,1,2200	63	67	66		510	-1.4	0	2	dbSNP_134	66	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	MARCO	NM_006770.3		0,2,6499	AA,AG,GG		0.0116,0.0227,0.0154		170/521	119731958	2,13000	2201	4300	6501	SO:0001819	synonymous_variant	8685			AF035819	CCDS2124.1	2q14.2	2011-10-11			ENSG00000019169	ENSG00000019169			6895	protein-coding gene	gene with protein product	"scavenger receptor class A, member 2"	604870				9468508, 7867067, 10331948	Standard	NM_006770		Approved	SCARA2	uc002tln.1	Q9UEW3	OTTHUMG00000131400	ENST00000327097.4:c.510G>A	2.37:g.119731958G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DW79|Q9Y5S3	Silent	SNP	ENST00000327097.4	37	CCDS2124.1																																																																																				0.567	MARCO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254190.2	NM_006770		A	119731958	G	A	119731958	2	1	660	1	0	0	0	0	0	0	0	1	9318	1074	38	1		1	MARCO	2	119731958	Silent	SNP	G	TCGA-KN-8424-01A-11D-2310-10		119731958	123467415	10	40934										
LRP2	4036	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	170060758	170060758	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	cttcacgatccacgcccgtcAgagtgctgcgttcaatcctc	8	16	3	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr2:170060758A>G	ENST00000263816.3	-	42	8024	c.7739T>C	c.(7738-7740)cTg>cCg	p.L2580P		NM_004525.2	NP_004516.2	P98164	LRP2_HUMAN	low density lipoprotein receptor-related protein 2	2580					cell proliferation (GO:0008283)|endocytosis (GO:0006897)|forebrain development (GO:0030900)|lipid metabolic process (GO:0006629)|phototransduction, visible light (GO:0007603)|protein glycosylation (GO:0006486)|receptor-mediated endocytosis (GO:0006898)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|vitamin D metabolic process (GO:0042359)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|coated pit (GO:0005905)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)			biliary_tract(1)|breast(16)|central_nervous_system(6)|cervix(2)|endometrium(24)|haematopoietic_and_lymphoid_tissue(2)|kidney(17)|large_intestine(70)|liver(1)|lung(117)|ovary(19)|pancreas(1)|prostate(2)|skin(17)|upper_aerodigestive_tract(7)|urinary_tract(13)	315				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	"""Insulin(DB00071)|Gentamicin(DB00798)|Insulin Regular(DB00030)|Urokinase(DB00013)"	CACGCCCGTCAGAGTGCTGCG	0.428																																																0													135	143	140					2																	170060758		2203	4300	6503	SO:0001583	missense	4036				CCDS2232.1	2q31.1	2013-05-28	2010-01-26		ENSG00000081479	ENSG00000081479		"Low density lipoprotein receptors"	6694	protein-coding gene	gene with protein product	"megalin"	600073				7959795	Standard	NM_004525		Approved	gp330, DBS	uc002ues.3	P98164	OTTHUMG00000132179	ENST00000263816.3:c.7739T>C	2.37:g.170060758A>G	ENSP00000263816:p.Leu2580Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O00711|Q16215	Missense_Mutation	SNP	ENST00000263816.3	37	CCDS2232.1	.	.	.	.	.	.	.	.	.	.	A	18.52	3.642492	0.67244	.	.	ENSG00000081479	ENST00000263816	D	0.97598	-4.45	5.78	4.62	0.57501	Six-bladed beta-propeller, TolB-like (1);	0.139853	0.48767	N	0.000164	D	0.98495	0.9498	M	0.91196	3.185	0.80722	D	1	D	0.71674	0.998	D	0.71414	0.973	D	0.98688	1.0695	10	0.72032	D	0.01	.	11.4806	0.50322	0.93:0.0:0.07:0.0	.	2580	P98164	LRP2_HUMAN	P	2580	ENSP00000263816:L2580P	ENSP00000263816:L2580P	L	-	2	0	LRP2	169769004	1.000000	0.71417	0.164000	0.22755	0.683000	0.39861	6.331000	0.72929	1.019000	0.39547	0.533000	0.62120	CTG		0.428	LRP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255231.2	NM_004525		G	170060758	A	G	170060758	3	3	660	1	0	0	0	0	1	0	0	0	8963	188	7	3	6380	3	LRP2	2	170060758	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10	50328800	170060758	73138615	11	40935										
TTN	7273	broad.mit.edu	37	chr2	179497287	179497287	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ttgccacttgtgtgcttatcTtcagcttcaaacatgtattt	6	9	3	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr2:179497287T>C	ENST00000591111.1	-	185	38747	c.38523A>G	c.(38521-38523)gaA>gaG	p.E12841E	TTN_ENST00000342175.6_Silent_p.E5609E|TTN-AS1_ENST00000589830.1_RNA|TTN-AS1_ENST00000590807.1_RNA|TTN-AS1_ENST00000592630.1_RNA|TTN_ENST00000359218.5_Silent_p.E5542E|TTN_ENST00000460472.2_Silent_p.E5417E|TTN_ENST00000589042.1_Silent_p.E14482E|TTN_ENST00000342992.6_Silent_p.E11914E|TTN-AS1_ENST00000589487.1_RNA|TTN-AS1_ENST00000589907.1_RNA|TTN-AS1_ENST00000585451.1_RNA			Q8WZ42	TITIN_HUMAN	titin	12841	Ig-like 85.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGTGCTTATCTTCAGCTTCAA	0.343																																																0													112	109	110					2																	179497287		1915	4116	6031	SO:0001819	synonymous_variant	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.38523A>G	2.37:g.179497287T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Silent	SNP	ENST00000591111.1	37																																																																																					0.343	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		C	179497287	T	C	179497287	2	2	660	1	0	0	0	0	0	0	0	1	16747	1606	56	3		3	TTN	2	179497287	Silent	SNP	T	TCGA-KN-8424-01A-11D-2310-10	9436529	179497287	63702086	12	40936										
ERBB4	2066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	212578299	212578299	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gcaaggtttacacattttaaTcccattttcttctacttcca	3	11	2	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr2:212578299T>C	ENST00000342788.4	-	8	1268	c.958A>G	c.(958-960)Att>Gtt	p.I320V	ERBB4_ENST00000436443.1_Missense_Mutation_p.I320V|ERBB4_ENST00000402597.1_Missense_Mutation_p.I320V	NM_005235.2	NP_005226.1	Q15303	ERBB4_HUMAN	v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 4	320	Cys-rich.				cardiac muscle tissue regeneration (GO:0061026)|cell fate commitment (GO:0045165)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|central nervous system morphogenesis (GO:0021551)|embryonic pattern specification (GO:0009880)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|lactation (GO:0007595)|mammary gland alveolus development (GO:0060749)|mammary gland epithelial cell differentiation (GO:0060644)|mitochondrial fragmentation involved in apoptotic process (GO:0043653)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|nervous system development (GO:0007399)|neural crest cell migration (GO:0001755)|neurotrophin TRK receptor signaling pathway (GO:0048011)|olfactory bulb interneuron differentiation (GO:0021889)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cardiac muscle cell proliferation (GO:0060045)|positive regulation of cell proliferation (GO:0008284)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of STAT protein import into nucleus (GO:2000366)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of tyrosine phosphorylation of Stat5 protein (GO:0042523)|protein autophosphorylation (GO:0046777)|regulation of cell migration (GO:0030334)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	basolateral plasma membrane (GO:0016323)|cytosol (GO:0005829)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|epidermal growth factor receptor binding (GO:0005154)|protein homodimerization activity (GO:0042803)|protein tyrosine kinase activity (GO:0004713)|receptor signaling protein tyrosine kinase activity (GO:0004716)|transcription regulatory region DNA binding (GO:0044212)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)	p.I320F(1)		NS(1)|breast(7)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(31)|lung(71)|pancreas(1)|prostate(3)|skin(39)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	179		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)	Afatinib(DB08916)	CACATTTTAATCCCATTTTCT	0.358										TSP Lung(8;0.080)																																						1	Substitution - Missense(1)	endometrium(1)											135	131	132					2																	212578299		2203	4300	6503	SO:0001583	missense	2066			L07868	CCDS2394.1, CCDS42811.1	2q33.3-q34	2013-10-11	2013-07-09		ENSG00000178568	ENSG00000178568			3432	protein-coding gene	gene with protein product		600543	"v-erb-a avian erythroblastic leukemia viral oncogene homolog-like 4"			7700649, 17018285	Standard	NM_001042599		Approved	ALS19	uc002veg.1	Q15303	OTTHUMG00000133012	ENST00000342788.4:c.958A>G	2.37:g.212578299T>C	ENSP00000342235:p.Ile320Val	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLD7|B7ZLE2|B7ZLE3|Q2M1W1|Q59EW4	Missense_Mutation	SNP	ENST00000342788.4	37	CCDS2394.1	.	.	.	.	.	.	.	.	.	.	T	4.757	0.140806	0.09083	.	.	ENSG00000178568	ENST00000342788;ENST00000436443;ENST00000402597	T;T;T	0.27890	1.64;1.64;1.64	5.57	5.57	0.84162	Growth factor, receptor (1);Furin-like cysteine-rich domain (1);	0.092812	0.64402	D	0.000001	T	0.15998	0.0385	N	0.11000	0.08	0.52099	D	0.999942	B;B;B;B;B	0.02656	0.0;0.0;0.0;0.0;0.0	B;B;B;B;B	0.04013	0.001;0.0;0.001;0.001;0.001	T	0.08166	-1.0735	10	0.02654	T	1	.	15.7821	0.78269	0.0:0.0:0.0:1.0	.	320;320;179;320;320	Q15303-4;Q15303-2;Q53QS8;Q15303-3;Q15303	.;.;.;.;ERBB4_HUMAN	V	320	ENSP00000342235:I320V;ENSP00000403204:I320V;ENSP00000385565:I320V	ENSP00000342235:I320V	I	-	1	0	ERBB4	212286544	1.000000	0.71417	0.984000	0.44739	0.989000	0.77384	6.285000	0.72658	2.129000	0.65627	0.529000	0.55759	ATT		0.358	ERBB4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256597.1	NM_001042599		C	212578299	T	C	212578299	3	2	660	1	0	0	0	0	1	0	0	0	5211	1435	50	3	3052	3	ERBB4	2	212578299	Missense_Mutation	SNP	T	TCGA-KN-8424-01A-11D-2310-10	33081012	212578299	30621074	13	40937										
ALPPL2	251	mdanderson.org	37	chr2	233271799	233271799	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	acccggacttctggaaccgcCaggcagccgaggccctgggt	14	15	1	0	rs146369944	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr2:233271799C>G	ENST00000295453.3	+	2	152	c.100C>G	c.(100-102)Cag>Gag	p.Q34E		NM_031313.2	NP_112603.2	P10696	PPBN_HUMAN	alkaline phosphatase, placental-like 2	34			Q -> E (in dbSNP:rs1048983).		dephosphorylation (GO:0016311)	anchored component of membrane (GO:0031225)|plasma membrane (GO:0005886)	alkaline phosphatase activity (GO:0004035)|metal ion binding (GO:0046872)			breast(2)|kidney(1)|large_intestine(1)|liver(2)|lung(6)|skin(1)	13		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)	Amifostine(DB01143)	CTGGAACCGCCAGGCAGCCGA	0.642																																																0													63	78	73					2																	233271799		2203	4300	6503	SO:0001583	missense	251			J04948	CCDS2491.1	2q37	2008-05-20			ENSG00000163286	ENSG00000163286			441	protein-coding gene	gene with protein product		171810					Standard	NM_031313		Approved		uc002vss.4	P10696	OTTHUMG00000133257	ENST00000295453.3:c.100C>G	2.37:g.233271799C>G	ENSP00000295453:p.Gln34Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAF2|Q16727|Q53S81|Q96CM1	Missense_Mutation	SNP	ENST00000295453.3	37	CCDS2491.1	.	.	.	.	.	.	.	.	.	.	C	0.009	-1.848184	0.00563	.	.	ENSG00000163286	ENST00000295453	T	0.37411	1.2	2.19	-0.276	0.12902	Alkaline phosphatase-like, alpha/beta/alpha (1);Alkaline-phosphatase-like, core domain (1);	0.518247	0.21905	N	0.067388	T	0.33585	0.0868	M	0.84846	2.72	0.09310	N	1	B	0.17852	0.024	B	0.14023	0.01	T	0.30119	-0.9989	10	0.36615	T	0.2	.	2.4239	0.04455	0.2975:0.4607:0.1215:0.1203	rs1048983;rs3189046	34	P10696	PPBN_HUMAN	E	34	ENSP00000295453:Q34E	ENSP00000295453:Q34E	Q	+	1	0	ALPPL2	232980043	0.000000	0.05858	0.003000	0.11579	0.021000	0.10359	-0.050000	0.11904	-0.074000	0.12820	0.205000	0.17691	CAG		0.642	ALPPL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257034.2	NM_031313		G	233271799	C	G	233271799	3	3	660	1	0	0	0	0	1	0	0	0	549	595	21	4	106	4	ALPPL2	2	233271799	Missense_Mutation	SNP	C	TCGA-KN-8424-01A-11D-2310-10	20693500	233271799	9927574	14	40938										
CAPN10	11132	mdanderson.org	37	chr2	241526428	241526428	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tctgcgacttgtctacgccgCtggcccagttccgcgaggac	12	15	2	0	rs138005500	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr2:241526428C>G	ENST00000391984.2	+	1	296	c.100C>G	c.(100-102)Ctg>Gtg	p.L34V	CAPN10-AS1_ENST00000567819.1_RNA|CAPN10_ENST00000404753.3_Missense_Mutation_p.L34V|CAPN10_ENST00000391982.2_Missense_Mutation_p.L34V|CAPN10_ENST00000354082.4_Missense_Mutation_p.L34V|CAPN10_ENST00000270364.7_Missense_Mutation_p.L34V|CAPN10_ENST00000352879.4_Missense_Mutation_p.L34V	NM_023083.3	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10	34	Calpain catalytic. {ECO:0000255|PROSITE- ProRule:PRU00239}.				actin cytoskeleton reorganization (GO:0031532)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular response to insulin stimulus (GO:0032869)|positive regulation of glucose import (GO:0046326)|positive regulation of insulin secretion (GO:0032024)|positive regulation of intracellular transport (GO:0032388)|positive regulation of type B pancreatic cell apoptotic process (GO:2000676)|proteolysis (GO:0006508)|type B pancreatic cell apoptotic process (GO:0097050)	cell (GO:0005623)|cytosol (GO:0005829)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	calcium-dependent cysteine-type endopeptidase activity (GO:0004198)|cytoskeletal protein binding (GO:0008092)|SNARE binding (GO:0000149)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(11)|ovary(3)|urinary_tract(1)	27		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)		GTCTACGCCGCTGGCCCAGTT	0.726													C|||	18	0.00359425	0.0	0.0014	5008	,	,		11190	0.0		0.0169	False		,,,				2504	0.0															0								C	VAL/LEU,VAL/LEU	4,4070		0,4,2033	5	5	5		100,100	2.5	1	2	dbSNP_134	5	46,8054		0,46,4004	yes	missense,missense	CAPN10	NM_023083.3,NM_023085.3	32,32	0,50,6037	GG,GC,CC		0.5679,0.0982,0.4107	probably-damaging,probably-damaging	34/673,34/518	241526428	50,12124	2037	4050	6087	SO:0001583	missense	11132			AF089088	CCDS33420.1, CCDS42838.1	2q37.3	2008-05-22			ENSG00000142330	ENSG00000142330			1477	protein-coding gene	gene with protein product		605286				11017071, 11018080	Standard	NM_023083		Approved		uc002vzk.2	Q9HC96	OTTHUMG00000133358	ENST00000391984.2:c.100C>G	2.37:g.241526428C>G	ENSP00000375844:p.Leu34Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8MVS7|Q4ZFV1|Q8NCD4|Q96IG4|Q96JI2|Q9HC89|Q9HC90|Q9HC91|Q9HC92|Q9HC93|Q9HC94|Q9HC95	Missense_Mutation	SNP	ENST00000391984.2	37	CCDS42838.1	20	0.009157509157509158	2	0.0040650406504065045	1	0.0027624309392265192	0	0.0	17	0.022427440633245383	C	14.30	2.493770	0.44352	9.82E-4	0.005679	ENSG00000142330	ENST00000391984;ENST00000391982;ENST00000404753;ENST00000270364;ENST00000352879;ENST00000354082	T;T;T;T;T;T	0.42513	2.39;2.39;2.39;0.97;0.97;2.39	3.44	2.55	0.30701	Peptidase C2, calpain, catalytic domain (3);	0.273086	0.30704	N	0.009053	T	0.29491	0.0735	L	0.42581	1.335	0.41081	D	0.985527	D;P;D;D;P	0.69078	0.997;0.909;0.987;0.994;0.955	D;P;P;P;P	0.66196	0.942;0.455;0.735;0.904;0.843	T	0.24012	-1.0172	10	0.17369	T	0.5	.	6.6983	0.23211	0.0:0.8657:0.0:0.1343	.	34;34;34;34;34	B7Z6G3;Q9HC96-7;Q9HC96-8;Q9HC96-3;Q9HC96	.;.;.;.;CAN10_HUMAN	V	34	ENSP00000375844:L34V;ENSP00000375842:L34V;ENSP00000384422:L34V;ENSP00000270364:L34V;ENSP00000289381:L34V;ENSP00000270362:L34V	ENSP00000270361:L34V	L	+	1	2	CAPN10	241175101	0.818000	0.29161	1.000000	0.80357	0.952000	0.60782	1.288000	0.33296	0.655000	0.30866	0.655000	0.94253	CTG		0.726	CAPN10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257191.3	NM_023083		G	241526428	C	G	241526428	3	3	660	1	0	0	0	0	1	0	0	0	2625	796	28	4	102	4	CAPN10	2	241526428	Missense_Mutation	SNP	C	TCGA-KN-8424-01A-11D-2310-10	8254629	241526428	1672945	15	40939										
ZNF385D	79750	bcgsc.ca	37	chr3	21462711	21462711	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	actcctatttggaatttagtAaggagcaaacagcacaggag	10	7	0	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr3:21462711A>G	ENST00000281523.2	-	8	1701	c.1183T>C	c.(1183-1185)Tac>Cac	p.Y395H		NM_024697.2	NP_078973.1	Q9H6B1	Z385D_HUMAN	zinc finger protein 385D	395						nucleus (GO:0005634)	nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)			NS(2)|breast(2)|endometrium(3)|kidney(2)|large_intestine(13)|lung(18)|ovary(1)|prostate(1)|skin(4)	46						GGAATTTAGTAAGGAGCAAAC	0.428																																																0													32	31	31					3																	21462711		2203	4300	6503	SO:0001583	missense	79750			BC007212	CCDS2636.1	3p24.3	2012-10-05	2007-12-06	2007-12-06	ENSG00000151789	ENSG00000151789			26191	protein-coding gene	gene with protein product			"zinc finger protein 659"	ZNF659		12477932	Standard	NM_024697		Approved	FLJ22419	uc003cce.3	Q9H6B1	OTTHUMG00000130484	ENST00000281523.2:c.1183T>C	3.37:g.21462711A>G	ENSP00000281523:p.Tyr395His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000281523.2	37	CCDS2636.1	.	.	.	.	.	.	.	.	.	.	A	21.2	4.117711	0.77323	.	.	ENSG00000151789	ENST00000281523	T	0.63913	-0.07	5.95	5.95	0.96441	.	0.060077	0.64402	D	0.000002	T	0.75140	0.3809	L	0.59436	1.845	0.58432	D	0.99999	D	0.76494	0.999	D	0.63597	0.916	T	0.77539	-0.2550	10	0.87932	D	0	-40.5365	16.4044	0.83654	1.0:0.0:0.0:0.0	.	395	Q9H6B1	Z385D_HUMAN	H	395	ENSP00000281523:Y395H	ENSP00000281523:Y395H	Y	-	1	0	ZNF385D	21437715	1.000000	0.71417	0.995000	0.50966	0.992000	0.81027	9.284000	0.95882	2.273000	0.75805	0.455000	0.32223	TAC		0.428	ZNF385D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252884.1	NM_024697		G	21462711	A	G	21462711	3	3	660	1	0	0	0	0	1	0	0	0	17890	362	13	3	8	3	ZNF385D	3	21462711	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10		21462711	176559719	16	40940										
XYLB	9942	hgsc.bcm.edu;mdanderson.org	37	chr3	38388378	38388378	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ccatggcggagcacgcccctCgccgctgctgcctgggctgg	15	17	0	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr3:38388378C>T	ENST00000207870.3	+	1	109	c.19C>T	c.(19-21)Cgc>Tgc	p.R7C	XYLB_ENST00000427323.1_Missense_Mutation_p.R7C|XYLB_ENST00000542835.1_5'UTR	NM_005108.3	NP_005099.2	O75191	XYLB_HUMAN	xylulokinase homolog (H. influenzae)	7					carbohydrate metabolic process (GO:0005975)|carbohydrate phosphorylation (GO:0046835)|D-xylose metabolic process (GO:0042732)|generation of precursor metabolites and energy (GO:0006091)|xylulose catabolic process (GO:0005998)|xylulose metabolic process (GO:0005997)	extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|xylulokinase activity (GO:0004856)			endometrium(3)|kidney(3)|large_intestine(3)|liver(1)|lung(12)|ovary(1)|prostate(1)	24				KIRC - Kidney renal clear cell carcinoma(284;0.00372)|Kidney(284;0.00405)		GCACGCCCCTCGCCGCTGCTG	0.736																																																0													8	10	10					3																	38388378		2105	4150	6255	SO:0001583	missense	9942			AB015046	CCDS2678.1	3p22-p21.3	2006-12-18	2001-12-04		ENSG00000093217	ENSG00000093217			12839	protein-coding gene	gene with protein product		604049	"xylulokinase (H. influenzae) homolog"			9763671	Standard	NM_005108		Approved	FLJ10343, FLJ12539	uc003cic.2	O75191	OTTHUMG00000131294	ENST00000207870.3:c.19C>T	3.37:g.38388378C>T	ENSP00000207870:p.Arg7Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAW4|B4DDT2|B9EH64	Missense_Mutation	SNP	ENST00000207870.3	37	CCDS2678.1	.	.	.	.	.	.	.	.	.	.	C	17.67	3.446699	0.63178	.	.	ENSG00000093217	ENST00000427323;ENST00000207870	T	0.14893	2.47	3.55	1.66	0.24008	.	1.030270	0.07717	N	0.942921	T	0.18087	0.0434	L	0.38175	1.15	0.20873	N	0.999831	D	0.69078	0.997	P	0.49502	0.613	T	0.18618	-1.0331	10	0.59425	D	0.04	.	4.5237	0.11971	0.0:0.641:0.2321:0.1269	.	7	O75191	XYLB_HUMAN	C	7	ENSP00000207870:R7C	ENSP00000207870:R7C	R	+	1	0	XYLB	38363382	0.091000	0.21658	0.003000	0.11579	0.185000	0.23345	1.371000	0.34250	0.450000	0.26774	0.650000	0.86243	CGC		0.736	XYLB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254062.2	NM_005108		T	38388378	C	T	38388378	3	4	660	1	0	0	0	0	1	0	0	0	17474	884	31	1	21	1	XYLB	3	38388378	Missense_Mutation	SNP	C	TCGA-KN-8424-01A-11D-2310-10	16925667	38388378	159634052	17	40941										
VPRBP	9730	broad.mit.edu;mdanderson.org	37	chr3	51475088	51475088	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tgcatgaatatgggaagtagCtgaaatgaacaccaaataca	9	6	0	3			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr3:51475088C>T	ENST00000335891.5	-	6	682							Q9Y4B6	VPRBP_HUMAN	Vpr (HIV-1) binding protein						B cell differentiation (GO:0030183)|cell competition in a multicellular organism (GO:0035212)|histone H2A-T120 phosphorylation (GO:1990245)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|protein ubiquitination (GO:0016567)|transcription, DNA-templated (GO:0006351)|V(D)J recombination (GO:0033151)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|histone kinase activity (H2A-T120 specific) (GO:1990244)			breast(1)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(6)|lung(12)|ovary(1)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	41				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		TGGGAAGTAGCTGAAATGAAC	0.378																																																0													55	52	53					3																	51475088		1907	4116	6023	SO:0001627	intron_variant	9730			AB018343	CCDS74943.1, CCDS74944.1	3p21.2	2011-06-17			ENSG00000145041	ENSG00000145041		"DDB1 and CUL4 associated factors"	30911	protein-coding gene	gene with protein product	"DDB1 and CUL4 associated factor 1"					8195203, 11223251	Standard	NM_014703		Approved	KIAA0800, MGC102804, DCAF1	uc003dbe.2	Q9Y4B6	OTTHUMG00000156895	ENST00000335891.5:c.672+666G>A	3.37:g.51475088C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2YD74|Q8TBD9|Q9HCA1|Q9UG37	Splice_Site	SNP	ENST00000335891.5	37		.	.	.	.	.	.	.	.	.	.	C	27.9	4.874099	0.91664	.	.	ENSG00000145041	ENST00000504652	.	.	.	6.17	6.17	0.99709	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	20.8794	0.99867	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	VPRBP	51450128	1.000000	0.71417	1.000000	0.80357	0.962000	0.63368	7.270000	0.78493	2.941000	0.99782	0.655000	0.94253	.		0.378	VPRBP-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_014703		T	51475088	C	T	51475088	1	4	660	0	1	0	0	0	0	0	0	0	17197	811	28	2		2	VPRBP	3	51475088	Intron	SNP	C	TCGA-KN-8424-01A-11D-2310-10	13086710	51475088	146547342	18	40942										
ALAS1	211	broad.mit.edu	37	chr3	52233380	52233380	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	aagatgatggaagttggggcCaagccagcccctcgggcatt	14	10	0	2	rs182395582		TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr3:52233380C>A	ENST00000394965.2	+	3	483	c.123C>A	c.(121-123)gcC>gcA	p.A41A	ALAS1_ENST00000469224.1_Silent_p.A41A|ALAS1_ENST00000310271.2_Silent_p.A41A|ALAS1_ENST00000484952.1_Silent_p.A41A	NM_000688.5	NP_000679.1	P13196	HEM1_HUMAN	aminolevulinate, delta-, synthase 1	41					cellular lipid metabolic process (GO:0044255)|heme biosynthetic process (GO:0006783)|porphyrin-containing compound metabolic process (GO:0006778)|protoporphyrinogen IX biosynthetic process (GO:0006782)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	5-aminolevulinate synthase activity (GO:0003870)|pyridoxal phosphate binding (GO:0030170)			endometrium(3)|kidney(3)|large_intestine(7)|liver(2)|lung(5)|ovary(2)|upper_aerodigestive_tract(1)	23				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.000583)|KIRC - Kidney renal clear cell carcinoma(197;0.000751)	Glycine(DB00145)	AAGTTGGGGCCAAGCCAGCCC	0.527																																																0													59	56	57					3																	52233380		2203	4300	6503	SO:0001819	synonymous_variant	211			X56351	CCDS2847.1	3p21	2004-11-18			ENSG00000023330	ENSG00000023330	2.3.1.37		396	protein-coding gene	gene with protein product		125290		ALAS3, ALAS			Standard	NM_000688		Approved		uc003dcz.2	P13196	OTTHUMG00000158108	ENST00000394965.2:c.123C>A	3.37:g.52233380C>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000394965.2	37	CCDS2847.1																																																																																				0.527	ALAS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350207.1			A	52233380	C	A	52233380	2	1	660	1	0	0	0	0	0	0	0	1	484	581	21	4		4	ALAS1	3	52233380	Silent	SNP	C	TCGA-KN-8424-01A-11D-2310-10	758292	52233380	145789050	19	40943										
FAM194A	131831	broad.mit.edu	37	chr3	150421569	150421569	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tcctcctcctcctccacctcTtcctcctcctcctccacctc	0	26	1	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr3:150421569T>C	ENST00000295910.6	-	1	169	c.117A>G	c.(115-117)gaA>gaG	p.E39E	RP11-103G8.2_ENST00000471093.1_RNA|RP11-103G8.2_ENST00000475393.1_RNA|FAM194A_ENST00000491361.1_Intron	NM_152394.3	NP_689607.2												p.E39E(1)		NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(3)|kidney(1)|large_intestine(10)|lung(14)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	38						cctccacctcttcctcctcct	0.627																																																1	Substitution - coding silent(1)	prostate(1)											92	78	83					3																	150421569		2203	4298	6501	SO:0001819	synonymous_variant	131831																														ENST00000295910.6:c.117A>G	3.37:g.150421569T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000295910.6	37	CCDS3151.2																																																																																				0.627	FAM194A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257666.1			C	150421569	T	C	150421569	2	2	660	1	0	0	0	0	0	0	0	1	5530	1606	56	3		3	FAM194A	3	150421569	Silent	SNP	T	TCGA-KN-8424-01A-11D-2310-10	98188189	150421569	47600861	20	40944										
EIF4G1	1981	broad.mit.edu	37	chr3	184035256	184035256	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	cccagatctcctacccagccTcccagggggcctactacatc	7	19	1	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr3:184035256T>C	ENST00000346169.2	+	5	566	c.295T>C	c.(295-297)Tcc>Ccc	p.S99P	EIF4G1_ENST00000342981.4_Missense_Mutation_p.S99P|EIF4G1_ENST00000319274.6_Missense_Mutation_p.S99P|EIF4G1_ENST00000414031.1_Missense_Mutation_p.S59P|EIF4G1_ENST00000434061.2_5'Flank|EIF2B5_ENST00000444495.1_Intron|EIF4G1_ENST00000427845.1_Missense_Mutation_p.S12P|EIF4G1_ENST00000424196.1_Missense_Mutation_p.S106P|EIF4G1_ENST00000441154.1_5'Flank|EIF4G1_ENST00000392537.2_Missense_Mutation_p.S12P|EIF4G1_ENST00000352767.3_Missense_Mutation_p.S106P|EIF4G1_ENST00000350481.5_Intron|EIF4G1_ENST00000382330.3_Missense_Mutation_p.S106P|EIF4G1_ENST00000411531.1_Missense_Mutation_p.S59P	NM_198241.2	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4 gamma, 1	99					cell death (GO:0008219)|cellular protein metabolic process (GO:0044267)|cytokine-mediated signaling pathway (GO:0019221)|gene expression (GO:0010467)|insulin receptor signaling pathway (GO:0008286)|lung development (GO:0030324)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|regulation of translational initiation (GO:0006446)|response to ethanol (GO:0045471)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)|viral process (GO:0016032)	cytosol (GO:0005829)|eukaryotic translation initiation factor 4F complex (GO:0016281)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|translation factor activity, nucleic acid binding (GO:0008135)|translation initiation factor activity (GO:0003743)			central_nervous_system(1)|cervix(2)|endometrium(3)|kidney(5)|large_intestine(14)|lung(41)|ovary(2)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	75	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CTACCCAGCCTCCCAGGGGGC	0.612																																																0													48	54	52					3																	184035256		2203	4300	6503	SO:0001583	missense	1981			D12686	CCDS3259.1, CCDS3260.1, CCDS3261.1, CCDS46970.1, CCDS46970.2, CCDS54687.1, CCDS54688.1	3q27.1	2013-09-19			ENSG00000114867	ENSG00000114867		"Parkinson disease"	3296	protein-coding gene	gene with protein product		600495		EIF4G, EIF4F		1429670, 9372926, 21907011	Standard	NM_182917		Approved	p220, PARK18	uc010hxy.3	Q04637	OTTHUMG00000156784	ENST00000346169.2:c.295T>C	3.37:g.184035256T>C	ENSP00000316879:p.Ser99Pro	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNT2|D3DNT4|D3DNT5|E9PFM1|G5E9S1|O43177|O95066|Q5HYG0|Q6ZN21|Q8N102	Missense_Mutation	SNP	ENST00000346169.2	37	CCDS3259.1	.	.	.	.	.	.	.	.	.	.	T	11.11	1.542841	0.27563	.	.	ENSG00000114867	ENST00000346169;ENST00000414031;ENST00000392537;ENST00000450424;ENST00000421110;ENST00000382330;ENST00000455679;ENST00000440448;ENST00000352767;ENST00000427141;ENST00000427845;ENST00000342981;ENST00000319274;ENST00000424196;ENST00000456033;ENST00000411531	T;T;T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.37411	2.09;2.09;1.2;2.09;2.09;2.09;1.2;1.2;2.09;1.2;1.2;2.09;2.09;2.09;1.2;2.09	5.08	5.08	0.68730	.	0.514295	0.20823	N	0.085028	T	0.19087	0.0458	N	0.11673	0.155	0.50632	D	0.99988	B;B;B	0.12630	0.006;0.006;0.006	B;B;B	0.09377	0.004;0.004;0.004	T	0.06481	-1.0824	10	0.06099	T	0.92	-13.2414	15.0055	0.71510	0.0:0.0:0.0:1.0	.	106;99;99	E9PFM1;D3DNT2;Q04637	.;.;IF4G1_HUMAN	P	99;59;12;99;106;106;59;99;106;66;12;99;99;106;59;59	ENSP00000316879:S99P;ENSP00000391935:S59P;ENSP00000376320:S12P;ENSP00000391412:S99P;ENSP00000413159:S106P;ENSP00000371767:S106P;ENSP00000415842:S59P;ENSP00000407240:S99P;ENSP00000338020:S106P;ENSP00000411214:S66P;ENSP00000407682:S12P;ENSP00000343450:S99P;ENSP00000323737:S99P;ENSP00000416255:S106P;ENSP00000415943:S59P;ENSP00000395974:S59P	ENSP00000323737:S99P	S	+	1	0	EIF4G1	185517950	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	5.037000	0.64170	2.133000	0.65898	0.533000	0.62120	TCC		0.612	EIF4G1-007	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000345733.1	NM_182917		C	184035256	T	C	184035256	3	2	660	1	0	0	0	0	1	0	0	0	5038	1551	54	3	305	3	EIF4G1	3	184035256	Missense_Mutation	SNP	T	TCGA-KN-8424-01A-11D-2310-10	33613687	184035256	13987174	21	40945										
SHROOM3	57619	mdanderson.org	37	chr4	77662125	77662125	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	agcatcaaggacgcacagtcCcgtgtcttgggggccacctc	12	14	2	0	rs36036308	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr4:77662125C>T	ENST00000296043.6	+	5	3752	c.2799C>T	c.(2797-2799)tcC>tcT	p.S933S		NM_020859.3	NP_065910.3	Q8TF72	SHRM3_HUMAN	shroom family member 3	933	ASD1. {ECO:0000255|PROSITE- ProRule:PRU00637}.				actin cytoskeleton organization (GO:0030036)|apical protein localization (GO:0045176)|cell morphogenesis (GO:0000902)|cellular pigment accumulation (GO:0043482)|columnar/cuboidal epithelial cell development (GO:0002066)|neural tube closure (GO:0001843)|pattern specification process (GO:0007389)|regulation of cell shape (GO:0008360)	adherens junction (GO:0005912)|apical junction complex (GO:0043296)|apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|microtubule (GO:0005874)				NS(3)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(10)|kidney(2)|large_intestine(6)|lung(29)|ovary(1)|skin(5)|upper_aerodigestive_tract(1)	60			Lung(101;0.0903)			ACGCACAGTCCCGTGTCTTGG	0.721													C|||	187	0.0373403	0.031	0.0375	5008	,	,		11231	0.004		0.0895	False		,,,				2504	0.0266															0								C		133,4161		2,129,2016	9	10	10		2799	2.3	1	4	dbSNP_126	10	719,7635		31,657,3489	no	coding-synonymous	SHROOM3	NM_020859.3		33,786,5505	TT,TC,CC		8.6067,3.0973,6.7362		933/1997	77662125	852,11796	2147	4177	6324	SO:0001819	synonymous_variant	57619			AB055660	CCDS3579.2	4q21.1	2009-11-25			ENSG00000138771	ENSG00000138771			30422	protein-coding gene	gene with protein product		604570				10589677, 16615870	Standard	NM_020859		Approved	ShrmL, SHRM, KIAA1481, APXL3	uc011cbx.2	Q8TF72	OTTHUMG00000157075	ENST00000296043.6:c.2799C>T	4.37:g.77662125C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5QTQ3|Q6ZRW3|Q96IR9|Q9P247	Silent	SNP	ENST00000296043.6	37	CCDS3579.2																																																																																				0.721	SHROOM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252408.2	NM_020859		T	77662125	C	T	77662125	2	4	660	1	0	0	0	0	0	0	0	1	14308	610	22	2		2	SHROOM3	4	77662125	Silent	SNP	C	TCGA-KN-8424-01A-11D-2310-10		77662125	113492151	22	40946										
GZMK	3003	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	54329718	54329718	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	accaagaaataccagacttgGatcaaaagcaaccttgtccc	6	12	1	2			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr5:54329718G>A	ENST00000231009.2	+	5	829	c.759G>A	c.(757-759)tgG>tgA	p.W253*	CTD-2313F11.1_ENST00000609699.1_RNA|CTD-2313F11.1_ENST00000609792.1_RNA|CTD-2313F11.1_ENST00000595218.1_RNA|CTD-2313F11.1_ENST00000596137.1_RNA	NM_002104.2	NP_002095.1	P49863	GRAK_HUMAN	granzyme K (granzyme 3; tryptase II)	253	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.					extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			autonomic_ganglia(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(4)	15		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)				ACCAGACTTGGATCAAAAGCA	0.408																																																0													105	98	100					5																	54329718		2203	4300	6503	SO:0001587	stop_gained	3003			BC035802	CCDS3964.1	5q11.2	2008-05-15	2005-08-17		ENSG00000113088	ENSG00000113088			4711	protein-coding gene	gene with protein product		600784	"granzyme K (serine protease, granzyme 3; tryptase II)"			7758581	Standard	NM_002104		Approved	TRYP2, PRSS	uc003jpl.1	P49863	OTTHUMG00000097009	ENST00000231009.2:c.759G>A	5.37:g.54329718G>A	ENSP00000231009:p.Trp253*	Somatic		WXS	Illumina HiSeq	Phase_I	B2R563	Nonsense_Mutation	SNP	ENST00000231009.2	37	CCDS3964.1	.	.	.	.	.	.	.	.	.	.	G	23.1	4.378106	0.82682	.	.	ENSG00000113088	ENST00000231009	.	.	.	4.84	3.93	0.45458	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	12.1296	0.53936	0.0:0.0:0.8272:0.1728	.	.	.	.	X	253	.	ENSP00000231009:W253X	W	+	3	0	GZMK	54365475	1.000000	0.71417	0.999000	0.59377	0.817000	0.46193	4.997000	0.63921	1.302000	0.44855	0.655000	0.94253	TGG		0.408	GZMK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214098.1	NM_002104		A	54329718	G	A	54329718	4	1	660	1	0	0	0	0	0	1	0	0	6925	1183	41	2	777	2	GZMK	5	54329718	Nonsense_Mutation	SNP	G	TCGA-KN-8424-01A-11D-2310-10		54329718	126585542	23	40947										
PCDHA8	56140	mdanderson.org	37	chr5	140222641	140222641	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gcactggtggcgcagcgagcAagctggtgccgcggtctgtg	18	11	1	0	rs6580012	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr5:140222641A>G	ENST00000531613.1	+	1	1735	c.1735A>G	c.(1735-1737)Aag>Gag	p.K579E	PCDHA4_ENST00000512229.2_Intron|PCDHA1_ENST00000394633.3_Intron|PCDHA8_ENST00000378123.3_Missense_Mutation_p.K579E|PCDHA4_ENST00000530339.1_Intron|PCDHA7_ENST00000525929.1_Intron|PCDHA1_ENST00000504120.2_Intron|PCDHA6_ENST00000529310.1_Intron|PCDHA2_ENST00000526136.1_Intron|PCDHA5_ENST00000529619.1_Intron|PCDHA3_ENST00000522353.2_Intron|PCDHA5_ENST00000529859.1_Intron|PCDHA6_ENST00000527624.1_Intron	NM_018911.2	NP_061734.1	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8	579			K -> E (in dbSNP:rs6580012).		cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			NS(2)|breast(3)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(10)|lung(31)|ovary(2)|prostate(2)|skin(4)|stomach(2)|upper_aerodigestive_tract(6)	78			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCAGCGAGCAAGCTGGTGCC	0.677													.|||	2882	0.575479	0.7345	0.562	5008	,	,		14758	0.5268		0.4911	False		,,,				2504	0.5072															0								G	,,,,,,,GLU/LYS,,,GLU/LYS	3133,1257		1169,795,231	52	57	55		,,,,,,,1735,,,1735	0.4	0	5	dbSNP_116	55	4023,4497		1149,1725,1386	no	intron,intron,intron,intron,intron,intron,intron,missense,intron,intron,missense	PCDHA8,PCDHA7,PCDHA6,PCDHA5,PCDHA4,PCDHA3,PCDHA2,PCDHA1	NM_018900.2,NM_018905.2,NM_018906.2,NM_018907.2,NM_018908.2,NM_018909.2,NM_018910.2,NM_018911.2,NM_031411.1,NM_031849.1,NM_031856.1	,,,,,,,56,,,56	2318,2520,1617	GG,GA,AA		47.2183,28.6333,44.5701	,,,,,,,,,,	,,,,,,,579/951,,,579/815	140222641	7156,5754	2195	4260	6455	SO:0001583	missense	56140			AF152486	CCDS54919.1	5q31	2010-11-26				ENSG00000204962		"Cadherins / Protocadherins : Clustered"	8674	other	complex locus constituent	"KIAA0345-like 6"	606314				10380929	Standard	NM_018911		Approved			Q9Y5H6		ENST00000531613.1:c.1735A>G	5.37:g.140222641A>G	ENSP00000434655:p.Lys579Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGT7|O75281	Missense_Mutation	SNP	ENST00000531613.1	37	CCDS54919.1	1207	0.5526556776556777	350	0.7113821138211383	184	0.5082872928176796	302	0.527972027972028	371	0.4894459102902375	G	1.084	-0.665977	0.03428	0.713667	0.472183	ENSG00000204962	ENST00000531613;ENST00000378123	T;T	0.19806	2.12;2.12	3.49	0.381	0.16228	Cadherin-like (1);	0.000000	0.36932	N	0.002335	T	0.00012	0.0000	N	0.00926	-1.1	0.80722	P	0.0	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.34750	-0.9816	9	0.02654	T	1	.	6.1288	0.20194	0.2432:0.4246:0.3322:0.0	rs6580012;rs17844319	579;579	Q9Y5H6;Q9Y5H6-2	PCDA8_HUMAN;.	E	579	ENSP00000434655:K579E;ENSP00000367363:K579E	ENSP00000367363:K579E	K	+	1	0	PCDHA8	140202825	0.192000	0.23301	0.000000	0.03702	0.029000	0.11900	1.550000	0.36223	-0.581000	0.05937	-0.665000	0.03846	AAG		0.677	PCDHA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372830.2	NM_018911		G	140222641	A	G	140222641	3	3	660	1	0	0	0	0	1	0	0	0	11537	131	5	3	1737	3	PCDHA8	5	140222641	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10	85892923	140222641	40692619	24	40948										
PCDHA10	56139	bcgsc.ca	37	chr5	140236871	140236871	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ggtgctggacagcgctctggAccgcgagagggtgtcggcct	18	11	1	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr5:140236871A>G	ENST00000307360.5	+	1	1238	c.1238A>G	c.(1237-1239)gAc>gGc	p.D413G	PCDHA4_ENST00000512229.2_Intron|PCDHA1_ENST00000394633.3_Intron|PCDHA9_ENST00000532602.1_Intron|PCDHA4_ENST00000530339.1_Intron|PCDHA8_ENST00000531613.1_Intron|PCDHA7_ENST00000525929.1_Intron|PCDHA1_ENST00000504120.2_Intron|PCDHA10_ENST00000506939.2_Missense_Mutation_p.D413G|PCDHA6_ENST00000529310.1_Intron|PCDHA2_ENST00000526136.1_Intron|PCDHA5_ENST00000529619.1_Intron|PCDHA3_ENST00000522353.2_Intron|PCDHA5_ENST00000529859.1_Intron|PCDHA6_ENST00000527624.1_Intron	NM_018901.2	NP_061724.1	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10	413	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			NS(1)|breast(11)|cervix(1)|endometrium(11)|kidney(5)|large_intestine(13)|liver(2)|lung(20)|ovary(3)|pancreas(1)|prostate(3)|skin(6)|upper_aerodigestive_tract(2)	79			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCGCTCTGGACCGCGAGAGG	0.647																																																0													139	126	130					5																	140236871		2197	4274	6471	SO:0001583	missense	56139			AF152475	CCDS34255.1, CCDS54921.1, CCDS75325.1	5q31	2010-11-26			ENSG00000250120	ENSG00000250120		"Cadherins / Protocadherins : Clustered"	8664	other	complex locus constituent	"KIAA0345-like 4", "ortholog to mouse CNR8"	606316		CNRS8		10380929	Standard	NM_018901		Approved	CNR8, CRNR8, CNRN8, PCDH-ALPHA10		Q9Y5I2	OTTHUMG00000163372	ENST00000307360.5:c.1238A>G	5.37:g.140236871A>G	ENSP00000304234:p.Asp413Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A1L493|O75280|Q9NRU2	Missense_Mutation	SNP	ENST00000307360.5	37	CCDS54921.1	.	.	.	.	.	.	.	.	.	.	A	15.02	2.708210	0.48412	.	.	ENSG00000250120	ENST00000506939;ENST00000307360	T;T	0.65178	-0.14;-0.14	3.96	3.96	0.45880	Cadherin (4);Cadherin-like (1);	.	.	.	.	D	0.87144	0.6104	H	0.99117	4.435	0.44234	D	0.997076	D;D;D	0.89917	1.0;0.999;1.0	D;D;D	0.97110	0.993;0.975;1.0	D	0.91942	0.5564	9	0.87932	D	0	.	13.3507	0.60601	1.0:0.0:0.0:0.0	.	413;413;413	Q9Y5I2-3;Q9Y5I2;Q9Y5I2-2	.;PCDAA_HUMAN;.	G	413	ENSP00000421030:D413G;ENSP00000304234:D413G	ENSP00000304234:D413G	D	+	2	0	PCDHA10	140217055	1.000000	0.71417	0.998000	0.56505	0.288000	0.27193	8.817000	0.91985	1.790000	0.52503	0.454000	0.30748	GAC		0.647	PCDHA10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372895.2	NM_018901		G	140236871	A	G	140236871	3	3	660	1	0	0	0	0	1	0	0	0	11527	275	10	3	1240	3	PCDHA10	5	140236871	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10	14230	140236871	40678389	25	40949										
STC2	8614	broad.mit.edu	37	chr5	172750382	172750382	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gcttatgcagccgaacctgtGccgcagagcgtgggccttac	13	13	0	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr5:172750382G>T	ENST00000265087.4	-	3	1655	c.346C>A	c.(346-348)Cac>Aac	p.H116N	STC2_ENST00000520593.1_5'UTR	NM_003714.2	NP_003705.1	O76061	STC2_HUMAN	stanniocalcin 2	116					cellular calcium ion homeostasis (GO:0006874)|cellular response to hypoxia (GO:0071456)|decidualization (GO:0046697)|embryo implantation (GO:0007566)|endoplasmic reticulum unfolded protein response (GO:0030968)|negative regulation of gene expression (GO:0010629)|negative regulation of multicellular organism growth (GO:0040015)|regulation of hormone biosynthetic process (GO:0046885)|regulation of store-operated calcium entry (GO:2001256)|response to oxidative stress (GO:0006979)|response to peptide hormone (GO:0043434)|response to vitamin D (GO:0033280)	endoplasmic reticulum (GO:0005783)|extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|perinuclear region of cytoplasm (GO:0048471)	enzyme binding (GO:0019899)|heme binding (GO:0020037)|protein homodimerization activity (GO:0042803)			endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(4)|lung(10)|ovary(1)|prostate(1)|skin(3)	25	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|Ovarian(839;0.223)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CCGAACCTGTGCCGCAGAGCG	0.592																																																0													37	33	34					5																	172750382		2203	4300	6503	SO:0001583	missense	8614			AB012664	CCDS4388.1	5q35.2	2004-05-17			ENSG00000113739	ENSG00000113739			11374	protein-coding gene	gene with protein product		603665				9723890, 9753616	Standard	NM_003714		Approved	STC-2	uc003mco.1	O76061	OTTHUMG00000130542	ENST00000265087.4:c.346C>A	5.37:g.172750382G>T	ENSP00000265087:p.His116Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000265087.4	37	CCDS4388.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	22.0|22.0	4.233125|4.233125	0.79688|0.79688	.|.	.|.	ENSG00000113739|ENSG00000113739	ENST00000520648|ENST00000265087;ENST00000518455	.|.	.|.	.|.	5.44|5.44	5.44|5.44	0.79542|0.79542	.|.	.|0.097540	.|0.64402	.|D	.|0.000001	T|T	0.59569|0.59569	0.2203|0.2203	L|L	0.50919|0.50919	1.6|1.6	0.58432|0.58432	D|D	0.999999|0.999999	.|P	.|0.40398	.|0.716	.|B	.|0.43052	.|0.406	T|T	0.58696|0.58696	-0.7591|-0.7591	5|9	.|0.39692	.|T	.|0.17	-24.4682|-24.4682	19.2469|19.2469	0.93905|0.93905	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|116	.|O76061	.|STC2_HUMAN	E|N	69|116;31	.|.	.|ENSP00000265087:H116N	A|H	-|-	2|1	0|0	STC2|STC2	172682988|172682988	1.000000|1.000000	0.71417|0.71417	0.992000|0.992000	0.48379|0.48379	0.856000|0.856000	0.48823|0.48823	9.476000|9.476000	0.97823|0.97823	2.553000|2.553000	0.86117|0.86117	0.655000|0.655000	0.94253|0.94253	GCA|CAC		0.592	STC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252965.1	NM_003714		T	172750382	G	T	172750382	3	4	660	1	0	0	0	0	1	0	0	0	15288	1319	46	4	570	4	STC2	5	172750382	Missense_Mutation	SNP	G	TCGA-KN-8424-01A-11D-2310-10	32513511	172750382	8164878	26	40950										
DSP	1832	ucsc.edu	37	chr6	7572208	7572208	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	cagaagattcgcaggcagatAgagcactgcgagggcaggat	15	8	0	4	rs151049942	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr6:7572208A>G	ENST00000379802.3	+	15	2378	c.2037A>G	c.(2035-2037)atA>atG	p.I679M	DSP_ENST00000418664.2_Missense_Mutation_p.I679M	NM_004415.2	NP_004406.2	P15924	DESP_HUMAN	desmoplakin	679	Globular 1.				adherens junction organization (GO:0034332)|apoptotic process (GO:0006915)|bundle of His cell to Purkinje myocyte communication (GO:0086069)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|desmosome organization (GO:0002934)|epidermis development (GO:0008544)|intermediate filament organization (GO:0045109)|keratinocyte differentiation (GO:0030216)|peptide cross-linking (GO:0018149)|protein localization to adherens junction (GO:0071896)|regulation of heart rate by cardiac conduction (GO:0086091)|single organismal cell-cell adhesion (GO:0016337)|ventricular cardiac muscle cell action potential (GO:0086005)|ventricular compact myocardium morphogenesis (GO:0003223)|wound healing (GO:0042060)	basolateral plasma membrane (GO:0016323)|cornified envelope (GO:0001533)|desmosome (GO:0030057)|extracellular vesicular exosome (GO:0070062)|fascia adherens (GO:0005916)|intercalated disc (GO:0014704)|intermediate filament (GO:0005882)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	poly(A) RNA binding (GO:0044822)|protein binding, bridging (GO:0030674)|protein kinase C binding (GO:0005080)|scaffold protein binding (GO:0097110)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			biliary_tract(1)|breast(6)|central_nervous_system(7)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(16)|liver(2)|lung(27)|ovary(4)|prostate(1)|skin(8)|stomach(3)|upper_aerodigestive_tract(7)|urinary_tract(5)	101	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		GCAGGCAGATAGAGCACTGCG	0.448													A|||	2	0.000399361	0.0015	0.0	5008	,	,		18185	0.0		0.0	False		,,,				2504	0.0															0								A	MET/ILE,MET/ILE	3,4403	6.2+/-15.9	0,3,2200	87	82	84		2037,2037	0.6	1	6	dbSNP_134	84	0,8600		0,0,4300	no	missense,missense	DSP	NM_001008844.1,NM_004415.2	10,10	0,3,6500	GG,GA,AA		0.0,0.0681,0.0231	benign,benign	679/2273,679/2872	7572208	3,13003	2203	4300	6503	SO:0001583	missense	1832			J05211	CCDS4501.1, CCDS47368.1	6p24.3	2014-09-17	2003-05-20		ENSG00000096696	ENSG00000096696			3052	protein-coding gene	gene with protein product		125647	"desmoplakin (DPI, DPII)"			1889810	Standard	NM_004415		Approved	KPPS2, PPKS2, DPI, DPII	uc003mxp.1	P15924	OTTHUMG00000014212	ENST00000379802.3:c.2037A>G	6.37:g.7572208A>G	ENSP00000369129:p.Ile679Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTT2|D7RX09|O75993|Q14189|Q9UHN4	Missense_Mutation	SNP	ENST00000379802.3	37	CCDS4501.1	.	.	.	.	.	.	.	.	.	.	A	11.93	1.784966	0.31593	6.81E-4	0.0	ENSG00000096696	ENST00000379802;ENST00000418664;ENST00000397483	T;T	0.74632	-0.52;-0.86	5.58	0.632	0.17705	.	0.298544	0.33712	N	0.004626	T	0.32071	0.0817	N	0.14661	0.345	0.30376	N	0.782447	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.001	T	0.10941	-1.0608	10	0.52906	T	0.07	.	5.9683	0.19338	0.3601:0.0:0.5018:0.1381	.	726;679	Q4LE79;P15924	.;DESP_HUMAN	M	679;679;484	ENSP00000369129:I679M;ENSP00000396591:I679M	ENSP00000369129:I679M	I	+	3	3	DSP	7517207	0.987000	0.35691	0.998000	0.56505	0.962000	0.63368	-0.028000	0.12350	0.042000	0.15717	-0.472000	0.04984	ATA		0.448	DSP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039786.2	NM_004415		G	7572208	A	G	7572208	3	3	660	1	0	0	0	0	1	0	0	0	4783	410	15	3	2095	3	DSP	6	7572208	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10		7572208	163542859	27	40951										
MDC1	9656	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr6	30672144	30672144	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	aactggctcaggggtcttgaCagaggacctatttgtcctgc	12	10	2	2			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr6:30672144C>A	ENST00000376406.3	-	10	5463	c.4816G>T	c.(4816-4818)Gtc>Ttc	p.V1606F	MDC1-AS1_ENST00000442150.1_RNA|MDC1_ENST00000376405.2_Missense_Mutation_p.V1342F	NM_014641.2	NP_055456.2	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1606	Interaction with the PRKDC complex.				DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|intra-S DNA damage checkpoint (GO:0031573)	chromosome (GO:0005694)|focal adhesion (GO:0005925)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	FHA domain binding (GO:0070975)|protein C-terminus binding (GO:0008022)			breast(2)|kidney(1)|ovary(1)	4						GGGGTCTTGACAGAGGACCTA	0.602								Other conserved DNA damage response genes																																								0													118	130	126					6																	30672144		2203	4300	6503	SO:0001583	missense	9656			D79992	CCDS34384.1	6p21.3	2010-02-17	2009-06-12		ENSG00000137337	ENSG00000137337			21163	protein-coding gene	gene with protein product		607593				10975465, 12607005	Standard	NM_014641		Approved	NFBD1, KIAA0170, Em:AB023051.5	uc003nrg.4	Q14676	OTTHUMG00000031075	ENST00000376406.3:c.4816G>T	6.37:g.30672144C>A	ENSP00000365588:p.Val1606Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A2AB04|A2BF04|A2RRA8|A7YY86|B0S8A2|Q0EFC2|Q2L6H7|Q2TAZ4|Q5JP55|Q5JP56|Q5ST83|Q68CQ3|Q86Z06|Q96QC2	Missense_Mutation	SNP	ENST00000376406.3	37	CCDS34384.1	.	.	.	.	.	.	.	.	.	.	C	14.29	2.490343	0.44249	.	.	ENSG00000137337	ENST00000376406;ENST00000376405;ENST00000429610;ENST00000422104	T;T	0.11821	2.74;2.74	3.4	1.48	0.22813	.	1.326470	0.05791	N	0.610382	T	0.16085	0.0387	M	0.64997	1.995	0.09310	N	1	D;D	0.71674	0.998;0.983	D;P	0.70487	0.969;0.68	T	0.09271	-1.0682	10	0.56958	D	0.05	0.0372	4.9637	0.14080	0.0:0.6897:0.0:0.3103	.	1342;1606	Q14676-2;Q14676	.;MDC1_HUMAN	F	1606;1342;1319;1172	ENSP00000365588:V1606F;ENSP00000365587:V1342F	ENSP00000365587:V1342F	V	-	1	0	MDC1	30780123	0.000000	0.05858	0.002000	0.10522	0.020000	0.10135	-0.379000	0.07437	0.391000	0.25143	0.449000	0.29647	GTC		0.602	MDC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000076103.1	NM_014641		A	30672144	C	A	30672144	3	1	660	1	0	0	0	0	1	0	0	0	9410	478	17	4	1477	4	MDC1	6	30672144	Missense_Mutation	SNP	C	TCGA-KN-8424-01A-11D-2310-10	23099936	30672144	140442923	28	40952										
HLA-C	3107	mdanderson.org	37	chr6	31239049	31239049	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	taatccttgccgtcgtaggcGgactggtcatacccgcggag	13	12	1	0	rs1065406	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr6:31239049G>T	ENST00000376228.5	-	3	434	c.420C>A	c.(418-420)tcC>tcA	p.S140S	HLA-C_ENST00000383329.3_Silent_p.S140S	NM_002117.5	NP_002108.4	Q95604	1C17_HUMAN	major histocompatibility complex, class I, C	140	Alpha-2.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(4)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)	17						CGTCGTAGGCGGACTGGTCAT	0.706													g|||	270	0.0539137	0.0439	0.049	5008	,	,		13032	0.0377		0.0398	False		,,,				2504	0.1022															0													34	26	29					6																	31239049		2177	4252	6429	SO:0001819	synonymous_variant	3107			M11886	CCDS34393.1	6p21.3	2014-01-30			ENSG00000204525	ENSG00000204525		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4933	protein-coding gene	gene with protein product		142840	"psoriasis susceptibility 1"	HLA-JY3, D6S204, PSORS1		3863816, 16642438	Standard	NM_001243042		Approved		uc003nsy.3	P04222	OTTHUMG00000031154	ENST00000376228.5:c.420C>A	6.37:g.31239049G>T		Somatic		WXS	Illumina HiSeq	Phase_I	O02864|O02958|Q29643|Q9MY30	Silent	SNP	ENST00000376228.5	37	CCDS34393.1	150	0.06868131868131869	32	0.06504065040650407	18	0.049723756906077346	57	0.09965034965034965	43	0.05672823218997362	.	5.915	0.352896	0.11182	.	.	ENSG00000204525	ENST00000415537	.	.	.	2.59	-3.28	0.05033	.	.	.	.	.	T	0.07188	0.0182	.	.	.	0.24072	N	0.995975	.	.	.	.	.	.	T	0.34800	-0.9814	4	.	.	.	.	3.1816	0.06587	0.3131:0.0:0.2669:0.42	rs1065406;rs2308578;rs3176001;rs3180085;rs16868251;rs17840081	.	.	.	S	140	.	.	R	-	1	0	HLA-C	31347028	0.000000	0.05858	0.000000	0.03702	0.004000	0.04260	-2.910000	0.00699	-0.884000	0.03976	-1.236000	0.01555	CGC		0.706	HLA-C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076281.3	NM_002117		T	31239049	G	T	31239049	2	4	660	1	0	0	0	0	0	0	0	1	7204	1103	39	4		4	HLA-C	6	31239049	Silent	SNP	G	TCGA-KN-8424-01A-11D-2310-10	566905	31239049	139876018	29	40953			1	102		2	2	12	N	G_A	3.197961e-05
HLA-C	3107	mdanderson.org	37	chr6	31239060	31239060	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gtcgtaggcggactggtcatAcccgcggaggaggcgcccgt	17	12	1	0	rs2308574	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr6:31239060A>G	ENST00000376228.5	-	3	423	c.409T>C	c.(409-411)Tat>Cat	p.Y137H	HLA-C_ENST00000383329.3_Missense_Mutation_p.Y137H	NM_002117.5	NP_002108.4	Q95604	1C17_HUMAN	major histocompatibility complex, class I, C	137	Alpha-2.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(4)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)	17						GACTGGTCATACCCGCGGAGG	0.706													a|||	737	0.147165	0.2042	0.1124	5008	,	,		12690	0.119		0.0984	False		,,,				2504	0.1738															0													32	25	27					6																	31239060		2170	4230	6400	SO:0001583	missense	3107			M11886	CCDS34393.1	6p21.3	2014-01-30			ENSG00000204525	ENSG00000204525		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4933	protein-coding gene	gene with protein product		142840	"psoriasis susceptibility 1"	HLA-JY3, D6S204, PSORS1		3863816, 16642438	Standard	NM_001243042		Approved		uc003nsy.3	P04222	OTTHUMG00000031154	ENST00000376228.5:c.409T>C	6.37:g.31239060A>G	ENSP00000365402:p.Tyr137His	Somatic		WXS	Illumina HiSeq	Phase_I	O02864|O02958|Q29643|Q9MY30	Missense_Mutation	SNP	ENST00000376228.5	37	CCDS34393.1	449|449	0.20558608058608058|0.20558608058608058	107|107	0.21747967479674796|0.21747967479674796	75|75	0.20718232044198895|0.20718232044198895	137|137	0.2395104895104895|0.2395104895104895	130|130	0.17150395778364116|0.17150395778364116	.|.	8.863|8.863	0.947475|0.947475	0.18356|0.18356	.|.	.|.	ENSG00000204525|ENSG00000204525	ENST00000415537|ENST00000376228;ENST00000383329;ENST00000396254;ENST00000539307	.|T;T	.|0.01051	.|5.4;5.4	2.81|2.81	1.59|1.59	0.23543|0.23543	.|MHC class I, alpha chain, alpha1/alpha2 (2);MHC classes I/II-like antigen recognition protein (1);MHC class I-like antigen recognition (1);	.|0.528899	.|0.13774	.|U	.|0.363708	T|T	0.01287|0.01287	0.0042|0.0042	M|M	0.92923|0.92923	3.36|3.36	0.49299|0.49299	P|P	2.2599999999994846E-4|2.2599999999994846E-4	.|B;B;B;B	.|0.16396	.|0.017;0.002;0.002;0.004	.|B;B;B;B	.|0.31101	.|0.124;0.034;0.055;0.099	T|T	0.05683|0.05683	-1.0870|-1.0870	5|9	0.87932|0.56958	D|D	0|0.05	.|.	6.6067|6.6067	0.22729|0.22729	0.7862:0.0:0.0:0.2138|0.7862:0.0:0.0:0.2138	rs2308574;rs12721948;rs17839983|rs2308574;rs12721948;rs17839983	.|137;137;137;137	.|A2AEA4;A6H578;A2AEA2;P10321	.|.;.;.;1C07_HUMAN	A|H	136|137;137;137;174	.|ENSP00000365402:Y137H;ENSP00000372819:Y137H	ENSP00000365412:V131A|ENSP00000365402:Y137H	V|Y	-|-	2|1	0|0	HLA-C|HLA-C	31347039|31347039	0.000000|0.000000	0.05858|0.05858	0.022000|0.022000	0.16811|0.16811	0.006000|0.006000	0.05464|0.05464	0.709000|0.709000	0.25734|0.25734	0.458000|0.458000	0.26988|0.26988	0.254000|0.254000	0.18369|0.18369	GTA|TAT		0.706	HLA-C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076281.3	NM_002117		G	31239060	A	G	31239060	3	3	660	1	0	0	0	0	1	0	0	0	7204	391	14	3	715	3	HLA-C	6	31239060	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10	11	31239060	139876007	30	40954			1	102		2	2	12	N	G_A	3.197961e-05
HSP90AB1	3326	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr6	44218791	44218791	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ttggtttctttcagcactttTctgtagaaggtcagttggaa	10	6	4	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr6:44218791T>G	ENST00000371554.1	+	7	1178	c.964T>G	c.(964-966)Tct>Gct	p.S322A	HSP90AB1_ENST00000371646.5_Missense_Mutation_p.S322A|HSP90AB1_ENST00000353801.3_Missense_Mutation_p.S322A			P08238	HS90B_HUMAN	heat shock protein 90kDa alpha (cytosolic), class B member 1	322					axon guidance (GO:0007411)|cellular response to interleukin-4 (GO:0071353)|cellular response to organic cyclic compound (GO:0071407)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032435)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|placenta development (GO:0001890)|positive regulation of cell size (GO:0045793)|positive regulation of nitric oxide biosynthetic process (GO:0045429)|positive regulation of protein binding (GO:0032092)|positive regulation of protein import into nucleus, translocation (GO:0033160)|positive regulation of protein serine/threonine kinase activity (GO:0071902)|protein folding (GO:0006457)|regulation of interferon-gamma-mediated signaling pathway (GO:0060334)|regulation of type I interferon-mediated signaling pathway (GO:0060338)|response to salt stress (GO:0009651)|response to unfolded protein (GO:0006986)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|brush border membrane (GO:0031526)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|inclusion body (GO:0016234)|membrane (GO:0016020)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|CTP binding (GO:0002135)|dATP binding (GO:0032564)|double-stranded RNA binding (GO:0003725)|GTP binding (GO:0005525)|MHC class II protein complex binding (GO:0023026)|nitric-oxide synthase regulator activity (GO:0030235)|poly(A) RNA binding (GO:0044822)|TPR domain binding (GO:0030911)|UTP binding (GO:0002134)			NS(1)|breast(1)|endometrium(6)|kidney(2)|large_intestine(5)|lung(12)|prostate(2)|skin(2)|urinary_tract(2)	33	all_cancers(18;1.7e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TCAGCACTTTTCTGTAGAAGG	0.383																																																0													114	113	113					6																	44218791		2203	4300	6503	SO:0001583	missense	3326			AF275719	CCDS4909.1	6p12	2011-09-02	2006-02-24	2006-02-24	ENSG00000096384	ENSG00000096384		"Heat shock proteins / HSPC"	5258	protein-coding gene	gene with protein product		140572	"heat shock 90kD protein 1, beta", "heat shock 90kDa protein 1, beta"	HSPC2, HSPCB		2768249, 16269234	Standard	NM_001271969		Approved		uc031sor.1	P08238	OTTHUMG00000014761	ENST00000371554.1:c.964T>G	6.37:g.44218791T>G	ENSP00000360609:p.Ser322Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5P0|Q5T9W7|Q9NQW0|Q9NTK6	Missense_Mutation	SNP	ENST00000371554.1	37	CCDS4909.1	.	.	.	.	.	.	.	.	.	.	T	18.52	3.641533	0.67244	.	.	ENSG00000096384	ENST00000371646;ENST00000353801;ENST00000371554	T;T;T	0.12569	2.67;2.67;2.67	4.76	4.76	0.60689	Ribosomal protein S5 domain 2-type fold (1);	0.000000	0.64402	U	0.000004	T	0.23054	0.0557	H	0.94385	3.53	0.80722	D	1	B;B;B	0.24882	0.002;0.113;0.001	B;B;B	0.36186	0.014;0.219;0.035	T	0.15093	-1.0449	10	0.66056	D	0.02	-10.7397	14.2648	0.66110	0.0:0.0:0.0:1.0	.	284;312;322	B4DMA2;B4DGL0;P08238	.;.;HS90B_HUMAN	A	322	ENSP00000360709:S322A;ENSP00000325875:S322A;ENSP00000360609:S322A	ENSP00000325875:S322A	S	+	1	0	HSP90AB1	44326769	1.000000	0.71417	1.000000	0.80357	0.936000	0.57629	8.017000	0.88712	1.794000	0.52575	0.397000	0.26171	TCT		0.383	HSP90AB1-005	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040730.1	NM_007355		G	44218791	T	G	44218791	3	3	660	1	0	0	0	0	1	0	0	0	7409	1783	62	5	986	5	HSP90AB1	6	44218791	Missense_Mutation	SNP	T	TCGA-KN-8424-01A-11D-2310-10	12979731	44218791	126896276	31	40955										
MAP3K4	4216	bcgsc.ca	37	chr6	161527702	161527702	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tatgcacgttggcttgaggaAggtgaccttcaaatggcaaa	12	7	1	2			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr6:161527702A>G	ENST00000392142.4	+	20	4161	c.4013A>G	c.(4012-4014)aAg>aGg	p.K1338R	MAP3K4_ENST00000366920.2_Missense_Mutation_p.K1334R|MAP3K4_ENST00000348824.7_Missense_Mutation_p.K1284R|MAP3K4_ENST00000366919.2_Missense_Mutation_p.K1288R	NM_005922.2	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	1338					activation of MAPKK activity (GO:0000186)|chorionic trophoblast cell differentiation (GO:0060718)|intracellular signal transduction (GO:0035556)|male germ-line sex determination (GO:0019100)|MAPK cascade (GO:0000165)|placenta development (GO:0001890)|positive regulation of JUN kinase activity (GO:0043507)|positive regulation of p38MAPK cascade (GO:1900745)|regulation of gene expression (GO:0010468)|response to UV-C (GO:0010225)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|MAP kinase kinase kinase activity (GO:0004709)|metal ion binding (GO:0046872)			breast(6)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(20)|lung(28)|ovary(3)|skin(2)|stomach(1)	77		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)		GGCTTGAGGAAGGTGACCTTC	0.383																																																0													153	142	146					6																	161527702		2203	4300	6503	SO:0001583	missense	4216			AF002715	CCDS34565.1, CCDS34566.1, CCDS75544.1	6q26	2012-10-02			ENSG00000085511	ENSG00000085511		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6856	protein-coding gene	gene with protein product		602425		MEKK4		9305639	Standard	XM_005266988		Approved	MTK1, MAPKKK4, KIAA0213	uc003qtn.3	Q9Y6R4	OTTHUMG00000015968	ENST00000392142.4:c.4013A>G	6.37:g.161527702A>G	ENSP00000375986:p.Lys1338Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8W0|B7ZLD3|B9EG75|Q5VTT8|Q5VTT9|Q92612|Q9H408	Missense_Mutation	SNP	ENST00000392142.4	37	CCDS34565.1	.	.	.	.	.	.	.	.	.	.	A	15.85	2.956002	0.53293	.	.	ENSG00000085511	ENST00000366919;ENST00000392142;ENST00000540111;ENST00000366920;ENST00000348824	T;T;T;T	0.72167	-0.58;-0.62;-0.63;-0.58	4.61	4.61	0.57282	Protein kinase-like domain (1);	0.000000	0.85682	D	0.000000	T	0.59183	0.2175	N	0.24115	0.695	0.58432	D	0.999999	B;B;D;D	0.56746	0.342;0.014;0.971;0.977	P;B;P;P	0.61477	0.565;0.026;0.889;0.844	T	0.58691	-0.7592	10	0.16420	T	0.52	-31.0922	14.0342	0.64636	1.0:0.0:0.0:0.0	.	1334;274;1288;1338	F5H538;Q9P1M2;Q9Y6R4-2;Q9Y6R4	.;.;.;M3K4_HUMAN	R	1288;1338;1288;1334;1284	ENSP00000355886:K1288R;ENSP00000375986:K1338R;ENSP00000355887:K1334R;ENSP00000297332:K1284R	ENSP00000297332:K1284R	K	+	2	0	MAP3K4	161447692	1.000000	0.71417	0.999000	0.59377	0.982000	0.71751	8.962000	0.93254	1.711000	0.51337	0.477000	0.44152	AAG		0.383	MAP3K4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042988.3			G	161527702	A	G	161527702	3	3	660	1	0	0	0	0	1	0	0	0	9259	72	3	3	4091	3	MAP3K4	6	161527702	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10	117308911	161527702	9587365	32	40956										
DNAH11	8701	broad.mit.edu;hgsc.bcm.edu	37	chr7	21904162	21904165	+	Frame_Shift_Del	DEL	AGAA	AGAA	-													0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ctactctcaagattttgttgAgaaagaaagagatagaccct							TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	AGAA	AGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr7:21904162_21904165delAGAA	ENST00000409508.3	+	70	11414_11417	c.11383_11386delAGAA	c.(11383-11388)agaaagfs	p.RK3795fs	DNAH11_ENST00000328843.6_Frame_Shift_Del_p.RK3802fs	NM_001277115.1	NP_001264044.1	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3802					microtubule-based movement (GO:0007018)	cilium (GO:0005929)|cytoplasm (GO:0005737)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(1)|autonomic_ganglia(1)|breast(13)|central_nervous_system(3)|cervix(4)|endometrium(18)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(50)|lung(101)|ovary(10)|pancreas(4)|prostate(7)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	230						GATTTTGTTGAGAAAGAAAGAGAT	0.387									Kartagener syndrome																																							0																																										SO:0001589	frameshift_variant	8701	Familial Cancer Database	Ciliary Dyskinesia, Primary (CILD1 - CILD13), Immotile Cilia Syndrome	U83569	CCDS64602.1	7p21	2008-07-18	2006-09-04					"Axonemal dyneins"	2942	protein-coding gene	gene with protein product	"dynein, ciliary, heavy chain 11", "dynein, heavy chain beta-like"	603339	"dynein, axonemal, heavy polypeptide 11"			9256245	Standard	NM_001277115		Approved	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL	uc031swp.1	Q96DT5		ENST00000409508.3:c.11383_11386delAGAA	7.37:g.21904166_21904169delAGAA	ENSP00000475939:p.Arg3795fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UJ82	Frame_Shift_Del	DEL	ENST00000409508.3	37																																																																																					0.387	DNAH11-001	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000326582.6	NM_003777		-	21904165	AGAA	-	21904162	7	5	660	1	0	1	0	1	0	0	0	0	4601	296	11	0	11683	0	DNAH11	7	21904162	Frame_Shift_Del	DEL	AGAA	TCGA-KN-8424-01A-11D-2310-10		21904162	137234501	33	40957	379	2								
DNAH11	8701	bcgsc.ca	37	chr7	21904163	21904166	+	Frame_Shift_Del	DEL	AGAA	AGAA	-													0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tactctcaagattttgttgaGaaagaaagagatagaccctc							TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	AGAA	AGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr7:21904163_21904166delAGAA	ENST00000409508.3	+	70	11415_11418	c.11384_11387delAGAA	c.(11383-11388)aagaagfs	p.KK3795fs	DNAH11_ENST00000328843.6_Frame_Shift_Del_p.KK3802fs	NM_001277115.1	NP_001264044.1	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	3802					microtubule-based movement (GO:0007018)	cilium (GO:0005929)|cytoplasm (GO:0005737)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(1)|autonomic_ganglia(1)|breast(13)|central_nervous_system(3)|cervix(4)|endometrium(18)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(50)|lung(101)|ovary(10)|pancreas(4)|prostate(7)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	230						ATTTTGTTGAGAAAGAAAGAGATA	0.382									Kartagener syndrome																																							0																																										SO:0001589	frameshift_variant	8701	Familial Cancer Database	Ciliary Dyskinesia, Primary (CILD1 - CILD13), Immotile Cilia Syndrome	U83569	CCDS64602.1	7p21	2008-07-18	2006-09-04					"Axonemal dyneins"	2942	protein-coding gene	gene with protein product	"dynein, ciliary, heavy chain 11", "dynein, heavy chain beta-like"	603339	"dynein, axonemal, heavy polypeptide 11"			9256245	Standard	NM_001277115		Approved	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL	uc031swp.1	Q96DT5		ENST00000409508.3:c.11384_11387delAGAA	7.37:g.21904163_21904166delAGAA	ENSP00000475939:p.Lys3795fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UJ82	Frame_Shift_Del	DEL	ENST00000409508.3	37																																																																																					0.382	DNAH11-001	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000326582.6	NM_003777		-	21904166	AGAA	-	21904163	7	5	660	1	0	1	0	1	0	0	0	0	4601	942	33	0	11684	0	DNAH11	7	21904163	Frame_Shift_Del	DEL	AGAA	TCGA-KN-8424-01A-11D-2310-10	1	21904163	137234500	34	40958	379	2								
NPSR1	387129	broad.mit.edu	37	chr7	34724247	34724247	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	cttttttccacatggaggagAaagaagaagtcaagaatgac	10	6	1	5			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr7:34724247A>G	ENST00000360581.1	+	2	359	c.231A>G	c.(229-231)agA>agG	p.R77R	NPSR1_ENST00000381553.3_Silent_p.R77R|NPSR1_ENST00000359791.1_Silent_p.R77R|NPSR1_ENST00000381542.1_Silent_p.R77R|NPSR1_ENST00000381539.3_Silent_p.R77R|NPSR1-AS1_ENST00000419766.1_RNA|NPSR1_ENST00000465305.1_Silent_p.R77R|NPSR1_ENST00000531252.1_Silent_p.R77R	NM_207172.1	NP_997055.1	Q6W5P4	NPSR1_HUMAN	neuropeptide S receptor 1	77						cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	neuropeptide receptor activity (GO:0008188)|vasopressin receptor activity (GO:0005000)			endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(5)|lung(14)|pancreas(1)|skin(7)	31					Halothane(DB01159)	CATGGAGGAGAAAGAAGAAGT	0.428																																																0													157	150	152					7																	34724247		2203	4300	6503	SO:0001819	synonymous_variant	387129			AY255536	CCDS5443.1, CCDS5444.1, CCDS75579.1, CCDS75580.1, CCDS75581.1	7p14.3	2012-08-08	2006-05-10	2006-05-10	ENSG00000187258	ENSG00000187258		"GPCR / Class A : Neuropeptide receptors : S"	23631	protein-coding gene	gene with protein product		608595	"G protein-coupled receptor 154"	GPR154		12679517, 15073379	Standard	NM_207173		Approved	PGR14, GPRA	uc003tei.1	Q6W5P4	OTTHUMG00000099383	ENST00000360581.1:c.231A>G	7.37:g.34724247A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A2RTZ4|Q2XP58|Q56H76|Q56H77|Q56H78|Q6JSL4|Q6JSL5|Q6JSL6|Q6JSL7|Q6JSL8|Q6W5P3|Q6ZMB8	Silent	SNP	ENST00000360581.1	37	CCDS5444.1																																																																																				0.428	NPSR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216837.1	NM_207173		G	34724247	A	G	34724247	2	3	660	1	0	0	0	0	0	0	0	1	10607	243	9	3		3	NPSR1	7	34724247	Silent	SNP	A	TCGA-KN-8424-01A-11D-2310-10	12820084	34724247	124414416	35	40959										
TNS3	64759	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	47451335	47451335	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gggcactcaccatgacatctCccttcagaagctgggccggc	11	15	3	2			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr7:47451335C>G	ENST00000398879.1	-	13	1079	c.713G>C	c.(712-714)gGa>gCa	p.G238A	TNS3_ENST00000355730.3_Missense_Mutation_p.G238A|TNS3_ENST00000458317.2_Missense_Mutation_p.G238A|TNS3_ENST00000442536.2_Missense_Mutation_p.G238A|TNS3_ENST00000311160.9_Missense_Mutation_p.G238A			Q68CZ2	TENS3_HUMAN	tensin 3	238	C2 tensin-type. {ECO:0000255|PROSITE- ProRule:PRU00589}.				cell migration (GO:0016477)|lung alveolus development (GO:0048286)|positive regulation of cell proliferation (GO:0008284)	cytoplasm (GO:0005737)|focal adhesion (GO:0005925)				NS(1)|autonomic_ganglia(1)|breast(17)|endometrium(5)|kidney(4)|large_intestine(7)|liver(1)|lung(16)|ovary(4)|prostate(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	64						CATGACATCTCCCTTCAGAAG	0.512																																																0													56	63	61					7																	47451335		2072	4190	6262	SO:0001583	missense	64759			AF378756	CCDS5506.2	7p12.3	2013-02-14	2005-05-13	2005-05-13	ENSG00000136205	ENSG00000136205		"SH2 domain containing"	21616	protein-coding gene	gene with protein product	"tumor endothelial marker 6"	606825	"tensin-like SH2 domain-containing 1"	TENS1		11559528	Standard	NM_022748		Approved	TEM6, H_NH0549I23.2, FLJ13732	uc003tnw.3	Q68CZ2	OTTHUMG00000074075	ENST00000398879.1:c.713G>C	7.37:g.47451335C>G	ENSP00000381854:p.Gly238Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNV1|Q6IPQ2|Q8IZW7|Q8NAD0|Q96PE0|Q96S48	Missense_Mutation	SNP	ENST00000398879.1	37	CCDS5506.2	.	.	.	.	.	.	.	.	.	.	C	23.9	4.465360	0.84425	.	.	ENSG00000136205	ENST00000311160;ENST00000538633;ENST00000398879;ENST00000355730;ENST00000457718;ENST00000450444;ENST00000442536;ENST00000458317	D;D;D;D;D;D;D	0.96300	-3.97;-3.97;-3.97;-3.97;-3.97;-3.97;-3.97	5.17	5.17	0.71159	Tensin phosphatase, C2 domain (2);C2 calcium/lipid-binding domain, CaLB (1);	0.112469	0.64402	D	0.000011	D	0.98438	0.9480	M	0.92833	3.35	0.51233	D	0.999911	D;P	0.89917	1.0;0.775	D;P	0.91635	0.999;0.649	D	0.99376	1.0921	10	0.87932	D	0	-28.4514	14.219	0.65812	0.0:1.0:0.0:0.0	.	238;238	Q68CZ2-4;Q68CZ2	.;TENS3_HUMAN	A	238;348;238;238;341;327;238;238	ENSP00000312143:G238A;ENSP00000381854:G238A;ENSP00000347968:G238A;ENSP00000414358:G341A;ENSP00000396914:G327A;ENSP00000389285:G238A;ENSP00000388318:G238A	ENSP00000312143:G238A	G	-	2	0	TNS3	47417860	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	6.176000	0.71955	2.416000	0.81992	0.555000	0.69702	GGA		0.512	TNS3-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157253.1	NM_022748		G	47451335	C	G	47451335	3	3	660	1	0	0	0	0	1	0	0	0	16356	855	30	4	3700	4	TNS3	7	47451335	Missense_Mutation	SNP	C	TCGA-KN-8424-01A-11D-2310-10	12727088	47451335	111687328	36	40960										
FGL2	10875	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr7	76828559	76828559	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	catttgccatccaaactattGacaacaaatgttagatttgc	5	9	0	2			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr7:76828559G>A	ENST00000248598.5	-	1	584	c.552C>T	c.(550-552)gtC>gtT	p.V184V	CCDC146_ENST00000431197.1_Intron|CCDC146_ENST00000285871.4_Intron|RP11-467H10.2_ENST00000459742.1_RNA	NM_006682.2	NP_006673.1	Q14314	FGL2_HUMAN	fibrinogen-like 2	184						extracellular vesicular exosome (GO:0070062)|fibrinogen complex (GO:0005577)				breast(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|lung(3)|prostate(1)|skin(2)	13						CCAAACTATTGACAACAAATG	0.343																																																0													131	124	126					7																	76828559		2203	4300	6503	SO:0001819	synonymous_variant	10875			Z36531	CCDS5591.1	7q11.23	2013-02-06			ENSG00000127951	ENSG00000127951		"Fibrinogen C domain containing"	3696	protein-coding gene	gene with protein product		605351				7642106	Standard	NM_006682		Approved	pT49, T49	uc003ugb.3	Q14314	OTTHUMG00000130681	ENST00000248598.5:c.552C>T	7.37:g.76828559G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000248598.5	37	CCDS5591.1																																																																																				0.343	FGL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253176.1	NM_006682		A	76828559	G	A	76828559	2	1	660	1	0	0	0	0	0	0	0	1	5880	1277	45	2		2	FGL2	7	76828559	Silent	SNP	G	TCGA-KN-8424-01A-11D-2310-10	29377224	76828559	82310104	37	40961										
KLHDC10	23008	hgsc.bcm.edu	37	chr7	129710524	129710524	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ggacaggaaccgccggagggGaggaggcgccgccggcgctg	21	12	0	0	rs1062154	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr7:129710524G>C	ENST00000335420.5	+	1	175	c.41G>C	c.(40-42)gGa>gCa	p.G14A		NM_014997.3	NP_055812.1	Q6PID8	KLD10_HUMAN	kelch domain containing 10	14	Gly-rich.					cytoplasm (GO:0005737)|nucleus (GO:0005634)				breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|liver(2)|lung(10)|prostate(1)	17						cgccggaggggaggaggcgcc	0.756													G|||	31	0.0061901	0.0015	0.0058	5008	,	,		6862	0.0		0.0209	False		,,,				2504	0.0041															0								G	ALA/GLY	8,2858		0,8,1425	2	3	3		41	4.5	1	7	dbSNP_86	3	119,6077		0,119,2979	no	missense	KLHDC10	NM_014997.3	60	0,127,4404	CC,CG,GG		1.9206,0.2791,1.4015	probably-damaging	14/443	129710524	127,8935	1433	3098	4531	SO:0001583	missense	23008				CCDS5815.1	7q32.2	2008-08-20			ENSG00000128607	ENSG00000128607			22194	protein-coding gene	gene with protein product	"scruin like at the midline homolog (Drosophila)"	615152					Standard	NM_014997		Approved	KIAA0265, slim	uc003vpj.2	Q6PID8	OTTHUMG00000157654	ENST00000335420.5:c.41G>C	7.37:g.129710524G>C	ENSP00000334140:p.Gly14Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q86Y99|Q92554	Missense_Mutation	SNP	ENST00000335420.5	37	CCDS5815.1	16	0.007326007326007326	1	0.0020325203252032522	1	0.0027624309392265192	0	0.0	14	0.018469656992084433	G	25.9	4.681437	0.88542	0.002791	0.019206	ENSG00000128607	ENST00000335420;ENST00000463413	T;T	0.36340	2.37;1.26	5.36	4.47	0.54385	.	0.279987	0.25380	N	0.031096	T	0.18800	0.0451	N	0.08118	0	0.29092	N	0.88205	D	0.76494	0.999	D	0.73708	0.981	T	0.08785	-1.0705	10	0.09338	T	0.73	-11.428	11.5366	0.50641	0.0:0.0:0.8214:0.1786	rs1062154;rs3173906	14	Q6PID8	KLD10_HUMAN	A	14	ENSP00000334140:G14A;ENSP00000420083:G14A	ENSP00000334140:G14A	G	+	2	0	KLHDC10	129497760	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	2.758000	0.47565	1.243000	0.43853	0.591000	0.81541	GGA		0.756	KLHDC10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349347.2			C	129710524	G	C	129710524	3	2	660	1	0	0	0	0	1	0	0	0	8362	1174	41	4	43	4	KLHDC10	7	129710524	Missense_Mutation	SNP	G	TCGA-KN-8424-01A-11D-2310-10	52881965	129710524	29428139	38	40962										
OR2A5	393046	broad.mit.edu	37	chr7	143748124	143748124	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gtgttcatcctggtggggccGctctgcctggtgctggtctc	15	12	3	0	rs372854651		TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr7:143748124G>A	ENST00000408906.2	+	1	664	c.630G>A	c.(628-630)ccG>ccA	p.P210P		NM_012365.1	NP_036497.1	Q96R48	OR2A5_HUMAN	olfactory receptor, family 2, subfamily A, member 5	210						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			cervix(1)|endometrium(3)|large_intestine(5)|lung(23)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	38	Melanoma(164;0.0783)					TGGTGGGGCCGCTCTGCCTGG	0.597																																																0								G		0,4028		0,0,2014	126	129	128		630	-2.7	1	7		128	3,8343		0,3,4170	no	coding-synonymous	OR2A5	NM_012365.1		0,3,6184	AA,AG,GG		0.0359,0.0,0.0242		210/312	143748124	3,12371	2014	4173	6187	SO:0001819	synonymous_variant	393046			U86278	CCDS43668.1	7q35	2013-09-20	2003-11-24		ENSG00000221836	ENSG00000221836		"GPCR / Class A : Olfactory receptors"	8232	protein-coding gene	gene with protein product			"olfactory receptor, family 2, subfamily A, member 5"	OR2A8, OR2A26		9500546	Standard	NM_012365		Approved	OR7-138, OR7-141	uc011ktw.2	Q96R48	OTTHUMG00000158006	ENST00000408906.2:c.630G>A	7.37:g.143748124G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B9EGX2|O43885|O43888	Silent	SNP	ENST00000408906.2	37	CCDS43668.1																																																																																				0.597	OR2A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349986.1			A	143748124	G	A	143748124	2	1	660	1	0	0	0	0	0	0	0	1	10988	1074	38	1		1	OR2A5	7	143748124	Silent	SNP	G	TCGA-KN-8424-01A-11D-2310-10	14037600	143748124	15390539	39	40963										
MLL3	58508	hgsc.bcm.edu;mdanderson.org	37	chr7	152132844	152132845	+	Missense_Mutation	DNP	CC	CC	TT													0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tggcggcggctgcggctgctCcacgctcttgtcctcctccg							TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr7:152132844_152132845CC>TT	ENST00000262189.6	-	1	245_246	c.27_28GG>AA	c.(25-30)gtGGag>gtAAag	p.E10K	FABP5P3_ENST00000477993.1_RNA|KMT2C_ENST00000355193.2_Missense_Mutation_p.E10K	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	10					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)										TGCGGCTGCTCCACGCTCTTGT	0.733																																																0																																										SO:0001583	missense	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.27_28delinsTT	7.37:g.152132844_152132845delinsTT	ENSP00000262189:p.Glu10Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Silent	DNP	ENST00000262189.6	37	CCDS5931.1																																																																																				0.733	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			TT	152132845	CC	TT	152132844	3	4	660	1	0	0	0	0	1	0	0	0	9629	864	30	2	14943	2	MLL3	7	152132844	Missense_Mutation	DNP	CC	TCGA-KN-8424-01A-11D-2310-10	8384720	152132844	7005819	40	40964										
RNF32	140545	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	156437191	156437191	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tgacttttttcctactttttAgggtcactcatctaagaaag	6	8	3	2			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr7:156437191A>G	ENST00000405335.1	+	4	424		c.e4-1		RNF32_ENST00000392740.1_Splice_Site|RNF32_ENST00000392743.2_Splice_Site|RNF32_ENST00000311822.8_Splice_Site|RNF32_ENST00000343665.4_Splice_Site|RNF32_ENST00000432459.2_Splice_Site|RNF32_ENST00000392741.2_Splice_Site|RNF32_ENST00000317955.5_Splice_Site			Q9H0A6	RNF32_HUMAN	ring finger protein 32							aggresome (GO:0016235)|endosome (GO:0005768)	zinc ion binding (GO:0008270)			cervix(2)|endometrium(3)|kidney(1)|large_intestine(2)|lung(5)|upper_aerodigestive_tract(2)	15	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00291)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		CCTACTTTTTAGGGTCACTCA	0.343																																																0													50	54	53					7																	156437191		2203	4299	6502	SO:0001630	splice_region_variant	140545				CCDS5944.1	7q36	2013-08-05			ENSG00000105982	ENSG00000105982		"RING-type (C3HC4) zinc fingers"	17118	protein-coding gene	gene with protein product		610241				11890671	Standard	NM_001184996		Approved	FKSG33, HSD15, LMBR2	uc003wmr.3	Q9H0A6	OTTHUMG00000151440	ENST00000405335.1:c.16-1A>G	7.37:g.156437191A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6FIB3|Q6X7T4|Q8N6V8|Q8TDG0|Q96BM5|Q9Y6U1	Splice_Site	SNP	ENST00000405335.1	37	CCDS5944.1	.	.	.	.	.	.	.	.	.	.	A	11.29	1.594126	0.28445	.	.	ENSG00000105982	ENST00000404282;ENST00000439609;ENST00000432459;ENST00000317955;ENST00000405335;ENST00000311822;ENST00000392743;ENST00000392741;ENST00000343665;ENST00000392740	.	.	.	5.08	3.87	0.44632	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	12.0183	0.53329	0.8559:0.1441:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	RNF32	156129952	1.000000	0.71417	0.994000	0.49952	0.553000	0.35397	3.274000	0.51631	1.910000	0.55303	0.482000	0.46254	.		0.343	RNF32-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322660.2	NM_030936	Intron	G	156437191	A	G	156437191	5	3	660	1	0	0	0	0	0	0	1	0	13501	434	15	3	20	3	RNF32	7	156437191	Splice_Site	SNP	A	TCGA-KN-8424-01A-11D-2310-10	4304347	156437191	2701472	41	40965										
TG	7038	hgsc.bcm.edu	37	chr8	134128949	134128949	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	taccatgctcctgaaaactaCggccatggcaggtaagacgc	10	12	0	2			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr8:134128949C>T	ENST00000220616.4	+	45	7891	c.7851C>T	c.(7849-7851)taC>taT	p.Y2617Y	TG_ENST00000377869.1_Silent_p.Y2560Y|TG_ENST00000542445.1_Silent_p.Y987Y|TG_ENST00000519543.1_Silent_p.Y750Y	NM_003235.4	NP_003226.4	P01266	THYG_HUMAN	thyroglobulin	2617					hormone biosynthetic process (GO:0042446)|iodide transport (GO:0015705)|regulation of myelination (GO:0031641)|signal transduction (GO:0007165)|thyroid gland development (GO:0030878)|thyroid hormone generation (GO:0006590)	extracellular region (GO:0005576)|extracellular space (GO:0005615)				NS(1)|breast(11)|central_nervous_system(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(34)|liver(2)|lung(59)|ovary(9)|pancreas(2)|prostate(6)|skin(7)|stomach(4)|upper_aerodigestive_tract(4)|urinary_tract(8)	168	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CTGAAAACTACGGCCATGGCA	0.517																																																0													94	76	82					8																	134128949		2203	4300	6503	SO:0001819	synonymous_variant	7038			AU141420	CCDS34944.1	8q24	2012-10-02			ENSG00000042832	ENSG00000042832			11764	protein-coding gene	gene with protein product		188450					Standard	NM_003235		Approved	TGN, AITD3	uc003ytw.3	P01266	OTTHUMG00000164649	ENST00000220616.4:c.7851C>T	8.37:g.134128949C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O15274|O43899|Q15593|Q15948|Q9NYR1|Q9NYR2|Q9UMZ0|Q9UNY3	Silent	SNP	ENST00000220616.4	37	CCDS34944.1	.	.	.	.	.	.	.	.	.	.	C	0.013	-1.627610	0.00813	.	.	ENSG00000042832	ENST00000519178	.	.	.	5.53	-8.73	0.00841	.	.	.	.	.	T	0.42921	0.1224	.	.	.	0.09310	N	0.999999	.	.	.	.	.	.	T	0.44832	-0.9302	4	.	.	.	.	18.2325	0.89938	0.0:0.8626:0.0:0.1374	.	.	.	.	W	1073	.	.	R	+	1	2	TG	134198131	0.000000	0.05858	0.001000	0.08648	0.007000	0.05969	-1.654000	0.01984	-1.842000	0.01181	-2.404000	0.00223	CGG		0.517	TG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379606.1	NM_003235		T	134128949	C	T	134128949	2	4	660	1	0	0	0	0	0	0	0	1	15825	547	19	1		1	TG	8	134128949	Silent	SNP	C	TCGA-KN-8424-01A-11D-2310-10		134128949	12235073	42	40966										
PSCA	8000	mdanderson.org	37	chr8	143763547	143763547	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ctctggggacccggccagctCtaggctctggggggccccgc	16	16	3	0	rs1045531	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr8:143763547C>A	ENST00000301258.4	+	3	425	c.342C>A	c.(340-342)ctC>ctA	p.L114L		NM_005672.4	NP_005663.2	O43653	PSCA_HUMAN	prostate stem cell antigen	123						anchored component of membrane (GO:0031225)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)				endometrium(1)|large_intestine(1)	2	all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					CCGGCCAGCTCTAGGCTCTGG	0.706													A|||	2013	0.401957	0.354	0.5072	5008	,	,		13713	0.3423		0.4473	False		,,,				2504	0.407															0								A		1450,2534		293,864,835	13	15	14		342	1.4	0.3	8	dbSNP_86	14	3740,4612		857,2026,1293	no	coding-synonymous	PSCA	NM_005672.4		1150,2890,2128	AA,AC,CC		44.7797,36.3956,42.072		114/115	143763547	5190,7146	1992	4176	6168	SO:0001819	synonymous_variant	8000			AF043498	CCDS47925.1, CCDS47925.2	8q24.2	2004-02-03				ENSG00000167653			9500	protein-coding gene	gene with protein product		602470				9465086	Standard	NM_005672		Approved		uc022bcd.1	O43653		ENST00000301258.4:c.342C>A	8.37:g.143763547C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UW92	Silent	SNP	ENST00000301258.4	37	CCDS47925.2																																																																																				0.706	PSCA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367112.2	NM_005672		A	143763547	C	A	143763547	2	1	660	1	0	0	0	0	0	0	0	1	12655	900	32	4		4	PSCA	8	143763547	Silent	SNP	C	TCGA-KN-8424-01A-11D-2310-10	9634598	143763547	2600475	43	40967										
SCRIB	23513	hgsc.bcm.edu	37	chr8	144874055	144874055	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	cggctcctcaccaggcgtccCggggaggtgctggtctgggg	18	13	2	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr8:144874055C>T	ENST00000320476.3	-	34	4692	c.4686G>A	c.(4684-4686)ccG>ccA	p.P1562P	SCRIB_ENST00000377533.3_Silent_p.P1481P|RP11-429J17.8_ENST00000534089.1_RNA|RP11-429J17.8_ENST00000527139.1_RNA|SCRIB_ENST00000546337.1_5'Flank|SCRIB_ENST00000356994.2_Silent_p.P1562P|RP11-429J17.8_ENST00000532625.1_RNA	NM_015356.4	NP_056171	Q14160	SCRIB_HUMAN	scribbled planar cell polarity protein	1562					activation of Rac GTPase activity (GO:0032863)|apoptotic process involved in morphogenesis (GO:0060561)|astrocyte cell migration (GO:0043615)|asymmetric protein localization (GO:0008105)|auditory receptor cell stereocilium organization (GO:0060088)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|cochlear nucleus development (GO:0021747)|establishment of apical/basal cell polarity (GO:0035089)|mammary gland duct morphogenesis (GO:0060603)|negative regulation of mitotic cell cycle (GO:0045930)|neural tube closure (GO:0001843)|positive chemotaxis (GO:0050918)|positive regulation of apoptotic process (GO:0043065)|positive regulation of receptor recycling (GO:0001921)|protein localization to adherens junction (GO:0071896)|single organismal cell-cell adhesion (GO:0016337)|synaptic vesicle endocytosis (GO:0048488)|synaptic vesicle targeting (GO:0016080)|viral process (GO:0016032)|wound healing (GO:0042060)	basolateral plasma membrane (GO:0016323)|cell projection (GO:0042995)|cell-cell adherens junction (GO:0005913)|cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|myelin sheath abaxonal region (GO:0035748)|plasma membrane (GO:0005886)|Scrib-APC-beta-catenin complex (GO:0034750)				NS(1)|autonomic_ganglia(1)|central_nervous_system(2)|endometrium(3)|kidney(3)|large_intestine(3)|lung(20)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	42	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)			CCAGGCGTCCCGGGGAGGTGC	0.726																																					Pancreas(51;966 1133 10533 14576 29674)											0													6	8	7					8																	144874055		2073	4137	6210	SO:0001819	synonymous_variant	23513			AY062238	CCDS6411.1, CCDS6412.1	8q24.3	2013-03-05	2013-03-05		ENSG00000180900	ENSG00000180900			30377	protein-coding gene	gene with protein product		607733	"scribbled homolog (Drosophila)"			11027293, 14681682	Standard	NM_182706		Approved	KIAA0147, SCRB1, Vartul	uc003yzo.1	Q14160	OTTHUMG00000165154	ENST00000320476.3:c.4686G>A	8.37:g.144874055C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6P496|Q7Z5D1|Q8WWV8|Q96C69|Q96GG1	Silent	SNP	ENST00000320476.3	37	CCDS6411.1	.	.	.	.	.	.	.	.	.	.	C	9.161	1.018831	0.19355	.	.	ENSG00000180900	ENST00000526832	.	.	.	4.46	-8.93	0.00771	.	.	.	.	.	T	0.44850	0.1313	.	.	.	0.51482	D	0.999928	.	.	.	.	.	.	T	0.51196	-0.8736	4	.	.	.	.	6.53	0.22322	0.1245:0.4597:0.3309:0.0849	.	.	.	.	R	582	.	.	G	-	1	0	SCRIB	144946043	0.000000	0.05858	0.727000	0.30756	0.989000	0.77384	-3.492000	0.00453	-2.365000	0.00606	-0.408000	0.06270	GGG		0.726	SCRIB-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000382215.1	NM_015356		T	144874055	C	T	144874055	2	4	660	1	0	0	0	0	0	0	0	1	13950	639	23	1		1	SCRIB	8	144874055	Silent	SNP	C	TCGA-KN-8424-01A-11D-2310-10	1110508	144874055	1489967	44	40968										
ADCK5	203054	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr8	145617189	145617189	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ctgagcagatattttacaccGgcttcatccactcggaccca	7	14	1	2			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr8:145617189G>A	ENST00000308860.6	+	10	1107	c.1063G>A	c.(1063-1065)Ggc>Agc	p.G355S	MIR939_ENST00000401314.1_RNA|CPSF1_ENST00000531727.1_5'Flank	NM_174922.3	NP_777582.4	Q3MIX3	ADCK5_HUMAN	aarF domain containing kinase 5	355	Protein kinase.					integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)	protein serine/threonine kinase activity (GO:0004674)			endometrium(1)|lung(2)|prostate(2)|skin(1)|stomach(2)	8	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;8.96e-41)|Epithelial(56;4.08e-40)|all cancers(56;4.51e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			ATTTTACACCGGCTTCATCCA	0.592																																																0													78	79	79					8																	145617189		2202	4300	6502	SO:0001583	missense	203054			BC032402	CCDS34965.1, CCDS34965.2	8q24.3	2004-07-06			ENSG00000173137	ENSG00000173137			21738	protein-coding gene	gene with protein product							Standard	NM_174922		Approved	FLJ35454	uc003zch.3	Q3MIX3	OTTHUMG00000165190	ENST00000308860.6:c.1063G>A	8.37:g.145617189G>A	ENSP00000310547:p.Gly355Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KS46|Q5U4P1|Q6P2S4|Q8N5V3	Missense_Mutation	SNP	ENST00000308860.6	37	CCDS34965.1	.	.	.	.	.	.	.	.	.	.	G	21.4	4.140720	0.77775	.	.	ENSG00000173137	ENST00000308860	T	0.28454	1.61	5.54	5.54	0.83059	Protein kinase-like domain (1);	0.000000	0.85682	D	0.000000	T	0.63977	0.2557	M	0.89715	3.055	0.80722	D	1	D	0.89917	1.0	D	0.81914	0.995	T	0.71293	-0.4636	10	0.72032	D	0.01	-44.657	16.9685	0.86293	0.0:0.0:1.0:0.0	.	355	Q3MIX3	ADCK5_HUMAN	S	355	ENSP00000310547:G355S	ENSP00000310547:G355S	G	+	1	0	ADCK5	145587997	1.000000	0.71417	0.949000	0.38748	0.225000	0.24961	5.708000	0.68377	2.617000	0.88574	0.555000	0.69702	GGC		0.592	ADCK5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382556.2	NM_174922		A	145617189	G	A	145617189	3	1	660	1	0	0	0	0	1	0	0	0	291	1116	39	1	1101	1	ADCK5	8	145617189	Missense_Mutation	SNP	G	TCGA-KN-8424-01A-11D-2310-10	743134	145617189	746833	45	40969										
GLIS3	169792	broad.mit.edu	37	chr9	3856040	3856040	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ataccatttggttgaaaagaAgagtttgtttctggctgata	10	4	1	4			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr9:3856040A>G	ENST00000324333.10	-	8	2170	c.1977T>C	c.(1975-1977)tcT>tcC	p.S659S	GLIS3_ENST00000461870.1_5'UTR|GLIS3_ENST00000381971.3_Silent_p.S814S	NM_152629.3	NP_689842.3	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3	659					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription from RNA polymerase II promoter (GO:0006366)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(12)|lung(4)|ovary(2)|prostate(1)|skin(1)	26		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		GTTGAAAAGAAGAGTTTGTTT	0.443																																																0													150	145	146					9																	3856040		2203	4300	6503	SO:0001819	synonymous_variant	169792			BC033899	CCDS6451.1, CCDS43784.1	9p24.2	2008-05-02	2004-07-16	2004-07-16	ENSG00000107249	ENSG00000107249		"Zinc fingers, C2H2-type"	28510	protein-coding gene	gene with protein product		610192	"zinc finger protein 515"	ZNF515		14500813	Standard	NM_152629		Approved	MGC33662	uc003zhx.1	Q8NEA6	OTTHUMG00000019463	ENST00000324333.10:c.1977T>C	9.37:g.3856040A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B1AL19|Q1PHK5	Silent	SNP	ENST00000324333.10	37	CCDS6451.1																																																																																				0.443	GLIS3-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000051559.1	NM_152629		G	3856040	A	G	3856040	2	3	660	1	0	0	0	0	0	0	0	1	6454	59	3	3		3	GLIS3	9	3856040	Silent	SNP	A	TCGA-KN-8424-01A-11D-2310-10		3856040	137357391	46	40970										
HABP4	22927	broad.mit.edu	37	chr9	99227725	99227725	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ctgggaacagagtttttgacGcttttgaccagagaggaaag	13	6	0	4	rs375474752		TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr9:99227725G>T	ENST00000375249.4	+	3	694	c.619G>T	c.(619-621)Gct>Tct	p.A207S	HABP4_ENST00000375251.3_Intron	NM_014282.2	NP_055097.2			hyaluronan binding protein 4											NS(1)|cervix(2)|endometrium(1)|large_intestine(2)|lung(3)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	13		Acute lymphoblastic leukemia(62;0.0169)|all_hematologic(171;0.214)				AGTTTTTGACGCTTTTGACCA	0.473																																																0													116	126	122					9																	99227725		2203	4300	6503	SO:0001583	missense	22927			AF241831	CCDS6719.1	9q22.3-q31	2008-02-05			ENSG00000130956	ENSG00000130956			17062	protein-coding gene	gene with protein product						9523163, 10887182	Standard	XM_005251812		Approved	IHABP4, SERBP1L	uc010msg.3	Q5JVS0	OTTHUMG00000020298	ENST00000375249.4:c.619G>T	9.37:g.99227725G>T	ENSP00000364398:p.Ala207Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000375249.4	37	CCDS6719.1	.	.	.	.	.	.	.	.	.	.	G	7.251	0.603304	0.14002	.	.	ENSG00000130956	ENST00000375249	T	0.28255	1.62	4.86	-0.806	0.10875	.	0.826723	0.11648	N	0.543070	T	0.08714	0.0216	N	0.01352	-0.895	0.09310	N	1	B	0.14438	0.01	B	0.08055	0.003	T	0.27773	-1.0064	10	0.31617	T	0.26	-0.1667	3.8665	0.09018	0.2946:0.0:0.436:0.2694	.	207	Q5JVS0	HABP4_HUMAN	S	207	ENSP00000364398:A207S	ENSP00000364398:A207S	A	+	1	0	HABP4	98267546	0.912000	0.30974	0.001000	0.08648	0.160000	0.22226	0.612000	0.24283	-0.228000	0.09869	-0.365000	0.07479	GCT		0.473	HABP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053269.1	NM_014282		T	99227725	G	T	99227725	3	4	660	1	0	0	0	0	1	0	0	0	6946	1087	38	4	629	4	HABP4	9	99227725	Missense_Mutation	SNP	G	TCGA-KN-8424-01A-11D-2310-10	95371685	99227725	41985706	47	40971										
NUP188	23511	broad.mit.edu	37	chr9	131730829	131730829	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tttgttcagtgccttcgggaAcagtccatgctgctagaaat	10	9	1	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr9:131730829A>G	ENST00000372577.2	+	9	651	c.630A>G	c.(628-630)gaA>gaG	p.E210E		NM_015354.1	NP_056169.1	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	210					carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|protein transport (GO:0015031)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	membrane (GO:0016020)|nuclear envelope (GO:0005635)|nuclear pore (GO:0005643)				breast(2)|central_nervous_system(3)|endometrium(6)|kidney(4)|large_intestine(9)|lung(20)|ovary(6)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(3)	60						GCCTTCGGGAACAGTCCATGC	0.388																																																0													110	108	109					9																	131730829		2203	4300	6503	SO:0001819	synonymous_variant	23511			D79991	CCDS35156.1	9q34.13	2014-01-28	2004-03-19	2004-03-24	ENSG00000095319	ENSG00000095319			17859	protein-coding gene	gene with protein product		615587	"KIAA0169"	KIAA0169		11029043	Standard	NM_015354		Approved		uc004bws.2	Q5SRE5	OTTHUMG00000020768	ENST00000372577.2:c.630A>G	9.37:g.131730829A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q14675|Q2TA87|Q7Z3K8|Q8IWF1	Silent	SNP	ENST00000372577.2	37	CCDS35156.1																																																																																				0.388	NUP188-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054529.2			G	131730829	A	G	131730829	2	3	660	1	0	0	0	0	0	0	0	1	10765	40	2	3		3	NUP188	9	131730829	Silent	SNP	A	TCGA-KN-8424-01A-11D-2310-10	32503104	131730829	9482602	48	40972										
SNAPC4	6621	mdanderson.org	37	chr9	139272502	139272502	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ttctcaggcccaggctggggTaggggcggcttctccaggtc	16	12	2	0	rs3812565	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr9:139272502T>C	ENST00000298532.2	-	21	4145	c.3777A>G	c.(3775-3777)ctA>ctG	p.L1259L		NM_003086.2	NP_003077.2			small nuclear RNA activating complex, polypeptide 4, 190kDa											biliary_tract(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(13)|ovary(1)|prostate(3)|skin(2)|urinary_tract(1)	33		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		CAGGCTGGGGTAGGGGCGGCT	0.746													N|||	1642	0.327875	0.2935	0.5648	5008	,	,		12956	0.1885		0.3549	False		,,,				2504	0.3221															0										899,2601		168,563,1019	4	5	4		3777	-2.4	0	9	dbSNP_107	4	2448,4658		514,1420,1619	no	coding-synonymous	SNAPC4	NM_003086.2		682,1983,2638	CC,CT,TT		34.4498,25.6857,31.5576		1259/1470	139272502	3347,7259	1750	3553	5303	SO:0001819	synonymous_variant	6621			AF032387	CCDS6998.1	9q34.3	2008-07-21	2002-08-29		ENSG00000165684	ENSG00000165684			11137	protein-coding gene	gene with protein product		602777	"small nuclear RNA activating complex, polypeptide 4, 190kD"			9418884	Standard	XM_005266096		Approved	SNAP190, PTFalpha, FLJ13451	uc004chh.3	Q5SXM2	OTTHUMG00000020929	ENST00000298532.2:c.3777A>G	9.37:g.139272502T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000298532.2	37	CCDS6998.1																																																																																				0.746	SNAPC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055071.1	NM_003086		C	139272502	T	C	139272502	2	2	660	1	0	0	0	0	0	0	0	1	14850	1625	57	3		3	SNAPC4	9	139272502	Silent	SNP	T	TCGA-KN-8424-01A-11D-2310-10	7541673	139272502	1940929	49	40973										
ZNF438	220929	broad.mit.edu	37	chr10	31138701	31138701	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gcaggagggttcagactgccAtgggtgttggtcactggtgg	18	7	2	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr10:31138701A>G	ENST00000361310.3	-	6	962	c.633T>C	c.(631-633)caT>caC	p.H211H	ZNF438_ENST00000413025.1_Silent_p.H211H|ZNF438_ENST00000331737.6_Silent_p.H201H|ZNF438_ENST00000442986.1_Silent_p.H211H|ZNF438_ENST00000538351.2_Silent_p.H162H|ZNF438_ENST00000375311.1_Intron|ZNF438_ENST00000452305.1_Silent_p.H201H|ZNF438_ENST00000436087.2_Silent_p.H211H|ZNF438_ENST00000444692.2_Silent_p.H201H			Q7Z4V0	ZN438_HUMAN	zinc finger protein 438	211					negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(3)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(3)|lung(15)|ovary(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	35		Prostate(175;0.0587)				TCAGACTGCCATGGGTGTTGG	0.552																																																0													133	120	124					10																	31138701		2203	4300	6503	SO:0001819	synonymous_variant	220929			AK057323	CCDS7168.1, CCDS44369.1, CCDS53504.1	10p11.23	2006-02-15			ENSG00000183621	ENSG00000183621		"Zinc fingers, C2H2-type"	21029	protein-coding gene	gene with protein product							Standard	NM_182755		Approved	bA330O11.1	uc010qeb.2	Q7Z4V0	OTTHUMG00000017904	ENST00000361310.3:c.633T>C	10.37:g.31138701A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A2A3J4|A8K9L5|Q5T426|Q658Q4|Q6ZN65	Silent	SNP	ENST00000361310.3	37	CCDS7168.1																																																																																				0.552	ZNF438-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000277006.1	NM_182755		G	31138701	A	G	31138701	2	3	660	1	0	0	0	0	0	0	0	1	17922	214	8	3		3	ZNF438	10	31138701	Silent	SNP	A	TCGA-KN-8424-01A-11D-2310-10		31138701	104396046	50	40974										
JMJD1C	221037	broad.mit.edu;hgsc.bcm.edu	37	chr10	64957252	64957253	+	Frame_Shift_Ins	INS	-	-	A													0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tggcagacccagtgaatgttINSaaacaatgttgcttcacatg							TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr10:64957252_64957253insA	ENST00000399262.2	-	13	5780_5781	c.5562_5563insT	c.(5560-5565)tttaacfs	p.N1855fs	JMJD1C_ENST00000542921.1_Frame_Shift_Ins_p.N1673fs|JMJD1C_ENST00000402544.1_Frame_Shift_Ins_p.N1636fs|JMJD1C_ENST00000399251.1_3'UTR	NM_032776.1	NP_116165.1	Q15652	JHD2C_HUMAN	jumonji domain containing 1C	1855					blood coagulation (GO:0007596)|chromatin modification (GO:0016568)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	intracellular (GO:0005622)|nucleoplasm (GO:0005654)	dioxygenase activity (GO:0051213)|metal ion binding (GO:0046872)|thyroid hormone receptor binding (GO:0046966)			breast(2)|central_nervous_system(2)|cervix(1)|endometrium(8)|kidney(8)|large_intestine(9)|lung(27)|ovary(6)|prostate(4)|skin(4)|stomach(3)|upper_aerodigestive_tract(3)	77	Prostate(12;0.0119)|all_hematologic(501;0.191)					CAGTGAATGTTAAACAATGTTG	0.381																																																0																																										SO:0001589	frameshift_variant	221037			L40411	CCDS41532.1, CCDS60538.1	10q22.1	2011-05-25	2004-03-31	2004-04-01	ENSG00000171988	ENSG00000171988			12313	protein-coding gene	gene with protein product		604503	"thyroid hormone receptor interactor 8"	TRIP8		7776974	Standard	XM_005269624		Approved	DKFZp761F0118, KIAA1380, FLJ14374	uc001jmn.3	Q15652	OTTHUMG00000018311	ENST00000399262.2:c.5563dupT	10.37:g.64957255_64957255dupA	ENSP00000382204:p.Asn1855fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0T124|Q5SQZ8|Q5SQZ9|Q5SR00|Q7Z3E7|Q8N3U0|Q96KB9|Q9P2G7	Nonsense_Mutation	INS	ENST00000399262.2	37	CCDS41532.1																																																																																				0.381	JMJD1C-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048249.2	NM_004241		A	64957253	-	A	64957252	7	5	660	1	0	1	1	0	0	0	0	0	7957	1754	61	0	2115	0	JMJD1C	10	64957252	Frame_Shift_Ins	INS	-	TCGA-KN-8424-01A-11D-2310-10	33818551	64957252	70577495	51	40975	380	2								
JMJD1C	221037	bcgsc.ca	37	chr10	64957253	64957254	+	Frame_Shift_Ins	INS	-	-	A													0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ggcagacccagtgaatgttaINSaacaatgttgcttcacatgc							TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr10:64957253_64957254insA	ENST00000399262.2	-	13	5779_5780	c.5561_5562insT	c.(5560-5562)tttfs	p.F1854fs	JMJD1C_ENST00000542921.1_Frame_Shift_Ins_p.F1672fs|JMJD1C_ENST00000402544.1_Frame_Shift_Ins_p.F1635fs|JMJD1C_ENST00000399251.1_3'UTR	NM_032776.1	NP_116165.1	Q15652	JHD2C_HUMAN	jumonji domain containing 1C	1854					blood coagulation (GO:0007596)|chromatin modification (GO:0016568)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	intracellular (GO:0005622)|nucleoplasm (GO:0005654)	dioxygenase activity (GO:0051213)|metal ion binding (GO:0046872)|thyroid hormone receptor binding (GO:0046966)			breast(2)|central_nervous_system(2)|cervix(1)|endometrium(8)|kidney(8)|large_intestine(9)|lung(27)|ovary(6)|prostate(4)|skin(4)|stomach(3)|upper_aerodigestive_tract(3)	77	Prostate(12;0.0119)|all_hematologic(501;0.191)					AGTGAATGTTAAACAATGTTGC	0.386																																																0																																										SO:0001589	frameshift_variant	221037			L40411	CCDS41532.1, CCDS60538.1	10q22.1	2011-05-25	2004-03-31	2004-04-01	ENSG00000171988	ENSG00000171988			12313	protein-coding gene	gene with protein product		604503	"thyroid hormone receptor interactor 8"	TRIP8		7776974	Standard	XM_005269624		Approved	DKFZp761F0118, KIAA1380, FLJ14374	uc001jmn.3	Q15652	OTTHUMG00000018311	ENST00000399262.2:c.5563dupT	10.37:g.64957255_64957255dupA	ENSP00000382204:p.Phe1854fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0T124|Q5SQZ8|Q5SQZ9|Q5SR00|Q7Z3E7|Q8N3U0|Q96KB9|Q9P2G7	Frame_Shift_Ins	INS	ENST00000399262.2	37	CCDS41532.1																																																																																				0.386	JMJD1C-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048249.2	NM_004241		A	64957254	-	A	64957253	7	5	660	1	0	1	1	0	0	0	0	0	7957	359	13	0	2116	0	JMJD1C	10	64957253	Frame_Shift_Ins	INS	-	TCGA-KN-8424-01A-11D-2310-10	1	64957253	70577494	52	40976	380	2								
HPSE2	60495	ucsc.edu	37	chr10	100401630	100401630	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	aattttcctaatctggtcagAgagtgtgtctaacaggcgag	11	7	3	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr10:100401630A>G	ENST00000370552.3	-	7	1131	c.1072T>C	c.(1072-1074)Tct>Cct	p.S358P	HPSE2_ENST00000370546.1_Missense_Mutation_p.S358P|HPSE2_ENST00000404542.1_Missense_Mutation_p.S246P|HPSE2_ENST00000370549.1_Missense_Mutation_p.S300P	NM_021828.4	NP_068600.4	Q8WWQ2	HPSE2_HUMAN	heparanase 2 (inactive)	358					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|small molecule metabolic process (GO:0044281)	intracellular (GO:0005622)|plasma membrane (GO:0005886)|proteinaceous extracellular matrix (GO:0005578)	heparan sulfate proteoglycan binding (GO:0043395)|heparanase activity (GO:0030305)			NS(1)|breast(1)|endometrium(3)|kidney(2)|large_intestine(14)|lung(15)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	40				Epithelial(162;1.8e-09)|all cancers(201;4.72e-07)		ATCTGGTCAGAGAGTGTGTCT	0.413																																																0													199	212	207					10																	100401630		2203	4300	6503	SO:0001583	missense	60495			AF282885	CCDS7477.1, CCDS53567.1, CCDS53568.1	10q23-q24	2014-05-09	2014-05-09		ENSG00000172987	ENSG00000172987			18374	protein-coding gene	gene with protein product		613469	"urofacial syndrome", "heparanase 2"	UFS		11027606, 20605132, 9199567, 20576607	Standard	NM_021828		Approved	HPA2, HPR2	uc001kpn.2	Q8WWQ2	OTTHUMG00000018880	ENST00000370552.3:c.1072T>C	10.37:g.100401630A>G	ENSP00000359583:p.Ser358Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUH4|Q5VUH5|Q5VUH6|Q8WWQ1|Q9HB37|Q9HB38|Q9HB39	Missense_Mutation	SNP	ENST00000370552.3	37	CCDS7477.1	.	.	.	.	.	.	.	.	.	.	A	16.70	3.194608	0.58017	.	.	ENSG00000172987	ENST00000370552;ENST00000370549;ENST00000370546;ENST00000404542	T;T;T;T	0.29397	1.57;1.57;1.57;1.57	5.78	5.78	0.91487	Glycoside hydrolase, subgroup, catalytic domain (1);Glycoside hydrolase, superfamily (1);	0.063185	0.64402	D	0.000003	T	0.28863	0.0716	N	0.12182	0.205	0.58432	D	0.999991	P;P;P;P	0.47191	0.879;0.744;0.867;0.891	P;B;B;P	0.51193	0.662;0.341;0.439;0.575	T	0.06789	-1.0807	10	0.30078	T	0.28	-6.6273	16.3979	0.83621	1.0:0.0:0.0:0.0	.	246;358;300;358	Q8WWQ2-4;Q8WWQ2-2;Q8WWQ2-3;Q8WWQ2	.;.;.;HPSE2_HUMAN	P	358;300;358;246	ENSP00000359583:S358P;ENSP00000359580:S300P;ENSP00000359577:S358P;ENSP00000384384:S246P	ENSP00000359577:S358P	S	-	1	0	HPSE2	100391620	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	2.613000	0.46351	2.333000	0.79357	0.533000	0.62120	TCT		0.413	HPSE2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049789.1	NM_021828		G	100401630	A	G	100401630	3	3	660	1	0	0	0	0	1	0	0	0	7352	304	11	3	768	3	HPSE2	10	100401630	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10	35444377	100401630	35133117	53	40977										
CYP2E1	1571	hgsc.bcm.edu	37	chr10	135346309	135346309	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gaaagggtgaaggagcaccaTcaatctctggaccccaactg	11	11	2	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr10:135346309T>C	ENST00000463117.2	+	7	1034	c.762T>C	c.(760-762)caT>caC	p.H254H	CYP2E1_ENST00000252945.3_Silent_p.H254H|SPRN_ENST00000541506.1_Intron			P05181	CP2E1_HUMAN	cytochrome P450, family 2, subfamily E, polypeptide 1	254					drug metabolic process (GO:0017144)|heterocycle metabolic process (GO:0046483)|monoterpenoid metabolic process (GO:0016098)|oxidation-reduction process (GO:0055114)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to organonitrogen compound (GO:0010243)|response to ozone (GO:0010193)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|triglyceride metabolic process (GO:0006641)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)|Golgi membrane (GO:0000139)|intrinsic component of endoplasmic reticulum membrane (GO:0031227)|mitochondrion (GO:0005739)	enzyme binding (GO:0019899)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity (GO:0016491)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen (GO:0016709)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen (GO:0016712)|oxygen binding (GO:0019825)			NS(1)|central_nervous_system(3)|endometrium(1)|kidney(4)|large_intestine(6)|liver(2)|lung(7)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	30		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;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)	Acetaminophen(DB00316)|Aldesleukin(DB00041)|Almotriptan(DB00918)|Alosetron(DB00969)|Aminophylline(DB01223)|Amitriptyline(DB00321)|Antipyrine(DB01435)|Azelastine(DB00972)|Benzyl alcohol(DB06770)|Bifonazole(DB04794)|Bromazepam(DB01558)|Brompheniramine(DB00835)|Bupropion(DB01156)|Caffeine(DB00201)|Carbinoxamine(DB00748)|Carvedilol(DB01136)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cimetidine(DB00501)|Citalopram(DB00215)|Clevidipine(DB04920)|Clofibrate(DB00636)|Clomifene(DB00882)|Clonazepam(DB01068)|Clotrimazole(DB00257)|Clozapine(DB00363)|Colchicine(DB01394)|Dacarbazine(DB00851)|Dalfampridine(DB06637)|Dapsone(DB00250)|Desipramine(DB01151)|Dexamethasone(DB01234)|Dexfenfluramine(DB01191)|Dexmedetomidine(DB00633)|Dextromethorphan(DB00514)|Diazepam(DB00829)|Diclofenac(DB00586)|Diethylstilbestrol(DB00255)|Disulfiram(DB00822)|Econazole(DB01127)|Enflurane(DB00228)|Enfuvirtide(DB00109)|Estrone(DB00655)|Ethanol(DB00898)|Ethanolamine Oleate(DB06689)|Ethosuximide(DB00593)|Etoposide(DB00773)|Etoricoxib(DB01628)|Felbamate(DB00949)|Fingolimod(DB08868)|Flunitrazepam(DB01544)|Fluphenazine(DB00623)|Flurazepam(DB00690)|Fluvoxamine(DB00176)|Folic Acid(DB00158)|Fomepizole(DB01213)|Glucosamine(DB01296)|Halothane(DB01159)|Hexobarbital(DB01355)|Iloperidone(DB04946)|Imipramine(DB00458)|Isoflurane(DB00753)|Isoniazid(DB00951)|Isosorbide Dinitrate(DB00883)|Itraconazole(DB01167)|Menadione(DB00170)|Meprobamate(DB00371)|Methazolamide(DB00703)|Methimazole(DB00763)|Methotrimeprazine(DB01403)|Methoxyflurane(DB01028)|Metyrapone(DB01011)|Mexiletine(DB00379)|Miconazole(DB01110)|Midazolam(DB00683)|Mitoxantrone(DB01204)|Nicardipine(DB00622)|Nicotine(DB00184)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nitrazepam(DB01595)|Nortriptyline(DB00540)|Ondansetron(DB00904)|Orphenadrine(DB01173)|Oxaliplatin(DB00526)|Paramethadione(DB00617)|Phenelzine(DB00780)|Phenobarbital(DB01174)|Pilocarpine(DB01085)|Pimozide(DB01100)|Proguanil(DB01131)|Propofol(DB00818)|Quinidine(DB00908)|Quinine(DB00468)|Rifampicin(DB01045)|Ritonavir(DB00503)|Rufinamide(DB06201)|S-Adenosylmethionine(DB00118)|Selegiline(DB01037)|Sevoflurane(DB01236)|Sildenafil(DB00203)|Streptozocin(DB00428)|Sulfadiazine(DB00359)|Sulfanilamide(DB00259)|Tamoxifen(DB00675)|Thalidomide(DB01041)|Theobromine(DB01412)|Theophylline(DB00277)|Thiopental(DB00599)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tioconazole(DB01007)|Trabectedin(DB05109)|Tranylcypromine(DB00752)|Trimethadione(DB00347)|Ursodeoxycholic acid(DB01586)|Zafirlukast(DB00549)|Zopiclone(DB01198)	AGGAGCACCATCAATCTCTGG	0.532									Naso-/Oropharyngeal/Laryngeal Cancer, Familial Clustering of																																							0													88	87	87					10																	135346309		2203	4300	6503	SO:0001819	synonymous_variant	1571	Familial Cancer Database	incl.: Familial Head and Neck Cancer	J02843	CCDS7686.1	10q26.3	2013-05-03	2003-01-14	2002-09-13	ENSG00000130649	ENSG00000130649		"Cytochrome P450s"	2631	protein-coding gene	gene with protein product		124040	"cytochrome P450, subfamily IIE (ethanol-inducible), polypeptide 1"	CYP2E			Standard	NM_000773		Approved		uc001lnj.1	P05181	OTTHUMG00000019322	ENST00000463117.2:c.762T>C	10.37:g.135346309T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VZD5|Q6NWT9|Q9UK47	Silent	SNP	ENST00000463117.2	37	CCDS7686.1																																																																																				0.532	CYP2E1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051161.2	NM_000773		C	135346309	T	C	135346309	2	2	660	1	0	0	0	0	0	0	0	1	4172	1432	50	3		3	CYP2E1	10	135346309	Silent	SNP	T	TCGA-KN-8424-01A-11D-2310-10	34944679	135346309	188438	54	40978										
PKP3	11187	mdanderson.org	37	chr11	397063	397063	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tgcgctcgctgcggctggggCccgggggcctggacgaccgc	19	15	0	0	rs113852684	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr11:397063C>A	ENST00000331563.2	+	3	638	c.562C>A	c.(562-564)Ccc>Acc	p.P188T		NM_007183.2	NP_009114.1	Q9Y446	PKP3_HUMAN	plakophilin 3	188					desmosome assembly (GO:0002159)|establishment of protein localization to plasma membrane (GO:0090002)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|desmosome (GO:0030057)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	cell adhesion molecule binding (GO:0050839)			breast(1)|central_nervous_system(1)|endometrium(3)|lung(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11		all_cancers(49;3.02e-09)|all_epithelial(84;2.09e-06)|Breast(177;0.000162)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;1.56e-27)|Epithelial(43;9.31e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0182)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GCGGCTGGGGCCCGGGGGCCT	0.711													g|||	50	0.00998403	0.0008	0.0187	5008	,	,		13907	0.0		0.0318	False		,,,				2504	0.0041															0									THR/PRO	23,4305		0,23,2141	21	26	24		562	-7.3	0	11	dbSNP_132	24	178,8328		2,174,4077	no	missense	PKP3	NM_007183.2	38	2,197,6218	AA,AC,CC		2.0926,0.5314,1.5662	benign	188/798	397063	201,12633	2164	4253	6417	SO:0001583	missense	11187			Z98265	CCDS7695.1	11p15	2013-02-14			ENSG00000184363	ENSG00000184363		"Armadillo repeat containing"	9025	protein-coding gene	gene with protein product		605561				10374265	Standard	XM_005252760		Approved		uc001lpc.3	Q9Y446	OTTHUMG00000119068	ENST00000331563.2:c.562C>A	11.37:g.397063C>A	ENSP00000331678:p.Pro188Thr	Somatic		WXS	Illumina HiSeq	Phase_I	F8J390|Q53EX8	Missense_Mutation	SNP	ENST00000331563.2	37	CCDS7695.1	32	0.014652014652014652	0	0.0	12	0.03314917127071823	1	0.0017482517482517483	19	0.025065963060686015	g	0.001	-3.381430	0.00015	0.005314	0.020926	ENSG00000184363	ENST00000534401;ENST00000533249;ENST00000527442;ENST00000528036;ENST00000331563;ENST00000531857	T	0.80214	-1.35	3.66	-7.32	0.01436	.	2.113190	0.02807	N	0.123819	T	0.45915	0.1366	N	0.22421	0.69	0.09310	N	1	B	0.09022	0.002	B	0.12156	0.007	T	0.63804	-0.6554	10	0.17369	T	0.5	-0.6299	15.2	0.73130	0.0:0.3915:0.5262:0.0823	.	188	Q9Y446	PKP3_HUMAN	T	32;32;32;32;188;130	ENSP00000331678:P188T	ENSP00000331678:P188T	P	+	1	0	PKP3	387063	0.000000	0.05858	0.001000	0.08648	0.150000	0.21749	-1.689000	0.01923	-5.013000	0.00024	-4.230000	0.00009	CCC		0.711	PKP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239281.1	NM_007183		A	397063	C	A	397063	3	1	660	1	0	0	0	0	1	0	0	0	11993	739	26	4	572	4	PKP3	11	397063	Missense_Mutation	SNP	C	TCGA-KN-8424-01A-11D-2310-10		397063	134609453	55	40979										
DNHD1	144132	bcgsc.ca	37	chr11	6592054	6592054	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gcgcccagcttgcggaaaggCgactgcggcaacgcctagtg	15	13	0	0	rs80197979	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr11:6592054C>T	ENST00000527990.2	+	40	13312	c.13312C>T	c.(13312-13314)Cga>Tga	p.R4438*	DNHD1_ENST00000254579.6_Nonsense_Mutation_p.R4438*			Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1	4438					microtubule-based movement (GO:0007018)	dynein complex (GO:0030286)|extracellular vesicular exosome (GO:0070062)	microtubule motor activity (GO:0003777)			NS(1)|autonomic_ganglia(1)|breast(4)|endometrium(13)|kidney(6)|large_intestine(11)|lung(14)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	55		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		TGCGGAAAGGCGACTGCGGCA	0.637													C|||	14	0.00279553	0.0091	0.0029	5008	,	,		19165	0.0		0.0	False		,,,				2504	0.0															0								C	stop/ARG	15,4247		0,15,2116	32	38	36		13312	3.8	1	11	dbSNP_132	36	0,8474		0,0,4237	yes	stop-gained	DNHD1	NM_144666.2		0,15,6353	TT,TC,CC		0.0,0.3519,0.1178		4438/4754	6592054	15,12721	2131	4237	6368	SO:0001587	stop_gained	144132			AK128064	CCDS44532.1, CCDS7767.1	11p15.4	2011-02-10		2005-11-28	ENSG00000179532	ENSG00000179532			26532	protein-coding gene	gene with protein product			"chromosome 11 open reading frame 47", "dynein heavy chain domain 1-like", "coiled-coil domain containing 35"	DHCD1, C11orf47, DNHD1L, CCDC35		12975309	Standard	NM_173589		Approved	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796	uc001mdw.4	Q96M86	OTTHUMG00000133403	ENST00000527990.2:c.13312C>T	11.37:g.6592054C>T	ENSP00000436180:p.Arg4438*	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKK8|Q6UWI9|Q8NAA2|Q8TEE6|Q9NSZ9	Nonsense_Mutation	SNP	ENST00000527990.2	37	CCDS44532.1	5	0.0022893772893772895	4	0.008130081300813009	1	0.0027624309392265192	0	0.0	0	0.0	C	56	25.341051	0.99964	0.003519	0.0	ENSG00000179532	ENST00000254579;ENST00000527990;ENST00000530197	.	.	.	4.78	3.85	0.44370	.	0.363985	0.24105	N	0.041505	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.13108	T	0.6	-13.986	10.3266	0.43796	0.1952:0.8047:0.0:0.0	.	.	.	.	X	4438;4438;706	.	ENSP00000254579:R4438X	R	+	1	2	DNHD1	6548630	0.705000	0.27846	0.996000	0.52242	0.324000	0.28378	0.828000	0.27435	1.199000	0.43173	0.563000	0.77884	CGA		0.637	DNHD1-007	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384673.2	NM_144666		T	6592054	C	T	6592054	4	4	660	1	0	0	0	0	0	1	0	0	4670	760	27	1	13479	1	DNHD1	11	6592054	Nonsense_Mutation	SNP	C	TCGA-KN-8424-01A-11D-2310-10	6194991	6592054	128414462	56	40980										
USP28	57646	bcgsc.ca	37	chr11	113685956	113685956	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	acaggtcttaacaaaatttaTctcctcatctgtgactgttc	5	10	4	1	rs141617594		TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr11:113685956T>C	ENST00000003302.4	-	14	1680	c.1612A>G	c.(1612-1614)Ata>Gta	p.I538V	USP28_ENST00000537706.1_Missense_Mutation_p.I538V|USP28_ENST00000545540.1_Missense_Mutation_p.I413V|USP28_ENST00000260188.5_Missense_Mutation_p.I538V|USP28_ENST00000544967.1_Missense_Mutation_p.I246V|RP11-667M19.10_ENST00000399123.2_RNA	NM_020886.2	NP_065937.1	Q96RU2	UBP28_HUMAN	ubiquitin specific peptidase 28	538	USP.				cell proliferation (GO:0008283)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to UV (GO:0034644)|DNA damage checkpoint (GO:0000077)|DNA repair (GO:0006281)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|protein deubiquitination (GO:0016579)|response to ionizing radiation (GO:0010212)|ubiquitin-dependent protein catabolic process (GO:0006511)	nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|protein complex (GO:0043234)	ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			breast(4)|cervix(1)|endometrium(2)|kidney(3)|large_intestine(12)|lung(24)|ovary(1)|prostate(5)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	59		all_cancers(61;3.74e-18)|all_epithelial(67;3.75e-11)|Melanoma(852;1.46e-05)|all_hematologic(158;4.65e-05)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|Prostate(24;0.0153)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.93e-06)|Epithelial(105;0.000122)|all cancers(92;0.00104)		ACAAAATTTATCTCCTCATCT	0.403																																					Melanoma(4;162 555 7664)|GBM(79;500 2010 17506)|Esophageal Squamous(9;463 924 15765)											0								T	VAL/ILE	1,4401	2.1+/-5.4	0,1,2200	141	134	136		1612	6	1	11	dbSNP_134	136	0,8592		0,0,4296	no	missense	USP28	NM_020886.2	29	0,1,6496	CC,CT,TT		0.0,0.0227,0.0077	benign	538/1078	113685956	1,12993	2201	4296	6497	SO:0001583	missense	57646			AB040948	CCDS31680.1, CCDS73394.1	11q23	2008-04-11	2005-08-08		ENSG00000048028	ENSG00000048028		"Ubiquitin-specific peptidases"	12625	protein-coding gene	gene with protein product		610748	"ubiquitin specific protease 28"			12838346, 11597335	Standard	XM_005271630		Approved	KIAA1515	uc001poh.3	Q96RU2	OTTHUMG00000168205	ENST00000003302.4:c.1612A>G	11.37:g.113685956T>C	ENSP00000003302:p.Ile538Val	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJC0|B0YJC1|Q9P213	Missense_Mutation	SNP	ENST00000003302.4	37	CCDS31680.1	.	.	.	.	.	.	.	.	.	.	T	14.99	2.700283	0.48307	2.27E-4	0.0	ENSG00000048028	ENST00000003302;ENST00000260188;ENST00000544967;ENST00000545540;ENST00000538475;ENST00000537706	T;T;T;T;T;T	0.42900	1.61;1.61;1.02;1.61;0.96;1.99	5.97	5.97	0.96955	Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2 (2);	0.357783	0.35739	N	0.003003	T	0.29355	0.0731	L	0.28192	0.835	0.27353	N	0.956183	B;B;B;B	0.10296	0.001;0.001;0.001;0.003	B;B;B;B	0.09377	0.003;0.004;0.002;0.003	T	0.15178	-1.0446	10	0.49607	T	0.09	-3.0629	8.5621	0.33516	0.0:0.068:0.1317:0.8002	.	413;538;538;246	B4E3L3;Q6NZX9;Q96RU2;G3V1N5	.;.;UBP28_HUMAN;.	V	538;538;246;413;242;538	ENSP00000003302:I538V;ENSP00000260188:I538V;ENSP00000442431:I246V;ENSP00000444991:I413V;ENSP00000442257:I242V;ENSP00000445743:I538V	ENSP00000003302:I538V	I	-	1	0	USP28	113191166	1.000000	0.71417	0.999000	0.59377	0.915000	0.54546	3.302000	0.51849	2.285000	0.76669	0.477000	0.44152	ATA		0.403	USP28-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398789.1			C	113685956	T	C	113685956	3	2	660	1	0	0	0	0	1	0	0	0	17070	1435	50	3	1669	3	USP28	11	113685956	Missense_Mutation	SNP	T	TCGA-KN-8424-01A-11D-2310-10	107093902	113685956	21320560	57	40981										
SLC4A8	9498	broad.mit.edu	37	chr12	51868953	51868954	+	Frame_Shift_Ins	INS	-	-	A													0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ttcatcctctcaagcaccttINSaaagacgtttaagacgagcc							TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr12:51868953_51868954insA	ENST00000453097.2	+	16	2352_2353	c.2135_2136insA	c.(2134-2139)ttaaagfs	p.LK712fs	SLC4A8_ENST00000514353.3_Frame_Shift_Ins_p.LK659fs|SLC4A8_ENST00000358657.3_Frame_Shift_Ins_p.LK739fs|SLC4A8_ENST00000394856.1_Frame_Shift_Ins_p.LK659fs	NM_001039960.2|NM_001258401.2	NP_001035049.1|NP_001245330.1			solute carrier family 4, sodium bicarbonate cotransporter, member 8											NS(1)|breast(2)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(18)|ovary(3)|pancreas(1)|prostate(1)|skin(6)|stomach(2)|urinary_tract(5)	55				BRCA - Breast invasive adenocarcinoma(357;0.15)		TCAAGCACCTTAAAGACGTTTA	0.441																																																0																																										SO:0001589	frameshift_variant	9498			AB018282	CCDS44890.1, CCDS58232.1, CCDS58233.1, CCDS73470.1	12q13.13	2013-05-22			ENSG00000050438	ENSG00000050438		"Solute carriers"	11034	protein-coding gene	gene with protein product		605024				11133997	Standard	NM_001039960		Approved	NBC3	uc001rys.2	Q2Y0W8	OTTHUMG00000169489	ENST00000453097.2:c.2138dupA	12.37:g.51868956_51868956dupA	ENSP00000405812:p.Leu712fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000453097.2	37	CCDS44890.1																																																																																				0.441	SLC4A8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404356.1	NM_004858		A	51868954	-	A	51868953	7	5	660	1	0	1	1	0	0	0	0	0	14672	1764	61	0	2197	0	SLC4A8	12	51868953	Frame_Shift_Ins	INS	-	TCGA-KN-8424-01A-11D-2310-10		51868953	81982942	58	40982										
ACVRL1	94	ucsc.edu	37	chr12	52306933	52306933	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tggtgacctgcacgtgtgagAgcccacattgcaaggggcct	14	11	0	2			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr12:52306933A>G	ENST00000388922.4	+	3	395	c.112A>G	c.(112-114)Agc>Ggc	p.S38G	ACVRL1_ENST00000550683.1_Missense_Mutation_p.S52G|ACVRL1_ENST00000419526.2_Intron	NM_000020.2	NP_000011.2	P37023	ACVL1_HUMAN	activin A receptor type II-like 1	38			S -> C. {ECO:0000269|PubMed:20414677}.		activin receptor signaling pathway (GO:0032924)|angiogenesis (GO:0001525)|artery development (GO:0060840)|blood circulation (GO:0008015)|blood vessel endothelial cell proliferation involved in sprouting angiogenesis (GO:0002043)|blood vessel maturation (GO:0001955)|blood vessel remodeling (GO:0001974)|BMP signaling pathway (GO:0030509)|cellular response to BMP stimulus (GO:0071773)|cellular response to transforming growth factor beta stimulus (GO:0071560)|endothelial tube morphogenesis (GO:0061154)|in utero embryonic development (GO:0001701)|lymphangiogenesis (GO:0001946)|lymphatic endothelial cell differentiation (GO:0060836)|negative regulation of blood vessel endothelial cell migration (GO:0043537)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell growth (GO:0030308)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA biosynthetic process (GO:2000279)|negative regulation of endothelial cell differentiation (GO:0045602)|negative regulation of endothelial cell migration (GO:0010596)|negative regulation of endothelial cell proliferation (GO:0001937)|negative regulation of focal adhesion assembly (GO:0051895)|positive regulation of angiogenesis (GO:0045766)|positive regulation of BMP signaling pathway (GO:0030513)|positive regulation of chondrocyte differentiation (GO:0032332)|positive regulation of endothelial cell differentiation (GO:0045603)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of pathway-restricted SMAD protein phosphorylation (GO:0010862)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein heterooligomerization (GO:0051291)|protein phosphorylation (GO:0006468)|regulation of blood pressure (GO:0008217)|regulation of blood vessel endothelial cell migration (GO:0043535)|regulation of DNA replication (GO:0006275)|regulation of endothelial cell proliferation (GO:0001936)|regulation of transcription, DNA-templated (GO:0006355)|retina vasculature development in camera-type eye (GO:0061298)|signal transduction (GO:0007165)|transforming growth factor beta receptor signaling pathway (GO:0007179)|venous blood vessel development (GO:0060841)|wound healing, spreading of epidermal cells (GO:0035313)	cell surface (GO:0009986)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|neuronal cell body (GO:0043025)	activin binding (GO:0048185)|activin receptor activity, type I (GO:0016361)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)|receptor signaling protein serine/threonine kinase activity (GO:0004702)|SMAD binding (GO:0046332)|transforming growth factor beta binding (GO:0050431)|transforming growth factor beta receptor activity, type I (GO:0005025)|transforming growth factor beta-activated receptor activity (GO:0005024)|transmembrane receptor protein serine/threonine kinase activity (GO:0004675)			breast(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(9)|prostate(1)|skin(1)|urinary_tract(1)	20				BRCA - Breast invasive adenocarcinoma(357;0.0991)	Adenosine triphosphate(DB00171)	CACGTGTGAGAGCCCACATTG	0.682																																																0													16	19	18					12																	52306933		2202	4299	6501	SO:0001583	missense	94			L17075	CCDS31804.1	12q13.13	2014-09-17			ENSG00000139567	ENSG00000139567			175	protein-coding gene	gene with protein product		601284		ACVRLK1, ORW2		8397373, 8640225	Standard	NM_000020		Approved	HHT2, ALK1, HHT	uc001rzk.3	P37023	OTTHUMG00000169507	ENST00000388922.4:c.112A>G	12.37:g.52306933A>G	ENSP00000373574:p.Ser38Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGA8	Missense_Mutation	SNP	ENST00000388922.4	37	CCDS31804.1	.	.	.	.	.	.	.	.	.	.	A	1.615	-0.523057	0.04141	.	.	ENSG00000139567	ENST00000388922;ENST00000267008;ENST00000547400;ENST00000550683	D;D;D	0.97620	-4.46;-4.46;-4.46	5.76	0.823	0.18812	.	1.165910	0.06270	N	0.695557	D	0.87779	0.6263	N	0.01109	-1.01	0.09310	N	0.999994	B	0.02656	0.0	B	0.01281	0.0	T	0.80355	-0.1417	10	0.21014	T	0.42	.	7.4721	0.27355	0.6494:0.0:0.3506:0.0	.	38	P37023	ACVL1_HUMAN	G	38;38;52;52	ENSP00000373574:S38G;ENSP00000446724:S52G;ENSP00000447884:S52G	ENSP00000267008:S38G	S	+	1	0	ACVRL1	50593200	0.000000	0.05858	0.001000	0.08648	0.044000	0.14063	0.042000	0.13949	0.112000	0.17975	0.533000	0.62120	AGC		0.682	ACVRL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404520.2			G	52306933	A	G	52306933	3	3	660	1	0	0	0	0	1	0	0	0	225	304	11	3	118	3	ACVRL1	12	52306933	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10	437980	52306933	81544962	59	40983										
MON2	23041	hgsc.bcm.edu;mdanderson.org	37	chr12	62954344	62954344	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ctcagcaaaaacaatgaagtAtctctggctgctctgaaaag	8	9	3	2			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr12:62954344A>T	ENST00000393632.2	+	26	3874	c.3483A>T	c.(3481-3483)gtA>gtT	p.V1161V	MON2_ENST00000393630.3_Silent_p.V1162V|MON2_ENST00000552738.1_Silent_p.V1138V|MON2_ENST00000546600.1_Silent_p.V1161V|MON2_ENST00000393629.2_Silent_p.V1161V|MON2_ENST00000280379.6_Silent_p.V1162V	NM_015026.2	NP_055841.2	Q7Z3U7	MON2_HUMAN	MON2 homolog (S. cerevisiae)	1161					actin cytoskeleton organization (GO:0030036)|Golgi to endosome transport (GO:0006895)|positive regulation of GTPase activity (GO:0043547)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	extracellular vesicular exosome (GO:0070062)|trans-Golgi network (GO:0005802)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(5)|kidney(3)|large_intestine(15)|lung(21)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	57			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		ACAATGAAGTATCTCTGGCTG	0.403																																																0													75	78	77					12																	62954344		2203	4300	6503	SO:0001819	synonymous_variant	23041				CCDS31849.1, CCDS61175.1, CCDS61177.1, CCDS61178.1	12q14.1	2014-08-12	2006-04-04		ENSG00000061987	ENSG00000061987			29177	protein-coding gene	gene with protein product			"MON2 homolog (yeast)"			16301316, 24285343	Standard	NM_015026		Approved	KIAA1040	uc001sre.3	Q7Z3U7	OTTHUMG00000169992	ENST00000393632.2:c.3483A>T	12.37:g.62954344A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A5D8U7|A7E2Y0|B9EGP5|F8VWA6|F8W1Z6|Q86TA2|Q8N3I5|Q8NAI0|Q8NHE2|Q9UPW1	Silent	SNP	ENST00000393632.2	37	CCDS31849.1																																																																																				0.403	MON2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406767.3	NM_015026		T	62954344	A	T	62954344	2	4	660	1	0	0	0	0	0	0	0	1	9707	436	16	5		5	MON2	12	62954344	Silent	SNP	A	TCGA-KN-8424-01A-11D-2310-10	10647411	62954344	70897551	60	40984										
KRR1	11103	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr12	75895756	75895756	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	atttgccttcaaaaagtattCaccactagccaattctttat	3	10	3	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr12:75895756C>T	ENST00000229214.4	-	8	879	c.856G>A	c.(856-858)Gaa>Aaa	p.E286K	GLIPR1_ENST00000266659.3_3'UTR|KRR1_ENST00000438169.2_Missense_Mutation_p.E229K	NM_007043.6	NP_008974.5	Q13601	KRR1_HUMAN	KRR1, small subunit (SSU) processome component, homolog (yeast)	286	Lys-rich.				rRNA processing (GO:0006364)	cytoplasm (GO:0005737)|intercellular bridge (GO:0045171)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(3)|liver(1)|lung(1)|ovary(1)|pancreas(1)|urinary_tract(1)	11						AAAAAGTATTCACCACTAGCC	0.368																																																0													172	162	165					12																	75895756		2203	4300	6503	SO:0001583	missense	11103			U55766	CCDS9012.1	12q	2011-03-15	2006-05-18	2006-05-18	ENSG00000111615	ENSG00000111615			5176	protein-coding gene	gene with protein product		612817	"HIV-1 rev binding protein 2", "HIV-1 Rev binding protein 2"	HRB2		7505766, 11027267, 11359931, 8675026	Standard	NM_007043		Approved	RIP-1	uc001sxt.3	Q13601	OTTHUMG00000169759	ENST00000229214.4:c.856G>A	12.37:g.75895756C>T	ENSP00000229214:p.Glu286Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A0FIK6|A0JLP0|B2R989|E7EUQ0|Q8NEA8|Q8TC37|Q96AT5	Missense_Mutation	SNP	ENST00000229214.4	37	CCDS9012.1	.	.	.	.	.	.	.	.	.	.	C	35	5.566254	0.96540	.	.	ENSG00000111615	ENST00000229214;ENST00000438169	T;T	0.59364	0.27;1.58	5.59	5.59	0.84812	.	0.000000	0.85682	D	0.000000	T	0.81128	0.4758	M	0.88640	2.97	0.58432	D	0.999999	D;D	0.89917	0.998;1.0	D;D	0.77557	0.99;0.987	D	0.84343	0.0528	10	0.87932	D	0	-0.1297	19.5833	0.95478	0.0:1.0:0.0:0.0	.	229;286	E7EUQ0;Q13601	.;KRR1_HUMAN	K	286;229	ENSP00000229214:E286K;ENSP00000411740:E229K	ENSP00000229214:E286K	E	-	1	0	KRR1	74182023	1.000000	0.71417	1.000000	0.80357	0.967000	0.64934	6.517000	0.73759	2.612000	0.88384	0.655000	0.94253	GAA		0.368	KRR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405727.1	NM_007043		T	75895756	C	T	75895756	3	4	660	1	0	0	0	0	1	0	0	0	8453	835	29	2	301	2	KRR1	12	75895756	Missense_Mutation	SNP	C	TCGA-KN-8424-01A-11D-2310-10	12941412	75895756	57956139	61	40985										
CCDC62	84660	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	123282632	123282632	+	Splice_Site	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tttgtcaatatctatgacagAtttatgtaaaacaacagagt	6	5	2	3			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr12:123282632A>T	ENST00000253079.6	+	8	1206	c.862A>T	c.(862-864)Att>Ttt	p.I288F	CCDC62_ENST00000537566.1_Splice_Site_p.I49F|CCDC62_ENST00000392440.2_Splice_Site_p.I49F|CCDC62_ENST00000392441.4_Splice_Site_p.I288F	NM_201435.4	NP_958843.2	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62	288					cellular response to estradiol stimulus (GO:0071392)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	estrogen receptor binding (GO:0030331)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)			breast(1)|kidney(1)|large_intestine(4)|lung(9)|ovary(2)|pancreas(1)|skin(1)|urinary_tract(1)	20	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)		TCTATGACAGATTTATGTAAA	0.313																																																0													51	49	50					12																	123282632		2203	4299	6502	SO:0001630	splice_region_variant	84660				CCDS9238.1	12q24.31	2009-08-18			ENSG00000130783	ENSG00000130783			30723	protein-coding gene	gene with protein product	"cancer/testis antigen 109"	613481				18563714, 19126643	Standard	NM_201435		Approved	TSP-NY, FLJ40344, CT109, ERAP75	uc001udc.3	Q6P9F0	OTTHUMG00000168764	ENST00000253079.6:c.862-1A>T	12.37:g.123282632A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K8V1|B3KUP3|Q6ZVF2|Q86VJ0|Q9BYZ5	Missense_Mutation	SNP	ENST00000253079.6	37	CCDS9238.1	.	.	.	.	.	.	.	.	.	.	A	18.50	3.636671	0.67130	.	.	ENSG00000130783	ENST00000253079;ENST00000392441;ENST00000537566;ENST00000392440	T;T;T;T	0.56103	1.11;1.11;0.48;0.48	5.46	4.11	0.48088	.	0.098893	0.42682	D	0.000680	T	0.64670	0.2619	M	0.65498	2.005	0.80722	D	1	P;P;D	0.71674	0.741;0.928;0.998	P;P;D	0.69654	0.448;0.603;0.965	T	0.64918	-0.6294	9	.	.	.	-18.2933	7.848	0.29437	0.8933:0.0:0.1067:0.0	.	288;49;288	Q6P9F0-2;Q6P9F0-3;Q6P9F0	.;.;CCD62_HUMAN	F	288;288;49;49	ENSP00000253079:I288F;ENSP00000376236:I288F;ENSP00000445045:I49F;ENSP00000376235:I49F	.	I	+	1	0	CCDC62	121848585	1.000000	0.71417	1.000000	0.80357	0.773000	0.43773	2.487000	0.45268	2.073000	0.62155	0.467000	0.42956	ATT		0.313	CCDC62-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400930.1	NM_032573	Missense_Mutation	T	123282632	A	T	123282632	5	4	660	1	0	0	0	0	0	0	1	0	2835	347	12	5	892	5	CCDC62	12	123282632	Splice_Site	SNP	A	TCGA-KN-8424-01A-11D-2310-10	47386876	123282632	10569263	62	40986										
SCFD1	23256	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr14	31107412	31107412	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gtaaactggaagatattgcaAatgcagcgttagcagctagt	11	6	0	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr14:31107412A>G	ENST00000458591.2	+	5	621	c.394A>G	c.(394-396)Aat>Gat	p.N132D	SCFD1_ENST00000541123.1_5'UTR|SCFD1_ENST00000396629.2_Missense_Mutation_p.N40D|SCFD1_ENST00000421551.3_Missense_Mutation_p.N73D|SCFD1_ENST00000544052.2_Missense_Mutation_p.N65D	NM_016106.3	NP_057190.2	Q8WVM8	SCFD1_HUMAN	sec1 family domain containing 1	132					post-Golgi vesicle-mediated transport (GO:0006892)|protein transport (GO:0015031)|regulation of ER to Golgi vesicle-mediated transport (GO:0060628)|response to hypoxia (GO:0001666)|response to toxic substance (GO:0009636)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)|vesicle docking involved in exocytosis (GO:0006904)	cis-Golgi network (GO:0005801)|endoplasmic reticulum (GO:0005783)|Golgi transport complex (GO:0017119)|Golgi-associated vesicle (GO:0005798)|plasma membrane (GO:0005886)	syntaxin binding (GO:0019905)			endometrium(2)|kidney(1)|large_intestine(4)|lung(5)|prostate(1)	13	Hepatocellular(127;0.0877)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)	GBM - Glioblastoma multiforme(265;0.0181)		AGATATTGCAAATGCAGCGTT	0.323																																																0													67	61	63					14																	31107412		2203	4300	6503	SO:0001583	missense	23256			AF110646	CCDS9639.1, CCDS45092.1, CCDS58308.1	14q12	2006-04-04	2004-01-15	2004-01-16	ENSG00000092108	ENSG00000092108			20726	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 163"	C14orf163			Standard	NM_016106		Approved	RA410, KIAA0917, STXBP1L2, SLY1	uc001wqm.2	Q8WVM8	OTTHUMG00000029420	ENST00000458591.2:c.394A>G	14.37:g.31107412A>G	ENSP00000390783:p.Asn132Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2Z5|B7Z4U7|B7Z594|O60754|O94990|Q7Z529|Q9BZI3|Q9UNL3|Q9Y6A8	Missense_Mutation	SNP	ENST00000458591.2	37	CCDS9639.1	.	.	.	.	.	.	.	.	.	.	A	20.3	3.964404	0.74131	.	.	ENSG00000092108	ENST00000458591;ENST00000544052;ENST00000421551;ENST00000557076;ENST00000396629	T;T;T;T;T	0.76186	-1.0;-1.0;-1.0;-1.0;-1.0	5.75	5.75	0.90469	.	0.048137	0.85682	D	0.000000	T	0.68988	0.3061	L	0.36672	1.1	0.80722	D	1	B;B;B	0.23806	0.091;0.019;0.001	B;B;B	0.29440	0.102;0.05;0.027	T	0.67825	-0.5570	10	0.72032	D	0.01	-19.7473	15.2403	0.73465	1.0:0.0:0.0:0.0	.	73;65;132	B7Z738;B7Z4U7;Q8WVM8	.;.;SCFD1_HUMAN	D	132;65;73;107;40	ENSP00000390783:N132D;ENSP00000443010:N65D;ENSP00000388078:N73D;ENSP00000450755:N107D;ENSP00000379870:N40D	ENSP00000309417:N140D	N	+	1	0	SCFD1	30177163	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.796000	0.69080	2.185000	0.69588	0.533000	0.62120	AAT		0.323	SCFD1-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276612.3	NM_182835		G	31107412	A	G	31107412	3	3	660	1	0	0	0	0	1	0	0	0	13902	14	1	3	412	3	SCFD1	14	31107412	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10		31107412	76242128	63	40987										
JAG2	3714	mdanderson.org	37	chr14	105609335	105609335	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ttgtggccccccggccgctcAatggggttgcggatggggtt	17	11	1	0	rs10149229	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr14:105609335A>G	ENST00000331782.3	-	26	3817	c.3414T>C	c.(3412-3414)atT>atC	p.I1138I	JAG2_ENST00000347004.2_Silent_p.I1100I	NM_002226.4	NP_002217.3	Q9Y219	JAG2_HUMAN	jagged 2	1138					auditory receptor cell fate commitment (GO:0009912)|cell cycle (GO:0007049)|cell differentiation (GO:0030154)|epithelial cell apoptotic process involved in palatal shelf morphogenesis (GO:1990134)|gamma-delta T cell differentiation (GO:0042492)|in utero embryonic development (GO:0001701)|morphogenesis of embryonic epithelium (GO:0016331)|Notch receptor processing (GO:0007220)|Notch signaling pathway (GO:0007219)|odontogenesis of dentin-containing tooth (GO:0042475)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of cell proliferation (GO:0042127)|respiratory system process (GO:0003016)|skeletal system development (GO:0001501)|spermatogenesis (GO:0007283)|T cell differentiation (GO:0030217)|thymic T cell selection (GO:0045061)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|growth factor activity (GO:0008083)|Notch binding (GO:0005112)			breast(2)|endometrium(2)|kidney(3)|large_intestine(1)|lung(7)|prostate(2)|skin(5)	22		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		CCGGCCGCTCAATGGGGTTGC	0.726													G|||	3455	0.689896	0.8941	0.6571	5008	,	,		10693	0.5337		0.66	False		,,,				2504	0.6288															0								G	,	3661,665		1557,547,59	17	20	19		3414,3300	-1.2	1	14	dbSNP_119	19	5713,2733		1963,1787,473	no	coding-synonymous,coding-synonymous	JAG2	NM_002226.3,NM_145159.1	,	3520,2334,532	GG,GA,AA		32.3585,15.3722,26.6051	,	1138/1239,1100/1201	105609335	9374,3398	2163	4223	6386	SO:0001819	synonymous_variant	3714			AF020201	CCDS9998.1, CCDS9999.1	14q32	2008-08-01			ENSG00000184916	ENSG00000184916			6189	protein-coding gene	gene with protein product		602570				9315665, 10662552	Standard	NM_002226		Approved		uc001yqg.4	Q9Y219	OTTHUMG00000140172	ENST00000331782.3:c.3414T>C	14.37:g.105609335A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UE17|Q9UE99|Q9UNK8|Q9Y6P9|Q9Y6Q0	Silent	SNP	ENST00000331782.3	37	CCDS9998.1																																																																																				0.726	JAG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276506.2			G	105609335	A	G	105609335	2	3	660	1	0	0	0	0	0	0	0	1	7942	126	5	3		3	JAG2	14	105609335	Silent	SNP	A	TCGA-KN-8424-01A-11D-2310-10	74501923	105609335	1740205	64	40988										
CACNA1H	8912	broad.mit.edu	37	chr16	1265531	1265531	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tcccggccctagtgctgaagCtgctgaagatggctacgggc	14	12	0	3			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr16:1265531C>T	ENST00000348261.5	+	30	5430	c.5182C>T	c.(5182-5184)Ctg>Ttg	p.L1728L	CACNA1H_ENST00000565831.1_Silent_p.L1722L|CACNA1H_ENST00000358590.4_Silent_p.L1722L	NM_021098.2	NP_066921.2	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type, alpha 1H subunit	1728					aldosterone biosynthetic process (GO:0032342)|axon guidance (GO:0007411)|calcium ion import (GO:0070509)|cellular response to hormone stimulus (GO:0032870)|cellular response to potassium ion (GO:0035865)|cortisol biosynthetic process (GO:0034651)|membrane depolarization during action potential (GO:0086010)|muscle contraction (GO:0006936)|muscle organ development (GO:0007517)|myoblast fusion (GO:0007520)|positive regulation of acrosome reaction (GO:2000344)|regulation of heart contraction (GO:0008016)|regulation of membrane potential (GO:0042391)|transport (GO:0006810)	caveola (GO:0005901)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|voltage-gated calcium channel complex (GO:0005891)	low voltage-gated calcium channel activity (GO:0008332)|metal ion binding (GO:0046872)|scaffold protein binding (GO:0097110)			breast(4)|endometrium(5)|kidney(2)|lung(23)	34		Hepatocellular(780;0.00369)			Amiodarone(DB01118)|Bepridil(DB01244)|Cinnarizine(DB00568)|Felodipine(DB01023)|Flunarizine(DB04841)|Isradipine(DB00270)|Nifedipine(DB01115)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Zonisamide(DB00909)	AGTGCTGAAGCTGCTGAAGAT	0.721																																																0													28	32	31					16																	1265531		2042	4180	6222	SO:0001819	synonymous_variant	8912			AL031703	CCDS45375.1, CCDS45376.1	16p13.3	2012-03-07	2007-02-16					"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1395	protein-coding gene	gene with protein product		607904				9670923, 16382099	Standard	NM_021098		Approved	Cav3.2	uc002cks.3	O95180		ENST00000348261.5:c.5182C>T	16.37:g.1265531C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B5ME00|F8WFD1|O95802|Q8WWI6|Q96QI6|Q96RZ9|Q9NYY4|Q9NYY5	Silent	SNP	ENST00000348261.5	37	CCDS45375.1																																																																																				0.721	CACNA1H-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000421601.1	NM_001005407		T	1265531	C	T	1265531	2	4	660	1	0	0	0	0	0	0	0	1	2547	796	28	2		2	CACNA1H	16	1265531	Silent	SNP	C	TCGA-KN-8424-01A-11D-2310-10		1265531	89089222	65	40989										
CACNA1H	8912	mdanderson.org	37	chr16	1268485	1268485	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ttgccccaggagagtccgggCgccagggacgccccaaacct	13	16	0	1	rs2738891	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr16:1268485C>T	ENST00000348261.5	+	33	5969	c.5721C>T	c.(5719-5721)ggC>ggT	p.G1907G	CACNA1H_ENST00000565831.1_Silent_p.G1901G|CACNA1H_ENST00000358590.4_Silent_p.G1901G	NM_021098.2	NP_066921.2	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type, alpha 1H subunit	1907					aldosterone biosynthetic process (GO:0032342)|axon guidance (GO:0007411)|calcium ion import (GO:0070509)|cellular response to hormone stimulus (GO:0032870)|cellular response to potassium ion (GO:0035865)|cortisol biosynthetic process (GO:0034651)|membrane depolarization during action potential (GO:0086010)|muscle contraction (GO:0006936)|muscle organ development (GO:0007517)|myoblast fusion (GO:0007520)|positive regulation of acrosome reaction (GO:2000344)|regulation of heart contraction (GO:0008016)|regulation of membrane potential (GO:0042391)|transport (GO:0006810)	caveola (GO:0005901)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|voltage-gated calcium channel complex (GO:0005891)	low voltage-gated calcium channel activity (GO:0008332)|metal ion binding (GO:0046872)|scaffold protein binding (GO:0097110)			breast(4)|endometrium(5)|kidney(2)|lung(23)	34		Hepatocellular(780;0.00369)			Amiodarone(DB01118)|Bepridil(DB01244)|Cinnarizine(DB00568)|Felodipine(DB01023)|Flunarizine(DB04841)|Isradipine(DB00270)|Nifedipine(DB01115)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Zonisamide(DB00909)	AGAGTCCGGGCGCCAGGGACG	0.692													C|||	449	0.0896565	0.0113	0.0605	5008	,	,		14302	0.0317		0.1133	False		,,,				2504	0.2515															0								C	,	94,3926		0,94,1916	22	29	27		5703,5721	-3	0	16	dbSNP_100	27	969,7165		49,871,3147	no	coding-synonymous,coding-synonymous	CACNA1H	NM_001005407.1,NM_021098.2	,	49,965,5063	TT,TC,CC		11.913,2.3383,8.7461	,	1901/2348,1907/2354	1268485	1063,11091	2010	4067	6077	SO:0001819	synonymous_variant	8912			AL031703	CCDS45375.1, CCDS45376.1	16p13.3	2012-03-07	2007-02-16					"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1395	protein-coding gene	gene with protein product		607904				9670923, 16382099	Standard	NM_021098		Approved	Cav3.2	uc002cks.3	O95180		ENST00000348261.5:c.5721C>T	16.37:g.1268485C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B5ME00|F8WFD1|O95802|Q8WWI6|Q96QI6|Q96RZ9|Q9NYY4|Q9NYY5	Silent	SNP	ENST00000348261.5	37	CCDS45375.1																																																																																				0.692	CACNA1H-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000421601.1	NM_001005407		T	1268485	C	T	1268485	2	4	660	1	0	0	0	0	0	0	0	1	2547	755	27	1		1	CACNA1H	16	1268485	Silent	SNP	C	TCGA-KN-8424-01A-11D-2310-10	2954	1268485	89086268	66	40990										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	7574017	7574017	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gctctcggaacatctcgaagCgctcacgcccacggatctgc	10	16	4	0	rs121912664		TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr17:7574017C>T	ENST00000269305.4	-	10	1199	c.1010G>A	c.(1009-1011)cGc>cAc	p.R337H	TP53_ENST00000413465.2_Intron|TP53_ENST00000359597.4_Intron|TP53_ENST00000420246.2_3'UTR|TP53_ENST00000445888.2_Missense_Mutation_p.R337H|TP53_ENST00000455263.2_3'UTR	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	337	Interaction with CARM1.|Interaction with HIPK1. {ECO:0000250}.|Interaction with HIPK2.|Oligomerization.		R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation). {ECO:0000269|PubMed:9452042}.|R -> H (in LFS; germline mutation and in sporadic cancers; somatic mutation). {ECO:0000269|PubMed:11481490}.|R -> L (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.R337L(15)|p.0?(8)|p.R337H(4)|p.I332fs*5(1)|p.?(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	CATCTCGAAGCGCTCACGCCC	0.527		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	29	Substitution - Missense(19)|Whole gene deletion(8)|Unknown(1)|Deletion - Frameshift(1)	lung(8)|liver(8)|bone(4)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(2)|central_nervous_system(2)|stomach(1)|breast(1)	GRCh37	CM012663	TP53	M	rs121912664						57	45	49					17																	7574017		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.1010G>A	17.37:g.7574017C>T	ENSP00000269305:p.Arg337His	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	C	14.54	2.565214	0.45694	.	.	ENSG00000141510	ENST00000269305;ENST00000445888;ENST00000396473	D;D	0.95171	-3.63;-3.63	5.43	3.45	0.39498	p53, tetramerisation domain (3);	0.000000	0.85682	D	0.000000	D	0.95063	0.8401	M	0.73598	2.24	0.40311	D	0.97871	D	0.53462	0.96	P	0.53146	0.719	D	0.94086	0.7348	10	0.62326	D	0.03	-7.3279	9.8868	0.41266	0.0:0.8331:0.0:0.1669	.	337	P04637	P53_HUMAN	H	337;337;326	ENSP00000269305:R337H;ENSP00000391478:R337H	ENSP00000269305:R337H	R	-	2	0	TP53	7514742	0.593000	0.26840	0.008000	0.14137	0.280000	0.26924	0.875000	0.28079	0.671000	0.31185	0.561000	0.74099	CGC		0.527	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		T	7574017	C	T	7574017	3	4	660	1	0	0	0	0	1	0	0	0	16393	768	27	1	179	1	TP53	17	7574017	Missense_Mutation	SNP	C	TCGA-KN-8424-01A-11D-2310-10		7574017	73621193	67	40991										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	7578403	7578403	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	agcagcgctcatggtgggggCagcgcctcacaacctccgtc	13	15	2	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr17:7578403C>A	ENST00000269305.4	-	5	716	c.527G>T	c.(526-528)tGc>tTc	p.C176F	TP53_ENST00000413465.2_Missense_Mutation_p.C176F|TP53_ENST00000359597.4_Missense_Mutation_p.C176F|TP53_ENST00000420246.2_Missense_Mutation_p.C176F|TP53_ENST00000445888.2_Missense_Mutation_p.C176F|TP53_ENST00000574684.1_5'UTR|TP53_ENST00000455263.2_Missense_Mutation_p.C176F	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	176	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with FBXO42.|Required for interaction with ZNF385A.		C -> F (in sporadic cancers; somatic mutation). {ECO:0000269|PubMed:1394225, ECO:0000269|PubMed:1868473, ECO:0000269|PubMed:8829627, ECO:0000269|PubMed:9450901}.|C -> G (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in sporadic cancers; somatic mutation).|CP -> FS (in a sporadic cancer; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.C176F(129)|p.C176Y(63)|p.C83F(9)|p.C44F(9)|p.C176S(8)|p.0?(8)|p.C176_R181delCPHHER(3)|p.R174fs*24(3)|p.C44Y(3)|p.C83Y(3)|p.R175_E180delRCPHHE(3)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.C176fs*65(1)|p.C176_P177delCP(1)|p.V173fs*69(1)|p.C176fs*68(1)|p.E171fs*61(1)|p.V173fs*23(1)|p.R174_H178>S(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.R175_H178>X(1)|p.R42fs*24(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R174fs*70(1)|p.C176del(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.H178fs*3(1)|p.R174fs*3(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	ATGGTGGGGGCAGCGCCTCAC	0.652		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	267	Substitution - Missense(224)|Deletion - Frameshift(18)|Deletion - In frame(13)|Whole gene deletion(8)|Complex - deletion inframe(3)|Insertion - Frameshift(1)	lung(42)|large_intestine(38)|upper_aerodigestive_tract(36)|oesophagus(26)|breast(26)|liver(20)|ovary(19)|haematopoietic_and_lymphoid_tissue(13)|stomach(10)|central_nervous_system(9)|bone(9)|urinary_tract(7)|genital_tract(2)|skin(2)|pancreas(2)|prostate(2)|adrenal_gland(1)|vulva(1)|biliary_tract(1)|endometrium(1)											49	49	49					17																	7578403		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.527G>T	17.37:g.7578403C>A	ENSP00000269305:p.Cys176Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	C	23.6	4.433429	0.83776	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944;ENST00000414315	D;D;D;D;D;D;D;D	0.99982	-10.61;-10.61;-10.61;-10.61;-10.61;-10.61;-10.61;-10.61	5.59	4.61	0.57282	p53, DNA-binding domain (1);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.092184	0.85682	D	0.000000	D	0.99981	0.9994	M	0.92923	3.36	0.80722	D	1	D;D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D;D	0.91635	0.999;0.994;0.996;0.998;0.997;0.995;0.997	D	0.96187	0.9135	10	0.87932	D	0	-18.1821	13.8336	0.63395	0.1543:0.8457:0.0:0.0	.	137;176;176;83;176;176;176	B4E095;P04637-2;P04637-3;E9PFT5;P04637;Q1MSW8;E7EQX7	.;.;.;.;P53_HUMAN;.;.	F	176;176;176;176;176;176;165;83;44;83;44	ENSP00000410739:C176F;ENSP00000352610:C176F;ENSP00000269305:C176F;ENSP00000398846:C176F;ENSP00000391127:C176F;ENSP00000391478:C176F;ENSP00000425104:C44F;ENSP00000423862:C83F	ENSP00000269305:C176F	C	-	2	0	TP53	7519128	1.000000	0.71417	0.999000	0.59377	0.851000	0.48451	7.775000	0.85489	1.472000	0.48140	0.655000	0.94253	TGC		0.652	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		A	7578403	C	A	7578403	3	1	660	1	0	0	0	0	1	0	0	0	16393	710	25	4	771	4	TP53	17	7578403	Missense_Mutation	SNP	C	TCGA-KN-8424-01A-11D-2310-10	4386	7578403	73616807	68	40992										
LLGL2	3993	broad.mit.edu;hgsc.bcm.edu	37	chr17	73566231	73566231	+	Frame_Shift_Del	DEL	T	T	-													0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gcagtgtcagcccccggctgTggtcacctccttggccctgc							TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr17:73566231delT	ENST00000392550.3	+	15	1886	c.1769delT	c.(1768-1770)gtgfs	p.V591fs	LLGL2_ENST00000577200.1_Frame_Shift_Del_p.V591fs|LLGL2_ENST00000167462.5_Frame_Shift_Del_p.V591fs	NM_001031803.1	NP_001026973.1	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 (Drosophila)	591					cell cycle (GO:0007049)|cell division (GO:0051301)|exocytosis (GO:0006887)|regulation of establishment or maintenance of cell polarity (GO:0032878)	cytoplasm (GO:0005737)	PDZ domain binding (GO:0030165)			NS(1)|breast(3)|cervix(2)|endometrium(2)|kidney(1)|large_intestine(2)|lung(9)|ovary(2)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	31	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			CCCCCGGCTGTGGTCACCTCC	0.672																																																0													32	26	28					17																	73566231		2188	4295	6483	SO:0001589	frameshift_variant	3993			X87342	CCDS11725.1, CCDS32733.1, CCDS45776.1	17q25.1	2013-01-10	2001-11-28			ENSG00000073350		"WD repeat domain containing"	6629	protein-coding gene	gene with protein product			"lethal giant larvae (Drosophila) homolog 2"				Standard	XR_243659		Approved	HGL	uc002joh.3	Q6P1M3		ENST00000392550.3:c.1769delT	17.37:g.73566231delT	ENSP00000376333:p.Val591fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q14521|Q9BR62	Frame_Shift_Del	DEL	ENST00000392550.3	37	CCDS32733.1																																																																																				0.672	LLGL2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000447633.1	NM_004524		-	73566231	T	-	73566231	7	5	660	1	0	1	0	1	0	0	0	0	8841	1696	59	0	1858	0	LLGL2	17	73566231	Frame_Shift_Del	DEL	T	TCGA-KN-8424-01A-11D-2310-10	65987828	73566231	7628979	69	40993	381	2								
LLGL2	3993	bcgsc.ca	37	chr17	73566232	73566232	+	Frame_Shift_Del	DEL	T	T	-													0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	cagtgtcagcccccggctgtGgtcacctccttggccctgca							TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr17:73566232delT	ENST00000392550.3	+	15	1887	c.1770delT	c.(1768-1770)gttfs	p.V591fs	LLGL2_ENST00000577200.1_Frame_Shift_Del_p.V591fs|LLGL2_ENST00000167462.5_Frame_Shift_Del_p.V591fs	NM_001031803.1	NP_001026973.1	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 (Drosophila)	591					cell cycle (GO:0007049)|cell division (GO:0051301)|exocytosis (GO:0006887)|regulation of establishment or maintenance of cell polarity (GO:0032878)	cytoplasm (GO:0005737)	PDZ domain binding (GO:0030165)			NS(1)|breast(3)|cervix(2)|endometrium(2)|kidney(1)|large_intestine(2)|lung(9)|ovary(2)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	31	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			CCCCGGCTGTGGTCACCTCCT	0.672																																																0													32	26	28					17																	73566232		2189	4295	6484	SO:0001589	frameshift_variant	3993			X87342	CCDS11725.1, CCDS32733.1, CCDS45776.1	17q25.1	2013-01-10	2001-11-28			ENSG00000073350		"WD repeat domain containing"	6629	protein-coding gene	gene with protein product			"lethal giant larvae (Drosophila) homolog 2"				Standard	XR_243659		Approved	HGL	uc002joh.3	Q6P1M3		ENST00000392550.3:c.1770delT	17.37:g.73566232delT	ENSP00000376333:p.Val591fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q14521|Q9BR62	Frame_Shift_Del	DEL	ENST00000392550.3	37	CCDS32733.1																																																																																				0.672	LLGL2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000447633.1	NM_004524		-	73566232	T	-	73566232	7	5	660	1	0	1	0	1	0	0	0	0	8841	1335	47	0	1859	0	LLGL2	17	73566232	Frame_Shift_Del	DEL	T	TCGA-KN-8424-01A-11D-2310-10	1	73566232	7628978	70	40994	381	2								
UNC13D	201294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	73826730	73826730	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ggccgcctgcagctccaggtCcctctgcagagcctgggaac	13	16	1	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr17:73826730C>T	ENST00000207549.4	-	28	3017	c.2638G>A	c.(2638-2640)Gac>Aac	p.D880N	UNC13D_ENST00000412096.2_Missense_Mutation_p.D880N	NM_199242.2	NP_954712.1	Q70J99	UN13D_HUMAN	unc-13 homolog D (C. elegans)	880	MHD2. {ECO:0000255|PROSITE- ProRule:PRU00588}.				defense response to virus (GO:0051607)|germinal center formation (GO:0002467)|granuloma formation (GO:0002432)|natural killer cell degranulation (GO:0043320)|phagocytosis (GO:0006909)|positive regulation of exocytosis (GO:0045921)|regulation of mast cell degranulation (GO:0043304)	endosome (GO:0005768)|exocytic vesicle (GO:0070382)|lysosome (GO:0005764)|membrane (GO:0016020)				central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(9)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29			all cancers(21;2.11e-06)|Epithelial(20;2.32e-06)|BRCA - Breast invasive adenocarcinoma(9;0.000618)|LUSC - Lung squamous cell carcinoma(166;0.154)			AGCTCCAGGTCCCTCTGCAGA	0.647									Familial Hemophagocytic Lymphohistiocytosis		OREG0024741	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													22	21	22					17																	73826730		2174	4254	6428	SO:0001583	missense	201294	Familial Cancer Database	FHLH, FHL, Familial Hemophagocytic Reticulosis, FHR	AK024474	CCDS11730.1	17q25.3	2014-09-17				ENSG00000092929			23147	protein-coding gene	gene with protein product		608897					Standard	NM_199242		Approved	Munc13-4	uc002jpp.3	Q70J99		ENST00000207549.4:c.2638G>A	17.37:g.73826730C>T	ENSP00000207549:p.Asp880Asn	Somatic	1148	WXS	Illumina HiSeq	Phase_I	B4DWG9|Q9H7K5	Missense_Mutation	SNP	ENST00000207549.4	37	CCDS11730.1	.	.	.	.	.	.	.	.	.	.	C	12.94	2.087391	0.36855	.	.	ENSG00000092929	ENST00000207549;ENST00000412096	T;T	0.73469	-0.75;-0.75	4.71	2.59	0.31030	Mammalian uncoordinated homology 13, domain 2 (1);Mammalian uncoordinated homology 13, subgroup, domain 2 (1);	0.544272	0.19149	N	0.121481	T	0.57548	0.2061	N	0.25647	0.755	0.28887	N	0.894087	B	0.15930	0.015	B	0.13407	0.009	T	0.46133	-0.9213	10	0.18276	T	0.48	-0.9902	10.0074	0.41965	0.0:0.815:0.0:0.185	.	880	Q70J99	UN13D_HUMAN	N	880	ENSP00000207549:D880N;ENSP00000388093:D880N	ENSP00000207549:D880N	D	-	1	0	UNC13D	71338325	0.533000	0.26354	0.986000	0.45419	0.880000	0.50808	0.864000	0.27926	1.208000	0.43306	-0.448000	0.05591	GAC		0.647	UNC13D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000448847.2	XM_113950		T	73826730	C	T	73826730	3	4	660	1	0	0	0	0	1	0	0	0	16999	855	30	2	654	2	UNC13D	17	73826730	Missense_Mutation	SNP	C	TCGA-KN-8424-01A-11D-2310-10	260498	73826730	7368480	71	40995										
SFRS2	6427	ucsc.edu	37	chr17	74733037	74733037	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ccatggcatccatagcgtccTcagcgtcgcgcttgtcgtga	11	14	1	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr17:74733037T>C	ENST00000392485.2	-	1	378	c.206A>G	c.(205-207)gAg>gGg	p.E69G	MFSD11_ENST00000593181.1_5'Flank|SRSF2_ENST00000508921.3_Missense_Mutation_p.E69G|MIR636_ENST00000384825.1_RNA|MFSD11_ENST00000336509.4_5'Flank|MFSD11_ENST00000591864.1_5'UTR|MFSD11_ENST00000586622.1_5'UTR|SRSF2_ENST00000359995.5_Missense_Mutation_p.E69G|MFSD11_ENST00000355954.3_5'Flank|RP11-318A15.7_ENST00000587459.1_Intron|MFSD11_ENST00000590514.1_5'Flank|MFSD11_ENST00000590393.1_5'Flank|MFSD11_ENST00000588460.1_5'UTR	NM_003016.4	NP_003007.2	Q01130	SRSF2_HUMAN	serine/arginine-rich splicing factor 2	69	RRM. {ECO:0000255|PROSITE- ProRule:PRU00176}.				gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA export from nucleus (GO:0006406)|mRNA processing (GO:0006397)|mRNA splicing, via spliceosome (GO:0000398)|regulation of RNA biosynthetic process (GO:2001141)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	extracellular vesicular exosome (GO:0070062)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|transcription corepressor activity (GO:0003714)			haematopoietic_and_lymphoid_tissue(320)|kidney(2)|large_intestine(1)|lung(4)|prostate(2)	329						CATAGCGTCCTCAGCGTCGCG	0.692			Mis		"MDS, CLL"																																		Dom	yes		17	17q25	6427	serine/arginine-rich splicing factor 2		L	0													31	36	34					17																	74733037		2201	4297	6498	SO:0001583	missense	6427			M90104	CCDS11749.1	17q25.2	2014-09-17	2010-06-22	2010-06-22	ENSG00000161547	ENSG00000161547		"Serine/arginine-rich splicing factors", "RNA binding motif (RRM) containing"	10783	protein-coding gene	gene with protein product	"SR splicing factor 2"	600813	"splicing factor, arginine/serine-rich 2"	SFRS2		8530103, 20516191	Standard	NM_003016		Approved	SC-35, SC35, PR264, SFRS2A	uc002jsv.3	Q01130		ENST00000392485.2:c.206A>G	17.37:g.74733037T>C	ENSP00000376276:p.Glu69Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWD5|B4DN89|H0YG49	Missense_Mutation	SNP	ENST00000392485.2	37	CCDS11749.1	.	.	.	.	.	.	.	.	.	.	T	16.31	3.088353	0.55968	.	.	ENSG00000161547	ENST00000452355;ENST00000392485;ENST00000508921;ENST00000358156;ENST00000359995	T;T;T	0.19250	2.16;2.16;2.16	4.18	4.18	0.49190	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.060490	0.64402	D	0.000006	T	0.45657	0.1353	M	0.87827	2.91	0.80722	D	1	P;P	0.42692	0.787;0.787	P;P	0.54889	0.636;0.763	T	0.53165	-0.8477	10	0.72032	D	0.01	.	12.9011	0.58125	0.0:0.0:0.0:1.0	.	69;69	B4DN89;Q01130	.;SRSF2_HUMAN	G	69;69;96;57;69	ENSP00000391278:E69G;ENSP00000376276:E69G;ENSP00000353089:E69G	ENSP00000350877:E57G	E	-	2	0	SRSF2	72244632	1.000000	0.71417	0.965000	0.40720	0.703000	0.40648	7.527000	0.81931	1.530000	0.49136	0.379000	0.24179	GAG		0.692	SRSF2-003	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437489.1	NM_003016		C	74733037	T	C	74733037	3	2	660	1	0	0	0	0	1	0	0	0	14188	1551	54	3	467	3	SFRS2	17	74733037	Missense_Mutation	SNP	T	TCGA-KN-8424-01A-11D-2310-10	906307	74733037	6462173	72	40996										
ZBTB7C	201501	mdanderson.org	37	chr18	45555829	45555829	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	cgcccgaacagcttcatctgTgtctcctcgaactgccgctc	8	17	3	0	rs7231151	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr18:45555829T>C	ENST00000588982.1	-	4	2163	c.1662A>G	c.(1660-1662)acA>acG	p.T554T	ZBTB7C_ENST00000535628.2_Silent_p.T554T|ZBTB7C_ENST00000590800.1_Silent_p.T554T|ZBTB7C_ENST00000332053.2_Silent_p.T554T|ZBTB7C_ENST00000586438.1_Silent_p.T554T			A1YPR0	ZBT7C_HUMAN	zinc finger and BTB domain containing 7C	554							metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)			endometrium(8)|kidney(1)|large_intestine(7)|lung(3)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	23						GCTTCATCTGTGTCTCCTCGA	0.721													C|||	2061	0.411542	0.562	0.366	5008	,	,		9999	0.4673		0.2594	False		,,,				2504	0.3395															0								C		2040,2344		497,1046,649	12	12	12		1662	0.5	1	18	dbSNP_116	12	2358,6186		325,1708,2239	no	coding-synonymous	ZBTB7C	NM_001039360.2		822,2754,2888	CC,CT,TT		27.5983,46.5328,34.0192		554/620	45555829	4398,8530	2192	4272	6464	SO:0001819	synonymous_variant	201501			Y14591	CCDS32830.1	18q21.1	2013-01-08		2005-04-07	ENSG00000184828	ENSG00000184828		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	31700	protein-coding gene	gene with protein product			"zinc finger and BTB domain containing 36"	ZBTB36			Standard	NM_001039360		Approved	ZNF857C	uc002ldb.3	A1YPR0		ENST00000588982.1:c.1662A>G	18.37:g.45555829T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O73453	Silent	SNP	ENST00000588982.1	37	CCDS32830.1																																																																																				0.721	ZBTB7C-025	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450731.1	NM_001039360		C	45555829	T	C	45555829	2	2	660	1	0	0	0	0	0	0	0	1	17567	1683	59	3		3	ZBTB7C	18	45555829	Silent	SNP	T	TCGA-KN-8424-01A-11D-2310-10		45555829	32521419	73	40997										
NEDD4L	23327	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	56063457	56063457	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	aagatttacgagagaaacttCtcatggccgtggaaaatgct	10	7	1	2			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr18:56063457C>T	ENST00000400345.3	+	31	3167	c.2884C>T	c.(2884-2886)Ctc>Ttc	p.L962F	NEDD4L_ENST00000357895.5_Missense_Mutation_p.L954F|NEDD4L_ENST00000431212.2_Missense_Mutation_p.L841F|NEDD4L_ENST00000435432.2_Missense_Mutation_p.L821F|NEDD4L_ENST00000256830.9_Missense_Mutation_p.L858F|RP11-845C23.3_ENST00000590318.1_RNA|NEDD4L_ENST00000382850.4_Missense_Mutation_p.L942F|NEDD4L_ENST00000586263.1_Missense_Mutation_p.L934F|NEDD4L_ENST00000456173.2_Missense_Mutation_p.L821F|NEDD4L_ENST00000589054.1_Missense_Mutation_p.L93F|NEDD4L_ENST00000356462.6_Missense_Mutation_p.L898F|NEDD4L_ENST00000256832.7_Missense_Mutation_p.L822F|NEDD4L_ENST00000456986.1_Missense_Mutation_p.L841F	NM_001144967.2	NP_001138439.1	Q96PU5	NED4L_HUMAN	neural precursor cell expressed, developmentally down-regulated 4-like, E3 ubiquitin protein ligase	962	HECT. {ECO:0000255|PROSITE- ProRule:PRU00104}.				cellular sodium ion homeostasis (GO:0006883)|excretion (GO:0007588)|gene expression (GO:0010467)|ion transmembrane transport (GO:0034220)|negative regulation of potassium ion transmembrane transport (GO:1901380)|negative regulation of potassium ion transmembrane transporter activity (GO:1901017)|negative regulation of protein localization to cell surface (GO:2000009)|negative regulation of sodium ion transmembrane transport (GO:1902306)|negative regulation of sodium ion transmembrane transporter activity (GO:2000650)|negative regulation of systemic arterial blood pressure (GO:0003085)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|positive regulation of cation channel activity (GO:2001259)|positive regulation of caveolin-mediated endocytosis (GO:2001288)|positive regulation of endocytosis (GO:0045807)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of sodium ion transport (GO:0010765)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein K48-linked ubiquitination (GO:0070936)|protein monoubiquitination (GO:0006513)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|regulation of ion transmembrane transport (GO:0034765)|regulation of membrane depolarization (GO:0003254)|regulation of membrane potential (GO:0042391)|regulation of membrane repolarization (GO:0060306)|regulation of potassium ion transmembrane transporter activity (GO:1901016)|regulation of protein catabolic process (GO:0042176)|regulation of tight junction assembly (GO:2000810)|response to metal ion (GO:0010038)|response to salt stress (GO:0009651)|sodium ion transport (GO:0006814)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|transmembrane transport (GO:0055085)|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway (GO:0043162)|ventricular cardiac muscle cell action potential (GO:0086005)|viral life cycle (GO:0019058)|viral process (GO:0016032)|water homeostasis (GO:0030104)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ion channel binding (GO:0044325)|ligase activity (GO:0016874)|potassium channel inhibitor activity (GO:0019870)|potassium channel regulator activity (GO:0015459)|sodium channel inhibitor activity (GO:0019871)|sodium channel regulator activity (GO:0017080)|ubiquitin-protein transferase activity (GO:0004842)			breast(1)|endometrium(7)|kidney(3)|large_intestine(10)|lung(11)|ovary(1)|prostate(4)	37						AGAGAAACTTCTCATGGCCGT	0.453																																																0													103	88	93					18																	56063457		1868	4113	5981	SO:0001583	missense	23327			AF210730	CCDS45872.1, CCDS45873.1, CCDS45874.1, CCDS45875.1, CCDS45876.1, CCDS58632.1, CCDS59323.1	18q21.31	2014-08-12	2012-02-23		ENSG00000049759				7728	protein-coding gene	gene with protein product		606384	"neural precursor cell expressed, developmentally down-regulated 4-like"			10594025, 11244092, 18322022	Standard	NM_001144965		Approved	KIAA0439, RSP5, NEDD4-2	uc002lgy.3	Q96PU5	OTTHUMG00000179875	ENST00000400345.3:c.2884C>T	18.37:g.56063457C>T	ENSP00000383199:p.Leu962Phe	Somatic		WXS	Illumina HiSeq	Phase_I	O43165|Q3LSM7|Q7Z5F1|Q7Z5F2|Q7Z5N3|Q8N5A7|Q8WUU9|Q9BW58|Q9H2W4|Q9NT88	Missense_Mutation	SNP	ENST00000400345.3	37	CCDS45872.1	.	.	.	.	.	.	.	.	.	.	C	16.28	3.080156	0.55753	.	.	ENSG00000049759	ENST00000400345;ENST00000382850;ENST00000356462;ENST00000256830;ENST00000256832;ENST00000456986;ENST00000357895;ENST00000435432;ENST00000456173;ENST00000431212	T;T;T;T;T;T;T;T;T;T	0.61859	0.07;0.07;0.07;0.07;0.07;0.07;0.07;0.07;0.07;0.07	5.77	5.77	0.91146	HECT (4);	0.000000	0.85682	D	0.000000	T	0.79936	0.4532	M	0.86097	2.795	0.80722	D	1	D;P;D;D;D;D	0.71674	0.965;0.943;0.996;0.998;0.972;0.965	P;P;P;D;P;P	0.72075	0.522;0.522;0.798;0.976;0.653;0.522	T	0.80372	-0.1410	10	0.54805	T	0.06	.	20.3472	0.98799	0.0:1.0:0.0:0.0	.	934;954;821;898;962;942	Q96PU5-6;Q96PU5-7;Q3LSM7;Q96PU5-2;Q96PU5;Q96PU5-5	.;.;.;.;NED4L_HUMAN;.	F	962;942;898;858;822;841;954;821;821;841	ENSP00000383199:L962F;ENSP00000372301:L942F;ENSP00000348847:L898F;ENSP00000256830:L858F;ENSP00000256832:L822F;ENSP00000411947:L841F;ENSP00000350569:L954F;ENSP00000393395:L821F;ENSP00000405440:L821F;ENSP00000389406:L841F	ENSP00000256830:L858F	L	+	1	0	NEDD4L	54214437	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	5.880000	0.69698	2.890000	0.99128	0.650000	0.86243	CTC		0.453	NEDD4L-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000448749.1			T	56063457	C	T	56063457	3	4	660	1	0	0	0	0	1	0	0	0	10318	913	32	2	3034	2	NEDD4L	18	56063457	Missense_Mutation	SNP	C	TCGA-KN-8424-01A-11D-2310-10	10507628	56063457	22013791	74	40998										
NFATC1	4772	mdanderson.org	37	chr18	77171061	77171061	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tcctccagacccgcgtccccTtgcaacaagaggaagtacag	9	15	0	2	rs2230112	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr18:77171061T>G	ENST00000427363.2	+	2	786	c.786T>G	c.(784-786)ccT>ccG	p.P262P	NFATC1_ENST00000318065.5_Silent_p.P249P|NFATC1_ENST00000586434.1_Silent_p.P249P|NFATC1_ENST00000397790.2_Intron|NFATC1_ENST00000542384.1_Silent_p.P262P|NFATC1_ENST00000592223.1_Silent_p.P249P|NFATC1_ENST00000591814.1_Silent_p.P262P|NFATC1_ENST00000253506.5_Silent_p.P262P|NFATC1_ENST00000329101.4_Silent_p.P249P|NFATC1_ENST00000545796.1_Intron|NFATC1_ENST00000587635.1_Silent_p.P262P			O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 1	262	3 X SP repeats.				calcium ion transport (GO:0006816)|epithelial to mesenchymal transition (GO:0001837)|Fc-epsilon receptor signaling pathway (GO:0038095)|G1/S transition of mitotic cell cycle (GO:0000082)|heart development (GO:0007507)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|osteoclast differentiation (GO:0030316)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|transcription factor complex (GO:0005667)	FK506 binding (GO:0005528)|mitogen-activated protein kinase p38 binding (GO:0048273)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001205)|RNA polymerase II transcription factor binding (GO:0001085)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			NS(2)|breast(1)|endometrium(7)|kidney(1)|large_intestine(4)|lung(17)|ovary(2)|prostate(4)|skin(1)|soft_tissue(1)	40		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)	Pseudoephedrine(DB00852)	CCGCGTCCCCTTGCAACAAGA	0.721													G|||	2958	0.590655	0.1483	0.768	5008	,	,		13414	0.8562		0.7018	False		,,,				2504	0.6748				GBM(151;1210 2593 28719 45011)											0								G	,,,,	1124,3252		179,766,1243	14	16	15		786,747,,747,786	-1.8	0.1	18	dbSNP_98	15	5959,2571		2120,1719,426	no	coding-synonymous,coding-synonymous,intron,coding-synonymous,coding-synonymous	NFATC1	NM_006162.3,NM_172387.1,NM_172388.1,NM_172389.1,NM_172390.1	,,,,	2299,2485,1669	GG,GT,TT		30.1407,25.6856,45.1185	,,,,	262/826,249/931,,249/813,262/717	77171061	7083,5823	2188	4265	6453	SO:0001819	synonymous_variant	4772			U08015	CCDS12015.1, CCDS12016.1, CCDS32850.1, CCDS59326.1, CCDS59327.1, CCDS62467.1, CCDS62468.1, CCDS62469.1, CCDS62470.1, CCDS62471.1	18q23	2009-11-24			ENSG00000131196	ENSG00000131196		"Nuclear factor of activated T-cells"	7775	protein-coding gene	gene with protein product		600489				8202141	Standard	NM_001278669		Approved	NF-ATC, NFATc, NFAT2	uc002lnf.3	O95644	OTTHUMG00000132897	ENST00000427363.2:c.786T>G	18.37:g.77171061T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B5B2M4|B5B2M5|B5B2M6|B5B2M7|B5B2M8|B5B2M9|B5B2N1|Q12865|Q15793|Q2M1S3	Silent	SNP	ENST00000427363.2	37																																																																																					0.721	NFATC1-007	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000450507.1	NM_172390		G	77171061	T	G	77171061	2	3	660	1	0	0	0	0	0	0	0	1	10368	1596	56	5		5	NFATC1	18	77171061	Silent	SNP	T	TCGA-KN-8424-01A-11D-2310-10	21107604	77171061	906187	75	40999										
C19orf26	255057	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	1236022	1236022	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	cgtccagtggcattgtcccaCgacgtcgtcagggctactgt	12	13	1	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr19:1236022C>T	ENST00000382477.2	-	2	334	c.60G>A	c.(58-60)tcG>tcA	p.S20S	C19orf26_ENST00000215376.6_Silent_p.S20S|C19orf26_ENST00000590083.1_Silent_p.S26S|AC004221.2_ENST00000592843.1_lincRNA			Q8N350	DOS_HUMAN	chromosome 19 open reading frame 26	20	Thr-rich.					integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(4)	9		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|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)		CATTGTCCCACGACGTCGTCA	0.687										HNSCC(14;0.022)																																						0													50	38	42					19																	1236022		2201	4297	6498	SO:0001819	synonymous_variant	255057			BC028156	CCDS12057.1, CCDS12057.2	19p13.3	2012-10-24			ENSG00000099625	ENSG00000099625			28617	protein-coding gene	gene with protein product	"downstream of STK11"					12477932	Standard	NM_152769		Approved	MGC40084, DOS	uc002lrm.3	Q8N350	OTTHUMG00000180141	ENST00000382477.2:c.60G>A	19.37:g.1236022C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O43385	Silent	SNP	ENST00000382477.2	37																																																																																					0.687	C19orf26-202	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_152769		T	1236022	C	T	1236022	2	4	660	1	0	0	0	0	0	0	0	1	1918	523	19	1		1	C19orf26	19	1236022	Silent	SNP	C	TCGA-KN-8424-01A-11D-2310-10		1236022	57892961	76	41000										
ARHGEF18	23370	broad.mit.edu	37	chr19	7504944	7504944	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	cgaggcataaaaacggcgcaGcccagcctggcgccgcgccg	14	16	0	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr19:7504944G>A	ENST00000359920.6	+	1	371	c.118G>A	c.(118-120)Gcc>Acc	p.A40T	CTD-2207O23.3_ENST00000593531.1_Intron|ARHGEF18_ENST00000319670.9_Intron	NM_001130955.1	NP_001124427.1	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor (GEF) 18	40					actin cytoskeleton organization (GO:0030036)|apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of cell shape (GO:0008360)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|transforming growth factor beta receptor signaling pathway (GO:0007179)	apical part of cell (GO:0045177)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytosol (GO:0005829)	guanyl-nucleotide exchange factor activity (GO:0005085)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(4)|ovary(2)|prostate(2)|stomach(1)|urinary_tract(1)	23		Renal(5;0.0902)				AAACGGCGCAGCCCAGCCTGG	0.662																																																0													24	24	24					19																	7504944		692	1591	2283	SO:0001583	missense	23370			AK074372	CCDS12177.1, CCDS45946.1	19p13.3	2013-01-10	2009-06-12			ENSG00000104880		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	17090	protein-coding gene	gene with protein product	"Rho-specific guanine nucleotide exchange factor p114"		"rho/rac guanine nucleotide exchange factor (GEF) 18"			9628581, 11318610	Standard	NM_015318		Approved	P114-RhoGEF, KIAA0521, MGC15913	uc002mgi.3	Q6ZSZ5		ENST00000359920.6:c.118G>A	19.37:g.7504944G>A	ENSP00000352995:p.Ala40Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8MV62|B5ME81|O60274|Q6DD92	Missense_Mutation	SNP	ENST00000359920.6	37	CCDS45946.1	.	.	.	.	.	.	.	.	.	.	G	11.66	1.704937	0.30232	.	.	ENSG00000104880	ENST00000359920	T	0.34072	1.38	5.23	2.92	0.33932	.	1.322080	0.05826	U	0.616753	T	0.24812	0.0602	N	0.24115	0.695	0.09310	N	0.999999	B	0.30068	0.267	B	0.22386	0.039	T	0.24083	-1.0170	10	0.87932	D	0	-3.5629	6.1624	0.20372	0.0:0.2002:0.5654:0.2344	.	40	Q6ZSZ5	ARHGI_HUMAN	T	40	ENSP00000352995:A40T	ENSP00000352995:A40T	A	+	1	0	ARHGEF18	7410944	0.005000	0.15991	0.006000	0.13384	0.435000	0.31806	1.277000	0.33167	1.172000	0.42781	0.561000	0.74099	GCC		0.662	ARHGEF18-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000436340.1	NM_015318		A	7504944	G	A	7504944	3	1	660	1	0	0	0	0	1	0	0	0	901	971	34	2	120	2	ARHGEF18	19	7504944	Missense_Mutation	SNP	G	TCGA-KN-8424-01A-11D-2310-10	6268922	7504944	51624039	77	41001										
MUC16	94025	mdanderson.org	37	chr19	9018476	9018476	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tcagtggtgttgaacttcctGgagccagggcgatgcatgtc	14	9	1	1	rs112059772		TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr19:9018476G>A	ENST00000397910.4	-	24	37901	c.37698C>T	c.(37696-37698)tcC>tcT	p.S12566S		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	12568	SEA 4. {ECO:0000255|PROSITE- ProRule:PRU00188}.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TGAACTTCCTGGAGCCAGGGC	0.557																																																0																																										SO:0001819	synonymous_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.37698C>T	19.37:g.9018476G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Silent	SNP	ENST00000397910.4	37	CCDS54212.1																																																																																				0.557	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		A	9018476	G	A	9018476	2	1	660	1	0	0	0	0	0	0	0	1	9980	1335	47	2		2	MUC16	19	9018476	Silent	SNP	G	TCGA-KN-8424-01A-11D-2310-10	1513532	9018476	50110507	78	41002										
COL5A3	50509	mdanderson.org	37	chr19	10077419	10077419	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	cccatgcagctcggcaggggCaccctgggcgtaggggatgg	18	12	0	0	rs3745584	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr19:10077419C>G	ENST00000264828.3	-	63	4547	c.4462G>C	c.(4462-4464)Gcc>Ccc	p.A1488P		NM_015719.3	NP_056534.2	P25940	CO5A3_HUMAN	collagen, type V, alpha 3	1488	Collagen-like 6.|Triple-helical region.		A -> P (in dbSNP:rs3745584).		axon guidance (GO:0007411)|cell-matrix adhesion (GO:0007160)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|skin development (GO:0043588)	collagen type V trimer (GO:0005588)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)|heparin binding (GO:0008201)			NS(2)|breast(3)|central_nervous_system(2)|endometrium(11)|kidney(23)|large_intestine(12)|liver(2)|lung(35)|ovary(8)|prostate(5)|skin(10)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	116			Epithelial(33;7.11e-05)			TCGGCAGGGGCACCCTGGGCG	0.672													G|||	1834	0.366214	0.1392	0.3329	5008	,	,		12299	0.5337		0.3509	False		,,,				2504	0.5399															0								G	PRO/ALA	480,3178		43,394,1392	3	3	3		4462	2	0.4	19	dbSNP_107	3	2011,5393		291,1429,1982	yes	missense	COL5A3	NM_015719.3	27	334,1823,3374	GG,GC,CC		27.161,13.1219,22.5185	benign	1488/1746	10077419	2491,8571	1829	3702	5531	SO:0001583	missense	50509			AF177941	CCDS12222.1	19p13.2	2013-01-16			ENSG00000080573	ENSG00000080573		"Collagens"	14864	protein-coding gene	gene with protein product		120216				10722718	Standard	NM_015719		Approved		uc002mmq.1	P25940	OTTHUMG00000150019	ENST00000264828.3:c.4462G>C	19.37:g.10077419C>G	ENSP00000264828:p.Ala1488Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NZQ6	Missense_Mutation	SNP	ENST00000264828.3	37	CCDS12222.1	769	0.35210622710622713	68	0.13821138211382114	124	0.3425414364640884	313	0.5472027972027972	264	0.3482849604221636	G	0.046	-1.264850	0.01433	0.131219	0.27161	ENSG00000080573	ENST00000264828	D	0.88046	-2.33	4.18	2.01	0.26516	.	0.342020	0.26627	N	0.023334	T	0.00012	0.0000	N	0.02403	-0.565	0.45676	P	0.0014079999999999648	B	0.02656	0.0	B	0.01281	0.0	T	0.37454	-0.9705	9	0.02654	T	1	.	4.0727	0.09889	0.2249:0.1938:0.5813:0.0	rs3745584;rs61076096;rs3745584	1488	P25940	CO5A3_HUMAN	P	1488	ENSP00000264828:A1488P	ENSP00000264828:A1488P	A	-	1	0	COL5A3	9938419	0.322000	0.24634	0.402000	0.26371	0.167000	0.22549	0.127000	0.15790	0.080000	0.16959	-0.368000	0.07277	GCC		0.672	COL5A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000315788.1	NM_015719		G	10077419	C	G	10077419	3	3	660	1	0	0	0	0	1	0	0	0	3700	710	25	4	795	4	COL5A3	19	10077419	Missense_Mutation	SNP	C	TCGA-KN-8424-01A-11D-2310-10	1058943	10077419	49051564	79	41003										
KANK2	25959	mdanderson.org	37	chr19	11303943	11303943	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	atgcccaagtcccgttctcgAacccaggtgcccacactccg	8	18	1	0	rs3745681	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr19:11303943A>G	ENST00000586659.1	-	4	1127	c.813T>C	c.(811-813)gtT>gtC	p.V271V	KANK2_ENST00000589359.1_Silent_p.V271V|KANK2_ENST00000589894.1_Silent_p.V271V|KANK2_ENST00000432929.2_Silent_p.V271V|KANK2_ENST00000355150.5_Silent_p.V271V			Q63ZY3	KANK2_HUMAN	KN motif and ankyrin repeat domains 2	271					apoptotic process (GO:0006915)|negative regulation of cell proliferation (GO:0008285)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of intracellular estrogen receptor signaling pathway (GO:0033147)|negative regulation of programmed cell death (GO:0043069)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)				endometrium(2)|large_intestine(1)|lung(8)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	14						CCCGTTCTCGAACCCAGGTGC	0.692													G|||	2531	0.505391	0.6483	0.4265	5008	,	,		15958	0.4514		0.3787	False		,,,				2504	0.5542															0								G	,	2625,1773		791,1043,365	26	28	27		813,813	-2.5	0.9	19	dbSNP_107	27	3333,5259		652,2029,1615	no	coding-synonymous,coding-synonymous	KANK2	NM_001136191.2,NM_015493.6	,	1443,3072,1980	GG,GA,AA		38.7919,40.3138,45.8661	,	271/852,271/860	11303943	5958,7032	2199	4296	6495	SO:0001819	synonymous_variant	25959			AK000011	CCDS12255.1, CCDS54219.1	19p13.2	2013-01-10	2008-01-29	2008-01-29		ENSG00000197256		"KN motif and ankyrin repeat domain containing", "Ankyrin repeat domain containing"	29300	protein-coding gene	gene with protein product		614610	"matrix-remodelling associated 3", "ankyrin repeat domain 25"	MXRA3, ANKRD25		10819331, 17996375, 19554261	Standard	NM_015493		Approved	KIAA1518	uc002mqm.3	Q63ZY3		ENST00000586659.1:c.813T>C	19.37:g.11303943A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0I1P4|Q3KQZ3|Q6GUF5|Q9H8S4|Q9NUP0|Q9P210	Silent	SNP	ENST00000586659.1	37	CCDS12255.1																																																																																				0.692	KANK2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000453066.2	NM_015493		G	11303943	A	G	11303943	2	3	660	1	0	0	0	0	0	0	0	1	7984	233	9	3		3	KANK2	19	11303943	Silent	SNP	A	TCGA-KN-8424-01A-11D-2310-10	1226524	11303943	47825040	80	41004										
GDF15	9518	mdanderson.org	37	chr19	18499238	18499238	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tcgtgggacgtgacacgaccGctgcggcgtcagctcagcct	14	14	2	1	rs1804826	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr19:18499238G>T	ENST00000252809.3	+	2	452	c.420G>T	c.(418-420)ccG>ccT	p.P140P	MIR3189_ENST00000578735.1_RNA	NM_004864.2	NP_004855.2	Q99988	GDF15_HUMAN	growth differentiation factor 15	140					cell-cell signaling (GO:0007267)|signal transduction (GO:0007165)|transforming growth factor beta receptor signaling pathway (GO:0007179)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	cytokine activity (GO:0005125)			kidney(2)|large_intestine(1)|liver(1)|lung(5)|prostate(2)|skin(1)	12						TGACACGACCGCTGCGGCGTC	0.716											OREG0025363	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	G|||	1323	0.264177	0.1611	0.3573	5008	,	,		13438	0.4276		0.2475	False		,,,				2504	0.1861															0								G		677,3579		70,537,1521	10	12	12		420	-0.5	0	19	dbSNP_89	12	1879,6511		245,1389,2561	no	coding-synonymous	GDF15	NM_004864.2		315,1926,4082	TT,TG,GG		22.3957,15.907,20.2119		140/309	18499238	2556,10090	2128	4195	6323	SO:0001819	synonymous_variant	9518			BC008962	CCDS12376.1	19p13.11	2008-05-14				ENSG00000130513			30142	protein-coding gene	gene with protein product	"prostate differentiation factor"	605312				11895857, 9593718	Standard	NM_004864		Approved	PLAB, MIC-1, PDF, MIC1, NAG-1, PTGFB	uc002niv.2	Q99988		ENST00000252809.3:c.420G>T	19.37:g.18499238G>T		Somatic	726	WXS	Illumina HiSeq	Phase_I	O14629|P78360|Q9BWA0|Q9NRT0	Silent	SNP	ENST00000252809.3	37	CCDS12376.1																																																																																				0.716	GDF15-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466340.2	NM_004864		T	18499238	G	T	18499238	2	4	660	1	0	0	0	0	0	0	0	1	6320	1074	38	4		4	GDF15	19	18499238	Silent	SNP	G	TCGA-KN-8424-01A-11D-2310-10	7195295	18499238	40629745	81	41005										
CIC	23152	ucsc.edu	37	chr19	42791707	42791707	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tttaatgcagcgggagaaggAccacatccggcggcccatga	13	11	0	2			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr19:42791707A>G	ENST00000575354.2	+	5	633	c.593A>G	c.(592-594)gAc>gGc	p.D198G	CIC_ENST00000572681.2_Missense_Mutation_p.D1107G|CIC_ENST00000160740.3_Missense_Mutation_p.D198G	NM_015125.3	NP_055940.3	Q96RK0	CIC_HUMAN	capicua transcriptional repressor	198					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)			autonomic_ganglia(1)|breast(5)|central_nervous_system(32)|endometrium(10)|kidney(2)|large_intestine(7)|lung(9)|ovary(7)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	82		Prostate(69;0.00682)				CGGGAGAAGGACCACATCCGG	0.622			"Mis, F, S"		oligodendroglioma																																		Rec	yes		19	19q13.2	23152	capicua homolog		O	0													68	73	71					19																	42791707		2203	4300	6503	SO:0001583	missense	23152			AB002304	CCDS12601.1	19q13.2	2013-03-15	2013-03-15		ENSG00000079432	ENSG00000079432			14214	protein-coding gene	gene with protein product		612082	"capicua (Drosophila) homolog", "capicua homolog (Drosophila)"			12393275, 15981098	Standard	NM_015125		Approved	KIAA0306	uc002otf.1	Q96RK0		ENST00000575354.2:c.593A>G	19.37:g.42791707A>G	ENSP00000458663:p.Asp198Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q7LGI1|Q9UEG5|Q9Y6T1	Missense_Mutation	SNP	ENST00000575354.2	37	CCDS12601.1	.	.	.	.	.	.	.	.	.	.	A	17.22	3.333647	0.60853	.	.	ENSG00000079432	ENST00000160740	.	.	.	4.39	4.39	0.52855	High mobility group, superfamily (1);	.	.	.	.	T	0.61451	0.2348	N	0.26130	0.795	0.52099	D	0.999944	D	0.67145	0.996	D	0.68039	0.955	T	0.65586	-0.6132	8	0.87932	D	0	-18.5985	11.626	0.51145	1.0:0.0:0.0:0.0	.	198	Q96RK0	CIC_HUMAN	G	198	.	ENSP00000160740:D198G	D	+	2	0	CIC	47483547	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	6.740000	0.74832	1.853000	0.53794	0.454000	0.30748	GAC		0.622	CIC-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000438532.2			G	42791707	A	G	42791707	3	3	660	1	0	0	0	0	1	0	0	0	3426	275	10	3	611	3	CIC	19	42791707	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10	24292469	42791707	16337276	82	41006										
SIGLEC1	6614	broad.mit.edu;bcgsc.ca	37	chr20	3669873	3669873	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ctgcttacaaacacgcctccTtctgcaaggcccggagtgga	10	14	1	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr20:3669873T>C	ENST00000344754.4	-	20	4998	c.4999A>G	c.(4999-5001)Agg>Ggg	p.R1667G	SIGLEC1_ENST00000202578.4_Intron	NM_023068.3	NP_075556.1	Q9BZZ2	SN_HUMAN	sialic acid binding Ig-like lectin 1, sialoadhesin	1667					cell-matrix adhesion (GO:0007160)|endocytosis (GO:0006897)|inflammatory response (GO:0006954)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of T cell apoptotic process (GO:0070234)|single organismal cell-cell adhesion (GO:0016337)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)			NS(1)|autonomic_ganglia(1)|breast(1)|central_nervous_system(4)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(5)|liver(2)|lung(24)|ovary(3)|pancreas(4)|prostate(3)|skin(8)|upper_aerodigestive_tract(1)	70						ACACGCCTCCTTCTGCAAGGC	0.587																																																0													179	158	165					20																	3669873		2203	4300	6503	SO:0001630	splice_region_variant	6614			AF230073	CCDS13060.1	20p13	2013-01-29	2006-01-19	2006-01-19	ENSG00000088827	ENSG00000088827		"CD molecules", "Sialic acid binding Ig-like lectins", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	11127	protein-coding gene	gene with protein product		600751	"sialoadhesin"	SN		8530048	Standard	XM_006723610		Approved	SIGLEC-1, CD169, FLJ00051, FLJ00055, FLJ00073, FLJ32150, dJ1009E24.1, sialoadhesin	uc002wja.3	Q9BZZ2	OTTHUMG00000031757	ENST00000344754.4:c.4998-1A>G	20.37:g.3669873T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q96DL4|Q9GZS5|Q9H1H6|Q9H1H7|Q9H7L7	Missense_Mutation	SNP	ENST00000344754.4	37	CCDS13060.1	.	.	.	.	.	.	.	.	.	.	T	13.86	2.363971	0.41902	.	.	ENSG00000088827	ENST00000344754	T	0.33216	1.42	5.13	4.02	0.46733	.	0.364252	0.20218	N	0.096755	T	0.21590	0.0520	L	0.29908	0.895	0.52501	D	0.999954	B	0.23058	0.079	B	0.19391	0.025	T	0.04767	-1.0928	10	0.62326	D	0.03	.	7.7455	0.28866	0.0:0.0965:0.0:0.9035	.	1667	Q9BZZ2	SN_HUMAN	G	1667	ENSP00000341141:R1667G	ENSP00000341141:R1667G	R	-	1	2	SIGLEC1	3617873	0.158000	0.22850	0.548000	0.28192	0.080000	0.17528	1.044000	0.30329	0.895000	0.36342	0.533000	0.62120	AGG		0.587	SIGLEC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077761.2	NM_023068	Missense_Mutation	C	3669873	T	C	3669873	5	2	660	1	0	0	0	0	0	0	1	0	14318	1623	56	3	138	3	SIGLEC1	20	3669873	Splice_Site	SNP	T	TCGA-KN-8424-01A-11D-2310-10		3669873	59355647	83	41007										
SGK2	10110	bcgsc.ca	37	chr20	42199308	42199308	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tcctggagccccgggccaggTtctacgctgctgaggtggcc	15	14	1	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr20:42199308T>C	ENST00000341458.4	+	6	811	c.592T>C	c.(592-594)Ttc>Ctc	p.F198L	SGK2_ENST00000423407.3_Missense_Mutation_p.F138L|SGK2_ENST00000373077.1_Missense_Mutation_p.F137L|SGK2_ENST00000373100.1_Missense_Mutation_p.F138L|SGK2_ENST00000426287.1_Missense_Mutation_p.F164L|SGK2_ENST00000485914.1_3'UTR|SGK2_ENST00000373092.3_Missense_Mutation_p.F138L	NM_016276.3	NP_057360.2	Q9HBY8	SGK2_HUMAN	serum/glucocorticoid regulated kinase 2	198	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				intracellular signal transduction (GO:0035556)|ion transmembrane transport (GO:0034220)|positive regulation of transporter activity (GO:0032411)|protein phosphorylation (GO:0006468)|regulation of cell growth (GO:0001558)|regulation of cell proliferation (GO:0042127)|response to oxidative stress (GO:0006979)|transmembrane transport (GO:0055085)	cytosol (GO:0005829)|nucleus (GO:0005634)	ATP binding (GO:0005524)|potassium channel regulator activity (GO:0015459)|protein serine/threonine kinase activity (GO:0004674)|sodium channel regulator activity (GO:0017080)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(11)|pancreas(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	27		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			CCGGGCCAGGTTCTACGCTGC	0.627																																																0													57	60	59					20																	42199308		2203	4300	6503	SO:0001583	missense	10110			AF169034	CCDS13320.1, CCDS13321.1	20q13.2	2008-07-04			ENSG00000101049	ENSG00000101049			13900	protein-coding gene	gene with protein product		607589				10548550	Standard	NM_016276		Approved		uc002xkv.3	Q9HBY8	OTTHUMG00000033054	ENST00000341458.4:c.592T>C	20.37:g.42199308T>C	ENSP00000340608:p.Phe198Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q52PK5|Q5H8Y6|Q5H8Z1|Q5TZR3|Q9UKG6	Missense_Mutation	SNP	ENST00000341458.4	37	CCDS13320.1	.	.	.	.	.	.	.	.	.	.	T	34	5.328708	0.95733	.	.	ENSG00000101049	ENST00000373100;ENST00000373092;ENST00000373077;ENST00000412111;ENST00000423407;ENST00000341458;ENST00000426287	T;T;T;T;T;T;T	0.64991	-0.13;-0.13;-0.13;-0.13;-0.13;-0.13;-0.13	4.92	4.92	0.64577	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.75243	0.3823	L	0.59912	1.85	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	T	0.77448	-0.2584	10	0.62326	D	0.03	.	14.235	0.65919	0.0:0.0:0.0:1.0	.	164;198;138	Q9HBY8-3;Q9HBY8;Q9HBY8-2	.;SGK2_HUMAN;.	L	138;138;137;137;138;198;164	ENSP00000362192:F138L;ENSP00000362184:F138L;ENSP00000362168:F137L;ENSP00000396222:F137L;ENSP00000392795:F138L;ENSP00000340608:F198L;ENSP00000412214:F164L	ENSP00000340608:F198L	F	+	1	0	SGK2	41632722	1.000000	0.71417	1.000000	0.80357	0.889000	0.51656	7.860000	0.86993	2.148000	0.66965	0.533000	0.62120	TTC		0.627	SGK2-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000080383.1			C	42199308	T	C	42199308	3	2	660	1	0	0	0	0	1	0	0	0	14222	1725	60	3	614	3	SGK2	20	42199308	Missense_Mutation	SNP	T	TCGA-KN-8424-01A-11D-2310-10	38529435	42199308	20826212	84	41008										
TMPRSS15	5651	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr21	19770214	19770214	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	actcaaattgtaaaactcttGagttcttatattcattcttc	3	8	5	1			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr21:19770214G>T	ENST00000284885.3	-	3	359	c.326C>A	c.(325-327)tCa>tAa	p.S109*		NM_002772.2	NP_002763	P98073	ENTK_HUMAN	transmembrane protease, serine 15	109	SEA. {ECO:0000255|PROSITE- ProRule:PRU00188}.					brush border (GO:0005903)|integral component of membrane (GO:0016021)	scavenger receptor activity (GO:0005044)|serine-type endopeptidase activity (GO:0004252)			NS(1)|breast(2)|cervix(1)|endometrium(4)|kidney(7)|large_intestine(19)|lung(36)|ovary(6)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)	85						TAAAACTCTTGAGTTCTTATA	0.244																																																0													16	17	17					21																	19770214		2136	4209	6345	SO:0001587	stop_gained	5651				CCDS13571.1	21q21	2010-12-09	2010-04-21	2010-04-21	ENSG00000154646	ENSG00000154646		"Serine peptidases / Transmembrane"	9490	protein-coding gene	gene with protein product	"proenterokinase", "enteropeptidase"	606635	"protease, serine, 7 (enterokinase)"	PRSS7		8052624	Standard	NM_002772		Approved	ENTK, MGC133046	uc002ykw.3	P98073	OTTHUMG00000074518	ENST00000284885.3:c.326C>A	21.37:g.19770214G>T	ENSP00000284885:p.Ser109*	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKL7	Nonsense_Mutation	SNP	ENST00000284885.3	37	CCDS13571.1	.	.	.	.	.	.	.	.	.	.	G	36	5.729406	0.96856	.	.	ENSG00000154646	ENST00000284885;ENST00000422787	.	.	.	4.78	4.78	0.61160	.	0.078927	0.53938	D	0.000051	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.4889	0.61382	0.0:0.0:1.0:0.0	.	.	.	.	X	109;64	.	.	S	-	2	0	TMPRSS15	18692085	1.000000	0.71417	0.914000	0.36105	0.985000	0.73830	2.024000	0.41049	2.625000	0.88918	0.643000	0.83706	TCA		0.244	TMPRSS15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000158231.2	NM_002772		T	19770214	G	T	19770214	4	4	660	1	0	0	0	0	0	1	0	0	16258	1294	45	4	2825	4	TMPRSS15	21	19770214	Nonsense_Mutation	SNP	G	TCGA-KN-8424-01A-11D-2310-10		19770214	28359681	85	41009										
OSM	5008	broad.mit.edu	37	chr22	30661055	30661055	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gcttctggagctggccaaggAgcacgcggtactctttcgag	14	11	2	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr22:30661055A>G	ENST00000215781.2	-	2	153	c.113T>C	c.(112-114)cTc>cCc	p.L38P	OSM_ENST00000403463.1_Intron|OSM_ENST00000403389.1_Missense_Mutation_p.L17P	NM_020530.4	NP_065391.1	P13725	ONCM_HUMAN	oncostatin M	38					behavioral response to pain (GO:0048266)|cell proliferation (GO:0008283)|immune response (GO:0006955)|multicellular organismal development (GO:0007275)|negative regulation of cell proliferation (GO:0008285)|negative regulation of hormone secretion (GO:0046888)|negative regulation of meiosis (GO:0045835)|peripheral nervous system development (GO:0007422)|positive regulation of acute inflammatory response (GO:0002675)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell division (GO:0051781)|positive regulation of cell proliferation (GO:0008284)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of growth (GO:0040008)|response to heat (GO:0009408)|tyrosine phosphorylation of Stat1 protein (GO:0042508)|tyrosine phosphorylation of Stat3 protein (GO:0042503)|tyrosine phosphorylation of Stat5 protein (GO:0042506)	extracellular space (GO:0005615)|oncostatin-M receptor complex (GO:0005900)	cytokine activity (GO:0005125)|growth factor activity (GO:0008083)|oncostatin-M receptor binding (GO:0005147)			breast(1)|endometrium(2)|large_intestine(2)|lung(3)|skin(3)	11			Epithelial(10;0.206)			CTGGCCAAGGAGCACGCGGTA	0.577																																																0													143	132	136					22																	30661055		2203	4300	6503	SO:0001583	missense	5008			AF129855	CCDS13873.1	22q12.2	2011-07-21			ENSG00000099985	ENSG00000099985			8506	protein-coding gene	gene with protein product		165095				1717982	Standard	NM_020530		Approved	MGC20461	uc003ahb.3	P13725	OTTHUMG00000150913	ENST00000215781.2:c.113T>C	22.37:g.30661055A>G	ENSP00000215781:p.Leu38Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FHP8|Q9UCP6	Missense_Mutation	SNP	ENST00000215781.2	37	CCDS13873.1	.	.	.	.	.	.	.	.	.	.	A	17.04	3.286191	0.59867	.	.	ENSG00000099985	ENST00000215781;ENST00000403389	T	0.62941	-0.01	3.69	3.69	0.42338	Four-helical cytokine-like, core (1);Four-helical cytokine, core (1);	0.000000	0.33496	N	0.004844	T	0.66636	0.2809	L	0.34521	1.04	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.68800	-0.5313	10	0.87932	D	0	-31.3671	9.04	0.36311	1.0:0.0:0.0:0.0	.	38	P13725	ONCM_HUMAN	P	38;17	ENSP00000215781:L38P	ENSP00000215781:L38P	L	-	2	0	OSM	28991055	0.980000	0.34600	0.641000	0.29422	0.074000	0.17049	2.556000	0.45862	1.922000	0.55676	0.459000	0.35465	CTC		0.577	OSM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320512.1	NM_020530		G	30661055	A	G	30661055	3	3	660	1	0	0	0	0	1	0	0	0	11298	304	11	3	653	3	OSM	22	30661055	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10		30661055	20643511	86	41010										
BRD1	23774	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	50187922	50187922	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gcccaggtgggctctgttggCggggtccagcaacctgtcca	15	13	1	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chr22:50187922C>T	ENST00000216267.8	-	6	2605	c.2119G>A	c.(2119-2121)Gcc>Acc	p.A707T	BRD1_ENST00000342989.5_Missense_Mutation_p.A302T|BRD1_ENST00000404034.1_Missense_Mutation_p.A707T|BRD1_ENST00000542442.1_Missense_Mutation_p.A395T|BRD1_ENST00000404760.1_Missense_Mutation_p.A707T|BRD1_ENST00000457780.2_Missense_Mutation_p.A707T	NM_014577.1	NP_055392.1	O95696	BRD1_HUMAN	bromodomain containing 1	707					histone H3 acetylation (GO:0043966)	MOZ/MORF histone acetyltransferase complex (GO:0070776)|nucleus (GO:0005634)	histone binding (GO:0042393)|zinc ion binding (GO:0008270)			endometrium(6)|kidney(3)|large_intestine(5)|lung(17)|ovary(1)|pancreas(1)|prostate(3)|skin(1)	37		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		GCTCTGTTGGCGGGGTCCAGC	0.602																																																0													59	64	62					22																	50187922		2203	4300	6503	SO:0001583	missense	23774			AF005067	CCDS14080.1	22q13.33	2008-07-01	2002-01-14		ENSG00000100425	ENSG00000100425			1102	protein-coding gene	gene with protein product	"BR140-like"	604589	"bromodomain-containing 1"			10591208, 10602503	Standard	NM_014577		Approved	BRL, BRPF2	uc003biv.3	O95696	OTTHUMG00000150288	ENST00000216267.8:c.2119G>A	22.37:g.50187922C>T	ENSP00000216267:p.Ala707Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6ZJA4	Missense_Mutation	SNP	ENST00000216267.8	37	CCDS14080.1	.	.	.	.	.	.	.	.	.	.	C	20.5	4.002749	0.74932	.	.	ENSG00000100425	ENST00000216267;ENST00000404034;ENST00000404760;ENST00000457780;ENST00000542442;ENST00000342989;ENST00000419212	T;T;T;T;T;T	0.27557	2.6;2.6;2.58;2.42;1.66;2.02	5.4	5.4	0.78164	.	0.098489	0.64402	D	0.000001	T	0.28699	0.0711	M	0.73598	2.24	0.58432	D	0.999998	P;P;P;P	0.46656	0.812;0.597;0.456;0.882	B;B;B;B	0.33799	0.082;0.048;0.082;0.17	T	0.13495	-1.0507	10	0.22706	T	0.39	.	12.5109	0.56005	0.0:0.9236:0.0:0.0764	.	707;302;707;707	Q86X06;B7Z926;O95696;O95696-2	.;.;BRD1_HUMAN;.	T	707;707;707;707;395;302;167	ENSP00000216267:A707T;ENSP00000384076:A707T;ENSP00000385858:A707T;ENSP00000410042:A707T;ENSP00000437514:A395T;ENSP00000345886:A302T	ENSP00000216267:A707T	A	-	1	0	BRD1	48573926	1.000000	0.71417	0.988000	0.46212	0.981000	0.71138	5.876000	0.69667	2.524000	0.85096	0.655000	0.94253	GCC		0.602	BRD1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317402.1	NM_014577		T	50187922	C	T	50187922	3	4	660	1	0	0	0	0	1	0	0	0	1503	768	27	1	1085	1	BRD1	22	50187922	Missense_Mutation	SNP	C	TCGA-KN-8424-01A-11D-2310-10	19526867	50187922	1116644	87	41011										
SHROOM2	357	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	9905226	9905226	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tgaagatggtgcccatcaagAtcgtgcactcggagagccag	13	10	1	4			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chrX:9905226A>G	ENST00000380913.3	+	7	3730	c.3640A>G	c.(3640-3642)Atc>Gtc	p.I1214V	SHROOM2_ENST00000418909.2_Missense_Mutation_p.I49V	NM_001649.2	NP_001640.1	Q13796	SHRM2_HUMAN	shroom family member 2	1214					apical protein localization (GO:0045176)|brain development (GO:0007420)|camera-type eye development (GO:0043010)|camera-type eye morphogenesis (GO:0048593)|cell migration (GO:0016477)|cell-cell junction maintenance (GO:0045217)|cellular pigment accumulation (GO:0043482)|ear development (GO:0043583)|establishment of melanosome localization (GO:0032401)|eye pigment granule organization (GO:0008057)|lens morphogenesis in camera-type eye (GO:0002089)|melanosome organization (GO:0032438)|negative regulation of actin filament depolymerization (GO:0030835)|sodium ion transmembrane transport (GO:0035725)	apical plasma membrane (GO:0016324)|cell cortex (GO:0005938)|cell-cell adherens junction (GO:0005913)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|filamentous actin (GO:0031941)|microtubule (GO:0005874)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|beta-catenin binding (GO:0008013)|ligand-gated sodium channel activity (GO:0015280)			breast(4)|central_nervous_system(2)|cervix(3)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(13)|ovary(3)|prostate(3)|skin(6)|upper_aerodigestive_tract(2)	57		Hepatocellular(5;0.000888)				GCCCATCAAGATCGTGCACTC	0.592																																																0													46	32	37					X																	9905226		2202	4298	6500	SO:0001583	missense	357			X83543	CCDS14135.1	Xp22.3	2008-02-05	2006-07-20	2006-07-20	ENSG00000146950	ENSG00000146950			630	protein-coding gene	gene with protein product		300103	"apical protein, Xenopus laevis-like", "apical protein-like (Xenopus laevis)"	APXL		7795590, 16615870	Standard	NM_001649		Approved		uc004csu.1	Q13796	OTTHUMG00000021121	ENST00000380913.3:c.3640A>G	X.37:g.9905226A>G	ENSP00000370299:p.Ile1214Val	Somatic		WXS	Illumina HiSeq	Phase_I	B9EIQ7	Missense_Mutation	SNP	ENST00000380913.3	37	CCDS14135.1	.	.	.	.	.	.	.	.	.	.	A	21.0	4.075380	0.76415	.	.	ENSG00000146950	ENST00000380913;ENST00000418909;ENST00000452575;ENST00000540923	T;T;T	0.58210	1.95;1.03;0.35	5.12	5.12	0.69794	.	0.000000	0.85682	D	0.000000	T	0.67059	0.2853	L	0.61218	1.895	0.49483	D	0.99979	D;D	0.67145	0.996;0.985	P;D	0.67548	0.878;0.952	T	0.65940	-0.6046	10	0.33940	T	0.23	-14.2064	14.0878	0.64971	1.0:0.0:0.0:0.0	.	49;1214	Q68DU3;Q13796	.;SHRM2_HUMAN	V	1214;49;49;49	ENSP00000370299:I1214V;ENSP00000415229:I49V;ENSP00000406724:I49V	ENSP00000370299:I1214V	I	+	1	0	SHROOM2	9865226	1.000000	0.71417	0.998000	0.56505	0.939000	0.58152	8.769000	0.91742	1.704000	0.51252	0.481000	0.45027	ATC		0.592	SHROOM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055721.1	NM_001649		G	9905226	A	G	9905226	3	3	660	1	0	0	0	0	1	0	0	0	14307	333	12	3	3666	3	SHROOM2	23	9905226	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10		9905226	145365334	88	41012										
WWC3	55841	mdanderson.org	37	chrX	10085674	10085674	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ccacacggggtccccggggaTggggaagggccgcacgagcg	19	13	0	0	rs6530368	byFrequency	TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chrX:10085674T>C	ENST00000380861.4	+	11	1966	c.1575T>C	c.(1573-1575)gaT>gaC	p.D525D	WWC3_ENST00000454666.1_Silent_p.D525D	NM_015691.3	NP_056506.2	Q9ULE0	WWC3_HUMAN	WWC family member 3	525					negative regulation of hippo signaling (GO:0035331)|negative regulation of organ growth (GO:0046621)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)	cytosol (GO:0005829)	kinase binding (GO:0019900)|protein complex scaffold (GO:0032947)			NS(1)|breast(3)|endometrium(10)|kidney(1)|large_intestine(11)|lung(17)|ovary(5)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	52						TCCCCGGGGATGGGGAAGGGC	0.701													C|||	3621	0.959205	0.7572	0.7089	3775	,	,		10616	0.7579		0.663	False		,,,				2504	0.7127															0								C		3391,72		1436,59,460,0,13	6	6	6		1575	-8.5	0	X	dbSNP_116	6	5349,820		1737,497,1378,39,245	no	coding-synonymous	WWC3	NM_015691.3		3173,556,1838,39,258	CC,CT,C,TT,T		13.2923,2.0791,9.2608		525/1093	10085674	8740,892	1968	3896	5864	SO:0001819	synonymous_variant	55841			AK091936	CCDS14136.1	Xp22.32	2008-02-05			ENSG00000047644	ENSG00000047644		"WW, C2 and coiled-coil domain containing"	29237	protein-coding gene	gene with protein product						10574462	Standard	NM_015691		Approved	KIAA1280, BM042	uc004csx.4	Q9ULE0	OTTHUMG00000021123	ENST00000380861.4:c.1575T>C	X.37:g.10085674T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8KA96|Q659C1|Q9BTQ1	Silent	SNP	ENST00000380861.4	37	CCDS14136.1																																																																																				0.701	WWC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055725.1	NM_015691		C	10085674	T	C	10085674	2	2	660	1	0	0	0	0	0	0	0	1	17425	1461	51	3		3	WWC3	23	10085674	Silent	SNP	T	TCGA-KN-8424-01A-11D-2310-10	180448	10085674	145184886	89	41013										
RPGR	6103	broad.mit.edu	37	chrX	38145385	38145385	+	Intron	DEL	T	T	-													0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	ctccttcctcctcttcccccTcccattctccttcctcctct							TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chrX:38145385delT	ENST00000339363.3	-	14	2688				RPGR_ENST00000342811.3_Intron|RPGR_ENST00000318842.7_Intron|TM4SF2_ENST00000465127.1_Intron|RPGR_ENST00000309513.3_Intron|RPGR_ENST00000338898.3_Intron|RPGR_ENST00000378505.2_Frame_Shift_Del_p.E956fs			Q92834	RPGR_HUMAN	retinitis pigmentosa GTPase regulator						cilium assembly (GO:0042384)|eye photoreceptor cell development (GO:0042462)|intracellular protein transport (GO:0006886)|intraciliary transport (GO:0042073)|response to stimulus (GO:0050896)|visual perception (GO:0007601)	centrosome (GO:0005813)|ciliary basal body (GO:0036064)|Golgi apparatus (GO:0005794)|photoreceptor outer segment (GO:0001750)|sperm flagellum (GO:0036126)	guanyl-nucleotide exchange factor activity (GO:0005085)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(9)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	25						ctcttccccctcccattctcc	0.617																																																0			GRCh37	CD070508	orf15	D							5	3	4					X																	38145385		1668	3072	4740	SO:0001627	intron_variant	6103			U57629	CCDS14246.1, CCDS35229.1	Xp11.4	2013-06-06	2004-02-13		ENSG00000156313	ENSG00000156313			10295	protein-coding gene	gene with protein product		312610	"retinitis pigmentosa 15", "cone dystrophy 1 (X-linked)"	CRD, RP3, RP15, COD1		8673101, 8817343	Standard	XM_005272633		Approved	CORDX1	uc004ded.1	Q92834	OTTHUMG00000021361	ENST00000339363.3:c.2520+961A>-	X.37:g.38145385delT		Somatic		WXS	Illumina HiSeq	Phase_I	B1ARN3|E9PE28|O00702|O00737|Q3KN84|Q8N5T6|Q93039|Q9HD29|Q9UMR1	Frame_Shift_Del	DEL	ENST00000339363.3	37																																																																																					0.617	RPGR-203	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_000328		-	38145385	T	-	38145385	6	5	660	0	1	1	0	1	0	0	0	0	13561	1551	54	0		0	RPGR	23	38145385	Intron	DEL	T	TCGA-KN-8424-01A-11D-2310-10	28059711	38145385	117125175	90	41014										
SLC16A2	6567	mdanderson.org	37	chrX	73641569	73641569	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	tgggtagcccagagccggagTctgagccggagcctgagccc	16	13	1	3	rs6647476		TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chrX:73641569T>C	ENST00000587091.1	+	1	274	c.97T>C	c.(97-99)Tct>Cct	p.S33P	SLC16A2_ENST00000276033.5_Missense_Mutation_p.S107P	NM_006517.4	NP_006508.2	P36021	MOT8_HUMAN	solute carrier family 16, member 2 (thyroid hormone transporter)	33					monocarboxylic acid transport (GO:0015718)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	monocarboxylic acid transmembrane transporter activity (GO:0008028)|symporter activity (GO:0015293)|transporter activity (GO:0005215)			breast(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(4)|ovary(1)|skin(2)	21					L-Leucine(DB00149)|L-Tryptophan(DB00150)|L-Tyrosine(DB00135)|Levothyroxine(DB00451)|Liotrix(DB01583)|Pyruvic acid(DB00119)	Agagccggagtctgagccgga	0.741													C|||	2506	0.663841	0.531	0.3084	3775	,	,		5534	0.7361		0.333	False		,,,				2504	0.5245															0								-	PRO/SER	2247,1352		641,640,325,282,148	6	6	6	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	319		0.1	X	dbSNP_116	6	2383,4050		356,1012,659,1004,1030	yes	missense	SLC16A2	NM_006517.3	74	997,1652,984,1286,1178	CC,CT,C,TT,T		37.0434,37.566,46.1523	possibly-damaging	107/614	73641569	4630,5402	2036	4061	6097	SO:0001583	missense	6567				CCDS14426.1, CCDS14426.2	Xq13.2	2013-05-22	2012-03-20		ENSG00000147100	ENSG00000147100		"Solute carriers"	10923	protein-coding gene	gene with protein product		300095	"solute carrier family 16 (monocarboxylic acid transporters), member 2 (putative transporter)", "Allan-Herndon-Dudley syndrome", "solute carrier family 16 (monocarboxylic acid transporters), member 2", "mental retardation, X-linked 22", "solute carrier family 16, member 2 (monocarboxylic acid transporter 8)"	DXS128, AHDS, MRX22		7981683, 12871948, 15889350	Standard	NM_006517		Approved	XPCT, MCT8, MCT7	uc031tjy.1	P36021	OTTHUMG00000021857	ENST00000587091.1:c.97T>C	X.37:g.73641569T>C	ENSP00000465734:p.Ser33Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z797	Missense_Mutation	SNP	ENST00000587091.1	37	CCDS14426.2	1048	0.6317058468957203	190	0.5828220858895705	71	0.2305194805194805	278	0.9586206896551724	182	0.3063973063973064	C	0.001	-3.547578	0.00009	0.62434	0.370434	ENSG00000147100	ENST00000276033	T	0.69306	-0.39	.	.	.	.	0.660363	0.13427	N	0.388737	T	0.00012	0.0000	N	0.00419	-1.52	0.80722	P	0.0	P	0.47604	0.898	B	0.42959	0.403	T	0.50651	-0.8803	7	0.18710	T	0.47	.	.	.	.	rs6647476	33	P36021	MOT8_HUMAN	P	107	ENSP00000276033:S107P	ENSP00000276033:S107P	S	+	1	0	SLC16A2	73558294	0.057000	0.20700	0.097000	0.21041	0.047000	0.14425	-0.390000	0.07332	-0.420000	0.07427	0.000000	0.15137	TCT		0.741	SLC16A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057266.3			C	73641569	T	C	73641569	3	2	660	1	0	0	0	0	1	0	0	0	14421	1667	58	3	321	3	SLC16A2	23	73641569	Missense_Mutation	SNP	T	TCGA-KN-8424-01A-11D-2310-10	35496184	73641569	81628991	91	41015										
BRS3	680	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	135570529	135570529	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	aaacagttccaaatattttcAtcaccagcctggcttttgga	6	10	2	0			TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chrX:135570529A>G	ENST00000370648.3	+	1	484	c.256A>G	c.(256-258)Atc>Gtc	p.I86V	Z97632.1_ENST00000580943.1_RNA	NM_001727.1	NP_001718.1	P32247	BRS3_HUMAN	bombesin-like receptor 3	86					adult feeding behavior (GO:0008343)|glucose metabolic process (GO:0006006)|regulation of blood pressure (GO:0008217)	integral component of membrane (GO:0016021)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	bombesin receptor activity (GO:0004946)			endometrium(2)|kidney(1)|large_intestine(4)|lung(13)|ovary(1)|pancreas(1)|prostate(1)	23	Acute lymphoblastic leukemia(192;0.000127)					AAATATTTTCATCACCAGCCT	0.418																																																0													151	134	139					X																	135570529		2203	4300	6503	SO:0001583	missense	680				CCDS14656.1	Xq26.3	2014-02-21			ENSG00000102239	ENSG00000102239		"GPCR / Class A : Bombesin receptors"	1113	protein-coding gene	gene with protein product		300107				8383682	Standard	NM_001727		Approved	BB3	uc004ezv.1	P32247	OTTHUMG00000022726	ENST00000370648.3:c.256A>G	X.37:g.135570529A>G	ENSP00000359682:p.Ile86Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000370648.3	37	CCDS14656.1	.	.	.	.	.	.	.	.	.	.	A	15.78	2.935780	0.52972	.	.	ENSG00000102239	ENST00000370648	T	0.40225	1.04	5.67	5.67	0.87782	GPCR, rhodopsin-like superfamily (1);	0.000000	0.64402	D	0.000001	T	0.60560	0.2278	M	0.67953	2.075	0.46564	D	0.999101	D	0.58620	0.983	P	0.62014	0.897	T	0.63795	-0.6556	10	0.62326	D	0.03	-16.6344	14.8936	0.70627	1.0:0.0:0.0:0.0	.	86	P32247	BRS3_HUMAN	V	86	ENSP00000359682:I86V	ENSP00000359682:I86V	I	+	1	0	BRS3	135398195	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	5.040000	0.64191	1.899000	0.54978	0.486000	0.48141	ATC		0.418	BRS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059005.1	NM_001727		G	135570529	A	G	135570529	3	3	660	1	0	0	0	0	1	0	0	0	1524	217	8	3	258	3	BRS3	23	135570529	Missense_Mutation	SNP	A	TCGA-KN-8424-01A-11D-2310-10	61928960	135570529	19700031	92	41016										
ABCD1	215	mdanderson.org	37	chrX	153008476	153008476	+	Missense_Mutation	SNP	T	T	C													0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gtgactggaaggacgtcctgTcgggtggcgagaagcagaga					rs201774661		TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chrX:153008476T>C	ENST00000218104.3	+	8	2215	c.1816T>C	c.(1816-1818)Tcg>Ccg	p.S606P	U52111.14_ENST00000434284.1_RNA	NM_000033.3	NP_000024.2	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member 1	606	ABC transporter. {ECO:0000255|PROSITE- ProRule:PRU00434}.		S -> L (in ALD; decreased ATP-binding affinity). {ECO:0000269|PubMed:8040304}.|S -> P (in ALD; CALD, AMN and ALMD- types). {ECO:0000269|PubMed:21700483, ECO:0000269|PubMed:21889498}.		alpha-linolenic acid metabolic process (GO:0036109)|ATP catabolic process (GO:0006200)|cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation (GO:0006635)|fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)|linoleic acid metabolic process (GO:0043651)|long-chain fatty acid catabolic process (GO:0042758)|peroxisomal long-chain fatty acid import (GO:0015910)|peroxisomal membrane transport (GO:0015919)|peroxisome organization (GO:0007031)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|unsaturated fatty acid metabolic process (GO:0033559)|very long-chain fatty acid catabolic process (GO:0042760)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|integral component of peroxisomal membrane (GO:0005779)|membrane (GO:0016020)|mitochondrion (GO:0005739)|perinuclear region of cytoplasm (GO:0048471)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|peroxisomal fatty-acyl-CoA transporter activity (GO:0005325)|protein homodimerization activity (GO:0042803)|transporter activity (GO:0005215)	p.S606P(1)		breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(6)|urinary_tract(2)	18	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGACGTCCTGTCGGGTGGCGA	0.657																																																1	Substitution - Missense(1)	haematopoietic_and_lymphoid_tissue(1)	GRCh37	CM960043	ABCD1	M																																				SO:0001583	missense	215			Z21876	CCDS14728.1	Xq28	2012-03-14			ENSG00000101986	ENSG00000101986		"ATP binding cassette transporters / subfamily D"	61	protein-coding gene	gene with protein product		300371		ALD		8441467, 6795626	Standard	NM_000033		Approved	AMN, ALDP, adrenoleukodystrophy	uc004fif.2	P33897	OTTHUMG00000024215	ENST00000218104.3:c.1816T>C	X.37:g.153008476T>C	ENSP00000218104:p.Ser606Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GTZ2	Missense_Mutation	SNP	ENST00000218104.3	37	CCDS14728.1	.	.	.	.	.	.	.	.	.	.	T	22.6	4.307005	0.81247	.	.	ENSG00000101986	ENST00000218104	D	0.99957	-8.99	5.46	5.46	0.80206	ABC transporter, conserved site (1);ATPase, AAA+ type, core (1);ABC transporter-like (2);	0.000000	0.64402	D	0.000009	D	0.99964	0.9986	H	0.99357	4.53	0.80722	D	1	D	0.56521	0.976	P	0.59546	0.859	D	0.96145	0.9103	10	0.87932	D	0	-5.1669	13.4857	0.61364	0.0:0.0:0.0:1.0	.	606	P33897	ABCD1_HUMAN	P	606	ENSP00000218104:S606P	ENSP00000218104:S606P	S	+	1	0	ABCD1	152661670	1.000000	0.71417	0.058000	0.19502	0.765000	0.43378	5.967000	0.70403	1.827000	0.53221	0.350000	0.21858	TCG		0.657	ABCD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000061041.1	NM_000033		C	153008476	T	C	153008476	3	2	660	1	0	0	0	0	1	0	0	0	60	1667	58	3	1846	3	ABCD1	23	153008476	Missense_Mutation	SNP	T	TCGA-KN-8424-01A-11D-2310-10	17437947	153008476	2262084	93	41017	382	2								
ABCD1	215	mdanderson.org	37	chrX	153008483	153008483	+	Missense_Mutation	SNP	G	G	A													0.0444444444444444	4	1	1.38753387533875	0	1.70288248337029	0.0606060606060606	0.96831955922865	0	gaaggacgtcctgtcgggtgGcgagaagcagagaatcggca					rs78993751		TCGA-KN-8424-01A-11D-2310-10	TCGA-KN-8424-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1e8ae8dd-74c1-44d5-a74e-bfdce801c736	5e382ff9-b2b7-49ea-9ae5-b1ae7ab5b910	g.chrX:153008483G>A	ENST00000218104.3	+	8	2222	c.1823G>A	c.(1822-1824)gGc>gAc	p.G608D	U52111.14_ENST00000434284.1_RNA	NM_000033.3	NP_000024.2	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member 1	608	ABC transporter. {ECO:0000255|PROSITE- ProRule:PRU00434}.		G -> D (in ALD; CALD-type). {ECO:0000269|PubMed:11438993}.		alpha-linolenic acid metabolic process (GO:0036109)|ATP catabolic process (GO:0006200)|cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation (GO:0006635)|fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)|linoleic acid metabolic process (GO:0043651)|long-chain fatty acid catabolic process (GO:0042758)|peroxisomal long-chain fatty acid import (GO:0015910)|peroxisomal membrane transport (GO:0015919)|peroxisome organization (GO:0007031)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|unsaturated fatty acid metabolic process (GO:0033559)|very long-chain fatty acid catabolic process (GO:0042760)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|integral component of peroxisomal membrane (GO:0005779)|membrane (GO:0016020)|mitochondrion (GO:0005739)|perinuclear region of cytoplasm (GO:0048471)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|peroxisomal fatty-acyl-CoA transporter activity (GO:0005325)|protein homodimerization activity (GO:0042803)|transporter activity (GO:0005215)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(6)|urinary_tract(2)	18	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTGTCGGGTGGCGAGAAGCAG	0.652																																																0			GRCh37	CM012040	ABCD1	M	rs78993751																																			SO:0001583	missense	215			Z21876	CCDS14728.1	Xq28	2012-03-14			ENSG00000101986	ENSG00000101986		"ATP binding cassette transporters / subfamily D"	61	protein-coding gene	gene with protein product		300371		ALD		8441467, 6795626	Standard	NM_000033		Approved	AMN, ALDP, adrenoleukodystrophy	uc004fif.2	P33897	OTTHUMG00000024215	ENST00000218104.3:c.1823G>A	X.37:g.153008483G>A	ENSP00000218104:p.Gly608Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GTZ2	Missense_Mutation	SNP	ENST00000218104.3	37	CCDS14728.1	.	.	.	.	.	.	.	.	.	.	G	27.8	4.864716	0.91511	.	.	ENSG00000101986	ENST00000218104	D	0.99981	-10.31	5.46	5.46	0.80206	ABC transporter, conserved site (1);ATPase, AAA+ type, core (1);ABC transporter-like (2);	0.000000	0.64402	D	0.000002	D	0.99984	0.9995	H	0.98178	4.165	0.09310	P	1.0	D	0.89917	1.0	D	0.91635	0.999	D	0.99264	1.0891	9	0.87932	D	0	-31.6285	17.0243	0.86441	0.0:0.0:1.0:0.0	.	608	P33897	ABCD1_HUMAN	D	608	ENSP00000218104:G608D	ENSP00000218104:G608D	G	+	2	0	ABCD1	152661677	1.000000	0.71417	0.632000	0.29296	0.808000	0.45660	9.405000	0.97313	2.283000	0.76528	0.429000	0.28392	GGC		0.652	ABCD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000061041.1	NM_000033		A	153008483	G	A	153008483	3	1	660	1	0	0	0	0	1	0	0	0	60	1203	42	2	1853	2	ABCD1	23	153008483	Missense_Mutation	SNP	G	TCGA-KN-8424-01A-11D-2310-10	7	153008483	2262077	94	41018	382	2								
RPL11	6135	hgsc.bcm.edu	37	chr1	24021261	24021261	+	Frame_Shift_Del	DEL	T	T	-													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	atgacccaagcattggtatcTacggcctggacttctatgtg							TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr1:24021261delT	ENST00000374550.3	+	4	421	c.376delT	c.(376-378)tacfs	p.Y126fs	RPL11_ENST00000482370.1_3'UTR	NM_000975.3|NM_001199802.1	NP_000966.2|NP_001186731.1	P62913	RL11_HUMAN	ribosomal protein L11	126					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|protein localization to nucleus (GO:0034504)|protein targeting (GO:0006605)|ribosomal large subunit biogenesis (GO:0042273)|RNA metabolic process (GO:0016070)|rRNA processing (GO:0006364)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|rRNA binding (GO:0019843)|structural constituent of ribosome (GO:0003735)			central_nervous_system(1)|kidney(1)|large_intestine(2)|lung(2)	6		Colorectal(325;3.46e-05)|Lung NSC(340;0.000112)|all_lung(284;0.00016)|Renal(390;0.000219)|Breast(348;0.0044)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;2.13e-24)|Colorectal(126;5.06e-08)|COAD - Colon adenocarcinoma(152;2.92e-06)|GBM - Glioblastoma multiforme(114;4.4e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|KIRC - Kidney renal clear cell carcinoma(1967;0.00322)|STAD - Stomach adenocarcinoma(196;0.0124)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0837)|LUSC - Lung squamous cell carcinoma(448;0.185)		CATTGGTATCTACGGCCTGGA	0.408																																																0													151	144	147					1																	24021261		2203	4300	6503	SO:0001589	frameshift_variant	6135			L05092	CCDS238.1	1p36.1-p35	2011-04-06			ENSG00000142676	ENSG00000142676		"L ribosomal proteins"	10301	protein-coding gene	gene with protein product		604175				9582194, 10343117	Standard	NM_000975		Approved	L11	uc001bhk.3	P62913	OTTHUMG00000002926	ENST00000374550.3:c.376delT	1.37:g.24021261delT	ENSP00000363676:p.Tyr126fs	Somatic		WXS	Illumina HiSeq	Phase_I	P25121|P39026|Q8TDH2|Q9Y674	Frame_Shift_Del	DEL	ENST00000374550.3	37	CCDS238.1																																																																																				0.408	RPL11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008168.1	NM_000975		-	24021261	T	-	24021261	7	5	661	1	0	1	0	1	0	0	0	0	13570	1522	53	0	390	0	RPL11	1	24021261	Frame_Shift_Del	DEL	T	TCGA-KN-8425-01A-11D-2310-10		24021261	225229360	1	41019	383	2								
RPL11	6135	bcgsc.ca	37	chr1	24021262	24021262	+	Frame_Shift_Del	DEL	T	T	-													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tgacccaagcattggtatctAcggcctggacttctatgtgg							TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr1:24021262delT	ENST00000374550.3	+	4	422	c.377delT	c.(376-378)ttcfs	p.F126fs	RPL11_ENST00000482370.1_3'UTR	NM_000975.3|NM_001199802.1	NP_000966.2|NP_001186731.1	P62913	RL11_HUMAN	ribosomal protein L11	126					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|protein localization to nucleus (GO:0034504)|protein targeting (GO:0006605)|ribosomal large subunit biogenesis (GO:0042273)|RNA metabolic process (GO:0016070)|rRNA processing (GO:0006364)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|rRNA binding (GO:0019843)|structural constituent of ribosome (GO:0003735)			central_nervous_system(1)|kidney(1)|large_intestine(2)|lung(2)	6		Colorectal(325;3.46e-05)|Lung NSC(340;0.000112)|all_lung(284;0.00016)|Renal(390;0.000219)|Breast(348;0.0044)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;2.13e-24)|Colorectal(126;5.06e-08)|COAD - Colon adenocarcinoma(152;2.92e-06)|GBM - Glioblastoma multiforme(114;4.4e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000954)|KIRC - Kidney renal clear cell carcinoma(1967;0.00322)|STAD - Stomach adenocarcinoma(196;0.0124)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0837)|LUSC - Lung squamous cell carcinoma(448;0.185)		ATTGGTATCTACGGCCTGGAC	0.408																																																0													149	142	145					1																	24021262		2203	4300	6503	SO:0001589	frameshift_variant	6135			L05092	CCDS238.1	1p36.1-p35	2011-04-06			ENSG00000142676	ENSG00000142676		"L ribosomal proteins"	10301	protein-coding gene	gene with protein product		604175				9582194, 10343117	Standard	NM_000975		Approved	L11	uc001bhk.3	P62913	OTTHUMG00000002926	ENST00000374550.3:c.377delT	1.37:g.24021262delT	ENSP00000363676:p.Phe126fs	Somatic		WXS	Illumina HiSeq	Phase_I	P25121|P39026|Q8TDH2|Q9Y674	Frame_Shift_Del	DEL	ENST00000374550.3	37	CCDS238.1																																																																																				0.408	RPL11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008168.1	NM_000975		-	24021262	T	-	24021262	7	5	661	1	0	1	0	1	0	0	0	0	13570	391	14	0	391	0	RPL11	1	24021262	Frame_Shift_Del	DEL	T	TCGA-KN-8425-01A-11D-2310-10	1	24021262	225229359	2	41020	383	2								
HRNR	388697	broad.mit.edu	37	chr1	152186038	152186038	+	Frame_Shift_Del	DEL	A	A	-													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tgaccaaagacagaagagtgAcccaagcgagactcatatgg							TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr1:152186038delA	ENST00000368801.2	-	3	8142	c.8067delT	c.(8065-8067)ggtfs	p.G2689fs	FLG-AS1_ENST00000420707.1_RNA|FLG-AS1_ENST00000593011.1_RNA	NM_001009931.1	NP_001009931.1	Q86YZ3	HORN_HUMAN	hornerin	2689					establishment of skin barrier (GO:0061436)|hematopoietic progenitor cell differentiation (GO:0002244)|keratinization (GO:0031424)	cornified envelope (GO:0001533)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)			autonomic_ganglia(1)|breast(6)|central_nervous_system(2)|cervix(2)|endometrium(22)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(19)|liver(1)|lung(84)|ovary(5)|prostate(6)|skin(12)|stomach(9)|upper_aerodigestive_tract(5)|urinary_tract(6)	192	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CAGAAGAGTGACCCAAGCGAG	0.577																																																0													29	26	27					1																	152186038		1971	3911	5882	SO:0001589	frameshift_variant	388697			AB104446	CCDS30859.1	1q21.3	2013-01-10			ENSG00000197915	ENSG00000197915		"EF-hand domain containing"	20846	protein-coding gene	gene with protein product	"filaggrin family member 3"						Standard	NM_001009931		Approved	S100a18, S100A16, FLG3	uc001ezt.2	Q86YZ3	OTTHUMG00000012243	ENST00000368801.2:c.8067delT	1.37:g.152186038delA	ENSP00000357791:p.Gly2689fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5DT20|Q5U1F4	Frame_Shift_Del	DEL	ENST00000368801.2	37	CCDS30859.1																																																																																				0.577	HRNR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034016.1	XM_373868		-	152186038	A	-	152186038	7	5	661	1	0	1	0	1	0	0	0	0	7366	262	10	0	489	0	HRNR	1	152186038	Frame_Shift_Del	DEL	A	TCGA-KN-8425-01A-11D-2310-10	128164776	152186038	97064583	3	41021	384	3								
HRNR	388697	broad.mit.edu	37	chr1	152186041	152186042	+	Frame_Shift_Ins	INS	-	-	GG													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	caaagacagaagagtgacccINSaagcgagactcatatgggcc					rs12751022|rs555234935	byFrequency	TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr1:152186041_152186042insGG	ENST00000368801.2	-	3	8138_8139	c.8063_8064insCC	c.(8062-8064)ttgfs	p.L2688fs	FLG-AS1_ENST00000420707.1_RNA|FLG-AS1_ENST00000593011.1_RNA	NM_001009931.1	NP_001009931.1	Q86YZ3	HORN_HUMAN	hornerin	2688				L -> S (in Ref. 1; BAC57496). {ECO:0000305}.	establishment of skin barrier (GO:0061436)|hematopoietic progenitor cell differentiation (GO:0002244)|keratinization (GO:0031424)	cornified envelope (GO:0001533)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)	p.L2688S(1)|p.L2688F(1)		autonomic_ganglia(1)|breast(6)|central_nervous_system(2)|cervix(2)|endometrium(22)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(19)|liver(1)|lung(84)|ovary(5)|prostate(6)|skin(12)|stomach(9)|upper_aerodigestive_tract(5)|urinary_tract(6)	192	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AAGAGTGACCCAAGCGAGACTC	0.584																																																2	Substitution - Missense(2)	prostate(1)|lung(1)																																								SO:0001589	frameshift_variant	388697			AB104446	CCDS30859.1	1q21.3	2013-01-10			ENSG00000197915	ENSG00000197915		"EF-hand domain containing"	20846	protein-coding gene	gene with protein product	"filaggrin family member 3"						Standard	NM_001009931		Approved	S100a18, S100A16, FLG3	uc001ezt.2	Q86YZ3	OTTHUMG00000012243	ENST00000368801.2:c.8063_8064insCC	1.37:g.152186041_152186042insGG	ENSP00000357791:p.Leu2688fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5DT20|Q5U1F4	Frame_Shift_Ins	INS	ENST00000368801.2	37	CCDS30859.1																																																																																				0.584	HRNR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034016.1	XM_373868		GG	152186042	-	GG	152186041	7	5	661	1	0	1	1	0	0	0	0	0	7366	593	21	0	492	0	HRNR	1	152186041	Frame_Shift_Ins	INS	-	TCGA-KN-8425-01A-11D-2310-10	3	152186041	97064580	4	41022	384	3								
HRNR	388697	broad.mit.edu	37	chr1	152186047	152186047	+	Frame_Shift_Del	DEL	A	A	-													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	acagaagagtgacccaagcgAgactcatatgggccacggct							TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr1:152186047delA	ENST00000368801.2	-	3	8133	c.8058delT	c.(8056-8058)tctfs	p.S2686fs	FLG-AS1_ENST00000420707.1_RNA|FLG-AS1_ENST00000593011.1_RNA	NM_001009931.1	NP_001009931.1	Q86YZ3	HORN_HUMAN	hornerin	2686					establishment of skin barrier (GO:0061436)|hematopoietic progenitor cell differentiation (GO:0002244)|keratinization (GO:0031424)	cornified envelope (GO:0001533)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)			autonomic_ganglia(1)|breast(6)|central_nervous_system(2)|cervix(2)|endometrium(22)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(19)|liver(1)|lung(84)|ovary(5)|prostate(6)|skin(12)|stomach(9)|upper_aerodigestive_tract(5)|urinary_tract(6)	192	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GACCCAAGCGAGACTCATATG	0.587																																																0													27	24	25					1																	152186047		1883	3790	5673	SO:0001589	frameshift_variant	388697			AB104446	CCDS30859.1	1q21.3	2013-01-10			ENSG00000197915	ENSG00000197915		"EF-hand domain containing"	20846	protein-coding gene	gene with protein product	"filaggrin family member 3"						Standard	NM_001009931		Approved	S100a18, S100A16, FLG3	uc001ezt.2	Q86YZ3	OTTHUMG00000012243	ENST00000368801.2:c.8058delT	1.37:g.152186047delA	ENSP00000357791:p.Ser2686fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5DT20|Q5U1F4	Frame_Shift_Del	DEL	ENST00000368801.2	37	CCDS30859.1																																																																																				0.587	HRNR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034016.1	XM_373868		-	152186047	A	-	152186047	7	5	661	1	0	1	0	1	0	0	0	0	7366	291	11	0	498	0	HRNR	1	152186047	Frame_Shift_Del	DEL	A	TCGA-KN-8425-01A-11D-2310-10	6	152186047	97064574	5	41023	384	3								
TGFB2	7042	bcgsc.ca	37	chr1	218520179	218520179	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	cgatccgcgggcagatcctgAgcaagctgaagctcaccagt	12	13	1	3			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr1:218520179A>G	ENST00000366930.4	+	1	603	c.136A>G	c.(136-138)Agc>Ggc	p.S46G	TGFB2_ENST00000366929.4_Missense_Mutation_p.S46G|RP11-224O19.2_ENST00000414452.1_RNA	NM_003238.3	NP_003229.1	P61812	TGFB2_HUMAN	transforming growth factor, beta 2	46					activation of protein kinase activity (GO:0032147)|angiogenesis (GO:0001525)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|blood vessel remodeling (GO:0001974)|cardiac epithelial to mesenchymal transition (GO:0060317)|cardiac muscle cell proliferation (GO:0060038)|cardioblast differentiation (GO:0010002)|cartilage condensation (GO:0001502)|catagen (GO:0042637)|cell cycle arrest (GO:0007050)|cell death (GO:0008219)|cell growth (GO:0016049)|cell migration (GO:0016477)|cell morphogenesis (GO:0000902)|cell proliferation (GO:0008283)|cell-cell junction organization (GO:0045216)|cell-cell signaling (GO:0007267)|collagen fibril organization (GO:0030199)|dopamine biosynthetic process (GO:0042416)|embryo development (GO:0009790)|embryonic digestive tract development (GO:0048566)|epithelial to mesenchymal transition (GO:0001837)|extracellular matrix organization (GO:0030198)|extrinsic apoptotic signaling pathway (GO:0097191)|eye development (GO:0001654)|face morphogenesis (GO:0060325)|generation of neurons (GO:0048699)|glial cell migration (GO:0008347)|hair follicle development (GO:0001942)|hair follicle morphogenesis (GO:0031069)|heart development (GO:0007507)|heart morphogenesis (GO:0003007)|hemopoiesis (GO:0030097)|menstrual cycle phase (GO:0022601)|negative regulation of alkaline phosphatase activity (GO:0010693)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of immune response (GO:0050777)|negative regulation of macrophage cytokine production (GO:0010936)|neuron development (GO:0048666)|neuron fate commitment (GO:0048663)|neutrophil chemotaxis (GO:0030593)|odontogenesis (GO:0042476)|pathway-restricted SMAD protein phosphorylation (GO:0060389)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of activation-induced cell death of T cells (GO:0070237)|positive regulation of cardioblast differentiation (GO:0051891)|positive regulation of catagen (GO:0051795)|positive regulation of cell adhesion mediated by integrin (GO:0033630)|positive regulation of cell cycle (GO:0045787)|positive regulation of cell division (GO:0051781)|positive regulation of cell growth (GO:0030307)|positive regulation of cell proliferation (GO:0008284)|positive regulation of epithelial cell migration (GO:0010634)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001241)|positive regulation of gene expression (GO:0010628)|positive regulation of heart contraction (GO:0045823)|positive regulation of immune response (GO:0050778)|positive regulation of integrin biosynthetic process (GO:0045726)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of ossification (GO:0045778)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein secretion (GO:0050714)|positive regulation of stress-activated MAPK cascade (GO:0032874)|protein phosphorylation (GO:0006468)|regulation of transforming growth factor beta2 production (GO:0032909)|response to drug (GO:0042493)|response to hypoxia (GO:0001666)|response to progesterone (GO:0032570)|response to wounding (GO:0009611)|salivary gland morphogenesis (GO:0007435)|signal transduction by phosphorylation (GO:0023014)|SMAD protein import into nucleus (GO:0007184)|somatic stem cell division (GO:0048103)|transforming growth factor beta receptor signaling pathway (GO:0007179)|wound healing (GO:0042060)	axon (GO:0030424)|endosome (GO:0005768)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|neuronal cell body (GO:0043025)|platelet alpha granule lumen (GO:0031093)	beta-amyloid binding (GO:0001540)|cytokine activity (GO:0005125)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)|receptor signaling protein serine/threonine kinase activity (GO:0004702)|transforming growth factor beta receptor binding (GO:0005160)|type II transforming growth factor beta receptor binding (GO:0005114)			breast(1)|endometrium(1)|large_intestine(11)|lung(15)|upper_aerodigestive_tract(2)|urinary_tract(1)	31				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		GCAGATCCTGAGCAAGCTGAA	0.592																																																0													79	81	80					1																	218520179		2203	4300	6503	SO:0001583	missense	7042			M19154	CCDS1521.1, CCDS44318.1	1q41	2014-01-30			ENSG00000092969	ENSG00000092969		"Endogenous ligands"	11768	protein-coding gene	gene with protein product	"prepro-transforming growth factor beta-2"	190220					Standard	NM_003238		Approved		uc001hln.3	P61812	OTTHUMG00000039521	ENST00000366930.4:c.136A>G	1.37:g.218520179A>G	ENSP00000355897:p.Ser46Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DKC5|P08112|Q15579|Q15581|Q4VAV9	Missense_Mutation	SNP	ENST00000366930.4	37	CCDS1521.1	.	.	.	.	.	.	.	.	.	.	A	32	5.138115	0.94560	.	.	ENSG00000092969	ENST00000366930;ENST00000366929	T;T	0.69806	-0.43;-0.43	5.98	5.98	0.97165	Transforming growth factor-beta, N-terminal (1);	0.000000	0.85682	D	0.000000	D	0.83778	0.5328	M	0.86268	2.805	0.80722	D	1	D;D;D	0.89917	0.991;0.999;1.0	D;D;D	0.79108	0.951;0.986;0.992	D	0.86378	0.1727	10	0.87932	D	0	.	16.4578	0.84025	1.0:0.0:0.0:0.0	.	46;46;47	P61812-2;P61812;Q59EG9	.;TGFB2_HUMAN;.	G	46	ENSP00000355897:S46G;ENSP00000355896:S46G	ENSP00000355896:S46G	S	+	1	0	TGFB2	216586802	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.305000	0.96197	2.288000	0.76882	0.482000	0.46254	AGC		0.592	TGFB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000095359.2	NM_003238		G	218520179	A	G	218520179	3	3	661	1	0	0	0	0	1	0	0	0	15830	304	11	3	138	3	TGFB2	1	218520179	Missense_Mutation	SNP	A	TCGA-KN-8425-01A-11D-2310-10	66334132	218520179	30730442	6	41024										
PLB1	151056	bcgsc.ca	37	chr2	28812354	28812354	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gattgagagtgggcgatatgAcacaagggaagattttactg	14	4	0	3			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr2:28812354A>G	ENST00000327757.5	+	27	1897	c.1853A>G	c.(1852-1854)gAc>gGc	p.D618G	PLB1_ENST00000422425.2_Missense_Mutation_p.D607G|PLB1_ENST00000329020.6_Missense_Mutation_p.D306G	NM_153021.4	NP_694566.4	Q6P1J6	PLB1_HUMAN	phospholipase B1	618	4 X 308-326 AA approximate repeats.				glycerophospholipid biosynthetic process (GO:0046474)|lipid catabolic process (GO:0016042)|phosphatidylcholine acyl-chain remodeling (GO:0036151)|phospholipid metabolic process (GO:0006644)|phototransduction, visible light (GO:0007603)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	lysophospholipase activity (GO:0004622)|phospholipase A2 activity (GO:0004623)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(10)|lung(31)|ovary(6)|prostate(1)|skin(7)|stomach(2)	69	Acute lymphoblastic leukemia(172;0.155)					GGGCGATATGACACAAGGGAA	0.478																																																0													132	116	122					2																	28812354		2203	4300	6503	SO:0001583	missense	151056				CCDS33168.1, CCDS54340.1	2p23.3	2014-03-14			ENSG00000163803	ENSG00000163803	3.1.1.4, 3.1.1.5		30041	protein-coding gene	gene with protein product		610179				12150957	Standard	NM_153021		Approved	PLB, FLJ30866	uc002rmb.2	Q6P1J6	OTTHUMG00000152014	ENST00000327757.5:c.1853A>G	2.37:g.28812354A>G	ENSP00000330442:p.Asp618Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAX2|Q53S03|Q8IUP7|Q96DP9	Missense_Mutation	SNP	ENST00000327757.5	37	CCDS33168.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	17.33|17.33	3.363343|3.363343	0.61513|0.61513	.|.	.|.	ENSG00000163803|ENSG00000163803	ENST00000327757;ENST00000422425;ENST00000436544;ENST00000329020|ENST00000404858	T;T;T;T|.	0.55930|.	0.49;0.49;0.49;0.49|.	5.99|5.99	5.99|5.99	0.97316|0.97316	Esterase, SGNH hydrolase-type (1);Esterase, SGNH hydrolase-type, subgroup (1);Lipase, GDSL (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.78521|0.78521	0.4296|0.4296	M|M	0.85197|0.85197	2.74|2.74	0.80722|0.80722	D|D	1|1	D;D;D;P|.	0.89917|.	0.997;1.0;0.963;0.745|.	D;D;P;P|.	0.91635|.	0.98;0.999;0.779;0.74|.	T|T	0.80881|0.80881	-0.1184|-0.1184	10|5	0.33141|.	T|.	0.24|.	-35.3349|-35.3349	14.0175|14.0175	0.64533|0.64533	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	607;618;306;618|.	Q6P1J6-3;Q6P1J6-4;Q6P1J6-2;Q6P1J6|.	.;.;.;PLB1_HUMAN|.	G|A	618;607;328;306|606	ENSP00000330442:D618G;ENSP00000416440:D607G;ENSP00000392493:D328G;ENSP00000330729:D306G|.	ENSP00000330442:D618G|.	D|T	+|+	2|1	0|0	PLB1|PLB1	28665858|28665858	1.000000|1.000000	0.71417|0.71417	0.997000|0.997000	0.53966|0.53966	0.075000|0.075000	0.17131|0.17131	7.863000|7.863000	0.87023|0.87023	2.291000|2.291000	0.77112|0.77112	0.533000|0.533000	0.62120|0.62120	GAC|ACA		0.478	PLB1-012	NOVEL	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000353348.2			G	28812354	A	G	28812354	3	3	661	1	0	0	0	0	1	0	0	0	12031	275	10	3	1992	3	PLB1	2	28812354	Missense_Mutation	SNP	A	TCGA-KN-8425-01A-11D-2310-10		28812354	214387019	7	41025										
PSD4	23550	broad.mit.edu	37	chr2	113940985	113940985	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	ctatcagtgggcattgtaccCctccattccctgtgcccatc	7	16	1	0	rs148062987	byFrequency	TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr2:113940985C>T	ENST00000245796.6	+	2	1147	c.952C>T	c.(952-954)Cct>Tct	p.P318S	PSD4_ENST00000441564.3_Missense_Mutation_p.P318S	NM_012455.2	NP_036587.2	Q8NDX1	PSD4_HUMAN	pleckstrin and Sec7 domain containing 4	318					neuron differentiation (GO:0030182)|positive regulation of GTPase activity (GO:0043547)|regulation of ARF protein signal transduction (GO:0032012)	cell junction (GO:0030054)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|phospholipid binding (GO:0005543)			cervix(1)|endometrium(2)|large_intestine(4)|lung(13)|ovary(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29						GCATTGTACCCCTCCATTCCC	0.617																																																0													61	52	55					2																	113940985		2203	4300	6503	SO:0001583	missense	23550			U63127	CCDS33276.1	2q13	2013-01-10			ENSG00000125637	ENSG00000125637		"Pleckstrin homology (PH) domain containing"	19096	protein-coding gene	gene with protein product		614442				12082148	Standard	XM_005263634		Approved	TIC, EFA6B	uc002tjc.3	Q8NDX1	OTTHUMG00000153339	ENST00000245796.6:c.952C>T	2.37:g.113940985C>T	ENSP00000245796:p.Pro318Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEG7|A8K1Y0|O95621|Q4ZG34|Q6GPH8|Q8IYP4	Missense_Mutation	SNP	ENST00000245796.6	37	CCDS33276.1	.	.	.	.	.	.	.	.	.	.	C	24.1	4.488476	0.84854	.	.	ENSG00000125637	ENST00000245796;ENST00000441564	T;T	0.12465	2.78;2.68	5.83	5.83	0.93111	.	0.655300	0.14825	N	0.296217	T	0.27765	0.0683	L	0.32530	0.975	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.76575	0.988;0.984	T	0.00373	-1.1781	9	.	.	.	.	15.6209	0.76805	0.0:1.0:0.0:0.0	.	318;318	Q8NDX1-2;Q8NDX1	.;PSD4_HUMAN	S	318	ENSP00000245796:P318S;ENSP00000413997:P318S	.	P	+	1	0	PSD4	113657456	0.253000	0.23982	0.287000	0.24848	0.340000	0.28889	2.065000	0.41442	2.758000	0.94735	0.655000	0.94253	CCT		0.617	PSD4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000330789.1	NM_012455		T	113940985	C	T	113940985	3	4	661	1	0	0	0	0	1	0	0	0	12659	623	22	2	954	2	PSD4	2	113940985	Missense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10	85128631	113940985	129258388	8	41026										
SLC16A14	151473	bcgsc.ca	37	chr2	230911292	230911292	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	attcctccagccgtactctgCgcacaggtacttcagcagca	8	15	2	0	rs62191755	byFrequency	TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr2:230911292C>A	ENST00000295190.4	-	4	1008	c.550G>T	c.(550-552)Gca>Tca	p.A184S		NM_152527.4	NP_689740.2	Q7RTX9	MOT14_HUMAN	solute carrier family 16, member 14	184						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	symporter activity (GO:0015293)			NS(1)|cervix(1)|endometrium(7)|large_intestine(7)|lung(3)|ovary(5)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	28		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		CCGTACTCTGCGCACAGGTAC	0.572													C|||	45	0.00898562	0.003	0.0144	5008	,	,		19289	0.0		0.0258	False		,,,				2504	0.0051															0								C	SER/ALA	17,4389	24.3+/-50.5	0,17,2186	92	90	91		550	0.5	0.3	2	dbSNP_129	91	200,8400	87.1+/-149.5	1,198,4101	yes	missense	SLC16A14	NM_152527.4	99	1,215,6287	AA,AC,CC		2.3256,0.3858,1.6685	benign	184/511	230911292	217,12789	2203	4300	6503	SO:0001583	missense	151473			BN000146	CCDS2473.1	2q37.1	2013-07-18	2013-07-18		ENSG00000163053	ENSG00000163053		"Solute carriers"	26417	protein-coding gene	gene with protein product	"monocarboxylic acid transporter 14"		"solute carrier family 16 (monocarboxylic acid transporters), member 14"				Standard	NM_152527		Approved	FLJ30794, MCT14	uc002vqd.2	Q7RTX9	OTTHUMG00000133205	ENST00000295190.4:c.550G>T	2.37:g.230911292C>A	ENSP00000295190:p.Ala184Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA08|Q53R92|Q96NI7	Missense_Mutation	SNP	ENST00000295190.4	37	CCDS2473.1	29	0.013278388278388278	4	0.008130081300813009	5	0.013812154696132596	0	0.0	20	0.026385224274406333	C	5.596	0.294816	0.10567	0.003858	0.023256	ENSG00000163053	ENST00000295190;ENST00000457406;ENST00000412034	T;T;T	0.55930	0.49;0.49;0.49	4.94	0.515	0.17013	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.712084	0.13251	N	0.402103	T	0.09730	0.0239	N	0.12422	0.21	0.09310	N	1	B;B	0.18310	0.027;0.027	B;B	0.24394	0.026;0.053	T	0.09751	-1.0660	10	0.23891	T	0.37	.	0.7198	0.00938	0.4247:0.2031:0.1266:0.2456	rs62191755	184;184	E7EMG7;Q7RTX9	.;MOT14_HUMAN	S	184	ENSP00000295190:A184S;ENSP00000400352:A184S;ENSP00000395775:A184S	ENSP00000295190:A184S	A	-	1	0	SLC16A14	230619536	0.007000	0.16637	0.290000	0.24890	0.940000	0.58332	0.271000	0.18626	0.229000	0.21039	0.655000	0.94253	GCA		0.572	SLC16A14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256918.2	NM_152527		A	230911292	C	A	230911292	3	1	661	1	0	0	0	0	1	0	0	0	14420	768	27	4	990	4	SLC16A14	2	230911292	Missense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10	116970307	230911292	12288081	9	41027										
DOCK3	1795	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	51251628	51251628	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	aaatcccatgatatttaataGgggattggcaattacaagaa	8	5	0	2			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr3:51251628G>A	ENST00000266037.9	+	14	1225	c.1202G>A	c.(1201-1203)aGg>aAg	p.R401K		NM_004947.4	NP_004938.1	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	401					small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)	guanyl-nucleotide exchange factor activity (GO:0005085)			breast(2)|cervix(1)|endometrium(10)|kidney(4)|lung(22)|prostate(5)|urinary_tract(1)	45				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		ATATTTAATAGGGGATTGGCA	0.413																																																0													80	77	78					3																	51251628		1864	4117	5981	SO:0001583	missense	1795			AB002297	CCDS46835.1	3p21	2008-02-01			ENSG00000088538	ENSG00000088538			2989	protein-coding gene	gene with protein product		603123	"dedicator of cyto-kinesis 3"			9205841	Standard	NM_004947		Approved	KIAA0299, MOCA, PBP	uc011bds.2	Q8IZD9	OTTHUMG00000156892	ENST00000266037.9:c.1202G>A	3.37:g.51251628G>A	ENSP00000266037:p.Arg401Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O15017	Missense_Mutation	SNP	ENST00000266037.9	37	CCDS46835.1	.	.	.	.	.	.	.	.	.	.	G	18.48	3.633166	0.67015	.	.	ENSG00000088538	ENST00000266037	T	0.05382	3.45	5.35	5.35	0.76521	.	0.000000	0.85682	D	0.000000	T	0.08268	0.0206	L	0.47716	1.5	0.58432	D	0.999999	B	0.06786	0.001	B	0.08055	0.003	T	0.29366	-1.0014	10	0.11485	T	0.65	.	19.4352	0.94788	0.0:0.0:1.0:0.0	.	401	Q8IZD9	DOCK3_HUMAN	K	401	ENSP00000266037:R401K	ENSP00000266037:R401K	R	+	2	0	DOCK3	51226668	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.382000	0.79729	2.668000	0.90789	0.655000	0.94253	AGG		0.413	DOCK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346478.5	NM_004947		A	51251628	G	A	51251628	3	1	661	1	0	0	0	0	1	0	0	0	4690	1000	35	2	1256	2	DOCK3	3	51251628	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10		51251628	146770802	10	41028										
CNTN3	5067	broad.mit.edu	37	chr3	74570232	74570232	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	ctaagcagccaatgaatgaaAgcaggatcaactgtttccat	8	9	1	2			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr3:74570232A>G	ENST00000263665.6	-	1	59	c.32T>C	c.(31-33)cTt>cCt	p.L11P		NM_020872.1	NP_065923.1	Q9P232	CNTN3_HUMAN	contactin 3 (plasmacytoma associated)	11					cell adhesion (GO:0007155)|nervous system development (GO:0007399)	anchored component of membrane (GO:0031225)|plasma membrane (GO:0005886)				NS(2)|breast(4)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(14)|lung(39)|ovary(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	83		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)		AATGAATGAAAGCAGGATCAA	0.343																																																0													82	82	82					3																	74570232		2203	4299	6502	SO:0001583	missense	5067			AB040929	CCDS33790.1	3p12.3	2013-02-11			ENSG00000113805	ENSG00000113805		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	2173	protein-coding gene	gene with protein product		601325		PANG		8661054, 8586965	Standard	XM_005264757		Approved	BIG-1	uc003dpm.1	Q9P232	OTTHUMG00000158813	ENST00000263665.6:c.32T>C	3.37:g.74570232A>G	ENSP00000263665:p.Leu11Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B9EK50|Q9H039	Missense_Mutation	SNP	ENST00000263665.6	37	CCDS33790.1	.	.	.	.	.	.	.	.	.	.	A	8.229	0.804189	0.16467	.	.	ENSG00000113805	ENST00000263665	T	0.61859	0.07	5.2	5.2	0.72013	.	0.000000	0.56097	D	0.000021	T	0.55000	0.1893	M	0.68317	2.08	0.50632	D	0.999886	B	0.22480	0.07	B	0.18871	0.023	T	0.56238	-0.8012	10	0.52906	T	0.07	.	11.4879	0.50365	1.0:0.0:0.0:0.0	.	11	Q9P232	CNTN3_HUMAN	P	11	ENSP00000263665:L11P	ENSP00000263665:L11P	L	-	2	0	CNTN3	74652922	1.000000	0.71417	0.963000	0.40424	0.310000	0.27922	5.285000	0.65633	1.969000	0.57287	0.477000	0.44152	CTT		0.343	CNTN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352306.1	NM_020872		G	74570232	A	G	74570232	3	3	661	1	0	0	0	0	1	0	0	0	3644	72	3	3	3142	3	CNTN3	3	74570232	Missense_Mutation	SNP	A	TCGA-KN-8425-01A-11D-2310-10	23318604	74570232	123452198	11	41029										
ZBTB20	26137	broad.mit.edu	37	chr3	114070436	114070436	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gcttccgactgcgagacccgTagcacgccgctgtacatgaa	11	14	0	2			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr3:114070436T>C	ENST00000474710.1	-	4	667	c.489A>G	c.(487-489)ctA>ctG	p.L163L	ZBTB20_ENST00000481632.1_Silent_p.L90L|ZBTB20_ENST00000357258.3_Silent_p.L90L|ZBTB20_ENST00000393785.2_Silent_p.L90L|ZBTB20_ENST00000471418.1_Silent_p.L90L|ZBTB20_ENST00000464560.1_Silent_p.L90L|ZBTB20-AS1_ENST00000467304.1_RNA|ZBTB20-AS1_ENST00000475939.1_RNA|ZBTB20-AS1_ENST00000496219.1_RNA|ZBTB20_ENST00000462705.1_Silent_p.L90L	NM_001164342.1	NP_001157814.1	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20	163	BTB. {ECO:0000255|PROSITE- ProRule:PRU00037}.					nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)			breast(1)|central_nervous_system(1)|endometrium(10)|kidney(2)|large_intestine(8)|lung(15)|ovary(4)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	48				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GCGAGACCCGTAGCACGCCGC	0.567																																					NSCLC(69;748 1344 9802 11203 30933)											0													81	69	73					3																	114070436		2203	4300	6503	SO:0001819	synonymous_variant	26137			AF139460	CCDS2981.1, CCDS54626.1	3q13.2	2013-01-08	2004-07-16	2004-07-16	ENSG00000181722	ENSG00000181722		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	13503	protein-coding gene	gene with protein product		606025	"zinc finger protein 288"	ZNF288		10965110, 11352661	Standard	XM_005247339		Approved	ODA-8S, DKFZp566F123, DPZF	uc003ebi.3	Q9HC78	OTTHUMG00000159366	ENST00000474710.1:c.489A>G	3.37:g.114070436T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q63HP6|Q8N6R5|Q9Y410	Silent	SNP	ENST00000474710.1	37	CCDS54626.1																																																																																				0.567	ZBTB20-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000354951.1	NM_015642		C	114070436	T	C	114070436	2	2	661	1	0	0	0	0	0	0	0	1	17541	1625	57	3		3	ZBTB20	3	114070436	Silent	SNP	T	TCGA-KN-8425-01A-11D-2310-10	39500204	114070436	83951994	12	41030										
ARHGAP24	83478	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr4	86863259	86863259	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gaggatactgttcgttatgaGaagagatatgggaaccgtct	13	5	1	2			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr4:86863259G>T	ENST00000395184.1	+	5	898	c.432G>T	c.(430-432)gaG>gaT	p.E144D	ARHGAP24_ENST00000503995.1_Missense_Mutation_p.E144D|ARHGAP24_ENST00000395183.2_Missense_Mutation_p.E49D|ARHGAP24_ENST00000264343.4_Missense_Mutation_p.E51D	NM_001025616.2	NP_001020787.2	Q8N264	RHG24_HUMAN	Rho GTPase activating protein 24	144	Rho-GAP. {ECO:0000255|PROSITE- ProRule:PRU00172}.				activation of Rac GTPase activity (GO:0032863)|angiogenesis (GO:0001525)|cell differentiation (GO:0030154)|negative regulation of Rac protein signal transduction (GO:0035021)|negative regulation of ruffle assembly (GO:1900028)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|wound healing, spreading of epidermal cells (GO:0035313)	cell projection (GO:0042995)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|focal adhesion (GO:0005925)	Rac GTPase activator activity (GO:0030675)			breast(3)|cervix(1)|endometrium(3)|large_intestine(4)|lung(10)|skin(1)|stomach(1)|urinary_tract(1)	24		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)		TTCGTTATGAGAAGAGATATG	0.448																																																0													86	84	85					4																	86863259		2203	4300	6503	SO:0001583	missense	83478			AK091196	CCDS3611.1, CCDS34025.1, CCDS43246.1	4q22.1	2013-01-10			ENSG00000138639	ENSG00000138639		"Rho GTPase activating proteins", "Pleckstrin homology (PH) domain containing"	25361	protein-coding gene	gene with protein product		610586				11230166, 15254788	Standard	NM_001042669		Approved	DKFZP564B1162, FLJ33877, FilGAP	uc003hpk.3	Q8N264	OTTHUMG00000130427	ENST00000395184.1:c.432G>T	4.37:g.86863259G>T	ENSP00000378611:p.Glu144Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q4KMG1|Q6ZNV3|Q86TI5|Q86WE4|Q9H0T6	Missense_Mutation	SNP	ENST00000395184.1	37	CCDS34025.1	.	.	.	.	.	.	.	.	.	.	G	16.82	3.229271	0.58777	.	.	ENSG00000138639	ENST00000395184;ENST00000503995;ENST00000512201;ENST00000395183;ENST00000509300;ENST00000514229;ENST00000264343	T;T;T;T;T;T;T	0.43294	0.95;0.95;0.95;0.95;0.95;0.95;0.95	5.98	4.24	0.50183	Rho GTPase-activating protein domain (2);Rho GTPase activation protein (1);	0.000000	0.85682	D	0.000000	T	0.54902	0.1887	L	0.51853	1.615	0.54753	D	0.999982	D;P;P;P	0.69078	0.997;0.931;0.849;0.694	D;P;B;P	0.66497	0.944;0.857;0.271;0.683	T	0.51639	-0.8680	10	0.41790	T	0.15	.	12.9494	0.58391	0.1326:0.0:0.8674:0.0	.	49;51;144;144	Q8N264-3;Q8N264-2;Q8N264;Q8N264-4	.;.;RHG24_HUMAN;.	D	144;144;49;49;18;59;51	ENSP00000378611:E144D;ENSP00000423206:E144D;ENSP00000426105:E49D;ENSP00000378610:E49D;ENSP00000424256:E18D;ENSP00000425589:E59D;ENSP00000264343:E51D	ENSP00000264343:E51D	E	+	3	2	ARHGAP24	87082283	1.000000	0.71417	1.000000	0.80357	0.971000	0.66376	1.880000	0.39628	0.841000	0.35020	0.650000	0.86243	GAG		0.448	ARHGAP24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252815.2	NM_031305		T	86863259	G	T	86863259	3	4	661	1	0	0	0	0	1	0	0	0	873	933	33	4	562	4	ARHGAP24	4	86863259	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10		86863259	104291017	13	41031										
AFF1	4299	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr4	87967367	87967367	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gaattagagagaaggaaagaCgcaaccaggaagcccaccaa	11	9	0	3			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr4:87967367C>T	ENST00000307808.6	+	2	487	c.67C>T	c.(67-69)Cgc>Tgc	p.R23C	AFF1_ENST00000544085.1_Intron|AFF1_ENST00000395146.4_Missense_Mutation_p.R30C	NM_005935.2	NP_005926.1	P51825	AFF1_HUMAN	AF4/FMR2 family, member 1	23					positive regulation of transcription, DNA-templated (GO:0045893)	transcription elongation factor complex (GO:0008023)	sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|large_intestine(2)	3		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		GAAGGAAAGACGCAACCAGGA	0.403																																																0													110	109	109					4																	87967367		2203	4300	6503	SO:0001583	missense	4299			L22179	CCDS3616.1, CCDS54775.1	4q21.3	2009-08-04	2005-06-27	2005-06-27	ENSG00000172493	ENSG00000172493			7135	protein-coding gene	gene with protein product		159557	"myeloid/lymphoid or mixed-lineage leukemia (trithorax (Drosophila) homolog); translocated to, 2", "pre-B-cell monocytic leukemia partner 1"	PBM1, MLLT2		7689231, 1423625, 8353274	Standard	NM_005935		Approved	AF-4, AF4	uc011ccz.2	P51825	OTTHUMG00000130603	ENST00000307808.6:c.67C>T	4.37:g.87967367C>T	ENSP00000305689:p.Arg23Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTU1|E9PBM3	Missense_Mutation	SNP	ENST00000307808.6	37	CCDS3616.1	.	.	.	.	.	.	.	.	.	.	C	20.4	3.984267	0.74474	.	.	ENSG00000172493	ENST00000395146;ENST00000395142;ENST00000507468;ENST00000503477;ENST00000307808	T;T;T;T	0.78816	-1.21;-1.21;-1.21;-1.21	5.73	5.73	0.89815	.	0.000000	0.85682	D	0.000000	D	0.89072	0.6611	M	0.84683	2.71	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.91635	0.999;0.999;0.999;0.999;0.999	D	0.90059	0.4155	10	0.87932	D	0	-27.6095	15.5699	0.76326	0.2016:0.7984:0.0:0.0	.	30;30;23;23;30	E9PBM3;B4DXZ8;Q14C88;P51825;B4DTU1	.;.;.;AFF1_HUMAN;.	C	30;30;30;30;23	ENSP00000378578:R30C;ENSP00000427593:R30C;ENSP00000424483:R30C;ENSP00000305689:R23C	ENSP00000305689:R23C	R	+	1	0	AFF1	88186391	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	1.919000	0.40015	2.854000	0.98071	0.655000	0.94253	CGC		0.403	AFF1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000253053.3	NM_005935		T	87967367	C	T	87967367	3	4	661	1	0	0	0	0	1	0	0	0	356	536	19	1	115	1	AFF1	4	87967367	Missense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10	1104108	87967367	103186909	14	41032										
IRF2	3660	broad.mit.edu	37	chr4	185339717	185339717	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	ggccgttctgataggggcagCattcggtagaccctgaaggc	15	10	1	3			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr4:185339717C>A	ENST00000393593.3	-	4	540	c.333G>T	c.(331-333)atG>atT	p.M111I	IRF2_ENST00000512020.1_5'UTR	NM_002199.3	NP_002190.2	P14316	IRF2_HUMAN	interferon regulatory factor 2	111					blood coagulation (GO:0007596)|cell proliferation (GO:0008283)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)|type I interferon signaling pathway (GO:0060337)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|regulatory region DNA binding (GO:0000975)|sequence-specific DNA binding transcription factor activity (GO:0003700)			cervix(1)|endometrium(2)|kidney(1)|large_intestine(4)|liver(2)|lung(3)|ovary(2)|prostate(1)|skin(3)|stomach(1)|urinary_tract(2)	22		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		ATAGGGGCAGCATTCGGTAGA	0.403																																																0													152	145	148					4																	185339717		2203	4300	6503	SO:0001583	missense	3660				CCDS3835.1	4q34.1-q35.1	2008-07-29				ENSG00000168310			6117	protein-coding gene	gene with protein product		147576				2475256	Standard	NM_002199		Approved		uc003iwf.4	P14316		ENST00000393593.3:c.333G>T	4.37:g.185339717C>A	ENSP00000377218:p.Met111Ile	Somatic		WXS	Illumina HiSeq	Phase_I	D6RCK5|H0Y8S3|Q6IAS7|Q96B99	Missense_Mutation	SNP	ENST00000393593.3	37	CCDS3835.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	23.1|23.1	4.378734|4.378734	0.82682|0.82682	.|.	.|.	ENSG00000168310|ENSG00000168310	ENST00000505067|ENST00000393593;ENST00000502750;ENST00000507523;ENST00000510814;ENST00000506230;ENST00000505316	.|D;D;D;D;D	.|0.97404	.|-4.37;-1.52;-4.37;-4.37;-4.37	4.98|4.98	4.98|4.98	0.66077|0.66077	.|Winged helix-turn-helix transcription repressor DNA-binding (1);Interferon regulatory factor DNA-binding domain (3);	.|0.073994	.|0.85682	.|D	.|0.000000	D|D	0.97096|0.97096	0.9051|0.9051	L|L	0.31207|0.31207	0.915|0.915	0.80722|0.80722	D|D	1|1	.|D	.|0.62365	.|0.991	.|D	.|0.70487	.|0.969	D|D	0.97237|0.97237	0.9888|0.9888	5|10	.|0.48119	.|T	.|0.1	-13.3126|-13.3126	18.7969|18.7969	0.91997|0.91997	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|111	.|P14316	.|IRF2_HUMAN	S|I	10|111;23;111;111;111;111	.|ENSP00000377218:M111I;ENSP00000423074:M23I;ENSP00000427204:M111I;ENSP00000424552:M111I;ENSP00000422860:M111I	.|ENSP00000377218:M111I	A|M	-|-	1|3	0|0	IRF2|IRF2	185576711|185576711	1.000000|1.000000	0.71417|0.71417	0.972000|0.972000	0.41901|0.41901	0.692000|0.692000	0.40212|0.40212	7.600000|7.600000	0.82769|0.82769	2.750000|2.750000	0.94351|0.94351	0.655000|0.655000	0.94253|0.94253	GCT|ATG		0.403	IRF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361393.1			A	185339717	C	A	185339717	3	1	661	1	0	0	0	0	1	0	0	0	7835	710	25	4	740	4	IRF2	4	185339717	Missense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10	97372350	185339717	5814559	15	41033										
ADAMTS12	81792	broad.mit.edu	37	chr5	33881393	33881393	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	aaagaaatccttgattgaccGtcaagttaaaaaacaggtcc	7	8	1	3	rs201373627		TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr5:33881393G>A	ENST00000504830.1	-	2	655	c.320C>T	c.(319-321)aCg>aTg	p.T107M	ADAMTS12_ENST00000352040.3_Missense_Mutation_p.T107M|ADAMTS12_ENST00000515401.1_Missense_Mutation_p.T107M	NM_030955.2	NP_112217.2	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 12	107					cell migration (GO:0016477)|cell-matrix adhesion (GO:0007160)|cellular response to BMP stimulus (GO:0071773)|cellular response to interleukin-1 (GO:0071347)|cellular response to tumor necrosis factor (GO:0071356)|negative regulation of cellular response to hepatocyte growth factor stimulus (GO:2001113)|negative regulation of cellular response to vascular endothelial growth factor stimulus (GO:1902548)|negative regulation of chondrocyte differentiation (GO:0032331)|negative regulation of hepatocyte growth factor receptor signaling pathway (GO:1902203)|proteoglycan catabolic process (GO:0030167)|proteolysis involved in cellular protein catabolic process (GO:0051603)|regulation of endothelial tube morphogenesis (GO:1901509)|regulation of inflammatory response (GO:0050727)	extracellular matrix (GO:0031012)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			NS(1)|breast(7)|central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(11)|large_intestine(31)|liver(1)|lung(135)|ovary(4)|prostate(1)|skin(6)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(5)	216						TTGATTGACCGTCAAGTTAAA	0.478										HNSCC(64;0.19)			G|||	1	0.000199681	0.0	0.0	5008	,	,		20736	0.001		0.0	False		,,,				2504	0.0															0								G	MET/THR	0,4406		0,0,2203	125	120	121		320	5.7	1	5		121	1,8599	1.2+/-3.3	0,1,4299	no	missense	ADAMTS12	NM_030955.2	81	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	107/1595	33881393	1,13005	2203	4300	6503	SO:0001583	missense	81792			AJ250725	CCDS34140.1	5q35	2008-07-18	2005-08-19		ENSG00000151388	ENSG00000151388		"ADAM metallopeptidases with thrombospondin type 1 motif"	14605	protein-coding gene	gene with protein product		606184	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 12"			11279086	Standard	NM_030955		Approved		uc003jia.1	P58397	OTTHUMG00000162088	ENST00000504830.1:c.320C>T	5.37:g.33881393G>A	ENSP00000422554:p.Thr107Met	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRN9|A5D6V6|Q6UWL3	Missense_Mutation	SNP	ENST00000504830.1	37	CCDS34140.1	.	.	.	.	.	.	.	.	.	.	G	18.14	3.556990	0.65425	0.0	1.16E-4	ENSG00000151388	ENST00000504830;ENST00000352040;ENST00000515401	T;T;T	0.06608	3.28;3.28;3.28	5.65	5.65	0.86999	Peptidase M12B, propeptide (1);	0.059724	0.64402	D	0.000004	T	0.27967	0.0689	M	0.73598	2.24	0.35388	D	0.79053	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.78314	0.963;0.991;0.982	T	0.11060	-1.0603	10	0.87932	D	0	.	19.734	0.96193	0.0:0.0:1.0:0.0	.	107;107;107	P58397-3;D6REX0;P58397	.;.;ATS12_HUMAN	M	107	ENSP00000422554:T107M;ENSP00000344847:T107M;ENSP00000421638:T107M	ENSP00000344847:T107M	T	-	2	0	ADAMTS12	33917150	1.000000	0.71417	0.952000	0.39060	0.737000	0.42083	5.157000	0.64911	2.670000	0.90874	0.467000	0.42956	ACG		0.478	ADAMTS12-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367164.2	NM_030955		A	33881393	G	A	33881393	3	1	661	1	0	0	0	0	1	0	0	0	257	1145	40	1	4556	1	ADAMTS12	5	33881393	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10		33881393	147033867	16	41034										
ZNF391	346157	broad.mit.edu	37	chr6	27368216	27368216	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	aagactataaaaacgaaggcCaattatcaaggcaaacaaaa	6	7	1	1			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr6:27368216C>T	ENST00000244576.4	+	3	612	c.67C>T	c.(67-69)Caa>Taa	p.Q23*		NM_001076781.1	NP_001070249.1	Q9UJN7	ZN391_HUMAN	zinc finger protein 391	23					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(2)|large_intestine(6)|lung(7)|pancreas(2)|skin(3)|upper_aerodigestive_tract(1)	21						AAACGAAGGCCAATTATCAAG	0.413																																																0													110	101	104					6																	27368216		1852	4099	5951	SO:0001587	stop_gained	346157			BC132797	CCDS43429.1	6p21	2013-01-08			ENSG00000124613	ENSG00000124613		"Zinc fingers, C2H2-type"	18779	protein-coding gene	gene with protein product							Standard	NM_001076781		Approved	dJ153G14.3	uc003njf.1	Q9UJN7	OTTHUMG00000014477	ENST00000244576.4:c.67C>T	6.37:g.27368216C>T	ENSP00000244576:p.Gln23*	Somatic		WXS	Illumina HiSeq	Phase_I	B4DH77	Nonsense_Mutation	SNP	ENST00000244576.4	37	CCDS43429.1	.	.	.	.	.	.	.	.	.	.	C	12.28	1.889974	0.33348	.	.	ENSG00000124613	ENST00000244576;ENST00000461521	.	.	.	3.74	0.479	0.16796	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.06365	T	0.9	.	5.7265	0.18017	0.3487:0.5442:0.0:0.1071	.	.	.	.	X	23	.	ENSP00000244576:Q23X	Q	+	1	0	ZNF391	27476195	0.165000	0.22948	0.002000	0.10522	0.010000	0.07245	0.746000	0.26275	0.246000	0.21394	0.655000	0.94253	CAA		0.413	ZNF391-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040145.2	NM_001076781		T	27368216	C	T	27368216	4	4	661	1	0	0	0	0	0	1	0	0	17891	595	21	2	69	2	ZNF391	6	27368216	Nonsense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10		27368216	143746851	17	41035										
HLA-A	3105	mdanderson.org	37	chr6	29912333	29912333	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tcattgctggcctggttctcCttggagctgtgatcactgga	12	10	3	1	rs3179982	byFrequency	TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr6:29912333C>T	ENST00000396634.1	+	7	1293	c.952C>T	c.(952-954)Ctt>Ttt	p.L318F	HLA-A_ENST00000376802.2_Intron|HLA-A_ENST00000376809.5_Missense_Mutation_p.L318F|HLA-A_ENST00000376806.5_Missense_Mutation_p.L318F			P16189	1A31_HUMAN	major histocompatibility complex, class I, A	318					antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	beta-2-microglobulin binding (GO:0030881)|peptide antigen binding (GO:0042605)|TAP binding (GO:0046977)			central_nervous_system(2)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	30						CCTGGTTCTCCTTGGAGCTGT	0.592									Osteosarcoma, Familial Clustering of;Naso-/Oropharyngeal/Laryngeal Cancer, Familial Clustering of;Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of	Multiple Myeloma(9;0.094)			c|||	2681	0.535343	0.6044	0.6023	5008	,	,		19739	0.4881		0.5229	False		,,,				2504	0.456															0								C	PHE/LEU	1582,1436		428,726,355	109	103	105		952	-1	0	6	dbSNP_105	105	2518,2900		666,1186,857	no	missense	HLA-A	NM_002116.7	22	1094,1912,1212	TT,TC,CC		46.4747,47.5812,48.6012	probably-damaging	318/366	29912333	4100,4336	1509	2709	4218	SO:0001583	missense	3105	Familial Cancer Database	Familial Osteogenic Sarcoma;incl.: Familial Head and Neck Cancer; ;Lichen Sclerosis, Familial	D32129	CCDS34373.1	6p21.3	2013-01-11			ENSG00000206503	ENSG00000206503		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4931	protein-coding gene	gene with protein product		142800				8838351	Standard	NM_001242758		Approved		uc003nol.3	P01891	OTTHUMG00000130501	ENST00000396634.1:c.952C>T	6.37:g.29912333C>T	ENSP00000379873:p.Leu318Phe	Somatic		WXS	Illumina HiSeq	Phase_I	O62924|O98009|O98137|Q8MHM1|Q9TPQ3|Q9TQ24|Q9UQU6|Q9UQU7	Missense_Mutation	SNP	ENST00000396634.1	37	CCDS34373.1	1165	0.5334249084249084	307	0.6239837398373984	196	0.5414364640883977	273	0.4772727272727273	389	0.5131926121372031	.	3.888	-0.024559	0.07589	0.524188	0.464747	ENSG00000206503	ENST00000396634;ENST00000376806;ENST00000376809	T;T;T	0.00995	5.49;5.46;5.49	3.13	-0.987	0.10249	.	0.308416	0.17061	U	0.188566	T	0.01353	0.0044	.	.	.	0.80722	P	0.0	B;B;D;B;B	0.71674	0.0;0.0;0.998;0.0;0.0	B;B;D;B;B	0.81914	0.001;0.004;0.995;0.004;0.001	T	0.47222	-0.9134	8	0.87932	D	0	.	6.4125	0.21698	0.0:0.4707:0.0:0.5293	rs3179982;rs3205680;rs17405339;rs17851725;rs41552629	197;318;318;318;318	B4DVB9;P16188;Q5SRN5;P30455;P04439	.;1A30_HUMAN;.;1A36_HUMAN;1A03_HUMAN	F	318	ENSP00000379873:L318F;ENSP00000366002:L318F;ENSP00000366005:L318F	ENSP00000366002:L318F	L	+	1	0	HLA-A	30020312	0.000000	0.05858	0.001000	0.08648	0.016000	0.09150	-2.297000	0.01141	-0.224000	0.09928	-0.330000	0.08379	CTT		0.592	HLA-A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252909.1	NM_002116		T	29912333	C	T	29912333	3	4	661	1	0	0	0	0	1	0	0	0	7202	681	24	2	970	2	HLA-A	6	29912333	Missense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10	2544117	29912333	141202734	18	41036										
HLA-B	3106	mdanderson.org	37	chr6	31323262	31323262	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	agtttggtcctcgccatcccGctgccaggtcagtgtgatct	11	13	2	1	rs77665001	byFrequency	TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr6:31323262G>A	ENST00000412585.2	-	4	755	c.727C>T	c.(727-729)Cgg>Tgg	p.R243W		NM_005514.6	NP_005505.2	P30486	1B48_HUMAN	major histocompatibility complex, class I, B	243	Alpha-3.|Ig-like C1-type.				antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|immune response (GO:0006955)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|viral process (GO:0016032)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|MHC class I protein complex (GO:0042612)	peptide antigen binding (GO:0042605)			endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(4)|lung(4)|prostate(1)|upper_aerodigestive_tract(2)	27						TCGCCATCCCGCTGCCAGGTC	0.597									Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of																																							0													95	88	90					6																	31323262		2203	4300	6503	SO:0001583	missense	3106	Familial Cancer Database	;Lichen Sclerosis, Familial	M15470	CCDS34394.1	6p21.3	2013-01-11			ENSG00000234745	ENSG00000234745		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4932	protein-coding gene	gene with protein product		142830	"ankylosing spondylitis"	AS		3459708	Standard	NM_005514		Approved		uc011imz.2	P01889	OTTHUMG00000031153	ENST00000412585.2:c.727C>T	6.37:g.31323262G>A	ENSP00000399168:p.Arg243Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q29764	Missense_Mutation	SNP	ENST00000412585.2	37	CCDS34394.1	133	0.060897435897435896	29	0.05894308943089431	17	0.04696132596685083	44	0.07692307692307693	43	0.05672823218997362	N	11.80	1.747791	0.30955	.	.	ENSG00000234745	ENST00000412585;ENST00000428231;ENST00000452596	T	0.03181	4.02	3.16	-0.095	0.13643	Immunoglobulin-like (1);Immunoglobulin C1-set (2);Immunoglobulin-like fold (1);	0.232653	0.21556	U	0.072641	T	0.01661	0.0053	M	0.80183	2.485	0.22989	N	0.998462	B	0.23540	0.087	B	0.14023	0.01	T	0.36504	-0.9745	10	0.72032	D	0.01	.	2.5362	0.04715	0.2793:0.0:0.3821:0.3386	.	243	P01889	1B07_HUMAN	W	243;122;122	ENSP00000399168:R243W	ENSP00000399168:R243W	R	-	1	2	HLA-B	31431241	0.022000	0.18835	0.712000	0.30502	0.703000	0.40648	0.052000	0.14163	0.183000	0.20059	0.442000	0.29010	CGG		0.597	HLA-B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076280.4	NM_005514		A	31323262	G	A	31323262	3	1	661	1	0	0	0	0	1	0	0	0	7203	1086	38	1	377	1	HLA-B	6	31323262	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10	1410929	31323262	139791805	19	41037										
GLP1R	2740	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	39040661	39040661	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	cctgcactgcaccaggaactAcatccacctgaacctgtttg	7	15	0	1			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr6:39040661A>G	ENST00000373256.4	+	6	576	c.533A>G	c.(532-534)tAc>tGc	p.Y178C		NM_002062.3	NP_002053.3	P43220	GLP1R_HUMAN	glucagon-like peptide 1 receptor	178					activation of adenylate cyclase activity (GO:0007190)|cAMP-mediated signaling (GO:0019933)|energy reserve metabolic process (GO:0006112)|learning or memory (GO:0007611)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|regulation of heart contraction (GO:0008016)|regulation of insulin secretion (GO:0050796)|response to stress (GO:0006950)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	glucagon receptor activity (GO:0004967)|transmembrane signaling receptor activity (GO:0004888)			breast(5)|endometrium(3)|kidney(1)|large_intestine(8)|lung(9)|pancreas(1)|prostate(1)|skin(1)|stomach(2)	31					Exenatide(DB01276)|Glucagon recombinant(DB00040)|Liraglutide(DB06655)	ACCAGGAACTACATCCACCTG	0.557																																																0													210	167	181					6																	39040661		2203	4300	6503	SO:0001583	missense	2740				CCDS4839.1	6p21	2012-08-10			ENSG00000112164	ENSG00000112164		"GPCR / Class B : Glucagon receptors"	4324	protein-coding gene	gene with protein product		138032					Standard	NM_002062		Approved		uc003ooj.4	P43220	OTTHUMG00000014638	ENST00000373256.4:c.533A>G	6.37:g.39040661A>G	ENSP00000362353:p.Tyr178Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M229|Q99669	Missense_Mutation	SNP	ENST00000373256.4	37	CCDS4839.1	.	.	.	.	.	.	.	.	.	.	A	19.32	3.804534	0.70682	.	.	ENSG00000112164	ENST00000373256	T	0.39406	1.08	5.56	3.08	0.35506	GPCR, family 2-like (1);	0.000000	0.56097	D	0.000024	T	0.58481	0.2125	M	0.91717	3.235	0.52099	D	0.999945	D	0.89917	1.0	D	0.91635	0.999	T	0.64360	-0.6426	10	0.72032	D	0.01	.	8.7911	0.34852	0.7396:0.1333:0.0:0.127	.	178	P43220	GLP1R_HUMAN	C	178	ENSP00000362353:Y178C	ENSP00000362353:Y178C	Y	+	2	0	GLP1R	39148639	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	9.310000	0.96267	0.363000	0.24346	-0.333000	0.08304	TAC		0.557	GLP1R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040443.1			G	39040661	A	G	39040661	3	3	661	1	0	0	0	0	1	0	0	0	6459	391	14	3	555	3	GLP1R	6	39040661	Missense_Mutation	SNP	A	TCGA-KN-8425-01A-11D-2310-10	7717399	39040661	132074406	20	41038										
PHF3	23469	ucsc.edu;bcgsc.ca	37	chr6	64419126	64419126	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tgtggaaaaaataaaagcatCaggaaccaaggtgaggaaaa	11	4	1	1			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr6:64419126C>T	ENST00000262043.3	+	14	4131	c.3791C>T	c.(3790-3792)tCa>tTa	p.S1264L	PHF3_ENST00000393387.1_Missense_Mutation_p.S1264L			Q92576	PHF3_HUMAN	PHD finger protein 3	1264					multicellular organismal development (GO:0007275)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	zinc ion binding (GO:0008270)			breast(7)|cervix(2)|endometrium(8)|kidney(7)|large_intestine(18)|lung(21)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(6)	75	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)			ATAAAAGCATCAGGAACCAAG	0.358																																					GBM(135;136 1820 29512 34071 46235)											0													155	165	162					6																	64419126		2203	4300	6503	SO:0001583	missense	23469			AF091622	CCDS4966.1	6q12	2013-09-24			ENSG00000118482	ENSG00000118482		"Zinc fingers, PHD-type"	8921	protein-coding gene	gene with protein product		607789				11856869	Standard	XM_005248701		Approved		uc003pep.1	Q92576	OTTHUMG00000014952	ENST00000262043.3:c.3791C>T	6.37:g.64419126C>T	ENSP00000262043:p.Ser1264Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A3KFI8|Q14CR5|Q5CZI1|Q5T1T6|Q9NQ16|Q9UI45	Missense_Mutation	SNP	ENST00000262043.3	37	CCDS4966.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	35|35	5.528384|5.528384	0.96446|0.96446	.|.	.|.	ENSG00000118482|ENSG00000118482	ENST00000505138|ENST00000515594;ENST00000262043;ENST00000393387	.|T;T;T	.|0.56103	.|0.48;1.79;1.79	6.02|6.02	6.02|6.02	0.97574|0.97574	.|Spen paralogue and orthologue SPOC, C-terminal (1);	.|0.000000	.|0.32608	.|N	.|0.005877	.|T	.|0.70011	.|0.3175	M|M	0.74467|0.74467	2.265|2.265	0.80722|0.80722	D|D	1|1	.|D	.|0.89917	.|1.0	.|D	.|0.91635	.|0.999	.|T	.|0.66822	.|-0.5826	.|9	.|.	.|.	.|.	-14.8658|-14.8658	20.547|20.547	0.99278|0.99278	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|1264	.|Q92576	.|PHF3_HUMAN	X|L	53|533;1264;1264	.|ENSP00000425338:S533L;ENSP00000262043:S1264L;ENSP00000377048:S1264L	.|.	Q|S	+|+	1|2	0|0	PHF3|PHF3	64477085|64477085	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.993000|0.993000	0.82548|0.82548	7.493000|7.493000	0.81493|0.81493	2.850000|2.850000	0.98022|0.98022	0.650000|0.650000	0.86243|0.86243	CAG|TCA		0.358	PHF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041086.2			T	64419126	C	T	64419126	3	4	661	1	0	0	0	0	1	0	0	0	11843	838	29	2	3841	2	PHF3	6	64419126	Missense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10	25378465	64419126	106695941	21	41039										
GJA10	84694	hgsc.bcm.edu;bcgsc.ca	37	chr6	90605153	90605153	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tccaatgggaaaaaggactgGtctgagaaggatcagcatag	13	6	2	1			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr6:90605153G>T	ENST00000369352.1	+	1	966	c.966G>T	c.(964-966)tgG>tgT	p.W322C	Y_RNA_ENST00000517082.1_RNA	NM_032602.1	NP_115991.1	P57773	CXA9_HUMAN	gap junction protein, alpha 10, 62kDa	4					cell communication (GO:0007154)	connexon complex (GO:0005922)|integral component of membrane (GO:0016021)				breast(2)|endometrium(2)|kidney(1)|large_intestine(10)|lung(17)|ovary(1)|skin(3)|urinary_tract(1)	37		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)		AAAAGGACTGGTCTGAGAAGG	0.507																																																0													76	72	74					6																	90605153		2203	4300	6503	SO:0001583	missense	84694			AF296766	CCDS5025.1	6q15-q16	2008-02-05			ENSG00000135355	ENSG00000135355		"Ion channels / Gap junction proteins (connexins)"	16995	protein-coding gene	gene with protein product	"connexin 62"	611924					Standard	NM_032602		Approved	CX62	uc011eaa.2	Q969M2	OTTHUMG00000015210	ENST00000369352.1:c.966G>T	6.37:g.90605153G>T	ENSP00000358358:p.Trp322Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R722|B3KVQ2|Q5TA63|Q96KG0	Missense_Mutation	SNP	ENST00000369352.1	37	CCDS5025.1	.	.	.	.	.	.	.	.	.	.	G	3.006	-0.205059	0.06180	.	.	ENSG00000135355	ENST00000369352	D	0.98901	-5.22	5.6	1.7	0.24286	.	0.962270	0.08562	N	0.927439	D	0.93706	0.7989	M	0.63843	1.955	0.19775	N	0.999951	B	0.15719	0.014	B	0.12156	0.007	D	0.87229	0.2259	10	0.37606	T	0.19	.	2.2376	0.04012	0.1489:0.1316:0.4486:0.2708	.	322	Q969M2	CXA10_HUMAN	C	322	ENSP00000358358:W322C	ENSP00000358358:W322C	W	+	3	0	GJA10	90661874	0.002000	0.14202	0.015000	0.15790	0.237000	0.25408	0.550000	0.23345	0.276000	0.22118	0.563000	0.77884	TGG		0.507	GJA10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041505.1	NM_032602		T	90605153	G	T	90605153	3	4	661	1	0	0	0	0	1	0	0	0	6408	1270	44	4	968	4	GJA10	6	90605153	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10	26186027	90605153	80509914	22	41040										
CDC40	51362	broad.mit.edu	37	chr6	110528751	110528751	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	agataatcatcaagtgtctgCtaaatatattggttctgtag	8	5	4	1			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr6:110528751C>A	ENST00000368932.1	+	5	550	c.449C>A	c.(448-450)gCt>gAt	p.A150D	CDC40_ENST00000368930.1_Missense_Mutation_p.A150D|CDC40_ENST00000307731.1_Missense_Mutation_p.A150D			O60508	PRP17_HUMAN	cell division cycle 40	150					gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA export from nucleus (GO:0006406)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	catalytic step 2 spliceosome (GO:0071013)|nucleoplasm (GO:0005654)|spliceosomal complex (GO:0005681)	poly(A) RNA binding (GO:0044822)	p.A150D(1)		breast(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(4)|lung(7)|prostate(1)|skin(1)	18		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		CAAGTGTCTGCTAAATATATT	0.269																																																1	Substitution - Missense(1)	kidney(1)											94	106	102					6																	110528751		2201	4290	6491	SO:0001583	missense	51362			AF015044	CCDS5081.1	6q22.1	2013-01-17	2013-01-17		ENSG00000168438	ENSG00000168438		"WD repeat domain containing"	17350	protein-coding gene	gene with protein product		605585	"cell division cycle 40 homolog (yeast)", "cell division cycle 40 homolog (S. cerevisiae)"			9769104, 9830021	Standard	NM_015891		Approved	PRP17, EHB3, PRPF17, FLJ10564	uc003pua.3	O60508	OTTHUMG00000015358	ENST00000368932.1:c.449C>A	6.37:g.110528751C>A	ENSP00000357928:p.Ala150Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBC5|O75471|Q5SRN0|Q9UPG1	Missense_Mutation	SNP	ENST00000368932.1	37	CCDS5081.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	12.60|12.60	1.987752|1.987752	0.35036|0.35036	.|.	.|.	ENSG00000168438|ENSG00000168438	ENST00000368932;ENST00000368933;ENST00000368930;ENST00000307731;ENST00000439165;ENST00000453107|ENST00000431461	T;T;T;T|.	0.60920|.	0.28;0.15;0.15;0.28|.	5.86|5.86	5.86|5.86	0.93980|0.93980	.|.	0.360512|.	0.35349|.	N|.	0.003280|.	T|.	0.30230|.	0.0758|.	N|N	0.03608|0.03608	-0.345|-0.345	0.45046|0.45046	D|D	0.998061|0.998061	B|.	0.02656|.	0.0|.	B|.	0.04013|.	0.001|.	T|.	0.35475|.	-0.9787|.	10|.	0.10636|.	T|.	0.68|.	-15.4556|-15.4556	20.1739|20.1739	0.98173|0.98173	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	150|.	O60508|.	PRP17_HUMAN|.	D|X	150;150;150;150;150;47|42	ENSP00000357928:A150D;ENSP00000357929:A150D;ENSP00000357926:A150D;ENSP00000304370:A150D|.	ENSP00000304370:A150D|.	A|C	+|+	2|3	0|2	CDC40|CDC40	110635444|110635444	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.996000|0.996000	0.88848|0.88848	5.478000|5.478000	0.66806|0.66806	2.774000|2.774000	0.95407|0.95407	0.585000|0.585000	0.79938|0.79938	GCT|TGC		0.269	CDC40-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041791.1	NM_015891		A	110528751	C	A	110528751	3	1	661	1	0	0	0	0	1	0	0	0	3072	797	28	4	463	4	CDC40	6	110528751	Missense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10	19923598	110528751	60586316	23	41041										
FAM184A	79632	broad.mit.edu	37	chr6	119281278	119281278	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	cacaattctttcagaatgtgAagtaccgggcaaaccactcc	7	12	2	2			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr6:119281278A>G	ENST00000338891.7	-	18	3856	c.3413T>C	c.(3412-3414)tTc>tCc	p.F1138S	RP11-351A11.1_ENST00000518570.1_RNA|FAM184A_ENST00000521531.1_Missense_Mutation_p.F1054S|FAM184A_ENST00000352896.5_Missense_Mutation_p.F969S|FAM184A_ENST00000368475.4_Missense_Mutation_p.F934S	NM_024581.4	NP_078857.5	Q8NB25	F184A_HUMAN	family with sequence similarity 184, member A	1138						extracellular space (GO:0005615)				breast(2)|central_nervous_system(2)|endometrium(2)|kidney(5)|large_intestine(19)|lung(13)|ovary(2)|pancreas(1)|prostate(1)|skin(5)	52						TCAGAATGTGAAGTACCGGGC	0.428																																																0													61	64	63					6																	119281278		1879	4089	5968	SO:0001583	missense	79632			BC009055	CCDS43499.1, CCDS43500.1, CCDS75508.1	6q22.31	2008-08-14	2008-08-14	2008-08-14	ENSG00000111879	ENSG00000111879			20991	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 60"	C6orf60		11230166	Standard	NM_024581		Approved	FLJ13942	uc003pyj.3	Q8NB25	OTTHUMG00000015471	ENST00000338891.7:c.3413T>C	6.37:g.119281278A>G	ENSP00000342604:p.Phe1138Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B9DI75|F8W8D6|Q5TBS9|Q7Z323|Q96GY8|Q9H0J8|Q9H851	Missense_Mutation	SNP	ENST00000338891.7	37	CCDS43499.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	22.3|22.3	4.275019|4.275019	0.80580|0.80580	.|.	.|.	ENSG00000111879|ENSG00000111879	ENST00000521043;ENST00000338891;ENST00000352896;ENST00000368475;ENST00000368472;ENST00000521531|ENST00000481884	T;T;T;T;T|.	0.70164|.	0.23;0.32;-0.08;-0.46;-0.34|.	5.39|5.39	4.24|4.24	0.50183|0.50183	.|.	0.062472|.	0.64402|.	N|.	0.000003|.	T|T	0.60143|0.60143	0.2246|0.2246	M|M	0.70275|0.70275	2.135|2.135	0.80722|0.80722	D|D	1|1	D;D;D|.	0.76494|.	0.999;0.999;0.999|.	D;D;D|.	0.83275|.	0.994;0.994;0.996|.	T|T	0.61715|0.61715	-0.7006|-0.7006	10|5	0.87932|.	D|.	0|.	-8.2841|-8.2841	11.3459|11.3459	0.49561|0.49561	0.9286:0.0:0.0714:0.0|0.9286:0.0:0.0714:0.0	.|.	1054;969;1138|.	Q8NB25-2;F8W8D6;Q8NB25|.	.;.;F184A_HUMAN|.	S|P	266;1138;969;934;163;1054|72	ENSP00000342604:F1138S;ENSP00000326608:F969S;ENSP00000357460:F934S;ENSP00000357457:F163S;ENSP00000430442:F1054S|.	ENSP00000342604:F1138S|.	F|S	-|-	2|1	0|0	FAM184A|FAM184A	119322977|119322977	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.941000|0.941000	0.58515|0.58515	9.029000|9.029000	0.93718|0.93718	0.989000|0.989000	0.38761|0.38761	0.455000|0.455000	0.32223|0.32223	TTC|TCA		0.428	FAM184A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042009.3	NM_024581		G	119281278	A	G	119281278	3	3	661	1	0	0	0	0	1	0	0	0	5515	246	9	3	13	3	FAM184A	6	119281278	Missense_Mutation	SNP	A	TCGA-KN-8425-01A-11D-2310-10	8752527	119281278	51833789	24	41042										
TCP10L2	401285	mdanderson.org	37	chr6	167592606	167592606	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	cagacggcagcagccggagtTgctggtgagcagggtagggg	20	8	0	2	rs201866116	byFrequency	TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr6:167592606T>A	ENST00000366832.2	+	6	896	c.765T>A	c.(763-765)gtT>gtA	p.V255V		NM_001145121.1	NP_001138593.1	B9ZVM9	TCP2L_HUMAN	t-complex 10-like 2	255										endometrium(1)|kidney(2)|lung(3)	6						CAGCCGGAGTTGCTGGTGAGC	0.577																																																0																																										SO:0001819	synonymous_variant	401285				CCDS47514.1	6q27	2012-09-20	2012-09-20		ENSG00000166984	ENSG00000166984			21254	protein-coding gene	gene with protein product			"t-complex 10-like 2 (mouse)"				Standard	NM_001145121		Approved	bA517H2.3	uc010kkp.3	B9ZVM9	OTTHUMG00000016014	ENST00000366832.2:c.765T>A	6.37:g.167592606T>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000366832.2	37	CCDS47514.1																																																																																				0.577	TCP10L2-001	NOVEL	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043112.5	XR_040749		A	167592606	T	A	167592606	2	1	661	1	0	0	0	0	0	0	0	1	15724	1799	63	5		5	TCP10L2	6	167592606	Silent	SNP	T	TCGA-KN-8425-01A-11D-2310-10	48311328	167592606	3522461	25	41043										
URGCP	55665	broad.mit.edu	37	chr7	43917145	43917146	+	Frame_Shift_Ins	INS	-	-	C													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	agtgggcaaaacgcctctggINScctgccggcagcctccctgc							TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr7:43917145_43917146insC	ENST00000453200.1	-	6	2409_2410	c.1916_1917insG	c.(1915-1917)ggcfs	p.G639fs	URGCP-MRPS24_ENST00000603700.1_Intron|URGCP_ENST00000402306.3_Frame_Shift_Ins_p.G630fs|URGCP_ENST00000447717.3_Frame_Shift_Ins_p.G596fs|URGCP_ENST00000223341.7_Frame_Shift_Ins_p.G596fs|URGCP_ENST00000336086.6_Frame_Shift_Ins_p.G596fs|URGCP_ENST00000497914.1_5'UTR|URGCP_ENST00000443736.1_Frame_Shift_Ins_p.G596fs			Q8TCY9	URGCP_HUMAN	upregulator of cell proliferation	639					cell cycle (GO:0007049)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	GTP binding (GO:0005525)			breast(3)|endometrium(4)|kidney(2)|large_intestine(3)|liver(1)|lung(13)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	34						AACGCCTCTGGCCTGCCGGCAG	0.629																																																0																																										SO:0001589	frameshift_variant	55665				CCDS43572.1, CCDS47577.1, CCDS47578.1	7p13	2010-02-17			ENSG00000106608	ENSG00000106608			30890	protein-coding gene	gene with protein product	"up-regulated gene 4"	610337				10819331, 12082552	Standard	NM_017920		Approved	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457	uc003tiw.3	Q8TCY9	OTTHUMG00000155245	ENST00000453200.1:c.1917dupG	7.37:g.43917147_43917147dupC	ENSP00000396918:p.Gly639fs	Somatic		WXS	Illumina HiSeq	Phase_I	E9PFF6|Q658M4|Q68DH6|Q6MZZ5|Q8WV98|Q9NWR7|Q9P221	Frame_Shift_Ins	INS	ENST00000453200.1	37	CCDS47578.1																																																																																				0.629	URGCP-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000338995.1	NM_001077664		C	43917146	-	C	43917145	7	5	661	1	0	1	1	0	0	0	0	0	17038	1190	42	0	882	0	URGCP	7	43917145	Frame_Shift_Ins	INS	-	TCGA-KN-8425-01A-11D-2310-10		43917145	115221518	26	41044										
TRRAP	8295	broad.mit.edu	37	chr7	98522828	98522828	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tgatcaaatgcttcctggtgGccatgatgagcctggaggac	13	9	1	3			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr7:98522828G>T	ENST00000359863.4	+	22	3126	c.2917G>T	c.(2917-2919)Gcc>Tcc	p.A973S	TRRAP_ENST00000446306.3_Missense_Mutation_p.A972S|TRRAP_ENST00000355540.3_Missense_Mutation_p.A973S	NM_001244580.1	NP_001231509.1	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated protein	973					chromatin organization (GO:0006325)|histone acetylation (GO:0016573)|histone deubiquitination (GO:0016578)|histone H2A acetylation (GO:0043968)|histone H4 acetylation (GO:0043967)|mitotic cell cycle checkpoint (GO:0007093)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	NuA4 histone acetyltransferase complex (GO:0035267)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PCAF complex (GO:0000125)|STAGA complex (GO:0030914)|Swr1 complex (GO:0000812)|transcription factor TFTC complex (GO:0033276)	phosphotransferase activity, alcohol group as acceptor (GO:0016773)|transcription coactivator activity (GO:0003713)|transcription cofactor activity (GO:0003712)	p.A973S(2)		NS(3)|breast(1)|central_nervous_system(10)|endometrium(16)|kidney(7)|large_intestine(36)|liver(1)|lung(54)|ovary(10)|pancreas(1)|prostate(8)|skin(16)|stomach(5)|upper_aerodigestive_tract(6)|urinary_tract(2)	176	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CTTCCTGGTGGCCATGATGAG	0.562																																																2	Substitution - Missense(2)	endometrium(2)											173	138	149					7																	98522828		2203	4300	6503	SO:0001583	missense	8295			AF076974	CCDS5659.1, CCDS59066.1	7q21.2-q22.1	2010-06-22			ENSG00000196367	ENSG00000196367			12347	protein-coding gene	gene with protein product		603015				9708738, 9885574	Standard	NM_003496		Approved	TR-AP, PAF400, Tra1	uc003upp.3	Q9Y4A5	OTTHUMG00000150403	ENST00000359863.4:c.2917G>T	7.37:g.98522828G>T	ENSP00000352925:p.Ala973Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A4D265|O75218|Q9Y631|Q9Y6H4	Missense_Mutation	SNP	ENST00000359863.4	37	CCDS59066.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	22.1|22.1	4.250101|4.250101	0.80024|0.80024	.|.	.|.	ENSG00000196367|ENSG00000196367	ENST00000359863;ENST00000355540;ENST00000446306|ENST00000456197	T;T|.	0.02812|.	4.15;4.15|.	6.17|6.17	6.17|6.17	0.99709|0.99709	Armadillo-like helical (1);Armadillo-type fold (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.53578|0.53578	0.1805|0.1805	N|N	0.16066|0.16066	0.365|0.365	0.80722|0.80722	D|D	1|1	P;B;P|.	0.46784|.	0.884;0.297;0.461|.	B;B;B|.	0.43155|.	0.41;0.077;0.134|.	T|T	0.44143|0.44143	-0.9347|-0.9347	10|5	0.10377|.	T|.	0.69|.	.|.	20.8794|20.8794	0.99867|0.99867	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	973;687;973|.	Q9Y4A5-2;Q59FH1;Q9Y4A5|.	.;.;TRRAP_HUMAN|.	S|C	973;973;971|687	ENSP00000352925:A973S;ENSP00000347733:A973S|.	ENSP00000347733:A973S|.	A|W	+|+	1|3	0|0	TRRAP|TRRAP	98360764|98360764	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.988000|0.988000	0.76386|0.76386	9.728000|9.728000	0.98792|0.98792	2.941000|2.941000	0.99782|0.99782	0.655000|0.655000	0.94253|0.94253	GCC|TGG		0.562	TRRAP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000317978.1	NM_003496		T	98522828	G	T	98522828	3	4	661	1	0	0	0	0	1	0	0	0	16613	1203	42	4	2999	4	TRRAP	7	98522828	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10	54605683	98522828	60615835	27	41045										
CLCN1	1180	broad.mit.edu	37	chr7	143047474	143047475	+	Frame_Shift_Ins	INS	-	-	G													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tggctgacagattgaggcctINSgggagcaggagcagctgagc							TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr7:143047474_143047475insG	ENST00000343257.2	+	21	2500_2501	c.2413_2414insG	c.(2413-2415)tggfs	p.W805fs		NM_000083.2	NP_000074	P35523	CLCN1_HUMAN	chloride channel, voltage-sensitive 1	805					chloride transmembrane transport (GO:1902476)|ion transmembrane transport (GO:0034220)|muscle contraction (GO:0006936)|neuronal action potential propagation (GO:0019227)|regulation of anion transport (GO:0044070)|transmembrane transport (GO:0055085)|transport (GO:0006810)	chloride channel complex (GO:0034707)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)	adenyl nucleotide binding (GO:0030554)|chloride channel activity (GO:0005254)|voltage-gated chloride channel activity (GO:0005247)			breast(4)|central_nervous_system(1)|endometrium(1)|large_intestine(11)|lung(26)|ovary(3)|prostate(2)|skin(7)|stomach(1)|upper_aerodigestive_tract(2)	58	Melanoma(164;0.205)					GATTGAGGCCTGGGAGCAGGAG	0.554																																																0																																										SO:0001589	frameshift_variant	1180			Z25884	CCDS5881.1	7q12	2012-09-26	2012-02-23		ENSG00000188037	ENSG00000188037		"Ion channels / Chloride channels : Voltage-sensitive"	2019	protein-coding gene	gene with protein product	"Thomsen disease, autosomal dominant"	118425	"chloride channel 1, skeletal muscle"			1379744	Standard	NM_000083		Approved	CLC1, ClC-1	uc003wcr.1	P35523	OTTHUMG00000152695	ENST00000343257.2:c.2416dupG	7.37:g.143047477_143047477dupG	ENSP00000339867:p.Trp805fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2H5|Q2M202	Frame_Shift_Ins	INS	ENST00000343257.2	37	CCDS5881.1																																																																																				0.554	CLCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327420.1	NM_000083		G	143047475	-	G	143047474	7	5	661	1	0	1	1	0	0	0	0	0	3464	1580	55	0	2495	0	CLCN1	7	143047474	Frame_Shift_Ins	INS	-	TCGA-KN-8425-01A-11D-2310-10	44524646	143047474	16091189	28	41046										
AMAC1L2	83650	mdanderson.org	37	chr8	11189125	11189125	+	Silent	SNP	C	C	A													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	ggcagcatcctaggactaatCatcattctgggacctggact							TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr8:11189125C>A	ENST00000382435.4	+	1	729	c.510C>A	c.(508-510)atC>atA	p.I170I		NM_001282300.1|NM_054028.1	NP_001269229.1|NP_473369.1	Q96KT7	S35G5_HUMAN	solute carrier family 35, member G5	170	EamA 1.					integral component of membrane (GO:0016021)											TAGGACTAATCATCATTCTGG	0.597																																																0													180	173	176					8																	11189125		2203	4300	6503	SO:0001819	synonymous_variant	83650			AJ291677	CCDS5980.1	8p23.1	2013-05-22	2011-08-03	2011-08-03	ENSG00000177710	ENSG00000177710		"Solute carriers"	15546	protein-coding gene	gene with protein product		615199	"acyl-malonyl condensing enzyme 1-like 2"	AMAC, AMAC1L2			Standard	NM_054028		Approved		uc003wtp.1	Q96KT7	OTTHUMG00000090653	ENST00000382435.4:c.510C>A	8.37:g.11189125C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2RRL6	Silent	SNP	ENST00000382435.4	37	CCDS5980.1																																																																																				0.597	SLC35G5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207313.2	NM_054028		A	11189125	C	A	11189125	2	1	661	1	0	0	0	0	0	0	0	1	560	816	29	4		4	AMAC1L2	8	11189125	Silent	SNP	C	TCGA-KN-8425-01A-11D-2310-10		11189125	135174897	29	41047	385	2								
AMAC1L2	83650	mdanderson.org	37	chr8	11189132	11189132	+	Missense_Mutation	SNP	C	C	G													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tcctaggactaatcatcattCtgggacctggactctggaca					rs149105667		TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr8:11189132C>G	ENST00000382435.4	+	1	736	c.517C>G	c.(517-519)Ctg>Gtg	p.L173V		NM_001282300.1|NM_054028.1	NP_001269229.1|NP_473369.1	Q96KT7	S35G5_HUMAN	solute carrier family 35, member G5	173	EamA 1.					integral component of membrane (GO:0016021)											AATCATCATTCTGGGACCTGG	0.607																																																0													177	171	173					8																	11189132		2203	4300	6503	SO:0001583	missense	83650			AJ291677	CCDS5980.1	8p23.1	2013-05-22	2011-08-03	2011-08-03	ENSG00000177710	ENSG00000177710		"Solute carriers"	15546	protein-coding gene	gene with protein product		615199	"acyl-malonyl condensing enzyme 1-like 2"	AMAC, AMAC1L2			Standard	NM_054028		Approved		uc003wtp.1	Q96KT7	OTTHUMG00000090653	ENST00000382435.4:c.517C>G	8.37:g.11189132C>G	ENSP00000371872:p.Leu173Val	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRL6	Missense_Mutation	SNP	ENST00000382435.4	37	CCDS5980.1	.	.	.	.	.	.	.	.	.	.	G	0.003	-2.426350	0.00186	.	.	ENSG00000177710	ENST00000382435	T	0.53857	0.6	0.34	0.34	0.15985	.	0.000000	0.42964	N	0.000622	T	0.14700	0.0355	N	0.01576	-0.805	0.09310	N	0.999996	B	0.02656	0.0	B	0.04013	0.001	T	0.21793	-1.0235	9	0.02654	T	1	-1.8868	.	.	.	.	173	Q96KT7	S35G5_HUMAN	V	173	ENSP00000371872:L173V	ENSP00000371872:L173V	L	+	1	2	SLC35G5	11226542	0.961000	0.32948	0.861000	0.33841	0.133000	0.20885	-0.006000	0.12833	-1.354000	0.02188	-1.964000	0.00472	CTG		0.607	SLC35G5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207313.2	NM_054028		G	11189132	C	G	11189132	3	3	661	1	0	0	0	0	1	0	0	0	560	912	32	4	519	4	AMAC1L2	8	11189132	Missense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10	7	11189132	135174890	30	41048	385	2								
PCMTD1	115294	mdanderson.org	37	chr8	52732959	52732959	+	Silent	SNP	G	G	A													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gcttttaaagattcagggagGggcagcttcatgattttttc							TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr8:52732959G>A	ENST00000360540.5	-	7	1432	c.1026C>T	c.(1024-1026)ccC>ccT	p.P342P	PCMTD1_ENST00000519559.1_5'UTR|PCMTD1_ENST00000544451.1_Silent_p.P266P|PCMTD1_ENST00000522514.1_Silent_p.P342P	NM_052937.2	NP_443169.2	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	342						cytoplasm (GO:0005737)	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity (GO:0004719)			NS(2)|endometrium(1)|kidney(3)|large_intestine(3)|lung(17)|prostate(2)|skin(8)|soft_tissue(1)	37		Lung NSC(129;0.0795)|all_lung(136;0.144)				ATTCAGGGAGGGGCAGCTTCA	0.353																																																0													69	67	68					8																	52732959		2203	4300	6503	SO:0001819	synonymous_variant	115294				CCDS6148.1, CCDS69480.1	8q11.23	2010-08-05			ENSG00000168300	ENSG00000168300			30483	protein-coding gene	gene with protein product							Standard	XM_005251146		Approved	FLJ10883	uc003xqx.4	Q96MG8	OTTHUMG00000164246	ENST00000360540.5:c.1026C>T	8.37:g.52732959G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q96FK9	Silent	SNP	ENST00000360540.5	37	CCDS6148.1																																																																																				0.353	PCMTD1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377909.2	NM_052937		A	52732959	G	A	52732959	2	1	661	1	0	0	0	0	0	0	0	1	11593	1219	43	2		2	PCMTD1	8	52732959	Silent	SNP	G	TCGA-KN-8425-01A-11D-2310-10	41543827	52732959	93631063	31	41049	386	2	1	103		3	2	23	N	G_C	4.76137e-05
PCMTD1	115294	mdanderson.org	37	chr8	52732961	52732961	+	Missense_Mutation	SNP	G	G	T													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	ttttaaagattcagggagggGcagcttcatgattttttctc					rs150537425		TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr8:52732961G>T	ENST00000360540.5	-	7	1430	c.1024C>A	c.(1024-1026)Ccc>Acc	p.P342T	PCMTD1_ENST00000519559.1_5'UTR|PCMTD1_ENST00000544451.1_Missense_Mutation_p.P266T|PCMTD1_ENST00000522514.1_Missense_Mutation_p.P342T	NM_052937.2	NP_443169.2	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	342						cytoplasm (GO:0005737)	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity (GO:0004719)			NS(2)|endometrium(1)|kidney(3)|large_intestine(3)|lung(17)|prostate(2)|skin(8)|soft_tissue(1)	37		Lung NSC(129;0.0795)|all_lung(136;0.144)				TCAGGGAGGGGCAGCTTCATG	0.358																																																0													71	69	70					8																	52732961		2203	4300	6503	SO:0001583	missense	115294				CCDS6148.1, CCDS69480.1	8q11.23	2010-08-05			ENSG00000168300	ENSG00000168300			30483	protein-coding gene	gene with protein product							Standard	XM_005251146		Approved	FLJ10883	uc003xqx.4	Q96MG8	OTTHUMG00000164246	ENST00000360540.5:c.1024C>A	8.37:g.52732961G>T	ENSP00000353739:p.Pro342Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q96FK9	Missense_Mutation	SNP	ENST00000360540.5	37	CCDS6148.1	.	.	.	.	.	.	.	.	.	.	G	23.0	4.365461	0.82463	.	.	ENSG00000168300	ENST00000360540;ENST00000544451;ENST00000522514	T;T;T	0.71461	0.25;-0.57;0.25	6.07	6.07	0.98685	.	0.000000	0.85682	D	0.000000	D	0.84835	0.5560	M	0.71036	2.16	0.80722	D	1	D;D;D	0.89917	0.995;1.0;0.999	P;D;D	0.91635	0.82;0.999;0.972	D	0.84761	0.0762	10	0.87932	D	0	-0.0352	20.6593	0.99626	0.0:0.0:1.0:0.0	.	212;266;342	B4E2B4;F5H1M8;Q96MG8	.;.;PCMD1_HUMAN	T	342;266;342	ENSP00000353739:P342T;ENSP00000444026:P266T;ENSP00000428099:P342T	ENSP00000353739:P342T	P	-	1	0	PCMTD1	52895514	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	8.903000	0.92573	2.885000	0.99019	0.655000	0.94253	CCC		0.358	PCMTD1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377909.2	NM_052937		T	52732961	G	T	52732961	3	4	661	1	0	0	0	0	1	0	0	0	11593	1203	42	4	53	4	PCMTD1	8	52732961	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10	2	52732961	93631061	32	41050	386	2	1	103		3	2	23	N	G_C	4.76137e-05
PCMTD1	115294	mdanderson.org	37	chr8	52732981	52732981	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gcagcttcatgattttttctCtcagtaaattttgaggtggc	9	7	3	2	rs201786115		TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr8:52732981C>G	ENST00000360540.5	-	7	1410	c.1004G>C	c.(1003-1005)aGa>aCa	p.R335T	PCMTD1_ENST00000519559.1_5'UTR|PCMTD1_ENST00000544451.1_Missense_Mutation_p.R259T|PCMTD1_ENST00000522514.1_Missense_Mutation_p.R335T	NM_052937.2	NP_443169.2	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	335						cytoplasm (GO:0005737)	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity (GO:0004719)			NS(2)|endometrium(1)|kidney(3)|large_intestine(3)|lung(17)|prostate(2)|skin(8)|soft_tissue(1)	37		Lung NSC(129;0.0795)|all_lung(136;0.144)				GATTTTTTCTCTCAGTAAATT	0.363																																																0													81	76	78					8																	52732981		2203	4300	6503	SO:0001583	missense	115294				CCDS6148.1, CCDS69480.1	8q11.23	2010-08-05			ENSG00000168300	ENSG00000168300			30483	protein-coding gene	gene with protein product							Standard	XM_005251146		Approved	FLJ10883	uc003xqx.4	Q96MG8	OTTHUMG00000164246	ENST00000360540.5:c.1004G>C	8.37:g.52732981C>G	ENSP00000353739:p.Arg335Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q96FK9	Missense_Mutation	SNP	ENST00000360540.5	37	CCDS6148.1	.	.	.	.	.	.	.	.	.	.	C	16.08	3.021524	0.54576	.	.	ENSG00000168300	ENST00000360540;ENST00000544451;ENST00000522514	T;T;T	0.58060	1.08;0.36;1.08	5.97	5.1	0.69264	.	0.000000	0.85682	D	0.000000	T	0.66694	0.2815	M	0.71036	2.16	0.58432	D	0.999997	P;D;P	0.56746	0.473;0.977;0.853	B;P;P	0.55923	0.056;0.787;0.504	T	0.71839	-0.4471	10	0.87932	D	0	-19.9202	15.3016	0.73955	0.0:0.9329:0.0:0.0671	.	205;259;335	B4E2B4;F5H1M8;Q96MG8	.;.;PCMD1_HUMAN	T	335;259;335	ENSP00000353739:R335T;ENSP00000444026:R259T;ENSP00000428099:R335T	ENSP00000353739:R335T	R	-	2	0	PCMTD1	52895534	1.000000	0.71417	0.999000	0.59377	0.996000	0.88848	7.046000	0.76592	1.532000	0.49169	0.655000	0.94253	AGA		0.363	PCMTD1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377909.2	NM_052937		G	52732981	C	G	52732981	3	3	661	1	0	0	0	0	1	0	0	0	11593	913	32	4	73	4	PCMTD1	8	52732981	Missense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10	20	52732981	93631041	33	41051			1	103		3	2	23	N	G_C	4.76137e-05
ARFGEF1	10565	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr8	68152453	68152453	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tcttataccttccaggcaaaGagaggctacttcagtatcat	7	10	3	1			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr8:68152453G>A	ENST00000262215.3	-	20	3312	c.2923C>T	c.(2923-2925)Ctt>Ttt	p.L975F	ARFGEF1_ENST00000518230.1_5'Flank|ARFGEF1_ENST00000520381.1_Missense_Mutation_p.L429F	NM_006421.4	NP_006412.2	Q9Y6D6	BIG1_HUMAN	ADP-ribosylation factor guanine nucleotide-exchange factor 1 (brefeldin A-inhibited)	975					endomembrane system organization (GO:0010256)|exocytosis (GO:0006887)|Golgi organization (GO:0007030)|negative regulation of actin filament polymerization (GO:0030837)|negative regulation of Rho GTPase activity (GO:0034259)|positive regulation of GTPase activity (GO:0043547)|positive regulation of protein glycosylation in Golgi (GO:0090284)|positive regulation of wound healing (GO:0090303)|protein transport (GO:0015031)|regulation of ARF protein signal transduction (GO:0032012)|regulation of establishment of cell polarity (GO:2000114)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|small nuclear ribonucleoprotein complex (GO:0030532)|trans-Golgi network (GO:0005802)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|guanyl-nucleotide exchange factor activity (GO:0005085)|myosin binding (GO:0017022)|protein kinase A regulatory subunit binding (GO:0034237)			breast(1)|endometrium(14)|kidney(4)|large_intestine(17)|lung(20)|ovary(4)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	65	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			TCCAGGCAAAGAGAGGCTACT	0.368																																																0													119	109	112					8																	68152453		2203	4300	6503	SO:0001583	missense	10565			AF084520	CCDS6199.1	8q13	2011-08-18	2011-08-18		ENSG00000066777	ENSG00000066777			15772	protein-coding gene	gene with protein product		604141				10212200, 8917509	Standard	NM_006421		Approved	DKFZP434L057, BIG1, ARFGEP1, p200	uc003xxo.2	Q9Y6D6	OTTHUMG00000164626	ENST00000262215.3:c.2923C>T	8.37:g.68152453G>A	ENSP00000262215:p.Leu975Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NV46|Q9UFV2|Q9UNL0	Missense_Mutation	SNP	ENST00000262215.3	37	CCDS6199.1	.	.	.	.	.	.	.	.	.	.	G	34	5.302469	0.95601	.	.	ENSG00000066777	ENST00000520381;ENST00000262215	T;T	0.52754	0.65;0.65	5.84	5.84	0.93424	Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.76659	0.4018	M	0.89968	3.075	0.80722	D	1	D;D	0.89917	1.0;0.998	D;D	0.87578	0.998;0.964	T	0.80520	-0.1346	10	0.87932	D	0	.	20.1466	0.98079	0.0:0.0:1.0:0.0	.	975;429	Q9Y6D6;E5RIF2	BIG1_HUMAN;.	F	429;975	ENSP00000428429:L429F;ENSP00000262215:L975F	ENSP00000262215:L975F	L	-	1	0	ARFGEF1	68315007	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.734000	0.74801	2.779000	0.95612	0.591000	0.81541	CTT		0.368	ARFGEF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379441.4	NM_006421		A	68152453	G	A	68152453	3	1	661	1	0	0	0	0	1	0	0	0	852	942	33	2	2706	2	ARFGEF1	8	68152453	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10	15419472	68152453	78211569	34	41052										
PABPC1	26986	mdanderson.org	37	chr8	101721899	101721899	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tgtaactgctttagtggcttCttctggggaggagaaacata	12	6	2	1	rs142985461	byFrequency	TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr8:101721899C>A	ENST00000318607.5	-	8	2161	c.1033G>T	c.(1033-1035)Gaa>Taa	p.E345*	PABPC1_ENST00000519596.1_5'UTR|PABPC1_ENST00000519004.1_Nonsense_Mutation_p.E300*|PABPC1_ENST00000522387.1_Nonsense_Mutation_p.E313*|AP001205.1_ENST00000579868.1_RNA	NM_002568.3	NP_002559.2	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	345	RRM 4. {ECO:0000255|PROSITE- ProRule:PRU00176}.				cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|mRNA polyadenylation (GO:0006378)|mRNA splicing, via spliceosome (GO:0000398)|mRNA stabilization (GO:0048255)|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:2000623)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|positive regulation of translation (GO:0045727)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)|poly(U) RNA binding (GO:0008266)|protein C-terminus binding (GO:0008022)|translation activator activity (GO:0008494)			breast(2)|endometrium(4)|kidney(15)|large_intestine(4)|lung(13)|prostate(1)|skin(1)	40	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			TTAGTGGCTTCTTCTGGGGAG	0.423																																																0													74	69	71					8																	101721899		2203	4298	6501	SO:0001587	stop_gained	26986			Y00345	CCDS6289.1	8q22.2-q23	2013-02-12	2004-04-20		ENSG00000070756	ENSG00000070756		"RNA binding motif (RRM) containing"	8554	protein-coding gene	gene with protein product		604679	"poly(A)-binding protein, cytoplasmic 2"	PAB1, PABPC2		2885805	Standard	XM_005250861		Approved	PABP1, PABPL1	uc003yjs.1	P11940	OTTHUMG00000164779	ENST00000318607.5:c.1033G>T	8.37:g.101721899C>A	ENSP00000313007:p.Glu345*	Somatic		WXS	Illumina HiSeq	Phase_I	Q15097|Q93004	Nonsense_Mutation	SNP	ENST00000318607.5	37	CCDS6289.1	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	C|C|C	41|41|41	8.575894|8.575894|8.575894	0.98870|0.98870|0.98870	.|.|.	.|.|.	ENSG00000070756|ENSG00000070756|ENSG00000070756	ENST00000318607;ENST00000347137;ENST00000519004;ENST00000522387|ENST00000519100|ENST00000519596	.|.|.	.|.|.	.|.|.	4.92|4.92|4.92	4.92|4.92|4.92	0.64577|0.64577|0.64577	.|.|.	0.000000|.|.	0.64402|.|.	D|.|.	0.000008|.|.	.|T|T	.|0.74412|0.74412	.|0.3713|0.3713	.|.|.	.|.|.	.|.|.	0.80722|0.80722|0.80722	A|A|A	1|1|1	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|T|T	.|0.73987|0.73987	.|-0.3809|-0.3809	.|3|3	0.87932|.|.	D|.|.	0|.|.	.|.|.	18.4911|18.4911|18.4911	0.90848|0.90848|0.90848	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.|.	.|.|.	.|.|.	.|.|.	X|N|I	345;345;300;313|213|177	.|.|.	ENSP00000313007:E345X|.|.	E|K|R	-|-|-	1|3|2	0|2|0	PABPC1|PABPC1|PABPC1	101791075|101791075|101791075	1.000000|1.000000|1.000000	0.71417|0.71417|0.71417	1.000000|1.000000|1.000000	0.80357|0.80357|0.80357	0.998000|0.998000|0.998000	0.95712|0.95712|0.95712	7.748000|7.748000|7.748000	0.85085|0.85085|0.85085	2.426000|2.426000|2.426000	0.82243|0.82243|0.82243	0.655000|0.655000|0.655000	0.94253|0.94253|0.94253	GAA|AAG|AGA		0.423	PABPC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380217.1	NM_002568		A	101721899	C	A	101721899	4	1	661	1	0	0	0	0	0	1	0	0	11370	922	32	4	905	4	PABPC1	8	101721899	Nonsense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10	33569446	101721899	44642123	35	41053										
BAI1	575	broad.mit.edu	37	chr8	143562971	143562971	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tggagatctctcaggacgggAccagctacagtggggacctg	15	10	2	1			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr8:143562971A>G	ENST00000517894.1	+	11	2923	c.2029A>G	c.(2029-2031)Acc>Gcc	p.T677A	BAI1_ENST00000323289.5_Missense_Mutation_p.T677A			O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	677					axonogenesis (GO:0007409)|cell adhesion (GO:0007155)|G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cell proliferation (GO:0008285)|neuropeptide signaling pathway (GO:0007218)|peripheral nervous system development (GO:0007422)|signal transduction (GO:0007165)	cell-cell junction (GO:0005911)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(2)|lung(28)|ovary(4)|pancreas(1)|prostate(7)	57	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)					TCAGGACGGGACCAGCTACAG	0.627																																																0													41	48	46					8																	143562971		2060	4186	6246	SO:0001583	missense	575			AB005297	CCDS64985.1	8q24.3	2014-08-08			ENSG00000181790	ENSG00000181790		"-", "GPCR / Class B : Orphans"	943	protein-coding gene	gene with protein product		602682				9533023	Standard	NM_001702		Approved		uc003ywm.3	O14514	OTTHUMG00000164732	ENST00000517894.1:c.2029A>G	8.37:g.143562971A>G	ENSP00000430945:p.Thr677Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000517894.1	37		.	.	.	.	.	.	.	.	.	.	A	11.04	1.521645	0.27211	.	.	ENSG00000181790	ENST00000517894;ENST00000323289	T;T	0.09817	2.94;2.94	4.7	-0.423	0.12325	.	0.147583	0.44097	U	0.000497	T	0.06142	0.0159	N	0.21097	0.63	0.37769	D	0.926627	B	0.16802	0.019	B	0.24269	0.052	T	0.27806	-1.0063	10	0.44086	T	0.13	.	4.5373	0.12040	0.4542:0.0:0.3914:0.1544	.	677	E9PBK0	.	A	677	ENSP00000430945:T677A;ENSP00000313046:T677A	ENSP00000313046:T677A	T	+	1	0	BAI1	143559973	1.000000	0.71417	0.964000	0.40570	0.542000	0.35054	2.485000	0.45250	-0.064000	0.13043	0.260000	0.18958	ACC		0.627	BAI1-001	KNOWN	non_canonical_conserved|not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000379963.3	NM_001702		G	143562971	A	G	143562971	3	3	661	1	0	0	0	0	1	0	0	0	1298	275	10	3	2067	3	BAI1	8	143562971	Missense_Mutation	SNP	A	TCGA-KN-8425-01A-11D-2310-10	41841072	143562971	2801051	36	41054										
GTF3C5	9328	broad.mit.edu	37	chr9	135929828	135929828	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tgacttgccggtcaaagcaaAgcgcagcacctacaactaca	8	13	1	1			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr9:135929828A>G	ENST00000372097.5	+	7	1345	c.1022A>G	c.(1021-1023)aAg>aGg	p.K341R	GTF3C5_ENST00000372108.5_Missense_Mutation_p.K341R|GTF3C5_ENST00000372099.6_Missense_Mutation_p.K332R|GTF3C5_ENST00000342018.8_Missense_Mutation_p.K272R|GTF3C5_ENST00000372095.5_Missense_Mutation_p.K216R	NM_012087.3	NP_036219.2	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5, 63kDa	341					5S class rRNA transcription from RNA polymerase III type 1 promoter (GO:0042791)|gene expression (GO:0010467)|skeletal muscle cell differentiation (GO:0035914)|transcription from RNA polymerase III promoter (GO:0006383)|transcription, DNA-templated (GO:0006351)|tRNA transcription from RNA polymerase III promoter (GO:0042797)	nucleoplasm (GO:0005654)|transcription factor TFIIIC complex (GO:0000127)	DNA binding (GO:0003677)			endometrium(5)|kidney(1)|large_intestine(7)|lung(6)|pancreas(1)|prostate(1)	21				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		GTCAAAGCAAAGCGCAGCACC	0.602																																																0													105	89	95					9																	135929828		2203	4300	6503	SO:0001583	missense	9328			AF133124	CCDS6958.1, CCDS48050.1, CCDS75927.1	9q34.13	2010-03-23	2002-08-29		ENSG00000148308	ENSG00000148308		"General transcription factors"	4668	protein-coding gene	gene with protein product	"transcription factor IIIC, 63 kD"	604890	"general transcription factor IIIC, polypeptide 5 (63kD)"			10373544	Standard	NM_012087		Approved	TFiiiC2-63, TFIIIC63, TFIIICepsilon	uc004ccj.4	Q9Y5Q8	OTTHUMG00000020856	ENST00000372097.5:c.1022A>G	9.37:g.135929828A>G	ENSP00000361169:p.Lys341Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NI44|A6NJB9|Q5T7U2|Q5T7U3|Q8N2U7|Q8N857|Q96GD9|Q9H4P2	Missense_Mutation	SNP	ENST00000372097.5	37	CCDS6958.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	34|34	5.402263|5.402263	0.96030|0.96030	.|.	.|.	ENSG00000148308|ENSG00000148308	ENST00000372097;ENST00000372099;ENST00000372095;ENST00000372089;ENST00000372108;ENST00000342018;ENST00000439697|ENST00000434175;ENST00000435745	T;T;T;T;T;T|.	0.49432|.	0.78;0.78;0.78;0.78;0.78;0.78|.	5.65|5.65	5.65|5.65	0.86999|0.86999	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.76877|0.76877	0.4049|0.4049	M|M	0.81942|0.81942	2.565|2.565	0.58432|0.58432	D|D	0.99999|0.99999	D;D;D|.	0.89917|.	1.0;0.998;1.0|.	D;D;D|.	0.87578|.	0.998;0.955;0.998|.	T|T	0.78605|0.78605	-0.2139|-0.2139	10|5	0.13108|.	T|.	0.6|.	-10.4115|-10.4115	15.072|15.072	0.72046|0.72046	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	216;341;341|.	B7Z1V3;Q9Y5Q8-3;Q9Y5Q8|.	.;.;TF3C5_HUMAN|.	R|G	341;332;216;191;341;272;216|113;20	ENSP00000361169:K341R;ENSP00000361171:K332R;ENSP00000361167:K216R;ENSP00000361180:K341R;ENSP00000339530:K272R;ENSP00000393207:K216R|.	ENSP00000339530:K272R|.	K|S	+|+	2|1	0|0	GTF3C5|GTF3C5	134919649|134919649	1.000000|1.000000	0.71417|0.71417	0.997000|0.997000	0.53966|0.53966	0.981000|0.981000	0.71138|0.71138	8.913000|8.913000	0.92730|0.92730	2.146000|2.146000	0.66826|0.66826	0.533000|0.533000	0.62120|0.62120	AAG|AGC		0.602	GTF3C5-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054826.1	NM_001122823		G	135929828	A	G	135929828	3	3	661	1	0	0	0	0	1	0	0	0	6883	72	3	3	1048	3	GTF3C5	9	135929828	Missense_Mutation	SNP	A	TCGA-KN-8425-01A-11D-2310-10		135929828	5283603	37	41055										
NOTCH1	4851	broad.mit.edu	37	chr9	139417353	139417354	+	Frame_Shift_Ins	INS	-	-	GA													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	cccgtggggcggcaggtgccINScccgttctggcagggcgagg							TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr9:139417353_139417354insGA	ENST00000277541.6	-	4	765_766	c.690_691insTC	c.(688-693)gggggcfs	p.G231fs	NOTCH1_ENST00000491649.1_5'UTR	NM_017617.3	NP_060087.3	P46531	NOTC1_HUMAN	notch 1	231	EGF-like 6. {ECO:0000255|PROSITE- ProRule:PRU00076}.				anagen (GO:0042640)|aortic valve morphogenesis (GO:0003180)|apoptotic process involved in embryonic digit morphogenesis (GO:1902263)|arterial endothelial cell differentiation (GO:0060842)|atrioventricular node development (GO:0003162)|atrioventricular valve morphogenesis (GO:0003181)|auditory receptor cell fate commitment (GO:0009912)|axonogenesis (GO:0007409)|branching morphogenesis of an epithelial tube (GO:0048754)|cardiac atrium morphogenesis (GO:0003209)|cardiac chamber formation (GO:0003207)|cardiac epithelial to mesenchymal transition (GO:0060317)|cardiac left ventricle morphogenesis (GO:0003214)|cardiac muscle cell proliferation (GO:0060038)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac right atrium morphogenesis (GO:0003213)|cardiac right ventricle formation (GO:0003219)|cardiac septum morphogenesis (GO:0060411)|cardiac vascular smooth muscle cell development (GO:0060948)|cardiac ventricle morphogenesis (GO:0003208)|cell fate specification (GO:0001708)|cell migration involved in endocardial cushion formation (GO:0003273)|cellular response to follicle-stimulating hormone stimulus (GO:0071372)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|cilium morphogenesis (GO:0060271)|collecting duct development (GO:0072044)|compartment pattern specification (GO:0007386)|coronary artery morphogenesis (GO:0060982)|coronary vein morphogenesis (GO:0003169)|determination of left/right symmetry (GO:0007368)|distal tubule development (GO:0072017)|embryonic hindlimb morphogenesis (GO:0035116)|endocardial cell differentiation (GO:0060956)|endocardial cushion morphogenesis (GO:0003203)|endocardium development (GO:0003157)|endocardium morphogenesis (GO:0003160)|endoderm development (GO:0007492)|epithelial to mesenchymal transition (GO:0001837)|epithelial to mesenchymal transition involved in endocardial cushion formation (GO:0003198)|forebrain development (GO:0030900)|foregut morphogenesis (GO:0007440)|gene expression (GO:0010467)|glial cell differentiation (GO:0010001)|glomerular mesangial cell development (GO:0072144)|growth involved in heart morphogenesis (GO:0003241)|hair follicle morphogenesis (GO:0031069)|heart development (GO:0007507)|heart looping (GO:0001947)|heart trabecula morphogenesis (GO:0061384)|humoral immune response (GO:0006959)|immune response (GO:0006955)|in utero embryonic development (GO:0001701)|inflammatory response to antigenic stimulus (GO:0002437)|interleukin-4 secretion (GO:0072602)|keratinocyte differentiation (GO:0030216)|left/right axis specification (GO:0070986)|liver development (GO:0001889)|lung development (GO:0030324)|mesenchymal cell development (GO:0014031)|mitral valve formation (GO:0003192)|negative regulation of anoikis (GO:2000811)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of calcium ion-dependent exocytosis (GO:0045955)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of catalytic activity (GO:0043086)|negative regulation of cell migration involved in sprouting angiogenesis (GO:0090051)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell-substrate adhesion (GO:0010812)|negative regulation of endothelial cell chemotaxis (GO:2001027)|negative regulation of glial cell proliferation (GO:0060253)|negative regulation of myoblast differentiation (GO:0045662)|negative regulation of myotube differentiation (GO:0010832)|negative regulation of neurogenesis (GO:0050768)|negative regulation of oligodendrocyte differentiation (GO:0048715)|negative regulation of ossification (GO:0030279)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of photoreceptor cell differentiation (GO:0046533)|negative regulation of pro-B cell differentiation (GO:2000974)|negative regulation of stem cell differentiation (GO:2000737)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neural tube development (GO:0021915)|neuronal stem cell maintenance (GO:0097150)|Notch receptor processing (GO:0007220)|Notch signaling involved in heart development (GO:0061314)|Notch signaling pathway (GO:0007219)|Notch signaling pathway involved in regulation of secondary heart field cardioblast proliferation (GO:0003270)|pericardium morphogenesis (GO:0003344)|positive regulation of apoptotic process (GO:0043065)|positive regulation of astrocyte differentiation (GO:0048711)|positive regulation of BMP signaling pathway (GO:0030513)|positive regulation of cardiac muscle cell proliferation (GO:0060045)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of JAK-STAT cascade (GO:0046427)|positive regulation of keratinocyte differentiation (GO:0045618)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061419)|positive regulation of transcription of Notch receptor target (GO:0007221)|positive regulation of transcription, DNA-templated (GO:0045893)|prostate gland epithelium morphogenesis (GO:0060740)|pulmonary valve morphogenesis (GO:0003184)|regulation of epithelial cell proliferation involved in prostate gland development (GO:0060768)|regulation of extracellular matrix assembly (GO:1901201)|regulation of somitogenesis (GO:0014807)|regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation (GO:0003256)|regulation of transcription, DNA-templated (GO:0006355)|response to muramyl dipeptide (GO:0032495)|secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development (GO:0060528)|skeletal muscle cell differentiation (GO:0035914)|somatic stem cell division (GO:0048103)|sprouting angiogenesis (GO:0002040)|transcription initiation from RNA polymerase II promoter (GO:0006367)|tube formation (GO:0035148)|vasculogenesis involved in coronary vascular morphogenesis (GO:0060979)|venous endothelial cell differentiation (GO:0060843)|ventricular septum morphogenesis (GO:0060412)|ventricular trabecula myocardium morphogenesis (GO:0003222)	cell surface (GO:0009986)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|MAML1-RBP-Jkappa- ICN1 complex (GO:0002193)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)|chromatin DNA binding (GO:0031490)|core promoter binding (GO:0001047)|enzyme binding (GO:0019899)|enzyme inhibitor activity (GO:0004857)|receptor activity (GO:0004872)|RNA polymerase II transcription factor binding transcription factor activity involved in positive regulation of transcription (GO:0001190)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(16)|central_nervous_system(17)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1183)|kidney(4)|large_intestine(1)|lung(57)|oesophagus(2)|ovary(3)|pancreas(1)|prostate(3)|skin(21)|upper_aerodigestive_tract(39)|urinary_tract(3)	1359	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		CGGCAGGTGCCCCCGTTCTGGC	0.748			"T, Mis, O"	TRB@	T-ALL					HNSCC(8;0.001)																													Dom	yes		9	9q34.3	4851	"Notch homolog 1, translocation-associated (Drosophila) (TAN1)"		L	0										3,3549		1,1,1774						4.8	1			8	11,7377		2,7,3685	no	frameshift	NOTCH1	NM_017617.3		3,8,5459	A1A1,A1R,RR		0.1489,0.0845,0.128				14,10926				SO:0001589	frameshift_variant	4851			AF308602	CCDS43905.1	9q34.3	2013-01-10	2010-06-24		ENSG00000148400	ENSG00000148400		"Ankyrin repeat domain containing"	7881	protein-coding gene	gene with protein product		190198	"Notch (Drosophila) homolog 1 (translocation-associated)", "Notch homolog 1, translocation-associated (Drosophila)"	TAN1		1831692	Standard	NM_017617		Approved		uc004chz.3	P46531	OTTHUMG00000020935	ENST00000277541.6:c.690_691insTC	9.37:g.139417353_139417354insGA	ENSP00000277541:p.Gly231fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q59ED8|Q5SXM3	Frame_Shift_Ins	INS	ENST00000277541.6	37	CCDS43905.1																																																																																				0.748	NOTCH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055087.1	NM_017617		GA	139417354	-	GA	139417353	7	5	661	1	0	1	1	0	0	0	0	0	10554	623	22	0	7100	0	NOTCH1	9	139417353	Frame_Shift_Ins	INS	-	TCGA-KN-8425-01A-11D-2310-10	3487525	139417353	1796078	38	41056	387	2								
NOTCH1	4851	broad.mit.edu	37	chr9	139417355	139417356	+	Frame_Shift_Ins	INS	-	-	T													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	cgtggggcggcaggtgccccINScgttctggcagggcgagggg							TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr9:139417355_139417356insT	ENST00000277541.6	-	4	763_764	c.688_689insA	c.(688-690)gggfs	p.G230fs	NOTCH1_ENST00000491649.1_5'UTR	NM_017617.3	NP_060087.3	P46531	NOTC1_HUMAN	notch 1	230	EGF-like 6. {ECO:0000255|PROSITE- ProRule:PRU00076}.				anagen (GO:0042640)|aortic valve morphogenesis (GO:0003180)|apoptotic process involved in embryonic digit morphogenesis (GO:1902263)|arterial endothelial cell differentiation (GO:0060842)|atrioventricular node development (GO:0003162)|atrioventricular valve morphogenesis (GO:0003181)|auditory receptor cell fate commitment (GO:0009912)|axonogenesis (GO:0007409)|branching morphogenesis of an epithelial tube (GO:0048754)|cardiac atrium morphogenesis (GO:0003209)|cardiac chamber formation (GO:0003207)|cardiac epithelial to mesenchymal transition (GO:0060317)|cardiac left ventricle morphogenesis (GO:0003214)|cardiac muscle cell proliferation (GO:0060038)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac right atrium morphogenesis (GO:0003213)|cardiac right ventricle formation (GO:0003219)|cardiac septum morphogenesis (GO:0060411)|cardiac vascular smooth muscle cell development (GO:0060948)|cardiac ventricle morphogenesis (GO:0003208)|cell fate specification (GO:0001708)|cell migration involved in endocardial cushion formation (GO:0003273)|cellular response to follicle-stimulating hormone stimulus (GO:0071372)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|cilium morphogenesis (GO:0060271)|collecting duct development (GO:0072044)|compartment pattern specification (GO:0007386)|coronary artery morphogenesis (GO:0060982)|coronary vein morphogenesis (GO:0003169)|determination of left/right symmetry (GO:0007368)|distal tubule development (GO:0072017)|embryonic hindlimb morphogenesis (GO:0035116)|endocardial cell differentiation (GO:0060956)|endocardial cushion morphogenesis (GO:0003203)|endocardium development (GO:0003157)|endocardium morphogenesis (GO:0003160)|endoderm development (GO:0007492)|epithelial to mesenchymal transition (GO:0001837)|epithelial to mesenchymal transition involved in endocardial cushion formation (GO:0003198)|forebrain development (GO:0030900)|foregut morphogenesis (GO:0007440)|gene expression (GO:0010467)|glial cell differentiation (GO:0010001)|glomerular mesangial cell development (GO:0072144)|growth involved in heart morphogenesis (GO:0003241)|hair follicle morphogenesis (GO:0031069)|heart development (GO:0007507)|heart looping (GO:0001947)|heart trabecula morphogenesis (GO:0061384)|humoral immune response (GO:0006959)|immune response (GO:0006955)|in utero embryonic development (GO:0001701)|inflammatory response to antigenic stimulus (GO:0002437)|interleukin-4 secretion (GO:0072602)|keratinocyte differentiation (GO:0030216)|left/right axis specification (GO:0070986)|liver development (GO:0001889)|lung development (GO:0030324)|mesenchymal cell development (GO:0014031)|mitral valve formation (GO:0003192)|negative regulation of anoikis (GO:2000811)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of calcium ion-dependent exocytosis (GO:0045955)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of catalytic activity (GO:0043086)|negative regulation of cell migration involved in sprouting angiogenesis (GO:0090051)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell-substrate adhesion (GO:0010812)|negative regulation of endothelial cell chemotaxis (GO:2001027)|negative regulation of glial cell proliferation (GO:0060253)|negative regulation of myoblast differentiation (GO:0045662)|negative regulation of myotube differentiation (GO:0010832)|negative regulation of neurogenesis (GO:0050768)|negative regulation of oligodendrocyte differentiation (GO:0048715)|negative regulation of ossification (GO:0030279)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of photoreceptor cell differentiation (GO:0046533)|negative regulation of pro-B cell differentiation (GO:2000974)|negative regulation of stem cell differentiation (GO:2000737)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neural tube development (GO:0021915)|neuronal stem cell maintenance (GO:0097150)|Notch receptor processing (GO:0007220)|Notch signaling involved in heart development (GO:0061314)|Notch signaling pathway (GO:0007219)|Notch signaling pathway involved in regulation of secondary heart field cardioblast proliferation (GO:0003270)|pericardium morphogenesis (GO:0003344)|positive regulation of apoptotic process (GO:0043065)|positive regulation of astrocyte differentiation (GO:0048711)|positive regulation of BMP signaling pathway (GO:0030513)|positive regulation of cardiac muscle cell proliferation (GO:0060045)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of JAK-STAT cascade (GO:0046427)|positive regulation of keratinocyte differentiation (GO:0045618)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061419)|positive regulation of transcription of Notch receptor target (GO:0007221)|positive regulation of transcription, DNA-templated (GO:0045893)|prostate gland epithelium morphogenesis (GO:0060740)|pulmonary valve morphogenesis (GO:0003184)|regulation of epithelial cell proliferation involved in prostate gland development (GO:0060768)|regulation of extracellular matrix assembly (GO:1901201)|regulation of somitogenesis (GO:0014807)|regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation (GO:0003256)|regulation of transcription, DNA-templated (GO:0006355)|response to muramyl dipeptide (GO:0032495)|secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development (GO:0060528)|skeletal muscle cell differentiation (GO:0035914)|somatic stem cell division (GO:0048103)|sprouting angiogenesis (GO:0002040)|transcription initiation from RNA polymerase II promoter (GO:0006367)|tube formation (GO:0035148)|vasculogenesis involved in coronary vascular morphogenesis (GO:0060979)|venous endothelial cell differentiation (GO:0060843)|ventricular septum morphogenesis (GO:0060412)|ventricular trabecula myocardium morphogenesis (GO:0003222)	cell surface (GO:0009986)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|MAML1-RBP-Jkappa- ICN1 complex (GO:0002193)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)|chromatin DNA binding (GO:0031490)|core promoter binding (GO:0001047)|enzyme binding (GO:0019899)|enzyme inhibitor activity (GO:0004857)|receptor activity (GO:0004872)|RNA polymerase II transcription factor binding transcription factor activity involved in positive regulation of transcription (GO:0001190)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(16)|central_nervous_system(17)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1183)|kidney(4)|large_intestine(1)|lung(57)|oesophagus(2)|ovary(3)|pancreas(1)|prostate(3)|skin(21)|upper_aerodigestive_tract(39)|urinary_tract(3)	1359	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GCAGGTGCCCCCGTTCTGGCAG	0.748			"T, Mis, O"	TRB@	T-ALL					HNSCC(8;0.001)																													Dom	yes		9	9q34.3	4851	"Notch homolog 1, translocation-associated (Drosophila) (TAN1)"		L	0																																										SO:0001589	frameshift_variant	4851			AF308602	CCDS43905.1	9q34.3	2013-01-10	2010-06-24		ENSG00000148400	ENSG00000148400		"Ankyrin repeat domain containing"	7881	protein-coding gene	gene with protein product		190198	"Notch (Drosophila) homolog 1 (translocation-associated)", "Notch homolog 1, translocation-associated (Drosophila)"	TAN1		1831692	Standard	NM_017617		Approved		uc004chz.3	P46531	OTTHUMG00000020935	ENST00000277541.6:c.688_689insA	9.37:g.139417355_139417356insT	ENSP00000277541:p.Gly230fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q59ED8|Q5SXM3	Frame_Shift_Ins	INS	ENST00000277541.6	37	CCDS43905.1																																																																																				0.748	NOTCH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055087.1	NM_017617		T	139417356	-	T	139417355	7	5	661	1	0	1	1	0	0	0	0	0	10554	623	22	0	7102	0	NOTCH1	9	139417355	Frame_Shift_Ins	INS	-	TCGA-KN-8425-01A-11D-2310-10	2	139417355	1796076	39	41057	387	2								
OR10A5	144124	mdanderson.org	37	chr11	6867588	6867588	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tatactcgcattgctgctgcTatcctcaagatcccatcagc	6	14	2	1			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr11:6867588T>C	ENST00000299454.4	+	1	706	c.675T>C	c.(673-675)gcT>gcC	p.A225A	OR10A5_ENST00000379831.2_Silent_p.A229A			Q9H207	O10A5_HUMAN	olfactory receptor, family 10, subfamily A, member 5	225					detection of chemical stimulus involved in sensory perception of smell (GO:0050911)|sensory perception of smell (GO:0007608)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(1)|kidney(2)|large_intestine(1)|lung(12)|ovary(1)|skin(2)|urinary_tract(2)	21		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		TTGCTGCTGCTATCCTCAAGA	0.473																																					Pancreas(44;21 1072 25662 28041 45559)											0													286	234	252					11																	6867588		2201	4296	6497	SO:0001819	synonymous_variant	144124			AF324499	CCDS7773.1	11p15.4	2012-08-09			ENSG00000166363	ENSG00000166363		"GPCR / Class A : Olfactory receptors"	15131	protein-coding gene	gene with protein product		608493		OR10A1			Standard	NM_178168		Approved	OR11-403, JCG6	uc001met.1	Q9H207	OTTHUMG00000165738	ENST00000299454.4:c.675T>C	11.37:g.6867588T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O95223|Q52M66|Q96R21|Q96R22	Silent	SNP	ENST00000299454.4	37	CCDS7773.1																																																																																				0.473	OR10A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385983.1	NM_178168		C	6867588	T	C	6867588	2	2	661	1	0	0	0	0	0	0	0	1	10900	1509	53	3		3	OR10A5	11	6867588	Silent	SNP	T	TCGA-KN-8425-01A-11D-2310-10		6867588	128138928	40	41058										
ABCC8	6833	broad.mit.edu	37	chr11	17483365	17483365	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	ccctcggtgtcttgaagaagAtgtatctctgtggggcacat	12	9	2	3			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr11:17483365A>G	ENST00000389817.3	-	5	655	c.587T>C	c.(586-588)aTc>aCc	p.I196T	ABCC8_ENST00000302539.4_Missense_Mutation_p.I196T			Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 8	196					carbohydrate metabolic process (GO:0005975)|energy reserve metabolic process (GO:0006112)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|regulation of insulin secretion (GO:0050796)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|ion channel binding (GO:0044325)|potassium ion transmembrane transporter activity (GO:0015079)|sulfonylurea receptor activity (GO:0008281)			NS(1)|breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(14)|lung(38)|ovary(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	67				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Chlorpropamide(DB00672)|Gliclazide(DB01120)|Glimepiride(DB00222)|Glipizide(DB01067)|Gliquidone(DB01251)|Glyburide(DB01016)|Glycodiazine(DB01382)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)|Tolbutamide(DB01124)	CTTGAAGAAGATGTATCTCTG	0.572																																																0													58	55	56					11																	17483365		2200	4293	6493	SO:0001583	missense	6833			L78207	CCDS31437.1, CCDS73264.1	11p15.1	2014-09-17			ENSG00000006071	ENSG00000006071		"ATP binding cassette transporters / subfamily C"	59	protein-coding gene	gene with protein product	"sulfonylurea receptor (hyperinsulinemia)"	600509		SUR, HRINS		7920639, 7716548	Standard	NM_000352		Approved	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2	uc001mnc.3	Q09428	OTTHUMG00000166316	ENST00000389817.3:c.587T>C	11.37:g.17483365A>G	ENSP00000374467:p.Ile196Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMX8|E3UYX6|O75948|Q16583	Missense_Mutation	SNP	ENST00000389817.3	37	CCDS31437.1	.	.	.	.	.	.	.	.	.	.	A	16.31	3.087067	0.55861	.	.	ENSG00000006071	ENST00000389817;ENST00000302539;ENST00000379493	D;D	0.91180	-2.8;-2.8	5.49	5.49	0.81192	.	0.230857	0.36034	N	0.002829	D	0.83806	0.5334	N	0.14661	0.345	0.44439	D	0.997363	B;B	0.18968	0.032;0.009	B;B	0.19946	0.017;0.027	T	0.80056	-0.1542	10	0.51188	T	0.08	.	15.8929	0.79315	1.0:0.0:0.0:0.0	.	196;196	B7Z4N0;Q09428	.;ABCC8_HUMAN	T	196;196;210	ENSP00000374467:I196T;ENSP00000303960:I196T	ENSP00000303960:I196T	I	-	2	0	ABCC8	17439941	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.057000	0.93889	2.205000	0.71048	0.528000	0.53228	ATC		0.572	ABCC8-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000389093.1	NM_000352		G	17483365	A	G	17483365	3	3	661	1	0	0	0	0	1	0	0	0	58	333	12	3	4298	3	ABCC8	11	17483365	Missense_Mutation	SNP	A	TCGA-KN-8425-01A-11D-2310-10	10615777	17483365	117523151	41	41059										
C2CD3	26005	broad.mit.edu	37	chr11	73820090	73820090	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tcaaagtacctttttctgtgGagttttctttacataaattt	5	6	3	0			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr11:73820090G>T	ENST00000334126.7	-	12	2177	c.1951C>A	c.(1951-1953)Cca>Aca	p.P651T	C2CD3_ENST00000313663.7_Missense_Mutation_p.P651T			Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	651					brain development (GO:0007420)|centriole elongation (GO:0061511)|embryonic digit morphogenesis (GO:0042733)|heart looping (GO:0001947)|in utero embryonic development (GO:0001701)|neural plate axis specification (GO:0021997)|neural tube development (GO:0021915)|nonmotile primary cilium assembly (GO:0035058)|protein localization to centrosome (GO:0071539)|protein processing (GO:0016485)|regulation of proteolysis (GO:0030162)|regulation of smoothened signaling pathway (GO:0008589)	centriolar satellite (GO:0034451)|centriole (GO:0005814)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)				NS(1)|breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(16)|lung(26)|ovary(4)|pancreas(2)|prostate(1)|skin(3)	64	Breast(11;4.16e-06)					TTTTTCTGTGGAGTTTTCTTT	0.398																																																0													112	110	111					11																	73820090		2200	4293	6493	SO:0001583	missense	26005			BC035599	CCDS31636.1, CCDS66167.1	11q13.4	2014-02-12	2007-10-17		ENSG00000168014	ENSG00000168014			24564	protein-coding gene	gene with protein product		615944					Standard	XM_005273897		Approved	DKFZP586P0123	uc001ouu.2	Q4AC94	OTTHUMG00000168110	ENST00000334126.7:c.1951C>A	11.37:g.73820090G>T	ENSP00000334379:p.Pro651Thr	Somatic		WXS	Illumina HiSeq	Phase_I	C9JR55|E2QRD1|Q2NLE1|Q3C1U9|Q6ZU92|Q8IYM4|Q8NB87|Q8NDH7|Q9Y4M2	Missense_Mutation	SNP	ENST00000334126.7	37		.	.	.	.	.	.	.	.	.	.	G	0.210	-1.037313	0.02013	.	.	ENSG00000168014	ENST00000334126;ENST00000313663;ENST00000313681	T;T	0.08546	3.08;3.08	5.46	2.38	0.29361	.	0.291255	0.34223	N	0.004144	T	0.04543	0.0124	L	0.36672	1.1	0.25691	N	0.985688	B	0.28350	0.208	B	0.22152	0.038	T	0.35276	-0.9795	10	0.09084	T	0.74	-1.4511	3.0945	0.06304	0.0926:0.1185:0.4536:0.3353	.	651	Q4AC94-1	.	T	651	ENSP00000334379:P651T;ENSP00000323339:P651T	ENSP00000323339:P651T	P	-	1	0	C2CD3	73497738	0.979000	0.34478	0.885000	0.34714	0.593000	0.36681	1.535000	0.36061	1.310000	0.45006	0.650000	0.86243	CCA		0.398	C2CD3-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_015531		T	73820090	G	T	73820090	3	4	661	1	0	0	0	0	1	0	0	0	2156	1174	41	4	4020	4	C2CD3	11	73820090	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10	56336725	73820090	61186426	42	41060										
KIAA1377	57562	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	101793446	101793446	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gcagcaacaaaaaatatgtcGaaatcgagcacgtaaatatt	7	7	0	0	rs142032267	byFrequency	TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr11:101793446G>A	ENST00000263468.8	+	2	473	c.203G>A	c.(202-204)cGa>cAa	p.R68Q		NM_020802.2	NP_065853.2	Q9P2H0	K1377_HUMAN	KIAA1377	68								p.R68L(1)		breast(4)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(12)|lung(18)|ovary(1)|prostate(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	53	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		AAAATATGTCGAAATCGAGCA	0.303																																																1	Substitution - Missense(1)	lung(1)						G	GLN/ARG	0,4406		0,0,2203	67	70	69		203	5.8	1	11	dbSNP_134	69	1,8597	1.2+/-3.3	0,1,4298	no	missense	KIAA1377	NM_020802.2	43	0,1,6501	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	68/1118	101793446	1,13003	2203	4299	6502	SO:0001583	missense	57562			AK095004	CCDS31658.1	11q22.2	2006-02-03			ENSG00000110318	ENSG00000110318			29264	protein-coding gene	gene with protein product		614634				10718198	Standard	XM_005271627		Approved		uc001pgm.3	Q9P2H0	OTTHUMG00000167319	ENST00000263468.8:c.203G>A	11.37:g.101793446G>A	ENSP00000263468:p.Arg68Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0U6	Missense_Mutation	SNP	ENST00000263468.8	37	CCDS31658.1	.	.	.	.	.	.	.	.	.	.	G	28.7	4.945729	0.92593	0.0	1.16E-4	ENSG00000110318	ENST00000263468	T	0.12361	2.69	5.84	5.84	0.93424	.	0.000000	0.53938	D	0.000056	T	0.38241	0.1033	M	0.67953	2.075	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.03728	-1.1009	10	0.87932	D	0	-11.1498	17.6233	0.88088	0.0:0.0:1.0:0.0	.	68	Q9P2H0	K1377_HUMAN	Q	68	ENSP00000263468:R68Q	ENSP00000263468:R68Q	R	+	2	0	KIAA1377	101298656	1.000000	0.71417	1.000000	0.80357	0.892000	0.51952	5.645000	0.67909	2.758000	0.94735	0.591000	0.81541	CGA		0.303	KIAA1377-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394140.1	NM_020802		A	101793446	G	A	101793446	3	1	661	1	0	0	0	0	1	0	0	0	8234	1058	37	1	209	1	KIAA1377	11	101793446	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10	27973356	101793446	33213070	43	41061										
ITGA5	3678	broad.mit.edu	37	chr12	54812840	54812840	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gccccgagagtactgctgggGcctccgcgtctaagttgaag	14	12	1	2			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr12:54812840G>T	ENST00000293379.4	-	1	404	c.143C>A	c.(142-144)gCc>gAc	p.A48D	RP11-753H16.5_ENST00000552785.1_RNA|RP11-753H16.3_ENST00000550474.1_RNA|RP11-753H16.3_ENST00000552053.1_RNA	NM_002205.2	NP_002196.2	P08648	ITA5_HUMAN	integrin, alpha 5 (fibronectin receptor, alpha polypeptide)	48					angiogenesis (GO:0001525)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell-cell adhesion mediated by integrin (GO:0033631)|cell-substrate adhesion (GO:0031589)|cell-substrate junction assembly (GO:0007044)|endodermal cell differentiation (GO:0035987)|extracellular matrix organization (GO:0030198)|heterophilic cell-cell adhesion (GO:0007157)|heterotypic cell-cell adhesion (GO:0034113)|integrin-mediated signaling pathway (GO:0007229)|leukocyte cell-cell adhesion (GO:0007159)|leukocyte migration (GO:0050900)|memory (GO:0007613)|negative regulation of anoikis (GO:2000811)|positive regulation of cell migration (GO:0030335)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030949)|viral process (GO:0016032)|wound healing, spreading of epidermal cells (GO:0035313)	alphav-beta3 integrin-vitronectin complex (GO:0071062)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|external side of plasma membrane (GO:0009897)|focal adhesion (GO:0005925)|integrin complex (GO:0008305)|plasma membrane (GO:0005886)|ruffle (GO:0001726)|synapse (GO:0045202)	metal ion binding (GO:0046872)|platelet-derived growth factor receptor binding (GO:0005161)|vascular endothelial growth factor receptor 2 binding (GO:0043184)			NS(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(11)|ovary(2)|prostate(1)|upper_aerodigestive_tract(2)	34						TACTGCTGGGGCCTCCGCGTC	0.706																																																0													13	19	17					12																	54812840		2110	4214	6324	SO:0001583	missense	3678				CCDS8880.1	12q11-q13	2010-03-23				ENSG00000161638		"CD molecules", "Integrins"	6141	protein-coding gene	gene with protein product		135620		FNRA		2454952	Standard	NM_002205		Approved	CD49e	uc001sga.3	P08648	OTTHUMG00000169841	ENST00000293379.4:c.143C>A	12.37:g.54812840G>T	ENSP00000293379:p.Ala48Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q96HA5	Missense_Mutation	SNP	ENST00000293379.4	37	CCDS8880.1	.	.	.	.	.	.	.	.	.	.	G	11.64	1.699146	0.30142	.	.	ENSG00000161638	ENST00000293379	T	0.69685	-0.42	4.54	3.64	0.41730	.	0.339088	0.30959	N	0.008525	T	0.50411	0.1614	L	0.28400	0.85	0.38871	D	0.956695	B	0.32781	0.384	B	0.28305	0.088	T	0.53078	-0.8489	10	0.39692	T	0.17	.	10.6553	0.45671	0.0:0.1943:0.8057:0.0	.	48	P08648	ITA5_HUMAN	D	48	ENSP00000293379:A48D	ENSP00000293379:A48D	A	-	2	0	ITGA5	53099107	1.000000	0.71417	1.000000	0.80357	0.778000	0.44026	2.524000	0.45589	1.254000	0.44035	0.462000	0.41574	GCC		0.706	ITGA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406174.1			T	54812840	G	T	54812840	3	4	661	1	0	0	0	0	1	0	0	0	7886	1203	42	4	3126	4	ITGA5	12	54812840	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10		54812840	79039055	44	41062										
FBXO21	23014	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	117624289	117624289	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	agctatggcttaccttccttCcatatttaggatacacacca	5	12	0	0			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr12:117624289C>A	ENST00000330622.5	-	3	462	c.463G>T	c.(463-465)Gaa>Taa	p.E155*	FBXO21_ENST00000427718.2_Nonsense_Mutation_p.E155*|FBXO21_ENST00000549689.1_5'UTR			O94952	FBX21_HUMAN	F-box protein 21	155					protein ubiquitination (GO:0016567)|ubiquitin-dependent protein catabolic process (GO:0006511)	ubiquitin ligase complex (GO:0000151)	DNA binding (GO:0003677)|ubiquitin-protein transferase activity (GO:0004842)			breast(4)|endometrium(3)|kidney(2)|large_intestine(6)|lung(8)|pancreas(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	29	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0291)		TACCTTCCTTCCATATTTAGG	0.388																																					GBM(168;452 2038 13535 17701 43680)											0													91	88	89					12																	117624289		2203	4300	6503	SO:0001587	stop_gained	23014			AB020682	CCDS9184.1, CCDS44989.1	12q24.23	2004-06-15	2004-06-15					"F-boxes /  "other""	13592	protein-coding gene	gene with protein product		609095	"F-box only protein 21"			10048485, 10531035	Standard	NM_033624		Approved	FBX21, KIAA0875	uc001twk.3	O94952	OTTHUMG00000169495	ENST00000330622.5:c.463G>T	12.37:g.117624289C>A	ENSP00000328187:p.Glu155*	Somatic		WXS	Illumina HiSeq	Phase_I	B3KMF0|Q5BJG0|Q9H087	Nonsense_Mutation	SNP	ENST00000330622.5	37	CCDS9184.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	24.0|24.0	4.478785|4.478785	0.84747|0.84747	.|.	.|.	ENSG00000135108|ENSG00000135108	ENST00000427718;ENST00000257563;ENST00000535590;ENST00000330622|ENST00000550180	.|.	.|.	.|.	5.67|5.67	5.67|5.67	0.87782|0.87782	.|.	0.058331|.	0.64402|.	D|.	0.000002|.	.|T	.|0.76506	.|0.3997	.|.	.|.	.|.	0.80722|0.80722	A|A	1|1	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.74680	.|-0.3584	.|3	0.14252|.	T|.	0.57|.	-14.5205|-14.5205	19.3563|19.3563	0.94416|0.94416	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|.	.|.	.|.	X|V	155;71;71;155|98	.|.	ENSP00000257563:E71X|.	E|G	-|-	1|2	0|0	FBXO21|FBXO21	116108672|116108672	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	4.803000|4.803000	0.62546|0.62546	2.670000|2.670000	0.90874|0.90874	0.655000|0.655000	0.94253|0.94253	GAA|GGA		0.388	FBXO21-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000404409.1	NM_033624		A	117624289	C	A	117624289	4	1	661	1	0	0	0	0	0	1	0	0	5740	864	30	4	1463	4	FBXO21	12	117624289	Nonsense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10	62811449	117624289	16227606	45	41063										
TMEM30B	161291	mdanderson.org	37	chr14	61747644	61747644	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gcggcgcacaccgagcagttAccggtgcccgggtcgcctgt	15	15	0	0	rs3196765	byFrequency	TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr14:61747644A>G	ENST00000555868.1	-	1	914	c.222T>C	c.(220-222)ggT>ggC	p.G74G	TMEM30B_ENST00000355702.2_Silent_p.G74G|TMEM30B_ENST00000557163.1_5'UTR	NM_001017970.2	NP_001017970.1	Q3MIR4	CC50B_HUMAN	transmembrane protein 30B	74					lipid transport (GO:0006869)|positive regulation of protein exit from endoplasmic reticulum (GO:0070863)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(2)|large_intestine(1)|lung(1)|prostate(1)|stomach(1)	6				OV - Ovarian serous cystadenocarcinoma(108;0.107)|BRCA - Breast invasive adenocarcinoma(234;0.181)		CCGAGCAGTTACCGGTGCCCG	0.706													G|||	3905	0.779752	0.6528	0.7392	5008	,	,		11768	0.8591		0.8638	False		,,,				2504	0.8119															0								G		2664,1138		957,750,194	6	5	6		222	4.3	1	14	dbSNP_105	6	6522,954		2863,796,79	no	coding-synonymous	TMEM30B	NM_001017970.2		3820,1546,273	GG,GA,AA		12.7608,29.9316,18.5494		74/352	61747644	9186,2092	1901	3738	5639	SO:0001819	synonymous_variant	161291			AK091169	CCDS32093.1	14q23.1	2006-09-20				ENSG00000182107			27254	protein-coding gene	gene with protein product		611029				15375526	Standard	NM_001017970		Approved	CDC50B	uc001xfl.3	Q3MIR4		ENST00000555868.1:c.222T>C	14.37:g.61747644A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KR84|Q14D00	Silent	SNP	ENST00000555868.1	37	CCDS32093.1																																																																																				0.706	TMEM30B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413358.1	XM_090844		G	61747644	A	G	61747644	2	3	661	1	0	0	0	0	0	0	0	1	16166	378	14	3		3	TMEM30B	14	61747644	Silent	SNP	A	TCGA-KN-8425-01A-11D-2310-10		61747644	45601896	46	41064										
PLEKHG3	26030	broad.mit.edu	37	chr14	65209023	65209024	+	Frame_Shift_Ins	INS	-	-	C													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gaacaaggtctaccagctggINScccgccagtacagcctccgg							TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr14:65209023_65209024insC	ENST00000394691.1	+	16	2935_2936	c.2788_2789insC	c.(2788-2790)gccfs	p.A930fs	PLEKHG3_ENST00000247226.7_Frame_Shift_Ins_p.A874fs|PLEKHG3_ENST00000471182.2_Frame_Shift_Ins_p.A463fs|PLEKHG3_ENST00000484731.2_Frame_Shift_Ins_p.A435fs|PLEKHG3_ENST00000492928.1_Intron			A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G (with RhoGef domain) member 3	930							Rho guanyl-nucleotide exchange factor activity (GO:0005089)			endometrium(5)|kidney(2)|large_intestine(1)|lung(14)|prostate(2)|skin(3)|urinary_tract(2)	29				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		CTACCAGCTGGCCCGCCAGTAC	0.644																																																0																																										SO:0001589	frameshift_variant	26030			AB011171	CCDS32098.1	14q23.3	2013-01-10	2004-12-01	2004-12-01	ENSG00000126822	ENSG00000126822		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	20364	protein-coding gene	gene with protein product			"KIAA0599"	KIAA0599			Standard	XM_005267511		Approved	ARHGEF43	uc001xhp.2	A1L390	OTTHUMG00000029671	ENST00000394691.1:c.2791dupC	14.37:g.65209026_65209026dupC	ENSP00000378183:p.Ala930fs	Somatic		WXS	Illumina HiSeq	Phase_I	A1L389|B5MEC9|O60339|Q6GMS3|Q6P4B1|Q7L3S3|Q86SW7|Q8TEF5|Q96EW6|Q9BT82	Frame_Shift_Ins	INS	ENST00000394691.1	37																																																																																					0.644	PLEKHG3-010	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000412028.1	NM_015549		C	65209024	-	C	65209023	7	5	661	1	0	1	1	0	0	0	0	0	12077	1203	42	0	2670	0	PLEKHG3	14	65209023	Frame_Shift_Ins	INS	-	TCGA-KN-8425-01A-11D-2310-10	3461379	65209023	42140517	47	41065										
BAG5	9529	bcgsc.ca	37	chr14	104026390	104026390	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	cagacaagtttccaaggacgTtccagacggctttatgggat	11	9	0	2			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr14:104026390T>C	ENST00000445922.2	-	2	1358	c.1112A>G	c.(1111-1113)aAc>aGc	p.N371S	APOPT1_ENST00000409074.2_5'Flank|APOPT1_ENST00000556253.2_5'Flank|RP11-73M18.2_ENST00000472726.2_5'Flank|BAG5_ENST00000299204.4_Missense_Mutation_p.N371S|BAG5_ENST00000337322.4_Missense_Mutation_p.N412S|RP11-894P9.2_ENST00000556332.1_RNA|APOPT1_ENST00000247618.4_5'Flank	NM_004873.3	NP_004864.1	Q9UL15	BAG5_HUMAN	BCL2-associated athanogene 5	371	BAG 5. {ECO:0000255|PROSITE- ProRule:PRU00369}.				negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902176)|negative regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032435)|negative regulation of protein refolding (GO:0061084)|negative regulation of protein ubiquitination (GO:0031397)|negative regulation of ubiquitin-protein transferase activity (GO:0051444)|neuron death (GO:0070997)|protein folding (GO:0006457)|regulation of inclusion body assembly (GO:0090083)	inclusion body (GO:0016234)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	chaperone binding (GO:0051087)|protein kinase binding (GO:0019901)|ubiquitin protein ligase binding (GO:0031625)			endometrium(5)|large_intestine(4)|lung(7)|ovary(2)|prostate(2)|skin(2)|urinary_tract(2)	24		Melanoma(154;0.155)	Epithelial(46;0.144)			TCCAAGGACGTTCCAGACGGC	0.468																																					NSCLC(171;1832 2055 18950 31566 41632)											0													108	118	114					14																	104026390		2203	4300	6503	SO:0001583	missense	9529			AF095195	CCDS9982.1, CCDS41995.1	14q32	2008-08-01				ENSG00000166170			941	protein-coding gene	gene with protein product		603885				9873016, 15603737	Standard	NM_001015048		Approved		uc001ynh.2	Q9UL15		ENST00000445922.2:c.1112A>G	14.37:g.104026390T>C	ENSP00000391713:p.Asn371Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O94950|Q86W59	Missense_Mutation	SNP	ENST00000445922.2	37	CCDS9982.1	.	.	.	.	.	.	.	.	.	.	T	0.016	-1.534118	0.00951	.	.	ENSG00000166170	ENST00000299204;ENST00000445922;ENST00000337322	D;D;D	0.88124	-2.34;-2.34;-2.34	5.76	-4.14	0.03892	BAG domain (3);	1.814820	0.02770	N	0.119546	T	0.69735	0.3144	N	0.03608	-0.345	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.62220	-0.6900	10	0.13108	T	0.6	-0.4667	9.606	0.39634	0.0:0.3661:0.3681:0.2658	.	371;412	Q9UL15;Q9UL15-2	BAG5_HUMAN;.	S	371;371;412	ENSP00000299204:N371S;ENSP00000391713:N371S;ENSP00000338814:N412S	ENSP00000299204:N371S	N	-	2	0	BAG5	103096143	0.000000	0.05858	0.000000	0.03702	0.076000	0.17211	-1.686000	0.01929	-0.743000	0.04784	0.533000	0.62120	AAC		0.468	BAG5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414990.1			C	104026390	T	C	104026390	3	2	661	1	0	0	0	0	1	0	0	0	1290	1725	60	3	235	3	BAG5	14	104026390	Missense_Mutation	SNP	T	TCGA-KN-8425-01A-11D-2310-10	38817367	104026390	3323150	48	41066										
DNAJC17	55192	hgsc.bcm.edu	37	chr15	41060179	41060179	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gtcttcctgctgcatccgtgCgatcagctgttgccgctcgg	12	14	2	0			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr15:41060179C>T	ENST00000220496.4	-	11	904	c.874G>A	c.(874-876)Gca>Aca	p.A292T	DNAJC17_ENST00000558727.1_5'UTR|C15orf62_ENST00000344320.6_5'Flank	NM_018163.2	NP_060633.1	Q9NVM6	DJC17_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 17	292					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)		nucleotide binding (GO:0000166)|RNA binding (GO:0003723)			endometrium(1)|kidney(1)|large_intestine(2)|pancreas(1)|skin(1)	6		all_cancers(109;4.16e-14)|all_epithelial(112;9.68e-12)|Lung NSC(122;3.19e-09)|all_lung(180;6.45e-08)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;2.91e-05)|COAD - Colon adenocarcinoma(120;0.153)|BRCA - Breast invasive adenocarcinoma(123;0.166)		TGCATCCGTGCGATCAGCTGT	0.607																																																0													76	68	70					15																	41060179		2203	4300	6503	SO:0001583	missense	55192			AK001496	CCDS10065.1	15q15.1	2014-02-12			ENSG00000104129	ENSG00000104129		"Heat shock proteins / DNAJ (HSP40)", "RNA binding motif (RRM) containing"	25556	protein-coding gene	gene with protein product						12477932	Standard	NM_018163		Approved	FLJ10634	uc001zms.2	Q9NVM6	OTTHUMG00000130065	ENST00000220496.4:c.874G>A	15.37:g.41060179C>T	ENSP00000220496:p.Ala292Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000220496.4	37	CCDS10065.1	.	.	.	.	.	.	.	.	.	.	C	14.18	2.457642	0.43634	.	.	ENSG00000104129	ENST00000220496	T	0.17691	2.26	5.74	3.87	0.44632	.	0.103900	0.64402	D	0.000004	T	0.18425	0.0442	L	0.60455	1.87	0.36819	D	0.886305	B	0.10296	0.003	B	0.09377	0.004	T	0.06197	-1.0840	10	0.54805	T	0.06	.	10.9764	0.47469	0.0:0.8536:0.0:0.1464	.	292	Q9NVM6	DJC17_HUMAN	T	292	ENSP00000220496:A292T	ENSP00000220496:A292T	A	-	1	0	DNAJC17	38847471	0.919000	0.31177	0.767000	0.31495	0.282000	0.26991	1.831000	0.39141	0.900000	0.36469	0.561000	0.74099	GCA		0.607	DNAJC17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252356.2	NM_018163		T	41060179	C	T	41060179	3	4	661	1	0	0	0	0	1	0	0	0	4638	768	27	1	44	1	DNAJC17	15	41060179	Missense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10		41060179	61471213	49	41067										
CEP152	22995	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr15	49081131	49081131	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gttgaagtgattcagaatgaTgaaggtccaccagctgctgc	12	8	1	5			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr15:49081131T>C	ENST00000380950.2	-	9	1227	c.1040A>G	c.(1039-1041)cAt>cGt	p.H347R	CEP152_ENST00000325747.5_Missense_Mutation_p.H254R|CEP152_ENST00000399334.3_Missense_Mutation_p.H347R	NM_001194998.1|NM_014985.3	NP_001181927.1|NP_055800.2	O94986	CE152_HUMAN	centrosomal protein 152kDa	347					cell projection organization (GO:0030030)|centriole replication (GO:0007099)|centrosome duplication (GO:0051298)|de novo centriole assembly (GO:0098535)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)	centrosome (GO:0005813)|cytosol (GO:0005829)|deuterosome (GO:0098536)|nucleus (GO:0005634)	protein kinase binding (GO:0019901)			breast(3)|cervix(3)|endometrium(3)|kidney(3)|large_intestine(16)|lung(30)|ovary(1)|prostate(2)|skin(2)	63		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		TTCAGAATGATGAAGGTCCAC	0.408																																																0													175	160	165					15																	49081131		1938	4147	6085	SO:0001583	missense	22995			AB020719	CCDS42033.1, CCDS58361.1	15q21.1	2014-02-20							29298	protein-coding gene	gene with protein product	"asterless"	613529	"microcephaly, primary autosomal recessive 4"	MCPH4		14654843, 21131973	Standard	NM_014985		Approved	KIAA0912, SCKL5	uc001zwz.3	O94986		ENST00000380950.2:c.1040A>G	15.37:g.49081131T>C	ENSP00000370337:p.His347Arg	Somatic		WXS	Illumina HiSeq	Phase_I	E7ER66|Q17RV1|Q6NTA0	Missense_Mutation	SNP	ENST00000380950.2	37	CCDS58361.1	.	.	.	.	.	.	.	.	.	.	T	2.260	-0.369551	0.05069	.	.	ENSG00000103995	ENST00000380950;ENST00000325747;ENST00000399334;ENST00000541880	T;T;T	0.75589	-0.95;-0.95;-0.95	5.79	-3.12	0.05282	.	0.430803	0.27932	N	0.017275	T	0.43722	0.1260	N	0.10664	0.02	0.09310	N	1	B;B;B	0.11235	0.004;0.0;0.0	B;B;B	0.11329	0.006;0.001;0.002	T	0.42344	-0.9457	10	0.06625	T	0.88	-4.476	9.3157	0.37932	0.0:0.4731:0.1117:0.4153	.	254;347;347	O94986-1;E7ER66;O94986	.;.;CE152_HUMAN	R	347;254;347;347	ENSP00000370337:H347R;ENSP00000321000:H254R;ENSP00000382271:H347R	ENSP00000321000:H254R	H	-	2	0	CEP152	46868423	0.768000	0.28519	0.180000	0.23079	0.984000	0.73092	0.432000	0.21461	-0.336000	0.08438	0.533000	0.62120	CAT		0.408	CEP152-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000417365.1	NM_014985		C	49081131	T	C	49081131	3	2	661	1	0	0	0	0	1	0	0	0	3250	1464	51	3	3996	3	CEP152	15	49081131	Missense_Mutation	SNP	T	TCGA-KN-8425-01A-11D-2310-10	8020952	49081131	53450261	50	41068										
ACAN	176	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr15	89383275	89383275	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	attacagagccatctctacaCgctacaccctcgactttgac	5	15	1	2			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr15:89383275C>T	ENST00000561243.1	+	3	487	c.487C>T	c.(487-489)Cgc>Tgc	p.R163C	ACAN_ENST00000352105.7_Missense_Mutation_p.R163C|ACAN_ENST00000558207.1_Missense_Mutation_p.R163C|ACAN_ENST00000439576.2_Missense_Mutation_p.R163C|ACAN_ENST00000559004.1_Missense_Mutation_p.R163C			P16112	PGCA_HUMAN	aggrecan	163	G1-B.|Link 1. {ECO:0000255|PROSITE- ProRule:PRU00323}.				carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate catabolic process (GO:0042340)|keratan sulfate metabolic process (GO:0042339)|proteolysis (GO:0006508)|skeletal system development (GO:0001501)|small molecule metabolic process (GO:0044281)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|lysosomal lumen (GO:0043202)|proteinaceous extracellular matrix (GO:0005578)	carbohydrate binding (GO:0030246)|extracellular matrix structural constituent (GO:0005201)|hyaluronic acid binding (GO:0005540)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(4)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(15)|liver(2)|lung(40)|ovary(2)|prostate(5)|skin(5)|stomach(8)|upper_aerodigestive_tract(1)|urinary_tract(2)	93	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CATCTCTACACGCTACACCCT	0.597																																																0													47	43	44					15																	89383275		2126	4231	6357	SO:0001583	missense	176			M55172	CCDS53970.1, CCDS53971.1	15q26.1	2013-05-07	2007-02-16	2007-02-16	ENSG00000157766	ENSG00000157766		"Immunoglobulin superfamily / V-set domain containing", "Proteoglycans / Extracellular Matrix : Hyalectans"	319	protein-coding gene	gene with protein product	"aggrecan proteoglycan"	155760	"chondroitin sulfate proteoglycan 1", "aggrecan 1"	MSK16, CSPG1, AGC1		1985970	Standard	NM_013227		Approved	CSPGCP	uc010upo.1	P16112	OTTHUMG00000171989	ENST00000561243.1:c.487C>T	15.37:g.89383275C>T	ENSP00000453342:p.Arg163Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q13650|Q9UCD3|Q9UCP4|Q9UCP5|Q9UDE0	Missense_Mutation	SNP	ENST00000561243.1	37	CCDS53970.1	.	.	.	.	.	.	.	.	.	.	C	17.21	3.331458	0.60853	.	.	ENSG00000157766	ENST00000439576;ENST00000352105;ENST00000268134	T;T	0.15372	2.43;2.43	5.79	5.79	0.91817	.	0.000000	0.33075	N	0.005313	T	0.51550	0.1681	M	0.93854	3.465	0.58432	D	0.999998	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	T	0.61926	-0.6962	10	0.87932	D	0	-18.174	12.6082	0.56535	0.2601:0.7399:0.0:0.0	.	163;163;163	E7ENV9;E7EX88;Q6PID9	.;.;.	C	163	ENSP00000387356:R163C;ENSP00000341615:R163C	ENSP00000268134:R163C	R	+	1	0	ACAN	87184279	1.000000	0.71417	0.982000	0.44146	0.756000	0.42949	4.786000	0.62425	2.733000	0.93635	0.655000	0.94253	CGC		0.597	ACAN-006	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416267.2	NM_001135		T	89383275	C	T	89383275	3	4	661	1	0	0	0	0	1	0	0	0	117	536	19	1	497	1	ACAN	15	89383275	Missense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10	40302144	89383275	13148117	51	41069										
CRAMP1L	57585	broad.mit.edu	37	chr16	1705979	1705979	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	ggcgagaactgtacactgacAccgctgccgggcgtggctcg	15	13	0	2			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr16:1705979A>G	ENST00000397412.3	+	10	1320	c.1221A>G	c.(1219-1221)acA>acG	p.T407T	LA16c-431H6.6_ENST00000454337.1_Intron|CRAMP1L_ENST00000262317.4_Intron|CRAMP1L_ENST00000436138.3_Silent_p.T404T|CRAMP1L_ENST00000293925.5_Silent_p.T407T			Q96RY5	CRML_HUMAN	Crm, cramped-like (Drosophila)	407						nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			NS(2)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(3)|lung(6)|pancreas(1)	22						GTACACTGACACCGCTGCCGG	0.647																																																0													33	38	36					16																	1705979		2172	4272	6444	SO:0001819	synonymous_variant	57585			AB037847	CCDS10440.2	16p13.3	2008-07-30	2001-11-28		ENSG00000007545	ENSG00000007545			14122	protein-coding gene	gene with protein product			"Crm (Cramped Drosophila)-like"				Standard	NM_020825		Approved	KIAA1426	uc010uvh.2	Q96RY5	OTTHUMG00000074087	ENST00000397412.3:c.1221A>G	16.37:g.1705979A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8MZL1|B1AJY1|Q8NDN1|Q9P2C1	Silent	SNP	ENST00000397412.3	37	CCDS10440.2																																																																																				0.647	CRAMP1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157297.4			G	1705979	A	G	1705979	2	3	661	1	0	0	0	0	0	0	0	1	3848	146	6	3		3	CRAMP1L	16	1705979	Silent	SNP	A	TCGA-KN-8425-01A-11D-2310-10		1705979	88648774	52	41070										
MAPK3	5595	hgsc.bcm.edu	37	chr16	30128095	30128095	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gctccatggcgaaggtgaagGgctcctcggccactggctgg	16	12	0	1			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr16:30128095G>T	ENST00000263025.4	-	8	1118	c.1034C>A	c.(1033-1035)cCc>cAc	p.P345H	MAPK3_ENST00000484663.1_Missense_Mutation_p.P231H|MAPK3_ENST00000395202.1_Missense_Mutation_p.P301H|MAPK3_ENST00000322266.5_Missense_Mutation_p.P301H|MAPK3_ENST00000403394.1_3'UTR|MAPK3_ENST00000494643.1_5'Flank|GDPD3_ENST00000406256.3_5'Flank|MAPK3_ENST00000395200.1_Missense_Mutation_p.P277H	NM_002746.2	NP_002737.2	P27361	MK03_HUMAN	mitogen-activated protein kinase 3	345					activation of MAPK activity (GO:0000187)|activation of MAPKK activity (GO:0000186)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|BMP signaling pathway (GO:0030509)|cartilage development (GO:0051216)|caveolin-mediated endocytosis (GO:0072584)|cell cycle (GO:0007049)|cellular response to mechanical stimulus (GO:0071260)|cytokine-mediated signaling pathway (GO:0019221)|DNA damage induced protein phosphorylation (GO:0006975)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|interleukin-1-mediated signaling pathway (GO:0070498)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|lipopolysaccharide-mediated signaling pathway (GO:0031663)|MAPK cascade (GO:0000165)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apolipoprotein binding (GO:2000657)|neurotrophin TRK receptor signaling pathway (GO:0048011)|organ morphogenesis (GO:0009887)|peptidyl-tyrosine autophosphorylation (GO:0038083)|phosphorylation (GO:0016310)|platelet activation (GO:0030168)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of histone acetylation (GO:0035066)|positive regulation of histone phosphorylation (GO:0033129)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein phosphorylation (GO:0006468)|Ras protein signal transduction (GO:0007265)|regulation of cytoskeleton organization (GO:0051493)|regulation of early endosome to late endosome transport (GO:2000641)|regulation of Golgi inheritance (GO:0090170)|regulation of sequence-specific DNA binding transcription factor activity (GO:0051090)|regulation of stress-activated MAPK cascade (GO:0032872)|response to epidermal growth factor (GO:0070849)|response to exogenous dsRNA (GO:0043330)|sensory perception of pain (GO:0019233)|small GTPase mediated signal transduction (GO:0007264)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transcription from RNA polymerase I promoter (GO:0006360)|transcription initiation from RNA polymerase I promoter (GO:0006361)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)|viral process (GO:0016032)	caveola (GO:0005901)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|early endosome (GO:0005769)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi apparatus (GO:0005794)|late endosome (GO:0005770)|microtubule cytoskeleton (GO:0015630)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|pseudopodium (GO:0031143)	ATP binding (GO:0005524)|MAP kinase activity (GO:0004707)|phosphatase binding (GO:0019902)									Arsenic trioxide(DB01169)|Sulindac(DB00605)	GAAGGTGAAGGGCTCCTCGGC	0.662																																																0													43	46	45					16																	30128095		2197	4300	6497	SO:0001583	missense	5595			M84490	CCDS10672.1, CCDS42148.1, CCDS42149.1	16p11.2	2011-06-10			ENSG00000102882	ENSG00000102882	2.7.11.1	"Mitogen-activated protein kinase cascade / Kinases"	6877	protein-coding gene	gene with protein product		601795		PRKM3		9628824	Standard	NM_001109891		Approved	ERK1, p44mapk, p44erk1	uc002dws.3	P27361	OTTHUMG00000132149	ENST00000263025.4:c.1034C>A	16.37:g.30128095G>T	ENSP00000263025:p.Pro345His	Somatic		WXS	Illumina HiSeq	Phase_I	A8CZ58|B0LPG3|Q8NHX1	Missense_Mutation	SNP	ENST00000263025.4	37	CCDS10672.1	.	.	.	.	.	.	.	.	.	.	G	24.1	4.498895	0.85069	.	.	ENSG00000102882	ENST00000263025;ENST00000484663;ENST00000322266;ENST00000395200;ENST00000395202;ENST00000478356	T;T;T;T;T;T	0.77489	-1.1;-1.01;-1.07;0.61;-1.07;2.77	5.79	5.79	0.91817	Protein kinase-like domain (1);	0.000000	0.85682	D	0.000000	D	0.90875	0.7133	M	0.92507	3.315	0.80722	D	1	D;B	0.76494	0.999;0.268	D;B	0.69479	0.964;0.067	D	0.92267	0.5822	10	0.66056	D	0.02	-0.0145	18.7978	0.92003	0.0:0.0:1.0:0.0	.	301;345	P27361-2;P27361	.;MK03_HUMAN	H	345;231;301;277;301;108	ENSP00000263025:P345H;ENSP00000432742:P231H;ENSP00000327293:P301H;ENSP00000378626:P277H;ENSP00000378628:P301H;ENSP00000432292:P108H	ENSP00000263025:P345H	P	-	2	0	MAPK3	30035596	1.000000	0.71417	0.999000	0.59377	0.987000	0.75469	9.635000	0.98437	2.735000	0.93741	0.655000	0.94253	CCC		0.662	MAPK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255196.2			T	30128095	G	T	30128095	3	4	661	1	0	0	0	0	1	0	0	0	9286	1232	43	4	109	4	MAPK3	16	30128095	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10	28422116	30128095	60226658	53	41071										
RAP1GAP2	23108	bcgsc.ca	37	chr17	2901629	2901629	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tcttacatgcctacatcgtcGtgcaggtcgagaccccaggc	10	14	1	1			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr17:2901629G>A	ENST00000254695.8	+	14	1249	c.1159G>A	c.(1159-1161)Gtg>Atg	p.V387M	RAP1GAP2_ENST00000366401.4_Missense_Mutation_p.V372M|RAP1GAP2_ENST00000540393.2_Missense_Mutation_p.V368M|RAP1GAP2_ENST00000542807.1_Missense_Mutation_p.V387M	NM_015085.4	NP_055900.4	Q684P5	RPGP2_HUMAN	RAP1 GTPase activating protein 2	387	Rap-GAP. {ECO:0000255|PROSITE- ProRule:PRU00165}.				negative regulation of neuron projection development (GO:0010977)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|neuron projection (GO:0043005)|nuclear membrane (GO:0031965)	Rap GTPase activator activity (GO:0046582)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(2)|ovary(1)|upper_aerodigestive_tract(1)	11						CTACATCGTCGTGCAGGTCGA	0.532																																																0													99	99	99					17																	2901629		2055	4186	6241	SO:0001583	missense	23108			AB028962	CCDS45573.1, CCDS45574.1	17p13.3	2009-09-14	2009-09-14	2009-09-14		ENSG00000132359			29176	protein-coding gene	gene with protein product			"GTPase activating RANGAP domain-like 4", "GTPase activating Rap/RanGAP domain-like 4"	GARNL4		15632203	Standard	NM_015085		Approved	KIAA1039	uc010ckd.3	Q684P5		ENST00000254695.8:c.1159G>A	17.37:g.2901629G>A	ENSP00000254695:p.Val387Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTY5|Q684P4|Q6AI00|Q6ZVF0|Q9UPW2	Missense_Mutation	SNP	ENST00000254695.8	37	CCDS45573.1	.	.	.	.	.	.	.	.	.	.	G	19.04	3.749844	0.69533	.	.	ENSG00000132359	ENST00000254695;ENST00000366401;ENST00000540393;ENST00000542807	D;D;D;D	0.96745	-4.11;-4.11;-4.11;-4.11	5.66	5.66	0.87406	Rap/ran-GAP (2);	0.112822	0.64402	D	0.000010	D	0.98915	0.9632	H	0.98027	4.13	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.66979	0.92;0.948	D	0.99414	1.0931	10	0.87932	D	0	-1.3817	18.7291	0.91728	0.0:0.0:1.0:0.0	.	372;387	Q684P5-2;Q684P5	.;RPGP2_HUMAN	M	387;372;368;387	ENSP00000254695:V387M;ENSP00000389824:V372M;ENSP00000439688:V368M;ENSP00000444890:V387M	ENSP00000254695:V387M	V	+	1	0	RAP1GAP2	2848379	1.000000	0.71417	0.945000	0.38365	0.122000	0.20287	9.869000	0.99810	2.670000	0.90874	0.561000	0.74099	GTG		0.532	RAP1GAP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000438208.2			A	2901629	G	A	2901629	3	1	661	1	0	0	0	0	1	0	0	0	13051	1145	40	1	1213	1	RAP1GAP2	17	2901629	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10		2901629	78293581	54	41072										
CHD3	1107	broad.mit.edu;hgsc.bcm.edu	37	chr17	7793910	7793910	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	acagtgaggaggaatttggtTctgagcgagatgagtaccgg	16	5	1	4			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr17:7793910T>C	ENST00000330494.7	+	3	385	c.235T>C	c.(235-237)Tct>Cct	p.S79P	CHD3_ENST00000380358.4_Missense_Mutation_p.S138P|CHD3_ENST00000570758.1_3'UTR|CHD3_ENST00000358181.4_Missense_Mutation_p.S79P	NM_001005273.2	NP_001005273.1	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	79					centrosome organization (GO:0051297)|chromatin assembly or disassembly (GO:0006333)|chromatin modification (GO:0016568)|DNA duplex unwinding (GO:0032508)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|spindle organization (GO:0007051)|transcription, DNA-templated (GO:0006351)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|intermediate filament cytoskeleton (GO:0045111)|nucleolus (GO:0005730)|nucleus (GO:0005634)|NuRD complex (GO:0016581)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(1)|cervix(2)|endometrium(11)|kidney(6)|large_intestine(13)|liver(2)|lung(14)|ovary(1)|pancreas(1)|prostate(7)|skin(3)|urinary_tract(2)	65		Prostate(122;0.202)				GGAATTTGGTTCTGAGCGAGA	0.448																																																0													39	42	41					17																	7793910		2203	4300	6503	SO:0001583	missense	1107			U08379	CCDS32553.2, CCDS32554.1, CCDS32555.1	17p13	2013-01-28			ENSG00000170004	ENSG00000170004		"Zinc fingers, PHD-type"	1918	protein-coding gene	gene with protein product		602120				9326634, 7560064	Standard	NM_001005271		Approved	Mi-2a, ZFH, Mi2-ALPHA	uc002gjd.2	Q12873	OTTHUMG00000150427	ENST00000330494.7:c.235T>C	17.37:g.7793910T>C	ENSP00000332628:p.Ser79Pro	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTQ9|E9PG89|Q9Y4I0	Missense_Mutation	SNP	ENST00000330494.7	37	CCDS32554.1	.	.	.	.	.	.	.	.	.	.	T	14.64	2.596618	0.46318	.	.	ENSG00000170004	ENST00000380358;ENST00000358181;ENST00000330494	T;D;D	0.90261	1.47;-2.64;-2.64	4.76	4.76	0.60689	.	0.000000	0.38605	N	0.001630	D	0.92704	0.7681	L	0.43152	1.355	0.52501	D	0.999958	D;D;D	0.69078	0.997;0.995;0.995	D;D;D	0.75484	0.986;0.969;0.979	D	0.92477	0.5990	10	0.44086	T	0.13	-10.0278	14.2672	0.66126	0.0:0.0:0.0:1.0	.	79;79;138	Q12873-2;Q12873;E9PG89	.;CHD3_HUMAN;.	P	138;79;79	ENSP00000369716:S138P;ENSP00000350907:S79P;ENSP00000332628:S79P	ENSP00000332628:S79P	S	+	1	0	CHD3	7734635	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	7.390000	0.79816	1.765000	0.52091	0.383000	0.25322	TCT		0.448	CHD3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318050.1	NM_001005273		C	7793910	T	C	7793910	3	2	661	1	0	0	0	0	1	0	0	0	3328	1783	62	3	526	3	CHD3	17	7793910	Missense_Mutation	SNP	T	TCGA-KN-8425-01A-11D-2310-10	4892281	7793910	73401300	55	41073										
ABCC3	8714	bcgsc.ca	37	chr17	48744970	48744970	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gctgatgagtgagatcctgaAcggcatcaaggtgctgaagc	14	8	1	5			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr17:48744970A>G	ENST00000285238.8	+	12	1567	c.1487A>G	c.(1486-1488)aAc>aGc	p.N496S	ABCC3_ENST00000427699.1_Missense_Mutation_p.N496S	NM_003786.3	NP_003777.2	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 3	496	ABC transmembrane type-1 1. {ECO:0000255|PROSITE-ProRule:PRU00441}.				bile acid and bile salt transport (GO:0015721)|bile acid metabolic process (GO:0008206)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|organic anion transmembrane transporter activity (GO:0008514)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(6)|liver(1)|lung(11)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	33			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Cisplatin(DB00515)|Clotrimazole(DB00257)|Conjugated Estrogens(DB00286)|Cyclosporine(DB00091)|Doxorubicin(DB00997)|Etoposide(DB00773)|Ezetimibe(DB00973)|Fluorouracil(DB00544)|Folic Acid(DB00158)|Gadoxetate(DB08884)|Glutathione(DB00143)|Glyburide(DB01016)|Indomethacin(DB00328)|Lamivudine(DB00709)|Leucovorin(DB00650)|Methotrexate(DB00563)|Metyrapone(DB01011)|Nifedipine(DB01115)|Omeprazole(DB00338)|Phenobarbital(DB01174)|Probenecid(DB01032)|Rifampicin(DB01045)|Sulfinpyrazone(DB01138)|Verapamil(DB00661)|Vincristine(DB00541)	GAGATCCTGAACGGCATCAAG	0.592																																																0													85	71	75					17																	48744970		2203	4300	6503	SO:0001583	missense	8714			Y17151	CCDS32681.1, CCDS45739.1	17q21	2012-03-14			ENSG00000108846	ENSG00000108846		"ATP binding cassette transporters / subfamily C"	54	protein-coding gene	gene with protein product	"canalicular multispecific organic anion transporter 2"	604323				8894702, 9827529	Standard	NM_003786		Approved	MRP3, cMOAT2, EST90757, MLP2, MOAT-D	uc002isl.3	O15438	OTTHUMG00000162245	ENST00000285238.8:c.1487A>G	17.37:g.48744970A>G	ENSP00000285238:p.Asn496Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPA9|D3DTX9|O60265|O60922|O75621|O95078|O95289|O95290|Q86X85|Q9UN52	Missense_Mutation	SNP	ENST00000285238.8	37	CCDS32681.1	.	.	.	.	.	.	.	.	.	.	A	1.000	-0.691101	0.03303	.	.	ENSG00000108846	ENST00000427699;ENST00000285238	D;D	0.88431	-2.38;-2.38	3.92	0.653	0.17828	ABC transporter, transmembrane domain, type 1 (1);ABC transporter, integral membrane type 1 (1);ABC transporter, transmembrane domain (1);	0.715086	0.13639	N	0.373093	T	0.76499	0.3996	N	0.21142	0.635	0.32001	N	0.603402	B;B	0.24823	0.008;0.112	B;B	0.30855	0.026;0.121	T	0.64947	-0.6287	10	0.07175	T	0.84	-0.0616	4.479	0.11757	0.2791:0.1635:0.5574:0.0	.	496;496	O15438;O15438-5	MRP3_HUMAN;.	S	496	ENSP00000395160:N496S;ENSP00000285238:N496S	ENSP00000285238:N496S	N	+	2	0	ABCC3	46099969	0.631000	0.27164	0.520000	0.27837	0.765000	0.43378	1.047000	0.30367	0.075000	0.16796	-0.427000	0.05922	AAC		0.592	ABCC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368083.2	NM_020038		G	48744970	A	G	48744970	3	3	661	1	0	0	0	0	1	0	0	0	54	43	2	3	1533	3	ABCC3	17	48744970	Missense_Mutation	SNP	A	TCGA-KN-8425-01A-11D-2310-10	40951060	48744970	32450240	56	41074										
RPTOR	57521	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	78866565	78866565	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	cccagtgcgagacagcccgtGcacccccagacttcgttctg	10	17	1	2			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr17:78866565G>T	ENST00000306801.3	+	19	2500	c.2138G>T	c.(2137-2139)tGc>tTc	p.C713F	RPTOR_ENST00000575542.1_3'UTR|RPTOR_ENST00000544334.2_Missense_Mutation_p.C555F	NM_020761.2	NP_065812.1	Q8N122	RPTOR_HUMAN	regulatory associated protein of MTOR, complex 1	713					cell cycle arrest (GO:0007050)|cell growth (GO:0016049)|cellular response to amino acid stimulus (GO:0071230)|cellular response to nutrient levels (GO:0031669)|insulin receptor signaling pathway (GO:0008286)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of protein serine/threonine kinase activity (GO:0071902)|positive regulation of TOR signaling (GO:0032008)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|regulation of cell size (GO:0008361)|TOR signaling (GO:0031929)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|TORC1 complex (GO:0031931)	14-3-3 protein binding (GO:0071889)|protein complex binding (GO:0032403)|protein kinase binding (GO:0019901)|RNA polymerase III type 1 promoter DNA binding (GO:0001030)|RNA polymerase III type 2 promoter DNA binding (GO:0001031)|RNA polymerase III type 3 promoter DNA binding (GO:0001032)|TFIIIC-class transcription factor binding (GO:0001156)			breast(1)|endometrium(4)|kidney(1)|large_intestine(12)|lung(17)|ovary(3)|prostate(1)|skin(1)|stomach(1)|urinary_tract(3)	44						GACAGCCCGTGCACCCCCAGA	0.542																																																0													130	133	132					17																	78866565		2203	4300	6503	SO:0001583	missense	57521				CCDS11773.1, CCDS54175.1	17q25.3	2013-01-10				ENSG00000141564		"WD repeat domain containing"	30287	protein-coding gene	gene with protein product	"regulatory associated protein of mTOR"	607130				10718198, 12150926	Standard	NM_001163034		Approved	KOG1, Mip1, KIAA1303, raptor	uc002jyt.1	Q8N122		ENST00000306801.3:c.2138G>T	17.37:g.78866565G>T	ENSP00000307272:p.Cys713Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN36|C6KEF2|F5H7J5|Q8N4V9|Q8TB32|Q9P2P3	Missense_Mutation	SNP	ENST00000306801.3	37	CCDS11773.1	.	.	.	.	.	.	.	.	.	.	G	13.09	2.133093	0.37630	.	.	ENSG00000141564	ENST00000306801;ENST00000544334	T;T	0.42131	1.03;0.98	4.66	4.66	0.58398	Armadillo-like helical (1);Armadillo-type fold (1);	0.158118	0.42053	D	0.000768	T	0.25938	0.0632	N	0.08118	0	0.80722	D	1	P;B	0.36249	0.545;0.001	B;B	0.34931	0.192;0.004	T	0.11891	-1.0569	10	0.33940	T	0.23	.	17.5562	0.87890	0.0:0.0:1.0:0.0	.	555;713	F5H7J5;Q8N122	.;RPTOR_HUMAN	F	713;555	ENSP00000307272:C713F;ENSP00000442479:C555F	ENSP00000307272:C713F	C	+	2	0	RPTOR	76481160	1.000000	0.71417	0.998000	0.56505	0.386000	0.30323	6.441000	0.73439	2.143000	0.66587	0.655000	0.94253	TGC		0.542	RPTOR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438125.1	NM_020761		T	78866565	G	T	78866565	3	4	661	1	0	0	0	0	1	0	0	0	13678	1319	46	4	2212	4	RPTOR	17	78866565	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10	30121595	78866565	2328645	57	41075										
SLC39A3	29985	bcgsc.ca	37	chr19	2732787	2732787	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	catcccggccaggacggtgtAgcccagcaccaggaagagga	14	13	0	1			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr19:2732787A>G	ENST00000269740.4	-	3	1236	c.907T>C	c.(907-909)Tac>Cac	p.Y303H	SLC39A3_ENST00000545664.1_Missense_Mutation_p.Y303H|AC006538.4_ENST00000586572.1_Intron	NM_144564.4	NP_653165.2	Q9BRY0	S39A3_HUMAN	solute carrier family 39 (zinc transporter), member 3	303					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	zinc ion transmembrane transporter activity (GO:0005385)			endometrium(1)|kidney(1)|large_intestine(1)|lung(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	10		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)		AGGACGGTGTAGCCCAGCACC	0.672																																																0													48	38	41					19																	2732787		2203	4299	6502	SO:0001583	missense	29985			AF052125	CCDS12093.1, CCDS45909.1	19p13.3	2013-05-22			ENSG00000141873	ENSG00000141873		"Solute carriers"	17128	protein-coding gene	gene with protein product		612168				10681536	Standard	NM_144564		Approved	ZIP3	uc002lwg.3	Q9BRY0		ENST00000269740.4:c.907T>C	19.37:g.2732787A>G	ENSP00000269740:p.Tyr303His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KMJ3|Q8WUG1	Missense_Mutation	SNP	ENST00000269740.4	37	CCDS12093.1	.	.	.	.	.	.	.	.	.	.	A	20.2	3.949013	0.73787	.	.	ENSG00000141873	ENST00000545664;ENST00000269740	T;T	0.48201	0.82;0.82	4.6	4.6	0.57074	.	0.000000	0.85682	D	0.000000	T	0.64125	0.2570	M	0.64997	1.995	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.75020	0.971;0.985	T	0.67956	-0.5536	10	0.87932	D	0	-19.2825	12.7846	0.57498	1.0:0.0:0.0:0.0	.	303;303	F5H385;Q9BRY0	.;S39A3_HUMAN	H	303	ENSP00000445345:Y303H;ENSP00000269740:Y303H	ENSP00000269740:Y303H	Y	-	1	0	SLC39A3	2683787	1.000000	0.71417	0.958000	0.39756	0.788000	0.44548	8.720000	0.91442	1.698000	0.51180	0.374000	0.22700	TAC		0.672	SLC39A3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451354.2			G	2732787	A	G	2732787	3	3	661	1	0	0	0	0	1	0	0	0	14632	420	15	3	41	3	SLC39A3	19	2732787	Missense_Mutation	SNP	A	TCGA-KN-8425-01A-11D-2310-10		2732787	56396196	58	41076										
EBI3	10148	mdanderson.org	37	chr19	4237067	4237067	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	agtctccccgccactgccacAatgagcctgggcaagtagca	10	15	1	1	rs4905	byFrequency	TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr19:4237067A>G	ENST00000221847.5	+	5	725	c.672A>G	c.(670-672)acA>acG	p.T224T		NM_005755.2	NP_005746.2	Q14213	IL27B_HUMAN	Epstein-Barr virus induced 3	224	Fibronectin type-III 2. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cytokine-mediated signaling pathway (GO:0019221)|humoral immune response (GO:0006959)|positive regulation of alpha-beta T cell proliferation (GO:0046641)|positive regulation of interferon-gamma biosynthetic process (GO:0045078)|T-helper 1 type immune response (GO:0042088)	extracellular space (GO:0005615)|plasma membrane (GO:0005886)	cytokine receptor activity (GO:0004896)			large_intestine(1)|lung(2)|ovary(1)|urinary_tract(1)	5		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0336)|STAD - Stomach adenocarcinoma(1328;0.18)		CCACTGCCACAATGAGCCTGG	0.657													G|||	2308	0.460863	0.6679	0.2767	5008	,	,		15560	0.4435		0.3052	False		,,,				2504	0.4898															0								G		2725,1681	481.7+/-359.2	844,1037,322	40	40	40		672	-7.3	0	19	dbSNP_52	40	2457,6143	665.9+/-402.3	372,1713,2215	no	coding-synonymous	EBI3	NM_005755.2		1216,2750,2537	GG,GA,AA		28.5698,38.1525,39.8431		224/230	4237067	5182,7824	2203	4300	6503	SO:0001819	synonymous_variant	10148			L08187	CCDS12123.1	19p13	2013-02-11	2008-09-12		ENSG00000105246	ENSG00000105246		"Fibronectin type III domain containing"	3129	protein-coding gene	gene with protein product	"IL27 subunit", "IL35 subunit"	605816				8551575	Standard	NM_005755		Approved		uc002lzu.3	Q14213		ENST00000221847.5:c.672A>G	19.37:g.4237067A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0N0N2|O75269	Silent	SNP	ENST00000221847.5	37	CCDS12123.1																																																																																				0.657	EBI3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458005.1			G	4237067	A	G	4237067	2	3	661	1	0	0	0	0	0	0	0	1	4885	117	5	3		3	EBI3	19	4237067	Silent	SNP	A	TCGA-KN-8425-01A-11D-2310-10	1504280	4237067	54891916	59	41077										
MUC16	94025	mdanderson.org	37	chr19	8999445	8999445	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	aggggcccagctcagtgatgCtgtgggtcagctggctcagc	16	11	3	1	rs112439001	byFrequency	TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr19:8999445C>T	ENST00000397910.4	-	56	40933	c.40730G>A	c.(40729-40731)aGc>aAc	p.S13577N	MUC16_ENST00000380951.5_Missense_Mutation_p.S218N	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13579	SEA 10. {ECO:0000255|PROSITE- ProRule:PRU00188}.			Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						CTCAGTGATGCTGTGGGTCAG	0.572													C|||	228	0.0455272	0.025	0.062	5008	,	,		20165	0.1012		0.0	False		,,,				2504	0.0511															0													231	193	206					19																	8999445		2056	4204	6260	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.40730G>A	19.37:g.8999445C>T	ENSP00000381008:p.Ser13577Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	3.899|3.899	-0.022418|-0.022418	0.07634|0.07634	.|.	.|.	ENSG00000181143|ENSG00000181143	ENST00000542240|ENST00000397910;ENST00000380951	.|T;T	.|0.29142	.|1.58;1.58	2.95|2.95	1.9|1.9	0.25705|0.25705	.|SEA (2);	.|.	.|.	.|.	.|.	T|T	0.42653|0.42653	0.1212|0.1212	.|.	.|.	.|.	.|.	.|.	.|.	.|B;P	.|0.44281	.|0.0;0.831	.|B;P	.|0.60541	.|0.003;0.876	T|T	0.49781|0.49781	-0.8903|-0.8903	3|7	.|0.41790	.|T	.|0.15	.|.	5.174|5.174	0.15126|0.15126	0.0:0.8277:0.0:0.1723|0.0:0.8277:0.0:0.1723	.|.	.|21222;13577	.|Q8WXI7;B5ME49	.|MUC16_HUMAN;.	T|N	417|13577;218	.|ENSP00000381008:S13577N;ENSP00000370338:S218N	.|ENSP00000370338:S218N	A|S	-|-	1|2	0|0	MUC16|MUC16	8860445|8860445	0.000000|0.000000	0.05858|0.05858	0.001000|0.001000	0.08648|0.08648	0.016000|0.016000	0.09150|0.09150	0.554000|0.554000	0.23407|0.23407	0.786000|0.786000	0.33708|0.33708	0.555000|0.555000	0.69702|0.69702	GCA|AGC		0.572	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		T	8999445	C	T	8999445	3	4	661	1	0	0	0	0	1	0	0	0	9980	797	28	2	2909	2	MUC16	19	8999445	Missense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10	4762378	8999445	50129538	60	41078										
MUC16	94025	mdanderson.org	37	chr19	9012858	9012858	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tcgtactgcaggttggtgatGgtgaagttgagggtgaatgg	18	3	0	4	rs111669353		TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr19:9012858G>A	ENST00000397910.4	-	34	38789	c.38586C>T	c.(38584-38586)acC>acT	p.T12862T		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	12864	SEA 6. {ECO:0000255|PROSITE- ProRule:PRU00188}.			Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						GGTTGGTGATGGTGAAGTTGA	0.537																																																0													255	217	229					19																	9012858		2027	4189	6216	SO:0001819	synonymous_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.38586C>T	19.37:g.9012858G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Silent	SNP	ENST00000397910.4	37	CCDS54212.1																																																																																				0.537	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		A	9012858	G	A	9012858	2	1	661	1	0	0	0	0	0	0	0	1	9980	1335	47	2		2	MUC16	19	9012858	Silent	SNP	G	TCGA-KN-8425-01A-11D-2310-10	13413	9012858	50116125	61	41079										
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	9058813	9058813	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	ggtgaccactggagatatcaCttttgttggctctgagaagc	12	8	2	3			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr19:9058813C>G	ENST00000397910.4	-	3	28836	c.28633G>C	c.(28633-28635)Gtg>Ctg	p.V9545L		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	9547	Ser-rich.|Thr-rich.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						GGAGATATCACTTTTGTTGGC	0.453																																																0													104	100	101					19																	9058813		1917	4133	6050	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.28633G>C	19.37:g.9058813C>G	ENSP00000381008:p.Val9545Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	c	5.100	0.204117	0.09704	.	.	ENSG00000181143	ENST00000397910	T	0.23147	1.92	2.27	-0.0985	0.13628	.	.	.	.	.	T	0.14960	0.0361	N	0.24115	0.695	.	.	.	B	0.19817	0.039	B	0.23574	0.047	T	0.25467	-1.0131	8	0.87932	D	0	.	3.2643	0.06859	0.0:0.5449:0.2801:0.175	.	9545	B5ME49	.	L	9545	ENSP00000381008:V9545L	ENSP00000381008:V9545L	V	-	1	0	MUC16	8919813	0.000000	0.05858	0.000000	0.03702	0.026000	0.11368	-0.943000	0.03917	0.051000	0.15978	0.305000	0.20034	GTG		0.453	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		G	9058813	C	G	9058813	3	3	661	1	0	0	0	0	1	0	0	0	9980	565	20	4	15218	4	MUC16	19	9058813	Missense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10	45955	9058813	50070170	62	41080										
CEACAM1	634	mdanderson.org	37	chr19	43031318	43031318	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gggatgcattggggtatattGtctctcgaccgctgtttgcg	14	8	1	0	rs199627333		TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr19:43031318G>A	ENST00000161559.6	-	2	433	c.299C>T	c.(298-300)aCa>aTa	p.T100I	LIPE-AS1_ENST00000594624.2_RNA|CEACAM1_ENST00000403461.1_Missense_Mutation_p.T100I|CEACAM1_ENST00000403444.3_Missense_Mutation_p.T100I|CEACAM1_ENST00000599389.1_Missense_Mutation_p.T100I|CEACAM1_ENST00000351134.3_Missense_Mutation_p.T100I|CEACAM1_ENST00000308072.4_Missense_Mutation_p.T60I|LIPE-AS1_ENST00000457234.2_RNA|LIPE-AS1_ENST00000594688.1_RNA|CEACAM1_ENST00000358394.3_Missense_Mutation_p.T100I|CEACAM1_ENST00000352591.5_Missense_Mutation_p.T100I	NM_001712.4	NP_001703.2	P13688	CEAM1_HUMAN	carcinoembryonic antigen-related cell adhesion molecule 1 (biliary glycoprotein)	100	Ig-like V-type.				angiogenesis (GO:0001525)|cell migration (GO:0016477)|homophilic cell adhesion (GO:0007156)|integrin-mediated signaling pathway (GO:0007229)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	protein homodimerization activity (GO:0042803)			breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(3)|ovary(1)|pancreas(1)|prostate(1)|urinary_tract(1)	17		Prostate(69;0.00682)		GBM - Glioblastoma multiforme(486;0.00148)	Arcitumomab(DB00113)	GGGGTATATTGTCTCTCGACC	0.473																																																0													358	304	322					19																	43031318		2203	4300	6503	SO:0001583	missense	634			M72238	CCDS12609.1, CCDS46089.1, CCDS54272.1, CCDS54273.1, CCDS54274.1	19q13.2	2014-05-16			ENSG00000079385	ENSG00000079385		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	1814	protein-coding gene	gene with protein product		109770		BGP		2457922, 2025273	Standard	NM_001712		Approved	BGP1, CD66a	uc002otv.3	P13688	OTTHUMG00000151078	ENST00000161559.6:c.299C>T	19.37:g.43031318G>A	ENSP00000161559:p.Thr100Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NE38|A8MY49|O60430|Q069I7|Q13854|Q13857|Q13858|Q13859|Q13860|Q15600|Q15601|Q16170|Q5UB49|Q7KYP5|Q96CA7|Q9UQV9	Missense_Mutation	SNP	ENST00000161559.6	37	CCDS12609.1	.	.	.	.	.	.	.	.	.	.	g	8.472	0.857824	0.17178	.	.	ENSG00000079385	ENST00000161559;ENST00000358394;ENST00000351134;ENST00000446434;ENST00000378065;ENST00000352591;ENST00000403444;ENST00000403461;ENST00000308072;ENST00000377806;ENST00000344391;ENST00000403136	T;T;T;T;T;T;T	0.68479	-0.33;-0.33;-0.33;-0.33;-0.33;-0.33;-0.33	4.41	-0.431	0.12295	Immunoglobulin subtype (1);Immunoglobulin V-set (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.46737	0.1408	L	0.33485	1.01	0.09310	N	1	B;B;B;B;B;B;B;B;B;B	0.31989	0.35;0.005;0.001;0.003;0.001;0.005;0.197;0.012;0.022;0.054	B;B;B;B;B;B;B;B;B;B	0.30495	0.103;0.005;0.003;0.006;0.002;0.01;0.116;0.007;0.051;0.026	T	0.26710	-1.0095	9	0.24483	T	0.36	.	3.4213	0.07395	0.1214:0.1385:0.5979:0.1422	.	100;100;100;100;100;100;100;100;100;100	P13688-7;P13688-10;P13688-3;P13688-4;P13688-2;P13688-11;P13688-6;P13688-5;P13688-8;P13688	.;.;.;.;.;.;.;.;.;CEAM1_HUMAN	I	100;100;100;127;60;100;100;100;60;100;100;100	ENSP00000161559:T100I;ENSP00000351165:T100I;ENSP00000325946:T100I;ENSP00000244291:T100I;ENSP00000384709:T100I;ENSP00000384083:T100I;ENSP00000312184:T60I	ENSP00000161559:T100I	T	-	2	0	CEACAM1	47723158	0.000000	0.05858	0.003000	0.11579	0.001000	0.01503	-1.426000	0.02443	-0.044000	0.13491	-2.357000	0.00240	ACA		0.473	CEACAM1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000321190.2	NM_001712		A	43031318	G	A	43031318	3	1	661	1	0	0	0	0	1	0	0	0	3189	1377	48	2	1410	2	CEACAM1	19	43031318	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10	33972505	43031318	16097665	63	41081			2	104		2	2	12	G		2.380713e-05
CEACAM1	634	mdanderson.org	37	chr19	43031329	43031329	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gggtatattgtctctcgaccGctgtttgcgggccctggggt	15	10	1	0	rs143477834		TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr19:43031329G>A	ENST00000161559.6	-	2	422	c.288C>T	c.(286-288)agC>agT	p.S96S	LIPE-AS1_ENST00000594624.2_RNA|CEACAM1_ENST00000403461.1_Silent_p.S96S|CEACAM1_ENST00000403444.3_Silent_p.S96S|CEACAM1_ENST00000599389.1_Silent_p.S96S|CEACAM1_ENST00000351134.3_Silent_p.S96S|CEACAM1_ENST00000308072.4_Silent_p.S56S|LIPE-AS1_ENST00000457234.2_RNA|LIPE-AS1_ENST00000594688.1_RNA|CEACAM1_ENST00000358394.3_Silent_p.S96S|CEACAM1_ENST00000352591.5_Silent_p.S96S	NM_001712.4	NP_001703.2	P13688	CEAM1_HUMAN	carcinoembryonic antigen-related cell adhesion molecule 1 (biliary glycoprotein)	96	Ig-like V-type.				angiogenesis (GO:0001525)|cell migration (GO:0016477)|homophilic cell adhesion (GO:0007156)|integrin-mediated signaling pathway (GO:0007229)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	protein homodimerization activity (GO:0042803)			breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(3)|ovary(1)|pancreas(1)|prostate(1)|urinary_tract(1)	17		Prostate(69;0.00682)		GBM - Glioblastoma multiforme(486;0.00148)	Arcitumomab(DB00113)	TCTCTCGACCGCTGTTTGCGG	0.488																																																0													338	284	303					19																	43031329		2203	4300	6503	SO:0001819	synonymous_variant	634			M72238	CCDS12609.1, CCDS46089.1, CCDS54272.1, CCDS54273.1, CCDS54274.1	19q13.2	2014-05-16			ENSG00000079385	ENSG00000079385		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	1814	protein-coding gene	gene with protein product		109770		BGP		2457922, 2025273	Standard	NM_001712		Approved	BGP1, CD66a	uc002otv.3	P13688	OTTHUMG00000151078	ENST00000161559.6:c.288C>T	19.37:g.43031329G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NE38|A8MY49|O60430|Q069I7|Q13854|Q13857|Q13858|Q13859|Q13860|Q15600|Q15601|Q16170|Q5UB49|Q7KYP5|Q96CA7|Q9UQV9	Silent	SNP	ENST00000161559.6	37	CCDS12609.1																																																																																				0.488	CEACAM1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000321190.2	NM_001712		A	43031329	G	A	43031329	2	1	661	1	0	0	0	0	0	0	0	1	3189	1078	38	1		1	CEACAM1	19	43031329	Silent	SNP	G	TCGA-KN-8425-01A-11D-2310-10	11	43031329	16097654	64	41082			2	104		2	2	12	G		2.380713e-05
MYH14	79784	broad.mit.edu	37	chr19	50805044	50805045	+	Frame_Shift_Ins	INS	-	-	C													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gggtgaggaggatgctggggINScccgtgcccgccacaagatg							TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr19:50805044_50805045insC	ENST00000596571.1	+	37	5473_5474	c.5473_5474insC	c.(5473-5475)gccfs	p.A1825fs	MYH14_ENST00000425460.1_Frame_Shift_Ins_p.A1833fs|MYH14_ENST00000262269.8_Frame_Shift_Ins_p.A1866fs|MYH14_ENST00000440075.2_Frame_Shift_Ins_p.A1866fs|MYH14_ENST00000376970.2_Frame_Shift_Ins_p.A1858fs|MYH14_ENST00000601313.1_Frame_Shift_Ins_p.A1866fs|MYH14_ENST00000598205.1_Frame_Shift_Ins_p.A1833fs			Q7Z406	MYH14_HUMAN	myosin, heavy chain 14, non-muscle	1825					actin filament-based movement (GO:0030048)|actomyosin structure organization (GO:0031032)|ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|mitochondrion morphogenesis (GO:0070584)|neuronal action potential (GO:0019228)|regulation of cell shape (GO:0008360)|sensory perception of sound (GO:0007605)|skeletal muscle atrophy (GO:0014732)|skeletal muscle contraction (GO:0003009)|skeletal muscle tissue development (GO:0007519)|vocalization behavior (GO:0071625)	actomyosin (GO:0042641)|axon (GO:0030424)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|growth cone (GO:0030426)|membrane (GO:0016020)|myosin II complex (GO:0016460)|myosin II filament (GO:0097513)|stress fiber (GO:0001725)	actin-dependent ATPase activity (GO:0030898)|ATP binding (GO:0005524)|microfilament motor activity (GO:0000146)			central_nervous_system(1)|cervix(2)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(10)|ovary(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	46		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		GGATGCTGGGGCCCGTGCCCGC	0.639																																																0																																										SO:0001589	frameshift_variant	79784			AY165122	CCDS46151.1, CCDS54295.1, CCDS59411.1	19q13.33	2011-09-27	2009-11-19			ENSG00000105357		"Myosins / Myosin superfamily : Class II"	23212	protein-coding gene	gene with protein product		608568	"myosin, heavy polypeptide 14", "myosin, heavy chain 14"	DFNA4		12909352, 15015131, 17940200	Standard	NM_024729		Approved	FLJ13881, KIAA2034, MHC16, MYH17	uc010enu.1	Q7Z406		ENST00000596571.1:c.5476dupC	19.37:g.50805047_50805047dupC	ENSP00000472819:p.Ala1825fs	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1S2|C3TTN4|Q5CZ75|Q6XYE4|Q76B62|Q8WV23|Q96I22|Q9BT27|Q9BW35|Q9H882	Frame_Shift_Ins	INS	ENST00000596571.1	37	CCDS59411.1																																																																																				0.639	MYH14-008	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000464710.2	NM_024729		C	50805045	-	C	50805044	7	5	661	1	0	1	1	0	0	0	0	0	10040	1203	42	0	5750	0	MYH14	19	50805044	Frame_Shift_Ins	INS	-	TCGA-KN-8425-01A-11D-2310-10	7773715	50805044	8323939	65	41083										
NLRP9	338321	broad.mit.edu	37	chr19	56243852	56243852	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	catggcggcacaaaactcttGgatacacagatgcatgaagg	11	9	1	2			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr19:56243852G>A	ENST00000332836.2	-	2	1372	c.1345C>T	c.(1345-1347)Caa>Taa	p.Q449*		NM_176820.2	NP_789790.2	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	449	NACHT. {ECO:0000255|PROSITE- ProRule:PRU00136}.					cytoplasm (GO:0005737)	ATP binding (GO:0005524)	p.Q449K(1)		NS(2)|breast(5)|cervix(1)|endometrium(7)|kidney(8)|large_intestine(15)|lung(21)|ovary(2)|prostate(3)|skin(7)|urinary_tract(3)	74		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		CAAAACTCTTGGATACACAGA	0.502																																																1	Substitution - Missense(1)	large_intestine(1)											121	121	121					19																	56243852		2203	4300	6503	SO:0001587	stop_gained	338321			AY154464	CCDS12934.1	19q13.43	2006-12-08	2006-12-08	2006-12-08				"Nucleotide-binding domain and leucine rich repeat containing"	22941	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 9"	609663	"NACHT, leucine rich repeat and PYD containing 9"	NALP9		12563287	Standard	NM_176820		Approved	NOD6, PAN12, CLR19.1	uc002qly.3	Q7RTR0		ENST00000332836.2:c.1345C>T	19.37:g.56243852G>A	ENSP00000331857:p.Gln449*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN12|Q86W27	Nonsense_Mutation	SNP	ENST00000332836.2	37	CCDS12934.1	.	.	.	.	.	.	.	.	.	.	G	28.8	4.950445	0.92660	.	.	ENSG00000185792	ENST00000332836;ENST00000333452	.	.	.	2.56	2.56	0.30785	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	.	11.3626	0.49653	0.0:0.0:1.0:0.0	.	.	.	.	X	449	.	ENSP00000331857:Q449X	Q	-	1	0	NLRP9	60935664	1.000000	0.71417	0.029000	0.17559	0.107000	0.19398	5.908000	0.69916	1.792000	0.52537	0.644000	0.83932	CAA		0.502	NLRP9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453653.1	NM_176820		A	56243852	G	A	56243852	4	1	661	1	0	0	0	0	0	1	0	0	10491	1357	47	2	1662	2	NLRP9	19	56243852	Nonsense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10	5438808	56243852	2885131	66	41084										
SIRPA	140885	mdanderson.org	37	chr20	1895950	1895951	+	Missense_Mutation	DNP	CC	CC	GT													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	cgggtaacaactgtttcagaCctcacaaagagaaacaacat					rs138283486|rs149634649|rs386811661	byFrequency	TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr20:1895950_1895951CC>GT	ENST00000358771.4	+	2	437_438	c.285_286CC>GT	c.(283-288)gaCCtc>gaGTtc	p.95_96DL>EF	SIRPA_ENST00000400068.3_Missense_Mutation_p.95_96DL>EF|SIRPA_ENST00000356025.3_Missense_Mutation_p.95_96DL>EF	NM_001040023.1	NP_001035112.1	P78324	SHPS1_HUMAN	signal-regulatory protein alpha	95	Ig-like V-type.		D -> E. {ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:9062191, ECO:0000269|PubMed:9070220}.|L -> S. {ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:9062191, ECO:0000269|PubMed:9070220}.		blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|leukocyte migration (GO:0050900)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)				cervix(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(13)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	21				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		CTGTTTCAGACCTCACAAAGAG	0.53																																					GBM(155;1668 1920 5945 42733 48121)											0																																										SO:0001583	missense	140885			D86043	CCDS13022.1	20p13	2013-01-11	2006-03-29	2006-03-29	ENSG00000198053	ENSG00000198053		"Signal-regulatory proteins", "CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C1-set domain containing"	9662	protein-coding gene	gene with protein product		602461	"protein tyrosine phosphatase, non-receptor type substrate 1"	PTPNS1		9070220, 9062191, 16339511	Standard	XM_005260669		Approved	SHPS1, SIRP, MYD-1, BIT, P84, SHPS-1, SIRPalpha, CD172a, SIRPalpha2, MFR, SIRP-ALPHA-1	uc002wfr.3	P78324	OTTHUMG00000031682	Exception_encountered	20.37:g.1895950_1895951delinsGT	ENSP00000351621:p.D95_L96delinsEF	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2E1|A8K411|B2R6C3|O00683|O43799|Q8N517|Q8TAL8|Q9H0Z2|Q9UDX2|Q9UIJ6|Q9Y4U9	Missense_Mutation	DNP	ENST00000358771.4	37	CCDS13022.1																																																																																				0.53	SIRPA-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000077568.2	NM_080792		GT	1895951	CC	GT	1895950	3	3	661	1	0	0	0	0	1	0	0	0	14345	506	18	4	291	4	SIRPA	20	1895950	Missense_Mutation	DNP	CC	TCGA-KN-8425-01A-11D-2310-10		1895950	61129570	67	41085										
EEF1A2	1917	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr20	62121830	62121830	+	Splice_Site	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tggacccagcgcagccccccAcctgggaggtgaactgagca	13	15	0	2			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr20:62121830A>C	ENST00000298049.7	-	5	1100		c.e5+1		EEF1A2_ENST00000217182.3_Splice_Site			Q05639	EF1A2_HUMAN	eukaryotic translation elongation factor 1 alpha 2						positive regulation of apoptotic process (GO:0043065)|response to inorganic substance (GO:0010035)	eukaryotic translation elongation factor 1 complex (GO:0005853)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|translation elongation factor activity (GO:0003746)|translation factor activity, nucleic acid binding (GO:0008135)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(14)|stomach(1)	20	all_cancers(38;9.45e-12)		BRCA - Breast invasive adenocarcinoma(10;1.22e-05)			GCAGCCCCCCACCTGGGAGGT	0.667																																																0													31	32	32					20																	62121830		2191	4286	6477	SO:0001630	splice_region_variant	1917			AF163763	CCDS13522.1	20q13.3	2010-06-03			ENSG00000101210	ENSG00000101210			3192	protein-coding gene	gene with protein product		602959	"statin-like", "statin"	STNL, STN		8354261, 8812466	Standard	NM_001958		Approved	EEF1AL, HS1	uc002yfe.2	Q05639	OTTHUMG00000033076	ENST00000298049.7:c.1029+1T>G	20.37:g.62121830A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B5BUF3|E1P5J1|P54266|Q0VGC7	Splice_Site	SNP	ENST00000298049.7	37	CCDS13522.1	.	.	.	.	.	.	.	.	.	.	A	13.15	2.151031	0.38021	.	.	ENSG00000101210	ENST00000298049;ENST00000217182	.	.	.	3.73	3.73	0.42828	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	12.718	0.57125	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	EEF1A2	61592274	1.000000	0.71417	0.805000	0.32314	0.308000	0.27856	9.102000	0.94226	1.467000	0.48044	0.398000	0.26397	.		0.667	EEF1A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080495.1	NM_001958	Intron	C	62121830	A	C	62121830	5	2	661	1	0	0	0	0	0	0	1	0	4926	173	6	5	372	5	EEF1A2	20	62121830	Splice_Site	SNP	A	TCGA-KN-8425-01A-11D-2310-10	60225880	62121830	903690	68	41086										
CDC45	8318	broad.mit.edu	37	chr22	19496202	19496202	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tcacttcatccaggctctggAcagcctctccaggtagcagg	10	14	4	0			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr22:19496202A>G	ENST00000407835.1	+	14	1461	c.1205A>G	c.(1204-1206)gAc>gGc	p.D402G	CDC45_ENST00000263201.1_Missense_Mutation_p.D402G|CDC45_ENST00000404724.3_Missense_Mutation_p.D356G|CDC45_ENST00000437685.2_Missense_Mutation_p.D434G			O75419	CDC45_HUMAN	cell division cycle 45	402					DNA replication (GO:0006260)|DNA replication checkpoint (GO:0000076)|DNA replication initiation (GO:0006270)|DNA strand elongation involved in DNA replication (GO:0006271)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				breast(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(2)|lung(7)|prostate(2)|skin(1)	19						CAGGCTCTGGACAGCCTCTCC	0.602																																																0													75	61	66					22																	19496202		2203	4300	6503	SO:0001583	missense	8318			AF053074	CCDS13762.1, CCDS54499.1, CCDS54500.1	22q11.21	2013-01-17	2013-01-17	2010-03-24	ENSG00000093009	ENSG00000093009			1739	protein-coding gene	gene with protein product	"human CDC45"	603465	"CDC45 (cell division cycle 45, S.cerevisiae, homolog)-like", "CDC45 cell division cycle 45-like (S. cerevisiae)", "cell division cycle 45 homolog (S. cerevisiae)"	CDC45L2, CDC45L		9660782, 9724329, 17608804	Standard	NM_001178010		Approved		uc011aha.2	O75419	OTTHUMG00000150386	ENST00000407835.1:c.1205A>G	22.37:g.19496202A>G	ENSP00000385240:p.Asp402Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DDB4|B4DDU3|E9PDH7|O60856|Q20WK8|Q6UW54|Q9UP68	Missense_Mutation	SNP	ENST00000407835.1	37	CCDS13762.1	.	.	.	.	.	.	.	.	.	.	A	27.3	4.815394	0.90790	.	.	ENSG00000093009	ENST00000407835;ENST00000437685;ENST00000263201;ENST00000404724	T;T;T;T	0.29655	1.56;1.56;1.56;1.56	5.88	5.88	0.94601	.	0.000000	0.85682	D	0.000000	T	0.63367	0.2505	M	0.89287	3.02	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.91635	0.996;0.999;0.996;0.996;0.996	T	0.70988	-0.4722	10	0.87932	D	0	-29.6376	16.3009	0.82811	1.0:0.0:0.0:0.0	.	434;397;356;434;402	E9PDH7;B4E092;B4DDB4;B4DDU3;O75419	.;.;.;.;CDC45_HUMAN	G	402;434;402;356	ENSP00000385240:D402G;ENSP00000405726:D434G;ENSP00000263201:D402G;ENSP00000384978:D356G	ENSP00000263201:D402G	D	+	2	0	CDC45	17876202	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	8.850000	0.92190	2.246000	0.74042	0.533000	0.62120	GAC		0.602	CDC45-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000317903.1	NM_003504		G	19496202	A	G	19496202	3	3	661	1	0	0	0	0	1	0	0	0	3083	275	10	3	1355	3	CDC45	22	19496202	Missense_Mutation	SNP	A	TCGA-KN-8425-01A-11D-2310-10		19496202	31808364	69	41087										
CABIN1	23523	broad.mit.edu	37	chr22	24573681	24573681	+	Frame_Shift_Del	DEL	T	T	-													0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tgccaaagctggtcatccccTccgccgccaccaagttcccc							TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr22:24573681delT	ENST00000398319.2	+	36	6800	c.6415delT	c.(6415-6417)tccfs	p.S2139fs	CABIN1_ENST00000405822.2_Frame_Shift_Del_p.S2060fs|CABIN1_ENST00000263119.5_Frame_Shift_Del_p.S2139fs|CABIN1_ENST00000337989.7_Frame_Shift_Del_p.S509fs	NM_001199281.1	NP_001186210.1	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	2139	Required for interaction with calcineurin. {ECO:0000250}.				cell surface receptor signaling pathway (GO:0007166)|chromatin modification (GO:0016568)|DNA replication-independent nucleosome assembly (GO:0006336)|negative regulation of catalytic activity (GO:0043086)	aggresome (GO:0016235)|cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	protein phosphatase inhibitor activity (GO:0004864)			breast(2)|central_nervous_system(2)|endometrium(6)|kidney(6)|large_intestine(13)|liver(1)|lung(18)|ovary(5)|pancreas(3)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	65						GGTCATCCCCTCCGCCGCCAC	0.662																																																0													72	59	63					22																	24573681		2203	4300	6503	SO:0001589	frameshift_variant	23523			AF072441	CCDS13823.1, CCDS74830.1	22q11.23	2008-09-16			ENSG00000099991	ENSG00000099991			24187	protein-coding gene	gene with protein product		604251				9655484, 9205841	Standard	NM_001199281		Approved	KIAA0330, PPP3IN	uc002zzi.1	Q9Y6J0	OTTHUMG00000150797	ENST00000398319.2:c.6415delT	22.37:g.24573681delT	ENSP00000381364:p.Ser2139fs	Somatic		WXS	Illumina HiSeq	Phase_I	G5E9F3|Q6PHY0|Q9Y460	Frame_Shift_Del	DEL	ENST00000398319.2	37	CCDS13823.1																																																																																				0.662	CABIN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320161.2	NM_012295		-	24573681	T	-	24573681	7	5	661	1	0	1	0	1	0	0	0	0	2530	1551	54	0	6553	0	CABIN1	22	24573681	Frame_Shift_Del	DEL	T	TCGA-KN-8425-01A-11D-2310-10	5077479	24573681	26730885	70	41088										
NUDT10	170685	mdanderson.org	37	chrX	51075901	51075901	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	tgcctgtgcttccggagcgaGcgcgaggacgaggtcctgtt	16	11	0	0	rs2801627		TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chrX:51075901G>A	ENST00000376006.3	+	2	304	c.84G>A	c.(82-84)gaG>gaA	p.E28E	NUDT10_ENST00000356450.2_Silent_p.E28E	NM_153183.2	NP_694853.1	Q9BW91	NUDT9_HUMAN	nudix (nucleoside diphosphate linked moiety X)-type motif 10	0					ADP catabolic process (GO:0046032)|IDP catabolic process (GO:0046709)|nucleobase-containing small molecule catabolic process (GO:0034656)|nucleobase-containing small molecule metabolic process (GO:0055086)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|mitochondrial matrix (GO:0005759)	adenosine-diphosphatase activity (GO:0043262)|ADP-ribose diphosphatase activity (GO:0047631)|ADP-sugar diphosphatase activity (GO:0019144)	p.E28E(2)		cervix(1)|endometrium(8)|kidney(1)|large_intestine(1)|lung(1)|prostate(3)|upper_aerodigestive_tract(1)	16	Ovarian(276;0.236)					TCCGGAGCGAGCGCGAGGACG	0.687																																					NSCLC(90;1817 2035 37909 38249)											2	Substitution - coding silent(2)	upper_aerodigestive_tract(1)|prostate(1)											41	35	37					X																	51075901		2203	4300	6503	SO:0001819	synonymous_variant	170685			AF469196	CCDS35278.1	Xp11.22-p11.1	2014-05-20			ENSG00000122824	ENSG00000122824		"Nudix motif containing"	17621	protein-coding gene	gene with protein product		300527				12105228	Standard	NM_153183		Approved	DIPP3a, hDIPP3alpha	uc004dph.3	Q8NFP7	OTTHUMG00000021530	ENST00000376006.3:c.84G>A	X.37:g.51075901G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NBN1|Q8NCB9|Q8NG25	Silent	SNP	ENST00000376006.3	37	CCDS35278.1																																																																																				0.687	NUDT10-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056578.1	NM_153183		A	51075901	G	A	51075901	2	1	661	1	0	0	0	0	0	0	0	1	10733	962	34	2		2	NUDT10	23	51075901	Silent	SNP	G	TCGA-KN-8425-01A-11D-2310-10		51075901	104194659	71	41089										
SLC25A5	292	mdanderson.org	37	chrX	118603729	118603729	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	gagttctgtccttctggcgcGgtaacctggccaatgtcatc	11	12	3	0	rs143413528		TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chrX:118603729G>A	ENST00000317881.8	+	2	333	c.217G>A	c.(217-219)Ggt>Agt	p.G73S	SLC25A5-AS1_ENST00000446986.1_RNA|SLC25A5_ENST00000460013.1_3'UTR	NM_001152.4	NP_001143.2	P05141	ADT2_HUMAN	solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 5	73					adenine transport (GO:0015853)|chromosome segregation (GO:0007059)|energy reserve metabolic process (GO:0006112)|negative regulation of mitochondrial outer membrane permeabilization involved in apoptotic signaling pathway (GO:1901029)|positive regulation of cell proliferation (GO:0008284)|regulation of insulin secretion (GO:0050796)|small molecule metabolic process (GO:0044281)|transport (GO:0006810)|viral process (GO:0016032)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)|MMXD complex (GO:0071817)|nucleus (GO:0005634)	adenine transmembrane transporter activity (GO:0015207)|poly(A) RNA binding (GO:0044822)	p.G73S(1)		breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|ovary(1)|prostate(1)|stomach(2)	12					Clodronate(DB00720)	CTTCTGGCGCGGTAACCTGGC	0.502																																																1	Substitution - Missense(1)	breast(1)											150	142	145					X																	118603729		2203	4300	6503	SO:0001583	missense	292			BC068199	CCDS14578.1	Xq24	2013-08-09			ENSG00000005022	ENSG00000005022		"Solute carriers"	10991	protein-coding gene	gene with protein product		300150		ANT2		2168878, 2829183	Standard	NM_001152		Approved	T2, 2F1, T3	uc004erh.4	P05141	OTTHUMG00000022715	ENST00000317881.8:c.217G>A	X.37:g.118603729G>A	ENSP00000360671:p.Gly73Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCV1|O43350	Missense_Mutation	SNP	ENST00000317881.8	37	CCDS14578.1	.	.	.	.	.	.	.	.	.	.	G	24.8	4.569470	0.86439	.	.	ENSG00000005022	ENST00000317881	D	0.98164	-4.76	4.18	4.18	0.49190	Mitochondrial carrier domain (2);	0.048889	0.85682	D	0.000000	D	0.99471	0.9812	H	0.99732	4.735	0.09310	P	0.999999126608	D	0.76494	0.999	D	0.74674	0.984	D	0.97692	1.0179	9	0.87932	D	0	.	15.4079	0.74893	0.0:0.0:1.0:0.0	.	73	P05141	ADT2_HUMAN	S	73	ENSP00000360671:G73S	ENSP00000360671:G73S	G	+	1	0	SLC25A5	118487757	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.307000	0.96226	2.019000	0.59389	0.529000	0.55759	GGT		0.502	SLC25A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058952.2	NM_001152		A	118603729	G	A	118603729	3	1	661	1	0	0	0	0	1	0	0	0	14525	1116	39	1	223	1	SLC25A5	23	118603729	Missense_Mutation	SNP	G	TCGA-KN-8425-01A-11D-2310-10	67527828	118603729	36666831	72	41090										
PCDH11Y	83259	broad.mit.edu	37	chrY	4967267	4967267	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0447761194029851	3	1	0.997784547216837	3.82484076433121	0.72854109796785	1	1	0	ctgaattcagcctggatcgtCgtacaggcatgctgactgta	11	10	1	2			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chrY:4967267C>T	ENST00000333703.4	+	5	2128	c.1615C>T	c.(1615-1617)Cgt>Tgt	p.R539C	PCDH11Y_ENST00000362095.5_Missense_Mutation_p.R550C|PCDH11Y_ENST00000215473.6_Missense_Mutation_p.R550C	NM_001278619.1|NM_032971.2	NP_001265548.1|NP_116753.1	Q9BZA8	PC11Y_HUMAN	protocadherin 11 Y-linked	550	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			autonomic_ganglia(1)|kidney(2)|large_intestine(7)|lung(14)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	27						CCTGGATCGTCGTACAGGCAT	0.438																																																0																																										SO:0001583	missense	83259			AF332217	CCDS14776.1, CCDS14777.1, CCDS76066.1	Yp11.2	2010-01-26	2002-05-22	2002-05-24	ENSG00000099715	ENSG00000099715		"Cadherins / Protocadherins : Non-clustered"	15813	protein-coding gene	gene with protein product		400022	"protocadherin 22"	PCDH22		10644456, 11003707	Standard	NM_032971		Approved	PCDHY	uc004fqo.3	Q9BZA8	OTTHUMG00000035105	ENST00000333703.4:c.1615C>T	Y.37:g.4967267C>T	ENSP00000330552:p.Arg539Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q70LR6|Q70LR8|Q70LS0|Q70LS1|Q70LS2|Q70LS3|Q70LS4|Q70LS5|Q8WY34|Q9BZA9|Q9H4E1	Missense_Mutation	SNP	ENST00000333703.4	37	CCDS14776.1																																																																																				0.438	PCDH11Y-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084979.2	NM_032973		T	4967267	C	T	4967267	3	4	661	1	0	0	0	0	1	0	0	0	11516	884	31	1	1690	1	PCDH11Y	24	4967267	Missense_Mutation	SNP	C	TCGA-KN-8425-01A-11D-2310-10		4967267	54406299	73	41091										
LOC440563	0	broad.mit.edu	37	chr1	13183837	13183837	+	IGR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	aacacacgggagttcacggaGtgaggatccatcttgttggt	13	8	2	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr1:13183837G>A								RP13-221M14.3 (19369 upstream) : PRAMEF26 (32518 downstream)																							AGTTCACGGAGTGAGGATCCA	0.463																																																0													64	48	53					1																	13183837		692	1591	2283	SO:0001628	intergenic_variant	0																															1.37:g.13183837G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP		37																																																																																				0	0.463									A	13183837	G	A	13183837	1	1	662	0	1	0	0	0	0	0	0	0	8886	1020	36	2		2	LOC440563	1	13183837	IGR	SNP	G	TCGA-KN-8426-01A-11D-2310-10		13183837	236066784	1	41092										
UBXN11	91544	mdanderson.org	37	chr1	26608849	26608849	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gccgggaccgggaccgggacTggggccgggaccgggaccgg	22	13	0	0	rs199707978		TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr1:26608849T>A	ENST00000374222.1	-	16	1968	c.1504A>T	c.(1504-1506)Agt>Tgt	p.S502C	UBXN11_ENST00000374223.1_Missense_Mutation_p.S259C|UBXN11_ENST00000314675.7_Missense_Mutation_p.S382C|UBXN11_ENST00000374217.2_Missense_Mutation_p.S469C|UBXN11_ENST00000374221.3_Missense_Mutation_p.S502C|UBXN11_ENST00000357089.4_Missense_Mutation_p.S469C			Q5T124	UBX11_HUMAN	UBX domain protein 11	502	3 X 8 AA tandem repeats of P-G-P-G-P-G-P- S.|Pro-rich.		Missing.			cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)		p.G490_P515delGPGPSPGPGPGPSPGPGPGPSPCPGP(1)		endometrium(3)|kidney(2)|large_intestine(4)|lung(6)|ovary(2)|prostate(3)|upper_aerodigestive_tract(3)	23						ggaccgggactggggccggga	0.731																																																1	Deletion - In frame(1)	ovary(1)											19	22	21					1																	26608849		1706	3905	5611	SO:0001583	missense	91544			AF521017	CCDS41286.1, CCDS41287.1, CCDS41288.1	1p36.11	2008-07-25	2008-07-25	2008-07-25	ENSG00000158062	ENSG00000158062		"UBX domain containing"	30600	protein-coding gene	gene with protein product	"socius"	609151	"UBX domain containing 5"	UBXD5		11940653	Standard	NM_183008		Approved	SOC, SOCI	uc001blw.3	Q5T124	OTTHUMG00000003382	ENST00000374222.1:c.1504A>T	1.37:g.26608849T>A	ENSP00000363339:p.Ser502Cys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPK6|Q5T117|Q5T120|Q5T125|Q5T126|Q5T129|Q5T131|Q5T133|Q63HM6|Q71RB3|Q8IY27|Q8N1L6|Q8N9M4|Q8NA18|Q8NFE3|Q8NFE4|Q8NFE6	Missense_Mutation	SNP	ENST00000374222.1	37	CCDS41288.1	.	.	.	.	.	.	.	.	.	.	-	8.284	0.816212	0.16607	.	.	ENSG00000158062	ENST00000314675;ENST00000374223;ENST00000357089;ENST00000374221;ENST00000374222;ENST00000374217	T;T;T;T;T;T	0.19105	2.17;2.18;2.44;2.43;2.43;2.44	.	.	.	.	.	.	.	.	T	0.10594	0.0259	N	0.08118	0	0.09310	N	0.999993	.	.	.	.	.	.	T	0.30446	-0.9978	5	0.66056	D	0.02	.	.	.	.	.	469;382;502	Q5T124-2;Q5T124-3;Q5T124	.;.;UBX11_HUMAN	C	382;259;469;502;502;469	ENSP00000324721:S382C;ENSP00000363340:S259C;ENSP00000349601:S469C;ENSP00000363338:S502C;ENSP00000363339:S502C;ENSP00000363334:S469C	ENSP00000324721:S382C	S	-	1	0	UBXN11	26481436	0.000000	0.05858	0.168000	0.22838	0.175000	0.22909	-0.694000	0.05115	0.000000	0.14550	0.000000	0.15137	AGT		0.731	UBXN11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000009500.1	NM_145345		A	26608849	T	A	26608849	3	1	662	1	0	0	0	0	1	0	0	0	16925	1580	55	5	62	5	UBXN11	1	26608849	Missense_Mutation	SNP	T	TCGA-KN-8426-01A-11D-2310-10	13425012	26608849	222641772	2	41093										
MED8	112950	broad.mit.edu	37	chr1	43850194	43850194	+	3'UTR	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tcaccttgcgccttagagggAtagccagaatgaaacccagg	11	11	1	3			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr1:43850194A>G	ENST00000372457.4	-	0	1369				RP1-92O14.6_ENST00000436713.1_RNA|MED8_ENST00000290663.6_Missense_Mutation_p.I278T	NM_001001653.2|NM_201542.3	NP_001001653.1|NP_963836.2	Q96G25	MED8_HUMAN	mediator complex subunit 8						gene expression (GO:0010467)|protein ubiquitination (GO:0016567)|transcription initiation from RNA polymerase II promoter (GO:0006367)	mediator complex (GO:0016592)|nucleoplasm (GO:0005654)	RNA polymerase II transcription cofactor activity (GO:0001104)			endometrium(2)|large_intestine(3)|lung(3)|upper_aerodigestive_tract(1)	9	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CCTTAGAGGGATAGCCAGAAT	0.517																																																0													52	51	51					1																	43850194		2203	4300	6503	SO:0001624	3_prime_UTR_variant	112950			AF521562, BC010543	CCDS486.2, CCDS487.2, CCDS60108.1	1p34.1	2008-02-05	2007-07-30		ENSG00000159479	ENSG00000159479			19971	protein-coding gene	gene with protein product		607956	"mediator of RNA polymerase II transcription, subunit 8 homolog (S. cerevisiae)"			12149480, 9671713	Standard	NM_052877		Approved	MGC17544, MGC19641, ARC32	uc001cje.2	Q96G25	OTTHUMG00000007421	ENST00000372457.4:c.*519T>C	1.37:g.43850194A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A9IZ91|A9IZ92|Q5JUY8|Q96FQ4	Missense_Mutation	SNP	ENST00000372457.4	37	CCDS487.2	.	.	.	.	.	.	.	.	.	.	A	9.522	1.108487	0.20714	.	.	ENSG00000159479	ENST00000290663	.	.	.	3.85	-0.45	0.12223	.	4.155170	0.00866	N	0.001964	T	0.32645	0.0836	.	.	.	0.09310	N	1	B	0.15473	0.013	B	0.14023	0.01	T	0.31943	-0.9925	8	0.87932	D	0	-12.3911	5.4248	0.16419	0.346:0.4871:0.0:0.1668	.	278	Q96G25-2	.	T	278	.	ENSP00000290663:I278T	I	-	2	0	MED8	43622781	0.000000	0.05858	0.000000	0.03702	0.017000	0.09413	0.012000	0.13287	-0.078000	0.12730	0.450000	0.29827	ATC		0.517	MED8-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318959.1	NM_052877		G	43850194	A	G	43850194	1	3	662	0	1	0	0	0	0	0	0	0	9460	333	12	3		3	MED8	1	43850194	3'UTR	SNP	A	TCGA-KN-8426-01A-11D-2310-10	17241345	43850194	205400427	3	41094										
SLC35D1	23169	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	67486077	67486077	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tacagccaactattgtagttGtaagagcagaattatactgc	8	7	0	2	rs143745141		TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr1:67486077G>A	ENST00000235345.5	-	10	936	c.851C>T	c.(850-852)aCa>aTa	p.T284I	SLC35D1_ENST00000506472.2_Missense_Mutation_p.T205I	NM_015139.2	NP_055954.1	Q9NTN3	S35D1_HUMAN	solute carrier family 35 (UDP-GlcA/UDP-GalNAc transporter), member D1	284					carbohydrate transport (GO:0008643)|cellular glucuronidation (GO:0052695)|chondroitin sulfate biosynthetic process (GO:0030206)|embryonic skeletal system development (GO:0048706)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|UDP-glucuronate biosynthetic process (GO:0006065)|UDP-glucuronic acid transport (GO:0015787)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	UDP-glucuronic acid transmembrane transporter activity (GO:0005461)			endometrium(2)|kidney(1)|large_intestine(3)|lung(4)	10						TATTGTAGTTGTAAGAGCAGA	0.333																																																0													107	106	106					1																	67486077		2203	4300	6503	SO:0001583	missense	23169			AB044343	CCDS636.1	1p32-p31	2013-07-17	2013-07-17		ENSG00000116704	ENSG00000116704		"Solute carriers"	20800	protein-coding gene	gene with protein product		610804	"solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1"			11322953	Standard	NM_015139		Approved	UGTREL7, KIAA0260	uc001ddk.2	Q9NTN3	OTTHUMG00000009360	ENST00000235345.5:c.851C>T	1.37:g.67486077G>A	ENSP00000235345:p.Thr284Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K185|B7Z3X2|Q52LU5|Q92548	Missense_Mutation	SNP	ENST00000235345.5	37	CCDS636.1	.	.	.	.	.	.	.	.	.	.	G	25.2	4.618557	0.87460	.	.	ENSG00000116704	ENST00000235345;ENST00000506472	T;T	0.71579	-0.58;-0.58	6.16	6.16	0.99307	Domain of unknown function DUF250 (1);	0.000000	0.85682	D	0.000000	D	0.87341	0.6153	M	0.93808	3.46	0.80722	D	1	D;D	0.59357	0.985;0.983	D;P	0.66716	0.946;0.873	D	0.88851	0.3319	10	0.72032	D	0.01	-12.8739	19.6313	0.95704	0.0:0.0:1.0:0.0	.	205;284	B7Z3X2;Q9NTN3	.;S35D1_HUMAN	I	284;205	ENSP00000235345:T284I;ENSP00000445189:T205I	ENSP00000235345:T284I	T	-	2	0	SLC35D1	67258665	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	8.014000	0.88676	2.937000	0.99478	0.650000	0.86243	ACA		0.333	SLC35D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025948.1	NM_015139		A	67486077	G	A	67486077	3	1	662	1	0	0	0	0	1	0	0	0	14594	1377	48	2	228	2	SLC35D1	1	67486077	Missense_Mutation	SNP	G	TCGA-KN-8426-01A-11D-2310-10	23635883	67486077	181764544	4	41095										
CSDE1	7812	bcgsc.ca	37	chr1	115280678	115280683	+	In_Frame_Del	DEL	TTCAAA	TTCAAA	-													0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tccgtcggtccgatgatactTcaaattcaacatcatctaaa							TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	TTCAAA	TTCAAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr1:115280678_115280683delTTCAAA	ENST00000358528.4	-	4	636_641	c.210_215delTTTGAA	c.(208-216)gatttgaaa>gaa	p.70_72DLK>E	CSDE1_ENST00000369530.1_In_Frame_Del_p.116_118DLK>E|CSDE1_ENST00000534699.1_In_Frame_Del_p.70_72DLK>E|CSDE1_ENST00000530886.1_5'UTR|CSDE1_ENST00000339438.6_In_Frame_Del_p.70_72DLK>E|CSDE1_ENST00000261443.5_In_Frame_Del_p.70_72DLK>E|CSDE1_ENST00000438362.2_In_Frame_Del_p.116_118DLK>E	NM_001007553.2	NP_001007554.1	O75534	CSDE1_HUMAN	cold shock domain containing E1, RNA-binding	70	CSD 1.				male gonad development (GO:0008584)|nuclear-transcribed mRNA catabolic process, no-go decay (GO:0070966)|regulation of transcription, DNA-templated (GO:0006355)	CRD-mediated mRNA stability complex (GO:0070937)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)	p.F71C(1)		NS(1)|breast(4)|endometrium(11)|kidney(2)|large_intestine(12)|lung(17)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	51	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;2.21e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CGATGATACTTCAAATTCAACATCAT	0.345																																																1	Substitution - Missense(1)	endometrium(1)																																								SO:0001651	inframe_deletion	7812				CCDS30811.1, CCDS30812.1, CCDS44197.1, CCDS55626.1	1p13.2	2011-11-02			ENSG00000009307	ENSG00000009307			29905	protein-coding gene	gene with protein product	"upstream of NRAS"	191510				2204029, 10048485	Standard	NM_007158		Approved	D1S155E, UNR	uc001efi.3	O75534	OTTHUMG00000012060	ENST00000358528.4:c.210_215delTTTGAA	1.37:g.115280678_115280683delTTCAAA	ENSP00000351329:p.Asp70_Lys72delinsGlu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K281|E9PGZ0|G5E9Q2|O94961|Q5TF04|Q5TF05|Q68DF1|Q68DI9|Q9Y2S4	In_Frame_Del	DEL	ENST00000358528.4	37	CCDS30812.1																																																																																				0.345	CSDE1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033397.1	NM_007158		-	115280683	TTCAAA	-	115280678	7	5	662	1	0	1	0	1	0	0	0	0	3931	1783	62	0	2249	0	CSDE1	1	115280678	In_Frame_Del	DEL	TTCAAA	TCGA-KN-8426-01A-11D-2310-10	47794601	115280678	133969943	5	41096										
SHC1	6464	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	154938971	154938971	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ttcctcctcctcatcccatgCtgagccatcaaagccagcca	5	18	2	1	rs150380146		TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr1:154938971C>A	ENST00000368445.5	-	8	1220	c.1006G>T	c.(1006-1008)Gca>Tca	p.A336S	SHC1_ENST00000490667.1_5'Flank|PYGO2_ENST00000483463.1_5'Flank|SHC1_ENST00000448116.2_Missense_Mutation_p.A336S|SHC1_ENST00000606391.1_Missense_Mutation_p.A137S|SHC1_ENST00000368450.1_Missense_Mutation_p.A226S|SHC1_ENST00000368453.4_Missense_Mutation_p.A226S|SHC1_ENST00000368449.4_Missense_Mutation_p.A107S	NM_183001.4	NP_892113.4	P29353	SHC1_HUMAN	SHC (Src homology 2 domain containing) transforming protein 1	336	PID. {ECO:0000255|PROSITE- ProRule:PRU00148}.				actin cytoskeleton reorganization (GO:0031532)|activation of MAPK activity (GO:0000187)|activation of signaling protein activity involved in unfolded protein response (GO:0006987)|angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|leukocyte migration (GO:0050900)|MAPK cascade (GO:0000165)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet activation (GO:0030168)|positive regulation of cell proliferation (GO:0008284)|positive regulation of DNA replication (GO:0045740)|Ras protein signal transduction (GO:0007265)|regulation of epidermal growth factor-activated receptor activity (GO:0007176)|regulation of growth (GO:0040008)|single organismal cell-cell adhesion (GO:0016337)	cytosol (GO:0005829)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|Shc-EGFR complex (GO:0070435)	ephrin receptor binding (GO:0046875)|epidermal growth factor receptor binding (GO:0005154)|insulin receptor binding (GO:0005158)|insulin-like growth factor receptor binding (GO:0005159)|neurotrophin TRKA receptor binding (GO:0005168)|phospholipid binding (GO:0005543)|protein tyrosine kinase activity (GO:0004713)|transmembrane receptor protein tyrosine kinase adaptor activity (GO:0005068)			breast(1)|endometrium(5)|kidney(2)|large_intestine(2)|lung(8)|prostate(1)|skin(1)	20	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TCATCCCATGCTGAGCCATCA	0.567																																					NSCLC(4;32 234 1864 2492 3259 13747 17376)											0													19	18	18					1																	154938971		2201	4300	6501	SO:0001583	missense	6464			U73377	CCDS1076.1, CCDS30881.1, CCDS44233.1, CCDS44234.1	1q21	2013-02-14	2002-01-14		ENSG00000160691	ENSG00000160691		"SH2 domain containing"	10840	protein-coding gene	gene with protein product		600560	"SHC (Src homology 2 domain-containing) transforming protein 1"	SHC		1623525	Standard	NM_003029		Approved	p66	uc001ffw.3	P29353	OTTHUMG00000037295	ENST00000368445.5:c.1006G>T	1.37:g.154938971C>A	ENSP00000357430:p.Ala336Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B5BU19|D3DV78|O15290|Q5T180|Q5T183|Q5T184|Q5T185|Q5T186|Q8N4K5|Q96CL1	Missense_Mutation	SNP	ENST00000368445.5	37	CCDS30881.1	.	.	.	.	.	.	.	.	.	.	C	17.03	3.285670	0.59867	.	.	ENSG00000160691	ENST00000368445;ENST00000448116;ENST00000368449;ENST00000368453;ENST00000368450;ENST00000368443;ENST00000368441;ENST00000414115;ENST00000444179	T;T;T;T;T;T	0.47177	1.93;2.1;1.69;1.87;1.86;0.85	4.71	4.71	0.59529	Phosphotyrosine interaction domain (1);	0.000000	0.85682	D	0.000000	T	0.19805	0.0476	N	0.12961	0.28	0.80722	D	1	B;P;B	0.36110	0.402;0.537;0.125	B;B;B	0.32928	0.109;0.155;0.119	T	0.10177	-1.0641	10	0.44086	T	0.13	.	17.4551	0.87605	0.0:1.0:0.0:0.0	.	115;336;336	Q59HB0;P29353-6;P29353	.;.;SHC1_HUMAN	S	336;336;137;226;226;272;8;89;107	ENSP00000357430:A336S;ENSP00000401303:A336S;ENSP00000357434:A137S;ENSP00000357438:A226S;ENSP00000357435:A226S;ENSP00000404908:A89S	ENSP00000357426:A8S	A	-	1	0	SHC1	153205595	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	7.198000	0.77823	2.442000	0.82660	0.557000	0.71058	GCA		0.567	SHC1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000090781.2	NM_183001		A	154938971	C	A	154938971	3	1	662	1	0	0	0	0	1	0	0	0	14283	797	28	4	768	4	SHC1	1	154938971	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	39658293	154938971	94311650	6	41097										
FMO3	2328	broad.mit.edu	37	chr1	171073025	171073025	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	acttcccatttcccgatgacTtccccaactttatgcacaac	3	16	0	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr1:171073025T>C	ENST00000367755.4	+	3	343	c.232T>C	c.(232-234)Ttc>Ctc	p.F78L	FMO3_ENST00000538429.1_Intron|FMO3_ENST00000542847.1_Missense_Mutation_p.F58L|FMO3_ENST00000392085.2_Missense_Mutation_p.F78L|MIR1295A_ENST00000408463.1_RNA	NM_001002294.2	NP_001002294.1	P31513	FMO3_HUMAN	flavin containing monooxygenase 3	78					drug metabolic process (GO:0017144)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)	amino acid binding (GO:0016597)|flavin adenine dinucleotide binding (GO:0050660)|N,N-dimethylaniline monooxygenase activity (GO:0004499)|NADP binding (GO:0050661)|trimethylamine monooxygenase activity (GO:0034899)			endometrium(1)|kidney(1)|large_intestine(12)|lung(12)|skin(1)|stomach(2)|urinary_tract(2)	31	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)				Almotriptan(DB00918)|Cimetidine(DB00501)|Clozapine(DB00363)|Dapsone(DB00250)|Dasatinib(DB01254)|Olanzapine(DB00334)|Tamoxifen(DB00675)|Vandetanib(DB05294)|Voriconazole(DB00582)	TCCCGATGACTTCCCCAACTT	0.418																																																0													143	131	135					1																	171073025		2203	4300	6503	SO:0001583	missense	2328			BC032016	CCDS1292.1	1q24.3	2013-10-01			ENSG00000007933	ENSG00000007933	2.6.1.16		3771	protein-coding gene	gene with protein product		136132				8486388, 9417913	Standard	NM_001002294		Approved		uc001ghh.3	P31513	OTTHUMG00000035505	ENST00000367755.4:c.232T>C	1.37:g.171073025T>C	ENSP00000356729:p.Phe78Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R816|Q14854|Q8N5N5	Missense_Mutation	SNP	ENST00000367755.4	37	CCDS1292.1	.	.	.	.	.	.	.	.	.	.	T	18.70	3.680637	0.68042	.	.	ENSG00000007933	ENST00000367755;ENST00000392085;ENST00000542847	T;T;T	0.57436	0.4;0.4;0.4	4.53	4.53	0.55603	.	0.226085	0.45126	D	0.000381	T	0.39253	0.1071	L	0.55103	1.725	0.46028	D	0.998824	B;B	0.22746	0.074;0.046	B;B	0.33690	0.139;0.168	T	0.43814	-0.9368	10	0.45353	T	0.12	-8.3909	13.84	0.63432	0.0:0.0:0.0:1.0	.	58;78	F5GZZ8;P31513	.;FMO3_HUMAN	L	78;78;58	ENSP00000356729:F78L;ENSP00000375935:F78L;ENSP00000444073:F58L	ENSP00000356729:F78L	F	+	1	0	FMO3	169339649	0.973000	0.33851	0.994000	0.49952	0.846000	0.48090	7.677000	0.84024	1.800000	0.52685	0.482000	0.46254	TTC		0.418	FMO3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086219.1	NM_006894		C	171073025	T	C	171073025	3	2	662	1	0	0	0	0	1	0	0	0	5963	1609	56	3	238	3	FMO3	1	171073025	Missense_Mutation	SNP	T	TCGA-KN-8426-01A-11D-2310-10	16134054	171073025	78177596	7	41098										
TMEM214	54867	ucsc.edu;bcgsc.ca	37	chr2	27263695	27263695	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ctgggcacttgccctgatatCccagcagtaggccctgcctt	10	15	0	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr2:27263695C>T	ENST00000238788.9	+	17	2122	c.2060C>T	c.(2059-2061)tCc>tTc	p.S687F	TMEM214_ENST00000404032.3_Missense_Mutation_p.S642F	NM_017727.4	NP_060197.4	Q6NUQ4	TM214_HUMAN	transmembrane protein 214	687					apoptotic process (GO:0006915)	cytoplasmic microtubule (GO:0005881)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)				kidney(1)|large_intestine(5)|lung(9)|prostate(1)|skin(2)	18						GCCCTGATATCCCAGCAGTAG	0.542																																																0													103	101	102					2																	27263695		2031	4193	6224	SO:0001583	missense	54867				CCDS42664.1, CCDS46242.1	2p23.3	2013-06-19			ENSG00000119777	ENSG00000119777			25983	protein-coding gene	gene with protein product						23661706	Standard	NM_001083590		Approved	FLJ20254	uc002ria.4	Q6NUQ4	OTTHUMG00000151999	ENST00000238788.9:c.2060C>T	2.37:g.27263695C>T	ENSP00000238788:p.Ser687Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNF2|B3KUI9|B5MCD8|D6W547|Q53SW1|Q69YH4|Q8NC45|Q8WZ37|Q9NXH2	Missense_Mutation	SNP	ENST00000238788.9	37	CCDS42664.1	.	.	.	.	.	.	.	.	.	.	C	23.6	4.440509	0.83993	.	.	ENSG00000119777	ENST00000238788;ENST00000404032;ENST00000537397	T;T	0.54479	0.57;0.58	5.92	5.92	0.95590	.	0.138939	0.49916	D	0.000122	T	0.64994	0.2649	L	0.34521	1.04	0.43385	D	0.995492	D;P	0.89917	1.0;0.948	D;P	0.91635	0.999;0.733	T	0.66268	-0.5966	10	0.87932	D	0	-10.0855	18.0937	0.89481	0.0:1.0:0.0:0.0	.	642;687	Q6NUQ4-2;Q6NUQ4	.;TM214_HUMAN	F	687;642;427	ENSP00000238788:S687F;ENSP00000384417:S642F	ENSP00000238788:S687F	S	+	2	0	TMEM214	27117199	1.000000	0.71417	1.000000	0.80357	0.778000	0.44026	4.558000	0.60789	2.813000	0.96785	0.561000	0.74099	TCC		0.542	TMEM214-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324748.1	NM_017727		T	27263695	C	T	27263695	3	4	662	1	0	0	0	0	1	0	0	0	16149	855	30	2	2126	2	TMEM214	2	27263695	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10		27263695	215935678	8	41099										
IRS1	3667	ucsc.edu	37	chr2	227659840	227659840	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	cccaggggttgatgagggggTgggggtgggggaggctgcgg	26	5	0	2			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr2:227659840T>G	ENST00000305123.5	-	1	4635	c.3615A>C	c.(3613-3615)ccA>ccC	p.P1205P	IRS1_ENST00000498335.1_5'UTR	NM_005544.2	NP_005535.1	P35568	IRS1_HUMAN	insulin receptor substrate 1	1205	Pro-rich.				cellular response to insulin stimulus (GO:0032869)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|glucose homeostasis (GO:0042593)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|insulin-like growth factor receptor signaling pathway (GO:0048009)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|lipid catabolic process (GO:0016042)|mammary gland development (GO:0030879)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of insulin secretion (GO:0046676)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of fatty acid beta-oxidation (GO:0032000)|positive regulation of glucose import (GO:0046326)|positive regulation of glucose import in response to insulin stimulus (GO:2001275)|positive regulation of glucose metabolic process (GO:0010907)|positive regulation of glycogen biosynthetic process (GO:0045725)|positive regulation of insulin receptor signaling pathway (GO:0046628)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|protein kinase B signaling (GO:0043491)|protein localization to nucleus (GO:0034504)|regulation of gene expression (GO:0010468)|response to insulin (GO:0032868)|response to peptide hormone (GO:0043434)|signal transduction (GO:0007165)	caveola (GO:0005901)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|insulin receptor complex (GO:0005899)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	insulin receptor binding (GO:0005158)|insulin-like growth factor receptor binding (GO:0005159)|phosphatidylinositol 3-kinase binding (GO:0043548)|protein kinase C binding (GO:0005080)|SH2 domain binding (GO:0042169)|signal transducer activity (GO:0004871)|transmembrane receptor protein tyrosine kinase adaptor activity (GO:0005068)			autonomic_ganglia(1)|breast(2)|central_nervous_system(4)|endometrium(5)|kidney(4)|large_intestine(10)|lung(33)|ovary(6)|pancreas(1)|prostate(1)|urinary_tract(2)	69		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GATGAGGGGGTGGGGGTGGGG	0.577																																																0																																										SO:0001819	synonymous_variant	3667				CCDS2463.1	2q36	2013-01-10			ENSG00000169047	ENSG00000169047		"Pleckstrin homology (PH) domain containing"	6125	protein-coding gene	gene with protein product		147545				1648180	Standard	NM_005544		Approved	HIRS-1	uc002voh.4	P35568	OTTHUMG00000133179	ENST00000305123.5:c.3615A>C	2.37:g.227659840T>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000305123.5	37	CCDS2463.1																																																																																				0.577	IRS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256886.3	NM_005544		G	227659840	T	G	227659840	2	3	662	1	0	0	0	0	0	0	0	1	7847	1683	59	5		5	IRS1	2	227659840	Silent	SNP	T	TCGA-KN-8426-01A-11D-2310-10	200396145	227659840	15539533	9	41100										
IQCA1	79781	bcgsc.ca	37	chr2	237402454	237402454	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tgtccgctaatatttgagcaAgaattttctctcttcctttt	5	9	2	2			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr2:237402454A>G	ENST00000409907.3	-	3	687	c.413T>C	c.(412-414)cTt>cCt	p.L138P	IQCA1_ENST00000309507.5_Missense_Mutation_p.L134P|IQCA1_ENST00000431676.2_Missense_Mutation_p.L138P	NM_024726.4	NP_079002.3	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1	138							ATP binding (GO:0005524)			cervix(1)|endometrium(3)|kidney(2)|large_intestine(7)|lung(12)|ovary(1)	26						TATTTGAGCAAGAATTTTCTC	0.313																																																0													116	105	108					2																	237402454		1809	4078	5887	SO:0001583	missense	79781			AK026180	CCDS46549.1, CCDS59441.1, CCDS74677.1	2q37.3	2014-07-18	2008-07-02	2008-07-02	ENSG00000132321	ENSG00000132321		"ATPases / AAA-type"	26195	protein-coding gene	gene with protein product	"dynein regulatory complex subunit 11"		"IQ motif containing with AAA domain"	IQCA		23427265	Standard	NM_024726		Approved	FLJ22527, DRC11	uc002vwb.3	Q86XH1	OTTHUMG00000153058	ENST00000409907.3:c.413T>C	2.37:g.237402454A>G	ENSP00000387347:p.Leu138Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFH9|E7EWQ0|Q4G164|Q53R37|Q53RV3|Q96NS7|Q9H680	Missense_Mutation	SNP	ENST00000409907.3	37	CCDS46549.1	.	.	.	.	.	.	.	.	.	.	A	15.44	2.835275	0.50951	.	.	ENSG00000132321	ENST00000409907;ENST00000457693;ENST00000309507;ENST00000431676;ENST00000412437	D;D;D	0.95377	-3.57;-3.59;-3.69	5.05	5.05	0.67936	.	0.000000	0.50627	D	0.000103	D	0.97729	0.9255	M	0.86502	2.82	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.83275	0.99;0.996;0.99	D	0.98162	1.0447	10	0.54805	T	0.06	.	13.6585	0.62352	1.0:0.0:0.0:0.0	.	138;145;138	E7EWQ0;E9PH78;Q86XH1	.;.;IQCA1_HUMAN	P	138;145;134;138;134	ENSP00000387347:L138P;ENSP00000311951:L134P;ENSP00000407213:L138P	ENSP00000254653:L138P	L	-	2	0	IQCA1	237067193	1.000000	0.71417	0.860000	0.33809	0.389000	0.30415	6.007000	0.70731	1.911000	0.55334	0.460000	0.39030	CTT		0.313	IQCA1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000329266.1	NM_024726		G	237402454	A	G	237402454	3	3	662	1	0	0	0	0	1	0	0	0	7809	72	3	3	2123	3	IQCA1	2	237402454	Missense_Mutation	SNP	A	TCGA-KN-8426-01A-11D-2310-10	9742614	237402454	5796919	10	41101										
IGSF10	285313	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr3	151162874	151162874	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	agtcaaagggaaggagtttgGaagttgttgcttcttgaact	13	4	2	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr3:151162874G>T	ENST00000282466.3	-	4	4894	c.4895C>A	c.(4894-4896)tCc>tAc	p.S1632Y		NM_001178145.1|NM_001178146.1|NM_178822.4	NP_001171616.1|NP_001171617.1|NP_849144.2	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10	1632					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)	extracellular region (GO:0005576)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(24)|liver(4)|lung(43)|ovary(8)|prostate(4)|skin(9)|stomach(1)|urinary_tract(3)	116			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AAGGAGTTTGGAAGTTGTTGC	0.423																																																0													263	233	243					3																	151162874		2203	4300	6503	SO:0001583	missense	285313			AY273815	CCDS3160.1	3q25.1	2013-01-11			ENSG00000152580	ENSG00000152580		"Immunoglobulin superfamily / I-set domain containing"	26384	protein-coding gene	gene with protein product						12477932	Standard	NM_178822		Approved	FLJ25972, CMF608	uc011bod.2	Q6WRI0	OTTHUMG00000159856	ENST00000282466.3:c.4895C>A	3.37:g.151162874G>T	ENSP00000282466:p.Ser1632Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q86YJ9|Q8N772|Q8NA84	Missense_Mutation	SNP	ENST00000282466.3	37	CCDS3160.1	.	.	.	.	.	.	.	.	.	.	G	18.60	3.659181	0.67586	.	.	ENSG00000152580	ENST00000282466;ENST00000544042	T	0.71341	-0.56	5.86	4.09	0.47781	.	0.299519	0.23924	N	0.043206	T	0.69522	0.3120	L	0.39898	1.24	0.09310	N	1	D	0.61080	0.989	P	0.55667	0.781	T	0.61362	-0.7078	10	0.72032	D	0.01	.	6.5333	0.22339	0.2142:0.1308:0.6549:0.0	.	1632	Q6WRI0	IGS10_HUMAN	Y	1632;259	ENSP00000282466:S1632Y	ENSP00000282466:S1632Y	S	-	2	0	IGSF10	152645564	0.216000	0.23585	0.008000	0.14137	0.637000	0.38172	3.111000	0.50360	0.842000	0.35045	-0.142000	0.14014	TCC		0.423	IGSF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357782.1	NM_178822		T	151162874	G	T	151162874	3	4	662	1	0	0	0	0	1	0	0	0	7604	1174	41	4	3036	4	IGSF10	3	151162874	Missense_Mutation	SNP	G	TCGA-KN-8426-01A-11D-2310-10		151162874	46859556	11	41102										
IGSF10	285313	broad.mit.edu	37	chr3	151165623	151165623	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ccgatagttgtgcctcttacTtgtgcttgaggtgtgttttc	11	8	1	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr3:151165623T>C	ENST00000282466.3	-	4	2145	c.2146A>G	c.(2146-2148)Agt>Ggt	p.S716G		NM_001178145.1|NM_001178146.1|NM_178822.4	NP_001171616.1|NP_001171617.1|NP_849144.2	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10	716					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)	extracellular region (GO:0005576)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(24)|liver(4)|lung(43)|ovary(8)|prostate(4)|skin(9)|stomach(1)|urinary_tract(3)	116			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TGCCTCTTACTTGTGCTTGAG	0.493																																																0													84	68	74					3																	151165623		2203	4300	6503	SO:0001583	missense	285313			AY273815	CCDS3160.1	3q25.1	2013-01-11			ENSG00000152580	ENSG00000152580		"Immunoglobulin superfamily / I-set domain containing"	26384	protein-coding gene	gene with protein product						12477932	Standard	NM_178822		Approved	FLJ25972, CMF608	uc011bod.2	Q6WRI0	OTTHUMG00000159856	ENST00000282466.3:c.2146A>G	3.37:g.151165623T>C	ENSP00000282466:p.Ser716Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q86YJ9|Q8N772|Q8NA84	Missense_Mutation	SNP	ENST00000282466.3	37	CCDS3160.1	.	.	.	.	.	.	.	.	.	.	T	10.49	1.363613	0.24684	.	.	ENSG00000152580	ENST00000282466	T	0.68765	-0.35	4.73	-0.335	0.12662	.	0.460607	0.18317	N	0.144904	T	0.46073	0.1374	L	0.32530	0.975	0.09310	N	1	B	0.09022	0.002	B	0.08055	0.003	T	0.19321	-1.0309	10	0.19147	T	0.46	.	5.3033	0.15790	0.0:0.2302:0.1453:0.6245	.	716	Q6WRI0	IGS10_HUMAN	G	716	ENSP00000282466:S716G	ENSP00000282466:S716G	S	-	1	0	IGSF10	152648313	0.003000	0.15002	0.000000	0.03702	0.044000	0.14063	0.121000	0.15667	-0.197000	0.10350	-0.353000	0.07706	AGT		0.493	IGSF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357782.1	NM_178822		C	151165623	T	C	151165623	3	2	662	1	0	0	0	0	1	0	0	0	7604	1609	56	3	5785	3	IGSF10	3	151165623	Missense_Mutation	SNP	T	TCGA-KN-8426-01A-11D-2310-10	2749	151165623	46856807	12	41103										
GFM1	85476	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	158363431	158363431	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ttttcaggttaattggaaggCctgccgatggtcttcatcag	11	8	4	0			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr3:158363431C>T	ENST00000486715.1	+	2	452	c.95C>T	c.(94-96)gCc>gTc	p.A32V	GFM1_ENST00000478576.1_Missense_Mutation_p.A32V|GFM1_ENST00000264263.5_Missense_Mutation_p.A32V	NM_024996.5	NP_079272.4			G elongation factor, mitochondrial 1											breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(5)|lung(9)|ovary(3)|urinary_tract(2)	22			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			AATTGGAAGGCCTGCCGATGG	0.373																																																0													79	80	79					3																	158363431		2203	4300	6503	SO:0001583	missense	85476			AF309777	CCDS33885.1	3q25	2008-02-05			ENSG00000168827	ENSG00000168827			13780	protein-coding gene	gene with protein product		606639	"G translation elongation factor, mitochondrial"			11374907, 11735030	Standard	NM_024996		Approved	EFGM, GFM, EGF1	uc003fce.3	Q96RP9	OTTHUMG00000158804	ENST00000486715.1:c.95C>T	3.37:g.158363431C>T	ENSP00000419038:p.Ala32Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000486715.1	37	CCDS33885.1	.	.	.	.	.	.	.	.	.	.	C	9.663	1.144578	0.21288	.	.	ENSG00000168827	ENST00000486715;ENST00000478576;ENST00000264263	T;T;T	0.72394	-0.07;-0.65;-0.07	5.43	-2.17	0.07059	.	1.214710	0.05439	N	0.547337	T	0.48205	0.1487	N	0.08118	0	0.36592	D	0.874181	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.001	T	0.22487	-1.0215	10	0.30854	T	0.27	18.8337	8.1196	0.30963	0.0:0.4113:0.2638:0.3248	.	32;32	Q96RP9;C9IZ01	EFGM_HUMAN;.	V	32	ENSP00000419038:A32V;ENSP00000418755:A32V;ENSP00000264263:A32V	ENSP00000264263:A32V	A	+	2	0	GFM1	159846125	.	.	0.008000	0.14137	0.654000	0.38779	.	.	-0.366000	0.08064	0.655000	0.94253	GCC		0.373	GFM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352271.1	NM_024996		T	158363431	C	T	158363431	3	4	662	1	0	0	0	0	1	0	0	0	6348	739	26	2	101	2	GFM1	3	158363431	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	7197808	158363431	39658999	13	41104										
HTR3E	285242	ucsc.edu	37	chr3	183818222	183818222	+	Intron	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	cttggggcccctctcatataGggagcacagggttgctctcc	12	13	2	0	rs5855015|rs397897677	byFrequency	TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr3:183818222G>A	ENST00000415389.2	+	2	533				HTR3E_ENST00000425359.2_Intron|HTR3E_ENST00000440596.2_Missense_Mutation_p.R21K|HTR3E_ENST00000436361.2_Missense_Mutation_p.R21K|HTR3E_ENST00000335304.2_Missense_Mutation_p.R21K|HTR3E-AS1_ENST00000431427.1_RNA	NM_001256613.1|NM_198313.2	NP_001243542.1|NP_938055.1	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine (serotonin) receptor 3E, ionotropic						ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	extracellular ligand-gated ion channel activity (GO:0005230)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(8)|lung(20)|ovary(1)|skin(2)|upper_aerodigestive_tract(2)	40	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)		Ergoloid mesylate(DB01049)	CTCTCATATAGGGAGCACAGG	0.527																																					Melanoma(7;227 727 6634 44770)											0													157	143	147					3																	183818222		2202	4293	6495	SO:0001627	intron_variant	285242			AY159813	CCDS3251.1, CCDS58868.1, CCDS58869.1, CCDS58870.1, CCDS58871.1	3q27	2012-05-22	2012-02-03		ENSG00000186038	ENSG00000186038		"5-HT (serotonin) receptors", "Ligand-gated ion channels / 5-HT (serotonin) receptors, ionotropic"	24005	protein-coding gene	gene with protein product		610123	"5-hydroxytryptamine (serotonin) receptor 3, family member E"			12801637, 15157181	Standard	NM_001256613		Approved		uc010hxr.3	A5X5Y0	OTTHUMG00000156857	ENST00000415389.2:c.68-51G>A	3.37:g.183818222G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8IKD7|E9PGF1|Q495G1|Q495G3|Q6V706|Q6V707|Q7Z6B2	Missense_Mutation	SNP	ENST00000415389.2	37	CCDS58868.1	.	.	.	.	.	.	.	.	.	.	g	11.61	1.689815	0.29962	.	.	ENSG00000186038	ENST00000335304;ENST00000436361;ENST00000440596	T;T;T	0.78481	-1.11;-1.14;-1.18	3.73	0.45	0.16624	.	10.888600	0.00166	N	0.000004	T	0.62466	0.2430	L	0.29908	0.895	0.09310	N	1	B;B;B	0.11235	0.002;0.004;0.004	B;B;B	0.09377	0.002;0.004;0.004	T	0.50583	-0.8811	10	0.02654	T	1	.	5.0949	0.14727	0.2343:0.1729:0.5928:0.0	.	21;21;21	E9PGF1;A5X5Y0-4;A5X5Y0-3	.;.;.	K	21	ENSP00000335511:R21K;ENSP00000395833:R21K;ENSP00000406050:R21K	ENSP00000335511:R21K	R	+	2	0	HTR3E	185300916	0.001000	0.12720	0.001000	0.08648	0.011000	0.07611	0.342000	0.19926	0.312000	0.23038	-0.150000	0.13652	AGG		0.527	HTR3E-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000346284.1	NM_182589		A	183818222	G	A	183818222	1	1	662	0	1	0	0	0	0	0	0	0	7455	1000	35	2		2	HTR3E	3	183818222	Intron	SNP	G	TCGA-KN-8426-01A-11D-2310-10	25454791	183818222	14204208	14	41105										
PAK2	5062	mdanderson.org	37	chr3	196509522	196509522	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ttcataattctgaatcatgtCtgataacggagaactggaag	9	6	4	3	rs67093638		TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr3:196509522C>G	ENST00000327134.3	+	2	327	c.5C>G	c.(4-6)tCt>tGt	p.S2C	RNU6-42P_ENST00000384165.1_RNA	NM_002577.4	NP_002568.2	Q13177	PAK2_HUMAN	p21 protein (Cdc42/Rac)-activated kinase 2	2					apoptotic process (GO:0006915)|axon guidance (GO:0007411)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in execution phase of apoptosis (GO:2001271)|negative regulation of protein kinase activity (GO:0006469)|peptidyl-serine phosphorylation (GO:0018105)|phosphorylation (GO:0016310)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein tyrosine kinase activity (GO:0061098)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of apoptotic process (GO:0042981)|regulation of defense response to virus by virus (GO:0050690)|regulation of growth (GO:0040008)|signal transduction (GO:0007165)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)|protein tyrosine kinase activator activity (GO:0030296)	p.S2C(2)		breast(1)|cervix(1)|kidney(2)|large_intestine(1)|lung(4)|ovary(1)|prostate(2)	12	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;6.38e-22)|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;0.00405)		TGAATCATGTCTGATAACGGA	0.408																																																2	Substitution - Missense(2)	prostate(2)											81	87	85					3																	196509522		2203	4300	6503	SO:0001583	missense	5062			U24153	CCDS3321.1	3q29	2008-06-17	2008-06-17			ENSG00000180370	2.7.11.1		8591	protein-coding gene	gene with protein product	"S6/H4 kinase"	605022	"p21 (CDKN1A)-activated kinase 2"			7744004, 7618083	Standard	NM_002577		Approved	PAK65, PAKgamma	uc003fwy.4	Q13177		ENST00000327134.3:c.5C>G	3.37:g.196509522C>G	ENSP00000314067:p.Ser2Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q13154|Q6ISC3	Missense_Mutation	SNP	ENST00000327134.3	37	CCDS3321.1	42	0.019230769230769232	6	0.012195121951219513	0	0.0	7	0.012237762237762238	29	0.03825857519788918	C	14.90	2.672409	0.47781	.	.	ENSG00000180370	ENST00000327134	T	0.70631	-0.5	5.21	5.21	0.72293	.	0.055816	0.64402	D	0.000001	T	0.30417	0.0764	N	0.25426	0.745	0.54753	D	0.999985	B	0.15141	0.012	B	0.20577	0.03	T	0.51284	-0.8725	10	0.62326	D	0.03	.	18.756	0.91833	0.0:1.0:0.0:0.0	.	2	Q13177	PAK2_HUMAN	C	2	ENSP00000314067:S2C	ENSP00000314067:S2C	S	+	2	0	PAK2	197993919	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	2.961000	0.49168	2.456000	0.83038	0.655000	0.94253	TCT		0.408	PAK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340548.1	NM_002577		G	196509522	C	G	196509522	3	3	662	1	0	0	0	0	1	0	0	0	11408	913	32	4	7	4	PAK2	3	196509522	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	12691300	196509522	1512908	15	41106										
ANK2	287	broad.mit.edu	37	chr4	114278579	114278579	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gaaaatgtcccttcccaatcTtttttctctagtgaagaaag	6	9	2	2			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr4:114278579T>C	ENST00000357077.4	+	38	8858	c.8805T>C	c.(8803-8805)tcT>tcC	p.S2935S	ANK2_ENST00000264366.6_Silent_p.S2902S|ANK2_ENST00000394537.3_Intron|ANK2_ENST00000510275.2_Intron|ANK2_ENST00000506722.1_Intron|ANK2_ENST00000509550.1_Intron	NM_001148.4	NP_001139.3	Q01484	ANK2_HUMAN	ankyrin 2, neuronal	2935					atrial cardiac muscle cell action potential (GO:0086014)|atrial cardiac muscle cell to AV node cell communication (GO:0086066)|atrial septum development (GO:0003283)|axon guidance (GO:0007411)|cardiac muscle contraction (GO:0060048)|cellular calcium ion homeostasis (GO:0006874)|cellular protein localization (GO:0034613)|membrane depolarization during SA node cell action potential (GO:0086046)|paranodal junction assembly (GO:0030913)|positive regulation of calcium ion transmembrane transporter activity (GO:1901021)|positive regulation of calcium ion transport (GO:0051928)|positive regulation of cation channel activity (GO:2001259)|positive regulation of gene expression (GO:0010628)|positive regulation of potassium ion transmembrane transporter activity (GO:1901018)|positive regulation of potassium ion transport (GO:0043268)|protein localization to cell surface (GO:0034394)|protein localization to endoplasmic reticulum (GO:0070972)|protein localization to M-band (GO:0036309)|protein localization to organelle (GO:0033365)|protein localization to plasma membrane (GO:0072659)|protein localization to T-tubule (GO:0036371)|protein stabilization (GO:0050821)|protein targeting to plasma membrane (GO:0072661)|regulation of calcium ion transmembrane transporter activity (GO:1901019)|regulation of calcium ion transport (GO:0051924)|regulation of cardiac muscle cell contraction (GO:0086004)|regulation of cardiac muscle cell membrane potential (GO:0086036)|regulation of cardiac muscle contraction (GO:0055117)|regulation of cardiac muscle contraction by calcium ion signaling (GO:0010882)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of heart rate (GO:0002027)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of protein stability (GO:0031647)|regulation of release of sequestered calcium ion into cytosol (GO:0051279)|regulation of ventricular cardiac muscle cell membrane repolarization (GO:0060307)|response to methylmercury (GO:0051597)|SA node cell action potential (GO:0086015)|SA node cell to atrial cardiac muscle cell communication (GO:0086070)|sarcoplasmic reticulum calcium ion transport (GO:0070296)|T-tubule organization (GO:0033292)|ventricular cardiac muscle cell action potential (GO:0086005)	A band (GO:0031672)|basolateral plasma membrane (GO:0016323)|costamere (GO:0043034)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|integral component of plasma membrane (GO:0005887)|intercalated disc (GO:0014704)|intracellular (GO:0005622)|M band (GO:0031430)|membrane raft (GO:0045121)|neuron projection (GO:0043005)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)	ATPase binding (GO:0051117)|enzyme binding (GO:0019899)|ion channel binding (GO:0044325)|potassium channel regulator activity (GO:0015459)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|biliary_tract(1)|breast(9)|central_nervous_system(10)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(54)|liver(2)|lung(112)|ovary(8)|pancreas(1)|prostate(7)|skin(11)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(10)	248		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CTTCCCAATCTTTTTTCTCTA	0.398																																																0													170	178	175					4																	114278579		2203	4300	6503	SO:0001819	synonymous_variant	287			M37123	CCDS3702.1, CCDS43261.1, CCDS54796.1	4q25-q26	2014-09-17	2003-03-12		ENSG00000145362	ENSG00000145362		"Ankyrin repeat domain containing"	493	protein-coding gene	gene with protein product		106410	"long (electrocardiographic) QT syndrome 4"	LQT4		7485162, 12571597	Standard	NM_001148		Approved		uc003ibe.4	Q01484	OTTHUMG00000132912	ENST00000357077.4:c.8805T>C	4.37:g.114278579T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q01485|Q08AC7|Q08AC8|Q7Z3L5	Silent	SNP	ENST00000357077.4	37	CCDS3702.1																																																																																				0.398	ANK2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256422.2	NM_001148		C	114278579	T	C	114278579	2	2	662	1	0	0	0	0	0	0	0	1	621	1596	56	3		3	ANK2	4	114278579	Silent	SNP	T	TCGA-KN-8426-01A-11D-2310-10		114278579	76875697	16	41107										
SPOCK3	50859	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr4	167656152	167656152	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	atcttcaatttcatcttcatCattcataatatcgtcttcat	1	10	9	0			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr4:167656152C>T	ENST00000357154.3	-	12	1368	c.1231G>A	c.(1231-1233)Gat>Aat	p.D411N	SPOCK3_ENST00000504953.1_Missense_Mutation_p.D408N|SPOCK3_ENST00000512681.1_Missense_Mutation_p.D313N|SPOCK3_ENST00000534949.1_Missense_Mutation_p.D315N|SPOCK3_ENST00000510741.1_Missense_Mutation_p.D368N|SPOCK3_ENST00000357545.4_Missense_Mutation_p.D408N|SPOCK3_ENST00000502330.1_Missense_Mutation_p.D411N|SPOCK3_ENST00000541637.1_Missense_Mutation_p.D313N|SPOCK3_ENST00000507137.1_5'UTR|SPOCK3_ENST00000506886.1_Missense_Mutation_p.D411N|SPOCK3_ENST00000535728.1_Missense_Mutation_p.D279N|SPOCK3_ENST00000541354.1_Missense_Mutation_p.D291N|SPOCK3_ENST00000511269.1_Missense_Mutation_p.D408N|SPOCK3_ENST00000421836.2_Missense_Mutation_p.D360N|SPOCK3_ENST00000511531.1_Missense_Mutation_p.D411N	NM_016950.2	NP_058646.2	Q9BQ16	TICN3_HUMAN	sparc/osteonectin, cwcv and kazal-like domains proteoglycan (testican) 3	411	Asp-rich.				negative regulation of endopeptidase activity (GO:0010951)|peptide cross-linking via chondroitin 4-sulfate glycosaminoglycan (GO:0019800)|signal transduction (GO:0007165)	extracellular matrix (GO:0031012)|extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|glycosaminoglycan binding (GO:0005539)|metalloendopeptidase inhibitor activity (GO:0008191)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(9)|lung(13)|ovary(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	38	all_hematologic(180;0.221)	Prostate(90;0.0181)|Renal(120;0.0184)|Melanoma(52;0.0198)		GBM - Glioblastoma multiforme(119;0.02)		tcatcttcatcattcataata	0.358																																																0													186	176	179					4																	167656152		2203	4299	6502	SO:0001583	missense	50859			AJ001454	CCDS34095.1, CCDS54817.1, CCDS56343.1, CCDS56344.1, CCDS56346.1, CCDS56347.1, CCDS58931.1, CCDS75207.1	4q32.3	2011-10-10			ENSG00000196104	ENSG00000196104			13565	protein-coding gene	gene with protein product		607989				11751414	Standard	NM_001204352		Approved	testican-3	uc003iri.1	Q9BQ16	OTTHUMG00000161190	ENST00000357154.3:c.1231G>A	4.37:g.167656152C>T	ENSP00000349677:p.Asp411Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7M7|B3KR67|B4DGK5|B4DHB4|B4DHV3|B4DI46|B4DJY3|E7EP61|F5H099|O75705|Q6UW53|Q96Q26	Missense_Mutation	SNP	ENST00000357154.3	37	CCDS54817.1	.	.	.	.	.	.	.	.	.	.	C	11.99	1.804648	0.31961	.	.	ENSG00000196104	ENST00000357154;ENST00000357545;ENST00000504953;ENST00000506886;ENST00000511531;ENST00000502330;ENST00000510741;ENST00000541354;ENST00000512681;ENST00000511269;ENST00000535728;ENST00000421836;ENST00000541637;ENST00000534949	T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.78595	-1.19;-1.19;-1.19;-1.19;-1.19;-1.19;-1.19;-1.19;-1.19;-1.19;-1.19;-1.19;-1.19;-1.19	5.05	5.05	0.67936	.	0.497022	0.20929	N	0.083132	T	0.70842	0.3270	L	0.27053	0.805	0.54753	D	0.999981	B;B;B;B;B;B;B	0.26635	0.155;0.081;0.155;0.155;0.048;0.081;0.048	B;B;B;B;B;B;B	0.28916	0.081;0.064;0.096;0.06;0.043;0.093;0.043	T	0.70189	-0.4940	10	0.66056	D	0.02	-34.0193	18.3629	0.90380	0.0:1.0:0.0:0.0	.	313;315;360;420;368;408;411	B4DGK5;F5H099;B4DHB4;B4DFW5;E7EP61;Q9BQ16-1;Q9BQ16	.;.;.;.;.;.;TICN3_HUMAN	N	411;408;408;411;411;411;368;291;313;408;279;360;313;315	ENSP00000349677:D411N;ENSP00000350153:D408N;ENSP00000425570:D408N;ENSP00000420920:D411N;ENSP00000423421:D411N;ENSP00000423606:D411N;ENSP00000426716:D368N;ENSP00000444789:D291N;ENSP00000426318:D313N;ENSP00000425502:D408N;ENSP00000441396:D279N;ENSP00000411344:D360N;ENSP00000445430:D313N;ENSP00000438142:D315N	ENSP00000349677:D411N	D	-	1	0	SPOCK3	167892727	1.000000	0.71417	0.960000	0.40013	0.047000	0.14425	3.662000	0.54510	2.504000	0.84457	0.637000	0.83480	GAT		0.358	SPOCK3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000364091.1			T	167656152	C	T	167656152	3	4	662	1	0	0	0	0	1	0	0	0	15093	826	29	2	83	2	SPOCK3	4	167656152	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	53377573	167656152	23498124	17	41108										
CBR4	84869	bcgsc.ca	37	chr4	169931136	169931136	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gcggctttggccccttccagGtttctggcaatgaccgccag	12	14	1	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr4:169931136G>T	ENST00000306193.3	-	1	273	c.105C>A	c.(103-105)aaC>aaA	p.N35K	RP11-483A20.3_ENST00000506933.1_RNA|CBR4_ENST00000504480.1_Missense_Mutation_p.N35K	NM_032783.4	NP_116172.2	Q8N4T8	CBR4_HUMAN	carbonyl reductase 4	35					daunorubicin metabolic process (GO:0044597)|doxorubicin metabolic process (GO:0044598)|fatty acid biosynthetic process (GO:0006633)|protein homotetramerization (GO:0051289)	mitochondrial matrix (GO:0005759)	NAD(P)H dehydrogenase (quinone) activity (GO:0003955)|NADPH binding (GO:0070402)|NADPH dehydrogenase (quinone) activity (GO:0008753)|quinone binding (GO:0048038)			kidney(1)|large_intestine(2)|lung(2)	5		Prostate(90;0.00263)|Renal(120;0.0183)|Melanoma(52;0.123)		GBM - Glioblastoma multiforme(119;0.0321)		CCCCTTCCAGGTTTCTGGCAA	0.587											OREG0016397	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													22	26	25					4																	169931136		2203	4300	6503	SO:0001583	missense	84869			BC021973	CCDS3812.1	4q32.3	2013-10-11			ENSG00000145439	ENSG00000145439	1.1.1.-	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 1"	25891	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 45C, member 1"					19027726	Standard	NM_032783		Approved	FLJ14431, SDR45C1	uc003iry.3	Q8N4T8	OTTHUMG00000161025	ENST00000306193.3:c.105C>A	4.37:g.169931136G>T	ENSP00000303525:p.Asn35Lys	Somatic	1881	WXS	Illumina HiSeq	Phase_I	Q8WTW8|Q96K93	Missense_Mutation	SNP	ENST00000306193.3	37	CCDS3812.1	.	.	.	.	.	.	.	.	.	.	G	12.29	1.894508	0.33442	.	.	ENSG00000145439	ENST00000306193;ENST00000504480;ENST00000504561	T;D;D	0.90385	1.82;-2.66;-2.66	5.22	-3.19	0.05171	NAD(P)-binding domain (1);	0.351943	0.31834	N	0.006988	D	0.82866	0.5130	N	0.25286	0.73	0.48135	D	0.999593	P	0.36027	0.533	B	0.41374	0.355	T	0.72047	-0.4408	9	.	.	.	.	13.5656	0.61815	0.4344:0.0:0.5656:0.0	.	35	Q8N4T8	CBR4_HUMAN	K	35;35;32	ENSP00000303525:N35K;ENSP00000427615:N35K;ENSP00000423128:N32K	.	N	-	3	2	CBR4	170167711	0.330000	0.24705	0.949000	0.38748	0.058000	0.15608	0.264000	0.18497	-0.445000	0.07159	0.491000	0.48974	AAC		0.587	CBR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363441.2	NM_032783		T	169931136	G	T	169931136	3	4	662	1	0	0	0	0	1	0	0	0	2712	1252	44	4	628	4	CBR4	4	169931136	Missense_Mutation	SNP	G	TCGA-KN-8426-01A-11D-2310-10	2274984	169931136	21223140	18	41109										
TRIO	7204	ucsc.edu	37	chr5	14369520	14369520	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gagcctggaacaggagtacaAgagagaagaagactggtgtg	16	5	0	4	rs372172691		TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr5:14369520A>G	ENST00000344204.4	+	18	3128	c.3104A>G	c.(3103-3105)aAg>aGg	p.K1035R	TRIO_ENST00000509967.2_Missense_Mutation_p.K986R|TRIO_ENST00000537187.1_Missense_Mutation_p.K1035R	NM_007118.2	NP_009049.2	O75962	TRIO_HUMAN	trio Rho guanine nucleotide exchange factor	1035					apoptotic signaling pathway (GO:0097190)|axon guidance (GO:0007411)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	cytosol (GO:0005829)	ATP binding (GO:0005524)|guanyl-nucleotide exchange factor activity (GO:0005085)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(2)|breast(6)|central_nervous_system(4)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(21)|lung(34)|ovary(4)|prostate(2)|skin(11)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(4)	118	Lung NSC(4;0.000742)					CAGGAGTACAAGAGAGAAGAA	0.582																																																0								A	ARG/LYS	1,4405	2.1+/-5.4	0,1,2202	81	86	84		3104	5.8	1	5		84	0,8600		0,0,4300	no	missense	TRIO	NM_007118.2	26	0,1,6502	GG,GA,AA		0.0,0.0227,0.0077	probably-damaging	1035/3098	14369520	1,13005	2203	4300	6503	SO:0001583	missense	7204			AF091395	CCDS3883.1	5p14-p15.1	2013-01-11	2012-07-12		ENSG00000038382	ENSG00000038382		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing"	12303	protein-coding gene	gene with protein product		601893	"triple functional domain (PTPRF interacting)"			8643598	Standard	NM_007118		Approved	ARHGEF23	uc003jff.3	O75962	OTTHUMG00000131057	ENST00000344204.4:c.3104A>G	5.37:g.14369520A>G	ENSP00000339299:p.Lys1035Arg	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTD1|Q13458|Q59EQ7|Q6PJC9|Q6ZN05|Q8IWK8	Missense_Mutation	SNP	ENST00000344204.4	37	CCDS3883.1	.	.	.	.	.	.	.	.	.	.	A	10.99	1.508381	0.27036	2.27E-4	0.0	ENSG00000038382	ENST00000344204;ENST00000537187;ENST00000509967;ENST00000513206	T;T;T	0.61980	0.06;0.08;0.65	5.83	5.83	0.93111	.	0.000000	0.85682	D	0.000000	T	0.53546	0.1803	N	0.02697	-0.525	0.58432	D	0.999999	B;B;D	0.69078	0.007;0.012;0.997	B;B;D	0.73380	0.005;0.028;0.98	T	0.55068	-0.8198	10	0.02654	T	1	.	16.2147	0.82198	1.0:0.0:0.0:0.0	.	986;1035;1035	F5H228;O75962-5;O75962	.;.;TRIO_HUMAN	R	1035;1035;986;722	ENSP00000339299:K1035R;ENSP00000446348:K1035R;ENSP00000445592:K986R	ENSP00000339299:K1035R	K	+	2	0	TRIO	14422520	1.000000	0.71417	1.000000	0.80357	0.868000	0.49771	5.348000	0.66004	2.231000	0.72958	0.460000	0.39030	AAG		0.582	TRIO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253711.2	NM_007118		G	14369520	A	G	14369520	3	3	662	1	0	0	0	0	1	0	0	0	16564	72	3	3	3174	3	TRIO	5	14369520	Missense_Mutation	SNP	A	TCGA-KN-8426-01A-11D-2310-10		14369520	166545740	19	41110										
ADAMTS6	11174	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	64468715	64468715	+	5'UTR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gcagcggcccaaactgcagcGgatgcggacaggaggtttgc	16	11	0	0			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr5:64468715G>A	ENST00000314351.5	-	0	690							Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 6							proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)	p.R1011C(1)|p.R182C(1)		breast(2)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(7)|pancreas(1)|prostate(1)|skin(3)	18		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)		AAACTGCAGCGGATGCGGACA	0.552																																																2	Substitution - Missense(2)	breast(2)											135	119	124					5																	64468715		2203	4300	6503	SO:0001623	5_prime_UTR_variant	11174			AF140674	CCDS3983.2	5q13	2008-07-18	2005-08-19		ENSG00000049192	ENSG00000049192		"ADAM metallopeptidases with thrombospondin type 1 motif"	222	protein-coding gene	gene with protein product	"a disintegrin and metalloproteinase with thrombospondin motifs 6"	605008	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 6"			10464288	Standard	NM_197941		Approved	ADAM-TS6	uc003jtp.3	Q9UKP5	OTTHUMG00000074079	ENST00000314351.5:c.-632C>T	5.37:g.64468715G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q59EX6|Q5IR87|Q5IR88|Q5IR89|Q68DL1	Missense_Mutation	SNP	ENST00000314351.5	37		.	.	.	.	.	.	.	.	.	.	G	27.4	4.828316	0.90955	.	.	ENSG00000049192	ENST00000381055	T	0.61158	0.13	5.7	5.7	0.88788	.	0.000000	0.85682	D	0.000000	T	0.80518	0.4638	M	0.86953	2.85	0.80722	D	1	D	0.89917	1.0	D	0.79784	0.993	T	0.82018	-0.0665	10	0.54805	T	0.06	.	19.838	0.96666	0.0:0.0:1.0:0.0	.	1011	Q9UKP5	ATS6_HUMAN	C	1011	ENSP00000370443:R1011C	ENSP00000370443:R1011C	R	-	1	0	ADAMTS6	64504471	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	9.476000	0.97823	2.692000	0.91855	0.650000	0.86243	CGC		0.552	ADAMTS6-006	KNOWN	basic	processed_transcript	protein_coding	OTTHUMT00000157334.2	NM_197941		A	64468715	G	A	64468715	1	1	662	0	1	0	0	0	0	0	0	0	270	1116	39	1		1	ADAMTS6	5	64468715	5'UTR	SNP	G	TCGA-KN-8426-01A-11D-2310-10	50099195	64468715	116446545	20	41111										
AGGF1	55109	hgsc.bcm.edu;ucsc.edu	37	chr5	76326664	76326664	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ccgagcctgagctggcccagCtaaggcggaaggtggagaag	17	10	0	2			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr5:76326664C>T	ENST00000312916.7	+	1	455	c.73C>T	c.(73-75)Cta>Tta	p.L25L	AGGF1_ENST00000506806.1_Silent_p.L25L|AGGF1_ENST00000503538.1_Intron	NM_018046.4	NP_060516.2	Q8N302	AGGF1_HUMAN	angiogenic factor with G patch and FHA domains 1	25					angiogenesis (GO:0001525)|cell adhesion (GO:0007155)|positive regulation of angiogenesis (GO:0045766)|positive regulation of endothelial cell proliferation (GO:0001938)|RNA processing (GO:0006396)|vasculogenesis (GO:0001570)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|perinuclear region of cytoplasm (GO:0048471)	nucleic acid binding (GO:0003676)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(2)|liver(2)|lung(4)|ovary(1)|prostate(1)|skin(2)	20		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;4.51e-51)|Epithelial(54;2.2e-45)|all cancers(79;6.68e-41)		GCTGGCCCAGCTAAGGCGGAA	0.692																																																0													34	33	33					5																	76326664		2202	4298	6500	SO:0001819	synonymous_variant	55109			AK001145	CCDS4035.1	5q13.3	2013-10-11			ENSG00000164252	ENSG00000164252		"G patch domain containing"	24684	protein-coding gene	gene with protein product		608464				18564129, 17103452	Standard	NM_018046		Approved	VG5Q, HSU84971, FLJ10283, GPATC7, GPATCH7	uc003ket.3	Q8N302	OTTHUMG00000102132	ENST00000312916.7:c.73C>T	5.37:g.76326664C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O00581|Q53YS3|Q9BU84|Q9NW66	Silent	SNP	ENST00000312916.7	37	CCDS4035.1																																																																																				0.692	AGGF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219971.2	NM_018046		T	76326664	C	T	76326664	2	4	662	1	0	0	0	0	0	0	0	1	382	796	28	2		2	AGGF1	5	76326664	Silent	SNP	C	TCGA-KN-8426-01A-11D-2310-10	11857949	76326664	104588596	21	41112										
DTWD2	285605	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr5	118324112	118324112	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ccggcactgcgccgccctccCgccgctccttgtcgttcggc	11	21	0	0			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr5:118324112C>A	ENST00000510708.1	-	1	128	c.95G>T	c.(94-96)cGg>cTg	p.R32L	DTWD2_ENST00000304058.4_5'Flank|DTWD2_ENST00000515439.3_Missense_Mutation_p.R32L	NM_173666.2	NP_775937.1	Q8NBA8	DTWD2_HUMAN	DTW domain containing 2	32										breast(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(4)	13		all_epithelial(76;0.0982)|Prostate(80;0.121)		OV - Ovarian serous cystadenocarcinoma(64;0.000228)|Epithelial(69;0.000941)|all cancers(49;0.00939)		GCCGCCCTCCCGCCGCTCCTT	0.726											OREG0016736	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													9	12	11					5																	118324112		2120	4225	6345	SO:0001583	missense	285605				CCDS34216.1	5q23.1	2008-02-05			ENSG00000169570	ENSG00000169570			19334	protein-coding gene	gene with protein product							Standard	NM_173666		Approved	FLJ33977	uc003ksa.3	Q8NBA8	OTTHUMG00000162956	ENST00000510708.1:c.95G>T	5.37:g.118324112C>A	ENSP00000425048:p.Arg32Leu	Somatic	1487	WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000510708.1	37	CCDS34216.1	.	.	.	.	.	.	.	.	.	.	C	13.54	2.266785	0.40095	.	.	ENSG00000169570	ENST00000510708;ENST00000515439	.	.	.	5.56	-2.1	0.07210	.	1.581510	0.03198	N	0.174314	T	0.28333	0.0700	N	0.24115	0.695	0.09310	N	1	B	0.28636	0.218	B	0.23275	0.045	T	0.16748	-1.0392	9	0.54805	T	0.06	-9.157	6.7753	0.23617	0.0:0.4438:0.2112:0.345	.	32	Q8NBA8	DTWD2_HUMAN	L	32	.	ENSP00000425016:R32L	R	-	2	0	DTWD2	118352011	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.879000	0.01629	-1.251000	0.02494	-1.814000	0.00607	CGG		0.726	DTWD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371167.2	NM_173666		A	118324112	C	A	118324112	3	1	662	1	0	0	0	0	1	0	0	0	4794	652	23	4	825	4	DTWD2	5	118324112	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	41997448	118324112	62591148	22	41113										
MYOT	9499	broad.mit.edu	37	chr5	137221866	137221866	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	aaagcttttctggaaaagaaAtaatgaaatggtacaattca	7	4	2	2			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr5:137221866A>G	ENST00000239926.4	+	8	1528	c.1154A>G	c.(1153-1155)aAt>aGt	p.N385S	MYOT_ENST00000421631.2_Missense_Mutation_p.N201S|MYOT_ENST00000515645.1_Missense_Mutation_p.N270S|RP11-381K20.2_ENST00000514616.1_RNA|RP11-381K20.2_ENST00000508281.2_RNA	NM_006790.2	NP_006781	Q9UBF9	MYOTI_HUMAN	myotilin	385	Ig-like C2-type 2.|Necessary for interaction with ACTA1.|Necessary for interaction with FLNC.				muscle contraction (GO:0006936)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	structural constituent of muscle (GO:0008307)			cervix(1)|kidney(2)|large_intestine(10)|lung(7)|ovary(1)|prostate(1)|urinary_tract(1)	23			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TGGAAAAGAAATAATGAAATG	0.348																																																0													79	84	82					5																	137221866		2203	4300	6503	SO:0001583	missense	9499			AF133820	CCDS4194.1, CCDS47268.1, CCDS75309.1	5q31.2	2014-09-17	2005-09-07	2005-09-07	ENSG00000120729	ENSG00000120729		"Immunoglobulin superfamily / I-set domain containing"	12399	protein-coding gene	gene with protein product		604103	"titin immunoglobulin domain protein (myotilin)", "limb-girdle muscular dystrophy 1A (autosomal dominant)"	TTID, LGMD1A, LGMD1		10486214, 10369880	Standard	NM_006790		Approved		uc003lbv.3	Q9UBF9	OTTHUMG00000129154	ENST00000239926.4:c.1154A>G	5.37:g.137221866A>G	ENSP00000239926:p.Asn385Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A0A4R6|B4DT79	Missense_Mutation	SNP	ENST00000239926.4	37	CCDS4194.1	.	.	.	.	.	.	.	.	.	.	A	21.0	4.080318	0.76528	.	.	ENSG00000120729	ENST00000239926;ENST00000421631;ENST00000515645	T;T;T	0.50548	0.74;0.74;0.74	5.18	3.99	0.46301	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.152498	0.43416	N	0.000575	T	0.52500	0.1738	M	0.69823	2.125	0.54753	D	0.999983	P	0.52170	0.951	P	0.47134	0.539	T	0.57476	-0.7805	10	0.72032	D	0.01	.	11.4831	0.50337	0.8651:0.0:0.0:0.1349	.	385	Q9UBF9	MYOTI_HUMAN	S	385;201;270	ENSP00000239926:N385S;ENSP00000391185:N201S;ENSP00000426281:N270S	ENSP00000239926:N385S	N	+	2	0	MYOT	137249765	1.000000	0.71417	0.991000	0.47740	0.998000	0.95712	8.873000	0.92357	0.886000	0.36113	0.482000	0.46254	AAT		0.348	MYOT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251219.2	NM_006790		G	137221866	A	G	137221866	3	3	662	1	0	0	0	0	1	0	0	0	10101	101	4	3	1180	3	MYOT	5	137221866	Missense_Mutation	SNP	A	TCGA-KN-8426-01A-11D-2310-10	18897754	137221866	43693394	23	41114										
PSD2	84249	broad.mit.edu	37	chr5	139189307	139189307	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	aacattctggaagattcagcGgagtccaggccctggagggc	14	10	2	1	rs146390261	byFrequency	TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr5:139189307G>A	ENST00000274710.3	+	2	487	c.282G>A	c.(280-282)gcG>gcA	p.A94A		NM_032289.2	NP_115665.1	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	94					neuron differentiation (GO:0030182)|positive regulation of GTPase activity (GO:0043547)|regulation of ARF protein signal transduction (GO:0032012)	cell junction (GO:0030054)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|phospholipid binding (GO:0005543)			breast(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(10)|liver(2)|lung(15)|ovary(1)|prostate(2)	38			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAGATTCAGCGGAGTCCAGGC	0.617																																																0								G		0,4406		0,0,2203	88	93	92		282	-2.4	0	5	dbSNP_134	92	2,8598	2.2+/-6.3	0,2,4298	no	coding-synonymous	PSD2	NM_032289.2		0,2,6501	AA,AG,GG		0.0233,0.0,0.0154		94/772	139189307	2,13004	2203	4300	6503	SO:0001819	synonymous_variant	84249			AL136559	CCDS4216.1	5q31.3	2013-01-10			ENSG00000146005	ENSG00000146005		"Pleckstrin homology (PH) domain containing"	19092	protein-coding gene	gene with protein product							Standard	NM_032289		Approved	DKFZp761B0514	uc003leu.1	Q9BQI7	OTTHUMG00000129240	ENST00000274710.3:c.282G>A	5.37:g.139189307G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DQD3|Q8N3J8	Silent	SNP	ENST00000274710.3	37	CCDS4216.1																																																																																				0.617	PSD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251339.1	NM_032289		A	139189307	G	A	139189307	2	1	662	1	0	0	0	0	0	0	0	1	12657	1103	39	1		1	PSD2	5	139189307	Silent	SNP	G	TCGA-KN-8426-01A-11D-2310-10	1967441	139189307	41725953	24	41115										
PCDHA11	56138	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr5	140250883	140250883	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gcccactgagggcgcgtgcgCgccggggaagcccacgctgg	18	15	0	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr5:140250883C>T	ENST00000398640.2	+	1	2195	c.2195C>T	c.(2194-2196)gCg>gTg	p.A732V	PCDHA5_ENST00000529859.1_Intron|PCDHA6_ENST00000527624.1_Intron|PCDHA7_ENST00000525929.1_Intron|PCDHA9_ENST00000532602.1_Intron|PCDHA1_ENST00000504120.2_Intron|PCDHA1_ENST00000394633.3_Intron|PCDHA10_ENST00000506939.2_Intron|PCDHA6_ENST00000529310.1_Intron|PCDHA10_ENST00000307360.5_Intron|PCDHA3_ENST00000522353.2_Intron|PCDHA4_ENST00000512229.2_Intron|PCDHA4_ENST00000530339.1_Intron|PCDHA8_ENST00000531613.1_Intron|PCDHA2_ENST00000526136.1_Intron|PCDHA5_ENST00000529619.1_Intron	NM_018902.3	NP_061725.1	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11	732					cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			breast(1)|lung(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCGCGTGCGCGCCGGGGAAG	0.677																																																0													30	32	31					5																	140250883		2202	4298	6500	SO:0001583	missense	56138			AF152476	CCDS47284.1, CCDS75326.1	5q31	2010-11-26			ENSG00000249158	ENSG00000249158		"Cadherins / Protocadherins : Clustered"	8665	other	complex locus constituent	"KIAA0345-like 3", "ortholog of mouse CNR7"	606317		CNRS7		10380929, 10662547	Standard	NM_018902		Approved	CNR7, CRNR7, CNRN7, PCDH-ALPHA11		Q9Y5I1	OTTHUMG00000163369	ENST00000398640.2:c.2195C>T	5.37:g.140250883C>T	ENSP00000381636:p.Ala732Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN58|O75279	Missense_Mutation	SNP	ENST00000398640.2	37	CCDS47284.1	.	.	.	.	.	.	.	.	.	.	T	6.697	0.497309	0.12762	.	.	ENSG00000249158	ENST00000398640	T	0.12672	2.66	4.6	-1.85	0.07784	.	.	.	.	.	T	0.09423	0.0232	L	0.43152	1.355	0.09310	N	1	B;B	0.12013	0.005;0.002	B;B	0.06405	0.002;0.002	T	0.34229	-0.9837	9	0.37606	T	0.19	.	2.5779	0.04811	0.1352:0.3466:0.2825:0.2358	.	732;732	Q9Y5I1-2;Q9Y5I1	.;PCDAB_HUMAN	V	732	ENSP00000381636:A732V	ENSP00000381636:A732V	A	+	2	0	PCDHA11	140231067	0.001000	0.12720	0.000000	0.03702	0.000000	0.00434	0.005000	0.13129	-0.915000	0.03823	-1.968000	0.00466	GCG		0.677	PCDHA11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372885.2	NM_018902		T	140250883	C	T	140250883	3	4	662	1	0	0	0	0	1	0	0	0	11528	768	27	1	2197	1	PCDHA11	5	140250883	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	1061576	140250883	40664377	25	41116										
TCOF1	6949	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	149773014	149773014	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	agccactcccaagctagactCcagcccctcagtttcctcta	5	18	2	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr5:149773014C>G	ENST00000504761.2	+	23	3680	c.3680C>G	c.(3679-3681)tCc>tGc	p.S1227C	TCOF1_ENST00000323668.7_Missense_Mutation_p.S1150C|TCOF1_ENST00000451292.1_Missense_Mutation_p.S1264C|TCOF1_ENST00000377797.3_Missense_Mutation_p.S1228C|TCOF1_ENST00000445265.2_Missense_Mutation_p.S1151C|TCOF1_ENST00000439160.2_Missense_Mutation_p.S1190C|TCOF1_ENST00000513346.1_Missense_Mutation_p.S1227C			Q13428	TCOF_HUMAN	Treacher Collins-Franceschetti syndrome 1	1227					skeletal system development (GO:0001501)|transcription of nuclear large rRNA transcript from RNA polymerase I promoter (GO:0042790)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|transporter activity (GO:0005215)			NS(1)|breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(8)|lung(8)|ovary(2)|pancreas(1)|prostate(2)|skin(1)	35		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AAGCTAGACTCCAGCCCCTCA	0.542																																																0													85	81	83					5																	149773014		2203	4300	6503	SO:0001583	missense	6949				CCDS4306.1, CCDS47305.1, CCDS47306.1, CCDS47307.1, CCDS54936.1	5q32	2014-06-18			ENSG00000070814	ENSG00000070814			11654	protein-coding gene	gene with protein product		606847				1765376	Standard	NM_001008657		Approved	treacle, TCS	uc003lry.3	Q13428	OTTHUMG00000130081	ENST00000504761.2:c.3680C>G	5.37:g.149773014C>G	ENSP00000421655:p.Ser1227Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A0JLU0|B4E111|Q6SC72|Q7Z5W9|Q96A52|Q99408|Q99860	Missense_Mutation	SNP	ENST00000504761.2	37	CCDS54936.1	.	.	.	.	.	.	.	.	.	.	C	14.03	2.414686	0.42817	.	.	ENSG00000070814	ENST00000451292;ENST00000377797;ENST00000445265;ENST00000323668;ENST00000439160;ENST00000427724;ENST00000504761;ENST00000513346	T;T;T;T;T;T;T;T	0.58652	0.32;0.32;0.32;0.32;0.32;0.32;0.32;0.32	4.08	2.22	0.28083	.	1.237860	0.05884	N	0.627080	T	0.52289	0.1725	N	0.19112	0.55	0.09310	N	1	P;P;P;D;P	0.56521	0.924;0.924;0.924;0.976;0.924	P;P;P;P;P	0.52856	0.634;0.634;0.634;0.711;0.634	T	0.43032	-0.9416	10	0.48119	T	0.1	0.3147	6.0194	0.19620	0.0:0.7543:0.0:0.2457	.	1190;1150;1189;1227;1151	Q13428-7;Q13428-2;Q13428-6;Q13428;Q13428-8	.;.;.;TCOF_HUMAN;.	C	1264;1228;1151;1150;1190;1189;1227;1227	ENSP00000400939:S1264C;ENSP00000367028:S1228C;ENSP00000409944:S1151C;ENSP00000325223:S1150C;ENSP00000406888:S1190C;ENSP00000390717:S1189C;ENSP00000421655:S1227C;ENSP00000427484:S1227C	ENSP00000325223:S1150C	S	+	2	0	TCOF1	149753207	0.000000	0.05858	0.003000	0.11579	0.181000	0.23173	0.195000	0.17155	0.631000	0.30412	0.561000	0.74099	TCC		0.542	TCOF1-014	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000380552.1	NM_001008656		G	149773014	C	G	149773014	3	3	662	1	0	0	0	0	1	0	0	0	15720	855	30	4	3795	4	TCOF1	5	149773014	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	9522131	149773014	31142246	26	41117										
RIPPLY2	134701	broad.mit.edu	37	chr6	84567032	84567032	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	agctcttctgaaaaattttcCaattcaagccacaatttcat	3	10	4	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr6:84567032C>A	ENST00000369689.1	+	4	462	c.311C>A	c.(310-312)cCa>cAa	p.P104Q	CYB5R4_ENST00000369681.5_5'Flank|CYB5R4_ENST00000369679.4_5'Flank|RIPPLY2_ENST00000369687.1_Missense_Mutation_p.P46Q	NM_001009994.1	NP_001009994.1	Q5TAB7	RIPP2_HUMAN	ripply transcriptional repressor 2	104	Ripply homology domain. {ECO:0000255}.				bone morphogenesis (GO:0060349)|determination of left/right symmetry (GO:0007368)|Notch signaling pathway (GO:0007219)|ossification (GO:0001503)|post-anal tail morphogenesis (GO:0036342)|regulation of gene expression (GO:0010468)|somite rostral/caudal axis specification (GO:0032525)|somitogenesis (GO:0001756)	nucleus (GO:0005634)				large_intestine(2)|lung(4)|urinary_tract(1)	7						AAAAATTTTCCAATTCAAGCC	0.299																																																0													50	57	54					6																	84567032		2203	4291	6494	SO:0001583	missense	134701			BC130460	CCDS34493.1	6q14.2	2013-07-23	2013-07-23	2008-05-07	ENSG00000203877	ENSG00000203877			21390	protein-coding gene	gene with protein product		609891	"chromosome 6 open reading frame 159", "ripply2 homolog (zebrafish)"	C6orf159			Standard	NM_001009994		Approved	dJ237I15.1	uc003pke.3	Q5TAB7	OTTHUMG00000015117	ENST00000369689.1:c.311C>A	6.37:g.84567032C>A	ENSP00000358703:p.Pro104Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TAB6	Missense_Mutation	SNP	ENST00000369689.1	37	CCDS34493.1	.	.	.	.	.	.	.	.	.	.	C	21.2	4.120432	0.77323	.	.	ENSG00000203877	ENST00000369689;ENST00000369687	.	.	.	5.64	4.76	0.60689	.	0.000000	0.85682	D	0.000000	T	0.70211	0.3198	M	0.82056	2.57	0.80722	D	1	D	0.71674	0.998	P	0.56474	0.799	T	0.77472	-0.2575	9	0.87932	D	0	-17.6487	16.1544	0.81646	0.1343:0.8657:0.0:0.0	.	104	Q5TAB7	RIPP2_HUMAN	Q	104;46	.	ENSP00000358701:P46Q	P	+	2	0	RIPPLY2	84623751	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	6.910000	0.75741	1.606000	0.50161	0.650000	0.86243	CCA		0.299	RIPPLY2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041360.1	NM_001009994		A	84567032	C	A	84567032	3	1	662	1	0	0	0	0	1	0	0	0	13398	594	21	4	325	4	RIPPLY2	6	84567032	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10		84567032	86548035	27	41118										
PNRC1	10957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	89793802	89793802	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ttagtgatccaccttctcctAgtgttcttccaaagcctcct	5	14	2	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr6:89793802A>G	ENST00000336032.3	+	2	988	c.871A>G	c.(871-873)Agt>Ggt	p.S291G	PNRC1_ENST00000369472.1_Missense_Mutation_p.S106G|PNRC1_ENST00000354922.3_Missense_Mutation_p.S106G	NM_006813.2	NP_006804.1	Q12796	PNRC1_HUMAN	proline-rich nuclear receptor coactivator 1	291					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)				endometrium(1)|large_intestine(2)|lung(3)	6		all_cancers(76;3.64e-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;0.102)		ACCTTCTCCTAGTGTTCTTCC	0.413										Multiple Myeloma(7;0.094)																																						0													81	84	83					6																	89793802		2203	4300	6503	SO:0001583	missense	10957			U03105	CCDS5018.1	6q16.1	2008-02-05	2003-09-25	2003-09-26	ENSG00000146278	ENSG00000146278			17278	protein-coding gene	gene with protein product		606714	"proline rich 2"	PROL2		7578250	Standard	NM_006813		Approved	B4-2, PRR2	uc003pmv.3	Q12796	OTTHUMG00000015191	ENST00000336032.3:c.871A>G	6.37:g.89793802A>G	ENSP00000336931:p.Ser291Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6Q0|E1P515|Q5T7J6|Q7Z5N0	Missense_Mutation	SNP	ENST00000336032.3	37	CCDS5018.1	.	.	.	.	.	.	.	.	.	.	A	20.2	3.952621	0.73787	.	.	ENSG00000146278	ENST00000369472;ENST00000336032;ENST00000354922	T;T;T	0.58358	0.52;0.34;0.52	5.37	5.37	0.77165	.	0.000000	0.85682	D	0.000000	T	0.66684	0.2814	M	0.75777	2.31	0.54753	D	0.999985	D	0.89917	1.0	D	0.85130	0.997	T	0.72616	-0.4239	10	0.87932	D	0	-8.9899	15.3712	0.74568	1.0:0.0:0.0:0.0	.	291	Q12796	PNRC1_HUMAN	G	106;291;106	ENSP00000358484:S106G;ENSP00000336931:S291G;ENSP00000347000:S106G	ENSP00000336931:S291G	S	+	1	0	PNRC1	89850521	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	6.473000	0.73572	2.008000	0.58898	0.533000	0.62120	AGT		0.413	PNRC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041471.1	NM_006813		G	89793802	A	G	89793802	3	3	662	1	0	0	0	0	1	0	0	0	12181	420	15	3	877	3	PNRC1	6	89793802	Missense_Mutation	SNP	A	TCGA-KN-8426-01A-11D-2310-10	5226770	89793802	81321265	28	41119										
SLC29A4	222962	mdanderson.org	37	chr7	5338714	5338714	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ggggcctacatgcgctttgaTgtgccgcggccaagggtcca	15	12	0	1	rs6950111	byFrequency	TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr7:5338714T>C	ENST00000396872.3	+	8	1139	c.978T>C	c.(976-978)gaT>gaC	p.D326D	SLC29A4_ENST00000297195.4_Silent_p.D326D|SLC29A4_ENST00000406453.3_Silent_p.D312D			Q7RTT9	S29A4_HUMAN	solute carrier family 29 (equilibrative nucleoside transporter), member 4	326					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	nucleoside transmembrane transporter activity (GO:0005337)			breast(1)|cervix(2)|kidney(7)|large_intestine(1)|liver(1)|lung(7)|urinary_tract(1)	20		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)	Metformin(DB00331)	TGCGCTTTGATGTGCCGCGGC	0.716													C|||	1447	0.288938	0.5151	0.2795	5008	,	,		13632	0.12		0.3052	False		,,,				2504	0.1472															0								C	,	1951,2423		439,1073,675	12	17	15		978,978	-5.9	0	7	dbSNP_116	15	2915,5669		503,1909,1880	no	coding-synonymous,coding-synonymous	SLC29A4	NM_001040661.1,NM_153247.2	,	942,2982,2555	CC,CT,TT		33.9585,44.6045,37.5521	,	326/531,326/531	5338714	4866,8092	2187	4292	6479	SO:0001819	synonymous_variant	222962			AK075422	CCDS5340.1, CCDS75561.1	7p22.2	2013-07-17	2013-07-17		ENSG00000164638	ENSG00000164638		"Solute carriers"	23097	protein-coding gene	gene with protein product		609149	"solute carrier family 29 (nucleoside transporters), member 4"			12838422	Standard	NM_153247		Approved	FLJ34923, ENT4	uc003soc.3	Q7RTT9	OTTHUMG00000023797	ENST00000396872.3:c.978T>C	7.37:g.5338714T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6PJ08|Q86WY8|Q8NAR3|Q8NBM2	Silent	SNP	ENST00000396872.3	37	CCDS5340.1																																																																																				0.716	SLC29A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060118.6	NM_153247		C	5338714	T	C	5338714	2	2	662	1	0	0	0	0	0	0	0	1	14550	1461	51	3		3	SLC29A4	7	5338714	Silent	SNP	T	TCGA-KN-8426-01A-11D-2310-10		5338714	153799949	29	41120										
OSBPL3	26031	broad.mit.edu	37	chr7	24931999	24931999	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	catgagttaaactttacctgTcgacttccttgcttggaaga	8	9	0	2			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr7:24931999T>C	ENST00000313367.2	-	2	544	c.93A>G	c.(91-93)cgA>cgG	p.R31R	OSBPL3_ENST00000352860.1_Silent_p.R31R|OSBPL3_ENST00000431825.2_Silent_p.R31R|OSBPL3_ENST00000409069.1_Silent_p.R31R|OSBPL3_ENST00000353930.1_Silent_p.R31R|OSBPL3_ENST00000396431.1_Silent_p.R31R|OSBPL3_ENST00000396429.1_Silent_p.R31R	NM_015550.2	NP_056365.1	Q9H4L5	OSBL3_HUMAN	oxysterol binding protein-like 3	31					lipid transport (GO:0006869)	cytosol (GO:0005829)|membrane (GO:0016020)|nuclear membrane (GO:0031965)|perinuclear endoplasmic reticulum (GO:0097038)|plasma membrane (GO:0005886)	cholesterol binding (GO:0015485)			breast(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(10)|lung(19)|prostate(1)|skin(3)|urinary_tract(1)	43						ACTTTACCTGTCGACTTCCTT	0.408																																																0													109	92	98					7																	24931999		2203	4300	6503	SO:0001819	synonymous_variant	26031			AB014604	CCDS5390.1, CCDS5391.1, CCDS5392.1, CCDS47564.1	7p15.3	2013-01-10			ENSG00000070882	ENSG00000070882		"Oxysterol binding proteins", "Pleckstrin homology (PH) domain containing"	16370	protein-coding gene	gene with protein product		606732		OSBP3		9734811	Standard	XM_005249698		Approved	ORP-3, ORP3, KIAA0704	uc003sxf.3	Q9H4L5	OTTHUMG00000023277	ENST00000313367.2:c.93A>G	7.37:g.24931999T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A4D167|A4D168|A4D169|A4D170|A4D171|A4D172|B8ZZ79|B8ZZP0|O14591|O43357|O43358|Q8N702|Q8N703|Q8N704|Q8NFH0|Q8NFH1|Q8NI12|Q8NI13|Q9BZF4|Q9UED6	Silent	SNP	ENST00000313367.2	37	CCDS5390.1																																																																																				0.408	OSBPL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214085.2			C	24931999	T	C	24931999	2	2	662	1	0	0	0	0	0	0	0	1	11286	1654	58	3		3	OSBPL3	7	24931999	Silent	SNP	T	TCGA-KN-8426-01A-11D-2310-10	19593285	24931999	134206664	30	41121										
MUC17	140453	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	100677675	100677675	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	aagcacacctgtcagccacaCgctggtggccaattctgagg	11	13	2	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr7:100677675C>T	ENST00000306151.4	+	3	3042	c.2978C>T	c.(2977-2979)aCg>aTg	p.T993M		NM_001040105.1	NP_001035194.1	Q685J3	MUC17_HUMAN	mucin 17, cell surface associated	993	59 X approximate tandem repeats.|Ser-rich.				cellular homeostasis (GO:0019725)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	apical plasma membrane (GO:0016324)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)	extracellular matrix constituent, lubricant activity (GO:0030197)|PDZ domain binding (GO:0030165)			NS(3)|breast(14)|central_nervous_system(2)|cervix(2)|endometrium(27)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(28)|lung(179)|ovary(19)|pancreas(1)|prostate(13)|skin(26)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(4)	343	Lung NSC(181;0.136)|all_lung(186;0.182)					GTCAGCCACACGCTGGTGGCC	0.512																																																0													355	318	331					7																	100677675		2203	4300	6503	SO:0001583	missense	140453			AJ606307	CCDS34711.1	7q22	2007-01-17	2006-03-14		ENSG00000169876	ENSG00000169876		"Mucins"	16800	protein-coding gene	gene with protein product		608424				11855812	Standard	NM_001040105		Approved		uc003uxp.1	Q685J3	OTTHUMG00000157030	ENST00000306151.4:c.2978C>T	7.37:g.100677675C>T	ENSP00000302716:p.Thr993Met	Somatic		WXS	Illumina HiSeq	Phase_I	O14761|Q685J2|Q8TDH7	Missense_Mutation	SNP	ENST00000306151.4	37	CCDS34711.1	.	.	.	.	.	.	.	.	.	.	C	0	-2.825581	0.00071	.	.	ENSG00000169876	ENST00000306151	T	0.02525	4.26	0.373	-0.746	0.11095	.	.	.	.	.	T	0.01489	0.0048	L	0.29908	0.895	0.09310	N	1	D	0.54772	0.968	B	0.31812	0.136	T	0.40496	-0.9560	8	0.39692	T	0.17	.	.	.	.	.	993	Q685J3	MUC17_HUMAN	M	993	ENSP00000302716:T993M	ENSP00000302716:T993M	T	+	2	0	MUC17	100464395	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	0.033000	0.13754	-3.214000	0.00213	-3.604000	0.00028	ACG		0.512	MUC17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347161.1	NM_001040105		T	100677675	C	T	100677675	3	4	662	1	0	0	0	0	1	0	0	0	9981	536	19	1	2988	1	MUC17	7	100677675	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	75745676	100677675	58460988	31	41122										
HBP1	26959	broad.mit.edu	37	chr7	106827076	106827076	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	aagatgttgaagattttgctAgagctgaaggctgtgataat	12	3	0	6			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr7:106827076A>G	ENST00000222574.4	+	6	901	c.715A>G	c.(715-717)Aga>Gga	p.R239G	HBP1_ENST00000485846.1_Missense_Mutation_p.R239G|HBP1_ENST00000461963.1_3'UTR|HBP1_ENST00000468410.1_Missense_Mutation_p.R239G	NM_012257.3	NP_036389.2	O60381	HBP1_HUMAN	HMG-box transcription factor 1	239	AXH. {ECO:0000255|PROSITE- ProRule:PRU00496}.				cell cycle arrest (GO:0007050)|positive regulation of potassium ion transport (GO:0043268)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)|Wnt signaling pathway (GO:0016055)	nucleus (GO:0005634)	DNA binding (GO:0003677)|RNA binding (GO:0003723)			large_intestine(4)|lung(3)|prostate(1)|skin(2)	10						AGATTTTGCTAGAGCTGAAGG	0.358																																																0													150	146	147					7																	106827076		2203	4300	6503	SO:0001583	missense	26959			BC017069	CCDS5741.1	7q22-q31	2003-10-08			ENSG00000105856	ENSG00000105856			23200	protein-coding gene	gene with protein product						9030690, 11500377	Standard	NM_001244262		Approved		uc011klv.2	O60381	OTTHUMG00000157642	ENST00000222574.4:c.715A>G	7.37:g.106827076A>G	ENSP00000222574:p.Arg239Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVB7|Q8TBM1|Q8TE93|Q96AJ2	Missense_Mutation	SNP	ENST00000222574.4	37	CCDS5741.1	.	.	.	.	.	.	.	.	.	.	A	16.22	3.062021	0.55432	.	.	ENSG00000105856	ENST00000468410;ENST00000222574;ENST00000485846;ENST00000498408	D;D;D	0.99080	-5.4;-5.4;-5.4	5.95	3.5	0.40072	Ataxin, AXH domain (1);Ataxin-1/HBP1 module (AXH) (3);	0.353809	0.39475	N	0.001345	D	0.97589	0.9210	L	0.46157	1.445	0.44652	D	0.997631	B;B;B	0.24092	0.097;0.053;0.066	B;B;B	0.32677	0.15;0.054;0.09	D	0.94990	0.8133	10	0.66056	D	0.02	-2.4346	12.8743	0.57982	0.7431:0.2569:0.0:0.0	.	249;239;239	B4DJ36;O60381-3;O60381	.;.;HBP1_HUMAN	G	239;239;239;231	ENSP00000420500:R239G;ENSP00000222574:R239G;ENSP00000418738:R239G	ENSP00000222574:R239G	R	+	1	2	HBP1	106614312	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.231000	0.65327	0.462000	0.27095	0.528000	0.53228	AGA		0.358	HBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349297.1	NM_012257		G	106827076	A	G	106827076	3	3	662	1	0	0	0	0	1	0	0	0	6992	412	15	3	733	3	HBP1	7	106827076	Missense_Mutation	SNP	A	TCGA-KN-8426-01A-11D-2310-10	6149401	106827076	52311587	32	41123										
RP1L1	94137	mdanderson.org	37	chr8	10465962	10465962	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tcttctgactctggctgggcCtctccttctgcctctggggc	11	15	6	1	rs111646478	byFrequency	TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr8:10465962C>A	ENST00000382483.3	-	4	5869	c.5646G>T	c.(5644-5646)gaG>gaT	p.E1882D		NM_178857.5	NP_849188.4	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1962					cell projection organization (GO:0030030)|intracellular signal transduction (GO:0035556)|photoreceptor cell development (GO:0042461)|photoreceptor cell maintenance (GO:0045494)|visual perception (GO:0007601)	axoneme (GO:0005930)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|photoreceptor connecting cilium (GO:0032391)|photoreceptor outer segment (GO:0001750)				breast(5)|central_nervous_system(2)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(4)|kidney(5)|large_intestine(16)|lung(82)|ovary(8)|prostate(5)|skin(6)|upper_aerodigestive_tract(4)|urinary_tract(3)	148				COAD - Colon adenocarcinoma(149;0.0811)		CTGGCTGGGCCTCTCCTTCTG	0.617													C|||	159	0.0317492	0.0061	0.0548	5008	,	,		16897	0.001		0.0805	False		,,,				2504	0.0317															0													156	173	168					8																	10465962		1942	4150	6092	SO:0001583	missense	94137			AY168346	CCDS43708.1	8p23.1	2011-12-06			ENSG00000183638	ENSG00000183638			15946	protein-coding gene	gene with protein product		608581				12634863	Standard	NM_178857		Approved	DCDC4B	uc003wtc.3	Q8IWN7	OTTHUMG00000163806	ENST00000382483.3:c.5646G>T	8.37:g.10465962C>A	ENSP00000371923:p.Glu1882Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q86SQ1|Q8IWN8|Q8IWN9|Q8IWP0|Q8IWP1|Q8IWP2	Missense_Mutation	SNP	ENST00000382483.3	37	CCDS43708.1	.	.	.	.	.	.	.	.	.	.	C	6.872	0.530264	0.13127	.	.	ENSG00000183638	ENST00000382483	T	0.07800	3.16	1.4	-2.79	0.05841	.	.	.	.	.	T	0.04861	0.0131	N	0.24115	0.695	0.09310	N	1	B	0.10296	0.003	B	0.09377	0.004	T	0.44267	-0.9339	9	0.23891	T	0.37	.	7.224	0.26005	0.6018:0.3982:0.0:0.0	.	1882	A6NKC6	.	D	1882	ENSP00000371923:E1882D	ENSP00000371923:E1882D	E	-	3	2	RP1L1	10503372	0.000000	0.05858	0.006000	0.13384	0.007000	0.05969	-3.895000	0.00340	-0.232000	0.09811	-0.516000	0.04426	GAG		0.617	RP1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375673.1			A	10465962	C	A	10465962	3	1	662	1	0	0	0	0	1	0	0	0	13546	680	24	4	1560	4	RP1L1	8	10465962	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10		10465962	135898060	33	41124			1	105		2	2	29	N	T_C	8.140064e-05
RP1L1	94137	mdanderson.org	37	chr8	10465990	10465990	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ctgcctctggggcctctacaTcttctgactctggctgggcc	11	15	5	1	rs200622636	byFrequency	TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr8:10465990T>C	ENST00000382483.3	-	4	5841	c.5618A>G	c.(5617-5619)gAt>gGt	p.D1873G		NM_178857.5	NP_849188.4	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1953					cell projection organization (GO:0030030)|intracellular signal transduction (GO:0035556)|photoreceptor cell development (GO:0042461)|photoreceptor cell maintenance (GO:0045494)|visual perception (GO:0007601)	axoneme (GO:0005930)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|photoreceptor connecting cilium (GO:0032391)|photoreceptor outer segment (GO:0001750)				breast(5)|central_nervous_system(2)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(4)|kidney(5)|large_intestine(16)|lung(82)|ovary(8)|prostate(5)|skin(6)|upper_aerodigestive_tract(4)|urinary_tract(3)	148				COAD - Colon adenocarcinoma(149;0.0811)		GGCCTCTACATCTTCTGACTC	0.617													T|||	208	0.0415335	0.0068	0.0562	5008	,	,		15764	0.0188		0.0845	False		,,,				2504	0.0573															0													162	175	171					8																	10465990		1917	4128	6045	SO:0001583	missense	94137			AY168346	CCDS43708.1	8p23.1	2011-12-06			ENSG00000183638	ENSG00000183638			15946	protein-coding gene	gene with protein product		608581				12634863	Standard	NM_178857		Approved	DCDC4B	uc003wtc.3	Q8IWN7	OTTHUMG00000163806	ENST00000382483.3:c.5618A>G	8.37:g.10465990T>C	ENSP00000371923:p.Asp1873Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q86SQ1|Q8IWN8|Q8IWN9|Q8IWP0|Q8IWP1|Q8IWP2	Missense_Mutation	SNP	ENST00000382483.3	37	CCDS43708.1	.	.	.	.	.	.	.	.	.	.	T	1.367	-0.587110	0.03827	.	.	ENSG00000183638	ENST00000382483	T	0.07567	3.18	1.24	-2.47	0.06442	.	.	.	.	.	T	0.02380	0.0073	N	0.01874	-0.695	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.45833	-0.9234	9	0.21540	T	0.41	.	3.4646	0.07545	0.0:0.5294:0.2597:0.211	.	1873	A6NKC6	.	G	1873	ENSP00000371923:D1873G	ENSP00000371923:D1873G	D	-	2	0	RP1L1	10503400	0.001000	0.12720	0.015000	0.15790	0.046000	0.14306	0.311000	0.19380	-0.308000	0.08792	-0.769000	0.03391	GAT		0.617	RP1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375673.1			C	10465990	T	C	10465990	3	2	662	1	0	0	0	0	1	0	0	0	13546	1435	50	3	1588	3	RP1L1	8	10465990	Missense_Mutation	SNP	T	TCGA-KN-8426-01A-11D-2310-10	28	10465990	135898032	34	41125			1	105		2	2	29	N	T_C	8.140064e-05
PREX2	80243	broad.mit.edu	37	chr8	68939495	68939495	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ggacggaagaacacagatgtTcccttggaaggatatttagt	12	6	0	2			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr8:68939495T>C	ENST00000288368.4	+	5	757	c.480T>C	c.(478-480)gtT>gtC	p.V160V	PREX2_ENST00000529398.1_3'UTR	NM_024870.2|NM_025170.4	NP_079146.2|NP_079446.3	Q70Z35	PREX2_HUMAN	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 2	160	DH. {ECO:0000255|PROSITE- ProRule:PRU00062}.				adult locomotory behavior (GO:0008344)|dendrite morphogenesis (GO:0048813)|G-protein coupled receptor signaling pathway (GO:0007186)|intracellular signal transduction (GO:0035556)|positive regulation of Rac GTPase activity (GO:0032855)		Rac GTPase activator activity (GO:0030675)|Rac guanyl-nucleotide exchange factor activity (GO:0030676)			NS(6)|biliary_tract(1)|breast(4)|endometrium(11)|kidney(16)|large_intestine(25)|liver(4)|lung(57)|ovary(2)|pancreas(4)|prostate(3)|skin(42)|upper_aerodigestive_tract(1)|urinary_tract(2)	178						ACACAGATGTTCCCTTGGAAG	0.358																																																0													144	136	139					8																	68939495		2203	4300	6503	SO:0001819	synonymous_variant	80243			AK024079	CCDS6201.1	8q13.1	2014-06-13	2008-09-15	2008-09-15	ENSG00000046889	ENSG00000046889		"Rho guanine nucleotide exchange factors"	22950	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 129"	612139	"DEP domain containing 2"	DEPDC2		15304342, 15304343	Standard	NM_024870		Approved	DEP.2, FLJ12987, P-REX2, PPP1R129	uc003xxv.1	Q70Z35	OTTHUMG00000164402	ENST00000288368.4:c.480T>C	8.37:g.68939495T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DFX0|Q32KL0|Q32KL1|Q6R7Q3|Q6R7Q4|Q9H805|Q9H961	Silent	SNP	ENST00000288368.4	37	CCDS6201.1																																																																																				0.358	PREX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378620.1	NM_025170		C	68939495	T	C	68939495	2	2	662	1	0	0	0	0	0	0	0	1	12487	1770	62	3		3	PREX2	8	68939495	Silent	SNP	T	TCGA-KN-8426-01A-11D-2310-10	58473505	68939495	77424527	35	41126										
FLJ43860	389690	broad.mit.edu	37	chr8	142500306	142500306	+	RNA	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tctccagatgctgcgccaccAcccgccacgagtgcctgcag	10	18	1	1	rs199659351		TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr8:142500306A>C	ENST00000430863.1	-	0	688					NM_207414.2	NP_997297.2	Q6ZUA9	MROH5_HUMAN	maestro heat-like repeat family member 5																		CTGCGCCACCACCCGCCACGA	0.662																																																0													24	31	29					8																	142500306		2050	4191	6241			389690					8q24.3	2012-12-20			ENSG00000226807	ENSG00000226807		"maestro heat-like repeat containing"	42976	protein-coding gene	gene with protein product							Standard	NM_207414		Approved	FLJ43860	uc003ywi.2	Q6ZUA9	OTTHUMG00000155944		8.37:g.142500306A>C		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000430863.1	37																																																																																					0.662	MROH5-001	KNOWN	non_canonical_polymorphism|basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000342412.4	NM_207414		C	142500306	A	C	142500306	1	2	662	0	1	0	0	0	0	0	0	0	5937	159	6	5		5	FLJ43860	8	142500306	RNA	SNP	A	TCGA-KN-8426-01A-11D-2310-10	73560811	142500306	3863716	36	41127										
CYP11B1	1584	mdanderson.org	37	chr8	143957661	143957661	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tggttgccggcctgaccgtgTccacgctccctgcagtgagt	13	14	0	2			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr8:143957661T>C	ENST00000292427.4	-	5	982	c.950A>G	c.(949-951)gAc>gGc	p.D317G	CYP11B1_ENST00000517471.1_Missense_Mutation_p.D317G|CYP11B1_ENST00000377675.3_Missense_Mutation_p.D388G	NM_000497.3	NP_000488.3	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B, polypeptide 1	317					aldosterone biosynthetic process (GO:0032342)|C21-steroid hormone biosynthetic process (GO:0006700)|cellular response to hormone stimulus (GO:0032870)|cellular response to potassium ion (GO:0035865)|cortisol biosynthetic process (GO:0034651)|glucocorticoid biosynthetic process (GO:0006704)|glucose homeostasis (GO:0042593)|immune response (GO:0006955)|mineralocorticoid biosynthetic process (GO:0006705)|regulation of blood pressure (GO:0008217)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|sterol metabolic process (GO:0016125)|xenobiotic metabolic process (GO:0006805)	mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	heme binding (GO:0020037)|iron ion binding (GO:0005506)|steroid 11-beta-monooxygenase activity (GO:0004507)			central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(10)|lung(36)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)	67	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Cimetidine(DB00501)|Clotrimazole(DB00257)|Etomidate(DB00292)|Fluconazole(DB00196)|Hydrocortisone(DB00741)|Ketoconazole(DB01026)|Metoclopramide(DB01233)|Metyrapone(DB01011)|Miconazole(DB01110)|Mitotane(DB00648)|Phenytoin(DB00252)|Spironolactone(DB00421)	CCTGACCGTGTCCACGCTCCC	0.622									Familial Hyperaldosteronism type I																																							0													111	95	101					8																	143957661		2203	4300	6503	SO:0001583	missense	1584	Familial Cancer Database	Dexamethasone Sensitive Aldosteronism, FH-I	D16153	CCDS6392.1, CCDS34953.1	8q21-q22	2013-06-19	2003-01-14		ENSG00000160882	ENSG00000160882	1.14.15.4	"Cytochrome P450s"	2591	protein-coding gene	gene with protein product	"steroid 11-beta-monooxygenase"	610613	"cytochrome P450, subfamily XIB (steroid 11-beta-hydroxylase), polypeptide 1"	CYP11B		1303253	Standard	XM_005250807		Approved	P450C11, FHI, CPN1	uc003yxi.3	P15538	OTTHUMG00000164637	ENST00000292427.4:c.950A>G	8.37:g.143957661T>C	ENSP00000292427:p.Asp317Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q14095|Q4VAQ8|Q4VAQ9|Q9UML2	Missense_Mutation	SNP	ENST00000292427.4	37	CCDS6392.1	.	.	.	.	.	.	.	.	.	.	.	13.62	2.291611	0.40494	.	.	ENSG00000160882	ENST00000292427;ENST00000517471;ENST00000377675	T;T;T	0.73258	-0.73;2.26;-0.73	4.1	4.1	0.47936	.	0.123831	0.35870	N	0.002927	D	0.84288	0.5439	M	0.87269	2.87	0.54753	D	0.99998	D;D;D	0.76494	0.999;0.997;0.999	D;D;D	0.75484	0.986;0.974;0.965	D	0.86624	0.1881	10	0.87932	D	0	.	11.3146	0.49383	0.0:0.0:0.0:1.0	.	388;317;317	Q4VAR0;Q4VAQ9;P15538	.;.;C11B1_HUMAN	G	317;317;388	ENSP00000292427:D317G;ENSP00000428043:D317G;ENSP00000366903:D388G	ENSP00000292427:D317G	D	-	2	0	CYP11B1	143954663	1.000000	0.71417	0.945000	0.38365	0.040000	0.13550	1.884000	0.39668	1.608000	0.50180	0.528000	0.53228	GAC		0.622	CYP11B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379475.2			C	143957661	T	C	143957661	3	2	662	1	0	0	0	0	1	0	0	0	4147	1667	58	3	581	3	CYP11B1	8	143957661	Missense_Mutation	SNP	T	TCGA-KN-8426-01A-11D-2310-10	1457355	143957661	2406361	37	41128										
FBXO18	84893	bcgsc.ca	37	chr10	5978506	5978506	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gacagtgcaacaatgccatcCctgttgacaccgtccttacc	7	15	0	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr10:5978506C>T	ENST00000362091.4	+	20	3032	c.2917C>T	c.(2917-2919)Cct>Tct	p.P973S	FBXO18_ENST00000397269.3_Missense_Mutation_p.P477S|RP11-536K7.3_ENST00000397264.4_RNA|FBXO18_ENST00000379999.5_Missense_Mutation_p.P1024S	NM_001258453.1|NM_178150.2	NP_001245382.1|NP_835363.1	Q8NFZ0	FBX18_HUMAN	F-box protein, helicase, 18	973					DNA catabolic process, endonucleolytic (GO:0000737)|positive regulation of intrinsic apoptotic signaling pathway in response to DNA damage (GO:1902231)|positive regulation of protein phosphorylation (GO:0001934)|response to intra-S DNA damage checkpoint signaling (GO:0072429)	nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA binding (GO:0003677)			NS(2)|breast(2)|kidney(2)|large_intestine(16)|lung(9)|ovary(2)|prostate(3)|skin(3)|stomach(1)	40						CAATGCCATCCCTGTTGACAC	0.488																																																0													209	126	154					10																	5978506		2203	4300	6503	SO:0001583	missense	84893			AK095343	CCDS7072.1, CCDS7073.1, CCDS73064.1	10p15.1	2004-08-24	2004-06-15		ENSG00000134452	ENSG00000134452		"F-boxes /  "other""	13620	protein-coding gene	gene with protein product		607222	"F-box only protein 18"			10531037, 11956208	Standard	NM_032807		Approved	FBH1, FLJ14590, Fbx18	uc001iit.4	Q8NFZ0	OTTHUMG00000017609	ENST00000362091.4:c.2917C>T	10.37:g.5978506C>T	ENSP00000355415:p.Pro973Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JVB0|Q5JVB1|Q7Z4Q6|Q7Z4R0|Q8N1P5|Q8N586|Q96E82|Q96K67|Q96SW7|Q9UFB2	Missense_Mutation	SNP	ENST00000362091.4	37	CCDS7072.1	.	.	.	.	.	.	.	.	.	.	.	6.350	0.432713	0.12045	.	.	ENSG00000134452	ENST00000397269;ENST00000362091;ENST00000379999	.	.	.	4.87	3.95	0.45737	.	0.489595	0.21027	N	0.081408	T	0.23014	0.0556	N	0.04508	-0.205	0.32363	N	0.556835	B;B;B	0.21147	0.052;0.031;0.013	B;B;B	0.21151	0.033;0.015;0.015	T	0.16778	-1.0391	9	0.10636	T	0.68	-7.8564	11.9015	0.52687	0.0:0.9126:0.0:0.0874	.	1024;973;899	Q8NFZ0-2;Q8NFZ0;Q2TAK1	.;FBX18_HUMAN;.	S	477;973;1024	.	ENSP00000355415:P973S	P	+	1	0	FBXO18	6018512	0.999000	0.42202	0.997000	0.53966	0.717000	0.41224	2.003000	0.40844	2.403000	0.81681	0.454000	0.30748	CCT		0.488	FBXO18-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046596.1	NM_032807		T	5978506	C	T	5978506	3	4	662	1	0	0	0	0	1	0	0	0	5738	623	22	2	3157	2	FBXO18	10	5978506	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10		5978506	129556241	38	41129										
SVIL	6840	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr10	29759270	29759270	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tgggcctgggctttgcatccGtgccacaggtagatgagggc	16	10	0	2	rs201300228		TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr10:29759270G>A	ENST00000355867.4	-	32	6530	c.5778C>T	c.(5776-5778)caC>caT	p.H1926H	SVIL_ENST00000535393.1_Silent_p.H840H|PTCHD3P1_ENST00000446807.1_RNA|PTCHD3P1_ENST00000414457.1_RNA|PTCHD3P1_ENST00000455774.1_RNA|PTCHD3P1_ENST00000423223.1_RNA|SVIL_ENST00000375398.2_Silent_p.H1926H|SVIL_ENST00000375400.3_Silent_p.H1500H|PTCHD3P1_ENST00000413405.1_RNA	NM_021738.2	NP_068506.2	O95425	SVIL_HUMAN	supervillin	1926					cytoskeleton organization (GO:0007010)|skeletal muscle tissue development (GO:0007519)	actin cytoskeleton (GO:0015629)|cell projection (GO:0042995)|costamere (GO:0043034)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	actin filament binding (GO:0051015)			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(17)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(24)|lung(35)|ovary(8)|prostate(2)|skin(4)|stomach(7)|upper_aerodigestive_tract(2)|urinary_tract(2)	112		Breast(68;0.103)				CTTTGCATCCGTGCCACAGGT	0.567													G|||	1	0.000199681	0.0	0.0	5008	,	,		19719	0.0		0.001	False		,,,				2504	0.0															0													198	163	175					10																	29759270		2203	4300	6503	SO:0001819	synonymous_variant	6840			AF051851	CCDS7163.1, CCDS7164.1	10p11.2	2008-07-29			ENSG00000197321	ENSG00000197321			11480	protein-coding gene	gene with protein product	"archvillin"	604126				9382871	Standard	NM_003174		Approved		uc001iut.1	O95425	OTTHUMG00000017882	ENST00000355867.4:c.5778C>T	10.37:g.29759270G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DRW9|M1J557|O60611|O60612|Q5VZK5|Q5VZK6|Q9H1R7	Silent	SNP	ENST00000355867.4	37	CCDS7164.1																																																																																				0.567	SVIL-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000047395.1			A	29759270	G	A	29759270	2	1	662	1	0	0	0	0	0	0	0	1	15433	1136	40	1		1	SVIL	10	29759270	Silent	SNP	G	TCGA-KN-8426-01A-11D-2310-10	23780764	29759270	105775477	39	41130										
ITGB1	3688	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	33218830	33218830	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gcttctctgctgttcctttgCtacggttggttacattttta	8	9	1	0			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr10:33218830C>T	ENST00000396033.2	-	4	431	c.296G>A	c.(295-297)aGc>aAc	p.S99N	ITGB1_ENST00000423113.1_Missense_Mutation_p.S99N|ITGB1_ENST00000484088.1_5'UTR|ITGB1_ENST00000302278.3_Missense_Mutation_p.S99N|ITGB1_ENST00000374956.4_Missense_Mutation_p.S99N	NM_133376.2	NP_596867.1	P05556	ITB1_HUMAN	integrin, beta 1 (fibronectin receptor, beta polypeptide, antigen CD29 includes MDF2, MSK12)	99					axon extension (GO:0048675)|axon guidance (GO:0007411)|B cell differentiation (GO:0030183)|blood coagulation (GO:0007596)|calcium-independent cell-matrix adhesion (GO:0007161)|cardiac muscle cell differentiation (GO:0055007)|cell fate specification (GO:0001708)|cell junction assembly (GO:0034329)|cell migration (GO:0016477)|cell migration involved in sprouting angiogenesis (GO:0002042)|cell-cell adhesion mediated by integrin (GO:0033631)|cell-matrix adhesion (GO:0007160)|cell-substrate adhesion (GO:0031589)|cellular calcium ion homeostasis (GO:0006874)|cellular defense response (GO:0006968)|cellular response to ionizing radiation (GO:0071479)|cellular response to mechanical stimulus (GO:0071260)|cellular response to vitamin D (GO:0071305)|extracellular matrix organization (GO:0030198)|formation of radial glial scaffolds (GO:0021943)|G1/S transition of mitotic cell cycle (GO:0000082)|germ cell migration (GO:0008354)|heterotypic cell-cell adhesion (GO:0034113)|homophilic cell adhesion (GO:0007156)|in utero embryonic development (GO:0001701)|integrin-mediated signaling pathway (GO:0007229)|leukocyte cell-cell adhesion (GO:0007159)|leukocyte migration (GO:0050900)|leukocyte tethering or rolling (GO:0050901)|maternal process involved in female pregnancy (GO:0060135)|mesodermal cell differentiation (GO:0048333)|negative regulation of anoikis (GO:2000811)|negative regulation of cell projection organization (GO:0031345)|negative regulation of cell proliferation (GO:0008285)|negative regulation of neuron differentiation (GO:0045665)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of endocytosis (GO:0045807)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of neuron projection development (GO:0010976)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|protein transport within lipid bilayer (GO:0032594)|regulation of cell cycle (GO:0051726)|regulation of collagen catabolic process (GO:0010710)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|regulation of immune response (GO:0050776)|response to activity (GO:0014823)|response to drug (GO:0042493)|response to gonadotropin (GO:0034698)|response to transforming growth factor beta (GO:0071559)|sarcomere organization (GO:0045214)|tight junction assembly (GO:0070830)|tissue homeostasis (GO:0001894)|viral process (GO:0016032)	acrosomal vesicle (GO:0001669)|basement membrane (GO:0005604)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|endosome (GO:0005768)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|integrin alpha1-beta1 complex (GO:0034665)|integrin alpha10-beta1 complex (GO:0034680)|integrin alpha11-beta1 complex (GO:0034681)|integrin alpha2-beta1 complex (GO:0034666)|integrin alpha3-beta1 complex (GO:0034667)|integrin alpha7-beta1 complex (GO:0034677)|integrin alpha8-beta1 complex (GO:0034678)|integrin alpha9-beta1 complex (GO:0034679)|integrin complex (GO:0008305)|intercalated disc (GO:0014704)|invadopodium membrane (GO:0071438)|membrane (GO:0016020)|membrane raft (GO:0045121)|myelin sheath abaxonal region (GO:0035748)|neuromuscular junction (GO:0031594)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|ruffle (GO:0001726)|ruffle membrane (GO:0032587)|sarcolemma (GO:0042383)	actin binding (GO:0003779)|cell adhesion molecule binding (GO:0050839)|collagen binding involved in cell-matrix adhesion (GO:0098639)|metal ion binding (GO:0046872)|peptide binding (GO:0042277)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|virus receptor activity (GO:0001618)			autonomic_ganglia(1)|breast(2)|endometrium(5)|kidney(2)|large_intestine(8)|lung(11)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	37		Ovarian(717;1.34e-05)|Breast(68;0.0634)			Antithymocyte globulin(DB00098)	TGTTCCTTTGCTACGGTTGGT	0.413																																																0													338	326	330					10																	33218830		2203	4300	6503	SO:0001583	missense	3688			BC020057	CCDS7174.1	10p11.2	2010-10-13			ENSG00000150093	ENSG00000150093		"CD molecules", "Integrins"	6153	protein-coding gene	gene with protein product		135630		FNRB, MSK12, MDF2		2524991	Standard	NM_033668		Approved	CD29, GPIIA	uc001iwt.4	P05556	OTTHUMG00000017928	ENST00000396033.2:c.296G>A	10.37:g.33218830C>T	ENSP00000379350:p.Ser99Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6N2|D3DRX9|D3DRY3|D3DRY4|D3DRY5|P78466|P78467|Q13089|Q13090|Q13091|Q13212|Q14622|Q14647|Q29RW2|Q7Z3V1|Q8WUM6	Missense_Mutation	SNP	ENST00000396033.2	37	CCDS7174.1	.	.	.	.	.	.	.	.	.	.	C	11.45	1.643371	0.29246	.	.	ENSG00000150093	ENST00000396033;ENST00000423113;ENST00000302278;ENST00000374956;ENST00000480226;ENST00000474568;ENST00000488494;ENST00000534049;ENST00000437302;ENST00000475184;ENST00000528877	D;D;D;D;D;D;D;D;D;D;D	0.92495	-3.05;-3.05;-3.05;-3.05;-3.05;-3.05;-3.05;-3.05;-3.05;-3.05;-3.05	5.49	4.59	0.56863	Integrin beta subunit, N-terminal (2);	0.150804	0.64402	D	0.000008	T	0.80105	0.4562	N	0.11364	0.135	0.23506	N	0.997538	B;B;B;B;B	0.06786	0.0;0.0;0.0;0.0;0.001	B;B;B;B;B	0.04013	0.001;0.001;0.001;0.001;0.001	T	0.64888	-0.6301	10	0.27082	T	0.32	.	4.0811	0.09927	0.1704:0.5843:0.0:0.2452	.	99;99;99;99;99	P05556-2;P05556;P05556-5;P05556-3;P05556-4	.;ITB1_HUMAN;.;.;.	N	99;99;99;99;99;42;102;99;99;99;99	ENSP00000379350:S99N;ENSP00000388694:S99N;ENSP00000303351:S99N;ENSP00000364094:S99N;ENSP00000417537:S99N;ENSP00000420282:S42N;ENSP00000418725:S102N;ENSP00000431326:S99N;ENSP00000398029:S99N;ENSP00000417243:S99N;ENSP00000436214:S99N	ENSP00000303351:S99N	S	-	2	0	ITGB1	33258836	0.475000	0.25894	0.981000	0.43875	0.993000	0.82548	0.396000	0.20867	1.318000	0.45170	0.591000	0.81541	AGC		0.413	ITGB1-202	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000047496.1	NM_002211		T	33218830	C	T	33218830	3	4	662	1	0	0	0	0	1	0	0	0	7897	797	28	2	2390	2	ITGB1	10	33218830	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	3459560	33218830	102315917	40	41131										
MUC2	4583	mdanderson.org	37	chr11	1093569	1093569	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gtgacacccatcaccaccacAactacggtgaccgcaacccc	6	19	1	2	rs72842460	byFrequency	TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr11:1093569A>C	ENST00000441003.2	+	30	5415	c.5388A>C	c.(5386-5388)acA>acC	p.T1796T	MUC2_ENST00000359061.5_Silent_p.T1752T|MUC2_ENST00000361558.6_Intron|MUC2_ENST00000333592.6_Silent_p.T84T	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0					cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	tcaccaccacaactacGGTGA	0.587																																																0													87	116	106					11																	1093569		2190	4268	6458	SO:0001819	synonymous_variant	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.5388A>C	11.37:g.1093569A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Silent	SNP	ENST00000441003.2	37																																																																																					0.587	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		C	1093569	A	C	1093569	2	2	662	1	0	0	0	0	0	0	0	1	9982	117	5	5		5	MUC2	11	1093569	Silent	SNP	A	TCGA-KN-8426-01A-11D-2310-10		1093569	133912947	41	41132										
TH	7054	bcgsc.ca	37	chr11	2190951	2190951	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ggagaagagcaggtttagcaCggccttcccctccttctcct	10	14	1	2	rs6356	byFrequency	TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr11:2190951C>T	ENST00000381178.1	-	3	352	c.334G>A	c.(334-336)Gtg>Atg	p.V112M	TH_ENST00000352909.3_Missense_Mutation_p.V81M|TH_ENST00000333684.5_Missense_Mutation_p.V85M|TH_ENST00000381175.1_Missense_Mutation_p.V108M	NM_199292.2	NP_954986.2	P07101	TY3H_HUMAN	tyrosine hydroxylase	112			V -> M (common polymorphism; dbSNP:rs6356). {ECO:0000269|PubMed:10391209, ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:21940685, ECO:0000269|PubMed:7789962, ECO:0000269|PubMed:9613851}.		anatomical structure morphogenesis (GO:0009653)|catecholamine biosynthetic process (GO:0042423)|cellular nitrogen compound metabolic process (GO:0034641)|cellular response to drug (GO:0035690)|cellular response to glucose stimulus (GO:0071333)|cellular response to growth factor stimulus (GO:0071363)|cellular response to manganese ion (GO:0071287)|cellular response to nicotine (GO:0071316)|cerebral cortex development (GO:0021987)|circadian sleep/wake cycle (GO:0042745)|dopamine biosynthetic process (GO:0042416)|dopamine biosynthetic process from tyrosine (GO:0006585)|eating behavior (GO:0042755)|embryonic camera-type eye morphogenesis (GO:0048596)|epinephrine biosynthetic process (GO:0042418)|eye photoreceptor cell development (GO:0042462)|fatty acid metabolic process (GO:0006631)|glycoside metabolic process (GO:0016137)|heart development (GO:0007507)|heart morphogenesis (GO:0003007)|isoquinoline alkaloid metabolic process (GO:0033076)|learning (GO:0007612)|locomotory behavior (GO:0007626)|mating behavior (GO:0007617)|memory (GO:0007613)|multicellular organismal aging (GO:0010259)|neurotransmitter biosynthetic process (GO:0042136)|norepinephrine biosynthetic process (GO:0042421)|organ morphogenesis (GO:0009887)|phthalate metabolic process (GO:0018963)|phytoalexin metabolic process (GO:0052314)|pigmentation (GO:0043473)|regulation of heart contraction (GO:0008016)|response to activity (GO:0014823)|response to amphetamine (GO:0001975)|response to corticosterone (GO:0051412)|response to electrical stimulus (GO:0051602)|response to estradiol (GO:0032355)|response to ethanol (GO:0045471)|response to ether (GO:0045472)|response to herbicide (GO:0009635)|response to hypoxia (GO:0001666)|response to light stimulus (GO:0009416)|response to lipopolysaccharide (GO:0032496)|response to nutrient levels (GO:0031667)|response to peptide hormone (GO:0043434)|response to pyrethroid (GO:0046684)|response to salt stress (GO:0009651)|response to water deprivation (GO:0009414)|response to zinc ion (GO:0010043)|sensory perception of sound (GO:0007605)|small molecule metabolic process (GO:0044281)|social behavior (GO:0035176)|sphingolipid metabolic process (GO:0006665)|synaptic transmission, dopaminergic (GO:0001963)|synaptic vesicle amine transport (GO:0015842)|terpene metabolic process (GO:0042214)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|dendrite (GO:0030425)|melanosome membrane (GO:0033162)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|nucleus (GO:0005634)|perikaryon (GO:0043204)|smooth endoplasmic reticulum (GO:0005790)|synaptic vesicle (GO:0008021)|terminal bouton (GO:0043195)	amino acid binding (GO:0016597)|dopamine binding (GO:0035240)|enzyme binding (GO:0019899)|ferric iron binding (GO:0008199)|ferrous iron binding (GO:0008198)|oxygen binding (GO:0019825)|tetrahydrobiopterin binding (GO:0034617)|tyrosine 3-monooxygenase activity (GO:0004511)			NS(1)|endometrium(1)|large_intestine(1)|lung(7)|skin(1)	11		all_epithelial(84;1.46e-23)|Lung NSC(207;4.44e-11)|all_lung(207;1.11e-09)|Ovarian(85;1.78e-06)|Breast(177;1.78e-05)|Medulloblastoma(188;0.0208)|all_neural(188;0.0416)	Colorectal(5;0.00245)|COAD - Colon adenocarcinoma(6;0.0239)	BRCA - Breast invasive adenocarcinoma(625;8.45e-09)|Lung(200;0.000152)|LUSC - Lung squamous cell carcinoma(625;0.00154)	L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Metyrosine(DB00765)|Tetrahydrobiopterin(DB00360)	AGGTTTAGCACGGCCTTCCCC	0.697													C|||	2156	0.430511	0.1014	0.3919	5008	,	,		15378	0.7877		0.4026	False		,,,				2504	0.5634															0								C	MET/VAL,MET/VAL,MET/VAL	623,3779	265.6+/-266.7	36,551,1614	58	60	60	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	241,334,322	-1.8	0	11	dbSNP_52	60	3121,5477	472.4+/-368.3	569,1983,1747	yes	missense,missense,missense	TH	NM_000360.3,NM_199292.2,NM_199293.2	21,21,21	605,2534,3361	TT,TC,CC		36.2991,14.1527,28.8	benign,benign,benign	81/498,112/529,108/525	2190951	3744,9256	2201	4299	6500	SO:0001583	missense	7054			X05290	CCDS7730.1, CCDS7731.1, CCDS31338.1	11p15.5	2013-06-03			ENSG00000180176	ENSG00000180176	1.14.16.2		11782	protein-coding gene	gene with protein product	"tyrosine 3-monooxygenase"	191290					Standard	NM_199292		Approved	DYT5b	uc001lvq.3	P07101	OTTHUMG00000009559	ENST00000381178.1:c.334G>A	11.37:g.2190951C>T	ENSP00000370571:p.Val112Met	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZL70|B7ZL73|Q0PWM2|Q0PWM3|Q15585|Q15588|Q15589|Q2M3B4	Missense_Mutation	SNP	ENST00000381178.1	37	CCDS7731.1	913	0.41804029304029305	52	0.10569105691056911	127	0.35082872928176795	443	0.7744755244755245	291	0.3839050131926121	C	13.68	2.310931	0.40895	0.141527	0.362991	ENSG00000180176	ENST00000381178;ENST00000381175;ENST00000352909;ENST00000333684	D;D;D;D	0.98419	-4.92;-4.92;-4.92;-4.92	3.59	-1.8	0.07907	.	0.577810	0.17552	N	0.170143	T	0.00012	0.0000	L	0.31664	0.95	0.80722	P	0.0	B;B;B;B;B	0.24576	0.037;0.037;0.044;0.016;0.106	B;B;B;B;B	0.21151	0.006;0.006;0.02;0.005;0.033	T	0.41662	-0.9496	9	0.33141	T	0.24	.	4.7289	0.12955	0.0:0.2915:0.2918:0.4167	rs6356;rs57599796;rs6356	85;81;81;112;108	Q0PWM2;Q0PWM3;P07101-3;P07101;P07101-2	.;.;.;TY3H_HUMAN;.	M	112;108;81;85	ENSP00000370571:V112M;ENSP00000370567:V108M;ENSP00000325951:V81M;ENSP00000328814:V85M	ENSP00000328814:V85M	V	-	1	0	TH	2147527	0.000000	0.05858	0.000000	0.03702	0.948000	0.59901	-0.327000	0.07955	-0.189000	0.10482	0.491000	0.48974	GTG		0.697	TH-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000026597.1	NM_000360		T	2190951	C	T	2190951	3	4	662	1	0	0	0	0	1	0	0	0	15850	536	19	1	1300	1	TH	11	2190951	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	1097382	2190951	132815565	42	41133										
OR51M1	390059	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	5411028	5411028	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tcctcatgatgtcctttgacCgccttgtggccatctgccac	8	15	2	2	rs74683499	byFrequency	TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr11:5411028C>T	ENST00000328611.3	+	1	422	c.400C>T	c.(400-402)Cgc>Tgc	p.R134C	HBE1_ENST00000380237.1_Intron|HBG2_ENST00000380252.1_Intron|HBG2_ENST00000380259.2_Intron|AC104389.28_ENST00000415970.1_RNA	NM_001004756.2	NP_001004756.2	Q9H341	O51M1_HUMAN	olfactory receptor, family 51, subfamily M, member 1	134					detection of chemical stimulus involved in sensory perception of smell (GO:0050911)|sensory perception of smell (GO:0007608)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.R134S(1)		NS(3)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(16)|upper_aerodigestive_tract(1)	30		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)		GTCCTTTGACCGCCTTGTGGC	0.517													c|||	97	0.019369	0.0673	0.0086	5008	,	,		22578	0.001		0.0	False		,,,				2504	0.001															1	Substitution - Missense(1)	lung(1)						T	CYS/ARG	211,3915		8,195,1860	220	211	214		400	2.2	1	11	dbSNP_131	214	9,8477		0,9,4234	yes	missense	OR51M1	NM_001004756.2	180	8,204,6094	TT,TC,CC		0.1061,5.1139,1.7444	probably-damaging	134/327	5411028	220,12392	2063	4243	6306	SO:0001583	missense	390059			BK004382	CCDS53596.1	11p15.4	2012-08-09			ENSG00000184698	ENSG00000184698		"GPCR / Class A : Olfactory receptors"	14847	protein-coding gene	gene with protein product							Standard	NM_001004756		Approved		uc010qzc.2	Q9H341	OTTHUMG00000066680	ENST00000328611.3:c.400C>T	11.37:g.5411028C>T	ENSP00000333196:p.Arg134Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF80	Missense_Mutation	SNP	ENST00000328611.3	37	CCDS53596.1	35	0.016025641025641024	31	0.06300813008130081	3	0.008287292817679558	1	0.0017482517482517483	0	0.0	c	8.963	0.971057	0.18659	0.051139	0.001061	ENSG00000184698	ENST00000328611	T	0.77358	-1.09	5.06	2.22	0.28083	GPCR, rhodopsin-like superfamily (1);	0.000000	0.34200	U	0.004166	T	0.42562	0.1208	M	0.87097	2.86	0.39920	D	0.974145	P	0.52316	0.952	P	0.51453	0.67	T	0.70450	-0.4868	10	0.87932	D	0	.	9.3107	0.37903	0.0:0.7644:0.0:0.2356	.	123	Q9H341	O51M1_HUMAN	C	134	ENSP00000333196:R134C	ENSP00000333196:R134C	R	+	1	0	OR51M1	5367604	0.000000	0.05858	0.968000	0.41197	0.217000	0.24651	-0.832000	0.04400	0.330000	0.23485	-0.119000	0.15052	CGC		0.517	OR51M1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000142981.1	NM_001004756		T	5411028	C	T	5411028	3	4	662	1	0	0	0	0	1	0	0	0	11110	652	23	1	402	1	OR51M1	11	5411028	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	3220077	5411028	129595488	43	41134										
CCDC73	493860	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	32636263	32636263	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	acactacaaaatgattatttGgtgatttaaattctgtacat	5	5	1	2			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr11:32636263G>T	ENST00000335185.5	-	16	1644	c.1601C>A	c.(1600-1602)cCa>cAa	p.P534Q	CCDC73_ENST00000534415.1_5'Flank	NM_001008391.2	NP_001008392.2	Q6ZRK6	CCD73_HUMAN	coiled-coil domain containing 73	534										NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(9)|lung(20)|ovary(2)|prostate(2)|skin(2)|stomach(1)|urinary_tract(2)	51	Breast(20;0.112)					ATGATTATTTGGTGATTTAAA	0.318																																																0													131	118	122					11																	32636263		1819	4075	5894	SO:0001583	missense	493860			AK128159	CCDS41630.1	11p13	2006-02-11			ENSG00000186714	ENSG00000186714			23261	protein-coding gene	gene with protein product		612328					Standard	NM_001008391		Approved	NY-SAR-79	uc001mtv.4	Q6ZRK6	OTTHUMG00000166279	ENST00000335185.5:c.1601C>A	11.37:g.32636263G>T	ENSP00000335325:p.Pro534Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P5Q7|Q6ZMW0|Q86WE7	Missense_Mutation	SNP	ENST00000335185.5	37	CCDS41630.1	.	.	.	.	.	.	.	.	.	.	G	8.072	0.770379	0.15983	.	.	ENSG00000186714	ENST00000335185	.	.	.	5.42	2.1	0.27182	.	1.166390	0.06315	N	0.703327	T	0.21550	0.0519	L	0.40543	1.245	0.09310	N	1	P	0.34462	0.454	B	0.27380	0.079	T	0.20874	-1.0262	9	0.13853	T	0.58	.	0.2746	0.00236	0.33:0.1473:0.2777:0.245	.	534	Q6ZRK6	CCD73_HUMAN	Q	534	.	ENSP00000335325:P534Q	P	-	2	0	CCDC73	32592839	0.000000	0.05858	0.064000	0.19789	0.113000	0.19764	-0.315000	0.08081	0.631000	0.30412	0.591000	0.81541	CCA		0.318	CCDC73-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388874.2	NM_001008391		T	32636263	G	T	32636263	3	4	662	1	0	0	0	0	1	0	0	0	2848	1348	47	4	1650	4	CCDC73	11	32636263	Missense_Mutation	SNP	G	TCGA-KN-8426-01A-11D-2310-10	27225235	32636263	102370253	44	41135										
CDC42BPG	55561	mdanderson.org	37	chr11	64597205	64597205	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gcgcccacacatagccggtcGcccagcagccccaggctctg	11	19	1	0	rs7936466	byFrequency	TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr11:64597205G>T	ENST00000342711.5	-	30	3704	c.3705C>A	c.(3703-3705)ggC>ggA	p.G1235G	CDC42BPG_ENST00000491280.1_5'Flank	NM_017525.2	NP_059995.2			CDC42 binding protein kinase gamma (DMPK-like)											central_nervous_system(1)|lung(3)	4						ATAGCCGGTCGCCCAGCAGCC	0.716													G|||	1371	0.273762	0.0439	0.2147	5008	,	,		14616	0.4931		0.2555	False		,,,				2504	0.4192															0								G		328,3866		16,296,1785	7	9	8		3705	-0.6	1	11	dbSNP_116	8	1926,6434		211,1504,2465	no	coding-synonymous	CDC42BPG	NM_017525.2		227,1800,4250	TT,TG,GG		23.0383,7.8207,17.9544		1235/1552	64597205	2254,10300	2097	4180	6277	SO:0001819	synonymous_variant	55561			AY648038	CCDS31601.1	11q13	2013-01-10			ENSG00000171219	ENSG00000171219		"Pleckstrin homology (PH) domain containing"	29829	protein-coding gene	gene with protein product		613991				9341881, 15194684	Standard	NM_017525		Approved	HSMDPKIN, MRCKgamma, DMPK2, kappa-200	uc001obs.4	Q6DT37	OTTHUMG00000045365	ENST00000342711.5:c.3705C>A	11.37:g.64597205G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000342711.5	37	CCDS31601.1																																																																																				0.716	CDC42BPG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000105352.4	XM_290516		T	64597205	G	T	64597205	2	4	662	1	0	0	0	0	0	0	0	1	3076	1074	38	4		4	CDC42BPG	11	64597205	Silent	SNP	G	TCGA-KN-8426-01A-11D-2310-10	31960942	64597205	70409311	45	41136										
ARAP1	116985	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	72438103	72438103	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	catgctgctcaaagagccccGtgtactgctccaggtgcaat	10	13	1	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr11:72438103G>A	ENST00000393609.3	-	3	273	c.71C>T	c.(70-72)aCg>aTg	p.T24M	ARAP1_ENST00000359373.5_Missense_Mutation_p.T24M|ARAP1_ENST00000455638.2_Missense_Mutation_p.T24M	NM_001040118.2	NP_001035207.1	Q96P48	ARAP1_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	24	SAM. {ECO:0000255|PROSITE- ProRule:PRU00184}.				actin filament reorganization involved in cell cycle (GO:0030037)|negative regulation of stress fiber assembly (GO:0051497)|positive regulation of Cdc42 GTPase activity (GO:0043089)|positive regulation of filopodium assembly (GO:0051491)|positive regulation of receptor recycling (GO:0001921)|regulation of ARF GTPase activity (GO:0032312)|regulation of cell shape (GO:0008360)|regulation of cellular component movement (GO:0051270)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)	ARF GTPase activator activity (GO:0008060)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|Rho GTPase activator activity (GO:0005100)|zinc ion binding (GO:0008270)			cervix(2)|endometrium(2)|large_intestine(10)|lung(8)|ovary(1)|skin(3)|urinary_tract(1)	27						AAAGAGCCCCGTGTACTGCTC	0.657																																					Ovarian(102;1198 1520 13195 17913 37529)											0													16	21	20					11																	72438103		2084	4202	6286	SO:0001583	missense	116985			AF411983	CCDS8217.2, CCDS41687.1, CCDS44671.1	11q13.3	2013-01-11	2008-09-22	2008-09-22	ENSG00000186635	ENSG00000186635		"ADP-ribosylation factor GTPase activating proteins", "Sterile alpha motif (SAM) domain containing", "Pleckstrin homology (PH) domain containing", "Ankyrin repeat domain containing"	16925	protein-coding gene	gene with protein product		606646	"centaurin, delta 2"	CENTD2			Standard	NM_001040118		Approved		uc001osu.3	Q96P48	OTTHUMG00000157102	ENST00000393609.3:c.71C>T	11.37:g.72438103G>A	ENSP00000377233:p.Thr24Met	Somatic		WXS	Illumina HiSeq	Phase_I	A3KLL7|B2RTS2|O94879|Q4LDD5|Q59FI7|Q6PHS3|Q8WU51|Q96HP6|Q96L71	Missense_Mutation	SNP	ENST00000393609.3	37	CCDS41687.1	.	.	.	.	.	.	.	.	.	.	G	15.43	2.830810	0.50845	.	.	ENSG00000186635	ENST00000359373;ENST00000455638;ENST00000393609	T;T;T	0.50001	0.76;0.76;0.76	4.59	3.67	0.42095	Sterile alpha motif domain (2);Sterile alpha motif/pointed domain (2);Sterile alpha motif, type 1 (1);	0.356212	0.26190	N	0.025808	T	0.41673	0.1169	L	0.46157	1.445	0.26422	N	0.976081	D;D	0.54207	0.957;0.965	B;P	0.47102	0.402;0.537	T	0.36553	-0.9743	10	0.54805	T	0.06	.	4.6932	0.12791	0.1784:0.2125:0.609:0.0	.	24;24	Q96P48-3;Q96P48	.;ARAP1_HUMAN	M	24	ENSP00000352332:T24M;ENSP00000390461:T24M;ENSP00000377233:T24M	ENSP00000352332:T24M	T	-	2	0	ARAP1	72115751	0.170000	0.23016	0.821000	0.32701	0.955000	0.61496	1.164000	0.31810	1.130000	0.42092	0.555000	0.69702	ACG		0.657	ARAP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000347428.1	NM_001040118		A	72438103	G	A	72438103	3	1	662	1	0	0	0	0	1	0	0	0	838	1145	40	1	4413	1	ARAP1	11	72438103	Missense_Mutation	SNP	G	TCGA-KN-8426-01A-11D-2310-10	7840898	72438103	62568413	46	41137										
TMPRSS13	84000	broad.mit.edu;bcgsc.ca	37	chr11	117784539	117784539	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ttctctgagtaggagtcattCcagttgctgctacagatggg	12	8	2	2			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr11:117784539C>G	ENST00000430170.2	-	5	849	c.762G>C	c.(760-762)tgG>tgC	p.W254C	TMPRSS13_ENST00000526090.1_Missense_Mutation_p.W254C|TMPRSS13_ENST00000524993.1_Missense_Mutation_p.W254C|TMPRSS13_ENST00000528626.1_Missense_Mutation_p.W219C|TMPRSS13_ENST00000445164.2_Missense_Mutation_p.W254C	NM_001244995.1	NP_001231924.1	Q9BYE2	TMPSD_HUMAN	transmembrane protease, serine 13	254	SRCR. {ECO:0000255|PROSITE- ProRule:PRU00196}.					blood microparticle (GO:0072562)|integral component of membrane (GO:0016021)	scavenger receptor activity (GO:0005044)|serine-type endopeptidase activity (GO:0004252)			endometrium(1)|kidney(3)|large_intestine(6)|lung(7)|pancreas(1)|prostate(1)|urinary_tract(1)	20	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.00106)		AGGAGTCATTCCAGTTGCTGC	0.537																																																0													75	79	78					11																	117784539		1907	4112	6019	SO:0001583	missense	84000			AB048796	CCDS41721.1, CCDS55788.1, CCDS55789.1, CCDS58185.1	11q23	2010-04-13	2005-03-11	2005-03-12	ENSG00000137747	ENSG00000137747		"Serine peptidases / Transmembrane"	29808	protein-coding gene	gene with protein product		610050	"transmembrane protease, serine 11"	TMPRSS11		11267681	Standard	NM_001077263		Approved	MSPL	uc001prs.2	Q9BYE2	OTTHUMG00000166992	ENST00000430170.2:c.762G>C	11.37:g.117784539C>G	ENSP00000387702:p.Trp254Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTM9|E9PIJ5|F8WAJ3|Q86YM4|Q96JY8|Q9BYE1	Missense_Mutation	SNP	ENST00000430170.2	37	CCDS58185.1	.	.	.	.	.	.	.	.	.	.	C	23.0	4.365229	0.82463	.	.	ENSG00000137747	ENST00000528626;ENST00000336500;ENST00000524993;ENST00000430170;ENST00000445164;ENST00000526090	T;T;T;T;T	0.70516	-0.49;-0.49;-0.49;-0.49;-0.49	5.69	5.69	0.88448	.	0.000000	0.64402	D	0.000015	D	0.88190	0.6370	M	0.91140	3.18	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.998	D	0.90128	0.4204	10	0.87932	D	0	.	19.4133	0.94685	0.0:1.0:0.0:0.0	.	249;254	Q9BYE2-4;E9PRA0	.;.	C	219;249;254;254;254;254	ENSP00000435813:W219C;ENSP00000434279:W254C;ENSP00000387702:W254C;ENSP00000394114:W254C;ENSP00000436502:W254C	ENSP00000337113:W249C	W	-	3	0	TMPRSS13	117289749	1.000000	0.71417	1.000000	0.80357	0.946000	0.59487	6.462000	0.73526	2.700000	0.92200	0.561000	0.74099	TGG		0.537	TMPRSS13-006	PUTATIVE	basic|appris_candidate|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000392318.1	NM_032046		G	117784539	C	G	117784539	3	3	662	1	0	0	0	0	1	0	0	0	16257	856	30	4	977	4	TMPRSS13	11	117784539	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	45346436	117784539	17221977	47	41138										
CLEC6A	93978	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	8618083	8618083	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	atgtaacacaaaaatagcctGgggatgttgcccagcttctt	9	9	1	0			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr12:8618083G>A	ENST00000382073.3	+	4	413	c.227G>A	c.(226-228)tGg>tAg	p.W76*		NM_001007033.1	NP_001007034.1	Q6EIG7	CLC6A_HUMAN	C-type lectin domain family 6, member A	76					defense response to fungus (GO:0050832)|innate immune response (GO:0045087)|positive regulation of cytokine secretion (GO:0050715)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)	integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)			breast(1)|large_intestine(2)|lung(7)	10	Lung SC(5;0.184)					AAAATAGCCTGGGGATGTTGC	0.383																																																0													118	113	115					12																	8618083		2203	4300	6503	SO:0001587	stop_gained	93978			AY321309	CCDS31739.1	12p13	2005-09-21	2005-02-09	2005-02-11	ENSG00000205846	ENSG00000205846		"C-type lectin domain containing"	14556	protein-coding gene	gene with protein product		613579	"C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 10"	CLECSF10			Standard	NM_001007033		Approved	dectin-2	uc001qum.1	Q6EIG7	OTTHUMG00000168672	ENST00000382073.3:c.227G>A	12.37:g.8618083G>A	ENSP00000371505:p.Trp76*	Somatic		WXS	Illumina HiSeq	Phase_I	A2RUK3	Nonsense_Mutation	SNP	ENST00000382073.3	37	CCDS31739.1	.	.	.	.	.	.	.	.	.	.	G	26.1	4.706150	0.89018	.	.	ENSG00000205846	ENST00000382073	.	.	.	4.09	3.19	0.36642	.	0.000000	0.35235	N	0.003345	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	7.6456	0.28318	0.1143:0.0:0.8857:0.0	.	.	.	.	X	76	.	ENSP00000371505:W76X	W	+	2	0	CLEC6A	8509350	1.000000	0.71417	0.925000	0.36789	0.631000	0.37964	3.314000	0.51943	1.292000	0.44672	0.650000	0.86243	TGG		0.383	CLEC6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400562.1	NM_001007033		A	8618083	G	A	8618083	4	1	662	1	0	0	0	0	0	1	0	0	3522	1357	47	2	241	2	CLEC6A	12	8618083	Nonsense_Mutation	SNP	G	TCGA-KN-8426-01A-11D-2310-10		8618083	125233812	48	41139										
PRB2	653247	mdanderson.org	37	chr12	11546448	11546448	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gggggaccttggggctggttGcctccttgtgggggtggtcc	20	9	0	0	rs11054278		TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr12:11546448G>A	ENST00000389362.4	-	3	599	c.564C>T	c.(562-564)ggC>ggT	p.G188G	PRB2_ENST00000545829.1_5'Flank|PRB1_ENST00000546254.1_Intron	NM_006248.3	NP_006239.3	P02812	PRB2_HUMAN	proline-rich protein BstNI subfamily 2	188	15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-P-Q-G-[GD]-[NKS]-[KSQ]- [PRS]-[QRS] [GPS]-[PSAR]-[PSR].					extracellular region (GO:0005576)				NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(14)|pancreas(1)|prostate(5)|skin(4)|stomach(2)|urinary_tract(1)	37		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			GGGGCTGGTTGCCTCCTTGTG	0.602																																																0													148	148	148					12																	11546448		2166	4270	6436	SO:0001819	synonymous_variant	653247			K03208	CCDS41757.2	12p13.2	2012-10-02			ENSG00000121335	ENSG00000121335			9338	protein-coding gene	gene with protein product		168810				8554050	Standard	NM_006248		Approved	PRPPRB1, Ps, cP7	uc010shk.1	P02812	OTTHUMG00000156975	ENST00000389362.4:c.564C>T	12.37:g.11546448G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O00599|P02811|P04281	Silent	SNP	ENST00000389362.4	37	CCDS41757.2																																																																																				0.602	PRB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346925.2	NM_006248		A	11546448	G	A	11546448	2	1	662	1	0	0	0	0	0	0	0	1	12453	1306	46	2		2	PRB2	12	11546448	Silent	SNP	G	TCGA-KN-8426-01A-11D-2310-10	2928365	11546448	122305447	49	41140										
KIF5A	3798	broad.mit.edu	37	chr12	57957254	57957254	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gtttttgaccgtgtattcccCccaaacacgactcaagagca	7	13	1	2			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr12:57957254C>T	ENST00000455537.2	+	2	436	c.162C>T	c.(160-162)ccC>ccT	p.P54P	KIF5A_ENST00000286452.5_Intron	NM_004984.2	NP_004975.2	Q12840	KIF5A_HUMAN	kinesin family member 5A	54	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell death (GO:0008219)|cytoskeleton-dependent intracellular transport (GO:0030705)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|protein localization (GO:0008104)|synaptic transmission (GO:0007268)	cytosol (GO:0005829)|kinesin complex (GO:0005871)|membrane (GO:0016020)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|motor activity (GO:0003774)|plus-end-directed microtubule motor activity (GO:0008574)			breast(2)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(11)|liver(1)|lung(32)|ovary(2)|prostate(2)|skin(2)	62						GTGTATTCCCCCCAAACACGA	0.413																																																0													99	89	92					12																	57957254		2203	4300	6503	SO:0001819	synonymous_variant	3798			U06698	CCDS8945.1	12q13.13	2011-07-15	2004-02-13			ENSG00000155980		"Kinesins"	6323	protein-coding gene	gene with protein product		602821	"spastic paraplegia 10 (autosomal dominant)"	SPG10		9858832, 10441583, 16489470	Standard	NM_004984		Approved	D12S1889, NKHC, MY050	uc001sor.1	Q12840	OTTHUMG00000170143	ENST00000455537.2:c.162C>T	12.37:g.57957254C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6H8M5|Q4LE26	Silent	SNP	ENST00000455537.2	37	CCDS8945.1																																																																																				0.413	KIF5A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407634.1	NM_004984		T	57957254	C	T	57957254	2	4	662	1	0	0	0	0	0	0	0	1	8312	610	22	2		2	KIF5A	12	57957254	Silent	SNP	C	TCGA-KN-8426-01A-11D-2310-10	46410806	57957254	75894641	50	41141										
CCDC59	29080	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	82747061	82747061	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tttgtactgcctttgggcttCttctctctcctgttttctcc	6	13	4	0			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr12:82747061C>A	ENST00000256151.7	-	4	1006	c.595G>T	c.(595-597)Gaa>Taa	p.E199*	CCDC59_ENST00000548126.1_5'UTR	NM_014167.4	NP_054886.2	Q9P031	TAP26_HUMAN	coiled-coil domain containing 59	199					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)	5						CTTTGGGCTTCTTCTCTCTCC	0.328																																																0													124	115	118					12																	82747061		2203	4299	6502	SO:0001587	stop_gained	29080			AF213377	CCDS9023.1	12q21.31	2007-10-17				ENSG00000133773			25005	protein-coding gene	gene with protein product						16630564, 12882447	Standard	NM_014167		Approved	HSPC128, TAP26, BR22	uc001szp.4	Q9P031		ENST00000256151.7:c.595G>T	12.37:g.82747061C>A	ENSP00000256151:p.Glu199*	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H2V5|Q9NW62	Nonsense_Mutation	SNP	ENST00000256151.7	37	CCDS9023.1	.	.	.	.	.	.	.	.	.	.	C	40	8.294946	0.98747	.	.	ENSG00000133773	ENST00000256151	.	.	.	5.87	5.87	0.94306	.	0.093803	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.52906	T	0.07	-30.2799	18.7629	0.91860	0.0:1.0:0.0:0.0	.	.	.	.	X	199	.	ENSP00000256151:E199X	E	-	1	0	CCDC59	81271192	1.000000	0.71417	1.000000	0.80357	0.954000	0.61252	4.974000	0.63771	2.775000	0.95449	0.650000	0.86243	GAA		0.328	CCDC59-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408186.1	NM_014167		A	82747061	C	A	82747061	4	1	662	1	0	0	0	0	0	1	0	0	2831	922	32	4	134	4	CCDC59	12	82747061	Nonsense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	24789807	82747061	51104834	51	41142										
RNF17	56163	ucsc.edu	37	chr13	25439115	25439115	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	aaatactgtacttctgaacaTactgaggagatgttgaaaga	9	5	1	5	rs372000517		TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr13:25439115T>C	ENST00000255324.5	+	29	4132	c.4080T>C	c.(4078-4080)caT>caC	p.H1360H	RNF17_ENST00000339524.3_Intron|RNF17_ENST00000381921.1_Intron	NM_001184993.1|NM_031277.2	NP_001171922.1|NP_112567.2	Q9BXT8	RNF17_HUMAN	ring finger protein 17	1360					multicellular organismal development (GO:0007275)|spermatid development (GO:0007286)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	hydrolase activity, acting on ester bonds (GO:0016788)|nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(15)|ovary(1)|prostate(3)|skin(6)	36		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)		CTTCTGAACATACTGAGGAGA	0.303																																																0								T	,	0,4398		0,0,2199	75	77	76		4068,4080	-1.4	0.9	13		76	1,8563	1.2+/-3.3	0,1,4281	no	coding-synonymous,coding-synonymous	RNF17	NM_001184993.1,NM_031277.2	,	0,1,6480	CC,CT,TT		0.0117,0.0,0.0077	,	1356/1620,1360/1624	25439115	1,12961	2199	4282	6481	SO:0001819	synonymous_variant	56163			AF285602, AK001907	CCDS9308.2	13q12.13	2013-01-23			ENSG00000132972	ENSG00000132972		"RING-type (C3HC4) zinc fingers", "Tudor domain containing"	10060	protein-coding gene	gene with protein product	"spermatogenesis associated 23"	605793	"tudor domain containing 4"	TDRD4		11279525	Standard	NM_001184993		Approved	Mmip-2, SPATA23, FLJ11045	uc001upr.3	Q9BXT8	OTTHUMG00000016589	ENST00000255324.5:c.4080T>C	13.37:g.25439115T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T2J9|Q6P1W3|Q9BXT7|Q9NUY9	Silent	SNP	ENST00000255324.5	37	CCDS9308.2																																																																																				0.303	RNF17-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044217.1	NM_031994		C	25439115	T	C	25439115	2	2	662	1	0	0	0	0	0	0	0	1	13474	1403	49	3		3	RNF17	13	25439115	Silent	SNP	T	TCGA-KN-8426-01A-11D-2310-10		25439115	89730763	52	41143										
DGKH	160851	ucsc.edu	37	chr13	42623046	42623046	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tgacagcgaagcggagcaagAgggaccccagaaactgatcc	13	11	0	4			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr13:42623046A>G	ENST00000337343.4	+	1	158	c.137A>G	c.(136-138)gAg>gGg	p.E46G	DGKH_ENST00000261491.5_Missense_Mutation_p.E46G|DGKH_ENST00000379274.2_5'UTR|DGKH_ENST00000540693.1_Missense_Mutation_p.E46G	NM_178009.3	NP_821077.1	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta	46					blood coagulation (GO:0007596)|intracellular signal transduction (GO:0035556)|platelet activation (GO:0030168)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|protein oligomerization (GO:0051259)	cytoplasm (GO:0005737)|endosome (GO:0005768)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|diacylglycerol kinase activity (GO:0004143)|metal ion binding (GO:0046872)|NAD+ kinase activity (GO:0003951)			breast(2)|endometrium(3)|kidney(5)|large_intestine(11)|lung(9)|ovary(4)|pancreas(1)|prostate(1)|skin(2)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	43		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		GCGGAGCAAGAGGGACCCCAG	0.716																																																0													18	17	18					13																	42623046		2196	4298	6494	SO:0001583	missense	160851			AB078967	CCDS9381.1, CCDS9382.1, CCDS55898.1	13q13.3	2013-01-10			ENSG00000102780	ENSG00000102780		"Sterile alpha motif (SAM) domain containing", "Pleckstrin homology (PH) domain containing"	2854	protein-coding gene	gene with protein product		604071				8702685	Standard	XM_005266271		Approved	DGKeta	uc001uyl.2	Q86XP1	OTTHUMG00000016804	ENST00000337343.4:c.137A>G	13.37:g.42623046A>G	ENSP00000337572:p.Glu46Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2W7|A6NFX7|B4DZ34|Q5VZW0|Q6PI56|Q86XP2|Q8N3N0|Q8N7J9	Missense_Mutation	SNP	ENST00000337343.4	37	CCDS9381.1	.	.	.	.	.	.	.	.	.	.	A	19.89	3.911329	0.72983	.	.	ENSG00000102780	ENST00000540693;ENST00000337343;ENST00000261491	T;T;T	0.81247	-1.47;-1.29;-1.47	4.26	4.26	0.50523	.	0.091905	0.39544	N	0.001327	T	0.74891	0.3776	L	0.29908	0.895	0.80722	D	1	P;B	0.44139	0.827;0.002	P;B	0.46758	0.526;0.003	T	0.72551	-0.4259	10	0.26408	T	0.33	.	13.6415	0.62253	1.0:0.0:0.0:0.0	.	46;46	Q86XP1-2;Q86XP1	.;DGKH_HUMAN	G	46	ENSP00000440823:E46G;ENSP00000337572:E46G;ENSP00000261491:E46G	ENSP00000261491:E46G	E	+	2	0	DGKH	41521046	1.000000	0.71417	1.000000	0.80357	0.969000	0.65631	6.038000	0.70964	1.684000	0.51022	0.254000	0.18369	GAG		0.716	DGKH-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044699.2	NM_178009		G	42623046	A	G	42623046	3	3	662	1	0	0	0	0	1	0	0	0	4472	304	11	3	139	3	DGKH	13	42623046	Missense_Mutation	SNP	A	TCGA-KN-8426-01A-11D-2310-10	17183931	42623046	72546832	53	41144										
PIBF1	10464	broad.mit.edu	37	chr13	73572977	73572977	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	caggaattggcagcaatgaaAcagattctcgttaagatgca	10	7	1	3			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr13:73572977A>G	ENST00000326291.6	+	17	2405	c.2067A>G	c.(2065-2067)aaA>aaG	p.K689K	PIBF1_ENST00000489922.1_3'UTR	NM_006346.2	NP_006337.2	Q8WXW3	PIBF1_HUMAN	progesterone immunomodulatory binding factor 1	689						centrosome (GO:0005813)				breast(2)|endometrium(2)|kidney(1)|large_intestine(1)|lung(10)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	24		Prostate(6;0.00191)|Breast(118;0.0736)|Acute lymphoblastic leukemia(28;0.0865)		GBM - Glioblastoma multiforme(99;0.000664)		CAGCAATGAAACAGATTCTCG	0.303																																																0													61	55	57					13																	73572977		2203	4299	6502	SO:0001819	synonymous_variant	10464			AF330046	CCDS31991.1	13q21.33	2014-02-20	2007-10-17	2007-10-17	ENSG00000083535	ENSG00000083535			23352	protein-coding gene	gene with protein product	"progesterone-induced blocking factor 1"	607532	"chromosome 13 open reading frame 24"	C13orf24		11935316	Standard	NM_006346		Approved	CEP90	uc001vjc.3	Q8WXW3	OTTHUMG00000017071	ENST00000326291.6:c.2067A>G	13.37:g.73572977A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O95664|Q6U9V2|Q6UG50|Q86V07|Q96SF4	Silent	SNP	ENST00000326291.6	37	CCDS31991.1																																																																																				0.303	PIBF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045255.1	NM_006346		G	73572977	A	G	73572977	2	3	662	1	0	0	0	0	0	0	0	1	11886	40	2	3		3	PIBF1	13	73572977	Silent	SNP	A	TCGA-KN-8426-01A-11D-2310-10	30949931	73572977	41596901	54	41145										
LRFN5	145581	broad.mit.edu	37	chr14	42355997	42355997	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	acagaagaactgtggaactgCggttggcagacaattttgtt	12	6	0	3			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr14:42355997C>T	ENST00000298119.4	+	3	1358	c.169C>T	c.(169-171)Cgg>Tgg	p.R57W	LRFN5_ENST00000554120.1_Missense_Mutation_p.R57W|LRFN5_ENST00000554171.1_Missense_Mutation_p.R57W	NM_152447.3	NP_689660.2	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III domain containing 5	57						integral component of membrane (GO:0016021)				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)		TGTGGAACTGCGGTTGGCAGA	0.383										HNSCC(30;0.082)																																						0													64	58	60					14																	42355997		2203	4300	6503	SO:0001583	missense	145581			AK055365	CCDS9678.1	14q21.1	2013-02-11	2004-02-02	2004-02-04	ENSG00000165379	ENSG00000165379		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	20360	protein-coding gene	gene with protein product	"fibronectin type III, immunoglobulin and leucine rich repeat domains 8"	612811	"chromosome 14 open reading frame 146"	C14orf146		16828986	Standard	NM_152447		Approved	FIGLER8, SALM5	uc001wvm.3	Q96NI6	OTTHUMG00000140261	ENST00000298119.4:c.169C>T	14.37:g.42355997C>T	ENSP00000298119:p.Arg57Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B3KU78|Q86XL2	Missense_Mutation	SNP	ENST00000298119.4	37	CCDS9678.1	.	.	.	.	.	.	.	.	.	.	C	15.68	2.905412	0.52333	.	.	ENSG00000165379	ENST00000298119;ENST00000554120;ENST00000554171	T;T;T	0.52983	0.64;0.64;0.64	5.56	4.64	0.57946	.	0.000000	0.50627	D	0.000116	T	0.69214	0.3086	M	0.79805	2.47	0.58432	D	0.999998	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.999	T	0.73751	-0.3884	10	0.72032	D	0.01	.	13.2597	0.60098	0.16:0.84:0.0:0.0	.	57;57	G3V364;Q96NI6	.;LRFN5_HUMAN	W	57	ENSP00000298119:R57W;ENSP00000451897:R57W;ENSP00000451067:R57W	ENSP00000298119:R57W	R	+	1	2	LRFN5	41425747	1.000000	0.71417	0.998000	0.56505	0.971000	0.66376	3.226000	0.51254	1.276000	0.44395	0.650000	0.86243	CGG		0.383	LRFN5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276786.1	NM_152447		T	42355997	C	T	42355997	3	4	662	1	0	0	0	0	1	0	0	0	8948	759	27	1	171	1	LRFN5	14	42355997	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10		42355997	64993543	55	41146										
SYT16	83851	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr14	62462902	62462902	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ttgagtgacaaactagatcaGgacttagataatattcagat	8	5	2	5			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr14:62462902G>T	ENST00000430451.2	+	1	362	c.165G>T	c.(163-165)caG>caT	p.Q55H	SYT16_ENST00000446982.2_Missense_Mutation_p.Q55H	NM_031914.2	NP_114120.2	Q17RD7	SYT16_HUMAN	synaptotagmin XVI	55					exocytosis (GO:0006887)					central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(11)|lung(12)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	35				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		AACTAGATCAGGACTTAGATA	0.388																																																0													138	134	135					14																	62462902		1867	4116	5983	SO:0001583	missense	83851			BC040924	CCDS45121.1	14q23.2	2014-07-02	2005-07-15	2005-07-15	ENSG00000139973	ENSG00000139973		"Synaptotagmins"	23142	protein-coding gene	gene with protein product	"synaptotagmin XIV-related", " chr14 synaptotagmin"	610950	"synaptotagmin XIV-like"	SYT14L		11543631	Standard	NM_031914		Approved	yt14r, CHR14SYT, Strep14	uc001xfu.1	Q17RD7	OTTHUMG00000171106	ENST00000430451.2:c.165G>T	14.37:g.62462902G>T	ENSP00000394700:p.Gln55His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZH2|B7ZL60|C9J8I3|Q707N2|Q7Z441|Q8IUU0|Q9BQR8	Missense_Mutation	SNP	ENST00000430451.2	37	CCDS45121.1	.	.	.	.	.	.	.	.	.	.	G	13.11	2.140061	0.37728	.	.	ENSG00000139973	ENST00000446982;ENST00000430451	T;T	0.36520	1.25;3.57	5.34	4.37	0.52481	.	0.000000	0.46442	D	0.000297	T	0.49525	0.1562	L	0.51422	1.61	0.23287	N	0.997971	D;D	0.89917	1.0;0.99	D;P	0.70935	0.971;0.707	T	0.33007	-0.9885	10	0.72032	D	0.01	-14.5578	9.808	0.40805	0.1467:0.0:0.8533:0.0	.	55;55	B4DZH2;Q17RD7	.;SYT16_HUMAN	H	55	ENSP00000388023:Q55H;ENSP00000394700:Q55H	ENSP00000394700:Q55H	Q	+	3	2	SYT16	61532655	1.000000	0.71417	1.000000	0.80357	0.575000	0.36095	2.327000	0.43858	2.776000	0.95493	0.650000	0.86243	CAG		0.388	SYT16-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000411700.1	NM_031914		T	62462902	G	T	62462902	3	4	662	1	0	0	0	0	1	0	0	0	15484	991	35	4	167	4	SYT16	14	62462902	Missense_Mutation	SNP	G	TCGA-KN-8426-01A-11D-2310-10	20106905	62462902	44886638	56	41147										
PLEKHG3	26030	broad.mit.edu	37	chr14	65194463	65194464	+	Frame_Shift_Ins	INS	-	-	C													0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gtcgcagtgccatggaggagINScccagcagctccgaggctcc							TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr14:65194463_65194464insC	ENST00000394691.1	+	2	261_262	c.114_115insC	c.(115-117)cccfs	p.P39fs	PLEKHG3_ENST00000247226.7_Frame_Shift_Ins_p.P39fs			A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G (with RhoGef domain) member 3	39	Ser-rich.						Rho guanyl-nucleotide exchange factor activity (GO:0005089)			endometrium(5)|kidney(2)|large_intestine(1)|lung(14)|prostate(2)|skin(3)|urinary_tract(2)	29				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		CCATGGAGGAGCCCAGCAGCTC	0.644																																																0																																										SO:0001589	frameshift_variant	26030			AB011171	CCDS32098.1	14q23.3	2013-01-10	2004-12-01	2004-12-01	ENSG00000126822	ENSG00000126822		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	20364	protein-coding gene	gene with protein product			"KIAA0599"	KIAA0599			Standard	XM_005267511		Approved	ARHGEF43	uc001xhp.2	A1L390	OTTHUMG00000029671	ENST00000394691.1:c.117dupC	14.37:g.65194466_65194466dupC	ENSP00000378183:p.Pro39fs	Somatic		WXS	Illumina HiSeq	Phase_I	A1L389|B5MEC9|O60339|Q6GMS3|Q6P4B1|Q7L3S3|Q86SW7|Q8TEF5|Q96EW6|Q9BT82	Frame_Shift_Ins	INS	ENST00000394691.1	37																																																																																					0.644	PLEKHG3-010	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000412028.1	NM_015549		C	65194464	-	C	65194463	7	5	662	1	0	1	1	0	0	0	0	0	12077	962	34	0	116	0	PLEKHG3	14	65194463	Frame_Shift_Ins	INS	-	TCGA-KN-8426-01A-11D-2310-10	2731561	65194463	42155077	57	41148										
TRIP11	9321	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	92471894	92471894	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	aaatttctttcttgtttataAgttgtgtcaactgcttctgc	6	7	4	0			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr14:92471894A>C	ENST00000267622.4	-	11	2799	c.2426T>G	c.(2425-2427)cTt>cGt	p.L809R		NM_004239.3	NP_004230.2	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	809					protein targeting to Golgi (GO:0000042)|regulation of RNA biosynthetic process (GO:2001141)|transcription from RNA polymerase II promoter (GO:0006366)|ventricular septum development (GO:0003281)	acrosomal membrane (GO:0002080)|cis-Golgi network (GO:0005801)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)			breast(3)|central_nervous_system(2)|endometrium(1)|kidney(8)|large_intestine(12)|lung(17)|ovary(7)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	58				COAD - Colon adenocarcinoma(157;0.223)		CTTGTTTATAAGTTGTGTCAA	0.318			T	PDGFRB	AML																																Ovarian(84;609 1888 9852 42686)		Dom	yes		14	14q31-q32	9321	thyroid hormone receptor interactor 11		L	0													87	93	91					14																	92471894		2203	4300	6503	SO:0001583	missense	9321			L40380	CCDS9899.1	14q31-q32	2008-05-02				ENSG00000100815			12305	protein-coding gene	gene with protein product		604505				7776974, 9373237	Standard	NM_004239		Approved	CEV14, Trip230, GMAP-210	uc001xzy.3	Q15643		ENST00000267622.4:c.2426T>G	14.37:g.92471894A>C	ENSP00000267622:p.Leu809Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RUT2|O14689|O15154|O95949	Missense_Mutation	SNP	ENST00000267622.4	37	CCDS9899.1	.	.	.	.	.	.	.	.	.	.	A	9.614	1.131949	0.21041	.	.	ENSG00000100815	ENST00000267622;ENST00000542257	T	0.10005	2.92	5.77	4.6	0.57074	.	0.211258	0.41396	N	0.000885	T	0.26846	0.0657	M	0.66939	2.045	0.49687	D	0.999814	P;D	0.76494	0.565;0.999	B;D	0.70935	0.16;0.971	T	0.04870	-1.0921	10	0.16420	T	0.52	.	12.8783	0.58001	0.864:0.136:0.0:0.0	.	545;809	F5H1Z0;Q15643	.;TRIPB_HUMAN	R	809;545	ENSP00000267622:L809R	ENSP00000267622:L809R	L	-	2	0	TRIP11	91541647	0.998000	0.40836	0.004000	0.12327	0.073000	0.16967	5.005000	0.63972	0.970000	0.38263	0.254000	0.18369	CTT		0.318	TRIP11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411823.1			C	92471894	A	C	92471894	3	2	662	1	0	0	0	0	1	0	0	0	16567	72	3	5	3557	5	TRIP11	14	92471894	Missense_Mutation	SNP	A	TCGA-KN-8426-01A-11D-2310-10	27277431	92471894	14877646	58	41149										
NIPA2	81614	broad.mit.edu	37	chr15	23006232	23006232	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	acacctttcttaaaaagctgTcagatttccatttcttcggg	6	10	3	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr15:23006232T>C	ENST00000337451.3	-	8	1684	c.1072A>G	c.(1072-1074)Aca>Gca	p.T358A	NIPA2_ENST00000398013.3_Missense_Mutation_p.T358A|NIPA2_ENST00000398014.2_Missense_Mutation_p.T358A|NIPA2_ENST00000359727.4_Missense_Mutation_p.T339A|NIPA2_ENST00000539711.2_Missense_Mutation_p.T339A	NM_030922.6	NP_112184.4	Q8N8Q9	NIPA2_HUMAN	non imprinted in Prader-Willi/Angelman syndrome 2	358						early endosome (GO:0005769)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	magnesium ion transmembrane transporter activity (GO:0015095)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(2)|prostate(4)|skin(1)	15		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;1.48e-06)|Epithelial(43;1.44e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000353)		TAAAAAGCTGTCAGATTTCCA	0.318																																																0													56	58	57					15																	23006232		2203	4299	6502	SO:0001583	missense	81614			AY732242	CCDS73693.1, CCDS73694.1	15q11.2	2008-02-05			ENSG00000140157	ENSG00000140157			17044	protein-coding gene	gene with protein product		608146				14508708	Standard	NM_001008860		Approved		uc001yuz.3	Q8N8Q9	OTTHUMG00000129101	ENST00000337451.3:c.1072A>G	15.37:g.23006232T>C	ENSP00000337618:p.Thr358Ala	Somatic		WXS	Illumina HiSeq	Phase_I	F8W7Y8|Q96F03|Q9BVS2	Missense_Mutation	SNP	ENST00000337451.3	37	CCDS10010.1	.	.	.	.	.	.	.	.	.	.	T	10.10	1.258288	0.23051	.	.	ENSG00000140157	ENST00000337451;ENST00000398014;ENST00000359727;ENST00000539711;ENST00000398013	D;D;D;D	0.89939	-2.59;-2.59;-2.59;-2.59	5.76	-8.9	0.00782	.	0.726605	0.14377	N	0.323405	T	0.66297	0.2775	N	0.08118	0	0.20074	N	0.999935	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.001	T	0.58814	-0.7570	10	0.19590	T	0.45	-5.4043	4.4746	0.11729	0.3697:0.4077:0.0876:0.135	.	339;358	F8W7Y8;Q8N8Q9	.;NIPA2_HUMAN	A	358;358;339;358;339	ENSP00000337618:T358A;ENSP00000381096:T358A;ENSP00000352762:T339A;ENSP00000381095:T339A	ENSP00000337618:T358A	T	-	1	0	NIPA2	20557673	0.895000	0.30542	0.064000	0.19789	0.726000	0.41606	-0.125000	0.10579	-1.658000	0.01490	-1.100000	0.02121	ACA		0.318	NIPA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251137.1	NM_030922		C	23006232	T	C	23006232	3	2	662	1	0	0	0	0	1	0	0	0	10430	1667	58	3	14	3	NIPA2	15	23006232	Missense_Mutation	SNP	T	TCGA-KN-8426-01A-11D-2310-10		23006232	79525160	59	41150										
FMN1	342184	broad.mit.edu	37	chr15	33261112	33261113	+	Frame_Shift_Ins	INS	-	-	G													0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gtggggcaggggagttaggaINSagtgggggtgggggtggggg							TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr15:33261112_33261113insG	ENST00000559047.1	-	5	2788_2789	c.2789_2790insC	c.(2788-2790)cttfs	p.L930fs	FMN1_ENST00000561249.1_Frame_Shift_Ins_p.L832fs|FMN1_ENST00000334528.9_Frame_Shift_Ins_p.L707fs|SNORD77_ENST00000391113.1_RNA			Q68DA7	FMN1_HUMAN	formin 1	930	FH1.|Pro-rich.				actin nucleation (GO:0045010)	actin filament (GO:0005884)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(3)|lung(14)|ovary(2)|prostate(1)|upper_aerodigestive_tract(3)	29		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)		GGGAGTTAGGAAgtgggggtgg	0.668																																																0																																										SO:0001589	frameshift_variant	342184			AH002864	CCDS45209.1, CCDS61581.1, CCDS61582.1	15q13.3	2013-06-13	2005-01-20	2005-01-22	ENSG00000248905	ENSG00000248905			3768	protein-coding gene	gene with protein product	"limb deformity protein"	136535	"formin (limb deformity)"	LD, FMN		1673046	Standard	NM_001277313		Approved	DKFZP686C2281, FLJ45135, MGC125288, MGC125289	uc031qrh.1	Q68DA7	OTTHUMG00000172201	ENST00000559047.1:c.2789_2790insC	15.37:g.33261112_33261113insG	ENSP00000454047:p.Leu930fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q3B7I6|Q3ZAR4|Q6ZSY1	Frame_Shift_Ins	INS	ENST00000559047.1	37																																																																																					0.668	FMN1-005	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000417414.1	NM_001103184		G	33261113	-	G	33261112	7	5	662	1	0	1	1	0	0	0	0	0	5956	233	9	0	1525	0	FMN1	15	33261112	Frame_Shift_Ins	INS	-	TCGA-KN-8426-01A-11D-2310-10	10254880	33261112	69270280	60	41151										
ZFP106	64397	broad.mit.edu	37	chr15	42734362	42734362	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tgttcaggagacatgggctcTtgtttaatctgaactgatga	11	6	3	4			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr15:42734362T>C	ENST00000263805.4	-	7	3929	c.3603A>G	c.(3601-3603)caA>caG	p.Q1201Q	ZNF106_ENST00000565380.1_Silent_p.Q429Q|ZNF106_ENST00000565611.1_Silent_p.Q386Q	NM_001284306.1|NM_001284307.1|NM_022473.1	NP_001271235.1|NP_001271236.1|NP_071918.1	Q9H2Y7	ZN106_HUMAN	zinc finger protein 106	1201					insulin receptor signaling pathway (GO:0008286)	cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)										ACATGGGCTCTTGTTTAATCT	0.478																																																0													165	151	155					15																	42734362		2203	4299	6502	SO:0001819	synonymous_variant	64397			AF205632	CCDS32208.1, CCDS61602.1, CCDS61603.1	15q15.1	2012-11-27	2012-11-27		ENSG00000103994	ENSG00000103994		"Zinc fingers, C2H2-type"	12886	protein-coding gene	gene with protein product	"SH3-domain binding protein 3"		"zinc finger protein 106 homolog (mouse)"	ZFP106			Standard	XM_005254591		Approved	ZNF474, SH3BP3	uc001zpw.3	Q9H2Y7	OTTHUMG00000173244	ENST00000263805.4:c.3603A>G	15.37:g.42734362T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ40|E9PE29|Q6NSD9|Q6PEK1|Q86T43|Q86T45|Q86T50|Q86T58|Q86TA9|Q96M37|Q9H7B8	Silent	SNP	ENST00000263805.4	37	CCDS32208.1																																																																																				0.478	ZNF106-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000422587.1	NM_022473		C	42734362	T	C	42734362	2	2	662	1	0	0	0	0	0	0	0	1	17649	1606	56	3		3	ZFP106	15	42734362	Silent	SNP	T	TCGA-KN-8426-01A-11D-2310-10	9473250	42734362	59797030	61	41152										
TPSAB1	7177	mdanderson.org	37	chr16	1291269	1291269	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ccatactggatgcacttctgCgggggctccctcatccaccc	9	17	2	0	rs200858385		TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr16:1291269C>T	ENST00000338844.3	+	3	210	c.177C>T	c.(175-177)tgC>tgT	p.C59C	TPSAB1_ENST00000461509.2_Silent_p.C66C	NM_003294.3	NP_003285.2	Q15661	TRYB1_HUMAN	tryptase alpha/beta 1	59	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				defense response (GO:0006952)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			NS(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(4)|skin(1)	10		Hepatocellular(780;0.00369)				TGCACTTCTGCGGGGGCTCCC	0.692																																																0																																										SO:0001819	synonymous_variant	7177			M33494	CCDS10431.1	16p13.3	2009-11-13	2004-10-14	2004-10-15	ENSG00000172236	ENSG00000172236			12019	protein-coding gene	gene with protein product	"tryptase alpha II", "tryptase beta I", "tryptase-I", "tryptase-II", "tryptase-III"	191080	"tryptase beta 1"	TPSB1, TPS1, TPS2		2203827, 9920877	Standard	NM_003294		Approved		uc002ckz.3	Q15661	OTTHUMG00000090467	ENST00000338844.3:c.177C>T	16.37:g.1291269C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D2E6R9|D2E6S1|P15157|Q15663|Q6B052|Q9H2Y4|Q9H2Y5|Q9UQI1	Silent	SNP	ENST00000338844.3	37	CCDS10431.1																																																																																				0.692	TPSAB1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000206914.1	NM_003294		T	1291269	C	T	1291269	2	4	662	1	0	0	0	0	0	0	0	1	16435	776	27	1		1	TPSAB1	16	1291269	Silent	SNP	C	TCGA-KN-8426-01A-11D-2310-10		1291269	89063484	62	41153										
TPSD1	23430	mdanderson.org	37	chr16	1306665	1306665	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	atccacccccagtgggtgctAaccgcggcgcactgcgtgga	13	15	0	0	rs3993988		TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr16:1306665A>G	ENST00000211076.3	+	2	379	c.231A>G	c.(229-231)ctA>ctG	p.L77L	RP11-616M22.5_ENST00000566997.1_RNA|TPSD1_ENST00000397534.2_Silent_p.L70L	NM_012217.2	NP_036349.1	Q9BZJ3	TRYD_HUMAN	tryptase delta 1	77	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.					extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(9)|skin(1)|stomach(2)|upper_aerodigestive_tract(3)	20		Hepatocellular(780;0.00369)				AGTGGGTGCTAACCGCGGCGC	0.701																																																0													47	57	54					16																	1306665		2199	4299	6498	SO:0001819	synonymous_variant	23430			AF206664	CCDS10432.1	16p13.3	2008-07-29			ENSG00000095917	ENSG00000095917	3.4.21.59		14118	protein-coding gene	gene with protein product	"mMCP-7-like II", "mMCP-7-like I", "MMCP-7-LIKE-2"	609272				9920877	Standard	NM_012217		Approved		uc002clb.1	Q9BZJ3	OTTHUMG00000128511	ENST00000211076.3:c.231A>G	16.37:g.1306665A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O95824|Q8TDI6|Q96L36|Q96RZ5|Q9H2Y6|Q9UQI8	Silent	SNP	ENST00000211076.3	37	CCDS10432.1																																																																																				0.701	TPSD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250320.2			G	1306665	A	G	1306665	2	3	662	1	0	0	0	0	0	0	0	1	16437	349	13	3		3	TPSD1	16	1306665	Silent	SNP	A	TCGA-KN-8426-01A-11D-2310-10	15396	1306665	89048088	63	41154										
DNAH3	55567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	21049160	21049160	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ccggagcagcaggacactttCattctcctctggatacttga	9	12	3	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr16:21049160C>A	ENST00000261383.3	-	34	4872	c.4873G>T	c.(4873-4875)Gaa>Taa	p.E1625*	DNAH3_ENST00000415178.1_Nonsense_Mutation_p.E1625*	NM_017539.1	NP_060009.1	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1625					cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|microtubule motor activity (GO:0003777)			NS(3)|autonomic_ganglia(1)|breast(12)|central_nervous_system(3)|cervix(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(4)|kidney(10)|large_intestine(42)|liver(2)|lung(57)|ovary(14)|pancreas(1)|prostate(7)|skin(11)|stomach(5)|upper_aerodigestive_tract(7)|urinary_tract(6)	202				GBM - Glioblastoma multiforme(48;0.207)		AGGACACTTTCATTCTCCTCT	0.507																																																0													136	110	119					16																	21049160		2201	4300	6501	SO:0001587	stop_gained	55567			U83574	CCDS10594.1	16p12.2	2008-08-01	2006-09-04		ENSG00000158486	ENSG00000158486		"Axonemal dyneins"	2949	protein-coding gene	gene with protein product		603334	"dynein, axonemal, heavy polypeptide 3"			9256245, 9373155	Standard	NM_017539		Approved	Dnahc3b, DLP3, Hsadhc3, DKFZp434N074	uc010vbe.2	Q8TD57	OTTHUMG00000090677	ENST00000261383.3:c.4873G>T	16.37:g.21049160C>A	ENSP00000261383:p.Glu1625*	Somatic		WXS	Illumina HiSeq	Phase_I	O00437|O15437|O43326|Q3C0H2|Q8WUP9|Q9UEM3|Q9UEM5|Q9UG35	Nonsense_Mutation	SNP	ENST00000261383.3	37	CCDS10594.1	.	.	.	.	.	.	.	.	.	.	C	45	11.822684	0.99607	.	.	ENSG00000158486	ENST00000261383;ENST00000415178	.	.	.	5.76	5.76	0.90799	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	.	19.9616	0.97254	0.0:1.0:0.0:0.0	.	.	.	.	X	1625	.	ENSP00000261383:E1625X	E	-	1	0	DNAH3	20956661	1.000000	0.71417	0.992000	0.48379	0.676000	0.39594	7.764000	0.85297	2.724000	0.93272	0.561000	0.74099	GAA		0.507	DNAH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207361.1	NM_017539		A	21049160	C	A	21049160	4	1	662	1	0	0	0	0	0	1	0	0	4605	835	29	4	7592	4	DNAH3	16	21049160	Nonsense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	19742495	21049160	69305593	64	41155										
QPRT	23475	hgsc.bcm.edu	37	chr16	29706448	29706448	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ctggtgggcggggccgcctcGcaccgctacgacctgggagg	18	14	0	0	rs569256152	byFrequency	TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr16:29706448G>T	ENST00000395384.4	+	2	638	c.477G>T	c.(475-477)tcG>tcT	p.S159S	QPRT_ENST00000219771.7_Intron|QPRT_ENST00000562473.1_Intron	NM_014298.3	NP_055113.2	Q15274	NADC_HUMAN	quinolinate phosphoribosyltransferase	159					NAD biosynthetic process (GO:0009435)|NAD metabolic process (GO:0019674)|protein oligomerization (GO:0051259)|quinolinate catabolic process (GO:0034213)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	nicotinate-nucleotide diphosphorylase (carboxylating) activity (GO:0004514)|protein homodimerization activity (GO:0042803)			breast(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(5)	9					Niacin(DB00627)	GGGCCGCCTCGCACCGCTACG	0.687													g|||	3	0.000599042	0.0	0.0	5008	,	,		11932	0.0		0.0	False		,,,				2504	0.0031															0													25	38	34					16																	29706448		2150	4242	6392	SO:0001819	synonymous_variant	23475			D78177	CCDS10651.1	16p11.2	2008-07-31	2008-07-31		ENSG00000103485	ENSG00000103485	2.4.2.19		9755	protein-coding gene	gene with protein product	"nicotinate-nucleotide pyrophosphorylase (carboxylating)"	606248				9473669	Standard	NM_014298		Approved	QPRTase	uc002dto.3	Q15274	OTTHUMG00000097770	ENST00000395384.4:c.477G>T	16.37:g.29706448G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q53XW7|Q96G22|Q9BSG6	Silent	SNP	ENST00000395384.4	37	CCDS10651.1																																																																																				0.687	QPRT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215011.2	NM_014298		T	29706448	G	T	29706448	2	4	662	1	0	0	0	0	0	0	0	1	12889	1074	38	4		4	QPRT	16	29706448	Silent	SNP	G	TCGA-KN-8426-01A-11D-2310-10	8657288	29706448	60648305	65	41156										
ZFHX3	463	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr16	72992269	72992269	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ttgtctttattggcactttcGtcagcgaagtccagcctcct	8	12	2	0	rs11075951	byFrequency	TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr16:72992269G>T	ENST00000268489.5	-	2	2448	c.1776C>A	c.(1774-1776)gaC>gaA	p.D592E	ZFHX3_ENST00000397992.5_Intron	NM_006885.3	NP_008816.3	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3	592					brain development (GO:0007420)|cell cycle arrest (GO:0007050)|muscle organ development (GO:0007517)|negative regulation of myoblast differentiation (GO:0045662)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of myoblast differentiation (GO:0045663)|regulation of neuron differentiation (GO:0045664)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	enzyme binding (GO:0019899)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)			NS(3)|breast(7)|cervix(2)|endometrium(18)|haematopoietic_and_lymphoid_tissue(5)|kidney(8)|large_intestine(22)|liver(1)|lung(46)|ovary(5)|pancreas(1)|prostate(15)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(11)	153		Ovarian(137;0.13)				TGGCACTTTCGTCAGCGAAGT	0.552																																																0													108	104	105					16																	72992269		2198	4300	6498	SO:0001583	missense	463			D10250	CCDS10908.1, CCDS54035.1	16q22.3	2012-03-09	2007-08-09	2007-08-09	ENSG00000140836	ENSG00000140836		"Zinc fingers, C2H2-type", "Homeoboxes / ZF class"	777	protein-coding gene	gene with protein product		104155	"AT-binding transcription factor 1"	ATBF1		1719379, 7592926	Standard	NM_006885		Approved	ZNF927	uc002fck.3	Q15911	OTTHUMG00000137599	ENST00000268489.5:c.1776C>A	16.37:g.72992269G>T	ENSP00000268489:p.Asp592Glu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DWS8|O15101|Q13719	Missense_Mutation	SNP	ENST00000268489.5	37	CCDS10908.1	.	.	.	.	.	.	.	.	.	.	G	4.385	0.071015	0.08436	.	.	ENSG00000140836	ENST00000268489	T	0.75260	-0.92	5.04	-1.87	0.07737	.	0.000000	0.52532	D	0.000080	T	0.53578	0.1805	N	0.17474	0.49	0.80722	D	1	P	0.37573	0.6	B	0.38985	0.287	T	0.40683	-0.9550	10	0.17369	T	0.5	.	11.3231	0.49435	0.6672:0.0:0.3328:0.0	.	592	Q15911	ZFHX3_HUMAN	E	592	ENSP00000268489:D592E	ENSP00000268489:D592E	D	-	3	2	ZFHX3	71549770	0.935000	0.31712	0.992000	0.48379	0.925000	0.55904	0.137000	0.15995	-0.231000	0.09825	-0.827000	0.03088	GAC		0.552	ZFHX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269008.1	NM_006885		T	72992269	G	T	72992269	3	4	662	1	0	0	0	0	1	0	0	0	17646	1136	40	4	9371	4	ZFHX3	16	72992269	Missense_Mutation	SNP	G	TCGA-KN-8426-01A-11D-2310-10	43285821	72992269	17362484	66	41157										
GALNS	2588	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	88889069	88889069	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gcttcgtgtggtcttccagaTtgtgagttgtgacccctgaa	12	9	1	4			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr16:88889069T>C	ENST00000268695.5	-	12	1380	c.1292A>G	c.(1291-1293)aAt>aGt	p.N431S	GALNS_ENST00000542788.1_Missense_Mutation_p.N356S	NM_000512.4	NP_000503.1	P34059	GALNS_HUMAN	galactosamine (N-acetyl)-6-sulfatase	431					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate catabolic process (GO:0042340)|keratan sulfate metabolic process (GO:0042339)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)	metal ion binding (GO:0046872)|N-acetylgalactosamine-4-sulfatase activity (GO:0003943)|N-acetylgalactosamine-6-sulfatase activity (GO:0043890)|sulfuric ester hydrolase activity (GO:0008484)			breast(1)|endometrium(4)|kidney(2)|large_intestine(7)|lung(8)	22				BRCA - Breast invasive adenocarcinoma(80;0.0496)		GTCTTCCAGATTGTGAGTTGT	0.617																																					GBM(129;1929 2344 25209 33204)											0													106	90	96					16																	88889069		2198	4299	6497	SO:0001583	missense	2588			D17629	CCDS10970.1	16q24.3	2014-07-03	2014-07-03		ENSG00000141012	ENSG00000141012	3.1.6.4	"Arylsulfatase family"	4122	protein-coding gene	gene with protein product	"Morquio syndrome", "mucopolysaccharidosis type IVA"	612222	"galactosamine (N-acetyl)-6-sulfate sulfatase"			1755850	Standard	NM_000512		Approved	GAS, GALNAC6S	uc002fly.4	P34059	OTTHUMG00000137862	ENST00000268695.5:c.1292A>G	16.37:g.88889069T>C	ENSP00000268695:p.Asn431Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q86VK3	Missense_Mutation	SNP	ENST00000268695.5	37	CCDS10970.1	.	.	.	.	.	.	.	.	.	.	T	0.007	-1.956637	0.00465	.	.	ENSG00000141012	ENST00000268695;ENST00000542788	D;D	0.89415	-2.51;-2.51	4.89	1.67	0.24075	Sulfatase (1);Alkaline-phosphatase-like, core domain (1);	0.751136	0.13268	N	0.400708	T	0.67711	0.2922	N	0.03608	-0.345	0.09310	N	0.999997	B;B	0.02656	0.0;0.0	B;B	0.08055	0.003;0.003	T	0.55952	-0.8059	10	0.08381	T	0.77	.	2.9126	0.05742	0.0864:0.2963:0.3381:0.2792	.	431;431	B2R6P1;P34059	.;GALNS_HUMAN	S	431;356	ENSP00000268695:N431S;ENSP00000438197:N356S	ENSP00000268695:N431S	N	-	2	0	GALNS	87416570	0.010000	0.17322	0.999000	0.59377	0.015000	0.08874	0.718000	0.25866	0.668000	0.31126	-0.795000	0.03280	AAT		0.617	GALNS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269543.1			C	88889069	T	C	88889069	3	2	662	1	0	0	0	0	1	0	0	0	6213	1493	52	3	288	3	GALNS	16	88889069	Missense_Mutation	SNP	T	TCGA-KN-8426-01A-11D-2310-10	15896800	88889069	1465684	67	41158										
POLDIP2	26073	broad.mit.edu	37	chr17	26677558	26677558	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ggagctgtaccacatcactgTcaaggttctccaaacggata	9	11	3	0			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr17:26677558T>C	ENST00000540200.1	-	10	814	c.815A>G	c.(814-816)gAc>gGc	p.D272G	POLDIP2_ENST00000003607.4_5'UTR	NM_015584.3	NP_056399.1	Q9Y2S7	PDIP2_HUMAN	polymerase (DNA-directed), delta interacting protein 2	273	ApaG. {ECO:0000255|PROSITE- ProRule:PRU00412}.				mitochondrion morphogenesis (GO:0070584)	mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	DNA binding (GO:0003677)					all_lung(13;0.000354)|Lung NSC(42;0.00115)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		CACATCACTGTCAAGGTTCTC	0.532																																																0													64	65	65					17																	26677558		1965	4169	6134	SO:0001583	missense	26073			AF077203	CCDS74018.1	17q11.2	2008-02-05			ENSG00000004142	ENSG00000004142			23781	protein-coding gene	gene with protein product		611519				12522211	Standard	NM_015584		Approved	PDIP38, DKFZP586F1524	uc002haz.3	Q9Y2S7	OTTHUMG00000132065	ENST00000540200.1:c.815A>G	17.37:g.26677558T>C	ENSP00000475924:p.Asp272Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2R846|Q96JE4	Missense_Mutation	SNP	ENST00000540200.1	37																																																																																					0.532	POLDIP2-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_015584		C	26677558	T	C	26677558	3	2	662	1	0	0	0	0	1	0	0	0	12201	1667	58	3	300	3	POLDIP2	17	26677558	Missense_Mutation	SNP	T	TCGA-KN-8426-01A-11D-2310-10		26677558	54517652	68	41159										
UTP6	55813	broad.mit.edu	37	chr17	30207665	30207665	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ttccggccgacctccactgcTttggcttgtttcgttgtagg	11	12	0	0			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr17:30207665T>C	ENST00000261708.4	-	11	1031	c.894A>G	c.(892-894)aaA>aaG	p.K298K	CTC-542B22.2_ENST00000583236.1_lincRNA	NM_018428.2	NP_060898.2	Q9NYH9	UTP6_HUMAN	UTP6, small subunit (SSU) processome component, homolog (yeast)	298					rRNA processing (GO:0006364)	nucleolus (GO:0005730)				breast(1)|endometrium(3)|kidney(1)|large_intestine(6)|lung(8)|ovary(1)|skin(1)	21		all_hematologic(16;0.0149)|Ovarian(249;0.021)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|Breast(31;0.231)				CCTCCACTGCTTTGGCTTGTT	0.502																																																0													196	174	181					17																	30207665		2203	4300	6503	SO:0001819	synonymous_variant	55813			AF116631	CCDS11269.1	17q11.2	2010-06-24	2006-05-16	2006-05-16	ENSG00000108651	ENSG00000108651			18279	protein-coding gene	gene with protein product	"hepatocellular carcinoma associated antigen 66"		"chromosome 17 open reading frame 40"	C17orf40		10843809, 16138909	Standard	NM_018428		Approved	HCA66	uc002hgr.3	Q9NYH9	OTTHUMG00000132815	ENST00000261708.4:c.894A>G	17.37:g.30207665T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IX96|Q96BL2|Q9NQ91	Silent	SNP	ENST00000261708.4	37	CCDS11269.1																																																																																				0.502	UTP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256265.2	NM_018428		C	30207665	T	C	30207665	2	2	662	1	0	0	0	0	0	0	0	1	17114	1606	56	3		3	UTP6	17	30207665	Silent	SNP	T	TCGA-KN-8426-01A-11D-2310-10	3530107	30207665	50987545	69	41160										
FAM134C	162427	ucsc.edu	37	chr17	40737279	40737279	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ggccacatcatgacagtgacAactgtgaggaggcatgggaa	14	8	1	3			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr17:40737279A>G	ENST00000309428.5	-	6	650	c.591T>C	c.(589-591)ctT>ctC	p.L197L	FAM134C_ENST00000543197.1_Splice_Site_p.L2L|FAM134C_ENST00000585894.1_Splice_Site_p.L100L	NM_178126.3	NP_835227.1	Q86VR2	F134C_HUMAN	family with sequence similarity 134, member C	197						integral component of membrane (GO:0016021)				endometrium(1)|large_intestine(3)|liver(1)|lung(2)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)	11		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.134)		TGACAGTGACAACTGTGAGGA	0.532																																																0													66	52	57					17																	40737279		2203	4300	6503	SO:0001630	splice_region_variant	162427			BC049370	CCDS11432.1	17q21.2	2007-05-01							27258	protein-coding gene	gene with protein product						12477932	Standard	NM_178126		Approved	DKFZp686B1036, FLJ33806	uc002ial.2	Q86VR2		ENST00000309428.5:c.590-1T>C	17.37:g.40737279A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KR75	Silent	SNP	ENST00000309428.5	37	CCDS11432.1																																																																																				0.532	FAM134C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450536.1	NM_178126	Silent	G	40737279	A	G	40737279	5	3	662	1	0	0	0	0	0	0	1	0	5451	144	5	3	825	3	FAM134C	17	40737279	Splice_Site	SNP	A	TCGA-KN-8426-01A-11D-2310-10	10529614	40737279	40457931	70	41161										
GJC1	10052	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr17	42882018	42882018	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	aatccagacggaggtcttccCatcccctgatttgctactgg	9	13	1	2			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr17:42882018C>A	ENST00000426548.1	-	3	1437	c.1168G>T	c.(1168-1170)Ggg>Tgg	p.G390W	GJC1_ENST00000330514.4_Missense_Mutation_p.G390W|GJC1_ENST00000590758.1_Missense_Mutation_p.G390W|GJC1_ENST00000592524.1_Missense_Mutation_p.G390W	NM_001080383.1|NM_005497.3	NP_001073852.1|NP_005488.2	P36383	CXG1_HUMAN	gap junction protein, gamma 1, 45kDa	390					atrial cardiac muscle cell action potential (GO:0086014)|cardiac muscle tissue development (GO:0048738)|cell development (GO:0048468)|cell-cell junction assembly (GO:0007043)|gap junction assembly (GO:0016264)|membrane organization (GO:0061024)|muscle contraction (GO:0006936)|synaptic transmission (GO:0007268)|transport (GO:0006810)|vasculogenesis (GO:0001570)|visual perception (GO:0007601)	connexon complex (GO:0005922)|endoplasmic reticulum membrane (GO:0005789)|gap junction (GO:0005921)|integral component of membrane (GO:0016021)|intercalated disc (GO:0014704)|plasma membrane (GO:0005886)	gap junction channel activity (GO:0005243)|ion channel activity (GO:0005216)			NS(1)|kidney(1)|large_intestine(5)|liver(1)|lung(10)|prostate(1)	19		Prostate(33;0.0959)				GAGGTCTTCCCATCCCCTGAT	0.493																																																0													134	126	129					17																	42882018		2203	4300	6503	SO:0001583	missense	10052			U03493	CCDS11487.1	17q21.31	2008-02-04	2007-11-06	2007-11-06		ENSG00000182963		"Ion channels / Gap junction proteins (connexins)"	4280	protein-coding gene	gene with protein product	"connexin 45"	608655	"gap junction protein, alpha 7, 45kDa"	GJA7		7966354	Standard	NM_005497		Approved	CX45	uc002ihl.3	P36383		ENST00000426548.1:c.1168G>T	17.37:g.42882018C>A	ENSP00000411528:p.Gly390Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B3KW68|Q4VAY0	Missense_Mutation	SNP	ENST00000426548.1	37	CCDS11487.1	.	.	.	.	.	.	.	.	.	.	C	18.93	3.728356	0.69074	.	.	ENSG00000182963	ENST00000426548;ENST00000330514	D;D	0.98455	-4.94;-4.94	5.48	5.48	0.80851	.	0.764469	0.12267	N	0.484156	D	0.98679	0.9557	L	0.55990	1.75	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	D	0.98871	1.0766	10	0.87932	D	0	.	18.3265	0.90256	0.0:1.0:0.0:0.0	.	390	P36383	CXG1_HUMAN	W	390	ENSP00000411528:G390W;ENSP00000333193:G390W	ENSP00000333193:G390W	G	-	1	0	GJC1	40237544	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.487000	0.81328	2.569000	0.86673	0.655000	0.94253	GGG		0.493	GJC1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000448661.1	NM_005497		A	42882018	C	A	42882018	3	1	662	1	0	0	0	0	1	0	0	0	6421	594	21	4	26	4	GJC1	17	42882018	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	2144739	42882018	38313192	71	41162										
SLC16A5	9121	bcgsc.ca	37	chr17	73102117	73102117	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	aaacggctctgggctggaatAgccctacctgagtgccctgt	12	12	1	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr17:73102117A>G	ENST00000450736.2	+	6	1922	c.1507A>G	c.(1507-1509)Agc>Ggc	p.S503G	SLC16A5_ENST00000329783.4_Missense_Mutation_p.S503G|SLC16A5_ENST00000580123.1_Missense_Mutation_p.S503G			O15375	MOT6_HUMAN	solute carrier family 16 (monocarboxylate transporter), member 5	503					monocarboxylic acid transport (GO:0015718)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	monocarboxylic acid transmembrane transporter activity (GO:0008028)|secondary active monocarboxylate transmembrane transporter activity (GO:0015355)|symporter activity (GO:0015293)			central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(1)|large_intestine(4)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	22	all_lung(278;0.226)		LUSC - Lung squamous cell carcinoma(166;0.162)|Lung(188;0.235)		Pyruvic acid(DB00119)	gggctggaatagccctacctg	0.542											OREG0024726	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													38	30	33					17																	73102117		2203	4300	6503	SO:0001583	missense	9121			U59299	CCDS11713.1	17q25.1	2013-07-18	2013-07-18		ENSG00000170190	ENSG00000170190		"Solute carriers"	10926	protein-coding gene	gene with protein product		603879	"solute carrier family 16 (monocarboxylic acid transporters), member 5", "solute carrier family 16, member 5 (monocarboxylic acid transporter 6)"			9425115	Standard	NM_004695		Approved	MCT5, MCT6	uc002jmr.4	O15375	OTTHUMG00000179277	ENST00000450736.2:c.1507A>G	17.37:g.73102117A>G	ENSP00000390564:p.Ser503Gly	Somatic	1142	WXS	Illumina HiSeq	Phase_I	B4E288	Missense_Mutation	SNP	ENST00000450736.2	37	CCDS11713.1	.	.	.	.	.	.	.	.	.	.	A	9.218	1.032641	0.19590	.	.	ENSG00000170190	ENST00000329783;ENST00000450736	T;T	0.07444	3.19;3.19	2.82	-1.3	0.09259	.	.	.	.	.	T	0.04815	0.0130	N	0.08118	0	0.09310	N	0.999999	P	0.43392	0.805	P	0.45506	0.483	T	0.31806	-0.9930	9	0.87932	D	0	.	3.237	0.06768	0.3636:0.1957:0.0:0.4407	.	503	O15375	MOT6_HUMAN	G	503	ENSP00000330141:S503G;ENSP00000390564:S503G	ENSP00000330141:S503G	S	+	1	0	SLC16A5	70613712	0.001000	0.12720	0.000000	0.03702	0.002000	0.02628	0.341000	0.19909	-0.321000	0.08627	0.418000	0.28097	AGC		0.542	SLC16A5-004	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000445547.1	NM_004695		G	73102117	A	G	73102117	3	3	662	1	0	0	0	0	1	0	0	0	14424	420	15	3	1525	3	SLC16A5	17	73102117	Missense_Mutation	SNP	A	TCGA-KN-8426-01A-11D-2310-10	30220099	73102117	8093093	72	41163										
LMAN1	3998	bcgsc.ca	37	chr18	57000391	57000391	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gtgctctttgatgtcaatgaAgtgctgtgttgtctcataga	11	6	3	3			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr18:57000391A>G	ENST00000251047.5	-	11	2023	c.1306T>C	c.(1306-1308)Ttc>Ctc	p.F436L		NM_005570.3	NP_005561.1	P49257	LMAN1_HUMAN	lectin, mannose-binding, 1	436					blood coagulation (GO:0007596)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum organization (GO:0007029)|ER to Golgi vesicle-mediated transport (GO:0006888)|Golgi organization (GO:0007030)|positive regulation of organelle organization (GO:0010638)|post-translational protein modification (GO:0043687)|protein folding (GO:0006457)|protein N-linked glycosylation via asparagine (GO:0018279)|protein transport (GO:0015031)	endoplasmic reticulum membrane (GO:0005789)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|ER to Golgi transport vesicle membrane (GO:0012507)|extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|sarcomere (GO:0030017)	mannose binding (GO:0005537)|metal ion binding (GO:0046872)|unfolded protein binding (GO:0051082)			breast(2)|endometrium(1)|kidney(2)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)|skin(1)	16		Colorectal(73;0.0946)			Antihemophilic Factor(DB00025)	ATGTCAATGAAGTGCTGTGTT	0.423																																																0													87	82	84					18																	57000391		2203	4300	6503	SO:0001583	missense	3998			X71661	CCDS11974.1	18q21.3-q22	2014-09-17	2002-08-30		ENSG00000074695	ENSG00000074695			6631	protein-coding gene	gene with protein product	"endoplasmic reticulum-golgi intermediate compartment protein 53"	601567	"coagulation factor V-factor VIII combined deficiency"	F5F8D		9546392, 8854877	Standard	NM_005570		Approved	MR60, ERGIC-53, ERGIC53, gp58, MCFD1, FMFD1	uc002lhz.3	P49257	OTTHUMG00000132758	ENST00000251047.5:c.1306T>C	18.37:g.57000391A>G	ENSP00000251047:p.Phe436Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q12895|Q8N5I7|Q9UQG1|Q9UQG2|Q9UQG3|Q9UQG4|Q9UQG5|Q9UQG6|Q9UQG7|Q9UQG8|Q9UQG9|Q9UQH0|Q9UQH1|Q9UQH2	Missense_Mutation	SNP	ENST00000251047.5	37	CCDS11974.1	.	.	.	.	.	.	.	.	.	.	A	13.44	2.238027	0.39598	.	.	ENSG00000074695	ENST00000251047	T	0.55234	0.53	5.87	5.87	0.94306	.	0.000000	0.85682	D	0.000000	T	0.57431	0.2053	M	0.61703	1.905	0.80722	D	1	P	0.45634	0.863	P	0.46885	0.53	T	0.54622	-0.8266	10	0.25106	T	0.35	-12.9726	15.942	0.79763	1.0:0.0:0.0:0.0	.	436	P49257	LMAN1_HUMAN	L	436	ENSP00000251047:F436L	ENSP00000251047:F436L	F	-	1	0	LMAN1	55151371	1.000000	0.71417	1.000000	0.80357	0.059000	0.15707	8.923000	0.92808	2.248000	0.74166	0.533000	0.62120	TTC		0.423	LMAN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256129.2	NM_005570		G	57000391	A	G	57000391	3	3	662	1	0	0	0	0	1	0	0	0	8843	72	3	3	238	3	LMAN1	18	57000391	Missense_Mutation	SNP	A	TCGA-KN-8426-01A-11D-2310-10		57000391	21076857	73	41164										
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	8966765	8966765	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tctactctccgagccagtggCgagaagttacacagggagtc	12	11	2	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr19:8966765C>T	ENST00000397910.4	-	81	43391	c.43188G>A	c.(43186-43188)tcG>tcA	p.S14396S	MUC16_ENST00000380951.5_Silent_p.S1037S	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	14494				Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						GAGCCAGTGGCGAGAAGTTAC	0.527																																																0													27	31	29					19																	8966765		1958	4136	6094	SO:0001819	synonymous_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.43188G>A	19.37:g.8966765C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Silent	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	c	1.585	-0.530574	0.04112	.	.	ENSG00000181143	ENST00000542240	.	.	.	4.22	-0.708	0.11241	.	1.029670	0.07728	N	0.944810	T	0.27663	0.0680	.	.	.	.	.	.	.	.	.	.	.	.	T	0.33929	-0.9849	4	.	.	.	.	4.1107	0.10057	0.0:0.3062:0.1787:0.5151	.	.	.	.	H	1219	.	.	R	-	2	0	MUC16	8827765	0.000000	0.05858	0.017000	0.16124	0.013000	0.08279	-3.159000	0.00578	-0.283000	0.09115	-1.295000	0.01343	CGC		0.527	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		T	8966765	C	T	8966765	2	4	662	1	0	0	0	0	0	0	0	1	9980	755	27	1		1	MUC16	19	8966765	Silent	SNP	C	TCGA-KN-8426-01A-11D-2310-10		8966765	50162218	74	41165										
SMARCA4	6597	broad.mit.edu	37	chr19	11096982	11096982	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tgccccgctggatggtgctgAcccccaggccttggggcagc	15	15	0	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr19:11096982A>G	ENST00000429416.3	+	5	754	c.473A>G	c.(472-474)gAc>gGc	p.D158G	SMARCA4_ENST00000358026.2_Missense_Mutation_p.D158G|SMARCA4_ENST00000541122.2_Missense_Mutation_p.D158G|SMARCA4_ENST00000450717.3_Missense_Mutation_p.D158G|SMARCA4_ENST00000444061.3_Missense_Mutation_p.D158G|SMARCA4_ENST00000344626.4_Missense_Mutation_p.D158G|SMARCA4_ENST00000413806.3_Missense_Mutation_p.D158G|SMARCA4_ENST00000589677.1_Missense_Mutation_p.D158G|SMARCA4_ENST00000590574.1_Missense_Mutation_p.D158G	NM_001128844.1	NP_001122316.1	P51532	SMCA4_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4	158	Necessary for interaction with SS18L1/CREST. {ECO:0000250}.				aortic smooth muscle cell differentiation (GO:0035887)|ATP catabolic process (GO:0006200)|ATP-dependent chromatin remodeling (GO:0043044)|blastocyst growth (GO:0001832)|blastocyst hatching (GO:0001835)|cell morphogenesis (GO:0000902)|chromatin remodeling (GO:0006338)|definitive erythrocyte differentiation (GO:0060318)|DNA methylation on cytosine within a CG sequence (GO:0010424)|embryonic hindlimb morphogenesis (GO:0035116)|embryonic organ morphogenesis (GO:0048562)|epidermis morphogenesis (GO:0048730)|extracellular matrix organization (GO:0030198)|forebrain development (GO:0030900)|glial cell fate determination (GO:0007403)|heart trabecula formation (GO:0060347)|hindbrain development (GO:0030902)|histone H3 acetylation (GO:0043966)|keratinocyte differentiation (GO:0030216)|lens fiber cell development (GO:0070307)|liver development (GO:0001889)|methylation-dependent chromatin silencing (GO:0006346)|negative regulation of androgen receptor signaling pathway (GO:0060766)|negative regulation of cell growth (GO:0030308)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription from RNA polymerase II promoter during mitosis (GO:0007070)|negative regulation of transcription, DNA-templated (GO:0045892)|neural retina development (GO:0003407)|nucleosome disassembly (GO:0006337)|positive regulation by host of viral transcription (GO:0043923)|positive regulation of DNA binding (GO:0043388)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|stem cell maintenance (GO:0019827)|vasculogenesis (GO:0001570)	extracellular space (GO:0005615)|heterochromatin (GO:0000792)|membrane (GO:0016020)|nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nuclear euchromatin (GO:0005719)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perichromatin fibrils (GO:0005726)|protein complex (GO:0043234)|SWI/SNF complex (GO:0016514)	androgen receptor binding (GO:0050681)|ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA-dependent ATPase activity (GO:0008094)|helicase activity (GO:0004386)|lysine-acetylated histone binding (GO:0070577)|p53 binding (GO:0002039)|protein N-terminus binding (GO:0047485)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription coactivator activity (GO:0001105)|Tat protein binding (GO:0030957)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)	p.?(1)		adrenal_gland(1)|autonomic_ganglia(1)|breast(6)|central_nervous_system(23)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(16)|liver(4)|lung(60)|ovary(10)|pancreas(7)|prostate(3)|skin(8)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	163		all_lung(6;0.0512)|Lung NSC(9;0.0568)				GATGGTGCTGACCCCCAGGCC	0.642			"F, N, Mis"		NSCLC																																		Rec	yes		19	19p13.2	6597	"SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4"		E	1	Unknown(1)	lung(1)											28	28	28					19																	11096982		2203	4299	6502	SO:0001583	missense	6597			D26156	CCDS12253.1, CCDS45972.1, CCDS45973.1, CCDS54217.1, CCDS54218.1	19p13.3	2014-09-17	2006-11-09		ENSG00000127616	ENSG00000127616			11100	protein-coding gene	gene with protein product	"SNF2-like 4", "global transcription activator homologous sequence", "sucrose nonfermenting-like 4", "mitotic growth and transcription activator", "BRM/SWI2-related gene 1", "homeotic gene regulator", "nuclear protein GRB1", "brahma protein-like 1", "ATP-dependent helicase SMARCA4"	603254		SNF2L4		8208605	Standard	NM_003072		Approved	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786	uc010dxo.3	P51532	OTTHUMG00000169272	ENST00000429416.3:c.473A>G	19.37:g.11096982A>G	ENSP00000395654:p.Asp158Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B1A8Z4|B1A8Z5|B1A8Z6|B1A8Z7|E9PBR8|O95052|Q9HBD3	Missense_Mutation	SNP	ENST00000429416.3	37	CCDS12253.1	.	.	.	.	.	.	.	.	.	.	A	8.408	0.843558	0.16963	.	.	ENSG00000127616	ENST00000429416;ENST00000358026;ENST00000421844;ENST00000344626;ENST00000541122;ENST00000444061;ENST00000450717;ENST00000413806	D;D;D;D;D;D;D	0.87103	-2.21;-2.2;-2.21;-2.21;-2.2;-2.21;-2.21	4.46	4.46	0.54185	.	0.122556	0.52532	D	0.000066	T	0.81093	0.4751	L	0.43152	1.355	0.37701	D	0.924203	B;B;B;P;B;B;B	0.37466	0.007;0.007;0.007;0.596;0.007;0.007;0.007	B;B;B;B;B;B;B	0.32289	0.007;0.007;0.007;0.143;0.007;0.012;0.012	D	0.84683	0.0718	10	0.56958	D	0.05	-46.7299	12.871	0.57965	1.0:0.0:0.0:0.0	.	158;158;158;158;158;158;158	B1A8Z6;B1A8Z4;B1A8Z7;Q9HBD4;B1A8Z5;A7E2E1;P51532	.;.;.;.;.;.;SMCA4_HUMAN	G	158	ENSP00000395654:D158G;ENSP00000350720:D158G;ENSP00000343896:D158G;ENSP00000445036:D158G;ENSP00000392837:D158G;ENSP00000397783:D158G;ENSP00000414727:D158G	ENSP00000343896:D158G	D	+	2	0	SMARCA4	10957982	1.000000	0.71417	0.917000	0.36280	0.019000	0.09904	7.120000	0.77153	1.877000	0.54381	0.460000	0.39030	GAC		0.642	SMARCA4-007	KNOWN	alternative_5_UTR|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000452638.2	NM_003072		G	11096982	A	G	11096982	3	3	662	1	0	0	0	0	1	0	0	0	14783	275	10	3	483	3	SMARCA4	19	11096982	Missense_Mutation	SNP	A	TCGA-KN-8426-01A-11D-2310-10	2130217	11096982	48032001	75	41166										
SPTBN4	57731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	41003434	41003434	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	cagcaaactcaccaagtccaAtgccaactacaacctgcaga	5	15	1	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr19:41003434A>G	ENST00000352632.3	+	7	793	c.707A>G	c.(706-708)aAt>aGt	p.N236S	SPTBN4_ENST00000598249.1_Missense_Mutation_p.N236S|SPTBN4_ENST00000344104.3_Missense_Mutation_p.N236S|SPTBN4_ENST00000338932.3_Missense_Mutation_p.N236S|SPTBN4_ENST00000595535.1_Missense_Mutation_p.N236S			Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4	236	Actin-binding.|CH 2. {ECO:0000255|PROSITE- ProRule:PRU00044}.				actin filament capping (GO:0051693)|adult walking behavior (GO:0007628)|axon guidance (GO:0007411)|axonogenesis (GO:0007409)|cardiac conduction (GO:0061337)|central nervous system projection neuron axonogenesis (GO:0021952)|clustering of voltage-gated sodium channels (GO:0045162)|cytoskeletal anchoring at plasma membrane (GO:0007016)|establishment of protein localization to plasma membrane (GO:0090002)|fertilization (GO:0009566)|negative regulation of heart rate (GO:0010459)|positive regulation of multicellular organism growth (GO:0040018)|regulation of peptidyl-serine phosphorylation (GO:0033135)|regulation of sodium ion transport (GO:0002028)|sensory perception of sound (GO:0007605)|transmission of nerve impulse (GO:0019226)|vesicle-mediated transport (GO:0016192)	adherens junction (GO:0005912)|axon hillock (GO:0043203)|axon initial segment (GO:0043194)|cell body fiber (GO:0070852)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|node of Ranvier (GO:0033268)|nuclear matrix (GO:0016363)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)|PML body (GO:0016605)|spectrin (GO:0008091)	actin binding (GO:0003779)|ankyrin binding (GO:0030506)|phosphatase binding (GO:0019902)|phospholipid binding (GO:0005543)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)			breast(4)|central_nervous_system(1)|endometrium(6)|kidney(7)|large_intestine(9)|lung(32)|ovary(3)|prostate(2)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	73			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			ACCAAGTCCAATGCCAACTAC	0.662																																																0													109	90	96					19																	41003434		2203	4300	6503	SO:0001583	missense	57731			AF082075	CCDS12559.1, CCDS42569.1	19q13.13	2013-01-10				ENSG00000160460		"Pleckstrin homology (PH) domain containing"	14896	protein-coding gene	gene with protein product		606214				11086001	Standard	NM_020971		Approved	SPTBN3, KIAA1642	uc002onz.3	Q9H254		ENST00000352632.3:c.707A>G	19.37:g.41003434A>G	ENSP00000263373:p.Asn236Ser	Somatic		WXS	Illumina HiSeq	Phase_I	E9PGQ5|Q9H1K7|Q9H1K8|Q9H1K9|Q9H253|Q9H3G8|Q9HCD0	Missense_Mutation	SNP	ENST00000352632.3	37	CCDS12559.1	.	.	.	.	.	.	.	.	.	.	A	16.12	3.033515	0.54896	.	.	ENSG00000160460	ENST00000428507;ENST00000352632;ENST00000338932;ENST00000344104	T;T;T	0.58358	0.34;0.34;0.34	3.92	3.92	0.45320	Calponin homology domain (5);	0.437819	0.18796	N	0.130913	T	0.60894	0.2304	L	0.43646	1.37	0.80722	D	1	B;P	0.51791	0.003;0.948	B;P	0.61940	0.007;0.896	T	0.60642	-0.7223	10	0.49607	T	0.09	.	11.9119	0.52743	1.0:0.0:0.0:0.0	.	236;236	Q9H254;Q71S06	SPTN4_HUMAN;.	S	236	ENSP00000263373:N236S;ENSP00000340345:N236S;ENSP00000340741:N236S	ENSP00000340345:N236S	N	+	2	0	SPTBN4	45695274	1.000000	0.71417	0.972000	0.41901	0.968000	0.65278	8.992000	0.93519	1.646000	0.50622	0.378000	0.23410	AAT		0.662	SPTBN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462559.2			G	41003434	A	G	41003434	3	3	662	1	0	0	0	0	1	0	0	0	15133	101	4	3	729	3	SPTBN4	19	41003434	Missense_Mutation	SNP	A	TCGA-KN-8426-01A-11D-2310-10	29906452	41003434	18125549	76	41167										
CEACAM5	1048	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr19	42225041	42225041	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gggacctatgcctgttttgtCtctaacttggctactggccg	11	11	1	0	rs149056934		TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr19:42225041C>G	ENST00000221992.6	+	8	2085	c.1971C>G	c.(1969-1971)gtC>gtG	p.V657V	CEA_ENST00000598976.1_Intron|CEACAM5_ENST00000405816.1_Silent_p.V657V|CEACAM5_ENST00000398599.4_Silent_p.V656V	NM_004363.2	NP_004354.2	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion molecule 5	657	Ig-like 7.				homotypic cell-cell adhesion (GO:0034109)|negative regulation of anoikis (GO:2000811)|negative regulation of apoptotic process (GO:0043066)|negative regulation of myotube differentiation (GO:0010832)	anchored component of membrane (GO:0031225)|basolateral plasma membrane (GO:0016323)|extracellular vesicular exosome (GO:0070062)|integral component of external side of plasma membrane (GO:0071575)|integral component of plasma membrane (GO:0005887)	GPI anchor binding (GO:0034235)|identical protein binding (GO:0042802)|protein homodimerization activity (GO:0042803)			breast(1)|endometrium(3)|kidney(5)|large_intestine(4)|lung(10)|ovary(2)|skin(7)|stomach(1)|urinary_tract(1)	34				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		CCTGTTTTGTCTCTAACTTGG	0.463																																																0													155	128	137					19																	42225041		2203	4300	6503	SO:0001819	synonymous_variant	1048			M17303	CCDS12584.1	19q13.1-q13.2	2013-01-29			ENSG00000105388	ENSG00000105388		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	1817	protein-coding gene	gene with protein product		114890		CEA			Standard	XM_005258413		Approved	CD66e	uc002orl.3	P06731	OTTHUMG00000151061	ENST00000221992.6:c.1971C>G	19.37:g.42225041C>G		Somatic		WXS	Illumina HiSeq	Phase_I	H9KVA7	Silent	SNP	ENST00000221992.6	37	CCDS12584.1	.	.	.	.	.	.	.	.	.	.	C	1.104	-0.660214	0.03454	.	.	ENSG00000105388	ENST00000398599	.	.	.	2.3	1.17	0.20885	.	.	.	.	.	T	0.31513	0.0799	.	.	.	0.09310	N	1	.	.	.	.	.	.	T	0.23833	-1.0177	4	.	.	.	.	6.6464	0.22936	0.0:0.6999:0.3001:0.0	.	.	.	.	V	653	.	.	L	+	1	0	CEACAM5	46916881	0.000000	0.05858	0.001000	0.08648	0.004000	0.04260	0.276000	0.18716	0.466000	0.27193	0.467000	0.42956	CTC		0.463	CEACAM5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000321132.2	NM_004363		G	42225041	C	G	42225041	2	3	662	1	0	0	0	0	0	0	0	1	3197	900	32	4		4	CEACAM5	19	42225041	Silent	SNP	C	TCGA-KN-8426-01A-11D-2310-10	1221607	42225041	16903942	77	41168										
ZNF155	7711	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	44500350	44500350	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tgcaaaagacttaaccaggtCtcaggactctatcataaata	6	9	3	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr19:44500350C>T	ENST00000270014.2	+	5	469	c.341C>T	c.(340-342)tCt>tTt	p.S114F	RP11-15A1.7_ENST00000589021.1_RNA|RP11-15A1.7_ENST00000586860.1_RNA|ZNF155_ENST00000407951.2_Missense_Mutation_p.S125F|ZNF155_ENST00000590615.1_Missense_Mutation_p.S114F	NM_001260487.1|NM_198089.2	NP_001247416|NP_932355	Q12901	ZN155_HUMAN	zinc finger protein 155	114					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(3)|kidney(2)|large_intestine(1)|lung(6)|ovary(1)|upper_aerodigestive_tract(2)	15		Prostate(69;0.0352)				TTAACCAGGTCTCAGGACTCT	0.448																																					NSCLC(61;554 1277 20909 42067 42312)											0													77	78	77					19																	44500350		2203	4300	6503	SO:0001583	missense	7711			U09852	CCDS12634.1, CCDS58668.1	19q13.2-q13.32	2013-01-08	2006-08-22			ENSG00000204920		"Zinc fingers, C2H2-type", "-"	12940	protein-coding gene	gene with protein product		604086	"zinc finger protein 155 (pHZ-96)"			7557990	Standard	NM_001260486		Approved	pHZ-96	uc010xwt.2	Q12901		ENST00000270014.2:c.341C>T	19.37:g.44500350C>T	ENSP00000270014:p.Ser114Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A2BDE6|B2RB63|B4DM95|J3KQ08|Q6AZZ8|Q9UIE1|Q9UK14	Missense_Mutation	SNP	ENST00000270014.2	37	CCDS12634.1	.	.	.	.	.	.	.	.	.	.	C	0.352	-0.944372	0.02322	.	.	ENSG00000204920	ENST00000407951;ENST00000270014	T;T	0.06218	3.36;3.33	2.23	-4.46	0.03536	.	.	.	.	.	T	0.02304	0.0071	N	0.11255	0.115	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.09377	0.004;0.002	T	0.45948	-0.9226	9	0.14252	T	0.57	.	1.8656	0.03198	0.1271:0.3627:0.2911:0.219	.	125;114	B4DM95;Q12901	.;ZN155_HUMAN	F	125;114	ENSP00000385163:S125F;ENSP00000270014:S114F	ENSP00000270014:S114F	S	+	2	0	ZNF155	49192190	0.000000	0.05858	0.000000	0.03702	0.178000	0.23041	-1.034000	0.03567	-1.407000	0.02043	0.462000	0.41574	TCT		0.448	ZNF155-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000460074.1	NM_003445		T	44500350	C	T	44500350	3	4	662	1	0	0	0	0	1	0	0	0	17748	913	32	2	355	2	ZNF155	19	44500350	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	2275309	44500350	14628633	78	41169										
LAIR1	3903	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr19	54875936	54875936	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	atggtctgggccaggcagagCactggaagagaagccccagt	15	10	1	2			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr19:54875936C>T	ENST00000391742.2	-	2	188	c.36G>A	c.(34-36)gtG>gtA	p.V12V	LAIR1_ENST00000348231.4_Splice_Site_p.V12V|LAIR1_ENST00000474878.1_Splice_Site_p.V12V|LAIR1_ENST00000391743.3_Intron|LAIR1_ENST00000434277.2_Splice_Site_p.V12V|LAIR1_ENST00000463489.1_5'UTR|LAIR1_ENST00000313038.6_Splice_Site_p.V6V			Q6GTX8	LAIR1_HUMAN	leukocyte-associated immunoglobulin-like receptor 1	12					immune system process (GO:0002376)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(1)|cervix(1)|endometrium(1)|large_intestine(6)|lung(9)|ovary(4)|prostate(1)|stomach(3)	26	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0573)		CCAGGCAGAGCACTGGAAGAG	0.612																																																0													76	70	72					19																	54875936		2203	4300	6503	SO:0001630	splice_region_variant	3903			AF013249	CCDS12891.1, CCDS12892.1, CCDS74448.1, CCDS74449.1, CCDS74450.1	19q13.4	2013-01-29	2006-03-23		ENSG00000167613	ENSG00000167613		"Leukocyte-associated Ig like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6477	protein-coding gene	gene with protein product		602992	"leukocyte-associated Ig-like receptor 1"			9285412	Standard	XM_005258924		Approved	CD305	uc002qfk.1	Q6GTX8	OTTHUMG00000065545	ENST00000391742.2:c.35-1G>A	19.37:g.54875936C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000391742.2	37	CCDS12891.1																																																																																				0.612	LAIR1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000140506.1		Silent	T	54875936	C	T	54875936	5	4	662	1	0	0	0	0	0	0	1	0	8609	724	25	2	863	2	LAIR1	19	54875936	Splice_Site	SNP	C	TCGA-KN-8426-01A-11D-2310-10	10375586	54875936	4253047	79	41170										
FAM83D	81610	ucsc.edu	37	chr20	37555032	37555032	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tgattcaaaggttgcctataAagcgggactgcacgccggtt	12	9	1	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr20:37555032A>G	ENST00000217429.4	+	1	78	c.37A>G	c.(37-39)Aag>Gag	p.K13E		NM_030919.2	NP_112181.2	Q9H4H8	FA83D_HUMAN	family with sequence similarity 83, member D	0					mitotic nuclear division (GO:0007067)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)				endometrium(2)|kidney(2)|large_intestine(7)|lung(12)|ovary(4)|stomach(1)	28		Myeloproliferative disorder(115;0.00878)				GTTGCCTATAAAGCGGGACTG	0.657											OREG0025936	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													22	26	25					20																	37555032		1874	4097	5971	SO:0001583	missense	81610			AL023803	CCDS42872.1	20q11.23	2014-03-13	2006-03-23	2006-03-23	ENSG00000101447	ENSG00000101447			16122	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 129"	C20orf129		23205133	Standard	NM_030919		Approved	dJ616B8.3	uc002xjg.3	Q9H4H8	OTTHUMG00000032462	ENST00000217429.4:c.37A>G	20.37:g.37555032A>G	ENSP00000217429:p.Lys13Glu	Somatic	871	WXS	Illumina HiSeq	Phase_I	B4E1I7|Q5THR2|Q68EN1|Q6P457|Q7Z6H0|Q96DF5|Q96N89|Q9BVM8	Missense_Mutation	SNP	ENST00000217429.4	37	CCDS42872.1	.	.	.	.	.	.	.	.	.	.	A	15.23	2.773002	0.49680	.	.	ENSG00000101447	ENST00000217429	T	0.12774	2.65	4.54	4.54	0.55810	.	2.012680	0.03311	N	0.190501	T	0.15522	0.0374	.	.	.	0.21740	N	0.999564	.	.	.	.	.	.	T	0.23619	-1.0183	7	0.36615	T	0.2	.	8.6845	0.34229	0.8302:0.0:0.0:0.1698	.	.	.	.	E	13	ENSP00000217429:K13E	ENSP00000217429:K13E	K	+	1	0	FAM83D	36988446	.	.	0.944000	0.38274	0.040000	0.13550	.	.	1.907000	0.55213	0.379000	0.24179	AAG		0.657	FAM83D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079211.1			G	37555032	A	G	37555032	3	3	662	1	0	0	0	0	1	0	0	0	5643	15	1	3	39	3	FAM83D	20	37555032	Missense_Mutation	SNP	A	TCGA-KN-8426-01A-11D-2310-10		37555032	25470488	80	41171										
MYH9	4627	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr22	36697638	36697638	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ccgcagccagctgcttctctCtgaccttcaccagctcctcc	6	20	3	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr22:36697638C>T	ENST00000216181.5	-	21	2803	c.2573G>A	c.(2572-2574)aGa>aAa	p.R858K		NM_002473.4	NP_002464.1	P35579	MYH9_HUMAN	myosin, heavy chain 9, non-muscle	858					actin cytoskeleton reorganization (GO:0031532)|actin filament-based movement (GO:0030048)|actomyosin structure organization (GO:0031032)|angiogenesis (GO:0001525)|ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|blood vessel endothelial cell migration (GO:0043534)|cytokinesis (GO:0000910)|establishment of meiotic spindle localization (GO:0051295)|establishment of T cell polarity (GO:0001768)|in utero embryonic development (GO:0001701)|integrin-mediated signaling pathway (GO:0007229)|leukocyte migration (GO:0050900)|meiotic spindle organization (GO:0000212)|membrane protein ectodomain proteolysis (GO:0006509)|monocyte differentiation (GO:0030224)|myoblast fusion (GO:0007520)|platelet aggregation (GO:0070527)|platelet formation (GO:0030220)|protein transport (GO:0015031)|regulation of cell shape (GO:0008360)|termination of G-protein coupled receptor signaling pathway (GO:0038032)|uropod organization (GO:0032796)	actin cytoskeleton (GO:0015629)|actomyosin (GO:0042641)|actomyosin contractile ring (GO:0005826)|cell leading edge (GO:0031252)|cell-cell adherens junction (GO:0005913)|cleavage furrow (GO:0032154)|cortical cytoskeleton (GO:0030863)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|immunological synapse (GO:0001772)|membrane (GO:0016020)|myosin II complex (GO:0016460)|myosin II filament (GO:0097513)|neuromuscular junction (GO:0031594)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|ruffle (GO:0001726)|spindle (GO:0005819)|stress fiber (GO:0001725)|uropod (GO:0001931)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microfilament motor activity (GO:0000146)|motor activity (GO:0003774)|poly(A) RNA binding (GO:0044822)|protein anchor (GO:0043495)|protein homodimerization activity (GO:0042803)			NS(1)|breast(8)|central_nervous_system(3)|cervix(2)|endometrium(5)|kidney(4)|large_intestine(16)|lung(29)|ovary(4)|pancreas(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(6)|urinary_tract(3)	86						CTGCTTCTCTCTGACCTTCAC	0.617			T	ALK	ALCL		"Deafness, autosomal dominant 17, Epstein syndrome, Fechtner syndrome, May-Hegglin anomaly, Sebastian syndrome"		Hereditary Macrothrombocytopenia, MYH9-associated		OREG0026520	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																											Dom	yes		22	22q13.1	4627	"myosin, heavy polypeptide 9, non-muscle"	yes	L	0													162	113	130					22																	36697638		2202	4300	6502	SO:0001583	missense	4627	Familial Cancer Database	MYHIIA syndrome, incl. Fechtner Syndrome, FTNS, and May-Hegglin Anomaly, MHA		CCDS13927.1	22q13.1	2014-09-17	2006-09-29		ENSG00000100345	ENSG00000100345		"Myosins / Myosin superfamily : Class II"	7579	protein-coding gene	gene with protein product	"nonmuscle myosin heavy chain II-A"	160775	"myosin, heavy polypeptide 9, non-muscle"	DFNA17		1860190, 11023810	Standard	NM_002473		Approved	NMMHCA, NMHC-II-A, MHA, FTNS, EPSTS	uc003apg.3	P35579	OTTHUMG00000030429	ENST00000216181.5:c.2573G>A	22.37:g.36697638C>T	ENSP00000216181:p.Arg858Lys	Somatic	864	WXS	Illumina HiSeq	Phase_I	A8K6E4|O60805|Q60FE2|Q86T83	Missense_Mutation	SNP	ENST00000216181.5	37	CCDS13927.1	.	.	.	.	.	.	.	.	.	.	C	10.43	1.347139	0.24426	.	.	ENSG00000100345	ENST00000337818;ENST00000216181	D	0.81499	-1.5	5.78	4.56	0.56223	.	0.176467	0.46442	D	0.000300	T	0.46210	0.1381	N	0.01624	-0.795	0.80722	D	1	B	0.02656	0.0	B	0.01281	0.0	T	0.55140	-0.8187	10	0.02654	T	1	.	4.3193	0.11009	0.0:0.701:0.0:0.299	.	858	P35579	MYH9_HUMAN	K	722;858	ENSP00000216181:R858K	ENSP00000216181:R858K	R	-	2	0	MYH9	35027584	0.984000	0.35163	0.958000	0.39756	0.962000	0.63368	2.570000	0.45981	2.894000	0.99253	0.655000	0.94253	AGA		0.617	MYH9-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000259110.3	NM_002473		T	36697638	C	T	36697638	3	4	662	1	0	0	0	0	1	0	0	0	10049	913	32	2	3393	2	MYH9	22	36697638	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10		36697638	14606928	81	41172										
TNRC6B	23112	broad.mit.edu	37	chr22	40552184	40552184	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	cctcctggtgaagaaagcaaAcagtgagtcacagtttattt	9	8	1	3			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr22:40552184A>G	ENST00000301923.9	+	4	413	c.111A>G	c.(109-111)aaA>aaG	p.K37K	TNRC6B_ENST00000402203.1_Silent_p.K37K	NM_001024843.1	NP_001020014.1	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B	0	Interaction with argonaute proteins.				epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|innate immune response (GO:0045087)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch signaling pathway (GO:0007219)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|regulation of translation (GO:0006417)	cytosol (GO:0005829)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)	1						AAGAAAGCAAACAGTGAGTCA	0.448																																																0													62	59	60					22																	40552184		1939	4160	6099	SO:0001819	synonymous_variant	23112			AB029016	CCDS46712.1, CCDS46713.1, CCDS54533.1	22q13	2006-08-22			ENSG00000100354	ENSG00000100354		"Trinucleotide (CAG) repeat containing"	29190	protein-coding gene	gene with protein product		610740					Standard	NM_015088		Approved	KIAA1093	uc011aor.2	Q9UPQ9	OTTHUMG00000151114	ENST00000301923.9:c.111A>G	22.37:g.40552184A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0QY73|B0QY78|B4DGC0|Q5TH52|Q8TBX2	Silent	SNP	ENST00000301923.9	37	CCDS46712.1																																																																																				0.448	TNRC6B-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321393.1			G	40552184	A	G	40552184	2	3	662	1	0	0	0	0	0	0	0	1	16353	40	2	3		3	TNRC6B	22	40552184	Silent	SNP	A	TCGA-KN-8426-01A-11D-2310-10	3854546	40552184	10752382	82	41173										
DNAJB7	150353	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	41257713	41257713	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	atgaaaaatttctttaaaaaCatcatctggcttatggaatg	6	5	3	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chr22:41257713C>A	ENST00000307221.4	-	1	417	c.286G>T	c.(286-288)Gtt>Ttt	p.V96F	XPNPEP3_ENST00000541156.1_Intron|XPNPEP3_ENST00000482652.1_3'UTR|XPNPEP3_ENST00000414396.1_Intron|XPNPEP3_ENST00000357137.4_Intron|XPNPEP3_ENST00000544094.1_5'Flank	NM_145174.1	NP_660157.1	Q7Z6W7	DNJB7_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 7	96							chaperone binding (GO:0051087)			breast(2)|endometrium(2)|large_intestine(1)|lung(3)|ovary(1)|upper_aerodigestive_tract(1)	10						TCTTTAAAAACATCATCTGGC	0.378																																																0													100	101	100					22																	41257713		2203	4300	6503	SO:0001583	missense	150353			AF085232	CCDS14008.1	22q13.2	2011-09-02			ENSG00000172404	ENSG00000172404		"Heat shock proteins / DNAJ (HSP40)"	24986	protein-coding gene	gene with protein product		611336				12477932	Standard	NM_145174		Approved	HSC3	uc003azj.3	Q7Z6W7	OTTHUMG00000151202	ENST00000307221.4:c.286G>T	22.37:g.41257713C>A	ENSP00000307197:p.Val96Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M220|Q5H904|Q8WYJ7	Missense_Mutation	SNP	ENST00000307221.4	37	CCDS14008.1	.	.	.	.	.	.	.	.	.	.	C	12.24	1.880043	0.33162	.	.	ENSG00000172404	ENST00000307221	T	0.79554	-1.28	4.7	1.53	0.23141	.	0.000000	0.48767	D	0.000178	D	0.84297	0.5441	M	0.90483	3.12	0.80722	D	1	P	0.38420	0.63	P	0.44561	0.453	D	0.83658	0.0159	10	0.72032	D	0.01	.	8.6484	0.34020	0.0:0.7435:0.0:0.2565	.	96	Q7Z6W7	DNJB7_HUMAN	F	96	ENSP00000307197:V96F	ENSP00000307197:V96F	V	-	1	0	DNAJB7	39587659	0.310000	0.24527	0.958000	0.39756	0.006000	0.05464	0.405000	0.21015	0.478000	0.27488	-0.218000	0.12543	GTT		0.378	DNAJB7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321765.1	NM_145174		A	41257713	C	A	41257713	3	1	662	1	0	0	0	0	1	0	0	0	4627	478	17	4	647	4	DNAJB7	22	41257713	Missense_Mutation	SNP	C	TCGA-KN-8426-01A-11D-2310-10	705529	41257713	10046853	83	41174										
PHKA1	5255	broad.mit.edu	37	chrX	71925084	71925084	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gcagtagtcctctcatcagcTtcactacactctgcagaaat	6	13	4	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chrX:71925084T>C	ENST00000373542.4	-	3	407	c.248A>G	c.(247-249)aAg>aGg	p.K83R	PHKA1_ENST00000373545.3_Missense_Mutation_p.K83R|PHKA1_ENST00000373539.3_Missense_Mutation_p.K83R|PHKA1_ENST00000339490.3_Missense_Mutation_p.K83R|PHKA1-AS1_ENST00000420998.1_RNA|PHKA1_ENST00000541944.1_Missense_Mutation_p.K83R	NM_002637.3	NP_002628.2	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle)	83					carbohydrate metabolic process (GO:0005975)|generation of precursor metabolites and energy (GO:0006091)|glucose metabolic process (GO:0006006)|glycogen catabolic process (GO:0005980)|glycogen metabolic process (GO:0005977)|protein phosphorylation (GO:0006468)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|plasma membrane (GO:0005886)	hydrolase activity, hydrolyzing O-glycosyl compounds (GO:0004553)|phosphorylase kinase activity (GO:0004689)			NS(1)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(9)|liver(2)|lung(18)|ovary(3)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	52	Renal(35;0.156)					TCTCATCAGCTTCACTACACT	0.393																																																0													148	119	129					X																	71925084		2203	4300	6503	SO:0001583	missense	5255				CCDS14421.1, CCDS48137.1, CCDS55453.1	Xq12-q13	2009-07-10			ENSG00000067177	ENSG00000067177	2.7.11.19		8925	protein-coding gene	gene with protein product		311870		PHKA			Standard	NM_002637		Approved		uc004eax.4	P46020	OTTHUMG00000022696	ENST00000373542.4:c.248A>G	X.37:g.71925084T>C	ENSP00000362643:p.Lys83Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZL05|B7ZL07|Q2M3D7	Missense_Mutation	SNP	ENST00000373542.4	37	CCDS14421.1	.	.	.	.	.	.	.	.	.	.	t	20.8	4.047418	0.75846	.	.	ENSG00000067177	ENST00000373545;ENST00000373542;ENST00000541944;ENST00000339490;ENST00000373539	D;D;D;D;D	0.90676	-2.71;-2.71;-2.71;-2.71;-2.71	3.85	3.85	0.44370	Six-hairpin glycosidase (1);Six-hairpin glycosidase-like (1);Glycoside hydrolase 15-related (1);	0.106591	0.64402	D	0.000006	D	0.95133	0.8423	M	0.88512	2.96	0.58432	D	0.999999	D;P;D	0.76494	0.999;0.918;0.997	D;P;D	0.79784	0.987;0.834;0.993	D	0.95033	0.8171	10	0.66056	D	0.02	-30.5936	9.9189	0.41453	0.0:0.0:0.0:1.0	.	83;83;83	B7ZL07;P46020-2;P46020	.;.;KPB1_HUMAN	R	83	ENSP00000362646:K83R;ENSP00000362643:K83R;ENSP00000441251:K83R;ENSP00000342469:K83R;ENSP00000362640:K83R	ENSP00000342469:K83R	K	-	2	0	PHKA1	71841809	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	7.689000	0.84165	1.531000	0.49152	0.433000	0.28618	AAG		0.393	PHKA1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000058896.1			C	71925084	T	C	71925084	3	2	662	1	0	0	0	0	1	0	0	0	11850	1609	56	3	3543	3	PHKA1	23	71925084	Missense_Mutation	SNP	T	TCGA-KN-8426-01A-11D-2310-10		71925084	83345476	84	41175										
RLIM	51132	mdanderson.org	37	chrX	73811695	73811695	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	aaatctgagctagtttctgaActttcaccaccggaactgga	8	10	3	2	rs374955178		TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chrX:73811695A>G	ENST00000332687.6	-	4	1673	c.1455T>C	c.(1453-1455)agT>agC	p.S485S	RLIM_ENST00000349225.2_Silent_p.S485S	NM_016120.3	NP_057204.2	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	485	Ser-rich.				negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|protein ubiquitination (GO:0016567)|random inactivation of X chromosome (GO:0060816)|transcription, DNA-templated (GO:0006351)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	ligase activity (GO:0016874)|transcription corepressor activity (GO:0003714)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(14)|ovary(2)|prostate(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	30						TAGTTTCTGAACTTTCACCAc	0.493																																					Esophageal Squamous(169;1899 1923 14997 18818 32118)											0													35	32	33					X																	73811695		2203	4300	6503	SO:0001819	synonymous_variant	51132			AF155109	CCDS14427.1	Xq13-q21	2013-01-09	2009-02-17	2009-02-17	ENSG00000131263	ENSG00000131263		"RING-type (C3HC4) zinc fingers"	13429	protein-coding gene	gene with protein product	"ring zinc finger protein NY-REN-43antigen", "LIM domain interacting ring finger protein"	300379	"ring finger protein 12"	RNF12		10508479	Standard	NM_016120		Approved	NY-REN-43, MGC15161	uc004ebw.3	Q9NVW2	OTTHUMG00000021859	ENST00000332687.6:c.1455T>C	X.37:g.73811695A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBQ1|D3DTE0|Q96D38|Q9Y598	Silent	SNP	ENST00000332687.6	37	CCDS14427.1																																																																																				0.493	RLIM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057268.1	NM_016120		G	73811695	A	G	73811695	2	3	662	1	0	0	0	0	0	0	0	1	13403	40	2	3		3	RLIM	23	73811695	Silent	SNP	A	TCGA-KN-8426-01A-11D-2310-10	1886611	73811695	81458865	85	41176			2	106		4	3	67	N	G_C_A	1.812788e-08
RLIM	51132	mdanderson.org	37	chrX	73811739	73811739	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	aggactggaactggaacttgAactggaactggaactcgaac	12	8	0	1	rs201164156		TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chrX:73811739A>G	ENST00000332687.6	-	4	1629	c.1411T>C	c.(1411-1413)Tca>Cca	p.S471P	RLIM_ENST00000349225.2_Missense_Mutation_p.S471P	NM_016120.3	NP_057204.2	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	471	Poly-Ser.|Ser-rich.				negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|protein ubiquitination (GO:0016567)|random inactivation of X chromosome (GO:0060816)|transcription, DNA-templated (GO:0006351)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	ligase activity (GO:0016874)|transcription corepressor activity (GO:0003714)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(14)|ovary(2)|prostate(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	30						ctggaacttgaactggaactg	0.483																																					Esophageal Squamous(169;1899 1923 14997 18818 32118)											0																																										SO:0001583	missense	51132			AF155109	CCDS14427.1	Xq13-q21	2013-01-09	2009-02-17	2009-02-17	ENSG00000131263	ENSG00000131263		"RING-type (C3HC4) zinc fingers"	13429	protein-coding gene	gene with protein product	"ring zinc finger protein NY-REN-43antigen", "LIM domain interacting ring finger protein"	300379	"ring finger protein 12"	RNF12		10508479	Standard	NM_016120		Approved	NY-REN-43, MGC15161	uc004ebw.3	Q9NVW2	OTTHUMG00000021859	ENST00000332687.6:c.1411T>C	X.37:g.73811739A>G	ENSP00000328059:p.Ser471Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBQ1|D3DTE0|Q96D38|Q9Y598	Missense_Mutation	SNP	ENST00000332687.6	37	CCDS14427.1	.	.	.	.	.	.	.	.	.	.	A	0	-2.619369	0.00118	.	.	ENSG00000131263	ENST00000332687;ENST00000349225	D;D	0.85258	-1.96;-1.96	1.66	0.0881	0.14453	.	0.638142	0.11946	U	0.514165	T	0.59032	0.2164	N	0.08118	0	0.09310	N	1	P	0.44734	0.842	B	0.29267	0.1	T	0.56607	-0.7951	10	0.34782	T	0.22	-0.2213	3.7245	0.08469	0.5962:0.4038:0.0:0.0	.	471	Q9NVW2	RNF12_HUMAN	P	471	ENSP00000328059:S471P;ENSP00000253571:S471P	ENSP00000328059:S471P	S	-	1	0	RLIM	73728464	0.991000	0.36638	0.012000	0.15200	0.011000	0.07611	0.068000	0.14531	0.675000	0.31264	0.441000	0.28932	TCA		0.483	RLIM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057268.1	NM_016120		G	73811739	A	G	73811739	3	3	662	1	0	0	0	0	1	0	0	0	13403	246	9	3	467	3	RLIM	23	73811739	Missense_Mutation	SNP	A	TCGA-KN-8426-01A-11D-2310-10	44	73811739	81458821	86	41177			2	106		4	3	67	N	G_C_A	1.812788e-08
RLIM	51132	mdanderson.org	37	chrX	73811755	73811755	+	Silent	SNP	C	C	G													0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	cttgaactggaactggaactCgaactggaactggaactcga					rs7883332	byFrequency	TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chrX:73811755C>G	ENST00000332687.6	-	4	1613	c.1395G>C	c.(1393-1395)tcG>tcC	p.S465S	RLIM_ENST00000349225.2_Silent_p.S465S	NM_016120.3	NP_057204.2	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	465	Poly-Ser.|Ser-rich.				negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|protein ubiquitination (GO:0016567)|random inactivation of X chromosome (GO:0060816)|transcription, DNA-templated (GO:0006351)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	ligase activity (GO:0016874)|transcription corepressor activity (GO:0003714)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(14)|ovary(2)|prostate(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	30						aactggaactcgaactggaac	0.463													t|||	47	0.0124503	0.0265	0.0029	3775	,	,		15935	0.0		0.006	False		,,,				2504	0.0041				Esophageal Squamous(169;1899 1923 14997 18818 32118)											0													43	43	43					X																	73811755		2203	4300	6503	SO:0001819	synonymous_variant	51132			AF155109	CCDS14427.1	Xq13-q21	2013-01-09	2009-02-17	2009-02-17	ENSG00000131263	ENSG00000131263		"RING-type (C3HC4) zinc fingers"	13429	protein-coding gene	gene with protein product	"ring zinc finger protein NY-REN-43antigen", "LIM domain interacting ring finger protein"	300379	"ring finger protein 12"	RNF12		10508479	Standard	NM_016120		Approved	NY-REN-43, MGC15161	uc004ebw.3	Q9NVW2	OTTHUMG00000021859	ENST00000332687.6:c.1395G>C	X.37:g.73811755C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBQ1|D3DTE0|Q96D38|Q9Y598	Silent	SNP	ENST00000332687.6	37	CCDS14427.1																																																																																				0.463	RLIM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057268.1	NM_016120		G	73811755	C	G	73811755	2	3	662	1	0	0	0	0	0	0	0	1	13403	871	31	4		4	RLIM	23	73811755	Silent	SNP	C	TCGA-KN-8426-01A-11D-2310-10	16	73811755	81458805	87	41178	388	2	2	106		4	3	67	N	G_C_A	1.812788e-08
RLIM	51132	mdanderson.org	37	chrX	73811761	73811761	+	Silent	SNP	G	G	T													0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	ctggaactggaactcgaactGgaactggaactcgaactgga							TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chrX:73811761G>T	ENST00000332687.6	-	4	1607	c.1389C>A	c.(1387-1389)tcC>tcA	p.S463S	RLIM_ENST00000349225.2_Silent_p.S463S	NM_016120.3	NP_057204.2	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	463	Poly-Ser.|Ser-rich.				negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|protein ubiquitination (GO:0016567)|random inactivation of X chromosome (GO:0060816)|transcription, DNA-templated (GO:0006351)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	ligase activity (GO:0016874)|transcription corepressor activity (GO:0003714)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(14)|ovary(2)|prostate(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	30						aactcgaactggaactggaac	0.473																																					Esophageal Squamous(169;1899 1923 14997 18818 32118)											0													46	46	46					X																	73811761		2203	4300	6503	SO:0001819	synonymous_variant	51132			AF155109	CCDS14427.1	Xq13-q21	2013-01-09	2009-02-17	2009-02-17	ENSG00000131263	ENSG00000131263		"RING-type (C3HC4) zinc fingers"	13429	protein-coding gene	gene with protein product	"ring zinc finger protein NY-REN-43antigen", "LIM domain interacting ring finger protein"	300379	"ring finger protein 12"	RNF12		10508479	Standard	NM_016120		Approved	NY-REN-43, MGC15161	uc004ebw.3	Q9NVW2	OTTHUMG00000021859	ENST00000332687.6:c.1389C>A	X.37:g.73811761G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBQ1|D3DTE0|Q96D38|Q9Y598	Silent	SNP	ENST00000332687.6	37	CCDS14427.1																																																																																				0.473	RLIM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057268.1	NM_016120		T	73811761	G	T	73811761	2	4	662	1	0	0	0	0	0	0	0	1	13403	1335	47	4		4	RLIM	23	73811761	Silent	SNP	G	TCGA-KN-8426-01A-11D-2310-10	6	73811761	81458799	88	41179	388	2	2	106		4	3	67	N	G_C_A	1.812788e-08
RGAG1	57529	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	109696984	109696984	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	tgcccatgccactaccaagaGccacagcctctggatgtggc	10	15	1	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chrX:109696984G>T	ENST00000465301.2	+	3	3385	c.3139G>T	c.(3139-3141)Gcc>Tcc	p.A1047S	RGAG1_ENST00000540313.1_Missense_Mutation_p.A1047S	NM_020769.2	NP_065820.1	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	1047										NS(1)|autonomic_ganglia(1)|breast(2)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(15)|liver(1)|lung(29)|ovary(1)|prostate(5)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	73						ACTACCAAGAGCCACAGCCTC	0.547																																																0													84	80	82					X																	109696984		2203	4300	6503	SO:0001583	missense	57529			AY121804	CCDS14552.1	Xq23	2008-02-05			ENSG00000243978	ENSG00000243978			29245	protein-coding gene	gene with protein product						10718198, 15716091, 16093683	Standard	NM_020769		Approved	KIAA1318, Mart9, Mar9	uc004eor.2	Q8NET4	OTTHUMG00000022196	ENST00000465301.2:c.3139G>T	X.37:g.109696984G>T	ENSP00000419786:p.Ala1047Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q9P2M8	Missense_Mutation	SNP	ENST00000465301.2	37	CCDS14552.1	.	.	.	.	.	.	.	.	.	.	G	7.001	0.554883	0.13436	.	.	ENSG00000243978	ENST00000465301;ENST00000540313;ENST00000540483	T;T	0.55052	0.54;0.54	4.41	-0.846	0.10734	.	.	.	.	.	T	0.37100	0.0991	L	0.47716	1.5	0.09310	N	1	B	0.33171	0.4	B	0.33960	0.173	T	0.25537	-1.0129	8	.	.	.	-0.5503	0.8352	0.01138	0.3054:0.2935:0.2499:0.1512	.	1047	Q8NET4	RGAG1_HUMAN	S	1047;1047;608	ENSP00000419786:A1047S;ENSP00000441452:A1047S	.	A	+	1	0	RGAG1	109583640	0.000000	0.05858	0.017000	0.16124	0.821000	0.46438	0.204000	0.17335	-0.325000	0.08577	0.600000	0.82982	GCC		0.547	RGAG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057906.2	NM_020769		T	109696984	G	T	109696984	3	4	662	1	0	0	0	0	1	0	0	0	13287	971	34	4	3141	4	RGAG1	23	109696984	Missense_Mutation	SNP	G	TCGA-KN-8426-01A-11D-2310-10	35885223	109696984	45573576	89	41180										
FLNA	2316	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	153588714	153588714	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	agggaaccacgtgggccttgAatggggagccagggatgtgg	19	7	0	1			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chrX:153588714A>T	ENST00000369850.3	-	22	3685	c.3449T>A	c.(3448-3450)tTc>tAc	p.F1150Y	FLNA_ENST00000360319.4_Missense_Mutation_p.F1150Y|FLNA_ENST00000344736.4_Missense_Mutation_p.F1150Y|FLNA_ENST00000369856.3_5'Flank|FLNA_ENST00000422373.1_Missense_Mutation_p.F1150Y	NM_001110556.1	NP_001104026.1	P21333	FLNA_HUMAN	filamin A, alpha	1150					actin crosslink formation (GO:0051764)|actin cytoskeleton reorganization (GO:0031532)|adenylate cyclase-inhibiting dopamine receptor signaling pathway (GO:0007195)|blood coagulation (GO:0007596)|cell junction assembly (GO:0034329)|cilium assembly (GO:0042384)|cytoplasmic sequestering of protein (GO:0051220)|early endosome to late endosome transport (GO:0045022)|epithelial to mesenchymal transition (GO:0001837)|establishment of protein localization (GO:0045184)|mRNA transcription from RNA polymerase II promoter (GO:0042789)|negative regulation of protein catabolic process (GO:0042177)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|platelet activation (GO:0030168)|platelet aggregation (GO:0070527)|platelet degranulation (GO:0002576)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of transcription factor import into nucleus (GO:0042993)|protein localization to cell surface (GO:0034394)|protein stabilization (GO:0050821)|receptor clustering (GO:0043113)|spindle assembly involved in mitosis (GO:0090307)	actin cytoskeleton (GO:0015629)|actin filament (GO:0005884)|apical dendrite (GO:0097440)|cortical cytoskeleton (GO:0030863)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendritic shaft (GO:0043198)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|Myb complex (GO:0031523)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)	actin filament binding (GO:0051015)|Fc-gamma receptor I complex binding (GO:0034988)|glycoprotein binding (GO:0001948)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)|Rac GTPase binding (GO:0048365)|Ral GTPase binding (GO:0017160)|Rho GTPase binding (GO:0017048)|signal transducer activity (GO:0004871)|small GTPase binding (GO:0031267)|transcription factor binding (GO:0008134)			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)					GTGGGCCTTGAATGGGGAGCC	0.617											OREG0003593	type=REGULATORY REGION|Gene=FLNA|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay																																				0													62	73	69					X																	153588714		2145	4213	6358	SO:0001583	missense	2316			X70082	CCDS44021.1, CCDS48194.1	Xq28	2009-07-23	2009-07-23		ENSG00000196924	ENSG00000196924			3754	protein-coding gene	gene with protein product	"actin binding protein 280"	300017	"filamin A, alpha (actin binding protein 280)"	FLN1, FLN, OPD2, OPD1		8406501, 12612583	Standard	NM_001456		Approved	ABP-280	uc004fkk.2	P21333	OTTHUMG00000022712	ENST00000369850.3:c.3449T>A	X.37:g.153588714A>T	ENSP00000358866:p.Phe1150Tyr	Somatic	1756	WXS	Illumina HiSeq	Phase_I	E9KL45|Q5HY53|Q5HY55|Q8NF52	Missense_Mutation	SNP	ENST00000369850.3	37	CCDS48194.1	.	.	.	.	.	.	.	.	.	.	A	20.2	3.958476	0.74016	.	.	ENSG00000196924	ENST00000360319;ENST00000369852;ENST00000422373;ENST00000369850;ENST00000344736	D;D;D;D	0.86432	-2.12;-2.12;-2.12;-2.12	4.92	4.92	0.64577	Immunoglobulin E-set (1);Immunoglobulin-like fold (1);	0.000000	0.64402	D	0.000006	D	0.93135	0.7814	M	0.80422	2.495	0.80722	D	1	P;D	0.89917	0.7;1.0	D;D	0.87578	0.91;0.998	D	0.93663	0.6983	10	0.59425	D	0.04	.	13.8267	0.63354	1.0:0.0:0.0:0.0	.	1150;1150	P21333-2;P21333	.;FLNA_HUMAN	Y	1150;1123;1150;1150;1150	ENSP00000353467:F1150Y;ENSP00000416926:F1150Y;ENSP00000358866:F1150Y;ENSP00000358863:F1150Y	ENSP00000358863:F1150Y	F	-	2	0	FLNA	153241908	1.000000	0.71417	0.998000	0.56505	0.818000	0.46254	7.383000	0.79741	1.640000	0.50565	0.427000	0.28365	TTC		0.617	FLNA-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058942.3			T	153588714	A	T	153588714	3	4	662	1	0	0	0	0	1	0	0	0	5940	246	9	5	4602	5	FLNA	23	153588714	Missense_Mutation	SNP	A	TCGA-KN-8426-01A-11D-2310-10	43891730	153588714	1681846	90	41181										
IL9R	3581	mdanderson.org	37	chrX	155239602	155239602	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.16888045540797	3.62352941176471	0.805228758169935	1	1	0	gctcacttgtggcccagcgcGtccttggaaatctgtggccc	12	14	2	0			TCGA-KN-8426-01A-11D-2310-10	TCGA-KN-8426-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a3deafcb-b54f-4b7e-89ac-c92c16fb919f	fb5c34ce-5b82-4bd7-a195-5f0c2dab07d4	g.chrX:155239602G>A	ENST00000244174.5	+	9	1273	c.1094G>A	c.(1093-1095)cGt>cAt	p.R365H	IL9R_ENST00000424344.3_Missense_Mutation_p.R344H|IL9R_ENST00000540897.1_3'UTR|IL9R_ENST00000369423.2_3'UTR	NM_002186.2	NP_002177.2	Q01113	IL9R_HUMAN	interleukin 9 receptor	365			R -> H (in dbSNP:rs2228650).		cell proliferation (GO:0008283)|positive regulation of cell growth (GO:0030307)|signal transduction (GO:0007165)	extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)	interleukin-9 receptor activity (GO:0004919)			NS(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(3)|large_intestine(1)|lung(12)|upper_aerodigestive_tract(1)	23	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)					GGCCCAGCGCGTCCTTGGAAA	0.662																																																0													42	70	62					X																	155239602		1941	4257	6198	SO:0001583	missense	3581			M84747	CCDS14771.4, CCDS59180.1	Xq28 and Yq12	2008-02-05			ENSG00000124334	ENSG00000124334		"Pseudoautosomal regions / PAR2", "Interleukins and interleukin receptors", "CD molecules"	6030	protein-coding gene	gene with protein product		300007				1376929, 8666384	Standard	NM_002186		Approved	CD129	uc004fnv.1	Q01113	OTTHUMG00000022720	ENST00000244174.5:c.1094G>A	X.37:g.155239602G>A	ENSP00000244174:p.Arg365His	Somatic		WXS	Illumina HiSeq	Phase_I	B9ZVT0|Q14634|Q8WWU1|Q96TF0	Missense_Mutation	SNP	ENST00000244174.5	37	CCDS14771.4	130	0.05952380952380952	42	0.08536585365853659	11	0.03038674033149171	50	0.08741258741258741	27	0.03562005277044855	N	0.057	-1.234707	0.01505	.	.	ENSG00000124334	ENST00000244174;ENST00000424344	T;T	0.10099	2.91;2.91	1.44	0.201	0.15186	.	5.140280	0.00520	N	0.000181	T	0.00241	0.0007	.	.	.	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.32481	-0.9905	9	0.13470	T	0.59	-9.2578	3.2156	0.06697	0.7419:0.0:0.2581:0.0	.	365	Q01113	IL9R_HUMAN	H	365;344	ENSP00000244174:R365H;ENSP00000388918:R344H	ENSP00000244174:R365H	R	+	2	0	IL9R	154892796	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.579000	0.05834	-0.003000	0.14444	-1.144000	0.01866	CGT		0.662	IL9R-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058981.1	NM_002186		A	155239602	G	A	155239602	3	1	662	1	0	0	0	0	1	0	0	0	7715	1145	40	1	1128	1	IL9R	23	155239602	Missense_Mutation	SNP	G	TCGA-KN-8426-01A-11D-2310-10	1650888	155239602	30958	91	41182										
EXOSC10	5394	bcgsc.ca	37	chr1	11151122	11151122	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gatgaagattttaggaagaaAtggtgtgttggaattgtcaa	13	1	1	3			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:11151122A>G	ENST00000376936.4	-	5	641	c.592T>C	c.(592-594)Ttt>Ctt	p.F198L	EXOSC10_ENST00000544779.1_Missense_Mutation_p.F198L|EXOSC10_ENST00000304457.7_Missense_Mutation_p.F198L	NM_001001998.1	NP_001001998.1	Q01780	EXOSX_HUMAN	exosome component 10	198					CUT catabolic process (GO:0071034)|dosage compensation by inactivation of X chromosome (GO:0009048)|histone mRNA catabolic process (GO:0071044)|maturation of 5.8S rRNA (GO:0000460)|nuclear mRNA surveillance (GO:0071028)|nuclear polyadenylation-dependent rRNA catabolic process (GO:0071035)|nuclear retention of unspliced pre-mRNA at the site of transcription (GO:0071048)|nuclear-transcribed mRNA catabolic process (GO:0000956)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA phosphodiester bond hydrolysis, exonucleolytic (GO:0090503)	cytoplasm (GO:0005737)|exosome (RNase complex) (GO:0000178)|membrane (GO:0016020)|nuclear exosome (RNase complex) (GO:0000176)|nucleolus (GO:0005730)|nucleus (GO:0005634)|transcriptionally active chromatin (GO:0035327)	3'-5' exonuclease activity (GO:0008408)|exoribonuclease activity (GO:0004532)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(9)|prostate(1)|stomach(3)|upper_aerodigestive_tract(1)	27	Ovarian(185;0.249)	Lung NSC(185;1.74e-05)|all_lung(284;2.05e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.18e-07)|COAD - Colon adenocarcinoma(227;8.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000315)|Kidney(185;0.000832)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|READ - Rectum adenocarcinoma(331;0.0526)|STAD - Stomach adenocarcinoma(313;0.202)		TTAGGAAGAAATGGTGTGTTG	0.393																																					Colon(179;105 1987 14326 27364 29542)											0													278	274	275					1																	11151122		2203	4300	6503	SO:0001583	missense	5394			BC073788	CCDS126.1, CCDS30584.1	1p36.22	2008-02-05	2004-06-16	2004-06-18	ENSG00000171824	ENSG00000171824			9138	protein-coding gene	gene with protein product	"polymyositis/scleroderma autoantigen 2 (100kD)"	605960	"polymyositis/scleroderma autoantigen 2, 100kDa"	PMSCL2		1383382, 1644924	Standard	NM_001001998		Approved	PM-Scl, PM/Scl-100, Rrp6p, RRP6, p2, p3, p4	uc001asa.3	Q01780	OTTHUMG00000002123	ENST00000376936.4:c.592T>C	1.37:g.11151122A>G	ENSP00000366135:p.Phe198Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B1AKQ0|B1AKQ1|Q15158	Missense_Mutation	SNP	ENST00000376936.4	37	CCDS30584.1	.	.	.	.	.	.	.	.	.	.	A	35	5.561878	0.96527	.	.	ENSG00000171824	ENST00000376936;ENST00000304457;ENST00000544779	.	.	.	5.73	5.73	0.89815	Ribonuclease H-like (1);	0.045838	0.85682	D	0.000000	D	0.85835	0.5789	M	0.92169	3.28	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.83275	0.996;0.991	D	0.89086	0.3479	9	0.72032	D	0.01	-20.0071	15.4929	0.75624	1.0:0.0:0.0:0.0	.	198;198	Q01780-2;Q01780	.;EXOSX_HUMAN	L	198	.	ENSP00000307307:F198L	F	-	1	0	EXOSC10	11073709	1.000000	0.71417	0.916000	0.36221	0.994000	0.84299	9.062000	0.93920	2.308000	0.77769	0.533000	0.62120	TTT		0.393	EXOSC10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000006078.1	NM_001001998		G	11151122	A	G	11151122	3	3	663	1	0	0	0	0	1	0	0	0	5316	101	4	3	2149	3	EXOSC10	1	11151122	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10		11151122	238099499	1	41183										
SPEN	23013	hgsc.bcm.edu;ucsc.edu	37	chr1	16256119	16256119	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	caaggaccagagagagaagaCgttaggaaaaactattgcag	12	6	0	3	rs140864111	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:16256119C>T	ENST00000375759.3	+	11	3588	c.3384C>T	c.(3382-3384)gaC>gaT	p.D1128D		NM_015001.2	NP_055816.2	Q96T58	MINT_HUMAN	spen family transcriptional repressor	1128					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|Notch signaling pathway (GO:0007219)|positive regulation of neurogenesis (GO:0050769)|positive regulation of transcription, DNA-templated (GO:0045893)|viral process (GO:0016032)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding transcription factor activity (GO:0003700)|single-stranded DNA binding (GO:0003697)|transcription corepressor activity (GO:0003714)			NS(1)|breast(13)|central_nervous_system(3)|cervix(5)|endometrium(16)|kidney(18)|large_intestine(27)|liver(2)|lung(37)|ovary(7)|prostate(7)|skin(7)|upper_aerodigestive_tract(5)|urinary_tract(1)	149		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)		AGAGAGAAGACGTTAGGAAAA	0.398													C|||	2	0.000399361	0.0015	0.0	5008	,	,		22161	0.0		0.0	False		,,,				2504	0.0															0								C		9,4397	15.5+/-35.6	0,9,2194	38	39	39		3384	-2.2	0.2	1	dbSNP_134	39	0,8600		0,0,4300	no	coding-synonymous	SPEN	NM_015001.2		0,9,6494	TT,TC,CC		0.0,0.2043,0.0692		1128/3665	16256119	9,12997	2203	4300	6503	SO:0001819	synonymous_variant	23013				CCDS164.1	1p36	2013-10-17	2013-10-17		ENSG00000065526	ENSG00000065526		"RNA binding motif (RRM) containing"	17575	protein-coding gene	gene with protein product		613484	"SPEN homolog, transcriptional regulator (Drosophila)", "spen homolog, transcriptional regulator (Drosophila)"			10451362, 11331609	Standard	NM_015001		Approved	KIAA0929, MINT, SHARP, RBM15C	uc001axk.1	Q96T58	OTTHUMG00000009376	ENST00000375759.3:c.3384C>T	1.37:g.16256119C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H9A8|Q9NWH5|Q9UQ01|Q9Y556	Silent	SNP	ENST00000375759.3	37	CCDS164.1																																																																																				0.398	SPEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025993.1	NM_015001		T	16256119	C	T	16256119	2	4	663	1	0	0	0	0	0	0	0	1	15050	535	19	1		1	SPEN	1	16256119	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10	5104997	16256119	232994502	2	41184										
CSMD2	114784	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	34209065	34209065	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tcaaactgaggctccacgtcAatgtcgttgaaggccaggtg	12	10	2	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:34209065A>G	ENST00000373381.4	-	14	2165	c.1989T>C	c.(1987-1989)atT>atC	p.I663I		NM_001281956.1|NM_052896.3	NP_001268885.1|NP_443128.2	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	623	CUB 4. {ECO:0000255|PROSITE- ProRule:PRU00059}.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(5)|breast(5)|central_nervous_system(3)|cervix(2)|endometrium(20)|haematopoietic_and_lymphoid_tissue(4)|kidney(9)|large_intestine(43)|lung(114)|ovary(8)|pancreas(1)|prostate(6)|skin(20)|upper_aerodigestive_tract(5)|urinary_tract(1)	246		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GCTCCACGTCAATGTCGTTGA	0.602																																																0													84	85	85					1																	34209065		2203	4300	6503	SO:0001819	synonymous_variant	114784			AY210418	CCDS380.1, CCDS60082.1	1p34.3	2014-01-28			ENSG00000121904	ENSG00000121904			19290	protein-coding gene	gene with protein product		608398				11472063, 11572484	Standard	NM_001281956		Approved	KIAA1884	uc001bxn.1	Q7Z408	OTTHUMG00000011135	ENST00000373381.4:c.1989T>C	1.37:g.34209065A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B1AM50|E7EUA6|Q53TY4|Q5VT59|Q8N963|Q96Q03|Q9H4V7|Q9H4V8|Q9H4V9|Q9H4W0|Q9H4W1|Q9H4W2|Q9H4W3|Q9H4W4|Q9HCY5|Q9HCY6|Q9HCY7	Silent	SNP	ENST00000373381.4	37																																																																																					0.602	CSMD2-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_052896		G	34209065	A	G	34209065	2	3	663	1	0	0	0	0	0	0	0	1	3947	126	5	3		3	CSMD2	1	34209065	Silent	SNP	A	TCGA-KN-8427-01A-11D-2310-10	17952946	34209065	215041556	3	41185										
CYP4X1	260293	bcgsc.ca	37	chr1	47498964	47498964	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gtggttccagcatcgtcgccTactaactcctggattccatt	8	13	0	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:47498964T>C	ENST00000371901.3	+	4	666	c.416T>C	c.(415-417)cTa>cCa	p.L139P	CYP4X1_ENST00000538609.1_Missense_Mutation_p.L138P	NM_178033.1	NP_828847.1	Q8N118	CP4X1_HUMAN	cytochrome P450, family 4, subfamily X, polypeptide 1	139						endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	aromatase activity (GO:0070330)|heme binding (GO:0020037)|iron ion binding (GO:0005506)			endometrium(1)|kidney(2)|large_intestine(1)|lung(7)|ovary(1)|skin(4)|upper_aerodigestive_tract(1)	17						CATCGTCGCCTACTAACTCCT	0.428																																																0													129	109	116					1																	47498964		2203	4300	6503	SO:0001583	missense	260293			AK091806	CCDS544.1	1p33	2008-02-05			ENSG00000186377	ENSG00000186377		"Cytochrome P450s"	20244	protein-coding gene	gene with protein product		614999				12176035	Standard	NM_178033		Approved	MGC40051	uc001cqt.3	Q8N118	OTTHUMG00000008017	ENST00000371901.3:c.416T>C	1.37:g.47498964T>C	ENSP00000360968:p.Leu139Pro	Somatic		WXS	Illumina HiSeq	Phase_I	G3V1U1|Q5VVE5|Q6ZN67|Q8NAZ3	Missense_Mutation	SNP	ENST00000371901.3	37	CCDS544.1	.	.	.	.	.	.	.	.	.	.	T	21.2	4.117048	0.77323	.	.	ENSG00000186377	ENST00000538609;ENST00000371901	T;T	0.71579	-0.58;-0.58	5.91	5.91	0.95273	.	0.072152	0.56097	D	0.000024	D	0.88273	0.6392	M	0.93763	3.455	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.996	D	0.91184	0.4978	10	0.87932	D	0	.	16.0082	0.80377	0.0:0.0:0.0:1.0	.	139;138	Q8N118;G3V1U1	CP4X1_HUMAN;.	P	138;139	ENSP00000445965:L138P;ENSP00000360968:L139P	ENSP00000360968:L139P	L	+	2	0	CYP4X1	47271551	0.997000	0.39634	0.430000	0.26722	0.672000	0.39443	7.370000	0.79589	2.262000	0.75019	0.482000	0.46254	CTA		0.428	CYP4X1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000022017.1	NM_178033		C	47498964	T	C	47498964	3	2	663	1	0	0	0	0	1	0	0	0	4195	1522	53	3	430	3	CYP4X1	1	47498964	Missense_Mutation	SNP	T	TCGA-KN-8427-01A-11D-2310-10	13289899	47498964	201751657	4	41186										
SYT6	148281	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	114680520	114680520	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	agctcttggtggcctcagacTtggcatcctccccatccacc	8	17	2	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:114680520T>G	ENST00000610222.1	-	3	814	c.668A>C	c.(667-669)aAg>aCg	p.K223T	SYT6_ENST00000369547.1_Missense_Mutation_p.K138T|SYT6_ENST00000393296.1_Missense_Mutation_p.K223T|SYT6_ENST00000607941.1_Missense_Mutation_p.K138T|SYT6_ENST00000609117.1_Missense_Mutation_p.K138T			Q5T7P8	SYT6_HUMAN	synaptotagmin VI	223					acrosomal vesicle exocytosis (GO:0060478)	cell junction (GO:0030054)|cytosol (GO:0005829)|extrinsic component of membrane (GO:0019898)|integral component of membrane (GO:0016021)|perinuclear endoplasmic reticulum (GO:0097038)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)	clathrin binding (GO:0030276)|metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|syntaxin binding (GO:0019905)|transporter activity (GO:0005215)			central_nervous_system(1)|endometrium(3)|large_intestine(10)|lung(14)|ovary(4)|pancreas(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	37	Lung SC(450;0.184)	all_cancers(81;4.41e-08)|all_epithelial(167;5.18e-08)|all_lung(203;1.58e-05)|Lung NSC(69;2.82e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GGCCTCAGACTTGGCATCCTC	0.557																																																0													134	115	121					1																	114680520		2203	4300	6503	SO:0001583	missense	148281				CCDS871.1	1p13.1	2013-01-21			ENSG00000134207	ENSG00000134207		"Synaptotagmins"	18638	protein-coding gene	gene with protein product		607718				11543631	Standard	NM_205848		Approved		uc021orz.1	Q5T7P8	OTTHUMG00000011755	ENST00000610222.1:c.668A>C	1.37:g.114680520T>G	ENSP00000476396:p.Lys223Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B1AMB8|B3KPK1	Missense_Mutation	SNP	ENST00000610222.1	37		.	.	.	.	.	.	.	.	.	.	T	15.72	2.917199	0.52546	.	.	ENSG00000134207	ENST00000369547;ENST00000393296;ENST00000369546;ENST00000369545	T;T;T;T	0.08193	3.12;3.12;3.12;3.12	5.56	5.56	0.83823	C2 calcium/lipid-binding domain, CaLB (1);	0.098347	0.64402	D	0.000002	T	0.04092	0.0114	L	0.39633	1.23	0.80722	D	1	B	0.13594	0.008	B	0.16289	0.015	T	0.30268	-0.9984	10	0.33940	T	0.23	.	15.72	0.77700	0.0:0.0:0.0:1.0	.	223	Q5T7P8	SYT6_HUMAN	T	138;223;138;223	ENSP00000358560:K138T;ENSP00000376974:K223T;ENSP00000358559:K138T;ENSP00000358558:K223T	ENSP00000358558:K223T	K	-	2	0	SYT6	114482043	1.000000	0.71417	0.993000	0.49108	0.984000	0.73092	8.017000	0.88712	2.117000	0.64856	0.533000	0.62120	AAG		0.557	SYT6-004	KNOWN	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000314819.2	NM_205848		G	114680520	T	G	114680520	3	3	663	1	0	0	0	0	1	0	0	0	15490	1609	56	5	884	5	SYT6	1	114680520	Missense_Mutation	SNP	T	TCGA-KN-8427-01A-11D-2310-10	67181556	114680520	134570101	5	41187										
NRAS	4893	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	115256530	115256530	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	catggcactgtactcttcttGtccagctgtatccagtatgt	8	11	2	0	rs121913254		TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:115256530G>T	ENST00000369535.4	-	3	434	c.181C>A	c.(181-183)Caa>Aaa	p.Q61K		NM_002524.4	NP_002515.1	P01111	RASN_HUMAN	neuroblastoma RAS viral (v-ras) oncogene homolog	61			Q -> K (in CMNS and NCMS; somatic mutation). {ECO:0000269|PubMed:23392294}.|Q -> R (in CMNS, NCMS and KNEN; also found in lung carcinoma cell and melanoma; dbSNP:rs11554290). {ECO:0000269|PubMed:18633438, ECO:0000269|PubMed:22499344, ECO:0000269|PubMed:23392294, ECO:0000269|PubMed:3276402}.		actin cytoskeleton organization (GO:0030036)|activation of MAPKK activity (GO:0000186)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|epidermal growth factor receptor signaling pathway (GO:0007173)|epithelial tube branching involved in lung morphogenesis (GO:0060441)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|GTP catabolic process (GO:0006184)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|leukocyte migration (GO:0050900)|MAPK cascade (GO:0000165)|negative regulation of cell differentiation (GO:0045596)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of skeletal muscle tissue development (GO:0048642)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of cell proliferation (GO:0008284)|positive regulation of Rac protein signal transduction (GO:0035022)|Ras protein signal transduction (GO:0007265)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of synaptic transmission, GABAergic (GO:0032228)|small GTPase mediated signal transduction (GO:0007264)|striated muscle cell differentiation (GO:0051146)|visual learning (GO:0008542)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|plasma membrane (GO:0005886)	GTP binding (GO:0005525)|protein complex binding (GO:0032403)	p.Q61K(595)|p.Q61E(9)|p.Q61L(3)|p.Q61R(2)|p.G60>?(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)		TACTCTTCTTGTCCAGCTGTA	0.458	Q61K(CHP212_AUTONOMIC_GANGLIA)|Q61K(HCC15_LUNG)|Q61K(HS936T_SKIN)|Q61K(HS944T_SKIN)|Q61K(HT1080_SOFT_TISSUE)|Q61K(HUT78_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61K(M07E_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61K(NCIH1299_LUNG)|Q61K(NCIH2087_LUNG)|Q61K(OCILY19_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61K(SKNAS_AUTONOMIC_GANGLIA)|Q61K(SKNSH_AUTONOMIC_GANGLIA)|Q61K(TYKNU_OVARY)	50	Mis		"melanoma, MM, AML, thyroid"				Noonan syndrome	TSP Lung(23;0.16)|Multiple Myeloma(1;<1E-6)																													Dom	yes		1	1p13.2	4893	neuroblastoma RAS viral (v-ras) oncogene homolog		"L, E"	610	Substitution - Missense(609)|Complex(1)	skin(372)|haematopoietic_and_lymphoid_tissue(73)|thyroid(55)|NS(29)|large_intestine(28)|soft_tissue(16)|lung(12)|autonomic_ganglia(6)|liver(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|cervix(2)|endometrium(2)|pancreas(2)|meninges(1)|kidney(1)|biliary_tract(1)|stomach(1)|ovary(1)|bone(1)											180	156	164					1																	115256530		2203	4300	6503	SO:0001583	missense	4893	Familial Cancer Database	Male Turner syndrome, Pterygium Colli syndrome, incl. Noonan-like/Multiple Giant Cell Lesion syndrome; Noonan s. with multiple lentigines/LEOPARD syndrome	BC005219	CCDS877.1	1p13.2	2014-09-17			ENSG00000213281	ENSG00000213281			7989	protein-coding gene	gene with protein product		164790					Standard	NM_002524		Approved	N-ras	uc009wgu.3	P01111	OTTHUMG00000012059	ENST00000369535.4:c.181C>A	1.37:g.115256530G>T	ENSP00000358548:p.Gln61Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q14971|Q15104|Q15282	Missense_Mutation	SNP	ENST00000369535.4	37	CCDS877.1	.	.	.	.	.	.	.	.	.	.	G	33	5.255564	0.95336	.	.	ENSG00000213281	ENST00000369535	D	0.83506	-1.73	5.08	5.08	0.68730	Small GTP-binding protein domain (1);	0.000000	0.53938	U	0.000043	D	0.91845	0.7419	H	0.95850	3.73	0.80722	D	1	P	0.51791	0.948	P	0.54759	0.76	D	0.93711	0.7024	10	0.62326	D	0.03	.	18.6626	0.91477	0.0:0.0:1.0:0.0	.	61	P01111	RASN_HUMAN	K	61	ENSP00000358548:Q61K	ENSP00000358548:Q61K	Q	-	1	0	NRAS	115058053	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.520000	0.98027	2.624000	0.88883	0.655000	0.94253	CAA		0.458	NRAS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033395.2	NM_002524		T	115256530	G	T	115256530	3	4	663	1	0	0	0	0	1	0	0	0	10647	1386	48	4	400	4	NRAS	1	115256530	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	576010	115256530	133994091	6	41188										
FLG	2312	mdanderson.org	37	chr1	152284806	152284806	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tgctcgtggtgggacccctgCcttcctcttctgcttgaccc	10	16	2	1	rs71625190		TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:152284806C>T	ENST00000368799.1	-	3	2591	c.2556G>A	c.(2554-2556)agG>agA	p.R852R	FLG-AS1_ENST00000420707.1_RNA|FLG-AS1_ENST00000593011.1_RNA|FLG-AS1_ENST00000392688.2_RNA	NM_002016.1	NP_002007.1	P20930	FILA_HUMAN	filaggrin	852	Ser-rich.				establishment of skin barrier (GO:0061436)|keratinocyte differentiation (GO:0030216)|multicellular organismal development (GO:0007275)	cytoplasmic membrane-bounded vesicle (GO:0016023)|intermediate filament (GO:0005882)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|structural molecule activity (GO:0005198)			autonomic_ganglia(1)|breast(13)|central_nervous_system(5)|cervix(2)|endometrium(38)|haematopoietic_and_lymphoid_tissue(1)|kidney(16)|large_intestine(57)|lung(211)|ovary(13)|pancreas(1)|prostate(15)|skin(24)|stomach(5)|upper_aerodigestive_tract(10)|urinary_tract(12)	424	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGGACCCCTGCCTTCCTCTTC	0.602									Ichthyosis																																							0													334	330	331					1																	152284806		2203	4300	6503	SO:0001819	synonymous_variant	2312	Familial Cancer Database	X-linked Ichthyosis, Steroid Sulfatase Deficiency, Ichthyosis Vulgaris	XM_048104	CCDS30860.1	1q21.3	2013-01-10			ENSG00000143631	ENSG00000143631		"EF-hand domain containing"	3748	protein-coding gene	gene with protein product		135940				2740331, 2248957, 16444271	Standard	NM_002016		Approved		uc001ezu.1	P20930	OTTHUMG00000012202	ENST00000368799.1:c.2556G>A	1.37:g.152284806C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q01720|Q5T583|Q9UC71	Silent	SNP	ENST00000368799.1	37	CCDS30860.1																																																																																				0.602	FLG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033742.1	NM_002016		T	152284806	C	T	152284806	2	4	663	1	0	0	0	0	0	0	0	1	5929	738	26	2		2	FLG	1	152284806	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10	37028276	152284806	96965815	7	41189										
CRNN	49860	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	152382811	152382811	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tgcttgctggttcttcctgtCtggtggctgctgtcctgctc	12	12	2	0	rs574082627		TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:152382811C>A	ENST00000271835.3	-	3	809	c.747G>T	c.(745-747)caG>caT	p.Q249H	RP1-91G5.3_ENST00000411804.1_RNA	NM_016190.2	NP_057274.1	Q9UBG3	CRNN_HUMAN	cornulin	249	Gln-rich.				response to heat (GO:0009408)|single organismal cell-cell adhesion (GO:0016337)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	calcium ion binding (GO:0005509)			breast(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(16)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	35	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTCTTCCTGTCTGGTGGCTGC	0.597																																																0													243	248	247					1																	152382811		2203	4300	6503	SO:0001583	missense	49860			AF077831	CCDS1010.1	1q21	2014-01-28	2005-06-13	2005-06-13	ENSG00000143536	ENSG00000143536		"EF-hand domain containing"	1230	protein-coding gene	gene with protein product		611312	"chromosome 1 open reading frame 10"	C1orf10		11056050, 15854041	Standard	NM_016190		Approved	SEP53	uc001ezx.2	Q9UBG3	OTTHUMG00000012383	ENST00000271835.3:c.747G>T	1.37:g.152382811C>A	ENSP00000271835:p.Gln249His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE60|Q8N613	Missense_Mutation	SNP	ENST00000271835.3	37	CCDS1010.1	.	.	.	.	.	.	.	.	.	.	C	11.36	1.616492	0.28801	.	.	ENSG00000143536	ENST00000271835	T	0.05855	3.38	4.83	-2.35	0.06684	.	0.382752	0.22584	N	0.058163	T	0.01156	0.0038	L	0.43152	1.355	0.09310	N	1	P	0.36199	0.543	B	0.32533	0.147	T	0.47711	-0.9096	10	0.23302	T	0.38	.	2.9523	0.05866	0.1338:0.3258:0.386:0.1545	.	249	Q9UBG3	CRNN_HUMAN	H	249	ENSP00000271835:Q249H	ENSP00000271835:Q249H	Q	-	3	2	CRNN	150649435	0.138000	0.22547	0.000000	0.03702	0.229000	0.25112	-0.018000	0.12568	-0.673000	0.05259	0.585000	0.79938	CAG		0.597	CRNN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034503.1	NM_016190		A	152382811	C	A	152382811	3	1	663	1	0	0	0	0	1	0	0	0	3894	912	32	4	744	4	CRNN	1	152382811	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	98005	152382811	96867810	8	41190										
EFNA4	1945	hgsc.bcm.edu;mdanderson.org	37	chr1	155036407	155036407	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gtctactggaactccagtaaCcccaggtagccgggccgaac	11	14	1	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:155036407C>T	ENST00000368409.3	+	1	201	c.108C>T	c.(106-108)aaC>aaT	p.N36N	EFNA4_ENST00000427683.2_Silent_p.N36N|EFNA4_ENST00000359751.4_Silent_p.N36N|EFNA3_ENST00000505139.1_Silent_p.N36N|EFNA3_ENST00000556931.1_Silent_p.N36N	NM_005227.2	NP_005218.1	P52798	EFNA4_HUMAN	ephrin-A4	36	Ephrin RBD. {ECO:0000255|PROSITE- ProRule:PRU00884}.				axon guidance (GO:0007411)|bone remodeling (GO:0046849)|cell-cell signaling (GO:0007267)|ephrin receptor signaling pathway (GO:0048013)|osteoclast differentiation (GO:0030316)	anchored component of membrane (GO:0031225)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	ephrin receptor binding (GO:0046875)|transmembrane-ephrin receptor activity (GO:0005005)			breast(1)|endometrium(1)|large_intestine(1)|ovary(1)	4	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)			ACTCCAGTAACCCCAGGTAGC	0.726																																																0													6	8	7					1																	155036407		2152	4192	6344	SO:0001819	synonymous_variant	1945			AJ006352	CCDS1089.1, CCDS41407.1, CCDS44237.1	1q21-q22	2011-03-09			ENSG00000243364	ENSG00000243364		"Ephrins"	3224	protein-coding gene	gene with protein product		601380		EPLG4		8660976	Standard	NM_182690		Approved	LERK4		P52798	OTTHUMG00000035309	ENST00000368409.3:c.108C>T	1.37:g.155036407C>T		Somatic		WXS	Illumina HiSeq	Phase_I	C9JHJ8|G3XAK2|O95457|Q5SR71|Q6FI57	Silent	SNP	ENST00000368409.3	37	CCDS1089.1																																																																																				0.726	EFNA4-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000085421.2	NM_005227		T	155036407	C	T	155036407	2	4	663	1	0	0	0	0	0	0	0	1	4955	506	18	2		2	EFNA4	1	155036407	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10	2653596	155036407	94214214	9	41191										
SPTA1	6708	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	158596633	158596633	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	acctgacacatcatacctatCcaagcctctaccacatcagc	3	17	3	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:158596633C>T	ENST00000368147.4	-	41	6009	c.5829G>A	c.(5827-5829)tgG>tgA	p.W1943*		NM_003126.2	NP_003117.2	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1943					actin filament capping (GO:0051693)|actin filament organization (GO:0007015)|axon guidance (GO:0007411)|hemopoiesis (GO:0030097)|lymphocyte homeostasis (GO:0002260)|plasma membrane organization (GO:0007009)|porphyrin-containing compound biosynthetic process (GO:0006779)|positive regulation of protein binding (GO:0032092)|positive regulation of T cell proliferation (GO:0042102)|regulation of cell shape (GO:0008360)	actin cytoskeleton (GO:0015629)|cuticular plate (GO:0032437)|cytosol (GO:0005829)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)|spectrin (GO:0008091)|spectrin-associated cytoskeleton (GO:0014731)	actin filament binding (GO:0051015)|calcium ion binding (GO:0005509)|structural constituent of cytoskeleton (GO:0005200)			NS(3)|breast(7)|cervix(1)|endometrium(22)|kidney(9)|large_intestine(29)|liver(2)|lung(183)|ovary(5)|prostate(18)|skin(11)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(9)|urinary_tract(6)	307	all_hematologic(112;0.0378)					TCATACCTATCCAAGCCTCTA	0.453																																																0													124	125	125					1																	158596633		1887	4111	5998	SO:0001587	stop_gained	6708			M61877	CCDS41423.1	1q21	2014-06-23	2014-06-23		ENSG00000163554	ENSG00000163554		"EF-hand domain containing"	11272	protein-coding gene	gene with protein product	"elliptocytosis 2"	182860	"spectrin, alpha, erythrocytic 1 (elliptocytosis 2)"				Standard	NM_003126		Approved	EL2	uc001fst.1	P02549	OTTHUMG00000019636	ENST00000368147.4:c.5829G>A	1.37:g.158596633C>T	ENSP00000357129:p.Trp1943*	Somatic		WXS	Illumina HiSeq	Phase_I	Q15514|Q5VYL1|Q5VYL2|Q6LDY5	Nonsense_Mutation	SNP	ENST00000368147.4	37	CCDS41423.1	.	.	.	.	.	.	.	.	.	.	C	47	13.469828	0.99744	.	.	ENSG00000163554	ENST00000368148;ENST00000368147	.	.	.	5.41	5.41	0.78517	.	0.000000	0.30410	N	0.009696	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	17.9494	0.89047	0.0:1.0:0.0:0.0	.	.	.	.	X	1943;1940	.	ENSP00000357129:W1940X	W	-	3	0	SPTA1	156863257	1.000000	0.71417	1.000000	0.80357	0.874000	0.50279	7.089000	0.76909	2.816000	0.96949	0.563000	0.77884	TGG		0.453	SPTA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051851.3	NM_003126		T	158596633	C	T	158596633	4	4	663	1	0	0	0	0	0	1	0	0	15128	856	30	2	1478	2	SPTA1	1	158596633	Nonsense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	3560226	158596633	90653988	10	41192										
COPA	1314	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr1	160275563	160275563	+	Splice_Site	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	atcttcacagatgccagagtCctgagatagatagagatgtg	11	7	2	5			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:160275563C>G	ENST00000241704.7	-	16	1672	c.1443G>C	c.(1441-1443)cgG>cgC	p.R481R	COPA_ENST00000368069.3_Splice_Site_p.R481R	NM_001098398.1|NM_004371.3	NP_001091868.1|NP_004362.2	P53621	COPA_HUMAN	coatomer protein complex, subunit alpha	481					COPI coating of Golgi vesicle (GO:0048205)|intracellular protein transport (GO:0006886)|membrane organization (GO:0061024)|pancreatic juice secretion (GO:0030157)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)	COPI vesicle coat (GO:0030126)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	structural molecule activity (GO:0005198)			central_nervous_system(1)|endometrium(5)|kidney(5)|large_intestine(2)|lung(25)|ovary(1)|prostate(3)|skin(1)|stomach(1)|urinary_tract(2)	46	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			ATGCCAGAGTCCTGAGATAGA	0.398																																																0													113	108	110					1																	160275563		2203	4300	6503	SO:0001630	splice_region_variant	1314			U24105	CCDS1202.1, CCDS41424.1	1q23.2	2014-01-30			ENSG00000122218	ENSG00000122218		"WD repeat domain containing", "Endogenous ligands"	2230	protein-coding gene	gene with protein product	"proxenin", "xenin"	601924				8647451	Standard	NM_004371		Approved	HEP-COP	uc001fvv.4	P53621	OTTHUMG00000033111	ENST00000241704.7:c.1443-1G>C	1.37:g.160275563C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T201|Q8IXZ9	Silent	SNP	ENST00000241704.7	37	CCDS1202.1																																																																																				0.398	COPA-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080638.1	NM_004371	Silent	G	160275563	C	G	160275563	5	3	663	1	0	0	0	0	0	0	1	0	3729	869	30	4	2330	4	COPA	1	160275563	Splice_Site	SNP	C	TCGA-KN-8427-01A-11D-2310-10	1678930	160275563	88975058	11	41193										
GPR161	23432	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	168066296	168066296	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gccgtgtagccaggctcccgGtgccaagcagccacacacat	11	16	0	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:168066296G>T	ENST00000367838.1	-	5	862	c.549C>A	c.(547-549)caC>caA	p.H183Q	GPR161_ENST00000367836.1_Missense_Mutation_p.H51Q|GPR161_ENST00000271357.5_Missense_Mutation_p.H183Q|GPR161_ENST00000537209.1_Missense_Mutation_p.H203Q|GPR161_ENST00000367835.1_Missense_Mutation_p.H183Q|GPR161_ENST00000361697.2_Missense_Mutation_p.H183Q|GPR161_ENST00000546300.1_Missense_Mutation_p.H69Q|GPR161_ENST00000539777.1_Missense_Mutation_p.H105Q	NM_001267611.1|NM_153832.2	NP_001254540.1|NP_722561.1	Q8N6U8	GP161_HUMAN	G protein-coupled receptor 161	183					G-protein coupled receptor signaling pathway (GO:0007186)|multicellular organismal development (GO:0007275)|negative regulation of smoothened signaling pathway involved in dorsal/ventral neural tube patterning (GO:1901621)|positive regulation of cAMP biosynthetic process (GO:0030819)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|primary cilium (GO:0072372)|recycling endosome (GO:0055037)	G-protein coupled receptor activity (GO:0004930)			breast(1)|endometrium(3)|large_intestine(8)|lung(10)|ovary(1)|prostate(2)|skin(1)	26	all_hematologic(923;0.215)					CAGGCTCCCGGTGCCAAGCAG	0.587																																																0													71	57	62					1																	168066296		2203	4300	6503	SO:0001583	missense	23432			AF091890	CCDS1268.1, CCDS58042.1, CCDS58043.1, CCDS58044.1, CCDS58045.1, CCDS72978.1	1q23.3	2012-08-21			ENSG00000143147	ENSG00000143147		"GPCR / Class A : Orphans"	23694	protein-coding gene	gene with protein product		612250				11959142	Standard	NM_153832		Approved	RE2	uc009wvo.4	Q8N6U8	OTTHUMG00000034651	ENST00000367838.1:c.549C>A	1.37:g.168066296G>T	ENSP00000356812:p.His183Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B3KV34|B7Z5D7|B7Z5E8|B7Z5Z6|F5GXD6|F5H6J7|O75963|Q5TGK0|Q5TGK1|Q5TGK2	Missense_Mutation	SNP	ENST00000367838.1	37	CCDS1268.1	.	.	.	.	.	.	.	.	.	.	G	14.07	2.426971	0.43122	.	.	ENSG00000143147	ENST00000367838;ENST00000271357;ENST00000367836;ENST00000367835;ENST00000546300;ENST00000539777;ENST00000537209;ENST00000361697	T;T;T;T;T;T;T;T	0.36878	1.23;1.23;1.23;1.23;1.23;1.23;1.23;1.23	5.07	4.12	0.48240	GPCR, rhodopsin-like superfamily (1);	0.000000	0.85682	D	0.000000	T	0.32071	0.0817	L	0.47190	1.495	0.45129	D	0.998149	D;D;D;B;D;D	0.71674	0.976;0.996;0.998;0.356;0.962;0.996	P;P;D;B;B;P	0.64776	0.561;0.852;0.929;0.147;0.253;0.852	T	0.14282	-1.0478	9	0.29301	T	0.29	-32.4148	9.0699	0.36486	0.0784:0.0:0.7731:0.1485	.	203;69;105;203;183;183	F5GXD6;B7Z5E8;F5H6J7;B7Z5Z6;Q8N6U8-2;Q8N6U8	.;.;.;.;.;GP161_HUMAN	Q	183;183;51;183;69;105;203;183	ENSP00000356812:H183Q;ENSP00000271357:H183Q;ENSP00000356810:H51Q;ENSP00000356809:H183Q;ENSP00000444348:H69Q;ENSP00000437576:H105Q;ENSP00000441039:H203Q;ENSP00000355194:H183Q	ENSP00000271357:H183Q	H	-	3	2	GPR161	166332920	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	4.356000	0.59430	1.207000	0.43291	0.561000	0.74099	CAC		0.587	GPR161-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083829.1	NM_007369		T	168066296	G	T	168066296	3	4	663	1	0	0	0	0	1	0	0	0	6672	1252	44	4	1056	4	GPR161	1	168066296	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	7790733	168066296	81184325	12	41194										
FMO3	2328	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	171072967	171072967	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gctagcatttacaaatcagtCttttccaactcttccaaaga	4	11	3	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:171072967C>T	ENST00000367755.4	+	3	285	c.174C>T	c.(172-174)gtC>gtT	p.V58V	FMO3_ENST00000538429.1_Intron|FMO3_ENST00000392085.2_Silent_p.V58V|FMO3_ENST00000542847.1_Silent_p.V38V|MIR1295A_ENST00000408463.1_RNA	NM_001002294.2	NP_001002294.1	P31513	FMO3_HUMAN	flavin containing monooxygenase 3	58					drug metabolic process (GO:0017144)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)	amino acid binding (GO:0016597)|flavin adenine dinucleotide binding (GO:0050660)|N,N-dimethylaniline monooxygenase activity (GO:0004499)|NADP binding (GO:0050661)|trimethylamine monooxygenase activity (GO:0034899)			endometrium(1)|kidney(1)|large_intestine(12)|lung(12)|skin(1)|stomach(2)|urinary_tract(2)	31	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)				Almotriptan(DB00918)|Cimetidine(DB00501)|Clozapine(DB00363)|Dapsone(DB00250)|Dasatinib(DB01254)|Olanzapine(DB00334)|Tamoxifen(DB00675)|Vandetanib(DB05294)|Voriconazole(DB00582)	ACAAATCAGTCTTTTCCAACT	0.423																																																0													169	164	166					1																	171072967		2203	4300	6503	SO:0001819	synonymous_variant	2328			BC032016	CCDS1292.1	1q24.3	2013-10-01			ENSG00000007933	ENSG00000007933	2.6.1.16		3771	protein-coding gene	gene with protein product		136132				8486388, 9417913	Standard	NM_001002294		Approved		uc001ghh.3	P31513	OTTHUMG00000035505	ENST00000367755.4:c.174C>T	1.37:g.171072967C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R816|Q14854|Q8N5N5	Silent	SNP	ENST00000367755.4	37	CCDS1292.1																																																																																				0.423	FMO3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086219.1	NM_006894		T	171072967	C	T	171072967	2	4	663	1	0	0	0	0	0	0	0	1	5963	900	32	2		2	FMO3	1	171072967	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10	3006671	171072967	78177654	13	41195										
PAPPA2	60676	hgsc.bcm.edu;ucsc.edu	37	chr1	176709219	176709219	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tcagtgctgctgaatttctcAtccccacgggtcggcatctc	9	14	3	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:176709219A>C	ENST00000367662.3	+	14	5202	c.4038A>C	c.(4036-4038)tcA>tcC	p.S1346S		NM_020318.2	NP_064714.2	Q9BXP8	PAPP2_HUMAN	pappalysin 2	1346					bone morphogenesis (GO:0060349)|cell differentiation (GO:0030154)|cellular protein metabolic process (GO:0044267)|proteolysis (GO:0006508)|regulation of cell growth (GO:0001558)	extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|membrane (GO:0016020)	metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(3)|breast(3)|central_nervous_system(7)|cervix(5)|endometrium(15)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(19)|lung(136)|ovary(7)|pancreas(1)|prostate(4)|skin(10)|upper_aerodigestive_tract(8)|urinary_tract(1)	226						TGAATTTCTCATCCCCACGGG	0.522																																																0													188	184	185					1																	176709219		2032	4187	6219	SO:0001819	synonymous_variant	60676			BG354569	CCDS41438.1, CCDS41439.1	1q23-q25	2008-05-23	2004-07-07	2004-07-09	ENSG00000116183	ENSG00000116183			14615	protein-coding gene	gene with protein product			"placenta-specific 3"	PLAC3		11018262, 11264294	Standard	NM_021936		Approved	PAPPE, PAPP-A2	uc001gkz.3	Q9BXP8	OTTHUMG00000035025	ENST00000367662.3:c.4038A>C	1.37:g.176709219A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1Y8|Q96PH7|Q96PH8|Q9H4C9	Silent	SNP	ENST00000367662.3	37	CCDS41438.1																																																																																				0.522	PAPPA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084763.1			C	176709219	A	C	176709219	2	2	663	1	0	0	0	0	0	0	0	1	11440	204	8	5		5	PAPPA2	1	176709219	Silent	SNP	A	TCGA-KN-8427-01A-11D-2310-10	5636252	176709219	72541402	14	41196										
F13B	2165	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	197026583	197026583	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gcagaggtggaggaggacatCtgtttcttcttccttatgga	13	7	3	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:197026583C>T	ENST00000367412.1	-	6	861	c.818G>A	c.(817-819)aGa>aAa	p.R273K		NM_001994.2	NP_001985.2	P05160	F13B_HUMAN	coagulation factor XIII, B polypeptide	273	Sushi 5. {ECO:0000255|PROSITE- ProRule:PRU00302}.				blood coagulation (GO:0007596)	extracellular region (GO:0005576)				breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(5)|liver(1)|lung(40)|prostate(2)|skin(4)|upper_aerodigestive_tract(3)	66						AGGAGGACATCTGTTTCTTCT	0.294																																																0													149	129	136					1																	197026583		2203	4300	6503	SO:0001583	missense	2165			M14057	CCDS1388.1	1q31-q32.1	2012-10-02			ENSG00000143278	ENSG00000143278			3534	protein-coding gene	gene with protein product		134580				2339067, 2271707	Standard	NM_001994		Approved	FXIIIB	uc001gtt.1	P05160	OTTHUMG00000036519	ENST00000367412.1:c.818G>A	1.37:g.197026583C>T	ENSP00000356382:p.Arg273Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3E5|Q5VYL5	Missense_Mutation	SNP	ENST00000367412.1	37	CCDS1388.1	.	.	.	.	.	.	.	.	.	.	C	11.10	1.539171	0.27475	.	.	ENSG00000143278	ENST00000367412	T	0.70399	-0.48	5.65	5.65	0.86999	Complement control module (2);Sushi/SCR/CCP (1);	0.000000	0.29692	N	0.011460	T	0.47875	0.1469	N	0.12920	0.275	0.32124	N	0.587586	B	0.23540	0.087	B	0.28011	0.085	T	0.50268	-0.8848	10	0.06236	T	0.91	.	7.3866	0.26886	0.0:0.801:0.0:0.199	.	273	P05160	F13B_HUMAN	K	273	ENSP00000356382:R273K	ENSP00000356382:R273K	R	-	2	0	F13B	195293206	1.000000	0.71417	0.996000	0.52242	0.985000	0.73830	3.294000	0.51787	2.655000	0.90218	0.655000	0.94253	AGA		0.294	F13B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088821.2	NM_001994		T	197026583	C	T	197026583	3	4	663	1	0	0	0	0	1	0	0	0	5343	913	32	2	1195	2	F13B	1	197026583	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	20317364	197026583	52224038	15	41197										
TIMM17A	10440	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	201934576	201934576	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ttcagatggaccagtggccaTggttgggtcagccgcaatgg	15	9	2	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:201934576T>C	ENST00000367287.4	+	5	371	c.335T>C	c.(334-336)aTg>aCg	p.M112T	TIMM17A_ENST00000482943.1_3'UTR	NM_006335.2	NP_006326.1	Q99595	TI17A_HUMAN	translocase of inner mitochondrial membrane 17 homolog A (yeast)	112					cellular protein metabolic process (GO:0044267)|protein targeting to mitochondrion (GO:0006626)	integral component of mitochondrial inner membrane (GO:0031305)|mitochondrial inner membrane presequence translocase complex (GO:0005744)	P-P-bond-hydrolysis-driven protein transmembrane transporter activity (GO:0015450)			kidney(1)|lung(3)|stomach(1)	5						CCAGTGGCCATGGTTGGGTCA	0.408																																																0													116	116	116					1																	201934576		2203	4300	6503	SO:0001583	missense	10440			AF106622	CCDS1417.1	1q32.1	2008-05-23			ENSG00000134375	ENSG00000134375			17315	protein-coding gene	gene with protein product		605057				8893850, 10339406	Standard	NM_006335		Approved	TIM17, TIM17A	uc001gxc.3	Q99595	OTTHUMG00000035806	ENST00000367287.4:c.335T>C	1.37:g.201934576T>C	ENSP00000356256:p.Met112Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDM5|Q9BWF5	Missense_Mutation	SNP	ENST00000367287.4	37	CCDS1417.1	.	.	.	.	.	.	.	.	.	.	T	17.77	3.470423	0.63625	.	.	ENSG00000134375	ENST00000367287	T	0.32272	1.46	5.36	5.36	0.76844	.	0.000000	0.85682	D	0.000000	T	0.43211	0.1237	M	0.65677	2.01	0.80722	D	1	P	0.45634	0.863	P	0.49953	0.627	T	0.32241	-0.9914	10	0.44086	T	0.13	-0.0327	13.5811	0.61903	0.0:0.0:0.0:1.0	.	112	Q99595	TI17A_HUMAN	T	112	ENSP00000356256:M112T	ENSP00000356256:M112T	M	+	2	0	TIMM17A	200201199	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.620000	0.83070	2.151000	0.67156	0.533000	0.62120	ATG		0.408	TIMM17A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087092.1	NM_006335		C	201934576	T	C	201934576	3	2	663	1	0	0	0	0	1	0	0	0	15920	1464	51	3	353	3	TIMM17A	1	201934576	Missense_Mutation	SNP	T	TCGA-KN-8427-01A-11D-2310-10	4907993	201934576	47316045	16	41198										
OBSCN	84033	mdanderson.org;bcgsc.ca	37	chr1	228433197	228433197	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ccactgccatgctgagctgtGaggtggcccagccccagaca	12	15	0	3			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:228433197G>C	ENST00000422127.1	+	12	3609	c.3565G>C	c.(3565-3567)Gag>Cag	p.E1189Q	OBSCN_ENST00000284548.11_Missense_Mutation_p.E1189Q|OBSCN_ENST00000570156.2_Missense_Mutation_p.E1281Q|OBSCN_ENST00000366707.4_5'UTR|OBSCN_ENST00000366709.4_5'UTR	NM_001098623.2	NP_001092093.2	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF	1189	Ig-like 12.				apoptotic signaling pathway (GO:0097190)|multicellular organismal development (GO:0007275)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|protein localization to M-band (GO:0036309)|regulation of small GTPase mediated signal transduction (GO:0051056)|sarcomere organization (GO:0045214)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|M band (GO:0031430)|myofibril (GO:0030016)|Z disc (GO:0030018)	ankyrin binding (GO:0030506)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			NS(2)|breast(7)|central_nervous_system(5)|cervix(2)|endometrium(30)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(37)|lung(89)|ovary(8)|pancreas(3)|prostate(13)|skin(6)|stomach(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	223		Prostate(94;0.0405)				GCTGAGCTGTGAGGTGGCCCA	0.597																																																0													81	81	81					1																	228433197		2092	4205	6297	SO:0001583	missense	84033			AJ002535	CCDS1570.2, CCDS58065.1, CCDS59204.1	1q42	2014-09-17			ENSG00000154358	ENSG00000154358		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	15719	protein-coding gene	gene with protein product		608616				11448995, 11814696	Standard	NM_001098623		Approved	KIAA1556, UNC89, KIAA1639, ARHGEF30	uc001hsq.2	Q5VST9	OTTHUMG00000039772	ENST00000422127.1:c.3565G>C	1.37:g.228433197G>C	ENSP00000409493:p.Glu1189Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q2A664|Q5T7G8|Q5T7G9|Q5VSU2|Q86YC7|Q8NHN0|Q8NHN1|Q8NHN2|Q8NHN3|Q8NHN4|Q8NHN5|Q8NHN6|Q8NHN7|Q8NHN8|Q8NHN9|Q96AA2|Q9HCD3|Q9HCL6	Missense_Mutation	SNP	ENST00000422127.1	37	CCDS58065.1	.	.	.	.	.	.	.	.	.	.	.	12.34	1.907297	0.33628	.	.	ENSG00000154358	ENST00000284548;ENST00000422127	T;T	0.66995	-0.24;-0.24	4.39	2.32	0.28847	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.133963	0.49305	D	0.000157	T	0.74145	0.3678	L	0.45744	1.44	0.80722	D	1	D;D	0.89917	0.998;1.0	D;D	0.74348	0.963;0.983	T	0.74225	-0.3734	10	0.46703	T	0.11	.	13.6689	0.62412	0.0:0.2958:0.7042:0.0	.	1189;1189	Q5VST9;Q5VST9-3	OBSCN_HUMAN;.	Q	1189	ENSP00000284548:E1189Q;ENSP00000409493:E1189Q	ENSP00000284548:E1189Q	E	+	1	0	OBSCN	226499820	1.000000	0.71417	0.959000	0.39883	0.262000	0.26303	3.976000	0.56867	0.822000	0.34565	0.306000	0.20318	GAG		0.597	OBSCN-204	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_052843		C	228433197	G	C	228433197	3	2	663	1	0	0	0	0	1	0	0	0	10819	1291	45	4	3607	4	OBSCN	1	228433197	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	26498621	228433197	20817424	17	41199										
OR2T27	403239	mdanderson.org	37	chr1	248813271	248813271	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cctgaggacacacacctcccCacaaccttctgtagggcccc	7	19	1	1	rs2802081	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr1:248813271C>A	ENST00000344889.3	-	1	914	c.915G>T	c.(913-915)gtG>gtT	p.V305V		NM_001001824.1	NP_001001824.1	Q8NH04	O2T27_HUMAN	olfactory receptor, family 2, subfamily T, member 27	305						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(2)|endometrium(2)|large_intestine(4)|lung(20)|skin(3)|stomach(1)	32	all_cancers(71;1.15e-05)|all_epithelial(71;5.29e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.089)|Lung NSC(105;0.0969)|Melanoma(84;0.199)	all_cancers(173;0.237)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CACACCTCCCCACAACCTTCT	0.443													c|||	332	0.0662939	0.025	0.0749	5008	,	,		20910	0.0615		0.1074	False		,,,				2504	0.0787															0													65	69	68					1																	248813271		2180	4274	6454	SO:0001819	synonymous_variant	403239				CCDS31124.1	1q44	2012-08-09			ENSG00000187701	ENSG00000187701		"GPCR / Class A : Olfactory receptors"	31252	protein-coding gene	gene with protein product							Standard	NM_001001824		Approved		uc010pzo.2	Q8NH04	OTTHUMG00000040376	ENST00000344889.3:c.915G>T	1.37:g.248813271C>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000344889.3	37	CCDS31124.1																																																																																				0.443	OR2T27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097124.1	NM_001001824		A	248813271	C	A	248813271	2	1	663	1	0	0	0	0	0	0	0	1	11028	581	21	4		4	OR2T27	1	248813271	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10	20380074	248813271	437350	18	41200										
WDR35	57539	hgsc.bcm.edu;ucsc.edu	37	chr2	20189771	20189771	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	actttcttgctcaggtagaaGaacatcgtgggatccccgag	11	10	2	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr2:20189771G>A	ENST00000345530.3	-	1	121	c.6C>T	c.(4-6)ttC>ttT	p.F2F	AC079145.4_ENST00000416575.1_RNA|WDR35_ENST00000281405.4_Silent_p.F2F	NM_001006657.1	NP_001006658.1	Q9P2L0	WDR35_HUMAN	WD repeat domain 35	2					cilium assembly (GO:0042384)|intraciliary retrograde transport (GO:0035721)	axoneme (GO:0005930)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|intraciliary transport particle A (GO:0030991)				breast(1)|endometrium(5)|kidney(8)|large_intestine(8)|lung(16)|ovary(2)|prostate(1)|skin(1)|stomach(1)	43	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCAGGTAGAAGAACATCGTGG	0.617																																																0													81	69	73					2																	20189771		2203	4300	6503	SO:0001819	synonymous_variant	57539			AB037757	CCDS1695.1, CCDS33152.1	2p24.3	2014-02-21			ENSG00000118965	ENSG00000118965		"WD repeat domain containing", "Intraflagellar transport homologs"	29250	protein-coding gene	gene with protein product		613602				10718198	Standard	NM_001006657		Approved	MGC33196, KIAA1336, IFT121, IFTA1	uc002rdi.3	Q9P2L0	OTTHUMG00000090737	ENST00000345530.3:c.6C>T	2.37:g.20189771G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KVI5|Q4ZG01|Q8NE11	Silent	SNP	ENST00000345530.3	37	CCDS33152.1																																																																																				0.617	WDR35-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000207472.2	NM_020779		A	20189771	G	A	20189771	2	1	663	1	0	0	0	0	0	0	0	1	17301	933	33	2		2	WDR35	2	20189771	Silent	SNP	G	TCGA-KN-8427-01A-11D-2310-10		20189771	223009602	19	41201										
EPT1	85465	broad.mit.edu;mdanderson.org	37	chr2	26596325	26596325	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cctggatagttggtcatgtgTttactttgttgtgactgttt	11	5	1	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr2:26596325T>C	ENST00000260585.7	+	5	520	c.401T>C	c.(400-402)gTt>gCt	p.V134A		NM_033505.2	NP_277040.1	Q9C0D9	EPT1_HUMAN	ethanolaminephosphotransferase 1 (CDP-ethanolamine-specific)	134					glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylethanolamine biosynthetic process (GO:0006646)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	ethanolaminephosphotransferase activity (GO:0004307)|metal ion binding (GO:0046872)										TGGTCATGTGTTTACTTTGTT	0.423																																																0													154	147	149					2																	26596325		1919	4133	6052	SO:0001583	missense	85465				CCDS46240.1	2p23.3	2012-03-01			ENSG00000138018	ENSG00000138018	2.7.8.1		29361	protein-coding gene	gene with protein product	"selenoprotein I"	607915				11214970, 17132865	Standard	NM_033505		Approved	KIAA1724, SELI, SEPI	uc021veu.1	Q9C0D9	OTTHUMG00000151931	ENST00000260585.7:c.401T>C	2.37:g.26596325T>C	ENSP00000260585:p.Val134Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q63ZE3	Missense_Mutation	SNP	ENST00000260585.7	37	CCDS46240.1	.	.	.	.	.	.	.	.	.	.	T	17.55	3.416932	0.62511	.	.	ENSG00000138018	ENST00000442141;ENST00000260585	T;T	0.43294	0.95;0.95	5.97	5.97	0.96955	.	0.213778	0.49305	D	0.000152	T	0.35364	0.0929	L	0.38953	1.18	0.58432	D	0.999994	P	0.35684	0.515	B	0.37387	0.248	T	0.10497	-1.0627	10	0.15952	T	0.53	0.0353	15.2692	0.73686	0.0:0.0:0.0:1.0	.	134	Q9C0D9	EPT1_HUMAN	A	102;134	ENSP00000415280:V102A;ENSP00000260585:V134A	ENSP00000260585:V134A	V	+	2	0	EPT1	26449829	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.790000	0.85794	2.281000	0.76405	0.528000	0.53228	GTT		0.423	EPT1-001	KNOWN	basic|appris_principal|CCDS|seleno	protein_coding	protein_coding	OTTHUMT00000324484.3	NM_033505.2		C	26596325	T	C	26596325	3	2	663	1	0	0	0	0	1	0	0	0	5201	1725	60	3	419	3	EPT1	2	26596325	Missense_Mutation	SNP	T	TCGA-KN-8427-01A-11D-2310-10	6406554	26596325	216603048	20	41202										
FOXN2	3344	broad.mit.edu	37	chr2	48602092	48602092	+	Frame_Shift_Del	DEL	A	A	-													0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tcctcttaaaacagcattgcAaaaaaagaggagttacggca							TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr2:48602092delA	ENST00000340553.3	+	7	1067	c.806delA	c.(805-807)caafs	p.Q269fs		NM_002158.3	NP_002149.2	P32314	FOXN2_HUMAN	forkhead box N2	269					transcription, DNA-templated (GO:0006351)	intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(1)|kidney(1)|large_intestine(3)|lung(5)|prostate(1)|skin(1)|urinary_tract(1)	13		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.0272)|LUSC - Lung squamous cell carcinoma(58;0.036)			ACAGCATTGCAAAAAAAGAGG	0.383																																																0													60	56	57					2																	48602092		2203	4300	6503	SO:0001589	frameshift_variant	3344				CCDS1838.1	2p22-p16	2008-02-05	2006-10-02	2006-10-02	ENSG00000170802	ENSG00000170802		"Forkhead boxes"	5281	protein-coding gene	gene with protein product		143089	"human T-cell leukemia virus enhancer factor"	HTLF		1639393	Standard	NM_002158		Approved		uc002rwh.1	P32314	OTTHUMG00000129168	ENST00000340553.3:c.806delA	2.37:g.48602092delA	ENSP00000343633:p.Gln269fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q15769|Q6P4Q2	Frame_Shift_Del	DEL	ENST00000340553.3	37	CCDS1838.1																																																																																				0.383	FOXN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251240.3	NM_002158		-	48602092	A	-	48602092	7	5	663	1	0	1	0	1	0	0	0	0	6027	130	5	0	824	0	FOXN2	2	48602092	Frame_Shift_Del	DEL	A	TCGA-KN-8427-01A-11D-2310-10	22005767	48602092	194597281	21	41203										
AFTPH	54812	broad.mit.edu	37	chr2	64779179	64779179	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	atgggtttgcagtgttggaaActgtaaatcctcagggaaca	12	6	1	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr2:64779179A>G	ENST00000422803.1	+	2	885	c.571A>G	c.(571-573)Act>Gct	p.T191A	AFTPH_ENST00000238855.7_Missense_Mutation_p.T191A|AFTPH_ENST00000238856.4_Missense_Mutation_p.T191A|AFTPH_ENST00000409183.1_5'Flank|AFTPH_ENST00000409933.1_Missense_Mutation_p.T191A			Q6ULP2	AFTIN_HUMAN	aftiphilin	191					protein transport (GO:0015031)	AP-1 adaptor complex (GO:0030121)|cytosol (GO:0005829)	clathrin binding (GO:0030276)			breast(3)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(2)|prostate(1)|skin(3)|urinary_tract(1)	35						AGTGTTGGAAACTGTAAATCC	0.408																																																0													98	92	94					2																	64779179		2203	4300	6503	SO:0001583	missense	54812			AB073356	CCDS1878.1, CCDS46303.1	2p14	2008-02-05			ENSG00000119844	ENSG00000119844			25951	protein-coding gene	gene with protein product						14665628, 15758025, 15811338	Standard	NM_017657		Approved	MGC33965, FLJ20080, FLJ23793, Nbla10388	uc002scz.3	Q6ULP2	OTTHUMG00000129539	ENST00000422803.1:c.571A>G	2.37:g.64779179A>G	ENSP00000397726:p.Thr191Ala	Somatic		WXS	Illumina HiSeq	Phase_I	D6W5E9|Q6ZM66|Q86VW3|Q8TCF3|Q9H7E3|Q9HAB9|Q9NXS4	Missense_Mutation	SNP	ENST00000422803.1	37		.	.	.	.	.	.	.	.	.	.	A	13.97	2.395228	0.42512	.	.	ENSG00000119844	ENST00000238856;ENST00000422803;ENST00000238855;ENST00000409933	T;T;T;T	0.28666	1.6;1.6;1.6;1.6	5.78	5.78	0.91487	.	0.060058	0.64402	D	0.000006	T	0.44912	0.1316	L	0.50333	1.59	0.29016	N	0.886606	D;D;D;D	0.67145	0.972;0.972;0.972;0.996	P;P;P;D	0.76071	0.673;0.673;0.673;0.987	T	0.43065	-0.9414	10	0.34782	T	0.22	-12.7051	8.3488	0.32290	0.7333:0.1436:0.0:0.1231	.	191;191;191;191	Q6ULP2;Q6ULP2-2;Q6ULP2-5;Q6ULP2-4	AFTIN_HUMAN;.;.;.	A	191	ENSP00000238856:T191A;ENSP00000397726:T191A;ENSP00000238855:T191A;ENSP00000387071:T191A	ENSP00000238855:T191A	T	+	1	0	AFTPH	64632683	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	1.826000	0.39092	2.333000	0.79357	0.482000	0.46254	ACT		0.408	AFTPH-202	KNOWN	basic	protein_coding	protein_coding		NM_017657		G	64779179	A	G	64779179	3	3	663	1	0	0	0	0	1	0	0	0	364	43	2	3	573	3	AFTPH	2	64779179	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10	16177087	64779179	178420194	22	41204										
RMND5A	64795	bcgsc.ca	37	chr2	86993084	86993084	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ccagtgggctgatatctgtgAcatctttacacgggatgctt	11	9	2	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr2:86993084A>G	ENST00000283632.4	+	6	1286	c.791A>G	c.(790-792)gAc>gGc	p.D264G	RMND5A_ENST00000472843.1_3'UTR	NM_022780.3	NP_073617.1	Q9H871	RMD5A_HUMAN	required for meiotic nuclear division 5 homolog A (S. cerevisiae)	264										kidney(1)|liver(2)|lung(8)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	17						GATATCTGTGACATCTTTACA	0.483																																																0													170	145	154					2																	86993084		2203	4300	6503	SO:0001583	missense	64795			BC012165	CCDS1991.1	2p11.2	2012-07-20			ENSG00000153561	ENSG00000153561			25850	protein-coding gene	gene with protein product	"GID complex subunit 2 homolog A"					12477932	Standard	NM_022780		Approved	FLJ13910, RMD5, GID2, GID2A	uc002srs.4	Q9H871	OTTHUMG00000130262	ENST00000283632.4:c.791A>G	2.37:g.86993084A>G	ENSP00000283632:p.Asp264Gly	Somatic		WXS	Illumina HiSeq	Phase_I	D6W5M6|Q6NTF0|Q9H6W5|Q9H9H2	Missense_Mutation	SNP	ENST00000283632.4	37	CCDS1991.1	.	.	.	.	.	.	.	.	.	.	A	18.46	3.629806	0.67015	.	.	ENSG00000153561	ENST00000283632	.	.	.	5.42	5.42	0.78866	Ran binding protein-like, CRA domain (1);	0.136762	0.49916	D	0.000125	T	0.68869	0.3048	M	0.76838	2.35	0.58432	D	0.999999	B	0.33940	0.433	B	0.41946	0.371	T	0.66995	-0.5782	9	0.25751	T	0.34	-14.9569	15.5303	0.75956	1.0:0.0:0.0:0.0	.	264	Q9H871	RMD5A_HUMAN	G	264	.	ENSP00000283632:D264G	D	+	2	0	RMND5A	86846595	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.339000	0.96797	2.074000	0.62210	0.529000	0.55759	GAC		0.483	RMND5A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252591.2	NM_022780		G	86993084	A	G	86993084	3	3	663	1	0	0	0	0	1	0	0	0	13410	275	10	3	813	3	RMND5A	2	86993084	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10	22213905	86993084	156206289	23	41205										
PROM2	150696	broad.mit.edu	37	chr2	95944771	95944771	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cccagcagccggaaggggtgAggacactggctgaagggttc	17	10	0	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr2:95944771A>G	ENST00000317620.9	+	10	1286	c.1153A>G	c.(1153-1155)Agg>Ggg	p.R385G	PROM2_ENST00000317668.4_Missense_Mutation_p.R385G|PROM2_ENST00000403131.2_Missense_Mutation_p.R385G|PROM2_ENST00000542147.1_Missense_Mutation_p.R385G	NM_001165978.1	NP_001159450.1	Q8N271	PROM2_HUMAN	prominin 2	385					negative regulation of caveolin-mediated endocytosis (GO:2001287)|negative regulation of pinocytosis (GO:0048550)|positive regulation of cell projection organization (GO:0031346)|positive regulation of protein phosphorylation (GO:0001934)|regulation of Cdc42 GTPase activity (GO:0043088)	cell projection (GO:0042995)|cell surface (GO:0009986)|cilium (GO:0005929)|cytoplasmic vesicle (GO:0031410)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|microspike (GO:0044393)|microvillus (GO:0005902)|prominosome (GO:0071914)	cholesterol binding (GO:0015485)			breast(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(8)|lung(12)|ovary(3)|prostate(1)|skin(1)|urinary_tract(1)	32						GGAAGGGGTGAGGACACTGGC	0.657																																																0													37	40	39					2																	95944771		2201	4300	6501	SO:0001583	missense	150696			AF245303	CCDS2012.1	2q11.1	2008-02-05			ENSG00000155066	ENSG00000155066			20685	protein-coding gene	gene with protein product						12514187	Standard	NM_001165978		Approved		uc002sui.3	Q8N271	OTTHUMG00000130393	ENST00000317620.9:c.1153A>G	2.37:g.95944771A>G	ENSP00000318270:p.Arg385Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2V1|Q2HIX6|Q8NB84|Q8TAE2	Missense_Mutation	SNP	ENST00000317620.9	37	CCDS2012.1	.	.	.	.	.	.	.	.	.	.	A	9.663	1.144612	0.21288	.	.	ENSG00000155066	ENST00000403131;ENST00000317668;ENST00000317620;ENST00000542147	T;T;T;T	0.46819	0.86;0.86;0.86;0.86	4.94	2.51	0.30379	.	0.521662	0.19916	N	0.103189	T	0.37293	0.0998	L	0.54323	1.7	0.33255	D	0.558947	B	0.27013	0.166	B	0.28916	0.096	T	0.39057	-0.9632	10	0.27785	T	0.31	-10.1149	4.6092	0.12392	0.7015:0.1981:0.1004:0.0	.	385	Q8N271	PROM2_HUMAN	G	385	ENSP00000385716:R385G;ENSP00000318520:R385G;ENSP00000318270:R385G;ENSP00000442542:R385G	ENSP00000318270:R385G	R	+	1	2	PROM2	95308498	0.109000	0.22037	0.893000	0.35052	0.262000	0.26303	1.777000	0.38604	0.811000	0.34303	0.496000	0.49642	AGG		0.657	PROM2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252771.1	NM_144707		G	95944771	A	G	95944771	3	3	663	1	0	0	0	0	1	0	0	0	12566	295	11	3	1191	3	PROM2	2	95944771	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10	8951687	95944771	147254602	24	41206										
KYNU	8942	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	143713785	143713785	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	attgcagttatcattttttaAgcctacgccaaaacgatata	5	8	1	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr2:143713785A>G	ENST00000264170.4	+	6	707	c.449A>G	c.(448-450)aAg>aGg	p.K150R	KYNU_ENST00000375773.2_Missense_Mutation_p.K150R|KYNU_ENST00000409512.1_Missense_Mutation_p.K150R	NM_003937.2	NP_003928.1			kynureninase											large_intestine(10)|liver(1)|lung(18)|prostate(3)|skin(4)	36				BRCA - Breast invasive adenocarcinoma(221;0.072)		TCATTTTTTAAGCCTACGCCA	0.289																																																0													85	85	85					2																	143713785		2203	4298	6501	SO:0001583	missense	8942			U57721	CCDS2183.1, CCDS33299.1	2q22.2	2010-11-23	2010-11-23		ENSG00000115919	ENSG00000115919	3.7.1.3		6469	protein-coding gene	gene with protein product	"L-kynurenine hydrolase"	605197	"kynureninase (L-kynurenine hydrolase)"			8706755, 9180257	Standard	NM_001199241		Approved		uc002tvl.3	Q16719	OTTHUMG00000131829	ENST00000264170.4:c.449A>G	2.37:g.143713785A>G	ENSP00000264170:p.Lys150Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000264170.4	37	CCDS2183.1	.	.	.	.	.	.	.	.	.	.	A	3.590	-0.083860	0.07141	.	.	ENSG00000115919	ENST00000264170;ENST00000375773;ENST00000409512	T;T;T	0.54479	0.57;0.57;0.57	4.76	4.76	0.60689	Pyridoxal phosphate-dependent transferase, major region, subdomain 2 (1);Pyridoxal phosphate-dependent transferase, major domain (1);Aminotransferase, class V/Cysteine desulfurase (1);	0.053541	0.64402	D	0.000001	T	0.27900	0.0687	N	0.12443	0.215	0.80722	D	1	B;B	0.09022	0.001;0.002	B;B	0.15870	0.012;0.014	T	0.14896	-1.0456	10	0.02654	T	1	.	9.1649	0.37046	0.9171:0.0:0.0829:0.0	.	150;150	Q16719;Q9BVW3	KYNU_HUMAN;.	R	150	ENSP00000264170:K150R;ENSP00000364928:K150R;ENSP00000386731:K150R	ENSP00000264170:K150R	K	+	2	0	KYNU	143430255	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	5.398000	0.66308	1.912000	0.55364	0.482000	0.46254	AAG		0.289	KYNU-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254772.1	NM_001032998		G	143713785	A	G	143713785	3	3	663	1	0	0	0	0	1	0	0	0	8594	72	3	3	467	3	KYNU	2	143713785	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10	47769014	143713785	99485588	25	41207										
MBD5	55777	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	149247532	149247532	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	aggggagcgaaacaggtggaAgtacgaggaatttttagatc	15	4	0	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr2:149247532A>C	ENST00000407073.1	+	12	4629	c.3632A>C	c.(3631-3633)aAg>aCg	p.K1211T	MBD5_ENST00000404807.1_Missense_Mutation_p.K1444T	NM_018328.4	NP_060798.2	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	1211					glucose homeostasis (GO:0042593)|nervous system development (GO:0007399)|positive regulation of growth hormone receptor signaling pathway (GO:0060399)|regulation of multicellular organism growth (GO:0040014)|single-organism behavior (GO:0044708)	chromocenter (GO:0010369)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	chromatin binding (GO:0003682)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(8)|kidney(1)|large_intestine(16)|lung(22)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(3)	62				BRCA - Breast invasive adenocarcinoma(221;0.0569)		AACAGGTGGAAGTACGAGGAA	0.488																																																0													116	109	112					2																	149247532		2203	4300	6503	SO:0001583	missense	55777			AB040894	CCDS33302.1	2q23.2	2009-04-17			ENSG00000204406	ENSG00000204406			20444	protein-coding gene	gene with protein product		611472				12529184	Standard	NM_018328		Approved	FLJ11113, KIAA1461	uc002twm.4	Q9P267	OTTHUMG00000150440	ENST00000407073.1:c.3632A>C	2.37:g.149247532A>C	ENSP00000386049:p.Lys1211Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A5HMQ4|A7E2B1|Q53SR1|Q9NUV6	Missense_Mutation	SNP	ENST00000407073.1	37	CCDS33302.1	.	.	.	.	.	.	.	.	.	.	A	15.68	2.905528	0.52333	.	.	ENSG00000204406	ENST00000407073;ENST00000404807	T;T	0.51071	0.73;0.72	6.01	4.87	0.63330	.	0.084798	0.50627	D	0.000113	T	0.35393	0.0930	N	0.24115	0.695	0.34601	D	0.716486	B;B	0.25312	0.123;0.123	B;B	0.24974	0.057;0.034	T	0.47032	-0.9148	10	0.87932	D	0	-4.5836	11.9889	0.53163	0.9328:0.0:0.0672:0.0	.	1444;1211	E9PHH0;Q9P267	.;MBD5_HUMAN	T	1211;1444	ENSP00000386049:K1211T;ENSP00000384672:K1444T	ENSP00000384672:K1444T	K	+	2	0	MBD5	148964002	1.000000	0.71417	0.899000	0.35326	0.989000	0.77384	4.135000	0.57997	1.107000	0.41642	0.533000	0.62120	AAG		0.488	MBD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318111.2			C	149247532	A	C	149247532	3	2	663	1	0	0	0	0	1	0	0	0	9354	72	3	5	3658	5	MBD5	2	149247532	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10	5533747	149247532	93951841	26	41208										
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	179437087	179437087	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cattttctgcgagaaccctgAaatagtagctacagccttct	7	11	2	2	rs371513695		TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr2:179437087A>G	ENST00000591111.1	-	276	69073	c.68849T>C	c.(68848-68850)tTc>tCc	p.F22950S	TTN_ENST00000342175.6_Missense_Mutation_p.F15718S|TTN_ENST00000359218.5_Missense_Mutation_p.F15651S|TTN_ENST00000460472.2_Missense_Mutation_p.F15526S|TTN-AS1_ENST00000592600.1_RNA|TTN-AS1_ENST00000592630.1_RNA|TTN-AS1_ENST00000438095.1_RNA|TTN-AS1_ENST00000591332.1_RNA|TTN-AS1_ENST00000590807.1_RNA|TTN_ENST00000342992.6_Missense_Mutation_p.F22023S|TTN-AS1_ENST00000592689.1_RNA|TTN-AS1_ENST00000590932.1_RNA|TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000592750.1_RNA|TTN-AS1_ENST00000586707.1_RNA|TTN-AS1_ENST00000419746.1_RNA|TTN_ENST00000589042.1_Missense_Mutation_p.F24591S|TTN-AS1_ENST00000456053.1_RNA|TTN-AS1_ENST00000586452.1_RNA|TTN-AS1_ENST00000586831.1_RNA			Q8WZ42	TITIN_HUMAN	titin	22950	Fibronectin type-III 66. {ECO:0000255|PROSITE-ProRule:PRU00316}.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAGAACCCTGAAATAGTAGCT	0.448																																																0													80	75	77					2																	179437087		1888	4117	6005	SO:0001583	missense	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.68849T>C	2.37:g.179437087A>G	ENSP00000465570:p.Phe22950Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	A	13.65	2.301097	0.40694	.	.	ENSG00000155657	ENST00000342992;ENST00000460472;ENST00000342175;ENST00000359218;ENST00000356127	T;T;T;T	0.61980	0.06;0.06;0.06;0.06	6.07	6.07	0.98685	Fibronectin, type III (4);Peptidase C2, calpain, large subunit, domain III (1);Ribonuclease H-like (1);Immunoglobulin-like fold (1);	.	.	.	.	D	0.89487	0.6729	H	0.99834	4.825	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.91635	0.999;0.999;0.999;0.999	D	0.94293	0.7530	9	0.87932	D	0	.	16.6277	0.84984	1.0:0.0:0.0:0.0	.	15526;15651;15718;22950	D3DPF9;E7EQE6;E7ET18;Q8WZ42	.;.;.;TITIN_HUMAN	S	22023;15526;15718;15651;15524	ENSP00000343764:F22023S;ENSP00000434586:F15526S;ENSP00000340554:F15718S;ENSP00000352154:F15651S	ENSP00000340554:F15718S	F	-	2	0	TTN	179145333	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.339000	0.96797	2.330000	0.79161	0.528000	0.53228	TTC		0.448	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		G	179437087	A	G	179437087	3	3	663	1	0	0	0	0	1	0	0	0	16747	246	9	3	34355	3	TTN	2	179437087	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10	30189555	179437087	63762286	27	41209										
TTN	7273	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr2	179644742	179644742	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ctcacctgatcttctacataAgttctgaccactacagtatc	4	13	4	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr2:179644742A>C	ENST00000591111.1	-	22	3938	c.3714T>G	c.(3712-3714)acT>acG	p.T1238T	TTN_ENST00000342175.6_Silent_p.T1192T|TTN_ENST00000359218.5_Silent_p.T1192T|TTN_ENST00000460472.2_Silent_p.T1192T|TTN_ENST00000342992.6_Silent_p.T1238T|RP11-88L24.4_ENST00000582038.2_RNA|TTN_ENST00000360870.5_Silent_p.T1238T|TTN_ENST00000589042.1_Silent_p.T1238T			Q8WZ42	TITIN_HUMAN	titin	33443					adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)	p.T1192T(5)|p.T1238T(4)		NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTCTACATAAGTTCTGACCA	0.308																																																9	Substitution - coding silent(9)	large_intestine(5)|stomach(4)											126	115	119					2																	179644742		2203	4300	6503	SO:0001819	synonymous_variant	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.3714T>G	2.37:g.179644742A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Silent	SNP	ENST00000591111.1	37																																																																																					0.308	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		C	179644742	A	C	179644742	2	2	663	1	0	0	0	0	0	0	0	1	16747	59	3	5		5	TTN	2	179644742	Silent	SNP	A	TCGA-KN-8427-01A-11D-2310-10	207655	179644742	63554631	28	41210										
ARL4C	10123	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	235404686	235404686	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tctgcttgagggacttcctgCgtttcaggatcatctcatag	10	10	4	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr2:235404686C>T	ENST00000390645.2	-	1	1011	c.545G>A	c.(544-546)cGc>cAc	p.R182H	ARL4C_ENST00000339728.3_Missense_Mutation_p.R182H	NM_005737.3	NP_005728.2	P56559	ARL4C_HUMAN	ADP-ribosylation factor-like 4C	182					endocytic recycling (GO:0032456)|GTP catabolic process (GO:0006184)|small GTPase mediated signal transduction (GO:0007264)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	alpha-tubulin binding (GO:0043014)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)	p.R182H(1)		endometrium(1)|ovary(1)|skin(1)|urinary_tract(1)	4		Breast(86;0.000596)|Renal(207;0.00339)|all_lung(227;0.00354)|all_hematologic(139;0.0494)|Lung NSC(271;0.0496)|Lung SC(224;0.164)|all_neural(83;0.173)		Epithelial(121;2.6e-19)|BRCA - Breast invasive adenocarcinoma(100;0.000296)|Lung(119;0.002)|LUSC - Lung squamous cell carcinoma(224;0.0048)		GGACTTCCTGCGTTTCAGGAT	0.587																																					Esophageal Squamous(157;1837 2534 13028 22831)											1	Substitution - Missense(1)	endometrium(1)											47	49	48					2																	235404686		1982	4166	6148	SO:0001583	missense	10123			AB016811	CCDS2512.1, CCDS63169.1	2q37.2	2014-05-09	2005-11-03	2005-11-03	ENSG00000188042	ENSG00000188042		"ADP-ribosylation factors-like", "ADP-ribosylation factors"	698	protein-coding gene	gene with protein product		604787	"ADP-ribosylation factor-like 7"	ARL7			Standard	NM_005737		Approved	LAK	uc002vvn.3	P56559	OTTHUMG00000133291	ENST00000390645.2:c.545G>A	2.37:g.235404686C>T	ENSP00000375057:p.Arg182His	Somatic		WXS	Illumina HiSeq	Phase_I	Q4A519|Q53R10|Q9BVN1|Q9UQ34	Missense_Mutation	SNP	ENST00000390645.2	37	CCDS2512.1	.	.	.	.	.	.	.	.	.	.	C	22.1	4.243610	0.79912	.	.	ENSG00000188042	ENST00000390645;ENST00000339728	D;D	0.82619	-1.63;-1.63	4.22	4.22	0.49857	.	0.000000	0.85682	D	0.000000	D	0.88991	0.6588	M	0.62016	1.91	0.51233	D	0.999917	D;D	0.71674	0.995;0.998	P;D	0.69479	0.84;0.964	D	0.90399	0.4401	10	0.72032	D	0.01	-13.4275	15.5234	0.75881	0.0:1.0:0.0:0.0	.	182;182	P56559;Q4A519	ARL4C_HUMAN;.	H	182	ENSP00000375057:R182H;ENSP00000339754:R182H	ENSP00000339754:R182H	R	-	2	0	ARL4C	235069425	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	7.544000	0.82117	2.066000	0.61787	0.557000	0.71058	CGC		0.587	ARL4C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257073.1			T	235404686	C	T	235404686	3	4	663	1	0	0	0	0	1	0	0	0	937	768	27	1	37	1	ARL4C	2	235404686	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	55759944	235404686	7794687	29	41211										
GRM7	2917	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	7620544	7620544	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tcctgatgattgccaaaccaGatgtggcagtgtgttctttc	10	9	1	3			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr3:7620544G>C	ENST00000357716.4	+	8	2225	c.1951G>C	c.(1951-1953)Gat>Cat	p.D651H	GRM7_ENST00000402647.2_Missense_Mutation_p.D651H|GRM7_ENST00000389336.4_Missense_Mutation_p.D651H|GRM7_ENST00000403881.1_Missense_Mutation_p.D651H|GRM7_ENST00000458641.2_3'UTR|GRM7_ENST00000486284.1_Missense_Mutation_p.D651H	NM_000844.3	NP_000835.1	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7	651					adenylate cyclase-inhibiting G-protein coupled glutamate receptor signaling pathway (GO:0007196)|adult behavior (GO:0030534)|conditioned taste aversion (GO:0001661)|multicellular organismal response to stress (GO:0033555)|negative regulation of adenylate cyclase activity (GO:0007194)|negative regulation of cAMP biosynthetic process (GO:0030818)|negative regulation of glutamate secretion (GO:0014050)|regulation of cyclase activity (GO:0031279)|regulation of synaptic transmission, glutamatergic (GO:0051966)|sensory perception of smell (GO:0007608)|sensory perception of sound (GO:0007605)|short-term memory (GO:0007614)|synaptic transmission (GO:0007268)|transmission of nerve impulse (GO:0019226)	asymmetric synapse (GO:0032279)|axon (GO:0030424)|cell cortex (GO:0005938)|dendrite (GO:0030425)|dendritic shaft (GO:0043198)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|presynaptic active zone (GO:0048786)|presynaptic membrane (GO:0042734)|receptor complex (GO:0043235)	adenylate cyclase inhibitor activity (GO:0010855)|calcium channel regulator activity (GO:0005246)|calcium ion binding (GO:0005509)|glutamate binding (GO:0016595)|glutamate receptor activity (GO:0008066)|group III metabotropic glutamate receptor activity (GO:0001642)|PDZ domain binding (GO:0030165)|serine binding (GO:0070905)|voltage-gated calcium channel activity (GO:0005245)			breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(14)|lung(35)|ovary(4)|prostate(2)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	76						TGCCAAACCAGATGTGGCAGT	0.478																																																0													136	128	131					3																	7620544		2203	4300	6503	SO:0001583	missense	2917			U92458	CCDS43042.1	3p26-p25	2014-06-12			ENSG00000196277	ENSG00000196277		"GPCR / Class C : Glutamate receptors, metabotropic", "Glutamate receptors"	4599	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 87"	604101				8288585, 8840028	Standard	NM_000844		Approved	GLUR7, GPRC1G, mGlu7, MGLUR7, PPP1R87	uc003bql.2	Q14831	OTTHUMG00000125549	ENST00000357716.4:c.1951G>C	3.37:g.7620544G>C	ENSP00000350348:p.Asp651His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NFS2|Q8NFS3|Q8NFS4	Missense_Mutation	SNP	ENST00000357716.4	37	CCDS43042.1	.	.	.	.	.	.	.	.	.	.	G	12.99	2.104349	0.37145	.	.	ENSG00000196277	ENST00000357716;ENST00000486284;ENST00000389336;ENST00000403881;ENST00000525747;ENST00000402647;ENST00000413492	D;D;D;D;D	0.88664	-2.41;-2.41;-2.41;-2.41;-2.41	5.93	5.93	0.95920	GPCR, family 3, C-terminal (2);	0.047392	0.85682	D	0.000000	D	0.87394	0.6166	N	0.21373	0.66	0.49483	D	0.999798	P;P;D;P;P	0.59357	0.46;0.527;0.985;0.582;0.483	P;P;P;P;P	0.54759	0.537;0.508;0.76;0.641;0.594	D	0.87304	0.2307	10	0.49607	T	0.09	.	13.197	0.59745	0.0762:0.0:0.9238:0.0	.	651;651;406;651;651	B7ZKK0;Q14831-5;Q59G95;Q14831;Q14831-2	.;.;.;GRM7_HUMAN;.	H	651	ENSP00000350348:D651H;ENSP00000417536:D651H;ENSP00000373987:D651H;ENSP00000385664:D651H;ENSP00000384585:D651H	ENSP00000350348:D651H	D	+	1	0	GRM7	7595544	1.000000	0.71417	0.292000	0.24919	0.286000	0.27126	4.229000	0.58625	2.826000	0.97356	0.655000	0.94253	GAT		0.478	GRM7-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000246895.3	NM_000844		C	7620544	G	C	7620544	3	2	663	1	0	0	0	0	1	0	0	0	6809	942	33	4	1981	4	GRM7	3	7620544	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10		7620544	190401886	30	41212										
ZNF445	353274	broad.mit.edu	37	chr3	44489837	44489837	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ctctgatgtaggctgaagccCccaatcatgtgtctgagccc	10	13	3	3			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr3:44489837C>T	ENST00000396077.2	-	8	1673	c.1326G>A	c.(1324-1326)ggG>ggA	p.G442G	ZNF445_ENST00000425708.2_Silent_p.G442G	NM_181489.5	NP_852466.1	P59923	ZN445_HUMAN	zinc finger protein 445	442					transcription, DNA-templated (GO:0006351)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(5)|kidney(3)|large_intestine(8)|lung(8)|ovary(2)|pancreas(1)|skin(3)	31				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		GGCTGAAGCCCCCAATCATGT	0.463																																																0													135	137	136					3																	44489837		2203	4300	6503	SO:0001819	synonymous_variant	353274			AY262260	CCDS2713.1	3p21.32	2013-01-09	2003-10-07		ENSG00000185219	ENSG00000185219		"Zinc fingers, C2H2-type", "-", "-", "-"	21018	protein-coding gene	gene with protein product			"zinc finger protein 168"	ZNF168		7814019	Standard	NM_181489		Approved	ZKSCAN15, ZSCAN47	uc003cnf.2	P59923	OTTHUMG00000133042	ENST00000396077.2:c.1326G>A	3.37:g.44489837C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q3MJD1	Silent	SNP	ENST00000396077.2	37	CCDS2713.1																																																																																				0.463	ZNF445-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256647.2	NM_181489		T	44489837	C	T	44489837	2	4	663	1	0	0	0	0	0	0	0	1	17930	610	22	2		2	ZNF445	3	44489837	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10	36869293	44489837	153532593	31	41213										
SCAP	22937	broad.mit.edu	37	chr3	47462126	47462126	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ggagccgcaggtttcggaagGaagacggctgcaacgtgatg	17	8	0	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr3:47462126G>A	ENST00000265565.5	-	12	1893	c.1481C>T	c.(1480-1482)tCc>tTc	p.S494F	SCAP_ENST00000441517.2_Missense_Mutation_p.S239F|SCAP_ENST00000545718.1_Missense_Mutation_p.S102F|SCAP_ENST00000465628.1_5'UTR	NM_012235.2	NP_036367.2	Q12770	SCAP_HUMAN	SREBF chaperone	494					aging (GO:0007568)|cholesterol metabolic process (GO:0008203)|negative regulation of cholesterol biosynthetic process (GO:0045541)|positive regulation of low-density lipoprotein particle receptor biosynthetic process (GO:0045716)|regulation of fatty acid biosynthetic process (GO:0042304)|response to hypoxia (GO:0001666)|response to insulin (GO:0032868)|small molecule metabolic process (GO:0044281)|SREBP signaling pathway (GO:0032933)	cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|protein complex (GO:0043234)	unfolded protein binding (GO:0051082)			endometrium(4)|kidney(1)|large_intestine(4)|liver(1)|lung(11)|ovary(1)|skin(2)|upper_aerodigestive_tract(2)	26				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		GTTTCGGAAGGAAGACGGCTG	0.662											OREG0015548	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																									Pancreas(149;978 1908 29304 37806 46700)											0													61	60	60					3																	47462126		2203	4300	6503	SO:0001583	missense	22937			BC020987	CCDS2755.2	3p21.31	2013-01-10			ENSG00000114650	ENSG00000114650		"WD repeat domain containing"	30634	protein-coding gene	gene with protein product	"SREBP cleavage activating protein"	601510				8898195, 8724849, 10570913	Standard	XM_005264967		Approved	KIAA0199	uc003crh.1	Q12770	OTTHUMG00000125539	ENST00000265565.5:c.1481C>T	3.37:g.47462126G>A	ENSP00000265565:p.Ser494Phe	Somatic	947	WXS	Illumina HiSeq	Phase_I	Q8N2E0|Q8WUA1	Missense_Mutation	SNP	ENST00000265565.5	37	CCDS2755.2	.	.	.	.	.	.	.	.	.	.	G	22.4	4.290168	0.80914	.	.	ENSG00000114650	ENST00000360832;ENST00000265565;ENST00000441517;ENST00000545718;ENST00000383739	T;T;T	0.81415	-1.49;-1.47;0.66	5.03	5.03	0.67393	.	0.058967	0.64402	D	0.000002	T	0.72020	0.3409	L	0.47716	1.5	0.54753	D	0.999987	B;B	0.33583	0.418;0.06	B;B	0.26864	0.074;0.031	T	0.69942	-0.5008	10	0.08599	T	0.76	-33.3333	18.138	0.89627	0.0:0.0:1.0:0.0	.	239;494	F8W921;Q12770	.;SCAP_HUMAN	F	121;494;239;102;187	ENSP00000265565:S494F;ENSP00000416847:S239F;ENSP00000438956:S102F	ENSP00000265565:S494F	S	-	2	0	SCAP	47437130	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	9.349000	0.97066	2.629000	0.89072	0.462000	0.41574	TCC		0.662	SCAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000246872.2	NM_012235		A	47462126	G	A	47462126	3	1	663	1	0	0	0	0	1	0	0	0	13890	1174	41	2	2406	2	SCAP	3	47462126	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	2972289	47462126	150560304	32	41214										
ABI3BP	25890	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	100515270	100515270	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	taccaggttcgctctgagagAcctcagggtatggtttatga	12	8	2	3			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr3:100515270A>G	ENST00000284322.5	-	21	1899	c.1790T>C	c.(1789-1791)gTc>gCc	p.V597A	ABI3BP_ENST00000471714.1_Missense_Mutation_p.V1274A|ABI3BP_ENST00000383691.4_Missense_Mutation_p.V551A	NM_015429.3	NP_056244.2	Q7Z7G0	TARSH_HUMAN	ABI family, member 3 (NESH) binding protein	597	Pro-rich.				extracellular matrix organization (GO:0030198)|positive regulation of cell-substrate adhesion (GO:0010811)	extracellular space (GO:0005615)|interstitial matrix (GO:0005614)	heparin binding (GO:0008201)			central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(13)|lung(18)|ovary(2)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	50						GCTCTGAGAGACCTCAGGGTA	0.328																																																0													71	67	68					3																	100515270		1799	4072	5871	SO:0001583	missense	25890			AB056106	CCDS46880.1	3q12.2	2013-02-11	2008-09-12		ENSG00000154175	ENSG00000154175		"Fibronectin type III domain containing"	17265	protein-coding gene	gene with protein product	"target of Nesh-SH3"	606279				11501947	Standard	NM_015429		Approved	NESHBP, DKFZP586L2024, TARSH	uc003dun.3	Q7Z7G0	OTTHUMG00000159094	ENST00000284322.5:c.1790T>C	3.37:g.100515270A>G	ENSP00000284322:p.Val597Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B3KSL4|Q6ZW20|Q6ZW22|Q9C082|Q9UFI6	Missense_Mutation	SNP	ENST00000284322.5	37	CCDS46880.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	14.55|14.55	2.569658|2.569658	0.45798|0.45798	.|.	.|.	ENSG00000154175|ENSG00000154175	ENST00000495591;ENST00000471901;ENST00000527943|ENST00000471714;ENST00000284322;ENST00000383692;ENST00000383691;ENST00000486770	.|T;T;T	.|0.56275	.|2.11;0.47;1.57	5.49|5.49	3.01|3.01	0.34805|0.34805	.|.	.|0.464387	.|0.21184	.|N	.|0.078775	T|T	0.44286|0.44286	0.1286|0.1286	L|L	0.58101|0.58101	1.795|1.795	0.23023|0.23023	N|N	0.99841|0.99841	.|P;B;P;P	.|0.47762	.|0.622;0.148;0.9;0.842	.|B;B;B;B	.|0.44224	.|0.152;0.089;0.444;0.366	T|T	0.29518|0.29518	-1.0009|-1.0009	5|10	.|0.11794	.|T	.|0.64	-0.6107|-0.6107	6.1652|6.1652	0.20386|0.20386	0.6701:0.1687:0.0:0.1612|0.6701:0.1687:0.0:0.1612	.|.	.|551;597;1274;281	.|B4DSV9;Q7Z7G0;D3YTG3;D3YTD6	.|.;TARSH_HUMAN;.;.	P|A	653;177;103|1274;597;281;551;35	.|ENSP00000420524:V1274A;ENSP00000284322:V597A;ENSP00000373189:V551A	.|ENSP00000284322:V597A	S|V	-|-	1|2	0|0	ABI3BP|ABI3BP	101997960|101997960	0.434000|0.434000	0.25570|0.25570	0.924000|0.924000	0.36721|0.36721	0.935000|0.935000	0.57460|0.57460	0.985000|0.985000	0.29578|0.29578	0.336000|0.336000	0.23639|0.23639	0.477000|0.477000	0.44152|0.44152	TCT|GTC		0.328	ABI3BP-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000353260.1			G	100515270	A	G	100515270	3	3	663	1	0	0	0	0	1	0	0	0	91	275	10	3	1497	3	ABI3BP	3	100515270	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10	53053144	100515270	97507160	33	41215										
WWTR1	25937	mdanderson.org	37	chr3	149374873	149374873	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ccccagccagtcgaggccccGggtggccgcccgacgagtcg	15	18	0	0	rs1055153	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr3:149374873G>T	ENST00000465804.1	-	3	477	c.221C>A	c.(220-222)cCg>cAg	p.P74Q	WWTR1_ENST00000360632.3_Missense_Mutation_p.P74Q|WWTR1_ENST00000467467.1_Missense_Mutation_p.P74Q|WWTR1-AS1_ENST00000479752.1_RNA|WWTR1-AS1_ENST00000466836.1_RNA|WWTR1-AS1_ENST00000495094.1_RNA	NM_001168278.1	NP_001161750.1	Q9GZV5	WWTR1_HUMAN	WW domain containing transcription regulator 1	74					cilium morphogenesis (GO:0060271)|gene expression (GO:0010467)|glomerulus development (GO:0032835)|hippo signaling (GO:0035329)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of catenin import into nucleus (GO:0035414)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|osteoblast differentiation (GO:0001649)|positive regulation of cell proliferation (GO:0008284)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072307)|regulation of SMAD protein import into nucleus (GO:0060390)|regulation of transcription, DNA-templated (GO:0006355)|stem cell division (GO:0017145)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)			breast(5)|cervix(1)|endometrium(2)|large_intestine(2)|lung(10)|ovary(1)|prostate(1)|skin(1)	23			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			TCGAGGCCCCGGGTGGCCGCC	0.711			T	CAMTA1	epitheliod hemangioendothelioma								G|||	370	0.0738818	0.0582	0.0418	5008	,	,		12401	0.1478		0.0666	False		,,,				2504	0.0491						Dom	yes		3	3q23-q24	607392	WW domain containing transcription regulator 1		M	0								G	GLN/PRO,GLN/PRO,GLN/PRO	230,4124		5,220,1952	7	8	8		221,221,221	5.1	1	3	dbSNP_86	8	553,7949		28,497,3726	no	missense,missense,missense	WWTR1	NM_001168278.1,NM_001168280.1,NM_015472.4	76,76,76	33,717,5678	TT,TG,GG		6.5044,5.2825,6.0905	probably-damaging,probably-damaging,probably-damaging	74/401,74/401,74/401	149374873	783,12073	2177	4251	6428	SO:0001583	missense	25937			AK022036	CCDS3144.1	3q23-q24	2004-12-03			ENSG00000018408	ENSG00000018408			24042	protein-coding gene	gene with protein product		607392				11118213, 15096513	Standard	NM_015472		Approved	TAZ, DKFZp586I1419	uc021xfm.1	Q9GZV5	OTTHUMG00000159614	ENST00000465804.1:c.221C>A	3.37:g.149374873G>T	ENSP00000419465:p.Pro74Gln	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNH7|Q8N3P2|Q9Y3W6	Missense_Mutation	SNP	ENST00000465804.1	37	CCDS3144.1	159	0.07280219780219781	30	0.06097560975609756	14	0.03867403314917127	58	0.10139860139860139	57	0.07519788918205805	G	25.8	4.671276	0.88348	0.052825	0.065044	ENSG00000018408	ENST00000465804;ENST00000360632;ENST00000467467;ENST00000479238;ENST00000485352;ENST00000475579	T;T;T;T	0.45276	0.9;0.9;0.9;0.91	5.09	5.09	0.68999	.	0.076177	0.52532	D	0.000076	T	0.02380	0.0073	L	0.43152	1.355	0.09310	P	0.99999795331	D	0.76494	0.999	D	0.72625	0.978	T	0.02339	-1.1174	9	0.12103	T	0.63	-17.8884	18.1077	0.89525	0.0:0.0:1.0:0.0	rs1055153;rs3195644;rs1055153	74	Q9GZV5	WWTR1_HUMAN	Q	74	ENSP00000419465:P74Q;ENSP00000353847:P74Q;ENSP00000419234:P74Q;ENSP00000418580:P74Q	ENSP00000353847:P74Q	P	-	2	0	WWTR1	150857563	1.000000	0.71417	1.000000	0.80357	0.842000	0.47809	5.329000	0.65892	2.360000	0.80028	0.462000	0.41574	CCG		0.711	WWTR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356498.1	NM_015472		T	149374873	G	T	149374873	3	4	663	1	0	0	0	0	1	0	0	0	17429	1116	39	4	1005	4	WWTR1	3	149374873	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	48859603	149374873	48647557	34	41216										
GPR87	53836	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	151012813	151012813	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tgagatagaatatgaagctgGttttattcctaatgtggaag	11	3	0	3			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr3:151012813G>A	ENST00000260843.4	-	3	685	c.221C>T	c.(220-222)aCc>aTc	p.T74I	MED12L_ENST00000474524.1_Intron|MED12L_ENST00000273432.4_Intron|MED12L_ENST00000491549.1_Intron	NM_023915.3	NP_076404.3	Q9BY21	GPR87_HUMAN	G protein-coupled receptor 87	74					negative regulation of adenylate cyclase activity (GO:0007194)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled purinergic nucleotide receptor activity (GO:0045028)			endometrium(6)|large_intestine(6)|lung(5)|skin(1)|upper_aerodigestive_tract(1)	19			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TATGAAGCTGGTTTTATTCCT	0.403																																																0													97	98	98					3																	151012813		2203	4300	6503	SO:0001583	missense	53836			AF237763	CCDS3157.1	3q24	2012-08-21			ENSG00000138271	ENSG00000138271		"GPCR / Class A : Orphans"	4538	protein-coding gene	gene with protein product		606379		GPR95		11273702	Standard	NM_023915		Approved		uc003eyt.2	Q9BY21	OTTHUMG00000159858	ENST00000260843.4:c.221C>T	3.37:g.151012813G>A	ENSP00000260843:p.Thr74Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q5KU35|Q96JZ8|Q9BXC2	Missense_Mutation	SNP	ENST00000260843.4	37	CCDS3157.1	.	.	.	.	.	.	.	.	.	.	G	25.7	4.662431	0.88251	.	.	ENSG00000138271	ENST00000260843	T	0.21361	2.01	5.31	5.31	0.75309	GPCR, rhodopsin-like superfamily (1);	0.066355	0.64402	D	0.000008	T	0.38295	0.1035	M	0.73430	2.235	0.58432	D	0.999991	P	0.47484	0.896	P	0.48598	0.583	T	0.32508	-0.9904	10	0.87932	D	0	-12.6765	19.3303	0.94283	0.0:0.0:1.0:0.0	.	74	Q9BY21	GPR87_HUMAN	I	74	ENSP00000260843:T74I	ENSP00000260843:T74I	T	-	2	0	GPR87	152495503	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.248000	0.72418	2.632000	0.89209	0.655000	0.94253	ACC		0.403	GPR87-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357788.1			A	151012813	G	A	151012813	3	1	663	1	0	0	0	0	1	0	0	0	6723	1261	44	2	859	2	GPR87	3	151012813	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	1637940	151012813	47009617	35	41217										
FGFBP2	83888	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	15964500	15964500	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gtaaggtttggggtcagcagCgaaagcctggcacatgctgg	16	8	1	0	rs111244757		TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr4:15964500C>T	ENST00000259989.6	-	1	359	c.253G>A	c.(253-255)Gct>Act	p.A85T	FGFBP2_ENST00000509331.1_Intron	NM_031950.3	NP_114156.1	Q9BYJ0	FGFP2_HUMAN	fibroblast growth factor binding protein 2	85						extracellular region (GO:0005576)				central_nervous_system(1)|lung(5)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	9						GGGTCAGCAGCGAAAGCCTGG	0.622																																																0													54	54	54					4																	15964500		2203	4300	6503	SO:0001583	missense	83888			AB021123	CCDS3419.1	4p15.32	2008-07-16			ENSG00000137441	ENSG00000137441			29451	protein-coding gene	gene with protein product	"killer-specific secretory protein of 37 kDa"	607713				11342666, 12322897	Standard	NM_031950		Approved	KSP37	uc003gon.3	Q9BYJ0	OTTHUMG00000128513	ENST00000259989.6:c.253G>A	4.37:g.15964500C>T	ENSP00000259989:p.Ala85Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000259989.6	37	CCDS3419.1	.	.	.	.	.	.	.	.	.	.	c	0.010	-1.743909	0.00675	.	.	ENSG00000137441	ENST00000259989	T	0.13778	2.56	2.98	-1.37	0.09056	.	114.197000	0.00397	N	0.000044	T	0.08179	0.0204	N	0.19112	0.55	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.23940	-1.0174	10	0.10902	T	0.67	.	4.6434	0.12560	0.0:0.2269:0.3136:0.4596	.	85	Q9BYJ0	FGFP2_HUMAN	T	85	ENSP00000259989:A85T	ENSP00000259989:A85T	A	-	1	0	FGFBP2	15573598	0.223000	0.23663	0.000000	0.03702	0.007000	0.05969	0.337000	0.19841	-0.608000	0.05731	-0.127000	0.14921	GCT		0.622	FGFBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250324.1	NM_031950		T	15964500	C	T	15964500	3	4	663	1	0	0	0	0	1	0	0	0	5868	768	27	1	422	1	FGFBP2	4	15964500	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10		15964500	175189776	36	41218										
NHEDC1	150159	mdanderson.org	37	chr4	103870578	103870578	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tacaccatatcacaaacagtAtaactcctgaaatacaaaaa	2	10	1	1	rs79959710	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr4:103870578A>G	ENST00000296422.7	-	4	359	c.218T>C	c.(217-219)aTa>aCa	p.I73T	SLC9B1_ENST00000394789.3_Missense_Mutation_p.I73T	NM_139173.3	NP_631912	Q4ZJI4	SL9B1_HUMAN	solute carrier family 9, subfamily B (NHA1, cation proton antiporter 1), member 1	73					ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	solute:proton antiporter activity (GO:0015299)										CACAAACAGTATAACTCCTGA	0.323																																																0													51	49	49					4																	103870578		2151	4281	6432	SO:0001583	missense	150159			AF447585	CCDS34041.1, CCDS47119.1	4q24	2013-05-22	2012-03-22	2011-07-26	ENSG00000164037	ENSG00000164037		"Solute carriers"	24244	protein-coding gene	gene with protein product		611527	"Na+/H+ exchanger domain containing 1", "solute carrier family 9, subfamily B (cation proton antiporter 2), member 1"	NHEDC1		16850186	Standard	NM_139173		Approved	NHA1	uc003hww.3	Q4ZJI4	OTTHUMG00000161114	ENST00000296422.7:c.218T>C	4.37:g.103870578A>G	ENSP00000296422:p.Ile73Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A1KXV1|B9EH04|C9JBP7|Q49A30|Q8NCV2|Q8WVZ0	Missense_Mutation	SNP	ENST00000296422.7	37	CCDS34041.1	.	.	.	.	.	.	.	.	.	.	A	8.103	0.777074	0.16120	.	.	ENSG00000164037	ENST00000394789;ENST00000296422;ENST00000452285	T;T	0.19532	2.14;2.14	3.85	-0.0813	0.13703	.	1.453490	0.04415	N	0.366611	T	0.24198	0.0586	L	0.58583	1.82	0.09310	N	1	B;B	0.17038	0.02;0.01	B;B	0.18263	0.021;0.012	T	0.36939	-0.9727	10	0.44086	T	0.13	0.0195	9.4384	0.38653	0.3713:0.0:0.6287:0.0	.	73;73	Q4ZJI4;Q4ZJI4-3	SL9B1_HUMAN;.	T	73	ENSP00000378269:I73T;ENSP00000296422:I73T	ENSP00000296422:I73T	I	-	2	0	SLC9B1	104090027	0.001000	0.12720	0.002000	0.10522	0.173000	0.22820	1.267000	0.33050	-0.082000	0.12640	-0.451000	0.05528	ATA		0.323	SLC9B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363841.1	NM_139173		G	103870578	A	G	103870578	3	3	663	1	0	0	0	0	1	0	0	0	10407	449	16	3	1465	3	NHEDC1	4	103870578	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10	87906078	103870578	87283698	37	41219										
LEF1	51176	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	109084842	109084842	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gtcccttgttgtagaggcctCcatctggatgctttcctggg	12	11	1	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr4:109084842C>G	ENST00000265165.1	-	3	950	c.296G>C	c.(295-297)gGa>gCa	p.G99A	LEF1_ENST00000379951.2_Missense_Mutation_p.G99A|LEF1_ENST00000510624.1_Missense_Mutation_p.G31A|LEF1_ENST00000512172.1_Missense_Mutation_p.G31A|LEF1_ENST00000438313.2_Missense_Mutation_p.G99A	NM_016269.4	NP_057353.1	Q9UJU2	LEF1_HUMAN	lymphoid enhancer-binding factor 1	99	Pro-rich.				alpha-beta T cell differentiation (GO:0046632)|anatomical structure regression (GO:0060033)|apoptotic process involved in morphogenesis (GO:0060561)|apoptotic process involved in patterning of blood vessels (GO:1902262)|B cell proliferation (GO:0042100)|BMP signaling pathway (GO:0030509)|canonical Wnt signaling pathway (GO:0060070)|cell chemotaxis (GO:0060326)|cellular response to cytokine stimulus (GO:0071345)|cellular response to interleukin-4 (GO:0071353)|chorio-allantoic fusion (GO:0060710)|dentate gyrus development (GO:0021542)|embryonic limb morphogenesis (GO:0030326)|epithelial to mesenchymal transition (GO:0001837)|eye pigmentation (GO:0048069)|face morphogenesis (GO:0060325)|forebrain neuroblast division (GO:0021873)|forebrain neuron differentiation (GO:0021879)|forebrain radial glial cell differentiation (GO:0021861)|formation of radial glial scaffolds (GO:0021943)|histone H3 acetylation (GO:0043966)|histone H4 acetylation (GO:0043967)|hypothalamus development (GO:0021854)|mammary gland development (GO:0030879)|muscle fiber development (GO:0048747)|negative regulation of apoptotic process (GO:0043066)|negative regulation of apoptotic process in bone marrow (GO:0071866)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of DNA binding (GO:0043392)|negative regulation of estrogen receptor binding (GO:0071899)|negative regulation of interleukin-13 production (GO:0032696)|negative regulation of interleukin-4 production (GO:0032713)|negative regulation of interleukin-5 production (GO:0032714)|negative regulation of striated muscle tissue development (GO:0045843)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neural crest cell migration (GO:0001755)|neutrophil differentiation (GO:0030223)|odontoblast differentiation (GO:0071895)|odontogenesis of dentin-containing tooth (GO:0042475)|osteoblast differentiation (GO:0001649)|palate development (GO:0060021)|paraxial mesoderm formation (GO:0048341)|patterning of blood vessels (GO:0001569)|positive regulation by host of viral transcription (GO:0043923)|positive regulation of cell cycle process (GO:0090068)|positive regulation of cell growth (GO:0030307)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cell proliferation in bone marrow (GO:0071864)|positive regulation of cell-cell adhesion (GO:0022409)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of gene expression (GO:0010628)|positive regulation of granulocyte differentiation (GO:0030854)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cell-cell adhesion (GO:0022407)|regulation of striated muscle tissue development (GO:0016202)|sensory perception of taste (GO:0050909)|somitogenesis (GO:0001756)|sprouting angiogenesis (GO:0002040)|steroid hormone mediated signaling pathway (GO:0043401)|T cell receptor V(D)J recombination (GO:0033153)|T-helper 1 cell differentiation (GO:0045063)|tongue development (GO:0043586)|trachea gland development (GO:0061153)|transcription from RNA polymerase II promoter (GO:0006366)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|protein-DNA complex (GO:0032993)|transcription factor complex (GO:0005667)	armadillo repeat domain binding (GO:0070016)|beta-catenin binding (GO:0008013)|C2H2 zinc finger domain binding (GO:0070742)|chromatin binding (GO:0003682)|cysteine-type endopeptidase inhibitor activity involved in apoptotic process (GO:0043027)|DNA binding (GO:0003677)|DNA binding, bending (GO:0008301)|enhancer binding (GO:0035326)|estrogen receptor activity (GO:0030284)|estrogen receptor binding (GO:0030331)|gamma-catenin binding (GO:0045295)|histone binding (GO:0042393)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(14)|prostate(1)|urinary_tract(1)	25				OV - Ovarian serous cystadenocarcinoma(123;0.000224)		GTAGAGGCCTCCATCTGGATG	0.388																																																0													120	109	113					4																	109084842		2203	4300	6503	SO:0001583	missense	51176				CCDS3679.1, CCDS47122.1, CCDS47123.1, CCDS54791.1	4q23-q25	2011-07-08			ENSG00000138795	ENSG00000138795			6551	protein-coding gene	gene with protein product		153245				1783375	Standard	NM_016269		Approved	TCF1ALPHA, TCF10, TCF7L3	uc003hyt.2	Q9UJU2	OTTHUMG00000131809	ENST00000265165.1:c.296G>C	4.37:g.109084842C>G	ENSP00000265165:p.Gly99Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4DG38|B7Z8E2|E9PDK3|Q3ZCU4|Q9HAZ0	Missense_Mutation	SNP	ENST00000265165.1	37	CCDS3679.1	.	.	.	.	.	.	.	.	.	.	C	15.90	2.968790	0.53614	.	.	ENSG00000138795	ENST00000265165;ENST00000379951;ENST00000438313;ENST00000510624;ENST00000515500;ENST00000512172	D;D;D;D	0.99338	-5.63;-5.76;-5.75;-5.54	5.83	5.83	0.93111	CTNNB1 binding, N-teminal (1);	0.222920	0.47093	D	0.000246	D	0.97654	0.9231	L	0.33339	1.005	0.41780	D	0.989819	B;P;B;B	0.37864	0.351;0.61;0.243;0.221	B;B;B;B	0.39771	0.203;0.198;0.287;0.309	D	0.97727	1.0200	10	0.35671	T	0.21	-6.0885	15.2407	0.73468	0.0:0.9313:0.0:0.0687	.	31;99;99;99	E9PDK3;Q9UJU2-6;Q9UJU2-5;Q9UJU2	.;.;.;LEF1_HUMAN	A	99;99;99;31;31;31	ENSP00000265165:G99A;ENSP00000369284:G99A;ENSP00000406176:G99A;ENSP00000422840:G31A	ENSP00000265165:G99A	G	-	2	0	LEF1	109304291	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.157000	0.58144	2.763000	0.94921	0.563000	0.77884	GGA		0.388	LEF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254749.2			G	109084842	C	G	109084842	3	3	663	1	0	0	0	0	1	0	0	0	8721	855	30	4	1023	4	LEF1	4	109084842	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	5214264	109084842	82069434	38	41220										
MARCH1	55016	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	164466780	164466780	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cttgcttgatttcctccgctGtccggtctatcaatacatac	6	13	2	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr4:164466780G>C	ENST00000503008.1	-	7	1515	c.539C>G	c.(538-540)aCa>aGa	p.T180R	MARCH1_ENST00000514618.1_Missense_Mutation_p.T436R|MARCH1_ENST00000274056.7_Missense_Mutation_p.T180R|MARCH1_ENST00000339875.5_Missense_Mutation_p.T163R	NM_001166373.1	NP_001159845.1	Q8TCQ1	MARH1_HUMAN	membrane-associated ring finger (C3HC4) 1, E3 ubiquitin protein ligase	180					antigen processing and presentation of peptide antigen via MHC class II (GO:0002495)|immune response (GO:0006955)|protein polyubiquitination (GO:0000209)	cytoplasmic vesicle (GO:0031410)|early endosome membrane (GO:0031901)|endoplasmic reticulum membrane (GO:0005789)|endosome (GO:0005768)|integral component of membrane (GO:0016021)|late endosome membrane (GO:0031902)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)	ligase activity (GO:0016874)|MHC protein binding (GO:0042287)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(3)|large_intestine(3)|lung(20)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	36	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				TTCCTCCGCTGTCCGGTCTAT	0.438																																																0													238	181	200					4																	164466780		2203	4300	6503	SO:0001583	missense	55016			AK000675	CCDS3806.1, CCDS54814.1	4q32.2	2013-01-09	2012-02-23			ENSG00000145416		"MARCH membrane-associated ring fingers", "RING-type (C3HC4) zinc fingers"	26077	protein-coding gene	gene with protein product		613331	"membrane-associated ring finger (C3HC4) 1"			14722266	Standard	NM_017923		Approved	FLJ20668, MARCH-I, RNF171	uc003iqs.2	Q8TCQ1		ENST00000503008.1:c.539C>G	4.37:g.164466780G>C	ENSP00000427223:p.Thr180Arg	Somatic		WXS	Illumina HiSeq	Phase_I	D3DP29|Q9NWR0	Missense_Mutation	SNP	ENST00000503008.1	37	CCDS54814.1	.	.	.	.	.	.	.	.	.	.	G	22.5	4.296636	0.81025	.	.	ENSG00000145416	ENST00000274056;ENST00000503008;ENST00000514618;ENST00000339875	T;T;T;T	0.35236	1.77;1.77;1.32;1.38	5.03	5.03	0.67393	.	0.000000	0.64402	D	0.000001	T	0.59998	0.2235	M	0.69358	2.11	0.80722	D	1	D;D	0.89917	1.0;0.959	D;P	0.76071	0.987;0.835	T	0.62599	-0.6820	10	0.56958	D	0.05	.	18.346	0.90322	0.0:0.0:1.0:0.0	.	180;163	Q8TCQ1;Q8TCQ1-2	MARH1_HUMAN;.	R	180;180;436;163	ENSP00000274056:T180R;ENSP00000427223:T180R;ENSP00000421322:T436R;ENSP00000345676:T163R	ENSP00000274056:T180R	T	-	2	0	MARCH1	164686230	1.000000	0.71417	0.412000	0.26496	0.600000	0.36913	9.476000	0.97823	2.331000	0.79229	0.655000	0.94253	ACA		0.438	MARCH1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364493.2	NM_017923		C	164466780	G	C	164466780	3	2	663	1	0	0	0	0	1	0	0	0	9305	1377	48	4	338	4	MARCH1	4	164466780	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	55381938	164466780	26687496	39	41221										
FRG1	2483	mdanderson.org	37	chr4	190878571	190878571	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	aggggaaaatggctttgttgGcctcaaatagctgctttatt	11	6	1	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr4:190878571G>A	ENST00000226798.4	+	6	673	c.451G>A	c.(451-453)Gcc>Acc	p.A151T	FRG1_ENST00000514482.1_3'UTR	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1	151					mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		GGCTTTGTTGGCCTCAAATAG	0.353																																																0													13	18	16					4																	190878571		2149	4265	6414	SO:0001583	missense	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.451G>A	4.37:g.190878571G>A	ENSP00000226798:p.Ala151Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Missense_Mutation	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	.	20.8	4.048689	0.75846	.	.	ENSG00000109536	ENST00000226798;ENST00000524583;ENST00000531991	T;T	0.51071	1.88;0.72	4.19	4.19	0.49359	Actin cross-linking (1);	0.051971	0.85682	D	0.000000	T	0.59756	0.2217	M	0.82193	2.58	0.80722	D	1	P	0.43519	0.809	P	0.49226	0.603	T	0.61836	-0.6981	10	0.27785	T	0.31	-16.5099	14.4711	0.67517	0.0:0.0:1.0:0.0	.	151	Q14331	FRG1_HUMAN	T	151;23;88	ENSP00000226798:A151T;ENSP00000435943:A88T	ENSP00000226798:A151T	A	+	1	0	FRG1	191115565	1.000000	0.71417	1.000000	0.80357	0.475000	0.33008	9.545000	0.98095	2.063000	0.61619	0.454000	0.30748	GCC		0.353	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477		A	190878571	G	A	190878571	3	1	663	1	0	0	0	0	1	0	0	0	6053	1203	42	2	473	2	FRG1	4	190878571	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	26411791	190878571	275705	40	41222										
MAP1B	4131	bcgsc.ca	37	chr5	71493198	71493198	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tcacacaccttactatcaatCtcctactgacgagaaatcca	3	14	3	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr5:71493198C>T	ENST00000296755.7	+	5	4314	c.4016C>T	c.(4015-4017)tCt>tTt	p.S1339F		NM_005909.3	NP_005900.2	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	1339					axon extension (GO:0048675)|cellular process (GO:0009987)|dendrite development (GO:0016358)|establishment of monopolar cell polarity (GO:0061162)|microtubule bundle formation (GO:0001578)|mitochondrion transport along microtubule (GO:0047497)|negative regulation of intracellular transport (GO:0032387)|positive regulation of axon extension (GO:0045773)	cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|plasma membrane (GO:0005886)|synapse (GO:0045202)	structural molecule activity (GO:0005198)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(42)|liver(1)|lung(28)|ovary(1)|pancreas(1)|prostate(3)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(3)	104		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)		TACTATCAATCTCCTACTGAC	0.458																																					Melanoma(17;367 822 11631 31730 47712)											0													68	67	68					5																	71493198		2203	4300	6503	SO:0001583	missense	4131			L06237	CCDS4012.1	5q13	2014-06-12			ENSG00000131711	ENSG00000131711			6836	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 102"	157129				1881920	Standard	NM_005909		Approved	MAP5, PPP1R102	uc003kbw.4	P46821	OTTHUMG00000100952	ENST00000296755.7:c.4016C>T	5.37:g.71493198C>T	ENSP00000296755:p.Ser1339Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A2BDK5	Missense_Mutation	SNP	ENST00000296755.7	37	CCDS4012.1	.	.	.	.	.	.	.	.	.	.	C	16.84	3.234964	0.58886	.	.	ENSG00000131711	ENST00000296755	T	0.04406	3.63	5.72	5.72	0.89469	.	0.000000	0.64402	D	0.000007	T	0.15046	0.0363	L	0.29908	0.895	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.85130	0.997;0.997	T	0.01065	-1.1463	10	0.87932	D	0	-14.8862	19.877	0.96880	0.0:1.0:0.0:0.0	.	1213;1339	A2BDK6;P46821	.;MAP1B_HUMAN	F	1339	ENSP00000296755:S1339F	ENSP00000296755:S1339F	S	+	2	0	MAP1B	71528954	1.000000	0.71417	1.000000	0.80357	0.956000	0.61745	7.487000	0.81328	2.709000	0.92574	0.561000	0.74099	TCT		0.458	MAP1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000218561.6	NM_005909		T	71493198	C	T	71493198	3	4	663	1	0	0	0	0	1	0	0	0	9235	913	32	2	4034	2	MAP1B	5	71493198	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10		71493198	109422062	41	41223										
MCTP1	79772	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	94046552	94046552	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ggacaatgtatctcagcggaAtgcagtacaggatggctgtg	14	7	1	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr5:94046552A>C	ENST00000515393.1	-	21	2800	c.2801T>G	c.(2800-2802)aTt>aGt	p.I934S	MCTP1_ENST00000312216.8_Missense_Mutation_p.I713S|MCTP1_ENST00000429576.2_Missense_Mutation_p.I627S|MCTP1_ENST00000505078.1_Missense_Mutation_p.I450S|ANKRD32_ENST00000493934.1_Intron|MCTP1_ENST00000514040.1_5'UTR	NM_024717.4	NP_078993.4	Q6DN14	MCTP1_HUMAN	multiple C2 domains, transmembrane 1	934					calcium-mediated signaling (GO:0019722)	integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)			breast(1)|endometrium(3)|large_intestine(13)|liver(2)|lung(13)|ovary(2)|skin(4)|stomach(2)|urinary_tract(1)	41		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)		TCTCAGCGGAATGCAGTACAG	0.458																																																0													109	92	98					5																	94046552		2203	4300	6503	SO:0001583	missense	79772				CCDS34203.1, CCDS47247.1, CCDS75275.1	5q15	2008-02-05			ENSG00000175471	ENSG00000175471			26183	protein-coding gene	gene with protein product						15528213	Standard	XM_005272082		Approved	FLJ22344	uc003kkx.2	Q6DN14	OTTHUMG00000162742	ENST00000515393.1:c.2801T>G	5.37:g.94046552A>C	ENSP00000424126:p.Ile934Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6DN13|Q8N2W1|Q8NBA2|Q96LX0|Q9H6E8	Missense_Mutation	SNP	ENST00000515393.1	37	CCDS34203.1	.	.	.	.	.	.	.	.	.	.	A	22.7	4.321033	0.81580	.	.	ENSG00000175471	ENST00000515393;ENST00000429576;ENST00000505078;ENST00000312216;ENST00000508509	T;T;T;T;T	0.79247	-1.25;-1.17;-0.22;-1.14;-0.99	5.79	5.79	0.91817	Phosphoribosyltransferase C-terminal (1);	0.107337	0.64402	D	0.000007	D	0.87067	0.6085	M	0.79123	2.44	0.80722	D	1	D;D;D	0.67145	0.991;0.982;0.996	P;P;P	0.62298	0.898;0.802;0.9	D	0.88754	0.3252	10	0.87932	D	0	-8.2988	16.1376	0.81497	1.0:0.0:0.0:0.0	.	934;627;713	Q6DN14;Q6DN14-3;Q6DN14-2	MCTP1_HUMAN;.;.	S	934;627;450;713;654	ENSP00000424126:I934S;ENSP00000391639:I627S;ENSP00000426417:I450S;ENSP00000308957:I713S;ENSP00000423410:I654S	ENSP00000308957:I713S	I	-	2	0	MCTP1	94072308	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	8.962000	0.93254	2.212000	0.71576	0.533000	0.62120	ATT		0.458	MCTP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000370280.3	NM_024717		C	94046552	A	C	94046552	3	2	663	1	0	0	0	0	1	0	0	0	9407	101	4	5	210	5	MCTP1	5	94046552	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10	22553354	94046552	86868708	42	41224										
SEMA6A	57556	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr5	115840607	115840607	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	agccccagcaaagtgtagcaGtgtgaaatatagcagcaagg	12	8	0	1	rs36105994	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr5:115840607G>C	ENST00000343348.6	-	2	821	c.34C>G	c.(34-36)Ctg>Gtg	p.L12V	CTB-118N6.3_ENST00000510682.1_RNA|SEMA6A_ENST00000503962.1_5'Flank|SEMA6A_ENST00000510263.1_Missense_Mutation_p.L12V|SEMA6A_ENST00000257414.8_Missense_Mutation_p.L12V	NM_020796.3	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A	12					apoptotic process (GO:0006915)|axon guidance (GO:0007411)|cell surface receptor signaling pathway (GO:0007166)|centrosome localization (GO:0051642)|cytoskeleton organization (GO:0007010)|nervous system development (GO:0007399)|neuron migration (GO:0001764)|organ morphogenesis (GO:0009887)|positive regulation of neuron migration (GO:2001224)|semaphorin-plexin signaling pathway (GO:0071526)	axon (GO:0030424)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)	transmembrane signaling receptor activity (GO:0004888)			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(15)|ovary(2)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	31		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)		AAGTGTAGCAGTGTGAAATAT	0.443																																																0													79	84	83					5																	115840607		1872	4106	5978	SO:0001583	missense	57556			AB037789	CCDS47256.1, CCDS75288.1	5q23.1	2014-07-29			ENSG00000092421			"Semaphorins"	10738	protein-coding gene	gene with protein product	"sema VIa"	605885		SEMAQ		9204478, 10993894	Standard	XM_006714663		Approved	KIAA1368, SEMA6A1, SEMA, HT018	uc010jck.3	Q9H2E6	OTTHUMG00000162987	ENST00000343348.6:c.34C>G	5.37:g.115840607G>C	ENSP00000345512:p.Leu12Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9P2H9	Missense_Mutation	SNP	ENST00000343348.6	37	CCDS47256.1	.	.	.	.	.	.	.	.	.	.	G	11.84	1.757680	0.31137	.	.	ENSG00000092421	ENST00000343348;ENST00000257414;ENST00000510263;ENST00000515009;ENST00000509665	T;T;T;T	0.46819	2.21;2.21;2.21;0.86	5.36	5.36	0.76844	.	0.079008	0.52532	D	0.000065	T	0.39572	0.1083	L	0.36672	1.1	0.80722	D	1	B;B	0.21688	0.016;0.059	B;B	0.23574	0.015;0.047	T	0.17653	-1.0362	10	0.35671	T	0.21	.	13.6262	0.62165	0.0:0.0:0.8449:0.1551	.	12;12	Q9H2E6;Q9H2E6-2	SEM6A_HUMAN;.	V	12	ENSP00000345512:L12V;ENSP00000257414:L12V;ENSP00000424388:L12V;ENSP00000421935:L12V	ENSP00000257414:L12V	L	-	1	2	SEMA6A	115868506	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.500000	0.81588	2.512000	0.84698	0.563000	0.77884	CTG		0.443	SEMA6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371270.1	NM_020796		C	115840607	G	C	115840607	3	2	663	1	0	0	0	0	1	0	0	0	14052	1020	36	4	3130	4	SEMA6A	5	115840607	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	21794055	115840607	65074653	43	41225										
CPLX2	10814	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	175306003	175306003	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	aggagcggcaggaggcgctgCggcagcaggaggaggagcgt	22	8	0	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr5:175306003C>T	ENST00000359546.4	+	4	767	c.124C>T	c.(124-126)Cgg>Tgg	p.R42W	CPLX2_ENST00000512824.1_Missense_Mutation_p.R42W|CPLX2_ENST00000393745.3_Missense_Mutation_p.R42W|CPLX2_ENST00000515094.1_Missense_Mutation_p.R42W	NM_001008220.1|NM_006650.3	NP_001008221.1|NP_006641.1	Q6PUV4	CPLX2_HUMAN	complexin 2	42	Interaction with the SNARE complex. {ECO:0000250}.				cell differentiation (GO:0030154)|mast cell degranulation (GO:0043303)|nervous system development (GO:0007399)|positive regulation of synaptic plasticity (GO:0031915)|regulation of exocytosis (GO:0017157)|synaptic vesicle exocytosis (GO:0016079)|vesicle docking involved in exocytosis (GO:0006904)	dendrite (GO:0030425)|mast cell granule (GO:0042629)|neuronal cell body (GO:0043025)|synapse (GO:0045202)|synaptobrevin 2-SNAP-25-syntaxin-1a-complexin II complex (GO:0070033)|synaptobrevin 2-SNAP-25-syntaxin-3-complexin complex (GO:0070554)				endometrium(3)|kidney(2)|lung(3)|ovary(2)	10	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)			ggaggcgctgcggcagcagga	0.672																																																0													16	15	15					5																	175306003		2199	4293	6492	SO:0001583	missense	10814			U35100	CCDS4396.1	5q35.2	2008-05-23			ENSG00000145920	ENSG00000145920			2310	protein-coding gene	gene with protein product		605033				7553862, 16162394	Standard	XM_005265798		Approved	CPX-2, DKFZp547D155	uc003mdf.1	Q6PUV4	OTTHUMG00000130665	ENST00000359546.4:c.124C>T	5.37:g.175306003C>T	ENSP00000352544:p.Arg42Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAG2|O09056|Q13329|Q28184|Q52M15|Q64386	Missense_Mutation	SNP	ENST00000359546.4	37	CCDS4396.1	.	.	.	.	.	.	.	.	.	.	c	20.1	3.934879	0.73442	.	.	ENSG00000145920	ENST00000359546;ENST00000509837;ENST00000393745;ENST00000512824;ENST00000393746;ENST00000514150;ENST00000502265;ENST00000515094	.	.	.	4.32	1.29	0.21616	.	0.000000	0.85682	U	0.000000	T	0.78635	0.4314	M	0.86651	2.83	0.58432	D	0.999994	D	0.76494	0.999	D	0.79784	0.993	T	0.78981	-0.1989	9	0.87932	D	0	-19.8811	10.9358	0.47245	0.501:0.4989:0.0:0.0	.	42	Q6PUV4	CPLX2_HUMAN	W	42	.	ENSP00000352544:R42W	R	+	1	2	CPLX2	175238609	0.908000	0.30866	0.520000	0.27837	0.950000	0.60333	0.553000	0.23391	0.048000	0.15891	0.457000	0.33378	CGG		0.672	CPLX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253157.2			T	175306003	C	T	175306003	3	4	663	1	0	0	0	0	1	0	0	0	3807	759	27	1	130	1	CPLX2	5	175306003	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	59465396	175306003	5609257	44	41226										
HIST1H2BD	3017	broad.mit.edu	37	chr6	26158611	26158611	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ccttcgtcaacgacatcttcGagcgcatcgcaggcgaggct	11	14	2	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr6:26158611G>C	ENST00000289316.2	+	1	238	c.214G>C	c.(214-216)Gag>Cag	p.E72Q	HIST1H2BD_ENST00000377777.4_Missense_Mutation_p.E72Q	NM_138720.2	NP_619790.1	P58876	H2B1D_HUMAN	histone cluster 1, H2bd	72					chromatin organization (GO:0006325)	extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|nucleosome (GO:0000786)|nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(2)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(2)|lung(6)|ovary(2)|pancreas(1)|prostate(1)|skin(1)	24						CGACATCTTCGAGCGCATCGC	0.587																																																0													158	151	153					6																	26158611		2203	4300	6503	SO:0001583	missense	3017			M60751	CCDS4587.1	6p22.1	2011-01-27	2006-10-11	2003-02-14	ENSG00000158373	ENSG00000158373		"Histones / Replication-dependent"	4747	protein-coding gene	gene with protein product		602799	"H2B histone family, member B", "histone 1, H2bd"	H2BFB		1916825, 12408966	Standard	NM_021063		Approved	H2B/b	uc003ngr.3	P58876	OTTHUMG00000014426	ENST00000289316.2:c.214G>C	6.37:g.26158611G>C	ENSP00000289316:p.Glu72Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000289316.2	37	CCDS4587.1	.	.	.	.	.	.	.	.	.	.	.	20.4	3.979084	0.74360	.	.	ENSG00000158373	ENST00000377777;ENST00000289316	T;T	0.28454	1.61;1.61	5.19	4.3	0.51218	Histone-fold (2);Histone core (1);	0.000000	0.42053	D	0.000772	T	0.36580	0.0972	H	0.96576	3.845	0.43512	D	0.995777	B	0.15719	0.014	B	0.17979	0.02	T	0.53078	-0.8489	10	0.59425	D	0.04	.	12.7759	0.57448	0.0815:0.0:0.9185:0.0	.	72	P58876	H2B1D_HUMAN	Q	72	ENSP00000367008:E72Q;ENSP00000289316:E72Q	ENSP00000289316:E72Q	E	+	1	0	HIST1H2BD	26266590	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	4.909000	0.63314	1.494000	0.48533	0.650000	0.86243	GAG		0.587	HIST1H2BD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040088.1	NM_021063		C	26158611	G	C	26158611	3	2	663	1	0	0	0	0	1	0	0	0	7150	1059	37	4	216	4	HIST1H2BD	6	26158611	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10		26158611	144956456	45	41227										
MUC21	394263	mdanderson.org	37	chr6	30954921	30954921	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	aactctgactccagcacaacCtccagtggggccagcacagc	9	16	1	1	rs548248760	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr6:30954921C>G	ENST00000376296.3	+	2	1210	c.969C>G	c.(967-969)acC>acG	p.T323T	MUC21_ENST00000486149.2_5'UTR	NM_001010909.2	NP_001010909.2	Q5SSG8	MUC21_HUMAN	mucin 21, cell surface associated	323	28 X 15 AA approximate tandem repeats.|Ser-rich.		T -> P (in dbSNP:rs41288679). {ECO:0000269|PubMed:12975309, ECO:0000269|PubMed:14574404}.		cellular protein metabolic process (GO:0044267)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-substrate adhesion (GO:0010812)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(4)|breast(1)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(3)|prostate(4)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	42						CCAGCACAACCTCCAGTGGGG	0.627													c|||	32	0.00638978	0.0083	0.0144	5008	,	,		22635	0.001		0.005	False		,,,				2504	0.0051															0																																										SO:0001819	synonymous_variant	394263			AK056612	CCDS34388.1	6p21.33	2008-05-14	2008-05-14	2008-05-14	ENSG00000204544	ENSG00000204544		"Mucins"	21661	protein-coding gene	gene with protein product	"epiglycanin"		"chromosome 6 open reading frame 205"	C6orf205		17977904	Standard	NM_001010909		Approved	bCX31G15.2	uc003nsh.2	Q5SSG8	OTTHUMG00000031216	ENST00000376296.3:c.969C>G	6.37:g.30954921C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0UZT7|B4DQ55|C9JMK2|D9N007|Q0VGF1|Q3B7T2|Q5SS94|Q6UXC5	Silent	SNP	ENST00000376296.3	37	CCDS34388.1																																																																																				0.627	MUC21-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000128579.3	NM_001010909		G	30954921	C	G	30954921	2	3	663	1	0	0	0	0	0	0	0	1	9984	668	24	4		4	MUC21	6	30954921	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10	4796310	30954921	140160146	46	41228										
TTBK1	84630	mdanderson.org	37	chr6	43251912	43251912	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ggcagcggccttgcccaggaAgagcgggagggcagccgcca	18	13	0	1	rs3800297	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr6:43251912A>G	ENST00000259750.4	+	14	3517	c.3434A>G	c.(3433-3435)aAg>aGg	p.K1145R		NM_032538.1	NP_115927.1	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	1145			K -> R (in dbSNP:rs3800297). {ECO:0000269|PubMed:17344846}.		substantia nigra development (GO:0021762)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(10)|liver(1)|lung(21)|ovary(3)|prostate(3)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	53			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			TTGCCCAGGAAGAGCGGGAGG	0.701													A|||	1774	0.354233	0.5628	0.2176	5008	,	,		13619	0.3849		0.2247	False		,,,				2504	0.271															0								A	ARG/LYS	1190,1916		216,758,579	3	4	4		3434	4.1	0.2	6	dbSNP_107	4	1160,5396		106,948,2224	no	missense	TTBK1	NM_032538.1	26	322,1706,2803	GG,GA,AA		17.6937,38.3129,24.3221	possibly-damaging	1145/1322	43251912	2350,7312	1553	3278	4831	SO:0001583	missense	84630			AB058758	CCDS34455.1	6p21.1	2008-02-05			ENSG00000146216	ENSG00000146216			19140	protein-coding gene	gene with protein product						11347906	Standard	XM_006715229		Approved	KIAA1855	uc003ouq.1	Q5TCY1	OTTHUMG00000014725	ENST00000259750.4:c.3434A>G	6.37:g.43251912A>G	ENSP00000259750:p.Lys1145Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2U5|Q2L6C6|Q6ZNH0|Q8N444|Q96JH2	Missense_Mutation	SNP	ENST00000259750.4	37	CCDS34455.1	736	0.336996336996337	277	0.5630081300813008	84	0.23204419889502761	208	0.36363636363636365	167	0.22031662269129287	A	9.748	1.166668	0.21621	0.383129	0.176937	ENSG00000146216	ENST00000259750	T	0.53423	0.62	5.29	4.08	0.47627	.	0.172570	0.36778	N	0.002403	T	0.25306	0.0615	L	0.50333	1.59	0.09310	P	0.9999999999998821	B	0.14438	0.01	B	0.12156	0.007	T	0.11867	-1.0570	9	0.66056	D	0.02	.	11.146	0.48430	0.845:0.155:0.0:0.0	rs3800297;rs57009954	1145	Q5TCY1	TTBK1_HUMAN	R	1145	ENSP00000259750:K1145R	ENSP00000259750:K1145R	K	+	2	0	TTBK1	43359890	0.052000	0.20516	0.223000	0.23860	0.069000	0.16628	0.476000	0.22180	0.807000	0.34208	0.454000	0.30748	AAG		0.701	TTBK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040584.3			G	43251912	A	G	43251912	3	3	663	1	0	0	0	0	1	0	0	0	16688	72	3	3	3484	3	TTBK1	6	43251912	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10	12296991	43251912	127863155	47	41229										
RFX6	222546	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr6	117248566	117248566	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ccatataactcccggccaccGtctagctatggcccatccct	6	18	1	0	rs374248308		TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr6:117248566G>T	ENST00000332958.2	+	17	2278	c.2262G>T	c.(2260-2262)ccG>ccT	p.P754P		NM_173560.3	NP_775831.2	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	754					endocrine pancreas development (GO:0031018)|glucose homeostasis (GO:0042593)|pancreatic A cell differentiation (GO:0003310)|pancreatic D cell differentiation (GO:0003311)|pancreatic epsilon cell differentiation (GO:0090104)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of insulin secretion (GO:0050796)|transcription, DNA-templated (GO:0006351)|type B pancreatic cell differentiation (GO:0003309)	nucleus (GO:0005634)	transcription regulatory region DNA binding (GO:0044212)			cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(29)|ovary(1)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	59						CCCGGCCACCGTCTAGCTATG	0.512																																																0													56	54	55					6																	117248566		2203	4300	6503	SO:0001819	synonymous_variant	222546			BC039248	CCDS5113.1	6q22.31	2008-08-04	2008-08-04	2008-08-04	ENSG00000185002	ENSG00000185002			21478	protein-coding gene	gene with protein product		612659	"regulatory factor X domain containing 1"	RFXDC1			Standard	NM_173560		Approved	MGC33442, dJ955L16.1	uc003pxm.3	Q8HWS3	OTTHUMG00000015449	ENST00000332958.2:c.2262G>T	6.37:g.117248566G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6B3	Silent	SNP	ENST00000332958.2	37	CCDS5113.1																																																																																				0.512	RFX6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041970.2	NM_173560		T	117248566	G	T	117248566	2	4	663	1	0	0	0	0	0	0	0	1	13280	1132	40	4		4	RFX6	6	117248566	Silent	SNP	G	TCGA-KN-8427-01A-11D-2310-10	73996654	117248566	53866501	48	41230										
C7orf57	136288	ucsc.edu	37	chr7	48080990	48080990	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ccgtggatgccccaccagcgTcccagatcccaggtctcagc	10	18	1	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr7:48080990T>C	ENST00000348904.3	+	3	327	c.115T>C	c.(115-117)Tcc>Ccc	p.S39P	C7orf57_ENST00000420324.1_Missense_Mutation_p.S84P|C7orf57_ENST00000539619.1_Missense_Mutation_p.S39P|C7orf57_ENST00000430738.1_Missense_Mutation_p.S84P|C7orf57_ENST00000435376.1_5'UTR	NM_001100159.2	NP_001093629.1	Q8NEG2	CG057_HUMAN	chromosome 7 open reading frame 57	39										breast(1)|endometrium(2)|large_intestine(1)|lung(4)|ovary(1)	9						CCCACCAGCGTCCCAGATCCC	0.537																																																0													53	57	55					7																	48080990		1924	4144	6068	SO:0001583	missense	136288			BC031107	CCDS47583.1, CCDS59054.1, CCDS75594.1	7p12.3	2011-11-25			ENSG00000164746	ENSG00000164746			22247	protein-coding gene	gene with protein product							Standard	NM_001100159		Approved		uc003toh.5	Q8NEG2	OTTHUMG00000155808	ENST00000348904.3:c.115T>C	7.37:g.48080990T>C	ENSP00000335500:p.Ser39Pro	Somatic		WXS	Illumina HiSeq	Phase_I	C9JBJ8	Missense_Mutation	SNP	ENST00000348904.3	37	CCDS47583.1	.	.	.	.	.	.	.	.	.	.	T	17.06	3.292391	0.59976	.	.	ENSG00000164746	ENST00000420324;ENST00000430738;ENST00000348904;ENST00000539619	T;T;T;T	0.44083	0.93;0.93;0.93;0.93	5.69	5.69	0.88448	.	0.000000	0.85682	D	0.000000	T	0.67144	0.2862	M	0.84326	2.69	0.52501	D	0.999958	D	0.89917	1.0	D	0.91635	0.999	T	0.72544	-0.4261	10	0.87932	D	0	-19.8225	13.8893	0.63729	0.0:0.0:0.0:1.0	.	39	Q8NEG2	CG057_HUMAN	P	84;84;39;39	ENSP00000394648:S84P;ENSP00000410944:S84P;ENSP00000335500:S39P;ENSP00000442474:S39P	ENSP00000335500:S39P	S	+	1	0	C7orf57	48047515	0.999000	0.42202	0.905000	0.35620	0.156000	0.22039	4.996000	0.63914	2.156000	0.67533	0.460000	0.39030	TCC		0.537	C7orf57-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000341745.1	NM_001100159		C	48080990	T	C	48080990	3	2	663	1	0	0	0	0	1	0	0	0	2406	1667	58	3	121	3	C7orf57	7	48080990	Missense_Mutation	SNP	T	TCGA-KN-8427-01A-11D-2310-10		48080990	111057673	49	41231										
SRCRB4D	136853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	76021323	76021323	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cacccgcgtggtctcagaacCatcctgctggacttgcagtc	10	15	1	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr7:76021323C>G	ENST00000275560.3	-	10	1716	c.1369G>C	c.(1369-1371)Ggt>Cgt	p.G457R	SRCRB4D_ENST00000492979.2_5'UTR	NM_080744.1	NP_542782.1														autonomic_ganglia(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(2)|lung(9)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	21						GTCTCAGAACCATCCTGCTGG	0.592																																																0													50	37	41					7																	76021323		2202	4298	6500	SO:0001583	missense	136853																														ENST00000275560.3:c.1369G>C	7.37:g.76021323C>G	ENSP00000275560:p.Gly457Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000275560.3	37	CCDS5585.1	.	.	.	.	.	.	.	.	.	.	C	12.97	2.096466	0.36952	.	.	ENSG00000146700	ENST00000275560	T	0.01240	5.12	4.81	4.81	0.61882	.	0.638678	0.16561	N	0.209050	T	0.01870	0.0059	L	0.27053	0.805	0.33951	D	0.644428	D	0.62365	0.991	P	0.47470	0.548	T	0.65582	-0.6133	10	0.17369	T	0.5	.	13.5728	0.61856	0.0:1.0:0.0:0.0	.	457	Q8WTU2	SRB4D_HUMAN	R	457	ENSP00000275560:G457R	ENSP00000275560:G457R	G	-	1	0	SRCRB4D	75859259	0.026000	0.19158	0.815000	0.32552	0.889000	0.51656	0.462000	0.21956	2.679000	0.91253	0.491000	0.48974	GGT		0.592	SRCRB4D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253001.3			G	76021323	C	G	76021323	3	3	663	1	0	0	0	0	1	0	0	0	15149	594	21	4	366	4	SRCRB4D	7	76021323	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	27940333	76021323	83117340	50	41232										
SEMA3A	10371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr7	83590705	83590705	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gctcagacactcctgggtgcCctctcaaattcgtgggtcct	10	14	2	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr7:83590705C>T	ENST00000265362.4	-	17	2612	c.2298G>A	c.(2296-2298)agG>agA	p.R766R	SEMA3A_ENST00000436949.1_Silent_p.R766R	NM_006080.2	NP_006071.1	Q14563	SEM3A_HUMAN	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3A	766	Arg/Lys-rich (basic).				apoptotic process (GO:0006915)|axon extension involved in axon guidance (GO:0048846)|axon guidance (GO:0007411)|axonal fasciculation (GO:0007413)|axonogenesis involved in innervation (GO:0060385)|branchiomotor neuron axon guidance (GO:0021785)|dendrite morphogenesis (GO:0048813)|dichotomous subdivision of terminal units involved in salivary gland branching (GO:0060666)|facial nerve structural organization (GO:0021612)|gonadotrophin-releasing hormone neuronal migration to the hypothalamus (GO:0021828)|negative regulation of axon extension involved in axon guidance (GO:0048843)|negative regulation of epithelial cell migration (GO:0010633)|nerve development (GO:0021675)|neural crest cell migration involved in autonomic nervous system development (GO:1901166)|neural crest cell migration involved in sympathetic nervous system development (GO:1903045)|neuron migration (GO:0001764)|olfactory bulb development (GO:0021772)|positive regulation of male gonad development (GO:2000020)|positive regulation of neuron migration (GO:2001224)|regulation of axon extension involved in axon guidance (GO:0048841)|regulation of heart rate (GO:0002027)|semaphorin-plexin signaling pathway (GO:0071526)|semaphorin-plexin signaling pathway involved in axon guidance (GO:1902287)|semaphorin-plexin signaling pathway involved in neuron projection guidance (GO:1902285)|sensory system development (GO:0048880)|sympathetic ganglion development (GO:0061549)|sympathetic nervous system development (GO:0048485)|sympathetic neuron projection extension (GO:0097490)|sympathetic neuron projection guidance (GO:0097491)|trigeminal nerve structural organization (GO:0021637)	axon (GO:0030424)|dendrite (GO:0030425)|extracellular region (GO:0005576)|membrane (GO:0016020)	chemorepellent activity (GO:0045499)|neuropilin binding (GO:0038191)|receptor activity (GO:0004872)			breast(3)|cervix(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(12)|liver(1)|lung(22)|ovary(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	53						TCCTGGGTGCCCTCTCAAATT	0.433																																																0													153	155	154					7																	83590705		2203	4300	6503	SO:0001819	synonymous_variant	10371			L26081	CCDS5599.1	7p12.1	2013-01-11			ENSG00000075213	ENSG00000075213		"Semaphorins", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	10723	protein-coding gene	gene with protein product	"sema III"	603961		SEMAD		8269517, 7748561	Standard	NM_006080		Approved	SEMA1, SemD, coll-1, Hsema-I	uc003uhz.3	Q14563	OTTHUMG00000023443	ENST00000265362.4:c.2298G>A	7.37:g.83590705C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000265362.4	37	CCDS5599.1																																																																																				0.433	SEMA3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253355.2	NM_006080		T	83590705	C	T	83590705	2	4	663	1	0	0	0	0	0	0	0	1	14037	622	22	2		2	SEMA3A	7	83590705	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10	7569382	83590705	75547958	51	41233										
ANKRD7	56311	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr7	117876137	117876137	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ttgccgttattaacaataatCcaaaaatggtaaaatttctt	4	6	1	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr7:117876137C>T	ENST00000265224.4	+	4	666	c.511C>T	c.(511-513)Cca>Tca	p.P171S	ANKRD7_ENST00000417525.1_Missense_Mutation_p.P118S|ANKRD7_ENST00000357099.4_Missense_Mutation_p.P191S|ANKRD7_ENST00000477532.1_3'UTR|ANKRD7_ENST00000433239.1_Missense_Mutation_p.P118S	NM_019644.3	NP_062618.2	Q92527	ANKR7_HUMAN	ankyrin repeat domain 7	171					male gonad development (GO:0008584)	nucleus (GO:0005634)				breast(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(4)|lung(12)|ovary(2)|upper_aerodigestive_tract(1)	29						TAACAATAATCCAAAAATGGT	0.279																																																0													77	79	79					7																	117876137		1797	4071	5868	SO:0001583	missense	56311			D78334	CCDS43638.1	7q31	2013-01-10			ENSG00000106013	ENSG00000106013		"Ankyrin repeat domain containing"	18588	protein-coding gene	gene with protein product	"testis-specific ankyrin motif containing protein"	610731				8812458	Standard	NM_019644		Approved	TSA806	uc003vji.3	Q92527	OTTHUMG00000156960	ENST00000265224.4:c.511C>T	7.37:g.117876137C>T	ENSP00000265224:p.Pro171Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYF5|Q96QN1|Q9UDM3	Missense_Mutation	SNP	ENST00000265224.4	37	CCDS43638.1	.	.	.	.	.	.	.	.	.	.	C	1.580	-0.531960	0.04112	.	.	ENSG00000106013	ENST00000357099;ENST00000265224;ENST00000417525;ENST00000433239	T;T;T;T	0.52526	1.59;1.59;0.66;0.66	5.3	2.18	0.27775	Ankyrin repeat-containing domain (3);	0.727380	0.11614	N	0.546499	T	0.34571	0.0902	N	0.13299	0.325	0.09310	N	1	B	0.26975	0.165	B	0.34452	0.183	T	0.36915	-0.9728	10	0.42905	T	0.14	-0.2357	11.8021	0.52133	0.0777:0.3361:0.5862:0.0	.	171	Q92527	ANKR7_HUMAN	S	191;171;118;118	ENSP00000349612:P191S;ENSP00000265224:P171S;ENSP00000395595:P118S;ENSP00000388473:P118S	ENSP00000265224:P171S	P	+	1	0	ANKRD7	117663373	0.881000	0.30235	0.059000	0.19551	0.049000	0.14656	1.244000	0.32778	0.725000	0.32318	-0.479000	0.04858	CCA		0.279	ANKRD7-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000346826.1	NM_001077708		T	117876137	C	T	117876137	3	4	663	1	0	0	0	0	1	0	0	0	686	855	30	2	525	2	ANKRD7	7	117876137	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	34285432	117876137	41262526	52	41234										
NOM1	64434	broad.mit.edu	37	chr7	156752565	156752567	+	In_Frame_Del	DEL	GGC	GGC	-													0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gtcggtgcccactttctggaGgcagtggtgaggaagttcga							TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	GGC	GGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr7:156752565_156752567delGGC	ENST00000275820.3	+	4	1344_1346	c.1329_1331delGGC	c.(1327-1332)gaggca>gaa	p.A444del	NOM1_ENST00000460332.1_3'UTR	NM_138400.1	NP_612409.1	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	444	MIF4G. {ECO:0000255|PROSITE- ProRule:PRU00698}.					nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			endometrium(5)|kidney(4)|large_intestine(9)|lung(7)|ovary(1)|prostate(2)|skin(2)|urinary_tract(1)	31	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		ACTTTCTGGAGGCAGTGGTGAGG	0.448																																																0																																										SO:0001651	inframe_deletion	64434			AF107455	CCDS34787.1	7q36.3	2014-06-13	2005-03-30	2005-03-30	ENSG00000146909	ENSG00000146909			13244	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 113"	611269	"chromosome 7 open reading frame 3"	C7orf3		10329000	Standard	XM_005249560		Approved	SGD1, PPP1R113	uc003wmy.3	Q5C9Z4	OTTHUMG00000152639	ENST00000275820.3:c.1329_1331delGGC	7.37:g.156752565_156752567delGGC	ENSP00000275820:p.Ala444del	Somatic		WXS	Illumina HiSeq	Phase_I	Q96I08	In_Frame_Del	DEL	ENST00000275820.3	37	CCDS34787.1																																																																																				0.448	NOM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327098.1	NM_138400		-	156752567	GGC	-	156752565	7	5	663	1	0	1	0	1	0	0	0	0	10537	991	35	0	1343	0	NOM1	7	156752565	In_Frame_Del	DEL	GGC	TCGA-KN-8427-01A-11D-2310-10	38876428	156752565	2386098	53	41235	389	4								
NOM1	64434	bcgsc.ca	37	chr7	156752566	156752568	+	In_Frame_Del	DEL	GGC	GGC	-													0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tcggtgcccactttctggagGcagtggtgaggaagttcgat							TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	GGC	GGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr7:156752566_156752568delGGC	ENST00000275820.3	+	4	1345_1347	c.1330_1332delGGC	c.(1330-1332)ggcdel	p.G444del	NOM1_ENST00000460332.1_3'UTR	NM_138400.1	NP_612409.1	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	444	MIF4G. {ECO:0000255|PROSITE- ProRule:PRU00698}.					nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			endometrium(5)|kidney(4)|large_intestine(9)|lung(7)|ovary(1)|prostate(2)|skin(2)|urinary_tract(1)	31	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		CTTTCTGGAGGCAGTGGTGAGGA	0.453																																																0																																										SO:0001651	inframe_deletion	64434			AF107455	CCDS34787.1	7q36.3	2014-06-13	2005-03-30	2005-03-30	ENSG00000146909	ENSG00000146909			13244	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 113"	611269	"chromosome 7 open reading frame 3"	C7orf3		10329000	Standard	XM_005249560		Approved	SGD1, PPP1R113	uc003wmy.3	Q5C9Z4	OTTHUMG00000152639	ENST00000275820.3:c.1330_1332delGGC	7.37:g.156752566_156752568delGGC	ENSP00000275820:p.Gly444del	Somatic		WXS	Illumina HiSeq	Phase_I	Q96I08	In_Frame_Del	DEL	ENST00000275820.3	37	CCDS34787.1																																																																																				0.453	NOM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327098.1	NM_138400		-	156752568	GGC	-	156752566	7	5	663	1	0	1	0	1	0	0	0	0	10537	1203	42	0	1344	0	NOM1	7	156752566	In_Frame_Del	DEL	GGC	TCGA-KN-8427-01A-11D-2310-10	1	156752566	2386097	54	41236	389	4								
NOM1	64434	broad.mit.edu	37	chr7	156752569	156752570	+	Frame_Shift_Del	DEL	GT	GT	-													0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gtgcccactttctggaggcaGtggtgaggaagttcgatgcc							TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr7:156752569_156752570delGT	ENST00000275820.3	+	4	1348_1349	c.1333_1334delGT	c.(1333-1335)gtgfs	p.V446fs	NOM1_ENST00000460332.1_3'UTR	NM_138400.1	NP_612409.1	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	446	MIF4G. {ECO:0000255|PROSITE- ProRule:PRU00698}.					nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			endometrium(5)|kidney(4)|large_intestine(9)|lung(7)|ovary(1)|prostate(2)|skin(2)|urinary_tract(1)	31	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		TCTGGAGGCAGTGGTGAGGAAG	0.45																																																0																																										SO:0001589	frameshift_variant	64434			AF107455	CCDS34787.1	7q36.3	2014-06-13	2005-03-30	2005-03-30	ENSG00000146909	ENSG00000146909			13244	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 113"	611269	"chromosome 7 open reading frame 3"	C7orf3		10329000	Standard	XM_005249560		Approved	SGD1, PPP1R113	uc003wmy.3	Q5C9Z4	OTTHUMG00000152639	ENST00000275820.3:c.1333_1334delGT	7.37:g.156752569_156752570delGT	ENSP00000275820:p.Val446fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q96I08	Frame_Shift_Del	DEL	ENST00000275820.3	37	CCDS34787.1																																																																																				0.45	NOM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327098.1	NM_138400		-	156752570	GT	-	156752569	7	5	663	1	0	1	0	1	0	0	0	0	10537	1029	36	0	1347	0	NOM1	7	156752569	Frame_Shift_Del	DEL	GT	TCGA-KN-8427-01A-11D-2310-10	3	156752569	2386094	55	41237	389	4								
NOM1	64434	bcgsc.ca	37	chr7	156752570	156752571	+	Frame_Shift_Del	DEL	GT	GT	-													0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tgcccactttctggaggcagTggtgaggaagttcgatgcca							TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr7:156752570_156752571delGT	ENST00000275820.3	+	4	1349_1350	c.1334_1335delGT	c.(1333-1335)ggtfs	p.G445fs	NOM1_ENST00000460332.1_3'UTR	NM_138400.1	NP_612409.1	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	445	MIF4G. {ECO:0000255|PROSITE- ProRule:PRU00698}.					nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			endometrium(5)|kidney(4)|large_intestine(9)|lung(7)|ovary(1)|prostate(2)|skin(2)|urinary_tract(1)	31	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		CTGGAGGCAGTGGTGAGGAAGT	0.455																																																0																																										SO:0001589	frameshift_variant	64434			AF107455	CCDS34787.1	7q36.3	2014-06-13	2005-03-30	2005-03-30	ENSG00000146909	ENSG00000146909			13244	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 113"	611269	"chromosome 7 open reading frame 3"	C7orf3		10329000	Standard	XM_005249560		Approved	SGD1, PPP1R113	uc003wmy.3	Q5C9Z4	OTTHUMG00000152639	ENST00000275820.3:c.1334_1335delGT	7.37:g.156752570_156752571delGT	ENSP00000275820:p.Gly445fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q96I08	Frame_Shift_Del	DEL	ENST00000275820.3	37	CCDS34787.1																																																																																				0.455	NOM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327098.1	NM_138400		-	156752571	GT	-	156752570	7	5	663	1	0	1	0	1	0	0	0	0	10537	1696	59	0	1348	0	NOM1	7	156752570	Frame_Shift_Del	DEL	GT	TCGA-KN-8427-01A-11D-2310-10	1	156752570	2386093	56	41238	389	4								
SCARA5	286133	mdanderson.org	37	chr8	27779545	27779545	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gcctgcgcctgcagcccccaCagcgcgccctccagccgctg	11	22	0	0	rs10103504	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr8:27779545C>T	ENST00000354914.3	-	4	944	c.459G>A	c.(457-459)ctG>ctA	p.L153L	SCARA5_ENST00000524352.1_Silent_p.L153L|SCARA5_ENST00000518030.1_Silent_p.L110L|SCARA5_ENST00000301906.4_Silent_p.L110L|SCARA5_ENST00000380385.2_Intron	NM_173833.5	NP_776194.2	Q6ZMJ2	SCAR5_HUMAN	scavenger receptor class A, member 5	153					cellular iron ion homeostasis (GO:0006879)|cellular response to heat (GO:0034605)|endocytosis (GO:0006897)|iron ion transmembrane transport (GO:0034755)|protein homotrimerization (GO:0070207)|receptor-mediated endocytosis (GO:0006898)|regulation of blood coagulation (GO:0030193)|regulation of gene expression (GO:0010468)	cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)	ferritin receptor activity (GO:0070287)|scavenger receptor activity (GO:0005044)			central_nervous_system(1)|large_intestine(6)|lung(5)|prostate(3)|skin(3)	18		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)|Colorectal(74;0.228)		GCAGCCCCCACAGCGCGCCCT	0.721													C|||	2857	0.570487	0.3631	0.696	5008	,	,		12321	0.5843		0.6024	False		,,,				2504	0.7147															0								C		1840,2254		503,834,710	4	5	5		459	2.7	1	8	dbSNP_119	5	5071,2913		1733,1605,654	no	coding-synonymous	SCARA5	NM_173833.5		2236,2439,1364	TT,TC,CC		36.4855,44.9438,42.7803		153/496	27779545	6911,5167	2047	3992	6039	SO:0001819	synonymous_variant	286133			AK172746	CCDS6064.1	8p21.1	2014-07-08	2014-07-08		ENSG00000168079	ENSG00000168079			28701	protein-coding gene	gene with protein product		611306	"scavenger receptor class A, member 5 (putative)"			19154717	Standard	NM_173833		Approved	FLJ23907, MGC45780, NET33	uc003xgj.3	Q6ZMJ2	OTTHUMG00000132172	ENST00000354914.3:c.459G>A	8.37:g.27779545C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXZ1|Q7Z4A1|Q8N4Z7	Silent	SNP	ENST00000354914.3	37	CCDS6064.1																																																																																				0.721	SCARA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255223.2	NM_173833		T	27779545	C	T	27779545	2	4	663	1	0	0	0	0	0	0	0	1	13893	465	17	2		2	SCARA5	8	27779545	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10		27779545	118584477	57	41239										
PABPC1	26986	broad.mit.edu	37	chr8	101724623	101724624	+	Frame_Shift_Ins	INS	-	-	A													0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ttgtaccaaatggagaaaacINStctttccggagacgttcatc							TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr8:101724623_101724624insA	ENST00000318607.5	-	7	2066_2067	c.938_939insT	c.(937-939)gagfs	p.E313fs	PABPC1_ENST00000519004.1_Frame_Shift_Ins_p.E268fs|PABPC1_ENST00000522387.1_Frame_Shift_Ins_p.E281fs|PABPC1_ENST00000519596.1_5'UTR	NM_002568.3	NP_002559.2	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	313	RRM 4. {ECO:0000255|PROSITE- ProRule:PRU00176}.				cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|mRNA polyadenylation (GO:0006378)|mRNA splicing, via spliceosome (GO:0000398)|mRNA stabilization (GO:0048255)|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:2000623)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|positive regulation of translation (GO:0045727)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)|poly(U) RNA binding (GO:0008266)|protein C-terminus binding (GO:0008022)|translation activator activity (GO:0008494)			breast(2)|endometrium(4)|kidney(15)|large_intestine(4)|lung(13)|prostate(1)|skin(1)	40	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			ATGGAGAAAACTCTTTCCGGAG	0.297																																																0																																										SO:0001589	frameshift_variant	26986			Y00345	CCDS6289.1	8q22.2-q23	2013-02-12	2004-04-20		ENSG00000070756	ENSG00000070756		"RNA binding motif (RRM) containing"	8554	protein-coding gene	gene with protein product		604679	"poly(A)-binding protein, cytoplasmic 2"	PAB1, PABPC2		2885805	Standard	XM_005250861		Approved	PABP1, PABPL1	uc003yjs.1	P11940	OTTHUMG00000164779	ENST00000318607.5:c.938_939insT	8.37:g.101724623_101724624insA	ENSP00000313007:p.Glu313fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q15097|Q93004	Frame_Shift_Ins	INS	ENST00000318607.5	37	CCDS6289.1																																																																																				0.297	PABPC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380217.1	NM_002568		A	101724624	-	A	101724623	7	5	663	1	0	1	1	0	0	0	0	0	11370	564	20	0	1003	0	PABPC1	8	101724623	Frame_Shift_Ins	INS	-	TCGA-KN-8427-01A-11D-2310-10	73945078	101724623	44639399	58	41240	390	2								
PABPC1	26986	broad.mit.edu	37	chr8	101724626	101724627	+	Frame_Shift_Del	DEL	TT	TT	-													0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gtaccaaatggagaaaactcTttccggagacgttcatcatc							TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr8:101724626_101724627delTT	ENST00000318607.5	-	7	2063_2064	c.935_936delAA	c.(934-936)aaafs	p.K312fs	PABPC1_ENST00000519004.1_Frame_Shift_Del_p.K267fs|PABPC1_ENST00000522387.1_Frame_Shift_Del_p.K280fs|PABPC1_ENST00000519596.1_5'UTR	NM_002568.3	NP_002559.2	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	312	RRM 4. {ECO:0000255|PROSITE- ProRule:PRU00176}.				cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|mRNA polyadenylation (GO:0006378)|mRNA splicing, via spliceosome (GO:0000398)|mRNA stabilization (GO:0048255)|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:2000623)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|positive regulation of translation (GO:0045727)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)|poly(U) RNA binding (GO:0008266)|protein C-terminus binding (GO:0008022)|translation activator activity (GO:0008494)			breast(2)|endometrium(4)|kidney(15)|large_intestine(4)|lung(13)|prostate(1)|skin(1)	40	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			GAGAAAACTCTTTCCGGAGACG	0.307																																																0																																										SO:0001589	frameshift_variant	26986			Y00345	CCDS6289.1	8q22.2-q23	2013-02-12	2004-04-20		ENSG00000070756	ENSG00000070756		"RNA binding motif (RRM) containing"	8554	protein-coding gene	gene with protein product		604679	"poly(A)-binding protein, cytoplasmic 2"	PAB1, PABPC2		2885805	Standard	XM_005250861		Approved	PABP1, PABPL1	uc003yjs.1	P11940	OTTHUMG00000164779	ENST00000318607.5:c.935_936delAA	8.37:g.101724626_101724627delTT	ENSP00000313007:p.Lys312fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q15097|Q93004	Frame_Shift_Del	DEL	ENST00000318607.5	37	CCDS6289.1																																																																																				0.307	PABPC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380217.1	NM_002568		-	101724627	TT	-	101724626	7	5	663	1	0	1	0	1	0	0	0	0	11370	1606	56	0	1006	0	PABPC1	8	101724626	Frame_Shift_Del	DEL	TT	TCGA-KN-8427-01A-11D-2310-10	3	101724626	44639396	59	41241	390	2								
DCAF13	81034	hgsc.bcm.edu	37	chr8	104427572	104427572	+	5'Flank	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cgctccgcgagtcacgtgacTggaagtagtctgggaaaagc	14	10	2	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr8:104427572T>A	ENST00000297578.4	-	0	0				DCAF13_ENST00000297579.5_Silent_p.T118T|DCAF13_ENST00000519682.1_5'Flank|DCAF13_ENST00000521971.1_5'Flank|SLC25A32_ENST00000543107.1_5'Flank|DCAF13_ENST00000521716.1_5'Flank	NM_030780.3	NP_110407.2	Q9H2D1	MFTC_HUMAN	solute carrier family 25 (mitochondrial folate carrier), member 32						folic acid metabolic process (GO:0046655)|folic acid transport (GO:0015884)|mitochondrial transport (GO:0006839)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)	folic acid transporter activity (GO:0008517)			central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(2)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(2)	9			OV - Ovarian serous cystadenocarcinoma(57;2.79e-06)|STAD - Stomach adenocarcinoma(118;0.197)		Folic Acid(DB00158)	GTCACGTGACTGGAAGTAGTC	0.637																																																0													38	46	43					8																	104427572		2199	4297	6496	SO:0001631	upstream_gene_variant	25879			AF283645	CCDS6300.1	8q22.3	2013-05-22	2013-03-15		ENSG00000164933	ENSG00000164933		"Solute carriers"	29683	protein-coding gene	gene with protein product		610815	"solute carrier family 25, member 32"			10978331	Standard	NM_030780		Approved	MFTC	uc003yll.4	Q9H2D1	OTTHUMG00000164790		8.37:g.104427572T>A	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	Q96JZ6|Q96SU7	Silent	SNP	ENST00000297578.4	37	CCDS6300.1																																																																																				0.637	SLC25A32-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380290.2	NM_030780		A	104427572	T	A	104427572	1	1	663	0	1	0	0	0	0	0	0	0	4268	1567	55	5		5	DCAF13	8	104427572	5'Flank	SNP	T	TCGA-KN-8427-01A-11D-2310-10	2702946	104427572	41936450	60	41242										
PKHD1L1	93035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr8	110530424	110530424	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cttcctaacctggattccacTgtccttggtgaaaactactt	6	12	0	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr8:110530424T>C	ENST00000378402.5	+	73	11822	c.11718T>C	c.(11716-11718)acT>acC	p.T3906T		NM_177531.4	NP_803875.2	Q86WI1	PKHL1_HUMAN	polycystic kidney and hepatic disease 1 (autosomal recessive)-like 1	3906					immune response (GO:0006955)	cytosol (GO:0005829)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)	receptor activity (GO:0004872)			NS(4)|breast(13)|central_nervous_system(6)|cervix(1)|endometrium(19)|kidney(17)|large_intestine(34)|lung(122)|ovary(11)|pancreas(3)|prostate(9)|skin(3)|stomach(4)|upper_aerodigestive_tract(13)|urinary_tract(4)	263			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TGGATTCCACTGTCCTTGGTG	0.363										HNSCC(38;0.096)																																						0													84	76	79					8																	110530424		1866	4089	5955	SO:0001819	synonymous_variant	93035			AY219181	CCDS47911.1	8q23	2003-03-28			ENSG00000205038	ENSG00000205038			20313	protein-coding gene	gene with protein product		607843				12620974	Standard	NM_177531		Approved		uc003yne.3	Q86WI1	OTTHUMG00000164934	ENST00000378402.5:c.11718T>C	8.37:g.110530424T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q567P2|Q9UF27	Silent	SNP	ENST00000378402.5	37	CCDS47911.1																																																																																				0.363	PKHD1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381017.1	NM_177531		C	110530424	T	C	110530424	2	2	663	1	0	0	0	0	0	0	0	1	11979	1567	55	3		3	PKHD1L1	8	110530424	Silent	SNP	T	TCGA-KN-8427-01A-11D-2310-10	6102852	110530424	35833598	61	41243										
CSMD3	114788	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr8	113988244	113988244	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cgctgttcctcggaaagtctAtggatggtgacagctgtaac	12	9	1	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr8:113988244A>G	ENST00000297405.5	-	7	1408	c.1164T>C	c.(1162-1164)caT>caC	p.H388H	CSMD3_ENST00000343508.3_Silent_p.H348H|CSMD3_ENST00000352409.3_Silent_p.H388H|CSMD3_ENST00000455883.2_Intron	NM_198123.1	NP_937756.1	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3	388						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(7)|central_nervous_system(6)|endometrium(44)|haematopoietic_and_lymphoid_tissue(8)|kidney(36)|large_intestine(72)|liver(5)|lung(389)|ovary(24)|prostate(6)|skin(23)|upper_aerodigestive_tract(19)|urinary_tract(7)	646						CGGAAAGTCTATGGATGGTGA	0.502										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)																																						0													198	175	183					8																	113988244		2203	4300	6503	SO:0001819	synonymous_variant	114788			AY210419	CCDS6315.1, CCDS6316.2, CCDS6317.1	8q23.3	2007-01-06			ENSG00000164796	ENSG00000164796			19291	protein-coding gene	gene with protein product		608399					Standard	NM_052900		Approved		uc003ynu.3	Q7Z407	OTTHUMG00000157027	ENST00000297405.5:c.1164T>C	8.37:g.113988244A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q96PZ3	Silent	SNP	ENST00000297405.5	37	CCDS6315.1																																																																																				0.502	CSMD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347141.1	NM_052900		G	113988244	A	G	113988244	2	3	663	1	0	0	0	0	0	0	0	1	3948	446	16	3		3	CSMD3	8	113988244	Silent	SNP	A	TCGA-KN-8427-01A-11D-2310-10	3457820	113988244	32375778	62	41244										
CYP11B1	1584	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr8	143958438	143958438	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	atcttcccacgtggcccacaCcttctatggtgtagtggaag	10	12	2	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr8:143958438C>T	ENST00000292427.4	-	3	628		c.e3+1		CYP11B1_ENST00000517471.1_Splice_Site|CYP11B1_ENST00000377675.3_Splice_Site	NM_000497.3	NP_000488.3	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B, polypeptide 1						aldosterone biosynthetic process (GO:0032342)|C21-steroid hormone biosynthetic process (GO:0006700)|cellular response to hormone stimulus (GO:0032870)|cellular response to potassium ion (GO:0035865)|cortisol biosynthetic process (GO:0034651)|glucocorticoid biosynthetic process (GO:0006704)|glucose homeostasis (GO:0042593)|immune response (GO:0006955)|mineralocorticoid biosynthetic process (GO:0006705)|regulation of blood pressure (GO:0008217)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|sterol metabolic process (GO:0016125)|xenobiotic metabolic process (GO:0006805)	mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	heme binding (GO:0020037)|iron ion binding (GO:0005506)|steroid 11-beta-monooxygenase activity (GO:0004507)			central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(10)|lung(36)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)	67	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Cimetidine(DB00501)|Clotrimazole(DB00257)|Etomidate(DB00292)|Fluconazole(DB00196)|Hydrocortisone(DB00741)|Ketoconazole(DB01026)|Metoclopramide(DB01233)|Metyrapone(DB01011)|Miconazole(DB01110)|Mitotane(DB00648)|Phenytoin(DB00252)|Spironolactone(DB00421)	GTGGCCCACACCTTCTATGGT	0.652									Familial Hyperaldosteronism type I																																							0													47	42	43					8																	143958438		2203	4300	6503	SO:0001630	splice_region_variant	1584	Familial Cancer Database	Dexamethasone Sensitive Aldosteronism, FH-I	D16153	CCDS6392.1, CCDS34953.1	8q21-q22	2013-06-19	2003-01-14		ENSG00000160882	ENSG00000160882	1.14.15.4	"Cytochrome P450s"	2591	protein-coding gene	gene with protein product	"steroid 11-beta-monooxygenase"	610613	"cytochrome P450, subfamily XIB (steroid 11-beta-hydroxylase), polypeptide 1"	CYP11B		1303253	Standard	XM_005250807		Approved	P450C11, FHI, CPN1	uc003yxi.3	P15538	OTTHUMG00000164637	ENST00000292427.4:c.595+1G>A	8.37:g.143958438C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14095|Q4VAQ8|Q4VAQ9|Q9UML2	Splice_Site	SNP	ENST00000292427.4	37	CCDS6392.1	.	.	.	.	.	.	.	.	.	.	.	8.172	0.791801	0.16258	.	.	ENSG00000160882	ENST00000292427;ENST00000517471;ENST00000377675	.	.	.	3.88	2.99	0.34606	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	7.9951	0.30263	0.0:0.8784:0.0:0.1216	.	.	.	.	.	-1	.	.	.	-	.	.	CYP11B1	143955440	1.000000	0.71417	0.709000	0.30452	0.058000	0.15608	5.368000	0.66133	0.917000	0.36895	-0.142000	0.14014	.		0.652	CYP11B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379475.2		Intron	T	143958438	C	T	143958438	5	4	663	1	0	0	0	0	0	0	1	0	4147	521	18	2	943	2	CYP11B1	8	143958438	Splice_Site	SNP	C	TCGA-KN-8427-01A-11D-2310-10	29970194	143958438	2405584	63	41245										
PLEC	5339	mdanderson.org	37	chr8	144996029	144996029	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ctcctgcagcctctgagctgAcaccttccgccgcaggccat	9	18	1	2	rs7833924	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr8:144996029A>G	ENST00000322810.4	-	32	8540	c.8371T>C	c.(8371-8373)Tca>Cca	p.S2791P	PLEC_ENST00000345136.3_Missense_Mutation_p.S2654P|PLEC_ENST00000398774.2_Missense_Mutation_p.S2622P|PLEC_ENST00000436759.2_Missense_Mutation_p.S2681P|PLEC_ENST00000527096.1_Missense_Mutation_p.S2677P|PLEC_ENST00000356346.3_Missense_Mutation_p.S2640P|PLEC_ENST00000357649.2_Missense_Mutation_p.S2658P|PLEC_ENST00000354958.2_Missense_Mutation_p.S2632P|PLEC_ENST00000354589.3_Missense_Mutation_p.S2654P	NM_201380.2	NP_958782.1	Q15149	PLEC_HUMAN	plectin	2791	Globular 2.		S -> P (in dbSNP:rs7833924).		apoptotic process (GO:0006915)|cell junction assembly (GO:0034329)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)	costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|intermediate filament cytoskeleton (GO:0045111)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcoplasm (GO:0016528)	ankyrin binding (GO:0030506)|poly(A) RNA binding (GO:0044822)|structural constituent of muscle (GO:0008307)			NS(1)|breast(3)|central_nervous_system(4)|cervix(7)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(8)|lung(57)|ovary(4)|pancreas(2)|prostate(11)|skin(9)|stomach(2)|upper_aerodigestive_tract(10)	137						CTCTGAGCTGACACCTTCCGC	0.687													G|||	2337	0.466653	0.8775	0.3674	5008	,	,		16760	0.1429		0.4354	False		,,,				2504	0.3476															0								G	PRO/SER,PRO/SER,PRO/SER,PRO/SER,PRO/SER,PRO/SER,PRO/SER,PRO/SER	3507,739		1479,549,95	13	16	15		8041,7918,7894,8371,7864,7960,7972,7960	1.3	0.6	8	dbSNP_116	15	3635,4801		854,1927,1437	yes	missense,missense,missense,missense,missense,missense,missense,missense	PLEC	NM_000445.3,NM_201378.2,NM_201379.1,NM_201380.2,NM_201381.1,NM_201382.2,NM_201383.1,NM_201384.1	74,74,74,74,74,74,74,74	2333,2476,1532	GG,GA,AA		43.0891,17.4046,43.684	benign,benign,benign,benign,benign,benign,benign,benign	2681/4575,2640/4534,2632/4526,2791/4685,2622/4516,2654/4548,2658/4552,2654/4548	144996029	7142,5540	2123	4218	6341	SO:0001583	missense	5339			U53204	CCDS43769.1, CCDS43770.1, CCDS43771.1, CCDS43772.1, CCDS43773.1, CCDS43774.1, CCDS43775.1, CCDS47936.1	8q24	2010-02-04	2010-02-04	2010-02-04	ENSG00000178209	ENSG00000178209			9069	protein-coding gene	gene with protein product		601282	"plectin 1, intermediate filament binding protein, 500kD", "epidermolysis bullosa simplex 1 (Ogna)", "plectin 1, intermediate filament binding protein 500kDa"	EBS1, PLEC1		8633055, 8696340	Standard	XM_005250976		Approved	PCN, PLTN	uc003zaf.1	Q15149	OTTHUMG00000165291	ENST00000322810.4:c.8371T>C	8.37:g.144996029A>G	ENSP00000323856:p.Ser2791Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q15148|Q16640|Q6S376|Q6S377|Q6S378|Q6S379|Q6S380|Q6S381|Q6S382|Q6S383	Missense_Mutation	SNP	ENST00000322810.4	37	CCDS43772.1	978	0.4478021978021978	423	0.8597560975609756	137	0.3784530386740331	94	0.16433566433566432	324	0.42744063324538256	G	9.708	1.156295	0.21454	0.825954	0.430891	ENSG00000178209	ENST00000345136;ENST00000357649;ENST00000354589;ENST00000398774;ENST00000322810;ENST00000354958;ENST00000356346;ENST00000436759;ENST00000527096	T;T;T;T;T;T;T;T;T	0.69806	-0.43;-0.43;-0.43;-0.43;-0.43;-0.43;-0.43;-0.43;-0.43	4.16	1.26	0.21427	.	0.000000	0.64402	N	0.000006	T	0.00012	0.0000	N	0.05441	-0.05	0.46678	P	8.430000000000382E-4	B;B;B;B;B;B;B;B	0.02656	0.0;0.0;0.0;0.0;0.0;0.0;0.0;0.0	B;B;B;B;B;B;B;B	0.01281	0.0;0.0;0.0;0.0;0.0;0.0;0.0;0.0	T	0.42766	-0.9432	9	0.02654	T	1	.	3.6953	0.08361	0.4852:0.1979:0.317:0.0	rs7833924	2681;2640;2632;2791;2622;2654;2658;2654	Q15149-2;Q15149-9;Q15149-8;Q15149;Q15149-7;Q15149-5;Q15149-6;Q15149-4	.;.;.;PLEC_HUMAN;.;.;.;.	P	2654;2658;2654;2622;2791;2632;2640;2681;2677	ENSP00000344848:S2654P;ENSP00000350277:S2658P;ENSP00000346602:S2654P;ENSP00000381756:S2622P;ENSP00000323856:S2791P;ENSP00000347044:S2632P;ENSP00000348702:S2640P;ENSP00000388180:S2681P;ENSP00000434583:S2677P	ENSP00000323856:S2791P	S	-	1	0	PLEC	145068017	0.803000	0.28956	0.551000	0.28230	0.791000	0.44710	0.441000	0.21611	0.147000	0.19030	-0.380000	0.06706	TCA		0.687	PLEC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383281.1	NM_000445		G	144996029	A	G	144996029	3	3	663	1	0	0	0	0	1	0	0	0	12059	275	10	3	5687	3	PLEC	8	144996029	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10	1037591	144996029	1367993	64	41246										
C9orf72	203228	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr9	27556771	27556771	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tacatgacttgccggaaaggCagcacaaagcttccagttga	10	10	0	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr9:27556771C>T	ENST00000380003.3	-	8	942	c.879G>A	c.(877-879)ctG>ctA	p.L293L	C9orf72_ENST00000488117.1_5'UTR	NM_001256054.1|NM_018325.3	NP_001242983.1|NP_060795.1	Q96LT7	CI072_HUMAN	chromosome 9 open reading frame 72	293					autophagy (GO:0006914)|cell death (GO:0008219)|endocytosis (GO:0006897)	autophagic vacuole (GO:0005776)|cytoplasmic vesicle (GO:0031410)|endosome (GO:0005768)|extracellular space (GO:0005615)|lysosome (GO:0005764)|nucleus (GO:0005634)	Rab GTPase binding (GO:0017137)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(2)|lung(10)|ovary(4)|pancreas(1)	23		all_neural(11;7.57e-10)		LUSC - Lung squamous cell carcinoma(38;0.0001)|Lung(218;0.00016)		GCCGGAAAGGCAGCACAAAGC	0.363																																																0													127	120	122					9																	27556771		2203	4300	6503	SO:0001819	synonymous_variant	203228			AL832467	CCDS6522.1, CCDS6523.1	9p21.1	2014-09-17			ENSG00000147894	ENSG00000147894			28337	protein-coding gene	gene with protein product		614260				21944778, 24549040	Standard	NM_145005		Approved	MGC23980	uc003zqq.3	Q96LT7	OTTHUMG00000019716	ENST00000380003.3:c.879G>A	9.37:g.27556771C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5W0|D3DRK6|G8I0B6|Q6NUS9	Silent	SNP	ENST00000380003.3	37	CCDS6522.1																																																																																				0.363	C9orf72-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051969.1	NM_018325		T	27556771	C	T	27556771	2	4	663	1	0	0	0	0	0	0	0	1	2497	697	25	2		2	C9orf72	9	27556771	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10		27556771	113656660	65	41247										
C9orf23	138716	broad.mit.edu	37	chr9	34611014	34611014	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tgaggctgggacccagctgtCctcagtctgaaggaaacgta	13	10	2	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr9:34611014C>T	ENST00000297613.4	-	2	560	c.280G>A	c.(280-282)Gac>Aac	p.D94N	DCTN3_ENST00000479399.1_5'Flank|RPP25L_ENST00000378959.4_Missense_Mutation_p.D94N	NM_148179.2	NP_680545.1	Q8N5L8	RP25L_HUMAN	ribonuclease P/MRP 25kDa subunit-like	94						nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)										ACCCAGCTGTCCTCAGTCTGA	0.647																																																0													61	51	55					9																	34611014		2203	4300	6503	SO:0001583	missense	138716			BC032136	CCDS6559.1	9p11.2	2012-03-06	2012-03-06	2012-03-06	ENSG00000164967	ENSG00000164967			19909	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 23"	C9orf23		16998185	Standard	NM_148178		Approved	bA296L22.5, MGC29635	uc003zuv.3	Q8N5L8	OTTHUMG00000000443	ENST00000297613.4:c.280G>A	9.37:g.34611014C>T	ENSP00000297613:p.Asp94Asn	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRM5	Missense_Mutation	SNP	ENST00000297613.4	37	CCDS6559.1	.	.	.	.	.	.	.	.	.	.	C	33	5.205854	0.95033	.	.	ENSG00000164967	ENST00000378959;ENST00000297613	.	.	.	4.72	4.72	0.59763	.	0.105878	0.64402	D	0.000004	T	0.71921	0.3397	M	0.76938	2.355	0.52099	D	0.999945	D	0.55605	0.972	P	0.50136	0.632	T	0.78003	-0.2374	9	0.72032	D	0.01	-6.4208	16.8747	0.86048	0.0:1.0:0.0:0.0	.	94	Q8N5L8	CI023_HUMAN	N	94	.	ENSP00000297613:D94N	D	-	1	0	C9orf23	34601014	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.004000	0.76317	2.448000	0.82819	0.643000	0.83706	GAC		0.647	RPP25L-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000001130.1	NM_148179		T	34611014	C	T	34611014	3	4	663	1	0	0	0	0	1	0	0	0	2476	855	30	2	215	2	C9orf23	9	34611014	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	7054243	34611014	106602417	66	41248										
CNTNAP3	79937	mdanderson.org	37	chr9	39177438	39177438	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	acggaatgccagtgctggtcGtccagcaggctgcccagggt	15	12	0	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr9:39177438G>A	ENST00000297668.6	-	6	877	c.804C>T	c.(802-804)gaC>gaT	p.D268D	CNTNAP3_ENST00000358144.2_Silent_p.D180D|CNTNAP3_ENST00000377656.2_Silent_p.D268D|CNTNAP3_ENST00000377659.1_Silent_p.D268D|CNTNAP3_ENST00000323947.7_Silent_p.D268D|CNTNAP3_ENST00000377653.2_5'UTR	NM_033655.3	NP_387504.2	Q9BZ76	CNTP3_HUMAN	contactin associated protein-like 3	268	Laminin G-like 1. {ECO:0000255|PROSITE- ProRule:PRU00122}.				cell adhesion (GO:0007155)|cell recognition (GO:0008037)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(1)|endometrium(3)|kidney(2)|large_intestine(5)|liver(2)|lung(8)|ovary(1)|upper_aerodigestive_tract(2)	24				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		AGTGCTGGTCGTCCAGCAGGC	0.502																																																0													71	65	67					9																	39177438		2203	4300	6503	SO:0001819	synonymous_variant	79937			AF333769	CCDS6616.1	9q12	2008-02-05			ENSG00000106714	ENSG00000106714			13834	protein-coding gene	gene with protein product	"cell recognition molecule CASPR3 (FLJ14195, KIAA1714)"	610517				12093160	Standard	NM_033655		Approved	CASPR3, KIAA1714, FLJ14195, CNTNAP3A	uc004abi.3	Q9BZ76	OTTHUMG00000019954	ENST00000297668.6:c.804C>T	9.37:g.39177438G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B1AMA0|Q9C0E9	Silent	SNP	ENST00000297668.6	37	CCDS6616.1																																																																																				0.502	CNTNAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052511.1	NM_033655		A	39177438	G	A	39177438	2	1	663	1	0	0	0	0	0	0	0	1	3650	1136	40	1		1	CNTNAP3	9	39177438	Silent	SNP	G	TCGA-KN-8427-01A-11D-2310-10	4566424	39177438	102035993	67	41249										
ROR2	4920	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr9	94487339	94487339	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ttcccaaaccggtcctctccCagctcctccatgaacctcac	4	20	2	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr9:94487339C>G	ENST00000375708.3	-	9	1635	c.1437G>C	c.(1435-1437)ctG>ctC	p.L479L	ROR2_ENST00000375715.1_Silent_p.L339L|ROR2_ENST00000550066.1_5'UTR	NM_004560.3	NP_004551.2	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	479	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cartilage condensation (GO:0001502)|cell differentiation (GO:0030154)|embryonic genitalia morphogenesis (GO:0030538)|inner ear morphogenesis (GO:0042472)|JNK cascade (GO:0007254)|multicellular organismal development (GO:0007275)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cell proliferation (GO:0008285)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cell migration (GO:0030335)|positive regulation of transcription, DNA-templated (GO:0045893)|signal transduction (GO:0007165)|somitogenesis (GO:0001756)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|Wnt signaling pathway, calcium modulating pathway (GO:0007223)|Wnt signaling pathway, planar cell polarity pathway (GO:0060071)	clathrin-coated endocytic vesicle membrane (GO:0030669)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)|Wnt-protein binding (GO:0017147)			autonomic_ganglia(1)|breast(1)|central_nervous_system(5)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(12)|lung(31)|ovary(3)|prostate(6)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	71						GGTCCTCTCCCAGCTCCTCCA	0.572																																																0													212	241	231					9																	94487339		2203	4300	6503	SO:0001819	synonymous_variant	4920			M97639	CCDS6691.1	9q22	2013-01-11			ENSG00000169071	ENSG00000169071		"Immunoglobulin superfamily / I-set domain containing"	10257	protein-coding gene	gene with protein product		602337		NTRKR2, BDB, BDB1		1334494, 10700182	Standard	NM_004560		Approved		uc004arj.2	Q01974	OTTHUMG00000020211	ENST00000375708.3:c.1437G>C	9.37:g.94487339C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q59GF5|Q5SPI5|Q9HAY7|Q9HB61	Silent	SNP	ENST00000375708.3	37	CCDS6691.1																																																																																				0.572	ROR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053040.1			G	94487339	C	G	94487339	2	3	663	1	0	0	0	0	0	0	0	1	13540	581	21	4		4	ROR2	9	94487339	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10	55309901	94487339	46726092	68	41250										
GARNL3	84253	broad.mit.edu	37	chr9	130075815	130075815	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	atcaacgtgtccctcaatacCgtgcaattctttggagaaaa	7	10	3	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr9:130075815C>T	ENST00000373387.4	+	4	767	c.415C>T	c.(415-417)Cgt>Tgt	p.R139C	GARNL3_ENST00000314904.5_Missense_Mutation_p.R139C|GARNL3_ENST00000435213.2_Missense_Mutation_p.R117C	NM_032293.4	NP_115669.3	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	139					regulation of small GTPase mediated signal transduction (GO:0051056)		GTPase activator activity (GO:0005096)|small GTPase regulator activity (GO:0005083)			NS(1)|central_nervous_system(1)|endometrium(6)|large_intestine(5)|lung(24)|ovary(1)|skin(1)|urinary_tract(2)	41						CCCTCAATACCGTGCAATTCT	0.438																																																0													191	170	177					9																	130075815		2203	4300	6503	SO:0001583	missense	84253			BC034983	CCDS6869.2, CCDS69663.1	9q34.13	2009-09-14	2004-08-09		ENSG00000136895	ENSG00000136895			25425	protein-coding gene	gene with protein product			"GTPase activating RANGAP domain-like 3"			11230166	Standard	NM_032293		Approved	DKFZp761J1523, bA356B19.1	uc011mae.2	Q5VVW2	OTTHUMG00000020700	ENST00000373387.4:c.415C>T	9.37:g.130075815C>T	ENSP00000362485:p.Arg139Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DEP7|B7Z3Q6|Q8IYU1|Q8N951|Q8ND89|Q9BQH6	Missense_Mutation	SNP	ENST00000373387.4	37	CCDS6869.2	.	.	.	.	.	.	.	.	.	.	C	20.3	3.974827	0.74360	.	.	ENSG00000136895	ENST00000439286;ENST00000373399;ENST00000425970;ENST00000435213;ENST00000314904;ENST00000373387	D;D;D;D;D	0.94862	-3.54;-3.54;-3.54;-3.54;-3.54	5.76	4.82	0.62117	.	0.047395	0.85682	D	0.000000	D	0.96436	0.8837	M	0.77103	2.36	0.58432	D	0.999997	D;D	0.89917	1.0;1.0	D;D	0.65874	0.939;0.912	D	0.95525	0.8598	9	.	.	.	.	12.6058	0.56523	0.2495:0.7504:0.0:0.0	.	139;117	Q5VVW2;B7Z3Q6	GARL3_HUMAN;.	C	162;162;117;117;139;139	ENSP00000400579:R162C;ENSP00000411329:R117C;ENSP00000396205:R117C;ENSP00000313970:R139C;ENSP00000362485:R139C	.	R	+	1	0	GARNL3	129115636	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	1.574000	0.36482	2.871000	0.98454	0.655000	0.94253	CGT		0.438	GARNL3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054151.3	NM_032293		T	130075815	C	T	130075815	3	4	663	1	0	0	0	0	1	0	0	0	6248	652	23	1	429	1	GARNL3	9	130075815	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	35588476	130075815	11137616	69	41251										
PPAPDC3	84814	mdanderson.org	37	chr9	134183379	134183379	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gcggcgcggcccgtacgagaCgagccccagcctcctggact	14	17	0	1	rs2966332	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr9:134183379C>T	ENST00000372264.3	+	2	825	c.521C>T	c.(520-522)aCg>aTg	p.T174M		NM_032728.3	NP_116117.3	Q8NBV4	PPAC3_HUMAN	phosphatidic acid phosphatase type 2 domain containing 3	174			T -> M (in dbSNP:rs2966332). {ECO:0000269|PubMed:15489334}.		negative regulation of myotube differentiation (GO:0010832)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|nuclear envelope (GO:0005635)	hydrolase activity (GO:0016787)			breast(2)|central_nervous_system(1)|kidney(1)|large_intestine(2)|lung(9)|skin(1)	16	all_hematologic(7;0.0119)			OV - Ovarian serous cystadenocarcinoma(145;1.22e-05)|Epithelial(140;0.000173)		CCGTACGAGACGAGCCCCAGC	0.677													C|||	3122	0.623403	0.4047	0.6499	5008	,	,		15990	0.7252		0.7416	False		,,,				2504	0.6738															0								C	MET/THR	2051,2355	561.2+/-380.7	478,1095,630	53	47	49		521	3.5	0.9	9	dbSNP_101	49	6480,2120	710.7+/-405.8	2455,1570,275	yes	missense	PPAPDC3	NM_032728.3	81	2933,2665,905	TT,TC,CC		24.6512,46.5502,34.4072	benign	174/272	134183379	8531,4475	2203	4300	6503	SO:0001583	missense	84814			AK027568	CCDS6942.1	9q34.2-q34.3	2008-02-26	2005-07-15	2005-07-15	ENSG00000160539	ENSG00000160539			28174	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 67"	C9orf67		12958361	Standard	NM_032728		Approved	MGC12921, FLJ14662, NET39	uc004cal.2	Q8NBV4	OTTHUMG00000020822	ENST00000372264.3:c.521C>T	9.37:g.134183379C>T	ENSP00000361338:p.Thr174Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6P0|Q96SS7|Q9BRC3	Missense_Mutation	SNP	ENST00000372264.3	37	CCDS6942.1	1420	0.6501831501831502	208	0.42276422764227645	243	0.6712707182320442	413	0.722027972027972	556	0.7335092348284961	C	9.934	1.215704	0.22373	0.465502	0.753488	ENSG00000160539	ENST00000372264	T	0.75050	-0.9	4.68	3.5	0.40072	Phosphatidic acid phosphatase/chloroperoxidase, N-terminal (1);	0.293233	0.40144	N	0.001179	T	0.00012	0.0000	N	0.02854	-0.475	0.09310	P	1.0	B	0.06786	0.001	B	0.06405	0.002	T	0.45934	-0.9227	9	0.30854	T	0.27	-33.1479	3.8455	0.08933	0.0:0.6576:0.0:0.3424	rs2966332;rs17845091;rs17857876;rs58914852;rs2966332	174	Q8NBV4	PPAC3_HUMAN	M	174	ENSP00000361338:T174M	ENSP00000361338:T174M	T	+	2	0	PPAPDC3	133173200	1.000000	0.71417	0.918000	0.36340	0.293000	0.27360	3.020000	0.49643	2.296000	0.77279	0.505000	0.49811	ACG		0.677	PPAPDC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054724.1	NM_032728		T	134183379	C	T	134183379	3	4	663	1	0	0	0	0	1	0	0	0	12303	536	19	1	527	1	PPAPDC3	9	134183379	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	4107564	134183379	7030052	70	41252										
DCLRE1C	64421	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	14951197	14951197	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tgcagcatcctggggtttgtCtcagtttttcaggctgcttt	11	9	2	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr10:14951197C>G	ENST00000378278.2	-	14	1326	c.1289G>C	c.(1288-1290)aGa>aCa	p.R430T	DCLRE1C_ENST00000378246.2_Missense_Mutation_p.R315T|DCLRE1C_ENST00000357717.2_Missense_Mutation_p.R315T|DCLRE1C_ENST00000378289.4_Intron|DCLRE1C_ENST00000453695.2_Missense_Mutation_p.R310T|DCLRE1C_ENST00000378242.1_Missense_Mutation_p.R83T|DCLRE1C_ENST00000492201.1_5'UTR|DCLRE1C_ENST00000396817.2_Missense_Mutation_p.R310T|DCLRE1C_ENST00000378249.1_Missense_Mutation_p.R315T|DCLRE1C_ENST00000378255.1_Missense_Mutation_p.R310T|DCLRE1C_ENST00000378258.1_Missense_Mutation_p.R310T|DCLRE1C_ENST00000378254.1_Missense_Mutation_p.R310T			Q96SD1	DCR1C_HUMAN	DNA cross-link repair 1C	430					B cell differentiation (GO:0030183)|DNA catabolic process, endonucleolytic (GO:0000737)|DNA recombination (GO:0006310)|double-strand break repair (GO:0006302)|nucleic acid phosphodiester bond hydrolysis (GO:0090305)|response to ionizing radiation (GO:0010212)|telomere maintenance (GO:0000723)	nucleus (GO:0005634)	5'-3' exonuclease activity (GO:0008409)|single-stranded DNA endodeoxyribonuclease activity (GO:0000014)			breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(7)|ovary(1)	17						TGGGGTTTGTCTCAGTTTTTC	0.428								Non-homologous end-joining																																								0													88	90	90					10																	14951197		2203	4300	6503	SO:0001583	missense	64421			BC022254	CCDS7105.1, CCDS31149.1, CCDS31150.1	10p13	2014-09-17	2010-06-24		ENSG00000152457	ENSG00000152457			17642	protein-coding gene	gene with protein product	"PSO2 homolog (S. cerevisiae)"	605988	"severe combined immunodeficiency, type a (Athabascan)", "DNA cross-link repair 1C (PSO2 homolog, S. cerevisiae)"	SCIDA		11336668, 9443881	Standard	XM_005252558		Approved	ARTEMIS, FLJ11360, SNM1C, A-SCID	uc001inn.3	Q96SD1	OTTHUMG00000017716	ENST00000378278.2:c.1289G>C	10.37:g.14951197C>G	ENSP00000367527:p.Arg430Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRT6|Q1HCL2|Q5JSR4|Q5JSR5|Q5JSR7|Q5JSR8|Q5JSR9|Q5JSS0|Q5JSS7|Q6PK14|Q8N101|Q8N132|Q8TBW9|Q9BVW9|Q9HAM4	Missense_Mutation	SNP	ENST00000378278.2	37	CCDS31149.1	.	.	.	.	.	.	.	.	.	.	C	3.260	-0.151372	0.06585	.	.	ENSG00000152457	ENST00000453695;ENST00000378246;ENST00000357717;ENST00000378249;ENST00000396817;ENST00000378255;ENST00000378254;ENST00000378278;ENST00000378258;ENST00000378242	T;T;T;T;T;T;T;T;T	0.75589	-0.41;-0.41;-0.41;-0.41;-0.41;-0.41;-0.41;-0.95;-0.41	5.73	-0.364	0.12553	.	0.988959	0.08284	N	0.969455	T	0.60327	0.2260	L	0.33485	1.01	0.09310	N	1	B;B	0.15141	0.012;0.001	B;B	0.12156	0.007;0.002	T	0.50775	-0.8788	10	0.56958	D	0.05	.	4.8617	0.13587	0.2243:0.4756:0.2203:0.0798	.	315;430	Q96SD1-3;Q96SD1	.;DCR1C_HUMAN	T	310;315;315;315;310;310;310;430;310;83	ENSP00000400529:R310T;ENSP00000367492:R315T;ENSP00000350349:R315T;ENSP00000367496:R315T;ENSP00000380030:R310T;ENSP00000367503:R310T;ENSP00000367502:R310T;ENSP00000367527:R430T;ENSP00000367506:R310T	ENSP00000350349:R315T	R	-	2	0	DCLRE1C	14991203	0.000000	0.05858	0.004000	0.12327	0.092000	0.18411	-0.318000	0.08050	0.031000	0.15407	0.650000	0.86243	AGA		0.428	DCLRE1C-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046934.1	NM_022487		G	14951197	C	G	14951197	3	3	663	1	0	0	0	0	1	0	0	0	4298	913	32	4	793	4	DCLRE1C	10	14951197	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10		14951197	120583550	71	41253										
C10orf114	399726	broad.mit.edu	37	chr10	21784654	21784655	+	Frame_Shift_Ins	INS	-	-	C													0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ggccgttccggacggtcaggINScccgccgctacagggagaag							TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr10:21784654_21784655insC	ENST00000377113.5	-	2	732_733	c.285_286insG	c.(283-288)gggcctfs	p.P96fs	MIR1915_ENST00000410139.1_RNA	NM_001010911.2	NP_001010911.1	Q5T4H9	CSC10_HUMAN	cancer susceptibility candidate 10	96																	GGACGGTCAGGCCCGCCGCTAC	0.668											OREG0020066	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0																																										SO:0001589	frameshift_variant	399726			BC040880	CCDS31163.1	10p12.31	2013-07-17	2013-07-17	2013-07-17	ENSG00000204682	ENSG00000204682			31448	protein-coding gene	gene with protein product			"chromosome 10 open reading frame 114"	C10orf114		21804547	Standard	NM_001010911		Approved	bA418C1.3	uc001iqn.4	Q5T4H9	OTTHUMG00000017795	ENST00000377113.5:c.286dupG	10.37:g.21784657_21784657dupC	ENSP00000366317:p.Pro96fs	Somatic	751	WXS	Illumina HiSeq	Phase_I	A1L4M3	Frame_Shift_Ins	INS	ENST00000377113.5	37	CCDS31163.1																																																																																				0.668	CASC10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047130.2	NM_001010911		C	21784655	-	C	21784654	7	5	663	1	0	1	1	0	0	0	0	0	1587	1203	42	0	128	0	C10orf114	10	21784654	Frame_Shift_Ins	INS	-	TCGA-KN-8427-01A-11D-2310-10	6833457	21784654	113750093	72	41254										
KIAA1462	57608	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	30318485	30318485	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cccatctccatcagacatctGcctccctaatttccttggct	4	17	3	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr10:30318485G>A	ENST00000375377.1	-	3	693	c.592C>T	c.(592-594)Cag>Tag	p.Q198*		NM_020848.2	NP_065899.1	Q9P266	JCAD_HUMAN	KIAA1462	198					cell adhesion (GO:0007155)	cell-cell junction (GO:0005911)				breast(3)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(17)|lung(23)|ovary(6)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)	75						TCAGACATCTGCCTCCCTAAT	0.483																																																0													192	191	191					10																	30318485		2072	4201	6273	SO:0001587	stop_gained	57608			AB040895	CCDS41500.1	10p12.1	2013-04-23			ENSG00000165757	ENSG00000165757			29283	protein-coding gene	gene with protein product	"junctional protein associated with coronary artery disease"	614398				10819331, 21884682	Standard	NM_020848		Approved	JCAD	uc001iux.3	Q9P266	OTTHUMG00000017885	ENST00000375377.1:c.592C>T	10.37:g.30318485G>A	ENSP00000364526:p.Gln198*	Somatic		WXS	Illumina HiSeq	Phase_I	Q5HYA7|Q5T992|Q86WZ9|Q9BYJ2	Nonsense_Mutation	SNP	ENST00000375377.1	37	CCDS41500.1	.	.	.	.	.	.	.	.	.	.	G	37	6.049493	0.97236	.	.	ENSG00000165757	ENST00000375377	.	.	.	5.17	5.17	0.71159	.	0.474213	0.22270	N	0.062271	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	-15.556	13.6056	0.62046	0.0:0.0:0.8448:0.1552	.	.	.	.	X	198	.	ENSP00000364526:Q198X	Q	-	1	0	KIAA1462	30358491	1.000000	0.71417	1.000000	0.80357	0.812000	0.45895	7.033000	0.76504	2.401000	0.81631	0.655000	0.94253	CAG		0.483	KIAA1462-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047409.1	NM_020848		A	30318485	G	A	30318485	4	1	663	1	0	0	0	0	0	1	0	0	8241	1328	46	2	3495	2	KIAA1462	10	30318485	Nonsense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	8533831	30318485	105216262	73	41255										
RTKN2	219790	hgsc.bcm.edu;mdanderson.org	37	chr10	63957976	63957976	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	aatggaagtttatcagaaggAggaaggggagcttgtctctt	14	4	2	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr10:63957976A>C	ENST00000373789.3	-	12	1617	c.1521T>G	c.(1519-1521)ccT>ccG	p.P507P	RTKN2_ENST00000315289.2_Intron|RTKN2_ENST00000395265.1_Intron	NM_145307.2	NP_660350.2	Q8IZC4	RTKN2_HUMAN	rhotekin 2	507					hemopoiesis (GO:0030097)|positive regulation of cell proliferation (GO:0008284)|signal transduction (GO:0007165)	plasma membrane (GO:0005886)				endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(3)|lung(6)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	21	Prostate(12;0.0297)|all_hematologic(501;0.215)					TATCAGAAGGAGGAAGGGGAG	0.398																																																0													222	221	221					10																	63957976		2203	4300	6503	SO:0001819	synonymous_variant	219790			BC025765	CCDS7263.1, CCDS73140.1	10q21.3	2013-01-10	2007-12-14	2007-12-14	ENSG00000182010	ENSG00000182010		"Pleckstrin homology (PH) domain containing"	19364	protein-coding gene	gene with protein product			"pleckstrin homology domain containing, family K member 1"	PLEKHK1		15504364	Standard	NM_001282941		Approved	Em:AC024597.2, bA531F24.1, FLJ39352	uc001jlw.3	Q8IZC4	OTTHUMG00000018299	ENST00000373789.3:c.1521T>G	10.37:g.63957976A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q3ZCR1|Q68DZ6|Q8N8K1|Q8TAV2	Silent	SNP	ENST00000373789.3	37	CCDS7263.1																																																																																				0.398	RTKN2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000091618.1	NM_145307		C	63957976	A	C	63957976	2	2	663	1	0	0	0	0	0	0	0	1	13736	291	11	5		5	RTKN2	10	63957976	Silent	SNP	A	TCGA-KN-8427-01A-11D-2310-10	33639491	63957976	71576771	74	41256										
DDX50	79009	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	70702984	70702984	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tttagggtgtttgctttgatGttcctacaactgagtcagaa	10	6	1	3			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr10:70702984G>C	ENST00000373585.3	+	14	2013	c.1906G>C	c.(1906-1908)Gtt>Ctt	p.V636L	DDX50_ENST00000466265.1_3'UTR	NM_024045.1	NP_076950.1	Q9BQ39	DDX50_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 50	636						membrane (GO:0016020)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|poly(A) RNA binding (GO:0044822)			breast(2)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(5)|liver(2)|lung(6)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)	29						TTGCTTTGATGTTCCTACAAC	0.289																																																0													159	151	154					10																	70702984		2202	4298	6500	SO:0001583	missense	79009			AF334103	CCDS7283.1	10q22.2	2010-09-30			ENSG00000107625	ENSG00000107625		"DEAD-boxes"	17906	protein-coding gene	gene with protein product		610373				11891046	Standard	NM_024045		Approved	GU2, MGC3199, GUB, RH-II/GuB	uc001jou.3	Q9BQ39	OTTHUMG00000018362	ENST00000373585.3:c.1906G>C	10.37:g.70702984G>C	ENSP00000362687:p.Val636Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VX37|Q8WV76|Q9BWI8	Missense_Mutation	SNP	ENST00000373585.3	37	CCDS7283.1	.	.	.	.	.	.	.	.	.	.	G	12.91	2.078399	0.36662	.	.	ENSG00000107625	ENST00000373585;ENST00000541832	T	0.20881	2.04	5.46	4.54	0.55810	GUCT (1);	0.111139	0.64402	D	0.000011	T	0.17831	0.0428	L	0.32530	0.975	0.41726	D	0.989531	B	0.18863	0.031	B	0.33960	0.173	T	0.07046	-1.0793	10	0.27785	T	0.31	-13.3868	8.7587	0.34661	0.1485:0.0:0.8515:0.0	.	636	Q9BQ39	DDX50_HUMAN	L	636	ENSP00000362687:V636L	ENSP00000362687:V636L	V	+	1	0	DDX50	70372990	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	1.695000	0.37763	2.715000	0.92844	0.563000	0.77884	GTT		0.289	DDX50-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048363.1	NM_024045		C	70702984	G	C	70702984	3	2	663	1	0	0	0	0	1	0	0	0	4370	1377	48	4	1960	4	DDX50	10	70702984	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	6745008	70702984	64831763	75	41257										
TYSND1	219743	mdanderson.org	37	chr10	71906150	71906150	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gaagacggcgccggccgcggTcaggacttcgctgccagctc	15	15	1	1	rs4746970	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr10:71906150T>C	ENST00000287078.6	-	1	192	c.193A>G	c.(193-195)Acc>Gcc	p.T65A	TYSND1_ENST00000335494.5_Missense_Mutation_p.T65A|TYSND1_ENST00000494143.1_5'Flank	NM_173555.2	NP_775826.2	Q2T9J0	TYSD1_HUMAN	trypsin domain containing 1	65			T -> A (in dbSNP:rs4746970). {ECO:0000269|PubMed:15489334}.		protein homooligomerization (GO:0051260)|protein processing (GO:0016485)|proteolysis (GO:0006508)|regulation of fatty acid beta-oxidation (GO:0031998)	membrane (GO:0016020)|peroxisome (GO:0005777)	identical protein binding (GO:0042802)|protease binding (GO:0002020)|serine-type endopeptidase activity (GO:0004252)			endometrium(2)|large_intestine(2)|liver(1)|lung(3)|prostate(1)	9						CCGGCCGCGGTCAGGACTTCG	0.726													T|||	1930	0.385383	0.1679	0.513	5008	,	,		13022	0.5327		0.4115	False		,,,				2504	0.41															0								T	ALA/THR,ALA/THR	733,3169		101,531,1319	7	8	8		193,193	2.6	0	10	dbSNP_111	8	2989,4601		673,1643,1479	yes	missense,missense	TYSND1	NM_001040273.1,NM_173555.2	58,58	774,2174,2798	CC,CT,TT		39.3808,18.7852,32.3877	benign,benign	65/399,65/567	71906150	3722,7770	1951	3795	5746	SO:0001583	missense	219743			BC016840	CCDS31213.1, CCDS31214.1	10q22.1	2009-11-06		2006-09-21	ENSG00000156521	ENSG00000156521			28531	protein-coding gene	gene with protein product		611017				17255948	Standard	NM_173555		Approved	MGC34695, NET41	uc001jqr.4	Q2T9J0	OTTHUMG00000018397	ENST00000287078.6:c.193A>G	10.37:g.71906150T>C	ENSP00000287078:p.Thr65Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SQT4|Q5SQU1|Q8N6H2|Q96AR5	Missense_Mutation	SNP	ENST00000287078.6	37	CCDS31213.1	903	0.41346153846153844	77	0.1565040650406504	179	0.494475138121547	330	0.5769230769230769	317	0.4182058047493404	T	3.128	-0.179013	0.06380	0.187852	0.393808	ENSG00000156521	ENST00000287078;ENST00000335494	T;T	0.47177	0.85;0.85	4.98	2.59	0.31030	.	0.704604	0.13805	N	0.361502	T	0.00012	0.0000	L	0.47716	1.5	0.80722	P	0.0	B;B	0.09022	0.002;0.0	B;B	0.08055	0.003;0.001	T	0.42068	-0.9473	9	0.44086	T	0.13	-20.2145	2.3036	0.04168	0.2184:0.3024:0.0:0.4792	rs4746970;rs17854223	65;65	Q2T9J0-2;Q2T9J0	.;TYSD1_HUMAN	A	65	ENSP00000287078:T65A;ENSP00000335673:T65A	ENSP00000287078:T65A	T	-	1	0	TYSND1	71576156	0.001000	0.12720	0.030000	0.17652	0.297000	0.27493	0.483000	0.22292	0.905000	0.36596	0.418000	0.28097	ACC		0.726	TYSND1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048483.1	NM_173555		C	71906150	T	C	71906150	3	2	663	1	0	0	0	0	1	0	0	0	16829	1667	58	3	1523	3	TYSND1	10	71906150	Missense_Mutation	SNP	T	TCGA-KN-8427-01A-11D-2310-10	1203166	71906150	63628597	76	41258										
CYP2C9	1559	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr10	96748762	96748762	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cctctgtgccgcccttctacCagctgtgcttcattcctgtc	7	17	3	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr10:96748762C>T	ENST00000260682.6	+	9	1462	c.1450C>T	c.(1450-1452)Cag>Tag	p.Q484*		NM_000771.3	NP_000762.2	P11712	CP2C9_HUMAN	cytochrome P450, family 2, subfamily C, polypeptide 9	484					arachidonic acid metabolic process (GO:0019369)|cellular amide metabolic process (GO:0043603)|drug catabolic process (GO:0042737)|drug metabolic process (GO:0017144)|epoxygenase P450 pathway (GO:0019373)|exogenous drug catabolic process (GO:0042738)|monocarboxylic acid metabolic process (GO:0032787)|monoterpenoid metabolic process (GO:0016098)|omega-hydroxylase P450 pathway (GO:0097267)|oxidation-reduction process (GO:0055114)|oxidative demethylation (GO:0070989)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|urea metabolic process (GO:0019627)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)|intracellular membrane-bounded organelle (GO:0043231)	(R)-limonene 6-monooxygenase activity (GO:0052741)|(S)-limonene 6-monooxygenase activity (GO:0018675)|(S)-limonene 7-monooxygenase activity (GO:0018676)|caffeine oxidase activity (GO:0034875)|drug binding (GO:0008144)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity (GO:0016491)|steroid hydroxylase activity (GO:0008395)			breast(2)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(8)|lung(9)|ovary(2)|prostate(1)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	34		Colorectal(252;0.0902)		all cancers(201;6.93e-05)	Acenocoumarol(DB01418)|Acetaminophen(DB00316)|Acetylsalicylic acid(DB00945)|Agomelatine(DB06594)|Alosetron(DB00969)|Alprazolam(DB00404)|Aminophenazone(DB01424)|Amiodarone(DB01118)|Amitriptyline(DB00321)|Amlodipine(DB00381)|Amodiaquine(DB00613)|Amprenavir(DB00701)|Anastrozole(DB01217)|Antipyrine(DB01435)|Apixaban(DB06605)|Aprepitant(DB00673)|Arformoterol(DB01274)|Artemether(DB06697)|Atazanavir(DB01072)|Atorvastatin(DB01076)|Atovaquone(DB01117)|Azelastine(DB00972)|Bexarotene(DB00307)|Bicalutamide(DB01128)|Bortezomib(DB00188)|Bosentan(DB00559)|Brompheniramine(DB00835)|Buprenorphine(DB00921)|Bupropion(DB01156)|Cabozantinib(DB08875)|Caffeine(DB00201)|Candesartan(DB00796)|Capecitabine(DB01101)|Carbamazepine(DB00564)|Carbinoxamine(DB00748)|Carvedilol(DB01136)|Celecoxib(DB00482)|Chloramphenicol(DB00446)|Chlorpropamide(DB00672)|Cholecalciferol(DB00169)|Cimetidine(DB00501)|Cinnarizine(DB00568)|Cisapride(DB00604)|Cisplatin(DB00515)|Clevidipine(DB04920)|Clopidogrel(DB00758)|Clotrimazole(DB00257)|Clozapine(DB00363)|Cocaine(DB00907)|Colchicine(DB01394)|Cyclizine(DB01176)|Cyclophosphamide(DB00531)|Cyclosporine(DB00091)|Dapagliflozin(DB06292)|Dapsone(DB00250)|Delavirdine(DB00705)|Desloratadine(DB00967)|Dexamethasone(DB01234)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Dextropropoxyphene(DB00647)|Diazepam(DB00829)|Diclofenac(DB00586)|Diclofenamide(DB01144)|Dicoumarol(DB00266)|Diethylstilbestrol(DB00255)|Diltiazem(DB00343)|Diphenhydramine(DB01075)|Disulfiram(DB00822)|Dolasetron(DB00757)|Donepezil(DB00843)|Dopamine(DB00988)|Dorzolamide(DB00869)|Doxepin(DB01142)|Dronabinol(DB00470)|Efavirenz(DB00625)|Eletriptan(DB00216)|Enzalutamide(DB08899)|Epinephrine(DB00668)|Epoprostenol(DB01240)|Eprosartan(DB00876)|Estradiol(DB00783)|Estrone(DB00655)|Estropipate(DB04574)|Eszopiclone(DB00402)|Ethanol(DB00898)|Etodolac(DB00749)|Etoricoxib(DB01628)|Etravirine(DB06414)|Felodipine(DB01023)|Fenofibrate(DB01039)|Flecainide(DB01195)|Fluconazole(DB00196)|Flunarizine(DB04841)|Flunitrazepam(DB01544)|Fluorouracil(DB00544)|Fluoxetine(DB00472)|Flurbiprofen(DB00712)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Gefitinib(DB00317)|Gemfibrozil(DB01241)|Ginkgo biloba(DB01381)|Gliclazide(DB01120)|Glimepiride(DB00222)|Glipizide(DB01067)|Glyburide(DB01016)|Guanfacine(DB01018)|Haloperidol(DB00502)|Halothane(DB01159)|Hexobarbital(DB01355)|Histamine Phosphate(DB00667)|Human Serum Albumin(DB00062)|Hydromorphone(DB00327)|Ibuprofen(DB01050)|Idarubicin(DB01177)|Ifosfamide(DB01181)|Imatinib(DB00619)|Indinavir(DB00224)|Indomethacin(DB00328)|Irbesartan(DB01029)|Isoniazid(DB00951)|Ketamine(DB01221)|Ketobemidone(DB06738)|Ketoconazole(DB01026)|Ketoprofen(DB01009)|Lansoprazole(DB00448)|Leflunomide(DB01097)|Lidocaine(DB00281)|Lopinavir(DB01601)|Loratadine(DB00455)|Lornoxicam(DB06725)|Losartan(DB00678)|Lovastatin(DB00227)|Lumiracoxib(DB01283)|Medroxyprogesterone Acetate(DB00603)|Mefenamic acid(DB00784)|Melatonin(DB01065)|Meloxicam(DB00814)|Mestranol(DB01357)|Methadone(DB00333)|Methazolamide(DB00703)|Methimazole(DB00763)|Methoxyflurane(DB01028)|Metronidazole(DB00916)|Miconazole(DB01110)|Mirtazapine(DB00370)|Moclobemide(DB01171)|Modafinil(DB00745)|Montelukast(DB00471)|Naproxen(DB00788)|Nateglinide(DB00731)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicardipine(DB00622)|Niclosamide(DB06803)|Nicotine(DB00184)|Nifedipine(DB01115)|Nilotinib(DB04868)|Nilutamide(DB00665)|Nilvadipine(DB06712)|Nortriptyline(DB00540)|Olanzapine(DB00334)|Omeprazole(DB00338)|Ondansetron(DB00904)|Ospemifene(DB04938)|Oxaprozin(DB00991)|Paclitaxel(DB01229)|Pantoprazole(DB00213)|Paramethadione(DB00617)|Paroxetine(DB00715)|Perphenazine(DB00850)|Phenobarbital(DB01174)|Phenprocoumon(DB00946)|Phentermine(DB00191)|Phenylbutazone(DB00812)|Phenytoin(DB00252)|Pioglitazone(DB01132)|Piroxicam(DB00554)|Pitavastatin(DB08860)|Pranlukast(DB01411)|Prasugrel(DB06209)|Pravastatin(DB00175)|Primidone(DB00794)|Probenecid(DB01032)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Promethazine(DB01069)|Propafenone(DB01182)|Propofol(DB00818)|Pyrimethamine(DB00205)|Quazepam(DB01589)|Quinidine(DB00908)|Quinine(DB00468)|Rabeprazole(DB01129)|Regorafenib(DB08896)|Rifampicin(DB01045)|Rifapentine(DB01201)|Ritonavir(DB00503)|Rosiglitazone(DB00412)|Rosuvastatin(DB01098)|Salicylic acid(DB00936)|Saquinavir(DB01232)|Secobarbital(DB00418)|Selegiline(DB01037)|Sertraline(DB01104)|Sildenafil(DB00203)|Simvastatin(DB00641)|Sitaxentan(DB06268)|Sorafenib(DB00398)|Sulfadiazine(DB00359)|Sulfadimethoxine(DB06150)|Sulfamethizole(DB00576)|Sulfamethoxazole(DB01015)|Sulfamoxole(DB08798)|Sulfanilamide(DB00259)|Sulfaphenazole(DB06729)|Sulfapyridine(DB00891)|Sulfinpyrazone(DB01138)|Sulfisoxazole(DB00263)|Suprofen(DB00870)|Tamoxifen(DB00675)|Tapentadol(DB06204)|Temazepam(DB00231)|Teniposide(DB00444)|Tenoxicam(DB00469)|Terbinafine(DB00857)|Testosterone(DB00624)|Thalidomide(DB01041)|Theophylline(DB00277)|Thiamylal(DB01154)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tioconazole(DB01007)|Tolbutamide(DB01124)|Tolcapone(DB00323)|Tolterodine(DB01036)|Torasemide(DB00214)|Trabectedin(DB05109)|Tranylcypromine(DB00752)|Treprostinil(DB00374)|Tretinoin(DB00755)|Triazolam(DB00897)|Trimethadione(DB00347)|Trimethoprim(DB00440)|Trimipramine(DB00726)|Troleandomycin(DB01361)|Valproic Acid(DB00313)|Valsartan(DB00177)|Venlafaxine(DB00285)|Verapamil(DB00661)|Vismodegib(DB08828)|Voriconazole(DB00582)|Warfarin(DB00682)|Ximelagatran(DB04898)|Zafirlukast(DB00549)|Zalcitabine(DB00943)|Zidovudine(DB00495)|Zileuton(DB00744)|Zolpidem(DB00425)|Zopiclone(DB01198)	GCCCTTCTACCAGCTGTGCTT	0.498																																					Ovarian(54;1266 1406 16072 35076)											0													142	132	136					10																	96748762		2203	4300	6503	SO:0001587	stop_gained	1559			M61855	CCDS7437.1	10q24.1	2007-12-14	2003-01-14		ENSG00000138109	ENSG00000138109		"Cytochrome P450s"	2623	protein-coding gene	gene with protein product		601130	"cytochrome P450, subfamily IIC (mephenytoin 4-hydroxylase), polypeptide 9"	CYP2C10		2009263, 7841444	Standard	NM_000771		Approved	P450IIC9	uc001kka.4	P11712	OTTHUMG00000018805	ENST00000260682.6:c.1450C>T	10.37:g.96748762C>T	ENSP00000260682:p.Gln484*	Somatic		WXS	Illumina HiSeq	Phase_I	P11713|Q16756|Q16872|Q5VX92|Q6IRV8|Q8WW80	Nonsense_Mutation	SNP	ENST00000260682.6	37	CCDS7437.1	.	.	.	.	.	.	.	.	.	.	C	9.226	1.034558	0.19590	.	.	ENSG00000138109	ENST00000260682	.	.	.	3.42	-6.84	0.01687	.	0.591503	0.15177	U	0.276321	.	.	.	.	.	.	0.37381	D	0.912041	.	.	.	.	.	.	.	.	.	.	0.11182	T	0.66	.	3.6305	0.08130	0.4706:0.2525:0.1957:0.0813	.	.	.	.	X	484	.	ENSP00000260682:Q484X	Q	+	1	0	CYP2C9	96738752	0.000000	0.05858	0.000000	0.03702	0.023000	0.10783	-1.646000	0.01998	-2.310000	0.00650	0.453000	0.30009	CAG		0.498	CYP2C9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049501.1	NM_000771		T	96748762	C	T	96748762	4	4	663	1	0	0	0	0	0	1	0	0	4170	595	21	2	1484	2	CYP2C9	10	96748762	Nonsense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	24842612	96748762	38785985	77	41259										
UBTD1	80019	hgsc.bcm.edu	37	chr10	99329915	99329915	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gcaccctctgtgaatgctacGatgagctgggcaatcgctac	11	12	1	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr10:99329915G>A	ENST00000370664.3	+	3	655	c.319G>A	c.(319-321)Gat>Aat	p.D107N	ANKRD2_ENST00000455090.1_5'Flank|ANKRD2_ENST00000370655.1_5'Flank|ANKRD2_ENST00000298808.5_5'Flank|ANKRD2_ENST00000307518.5_5'Flank	NM_024954.3	NP_079230.1	Q9HAC8	UBTD1_HUMAN	ubiquitin domain containing 1	107										central_nervous_system(1)|endometrium(2)|large_intestine(2)|lung(1)|skin(1)	7		Colorectal(252;0.162)		Epithelial(162;3.04e-10)|all cancers(201;2.86e-08)		TGAATGCTACGATGAGCTGGG	0.582																																					Pancreas(100;169 2668 32720)											0													91	103	99					10																	99329915		2203	4300	6503	SO:0001583	missense	80019			BC007331	CCDS7465.1	10q24.2	2005-09-22			ENSG00000165886	ENSG00000165886			25683	protein-coding gene	gene with protein product						12477932	Standard	NM_024954		Approved	FLJ11807	uc001knv.1	Q9HAC8	OTTHUMG00000018856	ENST00000370664.3:c.319G>A	10.37:g.99329915G>A	ENSP00000359698:p.Asp107Asn	Somatic		WXS	Illumina HiSeq	Phase_I	D3DR57|Q53HI3	Missense_Mutation	SNP	ENST00000370664.3	37	CCDS7465.1	.	.	.	.	.	.	.	.	.	.	G	32	5.174620	0.94807	.	.	ENSG00000165886	ENST00000370664	T	0.80738	-1.41	4.94	4.94	0.65067	.	0.000000	0.85682	D	0.000000	D	0.91751	0.7391	M	0.90814	3.15	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.93167	0.6563	10	0.87932	D	0	-20.3796	18.6768	0.91531	0.0:0.0:1.0:0.0	.	107	Q9HAC8	UBTD1_HUMAN	N	107	ENSP00000359698:D107N	ENSP00000359698:D107N	D	+	1	0	UBTD1	99319905	1.000000	0.71417	0.968000	0.41197	0.946000	0.59487	9.813000	0.99286	2.687000	0.91594	0.655000	0.94253	GAT		0.582	UBTD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049701.1	NM_024954		A	99329915	G	A	99329915	3	1	663	1	0	0	0	0	1	0	0	0	16919	1058	37	1	329	1	UBTD1	10	99329915	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	2581153	99329915	36204832	78	41260										
DCLRE1A	9937	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr10	115609249	115609249	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	attatacttaagaccagaagGcaatattttcaaatacttcg	5	7	1	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr10:115609249G>A	ENST00000361384.2	-	2	2532	c.1615C>T	c.(1615-1617)Cct>Tct	p.P539S	DCLRE1A_ENST00000369305.1_Missense_Mutation_p.P539S	NM_014881.3	NP_055696.3	Q6PJP8	DCR1A_HUMAN	DNA cross-link repair 1A	539	Nuclear focus formation.				mitotic nuclear division (GO:0007067)|nucleotide-excision repair (GO:0006289)	nucleus (GO:0005634)				breast(2)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(2)|large_intestine(10)|lung(8)|prostate(1)|skin(2)|urinary_tract(1)	31				Epithelial(162;0.0157)|all cancers(201;0.0171)		AGACCAGAAGGCAATATTTTC	0.383								Other identified genes with known or suspected DNA repair function																																								0													125	127	126					10																	115609249		2203	4300	6503	SO:0001583	missense	9937				CCDS7584.1	10q25.1	2010-06-24	2010-06-24		ENSG00000198924	ENSG00000198924			17660	protein-coding gene	gene with protein product	"PSO2 homolog (S. cerevisiae)"	609682	"DNA cross-link repair 1A (PSO2 homolog, S. cerevisiae)"			9806498, 17804464	Standard	NM_014881		Approved	SNM1, PSO2, KIAA0086, hSNM1	uc031pxf.1	Q6PJP8	OTTHUMG00000019077	ENST00000361384.2:c.1615C>T	10.37:g.115609249G>A	ENSP00000355185:p.Pro539Ser	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRC1|Q14701|Q6P5Y3|Q6PKL4	Missense_Mutation	SNP	ENST00000361384.2	37	CCDS7584.1	.	.	.	.	.	.	.	.	.	.	G	10.16	1.275052	0.23307	.	.	ENSG00000198924	ENST00000361384;ENST00000369305	T;T	0.64991	-0.13;-0.13	5.18	2.31	0.28768	.	0.913298	0.09546	N	0.787542	T	0.53367	0.1792	L	0.56769	1.78	0.09310	N	1	B	0.24721	0.11	B	0.17979	0.02	T	0.41752	-0.9491	10	0.33141	T	0.24	-0.4037	5.248	0.15508	0.2294:0.0:0.6271:0.1435	.	539	Q6PJP8	DCR1A_HUMAN	S	539	ENSP00000355185:P539S;ENSP00000358311:P539S	ENSP00000355185:P539S	P	-	1	0	DCLRE1A	115599239	0.014000	0.17966	0.007000	0.13788	0.322000	0.28314	0.058000	0.14301	0.339000	0.23719	-0.302000	0.09304	CCT		0.383	DCLRE1A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050444.1	NM_014881		A	115609249	G	A	115609249	3	1	663	1	0	0	0	0	1	0	0	0	4296	1203	42	2	1539	2	DCLRE1A	10	115609249	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	16279334	115609249	19925498	79	41261										
MUC6	4588	mdanderson.org	37	chr11	1018262	1018262	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ttgtttgtgctgaatgagctGtgggcttggctggtcccact	14	8	0	2	rs78003962		TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr11:1018262G>T	ENST00000421673.2	-	31	4589	c.4539C>A	c.(4537-4539)caC>caA	p.H1513Q		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1513	Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		TGAATGAGCTGTGGGCTTGGC	0.542																																																0													227	240	236					11																	1018262		2167	4262	6429	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4539C>A	11.37:g.1018262G>T	ENSP00000406861:p.His1513Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	C	0.004	-2.293037	0.00245	.	.	ENSG00000184956	ENST00000421673	T	0.16196	2.36	2.56	-5.11	0.02901	.	.	.	.	.	T	0.08758	0.0217	L	0.37630	1.12	0.09310	N	1	B	0.17667	0.023	B	0.13407	0.009	T	0.38779	-0.9645	9	0.13108	T	0.6	.	2.1779	0.03866	0.2718:0.3724:0.2397:0.116	.	1513	Q6W4X9	MUC6_HUMAN	Q	1513	ENSP00000406861:H1513Q	ENSP00000406861:H1513Q	H	-	3	2	MUC6	1008262	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-2.824000	0.00747	-2.466000	0.00533	-4.769000	0.00003	CAC		0.542	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		T	1018262	G	T	1018262	3	4	663	1	0	0	0	0	1	0	0	0	9987	1368	48	4	2792	4	MUC6	11	1018262	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10		1018262	133988254	80	41262										
MUC5B	727897	broad.mit.edu	37	chr11	1271712	1271713	+	Frame_Shift_Ins	INS	-	-	C													0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cctccctgggcaccacctggINSacccgcctatcacagaccac							TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr11:1271712_1271713insC	ENST00000529681.1	+	31	13660_13661	c.13602_13603insC	c.(13603-13605)accfs	p.T4535fs	MUC5B_ENST00000447027.1_Frame_Shift_Ins_p.T4538fs|RP11-532E4.2_ENST00000532061.2_RNA	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	4535	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		GCACCACCTGGACCCGCCTATC	0.624																																																0																																										SO:0001589	frameshift_variant	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		Exception_encountered	11.37:g.1271712_1271713insC	ENSP00000436812:p.Thr4535fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Frame_Shift_Ins	INS	ENST00000529681.1	37	CCDS44515.2																																																																																				0.624	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		C	1271713	-	C	1271712	7	5	663	1	0	1	1	0	0	0	0	0	9986	1183	41	0	13733	0	MUC5B	11	1271712	Frame_Shift_Ins	INS	-	TCGA-KN-8427-01A-11D-2310-10	253450	1271712	133734804	81	41263										
BRSK2	9024	broad.mit.edu;hgsc.bcm.edu	37	chr11	1466625	1466625	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cgaccccgacgtgctggacaGcatgcactcactgggctgct	12	15	1	0	rs200112243		TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr11:1466625G>A	ENST00000528841.1	+	10	1298	c.914G>A	c.(913-915)aGc>aAc	p.S305N	BRSK2_ENST00000528710.1_Missense_Mutation_p.S245N|BRSK2_ENST00000382179.1_Missense_Mutation_p.S351N|BRSK2_ENST00000526678.1_Missense_Mutation_p.S305N|BRSK2_ENST00000308219.9_Missense_Mutation_p.S305N|BRSK2_ENST00000308230.5_Missense_Mutation_p.S305N|BRSK2_ENST00000531197.1_Missense_Mutation_p.S305N|BRSK2_ENST00000544817.1_5'UTR			Q8IWQ3	BRSK2_HUMAN	BR serine/threonine kinase 2	305	UBA.				actin cytoskeleton reorganization (GO:0031532)|axonogenesis (GO:0007409)|establishment of cell polarity (GO:0030010)|exocytosis (GO:0006887)|G2/M transition of mitotic cell cycle (GO:0000086)|intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress (GO:0070059)|mitotic nuclear division (GO:0007067)|neuron differentiation (GO:0030182)|peptidyl-serine phosphorylation (GO:0018105)|protein phosphorylation (GO:0006468)|regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0061178)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|protein serine/threonine kinase activity (GO:0004674)|tau-protein kinase activity (GO:0050321)			endometrium(4)|large_intestine(1)|lung(5)	10		all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00144)|Lung(200;0.0713)|LUSC - Lung squamous cell carcinoma(625;0.0842)		GTGCTGGACAGCATGCACTCA	0.672																																																0													33	41	39					11																	1466625		2133	4244	6377	SO:0001583	missense	9024			AF020089	CCDS41590.1, CCDS58106.1, CCDS58107.1, CCDS58108.1, CCDS60696.1	11p15.5	2008-02-05	2003-09-11	2005-01-27	ENSG00000174672	ENSG00000174672			11405	protein-coding gene	gene with protein product	"serine/threonine kinase 29"	609236	"chromsosome 11 open reading frame 7"	C11orf7, STK29		9852686, 9929968	Standard	NM_001256629		Approved	PEN11B	uc001ltm.4	Q8IWQ3	OTTHUMG00000167089	ENST00000528841.1:c.914G>A	11.37:g.1466625G>A	ENSP00000432000:p.Ser305Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVE9|E9PLM7|O60843|O95099|Q5J5B4|Q6ZMQ4|Q8TB60	Missense_Mutation	SNP	ENST00000528841.1	37	CCDS58107.1	.	.	.	.	.	.	.	.	.	.	G	19.04	3.749752	0.69533	.	.	ENSG00000174672	ENST00000308219;ENST00000531197;ENST00000308230;ENST00000528841;ENST00000526678;ENST00000528710;ENST00000382179	T;T;T;T;T;T;T	0.72505	-0.66;-0.66;-0.63;-0.66;-0.63;-0.47;-0.49	3.55	3.55	0.40652	Protein kinase-like domain (1);	0.000000	0.85682	U	0.000000	D	0.82779	0.5111	M	0.78637	2.42	0.80722	D	1	D;D;D;D;D	0.89917	1.0;0.996;0.999;0.998;0.997	D;D;D;D;D	0.91635	0.999;0.986;0.999;0.954;0.962	T	0.82589	-0.0382	10	0.31617	T	0.26	.	15.6596	0.77174	0.0:0.0:1.0:0.0	.	305;351;305;305;305	Q8IWQ3-4;Q8IWQ3-5;Q8IWQ3-3;Q8IWQ3;Q8IWQ3-2	.;.;.;BRSK2_HUMAN;.	N	305;305;305;305;305;245;351	ENSP00000310697:S305N;ENSP00000431152:S305N;ENSP00000310805:S305N;ENSP00000432000:S305N;ENSP00000433370:S305N;ENSP00000433235:S245N;ENSP00000371614:S351N	ENSP00000310697:S305N	S	+	2	0	BRSK2	1423201	1.000000	0.71417	1.000000	0.80357	0.925000	0.55904	7.367000	0.79558	1.993000	0.58246	0.462000	0.41574	AGC		0.672	BRSK2-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000393033.1	NM_003957		A	1466625	G	A	1466625	3	1	663	1	0	0	0	0	1	0	0	0	1526	971	34	2	952	2	BRSK2	11	1466625	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	194913	1466625	133539891	82	41264										
MS4A5	64232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	60198312	60198312	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tatgaccttttcttttggagTtatcttccttttcaccttgt	5	9	3	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr11:60198312T>G	ENST00000300190.2	+	2	283	c.197T>G	c.(196-198)gTt>gGt	p.V66G	MS4A5_ENST00000534071.1_Intron	NM_023945.2	NP_076434.2	Q9H3V2	MS4A5_HUMAN	membrane-spanning 4-domains, subfamily A, member 5	66						integral component of membrane (GO:0016021)				large_intestine(7)|lung(7)|ovary(1)|skin(1)	16						TCTTTTGGAGTTATCTTCCTT	0.373																																																0													241	236	238					11																	60198312		2203	4300	6503	SO:0001583	missense	64232			AB013103	CCDS7987.1	11q12	2008-03-25			ENSG00000166930	ENSG00000166930			13374	protein-coding gene	gene with protein product		606499				11245982, 11401424	Standard	NM_023945		Approved	CD20L2	uc001npo.3	Q9H3V2	OTTHUMG00000167613	ENST00000300190.2:c.197T>G	11.37:g.60198312T>G	ENSP00000300190:p.Val66Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BZH1	Missense_Mutation	SNP	ENST00000300190.2	37	CCDS7987.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	4.573|4.573	0.106380|0.106380	0.08780|0.08780	.|.	.|.	ENSG00000166930|ENSG00000166930	ENST00000528905|ENST00000300190	.|T	.|0.02280	.|4.36	4.82|4.82	2.48|2.48	0.30137|0.30137	.|.	.|0.667620	.|0.14473	.|N	.|0.317428	T|T	0.02727|0.02727	0.0082|0.0082	L|L	0.46885|0.46885	1.475|1.475	0.09310|0.09310	N|N	0.999997|0.999997	.|B	.|0.20887	.|0.049	.|B	.|0.29716	.|0.106	T|T	0.43130|0.43130	-0.9410|-0.9410	5|10	.|0.29301	.|T	.|0.29	-0.5522|-0.5522	5.1697|5.1697	0.15103|0.15103	0.0:0.2396:0.0:0.7604|0.0:0.2396:0.0:0.7604	.|.	.|66	.|Q9H3V2	.|MS4A5_HUMAN	R|G	39|66	.|ENSP00000300190:V66G	.|ENSP00000300190:V66G	S|V	+|+	3|2	2|0	MS4A5|MS4A5	59954888|59954888	0.026000|0.026000	0.19158|0.19158	0.001000|0.001000	0.08648|0.08648	0.006000|0.006000	0.05464|0.05464	1.186000|1.186000	0.32078|0.32078	0.882000|0.882000	0.36016|0.36016	0.533000|0.533000	0.62120|0.62120	AGT|GTT		0.373	MS4A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395392.1			G	60198312	T	G	60198312	3	3	663	1	0	0	0	0	1	0	0	0	9870	1725	60	5	203	5	MS4A5	11	60198312	Missense_Mutation	SNP	T	TCGA-KN-8427-01A-11D-2310-10	58731687	60198312	74808204	83	41265										
MACROD1	28992	mdanderson.org	37	chr11	63767186	63767186	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ctgcggagctcggcagcctgActggcgctgggctccccgta	15	15	0	1	rs709594	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr11:63767186A>G	ENST00000255681.6	-	6	780	c.714T>C	c.(712-714)agT>agC	p.S238S	OTUB1_ENST00000535715.1_Intron	NM_014067.3	NP_054786.2	Q9BQ69	MACD1_HUMAN	MACRO domain containing 1	238	Macro. {ECO:0000255|PROSITE- ProRule:PRU00490}.				cellular response to DNA damage stimulus (GO:0006974)|protein de-ADP-ribosylation (GO:0051725)|purine nucleoside metabolic process (GO:0042278)	mitochondrion (GO:0005739)|nucleus (GO:0005634)	deacetylase activity (GO:0019213)|hydrolase activity, acting on glycosyl bonds (GO:0016798)			breast(1)|large_intestine(3)|lung(6)|skin(1)	11						CGGCAGCCTGACTGGCGCTGG	0.726													G|||	2143	0.427915	0.736	0.2493	5008	,	,		10778	0.1379		0.4463	False		,,,				2504	0.4182															0								G		2959,1321		1069,821,250	10	13	12		714	3.8	1	11	dbSNP_86	12	3770,4672		906,1958,1357	no	coding-synonymous	MACROD1	NM_014067.3		1975,2779,1607	GG,GA,AA		44.6577,30.8645,47.1074		238/326	63767186	6729,5993	2140	4221	6361	SO:0001819	synonymous_variant	28992			AF202922	CCDS8056.1	11q13.1	2007-07-24	2007-06-11		ENSG00000133315	ENSG00000133315			29598	protein-coding gene	gene with protein product		610400				15691879	Standard	NM_014067		Approved	LRP16	uc001nyh.3	Q9BQ69	OTTHUMG00000167843	ENST00000255681.6:c.714T>C	11.37:g.63767186A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UH96	Silent	SNP	ENST00000255681.6	37	CCDS8056.1																																																																																				0.726	MACROD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396570.1	NM_014067		G	63767186	A	G	63767186	2	3	663	1	0	0	0	0	0	0	0	1	9152	272	10	3		3	MACROD1	11	63767186	Silent	SNP	A	TCGA-KN-8427-01A-11D-2310-10	3568874	63767186	71239330	84	41266										
GAL3ST3	89792	hgsc.bcm.edu;mdanderson.org	37	chr11	65811123	65811124	+	Missense_Mutation	DNP	AG	AG	CT													0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cgagttccgcagaggagggcAgctcaaggggaacagcttgg							TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr11:65811123_65811124AG>CT	ENST00000312006.4	-	3	431_432	c.150_151CT>AG	c.(148-153)agCTgc>agAGgc	p.50_51SC>RG	GAL3ST3_ENST00000527878.1_Missense_Mutation_p.50_51SC>RG	NM_033036.2	NP_149025.1	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	50					monosaccharide metabolic process (GO:0005996)|oligosaccharide metabolic process (GO:0009311)|poly-N-acetyllactosamine metabolic process (GO:0030309)|proteoglycan biosynthetic process (GO:0030166)|sulfur compound metabolic process (GO:0006790)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	3'-phosphoadenosine 5'-phosphosulfate binding (GO:0050656)|carbohydrate binding (GO:0030246)|galactose 3-O-sulfotransferase activity (GO:0050694)|galactosylceramide sulfotransferase activity (GO:0001733)|proteoglycan sulfotransferase activity (GO:0050698)			kidney(1)|lung(9)|ovary(2)|skin(2)	14						AGAGGAGGGCAGCTCAAGGGGA	0.644																																																0																																										SO:0001583	missense	89792			AY026481	CCDS8128.1	11q13.1	2014-08-12			ENSG00000175229	ENSG00000175229		"Sulfotransferases, membrane-bound"	24144	protein-coding gene	gene with protein product		608234				11323440, 11356829	Standard	NM_033036		Approved	GAL3ST2	uc001ogw.3	Q96A11	OTTHUMG00000166667	ENST00000312006.4:c.150_151delinsCT	11.37:g.65811123_65811124delinsCT	ENSP00000308591:p.S50_C51delinsRG	Somatic		WXS	Illumina HiSeq	Phase_I	Q14D05	Missense_Mutation	DNP	ENST00000312006.4	37	CCDS8128.1																																																																																				0.644	GAL3ST3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391052.1	NM_033036		CT	65811124	AG	CT	65811123	3	2	663	1	0	0	0	0	1	0	0	0	6206	188	7	5	1148	5	GAL3ST3	11	65811123	Missense_Mutation	DNP	AG	TCGA-KN-8427-01A-11D-2310-10	2043937	65811123	69195393	85	41267	391	2								
GAL3ST3	89792	broad.mit.edu;bcgsc.ca	37	chr11	65811124	65811124	+	Missense_Mutation	SNP	G	G	T													0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gagttccgcagaggagggcaGctcaaggggaacagcttggg							TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr11:65811124G>T	ENST00000312006.4	-	3	431	c.150C>A	c.(148-150)agC>agA	p.S50R	GAL3ST3_ENST00000527878.1_Missense_Mutation_p.S50R	NM_033036.2	NP_149025.1	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	50					monosaccharide metabolic process (GO:0005996)|oligosaccharide metabolic process (GO:0009311)|poly-N-acetyllactosamine metabolic process (GO:0030309)|proteoglycan biosynthetic process (GO:0030166)|sulfur compound metabolic process (GO:0006790)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	3'-phosphoadenosine 5'-phosphosulfate binding (GO:0050656)|carbohydrate binding (GO:0030246)|galactose 3-O-sulfotransferase activity (GO:0050694)|galactosylceramide sulfotransferase activity (GO:0001733)|proteoglycan sulfotransferase activity (GO:0050698)			kidney(1)|lung(9)|ovary(2)|skin(2)	14						GAGGAGGGCAGCTCAAGGGGA	0.647																																																0													19	16	17					11																	65811124		2171	4254	6425	SO:0001583	missense	89792			AY026481	CCDS8128.1	11q13.1	2014-08-12			ENSG00000175229	ENSG00000175229		"Sulfotransferases, membrane-bound"	24144	protein-coding gene	gene with protein product		608234				11323440, 11356829	Standard	NM_033036		Approved	GAL3ST2	uc001ogw.3	Q96A11	OTTHUMG00000166667	ENST00000312006.4:c.150C>A	11.37:g.65811124G>T	ENSP00000308591:p.Ser50Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q14D05	Missense_Mutation	SNP	ENST00000312006.4	37	CCDS8128.1	.	.	.	.	.	.	.	.	.	.	G	9.315	1.056628	0.19907	.	.	ENSG00000175229	ENST00000312006;ENST00000527878	T;T	0.16457	2.34;2.34	4.11	3.19	0.36642	.	0.458205	0.21075	N	0.080594	T	0.10121	0.0248	N	0.14661	0.345	0.32681	N	0.515536	B	0.33413	0.411	B	0.37198	0.243	T	0.13872	-1.0493	10	0.21540	T	0.41	-32.6987	9.5646	0.39391	0.1062:0.0:0.8938:0.0	.	50	Q96A11	G3ST3_HUMAN	R	50	ENSP00000308591:S50R;ENSP00000434829:S50R	ENSP00000308591:S50R	S	-	3	2	GAL3ST3	65567700	1.000000	0.71417	1.000000	0.80357	0.775000	0.43874	3.565000	0.53798	2.295000	0.77249	0.462000	0.41574	AGC		0.647	GAL3ST3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391052.1	NM_033036		T	65811124	G	T	65811124	3	4	663	1	0	0	0	0	1	0	0	0	6206	962	34	4	1149	4	GAL3ST3	11	65811124	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	1	65811124	69195392	86	41268	391	2								
MMP12	4321	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr11	102737125	102737125	+	RNA	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ggcaaggttggccataaggaAgaaattaaattaacactggt	11	5	0	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr11:102737125A>C	ENST00000532855.1	-	0	1061							P39900	MMP12_HUMAN	matrix metallopeptidase 12 (macrophage elastase)						collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|positive regulation of epithelial cell proliferation involved in wound healing (GO:0060054)|proteolysis (GO:0006508)|wound healing, spreading of epidermal cells (GO:0035313)	extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|endopeptidase activity (GO:0004175)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(4)|lung(9)|prostate(5)|skin(1)|upper_aerodigestive_tract(1)	26		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.014)	Acetohydroxamic Acid(DB00551)|Marimastat(DB00786)	GCCATAAGGAAGAAATTAAAT	0.353																																																0													72	75	74					11																	102737125		1822	4080	5902			4321			L23808	CCDS73375.1	11q22.3	2009-02-26	2005-08-08			ENSG00000262406			7158	protein-coding gene	gene with protein product		601046	"matrix metalloproteinase 12 (macrophage elastase)"				Standard	NM_002426		Approved	HME	uc001phk.3	P39900			11.37:g.102737125A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9X8|B7ZLF6|Q2M1L9	Silent	SNP	ENST00000532855.1	37																																																																																					0.353	MMP12-001	KNOWN	basic	processed_transcript	processed_transcript	OTTHUMT00000386646.1	NM_002426		C	102737125	A	C	102737125	1	2	663	0	1	0	0	0	0	0	0	0	9658	59	3	5		5	MMP12	11	102737125	RNA	SNP	A	TCGA-KN-8427-01A-11D-2310-10	36926001	102737125	32269391	87	41269										
GRIA4	2893	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	105776029	105776029	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	aagcacaggacctagaaaggTgagccacgatcaaactgaaa	10	9	1	3			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr11:105776029T>G	ENST00000530497.1	+	8	1158		c.e8+2		GRIA4_ENST00000393127.2_Splice_Site|GRIA4_ENST00000393125.2_Splice_Site|GRIA4_ENST00000525187.1_Splice_Site|GRIA4_ENST00000428631.2_Splice_Site|GRIA4_ENST00000282499.5_Splice_Site			P48058	GRIA4_HUMAN	glutamate receptor, ionotropic, AMPA 4						glutamate receptor signaling pathway (GO:0007215)|ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transport (GO:0006810)	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex (GO:0032281)|cell junction (GO:0030054)|dendrite (GO:0030425)|endocytic vesicle membrane (GO:0030666)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|vesicle (GO:0031982)	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:0004971)|extracellular-glutamate-gated ion channel activity (GO:0005234)|ionotropic glutamate receptor activity (GO:0004970)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(24)|liver(2)|lung(25)|ovary(4)|pancreas(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(6)	82		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)		CCTAGAAAGGTGAGCCACGAT	0.383																																																0													105	96	99					11																	105776029		2202	4299	6501	SO:0001630	splice_region_variant	2893			U16129	CCDS8333.1, CCDS41706.1, CCDS41707.1	11q22	2012-08-29	2012-02-03		ENSG00000152578	ENSG00000152578		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4574	protein-coding gene	gene with protein product		138246	"glutamate receptor, ionotrophic, AMPA 4"	GLUR4			Standard	NM_001077244		Approved	GluA4, GLURD	uc001pix.2	P48058	OTTHUMG00000166236	ENST00000530497.1:c.1158+2T>G	11.37:g.105776029T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q86XE8	Splice_Site	SNP	ENST00000530497.1	37	CCDS8333.1	.	.	.	.	.	.	.	.	.	.	t	25.8	4.678395	0.88542	.	.	ENSG00000152578	ENST00000393125;ENST00000282499;ENST00000393127;ENST00000428631;ENST00000530497;ENST00000525187	.	.	.	5.77	5.77	0.91146	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.3825	0.83473	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	GRIA4	105281239	1.000000	0.71417	1.000000	0.80357	0.903000	0.53119	7.624000	0.83124	2.323000	0.78572	0.529000	0.55759	.		0.383	GRIA4-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000388593.1		Intron	G	105776029	T	G	105776029	5	3	663	1	0	0	0	0	0	0	1	0	6777	1710	59	5	1190	5	GRIA4	11	105776029	Splice_Site	SNP	T	TCGA-KN-8427-01A-11D-2310-10	3038904	105776029	29230487	88	41270										
NTM	50863	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	132081945	132081945	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	aaattgtagagatttcttcaGatatctccattaatgaaggg	8	5	3	3			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr11:132081945G>T	ENST00000374786.1	+	3	909	c.430G>T	c.(430-432)Gat>Tat	p.D144Y	NTM_ENST00000427481.2_Missense_Mutation_p.D135Y|NTM_ENST00000374791.3_Missense_Mutation_p.D144Y|NTM_ENST00000425719.2_Missense_Mutation_p.D144Y|NTM_ENST00000374784.1_Missense_Mutation_p.D144Y|NTM_ENST00000539799.1_Missense_Mutation_p.D144Y|NTM_ENST00000474900.1_3'UTR	NM_001144058.1|NM_016522.2	NP_001137530.1|NP_057606.1	Q9P121	NTRI_HUMAN	neurotrimin	144	Ig-like C2-type 2.				cell adhesion (GO:0007155)|neuron recognition (GO:0008038)	anchored component of membrane (GO:0031225)|plasma membrane (GO:0005886)				breast(2)|central_nervous_system(1)|endometrium(4)|large_intestine(9)|lung(30)|ovary(4)|pancreas(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	56						GATTTCTTCAGATATCTCCAT	0.383																																																0													86	85	85					11																	132081945		2201	4297	6498	SO:0001583	missense	50863			AF126426	CCDS8491.1, CCDS41733.1, CCDS44777.1, CCDS44778.1	11q25	2013-01-11			ENSG00000182667	ENSG00000182667		"Immunoglobulin superfamily / I-set domain containing"	17941	protein-coding gene	gene with protein product	"neurotrimin", "IgLON family member 2"	607938				7891157	Standard	NM_001048209		Approved	HNT, NTRI, IGLON2	uc001qgq.3	Q9P121	OTTHUMG00000066364	ENST00000374786.1:c.430G>T	11.37:g.132081945G>T	ENSP00000363918:p.Asp144Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A0MTT2|Q6UXJ3|Q86VJ9	Missense_Mutation	SNP	ENST00000374786.1	37	CCDS8491.1	.	.	.	.	.	.	.	.	.	.	G	20.8	4.052330	0.75960	.	.	ENSG00000182667	ENST00000374791;ENST00000539799;ENST00000550167;ENST00000427481;ENST00000374786;ENST00000425719;ENST00000374784	T;T;T;T;T;T;T	0.70045	1.5;1.5;-0.45;1.5;1.5;1.5;1.5	5.87	5.87	0.94306	Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.141134	0.64402	D	0.000005	T	0.79947	0.4534	M	0.90252	3.1	0.58432	D	0.999999	P;P;P;P;P;P	0.52170	0.951;0.951;0.717;0.871;0.717;0.844	P;P;B;P;B;B	0.52189	0.692;0.562;0.349;0.562;0.349;0.426	D	0.83633	0.0146	10	0.87932	D	0	-20.5157	13.7487	0.62894	0.0701:0.0:0.9299:0.0	.	144;135;144;144;144;144	B7Z1Z5;B7Z1I4;Q9P121-4;Q9P121;Q9P121-3;Q9P121-2	.;.;.;NTRI_HUMAN;.;.	Y	144;144;135;135;144;144;144	ENSP00000363923:D144Y;ENSP00000437668:D144Y;ENSP00000448104:D135Y;ENSP00000416320:D135Y;ENSP00000363918:D144Y;ENSP00000396722:D144Y;ENSP00000363916:D144Y	ENSP00000363916:D144Y	D	+	1	0	NTM	131587155	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	5.891000	0.69782	2.941000	0.99782	0.655000	0.94253	GAT		0.383	NTM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000141937.1	NM_016522		T	132081945	G	T	132081945	3	4	663	1	0	0	0	0	1	0	0	0	10706	942	33	4	526	4	NTM	11	132081945	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	26305916	132081945	2924571	89	41271										
A2M	2	bcgsc.ca	37	chr12	9253745	9253745	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gatggaaatactcactgtctTcctgcttcacaagcagtcca	7	12	3	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr12:9253745T>C	ENST00000318602.7	-	13	1860	c.1553A>G	c.(1552-1554)gAa>gGa	p.E518G		NM_000014.4	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin	518					blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|negative regulation of complement activation, lectin pathway (GO:0001869)|negative regulation of endopeptidase activity (GO:0010951)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|stem cell differentiation (GO:0048863)	blood microparticle (GO:0072562)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|platelet alpha granule lumen (GO:0031093)	calcium-dependent protein binding (GO:0048306)|enzyme binding (GO:0019899)|growth factor binding (GO:0019838)|interleukin-1 binding (GO:0019966)|interleukin-8 binding (GO:0019959)|protease binding (GO:0002020)|receptor binding (GO:0005102)|serine-type endopeptidase inhibitor activity (GO:0004867)|tumor necrosis factor binding (GO:0043120)			breast(1)|central_nervous_system(6)|cervix(1)|endometrium(5)|kidney(6)|large_intestine(17)|lung(30)|ovary(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	77					Bacitracin(DB00626)|Becaplermin(DB00102)|Ocriplasmin(DB08888)	CTCACTGTCTTCCTGCTTCAC	0.428																																																0													60	71	68					12																	9253745		1969	4151	6120	SO:0001583	missense	2			BX647329, X68728, M11313	CCDS44827.1	12p13.31	2010-02-24			ENSG00000175899	ENSG00000175899			7	protein-coding gene	gene with protein product		103950					Standard	XM_006719056		Approved	FWP007, S863-7, CPAMD5	uc001qvk.1	P01023	OTTHUMG00000150267	ENST00000318602.7:c.1553A>G	12.37:g.9253745T>C	ENSP00000323929:p.Glu518Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q13677|Q59F47|Q5QTS0|Q68DN2|Q6PIY3|Q6PN97	Missense_Mutation	SNP	ENST00000318602.7	37	CCDS44827.1	.	.	.	.	.	.	.	.	.	.	T	0.003	-2.476010	0.00165	.	.	ENSG00000175899	ENST00000318602;ENST00000540099	T	0.64803	-0.12	4.93	-0.411	0.12370	Alpha-2-macroglobulin, N-terminal 2 (1);	0.997527	0.08122	N	0.994535	T	0.18467	0.0443	N	0.00099	-2.14	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.31641	-0.9936	10	0.02654	T	1	.	8.7772	0.34769	0.0:0.4879:0.0:0.5121	.	518	P01023	A2MG_HUMAN	G	518;533	ENSP00000323929:E518G	ENSP00000323929:E518G	E	-	2	0	A2M	9145012	0.000000	0.05858	0.001000	0.08648	0.011000	0.07611	-0.127000	0.10547	-0.243000	0.09653	-1.145000	0.01858	GAA		0.428	A2M-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317233.2	NM_000014		C	9253745	T	C	9253745	3	2	663	1	0	0	0	0	1	0	0	0	4	1783	62	3	2967	3	A2M	12	9253745	Missense_Mutation	SNP	T	TCGA-KN-8427-01A-11D-2310-10		9253745	124598150	90	41272										
PRB2	653247	mdanderson.org	37	chr12	11546378	11546378	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tggaggtgggggaccttgagGtttgttgcctccttgtgggg	19	6	0	1	rs200759746	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr12:11546378G>A	ENST00000389362.4	-	3	669	c.634C>T	c.(634-636)Cct>Tct	p.P212S	PRB1_ENST00000546254.1_Intron|PRB2_ENST00000545829.1_5'Flank	NM_006248.3	NP_006239.3	P02812	PRB2_HUMAN	proline-rich protein BstNI subfamily 2	212	15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-P-Q-G-[GD]-[NKS]-[KSQ]- [PRS]-[QRS] [GPS]-[PSAR]-[PSR].					extracellular region (GO:0005576)				NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(14)|pancreas(1)|prostate(5)|skin(4)|stomach(2)|urinary_tract(1)	37		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			GGACCTTGAGGTTTGTTGCCT	0.602													g|||	9	0.00179712	0.0	0.0014	5008	,	,		19017	0.004		0.001	False		,,,				2504	0.0031															0													68	88	82					12																	11546378		2052	4138	6190	SO:0001583	missense	653247			K03208	CCDS41757.2	12p13.2	2012-10-02			ENSG00000121335	ENSG00000121335			9338	protein-coding gene	gene with protein product		168810				8554050	Standard	NM_006248		Approved	PRPPRB1, Ps, cP7	uc010shk.1	P02812	OTTHUMG00000156975	ENST00000389362.4:c.634C>T	12.37:g.11546378G>A	ENSP00000374013:p.Pro212Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O00599|P02811|P04281	Missense_Mutation	SNP	ENST00000389362.4	37	CCDS41757.2	.	.	.	.	.	.	.	.	.	.	.	0.147	-1.095485	0.01858	.	.	ENSG00000121335	ENST00000389362	T	0.04015	3.73	1.23	-0.356	0.12583	.	0.674464	0.11286	U	0.579821	T	0.02929	0.0087	N	0.20530	0.585	0.09310	N	1	P	0.52061	0.95	P	0.45577	0.486	T	0.25606	-1.0127	10	0.07482	T	0.82	.	3.6218	0.08099	0.0:0.0:0.563:0.437	.	212	P02812	PRB2_HUMAN	S	212	ENSP00000374013:P212S	ENSP00000374013:P212S	P	-	1	0	PRB2	11437645	0.005000	0.15991	0.048000	0.18961	0.632000	0.37999	0.049000	0.14099	0.566000	0.29273	0.175000	0.17021	CCT		0.602	PRB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346925.2	NM_006248		A	11546378	G	A	11546378	3	1	663	1	0	0	0	0	1	0	0	0	12453	1261	44	2	620	2	PRB2	12	11546378	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	2292633	11546378	122305517	91	41273										
ALG10B	144245	broad.mit.edu	37	chr12	38714025	38714025	+	Frame_Shift_Del	DEL	T	T	-													0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gcagtatttccaacactttaTttttttaacttcctttatta							TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr12:38714025delT	ENST00000308742.4	+	3	748	c.432delT	c.(430-432)tatfs	p.Y144fs	ALG10B_ENST00000551464.1_Intron|AC117372.1_ENST00000401168.2_RNA	NM_001013620.3	NP_001013642.1	Q5I7T1	AG10B_HUMAN	ALG10B, alpha-1,2-glucosyltransferase	144					cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transferase activity, transferring hexosyl groups (GO:0016758)			breast(2)|kidney(3)|large_intestine(7)|lung(8)|ovary(4)|skin(1)	25	Esophageal squamous(101;0.187)	Lung NSC(34;0.204)|all_lung(34;0.235)				CAACACTTTATTTTTTTAACT	0.318																																																0													68	74	72					12																	38714025		2203	4295	6498	SO:0001589	frameshift_variant	144245			AY845858	CCDS31772.1	12q12	2013-03-04	2013-03-04		ENSG00000175548	ENSG00000175548	2.4.1.256		31088	protein-coding gene	gene with protein product	"potassium channel regulator 1", "dolichyl-P-Glc:Glc(2)Man(9)GlcNAc(2)-PP-dolichol alpha-1,2- glucosyltransferase"		"asparagine-linked glycosylation 10, alpha-1,2-glucosyltransferase homolog B (yeast)"				Standard	NM_001013620		Approved	KCR1	uc001rln.4	Q5I7T1	OTTHUMG00000169298	ENST00000308742.4:c.432delT	12.37:g.38714025delT	ENSP00000310120:p.Tyr144fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPF4	Frame_Shift_Del	DEL	ENST00000308742.4	37	CCDS31772.1																																																																																				0.318	ALG10B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403349.1	NM_001013620		-	38714025	T	-	38714025	7	5	663	1	0	1	0	1	0	0	0	0	512	1500	52	0	442	0	ALG10B	12	38714025	Frame_Shift_Del	DEL	T	TCGA-KN-8427-01A-11D-2310-10	27167647	38714025	95137870	92	41274										
ESPL1	9700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	53670499	53670499	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	caaggcggtgcgggccgacaCtggacaggaacgcttcaaca	14	12	1	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr12:53670499C>G	ENST00000257934.4	+	8	1887	c.1796C>G	c.(1795-1797)aCt>aGt	p.T599S	ESPL1_ENST00000552462.1_Missense_Mutation_p.T599S	NM_012291.4	NP_036423.4	Q14674	ESPL1_HUMAN	extra spindle pole bodies homolog 1 (S. cerevisiae)	599					apoptotic process (GO:0006915)|cytokinesis (GO:0000910)|establishment of mitotic spindle localization (GO:0040001)|homologous chromosome segregation (GO:0045143)|meiotic spindle organization (GO:0000212)|mitotic cell cycle (GO:0000278)|mitotic sister chromatid segregation (GO:0000070)|negative regulation of sister chromatid cohesion (GO:0045875)|positive regulation of mitotic metaphase/anaphase transition (GO:0045842)	centrosome (GO:0005813)|cytosol (GO:0005829)|nucleus (GO:0005634)	catalytic activity (GO:0003824)|cysteine-type peptidase activity (GO:0008234)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(10)|large_intestine(12)|lung(21)|ovary(2)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(8)	70						CGGGCCGACACTGGACAGGAA	0.662																																					Colon(53;1069 1201 2587 5382)											0													45	45	45					12																	53670499		2203	4300	6503	SO:0001583	missense	9700			D79987	CCDS8852.1	12q13.13	2014-08-04	2013-05-03		ENSG00000135476	ENSG00000135476	3.4.22.49		16856	protein-coding gene	gene with protein product	"separin", "separase", "separin, cysteine protease"	604143	"extra spindle poles like 1 (S. cerevisiae)"			8724849, 16258266	Standard	NM_012291		Approved	KIAA0165, ESP1, SEPA	uc001sck.2	Q14674	OTTHUMG00000169674	ENST00000257934.4:c.1796C>G	12.37:g.53670499C>G	ENSP00000257934:p.Thr599Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000257934.4	37	CCDS8852.1	.	.	.	.	.	.	.	.	.	.	C	17.63	3.438324	0.62955	.	.	ENSG00000135476	ENST00000257934;ENST00000552671;ENST00000552462	T;T	0.13538	2.58;2.58	5.39	5.39	0.77823	.	0.000000	0.85682	D	0.000000	T	0.35885	0.0947	M	0.62723	1.935	0.58432	D	0.999997	D	0.89917	1.0	D	0.83275	0.996	T	0.00593	-1.1654	10	0.36615	T	0.2	.	18.0804	0.89440	0.0:1.0:0.0:0.0	.	599	Q14674	ESPL1_HUMAN	S	599;274;599	ENSP00000257934:T599S;ENSP00000449831:T599S	ENSP00000257934:T599S	T	+	2	0	ESPL1	51956766	1.000000	0.71417	0.403000	0.26384	0.152000	0.21847	7.220000	0.78008	2.808000	0.96608	0.655000	0.94253	ACT		0.662	ESPL1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406899.2	NM_012291		G	53670499	C	G	53670499	3	3	663	1	0	0	0	0	1	0	0	0	5255	565	20	4	1822	4	ESPL1	12	53670499	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	14956474	53670499	80181396	93	41275										
LATS2	26524	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr13	21557476	21557476	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tgttatcaggcttgatgtctCggtggatgaagcccatcttg	12	8	3	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr13:21557476C>T	ENST00000382592.4	-	5	2774	c.2369G>A	c.(2368-2370)cGa>cAa	p.R790Q	LATS2_ENST00000542899.1_Missense_Mutation_p.R790Q	NM_014572.2	NP_055387.2			large tumor suppressor kinase 2											breast(4)|central_nervous_system(3)|endometrium(2)|kidney(2)|large_intestine(7)|lung(19)|ovary(3)|pancreas(1)|prostate(2)|urinary_tract(2)	45		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)		CTTGATGTCTCGGTGGATGAA	0.502																																																0													107	95	99					13																	21557476		2203	4300	6503	SO:0001583	missense	26524			AB028019	CCDS9294.1	13q11-q12	2013-04-25	2013-04-25		ENSG00000150457	ENSG00000150457			6515	protein-coding gene	gene with protein product		604861	"LATS (large tumor suppressor, Drosophila) homolog 2", "LATS, large tumor suppressor, homolog 2 (Drosophila)"			10673337	Standard	NM_014572		Approved		uc001unr.4	Q9NRM7	OTTHUMG00000016531	ENST00000382592.4:c.2369G>A	13.37:g.21557476C>T	ENSP00000372035:p.Arg790Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000382592.4	37	CCDS9294.1	.	.	.	.	.	.	.	.	.	.	C	26.6	4.753970	0.89843	.	.	ENSG00000150457	ENST00000382592;ENST00000542899	T;T	0.19250	2.16;2.16	5.05	4.2	0.49525	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.64402	D	0.000005	T	0.61751	0.2372	H	0.97758	4.07	0.58432	D	0.999997	D	0.89917	1.0	D	0.97110	1.0	T	0.77661	-0.2504	10	0.87932	D	0	.	14.9578	0.71131	0.144:0.856:0.0:0.0	.	790	Q9NRM7	LATS2_HUMAN	Q	790	ENSP00000372035:R790Q;ENSP00000441817:R790Q	ENSP00000372035:R790Q	R	-	2	0	LATS2	20455476	1.000000	0.71417	0.951000	0.38953	0.998000	0.95712	7.568000	0.82369	1.338000	0.45544	0.555000	0.69702	CGA		0.502	LATS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044102.1			T	21557476	C	T	21557476	3	4	663	1	0	0	0	0	1	0	0	0	8654	884	31	1	913	1	LATS2	13	21557476	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10		21557476	93612402	94	41276										
KIF26A	26153	mdanderson.org	37	chr14	104642341	104642341	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ctggcctcggggtcccggccAgtcagcatcatcagcagcat	12	15	3	0	rs2487304	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr14:104642341A>G	ENST00000423312.2	+	12	3216	c.3216A>G	c.(3214-3216)ccA>ccG	p.P1072P	KIF26A_ENST00000315264.7_Silent_p.P933P	NM_015656.1	NP_056471.1	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	1072					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|blood coagulation (GO:0007596)|enteric nervous system development (GO:0048484)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|negative regulation of signal transduction (GO:0009968)|regulation of cell growth by extracellular stimulus (GO:0001560)	cytosol (GO:0005829)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|microtubule binding (GO:0008017)|microtubule motor activity (GO:0003777)			autonomic_ganglia(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(8)|pancreas(1)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)	21		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		GGTCCCGGCCAGTCAGCATCA	0.697													G|||	3898	0.778355	0.8306	0.7205	5008	,	,		14332	0.7897		0.7097	False		,,,				2504	0.8078															0								G		3234,646		1359,516,65	7	9	8		3216	-8.6	0.3	14	dbSNP_100	8	5992,2234		2221,1550,342	no	coding-synonymous	KIF26A	NM_015656.1		3580,2066,407	GG,GA,AA		27.1578,16.6495,23.7899		1072/1883	104642341	9226,2880	1940	4113	6053	SO:0001819	synonymous_variant	26153			AB033062	CCDS45171.1	14q32.33	2009-03-19			ENSG00000066735	ENSG00000066735		"Kinesins"	20226	protein-coding gene	gene with protein product		613231				10574462, 11416179	Standard	NM_015656		Approved	KIAA1236, DKFZP434N178	uc001yos.4	Q9ULI4	OTTHUMG00000154986	ENST00000423312.2:c.3216A>G	14.37:g.104642341A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TAZ7|Q96GK3|Q9UFL3	Silent	SNP	ENST00000423312.2	37	CCDS45171.1																																																																																				0.697	KIF26A-002	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414356.1			G	104642341	A	G	104642341	2	3	663	1	0	0	0	0	0	0	0	1	8301	175	7	3		3	KIF26A	14	104642341	Silent	SNP	A	TCGA-KN-8427-01A-11D-2310-10		104642341	2707199	95	41277										
AGBL1	123624	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	86808034	86808034	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cactgtccccctcccaccacCcagcctatgttggaacgaaa	6	18	0	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr15:86808034C>A	ENST00000441037.2	+	10	1589	c.1494C>A	c.(1492-1494)acC>acA	p.T498T	AGBL1_ENST00000389298.3_Silent_p.T229T|AGBL1_ENST00000421325.2_Silent_p.T498T	NM_152336.2	NP_689549.2	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	498					C-terminal protein deglutamylation (GO:0035609)|protein side chain deglutamylation (GO:0035610)	cytoplasm (GO:0005737)	metallocarboxypeptidase activity (GO:0004181)|tubulin binding (GO:0015631)|zinc ion binding (GO:0008270)			NS(3)|breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(8)|liver(2)|lung(28)|ovary(2)|prostate(4)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	62						CTCCCACCACCCAGCCTATGT	0.458																																																0													77	76	76					15																	86808034		1933	4133	6066	SO:0001819	synonymous_variant	123624			AK056872	CCDS58398.1	15q25.3	2014-06-23			ENSG00000166748	ENSG00000166748			26504	protein-coding gene	gene with protein product	"cytosolic carboxypeptidase 4"	615496				21074048, 24094747	Standard	NM_152336		Approved	FLJ32310, CCP4	uc002blz.1	Q96MI9	OTTHUMG00000149978	ENST00000441037.2:c.1494C>A	15.37:g.86808034C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A1A4X5|A6NJH6|C9JHL5	Silent	SNP	ENST00000441037.2	37	CCDS58398.1																																																																																				0.458	AGBL1-001	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000314929.5	NM_152336		A	86808034	C	A	86808034	2	1	663	1	0	0	0	0	0	0	0	1	375	610	22	4		4	AGBL1	15	86808034	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10		86808034	15723358	96	41278										
DNAH9	1770	hgsc.bcm.edu	37	chr17	11540080	11540080	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ggatgatctacagtcagcacGtccaggaggaagcagaactt	12	9	2	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr17:11540080G>A	ENST00000262442.4	+	9	1833	c.1765G>A	c.(1765-1767)Gtc>Atc	p.V589I	DNAH9_ENST00000454412.2_Missense_Mutation_p.V589I	NM_001372.3	NP_001363.2	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9	589	Stem. {ECO:0000250}.				cell projection organization (GO:0030030)|cellular component movement (GO:0006928)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|spermatogenesis (GO:0007283)	axoneme (GO:0005930)|cytoskeleton (GO:0005856)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)|motor activity (GO:0003774)			NS(2)|autonomic_ganglia(1)|breast(15)|central_nervous_system(5)|endometrium(17)|haematopoietic_and_lymphoid_tissue(6)|kidney(17)|large_intestine(49)|liver(2)|lung(123)|ovary(6)|pancreas(1)|prostate(6)|skin(21)|stomach(2)|upper_aerodigestive_tract(13)|urinary_tract(4)	290		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)		CAGTCAGCACGTCCAGGAGGA	0.438																																																0													142	136	138					17																	11540080		2203	4300	6503	SO:0001583	missense	1770			U61740	CCDS11160.1, CCDS11161.1	17p12	2009-05-07	2006-09-04		ENSG00000007174	ENSG00000007174		"Axonemal dyneins"	2953	protein-coding gene	gene with protein product		603330	"dynein, axonemal, heavy polypeptide 17-like", "dynein, axonemal, heavy polypeptide 9"	DNAH17L		8812413, 11247663	Standard	NM_001372		Approved	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9	uc002gne.3	Q9NYC9	OTTHUMG00000130383	ENST00000262442.4:c.1765G>A	17.37:g.11540080G>A	ENSP00000262442:p.Val589Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A2VCQ8|O15064|O95494|Q9NQ28	Missense_Mutation	SNP	ENST00000262442.4	37	CCDS11160.1	.	.	.	.	.	.	.	.	.	.	G	8.137	0.784355	0.16189	.	.	ENSG00000007174	ENST00000262442;ENST00000454412	T;T	0.55930	0.49;0.49	5.7	-2.02	0.07388	Dynein heavy chain, domain-1 (1);	0.744667	0.11942	N	0.514613	T	0.29882	0.0747	N	0.17723	0.515	0.40336	D	0.978987	B	0.11235	0.004	B	0.06405	0.002	T	0.09952	-1.0651	10	0.22109	T	0.4	.	6.3992	0.21628	0.4728:0.1275:0.3997:0.0	.	589	Q9NYC9	DYH9_HUMAN	I	589	ENSP00000262442:V589I;ENSP00000414874:V589I	ENSP00000262442:V589I	V	+	1	0	DNAH9	11480805	0.000000	0.05858	0.600000	0.28864	0.827000	0.46813	-0.478000	0.06575	-0.157000	0.11059	0.655000	0.94253	GTC		0.438	DNAH9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252756.2	NM_001372		A	11540080	G	A	11540080	3	1	663	1	0	0	0	0	1	0	0	0	4610	1145	40	1	1799	1	DNAH9	17	11540080	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10		11540080	69655130	97	41279										
TMUB2	79089	ucsc.edu;mdanderson.org	37	chr17	42268154	42268154	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	atcaattaccgccaattcttCacagcacctgccactgtctc	4	16	4	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr17:42268154C>T	ENST00000587989.1	+	4	1041	c.888C>T	c.(886-888)ttC>ttT	p.F296F	TMUB2_ENST00000319511.6_Silent_p.F276F|TMUB2_ENST00000590235.1_3'UTR|TMUB2_ENST00000357984.3_Silent_p.F276F|TMUB2_ENST00000589785.1_Silent_p.F276F|TMUB2_ENST00000587172.1_3'UTR|TMUB2_ENST00000592825.1_3'UTR|TMUB2_ENST00000538716.2_Silent_p.F296F|TMUB2_ENST00000589184.1_3'UTR|TMUB2_ENST00000446571.3_Silent_p.F239F			Q71RG4	TMUB2_HUMAN	transmembrane and ubiquitin-like domain containing 2	296						integral component of membrane (GO:0016021)				endometrium(2)|kidney(2)|large_intestine(1)|lung(3)	8		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.113)		GCCAATTCTTCACAGCACCTG	0.507																																																0													126	111	116					17																	42268154		2203	4300	6503	SO:0001819	synonymous_variant	79089				CCDS11479.1, CCDS54134.1	17q21	2006-06-27				ENSG00000168591			28459	protein-coding gene	gene with protein product						8619474, 9110174	Standard	NM_177441		Approved	MGC3123	uc002ifo.3	Q71RG4		ENST00000587989.1:c.888C>T	17.37:g.42268154C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KU81|Q8NDI2|Q9BPZ5|Q9HAG3	Silent	SNP	ENST00000587989.1	37	CCDS54134.1																																																																																				0.507	TMUB2-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000457711.1	NM_177441		T	42268154	C	T	42268154	2	4	663	1	0	0	0	0	0	0	0	1	16277	825	29	2		2	TMUB2	17	42268154	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10	30728074	42268154	38927056	98	41280										
SP2	6668	broad.mit.edu;mdanderson.org	37	chr17	46000417	46000417	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gcagccacctctaacaccacCtgtagcagccctgcatcccg	7	19	1	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr17:46000417C>G	ENST00000376741.4	+	4	1286	c.1149C>G	c.(1147-1149)acC>acG	p.T383T	AC003665.1_ENST00000451140.2_RNA|AC003665.1_ENST00000411573.2_RNA|AC003665.1_ENST00000585280.1_RNA|AC003665.1_ENST00000433001.1_RNA	NM_003110.5	NP_003101.3	Q02086	SP2_HUMAN	Sp2 transcription factor	383					cardiovascular system development (GO:0072358)|embryonic organ development (GO:0048568)|fibroblast proliferation (GO:0048144)|immune response (GO:0006955)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone deacetylase binding (GO:0042826)|metal ion binding (GO:0046872)			endometrium(1)|large_intestine(1)|lung(7)|prostate(2)|skin(1)|urinary_tract(1)	13						CTAACACCACCTGTAGCAGCC	0.607																																																0													83	78	80					17																	46000417		2203	4300	6503	SO:0001819	synonymous_variant	6668				CCDS11521.2	17q21.3-q22	2013-01-08			ENSG00000167182	ENSG00000167182		"Specificity protein transcription factors", "Zinc fingers, C2H2-type"	11207	protein-coding gene	gene with protein product		601801				1341900, 9730617	Standard	NM_003110		Approved	KIAA0048	uc002imk.3	Q02086	OTTHUMG00000150196	ENST00000376741.4:c.1149C>G	17.37:g.46000417C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NK74	Silent	SNP	ENST00000376741.4	37	CCDS11521.2																																																																																				0.607	SP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316777.1	NM_003110		G	46000417	C	G	46000417	2	3	663	1	0	0	0	0	0	0	0	1	14977	668	24	4		4	SP2	17	46000417	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10	3732263	46000417	35194793	99	41281										
ITGA3	3675	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	48154412	48154412	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cacccggacctcggagcgctCcggggaggacgcccacgagg	16	16	0	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr17:48154412C>G	ENST00000320031.8	+	15	2327	c.1997C>G	c.(1996-1998)tCc>tGc	p.S666C	ITGA3_ENST00000007722.7_Missense_Mutation_p.S666C	NM_002204.2|NM_005501.2	NP_002195.1|NP_005492.1	P26006	ITA3_HUMAN	integrin, alpha 3 (antigen CD49C, alpha 3 subunit of VLA-3 receptor)	666					blood coagulation (GO:0007596)|cell-matrix adhesion (GO:0007160)|extracellular matrix organization (GO:0030198)|heart development (GO:0007507)|integrin-mediated signaling pathway (GO:0007229)|leukocyte migration (GO:0050900)|lung development (GO:0030324)|maternal process involved in female pregnancy (GO:0060135)|memory (GO:0007613)|mesodermal cell differentiation (GO:0048333)|negative regulation of cell projection organization (GO:0031345)|nephron development (GO:0072006)|neuron migration (GO:0001764)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of epithelial cell migration (GO:0010634)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of gene expression (GO:0010628)|positive regulation of neuron projection development (GO:0010976)|regulation of BMP signaling pathway (GO:0030510)|regulation of transforming growth factor beta receptor signaling pathway (GO:0017015)|regulation of Wnt signaling pathway (GO:0030111)|renal filtration (GO:0097205)|response to drug (GO:0042493)|response to gonadotropin (GO:0034698)|skin development (GO:0043588)	basolateral plasma membrane (GO:0016323)|cell periphery (GO:0071944)|cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|filopodium membrane (GO:0031527)|focal adhesion (GO:0005925)|growth cone (GO:0030426)|integrin alpha3-beta1 complex (GO:0034667)|integrin complex (GO:0008305)|invadopodium membrane (GO:0071438)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|synapse (GO:0045202)	glycoprotein binding (GO:0001948)|metal ion binding (GO:0046872)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)			endometrium(3)|kidney(2)|large_intestine(7)|lung(11)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|stomach(2)	31						TCGGAGCGCTCCGGGGAGGAC	0.687																																																0													18	18	18					17																	48154412		2202	4298	6500	SO:0001583	missense	3675			M59911	CCDS11557.1, CCDS11558.1	17q21.33	2010-03-23	2003-10-13		ENSG00000005884	ENSG00000005884		"CD molecules", "Integrins"	6139	protein-coding gene	gene with protein product		605025	"antigen identified by monoclonal antibody J143"	MSK18		1655803, 9704023	Standard	NM_005501		Approved	CD49c, VLA3a, VCA-2, GAP-B3	uc010dbm.3	P26006	OTTHUMG00000161890	ENST00000320031.8:c.1997C>G	17.37:g.48154412C>G	ENSP00000315190:p.Ser666Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A7E246|B7ZM80|B9EGQ1|D3DTX4|D3DTX5	Missense_Mutation	SNP	ENST00000320031.8	37	CCDS11558.1	.	.	.	.	.	.	.	.	.	.	C	7.673	0.687351	0.14973	.	.	ENSG00000005884	ENST00000007722;ENST00000538917;ENST00000320031	T;T	0.48522	0.81;0.81	5.44	3.49	0.39957	Integrin alpha-2 (1);	0.576176	0.18753	N	0.132140	T	0.22244	0.0536	N	0.08118	0	0.09310	N	0.999999	B;B	0.29531	0.086;0.247	B;B	0.24394	0.015;0.053	T	0.12708	-1.0537	9	.	.	.	.	6.737	0.23415	0.1437:0.7021:0.0:0.1542	.	666;666	P26006-1;P26006	.;ITA3_HUMAN	C	666;652;666	ENSP00000007722:S666C;ENSP00000315190:S666C	.	S	+	2	0	ITGA3	45509411	0.034000	0.19679	0.146000	0.22360	0.008000	0.06430	2.241000	0.43097	0.877000	0.35895	-0.137000	0.14449	TCC		0.687	ITGA3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000366298.1	NM_005501		G	48154412	C	G	48154412	3	3	663	1	0	0	0	0	1	0	0	0	7884	855	30	4	2055	4	ITGA3	17	48154412	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	2153995	48154412	33040798	100	41282										
COL1A1	1277	broad.mit.edu;bcgsc.ca	37	chr17	48267232	48267232	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	atactcacagggggaccagcGctgccgcgagcacctttggc	13	14	1	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr17:48267232G>C	ENST00000225964.5	-	37	2719	c.2601C>G	c.(2599-2601)agC>agG	p.S867R		NM_000088.3	NP_000079	P02452	CO1A1_HUMAN	collagen, type I, alpha 1	867	Triple-helical region.				blood coagulation (GO:0007596)|blood vessel development (GO:0001568)|bone trabecula formation (GO:0060346)|cartilage development involved in endochondral bone morphogenesis (GO:0060351)|cellular response to amino acid stimulus (GO:0071230)|cellular response to mechanical stimulus (GO:0071260)|cellular response to retinoic acid (GO:0071300)|cellular response to transforming growth factor beta stimulus (GO:0071560)|collagen biosynthetic process (GO:0032964)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|embryonic skeletal system development (GO:0048706)|endochondral ossification (GO:0001958)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|face morphogenesis (GO:0060325)|intramembranous ossification (GO:0001957)|leukocyte migration (GO:0050900)|negative regulation of cell-substrate adhesion (GO:0010812)|osteoblast differentiation (GO:0001649)|platelet activation (GO:0030168)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cell migration (GO:0030335)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of transcription, DNA-templated (GO:0045893)|protein heterotrimerization (GO:0070208)|protein localization to nucleus (GO:0034504)|protein transport (GO:0015031)|response to cAMP (GO:0051591)|response to corticosteroid (GO:0031960)|response to estradiol (GO:0032355)|response to hydrogen peroxide (GO:0042542)|response to nutrient (GO:0007584)|response to peptide hormone (GO:0043434)|sensory perception of sound (GO:0007605)|skeletal system development (GO:0001501)|skin morphogenesis (GO:0043589)|tooth mineralization (GO:0034505)|visual perception (GO:0007601)	collagen type I trimer (GO:0005584)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)	extracellular matrix structural constituent (GO:0005201)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|platelet-derived growth factor binding (GO:0048407)		COL1A1/PDGFB(429)	NS(1)|breast(3)|central_nervous_system(8)|endometrium(3)|kidney(4)|large_intestine(17)|liver(3)|lung(18)|ovary(1)|pancreas(1)|prostate(4)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	71					Collagenase(DB00048)	GGGGACCAGCGCTGCCGCGAG	0.652			T	"PDGFB, USP6"	"dermatofibrosarcoma protuberans, aneurysmal bone cyst "		Osteogenesis imperfecta																																Dom	yes		17	17q21.31-q22	1277	"collagen, type I, alpha 1"	yes	M	0													31	30	30					17																	48267232		2202	4299	6501	SO:0001583	missense	1277			Z74615	CCDS11561.1	17q21.33	2014-09-17			ENSG00000108821	ENSG00000108821		"Collagens"	2197	protein-coding gene	gene with protein product		120150				3178743, 2857713	Standard	NM_000088		Approved	OI4	uc002iqm.3	P02452	OTTHUMG00000148674	ENST00000225964.5:c.2601C>G	17.37:g.48267232G>C	ENSP00000225964:p.Ser867Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O76045|P78441|Q13896|Q13902|Q13903|Q14037|Q14992|Q15176|Q15201|Q16050|Q59F64|Q7KZ30|Q7KZ34|Q8IVI5|Q8N473|Q9UML6|Q9UMM7	Missense_Mutation	SNP	ENST00000225964.5	37	CCDS11561.1	.	.	.	.	.	.	.	.	.	.	G	14.36	2.513412	0.44660	.	.	ENSG00000108821	ENST00000225964	D	0.93307	-3.2	5.41	-6.02	0.02192	.	0.616511	0.16164	N	0.226603	D	0.87253	0.6131	L	0.28458	0.855	0.23943	N	0.996394	B	0.27286	0.174	B	0.31751	0.135	T	0.69548	-0.5116	10	0.27785	T	0.31	.	16.3739	0.83378	0.8239:0.0:0.1761:0.0	.	867	P02452	CO1A1_HUMAN	R	867	ENSP00000225964:S867R	ENSP00000225964:S867R	S	-	3	2	COL1A1	45622231	0.000000	0.05858	0.430000	0.26722	0.774000	0.43823	-0.597000	0.05713	-1.245000	0.02513	0.313000	0.20887	AGC		0.652	COL1A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000309036.2			C	48267232	G	C	48267232	3	2	663	1	0	0	0	0	1	0	0	0	3679	1078	38	4	1853	4	COL1A1	17	48267232	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	112820	48267232	32927978	101	41283										
ABCA6	23460	mdanderson.org	37	chr17	67092895	67092895	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	agtgcctgcccacaccagtaAgcagaagtgtagaggcctga	12	11	0	3			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr17:67092895A>C	ENST00000284425.2	-	24	3342	c.3168T>G	c.(3166-3168)gcT>gcG	p.A1056A	ABCA6_ENST00000446604.2_5'UTR|MIR4524B_ENST00000581569.1_RNA	NM_080284.2	NP_525023.2	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 6	1056					transport (GO:0006810)	integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)			breast(6)|endometrium(5)|kidney(17)|large_intestine(18)|lung(20)|ovary(3)|prostate(2)|skin(5)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	82	Breast(10;5.65e-12)					CACACCAGTAAGCAGAAGTGT	0.333																																																0													34	38	36					17																	67092895		2203	4298	6501	SO:0001819	synonymous_variant	23460			U66680	CCDS11683.1	17q21	2012-03-14			ENSG00000154262	ENSG00000154262		"ATP binding cassette transporters / subfamily A"	36	protein-coding gene	gene with protein product		612504				8894702	Standard	NM_080284		Approved	EST155051	uc002jhw.1	Q8N139		ENST00000284425.2:c.3168T>G	17.37:g.67092895A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6NSH9|Q8N856|Q8WWZ6	Silent	SNP	ENST00000284425.2	37	CCDS11683.1																																																																																				0.333	ABCA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450463.1	NM_080284		C	67092895	A	C	67092895	2	2	663	1	0	0	0	0	0	0	0	1	36	59	3	5		5	ABCA6	17	67092895	Silent	SNP	A	TCGA-KN-8427-01A-11D-2310-10	18825663	67092895	14102315	102	41284										
KIF19	124602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	72348987	72348987	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ccttgcccaaaattaccccaGcaggaacctcactgacccca	5	18	1	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr17:72348987G>A	ENST00000389916.4	+	15	2146	c.2008G>A	c.(2008-2010)Gca>Aca	p.A670T	AC103809.2_ENST00000599136.1_5'Flank	NM_153209.3	NP_694941.2	Q2TAC6	KIF19_HUMAN	kinesin family member 19	670					ATP catabolic process (GO:0006200)|axonemal microtubule depolymerization (GO:0060404)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|plus-end specific microtubule depolymerization (GO:0070462)	cilium (GO:0005929)|cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|plus-end-directed microtubule motor activity (GO:0008574)			autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(6)|large_intestine(3)|lung(16)|ovary(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	41						AATTACCCCAGCAGGAACCTC	0.567																																																0													124	132	129					17																	72348987		1976	4173	6149	SO:0001583	missense	124602			AK094619	CCDS32718.2	17q25	2007-02-13			ENSG00000196169	ENSG00000196169		"Kinesins"	26735	protein-coding gene	gene with protein product						11416179	Standard	NM_153209		Approved	FLJ37300, KIF19A	uc031rei.1	Q2TAC6	OTTHUMG00000150694	ENST00000389916.4:c.2008G>A	17.37:g.72348987G>A	ENSP00000374566:p.Ala670Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLG2|B7ZKR1|Q52M87|Q8N1X8|Q8TAB6	Missense_Mutation	SNP	ENST00000389916.4	37	CCDS32718.2	.	.	.	.	.	.	.	.	.	.	G	12.75	2.031178	0.35797	.	.	ENSG00000196169	ENST00000389916	T	0.70986	-0.53	5.22	3.19	0.36642	.	.	.	.	.	T	0.56688	0.2002	L	0.47716	1.5	0.28564	N	0.91098	P	0.39391	0.671	B	0.32864	0.154	T	0.44112	-0.9349	9	0.13853	T	0.58	.	10.0998	0.42497	0.077:0.1383:0.7847:0.0	.	670	Q2TAC6	KIF19_HUMAN	T	670	ENSP00000374566:A670T	ENSP00000374566:A670T	A	+	1	0	KIF19	69860582	0.018000	0.18449	0.154000	0.22540	0.734000	0.41952	1.180000	0.32005	0.695000	0.31675	0.456000	0.33151	GCA		0.567	KIF19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319644.2	NM_153209		A	72348987	G	A	72348987	3	1	663	1	0	0	0	0	1	0	0	0	8289	971	34	2	2066	2	KIF19	17	72348987	Missense_Mutation	SNP	G	TCGA-KN-8427-01A-11D-2310-10	5256092	72348987	8846223	103	41285										
BAIAP2	10458	broad.mit.edu	37	chr17	79080558	79080558	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cctacagcctgcagcaagggAagagcagcagcacgggcaac	13	13	0	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr17:79080558A>G	ENST00000321300.6	+	12	1444	c.1351A>G	c.(1351-1353)Aag>Gag	p.K451E	BAIAP2_ENST00000392411.3_Missense_Mutation_p.K373E|BAIAP2_ENST00000575245.1_Missense_Mutation_p.K484E|BAIAP2_ENST00000321280.7_Missense_Mutation_p.K451E|BAIAP2_ENST00000416299.2_Missense_Mutation_p.K314E|BAIAP2_ENST00000428708.2_Missense_Mutation_p.K451E|BAIAP2_ENST00000435091.3_Missense_Mutation_p.K451E|BAIAP2_ENST00000575712.1_Missense_Mutation_p.K451E	NM_001144888.1|NM_017451.2	NP_001138360.1|NP_059345.1	Q9UQB8	BAIP2_HUMAN	BAI1-associated protein 2	451					actin crosslink formation (GO:0051764)|actin filament bundle assembly (GO:0051017)|axonogenesis (GO:0007409)|dendrite development (GO:0016358)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|filopodium assembly (GO:0046847)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of cell shape (GO:0008360)|regulation of synaptic plasticity (GO:0048167)|response to bacterium (GO:0009617)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)	cytoskeletal adaptor activity (GO:0008093)|identical protein binding (GO:0042802)|proline-rich region binding (GO:0070064)|protein C-terminus binding (GO:0008022)			breast(1)|central_nervous_system(2)|endometrium(3)|kidney(2)|large_intestine(3)|lung(6)|skin(1)	18	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			GCAGCAAGGGAAGAGCAGCAG	0.706																																																0													59	59	59					17																	79080558		2202	4298	6500	SO:0001583	missense	10458			AB015019	CCDS11775.1, CCDS11776.1, CCDS11777.1, CCDS45806.1	17q25.3	2014-09-11			ENSG00000175866				947	protein-coding gene	gene with protein product		605475				10343108	Standard	NM_017451		Approved	BAP2	uc002jzg.2	Q9UQB8	OTTHUMG00000177698	ENST00000321300.6:c.1351A>G	17.37:g.79080558A>G	ENSP00000316338:p.Lys451Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O43858|Q53HB1|Q86WC1|Q8N5C0|Q96CR7|Q9UBR3|Q9UQ43	Missense_Mutation	SNP	ENST00000321300.6	37	CCDS11775.1	.	.	.	.	.	.	.	.	.	.	A	15.13	2.741905	0.49151	.	.	ENSG00000175866	ENST00000321300;ENST00000428708;ENST00000435091;ENST00000321280;ENST00000392411;ENST00000416299	T;T;T;T;T;T	0.33438	1.85;1.86;1.41;1.41;1.86;1.42	4.69	4.69	0.59074	.	0.167559	0.51477	D	0.000086	T	0.21962	0.0529	L	0.39898	1.24	0.50467	D	0.99987	B;P;P;B;B;B;B;B;B	0.44627	0.411;0.515;0.839;0.06;0.029;0.227;0.099;0.068;0.029	B;B;B;B;B;B;B;B;B	0.35312	0.11;0.093;0.2;0.07;0.064;0.093;0.147;0.093;0.093	T	0.03829	-1.1000	10	0.22706	T	0.39	-23.9754	13.1745	0.59617	1.0:0.0:0.0:0.0	.	314;373;452;451;451;451;451;452;451	B4DWA1;F8W878;B3KPV9;Q9UQB8;Q9UQB8-2;Q9UQB8-3;Q9UQB8-5;Q9UQB8-6;Q9UQB8-4	.;.;.;BAIP2_HUMAN;.;.;.;.;.	E	451;451;451;451;373;314	ENSP00000316338:K451E;ENSP00000401022:K451E;ENSP00000413069:K451E;ENSP00000315685:K451E;ENSP00000376211:K373E;ENSP00000391837:K314E	ENSP00000315685:K451E	K	+	1	0	BAIAP2	76695153	1.000000	0.71417	0.998000	0.56505	0.414000	0.31173	8.497000	0.90488	1.769000	0.52152	0.248000	0.18094	AAG		0.706	BAIAP2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000438553.1			G	79080558	A	G	79080558	3	3	663	1	0	0	0	0	1	0	0	0	1301	247	9	3	1397	3	BAIAP2	17	79080558	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10	6731571	79080558	2114652	104	41286										
FSCN2	25794	mdanderson.org	37	chr17	79495969	79495969	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ggaccgtgcacctggccatcCacccgcaggcccacctgctg	11	19	0	0	rs143796236	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr17:79495969C>T	ENST00000417245.2	+	1	548	c.412C>T	c.(412-414)Cac>Tac	p.H138Y	FSCN2_ENST00000334850.7_Missense_Mutation_p.H138Y|RP13-766D20.2_ENST00000430912.1_RNA|RP13-766D20.2_ENST00000442532.1_RNA	NM_001077182.2|NM_012418.3	NP_001070650.1|NP_036550.1	O14926	FSCN2_HUMAN	fascin actin-bundling protein 2, retinal	138					actin cytoskeleton organization (GO:0030036)|actin filament bundle assembly (GO:0051017)|anatomical structure morphogenesis (GO:0009653)|eye photoreceptor cell development (GO:0042462)|visual perception (GO:0007601)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|stereocilium (GO:0032420)	actin binding (GO:0003779)|actin filament binding (GO:0051015)			endometrium(1)|lung(1)|prostate(1)|urinary_tract(1)	4	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			CCTGGCCATCCACCCGCAGGC	0.716													C|||	8	0.00159744	0.0	0.0	5008	,	,		16925	0.0		0.007	False		,,,				2504	0.001															0								C	TYR/HIS,TYR/HIS	1,4181		0,1,2090	8	10	9		412,412	4.8	1	17	dbSNP_134	9	71,8275		0,71,4102	yes	missense,missense	FSCN2	NM_001077182.2,NM_012418.3	83,83	0,72,6192	TT,TC,CC		0.8507,0.0239,0.5747	probably-damaging,probably-damaging	138/517,138/493	79495969	72,12456	2091	4173	6264	SO:0001583	missense	25794			AF030165	CCDS45810.1, CCDS45811.1	17q25	2014-02-03	2014-02-03		ENSG00000186765	ENSG00000186765		"Fascins"	3960	protein-coding gene	gene with protein product		607643	"fascin (Strongylocentrotus purpuratus) homolog 2 (actin-bundling protein, retinal)", "fascin homolog 2, actin-bundling protein, retinal (Strongylocentrotus purpuratus)"			10234509	Standard	NM_012418		Approved	RP30, RFSN	uc010wuo.2	O14926	OTTHUMG00000167477	ENST00000417245.2:c.412C>T	17.37:g.79495969C>T	ENSP00000388716:p.His138Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVC4|A8MRA6	Missense_Mutation	SNP	ENST00000417245.2	37	CCDS45811.1	3	0.0013736263736263737	0	0.0	0	0.0	0	0.0	3	0.00395778364116095	C	26.6	4.751103	0.89753	2.39E-4	0.008507	ENSG00000186765	ENST00000417245;ENST00000334850	T;T	0.24151	1.87;1.87	4.78	4.78	0.61160	Actin cross-linking (1);	0.000000	0.85682	D	0.000000	T	0.48040	0.1478	M	0.85945	2.785	0.80722	D	1	D;D	0.89917	1.0;0.997	D;D	0.75484	0.978;0.986	T	0.62704	-0.6798	10	0.87932	D	0	-21.2088	16.5597	0.84537	0.0:1.0:0.0:0.0	.	138;138	O14926;A8MRA6	FSCN2_HUMAN;.	Y	138	ENSP00000388716:H138Y;ENSP00000334665:H138Y	ENSP00000334665:H138Y	H	+	1	0	FSCN2	77110564	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.216000	0.77974	2.169000	0.68431	0.411000	0.27672	CAC		0.716	FSCN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394746.1	NM_012418		T	79495969	C	T	79495969	3	4	663	1	0	0	0	0	1	0	0	0	6075	594	21	2	414	2	FSCN2	17	79495969	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	415411	79495969	1699241	105	41287										
DSG2	1829	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr18	29122688	29122688	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tacccagtttacaggggccaCaggcgctatcatgaccactg	10	13	1	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr18:29122688C>T	ENST00000261590.8	+	14	2416	c.2207C>T	c.(2206-2208)aCa>aTa	p.T736I	RP11-75N4.2_ENST00000583706.1_RNA	NM_001943.3	NP_001934.2	Q14126	DSG2_HUMAN	desmoglein 2	736					apoptotic process (GO:0006915)|bundle of His cell to Purkinje myocyte communication (GO:0086069)|cell adhesion (GO:0007155)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|homophilic cell adhesion (GO:0007156)|maternal process involved in female pregnancy (GO:0060135)|regulation of heart rate by cardiac conduction (GO:0086091)|response to progesterone (GO:0032570)|ventricular cardiac muscle cell action potential (GO:0086005)	apical plasma membrane (GO:0016324)|cell surface (GO:0009986)|cell-cell junction (GO:0005911)|desmosome (GO:0030057)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|lateral plasma membrane (GO:0016328)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(2)|central_nervous_system(6)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(5)|lung(17)|ovary(2)|prostate(4)|skin(2)|urinary_tract(1)	49			OV - Ovarian serous cystadenocarcinoma(10;0.0068)			ACAGGGGCCACAGGCGCTATC	0.552																																																0													102	108	106					18																	29122688		2011	4187	6198	SO:0001583	missense	1829			Z26317	CCDS42423.1	18q12.1	2014-09-17				ENSG00000046604		"Cadherins / Major cadherins"	3049	protein-coding gene	gene with protein product		125671				1612610	Standard	NM_001943		Approved	CDHF5	uc002kwu.4	Q14126		ENST00000261590.8:c.2207C>T	18.37:g.29122688C>T	ENSP00000261590:p.Thr736Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q4KKU6	Missense_Mutation	SNP	ENST00000261590.8	37	CCDS42423.1	.	.	.	.	.	.	.	.	.	.	C	13.51	2.258185	0.39896	.	.	ENSG00000046604	ENST00000261590	T	0.59772	0.24	5.97	5.1	0.69264	.	0.803958	0.11227	N	0.586116	T	0.42675	0.1213	N	0.14661	0.345	0.42832	D	0.994021	B	0.14805	0.011	B	0.09377	0.004	T	0.18053	-1.0349	10	0.38643	T	0.18	.	12.7234	0.57154	0.0:0.9209:0.0:0.0791	.	736	Q14126	DSG2_HUMAN	I	736	ENSP00000261590:T736I	ENSP00000261590:T736I	T	+	2	0	DSG2	27376686	0.002000	0.14202	0.047000	0.18901	0.003000	0.03518	0.773000	0.26661	1.522000	0.49001	0.655000	0.94253	ACA		0.552	DSG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447506.1	NM_001943		T	29122688	C	T	29122688	3	4	663	1	0	0	0	0	1	0	0	0	4779	478	17	2	2261	2	DSG2	18	29122688	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10		29122688	48954560	106	41288										
HCN2	610	mdanderson.org	37	chr19	613898	613898	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cgcacggcgagcgtgcgggcTgacacctactgccgcctcta	13	16	1	1	rs1054786	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr19:613898T>C	ENST00000251287.2	+	7	1925	c.1872T>C	c.(1870-1872)gcT>gcC	p.A624A	AC005559.2_ENST00000591847.1_RNA	NM_001194.3	NP_001185.3	Q9UL51	HCN2_HUMAN	hyperpolarization activated cyclic nucleotide-gated potassium channel 2	624					cell-cell signaling (GO:0007267)|cellular response to cAMP (GO:0071320)|cellular response to cGMP (GO:0071321)|potassium ion transmembrane transport (GO:0071805)|regulation of membrane potential (GO:0042391)|sodium ion transmembrane transport (GO:0035725)|synaptic transmission (GO:0007268)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	cAMP binding (GO:0030552)|identical protein binding (GO:0042802)|intracellular cAMP activated cation channel activity (GO:0005222)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated sodium channel activity (GO:0005248)			endometrium(5)|lung(4)	9		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)		GCGTGCGGGCTGACACCTACT	0.706													c|||	4115	0.821685	0.9796	0.7349	5008	,	,		4851	0.8958		0.5865	False		,,,				2504	0.8354				Melanoma(145;1175 2427 8056 36306)											0								C		4024,366		1851,322,22	28	29	28		1872	-7.7	0.6	19	dbSNP_86	28	4945,3649		1422,2101,774	no	coding-synonymous	HCN2	NM_001194.3		3273,2423,796	CC,CT,TT		42.4599,8.3371,30.9227		624/890	613898	8969,4015	2195	4297	6492	SO:0001819	synonymous_variant	610			AF064877	CCDS12035.1	19p13	2011-07-05				ENSG00000099822		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	4846	protein-coding gene	gene with protein product		602781		BCNG2		9405696, 9630217, 16382102	Standard	NM_001194		Approved	BCNG-2, HAC-1	uc002lpe.3	Q9UL51		ENST00000251287.2:c.1872T>C	19.37:g.613898T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O60742|O60743|O75267|Q9UBS2	Silent	SNP	ENST00000251287.2	37	CCDS12035.1																																																																																				0.706	HCN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452100.1	NM_001194		C	613898	T	C	613898	2	2	663	1	0	0	0	0	0	0	0	1	7004	1567	55	3		3	HCN2	19	613898	Silent	SNP	T	TCGA-KN-8427-01A-11D-2310-10		613898	58515085	107	41289										
MUC16	94025	mdanderson.org	37	chr19	8999441	8999441	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gtgtaggggcccagctcagtGatgctgtgggtcagctggct	17	9	2	1	rs80293661		TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr19:8999441G>A	ENST00000397910.4	-	56	40937	c.40734C>T	c.(40732-40734)atC>atT	p.I13578I	MUC16_ENST00000380951.5_Silent_p.I219I	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13580	SEA 10. {ECO:0000255|PROSITE- ProRule:PRU00188}.			Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						CCAGCTCAGTGATGCTGTGGG	0.572																																																0													233	195	208					19																	8999441		2056	4205	6261	SO:0001819	synonymous_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.40734C>T	19.37:g.8999441G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Silent	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	.	0.024	-1.394273	0.01175	.	.	ENSG00000181143	ENST00000542240	.	.	.	2.95	1.9	0.25705	.	.	.	.	.	T	0.37544	0.1007	.	.	.	.	.	.	.	.	.	.	.	.	T	0.42531	-0.9446	3	.	.	.	.	5.174	0.15126	0.1723:0.0:0.8277:0.0	.	.	.	.	L	418	.	.	S	-	2	0	MUC16	8860441	0.993000	0.37304	0.014000	0.15608	0.016000	0.09150	1.607000	0.36836	0.786000	0.33708	0.555000	0.69702	TCA		0.572	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		A	8999441	G	A	8999441	2	1	663	1	0	0	0	0	0	0	0	1	9980	1280	45	2		2	MUC16	19	8999441	Silent	SNP	G	TCGA-KN-8427-01A-11D-2310-10	8385543	8999441	50129542	108	41290										
ATG4D	84971	bcgsc.ca	37	chr19	10654987	10654987	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	caagttcctgacagcctggaAcaacgtcaagtacggtgagg	12	10	1	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr19:10654987A>G	ENST00000309469.4	+	1	394	c.221A>G	c.(220-222)aAc>aGc	p.N74S	ATG4D_ENST00000540862.1_5'Flank	NM_032885.4	NP_116274.3	Q86TL0	ATG4D_HUMAN	autophagy related 4D, cysteine peptidase	74	Cryptic mitochondrial signal peptide.				apoptotic process (GO:0006915)|autophagy (GO:0006914)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)	cysteine-type endopeptidase activity (GO:0004197)			NS(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(6)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	19			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			ACAGCCTGGAACAACGTCAAG	0.652																																																0													9	7	8					19																	10654987		2016	3899	5915	SO:0001583	missense	84971			AJ312332	CCDS12241.1	19p13.2	2014-02-12	2012-06-06	2005-09-11	ENSG00000130734	ENSG00000130734			20789	protein-coding gene	gene with protein product		611340	"AUT-like 4, cysteine endopeptidase (S. cerevisiae)", "APG4 autophagy 4 homolog D (S. cerevisiae)", "ATG4 autophagy related 4 homolog D (S. cerevisiae)"	AUTL4, APG4D		12446702	Standard	NM_032885		Approved	APG4-D	uc002mov.3	Q86TL0	OTTHUMG00000180582	ENST00000309469.4:c.221A>G	19.37:g.10654987A>G	ENSP00000311318:p.Asn74Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q969K0	Missense_Mutation	SNP	ENST00000309469.4	37	CCDS12241.1	.	.	.	.	.	.	.	.	.	.	a	17.69	3.452721	0.63290	.	.	ENSG00000130734	ENST00000309469	T	0.41758	0.99	3.9	3.9	0.45041	.	0.000000	0.85682	U	0.000000	T	0.55955	0.1953	M	0.78049	2.395	0.80722	D	1	D;D	0.63880	0.993;0.967	P;P	0.56163	0.793;0.792	T	0.57923	-0.7727	10	0.36615	T	0.2	-16.6651	11.7064	0.51599	1.0:0.0:0.0:0.0	.	74;74	B7ZAY9;Q86TL0	.;ATG4D_HUMAN	S	74	ENSP00000311318:N74S	ENSP00000311318:N74S	N	+	2	0	ATG4D	10515987	1.000000	0.71417	1.000000	0.80357	0.073000	0.16967	8.697000	0.91307	1.406000	0.46857	0.387000	0.25754	AAC		0.652	ATG4D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452022.1	NM_032885		G	10654987	A	G	10654987	3	3	663	1	0	0	0	0	1	0	0	0	1099	43	2	3	223	3	ATG4D	19	10654987	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10	1655546	10654987	48473996	109	41291										
ZNF563	147837	broad.mit.edu	37	chr19	12433413	12433423	+	Frame_Shift_Del	DEL	TTCCTGATGGT	TTCCTGATGGT	-													0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ccttacttatacagtccaggTtcctgatggtttcttgcatc							TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	TTCCTGATGGT	TTCCTGATGGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr19:12433413_12433423delTTCCTGATGGT	ENST00000293725.5	-	2	311_321	c.106_116delACCATCAGGAA	c.(106-117)accatcaggaacfs	p.TIRN36fs	ZNF563_ENST00000595977.1_Frame_Shift_Del_p.TIRN36fs	NM_145276.2	NP_660319.1	Q8TA94	ZN563_HUMAN	zinc finger protein 563	36	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)	p.R38R(1)		breast(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(4)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	20						ACAGTCCAGGTTCCTGATGGTTTCTTGCATC	0.417																																					GBM(39;623 795 5132 29510 31476)											1	Substitution - coding silent(1)	endometrium(1)																																								SO:0001589	frameshift_variant	147837			BC022523	CCDS12270.1	19p13.2	2013-09-20			ENSG00000188868	ENSG00000188868		"Zinc fingers, C2H2-type", "-"	30498	protein-coding gene	gene with protein product							Standard	NM_145276		Approved	FLJ34797	uc002mtp.3	Q8TA94	OTTHUMG00000156413	ENST00000293725.5:c.106_116delACCATCAGGAA	19.37:g.12433413_12433423delTTCCTGATGGT	ENSP00000293725:p.Thr36fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9E7|Q8NAT7	Frame_Shift_Del	DEL	ENST00000293725.5	37	CCDS12270.1																																																																																				0.417	ZNF563-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344114.1	NM_145276		-	12433423	TTCCTGATGGT	-	12433413	7	5	663	1	0	1	0	1	0	0	0	0	18006	1725	60	0	1326	0	ZNF563	19	12433413	Frame_Shift_Del	DEL	TTCCTGATGGT	TCGA-KN-8427-01A-11D-2310-10	1778426	12433413	46695570	110	41292	392	2								
ZNF563	147837	bcgsc.ca	37	chr19	12433414	12433424	+	Frame_Shift_Del	DEL	TTCCTGATGGT	TTCCTGATGGT	-													0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cttacttatacagtccaggtTcctgatggtttcttgcatca							TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	TTCCTGATGGT	TTCCTGATGGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr19:12433414_12433424delTTCCTGATGGT	ENST00000293725.5	-	2	310_320	c.105_115delACCATCAGGAA	c.(103-117)gaaccatcaggaaacfs	p.PSGN36fs	ZNF563_ENST00000595977.1_Frame_Shift_Del_p.PSGN36fs	NM_145276.2	NP_660319.1	Q8TA94	ZN563_HUMAN	zinc finger protein 563	36	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)	p.R38R(1)		breast(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(4)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	20						CAGTCCAGGTTCCTGATGGTTTCTTGCATCA	0.417																																					GBM(39;623 795 5132 29510 31476)											1	Substitution - coding silent(1)	endometrium(1)																																								SO:0001589	frameshift_variant	147837			BC022523	CCDS12270.1	19p13.2	2013-09-20			ENSG00000188868	ENSG00000188868		"Zinc fingers, C2H2-type", "-"	30498	protein-coding gene	gene with protein product							Standard	NM_145276		Approved	FLJ34797	uc002mtp.3	Q8TA94	OTTHUMG00000156413	ENST00000293725.5:c.105_115delACCATCAGGAA	19.37:g.12433414_12433424delTTCCTGATGGT	ENSP00000293725:p.Pro36fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9E7|Q8NAT7	Frame_Shift_Del	DEL	ENST00000293725.5	37	CCDS12270.1																																																																																				0.417	ZNF563-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344114.1	NM_145276		-	12433424	TTCCTGATGGT	-	12433414	7	5	663	1	0	1	0	1	0	0	0	0	18006	1783	62	0	1327	0	ZNF563	19	12433414	Frame_Shift_Del	DEL	TTCCTGATGGT	TCGA-KN-8427-01A-11D-2310-10	1	12433414	46695569	111	41293	392	2								
ZNF799	90576	mdanderson.org	37	chr19	12502998	12502998	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	agttccatctttactttcaaCaaatctctctaacatacgac	2	12	4	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr19:12502998C>T	ENST00000430385.3	-	4	414	c.214G>A	c.(214-216)Gtt>Att	p.V72I	ZNF799_ENST00000595766.1_3'UTR|CTD-3105H18.16_ENST00000595562.1_Missense_Mutation_p.V72I|ZNF799_ENST00000419318.1_Missense_Mutation_p.V40I|CTD-3105H18.14_ENST00000435033.1_Intron	NM_001080821.2	NP_001074290.1	Q96GE5	ZN799_HUMAN	zinc finger protein 799	72	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(3)|kidney(2)|large_intestine(4)|lung(4)|ovary(2)|prostate(2)|skin(2)	19						TTACTTTCAACAAATCTCTCT	0.333																																																0													63	58	60					19																	12502998		2202	4280	6482	SO:0001583	missense	90576			BC009517	CCDS45989.1	19p13.2	2013-01-08			ENSG00000196466	ENSG00000196466		"Zinc fingers, C2H2-type", "-"	28071	protein-coding gene	gene with protein product			"zinc finger protein 842"	ZNF842			Standard	NM_001080821		Approved	HIT-40, MGC71805	uc002mts.4	Q96GE5	OTTHUMG00000156408	ENST00000430385.3:c.214G>A	19.37:g.12502998C>T	ENSP00000411084:p.Val72Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000430385.3	37	CCDS45989.1	.	.	.	.	.	.	.	.	.	.	C	1.357	-0.589722	0.03799	.	.	ENSG00000196466	ENST00000419318;ENST00000430385	T;T	0.07800	3.16;3.27	0.92	-1.84	0.07809	Krueppel-associated box (1);	.	.	.	.	T	0.03871	0.0109	N	0.12746	0.255	0.09310	N	1	B	0.17667	0.023	B	0.15052	0.012	T	0.40001	-0.9586	9	0.42905	T	0.14	.	2.6031	0.04871	0.5009:0.2585:0.0:0.2406	.	72	Q96GE5	ZN799_HUMAN	I	40;72	ENSP00000415278:V40I;ENSP00000411084:V72I	ENSP00000415278:V40I	V	-	1	0	ZNF799	12363998	0.000000	0.05858	0.000000	0.03702	0.061000	0.15899	0.148000	0.16224	-1.109000	0.02996	-0.719000	0.03609	GTT		0.333	ZNF799-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344099.2	NM_001080821		T	12502998	C	T	12502998	3	4	663	1	0	0	0	0	1	0	0	0	18178	478	17	2	1721	2	ZNF799	19	12502998	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	69584	12502998	46625985	112	41294										
PRDX2	7001	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr19	12911998	12911998	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tagtccgacagcttcacctcTttgaaggcgccatcaaccac	7	15	3	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr19:12911998T>C	ENST00000301522.2	-	2	206	c.78A>G	c.(76-78)aaA>aaG	p.K26K	CTD-2659N19.10_ENST00000585496.1_RNA|PRDX2_ENST00000334482.5_Silent_p.K26K|PRDX2_ENST00000435703.1_Silent_p.K26K	NM_005809.4	NP_005800.3	P32119	PRDX2_HUMAN	peroxiredoxin 2	26	Thioredoxin. {ECO:0000255|PROSITE- ProRule:PRU00691}.				cellular response to oxidative stress (GO:0034599)|hydrogen peroxide catabolic process (GO:0042744)|negative regulation of apoptotic process (GO:0043066)|negative regulation of neuron apoptotic process (GO:0043524)|regulation of apoptotic process (GO:0042981)|removal of superoxide radicals (GO:0019430)|response to oxidative stress (GO:0006979)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	antioxidant activity (GO:0016209)|thioredoxin peroxidase activity (GO:0008379)			endometrium(1)|large_intestine(1)|lung(1)|prostate(1)	4						GCTTCACCTCTTTGAAGGCGC	0.637																																																0													34	34	34					19																	12911998		2203	4300	6503	SO:0001819	synonymous_variant	7001				CCDS12281.1	19p13.2	2008-07-17			ENSG00000167815	ENSG00000167815			9353	protein-coding gene	gene with protein product	"thioredoxin-dependent peroxide reductase 1", "thiol-specific antioxidant 1", "natural killer-enhancing factor B", "thioredoxin peroxidase 1", "torin"	600538		TDPX1		7607688	Standard	NM_005809		Approved	PRP, NKEFB, TSA, PRXII, PRX2, MGC4104	uc002mvd.4	P32119	OTTHUMG00000134285	ENST00000301522.2:c.78A>G	19.37:g.12911998T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0C0|P31945|P32118|P35701|Q6FHG4|Q92763|Q9UC23	Silent	SNP	ENST00000301522.2	37	CCDS12281.1																																																																																				0.637	PRDX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258950.2	NM_005809		C	12911998	T	C	12911998	2	2	663	1	0	0	0	0	0	0	0	1	12475	1606	56	3		3	PRDX2	19	12911998	Silent	SNP	T	TCGA-KN-8427-01A-11D-2310-10	409000	12911998	46216985	113	41295										
CYP4F11	57834	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	16025181	16025181	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	tgatgttctcttggtcgaaaCggaaggggtcgtagacctgc	14	8	1	2	rs200410691		TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr19:16025181C>T	ENST00000402119.4	-	11	1757	c.1331G>A	c.(1330-1332)cGt>cAt	p.R444H	CYP4F11_ENST00000591841.1_Missense_Mutation_p.R119H|CYP4F11_ENST00000248041.8_Missense_Mutation_p.R444H|CYP4F11_ENST00000326742.8_Silent_p.P422P	NM_021187.3	NP_067010.3			cytochrome P450, family 4, subfamily F, polypeptide 11											NS(1)|breast(3)|endometrium(4)|large_intestine(2)|lung(11)|ovary(1)|skin(3)	25						TTGGTCGAAACGGAAGGGGTC	0.587																																																0								C	HIS/ARG,HIS/ARG	1,4405	2.1+/-5.4	0,1,2202	135	135	135		1331,1331	2.9	0.8	19		135	0,8600		0,0,4300	no	missense,missense	CYP4F11	NM_001128932.1,NM_021187.3	29,29	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging,probably-damaging	444/525,444/525	16025181	1,13005	2203	4300	6503	SO:0001583	missense	57834			AF236085	CCDS12337.1	19p13.1	2011-07-29	2003-01-14		ENSG00000171903	ENSG00000171903		"Cytochrome P450s"	13265	protein-coding gene	gene with protein product		611517	"cytochrome P450, subfamily IVF, polypeptide 11"			10964514, 9068972	Standard	NM_021187		Approved		uc002nbu.2	Q9HBI6		ENST00000402119.4:c.1331G>A	19.37:g.16025181C>T	ENSP00000384588:p.Arg444His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000402119.4	37	CCDS12337.1	.	.	.	.	.	.	.	.	.	.	c	14.69	2.611014	0.46631	2.27E-4	0.0	ENSG00000171903	ENST00000402119;ENST00000248041	D;D	0.94000	-3.33;-3.33	2.93	2.93	0.34026	.	0.000000	0.64402	U	0.000003	D	0.96731	0.8933	M	0.90483	3.12	0.58432	D	0.999999	D	0.89917	1.0	D	0.87578	0.998	D	0.96926	0.9677	10	0.87932	D	0	.	11.6202	0.51113	0.0:1.0:0.0:0.0	.	444	Q9HBI6	CP4FB_HUMAN	H	444	ENSP00000384588:R444H;ENSP00000248041:R444H	ENSP00000248041:R444H	R	-	2	0	CYP4F11	15886181	1.000000	0.71417	0.763000	0.31416	0.009000	0.06853	6.462000	0.73526	1.621000	0.50320	0.462000	0.41574	CGT		0.587	CYP4F11-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460385.2	NM_021187		T	16025181	C	T	16025181	3	4	663	1	0	0	0	0	1	0	0	0	4188	536	19	1	251	1	CYP4F11	19	16025181	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	3113183	16025181	43103802	114	41296										
UNC13A	23025	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr19	17756839	17756839	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	agatggtttttgtccgtttcTtggtcttcccgacctggacg	11	10	2	1	rs543896701		TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr19:17756839T>G	ENST00000519716.2	-	18	2125	c.2126A>C	c.(2125-2127)aAg>aCg	p.K709T	UNC13A_ENST00000551649.1_Missense_Mutation_p.K709T|UNC13A_ENST00000252773.7_Missense_Mutation_p.K709T|UNC13A_ENST00000552293.1_Missense_Mutation_p.K709T|UNC13A_ENST00000428389.2_Missense_Mutation_p.K797T|UNC13A_ENST00000550896.1_Missense_Mutation_p.K707T	NM_001080421.2	NP_001073890.2	Q9UPW8	UN13A_HUMAN	unc-13 homolog A (C. elegans)	709	C2 2. {ECO:0000255|PROSITE- ProRule:PRU00041}.				beta-amyloid metabolic process (GO:0050435)|innervation (GO:0060384)|intracellular signal transduction (GO:0035556)|neuromuscular junction development (GO:0007528)|neurotransmitter secretion (GO:0007269)|positive regulation of neurotransmitter secretion (GO:0001956)|regulation of short-term neuronal synaptic plasticity (GO:0048172)|regulation of synaptic transmission, glutamatergic (GO:0051966)|synaptic transmission, glutamatergic (GO:0035249)|synaptic vesicle docking involved in exocytosis (GO:0016081)|synaptic vesicle maturation (GO:0016188)	axon (GO:0030424)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|neuromuscular junction (GO:0031594)|neuron projection (GO:0043005)|presynaptic active zone (GO:0048786)|presynaptic membrane (GO:0042734)	diacylglycerol binding (GO:0019992)|metal ion binding (GO:0046872)|protein N-terminus binding (GO:0047485)|syntaxin-1 binding (GO:0017075)			breast(2)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(11)|lung(31)|ovary(5)|prostate(2)	61						TGTCCGTTTCTTGGTCTTCCC	0.577																																																0													85	81	83					19																	17756839		1970	4183	6153	SO:0001583	missense	23025			AB028955	CCDS46013.1, CCDS46013.2	19p13.12	2008-02-05				ENSG00000130477			23150	protein-coding gene	gene with protein product		609894					Standard	NM_001080421		Approved	KIAA1032, Munc13-1	uc031rjv.1	Q9UPW8		ENST00000519716.2:c.2126A>C	19.37:g.17756839T>G	ENSP00000429562:p.Lys709Thr	Somatic		WXS	Illumina HiSeq	Phase_I	E5RHY9	Missense_Mutation	SNP	ENST00000519716.2	37	CCDS46013.2	.	.	.	.	.	.	.	.	.	.	T	19.74	3.883115	0.72410	.	.	ENSG00000130477	ENST00000519716;ENST00000428389;ENST00000252773;ENST00000551649;ENST00000552293;ENST00000550896	T;T;T;T;T;T	0.71579	-0.58;-0.58;-0.58;-0.58;-0.58;-0.58	3.85	3.85	0.44370	C2 membrane targeting protein (1);C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);	0.000000	0.85682	U	0.000000	T	0.72558	0.3475	N	0.25031	0.7	0.53688	D	0.999976	D	0.76494	0.999	D	0.83275	0.996	T	0.75528	-0.3286	10	0.87932	D	0	-25.0588	10.8835	0.46953	0.0:0.0:0.0:1.0	.	709	Q9UPW8	UN13A_HUMAN	T	709;797;709;709;709;707	ENSP00000429562:K709T;ENSP00000400409:K797T;ENSP00000252773:K709T;ENSP00000447236:K709T;ENSP00000447572:K709T;ENSP00000446831:K707T	ENSP00000252773:K709T	K	-	2	0	UNC13A	17617839	1.000000	0.71417	1.000000	0.80357	0.952000	0.60782	7.846000	0.86887	1.526000	0.49068	0.260000	0.18958	AAG		0.577	UNC13A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000376169.2	XM_038604		G	17756839	T	G	17756839	3	3	663	1	0	0	0	0	1	0	0	0	16996	1609	56	5	3089	5	UNC13A	19	17756839	Missense_Mutation	SNP	T	TCGA-KN-8427-01A-11D-2310-10	1731658	17756839	41372144	115	41297										
ANKRD27	84079	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr19	33113433	33113433	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	atgacgccttggtagccccaGcgggcagcaatgtgtagagg	15	10	0	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr19:33113433G>T	ENST00000306065.4	-	18	1880	c.1722C>A	c.(1720-1722)cgC>cgA	p.R574R		NM_032139.2	NP_115515.2	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	574					early endosome to late endosome transport (GO:0045022)|positive regulation of GTPase activity (GO:0043547)	cytoplasm (GO:0005737)|early endosome (GO:0005769)|lysosome (GO:0005764)|membrane (GO:0016020)	GTPase activator activity (GO:0005096)|guanyl-nucleotide exchange factor activity (GO:0005085)			breast(3)|endometrium(7)|kidney(2)|large_intestine(6)|lung(15)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(2)	42	Esophageal squamous(110;0.137)					GGTAGCCCCAGCGGGCAGCAA	0.532																																																0													175	162	167					19																	33113433		2203	4300	6503	SO:0001819	synonymous_variant	84079			AK054561	CCDS32986.1	19q13.12	2013-01-10				ENSG00000105186		"Ankyrin repeat domain containing"	25310	protein-coding gene	gene with protein product	"Vps9 domain and ankyrin-repeat-containing protein"					11230166, 16525121	Standard	NM_032139		Approved	FLJ00040, DKFZp434L0718, VARP	uc002ntn.1	Q96NW4		ENST00000306065.4:c.1722C>A	19.37:g.33113433G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q71MF5|Q86UC3|Q8ND80|Q9H0I4	Silent	SNP	ENST00000306065.4	37	CCDS32986.1																																																																																				0.532	ANKRD27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450329.1	NM_032139		T	33113433	G	T	33113433	2	4	663	1	0	0	0	0	0	0	0	1	655	958	34	4		4	ANKRD27	19	33113433	Silent	SNP	G	TCGA-KN-8427-01A-11D-2310-10	15356594	33113433	26015550	116	41298										
CADM4	199731	ucsc.edu	37	chr19	44130965	44130965	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ccttgcggtcccggtaccagCgcagggtggcagccggacgg	17	14	0	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr19:44130965C>T	ENST00000222374.2	-	4	518	c.470G>A	c.(469-471)cGc>cAc	p.R157H	CADM4_ENST00000593506.1_5'Flank	NM_145296.1	NP_660339.1	Q8NFZ8	CADM4_HUMAN	cell adhesion molecule 4	157	Ig-like C2-type 1.				cell adhesion (GO:0007155)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				endometrium(2)|large_intestine(3)|lung(4)|prostate(1)|skin(2)	12		Prostate(69;0.0199)				CCGGTACCAGCGCAGGGTGGC	0.647																																																0													58	67	63					19																	44130965		2202	4298	6500	SO:0001583	missense	199731			AF363368	CCDS12627.1	19q13.32	2013-01-29	2007-02-07	2007-02-07		ENSG00000105767		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	30825	protein-coding gene	gene with protein product	"nectin-like 4"	609744	"immunoglobulin superfamily, member 4C"	IGSF4C		11536053	Standard	NM_145296		Approved	TSLL2, Necl-4, SynCAM4	uc002oxc.1	Q8NFZ8		ENST00000222374.2:c.470G>A	19.37:g.44130965C>T	ENSP00000222374:p.Arg157His	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7L5|Q9Y4A4	Missense_Mutation	SNP	ENST00000222374.2	37	CCDS12627.1	.	.	.	.	.	.	.	.	.	.	C	19.40	3.820780	0.71028	.	.	ENSG00000105767	ENST00000222374	T	0.76186	-1.0	5.48	5.48	0.80851	Immunoglobulin subtype (1);CD80-like, immunoglobulin C2-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	D	0.84880	0.5570	M	0.67625	2.065	0.52501	D	0.999958	D	0.89917	1.0	D	0.85130	0.997	D	0.84620	0.0683	10	0.46703	T	0.11	.	16.8373	0.85960	0.0:1.0:0.0:0.0	.	157	Q8NFZ8	CADM4_HUMAN	H	157	ENSP00000222374:R157H	ENSP00000222374:R157H	R	-	2	0	CADM4	48822805	1.000000	0.71417	1.000000	0.80357	0.015000	0.08874	6.171000	0.71926	2.560000	0.86352	0.591000	0.81541	CGC		0.647	CADM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463352.1	NM_145296		T	44130965	C	T	44130965	3	4	663	1	0	0	0	0	1	0	0	0	2571	768	27	1	720	1	CADM4	19	44130965	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	11017532	44130965	14998018	117	41299										
NAPA	8775	ucsc.edu	37	chr19	47991552	47991552	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ggctgggtggggcttagcgcAggtcctcctcatcgccctgg	16	13	1	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr19:47991552A>G	ENST00000263354.3	-	11	1180	c.881T>C	c.(880-882)cTg>cCg	p.L294P	NAPA-AS1_ENST00000593284.1_RNA|NAPA-AS1_ENST00000594367.1_RNA|NAPA_ENST00000595227.1_Missense_Mutation_p.L255P	NM_003827.3	NP_003818.2	P54920	SNAA_HUMAN	N-ethylmaleimide-sensitive factor attachment protein, alpha	294					apical protein localization (GO:0045176)|brain development (GO:0007420)|intra-Golgi vesicle-mediated transport (GO:0006891)|intracellular protein transport (GO:0006886)|membrane fusion (GO:0061025)|membrane organization (GO:0061024)|neuron differentiation (GO:0030182)|post-Golgi vesicle-mediated transport (GO:0006892)|regulation of synaptic vesicle priming (GO:0010807)|SNARE complex disassembly (GO:0035494)|synaptic transmission, glutamatergic (GO:0035249)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|synaptobrevin 2-SNAP-25-syntaxin-1a complex (GO:0070044)				breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(3)	11		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)		GGCTTAGCGCAGGTCCTCCTC	0.622																																					Ovarian(185;1135 2042 27703 31345 42493)											0													115	94	101					19																	47991552		2203	4300	6503	SO:0001583	missense	8775			U39412	CCDS12702.1	19q13.33	2012-08-16			ENSG00000105402	ENSG00000105402			7641	protein-coding gene	gene with protein product	"alpha SNAP"	603215				9269766	Standard	NM_003827		Approved		uc002pha.2	P54920		ENST00000263354.3:c.881T>C	19.37:g.47991552A>G	ENSP00000263354:p.Leu294Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K879|Q96IK3|Q9BVJ3	Missense_Mutation	SNP	ENST00000263354.3	37	CCDS12702.1	.	.	.	.	.	.	.	.	.	.	A	16.37	3.103146	0.56183	.	.	ENSG00000105402	ENST00000263354	T	0.49139	0.79	4.8	4.8	0.61643	.	0.000000	0.64402	D	0.000001	T	0.74711	0.3752	M	0.92880	3.355	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.81645	-0.0839	10	0.87932	D	0	-14.239	13.486	0.61366	1.0:0.0:0.0:0.0	.	294	P54920	SNAA_HUMAN	P	294	ENSP00000263354:L294P	ENSP00000263354:L294P	L	-	2	0	NAPA	52683364	1.000000	0.71417	1.000000	0.80357	0.097000	0.18754	8.750000	0.91623	2.015000	0.59207	0.533000	0.62120	CTG		0.622	NAPA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466048.2	NM_003827		G	47991552	A	G	47991552	3	3	663	1	0	0	0	0	1	0	0	0	10168	188	7	3	10	3	NAPA	19	47991552	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10	3860587	47991552	11137431	118	41300										
ZNF667	63934	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	56952705	56952705	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cattcattacattcatagggTttctctccagtatgacttct	5	10	4	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr19:56952705T>C	ENST00000504904.3	-	7	2378	c.1659A>G	c.(1657-1659)aaA>aaG	p.K553K	ZNF667_ENST00000591790.1_3'UTR|ZNF667_ENST00000342634.3_Silent_p.K681K|ZNF667_ENST00000292069.6_Silent_p.K553K			Q5HYK9	ZN667_HUMAN	zinc finger protein 667	553					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(11)|lung(18)|pancreas(1)|skin(1)|upper_aerodigestive_tract(3)	38		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		ATTCATAGGGTTTCTCTCCAG	0.408																																																0													102	95	97					19																	56952705		2203	4300	6503	SO:0001819	synonymous_variant	63934				CCDS12944.1	19q13.43	2013-01-08				ENSG00000198046		"Zinc fingers, C2H2-type", "-"	28854	protein-coding gene	gene with protein product		611024					Standard	NM_022103		Approved	FLJ14011	uc002qnd.3	Q5HYK9		ENST00000504904.3:c.1659A>G	19.37:g.56952705T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RMS6|B9EK36|Q6B093|Q9H807	Silent	SNP	ENST00000504904.3	37	CCDS12944.1																																																																																				0.408	ZNF667-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458394.1	NM_022103		C	56952705	T	C	56952705	2	2	663	1	0	0	0	0	0	0	0	1	18086	1722	60	3		3	ZNF667	19	56952705	Silent	SNP	T	TCGA-KN-8427-01A-11D-2310-10	8961153	56952705	2176278	119	41301										
DDRGK1	65992	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr20	3172425	3172425	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gcttacctgagtgcgtaggcCcacctgggaagccaggtctt	13	12	1	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr20:3172425C>A	ENST00000354488.3	-	7	772	c.715G>T	c.(715-717)Ggc>Tgc	p.G239C	DDRGK1_ENST00000496781.1_5'Flank|DDRGK1_ENST00000380201.2_Missense_Mutation_p.G239C	NM_023935.1	NP_076424.1	Q96HY6	DDRGK_HUMAN	DDRGK domain containing 1	239	PCI.					endoplasmic reticulum (GO:0005783)				endometrium(1)|kidney(1)|large_intestine(1)|lung(1)|skin(2)|urinary_tract(1)	7						GTGCGTAGGCCCACCTGGGAA	0.547																																																0													56	43	48					20																	3172425		2202	4300	6502	SO:0001583	missense	65992			AL121891	CCDS13050.1	20p13	2011-08-18	2008-10-03	2008-10-03	ENSG00000198171	ENSG00000198171			16110	protein-coding gene	gene with protein product	"Dashurin"		"chromosome 20 open reading frame 116"	C20orf116		20036718, 20228063, 21494687	Standard	NM_023935		Approved	dJ1187M17.3	uc002wic.3	Q96HY6	OTTHUMG00000031732	ENST00000354488.3:c.715G>T	20.37:g.3172425C>A	ENSP00000346483:p.Gly239Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NIU5|C9JSZ5|Q9BW47	Missense_Mutation	SNP	ENST00000354488.3	37	CCDS13050.1	.	.	.	.	.	.	.	.	.	.	C	21.3	4.136183	0.77662	.	.	ENSG00000198171	ENST00000354488;ENST00000380213;ENST00000380201	T	0.52754	0.65	4.99	4.99	0.66335	Winged helix-turn-helix transcription repressor DNA-binding (1);	0.000000	0.85682	D	0.000000	T	0.71962	0.3402	M	0.86178	2.8	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.77376	-0.2611	10	0.72032	D	0.01	-14.2679	15.7693	0.78152	0.0:1.0:0.0:0.0	.	239	Q96HY6	DDRGK_HUMAN	C	239	ENSP00000346483:G239C	ENSP00000346483:G239C	G	-	1	0	DDRGK1	3120425	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	5.054000	0.64275	2.332000	0.79248	0.591000	0.81541	GGC		0.547	DDRGK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077709.2	NM_023935		A	3172425	C	A	3172425	3	1	663	1	0	0	0	0	1	0	0	0	4340	623	22	4	241	4	DDRGK1	20	3172425	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10		3172425	59853095	120	41302										
WISP2	8839	mdanderson.org	37	chr20	43348735	43348735	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cccggggcaggacccggtggCcggggggccctgtgcctctg	19	15	1	0	rs2296530	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr20:43348735C>A	ENST00000372868.2	+	3	601	c.258C>A	c.(256-258)ggC>ggA	p.G86G	RP11-445H22.4_ENST00000427598.1_RNA|RP11-445H22.4_ENST00000445420.1_RNA|RP11-445H22.4_ENST00000427303.1_RNA|WISP2_ENST00000372865.4_Silent_p.G86G|WISP2_ENST00000190983.4_Silent_p.G86G			O76076	WISP2_HUMAN	WNT1 inducible signaling pathway protein 2	86	IGFBP N-terminal. {ECO:0000255|PROSITE- ProRule:PRU00653}.				cell adhesion (GO:0007155)|cell-cell signaling (GO:0007267)|regulation of cell growth (GO:0001558)|signal transduction (GO:0007165)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)				skin(1)	1		Myeloproliferative disorder(115;0.0122)				GACCCGGTGGCCGGGGGGCCC	0.706													C|||	1984	0.396166	0.4803	0.4452	5008	,	,		15685	0.3909		0.339	False		,,,				2504	0.3119															0								C		1905,2317		492,921,698	5	5	5		258	5.5	0.1	20	dbSNP_100	5	2588,5598		519,1550,2024	no	coding-synonymous	WISP2	NM_003881.2		1011,2471,2722	AA,AC,CC		31.615,45.1208,36.2105		86/251	43348735	4493,7915	2111	4093	6204	SO:0001819	synonymous_variant	8839			AF100780	CCDS13336.1	20q13.12	2007-05-14			ENSG00000064205	ENSG00000064205			12770	protein-coding gene	gene with protein product		603399				9843955	Standard	NM_003881		Approved	CT58, CTGF-L, CCN5	uc002xmp.3	O76076	OTTHUMG00000033071	ENST00000372868.2:c.258C>A	20.37:g.43348735C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9N4|E1P612|Q6PEG3	Silent	SNP	ENST00000372868.2	37	CCDS13336.1																																																																																				0.706	WISP2-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000127824.1	NM_003881		A	43348735	C	A	43348735	2	1	663	1	0	0	0	0	0	0	0	1	17385	726	26	4		4	WISP2	20	43348735	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10	40176310	43348735	19676785	121	41303										
DIDO1	11083	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr20	61525220	61525220	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gcttggagcggtcctggggtCccggccggacactgtgacgg	18	12	0	1			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr20:61525220C>A	ENST00000266070.4	-	12	3224	c.2899G>T	c.(2899-2901)Gac>Tac	p.D967Y	DIDO1_ENST00000395335.2_Missense_Mutation_p.D967Y|DIDO1_ENST00000395340.1_Missense_Mutation_p.D967Y|DIDO1_ENST00000395343.1_Missense_Mutation_p.D967Y	NM_033081.2	NP_149072.2	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1	967					apoptotic signaling pathway (GO:0097190)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			NS(6)|breast(5)|central_nervous_system(1)|cervix(3)|endometrium(6)|kidney(1)|large_intestine(17)|lung(39)|ovary(8)|prostate(3)|skin(7)|stomach(2)|upper_aerodigestive_tract(1)	99	Breast(26;5.68e-08)					GTCCTGGGGTCCCGGCCGGAC	0.677																																					Melanoma(25;381 482 3385 5362 7955 17159 17174 40604 47095)											0													63	61	62					20																	61525220		2203	4300	6503	SO:0001583	missense	11083			AB002331	CCDS13508.2, CCDS13509.1, CCDS33506.1	20q13.33	2013-01-28	2005-11-11	2005-11-11	ENSG00000101191	ENSG00000101191		"Zinc fingers, PHD-type"	2680	protein-coding gene	gene with protein product		604140	"chromosome 20 open reading frame 158", "death associated transcription factor 1"	C20orf158, DATF1		10393935	Standard	NM_033081		Approved	DIO1, dJ885L7.8, FLJ11265, KIAA0333, DIO-1, BYE1	uc002ydr.2	Q9BTC0	OTTHUMG00000032945	ENST00000266070.4:c.2899G>T	20.37:g.61525220C>A	ENSP00000266070:p.Asp967Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A8MY65|B9EH82|E1P5I1|O15043|Q3ZTL7|Q3ZTL8|Q4VXS1|Q4VXS2|Q4VXV8|Q4VXV9|Q96D72|Q9BQW0|Q9BW03|Q9H4G6|Q9H4G7|Q9NTU8|Q9NUM8|Q9UFB6	Missense_Mutation	SNP	ENST00000266070.4	37	CCDS33506.1	.	.	.	.	.	.	.	.	.	.	C	28.5	4.923538	0.92319	.	.	ENSG00000101191	ENST00000266070;ENST00000395343;ENST00000395340;ENST00000395335	T;T;T;T	0.45668	1.91;1.91;0.89;0.89	6.17	6.17	0.99709	.	0.000000	0.44902	D	0.000420	T	0.67487	0.2898	M	0.72894	2.215	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.999	T	0.66705	-0.5856	10	0.87932	D	0	-55.9966	20.8794	0.99867	0.0:1.0:0.0:0.0	.	967;967	Q9BTC0-1;Q9BTC0	.;DIDO1_HUMAN	Y	967	ENSP00000266070:D967Y;ENSP00000378752:D967Y;ENSP00000378749:D967Y;ENSP00000378744:D967Y	ENSP00000266070:D967Y	D	-	1	0	DIDO1	60995665	1.000000	0.71417	0.997000	0.53966	0.949000	0.60115	6.112000	0.71547	2.941000	0.99782	0.655000	0.94253	GAC		0.677	DIDO1-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000080091.2	NM_080796		A	61525220	C	A	61525220	3	1	663	1	0	0	0	0	1	0	0	0	4524	855	30	4	3872	4	DIDO1	20	61525220	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10	18176485	61525220	1500300	122	41304										
PFKL	5211	hgsc.bcm.edu	37	chr21	45744402	45744402	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	ccgcatcaaacagtctgcctCggggaccaagcgccgtgtgt	12	14	2	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr21:45744402C>T	ENST00000349048.4	+	17	1734	c.1679C>T	c.(1678-1680)tCg>tTg	p.S560L	PFKL_ENST00000403390.1_Missense_Mutation_p.S607L	NM_002626.4	NP_002617.3	P17858	PFKAL_HUMAN	phosphofructokinase, liver	560	C-terminal regulatory PFK domain 2.				carbohydrate metabolic process (GO:0005975)|carbohydrate phosphorylation (GO:0046835)|fructose 1,6-bisphosphate metabolic process (GO:0030388)|fructose 6-phosphate metabolic process (GO:0006002)|glucose metabolic process (GO:0006006)|glycolytic process (GO:0006096)|negative regulation of insulin secretion (GO:0046676)|protein homotetramerization (GO:0051289)|protein oligomerization (GO:0051259)|response to glucose (GO:0009749)|small molecule metabolic process (GO:0044281)	6-phosphofructokinase complex (GO:0005945)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	6-phosphofructokinase activity (GO:0003872)|ATP binding (GO:0005524)|fructose binding (GO:0070061)|fructose-6-phosphate binding (GO:0070095)|identical protein binding (GO:0042802)|kinase binding (GO:0019900)|metal ion binding (GO:0046872)	p.S607L(1)		cervix(1)|endometrium(1)|kidney(2)|large_intestine(1)|lung(10)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	23				Colorectal(79;0.0811)		CAGTCTGCCTCGGGGACCAAG	0.667																																																1	Substitution - Missense(1)	skin(1)											69	64	66					21																	45744402		2202	4300	6502	SO:0001583	missense	5211				CCDS33582.1	21q22.3	1992-12-17			ENSG00000141959	ENSG00000141959	2.7.1.11		8876	protein-coding gene	gene with protein product		171860					Standard	NR_024108		Approved		uc002zel.3	P17858	OTTHUMG00000086910	ENST00000349048.4:c.1679C>T	21.37:g.45744402C>T	ENSP00000269848:p.Ser560Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q96A64|Q96IH4|Q9BR91	Missense_Mutation	SNP	ENST00000349048.4	37	CCDS33582.1	.	.	.	.	.	.	.	.	.	.	C	13.59	2.282805	0.40394	.	.	ENSG00000141959	ENST00000349048;ENST00000534847;ENST00000403390	T;T	0.77750	-1.12;-1.12	4.1	4.1	0.47936	Phosphofructokinase domain (2);	0.000000	0.85682	D	0.000000	D	0.84790	0.5550	M	0.79805	2.47	0.46823	D	0.999219	B;D	0.60575	0.034;0.988	B;P	0.59171	0.023;0.853	D	0.85581	0.1240	10	0.48119	T	0.1	-12.4209	11.2359	0.48940	0.0:0.8136:0.1864:0.0	.	560;607	P17858;P17858-2	K6PL_HUMAN;.	L	560;353;607	ENSP00000269848:S560L;ENSP00000384038:S607L	ENSP00000269848:S560L	S	+	2	0	PFKL	44568830	0.753000	0.28349	0.971000	0.41717	0.412000	0.31113	2.861000	0.48380	1.852000	0.53769	0.467000	0.42956	TCG		0.667	PFKL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195805.1			T	45744402	C	T	45744402	3	4	663	1	0	0	0	0	1	0	0	0	11771	893	31	1	1745	1	PFKL	21	45744402	Missense_Mutation	SNP	C	TCGA-KN-8427-01A-11D-2310-10		45744402	2385493	123	41305										
TTLL12	23170	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr22	43565506	43565506	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gtgtgcaggacaggaattacCtggacgtccgtccagggaaa	14	9	0	0			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr22:43565506C>T	ENST00000216129.6	-	12	1707	c.1644G>A	c.(1642-1644)caG>caA	p.Q548Q	TTLL12_ENST00000494035.1_5'UTR	NM_015140.3	NP_055955.1	Q14166	TTL12_HUMAN	tubulin tyrosine ligase-like family, member 12	548	TTL. {ECO:0000255|PROSITE- ProRule:PRU00568}.				cellular protein modification process (GO:0006464)					central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(7)|ovary(2)|prostate(1)	13		Ovarian(80;0.221)|Glioma(61;0.222)				CAGGAATTACCTGGACGTCCG	0.622																																																0													50	43	45					22																	43565506		2202	4299	6501	SO:0001630	splice_region_variant	23170			D63487	CCDS14047.1	22q13.31	2013-02-14	2006-02-02		ENSG00000100304	ENSG00000100304		"Tubulin tyrosine ligase-like family"	28974	protein-coding gene	gene with protein product						15890843	Standard	NM_015140		Approved	KIAA0153	uc003bdp.3	Q14166	OTTHUMG00000150682	ENST00000216129.6:c.1644+1G>A	22.37:g.43565506C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q20WK5|Q9UGU3	Silent	SNP	ENST00000216129.6	37	CCDS14047.1																																																																																				0.622	TTLL12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319611.1	NM_015140	Silent	T	43565506	C	T	43565506	5	4	663	1	0	0	0	0	0	0	1	0	16737	695	24	2	302	2	TTLL12	22	43565506	Splice_Site	SNP	C	TCGA-KN-8427-01A-11D-2310-10		43565506	7739060	124	41306										
PRR5	55615	mdanderson.org	37	chr22	45132785	45132785	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gagggcgcggcggccggcggTaccagcatccgcaggcactc	17	15	0	0	rs6006865	byFrequency	TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chr22:45132785T>C	ENST00000336985.6	+	8	1102	c.825T>C	c.(823-825)ggT>ggC	p.G275G	PRR5_ENST00000477331.1_3'UTR|PRR5_ENST00000403581.1_Silent_p.G298G|PRR5-ARHGAP8_ENST00000352766.7_Intron|ARHGAP8_ENST00000389773.5_Intron|PRR5-ARHGAP8_ENST00000361473.5_Intron|ARHGAP8_ENST00000517296.3_Intron|PRR5_ENST00000006251.7_Silent_p.G266G	NM_181333.3	NP_851850.1	P85299	PRR5_HUMAN	proline rich 5 (renal)	275					cell cycle (GO:0007049)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein phosphorylation (GO:0001934)	TORC2 complex (GO:0031932)				central_nervous_system(1)|endometrium(2)|lung(6)|prostate(1)|skin(1)	11		all_neural(38;0.00409)|Ovarian(80;0.024)|Glioma(61;0.0647)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)		CGGCCGGCGGTACCAGCATCC	0.697													C|||	362	0.0722843	0.084	0.1167	5008	,	,		12728	0.0704		0.0308	False		,,,				2504	0.0695															0								C	,,,,,,	319,4049		6,307,1871	17	21	20		798,540,540,894,798,825,	4.4	0	22	dbSNP_114	20	249,8303		5,239,4032	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,intron	PRR5,PRR5-ARHGAP8	NM_001017528.2,NM_001017529.2,NM_001017530.1,NM_001198721.1,NM_015366.3,NM_181333.3,NM_181334.4	,,,,,,	11,546,5903	CC,CT,TT		2.9116,7.3031,4.3963	,,,,,,	266/380,180/294,180/294,298/412,266/380,275/389,	45132785	568,12352	2184	4276	6460	SO:0001819	synonymous_variant	55615			AF177331	CCDS14058.1, CCDS14059.1, CCDS56232.1, CCDS74875.1	22q13.3	2011-02-10			ENSG00000186654	ENSG00000186654			31682	protein-coding gene	gene with protein product	"protein observed with Rictor-1"	609406				15718101, 17599906	Standard	NM_001017528		Approved	PP610, FLJ20185k, Protor-1		P85299	OTTHUMG00000150460	ENST00000336985.6:c.825T>C	22.37:g.45132785T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B1AHF6|B1AHG5|B3KP73|O75983|O95695|Q5BIW2|Q5EAJ8|Q5EAJ9|Q5XKJ6|Q96RW1|Q96RW2|Q9HA49|Q9HC46|Q9NSG0|Q9NVX8|Q9NXL1|Q9UH20	Silent	SNP	ENST00000336985.6	37	CCDS14058.1	121	0.0554029304029304	32	0.06504065040650407	33	0.09116022099447514	37	0.06468531468531469	19	0.025065963060686015	C	2.996	-0.207184	0.06180	0.073031	0.029116	ENSG00000186654	ENST00000455389	.	.	.	5.41	4.39	0.52855	.	.	.	.	.	T	0.03520	0.0101	.	.	.	0.27874	P	0.9399136	.	.	.	.	.	.	T	0.34850	-0.9812	3	.	.	.	.	10.4463	0.44497	0.0:0.6788:0.2508:0.0704	rs6006865	.	.	.	A	235	.	.	V	+	2	0	PRR5	43511449	0.001000	0.12720	0.003000	0.11579	0.090000	0.18270	-0.032000	0.12266	0.672000	0.31204	-0.642000	0.03964	GTA		0.697	PRR5-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318200.2	NM_001017528		C	45132785	T	C	45132785	2	2	663	1	0	0	0	0	0	0	0	1	12610	1625	57	3		3	PRR5	22	45132785	Silent	SNP	T	TCGA-KN-8427-01A-11D-2310-10	1567279	45132785	6171781	125	41307										
XPNPEP2	7512	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chrX	128886303	128886303	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	agctataccatgtatgggatCtatgaaatgatacccaaggt	9	7	1	2			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chrX:128886303C>T	ENST00000371106.3	+	10	1191	c.999C>T	c.(997-999)atC>atT	p.I333I		NM_003399.5	NP_003390.4	O43895	XPP2_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 2, membrane-bound	333						anchored component of membrane (GO:0031225)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|plasma membrane (GO:0005886)	aminopeptidase activity (GO:0004177)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)			endometrium(3)|kidney(3)|large_intestine(5)|liver(1)|lung(20)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)	37						TGTATGGGATCTATGAAATGA	0.512																																																0													121	100	107					X																	128886303		2203	4299	6502	SO:0001819	synonymous_variant	7512			U90724	CCDS14613.1	Xq25	2008-02-05			ENSG00000122121	ENSG00000122121	3.4.11.9		12823	protein-coding gene	gene with protein product		300145				9375790, 9628831	Standard	NM_003399		Approved		uc004eut.1	O43895	OTTHUMG00000022373	ENST00000371106.3:c.999C>T	X.37:g.128886303C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0AV16|O75994	Silent	SNP	ENST00000371106.3	37	CCDS14613.1																																																																																				0.512	XPNPEP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058210.1	NM_003399		T	128886303	C	T	128886303	2	4	663	1	0	0	0	0	0	0	0	1	17455	903	32	2		2	XPNPEP2	23	128886303	Silent	SNP	C	TCGA-KN-8427-01A-11D-2310-10		128886303	26384257	126	41308										
GPR101	83550	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	136112626	136112626	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	gcacataggagaaaatgatgAtgaagatcactttagcagct	10	6	1	5			TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chrX:136112626A>G	ENST00000298110.1	-	1	1207	c.1208T>C	c.(1207-1209)aTc>aCc	p.I403T		NM_054021.1	NP_473362.1	Q96P66	GP101_HUMAN	G protein-coupled receptor 101	403						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	G-protein coupled receptor activity (GO:0004930)			autonomic_ganglia(1)|endometrium(5)|kidney(2)|large_intestine(11)|lung(18)|ovary(3)|skin(1)|urinary_tract(1)	42	Acute lymphoblastic leukemia(192;0.000127)					GAAAATGATGATGAAGATCAC	0.552																																																0													118	108	112					X																	136112626		2203	4300	6503	SO:0001583	missense	83550			AF411115	CCDS14662.1	Xq26.3	2014-01-30			ENSG00000165370	ENSG00000165370		"GPCR / Class A : Orphans"	14963	protein-coding gene	gene with protein product		300393				11574155	Standard	NM_054021		Approved		uc011mwh.2	Q96P66	OTTHUMG00000022521	ENST00000298110.1:c.1208T>C	X.37:g.136112626A>G	ENSP00000298110:p.Ile403Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JSM8|Q8NG93	Missense_Mutation	SNP	ENST00000298110.1	37	CCDS14662.1	.	.	.	.	.	.	.	.	.	.	A	13.28	2.189604	0.38707	.	.	ENSG00000165370	ENST00000298110	T	0.39406	1.08	5.77	5.77	0.91146	GPCR, rhodopsin-like superfamily (1);	0.916112	0.08872	N	0.881448	T	0.33789	0.0875	L	0.34521	1.04	0.29580	N	0.849237	B	0.32010	0.351	B	0.30943	0.122	T	0.32375	-0.9909	10	0.56958	D	0.05	-10.9714	7.6287	0.28226	0.9061:0.0:0.0939:0.0	.	403	Q96P66	GP101_HUMAN	T	403	ENSP00000298110:I403T	ENSP00000298110:I403T	I	-	2	0	GPR101	135940292	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	3.618000	0.54188	1.950000	0.56595	0.430000	0.28490	ATC		0.552	GPR101-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058519.1			G	136112626	A	G	136112626	3	3	663	1	0	0	0	0	1	0	0	0	6629	333	12	3	321	3	GPR101	23	136112626	Missense_Mutation	SNP	A	TCGA-KN-8427-01A-11D-2310-10	7226323	136112626	19157934	127	41309										
ABCD1	215	mdanderson.org	37	chrX	153006092	153006093	+	Nonsense_Mutation	DNP	CA	CA	TG													0.0819672131147541	10	1	1.55051092210732	1.71525270758123	1.48921165309378	0.213756898640463	1	0	cggactcagtggaggacatgCaaaggaagggctactcggag					rs201878013|rs201114595		TCGA-KN-8427-01A-11D-2310-10	TCGA-KN-8427-11A-01D-2311-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	07e0e938-f61f-477a-92a2-5b7e74b78943	8c9e2ce1-0c90-49e7-a0ea-0ac0efcb7f6b	g.chrX:153006092_153006093CA>TG	ENST00000218104.3	+	7	2098_2099	c.1699_1700CA>TG	c.(1699-1701)CAa>TGa	p.Q567*	U52111.14_ENST00000434284.1_RNA	NM_000033.3	NP_000024.2	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member 1	567	ABC transporter. {ECO:0000255|PROSITE- ProRule:PRU00434}.				alpha-linolenic acid metabolic process (GO:0036109)|ATP catabolic process (GO:0006200)|cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation (GO:0006635)|fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)|linoleic acid metabolic process (GO:0043651)|long-chain fatty acid catabolic process (GO:0042758)|peroxisomal long-chain fatty acid import (GO:0015910)|peroxisomal membrane transport (GO:0015919)|peroxisome organization (GO:0007031)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|unsaturated fatty acid metabolic process (GO:0033559)|very long-chain fatty acid catabolic process (GO:0042760)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|integral component of peroxisomal membrane (GO:0005779)|membrane (GO:0016020)|mitochondrion (GO:0005739)|perinuclear region of cytoplasm (GO:0048471)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|peroxisomal fatty-acyl-CoA transporter activity (GO:0005325)|protein homodimerization activity (GO:0042803)|transporter activity (GO:0005215)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(6)|urinary_tract(2)	18	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGAGGACATGCAAAGGAAGGGC	0.644																																																0			GRCh37	CM050985	ABCD1	M																																				SO:0001587	stop_gained	215			Z21876	CCDS14728.1	Xq28	2012-03-14			ENSG00000101986	ENSG00000101986		"ATP binding cassette transporters / subfamily D"	61	protein-coding gene	gene with protein product		300371		ALD		8441467, 6795626	Standard	NM_000033		Approved	AMN, ALDP, adrenoleukodystrophy	uc004fif.2	P33897	OTTHUMG00000024215	Exception_encountered	X.37:g.153006092_153006093delinsTG	ENSP00000218104:p.Gln567*	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GTZ2	Missense_Mutation	DNP	ENST00000218104.3	37	CCDS14728.1																																																																																				0.644	ABCD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000061041.1	NM_000033		TG	153006093	CA	TG	153006092	4	4	663	1	0	0	0	0	0	1	0	0	60	711	25	2	1725	2	ABCD1	23	153006092	Nonsense_Mutation	DNP	CA	TCGA-KN-8427-01A-11D-2310-10	16893466	153006092	2264468	128	41310										
HES4	57801	broad.mit.edu;mdanderson.org	37	chr1	934923	934923	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cacccgtcacctgcacgcgaCgcaggctccgcaggtgtctc	11	18	2	0	rs372013830		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:934923C>T	ENST00000304952.6	-	3	412	c.275G>A	c.(274-276)cGt>cAt	p.R92H	HES4_ENST00000484667.2_Missense_Mutation_p.R60H|RP11-54O7.17_ENST00000606034.1_lincRNA|HES4_ENST00000428771.2_Missense_Mutation_p.R118H			Q9HCC6	HES4_HUMAN	hes family bHLH transcription factor 4	92					cell differentiation (GO:0030154)|nervous system development (GO:0007399)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|transcription factor binding (GO:0008134)			lung(2)	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;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;9.36e-38)|OV - Ovarian serous cystadenocarcinoma(86;4.41e-23)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00237)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CTGCACGCGACGCAGGCTCCG	0.736																																																0								C	HIS/ARG,HIS/ARG	1,4227		0,1,2113	9	11	11		353,275	-1.2	0.1	1		11	0,8430		0,0,4215	no	missense,missense	HES4	NM_001142467.1,NM_021170.3	29,29	0,1,6328	TT,TC,CC		0.0,0.0237,0.0079	probably-damaging,probably-damaging	118/248,92/222	934923	1,12657	2114	4215	6329	SO:0001583	missense	57801			BC012351	CCDS5.1, CCDS44034.1	1p36	2013-10-17	2013-10-17		ENSG00000188290	ENSG00000188290		"Basic helix-loop-helix proteins"	24149	protein-coding gene	gene with protein product		608060	"hairy and enhancer of split 4 (Drosophila)"			11260262, 15254753	Standard	NM_021170		Approved	bHLHb42	uc001aci.2	Q9HCC6	OTTHUMG00000040758	ENST00000304952.6:c.275G>A	1.37:g.934923C>T	ENSP00000304595:p.Arg92His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SVA5	Missense_Mutation	SNP	ENST00000304952.6	37	CCDS5.1	.	.	.	.	.	.	.	.	.	.	C	15.36	2.811275	0.50527	2.37E-4	0.0	ENSG00000188290	ENST00000428771;ENST00000304952;ENST00000484667	D;D;T	0.97642	-4.47;-4.47;1.49	3.29	-1.18	0.09617	Helix-loop-helix DNA-binding (4);	0.530450	0.14196	U	0.335030	D	0.92047	0.7480	N	0.25485	0.75	0.33046	D	0.532084	B;P	0.34837	0.226;0.472	B;B	0.34824	0.058;0.19	D	0.88177	0.2868	10	0.48119	T	0.1	.	8.16	0.31194	0.0:0.2009:0.0:0.7991	.	118;92	E9PB28;Q9HCC6	.;HES4_HUMAN	H	118;92;60	ENSP00000393198:R118H;ENSP00000304595:R92H;ENSP00000425085:R60H	ENSP00000304595:R92H	R	-	2	0	HES4	924786	1.000000	0.71417	0.051000	0.19133	0.875000	0.50365	1.671000	0.37513	-0.096000	0.12329	0.407000	0.27541	CGT		0.736	HES4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097944.1	NM_021170		T	934923	C	T	934923	3	4	664	1	0	0	0	0	1	0	0	0	7075	536	19	1	398	1	HES4	1	934923	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10		934923	248315698	1	41311										
AGRN	375790	broad.mit.edu	37	chr1	978746	978746	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tacgatcctgtgtgcggcagCgacggcgtcacatacggcag	14	12	1	0	rs527601442		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:978746C>T	ENST00000379370.2	+	8	1562	c.1512C>T	c.(1510-1512)agC>agT	p.S504S		NM_198576.3	NP_940978.2	O00468	AGRIN_HUMAN	agrin	504	Kazal-like 5. {ECO:0000255|PROSITE- ProRule:PRU00798}.				axon guidance (GO:0007411)|carbohydrate metabolic process (GO:0005975)|chondroitin sulfate metabolic process (GO:0030204)|clustering of voltage-gated sodium channels (GO:0045162)|extracellular matrix organization (GO:0030198)|G-protein coupled acetylcholine receptor signaling pathway (GO:0007213)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|neuromuscular junction development (GO:0007528)|neurotransmitter receptor metabolic process (GO:0045213)|phototransduction, visible light (GO:0007603)|plasma membrane organization (GO:0007009)|positive regulation of filopodium assembly (GO:0051491)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of synaptic growth at neuromuscular junction (GO:0045887)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|receptor clustering (GO:0043113)|retinoid metabolic process (GO:0001523)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synapse organization (GO:0050808)	basal lamina (GO:0005605)|cell junction (GO:0030054)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|lysosomal lumen (GO:0043202)|plasma membrane (GO:0005886)|synapse (GO:0045202)	acetylcholine receptor regulator activity (GO:0030548)|calcium ion binding (GO:0005509)|chondroitin sulfate binding (GO:0035374)|dystroglycan binding (GO:0002162)|heparan sulfate proteoglycan binding (GO:0043395)|laminin binding (GO:0043236)|sialic acid binding (GO:0033691)|structural constituent of cytoskeleton (GO:0005200)			breast(1)|central_nervous_system(2)|endometrium(8)|kidney(3)|large_intestine(2)|lung(20)|ovary(1)|prostate(1)|skin(3)|urinary_tract(1)	42	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		TGTGCGGCAGCGACGGCGTCA	0.662													C|||	1	0.000199681	0.0	0.0	5008	,	,		14876	0.0		0.0	False		,,,				2504	0.001															0													62	51	54					1																	978746		2198	4296	6494	SO:0001819	synonymous_variant	375790			XM_372195	CCDS30551.1	1p36.33	2014-09-17		2007-02-16	ENSG00000188157	ENSG00000188157		"Proteoglycans / Extracellular Matrix : Other"	329	protein-coding gene	gene with protein product	"agrin proteoglycan"	103320				1851019, 12270958	Standard	NM_198576		Approved	AGRIN	uc001ack.2	O00468	OTTHUMG00000040778	ENST00000379370.2:c.1512C>T	1.37:g.978746C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SVA1|Q5SVA2|Q60FE1|Q7KYS8|Q8N4J5|Q96IC1|Q9BTD4	Silent	SNP	ENST00000379370.2	37	CCDS30551.1																																																																																				0.662	AGRN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097990.2	NM_198576		T	978746	C	T	978746	2	4	664	1	0	0	0	0	0	0	0	1	397	767	27	1		1	AGRN	1	978746	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	43823	978746	248271875	2	41312										
AGRN	375790	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	985016	985016	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgctggacgtcaacaaccagCgcctggagcttggcattggg	14	11	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:985016C>T	ENST00000379370.2	+	26	4635	c.4585C>T	c.(4585-4587)Cgc>Tgc	p.R1529C		NM_198576.3	NP_940978.2	O00468	AGRIN_HUMAN	agrin	1529	Laminin G-like 1. {ECO:0000255|PROSITE- ProRule:PRU00122}.				axon guidance (GO:0007411)|carbohydrate metabolic process (GO:0005975)|chondroitin sulfate metabolic process (GO:0030204)|clustering of voltage-gated sodium channels (GO:0045162)|extracellular matrix organization (GO:0030198)|G-protein coupled acetylcholine receptor signaling pathway (GO:0007213)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|neuromuscular junction development (GO:0007528)|neurotransmitter receptor metabolic process (GO:0045213)|phototransduction, visible light (GO:0007603)|plasma membrane organization (GO:0007009)|positive regulation of filopodium assembly (GO:0051491)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of synaptic growth at neuromuscular junction (GO:0045887)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|receptor clustering (GO:0043113)|retinoid metabolic process (GO:0001523)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synapse organization (GO:0050808)	basal lamina (GO:0005605)|cell junction (GO:0030054)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|lysosomal lumen (GO:0043202)|plasma membrane (GO:0005886)|synapse (GO:0045202)	acetylcholine receptor regulator activity (GO:0030548)|calcium ion binding (GO:0005509)|chondroitin sulfate binding (GO:0035374)|dystroglycan binding (GO:0002162)|heparan sulfate proteoglycan binding (GO:0043395)|laminin binding (GO:0043236)|sialic acid binding (GO:0033691)|structural constituent of cytoskeleton (GO:0005200)			breast(1)|central_nervous_system(2)|endometrium(8)|kidney(3)|large_intestine(2)|lung(20)|ovary(1)|prostate(1)|skin(3)|urinary_tract(1)	42	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		CAACAACCAGCGCCTGGAGCT	0.731																																																0													12	16	14					1																	985016		2180	4279	6459	SO:0001583	missense	375790			XM_372195	CCDS30551.1	1p36.33	2014-09-17		2007-02-16	ENSG00000188157	ENSG00000188157		"Proteoglycans / Extracellular Matrix : Other"	329	protein-coding gene	gene with protein product	"agrin proteoglycan"	103320				1851019, 12270958	Standard	NM_198576		Approved	AGRIN	uc001ack.2	O00468	OTTHUMG00000040778	ENST00000379370.2:c.4585C>T	1.37:g.985016C>T	ENSP00000368678:p.Arg1529Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SVA1|Q5SVA2|Q60FE1|Q7KYS8|Q8N4J5|Q96IC1|Q9BTD4	Missense_Mutation	SNP	ENST00000379370.2	37	CCDS30551.1	.	.	.	.	.	.	.	.	.	.	c	11.61	1.689710	0.29962	.	.	ENSG00000188157	ENST00000379370	T	0.75938	-0.98	4.34	2.3	0.28687	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (1);Laminin G, subdomain 1 (1);	1.296030	0.05695	U	0.593034	T	0.68320	0.2988	L	0.42245	1.32	0.09310	N	1	P	0.43431	0.807	B	0.41088	0.347	T	0.60910	-0.7169	10	0.51188	T	0.08	-6.052	8.2735	0.31857	0.2411:0.63:0.1289:0.0	.	1529	O00468	AGRIN_HUMAN	C	1529	ENSP00000368678:R1529C	ENSP00000368678:R1529C	R	+	1	0	AGRN	974879	0.006000	0.16342	0.917000	0.36280	0.023000	0.10783	0.566000	0.23593	2.145000	0.66743	0.298000	0.19748	CGC		0.731	AGRN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097990.2	NM_198576		T	985016	C	T	985016	3	4	664	1	0	0	0	0	1	0	0	0	397	768	27	1	4687	1	AGRN	1	985016	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	6270	985016	248265605	3	41313										
ACAP3	116983	mdanderson.org	37	chr1	1229953	1229953	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acgtccgccaggccccaggcCtcggcctcagtgtccccgtc	11	20	1	0	rs574689077		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:1229953C>T	ENST00000354700.5	-	21	2170	c.1968G>A	c.(1966-1968)gaG>gaA	p.E656E	ACAP3_ENST00000353662.3_Silent_p.E581E|ACAP3_ENST00000379037.2_5'Flank	NM_030649.2	NP_085152.2	Q96P50	ACAP3_HUMAN	ArfGAP with coiled-coil, ankyrin repeat and PH domains 3	656					regulation of ARF GTPase activity (GO:0032312)		ARF GTPase activator activity (GO:0008060)|zinc ion binding (GO:0008270)			endometrium(3)|lung(9)|skin(1)|upper_aerodigestive_tract(1)	14						GGCCCCAGGCCTCGGCCTCAG	0.761													C|||	1	0.000199681	0.0	0.0014	5008	,	,		10451	0.0		0.0	False		,,,				2504	0.0															0																																										SO:0001819	synonymous_variant	116983			AF411981	CCDS19.2	1p36	2013-01-10	2008-09-22	2008-09-22	ENSG00000131584	ENSG00000131584		"ADP-ribosylation factor GTPase activating proteins", "Pleckstrin homology (PH) domain containing", "Ankyrin repeat domain containing"	16754	protein-coding gene	gene with protein product			"centaurin, beta 5"	CENTB5			Standard	NM_030649		Approved	KIAA1716	uc001aeb.2	Q96P50	OTTHUMG00000002235	ENST00000354700.5:c.1968G>A	1.37:g.1229953C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B1AMF5|Q5TA42|Q5TA43|Q86UT3|Q9BSR9|Q9C0E7	Silent	SNP	ENST00000354700.5	37	CCDS19.2																																																																																				0.761	ACAP3-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006366.2	NM_030649		T	1229953	C	T	1229953	2	4	664	1	0	0	0	0	0	0	0	1	120	680	24	2		2	ACAP3	1	1229953	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	244937	1229953	248020668	4	41314										
GABRD	2563	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	1956478	1956478	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccggctacgcccgcaacttcCggcctggcatcggaggtgag	14	15	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:1956478C>T	ENST00000378585.4	+	2	249	c.166C>T	c.(166-168)Cgg>Tgg	p.R56W		NM_000815.4	NP_000806.2	O14764	GBRD_HUMAN	gamma-aminobutyric acid (GABA) A receptor, delta	56					signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|transport (GO:0006810)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|integral component of plasma membrane (GO:0005887)|postsynaptic membrane (GO:0045211)	chloride channel activity (GO:0005254)|extracellular ligand-gated ion channel activity (GO:0005230)|GABA-A receptor activity (GO:0004890)			central_nervous_system(2)|endometrium(3)|kidney(2)|lung(8)|ovary(2)|prostate(1)|skin(2)	20	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;2.7e-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;2.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.17e-24)|GBM - Glioblastoma multiforme(42;9.56e-08)|Colorectal(212;4.12e-05)|COAD - Colon adenocarcinoma(227;0.000194)|Kidney(185;0.00231)|BRCA - Breast invasive adenocarcinoma(365;0.00441)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0344)|Lung(427;0.2)	Acamprosate(DB00659)|Adinazolam(DB00546)|Alprazolam(DB00404)|Amoxapine(DB00543)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Chlordiazepoxide(DB00475)|Cinolazepam(DB01594)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Clotiazepam(DB01559)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Fludiazepam(DB01567)|Flumazenil(DB01205)|Flurazepam(DB00690)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Isoflurane(DB00753)|Ketazolam(DB01587)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Topiramate(DB00273)|Triazolam(DB00897)	CCGCAACTTCCGGCCTGGCAT	0.682																																																0													29	31	30					1																	1956478		2203	4299	6502	SO:0001583	missense	2563			BC033801	CCDS36.1	1p36.3	2012-06-22			ENSG00000187730	ENSG00000187730		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4084	protein-coding gene	gene with protein product	"GABA(A) receptor, delta"	137163				2176788, 10965146	Standard	NM_000815		Approved		uc001aip.2	O14764	OTTHUMG00000041064	ENST00000378585.4:c.166C>T	1.37:g.1956478C>T	ENSP00000367848:p.Arg56Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N4N9	Missense_Mutation	SNP	ENST00000378585.4	37	CCDS36.1	.	.	.	.	.	.	.	.	.	.	C	16.00	2.997979	0.54147	.	.	ENSG00000187730	ENST00000378585	D	0.83591	-1.74	4.84	3.8	0.43715	Neurotransmitter-gated ion-channel ligand-binding (3);	0.000000	0.64402	D	0.000002	D	0.89993	0.6876	M	0.82630	2.6	0.58432	D	0.999992	D	0.89917	1.0	D	0.87578	0.998	D	0.90344	0.4361	10	0.87932	D	0	-17.3036	9.5764	0.39461	0.3134:0.6866:0.0:0.0	.	56	O14764	GBRD_HUMAN	W	56	ENSP00000367848:R56W	ENSP00000367848:R56W	R	+	1	2	GABRD	1946338	1.000000	0.71417	1.000000	0.80357	0.376000	0.30014	1.696000	0.37773	2.425000	0.82216	0.555000	0.69702	CGG		0.682	GABRD-001	KNOWN	mRNA_start_NF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098493.1	NM_000815		T	1956478	C	T	1956478	3	4	664	1	0	0	0	0	1	0	0	0	6176	643	23	1	172	1	GABRD	1	1956478	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	726525	1956478	247294143	5	41315										
WDR8	49856	broad.mit.edu	37	chr1	3547644	3547644	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggagggccatcgagtctccGcttaaatgccagcacagaga	12	11	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:3547644G>A	ENST00000270708.7	-	12	1351	c.1278C>T	c.(1276-1278)agC>agT	p.S426S	WRAP73_ENST00000378322.3_3'UTR	NM_017818.3	NP_060288.3	Q9P2S5	WRP73_HUMAN	WD repeat containing, antisense to TP73	426						centrosome (GO:0005813)|cytoplasm (GO:0005737)				endometrium(2)|kidney(1)|large_intestine(5)|lung(3)|pancreas(1)	12						TCGAGTCTCCGCTTAAATGCC	0.602																																																0													65	63	64					1																	3547644		2203	4300	6503	SO:0001819	synonymous_variant	49856			AB034912, EF494669	CCDS48.1	1p36.3	2013-05-21	2011-04-13	2011-04-13	ENSG00000116213	ENSG00000116213		"WD repeat domain containing"	12759	protein-coding gene	gene with protein product		606040	"WD repeat domain 8"	WDR8			Standard	NM_017818		Approved		uc001ako.3	Q9P2S5	OTTHUMG00000000612	ENST00000270708.7:c.1278C>T	1.37:g.3547644G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T0D6|Q9BUH7|Q9NTK7|Q9NX56	Silent	SNP	ENST00000270708.7	37	CCDS48.1																																																																																				0.602	WRAP73-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000001470.1			A	3547644	G	A	3547644	2	1	664	1	0	0	0	0	0	0	0	1	17341	1078	38	1		1	WDR8	1	3547644	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1591166	3547644	245702977	6	41316										
TP73	7161	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr1	3599709	3599709	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaacggattccagcatggacGtcttccacctggagggcatg	13	11	1	0	rs146218192		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:3599709G>A	ENST00000378295.4	+	3	306	c.151G>A	c.(151-153)Gtc>Atc	p.V51I	TP73_ENST00000354437.4_Missense_Mutation_p.V51I|TP73_ENST00000604074.1_Missense_Mutation_p.V51I|TP73_ENST00000603362.1_Missense_Mutation_p.V51I|TP73_ENST00000604479.1_Missense_Mutation_p.V51I|TP73_ENST00000357733.3_Missense_Mutation_p.V51I|TP73_ENST00000346387.4_Missense_Mutation_p.V51I	NM_001204185.1|NM_005427.3	NP_001191114.1|NP_005418.1	O15350	P73_HUMAN	tumor protein p73	51	Asp/Glu-rich (acidic).				activation of MAPK activity (GO:0000187)|cell cycle arrest (GO:0007050)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to UV (GO:0034644)|cerebrospinal fluid secretion (GO:0033326)|digestive tract morphogenesis (GO:0048546)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|hippocampus development (GO:0021766)|inflammatory response (GO:0006954)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|kidney development (GO:0001822)|mismatch repair (GO:0006298)|mitotic G1 DNA damage checkpoint (GO:0031571)|negative regulation of JUN kinase activity (GO:0043508)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron development (GO:0048666)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cell size (GO:0045793)|positive regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:1902167)|positive regulation of oligodendrocyte differentiation (GO:0048714)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|post-embryonic development (GO:0009791)|protein tetramerization (GO:0051262)|release of cytochrome c from mitochondria (GO:0001836)|response to gamma radiation (GO:0010332)|response to organonitrogen compound (GO:0010243)|response to X-ray (GO:0010165)|transcription, DNA-templated (GO:0006351)	chromatin (GO:0000785)|cytosol (GO:0005829)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|damaged DNA binding (GO:0003684)|double-stranded DNA binding (GO:0003690)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|p53 binding (GO:0002039)|protein kinase binding (GO:0019901)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|lung(8)|ovary(1)|prostate(1)	20	all_cancers(77;0.0395)|Ovarian(185;0.0634)|Lung NSC(156;0.188)|all_lung(157;0.198)	all_epithelial(116;7.42e-17)|all_lung(118;1.86e-06)|Lung NSC(185;0.000163)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.109)|Ovarian(437;0.127)		Epithelial(90;5.57e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.87e-22)|GBM - Glioblastoma multiforme(42;5.72e-16)|Colorectal(212;2.22e-05)|COAD - Colon adenocarcinoma(227;8.48e-05)|Kidney(185;0.000539)|BRCA - Breast invasive adenocarcinoma(365;0.000868)|STAD - Stomach adenocarcinoma(132;0.0072)|KIRC - Kidney renal clear cell carcinoma(229;0.00751)|Lung(427;0.226)		CAGCATGGACGTCTTCCACCT	0.597													G|||	1	0.000199681	0.0	0.0	5008	,	,		19210	0.0		0.001	False		,,,				2504	0.0															0								G	ILE/VAL,ILE/VAL,ILE/VAL,ILE/VAL,ILE/VAL,ILE/VAL	1,4405	2.1+/-5.4	0,1,2202	119	114	115		151,151,151,151,151,151	4.6	1	1	dbSNP_134	115	0,8600		0,0,4300	no	missense,missense,missense,missense,missense,missense	TP73	NM_001204184.1,NM_001204185.1,NM_001204186.1,NM_001204187.1,NM_001204188.1,NM_005427.3	29,29,29,29,29,29	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging	51/500,51/476,51/404,51/556,51/541,51/637	3599709	1,13005	2203	4300	6503	SO:0001583	missense	7161			AB055065	CCDS49.1, CCDS44049.1, CCDS44050.1, CCDS44051.1, CCDS55566.1, CCDS55567.1, CCDS55568.1, CCDS55569.1, CCDS59965.1	1p36.3	2010-06-15			ENSG00000078900	ENSG00000078900			12003	protein-coding gene	gene with protein product		601990				9296498, 9288759	Standard	NM_001204186		Approved	P73	uc001akp.3	O15350	OTTHUMG00000000610	ENST00000378295.4:c.151G>A	1.37:g.3599709G>A	ENSP00000367545:p.Val51Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7J4|B7Z8Z1|B7Z9C1|C9J521|O15351|Q17RN8|Q5TBV5|Q5TBV6|Q8NHW9|Q8TDY5|Q8TDY6|Q9NTK8	Missense_Mutation	SNP	ENST00000378295.4	37	CCDS49.1	.	.	.	.	.	.	.	.	.	.	G	12.23	1.875023	0.33162	2.27E-4	0.0	ENSG00000078900	ENST00000378295;ENST00000354437;ENST00000357733;ENST00000346387	D;D;D;D	0.99422	-5.76;-5.88;-5.62;-5.72	4.6	4.6	0.57074	.	0.000000	0.64402	U	0.000002	D	0.99171	0.9713	L	0.48642	1.525	0.80722	D	1	D;D	0.76494	0.993;0.999	P;D	0.72982	0.848;0.979	D	0.99379	1.0922	10	0.36615	T	0.2	-38.0352	16.7783	0.85557	0.0:0.0:1.0:0.0	.	51;51	O15350-2;O15350	.;P73_HUMAN	I	51	ENSP00000367545:V51I;ENSP00000346423:V51I;ENSP00000350366:V51I;ENSP00000340740:V51I	ENSP00000340740:V51I	V	+	1	0	TP73	3589569	1.000000	0.71417	1.000000	0.80357	0.897000	0.52465	4.352000	0.59404	2.250000	0.74265	0.563000	0.77884	GTC		0.597	TP73-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000001468.4	NM_005427		A	3599709	G	A	3599709	3	1	664	1	0	0	0	0	1	0	0	0	16405	1145	40	1	157	1	TP73	1	3599709	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	52065	3599709	245650912	7	41317										
C1orf174	339448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	3807424	3807424	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccccctgctgcacagaaacGccagcctcgctgcctggaag	11	17	0	1	rs368113639		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:3807424G>A	ENST00000361605.3	-	3	425	c.327C>T	c.(325-327)ggC>ggT	p.G109G	C1orf174_ENST00000486765.1_5'UTR	NM_207356.2	NP_997239.2	Q8IYL3	CA174_HUMAN	chromosome 1 open reading frame 174	109						nucleus (GO:0005634)				endometrium(1)|large_intestine(5)|lung(4)|prostate(1)	11	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;5.09e-25)|all_epithelial(116;9.35e-17)|all_lung(118;1.09e-06)|Lung NSC(185;0.000139)|all_neural(13;0.00287)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0219)|all_hematologic(16;0.027)|Colorectal(325;0.0276)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;1.55e-39)|OV - Ovarian serous cystadenocarcinoma(86;5.99e-23)|GBM - Glioblastoma multiforme(42;2.22e-17)|Colorectal(212;1.08e-05)|COAD - Colon adenocarcinoma(227;5.49e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000365)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.19)		GCACAGAAACGCCAGCCTCGC	0.542																																																0								G		0,4406		0,0,2203	58	56	57		327	-11.1	0	1		57	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	C1orf174	NM_207356.2		0,1,6502	AA,AG,GG		0.0116,0.0,0.0077		109/244	3807424	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	339448			BC035643	CCDS53.1	1p36.32	2012-07-25			ENSG00000198912	ENSG00000198912			27915	protein-coding gene	gene with protein product						12477932	Standard	NM_207356		Approved	RP13-531C17.2	uc001alf.3	Q8IYL3	OTTHUMG00000003739	ENST00000361605.3:c.327C>T	1.37:g.3807424G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0C8|A8MUG9|Q5SR20|Q6NX36	Silent	SNP	ENST00000361605.3	37	CCDS53.1																																																																																				0.542	C1orf174-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000010539.1	NM_207356		A	3807424	G	A	3807424	2	1	664	1	0	0	0	0	0	0	0	1	2017	1074	38	1		1	C1orf174	1	3807424	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	207715	3807424	245443197	8	41318										
NPHP4	261734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	5951002	5951002	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcaatctgcagggtctgcaCggccaggtagcgggcaaagc	15	11	3	0	rs199712626		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:5951002C>T	ENST00000378156.4	-	17	2495	c.2230G>A	c.(2230-2232)Gtg>Atg	p.V744M	AL356261.1_ENST00000585151.1_RNA|NPHP4_ENST00000478423.2_5'UTR	NM_015102.3	NP_055917.1	O75161	NPHP4_HUMAN	nephronophthisis 4	744					actin cytoskeleton organization (GO:0030036)|hippo signaling (GO:0035329)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|retina development in camera-type eye (GO:0060041)|signal transduction (GO:0007165)|single organismal cell-cell adhesion (GO:0016337)|visual behavior (GO:0007632)	cell-cell junction (GO:0005911)|centrosome (GO:0005813)|cytosol (GO:0005829)|membrane (GO:0016020)|nonmotile primary cilium (GO:0031513)|tight junction (GO:0005923)	structural molecule activity (GO:0005198)			NS(1)|breast(2)|cervix(2)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(15)|ovary(2)|pancreas(1)|prostate(4)	47	Ovarian(185;0.0634)	all_cancers(23;7.53e-41)|all_epithelial(116;3.96e-23)|all_lung(118;5.12e-09)|all_hematologic(16;5.45e-07)|Lung NSC(185;5.49e-07)|all_neural(13;3.21e-06)|Acute lymphoblastic leukemia(12;3.44e-05)|Breast(487;0.000601)|Renal(390;0.0007)|Colorectal(325;0.00113)|Hepatocellular(190;0.00213)|Glioma(11;0.00223)|Myeloproliferative disorder(586;0.0256)|Ovarian(437;0.04)|Lung SC(97;0.128)|Medulloblastoma(700;0.213)		Epithelial(90;1.69e-36)|GBM - Glioblastoma multiforme(13;5.07e-29)|OV - Ovarian serous cystadenocarcinoma(86;1.05e-19)|Colorectal(212;4.54e-07)|COAD - Colon adenocarcinoma(227;3.14e-05)|Kidney(185;0.00012)|BRCA - Breast invasive adenocarcinoma(365;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00179)|STAD - Stomach adenocarcinoma(132;0.00472)|READ - Rectum adenocarcinoma(331;0.0649)		AGGGTCTGCACGGCCAGGTAG	0.622																																																0								C	MET/VAL	2,4004		0,2,2001	26	29	28		2230	-5.9	0	1		28	2,8314		0,2,4156	yes	missense	NPHP4	NM_015102.3	21	0,4,6157	TT,TC,CC		0.0241,0.0499,0.0325	benign	744/1427	5951002	4,12318	2003	4158	6161	SO:0001583	missense	261734			AB014573	CCDS44052.1	1p36	2010-03-26			ENSG00000131697	ENSG00000131697			19104	protein-coding gene	gene with protein product	"nephroretinin", "nephrocystin-4", "POC10 centriolar protein homolog (Chlamydomonas)"	607215				11920287, 12205563	Standard	XR_244787		Approved	SLSN4, KIAA0673, POC10	uc001alq.2	O75161	OTTHUMG00000000701	ENST00000378156.4:c.2230G>A	1.37:g.5951002C>T	ENSP00000367398:p.Val744Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IWC0	Missense_Mutation	SNP	ENST00000378156.4	37	CCDS44052.1	.	.	.	.	.	.	.	.	.	.	C	5.218	0.225771	0.09916	4.99E-4	2.41E-4	ENSG00000131697	ENST00000378156;ENST00000378160	D	0.87029	-2.2	5.61	-5.93	0.02254	.	1.385230	0.04696	N	0.415002	T	0.73401	0.3582	L	0.27053	0.805	0.09310	N	1	B	0.18610	0.029	B	0.15052	0.012	T	0.56697	-0.7936	10	0.46703	T	0.11	.	0.4116	0.00442	0.2859:0.1877:0.2805:0.246	.	744	O75161	NPHP4_HUMAN	M	744;147	ENSP00000367398:V744M	ENSP00000367398:V744M	V	-	1	0	NPHP4	5873589	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-1.832000	0.01696	-0.814000	0.04352	-2.328000	0.00250	GTG		0.622	NPHP4-001	KNOWN	non_canonical_polymorphism|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000001715.2			T	5951002	C	T	5951002	3	4	664	1	0	0	0	0	1	0	0	0	10588	536	19	1	2106	1	NPHP4	1	5951002	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2143578	5951002	243299619	9	41319										
ZBTB48	3104	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	6646763	6646763	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcacactgccaggtcttcacGtgctctgtgtgccaggagac	11	13	4	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:6646763G>A	ENST00000377674.4	+	5	1211	c.1053G>A	c.(1051-1053)acG>acA	p.T351T		NM_001278647.1|NM_001278648.1|NM_005341.2	NP_001265576.1|NP_001265577.1|NP_005332.1	P10074	ZBT48_HUMAN	zinc finger and BTB domain containing 48	351				FT -> LP (in Ref. 1; AAA65124). {ECO:0000305}.	transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|kidney(1)|large_intestine(1)|liver(2)|lung(3)|ovary(1)|skin(1)|urinary_tract(1)	11	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.35e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00109)|STAD - Stomach adenocarcinoma(132;0.017)|READ - Rectum adenocarcinoma(331;0.0642)		AGGTCTTCACGTGCTCTGTGT	0.637																																					Esophageal Squamous(125;1449 1657 4031 29866 49542)											0													79	57	64					1																	6646763		2203	4299	6502	SO:0001819	synonymous_variant	3104			BC013573	CCDS84.1	1p36.3	2013-01-08	2006-09-20	2006-09-20	ENSG00000204859	ENSG00000204859		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	4930	protein-coding gene	gene with protein product		165270	"GLI-Kruppel family member HKR3"	HKR3		2850480, 8661141	Standard	NM_001278647		Approved	ZNF855	uc001anx.3	P10074	OTTHUMG00000001438	ENST00000377674.4:c.1053G>A	1.37:g.6646763G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SY19	Silent	SNP	ENST00000377674.4	37	CCDS84.1																																																																																				0.637	ZBTB48-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004193.1	NM_005341		A	6646763	G	A	6646763	2	1	664	1	0	0	0	0	0	0	0	1	17561	1132	40	1		1	ZBTB48	1	6646763	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	695761	6646763	242603858	10	41320										
SLC45A1	50651	broad.mit.edu	37	chr1	8385423	8385423	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctcaaggtttggaaggagaCgccctttcattcttgtcctg	10	11	3	1	rs200531790	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:8385423C>T	ENST00000471889.1	+	3	848	c.463C>T	c.(463-465)Cgc>Tgc	p.R155C	SLC45A1_ENST00000289877.8_Missense_Mutation_p.R155C|Y_RNA_ENST00000516445.1_RNA|SLC45A1_ENST00000377479.2_Missense_Mutation_p.R189C			Q9Y2W3	S45A1_HUMAN	solute carrier family 45, member 1	155					carbohydrate transport (GO:0008643)	integral component of membrane (GO:0016021)	symporter activity (GO:0015293)			central_nervous_system(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|liver(1)|lung(12)|ovary(2)|pancreas(2)|prostate(4)|skin(2)|urinary_tract(2)	33	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)		TGGAAGGAGACGCCCTTTCAT	0.483													C|||	2	0.000399361	0.0015	0.0	5008	,	,		16918	0.0		0.0	False		,,,				2504	0.0															0													182	160	167					1																	8385423		2203	4300	6503	SO:0001583	missense	50651			AF118274	CCDS30577.1	1p36.23	2014-01-28	2005-10-04	2005-10-04	ENSG00000162426	ENSG00000162426		"Solute carriers"	17939	protein-coding gene	gene with protein product	"H+/sugar symporter"	605763	"deleted in neuroblastoma 5"	DNB5		10729226	Standard	XM_005263467		Approved		uc001apb.3	Q9Y2W3	OTTHUMG00000000503	ENST00000471889.1:c.463C>T	1.37:g.8385423C>T	ENSP00000418096:p.Arg155Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VY46|Q5VY49	Missense_Mutation	SNP	ENST00000471889.1	37	CCDS30577.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	C	19.52	3.842456	0.71488	.	.	ENSG00000162426	ENST00000471889;ENST00000377479;ENST00000289877	D;D;D	0.96041	-3.89;-3.89;-3.89	5.55	4.58	0.56647	Major facilitator superfamily domain, general substrate transporter (1);	0.000000	0.85682	D	0.000000	D	0.97851	0.9294	M	0.91038	3.17	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.98003	1.0361	10	0.87932	D	0	-37.0141	11.4331	0.50052	0.3221:0.6779:0.0:0.0	.	155	Q9Y2W3	S45A1_HUMAN	C	155;189;155	ENSP00000418096:R155C;ENSP00000366699:R189C;ENSP00000289877:R155C	ENSP00000289877:R155C	R	+	1	0	SLC45A1	8308010	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	1.393000	0.34497	2.594000	0.87642	0.650000	0.86243	CGC		0.483	SLC45A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000001245.5			T	8385423	C	T	8385423	3	4	664	1	0	0	0	0	1	0	0	0	14653	536	19	1	469	1	SLC45A1	1	8385423	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1738660	8385423	240865198	11	41321										
RERE	473	mdanderson.org	37	chr1	8421203	8421203	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acaggcgctgtgggagcctgTggctggttaggggcctggga	20	8	0	0	rs13596	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:8421203T>C	ENST00000337907.3	-	19	2998	c.2364A>G	c.(2362-2364)ccA>ccG	p.P788P	RERE_ENST00000476556.1_Silent_p.P234P|RERE_ENST00000400908.2_Silent_p.P788P|RERE_ENST00000377464.1_Silent_p.P520P|RERE_ENST00000400907.2_Intron	NM_012102.3	NP_036234.3	Q9P2R6	RERE_HUMAN	arginine-glutamic acid dipeptide (RE) repeats	788	Pro-rich.				chromatin remodeling (GO:0006338)|multicellular organismal development (GO:0007275)|NLS-bearing protein import into nucleus (GO:0006607)|transcription, DNA-templated (GO:0006351)	histone deacetylase complex (GO:0000118)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|poly-glutamine tract binding (GO:0008267)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			central_nervous_system(1)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(5)|liver(1)|lung(16)|ovary(3)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	49	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)		TGGGAGCCTGTGGCTGGTTAG	0.731													t|||	4006	0.79992	0.8411	0.7925	5008	,	,		12992	0.9206		0.6819	False		,,,				2504	0.7464															0								T	,,	3390,752		1409,572,90	6	7	7		2364,702,2364	-10	0	1	dbSNP_52	7	5605,2589		1942,1721,434	no	coding-synonymous,coding-synonymous,coding-synonymous	RERE	NM_001042681.1,NM_001042682.1,NM_012102.3	,,	3351,2293,524	CC,CT,TT		31.5963,18.1555,27.0833	,,	788/1567,234/1013,788/1567	8421203	8995,3341	2071	4097	6168	SO:0001819	synonymous_variant	473			AF016005	CCDS95.1, CCDS41243.1	1p36.23	2013-01-25			ENSG00000142599	ENSG00000142599		"GATA zinc finger domain containing"	9965	protein-coding gene	gene with protein product		605226		ATN1L		10814707, 10729226	Standard	NM_012102		Approved	KIAA0458, ARP, ARG, DNB1	uc001apf.3	Q9P2R6	OTTHUMG00000001765	ENST00000337907.3:c.2364A>G	1.37:g.8421203T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O43393|O75046|O75359|Q5VXL9|Q6P6B9|Q9Y2W4	Silent	SNP	ENST00000337907.3	37	CCDS95.1																																																																																				0.731	RERE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004916.1			C	8421203	T	C	8421203	2	2	664	1	0	0	0	0	0	0	0	1	13244	1683	59	3		3	RERE	1	8421203	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	35780	8421203	240829418	12	41322										
UBE4B	10277	broad.mit.edu;bcgsc.ca	37	chr1	10155570	10155570	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agtcagttctctcagcagctCgccctctaatagccttgaaa	7	13	4	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:10155570C>T	ENST00000253251.8	+	3	1102	c.263C>T	c.(262-264)tCg>tTg	p.S88L	UBE4B_ENST00000377157.3_5'UTR|UBE4B_ENST00000343090.6_Missense_Mutation_p.S88L					ubiquitination factor E4B											NS(3)|breast(1)|central_nervous_system(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(12)|lung(14)|ovary(2)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	48		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		CTCAGCAGCTCGCCCTCTAAT	0.468																																																0													154	124	134					1																	10155570		2203	4300	6503	SO:0001583	missense	10277			AF091093	CCDS110.1, CCDS41245.1	1p36.1	2013-01-28	2011-05-19		ENSG00000130939	ENSG00000130939		"U-box domain containing"	12500	protein-coding gene	gene with protein product		613565	"ubiquitination factor E4B (homologous to yeast UFD2)", "ubiquitination factor E4B (UFD2 homolog, yeast)"			9734811, 10089879	Standard	NM_006048		Approved	UBOX3, E4, UFD2, KIAA0684	uc001aqs.4	O95155	OTTHUMG00000001797	ENST00000253251.8:c.263C>T	1.37:g.10155570C>T	ENSP00000253251:p.Ser88Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000253251.8	37	CCDS110.1	.	.	.	.	.	.	.	.	.	.	C	36	5.797910	0.96952	.	.	ENSG00000130939	ENST00000253251;ENST00000343090	T;T	0.57595	0.56;0.39	5.33	5.33	0.75918	.	0.000000	0.85682	D	0.000000	T	0.66277	0.2773	L	0.43923	1.385	0.80722	D	1	D;D	0.69078	0.997;0.997	D;D	0.70227	0.968;0.947	T	0.63152	-0.6701	10	0.39692	T	0.17	-13.1798	19.3992	0.94621	0.0:1.0:0.0:0.0	.	88;88	O95155;O95155-2	UBE4B_HUMAN;.	L	88	ENSP00000253251:S88L;ENSP00000343001:S88L	ENSP00000253251:S88L	S	+	2	0	UBE4B	10078157	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.445000	0.80570	2.659000	0.90383	0.650000	0.86243	TCG		0.468	UBE4B-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005017.1	NM_006048		T	10155570	C	T	10155570	3	4	664	1	0	0	0	0	1	0	0	0	16895	893	31	1	273	1	UBE4B	1	10155570	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1734367	10155570	239095051	13	41323										
CORT	1325	hgsc.bcm.edu;ucsc.edu	37	chr1	10510334	10510334	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctctccggggccacggccacCgctgccctgcccctggaggg	14	19	1	0	rs182159138	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:10510334C>T	ENST00000377049.3	+	1	559	c.54C>T	c.(52-54)acC>acT	p.T18T	APITD1_ENST00000602787.1_Intron|APITD1_ENST00000602296.1_Intron|APITD1-CORT_ENST00000400900.2_Intron|APITD1-CORT_ENST00000465026.1_Intron|CORT_ENST00000320498.4_Silent_p.T68T|APITD1-CORT_ENST00000470413.2_Intron	NM_001302.4	NP_001293.3	O00230	CORT_HUMAN	cortistatin	18					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|synaptic transmission (GO:0007268)	extracellular space (GO:0005615)	G-protein coupled receptor binding (GO:0001664)|neuropeptide hormone activity (GO:0005184)			breast(1)|endometrium(1)|stomach(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.19e-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;0.0228)|Colorectal(212;3.12e-07)|COAD - Colon adenocarcinoma(227;7.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(132;0.0165)|READ - Rectum adenocarcinoma(331;0.0487)		CCACGGCCACCGCTGCCCTGC	0.677													C|||	2	0.000399361	0.0	0.0029	5008	,	,		15737	0.0		0.0	False		,,,				2504	0.0															0								C	,,	0,4404		0,0,2202	25	26	26		54,,	-7.2	0	1		26	3,8593		0,3,4295	no	coding-synonymous,intron,intron	CORT,APITD1-CORT	NM_001302.4,NM_198544.3,NM_199006.2	,,	0,3,6497	TT,TC,CC		0.0349,0.0,0.0231	,,	18/106,,	10510334	3,12997	2202	4298	6500	SO:0001819	synonymous_variant	1325			AF013252	CCDS117.1, CCDS117.2	1p36.22	2013-02-25			ENSG00000241563	ENSG00000241563		"Endogenous ligands"	2257	protein-coding gene	gene with protein product	"prepro-cortistatin"	602784				9205124	Standard	NM_001302		Approved	MGC32686		O00230	OTTHUMG00000001906	ENST00000377049.3:c.54C>T	1.37:g.10510334C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6G0|Q6UX11	Silent	SNP	ENST00000377049.3	37	CCDS117.2																																																																																				0.677	CORT-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005410.3	NM_001302		T	10510334	C	T	10510334	2	4	664	1	0	0	0	0	0	0	0	1	3762	639	23	1		1	CORT	1	10510334	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	354764	10510334	238740287	14	41324										
CASZ1	54897	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	10713846	10713846	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgggcccagcctcggtggcGgcagtggcggcagccaggga	19	13	0	0	rs372443290		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:10713846G>A	ENST00000377022.3	-	11	2585	c.2268C>T	c.(2266-2268)gcC>gcT	p.A756A	RP4-734G22.3_ENST00000606802.1_RNA|CASZ1_ENST00000344008.5_Silent_p.A756A	NM_001079843.2	NP_001073312.1	Q86V15	CASZ1_HUMAN	castor zinc finger 1	756					multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(9)|large_intestine(13)|lung(18)|ovary(2)|prostate(5)|skin(2)|urinary_tract(1)	54	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		CCTCGGTGGCGGCAGTGGCGG	0.682																																																0													32	42	39					1																	10713846		2203	4298	6501	SO:0001819	synonymous_variant	54897			AK000328	CCDS120.2, CCDS41246.1	1p36.22	2013-01-07	2007-02-02		ENSG00000130940	ENSG00000130940		"Zinc fingers, C2H2-type"	26002	protein-coding gene	gene with protein product	"zinc finger protein 693", "survival related gene"	609895	"castor homolog 1, zinc finger (Drosophila)"			16631614, 21252912	Standard	NM_001079843		Approved	FLJ20321, ZNF693, castor, cst, SRG	uc001aro.4	Q86V15	OTTHUMG00000002035	ENST00000377022.3:c.2268C>T	1.37:g.10713846G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q078S9|Q2EN02|Q5T9S1|Q6ZNM8|Q8WX49|Q8WX50|Q9BT16|Q9NXC6	Silent	SNP	ENST00000377022.3	37	CCDS41246.1																																																																																				0.682	CASZ1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005673.2	NM_017766		A	10713846	G	A	10713846	2	1	664	1	0	0	0	0	0	0	0	1	2687	1103	39	1		1	CASZ1	1	10713846	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	203512	10713846	238536775	15	41325										
PRDM2	7799	broad.mit.edu;mdanderson.org	37	chr1	14107224	14107224	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcccctccaccctgtcccccGgtattaactgttgccactcc	5	20	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:14107224G>A	ENST00000235372.7	+	8	3790	c.2934G>A	c.(2932-2934)ccG>ccA	p.P978P	PRDM2_ENST00000505823.1_Intron|PRDM2_ENST00000376048.5_Intron|PRDM2_ENST00000311066.5_Silent_p.P978P|PRDM2_ENST00000503842.1_Intron|PRDM2_ENST00000413440.1_Silent_p.P777P|PRDM2_ENST00000343137.4_Silent_p.P777P	NM_012231.4	NP_036363.2	Q13029	PRDM2_HUMAN	PR domain containing 2, with ZNF domain	978	Pro-rich.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(16)|lung(20)|ovary(3)|prostate(3)|skin(1)|urinary_tract(2)	55	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		CCTGTCCCCCGGTATTAACTG	0.612																																																0													126	120	122					1																	14107224		2203	4300	6503	SO:0001819	synonymous_variant	7799			U17838	CCDS150.1, CCDS151.1, CCDS30603.1, CCDS44061.1	1p36	2011-07-01			ENSG00000116731	ENSG00000116731		"Chromatin-modifying enzymes / K-methyltransferases"	9347	protein-coding gene	gene with protein product	"retinoblastoma protein-binding zinc finger protein", "retinoblastoma protein-interacting zinc finger protein", "MTE-binding protein", "zinc-finger DNA-binding protein", "GATA-3 binding protein G3B"	601196				7538672	Standard	NM_012231		Approved	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1	uc001avi.3	Q13029	OTTHUMG00000007917	ENST00000235372.7:c.2934G>A	1.37:g.14107224G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B1AJZ4|B5MC68|Q13149|Q14550|Q5THJ1|Q5VUL9	Silent	SNP	ENST00000235372.7	37	CCDS150.1																																																																																				0.612	PRDM2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000021792.2	NM_012231		A	14107224	G	A	14107224	2	1	664	1	0	0	0	0	0	0	0	1	12468	1103	39	1		1	PRDM2	1	14107224	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3393378	14107224	235143397	16	41326										
PLEKHM2	23207	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr1	16053893	16053893	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcctttcggaccggctctccCggggatgccccggagaggcc	14	16	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:16053893C>T	ENST00000375799.3	+	9	1553	c.1326C>T	c.(1324-1326)ccC>ccT	p.P442P	RP11-288I21.1_ENST00000453804.1_RNA|PLEKHM2_ENST00000375793.2_Silent_p.P422P	NM_015164.2	NP_055979.2	Q8IWE5	PKHM2_HUMAN	pleckstrin homology domain containing, family M (with RUN domain) member 2	442					Golgi organization (GO:0007030)	cytoplasm (GO:0005737)	kinesin binding (GO:0019894)			cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(5)|ovary(2)|upper_aerodigestive_tract(1)	12		Colorectal(325;0.000259)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00057)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		CCGGCTCTCCCGGGGATGCCC	0.627																																																0													7	8	8					1																	16053893		1811	4039	5850	SO:0001819	synonymous_variant	23207			AB020649	CCDS44063.1	1p36.13	2013-01-10			ENSG00000116786	ENSG00000116786		"Pleckstrin homology (PH) domain containing"	29131	protein-coding gene	gene with protein product		609613				10048485	Standard	NM_015164		Approved	KIAA0842	uc010obo.2	Q8IWE5	OTTHUMG00000003062	ENST00000375799.3:c.1326C>T	1.37:g.16053893C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O94928|Q5VT65|Q6NUH9|Q7L8G1|Q8IVT7|Q8N2T4|Q96AY0|Q9NTF7	Silent	SNP	ENST00000375799.3	37	CCDS44063.1																																																																																				0.627	PLEKHM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008463.1	NM_015164		T	16053893	C	T	16053893	2	4	664	1	0	0	0	0	0	0	0	1	12088	639	23	1		1	PLEKHM2	1	16053893	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1946669	16053893	233196728	17	41327										
CROCC	9696	mdanderson.org	37	chr1	17270751	17270751	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gacgcagtgcaggatggcgcGcgggtgcgccgggagcttga	20	10	0	1	rs12025984	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:17270751G>A	ENST00000375541.5	+	14	2034	c.1965G>A	c.(1963-1965)gcG>gcA	p.A655A	CROCC_ENST00000467938.1_3'UTR	NM_014675.3	NP_055490.3			ciliary rootlet coiled-coil, rootletin											breast(3)|central_nervous_system(2)|cervix(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(12)|large_intestine(1)|lung(20)|ovary(3)|prostate(9)|skin(3)|urinary_tract(1)	62		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)		AGGATGGCGCGCGGGTGCGCC	0.711													g|||	1190	0.23762	0.0182	0.3242	5008	,	,		21546	0.4643		0.2495	False		,,,				2504	0.227															0													8	6	7					1																	17270751		2084	4087	6171	SO:0001819	synonymous_variant	9696			AB007914	CCDS30616.1	1p36.13	2010-06-04	2009-03-04	2009-03-04	ENSG00000058453	ENSG00000058453			21299	protein-coding gene	gene with protein product	"rootletin, ciliary rootlet protein"	615776				12427867, 17971504	Standard	XM_006711056		Approved	rootletin, ROLT	uc001azt.2	Q5TZA2	OTTHUMG00000002200	ENST00000375541.5:c.1965G>A	1.37:g.17270751G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000375541.5	37	CCDS30616.1																																																																																				0.711	CROCC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006249.2	NM_014675		A	17270751	G	A	17270751	2	1	664	1	0	0	0	0	0	0	0	1	3895	1074	38	1		1	CROCC	1	17270751	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1216858	17270751	231979870	18	41328										
PADI4	23569	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	17664602	17664602	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	actgtgacagagacaatctcGaatcttctgccatggactgc	9	11	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:17664602G>A	ENST00000375448.4	+	5	504	c.478G>A	c.(478-480)Gaa>Aaa	p.E160K	AC004824.2_ENST00000602074.1_Intron	NM_012387.2	NP_036519.2	Q9UM07	PADI4_HUMAN	peptidyl arginine deiminase, type IV	160					cellular protein modification process (GO:0006464)|chromatin modification (GO:0016568)|chromatin remodeling (GO:0006338)|histone citrullination (GO:0036414)|histone H3-R26 citrullination (GO:0036413)|innate immune response (GO:0045087)|nucleosome assembly (GO:0006334)|protein citrullination (GO:0018101)|regulation of transcription, DNA-templated (GO:0006355)|stem cell maintenance (GO:0019827)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	arginine deiminase activity (GO:0016990)|calcium ion binding (GO:0005509)|protein-arginine deiminase activity (GO:0004668)			autonomic_ganglia(1)|breast(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(13)|ovary(2)|skin(2)|urinary_tract(3)	26		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000338)|Lung NSC(340;0.00042)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00537)|BRCA - Breast invasive adenocarcinoma(304;8.54e-06)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(64;0.000223)|KIRC - Kidney renal clear cell carcinoma(64;0.00313)|STAD - Stomach adenocarcinoma(196;0.00707)|READ - Rectum adenocarcinoma(331;0.0689)|Lung(427;0.199)	L-Citrulline(DB00155)	AGACAATCTCGAATCTTCTGC	0.527																																																0													152	128	136					1																	17664602		2203	4300	6503	SO:0001583	missense	23569			AB017919	CCDS180.1	1p36.13	2014-06-06	2003-02-12		ENSG00000159339	ENSG00000159339	3.5.3.15	"Peptidyl arginine deiminases"	18368	protein-coding gene	gene with protein product		605347	"peptidyl arginine deiminase, type V"	PADI5		10488123	Standard	NM_012387		Approved	PAD, PDI5, PDI4	uc001baj.2	Q9UM07	OTTHUMG00000002371	ENST00000375448.4:c.478G>A	1.37:g.17664602G>A	ENSP00000364597:p.Glu160Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K392|B2RBW0|Q5VTZ8|Q70SX4	Missense_Mutation	SNP	ENST00000375448.4	37	CCDS180.1	.	.	.	.	.	.	.	.	.	.	g	7.390	0.630670	0.14322	.	.	ENSG00000159339	ENST00000375448	T	0.16597	2.33	5.15	-10.3	0.00346	Protein-arginine deiminase (PAD), central domain (2);	1.431090	0.04168	N	0.324253	T	0.02455	0.0075	N	0.00237	-1.79	0.09310	N	1	B;B	0.06786	0.001;0.0	B;B	0.04013	0.001;0.0	T	0.26538	-1.0100	10	0.09338	T	0.73	0.0019	3.264	0.06859	0.3132:0.3875:0.204:0.0953	.	160;160	A8K392;Q9UM07	.;PADI4_HUMAN	K	160	ENSP00000364597:E160K	ENSP00000364597:E160K	E	+	1	0	PADI4	17537189	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-1.930000	0.01557	-2.431000	0.00556	-2.173000	0.00322	GAA		0.527	PADI4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006799.1	NM_012387		A	17664602	G	A	17664602	3	1	664	1	0	0	0	0	1	0	0	0	11387	1059	37	1	496	1	PADI4	1	17664602	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	393851	17664602	231586019	19	41329										
HTR6	3362	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr1	20005813	20005813	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aatttcttcaacatcgacccCgcggagcccgagctgcggcc	10	16	2	0	rs201218739		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:20005813C>T	ENST00000289753.1	+	3	1742	c.1275C>T	c.(1273-1275)ccC>ccT	p.P425P	TMCO4_ENST00000489814.1_5'Flank	NM_000871.1	NP_000862.1	P50406	5HT6R_HUMAN	5-hydroxytryptamine (serotonin) receptor 6, G protein-coupled	425					brain development (GO:0007420)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|learning (GO:0007612)|long-term synaptic potentiation (GO:0060291)|negative regulation of acetylcholine secretion, neurotransmission (GO:0014058)|negative regulation of gamma-aminobutyric acid secretion (GO:0014053)|negative regulation of glutamate secretion (GO:0014050)|positive regulation of dopamine secretion (GO:0033603)|positive regulation of gamma-aminobutyric acid secretion (GO:0014054)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|synaptic transmission (GO:0007268)	cilium (GO:0005929)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	histamine receptor activity (GO:0004969)|serotonin receptor activity (GO:0004993)			endometrium(1)|lung(8)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	13		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;0.00462)|BRCA - Breast invasive adenocarcinoma(304;5.81e-05)|Kidney(64;0.00017)|GBM - Glioblastoma multiforme(114;0.00117)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)	Amitriptyline(DB00321)|Amoxapine(DB00543)|Aripiprazole(DB01238)|Asenapine(DB06216)|Chlorpromazine(DB00477)|Clozapine(DB00363)|Doxepin(DB01142)|Ergoloid mesylate(DB01049)|Iloperidone(DB04946)|Imipramine(DB00458)|Loxapine(DB00408)|Mianserin(DB06148)|Nortriptyline(DB00540)|Olanzapine(DB00334)|Quetiapine(DB01224)|Sertindole(DB06144)|Ziprasidone(DB00246)	ACATCGACCCCGCGGAGCCCG	0.692																																					Esophageal Squamous(168;1879 2619 6848 21062)											0													9	10	9					1																	20005813		1870	3762	5632	SO:0001819	synonymous_variant	3362			L41147	CCDS197.1	1p36-p35	2012-08-08	2012-02-03		ENSG00000158748	ENSG00000158748		"5-HT (serotonin) receptors", "GPCR / Class A : 5-HT (serotonin) receptors, GPCR only"	5301	protein-coding gene	gene with protein product		601109	"5-hydroxytryptamine (serotonin) receptor 6"			8522988	Standard	NM_000871		Approved	5-HT6, 5-HT6R	uc001bcl.3	P50406	OTTHUMG00000002713	ENST00000289753.1:c.1275C>T	1.37:g.20005813C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q13640|Q5TGZ1	Silent	SNP	ENST00000289753.1	37	CCDS197.1																																																																																				0.692	HTR6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000007704.1	NM_000871		T	20005813	C	T	20005813	2	4	664	1	0	0	0	0	0	0	0	1	7458	639	23	1		1	HTR6	1	20005813	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2341211	20005813	229244808	20	41330										
TMCO4	255104	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	20067419	20067419	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtgggccagggcagcccacGgggcactgaaggtgcctggg	19	11	0	1	rs371982006		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:20067419G>A	ENST00000294543.6	-	11	1134	c.893C>T	c.(892-894)cCg>cTg	p.P298L	TMCO4_ENST00000375127.1_Missense_Mutation_p.P298L|TMCO4_ENST00000489814.1_5'Flank|TMCO4_ENST00000375122.2_Missense_Mutation_p.P258L	NM_181719.4	NP_859070.3	Q5TGY1	TMCO4_HUMAN	transmembrane and coiled-coil domains 4	298						integral component of membrane (GO:0016021)				biliary_tract(1)|breast(2)|endometrium(2)|kidney(1)|lung(11)|skin(1)|upper_aerodigestive_tract(1)	19		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)		GGCAGCCCACGGGGCACTGAA	0.617																																																0								G	LEU/PRO	0,4406		0,0,2203	39	35	36		893	5.3	1	1		36	1,8599	1.2+/-3.3	0,1,4299	no	missense	TMCO4	NM_181719.4	98	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	298/635	20067419	1,13005	2203	4300	6503	SO:0001583	missense	255104				CCDS198.1	1p36.13	2008-02-05			ENSG00000162542	ENSG00000162542			27393	protein-coding gene	gene with protein product							Standard	NM_181719		Approved	DKFZp686C23231	uc001bcn.3	Q5TGY1	OTTHUMG00000002697	ENST00000294543.6:c.893C>T	1.37:g.20067419G>A	ENSP00000294543:p.Pro298Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TGY2|Q6MZN5|Q7Z6K6|Q9UQP4|Q9Y3K1	Missense_Mutation	SNP	ENST00000294543.6	37	CCDS198.1	.	.	.	.	.	.	.	.	.	.	G	21.1	4.100784	0.76983	0.0	1.16E-4	ENSG00000162542	ENST00000294543;ENST00000375127;ENST00000375122	T;T;T	0.46063	0.88;0.88;0.88	5.35	5.35	0.76521	.	0.000000	0.85682	D	0.000000	T	0.65964	0.2742	M	0.78916	2.43	0.80722	D	1	D	0.89917	1.0	D	0.73708	0.981	T	0.69873	-0.5027	10	0.72032	D	0.01	-13.9474	16.5542	0.84481	0.0:0.0:1.0:0.0	.	298	Q5TGY1	TMCO4_HUMAN	L	298;298;258	ENSP00000294543:P298L;ENSP00000364269:P298L;ENSP00000364264:P258L	ENSP00000294543:P298L	P	-	2	0	TMCO4	19940006	1.000000	0.71417	0.954000	0.39281	0.583000	0.36354	9.114000	0.94329	2.506000	0.84524	0.655000	0.94253	CCG		0.617	TMCO4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000007658.1	NM_181719		A	20067419	G	A	20067419	3	1	664	1	0	0	0	0	1	0	0	0	16010	1116	39	1	1035	1	TMCO4	1	20067419	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	61606	20067419	229183202	21	41331										
ALPL	249	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	21887145	21887145	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agaaagaccccaagtactggCgagaccaagcgcaagagaca	11	11	0	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:21887145C>T	ENST00000374840.3	+	3	338	c.88C>T	c.(88-90)Cga>Tga	p.R30*	ALPL_ENST00000374832.1_Nonsense_Mutation_p.R30*|ALPL_ENST00000539907.1_5'UTR|ALPL_ENST00000540617.1_5'UTR|ALPL_ENST00000425315.2_Nonsense_Mutation_p.R30*|ALPL_ENST00000468526.1_3'UTR	NM_000478.4	NP_000469.3	P05186	PPBT_HUMAN	alkaline phosphatase, liver/bone/kidney	30					cellular response to organic cyclic compound (GO:0071407)|cementum mineralization (GO:0071529)|developmental process involved in reproduction (GO:0003006)|endochondral ossification (GO:0001958)|osteoblast differentiation (GO:0001649)|response to antibiotic (GO:0046677)|response to glucocorticoid (GO:0051384)|response to lipopolysaccharide (GO:0032496)|response to vitamin D (GO:0033280)|skeletal system development (GO:0001501)	anchored component of membrane (GO:0031225)|extracellular matrix (GO:0031012)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	alkaline phosphatase activity (GO:0004035)|metal ion binding (GO:0046872)|pyrophosphatase activity (GO:0016462)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(1)|lung(11)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	26		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)|Fospropofol(DB06716)	CAAGTACTGGCGAGACCAAGC	0.517																																																0													92	90	91					1																	21887145		2203	4300	6503	SO:0001587	stop_gained	249			BC021289	CCDS217.1, CCDS53274.1, CCDS53275.1	1p36.12	2008-02-05			ENSG00000162551	ENSG00000162551	3.1.3.1		438	protein-coding gene	gene with protein product		171760		HOPS		3532105, 3446011	Standard	NM_001127501		Approved	TNSALP	uc001bet.3	P05186	OTTHUMG00000002949	ENST00000374840.3:c.88C>T	1.37:g.21887145C>T	ENSP00000363973:p.Arg30*	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4E7|B2RMP8|B7Z387|B7Z4Y6|O75090|Q2TAI7|Q59EJ7|Q5BKZ5|Q5VTG5|Q6NZI8|Q8WU32|Q9UBK0	Nonsense_Mutation	SNP	ENST00000374840.3	37	CCDS217.1	.	.	.	.	.	.	.	.	.	.	C	24.4	4.522219	0.85600	.	.	ENSG00000162551	ENST00000374840;ENST00000374832;ENST00000425315	.	.	.	5.71	0.99	0.19807	.	0.095596	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.19590	T	0.45	-7.7262	14.81	0.69989	0.4959:0.504:0.0:0.0	.	.	.	.	X	30	.	ENSP00000363965:R30X	R	+	1	2	ALPL	21759732	0.969000	0.33509	0.933000	0.37362	0.228000	0.25075	0.388000	0.20735	0.243000	0.21327	-0.314000	0.08810	CGA		0.517	ALPL-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000008202.1	NM_000478		T	21887145	C	T	21887145	4	4	664	1	0	0	0	0	0	1	0	0	547	760	27	1	94	1	ALPL	1	21887145	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1819726	21887145	227363476	22	41332										
EPHA8	2046	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr1	22902937	22902937	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aacctctactacctggagtcGgaccgcgacctgggggccag	13	14	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:22902937G>A	ENST00000166244.3	+	3	459	c.387G>A	c.(385-387)tcG>tcA	p.S129S	EPHA8_ENST00000374644.4_Silent_p.S129S|EPHA8_ENST00000538803.1_Silent_p.S129S	NM_020526.3	NP_065387.1	P29322	EPHA8_HUMAN	EPH receptor A8	129	Eph LBD. {ECO:0000255|PROSITE- ProRule:PRU00883}.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|ephrin receptor signaling pathway (GO:0048013)|neuron projection development (GO:0031175)|neuron remodeling (GO:0016322)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|protein autophosphorylation (GO:0046777)|regulation of cell adhesion (GO:0030155)|regulation of cell adhesion mediated by integrin (GO:0033628)|substrate-dependent cell migration (GO:0006929)	endosome (GO:0005768)|integral component of plasma membrane (GO:0005887)|neuron projection (GO:0043005)	ATP binding (GO:0005524)|GPI-linked ephrin receptor activity (GO:0005004)	p.S129S(2)		breast(3)|central_nervous_system(5)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|kidney(9)|large_intestine(6)|lung(22)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	61		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)		ACCTGGAGTCGGACCGCGACC	0.592																																																2	Substitution - coding silent(2)	upper_aerodigestive_tract(2)											65	61	63					1																	22902937		2203	4300	6503	SO:0001819	synonymous_variant	2046			BC038796	CCDS225.1, CCDS30626.1	1p36.12	2013-02-11	2004-10-28		ENSG00000070886	ENSG00000070886	2.7.10.1	"EPH receptors", "Sterile alpha motif (SAM) domain containing", "Fibronectin type III domain containing"	3391	protein-coding gene	gene with protein product		176945	"EphA8"	EEK		1648701	Standard	NM_001006943		Approved	Hek3	uc001bfx.1	P29322	OTTHUMG00000002892	ENST00000166244.3:c.387G>A	1.37:g.22902937G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IN80|Q8IUX6|Q9NUA9|Q9P269	Silent	SNP	ENST00000166244.3	37	CCDS225.1																																																																																				0.592	EPHA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008085.1	NM_020526		A	22902937	G	A	22902937	2	1	664	1	0	0	0	0	0	0	0	1	5175	1103	39	1		1	EPHA8	1	22902937	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1015792	22902937	226347684	23	41333										
SEPN1	57190	broad.mit.edu;bcgsc.ca	37	chr1	26140634	26140634	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggagaagtacagcttccccGtggagatgatgatctgcctg	13	9	1	4	rs138259627		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:26140634G>A	ENST00000527604.1	+	2	88	c.88G>A	c.(88-90)Gtg>Atg	p.V30M	SEPN1_ENST00000494537.1_3'UTR|SEPN1_ENST00000361547.2_Missense_Mutation_p.V523M|SEPN1_ENST00000374315.1_Missense_Mutation_p.V489M|RP1-317E23.3_ENST00000442055.1_RNA|SEPN1_ENST00000354177.4_Missense_Mutation_p.V489M																							CAGCTTCCCCGTGGAGATGAT	0.647													G|||	1	0.000199681	0.0	0.0	5008	,	,		18421	0.001		0.0	False		,,,				2504	0.0															0													75	93	87					1																	26140634		2114	4213	6327	SO:0001583	missense	57190																														ENST00000527604.1:c.88G>A	1.37:g.26140634G>A	ENSP00000457066:p.Val30Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000527604.1	37		1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	G	28.7	4.941056	0.92526	.	.	ENSG00000162430	ENST00000361547;ENST00000354177;ENST00000374315	D;D;D	0.92699	-3.09;-3.07;-3.06	5.04	5.04	0.67666	.	0.000000	0.85682	D	0.000000	D	0.95611	0.8573	M	0.67953	2.075	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.997	D	0.95888	0.8904	10	0.87932	D	0	-32.1731	18.5754	0.91153	0.0:0.0:1.0:0.0	.	489;523	Q9NZV5-2;Q9NZV5	.;SELN_HUMAN	M	523;489;489	ENSP00000355141:V523M;ENSP00000346109:V489M;ENSP00000363434:V489M	ENSP00000432311:V30M	V	+	1	0	SEPN1	26013221	1.000000	0.71417	0.992000	0.48379	0.950000	0.60333	9.657000	0.98554	2.630000	0.89119	0.561000	0.74099	GTG		0.647	RP1-317E23.6-001	KNOWN	mRNA_start_NF|cds_start_NF|basic|appris_principal|readthrough_transcript	nonsense_mediated_decay	protein_coding	OTTHUMT00000393345.1			A	26140634	G	A	26140634	3	1	664	1	0	0	0	0	1	0	0	0	14069	1145	40	1	1613	1	SEPN1	1	26140634	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3237697	26140634	223109987	24	41334										
SERINC2	347735	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	31899552	31899552	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctgtcgatcgcggccgtggCgctgatgttcatgtactaca	13	11	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:31899552C>T	ENST00000373709.3	+	6	812	c.662C>T	c.(661-663)gCg>gTg	p.A221V	SERINC2_ENST00000536859.1_Missense_Mutation_p.A225V|SERINC2_ENST00000373710.1_Missense_Mutation_p.A230V|SERINC2_ENST00000536384.1_Missense_Mutation_p.A225V|SERINC2_ENST00000491976.1_3'UTR	NM_178865.4	NP_849196.2	Q96SA4	SERC2_HUMAN	serine incorporator 2	221					phosphatidylserine metabolic process (GO:0006658)|positive regulation of transferase activity (GO:0051347)|sphingolipid metabolic process (GO:0006665)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	L-serine transmembrane transporter activity (GO:0015194)			cervix(1)|endometrium(2)|large_intestine(1)|lung(4)|ovary(1)|prostate(1)|skin(2)	12		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0629)|Breast(348;0.0707)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0541)|READ - Rectum adenocarcinoma(331;0.151)		GCGGCCGTGGCGCTGATGTTC	0.597																																																0													209	183	192					1																	31899552		2203	4300	6503	SO:0001583	missense	347735			AY094595	CCDS30662.1, CCDS55583.1, CCDS55584.1, CCDS55585.1	1p35.1	2008-02-05	2005-11-01	2005-11-01	ENSG00000168528	ENSG00000168528			23231	protein-coding gene	gene with protein product		614549	"tumor differentially expressed 2-like"	TDE2L		12949800	Standard	NM_178865		Approved	FKSG84, PRO0899, TDE2	uc010ogh.2	Q96SA4	OTTHUMG00000003796	ENST00000373709.3:c.662C>T	1.37:g.31899552C>T	ENSP00000362813:p.Ala221Val	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVB4|B4DJK5|B7Z567|B7ZAP2|E7EUZ9|Q86Y23	Missense_Mutation	SNP	ENST00000373709.3	37	CCDS30662.1	.	.	.	.	.	.	.	.	.	.	C	0.011	-1.741064	0.00675	.	.	ENSG00000168528	ENST00000373710;ENST00000536859;ENST00000373709;ENST00000536384	T;T;T;T	0.11277	2.79;2.79;2.79;2.79	4.99	-0.359	0.12571	.	0.733403	0.13725	N	0.367136	T	0.04182	0.0116	N	0.04805	-0.155	0.09310	N	1	B;B;B	0.14012	0.0;0.004;0.009	B;B;B	0.09377	0.0;0.004;0.003	T	0.43376	-0.9395	10	0.02654	T	1	-1.0421	11.9824	0.53127	0.0:0.5352:0.0:0.4648	.	225;230;221	B4DJK5;E7EUZ9;Q96SA4	.;.;SERC2_HUMAN	V	230;225;221;225	ENSP00000362814:A230V;ENSP00000444307:A225V;ENSP00000362813:A221V;ENSP00000439048:A225V	ENSP00000362813:A221V	A	+	2	0	SERINC2	31672139	0.009000	0.17119	0.000000	0.03702	0.247000	0.25773	0.477000	0.22196	-0.468000	0.06922	-1.267000	0.01435	GCG		0.597	SERINC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000010680.1	NM_018565		T	31899552	C	T	31899552	3	4	664	1	0	0	0	0	1	0	0	0	14093	768	27	1	684	1	SERINC2	1	31899552	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5758918	31899552	217351069	25	41335										
BAI2	576	broad.mit.edu	37	chr1	32222290	32222290	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcctgcagcgagaaggcccCgtagagcacacccgaggcca	13	15	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:32222290C>T	ENST00000373658.3	-	4	489	c.148G>A	c.(148-150)Ggg>Agg	p.G50R	BAI2_ENST00000373655.2_Missense_Mutation_p.G50R|BAI2_ENST00000398542.1_Missense_Mutation_p.G38R|BAI2_ENST00000398556.3_Missense_Mutation_p.G53R|BAI2_ENST00000257070.4_Missense_Mutation_p.G50R|BAI2_ENST00000398547.1_Missense_Mutation_p.G38R|BAI2_ENST00000527361.1_Missense_Mutation_p.G50R|BAI2_ENST00000398538.1_Missense_Mutation_p.G38R|MIR4254_ENST00000581063.1_RNA	NM_001703.2	NP_001694.2	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	50					G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of angiogenesis (GO:0016525)|neuropeptide signaling pathway (GO:0007218)|peripheral nervous system development (GO:0007422)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			breast(5)|central_nervous_system(2)|endometrium(1)|large_intestine(7)|liver(2)|lung(24)|ovary(7)|pancreas(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	55		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		GAGAAGGCCCCGTAGAGCACA	0.652																																																0													43	44	43					1																	32222290		2201	4298	6499	SO:0001583	missense	576			AB005298	CCDS72746.1, CCDS72747.1	1p35	2014-08-08			ENSG00000121753	ENSG00000121753		"-", "GPCR / Class B : Orphans"	944	protein-coding gene	gene with protein product		602683				9533023	Standard	XM_006710783		Approved		uc001btn.3	O60241	OTTHUMG00000003885	ENST00000373658.3:c.148G>A	1.37:g.32222290C>T	ENSP00000362762:p.Gly50Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGK9|Q5T6K0|Q8NGW8|Q96GZ9	Missense_Mutation	SNP	ENST00000373658.3	37	CCDS346.2	.	.	.	.	.	.	.	.	.	.	C	27.9	4.873768	0.91664	.	.	ENSG00000121753	ENST00000398556;ENST00000398547;ENST00000373658;ENST00000373655;ENST00000398542;ENST00000257070;ENST00000527361;ENST00000398538;ENST00000420125;ENST00000533175	T;T;T;T;T;T;T;T;T;T	0.80033	-0.9;-0.65;-1.32;-1.33;-0.43;-1.32;-1.32;-1.19;-0.93;-0.79	5.22	5.22	0.72569	.	0.000000	0.43747	D	0.000525	D	0.88243	0.6384	L	0.57536	1.79	0.80722	D	1	D;D;D;D;D;D	0.89917	1.0;1.0;1.0;0.999;1.0;1.0	D;D;D;D;D;D	0.97110	0.998;1.0;0.996;0.958;0.999;0.994	D	0.89093	0.3484	10	0.87932	D	0	.	17.9359	0.89012	0.0:1.0:0.0:0.0	.	38;50;38;38;50;50	A2A3C3;O60241-4;O60241-3;A2A3C1;O60241-2;O60241	.;.;.;.;.;BAI2_HUMAN	R	53;38;50;50;38;50;50;38;43;84	ENSP00000381564:G53R;ENSP00000381555:G38R;ENSP00000362762:G50R;ENSP00000362759:G50R;ENSP00000381550:G38R;ENSP00000257070:G50R;ENSP00000435397:G50R;ENSP00000381548:G38R;ENSP00000410921:G43R;ENSP00000437219:G84R	ENSP00000257070:G50R	G	-	1	0	BAI2	31994877	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.453000	0.80700	2.608000	0.88229	0.462000	0.41574	GGG		0.652	BAI2-015	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000381838.1	NM_001703		T	32222290	C	T	32222290	3	4	664	1	0	0	0	0	1	0	0	0	1299	652	23	1	4729	1	BAI2	1	32222290	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	322738	32222290	217028331	26	41336										
CCDC28B	79140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	32667610	32667610	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaggccccaggcacactacGgagggtccctgtgcctacca	11	17	0	0	rs371310338		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:32667610G>A	ENST00000373602.5	+	2	421	c.74G>A	c.(73-75)cGg>cAg	p.R25Q	CCDC28B_ENST00000421922.2_Missense_Mutation_p.R25Q|CCDC28B_ENST00000483009.1_3'UTR|RP4-622L5.7_ENST00000373604.4_RNA	NM_024296.3	NP_077272.2	Q9BUN5	CC28B_HUMAN	coiled-coil domain containing 28B	25			R -> W (in dbSNP:rs1407134).		cilium assembly (GO:0042384)	centrosome (GO:0005813)|cytoplasm (GO:0005737)				large_intestine(4)|lung(3)|ovary(1)|upper_aerodigestive_tract(2)	10		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				GGCACACTACGGAGGGTCCCT	0.637																																																0								G	GLN/ARG	0,4406		0,0,2203	43	51	49		74	5.4	0.8	1		49	1,8599	1.2+/-3.3	0,1,4299	no	missense	CCDC28B	NM_024296.3	43	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	25/201	32667610	1,13005	2203	4300	6503	SO:0001583	missense	79140			BC022848	CCDS354.2, CCDS72749.1	1p36.11-p34.2	2008-02-05			ENSG00000160050	ENSG00000160050			28163	protein-coding gene	gene with protein product		610162				16327777	Standard	XM_006710892		Approved	MGC1203, RP4-622L5.5	uc001bul.1	Q9BUN5	OTTHUMG00000005738	ENST00000373602.5:c.74G>A	1.37:g.32667610G>A	ENSP00000362704:p.Arg25Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K789|Q8TBV8	Missense_Mutation	SNP	ENST00000373602.5	37	CCDS354.2	.	.	.	.	.	.	.	.	.	.	G	34	5.322060	0.95708	0.0	1.16E-4	ENSG00000160050	ENST00000373602;ENST00000421922	T;T	0.54866	0.64;0.55	5.39	5.39	0.77823	.	0.115026	0.64402	D	0.000020	T	0.58047	0.2095	L	0.55481	1.735	0.40176	D	0.97723	D;D	0.76494	0.96;0.999	B;P	0.56751	0.238;0.805	T	0.58411	-0.7641	10	0.40728	T	0.16	-1.0299	8.1332	0.31039	0.084:0.1605:0.7555:0.0	.	25;25	Q9BUN5;E9PM81	CC28B_HUMAN;.	Q	25	ENSP00000362704:R25Q;ENSP00000413017:R25Q	ENSP00000362704:R25Q	R	+	2	0	CCDC28B	32440197	1.000000	0.71417	0.838000	0.33150	0.981000	0.71138	6.802000	0.75175	2.704000	0.92352	0.655000	0.94253	CGG		0.637	CCDC28B-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000015723.4	NM_024296		A	32667610	G	A	32667610	3	1	664	1	0	0	0	0	1	0	0	0	2805	1116	39	1	76	1	CCDC28B	1	32667610	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	445320	32667610	216583011	27	41337										
AK2	204	mdanderson.org	37	chr1	33478959	33478959	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgcaggcggattttcaaggcCttttcattatcatctgatcg	9	9	4	1	rs72884305		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:33478959C>G	ENST00000373449.2	-	6	584	c.543G>C	c.(541-543)aaG>aaC	p.K181N	AK2_ENST00000480134.1_3'UTR|AK2_ENST00000467905.1_Missense_Mutation_p.K181N|AK2_ENST00000548033.1_Missense_Mutation_p.K139N|AK2_ENST00000491241.1_5'Flank|AK2_ENST00000354858.6_Missense_Mutation_p.K181N|RP1-117O3.2_ENST00000427524.1_RNA	NM_001199199.1|NM_013411.4	NP_001186128.1|NP_037543.1			adenylate kinase 2											kidney(1)|large_intestine(2)|lung(4)|skin(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)				TTTTCAAGGCCTTTTCATTAT	0.498																																																0													90	84	86					1																	33478959		2203	4300	6503	SO:0001583	missense	204			U84371	CCDS373.1, CCDS374.1	1p35.1	2014-09-17			ENSG00000004455	ENSG00000004455	2.7.4.3	"Adenylate kinases"	362	protein-coding gene	gene with protein product		103020				8843353, 6961883	Standard	NM_013411		Approved		uc001bwp.2	P54819	OTTHUMG00000004131	ENST00000373449.2:c.543G>C	1.37:g.33478959C>G	ENSP00000362548:p.Lys181Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000373449.2	37	CCDS373.1	579	0.2651098901098901	166	0.33739837398373984	101	0.27900552486187846	109	0.19055944055944055	203	0.2678100263852243	C	13.25	2.182376	0.38511	.	.	ENSG00000004455	ENST00000373449;ENST00000548033;ENST00000467905;ENST00000354858	T;T;T;T	0.76578	-1.03;-1.03;-1.03;-1.03	5.17	1.5	0.22942	.	0.199168	0.50627	D	0.000117	T	0.00012	0.0000	N	0.03071	-0.42	0.80722	D	1	B;B;B;B	0.27416	0.026;0.178;0.108;0.026	B;B;B;B	0.25506	0.022;0.045;0.061;0.022	T	0.34875	-0.9811	10	0.87932	D	0	-26.0335	6.3424	0.21330	0.0:0.4499:0.1246:0.4255	.	173;139;181;181	P54819-5;F8VY04;P54819;P54819-2	.;.;KAD2_HUMAN;.	N	181;139;181;181	ENSP00000362548:K181N;ENSP00000449003:K139N;ENSP00000447082:K181N;ENSP00000346921:K181N	ENSP00000346921:K181N	K	-	3	2	AK2	33251546	0.171000	0.23029	1.000000	0.80357	0.989000	0.77384	-0.404000	0.07205	0.148000	0.19059	0.563000	0.77884	AAG		0.498	AK2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000011884.1	NM_001625		G	33478959	C	G	33478959	3	3	664	1	0	0	0	0	1	0	0	0	440	680	24	4	189	4	AK2	1	33478959	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	811349	33478959	215771662	28	41338										
NCDN	23154	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr1	36028957	36028957	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctcggtgctgcctgacagcGtggagattggcctgcagacc	14	13	0	3	rs571289950		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:36028957G>A	ENST00000373243.2	+	5	1923	c.1540G>A	c.(1540-1542)Gtg>Atg	p.V514M	NCDN_ENST00000373253.3_Missense_Mutation_p.V497M|NCDN_ENST00000356090.4_Missense_Mutation_p.V514M	NM_014284.2	NP_055099.1	Q9UBB6	NCDN_HUMAN	neurochondrin	514					bone resorption (GO:0045453)|neuron projection development (GO:0031175)|regulation of neuronal synaptic plasticity (GO:0048168)	cytosol (GO:0005829)|dendrite (GO:0030425)|membrane (GO:0016020)|neuronal cell body (GO:0043025)				breast(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(3)|pancreas(1)|skin(2)	16		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GCCTGACAGCGTGGAGATTGG	0.627																																																0													104	101	102					1																	36028957		2203	4300	6503	SO:0001583	missense	23154			AB011179	CCDS392.1, CCDS30672.1	1p34.3	2008-02-05			ENSG00000020129	ENSG00000020129			17597	protein-coding gene	gene with protein product		608458				15007648	Standard	NM_014284		Approved	NCDN-1, NCDN-2	uc001bza.3	Q9UBB6	OTTHUMG00000059204	ENST00000373243.2:c.1540G>A	1.37:g.36028957G>A	ENSP00000362340:p.Val514Met	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPR9|Q9UBY2|Q9Y4A6|Q9Y4D9	Missense_Mutation	SNP	ENST00000373243.2	37	CCDS392.1	.	.	.	.	.	.	.	.	.	.	G	19.13	3.768116	0.69878	.	.	ENSG00000020129	ENST00000373253;ENST00000356090;ENST00000373243	.	.	.	4.71	4.71	0.59529	.	0.301676	0.31922	N	0.006852	T	0.36413	0.0966	N	0.22421	0.69	0.30719	N	0.748488	D	0.67145	0.996	P	0.50082	0.63	T	0.41466	-0.9507	9	0.72032	D	0.01	.	10.2947	0.43616	0.1028:0.0:0.8972:0.0	.	514	Q9UBB6	NCDN_HUMAN	M	497;514;514	.	ENSP00000348394:V514M	V	+	1	0	NCDN	35801544	0.995000	0.38212	0.991000	0.47740	0.996000	0.88848	2.410000	0.44592	2.157000	0.67596	0.462000	0.41574	GTG		0.627	NCDN-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131298.1	NM_014284		A	36028957	G	A	36028957	3	1	664	1	0	0	0	0	1	0	0	0	10221	1145	40	1	1558	1	NCDN	1	36028957	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2549998	36028957	213221664	29	41339										
EIF2C3	192669	broad.mit.edu;bcgsc.ca	37	chr1	36479606	36479606	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaatcaaaatgtgggctatcGcttgttttgccacacagagg	10	8	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:36479606G>A	ENST00000373191.4	+	11	1712	c.1363G>A	c.(1363-1365)Gct>Act	p.A455T	AGO3_ENST00000246314.6_Missense_Mutation_p.A221T|RP4-665N4.8_ENST00000479395.2_RNA|RP4-665N4.8_ENST00000466576.2_RNA	NM_024852.3	NP_079128.2	Q9H9G7	AGO3_HUMAN	argonaute RISC catalytic component 3	455					epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|innate immune response (GO:0045087)|mRNA catabolic process (GO:0006402)|negative regulation of translation involved in gene silencing by miRNA (GO:0035278)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch signaling pathway (GO:0007219)|phosphatidylinositol-mediated signaling (GO:0048015)|regulation of stem cell proliferation (GO:0072091)	cytosol (GO:0005829)|membrane (GO:0016020)|micro-ribonucleoprotein complex (GO:0035068)|RISC complex (GO:0016442)	miRNA binding (GO:0035198)|poly(A) RNA binding (GO:0044822)										GTGGGCTATCGCTTGTTTTGC	0.433																																																0													161	152	155					1																	36479606		2203	4300	6503	SO:0001583	missense	192669			AB046787	CCDS399.1, CCDS400.1	1p34	2013-06-03	2013-02-15	2013-02-15	ENSG00000126070	ENSG00000126070		"Argonaute/PIWI family"	18421	protein-coding gene	gene with protein product	"argonaute 3"	607355	"eukaryotic translation initiation factor 2C, 3"	EIF2C3		12906857	Standard	NM_024852		Approved	hAGO3, FLJ12765	uc001bzp.3	Q9H9G7	OTTHUMG00000184172	ENST00000373191.4:c.1363G>A	1.37:g.36479606G>A	ENSP00000362287:p.Ala455Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALI0|Q5TA55|Q9H1U6	Missense_Mutation	SNP	ENST00000373191.4	37	CCDS399.1	.	.	.	.	.	.	.	.	.	.	G	25.1	4.602398	0.87157	.	.	ENSG00000126070	ENST00000373191;ENST00000246314	T;T	0.05786	3.39;3.39	5.65	5.65	0.86999	.	0.048504	0.85682	D	0.000000	T	0.20007	0.0481	M	0.91354	3.2	0.80722	D	1	B	0.26258	0.145	B	0.29440	0.102	T	0.04708	-1.0932	10	0.87932	D	0	-17.7659	19.7916	0.96461	0.0:0.0:1.0:0.0	.	455	Q9H9G7	AGO3_HUMAN	T	455;221	ENSP00000362287:A455T;ENSP00000246314:A221T	ENSP00000246314:A221T	A	+	1	0	EIF2C3	36252193	1.000000	0.71417	0.987000	0.45799	0.859000	0.49053	9.858000	0.99539	2.685000	0.91497	0.650000	0.86243	GCT		0.433	AGO3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019831.4	NM_024852		A	36479606	G	A	36479606	3	1	664	1	0	0	0	0	1	0	0	0	5009	1087	38	1	1405	1	EIF2C3	1	36479606	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	450649	36479606	212771015	30	41340										
EPHA10	284656	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	38227629	38227629	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgcagttccacgaagatgcGctgcccgcggccacggctta	12	15	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:38227629G>A	ENST00000373048.4	-	3	297	c.298C>T	c.(298-300)Cgc>Tgc	p.R100C	EPHA10_ENST00000319637.6_Missense_Mutation_p.R100C|EPHA10_ENST00000427468.2_Missense_Mutation_p.R100C	NM_001099439.1	NP_001092909.1	Q5JZY3	EPHAA_HUMAN	EPH receptor A10	100	Eph LBD. {ECO:0000255|PROSITE- ProRule:PRU00883}.				ephrin receptor signaling pathway (GO:0048013)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)	ATP binding (GO:0005524)|ephrin receptor activity (GO:0005003)|transmembrane-ephrin receptor activity (GO:0005005)			NS(2)|breast(4)|cervix(1)|endometrium(5)|kidney(4)|large_intestine(4)|lung(13)|prostate(3)|skin(8)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	50	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				ACGAAGATGCGCTGCCCGCGG	0.607																																																0													91	85	87					1																	38227629		2203	4300	6503	SO:0001583	missense	284656			AK090974	CCDS425.1, CCDS41305.1	1p34.3	2013-02-11			ENSG00000183317	ENSG00000183317		"EPH receptors", "Sterile alpha motif (SAM) domain containing", "Fibronectin type III domain containing"	19987	protein-coding gene	gene with protein product		611123				12477932	Standard	NM_001099439		Approved	FLJ16103, FLJ33655	uc009vvi.3	Q5JZY3	OTTHUMG00000004325	ENST00000373048.4:c.298C>T	1.37:g.38227629G>A	ENSP00000362139:p.Arg100Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A4FU89|J3KPB5|Q6NW42	Missense_Mutation	SNP	ENST00000373048.4	37	CCDS41305.1	.	.	.	.	.	.	.	.	.	.	G	19.63	3.863579	0.71949	.	.	ENSG00000183317	ENST00000427468;ENST00000373048;ENST00000319637	T;T;T	0.06768	3.26;3.26;3.26	4.47	3.47	0.39725	Ephrin receptor, ligand binding (2);Galactose-binding domain-like (1);	0.000000	0.40728	N	0.001040	T	0.34919	0.0914	M	0.92026	3.265	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.43766	-0.9371	10	0.87932	D	0	.	13.4895	0.61386	0.0:0.0:0.7792:0.2208	.	100;100	Q5JZY3;Q5JZY3-2	EPHAA_HUMAN;.	C	100	ENSP00000397746:R100C;ENSP00000362139:R100C;ENSP00000316395:R100C	ENSP00000316395:R100C	R	-	1	0	EPHA10	38000216	1.000000	0.71417	1.000000	0.80357	0.924000	0.55760	0.937000	0.28951	2.448000	0.82819	0.549000	0.68633	CGC		0.607	EPHA10-003	KNOWN	not_organism_supported|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000012497.2	NM_173641		A	38227629	G	A	38227629	3	1	664	1	0	0	0	0	1	0	0	0	5168	1087	38	1	2826	1	EPHA10	1	38227629	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1748023	38227629	211022992	31	41341										
INPP5B	3633	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	38345781	38345781	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tatcccagtcgtcagagcccGtatcatacttgtaagtaggc	9	11	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:38345781G>A	ENST00000373026.1	-	14	1757	c.1757C>T	c.(1756-1758)aCg>aTg	p.T586M	INPP5B_ENST00000458109.2_3'UTR|INPP5B_ENST00000373024.3_Missense_Mutation_p.T506M|INPP5B_ENST00000373023.2_Missense_Mutation_p.T586M|INPP5B_ENST00000373027.1_Missense_Mutation_p.T342M			P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	586	5-phosphatase. {ECO:0000250}.				in utero embryonic development (GO:0001701)|inositol phosphate metabolic process (GO:0043647)|phosphatidylinositol dephosphorylation (GO:0046856)|regulation of protein processing (GO:0070613)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|small molecule metabolic process (GO:0044281)|sperm motility (GO:0030317)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|plasma membrane (GO:0005886)	inositol-1,4,5-trisphosphate 5-phosphatase activity (GO:0052658)|metal ion binding (GO:0046872)|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity (GO:0004439)			breast(1)|endometrium(2)|large_intestine(1)|liver(1)|lung(9)|urinary_tract(1)	15	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				GTCAGAGCCCGTATCATACTT	0.483																																																0													109	105	106					1																	38345781		1855	4100	5955	SO:0001583	missense	3633			M74161	CCDS41306.1, CCDS72760.1	1p34	2008-02-05	2002-08-29		ENSG00000204084	ENSG00000204084	3.1.3.56		6077	protein-coding gene	gene with protein product		147264	"inositol polyphosphate-5-phosphatase, 75kD"			1718960	Standard	NM_005540		Approved		uc001ccg.1	P32019	OTTHUMG00000004436	ENST00000373026.1:c.1757C>T	1.37:g.38345781G>A	ENSP00000362117:p.Thr586Met	Somatic		WXS	Illumina HiSeq	Phase_I	C9J6U5|Q5VSG9|Q5VSH0|Q5VSH1|Q658Q5|Q6P6D4|Q6PD53|Q86YE1	Missense_Mutation	SNP	ENST00000373026.1	37		.	.	.	.	.	.	.	.	.	.	G	29.6	5.019861	0.93462	.	.	ENSG00000204084	ENST00000373027;ENST00000373023;ENST00000373029;ENST00000373026;ENST00000373024	T;T;T;T	0.80480	-1.38;-1.38;-1.38;-1.38	5.83	5.83	0.93111	Endonuclease/exonuclease/phosphatase (2);Inositol polyphosphate-related phosphatase (1);	0.093070	0.85682	D	0.000000	D	0.86087	0.5849	L	0.41356	1.27	0.80722	D	1	D;D	0.89917	1.0;1.0	D;P	0.68353	0.957;0.842	D	0.84515	0.0624	10	0.41790	T	0.15	.	20.1184	0.97949	0.0:0.0:1.0:0.0	.	586;506	P32019;P32019-2	I5P2_HUMAN;.	M	342;586;586;586;506	ENSP00000362118:T342M;ENSP00000362114:T586M;ENSP00000362117:T586M;ENSP00000362115:T506M	ENSP00000362114:T586M	T	-	2	0	INPP5B	38118368	1.000000	0.71417	0.992000	0.48379	0.995000	0.86356	9.637000	0.98443	2.769000	0.95229	0.655000	0.94253	ACG		0.483	INPP5B-003	KNOWN	non_canonical_conserved|basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000012968.1	NM_005540		A	38345781	G	A	38345781	3	1	664	1	0	0	0	0	1	0	0	0	7762	1145	40	1	1264	1	INPP5B	1	38345781	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	118152	38345781	210904840	32	41342										
MACF1	23499	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	39951259	39951259	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agtcgggctgggagtcgagcCgggagtcgagccagcagccg	19	11	0	0	rs201356281		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:39951259C>T	ENST00000372915.3	+	97	22047	c.21960C>T	c.(21958-21960)gcC>gcT	p.A7320A	MACF1_ENST00000361689.2_Silent_p.A5362A|MACF1_ENST00000567887.1_Silent_p.A7524A|MACF1_ENST00000289893.4_Silent_p.A5870A|MACF1_ENST00000564288.1_Silent_p.A7487A|MACF1_ENST00000539005.1_Silent_p.A5232A|MACF1_ENST00000545844.1_Silent_p.A5362A|MACF1_ENST00000317713.7_Silent_p.A5362A			Q9UPN3	MACF1_HUMAN	microtubule-actin crosslinking factor 1	7320	4 X 4 AA tandem repeats of [GS]-S-R-[AR].|C-terminal tail. {ECO:0000250}.|Ser-rich.				ATP catabolic process (GO:0006200)|cell cycle arrest (GO:0007050)|Golgi to plasma membrane protein transport (GO:0043001)|positive regulation of Wnt signaling pathway (GO:0030177)|regulation of epithelial cell migration (GO:0010632)|regulation of focal adhesion assembly (GO:0051893)|regulation of microtubule-based process (GO:0032886)|Wnt signaling pathway (GO:0016055)|wound healing (GO:0042060)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|ATPase activity (GO:0016887)|calcium ion binding (GO:0005509)|poly(A) RNA binding (GO:0044822)			breast(11)|central_nervous_system(5)|endometrium(18)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(36)|lung(78)|ovary(12)|prostate(2)|skin(9)|stomach(2)|upper_aerodigestive_tract(8)|urinary_tract(10)	203	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)			ggagtcgagccgggagtcgag	0.552																																																0													38	44	42					1																	39951259		2203	4300	6503	SO:0001819	synonymous_variant	23499			AB007934	CCDS435.1	1p32-p31	2013-01-10			ENSG00000127603	ENSG00000127603		"EF-hand domain containing"	13664	protein-coding gene	gene with protein product	"actin cross-linking factor", "620 kDa actin binding protein", "macrophin 1", "trabeculin-alpha", "actin cross-linking family protein 7"	608271				7635207, 10529403	Standard	NM_012090		Approved	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776	uc031pmc.1	Q9UPN3	OTTHUMG00000007754	ENST00000372915.3:c.21960C>T	1.37:g.39951259C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B1ALC5|E9PJT0|O75053|Q5VW20|Q8WXY1|Q8WXY2|Q96PK2|Q9H540|Q9UKP0|Q9ULG9	Silent	SNP	ENST00000372915.3	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	4.254|4.254	0.046072|0.046072	0.08243|0.08243	.|.	.|.	ENSG00000127603|ENSG00000127603	ENST00000360115;ENST00000442046|ENST00000372925;ENST00000446276	.|.	.|.	.|.	5.28|5.28	-5.68|-5.68	0.02436|0.02436	.|.	.|.	.|.	.|.	.|.	T|T	0.38532|0.38532	0.1044|0.1044	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	T|T	0.39643|0.39643	-0.9604|-0.9604	4|4	.|.	.|.	.|.	.|.	3.3677|3.3677	0.07210|0.07210	0.093:0.2728:0.1651:0.4691|0.093:0.2728:0.1651:0.4691	.|.	.|.	.|.	.|.	L|W	475;300|4366;387	.|.	.|.	P|R	+|+	2|1	0|2	MACF1|MACF1	39723846|39723846	0.000000|0.000000	0.05858|0.05858	0.842000|0.842000	0.33263|0.33263	0.980000|0.980000	0.70556|0.70556	-4.901000|-4.901000	0.00172|0.00172	-0.904000|-0.904000	0.03876|0.03876	-0.786000|-0.786000	0.03341|0.03341	CCG|CGG		0.552	MACF1-028	NOVEL	not_organism_supported|basic|appris_candidate|exp_conf	protein_coding	protein_coding	OTTHUMT00000392096.1	NM_033044		T	39951259	C	T	39951259	2	4	664	1	0	0	0	0	0	0	0	1	9151	639	23	1		1	MACF1	1	39951259	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1605478	39951259	209299362	33	41343										
NT5C1A	84618	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	40125029	40125029	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcgcagggtcttgagagcccGggccccggaactggctgcac	16	14	1	1	rs539519081		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:40125029G>A	ENST00000235628.1	-	6	870	c.871C>T	c.(871-873)Cgg>Tgg	p.R291W		NM_032526.1	NP_115915.1	Q9BXI3	5NT1A_HUMAN	5'-nucleotidase, cytosolic IA	291					adenosine metabolic process (GO:0046085)|dephosphorylation (GO:0016311)|nucleobase-containing small molecule metabolic process (GO:0055086)|nucleoside metabolic process (GO:0009116)|purine nucleobase metabolic process (GO:0006144)|purine nucleoside monophosphate catabolic process (GO:0009128)|purine nucleotide catabolic process (GO:0006195)|pyrimidine nucleobase metabolic process (GO:0006206)|pyrimidine nucleoside catabolic process (GO:0046135)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	5'-nucleotidase activity (GO:0008253)|magnesium ion binding (GO:0000287)|nucleotide binding (GO:0000166)			breast(1)|large_intestine(3)|lung(7)|ovary(2)|prostate(2)	15	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)			TTGAGAGCCCGGGCCCCGGAA	0.612													G|||	1	0.000199681	0.0	0.0	5008	,	,		17606	0.0		0.0	False		,,,				2504	0.001															0													47	57	54					1																	40125029		2203	4300	6503	SO:0001583	missense	84618			AF331801	CCDS440.1	1p34.3-p33	2008-07-18			ENSG00000116981	ENSG00000116981			17819	protein-coding gene	gene with protein product	"cytosolic 5' nucleotidase, type 1A", "AMP-specific 5'-NT", "cytosolic 5'-nucleotidase IA"	610525				11133996, 11690631	Standard	NM_032526		Approved	CN-I, CN-IA, CN1A, CN1, MGC119199, MGC119201	uc001cdq.1	Q9BXI3	OTTHUMG00000009244	ENST00000235628.1:c.871C>T	1.37:g.40125029G>A	ENSP00000235628:p.Arg291Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q3SYB9|Q5TG98|Q9BWT8	Missense_Mutation	SNP	ENST00000235628.1	37	CCDS440.1	.	.	.	.	.	.	.	.	.	.	G	26.7	4.764523	0.89932	.	.	ENSG00000116981	ENST00000235628	.	.	.	5.26	5.26	0.73747	.	0.000000	0.85682	D	0.000000	D	0.89750	0.6805	H	0.96111	3.77	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.92744	0.6210	9	0.87932	D	0	-0.3811	19.2474	0.93908	0.0:0.0:1.0:0.0	.	291	Q9BXI3	5NT1A_HUMAN	W	291	.	ENSP00000235628:R291W	R	-	1	2	NT5C1A	39897616	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	6.641000	0.74324	2.624000	0.88883	0.655000	0.94253	CGG		0.612	NT5C1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025626.1	NM_032526		A	40125029	G	A	40125029	3	1	664	1	0	0	0	0	1	0	0	0	10692	1115	39	1	239	1	NT5C1A	1	40125029	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	173770	40125029	209125592	34	41344										
HIVEP3	59269	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	42047504	42047504	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgctctgaggctgacctccGcatctctcgggcatgtgggt	13	13	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:42047504G>A	ENST00000372583.1	-	4	3850	c.2965C>T	c.(2965-2967)Cgg>Tgg	p.R989W	HIVEP3_ENST00000429157.2_Missense_Mutation_p.R989W|HIVEP3_ENST00000460604.1_5'Flank|HIVEP3_ENST00000372584.1_Missense_Mutation_p.R989W|HIVEP3_ENST00000247584.5_Missense_Mutation_p.R989W	NM_024503.4	NP_078779.2	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer binding protein 3	989	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN. {ECO:0000250}.				positive regulation of transcription, DNA-templated (GO:0045893)|skeletal muscle cell differentiation (GO:0035914)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(2)|breast(3)|central_nervous_system(5)|endometrium(13)|kidney(3)|large_intestine(13)|lung(33)|ovary(4)|prostate(5)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	85	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				GCTGACCTCCGCATCTCTCGG	0.602																																																0													77	79	79					1																	42047504		2203	4300	6503	SO:0001583	missense	59269			AF278765	CCDS463.1, CCDS44124.1	1p34	2013-01-08	2001-11-28		ENSG00000127124	ENSG00000127124		"Zinc fingers, C2H2-type"	13561	protein-coding gene	gene with protein product	"kappabinding protein-1"	606649	"human immunodeficiency virus type I enhancer-binding protein 3"			11161801	Standard	NR_038260		Approved	KRC, KBP1, KBP-1, SHN3, FLJ16752, KIAA1555, ZAS3, Schnurri-3, ZNF40C	uc001cha.4	Q5T1R4	OTTHUMG00000006361	ENST00000372583.1:c.2965C>T	1.37:g.42047504G>A	ENSP00000361664:p.Arg989Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A7YY91|Q5T1R5|Q9BZS0|Q9HCL7	Missense_Mutation	SNP	ENST00000372583.1	37	CCDS463.1	.	.	.	.	.	.	.	.	.	.	G	17.07	3.295201	0.60086	.	.	ENSG00000127124	ENST00000372584;ENST00000372583;ENST00000247584;ENST00000429157	T;T;T;T	0.26223	1.75;1.75;1.75;1.75	5.01	4.07	0.47477	.	0.000000	0.45361	D	0.000372	T	0.49457	0.1558	M	0.76727	2.345	0.47584	D	0.99946	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.998	T	0.53585	-0.8418	10	0.87932	D	0	-0.5425	12.1102	0.53836	0.0:0.0:0.6775:0.3224	.	989;989	Q5T1R4-2;Q5T1R4	.;ZEP3_HUMAN	W	989	ENSP00000361665:R989W;ENSP00000361664:R989W;ENSP00000247584:R989W;ENSP00000410828:R989W	ENSP00000247584:R989W	R	-	1	2	HIVEP3	41820091	1.000000	0.71417	1.000000	0.80357	0.841000	0.47740	2.834000	0.48167	1.271000	0.44313	0.462000	0.41574	CGG		0.602	HIVEP3-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000016978.1	NM_024503		A	42047504	G	A	42047504	3	1	664	1	0	0	0	0	1	0	0	0	7195	1086	38	1	4279	1	HIVEP3	1	42047504	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1922475	42047504	207203117	35	41345										
GUCA2B	2981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	42620453	42620453	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggcccagagcctcctgcccGccgtgtgccaccaccctgct	10	20	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:42620453G>A	ENST00000372581.1	+	2	223	c.193G>A	c.(193-195)Gcc>Acc	p.A65T		NM_007102.2	NP_009033.1	Q16661	GUC2B_HUMAN	guanylate cyclase activator 2B (uroguanylin)	65					body fluid secretion (GO:0007589)|cGMP biosynthetic process (GO:0006182)|excretion (GO:0007588)|negative regulation of blood pressure (GO:0045776)|positive regulation of guanylate cyclase activity (GO:0031284)	extracellular vesicular exosome (GO:0070062)	calcium sensitive guanylate cyclase activator activity (GO:0008048)			breast(1)|large_intestine(2)	3	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CCTCCTGCCCGCCGTGTGCCA	0.657																																																0													47	48	47					1																	42620453		2203	4300	6503	SO:0001583	missense	2981			BC069301	CCDS464.1	1p34-p33	2014-01-30			ENSG00000044012	ENSG00000044012		"Endogenous ligands"	4683	protein-coding gene	gene with protein product	"prepro-uroguanylin"	601271				8605041, 9268639	Standard	NM_007102		Approved		uc001chc.1	Q16661	OTTHUMG00000007024	ENST00000372581.1:c.193G>A	1.37:g.42620453G>A	ENSP00000361662:p.Ala65Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LV0	Missense_Mutation	SNP	ENST00000372581.1	37	CCDS464.1	.	.	.	.	.	.	.	.	.	.	g	5.429	0.264302	0.10294	.	.	ENSG00000044012	ENST00000372581	T	0.42900	0.96	4.83	-9.66	0.00534	.	1.074620	0.07201	N	0.857413	T	0.18509	0.0444	L	0.36672	1.1	0.09310	N	1	B	0.34313	0.448	B	0.25987	0.065	T	0.06427	-1.0827	10	0.13470	T	0.59	-0.6155	2.8913	0.05677	0.208:0.0771:0.2167:0.4983	.	65	Q16661	GUC2B_HUMAN	T	65	ENSP00000361662:A65T	ENSP00000361662:A65T	A	+	1	0	GUCA2B	42393040	0.000000	0.05858	0.000000	0.03702	0.019000	0.09904	-4.184000	0.00278	-2.211000	0.00737	-0.974000	0.02594	GCC		0.657	GUCA2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000018307.1	NM_007102		A	42620453	G	A	42620453	3	1	664	1	0	0	0	0	1	0	0	0	6899	1087	38	1	199	1	GUCA2B	1	42620453	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	572949	42620453	206630168	36	41346										
KIAA0467	23334	broad.mit.edu	37	chr1	43896377	43896377	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttccttcatgacctgccacCgctcttcctgcacctcacgt	5	19	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:43896377C>T	ENST00000562955.1	+	31	4520	c.4520C>T	c.(4519-4521)cCg>cTg	p.P1507L	SZT2_ENST00000372442.1_Missense_Mutation_p.P665L	NM_015284.3	NP_056099.3	Q5T011	SZT2_HUMAN	seizure threshold 2 homolog (mouse)	1564					central nervous system development (GO:0007417)|corpus callosum morphogenesis (GO:0021540)|embryo development (GO:0009790)|pigmentation (GO:0043473)|post-embryonic development (GO:0009791)|regulation of superoxide dismutase activity (GO:1901668)	extracellular vesicular exosome (GO:0070062)|peroxisome (GO:0005777)				NS(2)|breast(9)|central_nervous_system(1)|endometrium(17)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(19)|lung(39)|ovary(4)|pancreas(3)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	113						GACCTGCCACCGCTCTTCCTG	0.597																																																0													133	138	137					1																	43896377		2203	4300	6503	SO:0001583	missense	23334			AB007936	CCDS30694.1, CCDS30694.2	1p34.2	2012-11-19	2011-06-10	2011-06-10	ENSG00000198198	ENSG00000198198			29040	protein-coding gene	gene with protein product	"seizure threshold 2 homolog A (mouse)", "seizure threshold 2 homolog B (mouse)"	615463	"chromosome 1 open reading frame 84", "KIAA0467"	C1orf84, KIAA0467		9455484	Standard	NM_015284		Approved	FLJ10387, SZT2B, RP11-506B15.1, FLJ34502, SZT2A	uc001cjk.3	Q5T011	OTTHUMG00000007423	ENST00000562955.1:c.4520C>T	1.37:g.43896377C>T	ENSP00000457168:p.Pro1507Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJK5|A7E2X4|O75055|Q5JUY7|Q5T012|Q5XKC7|Q6ZNI8|Q6ZT24|Q7Z636|Q8NAY9|Q9H5H7|Q9UFQ8	Missense_Mutation	SNP	ENST00000562955.1	37	CCDS30694.2	.	.	.	.	.	.	.	.	.	.	C	22.0	4.227283	0.79576	.	.	ENSG00000198198	ENST00000372442	.	.	.	5.79	5.79	0.91817	.	0.000000	0.85682	D	0.000000	T	0.77579	0.4151	L	0.54323	1.7	0.58432	D	0.999997	D	0.89917	1.0	D	0.91635	0.999	T	0.78086	-0.2341	9	0.87932	D	0	.	20.04	0.97581	0.0:1.0:0.0:0.0	.	1507	Q5T011-5	.	L	665	.	ENSP00000361519:P665L	P	+	2	0	SZT2	43668964	1.000000	0.71417	0.904000	0.35570	0.859000	0.49053	7.314000	0.78988	2.733000	0.93635	0.655000	0.94253	CCG		0.597	SZT2-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019517.3	NM_015284		T	43896377	C	T	43896377	3	4	664	1	0	0	0	0	1	0	0	0	8185	652	23	1	2052	1	KIAA0467	1	43896377	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1275924	43896377	205354244	37	41347										
ST3GAL3	6487	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	44303969	44303969	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tatgcttcagccttgatgacGgccatcttcccccggtaagt	9	13	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:44303969G>A	ENST00000361392.4	+	5	465	c.288G>A	c.(286-288)acG>acA	p.T96T	ST3GAL3_ENST00000528371.1_Silent_p.T80T|ST3GAL3_ENST00000531993.1_Silent_p.T80T|ST3GAL3_ENST00000533933.1_Silent_p.T96T|ST3GAL3_ENST00000335430.6_Silent_p.T80T|ST3GAL3_ENST00000353126.3_Silent_p.T96T|ST3GAL3_ENST00000372366.1_Silent_p.T95T|ST3GAL3_ENST00000372372.2_Silent_p.T134T|ST3GAL3_ENST00000372367.1_Silent_p.T95T|ST3GAL3_ENST00000372368.2_Silent_p.T150T|ST3GAL3_ENST00000372365.1_Silent_p.T96T|ST3GAL3_ENST00000372377.4_Silent_p.T96T|ST3GAL3_ENST00000461375.1_3'UTR|ST3GAL3_ENST00000372369.1_Silent_p.T96T|ST3GAL3_ENST00000347631.2_Silent_p.T111T|ST3GAL3_ENST00000351035.3_Silent_p.T134T|ST3GAL3_ENST00000361746.4_Silent_p.T165T|ST3GAL3_ENST00000361400.4_Silent_p.T80T|ST3GAL3_ENST00000545417.1_Silent_p.T111T|ST3GAL3_ENST00000332628.6_Intron|ST3GAL3_ENST00000531451.1_Silent_p.T80T|ST3GAL3_ENST00000330208.2_Silent_p.T96T|ST3GAL3_ENST00000262915.3_Silent_p.T165T|ST3GAL3_ENST00000372375.2_Silent_p.T150T|ST3GAL3_ENST00000372374.2_Intron|ST3GAL3_ENST00000531816.1_Silent_p.T80T|ST3GAL3_ENST00000372362.2_Silent_p.T96T|ST3GAL3_ENST00000361812.4_Silent_p.T111T	NM_001270459.1|NM_006279.3|NM_174964.2	NP_001257388.1|NP_006270.1|NP_777624.1	Q11203	SIAT6_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase 3	96					carbohydrate metabolic process (GO:0005975)|cellular protein metabolic process (GO:0044267)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate metabolic process (GO:0042339)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|sialylation (GO:0097503)|small molecule metabolic process (GO:0044281)	extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)	beta-galactoside (CMP) alpha-2,3-sialyltransferase activity (GO:0003836)|N-acetyllactosaminide alpha-2,3-sialyltransferase activity (GO:0008118)			central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(6)|lung(3)|ovary(3)|skin(1)	19	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0518)				CCTTGATGACGGCCATCTTCC	0.542																																																0													184	168	173					1																	44303969		2203	4300	6503	SO:0001819	synonymous_variant	6487			L23768	CCDS492.1, CCDS493.1, CCDS494.1, CCDS495.1, CCDS496.1, CCDS497.1, CCDS498.1, CCDS499.1, CCDS500.1, CCDS53310.1, CCDS57988.1, CCDS57989.1, CCDS57990.1, CCDS57991.1, CCDS57992.1, CCDS57993.1, CCDS57994.1	1p34.1	2014-01-31	2005-02-07	2005-02-07	ENSG00000126091	ENSG00000126091	2.4.99.6	"Sialyltransferases"	10866	protein-coding gene	gene with protein product	"ST3Gal III"	606494	"sialyltransferase 6 (N-acetyllacosaminide alpha 2,3-sialyltransferase)", "mental retardation, non-syndromic, autosomal recessive, 12"	SIAT6, MRT12		8333853, 21907012	Standard	NM_174963		Approved		uc001cjz.4	Q11203	OTTHUMG00000007561	ENST00000361392.4:c.288G>A	1.37:g.44303969G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1W2|D3DPX8|Q5T4W9|Q5T4X0|Q5T4X7|Q5T4X8|Q5T4X9|Q5T4Y0|Q5T4Y2|Q5T4Y3|Q5T4Y4|Q86UR6|Q86UR7|Q86UR8|Q86UR9|Q86US0|Q86US1|Q86US2|Q8IX41|Q8IX42|Q8IX43|Q8IX44|Q8IX45|Q8IX46|Q8IX47|Q8IX48|Q8IX49|Q8IX50|Q8IX51|Q8IX52|Q8IX53|Q8IX54|Q8IX55|Q8IX56|Q8IX57|Q8IX58	Silent	SNP	ENST00000361392.4	37	CCDS492.1																																																																																				0.542	ST3GAL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019964.1	NM_174963		A	44303969	G	A	44303969	2	1	664	1	0	0	0	0	0	0	0	1	15228	1103	39	1		1	ST3GAL3	1	44303969	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	407592	44303969	204946652	38	41348										
MAST2	23139	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	46493480	46493480	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggcctcatgagtctgacaaCgaacttgtatgagggtcata	11	8	3	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:46493480C>T	ENST00000361297.2	+	17	2280	c.1997C>T	c.(1996-1998)aCg>aTg	p.T666M	MAST2_ENST00000372009.2_Missense_Mutation_p.T596M	NM_015112.2	NP_055927.2			microtubule associated serine/threonine kinase 2											breast(1)|lung(3)|ovary(5)|stomach(2)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)					AGTCTGACAACGAACTTGTAT	0.458																																																0													115	113	113					1																	46493480		1908	4135	6043	SO:0001583	missense	23139			AB047005	CCDS41326.1	1p34.1	2008-02-05			ENSG00000086015	ENSG00000086015			19035	protein-coding gene	gene with protein product		612257					Standard	NM_015112		Approved	MAST205, KIAA0807	uc001cov.3	Q6P0Q8	OTTHUMG00000008007	ENST00000361297.2:c.1997C>T	1.37:g.46493480C>T	ENSP00000354671:p.Thr666Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000361297.2	37	CCDS41326.1	.	.	.	.	.	.	.	.	.	.	C	21.3	4.134446	0.77662	.	.	ENSG00000086015	ENST00000361297;ENST00000372009;ENST00000432341;ENST00000372008	T;T;T	0.68624	-0.3;-0.26;-0.34	5.41	5.41	0.78517	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.053664	0.64402	D	0.000001	T	0.78181	0.4243	L	0.43554	1.36	0.80722	D	1	D;D;D;D	0.89917	1.0;0.995;1.0;1.0	D;P;D;D	0.91635	0.996;0.906;0.999;0.999	T	0.79443	-0.1801	10	0.87932	D	0	-13.9027	19.5867	0.95492	0.0:1.0:0.0:0.0	.	596;340;596;666	Q6P0Q8-2;E7EWL1;E7ERL6;Q6P0Q8	.;.;.;MAST2_HUMAN	M	666;596;340;551	ENSP00000354671:T666M;ENSP00000361079:T596M;ENSP00000361078:T551M	ENSP00000354671:T666M	T	+	2	0	MAST2	46266067	1.000000	0.71417	0.993000	0.49108	0.426000	0.31534	7.818000	0.86416	2.712000	0.92718	0.561000	0.74099	ACG		0.458	MAST2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000021977.1	NM_015112		T	46493480	C	T	46493480	3	4	664	1	0	0	0	0	1	0	0	0	9332	536	19	1	2063	1	MAST2	1	46493480	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2189511	46493480	202757141	39	41349										
MOBKL2C	148932	broad.mit.edu;hgsc.bcm.edu	37	chr1	47078805	47078805	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cggttgaagaagtccaccacGtgcacggcgatccagtcgtc	12	13	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:47078805G>A	ENST00000319928.3	-	2	419	c.189C>T	c.(187-189)caC>caT	p.H63H	MOB3C_ENST00000477318.1_5'UTR|MKNK1_ENST00000545730.1_Intron|MOB3C_ENST00000271139.8_Silent_p.H115H|MOB3C_ENST00000371940.1_Silent_p.H86H	NM_201403.2	NP_958805.1	Q70IA8	MOB3C_HUMAN	MOB kinase activator 3C	63							metal ion binding (GO:0046872)										AGTCCACCACGTGCACGGCGA	0.637																																																0													113	80	91					1																	47078805		2203	4300	6503	SO:0001819	synonymous_variant	148932			AK091808	CCDS539.1, CCDS540.1	1p34.1	2011-09-28	2011-09-28	2011-09-28	ENSG00000142961	ENSG00000142961		"MOB kinase activators"	29800	protein-coding gene	gene with protein product			"MOB1, Mps One Binder kinase activator-like 2C (yeast)"	MOBKL2C		12477932	Standard	NM_145279		Approved	MOB1E	uc001cqe.4	Q70IA8	OTTHUMG00000007989	ENST00000319928.3:c.189C>T	1.37:g.47078805G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DQ22|Q0VA98|Q5TC10|Q5TC11|Q8NAZ2|Q8NF28	Silent	SNP	ENST00000319928.3	37	CCDS540.1																																																																																				0.637	MOB3C-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_145279		A	47078805	G	A	47078805	2	1	664	1	0	0	0	0	0	0	0	1	9693	1136	40	1		1	MOBKL2C	1	47078805	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	585325	47078805	202171816	40	41350										
BEND5	79656	broad.mit.edu	37	chr1	49208391	49208391	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgaaagtgctccgtaactcCggctcgggctcgagacattc	11	13	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:49208391C>A	ENST00000371833.3	-	4	884	c.798G>T	c.(796-798)ccG>ccT	p.P266P	AGBL4_ENST00000371838.1_Intron|AGBL4_ENST00000371839.1_Intron|BEND5_ENST00000476096.1_Intron	NM_024603.2	NP_078879.2	Q7L4P6	BEND5_HUMAN	BEN domain containing 5	266						Golgi apparatus (GO:0005794)				large_intestine(5)|lung(2)|skin(1)	8						TCCGTAACTCCGGCTCGGGCT	0.468																																																0													104	98	100					1																	49208391		2203	4300	6503	SO:0001819	synonymous_variant	79656			BC007932	CCDS552.2	1p33	2012-11-22	2008-10-03	2008-10-03	ENSG00000162373	ENSG00000162373		"BEN domain containing"	25668	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 165"	C1orf165		12477932	Standard	NM_024603		Approved	FLJ11588	uc001crx.4	Q7L4P6	OTTHUMG00000008153	ENST00000371833.3:c.798G>T	1.37:g.49208391C>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DQ27|Q96A62|Q9HAI3	Silent	SNP	ENST00000371833.3	37	CCDS552.2																																																																																				0.468	BEND5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000022323.1	NM_024603		A	49208391	C	A	49208391	2	1	664	1	0	0	0	0	0	0	0	1	1401	639	23	4		4	BEND5	1	49208391	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2129586	49208391	200042230	41	41351										
SLC1A7	6512	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	53580601	53580601	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccacggtgaggacgcccaggCggctagaggtcttggcatcc	15	13	1	2	rs139757854	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:53580601C>T	ENST00000371494.4	-	3	387	c.260G>A	c.(259-261)cGc>cAc	p.R87H	SLC1A7_ENST00000371491.4_Missense_Mutation_p.R87H|RP11-334A14.8_ENST00000439621.1_RNA	NM_006671.4	NP_006662.3	O00341	EAA5_HUMAN	solute carrier family 1 (glutamate transporter), member 7	87					dicarboxylic acid transport (GO:0006835)|ion transport (GO:0006811)|L-glutamate transport (GO:0015813)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	L-glutamate transmembrane transporter activity (GO:0005313)|sodium:dicarboxylate symporter activity (GO:0017153)			NS(1)|breast(3)|endometrium(3)|kidney(2)|large_intestine(4)|lung(8)|ovary(2)|prostate(1)|skin(1)|stomach(1)	26				Colorectal(1306;0.234)		GACGCCCAGGCGGCTAGAGGT	0.662													C|||	7	0.00139776	0.0038	0.0014	5008	,	,		19321	0.001		0.0	False		,,,				2504	0.0				NSCLC(128;80 1811 21245 38490 51715)											0								C	HIS/ARG	13,4393	21.2+/-45.6	0,13,2190	81	66	71		260	5.7	1	1	dbSNP_134	71	1,8599	1.2+/-3.3	0,1,4299	yes	missense	SLC1A7	NM_006671.4	29	0,14,6489	TT,TC,CC		0.0116,0.2951,0.1076	probably-damaging	87/561	53580601	14,12992	2203	4300	6503	SO:0001583	missense	6512			U76362	CCDS574.1, CCDS72796.1, CCDS72797.1, CCDS72798.1	1p32.3	2013-05-22			ENSG00000162383	ENSG00000162383		"Solute carriers"	10945	protein-coding gene	gene with protein product		604471				9108121	Standard	NM_001287597		Approved	EAAT5	uc001cuy.3	O00341	OTTHUMG00000008937	ENST00000371494.4:c.260G>A	1.37:g.53580601C>T	ENSP00000360549:p.Arg87His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VVZ0|Q969Z8|Q9BW45	Missense_Mutation	SNP	ENST00000371494.4	37	CCDS574.1	2	9.157509157509158E-4	2	0.0040650406504065045	0	0.0	0	0.0	0	0.0	C	36	5.643268	0.96704	0.002951	1.16E-4	ENSG00000162383	ENST00000371494;ENST00000371491	T;T	0.62498	0.02;0.02	5.69	5.69	0.88448	.	0.000000	0.85682	D	0.000000	D	0.85168	0.5635	M	0.93462	3.42	0.80722	D	1	D;D	0.76494	0.998;0.999	D;D	0.74023	0.955;0.982	D	0.88426	0.3032	10	0.87932	D	0	-19.1116	19.8154	0.96566	0.0:1.0:0.0:0.0	.	87;87	Q9BW45;O00341	.;EAA5_HUMAN	H	87	ENSP00000360549:R87H;ENSP00000360546:R87H	ENSP00000360546:R87H	R	-	2	0	SLC1A7	53353189	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.777000	0.68931	2.699000	0.92147	0.655000	0.94253	CGC		0.662	SLC1A7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000024746.1	NM_006671		T	53580601	C	T	53580601	3	4	664	1	0	0	0	0	1	0	0	0	14450	768	27	1	1458	1	SLC1A7	1	53580601	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4372210	53580601	195670020	42	41352										
C1orf168	199920	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	57185885	57185885	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acatatcactagattttgttCggtggtatcaatgacttcca	7	8	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:57185885C>T	ENST00000343433.6	-	18	2172	c.2092G>A	c.(2092-2094)Gaa>Aaa	p.E698K		NM_001004303.4	NP_001004303.3	Q5VWT5	CA168_HUMAN	chromosome 1 open reading frame 168	698										NS(1)|breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(10)|lung(13)|ovary(3)|skin(6)|stomach(1)|urinary_tract(2)	46						AGATTTTGTTCGGTGGTATCA	0.303																																																0													73	69	70					1																	57185885		2202	4299	6501	SO:0001583	missense	199920			BX648439	CCDS30729.1	1p32.2	2011-02-22			ENSG00000187889	ENSG00000187889			27295	protein-coding gene	gene with protein product						14702039	Standard	NM_001004303		Approved	RP4-758N20.2, FLJ43208	uc001cym.4	Q5VWT5	OTTHUMG00000008281	ENST00000343433.6:c.2092G>A	1.37:g.57185885C>T	ENSP00000345972:p.Glu698Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q63HM3|Q6ZUY6	Missense_Mutation	SNP	ENST00000343433.6	37	CCDS30729.1	.	.	.	.	.	.	.	.	.	.	C	14.56	2.573175	0.45902	.	.	ENSG00000187889	ENST00000343433	T	0.33865	1.39	4.85	1.8	0.24995	Src homology-3 domain (2);	0.106418	0.40385	N	0.001119	T	0.30510	0.0767	M	0.68317	2.08	0.37302	D	0.908737	B	0.31989	0.35	B	0.22880	0.042	T	0.33624	-0.9861	10	0.62326	D	0.03	-12.4878	8.1341	0.31043	0.0:0.7104:0.1321:0.1575	.	698	Q5VWT5	CA168_HUMAN	K	698	ENSP00000345972:E698K	ENSP00000345972:E698K	E	-	1	0	C1orf168	56958473	0.970000	0.33590	0.944000	0.38274	0.296000	0.27459	1.987000	0.40687	0.777000	0.33496	-0.727000	0.03589	GAA		0.303	C1orf168-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000022751.2	NM_001004303		T	57185885	C	T	57185885	3	4	664	1	0	0	0	0	1	0	0	0	2014	893	31	1	106	1	C1orf168	1	57185885	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3605284	57185885	192064736	43	41353										
NFIA	4774	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	61818215	61818215	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccaggagcaatgaggaggtCtttacccagcacatcctcta	9	12	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:61818215C>T	ENST00000403491.3	+	5	1278	c.794C>T	c.(793-795)tCt>tTt	p.S265F	NFIA_ENST00000479364.1_3'UTR|NFIA_ENST00000371185.2_Missense_Mutation_p.S243F|NFIA_ENST00000485903.2_Missense_Mutation_p.S265F|NFIA_ENST00000371187.3_Missense_Mutation_p.S265F|NFIA_ENST00000407417.3_Missense_Mutation_p.S257F|NFIA_ENST00000371189.4_Missense_Mutation_p.S310F|NFIA_ENST00000371191.1_Missense_Mutation_p.S288F|NFIA_ENST00000371184.2_Intron	NM_001134673.3|NM_005595.4	NP_001128145.1|NP_005586.1	Q12857	NFIA_HUMAN	nuclear factor I/A	265					DNA replication (GO:0006260)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|response to organic cyclic compound (GO:0014070)|viral genome replication (GO:0019079)	nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)		NFIA/EHF(2)	endometrium(1)|kidney(2)|large_intestine(8)|lung(20)|pancreas(1)|prostate(1)|skin(1)	34						ATGAGGAGGTCTTTACCCAGC	0.433																																																0													99	97	97					1																	61818215		2203	4300	6503	SO:0001583	missense	4774			U07809	CCDS615.1, CCDS44156.1, CCDS53322.1, CCDS53321.1	1p31.3-p31.2	2008-02-05			ENSG00000162599	ENSG00000162599			7784	protein-coding gene	gene with protein product		600727				7590749	Standard	NM_001134673		Approved	NFI-L, KIAA1439	uc010oos.2	Q12857	OTTHUMG00000008618	ENST00000403491.3:c.794C>T	1.37:g.61818215C>T	ENSP00000384523:p.Ser265Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRJ3|B4DS53|F5H0R0|F8W8W3|Q8TA97|Q9H3X9|Q9P2A9	Missense_Mutation	SNP	ENST00000403491.3	37	CCDS44156.1	.	.	.	.	.	.	.	.	.	.	C	27.5	4.838354	0.91117	.	.	ENSG00000162599	ENST00000371191;ENST00000407417;ENST00000371189;ENST00000403491;ENST00000485903;ENST00000371185;ENST00000371187	T;T;T;T;T;T;T	0.51325	0.71;0.71;0.71;0.71;0.71;0.71;0.71	5.85	5.85	0.93711	.	0.055720	0.85682	D	0.000000	T	0.60157	0.2247	M	0.77820	2.39	0.54753	D	0.999984	P;P;P;P	0.47191	0.785;0.891;0.82;0.867	P;P;B;B	0.46026	0.466;0.501;0.378;0.367	T	0.65368	-0.6185	10	0.72032	D	0.01	-11.0848	20.1576	0.98120	0.0:1.0:0.0:0.0	.	310;288;265;265	F8W8W3;B1AKN8;Q12857;Q12857-2	.;.;NFIA_HUMAN;.	F	288;257;310;265;265;243;265	ENSP00000360233:S288F;ENSP00000384680:S257F;ENSP00000360231:S310F;ENSP00000384523:S265F;ENSP00000419785:S265F;ENSP00000360227:S243F;ENSP00000360229:S265F	ENSP00000360227:S243F	S	+	2	0	NFIA	61590803	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.212000	0.77941	2.773000	0.95371	0.650000	0.86243	TCT		0.433	NFIA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023799.3	NM_005595		T	61818215	C	T	61818215	3	4	664	1	0	0	0	0	1	0	0	0	10377	913	32	2	958	2	NFIA	1	61818215	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4632330	61818215	187432406	44	41354										
KANK4	163782	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	62739646	62739646	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttctttgctccctagctttgAtttcctcttcctgctgctgg	7	13	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:62739646A>T	ENST00000371153.4	-	3	1508	c.1130T>A	c.(1129-1131)aTc>aAc	p.I377N	KANK4_ENST00000354381.3_Intron|KANK4_ENST00000371150.1_5'Flank	NM_181712.4	NP_859063.3	Q5T7N3	KANK4_HUMAN	KN motif and ankyrin repeat domains 4	377						cytoplasm (GO:0005737)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(49)|ovary(3)|prostate(4)|skin(9)|stomach(1)|upper_aerodigestive_tract(2)	81						CCTAGCTTTGATTTCCTCTTC	0.542																																																0													119	108	112					1																	62739646		2203	4300	6503	SO:0001583	missense	163782			AK096259	CCDS620.1	1p31.3	2013-10-11	2008-01-29	2008-01-29	ENSG00000132854	ENSG00000132854		"KN motif and ankyrin repeat domain containing", "Ankyrin repeat domain containing"	27263	protein-coding gene	gene with protein product		614612	"ankyrin repeat domain 38"	ANKRD38		17996375, 19554261	Standard	NM_181712		Approved	KIAA0172	uc001dah.4	Q5T7N3	OTTHUMG00000008971	ENST00000371153.4:c.1130T>A	1.37:g.62739646A>T	ENSP00000360195:p.Ile377Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALP7|Q6P9A0|Q86T71|Q86VE6|Q8NAX3	Missense_Mutation	SNP	ENST00000371153.4	37	CCDS620.1	.	.	.	.	.	.	.	.	.	.	A	3.082	-0.188865	0.06299	.	.	ENSG00000132854	ENST00000371153	T	0.44881	0.91	5.36	0.288	0.15719	.	1.022470	0.07836	N	0.962235	T	0.30916	0.0780	L	0.40543	1.245	0.09310	N	1	B	0.34181	0.44	B	0.31191	0.125	T	0.25813	-1.0121	10	0.87932	D	0	-1.2477	5.3376	0.15967	0.6232:0.1378:0.239:0.0	.	377	Q5T7N3	KANK4_HUMAN	N	377	ENSP00000360195:I377N	ENSP00000360195:I377N	I	-	2	0	KANK4	62512234	0.000000	0.05858	0.036000	0.18154	0.004000	0.04260	0.556000	0.23438	-0.194000	0.10399	-0.415000	0.06103	ATC		0.542	KANK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000024877.1	NM_181712		T	62739646	A	T	62739646	3	4	664	1	0	0	0	0	1	0	0	0	7986	333	12	5	1889	5	KANK4	1	62739646	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	921431	62739646	186510975	45	41355										
DOCK7	85440	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	62979274	62979274	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cattcgttcaaacactttttTcccctaaaatgtaaacatta	2	10	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:62979274T>C	ENST00000340370.5	-	32	4047	c.4030A>G	c.(4030-4032)Aaa>Gaa	p.K1344E	DOCK7_ENST00000251157.5_Missense_Mutation_p.K1375E	NM_033407.2	NP_212132.2	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	1375					activation of Rac GTPase activity (GO:0032863)|axonogenesis (GO:0007409)|establishment of neuroblast polarity (GO:0045200)|hematopoietic progenitor cell differentiation (GO:0002244)|interkinetic nuclear migration (GO:0022027)|microtubule cytoskeleton organization (GO:0000226)|neuron projection development (GO:0031175)|pigmentation (GO:0043473)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|regulation of neurogenesis (GO:0050767)|small GTPase mediated signal transduction (GO:0007264)	axon (GO:0030424)|basal part of cell (GO:0045178)|focal adhesion (GO:0005925)|growth cone (GO:0030426)|neuron projection (GO:0043005)	guanyl-nucleotide exchange factor activity (GO:0005085)|Rac GTPase binding (GO:0048365)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(8)|kidney(6)|large_intestine(19)|lung(42)|ovary(2)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	92						AACACTTTTTTCCCCTAAAAT	0.353																																																0													75	73	73					1																	62979274		2203	4300	6503	SO:0001583	missense	85440				CCDS30734.1, CCDS60156.1, CCDS60157.1	1p32.1	2008-02-05			ENSG00000116641	ENSG00000116641			19190	protein-coding gene	gene with protein product		615730				12432077	Standard	NM_033407		Approved	KIAA1771, ZIR2	uc001daq.4	Q96N67	OTTHUMG00000013131	ENST00000340370.5:c.4030A>G	1.37:g.62979274T>C	ENSP00000340742:p.Lys1344Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q00M63|Q2PPY7|Q45RE8|Q45RE9|Q5T1B9|Q5T1C0|Q6ZV32|Q8TB82|Q96NG6|Q96NI0|Q9C092	Missense_Mutation	SNP	ENST00000340370.5	37	CCDS30734.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	20.2|20.2	3.944363|3.944363	0.73672|0.73672	.|.	.|.	ENSG00000116641|ENSG00000116641	ENST00000454575|ENST00000371140;ENST00000251157;ENST00000340370;ENST00000395441	.|T;T	.|0.02216	.|4.39;4.39	5.63|5.63	5.63|5.63	0.86233|0.86233	.|.	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.10380|0.10380	0.0254|0.0254	M|M	0.76574|0.76574	2.34|2.34	0.80722|0.80722	D|D	1|1	.|B;P;P;P;P;P	.|0.52170	.|0.397;0.855;0.835;0.835;0.951;0.824	.|B;P;P;P;P;P	.|0.57548	.|0.269;0.64;0.574;0.574;0.823;0.767	T|T	0.00260|0.00260	-1.1869|-1.1869	5|10	.|0.72032	.|D	.|0.01	.|.	15.8506|15.8506	0.78927|0.78927	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	.|1375;1375;1344;1344;1344;1375	.|Q96N67;Q96N67-2;Q96N67-5;Q96N67-4;Q96N67-3;Q96N67-6	.|DOCK7_HUMAN;.;.;.;.;.	G|E	546|1375;1375;1344;114	.|ENSP00000251157:K1375E;ENSP00000340742:K1344E	.|ENSP00000251157:K1375E	E|K	-|-	2|1	0|0	DOCK7|DOCK7	62751862|62751862	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.972000|0.972000	0.66771|0.66771	8.037000|8.037000	0.88933|0.88933	2.137000|2.137000	0.66172|0.66172	0.460000|0.460000	0.39030|0.39030	GAA|AAA		0.353	DOCK7-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000036806.1	NM_033407		C	62979274	T	C	62979274	3	2	664	1	0	0	0	0	1	0	0	0	4694	1792	62	3	2371	3	DOCK7	1	62979274	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	239628	62979274	186271347	46	41356										
CACHD1	57685	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr1	65146953	65146953	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atgggtagaaatgtcagtgcGtatgtccaacctggagaatg	13	6	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:65146953G>A	ENST00000371073.2	+	25	3419	c.3419G>A	c.(3418-3420)cGt>cAt	p.R1140H	CACHD1_ENST00000290039.5_Missense_Mutation_p.R1089H|CACHD1_ENST00000495994.1_3'UTR			Q5VU97	CAHD1_HUMAN	cache domain containing 1	1140					calcium ion transport (GO:0006816)	integral component of membrane (GO:0016021)				breast(4)|endometrium(3)|kidney(3)|large_intestine(20)|lung(14)|ovary(2)|pancreas(1)|prostate(5)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	55						ATGTCAGTGCGTATGTCCAAC	0.443																																																0													177	167	170					1																	65146953		2203	4300	6503	SO:0001583	missense	57685			AB046793	CCDS628.2	1p31.3	2008-02-05	2005-10-11	2005-10-11	ENSG00000158966	ENSG00000158966			29314	protein-coding gene	gene with protein product			"von Willebrand factor type A and cache domain containing 1"	VWCD1		10997877	Standard	NM_020925		Approved	KIAA1573	uc001dbo.1	Q5VU97	OTTHUMG00000009030	ENST00000371073.2:c.3419G>A	1.37:g.65146953G>A	ENSP00000360113:p.Arg1140His	Somatic		WXS	Illumina HiSeq	Phase_I	Q49AE9|Q658T4|Q7Z3P2|Q9H7W4|Q9H9W3|Q9HCJ9	Missense_Mutation	SNP	ENST00000371073.2	37		.	.	.	.	.	.	.	.	.	.	G	28.2	4.895773	0.91962	.	.	ENSG00000158966	ENST00000371073;ENST00000290039	T;T	0.28454	1.61;1.63	5.48	5.48	0.80851	.	0.000000	0.85682	D	0.000000	T	0.42517	0.1206	L	0.43923	1.385	0.80722	D	1	D	0.71674	0.998	D	0.72075	0.976	T	0.22243	-1.0222	10	0.56958	D	0.05	-17.9156	19.7173	0.96127	0.0:0.0:1.0:0.0	.	1140	Q5VU97	CAHD1_HUMAN	H	1140;1089	ENSP00000360113:R1140H;ENSP00000290039:R1089H	ENSP00000290039:R1089H	R	+	2	0	CACHD1	64919541	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.388000	0.97237	2.724000	0.93272	0.563000	0.77884	CGT		0.443	CACHD1-201	KNOWN	basic	protein_coding	protein_coding		NM_020925		A	65146953	G	A	65146953	3	1	664	1	0	0	0	0	1	0	0	0	2539	1145	40	1	3364	1	CACHD1	1	65146953	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2167679	65146953	184103668	47	41357										
FUBP1	8880	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	78428480	78428480	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcttttcttctatgagttgcCgagcatagtctatctgttgt	8	8	5	1	rs569795654		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:78428480C>T	ENST00000370768.2	-	14	1400	c.1319G>A	c.(1318-1320)cGg>cAg	p.R440Q	FUBP1_ENST00000370767.1_Missense_Mutation_p.R440Q|FUBP1_ENST00000436586.2_Missense_Mutation_p.R461Q	NM_003902.3	NP_003893.2	Q96AE4	FUBP1_HUMAN	far upstream element (FUSE) binding protein 1	440	KH 4. {ECO:0000255|PROSITE- ProRule:PRU00117}.				positive regulation of gene expression (GO:0010628)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001205)|sequence-specific DNA binding transcription factor activity (GO:0003700)|single-stranded DNA binding (GO:0003697)			central_nervous_system(7)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(4)|lung(1)|upper_aerodigestive_tract(3)	17						TATGAGTTGCCGAGCATAGTC	0.343			"F, N"		oligodendroglioma								C|||	1	0.000199681	0.0	0.0	5008	,	,		18337	0.0		0.0	False		,,,				2504	0.001						Rec	yes		1	1p13.1	8880	far upstream element (FUSE) binding protein 1		O	0													102	98	99					1																	78428480		2202	4300	6502	SO:0001583	missense	8880			U05040	CCDS683.1	1p31.1	2008-02-05			ENSG00000162613	ENSG00000162613			4004	protein-coding gene	gene with protein product		603444		FUBP		8125259	Standard	XM_005271309		Approved	FBP	uc001dii.3	Q96AE4	OTTHUMG00000040799	ENST00000370768.2:c.1319G>A	1.37:g.78428480C>T	ENSP00000359804:p.Arg440Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q12828	Missense_Mutation	SNP	ENST00000370768.2	37	CCDS683.1	.	.	.	.	.	.	.	.	.	.	C	18.46	3.629104	0.67015	.	.	ENSG00000162613	ENST00000370773;ENST00000370767;ENST00000370768;ENST00000394922;ENST00000436586	T;T;T	0.30981	1.51;1.51;1.51	5.63	4.72	0.59763	K Homology (1);K Homology, type 1, subgroup (1);K Homology, type 1 (1);	0.000000	0.85682	D	0.000000	T	0.11665	0.0284	N	0.20685	0.6	0.58432	D	0.999999	P;P	0.51537	0.946;0.6	P;B	0.47430	0.547;0.144	T	0.02885	-1.1098	10	0.07990	T	0.79	-13.7264	14.6631	0.68888	0.0:0.9301:0.0:0.0699	.	461;440	B4DT31;Q96AE4	.;FUBP1_HUMAN	Q	439;440;440;439;461	ENSP00000359803:R440Q;ENSP00000359804:R440Q;ENSP00000389536:R461Q	ENSP00000294623:R439Q	R	-	2	0	FUBP1	78201068	1.000000	0.71417	0.997000	0.53966	0.014000	0.08584	7.773000	0.85462	1.531000	0.49152	0.650000	0.86243	CGG		0.343	FUBP1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098030.3	NM_003902		T	78428480	C	T	78428480	3	4	664	1	0	0	0	0	1	0	0	0	6099	652	23	1	643	1	FUBP1	1	78428480	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	13281527	78428480	170822141	48	41358										
SH3GLB1	51100	mdanderson.org	37	chr1	87181510	87181510	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caaaatatggacagaaaaaaTaatgaaacaaactgaagtgt	7	4	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:87181510T>C	ENST00000370558.4	+	2	500	c.176T>C	c.(175-177)aTa>aCa	p.I59T	SH3GLB1_ENST00000482504.1_Missense_Mutation_p.I59T|SH3GLB1_ENST00000535010.1_Intron	NM_001206651.1|NM_001206653.1|NM_016009.4	NP_001193580.1|NP_001193582.1|NP_057093.1	Q9Y371	SHLB1_HUMAN	SH3-domain GRB2-like endophilin B1	59	BAR. {ECO:0000255|PROSITE- ProRule:PRU00361}.				'de novo' posttranslational protein folding (GO:0051084)|apoptotic process (GO:0006915)|phosphatidic acid biosynthetic process (GO:0006654)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|protein oligomerization (GO:0051259)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|mitochondrial outer membrane (GO:0005741)|protein complex (GO:0043234)	fatty acid binding (GO:0005504)|identical protein binding (GO:0042802)|lysophosphatidic acid acyltransferase activity (GO:0042171)|protein homodimerization activity (GO:0042803)			endometrium(2)|kidney(1)|large_intestine(4)|lung(3)|stomach(1)	11		Lung NSC(277;0.209)		all cancers(265;0.0136)|Epithelial(280;0.0414)		ACAGAAAAAATAATGAAACAA	0.358																																																0													72	69	70					1																	87181510		2203	4300	6503	SO:0001583	missense	51100			AF263293	CCDS710.1, CCDS55612.1, CCDS55613.1, CCDS72819.1	1p22.3	2012-04-17	2001-12-04		ENSG00000097033	ENSG00000097033		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	10833	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 70"	609287	"SH3-domain, GRB2-like, endophilin B1"			11161816, 11259440	Standard	NM_016009		Approved	CGI-61, KIAA0491, Bif-1, PPP1R70	uc001dly.3	Q9Y371	OTTHUMG00000010257	ENST00000370558.4:c.176T>C	1.37:g.87181510T>C	ENSP00000473267:p.Ile59Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4E182|Q5H8U5|Q9H3Z0|Q9NR47|Q9NYA9	Missense_Mutation	SNP	ENST00000370558.4	37	CCDS710.1	.	.	.	.	.	.	.	.	.	.	T	17.99	3.522680	0.64747	.	.	ENSG00000097033	ENST00000212369;ENST00000482504	T	0.36340	1.26	5.21	5.21	0.72293	BAR (3);	0.041759	0.85682	D	0.000000	T	0.55114	0.1900	M	0.87827	2.91	0.80722	D	1	P;D	0.55605	0.726;0.972	B;P	0.62491	0.261;0.903	T	0.65656	-0.6115	10	0.87932	D	0	-9.4644	15.0805	0.72110	0.0:0.0:0.0:1.0	.	59;59	Q9Y371-2;Q9Y371	.;SHLB1_HUMAN	T	59	ENSP00000418744:I59T	ENSP00000212369:I59T	I	+	2	0	SH3GLB1	86954098	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	8.036000	0.88901	1.963000	0.57068	0.482000	0.46254	ATA		0.358	SH3GLB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000028287.2	NM_016009		C	87181510	T	C	87181510	3	2	664	1	0	0	0	0	1	0	0	0	14266	1406	49	3	182	3	SH3GLB1	1	87181510	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	8753030	87181510	162069111	49	41359										
HFM1	164045	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	91809065	91809065	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	attcagattcttcaaacataAttctgtttaattatagaaaa	3	5	4	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:91809065A>G	ENST00000370425.3	-	20	2355	c.2257T>C	c.(2257-2259)Tta>Cta	p.L753L	HFM1_ENST00000370424.3_Silent_p.L432L|HFM1_ENST00000294696.5_5'UTR|HFM1_ENST00000462405.1_5'UTR	NM_001017975.3	NP_001017975.3	A2PYH4	HFM1_HUMAN	HFM1, ATP-dependent DNA helicase homolog (S. cerevisiae)	753					resolution of meiotic recombination intermediates (GO:0000712)		ATP binding (GO:0005524)|helicase activity (GO:0004386)|nucleic acid binding (GO:0003676)			breast(4)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(17)|lung(33)|ovary(1)|prostate(3)|skin(2)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	75		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)		TTCAAACATAATTCTGTTTAA	0.264																																																0													20	20	20					1																	91809065		2177	4229	6406	SO:0001819	synonymous_variant	164045			AB204867	CCDS30769.2	1p22.2	2008-03-26			ENSG00000162669	ENSG00000162669			20193	protein-coding gene	gene with protein product		615684	"SEC63 domain containing 1"	SEC63D1		14702039, 17286053	Standard	XM_006710395		Approved	MER3, FLJ39011, FLJ36760	uc001doa.4	A2PYH4	OTTHUMG00000010093	ENST00000370425.3:c.2257T>C	1.37:g.91809065A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B1B0B6|Q8N9Q0	Silent	SNP	ENST00000370425.3	37	CCDS30769.2																																																																																				0.264	HFM1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316716.2	NM_001017975		G	91809065	A	G	91809065	2	3	664	1	0	0	0	0	0	0	0	1	7090	98	4	3		3	HFM1	1	91809065	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	4627555	91809065	157441556	50	41360										
VCAM1	7412	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	101186203	101186203	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaatgaggggaccacatctaCgctgacaatgaatcctgtta	10	9	1	3	rs142501320		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:101186203C>T	ENST00000294728.2	+	2	337	c.236C>T	c.(235-237)aCg>aTg	p.T79M	VCAM1_ENST00000347652.2_Missense_Mutation_p.T79M|VCAM1_ENST00000370119.4_Intron|VCAM1_ENST00000370115.1_Missense_Mutation_p.T79M	NM_001078.3	NP_001069.1	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1	79	Ig-like C2-type 1.				acute inflammatory response (GO:0002526)|aging (GO:0007568)|amine metabolic process (GO:0009308)|B cell differentiation (GO:0030183)|cell adhesion (GO:0007155)|cell chemotaxis (GO:0060326)|cell-matrix adhesion (GO:0007160)|cellular response to glucose stimulus (GO:0071333)|cellular response to tumor necrosis factor (GO:0071356)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|chorio-allantoic fusion (GO:0060710)|chronic inflammatory response (GO:0002544)|cytokine-mediated signaling pathway (GO:0019221)|extracellular matrix organization (GO:0030198)|heart development (GO:0007507)|heterophilic cell-cell adhesion (GO:0007157)|interferon-gamma-mediated signaling pathway (GO:0060333)|leukocyte cell-cell adhesion (GO:0007159)|leukocyte tethering or rolling (GO:0050901)|membrane to membrane docking (GO:0022614)|oxidation-reduction process (GO:0055114)|positive regulation of T cell proliferation (GO:0042102)|regulation of immune response (GO:0050776)|response to ethanol (GO:0045471)|response to hypoxia (GO:0001666)|response to ionizing radiation (GO:0010212)|response to lipopolysaccharide (GO:0032496)|response to nicotine (GO:0035094)|response to nutrient (GO:0007584)|response to zinc ion (GO:0010043)|viral process (GO:0016032)	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex (GO:0071065)|apical part of cell (GO:0045177)|cell surface (GO:0009986)|early endosome (GO:0005769)|endoplasmic reticulum (GO:0005783)|external side of plasma membrane (GO:0009897)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|microvillus (GO:0005902)|plasma membrane (GO:0005886)|podosome (GO:0002102)|sarcolemma (GO:0042383)	cell adhesion molecule binding (GO:0050839)|integrin binding (GO:0005178)|primary amine oxidase activity (GO:0008131)			central_nervous_system(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|liver(1)|lung(27)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	56		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	ACCACATCTACGCTGACAATG	0.468																																																0								C	MET/THR,,MET/THR	0,4406		0,0,2203	108	92	98		236,,236	0.8	0.1	1	dbSNP_134	98	1,8599		0,1,4299	no	missense,intron,missense	VCAM1	NM_001078.3,NM_001199834.1,NM_080682.2	81,,81	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	possibly-damaging,,possibly-damaging	79/740,,79/648	101186203	1,13005	2203	4300	6503	SO:0001583	missense	7412			M60335	CCDS773.1, CCDS774.1, CCDS55617.1	1p32-p31	2014-01-30			ENSG00000162692	ENSG00000162692		"CD molecules", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Endogenous ligands"	12663	protein-coding gene	gene with protein product		192225					Standard	NM_080682		Approved	CD106	uc001dti.3	P19320	OTTHUMG00000010982	ENST00000294728.2:c.236C>T	1.37:g.101186203C>T	ENSP00000294728:p.Thr79Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6R7|B4DKS4|E9PDD1|Q6NUP8	Missense_Mutation	SNP	ENST00000294728.2	37	CCDS773.1	.	.	.	.	.	.	.	.	.	.	C	11.66	1.703656	0.30232	0.0	1.16E-4	ENSG00000162692	ENST00000347652;ENST00000294728;ENST00000370115	T;T;T	0.70986	-0.53;-0.53;-0.53	5.82	0.799	0.18667	Immunoglobulin subtype (1);Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.500140	0.25035	N	0.033655	T	0.65015	0.2651	M	0.87038	2.855	0.19945	N	0.999943	P;P	0.51653	0.915;0.947	B;P	0.49561	0.118;0.615	T	0.61681	-0.7013	9	.	.	.	-0.3281	8.3979	0.32568	0.0:0.6113:0.0:0.3887	.	79;79	P19320-2;P19320	.;VCAM1_HUMAN	M	79	ENSP00000304611:T79M;ENSP00000294728:T79M;ENSP00000359133:T79M	.	T	+	2	0	VCAM1	100958791	0.000000	0.05858	0.093000	0.20910	0.435000	0.31806	-0.230000	0.09083	0.097000	0.17492	-0.136000	0.14681	ACG		0.468	VCAM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030213.1	NM_001078		T	101186203	C	T	101186203	3	4	664	1	0	0	0	0	1	0	0	0	17149	536	19	1	242	1	VCAM1	1	101186203	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	9377138	101186203	148064418	51	41361										
KIAA1324	57535	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	109735386	109735386	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgctggttactatattgacCgagattcaggaacctgccac	9	11	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:109735386C>T	ENST00000369939.3	+	14	2020	c.1837C>T	c.(1837-1839)Cga>Tga	p.R613*	KIAA1324_ENST00000529753.1_Nonsense_Mutation_p.R526*|KIAA1324_ENST00000369938.1_3'UTR	NM_020775.4	NP_065826	Q6UXG2	K1324_HUMAN	KIAA1324	613					cellular response to starvation (GO:0009267)|macroautophagy (GO:0016236)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|positive regulation of autophagic vacuole assembly (GO:2000786)|positive regulation of vacuole organization (GO:0044090)	endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|lysosome (GO:0005764)	poly(A) RNA binding (GO:0044822)	p.R613*(1)		NS(1)|breast(4)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(10)|lung(9)|ovary(2)|skin(3)|upper_aerodigestive_tract(1)	34		all_epithelial(167;0.000102)|all_lung(203;0.000323)|Lung NSC(277;0.00063)		Colorectal(144;0.0188)|Lung(183;0.0527)|COAD - Colon adenocarcinoma(174;0.14)|Epithelial(280;0.21)|all cancers(265;0.249)		CTATATTGACCGAGATTCAGG	0.557																																																1	Substitution - Nonsense(1)	breast(1)											171	161	164					1																	109735386		2203	4300	6503	SO:0001587	stop_gained	57535			AK057647	CCDS794.1, CCDS58015.1	1p13.3	2008-09-18			ENSG00000116299	ENSG00000116299			29618	protein-coding gene	gene with protein product	"estrogen induced gene 121"	611298				10718198, 16322283	Standard	NM_020775		Approved	maba1, EIG121	uc021orb.1	Q6UXG2	OTTHUMG00000011725	ENST00000369939.3:c.1837C>T	1.37:g.109735386C>T	ENSP00000358955:p.Arg613*	Somatic		WXS	Illumina HiSeq	Phase_I	Q08AE6|Q5T5C9|Q5T5D0|Q5T5D1|Q9P2M2	Nonsense_Mutation	SNP	ENST00000369939.3	37	CCDS794.1	.	.	.	.	.	.	.	.	.	.	C	36	5.811795	0.96975	.	.	ENSG00000116299	ENST00000369939;ENST00000457623;ENST00000529753	.	.	.	4.81	3.87	0.44632	.	0.296646	0.33732	N	0.004604	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.12766	T	0.61	0.3541	10.9302	0.47213	0.4598:0.5402:0.0:0.0	.	.	.	.	X	613;563;526	.	ENSP00000358955:R613X	R	+	1	2	KIAA1324	109536909	0.001000	0.12720	0.993000	0.49108	0.969000	0.65631	0.746000	0.26275	1.343000	0.45638	0.650000	0.86243	CGA		0.557	KIAA1324-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032389.2	NM_020775		T	109735386	C	T	109735386	4	4	664	1	0	0	0	0	0	1	0	0	8230	644	23	1	1891	1	KIAA1324	1	109735386	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	8549183	109735386	139515235	52	41362										
GSTM2	2946	broad.mit.edu	37	chr1	110211966	110211966	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cccagagcaacgccatcctgCggtacattgcccgcaagcac	9	17	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:110211966C>T	ENST00000241337.4	+	4	282	c.232C>T	c.(232-234)Cgg>Tgg	p.R78W	GSTM2_ENST00000369827.3_Missense_Mutation_p.R76W|GSTM2_ENST00000460717.3_Missense_Mutation_p.R78W|GSTM2_ENST00000442650.1_Missense_Mutation_p.R78W|GSTM2_ENST00000369831.2_Missense_Mutation_p.R78W|GSTM2_ENST00000414179.2_5'UTR|GSTM2_ENST00000464206.1_3'UTR|GSTM2_ENST00000369829.2_Missense_Mutation_p.R78W	NM_000848.3	NP_000839.1	P28161	GSTM2_HUMAN	glutathione S-transferase mu 2 (muscle)	78	GST N-terminal.				cellular detoxification of nitrogen compound (GO:0070458)|cellular response to caffeine (GO:0071313)|glutathione derivative biosynthetic process (GO:1901687)|glutathione metabolic process (GO:0006749)|negative regulation of ryanodine-sensitive calcium-release channel activity (GO:0060315)|nitrobenzene metabolic process (GO:0018916)|positive regulation of ryanodine-sensitive calcium-release channel activity (GO:0060316)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0010880)|regulation of skeletal muscle contraction by regulation of release of sequestered calcium ion (GO:0014809)|relaxation of cardiac muscle (GO:0055119)|small molecule metabolic process (GO:0044281)|xenobiotic catabolic process (GO:0042178)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|sarcoplasmic reticulum (GO:0016529)	enzyme binding (GO:0019899)|glutathione binding (GO:0043295)|glutathione transferase activity (GO:0004364)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)			kidney(1)|large_intestine(2)|lung(4)|prostate(2)|upper_aerodigestive_tract(2)	11		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		all cancers(265;0.0122)|Colorectal(144;0.0129)|Epithelial(280;0.0146)|Lung(183;0.0422)|COAD - Colon adenocarcinoma(174;0.047)|LUSC - Lung squamous cell carcinoma(189;0.227)	Glutathione(DB00143)	CGCCATCCTGCGGTACATTGC	0.592																																																0													236	197	210					1																	110211966		2203	4300	6503	SO:0001583	missense	2946			M63509	CCDS808.1, CCDS44192.1	1p13.3	2012-06-21	2008-11-26		ENSG00000213366	ENSG00000213366	2.5.1.18	"Glutathione S-transferases / Soluble"	4634	protein-coding gene	gene with protein product		138380	"glutathione S-transferase M2 (muscle)"			2034681, 2345169	Standard	NM_000848		Approved	GST4		P28161	OTTHUMG00000011638	ENST00000241337.4:c.232C>T	1.37:g.110211966C>T	ENSP00000241337:p.Arg78Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRY4|E9PEM9|Q2M318|Q5TZY5|Q8WWE1	Missense_Mutation	SNP	ENST00000241337.4	37	CCDS808.1	.	.	.	.	.	.	.	.	.	.	C	18.31	3.596233	0.66332	.	.	ENSG00000213366	ENST00000442650;ENST00000369827;ENST00000369831;ENST00000460717;ENST00000467579;ENST00000369829;ENST00000241337	T;T;T;T;T;T;T	0.09538	2.97;2.97;2.97;2.97;2.97;2.97;2.97	3.12	3.12	0.35913	Glutathione S-transferase, N-terminal (2);Thioredoxin-like fold (2);	0.068387	0.56097	U	0.000040	T	0.45337	0.1337	H	0.99777	4.77	0.50313	D	0.999867	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.997	T	0.68044	-0.5513	10	0.87932	D	0	.	11.6039	0.51020	0.0:1.0:0.0:0.0	.	78;78;78	E9PEM9;P28161;Q0D2I8	.;GSTM2_HUMAN;.	W	78;76;78;78;78;78;78	ENSP00000416883:R78W;ENSP00000358842:R76W;ENSP00000358846:R78W;ENSP00000435910:R78W;ENSP00000435157:R78W;ENSP00000358844:R78W;ENSP00000241337:R78W	ENSP00000241337:R78W	R	+	1	2	GSTM2	110013489	1.000000	0.71417	0.999000	0.59377	0.935000	0.57460	2.607000	0.46300	1.740000	0.51718	0.552000	0.68991	CGG		0.592	GSTM2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032167.2	NM_000848		T	110211966	C	T	110211966	3	4	664	1	0	0	0	0	1	0	0	0	6845	759	27	1	246	1	GSTM2	1	110211966	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	476580	110211966	139038655	53	41363										
SLC6A17	388662	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr1	110709687	110709687	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atgtggctggtgaggcaggcGgcaagcagaaggcggtggag	21	6	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:110709687G>A	ENST00000331565.4	+	2	621	c.136G>A	c.(136-138)Ggc>Agc	p.G46S	RP5-1028L10.1_ENST00000430098.1_RNA|RP5-1028L10.1_ENST00000418579.1_RNA|RP5-1028L10.1_ENST00000443008.1_RNA	NM_001010898.2	NP_001010898.1	Q9H1V8	S6A17_HUMAN	solute carrier family 6 (neutral amino acid transporter), member 17	46					alanine transport (GO:0032328)|glycine transport (GO:0015816)|leucine transport (GO:0015820)|neutral amino acid transport (GO:0015804)|proline transport (GO:0015824)	cell junction (GO:0030054)|integral component of plasma membrane (GO:0005887)|synaptic vesicle (GO:0008021)	neurotransmitter:sodium symporter activity (GO:0005328)			breast(1)|endometrium(4)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	37		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)		TGAGGCAGGCGGCAAGCAGAA	0.612																																																0													61	50	54					1																	110709687		2203	4300	6503	SO:0001583	missense	388662				CCDS30799.1	1p13.2	2013-07-19	2013-07-19		ENSG00000197106	ENSG00000197106		"Solute carriers"	31399	protein-coding gene	gene with protein product		610299	"solute carrier family 6 (neurotransmitter transporter), member 17", "solute carrier family 6, member 17"				Standard	NM_001010898		Approved		uc009wfq.3	Q9H1V8	OTTHUMG00000011761	ENST00000331565.4:c.136G>A	1.37:g.110709687G>A	ENSP00000330199:p.Gly46Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEA8|A8K1R7|B9EIR5|Q5T5Q9	Missense_Mutation	SNP	ENST00000331565.4	37	CCDS30799.1	.	.	.	.	.	.	.	.	.	.	G	1.760	-0.487155	0.04352	.	.	ENSG00000197106	ENST00000331565;ENST00000450985	T	0.74106	-0.81	4.55	1.64	0.23874	.	1.365360	0.04314	N	0.349445	T	0.26557	0.0649	N	0.08118	0	0.09310	N	1	B	0.09022	0.002	B	0.04013	0.001	T	0.22800	-1.0206	10	0.06757	T	0.87	.	8.1845	0.31330	0.3973:0.0:0.6027:0.0	.	46	Q9H1V8	S6A17_HUMAN	S	46	ENSP00000330199:G46S	ENSP00000330199:G46S	G	+	1	0	SLC6A17	110511210	0.445000	0.25657	0.441000	0.26858	0.138000	0.21146	0.667000	0.25112	0.168000	0.19655	-0.993000	0.02533	GGC		0.612	SLC6A17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032550.2	XM_371280		A	110709687	G	A	110709687	3	1	664	1	0	0	0	0	1	0	0	0	14693	1116	39	1	138	1	SLC6A17	1	110709687	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	497721	110709687	138540934	54	41364										
IGSF3	3321	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr1	117150686	117150686	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atttcccgctatcttcctggCggaggtggtagatcttcagc	11	11	3	1	rs202203327	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:117150686C>T	ENST00000369486.3	-	5	1865	c.1100G>A	c.(1099-1101)cGc>cAc	p.R367H	IGSF3_ENST00000318837.6_Missense_Mutation_p.R367H|IGSF3_ENST00000369483.1_Missense_Mutation_p.R367H	NM_001007237.1	NP_001007238.1	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3	367	Ig-like C2-type 3.				lacrimal gland development (GO:0032808)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)				NS(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|liver(1)|lung(31)|ovary(4)|prostate(1)|skin(4)|upper_aerodigestive_tract(2)	62	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		ATCTTCCTGGCGGAGGTGGTA	0.537																																																0													61	63	62					1																	117150686		2199	4295	6494	SO:0001583	missense	3321			AF031174	CCDS30813.1, CCDS30814.1	1p13	2013-01-29			ENSG00000143061	ENSG00000143061		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5950	protein-coding gene	gene with protein product		603491				9790749	Standard	NM_001007237		Approved	V8, EWI-3, MGC117164	uc031pnr.1	O75054	OTTHUMG00000022751	ENST00000369486.3:c.1100G>A	1.37:g.117150686C>T	ENSP00000358498:p.Arg367His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJZ6|A6NMC7	Missense_Mutation	SNP	ENST00000369486.3	37	CCDS30813.1	.	.	.	.	.	.	.	.	.	.	C	17.65	3.442537	0.63067	.	.	ENSG00000143061	ENST00000369486;ENST00000369483;ENST00000318837	T;T;T	0.68479	-0.33;-0.33;-0.33	4.67	4.67	0.58626	Immunoglobulin subtype (1);Immunoglobulin V-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.187265	0.47852	D	0.000220	T	0.59636	0.2208	N	0.12182	0.205	0.42261	D	0.992011	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	0.994;1.0;0.997	T	0.64622	-0.6364	10	0.39692	T	0.17	-35.2863	15.4322	0.75108	0.0:1.0:0.0:0.0	.	367;367;367	O75054-2;O75054;A6NJZ6	.;IGSF3_HUMAN;.	H	367	ENSP00000358498:R367H;ENSP00000358495:R367H;ENSP00000321184:R367H	ENSP00000321184:R367H	R	-	2	0	IGSF3	116952209	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.622000	0.46427	2.571000	0.86741	0.557000	0.71058	CGC		0.537	IGSF3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000059040.1	NM_001542		T	117150686	C	T	117150686	3	4	664	1	0	0	0	0	1	0	0	0	7608	768	27	1	2576	1	IGSF3	1	117150686	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	6440999	117150686	132099935	55	41365										
PDE4DIP	9659	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	144879218	144879218	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctcatcctcatcagggacaCtatgaggtgaagacccctcc	8	15	3	3	rs587744111	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:144879218C>T	ENST00000369354.3	-	27	4421	c.4232G>A	c.(4231-4233)aGt>aAt	p.S1411N	PDE4DIP_ENST00000530740.1_Missense_Mutation_p.S1547N|AL138796.1_ENST00000582173.1_RNA|PDE4DIP_ENST00000369356.4_Missense_Mutation_p.S1411N|PDE4DIP_ENST00000524974.1_5'UTR|PDE4DIP_ENST00000313382.9_Missense_Mutation_p.S1367N|PDE4DIP_ENST00000369359.4_Missense_Mutation_p.S1547N|RP4-791M13.5_ENST00000531288.1_RNA			Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein	1411					cellular protein complex assembly (GO:0043623)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|myofibril (GO:0030016)|nucleus (GO:0005634)	enzyme binding (GO:0019899)			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(12)|lung(106)|ovary(8)|prostate(7)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	176				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		ATCAGGGACACTATGAGGTGA	0.547			T	PDGFRB	MPD																																		Dom	yes		1	1q12	9659	phosphodiesterase 4D interacting protein (myomegalin)		L	0													94	98	97					1																	144879218		2203	4300	6503	SO:0001583	missense	9659			AB007923, AB007946	CCDS72887.1, CCDS72888.1, CCDS72889.1, CCDS72890.1, CCDS72891.1, CCDS72892.1, CCDS72893.1, CCDS72894.1	1q21.1	2008-07-31	2008-07-31		ENSG00000178104	ENSG00000178104			15580	protein-coding gene	gene with protein product	"myomegalin"	608117	"cardiomyopathy associated 2"	CMYA2		9455484, 11134006	Standard	NM_022359		Approved	KIAA0477, KIAA0454, MMGL	uc021ouh.1	Q5VU43	OTTHUMG00000013846	ENST00000369354.3:c.4232G>A	1.37:g.144879218C>T	ENSP00000358360:p.Ser1411Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU15|O75042|O75065|Q2YDC1|Q5VU42|Q5VU44|Q5VU45|Q5VU46|Q5VU47|Q5VU48|Q5VU49|Q68DU2|Q6AZ93|Q6PK88|Q86T40|Q86TB2|Q8N3W0|Q8TAY9|Q9HCP2|Q9HCP3|Q9HCP4|Q9HCP5	Missense_Mutation	SNP	ENST00000369354.3	37	CCDS30824.1	.	.	.	.	.	.	.	.	.	.	C	17.76	3.468890	0.63625	.	.	ENSG00000178104	ENST00000313382;ENST00000369354;ENST00000369356;ENST00000530740;ENST00000369359	T;T;T;T;T	0.02103	4.45;4.57;4.55;4.55;4.57	5.55	5.55	0.83447	.	.	.	.	.	T	0.03871	0.0109	M	0.66939	2.045	0.80722	D	1	D;P	0.55800	0.973;0.9	P;P	0.50490	0.642;0.576	T	0.48198	-0.9056	9	0.48119	T	0.1	.	17.002	0.86383	0.0:1.0:0.0:0.0	.	1367;1411	Q5VU43-3;Q5VU43	.;MYOME_HUMAN	N	1367;1411;1411;1547;1547	ENSP00000327209:S1367N;ENSP00000358360:S1411N;ENSP00000358363:S1411N;ENSP00000435654:S1547N;ENSP00000358366:S1547N	ENSP00000327209:S1367N	S	-	2	0	PDE4DIP	143590575	1.000000	0.71417	0.844000	0.33320	0.112000	0.19704	6.873000	0.75541	2.616000	0.88540	0.591000	0.81541	AGT		0.547	PDE4DIP-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000038858.2	NM_022359		T	144879218	C	T	144879218	3	4	664	1	0	0	0	0	1	0	0	0	11650	565	20	2	2880	2	PDE4DIP	1	144879218	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	27728532	144879218	104371403	56	41366										
NBPF10	100132406	mdanderson.org	37	chr1	145299824	145299824	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagatgaacattctagaaatCaatgagaaattgcgccccca	8	9	2	4	rs9424711		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:145299824C>G	ENST00000369338.1	+	2	250	c.60C>G	c.(58-60)atC>atG	p.I20M	NBPF10_ENST00000369339.3_Intron|NBPF10_ENST00000342960.5_Missense_Mutation_p.I291M|RP11-458D21.5_ENST00000468030.1_3'UTR			Q6P3W6	NBPFA_HUMAN	neuroblastoma breakpoint family, member 10	291						cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(3)|breast(1)|central_nervous_system(3)|endometrium(12)|kidney(23)|lung(15)|ovary(1)|prostate(7)|skin(6)|urinary_tract(2)	73	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		TTCTAGAAATCAATGAGAAAT	0.522																																																0													14	12	12					1																	145299824		691	1577	2268	SO:0001583	missense	100132406			BC021111		1q21.1	2013-01-17			ENSG00000163386	ENSG00000271425		"neuroblastoma breakpoint family"	31992	protein-coding gene	gene with protein product		614000				16079250	Standard	NM_001039703		Approved	AG1		Q6P3W6	OTTHUMG00000013757	ENST00000369338.1:c.60C>G	1.37:g.145299824C>G	ENSP00000358344:p.Ile20Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5RHC0|Q9NWN6	Missense_Mutation	SNP	ENST00000369338.1	37		.	.	.	.	.	.	.	.	.	.	.	8.435	0.849541	0.17034	.	.	ENSG00000163386	ENST00000448873;ENST00000369338;ENST00000369334;ENST00000342960	T;T	0.03272	3.99;4.04	1.05	1.05	0.20165	.	.	.	.	.	T	0.01835	0.0058	M	0.73962	2.25	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.37244	-0.9714	9	0.48119	T	0.1	.	5.4961	0.16804	0.0:1.0:0.0:0.0	rs9424711	20	Q86T75-2	.	M	216;20;20;291	ENSP00000358344:I20M;ENSP00000345684:I291M	ENSP00000345684:I291M	I	+	3	3	NBPF10	144011181	0.009000	0.17119	0.003000	0.11579	0.009000	0.06853	0.514000	0.22786	0.879000	0.35944	0.281000	0.19383	ATC		0.522	NBPF10-003	KNOWN	not_best_in_genome_evidence|basic	protein_coding	protein_coding	OTTHUMT00000038552.1	NM_001039703		G	145299824	C	G	145299824	3	3	664	1	0	0	0	0	1	0	0	0	10200	816	29	4	895	4	NBPF10	1	145299824	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	420606	145299824	103950797	57	41367										
C1orf51	148523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	150259023	150259023	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aatttgcaacccccctctcaGctccccaggtactatctcct	4	18	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:150259023G>A	ENST00000290363.5	+	5	1264	c.815G>A	c.(814-816)aGc>aAc	p.S272N	C1orf51_ENST00000369095.1_Missense_Mutation_p.S272N|C1orf51_ENST00000369094.1_Missense_Mutation_p.S184N	NM_144697.2	NP_653298.1	Q8N365	CIART_HUMAN		272					circadian regulation of gene expression (GO:0032922)|locomotor rhythm (GO:0045475)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	core promoter sequence-specific DNA binding (GO:0001046)|E-box binding (GO:0070888)			endometrium(3)|large_intestine(2)|lung(3)|urinary_tract(2)	10	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			CCCCCTCTCAGCTCCCCAGGT	0.527																																																0													229	185	200					1																	150259023		2203	4300	6503	SO:0001583	missense	148523																														ENST00000290363.5:c.815G>A	1.37:g.150259023G>A	ENSP00000290363:p.Ser272Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2RD43|D3DV01|Q8N795|Q96MG6	Missense_Mutation	SNP	ENST00000290363.5	37	CCDS949.1	.	.	.	.	.	.	.	.	.	.	G	16.35	3.099915	0.56183	.	.	ENSG00000159208	ENST00000447007;ENST00000369095;ENST00000369094;ENST00000417398;ENST00000290363	.	.	.	5.65	5.65	0.86999	.	0.583933	0.18710	N	0.133303	T	0.45716	0.1356	L	0.60455	1.87	0.30762	N	0.743957	B	0.30584	0.286	B	0.38985	0.287	T	0.50608	-0.8808	9	0.59425	D	0.04	-3.4695	16.751	0.85485	0.0:0.0:1.0:0.0	.	272	Q8N365	CA051_HUMAN	N	184;272;184;184;272	.	ENSP00000290363:S272N	S	+	2	0	C1orf51	148525647	0.426000	0.25506	0.494000	0.27515	0.805000	0.45488	4.988000	0.63863	2.941000	0.99782	0.655000	0.94253	AGC		0.527	C1orf51-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000035058.1			A	150259023	G	A	150259023	3	1	664	1	0	0	0	0	1	0	0	0	2045	971	34	2	833	2	C1orf51	1	150259023	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4959199	150259023	98991598	58	41368										
RPRD2	23248	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	150445515	150445515	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caacggccctggccttagccGtgtacgagagagcctcaccc	11	16	1	1	rs372428982		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:150445515G>A	ENST00000369068.4	+	11	4095	c.4091G>A	c.(4090-4092)cGt>cAt	p.R1364H	RPRD2_ENST00000492220.1_3'UTR|RPRD2_ENST00000401000.4_Missense_Mutation_p.R1338H	NM_015203.3	NP_056018.2	Q5VT52	RPRD2_HUMAN	regulation of nuclear pre-mRNA domain containing 2	1364	Pro-rich.					DNA-directed RNA polymerase II, holoenzyme (GO:0016591)				central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(4)|lung(20)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	37						GGCCTTAGCCGTGTACGAGAG	0.662													G|||	1	0.000199681	0.0	0.0	5008	,	,		15852	0.0		0.0	False		,,,				2504	0.001															0								G	HIS/ARG	0,3872		0,0,1936	33	36	35		4091	3.5	1	1		35	2,8246		0,2,4122	no	missense	RPRD2	NM_015203.3	29	0,2,6058	AA,AG,GG		0.0242,0.0,0.0165	probably-damaging	1364/1462	150445515	2,12118	1936	4124	6060	SO:0001583	missense	23248			BX641025	CCDS44216.1, CCDS72907.1	1q21.2	2012-02-09	2008-08-15	2008-07-28	ENSG00000163125	ENSG00000163125			29039	protein-coding gene	gene with protein product		614695	"KIAA0460"	KIAA0460		22231121	Standard	XM_005245033		Approved	FLJ32145, HSPC099	uc009wlr.3	Q5VT52	OTTHUMG00000012808	ENST00000369068.4:c.4091G>A	1.37:g.150445515G>A	ENSP00000358064:p.Arg1364His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6N8|B3KPT1|B4E2Q6|O75048|Q5VT51|Q5VT53|Q6MZL4|Q86XD2|Q9P0D7	Missense_Mutation	SNP	ENST00000369068.4	37	CCDS44216.1	.	.	.	.	.	.	.	.	.	.	G	17.91	3.504194	0.64410	0.0	2.42E-4	ENSG00000163125	ENST00000401000;ENST00000369068	T;T	0.54866	0.55;0.56	4.43	3.52	0.40303	.	0.088754	0.45867	N	0.000333	T	0.43366	0.1244	N	0.24115	0.695	0.80722	D	1	D;D	0.76494	0.998;0.999	P;D	0.63033	0.816;0.91	T	0.50145	-0.8862	10	0.59425	D	0.04	-2.0436	12.1687	0.54146	0.0841:0.0:0.9159:0.0	.	1364;1338	Q5VT52;Q5VT52-3	RPRD2_HUMAN;.	H	1338;1364	ENSP00000383785:R1338H;ENSP00000358064:R1364H	ENSP00000358064:R1364H	R	+	2	0	RPRD2	148712139	0.995000	0.38212	0.993000	0.49108	0.997000	0.91878	2.455000	0.44988	1.086000	0.41228	0.650000	0.86243	CGT		0.662	RPRD2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000035844.1	NM_015203		A	150445515	G	A	150445515	3	1	664	1	0	0	0	0	1	0	0	0	13630	1145	40	1	4133	1	RPRD2	1	150445515	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	186492	150445515	98805106	59	41369										
HORMAD1	84072	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	150679259	150679259	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acaatcaccatccttaaaacCgggaggctggtaatctgggg	11	10	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:150679259C>T	ENST00000361824.2	-	10	679	c.574G>A	c.(574-576)Ggt>Agt	p.G192S	HORMAD1_ENST00000322343.7_Missense_Mutation_p.G185S|HORMAD1_ENST00000368995.4_Missense_Mutation_p.G112S|HORMAD1_ENST00000368993.2_Missense_Mutation_p.G192S	NM_032132.4	NP_115508.2	Q86X24	HORM1_HUMAN	HORMA domain containing 1	192	HORMA. {ECO:0000255|PROSITE- ProRule:PRU00109}.				blastocyst development (GO:0001824)|meiotic DNA double-strand break formation (GO:0042138)|meiotic nuclear division (GO:0007126)|meiotic recombination checkpoint (GO:0051598)|meiotic sister chromatid cohesion (GO:0051177)|oogenesis (GO:0048477)|regulation of homologous chromosome segregation (GO:0060629)|spermatogenesis (GO:0007283)|synaptonemal complex assembly (GO:0007130)	chromosome (GO:0005694)|condensed nuclear chromosome (GO:0000794)|nucleus (GO:0005634)				breast(1)|central_nervous_system(2)|cervix(1)|endometrium(2)|large_intestine(3)|lung(4)|ovary(3)	16	all_cancers(9;3.23e-52)|all_epithelial(9;4.68e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.0009)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;2.32e-23)|all cancers(9;5.21e-23)|OV - Ovarian serous cystadenocarcinoma(6;6.72e-15)|BRCA - Breast invasive adenocarcinoma(12;0.000479)|LUSC - Lung squamous cell carcinoma(543;0.171)			TCCTTAAAACCGGGAGGCTGG	0.343																																																0													58	59	59					1																	150679259		2202	4298	6500	SO:0001583	missense	84072			AL136755	CCDS967.1, CCDS55633.1	1q21.2	2009-03-09			ENSG00000143452	ENSG00000143452			25245	protein-coding gene	gene with protein product	"cancer/testis antigen 46"	609824				11230166, 15999985	Standard	NM_032132		Approved	DKFZP434A1315, CT46	uc001evk.2	Q86X24	OTTHUMG00000035005	ENST00000361824.2:c.574G>A	1.37:g.150679259C>T	ENSP00000355167:p.Gly192Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMK2|B3KUK1|Q4G114|Q5T5I3|Q5T5I4|Q5T5I5|Q6FIC1|Q9H0K8	Missense_Mutation	SNP	ENST00000361824.2	37	CCDS967.1	.	.	.	.	.	.	.	.	.	.	C	33	5.253463	0.95336	.	.	ENSG00000143452	ENST00000368995;ENST00000368993;ENST00000368992;ENST00000540570;ENST00000322343;ENST00000361824;ENST00000368987;ENST00000442853	T;T;T;T	0.54479	0.57;1.1;1.19;1.12	5.6	5.6	0.85130	DNA-binding HORMA (4);	0.000000	0.85682	D	0.000000	T	0.74359	0.3706	M	0.90252	3.1	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	T	0.76748	-0.2845	10	0.45353	T	0.12	-18.6661	18.1798	0.89773	0.0:1.0:0.0:0.0	.	112;185;192	Q86X24-4;Q86X24-2;Q86X24	.;.;HORM1_HUMAN	S	112;192;121;112;185;192;121;114	ENSP00000357991:G112S;ENSP00000357989:G192S;ENSP00000326489:G185S;ENSP00000355167:G192S	ENSP00000326489:G185S	G	-	1	0	HORMAD1	148945883	1.000000	0.71417	0.999000	0.59377	0.961000	0.63080	7.067000	0.76741	2.644000	0.89710	0.467000	0.42956	GGT		0.343	HORMAD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000084722.1	NM_032132		T	150679259	C	T	150679259	3	4	664	1	0	0	0	0	1	0	0	0	7293	652	23	1	634	1	HORMAD1	1	150679259	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	233744	150679259	98571362	60	41370										
SELENBP1	8991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	151339349	151339349	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcccatgtccccttcacctcGaacgtctccccatccagcag	5	20	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:151339349G>A	ENST00000368868.5	-	6	604	c.513C>T	c.(511-513)ttC>ttT	p.F171F	SELENBP1_ENST00000473693.1_5'Flank|SELENBP1_ENST00000426705.2_Silent_p.F213F|SELENBP1_ENST00000447402.3_Silent_p.F109F|SELENBP1_ENST00000435071.1_Silent_p.F107F	NM_003944.3	NP_003935.2	Q13228	SBP1_HUMAN	selenium binding protein 1	171					protein transport (GO:0015031)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	selenium binding (GO:0008430)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(2)|lung(11)|prostate(1)|urinary_tract(1)	20	Lung SC(34;0.00471)|Ovarian(49;0.00871)|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)			CCTTCACCTCGAACGTCTCCC	0.582																																																0													180	155	163					1																	151339349		2203	4300	6503	SO:0001819	synonymous_variant	8991			U29091	CCDS995.1, CCDS58027.1, CCDS60266.1	1q21.3	2014-05-19			ENSG00000143416	ENSG00000143416			10719	protein-coding gene	gene with protein product		604188				9027582	Standard	NM_003944		Approved	hSP56, hSBP, LPSB	uc010pcy.3	Q13228	OTTHUMG00000012498	ENST00000368868.5:c.513C>T	1.37:g.151339349G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NML9|A6PVW9|B2RDR3|B4DKP6|B4E1F3|Q49AQ8|Q96GX7	Silent	SNP	ENST00000368868.5	37	CCDS995.1	.	.	.	.	.	.	.	.	.	.	G	1.536	-0.542991	0.04053	.	.	ENSG00000143416	ENST00000424475	.	.	.	5.32	-4.56	0.03431	.	.	.	.	.	T	0.35682	0.0940	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.48725	-0.9010	4	.	.	.	-17.87	8.8363	0.35115	0.3795:0.1209:0.4996:0.0	.	.	.	.	L	132	.	.	S	-	2	0	SELENBP1	149605973	0.039000	0.19947	0.228000	0.23943	0.160000	0.22226	-0.624000	0.05540	-0.793000	0.04475	-0.367000	0.07326	TCG		0.582	SELENBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034904.4			A	151339349	G	A	151339349	2	1	664	1	0	0	0	0	0	0	0	1	14027	1049	37	1		1	SELENBP1	1	151339349	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	660090	151339349	97911272	61	41371										
POGZ	23126	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr1	151377515	151377515	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggtgagttaatgttgccatcGgggccaggcagaacactagc	14	9	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:151377515G>A	ENST00000271715.2	-	19	4310	c.3996C>T	c.(3994-3996)ccC>ccT	p.P1332P	POGZ_ENST00000531094.1_Silent_p.P1270P|POGZ_ENST00000392723.1_Silent_p.P1279P|POGZ_ENST00000368863.2_Silent_p.P1237P|POGZ_ENST00000409503.1_Silent_p.P1323P|POGZ_ENST00000361398.3_Silent_p.P1279P|POGZ_ENST00000491586.1_Silent_p.P1288P|POGZ_ENST00000540984.1_Silent_p.P694P	NM_001194937.1|NM_015100.3	NP_001181866.1|NP_055915.2	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	1332					kinetochore assembly (GO:0051382)|mitotic sister chromatid cohesion (GO:0007064)	cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(1)|endometrium(10)|kidney(3)|large_intestine(10)|liver(2)|lung(11)|ovary(3)|prostate(2)|skin(3)|urinary_tract(1)	47	Lung SC(34;0.00471)|Ovarian(49;0.00672)|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)			TGTTGCCATCGGGGCCAGGCA	0.537											OREG0003905	type=REGULATORY REGION|Gene=POGZ|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay																																				0													92	87	89					1																	151377515		2203	4300	6503	SO:0001819	synonymous_variant	23126			AB007930	CCDS997.1, CCDS998.1, CCDS44222.1, CCDS44222.2, CCDS53365.1, CCDS53366.1	1q21.1	2013-07-22			ENSG00000143442	ENSG00000143442			18801	protein-coding gene	gene with protein product	"zinc finger protein 280E", "putative protein product of Nbla00003"	614787				10976766	Standard	NM_015100		Approved	KIAA0461, ZNF635m, ZNF280E	uc001eyd.2	Q7Z3K3	OTTHUMG00000012499	ENST00000271715.2:c.3996C>T	1.37:g.151377515G>A		Somatic	1739	WXS	Illumina HiSeq	Phase_I	B4DTP8|B4DYL9|B7ZBY5|E9PM80|O75049|Q3LIC4|Q5SZS1|Q5SZS2|Q5SZS3|Q5SZS4|Q8TDZ7|Q9Y4X7	Silent	SNP	ENST00000271715.2	37	CCDS997.1																																																																																				0.537	POGZ-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000034915.2	NM_207171		A	151377515	G	A	151377515	2	1	664	1	0	0	0	0	0	0	0	1	12193	1103	39	1		1	POGZ	1	151377515	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	38166	151377515	97873106	62	41372										
SNX27	81609	broad.mit.edu	37	chr1	151641045	151641045	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttgaccattcgaaagtggctTtttacaacagaagaagaaat	8	6	0	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:151641045T>C	ENST00000458013.2	+	7	1203	c.1083T>C	c.(1081-1083)ctT>ctC	p.L361L	SNX27_ENST00000368838.1_Silent_p.L268L|SNX27_ENST00000368843.3_Silent_p.L361L|SNX27_ENST00000482791.1_3'UTR			Q96L92	SNX27_HUMAN	sorting nexin family member 27	361	FERM-like region F1.|Ras-associating. {ECO:0000255|PROSITE- ProRule:PRU00166}.				endosomal transport (GO:0016197)|endosome to lysosome transport (GO:0008333)|establishment of natural killer cell polarity (GO:0001770)|intracellular protein transport (GO:0006886)|retrograde transport, endosome to plasma membrane (GO:1990126)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|early endosome (GO:0005769)|immunological synapse (GO:0001772)|nucleus (GO:0005634)	phosphatidylinositol-3-phosphate binding (GO:0032266)			central_nervous_system(1)|large_intestine(2)|ovary(2)	5	Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			GAAAGTGGCTTTTTACAACAG	0.383																																					Colon(46;291 966 40145 41237 41888)											0													96	94	95					1																	151641045		2203	4300	6503	SO:0001819	synonymous_variant	81609			AB007957	CCDS1001.1	1q21.3	2008-03-11			ENSG00000143376	ENSG00000143376		"Sorting nexins"	20073	protein-coding gene	gene with protein product		611541				12461558	Standard	XM_005245509		Approved	MY014, KIAA0488, MGC20471	uc001eyn.1	Q96L92	OTTHUMG00000013052	ENST00000458013.2:c.1083T>C	1.37:g.151641045T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q32Q36|Q4AEJ5|Q5VWB0|Q5VWB1|Q5VWB2|Q6IPP6|Q86UB1|Q96D79|Q9H3K8	Silent	SNP	ENST00000458013.2	37																																																																																					0.383	SNX27-003	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000036624.3	NM_030918		C	151641045	T	C	151641045	2	2	664	1	0	0	0	0	0	0	0	1	14910	1828	64	3		3	SNX27	1	151641045	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	263530	151641045	97609576	63	41373										
S100A4	6275	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	153516294	153516294	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaattcgttacacatcatggCgatgcaggacaggaagacac	11	9	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:153516294C>T	ENST00000368716.4	-	3	394	c.247G>A	c.(247-249)Gcc>Acc	p.A83T	S100A4_ENST00000368715.1_Missense_Mutation_p.A83T|S100A5_ENST00000359215.1_5'Flank|S100A4_ENST00000481009.1_5'UTR|S100A4_ENST00000368714.1_Missense_Mutation_p.A83T|S100A4_ENST00000354332.4_Missense_Mutation_p.A83T|S100A5_ENST00000368718.1_5'Flank	NM_002961.2	NP_002952.1	P26447	S10A4_HUMAN	S100 calcium binding protein A4	83	EF-hand 2. {ECO:0000255|PROSITE- ProRule:PRU00448}.				epithelial to mesenchymal transition (GO:0001837)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|neuron projection (GO:0043005)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	calcium ion binding (GO:0005509)|poly(A) RNA binding (GO:0044822)|RAGE receptor binding (GO:0050786)			large_intestine(2)|lung(1)|prostate(1)	4	all_lung(78;5.98e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)		Trifluoperazine(DB00831)	CACATCATGGCGATGCAGGAC	0.517																																																0													227	207	214					1																	153516294		2203	4300	6503	SO:0001583	missense	6275			BC016300	CCDS1042.1	1q12-q22	2013-01-10	2006-09-11		ENSG00000196154	ENSG00000196154		"S100 calcium binding proteins", "EF-hand domain containing"	10494	protein-coding gene	gene with protein product	"fibroblast-specific protein-1"	114210	"S100 calcium-binding protein A4 (calcium protein, calvasculin, metastasin, murine placental homolog)", "S100 calcium binding protein A4 (calcium protein, calvasculin, metastasin, murine placental homolog)"	MTS1, CAPL		3155863	Standard	NM_019554		Approved	P9KA, 18A2, PEL98, 42A, FSP1	uc001fbz.3	P26447	OTTHUMG00000013546	ENST00000368716.4:c.247G>A	1.37:g.153516294C>T	ENSP00000357705:p.Ala83Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7R8|D3DV46|Q6ICP8	Missense_Mutation	SNP	ENST00000368716.4	37	CCDS1042.1	.	.	.	.	.	.	.	.	.	.	C	5.809	0.333474	0.11013	.	.	ENSG00000196154	ENST00000368715;ENST00000354332;ENST00000368716;ENST00000368714;ENST00000545360	T;T;T;T	0.13778	2.56;2.56;2.56;2.56	4.86	3.95	0.45737	EF-hand-like domain (1);	0.116893	0.64402	N	0.000018	T	0.01661	0.0053	N	0.05467	-0.045	0.37702	D	0.924244	B	0.30605	0.287	B	0.30401	0.115	T	0.31364	-0.9946	10	0.02654	T	1	.	9.0488	0.36363	0.0:0.8979:0.0:0.1021	.	83	P26447	S10A4_HUMAN	T	83;83;83;83;72	ENSP00000357704:A83T;ENSP00000346294:A83T;ENSP00000357705:A83T;ENSP00000357703:A83T	ENSP00000346294:A83T	A	-	1	0	S100A4	151782918	0.295000	0.24389	1.000000	0.80357	0.987000	0.75469	0.808000	0.27154	1.057000	0.40506	0.561000	0.74099	GCC		0.517	S100A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000037714.1	NM_002961		T	153516294	C	T	153516294	3	4	664	1	0	0	0	0	1	0	0	0	13793	768	27	1	62	1	S100A4	1	153516294	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1875249	153516294	95734327	64	41374										
UBAP2L	9898	broad.mit.edu	37	chr1	154209571	154209571	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggcaatagcagcggcaataCgtggaacaacactggccact	11	11	0	0	rs147740832		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:154209571C>T	ENST00000361546.2	+	7	704	c.662C>T	c.(661-663)aCg>aTg	p.T221M	UBAP2L_ENST00000271877.7_Missense_Mutation_p.T232M|UBAP2L_ENST00000428931.1_Missense_Mutation_p.T221M|UBAP2L_ENST00000343815.6_Missense_Mutation_p.T221M			Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like	221					binding of sperm to zona pellucida (GO:0007339)		poly(A) RNA binding (GO:0044822)			NS(2)|breast(7)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(8)|lung(20)|ovary(1)|prostate(1)|urinary_tract(2)	50	all_lung(78;1.09e-30)|Lung NSC(65;1.66e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			AGCGGCAATACGTGGAACAAC	0.408																																																0								C	MET/THR,MET/THR	1,4405	2.1+/-5.4	0,1,2202	132	112	119		662,662	5.7	1	1	dbSNP_134	119	0,8600		0,0,4300	no	missense,missense	UBAP2L	NM_001127320.1,NM_014847.3	81,81	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging,probably-damaging	221/984,221/1088	154209571	1,13005	2203	4300	6503	SO:0001583	missense	9898			BC003170	CCDS1063.1, CCDS44229.1, CCDS72925.1	1q21.3	2008-02-05			ENSG00000143569	ENSG00000143569			29877	protein-coding gene	gene with protein product						8590280, 11230159	Standard	NM_014847		Approved	NICE-4, KIAA0144	uc001fep.4	Q14157	OTTHUMG00000035983	ENST00000361546.2:c.662C>T	1.37:g.154209571C>T	ENSP00000355343:p.Thr221Met	Somatic		WXS	Illumina HiSeq	Phase_I	B4E0U8|Q5VU75|Q5VU76|Q9BTU3|Q9UGL2|Q9UGL3|Q9UGL4|Q9UGL5	Missense_Mutation	SNP	ENST00000361546.2	37	CCDS1063.1	.	.	.	.	.	.	.	.	.	.	C	28.2	4.896345	0.91962	2.27E-4	0.0	ENSG00000143569	ENST00000343815;ENST00000428931;ENST00000271877;ENST00000412596;ENST00000368504;ENST00000437652;ENST00000456325;ENST00000361546	T;T;T;T;T;T;T;T	0.51817	2.56;2.53;2.55;0.78;0.75;0.78;0.69;2.53	5.68	5.68	0.88126	.	0.105567	0.64402	D	0.000004	T	0.54631	0.1870	L	0.36672	1.1	0.58432	D	0.999999	D;D;D;D;D	0.89917	1.0;0.999;1.0;1.0;1.0	D;D;D;D;D	0.83275	0.991;0.965;0.996;0.996;0.994	T	0.56932	-0.7897	10	0.66056	D	0.02	-4.3154	18.7723	0.91898	0.0:1.0:0.0:0.0	.	135;232;214;221;221	B4DZJ6;F8W726;Q14157-4;Q14157-1;Q14157	.;.;.;.;UBP2L_HUMAN	M	221;221;232;221;232;214;221;221	ENSP00000345308:T221M;ENSP00000389445:T221M;ENSP00000271877:T232M;ENSP00000389052:T221M;ENSP00000357490:T232M;ENSP00000389717:T214M;ENSP00000415310:T221M;ENSP00000355343:T221M	ENSP00000271877:T232M	T	+	2	0	UBAP2L	152476195	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.431000	0.80335	2.676000	0.91093	0.591000	0.81541	ACG		0.408	UBAP2L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087673.1	NM_014847		T	154209571	C	T	154209571	3	4	664	1	0	0	0	0	1	0	0	0	16850	536	19	1	688	1	UBAP2L	1	154209571	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	693277	154209571	95041050	65	41375										
YY1AP1	55249	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	155629537	155629537	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggggaagagttgtttagagActcctggatgccctgaggga	16	6	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:155629537A>G	ENST00000295566.4	-	11	2325	c.2302T>C	c.(2302-2304)Tct>Cct	p.S768P	YY1AP1_ENST00000355499.4_Missense_Mutation_p.S722P|YY1AP1_ENST00000368339.5_Missense_Mutation_p.S860P|YY1AP1_ENST00000311573.5_Missense_Mutation_p.S691P|YY1AP1_ENST00000368340.5_Missense_Mutation_p.S840P|YY1AP1_ENST00000368330.2_Missense_Mutation_p.S722P|YY1AP1_ENST00000347088.5_Missense_Mutation_p.S722P|YY1AP1_ENST00000361831.5_Missense_Mutation_p.S711P|YY1AP1_ENST00000359205.5_Missense_Mutation_p.S711P|YY1AP1_ENST00000404643.1_Missense_Mutation_p.S702P|MSTO1_ENST00000538143.1_Intron|YY1AP1_ENST00000535662.1_Missense_Mutation_p.S568P|YY1AP1_ENST00000407221.1_Missense_Mutation_p.S691P|MSTO1_ENST00000452804.2_Intron	NM_001198906.1|NM_139118.2	NP_001185835.1|NP_620829.1	Q9H869	YYAP1_HUMAN	YY1 associated protein 1	768					regulation of cell cycle (GO:0051726)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(6)|liver(1)|lung(7)|ovary(2)|skin(2)|urinary_tract(2)	31	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					TTGTTTAGAGACTCCTGGATG	0.498																																																0													110	111	111					1																	155629537		2203	4300	6503	SO:0001583	missense	55249			BC008766	CCDS1115.1, CCDS1116.1, CCDS55643.1, CCDS55644.1, CCDS55645.1	1q22	2009-05-07			ENSG00000163374	ENSG00000163374			30935	protein-coding gene	gene with protein product		607860				11710830	Standard	NM_139119		Approved	YY1AP, HCCA2, YAP		Q9H869	OTTHUMG00000035437	ENST00000295566.4:c.2302T>C	1.37:g.155629537A>G	ENSP00000295566:p.Ser768Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B0QZ54|B4DMP2|B4E0I0|D3DV96|D3DV98|H7BY62|Q5VYZ1|Q5VYZ4|Q5VYZ7|Q7L4C3|Q7L5E2|Q8IXA6|Q8TEW5|Q8TF04|Q96HB6|Q9BQ64|Q9NV84	Missense_Mutation	SNP	ENST00000295566.4	37	CCDS1115.1	.	.	.	.	.	.	.	.	.	.	a	14.36	2.513648	0.44763	.	.	ENSG00000163374	ENST00000359205;ENST00000355499;ENST00000311573;ENST00000347088;ENST00000361831;ENST00000368340;ENST00000295566;ENST00000368330;ENST00000407221;ENST00000404643;ENST00000368339;ENST00000535662	T;T;T;T;T;T;T;T;T;T;T;T	0.26660	1.77;1.77;1.79;1.77;1.77;1.75;1.77;1.77;1.79;1.79;1.72;1.8	2.42	-0.388	0.12459	.	0.999489	0.08099	N	0.998101	T	0.16642	0.0400	L	0.47716	1.5	0.09310	N	1	P;D;P;P;P	0.54964	0.539;0.969;0.914;0.919;0.898	B;P;P;B;B	0.58391	0.064;0.461;0.838;0.419;0.434	T	0.10337	-1.0634	10	0.62326	D	0.03	.	1.6973	0.02865	0.5284:0.0:0.1833:0.2883	.	860;702;768;722;840	B4DMP2;Q9H869-4;Q9H869;Q9H869-2;Q5VYZ1	.;.;YYAP1_HUMAN;.;.	P	711;722;691;722;711;840;768;722;691;702;860;568	ENSP00000352134:S711P;ENSP00000347686:S722P;ENSP00000311138:S691P;ENSP00000316079:S722P;ENSP00000355298:S711P;ENSP00000357324:S840P;ENSP00000295566:S768P;ENSP00000357314:S722P;ENSP00000385791:S691P;ENSP00000385390:S702P;ENSP00000357323:S860P;ENSP00000437926:S568P	ENSP00000295566:S768P	S	-	1	0	YY1AP1	153896161	0.001000	0.12720	0.018000	0.16275	0.378000	0.30076	0.223000	0.17719	0.181000	0.19994	0.260000	0.18958	TCT		0.498	YY1AP1-043	PUTATIVE	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000086027.1	NM_139118		G	155629537	A	G	155629537	3	3	664	1	0	0	0	0	1	0	0	0	17520	275	10	3	92	3	YY1AP1	1	155629537	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	1419966	155629537	93621084	66	41376										
ARHGEF2	9181	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	155921539	155921539	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	attcccatctcacctcttgcGgtgatctcagctgatttcca	6	14	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:155921539G>A	ENST00000361247.4	-	18	2300	c.2201C>T	c.(2200-2202)cCg>cTg	p.P734L	ARHGEF2_ENST00000462460.2_Missense_Mutation_p.P779L|ARHGEF2_ENST00000313667.4_Missense_Mutation_p.P733L|ARHGEF2_ENST00000368316.1_Missense_Mutation_p.P706L|ARHGEF2_ENST00000368315.4_Missense_Mutation_p.P735L|ARHGEF2_ENST00000313695.7_Missense_Mutation_p.P706L|ARHGEF2_ENST00000477754.2_Intron	NM_001162383.1|NM_001162384.1	NP_001155855.1|NP_001155856.1	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor (GEF) 2	734					actin filament organization (GO:0007015)|apoptotic signaling pathway (GO:0097190)|cell morphogenesis (GO:0000902)|cellular hyperosmotic response (GO:0071474)|cellular response to muramyl dipeptide (GO:0071225)|cellular response to tumor necrosis factor (GO:0071356)|establishment of mitotic spindle orientation (GO:0000132)|innate immune response (GO:0045087)|intracellular protein transport (GO:0006886)|mitotic nuclear division (GO:0007067)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|negative regulation of intrinsic apoptotic signaling pathway in response to osmotic stress (GO:1902219)|negative regulation of microtubule depolymerization (GO:0007026)|negative regulation of necroptotic process (GO:0060546)|negative regulation of neurogenesis (GO:0050768)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor production (GO:0032760)|regulation of cell proliferation (GO:0042127)|regulation of Rho protein signal transduction (GO:0035023)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|dendritic shaft (GO:0043198)|focal adhesion (GO:0005925)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|neuronal cell body (GO:0043025)|protein complex (GO:0043234)|ruffle membrane (GO:0032587)|tight junction (GO:0005923)|vesicle (GO:0031982)	microtubule binding (GO:0008017)|Rac GTPase binding (GO:0048365)|Rac guanyl-nucleotide exchange factor activity (GO:0030676)|Rho GTPase binding (GO:0017048)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)	p.P706Q(1)		breast(4)|cervix(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(4)|kidney(2)|large_intestine(6)|lung(15)|ovary(1)|skin(2)	40	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					CACCTCTTGCGGTGATCTCAG	0.517																																					Melanoma(178;35 2768 6610 28839)											1	Substitution - Missense(1)	lung(1)											107	107	107					1																	155921539		2203	4300	6503	SO:0001583	missense	9181			AB014551	CCDS1125.1, CCDS53375.1, CCDS53376.1	1q21-q22	2013-01-10	2009-06-12		ENSG00000116584	ENSG00000116584		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	682	protein-coding gene	gene with protein product		607560	"rho/rac guanine nucleotide exchange factor (GEF) 2"			9857026, 9734811	Standard	NM_004723		Approved	LFP40, GEF-H1, KIAA0651, P40	uc001fmt.2	Q92974	OTTHUMG00000017464	ENST00000361247.4:c.2201C>T	1.37:g.155921539G>A	ENSP00000354837:p.Pro734Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVA6|O75142|Q15079|Q5VY92|Q8TDA3|Q8WUG4|Q9H023	Missense_Mutation	SNP	ENST00000361247.4	37	CCDS53376.1	.	.	.	.	.	.	.	.	.	.	G	12.21	1.870583	0.33069	.	.	ENSG00000116584	ENST00000313695;ENST00000361247;ENST00000368315;ENST00000368316;ENST00000313667	T;T;T;T;T	0.11169	2.8;2.8;2.8;2.8;2.8	5.23	4.32	0.51571	.	0.000000	0.43110	D	0.000609	T	0.02888	0.0086	L	0.40543	1.245	0.49687	D	0.999811	B;B;B	0.29716	0.125;0.255;0.08	B;B;B	0.16722	0.008;0.016;0.016	T	0.36601	-0.9741	10	0.17832	T	0.49	-29.7262	9.7219	0.40308	0.0928:0.0:0.9072:0.0	.	778;734;733	D3DVA5;Q92974;Q92974-2	.;ARHG2_HUMAN;.	L	706;734;735;706;733	ENSP00000315325:P706L;ENSP00000354837:P734L;ENSP00000357298:P735L;ENSP00000357299:P706L;ENSP00000314787:P733L	ENSP00000314787:P733L	P	-	2	0	ARHGEF2	154188163	1.000000	0.71417	0.990000	0.47175	0.727000	0.41649	4.930000	0.63462	1.435000	0.47434	0.655000	0.94253	CCG		0.517	ARHGEF2-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000046204.2	NM_004723		A	155921539	G	A	155921539	3	1	664	1	0	0	0	0	1	0	0	0	903	1116	39	1	779	1	ARHGEF2	1	155921539	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	292002	155921539	93329082	67	41377										
MRPL24	79590	hgsc.bcm.edu;bcgsc.ca	37	chr1	156708172	156708172	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgaccacccagtttcgctgcCggataacttgaaccactttg	8	14	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:156708172C>T	ENST00000361531.2	-	3	378	c.242G>A	c.(241-243)cGg>cAg	p.R81Q	MRPL24_ENST00000478899.1_5'Flank|MRPL24_ENST00000368211.4_Missense_Mutation_p.R81Q			Q96A35	RM24_HUMAN	mitochondrial ribosomal protein L24	81	KOW.				translation (GO:0006412)	mitochondrion (GO:0005739)|ribosome (GO:0005840)	structural constituent of ribosome (GO:0003735)			endometrium(1)|large_intestine(1)|lung(4)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTTTCGCTGCCGGATAACTTG	0.562																																																0													270	249	256					1																	156708172		2203	4300	6503	SO:0001583	missense	79590			AB051341	CCDS1155.1	1q23.1	2012-11-14			ENSG00000143314	ENSG00000143314		"Mitochondrial ribosomal proteins / large subunits"	14037	protein-coding gene	gene with protein product		611836					Standard	NM_145729		Approved	MRP-L18	uc001fpx.1	Q96A35	OTTHUMG00000041296	ENST00000361531.2:c.242G>A	1.37:g.156708172C>T	ENSP00000354525:p.Arg81Gln	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVC8|Q53G65|Q53HT0|Q5SYZ9|Q5SZ00|Q5SZ02|Q96Q70|Q9H7G3	Missense_Mutation	SNP	ENST00000361531.2	37	CCDS1155.1	.	.	.	.	.	.	.	.	.	.	C	17.43	3.387886	0.61956	.	.	ENSG00000143314	ENST00000361531;ENST00000368211;ENST00000434558;ENST00000412846	.	.	.	5.57	5.57	0.84162	KOW (2);Translation protein SH3-like (1);Ribosomal protein L24, SH3-like (1);	0.000000	0.85682	D	0.000000	T	0.56601	0.1996	L	0.49571	1.57	0.80722	D	1	D	0.69078	0.997	P	0.58077	0.832	T	0.49254	-0.8959	9	0.20519	T	0.43	-21.3163	17.0489	0.86513	0.0:1.0:0.0:0.0	.	81	Q96A35	RM24_HUMAN	Q	81	.	ENSP00000354525:R81Q	R	-	2	0	MRPL24	154974796	1.000000	0.71417	1.000000	0.80357	0.909000	0.53808	3.069000	0.50026	2.633000	0.89246	0.650000	0.86243	CGG		0.562	MRPL24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098955.1	NM_145729		T	156708172	C	T	156708172	3	4	664	1	0	0	0	0	1	0	0	0	9797	652	23	1	424	1	MRPL24	1	156708172	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	786633	156708172	92542449	68	41378										
SH2D2A	9047	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	156785800	156785800	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccccaggtttccactcaccgCagtgtagcccaggttctggc	10	16	2	0	rs146718843	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:156785800C>T	ENST00000368199.3	-	2	274	c.121G>A	c.(121-123)Gcg>Acg	p.A41T	SH2D2A_ENST00000368198.3_Missense_Mutation_p.A23T|SH2D2A_ENST00000495306.1_5'UTR|SH2D2A_ENST00000392306.2_Missense_Mutation_p.A41T|NTRK1_ENST00000392302.2_Intron	NM_001161443.1|NM_001161444.1|NM_003975.3	NP_001154915.1|NP_001154916.1|NP_003966.2	Q9NP31	SH22A_HUMAN	SH2 domain containing 2A	41					angiogenesis (GO:0001525)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|positive regulation of signal transduction (GO:0009967)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)	SH3/SH2 adaptor activity (GO:0005070)			endometrium(1)|large_intestine(2)|lung(15)	18	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CCACTCACCGCAGTGTAGCCC	0.602																																																0													68	66	66					1																	156785800		2203	4300	6503	SO:0001583	missense	9047			AJ000553	CCDS1159.1, CCDS53380.1, CCDS53381.1	1q21	2013-02-14	2010-04-21		ENSG00000027869	ENSG00000027869		"SH2 domain containing"	10821	protein-coding gene	gene with protein product	"T lymphocyte specific adaptor protein", "T cell specific adapter protein TSAd", "T cell specific adpater protein TSAd"	604514	"SH2 domain protein 2A"			9468509	Standard	NM_003975		Approved	TSAd, F2771	uc009wsh.2	Q9NP31	OTTHUMG00000041305	ENST00000368199.3:c.121G>A	1.37:g.156785800C>T	ENSP00000357182:p.Ala41Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O43817|Q5UBZ1|Q5VZS4|Q5VZS5|Q9UPA7	Missense_Mutation	SNP	ENST00000368199.3	37	CCDS1159.1	.	.	.	.	.	.	.	.	.	.	C	9.380	1.072670	0.20147	.	.	ENSG00000027869	ENST00000368199;ENST00000368198;ENST00000392306	T;T;T	0.55413	0.54;0.52;0.95	4.81	0.587	0.17439	.	5.399390	0.00424	N	0.000064	T	0.12135	0.0295	N	0.14661	0.345	0.09310	N	1	B;B;B	0.14805	0.011;0.002;0.003	B;B;B	0.09377	0.004;0.002;0.001	T	0.04885	-1.0920	10	0.20046	T	0.44	3.1443	2.9431	0.05837	0.317:0.4389:0.1541:0.0901	.	41;23;41	Q9NP31-2;Q5VZS4;Q9NP31	.;.;SH22A_HUMAN	T	41;23;41	ENSP00000357182:A41T;ENSP00000357181:A23T;ENSP00000376123:A41T	ENSP00000357181:A23T	A	-	1	0	SH2D2A	155052424	0.000000	0.05858	0.000000	0.03702	0.011000	0.07611	-0.397000	0.07269	0.024000	0.15214	0.655000	0.94253	GCG		0.602	SH2D2A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000098982.1	NM_003975		T	156785800	C	T	156785800	3	4	664	1	0	0	0	0	1	0	0	0	14245	710	25	2	1106	2	SH2D2A	1	156785800	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	77628	156785800	92464821	69	41379										
INSRR	3645	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	156814312	156814312	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagccattgccagccagtgaGgttgccctaaccctggcaga	12	13	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:156814312G>T	ENST00000368195.3	-	14	3075	c.2679C>A	c.(2677-2679)acC>acA	p.T893T	NTRK1_ENST00000392302.2_Intron	NM_014215.2	NP_055030.1	P14616	INSRR_HUMAN	insulin receptor-related receptor	893	Fibronectin type-III 3. {ECO:0000255|PROSITE-ProRule:PRU00316}.				actin cytoskeleton reorganization (GO:0031532)|cellular response to alkaline pH (GO:0071469)|male sex determination (GO:0030238)|peptidyl-tyrosine phosphorylation (GO:0018108)|protein autophosphorylation (GO:0046777)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(13)|ovary(7)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)	42	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CAGCCAGTGAGGTTGCCCTAA	0.572																																																0													65	60	61					1																	156814312		2203	4300	6503	SO:0001819	synonymous_variant	3645			J05046	CCDS1160.1	1q21-q23	2013-02-11			ENSG00000027644	ENSG00000027644		"Fibronectin type III domain containing"	6093	protein-coding gene	gene with protein product		147671				2768234, 2249481	Standard	NM_014215		Approved	IRR	uc010pht.2	P14616	OTTHUMG00000041291	ENST00000368195.3:c.2679C>A	1.37:g.156814312G>T		Somatic		WXS	Illumina HiSeq	Phase_I	O60724|Q5VZS3	Silent	SNP	ENST00000368195.3	37	CCDS1160.1																																																																																				0.572	INSRR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098929.1	NM_014215		T	156814312	G	T	156814312	2	4	664	1	0	0	0	0	0	0	0	1	7781	987	35	4		4	INSRR	1	156814312	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	28512	156814312	92436309	70	41380										
IGSF9	57549	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	159898623	159898623	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagtgggccccatcacaaagCgcccgtctgggccccggcaa	12	17	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:159898623C>T	ENST00000368094.1	-	19	2752	c.2555G>A	c.(2554-2556)cGc>cAc	p.R852H	IGSF9_ENST00000493195.1_5'UTR|IGSF9_ENST00000361509.3_Missense_Mutation_p.R836H	NM_001135050.1	NP_001128522.1	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9	852	Pro-rich.				dendrite development (GO:0016358)	cell junction (GO:0030054)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|synapse (GO:0045202)				central_nervous_system(2)|endometrium(8)|kidney(3)|large_intestine(13)|lung(17)|ovary(3)|prostate(4)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	56	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			CATCACAAAGCGCCCGTCTGG	0.692																																																0													5	6	6					1																	159898623		2125	4175	6300	SO:0001583	missense	57549			AB037776	CCDS1190.1, CCDS44254.1	1q22-q23	2013-02-11			ENSG00000085552	ENSG00000085552		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	18132	protein-coding gene	gene with protein product		609738				11991715	Standard	NM_020789		Approved	KIAA1355, Nrt1, IGSF9A	uc001fur.2	Q9P2J2	OTTHUMG00000022794	ENST00000368094.1:c.2555G>A	1.37:g.159898623C>T	ENSP00000357073:p.Arg852His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000368094.1	37	CCDS44254.1	.	.	.	.	.	.	.	.	.	.	C	26.8	4.775958	0.90195	.	.	ENSG00000085552	ENST00000361509;ENST00000368094	T;T	0.79033	-1.23;-1.17	5.15	5.15	0.70609	.	0.000000	0.38436	N	0.001699	D	0.83880	0.5350	M	0.66939	2.045	0.41370	D	0.987484	D	0.89917	1.0	D	0.83275	0.996	D	0.83801	0.0236	9	.	.	.	-16.8921	16.1159	0.81304	0.0:1.0:0.0:0.0	.	852	Q9P2J2	TUTLA_HUMAN	H	836;852	ENSP00000355049:R836H;ENSP00000357073:R852H	.	R	-	2	0	IGSF9	158165247	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.908000	0.63307	2.378000	0.81104	0.655000	0.94253	CGC		0.692	IGSF9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059115.1	NM_020789		T	159898623	C	T	159898623	3	4	664	1	0	0	0	0	1	0	0	0	7612	768	27	1	996	1	IGSF9	1	159898623	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3084311	159898623	89351998	71	41381										
PPOX	5498	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	161139815	161139815	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagcccatctgcctgtccagGtatgataaagggacggagag	14	9	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:161139815G>T	ENST00000367999.4	+	9	1253		c.e9+1		PPOX_ENST00000535223.1_Intron|PPOX_ENST00000495483.1_Splice_Site|PPOX_ENST00000352210.5_Splice_Site|PPOX_ENST00000544598.1_Intron|B4GALT3_ENST00000470882.1_5'Flank|PPOX_ENST00000432542.2_Intron	NM_001122764.1	NP_001116236.1	P50336	PPOX_HUMAN	protoporphyrinogen oxidase						heme biosynthetic process (GO:0006783)|oxidation-reduction process (GO:0055114)|porphyrin-containing compound biosynthetic process (GO:0006779)|porphyrin-containing compound metabolic process (GO:0006778)|protoporphyrinogen IX biosynthetic process (GO:0006782)|response to drug (GO:0042493)|small molecule metabolic process (GO:0044281)	integral component of mitochondrial inner membrane (GO:0031305)|intrinsic component of mitochondrial inner membrane (GO:0031304)|mitochondrial intermembrane space (GO:0005758)|mitochondrial membrane (GO:0031966)	flavin adenine dinucleotide binding (GO:0050660)|oxygen-dependent protoporphyrinogen oxidase activity (GO:0004729)			breast(1)|cervix(1)|endometrium(1)|large_intestine(3)|lung(5)|ovary(1)|urinary_tract(3)	15	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GCCTGTCCAGGTATGATAAAG	0.577																																																0													42	37	39					1																	161139815		2203	4300	6503	SO:0001630	splice_region_variant	5498			BC002357	CCDS1221.1	1q22	2008-02-05			ENSG00000143224	ENSG00000143224	1.3.3.4		9280	protein-coding gene	gene with protein product		600923	"variegate porphyria"	VP		8575762, 10457135	Standard	NM_000309		Approved	PPO	uc001fyg.2	P50336	OTTHUMG00000034342	ENST00000367999.4:c.987+1G>T	1.37:g.161139815G>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DVG0|Q5VTW8	Splice_Site	SNP	ENST00000367999.4	37	CCDS1221.1	.	.	.	.	.	.	.	.	.	.	G	14.01	2.407846	0.42715	.	.	ENSG00000143224	ENST00000352210;ENST00000367999;ENST00000435935;ENST00000537829	.	.	.	3.87	3.87	0.44632	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	11.1667	0.48547	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	PPOX	159406439	1.000000	0.71417	0.993000	0.49108	0.633000	0.38033	6.684000	0.74538	2.005000	0.58758	0.305000	0.20034	.		0.577	PPOX-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000082993.1	NM_000309	Intron	T	161139815	G	T	161139815	5	4	664	1	0	0	0	0	0	0	1	0	12358	1275	44	4	1018	4	PPOX	1	161139815	Splice_Site	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1241192	161139815	88110806	72	41382										
DDR2	4921	hgsc.bcm.edu	37	chr1	162724541	162724541	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctctggtggggacccaggggCgccatgcaggaggtcatggc	18	11	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:162724541C>T	ENST00000367922.3	+	6	751	c.313C>T	c.(313-315)Cgc>Tgc	p.R105C	DDR2_ENST00000367921.3_Missense_Mutation_p.R105C	NM_001014796.1	NP_001014796.1	Q16832	DDR2_HUMAN	discoidin domain receptor tyrosine kinase 2	105	F5/8 type C. {ECO:0000255|PROSITE- ProRule:PRU00081}.		R -> S (in a lung large cell carcinoma sample; somatic mutation). {ECO:0000269|PubMed:16140923, ECO:0000269|PubMed:17344846}.		biomineral tissue development (GO:0031214)|cell adhesion (GO:0007155)|chondrocyte proliferation (GO:0035988)|collagen fibril organization (GO:0030199)|collagen-activated tyrosine kinase receptor signaling pathway (GO:0038063)|endochondral bone growth (GO:0003416)|extracellular matrix organization (GO:0030198)|ossification (GO:0001503)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of extracellular matrix disassembly (GO:0090091)|positive regulation of fibroblast migration (GO:0010763)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|protein autophosphorylation (GO:0046777)|regulation of bone mineralization (GO:0030500)|regulation of extracellular matrix disassembly (GO:0010715)|signal transduction (GO:0007165)	apical plasma membrane (GO:0016324)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|collagen binding (GO:0005518)|protein tyrosine kinase collagen receptor activity (GO:0038062)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)	p.R105S(1)		central_nervous_system(2)|kidney(1)|lung(2)|ovary(1)|skin(1)	7	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)		Regorafenib(DB08896)	GACCCAGGGGCGCCATGCAGG	0.547																																					NSCLC(161;314 2006 8283 19651 23192)											1	Substitution - Missense(1)	lung(1)											95	86	89					1																	162724541		2203	4300	6503	SO:0001583	missense	4921			AK095975	CCDS1241.1	1q12-q23	2009-07-10	2008-01-23		ENSG00000162733	ENSG00000162733	2.7.10.1		2731	protein-coding gene	gene with protein product		191311	"discoidin domain receptor family, member 2"	TYRO10, NTRKR3		9659899	Standard	XM_005245221		Approved	TKT	uc001gcg.3	Q16832	OTTHUMG00000034423	ENST00000367922.3:c.313C>T	1.37:g.162724541C>T	ENSP00000356899:p.Arg105Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z730	Missense_Mutation	SNP	ENST00000367922.3	37	CCDS1241.1	.	.	.	.	.	.	.	.	.	.	C	26.8	4.770917	0.90108	.	.	ENSG00000162733	ENST00000446985;ENST00000415555;ENST00000542391;ENST00000367922;ENST00000367921	D;D;D;D	0.98876	-5.2;-5.2;-5.2;-5.2	5.78	4.87	0.63330	Coagulation factor 5/8 C-terminal type domain (3);Galactose-binding domain-like (1);	0.000000	0.85682	D	0.000000	D	0.99254	0.9740	M	0.93375	3.41	0.42876	D	0.994153	D	0.89917	1.0	D	0.97110	1.0	D	0.99029	1.0820	9	0.87932	D	0	.	13.5351	0.61643	0.0:0.9249:0.0:0.0751	.	105	Q16832	DDR2_HUMAN	C	105	ENSP00000400309:R105C;ENSP00000391310:R105C;ENSP00000356899:R105C;ENSP00000356898:R105C	ENSP00000356898:R105C	R	+	1	0	DDR2	160991165	1.000000	0.71417	0.948000	0.38648	0.998000	0.95712	7.660000	0.83776	1.453000	0.47775	0.650000	0.86243	CGC		0.547	DDR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083213.2	NM_006182		T	162724541	C	T	162724541	3	4	664	1	0	0	0	0	1	0	0	0	4339	768	27	1	323	1	DDR2	1	162724541	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1584726	162724541	86526080	73	41383										
DUSP27	92235	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	167088687	167088687	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tctgagttcctggatgaggcGctgctgacttacagaggtga	14	8	1	5	rs573463190		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:167088687G>A	ENST00000361200.2	+	5	805	c.639G>A	c.(637-639)gcG>gcA	p.A213A	DUSP27_ENST00000443333.1_Silent_p.A213A|DUSP27_ENST00000271385.5_Silent_p.A213A			Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27 (putative)	213	Tyrosine-protein phosphatase.				protein dephosphorylation (GO:0006470)		protein tyrosine/serine/threonine phosphatase activity (GO:0008138)	p.A213A(1)		NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(2)|large_intestine(11)|liver(1)|lung(46)|ovary(5)|prostate(5)|skin(4)|upper_aerodigestive_tract(3)	89						TGGATGAGGCGCTGCTGACTT	0.532													G|||	1	0.000199681	0.0008	0.0	5008	,	,		18581	0.0		0.0	False		,,,				2504	0.0															1	Substitution - coding silent(1)	lung(1)											81	69	73					1																	167088687		2203	4300	6503	SO:0001819	synonymous_variant	92235			AF119045	CCDS30932.1	1q22-q24	2008-02-05			ENSG00000198842	ENSG00000198842			25034	protein-coding gene	gene with protein product							Standard	NM_001080426		Approved		uc001geb.1	Q5VZP5	OTTHUMG00000034434	ENST00000361200.2:c.639G>A	1.37:g.167088687G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0AUM4|Q9C074	Silent	SNP	ENST00000361200.2	37	CCDS30932.1																																																																																				0.532	DUSP27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083244.1	NM_001080426		A	167088687	G	A	167088687	2	1	664	1	0	0	0	0	0	0	0	1	4826	1074	38	1		1	DUSP27	1	167088687	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4364146	167088687	82161934	74	41384										
TBX19	9095	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	168282043	168282043	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccccaggagcatttctcctcGgaaacccagctgtgacttca	8	15	2	1	rs559696399		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:168282043G>A	ENST00000367821.3	+	8	1201	c.1150G>A	c.(1150-1152)Gga>Aga	p.G384R	TBX19_ENST00000465440.1_3'UTR	NM_005149.2	NP_005140.1	O60806	TBX19_HUMAN	T-box 19	384					anatomical structure morphogenesis (GO:0009653)|cell fate commitment (GO:0045165)|pituitary gland development (GO:0021983)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of cell differentiation (GO:0045595)|regulation of cell proliferation (GO:0042127)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	enhancer sequence-specific DNA binding (GO:0001158)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|liver(1)|lung(11)|prostate(2)|skin(2)|urinary_tract(1)	34	all_hematologic(923;0.215)					ATTTCTCCTCGGAAACCCAGC	0.652													G|||	1	0.000199681	0.0008	0.0	5008	,	,		19641	0.0		0.0	False		,,,				2504	0.0															0													70	62	65					1																	168282043		2203	4300	6503	SO:0001583	missense	9095			AJ010277	CCDS1272.1	1q23-q24	2008-02-05			ENSG00000143178	ENSG00000143178		"T-boxes"	11596	protein-coding gene	gene with protein product	"TBS 19"	604614				9888994	Standard	NM_005149		Approved	dj747L4.1, TPIT	uc001gfl.3	O60806	OTTHUMG00000034648	ENST00000367821.3:c.1150G>A	1.37:g.168282043G>A	ENSP00000356795:p.Gly384Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q52M53	Missense_Mutation	SNP	ENST00000367821.3	37	CCDS1272.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	16.92|16.92	3.256719|3.256719	0.59321|0.59321	.|.	.|.	ENSG00000143178|ENSG00000143178	ENST00000367821;ENST00000367828|ENST00000431969;ENST00000441464	D|.	0.94537|.	-3.45|.	5.65|5.65	3.71|3.71	0.42584|0.42584	.|.	1.018940|.	0.07797|.	N|.	0.955850|.	T|T	0.43255|0.43255	0.1239|0.1239	M|M	0.70595|0.70595	2.14|2.14	.|.	.|.	.|.	P;P|.	0.51240|.	0.866;0.943|.	B;B|.	0.40982|.	0.239;0.345|.	T|T	0.47195|0.47195	-0.9136|-0.9136	9|4	0.26408|.	T|.	0.33|.	.|.	6.1328|6.1328	0.20215|0.20215	0.2943:0.0:0.7057:0.0|0.2943:0.0:0.7057:0.0	.|.	384;252|.	O60806;B3KRD9|.	TBX19_HUMAN;.|.	R|Q	384;261|253;216	ENSP00000356795:G384R|.	ENSP00000356795:G384R|.	G|R	+|+	1|2	0|0	TBX19|TBX19	166548667|166548667	0.998000|0.998000	0.40836|0.40836	0.421000|0.421000	0.26609|0.26609	0.467000|0.467000	0.32768|0.32768	1.330000|1.330000	0.33781|0.33781	1.299000|1.299000	0.44798|0.44798	0.655000|0.655000	0.94253|0.94253	GGA|CGG		0.652	TBX19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083825.1	NM_005149		A	168282043	G	A	168282043	3	1	664	1	0	0	0	0	1	0	0	0	15666	1117	39	1	1180	1	TBX19	1	168282043	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1193356	168282043	80968578	75	41385										
C1orf114	57821	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	169391220	169391220	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggtccttgaacttaagttttCgctcccttttatcattcacc	5	12	2	1	rs376964448		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:169391220C>T	ENST00000367806.3	-	3	601	c.449G>A	c.(448-450)cGa>cAa	p.R150Q	CCDC181_ENST00000367805.3_Missense_Mutation_p.R150Q|CCDC181_ENST00000545005.1_Missense_Mutation_p.R150Q|CCDC181_ENST00000491570.1_5'UTR	NM_021179.1	NP_067002.1	Q5TID7	CC181_HUMAN	coiled-coil domain containing 181	150						nucleus (GO:0005634)											CTTAAGTTTTCGCTCCCTTTT	0.348																																																0								C	GLN/ARG	0,4406		0,0,2203	107	111	110		449	4.4	0.7	1		110	2,8598	2.2+/-6.3	0,2,4298	no	missense	C1orf114	NM_021179.1	43	0,2,6501	TT,TC,CC		0.0233,0.0,0.0154	probably-damaging	150/509	169391220	2,13004	2203	4300	6503	SO:0001583	missense	57821			AL049687	CCDS1279.1, CCDS72979.1	1q24	2013-03-14	2013-03-14	2013-03-14	ENSG00000117477	ENSG00000117477			28051	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 114"	C1orf114			Standard	XM_005245381		Approved	FLJ25846	uc001gfz.1	Q5TID7	OTTHUMG00000035448	ENST00000367806.3:c.449G>A	1.37:g.169391220C>T	ENSP00000356780:p.Arg150Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O60780|Q53FD5|Q5TID9|Q8TC48	Missense_Mutation	SNP	ENST00000367806.3	37		.	.	.	.	.	.	.	.	.	.	C	23.0	4.365590	0.82463	0.0	2.33E-4	ENSG00000117477	ENST00000367805;ENST00000367806;ENST00000545005;ENST00000456107	T;T;T;T	0.61040	0.14;0.14;0.14;0.29	5.34	4.43	0.53597	.	0.000000	0.85682	D	0.000000	T	0.68146	0.2969	M	0.76002	2.32	0.41703	D	0.989414	P;D;D	0.89917	0.931;1.0;1.0	B;D;D	0.91635	0.291;0.999;0.999	T	0.75476	-0.3304	9	0.87932	D	0	-9.2924	13.8307	0.63380	0.0:0.9263:0.0:0.0737	.	150;150;150	Q5TID7-2;Q5TID7;Q5TID7-3	.;CA114_HUMAN;.	Q	150	ENSP00000356779:R150Q;ENSP00000356780:R150Q;ENSP00000442297:R150Q;ENSP00000411000:R150Q	ENSP00000356779:R150Q	R	-	2	0	C1orf114	167657844	0.415000	0.25416	0.669000	0.29828	0.974000	0.67602	6.057000	0.71119	1.249000	0.43950	0.563000	0.77884	CGA		0.348	CCDC181-002	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000086099.1	NM_021179		T	169391220	C	T	169391220	3	4	664	1	0	0	0	0	1	0	0	0	1989	884	31	1	1093	1	C1orf114	1	169391220	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1109177	169391220	79859401	76	41386										
TOR3A	64222	ucsc.edu;mdanderson.org	37	chr1	179057117	179057117	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgttcatcttcgatgaagcGgagaagctgcacccagggct	12	11	2	2	rs12092348	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:179057117G>A	ENST00000367627.3	+	4	1463	c.711G>A	c.(709-711)gcG>gcA	p.A237A	TOR3A_ENST00000495145.1_3'UTR|TOR3A_ENST00000352445.6_Silent_p.A237A	NM_022371.3	NP_071766.2	Q9H497	TOR3A_HUMAN	torsin family 3, member A	237					ATP catabolic process (GO:0006200)|chaperone mediated protein folding requiring cofactor (GO:0051085)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum lumen (GO:0005788)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)			endometrium(1)|kidney(2)|large_intestine(4)|lung(4)|pancreas(1)|urinary_tract(1)	13						TCGATGAAGCGGAGAAGCTGC	0.612													G|||	79	0.0157748	0.0552	0.0058	5008	,	,		16403	0.002		0.0	False		,,,				2504	0.0															0								G		229,4177	137.3+/-173.1	6,217,1980	68	74	72		711	-10.7	0	1	dbSNP_120	72	0,8600		0,0,4300	no	coding-synonymous	TOR3A	NM_022371.3		6,217,6280	AA,AG,GG		0.0,5.1975,1.7607		237/398	179057117	229,12777	2203	4300	6503	SO:0001819	synonymous_variant	64222			BC001085	CCDS1329.1	1q25.2	2008-02-05	2003-04-02		ENSG00000186283	ENSG00000186283			11997	protein-coding gene	gene with protein product		607555	"ATP-dependant interferon responsive"	ADIR		10644435	Standard	NM_022371		Approved	FLJ22345, ADIR2	uc001gmd.3	Q9H497	OTTHUMG00000035077	ENST00000367627.3:c.711G>A	1.37:g.179057117G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DSY0|B7ZB65|Q5M7Y7|Q8WVA7|Q8WWM2|Q9H495|Q9H6E7	Silent	SNP	ENST00000367627.3	37	CCDS1329.1																																																																																				0.612	TOR3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084927.1	NM_022371		A	179057117	G	A	179057117	2	1	664	1	0	0	0	0	0	0	0	1	16388	1103	39	1		1	TOR3A	1	179057117	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	9665897	179057117	70193504	77	41387										
C1orf125	126859	hgsc.bcm.edu	37	chr1	179494565	179494568	+	Frame_Shift_Del	DEL	AAAG	AAAG	-													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggaaacttcaggaggaaaatAaagagagagcagaagaagta							TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	AAAG	AAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:179494565_179494568delAAAG	ENST00000367618.3	+	22	2980_2983	c.2593_2596delAAAG	c.(2593-2598)aaagagfs	p.KE865fs		NM_144696.4	NP_653297.3	Q5T1B0	AXDN1_HUMAN	axonemal dynein light chain domain containing 1	865	Glu-rich.									NS(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(27)|ovary(1)|pancreas(1)|prostate(1)|skin(8)|stomach(2)|upper_aerodigestive_tract(2)	59						GGAGGAAAATAAAGAGAGAGCAGA	0.358																																																0																																										SO:0001589	frameshift_variant	126859			BX647935	CCDS30948.1	1q25.2	2011-02-18	2011-02-18	2011-02-18	ENSG00000162779	ENSG00000162779			26564	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 125"	C1orf125		14702039	Standard	NM_144696		Approved	FLJ32940	uc001gmo.3	Q5T1B0	OTTHUMG00000035266	ENST00000367618.3:c.2593_2596delAAAG	1.37:g.179494565_179494568delAAAG	ENSP00000356590:p.Lys865fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6AWB2|Q96LJ3|Q96M01	Frame_Shift_Del	DEL	ENST00000367618.3	37	CCDS30948.1																																																																																				0.358	AXDND1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085312.1	NM_144696		-	179494568	AAAG	-	179494565	7	5	664	1	0	1	0	1	0	0	0	0	1995	363	13	0	2675	0	C1orf125	1	179494565	Frame_Shift_Del	DEL	AAAG	TCGA-KN-8428-01A-11D-2310-10	437448	179494565	69756056	78	41388	393	2								
C1orf125	126859	bcgsc.ca	37	chr1	179494566	179494569	+	Frame_Shift_Del	DEL	AAAG	AAAG	-													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaaacttcaggaggaaaataAagagagagcagaagaagtaa							TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	AAAG	AAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:179494566_179494569delAAAG	ENST00000367618.3	+	22	2981_2984	c.2594_2597delAAAG	c.(2593-2598)aaaaggfs	p.KR865fs		NM_144696.4	NP_653297.3	Q5T1B0	AXDN1_HUMAN	axonemal dynein light chain domain containing 1	865	Glu-rich.									NS(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(27)|ovary(1)|pancreas(1)|prostate(1)|skin(8)|stomach(2)|upper_aerodigestive_tract(2)	59						GAGGAAAATAAAGAGAGAGCAGAA	0.358																																																0																																										SO:0001589	frameshift_variant	126859			BX647935	CCDS30948.1	1q25.2	2011-02-18	2011-02-18	2011-02-18	ENSG00000162779	ENSG00000162779			26564	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 125"	C1orf125		14702039	Standard	NM_144696		Approved	FLJ32940	uc001gmo.3	Q5T1B0	OTTHUMG00000035266	ENST00000367618.3:c.2594_2597delAAAG	1.37:g.179494566_179494569delAAAG	ENSP00000356590:p.Lys865fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6AWB2|Q96LJ3|Q96M01	Frame_Shift_Del	DEL	ENST00000367618.3	37	CCDS30948.1																																																																																				0.358	AXDND1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085312.1	NM_144696		-	179494569	AAAG	-	179494566	7	5	664	1	0	1	0	1	0	0	0	0	1995	14	1	0	2676	0	C1orf125	1	179494566	Frame_Shift_Del	DEL	AAAG	TCGA-KN-8428-01A-11D-2310-10	1	179494566	69756055	79	41389	393	2								
QSOX1	5768	broad.mit.edu;hgsc.bcm.edu	37	chr1	180135639	180135639	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctttcagcctggaggccggcCctgtatctcgccgccctgga	12	16	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:180135639C>A	ENST00000367602.3	+	2	353	c.279C>A	c.(277-279)gcC>gcA	p.A93A	QSOX1_ENST00000367600.5_Silent_p.A93A			O00391	QSOX1_HUMAN	quiescin Q6 sulfhydryl oxidase 1	93	Thioredoxin. {ECO:0000255|PROSITE- ProRule:PRU00691}.				cell redox homeostasis (GO:0045454)|protein folding (GO:0006457)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of Golgi membrane (GO:0030173)	flavin-linked sulfhydryl oxidase activity (GO:0016971)|protein disulfide isomerase activity (GO:0003756)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(7)|lung(9)|ovary(1)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)	31						GGAGGCCGGCCCTGTATCTCG	0.592																																																0													76	72	73					1																	180135639		2203	4300	6503	SO:0001819	synonymous_variant	5768			U97276	CCDS1337.1, CCDS30950.1	1q24	2008-02-05	2007-04-23	2007-04-23	ENSG00000116260	ENSG00000116260			9756	protein-coding gene	gene with protein product		603120	"quiescin Q6"	QSCN6		9878249, 8396966	Standard	NM_002826		Approved		uc001gnz.3	O00391	OTTHUMG00000035256	ENST00000367602.3:c.279C>A	1.37:g.180135639C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q59G29|Q5T2X0|Q8TDL6|Q8WVP4	Silent	SNP	ENST00000367602.3	37	CCDS1337.1																																																																																				0.592	QSOX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085289.1	NM_002826		A	180135639	C	A	180135639	2	1	664	1	0	0	0	0	0	0	0	1	12896	610	22	4		4	QSOX1	1	180135639	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	641073	180135639	69114982	80	41390										
TPR	7175	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	186289518	186289518	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tatcttcaggtggcccaaacCggaatctagggacaccagca	10	12	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:186289518C>T	ENST00000367478.4	-	46	6790	c.6494G>A	c.(6493-6495)cGg>cAg	p.R2165Q		NM_003292.2	NP_003283.2	P12270	TPR_HUMAN	translocated promoter region, nuclear basket protein	2165					carbohydrate metabolic process (GO:0005975)|cellular response to heat (GO:0034605)|cellular response to interferon-alpha (GO:0035457)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|MAPK import into nucleus (GO:0000189)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic nuclear envelope disassembly (GO:0007077)|mitotic spindle assembly checkpoint (GO:0007094)|mRNA export from nucleus in response to heat stress (GO:0031990)|negative regulation of RNA export from nucleus (GO:0046832)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of translational initiation (GO:0045947)|nuclear pore organization (GO:0006999)|positive regulation of heterochromatin assembly (GO:0031453)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of mitotic cell cycle spindle assembly checkpoint (GO:0090267)|positive regulation of protein export from nucleus (GO:0046827)|positive regulation of protein import into nucleus (GO:0042307)|protein import into nucleus (GO:0006606)|regulation of glucose transport (GO:0010827)|regulation of mitotic sister chromatid separation (GO:0010965)|regulation of spindle assembly involved in mitosis (GO:1901673)|response to epidermal growth factor (GO:0070849)|RNA export from nucleus (GO:0006405)|RNA import into nucleus (GO:0006404)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytoplasmic dynein complex (GO:0005868)|extrinsic component of membrane (GO:0019898)|kinetochore (GO:0000776)|mitotic spindle (GO:0072686)|nuclear envelope (GO:0005635)|nuclear inclusion body (GO:0042405)|nuclear membrane (GO:0031965)|nuclear periphery (GO:0034399)|nuclear pore (GO:0005643)|nuclear pore nuclear basket (GO:0044615)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|dynein complex binding (GO:0070840)|heat shock protein binding (GO:0031072)|mitogen-activated protein kinase binding (GO:0051019)|mRNA binding (GO:0003729)|nucleocytoplasmic transporter activity (GO:0005487)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)|tubulin binding (GO:0015631)			autonomic_ganglia(1)|breast(5)|central_nervous_system(4)|cervix(2)|endometrium(9)|kidney(12)|large_intestine(23)|liver(1)|lung(45)|ovary(2)|pancreas(1)|prostate(6)|skin(3)|stomach(1)|urinary_tract(8)	123		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)		TGGCCCAAACCGGAATCTAGG	0.403			T	NTRK1	papillary thyroid																																		Dom	yes		1	1q25	7175	translocated promoter region		E	0													82	74	77					1																	186289518		1856	4088	5944	SO:0001583	missense	7175			U69668	CCDS41446.1	1q25	2012-03-13	2012-03-13		ENSG00000047410	ENSG00000047410			12017	protein-coding gene	gene with protein product		189940	"translocated promoter region (to activated MET oncogene)"			1611909, 15229283	Standard	NM_003292		Approved		uc001grv.3	P12270	OTTHUMG00000035580	ENST00000367478.4:c.6494G>A	1.37:g.186289518C>T	ENSP00000356448:p.Arg2165Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q15655|Q5SWY0|Q99968	Missense_Mutation	SNP	ENST00000367478.4	37	CCDS41446.1	.	.	.	.	.	.	.	.	.	.	C	35	5.541373	0.96474	.	.	ENSG00000047410	ENST00000367478	T	0.26067	1.76	5.43	5.43	0.79202	.	0.000000	0.85682	D	0.000000	T	0.47764	0.1463	M	0.71581	2.175	0.58432	D	0.999996	D	0.76494	0.999	P	0.56751	0.805	T	0.50268	-0.8848	10	0.87932	D	0	.	19.2507	0.93923	0.0:1.0:0.0:0.0	.	2165	P12270	TPR_HUMAN	Q	2165	ENSP00000356448:R2165Q	ENSP00000356448:R2165Q	R	-	2	0	TPR	184556141	1.000000	0.71417	0.999000	0.59377	0.971000	0.66376	6.924000	0.75823	2.538000	0.85594	0.563000	0.77884	CGG		0.403	TPR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086353.2	NM_003292		T	186289518	C	T	186289518	3	4	664	1	0	0	0	0	1	0	0	0	16428	652	23	1	621	1	TPR	1	186289518	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	6153879	186289518	62961103	81	41391										
CACNA1S	779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	201029943	201029943	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gggcatactgtacacattggCgctgtgacacatacaacagg	11	10	0	1	rs1800559		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:201029943C>T	ENST00000362061.3	-	26	3483	c.3257G>A	c.(3256-3258)cGc>cAc	p.R1086H	CACNA1S_ENST00000367338.3_Splice_Site_p.R1086H	NM_000069.2	NP_000060.2	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type, alpha 1S subunit	1086			R -> H (in MHS5; dbSNP:rs1800559). {ECO:0000269|PubMed:9199552}.		axon guidance (GO:0007411)|calcium ion import (GO:0070509)|calcium ion transport (GO:0006816)|endoplasmic reticulum organization (GO:0007029)|extraocular skeletal muscle development (GO:0002074)|membrane depolarization during action potential (GO:0086010)|muscle contraction (GO:0006936)|myoblast fusion (GO:0007520)|neuromuscular junction development (GO:0007528)|skeletal muscle adaptation (GO:0043501)|skeletal muscle fiber development (GO:0048741)|skeletal system development (GO:0001501)|striated muscle contraction (GO:0006941)	cytoplasm (GO:0005737)|I band (GO:0031674)|plasma membrane (GO:0005886)|sarcoplasmic reticulum (GO:0016529)|T-tubule (GO:0030315)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)	p.R1086H(1)		NS(2)|breast(4)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(13)|large_intestine(19)|lung(37)|ovary(6)|prostate(3)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(2)	102					Amlodipine(DB00381)|Cinnarizine(DB00568)|Clevidipine(DB04920)|Dronedarone(DB04855)|Felodipine(DB01023)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Verapamil(DB00661)	TACACATTGGCGCTGTGACAC	0.562																																																1	Substitution - Missense(1)	large_intestine(1)	GRCh37	CM970210	CACNA1S	M	rs1800559						211	204	206					1																	201029943		2203	4300	6503	SO:0001630	splice_region_variant	779			L33798	CCDS1407.1	1q32	2012-03-07			ENSG00000081248	ENSG00000081248		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1397	protein-coding gene	gene with protein product		114208		HOKPP, MHS5, CACNL1A3		7916735, 16382099	Standard	NM_000069		Approved	Cav1.1, hypoPP	uc001gvv.3	Q13698	OTTHUMG00000035784	ENST00000362061.3:c.3256-1G>A	1.37:g.201029943C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4IF51|B1ALM2|Q12896|Q13934	Missense_Mutation	SNP	ENST00000362061.3	37	CCDS1407.1	.	.	.	.	.	.	.	.	.	.	C	16.16	3.044776	0.55110	.	.	ENSG00000081248	ENST00000362061;ENST00000367338	D;D	0.96885	-4.16;-4.08	5.17	4.26	0.50523	.	0.152379	0.64402	D	0.000015	D	0.98460	0.9487	M	0.93638	3.44	0.58432	D	0.999997	D	0.89917	1.0	D	0.91635	0.999	D	0.99342	1.0912	10	0.87932	D	0	.	13.6178	0.62120	0.0:0.9234:0.0:0.0766	rs1800559;rs28931587	1086	Q13698	CAC1S_HUMAN	H	1086	ENSP00000355192:R1086H;ENSP00000356307:R1086H	ENSP00000355192:R1086H	R	-	2	0	CACNA1S	199296566	1.000000	0.71417	1.000000	0.80357	0.031000	0.12232	7.774000	0.85478	1.297000	0.44761	-0.136000	0.14681	CGC		0.562	CACNA1S-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087049.1	NM_000069	Missense_Mutation	T	201029943	C	T	201029943	5	4	664	1	0	0	0	0	0	0	1	0	2549	782	27	1	2440	1	CACNA1S	1	201029943	Splice_Site	SNP	C	TCGA-KN-8428-01A-11D-2310-10	14740425	201029943	48220678	82	41392										
CACNA1S	779	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr1	201060823	201060823	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cccttgaagagctccagcccGatgatggcatagatgatgac	11	11	0	6			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:201060823G>A	ENST00000362061.3	-	5	865	c.639C>T	c.(637-639)atC>atT	p.I213I	CACNA1S_ENST00000367338.3_Silent_p.I213I	NM_000069.2	NP_000060.2	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type, alpha 1S subunit	213					axon guidance (GO:0007411)|calcium ion import (GO:0070509)|calcium ion transport (GO:0006816)|endoplasmic reticulum organization (GO:0007029)|extraocular skeletal muscle development (GO:0002074)|membrane depolarization during action potential (GO:0086010)|muscle contraction (GO:0006936)|myoblast fusion (GO:0007520)|neuromuscular junction development (GO:0007528)|skeletal muscle adaptation (GO:0043501)|skeletal muscle fiber development (GO:0048741)|skeletal system development (GO:0001501)|striated muscle contraction (GO:0006941)	cytoplasm (GO:0005737)|I band (GO:0031674)|plasma membrane (GO:0005886)|sarcoplasmic reticulum (GO:0016529)|T-tubule (GO:0030315)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)			NS(2)|breast(4)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(13)|large_intestine(19)|lung(37)|ovary(6)|prostate(3)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(2)	102					Amlodipine(DB00381)|Cinnarizine(DB00568)|Clevidipine(DB04920)|Dronedarone(DB04855)|Felodipine(DB01023)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Verapamil(DB00661)	GCTCCAGCCCGATGATGGCAT	0.567																																																0													115	99	105					1																	201060823		2203	4300	6503	SO:0001819	synonymous_variant	779			L33798	CCDS1407.1	1q32	2012-03-07			ENSG00000081248	ENSG00000081248		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1397	protein-coding gene	gene with protein product		114208		HOKPP, MHS5, CACNL1A3		7916735, 16382099	Standard	NM_000069		Approved	Cav1.1, hypoPP	uc001gvv.3	Q13698	OTTHUMG00000035784	ENST00000362061.3:c.639C>T	1.37:g.201060823G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4IF51|B1ALM2|Q12896|Q13934	Silent	SNP	ENST00000362061.3	37	CCDS1407.1																																																																																				0.567	CACNA1S-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087049.1	NM_000069		A	201060823	G	A	201060823	2	1	664	1	0	0	0	0	0	0	0	1	2549	1048	37	1		1	CACNA1S	1	201060823	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	30880	201060823	48189798	83	41393										
CNTN2	6900	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	205041226	205041226	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccgggctggcactgggcctgCcagcccttctgccaacgcca	12	18	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:205041226C>T	ENST00000331830.4	+	20	2980	c.2696C>T	c.(2695-2697)gCc>gTc	p.A899V		NM_005076.3	NP_005067.1	Q02246	CNTN2_HUMAN	contactin 2 (axonal)	899	Fibronectin type-III 3. {ECO:0000255|PROSITE-ProRule:PRU00316}.				adult walking behavior (GO:0007628)|axon guidance (GO:0007411)|axonal fasciculation (GO:0007413)|cell adhesion (GO:0007155)|cellular protein localization (GO:0034613)|central nervous system myelination (GO:0022010)|cerebral cortex GABAergic interneuron migration (GO:0021853)|clustering of voltage-gated potassium channels (GO:0045163)|establishment of protein localization to juxtaparanode region of axon (GO:0071206)|learning (GO:0007612)|microtubule cytoskeleton organization (GO:0000226)|negative regulation of neuron differentiation (GO:0045665)|positive regulation of adenosine receptor signaling pathway (GO:0060168)|positive regulation of protein processing (GO:0010954)|presynaptic membrane organization (GO:0097090)|receptor internalization (GO:0031623)|regulation of astrocyte differentiation (GO:0048710)|regulation of axon diameter (GO:0031133)|regulation of neuronal synaptic plasticity (GO:0048168)	anchored component of membrane (GO:0031225)|cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|juxtaparanode region of axon (GO:0044224)|myelin sheath (GO:0043209)|neuronal cell body (GO:0043025)|node of Ranvier (GO:0033268)|plasma membrane (GO:0005886)|synapse (GO:0045202)|voltage-gated potassium channel complex (GO:0008076)	carbohydrate binding (GO:0030246)|identical protein binding (GO:0042802)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(11)|lung(23)|ovary(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)	54	all_cancers(21;0.144)|Breast(84;0.0437)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			ACTGGGCCTGCCAGCCCTTCT	0.627																																					Melanoma(183;2548 2817 37099 41192)											0													79	81	80					1																	205041226		2203	4300	6503	SO:0001583	missense	6900			X67734	CCDS1449.1	1q32.1	2013-02-11			ENSG00000184144	ENSG00000184144		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	2172	protein-coding gene	gene with protein product		190197		TAX, AXT		8307567, 8586965	Standard	NM_005076		Approved	TAG-1, TAX1	uc001hbr.3	Q02246	OTTHUMG00000037105	ENST00000331830.4:c.2696C>T	1.37:g.205041226C>T	ENSP00000330633:p.Ala899Val	Somatic		WXS	Illumina HiSeq	Phase_I	P78432|Q5T054	Missense_Mutation	SNP	ENST00000331830.4	37	CCDS1449.1	.	.	.	.	.	.	.	.	.	.	c	35	5.582083	0.96578	.	.	ENSG00000184144	ENST00000331830	T	0.17370	2.28	5.69	5.69	0.88448	Fibronectin, type III (3);Immunoglobulin-like fold (1);	0.292700	0.24087	U	0.041661	T	0.36663	0.0975	L	0.58583	1.82	0.40376	D	0.97939	B;D	0.54207	0.277;0.965	P;P	0.59221	0.474;0.854	T	0.01188	-1.1424	10	0.38643	T	0.18	.	19.4013	0.94630	0.0:1.0:0.0:0.0	.	899;790	Q02246;Q68DA2	CNTN2_HUMAN;.	V	899	ENSP00000330633:A899V	ENSP00000330633:A899V	A	+	2	0	CNTN2	203307849	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	7.768000	0.85345	2.683000	0.91414	0.651000	0.88453	GCC		0.627	CNTN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090080.3	NM_005076		T	205041226	C	T	205041226	3	4	664	1	0	0	0	0	1	0	0	0	3643	739	26	2	2770	2	CNTN2	1	205041226	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3980403	205041226	44209395	84	41394										
PLXNA2	5362	broad.mit.edu;bcgsc.ca	37	chr1	208383788	208383788	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgatgtccagtccacagaagTtatcatcgatggggacaggc	12	9	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:208383788T>C	ENST00000367033.3	-	3	1965	c.1208A>G	c.(1207-1209)aAc>aGc	p.N403S		NM_025179.3	NP_079455.3	O75051	PLXA2_HUMAN	plexin A2	403	Sema. {ECO:0000255|PROSITE- ProRule:PRU00352}.				axon guidance (GO:0007411)|centrosome localization (GO:0051642)|cerebellar granule cell precursor tangential migration (GO:0021935)|limb bud formation (GO:0060174)|neural tube development (GO:0021915)|pharyngeal system development (GO:0060037)|regulation of cell migration (GO:0030334)|semaphorin-plexin signaling pathway (GO:0071526)|somitogenesis (GO:0001756)	integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|semaphorin receptor complex (GO:0002116)	semaphorin receptor activity (GO:0017154)			NS(1)|breast(3)|central_nervous_system(5)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|liver(1)|lung(28)|ovary(3)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)	80				OV - Ovarian serous cystadenocarcinoma(81;0.199)		TCCACAGAAGTTATCATCGAT	0.577																																																0													65	57	60					1																	208383788		2203	4300	6503	SO:0001583	missense	5362			X87831	CCDS31013.1	1q32.2	2008-07-18			ENSG00000076356	ENSG00000076356		"Plexins"	9100	protein-coding gene	gene with protein product	"plexin 2", "plexin-A2", "semaphorin receptor OCT", "transmembrane protein OCT"	601054		PLXN2		8570614	Standard	NM_025179		Approved	OCT, FLJ11751, FLJ30634, KIAA0463	uc001hgz.3	O75051	OTTHUMG00000036564	ENST00000367033.3:c.1208A>G	1.37:g.208383788T>C	ENSP00000356000:p.Asn403Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A2RTX9|B2RMX7|Q6UX61|Q96GN9|Q9BRL1|Q9UIW1	Missense_Mutation	SNP	ENST00000367033.3	37	CCDS31013.1	.	.	.	.	.	.	.	.	.	.	T	14.21	2.466119	0.43839	.	.	ENSG00000076356	ENST00000367033	T	0.10860	2.83	5.53	3.19	0.36642	WD40/YVTN repeat-like-containing domain (1);Semaphorin/CD100 antigen (4);	0.341026	0.31909	N	0.006873	T	0.07728	0.0194	L	0.33485	1.01	0.36246	D	0.853606	B;B	0.11235	0.004;0.002	B;B	0.11329	0.006;0.002	T	0.15809	-1.0424	10	0.42905	T	0.14	.	5.3898	0.16237	0.0:0.1449:0.1517:0.7034	.	457;403	O75051-2;O75051	.;PLXA2_HUMAN	S	403	ENSP00000356000:N403S	ENSP00000356000:N403S	N	-	2	0	PLXNA2	206450411	1.000000	0.71417	1.000000	0.80357	0.788000	0.44548	1.567000	0.36407	0.903000	0.36546	0.533000	0.62120	AAC		0.577	PLXNA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088932.6	NM_025179		C	208383788	T	C	208383788	3	2	664	1	0	0	0	0	1	0	0	0	12127	1725	60	3	4596	3	PLXNA2	1	208383788	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	3342562	208383788	40866833	85	41395										
CDC42BPA	8476	ucsc.edu;bcgsc.ca	37	chr1	227504801	227504801	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtatatccagtaatgtctccAcactgaagcactgcccattg	7	12	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:227504801A>G	ENST00000366769.3	-	1	1374	c.83T>C	c.(82-84)gTg>gCg	p.V28A	CDC42BPA_ENST00000334218.5_Missense_Mutation_p.V28A|CDC42BPA_ENST00000366765.3_Missense_Mutation_p.V28A|CDC42BPA_ENST00000366764.2_Missense_Mutation_p.V28A|CDC42BPA_ENST00000366766.2_Missense_Mutation_p.V28A|CDC42BPA_ENST00000366767.3_Missense_Mutation_p.V28A|CDC42BPA_ENST00000535525.1_Missense_Mutation_p.V28A	NM_003607.3	NP_003598.2			CDC42 binding protein kinase alpha (DMPK-like)											NS(1)|breast(4)|cervix(1)|endometrium(8)|kidney(8)|large_intestine(12)|lung(32)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|stomach(3)|urinary_tract(2)	77		all_cancers(173;0.156)|Prostate(94;0.0792)				TAATGTCTCCACACTGAAGCA	0.448																																																0													133	119	124					1																	227504801		2203	4300	6503	SO:0001583	missense	8476			U59305	CCDS1558.1, CCDS1559.1	1q42.11	2011-11-23	2001-11-28		ENSG00000143776	ENSG00000143776			1737	protein-coding gene	gene with protein product	"myotonic dystrophy kinase-related Cdc42-binding kinase"	603412	"CDC42-binding protein kinase alpha (DMPK-like)"				Standard	NM_003607		Approved	MRCKA, PK428, FLJ23347, KIAA0451, MRCK	uc001hqr.3	Q5VT25	OTTHUMG00000037618	ENST00000366769.3:c.83T>C	1.37:g.227504801A>G	ENSP00000355731:p.Val28Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000366769.3	37	CCDS1558.1	.	.	.	.	.	.	.	.	.	.	A	25.6	4.659730	0.88154	.	.	ENSG00000143776	ENST00000366769;ENST00000366767;ENST00000334218;ENST00000366766;ENST00000366764;ENST00000535525;ENST00000366765	T;T;T;T;T;T;T	0.68025	-0.28;-0.22;-0.3;-0.29;-0.3;-0.26;-0.3	4.82	4.82	0.62117	.	0.000000	0.85682	D	0.000000	T	0.74504	0.3725	M	0.79475	2.455	0.58432	D	0.999993	P;P;P;P	0.46578	0.878;0.84;0.801;0.88	P;P;B;P	0.49301	0.584;0.538;0.428;0.606	T	0.77920	-0.2407	10	0.51188	T	0.08	.	14.6849	0.69042	1.0:0.0:0.0:0.0	.	28;28;28;28	F5H5N0;Q5VT25-4;Q5VT25-3;Q5VT25-5	.;.;.;.	A	28	ENSP00000355731:V28A;ENSP00000355729:V28A;ENSP00000335341:V28A;ENSP00000355728:V28A;ENSP00000355726:V28A;ENSP00000443275:V28A;ENSP00000355727:V28A	ENSP00000335341:V28A	V	-	2	0	CDC42BPA	225571424	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	8.880000	0.92407	1.932000	0.55993	0.460000	0.39030	GTG		0.448	CDC42BPA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091696.1	NM_014826		G	227504801	A	G	227504801	3	3	664	1	0	0	0	0	1	0	0	0	3074	159	6	3	5220	3	CDC42BPA	1	227504801	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	19121013	227504801	21745820	86	41396										
JMJD4	65094	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	227921193	227921193	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgcgtgatctccaagggtggGccagcaagctggttccgtgg	16	10	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:227921193G>A	ENST00000366758.3	-	4	881	c.882C>T	c.(880-882)ggC>ggT	p.G294G	JMJD4_ENST00000485807.1_5'UTR|JMJD4_ENST00000438896.2_Silent_p.G294G|SNAP47_ENST00000366759.4_5'Flank|SNAP47_ENST00000480897.1_3'UTR|SNAP47_ENST00000366760.1_Intron|SNAP47_ENST00000315781.5_5'Flank	NM_023007.2	NP_075383.2	Q9H9V9	JMJD4_HUMAN	jumonji domain containing 4	294	JmjC. {ECO:0000255|PROSITE- ProRule:PRU00538}.									endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)|prostate(1)|skin(1)	9		Prostate(94;0.0885)				CCAAGGGTGGGCCAGCAAGCT	0.642																																																0													69	55	60					1																	227921193		2201	4300	6501	SO:0001819	synonymous_variant	65094			AK022579	CCDS1561.1, CCDS59203.1	1q42.13	2008-02-05			ENSG00000081692	ENSG00000081692			25724	protein-coding gene	gene with protein product						12477932	Standard	NM_023007		Approved	FLJ12517	uc001hrb.3	Q9H9V9	OTTHUMG00000037698	ENST00000366758.3:c.882C>T	1.37:g.227921193G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TBZ1|Q5TBZ6|Q9H970	Silent	SNP	ENST00000366758.3	37	CCDS1561.1	.	.	.	.	.	.	.	.	.	.	.	1.828	-0.470611	0.04445	.	.	ENSG00000081692	ENST00000438896	.	.	.	4.5	1.43	0.22495	.	.	.	.	.	T	0.51193	0.1660	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.39941	-0.9589	4	.	.	.	-14.187	4.7081	0.12860	0.2132:0.0:0.612:0.1748	.	.	.	.	V	287	.	.	A	-	2	0	JMJD4	225987816	1.000000	0.71417	0.031000	0.17742	0.214000	0.24535	0.895000	0.28363	0.554000	0.29061	0.655000	0.94253	GCC		0.642	JMJD4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000091970.1	NM_023007		A	227921193	G	A	227921193	2	1	664	1	0	0	0	0	0	0	0	1	7958	1190	42	2		2	JMJD4	1	227921193	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	416392	227921193	21329428	87	41397										
TARBP1	6894	broad.mit.edu	37	chr1	234527364	234527364	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgagagcagctgctgcctggTgtactcccagatcagcaggg	14	12	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:234527364T>C	ENST00000040877.1	-	30	4824	c.4825A>G	c.(4825-4827)Acc>Gcc	p.T1609A	TARBP1_ENST00000483404.1_5'UTR	NM_005646.3	NP_005637.3	Q13395	TARB1_HUMAN	TAR (HIV-1) RNA binding protein 1	1609					regulation of transcription from RNA polymerase II promoter (GO:0006357)|RNA processing (GO:0006396)	nucleus (GO:0005634)	RNA binding (GO:0003723)|RNA methyltransferase activity (GO:0008173)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(7)|large_intestine(6)|lung(22)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(4)	55	Ovarian(103;0.0339)	all_cancers(173;0.00995)|Prostate(94;0.0115)|all_epithelial(177;0.172)	OV - Ovarian serous cystadenocarcinoma(106;0.000263)			TGCTGCCTGGTGTACTCCCAG	0.488																																																0													64	55	58					1																	234527364		2203	4300	6503	SO:0001583	missense	6894				CCDS1601.1	1q42.2	2012-06-12	2007-06-26		ENSG00000059588	ENSG00000059588			11568	protein-coding gene	gene with protein product	"tRNA methyltransferase 3 homolog (S. cerevisiae)"	605052	"Tar (HIV-1) RNA binding protein 1"			1936997	Standard	NM_005646		Approved	TRP-185, TRM3	uc001hwd.3	Q13395	OTTHUMG00000037947	ENST00000040877.1:c.4825A>G	1.37:g.234527364T>C	ENSP00000040877:p.Thr1609Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H581	Missense_Mutation	SNP	ENST00000040877.1	37	CCDS1601.1	.	.	.	.	.	.	.	.	.	.	T	10.41	1.342560	0.24339	.	.	ENSG00000059588	ENST00000040877	T	0.28454	1.61	5.47	4.34	0.51931	.	0.056427	0.64402	N	0.000001	T	0.19446	0.0467	N	0.21448	0.665	0.58432	D	0.999999	B	0.30193	0.272	B	0.22386	0.039	T	0.03717	-1.1010	10	0.39692	T	0.17	-15.7136	11.2194	0.48846	0.0:0.0722:0.0:0.9278	.	1609	Q13395	TARB1_HUMAN	A	1609	ENSP00000040877:T1609A	ENSP00000040877:T1609A	T	-	1	0	TARBP1	232593987	1.000000	0.71417	0.352000	0.25734	0.253000	0.25986	5.114000	0.64648	0.916000	0.36871	0.482000	0.46254	ACC		0.488	TARBP1-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092616.1	NM_005646		C	234527364	T	C	234527364	3	2	664	1	0	0	0	0	1	0	0	0	15567	1696	59	3	44	3	TARBP1	1	234527364	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	6606171	234527364	14723257	88	41398										
HEATR1	55127	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	236762781	236762781	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atatgtcattcagcaattatAccttaactggcaacaaccag	5	10	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:236762781A>G	ENST00000366582.3	-	4	616		c.e4+1		HEATR1_ENST00000366581.2_Splice_Site|HEATR1_ENST00000483073.1_Splice_Site	NM_018072.5	NP_060542.4	Q9H583	HEAT1_HUMAN	HEAT repeat containing 1						rRNA processing (GO:0006364)	membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(7)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(18)|lung(28)|ovary(3)|prostate(1)|skin(4)|stomach(3)|upper_aerodigestive_tract(3)	87	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			CAGCAATTATACCTTAACTGG	0.353																																																0													83	80	81					1																	236762781		2203	4300	6503	SO:0001630	splice_region_variant	55127			BC065205	CCDS31066.1	1q43	2011-08-12			ENSG00000119285	ENSG00000119285			25517	protein-coding gene	gene with protein product	"UTP10, small subunit (SSU) processome component, homolog (yeast)"					17699751	Standard	NM_018072		Approved	FLJ10359, BAP28, UTP10	uc001hyd.2	Q9H583	OTTHUMG00000040061	ENST00000366582.3:c.501+1T>C	1.37:g.236762781A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3Q8|Q6P197|Q9NW23	Splice_Site	SNP	ENST00000366582.3	37	CCDS31066.1	.	.	.	.	.	.	.	.	.	.	A	14.85	2.658177	0.47467	.	.	ENSG00000119285	ENST00000366582;ENST00000366581	.	.	.	5.33	5.33	0.75918	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.5903	0.76523	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	HEATR1	234829404	1.000000	0.71417	0.994000	0.49952	0.558000	0.35554	7.087000	0.76893	2.128000	0.65567	0.459000	0.35465	.		0.353	HEATR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096635.1	XM_375853	Intron	G	236762781	A	G	236762781	5	3	664	1	0	0	0	0	0	0	1	0	7034	405	14	3	6099	3	HEATR1	1	236762781	Splice_Site	SNP	A	TCGA-KN-8428-01A-11D-2310-10	2235417	236762781	12487840	89	41399										
NLRP3	114548	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	247587215	247587215	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cattgaagacaggaatgcccGtctgggtgagagtgtgagcc	15	8	1	4	rs533920557		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:247587215G>A	ENST00000336119.3	+	3	1216	c.470G>A	c.(469-471)cGt>cAt	p.R157H	NLRP3_ENST00000474792.1_3'UTR|NLRP3_ENST00000391828.3_Missense_Mutation_p.R157H|NLRP3_ENST00000366496.2_Missense_Mutation_p.R157H|NLRP3_ENST00000366497.2_Missense_Mutation_p.R157H|NLRP3_ENST00000391827.2_Missense_Mutation_p.R157H|NLRP3_ENST00000348069.2_Missense_Mutation_p.R157H	NM_001127462.2|NM_001243133.1|NM_004895.4	NP_001120934.1|NP_001230062.1|NP_004886.3	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3	157					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic process (GO:0006915)|cellular response to lipopolysaccharide (GO:0071222)|defense response (GO:0006952)|defense response to virus (GO:0051607)|detection of biotic stimulus (GO:0009595)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|interleukin-1 beta production (GO:0032611)|interleukin-1 secretion (GO:0050701)|interleukin-18 production (GO:0032621)|negative regulation of acute inflammatory response (GO:0002674)|negative regulation of inflammatory response (GO:0050728)|negative regulation of interleukin-1 beta secretion (GO:0050713)|negative regulation of NF-kappaB import into nucleus (GO:0042347)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|NLRP3 inflammasome complex assembly (GO:0044546)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of interleukin-1 beta secretion (GO:0050718)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|protein oligomerization (GO:0051259)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|NLRP3 inflammasome complex (GO:0072559)	ATP binding (GO:0005524)|peptidoglycan binding (GO:0042834)	p.R157H(2)		NS(1)|breast(3)|endometrium(6)|kidney(1)|large_intestine(19)|lung(85)|ovary(9)|pancreas(2)|prostate(4)|skin(8)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	142	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)			AGGAATGCCCGTCTGGGTGAG	0.522													G|||	1	0.000199681	0.0	0.0	5008	,	,		21031	0.001		0.0	False		,,,				2504	0.0															2	Substitution - Missense(2)	prostate(1)|endometrium(1)											95	75	82					1																	247587215		2203	4300	6503	SO:0001583	missense	114548			AF054176	CCDS1632.1, CCDS1633.1, CCDS44346.1, CCDS44347.1	1q44	2014-09-17	2006-12-08	2006-12-08	ENSG00000162711	ENSG00000162711		"Nucleotide-binding domain and leucine rich repeat containing"	16400	protein-coding gene	gene with protein product	"Cryopyrin", "nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 3"	606416	"cold autoinflammatory syndrome 1"	C1orf7, CIAS1		10741953	Standard	NM_183395		Approved	AGTAVPRL, AII, AVP, FCAS, FCU, NALP3, PYPAF1, MWS, CLR1.1	uc001icr.3	Q96P20	OTTHUMG00000040647	ENST00000336119.3:c.470G>A	1.37:g.247587215G>A	ENSP00000337383:p.Arg157His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RC97|B7ZKS9|B7ZKT2|B7ZKT3|O75434|Q17RS2|Q59H68|Q5JQS8|Q5JQS9|Q6TG35|Q8TCW0|Q8TEU9|Q8WXH9	Missense_Mutation	SNP	ENST00000336119.3	37	CCDS1632.1	.	.	.	.	.	.	.	.	.	.	G	17.32	3.359037	0.61403	.	.	ENSG00000162711	ENST00000391828;ENST00000366497;ENST00000336119;ENST00000348069;ENST00000366496;ENST00000391827	D;D;D;D;D;D	0.89196	-2.48;-2.48;-2.48;-2.48;-2.48;-2.48	4.27	4.27	0.50696	.	0.000000	0.51477	D	0.000081	D	0.92319	0.7563	M	0.71206	2.165	0.33532	D	0.593746	D;D;D;D;D	0.89917	1.0;1.0;1.0;0.997;0.958	D;D;D;D;P	0.97110	0.917;0.975;1.0;0.924;0.585	D	0.90744	0.4652	10	0.15066	T	0.55	.	12.5127	0.56015	0.0:0.0:1.0:0.0	.	157;157;157;157;157	B7ZKS9;Q96P20-4;Q96P20-2;Q96P20-5;Q96P20	.;.;.;.;NALP3_HUMAN	H	157	ENSP00000375704:R157H;ENSP00000355453:R157H;ENSP00000337383:R157H;ENSP00000294752:R157H;ENSP00000355452:R157H;ENSP00000375703:R157H	ENSP00000337383:R157H	R	+	2	0	NLRP3	245653838	0.043000	0.20138	0.997000	0.53966	0.916000	0.54674	2.089000	0.41672	2.669000	0.90835	0.655000	0.94253	CGT		0.522	NLRP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097740.1	NM_004895		A	247587215	G	A	247587215	3	1	664	1	0	0	0	0	1	0	0	0	10485	1145	40	1	480	1	NLRP3	1	247587215	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	10824434	247587215	1663406	90	41400										
TRIM58	25893	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	248031300	248031300	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaggctggaagcagagaacaTccccatggaactgaagacag	12	9	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:248031300T>C	ENST00000366481.3	+	5	854	c.806T>C	c.(805-807)aTc>aCc	p.I269T	OR2W3_ENST00000537741.1_5'UTR	NM_015431.3	NP_056246.3	Q8NG06	TRI58_HUMAN	tripartite motif containing 58	269						intracellular (GO:0005622)	zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|large_intestine(4)|lung(39)|ovary(4)|pancreas(1)|skin(7)|stomach(1)	63	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GCAGAGAACATCCCCATGGAA	0.532																																																0													103	94	97					1																	248031300		2203	4300	6503	SO:0001583	missense	25893			AF327057	CCDS1636.1	1q44	2013-01-09	2011-01-25		ENSG00000162722	ENSG00000162722		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	24150	protein-coding gene	gene with protein product			"tripartite motif-containing 58"				Standard	NM_015431		Approved	BIA2	uc001ido.3	Q8NG06	OTTHUMG00000040203	ENST00000366481.3:c.806T>C	1.37:g.248031300T>C	ENSP00000355437:p.Ile269Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6B0H9	Missense_Mutation	SNP	ENST00000366481.3	37	CCDS1636.1	.	.	.	.	.	.	.	.	.	.	T	3.105	-0.183845	0.06340	.	.	ENSG00000162722	ENST00000366481	T	0.05996	3.36	5.12	3.98	0.46160	.	0.359505	0.23849	N	0.043970	T	0.05640	0.0148	L	0.38692	1.165	0.22401	N	0.999132	B	0.14438	0.01	B	0.12156	0.007	T	0.34925	-0.9809	10	0.30078	T	0.28	.	7.9931	0.30252	0.0:0.0946:0.0:0.9054	.	269	Q8NG06	TRI58_HUMAN	T	269	ENSP00000355437:I269T	ENSP00000355437:I269T	I	+	2	0	TRIM58	246097923	0.005000	0.15991	0.006000	0.13384	0.059000	0.15707	1.574000	0.36482	1.039000	0.40074	0.533000	0.62120	ATC		0.532	TRIM58-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096860.1	NM_015431		C	248031300	T	C	248031300	3	2	664	1	0	0	0	0	1	0	0	0	16543	1435	50	3	824	3	TRIM58	1	248031300	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	444085	248031300	1219321	91	41401										
OR2M3	127062	broad.mit.edu;bcgsc.ca	37	chr1	248366613	248366613	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcaccaccgtacccaagatgGccttcaactacctgtctggc	8	16	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:248366613G>A	ENST00000456743.1	+	1	282	c.244G>A	c.(244-246)Gcc>Acc	p.A82T		NM_001004689.1	NP_001004689.1	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M, member 3	82						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(6)|large_intestine(4)|lung(33)|ovary(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	50	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)			ACCCAAGATGGCCTTCAACTA	0.512																																																0													270	262	265					1																	248366613		2203	4297	6500	SO:0001583	missense	127062				CCDS31107.1	1q44	2012-08-09		2004-03-10	ENSG00000228198	ENSG00000228198		"GPCR / Class A : Olfactory receptors"	8269	protein-coding gene	gene with protein product				OR2M6, OR2M3P			Standard	NM_001004689		Approved	OST003	uc010pzg.2	Q8NG83	OTTHUMG00000040459	ENST00000456743.1:c.244G>A	1.37:g.248366613G>A	ENSP00000389625:p.Ala82Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B9EH06|Q6IEY0	Missense_Mutation	SNP	ENST00000456743.1	37	CCDS31107.1	.	.	.	.	.	.	.	.	.	.	G	10.21	1.287757	0.23478	.	.	ENSG00000228198	ENST00000456743	T	0.00325	8.1	2.44	-1.56	0.08532	GPCR, rhodopsin-like superfamily (1);	0.000000	0.31976	U	0.006763	T	0.00178	0.0005	M	0.64170	1.965	0.09310	N	1	B	0.19706	0.038	B	0.27715	0.082	T	0.50083	-0.8869	10	0.34782	T	0.22	.	0.0794	0.00030	0.296:0.166:0.2028:0.3352	.	82	Q8NG83	OR2M3_HUMAN	T	82	ENSP00000389625:A82T	ENSP00000389625:A82T	A	+	1	0	OR2M3	246433236	0.000000	0.05858	0.001000	0.08648	0.251000	0.25915	-2.471000	0.00990	-0.058000	0.13177	-0.491000	0.04670	GCC		0.512	OR2M3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097355.1	NM_001004689		A	248366613	G	A	248366613	3	1	664	1	0	0	0	0	1	0	0	0	11018	1203	42	2	246	2	OR2M3	1	248366613	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	335313	248366613	884008	92	41402										
PGBD2	267002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	249211775	249211775	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggatctaggaggcagtatggTaataaaatttgtggatgcgc	14	4	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr1:249211775T>C	ENST00000329291.5	+	3	1139	c.992T>C	c.(991-993)gTa>gCa	p.V331A	PGBD2_ENST00000539153.1_Missense_Mutation_p.V328A|PGBD2_ENST00000355360.4_Missense_Mutation_p.V80A	NM_170725.2	NP_733843.1	Q6P3X8	PGBD2_HUMAN	piggyBac transposable element derived 2	331										NS(1)|endometrium(3)|lung(6)|ovary(1)|skin(3)	14	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.012)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			GGCAGTATGGTAATAAAATTT	0.458																																																0													126	129	128					1																	249211775		2203	4300	6503	SO:0001583	missense	267002			AF229602	CCDS31128.1, CCDS31129.1	1q	2008-02-05			ENSG00000185220	ENSG00000185220			19399	protein-coding gene	gene with protein product							Standard	XM_005270333		Approved		uc001ifh.3	Q6P3X8	OTTHUMG00000040424	ENST00000329291.5:c.992T>C	1.37:g.249211775T>C	ENSP00000331643:p.Val331Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVR8|Q6MZF8	Missense_Mutation	SNP	ENST00000329291.5	37	CCDS31128.1	.	.	.	.	.	.	.	.	.	.	T	15.47	2.842924	0.51057	.	.	ENSG00000185220	ENST00000355360;ENST00000329291;ENST00000539153	T;T;T	0.25085	1.82;1.82;1.82	3.91	3.91	0.45181	.	0.126959	0.32578	N	0.005910	T	0.48840	0.1522	M	0.80616	2.505	0.29977	N	0.818056	D;D	0.89917	1.0;0.999	D;D	0.87578	0.998;0.994	T	0.49943	-0.8885	10	0.49607	T	0.09	-17.4516	9.3396	0.38071	0.0:0.0:0.0:1.0	.	328;331	F5H4U7;Q6P3X8	.;PGBD2_HUMAN	A	80;331;328	ENSP00000355424:V80A;ENSP00000331643:V331A;ENSP00000439950:V328A	ENSP00000331643:V331A	V	+	2	0	PGBD2	247178398	1.000000	0.71417	0.630000	0.29268	0.660000	0.38997	3.412000	0.52679	1.765000	0.52091	0.460000	0.39030	GTA		0.458	PGBD2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000097318.1			C	249211775	T	C	249211775	3	2	664	1	0	0	0	0	1	0	0	0	11788	1638	57	3	998	3	PGBD2	1	249211775	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	845162	249211775	38846	93	41403										
MYT1L	23040	hgsc.bcm.edu;mdanderson.org	37	chr2	1896005	1896005	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggttgctgctgctgctgggcGcgtagctgctggtgctgctg	18	10	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:1896005G>A	ENST00000399161.2	-	15	2834	c.2087C>T	c.(2086-2088)gCg>gTg	p.A696V	MYT1L_ENST00000428368.2_Missense_Mutation_p.A694V	NM_015025.2	NP_055840.2	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	696	Ser-rich.				cell differentiation (GO:0030154)|nervous system development (GO:0007399)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(6)|large_intestine(16)|lung(50)|ovary(5)|prostate(2)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(2)	97	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)		gctgctgggcgcgtagctgct	0.692																																																0													9	17	14					2																	1896005		1695	3114	4809	SO:0001583	missense	23040			AF036943	CCDS46222.1	2p25.3	2013-01-10			ENSG00000186487	ENSG00000186487		"Zinc fingers, C2HC-type containing"	7623	protein-coding gene	gene with protein product	"neural zinc finger transcription factor 1"	613084				9373037	Standard	XM_006711862		Approved	KIAA1106, NZF1, ZC2HC4B	uc002qxd.3	Q9UL68	OTTHUMG00000151407	ENST00000399161.2:c.2087C>T	2.37:g.1896005G>A	ENSP00000382114:p.Ala696Val	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2C7|B2RP54|Q6IQ17|Q9UPP6	Missense_Mutation	SNP	ENST00000399161.2	37		.	.	.	.	.	.	.	.	.	.	G	17.50	3.403971	0.62288	.	.	ENSG00000186487	ENST00000399161;ENST00000295067;ENST00000428368	T;T	0.36878	1.23;1.23	4.93	4.93	0.64822	Myelin transcription factor 1 (1);	0.769532	0.12417	N	0.470758	T	0.38585	0.1046	M	0.62723	1.935	0.58432	D	0.999998	B;B	0.29115	0.233;0.098	B;B	0.15484	0.013;0.008	T	0.23619	-1.0183	10	0.32370	T	0.25	-8.1458	18.1375	0.89624	0.0:0.0:1.0:0.0	.	696;694	Q9UL68;Q9UL68-4	MYT1L_HUMAN;.	V	696;642;694	ENSP00000382114:A696V;ENSP00000396103:A694V	ENSP00000295067:A642V	A	-	2	0	MYT1L	1875012	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	7.236000	0.78154	2.298000	0.77334	0.467000	0.42956	GCG		0.692	MYT1L-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000322493.1	NM_015025		A	1896005	G	A	1896005	3	1	664	1	0	0	0	0	1	0	0	0	10114	1087	38	1	1517	1	MYT1L	2	1896005	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10		1896005	241303368	94	41404										
NT5C1B	93034	ucsc.edu;mdanderson.org	37	chr2	18745215	18745215	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccagcaaggaaaagagcttcGtctatctctagaccccagcg	9	13	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:18745215G>A	ENST00000359846.2	-	10	1757	c.1680C>T	c.(1678-1680)gaC>gaT	p.D560D	NT5C1B_ENST00000600945.1_Silent_p.D560D|NT5C1B_ENST00000304081.4_Silent_p.D500D|NT5C1B-RDH14_ENST00000532967.1_Silent_p.D560D	NM_001002006.2|NM_001199086.1|NM_001199087.1|NM_001199088.1	NP_001002006.1|NP_001186015.1|NP_001186016.1|NP_001186017.1	Q96P26	5NT1B_HUMAN	5'-nucleotidase, cytosolic IB	560					nucleobase-containing small molecule metabolic process (GO:0055086)|purine nucleobase metabolic process (GO:0006144)|purine nucleotide catabolic process (GO:0006195)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|nucleus (GO:0005634)	5'-nucleotidase activity (GO:0008253)|magnesium ion binding (GO:0000287)|nucleotide binding (GO:0000166)			endometrium(2)|kidney(2)|large_intestine(10)|lung(8)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|urinary_tract(1)	29	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				AAAGAGCTTCGTCTATCTCTA	0.537																																																0													83	83	83					2																	18745215		2203	4300	6503	SO:0001819	synonymous_variant	93034			AF356185	CCDS33149.1, CCDS33150.1	2p24.2	2010-08-13			ENSG00000185013	ENSG00000185013	3.1.3.5		17818	protein-coding gene	gene with protein product		610526				11690631	Standard	NM_033253		Approved	AIRP, CN-IB		Q96P26	OTTHUMG00000151765	ENST00000359846.2:c.1680C>T	2.37:g.18745215G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B5MCR0|B7ZVX7|Q53RX2|Q8N9W3|Q8NA26|Q96DU5|Q96KE6|Q96M25|Q96SA3	Silent	SNP	ENST00000359846.2	37	CCDS33150.1	.	.	.	.	.	.	.	.	.	.	G	10.18	1.278623	0.23307	.	.	ENSG00000185013	ENST00000418427	.	.	.	6.16	-2.76	0.05896	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-32.4387	13.609	0.62065	0.6484:0.0:0.3516:0.0	.	.	.	.	X	215	.	.	R	-	1	2	NT5C1B	18608696	0.853000	0.29707	0.986000	0.45419	0.998000	0.95712	-0.017000	0.12590	-0.319000	0.08652	0.650000	0.86243	CGA		0.537	NT5C1B-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000323822.1			A	18745215	G	A	18745215	2	1	664	1	0	0	0	0	0	0	0	1	10693	1136	40	1		1	NT5C1B	2	18745215	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	16849210	18745215	224454158	95	41405										
GDF7	151449	broad.mit.edu	37	chr2	20871061	20871061	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctccatggcaccagacgcggCgccggcctcctgctgtgtgc	13	17	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:20871061C>T	ENST00000272224.3	+	2	1805	c.1229C>T	c.(1228-1230)gCg>gTg	p.A410V		NM_182828.2	NP_878248.2	Q7Z4P5	GDF7_HUMAN	growth differentiation factor 7	410					activin receptor signaling pathway (GO:0032924)|axon guidance (GO:0007411)|BMP signaling pathway (GO:0030509)|branching morphogenesis of an epithelial tube (GO:0048754)|cell fate commitment (GO:0045165)|epithelial cell differentiation (GO:0030855)|forebrain morphogenesis (GO:0048853)|gland morphogenesis (GO:0022612)|growth (GO:0040007)|midbrain development (GO:0030901)|morphogenesis of an epithelial fold (GO:0060571)|pathway-restricted SMAD protein phosphorylation (GO:0060389)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of pathway-restricted SMAD protein phosphorylation (GO:0010862)|positive regulation of tendon cell differentiation (GO:2001051)|positive regulation of transcription, DNA-templated (GO:0045893)|reproductive structure development (GO:0048608)|roof plate formation (GO:0021509)|spinal cord association neuron differentiation (GO:0021527)	extracellular space (GO:0005615)				breast(1)|cervix(1)|endometrium(2)|lung(1)|prostate(1)|skin(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCAGACGCGGCGCCGGCCTCC	0.612																																																0													65	58	60					2																	20871061		2203	4300	6503	SO:0001583	missense	151449			AF522369	CCDS1701.1	2p24.1	2008-05-22			ENSG00000143869	ENSG00000143869			4222	protein-coding gene	gene with protein product		604651				10022976, 9808626	Standard	NM_182828		Approved	BMP12	uc002rdz.1	Q7Z4P5	OTTHUMG00000090781	ENST00000272224.3:c.1229C>T	2.37:g.20871061C>T	ENSP00000272224:p.Ala410Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000272224.3	37	CCDS1701.1	.	.	.	.	.	.	.	.	.	.	C	27.4	4.827491	0.90955	.	.	ENSG00000143869	ENST00000272224	T	0.61742	0.08	4.05	4.05	0.47172	Transforming growth factor-beta, C-terminal (3);	0.105770	0.39341	U	0.001385	T	0.26810	0.0656	N	0.00424	-1.51	0.37148	D	0.902031	P	0.51147	0.942	B	0.41691	0.364	T	0.57323	-0.7831	10	0.51188	T	0.08	.	16.7259	0.85421	0.0:1.0:0.0:0.0	.	410	Q7Z4P5	GDF7_HUMAN	V	410	ENSP00000272224:A410V	ENSP00000272224:A410V	A	+	2	0	GDF7	20734542	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	4.781000	0.62389	2.187000	0.69744	0.561000	0.74099	GCG		0.612	GDF7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207563.2	NM_182828		T	20871061	C	T	20871061	3	4	664	1	0	0	0	0	1	0	0	0	6325	768	27	1	1235	1	GDF7	2	20871061	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2125846	20871061	222328312	96	41406										
DTNB	1838	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr2	25799755	25799755	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggttgctgtgagggccgccGgcatggccacgccaaaagca	15	12	0	1	rs373794202		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:25799755G>A	ENST00000406818.3	-	8	1077	c.828C>T	c.(826-828)gcC>gcT	p.A276A	DTNB_ENST00000407661.3_Silent_p.A276A|DTNB_ENST00000496972.2_Silent_p.A219A|DTNB_ENST00000405222.1_Silent_p.A276A|DTNB_ENST00000404103.3_Silent_p.A276A|DTNB_ENST00000545439.1_Silent_p.A72A|DTNB_ENST00000407186.1_Silent_p.A276A|DTNB_ENST00000407038.3_Silent_p.A276A|DTNB_ENST00000472690.1_5'UTR|DTNB_ENST00000288642.8_Silent_p.A276A	NM_001256303.1|NM_021907.4	NP_001243232.1|NP_068707.1	O60941	DTNB_HUMAN	dystrobrevin, beta	276						cytoplasm (GO:0005737)|synapse (GO:0045202)	calcium ion binding (GO:0005509)|zinc ion binding (GO:0008270)			endometrium(1)|large_intestine(3)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAGGGCCGCCGGCATGGCCAC	0.527																																																0								G	,,,,	0,4258		0,0,2129	46	51	49		828,828,828,828,828	4.9	1	2		49	2,8522		0,2,4260	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	DTNB	NM_021907.3,NM_033147.2,NM_033148.2,NM_183360.1,NM_183361.1	,,,,	0,2,6389	AA,AG,GG		0.0235,0.0,0.0156	,,,,	276/628,276/598,276/568,276/610,276/561	25799755	2,12780	2129	4262	6391	SO:0001819	synonymous_variant	1838			AF022728	CCDS46233.1, CCDS46234.1, CCDS46235.1, CCDS46236.1, CCDS46237.1, CCDS58702.1, CCDS74496.1	2p23.2	2008-05-15			ENSG00000138101	ENSG00000138101			3058	protein-coding gene	gene with protein product		602415				9419360	Standard	NM_021907		Approved		uc002rgh.4	O60941	OTTHUMG00000152129	ENST00000406818.3:c.828C>T	2.37:g.25799755G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z733|F5GZG4|G5E9F6|O43782|O60881|O75538|Q86VR4|Q96AW0|Q9UE14|Q9UE15|Q9UE16	Silent	SNP	ENST00000406818.3	37	CCDS46237.1																																																																																				0.527	DTNB-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000325361.1	NM_033147		A	25799755	G	A	25799755	2	1	664	1	0	0	0	0	0	0	0	1	4791	1103	39	1		1	DTNB	2	25799755	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4928694	25799755	217399618	97	41407										
C2orf16	84226	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr2	27802448	27802448	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ataaagaagacaaactcaacGttcaatggtatatcccaaga	6	8	2	3	rs370553692		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:27802448G>A	ENST00000408964.2	+	1	3060	c.3009G>A	c.(3007-3009)acG>acA	p.T1003T	AC074091.1_ENST00000408604.1_RNA	NM_032266.3	NP_115642.3	Q68DN1	CB016_HUMAN	chromosome 2 open reading frame 16	1003						extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)				breast(1)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(33)|urinary_tract(1)	47	Acute lymphoblastic leukemia(172;0.155)					CAAACTCAACGTTCAATGGTA	0.443													G|||	1	0.000199681	0.0	0.0	5008	,	,		20637	0.001		0.0	False		,,,				2504	0.0															0								G		0,4088		0,0,2044	102	100	101		3009	2.1	0	2		101	1,8401		0,1,4200	no	coding-synonymous	C2orf16	NM_032266.3		0,1,6244	AA,AG,GG		0.0119,0.0,0.0080		1003/1985	27802448	1,12489	2044	4201	6245	SO:0001819	synonymous_variant	84226			AL136898	CCDS42666.1	2p23.3	2013-09-20			ENSG00000221843	ENSG00000221843			25275	protein-coding gene	gene with protein product	"P-S-E-R-S-H-H-S repeats containing"						Standard	NM_032266		Approved	DKFZp434G118	uc002rkz.4	Q68DN1	OTTHUMG00000159099	ENST00000408964.2:c.3009G>A	2.37:g.27802448G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B9EIQ4|Q53S01|Q8ND64|Q9H088	Silent	SNP	ENST00000408964.2	37	CCDS42666.1																																																																																				0.443	C2orf16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353292.1	NM_032266		A	27802448	G	A	27802448	2	1	664	1	0	0	0	0	0	0	0	1	2159	1132	40	1		1	C2orf16	2	27802448	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2002693	27802448	215396925	98	41408										
EHD3	30845	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	31484520	31484520	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acctggccgagatctatggcCggatcgagcgggagcaccag	15	12	1	1	rs370790409		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:31484520C>T	ENST00000322054.5	+	5	1306	c.1021C>T	c.(1021-1023)Cgg>Tgg	p.R341W	EHD3_ENST00000541626.1_Intron	NM_014600.2	NP_055415.1	Q9NZN3	EHD3_HUMAN	EH-domain containing 3	341					blood coagulation (GO:0007596)|endocytic recycling (GO:0032456)|protein homooligomerization (GO:0051260)|protein targeting to plasma membrane (GO:0072661)|regulation of cardiac muscle cell membrane potential (GO:0086036)	cytoplasm (GO:0005737)|endocytic vesicle (GO:0030139)|endosome membrane (GO:0010008)|focal adhesion (GO:0005925)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|recycling endosome membrane (GO:0055038)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|nucleic acid binding (GO:0003676)			NS(1)|breast(2)|endometrium(2)|kidney(1)|large_intestine(11)|lung(12)|ovary(1)|skin(3)	33	Acute lymphoblastic leukemia(172;0.155)					GATCTATGGCCGGATCGAGCG	0.572																																																0								C	TRP/ARG	0,4406		0,0,2203	129	123	125		1021	4.1	0.7	2		125	1,8599	1.2+/-3.3	0,1,4299	no	missense	EHD3	NM_014600.2	101	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	341/536	31484520	1,13005	2203	4300	6503	SO:0001583	missense	30845			AF181264	CCDS1774.1	2p21	2013-01-10			ENSG00000013016	ENSG00000013016		"EF-hand domain containing"	3244	protein-coding gene	gene with protein product		605891		PAST3		10673336	Standard	NM_014600		Approved		uc002rnu.3	Q9NZN3	OTTHUMG00000099365	ENST00000322054.5:c.1021C>T	2.37:g.31484520C>T	ENSP00000327116:p.Arg341Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFR5|D6W574|Q8N514|Q9NZB3	Missense_Mutation	SNP	ENST00000322054.5	37	CCDS1774.1	.	.	.	.	.	.	.	.	.	.	C	17.63	3.437362	0.62955	0.0	1.16E-4	ENSG00000013016	ENST00000322054	T	0.18174	2.23	6.04	4.08	0.47627	.	0.093728	0.64402	D	0.000001	T	0.24314	0.0589	M	0.65498	2.005	0.80722	D	1	D	0.57899	0.981	P	0.44860	0.462	T	0.06826	-1.0805	10	0.87932	D	0	-22.374	15.4034	0.74858	0.2293:0.7707:0.0:0.0	.	341	Q9NZN3	EHD3_HUMAN	W	341	ENSP00000327116:R341W	ENSP00000327116:R341W	R	+	1	2	EHD3	31338024	1.000000	0.71417	0.730000	0.30809	0.107000	0.19398	3.007000	0.49536	2.873000	0.98535	0.561000	0.74099	CGG		0.572	EHD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216810.1	NM_014600		T	31484520	C	T	31484520	3	4	664	1	0	0	0	0	1	0	0	0	4981	643	23	1	1039	1	EHD3	2	31484520	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3682072	31484520	211714853	99	41409										
BIRC6	57448	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	32713733	32713733	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acaaagaaaatggagcagacAtatttttatataatgctaat	6	4	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:32713733A>G	ENST00000421745.2	+	42	8181	c.8047A>G	c.(8047-8049)Ata>Gta	p.I2683V		NM_016252.3	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat containing 6	2683					apoptotic process (GO:0006915)|labyrinthine layer development (GO:0060711)|mitotic nuclear division (GO:0007067)|negative regulation of apoptotic process (GO:0043066)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|positive regulation of cell proliferation (GO:0008284)|protein phosphorylation (GO:0006468)|protein ubiquitination (GO:0016567)|regulation of cell proliferation (GO:0042127)|regulation of cytokinesis (GO:0032465)|spongiotrophoblast layer development (GO:0060712)	endosome (GO:0005768)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)|midbody (GO:0030496)|spindle pole (GO:0000922)|trans-Golgi network (GO:0005802)	acid-amino acid ligase activity (GO:0016881)|cysteine-type endopeptidase inhibitor activity (GO:0004869)|ubiquitin-protein transferase activity (GO:0004842)			NS(4)|breast(8)|central_nervous_system(3)|endometrium(21)|haematopoietic_and_lymphoid_tissue(1)|kidney(15)|large_intestine(31)|lung(65)|ovary(7)|pancreas(1)|prostate(5)|skin(5)|stomach(1)|urinary_tract(5)	172	Acute lymphoblastic leukemia(172;0.155)					TGGAGCAGACATATTTTTATA	0.318																																					Pancreas(94;175 1509 16028 18060 45422)											0													19	18	18					2																	32713733		2126	4166	6292	SO:0001583	missense	57448			AF265555	CCDS33175.2	2p22.3	2011-01-25	2011-01-25		ENSG00000115760	ENSG00000115760		"Baculoviral IAP repeat containing", "Ubiquitin-conjugating enzymes E2"	13516	protein-coding gene	gene with protein product	"apollon"	605638	"baculoviral IAP repeat-containing 6"			10544019	Standard	NM_016252		Approved	BRUCE	uc010ezu.3	Q9NR09	OTTHUMG00000150528	ENST00000421745.2:c.8047A>G	2.37:g.32713733A>G	ENSP00000393596:p.Ile2683Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9ULD1	Missense_Mutation	SNP	ENST00000421745.2	37	CCDS33175.2	.	.	.	.	.	.	.	.	.	.	A	15.17	2.753814	0.49362	.	.	ENSG00000115760	ENST00000421745	T	0.74421	-0.84	5.67	5.67	0.87782	.	0.067092	0.64402	D	0.000012	T	0.57740	0.2074	N	0.19112	0.55	0.48087	D	0.999583	B	0.13594	0.008	B	0.17098	0.017	T	0.53718	-0.8399	10	0.13108	T	0.6	.	11.5764	0.50864	0.8509:0.149:0.0:0.0	.	2683	Q9NR09	BIRC6_HUMAN	V	2683	ENSP00000393596:I2683V	ENSP00000393596:I2683V	I	+	1	0	BIRC6	32567237	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	4.015000	0.57152	2.170000	0.68504	0.533000	0.62120	ATA		0.318	BIRC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318769.3	NM_016252		G	32713733	A	G	32713733	3	3	664	1	0	0	0	0	1	0	0	0	1438	217	8	3	8213	3	BIRC6	2	32713733	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	1229213	32713733	210485640	100	41410										
CRIM1	51232	broad.mit.edu	37	chr2	36691711	36691711	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctggcttatgtggtttccccGtgtgtgaggtgggatccact	14	9	0	1	rs373577546		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:36691711G>A	ENST00000280527.2	+	5	1271	c.904G>A	c.(904-906)Gtg>Atg	p.V302M		NM_016441.2	NP_057525.1	Q9NZV1	CRIM1_HUMAN	cysteine rich transmembrane BMP regulator 1 (chordin-like)	302					insulin-like growth factor receptor signaling pathway (GO:0048009)|nervous system development (GO:0007399)|regulation of cell growth (GO:0001558)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	insulin-like growth factor-activated receptor activity (GO:0005010)|PDZ domain binding (GO:0030165)|serine-type endopeptidase inhibitor activity (GO:0004867)			autonomic_ganglia(1)|breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(15)|liver(2)|lung(11)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	45		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				TGGTTTCCCCGTGTGTGAGGT	0.493																																																0								G	MET/VAL	0,4406		0,0,2203	261	236	244		904	2.8	1	2		244	1,8599	1.2+/-3.3	0,1,4299	no	missense	CRIM1	NM_016441.2	21	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	benign	302/1037	36691711	1,13005	2203	4300	6503	SO:0001583	missense	51232			AF168681	CCDS1783.1	2p21	2010-06-29	2005-07-25		ENSG00000150938	ENSG00000150938			2359	protein-coding gene	gene with protein product		606189	"cysteine-rich motor neuron 1"	S52		10642437	Standard	NM_016441		Approved		uc002rpd.3	Q9NZV1	OTTHUMG00000099419	ENST00000280527.2:c.904G>A	2.37:g.36691711G>A	ENSP00000280527:p.Val302Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M2G4|Q59GH0|Q7LCQ5|Q9H318	Missense_Mutation	SNP	ENST00000280527.2	37	CCDS1783.1	.	.	.	.	.	.	.	.	.	.	G	12.75	2.030171	0.35797	0.0	1.16E-4	ENSG00000150938	ENST00000280527;ENST00000426856	T	0.04360	3.64	5.94	2.83	0.33086	.	0.346611	0.29172	N	0.012927	T	0.03305	0.0096	N	0.19112	0.55	0.29209	N	0.874718	B	0.13594	0.008	B	0.09377	0.004	T	0.24799	-1.0150	10	0.44086	T	0.13	-3.1507	7.1527	0.25620	0.3699:0.0:0.6301:0.0	.	302	Q9NZV1	CRIM1_HUMAN	M	302;194	ENSP00000280527:V302M	ENSP00000280527:V302M	V	+	1	0	CRIM1	36545215	0.996000	0.38824	1.000000	0.80357	0.999000	0.98932	0.549000	0.23329	0.861000	0.35504	0.650000	0.86243	GTG		0.493	CRIM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216878.2	NM_016441		A	36691711	G	A	36691711	3	1	664	1	0	0	0	0	1	0	0	0	3875	1145	40	1	922	1	CRIM1	2	36691711	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3977978	36691711	206507662	101	41411										
KCNG3	170850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr2	42720408	42720408	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagcgcagcttgccgtggccGcgcacgtagagcaggatgaa	15	11	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:42720408G>A	ENST00000306078.1	-	1	829	c.234C>T	c.(232-234)cgC>cgT	p.R78R	MTA3_ENST00000405592.1_5'Flank|KCNG3_ENST00000394973.4_Silent_p.R78R	NM_133329.5|NM_172344.2	NP_579875.1|NP_758847.1	Q8TAE7	KCNG3_HUMAN	potassium voltage-gated channel, subfamily G, member 3	78					protein homooligomerization (GO:0051260)|synaptic transmission (GO:0007268)	endoplasmic reticulum (GO:0005783)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)			central_nervous_system(1)|large_intestine(1)|lung(2)|upper_aerodigestive_tract(2)	6						TGCCGTGGCCGCGCACGTAGA	0.647																																																0													30	29	30					2																	42720408		2198	4300	6498	SO:0001819	synonymous_variant	170850			AB070604	CCDS1809.1, CCDS42674.1	2p21	2011-07-05			ENSG00000171126	ENSG00000171126		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	18306	protein-coding gene	gene with protein product		606767				11852086, 16382104	Standard	NM_133329		Approved	Kv6.3	uc002rsn.3	Q8TAE7	OTTHUMG00000128604	ENST00000306078.1:c.234C>T	2.37:g.42720408G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q53SC1	Silent	SNP	ENST00000306078.1	37	CCDS1809.1																																																																																				0.647	KCNG3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000250464.2	NM_172344		A	42720408	G	A	42720408	2	1	664	1	0	0	0	0	0	0	0	1	8036	1074	38	1		1	KCNG3	2	42720408	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6028697	42720408	200478965	102	41412										
OXER1	165140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	42990143	42990143	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctagaggcctcccggtagcGccactgcctggagggttggt	15	13	0	1	rs374132247		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:42990143G>A	ENST00000378661.2	-	1	1258	c.1177C>T	c.(1177-1179)Cgc>Tgc	p.R393C		NM_148962.4	NP_683765.1	Q8TDS5	OXER1_HUMAN	oxoeicosanoid (OXE) receptor 1	393					G-protein coupled receptor signaling pathway (GO:0007186)|regulation of cAMP biosynthetic process (GO:0030817)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	5(S)-hydroxyperoxy-6E,8Z,11Z,14Z-icosatetraenoic acid binding (GO:0050648)|5-hydroxy-6E,8Z,11Z,14Z-icosatetraenoic acid binding (GO:0050647)|5-oxo-6E,8Z,11Z,14Z-icosatetraenoic acid binding (GO:0050646)|G-protein coupled receptor activity (GO:0004930)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(2)|prostate(1)	10						TCCCGGTAGCGCCACTGCCTG	0.677													.|||	1	0.000199681	0.0	0.0	5008	,	,		18890	0.0		0.0	False		,,,				2504	0.001															0								G	CYS/ARG	0,4406		0,0,2203	44	47	46		1177	-0.1	0	2		46	2,8598	2.2+/-6.3	0,2,4298	no	missense	OXER1	NM_148962.4	180	0,2,6501	AA,AG,GG		0.0233,0.0,0.0154	probably-damaging	393/424	42990143	2,13004	2203	4300	6503	SO:0001583	missense	165140			AB083055	CCDS1810.1	2p22.1	2012-08-10			ENSG00000162881	ENSG00000162881		"GPCR / Class A : Leukotriene receptors"	24884	protein-coding gene	gene with protein product	"5-oxo-ETE acid G-protein-coupled receptor 1"					12065583, 15001665	Standard	NM_148962		Approved	GPCR, TG1019, GPR170	uc002rss.3	Q8TDS5	OTTHUMG00000128643	ENST00000378661.2:c.1177C>T	2.37:g.42990143G>A	ENSP00000367930:p.Arg393Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q86WP7|Q8NGW4	Missense_Mutation	SNP	ENST00000378661.2	37	CCDS1810.1	.	.	.	.	.	.	.	.	.	.	G	7.917	0.737792	0.15574	0.0	2.33E-4	ENSG00000162881	ENST00000378661	T	0.61510	0.1	1.59	-0.094	0.13646	.	2.639090	0.02716	U	0.113495	T	0.46678	0.1405	N	0.08118	0	0.09310	N	1	D	0.71674	0.998	P	0.53185	0.72	T	0.36962	-0.9726	10	0.59425	D	0.04	.	3.4552	0.07512	0.5217:0.0:0.4783:0.0	.	393	Q8TDS5	OXER1_HUMAN	C	393	ENSP00000367930:R393C	ENSP00000367930:R393C	R	-	1	0	OXER1	42843647	0.000000	0.05858	0.014000	0.15608	0.035000	0.12851	-0.284000	0.08422	-0.044000	0.13491	0.655000	0.94253	CGC		0.677	OXER1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250514.1	NM_148962		A	42990143	G	A	42990143	3	1	664	1	0	0	0	0	1	0	0	0	11338	1087	38	1	98	1	OXER1	2	42990143	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	269735	42990143	200209230	103	41413										
OXER1	165140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	42990181	42990181	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggtaggagctctcgtcgctcActgggccctgccggccccgc	14	17	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:42990181A>G	ENST00000378661.2	-	1	1220	c.1139T>C	c.(1138-1140)gTg>gCg	p.V380A		NM_148962.4	NP_683765.1	Q8TDS5	OXER1_HUMAN	oxoeicosanoid (OXE) receptor 1	380					G-protein coupled receptor signaling pathway (GO:0007186)|regulation of cAMP biosynthetic process (GO:0030817)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	5(S)-hydroxyperoxy-6E,8Z,11Z,14Z-icosatetraenoic acid binding (GO:0050648)|5-hydroxy-6E,8Z,11Z,14Z-icosatetraenoic acid binding (GO:0050647)|5-oxo-6E,8Z,11Z,14Z-icosatetraenoic acid binding (GO:0050646)|G-protein coupled receptor activity (GO:0004930)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(2)|prostate(1)	10						CTCGTCGCTCACTGGGCCCTG	0.662																																																0													40	45	44					2																	42990181		2203	4300	6503	SO:0001583	missense	165140			AB083055	CCDS1810.1	2p22.1	2012-08-10			ENSG00000162881	ENSG00000162881		"GPCR / Class A : Leukotriene receptors"	24884	protein-coding gene	gene with protein product	"5-oxo-ETE acid G-protein-coupled receptor 1"					12065583, 15001665	Standard	NM_148962		Approved	GPCR, TG1019, GPR170	uc002rss.3	Q8TDS5	OTTHUMG00000128643	ENST00000378661.2:c.1139T>C	2.37:g.42990181A>G	ENSP00000367930:p.Val380Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q86WP7|Q8NGW4	Missense_Mutation	SNP	ENST00000378661.2	37	CCDS1810.1	.	.	.	.	.	.	.	.	.	.	A	0.200	-1.045308	0.01997	.	.	ENSG00000162881	ENST00000378661	T	0.37752	1.18	3.79	-4.65	0.03339	.	3.447910	0.02281	U	0.069387	T	0.13072	0.0317	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.16129	-1.0413	10	0.06236	T	0.91	.	0.7743	0.01029	0.3082:0.1227:0.3231:0.246	.	380	Q8TDS5	OXER1_HUMAN	A	380	ENSP00000367930:V380A	ENSP00000367930:V380A	V	-	2	0	OXER1	42843685	0.000000	0.05858	0.000000	0.03702	0.004000	0.04260	-0.262000	0.08682	-0.626000	0.05596	-0.250000	0.11733	GTG		0.662	OXER1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250514.1	NM_148962		G	42990181	A	G	42990181	3	3	664	1	0	0	0	0	1	0	0	0	11338	159	6	3	136	3	OXER1	2	42990181	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	38	42990181	200209192	104	41414										
PPM1B	5495	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	44428691	44428691	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaaaattgatgaatacatgcGtaacttttcagacctcagaa	7	7	2	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:44428691G>A	ENST00000282412.4	+	2	765	c.353G>A	c.(352-354)cGt>cAt	p.R118H	PPM1B_ENST00000409895.4_Missense_Mutation_p.R118H|PPM1B_ENST00000378551.2_Missense_Mutation_p.R118H|PPM1B_ENST00000378540.4_3'UTR|PPM1B_ENST00000345249.4_Intron|PPM1B_ENST00000409432.3_Missense_Mutation_p.R118H	NM_002706.4	NP_002697.1	O75688	PPM1B_HUMAN	protein phosphatase, Mg2+/Mn2+ dependent, 1B	118					cytokine-mediated signaling pathway (GO:0019221)|N-terminal protein myristoylation (GO:0006499)|negative regulation of defense response to virus (GO:0050687)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of interferon-beta production (GO:0032688)|negative regulation of NF-kappaB import into nucleus (GO:0042347)|peptidyl-threonine dephosphorylation (GO:0035970)|protein dephosphorylation (GO:0006470)	cytosol (GO:0005829)|membrane (GO:0016020)	magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|protein serine/threonine phosphatase activity (GO:0004722)			kidney(4)|large_intestine(3)|lung(7)|skin(2)	16		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GAATACATGCGTAACTTTTCA	0.398																																																0													121	121	121					2																	44428691		2203	4300	6503	SO:0001583	missense	5495			AJ005801	CCDS1816.1, CCDS1817.1, CCDS1818.1, CCDS46271.1	2p22.1	2012-04-17	2010-03-05		ENSG00000138032	ENSG00000138032	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatases, Mg2+/Mn2+ dependent"	9276	protein-coding gene	gene with protein product	"protein phosphatase 2C, beta isoform"	603770	"protein phosphatase 1B (formerly 2C), magnesium-dependent, beta isoform"			9684878	Standard	NM_002706		Approved	PPC2BETAX, PP2CB, PP2CBETA	uc002rtt.3	O75688	OTTHUMG00000128757	ENST00000282412.4:c.353G>A	2.37:g.44428691G>A	ENSP00000282412:p.Arg118His	Somatic		WXS	Illumina HiSeq	Phase_I	Q461Q2|Q4J6C1|Q4J6C2|Q658R4|Q96ER6|Q9HAY8	Missense_Mutation	SNP	ENST00000282412.4	37	CCDS1817.1	.	.	.	.	.	.	.	.	.	.	G	19.31	3.802576	0.70682	.	.	ENSG00000138032	ENST00000419807;ENST00000409895;ENST00000409432;ENST00000282412;ENST00000378551;ENST00000409473	T;T;T;T;T;T	0.18657	2.2;2.2;2.2;2.2;2.2;2.2	5.71	5.71	0.89125	Protein phosphatase 2C-like (5);	0.000000	0.85682	D	0.000000	T	0.50769	0.1635	M	0.83774	2.66	0.80722	D	1	P;P;D;P;B	0.89917	0.725;0.455;1.0;0.535;0.336	B;B;D;B;B	0.68192	0.162;0.043;0.956;0.179;0.298	T	0.43507	-0.9387	10	0.32370	T	0.25	-15.4016	19.8632	0.96793	0.0:0.0:1.0:0.0	.	118;118;118;118;118	Q4J6C0;O75688-2;Q4J6C1;O75688;Q4J6C2	.;.;.;PPM1B_HUMAN;.	H	118	ENSP00000390087:R118H;ENSP00000387341:R118H;ENSP00000387287:R118H;ENSP00000282412:R118H;ENSP00000367813:R118H;ENSP00000386982:R118H	ENSP00000282412:R118H	R	+	2	0	PPM1B	44282195	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.869000	0.99810	2.699000	0.92147	0.655000	0.94253	CGT		0.398	PPM1B-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000250672.1	NM_002706		A	44428691	G	A	44428691	3	1	664	1	0	0	0	0	1	0	0	0	12346	1145	40	1	355	1	PPM1B	2	44428691	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1438510	44428691	198770682	105	41415										
MSH6	2956	bcgsc.ca	37	chr2	48030692	48030693	+	Frame_Shift_Ins	INS	-	-	T													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atccttgcattacgaagactINSttttttggagatgattttat					rs267608092|rs267608093|rs2020910	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:48030692_48030693insT	ENST00000234420.5	+	5	3458_3459	c.3306_3307insT	c.(3307-3309)tttfs	p.F1103fs	MSH6_ENST00000538136.1_Frame_Shift_Ins_p.F801fs|FBXO11_ENST00000405808.1_Intron|MSH6_ENST00000540021.1_Frame_Shift_Ins_p.F973fs	NM_000179.2	NP_000170.1	P52701	MSH6_HUMAN	mutS homolog 6	1103					ATP catabolic process (GO:0006200)|determination of adult lifespan (GO:0008340)|DNA repair (GO:0006281)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|isotype switching (GO:0045190)|meiotic mismatch repair (GO:0000710)|mismatch repair (GO:0006298)|negative regulation of DNA recombination (GO:0045910)|positive regulation of helicase activity (GO:0051096)|reciprocal meiotic recombination (GO:0007131)|response to UV (GO:0009411)|somatic hypermutation of immunoglobulin genes (GO:0016446)|somatic recombination of immunoglobulin gene segments (GO:0016447)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|MutSalpha complex (GO:0032301)|nuclear chromatin (GO:0000790)|nuclear chromosome (GO:0000228)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|damaged DNA binding (GO:0003684)|DNA-dependent ATPase activity (GO:0008094)|guanine/thymine mispair binding (GO:0032137)|methylated histone binding (GO:0035064)|mismatched DNA binding (GO:0030983)	p.0?(2)		breast(8)|central_nervous_system(29)|cervix(1)|endometrium(32)|haematopoietic_and_lymphoid_tissue(12)|kidney(2)|large_intestine(75)|lung(25)|ovary(3)|prostate(3)|skin(10)|stomach(22)|thyroid(1)|upper_aerodigestive_tract(1)|urinary_tract(5)	229		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			TTACGAAGACTTTTTTTGGAGA	0.45			"Mis, N, F, S"		colorectal	"colorectal, endometrial, ovarian"		Mismatch excision repair (MMR)	Turcot syndrome;Muir-Torre syndrome;Lynch syndrome;Constitutional Mismatch Repair Deficiency Syndrome																													yes	Rec	yes	Hereditary non-polyposis colorectal cancer	2	2p16	2956	mutS homolog 6 (E. coli)		E	2	Whole gene deletion(2)	haematopoietic_and_lymphoid_tissue(2)																																								SO:0001589	frameshift_variant	2956	Familial Cancer Database	Brain tumor-colorectal polyp(osis) syndrome; ;Hereditary Non-Polyposis Colorectal Cancer, HNPCC, Lynch syndromes 1 and 2 (= Cancer Family Syndrome), Hereditary Mismatch Repair Deficiency syndrome, HMRDS;Mismatch Repair Cancer syndrome, MMRCS, Childhood Cancer Syndrome, CCS, Biallelic Mismatch Repair Gene Mutations Associated Early Onset Cancer, Lynch syndrome type III	U54777	CCDS1836.1, CCDS62906.1, CCDS62907.1	2p16	2014-09-17	2013-09-12		ENSG00000116062	ENSG00000116062			7329	protein-coding gene	gene with protein product		600678	"mutS (E. coli) homolog 6", "mutS homolog 6 (E. coli)"	GTBP		7604266	Standard	NM_000179		Approved		uc002rwd.4	P52701	OTTHUMG00000129129	ENST00000234420.5:c.3312dupT	2.37:g.48030698_48030698dupT	ENSP00000234420:p.Phe1103fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DF41|B4E3I4|F5H2F9|O43706|O43917|Q8TCX4|Q9BTB5	Frame_Shift_Ins	INS	ENST00000234420.5	37	CCDS1836.1																																																																																				0.45	MSH6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251180.4	NM_000179		T	48030693	-	T	48030692	7	5	664	1	0	1	1	0	0	0	0	0	9881	1596	56	0	3324	0	MSH6	2	48030692	Frame_Shift_Ins	INS	-	TCGA-KN-8428-01A-11D-2310-10	3602001	48030692	195168681	106	41416										
SPTBN1	6711	broad.mit.edu	37	chr2	54876812	54876812	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggaacattgggcaggagcgcGtggacacggtcaatcacctg	15	10	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:54876812G>A	ENST00000356805.4	+	26	5544	c.5263G>A	c.(5263-5265)Gtg>Atg	p.V1755M	SPTBN1_ENST00000333896.5_Missense_Mutation_p.V1742M	NM_003128.2	NP_003119.2	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1	1755	Interaction with ANK2.				actin filament capping (GO:0051693)|axon guidance (GO:0007411)|Golgi to plasma membrane protein transport (GO:0043001)|membrane assembly (GO:0071709)|mitotic cytokinesis (GO:0000281)|plasma membrane organization (GO:0007009)|protein targeting to plasma membrane (GO:0072661)	axolemma (GO:0030673)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleolus (GO:0005730)|protein complex (GO:0043234)|spectrin (GO:0008091)|spectrin-associated cytoskeleton (GO:0014731)	actin binding (GO:0003779)|ankyrin binding (GO:0030506)|phospholipid binding (GO:0005543)|poly(A) RNA binding (GO:0044822)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|breast(8)|central_nervous_system(2)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(11)|lung(27)|ovary(4)|prostate(2)|skin(5)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	82			Lung(47;0.24)			GCAGGAGCGCGTGGACACGGT	0.552																																																0													66	64	65					2																	54876812		2203	4300	6503	SO:0001583	missense	6711				CCDS33198.1, CCDS33199.1	2p21	2013-01-10			ENSG00000115306	ENSG00000115306		"Pleckstrin homology (PH) domain containing"	11275	protein-coding gene	gene with protein product		182790					Standard	NM_003128		Approved		uc002rxu.3	Q01082	OTTHUMG00000133746	ENST00000356805.4:c.5263G>A	2.37:g.54876812G>A	ENSP00000349259:p.Val1755Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP63|O60837|Q16057|Q53R99|Q59ER3|Q8IX99	Missense_Mutation	SNP	ENST00000356805.4	37	CCDS33198.1	.	.	.	.	.	.	.	.	.	.	G	23.3	4.395228	0.83011	.	.	ENSG00000115306	ENST00000356805;ENST00000333896	T;T	0.58210	0.35;0.35	5.61	5.61	0.85477	.	0.000000	0.85682	D	0.000000	T	0.79353	0.4431	M	0.90309	3.105	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.932;0.998	T	0.83200	-0.0079	10	0.87932	D	0	.	19.632	0.95713	0.0:0.0:1.0:0.0	.	1742;1755	Q01082-3;Q01082	.;SPTB2_HUMAN	M	1755;1742	ENSP00000349259:V1755M;ENSP00000334156:V1742M	ENSP00000334156:V1742M	V	+	1	0	SPTBN1	54730316	1.000000	0.71417	0.965000	0.40720	0.463000	0.32649	9.747000	0.98863	2.647000	0.89833	0.555000	0.69702	GTG		0.552	SPTBN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258115.3			A	54876812	G	A	54876812	3	1	664	1	0	0	0	0	1	0	0	0	15131	1145	40	1	5474	1	SPTBN1	2	54876812	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6846120	54876812	188322561	107	41417										
RTN4	57142	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	55254295	55254295	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctaggatttgctactattaCggcagattctgcttttggag	10	8	1	1	rs144622313		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:55254295C>T	ENST00000337526.6	-	3	1183	c.940G>A	c.(940-942)Gta>Ata	p.V314I	RTN4_ENST00000405240.1_Missense_Mutation_p.V108I|RTN4_ENST00000354474.6_Missense_Mutation_p.V82I|RTN4_ENST00000317610.7_Intron|RTN4_ENST00000402434.2_Intron|RTN4_ENST00000357376.3_Missense_Mutation_p.V108I|RTN4_ENST00000394611.2_Missense_Mutation_p.V108I|RTN4_ENST00000404909.1_Missense_Mutation_p.V108I|RTN4_ENST00000357732.4_Intron	NM_020532.4	NP_065393.1	Q9NQC3	RTN4_HUMAN	reticulon 4	314					angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|axonal fasciculation (GO:0007413)|cardiac epithelial to mesenchymal transition (GO:0060317)|cerebral cortex radial glia guided migration (GO:0021801)|endoplasmic reticulum tubular network organization (GO:0071786)|negative regulation of axon extension (GO:0030517)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell growth (GO:0030308)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of apoptotic process (GO:0042981)|regulation of axonogenesis (GO:0050770)|regulation of branching morphogenesis of a nerve (GO:2000172)|regulation of cell migration (GO:0030334)	cell projection (GO:0042995)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|integral component of endoplasmic reticulum membrane (GO:0030176)|intracellular (GO:0005622)|neuronal cell body (GO:0043025)|nuclear envelope (GO:0005635)|plasma membrane (GO:0005886)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(4)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(11)|lung(9)|ovary(2)|prostate(1)|skin(1)|stomach(1)	36						GCTACTATTACGGCAGATTCT	0.333													C|||	1	0.000199681	0.0	0.0014	5008	,	,		21464	0.0		0.0	False		,,,				2504	0.0															0								C	ILE/VAL,,,ILE/VAL	4,4402	8.1+/-20.4	0,4,2199	90	88	89		940,,,322	-12	0	2	dbSNP_134	89	10,8588	7.7+/-29.5	0,10,4289	yes	missense,intron,intron,missense	RTN4	NM_020532.4,NM_153828.2,NM_207520.1,NM_207521.1	29,,,29	0,14,6488	TT,TC,CC		0.1163,0.0908,0.1077	benign,,,benign	314/1193,,,108/987	55254295	14,12990	2203	4299	6502	SO:0001583	missense	57142			AF087901	CCDS1851.1, CCDS1852.1, CCDS42683.1, CCDS42684.1, CCDS42685.1	2p14-p13	2008-05-23			ENSG00000115310	ENSG00000115310			14085	protein-coding gene	gene with protein product		604475				10667797, 10773680	Standard	NM_020532		Approved	NSP-CL, KIAA0886, NOGO, ASY	uc002rye.3	Q9NQC3	OTTHUMG00000129337	ENST00000337526.6:c.940G>A	2.37:g.55254295C>T	ENSP00000337838:p.Val314Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O94962|Q7L7Q5|Q7L7Q6|Q7L7Q8|Q8IUA4|Q96B16|Q9BXG5|Q9H212|Q9H3I3|Q9UQ42|Q9Y293|Q9Y2Y7|Q9Y5U6	Missense_Mutation	SNP	ENST00000337526.6	37	CCDS42684.1	1	4.578754578754579E-4	0	0.0	1	0.0027624309392265192	0	0.0	0	0.0	C	0.003	-2.572382	0.00133	9.08E-4	0.001163	ENSG00000115310	ENST00000405240;ENST00000357376;ENST00000337526;ENST00000394611;ENST00000404909;ENST00000354474	T;T;T;T;T;T	0.16897	2.32;2.32;2.31;2.32;2.32;2.31	6.02	-12.0	0.00017	.	1.724100	0.02202	N	0.062322	T	0.05318	0.0141	N	0.02391	-0.57	0.09310	N	1	B	0.09022	0.002	B	0.04013	0.001	T	0.43702	-0.9375	10	0.02654	T	1	2.7456	15.2947	0.73894	0.1131:0.6214:0.0:0.2655	.	314	Q9NQC3	RTN4_HUMAN	I	108;108;314;108;108;82	ENSP00000384471:V108I;ENSP00000349944:V108I;ENSP00000337838:V314I;ENSP00000378109:V108I;ENSP00000385650:V108I;ENSP00000346465:V82I	ENSP00000337838:V314I	V	-	1	0	RTN4	55107799	0.000000	0.05858	0.000000	0.03702	0.045000	0.14185	-1.135000	0.03225	-1.910000	0.01083	-1.929000	0.00512	GTA		0.333	RTN4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000251484.1			T	55254295	C	T	55254295	3	4	664	1	0	0	0	0	1	0	0	0	13741	536	19	1	2704	1	RTN4	2	55254295	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	377483	55254295	187945078	108	41418										
C2orf63	130162	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	55408743	55408743	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	attggtaactaaatctaaccGtttttctgataatccacatt	4	8	2	1	rs368001227		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:55408743G>A	ENST00000401408.1	-	10	1489	c.1144C>T	c.(1144-1146)Cgg>Tgg	p.R382W	CLHC1_ENST00000406437.2_De_novo_Start_OutOfFrame|CLHC1_ENST00000406076.1_Missense_Mutation_p.R260W|CLHC1_ENST00000407122.1_Missense_Mutation_p.R382W|CLHC1_ENST00000494539.1_Intron	NM_152385.2	NP_689598.2	Q8NHS4	CLHC1_HUMAN	clathrin heavy chain linker domain containing 1	382																	AAATCTAACCGTTTTTCTGAT	0.343																																																0								G	TRP/ARG,TRP/ARG	0,4406		0,0,2203	86	80	82		778,1144	5.8	1	2		82	2,8598	2.2+/-6.3	0,2,4298	no	missense,missense	C2orf63	NM_001135598.1,NM_152385.2	101,101	0,2,6501	AA,AG,GG		0.0233,0.0,0.0154	probably-damaging,probably-damaging	260/465,382/587	55408743	2,13004	2203	4300	6503	SO:0001583	missense	130162				CCDS33201.1, CCDS46287.1	2p16.1	2012-08-03	2012-08-03	2012-08-03	ENSG00000162994	ENSG00000162994			26453	protein-coding gene	gene with protein product			"chromosome 2 open reading frame 63"	C2orf63			Standard	NM_152385		Approved	FLJ31438	uc002ryi.2	Q8NHS4	OTTHUMG00000151918	ENST00000401408.1:c.1144C>T	2.37:g.55408743G>A	ENSP00000384869:p.Arg382Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDV1|Q53R93|Q8N403	Missense_Mutation	SNP	ENST00000401408.1	37	CCDS33201.1	.	.	.	.	.	.	.	.	.	.	G	23.2	4.391201	0.82902	0.0	2.33E-4	ENSG00000162994	ENST00000407122;ENST00000401408;ENST00000406076	T;T;T	0.52526	0.66;0.66;0.66	5.78	5.78	0.91487	Clathrin, heavy chain, linker (1);Armadillo-type fold (1);	0.180442	0.38837	N	0.001557	T	0.69070	0.3070	M	0.72118	2.19	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.70321	-0.4904	10	0.87932	D	0	-14.0778	17.2896	0.87152	0.0:0.0:1.0:0.0	.	382	Q8NHS4	CB063_HUMAN	W	382;382;260	ENSP00000385778:R382W;ENSP00000384869:R382W;ENSP00000385512:R260W	ENSP00000384869:R382W	R	-	1	2	C2orf63	55262247	1.000000	0.71417	1.000000	0.80357	0.902000	0.53008	3.922000	0.56462	2.894000	0.99253	0.591000	0.81541	CGG		0.343	CLHC1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324412.4	NM_152385		A	55408743	G	A	55408743	3	1	664	1	0	0	0	0	1	0	0	0	2184	1144	40	1	632	1	C2orf63	2	55408743	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	154448	55408743	187790630	109	41419										
ETAA1	54465	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr2	67637129	67637129	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttcggagaatggctaaagcaCgagcctcatctgtaaatgca	10	9	2	1	rs368100435		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:67637129C>T	ENST00000272342.5	+	6	2870	c.2740C>T	c.(2740-2742)Cga>Tga	p.R914*		NM_019002.3	NP_061875.2	Q9NY74	ETAA1_HUMAN	Ewing tumor-associated antigen 1	914						cytoplasm (GO:0005737)				autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(10)|lung(9)|ovary(3)|prostate(1)|stomach(3)|urinary_tract(1)	33						GGCTAAAGCACGAGCCTCATC	0.373																																																0													94	112	106					2																	67637129		2203	4300	6503	SO:0001587	stop_gained	54465			AJ242682	CCDS1882.1	2p14	2014-02-12	2007-10-04		ENSG00000143971	ENSG00000143971			24648	protein-coding gene	gene with protein product		613196	"Ewing's tumor-associated antigen 1"			16003559	Standard	XM_005264374		Approved	ETAA16	uc002sdz.1	Q9NY74	OTTHUMG00000129545	ENST00000272342.5:c.2740C>T	2.37:g.67637129C>T	ENSP00000272342:p.Arg914*	Somatic		WXS	Illumina HiSeq	Phase_I	Q05BT7|Q53SC4	Nonsense_Mutation	SNP	ENST00000272342.5	37	CCDS1882.1	.	.	.	.	.	.	.	.	.	.	C	41	8.572554	0.98868	.	.	ENSG00000143971	ENST00000272342	.	.	.	5.83	4.73	0.59995	.	0.322034	0.28135	N	0.016468	.	.	.	.	.	.	0.53688	D	0.999978	.	.	.	.	.	.	.	.	.	.	0.22109	T	0.4	-28.0792	11.0857	0.48086	0.0:0.8843:0.0:0.1157	.	.	.	.	X	914	.	ENSP00000272342:R914X	R	+	1	2	ETAA1	67490633	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	3.054000	0.49908	1.127000	0.42034	0.591000	0.81541	CGA		0.373	ETAA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251735.1	NM_019002		T	67637129	C	T	67637129	4	4	664	1	0	0	0	0	0	1	0	0	5269	528	19	1	2762	1	ETAA1	2	67637129	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	12228386	67637129	175562244	110	41420										
GFPT1	2673	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	69583647	69583647	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccttgtgccaactgcttgccCgggaaaatgaacacttttaa	8	11	0	1	rs370171865		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:69583647C>T	ENST00000357308.4	-	7	764	c.586G>A	c.(586-588)Ggg>Agg	p.G196R	GFPT1_ENST00000361060.5_Missense_Mutation_p.G196R	NM_001244710.1	NP_001231639.1	Q06210	GFPT1_HUMAN	glutamine--fructose-6-phosphate transaminase 1	196	Glutamine amidotransferase type-2. {ECO:0000255|PROSITE-ProRule:PRU00609}.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|carbohydrate biosynthetic process (GO:0016051)|cellular protein metabolic process (GO:0044267)|cellular response to insulin stimulus (GO:0032869)|circadian regulation of gene expression (GO:0032922)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|endoplasmic reticulum unfolded protein response (GO:0030968)|energy reserve metabolic process (GO:0006112)|fructose 6-phosphate metabolic process (GO:0006002)|glucosamine biosynthetic process (GO:0006042)|glutamine metabolic process (GO:0006541)|negative regulation of glycogen biosynthetic process (GO:0045719)|post-translational protein modification (GO:0043687)|protein homotetramerization (GO:0051289)|protein N-linked glycosylation via asparagine (GO:0018279)|response to sucrose (GO:0009744)|UDP-N-acetylglucosamine biosynthetic process (GO:0006048)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	amino acid binding (GO:0016597)|carbohydrate binding (GO:0030246)|glutamine-fructose-6-phosphate transaminase (isomerizing) activity (GO:0004360)			endometrium(1)|large_intestine(3)|lung(5)|skin(3)	12						ACTGCTTGCCCGGGAAAATGA	0.358																																																0								C	ARG/GLY	1,4405	2.1+/-5.4	0,1,2202	146	146	146		586	4.5	1	2		146	0,8600		0,0,4300	no	missense	GFPT1	NM_002056.3	125	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging	196/682	69583647	1,13005	2203	4300	6503	SO:0001583	missense	2673				CCDS33216.1, CCDS58713.1	2p13	2014-09-17	2010-05-11		ENSG00000198380	ENSG00000198380	2.6.1.16		4241	protein-coding gene	gene with protein product		138292	"glutamine-fructose-6-phosphate transaminase 1"	GFPT		1460020	Standard	NM_002056		Approved	GFAT, GFA, GFAT1	uc002sfi.2	Q06210	OTTHUMG00000152666	ENST00000357308.4:c.586G>A	2.37:g.69583647C>T	ENSP00000349860:p.Gly196Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q53QE6|Q9BXF8	Missense_Mutation	SNP	ENST00000357308.4	37	CCDS58713.1	.	.	.	.	.	.	.	.	.	.	C	22.6	4.316483	0.81469	2.27E-4	0.0	ENSG00000198380	ENST00000357308;ENST00000361060	T;T	0.76448	-1.02;-1.02	5.34	4.47	0.54385	.	0.000000	0.85682	D	0.000000	D	0.86180	0.5871	M	0.74881	2.28	0.80722	D	1	D	0.71674	0.998	D	0.69654	0.965	D	0.87609	0.2502	10	0.72032	D	0.01	-12.7973	12.7181	0.57127	0.0:0.9208:0.0:0.0792	.	196	Q06210-2	.	R	196	ENSP00000349860:G196R;ENSP00000354347:G196R	ENSP00000349860:G196R	G	-	1	0	GFPT1	69437151	1.000000	0.71417	0.998000	0.56505	0.926000	0.56050	5.785000	0.68998	1.491000	0.48482	0.655000	0.94253	GGG		0.358	GFPT1-201	KNOWN	basic|CCDS	protein_coding	protein_coding				T	69583647	C	T	69583647	3	4	664	1	0	0	0	0	1	0	0	0	6352	652	23	1	1511	1	GFPT1	2	69583647	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1946518	69583647	173615726	111	41421										
DYSF	8291	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	71887760	71887760	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggataactacatcccctgcaCgctggagcccgtatttggaa	10	12	0	0	rs144383140		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:71887760C>T	ENST00000258104.3	+	44	5142	c.4865C>T	c.(4864-4866)aCg>aTg	p.T1622M	DYSF_ENST00000410020.3_Missense_Mutation_p.T1661M|DYSF_ENST00000479049.2_3'UTR|DYSF_ENST00000413539.2_Missense_Mutation_p.T1653M|DYSF_ENST00000409651.1_Missense_Mutation_p.T1654M|DYSF_ENST00000409762.1_Missense_Mutation_p.T1639M|DYSF_ENST00000409744.1_Missense_Mutation_p.T1630M|DYSF_ENST00000409582.3_Missense_Mutation_p.T1660M|DYSF_ENST00000429174.2_Missense_Mutation_p.T1643M|DYSF_ENST00000410041.1_Missense_Mutation_p.T1640M|DYSF_ENST00000409366.1_Missense_Mutation_p.T1644M|DYSF_ENST00000394120.2_Missense_Mutation_p.T1623M	NM_001130976.1|NM_003494.3	NP_001124448.1|NP_003485.1	O75923	DYSF_HUMAN	dysferlin	1622	C2 6. {ECO:0000255|PROSITE- ProRule:PRU00041}.				plasma membrane repair (GO:0001778)|vesicle fusion (GO:0006906)	cytoplasmic vesicle (GO:0031410)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)	calcium ion binding (GO:0005509)|calcium-dependent phospholipid binding (GO:0005544)|phospholipid binding (GO:0005543)			autonomic_ganglia(2)|breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(22)|lung(57)|ovary(3)|pancreas(1)|prostate(2)|skin(6)|upper_aerodigestive_tract(3)|urinary_tract(2)	111						ATCCCCTGCACGCTGGAGCCC	0.502																																																0								C	MET/THR,MET/THR,MET/THR,MET/THR,MET/THR,MET/THR,MET/THR,MET/THR,MET/THR,MET/THR,MET/THR,MET/THR,MET/THR,MET/THR	0,4406		0,0,2203	145	128	134		4868,4823,4886,4928,4958,4916,4979,4961,4931,4889,4919,4826,4982,4865	5.8	1	2	dbSNP_134	134	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,missense,missense,missense,missense,missense,missense,missense,missense,missense,missense,missense,missense	DYSF	NM_001130455.1,NM_001130976.1,NM_001130977.1,NM_001130978.1,NM_001130979.1,NM_001130980.1,NM_001130981.1,NM_001130982.1,NM_001130983.1,NM_001130984.1,NM_001130985.1,NM_001130986.1,NM_001130987.1,NM_003494.3	81,81,81,81,81,81,81,81,81,81,81,81,81,81	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging	1623/2082,1608/2067,1629/2088,1643/2102,1653/2112,1639/2098,1660/2119,1654/2113,1644/2103,1630/2089,1640/2099,1609/2068,1661/2120,1622/2081	71887760	1,13005	2203	4300	6503	SO:0001583	missense	8291			AF075575	CCDS1918.1, CCDS46323.1, CCDS46324.1, CCDS46325.1, CCDS46326.1, CCDS46327.1, CCDS46328.1, CCDS46329.1, CCDS46330.1, CCDS46331.1, CCDS46332.1	2p13.3	2014-09-17	2013-09-12		ENSG00000135636	ENSG00000135636			3097	protein-coding gene	gene with protein product	"fer-1-like family member 1"	603009	"limb girdle muscular dystrophy 2B (autosomal recessive)"	LGMD2B		8320700	Standard	NM_003494		Approved	FER1L1	uc010fen.3	O75923	OTTHUMG00000129757	ENST00000258104.3:c.4865C>T	2.37:g.71887760C>T	ENSP00000258104:p.Thr1622Met	Somatic		WXS	Illumina HiSeq	Phase_I	A0FK00|B1PZ70|B1PZ71|B1PZ72|B1PZ73|B1PZ74|B1PZ75|B1PZ76|B1PZ77|B1PZ78|B1PZ79|B1PZ80|B1PZ81|B3KQB9|O75696|Q09EX5|Q0H395|Q53QY3|Q53TD2|Q8TEL8|Q9UEN7	Missense_Mutation	SNP	ENST00000258104.3	37	CCDS1918.1	.	.	.	.	.	.	.	.	.	.	C	25.8	4.677535	0.88445	0.0	1.16E-4	ENSG00000135636	ENST00000413539;ENST00000409762;ENST00000409582;ENST00000429174;ENST00000258104;ENST00000409651;ENST00000394120;ENST00000409744;ENST00000409366;ENST00000410020;ENST00000410041	T;T;T;T;T;T;T;T;T;T;T	0.52057	0.68;0.68;0.68;0.68;0.68;0.68;0.68;0.68;0.68;0.68;0.68	5.78	5.78	0.91487	C2 membrane targeting protein (1);C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);	0.245141	0.47455	D	0.000231	T	0.78027	0.4219	H	0.97186	3.955	0.58432	D	0.999996	D;P;P;D;D;D;D;D;D;P;P;P;D;D;D	0.69078	0.99;0.924;0.924;0.992;0.985;0.979;0.997;0.979;0.997;0.924;0.79;0.921;0.972;0.985;0.988	P;P;P;P;P;P;P;P;P;P;P;P;P;P;P	0.61722	0.893;0.525;0.65;0.809;0.809;0.657;0.888;0.657;0.888;0.525;0.65;0.496;0.809;0.809;0.88	D	0.85230	0.1032	10	0.72032	D	0.01	-23.1535	17.5763	0.87950	0.0:1.0:0.0:0.0	.	386;1654;1661;1644;1609;1640;1630;1639;1629;1653;1660;1643;1608;1623;1622	B7Z8G4;O75923-8;O75923-13;O75923-10;O75923-9;O75923-11;O75923-12;O75923-5;O75923-6;O75923-2;O75923-7;O75923-4;O75923-3;O75923-14;O75923	.;.;.;.;.;.;.;.;.;.;.;.;.;.;DYSF_HUMAN	M	1653;1639;1660;1643;1622;1654;1623;1630;1644;1661;1640	ENSP00000407046:T1653M;ENSP00000387137:T1639M;ENSP00000386547:T1660M;ENSP00000398305:T1643M;ENSP00000258104:T1622M;ENSP00000386683:T1654M;ENSP00000377678:T1623M;ENSP00000386285:T1630M;ENSP00000386512:T1644M;ENSP00000386881:T1661M;ENSP00000386617:T1640M	ENSP00000258104:T1622M	T	+	2	0	DYSF	71741268	1.000000	0.71417	0.963000	0.40424	0.939000	0.58152	5.958000	0.70330	2.754000	0.94517	0.549000	0.68633	ACG		0.502	DYSF-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000251970.3	NM_003494		T	71887760	C	T	71887760	3	4	664	1	0	0	0	0	1	0	0	0	4861	536	19	1	5298	1	DYSF	2	71887760	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2304113	71887760	171311613	112	41422										
EGR4	1961	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	73520376	73520376	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gggcaattcagcgctgggttCggcgcaacagccttcagtgg	15	11	2	0	rs370512012		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:73520376C>T	ENST00000545030.1	-	1	453	c.379G>A	c.(379-381)Gaa>Aaa	p.E127K	EGR4_ENST00000436467.2_Missense_Mutation_p.E24K	NM_001965.3	NP_001956.3	Q05215	EGR4_HUMAN	early growth response 4	127					cellular response to cAMP (GO:0071320)|cellular response to gonadotropin stimulus (GO:0071371)|negative regulation of apoptotic process (GO:0043066)|positive regulation of cell proliferation (GO:0008284)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(1)|large_intestine(3)|lung(3)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11						GCGCTGGGTTCGGCGCAACAG	0.701																																																0													21	17	19					2																	73520376		2194	4292	6486	SO:0001583	missense	1961				CCDS1925.2	2p13	2013-01-08			ENSG00000135625	ENSG00000135625		"Zinc fingers, C2H2-type"	3241	protein-coding gene	gene with protein product		128992				1584812	Standard	NM_001965		Approved	NGFI-C, PAT133	uc010yrj.2	Q05215	OTTHUMG00000129774	ENST00000545030.1:c.379G>A	2.37:g.73520376C>T	ENSP00000445626:p.Glu127Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAE3|G3V1T5|Q2Z1P5	Missense_Mutation	SNP	ENST00000545030.1	37	CCDS1925.2	.	.	.	.	.	.	.	.	.	.	C	12.50	1.956665	0.34565	.	.	ENSG00000135625	ENST00000545030;ENST00000436467	T;T	0.15372	2.43;2.83	4.06	2.19	0.27852	.	0.797021	0.10981	N	0.612656	T	0.10594	0.0259	N	0.24115	0.695	0.09310	N	1	B;B	0.22909	0.046;0.077	B;B	0.16722	0.007;0.016	T	0.31308	-0.9948	10	0.72032	D	0.01	-0.6171	3.9935	0.09548	0.0:0.5634:0.2109:0.2256	.	24;127	Q05215;G3V1T5	EGR4_HUMAN;.	K	127;24	ENSP00000445626:E127K;ENSP00000419687:E24K	ENSP00000419687:E24K	E	-	1	0	EGR4	73373884	0.000000	0.05858	0.080000	0.20451	0.537000	0.34900	0.041000	0.13927	0.345000	0.23873	0.561000	0.74099	GAA		0.701	EGR4-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_001965		T	73520376	C	T	73520376	3	4	664	1	0	0	0	0	1	0	0	0	4976	893	31	1	1398	1	EGR4	2	73520376	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1632616	73520376	169678997	113	41423										
TET3	200424	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr2	74327959	74327959	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agccaggctgttcccacagaCgcccaccaccccactcctca	6	21	1	1	rs530077169	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:74327959C>T	ENST00000409262.3	+	9	3639	c.3639C>T	c.(3637-3639)gaC>gaT	p.D1213D		NM_144993.1	NP_659430.1	O43151	TET3_HUMAN	tet methylcytosine dioxygenase 3	1213					DNA demethylation (GO:0080111)|DNA demethylation of male pronucleus (GO:0044727)|histone H3-K4 trimethylation (GO:0080182)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein O-linked glycosylation (GO:0006493)	cytoplasm (GO:0005737)|female pronucleus (GO:0001939)|male pronucleus (GO:0001940)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|methylcytosine dioxygenase activity (GO:0070579)			NS(1)|breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(9)|lung(9)|ovary(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	34						TTCCCACAGACGCCCACCACC	0.642													C|||	2	0.000399361	0.0008	0.0014	5008	,	,		17802	0.0		0.0	False		,,,				2504	0.0															0													19	23	22					2																	74327959		2078	4211	6289	SO:0001819	synonymous_variant	200424				CCDS46339.1, CCDS46339.2	2p13.1	2011-09-30	2011-09-30		ENSG00000187605	ENSG00000187605			28313	protein-coding gene	gene with protein product		613555	"tet oncogene family member 3"			9455477	Standard	XM_005264187		Approved	MGC22014, hCG_40738	uc031roi.1	O43151	OTTHUMG00000152823	ENST00000409262.3:c.3639C>T	2.37:g.74327959C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NEI3|Q86Z24|Q8TBM9	Silent	SNP	ENST00000409262.3	37	CCDS46339.1																																																																																				0.642	TET3-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328141.4			T	74327959	C	T	74327959	2	4	664	1	0	0	0	0	0	0	0	1	15783	535	19	1		1	TET3	2	74327959	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	807583	74327959	168871414	114	41424										
TCF7L1	83439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	85533623	85533623	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaagtactacgagctggccCggaaggagcggcagcttcac	13	13	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:85533623C>T	ENST00000282111.3	+	10	1473	c.1198C>T	c.(1198-1200)Cgg>Tgg	p.R400W		NM_031283.2	NP_112573.1	Q9HCS4	TF7L1_HUMAN	transcription factor 7-like 1 (T-cell specific, HMG-box)	400					anterior/posterior axis specification, embryo (GO:0008595)|axial mesoderm morphogenesis (GO:0048319)|brain development (GO:0007420)|canonical Wnt signaling pathway (GO:0060070)|chromatin organization (GO:0006325)|generation of neurons (GO:0048699)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription from RNA polymerase II promoter during mitosis (GO:0046022)|regulation of stem cell maintenance (GO:2000036)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|regulation of Wnt signaling pathway (GO:0030111)|skin development (GO:0043588)|somatic stem cell maintenance (GO:0035019)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|transcription factor complex (GO:0005667)	beta-catenin binding (GO:0008013)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(3)|skin(4)|upper_aerodigestive_tract(1)	18						CGAGCTGGCCCGGAAGGAGCG	0.607																																																0													70	65	67					2																	85533623		2203	4300	6503	SO:0001583	missense	83439			X62870	CCDS1971.1	2p11.2	2008-02-05			ENSG00000152284	ENSG00000152284			11640	protein-coding gene	gene with protein product		604652		TCF3		1741298, 11085512	Standard	NM_031283		Approved		uc002soy.3	Q9HCS4	OTTHUMG00000130026	ENST00000282111.3:c.1198C>T	2.37:g.85533623C>T	ENSP00000282111:p.Arg400Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q53R97|Q6PD70|Q9NP00	Missense_Mutation	SNP	ENST00000282111.3	37	CCDS1971.1	.	.	.	.	.	.	.	.	.	.	C	18.35	3.604526	0.66445	.	.	ENSG00000152284	ENST00000282111	D	0.98135	-4.74	4.74	2.88	0.33553	High mobility group, superfamily (1);High mobility group, HMG1/HMG2 (4);	0.053873	0.64402	D	0.000001	D	0.98704	0.9565	M	0.92317	3.295	0.53005	D	0.999965	D	0.89917	1.0	D	0.80764	0.994	D	0.98574	1.0647	10	0.87932	D	0	.	9.2326	0.37446	0.1649:0.676:0.1591:0.0	.	400	Q9HCS4	TF7L1_HUMAN	W	400	ENSP00000282111:R400W	ENSP00000282111:R400W	R	+	1	2	TCF7L1	85387134	0.740000	0.28207	0.998000	0.56505	0.830000	0.47004	1.445000	0.35079	0.562000	0.29204	-0.293000	0.09583	CGG		0.607	TCF7L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252301.2	NM_031283		T	85533623	C	T	85533623	3	4	664	1	0	0	0	0	1	0	0	0	15709	643	23	1	1236	1	TCF7L1	2	85533623	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	11205664	85533623	157665750	115	41425										
POLR1A	25885	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	86315989	86315989	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcttgctctcacacacgttcTttacctgtttttttaaaaaa	3	10	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:86315989T>G	ENST00000263857.6	-	5	923	c.545A>C	c.(544-546)aAg>aCg	p.K182T	POLR1A_ENST00000409681.1_Missense_Mutation_p.K182T			O95602	RPA1_HUMAN	polymerase (RNA) I polypeptide A, 194kDa	182					gene expression (GO:0010467)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription from RNA polymerase I promoter (GO:0006360)|transcription initiation from RNA polymerase I promoter (GO:0006361)	cytoplasm (GO:0005737)|DNA-directed RNA polymerase I complex (GO:0005736)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)|zinc ion binding (GO:0008270)			NS(1)|breast(4)|cervix(2)|endometrium(8)|kidney(3)|large_intestine(12)|liver(1)|lung(20)|ovary(3)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(5)	63						ACACACGTTCTTTACCTGTTT	0.398																																																0													91	87	88					2																	86315989		1904	4113	6017	SO:0001583	missense	25885			AK025568	CCDS42706.1	2p11.2	2013-01-21			ENSG00000068654	ENSG00000068654		"RNA polymerase subunits"	17264	protein-coding gene	gene with protein product						9236775	Standard	NM_015425		Approved	DKFZP586M0122, FLJ21915, RPO1-4, RPA1	uc002sqs.3	O95602	OTTHUMG00000153165	ENST00000263857.6:c.545A>C	2.37:g.86315989T>G	ENSP00000263857:p.Lys182Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7T0|D6W5M0|Q0VG05|Q9UEH0|Q9UFT9	Missense_Mutation	SNP	ENST00000263857.6	37	CCDS42706.1	.	.	.	.	.	.	.	.	.	.	T	19.50	3.840075	0.71488	.	.	ENSG00000068654	ENST00000263857;ENST00000409681	T;T	0.69435	-0.4;-0.38	6.07	6.07	0.98685	RNA polymerase Rpb1, domain 1 (1);	0.230096	0.47455	D	0.000221	T	0.76849	0.4045	L	0.52266	1.64	0.80722	D	1	D;D	0.60575	0.977;0.988	D;P	0.63877	0.919;0.869	T	0.77902	-0.2414	10	0.59425	D	0.04	-29.6231	16.3021	0.82825	0.0:0.0:0.0:1.0	.	182;182	B9ZVN9;O95602	.;RPA1_HUMAN	T	182	ENSP00000263857:K182T;ENSP00000386300:K182T	ENSP00000263857:K182T	K	-	2	0	POLR1A	86169500	1.000000	0.71417	0.990000	0.47175	0.925000	0.55904	7.073000	0.76784	2.326000	0.78906	0.533000	0.62120	AAG		0.398	POLR1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329830.2	NM_015425		G	86315989	T	G	86315989	3	3	664	1	0	0	0	0	1	0	0	0	12216	1609	56	5	4737	5	POLR1A	2	86315989	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	782366	86315989	156883384	116	41426										
FAM178B	51252	bcgsc.ca	37	chr2	97568436	97568436	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccacaaggctgagctggcttCgaagccgcctgggggaaaag	15	11	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:97568436C>T	ENST00000417561.3	-	17	2014	c.2015G>A	c.(2014-2016)cGa>cAa	p.R672Q	FAM178B_ENST00000490605.2_Missense_Mutation_p.R524Q|FAM178B_ENST00000327896.3_Missense_Mutation_p.R492Q			Q8IXR5	F178B_HUMAN	family with sequence similarity 178, member B	672										large_intestine(1)|ovary(1)	2						GAGCTGGCTTCGAAGCCGCCT	0.617																																																0													37	38	38					2																	97568436		692	1591	2283	SO:0001583	missense	51252			AF151068, BC039488	CCDS33252.1, CCDS46366.1, CCDS46366.2	2q11.2	2008-08-08			ENSG00000168754	ENSG00000168754			28036	protein-coding gene	gene with protein product						11042152	Standard	NM_001122646		Approved	LOC51252	uc002sxl.4	Q8IXR5	OTTHUMG00000155257	ENST00000417561.3:c.2015G>A	2.37:g.97568436C>T	ENSP00000413245:p.Arg672Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8MXN2|E9PD86|Q8IUY0|Q9P0P4	Missense_Mutation	SNP	ENST00000417561.3	37		.	.	.	.	.	.	.	.	.	.	C	24.6	4.553217	0.86127	.	.	ENSG00000168754	ENST00000417561;ENST00000327896;ENST00000490605	T;T;T	0.57595	0.39;0.42;0.4	5.42	5.42	0.78866	.	.	.	.	.	T	0.63663	0.2530	M	0.64404	1.975	0.29515	N	0.853893	.	.	.	.	.	.	T	0.64249	-0.6452	7	0.72032	D	0.01	-5.6676	14.7261	0.69346	0.0:1.0:0.0:0.0	.	.	.	.	Q	672;492;524	ENSP00000413245:R672Q;ENSP00000333553:R492Q;ENSP00000429896:R524Q	ENSP00000333553:R492Q	R	-	2	0	FAM178B	96932163	1.000000	0.71417	0.988000	0.46212	0.865000	0.49528	3.512000	0.53407	2.547000	0.85894	0.561000	0.74099	CGA		0.617	FAM178B-202	KNOWN	basic	protein_coding	protein_coding		NM_016490		T	97568436	C	T	97568436	3	4	664	1	0	0	0	0	1	0	0	0	5508	884	31	1	519	1	FAM178B	2	97568436	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	11252447	97568436	145630937	117	41427										
LYG2	254773	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	99860551	99860551	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcccagtagcctgtgaaaggTgctctttgctatcccaggca	10	12	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:99860551T>C	ENST00000409238.1	-	4	451	c.431A>G	c.(430-432)cAc>cGc	p.H144R	LYG2_ENST00000423800.1_Missense_Mutation_p.H144R|LYG2_ENST00000333017.2_Missense_Mutation_p.H144R|LYG2_ENST00000409679.1_Missense_Mutation_p.H144R			Q86SG7	LYG2_HUMAN	lysozyme G-like 2	144					cell wall macromolecule catabolic process (GO:0016998)|peptidoglycan catabolic process (GO:0009253)	extracellular region (GO:0005576)	lysozyme activity (GO:0003796)			large_intestine(3)|lung(4)|ovary(1)|prostate(2)|skin(1)|stomach(1)	12						CTGTGAAAGGTGCTCTTTGCT	0.433																																																0													100	94	96					2																	99860551		2203	4300	6503	SO:0001583	missense	254773			AF323919	CCDS2042.1	2q11.2	2008-02-05			ENSG00000185674	ENSG00000185674			29615	protein-coding gene	gene with protein product						8889548, 12574869	Standard	NM_175735		Approved	LYGH	uc002szw.1	Q86SG7	OTTHUMG00000130643	ENST00000409238.1:c.431A>G	2.37:g.99860551T>C	ENSP00000386939:p.His144Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q496G2|Q53RW0	Missense_Mutation	SNP	ENST00000409238.1	37	CCDS2042.1	.	.	.	.	.	.	.	.	.	.	T	14.62	2.588887	0.46110	.	.	ENSG00000185674	ENST00000409238;ENST00000333017;ENST00000409679;ENST00000423306	.	.	.	5.58	5.58	0.84498	Lytic transglycosylase-like, catalytic (1);Lysozyme-like domain (1);	0.000000	0.64402	D	0.000013	T	0.79399	0.4439	M	0.84326	2.69	0.49687	D	0.999816	D;D;D	0.89917	1.0;1.0;0.999	D;D;D	0.91635	0.999;0.999;0.999	T	0.81531	-0.0890	8	.	.	.	-3.0463	12.1331	0.53955	0.0:0.0:0.0:1.0	.	144;144;144	Q496G2;C9J4J0;Q86SG7	.;.;LYG2_HUMAN	R	144	.	.	H	-	2	0	LYG2	99226983	1.000000	0.71417	0.998000	0.56505	0.065000	0.16274	5.205000	0.65186	2.121000	0.65114	0.454000	0.30748	CAC		0.433	LYG2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000330307.1	NM_175735		C	99860551	T	C	99860551	3	2	664	1	0	0	0	0	1	0	0	0	9112	1696	59	3	215	3	LYG2	2	99860551	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	2292115	99860551	143338822	118	41428										
AFF3	3899	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	100210166	100210166	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gacgatcctgcttagcccccGcgtgcggcgcttctcgcagg	13	16	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:100210166G>A	ENST00000409236.2	-	13	2069	c.1957C>T	c.(1957-1959)Cgg>Tgg	p.R653W	AFF3_ENST00000356421.2_Missense_Mutation_p.R678W|AFF3_ENST00000317233.4_Missense_Mutation_p.R653W|AFF3_ENST00000409579.1_Missense_Mutation_p.R678W			P51826	AFF3_HUMAN	AF4/FMR2 family, member 3	653					embryonic hindlimb morphogenesis (GO:0035116)|regulation of transcription, DNA-templated (GO:0006355)|response to tumor necrosis factor (GO:0034612)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	double-stranded DNA binding (GO:0003690)			NS(1)|breast(3)|central_nervous_system(1)|cervix(3)|endometrium(9)|kidney(4)|large_intestine(20)|liver(1)|lung(28)|ovary(3)|pancreas(1)|prostate(4)|skin(5)|urinary_tract(3)	86						CTTAGCCCCCGCGTGCGGCGC	0.632																																																0													60	66	64					2																	100210166		2203	4299	6502	SO:0001583	missense	3899			U34360	CCDS33258.1, CCDS42723.1	2q11.2-q12	2008-02-05	2005-06-27	2005-06-27	ENSG00000144218	ENSG00000144218			6473	protein-coding gene	gene with protein product		601464	"lymphoid nuclear protein related to AF4"	LAF4		8662235, 8555498	Standard	XM_005263945		Approved	MLLT2-like	uc002taf.3	P51826	OTTHUMG00000153011	ENST00000409236.2:c.1957C>T	2.37:g.100210166G>A	ENSP00000387207:p.Arg653Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZM46|B9EGL9|D3DVI6|Q53RD6|Q53S47|Q53SI6|Q53TB9|Q59F27|Q8IWJ5	Missense_Mutation	SNP	ENST00000409236.2	37	CCDS42723.1	.	.	.	.	.	.	.	.	.	.	G	15.66	2.899400	0.52227	.	.	ENSG00000144218	ENST00000317233;ENST00000356421;ENST00000409579;ENST00000409236;ENST00000433370;ENST00000444786;ENST00000432288	T;T;T;T	0.69175	-0.38;-0.38;-0.38;-0.38	5.17	3.3	0.37823	.	0.086860	0.45867	D	0.000326	T	0.81384	0.4811	M	0.81497	2.545	0.34164	D	0.669057	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	0.999;1.0;0.989	D	0.87301	0.2305	10	0.72032	D	0.01	.	13.6734	0.62438	0.0:0.0:0.6001:0.3999	.	806;653;678	B7Z4I6;P51826;P51826-2	.;AFF3_HUMAN;.	W	653;678;678;653;653;806;678	ENSP00000317421:R653W;ENSP00000348793:R678W;ENSP00000386834:R678W;ENSP00000387207:R653W	ENSP00000317421:R653W	R	-	1	2	AFF3	99576598	0.001000	0.12720	0.611000	0.29010	0.738000	0.42128	-0.157000	0.10085	0.523000	0.28482	0.561000	0.74099	CGG		0.632	AFF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328982.3	NM_002285		A	100210166	G	A	100210166	3	1	664	1	0	0	0	0	1	0	0	0	358	1086	38	1	1767	1	AFF3	2	100210166	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	349615	100210166	142989207	119	41429										
IL1R1	3554	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr2	102789203	102789203	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	catcacagtgcttaatatatCggaaattgaaagtagatttt	7	5	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:102789203C>T	ENST00000410023.1	+	9	1214	c.896C>T	c.(895-897)tCg>tTg	p.S299L	AC007271.3_ENST00000428188.1_RNA|IL1R1_ENST00000424272.1_Missense_Mutation_p.S299L|IL1R1_ENST00000233946.3_Missense_Mutation_p.S299L|IL1R1_ENST00000409929.1_Missense_Mutation_p.S299L|IL1R1_ENST00000409589.1_Intron|IL1R1_ENST00000409288.1_Missense_Mutation_p.S299L|IL1R1_ENST00000409329.1_Missense_Mutation_p.S299L			P14778	IL1R1_HUMAN	interleukin 1 receptor, type I	299	Ig-like C2-type 3.				cell surface receptor signaling pathway (GO:0007166)|immune response (GO:0006955)|interleukin-1-mediated signaling pathway (GO:0070498)|regulation of inflammatory response (GO:0050727)|response to interleukin-1 (GO:0070555)	cell surface (GO:0009986)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	interleukin-1 receptor activity (GO:0004908)|interleukin-1, Type I, activating receptor activity (GO:0004909)|platelet-derived growth factor receptor binding (GO:0005161)|signal transducer activity (GO:0004871)|transmembrane signaling receptor activity (GO:0004888)			breast(2)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(4)|prostate(2)|skin(3)	19					Anakinra(DB00026)	CTTAATATATCGGAAATTGAA	0.333																																																0													120	113	115					2																	102789203		2203	4300	6503	SO:0001583	missense	3554			M27492	CCDS2055.1, CCDS74547.1	2q12	2013-01-29			ENSG00000115594	ENSG00000115594		"Interleukins and interleukin receptors", "CD molecules", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5993	protein-coding gene	gene with protein product		147810		IL1R, IL1RA		1833184, 10191101	Standard	XM_005263929		Approved	D2S1473, CD121A	uc002tbr.3	P14778	OTTHUMG00000130783	ENST00000410023.1:c.896C>T	2.37:g.102789203C>T	ENSP00000386380:p.Ser299Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q587I7	Missense_Mutation	SNP	ENST00000410023.1	37	CCDS2055.1	.	.	.	.	.	.	.	.	.	.	C	7.955	0.745632	0.15710	.	.	ENSG00000115594	ENST00000409929;ENST00000424272;ENST00000409329;ENST00000428279;ENST00000409288;ENST00000410023;ENST00000233946	T;T;T;T;T;T;T	0.04015	3.73;3.73;3.73;3.73;3.73;3.73;3.73	4.87	3.05	0.35203	Immunoglobulin subtype (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.129319	0.56097	N	0.000040	T	0.05227	0.0139	L	0.42245	1.32	0.35207	D	0.774809	B;B;B	0.24186	0.044;0.099;0.058	B;B;B	0.22753	0.041;0.041;0.031	T	0.19063	-1.0317	10	0.49607	T	0.09	.	9.1313	0.36846	0.0:0.8255:0.0:0.1745	.	299;299;299	B8ZZW4;P14778;B8ZZ73	.;IL1R1_HUMAN;.	L	299;299;299;155;299;299;299	ENSP00000386776:S299L;ENSP00000415366:S299L;ENSP00000387131:S299L;ENSP00000410461:S155L;ENSP00000386478:S299L;ENSP00000386380:S299L;ENSP00000233946:S299L	ENSP00000233946:S299L	S	+	2	0	IL1R1	102155635	0.743000	0.28239	0.109000	0.21407	0.027000	0.11550	1.082000	0.30803	0.743000	0.32719	0.591000	0.81541	TCG		0.333	IL1R1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253299.1			T	102789203	C	T	102789203	3	4	664	1	0	0	0	0	1	0	0	0	7665	893	31	1	922	1	IL1R1	2	102789203	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2579037	102789203	140410170	120	41430										
MALL	7851	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	110849317	110849317	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtatactatgtgggtggcggCtaccatggtccagaccaaga	13	9	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:110849317C>A	ENST00000272462.2	-	2	909	c.136G>T	c.(136-138)Gcc>Tcc	p.A46S	MALL_ENST00000427178.1_Intron	NM_005434.4	NP_005425.1	Q13021	MALL_HUMAN	mal, T-cell differentiation protein-like	46	MARVEL. {ECO:0000255|PROSITE- ProRule:PRU00581}.				cholesterol homeostasis (GO:0042632)	clathrin-coated vesicle (GO:0030136)|cytoplasmic membrane-bounded vesicle (GO:0016023)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)				kidney(1)|large_intestine(3)|lung(1)|ovary(1)|skin(1)|stomach(1)|urinary_tract(1)	9				Epithelial(1;0.0546)|STAD - Stomach adenocarcinoma(1;0.18)		TGGGTGGCGGCTACCATGGTC	0.463																																																0													90	79	83					2																	110849317		2201	4295	6496	SO:0001583	missense	7851			U17077	CCDS2085.1	2q13	2008-02-05			ENSG00000144063	ENSG00000144063			6818	protein-coding gene	gene with protein product		602022				9326933	Standard	NM_005434		Approved	BENE	uc002tfk.3	Q13021	OTTHUMG00000131196	ENST00000272462.2:c.136G>T	2.37:g.110849317C>A	ENSP00000272462:p.Ala46Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWR6|Q9BTU0	Missense_Mutation	SNP	ENST00000272462.2	37	CCDS2085.1	.	.	.	.	.	.	.	.	.	.	C	4.439	0.081328	0.08533	.	.	ENSG00000144063	ENST00000272462	T	0.30182	1.54	3.47	3.47	0.39725	Marvel (1);MARVEL-like domain (1);	0.000000	0.53938	D	0.000051	T	0.57184	0.2036	M	0.85197	2.74	0.80722	D	1	D	0.76494	0.999	D	0.87578	0.998	T	0.63373	-0.6652	10	0.49607	T	0.09	-14.0004	12.7991	0.57576	0.0:1.0:0.0:0.0	.	46	Q13021	MALL_HUMAN	S	46	ENSP00000272462:A46S	ENSP00000272462:A46S	A	-	1	0	MALL	110206606	0.996000	0.38824	0.802000	0.32245	0.092000	0.18411	4.652000	0.61454	1.664000	0.50801	0.313000	0.20887	GCC		0.463	MALL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253921.1	NM_005434		A	110849317	C	A	110849317	3	1	664	1	0	0	0	0	1	0	0	0	9208	797	28	4	337	4	MALL	2	110849317	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	8060114	110849317	132350056	121	41431										
BUB1	699	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	111416221	111416221	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttttgtgtgcacggtgggtgAtggctgcactttggatggcg	17	6	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:111416221A>G	ENST00000302759.6	-	12	1493	c.1375T>C	c.(1375-1377)Tca>Cca	p.S459P	BUB1_ENST00000409311.1_Missense_Mutation_p.S459P|BUB1_ENST00000535254.1_Missense_Mutation_p.S439P	NM_004336.3	NP_004327.1	O43683	BUB1_HUMAN	BUB1 mitotic checkpoint serine/threonine kinase	459	Essential for loading of BUBR1, MAD1L1 and MAD2L1 to kinetochores.				apoptotic process (GO:0006915)|cell proliferation (GO:0008283)|chromosome segregation (GO:0007059)|mitotic cell cycle (GO:0000278)|mitotic cell cycle checkpoint (GO:0007093)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|regulation of chromosome segregation (GO:0051983)|regulation of sister chromatid cohesion (GO:0007063)|spindle assembly checkpoint (GO:0071173)|viral process (GO:0016032)	condensed chromosome kinetochore (GO:0000777)|condensed nuclear chromosome, centromeric region (GO:0000780)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinetochore (GO:0000776)|membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			breast(3)|endometrium(8)|kidney(4)|large_intestine(9)|lung(18)|ovary(1)|prostate(1)|stomach(1)	45		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		ACGGTGGGTGATGGCTGCACT	0.433																																																0													225	192	203					2																	111416221		2203	4300	6503	SO:0001583	missense	699			AF046078	CCDS33273.1, CCDS62984.1, CCDS62985.1	2q13	2013-01-17	2013-01-17		ENSG00000169679	ENSG00000169679			1148	protein-coding gene	gene with protein product		602452	"budding uninhibited by benzimidazoles 1 (yeast homolog)", "budding uninhibited by benzimidazoles 1 homolog (yeast)"	BUB1L			Standard	NM_004336		Approved	hBUB1, BUB1A	uc002tgc.3	O43683	OTTHUMG00000153638	ENST00000302759.6:c.1375T>C	2.37:g.111416221A>G	ENSP00000302530:p.Ser459Pro	Somatic		WXS	Illumina HiSeq	Phase_I	E9PC26|F5GXI5|O43430|O43643|O60626|Q53QE4	Missense_Mutation	SNP	ENST00000302759.6	37	CCDS33273.1	.	.	.	.	.	.	.	.	.	.	A	25.1	4.600316	0.87055	.	.	ENSG00000169679	ENST00000535254;ENST00000409311;ENST00000302759;ENST00000541432	T;T;T	0.62639	0.87;0.01;1.15	5.86	5.86	0.93980	.	0.000000	0.85682	D	0.000000	T	0.77363	0.4119	M	0.65498	2.005	0.51012	D	0.999905	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.999	T	0.79359	-0.1836	10	0.72032	D	0.01	-18.7989	14.5065	0.67755	1.0:0.0:0.0:0.0	.	439;459;459	F5GXI5;E9PC26;O43683	.;.;BUB1_HUMAN	P	439;459;459;459	ENSP00000441013:S439P;ENSP00000386701:S459P;ENSP00000302530:S459P	ENSP00000302530:S459P	S	-	1	0	BUB1	111132694	1.000000	0.71417	0.835000	0.33067	0.976000	0.68499	7.143000	0.77348	2.367000	0.80283	0.528000	0.53228	TCA		0.433	BUB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331925.1	NM_004336		G	111416221	A	G	111416221	3	3	664	1	0	0	0	0	1	0	0	0	1572	333	12	3	1938	3	BUB1	2	111416221	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	566904	111416221	131783152	122	41432										
TMEM177	80775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	120438454	120438454	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caggtcccctgtggcggaccGcagcatttgtgcagagacac	13	13	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:120438454G>A	ENST00000424086.1	+	2	498	c.25G>A	c.(25-27)Gca>Aca	p.A9T	TMEM177_ENST00000272521.6_Missense_Mutation_p.A9T|TMEM177_ENST00000401466.1_Missense_Mutation_p.A9T|TMEM177_ENST00000409951.1_Missense_Mutation_p.A9T|TMEM177_ENST00000496203.1_Intron	NM_001105198.1	NP_001098668.1	Q53S58	TM177_HUMAN	transmembrane protein 177	9						integral component of membrane (GO:0016021)				breast(1)|endometrium(1)|large_intestine(3)|lung(6)|ovary(1)|upper_aerodigestive_tract(1)	13	Colorectal(110;0.196)					GTGGCGGACCGCAGCATTTGT	0.577																																																0													31	32	32					2																	120438454		2203	4300	6503	SO:0001583	missense	80775			BC004404	CCDS2128.1	2q14.2	2008-02-05			ENSG00000144120	ENSG00000144120			28143	protein-coding gene	gene with protein product						12477932	Standard	NM_001105198		Approved	MGC10993	uc002tmc.1	Q53S58	OTTHUMG00000153312	ENST00000424086.1:c.25G>A	2.37:g.120438454G>A	ENSP00000402661:p.Ala9Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BT20	Missense_Mutation	SNP	ENST00000424086.1	37	CCDS2128.1	.	.	.	.	.	.	.	.	.	.	G	3.212	-0.161456	0.06502	.	.	ENSG00000144120	ENST00000401466;ENST00000424086;ENST00000272521;ENST00000445518;ENST00000409951;ENST00000415646	T;T;T;T;T	0.17691	2.26;2.26;2.26;2.26;2.26	4.05	-1.07	0.09968	.	0.587988	0.18617	N	0.135983	T	0.10380	0.0254	L	0.47716	1.5	0.09310	N	1	B;B	0.14012	0.009;0.005	B;B	0.10450	0.005;0.003	T	0.25257	-1.0137	10	0.26408	T	0.33	.	0.9877	0.01450	0.3926:0.1542:0.296:0.1572	.	9;9	B8ZZT5;Q53S58	.;TM177_HUMAN	T	9	ENSP00000385966:A9T;ENSP00000402661:A9T;ENSP00000272521:A9T;ENSP00000405898:A9T;ENSP00000386430:A9T	ENSP00000272521:A9T	A	+	1	0	TMEM177	120154924	0.001000	0.12720	0.000000	0.03702	0.267000	0.26476	-0.011000	0.12721	-0.221000	0.09973	0.549000	0.68633	GCA		0.577	TMEM177-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000330673.1	NM_030577		A	120438454	G	A	120438454	3	1	664	1	0	0	0	0	1	0	0	0	16106	1087	38	1	27	1	TMEM177	2	120438454	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	9022233	120438454	122760919	123	41433										
BIN1	274	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	127810999	127810999	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagcagacgtgcagcttaccTcccagaggtcccatggaatt	11	12	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:127810999T>C	ENST00000316724.5	-	14	1673	c.1262A>G	c.(1261-1263)gAg>gGg	p.E421G	BIN1_ENST00000357970.3_Splice_Site_p.E378G|BIN1_ENST00000376113.2_Intron|BIN1_ENST00000393040.3_Intron|BIN1_ENST00000259238.4_Intron|BIN1_ENST00000351659.3_Intron|BIN1_ENST00000409400.1_Intron|BIN1_ENST00000466111.1_Intron|BIN1_ENST00000352848.3_Intron|BIN1_ENST00000348750.4_Intron|BIN1_ENST00000393041.3_Intron|BIN1_ENST00000346226.3_Intron	NM_139343.2	NP_647593.1	O00499	BIN1_HUMAN	bridging integrator 1	421	Clathrin-binding.				cell proliferation (GO:0008283)|endocytosis (GO:0006897)|lipid tube assembly (GO:0060988)|muscle cell differentiation (GO:0042692)|positive regulation of apoptotic process (GO:0043065)|positive regulation of astrocyte differentiation (GO:0048711)|positive regulation of endocytosis (GO:0045807)|positive regulation of GTPase activity (GO:0043547)|regulation of cell cycle arrest (GO:0071156)|regulation of neuron differentiation (GO:0045664)|viral process (GO:0016032)	actin cytoskeleton (GO:0015629)|axon (GO:0030424)|axon initial segment (GO:0043194)|axon terminus (GO:0043679)|cerebellar mossy fiber (GO:0044300)|cytoplasm (GO:0005737)|I band (GO:0031674)|lipid tube (GO:0060987)|node of Ranvier (GO:0033268)|nucleus (GO:0005634)|synaptic vesicle (GO:0008021)|T-tubule (GO:0030315)|varicosity (GO:0043196)|Z disc (GO:0030018)	identical protein binding (GO:0042802)|tau protein binding (GO:0048156)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(2)|large_intestine(3)|lung(6)|ovary(3)|prostate(3)|skin(3)	24	Colorectal(110;0.0831)			BRCA - Breast invasive adenocarcinoma(221;0.073)		GCAGCTTACCTCCCAGAGGTC	0.602																																																0													106	87	93					2																	127810999		2203	4300	6503	SO:0001630	splice_region_variant	274			U68485	CCDS2137.1, CCDS2138.1, CCDS2139.1, CCDS2140.1, CCDS2141.1, CCDS2142.1, CCDS2143.1, CCDS42743.1, CCDS42744.1, CCDS46403.1	2q14	2014-09-17			ENSG00000136717	ENSG00000136717			1052	protein-coding gene	gene with protein product	"amphiphysin II"	601248		AMPHL		8725406, 8782822, 17676042	Standard	NM_004305		Approved	SH3P9, AMPH2	uc002tns.2	O00499	OTTHUMG00000131465	ENST00000316724.5:c.1263+1A>G	2.37:g.127810999T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O00297|O00545|O43867|O60552|O60553|O60554|O60555|O75514|O75515|O75516|O75517|O75518|Q659B7|Q92944|Q99688	Missense_Mutation	SNP	ENST00000316724.5	37	CCDS2138.1	.	.	.	.	.	.	.	.	.	.	T	21.7	4.187063	0.78789	.	.	ENSG00000136717	ENST00000357970;ENST00000316724	T;T	0.65916	-0.18;-0.18	5.39	5.39	0.77823	.	0.230194	0.34777	N	0.003693	T	0.71195	0.3311	L	0.43152	1.355	0.80722	D	1	P;D	0.71674	0.879;0.998	P;D	0.72982	0.5;0.979	T	0.72290	-0.4337	10	0.51188	T	0.08	-30.8542	12.9831	0.58575	0.0:0.0:0.0:1.0	.	378;421	O00499-5;O00499	.;BIN1_HUMAN	G	378;421	ENSP00000350654:E378G;ENSP00000316779:E421G	ENSP00000316779:E421G	E	-	2	0	BIN1	127527469	1.000000	0.71417	1.000000	0.80357	0.924000	0.55760	2.417000	0.44653	2.075000	0.62263	0.454000	0.30748	GAG		0.602	BIN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254298.2	NM_139343	Missense_Mutation	C	127810999	T	C	127810999	5	2	664	1	0	0	0	0	0	0	1	0	1432	1565	54	3	543	3	BIN1	2	127810999	Splice_Site	SNP	T	TCGA-KN-8428-01A-11D-2310-10	7372545	127810999	115388374	124	41434										
MYO7B	4648	broad.mit.edu;bcgsc.ca	37	chr2	128324245	128324245	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caggctccatcctggtggccGtcaacccgttccaggtgctg	12	15	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:128324245G>A	ENST00000409816.2	+	4	345	c.313G>A	c.(313-315)Gtc>Atc	p.V105I	MYO7B_ENST00000389524.4_Missense_Mutation_p.V105I|MYO7B_ENST00000428314.1_Missense_Mutation_p.V105I			Q6PIF6	MYO7B_HUMAN	myosin VIIB	105	Myosin motor.					extracellular vesicular exosome (GO:0070062)|myosin complex (GO:0016459)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(2)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|lung(46)|ovary(3)|pancreas(1)|prostate(3)|urinary_tract(1)	75	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		CCTGGTGGCCGTCAACCCGTT	0.637																																																0													26	31	29					2																	128324245		2010	4165	6175	SO:0001583	missense	4648				CCDS46405.1	2q21.1	2011-09-27			ENSG00000169994	ENSG00000169994		"Myosins / Myosin superfamily : Class VII"	7607	protein-coding gene	gene with protein product		606541				8022818, 8884266	Standard	NM_001080527		Approved		uc002top.3	Q6PIF6	OTTHUMG00000153419	ENST00000409816.2:c.313G>A	2.37:g.128324245G>A	ENSP00000386461:p.Val105Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q14786|Q8TEE1	Missense_Mutation	SNP	ENST00000409816.2	37	CCDS46405.1	.	.	.	.	.	.	.	.	.	.	G	21.5	4.154856	0.78114	.	.	ENSG00000169994	ENST00000389524;ENST00000428314;ENST00000409816	D;D;D	0.89617	-2.54;-2.54;-2.54	5.55	5.55	0.83447	Myosin head, motor domain (3);	0.000000	0.64402	D	0.000002	D	0.91556	0.7333	L	0.60957	1.885	0.58432	D	0.999997	D	0.76494	0.999	P	0.62491	0.903	D	0.89338	0.3652	10	0.26408	T	0.33	.	13.7612	0.62968	0.0733:0.0:0.9266:0.0	.	105	Q6PIF6	MYO7B_HUMAN	I	105	ENSP00000374175:V105I;ENSP00000415090:V105I;ENSP00000386461:V105I	ENSP00000374175:V105I	V	+	1	0	MYO7B	128040715	1.000000	0.71417	0.992000	0.48379	0.928000	0.56348	4.885000	0.63142	2.595000	0.87683	0.561000	0.74099	GTC		0.637	MYO7B-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000331124.3	XM_291001		A	128324245	G	A	128324245	3	1	664	1	0	0	0	0	1	0	0	0	10090	1145	40	1	327	1	MYO7B	2	128324245	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	513246	128324245	114875128	125	41435										
RAB3GAP1	22930	ucsc.edu	37	chr2	135920123	135920123	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgtgcgctgcacctccttcAggtgctgcactatctggcaa	11	13	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:135920123A>G	ENST00000264158.8	+	20	2332		c.e20-1		RAB3GAP1_ENST00000539493.1_Splice_Site|RAB3GAP1_ENST00000442034.1_Splice_Site|ZRANB3_ENST00000412849.1_5'UTR|RAB3GAP1_ENST00000487003.1_Splice_Site	NM_012233.2	NP_036365.1	Q15042	RB3GP_HUMAN	RAB3 GTPase activating protein subunit 1 (catalytic)						brain development (GO:0007420)|camera-type eye development (GO:0043010)|establishment of protein localization to endoplasmic reticulum membrane (GO:0097051)|face morphogenesis (GO:0060325)|hypothalamus development (GO:0021854)|lipid particle organization (GO:0034389)|positive regulation of endoplasmic reticulum tubular network organization (GO:1903373)|positive regulation of GTP catabolic process (GO:0033126)|positive regulation of Rab GTPase activity (GO:0032851)|regulation of calcium ion-dependent exocytosis of neurotransmitter (GO:1903233)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of GTPase activity (GO:0043087)|regulation of short-term neuronal synaptic plasticity (GO:0048172)	cytoplasm (GO:0005737)|endoplasmic reticulum tubular network (GO:0071782)|extracellular vesicular exosome (GO:0070062)|protein complex (GO:0043234)	Rab GTPase activator activity (GO:0005097)|Rab GTPase binding (GO:0017137)			breast(1)|central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(5)|liver(1)|lung(10)|ovary(1)|prostate(1)|skin(3)|urinary_tract(1)	32				BRCA - Breast invasive adenocarcinoma(221;0.117)		CACCTCCTTCAGGTGCTGCAC	0.488																																																0													42	40	41					2																	135920123		2203	4300	6503	SO:0001630	splice_region_variant	22930			D31886	CCDS33294.1, CCDS54402.1	2q21.3	2013-07-09			ENSG00000115839	ENSG00000115839			17063	protein-coding gene	gene with protein product		602536				9030515, 15696165	Standard	NM_012233		Approved	RAB3GAP, KIAA0066, RAB3GAP130, WARBM1	uc010fnf.3	Q15042	OTTHUMG00000154889	ENST00000264158.8:c.2290-1A>G	2.37:g.135920123A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6H8Z3|C9J837|Q659F5|Q8TBB4	Splice_Site	SNP	ENST00000264158.8	37	CCDS33294.1	.	.	.	.	.	.	.	.	.	.	A	22.8	4.333142	0.81801	.	.	ENSG00000115839	ENST00000264158;ENST00000539493;ENST00000442034	.	.	.	6.06	6.06	0.98353	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.6093	0.84858	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	RAB3GAP1	135636593	1.000000	0.71417	1.000000	0.80357	0.868000	0.49771	8.574000	0.90763	2.324000	0.78689	0.533000	0.62120	.		0.488	RAB3GAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337514.2	NM_012233	Intron	G	135920123	A	G	135920123	5	3	664	1	0	0	0	0	0	0	1	0	12948	202	7	3	2366	3	RAB3GAP1	2	135920123	Splice_Site	SNP	A	TCGA-KN-8428-01A-11D-2310-10	7595878	135920123	107279250	126	41436										
LCT	3938	broad.mit.edu;bcgsc.ca	37	chr2	136547323	136547323	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cccactcaaaattgtccatcGcactccaaactgtgtatcct	4	15	1	0	rs183725992		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:136547323G>A	ENST00000264162.2	-	16	5391	c.5381C>T	c.(5380-5382)gCg>gTg	p.A1794V		NM_002299.2	NP_002290.2	P09848	LPH_HUMAN	lactase	1794	4 X approximate repeats.				carbohydrate metabolic process (GO:0005975)|polysaccharide digestion (GO:0044245)|small molecule metabolic process (GO:0044281)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	glycosylceramidase activity (GO:0017042)|lactase activity (GO:0000016)			breast(6)|central_nervous_system(3)|cervix(1)|endometrium(8)|kidney(2)|large_intestine(26)|lung(57)|ovary(7)|pancreas(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(4)	124				BRCA - Breast invasive adenocarcinoma(221;0.169)	Vitamin C(DB00126)	ATTGTCCATCGCACTCCAAAC	0.483													G|||	1	0.000199681	0.0	0.0014	5008	,	,		21694	0.0		0.0	False		,,,				2504	0.0															0													143	136	138					2																	136547323		2203	4300	6503	SO:0001583	missense	3938			X07994	CCDS2178.1	2q21	2014-09-17			ENSG00000115850	ENSG00000115850	3.2.1.108, 3.2.1.62		6530	protein-coding gene	gene with protein product		603202					Standard	NM_002299		Approved		uc002tuu.1	P09848	OTTHUMG00000131738	ENST00000264162.2:c.5381C>T	2.37:g.136547323G>A	ENSP00000264162:p.Ala1794Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZG58	Missense_Mutation	SNP	ENST00000264162.2	37	CCDS2178.1	1	4.578754578754579E-4	0	0.0	1	0.0027624309392265192	0	0.0	0	0.0	G	16.72	3.200915	0.58234	.	.	ENSG00000115850	ENST00000264162	T	0.29397	1.57	5.74	4.49	0.54785	Glycoside hydrolase, subgroup, catalytic domain (1);Glycoside hydrolase, superfamily (1);	0.758642	0.12190	N	0.491292	T	0.17492	0.0420	N	0.05012	-0.13	0.30009	N	0.81537	B	0.09022	0.002	B	0.12837	0.008	T	0.13818	-1.0495	10	0.52906	T	0.07	-0.198	10.5282	0.44960	0.9161:0.0:0.0839:0.0	.	1794	P09848	LPH_HUMAN	V	1794	ENSP00000264162:A1794V	ENSP00000264162:A1794V	A	-	2	0	LCT	136263793	1.000000	0.71417	0.709000	0.30452	0.987000	0.75469	5.364000	0.66110	0.885000	0.36088	-0.253000	0.11424	GCG		0.483	LCT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254657.1	NM_002299		A	136547323	G	A	136547323	3	1	664	1	0	0	0	0	1	0	0	0	8700	1087	38	1	410	1	LCT	2	136547323	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	627200	136547323	106652050	127	41437										
COBLL1	22837	broad.mit.edu;hgsc.bcm.edu	37	chr2	165578972	165578972	+	Frame_Shift_Del	DEL	A	A	-													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tactgcgttgaaaaaaactgAaaaaccctttattttctttc							TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:165578972delA	ENST00000392717.2	-	6	840	c.836delT	c.(835-837)ttcfs	p.F279fs	COBLL1_ENST00000409184.3_Frame_Shift_Del_p.F279fs|COBLL1_ENST00000491126.2_Intron|COBLL1_ENST00000342193.4_Frame_Shift_Del_p.F241fs|COBLL1_ENST00000375458.2_Frame_Shift_Del_p.F241fs|COBLL1_ENST00000194871.6_Frame_Shift_Del_p.F307fs			Q53SF7	COBL1_HUMAN	cordon-bleu WH2 repeat protein-like 1	279						extracellular vesicular exosome (GO:0070062)				central_nervous_system(2)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(12)|liver(1)|lung(12)|ovary(3)|pancreas(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)	47						AAAAAAACTGAAAAACCCTTT	0.284																																																0													63	69	67					2																	165578972		2202	4299	6501	SO:0001589	frameshift_variant	22837			AB023194	CCDS2223.2, CCDS63045.1	2q24.3	2012-12-07	2012-12-07		ENSG00000082438	ENSG00000082438			23571	protein-coding gene	gene with protein product		610318	"COBL-like 1"				Standard	NM_001278458		Approved	KIAA0977	uc002ucp.3	Q53SF7	OTTHUMG00000074019	ENST00000392717.2:c.836delT	2.37:g.165578972delA	ENSP00000376478:p.Phe279fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMZ3|Q6IQ33|Q7Z3I6|Q9BRH4|Q9UG88|Q9Y2I3	Frame_Shift_Del	DEL	ENST00000392717.2	37																																																																																					0.284	COBLL1-202	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_014900		-	165578972	A	-	165578972	7	5	664	1	0	1	0	1	0	0	0	0	3656	246	9	0	2818	0	COBLL1	2	165578972	Frame_Shift_Del	DEL	A	TCGA-KN-8428-01A-11D-2310-10	29031649	165578972	77620401	128	41438	394	2								
COBLL1	22837	bcgsc.ca	37	chr2	165578973	165578973	+	Frame_Shift_Del	DEL	A	A	-													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	actgcgttgaaaaaaactgaAaaaccctttattttctttct							TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:165578973delA	ENST00000392717.2	-	6	839	c.835delT	c.(835-837)ttcfs	p.F279fs	COBLL1_ENST00000409184.3_Frame_Shift_Del_p.F279fs|COBLL1_ENST00000491126.2_Intron|COBLL1_ENST00000342193.4_Frame_Shift_Del_p.F241fs|COBLL1_ENST00000375458.2_Frame_Shift_Del_p.F241fs|COBLL1_ENST00000194871.6_Frame_Shift_Del_p.F307fs			Q53SF7	COBL1_HUMAN	cordon-bleu WH2 repeat protein-like 1	279						extracellular vesicular exosome (GO:0070062)				central_nervous_system(2)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(12)|liver(1)|lung(12)|ovary(3)|pancreas(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)	47						AAAAAACTGAAAAACCCTTTA	0.284																																																0													63	69	67					2																	165578973		2202	4299	6501	SO:0001589	frameshift_variant	22837			AB023194	CCDS2223.2, CCDS63045.1	2q24.3	2012-12-07	2012-12-07		ENSG00000082438	ENSG00000082438			23571	protein-coding gene	gene with protein product		610318	"COBL-like 1"				Standard	NM_001278458		Approved	KIAA0977	uc002ucp.3	Q53SF7	OTTHUMG00000074019	ENST00000392717.2:c.835delT	2.37:g.165578973delA	ENSP00000376478:p.Phe279fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMZ3|Q6IQ33|Q7Z3I6|Q9BRH4|Q9UG88|Q9Y2I3	Frame_Shift_Del	DEL	ENST00000392717.2	37																																																																																					0.284	COBLL1-202	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_014900		-	165578973	A	-	165578973	7	5	664	1	0	1	0	1	0	0	0	0	3656	14	1	0	2819	0	COBLL1	2	165578973	Frame_Shift_Del	DEL	A	TCGA-KN-8428-01A-11D-2310-10	1	165578973	77620400	129	41439	394	2								
XIRP2	129446	broad.mit.edu	37	chr2	168100185	168100185	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaaactgttcacagagaagaCgttgaaaagggagatgtaag	12	4	1	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:168100185C>T	ENST00000409195.1	+	9	2372	c.2283C>T	c.(2281-2283)gaC>gaT	p.D761D	XIRP2_ENST00000409043.1_Intron|XIRP2_ENST00000409728.1_Intron|XIRP2_ENST00000409756.2_Intron|XIRP2_ENST00000409605.1_Intron|XIRP2_ENST00000420519.1_Intron|XIRP2_ENST00000409273.1_Silent_p.D539D|XIRP2_ENST00000295237.9_Silent_p.D761D	NM_152381.5	NP_689594.4	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2	586					actin cytoskeleton organization (GO:0030036)|cardiac muscle tissue morphogenesis (GO:0055008)|cell-cell junction organization (GO:0045216)|ventricular septum development (GO:0003281)	cell junction (GO:0030054)|Z disc (GO:0030018)				NS(3)|biliary_tract(2)|breast(5)|cervix(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(51)|lung(160)|ovary(7)|pancreas(3)|prostate(11)|skin(14)|stomach(5)|upper_aerodigestive_tract(8)|urinary_tract(7)	315						ACAGAGAAGACGTTGAAAAGG	0.363																																																0													72	67	69					2																	168100185		1861	4088	5949	SO:0001819	synonymous_variant	129446			AK056582	CCDS42768.1, CCDS42769.1, CCDS56143.1, CCDS56144.1, CCDS56145.1	2q31.1	2013-10-25	2007-06-27	2007-06-27	ENSG00000163092	ENSG00000163092			14303	protein-coding gene	gene with protein product	"myomaxin"	609778	"cardiomyopathy associated 3"	CMYA3		17046827, 12203715, 15454575	Standard	NM_001079810		Approved		uc002udx.3	A4UGR9	OTTHUMG00000154027	ENST00000409195.1:c.2283C>T	2.37:g.168100185C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJ94|B2BBS0|B2BBS1|B2BBS4|B3KVH0|J3KNB1|Q53R52|Q5MJ67|Q702N7|Q86T36|Q86T38|Q86T46|Q86T51|Q86T53|Q86T55|Q86T79|Q86TB6|Q8N1M9|Q8N3R5|Q8TBV6	Silent	SNP	ENST00000409195.1	37	CCDS42769.1																																																																																				0.363	XIRP2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000333547.1	NM_152381		T	168100185	C	T	168100185	2	4	664	1	0	0	0	0	0	0	0	1	17442	535	19	1		1	XIRP2	2	168100185	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2521212	168100185	75099188	130	41440										
METTL8	79828	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	172182369	172182369	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accttttgtaaagaaatatgCtctggtaccatctcctcgaa	6	10	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:172182369C>G	ENST00000375258.4	-	9	1230	c.1015G>C	c.(1015-1017)Gca>Cca	p.A339P	METTL8_ENST00000463392.1_5'UTR	NM_024770.3	NP_079046.2	Q9H825	METL8_HUMAN	methyltransferase like 8	0						cytoplasm (GO:0005737)|nucleus (GO:0005634)	methyltransferase activity (GO:0008168)			breast(1)|endometrium(2)|large_intestine(3)|lung(4)|ovary(1)	11						AAGAAATATGCTCTGGTACCA	0.289																																																0													45	45	45					2																	172182369		2199	4294	6493	SO:0001583	missense	79828			AK024046	CCDS2242.1, CCDS2242.2	2q31.1	2012-06-12			ENSG00000123600	ENSG00000123600			25856	protein-coding gene	gene with protein product	"tension-induced/inhibited protein"	609525				15992539	Standard	NM_024770		Approved	FLJ13984, TIP	uc010zdo.2	Q9H825	OTTHUMG00000132261	ENST00000375258.4:c.1015G>C	2.37:g.172182369C>G	ENSP00000364407:p.Ala339Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q53TM9|Q53TQ0	Missense_Mutation	SNP	ENST00000375258.4	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	25.0|25.0	4.593825|4.593825	0.86953|0.86953	.|.	.|.	ENSG00000123600|ENSG00000123600	ENST00000375258|ENST00000438609	T|.	0.04049|.	3.72|.	5.59|5.59	5.59|5.59	0.84812|0.84812	.|.	0.187532|.	0.47455|.	D|.	0.000222|.	T|T	0.79787|0.79787	0.4506|0.4506	M|M	0.83223|0.83223	2.63|2.63	0.34421|0.34421	D|D	0.697469|0.697469	D;D|.	0.71674|.	0.998;0.995|.	D;P|.	0.64877|.	0.93;0.806|.	D|D	0.85163|0.85163	0.0993|0.0993	10|5	0.66056|.	D|.	0.02|.	-6.4851|-6.4851	19.597|19.597	0.95544|0.95544	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	294;339|.	B4DLT0;B3KW44|.	.;.|.	P|T	339|174	ENSP00000364407:A339P|.	ENSP00000364407:A339P|.	A|S	-|-	1|2	0|0	METTL8|METTL8	171890615|171890615	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.991000|0.991000	0.79684|0.79684	5.366000|5.366000	0.66122|0.66122	2.631000|2.631000	0.89168|0.89168	0.650000|0.650000	0.86243|0.86243	GCA|AGC		0.289	METTL8-001	PUTATIVE	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000255345.3	NM_024770		G	172182369	C	G	172182369	3	3	664	1	0	0	0	0	1	0	0	0	9514	797	28	4	216	4	METTL8	2	172182369	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4082184	172182369	71017004	131	41441										
TTN	7273	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr2	179460285	179460285	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtctcaacaaatggacccaTgccaatactattttcagccg	6	12	2	0	rs372963343		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:179460285T>C	ENST00000591111.1	-	245	53097	c.52873A>G	c.(52873-52875)Atg>Gtg	p.M17625V	TTN-AS1_ENST00000592750.1_RNA|TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000589907.1_RNA|TTN_ENST00000342992.6_Missense_Mutation_p.M16698V|TTN-AS1_ENST00000591332.1_RNA|TTN-AS1_ENST00000592689.1_RNA|TTN-AS1_ENST00000586452.1_RNA|TTN_ENST00000359218.5_Missense_Mutation_p.M10326V|TTN-AS1_ENST00000592630.1_RNA|TTN_ENST00000342175.6_Missense_Mutation_p.M10393V|TTN-AS1_ENST00000590807.1_RNA|TTN-AS1_ENST00000456053.1_RNA|TTN-AS1_ENST00000419746.1_RNA|TTN-AS1_ENST00000589234.1_RNA|TTN-AS1_ENST00000590932.1_RNA|TTN_ENST00000460472.2_Missense_Mutation_p.M10201V|TTN_ENST00000589042.1_Missense_Mutation_p.M19266V|TTN-AS1_ENST00000589830.1_RNA			Q8WZ42	TITIN_HUMAN	titin	17625	Fibronectin type-III 27. {ECO:0000255|PROSITE-ProRule:PRU00316}.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AATGGACCCATGCCAATACTA	0.373																																																0								T	VAL/MET,VAL/MET,VAL/MET,VAL/MET	0,3712		0,0,1856	41	39	39		31177,30976,50092,30601	4.9	1	2		39	1,8197		0,1,4098	no	missense,missense,missense,missense	TTN	NM_133437.3,NM_133432.3,NM_133378.4,NM_003319.4	21,21,21,21	0,1,5954	CC,CT,TT		0.0122,0.0,0.0084	benign,benign,benign,benign	10393/27119,10326/27052,16698/33424,10201/26927	179460285	1,11909	1856	4099	5955	SO:0001583	missense	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.52873A>G	2.37:g.179460285T>C	ENSP00000465570:p.Met17625Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	T	14.31	2.496259	0.44352	0.0	1.22E-4	ENSG00000155657	ENST00000342992;ENST00000460472;ENST00000342175;ENST00000359218;ENST00000356127	T;T;T;T	0.51574	0.7;0.7;0.7;0.7	6.07	4.9	0.64082	Fibronectin, type III (4);Peptidase C2, calpain, large subunit, domain III (1);Ribonuclease H-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.23611	0.0571	N	0.01410	-0.885	0.33765	D	0.622356	B;B;B;B	0.09022	0.002;0.002;0.002;0.002	B;B;B;B	0.14578	0.006;0.006;0.011;0.011	T	0.22591	-1.0212	9	0.87932	D	0	.	13.5887	0.61946	0.0:0.0:0.1296:0.8704	.	10201;10326;10393;17625	D3DPF9;E7EQE6;E7ET18;Q8WZ42	.;.;.;TITIN_HUMAN	V	16698;10201;10393;10326;10199	ENSP00000343764:M16698V;ENSP00000434586:M10201V;ENSP00000340554:M10393V;ENSP00000352154:M10326V	ENSP00000340554:M10393V	M	-	1	0	TTN	179168531	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.991000	0.88244	1.099000	0.41499	0.477000	0.44152	ATG		0.373	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		C	179460285	T	C	179460285	3	2	664	1	0	0	0	0	1	0	0	0	16747	1464	51	3	50455	3	TTN	2	179460285	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	7277916	179460285	63739088	132	41442										
TTN	7273	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr2	179578856	179578856	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccaaggtacaggtgtctccCgtggtaacttttatggattc	10	9	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:179578856C>T	ENST00000591111.1	-	90	25802	c.25578G>A	c.(25576-25578)acG>acA	p.T8526T	TTN-AS1_ENST00000585451.1_RNA|TTN_ENST00000342992.6_Silent_p.T7599T|TTN_ENST00000359218.5_Intron|TTN-AS1_ENST00000592630.1_RNA|TTN_ENST00000342175.6_Intron|TTN-AS1_ENST00000431752.1_RNA|TTN_ENST00000460472.2_Intron|TTN_ENST00000589042.1_Silent_p.T8843T|TTN-AS1_ENST00000589830.1_RNA			Q8WZ42	TITIN_HUMAN	titin	12691	Ig-like 68.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)	p.T7599T(1)		NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGGTGTCTCCCGTGGTAACTT	0.378																																																1	Substitution - coding silent(1)	central_nervous_system(1)											69	63	65					2																	179578856		1834	4090	5924	SO:0001819	synonymous_variant	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.25578G>A	2.37:g.179578856C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Silent	SNP	ENST00000591111.1	37																																																																																					0.378	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		T	179578856	C	T	179578856	2	4	664	1	0	0	0	0	0	0	0	1	16747	639	23	1		1	TTN	2	179578856	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	118571	179578856	63620517	133	41443										
STAT1	6772	ucsc.edu;bcgsc.ca	37	chr2	191848415	191848415	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaaaggatggaggcccaacCgctcgggagctggctgacgt	15	12	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:191848415C>T	ENST00000361099.3	-	17	1786	c.1399G>A	c.(1399-1401)Ggt>Agt	p.G467S	STAT1_ENST00000392323.2_Missense_Mutation_p.G469S|STAT1_ENST00000392322.3_Missense_Mutation_p.G467S|STAT1_ENST00000540176.1_3'UTR|STAT1_ENST00000409465.1_Missense_Mutation_p.G467S	NM_007315.3	NP_009330.1	P42224	STAT1_HUMAN	signal transducer and activator of transcription 1, 91kDa	467					apoptotic process (GO:0006915)|blood circulation (GO:0008015)|cellular response to insulin stimulus (GO:0032869)|cellular response to interferon-beta (GO:0035458)|cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|interferon-gamma-mediated signaling pathway (GO:0060333)|JAK-STAT cascade (GO:0007259)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|lipopolysaccharide-mediated signaling pathway (GO:0031663)|metanephric mesenchymal cell differentiation (GO:0072162)|metanephric mesenchymal cell proliferation involved in metanephros development (GO:0072136)|negative regulation of angiogenesis (GO:0016525)|negative regulation of endothelial cell proliferation (GO:0001937)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of macrophage fusion (GO:0034240)|negative regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis (GO:0003340)|negative regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072308)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of smooth muscle cell proliferation (GO:0048661)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of apoptotic process (GO:0042981)|regulation of interferon-gamma-mediated signaling pathway (GO:0060334)|regulation of type I interferon-mediated signaling pathway (GO:0060338)|renal tubule development (GO:0061326)|response to cAMP (GO:0051591)|response to cytokine (GO:0034097)|response to drug (GO:0042493)|response to exogenous dsRNA (GO:0043330)|response to hydrogen peroxide (GO:0042542)|response to mechanical stimulus (GO:0009612)|response to nutrient (GO:0007584)|response to peptide hormone (GO:0043434)|transcription from RNA polymerase II promoter (GO:0006366)|tumor necrosis factor-mediated signaling pathway (GO:0033209)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|nuclear chromatin (GO:0000790)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|double-stranded DNA binding (GO:0003690)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|protein homodimerization activity (GO:0042803)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity (GO:0000983)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)|tumor necrosis factor receptor binding (GO:0005164)			autonomic_ganglia(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(5)|kidney(2)|large_intestine(6)|lung(13)|ovary(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	39			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)			GAGGCCCAACCGCTCGGGAGC	0.527																																																0													114	108	110					2																	191848415		2203	4300	6503	SO:0001583	missense	6772				CCDS2309.1, CCDS42793.1	2q32.2-q32.3	2014-09-17	2002-08-29		ENSG00000115415	ENSG00000115415		"SH2 domain containing"	11362	protein-coding gene	gene with protein product	"transcription factor ISGF-3 components p91/p84"	600555	"signal transducer and activator of transcription 1, 91kD"			7885841	Standard	NM_139266		Approved	STAT91, ISGF-3	uc002usj.2	P42224	OTTHUMG00000132699	ENST00000361099.3:c.1399G>A	2.37:g.191848415C>T	ENSP00000354394:p.Gly467Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K989|B2RCA0|D2KFR8|D3DPI7|Q53S88|Q53XW4|Q68D00|Q9UDL5	Missense_Mutation	SNP	ENST00000361099.3	37	CCDS2309.1	.	.	.	.	.	.	.	.	.	.	C	26.7	4.763457	0.89932	.	.	ENSG00000115415	ENST00000361099;ENST00000409465;ENST00000392322;ENST00000392323	T;T;T;T	0.76839	-1.05;-1.05;-1.05;-1.05	5.19	5.19	0.71726	STAT transcription factor, DNA-binding (1);p53-like transcription factor, DNA-binding (1);EF-hand-like domain (1);	0.044894	0.85682	D	0.000000	D	0.84352	0.5453	L	0.46614	1.455	0.80722	D	1	D;P	0.71674	0.998;0.581	D;B	0.66351	0.943;0.227	D	0.83613	0.0135	10	0.48119	T	0.1	-22.6387	19.2755	0.94030	0.0:1.0:0.0:0.0	.	467;467	P42224-2;P42224	.;STAT1_HUMAN	S	467;467;467;469	ENSP00000354394:G467S;ENSP00000386244:G467S;ENSP00000376136:G467S;ENSP00000376137:G469S	ENSP00000354394:G467S	G	-	1	0	STAT1	191556660	1.000000	0.71417	0.244000	0.24202	0.510000	0.34073	7.609000	0.82925	2.865000	0.98341	0.655000	0.94253	GGT		0.527	STAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255997.3	NM_007315		T	191848415	C	T	191848415	3	4	664	1	0	0	0	0	1	0	0	0	15276	652	23	1	893	1	STAT1	2	191848415	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	12269559	191848415	51350958	134	41444										
HSPD1	3329	broad.mit.edu;bcgsc.ca	37	chr2	198353083	198353083	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggagtcaatgagtccaaggCtggaatgcatcgaaggaggg	16	6	1	1	rs531108523		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:198353083C>T	ENST00000388968.3	-	10	1615	c.1348G>A	c.(1348-1350)Gcc>Acc	p.A450T	HSPD1_ENST00000345042.2_Missense_Mutation_p.A450T	NM_002156.4	NP_002147.2	P10809	CH60_HUMAN	heat shock 60kDa protein 1 (chaperonin)	450					'de novo' protein folding (GO:0006458)|activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|ATP catabolic process (GO:0006200)|B cell activation (GO:0042113)|B cell cytokine production (GO:0002368)|B cell proliferation (GO:0042100)|chaperone-mediated protein complex assembly (GO:0051131)|isotype switching to IgG isotypes (GO:0048291)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|negative regulation of apoptotic process (GO:0043066)|positive regulation of apoptotic process (GO:0043065)|positive regulation of interferon-alpha production (GO:0032727)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interleukin-10 production (GO:0032733)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of macrophage activation (GO:0043032)|positive regulation of T cell activation (GO:0050870)|positive regulation of T cell mediated immune response to tumor cell (GO:0002842)|protein maturation (GO:0051604)|protein refolding (GO:0042026)|protein stabilization (GO:0050821)|response to unfolded protein (GO:0006986)|T cell activation (GO:0042110)|viral process (GO:0016032)	cell surface (GO:0009986)|coated pit (GO:0005905)|coated vesicle (GO:0030135)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|early endosome (GO:0005769)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|lipopolysaccharide receptor complex (GO:0046696)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|secretory granule (GO:0030141)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|chaperone binding (GO:0051087)|DNA replication origin binding (GO:0003688)|double-stranded RNA binding (GO:0003725)|lipopolysaccharide binding (GO:0001530)|p53 binding (GO:0002039)|poly(A) RNA binding (GO:0044822)|single-stranded DNA binding (GO:0003697)|unfolded protein binding (GO:0051082)			NS(1)|breast(3)|endometrium(2)|large_intestine(3)|lung(7)|skin(1)	17			Epithelial(96;0.225)			GAGTCCAAGGCTGGAATGCAT	0.393																																																0													52	50	51					2																	198353083		2203	4300	6503	SO:0001583	missense	3329			M34664	CCDS33357.1	2q33.1	2011-09-02	2002-08-29		ENSG00000144381	ENSG00000144381		"Heat Shock Proteins / Chaperonins"	5261	protein-coding gene	gene with protein product		118190	"heat shock 60kD protein 1 (chaperonin)", "spastic paraplegia 13 (autosomal dominant)"	SPG13		1980192, 11898127	Standard	NM_002156		Approved	GROEL, HSP60	uc002uui.3	P10809	OTTHUMG00000154463	ENST00000388968.3:c.1348G>A	2.37:g.198353083C>T	ENSP00000373620:p.Ala450Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5M6|B7Z712|Q38L19|Q9UCR6	Missense_Mutation	SNP	ENST00000388968.3	37	CCDS33357.1	.	.	.	.	.	.	.	.	.	.	C	17.74	3.465020	0.63513	.	.	ENSG00000144381	ENST00000388968;ENST00000345042	T;T	0.79033	-1.23;-1.23	5.39	5.39	0.77823	.	0.148886	0.64402	D	0.000014	T	0.81550	0.4846	M	0.63428	1.95	0.80722	D	1	B;B;P	0.40000	0.026;0.026;0.698	B;B;P	0.45753	0.056;0.056;0.492	T	0.81627	-0.0847	10	0.49607	T	0.09	-3.9209	19.5044	0.95110	0.0:1.0:0.0:0.0	.	441;450;450	B7Z597;B3GQS7;P10809	.;.;CH60_HUMAN	T	450	ENSP00000373620:A450T;ENSP00000340019:A450T	ENSP00000340019:A450T	A	-	1	0	HSPD1	198061328	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	3.512000	0.53407	2.685000	0.91497	0.555000	0.69702	GCC		0.393	HSPD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335324.2	NM_002156		T	198353083	C	T	198353083	3	4	664	1	0	0	0	0	1	0	0	0	7435	797	28	2	385	2	HSPD1	2	198353083	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	6504668	198353083	44846290	135	41445										
NBEAL1	65065	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	204002940	204002940	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaaacagagaagcaaaaactAatccagtaactgctgaaaac	6	8	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:204002940A>G	ENST00000449802.1	+	29	4867	c.4534A>G	c.(4534-4536)Aat>Gat	p.N1512D		NM_001114132.1	NP_001107604.1	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1	1512										NS(1)|breast(3)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(8)|liver(1)|lung(8)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	37						AGCAAAAACTAATCCAGTAAC	0.393																																																0													96	86	89					2																	204002940		1854	4093	5947	SO:0001583	missense	65065			AY172970	CCDS46495.1	2q33	2013-01-10			ENSG00000144426	ENSG00000144426		"WD repeat domain containing"	20681	protein-coding gene	gene with protein product		609816	"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 17", "amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 16"	ALS2CR17, ALS2CR16		15193433	Standard	NM_001114132		Approved	MGC164581	uc002uzt.3	Q6ZS30	OTTHUMG00000154129	ENST00000449802.1:c.4534A>G	2.37:g.204002940A>G	ENSP00000399903:p.Asn1512Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHD5|Q6Y876|Q6ZP36|Q6ZQY5|Q8N8R4|Q96Q30|Q96Q31	Missense_Mutation	SNP	ENST00000449802.1	37	CCDS46495.1	.	.	.	.	.	.	.	.	.	.	A	7.467	0.645890	0.14451	.	.	ENSG00000144426	ENST00000449802;ENST00000340268	T	0.52295	0.67	5.61	5.61	0.85477	.	0.339152	0.26156	N	0.026006	T	0.35508	0.0934	L	0.40543	1.245	0.09310	N	1	B;B	0.19817	0.039;0.039	B;B	0.16722	0.016;0.016	T	0.22208	-1.0223	10	0.09843	T	0.71	.	11.1297	0.48339	0.7252:0.2748:0.0:0.0	.	1512;1501	Q6ZS30;C9JGK5	NBEL1_HUMAN;.	D	1512	ENSP00000399903:N1512D	ENSP00000344985:N1512D	N	+	1	0	NBEAL1	203711185	0.982000	0.34865	0.669000	0.29828	0.995000	0.86356	5.109000	0.64615	2.141000	0.66446	0.533000	0.62120	AAT		0.393	NBEAL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333982.4			G	204002940	A	G	204002940	3	3	664	1	0	0	0	0	1	0	0	0	10195	362	13	3	4644	3	NBEAL1	2	204002940	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	5649857	204002940	39196433	136	41446										
PIKFYVE	200576	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	209214769	209214769	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgaagtagatggaggagataCacaaaagaagcaactcataa	10	5	1	4	rs147015179		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:209214769C>T	ENST00000264380.4	+	36	5554	c.5396C>T	c.(5395-5397)aCa>aTa	p.T1799I		NM_015040.3	NP_055855.2	Q9Y2I7	FYV1_HUMAN	phosphoinositide kinase, FYVE finger containing	1799	PIPK. {ECO:0000255|PROSITE- ProRule:PRU00781}.				cellular protein metabolic process (GO:0044267)|intracellular signal transduction (GO:0035556)|myelin assembly (GO:0032288)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol phosphorylation (GO:0046854)|phosphatidylinositol-3-phosphate biosynthetic process (GO:0036092)|phospholipid metabolic process (GO:0006644)|protein localization to nucleus (GO:0034504)|retrograde transport, endosome to Golgi (GO:0042147)|small molecule metabolic process (GO:0044281)	cell-cell junction (GO:0005911)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|early endosome membrane (GO:0031901)|endosome membrane (GO:0010008)|Golgi membrane (GO:0000139)|late endosome membrane (GO:0031902)|membrane raft (GO:0045121)|perinuclear region of cytoplasm (GO:0048471)|vesicle membrane (GO:0012506)	1-phosphatidylinositol-3-phosphate 5-kinase activity (GO:0000285)|1-phosphatidylinositol-4-phosphate 5-kinase activity (GO:0016308)|ATP binding (GO:0005524)|phosphatidylinositol-3,5-bisphosphate 5-phosphatase activity (GO:0043813)|zinc ion binding (GO:0008270)	p.T1799I(1)		NS(1)|autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(14)|kidney(6)|large_intestine(25)|lung(40)|ovary(7)|pancreas(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	107						GGAGGAGATACACAAAAGAAG	0.348													C|||	1	0.000199681	0.0	0.0014	5008	,	,		13680	0.0		0.0	False		,,,				2504	0.0															1	Substitution - Missense(1)	large_intestine(1)						C	ILE/THR	1,4405	2.1+/-5.4	0,1,2202	115	117	116		5396	4.9	1	2	dbSNP_134	116	0,8598		0,0,4299	no	missense	PIKFYVE	NM_015040.3	89	0,1,6501	TT,TC,CC		0.0,0.0227,0.0077	benign	1799/2099	209214769	1,13003	2203	4299	6502	SO:0001583	missense	200576			AB023198	CCDS2382.1, CCDS33368.1, CCDS54431.1	2q34	2014-01-15	2009-04-17	2009-04-17	ENSG00000115020	ENSG00000115020		"Zinc fingers, FYVE domain containing"	23785	protein-coding gene	gene with protein product	"zinc finger, FYVE domain containing 29"	609414	"phosphatidylinositol-3-phosphate/phosphatidylinositol 5-kinase, type III"	PIP5K3		9858586, 12270933	Standard	NM_015040		Approved	MGC40423, KIAA0981, PIKfyve, PIP5K, p235, ZFYVE29, FAB1	uc002vcz.3	Q9Y2I7	OTTHUMG00000132945	ENST00000264380.4:c.5396C>T	2.37:g.209214769C>T	ENSP00000264380:p.Thr1799Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q08AR7|Q08AR8|Q53ST3|Q53T36|Q8N5H0|Q8NB67	Missense_Mutation	SNP	ENST00000264380.4	37	CCDS2382.1	1	4.578754578754579E-4	0	0.0	1	0.0027624309392265192	0	0.0	0	0.0	C	14.04	2.417161	0.42918	2.27E-4	0.0	ENSG00000115020	ENST00000264380	T	0.29397	1.57	5.75	4.87	0.63330	Phosphatidylinositol-4-phosphate 5-kinase, core (1);Phosphatidylinositol-4-phosphate 5-kinase, core, subgroup (1);	0.527367	0.21560	N	0.072593	T	0.16685	0.0401	N	0.14661	0.345	0.80722	D	1	B	0.17038	0.02	B	0.15484	0.013	T	0.07195	-1.0785	10	0.37606	T	0.19	0.2043	6.1812	0.20472	0.1366:0.6582:0.1323:0.0728	.	1799	Q9Y2I7	FYV1_HUMAN	I	1799	ENSP00000264380:T1799I	ENSP00000264380:T1799I	T	+	2	0	PIKFYVE	208923014	0.996000	0.38824	0.959000	0.39883	0.981000	0.71138	2.550000	0.45811	1.436000	0.47453	0.655000	0.94253	ACA		0.348	PIKFYVE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256477.2	NM_015040		T	209214769	C	T	209214769	3	4	664	1	0	0	0	0	1	0	0	0	11931	478	17	2	5545	2	PIKFYVE	2	209214769	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5211829	209214769	33984604	137	41447										
ACCN4	55515	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	220379312	220379312	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctcgggcccccaccctgtcCctgtcctcttcccgcttgcc	7	23	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:220379312C>A	ENST00000347842.3	+	1	261	c.247C>A	c.(247-249)Cct>Act	p.P83T	AC053503.11_ENST00000429882.1_RNA|ASIC4_ENST00000358078.4_Missense_Mutation_p.P83T	NM_182847.2	NP_878267.2	Q96FT7	ASIC4_HUMAN	acid-sensing (proton-gated) ion channel family member 4	83					ion transmembrane transport (GO:0034220)|sodium ion transmembrane transport (GO:0035725)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)	ion channel activity (GO:0005216)|sodium channel activity (GO:0005272)|sodium ion transmembrane transporter activity (GO:0015081)										CCACCCTGTCCCTGTCCTCTT	0.687																																																0													12	13	13					2																	220379312		2190	4291	6481	SO:0001583	missense	55515			AJ271643	CCDS2442.1	2q36.1	2012-02-22	2012-02-22	2012-02-22	ENSG00000072182	ENSG00000072182		"Ion channels / Acid-sensing (proton-gated) ion channels"	21263	protein-coding gene	gene with protein product		606715	"amiloride-sensitive cation channel 4, pituitary", "amiloride-sensitive cation channel family member 4, pituitary"	ACCN4		10852210	Standard	NM_182847		Approved	BNAC4	uc002vma.3	Q96FT7	OTTHUMG00000058928	ENST00000347842.3:c.247C>A	2.37:g.220379312C>A	ENSP00000326627:p.Pro83Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q53SB7|Q6GMS1|Q6PIN9|Q9NQA4	Missense_Mutation	SNP	ENST00000347842.3	37	CCDS2442.1	.	.	.	.	.	.	.	.	.	.	C	15.74	2.922747	0.52653	.	.	ENSG00000072182	ENST00000347842;ENST00000358078	T;T	0.67171	-0.24;-0.25	4.73	3.85	0.44370	.	.	.	.	.	T	0.45498	0.1345	N	0.08118	0	0.27326	N	0.956917	B;B;B	0.31174	0.063;0.103;0.311	B;B;B	0.30646	0.026;0.058;0.118	T	0.39722	-0.9600	9	0.49607	T	0.09	-2.4131	9.1116	0.36732	0.0:0.8966:0.0:0.1034	.	83;83;83	Q96FT7;Q96FT7-4;Q96FT7-2	ACCN4_HUMAN;.;.	T	83	ENSP00000326627:P83T;ENSP00000350786:P83T	ENSP00000326627:P83T	P	+	1	0	ACCN4	220087556	0.582000	0.26749	0.526000	0.27913	0.817000	0.46193	2.772000	0.47678	1.103000	0.41568	0.561000	0.74099	CCT		0.687	ASIC4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000130263.1	NM_018674		A	220379312	C	A	220379312	3	1	664	1	0	0	0	0	1	0	0	0	131	623	22	4	249	4	ACCN4	2	220379312	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	11164543	220379312	22820061	138	41448										
OBSL1	23363	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr2	220435086	220435086	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgcggtacatgaggcggcggCggtccgggagcagcgggcgg	22	11	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:220435086C>T	ENST00000404537.1	-	1	925	c.869G>A	c.(868-870)cGc>cAc	p.R290H	OBSL1_ENST00000603926.1_Missense_Mutation_p.R290H|OBSL1_ENST00000265318.4_Missense_Mutation_p.R290H|INHA_ENST00000243786.2_5'Flank|OBSL1_ENST00000491370.1_5'Flank|OBSL1_ENST00000373873.4_Missense_Mutation_p.R290H|OBSL1_ENST00000289656.3_Intron|OBSL1_ENST00000373876.1_Missense_Mutation_p.R290H|INHA_ENST00000489456.1_Intron	NM_015311.2	NP_056126.1	O75147	OBSL1_HUMAN	obscurin-like 1	290	Ig-like 3.				cardiac myofibril assembly (GO:0055003)|cytoskeleton organization (GO:0007010)|Golgi organization (GO:0007030)|microtubule cytoskeleton organization (GO:0000226)|positive regulation of dendrite morphogenesis (GO:0050775)|protein localization to Golgi apparatus (GO:0034067)|regulation of mitosis (GO:0007088)	3M complex (GO:1990393)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|intercalated disc (GO:0014704)|M band (GO:0031430)|perinuclear region of cytoplasm (GO:0048471)|Z disc (GO:0030018)	cytoskeletal adaptor activity (GO:0008093)						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)		GAGGCGGCGGCGGTCCGGGAG	0.682																																																0													20	26	24					2																	220435086		2007	4140	6147	SO:0001583	missense	23363			BC007201	CCDS46520.1, CCDS54433.1, CCDS63134.1	2q35	2013-01-29			ENSG00000124006	ENSG00000124006		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	29092	protein-coding gene	gene with protein product		610991				9734811	Standard	NM_015311		Approved	KIAA0657	uc010fwk.3	O75147	OTTHUMG00000059157	ENST00000404537.1:c.869G>A	2.37:g.220435086C>T	ENSP00000385636:p.Arg290His	Somatic		WXS	Illumina HiSeq	Phase_I	A4KVA4|A4KVA5|Q96IW3|S4R3M6	Missense_Mutation	SNP	ENST00000404537.1	37	CCDS46520.1	.	.	.	.	.	.	.	.	.	.	C	35	5.526696	0.96431	.	.	ENSG00000124006	ENST00000265318;ENST00000404537;ENST00000373876;ENST00000373873	T;T;T;T	0.73047	-0.71;-0.71;-0.71;-0.71	4.39	4.39	0.52855	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.81182	0.4769	L	0.54965	1.715	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.82246	-0.0552	9	0.52906	T	0.07	.	17.4831	0.87679	0.0:1.0:0.0:0.0	.	290;290	O75147;O75147-2	OBSL1_HUMAN;.	H	290	ENSP00000265318:R290H;ENSP00000385636:R290H;ENSP00000362983:R290H;ENSP00000362980:R290H	ENSP00000265318:R290H	R	-	2	0	OBSL1	220143330	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	5.751000	0.68720	2.434000	0.82447	0.407000	0.27541	CGC		0.682	OBSL1-014	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322012.1			T	220435086	C	T	220435086	3	4	664	1	0	0	0	0	1	0	0	0	10820	768	27	1	5057	1	OBSL1	2	220435086	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	55774	220435086	22764287	139	41449										
DOCK10	55619	broad.mit.edu	37	chr2	225684245	225684245	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggtccataaatgtaaagcagCgctaaaatagataaaattct	7	6	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:225684245C>T	ENST00000258390.7	-	29	3252	c.3185G>A	c.(3184-3186)cGc>cAc	p.R1062H	DOCK10_ENST00000409592.3_Splice_Site_p.R1056H	NM_014689.2	NP_055504.2	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1062					regulation of cell migration (GO:0030334)|small GTPase mediated signal transduction (GO:0007264)	extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(1)|breast(3)|cervix(1)|endometrium(6)|kidney(10)|large_intestine(16)|lung(40)|ovary(2)|pancreas(1)|prostate(2)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	87		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)		TGTAAAGCAGCGCTAAAATAG	0.308																																																0													88	84	85					2																	225684245		1817	4072	5889	SO:0001630	splice_region_variant	55619			AB014594	CCDS46528.1, CCDS74661.1	2q36.3	2013-01-10			ENSG00000135905	ENSG00000135905		"Pleckstrin homology (PH) domain containing"	23479	protein-coding gene	gene with protein product	"zizimin3"	611518				12432077	Standard	NM_014689		Approved	ZIZ3, KIAA0694	uc010fwz.1	Q96BY6	OTTHUMG00000153428	ENST00000258390.7:c.3184-1G>A	2.37:g.225684245C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3FL70|O75178|Q9NW06|Q9NXI8	Missense_Mutation	SNP	ENST00000258390.7	37	CCDS46528.1	.	.	.	.	.	.	.	.	.	.	C	20.2	3.944537	0.73672	.	.	ENSG00000135905	ENST00000409592;ENST00000258390	T;T	0.24538	1.85;1.85	6.15	6.15	0.99193	.	0.000000	0.85682	D	0.000000	T	0.58864	0.2152	M	0.83118	2.625	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.994	T	0.60026	-0.7343	10	0.87932	D	0	.	20.8387	0.99724	0.0:1.0:0.0:0.0	.	1062;1056	Q96BY6;B3FL70	DOC10_HUMAN;.	H	1056;1062	ENSP00000386694:R1056H;ENSP00000258390:R1062H	ENSP00000258390:R1062H	R	-	2	0	DOCK10	225392489	1.000000	0.71417	1.000000	0.80357	0.272000	0.26649	4.856000	0.62932	2.932000	0.99384	0.643000	0.83706	CGC		0.308	DOCK10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331246.1		Missense_Mutation	T	225684245	C	T	225684245	5	4	664	1	0	0	0	0	0	0	1	0	4687	782	27	1	3487	1	DOCK10	2	225684245	Splice_Site	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5249159	225684245	17515128	140	41450										
PID1	55022	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	230127481	230127481	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctggagaagaacatgtcctcGactcttctaacatcaggtgg	10	10	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:230127481G>A	ENST00000392054.3	-	2	380	c.41C>T	c.(40-42)tCg>tTg	p.S14L	PID1_ENST00000392055.3_Intron|PID1_ENST00000409462.1_Intron	NM_017933.4	NP_060403.3	Q7Z2X4	PCLI1_HUMAN	phosphotyrosine interaction domain containing 1	0					cellular response to cytokine stimulus (GO:0071345)|cellular response to fatty acid (GO:0071398)|cellular response to interleukin-6 (GO:0071354)|cellular response to leptin stimulus (GO:0044320)|cellular response to tumor necrosis factor (GO:0071356)|energy reserve metabolic process (GO:0006112)|mitochondrion morphogenesis (GO:0070584)|negative regulation of ATP biosynthetic process (GO:2001170)|negative regulation of establishment of protein localization to plasma membrane (GO:0090005)|negative regulation of glucose import in response to insulin stimulus (GO:2001274)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of mitochondrial DNA replication (GO:0090298)|negative regulation of protein phosphorylation (GO:0001933)|positive regulation of ATP biosynthetic process (GO:2001171)|positive regulation of fat cell proliferation (GO:0070346)|positive regulation of gene expression (GO:0010628)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of G1/S transition of mitotic cell cycle (GO:2000045)|regulation of mitochondrial fusion (GO:0010635)|regulation of mitochondrial membrane potential (GO:0051881)|regulation of reactive oxygen species metabolic process (GO:2000377)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				breast(4)|endometrium(3)|large_intestine(5)|lung(8)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	26		Renal(207;0.0112)|all_lung(227;0.0191)|Lung NSC(271;0.0851)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.171)		Epithelial(121;3.08e-11)|all cancers(144;2.28e-08)|LUSC - Lung squamous cell carcinoma(224;0.0145)|Lung(261;0.0189)		acatgtcctcgactcttctaa	0.468																																																0													211	207	208					2																	230127481		1327	2309	3636	SO:0001583	missense	55022			AK096636	CCDS2471.1, CCDS42830.1	2q36.3	2007-02-02			ENSG00000153823	ENSG00000153823			26084	protein-coding gene	gene with protein product		612930				17124247, 16815647, 15221005	Standard	NM_001100818		Approved	NYGGF4, FLJ20701	uc002vps.4	Q7Z2X4	OTTHUMG00000133191	ENST00000392054.3:c.41C>T	2.37:g.230127481G>A	ENSP00000375907:p.Ser14Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KU82|Q68CJ2|Q6ZUS3|Q8IXL0|Q9NWP6	Missense_Mutation	SNP	ENST00000392054.3	37	CCDS2471.1	.	.	.	.	.	.	.	.	.	.	G	8.942	0.966064	0.18659	.	.	ENSG00000153823	ENST00000392054	.	.	.	2.98	-2.74	0.05932	.	.	.	.	.	T	0.21509	0.0518	.	.	.	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.21895	-1.0232	6	.	.	.	.	5.5214	0.16936	0.2302:0.493:0.2769:0.0	.	14	Q7Z2X4-2	.	L	14	.	.	S	-	2	0	PID1	229835725	0.000000	0.05858	0.000000	0.03702	0.005000	0.04900	-0.752000	0.04797	-0.680000	0.05211	-0.371000	0.07208	TCG		0.468	PID1-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000331809.1	NM_017933		A	230127481	G	A	230127481	3	1	664	1	0	0	0	0	1	0	0	0	11889	1059	37	1	717	1	PID1	2	230127481	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4443236	230127481	13071892	141	41451										
C2orf57	165100	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	232458786	232458786	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgtggagggcatccgctcagCcatgcgctacctgaccagcc	12	16	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:232458786C>T	ENST00000313965.2	+	1	1212	c.1124C>T	c.(1123-1125)gCc>gTc	p.A375V		NM_152614.2	NP_689827.2	Q53QW1	CB057_HUMAN	chromosome 2 open reading frame 57	375										endometrium(1)|kidney(2)|large_intestine(1)|lung(7)|ovary(1)|pancreas(1)|prostate(4)|skin(2)	19		Renal(207;0.025)|all_hematologic(139;0.0735)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;1.33e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)		ATCCGCTCAGCCATGCGCTAC	0.647																																																0													49	45	46					2																	232458786		2203	4300	6503	SO:0001583	missense	165100			BC034405	CCDS2487.1	2q37.1	2008-02-05			ENSG00000177673	ENSG00000177673			28563	protein-coding gene	gene with protein product						12477932	Standard	NM_152614		Approved	MGC35154	uc002vrz.3	Q53QW1	OTTHUMG00000133226	ENST00000313965.2:c.1124C>T	2.37:g.232458786C>T	ENSP00000315557:p.Ala375Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N4F2	Missense_Mutation	SNP	ENST00000313965.2	37	CCDS2487.1	.	.	.	.	.	.	.	.	.	.	C	14.63	2.593729	0.46214	.	.	ENSG00000177673	ENST00000313965	T	0.30448	1.53	5.15	5.15	0.70609	.	0.249622	0.21052	N	0.080972	T	0.43344	0.1243	L	0.29908	0.895	0.09310	N	0.999999	D	0.76494	0.999	D	0.76071	0.987	T	0.26883	-1.0090	10	0.72032	D	0.01	.	13.9928	0.64378	0.0:1.0:0.0:0.0	.	375	Q53QW1	CB057_HUMAN	V	375	ENSP00000315557:A375V	ENSP00000315557:A375V	A	+	2	0	C2orf57	232167030	0.629000	0.27146	0.081000	0.20488	0.037000	0.13140	3.303000	0.51858	2.683000	0.91414	0.557000	0.71058	GCC		0.647	C2orf57-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256962.1	NM_152614		T	232458786	C	T	232458786	3	4	664	1	0	0	0	0	1	0	0	0	2180	739	26	2	1126	2	C2orf57	2	232458786	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2331305	232458786	10740587	142	41452										
ILKAP	80895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	239079272	239079272	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gttgcaggctgcttcgtagcGggcgtcggctgcggacttcc	16	12	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr2:239079272G>A	ENST00000254654.3	-	12	1259	c.1084C>T	c.(1084-1086)Cgc>Tgc	p.R362C		NM_030768.2	NP_110395.1	Q9H0C8	ILKAP_HUMAN	integrin-linked kinase-associated serine/threonine phosphatase	362	PP2C-like.				protein dephosphorylation (GO:0006470)|regulation of nuclear cell cycle DNA replication (GO:0033262)	cytoplasm (GO:0005737)	metal ion binding (GO:0046872)|protein serine/threonine phosphatase activity (GO:0004722)			endometrium(1)|kidney(3)|large_intestine(5)|lung(4)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	19		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_lung(227;0.152)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;5.49e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.93e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.82e-08)|BRCA - Breast invasive adenocarcinoma(100;0.00012)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0163)		GCTTCGTAGCGGGCGTCGGCT	0.607																																																0													43	43	43					2																	239079272		2203	4300	6503	SO:0001583	missense	80895			AY024365	CCDS2526.1	2q37.3	2012-04-17	2010-10-25		ENSG00000132323	ENSG00000132323	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatases, Mg2+/Mn2+ dependent"	15566	protein-coding gene	gene with protein product			"integrin-linked kinase-associated serine/threonine phosphatase 2C"				Standard	NM_030768		Approved	DKFZP434J2031, FLJ10181	uc002vxv.3	Q9H0C8	OTTHUMG00000133334	ENST00000254654.3:c.1084C>T	2.37:g.239079272G>A	ENSP00000254654:p.Arg362Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KM39	Missense_Mutation	SNP	ENST00000254654.3	37	CCDS2526.1	.	.	.	.	.	.	.	.	.	.	G	17.74	3.464041	0.63513	.	.	ENSG00000132323	ENST00000254654	T	0.17691	2.26	5.69	4.74	0.60224	Protein phosphatase 2C-like (5);	0.112628	0.64402	D	0.000012	T	0.35422	0.0931	L	0.58101	1.795	0.54753	D	0.999988	D	0.76494	0.999	D	0.65443	0.935	T	0.01185	-1.1425	10	0.38643	T	0.18	-0.4038	15.2411	0.73471	0.0:0.0:0.8185:0.1815	.	362	Q9H0C8	ILKAP_HUMAN	C	362	ENSP00000254654:R362C	ENSP00000254654:R362C	R	-	1	0	ILKAP	238744011	1.000000	0.71417	1.000000	0.80357	0.719000	0.41307	3.097000	0.50251	2.688000	0.91661	0.563000	0.77884	CGC		0.607	ILKAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257163.2	NM_030768		A	239079272	G	A	239079272	3	1	664	1	0	0	0	0	1	0	0	0	7721	1116	39	1	98	1	ILKAP	2	239079272	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6620486	239079272	4120101	143	41453										
TRNT1	51095	broad.mit.edu	37	chr3	3179092	3179092	+	Silent	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tttcagtcggctgggattcgGatgataaacaacagaggaga	13	6	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:3179092G>C	ENST00000251607.6	+	3	399	c.297G>C	c.(295-297)cgG>cgC	p.R99R	TRNT1_ENST00000280591.6_Silent_p.R99R	NM_182916.2	NP_886552	Q96Q11	TRNT1_HUMAN	tRNA nucleotidyl transferase, CCA-adding, 1	99					protein targeting to mitochondrion (GO:0006626)|tRNA 3'-end processing (GO:0042780)|tRNA 3'-terminal CCA addition (GO:0001680)	intracellular (GO:0005622)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|ATP:3'-cytidine-cytidine-tRNA adenylyltransferase activity (GO:0052929)|CTP:3'-cytidine-tRNA cytidylyltransferase activity (GO:0052928)|CTP:tRNA cytidylyltransferase activity (GO:0052927)|tRNA adenylyltransferase activity (GO:0004810)|tRNA binding (GO:0000049)			breast(2)|endometrium(3)|large_intestine(4)|lung(2)|urinary_tract(1)	12				Epithelial(13;0.00226)|OV - Ovarian serous cystadenocarcinoma(96;0.00592)|all cancers(10;0.011)		CTGGGATTCGGATGATAAACA	0.393																																																0													78	81	80					3																	3179092		2203	4300	6503	SO:0001819	synonymous_variant	51095			AF151805	CCDS2561.2	3p25.1	2002-05-30			ENSG00000072756	ENSG00000072756	2.7.7.25		17341	protein-coding gene	gene with protein product		612907				10810093, 11504732	Standard	NM_182916		Approved	MtCCA, CGI-47, CCA1	uc003bpp.4	Q96Q11	OTTHUMG00000090259	ENST00000251607.6:c.297G>C	3.37:g.3179092G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K2Z6|B7WP13|C9JKA2|Q8ND57|Q9BS97|Q9Y362	Silent	SNP	ENST00000251607.6	37	CCDS2561.2																																																																																				0.393	TRNT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337616.1			C	3179092	G	C	3179092	2	2	664	1	0	0	0	0	0	0	0	1	16585	1161	41	4		4	TRNT1	3	3179092	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10		3179092	194843338	144	41454										
CIDEC	63924	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	9918797	9918797	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agccatgatgcccttcctcaCgcttcgatccgccgtgctta	8	16	1	1	rs148744468		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:9918797C>T	ENST00000336832.2	-	3	299	c.160G>A	c.(160-162)Gtg>Atg	p.V54M	CIDEC_ENST00000383817.1_Missense_Mutation_p.V54M|CIDEC_ENST00000443115.1_Missense_Mutation_p.V54M|CIDEC_ENST00000423850.1_Intron|CIDEC_ENST00000455015.1_Intron|CIDEC_ENST00000430427.1_Missense_Mutation_p.V54M	NM_001199552.1|NM_001199623.1|NM_022094.3	NP_001186481.1|NP_001186552.1|NP_071377.2	Q96AQ7	CIDEC_HUMAN	cell death-inducing DFFA-like effector c	54	CIDE-N. {ECO:0000255|PROSITE- ProRule:PRU00447}.				apoptotic process (GO:0006915)|execution phase of apoptosis (GO:0097194)|lipid particle organization (GO:0034389)|regulation of apoptotic process (GO:0042981)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|lipid particle (GO:0005811)|nucleus (GO:0005634)				breast(2)|central_nervous_system(1)|endometrium(1)|lung(2)|ovary(1)|skin(1)	8	Medulloblastoma(99;0.227)					CCCTTCCTCACGCTTCGATCC	0.647																																																0								C	MET/VAL,MET/VAL,MET/VAL,MET/VAL	0,4330		0,0,2165	54	42	46		160,160,199,160	1.5	0.1	3	dbSNP_134	46	1,8485		0,1,4242	no	missense,missense,missense,missense	CIDEC	NM_001199551.1,NM_001199552.1,NM_001199623.1,NM_022094.3	21,21,21,21	0,1,6407	TT,TC,CC		0.0118,0.0,0.0078	probably-damaging,probably-damaging,probably-damaging,probably-damaging	54/249,54/239,67/252,54/239	9918797	1,12815	2165	4243	6408	SO:0001583	missense	63924				CCDS2587.1, CCDS56239.1, CCDS74897.1	3p25	2004-07-26			ENSG00000187288	ENSG00000187288			24229	protein-coding gene	gene with protein product		612120				12429024	Standard	NM_001199623		Approved	CIDE-3, FLJ20871, Fsp27	uc021wsw.1	Q96AQ7	OTTHUMG00000128522	ENST00000336832.2:c.160G>A	3.37:g.9918797C>T	ENSP00000338642:p.Val54Met	Somatic		WXS	Illumina HiSeq	Phase_I	C9JMN7|Q67DW9|Q9GZY9	Missense_Mutation	SNP	ENST00000336832.2	37	CCDS2587.1	.	.	.	.	.	.	.	.	.	.	C	11.41	1.631938	0.29068	0.0	1.18E-4	ENSG00000187288	ENST00000336832;ENST00000383817;ENST00000430427;ENST00000443115	T;T;T;T	0.46451	0.87;0.87;0.87;0.87	5.3	1.45	0.22620	Caspase-activated nuclease CIDE-N (3);	0.483231	0.22273	N	0.062225	T	0.32556	0.0833	M	0.76574	2.34	0.09310	N	1	P;P;B	0.47034	0.889;0.586;0.063	B;B;B	0.34138	0.154;0.176;0.044	T	0.29941	-0.9995	10	0.45353	T	0.12	-14.8423	5.16	0.15056	0.0:0.4801:0.2798:0.2401	.	54;54;54	Q96AQ7-3;Q96AQ7;C9JMN7	.;CIDEC_HUMAN;.	M	54	ENSP00000338642:V54M;ENSP00000373328:V54M;ENSP00000408631:V54M;ENSP00000411356:V54M	ENSP00000338642:V54M	V	-	1	0	CIDEC	9893797	0.000000	0.05858	0.055000	0.19348	0.047000	0.14425	-0.264000	0.08658	0.377000	0.24735	-0.133000	0.14855	GTG		0.647	CIDEC-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000250334.1	NM_022094		T	9918797	C	T	9918797	3	4	664	1	0	0	0	0	1	0	0	0	3429	536	19	1	572	1	CIDEC	3	9918797	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	6739705	9918797	188103633	145	41455										
SLC6A11	6538	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr3	10960101	10960101	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcctgggttttatggcgtaCgagcagggggtacccattgc	15	9	0	0	rs144421280	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:10960101C>T	ENST00000254488.2	+	8	1149	c.1083C>T	c.(1081-1083)taC>taT	p.Y361Y		NM_014229.1	NP_055044.1	P48066	S6A11_HUMAN	solute carrier family 6 (neurotransmitter transporter), member 11	361					brain development (GO:0007420)|neurotransmitter secretion (GO:0007269)|response to drug (GO:0042493)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	gamma-aminobutyric acid:sodium symporter activity (GO:0005332)|neurotransmitter binding (GO:0042165)|neurotransmitter:sodium symporter activity (GO:0005328)			breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(13)|lung(13)|ovary(1)|skin(4)	35				OV - Ovarian serous cystadenocarcinoma(96;0.229)	Clobazam(DB00349)	TTATGGCGTACGAGCAGGGGG	0.572													C|||	2	0.000399361	0.0	0.0	5008	,	,		20821	0.002		0.0	False		,,,				2504	0.0															0													124	102	110					3																	10960101		2203	4300	6503	SO:0001819	synonymous_variant	6538			S75989	CCDS2602.1	3p25.3	2013-07-19	2013-07-19		ENSG00000132164	ENSG00000132164		"Solute carriers"	11044	protein-coding gene	gene with protein product	"GABA transporter 3"	607952	"solute carrier family 6 (neurotransmitter transporter, GABA), member 11"			7874447	Standard	NM_014229		Approved	GAT3	uc003bvz.3	P48066	OTTHUMG00000129718	ENST00000254488.2:c.1083C>T	3.37:g.10960101C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R6U6|Q8IYC9	Silent	SNP	ENST00000254488.2	37	CCDS2602.1																																																																																				0.572	SLC6A11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251927.1	NM_014229		T	10960101	C	T	10960101	2	4	664	1	0	0	0	0	0	0	0	1	14687	547	19	1		1	SLC6A11	3	10960101	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1041304	10960101	187062329	146	41456										
CAND2	23066	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr3	12858741	12858741	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctggtagggacccgtcccccGtgtgtggactatgccaaact	12	13	0	0	rs371560476		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:12858741G>A	ENST00000456430.2	+	10	2351	c.2310G>A	c.(2308-2310)ccG>ccA	p.P770P	CAND2_ENST00000295989.5_Silent_p.P677P	NM_001162499.1	NP_001155971.1	O75155	CAND2_HUMAN	cullin-associated and neddylation-dissociated 2 (putative)	770					positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	intracellular (GO:0005622)|nucleus (GO:0005634)				breast(3)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(10)|lung(8)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	37						CCCGTCCCCCGTGTGTGGACT	0.627																																					GBM(43;676 868 1633 6395 37496)											0								G	,	0,4074		0,0,2037	41	45	43		2310,2031	-8.3	0	3		43	1,8363		0,1,4181	no	coding-synonymous,coding-synonymous	CAND2	NM_001162499.1,NM_012298.2	,	0,1,6218	AA,AG,GG		0.012,0.0,0.0080	,	770/1237,677/1120	12858741	1,12437	2037	4182	6219	SO:0001819	synonymous_variant	23066				CCDS43053.1, CCDS54554.1	3p25.2	2008-02-05			ENSG00000144712	ENSG00000144712			30689	protein-coding gene	gene with protein product	"TBP interacting protein"	610403				9734811, 10441524	Standard	NM_012298		Approved	TIP120B, KIAA0667, Tp120b	uc003bxk.2	O75155	OTTHUMG00000155397	ENST00000456430.2:c.2310G>A	3.37:g.12858741G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B9EGM9|E9KL24	Silent	SNP	ENST00000456430.2	37	CCDS54554.1																																																																																				0.627	CAND2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000339856.4	XM_371617		A	12858741	G	A	12858741	2	1	664	1	0	0	0	0	0	0	0	1	2618	1132	40	1		1	CAND2	3	12858741	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1898640	12858741	185163689	147	41457										
C3orf20	84077	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	14724594	14724594	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctctctcccaccatggcccGtcaggtgcgcacccaccagg	9	20	2	0	rs145497672		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:14724594G>A	ENST00000253697.3	+	3	826	c.374G>A	c.(373-375)cGt>cAt	p.R125H	C3orf20_ENST00000435614.1_Missense_Mutation_p.R3H|C3orf20_ENST00000412910.1_Missense_Mutation_p.R3H	NM_032137.4	NP_115513.4	Q8ND61	CC020_HUMAN	chromosome 3 open reading frame 20	125						cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(13)|lung(11)|ovary(4)|skin(2)	40						ACCATGGCCCGTCAGGTGCGC	0.622													G|||	1	0.000199681	0.0008	0.0	5008	,	,		18501	0.0		0.0	False		,,,				2504	0.0															0								G	HIS/ARG,HIS/ARG,HIS/ARG	4,4402	8.1+/-20.4	0,4,2199	48	47	48		8,8,374	-7.1	0	3	dbSNP_134	48	0,8600		0,0,4300	yes	missense,missense,missense	C3orf20	NM_001184957.1,NM_001184958.1,NM_032137.4	29,29,29	0,4,6499	AA,AG,GG		0.0,0.0908,0.0308	benign,benign,benign	3/783,3/783,125/905	14724594	4,13002	2203	4300	6503	SO:0001583	missense	84077			AL136781	CCDS33706.1, CCDS54555.1	3p25.1	2011-01-25			ENSG00000131379	ENSG00000131379			25320	protein-coding gene	gene with protein product						11230166	Standard	NM_032137		Approved	DKFZP434N1817	uc003byy.3	Q8ND61	OTTHUMG00000155545	ENST00000253697.3:c.374G>A	3.37:g.14724594G>A	ENSP00000253697:p.Arg125His	Somatic		WXS	Illumina HiSeq	Phase_I	Q7L0U6|Q8NCP2|Q9H0I7	Missense_Mutation	SNP	ENST00000253697.3	37	CCDS33706.1	.	.	.	.	.	.	.	.	.	.	G	10.13	1.265751	0.23136	9.08E-4	0.0	ENSG00000131379	ENST00000253697;ENST00000435614;ENST00000412910	T;T;T	0.09350	3.37;2.99;2.99	4.51	-7.14	0.01527	.	1.704600	0.03351	N	0.196276	T	0.05914	0.0154	N	0.12182	0.205	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.31641	-0.9936	10	0.27082	T	0.32	1.064	10.1083	0.42546	0.6525:0.0982:0.2493:0.0	.	125	Q8ND61	CC020_HUMAN	H	125;3;3	ENSP00000253697:R125H;ENSP00000402933:R3H;ENSP00000396081:R3H	ENSP00000253697:R125H	R	+	2	0	C3orf20	14699598	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.418000	0.02462	-1.708000	0.01401	-1.864000	0.00558	CGT		0.622	C3orf20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340586.1	NM_032137		A	14724594	G	A	14724594	3	1	664	1	0	0	0	0	1	0	0	0	2215	1145	40	1	376	1	C3orf20	3	14724594	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1865853	14724594	183297836	148	41458										
EFHB	151651	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	19921161	19921161	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttgatccggtctgcatgccGtagctcatctagaacatttc	8	12	3	2	rs368362844		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:19921161G>A	ENST00000295824.9	-	13	2625	c.2464C>T	c.(2464-2466)Cgg>Tgg	p.R822W	EFHB_ENST00000344838.4_Missense_Mutation_p.R692W	NM_144715.3	NP_653316.3	Q8N7U6	EFHB_HUMAN	EF-hand domain family, member B	822							calcium ion binding (GO:0005509)			breast(2)|endometrium(4)|kidney(1)|lung(17)|prostate(1)|urinary_tract(1)	26						TCTGCATGCCGTAGCTCATCT	0.343																																																0								G	TRP/ARG	0,4406		0,0,2203	226	207	214		2464	4.7	0	3		214	1,8599	1.2+/-3.3	0,1,4299	no	missense	EFHB	NM_144715.3	101	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	822/834	19921161	1,13005	2203	4300	6503	SO:0001583	missense	151651			AK122616	CCDS33715.2	3p24.3	2014-07-18			ENSG00000163576	ENSG00000163576		"EF-hand domain containing"	26330	protein-coding gene	gene with protein product	"cilia and flagella associated protein 21"					12477932	Standard	NM_144715		Approved	FLJ25200, CFAP21	uc003cbl.4	Q8N7U6	OTTHUMG00000150505	ENST00000295824.9:c.2464C>T	3.37:g.19921161G>A	ENSP00000295824:p.Arg822Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A6ND25|A8MPR3|Q6ZWK9|Q8IV58|Q96LQ6	Missense_Mutation	SNP	ENST00000295824.9	37	CCDS33715.2	.	.	.	.	.	.	.	.	.	.	G	11.05	1.526148	0.27299	0.0	1.16E-4	ENSG00000163576	ENST00000295824;ENST00000344838	T;T	0.24350	1.86;1.87	5.57	4.7	0.59300	.	0.302763	0.31167	N	0.008136	T	0.16085	0.0387	N	0.14661	0.345	0.09310	N	1	P;D	0.56968	0.923;0.978	B;B	0.43916	0.436;0.226	T	0.07290	-1.0780	9	.	.	.	-0.4946	10.3889	0.44156	0.0901:0.0:0.9099:0.0	.	692;822	Q8N7U6-3;Q8N7U6	.;EFHB_HUMAN	W	822;692	ENSP00000295824:R822W;ENSP00000342263:R692W	.	R	-	1	2	EFHB	19896165	0.516000	0.26218	0.037000	0.18230	0.109000	0.19521	1.787000	0.38704	1.360000	0.45960	-0.136000	0.14681	CGG		0.343	EFHB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318673.2	NM_144715		A	19921161	G	A	19921161	3	1	664	1	0	0	0	0	1	0	0	0	4947	1144	40	1	41	1	EFHB	3	19921161	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5196567	19921161	178101269	149	41459										
GADL1	339896	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr3	30769804	30769804	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctcccggctcacttgagggCtgatcaccacctggcggaag	12	15	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:30769804C>T	ENST00000282538.5	-	15	1646	c.1496G>A	c.(1495-1497)aGc>aAc	p.S499N	GADL1_ENST00000498387.1_5'UTR	NM_207359.2	NP_997242.2	Q6ZQY3	GADL1_HUMAN	glutamate decarboxylase-like 1	499					carboxylic acid metabolic process (GO:0019752)		aspartate 1-decarboxylase activity (GO:0004068)|pyridoxal phosphate binding (GO:0030170)|sulfinoalanine decarboxylase activity (GO:0004782)			breast(2)|endometrium(3)|kidney(2)|lung(17)|upper_aerodigestive_tract(1)	25						CACTTGAGGGCTGATCACCAC	0.552																																																0													130	119	123					3																	30769804		2203	4300	6503	SO:0001583	missense	339896			AK128643	CCDS2649.2	3p23-p22	2009-01-14			ENSG00000144644	ENSG00000144644			27949	protein-coding gene	gene with protein product		615601					Standard	NM_207359		Approved		uc003cep.2	Q6ZQY3	OTTHUMG00000130621	ENST00000282538.5:c.1496G>A	3.37:g.30769804C>T	ENSP00000282538:p.Ser499Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000282538.5	37	CCDS2649.2	.	.	.	.	.	.	.	.	.	.	C	4.865	0.160842	0.09287	.	.	ENSG00000144644	ENST00000282538	T	0.32753	1.44	5.91	5.04	0.67666	Pyridoxal phosphate-dependent transferase, major region, subdomain 2 (1);Pyridoxal phosphate-dependent transferase, major domain (1);	0.095913	0.64402	D	0.000002	T	0.11707	0.0285	N	0.02120	-0.675	0.80722	D	1	B	0.06786	0.001	B	0.11329	0.006	T	0.16188	-1.0411	10	0.02654	T	1	-0.3994	14.9266	0.70884	0.0:0.9317:0.0:0.0683	.	499	Q6ZQY3	GADL1_HUMAN	N	499	ENSP00000282538:S499N	ENSP00000282538:S499N	S	-	2	0	GADL1	30744808	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	1.242000	0.32755	1.501000	0.48654	0.655000	0.94253	AGC		0.552	GADL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253106.2	NM_207359		T	30769804	C	T	30769804	3	4	664	1	0	0	0	0	1	0	0	0	6192	797	28	2	73	2	GADL1	3	30769804	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	10848643	30769804	167252626	150	41460										
STT3B	201595	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	31617961	31617961	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	taaattggtttgatgaaagaGcatggtatccactaggaaga	11	4	0	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:31617961G>A	ENST00000295770.2	+	2	597	c.388G>A	c.(388-390)Gca>Aca	p.A130T	STT3B_ENST00000453168.1_3'UTR	NM_178862.1	NP_849193.1	Q8TCJ2	STT3B_HUMAN	STT3B, subunit of the oligosaccharyltransferase complex (catalytic)	130					co-translational protein modification (GO:0043686)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|glycoprotein catabolic process (GO:0006516)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)|response to unfolded protein (GO:0006986)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|oligosaccharyltransferase complex (GO:0008250)	dolichyl-diphosphooligosaccharide-protein glycotransferase activity (GO:0004579)			autonomic_ganglia(1)|biliary_tract(1)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(6)|lung(3)|prostate(1)|upper_aerodigestive_tract(1)	19						TGATGAAAGAGCATGGTATCC	0.289																																																0													104	109	107					3																	31617961		2203	4294	6497	SO:0001583	missense	201595			AK027789	CCDS2650.1	3p24.1	2013-03-06	2013-03-06		ENSG00000163527	ENSG00000163527	2.4.99.18		30611	protein-coding gene	gene with protein product	"source of immunodominant MHC associated peptides", "dolichyl-diphosphooligosaccharide protein glycotransferase"	608605	"STT3, subunit of the oligosaccharyltransferase complex, homolog B (S. cerevisiae)"			12887896, 12439619	Standard	XM_006713017		Approved	SIMP, FLJ90106, STT3-B	uc011axe.2	Q8TCJ2	OTTHUMG00000130673	ENST00000295770.2:c.388G>A	3.37:g.31617961G>A	ENSP00000295770:p.Ala130Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q96JZ4|Q96KY7	Missense_Mutation	SNP	ENST00000295770.2	37	CCDS2650.1	.	.	.	.	.	.	.	.	.	.	G	20.2	3.942467	0.73672	.	.	ENSG00000163527	ENST00000295770	.	.	.	5.65	5.65	0.86999	.	0.000000	0.85682	D	0.000000	T	0.72087	0.3417	L	0.45352	1.415	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.63510	-0.6621	9	0.10377	T	0.69	-13.3357	19.7278	0.96172	0.0:0.0:1.0:0.0	.	130	Q8TCJ2	STT3B_HUMAN	T	130	.	ENSP00000295770:A130T	A	+	1	0	STT3B	31592965	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.869000	0.99810	2.656000	0.90262	0.591000	0.81541	GCA		0.289	STT3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253166.2	NM_178862		A	31617961	G	A	31617961	3	1	664	1	0	0	0	0	1	0	0	0	15346	971	34	2	394	2	STT3B	3	31617961	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	848157	31617961	166404469	151	41461										
DCLK3	85443	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	36759593	36759593	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctggtccctctcagggctgCggaatgggggaaagccacac	14	13	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:36759593C>T	ENST00000416516.2	-	4	2151	c.1661G>A	c.(1660-1662)cGc>cAc	p.R554H	DCLK3_ENST00000498047.1_5'UTR	NM_033403.1	NP_208382.1	Q9C098	DCLK3_HUMAN	doublecortin-like kinase 3	554	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.		R -> C (in a lung squamous cell carcinoma sample; somatic mutation). {ECO:0000269|PubMed:17344846}.			cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(3)|endometrium(3)|kidney(2)|large_intestine(11)|lung(20)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	48						CTCAGGGCTGCGGAATGGGGG	0.552																																																0													153	166	162					3																	36759593		2066	4229	6295	SO:0001583	missense	85443			AB051552	CCDS43064.1	3p22.3	2007-04-02	2007-04-02	2007-04-02	ENSG00000163673	ENSG00000163673			19005	protein-coding gene	gene with protein product		613167	"doublecortin and CaM kinase-like 3"	DCAMKL3		11214970, 16869982	Standard	NM_033403		Approved	KIAA1765, DCDC3C	uc003cgi.2	Q9C098	OTTHUMG00000155805	ENST00000416516.2:c.1661G>A	3.37:g.36759593C>T	ENSP00000394484:p.Arg554His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000416516.2	37	CCDS43064.1	.	.	.	.	.	.	.	.	.	.	C	28.4	4.921101	0.92249	.	.	ENSG00000163673	ENST00000416516	T	0.66280	-0.2	5.51	5.51	0.81932	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.32147	N	0.006510	T	0.74076	0.3669	L	0.41573	1.285	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.73688	-0.3904	10	0.52906	T	0.07	.	19.7913	0.96458	0.0:1.0:0.0:0.0	.	554	Q9C098	DCLK3_HUMAN	H	554	ENSP00000394484:R554H	ENSP00000394484:R554H	R	-	2	0	DCLK3	36734597	1.000000	0.71417	1.000000	0.80357	0.639000	0.38242	7.818000	0.86416	2.765000	0.95021	0.555000	0.69702	CGC		0.552	DCLK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341727.1	XM_047355		T	36759593	C	T	36759593	3	4	664	1	0	0	0	0	1	0	0	0	4295	768	27	1	293	1	DCLK3	3	36759593	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5141632	36759593	161262837	152	41462										
SLC22A13	9390	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	38316965	38316965	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caataggcggaaactctcccCggagctcatgaaccaggtac	10	13	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:38316965C>T	ENST00000311856.4	+	5	960	c.911C>T	c.(910-912)cCg>cTg	p.P304L	SLC22A13_ENST00000450935.2_3'UTR	NM_004256.3	NP_004247.2	Q9Y226	S22AD_HUMAN	solute carrier family 22 (organic anion/urate transporter), member 13	304					nicotinate transport (GO:2001142)|organic cation transport (GO:0015695)|urate transport (GO:0015747)	apical plasma membrane (GO:0016324)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	nicotinate transporter activity (GO:0090416)|organic cation transmembrane transporter activity (GO:0015101)			cervix(1)|endometrium(5)|kidney(1)|large_intestine(4)|lung(7)|skin(1)|urinary_tract(1)	20				KIRC - Kidney renal clear cell carcinoma(284;0.0533)|Kidney(284;0.067)		AAACTCTCCCCGGAGCTCATG	0.602																																																0													58	58	58					3																	38316965		2203	4300	6503	SO:0001583	missense	9390			AB010438	CCDS2676.1	3p22.2	2013-07-18	2013-07-18	2003-10-15	ENSG00000172940	ENSG00000172940		"Solute carriers"	8494	protein-coding gene	gene with protein product		604047	"organic cationic transporter-like 3", "solute carrier family 22 (organic anion transporter), member 13"	ORCTL3		10072596, 18411268	Standard	NM_004256		Approved	OCTL1, OCTL3, OAT10	uc003chz.3	Q9Y226	OTTHUMG00000131086	ENST00000311856.4:c.911C>T	3.37:g.38316965C>T	ENSP00000310241:p.Pro304Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCV9|Q8IYG1	Missense_Mutation	SNP	ENST00000311856.4	37	CCDS2676.1	.	.	.	.	.	.	.	.	.	.	C	4.118	0.020056	0.08006	.	.	ENSG00000172940	ENST00000311856	T	0.74315	-0.83	4.84	2.9	0.33743	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.289868	0.39146	N	0.001457	T	0.59266	0.2181	L	0.35542	1.07	0.19775	N	0.999958	B;B	0.17268	0.017;0.021	B;B	0.15484	0.008;0.013	T	0.44436	-0.9328	10	0.25751	T	0.34	.	8.7276	0.34478	0.1484:0.7713:0.0:0.0803	.	304;304	Q9Y226-2;Q9Y226	.;S22AD_HUMAN	L	304	ENSP00000310241:P304L	ENSP00000310241:P304L	P	+	2	0	SLC22A13	38291969	0.000000	0.05858	0.002000	0.10522	0.169000	0.22640	0.837000	0.27558	1.174000	0.42811	0.655000	0.94253	CCG		0.602	SLC22A13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253746.2	NM_004256		T	38316965	C	T	38316965	3	4	664	1	0	0	0	0	1	0	0	0	14457	652	23	1	929	1	SLC22A13	3	38316965	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1557372	38316965	159705465	153	41463										
ZNF621	285268	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	40573994	40573994	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagagtgtggaaaggctttcCgtaggagtgcggcatacctg	15	7	0	1	rs144763141		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:40573994C>T	ENST00000339296.5	+	5	1185	c.733C>T	c.(733-735)Cgt>Tgt	p.R245C	ZNF621_ENST00000403205.2_Missense_Mutation_p.R245C|ZNF621_ENST00000431278.1_Missense_Mutation_p.R134C|ZNF621_ENST00000490457.1_Intron|ZNF621_ENST00000310898.1_Intron	NM_198484.3	NP_940886.1	Q6ZSS3	ZN621_HUMAN	zinc finger protein 621	245					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(1)|kidney(2)|large_intestine(6)|lung(8)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)	21				KIRC - Kidney renal clear cell carcinoma(284;0.0515)|Kidney(284;0.0648)		AAAGGCTTTCCGTAGGAGTGC	0.453																																																0								C	CYS/ARG,CYS/ARG	0,4406		0,0,2203	85	90	89		733,733	3.1	1	3	dbSNP_134	89	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense	ZNF621	NM_001098414.1,NM_198484.3	180,180	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging,probably-damaging	245/440,245/440	40573994	1,13005	2203	4300	6503	SO:0001583	missense	285268			AK127181	CCDS2693.1, CCDS74920.1	3p21.33	2013-01-08			ENSG00000172888	ENSG00000172888		"Zinc fingers, C2H2-type", "-"	24787	protein-coding gene	gene with protein product							Standard	XM_005265079		Approved	FLJ45246	uc003ckm.2	Q6ZSS3	OTTHUMG00000131389	ENST00000339296.5:c.733C>T	3.37:g.40573994C>T	ENSP00000340841:p.Arg245Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q14DC7|Q8TE91	Missense_Mutation	SNP	ENST00000339296.5	37	CCDS2693.1	.	.	.	.	.	.	.	.	.	.	c	5.829	0.337228	0.11013	0.0	1.16E-4	ENSG00000172888	ENST00000403205;ENST00000339296;ENST00000431278	T;T;T	0.18502	2.21;2.21;2.21	3.94	3.06	0.35304	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.206892	0.24409	N	0.038765	T	0.26702	0.0653	L	0.43554	1.36	0.80722	D	1	B;D	0.76494	0.06;0.999	B;P	0.61658	0.013;0.892	T	0.01169	-1.1430	10	0.44086	T	0.13	.	9.8917	0.41294	0.0:0.8967:0.0:0.1033	.	134;245	C9JZC2;Q6ZSS3	.;ZN621_HUMAN	C	245;245;134	ENSP00000386051:R245C;ENSP00000340841:R245C;ENSP00000413236:R134C	ENSP00000340841:R245C	R	+	1	0	ZNF621	40548998	0.000000	0.05858	0.955000	0.39395	0.054000	0.15201	-1.398000	0.02509	1.251000	0.43983	-0.253000	0.11424	CGT		0.453	ZNF621-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254178.2	NM_198484		T	40573994	C	T	40573994	3	4	664	1	0	0	0	0	1	0	0	0	18057	652	23	1	747	1	ZNF621	3	40573994	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2257029	40573994	157448436	154	41464										
CTNNB1	1499	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	41266964	41266964	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaatgatgtagaaacagctcGttgtaccgctgggaccttgc	11	9	0	2	rs200890083		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:41266964G>A	ENST00000349496.5	+	5	915	c.635G>A	c.(634-636)cGt>cAt	p.R212H	CTNNB1_ENST00000453024.1_Missense_Mutation_p.R205H|CTNNB1_ENST00000396183.3_Missense_Mutation_p.R212H|CTNNB1_ENST00000396185.3_Missense_Mutation_p.R212H|CTNNB1_ENST00000405570.1_Missense_Mutation_p.R212H	NM_001904.3	NP_001895.1	P35222	CTNB1_HUMAN	catenin (cadherin-associated protein), beta 1, 88kDa	212					adherens junction assembly (GO:0034333)|androgen receptor signaling pathway (GO:0030521)|anterior/posterior axis specification (GO:0009948)|apoptotic process (GO:0006915)|bone resorption (GO:0045453)|branching involved in ureteric bud morphogenesis (GO:0001658)|canonical Wnt signaling pathway (GO:0060070)|canonical Wnt signaling pathway involved in negative regulation of apoptotic process (GO:0044336)|canonical Wnt signaling pathway involved in positive regulation of cardiac outflow tract cell proliferation (GO:0061324)|canonical Wnt signaling pathway involved in positive regulation of epithelial to mesenchymal transition (GO:0044334)|cell adhesion (GO:0007155)|cell fate specification (GO:0001708)|cell maturation (GO:0048469)|cell-matrix adhesion (GO:0007160)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular response to growth factor stimulus (GO:0071363)|cellular response to indole-3-methanol (GO:0071681)|cellular response to mechanical stimulus (GO:0071260)|central nervous system vasculogenesis (GO:0022009)|cytoskeletal anchoring at plasma membrane (GO:0007016)|determination of dorsal/ventral asymmetry (GO:0048262)|dorsal/ventral axis specification (GO:0009950)|ectoderm development (GO:0007398)|embryonic axis specification (GO:0000578)|embryonic digit morphogenesis (GO:0042733)|embryonic foregut morphogenesis (GO:0048617)|embryonic forelimb morphogenesis (GO:0035115)|embryonic heart tube development (GO:0035050)|embryonic hindlimb morphogenesis (GO:0035116)|embryonic limb morphogenesis (GO:0030326)|embryonic skeletal limb joint morphogenesis (GO:0036023)|endodermal cell fate commitment (GO:0001711)|endothelial tube morphogenesis (GO:0061154)|epithelial cell differentiation involved in prostate gland development (GO:0060742)|epithelial to mesenchymal transition (GO:0001837)|epithelial tube branching involved in lung morphogenesis (GO:0060441)|fungiform papilla formation (GO:0061198)|gastrulation with mouth forming second (GO:0001702)|genitalia morphogenesis (GO:0035112)|glial cell fate determination (GO:0007403)|hair cell differentiation (GO:0035315)|hair follicle morphogenesis (GO:0031069)|hair follicle placode formation (GO:0060789)|hindbrain development (GO:0030902)|in utero embryonic development (GO:0001701)|innate immune response (GO:0045087)|layer formation in cerebral cortex (GO:0021819)|lens morphogenesis in camera-type eye (GO:0002089)|liver development (GO:0001889)|lung cell differentiation (GO:0060479)|lung induction (GO:0060492)|lung-associated mesenchyme development (GO:0060484)|male genitalia development (GO:0030539)|mesenchymal cell proliferation involved in lung development (GO:0060916)|mesenchymal to epithelial transition involved in metanephros morphogenesis (GO:0003337)|midgut development (GO:0007494)|muscle cell differentiation (GO:0042692)|myoblast differentiation (GO:0045445)|negative regulation of apoptotic signaling pathway (GO:2001234)|negative regulation of cell proliferation (GO:0008285)|negative regulation of chondrocyte differentiation (GO:0032331)|negative regulation of heart induction by canonical Wnt signaling pathway (GO:0003136)|negative regulation of neuron death (GO:1901215)|negative regulation of oligodendrocyte differentiation (GO:0048715)|negative regulation of osteoclast differentiation (GO:0045671)|negative regulation of protein sumoylation (GO:0033234)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|nephron tubule formation (GO:0072079)|neural plate development (GO:0001840)|neuron migration (GO:0001764)|odontogenesis of dentin-containing tooth (GO:0042475)|oocyte development (GO:0048599)|osteoclast differentiation (GO:0030316)|oviduct development (GO:0060066)|pancreas development (GO:0031016)|patterning of blood vessels (GO:0001569)|positive regulation of apoptotic process (GO:0043065)|positive regulation of branching involved in lung morphogenesis (GO:0061047)|positive regulation of determination of dorsal identity (GO:2000017)|positive regulation of endothelial cell differentiation (GO:0045603)|positive regulation of epithelial cell proliferation involved in prostate gland development (GO:0060769)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of fibroblast growth factor receptor signaling pathway (GO:0045743)|positive regulation of heparan sulfate proteoglycan biosynthetic process (GO:0010909)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of neuroblast proliferation (GO:0002052)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of type I interferon production (GO:0032481)|protein heterooligomerization (GO:0051291)|protein localization to cell surface (GO:0034394)|proximal/distal pattern formation (GO:0009954)|regulation of angiogenesis (GO:0045765)|regulation of calcium ion import (GO:0090279)|regulation of centriole-centriole cohesion (GO:0030997)|regulation of centromeric sister chromatid cohesion (GO:0070602)|regulation of fibroblast proliferation (GO:0048145)|regulation of myelination (GO:0031641)|regulation of nephron tubule epithelial cell differentiation (GO:0072182)|regulation of protein localization to cell surface (GO:2000008)|regulation of secondary heart field cardioblast proliferation (GO:0003266)|regulation of smooth muscle cell proliferation (GO:0048660)|regulation of T cell proliferation (GO:0042129)|renal inner medulla development (GO:0072053)|renal outer medulla development (GO:0072054)|renal vesicle formation (GO:0072033)|response to cadmium ion (GO:0046686)|response to cytokine (GO:0034097)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|Schwann cell proliferation (GO:0014010)|single organismal cell-cell adhesion (GO:0016337)|smooth muscle cell differentiation (GO:0051145)|synapse organization (GO:0050808)|synaptic vesicle transport (GO:0048489)|T cell differentiation in thymus (GO:0033077)|thymus development (GO:0048538)|tongue morphogenesis (GO:0043587)|trachea formation (GO:0060440)|transcription, DNA-templated (GO:0006351)|Wnt signaling pathway (GO:0016055)	adherens junction (GO:0005912)|apical part of cell (GO:0045177)|basolateral plasma membrane (GO:0016323)|beta-catenin destruction complex (GO:0030877)|beta-catenin-TCF7L2 complex (GO:0070369)|catenin complex (GO:0016342)|cell cortex (GO:0005938)|cell junction (GO:0030054)|cell periphery (GO:0071944)|cell-cell adherens junction (GO:0005913)|cell-cell junction (GO:0005911)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|dendritic shaft (GO:0043198)|desmosome (GO:0030057)|extracellular vesicular exosome (GO:0070062)|fascia adherens (GO:0005916)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|lateral plasma membrane (GO:0016328)|membrane (GO:0016020)|microvillus membrane (GO:0031528)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|protein-DNA complex (GO:0032993)|Scrib-APC-beta-catenin complex (GO:0034750)|synapse (GO:0045202)|tight junction (GO:0005923)|transcription factor complex (GO:0005667)|Z disc (GO:0030018)|zonula adherens (GO:0005915)	alpha-catenin binding (GO:0045294)|androgen receptor binding (GO:0050681)|cadherin binding (GO:0045296)|chromatin binding (GO:0003682)|double-stranded DNA binding (GO:0003690)|enzyme binding (GO:0019899)|estrogen receptor binding (GO:0030331)|I-SMAD binding (GO:0070411)|ion channel binding (GO:0044325)|kinase binding (GO:0019900)|nuclear hormone receptor binding (GO:0035257)|protein C-terminus binding (GO:0008022)|protein kinase binding (GO:0019901)|protein phosphatase binding (GO:0019903)|R-SMAD binding (GO:0070412)|RNA polymerase II activating transcription factor binding (GO:0001102)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)|SMAD binding (GO:0046332)|structural molecule activity (GO:0005198)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)		CTNNB1/PLAG1(60)	NS(4)|adrenal_gland(103)|biliary_tract(43)|bone(21)|breast(7)|central_nervous_system(260)|cervix(9)|endometrium(293)|eye(1)|haematopoietic_and_lymphoid_tissue(60)|kidney(202)|large_intestine(269)|liver(1010)|lung(63)|oesophagus(6)|ovary(106)|pancreas(126)|parathyroid(11)|pituitary(111)|pleura(2)|prostate(31)|salivary_gland(13)|skin(103)|small_intestine(17)|soft_tissue(792)|stomach(165)|thyroid(55)|upper_aerodigestive_tract(2)|urinary_tract(8)	3893				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)		GAAACAGCTCGTTGTACCGCT	0.478		15	"H, Mis, T"	PLAG1	"colorectal, cvarian,  hepatoblastoma, others, pleomorphic salivary adenoma"				Pilomatrixoma, Familial Clustering of				G|||	1	0.000199681	0.0	0.0	5008	,	,		21147	0.0		0.001	False		,,,				2504	0.0				Colon(6;3 56 14213 18255)		Dom	yes		3	3p22-p21.3	1499	"catenin (cadherin-associated protein), beta 1"		"E, M, O"	0													102	98	99					3																	41266964		2203	4300	6503	SO:0001583	missense	1499	Familial Cancer Database	Pilomatricoma, Familial Clustering of, Epithelioma Calcificans of Malherbe	X87838	CCDS2694.1	3p21	2013-02-15	2002-08-29		ENSG00000168036	ENSG00000168036		"Armadillo repeat containing"	2514	protein-coding gene	gene with protein product		116806	"catenin (cadherin-associated protein), beta 1 (88kD)"	CTNNB		7829088	Standard	NM_001098210		Approved	beta-catenin, armadillo	uc003ckr.2	P35222	OTTHUMG00000131393	ENST00000349496.5:c.635G>A	3.37:g.41266964G>A	ENSP00000344456:p.Arg212His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1L7|Q8NEW9|Q8NI94|Q9H391	Missense_Mutation	SNP	ENST00000349496.5	37	CCDS2694.1	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	G	19.27	3.794849	0.70452	.	.	ENSG00000168036	ENST00000405570;ENST00000396183;ENST00000349496;ENST00000453024;ENST00000396185	T;T;T;T;T	0.62941	-0.01;-0.01;-0.01;-0.01;-0.01	5.7	5.7	0.88788	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.63058	0.2479	M	0.74647	2.275	0.80722	D	1	P;P	0.36378	0.55;0.55	B;B	0.26094	0.044;0.066	T	0.69072	-0.5242	10	0.87932	D	0	-14.4568	19.8405	0.96681	0.0:0.0:1.0:0.0	.	140;212	B4DSW9;P35222	.;CTNB1_HUMAN	H	212;212;212;205;212	ENSP00000385604:R212H;ENSP00000379486:R212H;ENSP00000344456:R212H;ENSP00000411226:R205H;ENSP00000379488:R212H	ENSP00000344456:R212H	R	+	2	0	CTNNB1	41241968	1.000000	0.71417	0.999000	0.59377	0.997000	0.91878	9.869000	0.99810	2.692000	0.91855	0.655000	0.94253	CGT		0.478	CTNNB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254182.2	NM_001098210		A	41266964	G	A	41266964	3	1	664	1	0	0	0	0	1	0	0	0	4018	1145	40	1	649	1	CTNNB1	3	41266964	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	692970	41266964	156755466	155	41465										
ZNF197	10168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	44684294	44684294	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttatcttattgaccatcagCgactccacagtgcagagaac	7	12	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:44684294C>T	ENST00000396058.1	+	5	1839	c.1672C>T	c.(1672-1674)Cga>Tga	p.R558*	ZNF197_ENST00000383744.4_Intron|RP11-944L7.4_ENST00000457331.1_RNA|ZNF197_ENST00000344387.4_Nonsense_Mutation_p.R558*|ZNF197_ENST00000383745.2_Intron			O14709	ZN197_HUMAN	zinc finger protein 197	558					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(2)|kidney(2)|large_intestine(6)|lung(9)|ovary(3)|prostate(1)|skin(1)	25				KIRC - Kidney renal clear cell carcinoma(197;0.0478)|Kidney(197;0.0598)		TGACCATCAGCGACTCCACAG	0.428																																																0													76	82	80					3																	44684294		2203	4299	6502	SO:0001587	stop_gained	10168			AF011573	CCDS2717.1, CCDS33743.1	3p21	2013-01-09	2003-10-07		ENSG00000186448	ENSG00000186448		"Zinc fingers, C2H2-type", "-", "-", "-"	12988	protein-coding gene	gene with protein product			"zinc finger protein 166"	ZNF166		9380504, 8353497	Standard	XM_005264783		Approved	P18, D3S1363E, ZKSCAN9, ZSCAN41	uc003cnm.3	O14709	OTTHUMG00000133089	ENST00000396058.1:c.1672C>T	3.37:g.44684294C>T	ENSP00000379370:p.Arg558*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAH8|Q86VG0	Nonsense_Mutation	SNP	ENST00000396058.1	37	CCDS2717.1	.	.	.	.	.	.	.	.	.	.	A	33	5.289130	0.95517	.	.	ENSG00000186448	ENST00000344387;ENST00000396058	.	.	.	3.63	2.74	0.32292	.	0.000000	0.28465	U	0.015256	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	2.6139	0.04899	0.1945:0.5128:0.1883:0.1044	.	.	.	.	X	558	.	ENSP00000345809:R558X	R	+	1	2	ZNF197	44659298	0.000000	0.05858	1.000000	0.80357	0.993000	0.82548	0.058000	0.14301	1.080000	0.41073	0.454000	0.30748	CGA		0.428	ZNF197-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256747.4	NM_006991		T	44684294	C	T	44684294	4	4	664	1	0	0	0	0	0	1	0	0	17771	760	27	1	1690	1	ZNF197	3	44684294	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3417330	44684294	153338136	156	41466										
PLXNB1	5364	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	48462160	48462160	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acaccagttacacccccagcGgctgctcacacaggcctggc	9	18	1	0	rs555355943		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:48462160G>A	ENST00000358536.4	-	10	2211	c.1942C>T	c.(1942-1944)Cgc>Tgc	p.R648C	PLXNB1_ENST00000448774.2_Intron|PLXNB1_ENST00000358459.4_Missense_Mutation_p.R648C|PLXNB1_ENST00000456774.1_Missense_Mutation_p.R648C|PLXNB1_ENST00000296440.6_Missense_Mutation_p.R648C	NM_002673.4	NP_002664.2	O43157	PLXB1_HUMAN	plexin B1	648					axon guidance (GO:0007411)|cell migration (GO:0016477)|intracellular signal transduction (GO:0035556)|negative regulation of cell adhesion (GO:0007162)|negative regulation of osteoblast proliferation (GO:0033689)|neuron projection morphogenesis (GO:0048812)|ossification involved in bone maturation (GO:0043931)|positive regulation of axonogenesis (GO:0050772)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of Rho GTPase activity (GO:0032321)|regulation of cell shape (GO:0008360)|regulation of cytoskeleton organization (GO:0051493)|semaphorin-plexin signaling pathway (GO:0071526)|semaphorin-plexin signaling pathway involved in bone trabecula morphogenesis (GO:1900220)|signal transduction (GO:0007165)	extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|semaphorin receptor complex (GO:0002116)	GTPase activating protein binding (GO:0032794)|receptor activity (GO:0004872)|semaphorin receptor activity (GO:0017154)|semaphorin receptor binding (GO:0030215)|transmembrane signaling receptor activity (GO:0004888)			NS(1)|breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(6)|lung(10)|ovary(3)|pancreas(2)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	47				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CACCCCCAGCGGCTGCTCACA	0.637													G|||	1	0.000199681	0.0	0.0	5008	,	,		17417	0.0		0.0	False		,,,				2504	0.001															0													47	43	44					3																	48462160		2203	4300	6503	SO:0001583	missense	5364			X87904	CCDS2765.1	3p21.31	2008-07-18			ENSG00000164050	ENSG00000164050		"Plexins"	9103	protein-coding gene	gene with protein product		601053		PLXN5		8570614, 11035813	Standard	XM_005265234		Approved	SEP, KIAA0407	uc003csw.2	O43157	OTTHUMG00000133527	ENST00000358536.4:c.1942C>T	3.37:g.48462160G>A	ENSP00000351338:p.Arg648Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8Y2|Q6NY20|Q9UIV7|Q9UJ92|Q9UJ93	Missense_Mutation	SNP	ENST00000358536.4	37	CCDS2765.1	.	.	.	.	.	.	.	.	.	.	G	18.37	3.610071	0.66558	.	.	ENSG00000164050	ENST00000296440;ENST00000358459;ENST00000358536;ENST00000456774	T;T;T;T	0.03580	3.88;3.9;3.88;3.9	5.24	3.35	0.38373	.	0.414294	0.24022	N	0.042266	T	0.08670	0.0215	M	0.71036	2.16	0.80722	D	1	P;P	0.52170	0.923;0.951	B;P	0.48901	0.232;0.594	T	0.02115	-1.1211	10	0.56958	D	0.05	.	10.9355	0.47243	0.0:0.2377:0.6355:0.1267	.	648;648	O43157;O43157-2	PLXB1_HUMAN;.	C	648	ENSP00000296440:R648C;ENSP00000351242:R648C;ENSP00000351338:R648C;ENSP00000414199:R648C	ENSP00000296440:R648C	R	-	1	0	PLXNB1	48437164	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.903000	0.48711	2.468000	0.83385	0.561000	0.74099	CGC		0.637	PLXNB1-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344454.1	NM_002673		A	48462160	G	A	48462160	3	1	664	1	0	0	0	0	1	0	0	0	12130	1116	39	1	4581	1	PLXNB1	3	48462160	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3777866	48462160	149560270	157	41467										
COL7A1	1294	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	48626075	48626075	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccagcgcatgctctgcctacGcgtagtgacaacaatggaga	11	12	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:48626075G>A	ENST00000328333.8	-	19	2694	c.2587C>T	c.(2587-2589)Ccg>Tcg	p.P863S	COL7A1_ENST00000454817.1_Splice_Site_p.P863S	NM_000094.3	NP_000085.1	Q02388	CO7A1_HUMAN	collagen, type VII, alpha 1	863	Fibronectin type-III 7. {ECO:0000255|PROSITE-ProRule:PRU00316}.|Nonhelical region (NC1).				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|endodermal cell differentiation (GO:0035987)|epidermis development (GO:0008544)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	basement membrane (GO:0005604)|collagen type VII trimer (GO:0005590)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular space (GO:0005615)	serine-type endopeptidase inhibitor activity (GO:0004867)			NS(3)|breast(8)|central_nervous_system(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(18)|lung(57)|ovary(7)|prostate(5)|skin(9)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(5)	137				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CTCTGCCTACGCGTAGTGACA	0.582																																																0													68	71	70					3																	48626075		2203	4300	6503	SO:0001630	splice_region_variant	1294			L02870	CCDS2773.1	3p21.1	2014-09-17	2008-08-01		ENSG00000114270	ENSG00000114270		"Collagens", "Fibronectin type III domain containing"	2214	protein-coding gene	gene with protein product	"collagen VII, alpha-1 polypeptide", "LC collagen"	120120	"epidermolysis bullosa, dystrophic, dominant and recessive"	EBDCT, EBD1, EBR1		1871109	Standard	NM_000094		Approved		uc003ctz.2	Q02388	OTTHUMG00000133541	ENST00000328333.8:c.2587+1C>T	3.37:g.48626075G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q14054|Q16507	Missense_Mutation	SNP	ENST00000328333.8	37	CCDS2773.1	.	.	.	.	.	.	.	.	.	.	G	10.85	1.466665	0.26335	.	.	ENSG00000114270	ENST00000328333;ENST00000454817	T;T	0.54866	0.55;0.55	5.38	5.38	0.77491	Fibronectin, type III (1);Immunoglobulin-like fold (1);	0.000000	0.45867	D	0.000330	T	0.52435	0.1734	L	0.54323	1.7	0.45366	D	0.998355	P	0.49862	0.929	B	0.42798	0.398	T	0.52845	-0.8521	9	.	.	.	.	18.2888	0.90122	0.0:0.0:1.0:0.0	.	863	Q02388	CO7A1_HUMAN	S	863	ENSP00000332371:P863S;ENSP00000412569:P863S	.	P	-	1	0	COL7A1	48601079	1.000000	0.71417	0.999000	0.59377	0.058000	0.15608	4.006000	0.57083	2.686000	0.91538	0.655000	0.94253	CCG		0.582	COL7A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257519.1	NM_000094	Missense_Mutation	A	48626075	G	A	48626075	5	1	664	1	0	0	0	0	0	0	1	0	3706	1101	38	1	6647	1	COL7A1	3	48626075	Splice_Site	SNP	G	TCGA-KN-8428-01A-11D-2310-10	163915	48626075	149396355	158	41468										
NDUFAF3	25915	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr3	49059935	49059935	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggaaaccgcgtgctcggcccCtgcgctctgctcccgcactc	11	19	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:49059935C>A	ENST00000326925.6	+	2	1368	c.234C>A	c.(232-234)ccC>ccA	p.P78P	DALRD3_ENST00000496568.1_5'Flank|MIR191_ENST00000384873.1_RNA|MIR425_ENST00000362162.1_RNA|NDUFAF3_ENST00000451378.2_Silent_p.P21P|DALRD3_ENST00000440857.1_5'Flank|DALRD3_ENST00000313778.5_5'Flank|NDUFAF3_ENST00000395458.2_Silent_p.P21P|NDUFAF3_ENST00000326912.4_Silent_p.P21P	NM_199069.1	NP_951032.1	Q9BU61	NDUF3_HUMAN	NADH dehydrogenase (ubiquinone) complex I, assembly factor 3	78					mitochondrial respiratory chain complex I assembly (GO:0032981)	mitochondrial inner membrane (GO:0005743)|nucleus (GO:0005634)				haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|lung(4)	8						TGCTCGGCCCCTGCGCTCTGC	0.632																																																0													23	23	23					3																	49059935		2202	4300	6502	SO:0001819	synonymous_variant	25915				CCDS2784.1, CCDS2785.1	3p21.31	2012-10-12	2012-05-08	2009-03-18	ENSG00000178057	ENSG00000178057		"Mitochondrial respiratory chain complex assembly factors"	29918	protein-coding gene	gene with protein product		612911	"chromosome 3 open reading frame 60", "NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 3"	C3orf60		12653254, 9349717	Standard	NM_199069		Approved	MGC10527, DKFZP564J0123, E3-3, 2P1	uc003cvq.3	Q9BU61	OTTHUMG00000156773	ENST00000326925.6:c.234C>A	3.37:g.49059935C>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000326925.6	37	CCDS2784.1																																																																																				0.632	NDUFAF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345683.2	NM_199069		A	49059935	C	A	49059935	2	1	664	1	0	0	0	0	0	0	0	1	10283	668	24	4		4	NDUFAF3	3	49059935	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	433860	49059935	148962495	159	41469										
IMPDH2	25915	broad.mit.edu	37	chr3	49061970	49061970	+	IGR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttccacctgggctgaggacGttctcttctcaaacttaagc	8	13	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:49061970G>A	ENST00000326925.6	+	0	2012				IMPDH2_ENST00000326739.4_Missense_Mutation_p.T494M|DALRD3_ENST00000496568.1_5'Flank	NM_199069.1	NP_951032.1	Q9BU61	NDUF3_HUMAN	NADH dehydrogenase (ubiquinone) complex I, assembly factor 3						mitochondrial respiratory chain complex I assembly (GO:0032981)	mitochondrial inner membrane (GO:0005743)|nucleus (GO:0005634)				haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|lung(4)	8						GGCTGAGGACGTTCTCTTCTC	0.567																																																0													123	113	116					3																	49061970		2203	4300	6503	SO:0001628	intergenic_variant	3615				CCDS2784.1, CCDS2785.1	3p21.31	2012-10-12	2012-05-08	2009-03-18	ENSG00000178057	ENSG00000178057		"Mitochondrial respiratory chain complex assembly factors"	29918	protein-coding gene	gene with protein product		612911	"chromosome 3 open reading frame 60", "NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 3"	C3orf60		12653254, 9349717	Standard	NM_199069		Approved	MGC10527, DKFZP564J0123, E3-3, 2P1	uc003cvq.3	Q9BU61	OTTHUMG00000156773		3.37:g.49061970G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000326925.6	37	CCDS2784.1	.	.	.	.	.	.	.	.	.	.	G	26.7	4.761076	0.89932	.	.	ENSG00000178035	ENST00000326739	D	0.82893	-1.66	5.68	5.68	0.88126	Aldolase-type TIM barrel (1);IMP dehydrogenase/GMP reductase (1);	0.000000	0.85682	D	0.000000	D	0.94228	0.8147	H	0.95780	3.72	0.80722	D	1	D	0.89917	1.0	D	0.79108	0.992	D	0.95373	0.8466	10	0.87932	D	0	-12.7463	19.7926	0.96466	0.0:0.0:1.0:0.0	.	494	P12268	IMDH2_HUMAN	M	494	ENSP00000321584:T494M	ENSP00000321584:T494M	T	-	2	0	IMPDH2	49036974	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	9.367000	0.97148	2.670000	0.90874	0.655000	0.94253	ACG		0.567	NDUFAF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345683.2	NM_199069		A	49061970	G	A	49061970	1	1	664	0	1	0	0	0	0	0	0	0	7734	1145	40	1		1	IMPDH2	3	49061970	IGR	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2035	49061970	148960460	160	41470										
BSN	8927	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	49694040	49694040	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtggcagtggggccctcagcCggccagggttcgagaaagag	18	10	1	2	rs370022838		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:49694040C>T	ENST00000296452.4	+	5	7165	c.7051C>T	c.(7051-7053)Cgg>Tgg	p.R2351W		NM_003458.3	NP_003449.2	Q9UPA5	BSN_HUMAN	bassoon presynaptic cytomatrix protein	2351					synaptic transmission (GO:0007268)	axon (GO:0030424)|cell junction (GO:0030054)|dendrite (GO:0030425)|neuron projection terminus (GO:0044306)|nucleus (GO:0005634)|presynaptic cytoskeletal matrix assembled at active zones (GO:0048788)	metal ion binding (GO:0046872)			breast(8)|central_nervous_system(2)|cervix(2)|endometrium(16)|kidney(3)|large_intestine(17)|lung(37)|ovary(7)|pancreas(1)|prostate(4)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	106				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		GGCCCTCAGCCGGCCAGGGTT	0.647																																																0								C	TRP/ARG	0,4384		0,0,2192	14	15	15		7051	4.6	1	3		15	1,8569		0,1,4284	no	missense	BSN	NM_003458.3	101	0,1,6476	TT,TC,CC		0.0117,0.0,0.0077	probably-damaging	2351/3927	49694040	1,12953	2192	4285	6477	SO:0001583	missense	8927			AF052224	CCDS2800.1	3p21	2013-01-07	2013-01-07		ENSG00000164061	ENSG00000164061			1117	protein-coding gene	gene with protein product	"zinc finger protein 231", "neuronal double zinc finger protein"	604020	"bassoon (presynaptic cytomatrix protein)"	ZNF231		9806829, 10329005	Standard	NM_003458		Approved		uc003cxe.4	Q9UPA5	OTTHUMG00000133750	ENST00000296452.4:c.7051C>T	3.37:g.49694040C>T	ENSP00000296452:p.Arg2351Trp	Somatic		WXS	Illumina HiSeq	Phase_I	O43161|Q7LGH3	Missense_Mutation	SNP	ENST00000296452.4	37	CCDS2800.1	.	.	.	.	.	.	.	.	.	.	C	8.910	0.958563	0.18507	0.0	1.17E-4	ENSG00000164061	ENST00000296452	T	0.18657	2.2	5.45	4.55	0.56014	.	0.745176	0.12546	N	0.459461	T	0.31796	0.0808	N	0.19112	0.55	0.37687	D	0.923715	D	0.89917	1.0	D	0.87578	0.998	T	0.23476	-1.0187	10	0.72032	D	0.01	-20.9049	11.971	0.53063	0.1737:0.8263:0.0:0.0	.	2351	Q9UPA5	BSN_HUMAN	W	2351	ENSP00000296452:R2351W	ENSP00000296452:R2351W	R	+	1	2	BSN	49669044	0.651000	0.27340	0.995000	0.50966	0.880000	0.50808	1.645000	0.37238	1.561000	0.49584	0.655000	0.94253	CGG		0.647	BSN-001	KNOWN	NMD_exception|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000258164.1	NM_003458		T	49694040	C	T	49694040	3	4	664	1	0	0	0	0	1	0	0	0	1532	643	23	1	7069	1	BSN	3	49694040	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	632070	49694040	148328390	161	41471										
MST1	327	hgsc.bcm.edu;mdanderson.org	37	chr3	49723817	49723817	+	IGR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcccaacgctggcaaggtacGcccgcagtggtggtattggc	14	12	0	0	rs146923247	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:49723817G>A	ENST00000296456.5	+	0	3220				MST1_ENST00000383728.3_Silent_p.G240G|MST1_ENST00000494828.2_5'Flank|AC099668.5_ENST00000563780.1_RNA|MST1_ENST00000449682.2_Silent_p.G315G|MST1_ENST00000545762.1_3'UTR	NM_001640.3	NP_001631.3	P13798	ACPH_HUMAN	acylaminoacyl-peptide hydrolase						beta-amyloid metabolic process (GO:0050435)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nuclear membrane (GO:0031965)	omega peptidase activity (GO:0008242)|poly(A) RNA binding (GO:0044822)|serine-type endopeptidase activity (GO:0004252)			endometrium(3)|large_intestine(1)|lung(6)|ovary(1)|skin(1)|stomach(2)|urinary_tract(1)	15				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GGCAAGGTACGCCCGCAGTGG	0.652																																																0													35	33	33					3																	49723817		2202	4297	6499	SO:0001628	intergenic_variant	4485			D38441	CCDS2801.1	3p21	2013-05-29	2013-05-29		ENSG00000164062	ENSG00000164062	3.4.19.1		586	protein-coding gene	gene with protein product	"acylaminoacyl-peptidase"	102645	"N-acylaminoacyl-peptide hydrolase"	D3F15S2, DNF15S2, D3S48E		2392324	Standard	NM_001640		Approved		uc003cxf.3	P13798	OTTHUMG00000156882		3.37:g.49723817G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BQ33|Q9P0Y2	Silent	SNP	ENST00000296456.5	37	CCDS2801.1																																																																																				0.652	APEH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346415.2			A	49723817	G	A	49723817	1	1	664	0	1	0	0	0	0	0	0	0	9897	1074	38	1		1	MST1	3	49723817	IGR	SNP	G	TCGA-KN-8428-01A-11D-2310-10	29777	49723817	148298613	162	41472										
MST1R	4486	broad.mit.edu;mdanderson.org	37	chr3	49940431	49940431	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagctggcagccacggctgcGtccagtgaggatgccacgta	14	12	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:49940431G>A	ENST00000296474.3	-	1	639	c.612C>T	c.(610-612)gaC>gaT	p.D204D	CTD-2330K9.2_ENST00000435478.1_RNA|CTD-2330K9.3_ENST00000419183.1_5'Flank|MST1R_ENST00000344206.4_Silent_p.D204D	NM_002447.2	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor (c-met-related tyrosine kinase)	204	Sema. {ECO:0000255|PROSITE- ProRule:PRU00352}.				cellular component movement (GO:0006928)|defense response (GO:0006952)|innate immune response (GO:0045087)|macrophage colony-stimulating factor signaling pathway (GO:0038145)|multicellular organismal development (GO:0007275)|positive regulation of cell proliferation (GO:0008284)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of protein kinase B signaling (GO:0051897)|response to virus (GO:0009615)|signal transduction (GO:0007165)|single fertilization (GO:0007338)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|stress fiber (GO:0001725)	ATP binding (GO:0005524)|enzyme binding (GO:0019899)|macrophage colony-stimulating factor receptor activity (GO:0005011)			cervix(1)|endometrium(5)|large_intestine(3)|lung(17)|ovary(5)|prostate(2)|skin(1)|urinary_tract(3)	37				BRCA - Breast invasive adenocarcinoma(193;4.65e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		CCACGGCTGCGTCCAGTGAGG	0.622																																																0													24	26	25					3																	49940431		2202	4299	6501	SO:0001819	synonymous_variant	4486			X70040	CCDS2807.1, CCDS58833.1	3p21	2008-08-18			ENSG00000164078	ENSG00000164078		"CD molecules"	7381	protein-coding gene	gene with protein product		600168	"PTK8 protein tyrosine kinase 8"	RON, PTK8		8386824	Standard	NM_002447		Approved	CDw136, CD136	uc003cxy.4	Q04912	OTTHUMG00000156709	ENST00000296474.3:c.612C>T	3.37:g.49940431G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B5A944|B5A945|B5A946|B5A947	Silent	SNP	ENST00000296474.3	37	CCDS2807.1																																																																																				0.622	MST1R-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000345403.1			A	49940431	G	A	49940431	2	1	664	1	0	0	0	0	0	0	0	1	9898	1136	40	1		1	MST1R	3	49940431	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	216614	49940431	148081999	163	41473										
RBM6	10180	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	50005642	50005642	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagatttcagaggtagacacCgatctaggactgatcaggat	11	8	3	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:50005642C>T	ENST00000266022.4	+	3	1043	c.784C>T	c.(784-786)Cga>Tga	p.R262*	RBM6_ENST00000443081.1_Nonsense_Mutation_p.R130*|RBM6_ENST00000539992.1_Intron|RBM6_ENST00000441115.1_Intron|RBM6_ENST00000442092.1_Intron|RBM6_ENST00000422955.1_Intron	NM_005777.2	NP_005768.1	P78332	RBM6_HUMAN	RNA binding motif protein 6	262					RNA processing (GO:0006396)	nucleus (GO:0005634)	DNA binding (GO:0003677)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(10)|ovary(3)|prostate(1)|skin(4)|urinary_tract(1)	33				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		AGGTAGACACCGATCTAGGAC	0.448																																																0													83	85	84					3																	50005642		2203	4300	6503	SO:0001587	stop_gained	10180			AF069517	CCDS2809.1, CCDS54586.1	3p21.3	2013-01-28			ENSG00000004534	ENSG00000004534		"RNA binding motif (RRM) containing", "G patch domain containing"	9903	protein-coding gene	gene with protein product		606886				10352938	Standard	NM_001167582		Approved	DEF-3, 3G2, NY-LU-12, g16, DEF3	uc003cyc.3	P78332	OTTHUMG00000156736	ENST00000266022.4:c.784C>T	3.37:g.50005642C>T	ENSP00000266022:p.Arg262*	Somatic		WXS	Illumina HiSeq	Phase_I	O60549|O75524|Q86SS3	Nonsense_Mutation	SNP	ENST00000266022.4	37	CCDS2809.1	.	.	.	.	.	.	.	.	.	.	C	18.22	3.576649	0.65878	.	.	ENSG00000004534	ENST00000266022;ENST00000443081	.	.	.	6.04	5.16	0.70880	.	0.237148	0.34853	N	0.003622	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-10.8677	8.0479	0.30559	0.3512:0.5757:0.0:0.0731	.	.	.	.	X	262;130	.	.	R	+	1	2	RBM6	49980646	0.920000	0.31207	0.998000	0.56505	0.992000	0.81027	2.172000	0.42463	1.543000	0.49345	0.561000	0.74099	CGA		0.448	RBM6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345528.4	NM_005777		T	50005642	C	T	50005642	4	4	664	1	0	0	0	0	0	1	0	0	13157	644	23	1	790	1	RBM6	3	50005642	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	65211	50005642	148016788	164	41474										
IFRD2	7866	mdanderson.org	37	chr3	50329826	50329826	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gacgacgggagccacacgccAcgcgcgccaccatcttcgcg	12	18	1	0	rs1076872	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:50329826A>G	ENST00000429673.2	-	1	71	c.72T>C	c.(70-72)cgT>cgC	p.R24R	IFRD2_ENST00000417626.2_5'UTR|IFRD2_ENST00000484043.1_5'Flank|IFRD2_ENST00000336089.4_Silent_p.R126R|IFRD2_ENST00000436390.1_5'UTR			Q12894	IFRD2_HUMAN	interferon-related developmental regulator 2	24						nucleus (GO:0005634)		p.R126R(1)		breast(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(7)|ovary(1)	14				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		GCCACACGCCACGCGCGCCAC	0.711													g|||	3866	0.771965	0.9871	0.8329	5008	,	,		12532	0.7817		0.6809	False		,,,				2504	0.5215															1	Substitution - coding silent(1)	haematopoietic_and_lymphoid_tissue(1)						G		1241,85		585,71,7	6	13	11		72	-2.6	0.9	3	dbSNP_86	11	2184,926		782,620,153	no	coding-synonymous	IFRD2	NM_006764.4		1367,691,160	GG,GA,AA		29.7749,6.4103,22.7908		24/507	50329826	3425,1011	663	1555	2218	SO:0001819	synonymous_variant	7866			U09585		3p21.3	2008-07-18			ENSG00000214706	ENSG00000214706			5457	protein-coding gene	gene with protein product	"interferon-related protein"	602725				9050919	Standard	NM_006764		Approved	SKMc15, SM15, IFNRP	uc011bdp.2	Q12894	OTTHUMG00000156935	ENST00000429673.2:c.72T>C	3.37:g.50329826A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BVB4|Q9UJ88	Silent	SNP	ENST00000429673.2	37	CCDS46831.1																																																																																				0.711	IFRD2-202	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_006764		G	50329826	A	G	50329826	2	3	664	1	0	0	0	0	0	0	0	1	7561	146	6	3		3	IFRD2	3	50329826	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	324184	50329826	147692604	165	41475										
DOCK3	1795	hgsc.bcm.edu;mdanderson.org	37	chr3	51315164	51315164	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtaagagggcagcggtgcccGcagtgcacagccgagatcac	15	12	1	2	rs370843265		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:51315164G>A	ENST00000266037.9	+	26	2825	c.2802G>A	c.(2800-2802)ccG>ccA	p.P934P		NM_004947.4	NP_004938.1	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	934					small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)	guanyl-nucleotide exchange factor activity (GO:0005085)			breast(2)|cervix(1)|endometrium(10)|kidney(4)|lung(22)|prostate(5)|urinary_tract(1)	45				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		AGCGGTGCCCGCAGTGCACAG	0.552																																																0								G		0,4060		0,0,2030	35	37	36		2802	2.5	1	3		36	1,8351		0,1,4175	no	coding-synonymous	DOCK3	NM_004947.4		0,1,6205	AA,AG,GG		0.012,0.0,0.0081		934/2031	51315164	1,12411	2030	4176	6206	SO:0001819	synonymous_variant	1795			AB002297	CCDS46835.1	3p21	2008-02-01			ENSG00000088538	ENSG00000088538			2989	protein-coding gene	gene with protein product		603123	"dedicator of cyto-kinesis 3"			9205841	Standard	NM_004947		Approved	KIAA0299, MOCA, PBP	uc011bds.2	Q8IZD9	OTTHUMG00000156892	ENST00000266037.9:c.2802G>A	3.37:g.51315164G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O15017	Silent	SNP	ENST00000266037.9	37	CCDS46835.1																																																																																				0.552	DOCK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346478.5	NM_004947		A	51315164	G	A	51315164	2	1	664	1	0	0	0	0	0	0	0	1	4690	1074	38	1		1	DOCK3	3	51315164	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	985338	51315164	146707266	166	41476										
DNAH1	25981	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	52420183	52420183	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcccatccccaggtggataCggccatcgccgaggagaccc	11	17	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:52420183C>T	ENST00000420323.2	+	55	8894	c.8633C>T	c.(8632-8634)aCg>aTg	p.T2878M		NM_015512.4	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2878	Stalk. {ECO:0000250}.				cilium movement (GO:0003341)|cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|response to mechanical stimulus (GO:0009612)	axonemal dynein complex (GO:0005858)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			cervix(2)|endometrium(18)|kidney(6)|large_intestine(3)|lung(31)|prostate(1)|urinary_tract(1)	62				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)		CAGGTGGATACGGCCATCGCC	0.552																																																0													50	54	53					3																	52420183		2050	4200	6250	SO:0001583	missense	25981			U61738	CCDS46842.1	3p21-p14	2008-02-05	2006-09-04		ENSG00000114841	ENSG00000114841		"Axonemal dyneins"	2940	protein-coding gene	gene with protein product		603332	"dynein, axonemal, heavy polypeptide 1"			8812413, 9256245	Standard	NM_015512		Approved	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11	uc011bef.2	Q9P2D7	OTTHUMG00000158378	ENST00000420323.2:c.8633C>T	3.37:g.52420183C>T	ENSP00000401514:p.Thr2878Met	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1R6|O00436|O15435|O95491|Q6ZU48|Q86YK7|Q8TEJ4|Q92863|Q9H8E6|Q9UFW6|Q9Y4Z7	Missense_Mutation	SNP	ENST00000420323.2	37	CCDS46842.1	.	.	.	.	.	.	.	.	.	.	C	19.54	3.846980	0.71603	.	.	ENSG00000114841	ENST00000420323	T	0.77358	-1.09	4.86	4.86	0.63082	.	0.000000	0.49916	D	0.000136	D	0.90854	0.7127	M	0.93062	3.375	0.50467	D	0.999872	D	0.89917	1.0	D	0.79784	0.993	D	0.92965	0.6392	10	0.72032	D	0.01	.	18.1681	0.89734	0.0:1.0:0.0:0.0	.	2878	C9JXH6	.	M	2878	ENSP00000401514:T2878M	ENSP00000401514:T2878M	T	+	2	0	DNAH1	52395223	1.000000	0.71417	0.994000	0.49952	0.934000	0.57294	7.039000	0.76544	2.518000	0.84900	0.563000	0.77884	ACG		0.552	DNAH1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350816.1	NM_015512		T	52420183	C	T	52420183	3	4	664	1	0	0	0	0	1	0	0	0	4599	536	19	1	8847	1	DNAH1	3	52420183	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1105019	52420183	145602247	167	41477										
STAB1	23166	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr3	52552013	52552013	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcacctgccgtgcccgagtCggcctggtaatgatgcccaa	11	15	1	1	rs185967985		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:52552013C>T	ENST00000321725.6	+	45	4831	c.4755C>T	c.(4753-4755)gtC>gtT	p.V1585V		NM_015136.2	NP_055951.2	Q9NY15	STAB1_HUMAN	stabilin 1	1585	FAS1 5. {ECO:0000255|PROSITE- ProRule:PRU00082, ECO:0000305}.				cell adhesion (GO:0007155)|cell-cell signaling (GO:0007267)|defense response to bacterium (GO:0042742)|inflammatory response (GO:0006954)|negative regulation of angiogenesis (GO:0016525)|oxidation-reduction process (GO:0055114)|receptor-mediated endocytosis (GO:0006898)	endocytic vesicle membrane (GO:0030666)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	hyaluronic acid binding (GO:0005540)|low-density lipoprotein particle binding (GO:0030169)|low-density lipoprotein receptor activity (GO:0005041)|protein disulfide oxidoreductase activity (GO:0015035)|scavenger receptor activity (GO:0005044)			breast(4)|central_nervous_system(3)|endometrium(7)|kidney(2)|large_intestine(13)|liver(1)|lung(27)|ovary(1)|pancreas(1)|prostate(4)|skin(6)|upper_aerodigestive_tract(4)|urinary_tract(3)	76				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)		GTGCCCGAGTCGGCCTGGTAA	0.602													C|||	1	0.000199681	0.0	0.0	5008	,	,		19871	0.0		0.001	False		,,,				2504	0.0															0													55	57	56					3																	52552013		2203	4300	6503	SO:0001819	synonymous_variant	23166			AJ275213	CCDS33768.1	3p21.31	2008-07-18			ENSG00000010327	ENSG00000010327			18628	protein-coding gene	gene with protein product	"MS-1 antigen", "fasciclin egf-like, laminin-type egf-like, and link domain-containing scavenger receptor-1", "common lymphatic endothelial and vascular endothelial receptor-1"	608560				11829752, 12077138	Standard	XM_005264973		Approved	KIAA0246, STAB-1, FEEL-1, CLEVER-1, FELE-1, FEX1	uc003dej.3	Q9NY15	OTTHUMG00000158574	ENST00000321725.6:c.4755C>T	3.37:g.52552013C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7E297|Q8IUH0|Q8IUH1|Q93072	Silent	SNP	ENST00000321725.6	37	CCDS33768.1																																																																																				0.602	STAB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351380.2	NM_015136		T	52552013	C	T	52552013	2	4	664	1	0	0	0	0	0	0	0	1	15249	871	31	1		1	STAB1	3	52552013	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	131830	52552013	145470417	168	41478										
CACNA1D	776	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr3	53757945	53757945	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttgggatgcagctgtttggCggcaagtttaattttgatga	13	5	0	2	rs562114124		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:53757945C>T	ENST00000350061.5	+	14	2530	c.2019C>T	c.(2017-2019)ggC>ggT	p.G673G	CACNA1D_ENST00000288139.4_Silent_p.G693G|CACNA1D_ENST00000422281.2_Silent_p.G673G	NM_001128840.1	NP_001122312.1	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type, alpha 1D subunit	673					adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|axon guidance (GO:0007411)|calcium ion import (GO:0070509)|calcium ion transmembrane transport (GO:0070588)|calcium ion transport (GO:0006816)|energy reserve metabolic process (GO:0006112)|membrane depolarization during action potential (GO:0086010)|membrane depolarization during cardiac muscle cell action potential (GO:0086012)|membrane repolarization during SA node cell action potential (GO:0086052)|positive regulation of calcium ion transport (GO:0051928)|regulation of atrial cardiac muscle cell membrane repolarization (GO:0060372)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of insulin secretion (GO:0050796)|regulation of potassium ion transmembrane transport (GO:1901379)|regulation of potassium ion transmembrane transporter activity (GO:1901016)|sensory perception of sound (GO:0007605)|small molecule metabolic process (GO:0044281)	plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)|Z disc (GO:0030018)	alpha-actinin binding (GO:0051393)|ankyrin binding (GO:0030506)|high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)|voltage-gated calcium channel activity involved in cardiac muscle cell action potential (GO:0086007)|voltage-gated calcium channel activity involved SA node cell action potential (GO:0086059)			breast(3)|central_nervous_system(9)|cervix(2)|endometrium(11)|kidney(7)|large_intestine(13)|liver(1)|lung(29)|ovary(6)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	90				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)	Amlodipine(DB00381)|Cinnarizine(DB00568)|Clevidipine(DB04920)|Dronedarone(DB04855)|Felodipine(DB01023)|Isradipine(DB00270)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Verapamil(DB00661)	AGCTGTTTGGCGGCAAGTTTA	0.453													C|||	1	0.000199681	0.0	0.0	5008	,	,		21775	0.001		0.0	False		,,,				2504	0.0															0													144	132	136					3																	53757945		2203	4300	6503	SO:0001819	synonymous_variant	776			AB209171	CCDS2872.1, CCDS46848.1, CCDS46849.1	3p14.3	2012-03-07			ENSG00000157388	ENSG00000157388		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1391	protein-coding gene	gene with protein product		114206		CCHL1A2, CACNL1A2		1664412	Standard	NM_000720		Approved	Cav1.3, CACH3, CACN4	uc003dgu.5	Q01668	OTTHUMG00000158278	ENST00000350061.5:c.2019C>T	3.37:g.53757945C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0FYA3|Q13916|Q13931|Q71UT1|Q9UDC3	Silent	SNP	ENST00000350061.5	37	CCDS46848.1																																																																																				0.453	CACNA1D-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350557.1	NM_000720		T	53757945	C	T	53757945	2	4	664	1	0	0	0	0	0	0	0	1	2543	755	27	1		1	CACNA1D	3	53757945	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1205932	53757945	144264485	169	41479										
SLMAP	7871	broad.mit.edu	37	chr3	57843846	57843846	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgaagatagactcttatcacGgttagaagttatgggaaacc	10	6	2	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:57843846G>A	ENST00000428312.1	+	7	741	c.647G>A	c.(646-648)cGg>cAg	p.R216Q	SLMAP_ENST00000295952.3_Missense_Mutation_p.R216Q|SLMAP_ENST00000416870.1_5'UTR|SLMAP_ENST00000295951.3_Missense_Mutation_p.R216Q|SLMAP_ENST00000449503.2_Missense_Mutation_p.R216Q|SLMAP_ENST00000383718.3_Missense_Mutation_p.R216Q			Q14BN4	SLMAP_HUMAN	sarcolemma associated protein	216					muscle contraction (GO:0006936)	cytoskeleton (GO:0005856)|integral component of plasma membrane (GO:0005887)|smooth endoplasmic reticulum (GO:0005790)				endometrium(5)|kidney(1)|large_intestine(3)|lung(7)|urinary_tract(2)	18				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)		CTCTTATCACGGTTAGAAGTT	0.294																																																0													117	123	121					3																	57843846		2203	4297	6500	SO:0001583	missense	7871			AF100750	CCDS33774.1	3p21.2-p14.3	2008-07-18			ENSG00000163681	ENSG00000163681			16643	protein-coding gene	gene with protein product	"Sarcolemmal-associated protein"	602701				9405447, 11042152	Standard	NM_007159		Approved	SLAP, KIAA1601	uc003djd.1	Q14BN4	OTTHUMG00000133764	ENST00000428312.1:c.647G>A	3.37:g.57843846G>A	ENSP00000398661:p.Arg216Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q14C95|Q6AI54|Q6UXC9|Q6ZVQ8|Q8NCW9|Q9H297|Q9HCH1|Q9Y681	Missense_Mutation	SNP	ENST00000428312.1	37		.	.	.	.	.	.	.	.	.	.	G	36	5.602794	0.96614	.	.	ENSG00000163681	ENST00000295951;ENST00000295952;ENST00000383718;ENST00000428312;ENST00000449503	T;T;T;T;T	0.55588	0.51;0.51;0.51;0.51;0.51	6.08	6.08	0.98989	.	0.000000	0.85682	D	0.000000	T	0.73814	0.3635	M	0.70595	2.14	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.85130	0.983;0.997;0.997;0.991	T	0.70299	-0.4910	10	0.44086	T	0.13	-8.5479	20.6721	0.99693	0.0:0.0:1.0:0.0	.	216;216;216;216	Q14BN4-2;Q14BN4;Q14BN4-3;Q14BN4-6	.;SLMAP_HUMAN;.;.	Q	216	ENSP00000295951:R216Q;ENSP00000295952:R216Q;ENSP00000373224:R216Q;ENSP00000398661:R216Q;ENSP00000412945:R216Q	ENSP00000295951:R216Q	R	+	2	0	SLMAP	57818886	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	8.781000	0.91805	2.894000	0.99253	0.591000	0.81541	CGG		0.294	SLMAP-013	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000351584.1	NM_007159		A	57843846	G	A	57843846	3	1	664	1	0	0	0	0	1	0	0	0	14762	1116	39	1	673	1	SLMAP	3	57843846	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4085901	57843846	140178584	170	41480										
ATXN7	6314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	63981293	63981293	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctatctggcagcagccaccGtctctacatccccagtcctg	8	17	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:63981293G>A	ENST00000295900.6	+	12	2345	c.1795G>A	c.(1795-1797)Gtc>Atc	p.V599I	ATXN7_ENST00000398590.3_Missense_Mutation_p.V599I|ATXN7_ENST00000484332.1_Missense_Mutation_p.V454I|ATXN7_ENST00000487717.1_Missense_Mutation_p.V599I|ATXN7_ENST00000538065.1_Missense_Mutation_p.V599I	NM_000333.3	NP_000324.1	O15265	ATX7_HUMAN	ataxin 7	599					cell death (GO:0008219)|chromatin organization (GO:0006325)|histone deubiquitination (GO:0016578)|microtubule cytoskeleton organization (GO:0000226)|negative regulation of insulin-like growth factor receptor signaling pathway (GO:0043569)|negative regulation of phosphorylation (GO:0042326)|nucleus organization (GO:0006997)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|microtubule cytoskeleton (GO:0015630)|nucleus (GO:0005634)	chromatin binding (GO:0003682)			NS(1)|breast(1)|endometrium(6)|kidney(2)|large_intestine(7)|lung(12)|prostate(2)|stomach(1)|urinary_tract(3)	35		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		AGCAGCCACCGTCTCTACATC	0.537																																																0													125	130	128					3																	63981293		2200	4299	6499	SO:0001583	missense	6314			AJ000517	CCDS43102.1, CCDS46861.1, CCDS46861.2, CCDS54603.1	3p21.1-p12	2014-09-17	2004-08-12	2004-08-12	ENSG00000163635	ENSG00000163635		"Ataxins"	10560	protein-coding gene	gene with protein product		607640	"spinocerebellar ataxia 7 (olivopontocerebellar atrophy with retinal degeneration)"	SCA7		7647798, 10598805	Standard	NM_000333		Approved	OPCA3, ADCAII	uc021wzy.1	O15265	OTTHUMG00000158763	ENST00000295900.6:c.1795G>A	3.37:g.63981293G>A	ENSP00000295900:p.Val599Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B4E207|E9PHP9|O75328|O75329|Q9Y6P8	Missense_Mutation	SNP	ENST00000295900.6	37	CCDS43102.1	.	.	.	.	.	.	.	.	.	.	G	1.445	-0.566474	0.03910	.	.	ENSG00000163635	ENST00000398590;ENST00000295900;ENST00000487717;ENST00000538065;ENST00000484332	T;T;T;T;T	0.14640	2.5;2.51;2.51;2.5;2.49	5.33	2.56	0.30785	.	0.430246	0.24381	N	0.039018	T	0.06142	0.0159	N	0.22421	0.69	0.09310	N	1	B;B;P	0.39737	0.396;0.017;0.685	B;B;B	0.28385	0.038;0.003;0.089	T	0.35798	-0.9774	10	0.07325	T	0.83	-0.3532	10.9505	0.47325	0.2054:0.0:0.7946:0.0	.	454;599;599	E9PHP9;O15265-2;O15265	.;.;ATX7_HUMAN	I	599;599;599;599;454	ENSP00000381590:V599I;ENSP00000295900:V599I;ENSP00000420234:V599I;ENSP00000439585:V599I;ENSP00000428277:V454I	ENSP00000295900:V599I	V	+	1	0	ATXN7	63956333	0.054000	0.20591	0.008000	0.14137	0.002000	0.02628	0.283000	0.18846	0.253000	0.21552	-0.156000	0.13503	GTC		0.537	ATXN7-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000352070.1	NM_000333		A	63981293	G	A	63981293	3	1	664	1	0	0	0	0	1	0	0	0	1215	1145	40	1	1901	1	ATXN7	3	63981293	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6137447	63981293	134041137	171	41481										
LMOD3	56203	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	69168210	69168210	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcttgggtcctcccaacagCtcccacatcccagggggcag	12	16	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:69168210C>A	ENST00000420581.2	-	2	1475	c.1296G>T	c.(1294-1296)gaG>gaT	p.E432D	LMOD3_ENST00000475434.1_Missense_Mutation_p.E432D|LMOD3_ENST00000489031.1_Missense_Mutation_p.E432D	NM_198271.3	NP_938012.2	Q0VAK6	LMOD3_HUMAN	leiomodin 3 (fetal)	432						cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)				breast(2)|endometrium(2)|kidney(2)|large_intestine(3)|lung(3)|ovary(1)	13		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.88e-05)|Epithelial(33;0.000839)|LUSC - Lung squamous cell carcinoma(21;0.0119)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.205)|Kidney(39;0.24)		CTCCCAACAGCTCCCACATCC	0.542																																																0													73	77	76					3																	69168210		1947	4126	6073	SO:0001583	missense	56203			AK096900	CCDS46862.1	3p14.1	2003-03-07			ENSG00000163380	ENSG00000163380			6649	protein-coding gene	gene with protein product							Standard	NM_198271		Approved		uc003dns.2	Q0VAK6	OTTHUMG00000158774	ENST00000420581.2:c.1296G>T	3.37:g.69168210C>A	ENSP00000414670:p.Glu432Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DT85|Q0JTT2|Q5JPG6|Q8IUK4|Q96LS4	Missense_Mutation	SNP	ENST00000420581.2	37	CCDS46862.1	.	.	.	.	.	.	.	.	.	.	C	13.72	2.320980	0.41096	.	.	ENSG00000163380	ENST00000420581;ENST00000489031;ENST00000475434	T;T;T	0.13778	2.56;2.56;2.56	5.84	5.84	0.93424	.	0.090855	0.85682	D	0.000000	T	0.15478	0.0373	M	0.67953	2.075	0.48135	D	0.999595	P	0.45348	0.856	B	0.38842	0.283	T	0.03922	-1.0992	10	0.20046	T	0.44	-33.5411	12.8236	0.57707	0.0:0.8839:0.0:0.1161	.	432	Q0VAK6	LMOD3_HUMAN	D	432	ENSP00000414670:E432D;ENSP00000417210:E432D;ENSP00000418645:E432D	ENSP00000414670:E432D	E	-	3	2	LMOD3	69250900	1.000000	0.71417	0.984000	0.44739	0.879000	0.50718	1.401000	0.34589	2.779000	0.95612	0.591000	0.81541	GAG		0.542	LMOD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352138.1	XM_067529		A	69168210	C	A	69168210	3	1	664	1	0	0	0	0	1	0	0	0	8865	796	28	4	394	4	LMOD3	3	69168210	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5186917	69168210	128854220	172	41482										
GPR27	2850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr3	71804265	71804265	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttcagggcccagttcccctgCtgccagagcccccggaccac	10	19	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:71804265C>T	ENST00000304411.2	+	1	1065	c.1065C>T	c.(1063-1065)tgC>tgT	p.C355C	EIF4E3_ENST00000295612.3_5'Flank|EIF4E3_ENST00000421769.2_5'Flank|EIF4E3_ENST00000448225.1_5'Flank	NM_018971.1	NP_061844.1	Q9NS67	GPR27_HUMAN	G protein-coupled receptor 27	355					signal transduction (GO:0007165)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			kidney(1)|lung(2)|ovary(1)|prostate(1)	5		Prostate(10;0.00899)		BRCA - Breast invasive adenocarcinoma(55;1.78e-05)|Epithelial(33;5.75e-05)|Lung(16;0.0012)|LUSC - Lung squamous cell carcinoma(21;0.00156)		AGTTCCCCTGCTGCCAGAGCC	0.647																																																0													14	14	14					3																	71804265		2160	4226	6386	SO:0001819	synonymous_variant	2850			AB040799	CCDS2915.1	3p21-p14	2012-08-21			ENSG00000170837	ENSG00000170837		"GPCR / Class A : Orphans"	4482	protein-coding gene	gene with protein product		605187				10833454	Standard	NM_018971		Approved	SREB1	uc011bge.2	Q9NS67	OTTHUMG00000158810	ENST00000304411.2:c.1065C>T	3.37:g.71804265C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000304411.2	37	CCDS2915.1																																																																																				0.647	GPR27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352303.1	NM_018971		T	71804265	C	T	71804265	2	4	664	1	0	0	0	0	0	0	0	1	6692	805	28	2		2	GPR27	3	71804265	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2636055	71804265	126218165	173	41483										
PPP4R2	151987	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	73096446	73096446	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcctcccaaccctaatgtcGaatatattccctttgatgaa	5	12	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:73096446G>A	ENST00000356692.5	+	3	479	c.226G>A	c.(226-228)Gaa>Aaa	p.E76K	PPP4R2_ENST00000295862.9_Missense_Mutation_p.E20K|PPP4R2_ENST00000394284.3_Intron			Q9NY27	PP4R2_HUMAN	protein phosphatase 4, regulatory subunit 2	76					cellular protein modification process (GO:0006464)|hematopoietic progenitor cell differentiation (GO:0002244)|mRNA processing (GO:0006397)|regulation of catalytic activity (GO:0050790)|regulation of double-strand break repair via homologous recombination (GO:0010569)|RNA splicing (GO:0008380)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|protein phosphatase 4 complex (GO:0030289)	protein binding, bridging (GO:0030674)|protein phosphatase type 4 regulator activity (GO:0030362)			breast(2)|endometrium(1)|large_intestine(1)|lung(3)|skin(2)|stomach(1)|urinary_tract(2)	12		Prostate(10;0.0187)|Lung SC(41;0.236)		Epithelial(33;1.76e-07)|BRCA - Breast invasive adenocarcinoma(55;9.42e-05)|LUSC - Lung squamous cell carcinoma(21;0.00211)|Lung(16;0.00643)|KIRC - Kidney renal clear cell carcinoma(39;0.0164)|Kidney(39;0.0193)|OV - Ovarian serous cystadenocarcinoma(275;0.031)		CCCTAATGTCGAATATATTCC	0.348																																																0													51	56	54					3																	73096446		2203	4299	6502	SO:0001583	missense	151987			AJ271448	CCDS2917.1	3q29	2010-06-18			ENSG00000163605	ENSG00000163605		"Serine/threonine phosphatases / Protein phosphatase 4, regulatory subunits"	18296	protein-coding gene	gene with protein product		613822				10769191	Standard	NM_174907		Approved		uc003dph.1	Q9NY27	OTTHUMG00000158816	ENST00000356692.5:c.226G>A	3.37:g.73096446G>A	ENSP00000349124:p.Glu76Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1I6|Q2TAJ9|Q498B8|Q8WXX6	Missense_Mutation	SNP	ENST00000356692.5	37	CCDS2917.1	.	.	.	.	.	.	.	.	.	.	G	22.2	4.255741	0.80135	.	.	ENSG00000163605	ENST00000356692;ENST00000488810;ENST00000295862;ENST00000476505	T;T;T;T	0.46819	0.86;0.86;0.86;0.86	5.48	5.48	0.80851	.	0.000000	0.85682	D	0.000000	T	0.69975	0.3171	M	0.71296	2.17	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.72308	-0.4332	10	0.72032	D	0.01	.	19.3579	0.94422	0.0:0.0:1.0:0.0	.	76	Q9NY27	PP4R2_HUMAN	K	76;76;20;38	ENSP00000349124:E76K;ENSP00000418750:E76K;ENSP00000295862:E20K;ENSP00000420098:E38K	ENSP00000295862:E20K	E	+	1	0	PPP4R2	73179136	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.700000	0.98707	2.576000	0.86940	0.557000	0.71058	GAA		0.348	PPP4R2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352321.1	NM_174907		A	73096446	G	A	73096446	3	1	664	1	0	0	0	0	1	0	0	0	12414	1059	37	1	236	1	PPP4R2	3	73096446	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1292181	73096446	124925984	174	41484										
ROBO1	6091	hgsc.bcm.edu;ucsc.edu	37	chr3	78666912	78666912	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaactaacactggagcgtccGctggaaatgttgtcctcctc	10	12	0	0	rs536505138		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:78666912G>A	ENST00000464233.1	-	27	4268	c.4155C>T	c.(4153-4155)agC>agT	p.S1385S	ROBO1_ENST00000467549.1_Silent_p.S1285S|ROBO1_ENST00000495273.1_Silent_p.S1340S|ROBO1_ENST00000436010.2_Silent_p.S1346S	NM_002941.3	NP_002932.1	Q9Y6N7	ROBO1_HUMAN	roundabout, axon guidance receptor, homolog 1 (Drosophila)	1385					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|axon guidance (GO:0007411)|axon midline choice point recognition (GO:0016199)|cell adhesion (GO:0007155)|cell migration involved in sprouting angiogenesis (GO:0002042)|chemorepulsion involved in postnatal olfactory bulb interneuron migration (GO:0021836)|homophilic cell adhesion (GO:0007156)|mammary duct terminal end bud growth (GO:0060763)|negative regulation of chemokine-mediated signaling pathway (GO:0070100)|negative regulation of mammary gland epithelial cell proliferation (GO:0033600)|negative regulation of negative chemotaxis (GO:0050925)|nervous system development (GO:0007399)|positive regulation of axonogenesis (GO:0050772)|Roundabout signaling pathway (GO:0035385)	axolemma (GO:0030673)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	axon guidance receptor activity (GO:0008046)|identical protein binding (GO:0042802)|LRR domain binding (GO:0030275)	p.S1362S(1)|p.S1340S(1)|p.S1385S(1)|p.S1389S(1)		breast(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(2)|lung(25)|urinary_tract(1)	44		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		TGGAGCGTCCGCTGGAAATGT	0.577																																																4	Substitution - coding silent(4)	lung(4)											53	60	57					3																	78666912		1967	4136	6103	SO:0001819	synonymous_variant	6091			AF040990	CCDS46872.1, CCDS46872.2, CCDS54610.1, CCDS54611.1	3p12.3	2013-02-11	2001-11-28		ENSG00000169855	ENSG00000169855		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	10249	protein-coding gene	gene with protein product		602430	"roundabout (axon guidance receptor, Drosophila) homolog 1"			9458045, 9608531	Standard	NM_002941		Approved	DUTT1, FLJ21882, SAX3	uc003dqe.2	Q9Y6N7	OTTHUMG00000158843	ENST00000464233.1:c.4155C>T	3.37:g.78666912G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RXI1|D3DU36|E9PD49|Q1RMC7|Q7Z300|Q9BUS7	Silent	SNP	ENST00000464233.1	37	CCDS54611.1																																																																																				0.577	ROBO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352610.1	NM_002941		A	78666912	G	A	78666912	2	1	664	1	0	0	0	0	0	0	0	1	13526	1078	38	1		1	ROBO1	3	78666912	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5570466	78666912	119355518	175	41485										
HTR1F	3355	broad.mit.edu;bcgsc.ca	37	chr3	88040986	88040986	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagcattccaaaagcttgtgCgatgtcgatgttagttttaa	9	6	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:88040986C>T	ENST00000319595.4	+	1	1141	c.1087C>T	c.(1087-1089)Cga>Tga	p.R363*		NM_000866.3	NP_000857.1	P30939	5HT1F_HUMAN	5-hydroxytryptamine (serotonin) receptor 1F, G protein-coupled	363					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|serotonin receptor signaling pathway (GO:0007210)|synaptic transmission (GO:0007268)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	serotonin binding (GO:0051378)|serotonin receptor activity (GO:0004993)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(12)|ovary(3)|skin(1)|upper_aerodigestive_tract(1)	25	all_cancers(8;0.147)	Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00664)	Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Ergotamine(DB00696)|Ketamine(DB01221)|Methysergide(DB00247)|Mianserin(DB06148)|Naratriptan(DB00952)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Zolmitriptan(DB00315)	AAAGCTTGTGCGATGTCGATG	0.338																																																0													44	47	46					3																	88040986		2200	4299	6499	SO:0001587	stop_gained	3355			L05597	CCDS2920.1	3p12	2012-08-08	2012-02-03		ENSG00000179097	ENSG00000179097		"5-HT (serotonin) receptors", "GPCR / Class A : 5-HT (serotonin) receptors, GPCR only"	5292	protein-coding gene	gene with protein product		182134	"5-hydroxytryptamine (serotonin) receptor 1F"			8384716, 8380639	Standard	NM_000866		Approved	HTR1EL, 5-HT1F	uc003dqr.2	P30939	OTTHUMG00000159008	ENST00000319595.4:c.1087C>T	3.37:g.88040986C>T	ENSP00000322924:p.Arg363*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000319595.4	37	CCDS2920.1	.	.	.	.	.	.	.	.	.	.	C	32	5.115192	0.94339	.	.	ENSG00000179097	ENST00000319595	.	.	.	5.54	4.59	0.56863	.	0.271359	0.32518	N	0.005996	.	.	.	.	.	.	0.31805	N	0.627955	.	.	.	.	.	.	.	.	.	.	0.15499	T	0.54	.	12.5546	0.56246	0.1989:0.801:0.0:0.0	.	.	.	.	X	363	.	ENSP00000322924:R363X	R	+	1	2	HTR1F	88123676	0.995000	0.38212	1.000000	0.80357	0.972000	0.66771	2.287000	0.43505	2.607000	0.88179	0.557000	0.71058	CGA		0.338	HTR1F-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352890.1	NM_000866		T	88040986	C	T	88040986	4	4	664	1	0	0	0	0	0	1	0	0	7447	760	27	1	1089	1	HTR1F	3	88040986	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	9374074	88040986	109981444	176	41486										
CGGBP1	8545	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr3	88105046	88105046	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agctcacctccaaactcagtGactcgatccaggggagtcac	9	14	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:88105046G>A	ENST00000398392.2	-	1	1413	c.81C>T	c.(79-81)gtC>gtT	p.V27V	CGGBP1_ENST00000462901.1_Silent_p.V27V|CGGBP1_ENST00000482016.1_Silent_p.V27V|CGGBP1_ENST00000309534.6_Silent_p.V27V|CGGBP1_ENST00000474441.1_5'Flank			Q9UFW8	CGBP1_HUMAN	CGG triplet repeat binding protein 1	27					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)	nucleus (GO:0005634)	double-stranded DNA binding (GO:0003690)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001227)			kidney(1)|large_intestine(2)|lung(2)	5		Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00359)|Lung(72;0.00677)		CAAACTCAGTGACTCGATCCA	0.453																																																0													103	103	103					3																	88105046		1990	4178	6168	SO:0001819	synonymous_variant	8545			AJ000258	CCDS43111.1	3p12-p11.1	2008-07-18			ENSG00000163320	ENSG00000163320			1888	protein-coding gene	gene with protein product	"p20-CGG binding protein"	603363				9201980, 14667814	Standard	NM_001195308		Approved	p20-CGGBP, CGGBP	uc003dqt.3	Q9UFW8	OTTHUMG00000159009	ENST00000398392.2:c.81C>T	3.37:g.88105046G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DU38|O15183	Silent	SNP	ENST00000398392.2	37	CCDS43111.1																																																																																				0.453	CGGBP1-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352955.1	NM_001008390		A	88105046	G	A	88105046	2	1	664	1	0	0	0	0	0	0	0	1	3304	1277	45	2		2	CGGBP1	3	88105046	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	64060	88105046	109917384	177	41487										
EPHA3	2042	broad.mit.edu;bcgsc.ca	37	chr3	89498501	89498501	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtcttatggagagagaccaTactgggagatgtccaatcag	12	7	2	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:89498501T>C	ENST00000336596.2	+	14	2698	c.2473T>C	c.(2473-2475)Tac>Cac	p.Y825H	EPHA3_ENST00000494014.1_Missense_Mutation_p.Y825H	NM_005233.5	NP_005224.2	P29320	EPHA3_HUMAN	EPH receptor A3	825	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cell adhesion (GO:0007155)|cell migration (GO:0016477)|cellular response to retinoic acid (GO:0071300)|ephrin receptor signaling pathway (GO:0048013)|fasciculation of motor neuron axon (GO:0097156)|fasciculation of sensory neuron axon (GO:0097155)|positive regulation of neuron projection development (GO:0010976)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of epithelial to mesenchymal transition (GO:0010717)|regulation of focal adhesion assembly (GO:0051893)|regulation of microtubule cytoskeleton organization (GO:0070507)|regulation of Rho GTPase activity (GO:0032319)	early endosome (GO:0005769)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)	ATP binding (GO:0005524)|GPI-linked ephrin receptor activity (GO:0005004)			NS(1)|breast(4)|central_nervous_system(4)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(26)|liver(3)|lung(67)|ovary(7)|pancreas(1)|prostate(4)|skin(8)|stomach(1)|upper_aerodigestive_tract(5)	139	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)		AGAGAGACCATACTGGGAGAT	0.438										TSP Lung(6;0.00050)																																						0													250	228	235					3																	89498501		2203	4300	6503	SO:0001583	missense	2042			M83941	CCDS2922.1, CCDS46875.1	3p11.2	2013-02-11	2004-10-28		ENSG00000044524	ENSG00000044524	2.7.10.1	"EPH receptors", "Sterile alpha motif (SAM) domain containing", "Fibronectin type III domain containing"	3387	protein-coding gene	gene with protein product		179611	"EphA3"	ETK, ETK1, TYRO4		1737782, 1311845	Standard	NM_005233		Approved	HEK, HEK4	uc003dqy.3	P29320	OTTHUMG00000159040	ENST00000336596.2:c.2473T>C	3.37:g.89498501T>C	ENSP00000337451:p.Tyr825His	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H2V3|Q9H2V4	Missense_Mutation	SNP	ENST00000336596.2	37	CCDS2922.1	.	.	.	.	.	.	.	.	.	.	T	23.8	4.463042	0.84425	.	.	ENSG00000044524	ENST00000336596;ENST00000494014	T;T	0.64438	-0.1;-0.1	5.34	5.34	0.76211	Serine-threonine/tyrosine-protein kinase (2);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	D	0.82604	0.5073	M	0.90369	3.11	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.86236	0.1640	9	.	.	.	.	15.3454	0.74334	0.0:0.0:0.0:1.0	.	825	P29320	EPHA3_HUMAN	H	825	ENSP00000337451:Y825H;ENSP00000419190:Y825H	.	Y	+	1	0	EPHA3	89581191	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.993000	0.88291	2.030000	0.59900	0.533000	0.62120	TAC		0.438	EPHA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352995.1	NM_005233		C	89498501	T	C	89498501	3	2	664	1	0	0	0	0	1	0	0	0	5170	1406	49	3	2553	3	EPHA3	3	89498501	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1393455	89498501	108523929	178	41488										
CRYBG3	131544	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	97607247	97607247	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agttctggaggaagaccatgGgctctttgagatttctacag	12	7	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:97607247G>A	ENST00000182096.4	+	6	1572	c.1508G>A	c.(1507-1509)gGg>gAg	p.G503E		NM_153605.3	NP_705833.3	Q68DQ2	CRBG3_HUMAN	beta-gamma crystallin domain containing 3	2451							carbohydrate binding (GO:0030246)			breast(1)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(9)|lung(10)|stomach(1)|upper_aerodigestive_tract(2)	32						GAAGACCATGGGCTCTTTGAG	0.343																																																0													64	59	60					3																	97607247		1818	4070	5888	SO:0001583	missense	131544					3q11.2	2008-09-30			ENSG00000080200	ENSG00000080200			34427	protein-coding gene	gene with protein product							Standard	NM_153605		Approved	DKFZp667G2110	uc021xbn.2	Q68DQ2	OTTHUMG00000159187	ENST00000182096.4:c.1508G>A	3.37:g.97607247G>A	ENSP00000182096:p.Gly503Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DLE8|F6VHI2|Q4G0V8|Q7Z4R9|Q86VD0|Q8N262|Q8N7F1|Q8NDQ8	Missense_Mutation	SNP	ENST00000182096.4	37		.	.	.	.	.	.	.	.	.	.	G	11.15	1.555254	0.27739	.	.	ENSG00000080200	ENST00000182096	T	0.74421	-0.84	5.54	3.74	0.42951	Beta/gamma crystallin (2);Gamma-crystallin-related (1);	0.404354	0.23782	N	0.044602	T	0.51058	0.1652	N	0.10874	0.06	0.54753	D	0.999988	B	0.19331	0.035	B	0.20767	0.031	T	0.42849	-0.9427	10	0.30854	T	0.27	.	5.8824	0.18862	0.1634:0.0:0.6808:0.1558	.	503	Q68DQ2	CRBG3_HUMAN	E	503	ENSP00000182096:G503E	ENSP00000182096:G503E	G	+	2	0	CRYBG3	99089937	0.487000	0.25988	0.998000	0.56505	0.987000	0.75469	1.347000	0.33975	1.345000	0.45676	0.655000	0.94253	GGG		0.343	CRYBG3-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000353751.1	NM_153605		A	97607247	G	A	97607247	3	1	664	1	0	0	0	0	1	0	0	0	3915	1232	43	2	1530	2	CRYBG3	3	97607247	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	8108746	97607247	100415183	179	41489										
PARP14	54625	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr3	122420029	122420029	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggaaagctgccctaccaccaCgtgatccatgcagtggggcc	12	14	0	1	rs375197249		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:122420029C>T	ENST00000474629.2	+	6	2894	c.2628C>T	c.(2626-2628)caC>caT	p.H876H		NM_017554.2	NP_060024.2	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	876	Macro 1. {ECO:0000255|PROSITE- ProRule:PRU00490}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	NAD+ ADP-ribosyltransferase activity (GO:0003950)			NS(2)|breast(5)|cervix(2)|endometrium(7)|kidney(5)|large_intestine(8)|lung(14)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|urinary_tract(1)	50				GBM - Glioblastoma multiforme(114;0.0531)		CCTACCACCACGTGATCCATG	0.582																																																0								C		1,4009		0,1,2004	29	30	30		2628	-12.1	0	3		30	0,8314		0,0,4157	no	coding-synonymous	PARP14	NM_017554.2		0,1,6161	TT,TC,CC		0.0,0.0249,0.0081		876/1802	122420029	1,12323	2005	4157	6162	SO:0001819	synonymous_variant	54625			AB033094	CCDS46894.1	3q21	2010-02-16			ENSG00000173193	ENSG00000173193		"Poly (ADP-ribose) polymerases"	29232	protein-coding gene	gene with protein product		610028				15273990	Standard	NM_017554		Approved	KIAA1268, pART8	uc003efq.4	Q460N5	OTTHUMG00000159552	ENST00000474629.2:c.2628C>T	3.37:g.122420029C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4E2H0|Q460N4|Q8J027|Q9H9X9|Q9NV60|Q9ULF2	Silent	SNP	ENST00000474629.2	37	CCDS46894.1																																																																																				0.582	PARP14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356173.2	NM_017554		T	122420029	C	T	122420029	2	4	664	1	0	0	0	0	0	0	0	1	11465	535	19	1		1	PARP14	3	122420029	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	24812782	122420029	75602401	180	41490										
CCDC14	64770	broad.mit.edu	37	chr3	123675252	123675252	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccagaatctgcattaaaacGtggtatttttcttaaatagg	8	6	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:123675252G>A	ENST00000488653.2	-	3	343	c.253C>T	c.(253-255)Cgt>Tgt	p.R85C	CCDC14_ENST00000483247.1_Intron|CCDC14_ENST00000489746.1_De_novo_Start_OutOfFrame|CCDC14_ENST00000433542.2_Missense_Mutation_p.R85C|CCDC14_ENST00000485727.1_De_novo_Start_OutOfFrame			Q49A88	CCD14_HUMAN	coiled-coil domain containing 14	85					substantia nigra development (GO:0021762)	centrosome (GO:0005813)				NS(1)|breast(2)|endometrium(2)|kidney(1)|large_intestine(5)|lung(10)	21		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)		GCATTAAAACGTGGTATTTTT	0.284																																																0													65	62	63					3																	123675252		692	1585	2277	SO:0001583	missense	64770			AL122079	CCDS3025.2	3q21.1	2014-03-20			ENSG00000175455	ENSG00000175455			25766	protein-coding gene	gene with protein product						12477932	Standard	NM_022757		Approved	FLJ12892, DKFZp434L1050	uc010hrt.3	Q49A88	OTTHUMG00000153005	ENST00000488653.2:c.253C>T	3.37:g.123675252G>A	ENSP00000420180:p.Arg85Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2T2|B8ZZ41|B8ZZ58|D3DN98|Q7Z3N3|Q86T30|Q8IWF8|Q8WUJ8|Q96K47|Q9H9A3|Q9UFH0	Missense_Mutation	SNP	ENST00000488653.2	37		.	.	.	.	.	.	.	.	.	.	G	3.595	-0.082774	0.07141	.	.	ENSG00000175455	ENST00000488653;ENST00000433542;ENST00000409697	T;T;T	0.50277	0.77;0.75;0.77	5.43	4.55	0.56014	.	.	.	.	.	T	0.32763	0.0840	N	0.21448	0.665	0.24462	N	0.99443	B;B	0.28082	0.2;0.2	B;B	0.21917	0.037;0.037	T	0.17715	-1.0360	9	0.44086	T	0.13	.	9.8274	0.40921	0.0914:0.0:0.9086:0.0	.	85;85	Q49A88;Q49A88-6	CCD14_HUMAN;.	C	85;85;66	ENSP00000420180:R85C;ENSP00000395706:R85C;ENSP00000386866:R66C	ENSP00000386866:R66C	R	-	1	0	CCDC14	125157942	0.953000	0.32496	0.096000	0.21009	0.182000	0.23217	3.213000	0.51153	1.527000	0.49086	0.655000	0.94253	CGT		0.284	CCDC14-202	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_022757		A	123675252	G	A	123675252	3	1	664	1	0	0	0	0	1	0	0	0	2775	1145	40	1	2525	1	CCDC14	3	123675252	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1255223	123675252	74347178	181	41491										
ROPN1	54763	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	123689003	123689003	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgctgaacgggatccggggcGacccaccattatggtcacat	12	12	1	1	rs140868038		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:123689003G>A	ENST00000184183.4	-	6	798	c.458C>T	c.(457-459)tCg>tTg	p.S153L	ROPN1_ENST00000405845.3_Missense_Mutation_p.S153L	NM_017578.2	NP_060048.2	Q9HAT0	ROP1A_HUMAN	rhophilin associated tail protein 1	153						cytoplasm (GO:0005737)|nucleus (GO:0005634)		p.S153L(1)		lung(2)|ovary(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.148)		GATCCGGGGCGACCCACCATT	0.433																																																1	Substitution - Missense(1)	skin(1)											144	128	133					3																	123689003		2203	4300	6503	SO:0001583	missense	54763			AF231410	CCDS3026.1	3q21.1	2011-01-20	2011-01-20			ENSG00000065371			17692	protein-coding gene	gene with protein product	"cancer/testis antigen 91"	611757	"ropporin, rhophilin associated protein 1"			10591629	Standard	NM_017578		Approved	ODF6, ropporin, ROPN1A, CT91	uc003eha.3	Q9HAT0		ENST00000184183.4:c.458C>T	3.37:g.123689003G>A	ENSP00000184183:p.Ser153Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DN99|Q9UF38	Missense_Mutation	SNP	ENST00000184183.4	37	CCDS3026.1	.	.	.	.	.	.	.	.	.	.	G	7.115	0.576882	0.13686	.	.	ENSG00000065371	ENST00000184183;ENST00000405845	T;T	0.25749	1.78;1.78	4.84	3.06	0.35304	.	0.263021	0.28515	N	0.015079	T	0.18800	0.0451	L	0.29908	0.895	0.80722	D	1	B	0.02656	0.0	B	0.01281	0.0	T	0.03641	-1.1017	10	0.44086	T	0.13	0.0093	11.6213	0.51119	0.0981:0.0:0.9019:0.0	.	153	Q9HAT0	ROP1A_HUMAN	L	153	ENSP00000184183:S153L;ENSP00000385919:S153L	ENSP00000184183:S153L	S	-	2	0	ROPN1	125171693	1.000000	0.71417	0.463000	0.27130	0.000000	0.00434	2.704000	0.47118	0.600000	0.29862	-0.921000	0.02739	TCG		0.433	ROPN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356188.2	NM_017578		A	123689003	G	A	123689003	3	1	664	1	0	0	0	0	1	0	0	0	13536	1059	37	1	188	1	ROPN1	3	123689003	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	13751	123689003	74333427	182	41492										
KALRN	8997	broad.mit.edu;bcgsc.ca	37	chr3	123946899	123946899	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctatcctaaaggaaaaggtgGccttcgtgtctggtgagtat	12	7	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:123946899G>T	ENST00000240874.3	+	2	287	c.130G>T	c.(130-132)Gcc>Tcc	p.A44S	KALRN_ENST00000460856.1_Missense_Mutation_p.A44S|KALRN_ENST00000360013.3_Missense_Mutation_p.A44S	NM_003947.4	NP_003938.1	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase	44	CRAL-TRIO. {ECO:0000255|PROSITE- ProRule:PRU00056}.				apoptotic signaling pathway (GO:0097190)|intracellular signal transduction (GO:0035556)|nervous system development (GO:0007399)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|protein phosphorylation (GO:0006468)|regulation of small GTPase mediated signal transduction (GO:0051056)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)|vesicle-mediated transport (GO:0016192)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|guanyl-nucleotide exchange factor activity (GO:0005085)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(1)|breast(1)|central_nervous_system(1)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(21)|lung(28)|ovary(4)|prostate(5)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	83						GGAAAAGGTGGCCTTCGTGTC	0.448																																																0													258	247	250					3																	123946899		2203	4300	6503	SO:0001583	missense	8997			U94190	CCDS3027.1, CCDS3028.1	3q21.2	2013-02-11	2005-03-11	2005-03-12	ENSG00000160145	ENSG00000160145		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	4814	protein-coding gene	gene with protein product	"serine/threonine kinase with Dbl and pleckstrin homology domains"	604605	"huntingtin-associated protein interacting protein (duo)"	HAPIP		9285789, 10023074	Standard	NM_001024660		Approved	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24	uc003ehd.3	O60229	OTTHUMG00000125545	ENST00000240874.3:c.130G>T	3.37:g.123946899G>T	ENSP00000240874:p.Ala44Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8MSI4|C9JQ37|Q6ZN45|Q8TBQ5|Q9NSZ4|Q9Y2A5	Missense_Mutation	SNP	ENST00000240874.3	37	CCDS3027.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	30|30	5.057071|5.057071	0.93846|0.93846	.|.	.|.	ENSG00000160145|ENSG00000160145	ENST00000460856;ENST00000240874;ENST00000360013|ENST00000448253;ENST00000354186	D;D;D|.	0.84298|.	-1.83;-1.83;-1.83|.	4.79|4.79	4.79|4.79	0.61399|0.61399	Cellular retinaldehyde-binding/triple function, C-terminal (4);|.	0.000000|.	0.64402|.	D|.	0.000001|.	D|D	0.82416|0.82416	0.5032|0.5032	M|M	0.85710|0.85710	2.77|2.77	0.80722|0.80722	D|D	1|1	P;D;P|.	0.69078|.	0.946;0.997;0.933|.	P;D;P|.	0.80764|.	0.719;0.994;0.597|.	D|D	0.84731|0.84731	0.0745|0.0745	10|5	0.87932|.	D|.	0|.	.|.	18.0511|18.0511	0.89349|0.89349	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	44;44;44|.	C9IZQ6;O60229;O60229-2|.	.;KALRN_HUMAN;.|.	S|C	44|71;21	ENSP00000418611:A44S;ENSP00000240874:A44S;ENSP00000353109:A44S|.	ENSP00000240874:A44S|.	A|W	+|+	1|3	0|0	KALRN|KALRN	125429589|125429589	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	8.262000|8.262000	0.89862|0.89862	2.485000|2.485000	0.83878|0.83878	0.650000|0.650000	0.86243|0.86243	GCC|TGG		0.448	KALRN-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000258843.4	NM_003947		T	123946899	G	T	123946899	3	4	664	1	0	0	0	0	1	0	0	0	7982	1203	42	4	136	4	KALRN	3	123946899	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	257896	123946899	74075531	183	41493										
ITGB5	3693	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	124515406	124515406	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccggcacaggttctggtacaCgctctggttctccccatcct	9	16	3	0	rs576577571		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:124515406C>T	ENST00000296181.4	-	10	1818	c.1522G>A	c.(1522-1524)Gtg>Atg	p.V508M		NM_002213.3	NP_002204.2	P18084	ITB5_HUMAN	integrin, beta 5	508	Cysteine-rich tandem repeats.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cell-matrix adhesion (GO:0007160)|endodermal cell differentiation (GO:0035987)|epithelial cell-cell adhesion (GO:0090136)|extracellular matrix organization (GO:0030198)|integrin-mediated signaling pathway (GO:0007229)|muscle contraction (GO:0006936)|stress fiber assembly (GO:0043149)|transforming growth factor beta receptor signaling pathway (GO:0007179)	cell leading edge (GO:0031252)|cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integrin alphav-beta5 complex (GO:0034684)|phagocytic vesicle (GO:0045335)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	receptor activity (GO:0004872)			breast(1)|endometrium(3)|kidney(2)|large_intestine(8)|lung(10)|prostate(1)|skin(2)|upper_aerodigestive_tract(3)	30				GBM - Glioblastoma multiforme(114;0.163)		TTCTGGTACACGCTCTGGTTC	0.657													C|||	1	0.000199681	0.0008	0.0	5008	,	,		17297	0.0		0.0	False		,,,				2504	0.0															0													48	47	47					3																	124515406		2203	4300	6503	SO:0001583	missense	3693			J05633	CCDS3030.1	3q21.2	2010-03-23			ENSG00000082781	ENSG00000082781		"Integrins"	6160	protein-coding gene	gene with protein product		147561				2211615	Standard	NM_002213		Approved		uc003eho.3	P18084	OTTHUMG00000159432	ENST00000296181.4:c.1522G>A	3.37:g.124515406C>T	ENSP00000296181:p.Val508Met	Somatic		WXS	Illumina HiSeq	Phase_I	B0LPF8|B2RD70	Missense_Mutation	SNP	ENST00000296181.4	37	CCDS3030.1	.	.	.	.	.	.	.	.	.	.	C	10.37	1.330459	0.24167	.	.	ENSG00000082781	ENST00000296181	D	0.90732	-2.72	5.26	3.38	0.38709	.	1.165470	0.05915	N	0.632346	T	0.81927	0.4926	N	0.19112	0.55	0.09310	N	1	B	0.19073	0.033	B	0.10450	0.005	T	0.69285	-0.5185	10	0.46703	T	0.11	.	1.548	0.02569	0.2704:0.3406:0.2537:0.1353	.	508	P18084	ITB5_HUMAN	M	508	ENSP00000296181:V508M	ENSP00000296181:V508M	V	-	1	0	ITGB5	125998096	0.000000	0.05858	0.015000	0.15790	0.824000	0.46624	-0.244000	0.08903	1.426000	0.47256	0.563000	0.77884	GTG		0.657	ITGB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355286.3	NM_002213		T	124515406	C	T	124515406	3	4	664	1	0	0	0	0	1	0	0	0	7905	536	19	1	901	1	ITGB5	3	124515406	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	568507	124515406	73507024	184	41494										
PLXNA1	5361	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	126723819	126723819	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgcagctgactgtgcagcccCgcaatgtgtctgtcaccatg	11	13	2	1	rs117043507	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:126723819C>T	ENST00000393409.2	+	5	1711	c.1711C>T	c.(1711-1713)Cgc>Tgc	p.R571C	PLXNA1_ENST00000251772.4_Missense_Mutation_p.R548C	NM_032242.3	NP_115618.3	Q9UIW2	PLXA1_HUMAN	plexin A1	571					axon guidance (GO:0007411)|dichotomous subdivision of terminal units involved in salivary gland branching (GO:0060666)|multicellular organismal development (GO:0007275)|regulation of smooth muscle cell migration (GO:0014910)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|semaphorin receptor complex (GO:0002116)	receptor activity (GO:0004872)|semaphorin receptor activity (GO:0017154)			breast(3)|central_nervous_system(5)|endometrium(10)|kidney(5)|large_intestine(4)|lung(32)|ovary(2)|pancreas(1)|prostate(2)|skin(3)	67				GBM - Glioblastoma multiforme(114;0.155)		TGTGCAGCCCCGCAATGTGTC	0.657													C|||	2	0.000399361	0.0	0.0	5008	,	,		17680	0.001		0.001	False		,,,				2504	0.0															0													47	44	45					3																	126723819		2203	4300	6503	SO:0001583	missense	5361			X87832	CCDS33847.1, CCDS33847.2	3q21.2	2006-12-19				ENSG00000114554		"Plexins"	9099	protein-coding gene	gene with protein product		601055		PLXN1		8570614	Standard	NM_032242		Approved	NOV	uc003ejg.3	Q9UIW2		ENST00000393409.2:c.1711C>T	3.37:g.126723819C>T	ENSP00000377061:p.Arg571Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000393409.2	37	CCDS33847.2	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	C	6.096	0.386016	0.11524	.	.	ENSG00000114554	ENST00000393409;ENST00000251772	T;T	0.10005	2.92;2.92	3.4	2.43	0.29744	.	0.347098	0.20648	N	0.088262	T	0.09555	0.0235	L	0.44542	1.39	0.20403	N	0.9999	B	0.12013	0.005	B	0.09377	0.004	T	0.18272	-1.0342	10	0.72032	D	0.01	.	8.5712	0.33569	0.4609:0.5391:0.0:0.0	.	571	Q9UIW2	PLXA1_HUMAN	C	571;548	ENSP00000377061:R571C;ENSP00000251772:R548C	ENSP00000251772:R548C	R	+	1	0	PLXNA1	128206509	0.377000	0.25106	0.416000	0.26546	0.046000	0.14306	2.447000	0.44917	1.927000	0.55829	0.313000	0.20887	CGC		0.657	PLXNA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356451.1	NM_032242		T	126723819	C	T	126723819	3	4	664	1	0	0	0	0	1	0	0	0	12126	652	23	1	1729	1	PLXNA1	3	126723819	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2208413	126723819	71298611	185	41495										
MCM2	4171	broad.mit.edu;bcgsc.ca	37	chr3	127339608	127339608	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccgcatggcggaggcccacgCgcgcatccatctgcgggact	14	16	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:127339608C>T	ENST00000265056.7	+	14	2577	c.2333C>T	c.(2332-2334)gCg>gTg	p.A778V	MCM2_ENST00000468414.1_3'UTR	NM_004526.2	NP_004517.2	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	778					cell cycle (GO:0007049)|cellular response to interleukin-4 (GO:0071353)|DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA strand elongation involved in DNA replication (GO:0006271)|DNA unwinding involved in DNA replication (GO:0006268)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|nucleosome assembly (GO:0006334)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|MCM complex (GO:0042555)|microtubule cytoskeleton (GO:0015630)|nuclear origin of replication recognition complex (GO:0005664)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)|DNA replication origin binding (GO:0003688)|metal ion binding (GO:0046872)			ovary(3)|skin(2)|stomach(1)	6						GAGGCCCACGCGCGCATCCAT	0.582																																																0													119	110	113					3																	127339608		2203	4300	6503	SO:0001583	missense	4171			X67334	CCDS3043.1	3q21	2007-04-04	2007-04-04		ENSG00000073111	ENSG00000073111			6944	protein-coding gene	gene with protein product	"mitotin"	116945	"minichromosome maintenance deficient (S. cerevisiae) 2 (mitotin)", "MCM2 minichromosome maintenance deficient 2, mitotin (S. cerevisiae)"	CCNL1, CDCL1		1710453, 8258304	Standard	NM_004526		Approved	D3S3194, KIAA0030, BM28, cdc19	uc003ejp.4	P49736	OTTHUMG00000159637	ENST00000265056.7:c.2333C>T	3.37:g.127339608C>T	ENSP00000265056:p.Ala778Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q14577|Q15023|Q8N2V1|Q969W7|Q96AE1|Q9BRM7	Missense_Mutation	SNP	ENST00000265056.7	37	CCDS3043.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	18.49|18.49	3.636410|3.636410	0.67130|0.67130	.|.	.|.	ENSG00000073111|ENSG00000073111	ENST00000265056;ENST00000539922;ENST00000543142|ENST00000491422	T|.	0.21031|.	2.03|.	5.7|5.7	4.82|4.82	0.62117|0.62117	.|.	0.047367|.	0.85682|.	D|.	0.000000|.	D|D	0.91157|0.91157	0.7215|0.7215	H|H	0.99143|0.99143	4.445|4.445	0.80722|0.80722	D|D	1|1	B;B;P|.	0.50443|.	0.214;0.287;0.935|.	B;B;P|.	0.48921|.	0.053;0.172;0.595|.	D|D	0.95135|0.95135	0.8258|0.8258	10|5	0.87932|.	D|.	0|.	-29.4073|-29.4073	16.8658|16.8658	0.86029|0.86029	0.0:0.8717:0.1283:0.0|0.0:0.8717:0.1283:0.0	.|.	828;648;778|.	F5H1E9;B4DSV5;P49736|.	.;.;MCM2_HUMAN|.	V|C	778;682;828|710	ENSP00000265056:A778V|.	ENSP00000265056:A778V|.	A|R	+|+	2|1	0|0	MCM2|MCM2	128822298|128822298	1.000000|1.000000	0.71417|0.71417	0.823000|0.823000	0.32752|0.32752	0.005000|0.005000	0.04900|0.04900	7.344000|7.344000	0.79328|0.79328	1.408000|1.408000	0.46895|0.46895	-0.171000|-0.171000	0.13296|0.13296	GCG|CGC		0.582	MCM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356612.1			T	127339608	C	T	127339608	3	4	664	1	0	0	0	0	1	0	0	0	9393	768	27	1	2387	1	MCM2	3	127339608	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	615789	127339608	70682822	186	41496										
IFT122	55764	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	129233374	129233374	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgggtaccctgaccatccgcGccaagcccttccacgacagt	9	17	0	1	rs149245630		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:129233374G>A	ENST00000348417.2	+	25	3207	c.3130G>A	c.(3130-3132)Gcc>Acc	p.A1044T	IFT122_ENST00000349441.2_Missense_Mutation_p.A934T|IFT122_ENST00000507564.1_Missense_Mutation_p.A1037T|IFT122_ENST00000440957.2_Missense_Mutation_p.A835T|IFT122_ENST00000347300.2_Missense_Mutation_p.A985T|IFT122_ENST00000296266.3_Missense_Mutation_p.A1095T|IFT122_ENST00000431818.2_Missense_Mutation_p.A894T|IFT122_ENST00000504021.1_Missense_Mutation_p.A921T	NM_052989.1	NP_443715.1	Q9HBG6	IF122_HUMAN	intraflagellar transport 122	1044					camera-type eye morphogenesis (GO:0048593)|ciliary receptor clustering involved in smoothened signaling pathway (GO:0060830)|cilium morphogenesis (GO:0060271)|embryonic body morphogenesis (GO:0010172)|embryonic digit morphogenesis (GO:0042733)|embryonic forelimb morphogenesis (GO:0035115)|embryonic heart tube development (GO:0035050)|embryonic heart tube left/right pattern formation (GO:0060971)|establishment of protein localization to organelle (GO:0072594)|intraciliary anterograde transport (GO:0035720)|intraciliary retrograde transport (GO:0035721)|limb development (GO:0060173)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of smoothened signaling pathway involved in ventral spinal cord patterning (GO:0021914)|neural tube closure (GO:0001843)|protein localization to cilium (GO:0061512)|signal transduction downstream of smoothened (GO:0007227)|smoothened signaling pathway involved in dorsal/ventral neural tube patterning (GO:0060831)	ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|intraciliary transport particle A (GO:0030991)|membrane (GO:0016020)|photoreceptor connecting cilium (GO:0032391)|primary cilium (GO:0072372)				breast(3)|cervix(1)|endometrium(9)|large_intestine(10)|lung(21)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	52						GACCATCCGCGCCAAGCCCTT	0.612																																																0								G	THR/ALA,THR/ALA,THR/ALA,THR/ALA	0,4406		0,0,2203	108	90	96		2953,3283,3130,2800	4	1	3	dbSNP_134	96	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,missense,missense	IFT122	NM_018262.2,NM_052985.2,NM_052989.1,NM_052990.1	58,58,58,58	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	benign,benign,benign,benign	985/1183,1095/1293,1044/1242,934/1132	129233374	1,13005	2203	4300	6503	SO:0001583	missense	55764			AF244930	CCDS3059.1, CCDS3060.1, CCDS3061.1, CCDS3062.1, CCDS63770.1, CCDS63772.1, CCDS63773.1	3q21	2014-07-03	2014-07-03	2005-11-02	ENSG00000163913	ENSG00000163913		"WD repeat domain containing", "Intraflagellar transport homologs"	13556	protein-coding gene	gene with protein product		606045	"WD repeat domain 10", "intraflagellar transport 122 homolog (Chlamydomonas)"	WDR10		11242542	Standard	NM_052985		Approved	WDR140, WDR10p, SPG	uc003emm.3	Q9HBG6	OTTHUMG00000159516	ENST00000348417.2:c.3130G>A	3.37:g.129233374G>A	ENSP00000324005:p.Ala1044Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KW53|B4DEY9|B4DPW7|E7EQF4|E9PDG2|E9PDX2|G3XAB1|H7C3C0|Q53G36|Q8TC06|Q9BTB9|Q9BTY4|Q9HAT9|Q9HBG5|Q9NV68|Q9UF80	Missense_Mutation	SNP	ENST00000348417.2	37	CCDS3061.1	.	.	.	.	.	.	.	.	.	.	G	15.88	2.964504	0.53507	0.0	1.16E-4	ENSG00000163913	ENST00000347300;ENST00000296266;ENST00000507564;ENST00000431818;ENST00000504021;ENST00000349441;ENST00000348417;ENST00000446384;ENST00000440957	T;T;T;T;T;T;T;T	0.65916	0.44;-0.18;-0.07;0.01;0.62;0.59;0.44;0.01	5.18	4.02	0.46733	.	0.113969	0.64402	D	0.000008	T	0.51210	0.1661	L	0.32530	0.975	0.35742	D	0.818777	B;B;B;B;P;P;B;B;B;B	0.34780	0.207;0.236;0.205;0.441;0.468;0.468;0.195;0.427;0.066;0.308	B;B;B;B;B;B;B;B;B;B	0.34991	0.07;0.079;0.038;0.066;0.065;0.053;0.065;0.193;0.015;0.057	T	0.61753	-0.6998	10	0.72032	D	0.01	-17.1118	12.0472	0.53487	0.0:0.0:0.1513:0.8487	.	835;370;1037;432;921;886;934;985;1044;1095	E9PDG2;B3KUD1;E7EQF4;B3KT43;B4DEY9;B4DPW7;Q9BTY4;Q9HBG6-3;Q9HBG6;G3XAB1	.;.;.;.;.;.;.;.;IF122_HUMAN;.	T	985;1095;1037;894;921;934;1044;886;835	ENSP00000323973:A985T;ENSP00000296266:A1095T;ENSP00000425536:A1037T;ENSP00000410946:A894T;ENSP00000422179:A921T;ENSP00000324165:A934T;ENSP00000324005:A1044T;ENSP00000401569:A835T	ENSP00000296266:A1095T	A	+	1	0	IFT122	130716064	1.000000	0.71417	0.997000	0.53966	0.750000	0.42670	4.037000	0.57311	0.822000	0.34565	-0.397000	0.06425	GCC		0.612	IFT122-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000355852.1	NM_018262		A	129233374	G	A	129233374	3	1	664	1	0	0	0	0	1	0	0	0	7562	1087	38	1	3388	1	IFT122	3	129233374	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1893766	129233374	68789056	187	41497										
DNAJC13	23317	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	132172979	132172979	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aatttataaaagggcaagtaCggaaatattcttcaacagag	8	5	2	1	rs147315244	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:132172979C>T	ENST00000260818.6	+	9	1158	c.910C>T	c.(910-912)Cgg>Tgg	p.R304W	DNAJC13_ENST00000486798.1_3'UTR	NM_015268.3	NP_056083.3	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	304					osteoblast differentiation (GO:0001649)	extracellular vesicular exosome (GO:0070062)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)				breast(4)|endometrium(2)|kidney(2)|large_intestine(5)|lung(15)|ovary(1)|pancreas(2)|prostate(2)|urinary_tract(1)	34						AGGGCAAGTACGGAAATATTC	0.318													C|||	2	0.000399361	0.0	0.0029	5008	,	,		12225	0.0		0.0	False		,,,				2504	0.0															0								C	TRP/ARG	0,4402		0,0,2201	75	88	83		910	4.7	1	3	dbSNP_134	83	1,8565	1.2+/-3.3	0,1,4282	yes	missense	DNAJC13	NM_015268.3	101	0,1,6483	TT,TC,CC		0.0117,0.0,0.0077	probably-damaging	304/2244	132172979	1,12967	2201	4283	6484	SO:0001583	missense	23317			AB014578	CCDS33857.1	3q22.1	2011-09-02			ENSG00000138246	ENSG00000138246		"Heat shock proteins / DNAJ (HSP40)"	30343	protein-coding gene	gene with protein product		614334				12438707	Standard	NM_015268		Approved	RME8, KIAA0678	uc003eor.3	O75165	OTTHUMG00000159674	ENST00000260818.6:c.910C>T	3.37:g.132172979C>T	ENSP00000260818:p.Arg304Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q3L0T1|Q6PI82|Q6UJ77|Q6ZSW1|Q6ZUT5|Q86XG3|Q96DC1|Q9BWK9	Missense_Mutation	SNP	ENST00000260818.6	37	CCDS33857.1	1	4.578754578754579E-4	0	0.0	1	0.0027624309392265192	0	0.0	0	0.0	C	21.2	4.116152	0.77323	0.0	1.17E-4	ENSG00000138246	ENST00000260818	T	0.47177	0.85	5.58	4.7	0.59300	.	0.000000	0.85682	D	0.000000	T	0.69700	0.3140	M	0.84326	2.69	0.58432	D	0.999999	D;D	0.76494	0.999;0.997	D;P	0.71184	0.972;0.813	T	0.75258	-0.3381	10	0.87932	D	0	.	13.9305	0.63991	0.161:0.839:0.0:0.0	.	304;304	A7E2Y5;O75165	.;DJC13_HUMAN	W	304	ENSP00000260818:R304W	ENSP00000260818:R304W	R	+	1	2	DNAJC13	133655669	1.000000	0.71417	0.999000	0.59377	0.988000	0.76386	2.165000	0.42396	1.315000	0.45114	0.650000	0.86243	CGG		0.318	DNAJC13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356807.2	NM_015268		T	132172979	C	T	132172979	3	4	664	1	0	0	0	0	1	0	0	0	4634	527	19	1	940	1	DNAJC13	3	132172979	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2939605	132172979	65849451	188	41498										
DNAJC13	23317	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	132221145	132221145	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tctctcagagtattccccgcGtagctgctcttggggtagaa	11	11	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:132221145G>A	ENST00000260818.6	+	40	4797	c.4549G>A	c.(4549-4551)Gta>Ata	p.V1517I		NM_015268.3	NP_056083.3	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	1517					osteoblast differentiation (GO:0001649)	extracellular vesicular exosome (GO:0070062)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)				breast(4)|endometrium(2)|kidney(2)|large_intestine(5)|lung(15)|ovary(1)|pancreas(2)|prostate(2)|urinary_tract(1)	34						TATTCCCCGCGTAGCTGCTCT	0.403																																																0													131	126	127					3																	132221145		2203	4300	6503	SO:0001583	missense	23317			AB014578	CCDS33857.1	3q22.1	2011-09-02			ENSG00000138246	ENSG00000138246		"Heat shock proteins / DNAJ (HSP40)"	30343	protein-coding gene	gene with protein product		614334				12438707	Standard	NM_015268		Approved	RME8, KIAA0678	uc003eor.3	O75165	OTTHUMG00000159674	ENST00000260818.6:c.4549G>A	3.37:g.132221145G>A	ENSP00000260818:p.Val1517Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q3L0T1|Q6PI82|Q6UJ77|Q6ZSW1|Q6ZUT5|Q86XG3|Q96DC1|Q9BWK9	Missense_Mutation	SNP	ENST00000260818.6	37	CCDS33857.1	.	.	.	.	.	.	.	.	.	.	G	12.17	1.856146	0.32791	.	.	ENSG00000138246	ENST00000260818;ENST00000538066	T	0.56444	0.46	5.54	5.54	0.83059	Armadillo-like helical (1);Armadillo-type fold (1);	0.141484	0.49305	D	0.000159	T	0.26231	0.0640	N	0.01576	-0.805	0.33835	D	0.630672	B	0.24882	0.113	B	0.09377	0.004	T	0.33803	-0.9854	10	0.36615	T	0.2	.	15.0241	0.71653	0.0:0.1418:0.8581:0.0	.	1517	O75165	DJC13_HUMAN	I	1517;164	ENSP00000260818:V1517I	ENSP00000260818:V1517I	V	+	1	0	DNAJC13	133703835	1.000000	0.71417	0.748000	0.31131	0.341000	0.28922	4.145000	0.58065	2.585000	0.87301	0.650000	0.86243	GTA		0.403	DNAJC13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356807.2	NM_015268		A	132221145	G	A	132221145	3	1	664	1	0	0	0	0	1	0	0	0	4634	1145	40	1	4703	1	DNAJC13	3	132221145	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	48166	132221145	65801285	189	41499										
RAB6B	51560	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr3	133553468	133553468	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccattccgggtagagccgaCgccacacgtcgaaaaagctg	11	13	0	1	rs370450177		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:133553468C>T	ENST00000285208.4	-	7	862	c.513G>A	c.(511-513)gcG>gcA	p.A171A	RAB6B_ENST00000543906.1_Silent_p.A171A|RAB6B_ENST00000486858.1_Silent_p.A158A|RAB6B_ENST00000469959.1_Intron	NM_016577.3	NP_057661.3	Q9NRW1	RAB6B_HUMAN	RAB6B, member RAS oncogene family	171					GTP catabolic process (GO:0006184)|protein transport (GO:0015031)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)|small GTPase mediated signal transduction (GO:0007264)	cytoplasmic vesicle (GO:0031410)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|myosin V binding (GO:0031489)			NS(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(5)|pancreas(1)	11						GTAGAGCCGACGCCACACGTC	0.502																																																0								C		0,4406		0,0,2203	116	119	118		513	-10.3	0	3		118	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	RAB6B	NM_016577.3		0,1,6502	TT,TC,CC		0.0116,0.0,0.0077		171/209	133553468	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	51560			AF166492	CCDS3082.1	3q22.1	2008-05-15			ENSG00000154917	ENSG00000154917		"RAB, member RAS oncogene"	14902	protein-coding gene	gene with protein product		615852					Standard	NM_016577		Approved		uc003epy.3	Q9NRW1	OTTHUMG00000159749	ENST00000285208.4:c.513G>A	3.37:g.133553468C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R5Z9|B7Z337|D3DND3|Q92929	Silent	SNP	ENST00000285208.4	37	CCDS3082.1																																																																																				0.502	RAB6B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357152.1			T	133553468	C	T	133553468	2	4	664	1	0	0	0	0	0	0	0	1	12965	523	19	1		1	RAB6B	3	133553468	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1332323	133553468	64468962	190	41500										
ATR	545	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr3	142272665	142272665	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gttaaaaacaaaaattatcaAcctcctttataaatccatct	1	9	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:142272665A>G	ENST00000350721.4	-	11	2654		c.e11+1		ATR_ENST00000383101.3_Splice_Site	NM_001184.3	NP_001175.2	Q13535	ATR_HUMAN	ATR serine/threonine kinase						cell cycle (GO:0007049)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to gamma radiation (GO:0071480)|cellular response to UV (GO:0034644)|DNA damage checkpoint (GO:0000077)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|multicellular organismal development (GO:0007275)|negative regulation of DNA replication (GO:0008156)|peptidyl-serine phosphorylation (GO:0018105)|positive regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043517)|protein autophosphorylation (GO:0046777)|regulation of protein binding (GO:0043393)|replicative senescence (GO:0090399)|response to drug (GO:0042493)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)|PML body (GO:0016605)|XY body (GO:0001741)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|MutLalpha complex binding (GO:0032405)|MutSalpha complex binding (GO:0032407)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(10)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(20)|liver(2)|lung(45)|ovary(3)|skin(10)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(4)	122						AAAATTATCAACCTCCTTTAT	0.308								Other conserved DNA damage response genes																																								0													68	68	68					3																	142272665		2202	4299	6501	SO:0001630	splice_region_variant	545			U76308	CCDS3124.1	3q23	2014-06-17	2014-06-17		ENSG00000175054	ENSG00000175054			882	protein-coding gene	gene with protein product	"MEC1, mitosis entry checkpoint 1, homolog (S. cerevisiae)"	601215	"ataxia telangiectasia and Rad3 related"			8978690, 8610130	Standard	NM_001184		Approved	FRP1, SCKL, SCKL1, MEC1	uc003eux.4	Q13535	OTTHUMG00000159234	ENST00000350721.4:c.2532+1T>C	3.37:g.142272665A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q59HB2|Q7KYL3|Q93051|Q9BXK4	Splice_Site	SNP	ENST00000350721.4	37	CCDS3124.1	.	.	.	.	.	.	.	.	.	.	A	21.8	4.199697	0.79015	.	.	ENSG00000175054	ENST00000350721;ENST00000383101	.	.	.	5.34	5.34	0.76211	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.3122	0.74042	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	ATR	143755355	1.000000	0.71417	1.000000	0.80357	0.948000	0.59901	6.323000	0.72891	2.027000	0.59764	0.477000	0.44152	.		0.308	ATR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353995.2	NM_001184	Intron	G	142272665	A	G	142272665	5	3	664	1	0	0	0	0	0	0	1	0	1204	57	2	3	5548	3	ATR	3	142272665	Splice_Site	SNP	A	TCGA-KN-8428-01A-11D-2310-10	8719197	142272665	55749765	191	41501										
C3orf58	205428	broad.mit.edu	37	chr3	143691481	143691481	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acggcgagccccgcgagggcGgccgccgccgagtggtgctc	18	16	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:143691481G>C	ENST00000315691.3	+	1	842	c.307G>C	c.(307-309)Ggc>Cgc	p.G103R	C3orf58_ENST00000495414.1_5'Flank|C3orf58_ENST00000441925.2_5'Flank|C3orf58_ENST00000493396.1_3'UTR	NM_173552.3	NP_775823.1	Q8NDZ4	DIA1_HUMAN	chromosome 3 open reading frame 58	103					cardiac muscle cell proliferation (GO:0060038)|regulation of phosphatidylinositol 3-kinase signaling (GO:0014066)	COPI vesicle coat (GO:0030126)|extracellular space (GO:0005615)|Golgi membrane (GO:0000139)				breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(6)|ovary(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	21						CCGCGAGGGCGGCCGCCGCCG	0.716																																																0													15	19	18					3																	143691481		1964	3965	5929	SO:0001583	missense	205428			AK095161	CCDS3130.1, CCDS46929.1	3q24	2013-12-06			ENSG00000181744	ENSG00000181744			28490	protein-coding gene	gene with protein product	"deleted in autism 1", "hypoxia and Akt induced stem cell factor"	612200				21283809, 23784961, 24269490	Standard	NM_173552		Approved	MGC33365, DIA1, HASF	uc003evo.3	Q8NDZ4	OTTHUMG00000159380	ENST00000315691.3:c.307G>C	3.37:g.143691481G>C	ENSP00000320081:p.Gly103Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCF2|B7Z1W3	Missense_Mutation	SNP	ENST00000315691.3	37	CCDS3130.1	.	.	.	.	.	.	.	.	.	.	G	14.63	2.592068	0.46214	.	.	ENSG00000181744	ENST00000315691	T	0.33654	1.4	3.81	3.81	0.43845	.	0.000000	0.85682	D	0.000000	T	0.18173	0.0436	N	0.19112	0.55	0.80722	D	1	B	0.30914	0.3	B	0.29267	0.1	T	0.08785	-1.0705	10	0.32370	T	0.25	.	2.6503	0.04996	0.2473:0.0:0.5175:0.2351	.	103	Q8NDZ4	CC058_HUMAN	R	103	ENSP00000320081:G103R	ENSP00000320081:G103R	G	+	1	0	C3orf58	145174171	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.147000	0.64851	1.981000	0.57761	0.561000	0.74099	GGC		0.716	C3orf58-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355038.1	NM_173552		C	143691481	G	C	143691481	3	2	664	1	0	0	0	0	1	0	0	0	2238	1116	39	4	309	4	C3orf58	3	143691481	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1418816	143691481	54330949	192	41502										
TM4SF1	4071	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	149093475	149093475	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggaggacctaccgcacatcGtttgccacagttttcatggc	10	12	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:149093475G>A	ENST00000305366.3	-	2	576	c.259C>T	c.(259-261)Cga>Tga	p.R87*	TM4SF1-AS1_ENST00000484046.1_RNA|TM4SF1-AS1_ENST00000496491.1_RNA|TM4SF1_ENST00000472441.1_De_novo_Start_OutOfFrame	NM_014220.2	NP_055035.1	P30408	T4S1_HUMAN	transmembrane 4 L six family member 1	87						integral component of plasma membrane (GO:0005887)				endometrium(3)|large_intestine(1)|lung(5)|skin(2)|upper_aerodigestive_tract(1)	12			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			ACCGCACATCGTTTGCCACAG	0.512																																																0													193	167	176					3																	149093475		2203	4300	6503	SO:0001587	stop_gained	4071			M90657	CCDS3143.1	3q21-q25	2005-03-21	2005-03-21		ENSG00000169908	ENSG00000169908			11853	protein-coding gene	gene with protein product		191155	"transmembrane 4 superfamily member 1"	M3S1		1565644	Standard	NM_014220		Approved	L6	uc003exb.1	P30408	OTTHUMG00000159597	ENST00000305366.3:c.259C>T	3.37:g.149093475G>A	ENSP00000304277:p.Arg87*	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IB51	Nonsense_Mutation	SNP	ENST00000305366.3	37	CCDS3143.1	.	.	.	.	.	.	.	.	.	.	G	37	6.444988	0.97572	.	.	ENSG00000169908	ENST00000305366;ENST00000383054	.	.	.	5.77	0.387	0.16259	.	0.141035	0.47852	D	0.000210	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-12.6632	14.9699	0.71226	0.0:0.0:0.4858:0.5142	.	.	.	.	X	87	.	ENSP00000304277:R87X	R	-	1	2	TM4SF1	150576165	0.999000	0.42202	0.881000	0.34555	0.947000	0.59692	0.628000	0.24522	-0.156000	0.11079	-0.262000	0.10625	CGA		0.512	TM4SF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356368.1			A	149093475	G	A	149093475	4	1	664	1	0	0	0	0	0	1	0	0	15978	1153	40	1	365	1	TM4SF1	3	149093475	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5401994	149093475	48928955	193	41503										
WDR49	151790	broad.mit.edu	37	chr3	167272531	167272531	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggatttgtgaaatatccacaGctccatcttgcccaacattt	6	11	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:167272531G>T	ENST00000308378.3	-	6	1012	c.707C>A	c.(706-708)gCt>gAt	p.A236D	WDR49_ENST00000479765.1_Intron|WDR49_ENST00000476376.1_Missense_Mutation_p.A61D|WDR49_ENST00000453925.2_Missense_Mutation_p.A289D	NM_178824.3	NP_849146.1	Q8IV35	WDR49_HUMAN	WD repeat domain 49	236										breast(1)|endometrium(1)|kidney(1)|large_intestine(8)|lung(28)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	50						AATATCCACAGCTCCATCTTG	0.363																																																0													148	139	142					3																	167272531		2203	4298	6501	SO:0001583	missense	151790			AK097556	CCDS3201.1	3q26.1	2013-01-11			ENSG00000174776	ENSG00000174776		"WD repeat domain containing"	26587	protein-coding gene	gene with protein product						12477932	Standard	NM_178824		Approved	FLJ33620	uc003fev.1	Q8IV35	OTTHUMG00000158290	ENST00000308378.3:c.707C>A	3.37:g.167272531G>T	ENSP00000311343:p.Ala236Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N297	Missense_Mutation	SNP	ENST00000308378.3	37	CCDS3201.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	11.20|11.20	1.568457|1.568457	0.28003|0.28003	.|.	.|.	ENSG00000174776|ENSG00000174776	ENST00000308378;ENST00000476376;ENST00000453925|ENST00000472600	T;T;T|.	0.55930|.	0.49;1.26;0.89|.	5.36|5.36	1.22|1.22	0.21188|0.21188	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);|.	0.703897|.	0.14640|.	N|.	0.307292|.	T|T	0.32133|0.32133	0.0819|0.0819	L|L	0.38531|0.38531	1.155|1.155	0.25661|0.25661	N|N	0.986003|0.986003	B;B|.	0.14805|.	0.011;0.009|.	B;B|.	0.13407|.	0.009;0.006|.	T|T	0.24476|0.24476	-1.0159|-1.0159	10|5	0.32370|.	T|.	0.25|.	.|.	5.3587|5.3587	0.16075|0.16075	0.1605:0.0:0.5575:0.2821|0.1605:0.0:0.5575:0.2821	.|.	289;236|.	E7EQK3;Q8IV35|.	.;WDR49_HUMAN|.	D|M	236;61;289|301	ENSP00000311343:A236D;ENSP00000420508:A61D;ENSP00000410863:A289D|.	ENSP00000311343:A236D|.	A|L	-|-	2|1	0|2	WDR49|WDR49	168755225|168755225	1.000000|1.000000	0.71417|0.71417	0.999000|0.999000	0.59377|0.59377	0.632000|0.632000	0.37999|0.37999	1.040000|1.040000	0.30278|0.30278	0.230000|0.230000	0.21059|0.21059	0.585000|0.585000	0.79938|0.79938	GCT|CTG		0.363	WDR49-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000350592.3	NM_178824		T	167272531	G	T	167272531	3	4	664	1	0	0	0	0	1	0	0	0	17314	971	34	4	1426	4	WDR49	3	167272531	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	18179056	167272531	30749899	194	41504										
DCUN1D1	54165	broad.mit.edu	37	chr3	182681755	182681755	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttccacgcaataatcaacacActaatgctggctggatcgag	8	11	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:182681755A>G	ENST00000292782.4	-	3	456	c.303T>C	c.(301-303)agT>agC	p.S101S	DCUN1D1_ENST00000469954.1_Silent_p.S86S	NM_020640.2	NP_065691.2	Q96GG9	DCNL1_HUMAN	DCN1, defective in cullin neddylation 1, domain containing 1	101	DCUN1. {ECO:0000255|PROSITE- ProRule:PRU00574}.					ubiquitin ligase complex (GO:0000151)		p.S101R(1)		endometrium(2)|large_intestine(4)|lung(8)|ovary(1)	15	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;2.54e-44)|Epithelial(37;4.71e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			TAATCAACACACTAATGCTGG	0.418																																																1	Substitution - Missense(1)	ovary(1)											152	125	134					3																	182681755		2203	4300	6503	SO:0001819	synonymous_variant	54165			AF292100, AK056335	CCDS3240.1	3q26.3	2013-06-10	2013-06-10		ENSG00000043093	ENSG00000043093			18184	protein-coding gene	gene with protein product	"squamous cell carcinoma related oncogene"	605905	"DCN1, defective in cullin neddylation 1, domain containing 1 (S. cerevisiae)"			10777668, 15988528	Standard	NM_020640		Approved	RP42, SCRO, DCUN1L1, Tes3, SCCRO	uc003fld.1	Q96GG9	OTTHUMG00000158314	ENST00000292782.4:c.303T>C	3.37:g.182681755A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RB37|Q7L3G9|Q8TEX7|Q9H6M1|Q9HCT3	Silent	SNP	ENST00000292782.4	37	CCDS3240.1																																																																																				0.418	DCUN1D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350658.1	NM_020640		G	182681755	A	G	182681755	2	3	664	1	0	0	0	0	0	0	0	1	4315	156	6	3		3	DCUN1D1	3	182681755	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	15409224	182681755	15340675	195	41505										
EIF4G1	1981	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr3	184038753	184038753	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctcaagctaatggggagacGccccaggttgctgtcattgt	12	11	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:184038753G>A	ENST00000346169.2	+	9	940	c.669G>A	c.(667-669)acG>acA	p.T223T	EIF4G1_ENST00000434061.2_Silent_p.T27T|EIF2B5_ENST00000444495.1_Intron|EIF4G1_ENST00000411531.1_Silent_p.T183T|EIF4G1_ENST00000392537.2_Silent_p.T136T|EIF4G1_ENST00000319274.6_Silent_p.T223T|EIF4G1_ENST00000424196.1_Silent_p.T230T|EIF4G1_ENST00000441154.1_Silent_p.T59T|EIF4G1_ENST00000342981.4_Silent_p.T223T|EIF4G1_ENST00000352767.3_Silent_p.T230T|EIF4G1_ENST00000350481.5_Silent_p.T59T|EIF4G1_ENST00000414031.1_Silent_p.T183T|EIF4G1_ENST00000435046.2_Silent_p.T27T|EIF4G1_ENST00000382330.3_Silent_p.T230T|EIF4G1_ENST00000427845.1_Silent_p.T136T	NM_198241.2	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4 gamma, 1	223					cell death (GO:0008219)|cellular protein metabolic process (GO:0044267)|cytokine-mediated signaling pathway (GO:0019221)|gene expression (GO:0010467)|insulin receptor signaling pathway (GO:0008286)|lung development (GO:0030324)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|regulation of translational initiation (GO:0006446)|response to ethanol (GO:0045471)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)|viral process (GO:0016032)	cytosol (GO:0005829)|eukaryotic translation initiation factor 4F complex (GO:0016281)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|translation factor activity, nucleic acid binding (GO:0008135)|translation initiation factor activity (GO:0003743)			central_nervous_system(1)|cervix(2)|endometrium(3)|kidney(5)|large_intestine(14)|lung(41)|ovary(2)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	75	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ATGGGGAGACGCCCCAGGTTG	0.532																																																0													48	46	47					3																	184038753		2203	4300	6503	SO:0001819	synonymous_variant	1981			D12686	CCDS3259.1, CCDS3260.1, CCDS3261.1, CCDS46970.1, CCDS46970.2, CCDS54687.1, CCDS54688.1	3q27.1	2013-09-19			ENSG00000114867	ENSG00000114867		"Parkinson disease"	3296	protein-coding gene	gene with protein product		600495		EIF4G, EIF4F		1429670, 9372926, 21907011	Standard	NM_182917		Approved	p220, PARK18	uc010hxy.3	Q04637	OTTHUMG00000156784	ENST00000346169.2:c.669G>A	3.37:g.184038753G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DNT2|D3DNT4|D3DNT5|E9PFM1|G5E9S1|O43177|O95066|Q5HYG0|Q6ZN21|Q8N102	Silent	SNP	ENST00000346169.2	37	CCDS3259.1																																																																																				0.532	EIF4G1-007	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000345733.1	NM_182917		A	184038753	G	A	184038753	2	1	664	1	0	0	0	0	0	0	0	1	5038	1074	38	1		1	EIF4G1	3	184038753	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1356998	184038753	13983677	196	41506										
CLCN2	1181	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr3	184073265	184073265	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctcctccaccaggccctggCggacccacgtccgattgtca	10	18	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:184073265C>T	ENST00000265593.4	-	12	1394	c.1223G>A	c.(1222-1224)cGc>cAc	p.R408H	CLCN2_ENST00000457512.1_Missense_Mutation_p.R408H|CLCN2_ENST00000344937.7_Missense_Mutation_p.R408H|CLCN2_ENST00000423355.2_Missense_Mutation_p.R49H|EIF2B5_ENST00000444495.1_Intron|CLCN2_ENST00000434054.2_Missense_Mutation_p.R364H|CLCN2_ENST00000475279.1_5'UTR	NM_004366.5	NP_004357.3	P51788	CLCN2_HUMAN	chloride channel, voltage-sensitive 2	408					cell differentiation involved in salivary gland development (GO:0060689)|ion transmembrane transport (GO:0034220)|regulation of anion transport (GO:0044070)|retina development in camera-type eye (GO:0060041)|transmembrane transport (GO:0055085)|transport (GO:0006810)	chloride channel complex (GO:0034707)|plasma membrane (GO:0005886)	adenyl nucleotide binding (GO:0030554)|voltage-gated chloride channel activity (GO:0005247)			breast(2)|central_nervous_system(4)|endometrium(1)|kidney(3)|large_intestine(4)|lung(9)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	27	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)	CAGGCCCTGGCGGACCCACGT	0.587																																																0													129	115	120					3																	184073265		2203	4300	6503	SO:0001583	missense	1181			S77770	CCDS3263.1, CCDS54690.1, CCDS54691.1, CCDS54692.1	3q27.1	2013-09-19	2012-02-23		ENSG00000114859	ENSG00000114859		"Ion channels / Chloride channels : Voltage-sensitive"	2020	protein-coding gene	gene with protein product		600570	"chloride channel 2"			7795595	Standard	NM_004366		Approved	CLC2, EJM6, ClC-2	uc003foi.4	P51788	OTTHUMG00000156747	ENST00000265593.4:c.1223G>A	3.37:g.184073265C>T	ENSP00000265593:p.Arg408His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DQT9|B4DZ58|E9PBD9|E9PCD2|O14864|Q6IPA9|Q8WU13	Missense_Mutation	SNP	ENST00000265593.4	37	CCDS3263.1	.	.	.	.	.	.	.	.	.	.	c	13.81	2.349514	0.41599	.	.	ENSG00000114859	ENST00000265593;ENST00000344937;ENST00000423355;ENST00000434054;ENST00000457512	D;D;T;D;D	0.85013	-1.88;-1.83;-0.36;-1.93;-1.92	5.6	3.81	0.43845	Chloride channel, core (2);	0.322809	0.33732	N	0.004606	T	0.78572	0.4304	L	0.40543	1.245	0.33251	D	0.558472	B;B;B;B;B	0.18741	0.02;0.03;0.013;0.011;0.03	B;B;B;B;B	0.19391	0.013;0.025;0.01;0.004;0.015	T	0.75825	-0.3181	10	0.56958	D	0.05	-8.8308	9.476	0.38871	0.0:0.6653:0.0:0.3347	.	408;364;408;408;408	B4DYE3;E9PBD9;E9PCD2;P51788-3;P51788	.;.;.;.;CLCN2_HUMAN	H	408;408;49;364;408	ENSP00000265593:R408H;ENSP00000345056:R408H;ENSP00000412226:R49H;ENSP00000400425:R364H;ENSP00000391928:R408H	ENSP00000265593:R408H	R	-	2	0	CLCN2	185555959	1.000000	0.71417	1.000000	0.80357	0.719000	0.41307	1.782000	0.38654	0.342000	0.23796	-1.119000	0.02030	CGC		0.587	CLCN2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000345571.1			T	184073265	C	T	184073265	3	4	664	1	0	0	0	0	1	0	0	0	3465	768	27	1	1525	1	CLCN2	3	184073265	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	34512	184073265	13949165	197	41507										
DGKG	1608	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	185993360	185993360	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcagcacaggccttgcttgcGgacgcccatgagcatgatat	12	12	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:185993360G>A	ENST00000265022.3	-	10	1425	c.886C>T	c.(886-888)Cgc>Tgc	p.R296C	DGKG_ENST00000382164.4_Missense_Mutation_p.R296C|DGKG_ENST00000344484.4_Missense_Mutation_p.R296C|DGKG_ENST00000544847.1_Missense_Mutation_p.R296C	NM_001080744.1|NM_001080745.1|NM_001346.2	NP_001074213.1|NP_001074214.1|NP_001337.2	P49619	DGKG_HUMAN	diacylglycerol kinase, gamma 90kDa	296					blood coagulation (GO:0007596)|intracellular signal transduction (GO:0035556)|neuron development (GO:0048666)|platelet activation (GO:0030168)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|diacylglycerol kinase activity (GO:0004143)|NAD+ kinase activity (GO:0003951)			breast(3)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(8)|lung(17)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)	42	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)	CCTTGCTTGCGGACGCCCATG	0.547																																																0													114	99	104					3																	185993360		2203	4300	6503	SO:0001583	missense	1608			AF020945	CCDS3274.1, CCDS43181.1, CCDS43182.1	3q27-q28	2013-01-10	2002-08-29		ENSG00000058866	ENSG00000058866	2.7.1.107	"EF-hand domain containing"	2853	protein-coding gene	gene with protein product		601854	"diacylglycerol kinase, gamma (90kD)"	DAGK3		8034597	Standard	NM_001080744		Approved		uc003fqa.3	P49619	OTTHUMG00000156617	ENST00000265022.3:c.886C>T	3.37:g.185993360G>A	ENSP00000265022:p.Arg296Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAH4|Q2M1H4|Q5FWG1	Missense_Mutation	SNP	ENST00000265022.3	37	CCDS3274.1	.	.	.	.	.	.	.	.	.	.	G	16.28	3.079743	0.55753	.	.	ENSG00000058866	ENST00000265022;ENST00000344484;ENST00000382164;ENST00000544847;ENST00000538691;ENST00000437018	D;D;D;D;D	0.93076	-3.16;-3.16;-3.16;-3.16;-3.16	5.31	3.47	0.39725	Protein kinase C-like, phorbol ester/diacylglycerol binding (4);	0.140036	0.48767	D	0.000164	D	0.94195	0.8137	L	0.55990	1.75	0.58432	D	0.999994	D;D;D;D	0.76494	0.997;0.997;0.999;0.999	P;P;P;P	0.61722	0.88;0.828;0.88;0.893	D	0.93299	0.6675	10	0.72032	D	0.01	.	10.2937	0.43612	0.0:0.2752:0.5826:0.1422	.	296;296;296;296	F5GX27;P49619-2;P49619-3;P49619	.;.;.;DGKG_HUMAN	C	296;296;296;296;299;47	ENSP00000265022:R296C;ENSP00000339777:R296C;ENSP00000371599:R296C;ENSP00000440507:R296C;ENSP00000395526:R47C	ENSP00000265022:R296C	R	-	1	0	DGKG	187476054	0.792000	0.28813	0.643000	0.29450	0.945000	0.59286	1.063000	0.30567	0.680000	0.31366	0.655000	0.94253	CGC		0.547	DGKG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344800.3			A	185993360	G	A	185993360	3	1	664	1	0	0	0	0	1	0	0	0	4471	1116	39	1	1553	1	DGKG	3	185993360	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1920095	185993360	12029070	198	41508										
TP63	8626	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr3	189526150	189526150	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agtccctataacacagaccaCgcgcagaacagcgtcacggc	9	15	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:189526150C>T	ENST00000264731.3	+	4	503	c.414C>T	c.(412-414)caC>caT	p.H138H	TP63_ENST00000449992.1_Intron|TP63_ENST00000392461.3_Silent_p.H44H|TP63_ENST00000320472.5_Silent_p.H138H|TP63_ENST00000392460.3_Silent_p.H138H|TP63_ENST00000456148.1_Silent_p.H44H|TP63_ENST00000382063.4_Intron|TP63_ENST00000418709.2_Silent_p.H138H|TP63_ENST00000392463.2_Silent_p.H44H|TP63_ENST00000354600.5_Silent_p.H44H|TP63_ENST00000437221.1_Silent_p.H44H|TP63_ENST00000440651.2_Silent_p.H138H	NM_001114978.1|NM_003722.4	NP_001108450.1|NP_003713.3	Q9H3D4	P63_HUMAN	tumor protein p63	138					apoptotic process (GO:0006915)|cell aging (GO:0007569)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to UV (GO:0034644)|chromatin remodeling (GO:0006338)|cloacal septation (GO:0060197)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|ectoderm and mesoderm interaction (GO:0007499)|embryonic limb morphogenesis (GO:0030326)|epidermal cell division (GO:0010481)|epithelial cell development (GO:0002064)|establishment of planar polarity (GO:0001736)|establishment of skin barrier (GO:0061436)|female genitalia morphogenesis (GO:0048807)|hair follicle morphogenesis (GO:0031069)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|keratinocyte differentiation (GO:0030216)|keratinocyte proliferation (GO:0043616)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organismal aging (GO:0010259)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cellular senescence (GO:2000773)|negative regulation of keratinocyte differentiation (GO:0045617)|negative regulation of mesoderm development (GO:2000381)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|odontogenesis of dentin-containing tooth (GO:0042475)|polarized epithelial cell differentiation (GO:0030859)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell cycle G1/S phase transition (GO:1902808)|positive regulation of fibroblast apoptotic process (GO:2000271)|positive regulation of keratinocyte proliferation (GO:0010838)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of Notch signaling pathway (GO:0045747)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|post-anal tail morphogenesis (GO:0036342)|prostatic bud formation (GO:0060513)|protein homotetramerization (GO:0051289)|proximal/distal pattern formation (GO:0009954)|regulation of epidermal cell division (GO:0010482)|regulation of neuron apoptotic process (GO:0043523)|response to gamma radiation (GO:0010332)|response to X-ray (GO:0010165)|skeletal system development (GO:0001501)|smooth muscle tissue development (GO:0048745)|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development (GO:0060529)|sympathetic nervous system development (GO:0048485)|urinary bladder development (GO:0060157)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|double-stranded DNA binding (GO:0003690)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|p53 binding (GO:0002039)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding transcription factor activity (GO:0000989)|transcription regulatory region DNA binding (GO:0044212)|WW domain binding (GO:0050699)			breast(2)|central_nervous_system(2)|cervix(1)|endometrium(7)|kidney(5)|large_intestine(12)|lung(15)|ovary(2)|skin(9)|upper_aerodigestive_tract(6)	61	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		ACACAGACCACGCGCAGAACA	0.612										HNSCC(45;0.13)																																						0													180	135	150					3																	189526150		2203	4300	6503	SO:0001819	synonymous_variant	8626			AB010153	CCDS3293.1, CCDS46976.1, CCDS46977.1, CCDS46978.1, CCDS46979.1, CCDS46980.1	3q27-q29	2014-09-17			ENSG00000073282	ENSG00000073282			15979	protein-coding gene	gene with protein product		603273	"tumor protein p73-like", "tumor protein p53-like", "tumor protein p53-competing protein"	TP73L, TP53L, TP53CP		9774969, 9662378, 11181441, 11181451	Standard	NM_003722		Approved	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP	uc003fry.2	Q9H3D4	OTTHUMG00000156313	ENST00000264731.3:c.414C>T	3.37:g.189526150C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O75080|O75195|O75922|O76078|Q6VEG2|Q6VEG3|Q6VEG4|Q6VFJ1|Q6VFJ2|Q6VFJ3|Q6VH20|Q7LDI3|Q7LDI4|Q7LDI5|Q96KR0|Q9H3D2|Q9H3D3|Q9H3P8|Q9NPH7|Q9P1B4|Q9P1B5|Q9P1B6|Q9P1B7|Q9UBV9|Q9UE10|Q9UP26|Q9UP27|Q9UP28|Q9UP74	Silent	SNP	ENST00000264731.3	37	CCDS3293.1																																																																																				0.612	TP63-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000343865.1	NM_003722		T	189526150	C	T	189526150	2	4	664	1	0	0	0	0	0	0	0	1	16404	535	19	1		1	TP63	3	189526150	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3532790	189526150	8496280	199	41509										
ATP13A3	79572	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	194149621	194149621	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccagatcaatgaagagaaacTggaagtctcctaggttactt	9	8	2	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:194149621T>C	ENST00000439040.1	-	28	3691	c.2900A>G	c.(2899-2901)cAg>cGg	p.Q967R	ATP13A3_ENST00000256031.4_Missense_Mutation_p.Q967R			Q9H7F0	AT133_HUMAN	ATPase type 13A3	967						integral component of membrane (GO:0016021)|membrane (GO:0016020)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|metal ion binding (GO:0046872)			NS(2)|endometrium(3)|kidney(3)|large_intestine(2)|lung(10)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	24	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)		GAAGAGAAACTGGAAGTCTCC	0.294																																																0													59	55	56					3																	194149621		1809	4065	5874	SO:0001583	missense	79572			AJ306929	CCDS43187.1	3q29	2010-04-20			ENSG00000133657	ENSG00000133657		"ATPases / P-type"	24113	protein-coding gene	gene with protein product	"ATPase family homolog up regulated in senescence cells"	610232				11867234	Standard	NM_024524		Approved	AFURS1	uc003fty.4	Q9H7F0	OTTHUMG00000156034	ENST00000439040.1:c.2900A>G	3.37:g.194149621T>C	ENSP00000416508:p.Gln967Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC11|Q96KS1	Missense_Mutation	SNP	ENST00000439040.1	37	CCDS43187.1	.	.	.	.	.	.	.	.	.	.	T	26.6	4.751223	0.89753	.	.	ENSG00000133657	ENST00000439040;ENST00000256031	D;D	0.92249	-3.0;-3.0	5.63	5.63	0.86233	.	0.000000	0.85682	D	0.000000	D	0.97015	0.9025	M	0.94021	3.485	0.80722	D	1	D	0.71674	0.998	D	0.75484	0.986	D	0.97978	1.0347	10	0.87932	D	0	0.0469	15.3339	0.74234	0.0:0.0:0.0:1.0	.	967	Q9H7F0	AT133_HUMAN	R	967	ENSP00000416508:Q967R;ENSP00000256031:Q967R	ENSP00000256031:Q967R	Q	-	2	0	ATP13A3	195630910	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.673000	0.83973	2.279000	0.76181	0.533000	0.62120	CAG		0.294	ATP13A3-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342799.2	NM_024524		C	194149621	T	C	194149621	3	2	664	1	0	0	0	0	1	0	0	0	1125	1580	55	3	804	3	ATP13A3	3	194149621	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	4623471	194149621	3872809	200	41510										
DLG1	1739	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr3	196792176	196792176	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tacttctcgtacagactgaaCacttgttccatatagatgat	6	9	1	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr3:196792176C>T	ENST00000419354.1	-	23	2663	c.2377G>A	c.(2377-2379)Gtt>Att	p.V793I	DLG1_ENST00000450955.1_Missense_Mutation_p.V782I|DLG1_ENST00000443183.1_Missense_Mutation_p.V689I|DLG1_ENST00000392382.2_Missense_Mutation_p.V760I|DLG1_ENST00000448528.2_Missense_Mutation_p.V793I|DLG1_ENST00000357674.4_Missense_Mutation_p.V782I|DLG1_ENST00000346964.2_Missense_Mutation_p.V815I|DLG1_ENST00000452595.1_Missense_Mutation_p.V677I|DLG1_ENST00000314062.3_Missense_Mutation_p.V742I|DLG1_ENST00000422288.1_Missense_Mutation_p.V742I			Q12959	DLG1_HUMAN	discs, large homolog 1 (Drosophila)	793	Guanylate kinase-like. {ECO:0000255|PROSITE-ProRule:PRU00100}.				actin filament organization (GO:0007015)|activation of protein kinase activity (GO:0032147)|amyloid precursor protein metabolic process (GO:0042982)|axon guidance (GO:0007411)|branching involved in ureteric bud morphogenesis (GO:0001658)|cortical actin cytoskeleton organization (GO:0030866)|dephosphorylation (GO:0016311)|embryonic skeletal system morphogenesis (GO:0048704)|endothelial cell proliferation (GO:0001935)|establishment or maintenance of cell polarity (GO:0007163)|hard palate development (GO:0060022)|immunological synapse formation (GO:0001771)|lens development in camera-type eye (GO:0002088)|membrane raft organization (GO:0031579)|mitotic cell cycle checkpoint (GO:0007093)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of mitotic cell cycle (GO:0045930)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of T cell proliferation (GO:0042130)|nucleotide phosphorylation (GO:0046939)|peristalsis (GO:0030432)|positive regulation of actin filament polymerization (GO:0030838)|positive regulation of cell proliferation (GO:0008284)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of potassium ion transport (GO:0043268)|protein localization to plasma membrane (GO:0072659)|regulation of membrane potential (GO:0042391)|regulation of myelination (GO:0031641)|regulation of sodium ion transmembrane transport (GO:1902305)|reproductive structure development (GO:0048608)|single organismal cell-cell adhesion (GO:0016337)|smooth muscle tissue development (GO:0048745)|synaptic transmission (GO:0007268)|T cell activation (GO:0042110)|T cell cytokine production (GO:0002369)|tight junction assembly (GO:0070830)|viral process (GO:0016032)	basal lamina (GO:0005605)|basolateral plasma membrane (GO:0016323)|cell junction (GO:0030054)|cell projection membrane (GO:0031253)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|immunological synapse (GO:0001772)|intercalated disc (GO:0014704)|lateral loop (GO:0043219)|lateral plasma membrane (GO:0016328)|membrane raft (GO:0045121)|microtubule (GO:0005874)|MPP7-DLG1-LIN7 complex (GO:0097025)|myelin sheath abaxonal region (GO:0035748)|neuromuscular junction (GO:0031594)|node of Ranvier (GO:0033268)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)|tight junction (GO:0005923)	cytoskeletal protein binding (GO:0008092)|guanylate kinase activity (GO:0004385)|ion channel binding (GO:0044325)|L27 domain binding (GO:0097016)|mitogen-activated protein kinase kinase binding (GO:0031434)|phosphatase binding (GO:0019902)|phosphoprotein phosphatase activity (GO:0004721)|potassium channel regulator activity (GO:0015459)|protein C-terminus binding (GO:0008022)|protein kinase binding (GO:0019901)			breast(2)|endometrium(1)|kidney(3)|large_intestine(4)|liver(1)|lung(9)|ovary(3)|prostate(1)|skin(1)|urinary_tract(1)	26	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		ACAGACTGAACACTTGTTCCA	0.373																																																0													235	236	235					3																	196792176		2203	4300	6503	SO:0001583	missense	1739			U13897	CCDS3327.1, CCDS43194.1, CCDS56300.1, CCDS56301.1, CCDS75072.1	3q29	2008-12-15	2001-11-28		ENSG00000075711	ENSG00000075711			2900	protein-coding gene	gene with protein product	"discs large homolog 1", "presynaptic protein SAP97", "synapse-associated protein 97"	601014	"discs, large (Drosophila) homolog 1"			7937897, 8825652	Standard	NM_004087		Approved	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1	uc003fxn.4	Q12959	OTTHUMG00000047972	ENST00000419354.1:c.2377G>A	3.37:g.196792176C>T	ENSP00000407531:p.Val793Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A5YKK7|B4DGU1|B4DGZ8|B7ZMM0|B9EIQ5|D3DXB8|D3DXB9|E7EWL7|E9PG21|Q12958	Missense_Mutation	SNP	ENST00000419354.1	37	CCDS43194.1	.	.	.	.	.	.	.	.	.	.	C	13.54	2.268692	0.40095	.	.	ENSG00000075711	ENST00000346964;ENST00000359922;ENST00000357674;ENST00000381807;ENST00000314062;ENST00000419354;ENST00000452595;ENST00000422288;ENST00000448528;ENST00000443183;ENST00000392382;ENST00000450955	T;T;T;T;T;T;T;T;T;T	0.16897	2.31;2.31;2.31;2.31;2.31;2.31;2.31;2.31;2.31;2.31	5.32	5.32	0.75619	Guanylate kinase/L-type calcium channel (1);Guanylate kinase (2);	0.000000	0.85682	D	0.000000	T	0.11024	0.0269	N	0.12663	0.25	0.49582	D	0.999805	B;P;B;P;B	0.40302	0.087;0.712;0.174;0.479;0.145	B;B;B;B;B	0.38225	0.025;0.252;0.075;0.268;0.045	T	0.24225	-1.0166	10	0.14252	T	0.57	.	17.9766	0.89129	0.0:1.0:0.0:0.0	.	782;677;689;793;815	Q12959-4;E9PG21;E7EWL7;Q12959;Q12959-2	.;.;.;DLG1_HUMAN;.	I	815;806;782;780;742;793;677;742;793;689;760;782	ENSP00000345731:V815I;ENSP00000350303:V782I;ENSP00000321087:V742I;ENSP00000407531:V793I;ENSP00000398939:V677I;ENSP00000413238:V742I;ENSP00000391732:V793I;ENSP00000396658:V689I;ENSP00000376187:V760I;ENSP00000411278:V782I	ENSP00000321087:V742I	V	-	1	0	DLG1	198276573	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	2.844000	0.48246	2.497000	0.84241	0.467000	0.42956	GTT		0.373	DLG1-008	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000258170.2	NM_004087		T	196792176	C	T	196792176	3	4	664	1	0	0	0	0	1	0	0	0	4556	478	17	2	353	2	DLG1	3	196792176	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2642555	196792176	1230254	201	41511										
SLC26A1	10861	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr4	983647	983647	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgactgcgggcgaacatctcCgccagcgagatggagaaggc	15	11	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:983647C>T	ENST00000361661.2	-	4	1457	c.1080G>A	c.(1078-1080)gcG>gcA	p.A360A	IDUA_ENST00000247933.4_Intron|SLC26A1_ENST00000398520.2_Intron|IDUA_ENST00000453894.1_Intron|SLC26A1_ENST00000513138.1_5'Flank|SLC26A1_ENST00000398516.2_Silent_p.A360A	NM_213613.2	NP_998778.1	Q9H2B4	S26A1_HUMAN	solute carrier family 26 (anion exchanger), member 1	360					3'-phosphoadenosine 5'-phosphosulfate biosynthetic process (GO:0050428)|3'-phosphoadenosine 5'-phosphosulfate metabolic process (GO:0050427)|carbohydrate metabolic process (GO:0005975)|chloride transport (GO:0006821)|glycosaminoglycan metabolic process (GO:0030203)|ion transport (GO:0006811)|oxalate transport (GO:0019532)|small molecule metabolic process (GO:0044281)|sulfate transmembrane transport (GO:1902358)|sulfate transport (GO:0008272)|transmembrane transport (GO:0055085)|xenobiotic metabolic process (GO:0006805)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	anion:anion antiporter activity (GO:0015301)|chloride transmembrane transporter activity (GO:0015108)|oxalate transmembrane transporter activity (GO:0019531)|secondary active sulfate transmembrane transporter activity (GO:0008271)|sulfate transmembrane transporter activity (GO:0015116)			central_nervous_system(1)|endometrium(4)|pancreas(1)|prostate(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			CGAACATCTCCGCCAGCGAGA	0.662																																																0													14	12	13					4																	983647		2149	4239	6388	SO:0001819	synonymous_variant	10861			AF297659	CCDS33933.1, CCDS33934.1	4p16.3	2013-07-18	2013-07-18		ENSG00000145217	ENSG00000145217		"Solute carriers"	10993	protein-coding gene	gene with protein product		610130	"solute carrier family 26 (sulfate transporter), member 1"				Standard	NM_213613		Approved	SAT-1, EDM4	uc003gcc.3	Q9H2B4	OTTHUMG00000160003	ENST00000361661.2:c.1080G>A	4.37:g.983647C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K9N2|Q7Z5R3|Q96BK0	Silent	SNP	ENST00000361661.2	37	CCDS33934.1																																																																																				0.662	SLC26A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358783.1	NM_022042, NM_134425		T	983647	C	T	983647	2	4	664	1	0	0	0	0	0	0	0	1	14527	639	23	1		1	SLC26A1	4	983647	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10		983647	190170629	202	41512										
FGFRL1	53834	ucsc.edu	37	chr4	1017489	1017489	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcctctgggggtcaagaggAccccgccagccagcagtggg	15	14	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:1017489A>C	ENST00000398484.2	+	5	993	c.413A>C	c.(412-414)gAc>gCc	p.D138A	FGFRL1_ENST00000510644.1_Missense_Mutation_p.D138A|FGFRL1_ENST00000264748.6_Missense_Mutation_p.D138A|FGFRL1_ENST00000504138.1_Missense_Mutation_p.D138A			Q8N441	FGRL1_HUMAN	fibroblast growth factor receptor-like 1	138					diaphragm development (GO:0060539)|heart valve morphogenesis (GO:0003179)|negative regulation of cell proliferation (GO:0008285)|skeletal system development (GO:0001501)|ventricular septum morphogenesis (GO:0060412)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	fibroblast growth factor-activated receptor activity (GO:0005007)|heparin binding (GO:0008201)			endometrium(1)|lung(9)|ovary(1)|prostate(1)|skin(1)	13			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			GGTCAAGAGGACCCCGCCAGC	0.697																																																0													6	8	7					4																	1017489		2156	4227	6383	SO:0001583	missense	53834				CCDS3344.1	4p16	2013-01-11			ENSG00000127418	ENSG00000127418		"Immunoglobulin superfamily / I-set domain containing"	3693	protein-coding gene	gene with protein product		605830					Standard	NM_021923		Approved		uc003gcg.3	Q8N441	OTTHUMG00000118998	ENST00000398484.2:c.413A>C	4.37:g.1017489A>C	ENSP00000381498:p.Asp138Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAU9|Q6PJN1|Q9BXN7|Q9H4D7	Missense_Mutation	SNP	ENST00000398484.2	37	CCDS3344.1	.	.	.	.	.	.	.	.	.	.	a	7.133	0.580375	0.13686	.	.	ENSG00000127418	ENST00000398484;ENST00000542622;ENST00000510644;ENST00000504138;ENST00000507339;ENST00000264748	T;T;T;T;T	0.72505	-0.66;-0.66;-0.66;0.08;-0.66	4.39	4.39	0.52855	.	0.765487	0.12236	N	0.487022	T	0.57330	0.2046	N	0.24115	0.695	0.44149	D	0.996949	B	0.16396	0.017	B	0.12156	0.007	T	0.49072	-0.8977	10	0.26408	T	0.33	-24.6479	12.834	0.57763	1.0:0.0:0.0:0.0	.	138	Q8N441	FGRL1_HUMAN	A	138;108;138;138;138;138	ENSP00000381498:D138A;ENSP00000425025:D138A;ENSP00000423091:D138A;ENSP00000424037:D138A;ENSP00000264748:D138A	ENSP00000264748:D138A	D	+	2	0	FGFRL1	1007489	0.247000	0.23920	0.998000	0.56505	0.806000	0.45545	0.568000	0.23623	1.620000	0.50308	0.358000	0.22013	GAC		0.697	FGFRL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239195.2	NM_021923		C	1017489	A	C	1017489	3	2	664	1	0	0	0	0	1	0	0	0	5876	275	10	5	423	5	FGFRL1	4	1017489	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	33842	1017489	190136787	203	41513										
KIAA1530	57654	ucsc.edu	37	chr4	1377724	1377724	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcattgggagaaaagtcttcGccaagtaagagtggctgctg	14	7	1	2	rs139310992	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:1377724G>A	ENST00000389851.4	+	13	2479	c.2032G>A	c.(2032-2034)Gcc>Acc	p.A678T	UVSSA_ENST00000511563.1_Missense_Mutation_p.A229T|UVSSA_ENST00000507531.1_Missense_Mutation_p.A678T|UVSSA_ENST00000511216.1_Missense_Mutation_p.A678T|UVSSA_ENST00000512728.1_Missense_Mutation_p.A229T	NM_020894.2	NP_065945.2	Q2YD98	UVSSA_HUMAN	UV-stimulated scaffold protein A	678					protein ubiquitination (GO:0016567)|response to UV (GO:0009411)|transcription-coupled nucleotide-excision repair (GO:0006283)	chromosome (GO:0005694)	RNA polymerase II core binding (GO:0000993)										AAAAGTCTTCGCCAAGTAAGA	0.627													G|||	4	0.000798722	0.0023	0.0014	5008	,	,		16905	0.0		0.0	False		,,,				2504	0.0															0								G	THR/ALA	17,4385	24.3+/-50.5	1,15,2185	53	50	51		2032	2.2	1	4	dbSNP_134	51	0,8600		0,0,4300	yes	missense	KIAA1530	NM_020894.2	58	1,15,6485	AA,AG,GG		0.0,0.3862,0.1307	possibly-damaging	678/710	1377724	17,12985	2201	4300	6501	SO:0001583	missense	57654			BC021930	CCDS33938.1	4p16.3	2012-04-27	2012-04-27	2012-04-27		ENSG00000163945			29304	protein-coding gene	gene with protein product		614632	"KIAA1530"	KIAA1530		10819331, 22466610, 22466611, 22466612	Standard	NM_020894		Approved		uc003gde.4	Q2YD98		ENST00000389851.4:c.2032G>A	4.37:g.1377724G>A	ENSP00000374501:p.Ala678Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9E6|B2RU11|Q8WTX4|Q9P1Z8	Missense_Mutation	SNP	ENST00000389851.4	37	CCDS33938.1	0	0.0	0	0.0	0	0.0	0	0.0	0	0.0	G	12.25	1.881607	0.33255	0.003862	0.0	ENSG00000163945	ENST00000511216;ENST00000389851;ENST00000507531;ENST00000511563;ENST00000512728	T;T;T;T;T	0.44083	1.53;1.53;1.53;0.93;0.93	4.99	2.15	0.27550	.	0.336647	0.31821	N	0.007019	T	0.27967	0.0689	L	0.60455	1.87	0.26539	N	0.974118	P	0.44946	0.846	B	0.34242	0.178	T	0.17349	-1.0372	10	0.30078	T	0.28	.	4.1502	0.10234	0.2149:0.4065:0.3786:0.0	.	678	Q2YD98	K1530_HUMAN	T	678;678;678;229;229	ENSP00000425130:A678T;ENSP00000374501:A678T;ENSP00000421741:A678T;ENSP00000423340:A229T;ENSP00000427701:A229T	ENSP00000374501:A678T	A	+	1	0	KIAA1530	1367724	1.000000	0.71417	0.988000	0.46212	0.389000	0.30415	3.855000	0.55957	0.566000	0.29273	0.505000	0.49811	GCC		0.627	UVSSA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359480.1	NM_020894		A	1377724	G	A	1377724	3	1	664	1	0	0	0	0	1	0	0	0	8248	1087	38	1	2078	1	KIAA1530	4	1377724	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	360235	1377724	189776552	204	41514										
TACC3	10460	broad.mit.edu	37	chr4	1746487	1746487	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agcaaggcccaggcggaagcGttggccctccaggccagcct	14	15	0	0	rs148572882		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:1746487G>A	ENST00000313288.4	+	15	2485	c.2379G>A	c.(2377-2379)gcG>gcA	p.A793A		NM_006342.2	NP_006333.1	Q9Y6A5	TACC3_HUMAN	transforming, acidic coiled-coil containing protein 3	793					astral microtubule organization (GO:0030953)|cerebral cortex development (GO:0021987)|cytoplasmic sequestering of transcription factor (GO:0042994)|hemopoiesis (GO:0030097)|interkinetic nuclear migration (GO:0022027)|neurogenesis (GO:0022008)|regulation of cell cycle (GO:0051726)|regulation of microtubule-based process (GO:0032886)|response to hypoxia (GO:0001666)	centrosome (GO:0005813)|cytoplasm (GO:0005737)				central_nervous_system(1)|endometrium(4)|large_intestine(1)|lung(10)|ovary(4)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	25		Breast(71;0.212)|all_epithelial(65;0.241)	OV - Ovarian serous cystadenocarcinoma(23;0.00765)|Epithelial(3;0.0126)			AGGCGGAAGCGTTGGCCCTCC	0.672																																					Ovarian(120;482 2294 11894 35824)											0								G		1,4391	2.1+/-5.4	0,1,2195	27	28	28		2379	-10.4	0	4	dbSNP_134	28	1,8595		0,1,4297	no	coding-synonymous	TACC3	NM_006342.1		0,2,6492	AA,AG,GG		0.0116,0.0228,0.0154		793/839	1746487	2,12986	2196	4298	6494	SO:0001819	synonymous_variant	10460			AF093543	CCDS3352.1	4p16.3	2008-07-29			ENSG00000013810	ENSG00000013810			11524	protein-coding gene	gene with protein product		605303				17675670	Standard	NM_006342		Approved	ERIC1	uc003gdo.3	Q9Y6A5	OTTHUMG00000089535	ENST00000313288.4:c.2379G>A	4.37:g.1746487G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKK4|Q3KQS5|Q9UMQ1	Silent	SNP	ENST00000313288.4	37	CCDS3352.1																																																																																				0.672	TACC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000203730.2			A	1746487	G	A	1746487	2	1	664	1	0	0	0	0	0	0	0	1	15515	1132	40	1		1	TACC3	4	1746487	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	368763	1746487	189407789	205	41515										
NOP14	8602	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr4	2950032	2950032	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tttgctttgtttccttctgcGagactcgggtggttgcactt	11	9	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:2950032G>A	ENST00000314262.6	-	9	1434	c.1386C>T	c.(1384-1386)ctC>ctT	p.L462L	NOP14-AS1_ENST00000505731.1_RNA|NOP14-AS1_ENST00000503709.1_RNA|NOP14-AS1_ENST00000515194.1_RNA|NOP14_ENST00000398071.4_Silent_p.L462L|NOP14_ENST00000502735.1_Silent_p.L462L|NOP14-AS1_ENST00000507702.1_RNA|NOP14_ENST00000416614.2_Silent_p.L462L	NM_003703.1	NP_003694.1	P78316	NOP14_HUMAN	NOP14 nucleolar protein	462					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000480)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000447)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000472)|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000462)|ribosomal small subunit biogenesis (GO:0042274)|rRNA processing (GO:0006364)	90S preribosome (GO:0030686)|membrane (GO:0016020)|mitochondrion (GO:0005739)|Noc4p-Nop14p complex (GO:0030692)|nucleolus (GO:0005730)|nucleus (GO:0005634)|small-subunit processome (GO:0032040)	enzyme binding (GO:0019899)|poly(A) RNA binding (GO:0044822)|snoRNA binding (GO:0030515)			NS(1)|endometrium(2)|kidney(3)|large_intestine(9)|lung(12)|pancreas(1)|skin(1)|urinary_tract(1)	30						TTCCTTCTGCGAGACTCGGGT	0.473																																																0													258	204	222					4																	2950032		2203	4300	6503	SO:0001819	synonymous_variant	8602			AB000467	CCDS33945.1	4p16.3	2012-12-10	2012-12-10	2008-10-13	ENSG00000087269	ENSG00000087269			16821	protein-coding gene	gene with protein product	"NOP14 homolog (S. cerevisiae)"	611526	"chromosome 4 open reading frame 9", "nucleolar protein 14", "nucleolar protein 14 homolog (yeast)", "NOP14 nucleolar protein homolog (yeast)"	C4orf9, NOL14		9734812, 11694595	Standard	XR_241655		Approved	RES4-25, UTP2	uc003ggj.1	P78316	OTTHUMG00000159911	ENST00000314262.6:c.1386C>T	4.37:g.2950032G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DVR6|Q7LGI5|Q7Z6K0|Q8TBR6	Silent	SNP	ENST00000314262.6	37	CCDS33945.1																																																																																				0.473	NOP14-002	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000358135.2	NM_003703		A	2950032	G	A	2950032	2	1	664	1	0	0	0	0	0	0	0	1	10543	1045	37	1		1	NOP14	4	2950032	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1203545	2950032	188204244	206	41516										
HTT	3064	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr4	3107131	3107131	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccctgtggaggtttgctgaGctggctcacctggttcggcc	15	12	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:3107131G>A	ENST00000355072.5	+	5	721	c.576G>A	c.(574-576)gaG>gaA	p.E192E		NM_002111.6	NP_002102	P42858	HD_HUMAN	huntingtin	192					anterior/posterior pattern specification (GO:0009952)|axon cargo transport (GO:0008088)|cell aging (GO:0007569)|citrulline metabolic process (GO:0000052)|determination of adult lifespan (GO:0008340)|dopamine receptor signaling pathway (GO:0007212)|endoplasmic reticulum organization (GO:0007029)|endosomal transport (GO:0016197)|ER to Golgi vesicle-mediated transport (GO:0006888)|establishment of mitotic spindle orientation (GO:0000132)|Golgi organization (GO:0007030)|grooming behavior (GO:0007625)|hormone metabolic process (GO:0042445)|insulin secretion (GO:0030073)|iron ion homeostasis (GO:0055072)|L-glutamate import (GO:0051938)|lactate biosynthetic process from pyruvate (GO:0019244)|locomotory behavior (GO:0007626)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of neuron apoptotic process (GO:0043524)|neural plate formation (GO:0021990)|neuron apoptotic process (GO:0051402)|neuron development (GO:0048666)|olfactory lobe development (GO:0021988)|organ development (GO:0048513)|paraxial mesoderm formation (GO:0048341)|positive regulation of inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0031587)|protein import into nucleus (GO:0006606)|quinolinate biosynthetic process (GO:0019805)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane potential (GO:0051881)|regulation of protein phosphatase type 2A activity (GO:0034047)|regulation of synaptic plasticity (GO:0048167)|response to calcium ion (GO:0051592)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)|social behavior (GO:0035176)|spermatogenesis (GO:0007283)|striatum development (GO:0021756)|urea cycle (GO:0000050)|vesicle transport along microtubule (GO:0047496)|visual learning (GO:0008542)	autophagic vacuole (GO:0005776)|axon (GO:0030424)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|inclusion body (GO:0016234)|late endosome (GO:0005770)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|protein complex (GO:0043234)	beta-tubulin binding (GO:0048487)|diazepam binding (GO:0050809)|dynactin binding (GO:0034452)|dynein intermediate chain binding (GO:0045505)|identical protein binding (GO:0042802)|ion channel binding (GO:0044325)|p53 binding (GO:0002039)|transcription factor binding (GO:0008134)			breast(1)|cervix(2)|endometrium(14)|kidney(5)|large_intestine(23)|lung(28)|ovary(4)|prostate(2)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	87		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		GGTTTGCTGAGCTGGCTCACC	0.532																																																0													115	119	118					4																	3107131		2151	4272	6423	SO:0001819	synonymous_variant	3064			L12392	CCDS43206.1	4p16.3	2014-09-17	2007-12-04	2007-12-04	ENSG00000197386	ENSG00000197386		"Endogenous ligands"	4851	protein-coding gene	gene with protein product		613004	"huntingtin (Huntington disease)"	HD		8458085	Standard	NM_002111		Approved	IT15	uc021xkv.1	P42858	OTTHUMG00000159916	ENST00000355072.5:c.576G>A	4.37:g.3107131G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UQB7	Silent	SNP	ENST00000355072.5	37	CCDS43206.1																																																																																				0.532	HTT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358234.2	NM_002111		A	3107131	G	A	3107131	2	1	664	1	0	0	0	0	0	0	0	1	7464	962	34	2		2	HTT	4	3107131	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	157099	3107131	188047145	207	41517										
HGFAC	3083	hgsc.bcm.edu;mdanderson.org	37	chr4	3446155	3446155	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gggccggacctggtgcgaagGcacccgacatacaggtgcgc	16	13	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:3446155G>A	ENST00000382774.3	+	6	831	c.716G>A	c.(715-717)gGc>gAc	p.G239D	HGFAC_ENST00000511533.1_Missense_Mutation_p.G239D	NM_001528.2	NP_001519.1	Q04756	HGFA_HUMAN	HGF activator	239	Fibronectin type-I. {ECO:0000255|PROSITE- ProRule:PRU00478}.				proteolysis (GO:0006508)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|rough endoplasmic reticulum (GO:0005791)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			central_nervous_system(3)|cervix(1)|endometrium(4)|large_intestine(2)|lung(8)|upper_aerodigestive_tract(2)|urinary_tract(2)	22				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		TGGTGCGAAGGCACCCGACAT	0.701																																																0													10	12	11					4																	3446155		2169	4276	6445	SO:0001583	missense	3083			D14012	CCDS3369.1, CCDS75098.1	4p16	2008-02-07			ENSG00000109758	ENSG00000109758	3.4.21.-		4894	protein-coding gene	gene with protein product		604552				7683665, 8226803	Standard	XM_005247966		Approved	HGFAP, HGFA	uc003ghc.3	Q04756	OTTHUMG00000090281	ENST00000382774.3:c.716G>A	4.37:g.3446155G>A	ENSP00000372224:p.Gly239Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q14726|Q2M1W7|Q53X47	Missense_Mutation	SNP	ENST00000382774.3	37	CCDS3369.1	.	.	.	.	.	.	.	.	.	.	G	0.101	-1.152830	0.01700	.	.	ENSG00000109758	ENST00000382774;ENST00000511533	D;D	0.88201	-2.35;-2.32	3.74	-2.65	0.06095	Fibronectin, type I (2);	0.603497	0.17051	N	0.188911	T	0.73418	0.3584	N	0.22421	0.69	0.09310	N	1	B;B	0.10296	0.003;0.001	B;B	0.10450	0.005;0.002	T	0.58014	-0.7711	10	0.12103	T	0.63	.	4.4014	0.11388	0.6291:0.1705:0.2004:0.0	.	239;239	D6RAR4;Q04756	.;HGFA_HUMAN	D	239	ENSP00000372224:G239D;ENSP00000421801:G239D	ENSP00000372224:G239D	G	+	2	0	HGFAC	3415953	0.000000	0.05858	0.000000	0.03702	0.052000	0.14988	-0.212000	0.09319	-0.124000	0.11724	0.462000	0.41574	GGC		0.701	HGFAC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206607.3			A	3446155	G	A	3446155	3	1	664	1	0	0	0	0	1	0	0	0	7093	1203	42	2	738	2	HGFAC	4	3446155	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	339024	3446155	187708121	208	41518										
ZBTB49	166793	ucsc.edu;mdanderson.org	37	chr4	4322722	4322722	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtaagttacggtccatgatCcaacctcatggagttagtga	10	8	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:4322722C>T	ENST00000337872.4	+	8	2098	c.1977C>T	c.(1975-1977)atC>atT	p.I659I	ZBTB49_ENST00000355834.3_Silent_p.I537I|ZBTB49_ENST00000538529.1_Silent_p.I142I|RP11-265O12.1_ENST00000509015.1_lincRNA	NM_145291.3	NP_660334.3	Q6ZSB9	ZBT49_HUMAN	zinc finger and BTB domain containing 49	659					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|endometrium(3)|kidney(3)|large_intestine(5)|lung(9)|ovary(1)|prostate(1)|skin(2)|stomach(1)|urinary_tract(1)	28						GGTCCATGATCCAACCTCATG	0.507																																																0													44	43	43					4																	4322722		2203	4300	6503	SO:0001819	synonymous_variant	166793			AK095878	CCDS3375.1	4p16.2	2013-01-08	2010-01-26	2010-01-26	ENSG00000168826	ENSG00000168826		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	19883	protein-coding gene	gene with protein product			"zinc finger protein 509"	ZNF509		12477932	Standard	NM_145291		Approved	FLJ38559	uc003ghu.3	Q6ZSB9	OTTHUMG00000090325	ENST00000337872.4:c.1977C>T	4.37:g.4322722C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q59FJ4|Q5EBN0|Q8TB80	Silent	SNP	ENST00000337872.4	37	CCDS3375.1																																																																																				0.507	ZBTB49-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206688.3	NM_145291		T	4322722	C	T	4322722	2	4	664	1	0	0	0	0	0	0	0	1	17562	845	30	2		2	ZBTB49	4	4322722	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	876567	4322722	186831554	209	41519										
SORCS2	57537	broad.mit.edu	37	chr4	7725501	7725501	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tacgtgaaccttacactgacCggggagcccatccggcaccg	11	15	0	2	rs566460730	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:7725501C>T	ENST00000507866.2	+	19	2611	c.2502C>T	c.(2500-2502)acC>acT	p.T834T	SORCS2_ENST00000329016.9_Silent_p.T662T	NM_020777.2	NP_065828.2	Q96PQ0	SORC2_HUMAN	sortilin-related VPS10 domain containing receptor 2	834	PKD. {ECO:0000255|PROSITE- ProRule:PRU00151}.				neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)|membrane (GO:0016020)	neuropeptide receptor activity (GO:0008188)			autonomic_ganglia(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(8)|ovary(2)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	42						TTACACTGACCGGGGAGCCCA	0.612													C|||	2	0.000399361	0.0	0.0	5008	,	,		17345	0.001		0.001	False		,,,				2504	0.0															0													129	131	130					4																	7725501		2078	4198	6276	SO:0001819	synonymous_variant	57537			AB037750	CCDS47008.1	4p16.1	2008-02-05			ENSG00000184985	ENSG00000184985			16698	protein-coding gene	gene with protein product		606284				11499680	Standard	NM_020777		Approved	KIAA1329	uc003gkb.4	Q96PQ0	OTTHUMG00000159981	ENST00000507866.2:c.2502C>T	4.37:g.7725501C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9P2L7	Silent	SNP	ENST00000507866.2	37	CCDS47008.1																																																																																				0.612	SORCS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358685.4	NM_020777		T	7725501	C	T	7725501	2	4	664	1	0	0	0	0	0	0	0	1	14944	639	23	1		1	SORCS2	4	7725501	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3402779	7725501	183428775	210	41520										
CPZ	8532	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	8607769	8607769	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atggcaacgaggtggcgggcCgggagatgctcatctaccta	15	10	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:8607769C>T	ENST00000360986.4	+	5	937	c.763C>T	c.(763-765)Cgg>Tgg	p.R255W	CPZ_ENST00000315782.6_Missense_Mutation_p.R244W|CPZ_ENST00000382480.2_Missense_Mutation_p.R118W|CPZ_ENST00000429646.2_5'UTR	NM_001014447.2	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z	255					proteolysis (GO:0006508)|Wnt signaling pathway (GO:0016055)	extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)	metallocarboxypeptidase activity (GO:0004181)|zinc ion binding (GO:0008270)			cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(23)|ovary(3)|pancreas(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	46						GGTGGCGGGCCGGGAGATGCT	0.602																																																0													132	107	115					4																	8607769		2203	4300	6503	SO:0001583	missense	8532			U83411	CCDS3404.1, CCDS33953.1, CCDS43212.1	4p16.1	2012-02-10			ENSG00000109625	ENSG00000109625			2333	protein-coding gene	gene with protein product	"metallocarboxypeptidase Z"	603105				9099699	Standard	NM_001014447		Approved		uc003glm.3	Q66K79	OTTHUMG00000090513	ENST00000360986.4:c.763C>T	4.37:g.8607769C>T	ENSP00000354255:p.Arg255Trp	Somatic		WXS	Illumina HiSeq	Phase_I	O00520|Q96MX2	Missense_Mutation	SNP	ENST00000360986.4	37	CCDS33953.1	.	.	.	.	.	.	.	.	.	.	c	17.35	3.366907	0.61513	.	.	ENSG00000109625	ENST00000360986;ENST00000382480;ENST00000315782	T;T;T	0.12465	2.68;2.68;2.68	3.41	1.33	0.21861	Peptidase M14, carboxypeptidase A (1);	0.260464	0.30201	U	0.010174	T	0.45397	0.1340	H	0.95043	3.615	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.998;0.999	T	0.57353	-0.7826	10	0.87932	D	0	-31.5712	10.5322	0.44983	0.4571:0.5429:0.0:0.0	.	244;255	Q66K79-2;Q66K79	.;CBPZ_HUMAN	W	255;118;244	ENSP00000354255:R255W;ENSP00000371920:R118W;ENSP00000315074:R244W	ENSP00000315074:R244W	R	+	1	2	CPZ	8658669	0.870000	0.30015	0.889000	0.34880	0.636000	0.38137	1.403000	0.34612	0.631000	0.30412	0.461000	0.40582	CGG		0.602	CPZ-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000207001.4	NM_003652		T	8607769	C	T	8607769	3	4	664	1	0	0	0	0	1	0	0	0	3841	643	23	1	781	1	CPZ	4	8607769	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	882268	8607769	182546507	211	41521										
HS3ST1	9957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr4	11401504	11401504	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccgtttggggccacgccatcGcggacgtcatcctggagggt	15	13	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:11401504G>A	ENST00000002596.5	-	2	1300	c.126C>T	c.(124-126)cgC>cgT	p.R42R		NM_005114.2	NP_005105.1	O14792	HS3S1_HUMAN	heparan sulfate (glucosamine) 3-O-sulfotransferase 1	42					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan metabolic process (GO:0030203)|small molecule metabolic process (GO:0044281)	Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity (GO:0008467)|sulfotransferase activity (GO:0008146)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|liver(1)|lung(6)|skin(3)	15						CCACGCCATCGCGGACGTCAT	0.692																																																0													23	22	22					4																	11401504		2200	4294	6494	SO:0001819	synonymous_variant	9957			AF019386	CCDS3408.1	4p16	2008-02-05			ENSG00000002587	ENSG00000002587	2.8.2.23	"Sulfotransferases, membrane-bound"	5194	protein-coding gene	gene with protein product		603244				9988767	Standard	NM_005114		Approved	3OST1	uc003gmq.3	O14792	OTTHUMG00000090547	ENST00000002596.5:c.126C>T	4.37:g.11401504G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KUA6|Q6PEY8	Silent	SNP	ENST00000002596.5	37	CCDS3408.1																																																																																				0.692	HS3ST1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207073.3	NM_005114		A	11401504	G	A	11401504	2	1	664	1	0	0	0	0	0	0	0	1	7370	1074	38	1		1	HS3ST1	4	11401504	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2793735	11401504	179752772	212	41522										
BOD1L	259282	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr4	13592029	13592029	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctcctttgttataagattcGctatgaatttcttcatttgt	5	8	2	2	rs555836394		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:13592029G>A	ENST00000040738.5	-	14	8325	c.8190C>T	c.(8188-8190)agC>agT	p.S2730S		NM_148894.2	NP_683692.2	Q8NFC6	BD1L1_HUMAN	biorientation of chromosomes in cell division 1-like 1	2730						nucleus (GO:0005634)	DNA binding (GO:0003677)	p.S2730S(1)									TATAAGATTCGCTATGAATTT	0.274													G|||	1	0.000199681	0.0	0.0014	5008	,	,		14939	0.0		0.0	False		,,,				2504	0.0															1	Substitution - coding silent(1)	large_intestine(1)											22	24	24					4																	13592029		2182	4267	6449	SO:0001819	synonymous_variant	259282			AF528529	CCDS3411.2	4p16.1	2012-04-10	2012-04-10	2012-04-10	ENSG00000038219	ENSG00000038219			31792	protein-coding gene	gene with protein product			"family with sequence similarity 44, member A", "biorientation of chromosomes in cell division 1-like"	FAM44A, BOD1L			Standard	XM_005248150		Approved	FLJ33215, KIAA1327	uc003gmz.1	Q8NFC6	OTTHUMG00000090659	ENST00000040738.5:c.8190C>T	4.37:g.13592029G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6P0M8|Q96AL1|Q9H6G0|Q9NTD6|Q9P2L9	Silent	SNP	ENST00000040738.5	37	CCDS3411.2																																																																																				0.274	BOD1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207321.1	NM_148894		A	13592029	G	A	13592029	2	1	664	1	0	0	0	0	0	0	0	1	1483	1078	38	1		1	BOD1L	4	13592029	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2190525	13592029	177562247	213	41523										
SLIT2	9353	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	20533609	20533609	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccttcttttttcttcaggcGtctcaataataatgaattta	4	8	4	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:20533609G>A	ENST00000504154.1	+	17	1868	c.1616G>A	c.(1615-1617)cGt>cAt	p.R539H	SLIT2_ENST00000273739.5_Missense_Mutation_p.R543H|SLIT2_ENST00000503837.1_Missense_Mutation_p.R535H|SLIT2_ENST00000503823.1_Missense_Mutation_p.R531H	NM_004787.1	NP_004778.1	O94813	SLIT2_HUMAN	slit homolog 2 (Drosophila)	539					apoptotic process involved in luteolysis (GO:0061364)|axon extension involved in axon guidance (GO:0048846)|axon guidance (GO:0007411)|branching morphogenesis of an epithelial tube (GO:0048754)|cell migration involved in sprouting angiogenesis (GO:0002042)|cellular response to heparin (GO:0071504)|cellular response to hormone stimulus (GO:0032870)|chemorepulsion involved in postnatal olfactory bulb interneuron migration (GO:0021836)|corticospinal neuron axon guidance through spinal cord (GO:0021972)|dorsal/ventral axon guidance (GO:0033563)|in utero embryonic development (GO:0001701)|induction of negative chemotaxis (GO:0050929)|mammary duct terminal end bud growth (GO:0060763)|metanephros development (GO:0001656)|motor neuron axon guidance (GO:0008045)|negative chemotaxis (GO:0050919)|negative regulation of actin filament polymerization (GO:0030837)|negative regulation of axon extension (GO:0030517)|negative regulation of catalytic activity (GO:0043086)|negative regulation of cell growth (GO:0030308)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cellular response to growth factor stimulus (GO:0090288)|negative regulation of chemokine-mediated signaling pathway (GO:0070100)|negative regulation of endothelial cell migration (GO:0010596)|negative regulation of gene expression (GO:0010629)|negative regulation of lamellipodium assembly (GO:0010593)|negative regulation of leukocyte chemotaxis (GO:0002689)|negative regulation of monocyte chemotaxis (GO:0090027)|negative regulation of mononuclear cell migration (GO:0071676)|negative regulation of neutrophil chemotaxis (GO:0090024)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of retinal ganglion cell axon guidance (GO:0090260)|negative regulation of small GTPase mediated signal transduction (GO:0051058)|negative regulation of smooth muscle cell chemotaxis (GO:0071672)|negative regulation of smooth muscle cell migration (GO:0014912)|negative regulation of vascular permeability (GO:0043116)|positive regulation of apoptotic process (GO:0043065)|positive regulation of axonogenesis (GO:0050772)|response to cortisol (GO:0051414)|retinal ganglion cell axon guidance (GO:0031290)|Roundabout signaling pathway (GO:0035385)|single organismal cell-cell adhesion (GO:0016337)|ureteric bud development (GO:0001657)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|chemorepellent activity (GO:0045499)|GTPase inhibitor activity (GO:0005095)|heparin binding (GO:0008201)|identical protein binding (GO:0042802)|laminin-1 binding (GO:0043237)|protein homodimerization activity (GO:0042803)|proteoglycan binding (GO:0043394)|Roundabout binding (GO:0048495)			NS(1)|breast(4)|central_nervous_system(4)|cervix(1)|endometrium(5)|kidney(7)|large_intestine(17)|lung(60)|ovary(3)|pancreas(1)|prostate(2)|skin(10)|upper_aerodigestive_tract(1)	116						TTCTTCAGGCGTCTCAATAAT	0.279																																																0													45	44	44					4																	20533609		2203	4294	6497	SO:0001583	missense	9353			AF055585	CCDS3426.1, CCDS75110.1, CCDS75111.1	4p15.2	2008-08-01	2001-11-28		ENSG00000145147	ENSG00000145147			11086	protein-coding gene	gene with protein product		603746	"slit (Drosophila) homolog 2"	SLIL3		9813312, 18269211	Standard	XM_005248211		Approved	Slit-2	uc003gpr.1	O94813	OTTHUMG00000128551	ENST00000504154.1:c.1616G>A	4.37:g.20533609G>A	ENSP00000422591:p.Arg539His	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLR5|O95710|Q17RU3|Q9Y5Q7	Missense_Mutation	SNP	ENST00000504154.1	37	CCDS3426.1	.	.	.	.	.	.	.	.	.	.	G	26.6	4.757477	0.89843	.	.	ENSG00000145147	ENST00000503823;ENST00000504154;ENST00000273739;ENST00000382173;ENST00000503837	T;T;T;T	0.24538	1.85;1.85;1.85;1.85	5.71	5.71	0.89125	.	0.000000	0.85682	D	0.000000	T	0.35537	0.0935	N	0.20807	0.61	0.80722	D	1	D;D	0.89917	1.0;1.0	D;P	0.71870	0.975;0.9	T	0.05767	-1.0865	10	0.14252	T	0.57	.	19.8677	0.96824	0.0:0.0:1.0:0.0	.	531;539	O94813-3;O94813	.;SLIT2_HUMAN	H	531;539;543;535;535	ENSP00000427548:R531H;ENSP00000422591:R539H;ENSP00000273739:R543H;ENSP00000422261:R535H	ENSP00000273739:R543H	R	+	2	0	SLIT2	20142707	1.000000	0.71417	1.000000	0.80357	0.806000	0.45545	9.230000	0.95299	2.709000	0.92574	0.655000	0.94253	CGT		0.279	SLIT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250396.2			A	20533609	G	A	20533609	3	1	664	1	0	0	0	0	1	0	0	0	14753	1145	40	1	1682	1	SLIT2	4	20533609	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6941580	20533609	170620667	214	41524										
CCKAR	886	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr4	26483646	26483646	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggccatcaggttggctgcggAgctgttactccggatgcggt	16	10	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:26483646A>C	ENST00000295589.3	-	5	1095	c.901T>G	c.(901-903)Tcc>Gcc	p.S301A		NM_000730.2	NP_000721.1	P32238	CCKAR_HUMAN	cholecystokinin A receptor	301					axonogenesis (GO:0007409)|cholecystokinin signaling pathway (GO:0038188)|digestion (GO:0007586)|feeding behavior (GO:0007631)|forebrain development (GO:0030900)|neuron migration (GO:0001764)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|response to nutrient (GO:0007584)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cholecystokinin receptor activity (GO:0004951)			NS(2)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(4)|liver(1)|lung(14)|pancreas(1)|skin(1)	29		Breast(46;0.0503)			Ceruletide(DB00403)	TTGGCTGCGGAGCTGTTACTC	0.612																																																0													103	90	95					4																	26483646		2203	4300	6503	SO:0001583	missense	886			L19315	CCDS3438.1	4p15.2	2013-09-20			ENSG00000163394	ENSG00000163394		"GPCR / Class A : Cholecystokinin receptors"	1570	protein-coding gene	gene with protein product		118444					Standard	NM_000730		Approved		uc003gse.1	P32238	OTTHUMG00000128567	ENST00000295589.3:c.901T>G	4.37:g.26483646A>C	ENSP00000295589:p.Ser301Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9Z5	Missense_Mutation	SNP	ENST00000295589.3	37	CCDS3438.1	.	.	.	.	.	.	.	.	.	.	A	9.149	1.015752	0.19355	.	.	ENSG00000163394	ENST00000295589	T	0.39056	1.1	5.16	3.99	0.46301	GPCR, rhodopsin-like superfamily (1);	0.112402	0.64402	D	0.000006	T	0.33206	0.0855	L	0.52206	1.635	0.39202	D	0.963159	B	0.11235	0.004	B	0.22152	0.038	T	0.12066	-1.0562	10	0.08599	T	0.76	.	9.7742	0.40609	0.9156:0.0:0.0844:0.0	.	301	P32238	CCKAR_HUMAN	A	301	ENSP00000295589:S301A	ENSP00000295589:S301A	S	-	1	0	CCKAR	26092744	1.000000	0.71417	0.977000	0.42913	0.331000	0.28603	5.896000	0.69822	0.824000	0.34613	0.379000	0.24179	TCC		0.612	CCKAR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250418.2			C	26483646	A	C	26483646	3	2	664	1	0	0	0	0	1	0	0	0	2882	304	11	5	389	5	CCKAR	4	26483646	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	5950037	26483646	164670630	215	41525										
PTTG2	23216	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	37962188	37962188	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tatctcaagttttaacacgaCgttttggcaaaacatacgat	6	8	1	0	rs544810432		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:37962188C>T	ENST00000261439.4	+	3	772				PTTG2_ENST00000504686.1_Missense_Mutation_p.R45C|TBC1D1_ENST00000508802.1_Intron	NM_001253914.1|NM_001253915.1|NM_015173.3	NP_001240843.1|NP_001240844.1|NP_055988.2	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family, member 1						membrane organization (GO:0061024)|regulation of protein localization (GO:0032880)	cytosol (GO:0005829)|nucleus (GO:0005634)	Rab GTPase activator activity (GO:0005097)			NS(1)|breast(3)|kidney(1)|large_intestine(5)|lung(19)|ovary(2)|prostate(2)|skin(2)|urinary_tract(1)	36						TTTAACACGACGTTTTGGCAA	0.463													C|||	1	0.000199681	0.0	0.0	5008	,	,		20063	0.0		0.001	False		,,,				2504	0.0															0													71	75	73					4																	37962188		2201	4300	6501	SO:0001627	intron_variant	10744			AB029031	CCDS33972.1, CCDS58897.1	4p14	2013-07-09			ENSG00000065882	ENSG00000065882			11578	protein-coding gene	gene with protein product		609850				10965142, 18258599	Standard	NM_015173		Approved	TBC, TBC1, KIAA1108	uc003gtb.3	Q86TI0	OTTHUMG00000150302	ENST00000261439.4:c.418-53942C>T	4.37:g.37962188C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3D9|E9PGH8|Q96K82|Q9UPP4	Missense_Mutation	SNP	ENST00000261439.4	37	CCDS33972.1	.	.	.	.	.	.	.	.	.	.	C	4.225	0.040670	0.08196	.	.	ENSG00000250254	ENST00000504686	T	0.54071	0.59	1.89	-0.253	0.12996	.	.	.	.	.	T	0.31575	0.0801	N	0.17674	0.51	0.09310	N	1	B	0.12013	0.005	B	0.09377	0.004	T	0.21008	-1.0258	9	0.66056	D	0.02	.	3.0078	0.06034	0.2579:0.5633:0.0:0.1789	.	45	Q9NZH5-2	.	C	45	ENSP00000424261:R45C	ENSP00000424261:R45C	R	+	1	0	PTTG2	37638583	0.012000	0.17670	0.000000	0.03702	0.000000	0.00434	-0.600000	0.05693	-0.316000	0.08690	-1.559000	0.00887	CGT		0.463	TBC1D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317443.2	NM_015173		T	37962188	C	T	37962188	1	4	664	0	1	0	0	0	0	0	0	0	12834	536	19	1		1	PTTG2	4	37962188	Intron	SNP	C	TCGA-KN-8428-01A-11D-2310-10	11478542	37962188	153192088	216	41526										
KIAA1211	57482	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr4	57182448	57182448	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgctgaaccttccagcagccGctctgttcctgtggcccacc	9	18	1	1	rs200653846	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:57182448G>A	ENST00000504228.1	+	6	2885	c.2780G>A	c.(2779-2781)cGc>cAc	p.R927H	KIAA1211_ENST00000264229.6_Missense_Mutation_p.R927H|KIAA1211_ENST00000541073.1_Missense_Mutation_p.R920H			Q6ZU35	K1211_HUMAN	KIAA1211	927										endometrium(7)|large_intestine(10)|lung(39)|ovary(2)|prostate(3)|skin(3)|stomach(1)	65	Glioma(25;0.08)|all_neural(26;0.101)					TCCAGCAGCCGCTCTGTTCCT	0.647													G|||	4	0.000798722	0.0	0.0014	5008	,	,		15311	0.0		0.003	False		,,,				2504	0.0															0								G	HIS/ARG	6,4112		0,6,2053	26	36	33		2780	-7.1	0	4		33	40,8350		1,38,4156	yes	missense	KIAA1211	NM_020722.1	29	1,44,6209	AA,AG,GG		0.4768,0.1457,0.3678	benign	927/1234	57182448	46,12462	2059	4195	6254	SO:0001583	missense	57482			AB033037	CCDS43230.1	4q12	2012-08-03			ENSG00000109265	ENSG00000109265			29219	protein-coding gene	gene with protein product						10574462, 11230166	Standard	NM_020722		Approved		uc003hbk.2	Q6ZU35	OTTHUMG00000160749	ENST00000504228.1:c.2780G>A	4.37:g.57182448G>A	ENSP00000423366:p.Arg927His	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NTE2|Q9NTP8|Q9ULK9	Missense_Mutation	SNP	ENST00000504228.1	37	CCDS43230.1	11	0.005036630036630037	1	0.0020325203252032522	2	0.0055248618784530384	0	0.0	8	0.010554089709762533	G	5.871	0.344809	0.11126	0.001457	0.004768	ENSG00000109265	ENST00000264229;ENST00000504228;ENST00000541073;ENST00000546221	T;T;T	0.11604	2.77;2.77;2.76	3.53	-7.05	0.01573	.	.	.	.	.	T	0.01800	0.0057	N	0.03608	-0.345	0.09310	N	1	B;B;B	0.06786	0.001;0.001;0.001	B;B;B	0.04013	0.001;0.001;0.001	T	0.41770	-0.9490	9	0.15066	T	0.55	-2.4439	0.2445	0.00197	0.3509:0.2295:0.1952:0.2244	.	920;920;927	B7ZVZ4;F5H1N7;Q6ZU35	.;.;K1211_HUMAN	H	927;927;920;837	ENSP00000264229:R927H;ENSP00000423366:R927H;ENSP00000444006:R920H	ENSP00000264229:R927H	R	+	2	0	KIAA1211	56877205	0.000000	0.05858	0.000000	0.03702	0.018000	0.09664	-0.670000	0.05256	-1.491000	0.01840	-0.502000	0.04539	CGC		0.647	KIAA1211-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362097.2	NM_020722		A	57182448	G	A	57182448	3	1	664	1	0	0	0	0	1	0	0	0	8222	1087	38	1	2798	1	KIAA1211	4	57182448	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	19220260	57182448	133971828	217	41527										
KIAA1211	57482	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	57189672	57189672	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtttcgggagcagcaggcgaCgcgggaggagagaaagcaag	19	7	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:57189672C>T	ENST00000504228.1	+	7	3422	c.3317C>T	c.(3316-3318)aCg>aTg	p.T1106M	KIAA1211_ENST00000264229.6_Missense_Mutation_p.T1106M|KIAA1211_ENST00000541073.1_Missense_Mutation_p.T1099M			Q6ZU35	K1211_HUMAN	KIAA1211	1106										endometrium(7)|large_intestine(10)|lung(39)|ovary(2)|prostate(3)|skin(3)|stomach(1)	65	Glioma(25;0.08)|all_neural(26;0.101)					CAGCAGGCGACGCGGGAGGAG	0.507																																																0													69	82	78					4																	57189672		1960	4139	6099	SO:0001583	missense	57482			AB033037	CCDS43230.1	4q12	2012-08-03			ENSG00000109265	ENSG00000109265			29219	protein-coding gene	gene with protein product						10574462, 11230166	Standard	NM_020722		Approved		uc003hbk.2	Q6ZU35	OTTHUMG00000160749	ENST00000504228.1:c.3317C>T	4.37:g.57189672C>T	ENSP00000423366:p.Thr1106Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NTE2|Q9NTP8|Q9ULK9	Missense_Mutation	SNP	ENST00000504228.1	37	CCDS43230.1	.	.	.	.	.	.	.	.	.	.	C	13.06	2.125700	0.37533	.	.	ENSG00000109265	ENST00000264229;ENST00000504228;ENST00000541073	T;T;T	0.13538	2.59;2.59;2.58	5.5	5.5	0.81552	.	.	.	.	.	T	0.38639	0.1048	M	0.62723	1.935	0.22562	N	0.998984	D;D	0.89917	1.0;1.0	D;D	0.76575	0.988;0.988	T	0.13255	-1.0516	9	0.87932	D	0	-3.1528	19.4113	0.94673	0.0:1.0:0.0:0.0	.	1099;1106	F5H1N7;Q6ZU35	.;K1211_HUMAN	M	1106;1106;1099	ENSP00000264229:T1106M;ENSP00000423366:T1106M;ENSP00000444006:T1099M	ENSP00000264229:T1106M	T	+	2	0	KIAA1211	56884429	0.946000	0.32159	0.073000	0.20177	0.106000	0.19336	2.186000	0.42593	2.579000	0.87056	0.563000	0.77884	ACG		0.507	KIAA1211-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362097.2	NM_020722		T	57189672	C	T	57189672	3	4	664	1	0	0	0	0	1	0	0	0	8222	536	19	1	3339	1	KIAA1211	4	57189672	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	7224	57189672	133964604	218	41528										
PPAT	5471	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	57267640	57267640	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttctccaggcaagacttcacGgtaatatcttgggaaacaat	8	9	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:57267640G>A	ENST00000264220.2	-	7	879	c.742C>T	c.(742-744)Cgt>Tgt	p.R248C	PPAT_ENST00000507648.1_5'UTR	NM_002703.4	NP_002694.3	Q06203	PUR1_HUMAN	phosphoribosyl pyrophosphate amidotransferase	248	Glutamine amidotransferase type-2. {ECO:0000255|PROSITE-ProRule:PRU00609}.				'de novo' IMP biosynthetic process (GO:0006189)|cellular response to drug (GO:0035690)|cellular response to insulin stimulus (GO:0032869)|G1/S transition of mitotic cell cycle (GO:0000082)|glutamine catabolic process (GO:0006543)|kidney development (GO:0001822)|lactation (GO:0007595)|maternal process involved in female pregnancy (GO:0060135)|nucleobase-containing small molecule metabolic process (GO:0055086)|nucleoside metabolic process (GO:0009116)|organ regeneration (GO:0031100)|protein homotetramerization (GO:0051289)|purine nucleobase biosynthetic process (GO:0009113)|purine nucleobase metabolic process (GO:0006144)|purine nucleotide biosynthetic process (GO:0006164)|purine ribonucleoside monophosphate biosynthetic process (GO:0009168)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	4 iron, 4 sulfur cluster binding (GO:0051539)|amidophosphoribosyltransferase activity (GO:0004044)|metal ion binding (GO:0046872)			cervix(1)|endometrium(2)|large_intestine(6)|lung(8)|prostate(2)|upper_aerodigestive_tract(1)	20	Glioma(25;0.08)|all_neural(26;0.101)				Fluorouracil(DB00544)|L-Glutamine(DB00130)|Mercaptopurine(DB01033)	AAGACTTCACGGTAATATCTT	0.348																																																0													402	421	415					4																	57267640		2203	4300	6503	SO:0001583	missense	5471				CCDS3505.1	4q12	2012-10-02			ENSG00000128059	ENSG00000128059	2.4.2.14		9238	protein-coding gene	gene with protein product		172450					Standard	NM_002703		Approved	GPAT, PRAT	uc003hbr.3	Q06203	OTTHUMG00000128842	ENST00000264220.2:c.742C>T	4.37:g.57267640G>A	ENSP00000264220:p.Arg248Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000264220.2	37	CCDS3505.1	.	.	.	.	.	.	.	.	.	.	G	17.32	3.359676	0.61403	.	.	ENSG00000128059	ENST00000264220	T	0.78707	-1.2	5.35	5.35	0.76521	Glutamine amidotransferase, type II (1);	0.045285	0.85682	D	0.000000	D	0.84875	0.5569	M	0.92367	3.3	0.80722	D	1	B	0.22983	0.078	B	0.25987	0.065	D	0.84585	0.0663	10	0.87932	D	0	-19.2629	19.4212	0.94721	0.0:0.0:1.0:0.0	.	248	Q06203	PUR1_HUMAN	C	248	ENSP00000264220:R248C	ENSP00000264220:R248C	R	-	1	0	PPAT	56962397	1.000000	0.71417	1.000000	0.80357	0.962000	0.63368	6.145000	0.71769	2.675000	0.91044	0.650000	0.86243	CGT		0.348	PPAT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250781.2	NM_002703		A	57267640	G	A	57267640	3	1	664	1	0	0	0	0	1	0	0	0	12309	1116	39	1	831	1	PPAT	4	57267640	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	77968	57267640	133886636	219	41529										
SRP72	6731	mdanderson.org;bcgsc.ca	37	chr4	57344581	57344581	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acccacaggcagaactggccAtcattcatggtcagatggct	10	12	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:57344581A>G	ENST00000342756.5	+	7	1400	c.679A>G	c.(679-681)Atc>Gtc	p.I227V	SRP72_ENST00000510663.1_Intron	NM_006947.3	NP_008878.3	O76094	SRP72_HUMAN	signal recognition particle 72kDa	227					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|response to drug (GO:0042493)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|signal recognition particle, endoplasmic reticulum targeting (GO:0005786)	7S RNA binding (GO:0008312)|poly(A) RNA binding (GO:0044822)|signal recognition particle binding (GO:0005047)			breast(2)|endometrium(4)|kidney(1)|large_intestine(4)|liver(2)|lung(7)|ovary(2)	22	Glioma(25;0.08)|all_neural(26;0.101)					AGAACTGGCCATCATTCATGG	0.373																																																0													58	57	57					4																	57344581		2203	4300	6503	SO:0001583	missense	6731			AF069765	CCDS3506.1, CCDS58898.1	4q11	2013-01-10	2002-08-29		ENSG00000174780	ENSG00000174780		"Tetratricopeptide (TTC) repeat domain containing"	11303	protein-coding gene	gene with protein product		602122	"signal recognition particle 72kD"			9224693, 9857079	Standard	NM_006947		Approved		uc003hbv.3	O76094	OTTHUMG00000128843	ENST00000342756.5:c.679A>G	4.37:g.57344581A>G	ENSP00000342181:p.Ile227Val	Somatic		WXS	Illumina HiSeq	Phase_I	G5E9Z8|Q7Z3C0	Missense_Mutation	SNP	ENST00000342756.5	37	CCDS3506.1	.	.	.	.	.	.	.	.	.	.	A	5.002	0.185997	0.09495	.	.	ENSG00000174780	ENST00000342756;ENST00000505314	D	0.93763	-3.28	5.09	5.09	0.68999	Tetratricopeptide-like helical (1);Tetratricopeptide repeat-containing (1);	0.049028	0.85682	D	0.000000	T	0.82176	0.4980	N	0.03050	-0.425	0.80722	D	1	B;B	0.09022	0.001;0.002	B;B	0.14023	0.006;0.01	T	0.77520	-0.2557	10	0.14252	T	0.57	.	12.8538	0.57873	1.0:0.0:0.0:0.0	.	227;227	Q86X80;O76094	.;SRP72_HUMAN	V	227;32	ENSP00000342181:I227V	ENSP00000342181:I227V	I	+	1	0	SRP72	57039338	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.095000	0.71439	1.913000	0.55393	0.528000	0.53228	ATC		0.373	SRP72-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250782.7			G	57344581	A	G	57344581	3	3	664	1	0	0	0	0	1	0	0	0	15169	217	8	3	705	3	SRP72	4	57344581	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	76941	57344581	133809695	220	41530										
SHROOM3	57619	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	77691990	77691990	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctgctctccctctcggggcGtctagcccgtgttgagaatg	13	13	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:77691990G>A	ENST00000296043.6	+	10	6514	c.5561G>A	c.(5560-5562)cGt>cAt	p.R1854H	RP11-359D14.3_ENST00000449007.1_RNA	NM_020859.3	NP_065910.3	Q8TF72	SHRM3_HUMAN	shroom family member 3	1854	ASD2. {ECO:0000255|PROSITE- ProRule:PRU00638}.				actin cytoskeleton organization (GO:0030036)|apical protein localization (GO:0045176)|cell morphogenesis (GO:0000902)|cellular pigment accumulation (GO:0043482)|columnar/cuboidal epithelial cell development (GO:0002066)|neural tube closure (GO:0001843)|pattern specification process (GO:0007389)|regulation of cell shape (GO:0008360)	adherens junction (GO:0005912)|apical junction complex (GO:0043296)|apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|microtubule (GO:0005874)				NS(3)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(10)|kidney(2)|large_intestine(6)|lung(29)|ovary(1)|skin(5)|upper_aerodigestive_tract(1)	60			Lung(101;0.0903)			CTCTCGGGGCGTCTAGCCCGT	0.517																																																0													132	132	132					4																	77691990		2203	4300	6503	SO:0001583	missense	57619			AB055660	CCDS3579.2	4q21.1	2009-11-25			ENSG00000138771	ENSG00000138771			30422	protein-coding gene	gene with protein product		604570				10589677, 16615870	Standard	NM_020859		Approved	ShrmL, SHRM, KIAA1481, APXL3	uc011cbx.2	Q8TF72	OTTHUMG00000157075	ENST00000296043.6:c.5561G>A	4.37:g.77691990G>A	ENSP00000296043:p.Arg1854His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5QTQ3|Q6ZRW3|Q96IR9|Q9P247	Missense_Mutation	SNP	ENST00000296043.6	37	CCDS3579.2	.	.	.	.	.	.	.	.	.	.	G	31	5.096592	0.94197	.	.	ENSG00000138771	ENST00000296043	T	0.67171	-0.25	5.53	5.53	0.82687	Apx/shroom, ASD2 (2);	0.000000	0.64402	D	0.000001	D	0.85066	0.5612	M	0.86502	2.82	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.86671	0.1910	10	0.87932	D	0	-21.8478	19.6591	0.95857	0.0:0.0:1.0:0.0	.	1854	Q8TF72	SHRM3_HUMAN	H	1854	ENSP00000296043:R1854H	ENSP00000296043:R1854H	R	+	2	0	SHROOM3	77911014	1.000000	0.71417	1.000000	0.80357	0.711000	0.40976	9.657000	0.98554	2.879000	0.98667	0.650000	0.86243	CGT		0.517	SHROOM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252408.2	NM_020859		A	77691990	G	A	77691990	3	1	664	1	0	0	0	0	1	0	0	0	14308	1145	40	1	5599	1	SHROOM3	4	77691990	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	20347409	77691990	113462286	221	41531										
FRAS1	80144	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr4	79236854	79236854	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgcatgtctgaatgccctggCgggtactatgctgatgccac	12	11	1	2	rs557214616		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:79236854C>T	ENST00000325942.6	+	16	2225	c.1785C>T	c.(1783-1785)ggC>ggT	p.G595G	FRAS1_ENST00000264899.6_Silent_p.G595G|FRAS1_ENST00000264895.6_Silent_p.G595G	NM_001166133.1	NP_001159605.1	Q86XX4	FRAS1_HUMAN	Fraser extracellular matrix complex subunit 1	595					cell communication (GO:0007154)|embryonic limb morphogenesis (GO:0030326)|metanephros morphogenesis (GO:0003338)|morphogenesis of an epithelium (GO:0002009)|palate development (GO:0060021)|protein transport (GO:0015031)|skin development (GO:0043588)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|sublamina densa (GO:0061618)	metal ion binding (GO:0046872)			breast(2)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(5)|lung(54)|prostate(7)|skin(2)|urinary_tract(4)	103						AATGCCCTGGCGGGTACTATG	0.483																																																0													109	106	107					4																	79236854		1986	4165	6151	SO:0001819	synonymous_variant	80144			AB040933	CCDS54772.1	4q21.21	2014-06-25	2014-06-25		ENSG00000138759	ENSG00000138759			19185	protein-coding gene	gene with protein product		607830	"Fraser syndrome 1"			12766769, 3118036	Standard	NM_025074		Approved	FLJ22031, FLJ14927, KIAA1500	uc003hlb.2	Q86XX4	OTTHUMG00000160856	ENST00000325942.6:c.1785C>T	4.37:g.79236854C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2RRR8|Q86UZ4|Q8N3U9|Q8NAU7|Q96JW7|Q9H6N9|Q9P228	Silent	SNP	ENST00000325942.6	37	CCDS54772.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	c|c	0.016|0.016	-1.531790|-1.531790	0.00951|0.00951	.|.	.|.	ENSG00000138759|ENSG00000138759	ENST00000502446|ENST00000508900	.|.	.|.	.|.	5.74|5.74	-5.79|-5.79	0.02354|0.02354	.|.	.|.	.|.	.|.	.|.	T|T	0.42653|0.42653	0.1212|0.1212	.|.	.|.	.|.	0.33376|0.33376	D|D	0.57422|0.57422	.|.	.|.	.|.	.|.	.|.	.|.	T|T	0.53078|0.53078	-0.8489|-0.8489	4|4	.|.	.|.	.|.	.|.	9.0288|9.0288	0.36247|0.36247	0.0886:0.2912:0.0:0.6202|0.0886:0.2912:0.0:0.6202	.|.	.|.	.|.	.|.	V|W	524|438	.|.	.|.	A|R	+|+	2|1	0|2	FRAS1|FRAS1	79455878|79455878	0.001000|0.001000	0.12720|0.12720	0.007000|0.007000	0.13788|0.13788	0.001000|0.001000	0.01503|0.01503	-0.538000|-0.538000	0.06120|0.06120	-0.754000|-0.754000	0.04715|0.04715	-2.655000|-2.655000	0.00148|0.00148	GCG|CGG		0.483	FRAS1-001	NOVEL	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000362706.2			T	79236854	C	T	79236854	2	4	664	1	0	0	0	0	0	0	0	1	6049	755	27	1		1	FRAS1	4	79236854	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1544864	79236854	111917422	222	41532										
RASGEF1B	153020	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	82366931	82366931	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tagcaaccaagtagctgaggCgattaaaccattccacgtaa	8	10	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:82366931C>T	ENST00000264400.2	-	7	942	c.791G>A	c.(790-792)cGc>cAc	p.R264H	RASGEF1B_ENST00000335927.7_Missense_Mutation_p.R222H|RASGEF1B_ENST00000509081.1_Missense_Mutation_p.R263H	NM_152545.1	NP_689758.1	Q0VAM2	RGF1B_HUMAN	RasGEF domain family, member 1B	264	Ras-GEF. {ECO:0000255|PROSITE- ProRule:PRU00168}.				positive regulation of Ras GTPase activity (GO:0032320)|small GTPase mediated signal transduction (GO:0007264)	endosome (GO:0005768)	Ras guanyl-nucleotide exchange factor activity (GO:0005088)			endometrium(2)|kidney(5)|large_intestine(4)|lung(13)|prostate(1)|skin(1)	26						GTAGCTGAGGCGATTAAACCA	0.353																																																0													95	92	93					4																	82366931		2203	4300	6503	SO:0001583	missense	153020			AK056257	CCDS34022.1, CCDS75151.1, CCDS75152.1	4q21.21	2013-09-24				ENSG00000138670			24881	protein-coding gene	gene with protein product		614532				12488504	Standard	XM_005262776		Approved	GPIG4, FLJ31695	uc003hmi.1	Q0VAM2		ENST00000264400.2:c.791G>A	4.37:g.82366931C>T	ENSP00000264400:p.Arg264His	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAM1|Q4W5L7|Q4W5M3|Q96MY8	Missense_Mutation	SNP	ENST00000264400.2	37	CCDS34022.1	.	.	.	.	.	.	.	.	.	.	C	25.3	4.622406	0.87460	.	.	ENSG00000138670	ENST00000509081;ENST00000264400;ENST00000335927;ENST00000504863	T;T;T;T	0.29917	1.55;1.55;1.55;1.55	5.44	4.6	0.57074	Guanine-nucleotide dissociation stimulator CDC25 (4);Ras guanine nucleotide exchange factor, domain (1);	0.000000	0.85682	D	0.000000	T	0.34135	0.0887	L	0.41492	1.28	0.80722	D	1	P;P;P	0.51351	0.944;0.858;0.884	P;P;P	0.48627	0.567;0.448;0.584	T	0.14811	-1.0459	10	0.66056	D	0.02	.	14.0876	0.64968	0.0:0.9274:0.0:0.0726	.	222;263;264	Q0VAM2-2;Q0VAM2-3;Q0VAM2	.;.;RGF1B_HUMAN	H	263;264;222;109	ENSP00000425393:R263H;ENSP00000264400:R264H;ENSP00000338437:R222H;ENSP00000426929:R109H	ENSP00000264400:R264H	R	-	2	0	RASGEF1B	82585955	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	7.320000	0.79064	1.536000	0.49237	0.655000	0.94253	CGC		0.353	RASGEF1B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000362830.1	NM_152545		T	82366931	C	T	82366931	3	4	664	1	0	0	0	0	1	0	0	0	13083	768	27	1	662	1	RASGEF1B	4	82366931	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3130077	82366931	108787345	223	41533										
SCD5	79966	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	83557759	83557759	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcaccaatggcacccagagCgacgagtgggttctgccgag	13	13	2	1	rs371261082		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:83557759C>T	ENST00000319540.4	-	4	1106	c.787G>A	c.(787-789)Gct>Act	p.A263T		NM_001037582.2	NP_001032671.2	Q86SK9	SCD5_HUMAN	stearoyl-CoA desaturase 5	263					fatty acid biosynthetic process (GO:0006633)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	iron ion binding (GO:0005506)|stearoyl-CoA 9-desaturase activity (GO:0004768)			endometrium(1)|kidney(2)|large_intestine(3)|lung(6)|ovary(1)	13		Colorectal(4;0.0323)|Hepatocellular(203;0.115)				GCACCCAGAGCGACGAGTGGG	0.552																																																0								C	THR/ALA	0,4406		0,0,2203	89	80	83		787	0.7	0.1	4		83	1,8599	1.2+/-3.3	0,1,4299	no	missense	SCD5	NM_001037582.2	58	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign	263/331	83557759	1,13005	2203	4300	6503	SO:0001583	missense	79966			AF389338	CCDS3595.1, CCDS34024.1	4q21.3	2013-01-25	2005-06-09	2005-06-09	ENSG00000145284	ENSG00000145284		"Fatty acid desaturases"	21088	protein-coding gene	gene with protein product		608370	"stearoyl-CoA desaturase 4"	SCD4		12477932	Standard	NM_024906		Approved	ACOD4, FLJ21032, FADS4, HSCD5	uc003hna.2	Q86SK9	OTTHUMG00000130293	ENST00000319540.4:c.787G>A	4.37:g.83557759C>T	ENSP00000316329:p.Ala263Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPG0|Q4W5Q5|Q8NDS0|Q9H7D1	Missense_Mutation	SNP	ENST00000319540.4	37	CCDS34024.1	.	.	.	.	.	.	.	.	.	.	C	3.842	-0.033678	0.07543	0.0	1.16E-4	ENSG00000145284	ENST00000319540	T	0.15718	2.4	5.08	0.695	0.18070	Fatty acid desaturase, type 1 (1);	0.251785	0.47455	N	0.000229	T	0.14527	0.0351	L	0.54323	1.7	0.80722	D	1	B	0.12630	0.006	B	0.15052	0.012	T	0.08351	-1.0726	10	0.31617	T	0.26	-3.3454	8.4765	0.33016	0.0:0.3574:0.0:0.6426	.	263	Q86SK9	SCD5_HUMAN	T	263	ENSP00000316329:A263T	ENSP00000316329:A263T	A	-	1	0	SCD5	83776783	0.987000	0.35691	0.102000	0.21198	0.034000	0.12701	0.707000	0.25704	0.056000	0.16144	-0.982000	0.02568	GCT		0.552	SCD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252635.1	NM_024906		T	83557759	C	T	83557759	3	4	664	1	0	0	0	0	1	0	0	0	13900	768	27	1	213	1	SCD5	4	83557759	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1190828	83557759	107596517	224	41534										
WDFY3	23001	broad.mit.edu	37	chr4	85758218	85758218	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccagggtggaaggcactgacAttgttgtcatgcagtccacg	13	10	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:85758218A>G	ENST00000295888.4	-	7	847	c.440T>C	c.(439-441)aTg>aCg	p.M147T	WDFY3_ENST00000322366.6_Missense_Mutation_p.M147T	NM_014991.4	NP_055806.2	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3	147					aggrephagy (GO:0035973)|positive regulation of macroautophagy (GO:0016239)	autophagic vacuole (GO:0005776)|cytoplasm (GO:0005737)|extrinsic component of membrane (GO:0019898)|inclusion body (GO:0016234)|nuclear envelope (GO:0005635)|PML body (GO:0016605)	1-phosphatidylinositol binding (GO:0005545)|beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity (GO:0003831)|metal ion binding (GO:0046872)			breast(5)|central_nervous_system(5)|endometrium(15)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(32)|lung(50)|ovary(3)|prostate(5)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	134		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		AGGCACTGACATTGTTGTCAT	0.403																																																0													73	67	69					4																	85758218		2203	4300	6503	SO:0001583	missense	23001			AB023210	CCDS3609.1	4q21.3	2013-01-09			ENSG00000163625	ENSG00000163625		"Zinc fingers, FYVE domain containing", "WD repeat domain containing"	20751	protein-coding gene	gene with protein product						10231032	Standard	NM_014991		Approved	KIAA0993, ALFY, ZFYVE25	uc003hpd.3	Q8IZQ1	OTTHUMG00000130424	ENST00000295888.4:c.440T>C	4.37:g.85758218A>G	ENSP00000295888:p.Met147Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5K5|Q6P0Q5|Q8N1T2|Q8NAV6|Q96BS7|Q96D33|Q96N85|Q9Y2J7	Missense_Mutation	SNP	ENST00000295888.4	37	CCDS3609.1	.	.	.	.	.	.	.	.	.	.	A	13.53	2.264860	0.40095	.	.	ENSG00000163625	ENST00000322366;ENST00000295888	T;T	0.15834	2.39;2.39	5.76	5.76	0.90799	.	0.111475	0.85682	D	0.000000	T	0.09598	0.0236	N	0.08118	0	0.80722	D	1	B;B	0.33103	0.397;0.019	B;B	0.30782	0.12;0.008	T	0.34900	-0.9810	10	0.17832	T	0.49	.	16.0697	0.80914	1.0:0.0:0.0:0.0	.	147;147	E2QRK8;Q8IZQ1	.;WDFY3_HUMAN	T	147	ENSP00000318466:M147T;ENSP00000295888:M147T	ENSP00000295888:M147T	M	-	2	0	WDFY3	85977242	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	9.157000	0.94714	2.190000	0.69967	0.374000	0.22700	ATG		0.403	WDFY3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252811.2	NM_014991		G	85758218	A	G	85758218	3	3	664	1	0	0	0	0	1	0	0	0	17282	217	8	3	10431	3	WDFY3	4	85758218	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	2200459	85758218	105396058	225	41535										
PTPN13	5783	bcgsc.ca	37	chr4	87728796	87728796	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	taccagttgggaaagaagagTtcgtttacattgcctgccaa	10	8	0	2	rs199502086		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:87728796T>C	ENST00000411767.2	+	45	6892	c.6829T>C	c.(6829-6831)Ttc>Ctc	p.F2277L	PTPN13_ENST00000436978.1_Missense_Mutation_p.F2282L|PTPN13_ENST00000511467.1_Missense_Mutation_p.F2282L|PTPN13_ENST00000427191.2_Missense_Mutation_p.F2258L|PTPN13_ENST00000316707.6_Missense_Mutation_p.F2086L			Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type 13 (APO-1/CD95 (Fas)-associated phosphatase)	2277	Tyrosine-protein phosphatase. {ECO:0000255|PROSITE-ProRule:PRU00160}.				peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)	cell body (GO:0044297)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|lamellipodium (GO:0030027)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	protein tyrosine phosphatase activity (GO:0004725)			NS(4)|breast(3)|central_nervous_system(1)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(12)|large_intestine(23)|lung(24)|ovary(4)|prostate(3)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(2)	93		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		GAAAGAAGAGTTCGTTTACAT	0.448																																																0													185	176	179					4																	87728796		1916	4122	6038	SO:0001583	missense	5783				CCDS47093.1, CCDS47094.1, CCDS47095.1, CCDS47096.1	4q21.3	2011-06-09			ENSG00000163629	ENSG00000163629		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Non-receptor"	9646	protein-coding gene	gene with protein product		600267				8287977	Standard	NM_006264		Approved	PTP1E, PTP-BAS, PTPL1, PTP-BL	uc003hpy.3	Q12923	OTTHUMG00000160968	ENST00000411767.2:c.6829T>C	4.37:g.87728796T>C	ENSP00000407249:p.Phe2277Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTR0|Q15159|Q15263|Q15264|Q15265|Q15674|Q16826|Q8IWH7|Q9NYN9|Q9UDA8	Missense_Mutation	SNP	ENST00000411767.2	37	CCDS47094.1	.	.	.	.	.	.	.	.	.	.	T	15.66	2.900210	0.52227	.	.	ENSG00000163629	ENST00000427191;ENST00000436978;ENST00000316707;ENST00000411767;ENST00000511467;ENST00000357349	D;D;D;D;D	0.83335	-1.71;-1.71;-1.71;-1.71;-1.71	5.48	5.48	0.80851	Protein-tyrosine phosphatase, receptor/non-receptor type (3);	0.000000	0.48286	D	0.000187	T	0.68742	0.3034	N	0.12182	0.205	0.44477	D	0.997416	B;B;B;B	0.30914	0.11;0.162;0.3;0.255	B;B;B;B	0.28465	0.026;0.054;0.09;0.054	T	0.66956	-0.5792	10	0.16896	T	0.51	.	15.5763	0.76392	0.0:0.0:0.0:1.0	.	2086;2258;2277;2282	Q12923-2;Q12923-3;Q12923;Q12923-4	.;.;PTN13_HUMAN;.	L	2258;2282;2086;2277;2282;2226	ENSP00000408368:F2258L;ENSP00000394794:F2282L;ENSP00000322675:F2086L;ENSP00000407249:F2277L;ENSP00000426626:F2282L	ENSP00000322675:F2086L	F	+	1	0	PTPN13	87947820	1.000000	0.71417	0.831000	0.32960	0.978000	0.69477	6.141000	0.71744	2.075000	0.62263	0.528000	0.53228	TTC		0.448	PTPN13-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000363191.1			C	87728796	T	C	87728796	3	2	664	1	0	0	0	0	1	0	0	0	12793	1725	60	3	7018	3	PTPN13	4	87728796	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1970578	87728796	103425480	226	41536										
ADH1C	126	broad.mit.edu	37	chr4	100268909	100268909	+	RNA	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaaagtatttcaccttaatgCgaacttcatgagccttagga	7	8	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:100268909C>T	ENST00000510055.1	-	0	287				ADH1C_ENST00000515683.1_RNA			P00326	ADH1G_HUMAN	alcohol dehydrogenase 1C (class I), gamma polypeptide						ethanol oxidation (GO:0006069)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)	alcohol dehydrogenase (NAD) activity (GO:0004022)|zinc ion binding (GO:0008270)								OV - Ovarian serous cystadenocarcinoma(123;1.08e-07)	Ethanol(DB00898)|Fomepizole(DB01213)	CACCTTAATGCGAACTTCATG	0.333																																																0													67	64	65					4																	100268909		2203	4300	6503			126			M12272		4q23	2010-03-16			ENSG00000248144	ENSG00000248144	1.1.1.1	"Alcohol dehydrogenases"	251	protein-coding gene	gene with protein product		103730		ADH3		3006456	Standard	NM_000669		Approved		uc031sgp.1	P00326	OTTHUMG00000161422		4.37:g.100268909C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q4PJ18|Q5WRV0|Q6LBW4|Q6NWV0|Q6NZA7	RNA	SNP	ENST00000510055.1	37																																																																																					0.333	ADH1C-004	KNOWN	mRNA_end_NF|basic	processed_transcript	polymorphic_pseudogene	OTTHUMT00000365189.2	NM_000669		T	100268909	C	T	100268909	1	4	664	0	1	0	0	0	0	0	0	0	309	768	27	1		1	ADH1C	4	100268909	RNA	SNP	C	TCGA-KN-8428-01A-11D-2310-10	12540113	100268909	90885367	227	41537										
EMCN	51705	ucsc.edu;mdanderson.org	37	chr4	101386644	101386644	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtaacacttgttactgttacGtttgaaatgatggagtcatt	9	5	1	2	rs115243972	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:101386644G>A	ENST00000296420.4	-	4	490	c.312C>T	c.(310-312)aaC>aaT	p.N104N	EMCN_ENST00000502327.1_5'UTR|EMCN_ENST00000305864.3_Silent_p.N104N|EMCN_ENST00000511970.1_Silent_p.N104N	NM_001159694.1|NM_016242.3	NP_001153166.1|NP_057326.2	Q9ULC0	MUCEN_HUMAN	endomucin	104	Thr-rich.					extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				endometrium(2)|kidney(1)|large_intestine(2)|lung(7)|upper_aerodigestive_tract(1)	13				OV - Ovarian serous cystadenocarcinoma(123;2.49e-08)		TTACTGTTACGTTTGAAATGA	0.368													G|||	25	0.00499201	0.0166	0.0029	5008	,	,		18716	0.0		0.0	False		,,,				2504	0.001															0								G	,	101,4305	80.9+/-119.3	2,97,2104	191	168	176		312,312	-7.9	0	4	dbSNP_132	176	2,8598	2.2+/-6.3	0,2,4298	no	coding-synonymous,coding-synonymous	EMCN	NM_001159694.1,NM_016242.3	,	2,99,6402	AA,AG,GG		0.0233,2.2923,0.7919	,	104/249,104/262	101386644	103,12903	2203	4300	6503	SO:0001819	synonymous_variant	51705			AF205940	CCDS3655.1, CCDS54782.1	4q22.1	2008-02-05			ENSG00000164035	ENSG00000164035		"Mucins"	16041	protein-coding gene	gene with protein product		608350				11418125, 11594763	Standard	NM_016242		Approved	MUC14	uc003hvr.3	Q9ULC0	OTTHUMG00000131051	ENST00000296420.4:c.312C>T	4.37:g.101386644G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K716|B4E347|Q8NEY5|Q8WWE7|Q9NRM8	Silent	SNP	ENST00000296420.4	37	CCDS3655.1																																																																																				0.368	EMCN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253699.2	NM_016242		A	101386644	G	A	101386644	2	1	664	1	0	0	0	0	0	0	0	1	5088	1136	40	1		1	EMCN	4	101386644	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1117735	101386644	89767632	228	41538										
SYNPO2	171024	hgsc.bcm.edu;ucsc.edu	37	chr4	119951253	119951253	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtagcatttcttggtgcaagCgaatcagaggtggatgaaga	14	5	2	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:119951253C>T	ENST00000429713.2	+	4	1505	c.1323C>T	c.(1321-1323)agC>agT	p.S441S	SYNPO2_ENST00000434046.2_Silent_p.S441S|SYNPO2_ENST00000448416.2_Intron|SYNPO2_ENST00000307142.4_Silent_p.S441S	NM_001128933.1	NP_001122405.1	Q9UMS6	SYNP2_HUMAN	synaptopodin 2	441						actin cytoskeleton (GO:0015629)|focal adhesion (GO:0005925)|nucleus (GO:0005634)|Z disc (GO:0030018)	14-3-3 protein binding (GO:0071889)|muscle alpha-actinin binding (GO:0051371)			breast(3)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(20)|lung(18)|ovary(2)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	64						TTGGTGCAAGCGAATCAGAGG	0.483																																																0													194	187	189					4																	119951253		2203	4300	6503	SO:0001819	synonymous_variant	171024			AJ010482	CCDS34054.1, CCDS47128.1, CCDS47129.1, CCDS75185.1, CCDS75186.1	4q26	2008-08-29			ENSG00000172403	ENSG00000172403			17732	protein-coding gene	gene with protein product						11673475, 17828378	Standard	NM_133477		Approved	MYOPODIN	uc010inb.3	Q9UMS6	OTTHUMG00000161165	ENST00000429713.2:c.1323C>T	4.37:g.119951253C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RWP6|B2Y8J9|Q9UK89|S5XAM4	Silent	SNP	ENST00000429713.2	37	CCDS47129.1	.	.	.	.	.	.	.	.	.	.	C	1.222	-0.626610	0.03610	.	.	ENSG00000172403	ENST00000504178	.	.	.	5.69	-1.15	0.09709	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-20.3512	12.9267	0.58264	0.0:0.3209:0.0:0.6791	.	.	.	.	X	393	.	.	R	+	1	2	SYNPO2	120170701	0.011000	0.17503	0.197000	0.23402	0.042000	0.13812	-0.893000	0.04127	-0.674000	0.05253	-0.244000	0.11960	CGA		0.483	SYNPO2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000364020.1			T	119951253	C	T	119951253	2	4	664	1	0	0	0	0	0	0	0	1	15469	767	27	1		1	SYNPO2	4	119951253	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	18564609	119951253	71203023	229	41539										
FAT4	79633	broad.mit.edu	37	chr4	126389786	126389786	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcaaatttgccacgattaaaAgtcatgccttattgctttac	5	9	2	0	rs183593425		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:126389786A>G	ENST00000394329.3	+	11	12032	c.12019A>G	c.(12019-12021)Agt>Ggt	p.S4007G	FAT4_ENST00000335110.5_Missense_Mutation_p.S2270G	NM_024582.4	NP_078858.4	Q6V0I7	FAT4_HUMAN	FAT atypical cadherin 4	4007	Laminin G-like 1. {ECO:0000255|PROSITE- ProRule:PRU00122}.				branching involved in ureteric bud morphogenesis (GO:0001658)|cerebral cortex development (GO:0021987)|digestive tract development (GO:0048565)|heart morphogenesis (GO:0003007)|heterophilic cell-cell adhesion (GO:0007157)|hippo signaling (GO:0035329)|homophilic cell adhesion (GO:0007156)|inner ear receptor stereocilium organization (GO:0060122)|neurogenesis (GO:0022008)|ossification involved in bone maturation (GO:0043931)|plasma membrane organization (GO:0007009)|regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072307)	apical part of cell (GO:0045177)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(6)|autonomic_ganglia(1)|breast(4)|central_nervous_system(3)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(3)|kidney(10)|large_intestine(93)|liver(3)|lung(120)|ovary(9)|pancreas(2)|prostate(21)|skin(31)|stomach(1)|upper_aerodigestive_tract(12)|urinary_tract(6)	355						CACGATTAAAAGTCATGCCTT	0.388													A|||	1	0.000199681	0.0	0.0	5008	,	,		15216	0.001		0.0	False		,,,				2504	0.0															0													78	77	77					4																	126389786		2203	4300	6503	SO:0001583	missense	79633			AY356402	CCDS3732.3	4q28.1	2013-05-31	2013-05-31		ENSG00000196159	ENSG00000196159		"Cadherins / Cadherin-related"	23109	protein-coding gene	gene with protein product	"cadherin-related family member 11"	612411	"FAT tumor suppressor homolog 4 (Drosophila)"			15003449	Standard	NM_024582		Approved	CDHF14, FAT-J, CDHR11	uc003ifj.4	Q6V0I7	OTTHUMG00000133100	ENST00000394329.3:c.12019A>G	4.37:g.126389786A>G	ENSP00000377862:p.Ser4007Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5Z6|B5MDG4|Q3LIA6|Q8TCK7|Q9H5T6	Missense_Mutation	SNP	ENST00000394329.3	37	CCDS3732.3	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	A	15.46	2.840879	0.51057	.	.	ENSG00000196159	ENST00000394329;ENST00000335110	T;T	0.78707	-1.2;-1.2	5.13	5.13	0.70059	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (2);Laminin G, subdomain 2 (1);	0.176916	0.26262	U	0.025385	T	0.78181	0.4243	L	0.51914	1.62	0.37495	D	0.916531	B;B;B	0.29835	0.135;0.258;0.218	B;B;B	0.39738	0.082;0.308;0.082	T	0.80899	-0.1176	10	0.56958	D	0.05	.	15.0081	0.71527	1.0:0.0:0.0:0.0	.	2270;4007;4007	Q6V0I7-2;Q6V0I7;Q6V0I7-3	.;FAT4_HUMAN;.	G	4007;2270	ENSP00000377862:S4007G;ENSP00000335169:S2270G	ENSP00000335169:S2270G	S	+	1	0	FAT4	126609236	1.000000	0.71417	1.000000	0.80357	0.900000	0.52787	3.922000	0.56462	1.943000	0.56356	0.473000	0.43528	AGT		0.388	FAT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256765.2	NM_024582		G	126389786	A	G	126389786	3	3	664	1	0	0	0	0	1	0	0	0	5699	72	3	3	12061	3	FAT4	4	126389786	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	6438533	126389786	64764490	230	41540										
UCP1	7350	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr4	141481158	141481158	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaagtcgcaagaaggaaggTaccaacctagaaaagtgcat	10	9	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:141481158T>C	ENST00000262999.3	-	6	891	c.816A>G	c.(814-816)gtA>gtG	p.V272V		NM_021833.4	NP_068605.1	P25874	UCP1_HUMAN	uncoupling protein 1 (mitochondrial, proton carrier)	272					brown fat cell differentiation (GO:0050873)|cellular metabolic process (GO:0044237)|mitochondrial transport (GO:0006839)|proton transport (GO:0015992)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	oxidative phosphorylation uncoupler activity (GO:0017077)			NS(1)|breast(1)|kidney(1)|large_intestine(4)|lung(6)|ovary(1)|skin(1)|stomach(1)	16	all_hematologic(180;0.162)					AGAAGGAAGGTACCAACCTAG	0.413																																																0													161	125	137					4																	141481158		2203	4300	6503	SO:0001819	synonymous_variant	7350			X51955	CCDS3753.1	4q28-q31	2013-05-22			ENSG00000109424	ENSG00000109424		"Solute carriers"	12517	protein-coding gene	gene with protein product		113730		UCP		2380264	Standard	NM_021833		Approved	SLC25A7	uc011chj.2	P25874	OTTHUMG00000133415	ENST00000262999.3:c.816A>G	4.37:g.141481158T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q13218|Q4KMZ3|Q68G66	Silent	SNP	ENST00000262999.3	37	CCDS3753.1																																																																																				0.413	UCP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257273.1			C	141481158	T	C	141481158	2	2	664	1	0	0	0	0	0	0	0	1	16942	1625	57	3		3	UCP1	4	141481158	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	15091372	141481158	49673118	231	41541										
DCHS2	54798	broad.mit.edu	37	chr4	155163876	155163876	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acctgtaccttgattacagtCgtattagaaagcctgggcat	9	9	0	2	rs558078073		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:155163876C>T	ENST00000357232.4	-	22	5624	c.5625G>A	c.(5623-5625)acG>acA	p.T1875T		NM_017639.3	NP_060109.2	Q6V1P9	PCD23_HUMAN	dachsous cadherin-related 2	1875	Cadherin 16. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|central_nervous_system(1)|cervix(3)|endometrium(8)|kidney(5)|large_intestine(54)|lung(63)|ovary(4)|pancreas(1)|prostate(14)|skin(12)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	176	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TGATTACAGTCGTATTAGAAA	0.408																																																0													132	123	126					4																	155163876		2203	4300	6503	SO:0001819	synonymous_variant	54798			BC140919	CCDS3785.1, CCDS47150.1	4q32.1	2014-06-04	2013-10-04	2004-09-03		ENSG00000197410		"Cadherins / Cadherin-related"	23111	protein-coding gene	gene with protein product	"cadherin-related family member 7"	612486	"cadherin-like 27", "dachsous 2 (Drosophila)"	CDH27, PCDH23		15003449	Standard	NM_017639		Approved	CDHJ, FLJ20047, PCDHJ, CDHR7	uc003inw.2	Q6V1P9		ENST00000357232.4:c.5625G>A	4.37:g.155163876C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RU14|E9PC11|Q4W5P9|Q6ZS61|Q9NXU8	Silent	SNP	ENST00000357232.4	37	CCDS3785.1																																																																																				0.408	DCHS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365281.2	NM_001142552		T	155163876	C	T	155163876	2	4	664	1	0	0	0	0	0	0	0	1	4290	871	31	1		1	DCHS2	4	155163876	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	13682718	155163876	35990400	232	41542										
DCHS2	54798	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr4	155254036	155254036	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgctgggggccaagtgggtgCgcctgtgtttgcagcatttg	17	9	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:155254036C>T	ENST00000357232.4	-	9	1826	c.1827G>A	c.(1825-1827)gcG>gcA	p.A609A	DCHS2_ENST00000339452.1_Silent_p.A1108A|DCHS2_ENST00000507542.1_5'Flank	NM_017639.3	NP_060109.2	Q6V1P9	PCD23_HUMAN	dachsous cadherin-related 2	609	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|central_nervous_system(1)|cervix(3)|endometrium(8)|kidney(5)|large_intestine(54)|lung(63)|ovary(4)|pancreas(1)|prostate(14)|skin(12)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	176	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CAAGTGGGTGCGCCTGTGTTT	0.552																																																0													67	66	66					4																	155254036		2203	4300	6503	SO:0001819	synonymous_variant	54798			BC140919	CCDS3785.1, CCDS47150.1	4q32.1	2014-06-04	2013-10-04	2004-09-03		ENSG00000197410		"Cadherins / Cadherin-related"	23111	protein-coding gene	gene with protein product	"cadherin-related family member 7"	612486	"cadherin-like 27", "dachsous 2 (Drosophila)"	CDH27, PCDH23		15003449	Standard	NM_017639		Approved	CDHJ, FLJ20047, PCDHJ, CDHR7	uc003inw.2	Q6V1P9		ENST00000357232.4:c.1827G>A	4.37:g.155254036C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RU14|E9PC11|Q4W5P9|Q6ZS61|Q9NXU8	Silent	SNP	ENST00000357232.4	37	CCDS3785.1																																																																																				0.552	DCHS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365281.2	NM_001142552		T	155254036	C	T	155254036	2	4	664	1	0	0	0	0	0	0	0	1	4290	755	27	1		1	DCHS2	4	155254036	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	90160	155254036	35900240	233	41543										
DCHS2	54798	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr4	155254288	155254288	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctctgtcgatggcaaagacGcctggctgcgggctggcgat	16	11	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:155254288G>A	ENST00000357232.4	-	9	1574	c.1575C>T	c.(1573-1575)ggC>ggT	p.G525G	DCHS2_ENST00000339452.1_Silent_p.G1024G|DCHS2_ENST00000507542.1_5'UTR	NM_017639.3	NP_060109.2	Q6V1P9	PCD23_HUMAN	dachsous cadherin-related 2	525	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|central_nervous_system(1)|cervix(3)|endometrium(8)|kidney(5)|large_intestine(54)|lung(63)|ovary(4)|pancreas(1)|prostate(14)|skin(12)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	176	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TGGCAAAGACGCCTGGCTGCG	0.682																																																0													28	31	30					4																	155254288		2203	4300	6503	SO:0001819	synonymous_variant	54798			BC140919	CCDS3785.1, CCDS47150.1	4q32.1	2014-06-04	2013-10-04	2004-09-03		ENSG00000197410		"Cadherins / Cadherin-related"	23111	protein-coding gene	gene with protein product	"cadherin-related family member 7"	612486	"cadherin-like 27", "dachsous 2 (Drosophila)"	CDH27, PCDH23		15003449	Standard	NM_017639		Approved	CDHJ, FLJ20047, PCDHJ, CDHR7	uc003inw.2	Q6V1P9		ENST00000357232.4:c.1575C>T	4.37:g.155254288G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RU14|E9PC11|Q4W5P9|Q6ZS61|Q9NXU8	Silent	SNP	ENST00000357232.4	37	CCDS3785.1																																																																																				0.682	DCHS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365281.2	NM_001142552		A	155254288	G	A	155254288	2	1	664	1	0	0	0	0	0	0	0	1	4290	1074	38	1		1	DCHS2	4	155254288	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	252	155254288	35899988	234	41544										
FGB	2244	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	155487066	155487066	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggaggtggctatcgggctcGtccagccaaagcagctgcca	14	12	0	0	rs571624045		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:155487066G>A	ENST00000302068.4	+	2	284	c.221G>A	c.(220-222)cGt>cAt	p.R74H	FGB_ENST00000509493.1_Intron|FGB_ENST00000502545.1_3'UTR	NM_005141.4	NP_005132.2	P02675	FIBB_HUMAN	fibrinogen beta chain	74			Missing (in New York-1). {ECO:0000269|PubMed:3156856}.|R -> C (in Nijmegen). {ECO:0000269|PubMed:1565641}.		blood coagulation (GO:0007596)|cell-matrix adhesion (GO:0007160)|cellular protein complex assembly (GO:0043623)|cellular response to interleukin-1 (GO:0071347)|cellular response to leptin stimulus (GO:0044320)|extracellular matrix organization (GO:0030198)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|platelet activation (GO:0030168)|platelet aggregation (GO:0070527)|platelet degranulation (GO:0002576)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of exocytosis (GO:0045921)|positive regulation of heterotypic cell-cell adhesion (GO:0034116)|positive regulation of peptide hormone secretion (GO:0090277)|positive regulation of protein secretion (GO:0050714)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|positive regulation of vasoconstriction (GO:0045907)|protein polymerization (GO:0051258)|response to calcium ion (GO:0051592)|signal transduction (GO:0007165)	blood microparticle (GO:0072562)|cell cortex (GO:0005938)|cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|fibrinogen complex (GO:0005577)|plasma membrane (GO:0005886)|platelet alpha granule (GO:0031091)|platelet alpha granule lumen (GO:0031093)|vesicle (GO:0031982)	chaperone binding (GO:0051087)|structural molecule activity (GO:0005198)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|liver(2)|lung(22)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	34	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	TATCGGGCTCGTCCAGCCAAA	0.587													G|||	1	0.000199681	0.0008	0.0	5008	,	,		14457	0.0		0.0	False		,,,				2504	0.0				NSCLC(106;1133 1613 21870 46110 52656)											0													33	36	35					4																	155487066		2202	4298	6500	SO:0001583	missense	2244				CCDS3786.1	4q28	2014-09-17			ENSG00000171564	ENSG00000171564		"Fibrinogen C domain containing", "Endogenous ligands"	3662	protein-coding gene	gene with protein product		134830	"fibrinogen, B beta polypeptide"				Standard	NM_005141		Approved		uc003ioa.4	P02675	OTTHUMG00000150331	ENST00000302068.4:c.221G>A	4.37:g.155487066G>A	ENSP00000306099:p.Arg74His	Somatic		WXS	Illumina HiSeq	Phase_I	A0JLR9|B2R7G3|Q32Q65|Q3KPF2	Missense_Mutation	SNP	ENST00000302068.4	37	CCDS3786.1	.	.	.	.	.	.	.	.	.	.	G	23.5	4.420758	0.83559	.	.	ENSG00000171564	ENST00000302068;ENST00000537843	T	0.69561	-0.41	5.21	5.21	0.72293	.	0.048577	0.85682	D	0.000000	T	0.80839	0.4700	M	0.65975	2.015	0.80722	D	1	D	0.89917	1.0	D	0.68621	0.959	T	0.82608	-0.0373	10	0.87932	D	0	.	19.1257	0.93382	0.0:0.0:1.0:0.0	.	74	P02675	FIBB_HUMAN	H	74;57	ENSP00000306099:R74H	ENSP00000306099:R74H	R	+	2	0	FGB	155706516	1.000000	0.71417	0.998000	0.56505	0.596000	0.36781	6.249000	0.72427	2.597000	0.87782	0.591000	0.81541	CGT		0.587	FGB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317595.1	NM_005141		A	155487066	G	A	155487066	3	1	664	1	0	0	0	0	1	0	0	0	5838	1145	40	1	227	1	FGB	4	155487066	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	232778	155487066	35667210	235	41545										
FGB	2244	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	155487081	155487081	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggctcgtccagccaaagcagCtgccactcaaaagaaagtag	10	12	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:155487081C>T	ENST00000302068.4	+	2	299	c.236C>T	c.(235-237)gCt>gTt	p.A79V	FGB_ENST00000509493.1_Intron|FGB_ENST00000502545.1_3'UTR	NM_005141.4	NP_005132.2	P02675	FIBB_HUMAN	fibrinogen beta chain	79			Missing (in New York-1). {ECO:0000269|PubMed:3156856}.		blood coagulation (GO:0007596)|cell-matrix adhesion (GO:0007160)|cellular protein complex assembly (GO:0043623)|cellular response to interleukin-1 (GO:0071347)|cellular response to leptin stimulus (GO:0044320)|extracellular matrix organization (GO:0030198)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|platelet activation (GO:0030168)|platelet aggregation (GO:0070527)|platelet degranulation (GO:0002576)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of exocytosis (GO:0045921)|positive regulation of heterotypic cell-cell adhesion (GO:0034116)|positive regulation of peptide hormone secretion (GO:0090277)|positive regulation of protein secretion (GO:0050714)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|positive regulation of vasoconstriction (GO:0045907)|protein polymerization (GO:0051258)|response to calcium ion (GO:0051592)|signal transduction (GO:0007165)	blood microparticle (GO:0072562)|cell cortex (GO:0005938)|cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|fibrinogen complex (GO:0005577)|plasma membrane (GO:0005886)|platelet alpha granule (GO:0031091)|platelet alpha granule lumen (GO:0031093)|vesicle (GO:0031982)	chaperone binding (GO:0051087)|structural molecule activity (GO:0005198)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|liver(2)|lung(22)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	34	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	GCCAAAGCAGCTGCCACTCAA	0.577																																					NSCLC(106;1133 1613 21870 46110 52656)											0													37	39	38					4																	155487081		2198	4292	6490	SO:0001583	missense	2244				CCDS3786.1	4q28	2014-09-17			ENSG00000171564	ENSG00000171564		"Fibrinogen C domain containing", "Endogenous ligands"	3662	protein-coding gene	gene with protein product		134830	"fibrinogen, B beta polypeptide"				Standard	NM_005141		Approved		uc003ioa.4	P02675	OTTHUMG00000150331	ENST00000302068.4:c.236C>T	4.37:g.155487081C>T	ENSP00000306099:p.Ala79Val	Somatic		WXS	Illumina HiSeq	Phase_I	A0JLR9|B2R7G3|Q32Q65|Q3KPF2	Missense_Mutation	SNP	ENST00000302068.4	37	CCDS3786.1	.	.	.	.	.	.	.	.	.	.	C	3.374	-0.127748	0.06753	.	.	ENSG00000171564	ENST00000302068;ENST00000537843	T	0.60171	0.21	5.21	-3.56	0.04626	.	1.841320	0.02642	N	0.105473	T	0.36963	0.0986	N	0.16478	0.41	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.08806	-1.0704	10	0.23891	T	0.37	.	4.9716	0.14119	0.396:0.2565:0.0:0.3475	.	79	P02675	FIBB_HUMAN	V	79;62	ENSP00000306099:A79V	ENSP00000306099:A79V	A	+	2	0	FGB	155706531	0.000000	0.05858	0.000000	0.03702	0.087000	0.18053	-2.289000	0.01149	-1.135000	0.02895	-0.230000	0.12252	GCT		0.577	FGB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317595.1	NM_005141		T	155487081	C	T	155487081	3	4	664	1	0	0	0	0	1	0	0	0	5838	797	28	2	242	2	FGB	4	155487081	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	15	155487081	35667195	236	41546										
FAM198B	51313	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr4	159076877	159076877	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagcatttctgtttcagcaaCtgctgataagttccccaggt	8	11	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:159076877C>T	ENST00000296530.8	-	3	1632	c.1011G>A	c.(1009-1011)caG>caA	p.Q337Q	FAM198B_ENST00000393807.5_Silent_p.Q345Q|FAM198B_ENST00000585682.1_Silent_p.Q337Q|FAM198B_ENST00000589306.1_5'UTR	NM_016613.6	NP_057697.2	Q6UWH4	F198B_HUMAN	family with sequence similarity 198, member B	337						Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)				haematopoietic_and_lymphoid_tissue(1)|large_intestine(8)|lung(14)|skin(2)|urinary_tract(1)	26						GTTTCAGCAACTGCTGATAAG	0.473																																																0													106	92	96					4																	159076877		2203	4299	6502	SO:0001819	synonymous_variant	51313				CCDS3798.1, CCDS34087.1	4q32.1	2012-11-29	2009-10-19	2009-10-19	ENSG00000164125	ENSG00000164125			25312	protein-coding gene	gene with protein product			"chromosome 4 open reading frame 18"	C4orf18		12975309	Standard	NM_001031700		Approved	FLJ38155, DKFZp434L142	uc003ipr.4	Q6UWH4	OTTHUMG00000161537	ENST00000296530.8:c.1011G>A	4.37:g.159076877C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q498Z3|Q6IAF9|Q6ZMF2|Q86XL0	Silent	SNP	ENST00000296530.8	37	CCDS3798.1																																																																																				0.473	FAM198B-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365230.1	NM_001031700, NM_016613		T	159076877	C	T	159076877	2	4	664	1	0	0	0	0	0	0	0	1	5533	564	20	2		2	FAM198B	4	159076877	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3589796	159076877	32077399	237	41547										
GALNT7	51809	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	174169387	174169387	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctaccatgatcctgtgcttcGcccagggatcctcggtaact	9	14	0	1	rs201773910	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:174169387G>A	ENST00000265000.4	+	2	466	c.383G>A	c.(382-384)cGc>cAc	p.R128H	GALNT7_ENST00000512285.1_Missense_Mutation_p.R128H	NM_017423.2	NP_059119.2	Q86SF2	GALT7_HUMAN	polypeptide N-acetylgalactosaminyltransferase 7	128					carbohydrate metabolic process (GO:0005975)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein O-linked glycosylation (GO:0006493)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			central_nervous_system(1)|kidney(3)|large_intestine(5)|liver(1)|lung(9)	19		Prostate(90;0.0132)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_hematologic(60;0.107)|all_neural(102;0.122)		all cancers(43;1.87e-18)|Epithelial(43;3.44e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-09)|STAD - Stomach adenocarcinoma(60;0.0019)|GBM - Glioblastoma multiforme(59;0.0119)|LUSC - Lung squamous cell carcinoma(193;0.0199)		CCTGTGCTTCGCCCAGGGATC	0.512													G|||	2	0.000399361	0.0008	0.0	5008	,	,		18950	0.0		0.0	False		,,,				2504	0.001															0													83	82	83					4																	174169387		2203	4300	6503	SO:0001583	missense	51809			AJ002744	CCDS3815.1	4q31.1	2014-03-13	2014-03-13		ENSG00000109586	ENSG00000109586		"Glycosyltransferase family 2 domain containing"	4129	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 7"	605005	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 7 (GalNAc-T7)"			10544240	Standard	NM_017423		Approved	GALNAC-T7	uc003isz.4	Q86SF2	OTTHUMG00000160817	ENST00000265000.4:c.383G>A	4.37:g.174169387G>A	ENSP00000265000:p.Arg128His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQU3|Q7Z5W7|Q9UJ28	Missense_Mutation	SNP	ENST00000265000.4	37	CCDS3815.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	G	11.60	1.687301	0.29962	.	.	ENSG00000109586	ENST00000265000;ENST00000512285	T;T	0.57107	0.42;1.46	5.93	4.21	0.49690	.	0.898146	0.09841	N	0.748891	T	0.49795	0.1578	L	0.52573	1.65	0.48632	D	0.999687	B	0.11235	0.004	B	0.04013	0.001	T	0.45848	-0.9233	10	0.72032	D	0.01	.	12.1843	0.54229	0.1364:0.0:0.8636:0.0	.	128	Q86SF2	GALT7_HUMAN	H	128	ENSP00000265000:R128H;ENSP00000427050:R128H	ENSP00000265000:R128H	R	+	2	0	GALNT7	174405962	1.000000	0.71417	1.000000	0.80357	0.055000	0.15305	3.260000	0.51523	1.533000	0.49186	-0.140000	0.14226	CGC		0.512	GALNT7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362456.2	NM_017423		A	174169387	G	A	174169387	3	1	664	1	0	0	0	0	1	0	0	0	6225	1087	38	1	389	1	GALNT7	4	174169387	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	15092510	174169387	16984889	238	41548										
HMGB2	3148	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	174254650	174254650	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccgtccctctcctgcctcaCcttccatctctccgaacact	3	21	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:174254650C>T	ENST00000296503.5	-	2	1024		c.e2+1		HMGB2_ENST00000446922.2_Splice_Site|HMGB2_ENST00000438704.2_Splice_Site			P26583	HMGB2_HUMAN	high mobility group box 2						apoptotic DNA fragmentation (GO:0006309)|apoptotic process (GO:0006915)|base-excision repair, DNA ligation (GO:0006288)|cell chemotaxis (GO:0060326)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular response to lipopolysaccharide (GO:0071222)|chromatin organization (GO:0006325)|DNA ligation involved in DNA repair (GO:0051103)|DNA topological change (GO:0006265)|male gonad development (GO:0008584)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|negative regulation of transcription, DNA-templated (GO:0045892)|nucleosome assembly (GO:0006334)|positive chemotaxis (GO:0050918)|positive regulation of DNA binding (GO:0043388)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of erythrocyte differentiation (GO:0045648)|positive regulation of megakaryocyte differentiation (GO:0045654)|positive regulation of nuclease activity (GO:0032075)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to steroid hormone (GO:0048545)|spermatid nucleus differentiation (GO:0007289)|V(D)J recombination (GO:0033151)	condensed chromosome (GO:0000793)|cytoplasm (GO:0005737)|extracellular space (GO:0005615)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|protein complex (GO:0043234)	chemoattractant activity (GO:0042056)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|DNA binding, bending (GO:0008301)|double-stranded DNA binding (GO:0003690)|poly(A) RNA binding (GO:0044822)|RAGE receptor binding (GO:0050786)|sequence-specific DNA binding transcription factor activity (GO:0003700)|single-stranded DNA binding (GO:0003697)|transcription regulatory region DNA binding (GO:0044212)			endometrium(2)|kidney(1)|large_intestine(2)|lung(6)|urinary_tract(3)	14		Prostate(90;0.0132)|Renal(120;0.0183)|Melanoma(52;0.0749)|all_hematologic(60;0.107)|all_neural(102;0.122)		all cancers(43;9.58e-18)|Epithelial(43;3.75e-16)|OV - Ovarian serous cystadenocarcinoma(60;6.24e-09)|STAD - Stomach adenocarcinoma(60;0.00273)|GBM - Glioblastoma multiforme(59;0.0064)|LUSC - Lung squamous cell carcinoma(193;0.0903)|Kidney(143;0.249)		TCCTGCCTCACCTTCCATCTC	0.552																																																0													95	96	95					4																	174254650		2203	4300	6503	SO:0001630	splice_region_variant	3148				CCDS3816.1	4q31	2011-07-01	2011-04-05	2002-08-16	ENSG00000164104	ENSG00000164104		"High-mobility group / Canonical"	5000	protein-coding gene	gene with protein product		163906	"high-mobility group (nonhistone chromosomal) protein 2", "high-mobility group box 2"	HMG2		1754403	Standard	NM_002129		Approved		uc011ckc.1	P26583	OTTHUMG00000160799	ENST00000296503.5:c.150+1G>A	4.37:g.174254650C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R4K8|D3DP37|Q5U072	Splice_Site	SNP	ENST00000296503.5	37	CCDS3816.1	.	.	.	.	.	.	.	.	.	.	C	16.10	3.027733	0.54790	.	.	ENSG00000164104	ENST00000296503;ENST00000446922;ENST00000438704;ENST00000506267	.	.	.	4.25	4.25	0.50352	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.232	0.82352	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	HMGB2	174491225	1.000000	0.71417	1.000000	0.80357	0.372000	0.29890	7.456000	0.80751	1.907000	0.55213	0.313000	0.20887	.		0.552	HMGB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362362.1	NM_001130688	Intron	T	174254650	C	T	174254650	5	4	664	1	0	0	0	0	0	0	1	0	7233	521	18	2	494	2	HMGB2	4	174254650	Splice_Site	SNP	C	TCGA-KN-8428-01A-11D-2310-10	85263	174254650	16899626	239	41549										
SNX25	83891	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	186185677	186185677	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gatttctacaaacgtgttctCgggttctggtgttttgtctc	10	8	4	0	rs140041413	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:186185677C>T	ENST00000504273.1	+	4	619	c.325C>T	c.(325-327)Cgg>Tgg	p.R109W	SNX25_ENST00000264694.8_Missense_Mutation_p.R109W			Q9H3E2	SNX25_HUMAN	sorting nexin 25	109	PXA. {ECO:0000255|PROSITE- ProRule:PRU00147, ECO:0000255|PROSITE- ProRule:PRU00553}.				negative regulation of pathway-restricted SMAD protein phosphorylation (GO:0060394)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|protein transport (GO:0015031)|receptor catabolic process (GO:0032801)|termination of G-protein coupled receptor signaling pathway (GO:0038032)	endosome (GO:0005768)|membrane (GO:0016020)	phosphatidylinositol binding (GO:0035091)			NS(1)|breast(4)|endometrium(2)|kidney(4)|large_intestine(8)|lung(13)|ovary(2)|pancreas(2)|prostate(2)|urinary_tract(2)	40		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)		AACGTGTTCTCGGGTTCTGGT	0.413																																																0								C	TRP/ARG	0,4406		0,0,2203	175	162	166		325	4.2	1	4	dbSNP_134	166	3,8591	3.0+/-9.4	0,3,4294	no	missense	SNX25	NM_031953.2	101	0,3,6497	TT,TC,CC		0.0349,0.0,0.0231	probably-damaging	109/841	186185677	3,12997	2203	4297	6500	SO:0001583	missense	83891			AF113223	CCDS34116.1	4q35.1	2011-05-03			ENSG00000109762	ENSG00000109762		"Sorting nexins"	21883	protein-coding gene	gene with protein product						12461558	Standard	NM_031953		Approved	SBBI31	uc003ixh.3	Q9H3E2	OTTHUMG00000160475	ENST00000504273.1:c.325C>T	4.37:g.186185677C>T	ENSP00000426255:p.Arg109Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q3ZT30|Q8N6K3	Missense_Mutation	SNP	ENST00000504273.1	37	CCDS34116.1	.	.	.	.	.	.	.	.	.	.	C	21.6	4.169225	0.78339	0.0	3.49E-4	ENSG00000109762	ENST00000504273;ENST00000264694	T;T	0.10763	2.84;2.84	5.04	4.17	0.49024	Phox-associated domain (2);	0.213930	0.38897	N	0.001529	T	0.17577	0.0422	L	0.36672	1.1	0.35902	D	0.830485	D	0.65815	0.995	P	0.54210	0.745	T	0.14227	-1.0480	10	0.87932	D	0	-4.6564	14.7072	0.69200	0.1461:0.8539:0.0:0.0	.	109	Q9H3E2	SNX25_HUMAN	W	109	ENSP00000426255:R109W;ENSP00000264694:R109W	ENSP00000264694:R109W	R	+	1	2	SNX25	186422671	1.000000	0.71417	0.999000	0.59377	0.990000	0.78478	3.564000	0.53791	1.306000	0.44926	0.491000	0.48974	CGG		0.413	SNX25-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360756.1	NM_031953		T	186185677	C	T	186185677	3	4	664	1	0	0	0	0	1	0	0	0	14909	875	31	1	335	1	SNX25	4	186185677	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	11931027	186185677	4968599	240	41550										
F11	2160	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr4	187209727	187209727	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgtttacaccaacgtggtcGagtacgtggactggattctg	13	8	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:187209727G>A	ENST00000403665.2	+	15	2189	c.1837G>A	c.(1837-1839)Gag>Aag	p.E613K	F11-AS1_ENST00000505103.1_RNA|F11_ENST00000264692.4_Missense_Mutation_p.E561K	NM_000128.3	NP_000119.1	P03951	FA11_HUMAN	coagulation factor XI	613	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|plasminogen activation (GO:0031639)|positive regulation of fibrinolysis (GO:0051919)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|plasma membrane (GO:0005886)	heparin binding (GO:0008201)|serine-type aminopeptidase activity (GO:0070009)|serine-type endopeptidase activity (GO:0004252)			NS(2)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(15)|prostate(2)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)	32		all_cancers(14;6.2e-52)|all_epithelial(14;1.62e-38)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;2.13e-11)|BRCA - Breast invasive adenocarcinoma(30;4.59e-06)|GBM - Glioblastoma multiforme(59;0.000149)|STAD - Stomach adenocarcinoma(60;0.000314)|LUSC - Lung squamous cell carcinoma(40;0.00112)|READ - Rectum adenocarcinoma(43;0.176)	Coagulation Factor IX(DB00100)	CAACGTGGTCGAGTACGTGGA	0.567																																																0													120	116	117					4																	187209727		2203	4300	6503	SO:0001583	missense	2160			M13142	CCDS3847.1	4q35	2008-08-01	2008-08-01		ENSG00000088926	ENSG00000088926	3.4.21.27		3529	protein-coding gene	gene with protein product	"plasma thromboplastin antecedent"	264900					Standard	NM_000128		Approved	FXI	uc003iza.1	P03951	OTTHUMG00000150311	ENST00000403665.2:c.1837G>A	4.37:g.187209727G>A	ENSP00000384957:p.Glu613Lys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DP64|Q4W5C2|Q9Y495	Missense_Mutation	SNP	ENST00000403665.2	37	CCDS3847.1	.	.	.	.	.	.	.	.	.	.	G	14.75	2.629525	0.46944	.	.	ENSG00000088926	ENST00000403665;ENST00000264692	D;D	0.88201	-2.35;-2.35	5.49	2.56	0.30785	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	0.144296	0.47455	N	0.000230	T	0.64702	0.2622	N	0.00788	-1.185	0.30559	N	0.764699	B	0.23377	0.084	B	0.17098	0.017	T	0.59611	-0.7422	10	0.17369	T	0.5	.	7.4289	0.27115	0.3207:0.0:0.6793:0.0	.	613	P03951	FA11_HUMAN	K	613;561	ENSP00000384957:E613K;ENSP00000264692:E561K	ENSP00000264692:E561K	E	+	1	0	F11	187446721	0.220000	0.23631	0.395000	0.26283	0.974000	0.67602	0.649000	0.24843	0.262000	0.21774	0.555000	0.69702	GAG		0.567	F11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317519.4			A	187209727	G	A	187209727	3	1	664	1	0	0	0	0	1	0	0	0	5339	1059	37	1	1891	1	F11	4	187209727	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1024050	187209727	3944549	241	41551										
FAT1	2195	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr4	187629557	187629557	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acagtagtaccaatgggcacGttctcatcaaaagcagcttt	8	10	2	0	rs202036099		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:187629557G>A	ENST00000441802.2	-	2	1634	c.1425C>T	c.(1423-1425)aaC>aaT	p.N475N		NM_005245.3	NP_005236.2	Q14517	FAT1_HUMAN	FAT atypical cadherin 1	475	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				actin filament organization (GO:0007015)|anatomical structure morphogenesis (GO:0009653)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|cell-cell signaling (GO:0007267)|establishment or maintenance of cell polarity (GO:0007163)|homophilic cell adhesion (GO:0007156)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(38)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(33)|lung(88)|ovary(13)|pancreas(2)|prostate(16)|skin(2)|upper_aerodigestive_tract(11)|urinary_tract(4)	228						CAATGGGCACGTTCTCATCAA	0.473										HNSCC(5;0.00058)			g|||	1	0.000199681	0.0	0.0014	5008	,	,		20713	0.0		0.0	False		,,,				2504	0.0				Colon(197;1040 2055 4143 4984 49344)											0													160	155	157					4																	187629557		2024	4187	6211	SO:0001819	synonymous_variant	2195			X87241	CCDS47177.1	4q35.2	2013-05-31	2013-05-31	2008-10-30	ENSG00000083857	ENSG00000083857		"Cadherins / Cadherin-related"	3595	protein-coding gene	gene with protein product	"cadherin-related family member 8"	600976	"FAT tumor suppressor (Drosophila) homolog", "FAT tumor suppressor homolog 1 (Drosophila)"	FAT		8586420	Standard	XM_005262834		Approved	CDHF7, CDHR8	uc003izf.3	Q14517	OTTHUMG00000160320	ENST00000441802.2:c.1425C>T	4.37:g.187629557G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000441802.2	37	CCDS47177.1																																																																																				0.473	FAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360209.3	NM_005245		A	187629557	G	A	187629557	2	1	664	1	0	0	0	0	0	0	0	1	5696	1136	40	1		1	FAT1	4	187629557	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	419830	187629557	3524719	242	41552										
FRG1	2483	mdanderson.org	37	chr4	190876227	190876227	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggctatggaaaatatcttgGtataaattcagatggacttg	10	4	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr4:190876227G>A	ENST00000226798.4	+	5	575	c.353G>A	c.(352-354)gGt>gAt	p.G118D	FRG1_ENST00000514482.1_3'UTR	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1	118					mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		AAATATCTTGGTATAAATTCA	0.343																																																0													63	63	63					4																	190876227		2203	4300	6503	SO:0001583	missense	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.353G>A	4.37:g.190876227G>A	ENSP00000226798:p.Gly118Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Missense_Mutation	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	.	23.7	4.443643	0.83993	.	.	ENSG00000109536	ENST00000226798;ENST00000531991	T;T	0.50548	1.91;0.74	4.04	4.04	0.47022	Actin cross-linking (1);	0.000000	0.85682	D	0.000000	T	0.70684	0.3252	M	0.84433	2.695	0.80722	D	1	D	0.76494	0.999	D	0.91635	0.999	T	0.77016	-0.2744	10	0.72032	D	0.01	-10.9283	14.145	0.65344	0.0:0.0:1.0:0.0	.	118	Q14331	FRG1_HUMAN	D	118;55	ENSP00000226798:G118D;ENSP00000435943:G55D	ENSP00000226798:G118D	G	+	2	0	FRG1	191113221	1.000000	0.71417	1.000000	0.80357	0.964000	0.63967	9.218000	0.95166	1.964000	0.57103	0.567000	0.79289	GGT		0.343	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477		A	190876227	G	A	190876227	3	1	664	1	0	0	0	0	1	0	0	0	6053	1261	44	2	371	2	FRG1	4	190876227	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3246670	190876227	278049	243	41553										
C5orf55	116349	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr5	442635	442635	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cattcattctccaagacctgCgctgctgggcctctgagggg	12	13	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:442635C>T	ENST00000408966.2	-	1	623	c.303G>A	c.(301-303)gcG>gcA	p.A101A	EXOC3_ENST00000512944.1_5'Flank	NM_138464.2	NP_612473.1	Q8N2X6	CE055_HUMAN	chromosome 5 open reading frame 55	101						extracellular region (GO:0005576)				large_intestine(1)|lung(2)	3						CCAAGACCTGCGCTGCTGGGC	0.657																																																0													50	55	53					5																	442635		1883	4111	5994	SO:0001819	synonymous_variant	116349			BC014011	CCDS43298.1	5p15.33	2012-02-24			ENSG00000221990	ENSG00000221990			25175	protein-coding gene	gene with protein product						12477932	Standard	NM_138464		Approved		uc010ita.3	Q8N2X6	OTTHUMG00000162235	ENST00000408966.2:c.303G>A	5.37:g.442635C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q96CR9	Silent	SNP	ENST00000408966.2	37	CCDS43298.1																																																																																				0.657	C5orf55-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368033.1	NM_138464		T	442635	C	T	442635	2	4	664	1	0	0	0	0	0	0	0	1	2313	755	27	1		1	C5orf55	5	442635	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10		442635	180472625	244	41554										
TERT	7015	broad.mit.edu	37	chr5	1293799	1293799	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcaccccgtaggggcactgcGcgtggttcccaagcagctcc	13	16	0	0	rs539667998		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:1293799G>A	ENST00000310581.5	-	2	1259	c.1202C>T	c.(1201-1203)gCg>gTg	p.A401V	TERT_ENST00000508104.2_Missense_Mutation_p.A401V|TERT_ENST00000522877.1_5'Flank|TERT_ENST00000296820.5_Missense_Mutation_p.A401V|TERT_ENST00000334602.6_Missense_Mutation_p.A401V	NM_001193376.1|NM_198253.2	NP_001180305.1|NP_937983.2	O14746	TERT_HUMAN	telomerase reverse transcriptase	401	CP motif.|QFP motif.|RNA-interacting domain 2.|Required for oligomerization.				DNA strand elongation (GO:0022616)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|replicative senescence (GO:0090399)|telomere formation via telomerase (GO:0032203)|telomere maintenance (GO:0000723)|telomere maintenance via telomerase (GO:0007004)	chromosome, telomeric region (GO:0000781)|cytoplasm (GO:0005737)|nuclear telomere cap complex (GO:0000783)|nucleoplasm (GO:0005654)|telomerase holoenzyme complex (GO:0005697)	metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|telomerase activity (GO:0003720)|telomeric DNA binding (GO:0042162)|telomeric RNA binding (GO:0070034)|telomeric template RNA reverse transcriptase activity (GO:0003721)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(2)|kidney(4)|large_intestine(3)|lung(22)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	41	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)		Zidovudine(DB00495)	GGGGCACTGCGCGTGGTTCCC	0.697									TERT Mutation-Associated Haematological Disorders;Pulmonary Fibrosis, Idiopathic;Congenital Dyskeratosis				G|||	1	0.000199681	0.0	0.0	5008	,	,		15406	0.001		0.0	False		,,,				2504	0.0															0													12	14	13					5																	1293799		2165	4273	6438	SO:0001583	missense	7015	Familial Cancer Database	;Hamman-Rich syndrome, Fibrocystic Pulmonary Dysplasia;Zinsser-Engman-Cole syndrome, Dyskeratosis Congenita	AF015950	CCDS3861.2, CCDS54831.1	5p15.33	2014-09-17			ENSG00000164362	ENSG00000164362			11730	protein-coding gene	gene with protein product		187270				9252327	Standard	NM_198253		Approved	TRT, TP2, TCS1, hEST2, EST2	uc003jcb.1	O14746	OTTHUMG00000090357	ENST00000310581.5:c.1202C>T	5.37:g.1293799G>A	ENSP00000309572:p.Ala401Val	Somatic		WXS	Illumina HiSeq	Phase_I	O14783|Q2XS35|Q8N6C3|Q8NG38|Q8NG46	Missense_Mutation	SNP	ENST00000310581.5	37	CCDS3861.2	.	.	.	.	.	.	.	.	.	.	G	14.48	2.547628	0.45383	.	.	ENSG00000164362	ENST00000310581;ENST00000296820;ENST00000334602;ENST00000508104	D;D;D;D	0.96885	-4.16;-4.13;-4.07;-4.13	4.38	1.41	0.22369	.	0.457119	0.24980	N	0.034069	D	0.95655	0.8587	M	0.71581	2.175	0.09310	N	1	B;D;B	0.76494	0.213;0.999;0.136	B;P;B	0.59012	0.034;0.85;0.015	D	0.88240	0.2909	10	0.30854	T	0.27	-30.7517	1.6145	0.02701	0.1842:0.2005:0.4091:0.2062	.	401;401;401	O14746-3;O14746;Q8NG38	.;TERT_HUMAN;.	V	401	ENSP00000309572:A401V;ENSP00000296820:A401V;ENSP00000334346:A401V;ENSP00000426042:A401V	ENSP00000296820:A401V	A	-	2	0	TERT	1346799	0.000000	0.05858	0.506000	0.27664	0.801000	0.45260	0.165000	0.16564	0.305000	0.22832	0.549000	0.68633	GCG		0.697	TERT-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000206729.2			A	1293799	G	A	1293799	3	1	664	1	0	0	0	0	1	0	0	0	15776	1087	38	1	2256	1	TERT	5	1293799	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	851164	1293799	179621461	245	41555										
ADAMTS16	170690	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr5	5239898	5239898	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgcgcaatgccctcagaaggTactacctgaatgggcactgg	12	11	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:5239898T>C	ENST00000274181.7	+	16	2521	c.2383T>C	c.(2383-2385)Tac>Cac	p.Y795H		NM_139056.2	NP_620687.2	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 16	795	Spacer.				branching involved in ureteric bud morphogenesis (GO:0001658)	proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(72)|ovary(4)|pancreas(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	107						CCTCAGAAGGTACTACCTGAA	0.512																																																0													118	112	114					5																	5239898		1895	4112	6007	SO:0001583	missense	170690			AJ315734	CCDS43299.1	5p15	2008-07-18	2005-08-19		ENSG00000145536	ENSG00000145536		"ADAM metallopeptidases with thrombospondin type 1 motif"	17108	protein-coding gene	gene with protein product		607510	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 16"			11867212	Standard	NM_139056		Approved	ADAMTS16s	uc003jdl.3	Q8TE57	OTTHUMG00000161663	ENST00000274181.7:c.2383T>C	5.37:g.5239898T>C	ENSP00000274181:p.Tyr795His	Somatic		WXS	Illumina HiSeq	Phase_I	C6G490|Q8IVE2	Missense_Mutation	SNP	ENST00000274181.7	37	CCDS43299.1	.	.	.	.	.	.	.	.	.	.	T	19.96	3.924234	0.73213	.	.	ENSG00000145536	ENST00000274181;ENST00000536857	T	0.57107	0.42	5.56	5.56	0.83823	ADAM-TS Spacer 1 (1);	0.000000	0.64402	D	0.000001	T	0.77356	0.4118	M	0.90595	3.13	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.91635	0.999;0.983	T	0.82293	-0.0529	10	0.66056	D	0.02	.	14.6848	0.69042	0.0:0.0:0.0:1.0	.	795;795	Q8TE57;Q8TE57-2	ATS16_HUMAN;.	H	795	ENSP00000274181:Y795H	ENSP00000274181:Y795H	Y	+	1	0	ADAMTS16	5292898	1.000000	0.71417	0.910000	0.35882	0.429000	0.31625	7.310000	0.78947	2.113000	0.64589	0.533000	0.62120	TAC		0.512	ADAMTS16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365657.1	NM_139056		C	5239898	T	C	5239898	3	2	664	1	0	0	0	0	1	0	0	0	261	1638	57	3	2445	3	ADAMTS16	5	5239898	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	3946099	5239898	175675362	246	41556										
RAI14	26064	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	34821933	34821933	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttcccttaccttacacaataAggagttacaagataaattac	4	9	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:34821933A>G	ENST00000265109.3	+	14	1378	c.1091A>G	c.(1090-1092)aAg>aGg	p.K364R	RAI14_ENST00000515799.1_Missense_Mutation_p.K367R|RAI14_ENST00000506376.1_Missense_Mutation_p.K356R|RAI14_ENST00000397449.1_Missense_Mutation_p.K357R|RAI14_ENST00000503673.1_Missense_Mutation_p.K364R|RAI14_ENST00000428746.2_Missense_Mutation_p.K364R|RAI14_ENST00000512629.1_Missense_Mutation_p.K335R	NM_001145522.1|NM_015577.2	NP_001138994.1|NP_056392.2	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14	364						actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|nucleus (GO:0005634)				breast(2)|central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(19)|lung(22)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	56	all_lung(31;0.000191)					TTACACAATAAGGAGTTACAA	0.358																																																0													85	83	84					5																	34821933		2203	4299	6502	SO:0001583	missense	26064			AB037755	CCDS34142.1, CCDS54837.1, CCDS54838.1, CCDS54839.1	5p13.3-p13.2	2013-01-10			ENSG00000039560	ENSG00000039560		"Ankyrin repeat domain containing"	14873	protein-coding gene	gene with protein product	"novel retinal pigment epithelial"	606586				11042181	Standard	NM_015577		Approved	NORPEG, KIAA1334, RAI13, DKFZp564G013	uc011coj.2	Q9P0K7	OTTHUMG00000162019	ENST00000265109.3:c.1091A>G	5.37:g.34821933A>G	ENSP00000265109:p.Lys364Arg	Somatic		WXS	Illumina HiSeq	Phase_I	E9PED3|Q6V1W9|Q7Z5I4|Q7Z733|Q9P2L2|Q9Y3T5	Missense_Mutation	SNP	ENST00000265109.3	37	CCDS34142.1	.	.	.	.	.	.	.	.	.	.	A	22.9	4.351867	0.82132	.	.	ENSG00000039560	ENST00000265109;ENST00000512629;ENST00000428746;ENST00000503673;ENST00000515799;ENST00000506376;ENST00000397449	T;T;T;T;T;T;T	0.38077	1.16;1.16;1.16;1.16;1.16;1.2;1.19	5.81	5.81	0.92471	.	.	.	.	.	T	0.50599	0.1625	L	0.34521	1.04	0.45194	D	0.998203	D;D;D;D	0.89917	0.998;0.997;1.0;0.997	D;D;D;D	0.87578	0.994;0.985;0.998;0.985	T	0.51387	-0.8712	9	0.59425	D	0.04	-25.6914	16.1677	0.81782	1.0:0.0:0.0:0.0	.	356;335;367;364	Q9P0K7-3;E9PED3;Q9P0K7-2;Q9P0K7	.;.;.;RAI14_HUMAN	R	364;335;364;364;367;356;357	ENSP00000265109:K364R;ENSP00000422377:K335R;ENSP00000388725:K364R;ENSP00000422942:K364R;ENSP00000427123:K367R;ENSP00000423854:K356R;ENSP00000380591:K357R	ENSP00000265109:K364R	K	+	2	0	RAI14	34857690	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	6.881000	0.75584	2.218000	0.71995	0.528000	0.53228	AAG		0.358	RAI14-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366786.1	NM_015577		G	34821933	A	G	34821933	3	3	664	1	0	0	0	0	1	0	0	0	13021	72	3	3	1206	3	RAI14	5	34821933	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	29582035	34821933	146093327	247	41557										
NIPBL	25836	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr5	37000622	37000622	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcgttatcgaaaccgaagtcCgtcagattctgacatggaag	10	9	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:37000622C>T	ENST00000282516.8	+	12	3951	c.3452C>T	c.(3451-3453)cCg>cTg	p.P1151L	NIPBL_ENST00000448238.2_Missense_Mutation_p.P1151L	NM_015384.4|NM_133433.3	NP_056199.2|NP_597677.2	Q6KC79	NIPBL_HUMAN	Nipped-B homolog (Drosophila)	1151					brain development (GO:0007420)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to X-ray (GO:0071481)|cognition (GO:0050890)|developmental growth (GO:0048589)|ear morphogenesis (GO:0042471)|embryonic digestive tract morphogenesis (GO:0048557)|embryonic forelimb morphogenesis (GO:0035115)|embryonic viscerocranium morphogenesis (GO:0048703)|external genitalia morphogenesis (GO:0035261)|eye morphogenesis (GO:0048592)|face morphogenesis (GO:0060325)|fat cell differentiation (GO:0045444)|forelimb morphogenesis (GO:0035136)|gall bladder development (GO:0061010)|heart morphogenesis (GO:0003007)|maintenance of mitotic sister chromatid cohesion (GO:0034088)|metanephros development (GO:0001656)|mitotic cell cycle (GO:0000278)|mitotic sister chromatid cohesion (GO:0007064)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|outflow tract morphogenesis (GO:0003151)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of multicellular organism growth (GO:0040018)|positive regulation of ossification (GO:0045778)|regulation of developmental growth (GO:0048638)|regulation of embryonic development (GO:0045995)|regulation of hair cycle (GO:0042634)|sensory perception of sound (GO:0007605)|stem cell maintenance (GO:0019827)|uterus morphogenesis (GO:0061038)	extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SMC loading complex (GO:0032116)	chromatin binding (GO:0003682)|chromo shadow domain binding (GO:0070087)|histone deacetylase binding (GO:0042826)|protein C-terminus binding (GO:0008022)|protein N-terminus binding (GO:0047485)			autonomic_ganglia(1)|breast(4)|endometrium(9)|kidney(22)|large_intestine(21)|liver(1)|lung(47)|ovary(7)|pancreas(1)|prostate(1)|skin(7)|upper_aerodigestive_tract(3)|urinary_tract(4)	128	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			AACCGAAGTCCGTCAGATTCT	0.448																																																0													162	155	157					5																	37000622		2203	4300	6503	SO:0001583	missense	25836			AB019494	CCDS3920.1, CCDS47198.1	5p13.2	2009-08-28			ENSG00000164190	ENSG00000164190			28862	protein-coding gene	gene with protein product	"sister chromatid cohesion 2 homolog (yeast)"	608667				15146186, 15146185	Standard	NM_133433		Approved	IDN3, DKFZp434L1319, FLJ11203, FLJ12597, FLJ13354, FLJ13648, Scc2	uc003jkl.4	Q6KC79	OTTHUMG00000090795	ENST00000282516.8:c.3452C>T	5.37:g.37000622C>T	ENSP00000282516:p.Pro1151Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6KCD6|Q6N080|Q6ZT92|Q7Z2E6|Q8N4M5|Q9Y6Y3|Q9Y6Y4	Missense_Mutation	SNP	ENST00000282516.8	37	CCDS3920.1	.	.	.	.	.	.	.	.	.	.	C	22.3	4.271463	0.80469	.	.	ENSG00000164190	ENST00000282516;ENST00000448238	D;D	0.93488	-3.23;-3.23	5.81	5.81	0.92471	.	0.093959	0.47852	D	0.000220	D	0.88306	0.6401	N	0.24115	0.695	0.58432	D	0.999997	P;P	0.43287	0.524;0.802	B;B	0.34180	0.043;0.177	D	0.89300	0.3625	10	0.59425	D	0.04	.	20.0749	0.97738	0.0:1.0:0.0:0.0	.	1151;1151	Q6KC79;Q6KC79-2	NIPBL_HUMAN;.	L	1151	ENSP00000282516:P1151L;ENSP00000406266:P1151L	ENSP00000282516:P1151L	P	+	2	0	NIPBL	37036379	0.999000	0.42202	0.992000	0.48379	0.957000	0.61999	4.629000	0.61290	2.759000	0.94783	0.591000	0.81541	CCG		0.448	NIPBL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207582.1	NM_015384		T	37000622	C	T	37000622	3	4	664	1	0	0	0	0	1	0	0	0	10435	652	23	1	3494	1	NIPBL	5	37000622	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2178689	37000622	143914638	248	41558										
NIPBL	25836	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	37036493	37036493	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atatatagttgttgaagtccGaagaggattcctcatataaa	8	5	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:37036493G>A	ENST00000282516.8	+	33	6374	c.5875G>A	c.(5875-5877)Gaa>Aaa	p.E1959K	NIPBL_ENST00000448238.2_Missense_Mutation_p.E1959K	NM_015384.4|NM_133433.3	NP_056199.2|NP_597677.2	Q6KC79	NIPBL_HUMAN	Nipped-B homolog (Drosophila)	1959					brain development (GO:0007420)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to X-ray (GO:0071481)|cognition (GO:0050890)|developmental growth (GO:0048589)|ear morphogenesis (GO:0042471)|embryonic digestive tract morphogenesis (GO:0048557)|embryonic forelimb morphogenesis (GO:0035115)|embryonic viscerocranium morphogenesis (GO:0048703)|external genitalia morphogenesis (GO:0035261)|eye morphogenesis (GO:0048592)|face morphogenesis (GO:0060325)|fat cell differentiation (GO:0045444)|forelimb morphogenesis (GO:0035136)|gall bladder development (GO:0061010)|heart morphogenesis (GO:0003007)|maintenance of mitotic sister chromatid cohesion (GO:0034088)|metanephros development (GO:0001656)|mitotic cell cycle (GO:0000278)|mitotic sister chromatid cohesion (GO:0007064)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|outflow tract morphogenesis (GO:0003151)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of multicellular organism growth (GO:0040018)|positive regulation of ossification (GO:0045778)|regulation of developmental growth (GO:0048638)|regulation of embryonic development (GO:0045995)|regulation of hair cycle (GO:0042634)|sensory perception of sound (GO:0007605)|stem cell maintenance (GO:0019827)|uterus morphogenesis (GO:0061038)	extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SMC loading complex (GO:0032116)	chromatin binding (GO:0003682)|chromo shadow domain binding (GO:0070087)|histone deacetylase binding (GO:0042826)|protein C-terminus binding (GO:0008022)|protein N-terminus binding (GO:0047485)			autonomic_ganglia(1)|breast(4)|endometrium(9)|kidney(22)|large_intestine(21)|liver(1)|lung(47)|ovary(7)|pancreas(1)|prostate(1)|skin(7)|upper_aerodigestive_tract(3)|urinary_tract(4)	128	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			GTTGAAGTCCGAAGAGGATTC	0.279																																																0													17	16	16					5																	37036493		2166	4195	6361	SO:0001583	missense	25836			AB019494	CCDS3920.1, CCDS47198.1	5p13.2	2009-08-28			ENSG00000164190	ENSG00000164190			28862	protein-coding gene	gene with protein product	"sister chromatid cohesion 2 homolog (yeast)"	608667				15146186, 15146185	Standard	NM_133433		Approved	IDN3, DKFZp434L1319, FLJ11203, FLJ12597, FLJ13354, FLJ13648, Scc2	uc003jkl.4	Q6KC79	OTTHUMG00000090795	ENST00000282516.8:c.5875G>A	5.37:g.37036493G>A	ENSP00000282516:p.Glu1959Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6KCD6|Q6N080|Q6ZT92|Q7Z2E6|Q8N4M5|Q9Y6Y3|Q9Y6Y4	Missense_Mutation	SNP	ENST00000282516.8	37	CCDS3920.1	.	.	.	.	.	.	.	.	.	.	G	18.46	3.629682	0.67015	.	.	ENSG00000164190	ENST00000282516;ENST00000448238	T;T	0.64260	-0.09;-0.09	5.58	5.58	0.84498	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.40448	0.1117	N	0.03930	-0.32	0.80722	D	1	B;B	0.27416	0.112;0.178	B;B	0.32211	0.046;0.142	T	0.43702	-0.9375	10	0.02654	T	1	-16.5384	19.5724	0.95427	0.0:0.0:1.0:0.0	.	1959;1959	Q6KC79;Q6KC79-2	NIPBL_HUMAN;.	K	1959	ENSP00000282516:E1959K;ENSP00000406266:E1959K	ENSP00000282516:E1959K	E	+	1	0	NIPBL	37072250	1.000000	0.71417	0.999000	0.59377	0.974000	0.67602	9.438000	0.97539	2.624000	0.88883	0.650000	0.86243	GAA		0.279	NIPBL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207582.1	NM_015384		A	37036493	G	A	37036493	3	1	664	1	0	0	0	0	1	0	0	0	10435	1059	37	1	6001	1	NIPBL	5	37036493	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	35871	37036493	143878767	249	41559										
LIFR	3977	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr5	38510729	38510729	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaatcagtgctgataacacTttttcttgactcacacaaca	4	12	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:38510729T>C	ENST00000263409.4	-	7	990	c.828A>G	c.(826-828)aaA>aaG	p.K276K	LIFR_ENST00000503088.1_5'UTR|LIFR_ENST00000453190.2_Silent_p.K276K	NM_002310.5	NP_002301.1	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor alpha	276					cell surface receptor signaling pathway (GO:0007166)|ciliary neurotrophic factor-mediated signaling pathway (GO:0070120)|cytokine-mediated signaling pathway (GO:0019221)|leukemia inhibitory factor signaling pathway (GO:0048861)|oncostatin-M-mediated signaling pathway (GO:0038165)|positive regulation of cell proliferation (GO:0008284)|response to cytokine (GO:0034097)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	ciliary neurotrophic factor receptor binding (GO:0005127)|growth factor binding (GO:0019838)|leukemia inhibitory factor receptor activity (GO:0004923)			NS(2)|breast(4)|endometrium(6)|kidney(2)|large_intestine(30)|liver(2)|lung(21)|ovary(3)|skin(5)|stomach(1)|urinary_tract(2)	78	all_lung(31;0.00021)					CTGATAACACTTTTTCTTGAC	0.378			T	PLAG1	salivary adenoma																																Melanoma(13;4 730 6426 9861 34751)		Dom	yes		5	5p13-p12	3977	leukemia inhibitory factor receptor		E	0													106	93	97					5																	38510729		2203	4300	6503	SO:0001819	synonymous_variant	3977			X61615	CCDS3927.1	5p13-p12	2013-02-11	2006-05-17		ENSG00000113594	ENSG00000113594		"CD molecules", "Fibronectin type III domain containing"	6597	protein-coding gene	gene with protein product		151443	"leukemia inhibitory factor receptor"			1915266	Standard	NM_001127671		Approved	CD118	uc003jli.2	P42702	OTTHUMG00000131138	ENST00000263409.4:c.828A>G	5.37:g.38510729T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6LCD9	Silent	SNP	ENST00000263409.4	37	CCDS3927.1																																																																																				0.378	LIFR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253823.1	NM_002310		C	38510729	T	C	38510729	2	2	664	1	0	0	0	0	0	0	0	1	8787	1606	56	3		3	LIFR	5	38510729	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1474236	38510729	142404531	250	41560										
DAB2	1601	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr5	39377146	39377146	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttgttgttgaccaagcattGggtgccacagatgcagaagg	13	8	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:39377146G>T	ENST00000320816.6	-	12	2210	c.1743C>A	c.(1741-1743)ccC>ccA	p.P581P	DAB2_ENST00000545653.1_Silent_p.P560P|DAB2_ENST00000509337.1_Silent_p.P560P|DAB2_ENST00000339788.6_Silent_p.P363P	NM_001343.3	NP_001334.2	P98082	DAB2_HUMAN	Dab, mitogen-responsive phosphoprotein, homolog 2 (Drosophila)	581					activation of JUN kinase activity (GO:0007257)|apoptotic process (GO:0006915)|cell morphogenesis involved in differentiation (GO:0000904)|cell proliferation (GO:0008283)|cellular response to transforming growth factor beta stimulus (GO:0071560)|clathrin coat assembly (GO:0048268)|endoderm development (GO:0007492)|excretion (GO:0007588)|in utero embryonic development (GO:0001701)|leading edge cell differentiation (GO:0035026)|membrane organization (GO:0061024)|myeloid cell differentiation (GO:0030099)|negative regulation of androgen receptor signaling pathway (GO:0060766)|negative regulation of apoptotic process (GO:0043066)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of protein binding (GO:0032091)|negative regulation of protein localization to plasma membrane (GO:1903077)|negative regulation of transcription, DNA-templated (GO:0045892)|pinocytosis (GO:0006907)|positive regulation of cell migration (GO:0030335)|positive regulation of clathrin-mediated endocytosis (GO:2000370)|positive regulation of early endosome to late endosome transport (GO:2000643)|positive regulation of endocytosis (GO:0045807)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of integrin-mediated signaling pathway (GO:2001046)|positive regulation of pathway-restricted SMAD protein phosphorylation (GO:0010862)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of receptor recycling (GO:0001921)|positive regulation of SMAD protein import into nucleus (GO:0060391)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|positive regulation of transcription elongation from RNA polymerase II promoter (GO:0032968)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|positive regulation of Wnt signaling pathway, planar cell polarity pathway (GO:2000096)|protein transport (GO:0015031)|receptor-mediated endocytosis (GO:0006898)|Wnt signaling pathway (GO:0016055)	apical plasma membrane (GO:0016324)|clathrin coat of coated pit (GO:0030132)|clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal membrane (GO:0005765)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)	cargo receptor activity (GO:0038024)|clathrin adaptor activity (GO:0035615)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|protein C-terminus binding (GO:0008022)|SMAD binding (GO:0046332)			autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|endometrium(1)|kidney(5)|large_intestine(9)|lung(19)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)	47	all_lung(31;0.000197)		Epithelial(62;0.137)			ACCAAGCATTGGGTGCCACAG	0.547											OREG0016586	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													76	86	82					5																	39377146		2203	4300	6503	SO:0001819	synonymous_variant	1601			U53446	CCDS34149.1, CCDS58946.1	5p13.1	2013-10-03	2013-03-08		ENSG00000153071	ENSG00000153071			2662	protein-coding gene	gene with protein product		601236	"disabled (Drosophila) homolog 2 (mitogen-responsive phosphoprotein)", "disabled homolog 2, mitogen-responsive phosphoprotein (Drosophila)"			8660969, 9620555	Standard	NM_001343		Approved	DOC-2	uc003jlx.3	P98082	OTTHUMG00000162043	ENST00000320816.6:c.1743C>A	5.37:g.39377146G>T		Somatic	885	WXS	Illumina HiSeq	Phase_I	A6NES5|Q13598|Q9BTY0|Q9UK04	Silent	SNP	ENST00000320816.6	37	CCDS34149.1																																																																																				0.547	DAB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367014.1	NM_001343		T	39377146	G	T	39377146	2	4	664	1	0	0	0	0	0	0	0	1	4220	1335	47	4		4	DAB2	5	39377146	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	866417	39377146	141538114	251	41561										
PTGER4	5734	hgsc.bcm.edu;mdanderson.org	37	chr5	40681716	40681716	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctctgcaacgtgcttgtgtgCggcgcgctgctccgcatgca	13	14	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:40681716C>T	ENST00000302472.3	+	2	1645	c.621C>T	c.(619-621)tgC>tgT	p.C207C	PTGER4_ENST00000514343.1_3'UTR	NM_000958.2	NP_000949.1	P35408	PE2R4_HUMAN	prostaglandin E receptor 4 (subtype EP4)	207					adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|bone development (GO:0060348)|cellular response to mechanical stimulus (GO:0071260)|ERK1 and ERK2 cascade (GO:0070371)|immune response (GO:0006955)|JNK cascade (GO:0007254)|negative regulation of cytokine secretion (GO:0050710)|negative regulation of eosinophil extravasation (GO:2000420)|negative regulation of inflammatory response (GO:0050728)|negative regulation of integrin activation (GO:0033624)|positive regulation of cytokine secretion (GO:0050715)|positive regulation of inflammatory response (GO:0050729)|regulation of ossification (GO:0030278)|regulation of stress fiber assembly (GO:0051492)|response to lipopolysaccharide (GO:0032496)|response to mechanical stimulus (GO:0009612)|T-helper cell differentiation (GO:0042093)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	prostaglandin E receptor activity (GO:0004957)			breast(1)|endometrium(3)|liver(1)|lung(13)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	23					Dinoprostone(DB00917)|Misoprostol(DB00929)	TGCTTGTGTGCGGCGCGCTGC	0.701																																																0													24	21	22					5																	40681716		2202	4295	6497	SO:0001819	synonymous_variant	5734			L28175	CCDS3930.1	5p13.1	2012-08-08			ENSG00000171522	ENSG00000171522		"GPCR / Class A : Prostanoid receptors"	9596	protein-coding gene	gene with protein product		601586				7759114, 8661119	Standard	NM_000958		Approved	EP4	uc003jlz.3	P35408	OTTHUMG00000094769	ENST00000302472.3:c.621C>T	5.37:g.40681716C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q3MJ87	Silent	SNP	ENST00000302472.3	37	CCDS3930.1																																																																																				0.701	PTGER4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000211578.2	NM_000958		T	40681716	C	T	40681716	2	4	664	1	0	0	0	0	0	0	0	1	12756	776	27	1		1	PTGER4	5	40681716	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1304570	40681716	140233544	252	41562										
NNT	23530	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr5	43613077	43613077	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caaaatgagaagcgagtggcAttgtctcctgctggtgttca	12	8	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:43613077A>G	ENST00000264663.5	+	3	440	c.219A>G	c.(217-219)gcA>gcG	p.A73A	NNT_ENST00000512996.2_5'UTR|NNT_ENST00000344920.4_Silent_p.A73A	NM_012343.3	NP_036475.3	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	73					cellular metabolic process (GO:0044237)|hydrogen ion transmembrane transport (GO:1902600)|oxidation-reduction process (GO:0055114)|proton transport (GO:0015992)|reactive oxygen species metabolic process (GO:0072593)|small molecule metabolic process (GO:0044281)|tricarboxylic acid cycle (GO:0006099)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain (GO:0005746)|mitochondrion (GO:0005739)	NAD binding (GO:0051287)|NAD(P)+ transhydrogenase (AB-specific) activity (GO:0008750)|NAD(P)+ transhydrogenase (B-specific) activity (GO:0003957)|NAD(P)+ transhydrogenase activity (GO:0008746)|NADP binding (GO:0050661)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(7)|large_intestine(6)|liver(2)|lung(20)|ovary(3)|prostate(2)|skin(1)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	51	Lung NSC(6;2.58e-06)					AGCGAGTGGCATTGTCTCCTG	0.423																																																0													155	158	157					5																	43613077		2203	4300	6503	SO:0001819	synonymous_variant	23530			U40490	CCDS3949.1	5p12	2008-02-05			ENSG00000112992	ENSG00000112992	1.6.1.1		7863	protein-coding gene	gene with protein product		607878				9271681, 9524818	Standard	NM_182977		Approved		uc003jof.3	Q13423	OTTHUMG00000096961	ENST00000264663.5:c.219A>G	5.37:g.43613077A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q16796|Q2TB60|Q8N3V4	Silent	SNP	ENST00000264663.5	37	CCDS3949.1																																																																																				0.423	NNT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214026.1	NM_182977		G	43613077	A	G	43613077	2	3	664	1	0	0	0	0	0	0	0	1	10517	204	8	3		3	NNT	5	43613077	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	2931361	43613077	137302183	253	41563										
MRPS30	10884	mdanderson.org	37	chr5	44811198	44811198	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggtcgaattgatgacttgcGataccagatagatgataaac	10	6	0	5			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:44811198G>A	ENST00000507110.1	+	2	727	c.689G>A	c.(688-690)cGa>cAa	p.R230Q	RP11-53O19.1_ENST00000514597.1_RNA|RP11-53O19.1_ENST00000508123.1_RNA|RP11-53O19.1_ENST00000508945.1_RNA|RP11-53O19.1_ENST00000503452.1_RNA|RP11-53O19.1_ENST00000505302.1_RNA|RP11-53O19.1_ENST00000503179.1_RNA|RP11-53O19.1_ENST00000505401.1_RNA|RP11-53O19.1_ENST00000505637.1_RNA	NM_016640.3	NP_057724.2	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	230					apoptotic process (GO:0006915)|translation (GO:0006412)	mitochondrion (GO:0005739)|ribosome (GO:0005840)	poly(A) RNA binding (GO:0044822)|structural constituent of ribosome (GO:0003735)			central_nervous_system(1)|cervix(1)|endometrium(4)|large_intestine(2)|lung(11)|prostate(1)	20	Lung NSC(6;8.08e-07)					GATGACTTGCGATACCAGATA	0.383																																																0													137	135	136					5																	44811198		2203	4300	6503	SO:0001583	missense	10884			AF146192	CCDS3951.1	5q11	2012-09-13		2001-11-09	ENSG00000112996	ENSG00000112996		"Mitochondrial ribosomal proteins / small subunits"	8769	protein-coding gene	gene with protein product		611991		PDCD9		10640817, 11279123	Standard	NM_016640		Approved	PAP	uc003joh.3	Q9NP92	OTTHUMG00000096967	ENST00000507110.1:c.689G>A	5.37:g.44811198G>A	ENSP00000424328:p.Arg230Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q96I91|Q96Q19|Q9H0P8|Q9NSF9|Q9NZ76	Missense_Mutation	SNP	ENST00000507110.1	37	CCDS3951.1	.	.	.	.	.	.	.	.	.	.	G	31	5.080982	0.94050	.	.	ENSG00000112996	ENST00000507110	T	0.19669	2.13	4.88	4.88	0.63580	.	0.000000	0.85682	D	0.000000	T	0.48519	0.1504	M	0.78049	2.395	0.58432	D	0.999998	D	0.89917	1.0	D	0.87578	0.998	T	0.37056	-0.9722	10	0.27785	T	0.31	-2.816	18.9329	0.92574	0.0:0.0:1.0:0.0	.	230	Q9NP92	RT30_HUMAN	Q	230	ENSP00000424328:R230Q	ENSP00000424328:R230Q	R	+	2	0	MRPS30	44846955	1.000000	0.71417	0.998000	0.56505	0.722000	0.41435	8.419000	0.90253	2.631000	0.89168	0.655000	0.94253	CGA		0.383	MRPS30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214033.2	NM_016640		A	44811198	G	A	44811198	3	1	664	1	0	0	0	0	1	0	0	0	9847	1058	37	1	695	1	MRPS30	5	44811198	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1198121	44811198	136104062	254	41564										
MRPS30	10884	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	44812095	44812095	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acaaacttccattattcaaaCggcagtatgaaaaccacata	4	10	1	1	rs61753790		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:44812095C>T	ENST00000507110.1	+	3	864	c.826C>T	c.(826-828)Cgg>Tgg	p.R276W		NM_016640.3	NP_057724.2	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	276					apoptotic process (GO:0006915)|translation (GO:0006412)	mitochondrion (GO:0005739)|ribosome (GO:0005840)	poly(A) RNA binding (GO:0044822)|structural constituent of ribosome (GO:0003735)			central_nervous_system(1)|cervix(1)|endometrium(4)|large_intestine(2)|lung(11)|prostate(1)	20	Lung NSC(6;8.08e-07)					ATTATTCAAACGGCAGTATGA	0.323																																																0													91	90	90					5																	44812095		2203	4299	6502	SO:0001583	missense	10884			AF146192	CCDS3951.1	5q11	2012-09-13		2001-11-09	ENSG00000112996	ENSG00000112996		"Mitochondrial ribosomal proteins / small subunits"	8769	protein-coding gene	gene with protein product		611991		PDCD9		10640817, 11279123	Standard	NM_016640		Approved	PAP	uc003joh.3	Q9NP92	OTTHUMG00000096967	ENST00000507110.1:c.826C>T	5.37:g.44812095C>T	ENSP00000424328:p.Arg276Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q96I91|Q96Q19|Q9H0P8|Q9NSF9|Q9NZ76	Missense_Mutation	SNP	ENST00000507110.1	37	CCDS3951.1	.	.	.	.	.	.	.	.	.	.	C	15.44	2.834500	0.50951	.	.	ENSG00000112996	ENST00000507110	T	0.19250	2.16	5.81	4.93	0.64822	.	0.106321	0.64402	D	0.000009	T	0.45175	0.1329	M	0.77103	2.36	0.47094	D	0.999311	D	0.89917	1.0	D	0.87578	0.998	T	0.37619	-0.9698	10	0.28530	T	0.3	-0.2011	12.5333	0.56128	0.3696:0.6304:0.0:0.0	rs61753790	276	Q9NP92	RT30_HUMAN	W	276	ENSP00000424328:R276W	ENSP00000424328:R276W	R	+	1	2	MRPS30	44847852	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	2.829000	0.48128	1.432000	0.47375	-0.181000	0.13052	CGG		0.323	MRPS30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214033.2	NM_016640		T	44812095	C	T	44812095	3	4	664	1	0	0	0	0	1	0	0	0	9847	527	19	1	836	1	MRPS30	5	44812095	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	897	44812095	136103165	255	41565										
ACTBL2	345651	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	56777945	56777945	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggtggtgaagttatagcctCgctctgtcaggatcttcatg	12	8	4	1	rs149395843	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:56777945C>T	ENST00000423391.1	-	1	691	c.590G>A	c.(589-591)cGa>cAa	p.R197Q	AC025470.1_ENST00000584598.1_RNA|CTD-2023N9.1_ENST00000506106.1_RNA	NM_001017992.3	NP_001017992.1	Q562R1	ACTBL_HUMAN	actin, beta-like 2	197						cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)			breast(2)|endometrium(1)|kidney(2)|large_intestine(10)|lung(7)|ovary(3)|pancreas(1)|prostate(2)	28		Lung NSC(810;0.000135)|Prostate(74;0.055)|Breast(144;0.0707)|Ovarian(174;0.182)		OV - Ovarian serous cystadenocarcinoma(10;4.24e-37)		GTTATAGCCTCGCTCTGTCAG	0.532													C|||	19	0.00379393	0.0144	0.0	5008	,	,		22585	0.0		0.0	False		,,,				2504	0.0															0								C	GLN/ARG	41,4365	45.3+/-79.5	1,39,2163	101	82	88		590	3.9	0.9	5	dbSNP_134	88	0,8600		0,0,4300	yes	missense	ACTBL2	NM_001017992.2	43	1,39,6463	TT,TC,CC		0.0,0.9305,0.3152	probably-damaging	197/377	56777945	41,12965	2203	4300	6503	SO:0001583	missense	345651				CCDS34163.1	5q11.2	2014-08-08			ENSG00000169067	ENSG00000169067			17780	protein-coding gene	gene with protein product		614835					Standard	NM_001017992		Approved	DKFZp686D0972	uc003jrm.3	Q562R1	OTTHUMG00000162330	ENST00000423391.1:c.590G>A	5.37:g.56777945C>T	ENSP00000416706:p.Arg197Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPJ1|Q562R2|Q562S9|Q562X8	Missense_Mutation	SNP	ENST00000423391.1	37	CCDS34163.1	2	9.157509157509158E-4	2	0.0040650406504065045	0	0.0	0	0.0	0	0.0	C	13.17	2.156197	0.38021	0.009305	0.0	ENSG00000169067	ENST00000423391	D	0.94576	-3.46	4.77	3.89	0.44902	.	0.094398	0.39083	N	0.001479	D	0.94142	0.8121	H	0.94771	3.58	0.39485	D	0.967951	B	0.27068	0.167	B	0.32211	0.142	D	0.93849	0.7143	10	0.87932	D	0	.	10.9769	0.47472	0.0:0.9077:0.0:0.0923	.	197	Q562R1	ACTBL_HUMAN	Q	197	ENSP00000416706:R197Q	ENSP00000416706:R197Q	R	-	2	0	ACTBL2	56813702	0.866000	0.29940	0.890000	0.34922	0.974000	0.67602	5.926000	0.70070	1.201000	0.43203	0.655000	0.94253	CGA		0.532	ACTBL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368579.1	NM_001017992		T	56777945	C	T	56777945	3	4	664	1	0	0	0	0	1	0	0	0	194	884	31	1	544	1	ACTBL2	5	56777945	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	11965850	56777945	124137315	256	41566										
PIK3R1	5295	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	67522808	67522808	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcctgttgcaccaggttcttCgaaaactgaagcagatgttg	10	9	1	2	rs368742778		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:67522808C>T	ENST00000521381.1	+	2	921	c.305C>T	c.(304-306)tCg>tTg	p.S102L	PIK3R1_ENST00000396611.1_Missense_Mutation_p.S102L|PIK3R1_ENST00000521657.1_Missense_Mutation_p.S102L|PIK3R1_ENST00000274335.5_Missense_Mutation_p.S102L	NM_181523.2	NP_852664.1	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1 (alpha)	102					B cell differentiation (GO:0030183)|blood coagulation (GO:0007596)|cellular response to UV (GO:0034644)|epidermal growth factor receptor signaling pathway (GO:0007173)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|growth hormone receptor signaling pathway (GO:0060396)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|insulin-like growth factor receptor signaling pathway (GO:0048009)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|leukocyte migration (GO:0050900)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of osteoclast differentiation (GO:0045671)|neurotrophin TRK receptor signaling pathway (GO:0048011)|NFAT protein import into nucleus (GO:0051531)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol phosphorylation (GO:0046854)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet activation (GO:0030168)|positive regulation of cell migration (GO:0030335)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of glucose import (GO:0046326)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor production (GO:0032760)|protein phosphorylation (GO:0006468)|regulation of phosphatidylinositol 3-kinase activity (GO:0043551)|small molecule metabolic process (GO:0044281)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)|viral process (GO:0016032)	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex (GO:0005943)|cell-cell junction (GO:0005911)|cytosol (GO:0005829)|membrane (GO:0016020)|phosphatidylinositol 3-kinase complex (GO:0005942)|plasma membrane (GO:0005886)	ErbB-3 class receptor binding (GO:0043125)|insulin binding (GO:0043559)|insulin receptor binding (GO:0005158)|insulin receptor substrate binding (GO:0043560)|insulin-like growth factor receptor binding (GO:0005159)|neurotrophin TRKA receptor binding (GO:0005168)|phosphatidylinositol 3-kinase binding (GO:0043548)|phosphatidylinositol 3-kinase regulator activity (GO:0035014)|protein phosphatase binding (GO:0019903)|transmembrane receptor protein tyrosine kinase adaptor activity (GO:0005068)	p.0?(1)		breast(12)|central_nervous_system(31)|cervix(1)|endometrium(68)|haematopoietic_and_lymphoid_tissue(5)|kidney(1)|large_intestine(32)|lung(10)|ovary(9)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	178		Lung NSC(167;1.99e-05)|Prostate(74;0.00308)|Ovarian(174;0.00473)|Colorectal(97;0.0176)		OV - Ovarian serous cystadenocarcinoma(47;3.76e-51)|Lung(70;0.0211)	Isoprenaline(DB01064)	CCAGGTTCTTCGAAAACTGAA	0.433			"Mis, F, O"		"gliobastoma, ovarian, colorectal"					TCGA GBM(4;<1E-08)																													Rec	yes		5	5q13.1	5295	"phosphoinositide-3-kinase, regulatory subunit 1 (alpha)"		"E, O"	1	Whole gene deletion(1)	large_intestine(1)						C	LEU/SER	0,4406		0,0,2203	49	59	55		305	5.8	0.9	5		55	1,8599	1.2+/-3.3	0,1,4299	no	missense	PIK3R1	NM_181523.2	145	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign	102/725	67522808	1,13005	2203	4300	6503	SO:0001583	missense	5295			M61906	CCDS3993.1, CCDS3994.1, CCDS3995.1, CCDS56374.1	5q13.1	2014-09-17	2008-02-04		ENSG00000145675	ENSG00000145675		"SH2 domain containing"	8979	protein-coding gene	gene with protein product		171833				1314371, 18387942	Standard	NM_181524		Approved	GRB1, p85-ALPHA, p85	uc003jva.3	P27986	OTTHUMG00000131251	ENST00000521381.1:c.305C>T	5.37:g.67522808C>T	ENSP00000428056:p.Ser102Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KT19|D3DWA0|E7EX19|Q15747|Q4VBZ7|Q53EM6|Q8IXA2|Q8N1C5	Missense_Mutation	SNP	ENST00000521381.1	37	CCDS3993.1	.	.	.	.	.	.	.	.	.	.	C	14.24	2.475463	0.43942	0.0	1.16E-4	ENSG00000145675	ENST00000521381;ENST00000521657;ENST00000396611;ENST00000274335	T;T;T;T	0.69685	-0.42;-0.42;-0.3;-0.42	5.77	5.77	0.91146	.	0.462575	0.21847	N	0.068223	T	0.55924	0.1951	L	0.29908	0.895	0.33287	D	0.563063	B	0.13145	0.007	B	0.12837	0.008	T	0.58612	-0.7606	10	0.28530	T	0.3	-7.4193	15.789	0.78338	0.0:0.8646:0.1354:0.0	.	102	P27986	P85A_HUMAN	L	102	ENSP00000428056:S102L;ENSP00000429277:S102L;ENSP00000379855:S102L;ENSP00000274335:S102L	ENSP00000274335:S102L	S	+	2	0	PIK3R1	67558564	0.991000	0.36638	0.916000	0.36221	0.971000	0.66376	3.099000	0.50267	2.884000	0.98904	0.655000	0.94253	TCG		0.433	PIK3R1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254013.2	NM_181504		T	67522808	C	T	67522808	3	4	664	1	0	0	0	0	1	0	0	0	11925	893	31	1	307	1	PIK3R1	5	67522808	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	10744863	67522808	113392452	257	41567										
PDE8B	8622	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr5	76645327	76645327	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcgctgatctgcccaaaagCgataagaaccgggcagacct	10	13	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:76645327C>T	ENST00000264917.5	+	8	1005	c.960C>T	c.(958-960)agC>agT	p.S320S	PDE8B_ENST00000342343.4_Silent_p.S300S|PDE8B_ENST00000346042.3_Intron|PDE8B_ENST00000333194.4_Silent_p.S320S|PDE8B_ENST00000340978.3_Intron	NM_003719.3	NP_003710.1	O95263	PDE8B_HUMAN	phosphodiesterase 8B	320	PAS. {ECO:0000255|PROSITE- ProRule:PRU00140}.				cAMP catabolic process (GO:0006198)|cyclic nucleotide metabolic process (GO:0009187)|negative regulation of insulin secretion (GO:0046676)|negative regulation of steroid hormone biosynthetic process (GO:0090032)|phosphorelay signal transduction system (GO:0000160)	cytosol (GO:0005829)	3',5'-cyclic-AMP phosphodiesterase activity (GO:0004115)|3',5'-cyclic-nucleotide phosphodiesterase activity (GO:0004114)|metal ion binding (GO:0046872)|signal transducer activity (GO:0004871)		GMDS/PDE8B(2)	NS(1)|autonomic_ganglia(2)|breast(1)|central_nervous_system(1)|endometrium(4)|large_intestine(10)|lung(15)|ovary(1)|prostate(2)|skin(3)	40		all_lung(232;0.00043)|Lung NSC(167;0.00114)|Ovarian(174;0.0107)|Prostate(461;0.0605)		OV - Ovarian serous cystadenocarcinoma(54;2.21e-49)|Epithelial(54;5.82e-43)|all cancers(79;4.06e-38)	Caffeine(DB00201)|Ketotifen(DB00920)	TGCCCAAAAGCGATAAGAACC	0.502																																																0													133	114	121					5																	76645327		2203	4300	6503	SO:0001819	synonymous_variant	8622			AF079529	CCDS4037.1, CCDS34190.1, CCDS34191.1, CCDS34192.1, CCDS34193.1	5q14.1	2008-05-15			ENSG00000113231	ENSG00000113231	3.1.4.17	"Phosphodiesterases"	8794	protein-coding gene	gene with protein product		603390				9784418	Standard	NM_003719		Approved		uc003kfa.3	O95263	OTTHUMG00000102170	ENST00000264917.5:c.960C>T	5.37:g.76645327C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5J7V7|Q86XK8|Q8IUJ7|Q8IUJ8|Q8IUJ9|Q8IUK0|Q8N3T2	Silent	SNP	ENST00000264917.5	37	CCDS4037.1																																																																																				0.502	PDE8B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000220015.3	NM_003719		T	76645327	C	T	76645327	2	4	664	1	0	0	0	0	0	0	0	1	11661	767	27	1		1	PDE8B	5	76645327	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	9122519	76645327	104269933	258	41568										
THBS4	7060	broad.mit.edu	37	chr5	79366537	79366537	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcattggcgacgcttgtgaCgaggatgctgacggagatgg	18	7	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:79366537C>T	ENST00000350881.2	+	12	1714	c.1524C>T	c.(1522-1524)gaC>gaT	p.D508D	CTD-2201I18.1_ENST00000514042.1_RNA|CTD-2201I18.1_ENST00000503007.1_RNA|THBS4_ENST00000511733.1_Silent_p.D417D	NM_003248.4	NP_003239.2	P35443	TSP4_HUMAN	thrombospondin 4	508					behavioral response to pain (GO:0048266)|endothelial cell-cell adhesion (GO:0071603)|myoblast migration (GO:0051451)|negative regulation of angiogenesis (GO:0016525)|positive regulation of cell division (GO:0051781)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of neutrophil chemotaxis (GO:0090023)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|regulation of tissue remodeling (GO:0034103)|response to endoplasmic reticulum stress (GO:0034976)|response to unfolded protein (GO:0006986)|tissue remodeling (GO:0048771)	basement membrane (GO:0005604)|endoplasmic reticulum (GO:0005783)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|sarcoplasmic reticulum (GO:0016529)	calcium ion binding (GO:0005509)|heparin binding (GO:0008201)|integrin binding (GO:0005178)			breast(1)|endometrium(4)|kidney(2)|large_intestine(9)|lung(14)|ovary(1)|stomach(3)	34		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		ACGCTTGTGACGAGGATGCTG	0.532																																																0													138	121	127					5																	79366537		2203	4300	6503	SO:0001819	synonymous_variant	7060				CCDS4049.1	5q13	2008-05-15			ENSG00000113296	ENSG00000113296			11788	protein-coding gene	gene with protein product		600715				7852353	Standard	NM_003248		Approved		uc021yaw.1	P35443	OTTHUMG00000108173	ENST00000350881.2:c.1524C>T	5.37:g.79366537C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R909|Q86TG2	Silent	SNP	ENST00000350881.2	37	CCDS4049.1																																																																																				0.532	THBS4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000226977.1			T	79366537	C	T	79366537	2	4	664	1	0	0	0	0	0	0	0	1	15868	535	19	1		1	THBS4	5	79366537	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2721210	79366537	101548723	259	41569										
ACOT12	134526	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	80640001	80640001	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcctaggcgaattcgcttgcGtgcaatagctccccgatagc	11	13	0	0	rs149103852		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:80640001G>A	ENST00000307624.3	-	9	986	c.958C>T	c.(958-960)Cgc>Tgc	p.R320C	ACOT12_ENST00000508234.1_5'UTR	NM_130767.2	NP_570123.1	Q8WYK0	ACO12_HUMAN	acyl-CoA thioesterase 12	320					acetyl-CoA metabolic process (GO:0006084)|acyl-CoA metabolic process (GO:0006637)|fatty acid metabolic process (GO:0006631)|pyruvate metabolic process (GO:0006090)	cytosol (GO:0005829)	acetyl-CoA hydrolase activity (GO:0003986)|ATP binding (GO:0005524)|carboxylic ester hydrolase activity (GO:0052689)|lipid binding (GO:0008289)			cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(7)|ovary(2)	23		Lung NSC(167;0.0176)|all_lung(232;0.0205)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;1.37e-45)|Epithelial(54;1.25e-39)|all cancers(79;5.01e-34)		ATTCGCTTGCGTGCAATAGCT	0.358																																																0								G	CYS/ARG	0,4406		0,0,2203	68	70	70		958	5.4	1	5	dbSNP_134	70	1,8599	1.2+/-3.3	0,1,4299	no	missense	ACOT12	NM_130767.2	180	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	320/556	80640001	1,13005	2203	4300	6503	SO:0001583	missense	134526			AB078619	CCDS4055.1	5q14.1	2011-09-13			ENSG00000172497	ENSG00000172497		"Acyl CoA thioesterases", "StAR-related lipid transfer (START) domain containing"	24436	protein-coding gene	gene with protein product	"StAR-related lipid transfer (START) domain containing 15"	614315				16103133, 16940157	Standard	NM_130767		Approved	Cach, THEAL, STARD15	uc003khl.4	Q8WYK0	OTTHUMG00000131305	ENST00000307624.3:c.958C>T	5.37:g.80640001G>A	ENSP00000303246:p.Arg320Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVK9|Q5FWE9	Missense_Mutation	SNP	ENST00000307624.3	37	CCDS4055.1	.	.	.	.	.	.	.	.	.	.	G	18.08	3.543967	0.65198	0.0	1.16E-4	ENSG00000172497	ENST00000307624	T	0.38077	1.16	5.45	5.45	0.79879	.	0.124801	0.51477	D	0.000098	T	0.69178	0.3082	M	0.92459	3.31	0.80722	D	1	D	0.89917	1.0	D	0.79108	0.992	T	0.76844	-0.2809	10	0.87932	D	0	-15.5955	16.5697	0.84608	0.0:0.0:1.0:0.0	.	320	Q8WYK0	ACO12_HUMAN	C	320	ENSP00000303246:R320C	ENSP00000303246:R320C	R	-	1	0	ACOT12	80675757	1.000000	0.71417	0.998000	0.56505	0.692000	0.40212	3.345000	0.52182	2.725000	0.93324	0.655000	0.94253	CGC		0.358	ACOT12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254074.1	NM_130767		A	80640001	G	A	80640001	3	1	664	1	0	0	0	0	1	0	0	0	150	1145	40	1	737	1	ACOT12	5	80640001	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1273464	80640001	100275259	260	41570										
XRCC4	7518	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr5	82499423	82499423	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggagactgatctttataagCggtttattctggtgttgaat	11	4	2	3	rs140143447		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:82499423C>T	ENST00000511817.1	+	5	615	c.535C>T	c.(535-537)Cgg>Tgg	p.R179W	XRCC4_ENST00000509268.1_3'UTR|XRCC4_ENST00000338635.6_Missense_Mutation_p.R179W|XRCC4_ENST00000282268.3_Missense_Mutation_p.R179W|XRCC4_ENST00000396027.4_Missense_Mutation_p.R179W			Q13426	XRCC4_HUMAN	X-ray repair complementing defective repair in Chinese hamster cells 4	179					cellular response to lithium ion (GO:0071285)|central nervous system development (GO:0007417)|DNA ligation involved in DNA repair (GO:0051103)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via nonhomologous end joining (GO:0006303)|establishment of integrated proviral latency (GO:0075713)|immunoglobulin V(D)J recombination (GO:0033152)|in utero embryonic development (GO:0001701)|isotype switching (GO:0045190)|negative regulation of neuron apoptotic process (GO:0043524)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of ligase activity (GO:0051351)|positive regulation of neurogenesis (GO:0050769)|pro-B cell differentiation (GO:0002328)|response to gamma radiation (GO:0010332)|response to X-ray (GO:0010165)|T cell differentiation in thymus (GO:0033077)|viral process (GO:0016032)	cell junction (GO:0030054)|centrosome (GO:0005813)|cytosol (GO:0005829)|DNA ligase IV complex (GO:0032807)|DNA-dependent protein kinase-DNA ligase 4 complex (GO:0005958)|nonhomologous end joining complex (GO:0070419)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	protein C-terminus binding (GO:0008022)	p.R179W(1)		endometrium(2)|kidney(1)|large_intestine(4)|lung(5)|prostate(2)|skin(3)	17		Lung NSC(167;0.00132)|all_lung(232;0.00154)|Ovarian(174;0.034)		OV - Ovarian serous cystadenocarcinoma(54;1.44e-38)|Epithelial(54;3.72e-33)|all cancers(79;9.22e-28)		TCTTTATAAGCGGTTTATTCT	0.318								Non-homologous end-joining																																								1	Substitution - Missense(1)	kidney(1)						C	TRP/ARG,TRP/ARG,TRP/ARG	1,4405	2.1+/-5.4	0,1,2202	89	97	94		535,535,535	4.9	0.1	5	dbSNP_134	94	0,8600		0,0,4300	no	missense,missense,missense	XRCC4	NM_003401.3,NM_022406.2,NM_022550.2	101,101,101	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging,probably-damaging,probably-damaging	179/335,179/337,179/335	82499423	1,13005	2203	4300	6503	SO:0001583	missense	7518			AB017445	CCDS4058.1, CCDS4059.1	5q14.2	2008-02-05			ENSG00000152422	ENSG00000152422			12831	protein-coding gene	gene with protein product	"X-ray repair, complementing defective, repair in Chinese hamster", "DNA repair protein XRCC4"	194363				1697445, 7665175	Standard	NM_022406		Approved		uc003kib.3	Q13426	OTTHUMG00000131319	ENST00000511817.1:c.535C>T	5.37:g.82499423C>T	ENSP00000421491:p.Arg179Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3X4|Q9BS72|Q9UP94	Missense_Mutation	SNP	ENST00000511817.1	37	CCDS4059.1	.	.	.	.	.	.	.	.	.	.	C	17.52	3.409449	0.62399	2.27E-4	0.0	ENSG00000152422	ENST00000282268;ENST00000338635;ENST00000396027;ENST00000511817	T;T;T;T	0.38240	1.15;1.15;1.15;1.15	5.88	4.94	0.65067	.	0.000000	0.85682	D	0.000000	T	0.60235	0.2253	M	0.76328	2.33	0.34914	D	0.7478	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	T	0.74077	-0.3781	10	0.87932	D	0	-12.6205	14.0478	0.64714	0.331:0.669:0.0:0.0	.	179;179;179	Q13426-2;Q13426;Q13426-3	.;XRCC4_HUMAN;.	W	179	ENSP00000282268:R179W;ENSP00000342011:R179W;ENSP00000379344:R179W;ENSP00000421491:R179W	ENSP00000282268:R179W	R	+	1	2	XRCC4	82535179	0.789000	0.28775	0.134000	0.22075	0.967000	0.64934	1.155000	0.31700	1.263000	0.44181	0.555000	0.69702	CGG		0.318	XRCC4-003	NOVEL	alternative_5_UTR|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000369624.1	NM_022550		T	82499423	C	T	82499423	3	4	664	1	0	0	0	0	1	0	0	0	17467	759	27	1	549	1	XRCC4	5	82499423	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1859422	82499423	98415837	261	41571										
TMEM161B	153396	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	87494939	87494939	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caggattattaaccagagtcGcagagtatcgaatgtggctt	11	7	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:87494939G>A	ENST00000296595.6	-	10	1067	c.943C>T	c.(943-945)Cga>Tga	p.R315*	TMEM161B_ENST00000506536.1_Nonsense_Mutation_p.R133*|TMEM161B_ENST00000512429.1_Nonsense_Mutation_p.R304*|TMEM161B_ENST00000515293.1_5'Flank|TMEM161B_ENST00000511218.1_Intron|TMEM161B_ENST00000514135.1_Nonsense_Mutation_p.R315*	NM_153354.3	NP_699185.1	Q8NDZ6	T161B_HUMAN	transmembrane protein 161B	315						integral component of membrane (GO:0016021)				endometrium(4)|large_intestine(3)|lung(9)|skin(3)|upper_aerodigestive_tract(1)	20		all_cancers(142;0.000275)|Lung NSC(167;0.00901)|all_lung(232;0.0111)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;6.24e-36)|Epithelial(54;6.8e-31)|all cancers(79;1.07e-26)		AACCAGAGTCGCAGAGTATCG	0.413																																																0													49	45	46					5																	87494939		2203	4299	6502	SO:0001587	stop_gained	153396			BC037287	CCDS4065.1, CCDS75269.1, CCDS75270.1	5q14.3	2008-02-05			ENSG00000164180	ENSG00000164180			28483	protein-coding gene	gene with protein product						12477932	Standard	NM_001289008		Approved	MGC33214	uc003kjc.3	Q8NDZ6	OTTHUMG00000131323	ENST00000296595.6:c.943C>T	5.37:g.87494939G>A	ENSP00000296595:p.Arg315*	Somatic		WXS	Illumina HiSeq	Phase_I	Q5CZH7|Q6UWQ6	Nonsense_Mutation	SNP	ENST00000296595.6	37	CCDS4065.1	.	.	.	.	.	.	.	.	.	.	G	39	7.374376	0.98245	.	.	ENSG00000164180	ENST00000514135;ENST00000296595;ENST00000506536;ENST00000512429	.	.	.	5.91	5.91	0.95273	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-28.4847	14.9408	0.70992	0.0:0.0:0.8236:0.1764	.	.	.	.	X	315;315;133;304	.	ENSP00000296595:R315X	R	-	1	2	TMEM161B	87530695	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	5.499000	0.66937	2.805000	0.96524	0.460000	0.39030	CGA		0.413	TMEM161B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254094.1	NM_153354		A	87494939	G	A	87494939	4	1	664	1	0	0	0	0	0	1	0	0	16089	1095	38	1	532	1	TMEM161B	5	87494939	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4995516	87494939	93420321	262	41572										
ANKRD32	84250	broad.mit.edu	37	chr5	94005883	94005883	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttttcaatgaaagcttttgTcatcaaatttcagaaaatat	4	6	4	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:94005883T>C	ENST00000265140.5	+	13	1979	c.1560T>C	c.(1558-1560)tgT>tgC	p.C520C		NM_032290.3	NP_115666.2	Q9BQI6	ANR32_HUMAN	ankyrin repeat domain 32	520						centrosome (GO:0005813)|nucleus (GO:0005634)				NS(1)|breast(2)|endometrium(2)|large_intestine(1)|lung(3)|ovary(2)|prostate(1)|skin(1)	13		all_cancers(142;1.51e-09)|all_epithelial(76;4.68e-12)|all_lung(232;5.94e-05)|Ovarian(174;0.000953)|Lung NSC(167;0.00105)|Colorectal(57;0.122)|Lung SC(612;0.152)		all cancers(79;3.88e-18)		AAAGCTTTTGTCATCAAATTT	0.323																																																0													83	70	74					5																	94005883		692	1589	2281	SO:0001819	synonymous_variant	84250			AL136560	CCDS4071.2	5q15	2013-01-10			ENSG00000133302	ENSG00000133302		"Ankyrin repeat domain containing"	25408	protein-coding gene	gene with protein product			"BRCT domain containing 1"	BRCTD1			Standard	NM_032290		Approved	DKFZp761C121, DKFZp564C0469	uc003kkr.4	Q9BQI6	OTTHUMG00000121133	ENST00000265140.5:c.1560T>C	5.37:g.94005883T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DMG4|Q3B7K4|Q6NSA5|Q6PHW9|Q9Y402	Silent	SNP	ENST00000265140.5	37	CCDS4071.2																																																																																				0.323	ANKRD32-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241610.1	NM_032290		C	94005883	T	C	94005883	2	2	664	1	0	0	0	0	0	0	0	1	660	1673	58	3		3	ANKRD32	5	94005883	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	6510944	94005883	86909377	263	41573										
NUDT12	83594	mdanderson.org	37	chr5	102895830	102895830	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagccattttcagaagtttcAttgagaagagatggagaatg	11	5	2	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:102895830A>G	ENST00000230792.2	-	2	216	c.120T>C	c.(118-120)aaT>aaC	p.N40N	NUDT12_ENST00000507423.1_Silent_p.N40N	NM_031438.2	NP_113626.1	Q9BQG2	NUD12_HUMAN	nudix (nucleoside diphosphate linked moiety X)-type motif 12	40					NAD catabolic process (GO:0019677)|NADP catabolic process (GO:0006742)	nucleus (GO:0005634)|peroxisome (GO:0005777)	metal ion binding (GO:0046872)|NAD+ diphosphatase activity (GO:0000210)|NADH pyrophosphatase activity (GO:0035529)			endometrium(1)|kidney(1)|large_intestine(2)|liver(1)|lung(6)|urinary_tract(1)	12		all_cancers(142;6.38e-08)|all_epithelial(76;1.99e-10)|Prostate(80;0.0138)|Lung NSC(167;0.0212)|Colorectal(57;0.0247)|all_lung(232;0.0283)|Ovarian(225;0.0423)		Epithelial(69;9.3e-13)|COAD - Colon adenocarcinoma(37;0.0221)		CAGAAGTTTCATTGAGAAGAG	0.413																																																0													135	129	131					5																	102895830		2202	4300	6502	SO:0001819	synonymous_variant	83594			AL136592	CCDS4096.1, CCDS75284.1	5q15	2013-01-10			ENSG00000112874	ENSG00000112874		"Nudix motif containing", "Ankyrin repeat domain containing"	18826	protein-coding gene	gene with protein product	"nucleoside diphosphate linked moiety X-type motif 12"	609232				11230166	Standard	XM_005272095		Approved	DKFZP761I172	uc003koi.3	Q9BQG2	OTTHUMG00000128739	ENST00000230792.2:c.120T>C	5.37:g.102895830A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KUW2|Q8TAL7	Silent	SNP	ENST00000230792.2	37	CCDS4096.1																																																																																				0.413	NUDT12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250650.1	NM_031438		G	102895830	A	G	102895830	2	3	664	1	0	0	0	0	0	0	0	1	10735	214	8	3		3	NUDT12	5	102895830	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	8889947	102895830	78019430	264	41574										
PJA2	9867	ucsc.edu;mdanderson.org	37	chr5	108714549	108714549	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggaactggtggtgaaagaccAgtgtatgcctctgcctctct	12	10	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:108714549A>G	ENST00000361189.2	-	4	878	c.639T>C	c.(637-639)acT>acC	p.T213T	PJA2_ENST00000511624.1_5'Flank|PJA2_ENST00000361557.3_Silent_p.T213T	NM_014819.4	NP_055634.3	O43164	PJA2_HUMAN	praja ring finger 2, E3 ubiquitin protein ligase	213					long-term memory (GO:0007616)|protein ubiquitination (GO:0016567)|regulation of protein kinase A signaling (GO:0010738)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	ligase activity (GO:0016874)|protein kinase A catalytic subunit binding (GO:0034236)|protein kinase A regulatory subunit binding (GO:0034237)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(2)|large_intestine(5)|lung(8)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	21		all_cancers(142;4.4e-06)|all_epithelial(76;8.17e-08)|Prostate(80;0.00676)|Lung NSC(167;0.0436)|Ovarian(225;0.0443)|all_lung(232;0.053)|Colorectal(57;0.0946)|Breast(839;0.151)		OV - Ovarian serous cystadenocarcinoma(64;3.46e-10)|Epithelial(69;6.02e-09)|COAD - Colon adenocarcinoma(37;0.224)		GTGAAAGACCAGTGTATGCCT	0.408																																																0													143	129	134					5																	108714549		2202	4300	6502	SO:0001819	synonymous_variant	9867			AB007898	CCDS4099.1	5q22.1	2013-01-09	2012-02-23	2003-06-05	ENSG00000198961	ENSG00000198961		"RING-type (C3HC4) zinc fingers"	17481	protein-coding gene	gene with protein product			"ring finger protein 131", "praja ring finger 2"	RNF131			Standard	NM_014819		Approved	KIAA0438, Neurodap1	uc003kos.4	O43164	OTTHUMG00000128750	ENST00000361189.2:c.639T>C	5.37:g.108714549A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6U4|D3DSZ5|Q68D49|Q8N1G5	Silent	SNP	ENST00000361189.2	37	CCDS4099.1																																																																																				0.408	PJA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250663.1	NM_014819		G	108714549	A	G	108714549	2	3	664	1	0	0	0	0	0	0	0	1	11969	175	7	3		3	PJA2	5	108714549	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	5818719	108714549	72200711	265	41575										
YTHDC2	64848	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	112902857	112902857	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	actctgagaattgggctgtcGttaaagctgcattggtggca	13	7	1	1	rs149048625		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:112902857G>A	ENST00000161863.4	+	22	3124	c.2911G>A	c.(2911-2913)Gtt>Att	p.V971I		NM_022828.3	NP_073739.3	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	971					ATP catabolic process (GO:0006200)|positive regulation by host of viral genome replication (GO:0044829)|response to interleukin-1 (GO:0070555)|response to tumor necrosis factor (GO:0034612)	endoplasmic reticulum (GO:0005783)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|poly(A) RNA binding (GO:0044822)|RNA polymerase binding (GO:0070063)|RNA-dependent ATPase activity (GO:0008186)			NS(2)|central_nervous_system(2)|cervix(1)|endometrium(2)|kidney(6)|large_intestine(13)|lung(10)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	43		all_cancers(142;7.69e-05)|all_epithelial(76;6.42e-07)|Colorectal(10;0.00278)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Lung NSC(810;0.143)|all_lung(232;0.163)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;7.2e-08)|Epithelial(69;8.83e-08)|all cancers(49;6.9e-06)|COAD - Colon adenocarcinoma(37;0.0458)|Colorectal(14;0.0594)		TTGGGCTGTCGTTAAAGCTGC	0.443																																																0								G	ILE/VAL	0,4404		0,0,2202	153	134	141		2911	4.9	1	5	dbSNP_134	141	1,8599	1.2+/-3.3	0,1,4299	no	missense	YTHDC2	NM_022828.3	29	0,1,6501	AA,AG,GG		0.0116,0.0,0.0077	benign	971/1431	112902857	1,13003	2202	4300	6502	SO:0001583	missense	64848			AK000915	CCDS4113.1	5q22.3	2008-02-05			ENSG00000047188	ENSG00000047188			24721	protein-coding gene	gene with protein product						12477932	Standard	NM_022828		Approved	FLJ2194, FLJ10053, DKFZp564A186	uc003kqn.3	Q9H6S0	OTTHUMG00000128837	ENST00000161863.4:c.2911G>A	5.37:g.112902857G>A	ENSP00000161863:p.Val971Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP66	Missense_Mutation	SNP	ENST00000161863.4	37	CCDS4113.1	.	.	.	.	.	.	.	.	.	.	G	22.7	4.329351	0.81690	0.0	1.16E-4	ENSG00000047188	ENST00000161863;ENST00000511372	T	0.02763	4.17	4.86	4.86	0.63082	Domain of unknown function DUF1605 (1);	0.000000	0.85682	D	0.000000	T	0.04318	0.0119	L	0.33093	0.98	0.80722	D	1	P	0.36944	0.574	B	0.40782	0.34	T	0.60500	-0.7251	10	0.22706	T	0.39	.	18.1593	0.89703	0.0:0.0:1.0:0.0	.	971	Q9H6S0	YTDC2_HUMAN	I	971;881	ENSP00000161863:V971I	ENSP00000161863:V971I	V	+	1	0	YTHDC2	112930756	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	5.612000	0.67681	2.513000	0.84729	0.563000	0.77884	GTT		0.443	YTHDC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250776.2	NM_022828		A	112902857	G	A	112902857	3	1	664	1	0	0	0	0	1	0	0	0	17509	1145	40	1	2997	1	YTHDC2	5	112902857	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4188308	112902857	68012403	266	41576										
CCDC112	153733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	114607065	114607065	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	taattttaacttaaactggcGctggcgttctttctgatgtt	8	7	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:114607065G>A	ENST00000512261.1	-	8	1344	c.928C>T	c.(928-930)Cgc>Tgc	p.R310C	CCDC112_ENST00000506442.1_Missense_Mutation_p.R310C|CCDC112_ENST00000379611.5_Missense_Mutation_p.R393C|CCDC112_ENST00000395557.4_Missense_Mutation_p.R310C			Q8NEF3	CC112_HUMAN	coiled-coil domain containing 112	310										endometrium(2)|kidney(1)|large_intestine(8)|lung(8)|skin(1)	20		all_cancers(142;0.000523)|all_epithelial(76;6.44e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;4.09e-08)|Epithelial(69;5.28e-08)|all cancers(49;7.06e-06)		TTAAACTGGCGCTGGCGTTCT	0.358																																																0													136	144	142					5																	114607065		2202	4300	6502	SO:0001583	missense	153733			BC031242	CCDS4117.1, CCDS34213.1	5q22.3	2009-04-17			ENSG00000164221	ENSG00000164221			28599	protein-coding gene	gene with protein product						12477932	Standard	NM_001040440		Approved	MGC39633	uc003kqz.2	Q8NEF3	OTTHUMG00000128894	ENST00000512261.1:c.928C>T	5.37:g.114607065G>A	ENSP00000423712:p.Arg310Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6A334	Missense_Mutation	SNP	ENST00000512261.1	37	CCDS4117.1	.	.	.	.	.	.	.	.	.	.	G	22.2	4.255077	0.80135	.	.	ENSG00000164221	ENST00000379611;ENST00000512261;ENST00000506442;ENST00000395557	T;T;T;T	0.25085	1.89;1.82;1.82;1.82	6.17	5.29	0.74685	.	0.211814	0.49305	D	0.000146	T	0.42921	0.1224	L	0.54323	1.7	0.47037	D	0.99929	D;D;D	0.76494	0.999;0.999;0.992	P;P;P	0.58130	0.833;0.833;0.752	T	0.39742	-0.9599	10	0.87932	D	0	-4.2486	16.4344	0.83871	0.0:0.0:0.8674:0.1326	.	310;393;310	D6RF76;Q8NEF3-2;Q8NEF3	.;.;CC112_HUMAN	C	393;310;310;310	ENSP00000368931:R393C;ENSP00000423712:R310C;ENSP00000424876:R310C;ENSP00000378925:R310C	ENSP00000368931:R393C	R	-	1	0	CCDC112	114634964	1.000000	0.71417	0.987000	0.45799	0.990000	0.78478	3.114000	0.50383	1.584000	0.49913	0.655000	0.94253	CGC		0.358	CCDC112-003	PUTATIVE	not_organism_supported|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000370999.1	NM_152549		A	114607065	G	A	114607065	3	1	664	1	0	0	0	0	1	0	0	0	2751	1087	38	1	428	1	CCDC112	5	114607065	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1704208	114607065	66308195	267	41577										
DMXL1	1657	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr5	118500256	118500256	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcagtagcagaagaagaacTgctgaacatgttgccagcca	10	10	1	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:118500256T>C	ENST00000311085.8	+	20	4837	c.4757T>C	c.(4756-4758)cTg>cCg	p.L1586P	DMXL1_ENST00000539542.1_Missense_Mutation_p.L1586P	NM_005509.4	NP_005500.4	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1586										breast(3)|central_nervous_system(1)|endometrium(14)|kidney(4)|large_intestine(20)|liver(6)|lung(28)|ovary(2)|prostate(5)|skin(2)|upper_aerodigestive_tract(1)	86		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)		GAAGAAGAACTGCTGAACATG	0.433																																																0													109	105	106					5																	118500256		2202	4300	6502	SO:0001583	missense	1657			AJ005821	CCDS4125.1, CCDS75289.1	5q22	2013-01-10			ENSG00000172869	ENSG00000172869		"WD repeat domain containing"	2937	protein-coding gene	gene with protein product		605671				10708522	Standard	NM_005509		Approved		uc003ksd.2	Q9Y485	OTTHUMG00000128898	ENST00000311085.8:c.4757T>C	5.37:g.118500256T>C	ENSP00000309690:p.Leu1586Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000311085.8	37	CCDS4125.1	.	.	.	.	.	.	.	.	.	.	T	24.9	4.576757	0.86645	.	.	ENSG00000172869	ENST00000311085;ENST00000539542	T;T	0.70986	-0.53;-0.53	5.6	5.6	0.85130	.	0.000000	0.85682	D	0.000000	D	0.87771	0.6261	M	0.92923	3.36	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.998;0.999	D	0.90772	0.4673	10	0.87932	D	0	-5.389	15.7828	0.78275	0.0:0.0:0.0:1.0	.	1586;1586	F5H269;Q9Y485	.;DMXL1_HUMAN	P	1586	ENSP00000309690:L1586P;ENSP00000439479:L1586P	ENSP00000309690:L1586P	L	+	2	0	DMXL1	118528155	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	7.977000	0.88081	2.125000	0.65367	0.482000	0.46254	CTG		0.433	DMXL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250862.1	NM_005509		C	118500256	T	C	118500256	3	2	664	1	0	0	0	0	1	0	0	0	4596	1580	55	3	4835	3	DMXL1	5	118500256	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	3893191	118500256	62415004	268	41578										
FTMT	94033	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr5	121188112	121188112	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcaagaagccggaacaggacGactgggaaagcgggctgcat	15	9	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:121188112G>A	ENST00000321339.1	+	1	463	c.454G>A	c.(454-456)Gac>Aac	p.D152N		NM_177478.1	NP_803431.1	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial	152	Ferritin-like diiron. {ECO:0000255|PROSITE-ProRule:PRU00085}.				cellular iron ion homeostasis (GO:0006879)|iron ion transport (GO:0006826)|positive regulation of cell proliferation (GO:0008284)|positive regulation of lyase activity (GO:0051349)|positive regulation of oxidoreductase activity (GO:0051353)|positive regulation of transferase activity (GO:0051347)	mitochondrion (GO:0005739)|nucleus (GO:0005634)	ferric iron binding (GO:0008199)|ferroxidase activity (GO:0004322)			NS(1)|breast(1)|endometrium(3)|kidney(1)|large_intestine(6)|lung(15)|ovary(1)|skin(4)|upper_aerodigestive_tract(1)	33		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)		GGAACAGGACGACTGGGAAAG	0.587																																																0													90	88	89					5																	121188112		2203	4300	6503	SO:0001583	missense	94033			BC034419	CCDS4128.1	5q23.1	2008-02-05			ENSG00000181867	ENSG00000181867			17345	protein-coding gene	gene with protein product		608847				11323407	Standard	NM_177478		Approved	MtF	uc003kss.3	Q8N4E7	OTTHUMG00000128912	ENST00000321339.1:c.454G>A	5.37:g.121188112G>A	ENSP00000313691:p.Asp152Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000321339.1	37	CCDS4128.1	.	.	.	.	.	.	.	.	.	.	G	11.96	1.793247	0.31685	.	.	ENSG00000181867	ENST00000321339	T	0.68181	-0.31	3.6	-0.168	0.13343	Ferritin/ribonucleotide reductase-like (1);Ferritin-related (1);Ferritin/DPS protein domain (1);Ferritin-like (1);	0.209784	0.38837	N	0.001553	T	0.59473	0.2196	M	0.70275	2.135	0.25718	N	0.985403	B	0.14805	0.011	B	0.18263	0.021	T	0.54430	-0.8295	10	0.52906	T	0.07	.	7.1071	0.25370	0.5427:0.0:0.4573:0.0	.	152	Q8N4E7	FTMT_HUMAN	N	152	ENSP00000313691:D152N	ENSP00000313691:D152N	D	+	1	0	FTMT	121216011	1.000000	0.71417	0.260000	0.24451	0.985000	0.73830	2.184000	0.42575	-0.062000	0.13088	0.655000	0.94253	GAC		0.587	FTMT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250884.1	NM_177478		A	121188112	G	A	121188112	3	1	664	1	0	0	0	0	1	0	0	0	6092	1058	37	1	456	1	FTMT	5	121188112	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2687856	121188112	59727148	269	41579										
SIL1	64374	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	138287496	138287496	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccttcttctttgcagtgagcGgctgctccgtggccaggatg	13	12	2	1	rs201546394	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:138287496G>A	ENST00000394817.2	-	8	984	c.845C>T	c.(844-846)cCg>cTg	p.P282L	SIL1_ENST00000265195.5_Missense_Mutation_p.P282L|SIL1_ENST00000509534.1_Missense_Mutation_p.P289L|SIL1_ENST00000515008.1_5'UTR	NM_022464.4	NP_071909.1	Q9H173	SIL1_HUMAN	SIL1 nucleotide exchange factor	282					intracellular protein transport (GO:0006886)|protein folding (GO:0006457)	endoplasmic reticulum (GO:0005783)|extracellular space (GO:0005615)	unfolded protein binding (GO:0051082)			endometrium(4)|kidney(1)|large_intestine(3)|lung(4)|urinary_tract(1)	13			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TGCAGTGAGCGGCTGCTCCGT	0.617									Marinesco-Sjgren syndrome				G|||	4	0.000798722	0.0	0.0	5008	,	,		19521	0.004		0.0	False		,,,				2504	0.0															0													132	113	119					5																	138287496		2203	4300	6503	SO:0001583	missense	64374	Familial Cancer Database	Marinesco-Sjogren syndrome	AK075177	CCDS4209.1	5q31	2013-08-21	2013-08-21		ENSG00000120725	ENSG00000120725			24624	protein-coding gene	gene with protein product		608005	"Marinesco-Sjogren syndrome", "SIL1 homolog, endoplasmic reticulum chaperone (S. cerevisiae)"	MSS		11101517, 12356756, 16282977	Standard	XM_006714671		Approved	BAP, ULG5	uc003ldp.3	Q9H173	OTTHUMG00000129226	ENST00000394817.2:c.845C>T	5.37:g.138287496G>A	ENSP00000378294:p.Pro282Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQC2|Q8N2L3	Missense_Mutation	SNP	ENST00000394817.2	37	CCDS4209.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	G	17.21	3.332730	0.60853	.	.	ENSG00000120725	ENST00000394817;ENST00000265195;ENST00000509534	T;T;T	0.51574	0.7;0.7;0.7	4.75	4.75	0.60458	Armadillo-like helical (1);Armadillo-type fold (1);	0.182869	0.48767	D	0.000174	T	0.55577	0.1929	L	0.56769	1.78	0.80722	D	1	D;D	0.67145	0.996;0.991	P;P	0.53401	0.725;0.676	T	0.56050	-0.8043	10	0.42905	T	0.14	-6.8693	14.6129	0.68529	0.0:0.0:1.0:0.0	.	289;282	D6REA1;Q9H173	.;SIL1_HUMAN	L	282;282;289	ENSP00000378294:P282L;ENSP00000265195:P282L;ENSP00000426858:P289L	ENSP00000265195:P282L	P	-	2	0	SIL1	138315395	1.000000	0.71417	0.990000	0.47175	0.228000	0.25075	3.288000	0.51739	2.471000	0.83476	0.655000	0.94253	CCG		0.617	SIL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251319.1	NM_022464		A	138287496	G	A	138287496	3	1	664	1	0	0	0	0	1	0	0	0	14334	1116	39	1	552	1	SIL1	5	138287496	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	17099384	138287496	42627764	270	41580										
NRG2	9542	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr5	139251392	139251392	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctgtctcgttgcacttccgGgcgtgccccgaccaggatga	13	14	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:139251392G>T	ENST00000361474.1	-	4	1250	c.1026C>A	c.(1024-1026)gcC>gcA	p.A342A	NRG2_ENST00000394770.1_Silent_p.A342A|NRG2_ENST00000545385.1_Silent_p.A342A|NRG2_ENST00000358522.3_Silent_p.A342A|NRG2_ENST00000518130.1_5'UTR|NRG2_ENST00000541337.1_Intron|NRG2_ENST00000340391.3_Silent_p.A139A|NRG2_ENST00000289422.7_Silent_p.A342A|NRG2_ENST00000289409.4_Silent_p.A342A	NM_004883.2	NP_004874.1	O14511	NRG2_HUMAN	neuregulin 2	342	EGF-like. {ECO:0000255|PROSITE- ProRule:PRU00076}.				embryo development (GO:0009790)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|signal transduction (GO:0007165)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	receptor binding (GO:0005102)			breast(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(5)|ovary(1)|pancreas(2)|prostate(1)|skin(1)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(1)	25			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCACTTCCGGGCGTGCCCCG	0.562																																																0													164	123	137					5																	139251392		2203	4300	6503	SO:0001819	synonymous_variant	9542				CCDS4217.1, CCDS54910.1	5q23-q33	2013-01-11			ENSG00000158458	ENSG00000158458		"Immunoglobulin superfamily / I-set domain containing"	7998	protein-coding gene	gene with protein product	"neural- and thymus-derived activator for ErbB kinases", "divergent of neuregulin-1"	603818				9168114, 9168115	Standard	NM_004883		Approved	Don-1, NTAK, HRG2	uc003lev.2	O14511	OTTHUMG00000129241	ENST00000361474.1:c.1026C>A	5.37:g.139251392G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000361474.1	37	CCDS4217.1																																																																																				0.562	NRG2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000251340.1	NM_013982		T	139251392	G	T	139251392	2	4	664	1	0	0	0	0	0	0	0	1	10655	1219	43	4		4	NRG2	5	139251392	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	963896	139251392	41663868	271	41581										
ANKHD1	54882	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	139815782	139815782	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caagtactgcagaaggagcaGacttacgcactgtggatcca	11	10	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:139815782G>A	ENST00000360839.2	+	2	554	c.400G>A	c.(400-402)Gac>Aac	p.D134N	ANKHD1_ENST00000394723.3_Missense_Mutation_p.D134N|ANKHD1_ENST00000394722.3_Missense_Mutation_p.D134N|ANKHD1-EIF4EBP3_ENST00000532219.1_Missense_Mutation_p.D134N|ANKHD1_ENST00000297183.6_Missense_Mutation_p.D134N	NM_017747.2	NP_060217.1	Q8IWZ3	ANKH1_HUMAN	ankyrin repeat and KH domain containing 1	134						cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			breast(2)|endometrium(8)|kidney(6)|large_intestine(14)|lung(18)|ovary(5)|prostate(2)|skin(3)|urinary_tract(2)	60			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAAGGAGCAGACTTACGCAC	0.368																																																0													90	92	91					5																	139815782		2203	4300	6503	SO:0001583	missense	54882			AF521882	CCDS4225.1, CCDS43371.1, CCDS43372.1, CCDS75319.1	5q31.3	2013-01-10			ENSG00000131503	ENSG00000131503		"Ankyrin repeat domain containing"	24714	protein-coding gene	gene with protein product		610500				10470851, 11230166, 16098192	Standard	NM_017747		Approved	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085		Q8IWZ3	OTTHUMG00000161610	ENST00000360839.2:c.400G>A	5.37:g.139815782G>A	ENSP00000354085:p.Asp134Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A6NH85|Q149P2|Q8IWZ2|Q8WY90|Q96G77|Q96GK0|Q9H2U0|Q9HA95|Q9NWG4|Q9UPR7	Missense_Mutation	SNP	ENST00000360839.2	37	CCDS4225.1	.	.	.	.	.	.	.	.	.	.	G	24.4	4.529525	0.85706	.	.	ENSG00000131503;ENSG00000131503;ENSG00000131503;ENSG00000131503;ENSG00000131503;ENSG00000131503;ENSG00000131503;ENSG00000131503;ENSG00000254996	ENST00000360839;ENST00000422011;ENST00000297183;ENST00000253810;ENST00000421134;ENST00000394723;ENST00000511151;ENST00000394722;ENST00000532219	T;T;T;T;T;T;T	0.72835	-0.68;-0.69;-0.67;-0.32;-0.42;-0.2;-0.69	5.47	5.47	0.80525	.	0.000000	0.85682	D	0.000000	T	0.76147	0.3947	N	0.24115	0.695	0.80722	D	1	D;D;D;P;B	0.69078	0.968;0.997;0.997;0.936;0.314	P;D;D;P;B	0.77004	0.856;0.989;0.989;0.755;0.121	T	0.76141	-0.3068	10	0.39692	T	0.17	.	19.344	0.94356	0.0:0.0:1.0:0.0	.	134;134;134;134;134	Q8IWZ3-5;Q8IWZ2;Q8IWZ3;Q8IWZ3-3;Q8IWZ3-2	.;.;ANKH1_HUMAN;.;.	N	134;148;134;134;134;134;134;134;134	ENSP00000354085:D134N;ENSP00000297183:D134N;ENSP00000394489:D134N;ENSP00000378212:D134N;ENSP00000421069:D134N;ENSP00000378211:D134N;ENSP00000432016:D134N	ENSP00000432016:D134N	D	+	1	0	ANKHD1-EIF4EBP3;ANKHD1	139795966	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.809000	0.99208	2.534000	0.85438	0.655000	0.94253	GAC		0.368	ANKHD1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000251672.1	NM_017747		A	139815782	G	A	139815782	3	1	664	1	0	0	0	0	1	0	0	0	628	942	33	2	406	2	ANKHD1	5	139815782	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	564390	139815782	41099478	272	41582										
PCDHA6	56142	broad.mit.edu	37	chr5	140209042	140209042	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atgacaatgctccggcgttcGcgcagcccgagtacacagtg	12	13	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:140209042G>A	ENST00000529310.1	+	1	1480	c.1366G>A	c.(1366-1368)Gcg>Acg	p.A456T	PCDHA5_ENST00000529619.1_Intron|PCDHA2_ENST00000526136.1_Intron|PCDHA1_ENST00000504120.2_Intron|PCDHA5_ENST00000529859.1_Intron|PCDHA4_ENST00000512229.2_Intron|PCDHA3_ENST00000522353.2_Intron|PCDHA6_ENST00000527624.1_Missense_Mutation_p.A456T|PCDHA1_ENST00000394633.3_Intron|PCDHA4_ENST00000530339.1_Intron	NM_018909.2|NM_031848.2|NM_031849.1	NP_061732.1|NP_114036.1|NP_114037.1	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6	456	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(11)|lung(42)|prostate(8)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	89			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCGGCGTTCGCGCAGCCCGA	0.657																																																0													52	59	56					5																	140209042		2203	4300	6503	SO:0001583	missense	56142			AF152484	CCDS47281.1, CCDS47282.1	5q31	2010-11-26			ENSG00000081842	ENSG00000081842		"Cadherins / Protocadherins : Clustered"	8672	other	complex locus constituent	"KIAA0345-like 8"	606312		CNRS2		10380929, 10662547	Standard	NM_018909		Approved	CNR2, CRNR2, PCDH-ALPHA6		Q9UN73	OTTHUMG00000163353	ENST00000529310.1:c.1366G>A	5.37:g.140209042G>A	ENSP00000433378:p.Ala456Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O75283|Q9NRT8	Missense_Mutation	SNP	ENST00000529310.1	37	CCDS47281.1	.	.	.	.	.	.	.	.	.	.	G	0.141	-1.101871	0.01828	.	.	ENSG00000081842	ENST00000529310;ENST00000527624	T;T	0.01359	4.98;4.98	3.55	1.67	0.24075	Cadherin (3);Cadherin-like (1);	0.220936	0.22040	U	0.065461	T	0.01029	0.0034	N	0.12569	0.235	0.09310	N	1	B;B;B	0.24823	0.018;0.091;0.112	B;B;B	0.28011	0.085;0.025;0.043	T	0.48822	-0.9001	10	0.42905	T	0.14	.	6.2726	0.20963	0.0816:0.1306:0.6539:0.1338	.	456;456;456	Q9UN73-3;Q9UN73;Q9UN73-2	.;PCDA6_HUMAN;.	T	456	ENSP00000433378:A456T;ENSP00000434113:A456T	ENSP00000434113:A456T	A	+	1	0	PCDHA6	140189226	0.000000	0.05858	0.609000	0.28983	0.003000	0.03518	-1.403000	0.02497	-0.001000	0.14495	-1.786000	0.00637	GCG		0.657	PCDHA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372829.3	NM_018909		A	140209042	G	A	140209042	3	1	664	1	0	0	0	0	1	0	0	0	11535	1087	38	1	1368	1	PCDHA6	5	140209042	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	393260	140209042	40706218	273	41583										
PCDHA8	56140	hgsc.bcm.edu;mdanderson.org	37	chr5	140222343	140222343	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cacatcttcacggtgtctgcGcgagacgcggacgcgcagga	14	13	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:140222343G>A	ENST00000531613.1	+	1	1437	c.1437G>A	c.(1435-1437)gcG>gcA	p.A479A	PCDHA6_ENST00000529310.1_Intron|PCDHA5_ENST00000529619.1_Intron|PCDHA7_ENST00000525929.1_Intron|PCDHA2_ENST00000526136.1_Intron|PCDHA1_ENST00000504120.2_Intron|PCDHA5_ENST00000529859.1_Intron|PCDHA4_ENST00000512229.2_Intron|PCDHA3_ENST00000522353.2_Intron|PCDHA6_ENST00000527624.1_Intron|PCDHA8_ENST00000378123.3_Silent_p.A479A|PCDHA1_ENST00000394633.3_Intron|PCDHA4_ENST00000530339.1_Intron	NM_018911.2	NP_061734.1	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8	479	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			NS(2)|breast(3)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(10)|lung(31)|ovary(2)|prostate(2)|skin(4)|stomach(2)|upper_aerodigestive_tract(6)	78			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGTGTCTGCGCGAGACGCGG	0.657																																																0													44	49	47					5																	140222343		2195	4260	6455	SO:0001819	synonymous_variant	56140			AF152486	CCDS54919.1	5q31	2010-11-26				ENSG00000204962		"Cadherins / Protocadherins : Clustered"	8674	other	complex locus constituent	"KIAA0345-like 6"	606314				10380929	Standard	NM_018911		Approved			Q9Y5H6		ENST00000531613.1:c.1437G>A	5.37:g.140222343G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B9EGT7|O75281	Silent	SNP	ENST00000531613.1	37	CCDS54919.1																																																																																				0.657	PCDHA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372830.2	NM_018911		A	140222343	G	A	140222343	2	1	664	1	0	0	0	0	0	0	0	1	11537	1074	38	1		1	PCDHA8	5	140222343	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	13301	140222343	40692917	274	41584										
PCDHA9	9752	hgsc.bcm.edu;mdanderson.org	37	chr5	140229541	140229541	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gacgctgacgcgcaggagaaCgccctggtgtcctactcgct	13	14	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:140229541C>T	ENST00000532602.1	+	1	2494	c.1461C>T	c.(1459-1461)aaC>aaT	p.N487N	PCDHA8_ENST00000531613.1_Intron|PCDHA9_ENST00000378122.3_Silent_p.N487N|PCDHA6_ENST00000529310.1_Intron|PCDHA5_ENST00000529619.1_Intron|PCDHA7_ENST00000525929.1_Intron|PCDHA2_ENST00000526136.1_Intron|PCDHA1_ENST00000504120.2_Intron|PCDHA5_ENST00000529859.1_Intron|PCDHA4_ENST00000512229.2_Intron|PCDHA3_ENST00000522353.2_Intron|PCDHA6_ENST00000527624.1_Intron|PCDHA1_ENST00000394633.3_Intron|PCDHA4_ENST00000530339.1_Intron	NM_031857.1	NP_114063.1	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9	487	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(1)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(17)|lung(18)|ovary(4)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	59			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCAGGAGAACGCCCTGGTGT	0.667																																					Melanoma(55;1800 1972 14909)											0													55	63	60					5																	140229541		2194	4269	6463	SO:0001819	synonymous_variant	9752			AF152487	CCDS54920.1	5q31	2010-11-26				ENSG00000204961		"Cadherins / Protocadherins : Clustered"	8675	other	complex locus constituent	"KIAA0345-like 5"	606315				10380929	Standard	NM_031857		Approved	KIAA0345, PCDH-ALPHA9		Q9Y5H5		ENST00000532602.1:c.1461C>T	5.37:g.140229541C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O15053|Q2M3S5	Silent	SNP	ENST00000532602.1	37	CCDS54920.1																																																																																				0.667	PCDHA9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372896.2	NM_031857		T	140229541	C	T	140229541	2	4	664	1	0	0	0	0	0	0	0	1	11538	535	19	1		1	PCDHA9	5	140229541	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	7198	140229541	40685719	275	41585										
PCDHA11	56138	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr5	140250128	140250128	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttcacagtgtcggcgcgggaCgcggacgcgcaggagaacgc	17	12	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:140250128C>T	ENST00000398640.2	+	1	1440	c.1440C>T	c.(1438-1440)gaC>gaT	p.D480D	PCDHA4_ENST00000512229.2_Intron|PCDHA3_ENST00000522353.2_Intron|PCDHA5_ENST00000529619.1_Intron|PCDHA6_ENST00000529310.1_Intron|PCDHA7_ENST00000525929.1_Intron|PCDHA5_ENST00000529859.1_Intron|PCDHA6_ENST00000527624.1_Intron|PCDHA4_ENST00000530339.1_Intron|PCDHA8_ENST00000531613.1_Intron|PCDHA1_ENST00000394633.3_Intron|PCDHA10_ENST00000307360.5_Intron|PCDHA2_ENST00000526136.1_Intron|PCDHA1_ENST00000504120.2_Intron|PCDHA10_ENST00000506939.2_Intron|PCDHA9_ENST00000532602.1_Intron	NM_018902.3	NP_061725.1	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11	480	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			breast(1)|lung(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGCGCGGGACGCGGACGCGC	0.662																																																0													91	95	94					5																	140250128		2203	4300	6503	SO:0001819	synonymous_variant	56138			AF152476	CCDS47284.1, CCDS75326.1	5q31	2010-11-26			ENSG00000249158	ENSG00000249158		"Cadherins / Protocadherins : Clustered"	8665	other	complex locus constituent	"KIAA0345-like 3", "ortholog of mouse CNR7"	606317		CNRS7		10380929, 10662547	Standard	NM_018902		Approved	CNR7, CRNR7, CNRN7, PCDH-ALPHA11		Q9Y5I1	OTTHUMG00000163369	ENST00000398640.2:c.1440C>T	5.37:g.140250128C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RN58|O75279	Silent	SNP	ENST00000398640.2	37	CCDS47284.1																																																																																				0.662	PCDHA11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372885.2	NM_018902		T	140250128	C	T	140250128	2	4	664	1	0	0	0	0	0	0	0	1	11528	535	19	1		1	PCDHA11	5	140250128	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	20587	140250128	40665132	276	41586										
PCDHB8	56128	mdanderson.org	37	chr5	140559320	140559320	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgctgtacccgctgcagaatGgctccgcgccctgcaccgag	12	16	0	1	rs17844498	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:140559320G>A	ENST00000239444.2	+	1	1950	c.1705G>A	c.(1705-1707)Ggc>Agc	p.G569S	PCDHB16_ENST00000361016.2_5'Flank	NM_019120.3	NP_061993.2	Q9UN66	PCDB8_HUMAN	protocadherin beta 8	569	Cadherin 6. {ECO:0000255|PROSITE- ProRule:PRU00043}.			G -> S (in Ref. 4; AAG10031). {ECO:0000305}.	homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(2)|breast(1)|cervix(2)|endometrium(5)|kidney(6)|large_intestine(14)|liver(1)|lung(38)|prostate(6)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(2)	83			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTGCAGAATGGCTCCGCGCC	0.716													g|||	2327	0.464657	0.4826	0.5	5008	,	,		18920	0.5625		0.3857	False		,,,				2504	0.3957															0													15	26	22					5																	140559320		2189	4273	6462	SO:0001583	missense	56128			AF152501	CCDS4250.1	5q31	2010-01-26			ENSG00000120322	ENSG00000120322		"Cadherins / Protocadherins : Clustered"	8693	other	protocadherin		606334				10380929	Standard	NM_019120		Approved	PCDH-BETA8, PCDH3I	uc011dai.2	Q9UN66	OTTHUMG00000129621	ENST00000239444.2:c.1705G>A	5.37:g.140559320G>A	ENSP00000239444:p.Gly569Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGV1	Missense_Mutation	SNP	ENST00000239444.2	37	CCDS4250.1	962	0.44047619047619047	215	0.4369918699186992	163	0.45027624309392267	320	0.5594405594405595	264	0.3482849604221636	G	6.532	0.466426	0.12402	.	.	ENSG00000120322	ENST00000239444	T	0.60797	0.16	4.22	2.36	0.29203	Cadherin-like (1);	.	.	.	.	T	0.00012	0.0000	N	0.21448	0.665	0.80722	P	0.0	B	0.11235	0.004	B	0.20767	0.031	T	0.45687	-0.9244	8	0.45353	T	0.12	.	8.2304	0.31595	0.2825:0.0:0.7175:0.0	rs17844498	569	Q9UN66	PCDB8_HUMAN	S	569	ENSP00000239444:G569S	ENSP00000239444:G569S	G	+	1	0	PCDHB8	140539504	0.000000	0.05858	0.335000	0.25508	0.491000	0.33493	0.188000	0.17018	0.235000	0.21160	-0.706000	0.03657	GGC		0.716	PCDHB8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251816.2	NM_019120		A	140559320	G	A	140559320	3	1	664	1	0	0	0	0	1	0	0	0	11555	1348	47	2	1707	2	PCDHB8	5	140559320	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	309192	140559320	40355940	277	41587										
PCDHGA4	56111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	140735119	140735119	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagatacagtgaagattttgCgggtagaggtggaaataatc	13	3	0	4	rs182004159	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:140735119C>T	ENST00000571252.1	+	1	352	c.352C>T	c.(352-354)Cgg>Tgg	p.R118W	PCDHGA2_ENST00000394576.2_Intron|PCDHGA1_ENST00000517417.1_Intron|PCDHGB1_ENST00000523390.1_Intron|PCDHGA3_ENST00000253812.6_Intron	NM_018917.2	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4	118	Cadherin 1. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			endometrium(1)|kidney(1)|lung(3)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAAGATTTTGCGGGTAGAGGT	0.458																																																0													52	55	54					5																	140735119		1938	4172	6110	SO:0001583	missense	56111			AF152511	CCDS58979.1, CCDS58979.2, CCDS75331.1	5q31	2010-01-26						"Cadherins / Protocadherins : Clustered"	8702	other	protocadherin		606291				10380929	Standard	NM_018917		Approved	PCDH-GAMMA-A4		Q9Y5G9		ENST00000571252.1:c.352C>T	5.37:g.140735119C>T	ENSP00000458570:p.Arg118Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q9Y5D3	Missense_Mutation	SNP	ENST00000571252.1	37	CCDS58979.1																																																																																				0.458	PCDHGA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437959.1	NM_018917		T	140735119	C	T	140735119	3	4	664	1	0	0	0	0	1	0	0	0	11563	759	27	1	354	1	PCDHGA4	5	140735119	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	175799	140735119	40180141	278	41588										
PCDHGB2	56103	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	140740942	140740942	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acggcgctctggaccgggagGagatcccagaatacaatctc	12	12	2	2	rs267600451		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:140740942G>A	ENST00000522605.1	+	1	1240	c.1240G>A	c.(1240-1242)Gag>Aag	p.E414K	PCDHGA4_ENST00000571252.1_Intron|PCDHGA2_ENST00000394576.2_Intron|PCDHGA1_ENST00000517417.1_Intron|PCDHGA5_ENST00000518069.1_5'Flank|PCDHGB1_ENST00000523390.1_Intron|PCDHGA3_ENST00000253812.6_Intron	NM_018923.2|NM_032096.1	NP_061746.1|NP_115267.1	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2	414	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			endometrium(1)|kidney(1)|large_intestine(5)|lung(3)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	14			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGACCGGGAGGAGATCCCAGA	0.502																																																0													73	82	79					5																	140740942		2010	4158	6168	SO:0001583	missense	56103			AF152331	CCDS54924.1, CCDS75332.1	5q31	2010-01-26				ENSG00000253910		"Cadherins / Protocadherins : Clustered"	8709	other	protocadherin		606300				10380929	Standard	NM_018923		Approved	PCDH-GAMMA-B2		Q9Y5G2		ENST00000522605.1:c.1240G>A	5.37:g.140740942G>A	ENSP00000429018:p.Glu414Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MIJ3|Q9UN65	Missense_Mutation	SNP	ENST00000522605.1	37	CCDS54924.1	.	.	.	.	.	.	.	.	.	.	.	0.006	-2.043203	0.00398	.	.	ENSG00000253910	ENST00000522605	T	0.01725	4.67	5.3	-0.3	0.12804	Cadherin (4);Cadherin-like (1);	.	.	.	.	T	0.01523	0.0049	N	0.21324	0.655	0.09310	N	1	B;B	0.14012	0.002;0.009	B;B	0.11329	0.003;0.006	T	0.46952	-0.9154	9	0.13108	T	0.6	.	12.16	0.54099	0.1306:0.6011:0.2683:0.0	.	414;414	Q9Y5G2-2;Q9Y5G2	.;PCDGE_HUMAN	K	414	ENSP00000429018:E414K	ENSP00000429018:E414K	E	+	1	0	PCDHGB2	140721126	0.000000	0.05858	0.664000	0.29753	0.035000	0.12851	-0.204000	0.09425	0.016000	0.14998	-0.176000	0.13171	GAG		0.502	PCDHGB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374741.1	NM_018923		A	140740942	G	A	140740942	3	1	664	1	0	0	0	0	1	0	0	0	11570	1175	41	2	1242	2	PCDHGB2	5	140740942	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5823	140740942	40174318	279	41589										
PCDHGB3	56102	broad.mit.edu	37	chr5	140750096	140750096	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaggagctggacaggggctcGctggtagggaacctcgccaa	17	10	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:140750096G>A	ENST00000576222.1	+	1	266	c.135G>A	c.(133-135)tcG>tcA	p.S45S	PCDHGA4_ENST00000571252.1_Intron|PCDHGA2_ENST00000394576.2_Intron|PCDHGA1_ENST00000517417.1_Intron|PCDHGA5_ENST00000518069.1_Intron|PCDHGB1_ENST00000523390.1_Intron|PCDHGB2_ENST00000522605.1_Intron|PCDHGA3_ENST00000253812.6_Intron	NM_018924.2|NM_032097.1	NP_061747.1|NP_115268.1	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3	45	Cadherin 1. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			endometrium(1)|kidney(1)|lung(3)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAGGGGCTCGCTGGTAGGGA	0.552																																																0													73	82	79					5																	140750096		1865	4098	5963	SO:0001819	synonymous_variant	56102			AF152519	CCDS58980.1, CCDS75334.1	5q31	2010-01-26						"Cadherins / Protocadherins : Clustered"	8710	other	protocadherin		606301				10380929	Standard	NM_018924		Approved	PCDH-GAMMA-B3		Q9Y5G1		ENST00000576222.1:c.135G>A	5.37:g.140750096G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A7E229|Q9Y5C7	Silent	SNP	ENST00000576222.1	37	CCDS58980.1																																																																																				0.552	PCDHGB3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437094.1	NM_018924		A	140750096	G	A	140750096	2	1	664	1	0	0	0	0	0	0	0	1	11571	1074	38	1		1	PCDHGB3	5	140750096	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	9154	140750096	40165164	280	41590										
PCDHGB5	56102	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr5	140779700	140779700	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagcttgcaggaggtgctgcCggatatcactgaccgccctg	13	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:140779700C>T	ENST00000576222.1	+	1	2546				PCDHGB1_ENST00000523390.1_Intron|PCDHGB4_ENST00000519479.1_Intron|PCDHGB2_ENST00000522605.1_Intron|PCDHGA9_ENST00000573521.1_5'Flank|PCDHGA7_ENST00000518325.1_Intron|PCDHGA2_ENST00000394576.2_Intron|PCDHGA6_ENST00000517434.1_Intron|PCDHGA4_ENST00000571252.1_Intron|PCDHGA1_ENST00000517417.1_Intron|PCDHGA8_ENST00000398604.2_Intron|PCDHGA5_ENST00000518069.1_Intron|PCDHGA3_ENST00000253812.6_Intron	NM_018924.2|NM_032097.1	NP_061747.1|NP_115268.1	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3						homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			endometrium(1)|kidney(1)|lung(3)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGGTGCTGCCGGATATCACT	0.622																																																0													146	157	154					5																	140779700		2180	4263	6443	SO:0001627	intron_variant	56101			AF152519	CCDS58980.1, CCDS75334.1	5q31	2010-01-26						"Cadherins / Protocadherins : Clustered"	8710	other	protocadherin		606301				10380929	Standard	NM_018924		Approved	PCDH-GAMMA-B3		Q9Y5G1		ENST00000576222.1:c.2415+27324C>T	5.37:g.140779700C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7E229|Q9Y5C7	Missense_Mutation	SNP	ENST00000576222.1	37	CCDS58980.1																																																																																				0.622	PCDHGB3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437094.1	NM_018924		T	140779700	C	T	140779700	1	4	664	0	1	0	0	0	0	0	0	0	11573	652	23	1		1	PCDHGB5	5	140779700	Intron	SNP	C	TCGA-KN-8428-01A-11D-2310-10	29604	140779700	40135560	281	41591										
RELL2	285613	broad.mit.edu	37	chr5	141019122	141019122	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccccttgcctccattgcagcCgcagcaagaggcctccactt	8	18	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:141019122C>T	ENST00000297164.3	+	4	1609	c.409C>T	c.(409-411)Cgc>Tgc	p.R137C	RELL2_ENST00000444782.1_Missense_Mutation_p.R137C|RELL2_ENST00000518856.1_Missense_Mutation_p.R71C|HDAC3_ENST00000305264.3_5'Flank|FCHSD1_ENST00000523856.1_5'UTR|RELL2_ENST00000521367.1_Missense_Mutation_p.R71C|RELL2_ENST00000518025.1_3'UTR|FCHSD1_ENST00000435817.2_3'UTR	NM_173828.4	NP_776189.3	Q8NC24	RELL2_HUMAN	RELT-like 2	137					positive regulation of cell-substrate adhesion (GO:0010811)	basement membrane (GO:0005604)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				large_intestine(2)|lung(5)|prostate(1)|upper_aerodigestive_tract(1)	9			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCATTGCAGCCGCAGCAAGAG	0.647																																																0													42	44	43					5																	141019122		2202	4300	6502	SO:0001583	missense	285613			AK054889	CCDS4265.1	5q31.3	2011-10-11	2007-06-15	2007-06-15	ENSG00000164620	ENSG00000164620			26902	protein-coding gene	gene with protein product		611213	"chromosome 5 open reading frame 16"	C5orf16		12975309, 16389068	Standard	NM_173828		Approved	FLJ90583	uc003lli.3	Q8NC24	OTTHUMG00000129612	ENST00000297164.3:c.409C>T	5.37:g.141019122C>T	ENSP00000297164:p.Arg137Cys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQE2|Q6P4E7|Q6UXY2	Missense_Mutation	SNP	ENST00000297164.3	37	CCDS4265.1	.	.	.	.	.	.	.	.	.	.	C	19.47	3.833101	0.71258	.	.	ENSG00000164620	ENST00000444782;ENST00000521367;ENST00000297164;ENST00000518856	T;T;T;T	0.36157	1.27;1.27;1.27;1.27	5.7	5.7	0.88788	.	0.502118	0.19074	N	0.123434	T	0.49490	0.1560	L	0.40543	1.245	0.80722	D	1	D;D	0.89917	1.0;1.0	D;P	0.63703	0.917;0.869	T	0.46247	-0.9205	10	0.87932	D	0	-12.8261	14.2977	0.66325	0.1858:0.8142:0.0:0.0	.	71;137	E5RHA7;Q8NC24	.;RELL2_HUMAN	C	137;71;137;71	ENSP00000409443:R137C;ENSP00000430948:R71C;ENSP00000297164:R137C;ENSP00000427992:R71C	ENSP00000297164:R137C	R	+	1	0	RELL2	140999306	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.731000	0.55013	2.683000	0.91414	0.655000	0.94253	CGC		0.647	RELL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251807.2	NM_173828		T	141019122	C	T	141019122	3	4	664	1	0	0	0	0	1	0	0	0	13232	652	23	1	423	1	RELL2	5	141019122	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	239422	141019122	39896138	282	41592										
PCDH1	5097	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	141233894	141233894	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcgctgctcttggtccggcGgctgggagatgactggccag	18	11	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:141233894G>A	ENST00000287008.3	-	5	3574	c.3427C>T	c.(3427-3429)Cgc>Tgc	p.R1143C	PCDH1_ENST00000503492.1_3'UTR	NM_032420.2	NP_115796.2	Q08174	PCDH1_HUMAN	protocadherin 1	0					cell-cell signaling (GO:0007267)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	cell-cell junction (GO:0005911)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(4)|lung(20)|ovary(5)|skin(3)|upper_aerodigestive_tract(1)	51		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)		TTGGTCCGGCGGCTGGGAGAT	0.657																																					Ovarian(132;1609 1739 4190 14731 45037)											0													26	24	24					5																	141233894		2196	4287	6483	SO:0001583	missense	5097			AK075233	CCDS4267.1, CCDS43375.1	5q31.3	2010-01-26	2007-02-12		ENSG00000156453	ENSG00000156453		"Cadherins / Protocadherins : Non-clustered"	8655	protein-coding gene	gene with protein product		603626	"protocadherin 1 (cadherin-like 1)"			8508762	Standard	NM_032420		Approved	pc42	uc003llp.3	Q08174	OTTHUMG00000129661	ENST00000287008.3:c.3427C>T	5.37:g.141233894G>A	ENSP00000287008:p.Arg1143Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUP2	Missense_Mutation	SNP	ENST00000287008.3	37	CCDS4267.1	.	.	.	.	.	.	.	.	.	.	G	17.61	3.433086	0.62844	.	.	ENSG00000156453	ENST00000287008	T	0.54675	0.56	4.27	4.27	0.50696	.	0.000000	0.41500	U	0.000867	T	0.67924	0.2945	L	0.56769	1.78	0.80722	D	1	D	0.89917	1.0	D	0.77557	0.99	T	0.72141	-0.4380	10	0.87932	D	0	.	14.5302	0.67920	0.0:0.0:1.0:0.0	.	1143	Q08174-2	.	C	1143	ENSP00000287008:R1143C	ENSP00000287008:R1143C	R	-	1	0	PCDH1	141214078	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	6.111000	0.71541	2.079000	0.62486	0.313000	0.20887	CGC		0.657	PCDH1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000320587.2	NM_032420		A	141233894	G	A	141233894	3	1	664	1	0	0	0	0	1	0	0	0	11513	1116	39	1	290	1	PCDH1	5	141233894	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	214772	141233894	39681366	283	41593										
NR3C1	2908	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr5	142661564	142661564	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttcaatactcatggtcttatCcaaaaatgtttggaagcaat	6	7	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:142661564C>T	ENST00000343796.2	-	9	3217	c.2224G>A	c.(2224-2226)Gat>Aat	p.D742N	NR3C1_ENST00000394464.2_Missense_Mutation_p.D742N|NR3C1_ENST00000424646.2_Missense_Mutation_p.D716N|NR3C1_ENST00000504572.1_Missense_Mutation_p.D743N|NR3C1_ENST00000415690.2_Intron|NR3C1_ENST00000394466.2_Missense_Mutation_p.D743N|NR3C1_ENST00000503201.1_Missense_Mutation_p.D742N|NR3C1_ENST00000231509.3_Missense_Mutation_p.D743N|NR3C1_ENST00000416954.2_Missense_Mutation_p.D345N	NM_001018074.1|NM_001018075.1|NM_001018077.1	NP_001018084.1|NP_001018085.1|NP_001018087.1	P04150	GCR_HUMAN	nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor)	742	Interaction with CLOCK.|Steroid-binding.				adrenal gland development (GO:0030325)|chromatin modification (GO:0016568)|gene expression (GO:0010467)|glucocorticoid metabolic process (GO:0008211)|mammary gland duct morphogenesis (GO:0060603)|negative regulation of glucocorticoid mediated signaling pathway (GO:1900170)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of glucocorticoid biosynthetic process (GO:0031946)|regulation of gluconeogenesis (GO:0006111)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrial matrix (GO:0005759)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	glucocorticoid receptor activity (GO:0004883)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|steroid binding (GO:0005496)|zinc ion binding (GO:0008270)			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(10)|lung(7)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	35		Acute lymphoblastic leukemia(2;3.2e-05)|all_hematologic(2;0.000361)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)		Alclometasone(DB00240)|Amcinonide(DB00288)|Beclomethasone(DB00394)|Betamethasone(DB00443)|Budesonide(DB01222)|Ciclesonide(DB01410)|Clobetasol propionate(DB01013)|Clocortolone(DB00838)|Cortisone acetate(DB01380)|Desonide(DB01260)|Desoximetasone(DB00547)|Dexamethasone(DB01234)|Diflorasone(DB00223)|Difluprednate(DB06781)|Fludrocortisone(DB00687)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Fluoxymesterone(DB01185)|Flurandrenolide(DB00846)|Fluticasone furoate(DB08906)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol(DB00873)|Medrysone(DB00253)|Megestrol acetate(DB00351)|Methylprednisolone(DB00959)|Mifepristone(DB00834)|Mometasone(DB00764)|Paramethasone(DB01384)|Prednicarbate(DB01130)|Prednisolone(DB00860)|Prednisone(DB00635)|Rimexolone(DB00896)|Spironolactone(DB00421)|Triamcinolone(DB00620)	ATGGTCTTATCCAAAAATGTT	0.358																																																0													113	114	114					5																	142661564		2203	4300	6503	SO:0001583	missense	2908			X03225	CCDS4278.1, CCDS34258.1, CCDS47298.1	5q31-q32	2013-01-16	2002-08-27		ENSG00000113580	ENSG00000113580		"Nuclear hormone receptors"	7978	protein-coding gene	gene with protein product		138040	"nuclear receptor subfamily 3, group C, member 1"	GRL		2867473	Standard	NM_001204258		Approved	GR	uc003lnb.3	P04150	OTTHUMG00000129677	ENST00000343796.2:c.2224G>A	5.37:g.142661564C>T	ENSP00000343205:p.Asp742Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A0ZXF9|B0LPG8|D3DQF4|P04151|Q53EP5|Q6N0A4	Missense_Mutation	SNP	ENST00000343796.2	37	CCDS4278.1	.	.	.	.	.	.	.	.	.	.	C	7.618	0.676170	0.14841	.	.	ENSG00000113580	ENST00000394464;ENST00000343796;ENST00000361001;ENST00000424646;ENST00000504572;ENST00000394466;ENST00000231509;ENST00000416954;ENST00000503201	D;D;D;D;D;D;D;D	0.95137	-3.62;-3.62;-3.62;-3.62;-3.62;-3.62;-3.62;-3.62	5.93	5.07	0.68467	Nuclear hormone receptor, ligand-binding (2);	0.136660	0.64402	D	0.000003	D	0.92057	0.7483	N	0.08118	0	0.48452	D	0.999652	B;D	0.89917	0.302;1.0	B;D	0.87578	0.101;0.998	D	0.88085	0.2809	10	0.02654	T	1	.	15.2886	0.73849	0.0:0.9331:0.0:0.0669	.	742;743	P04150;E5KQF6	GCR_HUMAN;.	N	742;742;558;716;743;743;743;345;742	ENSP00000377977:D742N;ENSP00000343205:D742N;ENSP00000405282:D716N;ENSP00000422518:D743N;ENSP00000377979:D743N;ENSP00000231509:D743N;ENSP00000404218:D345N;ENSP00000427672:D742N	ENSP00000231509:D743N	D	-	1	0	NR3C1	142641757	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.991000	0.56973	1.528000	0.49103	0.655000	0.94253	GAT		0.358	NR3C1-201	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000370829.1			T	142661564	C	T	142661564	3	4	664	1	0	0	0	0	1	0	0	0	10637	855	30	2	165	2	NR3C1	5	142661564	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1427670	142661564	38253696	284	41594										
SH3RF2	153769	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr5	145428792	145428792	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcatcttcccaaacaattacGtcatccccattttcaggtgt	5	13	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:145428792G>A	ENST00000511217.1	+	6	1358	c.1306G>A	c.(1306-1308)Gtc>Atc	p.V436I	SH3RF2_ENST00000359120.4_Missense_Mutation_p.V436I			Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	436	SH3 3. {ECO:0000255|PROSITE- ProRule:PRU00192}.				negative regulation of phosphatase activity (GO:0010923)|protein ubiquitination (GO:0016567)		ligase activity (GO:0016874)|phosphatase binding (GO:0019902)|protein phosphatase 1 binding (GO:0008157)|protein phosphatase inhibitor activity (GO:0004864)|zinc ion binding (GO:0008270)			breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|lung(9)|ovary(1)|prostate(1)|skin(2)|stomach(1)	22			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AAACAATTACGTCATCCCCAT	0.607											OREG0016895	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													70	69	69					5																	145428792		2203	4300	6503	SO:0001583	missense	153769			AL833297	CCDS4280.1	5q32	2013-01-09	2011-11-04	2011-11-04	ENSG00000156463	ENSG00000156463		"RING-type (C3HC4) zinc fingers", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	26299	protein-coding gene	gene with protein product	"heart protein phosphatase 1-binding protein", "POSH-eliminating RING protein"	613377	"protein phosphatase 1, regulatory subunit 39"	PPP1R39		22128169	Standard	NM_152550		Approved	FLJ23654, RNF158, Hepp1, POSHER	uc003lnt.3	Q8TEC5	OTTHUMG00000129685	ENST00000511217.1:c.1306G>A	5.37:g.145428792G>A	ENSP00000424497:p.Val436Ile	Somatic	1694	WXS	Illumina HiSeq	Phase_I	A8K961|Q08AM9|Q6GMR9|Q8N5S8|Q96LP8	Missense_Mutation	SNP	ENST00000511217.1	37	CCDS4280.1	.	.	.	.	.	.	.	.	.	.	G	17.69	3.452171	0.63290	.	.	ENSG00000156463	ENST00000359120;ENST00000511217	T;T	0.51817	0.69;0.69	5.29	5.29	0.74685	Src homology-3 domain (4);	0.192109	0.34802	N	0.003667	T	0.45135	0.1327	M	0.67517	2.055	0.49389	D	0.999788	P	0.43938	0.822	B	0.32342	0.144	T	0.56257	-0.8009	10	0.59425	D	0.04	-18.2123	17.6888	0.88263	0.0:0.0:1.0:0.0	.	436	Q8TEC5	SH3R2_HUMAN	I	436	ENSP00000352028:V436I;ENSP00000424497:V436I	ENSP00000352028:V436I	V	+	1	0	SH3RF2	145408985	1.000000	0.71417	1.000000	0.80357	0.763000	0.43281	5.238000	0.65366	2.470000	0.83445	0.484000	0.47621	GTC		0.607	SH3RF2-002	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372804.1	NM_152550		A	145428792	G	A	145428792	3	1	664	1	0	0	0	0	1	0	0	0	14272	1145	40	1	1328	1	SH3RF2	5	145428792	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2767228	145428792	35486468	285	41595										
PPARGC1B	133522	broad.mit.edu	37	chr5	149212386	149212386	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccaaggaggacaaggagccGggtgaggactgcccgagccc	17	12	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:149212386G>A	ENST00000309241.5	+	5	782	c.750G>A	c.(748-750)ccG>ccA	p.P250P	PPARGC1B_ENST00000403750.1_Silent_p.P186P|PPARGC1B_ENST00000360453.4_Silent_p.P211P|PPARGC1B_ENST00000394320.3_Silent_p.P250P	NM_133263.3	NP_573570.3	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor gamma, coactivator 1 beta	250					actin filament organization (GO:0007015)|bone trabecula formation (GO:0060346)|cellular lipid metabolic process (GO:0044255)|cellular response to reactive oxygen species (GO:0034614)|intracellular estrogen receptor signaling pathway (GO:0030520)|negative regulation of transcription, DNA-templated (GO:0045892)|ossification (GO:0001503)|positive regulation of alkaline phosphatase activity (GO:0010694)|positive regulation of bone resorption (GO:0045780)|positive regulation of osteoclast differentiation (GO:0045672)|positive regulation of phosphorylation (GO:0042327)|positive regulation of receptor activity (GO:2000273)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|response to cAMP (GO:0051591)|response to glucocorticoid (GO:0051384)|small molecule metabolic process (GO:0044281)|transcription from mitochondrial promoter (GO:0006390)|transcription from RNA polymerase II promoter (GO:0006366)	mediator complex (GO:0016592)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	AF-2 domain binding (GO:0050682)|estrogen receptor binding (GO:0030331)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|nucleotide binding (GO:0000166)|receptor activator activity (GO:0030546)|RNA binding (GO:0003723)|RNA polymerase II transcription cofactor activity (GO:0001104)			NS(1)|breast(1)|endometrium(1)|kidney(3)|large_intestine(1)|liver(2)|lung(15)|ovary(3)|prostate(2)|stomach(1)	30			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			ACAAGGAGCCGGGTGAGGACT	0.682																																																0													34	42	39					5																	149212386		2202	4299	6501	SO:0001819	synonymous_variant	133522			AF468496	CCDS4298.1, CCDS54933.1, CCDS54934.1	5q33.1	2013-02-12	2006-10-17		ENSG00000155846	ENSG00000155846		"RNA binding motif (RRM) containing"	30022	protein-coding gene	gene with protein product		608886	"peroxisome proliferative activated receptor, gamma, coactivator 1, beta"			11793024, 11854298	Standard	NM_133263		Approved	PERC, PGC1B	uc003lrc.3	Q86YN6	OTTHUMG00000130055	ENST00000309241.5:c.750G>A	5.37:g.149212386G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2RUM8|A2RUN0|B3KVW0|Q86YN3|Q86YN4|Q86YN5|Q8N1N9|Q8TDE4|Q8TDE5	Silent	SNP	ENST00000309241.5	37	CCDS4298.1																																																																																				0.682	PPARGC1B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252334.1	NM_133263		A	149212386	G	A	149212386	2	1	664	1	0	0	0	0	0	0	0	1	12308	1103	39	1		1	PPARGC1B	5	149212386	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3783594	149212386	31702874	286	41596										
GALNT10	55568	broad.mit.edu;mdanderson.org	37	chr5	153795447	153795447	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accagccctgtcacgctgtaCgactgccacagcatgaaggg	11	14	1	1	rs368630751		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:153795447C>T	ENST00000297107.6	+	11	1745	c.1608C>T	c.(1606-1608)taC>taT	p.Y536Y	SAP30L-AS1_ENST00000519727.1_RNA|SAP30L-AS1_ENST00000524264.1_RNA|GALNT10_ENST00000377657.3_Silent_p.Y209Y|GALNT10_ENST00000377661.2_Silent_p.Y474Y	NM_198321.3	NP_938080.1	Q86SR1	GLT10_HUMAN	polypeptide N-acetylgalactosaminyltransferase 10	536	Ricin B-type lectin. {ECO:0000255|PROSITE-ProRule:PRU00174}.				cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(12)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	32	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)			TCACGCTGTACGACTGCCACA	0.537																																																0								T		0,4406		0,0,2203	102	92	95		1608	-11.2	0.1	5		95	4,8596	3.0+/-9.4	0,4,4296	no	coding-synonymous	GALNT10	NM_198321.3		0,4,6499	TT,TC,CC		0.0465,0.0,0.0308		536/604	153795447	4,13002	2203	4300	6503	SO:0001819	synonymous_variant	55568			AK023782	CCDS4325.1	5q34	2014-03-13	2014-03-13		ENSG00000164574	ENSG00000164574	2.4.1.41	"Glycosyltransferase family 2 domain containing"	19873	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 10"	608043	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 10 (GalNAc-T10)"			12417297	Standard	NM_198321		Approved	GalNAc-T10	uc003lvh.3	Q86SR1	OTTHUMG00000130145	ENST00000297107.6:c.1608C>T	5.37:g.153795447C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KXC9|Q6IN56|Q86VP8|Q8IXJ2|Q8TEJ2|Q96IV2|Q9H8E1|Q9Y4M4	Silent	SNP	ENST00000297107.6	37	CCDS4325.1																																																																																				0.537	GALNT10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252453.1	NM_198321		T	153795447	C	T	153795447	2	4	664	1	0	0	0	0	0	0	0	1	6215	547	19	1		1	GALNT10	5	153795447	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4583061	153795447	27119813	287	41597										
ATP10B	23120	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	160047389	160047389	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccagcaggtccatgatgaccGagtcagcacccttggtgtag	12	12	1	2	rs375049408		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:160047389G>A	ENST00000327245.5	-	15	3227	c.2381C>T	c.(2380-2382)tCg>tTg	p.S794L	CTC-348L5.1_ENST00000523598.1_RNA	NM_025153.2	NP_079429.2	O94823	AT10B_HUMAN	ATPase, class V, type 10B	794					phospholipid translocation (GO:0045332)	cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|liver(2)|lung(37)|ovary(4)|pancreas(1)|prostate(5)|skin(3)|stomach(1)	75	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)			CATGATGACCGAGTCAGCACC	0.537																																																0								G	LEU/SER	0,4102		0,0,2051	59	62	61		2381	4.6	0.8	5		61	1,8387		0,1,4193	no	missense	ATP10B	NM_025153.2	145	0,1,6244	AA,AG,GG		0.0119,0.0,0.0080	probably-damaging	794/1462	160047389	1,12489	2051	4194	6245	SO:0001583	missense	23120			AB018258	CCDS43394.1	5q34	2010-04-20	2007-09-19		ENSG00000118322	ENSG00000118322		"ATPases / P-type"	13543	protein-coding gene	gene with protein product			"ATPase, Class V, type 10B"			9872452, 11015572	Standard	NM_025153		Approved	ATPVB, KIAA0715, FLJ21477	uc003lym.1	O94823	OTTHUMG00000163551	ENST00000327245.5:c.2381C>T	5.37:g.160047389G>A	ENSP00000313600:p.Ser794Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H725	Missense_Mutation	SNP	ENST00000327245.5	37	CCDS43394.1	.	.	.	.	.	.	.	.	.	.	G	21.7	4.190491	0.78789	0.0	1.19E-4	ENSG00000118322	ENST00000327245;ENST00000520108	T;T	0.70164	-0.46;-0.46	5.48	4.61	0.57282	ATPase, cation-transporting, domain N (1);HAD-like domain (1);ATPase, P-type, cytoplasmic domain N (1);	0.236620	0.37012	N	0.002294	T	0.74786	0.3762	M	0.92923	3.36	0.45464	D	0.998431	P;P	0.49862	0.774;0.929	B;B	0.41374	0.284;0.355	T	0.82192	-0.0579	9	.	.	.	.	15.5072	0.75750	0.0:0.1472:0.8528:0.0	.	402;794	Q2YDW8;O94823	.;AT10B_HUMAN	L	794;402	ENSP00000313600:S794L;ENSP00000431081:S402L	.	S	-	2	0	ATP10B	159979967	0.950000	0.32346	0.812000	0.32479	0.948000	0.59901	1.469000	0.35343	1.307000	0.44944	0.644000	0.83932	TCG		0.537	ATP10B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374127.1	NM_025153		A	160047389	G	A	160047389	3	1	664	1	0	0	0	0	1	0	0	0	1117	1059	37	1	2052	1	ATP10B	5	160047389	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6251942	160047389	20867871	288	41598										
GABRA6	2559	bcgsc.ca	37	chr5	161119027	161119027	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagtgtcatatgccactgccAtggattggttcatagctgtt	10	8	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:161119027A>G	ENST00000274545.5	+	8	1340	c.907A>G	c.(907-909)Atg>Gtg	p.M303V	RP11-348M17.2_ENST00000521984.1_RNA|GABRA6_ENST00000523217.1_Missense_Mutation_p.M293V			Q16445	GBRA6_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha 6	303					gamma-aminobutyric acid signaling pathway (GO:0007214)|ion transmembrane transport (GO:0034220)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|transport (GO:0006810)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	benzodiazepine receptor activity (GO:0008503)|chloride channel activity (GO:0005254)|extracellular ligand-gated ion channel activity (GO:0005230)|GABA-A receptor activity (GO:0004890)			breast(1)|central_nervous_system(2)|endometrium(6)|large_intestine(9)|liver(2)|lung(22)|ovary(7)|skin(6)|urinary_tract(2)	57	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Acamprosate(DB00659)|Alprazolam(DB00404)|Amobarbital(DB01351)|Amoxapine(DB00543)|Aprobarbital(DB01352)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Heptabarbital(DB01354)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Thiopental(DB00599)|Topiramate(DB00273)|Triazolam(DB00897)	TGCCACTGCCATGGATTGGTT	0.438										TCGA Ovarian(5;0.080)																																						0													161	137	145					5																	161119027		2203	4300	6503	SO:0001583	missense	2559				CCDS4356.1	5q34	2012-06-22			ENSG00000145863	ENSG00000145863		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4080	protein-coding gene	gene with protein product	"GABA(A) receptor, alpha 6"	137143				8020978	Standard	NM_000811		Approved		uc003lyu.2	Q16445	OTTHUMG00000130351	ENST00000274545.5:c.907A>G	5.37:g.161119027A>G	ENSP00000274545:p.Met303Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K096|Q4VAV2	Missense_Mutation	SNP	ENST00000274545.5	37	CCDS4356.1	.	.	.	.	.	.	.	.	.	.	A	25.3	4.627125	0.87560	.	.	ENSG00000145863	ENST00000274545;ENST00000523217	D;D	0.85955	-2.05;-2.05	5.32	5.32	0.75619	Neurotransmitter-gated ion-channel transmembrane domain (2);	0.000000	0.85682	D	0.000000	D	0.88808	0.6537	L	0.38733	1.17	0.58432	D	0.999994	D	0.76494	0.999	D	0.85130	0.997	D	0.90200	0.4256	10	0.87932	D	0	.	15.2799	0.73773	1.0:0.0:0.0:0.0	.	303	Q16445	GBRA6_HUMAN	V	303;293	ENSP00000274545:M303V;ENSP00000430527:M293V	ENSP00000274545:M303V	M	+	1	0	GABRA6	161051605	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.228000	0.95250	1.997000	0.58415	0.528000	0.53228	ATG		0.438	GABRA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252707.2			G	161119027	A	G	161119027	3	3	664	1	0	0	0	0	1	0	0	0	6172	217	8	3	937	3	GABRA6	5	161119027	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	1071638	161119027	19796233	289	41599										
GABRG2	2566	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	161531032	161531032	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagtagtgaagacaacttccGgtaagatgcactggcaaaga	11	7	0	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:161531032G>A	ENST00000361925.4	+	6	989	c.769G>A	c.(769-771)Gga>Aga	p.G257R	GABRG2_ENST00000414552.2_Splice_Site_p.G297R|GABRG2_ENST00000356592.3_Splice_Site_p.G257R|GABRG2_ENST00000393933.4_Splice_Site_p.G162R			P18507	GBRG2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma 2	257					adult behavior (GO:0030534)|cellular response to histamine (GO:0071420)|chloride transmembrane transport (GO:1902476)|gamma-aminobutyric acid signaling pathway (GO:0007214)|ion transmembrane transport (GO:0034220)|post-embryonic development (GO:0009791)|synaptic transmission (GO:0007268)|synaptic transmission, GABAergic (GO:0051932)|transmembrane transport (GO:0055085)|transport (GO:0006810)	axon (GO:0030424)|cell junction (GO:0030054)|chloride channel complex (GO:0034707)|cytoplasm (GO:0005737)|dendrite membrane (GO:0032590)|GABA-A receptor complex (GO:1902711)|inhibitory synapse (GO:0060077)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	benzodiazepine receptor activity (GO:0008503)|chloride channel activity (GO:0005254)|extracellular ligand-gated ion channel activity (GO:0005230)|GABA-A receptor activity (GO:0004890)			NS(1)|breast(1)|cervix(1)|endometrium(6)|kidney(4)|large_intestine(15)|lung(24)|ovary(4)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	62	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)	Acamprosate(DB00659)|Adinazolam(DB00546)|Alprazolam(DB00404)|Amoxapine(DB00543)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Chlordiazepoxide(DB00475)|Cinolazepam(DB01594)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Clotiazepam(DB01559)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Fludiazepam(DB01567)|Flumazenil(DB01205)|Flurazepam(DB00690)|Ginkgo biloba(DB01381)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Topiramate(DB00273)|Triazolam(DB00897)	GACAACTTCCGGTAAGATGCA	0.383																																																0													69	67	68					5																	161531032		2203	4300	6503	SO:0001630	splice_region_variant	2566				CCDS4358.1, CCDS4359.1, CCDS47333.1	5q34	2012-06-22			ENSG00000113327	ENSG00000113327		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4087	protein-coding gene	gene with protein product	"GABA(A) receptor, gamma 2"	137164					Standard	NM_198904		Approved		uc010jjc.3	P18507	OTTHUMG00000130350	ENST00000361925.4:c.769+1G>A	5.37:g.161531032G>A		Somatic		WXS	Illumina HiSeq	Phase_I	F5HB82|Q6GRL6|Q6PCC3|Q9UDB3|Q9UN15	Missense_Mutation	SNP	ENST00000361925.4	37	CCDS4358.1	.	.	.	.	.	.	.	.	.	.	G	21.6	4.171779	0.78452	.	.	ENSG00000113327	ENST00000356592;ENST00000414552;ENST00000361925;ENST00000393933;ENST00000522053	T;T;T;T;T	0.80738	-1.41;-1.41;-1.41;-1.41;-1.41	5.39	5.39	0.77823	Neurotransmitter-gated ion-channel ligand-binding (3);	0.098346	0.64402	D	0.000001	D	0.91600	0.7346	M	0.89163	3.01	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.85130	0.997;0.997;0.995	D	0.92927	0.6360	10	0.87932	D	0	.	18.7444	0.91787	0.0:0.0:1.0:0.0	.	297;257;257	F5HB82;P18507;P18507-2	.;GBRG2_HUMAN;.	R	257;297;257;162;162	ENSP00000349000:G257R;ENSP00000410732:G297R;ENSP00000354651:G257R;ENSP00000377510:G162R;ENSP00000430182:G162R	ENSP00000349000:G257R	G	+	1	0	GABRG2	161463610	1.000000	0.71417	1.000000	0.80357	0.410000	0.31052	9.751000	0.98889	2.533000	0.85409	0.655000	0.94253	GGA		0.383	GABRG2-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000252706.1		Missense_Mutation	A	161531032	G	A	161531032	5	1	664	1	0	0	0	0	0	0	1	0	6179	1130	39	1	915	1	GABRG2	5	161531032	Splice_Site	SNP	G	TCGA-KN-8428-01A-11D-2310-10	412005	161531032	19384228	290	41600										
SLIT3	6586	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr5	168096804	168096804	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaccttgttggcagtgctcGccgctaaagccgggctggca	13	14	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:168096804G>A	ENST00000519560.1	-	35	4739	c.4320C>T	c.(4318-4320)ggC>ggT	p.G1440G	SLIT3_ENST00000404867.3_Silent_p.G1440G|SLIT3_ENST00000332966.8_Silent_p.G1447G|CTC-558O2.2_ENST00000520041.1_RNA	NM_001271946.1|NM_003062.2	NP_001258875.1|NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 (Drosophila)	1440	EGF-like 9. {ECO:0000255|PROSITE- ProRule:PRU00076}.				apoptotic process involved in luteolysis (GO:0061364)|axon extension involved in axon guidance (GO:0048846)|axon guidance (GO:0007411)|cellular response to hormone stimulus (GO:0032870)|negative chemotaxis (GO:0050919)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of chemokine-mediated signaling pathway (GO:0070100)|negative regulation of gene expression (GO:0010629)|organ morphogenesis (GO:0009887)|response to cortisol (GO:0051414)|Roundabout signaling pathway (GO:0035385)	extracellular space (GO:0005615)|mitochondrion (GO:0005739)	calcium ion binding (GO:0005509)|Roundabout binding (GO:0048495)			endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(15)|liver(2)|lung(48)|ovary(4)|prostate(7)|skin(6)|upper_aerodigestive_tract(3)|urinary_tract(1)	100	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGCAGTGCTCGCCGCTAAAGC	0.592																																					Ovarian(29;311 847 10864 17279 24903)											0													82	63	70					5																	168096804		2203	4300	6503	SO:0001819	synonymous_variant	6586			AB011538	CCDS4369.1, CCDS64311.1	5q35	2008-07-18	2001-11-28		ENSG00000184347	ENSG00000184347			11087	protein-coding gene	gene with protein product		603745	"slit (Drosophila) homolog 3"	SLIL2		9693030, 9813312	Standard	NM_001271946		Approved	slit2, MEGF5, SLIT1, Slit-3	uc010jjg.4	O75094	OTTHUMG00000130409	ENST00000519560.1:c.4320C>T	5.37:g.168096804G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6H8U9|J3KNP3|O95804|Q9UFH5	Silent	SNP	ENST00000519560.1	37	CCDS4369.1																																																																																				0.592	SLIT3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252792.4	NM_003062		A	168096804	G	A	168096804	2	1	664	1	0	0	0	0	0	0	0	1	14754	1074	38	1		1	SLIT3	5	168096804	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6565772	168096804	12818456	291	41601										
KCNIP1	30820	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr5	169931585	169931585	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcttcgctgccatgggggcCgtcatgggcaccttctcatc	12	14	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:169931585C>T	ENST00000411494.1	+	1	9	c.9C>T	c.(7-9)gcC>gcT	p.A3A	KCNIP1_ENST00000390656.4_Silent_p.A3A|KCNIP1_ENST00000328939.4_Silent_p.A3A|KCNIP1_ENST00000434108.1_Silent_p.A3A|KCNIP1_ENST00000520740.1_5'UTR|KCNIP1_ENST00000377360.4_Intron			Q9NZI2	KCIP1_HUMAN	Kv channel interacting protein 1	3					detection of calcium ion (GO:0005513)|positive regulation of action potential (GO:0045760)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)	dendrite (GO:0030425)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|potassium channel complex (GO:0034705)	calcium ion binding (GO:0005509)|potassium channel activity (GO:0005267)|potassium channel regulator activity (GO:0015459)|voltage-gated ion channel activity (GO:0005244)			autonomic_ganglia(1)|large_intestine(7)|lung(4)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	18	Renal(175;0.000159)|Lung NSC(126;0.0191)|all_lung(126;0.0297)	Medulloblastoma(196;0.0109)|all_neural(177;0.0177)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCATGGGGGCCGTCATGGGCA	0.582																																																0													86	90	89					5																	169931585		2203	4300	6503	SO:0001819	synonymous_variant	30820			AF199597	CCDS34285.1, CCDS34286.1, CCDS4374.1, CCDS64312.1, CCDS64313.1	5q35	2013-01-10			ENSG00000182132	ENSG00000182132		"EF-hand domain containing"	15521	protein-coding gene	gene with protein product		604660				10676964	Standard	NM_001278339		Approved	KCHIP1	uc003map.3	Q9NZI2	OTTHUMG00000130442	ENST00000411494.1:c.9C>T	5.37:g.169931585C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7B4|Q3YAD0|Q3YAD1|Q3YAD2|Q3YAD3|Q5U822	Silent	SNP	ENST00000411494.1	37	CCDS34286.1																																																																																				0.582	KCNIP1-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000371760.1			T	169931585	C	T	169931585	2	4	664	1	0	0	0	0	0	0	0	1	8046	639	23	1		1	KCNIP1	5	169931585	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1834781	169931585	10983675	292	41602										
STK10	6793	broad.mit.edu	37	chr5	171482625	171482626	+	Frame_Shift_Ins	INS	-	-	C													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cacgctgctcagctgcgctgINScccccgccgttgatgtggag							TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:171482625_171482626insC	ENST00000176763.5	-	16	2835_2836	c.2492_2493insG	c.(2491-2493)ggcfs	p.G831fs		NM_005990.3	NP_005981.3	O94804	STK10_HUMAN	serine/threonine kinase 10	831	Gln-rich.				cell cycle (GO:0007049)|lymphocyte aggregation (GO:0071593)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of lymphocyte migration (GO:2000401)|signal transduction by phosphorylation (GO:0023014)	extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|polo kinase kinase activity (GO:0042801)|protein homodimerization activity (GO:0042803)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(15)|ovary(6)|pancreas(1)|prostate(1)|testis(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	47	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)			CAGCTGCGCTGCCCCCGCCGTT	0.653																																																0																																										SO:0001589	frameshift_variant	6793			AB015718	CCDS34290.1	5q35.1	2008-07-18			ENSG00000072786	ENSG00000072786			11388	protein-coding gene	gene with protein product		603919				10199912	Standard	NM_005990		Approved	LOK, PRO2729	uc003mbo.1	O94804	OTTHUMG00000163265	ENST00000176763.5:c.2493dupG	5.37:g.171482630_171482630dupC	ENSP00000176763:p.Gly831fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6ND35|B2R8F5|B3KMY1|Q6NSK0|Q9UIW4	Frame_Shift_Ins	INS	ENST00000176763.5	37	CCDS34290.1																																																																																				0.653	STK10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372374.2	NM_005990		C	171482626	-	C	171482625	7	5	664	1	0	1	1	0	0	0	0	0	15298	1306	46	0	429	0	STK10	5	171482625	Frame_Shift_Ins	INS	-	TCGA-KN-8428-01A-11D-2310-10	1551040	171482625	9432635	293	41603										
COL23A1	91522	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	177679589	177679589	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccctgggggcccctgtggtcCgggaggcccctgtgtgtgag	18	13	0	1	rs371777604		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:177679589C>T	ENST00000390654.3	-	17	1327	c.970G>A	c.(970-972)Gga>Aga	p.G324R		NM_173465.3	NP_775736.2	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1	324	Collagen-like 3.|Gly-rich.				collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(1)|central_nervous_system(1)|endometrium(4)|large_intestine(3)|lung(6)|ovary(1)|skin(2)|urinary_tract(1)	19	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)		CCCTGTGGTCCGGGAGGCCCC	0.642																																																0								C	ARG/GLY	0,3884		0,0,1942	33	42	39		970	3.7	0.9	5		39	1,8237		0,1,4118	no	missense	COL23A1	NM_173465.3	125	0,1,6060	TT,TC,CC		0.0121,0.0,0.0082	probably-damaging	324/541	177679589	1,12121	1942	4119	6061	SO:0001583	missense	91522			AL137461	CCDS4436.1	5q35.3	2013-01-16			ENSG00000050767	ENSG00000050767		"Collagens"	22990	protein-coding gene	gene with protein product		610043				12644459	Standard	NM_173465		Approved	DKFZp434K0621	uc021yiz.1	Q86Y22	OTTHUMG00000130890	ENST00000390654.3:c.970G>A	5.37:g.177679589C>T	ENSP00000375069:p.Gly324Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVR4|Q9NT93	Missense_Mutation	SNP	ENST00000390654.3	37	CCDS4436.1	.	.	.	.	.	.	.	.	.	.	C	13.38	2.218647	0.39201	0.0	1.21E-4	ENSG00000050767	ENST00000390654	D	0.99353	-5.77	3.73	3.73	0.42828	.	0.000000	0.64402	D	0.000004	D	0.99667	0.9876	H	0.99582	4.64	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.97270	0.9910	10	0.87932	D	0	-9.5659	11.2277	0.48892	0.0:1.0:0.0:0.0	.	324	Q86Y22	CONA1_HUMAN	R	324	ENSP00000375069:G324R	ENSP00000375069:G324R	G	-	1	0	COL23A1	177612195	0.988000	0.35896	0.873000	0.34254	0.785000	0.44390	4.157000	0.58144	2.092000	0.63282	0.563000	0.77884	GGA		0.642	COL23A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253475.1	NM_173465		T	177679589	C	T	177679589	3	4	664	1	0	0	0	0	1	0	0	0	3684	661	23	1	704	1	COL23A1	5	177679589	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	6196964	177679589	3235671	294	41604										
MAML1	9794	broad.mit.edu;mdanderson.org	37	chr5	179192794	179192794	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atcgaggagctgaacaggtcGgtgcccgatgaagacatgaa	14	8	0	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:179192794G>A	ENST00000292599.3	+	2	1046	c.783G>A	c.(781-783)tcG>tcA	p.S261S	MAML1_ENST00000503050.1_3'UTR	NM_014757.4	NP_055572.1			mastermind-like 1 (Drosophila)											central_nervous_system(1)|cervix(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(16)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	36	all_cancers(89;0.000197)|all_epithelial(37;6.7e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0308)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TGAACAGGTCGGTGCCCGATG	0.547																																																0													80	72	75					5																	179192794		2203	4300	6503	SO:0001819	synonymous_variant	9794			D83785	CCDS34315.1	5q35	2008-07-18	2001-11-28			ENSG00000161021			13632	protein-coding gene	gene with protein product	"mastermind homolog"	605424	"mastermind (drosophila)-like 1"			11101851, 11390662	Standard	NM_014757		Approved	KIAA0200, Mam-1	uc003mkm.3	Q92585		ENST00000292599.3:c.783G>A	5.37:g.179192794G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000292599.3	37	CCDS34315.1																																																																																				0.547	MAML1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372316.2	NM_014757		A	179192794	G	A	179192794	2	1	664	1	0	0	0	0	0	0	0	1	9212	1103	39	1		1	MAML1	5	179192794	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1513205	179192794	1722466	295	41605										
FLT4	2324	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr5	180052908	180052908	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcttgcagggtgtccagggcCgccagtgccactggatgctg	15	12	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr5:180052908C>T	ENST00000261937.6	-	10	1460	c.1382G>A	c.(1381-1383)cGg>cAg	p.R461Q	FLT4_ENST00000424276.2_5'UTR|FLT4_ENST00000393347.3_Missense_Mutation_p.R461Q|FLT4_ENST00000502649.1_Missense_Mutation_p.R461Q	NM_182925.4	NP_891555.2	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4	461	Ig-like C2-type 5.				blood vessel morphogenesis (GO:0048514)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|lymph vessel development (GO:0001945)|lymphangiogenesis (GO:0001946)|negative regulation of apoptotic process (GO:0043066)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of cell proliferation (GO:0008284)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of JNK cascade (GO:0046330)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of protein kinase C signaling (GO:0090037)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation vascular endothelial growth factor production (GO:0010575)|protein autophosphorylation (GO:0046777)|regulation of blood vessel remodeling (GO:0060312)|sprouting angiogenesis (GO:0002040)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)|vascular endothelial growth factor signaling pathway (GO:0038084)|vasculature development (GO:0001944)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|growth factor binding (GO:0019838)|protein phosphatase binding (GO:0019903)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)|vascular endothelial growth factor-activated receptor activity (GO:0005021)	p.R461Q(2)		NS(1)|breast(3)|central_nervous_system(2)|endometrium(1)|kidney(6)|large_intestine(5)|liver(2)|lung(37)|ovary(6)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	71	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)	Axitinib(DB06626)|Pazopanib(DB06589)|Regorafenib(DB08896)|Sorafenib(DB00398)|Sunitinib(DB01268)	TGTCCAGGGCCGCCAGTGCCA	0.667																																					Colon(97;1075 1466 27033 27547 35871)											2	Substitution - Missense(2)	lung(2)											38	45	42					5																	180052908		2201	4294	6495	SO:0001583	missense	2324			X68203	CCDS4457.1, CCDS43412.1	5q34-q35	2013-01-29			ENSG00000037280	ENSG00000037280	2.7.10.1	"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	3767	protein-coding gene	gene with protein product		136352				1319394	Standard	NM_002020		Approved	VEGFR3, PCL	uc003mlz.4	P35916	OTTHUMG00000130931	ENST00000261937.6:c.1382G>A	5.37:g.180052908C>T	ENSP00000261937:p.Arg461Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6L4|B5A926|Q16067|Q86W07|Q86W08	Missense_Mutation	SNP	ENST00000261937.6	37	CCDS4457.1	.	.	.	.	.	.	.	.	.	.	C	16.69	3.192772	0.58017	.	.	ENSG00000037280	ENST00000261937;ENST00000393347;ENST00000502649;ENST00000376868	D;D;D	0.93953	-3.32;-3.32;-3.32	4.26	4.26	0.50523	Immunoglobulin subtype (1);Immunoglobulin-like (1);Tyrosine-protein kinase, vascular endothelial growth factor receptor 3 (VEGFR3), N-terminal (1);Immunoglobulin-like fold (1);	.	.	.	.	D	0.94172	0.8130	L	0.45744	1.44	0.58432	D	0.999996	D;B;B	0.89917	1.0;0.037;0.064	D;B;B	0.72338	0.977;0.02;0.034	D	0.91303	0.5068	9	0.06891	T	0.86	.	17.0681	0.86564	0.0:1.0:0.0:0.0	.	461;461;461	P35916-3;E9PD35;P35916	.;.;VGFR3_HUMAN	Q	461;461;461;271	ENSP00000261937:R461Q;ENSP00000377016:R461Q;ENSP00000426057:R461Q	ENSP00000261937:R461Q	R	-	2	0	FLT4	179985514	1.000000	0.71417	0.998000	0.56505	0.944000	0.59088	5.593000	0.67550	2.117000	0.64856	0.561000	0.74099	CGG		0.667	FLT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253527.4			T	180052908	C	T	180052908	3	4	664	1	0	0	0	0	1	0	0	0	5951	652	23	1	2801	1	FLT4	5	180052908	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	860114	180052908	862352	296	41606										
FAM50B	26240	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	3850118	3850118	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcaagaagcgcgaaaggcagCgggagcagatggaggtgctg	18	7	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:3850118C>T	ENST00000380274.1	+	1	499	c.73C>T	c.(73-75)Cgg>Tgg	p.R25W	FAM50B_ENST00000380272.3_Missense_Mutation_p.R25W			Q9Y247	FA50B_HUMAN	family with sequence similarity 50, member B	25						nucleus (GO:0005634)				cervix(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(2)|pancreas(1)|prostate(3)|urinary_tract(3)	17	Ovarian(93;0.0925)	all_hematologic(90;0.108)				CGAAAGGCAGCGGGAGCAGAT	0.652																																																0													47	42	43					6																	3850118		2203	4300	6503	SO:0001583	missense	26240			Y18504	CCDS4487.1	6p25.2	2008-05-15			ENSG00000145945	ENSG00000145945			18789	protein-coding gene	gene with protein product		614686				10534398	Standard	NM_012135		Approved	D6S2654E, X5L	uc003mvu.3	Q9Y247	OTTHUMG00000014147	ENST00000380274.1:c.73C>T	6.37:g.3850118C>T	ENSP00000369627:p.Arg25Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T2L6	Missense_Mutation	SNP	ENST00000380274.1	37	CCDS4487.1	.	.	.	.	.	.	.	.	.	.	C	19.32	3.804072	0.70682	.	.	ENSG00000145945	ENST00000380274;ENST00000380272	.	.	.	4.16	-3.77	0.04346	.	0.614436	0.15622	N	0.252852	T	0.45796	0.1360	M	0.64404	1.975	0.32106	N	0.589936	D	0.65815	0.995	P	0.52343	0.696	T	0.62011	-0.6944	9	0.87932	D	0	-14.4722	16.4087	0.83699	0.2079:0.7921:0.0:0.0	.	25	Q9Y247	FA50B_HUMAN	W	25	.	ENSP00000369625:R25W	R	+	1	2	FAM50B	3795117	0.997000	0.39634	0.695000	0.30226	0.935000	0.57460	0.275000	0.18698	-0.356000	0.08187	-0.397000	0.06425	CGG		0.652	FAM50B-002	NOVEL	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039693.1	NM_012135		T	3850118	C	T	3850118	3	4	664	1	0	0	0	0	1	0	0	0	5585	759	27	1	75	1	FAM50B	6	3850118	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10		3850118	167264949	297	41607										
RREB1	6239	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	7231628	7231628	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagcactggcagtaacaccaCggcttcagacagcttaggag	11	11	1	1	rs376220493		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:7231628C>T	ENST00000349384.6	+	10	3610	c.3296C>T	c.(3295-3297)aCg>aTg	p.T1099M	RREB1_ENST00000379933.3_Missense_Mutation_p.T1099M|RREB1_ENST00000379938.2_Missense_Mutation_p.T1099M|RREB1_ENST00000334984.6_Missense_Mutation_p.T1099M	NM_001003698.3	NP_001003698.1	Q92766	RREB1_HUMAN	ras responsive element binding protein 1	1099					multicellular organismal development (GO:0007275)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription, DNA-templated (GO:0045893)|Ras protein signal transduction (GO:0007265)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nuclear body (GO:0016604)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(5)|lung(18)|ovary(5)|pancreas(2)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	58	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				AGTAACACCACGGCTTCAGAC	0.627													C|||	1	0.000199681	0.0	0.0	5008	,	,		13398	0.0		0.0	False		,,,				2504	0.001															0								C	MET/THR,MET/THR,MET/THR,MET/THR	0,4406		0,0,2203	35	40	38		3296,3296,3296,3296	1.1	0	6		38	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,missense,missense	RREB1	NM_001003698.3,NM_001003699.3,NM_001003700.1,NM_001168344.1	81,81,81,81	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging,probably-damaging,probably-damaging,probably-damaging	1099/1688,1099/1743,1099/1477,1099/1688	7231628	1,13005	2203	4300	6503	SO:0001583	missense	6239			U26914	CCDS34335.1, CCDS34336.1, CCDS54963.1	6p25	2013-01-08			ENSG00000124782	ENSG00000124782		"Zinc fingers, C2H2-type"	10449	protein-coding gene	gene with protein product	"hindsight homolog (drosophila)"	602209				9367691, 18394891	Standard	NM_001003698		Approved	HNT	uc003mxb.3	Q92766	OTTHUMG00000014201	ENST00000349384.6:c.3296C>T	6.37:g.7231628C>T	ENSP00000305560:p.Thr1099Met	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRF5|E2GM80|E2GM81|O75567|O75568|Q5VYB2|Q6BEP5|Q6BEP6|Q6BEP8|Q86SU2|Q9Y474	Missense_Mutation	SNP	ENST00000349384.6	37	CCDS34336.1	.	.	.	.	.	.	.	.	.	.	C	4.189	0.033643	0.08101	0.0	1.16E-4	ENSG00000124782	ENST00000379933;ENST00000379938;ENST00000349384;ENST00000334984	T;T;T;T	0.11063	2.94;2.91;2.94;2.81	5.46	1.07	0.20283	.	2.026260	0.02349	N	0.075710	T	0.03348	0.0097	L	0.40543	1.245	0.09310	N	1	B;B;B	0.30482	0.07;0.185;0.281	B;B;B	0.18871	0.023;0.01;0.023	T	0.41431	-0.9509	10	0.34782	T	0.22	-0.0059	10.8935	0.47008	0.0:0.6928:0.0:0.3072	.	1099;1099;1099	Q92766-3;Q92766;Q92766-2	.;RREB1_HUMAN;.	M	1099	ENSP00000369265:T1099M;ENSP00000369270:T1099M;ENSP00000305560:T1099M;ENSP00000335574:T1099M	ENSP00000335574:T1099M	T	+	2	0	RREB1	7176627	0.000000	0.05858	0.000000	0.03702	0.007000	0.05969	0.435000	0.21510	0.258000	0.21686	-0.150000	0.13652	ACG		0.627	RREB1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000352985.1			T	7231628	C	T	7231628	3	4	664	1	0	0	0	0	1	0	0	0	13692	536	19	1	3322	1	RREB1	6	7231628	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3381510	7231628	163883439	298	41608										
RREB1	6239	hgsc.bcm.edu	37	chr6	7247005	7247005	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgaggcaggcgccgggggcgCggcctcgcaggagcagaagc	20	13	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:7247005C>T	ENST00000349384.6	+	11	4471	c.4157C>T	c.(4156-4158)gCg>gTg	p.A1386V	RREB1_ENST00000379933.3_Missense_Mutation_p.A1386V|RREB1_ENST00000379938.2_Missense_Mutation_p.A1441V|RREB1_ENST00000334984.6_Intron	NM_001003698.3	NP_001003698.1	Q92766	RREB1_HUMAN	ras responsive element binding protein 1	1386					multicellular organismal development (GO:0007275)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription, DNA-templated (GO:0045893)|Ras protein signal transduction (GO:0007265)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nuclear body (GO:0016604)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(5)|lung(18)|ovary(5)|pancreas(2)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	58	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				GCCGGGGGCGCGGCCTCGCAG	0.697																																																0													8	10	9					6																	7247005		2067	4045	6112	SO:0001583	missense	6239			U26914	CCDS34335.1, CCDS34336.1, CCDS54963.1	6p25	2013-01-08			ENSG00000124782	ENSG00000124782		"Zinc fingers, C2H2-type"	10449	protein-coding gene	gene with protein product	"hindsight homolog (drosophila)"	602209				9367691, 18394891	Standard	NM_001003698		Approved	HNT	uc003mxb.3	Q92766	OTTHUMG00000014201	ENST00000349384.6:c.4157C>T	6.37:g.7247005C>T	ENSP00000305560:p.Ala1386Val	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRF5|E2GM80|E2GM81|O75567|O75568|Q5VYB2|Q6BEP5|Q6BEP6|Q6BEP8|Q86SU2|Q9Y474	Missense_Mutation	SNP	ENST00000349384.6	37	CCDS34336.1	.	.	.	.	.	.	.	.	.	.	C	8.342	0.828815	0.16749	.	.	ENSG00000124782	ENST00000379933;ENST00000379938;ENST00000349384	T;T;T	0.09538	2.99;2.97;2.99	5.69	2.95	0.34219	.	1.656210	0.03303	N	0.189369	T	0.02083	0.0065	N	0.16478	0.41	0.33650	D	0.608334	B;P	0.36378	0.414;0.55	B;B	0.25614	0.028;0.062	T	0.29366	-1.0014	10	0.28530	T	0.3	-0.0137	8.7629	0.34685	0.0:0.548:0.31:0.1419	.	1386;1441	Q92766;Q92766-2	RREB1_HUMAN;.	V	1386;1441;1386	ENSP00000369265:A1386V;ENSP00000369270:A1441V;ENSP00000305560:A1386V	ENSP00000305560:A1386V	A	+	2	0	RREB1	7192004	0.000000	0.05858	0.000000	0.03702	0.007000	0.05969	0.113000	0.15499	0.340000	0.23745	-0.122000	0.15005	GCG		0.697	RREB1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000352985.1			T	7247005	C	T	7247005	3	4	664	1	0	0	0	0	1	0	0	0	13692	768	27	1	4356	1	RREB1	6	7247005	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	15377	7247005	163868062	299	41609										
DSP	1832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	7580988	7580988	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaaagcaaacagtagtgcgaCggagacaataaacaaactga	10	7	0	2	rs375150075		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:7580988C>T	ENST00000379802.3	+	23	4906	c.4565C>T	c.(4564-4566)aCg>aTg	p.T1522M	DSP_ENST00000418664.2_Intron	NM_004415.2	NP_004406.2	P15924	DESP_HUMAN	desmoplakin	1522	Central fibrous rod domain.				adherens junction organization (GO:0034332)|apoptotic process (GO:0006915)|bundle of His cell to Purkinje myocyte communication (GO:0086069)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|desmosome organization (GO:0002934)|epidermis development (GO:0008544)|intermediate filament organization (GO:0045109)|keratinocyte differentiation (GO:0030216)|peptide cross-linking (GO:0018149)|protein localization to adherens junction (GO:0071896)|regulation of heart rate by cardiac conduction (GO:0086091)|single organismal cell-cell adhesion (GO:0016337)|ventricular cardiac muscle cell action potential (GO:0086005)|ventricular compact myocardium morphogenesis (GO:0003223)|wound healing (GO:0042060)	basolateral plasma membrane (GO:0016323)|cornified envelope (GO:0001533)|desmosome (GO:0030057)|extracellular vesicular exosome (GO:0070062)|fascia adherens (GO:0005916)|intercalated disc (GO:0014704)|intermediate filament (GO:0005882)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	poly(A) RNA binding (GO:0044822)|protein binding, bridging (GO:0030674)|protein kinase C binding (GO:0005080)|scaffold protein binding (GO:0097110)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			biliary_tract(1)|breast(6)|central_nervous_system(7)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(16)|liver(2)|lung(27)|ovary(4)|prostate(1)|skin(8)|stomach(3)|upper_aerodigestive_tract(7)|urinary_tract(5)	101	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		AGTAGTGCGACGGAGACAATA	0.473																																																0								C	,MET/THR	1,4405	2.1+/-5.4	0,1,2202	119	118	118		,4565	4.1	0	6		118	0,8600		0,0,4300	no	intron,missense	DSP	NM_001008844.1,NM_004415.2	,81	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	,probably-damaging	,1522/2872	7580988	1,13005	2203	4300	6503	SO:0001583	missense	1832			J05211	CCDS4501.1, CCDS47368.1	6p24.3	2014-09-17	2003-05-20		ENSG00000096696	ENSG00000096696			3052	protein-coding gene	gene with protein product		125647	"desmoplakin (DPI, DPII)"			1889810	Standard	NM_004415		Approved	KPPS2, PPKS2, DPI, DPII	uc003mxp.1	P15924	OTTHUMG00000014212	ENST00000379802.3:c.4565C>T	6.37:g.7580988C>T	ENSP00000369129:p.Thr1522Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTT2|D7RX09|O75993|Q14189|Q9UHN4	Missense_Mutation	SNP	ENST00000379802.3	37	CCDS4501.1	.	.	.	.	.	.	.	.	.	.	C	0.509	-0.867174	0.02590	2.27E-4	0.0	ENSG00000096696	ENST00000379802	T	0.71579	-0.58	5.85	4.09	0.47781	.	0.376063	0.25711	N	0.028804	T	0.44705	0.1306	L	0.43152	1.355	0.09310	N	0.999991	B	0.31968	0.349	B	0.28916	0.096	T	0.37596	-0.9699	10	0.54805	T	0.06	.	12.5287	0.56102	0.0:0.8653:0.0:0.1347	.	1522	P15924	DESP_HUMAN	M	1522	ENSP00000369129:T1522M	ENSP00000369129:T1522M	T	+	2	0	DSP	7525987	0.000000	0.05858	0.001000	0.08648	0.001000	0.01503	1.064000	0.30579	0.828000	0.34709	-0.137000	0.14449	ACG		0.473	DSP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039786.2	NM_004415		T	7580988	C	T	7580988	3	4	664	1	0	0	0	0	1	0	0	0	4783	536	19	1	4655	1	DSP	6	7580988	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	333983	7580988	163534079	300	41610										
TBC1D7	51256	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	13321234	13321234	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgtggcatcactaacaaagCgaacgactttcagggcatga	11	9	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:13321234C>T	ENST00000379300.3	-	4	530	c.287G>A	c.(286-288)cGc>cAc	p.R96H	TBC1D7_ENST00000379307.2_Missense_Mutation_p.R69H|TBC1D7_ENST00000356436.4_Missense_Mutation_p.R96H|TBC1D7_ENST00000607658.1_Missense_Mutation_p.R69H|TBC1D7_ENST00000607532.1_5'UTR|TBC1D7_ENST00000343141.4_Missense_Mutation_p.R96H	NM_001143964.2|NM_016495.4	NP_001137436.1|NP_057579.1	Q9P0N9	TBCD7_HUMAN	TBC1 domain family, member 7	96	Rab-GAP TBC. {ECO:0000255|PROSITE- ProRule:PRU00163}.				activation of Rho GTPase activity (GO:0032862)|negative regulation of cilium assembly (GO:1902018)|negative regulation of TOR signaling (GO:0032007)|positive regulation of GTP catabolic process (GO:0033126)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of Rab GTPase activity (GO:0032851)|response to growth factor (GO:0070848)	ciliary basal body (GO:0036064)|cytoplasmic vesicle (GO:0031410)	Rab GTPase activator activity (GO:0005097)|Rab GTPase binding (GO:0017137)			breast(1)|endometrium(1)|large_intestine(4)|lung(14)|ovary(1)|stomach(1)	22	Breast(50;0.0296)|Ovarian(93;0.0339)	all_hematologic(90;0.135)	Epithelial(50;0.0784)|BRCA - Breast invasive adenocarcinoma(129;0.13)|all cancers(50;0.21)			ACTAACAAAGCGAACGACTTT	0.498																																																0													293	257	269					6																	13321234		2203	4300	6503	SO:0001583	missense	51256			AF151073	CCDS4523.1, CCDS47376.1, CCDS58995.1	6p23	2013-07-10			ENSG00000145979	ENSG00000145979			21066	protein-coding gene	gene with protein product		612655				11042152, 17646400	Standard	XM_005249163		Approved	dJ257A7.3, FLJ32666	uc003nan.3	Q9P0N9	OTTHUMG00000014272	ENST00000379300.3:c.287G>A	6.37:g.13321234C>T	ENSP00000368602:p.Arg96His	Somatic		WXS	Illumina HiSeq	Phase_I	E7EV96|Q2TU37|Q53F44|Q5SZL7|Q86VM8|Q96MB8	Missense_Mutation	SNP	ENST00000379300.3	37	CCDS4523.1	.	.	.	.	.	.	.	.	.	.	C	15.29	2.791100	0.50102	.	.	ENSG00000145979	ENST00000334971;ENST00000421203;ENST00000356436;ENST00000379300;ENST00000379307;ENST00000343141;ENST00000452989;ENST00000450347;ENST00000422136;ENST00000446018;ENST00000420456;ENST00000428109;ENST00000416436;ENST00000379291	T;T;T;T;T;T;T;T;T;T;T;T;T	0.50813	2.22;2.22;2.22;1.24;1.35;1.25;1.25;2.22;1.22;1.2;2.22;2.22;0.73	5.85	4.99	0.66335	Rab-GAP/TBC domain (1);	0.044377	0.85682	D	0.000000	T	0.26122	0.0637	M	0.64567	1.98	0.54753	D	0.999987	P;P;B;B;B	0.38642	0.501;0.641;0.066;0.32;0.092	B;B;B;B;B	0.29942	0.109;0.109;0.008;0.081;0.01	T	0.22941	-1.0202	10	0.56958	D	0.05	-10.901	10.0772	0.42368	0.0:0.8495:0.0:0.1505	.	96;69;69;69;96	Q2TU37;Q5JPB9;Q5SZL5;Q9P0N9-2;Q9P0N9	.;.;.;.;TBCD7_HUMAN	H	37;96;96;96;69;96;69;69;96;69;69;96;96;96	ENSP00000401438:R96H;ENSP00000348813:R96H;ENSP00000368602:R96H;ENSP00000368609:R69H;ENSP00000343100:R96H;ENSP00000414292:R69H;ENSP00000404680:R69H;ENSP00000394425:R96H;ENSP00000417005:R69H;ENSP00000412102:R69H;ENSP00000414101:R96H;ENSP00000401339:R96H;ENSP00000368593:R96H	ENSP00000334212:R37H	R	-	2	0	TBC1D7	13429213	1.000000	0.71417	0.920000	0.36463	0.645000	0.38454	5.699000	0.68310	1.499000	0.48617	0.555000	0.69702	CGC		0.498	TBC1D7-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039896.2	NM_016495		T	13321234	C	T	13321234	3	4	664	1	0	0	0	0	1	0	0	0	15636	768	27	1	614	1	TBC1D7	6	13321234	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5740246	13321234	157793833	301	41611										
HIST1H3C	8352	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	26045706	26045706	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccgcgcaagcagcttgctaCtaaagcagcccgtaagagcg	11	13	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:26045706C>T	ENST00000540144.1	+	1	68	c.68C>T	c.(67-69)aCt>aTt	p.T23I	HIST1H2BB_ENST00000357905.2_5'Flank	NM_003531.2	NP_003522.1	P68431	H31_HUMAN	histone cluster 1, H3c	23					blood coagulation (GO:0007596)|chromatin organization (GO:0006325)|DNA replication-dependent nucleosome assembly (GO:0006335)|regulation of gene silencing (GO:0060968)	extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nuclear chromosome (GO:0000228)|nucleoplasm (GO:0005654)|nucleosome (GO:0000786)|nucleus (GO:0005634)|protein complex (GO:0043234)	DNA binding (GO:0003677)			NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|ovary(1)|skin(1)	8						CAGCTTGCTACTAAAGCAGCC	0.587																																																0													38	42	41					6																	26045706		2203	4300	6503	SO:0001583	missense	8352			X57128	CCDS4576.1	6p22.1	2011-01-27	2006-10-11	2003-02-14	ENSG00000196532	ENSG00000278272		"Histones / Replication-dependent"	4768	protein-coding gene	gene with protein product		602812	"H3 histone family, member C", "histone 1, H3c"	H3FC		8227173, 9119399, 12408966	Standard	NM_003531		Approved	H3/c, H3.1	uc003nfv.3	P68431	OTTHUMG00000014416	ENST00000540144.1:c.68C>T	6.37:g.26045706C>T	ENSP00000439493:p.Thr23Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJT7|A5PLR1|P02295|P02296|P16106|Q6ISV8|Q6NWP8|Q6NWP9|Q6NXU4|Q71DJ3|Q93081	Missense_Mutation	SNP	ENST00000540144.1	37	CCDS4576.1	.	.	.	.	.	.	.	.	.	.	C	10.64	1.407551	0.25378	.	.	ENSG00000196532	ENST00000540144	T	0.48836	0.8	4.67	4.67	0.58626	.	.	.	.	.	T	0.59770	0.2218	.	.	.	0.43824	D	0.996397	.	.	.	.	.	.	T	0.65249	-0.6214	6	0.87932	D	0	.	17.4292	0.87534	0.0:1.0:0.0:0.0	.	.	.	.	I	23	ENSP00000439493:T23I	ENSP00000439493:T23I	T	+	2	0	HIST1H3C	26153685	1.000000	0.71417	0.998000	0.56505	0.009000	0.06853	7.682000	0.84083	2.529000	0.85273	0.591000	0.81541	ACT		0.587	HIST1H3C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040078.1	NM_003531		T	26045706	C	T	26045706	3	4	664	1	0	0	0	0	1	0	0	0	7164	565	20	2	70	2	HIST1H3C	6	26045706	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	12724472	26045706	145069361	302	41612										
HIST1H1T	3010	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	26108074	26108074	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcttgagggacagtttgatgCggctgttattcttctctacg	11	8	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:26108074C>T	ENST00000338379.4	-	1	290	c.248G>A	c.(247-249)cGc>cAc	p.R83H		NM_005323.3	NP_005314.2	P22492	H1T_HUMAN	histone cluster 1, H1t	83	H15. {ECO:0000255|PROSITE- ProRule:PRU00837}.				binding of sperm to zona pellucida (GO:0007339)|cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|nucleosome assembly (GO:0006334)|sperm motility (GO:0030317)|spermatogenesis (GO:0007283)	condensed nuclear chromosome (GO:0000794)|nucleosome (GO:0000786)|nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(2)|endometrium(1)|lung(3)|ovary(2)|prostate(1)	9						CAGTTTGATGCGGCTGTTATT	0.502																																																0													119	118	118					6																	26108074		2203	4300	6503	SO:0001583	missense	3010			M60094	CCDS34349.1	6p22.1	2011-01-27	2006-10-11	2003-02-21	ENSG00000187475	ENSG00000187475		"Histones / Replication-dependent"	4720	protein-coding gene	gene with protein product		142712	"H1 histone family, member T (testis-specific)", "histone 1, H1t"	H1FT		8175896, 12408966	Standard	NM_005323		Approved	H1t	uc003ngj.3	P22492	OTTHUMG00000014430	ENST00000338379.4:c.248G>A	6.37:g.26108074C>T	ENSP00000341214:p.Arg83His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ISI1|Q8IUE8	Missense_Mutation	SNP	ENST00000338379.4	37	CCDS34349.1	.	.	.	.	.	.	.	.	.	.	.	18.33	3.600291	0.66332	.	.	ENSG00000187475	ENST00000338379	T	0.10382	2.88	5.53	4.67	0.58626	Histone H1/H5 (3);Winged helix-turn-helix transcription repressor DNA-binding (1);	0.000000	0.85682	D	0.000000	T	0.16557	0.0398	L	0.55481	1.735	0.49051	D	0.999744	D	0.60160	0.987	D	0.65140	0.932	T	0.00773	-1.1572	10	0.59425	D	0.04	-14.1027	13.622	0.62143	0.0:0.9264:0.0:0.0736	.	83	P22492	H1T_HUMAN	H	83	ENSP00000341214:R83H	ENSP00000341214:R83H	R	-	2	0	HIST1H1T	26216053	1.000000	0.71417	0.995000	0.50966	0.018000	0.09664	2.499000	0.45372	1.583000	0.49898	0.655000	0.94253	CGC		0.502	HIST1H1T-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040093.2	NM_005323		T	26108074	C	T	26108074	3	4	664	1	0	0	0	0	1	0	0	0	7134	768	27	1	379	1	HIST1H1T	6	26108074	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	62368	26108074	145006993	303	41613										
UBD	10537	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr6	29524017	29524017	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cccagcaaaagaacctggtcCtgcacaggaaccttggtctt	9	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:29524017C>A	ENST00000377050.4	-	2	361	c.138G>T	c.(136-138)caG>caT	p.Q46H	GABBR1_ENST00000355973.3_3'UTR	NM_006398.3	NP_006389.2	O15205	UBD_HUMAN	ubiquitin D	46	Ubiquitin-like 1. {ECO:0000255|PROSITE- ProRule:PRU00214}.				aggresome assembly (GO:0070842)|myeloid dendritic cell differentiation (GO:0043011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|protein modification by small protein conjugation (GO:0032446)|protein ubiquitination (GO:0016567)|proteolysis (GO:0006508)|response to interferon-gamma (GO:0034341)|response to organonitrogen compound (GO:0010243)|response to tumor necrosis factor (GO:0034612)|ubiquitin-dependent protein catabolic process (GO:0006511)	aggresome (GO:0016235)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	proteasome binding (GO:0070628)			kidney(1)|lung(3)|skin(1)|upper_aerodigestive_tract(1)	6						GAACCTGGTCCTGCACAGGAA	0.463																																																0													82	68	73					6																	29524017		1511	2709	4220	SO:0001583	missense	10537			Y12653	CCDS4662.1	6p21.3	2008-04-11			ENSG00000213886	ENSG00000213886			18795	protein-coding gene	gene with protein product		606050				9368598, 8662070	Standard	NM_006398		Approved	FAT10	uc003nmo.3	O15205	OTTHUMG00000031289	ENST00000377050.4:c.138G>T	6.37:g.29524017C>A	ENSP00000366249:p.Gln46His	Somatic		WXS	Illumina HiSeq	Phase_I	B0UZT6|Q5STL2|Q5SUK2|Q96EC7	Missense_Mutation	SNP	ENST00000377050.4	37	CCDS4662.1	.	.	.	.	.	.	.	.	.	.	C	16.62	3.173002	0.57584	.	.	ENSG00000213886	ENST00000377050	T	0.72725	-0.68	5.17	3.03	0.35002	Ubiquitin supergroup (1);Ubiquitin (2);	0.268702	0.18643	U	0.135240	T	0.48943	0.1528	L	0.36672	1.1	0.80722	D	1	P	0.47484	0.896	P	0.44673	0.457	T	0.55153	-0.8185	10	0.87932	D	0	-14.0263	7.8356	0.29368	0.0:0.7767:0.0:0.2233	.	46	O15205	UBD_HUMAN	H	46	ENSP00000366249:Q46H	ENSP00000366249:Q46H	Q	-	3	2	UBD	29631996	0.001000	0.12720	0.989000	0.46669	0.707000	0.40811	-0.805000	0.04530	1.162000	0.42619	0.609000	0.83330	CAG		0.463	UBD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076628.3			A	29524017	C	A	29524017	3	1	664	1	0	0	0	0	1	0	0	0	16855	680	24	4	363	4	UBD	6	29524017	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3415943	29524017	141591050	304	41614										
DDR1	780	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr6	30864435	30864435	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atggagcctgagaagccaggCgccccgcttctgcccccacc	11	18	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:30864435C>T	ENST00000324771.8	+	15	2210	c.1662C>T	c.(1660-1662)ggC>ggT	p.G554G	DDR1_ENST00000446312.1_3'UTR|DDR1_ENST00000513240.1_Silent_p.G554G|DDR1_ENST00000452441.1_Silent_p.G554G|DDR1_ENST00000508312.1_Silent_p.G535G|DDR1_ENST00000376575.3_Silent_p.G554G|DDR1_ENST00000361741.4_Intron|DDR1_ENST00000376569.3_Silent_p.G517G|DDR1_ENST00000376567.2_Silent_p.G517G|DDR1_ENST00000454612.2_Silent_p.G517G|DDR1_ENST00000376570.4_Silent_p.G517G|DDR1_ENST00000418800.2_Silent_p.G517G|DDR1_ENST00000376568.3_Silent_p.G554G			Q08345	DDR1_HUMAN	discoidin domain receptor tyrosine kinase 1	554	Gly/Pro-rich.				branching involved in mammary gland duct morphogenesis (GO:0060444)|cell adhesion (GO:0007155)|collagen-activated tyrosine kinase receptor signaling pathway (GO:0038063)|ear development (GO:0043583)|embryo implantation (GO:0007566)|extracellular matrix organization (GO:0030198)|lactation (GO:0007595)|mammary gland alveolus development (GO:0060749)|negative regulation of cell proliferation (GO:0008285)|peptidyl-tyrosine autophosphorylation (GO:0038083)|protein autophosphorylation (GO:0046777)|regulation of cell growth (GO:0001558)|regulation of cell-matrix adhesion (GO:0001952)|regulation of extracellular matrix disassembly (GO:0010715)|smooth muscle cell migration (GO:0014909)|smooth muscle cell-matrix adhesion (GO:0061302)|wound healing, spreading of cells (GO:0044319)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|collagen binding (GO:0005518)|metal ion binding (GO:0046872)|protein tyrosine kinase collagen receptor activity (GO:0038062)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			central_nervous_system(3)|endometrium(2)|kidney(1)|large_intestine(5)|liver(1)|lung(14)|ovary(1)|prostate(1)|skin(1)	29					Imatinib(DB00619)	AGAAGCCAGGCGCCCCGCTTC	0.607																																																0													42	49	46					6																	30864435		2203	4300	6503	SO:0001819	synonymous_variant	780			X99031	CCDS4690.1, CCDS34385.1, CCDS47396.1, CCDS56411.1, CCDS75419.1	6p21.33	2010-02-17	2008-01-23		ENSG00000204580	ENSG00000204580	2.7.10.1	"CD molecules"	2730	protein-coding gene	gene with protein product		600408	"discoidin domain receptor family, member 1"	NTRK4, PTK3A, NEP, CAK, EDDR1		7789998	Standard	NM_001954		Approved	RTK6, CD167	uc003nrv.3	Q08345	OTTHUMG00000031236	ENST00000324771.8:c.1662C>T	6.37:g.30864435C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B5A975|B5A976|B7Z2K0|Q14196|Q16562|Q2L6H3|Q4LE50|Q5ST11|Q5ST12|Q6NSK4|Q9UD35|Q9UD36|Q9UD37|Q9UD86|Q9UDL2	Silent	SNP	ENST00000324771.8	37	CCDS34385.1	.	.	.	.	.	.	.	.	.	.	C	8.689	0.907010	0.17833	.	.	ENSG00000204580	ENST00000514434	.	.	.	5.21	-10.4	0.00318	.	.	.	.	.	T	0.28200	0.0696	.	.	.	0.36146	D	0.847148	.	.	.	.	.	.	T	0.46414	-0.9193	4	.	.	.	.	8.6903	0.34262	0.0:0.4028:0.189:0.4082	.	.	.	.	C	46	.	.	R	+	1	0	DDR1	30972414	0.001000	0.12720	0.144000	0.22314	0.963000	0.63663	-2.977000	0.00664	-1.503000	0.01812	-1.384000	0.01168	CGC		0.607	DDR1-005	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000076494.3	NM_013994		T	30864435	C	T	30864435	2	4	664	1	0	0	0	0	0	0	0	1	4338	755	27	1		1	DDR1	6	30864435	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1340418	30864435	140250632	305	41615										
HLA-B	3106	mdanderson.org	37	chr6	31324176	31324176	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccgcggaggaggcgcccgtcCggccccacgtcgcagccgta	15	18	0	0	rs12721836	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:31324176C>G	ENST00000412585.2	-	3	415	c.387G>C	c.(385-387)ccG>ccC	p.P129P		NM_005514.6	NP_005505.2	P30486	1B48_HUMAN	major histocompatibility complex, class I, B	129	Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|immune response (GO:0006955)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|viral process (GO:0016032)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|MHC class I protein complex (GO:0042612)	peptide antigen binding (GO:0042605)			endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(4)|lung(4)|prostate(1)|upper_aerodigestive_tract(2)	27						GGCGCCCGTCCGGCCCCACGT	0.731									Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of																																							0													20	17	18					6																	31324176		1973	4106	6079	SO:0001819	synonymous_variant	3106	Familial Cancer Database	;Lichen Sclerosis, Familial	M15470	CCDS34394.1	6p21.3	2013-01-11			ENSG00000234745	ENSG00000234745		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4932	protein-coding gene	gene with protein product		142830	"ankylosing spondylitis"	AS		3459708	Standard	NM_005514		Approved		uc011imz.2	P01889	OTTHUMG00000031153	ENST00000412585.2:c.387G>C	6.37:g.31324176C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q29764	Silent	SNP	ENST00000412585.2	37	CCDS34394.1																																																																																				0.731	HLA-B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076280.4	NM_005514		G	31324176	C	G	31324176	2	3	664	1	0	0	0	0	0	0	0	1	7203	639	23	4		4	HLA-B	6	31324176	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	459741	31324176	139790891	306	41616										
MICB	4277	bcgsc.ca	37	chr6	31475183	31475183	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccctttttttcagggaaggCgctggtgcttcagagtcaac	11	10	3	1	rs45470602	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:31475183C>T	ENST00000252229.6	+	5	978	c.899C>T	c.(898-900)gCg>gTg	p.A300V	MICB_ENST00000399150.3_Missense_Mutation_p.A257V|MICB_ENST00000538442.1_Missense_Mutation_p.A268V	NM_005931.3	NP_005922.2			MHC class I polypeptide-related sequence B											NS(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(3)|prostate(1)	13						TCAGGGAAGGCGCTGGTGCTT	0.498													c|||	12	0.00239617	0.0083	0.0	5008	,	,		21752	0.0		0.001	False		,,,				2504	0.0															0								C	VAL/ALA	31,3891		0,31,1930	127	127	127		899	-0.7	0	6	dbSNP_127	127	0,8294		0,0,4147	yes	missense	MICB	NM_005931.3	64	0,31,6077	TT,TC,CC		0.0,0.7904,0.2538	benign	300/384	31475183	31,12185	1961	4147	6108	SO:0001583	missense	4277				CCDS43449.1, CCDS75422.1, CCDS75423.1	6p21.3	2013-01-11			ENSG00000204516	ENSG00000204516		"Immunoglobulin superfamily / C1-set domain containing"	7091	protein-coding gene	gene with protein product		602436				8022771	Standard	NM_005931		Approved	PERB11.2	uc003ntn.4	Q29980	OTTHUMG00000031074	ENST00000252229.6:c.899C>T	6.37:g.31475183C>T	ENSP00000252229:p.Ala300Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000252229.6	37	CCDS43449.1	5	0.0022893772893772895	4	0.008130081300813009	0	0.0	0	0.0	1	0.0013192612137203166	-	0.014	-1.587280	0.00872	0.007904	0.0	ENSG00000204516	ENST00000538442;ENST00000399150;ENST00000252229	T;T;T	0.00816	5.66;5.78;5.76	1.33	-0.662	0.11413	.	.	.	.	.	T	0.00241	0.0007	.	.	.	0.09310	N	1	B;B	0.09022	0.002;0.002	B;B	0.08055	0.003;0.002	T	0.29336	-1.0015	8	0.28530	T	0.3	.	4.7187	0.12909	0.0:0.674:0.0:0.326	rs45470602	268;257	F5H7Q8;A2AC57	.;.	V	268;257;300	ENSP00000442345:A268V;ENSP00000382103:A257V;ENSP00000252229:A300V	ENSP00000252229:A300V	A	+	2	0	MICB	31583162	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.586000	0.05787	-0.269000	0.09298	-1.358000	0.01219	GCG		0.498	MICB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076102.3	NM_005931		T	31475183	C	T	31475183	3	4	664	1	0	0	0	0	1	0	0	0	9582	768	27	1	917	1	MICB	6	31475183	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	151007	31475183	139639884	307	41617										
SLC39A7	7922	ucsc.edu;mdanderson.org	37	chr6	33169433	33169433	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctgtcactctctgggcttaTgtgagtctccaggggatggg	15	9	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:33169433T>C	ENST00000374677.3	+	1	784	c.411T>C	c.(409-411)taT>taC	p.Y137Y	RXRB_ENST00000544186.1_5'Flank|SLC39A7_ENST00000374675.3_Splice_Site_p.Y137Y|RXRB_ENST00000374685.4_5'Flank|RNY4P10_ENST00000365571.1_RNA|RXRB_ENST00000374680.3_5'Flank|RXRB_ENST00000413614.2_5'Flank|HSD17B8_ENST00000374662.3_5'Flank	NM_006979.2	NP_008910.2	Q92504	S39A7_HUMAN	solute carrier family 39 (zinc transporter), member 7	137					transmembrane transport (GO:0055085)|zinc ion transport (GO:0006829)	endoplasmic reticulum membrane (GO:0005789)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	metal ion transmembrane transporter activity (GO:0046873)			NS(1)|breast(3)|endometrium(2)|large_intestine(5)|lung(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	18						TCTGGGCTTATGTGAGTCTCC	0.572																																																0													53	53	53					6																	33169433		2021	4191	6212	SO:0001630	splice_region_variant	7922			AF117221	CCDS43453.1	6p21.3	2014-01-28		2003-10-27	ENSG00000112473	ENSG00000112473		"Solute carriers"	4927	protein-coding gene	gene with protein product		601416	"HLA class II region expressed gene KE4"	HKE4		8812499, 1855816, 19246244, 15705588	Standard	NM_006979		Approved	H2-KE4, D6S2244E, KE4, RING5, ZIP7	uc003odf.3	Q92504	OTTHUMG00000031238	ENST00000374677.3:c.411+1T>C	6.37:g.33169433T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B0UXF6|Q5STP8|Q9UIQ0	Silent	SNP	ENST00000374677.3	37	CCDS43453.1																																																																																				0.572	SLC39A7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076499.2	NM_006979	Silent	C	33169433	T	C	33169433	5	2	664	1	0	0	0	0	0	0	1	0	14636	1478	51	3	413	3	SLC39A7	6	33169433	Splice_Site	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1694250	33169433	137945634	308	41618										
MDGA1	266727	hgsc.bcm.edu	37	chr6	37618098	37618098	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggcggccgcggcttgccccGcacctcgcattgcagctcgg	14	17	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:37618098G>A	ENST00000434837.3	-	8	2574	c.1396C>T	c.(1396-1398)Cgg>Tgg	p.R466W	MDGA1_ENST00000505425.1_Missense_Mutation_p.R466W|MDGA1_ENST00000297153.7_Missense_Mutation_p.R466W|MDGA1_ENST00000510077.1_5'Flank	NM_153487.3	NP_705691.1	Q8NFP4	MDGA1_HUMAN	MAM domain containing glycosylphosphatidylinositol anchor 1	466	Ig-like 5.				brain development (GO:0007420)|cerebral cortex radially oriented cell migration (GO:0021799)|neuron migration (GO:0001764)|spinal cord association neuron differentiation (GO:0021527)	anchored component of plasma membrane (GO:0046658)|extracellular space (GO:0005615)				central_nervous_system(2)|endometrium(6)|kidney(3)|large_intestine(12)|lung(11)|prostate(1)|skin(2)|urinary_tract(1)	38						GGCTTGCCCCGCACCTCGCAT	0.706																																																0													7	10	9					6																	37618098		2028	4132	6160	SO:0001583	missense	266727			AF478693	CCDS47417.1	6p21	2013-01-29			ENSG00000112139	ENSG00000112139		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	19267	protein-coding gene	gene with protein product		609626				15922729, 15019943	Standard	NM_153487		Approved	GPIM, MAMDC3	uc003onu.1	Q8NFP4	OTTHUMG00000014626	ENST00000434837.3:c.1396C>T	6.37:g.37618098G>A	ENSP00000402584:p.Arg466Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHG0|Q8NBE3	Missense_Mutation	SNP	ENST00000434837.3	37	CCDS47417.1	.	.	.	.	.	.	.	.	.	.	G	20.8	4.056466	0.76074	.	.	ENSG00000112139	ENST00000434837;ENST00000297153;ENST00000505425	T;T;T	0.68025	-0.3;-0.3;-0.3	3.69	3.69	0.42338	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.37012	N	0.002289	T	0.67183	0.2866	L	0.43757	1.38	0.38348	D	0.944243	D	0.89917	1.0	D	0.69824	0.966	T	0.72064	-0.4403	10	0.66056	D	0.02	.	12.7081	0.57073	0.0:0.0:1.0:0.0	.	466	Q8NFP4	MDGA1_HUMAN	W	466	ENSP00000402584:R466W;ENSP00000297153:R466W;ENSP00000422042:R466W	ENSP00000297153:R466W	R	-	1	2	MDGA1	37726076	1.000000	0.71417	0.997000	0.53966	0.759000	0.43091	4.821000	0.62679	1.893000	0.54813	0.407000	0.27541	CGG		0.706	MDGA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040419.3			A	37618098	G	A	37618098	3	1	664	1	0	0	0	0	1	0	0	0	9413	1086	38	1	1511	1	MDGA1	6	37618098	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4448665	37618098	133496969	309	41619										
DNAH8	1769	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	38773263	38773263	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcttttgtctatagaacagcGgaaacacgttgtttttggaa	9	6	2	1	rs375687323		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:38773263G>A	ENST00000359357.3	+	21	2644	c.2390G>A	c.(2389-2391)cGg>cAg	p.R797Q	DNAH8_ENST00000449981.2_Missense_Mutation_p.R1014Q|DNAH8_ENST00000441566.1_Missense_Mutation_p.R797Q			Q96JB1	DYH8_HUMAN	dynein, axonemal, heavy chain 8	797					cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(7)|breast(9)|central_nervous_system(4)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(3)|kidney(16)|large_intestine(44)|liver(4)|lung(101)|ovary(7)|pancreas(2)|prostate(8)|skin(28)|stomach(4)|upper_aerodigestive_tract(6)|urinary_tract(4)	260						ATAGAACAGCGGAAACACGTT	0.328																																																0								G	GLN/ARG	0,4406		0,0,2203	100	95	97		3041	2.7	0.9	6		97	3,8597	3.0+/-9.4	0,3,4297	no	missense	DNAH8	NM_001206927.1	43	0,3,6500	AA,AG,GG		0.0349,0.0,0.0231	benign	1014/4708	38773263	3,13003	2203	4300	6503	SO:0001583	missense	1769			Z83806	CCDS75447.1	6p21.2	2012-04-19	2006-09-04		ENSG00000124721	ENSG00000124721		"Axonemal dyneins"	2952	protein-coding gene	gene with protein product		603337	"dynein, axonemal, heavy polypeptide 8"			9373155	Standard	NM_001206927		Approved	hdhc9	uc021yzh.1	Q96JB1	OTTHUMG00000016253	ENST00000359357.3:c.2390G>A	6.37:g.38773263G>A	ENSP00000352312:p.Arg797Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O00438|Q5JYI2|Q5T2M3|Q5T2M4|Q5TG00|Q9UEM4	Missense_Mutation	SNP	ENST00000359357.3	37		.	.	.	.	.	.	.	.	.	.	G	9.880	1.201280	0.22121	0.0	3.49E-4	ENSG00000124721	ENST00000449981;ENST00000327475;ENST00000359357;ENST00000441566	T;T;T	0.24151	1.9;1.89;1.87	5.45	2.68	0.31781	.	0.435915	0.21628	N	0.071528	T	0.01976	0.0062	N	0.00926	-1.1	0.24700	N	0.993261	B	0.17667	0.023	B	0.09377	0.004	T	0.47983	-0.9074	10	0.12103	T	0.63	.	9.4369	0.38643	0.2346:0.0:0.7654:0.0	.	797	Q96JB1	DYH8_HUMAN	Q	1002;1002;797;797	ENSP00000333363:R1002Q;ENSP00000352312:R797Q;ENSP00000402294:R797Q	ENSP00000333363:R1002Q	R	+	2	0	DNAH8	38881241	0.994000	0.37717	0.925000	0.36789	0.902000	0.53008	0.766000	0.26560	0.797000	0.33971	0.655000	0.94253	CGG		0.328	DNAH8-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000043574.1	NM_001206927		A	38773263	G	A	38773263	3	1	664	1	0	0	0	0	1	0	0	0	4609	1116	39	1	2464	1	DNAH8	6	38773263	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1155165	38773263	132341804	310	41620										
USP49	25862	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr6	41767668	41767668	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gggtttgggattggattttcGtcgtttgcctatgtggtttg	15	4	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:41767668G>A	ENST00000394253.3	-	5	1899	c.1570C>T	c.(1570-1572)Cga>Tga	p.R524*	USP49_ENST00000373010.1_Nonsense_Mutation_p.R524*|USP49_ENST00000373006.1_Nonsense_Mutation_p.R524*|USP49_ENST00000373009.3_Nonsense_Mutation_p.R524*|USP49_ENST00000297229.2_Nonsense_Mutation_p.R524*			Q70CQ1	UBP49_HUMAN	ubiquitin specific peptidase 49	524	USP.				histone H2B conserved C-terminal lysine deubiquitination (GO:0035616)|mRNA splicing, via spliceosome (GO:0000398)|protein deubiquitination (GO:0016579)|ubiquitin-dependent protein catabolic process (GO:0006511)	nucleus (GO:0005634)	cysteine-type endopeptidase activity (GO:0004197)|histone binding (GO:0042393)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(2)|lung(7)|ovary(3)|prostate(2)|skin(2)	23	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			TTGGATTTTCGTCGTTTGCCT	0.433																																																0													196	182	187					6																	41767668		2203	4300	6503	SO:0001587	stop_gained	25862			AJ586139	CCDS4861.1, CCDS69111.1	6p12.1	2008-02-05	2005-08-08		ENSG00000164663	ENSG00000164663		"Ubiquitin-specific peptidases"	20078	protein-coding gene	gene with protein product			"ubiquitin specific protease 49"			14715245	Standard	NM_018561		Approved	MGC20741	uc003ori.3	Q70CQ1	OTTHUMG00000014688	ENST00000394253.3:c.1570C>T	6.37:g.41767668G>A	ENSP00000377797:p.Arg524*	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3D9|Q5T3E0|Q96CK4	Nonsense_Mutation	SNP	ENST00000394253.3	37		.	.	.	.	.	.	.	.	.	.	G	40	8.030610	0.98619	.	.	ENSG00000164663	ENST00000394253;ENST00000373010;ENST00000373009;ENST00000373006;ENST00000297229	.	.	.	5.67	4.81	0.61882	.	0.000000	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	0.1102	9.2025	0.37268	0.0736:0.0:0.7818:0.1446	.	.	.	.	X	524	.	ENSP00000297229:R524X	R	-	1	2	USP49	41875646	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.391000	0.66266	1.416000	0.47057	0.655000	0.94253	CGA		0.433	USP49-007	KNOWN	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000316513.3	NM_018561		A	41767668	G	A	41767668	4	1	664	1	0	0	0	0	0	1	0	0	17092	1153	40	1	360	1	USP49	6	41767668	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2994405	41767668	129347399	311	41621										
UBR2	23304	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	42641562	42641562	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggtcattgacgagatttgccGcagcacactggacagtggca	13	10	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:42641562G>A	ENST00000372899.1	+	37	4378	c.4120G>A	c.(4120-4122)Gca>Aca	p.A1374T	UBR2_ENST00000372883.3_3'UTR|UBR2_ENST00000372901.1_Missense_Mutation_p.A1374T	NM_015255.2	NP_056070.1	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin 2	1374					cellular response to leucine (GO:0071233)|chromatin silencing (GO:0006342)|histone H2A ubiquitination (GO:0033522)|male meiosis I (GO:0007141)|negative regulation of TOR signaling (GO:0032007)|spermatogenesis (GO:0007283)|ubiquitin-dependent protein catabolic process (GO:0006511)	chromatin (GO:0000785)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ubiquitin ligase complex (GO:0000151)	leucine binding (GO:0070728)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(10)|kidney(7)|large_intestine(14)|lung(22)|ovary(3)|pancreas(1)|skin(5)	64	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)			GAGATTTGCCGCAGCACACTG	0.353																																																0													150	131	138					6																	42641562		2203	4300	6503	SO:0001583	missense	23304			BC024217	CCDS4870.1, CCDS55001.1	6p21.1	2008-06-23	2005-01-10	2005-01-12	ENSG00000024048	ENSG00000024048		"Ubiquitin protein ligase E3 component n-recognins"	21289	protein-coding gene	gene with protein product		609134	"chromosome 6 open reading frame 133"	C6orf133			Standard	NM_015255		Approved	bA49A4.1, dJ392M17.3, KIAA0349	uc011dur.2	Q8IWV8	OTTHUMG00000014703	ENST00000372899.1:c.4120G>A	6.37:g.42641562G>A	ENSP00000361990:p.Ala1374Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O15057|Q4VXK2|Q5TFH6|Q6P2I2|Q6ZUD0	Missense_Mutation	SNP	ENST00000372899.1	37	CCDS4870.1	.	.	.	.	.	.	.	.	.	.	G	13.50	2.254407	0.39896	.	.	ENSG00000024048	ENST00000372899;ENST00000372901	T;T	0.57595	0.39;0.39	5.27	4.39	0.52855	.	0.231094	0.45126	D	0.000387	T	0.26340	0.0643	L	0.42245	1.32	0.80722	D	1	B;B	0.27951	0.06;0.195	B;B	0.24394	0.023;0.053	T	0.07654	-1.0761	10	0.22109	T	0.4	-30.9545	13.6138	0.62094	0.0:0.0:0.719:0.281	.	1374;1374	Q8IWV8-4;Q8IWV8	.;UBR2_HUMAN	T	1374	ENSP00000361990:A1374T;ENSP00000361992:A1374T	ENSP00000361990:A1374T	A	+	1	0	UBR2	42749540	1.000000	0.71417	1.000000	0.80357	0.746000	0.42486	2.869000	0.48444	1.196000	0.43129	-0.314000	0.08810	GCA		0.353	UBR2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040558.2	NM_015255		A	42641562	G	A	42641562	3	1	664	1	0	0	0	0	1	0	0	0	16914	1087	38	1	4412	1	UBR2	6	42641562	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	873894	42641562	128473505	312	41622										
CUL9	23113	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	43164505	43164505	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gttgtttaggcactcagggaTagcaccaagaacagaaccta	10	9	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:43164505T>C	ENST00000252050.4	+	11	2792	c.2708T>C	c.(2707-2709)aTa>aCa	p.I903T	CUL9_ENST00000354495.3_Missense_Mutation_p.I793T|CUL9_ENST00000372647.2_Missense_Mutation_p.I903T	NM_015089.2	NP_055904.1	Q8IWT3	CUL9_HUMAN	cullin 9	903					microtubule cytoskeleton organization (GO:0000226)|protein ubiquitination (GO:0016567)|regulation of mitosis (GO:0007088)|ubiquitin-dependent protein catabolic process (GO:0006511)	cullin-RING ubiquitin ligase complex (GO:0031461)|cytoplasm (GO:0005737)	ATP binding (GO:0005524)|zinc ion binding (GO:0008270)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(18)|liver(1)|lung(30)|ovary(5)|prostate(3)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(4)	92						CACTCAGGGATAGCACCAAGA	0.537																																																0													198	164	175					6																	43164505		2203	4300	6503	SO:0001583	missense	23113			AB014608	CCDS4890.1	6p21.1	2011-05-24			ENSG00000112659	ENSG00000112659			15982	protein-coding gene	gene with protein product	"parkin-like cytoplasmic p53 binding protein", "p53-associated parkin-like cytoplasmic protein"	607489				17332328, 10521492, 12526791	Standard	NM_015089		Approved	H7AP1, KIAA0708, PARC	uc003ouk.3	Q8IWT3	OTTHUMG00000014723	ENST00000252050.4:c.2708T>C	6.37:g.43164505T>C	ENSP00000252050:p.Ile903Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O75188|Q5TCY3|Q68CP2|Q68D92|Q8N3W9|Q9BU56	Missense_Mutation	SNP	ENST00000252050.4	37	CCDS4890.1	.	.	.	.	.	.	.	.	.	.	T	12.31	1.898417	0.33535	.	.	ENSG00000112659	ENST00000252050;ENST00000354495;ENST00000372647	T;T;T	0.72394	-0.65;-0.65;-0.54	5.08	3.86	0.44501	Armadillo-type fold (1);	1.226840	0.05326	N	0.527436	T	0.34221	0.0890	N	0.22421	0.69	0.09310	N	0.999999	B;B;B	0.33379	0.038;0.41;0.41	B;B;B	0.25614	0.006;0.062;0.062	T	0.11203	-1.0597	10	0.21014	T	0.42	-4.0112	9.0056	0.36109	0.0:0.0:0.1852:0.8148	.	793;903;903	Q8IWT3-3;E9PEZ1;Q8IWT3	.;.;CUL9_HUMAN	T	903;793;903	ENSP00000252050:I903T;ENSP00000346490:I793T;ENSP00000361730:I903T	ENSP00000252050:I903T	I	+	2	0	CUL9	43272483	0.127000	0.22367	0.848000	0.33437	0.492000	0.33523	2.030000	0.41108	2.146000	0.66826	0.533000	0.62120	ATA		0.537	CUL9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040582.2	NM_015089		C	43164505	T	C	43164505	3	2	664	1	0	0	0	0	1	0	0	0	4063	1406	49	3	2746	3	CUL9	6	43164505	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	522943	43164505	127950562	313	41623										
ZNF318	24149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	43309889	43309889	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttgtcagtgcgctttatggCatcttgcttggcctcactct	9	12	4	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:43309889C>T	ENST00000361428.2	-	8	3414	c.3337G>A	c.(3337-3339)Gcc>Acc	p.A1113T	ZNF318_ENST00000318149.3_Intron	NM_014345.2	NP_055160.2	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	1113					meiotic nuclear division (GO:0007126)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(8)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(11)|lung(21)|ovary(3)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	61			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			CGCTTTATGGCATCTTGCTTG	0.468																																																0													229	182	198					6																	43309889		2203	4300	6503	SO:0001583	missense	24149			AF090114	CCDS4895.2	6p21.1	2013-09-19			ENSG00000171467	ENSG00000171467		"Zinc fingers, C2H2-type"	13578	protein-coding gene	gene with protein product						10873617	Standard	NM_014345		Approved	HRIHFB2436, ZFP318	uc003oux.3	Q5VUA4	OTTHUMG00000014732	ENST00000361428.2:c.3337G>A	6.37:g.43309889C>T	ENSP00000354964:p.Ala1113Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O94796|Q4G0E4|Q8NEM6|Q9UNU8|Q9Y2W9	Missense_Mutation	SNP	ENST00000361428.2	37	CCDS4895.2	.	.	.	.	.	.	.	.	.	.	C	9.480	1.097997	0.20552	.	.	ENSG00000171467	ENST00000361428	T	0.11495	2.77	5.9	-2.06	0.07298	.	0.784196	0.12292	N	0.481978	T	0.01800	0.0057	L	0.44542	1.39	0.09310	N	1	B	0.09022	0.002	B	0.06405	0.002	T	0.47235	-0.9133	10	0.12103	T	0.63	-0.731	3.3182	0.07040	0.1321:0.2018:0.1162:0.5499	.	1113	Q5VUA4	ZN318_HUMAN	T	1113	ENSP00000354964:A1113T	ENSP00000354964:A1113T	A	-	1	0	ZNF318	43417867	0.015000	0.18098	0.354000	0.25760	0.924000	0.55760	0.041000	0.13927	-0.086000	0.12550	0.563000	0.77884	GCC		0.468	ZNF318-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040601.2	NM_014345		T	43309889	C	T	43309889	3	4	664	1	0	0	0	0	1	0	0	0	17848	710	25	2	3514	2	ZNF318	6	43309889	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	145384	43309889	127805178	314	41624										
ZNF318	24149	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	43323076	43323076	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atctgaggaacgtcgatcagCtgagaagcagtggtcaactg	13	8	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:43323076C>A	ENST00000361428.2	-	4	2073	c.1996G>T	c.(1996-1998)Gct>Tct	p.A666S	ZNF318_ENST00000318149.3_Missense_Mutation_p.A666S	NM_014345.2	NP_055160.2	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	666					meiotic nuclear division (GO:0007126)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(8)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(11)|lung(21)|ovary(3)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	61			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			CGTCGATCAGCTGAGAAGCAG	0.547																																																0													152	118	130					6																	43323076		2203	4300	6503	SO:0001583	missense	24149			AF090114	CCDS4895.2	6p21.1	2013-09-19			ENSG00000171467	ENSG00000171467		"Zinc fingers, C2H2-type"	13578	protein-coding gene	gene with protein product						10873617	Standard	NM_014345		Approved	HRIHFB2436, ZFP318	uc003oux.3	Q5VUA4	OTTHUMG00000014732	ENST00000361428.2:c.1996G>T	6.37:g.43323076C>A	ENSP00000354964:p.Ala666Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O94796|Q4G0E4|Q8NEM6|Q9UNU8|Q9Y2W9	Missense_Mutation	SNP	ENST00000361428.2	37	CCDS4895.2	.	.	.	.	.	.	.	.	.	.	C	3.285	-0.146181	0.06627	.	.	ENSG00000171467	ENST00000318149;ENST00000361428	T;T	0.30714	1.52;2.82	3.9	-0.753	0.11068	.	0.375070	0.21947	N	0.066800	T	0.02888	0.0086	N	0.04508	-0.205	0.28921	N	0.892149	B	0.18166	0.026	B	0.16289	0.015	T	0.44922	-0.9296	10	0.07644	T	0.81	-0.7498	8.3459	0.32272	0.3916:0.5317:0.0:0.0767	.	666	Q5VUA4	ZN318_HUMAN	S	666	ENSP00000323032:A666S;ENSP00000354964:A666S	ENSP00000323032:A666S	A	-	1	0	ZNF318	43431054	0.995000	0.38212	0.978000	0.43139	0.717000	0.41224	0.646000	0.24797	0.026000	0.15269	0.306000	0.20318	GCT		0.547	ZNF318-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040601.2	NM_014345		A	43323076	C	A	43323076	3	1	664	1	0	0	0	0	1	0	0	0	17848	797	28	4	4871	4	ZNF318	6	43323076	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	13187	43323076	127791991	315	41625										
ABCC10	89845	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	43415467	43415467	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggggcgtggagttccaggacGtggtgttggcgtaccggcca	19	9	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:43415467G>A	ENST00000372530.4	+	18	3966	c.3751G>A	c.(3751-3753)Gtg>Atg	p.V1251M	ABCC10_ENST00000244533.3_Missense_Mutation_p.V1223M	NM_001198934.1	NP_001185863.1	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 10	1251	ABC transporter 2. {ECO:0000255|PROSITE- ProRule:PRU00434}.				transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(6)|kidney(4)|large_intestine(8)|lung(21)|ovary(7)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	56	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)		Cyclosporine(DB00091)|Cytarabine(DB00987)|Daunorubicin(DB00694)|Docetaxel(DB01248)|Doxorubicin(DB00997)|Estradiol(DB00783)|Etoposide(DB00773)|Gemcitabine(DB00441)|Methotrexate(DB00563)|Paclitaxel(DB01229)|Sildenafil(DB00203)|Tenofovir(DB00300)|Verapamil(DB00661)|Vincristine(DB00541)	GTTCCAGGACGTGGTGTTGGC	0.662																																																0													141	152	148					6																	43415467		2203	4300	6503	SO:0001583	missense	89845			U66684	CCDS4896.1, CCDS56430.1	6p12.3	2012-03-14			ENSG00000124574	ENSG00000124574		"ATP binding cassette transporters / subfamily C"	52	protein-coding gene	gene with protein product		612509				8894702	Standard	NM_033450		Approved	EST182763, MRP7, SIMRP7	uc003ouy.1	Q5T3U5	OTTHUMG00000014733	ENST00000372530.4:c.3751G>A	6.37:g.43415467G>A	ENSP00000361608:p.Val1251Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHX7|Q9H7N2|Q9NXY3|Q9UF48	Missense_Mutation	SNP	ENST00000372530.4	37	CCDS56430.1	.	.	.	.	.	.	.	.	.	.	G	33	5.204917	0.95033	.	.	ENSG00000124574	ENST00000372530;ENST00000244533;ENST00000443394	D;D	0.92446	-3.04;-3.04	5.61	5.61	0.85477	ABC transporter-like (1);	0.065822	0.64402	D	0.000010	D	0.95906	0.8667	M	0.79693	2.465	0.80722	D	1	D;D	0.89917	1.0;0.999	D;P	0.75020	0.985;0.866	D	0.95443	0.8527	10	0.56958	D	0.05	-37.1139	19.6398	0.95753	0.0:0.0:1.0:0.0	.	1223;1251	Q5T3U5-2;Q5T3U5	.;MRP7_HUMAN	M	1251;1223;2	ENSP00000361608:V1251M;ENSP00000244533:V1223M	ENSP00000244533:V1223M	V	+	1	0	ABCC10	43523445	1.000000	0.71417	0.986000	0.45419	0.985000	0.73830	9.862000	0.99564	2.641000	0.89580	0.591000	0.81541	GTG		0.662	ABCC10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040603.2	NM_033450		A	43415467	G	A	43415467	3	1	664	1	0	0	0	0	1	0	0	0	50	1145	40	1	3729	1	ABCC10	6	43415467	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	92391	43415467	127699600	316	41626										
SPATS1	221409	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr6	44329698	44329698	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggtctctatcagagaggacGgtggacaagtgctttgggag	16	6	2	1	rs371949352		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:44329698G>A	ENST00000288390.2	+	4	890	c.543G>A	c.(541-543)acG>acA	p.T181T	SPATS1_ENST00000323108.8_Silent_p.T181T|RP11-444E17.6_ENST00000505802.1_3'UTR			Q496A3	SPAS1_HUMAN	spermatogenesis associated, serine-rich 1	181										NS(1)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|liver(2)|lung(5)|skin(1)|urinary_tract(1)	14	all_lung(25;0.00469)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CAGAGAGGACGGTGGACAAGT	0.498																																																0								G		2,4404	2.1+/-5.4	0,2,2201	188	181	183		543	-7.9	0.1	6		183	0,8600		0,0,4300	no	coding-synonymous	SPATS1	NM_145026.3		0,2,6501	AA,AG,GG		0.0,0.0454,0.0154		181/301	44329698	2,13004	2203	4300	6503	SO:0001819	synonymous_variant	221409			AK058171	CCDS4911.1	6p21.1	2003-08-08			ENSG00000249481	ENSG00000249481			22957	protein-coding gene	gene with protein product							Standard	NM_145026		Approved	SPATA8, FLJ25442, SRSP1	uc021yzz.1	Q496A3	OTTHUMG00000014764	ENST00000288390.2:c.543G>A	6.37:g.44329698G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q496A2|Q496A5|Q96LJ0	Silent	SNP	ENST00000288390.2	37	CCDS4911.1																																																																																				0.498	SPATS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040738.2	NM_145026		A	44329698	G	A	44329698	2	1	664	1	0	0	0	0	0	0	0	1	15030	1103	39	1		1	SPATS1	6	44329698	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	914231	44329698	126785369	317	41627										
SUPT3H	8464	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	45290634	45290634	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acctgtcaaagttgaagaacGttgttccaaagaccaccatg	8	10	1	3	rs9472463	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:45290634G>A	ENST00000371460.1	-	3	337	c.20C>T	c.(19-21)aCg>aTg	p.T7M	SUPT3H_ENST00000459689.1_Intron|SUPT3H_ENST00000371461.2_Missense_Mutation_p.T7M|SUPT3H_ENST00000371459.1_Intron|SUPT3H_ENST00000306867.5_Intron	NM_181356.2	NP_852001.1	O75486	SUPT3_HUMAN	suppressor of Ty 3 homolog (S. cerevisiae)	0					chromatin organization (GO:0006325)|histone deubiquitination (GO:0016578)|histone H3 acetylation (GO:0043966)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|STAGA complex (GO:0030914)|transcription factor TFTC complex (GO:0033276)	transcription coactivator activity (GO:0003713)			breast(2)|kidney(1)|large_intestine(3)|lung(3)|ovary(2)|skin(1)	12						GTTGAAGAACGTTGTTCCAAA	0.413													G|||	23	0.00459265	0.0008	0.0029	5008	,	,		16239	0.0		0.0179	False		,,,				2504	0.002															0								G	,MET/THR	16,4390	24.3+/-50.5	0,16,2187	108	95	99		,20	4.3	1	6	dbSNP_119	99	133,8467	67.0+/-129.4	1,131,4168	yes	intron,missense	SUPT3H	NM_003599.2,NM_181356.1	,81	1,147,6355	AA,AG,GG		1.5465,0.3631,1.1456	,	,7/329	45290634	149,12857	2203	4300	6503	SO:0001583	missense	8464			AF069734	CCDS34465.1, CCDS34466.1, CCDS75464.1	6p21.1-p12.3	2008-05-15	2001-11-28		ENSG00000196284	ENSG00000196284			11466	protein-coding gene	gene with protein product		602947	"suppressor of Ty (S.cerevisiae) 3 homolog"			9674425, 9726987	Standard	NM_003599		Approved	SPT3, SPT3L	uc003oxp.4	O75486	OTTHUMG00000014773	ENST00000371460.1:c.20C>T	6.37:g.45290634G>A	ENSP00000360515:p.Thr7Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKG9|B2R9Q5|O76066|Q5TAV9|Q86VN7	Missense_Mutation	SNP	ENST00000371460.1	37	CCDS34466.1	17	0.007783882783882784	1	0.0020325203252032522	2	0.0055248618784530384	0	0.0	14	0.018469656992084433	G	14.57	2.574496	0.45902	0.003631	0.015465	ENSG00000196284	ENST00000371460;ENST00000371461	T;T	0.48836	0.8;0.8	5.23	4.34	0.51931	.	1.633690	0.03317	N	0.191370	T	0.22044	0.0531	.	.	.	0.27760	N	0.94385	B	0.12013	0.005	B	0.14023	0.01	T	0.18398	-1.0338	9	0.87932	D	0	.	8.3299	0.32180	0.08:0.0:0.7657:0.1543	rs9472463;rs52806481;rs56415076;rs9472463	7	O75486-3	.	M	7	ENSP00000360515:T7M;ENSP00000360516:T7M	ENSP00000360515:T7M	T	-	2	0	SUPT3H	45398612	1.000000	0.71417	0.972000	0.41901	0.993000	0.82548	2.849000	0.48286	1.293000	0.44690	0.557000	0.71058	ACG		0.413	SUPT3H-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000106910.3	NM_181356		A	45290634	G	A	45290634	3	1	664	1	0	0	0	0	1	0	0	0	15409	1145	40	1	1010	1	SUPT3H	6	45290634	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	960936	45290634	125824433	318	41628										
RUNX2	860	mdanderson.org	37	chr6	45459753	45459753	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgatttagggcgcattcctcAtcccagtatgagagtaggtg	12	8	1	2	rs377128508		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:45459753A>G	ENST00000371438.1	+	5	1119	c.761A>G	c.(760-762)cAt>cGt	p.H254R	RUNX2_ENST00000371436.6_Missense_Mutation_p.H254R|RUNX2_ENST00000541979.1_Missense_Mutation_p.H322R|RUNX2_ENST00000352853.5_Missense_Mutation_p.H322R|RUNX2_ENST00000465038.2_Missense_Mutation_p.H254R|RUNX2_ENST00000359524.5_Missense_Mutation_p.H240R|RUNX2_ENST00000371432.3_Missense_Mutation_p.H240R|RUNX2_ENST00000576263.1_Missense_Mutation_p.H254R	NM_001024630.3	NP_001019801.3	Q13950	RUNX2_HUMAN	runt-related transcription factor 2	254	Pro/Ser/Thr-rich.|Required for interaction with FOXO1. {ECO:0000250}.				BMP signaling pathway (GO:0030509)|cell maturation (GO:0048469)|cellular response to BMP stimulus (GO:0071773)|chondrocyte development (GO:0002063)|embryonic cranial skeleton morphogenesis (GO:0048701)|embryonic forelimb morphogenesis (GO:0035115)|endochondral ossification (GO:0001958)|gene expression (GO:0010467)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription, DNA-templated (GO:0045892)|odontogenesis of dentin-containing tooth (GO:0042475)|ossification (GO:0001503)|osteoblast development (GO:0002076)|osteoblast differentiation (GO:0001649)|osteoblast fate commitment (GO:0002051)|positive regulation of cell proliferation (GO:0008284)|positive regulation of chondrocyte differentiation (GO:0032332)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus (GO:1901522)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of fibroblast growth factor receptor signaling pathway (GO:0040036)|regulation of odontogenesis of dentin-containing tooth (GO:0042487)|stem cell differentiation (GO:0048863)|T cell differentiation (GO:0030217)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|endometrium(2)|kidney(1)|large_intestine(5)|liver(1)|lung(18)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	34						CGCATTCCTCATCCCAGTATG	0.478																																																0								A	ARG/HIS,ARG/HIS,ARG/HIS	0,4406		0,0,2203	419	323	356		719,761,761	6	1	6		356	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,missense	RUNX2	NM_004348.3,NM_001024630.3,NM_001015051.3	29,29,29	0,1,6502	GG,GA,AA		0.0116,0.0,0.0077	benign,benign,benign	240/508,254/522,254/500	45459753	1,13005	2203	4300	6503	SO:0001583	missense	860			AF001450	CCDS43467.1, CCDS43468.1, CCDS43467.2, CCDS43468.2	6p21	2010-08-20			ENSG00000124813	ENSG00000124813			10472	protein-coding gene	gene with protein product		600211		CCD, CBFA1, CCD1		7835892	Standard	NM_001024630		Approved	AML3, PEBP2A1, PEBP2aA1	uc011dvx.2	Q13950	OTTHUMG00000014774	ENST00000371438.1:c.761A>G	6.37:g.45459753A>G	ENSP00000360493:p.His254Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O14614|O14615|O95181	Missense_Mutation	SNP	ENST00000371438.1	37	CCDS43467.2	.	.	.	.	.	.	.	.	.	.	A	8.548	0.874842	0.17395	0.0	1.16E-4	ENSG00000124813	ENST00000465038;ENST00000352853;ENST00000541979;ENST00000371438;ENST00000371436;ENST00000359524;ENST00000371432	D;D;D;D;D;D;D	0.96745	-4.1;-4.11;-4.11;-4.1;-4.1;-4.09;-4.1	6.03	6.03	0.97812	.	0.054231	0.85682	D	0.000000	D	0.85414	0.5691	N	0.12182	0.205	0.49582	D	0.999807	B;B;B	0.19706	0.029;0.038;0.017	B;B;B	0.19946	0.027;0.01;0.009	T	0.82766	-0.0295	10	0.07644	T	0.81	-8.894	16.5655	0.84588	1.0:0.0:0.0:0.0	.	322;254;240	F6RGB9;Q13950;Q13950-2	.;RUNX2_HUMAN;.	R	254;322;322;254;254;240;240	ENSP00000420707:H254R;ENSP00000319087:H322R;ENSP00000446290:H322R;ENSP00000360493:H254R;ENSP00000360491:H254R;ENSP00000352514:H240R;ENSP00000360486:H240R	ENSP00000319087:H322R	H	+	2	0	RUNX2	45567731	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	6.414000	0.73318	2.302000	0.77476	0.533000	0.62120	CAT		0.478	RUNX2-003	KNOWN	not_organism_supported|upstream_ATG|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040755.2	NM_004348		G	45459753	A	G	45459753	3	3	664	1	0	0	0	0	1	0	0	0	13761	217	8	3	795	3	RUNX2	6	45459753	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	169119	45459753	125655314	319	41629										
PKHD1	5314	hgsc.bcm.edu;bcgsc.ca	37	chr6	51695719	51695719	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	attgttgtatcctccccagcCttcttcaacaccttgccatg	5	15	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:51695719C>A	ENST00000371117.3	-	52	8517	c.8242G>T	c.(8242-8244)Ggc>Tgc	p.G2748C	PKHD1_ENST00000340994.4_Missense_Mutation_p.G2748C	NM_138694.3	NP_619639.3	P08F94	PKHD1_HUMAN	polycystic kidney and hepatic disease 1 (autosomal recessive)	2748	G8 2. {ECO:0000255|PROSITE- ProRule:PRU00817}.				cellular calcium ion homeostasis (GO:0006874)|cilium assembly (GO:0042384)|homeostatic process (GO:0042592)|kidney development (GO:0001822)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cellular component movement (GO:0051271)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of protein kinase B signaling (GO:0051898)|positive regulation of cell proliferation (GO:0008284)|regulation of centrosome duplication (GO:0010824)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of TOR signaling (GO:0032006)|single organismal cell-cell adhesion (GO:0016337)	anchored component of external side of plasma membrane (GO:0031362)|apical plasma membrane (GO:0016324)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|mitotic spindle (GO:0072686)|perinuclear region of cytoplasm (GO:0048471)|primary cilium (GO:0072372)	receptor activity (GO:0004872)			NS(1)|autonomic_ganglia(1)|breast(8)|central_nervous_system(5)|cervix(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(59)|lung(139)|ovary(16)|prostate(8)|skin(20)|soft_tissue(1)|stomach(2)|upper_aerodigestive_tract(7)|urinary_tract(5)	304	Lung NSC(77;0.0605)					CCTCCCCAGCCTTCTTCAACA	0.428																																																0													120	108	112					6																	51695719		2203	4300	6503	SO:0001583	missense	5314			AF480064	CCDS4935.1, CCDS4936.1	6p21.2-p12	2012-11-26	2003-04-16		ENSG00000170927	ENSG00000170927			9016	protein-coding gene	gene with protein product	"tigmin", "polyductin", "fibrocystin"	606702	"TIG multiple domains 1"	TIGM1		9503014	Standard	NM_138694		Approved	ARPKD, FCYT	uc003pah.1	P08F94	OTTHUMG00000014841	ENST00000371117.3:c.8242G>T	6.37:g.51695719C>A	ENSP00000360158:p.Gly2748Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUA2|Q5VUA3|Q5VWV1|Q86Z26|Q8TCZ9	Missense_Mutation	SNP	ENST00000371117.3	37	CCDS4935.1	.	.	.	.	.	.	.	.	.	.	C	19.56	3.850298	0.71719	.	.	ENSG00000170927	ENST00000371117;ENST00000340994;ENST00000393616	D;D	0.88431	-2.2;-2.38	5.32	4.45	0.53987	G8 domain (1);	0.000000	0.64402	D	0.000001	D	0.91938	0.7447	M	0.72118	2.19	0.41357	D	0.987406	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.92929	0.6362	10	0.72032	D	0.01	.	13.2455	0.60020	0.0:0.9231:0.0:0.0769	.	2748;2748;2748	A8MVM9;P08F94-2;P08F94	.;.;PKHD1_HUMAN	C	2748	ENSP00000360158:G2748C;ENSP00000341097:G2748C	ENSP00000341097:G2748C	G	-	1	0	PKHD1	51803678	1.000000	0.71417	0.853000	0.33588	0.989000	0.77384	5.161000	0.64935	1.220000	0.43490	0.655000	0.94253	GGC		0.428	PKHD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040893.1	NM_138694		A	51695719	C	A	51695719	3	1	664	1	0	0	0	0	1	0	0	0	11978	681	24	4	4085	4	PKHD1	6	51695719	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	6235966	51695719	119419348	320	41630										
TINAG	27283	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	54214609	54214609	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtctgatgggcgaggaaaacGgcatgccacgaagccatgtc	14	10	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:54214609G>A	ENST00000259782.4	+	7	1091	c.995G>A	c.(994-996)cGg>cAg	p.R332Q		NM_014464.3	NP_055279.3	Q9UJW2	TINAG_HUMAN	tubulointerstitial nephritis antigen	332					cell adhesion (GO:0007155)|immune response (GO:0006955)	basement membrane (GO:0005604)	cysteine-type endopeptidase activity (GO:0004197)|nucleotide binding (GO:0000166)|polysaccharide binding (GO:0030247)|scavenger receptor activity (GO:0005044)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(11)|ovary(4)|skin(1)	34	Lung NSC(77;0.0518)		LUSC - Lung squamous cell carcinoma(124;0.246)			CGAGGAAAACGGCATGCCACG	0.463																																																0													154	141	145					6																	54214609		2203	4300	6503	SO:0001583	missense	27283			AB022277	CCDS4955.1	6p12.1	2008-05-15			ENSG00000137251	ENSG00000137251			14599	protein-coding gene	gene with protein product		606749				10652240	Standard	NM_014464		Approved		uc003pcj.2	Q9UJW2	OTTHUMG00000014893	ENST00000259782.4:c.995G>A	6.37:g.54214609G>A	ENSP00000259782:p.Arg332Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T467|Q9UJW1|Q9ULZ4	Missense_Mutation	SNP	ENST00000259782.4	37	CCDS4955.1	.	.	.	.	.	.	.	.	.	.	G	33	5.241226	0.95272	.	.	ENSG00000137251	ENST00000339741;ENST00000259782;ENST00000370865	D	0.83992	-1.79	5.87	5.87	0.94306	Peptidase C1A, papain C-terminal (2);	0.166795	0.41712	D	0.000836	D	0.85626	0.5740	L	0.55103	1.725	0.80722	D	1	D	0.89917	1.0	D	0.73380	0.98	T	0.80986	-0.1137	10	0.18710	T	0.47	.	17.7085	0.88315	0.0:0.0:1.0:0.0	.	332	Q9UJW2	TINAG_HUMAN	Q	191;332;11	ENSP00000259782:R332Q	ENSP00000259782:R332Q	R	+	2	0	TINAG	54322568	1.000000	0.71417	0.999000	0.59377	0.997000	0.91878	4.653000	0.61462	2.785000	0.95823	0.591000	0.81541	CGG		0.463	TINAG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040984.1	NM_014464		A	54214609	G	A	54214609	3	1	664	1	0	0	0	0	1	0	0	0	15933	1116	39	1	1021	1	TINAG	6	54214609	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2518890	54214609	116900458	321	41631										
COL21A1	81578	broad.mit.edu	37	chr6	56044473	56044473	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gacgaaggcttgttggcaatAgctctaagttcggcatcttc	11	9	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:56044473A>G	ENST00000244728.5	-	3	940	c.543T>C	c.(541-543)gcT>gcC	p.A181A	COL21A1_ENST00000535941.1_Silent_p.A181A|COL21A1_ENST00000370819.1_Silent_p.A181A	NM_030820.3	NP_110447.2	Q96P44	COLA1_HUMAN	collagen, type XXI, alpha 1	181	VWFA. {ECO:0000255|PROSITE- ProRule:PRU00219}.				extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)				breast(1)|endometrium(1)|kidney(3)|large_intestine(11)|lung(21)|ovary(2)|prostate(2)	41	Lung NSC(77;0.0483)		LUSC - Lung squamous cell carcinoma(124;0.181)			TGTTGGCAATAGCTCTAAGTT	0.383																																																0													88	82	84					6																	56044473		1907	4133	6040	SO:0001819	synonymous_variant	81578			AF330693	CCDS55025.1	6p12.3-p11.2	2013-01-16			ENSG00000124749	ENSG00000124749		"Collagens"	17025	protein-coding gene	gene with protein product		610002				11566190	Standard	XR_241922		Approved		uc003pcs.3	Q96P44	OTTHUMG00000014907	ENST00000244728.5:c.543T>C	6.37:g.56044473A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NIX5|B2R8J9|Q49A51|Q71RF4|Q8WXV8|Q9H0V3	Silent	SNP	ENST00000244728.5	37	CCDS55025.1																																																																																				0.383	COL21A1-001	KNOWN	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000041004.2			G	56044473	A	G	56044473	2	3	664	1	0	0	0	0	0	0	0	1	3682	407	15	3		3	COL21A1	6	56044473	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	1829864	56044473	115070594	322	41632										
DST	667	broad.mit.edu	37	chr6	56335939	56335939	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	catcaataaattcctgccgcGttattttcccatcctggtct	5	13	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:56335939G>A	ENST00000361203.3	-	90	21333	c.21326C>T	c.(21325-21327)aCg>aTg	p.T7109M	DST_ENST00000312431.6_3'UTR|DST_ENST00000244364.6_Missense_Mutation_p.T4806M|DST_ENST00000370769.4_Missense_Mutation_p.T7220M|DST_ENST00000370788.2_Missense_Mutation_p.T5023M|DST_ENST00000421834.2_Missense_Mutation_p.T5105M|DST_ENST00000446842.2_Missense_Mutation_p.T6894M|DST_ENST00000370754.5_Missense_Mutation_p.T7398M			Q03001	DYST_HUMAN	dystonin	7218					axonogenesis (GO:0007409)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cell motility (GO:0048870)|cytoplasmic microtubule organization (GO:0031122)|cytoskeleton organization (GO:0007010)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)|integrin-mediated signaling pathway (GO:0007229)|intermediate filament cytoskeleton organization (GO:0045104)|maintenance of cell polarity (GO:0030011)|microtubule cytoskeleton organization (GO:0000226)|regulation of microtubule polymerization or depolymerization (GO:0031110)|response to wounding (GO:0009611)|retrograde axon cargo transport (GO:0008090)	actin cytoskeleton (GO:0015629)|axon (GO:0030424)|basal plasma membrane (GO:0009925)|basement membrane (GO:0005604)|cell leading edge (GO:0031252)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|integral component of membrane (GO:0016021)|intermediate filament (GO:0005882)|intermediate filament cytoskeleton (GO:0045111)|microtubule cytoskeleton (GO:0015630)|microtubule plus-end (GO:0035371)|neurofilament cytoskeleton (GO:0060053)|nucleus (GO:0005634)|Z disc (GO:0030018)	calcium ion binding (GO:0005509)|integrin binding (GO:0005178)|microtubule plus-end binding (GO:0051010)|protein C-terminus binding (GO:0008022)|protein homodimerization activity (GO:0042803)			NS(1)|breast(5)|central_nervous_system(8)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(22)|lung(43)|ovary(7)|prostate(1)|skin(4)|upper_aerodigestive_tract(3)	105	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TTCCTGCCGCGTTATTTTCCC	0.363																																																0													64	62	63					6																	56335939		1859	4129	5988	SO:0001583	missense	667			M22942, M69225	CCDS4959.1, CCDS47443.1, CCDS75474.1	6p12.1	2013-01-10	2004-06-25	2004-07-01	ENSG00000151914	ENSG00000151914		"EF-hand domain containing"	1090	protein-coding gene	gene with protein product		113810	"bullous pemphigoid antigen 1, 230/240kDa"	BPAG1		2461961, 2276744	Standard	NM_001144770		Approved	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2	uc021zba.2	Q03001	OTTHUMG00000014913	ENST00000361203.3:c.21326C>T	6.37:g.56335939G>A	ENSP00000354508:p.Thr7109Met	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3H1|O94833|Q12825|Q13266|Q13267|Q13775|Q5TBT0|Q5TBT2|Q5TF23|Q5TF24|Q8N1T8|Q8N8J3|Q8WXK8|Q8WXK9|Q96AK9|Q96DQ5|Q96J76|Q96QT5|Q9H555|Q9UGD7|Q9UGD8|Q9UN10	Missense_Mutation	SNP	ENST00000361203.3	37		.	.	.	.	.	.	.	.	.	.	G	21.7	4.191243	0.78902	.	.	ENSG00000151914	ENST00000244364;ENST00000370754;ENST00000370769;ENST00000421834;ENST00000446842;ENST00000370788;ENST00000361203	T;T;T;T;T;T;T	0.74106	-0.81;-0.81;-0.81;-0.81;-0.81;-0.81;-0.81	6.02	6.02	0.97574	EF-hand-like domain (1);	0.000000	0.56097	D	0.000029	D	0.90431	0.7004	H	0.95294	3.65	0.32881	D	0.510558	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.97110	0.999;1.0;0.999;1.0;0.998	D	0.91704	0.5376	9	0.66056	D	0.02	.	20.5407	0.99260	0.0:0.0:1.0:0.0	.	5105;7220;7398;7218;4806	Q5TBT1;E7ERU2;E9PEB9;Q03001;Q03001-8	.;.;.;DYST_HUMAN;.	M	4806;7398;7220;5105;6894;5023;7109	ENSP00000244364:T4806M;ENSP00000359790:T7398M;ENSP00000359805:T7220M;ENSP00000400883:T5105M;ENSP00000393645:T6894M;ENSP00000359824:T5023M;ENSP00000354508:T7109M	ENSP00000244364:T4806M	T	-	2	0	DST	56443898	1.000000	0.71417	0.997000	0.53966	0.985000	0.73830	9.869000	0.99810	2.865000	0.98341	0.655000	0.94253	ACG		0.363	DST-004	NOVEL	not_organism_supported|basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000041021.3	NM_001723		A	56335939	G	A	56335939	3	1	664	1	0	0	0	0	1	0	0	0	4785	1145	40	1	1134	1	DST	6	56335939	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	291466	56335939	114779128	323	41633										
PHIP	55023	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	79711796	79711796	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tacaaaattgttggcatcacGaataagtggccgataatcac	8	8	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:79711796G>A	ENST00000275034.4	-	17	1866	c.1699C>T	c.(1699-1701)Cgt>Tgt	p.R567C		NM_017934.5	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	567					cytoskeleton organization (GO:0007010)|insulin receptor signaling pathway (GO:0008286)|negative regulation of apoptotic process (GO:0043066)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|positive regulation of cell proliferation (GO:0008284)|positive regulation of insulin-like growth factor receptor signaling pathway (GO:0043568)|positive regulation of mitosis (GO:0045840)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein import into nucleus (GO:0006606)|regulation of cell morphogenesis (GO:0022604)|regulation of growth (GO:0040008)|regulation of protein phosphorylation (GO:0001932)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	insulin receptor binding (GO:0005158)|lysine-acetylated histone binding (GO:0070577)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(10)|kidney(4)|large_intestine(20)|lung(20)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(3)	68		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		TTGGCATCACGAATAAGTGGC	0.373																																																0													118	109	112					6																	79711796		2203	4300	6503	SO:0001583	missense	55023			AF310250	CCDS4987.1	6q14	2013-01-09			ENSG00000146247	ENSG00000146247		"WD repeat domain containing", "DDB1 and CUL4 associated factors"	15673	protein-coding gene	gene with protein product	"DDB1 and CUL4 associated factor 14"	612870		WDR11		11018022	Standard	NM_017934		Approved	ndrp, FLJ20705, DCAF14, BRWD2	uc003pir.3	Q8WWQ0	OTTHUMG00000015071	ENST00000275034.4:c.1699C>T	6.37:g.79711796G>A	ENSP00000275034:p.Arg567Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A7J992|B2RPK4|Q05CQ9|Q5VVH4|Q66I29|Q69YV1|Q8NBZ5|Q96H52|Q96ME2|Q9H261	Missense_Mutation	SNP	ENST00000275034.4	37	CCDS4987.1	.	.	.	.	.	.	.	.	.	.	G	14.22	2.471484	0.43942	.	.	ENSG00000146247	ENST00000275034	T	0.51071	0.72	5.63	4.76	0.60689	.	0.147419	0.48286	D	0.000199	T	0.67581	0.2908	M	0.91196	3.185	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.79784	0.993;0.993	T	0.76454	-0.2953	9	.	.	.	-13.6584	13.1967	0.59743	0.0:0.0:0.7104:0.2896	.	567;567	A7J992;Q8WWQ0	.;PHIP_HUMAN	C	567	ENSP00000275034:R567C	.	R	-	1	0	PHIP	79768515	1.000000	0.71417	1.000000	0.80357	0.017000	0.09413	9.358000	0.97109	1.492000	0.48499	-0.175000	0.13238	CGT		0.373	PHIP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041297.2			A	79711796	G	A	79711796	3	1	664	1	0	0	0	0	1	0	0	0	11849	1058	37	1	3862	1	PHIP	6	79711796	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	23375857	79711796	91403271	324	41634										
TTK	7272	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr6	80749554	80749554	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atcatgaaattgaatttcccGatattccagagaaagatctt	6	7	2	4	rs2230512	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:80749554G>A	ENST00000369798.2	+	19	2383	c.2272G>A	c.(2272-2274)Gat>Aat	p.D758N	TTK_ENST00000230510.3_Missense_Mutation_p.D757N|TTK_ENST00000509894.1_Missense_Mutation_p.D757N	NM_001166691.1|NM_003318.4	NP_001160163.1|NP_003309.2	P33981	TTK_HUMAN	TTK protein kinase	758	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.		D -> N (in dbSNP:rs2230512).		chromosome separation (GO:0051304)|mitotic spindle assembly checkpoint (GO:0007094)|mitotic spindle organization (GO:0007052)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of cell proliferation (GO:0008284)|positive regulation of pathway-restricted SMAD protein phosphorylation (GO:0010862)|spindle organization (GO:0007051)	membrane (GO:0016020)|spindle (GO:0005819)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|protein tyrosine kinase activity (GO:0004713)	p.D742N(1)		endometrium(4)|kidney(2)|large_intestine(12)|lung(22)|ovary(7)|pancreas(1)|prostate(1)|stomach(3)|urinary_tract(1)	53		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		TGAATTTCCCGATATTCCAGA	0.269													G|||	11	0.00219649	0.0083	0.0	5008	,	,		12837	0.0		0.0	False		,,,				2504	0.0															1	Substitution - Missense(1)	large_intestine(1)						G	ASN/ASP,ASN/ASP	45,4357	46.7+/-81.2	0,45,2156	54	54	54		2269,2272	4.9	1	6	dbSNP_98	54	0,8578		0,0,4289	yes	missense,missense	TTK	NM_001166691.1,NM_003318.4	23,23	0,45,6445	AA,AG,GG		0.0,1.0223,0.3467	benign,benign	757/857,758/858	80749554	45,12935	2201	4289	6490	SO:0001583	missense	7272				CCDS4993.1, CCDS55040.1	6q14.1	2014-04-07			ENSG00000112742	ENSG00000112742			12401	protein-coding gene	gene with protein product	"cancer/testis antigen 96", "monopolar spindle 1 kinase"	604092				1639825	Standard	NM_003318		Approved	MPS1, MPS1L1, CT96, MPH1	uc003pjc.3	P33981	OTTHUMG00000015088	ENST00000369798.2:c.2272G>A	6.37:g.80749554G>A	ENSP00000358813:p.Asp758Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8U5|B2RDW2|E1P543|Q15272|Q5TCS0|Q9BW51|Q9NTM0	Missense_Mutation	SNP	ENST00000369798.2	37	CCDS4993.1	5	0.0022893772893772895	5	0.01016260162601626	0	0.0	0	0.0	0	0.0	G	10.12	1.261975	0.23051	0.010223	0.0	ENSG00000112742	ENST00000509894;ENST00000230510;ENST00000369798	T;T;T	0.74209	-0.82;-0.82;-0.82	5.75	4.89	0.63831	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.132776	0.64402	D	0.000002	T	0.46776	0.1410	L	0.41824	1.3	0.49582	D	0.999806	B;P	0.34615	0.073;0.459	B;B	0.29716	0.023;0.106	T	0.50197	-0.8856	10	0.30078	T	0.28	.	9.9745	0.41774	0.153:0.0:0.847:0.0	rs2230512	758;757	P33981;A8K8U5	TTK_HUMAN;.	N	757;757;758	ENSP00000422936:D757N;ENSP00000230510:D757N;ENSP00000358813:D758N	ENSP00000230510:D757N	D	+	1	0	TTK	80806273	1.000000	0.71417	1.000000	0.80357	0.073000	0.16967	7.681000	0.84073	1.424000	0.47217	0.650000	0.86243	GAT		0.269	TTK-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000041316.2			A	80749554	G	A	80749554	3	1	664	1	0	0	0	0	1	0	0	0	16732	1058	37	1	2342	1	TTK	6	80749554	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1037758	80749554	90365513	325	41635										
SNX14	57231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	86248557	86248557	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcacatgctcaagacttaccGaaaatcatccaaacttaggc	5	12	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:86248557G>A	ENST00000314673.3	-	16	1650	c.1474C>T	c.(1474-1476)Cgg>Tgg	p.R492W	SNX14_ENST00000346348.3_Intron|SNX14_ENST00000369627.2_Intron|SNX14_ENST00000513865.1_Intron|SNX14_ENST00000505648.1_Splice_Site_p.R440W|SNX14_ENST00000508980.1_Intron	NM_153816.3	NP_722523.1	Q9Y5W7	SNX14_HUMAN	sorting nexin 14	492					protein transport (GO:0015031)|termination of G-protein coupled receptor signaling pathway (GO:0038032)	integral component of membrane (GO:0016021)	phosphatidylinositol binding (GO:0035091)			NS(1)|endometrium(1)|kidney(2)|large_intestine(6)|lung(11)|skin(1)	22		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)		AAGACTTACCGAAAATCATCC	0.303																																																0													75	74	74					6																	86248557		2203	4298	6501	SO:0001630	splice_region_variant	57231			AF121863	CCDS5003.1, CCDS5004.1, CCDS75490.1	6q15	2008-10-22			ENSG00000135317	ENSG00000135317		"Sorting nexins"	14977	protein-coding gene	gene with protein product						11485546, 11736640	Standard	XM_005248738		Approved	RGS-PX2	uc003pkr.3	Q9Y5W7	OTTHUMG00000015140	ENST00000314673.3:c.1475+1C>T	6.37:g.86248557G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DI55|Q4VBR3|Q5TCF9|Q5TCG0|Q6NUI7|Q6PI37|Q9BSD1	Missense_Mutation	SNP	ENST00000314673.3	37	CCDS5004.1	.	.	.	.	.	.	.	.	.	.	G	24.5	4.533886	0.85812	.	.	ENSG00000135317	ENST00000314673;ENST00000505648	T;T	0.26660	1.72;1.76	5.86	5.86	0.93980	.	0.416196	0.28790	N	0.014139	T	0.31606	0.0802	L	0.27053	0.805	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.83275	0.996;0.996	T	0.03840	-1.0999	10	0.46703	T	0.11	-8.079	18.7712	0.91893	0.0:0.0:1.0:0.0	.	492;440	Q9Y5W7;Q9Y5W7-3	SNX14_HUMAN;.	W	492;440	ENSP00000313121:R492W;ENSP00000427380:R440W	ENSP00000313121:R492W	R	-	1	2	SNX14	86305276	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	5.878000	0.69682	2.771000	0.95319	0.563000	0.77884	CGG		0.303	SNX14-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041393.2	NM_153816	Missense_Mutation	A	86248557	G	A	86248557	5	1	664	1	0	0	0	0	0	0	1	0	14898	1072	37	1	1422	1	SNX14	6	86248557	Splice_Site	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5499003	86248557	84866510	326	41636										
C6orf165	154313	mdanderson.org;bcgsc.ca	37	chr6	88173817	88173817	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agaaaattgttcccaagtgtAccctccaaaggacactagca	7	11	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:88173817A>G	ENST00000507897.1	+	13	1801	c.1718A>G	c.(1717-1719)tAc>tGc	p.Y573C	C6orf165_ENST00000506888.1_3'UTR|C6ORF165_ENST00000369562.4_Missense_Mutation_p.Y573C			Q8IYR0	CF165_HUMAN	chromosome 6 open reading frame 165	573										NS(1)|central_nervous_system(1)|large_intestine(5)|lung(8)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	19		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)		TCCCAAGTGTACCCTCCAAAG	0.473																																																0													66	60	62					6																	88173817		2203	4300	6503	SO:0001583	missense	154313			BC035083	CCDS34498.1	6q15	2012-02-07			ENSG00000213204	ENSG00000213204			21405	protein-coding gene	gene with protein product							Standard	NM_001031743		Approved	FLJ25974, dJ382I10.1	uc003plv.3	Q8IYR0	OTTHUMG00000015173	ENST00000507897.1:c.1718A>G	6.37:g.88173817A>G	ENSP00000426769:p.Tyr573Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K969|E1P507|Q8N9U4	Missense_Mutation	SNP	ENST00000507897.1	37	CCDS34498.1	.	.	.	.	.	.	.	.	.	.	A	12.75	2.030745	0.35797	.	.	ENSG00000213204	ENST00000369562	T	0.37752	1.18	5.68	4.5	0.54988	.	0.165538	0.56097	D	0.000028	T	0.47340	0.1440	M	0.75447	2.3	0.52501	D	0.999955	D	0.89917	1.0	D	0.76071	0.987	T	0.50415	-0.8831	10	0.46703	T	0.11	.	12.0793	0.53662	0.871:0.0:0.0:0.129	.	573	Q8IYR0	CF165_HUMAN	C	573	ENSP00000358575:Y573C	ENSP00000358575:Y573C	Y	+	2	0	C6orf165	88230536	1.000000	0.71417	0.298000	0.25002	0.165000	0.22458	4.968000	0.63728	0.955000	0.37878	0.460000	0.39030	TAC		0.473	C6orf165-001	KNOWN	basic|appris_principal|readthrough_transcript|CCDS	nonsense_mediated_decay	protein_coding	OTTHUMT00000470406.1	NM_178823		G	88173817	A	G	88173817	3	3	664	1	0	0	0	0	1	0	0	0	2343	391	14	3	1764	3	C6orf165	6	88173817	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	1925260	88173817	82941250	327	41637										
CNR1	1268	broad.mit.edu	37	chr6	88853689	88853689	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acactggctgcattgtttgcGtgtttgtgcaggcagtccga	13	9	0	0	rs75641625	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:88853689G>A	ENST00000537554.1	-	2	4867	c.1305C>T	c.(1303-1305)caC>caT	p.H435H	CNR1_ENST00000428600.2_Silent_p.H435H|CNR1_ENST00000549890.1_Silent_p.H435H|CNR1_ENST00000369499.2_Silent_p.H435H|CNR1_ENST00000369501.2_Silent_p.H435H|CNR1_ENST00000549716.1_Silent_p.H374H|CNR1_ENST00000535130.1_Silent_p.H435H|CNR1_ENST00000468898.1_Silent_p.H402H|CNR1_ENST00000362094.5_3'UTR	NM_001160226.1|NM_001160258.1	NP_001153698.1|NP_001153730.1	P21554	CNR1_HUMAN	cannabinoid receptor 1 (brain)	435					adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|aging (GO:0007568)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|glucose homeostasis (GO:0042593)|maternal process involved in female pregnancy (GO:0060135)|memory (GO:0007613)|negative regulation of action potential (GO:0045759)|negative regulation of blood pressure (GO:0045776)|negative regulation of dopamine secretion (GO:0033602)|negative regulation of fatty acid beta-oxidation (GO:0031999)|negative regulation of mast cell activation (GO:0033004)|negative regulation of nitric-oxide synthase activity (GO:0051001)|positive regulation of acute inflammatory response to antigenic stimulus (GO:0002866)|positive regulation of apoptotic process (GO:0043065)|positive regulation of blood pressure (GO:0045777)|positive regulation of fever generation (GO:0031622)|positive regulation of neuron projection development (GO:0010976)|regulation of feeding behavior (GO:0060259)|regulation of insulin secretion (GO:0050796)|regulation of penile erection (GO:0060405)|regulation of synaptic transmission, GABAergic (GO:0032228)|regulation of synaptic transmission, glutamatergic (GO:0051966)|response to cocaine (GO:0042220)|response to ethanol (GO:0045471)|response to lipopolysaccharide (GO:0032496)|response to morphine (GO:0043278)|response to nicotine (GO:0035094)|response to nutrient (GO:0007584)|sensory perception of pain (GO:0019233)|spermatogenesis (GO:0007283)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cannabinoid receptor activity (GO:0004949)|drug binding (GO:0008144)			breast(2)|endometrium(3)|kidney(1)|large_intestine(7)|liver(1)|lung(11)|prostate(1)|skin(10)|urinary_tract(1)	37		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Dronabinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	CATTGTTTGCGTGTTTGTGCA	0.557																																																0								G	,,,,	1,4405	2.1+/-5.4	0,1,2202	200	180	187		1305,1305,1305,1305,1206	-8.8	0.1	6	dbSNP_131	187	6,8594	5.0+/-18.6	0,6,4294	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	CNR1	NM_001160226.1,NM_001160258.1,NM_001160259.1,NM_016083.4,NM_033181.3	,,,,	0,7,6496	AA,AG,GG		0.0698,0.0227,0.0538	,,,,	435/473,435/473,435/473,435/473,402/440	88853689	7,12999	2203	4300	6503	SO:0001819	synonymous_variant	1268			AF107262	CCDS5015.1, CCDS5016.1, CCDS5016.2	6q14-q15	2012-08-08			ENSG00000118432	ENSG00000118432		"GPCR / Class A : Cannabinoid receptors"	2159	protein-coding gene	gene with protein product		114610		CNR			Standard	NM_016083		Approved	CB1K5, CB-R, CB1, CANN6, CB1A	uc003pmq.4	P21554	OTTHUMG00000015184	ENST00000537554.1:c.1305C>T	6.37:g.88853689G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9T4|E1P512|Q13949|Q495Z0|Q4PLI4|Q4VBM6|Q5JVL5|Q5UB37|Q9UNN0	Silent	SNP	ENST00000537554.1	37	CCDS5015.1																																																																																				0.557	CNR1-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354204.2			A	88853689	G	A	88853689	2	1	664	1	0	0	0	0	0	0	0	1	3633	1136	40	1		1	CNR1	6	88853689	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	679872	88853689	82261378	328	41638										
ANKRD6	22881	hgsc.bcm.edu;ucsc.edu	37	chr6	90333671	90333671	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgcatgctcataatcacccTaaaaagaggaacaggcatcg	8	11	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:90333671T>C	ENST00000522441.1	+	12	1754	c.1113T>C	c.(1111-1113)ccT>ccC	p.P371P	ANKRD6_ENST00000520793.1_Silent_p.P312P|ANKRD6_ENST00000339746.4_Silent_p.P371P|LYRM2_ENST00000520441.1_Intron|ANKRD6_ENST00000369408.5_Silent_p.P336P|ANKRD6_ENST00000447838.2_Silent_p.P371P	NM_001242811.1	NP_001229740.1	Q9Y2G4	ANKR6_HUMAN	ankyrin repeat domain 6	371					negative regulation of canonical Wnt signaling pathway (GO:0090090)|positive regulation of JNK cascade (GO:0046330)|positive regulation of Wnt signaling pathway, planar cell polarity pathway (GO:2000096)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				NS(1)|endometrium(3)|large_intestine(7)|lung(3)|ovary(3)|pancreas(1)|prostate(1)|stomach(2)	21		all_cancers(76;1.22e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;1.83e-05)|Lung NSC(302;0.239)		BRCA - Breast invasive adenocarcinoma(108;0.0209)		ATAATCACCCTAAAAAGAGGA	0.537																																																0													101	106	105					6																	90333671		2078	4216	6294	SO:0001819	synonymous_variant	22881			AB023174	CCDS47460.1, CCDS56441.1, CCDS56442.1, CCDS56443.1	6q14.2-q16.1	2013-03-20			ENSG00000135299	ENSG00000135299		"Ankyrin repeat domain containing"	17280	protein-coding gene	gene with protein product		610583					Standard	NM_001242809		Approved	KIAA0957	uc003pni.4	Q9Y2G4	OTTHUMG00000015202	ENST00000522441.1:c.1113T>C	6.37:g.90333671T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KUC3|Q5JUJ4|Q5JUJ5|Q8IUQ8|Q9NU24|Q9UFQ9	Silent	SNP	ENST00000522441.1	37	CCDS56441.1																																																																																				0.537	ANKRD6-006	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000376594.1			C	90333671	T	C	90333671	2	2	664	1	0	0	0	0	0	0	0	1	685	1509	53	3		3	ANKRD6	6	90333671	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1479982	90333671	80781396	329	41639										
BACH2	60468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr6	90661558	90661558	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgtaggcaaactgtaacagCggcccaaagcccctggctgt	12	12	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:90661558C>T	ENST00000257749.4	-	7	974	c.267G>A	c.(265-267)ccG>ccA	p.P89P	BACH2_ENST00000343122.3_Silent_p.P89P|BACH2_ENST00000537989.1_Silent_p.P89P|RP3-512E2.2_ENST00000413986.1_RNA|RP3-512E2.2_ENST00000445838.1_RNA	NM_021813.2	NP_068585.1	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper transcription factor 2	89	BTB. {ECO:0000255|PROSITE- ProRule:PRU00037}.					cytoplasm (GO:0005737)|nucleus (GO:0005634)	RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001206)			central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(18)|ovary(5)|pancreas(1)|prostate(1)|skin(3)|urinary_tract(1)	45		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)		ACTGTAACAGCGGCCCAAAGC	0.527																																																0													46	46	46					6																	90661558		2202	4297	6499	SO:0001819	synonymous_variant	60468			AL121787	CCDS5026.1	6q15	2013-01-10			ENSG00000112182	ENSG00000112182		"BTB/POZ domain containing", "basic leucine zipper proteins"	14078	protein-coding gene	gene with protein product		605394				10949928, 12829606	Standard	NM_001170794		Approved	BTBD25	uc003pnw.3	Q9BYV9	OTTHUMG00000015216	ENST00000257749.4:c.267G>A	6.37:g.90661558C>T		Somatic		WXS	Illumina HiSeq	Phase_I	E1P518|Q59H70|Q5T793|Q9NTS5	Silent	SNP	ENST00000257749.4	37	CCDS5026.1																																																																																				0.527	BACH2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041522.2	NM_021813		T	90661558	C	T	90661558	2	4	664	1	0	0	0	0	0	0	0	1	1284	755	27	1		1	BACH2	6	90661558	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	327887	90661558	80453509	330	41640										
MAP3K7	6885	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr6	91261815	91261815	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aatttcctccattgaagggcGctgggaaggatctttagacc	11	9	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:91261815G>A	ENST00000369329.3	-	8	981	c.820C>T	c.(820-822)Cgc>Tgc	p.R274C	MAP3K7_ENST00000369332.3_Missense_Mutation_p.R274C|MAP3K7_ENST00000369325.3_Missense_Mutation_p.R274C|MAP3K7_ENST00000369327.3_Missense_Mutation_p.R274C|MAP3K7_ENST00000369320.1_5'UTR	NM_145331.2	NP_663304.1	O43318	M3K7_HUMAN	mitogen-activated protein kinase kinase kinase 7	274	Interaction with MAPK8IP1. {ECO:0000250}.|Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of MAPK activity (GO:0000187)|activation of MAPKK activity (GO:0000186)|activation of NF-kappaB-inducing kinase activity (GO:0007250)|angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|Fc-epsilon receptor signaling pathway (GO:0038095)|histone H3 acetylation (GO:0043966)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|I-kappaB phosphorylation (GO:0007252)|innate immune response (GO:0045087)|JNK cascade (GO:0007254)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic signaling pathway (GO:2001234)|negative regulation of ripoptosome assembly involved in necroptotic process (GO:1902443)|neural tube formation (GO:0001841)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interleukin-2 production (GO:0032743)|positive regulation of JNK cascade (GO:0046330)|positive regulation of JUN kinase activity (GO:0043507)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of T cell activation (GO:0050870)|positive regulation of T cell cytokine production (GO:0002726)|regulation of reactive oxygen species metabolic process (GO:2000377)|stress-activated MAPK cascade (GO:0051403)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	Ada2/Gcn5/Ada3 transcription activator complex (GO:0005671)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome membrane (GO:0010008)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|MAP kinase kinase activity (GO:0004708)|MAP kinase kinase kinase activity (GO:0004709)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|scaffold protein binding (GO:0097110)			endometrium(4)|kidney(1)|large_intestine(5)|lung(10)|ovary(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	28		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)		ATTGAAGGGCGCTGGGAAGGA	0.413																																																0													125	121	122					6																	91261815		2203	4300	6503	SO:0001583	missense	6885			AB009356	CCDS5027.1, CCDS5028.1, CCDS5029.1, CCDS5030.1	6q15	2011-06-09			ENSG00000135341	ENSG00000135341		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6859	protein-coding gene	gene with protein product		602614		TAK1		9466656	Standard	NM_003188		Approved	MEKK7	uc003pnz.2	O43318	OTTHUMG00000015217	ENST00000369329.3:c.820C>T	6.37:g.91261815G>A	ENSP00000358335:p.Arg274Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE27|E1P523|O43317|O43319|Q5TDN2|Q5TDN3|Q5TDT7|Q9NTR3|Q9NZ70	Missense_Mutation	SNP	ENST00000369329.3	37	CCDS5028.1	.	.	.	.	.	.	.	.	.	.	G	23.3	4.400848	0.83120	.	.	ENSG00000135341	ENST00000369332;ENST00000369329;ENST00000369325;ENST00000369327;ENST00000450832	T;T;T;T	0.76316	-1.01;-1.01;-1.01;-1.01	5.76	5.76	0.90799	Serine-threonine/tyrosine-protein kinase (2);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.109878	0.64402	D	0.000005	D	0.93288	0.7861	H	0.99668	4.69	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	1.0;1.0;1.0;1.0	D	0.95357	0.8452	10	0.87932	D	0	.	15.1047	0.72312	0.0:0.0:0.8584:0.1416	.	274;274;274;274	O43318-4;O43318-2;O43318-3;O43318	.;.;.;M3K7_HUMAN	C	274;274;274;274;201	ENSP00000358338:R274C;ENSP00000358335:R274C;ENSP00000358331:R274C;ENSP00000358333:R274C	ENSP00000358331:R274C	R	-	1	0	MAP3K7	91318536	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.607000	0.54102	2.880000	0.98712	0.650000	0.86243	CGC		0.413	MAP3K7-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000041530.1	NM_145331		A	91261815	G	A	91261815	3	1	664	1	0	0	0	0	1	0	0	0	9262	1087	38	1	1040	1	MAP3K7	6	91261815	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	600257	91261815	79853252	331	41641										
PRDM1	639	broad.mit.edu;mdanderson.org	37	chr6	106553250	106553250	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccgccagctttcatcccctcGtacaacgctcactaccccaa	4	20	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:106553250G>A	ENST00000369096.4	+	5	1449	c.1215G>A	c.(1213-1215)tcG>tcA	p.S405S	PRDM1_ENST00000369089.3_Silent_p.S271S|PRDM1_ENST00000369091.2_Silent_p.S369S	NM_001198.3	NP_001189.2	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain	405					cell fate commitment (GO:0045165)|eye photoreceptor cell development (GO:0042462)|germ cell development (GO:0007281)|intestinal epithelial cell development (GO:0060576)|maternal placenta development (GO:0001893)|negative regulation of B cell proliferation (GO:0030889)|negative regulation of lipopolysaccharide-mediated signaling pathway (GO:0031665)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of B cell differentiation (GO:0045579)|positive regulation of gene expression (GO:0010628)|post-embryonic development (GO:0009791)|transcription, DNA-templated (GO:0006351)|trophoblast giant cell differentiation (GO:0060707)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|methyltransferase activity (GO:0008168)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(59)|kidney(1)|large_intestine(6)|lung(10)|ovary(1)|skin(5)|urinary_tract(2)	94	Breast(9;0.022)	all_cancers(87;2.2e-31)|all_epithelial(87;2.03e-21)|Acute lymphoblastic leukemia(125;4.99e-11)|all_lung(197;7.55e-09)|all_hematologic(75;5.82e-08)|Lung NSC(302;1.28e-06)|Colorectal(196;0.0112)|Ovarian(999;0.0365)		all cancers(137;1.83e-46)|Epithelial(106;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(136;1.99e-20)|GBM - Glioblastoma multiforme(226;3.72e-11)|BRCA - Breast invasive adenocarcinoma(108;1.38e-05)		TCATCCCCTCGTACAACGCTC	0.582			"D, N, Mis, F, S"		DLBCL																																		Rec	yes		6	6q21	639	"PR domain containing 1, with ZNF domain"		L	0													85	63	71					6																	106553250		2203	4300	6503	SO:0001819	synonymous_variant	639				CCDS5054.2, CCDS34505.1	6q21	2013-01-08			ENSG00000057657	ENSG00000057657		"Zinc fingers, C2H2-type"	9346	protein-coding gene	gene with protein product		603423		BLIMP1		1851123	Standard	NM_001198		Approved	PRDI-BF1	uc003prd.2	O75626	OTTHUMG00000015299	ENST00000369096.4:c.1215G>A	6.37:g.106553250G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2REA6|E1P5E0|Q86WM7	Silent	SNP	ENST00000369096.4	37	CCDS5054.2																																																																																				0.582	PRDM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041661.3			A	106553250	G	A	106553250	2	1	664	1	0	0	0	0	0	0	0	1	12460	1132	40	1		1	PRDM1	6	106553250	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	15291435	106553250	64561817	332	41642										
AIM1	202	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr6	107000090	107000090	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggcccaaggagacgaaatcAggtaactttaaaaatattct	8	7	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:107000090A>G	ENST00000369066.3	+	13	4734	c.4247A>G	c.(4246-4248)cAg>cGg	p.Q1416R	AIM1_ENST00000535438.1_Splice_Site_p.Q235R|AIM1_ENST00000487681.1_3'UTR	NM_001624.2	NP_001615	Q9UMX9	S45A2_HUMAN	absent in melanoma 1	0					developmental pigmentation (GO:0048066)|melanin biosynthetic process (GO:0042438)|response to stimulus (GO:0050896)|visual perception (GO:0007601)	integral component of membrane (GO:0016021)				breast(8)|central_nervous_system(1)|cervix(2)|endometrium(6)|kidney(7)|large_intestine(13)|lung(20)|ovary(5)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	69	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		AGACGAAATCAGGTAACttta	0.328																																																0													15	16	16					6																	107000090		2186	4259	6445	SO:0001630	splice_region_variant	202			U83115	CCDS34506.1	6q21	2014-01-29			ENSG00000112297	ENSG00000112297			356	protein-coding gene	gene with protein product	"suppression of tumorigenicity 4", "beta-gamma crystallin domain containing 1"	601797	"suppression of tumorigenicity 4 (malignant melanoma)"	ST4		1680551, 12693952	Standard	NM_001624		Approved	CRYBG1	uc003prh.3	Q9Y4K1	OTTHUMG00000015302	ENST00000369066.3:c.4248+1A>G	6.37:g.107000090A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6P2P0|Q9BTM3	Missense_Mutation	SNP	ENST00000369066.3	37	CCDS34506.1	.	.	.	.	.	.	.	.	.	.	A	15.84	2.951320	0.53186	.	.	ENSG00000112297	ENST00000369066;ENST00000457437;ENST00000535438	T;T;T	0.74842	-0.88;-0.88;-0.88	5.53	5.53	0.82687	Beta/gamma crystallin (4);Gamma-crystallin-related (1);	0.482215	0.19530	N	0.112062	T	0.49064	0.1535	N	0.16790	0.44	0.41292	D	0.986988	B;B	0.22683	0.011;0.073	B;B	0.25987	0.024;0.065	T	0.55573	-0.8120	10	0.62326	D	0.03	.	13.6978	0.62591	1.0:0.0:0.0:0.0	.	235;1416	B4DU04;Q9Y4K1	.;AIM1_HUMAN	R	1416;235;235	ENSP00000358062:Q1416R;ENSP00000391419:Q235R;ENSP00000439183:Q235R	ENSP00000358062:Q1416R	Q	+	2	0	AIM1	107106783	1.000000	0.71417	1.000000	0.80357	0.948000	0.59901	2.853000	0.48317	2.226000	0.72624	0.460000	0.39030	CAG		0.328	AIM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041669.1		Missense_Mutation	G	107000090	A	G	107000090	5	3	664	1	0	0	0	0	0	0	1	0	430	202	7	3	4297	3	AIM1	6	107000090	Splice_Site	SNP	A	TCGA-KN-8428-01A-11D-2310-10	446840	107000090	64114977	333	41643										
SCML4	256380	bcgsc.ca	37	chr6	108042039	108042039	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agcggtggcagcaggaccacCcccaaggtggctgtctccag	14	14	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:108042039C>T	ENST00000369020.3	-	6	1086	c.841G>A	c.(841-843)Ggt>Agt	p.G281S	SCML4_ENST00000369021.3_Missense_Mutation_p.G252S|SCML4_ENST00000479803.1_5'UTR|SCML4_ENST00000369022.2_Missense_Mutation_p.G223S|SCML4_ENST00000369025.2_Missense_Mutation_p.G39S	NM_198081.3	NP_932347.2	Q8N228	SCML4_HUMAN	sex comb on midleg-like 4 (Drosophila)	281					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)			endometrium(2)|large_intestine(7)|lung(11)|ovary(3)|prostate(1)|skin(1)	25		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)		GCAGGACCACCCCCAAGGTGG	0.662																																																0													43	50	48					6																	108042039		2203	4300	6503	SO:0001583	missense	256380				CCDS5060.2, CCDS69163.1, CCDS75500.1	6q21	2013-01-10			ENSG00000146285	ENSG00000146285		"Sterile alpha motif (SAM) domain containing"	21397	protein-coding gene	gene with protein product							Standard	NM_001286409		Approved	dJ47M23.1	uc010kdf.3	Q8N228	OTTHUMG00000015313	ENST00000369020.3:c.841G>A	6.37:g.108042039C>T	ENSP00000358016:p.Gly281Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B0QZ10|B0QZ11|B7ZBX3|Q5JXD0|Q5T0T6|Q8IYY6	Missense_Mutation	SNP	ENST00000369020.3	37	CCDS5060.2	.	.	.	.	.	.	.	.	.	.	C	11.44	1.639946	0.29157	.	.	ENSG00000146285	ENST00000369022;ENST00000369025;ENST00000369020;ENST00000369021	T;T;T	0.44881	0.98;0.97;0.91	5.19	2.27	0.28462	.	0.436668	0.25349	N	0.031310	T	0.36936	0.0985	L	0.56769	1.78	0.45464	D	0.99843	D;B;D	0.76494	0.993;0.027;0.999	P;B;D	0.68943	0.751;0.016;0.961	T	0.42207	-0.9465	10	0.07644	T	0.81	.	11.4501	0.50147	0.0:0.7746:0.0:0.2254	.	281;281;252	B4E0X3;Q8N228;Q8N228-3	.;SCML4_HUMAN;.	S	223;39;281;252	ENSP00000358018:G223S;ENSP00000358016:G281S;ENSP00000358017:G252S	ENSP00000358016:G281S	G	-	1	0	SCML4	108148732	0.909000	0.30893	0.119000	0.21687	0.410000	0.31052	1.673000	0.37534	0.785000	0.33685	-0.133000	0.14855	GGT		0.662	SCML4-005	NOVEL	not_organism_supported|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000041700.3	XM_171128		T	108042039	C	T	108042039	3	4	664	1	0	0	0	0	1	0	0	0	13924	623	22	2	415	2	SCML4	6	108042039	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1041949	108042039	63073028	334	41644										
MICAL1	64780	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr6	109766433	109766433	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caaggccagctccagcttcaCgccctcggcctctagctccc	8	20	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:109766433C>T	ENST00000358807.3	-	22	3159	c.2848G>A	c.(2848-2850)Gtg>Atg	p.V950M	MICAL1_ENST00000358577.3_Missense_Mutation_p.V864M|MICAL1_ENST00000368952.4_Missense_Mutation_p.V969M	NM_022765.3	NP_073602.3	Q8TDZ2	MICA1_HUMAN	microtubule associated monooxygenase, calponin and LIM domain containing 1	950					actin filament depolymerization (GO:0030042)|cytoskeleton organization (GO:0007010)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of protein phosphorylation (GO:0001933)|oxidation-reduction process (GO:0055114)|signal transduction (GO:0007165)|sulfur oxidation (GO:0019417)	cytoplasm (GO:0005737)|intermediate filament (GO:0005882)	actin binding (GO:0003779)|FAD binding (GO:0071949)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen (GO:0016709)|SH3 domain binding (GO:0017124)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(6)|liver(1)|lung(7)|ovary(3)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	40		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0142)|all cancers(137;0.0197)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)|BRCA - Breast invasive adenocarcinoma(108;0.0574)		TCCAGCTTCACGCCCTCGGCC	0.572																																																0													59	58	58					6																	109766433		2203	4300	6503	SO:0001583	missense	64780			AB048948	CCDS5076.1, CCDS55047.1	6q21	2013-03-26	2013-03-26	2005-02-16	ENSG00000135596	ENSG00000135596			20619	protein-coding gene	gene with protein product		607129	"NEDD9 interacting protein with calponin homology and LIM domains"	NICAL		11827972	Standard	NM_022765		Approved	MICAL, FLJ11937, DKFZp434B1517, FLJ21739	uc003ptk.3	Q8TDZ2	OTTHUMG00000015350	ENST00000358807.3:c.2848G>A	6.37:g.109766433C>T	ENSP00000351664:p.Val950Met	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3R5|E1P5F0|Q7Z633|Q8IVS9|Q96G47|Q9H6X6|Q9H7I0|Q9HAA1|Q9UFF7	Missense_Mutation	SNP	ENST00000358807.3	37	CCDS5076.1	.	.	.	.	.	.	.	.	.	.	C	4.389	0.071791	0.08436	.	.	ENSG00000135596	ENST00000358807;ENST00000368952;ENST00000358577;ENST00000368957;ENST00000335266	T;T;T	0.56444	0.46;0.46;0.46	5.4	-3.89	0.04193	Domain of unknown function DUF3585 (1);	0.908073	0.09419	N	0.804763	T	0.16214	0.0390	N	0.20328	0.56	0.09310	N	1	B;B;B	0.19817	0.039;0.014;0.015	B;B;B	0.16289	0.015;0.006;0.015	T	0.33727	-0.9857	10	0.54805	T	0.06	.	11.5325	0.50618	0.0:0.4014:0.0:0.5986	.	969;864;950	B7Z3R5;Q8TDZ2-2;Q8TDZ2	.;.;MICA1_HUMAN	M	950;969;864;474;206	ENSP00000351664:V950M;ENSP00000357948:V969M;ENSP00000351385:V864M	ENSP00000335372:V206M	V	-	1	0	MICAL1	109873126	0.000000	0.05858	0.000000	0.03702	0.043000	0.13939	-0.133000	0.10451	-0.701000	0.05063	-0.793000	0.03317	GTG		0.572	MICAL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041759.2	NM_022765		T	109766433	C	T	109766433	3	4	664	1	0	0	0	0	1	0	0	0	9576	536	19	1	371	1	MICAL1	6	109766433	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1724394	109766433	61348634	335	41645										
MICAL1	64780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	109769510	109769510	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cggcctgtgcagacaccaccGgtgtgatgcccagctcattc	11	15	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:109769510G>A	ENST00000358807.3	-	13	2062	c.1751C>T	c.(1750-1752)cCg>cTg	p.P584L	MICAL1_ENST00000358577.3_Missense_Mutation_p.P498L|MICAL1_ENST00000368952.4_Missense_Mutation_p.P603L	NM_022765.3	NP_073602.3	Q8TDZ2	MICA1_HUMAN	microtubule associated monooxygenase, calponin and LIM domain containing 1	584	CH. {ECO:0000255|PROSITE- ProRule:PRU00044}.				actin filament depolymerization (GO:0030042)|cytoskeleton organization (GO:0007010)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of protein phosphorylation (GO:0001933)|oxidation-reduction process (GO:0055114)|signal transduction (GO:0007165)|sulfur oxidation (GO:0019417)	cytoplasm (GO:0005737)|intermediate filament (GO:0005882)	actin binding (GO:0003779)|FAD binding (GO:0071949)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen (GO:0016709)|SH3 domain binding (GO:0017124)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(6)|liver(1)|lung(7)|ovary(3)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	40		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0142)|all cancers(137;0.0197)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)|BRCA - Breast invasive adenocarcinoma(108;0.0574)		AGACACCACCGGTGTGATGCC	0.607																																																0													173	161	165					6																	109769510		2203	4300	6503	SO:0001583	missense	64780			AB048948	CCDS5076.1, CCDS55047.1	6q21	2013-03-26	2013-03-26	2005-02-16	ENSG00000135596	ENSG00000135596			20619	protein-coding gene	gene with protein product		607129	"NEDD9 interacting protein with calponin homology and LIM domains"	NICAL		11827972	Standard	NM_022765		Approved	MICAL, FLJ11937, DKFZp434B1517, FLJ21739	uc003ptk.3	Q8TDZ2	OTTHUMG00000015350	ENST00000358807.3:c.1751C>T	6.37:g.109769510G>A	ENSP00000351664:p.Pro584Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3R5|E1P5F0|Q7Z633|Q8IVS9|Q96G47|Q9H6X6|Q9H7I0|Q9HAA1|Q9UFF7	Missense_Mutation	SNP	ENST00000358807.3	37	CCDS5076.1	.	.	.	.	.	.	.	.	.	.	G	27.9	4.872109	0.91587	.	.	ENSG00000135596	ENST00000358807;ENST00000368952;ENST00000358577;ENST00000368957	T;T;T	0.59638	0.25;0.25;0.25	5.38	5.38	0.77491	Calponin homology domain (5);	0.000000	0.85682	D	0.000000	T	0.71728	0.3374	M	0.74647	2.275	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	0.998;0.999;1.0	T	0.75077	-0.3445	10	0.72032	D	0.01	.	16.6283	0.84992	0.0:0.0:1.0:0.0	.	603;498;584	B7Z3R5;Q8TDZ2-2;Q8TDZ2	.;.;MICA1_HUMAN	L	584;603;498;108	ENSP00000351664:P584L;ENSP00000357948:P603L;ENSP00000351385:P498L	ENSP00000351385:P498L	P	-	2	0	MICAL1	109876203	1.000000	0.71417	0.689000	0.30133	0.870000	0.49936	6.142000	0.71750	2.529000	0.85273	0.561000	0.74099	CCG		0.607	MICAL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041759.2	NM_022765		A	109769510	G	A	109769510	3	1	664	1	0	0	0	0	1	0	0	0	9576	1116	39	1	1504	1	MICAL1	6	109769510	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3077	109769510	61345557	336	41646										
NCOA7	135112	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr6	126210643	126210643	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gatgttgaactgaagggggcGctagatttagaaacctgtga	14	5	0	5	rs375161871		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:126210643G>A	ENST00000368357.3	+	10	1795	c.1443G>A	c.(1441-1443)gcG>gcA	p.A481A	NCOA7_ENST00000392477.2_Silent_p.A481A|NCOA7_ENST00000229634.9_Silent_p.A366A	NM_001199619.1|NM_001199620.1	NP_001186548.1|NP_001186549.1	Q8NI08	NCOA7_HUMAN	nuclear receptor coactivator 7	481					positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	intracellular (GO:0005622)|nucleus (GO:0005634)	ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|nuclear hormone receptor binding (GO:0035257)			NS(1)|breast(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(4)|large_intestine(6)|lung(16)|ovary(1)|skin(1)|soft_tissue(1)|urinary_tract(2)	39				UCEC - Uterine corpus endometrioid carcinoma (4;0.0803)|GBM - Glioblastoma multiforme(226;0.0193)|all cancers(137;0.237)		TGAAGGGGGCGCTAGATTTAG	0.453													G|||	1	0.000199681	0.0	0.0	5008	,	,		17339	0.0		0.0	False		,,,				2504	0.001															0								G	,,,,	1,4397	2.1+/-5.4	0,1,2198	54	57	56		1410,1443,1443,1098,1443	0.4	0.5	6		56	0,8596		0,0,4298	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	NCOA7	NM_001122842.2,NM_001199619.1,NM_001199620.1,NM_001199621.1,NM_181782.4	,,,,	0,1,6496	AA,AG,GG		0.0,0.0227,0.0077	,,,,	470/932,481/943,481/943,366/828,481/943	126210643	1,12993	2199	4298	6497	SO:0001819	synonymous_variant	135112			AJ420542	CCDS5132.1, CCDS56448.1	6q22.33	2013-03-14			ENSG00000111912	ENSG00000111912			21081	protein-coding gene	gene with protein product	"TBC/LysM-associated domain containing 4"	609752				11971969	Standard	NM_001199619		Approved	ERAP140, dJ187J11.3, TLDC4	uc003qai.3	Q8NI08	OTTHUMG00000015513	ENST00000368357.3:c.1443G>A	6.37:g.126210643G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RNS2|B7Z2C4|B9EH71|G8JL91|Q3LID6|Q4G0V1|Q5TF95|Q6IPQ4|Q6NE83|Q86T89|Q8N1W4	Silent	SNP	ENST00000368357.3	37	CCDS5132.1																																																																																				0.453	NCOA7-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042083.4	XM_059748		A	126210643	G	A	126210643	2	1	664	1	0	0	0	0	0	0	0	1	10241	1074	38	1		1	NCOA7	6	126210643	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	16441133	126210643	44904424	337	41647										
KIAA1244	57221	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	138655393	138655393	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtctggcatcgggggcgccGccaacctctaccgccagtct	12	16	3	0	rs201470794		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:138655393G>A	ENST00000251691.4	+	33	5576	c.5410G>A	c.(5410-5412)Gcc>Acc	p.A1804T		NM_020340.4	NP_065073.3			KIAA1244											NS(1)|breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(11)|lung(17)|ovary(2)|skin(2)	44	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		CGGGGGCGCCGCCAACCTCTA	0.557																																																0													25	25	25					6																	138655393		2203	4300	6503	SO:0001583	missense	57221			AB033070	CCDS5189.2	6q23.3	2012-04-17			ENSG00000112379	ENSG00000112379		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	21213	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 33"		"chromosome 6 open reading frame 92"	C6orf92			Standard	NM_020340		Approved	dJ171N11.1, BIG3, PPP1R33	uc003qhu.3	Q5TH69	OTTHUMG00000015670	ENST00000251691.4:c.5410G>A	6.37:g.138655393G>A	ENSP00000251691:p.Ala1804Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000251691.4	37	CCDS5189.2	.	.	.	.	.	.	.	.	.	.	G	32	5.179957	0.94846	.	.	ENSG00000112379	ENST00000251691	T	0.33216	1.42	5.23	5.23	0.72850	.	0.354096	0.32518	N	0.005989	T	0.43678	0.1258	L	0.52573	1.65	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.25363	-1.0134	10	0.46703	T	0.11	-25.0529	18.8012	0.92018	0.0:0.0:1.0:0.0	.	1804	Q5TH69	BIG3_HUMAN	T	1804	ENSP00000251691:A1804T	ENSP00000251691:A1804T	A	+	1	0	KIAA1244	138697086	1.000000	0.71417	0.998000	0.56505	0.968000	0.65278	9.787000	0.99055	2.452000	0.82932	0.411000	0.27672	GCC		0.557	KIAA1244-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042425.4	NM_020340		A	138655393	G	A	138655393	3	1	664	1	0	0	0	0	1	0	0	0	8224	1087	38	1	5540	1	KIAA1244	6	138655393	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	12444750	138655393	32459674	338	41648										
STXBP5	134957	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	147527114	147527114	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgcccatccctagactgttcGccatggatttccctatcaac	6	15	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:147527114G>A	ENST00000321680.6	+	2	158	c.158G>A	c.(157-159)cGc>cAc	p.R53H	STXBP5-AS1_ENST00000367477.3_RNA|STXBP5_ENST00000546097.1_Missense_Mutation_p.R53H|STXBP5_ENST00000367480.3_Missense_Mutation_p.R53H|STXBP5_ENST00000367481.3_Missense_Mutation_p.R53H|STXBP5_ENST00000179882.6_5'UTR|STXBP5-AS1_ENST00000427394.1_RNA	NM_001127715.2	NP_001121187.1	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn)	53					exocytosis (GO:0006887)|negative regulation of exocytosis (GO:0045920)|positive regulation of exocytosis (GO:0045921)|protein transport (GO:0015031)|regulation of blood coagulation (GO:0030193)|regulation of gene expression (GO:0010468)	acetylcholine-gated channel complex (GO:0005892)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|synapse (GO:0045202)	syntaxin-1 binding (GO:0017075)	p.R53H(2)		breast(2)|endometrium(4)|kidney(3)|large_intestine(6)|lung(21)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	42		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		TAGACTGTTCGCCATGGATTT	0.463																																																2	Substitution - Missense(2)	endometrium(2)											172	154	160					6																	147527114		2203	4300	6503	SO:0001583	missense	134957			AK055484	CCDS5211.1, CCDS47499.1	6q24.3	2013-01-10			ENSG00000164506	ENSG00000164506		"WD repeat domain containing"	19665	protein-coding gene	gene with protein product		604586				9620695, 14767561	Standard	NM_139244		Approved	tomosyn, LLGL3	uc010khz.2	Q5T5C0	OTTHUMG00000015766	ENST00000321680.6:c.158G>A	6.37:g.147527114G>A	ENSP00000321826:p.Arg53His	Somatic		WXS	Illumina HiSeq	Phase_I	Q14DF3|Q5T5C1|Q5T5C2|Q8NBG8|Q96NG9	Missense_Mutation	SNP	ENST00000321680.6	37	CCDS47499.1	.	.	.	.	.	.	.	.	.	.	G	37	6.027106	0.97216	.	.	ENSG00000164506	ENST00000367481;ENST00000546097;ENST00000321680;ENST00000367480	D;D;D;D	0.95918	-3.85;-3.85;-3.85;-3.85	6.17	6.17	0.99709	.	0.000000	0.85682	D	0.000000	D	0.97266	0.9106	M	0.68952	2.095	0.80722	D	1	D;D	0.89917	0.999;1.0	D;D	0.77004	0.989;0.968	D	0.95799	0.8831	10	0.42905	T	0.14	.	20.8794	0.99867	0.0:0.0:1.0:0.0	.	53;53	Q5T5C0-2;Q5T5C0	.;STXB5_HUMAN	H	53	ENSP00000356451:R53H;ENSP00000441479:R53H;ENSP00000321826:R53H;ENSP00000356450:R53H	ENSP00000321826:R53H	R	+	2	0	STXBP5	147568807	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.238000	0.95380	2.941000	0.99782	0.655000	0.94253	CGC		0.463	STXBP5-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042606.1			A	147527114	G	A	147527114	3	1	664	1	0	0	0	0	1	0	0	0	15368	1087	38	1	164	1	STXBP5	6	147527114	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	8871721	147527114	23587953	339	41649										
TIAM2	26230	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr6	155450720	155450720	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcttccactctgttggccaCgagctggcagataaccacat	10	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:155450720C>T	ENST00000461783.3	+	6	1636	c.363C>T	c.(361-363)caC>caT	p.H121H	TIAM2_ENST00000367174.2_5'UTR|TIAM2_ENST00000318981.5_Silent_p.H121H|TIAM2_ENST00000529824.2_Silent_p.H121H|TIAM2_ENST00000360366.4_Silent_p.H121H|TIAM2_ENST00000456144.1_Silent_p.H121H			Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	121					apoptotic signaling pathway (GO:0097190)|cellular lipid metabolic process (GO:0044255)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|small molecule metabolic process (GO:0044281)	cell projection (GO:0042995)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	GTPase activator activity (GO:0005096)|guanyl-nucleotide exchange factor activity (GO:0005085)|receptor signaling protein activity (GO:0005057)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(20)|lung(21)|ovary(5)|prostate(1)|skin(2)|upper_aerodigestive_tract(4)	65		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		CTGTTGGCCACGAGCTGGCAG	0.562																																																0													75	63	67					6																	155450720		2203	4300	6503	SO:0001819	synonymous_variant	26230				CCDS34558.1, CCDS34559.1	6q25	2013-01-10			ENSG00000146426	ENSG00000146426		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	11806	protein-coding gene	gene with protein product		604709				10512681	Standard	NM_012454		Approved	STEF	uc003qqe.3	Q8IVF5	OTTHUMG00000015880	ENST00000461783.3:c.363C>T	6.37:g.155450720C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RP56|C9JZV2|Q6NXN9|Q6ZUP9|Q9UFG6|Q9UKV9|Q9UKW0	Silent	SNP	ENST00000461783.3	37	CCDS34558.1																																																																																				0.562	TIAM2-005	KNOWN	basic|appris_principal|readthrough_transcript|CCDS	protein_coding	protein_coding	OTTHUMT00000387980.2	NM_012454		T	155450720	C	T	155450720	2	4	664	1	0	0	0	0	0	0	0	1	15903	535	19	1		1	TIAM2	6	155450720	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	7923606	155450720	15664347	340	41650										
NOX3	50508	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	155764489	155764489	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgcggccagaagtccctggGcctcctcggactggctccag	14	15	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:155764489G>A	ENST00000159060.2	-	5	506	c.404C>T	c.(403-405)gCc>gTc	p.A135V		NM_015718.2	NP_056533.1	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	135	Ferric oxidoreductase.				detection of gravity (GO:0009590)|otolith development (GO:0048840)|superoxide anion generation (GO:0042554)|temperature homeostasis (GO:0001659)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|NADPH oxidase complex (GO:0043020)	superoxide-generating NADPH oxidase activity (GO:0016175)			cervix(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(16)|ovary(1)|pancreas(1)|prostate(4)|upper_aerodigestive_tract(1)	45		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		AAGTCCCTGGGCCTCCTCGGA	0.577																																																0													104	87	93					6																	155764489		2203	4300	6503	SO:0001583	missense	50508			AF190122	CCDS5250.1	6q25.3	2008-05-15			ENSG00000074771	ENSG00000074771			7890	protein-coding gene	gene with protein product		607105				11376945	Standard	NM_015718		Approved	GP91-3	uc003qqm.3	Q9HBY0	OTTHUMG00000015883	ENST00000159060.2:c.404C>T	6.37:g.155764489G>A	ENSP00000159060:p.Ala135Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9HBJ9	Missense_Mutation	SNP	ENST00000159060.2	37	CCDS5250.1	.	.	.	.	.	.	.	.	.	.	G	2.828	-0.243237	0.05906	.	.	ENSG00000074771	ENST00000159060	D	0.95554	-3.74	5.52	3.71	0.42584	Flavoprotein transmembrane component (1);	0.203527	0.34555	N	0.003879	D	0.84247	0.5430	L	0.43152	1.355	0.09310	N	1	B	0.14012	0.009	B	0.12156	0.007	T	0.71849	-0.4468	10	0.15952	T	0.53	-6.1288	9.0805	0.36550	0.074:0.0:0.7802:0.1458	.	135	Q9HBY0	NOX3_HUMAN	V	135	ENSP00000159060:A135V	ENSP00000159060:A135V	A	-	2	0	NOX3	155806181	0.009000	0.17119	0.003000	0.11579	0.032000	0.12392	1.563000	0.36364	0.666000	0.31087	0.561000	0.74099	GCC		0.577	NOX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042819.1			A	155764489	G	A	155764489	3	1	664	1	0	0	0	0	1	0	0	0	10564	1203	42	2	1338	2	NOX3	6	155764489	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	313769	155764489	15350578	341	41651										
PARK2	5071	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	162206903	162206903	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaaacagtctaagcaaatcaCgtggcgggagttgcactgga	13	8	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr6:162206903C>T	ENST00000366898.1	-	7	874	c.772G>A	c.(772-774)Gtg>Atg	p.V258M	PARK2_ENST00000338468.3_Missense_Mutation_p.V67M|PARK2_ENST00000366894.1_Missense_Mutation_p.V67M|PARK2_ENST00000366896.1_Missense_Mutation_p.V109M|PARK2_ENST00000366897.1_Missense_Mutation_p.V230M|PARK2_ENST00000366892.1_Missense_Mutation_p.V258M	NM_004562.2	NP_004553.2	O60260	PRKN2_HUMAN	parkin RBR E3 ubiquitin protein ligase	258	SYT11 binding 2.				adult locomotory behavior (GO:0008344)|aggresome assembly (GO:0070842)|cell death (GO:0008219)|cellular protein catabolic process (GO:0044257)|cellular response to dopamine (GO:1903351)|cellular response to manganese ion (GO:0071287)|cellular response to toxic substance (GO:0097237)|cellular response to unfolded protein (GO:0034620)|central nervous system development (GO:0007417)|dopamine metabolic process (GO:0042417)|dopamine uptake involved in synaptic transmission (GO:0051583)|learning (GO:0007612)|mitochondrion degradation (GO:0000422)|negative regulation of actin filament bundle assembly (GO:0032232)|negative regulation of cell death (GO:0060548)|negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway (GO:1902236)|negative regulation of glucokinase activity (GO:0033132)|negative regulation of insulin secretion (GO:0046676)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of neuron death (GO:1901215)|negative regulation of oxidative stress-induced cell death (GO:1903202)|negative regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway (GO:1903377)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of release of cytochrome c from mitochondria (GO:0090201)|norepinephrine metabolic process (GO:0042415)|positive regulation of DNA binding (GO:0043388)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of mitochondrial fusion (GO:0010636)|positive regulation of proteasomal protein catabolic process (GO:1901800)|positive regulation of protein linear polyubiquitination (GO:1902530)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor-mediated signaling pathway (GO:1903265)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein autoubiquitination (GO:0051865)|protein K27-linked ubiquitination (GO:0044314)|protein K29-linked ubiquitination (GO:0035519)|protein K48-linked ubiquitination (GO:0070936)|protein K6-linked ubiquitination (GO:0085020)|protein K63-linked ubiquitination (GO:0070534)|protein monoubiquitination (GO:0006513)|protein polyubiquitination (GO:0000209)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|regulation of autophagy (GO:0010506)|regulation of dopamine secretion (GO:0014059)|regulation of glucose metabolic process (GO:0010906)|regulation of lipid transport (GO:0032368)|regulation of mitochondrion degradation (GO:1903146)|regulation of mitochondrion organization (GO:0010821)|regulation of neurotransmitter secretion (GO:0046928)|regulation of reactive oxygen species metabolic process (GO:2000377)|regulation of synaptic vesicle transport (GO:1902803)|response to endoplasmic reticulum stress (GO:0034976)|startle response (GO:0001964)|synaptic transmission, glutamatergic (GO:0035249)|transcription, DNA-templated (GO:0006351)	aggresome (GO:0016235)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|Lewy body (GO:0097413)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|nucleus (GO:0005634)|Parkin-FBXW7-Cul1 ubiquitin ligase complex (GO:1990452)|perinuclear region of cytoplasm (GO:0048471)|ubiquitin ligase complex (GO:0000151)	chaperone binding (GO:0051087)|cullin family protein binding (GO:0097602)|F-box domain binding (GO:1990444)|G-protein coupled receptor binding (GO:0001664)|heat shock protein binding (GO:0031072)|Hsp70 protein binding (GO:0030544)|identical protein binding (GO:0042802)|kinase binding (GO:0019900)|ligase activity (GO:0016874)|PDZ domain binding (GO:0030165)|protein kinase binding (GO:0019901)|SH3 domain binding (GO:0017124)|ubiquitin binding (GO:0043130)|ubiquitin conjugating enzyme binding (GO:0031624)|ubiquitin protein ligase activity (GO:0061630)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activity (GO:0004842)|ubiquitin-specific protease binding (GO:1990381)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(21)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	39		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)		AAGCAAATCACGTGGCGGGAG	0.512																																																0			GRCh37	CM056034	PARK2	M							88	76	80					6																	162206903		2203	4300	6503	SO:0001583	missense	5071				CCDS5281.1, CCDS5282.1, CCDS5283.1	6q25.2-q27	2013-10-03	2013-10-03		ENSG00000185345	ENSG00000185345		"Parkinson disease"	8607	protein-coding gene	gene with protein product	"E3 ubiquitin ligase"	602544	"Parkinson disease (autosomal recessive, juvenile) 2, parkin", "parkinson protein 2, E3 ubiquitin protein ligase (parkin)"			9560156, 9570960	Standard	NM_004562		Approved	PDJ, AR-JP, parkin	uc003qtx.4	O60260	OTTHUMG00000015970	ENST00000366898.1:c.772G>A	6.37:g.162206903C>T	ENSP00000355865:p.Val258Met	Somatic		WXS	Illumina HiSeq	Phase_I	A3FG77|A8K975|D3JZW7|D3K2X0|Q5TFV8|Q5VVX4|Q6Q2I6|Q8NI41|Q8NI43|Q8NI44|Q8WW07	Missense_Mutation	SNP	ENST00000366898.1	37	CCDS5281.1	.	.	.	.	.	.	.	.	.	.	C	26.7	4.767302	0.90020	.	.	ENSG00000185345	ENST00000366898;ENST00000366897;ENST00000366896;ENST00000366894;ENST00000338468;ENST00000392134;ENST00000366892;ENST00000366895	D;D;D;D;D;D	0.90133	-2.62;-2.62;-2.62;-2.62;-2.62;-2.62	5.75	5.75	0.90469	.	0.000000	0.64402	D	0.000001	D	0.95252	0.8460	M	0.83953	2.67	0.49051	D	0.999746	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.91635	0.999;0.994;0.988;0.988;0.971	D	0.95119	0.8245	10	0.62326	D	0.03	.	17.7106	0.88321	0.0:1.0:0.0:0.0	.	258;109;230;258;67	O60260-5;Q5VVX3;Q5VVX4;O60260;Q8NI42	.;.;.;PRKN2_HUMAN;.	M	258;230;109;67;67;67;258;179	ENSP00000355865:V258M;ENSP00000355863:V230M;ENSP00000355862:V109M;ENSP00000355860:V67M;ENSP00000343589:V67M;ENSP00000355858:V258M	ENSP00000343589:V67M	V	-	1	0	PARK2	162126893	1.000000	0.71417	0.992000	0.48379	0.981000	0.71138	6.554000	0.73923	2.717000	0.92951	0.650000	0.86243	GTG		0.512	PARK2-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042995.1			T	162206903	C	T	162206903	3	4	664	1	0	0	0	0	1	0	0	0	11456	536	19	1	649	1	PARK2	6	162206903	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	6442414	162206903	8908164	342	41652										
TMEM184A	202915	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr7	1588279	1588279	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcgtagagggcgaggctgacGgaggcgttgtagatgagggt	21	5	0	4	rs368580121		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:1588279G>A	ENST00000297477.5	-	7	1006	c.690C>T	c.(688-690)tcC>tcT	p.S230S	TMEM184A_ENST00000449955.1_5'Flank	NM_001097620.1	NP_001091089.1	Q6ZMB5	T184A_HUMAN	transmembrane protein 184A	230					germ-line sex determination (GO:0018992)|regulation of protein localization (GO:0032880)|regulation of secretion (GO:0051046)	early endosome membrane (GO:0031901)|integral component of membrane (GO:0016021)				endometrium(1)|large_intestine(1)|lung(6)|upper_aerodigestive_tract(3)|urinary_tract(1)	12		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;5.88e-15)		CGAGGCTGACGGAGGCGTTGT	0.637																																																0								G		3,4397	6.2+/-15.9	0,3,2197	119	150	139		690	-10.2	0	7		139	0,8598		0,0,4299	no	coding-synonymous	TMEM184A	NM_001097620.1		0,3,6496	AA,AG,GG		0.0,0.0682,0.0231		230/414	1588279	3,12995	2200	4299	6499	SO:0001819	synonymous_variant	202915				CCDS43537.1	7p22.3	2008-05-02			ENSG00000164855	ENSG00000164855			28797	protein-coding gene	gene with protein product						12477932	Standard	NM_001097620		Approved	MGC9712	uc003skv.4	Q6ZMB5	OTTHUMG00000119025	ENST00000297477.5:c.690C>T	7.37:g.1588279G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TBQ6	Silent	SNP	ENST00000297477.5	37	CCDS43537.1																																																																																				0.637	TMEM184A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239229.4	NM_152689		A	1588279	G	A	1588279	2	1	664	1	0	0	0	0	0	0	0	1	16116	1103	39	1		1	TMEM184A	7	1588279	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10		1588279	157550384	343	41653										
KIAA0415	9907	broad.mit.edu	37	chr7	4830934	4830934	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgcagcccccgctatcaccGcgatgccaacacggccctgc	10	19	1	0	rs375090264		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:4830934G>A	ENST00000348624.4	+	17	2436	c.2342G>A	c.(2341-2343)cGc>cAc	p.R781H	AP5Z1_ENST00000490487.1_3'UTR|MIR4656_ENST00000579503.1_RNA	NM_014855.2	NP_055670.1	O43299	AP5Z1_HUMAN	adaptor-related protein complex 5, zeta 1 subunit	781					cell death (GO:0008219)|double-strand break repair via homologous recombination (GO:0000724)|endosomal transport (GO:0016197)|protein transport (GO:0015031)	AP-5 adaptor complex (GO:0044599)|AP-type membrane coat adaptor complex (GO:0030119)|cytoplasm (GO:0005737)|nucleus (GO:0005634)											CGCTATCACCGCGATGCCAAC	0.687																																																0													23	29	27					7																	4830934		2136	4206	6342	SO:0001583	missense	9907			AB007875	CCDS47528.1	7p22.1	2012-03-20	2012-03-20	2012-03-20	ENSG00000242802	ENSG00000242802			22197	protein-coding gene	gene with protein product		613653	"KIAA0415"	KIAA0415		20613862, 22022230	Standard	NM_014855		Approved	SPG48, zeta	uc003sne.3	O43299	OTTHUMG00000151754	ENST00000348624.4:c.2342G>A	7.37:g.4830934G>A	ENSP00000297562:p.Arg781His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3X2|Q96H80	Missense_Mutation	SNP	ENST00000348624.4	37	CCDS47528.1	.	.	.	.	.	.	.	.	.	.	G	15.52	2.858165	0.51376	.	.	ENSG00000242802	ENST00000348624	T	0.51817	0.69	5.13	1.97	0.26223	.	.	.	.	.	T	0.57577	0.2063	M	0.72894	2.215	0.38297	D	0.942867	D;D	0.76494	0.999;0.999	P;P	0.60068	0.818;0.868	T	0.60900	-0.7171	9	0.49607	T	0.09	.	6.9415	0.24496	0.2252:0.0:0.6337:0.1411	.	1492;781	A4D1Z4;O43299	.;K0415_HUMAN	H	781	ENSP00000297562:R781H	ENSP00000297562:R781H	R	+	2	0	KIAA0415	4797460	1.000000	0.71417	0.676000	0.29932	0.005000	0.04900	3.440000	0.52886	1.104000	0.41587	0.655000	0.94253	CGC		0.687	AP5Z1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323771.1			A	4830934	G	A	4830934	3	1	664	1	0	0	0	0	1	0	0	0	8182	1087	38	1	2408	1	KIAA0415	7	4830934	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3242655	4830934	154307729	344	41654										
RADIL	55698	mdanderson.org	37	chr7	4876100	4876100	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgggcggcagcgggcagggcGttcactgggctcaggctggt	20	10	2	0	rs138811640	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:4876100G>A	ENST00000399583.3	-	3	859	c.672C>T	c.(670-672)aaC>aaT	p.N224N	RADIL_ENST00000538469.1_De_novo_Start_OutOfFrame|RADIL_ENST00000536091.1_Silent_p.N224N	NM_018059.4	NP_060529.4	Q96JH8	RADIL_HUMAN	Ras association and DIL domains	224					multicellular organismal development (GO:0007275)|signal transduction (GO:0007165)|substrate adhesion-dependent cell spreading (GO:0034446)	microtubule (GO:0005874)		p.N224N(1)		NS(1)|biliary_tract(2)|breast(1)|central_nervous_system(3)|endometrium(2)|large_intestine(2)|lung(22)|pancreas(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	41		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		CGGGCAGGGCGTTCACTGGGC	0.721													G|||	60	0.0119808	0.0015	0.0173	5008	,	,		12942	0.0		0.0249	False		,,,				2504	0.0215															1	Substitution - coding silent(1)	lung(1)						G		16,4162		0,16,2073	11	18	16		672	0.3	0.1	7	dbSNP_134	16	205,8153		6,193,3980	no	coding-synonymous	RADIL	NM_018059.4		6,209,6053	AA,AG,GG		2.4527,0.383,1.7629		224/1076	4876100	221,12315	2089	4179	6268	SO:0001819	synonymous_variant	55698			AB058752	CCDS43544.1	7p22.1	2010-08-27			ENSG00000157927	ENSG00000157927			22226	protein-coding gene	gene with protein product		611491				16051602, 17704304	Standard	NM_018059		Approved	FLJ10324, KIAA1849, RASIP2	uc003snj.1	Q96JH8	OTTHUMG00000151753	ENST00000399583.3:c.672C>T	7.37:g.4876100G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D1Z5|A5YM49|B7ZL20|Q0VFZ9|Q75LH3|Q9BSP5|Q9H0M6|Q9NW43|Q9NWC4	Silent	SNP	ENST00000399583.3	37	CCDS43544.1																																																																																				0.721	RADIL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323769.2	NM_018059		A	4876100	G	A	4876100	2	1	664	1	0	0	0	0	0	0	0	1	13010	1136	40	1		1	RADIL	7	4876100	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	45166	4876100	154262563	345	41655										
CYTH3	9265	broad.mit.edu;mdanderson.org	37	chr7	6217521	6217521	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tttataaaggaactgggcgaCgtcttctggggaactctgta	12	7	3	0	rs555480535		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:6217521C>T	ENST00000350796.3	-	5	437	c.301G>A	c.(301-303)Gtc>Atc	p.V101I	Y_RNA_ENST00000458975.1_RNA	NM_004227.3	NP_004218.1	O43739	CYH3_HUMAN	cytohesin 3	101	SEC7. {ECO:0000255|PROSITE- ProRule:PRU00189}.				establishment of epithelial cell polarity (GO:0090162)|Golgi vesicle transport (GO:0048193)|positive regulation of cell adhesion (GO:0045785)|positive regulation of GTPase activity (GO:0043547)|regulation of ARF protein signal transduction (GO:0032012)|regulation of cell adhesion (GO:0030155)	cytosol (GO:0005829)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(7)|urinary_tract(1)	19						AACTGGGCGACGTCTTCTGGG	0.458													C|||	1	0.000199681	0.0	0.0	5008	,	,		19725	0.0		0.0	False		,,,				2504	0.001															0													127	120	122					7																	6217521		2203	4300	6503	SO:0001583	missense	9265			AJ223957	CCDS5346.1	7p22.1	2014-05-02	2008-08-14	2008-08-14	ENSG00000008256	ENSG00000008256		"Pleckstrin homology (PH) domain containing"	9504	protein-coding gene	gene with protein product		605081	"pleckstrin homology, Sec7 and coiled-coil domains 3"	PSCD3		9072969	Standard	NM_004227		Approved	GRP1, ARNO3, cytohesin-3	uc003spt.3	O43739	OTTHUMG00000023440	ENST00000350796.3:c.301G>A	7.37:g.6217521C>T	ENSP00000297044:p.Val101Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2N8	Missense_Mutation	SNP	ENST00000350796.3	37	CCDS5346.1	.	.	.	.	.	.	.	.	.	.	C	5.917	0.353326	0.11182	.	.	ENSG00000008256	ENST00000350796	T	0.56611	0.45	5.16	4.03	0.46877	.	0.098253	0.64402	N	0.000003	T	0.22044	0.0531	N	0.05351	-0.065	0.80722	D	1	B	0.06786	0.001	B	0.09377	0.004	T	0.30534	-0.9975	10	0.02654	T	1	.	3.7502	0.08563	0.0:0.651:0.0:0.349	.	101	O43739-2	.	I	101	ENSP00000297044:V101I	ENSP00000297044:V101I	V	-	1	0	CYTH3	6184046	1.000000	0.71417	0.145000	0.22337	0.748000	0.42578	4.901000	0.63259	2.559000	0.86315	0.655000	0.94253	GTC		0.458	CYTH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207396.2	NM_004227		T	6217521	C	T	6217521	3	4	664	1	0	0	0	0	1	0	0	0	4207	536	19	1	934	1	CYTH3	7	6217521	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1341421	6217521	152921142	346	41656										
COL28A1	340267	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr7	7472278	7472278	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttacaggcacaccaggataGccatcacctttgagtcctgg	9	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:7472278G>A	ENST00000399429.3	-	24	2054	c.1914C>T	c.(1912-1914)ggC>ggT	p.G638G		NM_001037763.2	NP_001032852.2	Q2UY09	COSA1_HUMAN	collagen, type XXVIII, alpha 1	638					cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)	basement membrane (GO:0005604)|collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	serine-type endopeptidase inhibitor activity (GO:0004867)			cervix(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(23)|prostate(1)|skin(4)|stomach(1)|urinary_tract(1)	42		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		CACCAGGATAGCCATCACCTT	0.488																																																0													109	113	112					7																	7472278		2006	4166	6172	SO:0001819	synonymous_variant	340267			AJ890451	CCDS43553.1	7p21.3	2013-01-16			ENSG00000215018	ENSG00000215018		"Collagens"	22442	protein-coding gene	gene with protein product		609996				16330543	Standard	NM_001037763		Approved		uc003src.1	Q2UY09	OTTHUMG00000150034	ENST00000399429.3:c.1914C>T	7.37:g.7472278G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D101|A4D106|A4D107|A8MVR2|B9EGX9|Q2UY07|Q2UY08	Silent	SNP	ENST00000399429.3	37	CCDS43553.1																																																																																				0.488	COL28A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000315899.1	NM_001037763		A	7472278	G	A	7472278	2	1	664	1	0	0	0	0	0	0	0	1	3688	958	34	2		2	COL28A1	7	7472278	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1254757	7472278	151666385	347	41657										
DGKB	1607	broad.mit.edu	37	chr7	14620499	14620499	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgctttacctcctccccatcGcaggcatcttgctagatcat	6	15	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:14620499G>A	ENST00000403951.2	-	19	2019	c.1600C>T	c.(1600-1602)Cga>Tga	p.R534*	DGKB_ENST00000406247.3_Nonsense_Mutation_p.R534*|DGKB_ENST00000407950.1_Nonsense_Mutation_p.R526*|DGKB_ENST00000258767.5_Nonsense_Mutation_p.R534*|DGKB_ENST00000402815.1_Nonsense_Mutation_p.R533*|DGKB_ENST00000403963.1_5'UTR|DGKB_ENST00000399322.3_Nonsense_Mutation_p.R534*|DGKB_ENST00000444700.2_Nonsense_Mutation_p.R515*			Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta 90kDa	534	DAGKc. {ECO:0000255|PROSITE- ProRule:PRU00783}.				blood coagulation (GO:0007596)|intracellular signal transduction (GO:0035556)|platelet activation (GO:0030168)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|diacylglycerol kinase activity (GO:0004143)|NAD+ kinase activity (GO:0003951)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|liver(1)|lung(34)|ovary(4)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	72						CCTCCCCATCGCAGGCATCTT	0.428																																																0													81	76	78					7																	14620499		1957	4172	6129	SO:0001587	stop_gained	1607			AB018261	CCDS47547.1, CCDS47548.1	7p21.2	2013-01-10	2002-08-29		ENSG00000136267	ENSG00000136267	2.7.1.107	"EF-hand domain containing"	2850	protein-coding gene	gene with protein product		604070	"diacylglycerol kinase, beta (90kD)"	DAGK2		7689223	Standard	NM_004080		Approved	KIAA0718, DGK, DGK-BETA	uc003ssz.3	Q9Y6T7	OTTHUMG00000152477	ENST00000403951.2:c.1600C>T	7.37:g.14620499G>A	ENSP00000385780:p.Arg534*	Somatic		WXS	Illumina HiSeq	Phase_I	A4D116|A4D117|A8MXU2|O75241|Q2M377|Q75MF9|Q75MU7|Q86UI5|Q86UM9|Q9UQ29	Nonsense_Mutation	SNP	ENST00000403951.2	37	CCDS47547.1	.	.	.	.	.	.	.	.	.	.	G	38	7.162631	0.98107	.	.	ENSG00000136267	ENST00000403951;ENST00000399322;ENST00000258767;ENST00000402815;ENST00000407950;ENST00000444700;ENST00000406247	.	.	.	5.77	4.82	0.62117	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	11.4202	0.49976	0.0:0.0:0.6084:0.3916	.	.	.	.	X	534;534;534;533;526;515;534	.	ENSP00000258767:R534X	R	-	1	2	DGKB	14587024	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	6.030000	0.70903	2.718000	0.92993	0.591000	0.81541	CGA		0.428	DGKB-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000326356.2	NM_004080		A	14620499	G	A	14620499	4	1	664	1	0	0	0	0	0	1	0	0	4468	1095	38	1	861	1	DGKB	7	14620499	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	7148221	14620499	144518164	348	41658										
HDAC9	9734	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	18975462	18975462	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tttgacgaagcaattgatgaCattggctgatggacgtgtgg	14	5	0	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:18975462C>T	ENST00000432645.2	+	22	2825	c.2825C>T	c.(2824-2826)aCa>aTa	p.T942I	HDAC9_ENST00000406451.4_Missense_Mutation_p.T942I|HDAC9_ENST00000401921.1_Missense_Mutation_p.T901I|HDAC9_ENST00000441542.2_Missense_Mutation_p.T945I	NM_058176.2	NP_478056.1	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9	942	Histone deacetylase.				B cell activation (GO:0042113)|B cell differentiation (GO:0030183)|cellular response to insulin stimulus (GO:0032869)|heart development (GO:0007507)|histone deacetylation (GO:0016575)|histone H3 deacetylation (GO:0070932)|histone H4 deacetylation (GO:0070933)|inflammatory response (GO:0006954)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|Notch signaling pathway (GO:0007219)|peptidyl-lysine deacetylation (GO:0034983)|positive regulation of cell migration involved in sprouting angiogenesis (GO:0090050)|regulation of skeletal muscle fiber development (GO:0048742)|regulation of striated muscle cell differentiation (GO:0051153)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|histone deacetylase complex (GO:0000118)|histone methyltransferase complex (GO:0035097)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	histone deacetylase activity (GO:0004407)|histone deacetylase binding (GO:0042826)|metal ion binding (GO:0046872)|NAD-dependent histone deacetylase activity (H3-K14 specific) (GO:0032041)|NAD-dependent histone deacetylase activity (H3-K18 specific) (GO:0097372)|NAD-dependent histone deacetylase activity (H3-K9 specific) (GO:0046969)|NAD-dependent histone deacetylase activity (H4-K16 specific) (GO:0046970)|protein deacetylase activity (GO:0033558)|protein kinase C binding (GO:0005080)|repressing transcription factor binding (GO:0070491)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)			breast(3)|central_nervous_system(4)|cervix(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(18)|liver(2)|lung(37)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	82	all_lung(11;0.187)				Valproic Acid(DB00313)	CAATTGATGACATTGGCTGAT	0.398																																																0													219	216	217					7																	18975462		1964	4149	6113	SO:0001583	missense	9734			AF124924	CCDS47553.1, CCDS47554.1, CCDS47555.1, CCDS47557.1, CCDS56465.1, CCDS56466.1, CCDS56467.1, CCDS56468.1, CCDS75565.1	7p21.1	2008-05-15			ENSG00000048052	ENSG00000048052			14065	protein-coding gene	gene with protein product		606543				10523670, 10487760	Standard	NM_178425		Approved	KIAA0744, HDAC, MITR, HD7, HDAC7B	uc003sui.3	Q9UKV0	OTTHUMG00000152487	ENST00000432645.2:c.2825C>T	7.37:g.18975462C>T	ENSP00000410337:p.Thr942Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2F3|B7Z4I4|B7Z917|B7Z928|B7Z940|C9JS87|E7EX34|F8W9E0|O94845|O95028|Q2M2R6|Q86SL1|Q86US3	Missense_Mutation	SNP	ENST00000432645.2	37	CCDS47555.1	.	.	.	.	.	.	.	.	.	.	C	13.70	2.315918	0.40996	.	.	ENSG00000048052	ENST00000406451;ENST00000401921;ENST00000432645;ENST00000441542;ENST00000341009	T;T;T;T	0.70399	-0.48;-0.48;-0.48;-0.48	5.81	4.85	0.62838	Histone deacetylase domain (2);	0.304559	0.27951	N	0.017190	T	0.68293	0.2985	L	0.48642	1.525	0.45015	D	0.998035	B;B;B;B;B	0.31625	0.332;0.006;0.006;0.007;0.006	B;B;B;B;B	0.43889	0.435;0.003;0.003;0.005;0.003	T	0.68047	-0.5512	10	0.49607	T	0.09	-40.5538	6.7135	0.23290	0.2865:0.6219:0.0:0.0916	.	190;901;945;942;942	Q8N926;Q9UKV0-6;Q9UKV0-7;Q9UKV0;Q9UKV0-5	.;.;.;HDAC9_HUMAN;.	I	942;901;942;945;854	ENSP00000384657:T942I;ENSP00000383912:T901I;ENSP00000410337:T942I;ENSP00000408617:T945I	ENSP00000339165:T854I	T	+	2	0	HDAC9	18941987	0.996000	0.38824	0.981000	0.43875	0.984000	0.73092	3.150000	0.50662	2.739000	0.93911	0.563000	0.77884	ACA		0.398	HDAC9-023	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000376176.1			T	18975462	C	T	18975462	3	4	664	1	0	0	0	0	1	0	0	0	7021	478	17	2	3033	2	HDAC9	7	18975462	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4354963	18975462	140163201	349	41659										
ABCB5	340273	hgsc.bcm.edu;mdanderson.org	37	chr7	20778687	20778687	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaatattccaaagccaaatcGggggctgcgcatctgtttgc	11	10	1	0	rs369991802		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:20778687G>A	ENST00000404938.2	+	24	3601	c.2949G>A	c.(2947-2949)tcG>tcA	p.S983S	ABCB5_ENST00000258738.6_Silent_p.S538S	NM_001163941.1	NP_001157413.1	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP), member 5	983					antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent (GO:0002485)|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent (GO:0002489)|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent (GO:0002481)|cell differentiation (GO:0030154)|compound eye corneal lens development (GO:0048058)|positive regulation of antigen processing and presentation of peptide antigen via MHC class I (GO:0002591)|regulation of membrane potential (GO:0042391)|transmembrane transport (GO:0055085)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|efflux transmembrane transporter activity (GO:0015562)	p.S538S(1)|p.S983S(1)		breast(2)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(11)|liver(1)|lung(37)|ovary(1)|pancreas(1)|prostate(1)|skin(10)|upper_aerodigestive_tract(1)	77						AAGCCAAATCGGGGGCTGCGC	0.428																																																2	Substitution - coding silent(2)	lung(2)						G	,	0,4406		0,0,2203	54	52	52		2949,1614	-3.3	1	7		52	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous,coding-synonymous	ABCB5	NM_001163941.1,NM_178559.5	,	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	,	983/1258,538/813	20778687	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	340273			U66692	CCDS5371.1, CCDS55090.1, CCDS55091.1, CCDS55092.1	7p14	2012-03-14			ENSG00000004846	ENSG00000004846		"ATP binding cassette transporters / subfamily B"	46	protein-coding gene	gene with protein product	"P-glycoprotein ABCB5", "ATP-binding cassette protein"	611785				8894702, 12960149	Standard	NM_001163942		Approved	EST422562, ABCB5beta, ABCB5alpha	uc010kuh.3	Q2M3G0	OTTHUMG00000094789	ENST00000404938.2:c.2949G>A	7.37:g.20778687G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D131|A7BKA4|B5MD19|B7WPL1|F8QQP8|F8QQP9|J3KQ04|Q2M3I5|Q5I5Q7|Q5I5Q8|Q6KG50|Q6XFQ5|Q8IXA1	Silent	SNP	ENST00000404938.2	37	CCDS55090.1																																																																																				0.428	ABCB5-004	PUTATIVE	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000326736.2	NM_178559		A	20778687	G	A	20778687	2	1	664	1	0	0	0	0	0	0	0	1	44	1103	39	1		1	ABCB5	7	20778687	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1803225	20778687	138359976	350	41660										
C7orf46	340277	hgsc.bcm.edu;ucsc.edu	37	chr7	23724139	23724139	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	attgttggtgaggatgatggAgggaaactttttactcctga	13	4	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:23724139A>T	ENST00000344962.4	+	2	176	c.87A>T	c.(85-87)ggA>ggT	p.G29G	FAM221A_ENST00000409653.1_Intron|FAM221A_ENST00000409994.3_Intron|FAM221A_ENST00000409192.3_Silent_p.G29G	NM_199136.3	NP_954587.2	A4D161	F221A_HUMAN	family with sequence similarity 221, member A	29																	AGGATGATGGAGGGAAACTTT	0.363																																																0													58	60	59					7																	23724139		2203	4300	6503	SO:0001819	synonymous_variant	340277				CCDS5385.1, CCDS47561.1, CCDS47562.1, CCDS75570.1	7p15.3	2012-04-02	2012-04-02	2012-04-02	ENSG00000188732	ENSG00000188732			27977	protein-coding gene	gene with protein product			"chromosome 7 open reading frame 46"	C7orf46		12477932	Standard	XR_242080		Approved	FLJ45875, MGC72075, DKFZp686F0810	uc003swo.4	A4D161	OTTHUMG00000128463	ENST00000344962.4:c.87A>T	7.37:g.23724139A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q05CG4|Q4G0Q7|Q6P519	Silent	SNP	ENST00000344962.4	37	CCDS5385.1																																																																																				0.363	FAM221A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250261.1	NM_199136		T	23724139	A	T	23724139	2	4	664	1	0	0	0	0	0	0	0	1	2398	291	11	5		5	C7orf46	7	23724139	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	2945452	23724139	135414524	351	41661										
GARS	2617	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr7	30662010	30662010	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagaaggatgcaaaactggtGatggagtatcttgccatttg	12	5	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:30662010G>A	ENST00000389266.3	+	12	1786	c.1545G>A	c.(1543-1545)gtG>gtA	p.V515V		NM_002047.2	NP_002038.2	P41250	SYG_HUMAN	glycyl-tRNA synthetase	515					cell death (GO:0008219)|diadenosine tetraphosphate biosynthetic process (GO:0015966)|gene expression (GO:0010467)|glycyl-tRNA aminoacylation (GO:0006426)|tRNA aminoacylation for protein translation (GO:0006418)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|mitochondrial matrix (GO:0005759)|nucleus (GO:0005634)|secretory granule (GO:0030141)	ATP binding (GO:0005524)|glycine-tRNA ligase activity (GO:0004820)|protein dimerization activity (GO:0046983)			breast(3)|endometrium(2)|kidney(1)|large_intestine(4)|lung(9)|ovary(1)|skin(3)|urinary_tract(1)	24					Glycine(DB00145)	CAAAACTGGTGATGGAGTATC	0.403																																																0													213	199	204					7																	30662010		1943	4157	6100	SO:0001819	synonymous_variant	2617			AK074524	CCDS43564.1	7p15	2014-09-17	2004-02-13		ENSG00000106105	ENSG00000106105	6.1.1.14	"Aminoacyl tRNA synthetases / Class II"	4162	protein-coding gene	gene with protein product	"glycine tRNA ligase"	600287	"Charcot-Marie-Tooth neuropathy 2D"	CMT2D		8595897, 8872480	Standard	NM_002047		Approved	GlyRS, DSMAV, SMAD1	uc003tbm.3	P41250	OTTHUMG00000152769	ENST00000389266.3:c.1545G>A	7.37:g.30662010G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KQA2|B4DIA0|Q969Y1	Silent	SNP	ENST00000389266.3	37	CCDS43564.1																																																																																				0.403	GARS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327735.1	NM_002047		A	30662010	G	A	30662010	2	1	664	1	0	0	0	0	0	0	0	1	6249	1277	45	2		2	GARS	7	30662010	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6937871	30662010	128476653	352	41662										
AQP1	358	ucsc.edu;mdanderson.org	37	chr7	30951659	30951659	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtggggaacaaccagacggcGgtccaggacaacgtgaaggt	16	9	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:30951659G>A	ENST00000311813.4	+	1	190	c.135G>A	c.(133-135)gcG>gcA	p.A45A	AQP1_ENST00000434909.2_Silent_p.A105A|AQP1_ENST00000509504.1_Silent_p.A222A	NM_198098.2	NP_932766.1	P29972	AQP1_HUMAN	aquaporin 1 (Colton blood group)	45			A -> V (in Co(A-B+) antigen; dbSNP:rs28362692). {ECO:0000269|PubMed:7521882, ECO:0000269|Ref.6}.	A -> T (in Ref. 10; AAH22486). {ECO:0000305}.	ammonium transmembrane transport (GO:0072488)|ammonium transport (GO:0015696)|bicarbonate transport (GO:0015701)|camera-type eye morphogenesis (GO:0048593)|carbon dioxide transmembrane transport (GO:0035378)|carbon dioxide transport (GO:0015670)|cation transmembrane transport (GO:0098655)|cell volume homeostasis (GO:0006884)|cellular homeostasis (GO:0019725)|cellular hyperosmotic response (GO:0071474)|cellular response to cAMP (GO:0071320)|cellular response to copper ion (GO:0071280)|cellular response to dexamethasone stimulus (GO:0071549)|cellular response to hydrogen peroxide (GO:0070301)|cellular response to hypoxia (GO:0071456)|cellular response to inorganic substance (GO:0071241)|cellular response to mechanical stimulus (GO:0071260)|cellular response to mercury ion (GO:0071288)|cellular response to nitric oxide (GO:0071732)|cellular response to retinoic acid (GO:0071300)|cellular response to salt stress (GO:0071472)|cellular response to stress (GO:0033554)|cellular response to UV (GO:0034644)|cerebrospinal fluid secretion (GO:0033326)|cGMP biosynthetic process (GO:0006182)|corticotropin secretion (GO:0051458)|establishment or maintenance of actin cytoskeleton polarity (GO:0030950)|glomerular filtration (GO:0003094)|glycerol transport (GO:0015793)|hyperosmotic salinity response (GO:0042538)|lateral ventricle development (GO:0021670)|lipid digestion (GO:0044241)|maintenance of symbiont-containing vacuole by host (GO:0085018)|metanephric descending thin limb development (GO:0072220)|metanephric glomerulus vasculature development (GO:0072239)|metanephric proximal convoluted tubule segment 2 development (GO:0072232)|metanephric proximal straight tubule development (GO:0072230)|multicellular organismal water homeostasis (GO:0050891)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|nitric oxide transport (GO:0030185)|odontogenesis (GO:0042476)|pancreatic juice secretion (GO:0030157)|positive regulation of angiogenesis (GO:0045766)|positive regulation of epithelial cell migration (GO:0010634)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of lamellipodium assembly (GO:0010592)|positive regulation of saliva secretion (GO:0046878)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|renal water absorption (GO:0070295)|renal water transport (GO:0003097)|response to drug (GO:0042493)|response to estrogen (GO:0043627)|secretory granule organization (GO:0033363)|sensory perception of pain (GO:0019233)|small molecule metabolic process (GO:0044281)|transepithelial water transport (GO:0035377)|transmembrane transport (GO:0055085)|water transport (GO:0006833)|wound healing (GO:0042060)	apical part of cell (GO:0045177)|apical plasma membrane (GO:0016324)|axon terminus (GO:0043679)|basal plasma membrane (GO:0009925)|basolateral plasma membrane (GO:0016323)|brush border (GO:0005903)|brush border membrane (GO:0031526)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|symbiont-containing vacuole (GO:0020003)	ammonium transmembrane transporter activity (GO:0008519)|carbon dioxide transmembrane transporter activity (GO:0035379)|glycerol transmembrane transporter activity (GO:0015168)|intracellular cGMP activated cation channel activity (GO:0005223)|nitric oxide transmembrane transporter activity (GO:0030184)|potassium channel activity (GO:0005267)|potassium ion transmembrane transporter activity (GO:0015079)|transmembrane transporter activity (GO:0022857)|water channel activity (GO:0015250)|water transmembrane transporter activity (GO:0005372)			kidney(1)|large_intestine(2)|lung(9)	12		Melanoma(862;0.16)			Acetazolamide(DB00819)	ACCAGACGGCGGTCCAGGACA	0.647																																																0													48	50	49					7																	30951659		2203	4300	6503	SO:0001819	synonymous_variant	358			M77829	CCDS5431.1, CCDS55096.1, CCDS55097.1, CCDS55098.1	7p14	2014-07-19	2014-01-02		ENSG00000240583	ENSG00000240583		"Ion channels / Aquaporins", "Blood group antigens"	633	protein-coding gene	gene with protein product		107776	"Colton blood group", "aquaporin 1 (channel-forming integral protein, 28kDa)", "aquaporin 1 (channel-forming integral protein, 28kDa, CO blood group)", "aquaporin 1"	CO		1722319, 3166547	Standard	NM_198098		Approved	CHIP28		P29972	OTTHUMG00000023944	ENST00000311813.4:c.135G>A	7.37:g.30951659G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B5BU39|E7EM69|E9PC21|F5GY19|Q8TBI5|Q8TDC1	Silent	SNP	ENST00000311813.4	37	CCDS5431.1																																																																																				0.647	AQP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215002.3	NM_000385		A	30951659	G	A	30951659	2	1	664	1	0	0	0	0	0	0	0	1	821	1103	39	1		1	AQP1	7	30951659	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	289649	30951659	128187004	353	41663										
BMPER	168667	broad.mit.edu;bcgsc.ca	37	chr7	34006162	34006162	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cggctgagccttgtgttctaCgccagtgccaggtaaagttc	12	11	1	1	rs374945016		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:34006162C>T	ENST00000297161.2	+	5	765	c.391C>T	c.(391-393)Cgc>Tgc	p.R131C	BMPER_ENST00000426693.1_Missense_Mutation_p.R131C	NM_133468.4	NP_597725.1	Q8N8U9	BMPER_HUMAN	BMP binding endothelial regulator	131	VWFC 2. {ECO:0000255|PROSITE- ProRule:PRU00220}.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis (GO:0002043)|endothelial cell activation (GO:0042118)|inner ear development (GO:0048839)|negative regulation of BMP signaling pathway (GO:0030514)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|regulation of endothelial cell migration (GO:0010594)|regulation of pathway-restricted SMAD protein phosphorylation (GO:0060393)|ureteric bud development (GO:0001657)	extracellular space (GO:0005615)				breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(7)|lung(24)|ovary(3)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	48						TTGTGTTCTACGCCAGTGCCA	0.448																																																0								C	CYS/ARG	0,4406		0,0,2203	71	72	72		391	5.9	1	7		72	1,8599	1.2+/-3.3	0,1,4299	no	missense	BMPER	NM_133468.3	180	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign	131/686	34006162	1,13005	2203	4300	6503	SO:0001583	missense	168667				CCDS5442.1	7p14.3	2009-02-18			ENSG00000164619	ENSG00000164619			24154	protein-coding gene	gene with protein product	"crossveinless-2"	608699				12897139, 14766204	Standard	NM_133468		Approved	Cv2, CRIM3	uc011kap.2	Q8N8U9	OTTHUMG00000128675	ENST00000297161.2:c.391C>T	7.37:g.34006162C>T	ENSP00000297161:p.Arg131Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1P8|Q8TF36	Missense_Mutation	SNP	ENST00000297161.2	37	CCDS5442.1	.	.	.	.	.	.	.	.	.	.	C	14.60	2.584504	0.46110	0.0	1.16E-4	ENSG00000164619	ENST00000297161;ENST00000426693	T;T	0.32272	1.46;1.46	5.87	5.87	0.94306	von Willebrand factor, type C (1);	0.696787	0.15764	N	0.245769	T	0.10723	0.0262	N	0.00560	-1.38	0.38776	D	0.954666	B	0.24882	0.113	B	0.12156	0.007	T	0.29941	-0.9995	10	0.37606	T	0.19	.	13.8324	0.63389	0.0:0.9214:0.0:0.0786	.	131	Q8N8U9	BMPER_HUMAN	C	131	ENSP00000297161:R131C;ENSP00000393950:R131C	ENSP00000297161:R131C	R	+	1	0	BMPER	33972687	0.235000	0.23794	0.957000	0.39632	0.979000	0.70002	2.342000	0.43992	2.780000	0.95670	0.655000	0.94253	CGC		0.448	BMPER-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250570.2	NM_133468		T	34006162	C	T	34006162	3	4	664	1	0	0	0	0	1	0	0	0	1468	536	19	1	405	1	BMPER	7	34006162	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3054503	34006162	125132501	354	41664										
URGCP	55665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	43917672	43917672	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgacactcctcacagtcctCgtcgacctttaggcccagtt	7	16	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:43917672C>T	ENST00000453200.1	-	6	1883	c.1390G>A	c.(1390-1392)Gag>Aag	p.E464K	URGCP_ENST00000223341.7_Missense_Mutation_p.E421K|URGCP-MRPS24_ENST00000603700.1_Intron|URGCP_ENST00000497914.1_5'UTR|URGCP_ENST00000447717.3_Missense_Mutation_p.E421K|URGCP_ENST00000402306.3_Missense_Mutation_p.E455K|URGCP_ENST00000443736.1_Missense_Mutation_p.E421K|URGCP_ENST00000336086.6_Missense_Mutation_p.E421K			Q8TCY9	URGCP_HUMAN	upregulator of cell proliferation	464					cell cycle (GO:0007049)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	GTP binding (GO:0005525)			breast(3)|endometrium(4)|kidney(2)|large_intestine(3)|liver(1)|lung(13)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	34						TCACAGTCCTCGTCGACCTTT	0.587																																																0													128	135	133					7																	43917672		2041	4188	6229	SO:0001583	missense	55665				CCDS43572.1, CCDS47577.1, CCDS47578.1	7p13	2010-02-17			ENSG00000106608	ENSG00000106608			30890	protein-coding gene	gene with protein product	"up-regulated gene 4"	610337				10819331, 12082552	Standard	NM_017920		Approved	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457	uc003tiw.3	Q8TCY9	OTTHUMG00000155245	ENST00000453200.1:c.1390G>A	7.37:g.43917672C>T	ENSP00000396918:p.Glu464Lys	Somatic		WXS	Illumina HiSeq	Phase_I	E9PFF6|Q658M4|Q68DH6|Q6MZZ5|Q8WV98|Q9NWR7|Q9P221	Missense_Mutation	SNP	ENST00000453200.1	37	CCDS47578.1	.	.	.	.	.	.	.	.	.	.	C	21.6	4.170495	0.78452	.	.	ENSG00000106608	ENST00000223341;ENST00000336086;ENST00000402306;ENST00000443736;ENST00000453200;ENST00000447717	T;T;T;T;T;T	0.14766	2.51;2.51;2.48;2.51;2.48;2.51	5.79	5.79	0.91817	.	0.100474	0.64402	D	0.000004	T	0.42381	0.1200	M	0.84082	2.675	0.39491	D	0.968051	D;D	0.89917	1.0;1.0	D;D	0.71414	0.973;0.973	T	0.42032	-0.9475	10	0.87932	D	0	-43.3797	17.5201	0.87784	0.0:1.0:0.0:0.0	.	455;464	Q8TCY9-2;Q8TCY9	.;URGCP_HUMAN	K	421;421;455;421;464;421	ENSP00000223341:E421K;ENSP00000336872:E421K;ENSP00000384955:E455K;ENSP00000392136:E421K;ENSP00000396918:E464K;ENSP00000402803:E421K	ENSP00000223341:E421K	E	-	1	0	URGCP	43884197	0.999000	0.42202	0.967000	0.41034	0.729000	0.41735	4.298000	0.59067	2.735000	0.93741	0.655000	0.94253	GAG		0.587	URGCP-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000338995.1	NM_001077664		T	43917672	C	T	43917672	3	4	664	1	0	0	0	0	1	0	0	0	17038	893	31	1	1409	1	URGCP	7	43917672	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	9911510	43917672	115220991	355	41665										
POLM	27434	mdanderson.org	37	chr7	44121936	44121936	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgacccatgcgaggctcgacCaggtagatggcgactcccgg	14	14	0	1	rs3218655	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:44121936C>A	ENST00000242248.5	-	1	203	c.102G>T	c.(100-102)ctG>ctT	p.L34L	POLM_ENST00000395831.3_Silent_p.L34L|POLM_ENST00000335195.6_Silent_p.L34L	NM_013284.2	NP_037416.1	Q9NP87	DPOLM_HUMAN	polymerase (DNA directed), mu	34	BRCT. {ECO:0000255|PROSITE- ProRule:PRU00033}.				DNA recombination (GO:0006310)|DNA repair (GO:0006281)	nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA-directed DNA polymerase activity (GO:0003887)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(2)|liver(1)|lung(6)|ovary(3)|skin(2)	22						GAGGCTCGACCAGGTAGATGG	0.736								DNA polymerases (catalytic subunits)					C|||	853	0.170327	0.2163	0.1844	5008	,	,		9905	0.1111		0.1491	False		,,,				2504	0.181															0								C		772,3464		79,614,1425	7	8	8		102	4.4	1	7	dbSNP_106	8	995,7359		69,857,3251	no	coding-synonymous	POLM	NM_013284.2		148,1471,4676	AA,AC,CC		11.9105,18.2247,14.0349		34/495	44121936	1767,10823	2118	4177	6295	SO:0001819	synonymous_variant	27434			AF176097	CCDS34625.1, CCDS64635.1, CCDS64636.1	7p13	2012-05-18			ENSG00000122678	ENSG00000122678		"DNA polymerases"	9185	protein-coding gene	gene with protein product	"Pol iota"	606344				10982892	Standard	XM_005249708		Approved	Tdt-N	uc003tjt.3	Q9NP87	OTTHUMG00000155353	ENST00000242248.5:c.102G>T	7.37:g.44121936C>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DVK4|Q6P5X8|Q86WQ9	Silent	SNP	ENST00000242248.5	37	CCDS34625.1																																																																																				0.736	POLM-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000339594.1	NM_013284		A	44121936	C	A	44121936	2	1	664	1	0	0	0	0	0	0	0	1	12213	581	21	4		4	POLM	7	44121936	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	204264	44121936	115016727	356	41666										
NPC1L1	29881	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr7	44579467	44579467	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagcgtggcagctgcagggaCgcgcacacggctgcaggagt	17	12	0	0	rs149017550	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:44579467C>T	ENST00000289547.4	-	2	584	c.529G>A	c.(529-531)Gtc>Atc	p.V177I	NPC1L1_ENST00000381160.3_Missense_Mutation_p.V177I|NPC1L1_ENST00000423141.1_Missense_Mutation_p.V177I|NPC1L1_ENST00000546276.1_Missense_Mutation_p.V177I	NM_013389.2	NP_037521.2	Q9UHC9	NPCL1_HUMAN	NPC1-like 1	177					cholesterol biosynthetic process (GO:0006695)|cholesterol transport (GO:0030301)|intestinal cholesterol absorption (GO:0030299)|lipoprotein metabolic process (GO:0042157)|response to drug (GO:0042493)|small molecule metabolic process (GO:0044281)|sterol transport (GO:0015918)	brush border membrane (GO:0031526)|cytoplasmic vesicle (GO:0031410)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	drug binding (GO:0008144)|hedgehog receptor activity (GO:0008158)|myosin V binding (GO:0031489)|Rab GTPase binding (GO:0017137)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(4)|large_intestine(7)|lung(27)|ovary(6)|prostate(2)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	57					Ezetimibe(DB00973)	GCTGCAGGGACGCGCACACGG	0.622													C|||	10	0.00199681	0.0	0.0	5008	,	,		20278	0.0		0.0099	False		,,,				2504	0.0															0								C	ILE/VAL,ILE/VAL	1,4405		0,1,2202	56	50	52		529,529	-0.2	0.9	7	dbSNP_134	52	51,8549		0,51,4249	yes	missense,missense	NPC1L1	NM_001101648.1,NM_013389.2	29,29	0,52,6451	TT,TC,CC		0.593,0.0227,0.3998	benign,benign	177/1333,177/1360	44579467	52,12954	2203	4300	6503	SO:0001583	missense	29881				CCDS5491.1, CCDS43575.1, CCDS75587.1	7p13	2012-11-15	2012-11-15		ENSG00000015520	ENSG00000015520			7898	protein-coding gene	gene with protein product		608010	"NPC1 (Niemann-Pick disease, type C1, gene)-like 1"			10783261	Standard	NM_013389		Approved		uc003tlb.3	Q9UHC9	OTTHUMG00000023691	ENST00000289547.4:c.529G>A	7.37:g.44579467C>T	ENSP00000289547:p.Val177Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2J7|B7ZLE6|D3DVK9|Q17RV5|Q6R3Q4|Q9UHC8	Missense_Mutation	SNP	ENST00000289547.4	37	CCDS5491.1	9	0.004120879120879121	0	0.0	0	0.0	0	0.0	9	0.011873350923482849	N	0.005	-2.221995	0.00283	2.27E-4	0.00593	ENSG00000015520	ENST00000289547;ENST00000381160;ENST00000546276;ENST00000423141	D;D;D;D	0.90385	-2.66;-2.66;-2.66;-2.66	5.04	-0.208	0.13185	.	0.337134	0.29868	N	0.010994	T	0.57154	0.2034	N	0.00595	-1.35	0.09310	N	0.999999	B;B;B;B	0.06786	0.0;0.001;0.0;0.0	B;B;B;B	0.04013	0.0;0.001;0.001;0.0	T	0.60707	-0.7210	10	0.23891	T	0.37	-27.144	5.2314	0.15424	0.0:0.3359:0.1498:0.5143	.	177;177;177;177	B7ZLE6;Q9UHC9-3;Q17RV5;D3DVK9	.;.;.;.	I	177	ENSP00000289547:V177I;ENSP00000370552:V177I;ENSP00000438033:V177I;ENSP00000404670:V177I	ENSP00000289547:V177I	V	-	1	0	NPC1L1	44545992	0.285000	0.24296	0.873000	0.34254	0.021000	0.10359	0.124000	0.15728	-0.265000	0.09352	-0.505000	0.04504	GTC		0.622	NPC1L1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000251256.1	NM_013389		T	44579467	C	T	44579467	3	4	664	1	0	0	0	0	1	0	0	0	10578	536	19	1	3626	1	NPC1L1	7	44579467	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	457531	44579467	114559196	357	41667										
UPP1	7378	broad.mit.edu	37	chr7	48134391	48134391	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agttggcggaatggcggccaCgggagccaatgcagagaaag	17	8	0	1	rs11971829	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:48134391C>T	ENST00000331803.4	+	4	634	c.11C>T	c.(10-12)aCg>aTg	p.T4M	UPP1_ENST00000482015.1_3'UTR|UPP1_ENST00000429491.2_5'UTR|UPP1_ENST00000395564.4_Missense_Mutation_p.T4M|UPP1_ENST00000341253.4_Missense_Mutation_p.T4M			Q16831	UPP1_HUMAN	uridine phosphorylase 1	4					cellular response to glucose starvation (GO:0042149)|nucleobase-containing compound metabolic process (GO:0006139)|nucleobase-containing small molecule metabolic process (GO:0055086)|nucleotide catabolic process (GO:0009166)|pyrimidine nucleobase metabolic process (GO:0006206)|pyrimidine nucleoside catabolic process (GO:0046135)|pyrimidine nucleoside salvage (GO:0043097)|small molecule metabolic process (GO:0044281)|UMP salvage (GO:0044206)|uridine metabolic process (GO:0046108)	cytosol (GO:0005829)	uridine phosphorylase activity (GO:0004850)			breast(1)|endometrium(2)|large_intestine(1)|lung(12)|ovary(1)|upper_aerodigestive_tract(1)	18					Fluorouracil(DB00544)	ATGGCGGCCACGGGAGCCAAT	0.498													C|||	6	0.00119808	0.0038	0.0014	5008	,	,		16453	0.0		0.0	False		,,,				2504	0.0															0								C	MET/THR,MET/THR	20,4386	26.2+/-53.5	0,20,2183	107	93	97		11,11	1.4	0	7	dbSNP_120	97	0,8600		0,0,4300	yes	missense,missense	UPP1	NM_003364.2,NM_181597.1	81,81	0,20,6483	TT,TC,CC		0.0,0.4539,0.1538	possibly-damaging,possibly-damaging	4/311,4/311	48134391	20,12986	2203	4300	6503	SO:0001583	missense	7378			AK096167	CCDS5507.1	7p12.3	2012-10-02	2003-08-28	2003-08-29	ENSG00000183696	ENSG00000183696	2.4.2.3		12576	protein-coding gene	gene with protein product		191730	"uridine phosphorylase"	UP		752472, 11807789	Standard	NM_003364		Approved	UPASE, UPP, UDRPASE	uc003toj.3	Q16831	OTTHUMG00000129253	ENST00000331803.4:c.11C>T	7.37:g.48134391C>T	ENSP00000330032:p.Thr4Met	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVM4|Q15362	Missense_Mutation	SNP	ENST00000331803.4	37	CCDS5507.1	5	0.0022893772893772895	5	0.01016260162601626	0	0.0	0	0.0	0	0.0	C	3.804	-0.041115	0.07452	0.004539	0.0	ENSG00000183696	ENST00000416681;ENST00000331803;ENST00000432131;ENST00000341253;ENST00000395564;ENST00000436673	T;T;T;T;T	0.46451	0.87;0.89;0.89;0.89;0.87	3.23	1.37	0.22104	.	2.685510	0.01278	N	0.009653	T	0.15696	0.0378	N	0.04508	-0.205	0.23023	N	0.998416	B;B	0.26081	0.141;0.081	B;B	0.10450	0.005;0.003	T	0.15694	-1.0428	10	0.48119	T	0.1	0.0042	3.8331	0.08882	0.2382:0.6327:0.0:0.1291	rs11971829;rs11971829	4;4	B4DND0;Q16831	.;UPP1_HUMAN	M	4	ENSP00000405209:T4M;ENSP00000330032:T4M;ENSP00000342878:T4M;ENSP00000378931:T4M;ENSP00000390118:T4M	ENSP00000330032:T4M	T	+	2	0	UPP1	48100916	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.120000	0.10660	0.374000	0.24650	-0.181000	0.13052	ACG		0.498	UPP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251360.1	NM_003364		T	48134391	C	T	48134391	3	4	664	1	0	0	0	0	1	0	0	0	17024	536	19	1	13	1	UPP1	7	48134391	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3554924	48134391	111004272	358	41668										
LAT2	7462	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr7	73630393	73630393	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtctgtgtgtgcgctgctcaCgcccaggtaagcgggggtct	16	11	3	0	rs369438020		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:73630393C>T	ENST00000460943.1	+	3	977	c.88C>T	c.(88-90)Cgc>Tgc	p.R30C	LAT2_ENST00000344995.5_Missense_Mutation_p.R30C|LAT2_ENST00000398475.1_Missense_Mutation_p.R30C|LAT2_ENST00000275635.7_Missense_Mutation_p.R30C	NM_032464.2	NP_115853.2	Q9UHI5	LAT2_HUMAN	linker for activation of T cells family, member 2	0					amino acid transport (GO:0006865)|blood coagulation (GO:0007596)|cellular amino acid metabolic process (GO:0006520)|ion transport (GO:0006811)|leukocyte migration (GO:0050900)|metal ion homeostasis (GO:0055065)|neutral amino acid transport (GO:0015804)|organic cation transport (GO:0015695)|response to toxic substance (GO:0009636)|toxin transport (GO:1901998)|transmembrane transport (GO:0055085)|transport (GO:0006810)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	amino acid transmembrane transporter activity (GO:0015171)|L-amino acid transmembrane transporter activity (GO:0015179)|neutral amino acid transmembrane transporter activity (GO:0015175)|organic cation transmembrane transporter activity (GO:0015101)|peptide antigen binding (GO:0042605)|toxin transporter activity (GO:0019534)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(1)|prostate(1)	6					L-Alanine(DB00160)|L-DOPA(DB01235)|L-Glutamine(DB00130)|L-Phenylalanine(DB00120)	GCGCTGCTCACGCCCAGGTAA	0.647													C|||	1	0.000199681	0.0008	0.0	5008	,	,		18325	0.0		0.0	False		,,,				2504	0.0															0								C	CYS/ARG,CYS/ARG,CYS/ARG	0,4308		0,0,2154	36	45	42		88,88,88	3.5	0.7	7		42	2,8488		0,2,4243	no	missense,missense,missense	LAT2	NM_014146.3,NM_032463.2,NM_032464.2	180,180,180	0,2,6397	TT,TC,CC		0.0236,0.0,0.0156	probably-damaging,probably-damaging,probably-damaging	30/244,30/244,30/244	73630393	2,12796	2154	4245	6399	SO:0001583	missense	7462			AF257135	CCDS5566.2	7q11.23	2011-11-01	2005-04-26	2005-04-26	ENSG00000086730	ENSG00000086730			12749	protein-coding gene	gene with protein product	"linker for activation of B cells", "non-T cell activation linker", "linker for activation of T cells, transmembrane adaptor 2"	605719	"Williams-Beuren syndrome chromosome region 5"	WBSCR15, WBSCR5		8812460, 12514734	Standard	NM_032464		Approved	WSCR5, HSPC046, LAB, NTAL	uc003uai.3	Q9GZY6	OTTHUMG00000130151	ENST00000460943.1:c.88C>T	7.37:g.73630393C>T	ENSP00000420494:p.Arg30Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8Q4|B4DKT4|B4DTV6|D3DS46|F2Z2J4|Q86U05|Q9UKQ6|Q9UKQ7|Q9UKQ8|Q9Y445	Missense_Mutation	SNP	ENST00000460943.1	37	CCDS5566.2	.	.	.	.	.	.	.	.	.	.	C	16.13	3.036763	0.54896	0.0	2.36E-4	ENSG00000086730	ENST00000465116;ENST00000344995;ENST00000460943;ENST00000475494;ENST00000398475;ENST00000361082;ENST00000275635;ENST00000470709	T;T;T;T;T;T;T;T	0.09911	2.93;2.93;2.93;2.93;2.93;2.93;2.93;2.93	3.49	3.49	0.39957	.	0.403035	0.18670	N	0.134471	T	0.19565	0.0470	L	0.32530	0.975	0.40535	D	0.98096	D	0.89917	1.0	D	0.69654	0.965	T	0.01360	-1.1375	10	0.66056	D	0.02	-10.4302	10.7933	0.46445	0.0:1.0:0.0:0.0	.	30	Q9GZY6	NTAL_HUMAN	C	30	ENSP00000420549:R30C;ENSP00000344881:R30C;ENSP00000420494:R30C;ENSP00000417533:R30C;ENSP00000381492:R30C;ENSP00000354374:R30C;ENSP00000275635:R30C;ENSP00000419150:R30C	ENSP00000275635:R30C	R	+	1	0	LAT2	73268329	0.967000	0.33354	0.740000	0.30986	0.478000	0.33099	1.466000	0.35310	2.256000	0.74724	0.561000	0.74099	CGC		0.647	LAT2-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277062.1			T	73630393	C	T	73630393	3	4	664	1	0	0	0	0	1	0	0	0	8652	536	19	1	90	1	LAT2	7	73630393	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	25496002	73630393	85508270	359	41669										
POR	5447	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	75608803	75608803	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgtgttctacggctcccagaCggggactgcagaggagtttg	15	10	1	2	rs562750402		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:75608803C>T	ENST00000461988.1	+	4	377	c.272C>T	c.(271-273)aCg>aTg	p.T91M	POR_ENST00000439269.1_5'Flank|POR_ENST00000545601.1_5'Flank|POR_ENST00000450476.1_5'Flank|POR_ENST00000419840.1_5'UTR|POR_ENST00000475509.1_3'UTR|POR_ENST00000394893.1_Missense_Mutation_p.T91M	NM_000941.2	NP_000932.3	P16435	NCPR_HUMAN	P450 (cytochrome) oxidoreductase	88	Flavodoxin-like. {ECO:0000255|PROSITE- ProRule:PRU00088}.				carnitine metabolic process (GO:0009437)|cellular organofluorine metabolic process (GO:0090346)|cellular response to follicle-stimulating hormone stimulus (GO:0071372)|cellular response to peptide hormone stimulus (GO:0071375)|demethylation (GO:0070988)|fatty acid oxidation (GO:0019395)|flavonoid metabolic process (GO:0009812)|internal peptidyl-lysine acetylation (GO:0018393)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of lipase activity (GO:0060192)|nitrate catabolic process (GO:0043602)|nitric oxide catabolic process (GO:0046210)|oxidation-reduction process (GO:0055114)|positive regulation of cholesterol biosynthetic process (GO:0045542)|positive regulation of chondrocyte differentiation (GO:0032332)|positive regulation of monooxygenase activity (GO:0032770)|positive regulation of smoothened signaling pathway (GO:0045880)|positive regulation of steroid hormone biosynthetic process (GO:0090031)|regulation of growth plate cartilage chondrocyte proliferation (GO:0003420)|response to drug (GO:0042493)|response to nutrient (GO:0007584)	endoplasmic reticulum (GO:0005783)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|mitochondrion (GO:0005739)	cytochrome-b5 reductase activity, acting on NAD(P)H (GO:0004128)|electron carrier activity (GO:0009055)|flavin adenine dinucleotide binding (GO:0050660)|FMN binding (GO:0010181)|hydrolase activity (GO:0016787)|iron ion binding (GO:0005506)|iron-cytochrome-c reductase activity (GO:0047726)|NADP binding (GO:0050661)|NADPH-hemoprotein reductase activity (GO:0003958)|nitric oxide dioxygenase activity (GO:0008941)			central_nervous_system(1)|endometrium(2)|kidney(2)|lung(3)|ovary(1)	9					Benzphetamine(DB00865)|Daunorubicin(DB00694)|Doxorubicin(DB00997)|Ethylmorphine(DB01466)|Flavin adenine dinucleotide(DB03147)|Lipoic Acid(DB00166)|Mitomycin(DB00305)|Nilutamide(DB00665)|Nitrofurantoin(DB00698)	GGCTCCCAGACGGGGACTGCA	0.617																																																0													42	51	48					7																	75608803		2093	4208	6301	SO:0001583	missense	5447			AF258341	CCDS5579.1	7q11.2	2006-12-05			ENSG00000127948	ENSG00000127948			9208	protein-coding gene	gene with protein product		124015				2516426	Standard	NM_000941		Approved	CYPOR, FLJ26468	uc003udy.3	P16435	OTTHUMG00000130413	ENST00000461988.1:c.272C>T	7.37:g.75608803C>T	ENSP00000419970:p.Thr91Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q16455|Q197M5|Q8N181|Q9H3M8|Q9UDT3	Missense_Mutation	SNP	ENST00000461988.1	37	CCDS5579.1	.	.	.	.	.	.	.	.	.	.	C	25.2	4.616300	0.87359	.	.	ENSG00000127948	ENST00000453773;ENST00000439963;ENST00000461988;ENST00000394893;ENST00000412521;ENST00000414186;ENST00000432753;ENST00000426184	T;T;T;T;T;T;T;T	0.80653	-1.4;-1.4;-1.4;-1.4;-1.4;-1.4;-1.4;-1.4	3.78	3.78	0.43462	.	0.000000	0.85682	D	0.000000	D	0.91513	0.7320	M	0.92604	3.325	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.93741	0.7050	10	0.87932	D	0	-35.3056	15.1594	0.72771	0.0:1.0:0.0:0.0	.	97	Q59ED7	.	M	91;91;91;91;91;91;91;44	ENSP00000395813:T91M;ENSP00000390540:T91M;ENSP00000419970:T91M;ENSP00000378355:T91M;ENSP00000409238:T91M;ENSP00000399327:T91M;ENSP00000389409:T91M;ENSP00000400964:T44M	ENSP00000378355:T91M	T	+	2	0	POR	75446739	1.000000	0.71417	1.000000	0.80357	0.960000	0.62799	7.209000	0.77916	2.118000	0.64928	0.655000	0.94253	ACG		0.617	POR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252796.7	NM_000941		T	75608803	C	T	75608803	3	4	664	1	0	0	0	0	1	0	0	0	12264	536	19	1	282	1	POR	7	75608803	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1978410	75608803	83529860	360	41670										
SRCRB4D	136853	broad.mit.edu;mdanderson.org	37	chr7	76024631	76024631	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaggatggcagtgctgtgagCgttgggggacccaggcctag	19	8	0	1	rs139627347		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:76024631C>T	ENST00000275560.3	-	7	1232	c.885G>A	c.(883-885)acG>acA	p.T295T	SRCRB4D_ENST00000492979.2_5'Flank|ZP3_ENST00000336517.4_5'Flank	NM_080744.1	NP_542782.1														autonomic_ganglia(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(2)|lung(9)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	21						GTGCTGTGAGCGTTGGGGGAC	0.622																																																0								C		0,4406		0,0,2203	56	53	54		885	1.6	0.2	7	dbSNP_134	54	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	SRCRB4D	NM_080744.1		0,1,6502	TT,TC,CC		0.0116,0.0,0.0077		295/576	76024631	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	136853																														ENST00000275560.3:c.885G>A	7.37:g.76024631C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000275560.3	37	CCDS5585.1																																																																																				0.622	SRCRB4D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253001.3			T	76024631	C	T	76024631	2	4	664	1	0	0	0	0	0	0	0	1	15149	755	27	1		1	SRCRB4D	7	76024631	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	415828	76024631	83114032	361	41671										
SRCRB4D	136853	broad.mit.edu;bcgsc.ca	37	chr7	76030355	76030355	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagtggagtgggctgtagggCgctggctgaaacagagtgag	19	6	0	3	rs77067369	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:76030355C>T	ENST00000275560.3	-	3	486	c.139G>A	c.(139-141)Gcc>Acc	p.A47T	ZP3_ENST00000336517.4_Intron	NM_080744.1	NP_542782.1														autonomic_ganglia(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(2)|lung(9)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	21						GGCTGTAGGGCGCTGGCTGAA	0.627													C|||	50	0.00998403	0.0	0.0	5008	,	,		16587	0.0496		0.0	False		,,,				2504	0.0															0								C	,THR/ALA	1,3991		0,1,1995	120	92	101		,139	1.3	0.5	7	dbSNP_131	101	0,7736		0,0,3868	yes	intron,missense	ZP3,SRCRB4D	NM_007155.5,NM_080744.1	,58	0,1,5863	TT,TC,CC		0.0,0.0251,0.0085	,benign	,47/576	76030355	1,11727	1996	3868	5864	SO:0001583	missense	136853																														ENST00000275560.3:c.139G>A	7.37:g.76030355C>T	ENSP00000275560:p.Ala47Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000275560.3	37	CCDS5585.1	36	0.016483516483516484	0	0.0	0	0.0	36	0.06293706293706294	0	0.0	C	11.06	1.528752	0.27387	2.51E-4	0.0	ENSG00000146700	ENST00000275560	T	0.01209	5.17	4.78	1.3	0.21679	.	0.529873	0.15674	N	0.250223	T	0.00144	0.0004	L	0.36672	1.1	0.46028	D	0.998824	B	0.33739	0.422	B	0.25405	0.06	T	0.67699	-0.5603	10	0.22706	T	0.39	.	3.4369	0.07449	0.0:0.5166:0.2105:0.2729	.	47	Q8WTU2	SRB4D_HUMAN	T	47	ENSP00000275560:A47T	ENSP00000275560:A47T	A	-	1	0	SRCRB4D	75868291	0.062000	0.20869	0.473000	0.27253	0.876000	0.50452	0.135000	0.15952	0.519000	0.28406	-0.350000	0.07774	GCC		0.627	SRCRB4D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253001.3			T	76030355	C	T	76030355	3	4	664	1	0	0	0	0	1	0	0	0	15149	768	27	1	1624	1	SRCRB4D	7	76030355	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5724	76030355	83108308	362	41672										
CACNA2D1	781	broad.mit.edu;bcgsc.ca	37	chr7	81620513	81620513	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttaattacctgtaatctgtgCcattgacaggtgtccatgtg	9	8	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:81620513C>T	ENST00000356253.5	-	22	2096	c.1841G>A	c.(1840-1842)gGc>gAc	p.G614D	CACNA2D1_ENST00000356860.3_Missense_Mutation_p.G595D			P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha 2/delta subunit 1	614					calcium ion transport (GO:0006816)|regulation of calcium ion transport (GO:0051924)	extracellular vesicular exosome (GO:0070062)|sarcoplasmic reticulum (GO:0016529)|T-tubule (GO:0030315)|voltage-gated calcium channel complex (GO:0005891)	metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)			breast(2)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(15)|liver(1)|lung(42)|ovary(6)|pancreas(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	81					Amlodipine(DB00381)|Cyclandelate(DB04838)|Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Spironolactone(DB00421)	GTAATCTGTGCCATTGACAGG	0.303																																																0													147	126	133					7																	81620513		2202	4295	6497	SO:0001583	missense	781			M76559	CCDS5598.1	7q21-q22	2014-09-17			ENSG00000153956	ENSG00000153956		"Calcium channel subunits"	1399	protein-coding gene	gene with protein product		114204	"long intergenic non-protein coding RNA 1112"	CACNL2A, CACNA2, MHS3, LINC01112		8188232	Standard	XM_005250570		Approved	lncRNA-N3	uc003uhr.1	P54289	OTTHUMG00000023622	ENST00000356253.5:c.1841G>A	7.37:g.81620513C>T	ENSP00000348589:p.Gly614Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q17R45|Q9UD80|Q9UD81|Q9UD82	Missense_Mutation	SNP	ENST00000356253.5	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	13.41|13.41	2.227764|2.227764	0.39399|0.39399	.|.	.|.	ENSG00000153956|ENSG00000153956	ENST00000443883|ENST00000356860;ENST00000284088;ENST00000356253	.|T;T	.|0.75260	.|-0.92;-0.92	5.93|5.93	5.93|5.93	0.95920|0.95920	.|.	.|0.046899	.|0.85682	.|D	.|0.000000	T|T	0.69242|0.69242	0.3089|0.3089	L|L	0.38175|0.38175	1.15|1.15	0.80722|0.80722	D|D	1|1	.|B	.|0.23735	.|0.09	.|B	.|0.29176	.|0.099	T|T	0.62039|0.62039	-0.6938|-0.6938	5|10	.|0.18710	.|T	.|0.47	-10.5042|-10.5042	20.3465|20.3465	0.98790|0.98790	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|595	.|P54289-2	.|.	T|D	113|595;614;614	.|ENSP00000349320:G595D;ENSP00000348589:G614D	.|ENSP00000284088:G614D	A|G	-|-	1|2	0|0	CACNA2D1|CACNA2D1	81458449|81458449	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.987000|0.987000	0.75469|0.75469	4.548000|4.548000	0.60718|0.60718	2.798000|2.798000	0.96311|0.96311	0.655000|0.655000	0.94253|0.94253	GCA|GGC		0.303	CACNA2D1-201	KNOWN	basic	protein_coding	protein_coding				T	81620513	C	T	81620513	3	4	664	1	0	0	0	0	1	0	0	0	2550	739	26	2	1567	2	CACNA2D1	7	81620513	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5590158	81620513	77518150	363	41673										
STEAP2	261729	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr7	89854552	89854552	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accattcgacttattagatgCggctatcatgtggtcatagg	10	8	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:89854552C>T	ENST00000287908.3	+	2	549	c.156C>T	c.(154-156)tgC>tgT	p.C52C	STEAP2_ENST00000394626.1_Silent_p.C52C|STEAP2_ENST00000394629.2_Silent_p.C52C|STEAP2_ENST00000394621.2_Silent_p.C52C|STEAP2_ENST00000394632.1_Silent_p.C52C|STEAP2_ENST00000394622.2_Silent_p.C52C|STEAP2_ENST00000402625.2_Silent_p.C52C	NM_001244944.1|NM_152999.3	NP_001231873.1|NP_694544.2	Q8NFT2	STEA2_HUMAN	STEAP family member 2, metalloreductase	52					copper ion import (GO:0015677)|endocytosis (GO:0006897)|ferric iron import into cell (GO:0097461)|Golgi to plasma membrane transport (GO:0006893)|iron ion homeostasis (GO:0055072)|regulated secretory pathway (GO:0045055)|response to hormone (GO:0009725)	cytosol (GO:0005829)|early endosome (GO:0005769)|integral component of Golgi membrane (GO:0030173)|intracellular membrane-bounded organelle (GO:0043231)|plasma membrane (GO:0005886)|trans-Golgi network transport vesicle (GO:0030140)	cupric reductase activity (GO:0008823)|ferric-chelate reductase (NADPH) activity (GO:0052851)|metal ion binding (GO:0046872)|transporter activity (GO:0005215)			endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(5)|ovary(2)|prostate(1)|skin(1)	15	all_hematologic(106;0.112)					TTATTAGATGCGGCTATCATG	0.393																																																0													207	180	189					7																	89854552		2203	4300	6503	SO:0001819	synonymous_variant	261729			AF455138	CCDS5615.1, CCDS43612.1, CCDS59064.1	7q21.13	2011-09-30	2011-09-30		ENSG00000157214	ENSG00000157214			17885	protein-coding gene	gene with protein product		605094	"prostate cancer associated protein 1", "six transmembrane epithelial antigen of the prostate 2"	PCANAP1		10613842, 12095985	Standard	NM_001040665		Approved	IPCA-1, STAMP1, STMP	uc003ujz.3	Q8NFT2	OTTHUMG00000023341	ENST00000287908.3:c.156C>T	7.37:g.89854552C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4D1F1|G5E9C6|Q6UXN6|Q6YPB1|Q8IUE7	Silent	SNP	ENST00000287908.3	37	CCDS5615.1																																																																																				0.393	STEAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059662.4	NM_152999		T	89854552	C	T	89854552	2	4	664	1	0	0	0	0	0	0	0	1	15290	776	27	1		1	STEAP2	7	89854552	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	8234039	89854552	69284111	364	41674										
AKAP9	10142	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr7	91631833	91631833	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atcaagagttacaagaggagTatgcttgccttctcaaagta	9	7	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:91631833T>C	ENST00000359028.2	+	9	2863	c.2638T>C	c.(2638-2640)Tat>Cat	p.Y880H	AKAP9_ENST00000356239.3_Missense_Mutation_p.Y868H|AKAP9_ENST00000358100.2_Missense_Mutation_p.Y880H			Q99996	AKAP9_HUMAN	A kinase (PRKA) anchor protein 9	880	Glu-rich.				G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|Sertoli cell development (GO:0060009)|signal transduction (GO:0007165)|spermatogenesis (GO:0007283)|synaptic transmission (GO:0007268)|transport (GO:0006810)	centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|pericentriolar material (GO:0000242)|voltage-gated potassium channel complex (GO:0008076)	ion channel binding (GO:0044325)|protein complex scaffold (GO:0032947)|receptor binding (GO:0005102)			NS(1)|autonomic_ganglia(2)|breast(14)|central_nervous_system(3)|cervix(1)|endometrium(13)|kidney(12)|large_intestine(35)|lung(49)|ovary(8)|prostate(6)|skin(8)|stomach(1)|urinary_tract(2)	155	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)			ACAAGAGGAGTATGCTTGCCT	0.299			T	BRAF	papillary thyroid																																		Dom	yes		7	7q21-q22	10142	A kinase (PRKA) anchor protein (yotiao) 9		E	0													51	56	55					7																	91631833		2200	4296	6496	SO:0001583	missense	10142			AF091711	CCDS5622.1	7q21-q22	2014-09-17	2013-09-25		ENSG00000127914	ENSG00000127914		"A-kinase anchor proteins", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	379	protein-coding gene	gene with protein product	"A-kinase anchoring protein 450", "AKAP9-BRAF fusion protein", "AKAP120-like protein", "centrosome- and golgi-localized protein kinase N-associated protein", "protein kinase A anchoring protein 9", "A-kinase anchor protein, 350kDa", "protein phosphatase 1, regulatory subunit 45", "yotiao"	604001				9482789, 10390370, 24475373	Standard	NM_147185		Approved	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11	uc003ulg.3	Q99996	OTTHUMG00000131127	ENST00000359028.2:c.2638T>C	7.37:g.91631833T>C	ENSP00000351922:p.Tyr880His	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1F0|A4D1F2|A4D1F4|O14869|O43355|O94895|Q75N20|Q9UQH3|Q9UQQ4|Q9Y6B8|Q9Y6Y2	Missense_Mutation	SNP	ENST00000359028.2	37		.	.	.	.	.	.	.	.	.	.	T	11.98	1.801164	0.31869	.	.	ENSG00000127914	ENST00000356239;ENST00000359028;ENST00000358100;ENST00000413120;ENST00000394565	T;T;T	0.05025	3.51;3.51;3.51	5.25	5.25	0.73442	.	0.000000	0.37809	N	0.001932	T	0.24470	0.0593	M	0.69823	2.125	0.41469	D	0.988096	D;D;D;D	0.89917	0.998;0.999;1.0;1.0	D;D;D;D	0.78314	0.975;0.989;0.983;0.991	T	0.00536	-1.1683	10	0.72032	D	0.01	.	15.6084	0.76692	0.0:0.0:0.0:1.0	.	880;868;868;880	Q99996;Q99996-2;Q99996-3;A4D1E4	AKAP9_HUMAN;.;.;.	H	868;880;880;880;880	ENSP00000348573:Y868H;ENSP00000351922:Y880H;ENSP00000350813:Y880H	ENSP00000348573:Y868H	Y	+	1	0	AKAP9	91469769	1.000000	0.71417	0.950000	0.38849	0.938000	0.57974	4.127000	0.57944	2.326000	0.78906	0.533000	0.62120	TAT		0.299	AKAP9-202	KNOWN	basic	protein_coding	protein_coding		NM_005751		C	91631833	T	C	91631833	3	2	664	1	0	0	0	0	1	0	0	0	459	1638	57	3	2632	3	AKAP9	7	91631833	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1777281	91631833	67506830	365	41675										
CDK6	1021	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	92252390	92252390	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atcaacatctgaacttccacGaaaaagaggcctaaaagaat	6	9	2	3	rs373488172		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:92252390G>A	ENST00000265734.4	-	6	1069	c.658C>T	c.(658-660)Cgt>Tgt	p.R220C	CDK6_ENST00000424848.2_Missense_Mutation_p.R220C	NM_001259.6	NP_001250.1	Q00534	CDK6_HUMAN	cyclin-dependent kinase 6	220	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				astrocyte development (GO:0014002)|cell cycle arrest (GO:0007050)|cell dedifferentiation (GO:0043697)|cell division (GO:0051301)|dentate gyrus development (GO:0021542)|G1/S transition of mitotic cell cycle (GO:0000082)|generation of neurons (GO:0048699)|gliogenesis (GO:0042063)|hematopoietic stem cell differentiation (GO:0060218)|lateral ventricle development (GO:0021670)|mitotic cell cycle (GO:0000278)|negative regulation of cell cycle (GO:0045786)|negative regulation of cell differentiation (GO:0045596)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cellular senescence (GO:2000773)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of myeloid cell differentiation (GO:0045638)|negative regulation of osteoblast differentiation (GO:0045668)|Notch signaling pathway (GO:0007219)|positive regulation of cell-matrix adhesion (GO:0001954)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of gene expression (GO:0010628)|protein phosphorylation (GO:0006468)|regulation of cell motility (GO:2000145)|regulation of erythrocyte differentiation (GO:0045646)|regulation of gene expression (GO:0010468)|response to virus (GO:0009615)|T cell differentiation in thymus (GO:0033077)|type B pancreatic cell development (GO:0003323)	cyclin-dependent protein kinase holoenzyme complex (GO:0000307)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|ruffle (GO:0001726)	ATP binding (GO:0005524)|cyclin binding (GO:0030332)|cyclin-dependent protein serine/threonine kinase activity (GO:0004693)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(5)|skin(1)|urinary_tract(1)	11	all_cancers(62;8.72e-12)|all_epithelial(64;3.65e-10)|Breast(17;0.000675)|all_lung(186;0.0392)|Lung NSC(181;0.053)|all_neural(327;0.219)|all_hematologic(106;0.237)		STAD - Stomach adenocarcinoma(4;6.16e-07)|GBM - Glioblastoma multiforme(5;1.2e-06)|all cancers(6;3.1e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			GAACTTCCACGAAAAAGAGGC	0.294			T	MLLT10	ALL																																		Dom	yes		7	7q21-q22	1021	cyclin-dependent kinase 6		L	0								G	CYS/ARG,CYS/ARG	0,4398		0,0,2199	43	44	43		658,658	5.2	1	7		43	1,8591		0,1,4295	no	missense,missense	CDK6	NM_001259.6,NM_001145306.1	180,180	0,1,6494	AA,AG,GG		0.0116,0.0,0.0077	benign,benign	220/327,220/327	92252390	1,12989	2199	4296	6495	SO:0001583	missense	1021				CCDS5628.1	7q21-q22	2011-11-08			ENSG00000105810	ENSG00000105810		"Cyclin-dependent kinases"	1777	protein-coding gene	gene with protein product		603368				1639063	Standard	NM_001259		Approved	PLSTIRE	uc010lez.3	Q00534	OTTHUMG00000131697	ENST00000265734.4:c.658C>T	7.37:g.92252390G>A	ENSP00000265734:p.Arg220Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1G0	Missense_Mutation	SNP	ENST00000265734.4	37	CCDS5628.1	.	.	.	.	.	.	.	.	.	.	G	14.97	2.693066	0.48202	0.0	1.16E-4	ENSG00000105810	ENST00000265734;ENST00000424848	T;T	0.66638	-0.22;-0.22	5.19	5.19	0.71726	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.61426	0.2346	L	0.43923	1.385	0.80722	D	1	B	0.24132	0.098	B	0.15870	0.014	T	0.58434	-0.7637	10	0.45353	T	0.12	-10.0515	19.094	0.93242	0.0:0.0:1.0:0.0	.	220	Q00534	CDK6_HUMAN	C	220	ENSP00000265734:R220C;ENSP00000397087:R220C	ENSP00000265734:R220C	R	-	1	0	CDK6	92090326	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	6.245000	0.72398	2.595000	0.87683	0.650000	0.86243	CGT		0.294	CDK6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254605.2			A	92252390	G	A	92252390	3	1	664	1	0	0	0	0	1	0	0	0	3150	1058	37	1	334	1	CDK6	7	92252390	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	620557	92252390	66886273	366	41676										
LMTK2	22853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	97823453	97823453	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acgatcgcccctgcaccctcGcttccacggggaccaacacg	9	19	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:97823453G>A	ENST00000297293.5	+	11	3969	c.3676G>A	c.(3676-3678)Gct>Act	p.A1226T		NM_014916.3	NP_055731.2	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2	1226					early endosome to late endosome transport (GO:0045022)|endocytic recycling (GO:0032456)|negative regulation of catalytic activity (GO:0043086)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|receptor recycling (GO:0001881)|transferrin transport (GO:0033572)	early endosome (GO:0005769)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)|recycling endosome (GO:0055037)	ATP binding (GO:0005524)|myosin VI binding (GO:0070853)|protein phosphatase inhibitor activity (GO:0004864)|protein serine/threonine kinase activity (GO:0004674)			NS(2)|breast(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(13)|lung(25)|ovary(1)|pancreas(2)|skin(2)|stomach(3)	59	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					CTGCACCCTCGCTTCCACGGG	0.607																																																0													67	64	65					7																	97823453		2203	4300	6503	SO:0001583	missense	22853			AB029002	CCDS5654.1	7q22.1	2014-06-12			ENSG00000164715	ENSG00000164715			17880	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 100"	610989				15005709	Standard	NM_014916		Approved	KIAA1079, KPI2, KPI-2, cprk, LMR2, BREK, AATYK2, PPP1R100	uc003upd.2	Q8IWU2	OTTHUMG00000154256	ENST00000297293.5:c.3676G>A	7.37:g.97823453G>A	ENSP00000297293:p.Ala1226Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A4D272|Q75MG7|Q9UPS3	Missense_Mutation	SNP	ENST00000297293.5	37	CCDS5654.1	.	.	.	.	.	.	.	.	.	.	G	5.442	0.266728	0.10294	.	.	ENSG00000164715	ENST00000297293	T	0.77229	-1.08	5.84	0.0503	0.14293	.	0.727788	0.13285	N	0.399478	T	0.59142	0.2172	L	0.29908	0.895	0.09310	N	1	B	0.11235	0.004	B	0.06405	0.002	T	0.37384	-0.9708	10	0.12766	T	0.61	.	5.8759	0.18828	0.6301:0.0:0.2131:0.1568	.	1226	Q8IWU2	LMTK2_HUMAN	T	1226	ENSP00000297293:A1226T	ENSP00000297293:A1226T	A	+	1	0	LMTK2	97661389	0.085000	0.21516	0.033000	0.17914	0.382000	0.30200	0.427000	0.21379	-0.208000	0.10171	-0.345000	0.07892	GCT		0.607	LMTK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000334560.1	NM_014916		A	97823453	G	A	97823453	3	1	664	1	0	0	0	0	1	0	0	0	8866	1087	38	1	3718	1	LMTK2	7	97823453	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5571063	97823453	61315210	367	41677										
TRRAP	8295	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	98576517	98576517	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctggactgccatgaaggaggCgctggtgcaggtgagacgcc	17	10	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:98576517C>T	ENST00000359863.4	+	57	8812	c.8603C>T	c.(8602-8604)gCg>gTg	p.A2868V	TRRAP_ENST00000446306.3_Missense_Mutation_p.A2850V|TRRAP_ENST00000355540.3_Missense_Mutation_p.A2850V	NM_001244580.1	NP_001231509.1	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated protein	2868	FAT. {ECO:0000255|PROSITE- ProRule:PRU00534}.				chromatin organization (GO:0006325)|histone acetylation (GO:0016573)|histone deubiquitination (GO:0016578)|histone H2A acetylation (GO:0043968)|histone H4 acetylation (GO:0043967)|mitotic cell cycle checkpoint (GO:0007093)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	NuA4 histone acetyltransferase complex (GO:0035267)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PCAF complex (GO:0000125)|STAGA complex (GO:0030914)|Swr1 complex (GO:0000812)|transcription factor TFTC complex (GO:0033276)	phosphotransferase activity, alcohol group as acceptor (GO:0016773)|transcription coactivator activity (GO:0003713)|transcription cofactor activity (GO:0003712)	p.A2850V(1)		NS(3)|breast(1)|central_nervous_system(10)|endometrium(16)|kidney(7)|large_intestine(36)|liver(1)|lung(54)|ovary(10)|pancreas(1)|prostate(8)|skin(16)|stomach(5)|upper_aerodigestive_tract(6)|urinary_tract(2)	176	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			ATGAAGGAGGCGCTGGTGCAG	0.622																																																1	Substitution - Missense(1)	stomach(1)											45	47	46					7																	98576517		2203	4300	6503	SO:0001583	missense	8295			AF076974	CCDS5659.1, CCDS59066.1	7q21.2-q22.1	2010-06-22			ENSG00000196367	ENSG00000196367			12347	protein-coding gene	gene with protein product		603015				9708738, 9885574	Standard	NM_003496		Approved	TR-AP, PAF400, Tra1	uc003upp.3	Q9Y4A5	OTTHUMG00000150403	ENST00000359863.4:c.8603C>T	7.37:g.98576517C>T	ENSP00000352925:p.Ala2868Val	Somatic		WXS	Illumina HiSeq	Phase_I	A4D265|O75218|Q9Y631|Q9Y6H4	Missense_Mutation	SNP	ENST00000359863.4	37	CCDS59066.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	18.64|18.64	3.666500|3.666500	0.67814|0.67814	.|.	.|.	ENSG00000196367|ENSG00000196367	ENST00000359863;ENST00000355540;ENST00000446306|ENST00000456197	T;T|.	0.69040|.	-0.37;-0.37|.	6.03|6.03	6.03|6.03	0.97812|0.97812	PIK-related kinase (1);PIK-related kinase, FAT (1);|.	0.055526|.	0.64402|.	D|.	0.000001|.	T|T	0.71986|0.71986	0.3405|0.3405	L|L	0.52206|0.52206	1.635|1.635	0.80722|0.80722	D|D	1|1	P;B;P|.	0.38711|.	0.594;0.113;0.643|.	B;B;B|.	0.28709|.	0.067;0.056;0.093|.	T|T	0.65952|0.65952	-0.6043|-0.6043	10|5	0.31617|.	T|.	0.26|.	.|.	20.5568|20.5568	0.99304|0.99304	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	2850;2589;2868|.	Q9Y4A5-2;Q59FH1;Q9Y4A5|.	.;.;TRRAP_HUMAN|.	V|C	2868;2850;2849|2590	ENSP00000352925:A2868V;ENSP00000347733:A2850V|.	ENSP00000347733:A2850V|.	A|R	+|+	2|1	0|0	TRRAP|TRRAP	98414453|98414453	1.000000|1.000000	0.71417|0.71417	0.971000|0.971000	0.41717|0.41717	0.916000|0.916000	0.54674|0.54674	7.818000|7.818000	0.86416|0.86416	2.861000|2.861000	0.98227|0.98227	0.655000|0.655000	0.94253|0.94253	GCG|CGC		0.622	TRRAP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000317978.1	NM_003496		T	98576517	C	T	98576517	3	4	664	1	0	0	0	0	1	0	0	0	16613	768	27	1	8767	1	TRRAP	7	98576517	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	753064	98576517	60562146	368	41678										
CYP3A5	1577	mdanderson.org;bcgsc.ca	37	chr7	99247772	99247772	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtttcatgttcatgagagcaAacctcatgccaatgcagttt	8	9	3	1	rs41279854		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:99247772A>G	ENST00000222982.4	-	12	1436	c.1337T>C	c.(1336-1338)tTt>tCt	p.F446S	CYP3A5_ENST00000343703.5_Missense_Mutation_p.F436S|CYP3A5_ENST00000339843.2_3'UTR	NM_000777.3	NP_000768.1	P20815	CP3A5_HUMAN	cytochrome P450, family 3, subfamily A, polypeptide 5	446			F -> S (in dbSNP:rs41279854). {ECO:0000269|PubMed:12893984}.		alkaloid catabolic process (GO:0009822)|drug catabolic process (GO:0042737)|oxidative demethylation (GO:0070989)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)|intracellular membrane-bounded organelle (GO:0043231)	aromatase activity (GO:0070330)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity (GO:0016491)|oxygen binding (GO:0019825)			NS(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	16	all_epithelial(64;2.77e-08)|Lung NSC(181;0.00396)|all_lung(186;0.00659)|Esophageal squamous(72;0.0166)				ado-trastuzumab emtansine(DB05773)|Alfentanil(DB00802)|Alprazolam(DB00404)|Amiodarone(DB01118)|Amitriptyline(DB00321)|Amlodipine(DB00381)|Amprenavir(DB00701)|Apixaban(DB06605)|Aprepitant(DB00673)|Argatroban(DB00278)|Aripiprazole(DB01238)|Artemether(DB06697)|Astemizole(DB00637)|Atorvastatin(DB01076)|Axitinib(DB06626)|Azelastine(DB00972)|Beclomethasone(DB00394)|Boceprevir(DB08873)|Brentuximab vedotin(DB08870)|Buprenorphine(DB00921)|Buspirone(DB00490)|Cabazitaxel(DB06772)|Caffeine(DB00201)|Carbamazepine(DB00564)|Chloramphenicol(DB00446)|Chloroquine(DB00608)|Chlorphenamine(DB01114)|Cilostazol(DB01166)|Cimetidine(DB00501)|Ciprofloxacin(DB00537)|Cisapride(DB00604)|Clarithromycin(DB01211)|Clonidine(DB00575)|Clopidogrel(DB00758)|Cocaine(DB00907)|Codeine(DB00318)|Crizotinib(DB08865)|Cyclophosphamide(DB00531)|Cyclosporine(DB00091)|Dapsone(DB00250)|Dasatinib(DB01254)|Daunorubicin(DB00694)|Delavirdine(DB00705)|Dexamethasone(DB01234)|Dextromethorphan(DB00514)|Diazepam(DB00829)|Diltiazem(DB00343)|Disulfiram(DB00822)|Docetaxel(DB01248)|Dolutegravir(DB08930)|Domperidone(DB01184)|Dutasteride(DB01126)|Enzalutamide(DB08899)|Eplerenone(DB00700)|Erlotinib(DB00530)|Erythromycin(DB00199)|Estradiol(DB00783)|Estrone(DB00655)|Ethosuximide(DB00593)|Etoposide(DB00773)|Felodipine(DB01023)|Fentanyl(DB00813)|Finasteride(DB01216)|Fluconazole(DB00196)|Fluoxetine(DB00472)|Flutamide(DB00499)|Fluticasone Propionate(DB00588)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Gefitinib(DB00317)|Gestodene(DB06730)|Granisetron(DB00889)|Halofantrine(DB01218)|Haloperidol(DB00502)|Hydrocortisone(DB00741)|Ifosfamide(DB01181)|Iloperidone(DB04946)|Imatinib(DB00619)|Indinavir(DB00224)|Irinotecan(DB00762)|Itraconazole(DB01167)|Ketoconazole(DB01026)|Lapatinib(DB01259)|Lercanidipine(DB00528)|Levomethadyl Acetate(DB01227)|Lidocaine(DB00281)|Losartan(DB00678)|Lovastatin(DB00227)|Methadone(DB00333)|Midazolam(DB00683)|Mifepristone(DB00834)|Modafinil(DB00745)|Mycophenolate mofetil(DB00688)|Nateglinide(DB00731)|Nefazodone(DB01149)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Norethindrone(DB00717)|Norfloxacin(DB01059)|Nortriptyline(DB00540)|Ondansetron(DB00904)|Oxazepam(DB00842)|Oxcarbazepine(DB00776)|Oxybutynin(DB01062)|Oxycodone(DB00497)|Paclitaxel(DB01229)|Paliperidone(DB01267)|Pentamidine(DB00738)|Perampanel(DB08883)|Phenelzine(DB00780)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Pimozide(DB01100)|Ponatinib(DB08901)|Pravastatin(DB00175)|Praziquantel(DB01058)|Progesterone(DB00396)|Propranolol(DB00571)|Quetiapine(DB01224)|Quinacrine(DB01103)|Quinine(DB00468)|Ranitidine(DB00863)|Reserpine(DB00206)|Rifampicin(DB01045)|Rifapentine(DB01201)|Risperidone(DB00734)|Ritonavir(DB00503)|Rivaroxaban(DB06228)|Rosuvastatin(DB01098)|Salmeterol(DB00938)|Saquinavir(DB01232)|Saxagliptin(DB06335)|Sildenafil(DB00203)|Simvastatin(DB00641)|Sirolimus(DB00877)|Sorafenib(DB00398)|Sulfasalazine(DB00795)|Sunitinib(DB01268)|Tacrolimus(DB00864)|Tamoxifen(DB00675)|Telithromycin(DB00976)|Temsirolimus(DB06287)|Teniposide(DB00444)|Testosterone(DB00624)|Thalidomide(DB01041)|Trazodone(DB00656)|Tretinoin(DB00755)|Triazolam(DB00897)|Troleandomycin(DB01361)|Udenafil(DB06267)|Valproic Acid(DB00313)|Vardenafil(DB00862)|Verapamil(DB00661)|Vincristine(DB00541)|Voriconazole(DB00582)|Zalcitabine(DB00943)|Zaleplon(DB00962)|Ziprasidone(DB00246)|Zolpidem(DB00425)	CATGAGAGCAAACCTCATGCC	0.403													A|||	1	0.000199681	0.0	0.0	5008	,	,		18307	0.0		0.001	False		,,,				2504	0.0															0			GRCh37	CM033965	CYP3A5	M	rs41279854						279	241	254					7																	99247772		2203	4300	6503	SO:0001583	missense	1577			L26985	CCDS5672.1, CCDS55134.1	7q21.1	2007-12-14	2003-01-14		ENSG00000106258	ENSG00000106258		"Cytochrome P450s"	2638	protein-coding gene	gene with protein product		605325	"cytochrome P450, subfamily IIIA (niphedipine oxidase), polypeptide 5"				Standard	NR_033808		Approved	PCN3, P450PCN3, CP35		P20815	OTTHUMG00000156724	ENST00000222982.4:c.1337T>C	7.37:g.99247772A>G	ENSP00000222982:p.Phe446Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A4D289|B7Z5I7|Q53WY8|Q75MV0|Q9HB56	Missense_Mutation	SNP	ENST00000222982.4	37	CCDS5672.1	.	.	.	.	.	.	.	.	.	.	A	19.71	3.878797	0.72294	.	.	ENSG00000106258	ENST00000222982;ENST00000343703	T;T	0.73258	-0.73;-0.73	4.73	3.58	0.41010	.	0.099610	0.64402	D	0.000001	D	0.88149	0.6359	H	0.98027	4.13	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.81914	0.992;0.991;0.995	D	0.87882	0.2678	10	0.87932	D	0	.	8.2279	0.31579	0.9032:0.0:0.0968:0.0	rs41279854	436;446;446	F5H4S0;B2R9K2;P20815	.;.;CP3A5_HUMAN	S	446;436	ENSP00000222982:F446S;ENSP00000342969:F436S	ENSP00000222982:F446S	F	-	2	0	CYP3A5	99085708	1.000000	0.71417	0.419000	0.26584	0.997000	0.91878	8.759000	0.91667	0.660000	0.30964	0.459000	0.35465	TTT		0.403	CYP3A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345469.1			G	99247772	A	G	99247772	3	3	664	1	0	0	0	0	1	0	0	0	4182	14	1	3	179	3	CYP3A5	7	99247772	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	671255	99247772	59890891	369	41679										
ZNF3	7551	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	99669271	99669271	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	attcatagggtttctcccccGtgtggatcctccgatgcaga	10	12	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:99669271G>A	ENST00000424697.1	-	6	1142	c.836C>T	c.(835-837)aCg>aTg	p.T279M	ZNF3_ENST00000303915.6_Missense_Mutation_p.T279M|ZNF3_ENST00000413658.2_Intron|ZNF3_ENST00000299667.4_Missense_Mutation_p.T279M	NM_001278284.1|NM_001278287.1|NM_001278290.1|NM_001278291.1|NM_001278292.1|NM_032924.3	NP_001265213.1|NP_001265216.1|NP_001265219.1|NP_001265220.1|NP_001265221.1|NP_116313.3	P17036	ZNF3_HUMAN	zinc finger protein 3	279					cell differentiation (GO:0030154)|leukocyte activation (GO:0045321)|multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|identical protein binding (GO:0042802)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|endometrium(5)|kidney(3)|large_intestine(4)|lung(8)|ovary(1)|skin(2)	25	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)	Ovarian(593;2.06e-05)|Myeloproliferative disorder(862;0.0122)|Breast(660;0.029)	STAD - Stomach adenocarcinoma(171;0.129)			TTTCTCCCCCGTGTGGATCCT	0.502																																																0													64	73	70					7																	99669271		2201	4299	6500	SO:0001583	missense	7551			AF027136	CCDS43618.1, CCDS43619.1	7q22.1	2013-01-08	2006-05-05					"Zinc fingers, C2H2-type", "-"	13089	protein-coding gene	gene with protein product		194510	"zinc finger protein 3 (A8-51)"				Standard	NM_032924		Approved	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113	uc003usr.4	P17036		ENST00000424697.1:c.836C>T	7.37:g.99669271G>A	ENSP00000415358:p.Thr279Met	Somatic		WXS	Illumina HiSeq	Phase_I	D6W5U0|P13683|Q9HBR4|Q9NNX8|Q9NXJ1|Q9UC15|Q9UC16	Missense_Mutation	SNP	ENST00000424697.1	37	CCDS43619.1	.	.	.	.	.	.	.	.	.	.	G	16.87	3.241770	0.58995	.	.	ENSG00000166526	ENST00000424697;ENST00000303915;ENST00000299667	T;T;T	0.26373	1.74;1.74;1.74	4.71	3.82	0.43975	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.53938	D	0.000041	T	0.50718	0.1632	M	0.77486	2.375	0.42125	D	0.991445	D;D	0.89917	1.0;1.0	D;D	0.85130	0.997;0.987	T	0.57900	-0.7731	10	0.87932	D	0	-34.2278	12.9626	0.58466	0.0:0.1644:0.8356:0.0	.	262;279	B3KRP4;P17036	.;ZNF3_HUMAN	M	279	ENSP00000415358:T279M;ENSP00000306372:T279M;ENSP00000299667:T279M	ENSP00000299667:T279M	T	-	2	0	ZNF3	99507207	1.000000	0.71417	0.852000	0.33557	0.952000	0.60782	6.437000	0.73421	1.344000	0.45657	0.655000	0.94253	ACG		0.502	ZNF3-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336247.3	NM_017715		A	99669271	G	A	99669271	3	1	664	1	0	0	0	0	1	0	0	0	17841	1145	40	1	637	1	ZNF3	7	99669271	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	421499	99669271	59469392	370	41680										
COPS6	10980	broad.mit.edu	37	chr7	99688529	99688529	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccgtctccttcacagcttcCtgtcagcgtttttgagtctg	8	13	4	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:99688529C>A	ENST00000303904.3	+	6	528	c.491C>A	c.(490-492)cCt>cAt	p.P164H	MIR93_ENST00000385024.1_RNA|COPS6_ENST00000418625.1_Missense_Mutation_p.P163H|MIR25_ENST00000384816.1_RNA	NM_006833.4	NP_006824.2	Q7L5N1	CSN6_HUMAN	COP9 signalosome subunit 6	164					cullin deneddylation (GO:0010388)|viral process (GO:0016032)	COP9 signalosome (GO:0008180)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)				breast(1)|endometrium(3)|large_intestine(4)|lung(2)|prostate(1)|stomach(1)	12	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			TCACAGCTTCCTGTCAGCGTT	0.443																																																0													157	155	155					7																	99688529		2203	4300	6503	SO:0001583	missense	10980			BC002520	CCDS5682.1	7q22.1	2013-03-14	2013-03-14		ENSG00000168090	ENSG00000168090			21749	protein-coding gene	gene with protein product	"COP9 subunit 6 (MOV34 homolog, 34 kD)"	614729	"COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis)"			12477932	Standard	NM_006833		Approved	MOV34-34KD, CSN6	uc003usu.3	Q7L5N1	OTTHUMG00000154632	ENST00000303904.3:c.491C>A	7.37:g.99688529C>A	ENSP00000304102:p.Pro164His	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2A3|O15387	Missense_Mutation	SNP	ENST00000303904.3	37	CCDS5682.1	.	.	.	.	.	.	.	.	.	.	C	18.20	3.571796	0.65765	.	.	ENSG00000168090	ENST00000303904;ENST00000418625	T;T	0.58210	0.35;0.35	4.79	4.79	0.61399	.	0.000000	0.85682	D	0.000000	T	0.77922	0.4203	M	0.90870	3.155	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.83408	0.0026	10	0.87932	D	0	-20.2736	15.3999	0.74830	0.0:1.0:0.0:0.0	.	164	Q7L5N1	CSN6_HUMAN	H	164;163	ENSP00000304102:P164H;ENSP00000400617:P163H	ENSP00000304102:P164H	P	+	2	0	COPS6	99526465	1.000000	0.71417	0.982000	0.44146	0.713000	0.41058	6.368000	0.73104	2.484000	0.83849	0.655000	0.94253	CCT		0.443	COPS6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000336412.3	NM_006833		A	99688529	C	A	99688529	3	1	664	1	0	0	0	0	1	0	0	0	3739	681	24	4	513	4	COPS6	7	99688529	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	19258	99688529	59450134	371	41681										
C7orf51	222950	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	100085892	100085892	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgatgagtcctgccccccagGcccctctcctcgagggggga	13	17	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:100085892G>A	ENST00000300179.2	+	4	707	c.548G>A	c.(547-549)gGc>gAc	p.G183D	NYAP1_ENST00000454988.1_Missense_Mutation_p.G126D|NYAP1_ENST00000423930.1_Missense_Mutation_p.G183D	NM_173564.2	NP_775835.2	Q6ZVC0	NYAP1_HUMAN	neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adaptor 1	183	Involved in CYFIP1- and NCKAP1-binding. {ECO:0000250}.				neuron projection morphogenesis (GO:0048812)|phosphatidylinositol 3-kinase signaling (GO:0014065)												TGCCCCCCAGGCCCCTCTCCT	0.657																																																0													60	69	66					7																	100085892		2203	4300	6503	SO:0001583	missense	222950			AK094857	CCDS5696.1	7q22.1	2011-11-30	2011-11-30	2011-11-30	ENSG00000166924	ENSG00000166924			22009	protein-coding gene	gene with protein product		615477	"chromosome 7 open reading frame 51", "KIAA1486-like"	C7orf51, KIAA1486L		21946561	Standard	NM_173564		Approved	FLJ37538	uc003uvd.2	Q6ZVC0	OTTHUMG00000155290	ENST00000300179.2:c.548G>A	7.37:g.100085892G>A	ENSP00000300179:p.Gly183Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6U9Y3|Q8N1V0	Missense_Mutation	SNP	ENST00000300179.2	37	CCDS5696.1	.	.	.	.	.	.	.	.	.	.	G	6.463	0.453518	0.12283	.	.	ENSG00000166924	ENST00000300179;ENST00000423930;ENST00000454988	T;T;T	0.40756	1.02;1.02;1.02	5.14	3.28	0.37604	.	0.127824	0.35646	N	0.003064	T	0.20292	0.0488	N	0.03608	-0.345	0.25451	N	0.988001	B	0.16603	0.018	B	0.17433	0.018	T	0.14924	-1.0455	10	0.20046	T	0.44	-10.2403	13.2611	0.60106	0.0:0.6886:0.3114:0.0	.	183	Q6ZVC0	CG051_HUMAN	D	183;183;126	ENSP00000300179:G183D;ENSP00000411861:G183D;ENSP00000394424:G126D	ENSP00000300179:G183D	G	+	2	0	C7orf51	99923828	0.992000	0.36948	0.956000	0.39512	0.961000	0.63080	2.022000	0.41030	0.516000	0.28340	-0.693000	0.03709	GGC		0.657	NYAP1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000339335.2	NM_173564		A	100085892	G	A	100085892	3	1	664	1	0	0	0	0	1	0	0	0	2402	1203	42	2	558	2	C7orf51	7	100085892	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	397363	100085892	59052771	372	41682										
FBXO24	26261	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	100198383	100198383	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttgccaaacgttgcaggaccGcacggagaagatgaaggaga	14	8	0	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:100198383G>A	ENST00000241071.6	+	10	1926	c.1604G>A	c.(1603-1605)cGc>cAc	p.R535H	FBXO24_ENST00000360609.2_3'UTR|FBXO24_ENST00000468962.1_Missense_Mutation_p.R523H|FBXO24_ENST00000427939.2_Missense_Mutation_p.R573H|PCOLCE-AS1_ENST00000442166.2_RNA|PCOLCE_ENST00000223061.5_5'Flank|PCOLCE-AS1_ENST00000446022.1_RNA|PCOLCE-AS1_ENST00000544873.1_RNA	NM_033506.2	NP_277041.1	O75426	FBX24_HUMAN	F-box protein 24	535					protein ubiquitination (GO:0016567)	ubiquitin ligase complex (GO:0000151)	ubiquitin-protein transferase activity (GO:0004842)			NS(2)|breast(2)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(3)|ovary(3)|skin(4)|urinary_tract(2)	28	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					TTGCAGGACCGCACGGAGAAG	0.642																																																0													83	75	78					7																	100198383		2203	4300	6503	SO:0001583	missense	26261			AF174604	CCDS5698.1, CCDS5699.1, CCDS5699.2, CCDS55138.1	7q22	2005-10-07	2004-06-15		ENSG00000106336	ENSG00000106336		"F-boxes /  "other""	13595	protein-coding gene	gene with protein product		609097	"F-box only protein 24"			10531035, 10531037	Standard	NM_012172		Approved	FBX24	uc011kjz.1	O75426	OTTHUMG00000159543	ENST00000241071.6:c.1604G>A	7.37:g.100198383G>A	ENSP00000241071:p.Arg535His	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2D4|B4DX91|B4DY42|Q9H0G1	Missense_Mutation	SNP	ENST00000241071.6	37	CCDS5698.1	.	.	.	.	.	.	.	.	.	.	g	12.40	1.927552	0.34002	.	.	ENSG00000106336	ENST00000241071;ENST00000468962;ENST00000427939	T;T;T	0.16196	2.38;2.38;2.36	4.22	4.22	0.49857	.	0.116434	0.37348	N	0.002139	T	0.06554	0.0168	N	0.08118	0	0.80722	D	1	B;B;B;B	0.34329	0.449;0.449;0.449;0.449	B;B;B;B	0.19148	0.024;0.024;0.024;0.024	T	0.32134	-0.9918	10	0.35671	T	0.21	-8.1622	7.8933	0.29691	0.1108:0.0:0.8892:0.0	.	523;573;535;535	B4DY42;B4DX91;A4D2D3;O75426	.;.;.;FBX24_HUMAN	H	535;523;573	ENSP00000241071:R535H;ENSP00000420239:R523H;ENSP00000416558:R573H	ENSP00000241071:R535H	R	+	2	0	FBXO24	100036319	1.000000	0.71417	1.000000	0.80357	0.798000	0.45092	3.529000	0.53532	2.191000	0.70037	0.454000	0.30748	CGC		0.642	FBXO24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356104.1			A	100198383	G	A	100198383	3	1	664	1	0	0	0	0	1	0	0	0	5742	1087	38	1	1799	1	FBXO24	7	100198383	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	112491	100198383	58940280	373	41683										
ZAN	7455	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	100334486	100334486	+	RNA	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaccgtgggggagtggcccGcctgctcagccccgacctat	13	17	1	0	rs374155932		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:100334486G>A	ENST00000348028.3	+	0	473				ZAN_ENST00000443370.1_RNA|ZAN_ENST00000421100.1_RNA|ZAN_ENST00000449052.1_RNA|ZAN_ENST00000427578.1_RNA|ZAN_ENST00000542585.1_RNA|ZAN_ENST00000546213.1_RNA|ZAN_ENST00000349350.6_RNA|ZAN_ENST00000546292.1_RNA|ZAN_ENST00000538115.1_RNA			Q9Y493	ZAN_HUMAN	zonadhesin (gene/pseudogene)						binding of sperm to zona pellucida (GO:0007339)|single organismal cell-cell adhesion (GO:0016337)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(2)|breast(3)|central_nervous_system(3)|endometrium(21)|kidney(6)|large_intestine(18)|lung(60)|ovary(4)|pancreas(3)|prostate(5)|skin(8)|stomach(3)|upper_aerodigestive_tract(3)	139	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GGAGTGGCCCGCCTGCTCAGC	0.647																																																0													7	10	9					7																	100334486		1878	3846	5724			7455			U83191		7q22.1	2013-10-10	2013-10-10		ENSG00000146839	ENSG00000146839			12857	protein-coding gene	gene with protein product		602372	"zonadhesin"			9799793, 17033959	Standard	NM_003386		Approved		uc003uwk.3	Q9Y493	OTTHUMG00000157037		7.37:g.100334486G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0FKC8|D6W5W4|O00218|Q96L85|Q96L86|Q96L87|Q96L88|Q96L89|Q96L90|Q9BXN9|Q9BZ83|Q9BZ84|Q9BZ85|Q9BZ86|Q9BZ87|Q9BZ88	Missense_Mutation	SNP	ENST00000348028.3	37		.	.	.	.	.	.	.	.	.	.	G	17.02	3.282921	0.59867	.	.	ENSG00000146839	ENST00000546292;ENST00000538115;ENST00000542585	T;T;T	0.02421	4.3;4.3;4.3	4.55	3.65	0.41850	Concanavalin A-like lectin/glucanase (1);MAM domain (3);	0.000000	0.35677	N	0.003050	T	0.12774	0.0310	M	0.82923	2.615	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.74674	0.973;0.984	T	0.00035	-1.2263	10	0.62326	D	0.03	.	7.5698	0.27900	0.1123:0.0:0.8877:0.0	.	103;103	F5H0T8;Q9Y493	.;ZAN_HUMAN	H	103	ENSP00000445943:R103H;ENSP00000445091:R103H;ENSP00000444427:R103H	ENSP00000423579:R103H	R	+	2	0	ZAN	100172422	0.706000	0.27856	1.000000	0.80357	0.508000	0.34012	1.727000	0.38095	2.473000	0.83533	0.561000	0.74099	CGC		0.647	ZAN-006	KNOWN	basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000347214.1	NM_003386		A	100334486	G	A	100334486	1	1	664	0	1	0	0	0	0	0	0	0	17525	1087	38	1		1	ZAN	7	100334486	RNA	SNP	G	TCGA-KN-8428-01A-11D-2310-10	136103	100334486	58804177	374	41684										
SLC12A9	56996	broad.mit.edu;bcgsc.ca	37	chr7	100453339	100453339	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cactttcagtcatgatcagcCgcacactggggcccgaggtc	11	14	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:100453339C>T	ENST00000354161.3	+	4	453	c.328C>T	c.(328-330)Cgc>Tgc	p.R110C	SLC12A9_ENST00000540482.1_Missense_Mutation_p.R110C|SLC12A9_ENST00000275729.3_Intron|SLC12A9_ENST00000428758.1_Missense_Mutation_p.R110C|SLC12A9_ENST00000415287.1_Intron	NM_020246.3	NP_064631.2	Q9BXP2	S12A9_HUMAN	solute carrier family 12, member 9	110					chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	cation:chloride symporter activity (GO:0015377)			breast(1)|endometrium(2)|kidney(2)|large_intestine(10)|lung(20)|ovary(1)|skin(3)|stomach(1)|urinary_tract(1)	41	Lung NSC(181;0.041)|all_lung(186;0.0581)					CATGATCAGCCGCACACTGGG	0.572																																																0													137	136	136					7																	100453339		2203	4300	6503	SO:0001583	missense	56996			AF284422	CCDS5707.1, CCDS59068.1, CCDS59069.1	7q22	2013-07-18	2013-07-18		ENSG00000146828	ENSG00000146828		"Solute carriers"	17435	protein-coding gene	gene with protein product	"cation-chloride cotransporter-interacting protein"					10871601, 11239002	Standard	NM_020246		Approved	CIP1	uc003uwp.4	Q9BXP2	OTTHUMG00000156045	ENST00000354161.3:c.328C>T	7.37:g.100453339C>T	ENSP00000275730:p.Arg110Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z740|D6W5X0|D6W5X2|F5H8C2|Q9BWL2|Q9BXP1|Q9BYI0|Q9NQR5	Missense_Mutation	SNP	ENST00000354161.3	37	CCDS5707.1	.	.	.	.	.	.	.	.	.	.	C	16.81	3.226635	0.58668	.	.	ENSG00000146828	ENST00000540482;ENST00000428758;ENST00000354161;ENST00000434158	D;D;D;D	0.99176	-5.52;-5.52;-5.52;-5.52	4.08	1.94	0.25998	Amino acid permease domain (1);	0.000000	0.85682	D	0.000000	D	0.99414	0.9793	H	0.97240	3.965	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.98725	1.0710	10	0.87932	D	0	.	8.0469	0.30555	0.4741:0.5259:0.0:0.0	.	110	Q9BXP2	S12A9_HUMAN	C	110	ENSP00000443702:R110C;ENSP00000408301:R110C;ENSP00000275730:R110C;ENSP00000408571:R110C	ENSP00000275730:R110C	R	+	1	0	SLC12A9	100291275	1.000000	0.71417	1.000000	0.80357	0.768000	0.43524	1.846000	0.39289	0.857000	0.35407	0.462000	0.41574	CGC		0.572	SLC12A9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342837.1	NM_020246		T	100453339	C	T	100453339	3	4	664	1	0	0	0	0	1	0	0	0	14403	652	23	1	338	1	SLC12A9	7	100453339	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	118853	100453339	58685324	375	41685										
SLC12A9	56996	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	100454700	100454700	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtggggccgagggacatccGcttgactcctaggcctggcc	15	13	0	1	rs150811167	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:100454700G>A	ENST00000354161.3	+	5	784	c.659G>A	c.(658-660)cGc>cAc	p.R220H	SLC12A9_ENST00000540482.1_Missense_Mutation_p.R220H|SLC12A9_ENST00000275729.3_Missense_Mutation_p.R131H|SLC12A9_ENST00000428758.1_Missense_Mutation_p.R220H|SLC12A9_ENST00000415287.1_Missense_Mutation_p.R131H	NM_020246.3	NP_064631.2	Q9BXP2	S12A9_HUMAN	solute carrier family 12, member 9	220					chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	cation:chloride symporter activity (GO:0015377)			breast(1)|endometrium(2)|kidney(2)|large_intestine(10)|lung(20)|ovary(1)|skin(3)|stomach(1)|urinary_tract(1)	41	Lung NSC(181;0.041)|all_lung(186;0.0581)					AGGGACATCCGCTTGACTCCT	0.627																																																0													99	86	90					7																	100454700		2203	4300	6503	SO:0001583	missense	56996			AF284422	CCDS5707.1, CCDS59068.1, CCDS59069.1	7q22	2013-07-18	2013-07-18		ENSG00000146828	ENSG00000146828		"Solute carriers"	17435	protein-coding gene	gene with protein product	"cation-chloride cotransporter-interacting protein"					10871601, 11239002	Standard	NM_020246		Approved	CIP1	uc003uwp.4	Q9BXP2	OTTHUMG00000156045	ENST00000354161.3:c.659G>A	7.37:g.100454700G>A	ENSP00000275730:p.Arg220His	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z740|D6W5X0|D6W5X2|F5H8C2|Q9BWL2|Q9BXP1|Q9BYI0|Q9NQR5	Missense_Mutation	SNP	ENST00000354161.3	37	CCDS5707.1	.	.	.	.	.	.	.	.	.	.	G	4.396	0.073139	0.08485	.	.	ENSG00000146828	ENST00000540482;ENST00000428758;ENST00000275729;ENST00000415287;ENST00000354161	D;D;D;D;D	0.98835	-5.17;-5.17;-5.17;-5.17;-5.17	4.62	-0.721	0.11189	Amino acid permease domain (1);	0.494253	0.19028	N	0.124638	D	0.92760	0.7698	N	0.14661	0.345	0.09310	N	1	B;B	0.31193	0.312;0.136	B;B	0.23275	0.027;0.045	D	0.87949	0.2722	10	0.45353	T	0.12	.	2.7391	0.05248	0.1331:0.4432:0.2635:0.1603	.	131;220	Q9BXP2-2;Q9BXP2	.;S12A9_HUMAN	H	220;220;131;131;220	ENSP00000443702:R220H;ENSP00000408301:R220H;ENSP00000275729:R131H;ENSP00000413796:R131H;ENSP00000275730:R220H	ENSP00000275729:R131H	R	+	2	0	SLC12A9	100292636	0.000000	0.05858	0.002000	0.10522	0.025000	0.11179	-0.710000	0.05024	-0.560000	0.06102	-0.384000	0.06662	CGC		0.627	SLC12A9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342837.1	NM_020246		A	100454700	G	A	100454700	3	1	664	1	0	0	0	0	1	0	0	0	14403	1087	38	1	673	1	SLC12A9	7	100454700	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1361	100454700	58683963	376	41686										
SRRT	51593	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr7	100484814	100484814	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccacccaaccgcatcagtcaCggggaaggtgagctccaggt	12	14	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:100484814C>T	ENST00000347433.4	+	15	2126	c.1968C>T	c.(1966-1968)caC>caT	p.H656H	SRRT_ENST00000388793.4_Silent_p.H655H|SRRT_ENST00000457580.2_Silent_p.H656H|SRRT_ENST00000432932.1_Silent_p.H655H			Q9BXP5	SRRT_HUMAN	serrate, RNA effector molecule	656					cell proliferation (GO:0008283)|neuronal stem cell maintenance (GO:0097150)|primary miRNA processing (GO:0031053)|regulation of transcription, DNA-templated (GO:0006355)|response to arsenic-containing substance (GO:0046685)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(5)|ovary(3)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	40						GCATCAGTCACGGGGAAGGTG	0.607																																																0													93	89	91					7																	100484814		2203	4300	6503	SO:0001819	synonymous_variant	51593				CCDS34709.1, CCDS47665.1, CCDS47666.1, CCDS47667.1	7q21	2014-04-14	2014-04-14		ENSG00000087087	ENSG00000087087			24101	protein-coding gene	gene with protein product	"arsenite resistance protein"	614469	"serrate RNA effector molecule homolog (Arabidopsis)"			11239002, 11230166	Standard	NM_015908		Approved	Asr2, serrate, ARS2	uc003uwy.2	Q9BXP5	OTTHUMG00000157031	ENST00000347433.4:c.1968C>T	7.37:g.100484814C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4D2E5|A4D2E6|A6NK22|B4DJL4|B4DZA6|O95808|Q32MI4|Q6NT74|Q8TDQ5|Q9BWP6|Q9BXP4|Q9Y4S4	Silent	SNP	ENST00000347433.4	37	CCDS34709.1																																																																																				0.607	SRRT-004	NOVEL	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000347168.1	NM_015908		T	100484814	C	T	100484814	2	4	664	1	0	0	0	0	0	0	0	1	15184	535	19	1		1	SRRT	7	100484814	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	30114	100484814	58653849	377	41687										
MYL10	93408	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr7	101259535	101259535	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaacctttcccttcagtgtcGaacactttgaaggcgtggag	10	10	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:101259535G>A	ENST00000223167.4	-	6	675	c.498C>T	c.(496-498)ttC>ttT	p.F166F		NM_138403.4	NP_612412.2	Q9BUA6	MYL10_HUMAN	myosin, light chain 10, regulatory	166	EF-hand 2. {ECO:0000255|PROSITE- ProRule:PRU00448}.					mitochondrion (GO:0005739)	calcium ion binding (GO:0005509)			breast(1)|kidney(1)|large_intestine(3)|lung(6)|ovary(1)	12						CTTCAGTGTCGAACACTTTGA	0.567																																					Esophageal Squamous(24;575 709 17516 40384 51639)											0													117	95	102					7																	101259535		2203	4300	6503	SO:0001819	synonymous_variant	93408			BC002778	CCDS34713.1	7q22.1	2013-01-10			ENSG00000106436	ENSG00000106436		"Myosins / Light chain", "EF-hand domain containing"	29825	protein-coding gene	gene with protein product						1628631	Standard	NM_138403		Approved	MGC3479, MYLC2PL, PLRLC	uc003uyr.3	Q9BUA6	OTTHUMG00000157137	ENST00000223167.4:c.498C>T	7.37:g.101259535G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000223167.4	37	CCDS34713.1																																																																																				0.567	MYL10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347575.1	NM_138403		A	101259535	G	A	101259535	2	1	664	1	0	0	0	0	0	0	0	1	10051	1049	37	1		1	MYL10	7	101259535	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	774721	101259535	57879128	378	41688										
FBXL13	222235	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr7	102566787	102566787	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gattgagacacaggacccccGggcagccctcagaaatgtgt	12	12	1	2	rs150674888		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:102566787G>A	ENST00000313221.4	-	10	1238	c.812C>T	c.(811-813)cCg>cTg	p.P271L	FBXL13_ENST00000393772.2_Missense_Mutation_p.P271L|FBXL13_ENST00000379308.3_Missense_Mutation_p.P271L|LRRC17_ENST00000249377.4_Intron|LRRC17_ENST00000339431.4_Intron|FBXL13_ENST00000436908.1_Missense_Mutation_p.P271L|FBXL13_ENST00000379306.3_Missense_Mutation_p.P271L|FBXL13_ENST00000379305.3_Missense_Mutation_p.P271L|FBXL13_ENST00000455112.2_Missense_Mutation_p.P271L|FBXL13_ENST00000456695.1_Missense_Mutation_p.P271L	NM_145032.3	NP_659469.3	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13	271										NS(1)|breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(9)|skin(3)|stomach(1)	27						CAGGACCCCCGGGCAGCCCTC	0.438													G|||	1	0.000199681	0.0008	0.0	5008	,	,		18726	0.0		0.0	False		,,,				2504	0.0															0								G	,LEU/PRO,,LEU/PRO	1,4405	2.1+/-5.4	0,1,2202	63	60	61		,812,,812	3.5	0.1	7	dbSNP_134	61	0,8600		0,0,4300	no	intron,missense,intron,missense	LRRC17,FBXL13	NM_001031692.2,NM_001111038.1,NM_005824.2,NM_145032.3	,98,,98	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	,benign,,benign	,271/691,,271/736	102566787	1,13005	2203	4300	6503	SO:0001583	missense	222235			BC031285	CCDS5726.1, CCDS47678.1, CCDS75649.1	7q22.1	2014-07-18			ENSG00000161040	ENSG00000161040		"F-boxes / Leucine-rich repeats"	21658	protein-coding gene	gene with protein product		609080					Standard	NM_145032		Approved	MGC21636, Fbl13	uc003vaq.2	Q8NEE6	OTTHUMG00000157224	ENST00000313221.4:c.812C>T	7.37:g.102566787G>A	ENSP00000321927:p.Pro271Leu	Somatic		WXS	Illumina HiSeq	Phase_I	C9J565|C9J566|Q6UVW7|Q6UVW8|Q75MN5|Q86UJ5|Q8N7Y4|Q8TCL2|Q8WUF9|Q8WUG0	Missense_Mutation	SNP	ENST00000313221.4	37	CCDS5726.1	.	.	.	.	.	.	.	.	.	.	G	12.14	1.849680	0.32699	2.27E-4	0.0	ENSG00000161040	ENST00000393772;ENST00000379308;ENST00000379306;ENST00000379305;ENST00000436908;ENST00000313221;ENST00000456695;ENST00000455112	T;T;T;T;T;T;T;T	0.19669	2.28;2.28;2.13;2.28;2.28;2.28;2.13;2.28	5.42	3.47	0.39725	.	0.486738	0.18321	N	0.144803	T	0.19525	0.0469	L	0.58510	1.815	0.19300	N	0.999975	B;B;B;B	0.31040	0.002;0.305;0.049;0.003	B;B;B;B	0.26517	0.011;0.07;0.03;0.004	T	0.11299	-1.0593	10	0.39692	T	0.17	.	9.4317	0.38615	0.0:0.1368:0.5818:0.2814	.	271;271;271;271	Q8NEE6-3;Q8NEE6-4;Q8NEE6-2;Q8NEE6	.;.;.;FXL13_HUMAN	L	271	ENSP00000377367:P271L;ENSP00000368610:P271L;ENSP00000368608:P271L;ENSP00000368607:P271L;ENSP00000388608:P271L;ENSP00000321927:P271L;ENSP00000409716:P271L;ENSP00000391550:P271L	ENSP00000321927:P271L	P	-	2	0	FBXL13	102354023	0.866000	0.29940	0.128000	0.21923	0.583000	0.36354	1.657000	0.37366	1.404000	0.46819	0.655000	0.94253	CCG		0.438	FBXL13-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000348001.1	NM_145032		A	102566787	G	A	102566787	3	1	664	1	0	0	0	0	1	0	0	0	5716	1116	39	1	1439	1	FBXL13	7	102566787	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1307252	102566787	56571876	379	41689										
CDHR3	222256	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	105669000	105669000	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgttctgttctctgcagaaaCgaagactgcagagagagacg	12	8	2	4	rs368556227		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:105669000C>T	ENST00000317716.9	+	17	2356	c.2276C>T	c.(2275-2277)aCg>aTg	p.T759M	CDHR3_ENST00000343407.5_Silent_p.N261N|CDHR3_ENST00000470188.1_3'UTR|CDHR3_ENST00000478080.1_Missense_Mutation_p.T671M|CDHR3_ENST00000542731.1_Missense_Mutation_p.T759M	NM_152750.4	NP_689963.2	Q6ZTQ4	CDHR3_HUMAN	cadherin-related family member 3	759					homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(1)|cervix(3)|endometrium(1)|kidney(1)|large_intestine(1)|lung(15)|ovary(1)	23						TCTGCAGAAACGAAGACTGCA	0.537																																																0								C	MET/THR	0,3892		0,0,1946	65	65	65		2276	-4	0.4	7		65	1,8293		0,1,4146	no	missense	CDHR3	NM_152750.4	81	0,1,6092	TT,TC,CC		0.0121,0.0,0.0082	benign	759/886	105669000	1,12185	1946	4147	6093	SO:0001583	missense	222256			AK126338	CCDS47684.1, CCDS75651.1	7q22.2	2011-07-01			ENSG00000128536	ENSG00000128536		"Cadherins / Cadherin-related"	26308	protein-coding gene	gene with protein product		615610					Standard	NM_152750		Approved	FLJ44366, FLJ23834, CDH28	uc003vdl.4	Q6ZTQ4	OTTHUMG00000157520	ENST00000317716.9:c.2276C>T	7.37:g.105669000C>T	ENSP00000325954:p.Thr759Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TCI7	Missense_Mutation	SNP	ENST00000317716.9	37	CCDS47684.1	.	.	.	.	.	.	.	.	.	.	C	7.912	0.736668	0.15574	0.0	1.21E-4	ENSG00000128536	ENST00000542731;ENST00000317716;ENST00000478080	T;T;T	0.56611	0.55;0.51;0.45	6.08	-3.95	0.04118	.	0.810325	0.11697	N	0.538287	T	0.22781	0.0550	N	0.04297	-0.235	0.25461	N	0.987917	B;B	0.10296	0.003;0.003	B;B	0.04013	0.001;0.001	T	0.17137	-1.0379	10	0.27785	T	0.31	-1.9056	6.6547	0.22981	0.1722:0.4538:0.0:0.3739	.	746;759	B3KYA0;Q6ZTQ4	.;CDHR3_HUMAN	M	759;759;671	ENSP00000439766:T759M;ENSP00000325954:T759M;ENSP00000417771:T671M	ENSP00000325954:T759M	T	+	2	0	CDHR3	105456236	0.075000	0.21258	0.388000	0.26195	0.467000	0.32768	-0.976000	0.03786	-0.256000	0.09473	-0.982000	0.02568	ACG		0.537	CDHR3-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000349025.2	NM_152750		T	105669000	C	T	105669000	3	4	664	1	0	0	0	0	1	0	0	0	3122	536	19	1	2342	1	CDHR3	7	105669000	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3102213	105669000	53469663	380	41690										
LAMB1	3912	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	107605032	107605032	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttcctccgcttcatagaggtAgtgatccagggtggcaaagt	12	9	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:107605032A>G	ENST00000222399.6	-	14	1893	c.1663T>C	c.(1663-1665)Tac>Cac	p.Y555H	LAMB1_ENST00000393561.1_Missense_Mutation_p.Y579H|LAMB1_ENST00000393560.1_Missense_Mutation_p.Y555H	NM_002291.2	NP_002282.2	P07942	LAMB1_HUMAN	laminin, beta 1	555	Laminin IV type B. {ECO:0000255|PROSITE- ProRule:PRU00462}.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|embryo implantation (GO:0007566)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|negative regulation of cell adhesion (GO:0007162)|neuron projection development (GO:0031175)|neuronal-glial interaction involved in cerebral cortex radial glia guided migration (GO:0021812)|odontogenesis (GO:0042476)|positive regulation of cell migration (GO:0030335)|positive regulation of epithelial cell proliferation (GO:0050679)|substrate adhesion-dependent cell spreading (GO:0034446)	basement membrane (GO:0005604)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)|laminin-10 complex (GO:0043259)|laminin-2 complex (GO:0005607)|laminin-8 complex (GO:0043257)|perinuclear region of cytoplasm (GO:0048471)	extracellular matrix structural constituent (GO:0005201)|glycosphingolipid binding (GO:0043208)|structural molecule activity (GO:0005198)			NS(3)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(4)|large_intestine(11)|lung(37)|ovary(6)|prostate(5)|skin(5)|upper_aerodigestive_tract(3)	82						TCATAGAGGTAGTGATCCAGG	0.542																																																0													185	160	168					7																	107605032		2203	4300	6503	SO:0001583	missense	3912			M61916	CCDS5750.1	7q22	2013-03-01			ENSG00000091136	ENSG00000091136		"Laminins"	6486	protein-coding gene	gene with protein product		150240	"cutis laxa with marfanoid phenotype"	CLM		2563160, 2704655, 1864606	Standard	NM_002291		Approved		uc003vew.2	P07942	OTTHUMG00000149966	ENST00000222399.6:c.1663T>C	7.37:g.107605032A>G	ENSP00000222399:p.Tyr555His	Somatic		WXS	Illumina HiSeq	Phase_I	Q14D91	Missense_Mutation	SNP	ENST00000222399.6	37	CCDS5750.1	.	.	.	.	.	.	.	.	.	.	A	23.1	4.381108	0.82792	.	.	ENSG00000091136	ENST00000393561;ENST00000222399;ENST00000393560	T;T;T	0.39056	1.36;1.36;1.1	4.64	4.64	0.57946	Laminin IV (1);EGF-like, laminin (1);	.	.	.	.	T	0.68192	0.2974	M	0.90483	3.12	0.58432	D	0.999999	D;D;D	0.67145	0.992;0.996;0.996	D;D;D	0.70487	0.93;0.969;0.955	T	0.72743	-0.4201	9	0.35671	T	0.21	.	14.0581	0.64781	1.0:0.0:0.0:0.0	.	555;555;579	E7EPA6;P07942;G3XAI2	.;LAMB1_HUMAN;.	H	579;555;555	ENSP00000377191:Y579H;ENSP00000222399:Y555H;ENSP00000377190:Y555H	ENSP00000222399:Y555H	Y	-	1	0	LAMB1	107392268	1.000000	0.71417	1.000000	0.80357	0.926000	0.56050	5.957000	0.70323	1.730000	0.51580	0.460000	0.39030	TAC		0.542	LAMB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000314584.1	NM_002291		G	107605032	A	G	107605032	3	3	664	1	0	0	0	0	1	0	0	0	8617	420	15	3	3781	3	LAMB1	7	107605032	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	1936032	107605032	51533631	381	41691										
LAMB4	22798	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	107717415	107717415	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caccaggacatgtgaatgagCgtgggactctccttgcaaag	12	10	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:107717415C>T	ENST00000388781.3	-	17	2181	c.2098G>A	c.(2098-2100)Gct>Act	p.A700T	LAMB4_ENST00000205386.4_Missense_Mutation_p.A700T|LAMB4_ENST00000418464.1_Missense_Mutation_p.A700T|LAMB4_ENST00000414450.2_Missense_Mutation_p.A700T|LAMB4_ENST00000388780.3_Missense_Mutation_p.A700T	NM_007356.2	NP_031382.2	A4D0S4	LAMB4_HUMAN	laminin, beta 4	700	Laminin IV type B. {ECO:0000255|PROSITE- ProRule:PRU00462}.				cell adhesion (GO:0007155)	basement membrane (GO:0005604)		p.A700S(1)		NS(1)|breast(5)|endometrium(8)|haematopoietic_and_lymphoid_tissue(3)|kidney(5)|large_intestine(22)|lung(40)|ovary(4)|prostate(5)|skin(4)	97						TGTGAATGAGCGTGGGACTCT	0.418																																																1	Substitution - Missense(1)	lung(1)											111	113	113					7																	107717415		2203	4300	6503	SO:0001583	missense	22798			AF028816	CCDS34732.1	7q31	2013-03-01			ENSG00000091128	ENSG00000091128		"Laminins"	6491	protein-coding gene	gene with protein product							Standard	NM_007356		Approved		uc010ljo.1	A4D0S4	OTTHUMG00000154874	ENST00000388781.3:c.2098G>A	7.37:g.107717415C>T	ENSP00000373433:p.Ala700Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKU6|B2RTT3|B5MEB9|Q86TP7|Q86XN2|Q8NBX5	Missense_Mutation	SNP	ENST00000388781.3	37	CCDS34732.1	.	.	.	.	.	.	.	.	.	.	C	1.440	-0.567907	0.03910	.	.	ENSG00000091128	ENST00000205386;ENST00000388781;ENST00000388780;ENST00000418464;ENST00000414450	T;T;T;T;T	0.32272	1.47;1.47;1.5;1.46;1.53	5.3	0.207	0.15214	Laminin IV (1);	0.387023	0.21811	N	0.068775	T	0.18257	0.0438	L	0.39020	1.185	0.09310	N	1	B	0.14805	0.011	B	0.09377	0.004	T	0.29852	-0.9998	10	0.15066	T	0.55	.	7.1886	0.25813	0.1063:0.4809:0.0:0.4128	.	700	A4D0S4	LAMB4_HUMAN	T	700	ENSP00000205386:A700T;ENSP00000373433:A700T;ENSP00000373432:A700T;ENSP00000402353:A700T;ENSP00000402265:A700T	ENSP00000205386:A700T	A	-	1	0	LAMB4	107504651	0.000000	0.05858	0.004000	0.12327	0.001000	0.01503	-0.572000	0.05881	-0.383000	0.07858	-1.851000	0.00568	GCT		0.418	LAMB4-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337442.1	XM_209857		T	107717415	C	T	107717415	3	4	664	1	0	0	0	0	1	0	0	0	8620	768	27	1	3259	1	LAMB4	7	107717415	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	112383	107717415	51421248	382	41692										
DOCK4	9732	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr7	111368531	111368531	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcgtagacgctgtacgggggCggagtcttgctctccttgcg	15	11	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:111368531C>T	ENST00000437633.1	-	52	5956	c.5700G>A	c.(5698-5700)ccG>ccA	p.P1900P	DOCK4_ENST00000494651.2_Silent_p.P783P|DOCK4_ENST00000428084.1_Silent_p.P1909P	NM_014705.3	NP_055520.3	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1900	Pro-rich.				cell chemotaxis (GO:0060326)|positive regulation of Rac GTPase activity (GO:0032855)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)|stereocilium (GO:0032420)|stereocilium bundle (GO:0032421)	guanyl-nucleotide exchange factor activity (GO:0005085)|PDZ domain binding (GO:0030165)|Rac GTPase activator activity (GO:0030675)|Rac GTPase binding (GO:0048365)|receptor tyrosine kinase binding (GO:0030971)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(13)|lung(31)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(4)	72		Acute lymphoblastic leukemia(1;0.0441)				TGTACGGGGGCGGAGTCTTGC	0.711																																																0													24	30	28					7																	111368531		2076	4191	6267	SO:0001819	synonymous_variant	9732				CCDS47688.1	7q31.1	2007-08-07			ENSG00000128512	ENSG00000128512			19192	protein-coding gene	gene with protein product		607679				12432077, 12628187	Standard	XM_006716188		Approved	FLJ34238, KIAA0716	uc003vfx.3	Q8N1I0	OTTHUMG00000155077	ENST00000437633.1:c.5700G>A	7.37:g.111368531C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O14584|O94824|Q8NB45	Silent	SNP	ENST00000437633.1	37	CCDS47688.1	.	.	.	.	.	.	.	.	.	.	C	8.458	0.854645	0.17106	.	.	ENSG00000128512	ENST00000423057;ENST00000445943	.	.	.	5.59	-7.72	0.01250	.	.	.	.	.	T	0.49012	0.1532	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.54417	-0.8297	4	.	.	.	.	8.9441	0.35747	0.0:0.2168:0.447:0.3361	.	.	.	.	H	1323;1933	.	.	R	-	2	0	DOCK4	111155767	0.000000	0.05858	0.092000	0.20876	0.876000	0.50452	-2.142000	0.01298	-1.877000	0.01129	-0.878000	0.02970	CGC		0.711	DOCK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338369.4	NM_014705		T	111368531	C	T	111368531	2	4	664	1	0	0	0	0	0	0	0	1	4691	755	27	1		1	DOCK4	7	111368531	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3651116	111368531	47770132	383	41693										
WNT2	7472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	116918232	116918232	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtagcggttgtccagtcagCgttcttgggggccttgcatg	15	9	2	0	rs143749132		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:116918232C>T	ENST00000265441.3	-	5	1359	c.1060G>A	c.(1060-1062)Gct>Act	p.A354T		NM_003391.2	NP_003382.1	P09544	WNT2_HUMAN	wingless-type MMTV integration site family member 2	354					atrial cardiac muscle tissue morphogenesis (GO:0055009)|canonical Wnt signaling pathway (GO:0060070)|cardiac epithelial to mesenchymal transition (GO:0060317)|cell fate commitment (GO:0045165)|cell-cell signaling (GO:0007267)|cellular response to retinoic acid (GO:0071300)|cellular response to transforming growth factor beta stimulus (GO:0071560)|iris morphogenesis (GO:0061072)|labyrinthine layer blood vessel development (GO:0060716)|lens development in camera-type eye (GO:0002088)|lung development (GO:0030324)|lung induction (GO:0060492)|mammary gland epithelium development (GO:0061180)|neuron differentiation (GO:0030182)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cardiac muscle cell proliferation (GO:0060045)|positive regulation of cell proliferation (GO:0008284)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of epithelial cell proliferation involved in lung morphogenesis (GO:0060501)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)	cytokine activity (GO:0005125)|frizzled binding (GO:0005109)|receptor agonist activity (GO:0048018)			breast(2)|central_nervous_system(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(2)|liver(1)|lung(13)|ovary(3)|prostate(1)|skin(2)	31	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)		GTCCAGTCAGCGTTCTTGGGG	0.567																																																0								C	THR/ALA	0,4406		0,0,2203	149	115	127		1060	4.1	1	7	dbSNP_134	127	1,8599	1.2+/-3.3	0,1,4299	no	missense	WNT2	NM_003391.2	58	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign	354/361	116918232	1,13005	2203	4300	6503	SO:0001583	missense	7472			X07876	CCDS5771.1	7q31	2013-02-28			ENSG00000105989	ENSG00000105989		"Wingless-type MMTV integration sites", "Endogenous ligands"	12780	protein-coding gene	gene with protein product	"secreted growth factor"	147870		INT1L1		2971536	Standard	NM_003391		Approved	IRP	uc003viz.3	P09544	OTTHUMG00000023428	ENST00000265441.3:c.1060G>A	7.37:g.116918232C>T	ENSP00000265441:p.Ala354Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A4D0V1|Q75N05|Q9UDP9	Missense_Mutation	SNP	ENST00000265441.3	37	CCDS5771.1	.	.	.	.	.	.	.	.	.	.	C	17.43	3.386759	0.61956	0.0	1.16E-4	ENSG00000105989	ENST00000265441	T	0.75367	-0.93	5.99	4.08	0.47627	.	0.297679	0.32147	N	0.006501	T	0.72692	0.3492	M	0.75447	2.3	0.27854	N	0.94063	P;P	0.40332	0.713;0.713	B;B	0.32864	0.154;0.154	T	0.71932	-0.4443	10	0.59425	D	0.04	.	17.7731	0.88499	0.0:0.7421:0.2579:0.0	.	354;354	A4D0V1;P09544	.;WNT2_HUMAN	T	354	ENSP00000265441:A354T	ENSP00000265441:A354T	A	-	1	0	WNT2	116705468	0.912000	0.30974	0.991000	0.47740	0.925000	0.55904	2.211000	0.42825	1.513000	0.48852	0.655000	0.94253	GCT		0.567	WNT2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059749.3	NM_003391		T	116918232	C	T	116918232	3	4	664	1	0	0	0	0	1	0	0	0	17398	768	27	1	26	1	WNT2	7	116918232	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5549701	116918232	42220431	384	41694										
CTTNBP2	83992	hgsc.bcm.edu;ucsc.edu	37	chr7	117407222	117407222	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccgtgcctacacaagatttcTaggcagttctataaagacaa	7	10	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:117407222T>C	ENST00000160373.3	-	9	2878	c.2787A>G	c.(2785-2787)ctA>ctG	p.L929L		NM_033427.2	NP_219499.1	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	929					brain development (GO:0007420)	cell projection (GO:0042995)|synaptic vesicle (GO:0008021)				breast(3)|central_nervous_system(3)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(13)|lung(36)|ovary(4)|prostate(5)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	83	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		ACAAGATTTCTAGGCAGTTCT	0.443																																																0													123	108	113					7																	117407222		2203	4300	6503	SO:0001819	synonymous_variant	83992				CCDS5774.1	7q31	2013-01-10	2004-06-08	2004-06-09	ENSG00000077063	ENSG00000077063		"Ankyrin repeat domain containing"	15679	protein-coding gene	gene with protein product		609772	"cortactin binding protein 2"	CORTBP2, C7orf8		11707066	Standard	XM_005250635		Approved	KIAA1758, Orf4	uc003vjf.3	Q8WZ74	OTTHUMG00000022880	ENST00000160373.3:c.2787A>G	7.37:g.117407222T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O43389|Q7LG11|Q9C0A5	Silent	SNP	ENST00000160373.3	37	CCDS5774.1	.	.	.	.	.	.	.	.	.	.	T	9.882	1.201776	0.22121	.	.	ENSG00000077063	ENST00000446636	.	.	.	5.64	0.326	0.15908	.	.	.	.	.	T	0.50429	0.1615	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.34030	-0.9845	4	.	.	.	-9.2463	4.8846	0.13697	0.1252:0.2842:0.0:0.5907	.	.	.	.	G	417	.	.	R	-	1	2	CTTNBP2	117194458	1.000000	0.71417	0.996000	0.52242	0.981000	0.71138	0.779000	0.26746	-0.099000	0.12263	-0.375000	0.07067	AGA		0.443	CTTNBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059201.4	NM_033427		C	117407222	T	C	117407222	2	2	664	1	0	0	0	0	0	0	0	1	4047	1509	53	3		3	CTTNBP2	7	117407222	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	488990	117407222	41731441	385	41695										
WASL	8976	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	123346348	123346348	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	taccagatttcctttgtcgaCggcccaaaaggtctgtaact	8	11	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:123346348C>T	ENST00000223023.4	-	4	751	c.419G>A	c.(418-420)cGt>cAt	p.R140H		NM_003941.2	NP_003932.3	O00401	WASL_HUMAN	Wiskott-Aldrich syndrome-like	140	WH1. {ECO:0000255|PROSITE- ProRule:PRU00410}.				actin polymerization or depolymerization (GO:0008154)|axon guidance (GO:0007411)|cellular component movement (GO:0006928)|cellular protein complex localization (GO:0034629)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|membrane budding (GO:0006900)|mitotic nuclear division (GO:0007067)|nitric oxide metabolic process (GO:0046209)|positive regulation of clathrin-mediated endocytosis (GO:2000370)|positive regulation of filopodium assembly (GO:0051491)|protein complex assembly (GO:0006461)|regulation of nitric-oxide synthase activity (GO:0050999)|regulation of protein localization (GO:0032880)|regulation of transcription, DNA-templated (GO:0006355)|response to bacterium (GO:0009617)|small molecule metabolic process (GO:0044281)|spindle localization (GO:0051653)|transcription, DNA-templated (GO:0006351)|vesicle organization (GO:0016050)|vesicle transport along actin filament (GO:0030050)	actin cap (GO:0030478)|actin cytoskeleton (GO:0015629)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|endocytic vesicle membrane (GO:0030666)|extracellular vesicular exosome (GO:0070062)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	small GTPase regulator activity (GO:0005083)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(8)|lung(9)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29						CCTTTGTCGACGGCCCAAAAG	0.363																																																0													68	68	68					7																	123346348		2203	4300	6503	SO:0001583	missense	8976			D88460	CCDS34743.1	7q31.3	2008-02-01			ENSG00000106299	ENSG00000106299			12735	protein-coding gene	gene with protein product		605056				9422512, 9322739	Standard	NM_003941		Approved	N-WASP, NWASP	uc003vkz.3	O00401	OTTHUMG00000157346	ENST00000223023.4:c.419G>A	7.37:g.123346348C>T	ENSP00000223023:p.Arg140His	Somatic		WXS	Illumina HiSeq	Phase_I	A1JUI9|Q7Z746	Missense_Mutation	SNP	ENST00000223023.4	37	CCDS34743.1	.	.	.	.	.	.	.	.	.	.	C	20.3	3.962656	0.74016	.	.	ENSG00000106299	ENST00000223023	D	0.99511	-6.05	5.77	5.77	0.91146	EVH1 (1);Pleckstrin homology-type (1);	0.052002	0.85682	D	0.000000	D	0.99199	0.9722	L	0.38838	1.175	0.80722	D	1	D	0.64830	0.994	D	0.71870	0.975	D	0.99904	1.1174	10	0.72032	D	0.01	-13.4183	20.3627	0.98863	0.0:1.0:0.0:0.0	.	140	O00401	WASL_HUMAN	H	140	ENSP00000223023:R140H	ENSP00000223023:R140H	R	-	2	0	WASL	123133584	0.993000	0.37304	0.925000	0.36789	0.964000	0.63967	3.476000	0.53143	2.885000	0.99019	0.655000	0.94253	CGT		0.363	WASL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348522.1	NM_003941		T	123346348	C	T	123346348	3	4	664	1	0	0	0	0	1	0	0	0	17268	536	19	1	1130	1	WASL	7	123346348	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5939126	123346348	35792315	386	41696										
GRM8	2918	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	126173105	126173105	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaataggtttggcttcattGaaagtctctgggacacctct	9	10	3	1	rs569979812		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:126173105G>T	ENST00000339582.2	-	9	3139	c.2331C>A	c.(2329-2331)ttC>ttA	p.F777L	GRM8_ENST00000444921.2_Missense_Mutation_p.F777L|GRM8_ENST00000480995.1_5'UTR|GRM8_ENST00000358373.3_Missense_Mutation_p.F777L			O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8	777					adenylate cyclase-inhibiting G-protein coupled glutamate receptor signaling pathway (GO:0007196)|negative regulation of cAMP biosynthetic process (GO:0030818)|regulation of synaptic transmission, glutamatergic (GO:0051966)|sensory perception of smell (GO:0007608)|visual perception (GO:0007601)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|presynaptic membrane (GO:0042734)	G-protein coupled receptor activity (GO:0004930)|glutamate receptor activity (GO:0008066)|group III metabotropic glutamate receptor activity (GO:0001642)			breast(3)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|large_intestine(16)|lung(62)|ovary(5)|pancreas(1)|prostate(1)|skin(14)|stomach(1)|upper_aerodigestive_tract(6)|urinary_tract(4)	125		Prostate(267;0.186)				TGGCTTCATTGAAAGTCTCTG	0.413										HNSCC(24;0.065)																																						0													140	122	128					7																	126173105		2203	4300	6503	SO:0001583	missense	2918				CCDS5794.1, CCDS47696.1	7q31.3-q32.1	2012-08-29			ENSG00000179603	ENSG00000179603		"GPCR / Class C : Glutamate receptors, metabotropic", "Glutamate receptors"	4600	protein-coding gene	gene with protein product		601116				8824806	Standard	NM_000845		Approved	GLUR8, GPRC1H, mGlu8, MGLUR8	uc003vlr.2	O00222	OTTHUMG00000022888	ENST00000339582.2:c.2331C>A	7.37:g.126173105G>T	ENSP00000344173:p.Phe777Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A4D0Y3|B0FZ74|B0M0L0|O15493|O95945|O95946|Q3MIV9|Q52M02|Q6J165	Missense_Mutation	SNP	ENST00000339582.2	37	CCDS5794.1	.	.	.	.	.	.	.	.	.	.	G	21.5	4.161074	0.78226	.	.	ENSG00000179603	ENST00000339582;ENST00000444921;ENST00000358373	D;D;D	0.93019	-3.15;-3.15;-3.15	5.72	5.72	0.89469	GPCR, family 3, conserved site (1);GPCR, family 3, C-terminal (2);	0.000000	0.85682	D	0.000000	D	0.97757	0.9264	H	0.94886	3.595	0.80722	D	1	D;D	0.76494	0.99;0.999	D;D	0.72982	0.979;0.967	D	0.98483	1.0606	10	0.87932	D	0	.	18.8846	0.92370	0.0:0.0:1.0:0.0	.	777;777	O00222-2;O00222	.;GRM8_HUMAN	L	777	ENSP00000344173:F777L;ENSP00000409790:F777L;ENSP00000351142:F777L	ENSP00000344173:F777L	F	-	3	2	GRM8	125960341	1.000000	0.71417	1.000000	0.80357	0.971000	0.66376	4.879000	0.63100	2.717000	0.92951	0.655000	0.94253	TTC		0.413	GRM8-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059209.4			T	126173105	G	T	126173105	3	4	664	1	0	0	0	0	1	0	0	0	6810	1281	45	4	457	4	GRM8	7	126173105	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2826757	126173105	32965558	387	41697										
C7orf45	136263	mdanderson.org;bcgsc.ca	37	chr7	129855843	129855843	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agacttcctgtaagcggcaaAgcaaagacagtgcctgggat	12	9	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:129855843A>G	ENST00000297819.3	+	3	319	c.268A>G	c.(268-270)Agc>Ggc	p.S90G		NM_145268.3	NP_660311.1	Q8WWF3	SSMM1_HUMAN	serine-rich single-pass membrane protein 1	90						integral component of membrane (GO:0016021)											TAAGCGGCAAAGCAAAGACAG	0.408																																																0													116	105	109					7																	129855843		2203	4300	6503	SO:0001583	missense	0			AK097635	CCDS5816.1	7q32.2	2013-03-08	2013-03-08	2013-03-08	ENSG00000165120	ENSG00000165120			29580	protein-coding gene	gene with protein product			"chromosome 7 open reading frame 45"	C7orf45		12477932	Standard	NM_145268		Approved	FLJ40316	uc003vpp.3	Q8WWF3	OTTHUMG00000157844	ENST00000297819.3:c.268A>G	7.37:g.129855843A>G	ENSP00000297819:p.Ser90Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000297819.3	37	CCDS5816.1	.	.	.	.	.	.	.	.	.	.	A	7.226	0.598261	0.13939	.	.	ENSG00000165120	ENST00000297819	T	0.49139	0.79	5.84	4.69	0.59074	.	0.722123	0.13772	N	0.363833	T	0.37571	0.1008	L	0.35723	1.085	0.09310	N	1	B	0.17268	0.021	B	0.15484	0.013	T	0.23547	-1.0185	10	0.36615	T	0.2	0.0253	9.5225	0.39145	0.9201:0.0:0.0799:0.0	.	90	Q8WWF3	CG045_HUMAN	G	90	ENSP00000297819:S90G	ENSP00000297819:S90G	S	+	1	0	C7orf45	129643079	0.035000	0.19736	0.002000	0.10522	0.006000	0.05464	1.590000	0.36654	1.052000	0.40392	0.482000	0.46254	AGC		0.408	SSMEM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349768.1	NM_145268		G	129855843	A	G	129855843	3	3	664	1	0	0	0	0	1	0	0	0	2397	72	3	3	278	3	C7orf45	7	129855843	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	3682738	129855843	29282820	388	41698										
KLF14	136259	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	130417993	130417993	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gatgcggggagttcgacgacGtccccggtactcgatcatat	13	11	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:130417993G>A	ENST00000310992.4	-	1	895	c.868C>T	c.(868-870)Cgt>Tgt	p.R290C		NM_138693.2	NP_619638.2	Q8TD94	KLF14_HUMAN	Kruppel-like factor 14	290					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			large_intestine(3)|lung(1)|skin(1)|upper_aerodigestive_tract(1)	6	Melanoma(18;0.0435)					GTTCGACGACGTCCCCGGTAC	0.672																																																0													51	48	49					7																	130417993		2196	4293	6489	SO:0001583	missense	136259			AF490374	CCDS5825.1	7q32.3	2014-05-06			ENSG00000174595	ENSG00000266265		"Kruppel-like transcription factors", "Zinc fingers, C2H2-type"	23025	protein-coding gene	gene with protein product		609393				17480121	Standard	NM_138693		Approved	BTEB5	uc003vqk.2	Q8TD94	OTTHUMG00000188298	ENST00000310992.4:c.868C>T	7.37:g.130417993G>A	ENSP00000310878:p.Arg290Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q19A42|Q19A43	Missense_Mutation	SNP	ENST00000310992.4	37	CCDS5825.1	.	.	.	.	.	.	.	.	.	.	G	21.0	4.079248	0.76528	.	.	ENSG00000174595	ENST00000310992	T	0.09163	3.01	4.41	4.41	0.53225	.	0.000000	0.32055	U	0.006641	T	0.21881	0.0527	L	0.40543	1.245	0.42964	D	0.994416	D	0.89917	1.0	D	0.73708	0.981	T	0.00455	-1.1729	10	0.59425	D	0.04	.	11.2262	0.48886	0.0:0.1866:0.8134:0.0	.	290	Q8TD94	KLF14_HUMAN	C	290	ENSP00000310878:R290C	ENSP00000310878:R290C	R	-	1	0	KLF14	130068533	0.002000	0.14202	1.000000	0.80357	0.933000	0.57130	0.923000	0.28757	2.374000	0.81015	0.561000	0.74099	CGT		0.672	KLF14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338013.1	NM_138693		A	130417993	G	A	130417993	3	1	664	1	0	0	0	0	1	0	0	0	8349	1145	40	1	107	1	KLF14	7	130417993	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	562150	130417993	28720670	389	41699										
NUP205	23165	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	135292055	135292055	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaacatcttggagaaaggaaCggaagggagaacaggcccag	14	7	1	2	rs540996642	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:135292055C>T	ENST00000285968.6	+	22	3157	c.3131C>T	c.(3130-3132)aCg>aTg	p.T1044M		NM_015135.2	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1044					carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|nuclear pore complex assembly (GO:0051292)|nucleocytoplasmic transport (GO:0006913)|protein import into nucleus, docking (GO:0000059)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	membrane (GO:0016020)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nuclear periphery (GO:0034399)|nuclear pore (GO:0005643)	structural constituent of nuclear pore (GO:0017056)			breast(4)|central_nervous_system(2)|endometrium(9)|kidney(7)|large_intestine(17)|liver(4)|lung(36)|ovary(5)|prostate(1)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(3)	93						GAGAAAGGAACGGAAGGGAGA	0.463																																																0													99	94	96					7																	135292055		2203	4300	6503	SO:0001583	missense	23165			D86978	CCDS34759.1	7q31.32	2007-03-26	2004-01-06	2004-01-07	ENSG00000155561	ENSG00000155561			18658	protein-coding gene	gene with protein product		614352	"chromosome 7 open reading frame 14"	C7orf14		9039502, 9348540	Standard	NM_015135		Approved	KIAA0225	uc003vsw.3	Q92621	OTTHUMG00000155497	ENST00000285968.6:c.3131C>T	7.37:g.135292055C>T	ENSP00000285968:p.Thr1044Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8X3|Q86YC1	Missense_Mutation	SNP	ENST00000285968.6	37	CCDS34759.1	.	.	.	.	.	.	.	.	.	.	C	20.3	3.966911	0.74131	.	.	ENSG00000155561	ENST00000285968	T	0.29917	1.55	5.15	5.15	0.70609	.	0.047461	0.85682	D	0.000000	T	0.40423	0.1116	L	0.34521	1.04	0.80722	D	1	D	0.65815	0.995	P	0.55545	0.778	T	0.14337	-1.0476	10	0.46703	T	0.11	-10.5056	18.9876	0.92779	0.0:1.0:0.0:0.0	.	1044	Q92621	NU205_HUMAN	M	1044	ENSP00000285968:T1044M	ENSP00000285968:T1044M	T	+	2	0	NUP205	134942595	0.999000	0.42202	0.784000	0.31847	0.898000	0.52572	3.793000	0.55484	2.550000	0.86006	0.561000	0.74099	ACG		0.463	NUP205-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340358.1			T	135292055	C	T	135292055	3	4	664	1	0	0	0	0	1	0	0	0	10766	536	19	1	3217	1	NUP205	7	135292055	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4874062	135292055	23846608	390	41700										
UBN2	254048	broad.mit.edu;hgsc.bcm.edu	37	chr7	138969008	138969010	+	In_Frame_Del	DEL	CAG	CAG	-													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagcccagtggaatgaacatCagcagacagtctcccacctt							TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:138969008_138969010delCAG	ENST00000473989.3	+	15	3357_3359	c.3357_3359delCAG	c.(3355-3360)atcagc>atc	p.S1120del	UBN2_ENST00000288561.8_In_Frame_Del_p.S1037del	NM_173569.3	NP_775840.3	Q6ZU65	UBN2_HUMAN	ubinuclein 2	1120	Ser-rich.					extracellular space (GO:0005615)|nucleus (GO:0005634)				NS(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(5)|large_intestine(7)|lung(16)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	42						GAATGAACATCAGCAGACAGTCT	0.493																																																0																																										SO:0001651	inframe_deletion	254048			AK098644	CCDS43655.1, CCDS43655.2	7q34	2008-12-08			ENSG00000157741	ENSG00000157741			21931	protein-coding gene	gene with protein product		613841				19029251	Standard	NM_173569		Approved	FLJ25778, KIAA2030	uc011kqr.2	Q6ZU65	OTTHUMG00000157623	ENST00000473989.3:c.3357_3359delCAG	7.37:g.138969011_138969013delCAG	ENSP00000418648:p.Ser1120del	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1S2|Q2YDY4|Q6P1K0|Q86XN9|Q8N7D1	In_Frame_Del	DEL	ENST00000473989.3	37	CCDS43655.2																																																																																				0.493	UBN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349272.3	NM_173569		-	138969010	CAG	-	138969008	7	5	664	1	0	1	0	1	0	0	0	0	16905	816	29	0	3415	0	UBN2	7	138969008	In_Frame_Del	DEL	CAG	TCGA-KN-8428-01A-11D-2310-10	3676953	138969008	20169655	391	41701	395	2								
UBN2	254048	bcgsc.ca	37	chr7	138969009	138969011	+	In_Frame_Del	DEL	CAG	CAG	-													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agcccagtggaatgaacatcAgcagacagtctcccaccttg							TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:138969009_138969011delCAG	ENST00000473989.3	+	15	3358_3360	c.3358_3360delCAG	c.(3358-3360)cagdel	p.Q1120del	UBN2_ENST00000288561.8_In_Frame_Del_p.Q1037del	NM_173569.3	NP_775840.3	Q6ZU65	UBN2_HUMAN	ubinuclein 2	1120	Ser-rich.					extracellular space (GO:0005615)|nucleus (GO:0005634)				NS(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(5)|large_intestine(7)|lung(16)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	42						AATGAACATCAGCAGACAGTCTC	0.488																																																0																																										SO:0001651	inframe_deletion	254048			AK098644	CCDS43655.1, CCDS43655.2	7q34	2008-12-08			ENSG00000157741	ENSG00000157741			21931	protein-coding gene	gene with protein product		613841				19029251	Standard	NM_173569		Approved	FLJ25778, KIAA2030	uc011kqr.2	Q6ZU65	OTTHUMG00000157623	ENST00000473989.3:c.3358_3360delCAG	7.37:g.138969009_138969011delCAG	ENSP00000418648:p.Gln1120del	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1S2|Q2YDY4|Q6P1K0|Q86XN9|Q8N7D1	In_Frame_Del	DEL	ENST00000473989.3	37	CCDS43655.2																																																																																				0.488	UBN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349272.3	NM_173569		-	138969011	CAG	-	138969009	7	5	664	1	0	1	0	1	0	0	0	0	16905	188	7	0	3416	0	UBN2	7	138969009	In_Frame_Del	DEL	CAG	TCGA-KN-8428-01A-11D-2310-10	1	138969009	20169654	392	41702	395	2								
OR9A4	130075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr7	141619431	141619431	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acctgtgttgtgattggctaCggcagctgcttgtttctcta	11	9	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:141619431C>T	ENST00000548136.1	+	1	815	c.756C>T	c.(754-756)taC>taT	p.Y252Y	MGAM_ENST00000497554.1_Intron	NM_001001656.1	NP_001001656.1	Q8NGU2	OR9A4_HUMAN	olfactory receptor, family 9, subfamily A, member 4	252						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.Y252*(1)		NS(1)|endometrium(2)|large_intestine(9)|lung(7)|prostate(1)|skin(2)	22	Melanoma(164;0.0171)					TGATTGGCTACGGCAGCTGCT	0.498																																																1	Substitution - Nonsense(1)	lung(1)											71	75	74					7																	141619431		2203	4300	6503	SO:0001819	synonymous_variant	130075				CCDS43661.1	7q34	2012-10-03			ENSG00000258083	ENSG00000258083		"GPCR / Class A : Olfactory receptors"	15095	protein-coding gene	gene with protein product							Standard	NM_001001656		Approved		uc003vwu.1	Q8NGU2	OTTHUMG00000158370	ENST00000548136.1:c.756C>T	7.37:g.141619431C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B9EGV6|Q6IFI4	Silent	SNP	ENST00000548136.1	37	CCDS43661.1																																																																																				0.498	OR9A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350806.3	NM_001001656		T	141619431	C	T	141619431	2	4	664	1	0	0	0	0	0	0	0	1	11256	547	19	1		1	OR9A4	7	141619431	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2650422	141619431	17519232	393	41703										
TRYX3	136541	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	141952190	141952190	+	Splice_Site	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgccggggcagcagaaacttCctgccaggaaaacaataata	10	10	0	1	rs533423282	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:141952190C>T	ENST00000552471.1	-	5	896	c.577G>A	c.(577-579)Gaa>Aaa	p.E193K	PRSS58_ENST00000547058.2_Splice_Site_p.E193K			Q8IYP2	PRS58_HUMAN	protease, serine, 58	193	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.					extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)			kidney(1)|large_intestine(2)|lung(11)|ovary(1)|prostate(2)|skin(2)	19						GCAGAAACTTCCTGCCAGGAA	0.408													C|||	2	0.000399361	0.0	0.0	5008	,	,		18676	0.0		0.0	False		,,,				2504	0.002															0													53	54	54					7																	141952190		2203	4300	6503	SO:0001630	splice_region_variant	136541				CCDS5871.1	7q34	2012-10-03			ENSG00000258223	ENSG00000258223	3.4.21.4	"Serine peptidases / Serine peptidases"	39125	protein-coding gene	gene with protein product	"trypsin X3"						Standard	NM_001001317		Approved	TRYX3	uc003vxc.4	Q8IYP2	OTTHUMG00000158565	ENST00000552471.1:c.577-1G>A	7.37:g.141952190C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KVJ6|D3DXD2	Missense_Mutation	SNP	ENST00000552471.1	37	CCDS5871.1	.	.	.	.	.	.	.	.	.	.	C	26.5	4.744598	0.89663	.	.	ENSG00000258223	ENST00000547058;ENST00000552471	D;D	0.88431	-2.38;-2.38	5.24	5.24	0.73138	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	.	.	.	.	D	0.93969	0.8069	M	0.77103	2.36	0.49798	D	0.999822	D	0.89917	1.0	D	0.85130	0.997	D	0.94161	0.7414	9	0.72032	D	0.01	.	14.1973	0.65679	0.0:1.0:0.0:0.0	.	193	Q8IYP2	PRS58_HUMAN	K	193	ENSP00000447588:E193K;ENSP00000446916:E193K	ENSP00000307206:E193K	E	-	1	0	PRSS58	141598668	1.000000	0.71417	1.000000	0.80357	0.770000	0.43624	3.896000	0.56266	2.723000	0.93209	0.655000	0.94253	GAA		0.408	PRSS58-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351328.2	NM_001001317	Missense_Mutation	T	141952190	C	T	141952190	5	4	664	1	0	0	0	0	0	0	1	0	16616	869	30	2	152	2	TRYX3	7	141952190	Splice_Site	SNP	C	TCGA-KN-8428-01A-11D-2310-10	332759	141952190	17186473	394	41704										
PRSS1	5644	mdanderson.org	37	chr7	142460764	142460764	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcaatggacagctccaaggaGttgtctcctggggtgatggc	15	9	1	1	rs200902389		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:142460764G>A	ENST00000311737.7	+	5	643	c.637G>A	c.(637-639)Gtt>Att	p.V213I	PRSS1_ENST00000486171.1_Missense_Mutation_p.V227I	NM_002769.4	NP_002760.1	P07477	TRY1_HUMAN	protease, serine, 1 (trypsin 1)	213	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	metal ion binding (GO:0046872)|serine-type endopeptidase activity (GO:0004252)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(24)|prostate(2)	38	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)		Aprotinin(DB06692)	GCTCCAAGGAGTTGTCTCCTG	0.507																																																0																																										SO:0001583	missense	5644			M22612	CCDS5872.1	7q34	2012-10-02			ENSG00000204983	ENSG00000204983	3.4.21.4	"Serine peptidases / Serine peptidases"	9475	protein-coding gene	gene with protein product		276000		TRY1			Standard	NM_002769		Approved		uc003wak.2	P07477	OTTHUMG00000158923	ENST00000311737.7:c.637G>A	7.37:g.142460764G>A	ENSP00000308720:p.Val213Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A1A509|A6NJ71|B2R5I5|Q5NV57|Q7M4N3|Q7M4N4|Q92955|Q9HAN4|Q9HAN5|Q9HAN6|Q9HAN7	Missense_Mutation	SNP	ENST00000311737.7	37	CCDS5872.1	.	.	.	.	.	.	.	.	.	.	G	0	-2.715405	0.00093	.	.	ENSG00000204983	ENST00000486171;ENST00000311737;ENST00000529243	D;D	0.92495	-3.05;-3.05	3.18	-2.69	0.06022	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	0.441828	0.26891	N	0.021970	T	0.73860	0.3641	N	0.04387	-0.21	0.19575	N	0.999967	B;B	0.02656	0.0;0.0	B;B	0.09377	0.004;0.003	T	0.65500	-0.6153	10	0.02654	T	1	.	8.608	0.33784	0.6977:0.0:0.3023:0.0	.	227;213	E7EQ64;P07477	.;TRY1_HUMAN	I	227;213;203	ENSP00000417854:V227I;ENSP00000308720:V213I	ENSP00000308720:V213I	V	+	1	0	PRSS1	142140338	0.000000	0.05858	0.014000	0.15608	0.002000	0.02628	-0.180000	0.09754	-0.675000	0.05246	-1.152000	0.01820	GTT		0.507	PRSS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352538.2			A	142460764	G	A	142460764	3	1	664	1	0	0	0	0	1	0	0	0	12624	1029	36	2	655	2	PRSS1	7	142460764	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	508574	142460764	16677899	395	41705										
PRSS1	5644	mdanderson.org	37	chr7	142460778	142460778	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caaggagttgtctcctggggTgatggctgtgcccagaagaa	15	8	1	3	rs562372415		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:142460778T>C	ENST00000311737.7	+	5	657	c.651T>C	c.(649-651)ggT>ggC	p.G217G	PRSS1_ENST00000486171.1_Silent_p.G231G	NM_002769.4	NP_002760.1	P07477	TRY1_HUMAN	protease, serine, 1 (trypsin 1)	217	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	metal ion binding (GO:0046872)|serine-type endopeptidase activity (GO:0004252)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(24)|prostate(2)	38	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)		Aprotinin(DB06692)	TCTCCTGGGGTGATGGCTGTG	0.522													t|||	1	0.000199681	0.0	0.0	5008	,	,		16577	0.001		0.0	False		,,,				2504	0.0															0													81	82	81					7																	142460778		2203	4300	6503	SO:0001819	synonymous_variant	5644			M22612	CCDS5872.1	7q34	2012-10-02			ENSG00000204983	ENSG00000204983	3.4.21.4	"Serine peptidases / Serine peptidases"	9475	protein-coding gene	gene with protein product		276000		TRY1			Standard	NM_002769		Approved		uc003wak.2	P07477	OTTHUMG00000158923	ENST00000311737.7:c.651T>C	7.37:g.142460778T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A1A509|A6NJ71|B2R5I5|Q5NV57|Q7M4N3|Q7M4N4|Q92955|Q9HAN4|Q9HAN5|Q9HAN6|Q9HAN7	Silent	SNP	ENST00000311737.7	37	CCDS5872.1																																																																																				0.522	PRSS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352538.2			C	142460778	T	C	142460778	2	2	664	1	0	0	0	0	0	0	0	1	12624	1683	59	3		3	PRSS1	7	142460778	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	14	142460778	16677885	396	41706										
OR2A2	442361	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	143807471	143807471	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggtcccagactctaatcaaCgagaggagcaggagaaaatg	12	8	2	3	rs536132673		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:143807471C>T	ENST00000408979.2	+	1	865	c.796C>T	c.(796-798)Cga>Tga	p.R266*		NM_001005480.2	NP_001005480.2	Q6IF42	OR2A2_HUMAN	olfactory receptor, family 2, subfamily A, member 2	266						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(1)|kidney(1)|large_intestine(2)|lung(13)|prostate(1)|skin(4)	22	Melanoma(164;0.0783)					CTCTAATCAACGAGAGGAGCA	0.512													-|||	1	0.000199681	0.0	0.0	5008	,	,		19383	0.001		0.0	False		,,,				2504	0.0															0													174	169	171					7																	143807471		2028	4204	6232	SO:0001587	stop_gained	442361				CCDS43671.1	7q35	2013-09-20		2004-03-10	ENSG00000221989	ENSG00000221989		"GPCR / Class A : Olfactory receptors"	8230	protein-coding gene	gene with protein product				OR2A2P, OR2A17P			Standard	NM_001005480		Approved	OST008	uc011ktz.2	Q6IF42	OTTHUMG00000158001	ENST00000408979.2:c.796C>T	7.37:g.143807471C>T	ENSP00000386209:p.Arg266*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN85|Q8NGT6	Nonsense_Mutation	SNP	ENST00000408979.2	37	CCDS43671.1	.	.	.	.	.	.	.	.	.	.	C	10.68	1.417609	0.25552	.	.	ENSG00000221989	ENST00000408979	.	.	.	3.47	1.61	0.23674	.	1.769010	0.04226	U	0.334378	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.45353	T	0.12	0.2154	4.7794	0.13195	0.0:0.6092:0.0:0.3908	.	.	.	.	X	266	.	ENSP00000386209:R266X	R	+	1	2	OR2A2	143438404	0.000000	0.05858	0.001000	0.08648	0.045000	0.14185	-2.818000	0.00751	0.795000	0.33922	0.511000	0.50034	CGA		0.512	OR2A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349978.1			T	143807471	C	T	143807471	4	4	664	1	0	0	0	0	0	1	0	0	10984	528	19	1	798	1	OR2A2	7	143807471	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1346693	143807471	15331192	397	41707										
SSPO	23145	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr7	149483252	149483252	+	RNA	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccctgggctgagcctgcgtcGtgctggcctcttcctgctgc	13	16	1	1	rs374088477		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:149483252G>A	ENST00000378016.2	+	0	3320							A2VEC9	SSPO_HUMAN	SCO-spondin						cell adhesion (GO:0007155)	extracellular space (GO:0005615)	peptidase inhibitor activity (GO:0030414)	p.R357L(1)				Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			AGCCTGCGTCGTGCTGGCCTC	0.652																																																1	Substitution - Missense(1)	lung(1)						G		1,4273		0,1,2136	34	41	39		3324	-8.3	0	7		39	0,8480		0,0,4240	no	coding-notMod3	SSPO	NM_198455.2		0,1,6376	AA,AG,GG		0.0,0.0234,0.0078			149483252	1,12753	2137	4240	6377			23145			AK093431		7q36.1	2013-08-07	2013-08-06		ENSG00000197558	ENSG00000197558			21998	protein-coding gene	gene with protein product	"subcommissural organ spondin", "SCO protein, thrombospondin domain containing"		"SCO-spondin homolog (Bos taurus)"			8743952, 11008217	Standard	NM_198455		Approved	SCO-spondin, KIAA0543, FLJ36112	uc010lpk.3	A2VEC9	OTTHUMG00000157884		7.37:g.149483252G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q76B61	Missense_Mutation	SNP	ENST00000378016.2	37																																																																																					0.652	SSPO-202	KNOWN	basic	processed_transcript	processed_transcript				A	149483252	G	A	149483252	1	1	664	0	1	0	0	0	0	0	0	0	15201	1145	40	1		1	SSPO	7	149483252	RNA	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5675781	149483252	9655411	398	41708										
TMEM176B	28959	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	150490188	150490188	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgctcaccctcagcatctgCatgtaagctctacactcctc	5	17	4	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:150490188C>T	ENST00000447204.2	-	5	960	c.588G>A	c.(586-588)atG>atA	p.M196I	TMEM176B_ENST00000429904.2_Missense_Mutation_p.M196I|TMEM176B_ENST00000434545.1_Missense_Mutation_p.M196I|TMEM176B_ENST00000492607.1_Missense_Mutation_p.M196I|TMEM176B_ENST00000326442.5_Missense_Mutation_p.M196I|TMEM176B_ENST00000450753.2_Missense_Mutation_p.M159I	NM_014020.3	NP_054739.3	Q3YBM2	T176B_HUMAN	transmembrane protein 176B	196					cell differentiation (GO:0030154)|negative regulation of dendritic cell differentiation (GO:2001199)|organ morphogenesis (GO:0009887)	integral component of membrane (GO:0016021)|nucleus (GO:0005634)				cervix(1)|large_intestine(4)|lung(10)|ovary(1)|skin(3)	19			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TCAGCATCTGCATGTAAGCTC	0.557																																																0													131	106	115					7																	150490188		2203	4300	6503	SO:0001583	missense	28959			AF115384	CCDS5908.1, CCDS47746.1	7q36.1	2006-09-04			ENSG00000106565	ENSG00000106565			29596	protein-coding gene	gene with protein product		610385				9922225	Standard	NM_014020		Approved	LR8	uc003whu.4	Q3YBM2	OTTHUMG00000157577	ENST00000447204.2:c.588G>A	7.37:g.150490188C>T	ENSP00000410269:p.Met196Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDK2|D3DWZ7|E9PAV4|Q5BJI2|Q9BT42|Q9Y609	Missense_Mutation	SNP	ENST00000447204.2	37	CCDS5908.1	.	.	.	.	.	.	.	.	.	.	C	15.80	2.939542	0.52972	.	.	ENSG00000106565	ENST00000492607;ENST00000326442;ENST00000447204;ENST00000434545;ENST00000429904;ENST00000450753;ENST00000528038	T;T;T;T;T;T	0.02280	4.36;4.36;4.36;4.36;4.36;4.36	3.7	3.7	0.42460	.	0.436853	0.20880	U	0.084010	T	0.08537	0.0212	M	0.73598	2.24	0.09310	N	0.999992	P;D	0.56968	0.945;0.978	P;P	0.57620	0.76;0.824	T	0.02901	-1.1096	10	0.56958	D	0.05	-14.5952	11.6847	0.51479	0.0:1.0:0.0:0.0	.	159;196	E9PAV4;Q3YBM2	.;T176B_HUMAN	I	196;196;196;196;196;159;196	ENSP00000419258:M196I;ENSP00000318409:M196I;ENSP00000410269:M196I;ENSP00000413531:M196I;ENSP00000397810:M196I;ENSP00000404831:M159I	ENSP00000318409:M196I	M	-	3	0	TMEM176B	150121121	0.666000	0.27475	0.064000	0.19789	0.007000	0.05969	2.540000	0.45727	2.023000	0.59567	0.448000	0.29417	ATG		0.557	TMEM176B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349204.1	NM_014020		T	150490188	C	T	150490188	3	4	664	1	0	0	0	0	1	0	0	0	16105	710	25	2	236	2	TMEM176B	7	150490188	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1006936	150490188	8648475	399	41709										
KCNH2	3757	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr7	150648045	150648045	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccgttggtgtaggaccaggcGtgctggaagtactcctcgag	15	10	0	0	rs202214833		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:150648045G>A	ENST00000262186.5	-	8	2510	c.2109C>T	c.(2107-2109)caC>caT	p.H703H	KCNH2_ENST00000392968.2_Silent_p.H607H|KCNH2_ENST00000330883.4_Silent_p.H363H|KCNH2_ENST00000430723.3_Silent_p.H703H	NM_000238.3	NP_000229.1	Q12809	KCNH2_HUMAN	potassium voltage-gated channel, subfamily H (eag-related), member 2	703					cardiac muscle contraction (GO:0060048)|cellular response to drug (GO:0035690)|membrane depolarization during action potential (GO:0086010)|membrane repolarization during action potential (GO:0086011)|membrane repolarization during cardiac muscle cell action potential (GO:0086013)|negative regulation of potassium ion export (GO:1902303)|negative regulation of potassium ion transmembrane transport (GO:1901380)|positive regulation of potassium ion transmembrane transport (GO:1901381)|potassium ion export (GO:0071435)|potassium ion homeostasis (GO:0055075)|potassium ion transmembrane transport (GO:0071805)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of heart rate by hormone (GO:0003064)|regulation of membrane potential (GO:0042391)|regulation of membrane repolarization (GO:0060306)|regulation of potassium ion transmembrane transport (GO:1901379)|regulation of ventricular cardiac muscle cell membrane repolarization (GO:0060307)|synaptic transmission (GO:0007268)|ventricular cardiac muscle cell action potential (GO:0086005)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|nuclear envelope (GO:0005635)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|identical protein binding (GO:0042802)|inward rectifier potassium channel activity (GO:0005242)|phosphorelay sensor kinase activity (GO:0000155)|protein homodimerization activity (GO:0042803)|ubiquitin protein ligase binding (GO:0031625)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated potassium channel activity involved in ventricular cardiac muscle cell action potential repolarization (GO:1902282)			NS(1)|cervix(1)|endometrium(10)|kidney(1)|large_intestine(5)|lung(14)|ovary(1)|prostate(2)|skin(6)|upper_aerodigestive_tract(1)	42	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Chlorpromazine(DB00477)|Cisapride(DB00604)|Dofetilide(DB00204)|Doxazosin(DB00590)|Doxepin(DB01142)|Dronedarone(DB04855)|Halofantrine(DB01218)|Ibutilide(DB00308)|Imipramine(DB00458)|Miconazole(DB01110)|Pimozide(DB01100)|Prazosin(DB00457)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terazosin(DB01162)|Thioridazine(DB00679)|Verapamil(DB00661)	AGGACCAGGCGTGCTGGAAGT	0.652													G|||	1	0.000199681	0.0	0.0	5008	,	,		17046	0.001		0.0	False		,,,				2504	0.0				GBM(137;110 1844 13671 20123 45161)											0													106	83	91					7																	150648045		2203	4300	6503	SO:0001819	synonymous_variant	3757			U04270	CCDS5910.1, CCDS5911.1	7q36.1	2014-09-17			ENSG00000055118	ENSG00000055118		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6251	protein-coding gene	gene with protein product		152427		LQT2		18616963, 7842012, 8159766, 16382104	Standard	NM_000238		Approved	Kv11.1, HERG, erg1	uc003wic.3	Q12809	OTTHUMG00000158341	ENST00000262186.5:c.2109C>T	7.37:g.150648045G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A5H1P7|C4PFH9|D3DX04|O75418|O75680|Q708S9|Q9BT72|Q9BUT7|Q9H3P0	Silent	SNP	ENST00000262186.5	37	CCDS5910.1																																																																																				0.652	KCNH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350741.2	NM_000238		A	150648045	G	A	150648045	2	1	664	1	0	0	0	0	0	0	0	1	8039	1136	40	1		1	KCNH2	7	150648045	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	157857	150648045	8490618	400	41710										
ACCN3	9311	broad.mit.edu;mdanderson.org	37	chr7	150747623	150747623	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atccacagccaggaggagccGcccatcatcgatcagctggg	12	14	2	0	rs149333074		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr7:150747623G>A	ENST00000349064.5	+	3	939	c.741G>A	c.(739-741)ccG>ccA	p.P247P	ASIC3_ENST00000297512.8_Silent_p.P247P|ASIC3_ENST00000357922.4_Silent_p.P247P	NM_004769.3|NM_020321.3	NP_004760.1|NP_064717.1	Q9UHC3	ASIC3_HUMAN	acid-sensing (proton-gated) ion channel 3	247					cation transmembrane transport (GO:0098655)|detection of chemical stimulus involved in sensory perception of pain (GO:0050968)|detection of mechanical stimulus involved in sensory perception of pain (GO:0050966)|detection of temperature stimulus involved in sensory perception of pain (GO:0050965)|ion transmembrane transport (GO:0034220)|response to acid chemical (GO:0001101)|response to acidic pH (GO:0010447)|response to heat (GO:0009408)|sensory perception (GO:0007600)|sensory perception of sour taste (GO:0050915)|signal transduction (GO:0007165)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)|transport (GO:0006810)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cation channel activity (GO:0005261)|enterobactin transporter activity (GO:0042931)|ligand-gated sodium channel activity (GO:0015280)|sodium channel activity (GO:0005272)										AGGAGGAGCCGCCCATCATCG	0.627																																																0								G	,,	1,4405	2.1+/-5.4	0,1,2202	70	74	73		741,741,741	-8.7	0	7	dbSNP_134	73	0,8600		0,0,4300	no	coding-synonymous,coding-synonymous,coding-synonymous	ACCN3	NM_004769.2,NM_020321.2,NM_020322.2	,,	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	,,	247/532,247/550,247/544	150747623	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	9311			AB010575	CCDS5914.1, CCDS5915.1, CCDS5916.1	7q35	2012-02-23	2012-02-22	2012-02-22	ENSG00000213199	ENSG00000213199		"Ion channels / Acid-sensing (proton-gated) ion channels"	101	protein-coding gene	gene with protein product	"testis sodium channel 1"	611741	"amiloride-sensitive cation channel 3, testis", "amiloride-sensitive cation channel 3"	ACCN3		9571199, 9744806	Standard	NM_004769		Approved	TNaC1, DRASIC	uc003wio.3	Q9UHC3	OTTHUMG00000158685	ENST00000349064.5:c.741G>A	7.37:g.150747623G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9V0|O60263|O75906|Q59FN9|Q9UER8|Q9UHC4	Silent	SNP	ENST00000349064.5	37	CCDS5916.1																																																																																				0.627	ASIC3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351725.1	NM_004769		A	150747623	G	A	150747623	2	1	664	1	0	0	0	0	0	0	0	1	130	1074	38	1		1	ACCN3	7	150747623	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	99578	150747623	8391040	401	41711										
MYOM2	9172	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	2033488	2033488	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgggagccacccactccccGtggcaaggacccgctcatgt	11	17	1	0	rs544544159	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:2033488G>A	ENST00000262113.4	+	14	1751	c.1610G>A	c.(1609-1611)cGt>cAt	p.R537H	MYOM2_ENST00000523438.1_Intron	NM_003970.2	NP_003961.2	P54296	MYOM2_HUMAN	myomesin 2	537	Fibronectin type-III 2. {ECO:0000255|PROSITE-ProRule:PRU00316}.				muscle contraction (GO:0006936)	M band (GO:0031430)|mitochondrion (GO:0005739)|myosin filament (GO:0032982)	structural constituent of muscle (GO:0008307)			autonomic_ganglia(2)|breast(4)|central_nervous_system(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(11)|kidney(2)|large_intestine(17)|lung(39)|ovary(5)|prostate(1)|skin(10)|upper_aerodigestive_tract(3)	104		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)		CCCACTCCCCGTGGCAAGGAC	0.597													G|||	2	0.000399361	0.0	0.0	5008	,	,		17975	0.002		0.0	False		,,,				2504	0.0															0													64	57	59					8																	2033488		2203	4300	6503	SO:0001583	missense	9172				CCDS5957.1	8p23.3	2014-06-06	2012-10-17		ENSG00000036448	ENSG00000036448		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	7614	protein-coding gene	gene with protein product		603509	"myomesin (M-protein) 2 (165kD)", "myomesin (M-protein) 2, 165kDa"				Standard	XM_006716237		Approved		uc003wpx.4	P54296	OTTHUMG00000129175	ENST00000262113.4:c.1610G>A	8.37:g.2033488G>A	ENSP00000262113:p.Arg537His	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z3Y2	Missense_Mutation	SNP	ENST00000262113.4	37	CCDS5957.1	.	.	.	.	.	.	.	.	.	.	G	18.50	3.637676	0.67130	.	.	ENSG00000036448	ENST00000262113	T	0.57595	0.39	5.75	5.75	0.90469	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.130725	0.52532	D	0.000068	T	0.62270	0.2414	L	0.46157	1.445	0.80722	D	1	D	0.56746	0.977	P	0.53593	0.73	T	0.63743	-0.6568	10	0.72032	D	0.01	.	19.961	0.97250	0.0:0.0:1.0:0.0	.	537	P54296	MYOM2_HUMAN	H	537	ENSP00000262113:R537H	ENSP00000262113:R537H	R	+	2	0	MYOM2	2020895	1.000000	0.71417	0.962000	0.40283	0.009000	0.06853	7.686000	0.84128	2.709000	0.92574	0.651000	0.88453	CGT		0.597	MYOM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251249.1	NM_003970		A	2033488	G	A	2033488	3	1	664	1	0	0	0	0	1	0	0	0	10099	1145	40	1	1660	1	MYOM2	8	2033488	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10		2033488	144330534	402	41712										
AMAC1L2	83650	mdanderson.org	37	chr8	11189403	11189403	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gggggcagaggggatcctcgCcttggtctccttcacatgtg	15	11	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:11189403C>A	ENST00000382435.4	+	1	1007	c.788C>A	c.(787-789)gCc>gAc	p.A263D		NM_001282300.1|NM_054028.1	NP_001269229.1|NP_473369.1	Q96KT7	S35G5_HUMAN	solute carrier family 35, member G5	263						integral component of membrane (GO:0016021)											GGGATCCTCGCCTTGGTCTCC	0.627																																																0													118	114	115					8																	11189403		2203	4300	6503	SO:0001583	missense	83650			AJ291677	CCDS5980.1	8p23.1	2013-05-22	2011-08-03	2011-08-03	ENSG00000177710	ENSG00000177710		"Solute carriers"	15546	protein-coding gene	gene with protein product		615199	"acyl-malonyl condensing enzyme 1-like 2"	AMAC, AMAC1L2			Standard	NM_054028		Approved		uc003wtp.1	Q96KT7	OTTHUMG00000090653	ENST00000382435.4:c.788C>A	8.37:g.11189403C>A	ENSP00000371872:p.Ala263Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRL6	Missense_Mutation	SNP	ENST00000382435.4	37	CCDS5980.1	.	.	.	.	.	.	.	.	.	.	C	13.03	2.115895	0.37339	.	.	ENSG00000177710	ENST00000382435	T	0.69685	-0.42	.	.	.	.	0.000000	0.44285	D	0.000479	T	0.62380	0.2423	L	0.51422	1.61	0.37002	D	0.895315	P	0.38582	0.638	P	0.47015	0.534	T	0.61068	-0.7137	9	0.49607	T	0.09	-2.6207	5.8679	0.18786	0.0:0.9992:0.0:8.0E-4	.	263	Q96KT7	S35G5_HUMAN	D	263	ENSP00000371872:A263D	ENSP00000371872:A263D	A	+	2	0	SLC35G5	11226813	0.246000	0.23909	0.169000	0.22859	0.170000	0.22686	3.079000	0.50104	0.088000	0.17205	0.089000	0.15464	GCC		0.627	SLC35G5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207313.2	NM_054028		A	11189403	C	A	11189403	3	1	664	1	0	0	0	0	1	0	0	0	560	739	26	4	790	4	AMAC1L2	8	11189403	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	9155915	11189403	135174619	403	41713										
MTUS1	57509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	17503472	17503472	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggggctagggaaggagcccGaattccttggtgactgcaaa	15	8	0	1	rs148435996		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:17503472G>A	ENST00000262102.6	-	15	4000	c.3776C>T	c.(3775-3777)tCg>tTg	p.S1259L	MTUS1_ENST00000381861.3_Missense_Mutation_p.S506L|MTUS1_ENST00000544260.1_Missense_Mutation_p.S404L|MTUS1_ENST00000297488.6_Missense_Mutation_p.S425L|MTUS1_ENST00000381869.3_Missense_Mutation_p.S1205L|MTUS1_ENST00000400046.1_Missense_Mutation_p.S331L|MTUS1_ENST00000519263.1_Missense_Mutation_p.S1205L	NM_001001924.2	NP_001001924.1	Q9ULD2	MTUS1_HUMAN	microtubule associated tumor suppressor 1	1259					cellular response to peptide hormone stimulus (GO:0071375)|regulation of macrophage chemotaxis (GO:0010758)	extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(1)|central_nervous_system(1)|endometrium(4)|kidney(4)|large_intestine(14)|lung(8)|ovary(1)|skin(2)|urinary_tract(1)	36				Colorectal(111;0.0778)		GAAGGAGCCCGAATTCCTTGG	0.552													G|||	1	0.000199681	0.0	0.0	5008	,	,		14747	0.0		0.001	False		,,,				2504	0.0															0													60	64	63					8																	17503472		1928	4138	6066	SO:0001583	missense	57509			AL096842	CCDS43716.1, CCDS43717.1, CCDS43718.1, CCDS43719.1, CCDS55204.1	8p22	2013-01-17	2009-10-20		ENSG00000129422	ENSG00000129422			29789	protein-coding gene	gene with protein product	"AT2 receptor-interacting protein", "AT2R binding protein", "mitochondrial tumor suppressor gene 1"	609589	"mitochondrial tumor suppressor 1"			10574462, 12692079	Standard	NM_001001931		Approved	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS	uc003wxv.3	Q9ULD2	OTTHUMG00000163756	ENST00000262102.6:c.3776C>T	8.37:g.17503472G>A	ENSP00000262102:p.Ser1259Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K135|B2RBJ6|B3KWJ9|B4DH03|B9EGA1|D3DSP8|Q63HJ6|Q659F4|Q6PK49|Q6URW7|Q8N4M6|Q8WTT9|Q9H7T2	Missense_Mutation	SNP	ENST00000262102.6	37	CCDS43717.1	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	G	17.90	3.502973	0.64298	.	.	ENSG00000129422	ENST00000381869;ENST00000544260;ENST00000400046;ENST00000297488;ENST00000381861;ENST00000262102;ENST00000519263	T;T;T;T;T;T;T	0.25085	2.85;2.03;1.82;2.04;1.96;2.74;2.85	4.66	4.66	0.58398	.	0.106321	0.64402	D	0.000003	T	0.55114	0.1900	M	0.80028	2.48	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.91635	0.999;0.999;0.998;0.996	T	0.61811	-0.6986	10	0.87932	D	0	-5.5731	18.1297	0.89597	0.0:0.0:1.0:0.0	.	1205;1259;506;425	Q9ULD2-2;Q9ULD2;Q9ULD2-6;Q9ULD2-3	.;MTUS1_HUMAN;.;.	L	1205;404;331;425;506;1259;1205	ENSP00000371293:S1205L;ENSP00000445738:S404L;ENSP00000382921:S331L;ENSP00000297488:S425L;ENSP00000371285:S506L;ENSP00000262102:S1259L;ENSP00000430167:S1205L	ENSP00000262102:S1259L	S	-	2	0	MTUS1	17547752	1.000000	0.71417	0.089000	0.20774	0.011000	0.07611	9.104000	0.94239	2.583000	0.87209	0.655000	0.94253	TCG		0.552	MTUS1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000375247.1	XM_372031		A	17503472	G	A	17503472	3	1	664	1	0	0	0	0	1	0	0	0	9972	1059	37	1	40	1	MTUS1	8	17503472	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6314069	17503472	128860550	404	41714										
CSGALNACT1	55790	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr8	19363316	19363316	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accaccacccgggaaatccaCgcaagcagcccccggcgaac	9	19	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:19363316C>T	ENST00000454498.2	-	4	1043	c.30G>A	c.(28-30)gcG>gcA	p.A10A	CSGALNACT1_ENST00000311540.4_Silent_p.A10A|CSGALNACT1_ENST00000544602.1_Silent_p.A10A|CSGALNACT1_ENST00000332246.6_Silent_p.A10A|CSGALNACT1_ENST00000522854.1_Silent_p.A10A	NM_001130518.1	NP_001123990.1	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate N-acetylgalactosaminyltransferase 1	10					anatomical structure morphogenesis (GO:0009653)|carbohydrate metabolic process (GO:0005975)|cartilage development (GO:0051216)|cell proliferation (GO:0008283)|cell recognition (GO:0008037)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|chondroitin sulfate proteoglycan biosynthetic process (GO:0050650)|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050653)|dermatan sulfate proteoglycan biosynthetic process (GO:0050651)|endochondral ossification (GO:0001958)|extracellular matrix organization (GO:0030198)|glycosaminoglycan metabolic process (GO:0030203)|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0015014)|heparin biosynthetic process (GO:0030210)|nervous system development (GO:0007399)|proteoglycan biosynthetic process (GO:0030166)|small molecule metabolic process (GO:0044281)|UDP-glucuronate metabolic process (GO:0046398)|UDP-N-acetylgalactosamine metabolic process (GO:0019276)	Golgi cisterna membrane (GO:0032580)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)|intracellular (GO:0005622)	acetylgalactosaminyltransferase activity (GO:0008376)|glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity (GO:0047238)|glucuronosyltransferase activity (GO:0015020)|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity (GO:0047237)|metal ion binding (GO:0046872)|peptidoglycan glycosyltransferase activity (GO:0008955)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(4)|lung(15)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	31				Colorectal(111;0.182)		GGGAAATCCACGCAAGCAGCC	0.607																																																0													101	106	104					8																	19363316		2203	4300	6503	SO:0001819	synonymous_variant	55790			AK002126	CCDS6010.1	8p21.3	2013-02-19				ENSG00000147408		"Beta 4-glycosyltransferases"	24290	protein-coding gene	gene with protein product	"chondroitin beta1,4 N-acetylgalactosaminyltransferase"					17145758, 12446672	Standard	NM_018371		Approved	CSGalNAcT-1, FLJ11264, ChGn	uc011kyo.2	Q8TDX6		ENST00000454498.2:c.30G>A	8.37:g.19363316C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBE4|Q6P9G6|Q8IUF9|Q9NSQ7|Q9NUM9	Silent	SNP	ENST00000454498.2	37	CCDS6010.1																																																																																				0.607	CSGALNACT1-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375204.1	NM_018371		T	19363316	C	T	19363316	2	4	664	1	0	0	0	0	0	0	0	1	3940	523	19	1		1	CSGALNACT1	8	19363316	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1859844	19363316	127000706	405	41715										
ATP6V1B2	526	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	20070346	20070346	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaccacagctgaatttctggCgtaccaatgtgagaaacatg	9	9	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:20070346C>T	ENST00000276390.2	+	9	897	c.857C>T	c.(856-858)gCg>gTg	p.A286V		NM_001693.3	NP_001684.2	P21281	VATB2_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B2	286					ATP hydrolysis coupled proton transport (GO:0015991)|cellular iron ion homeostasis (GO:0006879)|insulin receptor signaling pathway (GO:0008286)|interaction with host (GO:0051701)|phagosome maturation (GO:0090382)|proton transport (GO:0015992)|transferrin transport (GO:0033572)|transmembrane transport (GO:0055085)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal membrane (GO:0005765)|microvillus (GO:0005902)|plasma membrane (GO:0005886)|proton-transporting V-type ATPase, V1 domain (GO:0033180)|ruffle (GO:0001726)	ATP binding (GO:0005524)|hydrogen ion transmembrane transporter activity (GO:0015078)|proton-transporting ATPase activity, rotational mechanism (GO:0046961)			endometrium(1)|kidney(2)|lung(5)|prostate(1)	9				Colorectal(74;0.0535)|COAD - Colon adenocarcinoma(73;0.211)	Gallium nitrate(DB05260)	GAATTTCTGGCGTACCAATGT	0.413																																					Pancreas(119;1230 1726 3901 4036 31644)											0													193	171	179					8																	20070346		2203	4300	6503	SO:0001583	missense	526			L35249	CCDS6014.1	8p21.3	2010-04-21	2006-01-13	2002-05-10	ENSG00000147416	ENSG00000147416	3.6.3.14	"ATPases / V-type"	854	protein-coding gene	gene with protein product		606939	"ATPase, H+ transporting, lysosomal (vacuolar proton pump), beta polypeptide, 56/58kD, isoform 2", "ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B, isoform 2"	VPP3, ATP6B2		2145275, 14580332	Standard	NM_001693		Approved	VATB, Vma2, HO57	uc003wzp.3	P21281	OTTHUMG00000131073	ENST00000276390.2:c.857C>T	8.37:g.20070346C>T	ENSP00000276390:p.Ala286Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5Z3|D3DSQ5|Q14544|Q15859|Q96IR0	Missense_Mutation	SNP	ENST00000276390.2	37	CCDS6014.1	.	.	.	.	.	.	.	.	.	.	C	23.8	4.454562	0.84209	.	.	ENSG00000147416	ENST00000276390;ENST00000542368	T	0.79554	-1.28	4.9	4.9	0.64082	ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding domain (1);	0.047194	0.85682	D	0.000000	D	0.86615	0.5975	M	0.91561	3.22	0.80722	D	1	D	0.63046	0.992	P	0.45753	0.492	D	0.90445	0.4434	10	0.87932	D	0	-20.994	17.1689	0.86824	0.0:1.0:0.0:0.0	.	286	P21281	VATB2_HUMAN	V	286;160	ENSP00000276390:A286V	ENSP00000276390:A286V	A	+	2	0	ATP6V1B2	20114626	1.000000	0.71417	0.977000	0.42913	0.482000	0.33219	7.651000	0.83577	2.699000	0.92147	0.655000	0.94253	GCG		0.413	ATP6V1B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253732.1	NM_001693		T	20070346	C	T	20070346	3	4	664	1	0	0	0	0	1	0	0	0	1179	768	27	1	891	1	ATP6V1B2	8	20070346	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	707030	20070346	126293676	406	41716										
LZTS1	11178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	20110814	20110814	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccctgggtgatgttgtgggCggagcccccaaaacggcttg	16	11	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:20110814C>T	ENST00000381569.1	-	3	985	c.628G>A	c.(628-630)Gcc>Acc	p.A210T	LZTS1_ENST00000522290.1_Missense_Mutation_p.A210T|LZTS1_ENST00000265801.6_Missense_Mutation_p.A210T			Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	210					cell cycle (GO:0007049)|gene expression (GO:0010467)|innate immune response (GO:0045087)|negative regulation of macroautophagy (GO:0016242)|positive regulation of type I interferon production (GO:0032481)|regulation of dendrite morphogenesis (GO:0048814)|regulation of transcription, DNA-templated (GO:0006355)|termination of RNA polymerase III transcription (GO:0006386)|transcription elongation from RNA polymerase III promoter (GO:0006385)|transcription from RNA polymerase III promoter (GO:0006383)|transcription, DNA-templated (GO:0006351)	apical plasma membrane (GO:0016324)|cell body (GO:0044297)|cell junction (GO:0030054)|cytosol (GO:0005829)|dendritic shaft (GO:0043198)|dendritic spine (GO:0043197)|nucleoplasm (GO:0005654)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(16)|ovary(2)|skin(1)|urinary_tract(1)	29				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		ATGTTGTGGGCGGAGCCCCCA	0.622																																																0													52	56	54					8																	20110814		2203	4300	6503	SO:0001583	missense	11178			AF123659	CCDS6015.1	8p22	2012-10-05			ENSG00000061337	ENSG00000061337			13861	protein-coding gene	gene with protein product		606551	"F37/Esophageal cancer-related gene-coding leucine-zipper motif"			10097140, 17349584	Standard	NM_021020		Approved	FEZ1	uc003wzr.3	Q9Y250	OTTHUMG00000097027	ENST00000381569.1:c.628G>A	8.37:g.20110814C>T	ENSP00000370981:p.Ala210Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSQ6|Q9Y5V7|Q9Y5V8|Q9Y5V9|Q9Y5W0|Q9Y5W1|Q9Y5W2	Missense_Mutation	SNP	ENST00000381569.1	37	CCDS6015.1	.	.	.	.	.	.	.	.	.	.	C	20.9	4.065170	0.76187	.	.	ENSG00000061337	ENST00000381569;ENST00000265801;ENST00000522290;ENST00000360248	T;T;T	0.25085	2.14;2.14;1.82	5.93	5.93	0.95920	.	0.209202	0.48767	D	0.000164	T	0.38134	0.1029	L	0.29908	0.895	0.50313	D	0.999866	D;D	0.76494	0.999;0.998	D;P	0.64506	0.926;0.825	T	0.01819	-1.1267	10	0.23891	T	0.37	-32.7352	18.9076	0.92469	0.0:1.0:0.0:0.0	.	210;210	Q9Y250-4;Q9Y250	.;LZTS1_HUMAN	T	210	ENSP00000370981:A210T;ENSP00000265801:A210T;ENSP00000429263:A210T	ENSP00000265801:A210T	A	-	1	0	LZTS1	20155094	1.000000	0.71417	0.978000	0.43139	0.906000	0.53458	5.335000	0.65929	2.815000	0.96918	0.561000	0.74099	GCC		0.622	LZTS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214122.1	NM_021020		T	20110814	C	T	20110814	3	4	664	1	0	0	0	0	1	0	0	0	9145	768	27	1	1170	1	LZTS1	8	20110814	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	40468	20110814	126253208	407	41717										
XPO7	23039	hgsc.bcm.edu	37	chr8	21827087	21827087	+	Splice_Site	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggaacagcgaatagatattCgtaagtggagaattttctgt	11	4	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:21827087C>T	ENST00000252512.9	+	3	359	c.259C>T	c.(259-261)Cgg>Tgg	p.R87W	XPO7_ENST00000433566.4_Splice_Site_p.R88W|XPO7_ENST00000434536.1_Splice_Site_p.R87W|XPO7_ENST00000518017.1_3'UTR	NM_015024.4	NP_055839.3	Q9UIA9	XPO7_HUMAN	exportin 7	87	Importin N-terminal. {ECO:0000255|PROSITE-ProRule:PRU00115}.				mRNA transport (GO:0051028)|protein export from nucleus (GO:0006611)	cytoplasm (GO:0005737)|nuclear pore (GO:0005643)|nucleus (GO:0005634)	nuclear export signal receptor activity (GO:0005049)			autonomic_ganglia(1)|breast(2)|central_nervous_system(1)|endometrium(4)|kidney(4)|large_intestine(2)|lung(12)|ovary(2)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	36				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		AATAGATATTCGTAAGTGGAG	0.398																																																0													79	75	76					8																	21827087		1856	4105	5961	SO:0001630	splice_region_variant	23039			AF064729	CCDS47818.1	8p21	2011-04-13	2003-03-11	2003-03-14	ENSG00000130227	ENSG00000130227		"Exportins"	14108	protein-coding gene	gene with protein product		606140	"RAN binding protein 16"	RANBP16		11024021, 9872452	Standard	NM_015024		Approved	KIAA0745	uc003xaa.4	Q9UIA9	OTTHUMG00000163789	ENST00000252512.9:c.259+1C>T	8.37:g.21827087C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O94846|Q6PJK9|Q8NEK7	Missense_Mutation	SNP	ENST00000252512.9	37	CCDS47818.1	.	.	.	.	.	.	.	.	.	.	C	34	5.408153	0.96051	.	.	ENSG00000130227	ENST00000434536;ENST00000252512;ENST00000433566	T;T;T	0.71341	-0.56;-0.56;-0.56	5.51	5.51	0.81932	Armadillo-like helical (1);Armadillo-type fold (1);Importin-beta, N-terminal (3);	0.000000	0.85682	D	0.000000	D	0.88336	0.6409	M	0.92833	3.35	0.80722	D	1	D;P;P	0.89917	1.0;0.951;0.903	D;P;P	0.87578	0.998;0.648;0.648	D	0.89589	0.3826	10	0.52906	T	0.07	-16.741	19.3771	0.94514	0.0:1.0:0.0:0.0	.	88;87;87	E7ESC6;E9PEN8;Q9UIA9	.;.;XPO7_HUMAN	W	87;87;88	ENSP00000404853:R87W;ENSP00000252512:R87W;ENSP00000410249:R88W	ENSP00000252512:R87W	R	+	1	2	XPO7	21883033	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	7.347000	0.79356	2.753000	0.94483	0.591000	0.81541	CGG		0.398	XPO7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375494.1	NM_015024	Missense_Mutation	T	21827087	C	T	21827087	5	4	664	1	0	0	0	0	0	0	1	0	17461	898	31	1	294	1	XPO7	8	21827087	Splice_Site	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1716273	21827087	124536935	408	41718										
EPB49	2039	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr8	21924625	21924625	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acctcccccgggagcgtgagCccctcccgagattccagtgt	11	17	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:21924625C>T	ENST00000523266.1	+	3	510	c.48C>T	c.(46-48)agC>agT	p.S16S	DMTN_ENST00000358242.3_Silent_p.S16S|DMTN_ENST00000432128.1_Silent_p.S16S|DMTN_ENST00000523782.2_Intron|DMTN_ENST00000265800.5_Silent_p.S16S|DMTN_ENST00000519907.1_Silent_p.S16S|DMTN_ENST00000517600.1_Intron|DMTN_ENST00000443491.2_Intron|DMTN_ENST00000381470.3_Silent_p.S16S|DMTN_ENST00000415253.1_Silent_p.S16S	NM_001978.2	NP_001969.2	Q08495	DEMA_HUMAN	dematin actin binding protein	16					actin cytoskeleton organization (GO:0030036)|actin filament bundle assembly (GO:0051017)|actin filament capping (GO:0051693)|actin filament reorganization (GO:0090527)|calcium-mediated signaling using extracellular calcium source (GO:0035585)|calcium-mediated signaling using intracellular calcium source (GO:0035584)|cellular response to calcium ion (GO:0071277)|cellular response to cAMP (GO:0071320)|cytoskeleton organization (GO:0007010)|erythrocyte development (GO:0048821)|negative regulation of cell-substrate adhesion (GO:0010812)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|negative regulation of peptidyl-threonine phosphorylation (GO:0010801)|negative regulation of peptidyl-tyrosine phosphorylation (GO:0050732)|negative regulation of protein targeting to membrane (GO:0090315)|negative regulation of substrate adhesion-dependent cell spreading (GO:1900025)|positive regulation of blood coagulation (GO:0030194)|positive regulation of fibroblast migration (GO:0010763)|positive regulation of integrin-mediated signaling pathway (GO:2001046)|positive regulation of platelet aggregation (GO:1901731)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|positive regulation of wound healing (GO:0090303)|protein complex assembly (GO:0006461)|protein secretion by platelet (GO:0070560)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of cell shape (GO:0008360)|regulation of filopodium assembly (GO:0051489)|regulation of lamellipodium assembly (GO:0010591)	actin cytoskeleton (GO:0015629)|actin filament (GO:0005884)|cell projection membrane (GO:0031253)|cortical cytoskeleton (GO:0030863)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|platelet dense tubular network membrane (GO:0031095)|spectrin-associated cytoskeleton (GO:0014731)	actin binding (GO:0003779)|protein self-association (GO:0043621)|receptor binding (GO:0005102)|spectrin binding (GO:0030507)										GGAGCGTGAGCCCCTCCCGAG	0.721																																																0													29	30	29					8																	21924625		2200	4299	6499	SO:0001819	synonymous_variant	2039			U28389	CCDS6020.1, CCDS47820.1, CCDS47821.1	8p21.1	2013-05-03	2013-05-03	2013-05-03	ENSG00000158856	ENSG00000158856			3382	protein-coding gene	gene with protein product		125305	"erythrocyte membrane protein band 4.9 (dematin)"	EPB49		8341682, 12011427	Standard	NM_001978		Approved	DMT		Q08495	OTTHUMG00000097087	ENST00000523266.1:c.48C>T	8.37:g.21924625C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0T5|B3KP70|B3KRH3|E9PEJ0|Q13215|Q9BRE3	Silent	SNP	ENST00000523266.1	37	CCDS6020.1																																																																																				0.721	DMTN-009	PUTATIVE	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000375178.1	NM_001978		T	21924625	C	T	21924625	2	4	664	1	0	0	0	0	0	0	0	1	5161	738	26	2		2	EPB49	8	21924625	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	97538	21924625	124439397	409	41719										
HR	55806	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	21983099	21983099	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggggcaatggctcacctccGcacttgctgagagtggcagg	15	11	1	1	rs138624433		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:21983099G>A	ENST00000381418.4	-	4	3032	c.1552C>T	c.(1552-1554)Cgg>Tgg	p.R518W	HR_ENST00000312841.8_Missense_Mutation_p.R518W	NM_005144.4	NP_005135.2	O43593	HAIR_HUMAN	hair growth associated	518					negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nuclear body (GO:0016604)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|oxidoreductase activity (GO:0016491)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(12)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)	27		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		GCTCACCTCCGCACTTGCTGA	0.652																																																0								G	TRP/ARG,TRP/ARG	0,4398		0,0,2199	42	37	39		1552,1552	-0.2	0	8	dbSNP_134	39	2,8596	1.2+/-3.3	0,2,4297	yes	missense,missense	HR	NM_005144.4,NM_018411.4	101,101	0,2,6496	AA,AG,GG		0.0233,0.0,0.0154	possibly-damaging,possibly-damaging	518/1190,518/1135	21983099	2,12994	2199	4299	6498	SO:0001583	missense	55806			AF039196	CCDS6022.1, CCDS6023.1	8p12	2012-12-07	2012-12-07		ENSG00000168453	ENSG00000168453			5172	protein-coding gene	gene with protein product		602302	"hairless (mouse) homolog", "hairless homolog (mouse)"	ALUNC		10051399, 9463324	Standard	NM_018411		Approved	AU	uc003xas.3	O43593	OTTHUMG00000097089	ENST00000381418.4:c.1552C>T	8.37:g.21983099G>A	ENSP00000370826:p.Arg518Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GS30|Q96H33|Q9NPE1	Missense_Mutation	SNP	ENST00000381418.4	37	CCDS6022.1	.	.	.	.	.	.	.	.	.	.	G	14.18	2.458779	0.43634	0.0	2.33E-4	ENSG00000168453	ENST00000381418;ENST00000312841	T;T	0.75260	-0.92;-0.91	5.39	-0.245	0.13027	.	1.146510	0.06485	N	0.733587	T	0.63450	0.2512	L	0.42245	1.32	0.09310	N	1	B;B	0.14438	0.002;0.01	B;B	0.04013	0.001;0.001	T	0.53344	-0.8452	10	0.87932	D	0	.	3.3279	0.07074	0.2786:0.0:0.4001:0.3213	.	518;518	O43593-2;O43593	.;HAIR_HUMAN	W	518	ENSP00000370826:R518W;ENSP00000326765:R518W	ENSP00000326765:R518W	R	-	1	2	HR	22039044	0.000000	0.05858	0.000000	0.03702	0.376000	0.30014	0.061000	0.14366	0.045000	0.15804	0.561000	0.74099	CGG		0.652	HR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214213.1			A	21983099	G	A	21983099	3	1	664	1	0	0	0	0	1	0	0	0	7354	1086	38	1	2081	1	HR	8	21983099	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	58474	21983099	124380923	410	41720										
LGI3	203190	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	22012104	22012104	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgcgacagtcctgtgaaggCgttgtctccaatcagtgtaa	12	9	2	1	rs375380959		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:22012104C>T	ENST00000306317.2	-	3	608	c.319G>A	c.(319-321)Gcc>Acc	p.A107T	LGI3_ENST00000424267.2_Missense_Mutation_p.A107T	NM_139278.2	NP_644807.1	Q8N145	LGI3_HUMAN	leucine-rich repeat LGI family, member 3	107					exocytosis (GO:0006887)|regulation of exocytosis (GO:0017157)	cell junction (GO:0030054)|extracellular region (GO:0005576)|neuron projection (GO:0043005)|synaptic vesicle (GO:0008021)	catalytic activity (GO:0003824)			endometrium(4)|large_intestine(3)|lung(7)|ovary(1)|upper_aerodigestive_tract(2)	17				Colorectal(74;0.00189)|COAD - Colon adenocarcinoma(73;0.0612)|READ - Rectum adenocarcinoma(644;0.0999)		CCTGTGAAGGCGTTGTCTCCA	0.582																																																0								C	THR/ALA	0,4406		0,0,2203	161	147	152		319	5.5	1	8		152	1,8599	1.2+/-3.3	0,1,4299	no	missense	LGI3	NM_139278.2	58	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	107/549	22012104	1,13005	2203	4300	6503	SO:0001583	missense	203190			AJ487518	CCDS6025.1	8p21.2	2008-07-28			ENSG00000168481	ENSG00000168481			18711	protein-coding gene	gene with protein product		608302				12023020, 18628660	Standard	NM_139278		Approved		uc003xav.3	Q8N145	OTTHUMG00000131599	ENST00000306317.2:c.319G>A	8.37:g.22012104C>T	ENSP00000302297:p.Ala107Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A5PLP2|Q86TL4|Q8N296	Missense_Mutation	SNP	ENST00000306317.2	37	CCDS6025.1	.	.	.	.	.	.	.	.	.	.	C	26.4	4.729823	0.89390	0.0	1.16E-4	ENSG00000168481	ENST00000306317;ENST00000424267;ENST00000517694	T;T;D	0.90620	0.2;0.32;-2.7	5.52	5.52	0.82312	.	0.000000	0.85682	D	0.000000	D	0.90844	0.7124	L	0.37697	1.125	0.47698	D	0.999499	D;D	0.71674	0.998;0.998	P;P	0.55749	0.783;0.783	D	0.91746	0.5408	10	0.87932	D	0	-25.6384	14.9559	0.71113	0.0:1.0:0.0:0.0	.	107;107	A5PLP2;Q8N145	.;LGI3_HUMAN	T	107;107;68	ENSP00000302297:A107T;ENSP00000399121:A107T;ENSP00000427817:A68T	ENSP00000302297:A107T	A	-	1	0	LGI3	22068049	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.399000	0.66314	2.611000	0.88343	0.655000	0.94253	GCC		0.582	LGI3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254482.1			T	22012104	C	T	22012104	3	4	664	1	0	0	0	0	1	0	0	0	8760	768	27	1	1351	1	LGI3	8	22012104	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	29005	22012104	124351918	411	41721										
LOXL2	4017	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr8	23174480	23174480	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	actttctgagcaggcaactcCggccccgtactgcactccgc	9	17	1	1	rs369018704		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:23174480C>T	ENST00000389131.3	-	9	1987	c.1618G>A	c.(1618-1620)Gga>Aga	p.G540R		NM_002318.2	NP_002309.1	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2	540	SRCR 4. {ECO:0000255|PROSITE- ProRule:PRU00196}.				aging (GO:0007568)|cell adhesion (GO:0007155)|cellular protein modification process (GO:0006464)|collagen fibril organization (GO:0030199)|endothelial cell migration (GO:0043542)|endothelial cell proliferation (GO:0001935)|epithelial to mesenchymal transition (GO:0001837)|histone modification (GO:0016570)|negative regulation of transcription, DNA-templated (GO:0045892)|oxidation-reduction process (GO:0055114)|positive regulation of chondrocyte differentiation (GO:0032332)|protein deamination (GO:0018277)|response to copper ion (GO:0046688)|response to hypoxia (GO:0001666)|sprouting angiogenesis (GO:0002040)|transcription, DNA-templated (GO:0006351)	basement membrane (GO:0005604)|chromosome (GO:0005694)|extracellular space (GO:0005615)|membrane (GO:0016020)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|electron carrier activity (GO:0009055)|methylated histone binding (GO:0035064)|oligosaccharide binding (GO:0070492)|protein-lysine 6-oxidase activity (GO:0004720)|scavenger receptor activity (GO:0005044)|transcription corepressor activity (GO:0003714)	p.G540R(1)		breast(2)|endometrium(4)|kidney(3)|large_intestine(12)|lung(5)|ovary(2)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	35		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		CAGGCAACTCCGGCCCCGTAC	0.662																																																1	Substitution - Missense(1)	lung(1)						C	ARG/GLY	1,4403	2.1+/-5.4	0,1,2201	49	44	46		1618	5.2	1	8		46	0,8600		0,0,4300	no	missense	LOXL2	NM_002318.2	125	0,1,6501	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging	540/775	23174480	1,13003	2202	4300	6502	SO:0001583	missense	4017			U89942	CCDS34864.1	8p21.3	2008-05-15				ENSG00000134013			6666	protein-coding gene	gene with protein product		606663				9722957	Standard	NM_002318		Approved	WS9-14	uc003xdh.1	Q9Y4K0		ENST00000389131.3:c.1618G>A	8.37:g.23174480C>T	ENSP00000373783:p.Gly540Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5Q0|Q53HV3|Q9BW70|Q9Y5Y8	Missense_Mutation	SNP	ENST00000389131.3	37	CCDS34864.1	.	.	.	.	.	.	.	.	.	.	C	26.7	4.762976	0.89932	2.27E-4	0.0	ENSG00000134013	ENST00000389131	T	0.39406	1.08	5.15	5.15	0.70609	Speract/scavenger receptor (2);Speract/scavenger receptor-related (2);	0.000000	0.85682	D	0.000000	T	0.77698	0.4169	H	0.97291	3.975	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.999	D	0.86093	0.1551	10	0.87932	D	0	.	17.5716	0.87935	0.0:1.0:0.0:0.0	.	540;540	B2R5Q0;Q9Y4K0	.;LOXL2_HUMAN	R	540	ENSP00000373783:G540R	ENSP00000373783:G540R	G	-	1	0	LOXL2	23230425	1.000000	0.71417	0.993000	0.49108	0.638000	0.38207	7.810000	0.86072	2.562000	0.86427	0.655000	0.94253	GGA		0.662	LOXL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375603.1			T	23174480	C	T	23174480	3	4	664	1	0	0	0	0	1	0	0	0	8907	661	23	1	730	1	LOXL2	8	23174480	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1162376	23174480	123189542	412	41722										
LOXL2	4017	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr8	23174516	23174516	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccgccctgggggcaggccaCgtcctccccgtcgtggcggc	15	18	0	0	rs145002005		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:23174516C>T	ENST00000389131.3	-	9	1951	c.1582G>A	c.(1582-1584)Gtg>Atg	p.V528M		NM_002318.2	NP_002309.1	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2	528	SRCR 4. {ECO:0000255|PROSITE- ProRule:PRU00196}.				aging (GO:0007568)|cell adhesion (GO:0007155)|cellular protein modification process (GO:0006464)|collagen fibril organization (GO:0030199)|endothelial cell migration (GO:0043542)|endothelial cell proliferation (GO:0001935)|epithelial to mesenchymal transition (GO:0001837)|histone modification (GO:0016570)|negative regulation of transcription, DNA-templated (GO:0045892)|oxidation-reduction process (GO:0055114)|positive regulation of chondrocyte differentiation (GO:0032332)|protein deamination (GO:0018277)|response to copper ion (GO:0046688)|response to hypoxia (GO:0001666)|sprouting angiogenesis (GO:0002040)|transcription, DNA-templated (GO:0006351)	basement membrane (GO:0005604)|chromosome (GO:0005694)|extracellular space (GO:0005615)|membrane (GO:0016020)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|electron carrier activity (GO:0009055)|methylated histone binding (GO:0035064)|oligosaccharide binding (GO:0070492)|protein-lysine 6-oxidase activity (GO:0004720)|scavenger receptor activity (GO:0005044)|transcription corepressor activity (GO:0003714)			breast(2)|endometrium(4)|kidney(3)|large_intestine(12)|lung(5)|ovary(2)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	35		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		GGGCAGGCCACGTCCTCCCCG	0.657																																																0								C	MET/VAL	0,4406		0,0,2203	65	56	59		1582	5.4	0.5	8	dbSNP_134	59	1,8599	1.2+/-3.3	0,1,4299	no	missense	LOXL2	NM_002318.2	21	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	528/775	23174516	1,13005	2203	4300	6503	SO:0001583	missense	4017			U89942	CCDS34864.1	8p21.3	2008-05-15				ENSG00000134013			6666	protein-coding gene	gene with protein product		606663				9722957	Standard	NM_002318		Approved	WS9-14	uc003xdh.1	Q9Y4K0		ENST00000389131.3:c.1582G>A	8.37:g.23174516C>T	ENSP00000373783:p.Val528Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5Q0|Q53HV3|Q9BW70|Q9Y5Y8	Missense_Mutation	SNP	ENST00000389131.3	37	CCDS34864.1	.	.	.	.	.	.	.	.	.	.	C	20.9	4.073941	0.76415	0.0	1.16E-4	ENSG00000134013	ENST00000389131	T	0.35605	1.3	5.39	5.39	0.77823	Speract/scavenger receptor (2);Speract/scavenger receptor-related (2);	0.170904	0.52532	D	0.000069	T	0.56277	0.1974	M	0.81341	2.54	0.38341	D	0.944073	D;D	0.60575	0.988;0.975	P;P	0.59761	0.78;0.863	T	0.64287	-0.6443	10	0.66056	D	0.02	.	11.5723	0.50841	0.0:0.9175:0.0:0.0825	.	528;528	B2R5Q0;Q9Y4K0	.;LOXL2_HUMAN	M	528	ENSP00000373783:V528M	ENSP00000373783:V528M	V	-	1	0	LOXL2	23230461	0.124000	0.22315	0.487000	0.27428	0.859000	0.49053	0.674000	0.25218	2.678000	0.91216	0.655000	0.94253	GTG		0.657	LOXL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375603.1			T	23174516	C	T	23174516	3	4	664	1	0	0	0	0	1	0	0	0	8907	536	19	1	766	1	LOXL2	8	23174516	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	36	23174516	123189506	413	41723										
NEFL	4747	broad.mit.edu	37	chr8	24813771	24813771	+	RNA	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgcgccttctcctgcgtgcGgatggacttgaggtcgttgc	14	12	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:24813771G>A	ENST00000221169.5	-	0	853				CTD-2168K21.2_ENST00000607735.1_RNA			P07196	NFL_HUMAN	neurofilament, light polypeptide						anterograde axon cargo transport (GO:0008089)|axon transport of mitochondrion (GO:0019896)|cell death (GO:0008219)|intermediate filament organization (GO:0045109)|locomotion (GO:0040011)|microtubule cytoskeleton organization (GO:0000226)|negative regulation of neuron apoptotic process (GO:0043524)|neurofilament bundle assembly (GO:0033693)|neuromuscular process controlling balance (GO:0050885)|neuron projection morphogenesis (GO:0048812)|peripheral nervous system axon regeneration (GO:0014012)|positive regulation of axonogenesis (GO:0050772)|protein polymerization (GO:0051258)|regulation of axon diameter (GO:0031133)|response to corticosterone (GO:0051412)|response to peptide hormone (GO:0043434)|response to toxic substance (GO:0009636)|retrograde axon cargo transport (GO:0008090)|synaptic transmission (GO:0007268)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|growth cone (GO:0030426)|neurofilament (GO:0005883)	identical protein binding (GO:0042802)|protein binding, bridging (GO:0030674)|protein C-terminus binding (GO:0008022)|structural constituent of cytoskeleton (GO:0005200)			central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(5)|ovary(1)|prostate(1)|skin(2)	21		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)		TCCTGCGTGCGGATGGACTTG	0.622																																																0													32	35	34					8																	24813771		2170	4271	6441			4747				CCDS75712.1	8p21.2	2014-09-17	2008-09-19		ENSG00000104725	ENSG00000277586		"Intermediate filaments type IV"	7739	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 110"	162280	"neurofilament, light polypeptide 68kDa"			17620486, 3145240	Standard	NM_006158		Approved	NFL, CMT1F, CMT2E, NF68, PPP1R110	uc003xee.4	P07196	OTTHUMG00000134284		8.37:g.24813771G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B9ZVN2|Q16154|Q8IU72	Missense_Mutation	SNP	ENST00000221169.5	37																																																																																					0.622	NEFL-001	KNOWN	sequence_error|basic	processed_transcript	processed_transcript	OTTHUMT00000258943.4	NM_006158		A	24813771	G	A	24813771	1	1	664	0	1	0	0	0	0	0	0	0	10322	1116	39	1		1	NEFL	8	24813771	RNA	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1639255	24813771	121550251	414	41724										
KCTD9	54793	broad.mit.edu	37	chr8	25296836	25296836	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttacaatgagctgtccatgaCgcaagtagttcaaaatgggt	10	7	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:25296836C>T	ENST00000221200.4	-	6	678	c.458G>A	c.(457-459)cGt>cAt	p.R153H	KCTD9_ENST00000518067.1_5'Flank	NM_017634.3	NP_060104.2	Q7L273	KCTD9_HUMAN	potassium channel tetramerization domain containing 9	153	BTB. {ECO:0000255|PROSITE- ProRule:PRU00037}.				protein homooligomerization (GO:0051260)					breast(1)|endometrium(2)|large_intestine(1)|lung(6)|pancreas(1)|prostate(1)	12		all_cancers(63;0.0164)|Ovarian(32;0.000878)|all_epithelial(46;0.00542)|Breast(100;0.0164)|Hepatocellular(4;0.114)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Epithelial(17;2.39e-12)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0438)		CTGTCCATGACGCAAGTAGTT	0.353																																																0													42	40	41					8																	25296836		2203	4300	6503	SO:0001583	missense	54793			BC021216	CCDS6048.1	8p21.1	2013-06-20	2013-06-20		ENSG00000104756	ENSG00000104756		"BTB/POZ domain containing"	22401	protein-coding gene	gene with protein product			"potassium channel tetramerisation domain containing 9"			11483580	Standard	NM_017634		Approved	FLJ20038, BTBD27	uc003xeo.3	Q7L273	OTTHUMG00000099428	ENST00000221200.4:c.458G>A	8.37:g.25296836C>T	ENSP00000221200:p.Arg153His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NUM8|Q9NXV4	Missense_Mutation	SNP	ENST00000221200.4	37	CCDS6048.1	.	.	.	.	.	.	.	.	.	.	C	21.5	4.163457	0.78226	.	.	ENSG00000104756	ENST00000221200	T	0.55760	0.5	5.61	5.61	0.85477	BTB/POZ-like (2);BTB/POZ fold (2);Potassium channel, voltage dependent, Kv, tetramerisation (1);	0.000000	0.64402	U	0.000001	D	0.85788	0.5778	H	0.99425	4.56	0.80722	D	1	D	0.76494	0.999	D	0.80764	0.994	D	0.91610	0.5302	10	0.87932	D	0	.	20.0086	0.97443	0.0:1.0:0.0:0.0	.	153	Q7L273	KCTD9_HUMAN	H	153	ENSP00000221200:R153H	ENSP00000221200:R153H	R	-	2	0	KCTD9	25352753	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.487000	0.81328	2.808000	0.96608	0.655000	0.94253	CGT		0.353	KCTD9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216890.1	NM_017634		T	25296836	C	T	25296836	3	4	664	1	0	0	0	0	1	0	0	0	8123	536	19	1	739	1	KCTD9	8	25296836	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	483065	25296836	121067186	415	41725										
CDCA2	157313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr8	25341585	25341585	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaagtgtttgatgaatctttGccagcaaatactccattgcg	9	8	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:25341585G>A	ENST00000330560.3	+	10	1701	c.1224G>A	c.(1222-1224)ttG>ttA	p.L408L	CDCA2_ENST00000521098.2_3'UTR|CDCA2_ENST00000380665.3_Silent_p.L393L	NM_152562.2	NP_689775.2	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	408					mitotic nuclear division (GO:0007067)|positive regulation of protein dephosphorylation (GO:0035307)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|nucleus (GO:0005634)				breast(3)|cervix(1)|endometrium(3)|kidney(7)|large_intestine(7)|lung(10)|ovary(1)|prostate(3)	35		all_cancers(63;0.0378)|Ovarian(32;0.000878)|all_epithelial(46;0.0162)|Breast(100;0.0164)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.022)|Epithelial(17;1.37e-11)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0443)		ATGAATCTTTGCCAGCAAATA	0.433																																																0													90	88	88					8																	25341585		2203	4300	6503	SO:0001819	synonymous_variant	157313			BG354575	CCDS6049.1	8p21.2	2014-06-12			ENSG00000184661	ENSG00000184661			14623	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 81"					12188893, 16492807	Standard	NM_152562		Approved	Repo-Man, PPP1R81	uc003xep.1	Q69YH5	OTTHUMG00000099429	ENST00000330560.3:c.1224G>A	8.37:g.25341585G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q3SX74|Q4G0W0|Q5RKN0|Q69YI4|Q6P464|Q8N7C1	Silent	SNP	ENST00000330560.3	37	CCDS6049.1																																																																																				0.433	CDCA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216891.3	NM_152562		A	25341585	G	A	25341585	2	1	664	1	0	0	0	0	0	0	0	1	3088	1310	46	2		2	CDCA2	8	25341585	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	44749	25341585	121022437	416	41726										
DPYSL2	1808	broad.mit.edu;hgsc.bcm.edu	37	chr8	26513189	26513189	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagcgtatcgtggcgcccccCggtggccgtgccaacatcac	12	17	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:26513189C>T	ENST00000311151.5	+	14	2098	c.1686C>T	c.(1684-1686)ccC>ccT	p.P562P	DPYSL2_ENST00000521913.1_Silent_p.P526P|DPYSL2_ENST00000523027.1_Silent_p.P526P	NM_001386.5	NP_001377.1	Q16555	DPYL2_HUMAN	dihydropyrimidinase-like 2	562					axon guidance (GO:0007411)|cytoskeleton organization (GO:0007010)|endocytosis (GO:0006897)|nervous system development (GO:0007399)|nucleobase-containing compound metabolic process (GO:0006139)|olfactory bulb development (GO:0021772)|positive regulation of glutamate secretion (GO:0014049)|pyrimidine nucleobase catabolic process (GO:0006208)|regulation of neuron differentiation (GO:0045664)|response to amphetamine (GO:0001975)|response to cocaine (GO:0042220)|response to drug (GO:0042493)|signal transduction (GO:0007165)|spinal cord development (GO:0021510)|synaptic vesicle transport (GO:0048489)	axon (GO:0030424)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|dendrite (GO:0030425)|extracellular vesicular exosome (GO:0070062)|growth cone (GO:0030426)|membrane (GO:0016020)|mitochondrion (GO:0005739)|neuronal cell body (GO:0043025)|protein complex (GO:0043234)	dihydropyrimidinase activity (GO:0004157)			breast(1)|endometrium(5)|large_intestine(8)|lung(3)|prostate(1)|skin(1)|stomach(1)	20		all_cancers(63;0.121)|Ovarian(32;2.68e-05)|all_epithelial(46;0.116)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;3.33e-10)|Colorectal(74;0.183)		TGGCGCCCCCCGGTGGCCGTG	0.637											OREG0018659	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													65	64	65					8																	26513189		2203	4299	6502	SO:0001819	synonymous_variant	1808			D78013	CCDS6051.1, CCDS59096.1	8p22-p21	2011-09-28			ENSG00000092964	ENSG00000092964			3014	protein-coding gene	gene with protein product		602463				8973361	Standard	NM_001197293		Approved	DRP-2, DHPRP2, CRMP2, DRP2	uc003xfa.3	Q16555	OTTHUMG00000099439	ENST00000311151.5:c.1686C>T	8.37:g.26513189C>T		Somatic	787	WXS	Illumina HiSeq	Phase_I	A8K5H2|B4DR31|D3DSS7|O00424	Silent	SNP	ENST00000311151.5	37	CCDS6051.1																																																																																				0.637	DPYSL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216904.3	NM_001386		T	26513189	C	T	26513189	2	4	664	1	0	0	0	0	0	0	0	1	4749	639	23	1		1	DPYSL2	8	26513189	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1171604	26513189	119850833	417	41727										
PBK	55872	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr8	27679912	27679912	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gatcttggctggctttatatCgttcttctattaagtcattt	7	7	4	0	rs371557868		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:27679912C>T	ENST00000301905.4	-	5	852	c.389G>A	c.(388-390)cGa>cAa	p.R130Q	PBK_ENST00000522944.1_Missense_Mutation_p.R130Q	NM_018492.2	NP_060962.2	Q96KB5	TOPK_HUMAN	PDZ binding kinase	130	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				mitotic nuclear division (GO:0007067)		ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			endometrium(1)|large_intestine(2)|lung(1)	4		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|KIRC - Kidney renal clear cell carcinoma(542;0.101)|Kidney(114;0.121)|Colorectal(74;0.141)		GGCTTTATATCGTTCTTCTAT	0.353																																																0													81	77	78					8																	27679912		2202	4300	6502	SO:0001583	missense	55872			AB027249	CCDS6063.1, CCDS64858.1	8p21.2	2009-08-06			ENSG00000168078	ENSG00000168078			18282	protein-coding gene	gene with protein product	"T-LAK cell-originated protein kinase", "cancer/testis antigen 84"	611210				10781613, 10779557	Standard	NM_018492		Approved	TOPK, FLJ14385, Nori-3, SPK, CT84	uc003xgi.3	Q96KB5	OTTHUMG00000102113	ENST00000301905.4:c.389G>A	8.37:g.27679912C>T	ENSP00000301905:p.Arg130Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DX68|D3DST2|Q9NPD9|Q9NYL7|Q9NZK6	Missense_Mutation	SNP	ENST00000301905.4	37	CCDS6063.1	.	.	.	.	.	.	.	.	.	.	C	20.4	3.989672	0.74589	.	.	ENSG00000168078	ENST00000301905;ENST00000522944	T;T	0.35236	1.32;1.32	5.22	5.22	0.72569	Serine/threonine-protein kinase-like domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.51176	0.1659	L	0.58669	1.825	0.80722	D	1	D;D	0.64830	0.994;0.985	P;P	0.58520	0.84;0.604	T	0.39272	-0.9622	10	0.30854	T	0.27	-3.5252	16.643	0.85134	0.0:1.0:0.0:0.0	.	130;130	B4DX68;Q96KB5	.;TOPK_HUMAN	Q	130	ENSP00000301905:R130Q;ENSP00000428489:R130Q	ENSP00000301905:R130Q	R	-	2	0	PBK	27735831	1.000000	0.71417	0.664000	0.29753	0.070000	0.16714	5.532000	0.67154	2.567000	0.86603	0.655000	0.94253	CGA		0.353	PBK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219952.2	NM_018492		T	27679912	C	T	27679912	3	4	664	1	0	0	0	0	1	0	0	0	11495	884	31	1	595	1	PBK	8	27679912	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1166723	27679912	118684110	418	41728										
GTF2E2	2961	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr8	30436512	30436512	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gttatgagtcttaaagcgtcGctttttctgtgaagcaggct	11	7	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:30436512G>A	ENST00000355904.4	-	8	1084	c.802C>T	c.(802-804)Cga>Tga	p.R268*		NM_002095.4	NP_002086.1	P29084	T2EB_HUMAN	general transcription factor IIE, polypeptide 2, beta 34kDa	268	Arg/Lys-rich (basic).				gene expression (GO:0010467)|regulation of transcription, DNA-templated (GO:0006355)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor TFIIE complex (GO:0005673)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			endometrium(2)|kidney(2)|large_intestine(1)|lung(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	12				KIRC - Kidney renal clear cell carcinoma(542;0.113)|Kidney(114;0.135)		TTAAAGCGTCGCTTTTTCTGT	0.453																																																0													163	156	159					8																	30436512		2203	4300	6503	SO:0001587	stop_gained	2961			BC030572	CCDS6078.1	8p12	2010-03-23	2002-08-29		ENSG00000197265	ENSG00000197265		"General transcription factors"	4651	protein-coding gene	gene with protein product		189964	"general transcription factor IIE, polypeptide 2 (beta subunit, 34kD)"			1956404	Standard	NM_002095		Approved	TFIIE-B, FE, TF2E2	uc003xig.3	P29084	OTTHUMG00000163934	ENST00000355904.4:c.802C>T	8.37:g.30436512G>A	ENSP00000348168:p.Arg268*	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSV2|Q9H2B9	Nonsense_Mutation	SNP	ENST00000355904.4	37	CCDS6078.1	.	.	.	.	.	.	.	.	.	.	G	37	6.199703	0.97371	.	.	ENSG00000197265	ENST00000355904	.	.	.	5.62	2.66	0.31614	.	0.154150	0.56097	D	0.000033	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-4.1608	6.8209	0.23857	0.0815:0.0:0.4988:0.4197	.	.	.	.	X	268	.	ENSP00000348168:R268X	R	-	1	2	GTF2E2	30556054	1.000000	0.71417	0.988000	0.46212	0.939000	0.58152	4.482000	0.60257	0.834000	0.34852	-0.182000	0.12963	CGA		0.453	GTF2E2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376459.2	NM_002095		A	30436512	G	A	30436512	4	1	664	1	0	0	0	0	0	1	0	0	6864	1095	38	1	77	1	GTF2E2	8	30436512	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2756600	30436512	115927510	419	41729										
WRN	7486	broad.mit.edu	37	chr8	30924630	30924630	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcctgaaagacaagtctatcCgctgtagcaattggagtaaa	9	8	1	2	rs375762379		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:30924630C>T	ENST00000298139.5	+	6	835	c.586C>T	c.(586-588)Cgc>Tgc	p.R196C		NM_000553.4	NP_000544.2	Q14191	WRN_HUMAN	Werner syndrome, RecQ helicase-like	196	3'-5' exonuclease.|Interaction with WRNIP1. {ECO:0000250}.				aging (GO:0007568)|ATP catabolic process (GO:0006200)|base-excision repair (GO:0006284)|cell aging (GO:0007569)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to gamma radiation (GO:0071480)|cellular response to starvation (GO:0009267)|DNA duplex unwinding (GO:0032508)|DNA metabolic process (GO:0006259)|DNA recombination (GO:0006310)|DNA replication (GO:0006260)|DNA synthesis involved in DNA repair (GO:0000731)|double-strand break repair (GO:0006302)|multicellular organismal aging (GO:0010259)|nucleic acid phosphodiester bond hydrolysis (GO:0090305)|nucleolus to nucleoplasm transport (GO:0032066)|positive regulation of hydrolase activity (GO:0051345)|regulation of apoptotic process (GO:0042981)|regulation of growth rate (GO:0040009)|replication fork processing (GO:0031297)|replicative cell aging (GO:0001302)|response to oxidative stress (GO:0006979)|response to UV-C (GO:0010225)|telomere maintenance (GO:0000723)	centrosome (GO:0005813)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)	3'-5' DNA helicase activity (GO:0043138)|3'-5' exonuclease activity (GO:0008408)|ATP binding (GO:0005524)|ATP-dependent 3'-5' DNA helicase activity (GO:0043140)|ATP-dependent DNA helicase activity (GO:0004003)|ATPase activity (GO:0016887)|bubble DNA binding (GO:0000405)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)|exonuclease activity (GO:0004527)|four-way junction helicase activity (GO:0009378)|G-quadruplex DNA binding (GO:0051880)|helicase activity (GO:0004386)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|protein complex binding (GO:0032403)|protein homodimerization activity (GO:0042803)|Y-form DNA binding (GO:0000403)			central_nervous_system(2)|endometrium(4)|kidney(4)|large_intestine(13)|lung(28)|ovary(3)|skin(3)|upper_aerodigestive_tract(3)	60		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		CAAGTCTATCCGCTGTAGCAA	0.413			"Mis, N, F, S"			"osteosarcoma, meningioma, others"		Genes defective in diseases associated with sensitivity to DNA damaging agents	Werner syndrome																												Ovarian(18;161 598 2706 14834 27543)	yes	Rec		Werner Syndrome	8	8p12-p11.2	7486	Werner syndrome (RECQL2)		"L, E, M, O"	0								C	CYS/ARG	1,4405	2.1+/-5.4	0,1,2202	93	81	85		586	5.8	1	8		85	0,8600		0,0,4300	no	missense	WRN	NM_000553.4	180	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging	196/1433	30924630	1,13005	2203	4300	6503	SO:0001583	missense	7486	Familial Cancer Database	WS, Adult Progeria		CCDS6082.1	8p12	2014-09-17	2009-03-19		ENSG00000165392	ENSG00000165392			12791	protein-coding gene	gene with protein product		604611	"Werner syndrome"			9288107	Standard	NM_000553		Approved	RECQL2, RECQ3	uc003xio.4	Q14191	OTTHUMG00000163894	ENST00000298139.5:c.586C>T	8.37:g.30924630C>T	ENSP00000298139:p.Arg196Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A1KYY9	Missense_Mutation	SNP	ENST00000298139.5	37	CCDS6082.1	.	.	.	.	.	.	.	.	.	.	C	28.1	4.886939	0.91814	2.27E-4	0.0	ENSG00000165392	ENST00000298139	T	0.63913	-0.07	5.82	5.82	0.92795	-5&apos (2);Ribonuclease H-like (1); exonuclease (2);3&apos (2);	0.056461	0.64402	N	0.000001	D	0.85444	0.5698	M	0.93638	3.44	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.88398	0.3013	10	0.87932	D	0	-10.7416	19.6956	0.96023	0.0:1.0:0.0:0.0	.	196	Q14191	WRN_HUMAN	C	196	ENSP00000298139:R196C	ENSP00000298139:R196C	R	+	1	0	WRN	31044172	1.000000	0.71417	0.992000	0.48379	0.966000	0.64601	6.162000	0.71874	2.757000	0.94681	0.561000	0.74099	CGC		0.413	WRN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376248.1			T	30924630	C	T	30924630	3	4	664	1	0	0	0	0	1	0	0	0	17414	652	23	1	604	1	WRN	8	30924630	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	488118	30924630	115439392	420	41730										
BRF2	55290	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	37706116	37706116	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	taaaaggtcaattctcacctCgttgctggctgcgactaact	8	11	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:37706116C>T	ENST00000220659.6	-	2	332	c.212G>A	c.(211-213)cGa>cAa	p.R71Q	BRF2_ENST00000520601.1_Missense_Mutation_p.R71Q|BRF2_ENST00000521170.1_Missense_Mutation_p.R71Q	NM_018310.3	NP_060780.2	P47974	TISD_HUMAN	BRF2, RNA polymerase III transcription initiation factor 50 kDa subunit	0					cell proliferation (GO:0008283)|definitive hemopoiesis (GO:0060216)|hemopoiesis (GO:0030097)|mRNA catabolic process (GO:0006402)|negative regulation of stem cell differentiation (GO:2000737)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|regulation of mRNA stability (GO:0043488)|regulation of transcription, DNA-templated (GO:0006355)|somatic stem cell division (GO:0048103)|somatic stem cell maintenance (GO:0035019)|T cell differentiation in thymus (GO:0033077)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	AU-rich element binding (GO:0017091)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)|mRNA 3'-UTR AU-rich region binding (GO:0035925)|poly(A) RNA binding (GO:0044822)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(1)|large_intestine(3)|liver(1)|lung(5)|ovary(1)	12		Lung NSC(58;0.118)|all_lung(54;0.195)	BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;1.81e-10)			ATTCTCACCTCGTTGCTGGCT	0.453																																																0													272	230	245					8																	37706116		2203	4300	6503	SO:0001583	missense	55290			AF298153	CCDS6098.1	8p11.23	2013-05-29	2013-05-29		ENSG00000104221	ENSG00000104221			17298	protein-coding gene	gene with protein product		607013	"BRF2, subunit of RNA polymerase III transcription initiation factor, BRF1-like"			11483580, 11564744	Standard	NM_018310		Approved	FLJ11052, BRFU, TFIIIB50	uc003xkk.3	Q9HAW0	OTTHUMG00000164025	ENST00000220659.6:c.212G>A	8.37:g.37706116C>T	ENSP00000220659:p.Arg71Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q53TB4|Q9BSJ3	Missense_Mutation	SNP	ENST00000220659.6	37	CCDS6098.1	.	.	.	.	.	.	.	.	.	.	C	23.1	4.380363	0.82682	.	.	ENSG00000104221	ENST00000220659;ENST00000545765;ENST00000520601;ENST00000521170	.	.	.	5.91	4.14	0.48551	Cyclin-like (2);	0.262213	0.33813	N	0.004522	T	0.64000	0.2559	L	0.56769	1.78	0.37519	D	0.917441	D	0.76494	0.999	P	0.57548	0.823	T	0.65055	-0.6261	9	0.31617	T	0.26	.	10.1671	0.42886	0.0:0.845:0.0:0.155	.	71	Q9HAW0	BRF2_HUMAN	Q	71;48;71;71	.	ENSP00000220659:R71Q	R	-	2	0	BRF2	37825274	1.000000	0.71417	0.999000	0.59377	0.913000	0.54294	2.576000	0.46033	0.855000	0.35359	-0.136000	0.14681	CGA		0.453	BRF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376811.2	NM_018310		T	37706116	C	T	37706116	3	4	664	1	0	0	0	0	1	0	0	0	1513	884	31	1	1059	1	BRF2	8	37706116	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	6781486	37706116	108657906	421	41731										
AP3M2	10947	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr8	42015607	42015607	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaagcctcctaccatccttcGaacggttgtcaacaccatca	5	15	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:42015607G>A	ENST00000518421.1	+	4	713	c.422G>A	c.(421-423)cGa>cAa	p.R141Q	AP3M2_ENST00000396926.3_Missense_Mutation_p.R141Q|AP3M2_ENST00000520685.1_Intron|AP3M2_ENST00000174653.3_Missense_Mutation_p.R141Q|AP3M2_ENST00000517922.1_Missense_Mutation_p.R141Q	NM_001134296.1	NP_001127768.1	P53677	AP3M2_HUMAN	adaptor-related protein complex 3, mu 2 subunit	141					anterograde axon cargo transport (GO:0008089)|anterograde synaptic vesicle transport (GO:0048490)|intracellular protein transport (GO:0006886)	AP-type membrane coat adaptor complex (GO:0030119)|clathrin adaptor complex (GO:0030131)|cytoplasmic vesicle (GO:0031410)|Golgi apparatus (GO:0005794)		p.R141Q(1)		endometrium(3)|kidney(1)|large_intestine(1)|lung(10)|prostate(1)|stomach(1)	17	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)			ACCATCCTTCGAACGGTTGTC	0.468																																																1	Substitution - Missense(1)	large_intestine(1)											111	103	106					8																	42015607		2203	4300	6503	SO:0001583	missense	10947			D38293	CCDS6125.1	8p11.2	2008-07-07			ENSG00000070718	ENSG00000070718			570	protein-coding gene	gene with protein product		610469				7601449	Standard	NM_006803		Approved	CLA20, AP47B	uc003xoo.3	P53677	OTTHUMG00000164060	ENST00000518421.1:c.422G>A	8.37:g.42015607G>A	ENSP00000428787:p.Arg141Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCR0|D3DSY2|Q7Z472	Missense_Mutation	SNP	ENST00000518421.1	37	CCDS6125.1	.	.	.	.	.	.	.	.	.	.	G	24.5	4.535738	0.85812	.	.	ENSG00000070718	ENST00000518421;ENST00000174653;ENST00000396926;ENST00000521280;ENST00000517922;ENST00000517499	T;T;T;T;T	0.76448	-1.02;-1.02;-1.02;-0.99;-1.01	4.79	4.79	0.61399	Longin-like (1);	0.000000	0.85682	D	0.000000	T	0.71484	0.3345	L	0.52126	1.63	0.80722	D	1	B;P	0.48294	0.403;0.908	B;B	0.36378	0.042;0.223	T	0.76208	-0.3043	10	0.46703	T	0.11	-10.2754	18.2325	0.89938	0.0:0.0:1.0:0.0	.	141;141	E7ER80;P53677	.;AP3M2_HUMAN	Q	141;141;141;26;141;50	ENSP00000428787:R141Q;ENSP00000174653:R141Q;ENSP00000380132:R141Q;ENSP00000430616:R26Q;ENSP00000429435:R141Q	ENSP00000174653:R141Q	R	+	2	0	AP3M2	42134764	1.000000	0.71417	0.906000	0.35671	0.970000	0.65996	9.330000	0.96422	2.363000	0.80096	0.650000	0.86243	CGA		0.468	AP3M2-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376996.1			A	42015607	G	A	42015607	3	1	664	1	0	0	0	0	1	0	0	0	748	1058	37	1	428	1	AP3M2	8	42015607	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4309491	42015607	104348415	422	41732										
IKBKB	3551	broad.mit.edu;hgsc.bcm.edu	37	chr8	42179650	42179650	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagcttcgagaagaaagtgcGagtgatctatacgcagctca	12	8	2	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:42179650G>A	ENST00000520810.1	+	18	2003	c.1817G>A	c.(1816-1818)cGa>cAa	p.R606Q	IKBKB_ENST00000379708.3_Missense_Mutation_p.R383Q|IKBKB_ENST00000522147.1_Intron|IKBKB_ENST00000520835.1_Missense_Mutation_p.R604Q|IKBKB_ENST00000416505.2_Missense_Mutation_p.R547Q	NM_001556.2	NP_001547.1	O14920	IKKB_HUMAN	inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase beta	606					B cell homeostasis (GO:0001782)|cellular response to tumor necrosis factor (GO:0071356)|Fc-epsilon receptor signaling pathway (GO:0038095)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|I-kappaB phosphorylation (GO:0007252)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic process (GO:0043066)|neurotrophin TRK receptor signaling pathway (GO:0048011)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of cation channel activity (GO:2001259)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of sodium ion transport (GO:0010765)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of type I interferon production (GO:0032481)|protein phosphorylation (GO:0006468)|response to virus (GO:0009615)|serine phosphorylation of STAT protein (GO:0042501)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	CD40 receptor complex (GO:0035631)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|IkappaB kinase complex (GO:0008385)|nucleus (GO:0005634)	ATP binding (GO:0005524)|IkappaB kinase activity (GO:0008384)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)|scaffold protein binding (GO:0097110)			breast(4)|lung(1)|ovary(2)|skin(1)	8	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;6.21e-12)|Lung NSC(13;1.04e-10)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;1.37e-10)|Colorectal(10;0.00102)|OV - Ovarian serous cystadenocarcinoma(14;0.00168)|Lung(22;0.00467)|LUSC - Lung squamous cell carcinoma(45;0.024)|COAD - Colon adenocarcinoma(11;0.0264)		Acetylcysteine(DB06151)|Acetylsalicylic acid(DB00945)|Arsenic trioxide(DB01169)|Auranofin(DB00995)|Mesalazine(DB00244)|Sulfasalazine(DB00795)	AAGAAAGTGCGAGTGATCTAT	0.552																																																0													96	96	96					8																	42179650		2203	4300	6503	SO:0001583	missense	3551			AF029684	CCDS6128.1, CCDS55228.1, CCDS56535.1	8p11.2	2008-08-18			ENSG00000104365	ENSG00000104365			5960	protein-coding gene	gene with protein product		603258				9878263, 9763654	Standard	NM_001556		Approved	IKK2, NFKBIKB, IKK-beta, IKKB	uc003xow.2	O14920	OTTHUMG00000164092	ENST00000520810.1:c.1817G>A	8.37:g.42179650G>A	ENSP00000430684:p.Arg606Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ30|B4E0U4|O75327	Missense_Mutation	SNP	ENST00000520810.1	37	CCDS6128.1	.	.	.	.	.	.	.	.	.	.	G	15.31	2.795081	0.50208	.	.	ENSG00000104365	ENST00000520810;ENST00000416505;ENST00000520835;ENST00000379708	T;T;T;T	0.22336	1.96;1.96;1.96;1.96	5.61	4.74	0.60224	.	0.258863	0.31404	N	0.007712	T	0.29652	0.0740	L	0.53249	1.67	0.37206	D	0.90459	D;P;D;P	0.76494	0.998;0.723;0.999;0.602	P;B;P;B	0.55011	0.652;0.146;0.766;0.069	T	0.20240	-1.0281	10	0.26408	T	0.33	.	9.0543	0.36397	0.0747:0.0:0.779:0.1464	.	547;604;383;606	B4E0U4;O14920-2;B3KRB7;O14920	.;.;.;IKKB_HUMAN	Q	606;547;604;383	ENSP00000430684:R606Q;ENSP00000404920:R547Q;ENSP00000430868:R604Q;ENSP00000369030:R383Q	ENSP00000369030:R383Q	R	+	2	0	IKBKB	42298807	0.977000	0.34250	0.988000	0.46212	0.987000	0.75469	3.596000	0.54024	1.370000	0.46153	0.655000	0.94253	CGA		0.552	IKBKB-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377214.1			A	42179650	G	A	42179650	3	1	664	1	0	0	0	0	1	0	0	0	7618	1058	37	1	1883	1	IKBKB	8	42179650	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	164043	42179650	104184372	423	41733										
SLC20A2	6575	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	42296994	42296994	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagcccgagggtggctgcccGcagaagtgccttccgaggtc	15	14	0	1	rs200267443		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:42296994G>A	ENST00000342228.3	-	7	1277	c.908C>T	c.(907-909)gCg>gTg	p.A303V	SLC20A2_ENST00000520262.1_Missense_Mutation_p.A303V|SLC20A2_ENST00000520179.1_Missense_Mutation_p.A303V	NM_006749.4	NP_006740.1	Q08357	S20A2_HUMAN	solute carrier family 20 (phosphate transporter), member 2	303					ion transport (GO:0006811)|phosphate ion transmembrane transport (GO:0035435)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)|transport (GO:0006810)|viral process (GO:0016032)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	inorganic phosphate transmembrane transporter activity (GO:0005315)|receptor activity (GO:0004872)|sodium:phosphate symporter activity (GO:0005436)|virus receptor activity (GO:0001618)			breast(1)|endometrium(6)|large_intestine(5)|lung(9)|ovary(3)|prostate(1)|stomach(1)	26	all_lung(13;8.33e-12)|Lung NSC(13;1.41e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;5.73e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00419)|Lung(22;0.0302)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GTGGCTGCCCGCAGAAGTGCC	0.607																																																0													84	79	81					8																	42296994		2203	4300	6503	SO:0001583	missense	6575				CCDS6132.1	8p11.21	2013-05-22			ENSG00000168575	ENSG00000168575		"Solute carriers"	10947	protein-coding gene	gene with protein product		158378		MLVAR, GLVR2		7745689, 16790504	Standard	NM_001257180		Approved	PiT-2, Glvr-2	uc010lxm.4	Q08357	OTTHUMG00000164169	ENST00000342228.3:c.908C>T	8.37:g.42296994G>A	ENSP00000340465:p.Ala303Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000342228.3	37	CCDS6132.1	.	.	.	.	.	.	.	.	.	.	G	12.19	1.863931	0.32884	.	.	ENSG00000168575	ENST00000342228;ENST00000520262;ENST00000520179	D;D;D	0.90385	-2.66;-2.66;-2.66	5.79	-7.61	0.01299	.	1.703850	0.02716	N	0.113497	T	0.77110	0.4082	N	0.12637	0.245	0.09310	N	1	B	0.06786	0.001	B	0.12837	0.008	T	0.65487	-0.6156	10	0.28530	T	0.3	-0.0518	3.4171	0.07380	0.5448:0.0863:0.2283:0.1405	.	303	Q08357	S20A2_HUMAN	V	303	ENSP00000340465:A303V;ENSP00000429754:A303V;ENSP00000429712:A303V	ENSP00000340465:A303V	A	-	2	0	SLC20A2	42416151	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	0.032000	0.13732	-1.243000	0.02519	-0.781000	0.03364	GCG		0.607	SLC20A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377578.1			A	42296994	G	A	42296994	3	1	664	1	0	0	0	0	1	0	0	0	14452	1087	38	1	1070	1	SLC20A2	8	42296994	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	117344	42296994	104067028	424	41734										
HOOK3	84376	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr8	42873507	42873507	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttttaatgttgcagggaatgAccctgcataaaaaggcagct	10	7	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:42873507A>G	ENST00000307602.4	+	22	2223	c.2023A>G	c.(2023-2025)Acc>Gcc	p.T675A	RP11-598P20.5_ENST00000534420.1_5'Flank	NM_032410.3	NP_115786.1	Q86VS8	HOOK3_HUMAN	hook microtubule-tethering protein 3	675	Required for association with Golgi.|Required for interaction with MSR1.				cytoplasmic microtubule organization (GO:0031122)|early endosome to late endosome transport (GO:0045022)|endosome organization (GO:0007032)|endosome to lysosome transport (GO:0008333)|Golgi localization (GO:0051645)|interkinetic nuclear migration (GO:0022027)|lysosome organization (GO:0007040)|microtubule anchoring at centrosome (GO:0034454)|negative regulation of neurogenesis (GO:0050768)|neuronal stem cell maintenance (GO:0097150)|protein localization to centrosome (GO:0071539)|protein transport (GO:0015031)	centriolar satellite (GO:0034451)|centrosome (GO:0005813)|cis-Golgi network (GO:0005801)|cytoplasm (GO:0005737)|FHF complex (GO:0070695)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|microtubule organizing center (GO:0005815)|pericentriolar material (GO:0000242)	identical protein binding (GO:0042802)|microtubule binding (GO:0008017)			NS(1)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(10)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	31	Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.000105)|Lung NSC(58;0.000419)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			GCAGGGAATGACCCTGCATAA	0.413			T	RET	papillary thyroid																																		Dom	yes		8	8p11.21	84376	hook homolog 3		E	0													65	64	64					8																	42873507		2203	4300	6503	SO:0001583	missense	84376			AK090540	CCDS6139.1	8p11.21	2013-08-21	2013-08-21		ENSG00000168172	ENSG00000168172			23576	protein-coding gene	gene with protein product		607825	"hook homolog 3 (Drosophila)"			9927460	Standard	NM_032410		Approved	HK3	uc003xpr.3	Q86VS8	OTTHUMG00000165278	ENST00000307602.4:c.2023A>G	8.37:g.42873507A>G	ENSP00000305699:p.Thr675Ala	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSY8|Q8NBH0|Q9BY13	Missense_Mutation	SNP	ENST00000307602.4	37	CCDS6139.1	.	.	.	.	.	.	.	.	.	.	A	0.531	-0.857910	0.02610	.	.	ENSG00000168172	ENST00000307602;ENST00000533539	T;T	0.16073	2.37;2.37	5.96	5.96	0.96718	.	0.183353	0.64402	D	0.000013	T	0.10723	0.0262	N	0.14661	0.345	0.43010	D	0.994546	B	0.12630	0.006	B	0.15052	0.012	T	0.12682	-1.0538	10	0.07644	T	0.81	-6.63	16.4484	0.83959	1.0:0.0:0.0:0.0	.	675	Q86VS8	HOOK3_HUMAN	A	675;153	ENSP00000305699:T675A;ENSP00000433953:T153A	ENSP00000305699:T675A	T	+	1	0	HOOK3	42992664	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	4.429000	0.59901	2.285000	0.76669	0.533000	0.62120	ACC		0.413	HOOK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383172.2	NM_032410		G	42873507	A	G	42873507	3	3	664	1	0	0	0	0	1	0	0	0	7291	275	10	3	2109	3	HOOK3	8	42873507	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	576513	42873507	103490515	425	41735										
HGSNAT	138050	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	43052122	43052122	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	actattgtattacaaggctcGgaccaaagacatcctgattc	7	10	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:43052122G>A	ENST00000458501.2	+	15	1580	c.1580G>A	c.(1579-1581)cGg>cAg	p.R527Q	HGSNAT_ENST00000521576.1_Missense_Mutation_p.R216Q|HGSNAT_ENST00000379644.4_Missense_Mutation_p.R499Q|HGSNAT_ENST00000297798.7_Missense_Mutation_p.R231Q			Q68CP4	HGNAT_HUMAN	heparan-alpha-glucosaminide N-acetyltransferase	527					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|lysosomal transport (GO:0007041)|protein oligomerization (GO:0051259)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)	heparan-alpha-glucosaminide N-acetyltransferase activity (GO:0015019)|transferase activity, transferring acyl groups (GO:0016746)			cervix(1)|endometrium(2)|large_intestine(4)|lung(6)	13	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)			TACAAGGCTCGGACCAAAGAC	0.373																																																0													99	101	100					8																	43052122		1876	4112	5988	SO:0001583	missense	138050				CCDS47852.1	8p11.1	2011-11-16	2006-09-05	2006-08-16	ENSG00000165102	ENSG00000165102	2.3.1.78		26527	protein-coding gene	gene with protein product		610453	"transmembrane protein 76"	TMEM76		17033958, 16960811	Standard	NM_152419		Approved	FLJ32731, HGNAT	uc003xpx.4	Q68CP4	OTTHUMG00000164102	ENST00000458501.2:c.1580G>A	8.37:g.43052122G>A	ENSP00000389524:p.Arg527Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2V0	Missense_Mutation	SNP	ENST00000458501.2	37		.	.	.	.	.	.	.	.	.	.	G	0.010	-1.751718	0.00663	.	.	ENSG00000165102	ENST00000458501;ENST00000379644;ENST00000521576;ENST00000297798	D;D;D;D	0.87491	-2.26;-2.26;-2.26;-2.26	5.26	1.18	0.20946	.	0.788509	0.11879	N	0.520667	T	0.59569	0.2203	N	0.00621	-1.32	0.09310	N	1	B	0.11235	0.004	B	0.01281	0.0	T	0.51795	-0.8660	10	0.08381	T	0.77	-1.9362	7.8652	0.29533	0.6653:0.0:0.3347:0.0	.	527	Q68CP4	HGNAT_HUMAN	Q	527;499;216;231	ENSP00000389524:R527Q;ENSP00000368965:R499Q;ENSP00000429029:R216Q;ENSP00000297798:R231Q	ENSP00000297798:R231Q	R	+	2	0	HGSNAT	43171279	0.990000	0.36364	0.946000	0.38457	0.021000	0.10359	0.726000	0.25984	-0.117000	0.11872	-1.851000	0.00568	CGG		0.373	HGSNAT-202	KNOWN	basic	protein_coding	protein_coding		XM_372038		A	43052122	G	A	43052122	3	1	664	1	0	0	0	0	1	0	0	0	7095	1116	39	1	1554	1	HGSNAT	8	43052122	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	178615	43052122	103311900	426	41736										
OPRK1	4986	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	54147439	54147439	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcggaagtccaaagccttcaCggggtggcacacggcaatgt	14	11	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:54147439C>T	ENST00000265572.3	-	3	787	c.490G>A	c.(490-492)Gtg>Atg	p.V164M	OPRK1_ENST00000520287.1_Missense_Mutation_p.V164M|OPRK1_ENST00000524278.1_Missense_Mutation_p.V75M|RP11-162D9.3_ENST00000524425.1_RNA	NM_000912.3	NP_000903.2	P41145	OPRK_HUMAN	opioid receptor, kappa 1	164					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|adenylate cyclase-inhibiting opioid receptor signaling pathway (GO:0031635)|behavior (GO:0007610)|defense response to virus (GO:0051607)|immune response (GO:0006955)|locomotory behavior (GO:0007626)|opioid receptor signaling pathway (GO:0038003)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|regulation of saliva secretion (GO:0046877)|sensory perception (GO:0007600)|sensory perception of pain (GO:0019233)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	dynorphin receptor activity (GO:0038048)|opioid receptor activity (GO:0004985)			NS(2)|breast(3)|endometrium(3)|kidney(12)|large_intestine(7)|lung(8)|ovary(1)|prostate(1)|skin(5)|urinary_tract(1)	43		all_epithelial(80;0.066)|Lung NSC(129;0.0804)|all_lung(136;0.136)			Alvimopan(DB06274)|Amitriptyline(DB00321)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dextromethorphan(DB00514)|Dextropropoxyphene(DB00647)|Dezocine(DB01209)|Fentanyl(DB00813)|Heroin(DB01452)|Hydromorphone(DB00327)|Ketamine(DB01221)|Ketobemidone(DB06738)|Levorphanol(DB00854)|Loperamide(DB00836)|Menthol(DB00825)|Methylnaltrexone(DB06800)|Mianserin(DB06148)|Mirtazapine(DB00370)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pentazocine(DB00652)|Pethidine(DB00454)|Progesterone(DB00396)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tapentadol(DB06204)|Tramadol(DB00193)	AAAGCCTTCACGGGGTGGCAC	0.488																																																0													116	95	102					8																	54147439		2203	4300	6503	SO:0001583	missense	4986				CCDS6152.1, CCDS64895.1	8q11.2	2014-05-21			ENSG00000082556	ENSG00000082556		"GPCR / Class A : Opioid receptors"	8154	protein-coding gene	gene with protein product		165196				8188308	Standard	XM_005251252		Approved	KOR, OPRK	uc003xri.1	P41145	OTTHUMG00000164276	ENST00000265572.3:c.490G>A	8.37:g.54147439C>T	ENSP00000265572:p.Val164Met	Somatic		WXS	Illumina HiSeq	Phase_I	E5RHC9|Q499G4	Missense_Mutation	SNP	ENST00000265572.3	37	CCDS6152.1	.	.	.	.	.	.	.	.	.	.	C	24.7	4.559329	0.86335	.	.	ENSG00000082556	ENST00000265572;ENST00000524278;ENST00000520287;ENST00000396798	T;T;T	0.20463	2.07;2.07;2.07	5.95	5.95	0.96441	GPCR, rhodopsin-like superfamily (1);	0.051660	0.85682	D	0.000000	T	0.49847	0.1581	M	0.73217	2.22	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.42430	-0.9452	10	0.66056	D	0.02	.	20.3732	0.98896	0.0:1.0:0.0:0.0	.	164	P41145	OPRK_HUMAN	M	164;75;164;150	ENSP00000265572:V164M;ENSP00000430923:V75M;ENSP00000429706:V164M	ENSP00000265572:V164M	V	-	1	0	OPRK1	54309992	1.000000	0.71417	0.988000	0.46212	0.995000	0.86356	5.936000	0.70153	2.809000	0.96659	0.650000	0.86243	GTG		0.488	OPRK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378048.1			T	54147439	C	T	54147439	3	4	664	1	0	0	0	0	1	0	0	0	10892	536	19	1	660	1	OPRK1	8	54147439	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	11095317	54147439	92216583	427	41737										
NSMAF	8439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	59499082	59499082	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tctggtgcattaaggtggccGttgtgaggtcccaaatattc	12	8	1	1	rs138530641		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:59499082G>A	ENST00000038176.3	-	28	2593	c.2381C>T	c.(2380-2382)aCg>aTg	p.T794M	NSMAF_ENST00000427130.2_Missense_Mutation_p.T825M	NM_003580.3	NP_003571.2	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation associated factor	794					ceramide metabolic process (GO:0006672)|intracellular signal transduction (GO:0035556)|positive regulation of apoptotic process (GO:0043065)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)	receptor signaling protein activity (GO:0005057)|sphingomyelin phosphodiesterase activator activity (GO:0016230)			autonomic_ganglia(1)|central_nervous_system(1)|endometrium(7)|kidney(3)|large_intestine(7)|lung(11)|ovary(1)|pancreas(1)|prostate(2)|skin(3)|urinary_tract(1)	38		all_lung(136;0.174)|Lung NSC(129;0.2)				TAAGGTGGCCGTTGTGAGGTC	0.408																																																0													207	179	188					8																	59499082		2203	4300	6503	SO:0001583	missense	8439			X96586	CCDS6173.1, CCDS47864.1	8q12-q13	2013-01-10			ENSG00000035681	ENSG00000035681		"WD repeat domain containing"	8017	protein-coding gene	gene with protein product		603043				8808629, 10640829	Standard	NM_003580		Approved	FAN	uc011lee.2	Q92636	OTTHUMG00000164352	ENST00000038176.3:c.2381C>T	8.37:g.59499082G>A	ENSP00000038176:p.Thr794Met	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFB0|E9PCH0|Q8IW26	Missense_Mutation	SNP	ENST00000038176.3	37	CCDS6173.1	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	G	19.95	3.920826	0.73213	.	.	ENSG00000035681	ENST00000038176;ENST00000427130	T;T	0.34667	1.35;1.35	5.96	5.96	0.96718	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.147538	0.64402	D	0.000007	T	0.55940	0.1952	M	0.88377	2.95	0.24266	N	0.99526	D;P	0.63046	0.992;0.916	P;B	0.47015	0.534;0.346	T	0.60464	-0.7258	9	.	.	.	.	20.4043	0.99006	0.0:0.0:1.0:0.0	.	825;794	Q92636-2;Q92636	.;FAN_HUMAN	M	794;825	ENSP00000038176:T794M;ENSP00000411012:T825M	.	T	-	2	0	NSMAF	59661636	0.998000	0.40836	0.011000	0.14972	0.610000	0.37248	8.862000	0.92283	2.823000	0.97156	0.650000	0.86243	ACG		0.408	NSMAF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378384.1	NM_003580		A	59499082	G	A	59499082	3	1	664	1	0	0	0	0	1	0	0	0	10681	1145	40	1	388	1	NSMAF	8	59499082	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5351643	59499082	86864940	428	41738										
CHD7	55636	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	61766042	61766042	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggatgacgataagtcggaagAgtcttcccagcccgaaggta	13	9	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:61766042A>G	ENST00000423902.2	+	31	7237	c.6758A>G	c.(6757-6759)gAg>gGg	p.E2253G	CHD7_ENST00000524602.1_Intron	NM_017780.3	NP_060250.2	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2253	Glu-rich.				adult heart development (GO:0007512)|adult walking behavior (GO:0007628)|artery morphogenesis (GO:0048844)|blood circulation (GO:0008015)|central nervous system development (GO:0007417)|chromatin modification (GO:0016568)|cognition (GO:0050890)|cranial nerve development (GO:0021545)|embryonic hindlimb morphogenesis (GO:0035116)|epithelium development (GO:0060429)|face development (GO:0060324)|female genitalia development (GO:0030540)|genitalia development (GO:0048806)|heart morphogenesis (GO:0003007)|in utero embryonic development (GO:0001701)|inner ear morphogenesis (GO:0042472)|limb development (GO:0060173)|nose development (GO:0043584)|olfactory behavior (GO:0042048)|olfactory bulb development (GO:0021772)|olfactory nerve development (GO:0021553)|palate development (GO:0060021)|positive regulation of multicellular organism growth (GO:0040018)|regulation of growth hormone secretion (GO:0060123)|regulation of neurogenesis (GO:0050767)|regulation of transcription, DNA-templated (GO:0006355)|retina development in camera-type eye (GO:0060041)|rRNA processing (GO:0006364)|semicircular canal morphogenesis (GO:0048752)|sensory perception of sound (GO:0007605)|skeletal system development (GO:0001501)|T cell differentiation (GO:0030217)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|helicase activity (GO:0004386)			NS(1)|breast(6)|central_nervous_system(8)|cervix(2)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(16)|lung(49)|ovary(4)|pancreas(2)|prostate(4)|skin(2)|urinary_tract(3)	123		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			AAGTCGGAAGAGTCTTCCCAG	0.557																																																0													58	61	60					8																	61766042		2042	4164	6206	SO:0001583	missense	55636			AB037837	CCDS47865.1	8q12.2	2014-09-17				ENSG00000171316			20626	protein-coding gene	gene with protein product		608892	"CHARGE association"	CRG		15300250, 18834967	Standard	NM_017780		Approved	KIAA1416, FLJ20357, FLJ20361	uc003xue.3	Q9P2D1		ENST00000423902.2:c.6758A>G	8.37:g.61766042A>G	ENSP00000392028:p.Glu2253Gly	Somatic		WXS	Illumina HiSeq	Phase_I	D0VBA5|E9PNZ2|Q05DI5|Q2TAN4|Q66K35|Q7Z6C0|Q7Z7Q2|Q9NXA0|Q9NXA3	Missense_Mutation	SNP	ENST00000423902.2	37	CCDS47865.1	.	.	.	.	.	.	.	.	.	.	A	18.16	3.562718	0.65538	.	.	ENSG00000171316	ENST00000307121;ENST00000423902	T	0.74315	-0.83	5.41	5.41	0.78517	.	0.060626	0.64402	D	0.000003	T	0.66674	0.2813	L	0.40543	1.245	0.45806	D	0.998687	P	0.39480	0.675	B	0.37144	0.242	T	0.67201	-0.5730	10	0.35671	T	0.21	-23.5408	15.463	0.75373	1.0:0.0:0.0:0.0	.	2253	Q9P2D1	CHD7_HUMAN	G	2253	ENSP00000392028:E2253G	ENSP00000307304:E2253G	E	+	2	0	CHD7	61928596	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	8.393000	0.90182	2.055000	0.61198	0.533000	0.62120	GAG		0.557	CHD7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383468.2	XM_098762		G	61766042	A	G	61766042	3	3	664	1	0	0	0	0	1	0	0	0	3332	304	11	3	6876	3	CHD7	8	61766042	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	2266960	61766042	84597980	429	41739										
C8orf34	116328	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	69380981	69380981	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaggactaaaccacaaagccGtgattttgatgaattgaatc	9	7	0	4	rs142064557		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:69380981G>A	ENST00000539993.1	+	4	953	c.404G>A	c.(403-405)cGt>cAt	p.R135H	C8orf34_ENST00000349492.3_Intron|C8orf34_ENST00000518698.1_Missense_Mutation_p.R221H|C8orf34_ENST00000348340.2_Missense_Mutation_p.R135H|C8orf34_ENST00000337103.4_Missense_Mutation_p.R110H			Q49A92	CH034_HUMAN	chromosome 8 open reading frame 34	135										NS(1)|breast(2)|endometrium(3)|kidney(2)|large_intestine(9)|lung(12)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	36			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)			CCACAAAGCCGTGATTTTGAT	0.378													G|||	1	0.000199681	0.0008	0.0	5008	,	,		18960	0.0		0.0	False		,,,				2504	0.0															0								G	HIS/ARG,HIS/ARG	1,4405	2.1+/-5.4	0,1,2202	107	97	101		662,662	3.5	1	8	dbSNP_134	101	12,8586	9.1+/-34.3	0,12,4287	yes	missense,missense	C8orf34	NM_001195639.1,NM_052958.2	29,29	0,13,6489	AA,AG,GG		0.1396,0.0227,0.1	benign,benign	221/374,221/539	69380981	13,12991	2203	4299	6502	SO:0001583	missense	116328			AB056652	CCDS6203.1, CCDS6203.2	8q13	2009-10-01			ENSG00000165084	ENSG00000165084			30905	protein-coding gene	gene with protein product	"vestibule 1"						Standard	NM_052958		Approved	vest-1, VEST1	uc010lyz.3	Q49A92	OTTHUMG00000164438	ENST00000539993.1:c.404G>A	8.37:g.69380981G>A	ENSP00000438159:p.Arg135His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5X1|G3XAM6|Q8N1X0|Q8N9M7|Q8ND19|Q96Q28	Missense_Mutation	SNP	ENST00000539993.1	37		.	.	.	.	.	.	.	.	.	.	G	17.45	3.393332	0.62066	2.27E-4	0.001396	ENSG00000165084	ENST00000518698;ENST00000539993;ENST00000348340;ENST00000337103	T;T;T	0.48836	0.8;0.84;0.83	5.51	3.45	0.39498	.	0.173617	0.52532	N	0.000061	T	0.26738	0.0654	N	0.16066	0.365	0.38916	D	0.957645	B;B	0.15473	0.013;0.001	B;B	0.13407	0.009;0.001	T	0.08743	-1.0707	9	.	.	.	-7.1312	9.0069	0.36117	0.2677:0.0:0.7323:0.0	.	135;135	Q49A92;Q49A92-3	CH034_HUMAN;.	H	221;135;135;110	ENSP00000427820:R221H;ENSP00000438159:R135H;ENSP00000337174:R110H	.	R	+	2	0	C8orf34	69543535	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.461000	0.45040	1.315000	0.45114	0.591000	0.81541	CGT		0.378	C8orf34-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_052958		A	69380981	G	A	69380981	3	1	664	1	0	0	0	0	1	0	0	0	2424	1145	40	1	339	1	C8orf34	8	69380981	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	7614939	69380981	76983041	430	41740										
EYA1	2138	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr8	72129051	72129051	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cataagttagcactggttgcTgcagcaggaaagccatctgt	11	9	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:72129051T>C	ENST00000340726.3	-	14	1875	c.1236A>G	c.(1234-1236)gcA>gcG	p.A412A	EYA1_ENST00000388740.3_Silent_p.A379A|EYA1_ENST00000388742.4_Silent_p.A412A|EYA1_ENST00000303824.7_Silent_p.A406A|EYA1_ENST00000388741.2_Silent_p.A378A|EYA1_ENST00000388743.2_Silent_p.A411A|EYA1_ENST00000419131.1_Silent_p.A377A	NM_000503.4	NP_000494.2	Q99502	EYA1_HUMAN	EYA transcriptional coactivator and phosphatase 1	412					anatomical structure morphogenesis (GO:0009653)|aorta morphogenesis (GO:0035909)|branching involved in ureteric bud morphogenesis (GO:0001658)|cellular protein localization (GO:0034613)|cochlea morphogenesis (GO:0090103)|double-strand break repair (GO:0006302)|embryonic skeletal system morphogenesis (GO:0048704)|establishment of mitotic spindle orientation (GO:0000132)|establishment or maintenance of apical/basal cell polarity (GO:0035088)|histone dephosphorylation (GO:0016576)|lung epithelial cell differentiation (GO:0060487)|metanephros development (GO:0001656)|middle ear morphogenesis (GO:0042474)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|neuron fate specification (GO:0048665)|otic vesicle morphogenesis (GO:0071600)|outer ear morphogenesis (GO:0042473)|outflow tract morphogenesis (GO:0003151)|pattern specification process (GO:0007389)|pharyngeal system development (GO:0060037)|positive regulation of DNA repair (GO:0045739)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of Notch signaling pathway (GO:0045747)|positive regulation of secondary heart field cardioblast proliferation (GO:0072513)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein sumoylation (GO:0016925)|regulation of neuron differentiation (GO:0045664)|response to ionizing radiation (GO:0010212)|semicircular canal morphogenesis (GO:0048752)|sensory perception of sound (GO:0007605)|striated muscle tissue development (GO:0014706)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|protein tyrosine phosphatase activity (GO:0004725)|RNA binding (GO:0003723)			NS(2)|breast(3)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(8)|lung(15)|ovary(4)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	44	Breast(64;0.046)		Epithelial(68;0.0837)|all cancers(69;0.247)			CACTGGTTGCTGCAGCAGGAA	0.443																																																0													129	118	122					8																	72129051		2203	4300	6503	SO:0001819	synonymous_variant	2138			AJ000098	CCDS34906.1, CCDS34907.1, CCDS47873.1, CCDS75750.1	8q13.3	2014-06-19	2014-06-19		ENSG00000104313	ENSG00000104313		"Protein tyrosine phosphatases / Asp-based PTPs"	3519	protein-coding gene	gene with protein product		601653	"eyes absent (Drosophila) homolog 1", "eyes absent homolog 1 (Drosophila)"	BOR		9020840	Standard	XM_005251184		Approved		uc003xys.4	Q99502	OTTHUMG00000149894	ENST00000340726.3:c.1236A>G	8.37:g.72129051T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NHQ0|G5E9R4|Q0P516|Q8WX80	Silent	SNP	ENST00000340726.3	37	CCDS34906.1																																																																																				0.443	EYA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000313788.2	NM_000503, NM_172060		C	72129051	T	C	72129051	2	2	664	1	0	0	0	0	0	0	0	1	5330	1567	55	3		3	EYA1	8	72129051	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	2748070	72129051	74234971	431	41741										
ZFHX4	79776	broad.mit.edu	37	chr8	77763332	77763332	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accgctctctgtttctgaccGtcatgtctacaagtatcgct	7	13	4	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:77763332G>A	ENST00000521891.2	+	10	4623	c.4175G>A	c.(4174-4176)cGt>cAt	p.R1392H	ZFHX4_ENST00000518282.1_Missense_Mutation_p.R1366H|ZFHX4_ENST00000455469.2_Missense_Mutation_p.R1347H|ZFHX4_ENST00000050961.6_Missense_Mutation_p.R1347H	NM_024721.4	NP_078997.4	Q86UP3	ZFHX4_HUMAN	zinc finger homeobox 4	1347					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|zinc ion binding (GO:0008270)	p.R1392H(1)		NS(3)|breast(11)|central_nervous_system(1)|endometrium(36)|haematopoietic_and_lymphoid_tissue(2)|kidney(15)|large_intestine(66)|liver(2)|lung(245)|ovary(11)|pancreas(3)|prostate(11)|skin(7)|upper_aerodigestive_tract(13)|urinary_tract(6)	432			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GTTTCTGACCGTCATGTCTAC	0.418										HNSCC(33;0.089)																																						1	Substitution - Missense(1)	endometrium(1)											98	92	94					8																	77763332		1890	4115	6005	SO:0001583	missense	79776				CCDS47878.1, CCDS47878.2	8q21.11	2012-07-02	2007-07-16		ENSG00000091656	ENSG00000091656		"Homeoboxes / ZF class"	30939	protein-coding gene	gene with protein product		606940	"zinc finger homeodomain 4"			10873665, 11935336	Standard	NM_024721		Approved	ZFH4, FLJ20980	uc003yau.2	Q86UP3	OTTHUMG00000164557	ENST00000521891.2:c.4175G>A	8.37:g.77763332G>A	ENSP00000430497:p.Arg1392His	Somatic		WXS	Illumina HiSeq	Phase_I	G3V138|Q18PS0|Q6ZN20	Missense_Mutation	SNP	ENST00000521891.2	37	CCDS47878.2	.	.	.	.	.	.	.	.	.	.	G	17.15	3.316211	0.60524	.	.	ENSG00000091656	ENST00000521891;ENST00000399468;ENST00000455469;ENST00000050961;ENST00000518282	T;T;T;T	0.55588	0.51;0.58;0.55;0.53	4.65	4.65	0.58169	.	0.000000	0.45361	U	0.000366	T	0.72407	0.3456	M	0.72894	2.215	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.85130	0.994;0.997;0.997	T	0.75844	-0.3174	10	0.72032	D	0.01	.	18.1305	0.89599	0.0:0.0:1.0:0.0	.	1347;1347;1392	Q86UP3;Q86UP3-4;G3V138	ZFHX4_HUMAN;.;.	H	1392;1392;1347;1347;1366	ENSP00000430497:R1392H;ENSP00000399605:R1347H;ENSP00000050961:R1347H;ENSP00000430848:R1366H	ENSP00000050961:R1347H	R	+	2	0	ZFHX4	77925887	1.000000	0.71417	1.000000	0.80357	0.960000	0.62799	9.601000	0.98297	2.593000	0.87608	0.555000	0.69702	CGT		0.418	ZFHX4-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000379197.2	NM_024721		A	77763332	G	A	77763332	3	1	664	1	0	0	0	0	1	0	0	0	17647	1145	40	1	4209	1	ZFHX4	8	77763332	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5634281	77763332	68600690	432	41742										
ZFHX4	79776	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	77775707	77775707	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tacagaatgcaattgctggtGacccagcttcctttataggc	9	10	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:77775707G>A	ENST00000521891.2	+	11	10205	c.9757G>A	c.(9757-9759)Gac>Aac	p.D3253N	ZFHX4_ENST00000518282.1_Missense_Mutation_p.D3227N|ZFHX4_ENST00000455469.2_Missense_Mutation_p.D3208N|ZFHX4_ENST00000050961.6_Missense_Mutation_p.D3204N	NM_024721.4	NP_078997.4	Q86UP3	ZFHX4_HUMAN	zinc finger homeobox 4	3204					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|zinc ion binding (GO:0008270)			NS(3)|breast(11)|central_nervous_system(1)|endometrium(36)|haematopoietic_and_lymphoid_tissue(2)|kidney(15)|large_intestine(66)|liver(2)|lung(245)|ovary(11)|pancreas(3)|prostate(11)|skin(7)|upper_aerodigestive_tract(13)|urinary_tract(6)	432			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AATTGCTGGTGACCCAGCTTC	0.458										HNSCC(33;0.089)																																						0													163	155	157					8																	77775707		1899	4122	6021	SO:0001583	missense	79776				CCDS47878.1, CCDS47878.2	8q21.11	2012-07-02	2007-07-16		ENSG00000091656	ENSG00000091656		"Homeoboxes / ZF class"	30939	protein-coding gene	gene with protein product		606940	"zinc finger homeodomain 4"			10873665, 11935336	Standard	NM_024721		Approved	ZFH4, FLJ20980	uc003yau.2	Q86UP3	OTTHUMG00000164557	ENST00000521891.2:c.9757G>A	8.37:g.77775707G>A	ENSP00000430497:p.Asp3253Asn	Somatic		WXS	Illumina HiSeq	Phase_I	G3V138|Q18PS0|Q6ZN20	Missense_Mutation	SNP	ENST00000521891.2	37	CCDS47878.2	.	.	.	.	.	.	.	.	.	.	G	15.96	2.987704	0.53934	.	.	ENSG00000091656	ENST00000521891;ENST00000399468;ENST00000455469;ENST00000050961;ENST00000518282	T;T;T;T	0.58797	0.31;0.37;0.34;0.34	4.55	4.55	0.56014	.	0.000000	0.44688	U	0.000421	T	0.75339	0.3836	M	0.72894	2.215	0.80722	D	1	D	0.71674	0.998	D	0.78314	0.991	T	0.78443	-0.2202	10	0.66056	D	0.02	.	17.8708	0.88810	0.0:0.0:1.0:0.0	.	3208	Q86UP3-4	.	N	3253;3237;3208;3204;3227	ENSP00000430497:D3253N;ENSP00000399605:D3208N;ENSP00000050961:D3204N;ENSP00000430848:D3227N	ENSP00000050961:D3204N	D	+	1	0	ZFHX4	77938262	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.715000	0.84713	2.525000	0.85131	0.561000	0.74099	GAC		0.458	ZFHX4-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000379197.2	NM_024721		A	77775707	G	A	77775707	3	1	664	1	0	0	0	0	1	0	0	0	17647	1290	45	2	9795	2	ZFHX4	8	77775707	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	12375	77775707	68588315	433	41743										
IMPA1	3612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	82571603	82571603	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	taattaatcttcgtcgtctcGttgcaaaggtataacctgaa	7	8	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:82571603G>A	ENST00000256108.5	-	9	1282	c.817C>T	c.(817-819)Cga>Tga	p.R273*	IMPA1_ENST00000523710.1_5'Flank|IMPA1_ENST00000449740.2_Nonsense_Mutation_p.R332*|IMPA1_ENST00000311489.4_3'UTR	NM_005536.3	NP_005527.1	P29218	IMPA1_HUMAN	inositol(myo)-1(or 4)-monophosphatase 1	273					inositol biosynthetic process (GO:0006021)|inositol phosphate dephosphorylation (GO:0046855)|inositol phosphate metabolic process (GO:0043647)|phosphate-containing compound metabolic process (GO:0006796)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol phosphorylation (GO:0046854)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	identical protein binding (GO:0042802)|inositol monophosphate 1-phosphatase activity (GO:0008934)|inositol monophosphate 3-phosphatase activity (GO:0052832)|inositol monophosphate 4-phosphatase activity (GO:0052833)|inositol monophosphate phosphatase activity (GO:0052834)|lithium ion binding (GO:0031403)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|protein homodimerization activity (GO:0042803)			NS(1)|cervix(1)|large_intestine(4)|lung(7)|prostate(2)|skin(2)|stomach(1)	18					Lithium(DB01356)	TCGTCGTCTCGTTGCAAAGGT	0.378																																																0													154	145	148					8																	82571603		2203	4300	6503	SO:0001587	stop_gained	3612				CCDS6231.1, CCDS47883.1, CCDS47884.1	8q21.1-q21.3	2008-01-28			ENSG00000133731	ENSG00000133731	3.1.3.25		6050	protein-coding gene	gene with protein product		602064		IMPA		1377913	Standard	NM_005536		Approved		uc011lfq.1	P29218	OTTHUMG00000164682	ENST00000256108.5:c.817C>T	8.37:g.82571603G>A	ENSP00000256108:p.Arg273*	Somatic		WXS	Illumina HiSeq	Phase_I	B2R733|B4DLN3|B7Z6Q4|J3KQT7|Q9UK71	Nonsense_Mutation	SNP	ENST00000256108.5	37	CCDS6231.1	.	.	.	.	.	.	.	.	.	.	G	14.49	2.550978	0.45383	.	.	ENSG00000133731	ENST00000256108;ENST00000449740	.	.	.	5.03	1.01	0.19927	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.37532	D	0.91796	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-12.1317	14.7679	0.69654	0.0:0.0:0.5226:0.4774	.	.	.	.	X	273;332	.	ENSP00000256108:R273X	R	-	1	2	IMPA1	82734158	0.424000	0.25490	0.965000	0.40720	0.445000	0.32107	0.749000	0.26320	0.270000	0.21984	0.643000	0.83706	CGA		0.378	IMPA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379723.1			A	82571603	G	A	82571603	4	1	664	1	0	0	0	0	0	1	0	0	7729	1153	40	1	20	1	IMPA1	8	82571603	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4795896	82571603	63792419	434	41744										
DECR1	1666	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	91029431	91029431	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttttcacctcttcaaaaagCgatgctaccacctaatagtt	4	12	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:91029431C>T	ENST00000220764.2	+	2	237	c.149C>T	c.(148-150)gCg>gTg	p.A50V	DECR1_ENST00000522161.1_Missense_Mutation_p.A41V|DECR1_ENST00000519007.1_3'UTR	NM_001359.1	NP_001350.1	Q16698	DECR_HUMAN	2,4-dienoyl CoA reductase 1, mitochondrial	50					cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation (GO:0006635)|protein homotetramerization (GO:0051289)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	2,4-dienoyl-CoA reductase (NADPH) activity (GO:0008670)|NADPH binding (GO:0070402)|oxidoreductase activity, acting on NAD(P)H (GO:0016651)			breast(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(4)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)	15			BRCA - Breast invasive adenocarcinoma(11;0.00953)			CTTCAAAAAGCGATGCTACCA	0.373																																																0													87	90	89					8																	91029431		2203	4300	6503	SO:0001583	missense	1666			L26050	CCDS6250.1	8q21.3	2011-09-14			ENSG00000104325	ENSG00000104325		"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 1"	2753	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 18C, member 1"	222745		DECR		7818482, 19027726	Standard	NM_001359		Approved	SDR18C1	uc003yek.1	Q16698	OTTHUMG00000163829	ENST00000220764.2:c.149C>T	8.37:g.91029431C>T	ENSP00000220764:p.Ala50Val	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6B8|Q2M304|Q93085	Missense_Mutation	SNP	ENST00000220764.2	37	CCDS6250.1	.	.	.	.	.	.	.	.	.	.	C	16.24	3.066121	0.55539	.	.	ENSG00000104325	ENST00000220764;ENST00000519410;ENST00000522161;ENST00000517761	D;D;D;D	0.85484	-1.78;-1.99;-1.89;-1.94	5.88	-1.48	0.08745	.	0.894138	0.09830	N	0.750295	T	0.61739	0.2371	N	0.02225	-0.63	0.20764	N	0.999859	B;B	0.09022	0.002;0.0	B;B	0.01281	0.0;0.0	T	0.49224	-0.8962	10	0.07813	T	0.8	.	11.1284	0.48333	0.0:0.3047:0.0:0.6953	.	41;50	B7Z6B8;Q16698	.;DECR_HUMAN	V	50;28;41;41	ENSP00000220764:A50V;ENSP00000430561:A28V;ENSP00000429779:A41V;ENSP00000427936:A41V	ENSP00000220764:A50V	A	+	2	0	DECR1	91098607	0.000000	0.05858	0.639000	0.29394	0.890000	0.51754	-0.171000	0.09883	-0.145000	0.11294	0.655000	0.94253	GCG		0.373	DECR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375822.1			T	91029431	C	T	91029431	3	4	664	1	0	0	0	0	1	0	0	0	4384	768	27	1	155	1	DECR1	8	91029431	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	8457828	91029431	55334591	435	41745										
KIAA1429	25962	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	95541376	95541376	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aatactgtctactgttcgtcGatcatcctcatcctcatcct	4	14	4	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:95541376G>A	ENST00000297591.5	-	7	877	c.802C>T	c.(802-804)Cga>Tga	p.R268*	KIAA1429_ENST00000437199.1_Nonsense_Mutation_p.R268*|KIAA1429_ENST00000421249.2_Nonsense_Mutation_p.R268*	NM_015496.4	NP_056311.2	Q69YN4	VIR_HUMAN	KIAA1429	268	Glu-rich.				mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(4)|kidney(5)|large_intestine(16)|lung(28)|ovary(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	66	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			ACTGTTCGTCGATCATCCTCA	0.438																																																0													481	365	404					8																	95541376		2203	4300	6503	SO:0001587	stop_gained	25962			AB037850	CCDS34923.1, CCDS47894.1	8q22.1	2008-11-25			ENSG00000164944	ENSG00000164944			24500	protein-coding gene	gene with protein product	"functional spliceosome-associated protein 121"					10718198	Standard	NM_015496		Approved	DKFZP434I116, fSAP121	uc003ygo.2	Q69YN4	OTTHUMG00000164426	ENST00000297591.5:c.802C>T	8.37:g.95541376G>A	ENSP00000297591:p.Arg268*	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M1N0|Q6AHX9|Q6NT78|Q7Z6C7|Q8IXH4|Q9BTH4|Q9H9C9|Q9NWR3|Q9P2B8|Q9UFW1	Nonsense_Mutation	SNP	ENST00000297591.5	37	CCDS34923.1	.	.	.	.	.	.	.	.	.	.	G	16.99	3.274705	0.59649	.	.	ENSG00000164944	ENST00000297591;ENST00000437199;ENST00000421249	.	.	.	5.23	2.08	0.27032	.	0.680837	0.15074	N	0.282015	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.15499	T	0.54	-2.3219	3.9535	0.09379	0.0992:0.3855:0.3966:0.1187	.	.	.	.	X	268	.	ENSP00000297591:R268X	R	-	1	2	KIAA1429	95610552	0.997000	0.39634	0.986000	0.45419	0.463000	0.32649	3.068000	0.50018	0.674000	0.31244	-0.230000	0.12252	CGA		0.438	KIAA1429-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378720.2	NM_015496		A	95541376	G	A	95541376	4	1	664	1	0	0	0	0	0	1	0	0	8238	1066	37	1	4762	1	KIAA1429	8	95541376	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4511945	95541376	50822646	436	41746										
MATN2	4147	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	98943420	98943420	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agcgtgctgtcaagaggatgCggcatctgtccacgggcacc	14	12	2	1	rs377009254		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:98943420C>T	ENST00000520016.1	+	2	506	c.382C>T	c.(382-384)Cgg>Tgg	p.R128W	MATN2_ENST00000521689.1_Missense_Mutation_p.R128W|MATN2_ENST00000524308.1_Missense_Mutation_p.R128W|MATN2_ENST00000254898.5_Missense_Mutation_p.R128W|MATN2_ENST00000522025.2_Intron			O00339	MATN2_HUMAN	matrilin 2	128	VWFA 1. {ECO:0000255|PROSITE- ProRule:PRU00219}.					proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)	p.R128W(1)		breast(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(17)|ovary(2)|urinary_tract(1)	31	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			CAAGAGGATGCGGCATCTGTC	0.587																																																1	Substitution - Missense(1)	large_intestine(1)						C	TRP/ARG,TRP/ARG	1,4261		0,1,2130	55	60	59		382,382	0.8	1	8		59	0,8508		0,0,4254	no	missense,missense	MATN2	NM_002380.3,NM_030583.2	101,101	0,1,6384	TT,TC,CC		0.0,0.0235,0.0078	probably-damaging,probably-damaging	128/957,128/938	98943420	1,12769	2131	4254	6385	SO:0001583	missense	4147			U69263	CCDS55264.1, CCDS55265.1	8q22.1-q22.2	2008-05-15							6908	protein-coding gene	gene with protein product		602108				9083061, 11852232	Standard	XM_005250920		Approved		uc003yic.3	O00339		ENST00000520016.1:c.382C>T	8.37:g.98943420C>T	ENSP00000430487:p.Arg128Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K106|E7EW74|E9PD48|E9PGL2|Q6UWA5|Q7Z5X1|Q8NDE6|Q96FT5|Q9NSZ1	Missense_Mutation	SNP	ENST00000520016.1	37	CCDS55264.1	.	.	.	.	.	.	.	.	.	.	C	19.44	3.827179	0.71143	2.35E-4	0.0	ENSG00000132561	ENST00000521689;ENST00000254898;ENST00000378716;ENST00000524308;ENST00000520016	T;T;T;T	0.79454	-1.27;-1.27;-1.27;-1.27	5.97	0.813	0.18749	von Willebrand factor, type A (3);	0.081678	0.51477	D	0.000095	D	0.83594	0.5288	L	0.59436	1.845	0.31865	N	0.620505	D;D;D;D	0.89917	0.999;0.998;1.0;0.999	D;D;D;P	0.64877	0.93;0.921;0.91;0.873	D	0.85514	0.1199	10	0.59425	D	0.04	-22.3411	15.5484	0.76126	0.4575:0.5425:0.0:0.0	.	128;128;128;128	E9PF03;O00339-2;O00339;Q8N2G3	.;.;MATN2_HUMAN;.	W	128	ENSP00000429977:R128W;ENSP00000254898:R128W;ENSP00000430221:R128W;ENSP00000430487:R128W	ENSP00000254898:R128W	R	+	1	2	MATN2	99012596	0.996000	0.38824	0.998000	0.56505	0.997000	0.91878	0.484000	0.22308	-0.083000	0.12618	0.655000	0.94253	CGG		0.587	MATN2-004	KNOWN	non_canonical_conserved|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000380332.1			T	98943420	C	T	98943420	3	4	664	1	0	0	0	0	1	0	0	0	9341	759	27	1	388	1	MATN2	8	98943420	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3402044	98943420	47420602	437	41747										
AZIN1	51582	broad.mit.edu;mdanderson.org	37	chr8	103848546	103848546	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagagatgcctacagttcttCagggtagtgccaaacttcat	9	9	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:103848546C>T	ENST00000337198.5	-	6	1685	c.522G>A	c.(520-522)ctG>ctA	p.L174L	AZIN1_ENST00000347770.4_Silent_p.L174L|AZIN1_ENST00000522311.1_5'UTR	NM_148174.2	NP_680479.1	O14977	AZIN1_HUMAN	antizyme inhibitor 1	174					cellular nitrogen compound metabolic process (GO:0034641)|negative regulation of catalytic activity (GO:0043086)|negative regulation of protein catabolic process (GO:0042177)|polyamine biosynthetic process (GO:0006596)|positive regulation of polyamine transmembrane transport (GO:1902269)|regulation of cellular amino acid metabolic process (GO:0006521)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|nucleus (GO:0005634)	catalytic activity (GO:0003824)|enzyme inhibitor activity (GO:0004857)|ornithine decarboxylase activator activity (GO:0042978)			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(1)|prostate(1)|skin(1)|stomach(1)	9	Lung NSC(17;0.000143)|all_lung(17;0.000294)		OV - Ovarian serous cystadenocarcinoma(57;0.000196)|STAD - Stomach adenocarcinoma(118;0.0414)			TACAGTTCTTCAGGGTAGTGC	0.393																																																0													212	195	201					8																	103848546		2203	4300	6503	SO:0001819	synonymous_variant	51582			AAC25391	CCDS6295.1	8p22-q21.3	2005-03-21	2005-03-21	2005-03-21		ENSG00000155096			16432	protein-coding gene	gene with protein product	"ornithine decarboxylase 1-like"	607909	"ornithine decarboxylase antizyme inhibitor"	OAZIN		9349715, 9110174	Standard	XM_005250969		Approved	OAZI, ODC1L	uc003yky.3	O14977		ENST00000337198.5:c.522G>A	8.37:g.103848546C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NCD5|Q6IBQ7|Q96D20	Silent	SNP	ENST00000337198.5	37	CCDS6295.1																																																																																				0.393	AZIN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380133.1			T	103848546	C	T	103848546	2	4	664	1	0	0	0	0	0	0	0	1	1242	813	29	2		2	AZIN1	8	103848546	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4905126	103848546	42515476	438	41748										
SYBU	55638	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	110587782	110587782	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcaccagattctgtggtggTggctgtcactatctcatcga	11	10	4	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:110587782T>C	ENST00000422135.1	-	8	1860	c.1345A>G	c.(1345-1347)Acc>Gcc	p.T449A	SYBU_ENST00000528647.1_Missense_Mutation_p.T448A|SYBU_ENST00000533171.1_Missense_Mutation_p.T449A|SYBU_ENST00000527707.1_5'Flank|SYBU_ENST00000446070.2_Missense_Mutation_p.T448A|SYBU_ENST00000424158.2_Missense_Mutation_p.T454A|SYBU_ENST00000440310.1_Missense_Mutation_p.T449A|SYBU_ENST00000529175.1_Missense_Mutation_p.T243A|SYBU_ENST00000533895.1_Missense_Mutation_p.T448A|SYBU_ENST00000276646.9_Missense_Mutation_p.T449A|SYBU_ENST00000433638.1_Missense_Mutation_p.T449A|SYBU_ENST00000533065.1_Missense_Mutation_p.T330A|SYBU_ENST00000532779.1_Missense_Mutation_p.T381A|SYBU_ENST00000408889.3_Missense_Mutation_p.T330A|SYBU_ENST00000528331.1_Missense_Mutation_p.T330A|SYBU_ENST00000408908.2_Missense_Mutation_p.T449A|SYBU_ENST00000399066.3_Missense_Mutation_p.T446A|SYBU_ENST00000419099.1_Missense_Mutation_p.T448A|SYBU_ENST00000529690.1_Missense_Mutation_p.T319A	NM_001099744.1	NP_001093214.1	Q9NX95	SYBU_HUMAN	syntabulin (syntaxin-interacting)	449					regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0061178)	cytoplasmic vesicle (GO:0031410)|cytoskeleton (GO:0005856)|dense body (GO:0097433)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)				NS(1)|breast(4)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(2)|lung(13)|ovary(1)|pancreas(1)|prostate(1)|urinary_tract(1)	30						TCTGTGGTGGTGGCTGTCACT	0.567																																																0													141	145	144					8																	110587782		2092	4222	6314	SO:0001583	missense	55638			AB040905	CCDS43763.1, CCDS43764.1, CCDS47912.1, CCDS55271.1	8q23.2	2010-08-27				ENSG00000147642			26011	protein-coding gene	gene with protein product	"syntaphilin-like"	611568				17611281, 16750881, 16157705, 15656992, 15459722	Standard	NM_001099743		Approved	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL	uc003ynj.4	Q9NX95		ENST00000422135.1:c.1345A>G	8.37:g.110587782T>C	ENSP00000407118:p.Thr449Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K354|B3KQX3|B3KU61|Q5R1T1|Q5R1T2|Q5R1T3|Q5Y2M6|Q8ND49|Q8TCR6|Q96D80|Q9P256	Missense_Mutation	SNP	ENST00000422135.1	37	CCDS47912.1	.	.	.	.	.	.	.	.	.	.	T	1.806	-0.475920	0.04414	.	.	ENSG00000147642	ENST00000533895;ENST00000424158;ENST00000532779;ENST00000399066;ENST00000446070;ENST00000528331;ENST00000529175;ENST00000276646;ENST00000528647;ENST00000422135;ENST00000419099;ENST00000433638;ENST00000408908;ENST00000440310;ENST00000408889;ENST00000533065;ENST00000529690;ENST00000533171	.	.	.	5.74	-5.88	0.02290	.	0.372415	0.32593	N	0.005895	T	0.19127	0.0459	N	0.12182	0.205	0.09310	N	1	B;B;B;B;B	0.16166	0.016;0.009;0.004;0.009;0.005	B;B;B;B;B	0.17722	0.007;0.007;0.019;0.016;0.016	T	0.07809	-1.0753	9	0.33141	T	0.24	-0.0912	11.2815	0.49197	0.0:0.5089:0.1016:0.3895	.	319;381;448;449;446	B7Z4D2;Q9NX95-2;Q9NX95-3;Q9NX95;Q9NX95-4	.;.;.;SYBU_HUMAN;.	A	448;454;381;446;448;330;243;449;448;449;448;449;449;449;330;330;319;449	.	ENSP00000276646:T449A	T	-	1	0	SYBU	110656958	0.683000	0.27633	0.000000	0.03702	0.009000	0.06853	0.142000	0.16096	-1.122000	0.02945	-0.326000	0.08463	ACC		0.567	SYBU-204	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000385501.1	NM_017786		C	110587782	T	C	110587782	3	2	664	1	0	0	0	0	1	0	0	0	15439	1696	59	3	650	3	SYBU	8	110587782	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	6739236	110587782	35776240	439	41749										
CSMD3	114788	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr8	113657336	113657336	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	attatttcatgaggcaaattAccttttccatgggttacatc	6	8	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:113657336A>G	ENST00000297405.5	-	20	3555		c.e20+1		CSMD3_ENST00000455883.2_Splice_Site|CSMD3_ENST00000352409.3_Splice_Site|MIR2053_ENST00000459295.1_RNA|CSMD3_ENST00000343508.3_Splice_Site	NM_198123.1	NP_937756.1	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3							integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(7)|central_nervous_system(6)|endometrium(44)|haematopoietic_and_lymphoid_tissue(8)|kidney(36)|large_intestine(72)|liver(5)|lung(389)|ovary(24)|prostate(6)|skin(23)|upper_aerodigestive_tract(19)|urinary_tract(7)	646						GAGGCAAATTACCTTTTCCAT	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)																																						0													85	85	85					8																	113657336		2203	4300	6503	SO:0001630	splice_region_variant	114788			AY210419	CCDS6315.1, CCDS6316.2, CCDS6317.1	8q23.3	2007-01-06			ENSG00000164796	ENSG00000164796			19291	protein-coding gene	gene with protein product		608399					Standard	NM_052900		Approved		uc003ynu.3	Q7Z407	OTTHUMG00000157027	ENST00000297405.5:c.3310+1T>C	8.37:g.113657336A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q96PZ3	Splice_Site	SNP	ENST00000297405.5	37	CCDS6315.1	.	.	.	.	.	.	.	.	.	.	A	13.72	2.321813	0.41096	.	.	ENSG00000164796	ENST00000343508;ENST00000297405;ENST00000339701;ENST00000455883;ENST00000352409	.	.	.	5.78	5.78	0.91487	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.4053	0.83662	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	CSMD3	113726512	1.000000	0.71417	1.000000	0.80357	0.345000	0.29048	5.160000	0.64929	2.333000	0.79357	0.482000	0.46254	.		0.343	CSMD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347141.1	NM_052900	Intron	G	113657336	A	G	113657336	5	3	664	1	0	0	0	0	0	0	1	0	3948	405	14	3	8019	3	CSMD3	8	113657336	Splice_Site	SNP	A	TCGA-KN-8428-01A-11D-2310-10	3069554	113657336	32706686	440	41750										
TRPS1	7227	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	116430676	116430676	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaaaaacaccggagcctctaCgcctctgaaacaggggaaaa	9	11	2	1	rs549374718		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:116430676C>T	ENST00000220888.5	-	5	2825	c.2666G>A	c.(2665-2667)cGt>cAt	p.R889H	TRPS1_ENST00000519076.1_Missense_Mutation_p.R643H|TRPS1_ENST00000520276.1_Missense_Mutation_p.R893H|TRPS1_ENST00000395715.3_Missense_Mutation_p.R902H			Q9UHF7	TRPS1_HUMAN	trichorhinophalangeal syndrome I	889					chondrocyte differentiation (GO:0002062)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|NLS-bearing protein import into nucleus (GO:0006607)|positive regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902043)|regulation of chondrocyte differentiation (GO:0032330)|regulation of histone deacetylation (GO:0031063)|skeletal system development (GO:0001501)|transcription from RNA polymerase II promoter (GO:0006366)|transmembrane receptor protein serine/threonine kinase signaling pathway (GO:0007178)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(25)|lung(58)|ovary(3)|pancreas(1)|prostate(1)|skin(6)|urinary_tract(2)	111	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			GGAGCCTCTACGCCTCTGAAA	0.478									Langer-Giedion syndrome				C|||	1	0.000199681	0.0	0.0	5008	,	,		19725	0.0		0.0	False		,,,				2504	0.001															0													91	93	92					8																	116430676		1913	4124	6037	SO:0001583	missense	7227	Familial Cancer Database	Trichorhinophalangeal syndrome type 2, TRPS II	AF183810	CCDS6318.2, CCDS64957.1	8q23.3	2014-06-23			ENSG00000104447	ENSG00000104447		"GATA zinc finger domain containing", "Zinc fingers, C2H2-type"	12340	protein-coding gene	gene with protein product		604386				8530105, 10615131, 10647898	Standard	NM_001282903		Approved	LGCR	uc003yny.3	Q9UHF7	OTTHUMG00000142829	ENST00000220888.5:c.2666G>A	8.37:g.116430676C>T	ENSP00000220888:p.Arg889His	Somatic		WXS	Illumina HiSeq	Phase_I	B4E1Z5|Q08AU2|Q9NWE1|Q9UHH6	Missense_Mutation	SNP	ENST00000220888.5	37		.	.	.	.	.	.	.	.	.	.	C	19.18	3.777453	0.70107	.	.	ENSG00000104447	ENST00000395715;ENST00000220888;ENST00000519076;ENST00000520276	D;D;D;D	0.99683	-6.39;-6.39;-6.39;-6.39	5.81	5.81	0.92471	.	0.000000	0.85682	D	0.000000	D	0.99402	0.9789	L	0.27053	0.805	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.998;0.996;0.998	D	0.99601	1.0978	10	0.72032	D	0.01	.	20.0805	0.97772	0.0:1.0:0.0:0.0	.	893;889;902	Q9UHF7-3;Q9UHF7;Q9UHF7-2	.;TRPS1_HUMAN;.	H	902;889;643;893	ENSP00000379065:R902H;ENSP00000220888:R889H;ENSP00000428910:R643H;ENSP00000428680:R893H	ENSP00000220888:R889H	R	-	2	0	TRPS1	116499852	1.000000	0.71417	0.999000	0.59377	0.999000	0.98932	4.899000	0.63245	2.755000	0.94549	0.650000	0.86243	CGT		0.478	TRPS1-002	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000286436.3	NM_014112		T	116430676	C	T	116430676	3	4	664	1	0	0	0	0	1	0	0	0	16605	536	19	1	1187	1	TRPS1	8	116430676	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2773340	116430676	29933346	441	41751										
ENPP2	5168	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr8	120606001	120606001	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caaagctttaccatggtctcCgacaaagatgacgttgacac	8	11	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:120606001C>T	ENST00000075322.6	-	12	1130	c.1072G>A	c.(1072-1074)Gga>Aga	p.G358R	ENPP2_ENST00000259486.6_Missense_Mutation_p.G410R|ENPP2_ENST00000522826.1_Missense_Mutation_p.G358R|ENPP2_ENST00000522167.1_5'Flank|ENPP2_ENST00000427067.2_Missense_Mutation_p.G354R	NM_001040092.2	NP_001035181.1	Q13822	ENPP2_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase 2	358					cellular component movement (GO:0006928)|chemotaxis (GO:0006935)|G-protein coupled receptor signaling pathway (GO:0007186)|immune response (GO:0006955)|nucleic acid phosphodiester bond hydrolysis (GO:0090305)|phosphate-containing compound metabolic process (GO:0006796)|phosphatidylcholine catabolic process (GO:0034638)|phospholipid catabolic process (GO:0009395)|regulation of cell migration (GO:0030334)	extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	alkylglycerophosphoethanolamine phosphodiesterase activity (GO:0047391)|calcium ion binding (GO:0005509)|hydrolase activity (GO:0016787)|lysophospholipase activity (GO:0004622)|nucleic acid binding (GO:0003676)|nucleotide diphosphatase activity (GO:0004551)|phosphodiesterase I activity (GO:0004528)|polysaccharide binding (GO:0030247)|scavenger receptor activity (GO:0005044)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(15)|lung(30)|ovary(2)|prostate(2)|skin(4)|upper_aerodigestive_tract(4)	69	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			CCATGGTCTCCGACAAAGATG	0.393																																					Melanoma(20;305 879 2501 4818 31020)											0													239	223	229					8																	120606001		2203	4300	6503	SO:0001583	missense	5168			D45421	CCDS6329.1, CCDS34936.1, CCDS47914.1	8q24.12	2014-04-09	2008-08-01		ENSG00000136960	ENSG00000136960	3.1.4.1, 3.6.1.9		3357	protein-coding gene	gene with protein product	"autotaxin"	601060		PDNP2		8586446	Standard	NM_001040092		Approved	ATX, PD-IALPHA	uc003yos.2	Q13822	OTTHUMG00000164995	ENST00000075322.6:c.1072G>A	8.37:g.120606001C>T	ENSP00000075322:p.Gly358Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8UHA1|E9PHP7|Q13827|Q14555|Q15117|Q9UCQ8|Q9UCR0|Q9UCR1|Q9UCR2|Q9UCR3|Q9UCR4	Missense_Mutation	SNP	ENST00000075322.6	37	CCDS34936.1	.	.	.	.	.	.	.	.	.	.	C	22.2	4.261552	0.80358	.	.	ENSG00000136960	ENST00000259486;ENST00000427067;ENST00000522826;ENST00000075322	T;T;T;T	0.73681	-0.77;-0.77;-0.77;-0.77	5.26	5.26	0.73747	Alkaline phosphatase-like, alpha/beta/alpha (1);Alkaline-phosphatase-like, core domain (1);	0.000000	0.85682	D	0.000000	D	0.89577	0.6755	M	0.92026	3.265	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.91579	0.5277	10	0.87932	D	0	.	19.2484	0.93912	0.0:1.0:0.0:0.0	.	358;358;410	E9PHP7;Q13822;Q13822-2	.;ENPP2_HUMAN;.	R	410;354;358;358	ENSP00000259486:G410R;ENSP00000403315:G354R;ENSP00000428291:G358R;ENSP00000075322:G358R	ENSP00000075322:G358R	G	-	1	0	ENPP2	120675182	1.000000	0.71417	0.998000	0.56505	0.544000	0.35116	7.750000	0.85110	2.629000	0.89072	0.655000	0.94253	GGA		0.393	ENPP2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000381390.1			T	120606001	C	T	120606001	3	4	664	1	0	0	0	0	1	0	0	0	5132	661	23	1	1654	1	ENPP2	8	120606001	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4175325	120606001	25758021	442	41752										
ENPP2	5168	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr8	120628543	120628543	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tctatgattaaatttctctcGccctcgcagatgaaaagtgg	8	9	2	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:120628543G>A	ENST00000075322.6	-	8	797	c.739C>T	c.(739-741)Cga>Tga	p.R247*	ENPP2_ENST00000259486.6_Nonsense_Mutation_p.R247*|ENPP2_ENST00000522826.1_Nonsense_Mutation_p.R247*|ENPP2_ENST00000427067.2_Nonsense_Mutation_p.R243*	NM_001040092.2	NP_001035181.1	Q13822	ENPP2_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase 2	247	Substrate binding. {ECO:0000250}.				cellular component movement (GO:0006928)|chemotaxis (GO:0006935)|G-protein coupled receptor signaling pathway (GO:0007186)|immune response (GO:0006955)|nucleic acid phosphodiester bond hydrolysis (GO:0090305)|phosphate-containing compound metabolic process (GO:0006796)|phosphatidylcholine catabolic process (GO:0034638)|phospholipid catabolic process (GO:0009395)|regulation of cell migration (GO:0030334)	extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	alkylglycerophosphoethanolamine phosphodiesterase activity (GO:0047391)|calcium ion binding (GO:0005509)|hydrolase activity (GO:0016787)|lysophospholipase activity (GO:0004622)|nucleic acid binding (GO:0003676)|nucleotide diphosphatase activity (GO:0004551)|phosphodiesterase I activity (GO:0004528)|polysaccharide binding (GO:0030247)|scavenger receptor activity (GO:0005044)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(15)|lung(30)|ovary(2)|prostate(2)|skin(4)|upper_aerodigestive_tract(4)	69	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			AATTTCTCTCGCCCTCGCAGA	0.378																																					Melanoma(20;305 879 2501 4818 31020)											0													132	117	122					8																	120628543		2203	4300	6503	SO:0001587	stop_gained	5168			D45421	CCDS6329.1, CCDS34936.1, CCDS47914.1	8q24.12	2014-04-09	2008-08-01		ENSG00000136960	ENSG00000136960	3.1.4.1, 3.6.1.9		3357	protein-coding gene	gene with protein product	"autotaxin"	601060		PDNP2		8586446	Standard	NM_001040092		Approved	ATX, PD-IALPHA	uc003yos.2	Q13822	OTTHUMG00000164995	ENST00000075322.6:c.739C>T	8.37:g.120628543G>A	ENSP00000075322:p.Arg247*	Somatic		WXS	Illumina HiSeq	Phase_I	A8UHA1|E9PHP7|Q13827|Q14555|Q15117|Q9UCQ8|Q9UCR0|Q9UCR1|Q9UCR2|Q9UCR3|Q9UCR4	Nonsense_Mutation	SNP	ENST00000075322.6	37	CCDS34936.1	.	.	.	.	.	.	.	.	.	.	G	19.81	3.896837	0.72639	.	.	ENSG00000136960	ENST00000259486;ENST00000427067;ENST00000522826;ENST00000075322;ENST00000520066	.	.	.	5.55	3.71	0.42584	.	0.124216	0.53938	D	0.000060	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.09590	T	0.72	.	13.5977	0.62000	0.0:0.0:0.5932:0.4068	.	.	.	.	X	247;243;247;247;229	.	ENSP00000075322:R247X	R	-	1	2	ENPP2	120697724	1.000000	0.71417	1.000000	0.80357	0.710000	0.40934	2.426000	0.44731	0.662000	0.31006	0.563000	0.77884	CGA		0.378	ENPP2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000381390.1			A	120628543	G	A	120628543	4	1	664	1	0	0	0	0	0	1	0	0	5132	1095	38	1	2163	1	ENPP2	8	120628543	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	22542	120628543	25735479	443	41753										
ZHX2	22882	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr8	123964437	123964437	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctgagatcctctcgagactCggcggggtggagctcctcca	14	13	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:123964437C>T	ENST00000314393.4	+	3	1522	c.687C>T	c.(685-687)ctC>ctT	p.L229L		NM_014943.3	NP_055758.1	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	229	Required for homodimerization.				mRNA catabolic process (GO:0006402)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|somatic stem cell maintenance (GO:0035019)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(10)|lung(15)|ovary(1)|prostate(1)|skin(4)|stomach(3)|urinary_tract(1)	45	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			TCTCGAGACTCGGCGGGGTGG	0.587																																					Esophageal Squamous(94;1056 1388 11767 13799 49639)											0													109	118	115					8																	123964437		2203	4300	6503	SO:0001819	synonymous_variant	22882			AB020661	CCDS6336.1	8q24.13	2012-03-09	2004-01-23		ENSG00000178764	ENSG00000178764		"Zinc fingers, C2H2-type", "Homeoboxes / ZF class"	18513	protein-coding gene	gene with protein product		609185	"zinc-fingers and homeoboxes 2"			10048485, 12741956	Standard	XM_005250837		Approved	KIAA0854	uc003ypk.1	Q9Y6X8	OTTHUMG00000165077	ENST00000314393.4:c.687C>T	8.37:g.123964437C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000314393.4	37	CCDS6336.1																																																																																				0.587	ZHX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381709.1	NM_014943		T	123964437	C	T	123964437	2	4	664	1	0	0	0	0	0	0	0	1	17688	871	31	1		1	ZHX2	8	123964437	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3335894	123964437	22399585	444	41754										
TG	7038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	133953625	133953625	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaccacaacacttcagaaaCgctttgaacccactggtttc	5	15	1	2	rs375968742	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:133953625C>T	ENST00000220616.4	+	26	5111	c.5071C>T	c.(5071-5073)Cgc>Tgc	p.R1691C	TG_ENST00000542445.1_Intron|TG_ENST00000377869.1_Missense_Mutation_p.R1634C	NM_003235.4	NP_003226.4	P01266	THYG_HUMAN	thyroglobulin	1691					hormone biosynthetic process (GO:0042446)|iodide transport (GO:0015705)|regulation of myelination (GO:0031641)|signal transduction (GO:0007165)|thyroid gland development (GO:0030878)|thyroid hormone generation (GO:0006590)	extracellular region (GO:0005576)|extracellular space (GO:0005615)				NS(1)|breast(11)|central_nervous_system(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(34)|liver(2)|lung(59)|ovary(9)|pancreas(2)|prostate(6)|skin(7)|stomach(4)|upper_aerodigestive_tract(4)|urinary_tract(8)	168	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		ACTTCAGAAACGCTTTGAACC	0.463													A|||	7	0.00139776	0.0	0.0	5008	,	,		23317	0.0		0.0	False		,,,				2504	0.0072															0								A	CYS/ARG	1,4405		0,1,2202	150	133	139		5071	0.6	0.7	8		139	0,8600		0,0,4300	no	missense	TG	NM_003235.4	180	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	possibly-damaging	1691/2769	133953625	1,13005	2203	4300	6503	SO:0001583	missense	7038			AU141420	CCDS34944.1	8q24	2012-10-02			ENSG00000042832	ENSG00000042832			11764	protein-coding gene	gene with protein product		188450					Standard	NM_003235		Approved	TGN, AITD3	uc003ytw.3	P01266	OTTHUMG00000164649	ENST00000220616.4:c.5071C>T	8.37:g.133953625C>T	ENSP00000220616:p.Arg1691Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O15274|O43899|Q15593|Q15948|Q9NYR1|Q9NYR2|Q9UMZ0|Q9UNY3	Missense_Mutation	SNP	ENST00000220616.4	37	CCDS34944.1	.	.	.	.	.	.	.	.	.	.	A	16.68	3.189246	0.57909	2.27E-4	0.0	ENSG00000042832	ENST00000377869;ENST00000543313;ENST00000220616	T;T	0.64803	-0.12;-0.12	5.81	0.561	0.17285	.	0.450057	0.22625	N	0.057643	T	0.43055	0.1230	L	0.40543	1.245	0.24772	N	0.992862	P	0.40000	0.698	B	0.31547	0.132	T	0.33828	-0.9853	10	0.72032	D	0.01	.	5.9363	0.19167	0.4205:0.4254:0.1541:0.0	.	1691	P01266	THYG_HUMAN	C	1634;497;1691	ENSP00000367100:R1634C;ENSP00000220616:R1691C	ENSP00000220616:R1691C	R	+	1	0	TG	134022807	0.953000	0.32496	0.655000	0.29622	0.347000	0.29111	0.752000	0.26362	-0.381000	0.07882	-0.525000	0.04345	CGC		0.463	TG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379606.1	NM_003235		T	133953625	C	T	133953625	3	4	664	1	0	0	0	0	1	0	0	0	15825	536	19	1	5173	1	TG	8	133953625	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	9989188	133953625	12410397	445	41755										
ZFAT	57623	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	135615108	135615108	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcctcaggtgggcctgcagcGagtgcttgaacttgaagacc	13	11	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:135615108G>A	ENST00000377838.3	-	6	1028	c.854C>T	c.(853-855)tCg>tTg	p.S285L	ZFAT_ENST00000429442.2_Missense_Mutation_p.S273L|ZFAT_ENST00000520727.1_Missense_Mutation_p.S273L|ZFAT_ENST00000523399.1_Missense_Mutation_p.S223L|ZFAT-AS1_ENST00000505776.1_RNA|ZFAT_ENST00000520214.1_Missense_Mutation_p.S273L|ZFAT_ENST00000520356.1_Missense_Mutation_p.S273L	NM_001174157.1|NM_020863.3	NP_001167628.1|NP_065914.2	Q9P243	ZFAT_HUMAN	zinc finger and AT hook domain containing	285					hematopoietic progenitor cell differentiation (GO:0002244)|spongiotrophoblast layer development (GO:0060712)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(10)|kidney(9)|large_intestine(8)|lung(16)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	54	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)			GGCCTGCAGCGAGTGCTTGAA	0.507																																																0													99	101	100					8																	135615108		2001	4172	6173	SO:0001583	missense	57623			BC025423	CCDS43768.1, CCDS47924.1, CCDS43768.2, CCDS55275.1, CCDS55276.1	8q24.23	2008-06-05	2008-01-25	2008-01-25	ENSG00000066827	ENSG00000066827		"Zinc fingers, C2H2-type"	19899	protein-coding gene	gene with protein product		610931	"zinc finger protein 406"	ZNF406, ZFAT1		10819331, 18329245	Standard	NM_020863		Approved	KIAA1485	uc003yup.3	Q9P243	OTTHUMG00000164321	ENST00000377838.3:c.854C>T	8.37:g.135615108G>A	ENSP00000367069:p.Ser285Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZL15|E9PER3|Q3MIM5|Q6PJ01|Q75PJ6|Q75PJ7|Q75PJ9|Q86X64	Missense_Mutation	SNP	ENST00000377838.3	37	CCDS47924.1	.	.	.	.	.	.	.	.	.	.	G	32	5.148713	0.94603	.	.	ENSG00000066827	ENST00000520356;ENST00000520727;ENST00000429442;ENST00000377838;ENST00000520214;ENST00000318135;ENST00000523399;ENST00000398946	T;T;T;T;T;T	0.07444	3.19;3.19;3.19;3.19;3.19;3.19	6.04	6.04	0.98038	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.85682	D	0.000000	T	0.18676	0.0448	N	0.21373	0.66	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;P	0.91635	0.999;0.999;0.996;0.908	T	0.03852	-1.0998	10	0.29301	T	0.29	-11.6166	19.583	0.95478	0.0:0.0:1.0:0.0	.	223;273;273;285	E9PER3;E9PBN4;Q9P243-3;Q9P243	.;.;.;ZFAT_HUMAN	L	273;273;273;285;273;273;223;273	ENSP00000427879:S273L;ENSP00000427831:S273L;ENSP00000394501:S273L;ENSP00000367069:S285L;ENSP00000428483:S273L;ENSP00000429091:S223L	ENSP00000326997:S273L	S	-	2	0	ZFAT	135684290	1.000000	0.71417	0.970000	0.41538	0.986000	0.74619	8.004000	0.88535	2.873000	0.98535	0.563000	0.77884	TCG		0.507	ZFAT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378272.1	NM_001029939		A	135615108	G	A	135615108	3	1	664	1	0	0	0	0	1	0	0	0	17644	1059	37	1	2921	1	ZFAT	8	135615108	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1661483	135615108	10748914	446	41756										
DENND3	22898	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	142178160	142178160	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gattcccgaaatccactttcCgctggagagcaagtgcgtgc	11	12	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:142178160C>T	ENST00000262585.2	+	13	1849	c.1571C>T	c.(1570-1572)cCg>cTg	p.P524L	DENND3_ENST00000519811.1_Missense_Mutation_p.P604L|DENND3_ENST00000424248.1_Missense_Mutation_p.P472L	NM_014957.2	NP_055772.2	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	524					cellular protein catabolic process (GO:0044257)|endosome to lysosome transport (GO:0008333)|positive regulation of Rab GTPase activity (GO:0032851)		Rab guanyl-nucleotide exchange factor activity (GO:0017112)			breast(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(12)|lung(19)|ovary(1)|prostate(3)|skin(4)|stomach(2)|urinary_tract(1)	55	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			ATCCACTTTCCGCTGGAGAGC	0.527																																																0													119	114	116					8																	142178160		2203	4300	6503	SO:0001583	missense	22898			AB020677	CCDS34947.1	8q24.3	2013-01-10				ENSG00000105339		"DENN/MADD domain containing", "WD repeat domain containing"	29134	protein-coding gene	gene with protein product						10048485	Standard	NM_014957		Approved	KIAA0870	uc003yvy.3	A2RUS2		ENST00000262585.2:c.1571C>T	8.37:g.142178160C>T	ENSP00000262585:p.Pro524Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZM28|O94947|Q2TAM7|Q6ZMS6|Q96DK3	Missense_Mutation	SNP	ENST00000262585.2	37	CCDS34947.1	.	.	.	.	.	.	.	.	.	.	C	19.58	3.854990	0.71719	.	.	ENSG00000105339	ENST00000262585;ENST00000424248;ENST00000519811	T;T;T	0.18338	2.6;2.22;2.58	5.36	5.36	0.76844	.	0.270437	0.43110	D	0.000610	T	0.32376	0.0827	M	0.74881	2.28	0.80722	D	1	D;D;D	0.60160	0.979;0.987;0.979	P;P;P	0.48089	0.512;0.566;0.512	T	0.19192	-1.0313	10	0.87932	D	0	-7.7876	19.08	0.93178	0.0:1.0:0.0:0.0	.	604;472;524	E9PF32;A2RUS2-2;A2RUS2	.;.;DEND3_HUMAN	L	524;472;604	ENSP00000262585:P524L;ENSP00000410594:P472L;ENSP00000428714:P604L	ENSP00000262585:P524L	P	+	2	0	DENND3	142247342	1.000000	0.71417	0.895000	0.35142	0.237000	0.25408	6.606000	0.74159	2.513000	0.84729	0.462000	0.41574	CCG		0.527	DENND3-201	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_014957		T	142178160	C	T	142178160	3	4	664	1	0	0	0	0	1	0	0	0	4434	652	23	1	1617	1	DENND3	8	142178160	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	6563052	142178160	4185862	447	41757										
FLJ43860	389690	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr8	142477562	142477562	+	RNA	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atctcggaggctgcctgcacGcggaaggggctggtggagcc	18	11	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:142477562G>A	ENST00000430863.1	-	0	2339					NM_207414.2	NP_997297.2	Q6ZUA9	MROH5_HUMAN	maestro heat-like repeat family member 5																		CTGCCTGCACGCGGAAGGGGC	0.667																																																0													35	41	39					8																	142477562		2054	4193	6247			389690					8q24.3	2012-12-20			ENSG00000226807	ENSG00000226807		"maestro heat-like repeat containing"	42976	protein-coding gene	gene with protein product							Standard	NM_207414		Approved	FLJ43860	uc003ywi.2	Q6ZUA9	OTTHUMG00000155944		8.37:g.142477562G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000430863.1	37																																																																																					0.667	MROH5-001	KNOWN	non_canonical_polymorphism|basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000342412.4	NM_207414		A	142477562	G	A	142477562	1	1	664	0	1	0	0	0	0	0	0	0	5937	1074	38	1		1	FLJ43860	8	142477562	RNA	SNP	G	TCGA-KN-8428-01A-11D-2310-10	299402	142477562	3886460	448	41758										
BAI1	575	broad.mit.edu	37	chr8	143566068	143566068	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggtggaggactttgtggacGtcatcggcttccgcatgaag	15	8	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:143566068G>A	ENST00000517894.1	+	13	3145	c.2251G>A	c.(2251-2253)Gtc>Atc	p.V751I	BAI1_ENST00000323289.5_Missense_Mutation_p.V751I			O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	751					axonogenesis (GO:0007409)|cell adhesion (GO:0007155)|G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cell proliferation (GO:0008285)|neuropeptide signaling pathway (GO:0007218)|peripheral nervous system development (GO:0007422)|signal transduction (GO:0007165)	cell-cell junction (GO:0005911)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(2)|lung(28)|ovary(4)|pancreas(1)|prostate(7)	57	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)					CTTTGTGGACGTCATCGGCTT	0.657																																																0													36	47	44					8																	143566068		2073	4196	6269	SO:0001583	missense	575			AB005297	CCDS64985.1	8q24.3	2014-08-08			ENSG00000181790	ENSG00000181790		"-", "GPCR / Class B : Orphans"	943	protein-coding gene	gene with protein product		602682				9533023	Standard	NM_001702		Approved		uc003ywm.3	O14514	OTTHUMG00000164732	ENST00000517894.1:c.2251G>A	8.37:g.143566068G>A	ENSP00000430945:p.Val751Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000517894.1	37		.	.	.	.	.	.	.	.	.	.	G	14.84	2.655014	0.47467	.	.	ENSG00000181790	ENST00000517894;ENST00000323289	T;T	0.10573	2.86;2.86	4.8	4.8	0.61643	.	0.093782	0.42964	U	0.000624	T	0.14141	0.0342	L	0.32530	0.975	0.46396	D	0.999021	D	0.60160	0.987	P	0.52758	0.708	T	0.08432	-1.0722	10	0.08837	T	0.75	.	16.4232	0.83773	0.0:0.0:1.0:0.0	.	751	E9PBK0	.	I	751	ENSP00000430945:V751I;ENSP00000313046:V751I	ENSP00000313046:V751I	V	+	1	0	BAI1	143563070	1.000000	0.71417	0.998000	0.56505	0.861000	0.49209	5.244000	0.65400	2.211000	0.71520	0.313000	0.20887	GTC		0.657	BAI1-001	KNOWN	non_canonical_conserved|not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000379963.3	NM_001702		A	143566068	G	A	143566068	3	1	664	1	0	0	0	0	1	0	0	0	1298	1145	40	1	2297	1	BAI1	8	143566068	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1088506	143566068	2797954	449	41759										
JRK	8629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr8	143746611	143746611	+	RNA	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agaacggctttgctgtcttcCggcaaacctatggttctgaa	10	10	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:143746611C>T	ENST00000507178.2	-	0	1199							O75564	JERKY_HUMAN	Jrk homolog (mouse)							nucleus (GO:0005634)	DNA binding (GO:0003677)					all_cancers(97;3.96e-12)|all_epithelial(106;1.19e-08)|Lung NSC(106;0.000413)|all_lung(105;0.00106)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;2.31e-05)				tgctgtcttccggcaaaccta	0.557																																																0													19	23	22					8																	143746611		1479	2859	4338			8629			AF072467	CCDS75796.1, CCDS75797.1	8q24.3	2014-03-28	2014-03-28			ENSG00000234616			6199	protein-coding gene	gene with protein product		603210	"jerky (mouse) homolog", "jerky homolog (mouse)"			9675132	Standard	NM_003724		Approved	JH8, jerky	uc003ywo.3	O75564			8.37:g.143746611C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O75565	Silent	SNP	ENST00000507178.2	37																																																																																					0.557	JRK-003	KNOWN	basic	processed_transcript	processed_transcript	OTTHUMT00000362914.1	NM_003724		T	143746611	C	T	143746611	1	4	664	0	1	0	0	0	0	0	0	0	7971	639	23	1		1	JRK	8	143746611	RNA	SNP	C	TCGA-KN-8428-01A-11D-2310-10	180543	143746611	2617411	450	41760										
MAPK15	225689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	144800421	144800421	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acatcatcagcctccttgacGtgatccgggcagagaacgac	10	13	2	3	rs140275267		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:144800421G>A	ENST00000338033.4	+	4	354	c.235G>A	c.(235-237)Gtg>Atg	p.V79M	MAPK15_ENST00000395107.4_Missense_Mutation_p.V79M|MAPK15_ENST00000395108.2_Missense_Mutation_p.V79M|RP11-429J17.5_ENST00000527908.1_RNA	NM_139021.2	NP_620590.2	Q8TD08	MK15_HUMAN	mitogen-activated protein kinase 15	79	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				MAPK cascade (GO:0000165)|negative regulation of DNA replication (GO:0008156)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein ubiquitination (GO:0031398)|protein autophosphorylation (GO:0046777)|response to estradiol (GO:0032355)	extracellular region (GO:0005576)|intracellular (GO:0005622)|nucleus (GO:0005634)	ATP binding (GO:0005524)|MAP kinase activity (GO:0004707)|SH3 domain binding (GO:0017124)			endometrium(1)|kidney(1)|large_intestine(1)|lung(6)|prostate(1)|skin(1)|stomach(1)	12	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;3.38e-41)|Epithelial(56;6.8e-40)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CCTCCTTGACGTGATCCGGGC	0.617																																																0													71	59	63					8																	144800421		2203	4300	6503	SO:0001583	missense	225689			AY065978	CCDS6409.2	8q24.3	2011-06-09			ENSG00000181085	ENSG00000181085		"Mitogen-activated protein kinase cascade / Kinases"	24667	protein-coding gene	gene with protein product	"extracellular signal regulated kinase 8"					11875070	Standard	XM_006716528		Approved	ERK8, ERK7	uc003yzj.3	Q8TD08	OTTHUMG00000146450	ENST00000338033.4:c.235G>A	8.37:g.144800421G>A	ENSP00000337691:p.Val79Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q2TCF9|Q8N362	Missense_Mutation	SNP	ENST00000338033.4	37	CCDS6409.2	.	.	.	.	.	.	.	.	.	.	g	17.45	3.391744	0.62066	.	.	ENSG00000181085	ENST00000338033;ENST00000395107;ENST00000395108	T;T;T	0.67171	-0.25;-0.25;-0.25	5.31	4.43	0.53597	Serine/threonine-protein kinase-like domain (1);MAP kinase, conserved site (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.80989	0.4730	M	0.75447	2.3	0.58432	D	0.999991	D	0.89917	1.0	D	0.85130	0.997	D	0.83512	0.0081	10	0.87932	D	0	-6.6704	14.54	0.67987	0.0:0.1599:0.8401:0.0	.	79	Q8TD08	MK15_HUMAN	M	79	ENSP00000337691:V79M;ENSP00000378539:V79M;ENSP00000378540:V79M	ENSP00000337691:V79M	V	+	1	0	MAPK15	144872409	1.000000	0.71417	0.967000	0.41034	0.077000	0.17291	6.539000	0.73856	1.228000	0.43614	-0.416000	0.06073	GTG		0.617	MAPK15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000300348.1	NM_139021		A	144800421	G	A	144800421	3	1	664	1	0	0	0	0	1	0	0	0	9284	1145	40	1	249	1	MAPK15	8	144800421	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1053810	144800421	1563601	451	41761										
EPPK1	83481	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	144942815	144942815	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcttcctgctgatcagctgcGccctgaacaggtccctggct	10	15	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:144942815G>A	ENST00000525985.1	-	2	4678	c.4607C>T	c.(4606-4608)gCg>gTg	p.A1536V				P58107	EPIPL_HUMAN	epiplakin 1	1536						cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)	poly(A) RNA binding (GO:0044822)			NS(1)|autonomic_ganglia(1)|breast(1)|central_nervous_system(5)|cervix(1)|endometrium(8)|kidney(4)|large_intestine(2)|lung(30)|ovary(2)|pancreas(1)|prostate(10)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	71	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)			GATCAGCTGCGCCCTGAACAG	0.652																																																0													18	19	19					8																	144942815		2077	4207	6284	SO:0001583	missense	83481			AB051895	CCDS75800.1	8q24.3	2014-09-17				ENSG00000261150			15577	protein-coding gene	gene with protein product	"epidermal autoantigen 450K"	607553				11278896, 15671067	Standard	NM_031308		Approved	EPIPL1	uc003zaa.1	P58107		ENST00000525985.1:c.4607C>T	8.37:g.144942815G>A	ENSP00000436337:p.Ala1536Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q76E58|Q9NSU9	Missense_Mutation	SNP	ENST00000525985.1	37		.	.	.	.	.	.	.	.	.	.	G	14.69	2.611441	0.46631	.	.	ENSG00000227184	ENST00000525985	T	0.69435	-0.4	4.56	4.56	0.56223	.	.	.	.	.	T	0.54481	0.1861	L	0.36672	1.1	0.20074	N	0.999939	P	0.49862	0.929	B	0.35770	0.21	T	0.54248	-0.8322	9	0.49607	T	0.09	.	14.8833	0.70550	0.0:0.0:1.0:0.0	.	1536	E9PPU0	.	V	1536	ENSP00000436337:A1536V	ENSP00000436337:A1536V	A	-	2	0	EPPK1	145014803	0.229000	0.23729	0.010000	0.14722	0.547000	0.35210	2.624000	0.46444	2.361000	0.80049	0.591000	0.81541	GCG		0.652	EPPK1-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000382675.1	NM_031308		A	144942815	G	A	144942815	3	1	664	1	0	0	0	0	1	0	0	0	5192	1087	38	1	2659	1	EPPK1	8	144942815	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	142394	144942815	1421207	452	41762										
PLEC	5339	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr8	144995547	144995547	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgtgcacggggtcgataacGccgcccgtggcgatctgggc	16	13	1	0	rs186703073	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:144995547G>A	ENST00000322810.4	-	32	9022	c.8853C>T	c.(8851-8853)ggC>ggT	p.G2951G	PLEC_ENST00000354958.2_Silent_p.G2792G|PLEC_ENST00000436759.2_Silent_p.G2841G|PLEC_ENST00000527096.1_Silent_p.G2837G|PLEC_ENST00000345136.3_Silent_p.G2814G|PLEC_ENST00000398774.2_Silent_p.G2782G|PLEC_ENST00000354589.3_Silent_p.G2814G|PLEC_ENST00000356346.3_Silent_p.G2800G|PLEC_ENST00000357649.2_Silent_p.G2818G	NM_201380.2	NP_958782.1	Q15149	PLEC_HUMAN	plectin	2951	Globular 2.				apoptotic process (GO:0006915)|cell junction assembly (GO:0034329)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)	costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|intermediate filament cytoskeleton (GO:0045111)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcoplasm (GO:0016528)	ankyrin binding (GO:0030506)|poly(A) RNA binding (GO:0044822)|structural constituent of muscle (GO:0008307)			NS(1)|breast(3)|central_nervous_system(4)|cervix(7)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(8)|lung(57)|ovary(4)|pancreas(2)|prostate(11)|skin(9)|stomach(2)|upper_aerodigestive_tract(10)	137						GGTCGATAACGCCGCCCGTGG	0.682													G|||	3	0.000599042	0.0	0.0014	5008	,	,		17217	0.001		0.001	False		,,,				2504	0.0															0								G	,,,,,,,	0,3998		0,0,1999	50	55	53		8523,8400,8376,8853,8346,8442,8454,8442	3.2	0.9	8		53	6,8288		0,6,4141	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	PLEC	NM_000445.3,NM_201378.2,NM_201379.1,NM_201380.2,NM_201381.1,NM_201382.2,NM_201383.1,NM_201384.1	,,,,,,,	0,6,6140	AA,AG,GG		0.0723,0.0,0.0488	,,,,,,,	2841/4575,2800/4534,2792/4526,2951/4685,2782/4516,2814/4548,2818/4552,2814/4548	144995547	6,12286	1999	4147	6146	SO:0001819	synonymous_variant	5339			U53204	CCDS43769.1, CCDS43770.1, CCDS43771.1, CCDS43772.1, CCDS43773.1, CCDS43774.1, CCDS43775.1, CCDS47936.1	8q24	2010-02-04	2010-02-04	2010-02-04	ENSG00000178209	ENSG00000178209			9069	protein-coding gene	gene with protein product		601282	"plectin 1, intermediate filament binding protein, 500kD", "epidermolysis bullosa simplex 1 (Ogna)", "plectin 1, intermediate filament binding protein 500kDa"	EBS1, PLEC1		8633055, 8696340	Standard	XM_005250976		Approved	PCN, PLTN	uc003zaf.1	Q15149	OTTHUMG00000165291	ENST00000322810.4:c.8853C>T	8.37:g.144995547G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q15148|Q16640|Q6S376|Q6S377|Q6S378|Q6S379|Q6S380|Q6S381|Q6S382|Q6S383	Silent	SNP	ENST00000322810.4	37	CCDS43772.1																																																																																				0.682	PLEC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383281.1	NM_000445		A	144995547	G	A	144995547	2	1	664	1	0	0	0	0	0	0	0	1	12059	1074	38	1		1	PLEC	8	144995547	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	52732	144995547	1368475	453	41763										
SPATC1	375686	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	145094825	145094825	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cccaggtgtcttcctgccccCgtccccagcagtggcaaacg	10	18	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:145094825C>T	ENST00000377470.3	+	2	329	c.227C>T	c.(226-228)cCg>cTg	p.P76L	SPATC1_ENST00000447830.2_Missense_Mutation_p.P76L	NM_198572.2	NP_940974.2	Q76KD6	SPERI_HUMAN	spermatogenesis and centriole associated 1	76	Necessary for targeting centrosomes. {ECO:0000250}.					centrosome (GO:0005813)|cytoplasm (GO:0005737)				NS(1)|central_nervous_system(1)|kidney(1)|large_intestine(1)|lung(8)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	15	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;3.67e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TTCCTGCCCCCGTCCCCAGCA	0.627																																																0													68	74	72					8																	145094825		2203	4300	6503	SO:0001583	missense	375686			BC053547	CCDS6413.2, CCDS47937.1	8q24.3	2005-01-11			ENSG00000186583	ENSG00000186583			30510	protein-coding gene	gene with protein product		610874				15280373	Standard	NM_198572		Approved	MGC61633, SPATA15, SPERIOLIN	uc011lkw.2	Q76KD6	OTTHUMG00000156976	ENST00000377470.3:c.227C>T	8.37:g.145094825C>T	ENSP00000366690:p.Pro76Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DWW9|Q5U5I8|Q7Z6L7	Missense_Mutation	SNP	ENST00000377470.3	37	CCDS6413.2	.	.	.	.	.	.	.	.	.	.	C	11.50	1.658372	0.29425	.	.	ENSG00000186583	ENST00000377470;ENST00000447830	T;T	0.51817	0.69;0.69	5.05	2.79	0.32731	.	0.577983	0.15653	N	0.251268	T	0.54415	0.1857	M	0.66939	2.045	0.09310	N	1	D;B	0.67145	0.996;0.354	P;B	0.57548	0.823;0.025	T	0.46205	-0.9208	10	0.66056	D	0.02	-14.049	3.7743	0.08654	0.2336:0.6174:0.0:0.149	.	76;76	B4DWW9;Q76KD6	.;SPERI_HUMAN	L	76	ENSP00000366690:P76L;ENSP00000387613:P76L	ENSP00000366690:P76L	P	+	2	0	SPATC1	145166813	0.000000	0.05858	0.006000	0.13384	0.561000	0.35649	0.087000	0.14958	1.218000	0.43458	0.650000	0.86243	CCG		0.627	SPATC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000346926.1	NM_198572		T	145094825	C	T	145094825	3	4	664	1	0	0	0	0	1	0	0	0	15029	652	23	1	233	1	SPATC1	8	145094825	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	99278	145094825	1269197	454	41764										
GPAA1	8733	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr8	145138659	145138659	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acggcatcctgcgggccccgCgtgctgccagcaccgagtcg	14	17	0	0	rs550126943		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:145138659C>T	ENST00000355091.4	+	4	530	c.409C>T	c.(409-411)Cgt>Tgt	p.R137C	GPAA1_ENST00000361036.6_Missense_Mutation_p.R77C|GPAA1_ENST00000527144.1_3'UTR	NM_003801.3	NP_003792.1	O43292	GPAA1_HUMAN	glycosylphosphatidylinositol anchor attachment 1	137					attachment of GPI anchor to protein (GO:0016255)|C-terminal protein lipidation (GO:0006501)|cellular protein metabolic process (GO:0044267)|post-translational protein modification (GO:0043687)|protein complex assembly (GO:0006461)|protein retention in ER lumen (GO:0006621)	endoplasmic reticulum membrane (GO:0005789)|GPI-anchor transamidase complex (GO:0042765)|membrane (GO:0016020)	tubulin binding (GO:0015631)			breast(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(10)|upper_aerodigestive_tract(2)	19	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;3.38e-41)|Epithelial(56;6.02e-40)|all cancers(56;2.11e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GCGGGCCCCGCGTGCTGCCAG	0.642													C|||	1	0.000199681	0.0	0.0	5008	,	,		17087	0.001		0.0	False		,,,				2504	0.0															0													24	28	27					8																	145138659		2135	4234	6369	SO:0001583	missense	8733			AB006969	CCDS43776.1	8q24.3	2012-12-10	2012-12-10		ENSG00000197858	ENSG00000197858			4446	protein-coding gene	gene with protein product	"GPI transamidase subunit"	603048	"anchor attachment protein 1 (Gaa1p, yeast) homolog", "GPAA1P anchor attachment protein 1 homolog (yeast)", "glycosylphosphatidylinositol anchor attachment protein 1 homolog (yeast)"			9828142	Standard	NM_003801		Approved	GAA1, hGAA1	uc003zax.3	O43292	OTTHUMG00000165438	ENST00000355091.4:c.409C>T	8.37:g.145138659C>T	ENSP00000347206:p.Arg137Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NSS0|Q9UQ31	Missense_Mutation	SNP	ENST00000355091.4	37	CCDS43776.1	.	.	.	.	.	.	.	.	.	.	C	16.54	3.152259	0.57259	.	.	ENSG00000197858	ENST00000355091;ENST00000361036;ENST00000524418	.	.	.	5.43	4.47	0.54385	.	0.056860	0.64402	D	0.000004	D	0.83529	0.5274	M	0.88979	2.995	0.49798	D	0.999822	D;D	0.89917	1.0;1.0	D;D	0.80764	0.994;0.978	D	0.86726	0.1945	9	0.87932	D	0	-14.242	14.4603	0.67445	0.1574:0.8426:0.0:0.0	.	137;77	O43292;O43292-2	GPAA1_HUMAN;.	C	137;77;137	.	ENSP00000347206:R137C	R	+	1	0	GPAA1	145210647	0.992000	0.36948	0.362000	0.25862	0.665000	0.39181	3.122000	0.50446	2.543000	0.85770	0.462000	0.41574	CGT		0.642	GPAA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384070.1	NM_003801		T	145138659	C	T	145138659	3	4	664	1	0	0	0	0	1	0	0	0	6594	768	27	1	423	1	GPAA1	8	145138659	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	43834	145138659	1225363	455	41765										
GPAA1	8733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr8	145139221	145139221	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaagggggcctgttgtgcacGcttcagggcaaggtggggct	18	8	1	0	rs189367473		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:145139221G>A	ENST00000355091.4	+	6	922	c.801G>A	c.(799-801)acG>acA	p.T267T	GPAA1_ENST00000361036.6_Silent_p.T207T|GPAA1_ENST00000527144.1_3'UTR	NM_003801.3	NP_003792.1	O43292	GPAA1_HUMAN	glycosylphosphatidylinositol anchor attachment 1	267					attachment of GPI anchor to protein (GO:0016255)|C-terminal protein lipidation (GO:0006501)|cellular protein metabolic process (GO:0044267)|post-translational protein modification (GO:0043687)|protein complex assembly (GO:0006461)|protein retention in ER lumen (GO:0006621)	endoplasmic reticulum membrane (GO:0005789)|GPI-anchor transamidase complex (GO:0042765)|membrane (GO:0016020)	tubulin binding (GO:0015631)			breast(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(10)|upper_aerodigestive_tract(2)	19	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;3.38e-41)|Epithelial(56;6.02e-40)|all cancers(56;2.11e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TGTTGTGCACGCTTCAGGGCA	0.627													G|||	1	0.000199681	0.0	0.0	5008	,	,		19669	0.001		0.0	False		,,,				2504	0.0															0													47	50	49					8																	145139221		2062	4196	6258	SO:0001819	synonymous_variant	8733			AB006969	CCDS43776.1	8q24.3	2012-12-10	2012-12-10		ENSG00000197858	ENSG00000197858			4446	protein-coding gene	gene with protein product	"GPI transamidase subunit"	603048	"anchor attachment protein 1 (Gaa1p, yeast) homolog", "GPAA1P anchor attachment protein 1 homolog (yeast)", "glycosylphosphatidylinositol anchor attachment protein 1 homolog (yeast)"			9828142	Standard	NM_003801		Approved	GAA1, hGAA1	uc003zax.3	O43292	OTTHUMG00000165438	ENST00000355091.4:c.801G>A	8.37:g.145139221G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NSS0|Q9UQ31	Silent	SNP	ENST00000355091.4	37	CCDS43776.1																																																																																				0.627	GPAA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384070.1	NM_003801		A	145139221	G	A	145139221	2	1	664	1	0	0	0	0	0	0	0	1	6594	1074	38	1		1	GPAA1	8	145139221	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	562	145139221	1224801	456	41766										
NFKBIL2	4796	hgsc.bcm.edu;ucsc.edu	37	chr8	145668062	145668062	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcggggcagggccttactcCgcaaggaagatgctcttcct	14	12	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:145668062C>T	ENST00000409379.3	-	5	605	c.576G>A	c.(574-576)gcG>gcA	p.A192A	AC084125.4_ENST00000442850.1_RNA	NM_013432.4	NP_038460.4	Q96HA7	TONSL_HUMAN	tonsoku-like, DNA repair protein	192					cytoplasmic sequestering of transcription factor (GO:0042994)|double-strand break repair via homologous recombination (GO:0000724)|regulation of RNA biosynthetic process (GO:2001141)|replication fork processing (GO:0031297)	cytoplasm (GO:0005737)|nuclear replication fork (GO:0043596)|nucleus (GO:0005634)	histone binding (GO:0042393)|transcription corepressor activity (GO:0003714)			biliary_tract(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|lung(14)|ovary(3)|prostate(1)|skin(1)	26						GGCCTTACTCCGCAAGGAAGA	0.567																																																0													112	113	113					8																	145668062		2203	4300	6503	SO:0001819	synonymous_variant	4796				CCDS34968.2	8q24.3	2013-01-10	2010-12-02	2010-11-30	ENSG00000160949	ENSG00000160949		"Ankyrin repeat domain containing"	7801	protein-coding gene	gene with protein product		604546	"nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor-like 2"	NFKBIL2		7738005, 11246458	Standard	NM_013432		Approved	IKBR	uc011llg.2	Q96HA7	OTTHUMG00000153122	ENST00000409379.3:c.576G>A	8.37:g.145668062C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B5MDP0|C9JKB1|C9JNV8|Q13006|Q9UGJ2	Silent	SNP	ENST00000409379.3	37	CCDS34968.2																																																																																				0.567	TONSL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329668.2	NM_013432		T	145668062	C	T	145668062	2	4	664	1	0	0	0	0	0	0	0	1	10389	639	23	1		1	NFKBIL2	8	145668062	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	528841	145668062	695960	457	41767										
LRRC14	9684	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr8	145746758	145746758	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atgaggagaagtttgcccgcGtagaagctgagttgcaccag	14	8	0	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:145746758G>A	ENST00000292524.1	+	4	1524	c.1378G>A	c.(1378-1380)Gta>Ata	p.V460I	LRRC14_ENST00000529022.1_Missense_Mutation_p.V460I	NM_001272036.1|NM_014665.2	NP_001258965.1|NP_055480.1	Q15048	LRC14_HUMAN	leucine rich repeat containing 14	460										endometrium(1)|lung(3)|prostate(1)	5	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			GTTTGCCCGCGTAGAAGCTGA	0.627																																																0													41	41	41					8																	145746758		2203	4299	6502	SO:0001583	missense	9684			BC011377	CCDS6432.1	8q24.3	2012-08-20			ENSG00000160959	ENSG00000160959			20419	protein-coding gene	gene with protein product						7584026	Standard	NM_001272036		Approved	KIAA0014, LRRC14A	uc003zdk.3	Q15048	OTTHUMG00000165179	ENST00000292524.1:c.1378G>A	8.37:g.145746758G>A	ENSP00000292524:p.Val460Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0A8|D3DWM8	Missense_Mutation	SNP	ENST00000292524.1	37	CCDS6432.1	.	.	.	.	.	.	.	.	.	.	G	11.04	1.523003	0.27211	.	.	ENSG00000160959	ENST00000529022;ENST00000292524	T;T	0.01538	4.79;4.79	4.65	3.77	0.43336	.	0.223478	0.37906	N	0.001893	T	0.02494	0.0076	L	0.42632	1.34	0.09310	N	1	D	0.55605	0.972	P	0.46718	0.525	T	0.41910	-0.9482	10	0.09084	T	0.74	.	12.4806	0.55839	0.0:0.17:0.8299:0.0	.	460	Q15048	LRC14_HUMAN	I	460	ENSP00000434768:V460I;ENSP00000292524:V460I	ENSP00000292524:V460I	V	+	1	0	LRRC14	145717566	0.981000	0.34729	0.065000	0.19835	0.000000	0.00434	4.925000	0.63425	1.170000	0.42753	-0.175000	0.13238	GTA		0.627	LRRC14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382494.1	NM_014665		A	145746758	G	A	145746758	3	1	664	1	0	0	0	0	1	0	0	0	8975	1145	40	1	1388	1	LRRC14	8	145746758	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	78696	145746758	617264	458	41768										
RPL8	6132	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr8	146015277	146015277	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccactttgcggccagcagggGcatctctgcggatggtggag	16	11	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr8:146015277G>A	ENST00000262584.3	-	6	918	c.686C>T	c.(685-687)gCc>gTc	p.A229V	RPL8_ENST00000528957.1_Missense_Mutation_p.A229V|ZNF34_ENST00000429371.2_5'Flank|RPL8_ENST00000529163.1_5'UTR|ZNF34_ENST00000343459.4_5'Flank|RPL8_ENST00000394920.2_Missense_Mutation_p.A229V|RPL8_ENST00000527914.1_Missense_Mutation_p.A120V	NM_000973.3	NP_000964.1	P62917	RL8_HUMAN	ribosomal protein L8	229					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|focal adhesion (GO:0005925)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|rRNA binding (GO:0019843)|structural constituent of ribosome (GO:0003735)			kidney(12)|lung(7)|prostate(1)	20	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)	GBM - Glioblastoma multiforme(99;0.191)		GCCAGCAGGGGCATCTCTGCG	0.592																																																0													108	109	109					8																	146015277		2203	4300	6503	SO:0001583	missense	6132			Z28407	CCDS6433.1	8q24.3	2011-04-06			ENSG00000161016	ENSG00000161016		"L ribosomal proteins"	10368	protein-coding gene	gene with protein product		604177				7506540, 9582194	Standard	NM_033301		Approved	L8	uc003zec.3	P62917	OTTHUMG00000165249	ENST00000262584.3:c.686C>T	8.37:g.146015277G>A	ENSP00000262584:p.Ala229Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K094|D3DWN2|P25120|Q567Q7|Q969V7|Q9BWQ9	Missense_Mutation	SNP	ENST00000262584.3	37	CCDS6433.1	.	.	.	.	.	.	.	.	.	.	G	33	5.289544	0.95517	.	.	ENSG00000161016	ENST00000394920;ENST00000527914;ENST00000262584;ENST00000534813;ENST00000533397	D;D;D;D	0.95690	-3.78;-3.78;-3.78;-3.78	4.85	4.85	0.62838	Translation protein SH3-like (1);Ribosomal protein L2, domain 3 (1);Ribosomal protein L2, C-terminal (1);	0.000000	0.85682	D	0.000000	D	0.97892	0.9307	H	0.96239	3.79	0.80722	D	1	P;B	0.35714	0.517;0.026	P;B	0.48114	0.567;0.014	D	0.99552	1.0966	10	0.72032	D	0.01	-16.033	15.8928	0.79312	0.0:0.0:1.0:0.0	.	229;193	P62917;E9PIZ3	RL8_HUMAN;.	V	229;120;229;193;208	ENSP00000378378:A229V;ENSP00000436460:A120V;ENSP00000262584:A229V;ENSP00000435313:A208V	ENSP00000262584:A229V	A	-	2	0	RPL8	145986081	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.425000	0.90270	2.422000	0.82143	0.555000	0.69702	GCC		0.592	RPL8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382948.1	NM_000973		A	146015277	G	A	146015277	3	1	664	1	0	0	0	0	1	0	0	0	13615	1203	42	2	91	2	RPL8	8	146015277	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	268519	146015277	348745	459	41769										
SMARCA2	6595	broad.mit.edu;mdanderson.org	37	chr9	2191375	2191375	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaagccaaacctgtagtgagCgattttgacagcgatgagga	12	7	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:2191375C>T	ENST00000382203.1	+	33	4913	c.4704C>T	c.(4702-4704)agC>agT	p.S1568S	SMARCA2_ENST00000382185.1_Silent_p.S214S|SMARCA2_ENST00000324954.5_Silent_p.S214S|SMARCA2_ENST00000349721.2_Silent_p.S1568S|SMARCA2_ENST00000382194.1_Silent_p.S1550S|SMARCA2_ENST00000357248.2_Silent_p.S1550S|SMARCA2_ENST00000382186.1_Silent_p.S232S|SMARCA2_ENST00000302401.3_Silent_p.S256S			P51531	SMCA2_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	1568					aortic smooth muscle cell differentiation (GO:0035887)|ATP catabolic process (GO:0006200)|chromatin remodeling (GO:0006338)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|nervous system development (GO:0007399)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)	intermediate filament cytoskeleton (GO:0045111)|intracellular membrane-bounded organelle (GO:0043231)|nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SWI/SNF complex (GO:0016514)	ATP binding (GO:0005524)|DNA-dependent ATPase activity (GO:0008094)|helicase activity (GO:0004386)|RNA polymerase II transcription coactivator activity (GO:0001105)|transcription coactivator activity (GO:0003713)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(3)|large_intestine(11)|liver(2)|lung(19)|ovary(3)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	56		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		CTGTAGTGAGCGATTTTGACA	0.493																																																0													176	140	152					9																	2191375		2203	4300	6503	SO:0001819	synonymous_variant	6595			D26155	CCDS34977.1, CCDS34978.1, CCDS75807.1, CCDS75808.1	9p24.3	2008-11-11	2006-11-09		ENSG00000080503	ENSG00000080503			11098	protein-coding gene	gene with protein product		600014		SNF2L2		8012116	Standard	NM_003070		Approved	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2	uc003zhc.3	P51531	OTTHUMG00000019445	ENST00000382203.1:c.4704C>T	9.37:g.2191375C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B1ALG3|B1ALG4|D3DRH4|D3DRH5	Silent	SNP	ENST00000382203.1	37	CCDS34977.1																																																																																				0.493	SMARCA2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000051505.1	NM_003070		T	2191375	C	T	2191375	2	4	664	1	0	0	0	0	0	0	0	1	14782	767	27	1		1	SMARCA2	9	2191375	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10		2191375	139022056	460	41770										
PTPRD	5789	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr9	8485823	8485823	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tatggcccgggccctttgctCgtatgagcacgtacttttac	10	12	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:8485823C>T	ENST00000381196.4	-	25	3537	c.2994G>A	c.(2992-2994)acG>acA	p.T998T	PTPRD_ENST00000358503.5_Silent_p.T976T|PTPRD_ENST00000397606.3_Intron|PTPRD_ENST00000471274.1_5'UTR|PTPRD_ENST00000355233.5_Intron|PTPRD_ENST00000397611.3_Intron|PTPRD_ENST00000486161.1_Intron|PTPRD_ENST00000537002.1_Intron|PTPRD_ENST00000360074.4_Silent_p.T985T|PTPRD_ENST00000397617.3_Intron|PTPRD_ENST00000356435.5_Silent_p.T998T|PTPRD_ENST00000540109.1_Silent_p.T998T	NM_002839.3	NP_002830.1	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	998	Fibronectin type-III 7. {ECO:0000255|PROSITE-ProRule:PRU00316}.				heterophilic cell-cell adhesion (GO:0007157)|neuron differentiation (GO:0030182)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphate-containing compound metabolic process (GO:0006796)|positive regulation of dendrite morphogenesis (GO:0050775)|presynaptic membrane assembly (GO:0097105)|protein dephosphorylation (GO:0006470)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	cell adhesion molecule binding (GO:0050839)|receptor binding (GO:0005102)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(1)|breast(7)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(22)|liver(1)|lung(83)|ovary(4)|pancreas(1)|prostate(7)|skin(19)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	168		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)		GCCCTTTGCTCGTATGAGCAC	0.493										TSP Lung(15;0.13)																																						0													102	89	94					9																	8485823		2203	4300	6503	SO:0001819	synonymous_variant	5789			X54133	CCDS6472.1, CCDS43786.1, CCDS6472.2, CCDS55288.1, CCDS55289.1, CCDS55290.1, CCDS75813.1	9p24.1-p23	2013-02-11			ENSG00000153707	ENSG00000153707		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	9668	protein-coding gene	gene with protein product		601598				7896816, 8355697	Standard	NM_002839		Approved	PTPD, HPTP	uc003zkk.3	P23468	OTTHUMG00000021005	ENST00000381196.4:c.2994G>A	9.37:g.8485823C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B1ALA0|F5GWT7|Q3KPJ0|Q3KPJ1|Q3KPJ2	Silent	SNP	ENST00000381196.4	37	CCDS43786.1																																																																																				0.493	PTPRD-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055395.3			T	8485823	C	T	8485823	2	4	664	1	0	0	0	0	0	0	0	1	12812	871	31	1		1	PTPRD	9	8485823	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	6294448	8485823	132727608	461	41771										
PTPRD	5789	broad.mit.edu	37	chr9	8507359	8507359	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agttggcaatggtatctgaaCgtggaggtgtccaagagagc	15	6	1	2	rs371642520		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:8507359C>T	ENST00000381196.4	-	19	2162	c.1619G>A	c.(1618-1620)cGt>cAt	p.R540H	PTPRD_ENST00000358503.5_Missense_Mutation_p.R527H|PTPRD_ENST00000397606.3_Missense_Mutation_p.R530H|PTPRD_ENST00000355233.5_Missense_Mutation_p.R540H|PTPRD_ENST00000397611.3_Missense_Mutation_p.R537H|PTPRD_ENST00000486161.1_Missense_Mutation_p.R540H|PTPRD_ENST00000537002.1_Missense_Mutation_p.R537H|PTPRD_ENST00000360074.4_Missense_Mutation_p.R527H|PTPRD_ENST00000397617.3_Missense_Mutation_p.R530H|PTPRD_ENST00000356435.5_Missense_Mutation_p.R540H|PTPRD_ENST00000540109.1_Missense_Mutation_p.R540H	NM_002839.3	NP_002830.1	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	540	Fibronectin type-III 3. {ECO:0000255|PROSITE-ProRule:PRU00316}.				heterophilic cell-cell adhesion (GO:0007157)|neuron differentiation (GO:0030182)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphate-containing compound metabolic process (GO:0006796)|positive regulation of dendrite morphogenesis (GO:0050775)|presynaptic membrane assembly (GO:0097105)|protein dephosphorylation (GO:0006470)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	cell adhesion molecule binding (GO:0050839)|receptor binding (GO:0005102)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(1)|breast(7)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(22)|liver(1)|lung(83)|ovary(4)|pancreas(1)|prostate(7)|skin(19)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	168		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)		GGTATCTGAACGTGGAGGTGT	0.448										TSP Lung(15;0.13)																																						0								C	HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG	0,4406		0,0,2203	227	201	209		1610,1589,1619,1619,1619,1601	6.1	1	9		209	2,8598	2.2+/-6.3	0,2,4298	no	missense,missense,missense,missense,missense,missense	PTPRD	NM_001040712.2,NM_001171025.1,NM_002839.3,NM_130391.3,NM_130392.3,NM_130393.3	29,29,29,29,29,29	0,2,6501	TT,TC,CC		0.0233,0.0,0.0154	probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging	537/1503,530/1506,540/1913,540/1506,540/1507,534/1497	8507359	2,13004	2203	4300	6503	SO:0001583	missense	5789			X54133	CCDS6472.1, CCDS43786.1, CCDS6472.2, CCDS55288.1, CCDS55289.1, CCDS55290.1, CCDS75813.1	9p24.1-p23	2013-02-11			ENSG00000153707	ENSG00000153707		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	9668	protein-coding gene	gene with protein product		601598				7896816, 8355697	Standard	NM_002839		Approved	PTPD, HPTP	uc003zkk.3	P23468	OTTHUMG00000021005	ENST00000381196.4:c.1619G>A	9.37:g.8507359C>T	ENSP00000370593:p.Arg540His	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALA0|F5GWT7|Q3KPJ0|Q3KPJ1|Q3KPJ2	Missense_Mutation	SNP	ENST00000381196.4	37	CCDS43786.1	.	.	.	.	.	.	.	.	.	.	C	24.8	4.574809	0.86542	0.0	2.33E-4	ENSG00000153707	ENST00000381196;ENST00000356435;ENST00000360074;ENST00000358503;ENST00000355233;ENST00000397617;ENST00000397611;ENST00000537002;ENST00000346816;ENST00000540109;ENST00000486161;ENST00000397606	T;T;T;T;T;T;T;T;T;T;T	0.58060	0.36;0.36;0.36;0.36;0.36;0.36;0.36;0.36;0.36;0.36;0.36	6.06	6.06	0.98353	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.053957	0.85682	D	0.000000	T	0.68641	0.3023	L	0.52266	1.64	0.50813	D	0.999898	D;D;D;P;D;D;B;D;D	0.76494	0.985;0.97;0.985;0.938;0.999;0.963;0.44;0.984;0.995	P;P;P;P;D;P;B;P;D	0.68353	0.666;0.666;0.666;0.666;0.955;0.536;0.069;0.767;0.957	T	0.62732	-0.6792	9	.	.	.	.	20.6397	0.99537	0.0:1.0:0.0:0.0	.	530;534;540;540;537;537;527;540;540	Q3KPJ2;Q3KPI9;Q3KPJ0;Q3KPJ1;F5GWT7;F5GWY7;G3XAE2;Q2HXI4;P23468	.;.;.;.;.;.;.;.;PTPRD_HUMAN	H	540;540;527;527;540;530;537;537;540;540;540;530	ENSP00000370593:R540H;ENSP00000348812:R540H;ENSP00000353187:R527H;ENSP00000351293:R527H;ENSP00000347373:R540H;ENSP00000380741:R530H;ENSP00000380735:R537H;ENSP00000440515:R537H;ENSP00000438164:R540H;ENSP00000417093:R540H;ENSP00000380731:R530H	.	R	-	2	0	PTPRD	8497359	0.999000	0.42202	0.998000	0.56505	0.958000	0.62258	1.867000	0.39499	2.880000	0.98712	0.650000	0.86243	CGT		0.448	PTPRD-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055395.3			T	8507359	C	T	8507359	3	4	664	1	0	0	0	0	1	0	0	0	12812	536	19	1	4287	1	PTPRD	9	8507359	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	21536	8507359	132706072	462	41772										
BNC2	54796	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	16552695	16552695	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caggctgctgatgtcaaacaCgacgttggactgcacaatct	10	11	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:16552695C>T	ENST00000380672.4	-	5	559	c.502G>A	c.(502-504)Gtg>Atg	p.V168M	BNC2_ENST00000380667.2_Missense_Mutation_p.V101M|BNC2_ENST00000380666.2_Missense_Mutation_p.V168M|BNC2_ENST00000545497.1_Missense_Mutation_p.V73M	NM_017637.5	NP_060107.3			basonuclin 2											NS(2)|breast(3)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(16)|liver(1)|lung(22)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	60				GBM - Glioblastoma multiforme(50;9.01e-08)		ATGTCAAACACGACGTTGGAC	0.562																																																0													141	113	123					9																	16552695		2203	4300	6503	SO:0001583	missense	54796			AK092247	CCDS6482.2	9p22.2	2013-05-20			ENSG00000173068	ENSG00000173068		"Zinc fingers, C2H2-type"	30988	protein-coding gene	gene with protein product		608669				14702039	Standard	XM_006716784		Approved	BSN2, FLJ20043	uc003zml.3	Q6ZN30	OTTHUMG00000019593	ENST00000380672.4:c.502G>A	9.37:g.16552695C>T	ENSP00000370047:p.Val168Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000380672.4	37	CCDS6482.2	.	.	.	.	.	.	.	.	.	.	C	34	5.384721	0.95967	.	.	ENSG00000173068	ENST00000380672;ENST00000418777;ENST00000456672;ENST00000436939;ENST00000380667;ENST00000545497;ENST00000380666;ENST00000540340;ENST00000451290	T;T;T;T;T	0.03860	3.78;3.78;3.78;3.78;3.78	5.98	5.98	0.97165	.	0.000000	0.85682	D	0.000000	T	0.23806	0.0576	M	0.69823	2.125	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;0.998	D;D;D;D;D	0.91635	0.999;0.996;0.996;0.988;0.967	T	0.00018	-1.2373	10	0.87932	D	0	-19.1872	20.4366	0.99092	0.0:1.0:0.0:0.0	.	73;205;168;126;168	F5H586;Q06HC4;Q6ZN30-2;Q5H9S4;Q6ZN30	.;.;.;.;BNC2_HUMAN	M	168;125;205;196;101;73;168;168;91	ENSP00000370047:V168M;ENSP00000408370:V125M;ENSP00000370042:V101M;ENSP00000444640:V73M;ENSP00000370041:V168M	ENSP00000370041:V168M	V	-	1	0	BNC2	16542695	1.000000	0.71417	1.000000	0.80357	0.969000	0.65631	7.818000	0.86416	2.837000	0.97791	0.591000	0.81541	GTG		0.562	BNC2-008	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000216901.5	NM_017637		T	16552695	C	T	16552695	3	4	664	1	0	0	0	0	1	0	0	0	1475	536	19	1	2809	1	BNC2	9	16552695	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	8045336	16552695	124660736	463	41773										
PLIN2	123	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr9	19121114	19121114	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggccccagtcacagtagtcGtcacagcatcttttgcccca	8	15	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:19121114G>A	ENST00000276914.2	-	5	538	c.359C>T	c.(358-360)aCg>aTg	p.T120M	PLIN2_ENST00000411567.1_Missense_Mutation_p.T120M	NM_001122.3	NP_001113.2	Q99541	PLIN2_HUMAN	perilipin 2	120					cellular lipid metabolic process (GO:0044255)|lipid storage (GO:0019915)|long-chain fatty acid transport (GO:0015909)|response to drug (GO:0042493)|response to organic cyclic compound (GO:0014070)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|lipid particle (GO:0005811)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(5)|ovary(2)|pancreas(1)|prostate(1)|skin(1)	19						CACAGTAGTCGTCACAGCATC	0.532																																																0													100	84	90					9																	19121114		2203	4300	6503	SO:0001583	missense	123			X97324	CCDS6490.1	9p22.1	2009-08-12	2009-08-12	2009-08-12	ENSG00000147872	ENSG00000147872		"Perilipins"	248	protein-coding gene	gene with protein product	"adipophilin"	103195	"adipose differentiation-related protein"	ADFP		9003395, 19638644	Standard	NM_001122		Approved	ADRP	uc003zno.3	Q99541	OTTHUMG00000019624	ENST00000276914.2:c.359C>T	9.37:g.19121114G>A	ENSP00000276914:p.Thr120Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BSC3	Missense_Mutation	SNP	ENST00000276914.2	37	CCDS6490.1	.	.	.	.	.	.	.	.	.	.	G	17.61	3.431934	0.62844	.	.	ENSG00000147872	ENST00000411567;ENST00000276914;ENST00000434144	T;T;T	0.06142	3.87;3.87;3.34	5.27	2.36	0.29203	.	0.901065	0.09834	N	0.749763	T	0.21427	0.0516	M	0.78637	2.42	0.21897	N	0.999485	P;D	0.89917	0.716;1.0	B;D	0.78314	0.207;0.991	T	0.10730	-1.0617	10	0.34782	T	0.22	.	6.7118	0.23282	0.1485:0.0:0.7089:0.1425	.	120;120	E9PG83;Q99541	.;PLIN2_HUMAN	M	120	ENSP00000415270:T120M;ENSP00000276914:T120M;ENSP00000403421:T120M	ENSP00000276914:T120M	T	-	2	0	PLIN2	19111114	1.000000	0.71417	0.457000	0.27056	0.879000	0.50718	5.870000	0.69620	0.297000	0.22615	0.555000	0.69702	ACG		0.532	PLIN2-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051835.1	NM_001122		A	19121114	G	A	19121114	3	1	664	1	0	0	0	0	1	0	0	0	12097	1145	40	1	970	1	PLIN2	9	19121114	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2568419	19121114	122092317	464	41774										
LINGO2	158038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	27949033	27949033	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggaatgtgaagcagcccataGctgtagacaccagtattgtt	11	8	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:27949033G>T	ENST00000379992.2	-	6	2086	c.1637C>A	c.(1636-1638)gCt>gAt	p.A546D	LINGO2_ENST00000308675.3_Missense_Mutation_p.A546D	NM_152570.2	NP_689783.1	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	546						integral component of membrane (GO:0016021)				autonomic_ganglia(1)|breast(2)|central_nervous_system(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|liver(1)|lung(13)|ovary(2)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)	44	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		GCAGCCCATAGCTGTAGACAC	0.448																																																0													125	114	118					9																	27949033		2203	4300	6503	SO:0001583	missense	158038			AL353746	CCDS6524.1	9p21.2	2013-01-11	2007-02-01	2007-02-01	ENSG00000174482	ENSG00000174482		"Immunoglobulin superfamily / I-set domain containing"	21207	protein-coding gene	gene with protein product		609793	"leucine rich repeat neuronal 6C"	LRRN6C		14686891	Standard	NM_152570		Approved	LERN3	uc003zqu.2	Q7L985	OTTHUMG00000019721	ENST00000379992.2:c.1637C>A	9.37:g.27949033G>T	ENSP00000369328:p.Ala546Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4K7|B2RPM5|Q6ZMD0	Missense_Mutation	SNP	ENST00000379992.2	37	CCDS6524.1	.	.	.	.	.	.	.	.	.	.	G	18.17	3.564630	0.65651	.	.	ENSG00000174482	ENST00000379992;ENST00000308675	T;T	0.58940	0.3;0.3	5.83	5.83	0.93111	.	0.000000	0.85682	D	0.000000	T	0.76090	0.3939	M	0.69823	2.125	0.80722	D	1	D	0.71674	0.998	D	0.71656	0.974	T	0.73962	-0.3817	9	.	.	.	.	20.1184	0.97949	0.0:0.0:1.0:0.0	.	546	Q7L985	LIGO2_HUMAN	D	546	ENSP00000369328:A546D;ENSP00000310126:A546D	.	A	-	2	0	LINGO2	27939033	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.869000	0.99810	2.769000	0.95229	0.655000	0.94253	GCT		0.448	LINGO2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051978.2	NM_152570		T	27949033	G	T	27949033	3	4	664	1	0	0	0	0	1	0	0	0	8822	971	34	4	187	4	LINGO2	9	27949033	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	8827919	27949033	113264398	465	41775										
CCL27	10850	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr9	34661943	34661943	+	Nonstop_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atttggctattgggggcttcAgcccattttccttagcatcc	9	11	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:34661943A>G	ENST00000259631.4	-	3	395	c.337T>C	c.(337-339)Tga>Cga	p.*113R	RP11-195F19.30_ENST00000564224.1_RNA|CCL27_ENST00000557161.1_5'UTR	NM_006664.2	NP_006655.1	Q9Y4X3	CCL27_HUMAN	chemokine (C-C motif) ligand 27	0					cell chemotaxis (GO:0060326)|cell-cell signaling (GO:0007267)|chemotaxis (GO:0006935)|immune response (GO:0006955)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	chemokine activity (GO:0008009)			kidney(1)|large_intestine(3)|ovary(1)	5	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.173)		TGGGGGCTTCAGCCCATTTTC	0.453																																																0													86	96	93					9																	34661943		2203	4300	6503	SO:0001578	stop_lost	10850			AJ243542	CCDS6569.1	9p13	2014-05-16	2002-08-22	2002-08-23	ENSG00000213927	ENSG00000213927		"Chemokine ligands", "Endogenous ligands"	10626	protein-coding gene	gene with protein product	"CC chemokine ILC", "IL-11 Ralpha-locus chemokine", "cutaneous T-cell attracting chemokine"	604833	"small inducible cytokine subfamily A (Cys-Cys), member 27"	SCYA27		10556532, 10588729	Standard	NM_006664		Approved	ALP, ILC, CTACK, skinkine, ESkine, PESKY, CTAK	uc003zvm.1	Q9Y4X3	OTTHUMG00000019834	ENST00000259631.4:c.337T>C	9.37:g.34661943A>G	ENSP00000259631:p.*113Glyext*4	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000259631.4	37	CCDS6569.1	.	.	.	.	.	.	.	.	.	.	A	1.604	-0.525897	0.04141	.	.	ENSG00000213927	ENST00000259631	.	.	.	4.33	-7.15	0.01521	.	.	.	.	.	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	5.5354	0.17007	0.3557:0.0:0.4179:0.2263	.	.	.	.	R	113	.	.	X	-	1	0	CCL27	34651943	0.000000	0.05858	0.000000	0.03702	0.522000	0.34438	-0.630000	0.05502	-1.556000	0.01695	-0.256000	0.11100	TGA		0.453	CCL27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052228.1	NM_006664		G	34661943	A	G	34661943	4	3	664	1	0	0	0	0	0	0	0	0	2901	201	7	3	5	3	CCL27	9	34661943	Nonstop_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	6712910	34661943	106551488	466	41776										
PIGO	84720	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	35095327	35095327	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggggctgggcgaagtcaaatCgcagagcatctatcagcacc	13	11	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:35095327C>T	ENST00000378617.3	-	2	630	c.236G>A	c.(235-237)cGa>cAa	p.R79Q	RP11-182N22.8_ENST00000431804.1_RNA|PIGO_ENST00000341666.3_Missense_Mutation_p.R79Q|PIGO_ENST00000361778.2_Missense_Mutation_p.R79Q|PIGO_ENST00000492770.1_5'UTR|PIGO_ENST00000298004.5_Missense_Mutation_p.R79Q	NM_032634.3	NP_116023.2	Q8TEQ8	PIGO_HUMAN	phosphatidylinositol glycan anchor biosynthesis, class O	79					C-terminal protein lipidation (GO:0006501)|cellular protein metabolic process (GO:0044267)|GPI anchor biosynthetic process (GO:0006506)|post-translational protein modification (GO:0043687)|preassembly of GPI anchor in ER membrane (GO:0016254)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	transferase activity (GO:0016740)			endometrium(3)|kidney(2)|large_intestine(8)|lung(13)|ovary(3)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(3)	38			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GAAGTCAAATCGCAGAGCATC	0.602																																																0													102	102	102					9																	35095327		2203	4300	6503	SO:0001583	missense	84720			AB083625	CCDS6575.1, CCDS6576.1	9p13.2	2013-02-26	2006-06-28		ENSG00000165282	ENSG00000165282		"Phosphatidylinositol glycan anchor biosynthesis"	23215	protein-coding gene	gene with protein product		614730	"phosphatidylinositol glycan, class O"			10781593	Standard	NM_032634		Approved	DKFZp434M222, FLJ00135	uc003zwd.3	Q8TEQ8	OTTHUMG00000019854	ENST00000378617.3:c.236G>A	9.37:g.35095327C>T	ENSP00000367880:p.Arg79Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B1AML3|Q6P154|Q6UX80|Q8TDS8|Q96CS9|Q9BVN9|Q9Y4B0	Missense_Mutation	SNP	ENST00000378617.3	37	CCDS6575.1	.	.	.	.	.	.	.	.	.	.	C	24.9	4.577399	0.86645	.	.	ENSG00000165282	ENST00000298004;ENST00000378617;ENST00000341666;ENST00000361778	T;T;T;T	0.35048	1.33;1.33;1.33;1.33	5.54	5.54	0.83059	Alkaline phosphatase-like, alpha/beta/alpha (1);Alkaline-phosphatase-like, core domain (1);	0.094005	0.48767	D	0.000164	T	0.59783	0.2219	M	0.91038	3.17	0.42183	D	0.991692	D;D	0.69078	0.981;0.997	B;P	0.57425	0.43;0.82	T	0.68481	-0.5397	10	0.72032	D	0.01	-37.321	9.3963	0.38404	0.0:0.8023:0.0:0.1977	.	79;79	Q8TEQ8-2;Q8TEQ8	.;PIGO_HUMAN	Q	79	ENSP00000298004:R79Q;ENSP00000367880:R79Q;ENSP00000339382:R79Q;ENSP00000354678:R79Q	ENSP00000298004:R79Q	R	-	2	0	PIGO	35085327	0.991000	0.36638	1.000000	0.80357	0.914000	0.54420	1.499000	0.35671	2.628000	0.89032	0.563000	0.77884	CGA		0.602	PIGO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052284.1	NM_032634		T	35095327	C	T	35095327	3	4	664	1	0	0	0	0	1	0	0	0	11901	884	31	1	3073	1	PIGO	9	35095327	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	433384	35095327	106118104	467	41777										
UNC13B	10497	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr9	35396917	35396917	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcctgcgtggggccctggaaCgagataagaaggatggagta	16	7	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:35396917C>T	ENST00000378495.3	+	27	3490	c.3268C>T	c.(3268-3270)Cga>Tga	p.R1090*	UNC13B_ENST00000481299.1_3'UTR|UNC13B_ENST00000378496.4_Nonsense_Mutation_p.R1090*|UNC13B_ENST00000396787.1_Nonsense_Mutation_p.R1102*	NM_006377.3	NP_006368.3	O14795	UN13B_HUMAN	unc-13 homolog B (C. elegans)	1090	MHD1. {ECO:0000255|PROSITE- ProRule:PRU00587}.				apoptotic process (GO:0006915)|excretion (GO:0007588)|innervation (GO:0060384)|intracellular signal transduction (GO:0035556)|neuromuscular junction development (GO:0007528)|positive regulation of inhibitory postsynaptic membrane potential (GO:0097151)|positive regulation of synaptic vesicle priming (GO:0010808)|regulation of short-term neuronal synaptic plasticity (GO:0048172)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|synaptic vesicle docking involved in exocytosis (GO:0016081)|synaptic vesicle priming (GO:0016082)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|neuromuscular junction (GO:0031594)|plasma membrane (GO:0005886)|presynaptic active zone (GO:0048786)|terminal bouton (GO:0043195)	diacylglycerol binding (GO:0019992)|metal ion binding (GO:0046872)|receptor activity (GO:0004872)|signal transducer activity (GO:0004871)			breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(16)|liver(2)|lung(17)|ovary(3)|pancreas(1)|prostate(3)|skin(6)|upper_aerodigestive_tract(3)|urinary_tract(1)	63	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			GGCCCTGGAACGAGATAAGAA	0.552																																																0													156	154	155					9																	35396917		2203	4300	6503	SO:0001587	stop_gained	10497			AF020202	CCDS6579.1	9p13.3	2008-05-15	2003-10-17	2003-10-17	ENSG00000198722	ENSG00000198722			12566	protein-coding gene	gene with protein product		605836	"unc-13-like (C. elegans)"	UNC13		9607201	Standard	NM_006377		Approved	hmunc13, Unc13h2	uc003zwq.3	O14795	OTTHUMG00000019856	ENST00000378495.3:c.3268C>T	9.37:g.35396917C>T	ENSP00000367756:p.Arg1090*	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VYM8	Nonsense_Mutation	SNP	ENST00000378495.3	37	CCDS6579.1	.	.	.	.	.	.	.	.	.	.	C	44	10.552975	0.99426	.	.	ENSG00000198722	ENST00000396787;ENST00000378495;ENST00000378496;ENST00000535471	.	.	.	5.7	4.73	0.59995	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-8.6976	13.3613	0.60657	0.2371:0.7629:0.0:0.0	.	.	.	.	X	1102;1090;1090;677	.	ENSP00000367756:R1090X	R	+	1	2	UNC13B	35386917	1.000000	0.71417	1.000000	0.80357	0.974000	0.67602	1.446000	0.35090	2.682000	0.91365	0.563000	0.77884	CGA		0.552	UNC13B-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000052296.1	NM_006377		T	35396917	C	T	35396917	4	4	664	1	0	0	0	0	0	1	0	0	16997	528	19	1	3374	1	UNC13B	9	35396917	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	301590	35396917	105816514	468	41778										
C9orf100	84904	broad.mit.edu;hgsc.bcm.edu	37	chr9	35664388	35664389	+	Frame_Shift_Del	DEL	CT	CT	-													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctgcagggtggtctgggacCtctctgagttggcagcaaat					rs139646420	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:35664388_35664389delCT	ENST00000378387.3	-	3	451_452	c.334_335delAG	c.(334-336)aggfs	p.R112fs	ARHGEF39_ENST00000490970.1_5'UTR|ARHGEF39_ENST00000378395.2_Frame_Shift_Del_p.R76fs|ARHGEF39_ENST00000343259.3_Frame_Shift_Del_p.R112fs	NM_032818.2	NP_116207.2	Q8N4T4	ARG39_HUMAN	Rho guanine nucleotide exchange factor (GEF) 39	112	DH. {ECO:0000255|PROSITE- ProRule:PRU00062}.				positive regulation of cell migration (GO:0030335)	plasma membrane (GO:0005886)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)										GGTCTGGGACCTCTCTGAGTTG	0.545																																																0																																										SO:0001589	frameshift_variant	84904			AK001187	CCDS6584.2	9p13.3	2012-08-08	2012-08-08	2012-08-08	ENSG00000137135	ENSG00000137135			25909	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 100"	C9orf100		22327280	Standard	XR_242516		Approved	FLJ14642	uc003zxm.1	Q8N4T4	OTTHUMG00000019869	ENST00000378387.3:c.334_335delAG	9.37:g.35664392_35664393delCT	ENSP00000367638:p.Arg112fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q49AG0|Q6TPQ2|Q96ST6	Frame_Shift_Del	DEL	ENST00000378387.3	37	CCDS6584.2																																																																																				0.545	ARHGEF39-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052330.1	NM_032818		-	35664389	CT	-	35664388	7	5	664	1	0	1	0	1	0	0	0	0	2446	681	24	0	700	0	C9orf100	9	35664388	Frame_Shift_Del	DEL	CT	TCGA-KN-8428-01A-11D-2310-10	267471	35664388	105549043	469	41779	396	2								
C9orf100	84904	bcgsc.ca	37	chr9	35664389	35664390	+	Frame_Shift_Del	DEL	CT	CT	-													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgcagggtggtctgggaccTctctgagttggcagcaaatt							TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:35664389_35664390delCT	ENST00000378387.3	-	3	450_451	c.333_334delAG	c.(331-336)gaagggfs	p.G112fs	ARHGEF39_ENST00000490970.1_5'UTR|ARHGEF39_ENST00000378395.2_Frame_Shift_Del_p.G76fs|ARHGEF39_ENST00000343259.3_Frame_Shift_Del_p.G112fs	NM_032818.2	NP_116207.2	Q8N4T4	ARG39_HUMAN	Rho guanine nucleotide exchange factor (GEF) 39	112	DH. {ECO:0000255|PROSITE- ProRule:PRU00062}.				positive regulation of cell migration (GO:0030335)	plasma membrane (GO:0005886)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)										GTCTGGGACCTCTCTGAGTTGG	0.55																																																0																																										SO:0001589	frameshift_variant	84904			AK001187	CCDS6584.2	9p13.3	2012-08-08	2012-08-08	2012-08-08	ENSG00000137135	ENSG00000137135			25909	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 100"	C9orf100		22327280	Standard	XR_242516		Approved	FLJ14642	uc003zxm.1	Q8N4T4	OTTHUMG00000019869	ENST00000378387.3:c.333_334delAG	9.37:g.35664389_35664390delCT	ENSP00000367638:p.Gly112fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q49AG0|Q6TPQ2|Q96ST6	Frame_Shift_Del	DEL	ENST00000378387.3	37	CCDS6584.2																																																																																				0.55	ARHGEF39-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052330.1	NM_032818		-	35664390	CT	-	35664389	7	5	664	1	0	1	0	1	0	0	0	0	2446	1550	54	0	701	0	C9orf100	9	35664389	Frame_Shift_Del	DEL	CT	TCGA-KN-8428-01A-11D-2310-10	1	35664389	105549042	470	41780	396	2								
CREB3	57704	broad.mit.edu	37	chr9	35736467	35736467	+	IGR	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgccctgcagtcagaagtgcCgaaagacagcacacaccagt	10	13	1	2	rs190901541		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:35736467C>T	ENST00000378103.3	-	0	3611				CREB3_ENST00000486056.1_3'UTR|CREB3_ENST00000353704.2_Missense_Mutation_p.P287L|GBA2_ENST00000467252.1_5'Flank	NM_020944.2	NP_065995.1	Q9HCG7	GBA2_HUMAN	glucosidase, beta (bile acid) 2						bile acid metabolic process (GO:0008206)|cell death (GO:0008219)|central nervous system neuron development (GO:0021954)|glucosylceramide catabolic process (GO:0006680)|glycoside catabolic process (GO:0016139)|glycosphingolipid metabolic process (GO:0006687)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|smooth endoplasmic reticulum (GO:0005790)	beta-glucosidase activity (GO:0008422)|glucosylceramidase activity (GO:0004348)			NS(1)|kidney(3)|large_intestine(5)|lung(5)|ovary(4)|skin(3)	21	all_epithelial(49;0.167)		Lung(28;0.00416)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TCAGAAGTGCCGAAAGACAGC	0.587											OREG0019176	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	C|||	1	0.000199681	0.0	0.0	5008	,	,		19716	0.001		0.0	False		,,,				2504	0.0															0													95	88	91					9																	35736467		2203	4300	6503	SO:0001628	intergenic_variant	10488			AJ309567	CCDS6589.1	9p13.2	2013-09-11			ENSG00000070610	ENSG00000070610			18986	protein-coding gene	gene with protein product	"bile acid beta-glucosidase", "non-lysosomal glucosylceramidase"	609471	"spastic paraplegia 46 (autosomal recessive)"	SPG46		11489889, 23332916, 23332917	Standard	NM_020944		Approved	KIAA1605, AD035, DKFZp762K054	uc003zxw.3	Q9HCG7	OTTHUMG00000021024		9.37:g.35736467C>T		Somatic	857	WXS	Illumina HiSeq	Phase_I	D3DRP2|Q5TCV6|Q96A51|Q96LY1|Q96SJ2|Q9H2L8	Missense_Mutation	SNP	ENST00000378103.3	37	CCDS6589.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	C	7.427	0.637911	0.14386	.	.	ENSG00000107175	ENST00000353704	T	0.64260	-0.09	5.38	2.5	0.30297	.	0.850382	0.10376	N	0.682185	T	0.47691	0.1459	L	0.31926	0.97	0.58432	D	0.999993	B;B	0.24768	0.111;0.054	B;B	0.14578	0.011;0.007	T	0.37079	-0.9721	10	0.41790	T	0.15	.	7.2495	0.26142	0.1394:0.7099:0.0:0.1506	.	311;287	O43889;O43889-2	CREB3_HUMAN;.	L	287	ENSP00000342136:P287L	ENSP00000342136:P287L	P	+	2	0	CREB3	35726467	0.000000	0.05858	0.995000	0.50966	0.182000	0.23217	-0.013000	0.12678	0.759000	0.33084	-0.137000	0.14449	CCG		0.587	GBA2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000055456.1	NM_020944		T	35736467	C	T	35736467	1	4	664	0	1	0	0	0	0	0	0	0	3857	652	23	1		1	CREB3	9	35736467	IGR	SNP	C	TCGA-KN-8428-01A-11D-2310-10	72078	35736467	105476964	471	41781										
CNTNAP3	79937	broad.mit.edu	37	chr9	39177437	39177437	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gacggaatgccagtgctggtCgtccagcaggctgcccaggg	16	12	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:39177437C>T	ENST00000297668.6	-	6	878	c.805G>A	c.(805-807)Gac>Aac	p.D269N	CNTNAP3_ENST00000377653.2_5'UTR|CNTNAP3_ENST00000358144.2_Missense_Mutation_p.D181N|CNTNAP3_ENST00000323947.7_Missense_Mutation_p.D269N|CNTNAP3_ENST00000377659.1_Missense_Mutation_p.D269N|CNTNAP3_ENST00000377656.2_Missense_Mutation_p.D269N	NM_033655.3	NP_387504.2	Q9BZ76	CNTP3_HUMAN	contactin associated protein-like 3	269	Laminin G-like 1. {ECO:0000255|PROSITE- ProRule:PRU00122}.				cell adhesion (GO:0007155)|cell recognition (GO:0008037)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(1)|endometrium(3)|kidney(2)|large_intestine(5)|liver(2)|lung(8)|ovary(1)|upper_aerodigestive_tract(2)	24				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		CAGTGCTGGTCGTCCAGCAGG	0.507																																																0													70	64	66					9																	39177437		2203	4300	6503	SO:0001583	missense	79937			AF333769	CCDS6616.1	9q12	2008-02-05			ENSG00000106714	ENSG00000106714			13834	protein-coding gene	gene with protein product	"cell recognition molecule CASPR3 (FLJ14195, KIAA1714)"	610517				12093160	Standard	NM_033655		Approved	CASPR3, KIAA1714, FLJ14195, CNTNAP3A	uc004abi.3	Q9BZ76	OTTHUMG00000019954	ENST00000297668.6:c.805G>A	9.37:g.39177437C>T	ENSP00000297668:p.Asp269Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B1AMA0|Q9C0E9	Missense_Mutation	SNP	ENST00000297668.6	37	CCDS6616.1	.	.	.	.	.	.	.	.	.	.	C	22.8	4.337218	0.81911	.	.	ENSG00000106714	ENST00000297668;ENST00000377656;ENST00000358144;ENST00000323947;ENST00000377659;ENST00000377653	D;D;D;D;D	0.85773	-2.03;-2.03;-2.03;-2.03;-2.03	3.12	3.12	0.35913	Concanavalin A-like lectin/glucanase (2);Concanavalin A-like lectin/glucanase, subgroup (2);Laminin G domain (4);Laminin G, subdomain 2 (2);	.	.	.	.	D	0.92919	0.7747	M	0.90425	3.115	0.38141	D	0.938449	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.91635	0.999;0.997;0.932;0.999;0.976	D	0.94840	0.8004	9	0.66056	D	0.02	.	13.3498	0.60595	0.0:1.0:0.0:0.0	.	269;269;269;269;269	E2QRH2;Q96NU0;Q9BZ76-2;A6NC89;Q9BZ76	.;CNT3B_HUMAN;.;.;CNTP3_HUMAN	N	269;269;181;269;269;181	ENSP00000297668:D269N;ENSP00000366884:D269N;ENSP00000350863:D181N;ENSP00000320728:D269N;ENSP00000366887:D269N	ENSP00000297668:D269N	D	-	1	0	CNTNAP3	39167437	1.000000	0.71417	0.189000	0.23252	0.940000	0.58332	6.462000	0.73526	1.735000	0.51646	0.558000	0.71614	GAC		0.507	CNTNAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052511.1	NM_033655		T	39177437	C	T	39177437	3	4	664	1	0	0	0	0	1	0	0	0	3650	884	31	1	3137	1	CNTNAP3	9	39177437	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3440970	39177437	102035994	472	41782										
FXN	2395	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr9	71668178	71668178	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctatgatgtctcctttggggTacctcttgacttcttttatt	7	9	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:71668178T>C	ENST00000377270.3	+	3	908		c.e3+2		FXN_ENST00000498653.1_Splice_Site|FXN_ENST00000396364.3_Splice_Site|FXN_ENST00000396366.2_Splice_Site	NM_000144.4	NP_000135.2	Q16595	FRDA_HUMAN	frataxin						adult walking behavior (GO:0007628)|aerobic respiration (GO:0009060)|cellular iron ion homeostasis (GO:0006879)|cellular response to hydrogen peroxide (GO:0070301)|embryo development ending in birth or egg hatching (GO:0009792)|heme biosynthetic process (GO:0006783)|ion transport (GO:0006811)|iron incorporation into metallo-sulfur cluster (GO:0018283)|mitochondrion organization (GO:0007005)|negative regulation of apoptotic process (GO:0043066)|negative regulation of multicellular organism growth (GO:0040015)|negative regulation of organ growth (GO:0046621)|negative regulation of release of cytochrome c from mitochondria (GO:0090201)|oxidative phosphorylation (GO:0006119)|positive regulation of cell growth (GO:0030307)|positive regulation of cell proliferation (GO:0008284)|positive regulation of lyase activity (GO:0051349)|positive regulation of metalloenzyme activity (GO:0048554)|positive regulation of oxidoreductase activity (GO:0051353)|positive regulation of transferase activity (GO:0051347)|proprioception (GO:0019230)|protein autoprocessing (GO:0016540)|regulation of ferrochelatase activity (GO:0010722)|response to iron ion (GO:0010039)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	2 iron, 2 sulfur cluster binding (GO:0051537)|ferric iron binding (GO:0008199)|ferrous iron binding (GO:0008198)|ferroxidase activity (GO:0004322)|iron chaperone activity (GO:0034986)|iron-sulfur cluster binding (GO:0051536)			large_intestine(1)|lung(1)	2						TCCTTTGGGGTACCTCTTGAC	0.413																																																0													174	185	182					9																	71668178		2203	4300	6503	SO:0001630	splice_region_variant	2395			U43752	CCDS6626.1, CCDS43834.1, CCDS55313.1	9q21.11	2014-09-17	2004-08-16	2004-08-19	ENSG00000165060	ENSG00000165060			3951	protein-coding gene	gene with protein product		606829	"Friedreich ataxia"	FRDA		8596916, 8841185	Standard	NM_000144		Approved	FA, FARR, X25, CyaY	uc004aha.2	Q16595	OTTHUMG00000019977	ENST00000377270.3:c.384+2T>C	9.37:g.71668178T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8MXJ6|C9JJ89|O15545|O95656|Q15294|Q5VZ01	Splice_Site	SNP	ENST00000377270.3	37	CCDS6626.1	.	.	.	.	.	.	.	.	.	.	T	16.47	3.131134	0.56828	.	.	ENSG00000165060	ENST00000377270;ENST00000396364;ENST00000396366;ENST00000498653	.	.	.	5.46	5.46	0.80206	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.5414	0.67997	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	FXN	70857998	1.000000	0.71417	0.993000	0.49108	0.685000	0.39939	5.378000	0.66190	2.076000	0.62316	0.523000	0.50628	.		0.413	FXN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052568.2	NM_000144	Intron	C	71668178	T	C	71668178	5	2	664	1	0	0	0	0	0	0	1	0	6121	1652	57	3	396	3	FXN	9	71668178	Splice_Site	SNP	T	TCGA-KN-8428-01A-11D-2310-10	32490741	71668178	69545253	473	41783										
PCSK5	5125	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr9	78641898	78641898	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atgctctggcaagttgcgacGtgaatgggaatgacttggac	14	7	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:78641898G>A	ENST00000545128.1	+	5	1115	c.577G>A	c.(577-579)Gtg>Atg	p.V193M	PCSK5_ENST00000376752.4_Missense_Mutation_p.V193M|PCSK5_ENST00000376767.3_Missense_Mutation_p.V193M	NM_001190482.1	NP_001177411.1	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	193	Peptidase S8.				anterior/posterior pattern specification (GO:0009952)|cell-cell signaling (GO:0007267)|cytokine biosynthetic process (GO:0042089)|embryo implantation (GO:0007566)|embryonic digestive tract development (GO:0048566)|embryonic skeletal system development (GO:0048706)|heart development (GO:0007507)|kidney development (GO:0001822)|limb morphogenesis (GO:0035108)|nerve growth factor processing (GO:0032455)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptide biosynthetic process (GO:0043043)|peptide hormone processing (GO:0016486)|protein processing (GO:0016485)|renin secretion into blood stream (GO:0002001)|respiratory tube development (GO:0030323)|signal peptide processing (GO:0006465)|viral life cycle (GO:0019058)	extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|secretory granule (GO:0030141)	peptidase activity (GO:0008233)|peptide binding (GO:0042277)|serine-type endopeptidase activity (GO:0004252)			NS(1)|breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(7)|liver(2)|lung(25)|ovary(2)|pancreas(1)|prostate(2)|skin(3)	55						AAGTTGCGACGTGAATGGGAA	0.512																																																0													147	115	126					9																	78641898		2203	4300	6503	SO:0001583	missense	5125				CCDS6652.1, CCDS55320.1	9q21.13	2013-09-24			ENSG00000099139	ENSG00000099139			8747	protein-coding gene	gene with protein product		600488				7782070	Standard	NM_001190482		Approved	PC5, PC6, SPC6	uc004akc.2	Q92824	OTTHUMG00000020039	ENST00000545128.1:c.577G>A	9.37:g.78641898G>A	ENSP00000446280:p.Val193Met	Somatic		WXS	Illumina HiSeq	Phase_I	F5H2G7|Q13527|Q96EP4	Missense_Mutation	SNP	ENST00000545128.1	37	CCDS55320.1	.	.	.	.	.	.	.	.	.	.	G	26.6	4.757070	0.89843	.	.	ENSG00000099139	ENST00000545128;ENST00000376767;ENST00000396108;ENST00000376752	D;D;D	0.88046	-2.33;-2.33;-2.33	5.28	5.28	0.74379	.	.	.	.	.	D	0.87103	0.6094	L	0.45470	1.425	0.58432	D	0.999999	P;D	0.55800	0.946;0.973	P;P	0.46585	0.466;0.521	D	0.88798	0.3283	9	0.87932	D	0	.	19.2859	0.94069	0.0:0.0:1.0:0.0	.	193;193	Q92824-2;B1AMG5	.;.	M	193	ENSP00000446280:V193M;ENSP00000365958:V193M;ENSP00000365943:V193M	ENSP00000365943:V193M	V	+	1	0	PCSK5	77831718	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.569000	0.82380	2.624000	0.88883	0.655000	0.94253	GTG		0.512	PCSK5-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding				A	78641898	G	A	78641898	3	1	664	1	0	0	0	0	1	0	0	0	11610	1145	40	1	595	1	PCSK5	9	78641898	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6973720	78641898	62571533	474	41784										
PRUNE2	158471	broad.mit.edu	37	chr9	79322501	79322501	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcttgatacccagaactgggTtgctggccccaggaggacag	13	11	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:79322501T>C	ENST00000376718.3	-	8	4812	c.4689A>G	c.(4687-4689)caA>caG	p.Q1563Q	PRUNE2_ENST00000428286.1_Silent_p.Q1204Q	NM_015225.2	NP_056040.2	Q8WUY3	PRUN2_HUMAN	prune homolog 2 (Drosophila)	1563					apoptotic process (GO:0006915)	cytoplasm (GO:0005737)	metal ion binding (GO:0046872)|pyrophosphatase activity (GO:0016462)			endometrium(1)|kidney(4)|large_intestine(3)|lung(7)|prostate(1)	16						CAGAACTGGGTTGCTGGCCCC	0.413																																																0													74	65	68					9																	79322501		1568	3582	5150	SO:0001819	synonymous_variant	158471			BC019095	CCDS47982.1	9q21.32	2013-04-29	2006-11-24	2006-11-24	ENSG00000106772	ENSG00000106772			25209	protein-coding gene	gene with protein product	"olfaxin"	610691	"chromosome 9 open reading frame 65", "KIAA0367"	C9orf65, KIAA0367		16288218	Standard	NM_015225		Approved	BMCC1, BNIPXL, A214N16.3, bA214N16.3	uc010mpk.3	Q8WUY3	OTTHUMG00000020047	ENST00000376718.3:c.4689A>G	9.37:g.79322501T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KYC4|B4DQH8|O15073|Q58A63|Q5JUB6|Q5T304|Q5T476|Q6T2V6|Q6T2V7|Q8N665	Silent	SNP	ENST00000376718.3	37	CCDS47982.1	.	.	.	.	.	.	.	.	.	.	T	0.009	-1.816420	0.00595	.	.	ENSG00000106772	ENST00000426088	.	.	.	5.8	2.31	0.28768	.	.	.	.	.	T	0.24699	0.0599	.	.	.	0.09310	N	1	.	.	.	.	.	.	T	0.18429	-1.0337	4	.	.	.	0.7131	3.6481	0.08192	0.1698:0.2838:0.0:0.5464	.	.	.	.	A	885	.	.	T	-	1	0	PRUNE2	78512321	0.003000	0.15002	0.006000	0.13384	0.029000	0.11900	-0.108000	0.10857	1.028000	0.39785	0.533000	0.62120	ACC		0.413	PRUNE2-003	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052730.2	NM_138818		C	79322501	T	C	79322501	2	2	664	1	0	0	0	0	0	0	0	1	12651	1722	60	3		3	PRUNE2	9	79322501	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	680603	79322501	61890930	475	41785										
C9orf64	84267	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr9	86571236	86571236	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagttgaccgcggcctcgtcGgccgccctggggttcagctc	14	16	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:86571236G>A	ENST00000376344.3	-	1	396	c.180C>T	c.(178-180)gcC>gcT	p.A60A	C9orf64_ENST00000376340.2_5'UTR|C9orf64_ENST00000314700.1_Intron	NM_032307.3	NP_115683.3	Q5T6V5	CI064_HUMAN	chromosome 9 open reading frame 64	60										central_nervous_system(1)|kidney(1)|large_intestine(4)|lung(8)|skin(1)	15						CGGCCTCGTCGGCCGCCCTGG	0.647																																																0													63	65	65					9																	86571236		1987	4159	6146	SO:0001819	synonymous_variant	84267			AK090882	CCDS6666.2	9q22.1	2014-06-11			ENSG00000165118	ENSG00000165118			28144	protein-coding gene	gene with protein product		611342				24911101	Standard	NM_032307		Approved	MGC10999	uc004anb.3	Q5T6V5	OTTHUMG00000020111	ENST00000376344.3:c.180C>T	9.37:g.86571236G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RPI6|Q8N2B1|Q9BT18	Silent	SNP	ENST00000376344.3	37	CCDS6666.2																																																																																				0.647	C9orf64-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052865.1	NM_032307		A	86571236	G	A	86571236	2	1	664	1	0	0	0	0	0	0	0	1	2491	1103	39	1		1	C9orf64	9	86571236	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	7248735	86571236	54642195	476	41786										
SLC28A3	64078	broad.mit.edu	37	chr9	86895780	86895780	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccacagagagcgtaagtggcGattatctcagaacgaatctg	11	9	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:86895780G>A	ENST00000376238.4	-	15	1714	c.1665C>T	c.(1663-1665)atC>atT	p.I555I	RP11-380F14.2_ENST00000419815.1_RNA|SLC28A3_ENST00000537648.1_Silent_p.I486I	NM_001199633.1|NM_022127.2	NP_001186562.1|NP_071410.1	Q9HAS3	S28A3_HUMAN	solute carrier family 28 (concentrative nucleoside transporter), member 3	555					pyrimidine nucleoside transport (GO:0015864)|transmembrane transport (GO:0055085)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	nucleoside binding (GO:0001882)|purine-specific nucleoside:sodium symporter activity (GO:0015390)|pyrimidine- and adenine-specific:sodium symporter activity (GO:0015389)			endometrium(2)|large_intestine(6)|lung(17)|ovary(1)|pancreas(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	31					Adenosine(DB00640)|Cladribine(DB00242)|Fludarabine(DB01073)|Gemcitabine(DB00441)|Mercaptopurine(DB01033)|Ribavirin(DB00811)	CGTAAGTGGCGATTATCTCAG	0.428																																					Ovarian(106;425 1539 34835 42413 43572)											0													160	134	143					9																	86895780		2203	4300	6503	SO:0001819	synonymous_variant	64078			AF305210	CCDS6670.1	9q21.33	2013-07-17	2013-07-17		ENSG00000197506	ENSG00000197506		"Solute carriers"	16484	protein-coding gene	gene with protein product		608269	"solute carrier family 28 (sodium-coupled nucleoside transporter), member 3"			11032837	Standard	NM_001199633		Approved	CNT3	uc010mpz.3	Q9HAS3	OTTHUMG00000020117	ENST00000376238.4:c.1665C>T	9.37:g.86895780G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K9Y4|B1AML0|B2RA51|B4E2S8|F5GYE3	Silent	SNP	ENST00000376238.4	37	CCDS6670.1																																																																																				0.428	SLC28A3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000052874.1	NM_022127		A	86895780	G	A	86895780	2	1	664	1	0	0	0	0	0	0	0	1	14546	1048	37	1		1	SLC28A3	9	86895780	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	324544	86895780	54317651	477	41787										
SHC3	53358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	91692802	91692802	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accaggcacagcttcacagaCgcggctgatggcttccctta	10	14	1	2	rs539726812		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:91692802C>T	ENST00000375835.4	-	3	868	c.562G>A	c.(562-564)Gtc>Atc	p.V188I	SHC3_ENST00000375830.1_5'UTR	NM_016848.5	NP_058544.3	Q92529	SHC3_HUMAN	SHC (Src homology 2 domain containing) transforming protein 3	188	PID. {ECO:0000255|PROSITE- ProRule:PRU00148}.				central nervous system development (GO:0007417)|epidermal growth factor receptor signaling pathway (GO:0007173)|insulin receptor signaling pathway (GO:0008286)|learning or memory (GO:0007611)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Ras protein signal transduction (GO:0007265)|synaptic transmission, glutamatergic (GO:0035249)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cytosol (GO:0005829)	signal transducer activity (GO:0004871)			breast(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(13)|skin(3)	28						GCTTCACAGACGCGGCTGATG	0.473																																																0													123	116	118					9																	91692802		2203	4300	6503	SO:0001583	missense	53358			D84361	CCDS6681.1	9q22.1	2013-02-14	2005-05-24		ENSG00000148082	ENSG00000148082		"SH2 domain containing"	18181	protein-coding gene	gene with protein product		605263	"src homology 2 domain containing transforming protein C3"			8808684	Standard	NM_016848		Approved	N-Shc, NSHC, SHCC	uc004aqf.2	Q92529	OTTHUMG00000020179	ENST00000375835.4:c.562G>A	9.37:g.91692802C>T	ENSP00000364995:p.Val188Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T7I7|Q8TAP2|Q9UCX5	Missense_Mutation	SNP	ENST00000375835.4	37	CCDS6681.1	.	.	.	.	.	.	.	.	.	.	C	16.67	3.186566	0.57909	.	.	ENSG00000148082	ENST00000375835	T	0.22336	1.96	5.64	4.61	0.57282	Phosphotyrosine interaction (PID/PI) (1);Phosphotyrosine interaction domain (3);Pleckstrin homology-type (1);	0.061292	0.64402	N	0.000003	T	0.22166	0.0534	L	0.59436	1.845	0.80722	D	1	B	0.23128	0.08	B	0.26416	0.069	T	0.04178	-1.0971	10	0.54805	T	0.06	-34.1954	8.8237	0.35041	0.0:0.7953:0.0:0.2047	.	188	Q92529	SHC3_HUMAN	I	188	ENSP00000364995:V188I	ENSP00000364995:V188I	V	-	1	0	SHC3	90882622	1.000000	0.71417	0.833000	0.33012	0.900000	0.52787	2.887000	0.48586	1.364000	0.46038	0.650000	0.86243	GTC		0.473	SHC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052986.1	NM_016848		T	91692802	C	T	91692802	3	4	664	1	0	0	0	0	1	0	0	0	14285	536	19	1	1262	1	SHC3	9	91692802	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4797022	91692802	49520629	478	41788										
FAM120A	23196	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr9	96326776	96326776	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagtacagacagcgcttgccGcagagaagctgctctggagg	14	10	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:96326776G>A	ENST00000277165.6	+	18	3505	c.3311G>A	c.(3310-3312)cGc>cAc	p.R1104H	FAM120A_ENST00000333936.5_Missense_Mutation_p.R1132H|FAM120A_ENST00000340893.4_Missense_Mutation_p.R1058H|AL353629.1_ENST00000582353.1_RNA	NM_014612.3	NP_055427.2	Q9NZB2	F120A_HUMAN	family with sequence similarity 120A	1104	RNA binding.					cytoplasm (GO:0005737)|membrane (GO:0016020)|plasma membrane (GO:0005886)	poly(A) RNA binding (GO:0044822)			endometrium(5)|kidney(3)|large_intestine(8)|lung(12)|prostate(1)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	34						AGCGCTTGCCGCAGAGAAGCT	0.433																																																0													62	67	65					9																	96326776		2203	4299	6502	SO:0001583	missense	23196			AF214737	CCDS6706.1, CCDS75859.1	9q22.31	2013-03-08	2006-07-04	2006-07-04	ENSG00000048828	ENSG00000048828			13247	protein-coding gene	gene with protein product	"DNA polymerase-transactivated protein 1", "oxidative stess-associated Src activator"	612265	"chromosome 9 open reading frame 10"	C9orf10		14585507	Standard	NM_001286722		Approved	KIAA0183, DNAPTP1, OSSA	uc004atw.3	Q9NZB2	OTTHUMG00000020252	ENST00000277165.6:c.3311G>A	9.37:g.96326776G>A	ENSP00000277165:p.Arg1104His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGU0|C4AMC6|O60649|Q14688|Q4VXF4|Q4VXF5|Q4VXG2|Q86V69|Q96I21|Q9NZB1	Missense_Mutation	SNP	ENST00000277165.6	37	CCDS6706.1	.	.	.	.	.	.	.	.	.	.	G	0.412	-0.912889	0.02415	.	.	ENSG00000048828	ENST00000277165;ENST00000333936;ENST00000340893;ENST00000427765	T;T;T;T	0.42131	1.57;1.57;1.57;0.98	5.54	1.27	0.21489	.	0.455677	0.22483	N	0.059479	T	0.15696	0.0378	N	0.02916	-0.46	0.30686	N	0.751839	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.04013	0.001;0.0;0.0	T	0.14811	-1.0459	10	0.23302	T	0.38	-3.7237	6.753	0.23497	0.647:0.0:0.353:0.0	.	1058;1132;1104	Q9NZB2-4;Q9NZB2-6;Q9NZB2	.;.;F120A_HUMAN	H	1104;1132;1058;480	ENSP00000277165:R1104H;ENSP00000334918:R1132H;ENSP00000344698:R1058H;ENSP00000412440:R480H	ENSP00000277165:R1104H	R	+	2	0	FAM120A	95366597	1.000000	0.71417	0.998000	0.56505	0.992000	0.81027	3.318000	0.51975	0.312000	0.23038	-0.150000	0.13652	CGC		0.433	FAM120A-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053160.2	NM_014612		A	96326776	G	A	96326776	3	1	664	1	0	0	0	0	1	0	0	0	5419	1087	38	1	3381	1	FAM120A	9	96326776	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4633974	96326776	44886655	479	41789										
TEX10	54881	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr9	103064527	103064527	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggatgcccagtgatatacacGttgaagcagtaatgtaagtc	11	7	0	2	rs373037476		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:103064527G>A	ENST00000374902.4	-	15	2912	c.2736C>T	c.(2734-2736)aaC>aaT	p.N912N	TEX10_ENST00000535814.1_Silent_p.N896N|TEX10_ENST00000477648.1_5'UTR	NM_017746.3	NP_060216.2	Q9NXF1	TEX10_HUMAN	testis expressed 10	912						cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|MLL1 complex (GO:0071339)				NS(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(7)|lung(14)|ovary(1)|prostate(4)|skin(1)|upper_aerodigestive_tract(2)	38		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)		TGATATACACGTTGAAGCAGT	0.448																																																0								G	,	1,4405	2.1+/-5.4	0,1,2202	150	128	136		2688,2736	-5.6	0	9		136	0,8600		0,0,4300	no	coding-synonymous,coding-synonymous	TEX10	NM_001161584.1,NM_017746.3	,	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	,	896/914,912/930	103064527	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	54881			AB060968	CCDS6748.1, CCDS55330.1	9q31.1	2012-05-02	2007-03-13		ENSG00000136891	ENSG00000136891			25988	protein-coding gene	gene with protein product			"testis expressed gene 10", "testis expressed sequence 10"			12477932	Standard	NM_017746		Approved	FLJ20287, bA208F1.2, Ipi1	uc004bas.3	Q9NXF1	OTTHUMG00000020366	ENST00000374902.4:c.2736C>T	9.37:g.103064527G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DYV2|Q5T722|Q5T723|Q8NCN8|Q8TDY0	Silent	SNP	ENST00000374902.4	37	CCDS6748.1																																																																																				0.448	TEX10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053416.1	NM_017746		A	103064527	G	A	103064527	2	1	664	1	0	0	0	0	0	0	0	1	15784	1136	40	1		1	TEX10	9	103064527	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6737751	103064527	38148904	480	41790										
MURC	347273	bcgsc.ca	37	chr9	103348063	103348063	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcaggagaagtttcggtgtcCgacatccctgtctgttgtta	11	9	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:103348063C>T	ENST00000307584.5	+	2	490	c.425C>T	c.(424-426)cCg>cTg	p.P142L		NM_001018116.1	NP_001018126.1	Q5BKX8	MURC_HUMAN	muscle-related coiled-coil protein	142					cell differentiation (GO:0030154)|muscle organ development (GO:0007517)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	Z disc (GO:0030018)				endometrium(1)|kidney(1)|large_intestine(6)|lung(7)|ovary(1)	16		Acute lymphoblastic leukemia(62;0.0461)				TTTCGGTGTCCGACATCCCTG	0.423																																																0													54	51	52					9																	103348063		2203	4300	6503	SO:0001583	missense	347273			BC090888	CCDS35083.1	9q31.1	2014-09-17			ENSG00000170681	ENSG00000170681			33742	protein-coding gene	gene with protein product	"muscle-restricted coiled-coil protein"					18508909, 18332105	Standard	NM_001018116		Approved	cavin-4, CAVIN4	uc004bba.3	Q5BKX8	OTTHUMG00000020368	ENST00000307584.5:c.425C>T	9.37:g.103348063C>T	ENSP00000418668:p.Pro142Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B1PRL3|B4DT88	Missense_Mutation	SNP	ENST00000307584.5	37	CCDS35083.1	.	.	.	.	.	.	.	.	.	.	C	17.49	3.401722	0.62288	.	.	ENSG00000170681	ENST00000307584	T	0.65732	-0.17	4.97	4.97	0.65823	.	0.000000	0.85682	D	0.000000	T	0.79155	0.4398	M	0.77486	2.375	0.80722	D	1	D	0.89917	1.0	D	0.75020	0.985	T	0.82155	-0.0597	10	0.87932	D	0	-6.8673	16.0689	0.80909	0.0:1.0:0.0:0.0	.	142	Q5BKX8	MURC_HUMAN	L	142	ENSP00000418668:P142L	ENSP00000418668:P142L	P	+	2	0	MURC	102387884	0.996000	0.38824	0.588000	0.28705	0.704000	0.40688	3.603000	0.54074	2.463000	0.83235	0.561000	0.74099	CCG		0.423	MURC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053419.2	NM_001018116		T	103348063	C	T	103348063	3	4	664	1	0	0	0	0	1	0	0	0	9994	652	23	1	431	1	MURC	9	103348063	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	283536	103348063	37865368	481	41791										
MRPL50	54534	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr9	104153053	104153053	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttcaggtggtgtgtatgctcGgcttcgtaaaggtggacaca	14	7	1	0	rs150313404		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:104153053G>A	ENST00000374865.4	-	2	193	c.172C>T	c.(172-174)Cga>Tga	p.R58*	MRPL50_ENST00000539624.1_Nonsense_Mutation_p.R58*	NM_019051.2	NP_061924.1	Q8N5N7	RM50_HUMAN	mitochondrial ribosomal protein L50	58						mitochondrion (GO:0005739)|ribosome (GO:0005840)				large_intestine(1)|lung(2)|prostate(2)	5		Acute lymphoblastic leukemia(62;0.0559)				GTGTATGCTCGGCTTCGTAAA	0.418																																																0								G	stop/ARG	1,4405	2.1+/-5.4	0,1,2202	141	141	141		172	3.8	0.7	9	dbSNP_134	141	0,8600		0,0,4300	no	stop-gained	MRPL50	NM_019051.2		0,1,6502	AA,AG,GG		0.0,0.0227,0.0077		58/159	104153053	1,13005	2203	4300	6503	SO:0001587	stop_gained	54534			AK000500	CCDS6753.1	9q31.1	2012-11-14			ENSG00000136897	ENSG00000136897		"Mitochondrial ribosomal proteins / large subunits"	16654	protein-coding gene	gene with protein product	"mitochondrial 39S ribosomal protein L50"	611854					Standard	NM_019051		Approved	FLJ20493, MRP-L50	uc004bbe.2	Q8N5N7	OTTHUMG00000020384	ENST00000374865.4:c.172C>T	9.37:g.104153053G>A	ENSP00000363999:p.Arg58*	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z358|Q5T7E0|Q9NX15	Nonsense_Mutation	SNP	ENST00000374865.4	37	CCDS6753.1	.	.	.	.	.	.	.	.	.	.	G	21.2	4.114943	0.77210	2.27E-4	0.0	ENSG00000136897	ENST00000374865;ENST00000539624	.	.	.	5.62	3.75	0.43078	.	0.350015	0.23964	N	0.042831	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-1.881	6.6634	0.23027	0.083:0.0:0.6018:0.3152	.	.	.	.	X	58	.	ENSP00000363999:R58X	R	-	1	2	MRPL50	103192874	0.926000	0.31397	0.712000	0.30502	0.791000	0.44710	1.265000	0.33027	0.702000	0.31825	0.557000	0.71058	CGA		0.418	MRPL50-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053450.1	NM_019051		A	104153053	G	A	104153053	4	1	664	1	0	0	0	0	0	1	0	0	9821	1124	39	1	308	1	MRPL50	9	104153053	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	804990	104153053	37060378	482	41792										
RGS3	5998	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	116353631	116353631	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agatgagcggggctgacaccGttggggatgatgacgaagcc	17	8	0	5			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:116353631G>A	ENST00000374140.2	+	22	3243	c.3034G>A	c.(3034-3036)Gtt>Att	p.V1012I	RGS3_ENST00000394646.3_Missense_Mutation_p.V405I|RGS3_ENST00000462143.1_Missense_Mutation_p.V333I|RP11-168K11.2_ENST00000428429.1_RNA|RGS3_ENST00000462403.1_5'Flank|RGS3_ENST00000350696.5_Missense_Mutation_p.V1012I|RGS3_ENST00000342620.5_Intron|RGS3_ENST00000374134.3_Missense_Mutation_p.V333I|RGS3_ENST00000343817.5_Missense_Mutation_p.V731I	NM_001282923.1|NM_144488.4	NP_001269852.1|NP_652759.3	P49796	RGS3_HUMAN	regulator of G-protein signaling 3	1012					inactivation of MAPK activity (GO:0000188)|positive regulation of GTPase activity (GO:0043547)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|termination of G-protein coupled receptor signaling pathway (GO:0038032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	GTPase activator activity (GO:0005096)			cervix(1)|endometrium(3)|kidney(5)|large_intestine(11)|lung(22)|ovary(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	48						GGCTGACACCGTTGGGGATGA	0.572																																																0													99	89	92					9																	116353631		2203	4300	6503	SO:0001583	missense	5998			AF006610	CCDS6797.1, CCDS6798.1, CCDS35113.1, CCDS35114.1, CCDS43869.1, CCDS65111.1	9q32	2008-02-05	2007-08-14		ENSG00000138835	ENSG00000138835		"Regulators of G-protein signaling"	9999	protein-coding gene	gene with protein product		602189	"regulator of G-protein signalling 3"			8602223, 11034339	Standard	NM_001276260		Approved	C2PA, FLJ20370, PDZ-RGS3	uc004bhq.4	P49796	OTTHUMG00000021048	ENST00000374140.2:c.3034G>A	9.37:g.116353631G>A	ENSP00000363255:p.Val1012Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHA0|A8K0V1|B3KUB2|Q5VXB8|Q5VXC1|Q5VZ05|Q5VZ06|Q6ZRM5|Q8IUQ1|Q8NC47|Q8NFN4|Q8NFN5|Q8NFN6|Q8TD59|Q8TD68|Q8WV02|Q8WXA0	Missense_Mutation	SNP	ENST00000374140.2	37	CCDS43869.1	.	.	.	.	.	.	.	.	.	.	G	6.794	0.515463	0.12944	.	.	ENSG00000138835	ENST00000374140;ENST00000350696;ENST00000343817;ENST00000394646;ENST00000474719;ENST00000462143;ENST00000374134;ENST00000467805	T;T;T;T;T;T;T	0.76709	0.95;0.95;0.45;2.55;0.44;0.44;-1.04	4.53	2.27	0.28462	.	0.435553	0.19907	N	0.103365	T	0.54631	0.1870	N	0.22421	0.69	0.09310	N	1	P;B;B;P;B;B;B	0.35700	0.516;0.002;0.335;0.516;0.335;0.226;0.342	B;B;B;B;B;B;B	0.22386	0.039;0.0;0.038;0.039;0.014;0.028;0.028	T	0.45716	-0.9242	10	0.38643	T	0.18	.	5.2355	0.15445	0.1607:0.2259:0.6134:0.0	.	351;405;908;333;731;902;1012	B4DWF9;B3KUB2;P49796-6;Q6ZV17;P49796-4;B3KWG8;P49796	.;.;.;.;.;.;RGS3_HUMAN	I	1012;1012;731;405;180;333;333;178	ENSP00000363255:V1012I;ENSP00000259406:V1012I;ENSP00000340284:V731I;ENSP00000378141:V405I;ENSP00000420356:V333I;ENSP00000363249:V333I;ENSP00000417994:V178I	ENSP00000340284:V731I	V	+	1	0	RGS3	115393452	0.601000	0.26907	0.009000	0.14445	0.046000	0.14306	1.485000	0.35519	0.865000	0.35603	0.555000	0.69702	GTT		0.572	RGS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055561.3	NM_017790		A	116353631	G	A	116353631	3	1	664	1	0	0	0	0	1	0	0	0	13319	1145	40	1	3369	1	RGS3	9	116353631	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	12200578	116353631	24859800	483	41793										
ZNF618	114991	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	116812166	116812166	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgctgccgtcgagaaccccGcagctcaggaagatgatcgg	13	13	1	3	rs372290471		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:116812166G>A	ENST00000374126.5	+	15	2683	c.2584G>A	c.(2584-2586)Gca>Aca	p.A862T	ZNF618_ENST00000288466.7_Missense_Mutation_p.A769T|ZNF618_ENST00000470105.1_3'UTR			Q5T7W0	ZN618_HUMAN	zinc finger protein 618	862					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(4)|lung(10)|urinary_tract(1)	16						CGAGAACCCCGCAGCTCAGGA	0.597																																																0								G	THR/ALA	1,3961		0,1,1980	74	81	79		2305	-8.4	0	9		79	0,8282		0,0,4141	no	missense	ZNF618	NM_133374.2	58	0,1,6121	AA,AG,GG		0.0,0.0252,0.0082	benign	769/862	116812166	1,12243	1981	4141	6122	SO:0001583	missense	114991			BC012922	CCDS48008.1	9q33.1	2010-04-21			ENSG00000157657	ENSG00000157657		"Zinc fingers, C2H2-type"	29416	protein-coding gene	gene with protein product	"neural precursor cell expressed, developmentally down-regulated 10"					11853319	Standard	NM_133374		Approved	KIAA1952, NEDD10	uc004bic.3	Q5T7W0	OTTHUMG00000020532	ENST00000374126.5:c.2584G>A	9.37:g.116812166G>A	ENSP00000363241:p.Ala862Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B9EG82|Q4G0X6|Q5T7W1|Q6ZT53|Q7Z6B9|Q8TF49|Q96E49	Missense_Mutation	SNP	ENST00000374126.5	37		.	.	.	.	.	.	.	.	.	.	G	4.045	0.006041	0.07866	2.52E-4	0.0	ENSG00000157657	ENST00000374126;ENST00000288466	T;T	0.22743	1.94;1.94	5.63	-8.45	0.00946	Ribonuclease H-like (1);	0.899482	0.09826	N	0.750823	T	0.06462	0.0166	.	.	.	0.09310	N	0.99999	B;B;B	0.09022	0.001;0.002;0.0	B;B;B	0.04013	0.0;0.001;0.001	T	0.36335	-0.9752	9	0.11485	T	0.65	0.0314	4.7216	0.12920	0.4829:0.1097:0.3256:0.0818	.	829;862;769	B9EG82;Q5T7W0;Q5T7W0-2	.;ZN618_HUMAN;.	T	862;769	ENSP00000363241:A862T;ENSP00000288466:A769T	ENSP00000288466:A769T	A	+	1	0	ZNF618	115851987	0.000000	0.05858	0.001000	0.08648	0.390000	0.30446	-1.955000	0.01523	-1.088000	0.03077	-0.997000	0.02515	GCA		0.597	ZNF618-004	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000053749.1	XM_054983		A	116812166	G	A	116812166	3	1	664	1	0	0	0	0	1	0	0	0	18054	1087	38	1	2359	1	ZNF618	9	116812166	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	458535	116812166	24401265	484	41794										
TNC	3371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	117797539	117797539	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtaaccggtgactgatgcccGggggggtcgccaggtaagga	18	9	0	2	rs148674204	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:117797539G>A	ENST00000350763.4	-	22	6142	c.5731C>T	c.(5731-5733)Cgg>Tgg	p.R1911W	TNC_ENST00000340094.3_Missense_Mutation_p.R1547W|TNC_ENST00000535648.1_Missense_Mutation_p.R1456W|TNC_ENST00000537320.1_Missense_Mutation_p.R1274W|TNC_ENST00000542877.1_Missense_Mutation_p.R1548W|TNC_ENST00000345230.3_Missense_Mutation_p.R1274W|TNC_ENST00000423613.2_Missense_Mutation_p.R1638W|TNC_ENST00000341037.4_Missense_Mutation_p.R1729W|TNC_ENST00000346706.3_Missense_Mutation_p.R1365W	NM_002160.3	NP_002151.2	P24821	TENA_HUMAN	tenascin C	1911	Fibronectin type-III 15. {ECO:0000255|PROSITE-ProRule:PRU00316}.				bud outgrowth involved in lung branching (GO:0060447)|cell adhesion (GO:0007155)|cellular response to prostaglandin D stimulus (GO:0071799)|cellular response to retinoic acid (GO:0071300)|cellular response to vitamin D (GO:0071305)|extracellular matrix organization (GO:0030198)|mesenchymal-epithelial cell signaling involved in prostate gland development (GO:0060739)|negative regulation of cell adhesion (GO:0007162)|neuromuscular junction development (GO:0007528)|odontogenesis of dentin-containing tooth (GO:0042475)|osteoblast differentiation (GO:0001649)|peripheral nervous system axon regeneration (GO:0014012)|positive regulation of cell proliferation (GO:0008284)|positive regulation of gene expression (GO:0010628)|prostate gland epithelium morphogenesis (GO:0060740)|response to ethanol (GO:0045471)|response to fibroblast growth factor (GO:0071774)|response to mechanical stimulus (GO:0009612)|response to wounding (GO:0009611)|wound healing (GO:0042060)	basement membrane (GO:0005604)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|focal adhesion (GO:0005925)|interstitial matrix (GO:0005614)|membrane (GO:0016020)	syndecan binding (GO:0045545)			NS(3)|breast(5)|central_nervous_system(4)|endometrium(8)|kidney(6)|large_intestine(32)|liver(1)|lung(39)|ovary(1)|pancreas(2)|prostate(5)|skin(5)|stomach(5)|upper_aerodigestive_tract(2)|urinary_tract(2)	120						ACTGATGCCCGGGGGGGTCGC	0.478																																																0								G	TRP/ARG	2,4404	4.2+/-10.8	0,2,2201	81	83	82		5731	4	0.7	9	dbSNP_134	82	4,8596	3.7+/-12.6	0,4,4296	yes	missense	TNC	NM_002160.3	101	0,6,6497	AA,AG,GG		0.0465,0.0454,0.0461	probably-damaging	1911/2202	117797539	6,13000	2203	4300	6503	SO:0001583	missense	3371				CCDS6811.1	9q33.1	2014-01-28	2008-07-31	2002-06-07	ENSG00000041982	ENSG00000041982		"Fibrinogen C domain containing", "Fibronectin type III domain containing"	5318	protein-coding gene	gene with protein product	"hexabrachion (tenascin)"	187380	"hexabrachion (tenascin C, cytotactin)", "deafness, autosomal dominant 56"	HXB, DFNA56		1704365, 1707164, 23936043	Standard	NM_002160		Approved	TN, MGC167029	uc004bjj.4	P24821	OTTHUMG00000021010	ENST00000350763.4:c.5731C>T	9.37:g.117797539G>A	ENSP00000265131:p.Arg1911Trp	Somatic		WXS	Illumina HiSeq	Phase_I	C9IYT7|C9J575|C9J6D9|C9J848|Q14583|Q15567|Q5T7S3	Missense_Mutation	SNP	ENST00000350763.4	37	CCDS6811.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	17.03|17.03	3.283309|3.283309	0.59867|0.59867	4.54E-4|4.54E-4	4.65E-4|4.65E-4	ENSG00000041982|ENSG00000041982	ENST00000544972|ENST00000340094;ENST00000535648;ENST00000346706;ENST00000345230;ENST00000350763;ENST00000442945;ENST00000341037;ENST00000423613;ENST00000537320;ENST00000542877	T|T;T;T;T;T;T;T;T;T	0.74315|0.57907	-0.83|0.37;0.37;0.37;0.37;0.37;0.37;0.37;0.37;0.37	5.97|5.97	4.02|4.02	0.46733|0.46733	.|Fibronectin, type III (4);Immunoglobulin-like fold (1);	.|0.239042	.|0.41823	.|D	.|0.000804	T|T	0.74427|0.74427	0.3715|0.3715	M|M	0.84948|0.84948	2.725|2.725	0.09310|0.09310	N|N	1|1	.|D;D	.|0.89917	.|1.0;1.0	.|D;D	.|0.85130	.|0.995;0.997	T|T	0.69643|0.69643	-0.5090|-0.5090	7|10	0.72032|0.72032	D|D	0.01|0.01	.|.	14.1271|14.1271	0.65228|0.65228	0.0:0.0:0.5477:0.4523|0.0:0.0:0.5477:0.4523	.|.	.|1638;1911	.|E9PC84;P24821	.|.;TENA_HUMAN	L|W	473|1547;1456;1365;1274;1911;983;1729;1638;1274;1548	ENSP00000445380:P473L|ENSP00000344400:R1547W;ENSP00000438152:R1456W;ENSP00000344555:R1365W;ENSP00000345861:R1274W;ENSP00000265131:R1911W;ENSP00000339553:R1729W;ENSP00000411406:R1638W;ENSP00000443478:R1274W;ENSP00000442242:R1548W	ENSP00000445380:P473L|ENSP00000344400:R1547W	P|R	-|-	2|1	0|2	TNC|TNC	116837360|116837360	0.749000|0.749000	0.28305|0.28305	0.706000|0.706000	0.30403|0.30403	0.778000|0.778000	0.44026|0.44026	2.922000|2.922000	0.48860|0.48860	0.693000|0.693000	0.31634|0.31634	0.655000|0.655000	0.94253|0.94253	CCG|CGG		0.478	TNC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055418.2	NM_002160		A	117797539	G	A	117797539	3	1	664	1	0	0	0	0	1	0	0	0	16282	1115	39	1	902	1	TNC	9	117797539	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	985373	117797539	23415892	485	41795										
DBC1	1620	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	122001025	122001025	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tacagcccagaggcccagtgCgtgtctctgtgacctgcagt	12	13	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:122001025C>T	ENST00000265922.3	-	5	1054	c.593G>A	c.(592-594)cGc>cAc	p.R198H	BRINP1_ENST00000373964.2_Missense_Mutation_p.R198H	NM_014618.2	NP_055433.2	O60477	BRNP1_HUMAN	bone morphogenetic protein/retinoic acid inducible neural-specific 1	198	MACPF.				cell cycle arrest (GO:0007050)|cell death (GO:0008219)|cellular response to retinoic acid (GO:0071300)|negative regulation of cell cycle (GO:0045786)|negative regulation of mitotic cell cycle (GO:0045930)|positive regulation of neuron differentiation (GO:0045666)	cytoplasm (GO:0005737)											AGGCCCAGTGCGTGTCTCTGT	0.507																																																0													106	78	88					9																	122001025		2203	4300	6503	SO:0001583	missense	1620			AF027734	CCDS6822.1	9q32-q33	2013-08-06	2013-08-06	2013-07-31	ENSG00000078725	ENSG00000078725			2687	protein-coding gene	gene with protein product		602865	"deleted in bladder cancer chromosome region candidate 1", "deleted in bladder cancer 1"	DBCCR1, DBC1		9175739, 10444335, 15193422	Standard	NM_014618		Approved	FAM5A	uc004bkc.2	O60477	OTTHUMG00000021020	ENST00000265922.3:c.593G>A	9.37:g.122001025C>T	ENSP00000265922:p.Arg198His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IPV6|Q6P1A0|Q8WU22	Missense_Mutation	SNP	ENST00000265922.3	37	CCDS6822.1	.	.	.	.	.	.	.	.	.	.	C	35	5.458407	0.96240	.	.	ENSG00000078725	ENST00000373969;ENST00000265922;ENST00000373964	T;T	0.55930	2.14;0.49	5.91	5.91	0.95273	Membrane attack complex component/perforin (MACPF) domain (1);	0.000000	0.85682	D	0.000000	T	0.71921	0.3397	M	0.64404	1.975	0.80722	D	1	D;D	0.89917	0.999;1.0	D;D	0.81914	0.991;0.995	T	0.72629	-0.4235	10	0.87932	D	0	-21.6133	19.2777	0.94039	0.0:1.0:0.0:0.0	.	198;198	O60477-2;O60477	.;DBC1_HUMAN	H	198	ENSP00000265922:R198H;ENSP00000363075:R198H	ENSP00000265922:R198H	R	-	2	0	DBC1	121040846	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.625000	0.83145	2.794000	0.96219	0.655000	0.94253	CGC		0.507	BRINP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055440.2	NM_014618		T	122001025	C	T	122001025	3	4	664	1	0	0	0	0	1	0	0	0	4249	768	27	1	1708	1	DBC1	9	122001025	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4203486	122001025	19212406	486	41796										
NEK6	10783	broad.mit.edu;ucsc.edu	37	chr9	127064218	127064218	+	5'UTR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctgttttctgttgcagttcGtgccctcgtgaggctggcat	13	10	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:127064218G>A	ENST00000320246.5	+	0	120				NEK6_ENST00000394199.2_Missense_Mutation_p.R26H|NEK6_ENST00000545174.1_5'UTR|NEK6_ENST00000373603.1_5'UTR|NEK6_ENST00000546191.1_5'UTR|NEK6_ENST00000373600.3_Missense_Mutation_p.R26H|NEK6_ENST00000540326.1_Missense_Mutation_p.R10H|NEK6_ENST00000539416.1_Missense_Mutation_p.R17H	NM_014397.5	NP_055212.2	Q9HC98	NEK6_HUMAN	NIMA-related kinase 6						apoptotic process (GO:0006915)|chromosome segregation (GO:0007059)|cytokinesis (GO:0000910)|G2 DNA damage checkpoint (GO:0031572)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic nuclear envelope disassembly (GO:0007077)|peptidyl-serine phosphorylation (GO:0018105)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of cellular senescence (GO:2000772)|regulation of mitotic cell cycle (GO:0007346)|regulation of mitotic metaphase/anaphase transition (GO:0030071)|signal transduction (GO:0007165)|spindle assembly (GO:0051225)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|microtubule (GO:0005874)|nucleus (GO:0005634)	ATP binding (GO:0005524)|kinesin binding (GO:0019894)|magnesium ion binding (GO:0000287)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)|signal transducer activity (GO:0004871)			endometrium(1)|kidney(1)|large_intestine(4)|lung(4)|ovary(2)|prostate(1)|skin(1)|stomach(1)	15						GTTGCAGTTCGTGCCCTCGTG	0.582																																					NSCLC(122;934 1785 18647 44295 45571)											0													37	32	34					9																	127064218		2195	4290	6485	SO:0001623	5_prime_UTR_variant	10783			AF087909	CCDS6854.1, CCDS48015.1, CCDS55338.1, CCDS55339.1	9q33.3-q34.11	2012-11-15	2012-11-15		ENSG00000119408	ENSG00000119408			7749	protein-coding gene	gene with protein product	"putative serine-threonine protein kinase"	604884	"NIMA (never in mitosis gene a)-related kinase 6"			10702691	Standard	NM_001145001		Approved	SID6-1512	uc004boh.3	Q9HC98	OTTHUMG00000020650	ENST00000320246.5:c.-26G>A	9.37:g.127064218G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2D9|Q5TBG3|Q5TBG9|Q6FG86|Q6IAR3|Q96E83|Q9ULX2	Missense_Mutation	SNP	ENST00000320246.5	37	CCDS6854.1	.	.	.	.	.	.	.	.	.	.	G	13.26	2.184141	0.38609	.	.	ENSG00000119408	ENST00000540326;ENST00000373600;ENST00000423785;ENST00000394199;ENST00000539416	T;T;T;T;T	0.71934	-0.61;-0.57;-0.42;-0.57;-0.57	4.85	2.97	0.34412	.	1.576480	0.04628	U	0.403160	T	0.53351	0.1791	N	0.14661	0.345	0.80722	D	1	P;B	0.36733	0.567;0.265	B;B	0.32149	0.141;0.053	T	0.38394	-0.9663	10	0.51188	T	0.08	.	7.0487	0.25061	0.0961:0.1754:0.7285:0.0	.	26;10	Q9HC98-2;Q9HC98-3	.;.	H	10;26;26;26;17	ENSP00000441469:R10H;ENSP00000362702:R26H;ENSP00000399847:R26H;ENSP00000377749:R26H;ENSP00000439651:R17H	ENSP00000362702:R26H	R	+	2	0	NEK6	126104039	0.346000	0.24844	0.908000	0.35775	0.360000	0.29518	0.900000	0.28431	0.703000	0.31848	0.563000	0.77884	CGT		0.582	NEK6-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054016.1	NM_014397		A	127064218	G	A	127064218	1	1	664	0	1	0	0	0	0	0	0	0	10335	1145	40	1		1	NEK6	9	127064218	5'UTR	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5063193	127064218	14149213	487	41797										
RABEPK	10244	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr9	127975736	127975736	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccctcctgcacacctgaccGtatctgggtatttggaggtg	11	12	1	1	rs147509125		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:127975736G>A	ENST00000373538.3	+	4	609	c.299G>A	c.(298-300)cGt>cAt	p.R100H	RABEPK_ENST00000373544.1_Missense_Mutation_p.R100H|RABEPK_ENST00000394125.4_Missense_Mutation_p.R100H|RABEPK_ENST00000259460.8_Intron|RABEPK_ENST00000394124.4_Missense_Mutation_p.R100H	NM_005833.3	NP_005824.2	Q7Z6M1	RABEK_HUMAN	Rab9 effector protein with kelch motifs	100					receptor-mediated endocytosis (GO:0006898)|vesicle docking involved in exocytosis (GO:0006904)	endosome (GO:0005768)|intracellular membrane-bounded organelle (GO:0043231)|plasma membrane (GO:0005886)				NS(1)|cervix(1)|endometrium(1)|large_intestine(2)|lung(3)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	15						ACACCTGACCGTATCTGGGTA	0.448																																																0								G	HIS/ARG,,HIS/ARG	2,4404	4.2+/-10.8	0,2,2201	131	119	123		299,,299	1.5	0.2	9	dbSNP_134	123	0,8600		0,0,4300	no	missense,intron,missense	RABEPK	NM_001174152.1,NM_001174153.1,NM_005833.3	29,,29	0,2,6501	AA,AG,GG		0.0,0.0454,0.0154	benign,,benign	100/373,,100/373	127975736	2,13004	2203	4300	6503	SO:0001583	missense	10244			BC000503	CCDS6862.1, CCDS55341.1	9q33.1-q33.3	2010-04-19			ENSG00000136933	ENSG00000136933			16896	protein-coding gene	gene with protein product		605962				9230071	Standard	NM_005833		Approved	RAB9P40, bA65N13.1	uc004bpi.3	Q7Z6M1	OTTHUMG00000020674	ENST00000373538.3:c.299G>A	9.37:g.127975736G>A	ENSP00000362639:p.Arg100His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K403|O00568|Q69YR2|Q6FHA4|Q6IBG7|Q6P092|Q86Y76|Q9BWB1	Missense_Mutation	SNP	ENST00000373538.3	37	CCDS6862.1	.	.	.	.	.	.	.	.	.	.	G	4.987	0.183381	0.09495	4.54E-4	0.0	ENSG00000136933	ENST00000394125;ENST00000373544;ENST00000394124;ENST00000373538;ENST00000416065	T;T;T;T;T	0.68181	0.84;-0.31;-0.31;0.84;0.84	5.47	1.49	0.22878	Galactose oxidase, beta-propeller (1);	0.429767	0.29403	N	0.012242	T	0.54532	0.1864	L	0.52206	1.635	0.09310	N	1	B;B	0.06786	0.001;0.001	B;B	0.04013	0.001;0.0	T	0.43798	-0.9369	10	0.40728	T	0.16	-0.2788	6.7011	0.23225	0.2233:0.254:0.5227:0.0	.	100;100	Q7Z6M1;Q5T1S4	RABEK_HUMAN;.	H	100;100;100;100;183	ENSP00000377683:R100H;ENSP00000362645:R100H;ENSP00000377682:R100H;ENSP00000362639:R100H;ENSP00000402234:R183H	ENSP00000362639:R100H	R	+	2	0	RABEPK	127015557	1.000000	0.71417	0.195000	0.23364	0.047000	0.14425	1.514000	0.35834	-0.185000	0.10550	-2.511000	0.00188	CGT		0.448	RABEPK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054064.1	NM_005833		A	127975736	G	A	127975736	3	1	664	1	0	0	0	0	1	0	0	0	12976	1145	40	1	309	1	RABEPK	9	127975736	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	911518	127975736	13237695	488	41798										
ZBTB34	403341	broad.mit.edu;mdanderson.org	37	chr9	129641862	129641862	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgccagctccccatatttcCgggaccattcagcgttaagt	8	14	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:129641862C>T	ENST00000373452.2	+	1	236	c.172C>T	c.(172-174)Cgg>Tgg	p.R58W	ZBTB34_ENST00000319119.4_Missense_Mutation_p.R62W			Q8NCN2	ZBT34_HUMAN	zinc finger and BTB domain containing 34	58	BTB. {ECO:0000255|PROSITE- ProRule:PRU00037}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(3)|large_intestine(2)|lung(2)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	12						CCCATATTTCCGGGACCATTC	0.468																																																0													118	127	124					9																	129641862		2033	4177	6210	SO:0001583	missense	403341			DQ227306	CCDS48023.1	9q33.3	2013-01-08			ENSG00000177125	ENSG00000177125		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	31446	protein-coding gene	gene with protein product		611692				16718364	Standard	NM_001099270		Approved	KIAA1993, MGC24652, ZNF918	uc004bqm.4	Q8NCN2	OTTHUMG00000020694	ENST00000373452.2:c.172C>T	9.37:g.129641862C>T	ENSP00000362551:p.Arg58Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q38IA7|Q5VYE9	Missense_Mutation	SNP	ENST00000373452.2	37	CCDS48023.1	.	.	.	.	.	.	.	.	.	.	C	26.6	4.757294	0.89843	.	.	ENSG00000177125	ENST00000319119;ENST00000373452	T;T	0.70164	-0.46;-0.46	5.53	5.53	0.82687	BTB/POZ-like (2);BTB/POZ (1);BTB/POZ fold (2);	0.000000	0.85682	D	0.000000	D	0.83681	0.5307	M	0.81802	2.56	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.84932	0.0860	10	0.72032	D	0.01	.	19.8241	0.96610	0.0:1.0:0.0:0.0	.	58	Q8NCN2	ZBT34_HUMAN	W	62;58	ENSP00000317534:R62W;ENSP00000362551:R58W	ENSP00000317534:R62W	R	+	1	2	ZBTB34	128681683	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.440000	0.80464	2.758000	0.94735	0.655000	0.94253	CGG		0.468	ZBTB34-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001099270		T	129641862	C	T	129641862	3	4	664	1	0	0	0	0	1	0	0	0	17549	643	23	1	174	1	ZBTB34	9	129641862	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1666126	129641862	11571569	489	41799										
ZBTB34	403341	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	129642636	129642636	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggtccatgctgagctgtttcCgaggagggcgtgcccgccag	16	12	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:129642636C>T	ENST00000373452.2	+	1	1010	c.946C>T	c.(946-948)Cga>Tga	p.R316*	ZBTB34_ENST00000319119.4_Nonsense_Mutation_p.R320*			Q8NCN2	ZBT34_HUMAN	zinc finger and BTB domain containing 34	316					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(3)|large_intestine(2)|lung(2)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	12						GAGCTGTTTCCGAGGAGGGCG	0.547																																																0													35	37	37					9																	129642636		1968	4143	6111	SO:0001587	stop_gained	403341			DQ227306	CCDS48023.1	9q33.3	2013-01-08			ENSG00000177125	ENSG00000177125		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	31446	protein-coding gene	gene with protein product		611692				16718364	Standard	NM_001099270		Approved	KIAA1993, MGC24652, ZNF918	uc004bqm.4	Q8NCN2	OTTHUMG00000020694	ENST00000373452.2:c.946C>T	9.37:g.129642636C>T	ENSP00000362551:p.Arg316*	Somatic		WXS	Illumina HiSeq	Phase_I	Q38IA7|Q5VYE9	Nonsense_Mutation	SNP	ENST00000373452.2	37	CCDS48023.1	.	.	.	.	.	.	.	.	.	.	C	36	5.867591	0.97043	.	.	ENSG00000177125	ENST00000319119;ENST00000373452	.	.	.	5.78	4.83	0.62350	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.15499	T	0.54	.	14.1263	0.65222	0.2213:0.7787:0.0:0.0	.	.	.	.	X	320;316	.	ENSP00000317534:R320X	R	+	1	2	ZBTB34	128682457	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.814000	0.48010	2.731000	0.93534	0.655000	0.94253	CGA		0.547	ZBTB34-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001099270		T	129642636	C	T	129642636	4	4	664	1	0	0	0	0	0	1	0	0	17549	644	23	1	948	1	ZBTB34	9	129642636	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	774	129642636	11570795	490	41800										
ANGPTL2	23452	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr9	129870870	129870870	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cacttgtcctgggactcgccCgcccgcttgtacctgtttag	10	15	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:129870870C>T	ENST00000373425.3	-	2	758	c.141G>A	c.(139-141)gcG>gcA	p.A47A	ANGPTL2_ENST00000373417.1_Intron|ANGPTL2_ENST00000491991.1_5'Flank|RALGPS1_ENST00000424082.2_Intron|RALGPS1_ENST00000373434.1_Intron|RALGPS1_ENST00000373436.1_Intron|RALGPS1_ENST00000259351.5_Intron|RALGPS1_ENST00000394022.3_Intron	NM_012098.2	NP_036230.1	Q9UKU9	ANGL2_HUMAN	angiopoietin-like 2	47					multicellular organismal development (GO:0007275)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	receptor binding (GO:0005102)			breast(1)|endometrium(2)|kidney(1)|large_intestine(8)|lung(4)|ovary(1)|urinary_tract(1)	18						GGGACTCGCCCGCCCGCTTGT	0.602																																																0													76	61	66					9																	129870870		2203	4300	6503	SO:0001819	synonymous_variant	23452			AF125175	CCDS6868.1	9q34	2013-02-06			ENSG00000136859	ENSG00000136859		"Fibrinogen C domain containing"	490	protein-coding gene	gene with protein product		605001				10473614	Standard	NM_012098		Approved	ARP2, HARP	uc004bqr.1	Q9UKU9	OTTHUMG00000020695	ENST00000373425.3:c.141G>A	9.37:g.129870870C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JT58|Q8NCH7	Silent	SNP	ENST00000373425.3	37	CCDS6868.1																																																																																				0.602	ANGPTL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054129.1	NM_012098		T	129870870	C	T	129870870	2	4	664	1	0	0	0	0	0	0	0	1	614	639	23	1		1	ANGPTL2	9	129870870	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	228234	129870870	11342561	491	41801										
SLC2A8	29988	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	130167788	130167788	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcgtggcgacaggcatctgcGtcctcaccaactggctcatg	12	14	3	0	rs201045999	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:130167788G>A	ENST00000373371.3	+	9	1329	c.1240G>A	c.(1240-1242)Gtc>Atc	p.V414I	SLC2A8_ENST00000373352.1_Missense_Mutation_p.V151I|SLC2A8_ENST00000373360.3_Intron	NM_001271712.1|NM_014580.3	NP_001258641.1|NP_055395.2	Q9NY64	GTR8_HUMAN	solute carrier family 2 (facilitated glucose transporter), member 8	414					carbohydrate metabolic process (GO:0005975)|glucose transport (GO:0015758)|insulin receptor signaling pathway (GO:0008286)|male meiosis I (GO:0007141)|response to hypoxia (GO:0001666)|transmembrane transport (GO:0055085)	integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)	glucose binding (GO:0005536)|glucose transmembrane transporter activity (GO:0005355)			cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|lung(2)|ovary(1)	11						AGGCATCTGCGTCCTCACCAA	0.632													G|||	18	0.00359425	0.0	0.0	5008	,	,		22112	0.0		0.0	False		,,,				2504	0.0184															0													123	91	101					9																	130167788		2202	4300	6502	SO:0001583	missense	29988			AJ245937	CCDS6870.1, CCDS65138.1, CCDS75903.1	9q33.3	2013-05-22	2008-09-02		ENSG00000136856	ENSG00000136856		"Solute carriers"	13812	protein-coding gene	gene with protein product		605245	"solute carrier family 2 (facilitated glucose transporter) member 8"			10671487, 10821868	Standard	NM_014580		Approved	GLUTX1, GLUT8	uc004bqu.4	Q9NY64	OTTHUMG00000020702	ENST00000373371.3:c.1240G>A	9.37:g.130167788G>A	ENSP00000362469:p.Val414Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WUZ9|Q9NSC4	Missense_Mutation	SNP	ENST00000373371.3	37	CCDS6870.1	.	.	.	.	.	.	.	.	.	.	G	23.3	4.399352	0.83120	.	.	ENSG00000136856	ENST00000373371;ENST00000451404;ENST00000373352;ENST00000430147	T;T;T;T	0.76186	-1.0;-1.0;-1.0;-1.0	5.35	5.35	0.76521	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.056140	0.64402	D	0.000001	D	0.84406	0.5465	L	0.58302	1.8	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.84562	0.0650	10	0.54805	T	0.06	.	18.1845	0.89789	0.0:0.0:1.0:0.0	.	414	Q9NY64	GTR8_HUMAN	I	414;251;151;253	ENSP00000362469:V414I;ENSP00000392434:V251I;ENSP00000362450:V151I;ENSP00000391213:V253I	ENSP00000362450:V151I	V	+	1	0	SLC2A8	129207609	1.000000	0.71417	0.974000	0.42286	0.484000	0.33280	9.349000	0.97066	2.674000	0.91012	0.655000	0.94253	GTC		0.632	SLC2A8-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054177.1	NM_014580		A	130167788	G	A	130167788	3	1	664	1	0	0	0	0	1	0	0	0	14564	1145	40	1	1274	1	SLC2A8	9	130167788	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	296918	130167788	11045643	492	41802										
FPGS	2356	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr9	130569287	130569287	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcaggttcgggagcggatccGcatcaatgggcagcccatca	14	12	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:130569287G>A	ENST00000373247.2	+	5	472	c.422G>A	c.(421-423)cGc>cAc	p.R141H	FPGS_ENST00000373225.3_Missense_Mutation_p.R91H|FPGS_ENST00000373245.1_Missense_Mutation_p.R141H|FPGS_ENST00000460181.1_3'UTR|FPGS_ENST00000393706.2_Missense_Mutation_p.R141H	NM_004957.4	NP_004948.4	Q05932	FOLC_HUMAN	folylpolyglutamate synthase	141					brain development (GO:0007420)|folic acid metabolic process (GO:0046655)|liver development (GO:0001889)|nucleobase-containing compound metabolic process (GO:0006139)|one-carbon metabolic process (GO:0006730)|organ regeneration (GO:0031100)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|tetrahydrofolylpolyglutamate synthase activity (GO:0004326)			endometrium(2)|kidney(1)|lung(3)|ovary(1)	7					Methotrexate(DB00563)|Pralatrexate(DB06813)|Raltitrexed(DB00293)	GAGCGGATCCGCATCAATGGG	0.652																																																0													90	87	88					9																	130569287		2203	4300	6503	SO:0001583	missense	2356				CCDS35148.1, CCDS35149.1, CCDS75905.1	9q34.11	2013-09-19			ENSG00000136877	ENSG00000136877	6.3.2.17		3824	protein-coding gene	gene with protein product		136510					Standard	NM_004957		Approved		uc004bsg.1	Q05932	OTTHUMG00000020716	ENST00000373247.2:c.422G>A	9.37:g.130569287G>A	ENSP00000362344:p.Arg141His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPW4|B7Z2Z3|F5H0K6|Q5JU19|Q5JU22|Q6P2P6	Missense_Mutation	SNP	ENST00000373247.2	37	CCDS35148.1	.	.	.	.	.	.	.	.	.	.	g	35	5.448987	0.96205	.	.	ENSG00000136877	ENST00000373247;ENST00000373245;ENST00000393706;ENST00000373228;ENST00000373225;ENST00000431857;ENST00000423577	T;T;T;T;T	0.38077	2.5;1.16;2.47;1.16;2.1	5.45	5.45	0.79879	Mur ligase, central (2);	0.000000	0.85682	D	0.000000	T	0.70937	0.3281	M	0.93854	3.465	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.999;1.0	T	0.79313	-0.1855	10	0.87932	D	0	-0.0707	17.882	0.88843	0.0:0.0:1.0:0.0	.	141;141	Q05932-4;Q05932	.;FOLC_HUMAN	H	141;141;141;141;91;91;91	ENSP00000362344:R141H;ENSP00000362342:R141H;ENSP00000377309:R141H;ENSP00000362325:R141H;ENSP00000362322:R91H	ENSP00000362322:R91H	R	+	2	0	FPGS	129609108	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	9.637000	0.98443	2.582000	0.87167	0.450000	0.29827	CGC		0.652	FPGS-011	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054251.1			A	130569287	G	A	130569287	3	1	664	1	0	0	0	0	1	0	0	0	6043	1087	38	1	440	1	FPGS	9	130569287	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	401499	130569287	10644144	493	41803										
PIP5KL1	138429	hgsc.bcm.edu;ucsc.edu	37	chr9	130684387	130684387	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccgggctctgtgccccttgCacagacctgggggccgacag	14	15	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:130684387C>T	ENST00000388747.4	-	10	968	c.924G>A	c.(922-924)gtG>gtA	p.V308V	PIP5KL1_ENST00000300432.3_Silent_p.V105V	NM_001135219.1	NP_001128691.1	Q5T9C9	PI5L1_HUMAN	phosphatidylinositol-4-phosphate 5-kinase-like 1	308	PIPK. {ECO:0000255|PROSITE- ProRule:PRU00781}.					cell projection (GO:0042995)|cytoplasm (GO:0005737)|membrane (GO:0016020)	1-phosphatidylinositol-4-phosphate 5-kinase activity (GO:0016308)|ATP binding (GO:0005524)			endometrium(1)|kidney(2)|large_intestine(1)|lung(3)|skin(1)	8						GTGCCCCTTGCACAGACCTGG	0.701																																																0													10	12	12					9																	130684387		2129	4201	6330	SO:0001819	synonymous_variant	138429			BC042184	CCDS6885.1, CCDS48030.1	9q34.13	2008-02-05			ENSG00000167103	ENSG00000167103			28711	protein-coding gene	gene with protein product		612865				12477932	Standard	NM_001135219		Approved	bA203J24.5, MGC46424	uc011mao.2	Q5T9C9	OTTHUMG00000020719	ENST00000388747.4:c.924G>A	9.37:g.130684387C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVS3	Silent	SNP	ENST00000388747.4	37	CCDS48030.1																																																																																				0.701	PIP5KL1-004	NOVEL	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054289.2	NM_173492		T	130684387	C	T	130684387	2	4	664	1	0	0	0	0	0	0	0	1	11949	697	25	2		2	PIP5KL1	9	130684387	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	115100	130684387	10529044	494	41804										
GOLGA2	2801	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr9	131023004	131023004	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagaccctccagctccttccGcaggtgctcagcctccgctt	8	19	1	1	rs376675493		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:131023004G>A	ENST00000421699.2	-	17	1429	c.1417C>T	c.(1417-1419)Cgg>Tgg	p.R473W	GOLGA2_ENST00000609374.1_Missense_Mutation_p.R461W|AL590708.1_ENST00000408370.1_RNA	NM_004486.4	NP_004477.3	Q08379	GOGA2_HUMAN	golgin A2	473					mitotic cell cycle (GO:0000278)	cis-Golgi network (GO:0005801)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)				NS(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(10)|lung(13)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	34						AGCTCCTTCCGCAGGTGCTCA	0.637																																																0													21	24	23					9																	131023004		2203	4300	6503	SO:0001583	missense	2801			L06147	CCDS6896.2	9q34.13	2010-06-28	2010-02-12		ENSG00000167110	ENSG00000167110			4425	protein-coding gene	gene with protein product	"Golgi matrix protein GM130", "SY11 protein"	602580	"golgi autoantigen, golgin subfamily a, 2"			8315394	Standard	NM_004486		Approved	GM130, golgin-95	uc011maw.2	Q08379	OTTHUMG00000020732	ENST00000421699.2:c.1417C>T	9.37:g.131023004G>A	ENSP00000416097:p.Arg473Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GRM9|Q9BRB0|Q9NYF9	Missense_Mutation	SNP	ENST00000421699.2	37	CCDS6896.2	.	.	.	.	.	.	.	.	.	.	g	36	5.620943	0.96660	.	.	ENSG00000167110	ENST00000421699	T	0.24723	1.84	5.3	5.3	0.74995	.	0.303264	0.36815	N	0.002390	T	0.37073	0.0990	M	0.63843	1.955	0.33982	D	0.64812	D	0.56521	0.976	P	0.46975	0.533	T	0.55692	-0.8101	10	0.87932	D	0	.	18.9624	0.92681	0.0:0.0:1.0:0.0	.	473	Q08379	GOGA2_HUMAN	W	473	ENSP00000416097:R473W	ENSP00000416097:R473W	R	-	1	2	GOLGA2	130062825	0.990000	0.36364	0.028000	0.17463	0.807000	0.45602	6.781000	0.75068	2.482000	0.83794	0.305000	0.20034	CGG		0.637	GOLGA2-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054358.2	NM_004486		A	131023004	G	A	131023004	3	1	664	1	0	0	0	0	1	0	0	0	6559	1086	38	1	1631	1	GOLGA2	9	131023004	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	338617	131023004	10190427	495	41805										
SPTAN1	6709	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	131329101	131329101	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggtcctagaccgataccacCgcttcaaggaactctcaacc	7	15	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:131329101C>T	ENST00000372731.4	+	2	192	c.82C>T	c.(82-84)Cgc>Tgc	p.R28C	SPTAN1_ENST00000358161.5_Missense_Mutation_p.R28C|SPTAN1_ENST00000372739.3_Missense_Mutation_p.R28C	NM_001195532.1|NM_003127.3	NP_001182461.1|NP_003118.2	Q13813	SPTN1_HUMAN	spectrin, alpha, non-erythrocytic 1	28					actin filament capping (GO:0051693)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)	cuticular plate (GO:0032437)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|fascia adherens (GO:0005916)|intracellular membrane-bounded organelle (GO:0043231)|lateral plasma membrane (GO:0016328)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|spectrin (GO:0008091)|vesicle (GO:0031982)|Z disc (GO:0030018)	actin binding (GO:0003779)|calcium ion binding (GO:0005509)|structural constituent of cytoskeleton (GO:0005200)			NS(2)|breast(8)|cervix(2)|endometrium(6)|kidney(4)|large_intestine(21)|liver(1)|lung(25)|ovary(5)|pancreas(1)|prostate(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	87						CCGATACCACCGCTTCAAGGA	0.488																																					NSCLC(120;833 1744 2558 35612 37579)											0													106	105	105					9																	131329101		2203	4300	6503	SO:0001583	missense	6709			M19725	CCDS6905.1, CCDS48036.1, CCDS75914.1	9q34.11	2013-01-10	2012-06-15		ENSG00000197694	ENSG00000197694		"EF-hand domain containing"	11273	protein-coding gene	gene with protein product	"alpha-fodrin"	182810				3336352	Standard	NM_003127		Approved		uc004bvm.4	Q13813	OTTHUMG00000020754	ENST00000372731.4:c.82C>T	9.37:g.131329101C>T	ENSP00000361816:p.Arg28Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q13186|Q15324|Q16606|Q59EF1|Q5VXV5|Q5VXV6|Q7Z6M5|Q9P0V0	Missense_Mutation	SNP	ENST00000372731.4	37	CCDS6905.1	.	.	.	.	.	.	.	.	.	.	C	25.3	4.625175	0.87560	.	.	ENSG00000197694	ENST00000358161;ENST00000372731;ENST00000372739;ENST00000372719	T;T;T	0.36520	1.25;1.25;1.25	5.65	5.65	0.86999	.	0.000000	0.85682	D	0.000000	T	0.59183	0.2175	M	0.72479	2.2	0.80722	D	1	D;D;D;D;D	0.89917	0.999;1.0;0.998;1.0;0.999	P;D;P;D;D	0.77004	0.898;0.989;0.88;0.978;0.922	T	0.60347	-0.7281	10	0.72032	D	0.01	.	14.5719	0.68218	0.1549:0.8451:0.0:0.0	.	28;28;28;28;28	A6NG51;B4DTV8;Q13813-3;Q13813-2;Q13813	.;.;.;.;SPTA2_HUMAN	C	28	ENSP00000350882:R28C;ENSP00000361816:R28C;ENSP00000361824:R28C	ENSP00000350882:R28C	R	+	1	0	SPTAN1	130368922	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.801000	0.69115	2.829000	0.97493	0.655000	0.94253	CGC		0.488	SPTAN1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054472.1	NM_003127		T	131329101	C	T	131329101	3	4	664	1	0	0	0	0	1	0	0	0	15129	652	23	1	84	1	SPTAN1	9	131329101	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	306097	131329101	9884330	496	41806										
DOLPP1	57171	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	131849014	131849014	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctccgagttcttcctaatccGagacacaagcctcattccca	5	16	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:131849014G>A	ENST00000372546.4	+	7	649	c.617G>A	c.(616-618)cGa>cAa	p.R206Q	DOLPP1_ENST00000406974.3_Missense_Mutation_p.R163Q|DOLPP1_ENST00000540102.1_Missense_Mutation_p.R65Q	NM_020438.4	NP_065171.2	Q86YN1	DOPP1_HUMAN	dolichyldiphosphatase 1	206					cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|dolichyl diphosphate biosynthetic process (GO:0006489)|lipid biosynthetic process (GO:0008610)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation (GO:0006487)|protein N-linked glycosylation via asparagine (GO:0018279)	endoplasmic reticulum membrane (GO:0005789)|integral component of endoplasmic reticulum membrane (GO:0030176)	dolichyldiphosphatase activity (GO:0047874)			endometrium(3)|kidney(2)|lung(7)|skin(1)	13						TTCCTAATCCGAGACACAAGC	0.577																																																0													139	116	124					9																	131849014		2203	4300	6503	SO:0001583	missense	57171			BC009493	CCDS6918.1, CCDS48039.1	9q34.1	2013-05-21	2013-05-21		ENSG00000167130	ENSG00000167130	3.6.1.43		29565	protein-coding gene	gene with protein product	"linked to Surfeit genes in Fugu rubripes 2"	614516	"dolichyl pyrophosphate phosphatase 1"			10369878, 12198133	Standard	NM_020438		Approved	LSFR2	uc004bxc.3	Q86YN1	OTTHUMG00000020771	ENST00000372546.4:c.617G>A	9.37:g.131849014G>A	ENSP00000361625:p.Arg206Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3U8|B0QZG4|Q96GF8|Q9Y3G1	Missense_Mutation	SNP	ENST00000372546.4	37	CCDS6918.1	.	.	.	.	.	.	.	.	.	.	G	36	5.833991	0.97003	.	.	ENSG00000167130	ENST00000372546;ENST00000406974;ENST00000540102	.	.	.	5.52	5.52	0.82312	.	0.000000	0.85682	D	0.000000	T	0.75722	0.3888	M	0.73372	2.23	0.80722	D	1	D;D	0.63880	0.993;0.973	P;P	0.57720	0.826;0.467	T	0.76825	-0.2816	9	0.52906	T	0.07	-17.6525	18.4844	0.90823	0.0:0.0:1.0:0.0	.	163;206	B0QZG4;Q86YN1	.;DOPP1_HUMAN	Q	206;163;65	.	ENSP00000361625:R206Q	R	+	2	0	DOLPP1	130888835	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.375000	0.97178	2.607000	0.88179	0.555000	0.69702	CGA		0.577	DOLPP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054548.4	NM_020438		A	131849014	G	A	131849014	3	1	664	1	0	0	0	0	1	0	0	0	4706	1058	37	1	643	1	DOLPP1	9	131849014	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	519913	131849014	9364417	497	41807										
BAT2L1	84726	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr9	134334701	134334701	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcgccagaccctcagccaccGcccaggaagcttcatggctg	11	17	2	1	rs565217318	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:134334701G>A	ENST00000357304.4	+	10	1417	c.1362G>A	c.(1360-1362)ccG>ccA	p.P454P	PRRC2B_ENST00000405995.1_Silent_p.P454P|PRRC2B_ENST00000458550.1_Silent_p.P454P|PRRC2B_ENST00000372249.1_5'UTR	NM_013318.3	NP_037450.2	Q5JSZ5	PRC2B_HUMAN	proline-rich coiled-coil 2B	454							poly(A) RNA binding (GO:0044822)			cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(7)|lung(20)|ovary(2)	44						CTCAGCCACCGCCCAGGAAGC	0.617													G|||	2	0.000399361	0.0	0.0	5008	,	,		15507	0.0		0.0	False		,,,				2504	0.002															0													39	47	44					9																	134334701		2077	4213	6290	SO:0001819	synonymous_variant	84726			AB011087	CCDS48044.1	9q34.13	2010-12-09	2010-12-09	2010-12-09	ENSG00000130723	ENSG00000130723			28121	protein-coding gene	gene with protein product			"KIAA0515", "HLA-B associated transcript 2-like", "HLA-B associated transcript 2-like 1"	KIAA0515, BAT2L, BAT2L1		9628581	Standard	NM_013318		Approved	MGC10526, LQFBS-1	uc004can.4	Q5JSZ5	OTTHUMG00000020827	ENST00000357304.4:c.1362G>A	9.37:g.134334701G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60270|Q5JSZ7|Q66VZ2|Q68CR0|Q96EI9|Q9H683	Silent	SNP	ENST00000357304.4	37	CCDS48044.1																																																																																				0.617	PRRC2B-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding				A	134334701	G	A	134334701	2	1	664	1	0	0	0	0	0	0	0	1	1320	1074	38	1		1	BAT2L1	9	134334701	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2485687	134334701	6878730	498	41808										
NTNG2	84628	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr9	135073709	135073709	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gacatgtcatcctccagcgcGcaccgcgtgctctgcaccga	10	17	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:135073709G>A	ENST00000393229.3	+	3	1346	c.570G>A	c.(568-570)gcG>gcA	p.A190A	NTNG2_ENST00000372179.3_Silent_p.A190A|NTNG2_ENST00000393228.4_Silent_p.A190A|NTNG2_ENST00000360670.3_Silent_p.A190A	NM_032536.2	NP_115925.2	Q96CW9	NTNG2_HUMAN	netrin G2	190	Laminin N-terminal. {ECO:0000255|PROSITE- ProRule:PRU00466}.				axonogenesis (GO:0007409)	anchored component of plasma membrane (GO:0046658)|axon (GO:0030424)				central_nervous_system(2)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(10)|ovary(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	29				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		CCTCCAGCGCGCACCGCGTGC	0.677																																																0													33	27	29					9																	135073709		2203	4296	6499	SO:0001819	synonymous_variant	84628			AB058760	CCDS6946.1	9q34	2013-03-01	2003-12-02	2003-12-03	ENSG00000196358	ENSG00000196358		"Netrins"	14288	protein-coding gene	gene with protein product	"Netrin-G2"		"netrin G1"	NTNG1			Standard	NM_032536		Approved	KIAA1857, Lmnt2	uc004cbh.2	Q96CW9	OTTHUMG00000020835	ENST00000393229.3:c.570G>A	9.37:g.135073709G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JUJ2|Q6UXY0|Q96JH0	Silent	SNP	ENST00000393229.3	37	CCDS6946.1																																																																																				0.677	NTNG2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000054779.1	NM_032536		A	135073709	G	A	135073709	2	1	664	1	0	0	0	0	0	0	0	1	10712	1074	38	1		1	NTNG2	9	135073709	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	739008	135073709	6139722	499	41809										
GTF3C4	9329	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr9	135553528	135553528	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agctggtctcccatgggttgCgatgctaatggcaggtgcct	14	10	1	0	rs372437145		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:135553528C>T	ENST00000372146.4	+	2	1086	c.522C>T	c.(520-522)tgC>tgT	p.C174C	GTF3C4_ENST00000483873.2_Intron	NM_012204.2	NP_036336.2	Q9UKN8	TF3C4_HUMAN	general transcription factor IIIC, polypeptide 4, 90kDa	174					5S class rRNA transcription from RNA polymerase III type 1 promoter (GO:0042791)|gene expression (GO:0010467)|histone acetylation (GO:0016573)|positive regulation of catalytic activity (GO:0043085)|transcription from RNA polymerase III promoter (GO:0006383)|transcription initiation from RNA polymerase III promoter (GO:0006384)|transcription, DNA-templated (GO:0006351)|tRNA transcription from RNA polymerase III promoter (GO:0042797)	nucleoplasm (GO:0005654)|transcription factor TFIIIC complex (GO:0000127)	DNA binding (GO:0003677)|enzyme activator activity (GO:0008047)|histone acetyltransferase activity (GO:0004402)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(7)|ovary(1)|skin(1)	20				OV - Ovarian serous cystadenocarcinoma(145;8.15e-07)|Epithelial(140;2.6e-05)		CCATGGGTTGCGATGCTAATG	0.532																																					Pancreas(142;417 1875 11086 31973 47667)											0								C		0,4406		0,0,2203	114	111	112		522	-2.7	1	9		112	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	GTF3C4	NM_012204.2		0,1,6502	TT,TC,CC		0.0116,0.0,0.0077		174/823	135553528	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	9329			AF142328	CCDS6953.1	9q34.3	2011-07-01	2002-08-29		ENSG00000125484	ENSG00000125484		"Chromatin-modifying enzymes / K-acetyltransferases", "General transcription factors"	4667	protein-coding gene	gene with protein product		604892	"general transcription factor IIIC, polypeptide 4 (90kD)"			10523658	Standard	NM_012204		Approved	TFIIIC90, KAT12	uc010mzv.3	Q9UKN8	OTTHUMG00000020842	ENST00000372146.4:c.522C>T	9.37:g.135553528C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VZJ7	Silent	SNP	ENST00000372146.4	37	CCDS6953.1																																																																																				0.532	GTF3C4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054792.1			T	135553528	C	T	135553528	2	4	664	1	0	0	0	0	0	0	0	1	6882	776	27	1		1	GTF3C4	9	135553528	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	479819	135553528	5659903	500	41810										
GTF3C5	9328	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr9	135919149	135919149	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagtacttggctgtgcatacGgaagcaggcggcaagcatac	13	10	0	0	rs575422131		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:135919149G>A	ENST00000372097.5	+	3	731	c.408G>A	c.(406-408)acG>acA	p.T136T	GTF3C5_ENST00000372099.6_Silent_p.T127T|GTF3C5_ENST00000372108.5_Silent_p.T136T|GTF3C5_ENST00000372095.5_Silent_p.T11T|GTF3C5_ENST00000485692.1_3'UTR|GTF3C5_ENST00000342018.8_Silent_p.T136T	NM_012087.3	NP_036219.2	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5, 63kDa	136					5S class rRNA transcription from RNA polymerase III type 1 promoter (GO:0042791)|gene expression (GO:0010467)|skeletal muscle cell differentiation (GO:0035914)|transcription from RNA polymerase III promoter (GO:0006383)|transcription, DNA-templated (GO:0006351)|tRNA transcription from RNA polymerase III promoter (GO:0042797)	nucleoplasm (GO:0005654)|transcription factor TFIIIC complex (GO:0000127)	DNA binding (GO:0003677)			endometrium(5)|kidney(1)|large_intestine(7)|lung(6)|pancreas(1)|prostate(1)	21				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		CTGTGCATACGGAAGCAGGCG	0.567													G|||	1	0.000199681	0.0	0.0	5008	,	,		19894	0.0		0.0	False		,,,				2504	0.001															0													102	83	89					9																	135919149		2203	4300	6503	SO:0001819	synonymous_variant	9328			AF133124	CCDS6958.1, CCDS48050.1, CCDS75927.1	9q34.13	2010-03-23	2002-08-29		ENSG00000148308	ENSG00000148308		"General transcription factors"	4668	protein-coding gene	gene with protein product	"transcription factor IIIC, 63 kD"	604890	"general transcription factor IIIC, polypeptide 5 (63kD)"			10373544	Standard	NM_012087		Approved	TFiiiC2-63, TFIIIC63, TFIIICepsilon	uc004ccj.4	Q9Y5Q8	OTTHUMG00000020856	ENST00000372097.5:c.408G>A	9.37:g.135919149G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NI44|A6NJB9|Q5T7U2|Q5T7U3|Q8N2U7|Q8N857|Q96GD9|Q9H4P2	Silent	SNP	ENST00000372097.5	37	CCDS6958.1																																																																																				0.567	GTF3C5-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054826.1	NM_001122823		A	135919149	G	A	135919149	2	1	664	1	0	0	0	0	0	0	0	1	6883	1103	39	1		1	GTF3C5	9	135919149	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	365621	135919149	5294282	501	41811										
COL5A1	1289	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr9	137712006	137712006	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atcggtcctccgggtgaacaGggtgagaagggcgaccgtgg	18	9	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:137712006G>T	ENST00000371817.3	+	58	4905	c.4491G>T	c.(4489-4491)caG>caT	p.Q1497H		NM_000093.3|NM_001278074.1	NP_000084.3|NP_001265003.1	P20908	CO5A1_HUMAN	collagen, type V, alpha 1	1497	Triple-helical region.				axon guidance (GO:0007411)|blood vessel development (GO:0001568)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|collagen biosynthetic process (GO:0032964)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular fibril organization (GO:0043206)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|eye morphogenesis (GO:0048592)|heart morphogenesis (GO:0003007)|integrin biosynthetic process (GO:0045112)|negative regulation of endodermal cell differentiation (GO:1903225)|regulation of cellular component organization (GO:0051128)|skin development (GO:0043588)|tendon development (GO:0035989)|wound healing, spreading of epidermal cells (GO:0035313)	basement membrane (GO:0005604)|collagen type V trimer (GO:0005588)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	extracellular matrix structural constituent (GO:0005201)|heparin binding (GO:0008201)|integrin binding (GO:0005178)|metal ion binding (GO:0046872)|platelet-derived growth factor binding (GO:0048407)|proteoglycan binding (GO:0043394)			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(26)|liver(2)|lung(36)|ovary(4)|pancreas(4)|prostate(5)|skin(10)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(4)	115		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)		CGGGTGAACAGGGTGAGAAGG	0.622																																																0													104	97	99					9																	137712006		2203	4300	6503	SO:0001583	missense	1289			D90279	CCDS6982.1, CCDS75932.1	9q34.2-q34.3	2014-09-17			ENSG00000130635	ENSG00000130635		"Collagens"	2209	protein-coding gene	gene with protein product	"alpha 1 type V collagen"	120215				1572660	Standard	NM_001278074		Approved		uc031tfl.1	P20908	OTTHUMG00000020891	ENST00000371817.3:c.4491G>T	9.37:g.137712006G>T	ENSP00000360882:p.Gln1497His	Somatic		WXS	Illumina HiSeq	Phase_I	Q15094|Q5SUX4	Missense_Mutation	SNP	ENST00000371817.3	37	CCDS6982.1	.	.	.	.	.	.	.	.	.	.	G	15.29	2.790277	0.50102	.	.	ENSG00000130635	ENST00000371817;ENST00000355306	D	0.92805	-3.11	4.69	3.77	0.43336	.	0.000000	0.85682	U	0.000000	D	0.89255	0.6663	M	0.65975	2.015	0.49483	D	0.999797	B	0.15719	0.014	B	0.17722	0.019	D	0.85085	0.0948	10	0.62326	D	0.03	.	6.8449	0.23982	0.1697:0.1461:0.6843:0.0	.	1497	P20908	CO5A1_HUMAN	H	1497;34	ENSP00000360882:Q1497H	ENSP00000347458:Q34H	Q	+	3	2	COL5A1	136851827	1.000000	0.71417	0.992000	0.48379	0.970000	0.65996	1.914000	0.39966	0.923000	0.37045	0.643000	0.83706	CAG		0.622	COL5A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054954.2	NM_000093		T	137712006	G	T	137712006	3	4	664	1	0	0	0	0	1	0	0	0	3698	991	35	4	4721	4	COL5A1	9	137712006	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1792857	137712006	3501425	502	41812										
C9orf86	55684	broad.mit.edu;mdanderson.org	37	chr9	139730292	139730292	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagacggaggaccagaactaCggcatgtatgtggccggacc	15	10	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:139730292C>T	ENST00000311502.7	+	8	1040	c.804C>T	c.(802-804)taC>taT	p.Y268Y	RABL6_ENST00000357466.2_Silent_p.Y268Y|RABL6_ENST00000371663.4_Silent_p.Y269Y|RABL6_ENST00000371675.3_Silent_p.Y153Y|RABL6_ENST00000432842.2_Silent_p.Y230Y|RABL6_ENST00000466096.1_3'UTR			Q3YEC7	RABL6_HUMAN	RAB, member RAS oncogene family-like 6	268	Small GTPase-like.				small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	GTP binding (GO:0005525)										ACCAGAACTACGGCATGTATG	0.687																																																0													21	29	26					9																	139730292		2054	4098	6152	SO:0001819	synonymous_variant	55684			AK094382	CCDS48058.1, CCDS55352.1, CCDS55353.1	9q34.3	2012-06-28	2012-06-28	2012-06-28	ENSG00000196642	ENSG00000196642			24703	protein-coding gene	gene with protein product	"Rab-like protein 1", "partner of ARF"	610615	"chromosome 9 open reading frame 86"	C9orf86		14702039, 16582619, 17962191, 19433581	Standard	NM_024718		Approved	FLJ10101, FLJ13045, pp8875, bA216L13.9, Parf, RBEL1	uc004cjj.1	Q3YEC7	OTTHUMG00000020947	ENST00000311502.7:c.804C>T	9.37:g.139730292C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8QVZ7|A8QVZ8|C6K8I4|C6K8I5|Q4F968|Q5T5R7|Q8IWK1|Q8TCL4|Q8WU94|Q96SR8|Q9BU21|Q9H935	Silent	SNP	ENST00000311502.7	37	CCDS48058.1																																																																																				0.687	RABL6-009	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000055141.4	NM_024718		T	139730292	C	T	139730292	2	4	664	1	0	0	0	0	0	0	0	1	2504	547	19	1		1	C9orf86	9	139730292	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2018286	139730292	1483139	503	41813										
ABCA2	20	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr9	139908708	139908708	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgtagccagctccctcgtcGccacgggcagagcccacaga	12	16	0	2	rs567851206		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:139908708G>A	ENST00000371605.3	-	26	4296	c.4149C>T	c.(4147-4149)ggC>ggT	p.G1383G	ABCA2_ENST00000341511.6_Silent_p.G1384G|ABCA2_ENST00000265662.5_Silent_p.G1384G			Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 2	1383					ATP catabolic process (GO:0006200)|cholesterol homeostasis (GO:0042632)|lipid metabolic process (GO:0006629)|regulation of intracellular cholesterol transport (GO:0032383)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to drug (GO:0042493)|response to steroid hormone (GO:0048545)|transmembrane transport (GO:0055085)|transport (GO:0006810)	ATP-binding cassette (ABC) transporter complex (GO:0043190)|cytoplasmic membrane-bounded vesicle (GO:0016023)|endosome (GO:0005768)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|nucleotide binding (GO:0000166)			central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|liver(1)|lung(25)|prostate(2)|skin(1)|stomach(1)|urinary_tract(1)	41	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		CTCCCTCGTCGCCACGGGCAG	0.652													G|||	1	0.000199681	0.0008	0.0	5008	,	,		15627	0.0		0.0	False		,,,				2504	0.0															0													17	21	20					9																	139908708		2184	4283	6467	SO:0001819	synonymous_variant	20			U18235	CCDS43909.1	9q34	2012-03-14			ENSG00000107331	ENSG00000107331		"ATP binding cassette transporters / subfamily A"	32	protein-coding gene	gene with protein product		600047		ABC2		8088782	Standard	NM_212533		Approved		uc022bpy.1	Q9BZC7	OTTHUMG00000020958	ENST00000371605.3:c.4149C>T	9.37:g.139908708G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NED5|Q5SPY5|Q5W9G5|Q76MW7|Q9HC28	Silent	SNP	ENST00000371605.3	37																																																																																					0.652	ABCA2-202	KNOWN	basic	protein_coding	protein_coding		NM_001606		A	139908708	G	A	139908708	2	1	664	1	0	0	0	0	0	0	0	1	32	1074	38	1		1	ABCA2	9	139908708	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	178416	139908708	1304723	504	41814										
ABCA2	20	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	139915957	139915957	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gacagcatcccggtagccctGcagggctcccttctgactct	10	16	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:139915957G>A	ENST00000371605.3	-	7	928	c.781C>T	c.(781-783)Cag>Tag	p.Q261*	ABCA2_ENST00000341511.6_Nonsense_Mutation_p.Q262*|ABCA2_ENST00000492260.1_5'UTR|ABCA2_ENST00000265662.5_Nonsense_Mutation_p.Q262*			Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 2	261					ATP catabolic process (GO:0006200)|cholesterol homeostasis (GO:0042632)|lipid metabolic process (GO:0006629)|regulation of intracellular cholesterol transport (GO:0032383)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to drug (GO:0042493)|response to steroid hormone (GO:0048545)|transmembrane transport (GO:0055085)|transport (GO:0006810)	ATP-binding cassette (ABC) transporter complex (GO:0043190)|cytoplasmic membrane-bounded vesicle (GO:0016023)|endosome (GO:0005768)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|nucleotide binding (GO:0000166)			central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|liver(1)|lung(25)|prostate(2)|skin(1)|stomach(1)|urinary_tract(1)	41	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		CGGTAGCCCTGCAGGGCTCCC	0.687																																																0													14	19	17					9																	139915957		2158	4267	6425	SO:0001587	stop_gained	20			U18235	CCDS43909.1	9q34	2012-03-14			ENSG00000107331	ENSG00000107331		"ATP binding cassette transporters / subfamily A"	32	protein-coding gene	gene with protein product		600047		ABC2		8088782	Standard	NM_212533		Approved		uc022bpy.1	Q9BZC7	OTTHUMG00000020958	ENST00000371605.3:c.781C>T	9.37:g.139915957G>A	ENSP00000360666:p.Gln261*	Somatic		WXS	Illumina HiSeq	Phase_I	A6NED5|Q5SPY5|Q5W9G5|Q76MW7|Q9HC28	Nonsense_Mutation	SNP	ENST00000371605.3	37		.	.	.	.	.	.	.	.	.	.	g	24.6	4.544433	0.86022	.	.	ENSG00000107331	ENST00000265662;ENST00000371605;ENST00000355090;ENST00000341511	.	.	.	4.03	3.04	0.35103	.	5.649370	0.01815	U	0.033717	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.11794	T	0.64	.	6.235	0.20758	0.0:0.2773:0.4324:0.2903	.	.	.	.	X	262;261;292;262	.	ENSP00000265662:Q262X	Q	-	1	0	ABCA2	139035778	0.060000	0.20803	0.973000	0.42090	0.347000	0.29111	0.572000	0.23684	1.784000	0.52394	0.197000	0.17608	CAG		0.687	ABCA2-202	KNOWN	basic	protein_coding	protein_coding		NM_001606		A	139915957	G	A	139915957	4	1	664	1	0	0	0	0	0	1	0	0	32	1328	46	2	6694	2	ABCA2	9	139915957	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	7249	139915957	1297474	505	41815										
UAP1L1	91373	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr9	139973538	139973538	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgtggacaacatcctggtgCggctggcggaccctgtcttc	14	12	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:139973538C>T	ENST00000409858.3	+	4	813	c.781C>T	c.(781-783)Cgg>Tgg	p.R261W	UAP1L1_ENST00000360271.3_Missense_Mutation_p.R138W|UAP1L1_ENST00000476184.1_3'UTR	NM_207309.2	NP_997192.2	Q3KQV9	UAP1L_HUMAN	UDP-N-acetylglucosamine pyrophosphorylase 1 like 1	261							uridylyltransferase activity (GO:0070569)			kidney(1)|large_intestine(1)|lung(3)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	8	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0821)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;2.96e-05)|Epithelial(140;0.000486)		CATCCTGGTGCGGCTGGCGGA	0.657																																																0													81	79	80					9																	139973538		2203	4300	6503	SO:0001583	missense	91373			AK022632	CCDS7028.2	9q34.3	2014-07-31	2014-07-31		ENSG00000197355	ENSG00000197355			28082	protein-coding gene	gene with protein product							Standard	NM_207309		Approved		uc010ncb.3	Q3KQV9	OTTHUMG00000020962	ENST00000409858.3:c.781C>T	9.37:g.139973538C>T	ENSP00000386935:p.Arg261Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A2AMJ8|Q5SPZ2|Q69YQ3|Q6ZR38	Missense_Mutation	SNP	ENST00000409858.3	37	CCDS7028.2	.	.	.	.	.	.	.	.	.	.	C	19.02	3.746443	0.69418	.	.	ENSG00000197355	ENST00000409858;ENST00000360271	T;T	0.17854	2.25;2.25	5.27	4.29	0.51040	.	0.107189	0.64402	D	0.000008	T	0.42291	0.1196	M	0.86178	2.8	0.36084	D	0.842964	D;D	0.76494	0.999;0.999	D;P	0.70016	0.967;0.893	T	0.56667	-0.7941	10	0.87932	D	0	.	10.321	0.43767	0.3919:0.6081:0.0:0.0	.	261;138	Q3KQV9;Q3KQV9-2	UAP1L_HUMAN;.	W	261;138	ENSP00000386935:R261W;ENSP00000353409:R138W	ENSP00000353409:R138W	R	+	1	2	UAP1L1	139093359	1.000000	0.71417	0.991000	0.47740	0.399000	0.30720	4.453000	0.60061	2.470000	0.83445	0.561000	0.74099	CGG		0.657	UAP1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055216.2	XM_038063		T	139973538	C	T	139973538	3	4	664	1	0	0	0	0	1	0	0	0	16838	759	27	1	795	1	UAP1L1	9	139973538	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	57581	139973538	1239893	506	41816										
ANAPC2	29882	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr9	140074818	140074818	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccggatgttggcattgatgcGgcgggagtccgccatgtcct	15	11	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:140074818G>A	ENST00000323927.2	-	10	1709	c.1705C>T	c.(1705-1707)Cgc>Tgc	p.R569C		NM_013366.3	NP_037498.1	Q9UJX6	ANC2_HUMAN	anaphase promoting complex subunit 2	569					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of axon extension (GO:0045773)|positive regulation of dendrite morphogenesis (GO:0050775)|positive regulation of synapse maturation (GO:0090129)|positive regulation of synaptic plasticity (GO:0031915)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K11-linked ubiquitination (GO:0070979)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	anaphase-promoting complex (GO:0005680)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)				breast(2)|endometrium(4)|kidney(1)|large_intestine(1)|lung(5)|ovary(1)|skin(1)	15	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.000858)		GCATTGATGCGGCGGGAGTCC	0.677																																																0													37	38	38					9																	140074818		2203	4298	6501	SO:0001583	missense	29882			AB037827	CCDS7033.1	9q34.3	2011-06-15			ENSG00000176248	ENSG00000176248		"Anaphase promoting complex subunits"	19989	protein-coding gene	gene with protein product		606946				11739784	Standard	NM_013366		Approved	APC2, KIAA1406	uc004clr.1	Q9UJX6	OTTHUMG00000020983	ENST00000323927.2:c.1705C>T	9.37:g.140074818G>A	ENSP00000314004:p.Arg569Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VSG1|Q96DG5|Q96GG4|Q9P2E1	Missense_Mutation	SNP	ENST00000323927.2	37	CCDS7033.1	.	.	.	.	.	.	.	.	.	.	G	17.34	3.363861	0.61513	.	.	ENSG00000176248	ENST00000323927	T	0.74947	-0.89	4.27	4.27	0.50696	Cullin, N-terminal (1);Cullin homology (3);	0.000000	0.85682	D	0.000000	D	0.87160	0.6108	M	0.91872	3.25	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.88706	0.3219	10	0.87932	D	0	-18.2855	9.4373	0.38646	0.0:0.0:0.7879:0.2121	.	569;566	Q9UJX6;Q9UJX6-2	ANC2_HUMAN;.	C	569	ENSP00000314004:R569C	ENSP00000314004:R569C	R	-	1	0	ANAPC2	139194639	1.000000	0.71417	1.000000	0.80357	0.689000	0.40095	4.106000	0.57804	2.202000	0.70862	0.462000	0.41574	CGC		0.677	ANAPC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055315.1	NM_013366		A	140074818	G	A	140074818	3	1	664	1	0	0	0	0	1	0	0	0	603	1116	39	1	779	1	ANAPC2	9	140074818	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	101280	140074818	1138613	507	41817										
RNF208	727800	broad.mit.edu;bcgsc.ca	37	chr9	140115390	140115390	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggggccgccgtggcagtggcGgggtatggggtgccccttcc	20	12	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:140115390G>A	ENST00000392827.1	-	2	443	c.275C>T	c.(274-276)cCg>cTg	p.P92L	RNF208_ENST00000391553.1_Missense_Mutation_p.P92L			Q9H0X6	RN208_HUMAN	ring finger protein 208	92					protein autoubiquitination (GO:0051865)		ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			lung(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		TGGCAGTGGCGGGGTATGGGG	0.637																																																0													7	10	9					9																	140115390		1905	4068	5973	SO:0001583	missense	727800			AF416715	CCDS7037.2	9q34.3	2007-01-19				ENSG00000212864		"RING-type (C3HC4) zinc fingers"	25420	protein-coding gene	gene with protein product						11230166	Standard	NM_031297		Approved	DKFZP761H1710	uc004clz.2	Q9H0X6		ENST00000392827.1:c.275C>T	9.37:g.140115390G>A	ENSP00000376572:p.Pro92Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A2BFA0	Missense_Mutation	SNP	ENST00000392827.1	37	CCDS7037.2	.	.	.	.	.	.	.	.	.	.	G	7.445	0.641575	0.14451	.	.	ENSG00000212864	ENST00000392827;ENST00000391553	T;T	0.37752	1.18;1.18	3.44	3.44	0.39384	.	1.210940	0.06361	N	0.711722	T	0.38558	0.1045	N	0.19112	0.55	0.80722	D	1	D	0.64830	0.994	P	0.53146	0.719	T	0.17684	-1.0361	10	0.30854	T	0.27	-10.054	13.6115	0.62080	0.0:0.0:1.0:0.0	.	92	Q9H0X6	RN208_HUMAN	L	92	ENSP00000376572:P92L;ENSP00000375397:P92L	ENSP00000375397:P92L	P	-	2	0	RNF208	139235211	1.000000	0.71417	0.893000	0.35052	0.127000	0.20565	3.868000	0.56055	1.756000	0.51951	0.491000	0.48974	CCG		0.637	RNF208-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254714.1	NM_031297		A	140115390	G	A	140115390	3	1	664	1	0	0	0	0	1	0	0	0	13488	1116	39	1	514	1	RNF208	9	140115390	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	40572	140115390	1098041	508	41818										
PNPLA7	375775	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	140355132	140355132	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgctctggaagtctgcgtatGcatccctggggacgtccagc	13	12	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:140355132G>A	ENST00000277531.4	-	33	4010	c.3824C>T	c.(3823-3825)gCa>gTa	p.A1275V	PNPLA7_ENST00000406427.1_Missense_Mutation_p.A1300V|PNPLA7_ENST00000492278.1_5'UTR|NSMF_ENST00000437259.1_5'Flank|NSMF_ENST00000265663.7_5'Flank|NSMF_ENST00000392812.4_5'Flank|PNPLA7_ENST00000371457.1_Missense_Mutation_p.A881V|NSMF_ENST00000371472.2_5'Flank|NSMF_ENST00000371473.3_5'Flank|NSMF_ENST00000371475.3_5'Flank|NSMF_ENST00000371474.3_5'Flank	NM_152286.3	NP_689499.3	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	1275					lipid metabolic process (GO:0006629)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|lysosome (GO:0005764)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	lysophospholipase activity (GO:0004622)			breast(1)|central_nervous_system(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(9)|lung(13)|ovary(1)|prostate(1)|skin(2)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	40	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		GTCTGCGTATGCATCCCTGGG	0.632																																																0													108	87	94					9																	140355132		2202	4300	6502	SO:0001583	missense	375775			AK126267	CCDS7045.1, CCDS48070.1	9q34.3	2009-01-12	2006-06-12	2006-06-12	ENSG00000130653	ENSG00000130653		"Patatin-like phospholipase domain containing"	24768	protein-coding gene	gene with protein product		612122	"chromosome 9 open reading frame 111"	C9orf111		16799181, 12640454, 19029121	Standard	XM_005266082		Approved	FLJ43070, FLJ31318, FLJ44279, RP11-48C7.2, NTEL1, NTE-R1	uc010ncj.1	Q6ZV29	OTTHUMG00000020990	ENST00000277531.4:c.3824C>T	9.37:g.140355132G>A	ENSP00000277531:p.Ala1275Val	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDD3|Q5T364|Q658X0|Q658Y3|Q6ZTS1|Q86YU8|Q8TAY5|Q96N75|Q9H7N5	Missense_Mutation	SNP	ENST00000277531.4	37	CCDS7045.1	.	.	.	.	.	.	.	.	.	.	G	11.92	1.782611	0.31502	.	.	ENSG00000130653	ENST00000371457;ENST00000371446;ENST00000277531;ENST00000406427;ENST00000371451;ENST00000434090	T;T;T;T;T	0.71222	-0.55;3.36;0.25;0.25;0.23	4.22	3.22	0.36961	.	0.433103	0.23604	N	0.046415	T	0.53174	0.1780	N	0.22421	0.69	0.09310	N	1	B;B;B;B	0.24368	0.049;0.102;0.027;0.003	B;B;B;B	0.28139	0.016;0.086;0.011;0.007	T	0.39921	-0.9590	10	0.31617	T	0.26	-1.2611	7.6817	0.28518	0.0:0.0:0.6711:0.3289	.	683;1300;1275;522	E2QRF8;Q6ZV29-5;Q6ZV29;B3KXH5	.;.;PLPL7_HUMAN;.	V	881;683;1275;1300;1212;1266	ENSP00000360512:A881V;ENSP00000360501:A683V;ENSP00000277531:A1275V;ENSP00000384610:A1300V;ENSP00000400582:A1266V	ENSP00000277531:A1275V	A	-	2	0	PNPLA7	139474953	0.934000	0.31675	0.002000	0.10522	0.123000	0.20343	0.082000	0.14847	1.888000	0.54679	0.563000	0.77884	GCA		0.632	PNPLA7-007	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000254787.1	NM_152286		A	140355132	G	A	140355132	3	1	664	1	0	0	0	0	1	0	0	0	12177	1319	46	2	137	2	PNPLA7	9	140355132	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	239742	140355132	858299	509	41819										
CACNA1B	774	ucsc.edu;mdanderson.org	37	chr9	140865971	140865971	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttctactgggtggtgctgtgCgtggtggccctgaacacact	14	10	1	1	rs78326958	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:140865971C>T	ENST00000371372.1	+	11	1615	c.1470C>T	c.(1468-1470)tgC>tgT	p.C490C	CACNA1B_ENST00000277549.5_5'UTR|CACNA1B_ENST00000371355.4_Silent_p.C491C|CACNA1B_ENST00000371363.1_Silent_p.C490C|CACNA1B_ENST00000371357.1_Silent_p.C491C|CACNA1B_ENST00000277551.2_Silent_p.C490C	NM_000718.3|NM_001243812.1	NP_000709.1|NP_001230741.1	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type, alpha 1B subunit	490					calcium ion import (GO:0070509)|locomotory behavior (GO:0007626)|membrane depolarization (GO:0051899)|membrane depolarization during action potential (GO:0086010)|neurotransmitter secretion (GO:0007269)|regulation of blood pressure (GO:0008217)|regulation of calcium ion transport (GO:0051924)|regulation of heart contraction (GO:0008016)|response to pain (GO:0048265)|synaptic transmission (GO:0007268)|transport (GO:0006810)	dendrite (GO:0030425)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|high voltage-gated calcium channel activity (GO:0008331)|protein C-terminus binding (GO:0008022)|voltage-gated calcium channel activity (GO:0005245)			NS(3)|autonomic_ganglia(1)|breast(7)|central_nervous_system(1)|endometrium(10)|kidney(2)|large_intestine(17)|lung(31)|ovary(1)|prostate(1)|skin(2)|stomach(2)|urinary_tract(2)	80	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)|Levetiracetam(DB01202)|Spironolactone(DB00421)|Verapamil(DB00661)	TGGTGCTGTGCGTGGTGGCCC	0.577													C|||	56	0.0111821	0.0129	0.0101	5008	,	,		18426	0.006		0.0119	False		,,,				2504	0.0143															0								C		53,4309		0,53,2128	102	117	111		1470	-9.6	0.8	9	dbSNP_131	111	86,8452		0,86,4183	no	coding-synonymous	CACNA1B	NM_000718.3		0,139,6311	TT,TC,CC		1.0073,1.215,1.0775		490/2340	140865971	139,12761	2181	4269	6450	SO:0001819	synonymous_variant	774			AB209467	CCDS59522.1, CCDS59523.1	9q34	2013-01-10	2007-02-16		ENSG00000148408	ENSG00000148408		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels", "EF-hand domain containing"	1389	protein-coding gene	gene with protein product		601012		CACNL1A5		8825650, 16382099	Standard	NM_000718		Approved	Cav2.2, CACNN	uc004cog.3	Q00975	OTTHUMG00000021002	ENST00000371372.1:c.1470C>T	9.37:g.140865971C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B1AQK5	Silent	SNP	ENST00000371372.1	37	CCDS59522.1																																																																																				0.577	CACNA1B-001	KNOWN	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000055380.1	NM_000718		T	140865971	C	T	140865971	2	4	664	1	0	0	0	0	0	0	0	1	2541	776	27	1		1	CACNA1B	9	140865971	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	510839	140865971	347460	510	41820										
CACNA1B	774	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	140941360	140941360	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgccttccctcacaggctcCgccgcttctgccactacatc	7	19	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr9:140941360C>T	ENST00000371372.1	+	22	3563	c.3418C>T	c.(3418-3420)Cgc>Tgc	p.R1140C	CACNA1B_ENST00000277549.5_Missense_Mutation_p.R332C|CACNA1B_ENST00000371355.4_Missense_Mutation_p.R1141C|CACNA1B_ENST00000371363.1_Missense_Mutation_p.R1140C|CACNA1B_ENST00000371357.1_Missense_Mutation_p.R1141C|CACNA1B_ENST00000277551.2_Missense_Mutation_p.R1140C|CACNA1B_ENST00000545473.1_Missense_Mutation_p.R166C	NM_000718.3|NM_001243812.1	NP_000709.1|NP_001230741.1	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type, alpha 1B subunit	1140					calcium ion import (GO:0070509)|locomotory behavior (GO:0007626)|membrane depolarization (GO:0051899)|membrane depolarization during action potential (GO:0086010)|neurotransmitter secretion (GO:0007269)|regulation of blood pressure (GO:0008217)|regulation of calcium ion transport (GO:0051924)|regulation of heart contraction (GO:0008016)|response to pain (GO:0048265)|synaptic transmission (GO:0007268)|transport (GO:0006810)	dendrite (GO:0030425)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|high voltage-gated calcium channel activity (GO:0008331)|protein C-terminus binding (GO:0008022)|voltage-gated calcium channel activity (GO:0005245)			NS(3)|autonomic_ganglia(1)|breast(7)|central_nervous_system(1)|endometrium(10)|kidney(2)|large_intestine(17)|lung(31)|ovary(1)|prostate(1)|skin(2)|stomach(2)|urinary_tract(2)	80	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)|Levetiracetam(DB01202)|Spironolactone(DB00421)|Verapamil(DB00661)	TCACAGGCTCCGCCGCTTCTG	0.652																																																0													51	54	53					9																	140941360		2112	4216	6328	SO:0001583	missense	774			AB209467	CCDS59522.1, CCDS59523.1	9q34	2013-01-10	2007-02-16		ENSG00000148408	ENSG00000148408		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels", "EF-hand domain containing"	1389	protein-coding gene	gene with protein product		601012		CACNL1A5		8825650, 16382099	Standard	NM_000718		Approved	Cav2.2, CACNN	uc004cog.3	Q00975	OTTHUMG00000021002	ENST00000371372.1:c.3418C>T	9.37:g.140941360C>T	ENSP00000360423:p.Arg1140Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B1AQK5	Missense_Mutation	SNP	ENST00000371372.1	37	CCDS59522.1	.	.	.	.	.	.	.	.	.	.	C	18.12	3.553682	0.65425	.	.	ENSG00000148408	ENST00000371372;ENST00000277551;ENST00000277549;ENST00000371363;ENST00000371357;ENST00000371355;ENST00000545473	T;T;T;T;T;T;T	0.46451	0.87;0.87;0.87;0.87;0.87;0.87;0.87	5.18	5.18	0.71444	.	0.000000	0.85682	D	0.000000	T	0.73830	0.3637	M	0.93854	3.465	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.81914	0.995;0.995;0.995	T	0.81920	-0.0712	10	0.87932	D	0	.	17.44	0.87562	0.0:1.0:0.0:0.0	.	1140;1141;1140	B1AQK4;B1AQK7;B1AQK6	.;.;.	C	1140;1140;332;1140;1141;1141;166	ENSP00000360423:R1140C;ENSP00000277551:R1140C;ENSP00000277549:R332C;ENSP00000360414:R1140C;ENSP00000360408:R1141C;ENSP00000360406:R1141C;ENSP00000441232:R166C	ENSP00000277549:R332C	R	+	1	0	CACNA1B	140061181	0.986000	0.35501	1.000000	0.80357	0.624000	0.37722	2.783000	0.47766	2.416000	0.81992	0.561000	0.74099	CGC		0.652	CACNA1B-001	KNOWN	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000055380.1	NM_000718		T	140941360	C	T	140941360	3	4	664	1	0	0	0	0	1	0	0	0	2541	652	23	1	3504	1	CACNA1B	9	140941360	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	75389	140941360	272071	511	41821										
WDR37	22884	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr10	1175232	1175232	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gttcacctgtgggtttgaccGgcaagccattggttggaaca	13	9	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:1175232G>A	ENST00000358220.1	+	14	1577	c.1433G>A	c.(1432-1434)cGg>cAg	p.R478Q	WDR37_ENST00000263150.4_Missense_Mutation_p.R478Q			Q9Y2I8	WDR37_HUMAN	WD repeat domain 37	478										breast(2)|endometrium(2)|kidney(1)|lung(9)|prostate(2)|skin(1)	17		all_epithelial(10;0.0449)|Colorectal(49;0.142)		Epithelial(11;0.134)		GGGTTTGACCGGCAAGCCATT	0.502																																																0													122	96	105					10																	1175232		2203	4300	6503	SO:0001583	missense	22884			AB023199	CCDS7057.1	10p15.3	2013-01-09			ENSG00000047056	ENSG00000047056		"WD repeat domain containing"	31406	protein-coding gene	gene with protein product						10231032, 11230166	Standard	NM_014023		Approved	KIAA0982	uc001igf.1	Q9Y2I8	OTTHUMG00000017540	ENST00000358220.1:c.1433G>A	10.37:g.1175232G>A	ENSP00000350954:p.Arg478Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K976|D3DRQ7|Q5SW03|Q8WVG2|Q9NTJ6	Missense_Mutation	SNP	ENST00000358220.1	37	CCDS7057.1	.	.	.	.	.	.	.	.	.	.	G	36	5.831306	0.97003	.	.	ENSG00000047056	ENST00000358220;ENST00000263150	T;T	0.01323	5.01;5.01	5.72	5.72	0.89469	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40 repeat, conserved site (1);WD40-repeat-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.10680	0.0261	M	0.85542	2.76	0.80722	D	1	D;D	0.89917	1.0;0.999	D;P	0.76575	0.988;0.849	T	0.04481	-1.0948	10	0.33141	T	0.24	.	19.8706	0.96849	0.0:0.0:1.0:0.0	.	479;478	A8K976;Q9Y2I8	.;WDR37_HUMAN	Q	478	ENSP00000350954:R478Q;ENSP00000263150:R478Q	ENSP00000263150:R478Q	R	+	2	0	WDR37	1165232	1.000000	0.71417	1.000000	0.80357	0.973000	0.67179	9.731000	0.98807	2.692000	0.91855	0.561000	0.74099	CGG		0.502	WDR37-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046418.1	NM_014023		A	1175232	G	A	1175232	3	1	664	1	0	0	0	0	1	0	0	0	17303	1116	39	1	1483	1	WDR37	10	1175232	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10		1175232	134359515	512	41822										
GDI2	2665	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	5827121	5827121	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttaccttgcaaatccttgggGcagttctccaaggccataga	9	11	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:5827121G>A	ENST00000380191.4	-	6	993	c.703C>T	c.(703-705)Ccc>Tcc	p.P235S	GDI2_ENST00000380181.3_Missense_Mutation_p.P190S|GDI2_ENST00000380132.4_Missense_Mutation_p.P239S	NM_001115156.1|NM_001494.3	NP_001108628.1|NP_001485.2	P50395	GDIB_HUMAN	GDP dissociation inhibitor 2	235					protein transport (GO:0015031)|regulation of small GTPase mediated signal transduction (GO:0051056)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|vesicle (GO:0031982)	poly(A) RNA binding (GO:0044822)|Rab GDP-dissociation inhibitor activity (GO:0005093)|Rab GTPase activator activity (GO:0005097)			NS(1)|breast(1)|large_intestine(1)|lung(6)|urinary_tract(1)	10						AATCCTTGGGGCAGTTCTCCA	0.363																																																0													113	115	114					10																	5827121		2203	4300	6503	SO:0001583	missense	2665			D13988	CCDS7071.1, CCDS44352.1	10p15	2010-03-16			ENSG00000057608	ENSG00000057608			4227	protein-coding gene	gene with protein product	"rab GDP-dissociation"	600767				9434952	Standard	NM_001494		Approved	RABGDIB	uc001iil.4	P50395	OTTHUMG00000017607	ENST00000380191.4:c.703C>T	10.37:g.5827121G>A	ENSP00000369538:p.Pro235Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O43928|Q5SX88|Q9UQM6	Missense_Mutation	SNP	ENST00000380191.4	37	CCDS7071.1	.	.	.	.	.	.	.	.	.	.	G	25.7	4.665129	0.88251	.	.	ENSG00000057608	ENST00000380191;ENST00000380153;ENST00000447751;ENST00000380132;ENST00000380181;ENST00000456041	D;D;D;D;D	0.93547	-3.24;-3.24;-3.24;-3.24;-3.24	5.2	5.2	0.72013	.	0.000000	0.85682	D	0.000000	D	0.96583	0.8885	M	0.77103	2.36	0.80722	D	1	D;D;D	0.76494	0.999;0.996;0.999	D;D;D	0.74023	0.95;0.982;0.95	D	0.96498	0.9369	10	0.54805	T	0.06	-15.047	18.6982	0.91610	0.0:0.0:1.0:0.0	.	239;190;235	E7EU23;Q5SX88;P50395	.;.;GDIB_HUMAN	S	235;68;63;239;190;225	ENSP00000369538:P235S;ENSP00000387565:P63S;ENSP00000369475:P239S;ENSP00000369528:P190S;ENSP00000401733:P225S	ENSP00000369475:P239S	P	-	1	0	GDI2	5867127	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	9.721000	0.98766	2.594000	0.87642	0.655000	0.94253	CCC		0.363	GDI2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046580.1	NM_001494		A	5827121	G	A	5827121	3	1	664	1	0	0	0	0	1	0	0	0	6328	1203	42	2	658	2	GDI2	10	5827121	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4651889	5827121	129707626	513	41823										
IL2RA	3559	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr10	6063568	6063568	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agagccctgtatccctggacGcactgataataaaccatctg	8	12	1	2	rs377104035		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:6063568G>A	ENST00000379959.3	-	4	629	c.456C>T	c.(454-456)tgC>tgT	p.C152C	IL2RA_ENST00000256876.6_Silent_p.C152C|IL2RA_ENST00000379954.1_Intron	NM_000417.2	NP_000408.1	P01589	IL2RA_HUMAN	interleukin 2 receptor, alpha	152	Sushi 2. {ECO:0000255|PROSITE- ProRule:PRU00302}.				activation-induced cell death of T cells (GO:0006924)|apoptotic process (GO:0006915)|cell proliferation (GO:0008283)|cell surface receptor signaling pathway (GO:0007166)|immune response (GO:0006955)|inflammatory response to antigenic stimulus (GO:0002437)|interleukin-2-mediated signaling pathway (GO:0038110)|negative regulation of defense response to virus (GO:0050687)|negative regulation of immune response (GO:0050777)|negative regulation of inflammatory response (GO:0050728)|negative regulation of T cell proliferation (GO:0042130)|Notch signaling pathway (GO:0007219)|positive regulation of activated T cell proliferation (GO:0042104)|positive regulation of T cell differentiation (GO:0045582)|regulation of T cell homeostatic proliferation (GO:0046013)	external side of plasma membrane (GO:0009897)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	drug binding (GO:0008144)|interleukin-2 receptor activity (GO:0004911)			endometrium(1)|kidney(3)|large_intestine(3)|lung(7)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	17					Aldesleukin(DB00041)|Basiliximab(DB00074)|Daclizumab(DB00111)|Denileukin diftitox(DB00004)	ATCCCTGGACGCACTGATAAT	0.527																																																0								G		0,4406		0,0,2203	178	157	164		456	-0.8	0.1	10		164	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	IL2RA	NM_000417.2		0,1,6502	AA,AG,GG		0.0116,0.0,0.0077		152/273	6063568	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	3559			X01057	CCDS7076.1	10p15-p14	2014-09-17			ENSG00000134460	ENSG00000134460		"Interleukins and interleukin receptors", "CD molecules"	6008	protein-coding gene	gene with protein product		147730	"insulin-dependent diabetes mellitus 10"	IL2R, IDDM10		3925551, 17676041	Standard	NM_000417		Approved	CD25	uc001iiz.2	P01589	OTTHUMG00000017616	ENST00000379959.3:c.456C>T	10.37:g.6063568G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5W007	Silent	SNP	ENST00000379959.3	37	CCDS7076.1																																																																																				0.527	IL2RA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046627.1	NM_000417		A	6063568	G	A	6063568	2	1	664	1	0	0	0	0	0	0	0	1	7693	1079	38	1		1	IL2RA	10	6063568	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	236447	6063568	129471179	514	41824										
RSU1	6251	broad.mit.edu	37	chr10	16858984	16858984	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaactcacagaggccgttgaCatccagcatgttggagatgc	12	10	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:16858984C>T	ENST00000377921.3	-	1	398	c.97G>A	c.(97-99)Gtc>Atc	p.V33I	RSU1_ENST00000602389.1_Intron|RSU1_ENST00000345264.5_Missense_Mutation_p.V33I|RSU1_ENST00000464074.2_Intron			Q15404	RSU1_HUMAN	Ras suppressor protein 1	33					cell junction assembly (GO:0034329)|positive regulation of neural precursor cell proliferation (GO:2000179)|Ras protein signal transduction (GO:0007265)|signal transduction (GO:0007165)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)				central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(7)|stomach(1)|upper_aerodigestive_tract(1)	14				GBM - Glioblastoma multiforme(1;7.54e-08)		AGGCCGTTGACATCCAGCATG	0.562																																																0													118	100	106					10																	16858984		2203	4300	6503	SO:0001583	missense	6251			AK055596	CCDS7112.1, CCDS31157.1	10p13	2012-09-20			ENSG00000148484	ENSG00000148484			10464	protein-coding gene	gene with protein product		179555				8288261	Standard	NM_152724		Approved	RSP-1, FLJ31034	uc001iol.3	Q15404	OTTHUMG00000017740	ENST00000377921.3:c.97G>A	10.37:g.16858984C>T	ENSP00000367154:p.Val33Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA46|D3DRU3|Q6FI17	Missense_Mutation	SNP	ENST00000377921.3	37	CCDS7112.1	.	.	.	.	.	.	.	.	.	.	C	3.759	-0.050046	0.07407	.	.	ENSG00000148484	ENST00000345264;ENST00000377921	T;T	0.37058	1.22;1.22	5.21	3.38	0.38709	.	.	.	.	.	T	0.16642	0.0400	N	0.04508	-0.205	0.36840	D	0.887341	B;B	0.06786	0.001;0.0	B;B	0.10450	0.005;0.001	T	0.10154	-1.0642	9	0.22109	T	0.4	.	9.6892	0.40118	0.0:0.7749:0.0:0.2251	.	33;33	B0YJ73;Q15404	.;RSU1_HUMAN	I	33	ENSP00000339521:V33I;ENSP00000367154:V33I	ENSP00000339521:V33I	V	-	1	0	RSU1	16898990	0.968000	0.33430	0.947000	0.38551	0.667000	0.39255	0.782000	0.26788	0.800000	0.34041	0.555000	0.69702	GTC		0.562	RSU1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047006.1	NM_012425, NM_152724		T	16858984	C	T	16858984	3	4	664	1	0	0	0	0	1	0	0	0	13729	478	17	2	768	2	RSU1	10	16858984	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	10795416	16858984	118675763	515	41825										
NEBL	10529	broad.mit.edu	37	chr10	21097515	21097515	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcggagatttctgacctgtcGtctccgagacctgtaccgaa	10	12	2	3	rs140245727	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:21097515G>A	ENST00000377122.4	-	26	3081	c.2685C>T	c.(2683-2685)gaC>gaT	p.D895D	NEBL_ENST00000417816.2_Intron|NEBL_ENST00000377159.4_Intron	NM_006393.2	NP_006384.1	O76041	NEBL_HUMAN	nebulette	895	Linker.				cardiac muscle thin filament assembly (GO:0071691)	extracellular vesicular exosome (GO:0070062)|I band (GO:0031674)|stress fiber (GO:0001725)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|cytoskeletal protein binding (GO:0008092)|filamin binding (GO:0031005)|structural constituent of muscle (GO:0008307)|tropomyosin binding (GO:0005523)			NS(2)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(14)|lung(22)|ovary(2)|pancreas(1)|prostate(2)|skin(8)|stomach(5)|upper_aerodigestive_tract(1)|urinary_tract(2)	70						CTGACCTGTCGTCTCCGAGAC	0.458													G|||	5	0.000998403	0.0038	0.0	5008	,	,		16098	0.0		0.0	False		,,,				2504	0.0															0								G	,,	16,4390	23.3+/-48.9	0,16,2187	135	126	129		,2685,	-2.4	1	10	dbSNP_134	129	0,8600		0,0,4300	no	intron,coding-synonymous,intron	NEBL	NM_001173484.1,NM_006393.2,NM_213569.2	,,	0,16,6487	AA,AG,GG		0.0,0.3631,0.123	,,	,895/1015,	21097515	16,12990	2203	4300	6503	SO:0001819	synonymous_variant	10529			Y16241	CCDS7133.1, CCDS7134.1	10p12	2014-09-17			ENSG00000078114	ENSG00000078114			16932	protein-coding gene	gene with protein product		605491				9733644, 10470015	Standard	NM_213569		Approved		uc001iqi.3	O76041	OTTHUMG00000017788	ENST00000377122.4:c.2685C>T	10.37:g.21097515G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ45|Q2TBD0|Q70I54|Q9UIC4	Silent	SNP	ENST00000377122.4	37	CCDS7134.1																																																																																				0.458	NEBL-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000047113.1	NM_006393		A	21097515	G	A	21097515	2	1	664	1	0	0	0	0	0	0	0	1	10310	1136	40	1		1	NEBL	10	21097515	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4238531	21097515	114437232	516	41826										
RASSF4	83937	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr10	45485141	45485141	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaagatggccccagtgagttCgcactctacatcgttcacga	10	12	2	2	rs192302639		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:45485141C>T	ENST00000340258.5	+	8	770	c.657C>T	c.(655-657)ttC>ttT	p.F219F	RASSF4_ENST00000374417.2_3'UTR|RASSF4_ENST00000472561.1_3'UTR|RASSF4_ENST00000334940.6_Silent_p.F228F	NM_032023.3	NP_114412.2	Q8WYP3	RIN2_HUMAN	Ras association (RalGDS/AF-6) domain family member 4	834					endocytosis (GO:0006897)|positive regulation of Rab GTPase activity (GO:0032851)|regulation of catalytic activity (GO:0050790)|small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)	GTPase activator activity (GO:0005096)|Rab guanyl-nucleotide exchange factor activity (GO:0017112)|small GTPase regulator activity (GO:0005083)			NS(1)|endometrium(2)|large_intestine(6)|lung(4)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	16						CCAGTGAGTTCGCACTCTACA	0.557													C|||	1	0.000199681	0.0	0.0014	5008	,	,		19556	0.0		0.0	False		,,,				2504	0.0															0													142	111	122					10																	45485141		2203	4300	6503	SO:0001819	synonymous_variant	83937			BC032593	CCDS7208.1	10q11.1	2008-02-22	2008-02-22		ENSG00000107551	ENSG00000107551			20793	protein-coding gene	gene with protein product		610559					Standard	NM_032023		Approved	AD037, MGC44914	uc001jbo.3	Q9H2L5	OTTHUMG00000018060	ENST00000340258.5:c.657C>T	10.37:g.45485141C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q00425|Q5TFT8|Q9BQL3|Q9H071	Silent	SNP	ENST00000340258.5	37	CCDS7208.1																																																																																				0.557	RASSF4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047745.2	NM_032023		T	45485141	C	T	45485141	2	4	664	1	0	0	0	0	0	0	0	1	13101	883	31	1		1	RASSF4	10	45485141	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	24387626	45485141	90049606	517	41827										
C10orf71	118461	hgsc.bcm.edu;mdanderson.org	37	chr10	50534403	50534403	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acacccctgcccgcgtacccCgccacccagaaggtcctcca	7	22	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:50534403C>T	ENST00000374144.3	+	3	4101	c.3813C>T	c.(3811-3813)ccC>ccT	p.P1271P	C10orf71_ENST00000323868.4_Intron			Q711Q0	CJ071_HUMAN	chromosome 10 open reading frame 71	1271										endometrium(1)	1						CCGCGTACCCCGCCACCCAGA	0.667																																																0													3	6	5					10																	50534403		625	1488	2113	SO:0001819	synonymous_variant	118461			AL833265	CCDS44387.1	10q11.23	2012-05-31			ENSG00000177354	ENSG00000177354			26973	protein-coding gene	gene with protein product							Standard	NM_001135196		Approved	FLJ45913	uc021pqa.2	Q711Q0	OTTHUMG00000018190	ENST00000374144.3:c.3813C>T	10.37:g.50534403C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0AVL8	Silent	SNP	ENST00000374144.3	37	CCDS44387.1																																																																																				0.667	C10orf71-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000047984.2	NM_199459		T	50534403	C	T	50534403	2	4	664	1	0	0	0	0	0	0	0	1	1616	639	23	1		1	C10orf71	10	50534403	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5049262	50534403	85000344	518	41828										
DDX50	79009	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr10	70695777	70695777	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttcagggaattacttttaaaCgtgtaggtgttccttctaca	8	7	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:70695777C>T	ENST00000373585.3	+	11	1644	c.1537C>T	c.(1537-1539)Cgt>Tgt	p.R513C	DDX50_ENST00000466265.1_3'UTR	NM_024045.1	NP_076950.1	Q9BQ39	DDX50_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 50	513	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.					membrane (GO:0016020)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|poly(A) RNA binding (GO:0044822)			breast(2)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(5)|liver(2)|lung(6)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)	29						TACTTTTAAACGTGTAGGTGT	0.279																																																0													63	61	62					10																	70695777		2202	4298	6500	SO:0001583	missense	79009			AF334103	CCDS7283.1	10q22.2	2010-09-30			ENSG00000107625	ENSG00000107625		"DEAD-boxes"	17906	protein-coding gene	gene with protein product		610373				11891046	Standard	NM_024045		Approved	GU2, MGC3199, GUB, RH-II/GuB	uc001jou.3	Q9BQ39	OTTHUMG00000018362	ENST00000373585.3:c.1537C>T	10.37:g.70695777C>T	ENSP00000362687:p.Arg513Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VX37|Q8WV76|Q9BWI8	Missense_Mutation	SNP	ENST00000373585.3	37	CCDS7283.1	.	.	.	.	.	.	.	.	.	.	C	18.03	3.531750	0.64972	.	.	ENSG00000107625	ENST00000373585;ENST00000541832	T	0.21543	2.0	5.46	5.46	0.80206	Helicase, C-terminal (1);	0.046278	0.85682	D	0.000000	T	0.29223	0.0727	M	0.77406	2.37	0.80722	D	1	B	0.33238	0.403	B	0.26202	0.067	T	0.13361	-1.0512	10	0.66056	D	0.02	-8.0118	18.6472	0.91415	0.0:1.0:0.0:0.0	.	513	Q9BQ39	DDX50_HUMAN	C	513	ENSP00000362687:R513C	ENSP00000362687:R513C	R	+	1	0	DDX50	70365783	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.308000	0.51896	2.725000	0.93324	0.591000	0.81541	CGT		0.279	DDX50-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048363.1	NM_024045		T	70695777	C	T	70695777	3	4	664	1	0	0	0	0	1	0	0	0	4370	536	19	1	1579	1	DDX50	10	70695777	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	20161374	70695777	64838970	519	41829										
KIAA1274	27143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	72324139	72324139	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcgaaggcagcgaaagaggCgcaagaaatgcggaggctgc	18	8	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:72324139C>T	ENST00000263563.6	+	19	2550	c.2282C>T	c.(2281-2283)gCg>gTg	p.A761V		NM_014431.2	NP_055246.2	Q9ULE6	PALD_HUMAN	phosphatase domain containing, paladin 1	761						cytosol (GO:0005829)											GCGAAAGAGGCGCAAGAAATG	0.617																																																0													77	75	76					10																	72324139		2203	4300	6503	SO:0001583	missense	27143			AB033100	CCDS31215.1	10q22.2	2012-07-17	2012-07-17	2012-07-17	ENSG00000107719	ENSG00000107719			23530	protein-coding gene	gene with protein product		614656	"paladin", "KIAA1274"	PALD, KIAA1274			Standard	NM_014431		Approved		uc001jrd.4	Q9ULE6	OTTHUMG00000018411	ENST00000263563.6:c.2282C>T	10.37:g.72324139C>T	ENSP00000263563:p.Ala761Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMS1|B9EGC6|Q5JTK7|Q5JTK8	Missense_Mutation	SNP	ENST00000263563.6	37	CCDS31215.1	.	.	.	.	.	.	.	.	.	.	c	10.63	1.404595	0.25378	.	.	ENSG00000107719	ENST00000263563;ENST00000373214	T	0.29917	1.55	4.9	2.42	0.29668	.	0.426837	0.24803	N	0.035474	T	0.24547	0.0595	L	0.47716	1.5	0.26423	N	0.976068	B	0.18610	0.029	B	0.12156	0.007	T	0.16158	-1.0412	10	0.40728	T	0.16	-12.6907	8.4465	0.32845	0.3575:0.52:0.0:0.1225	.	761	Q9ULE6	PALD_HUMAN	V	761;737	ENSP00000263563:A761V	ENSP00000263563:A761V	A	+	2	0	KIAA1274	71994145	1.000000	0.71417	0.147000	0.22382	0.613000	0.37349	1.533000	0.36040	0.168000	0.19655	-0.410000	0.06199	GCG		0.617	PALD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048515.2	NM_014431		T	72324139	C	T	72324139	3	4	664	1	0	0	0	0	1	0	0	0	8227	768	27	1	2352	1	KIAA1274	10	72324139	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1628362	72324139	63210608	520	41830										
CHST3	9469	hgsc.bcm.edu;mdanderson.org	37	chr10	73768163	73768163	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggctacaaactggcgcgggaCgccgccgccctcaccaaccg	12	18	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:73768163C>T	ENST00000373115.4	+	3	1811	c.1374C>T	c.(1372-1374)gaC>gaT	p.D458D		NM_004273.4	NP_004264.2	Q7LGC8	CHST3_HUMAN	carbohydrate (chondroitin 6) sulfotransferase 3	458					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|glycosaminoglycan metabolic process (GO:0030203)|small molecule metabolic process (GO:0044281)|sulfur compound metabolic process (GO:0006790)|T cell homeostasis (GO:0043029)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	chondroitin 6-sulfotransferase activity (GO:0008459)|proteoglycan sulfotransferase activity (GO:0050698)|sulfotransferase activity (GO:0008146)			endometrium(1)|lung(5)	6						TGGCGCGGGACGCCGCCGCCC	0.692																																																0													13	12	12					10																	73768163		2164	4246	6410	SO:0001819	synonymous_variant	9469			AB017915	CCDS7312.1	10q22.1	2007-03-14			ENSG00000122863	ENSG00000122863		"Sulfotransferases, membrane-bound"	1971	protein-coding gene	gene with protein product		603799				9883891, 9714738	Standard	NM_004273		Approved	C6ST, C6ST1	uc001jsn.3	Q7LGC8	OTTHUMG00000018431	ENST00000373115.4:c.1374C>T	10.37:g.73768163C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O75099|Q52M30	Silent	SNP	ENST00000373115.4	37	CCDS7312.1																																																																																				0.692	CHST3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048563.1	NM_004273		T	73768163	C	T	73768163	2	4	664	1	0	0	0	0	0	0	0	1	3407	535	19	1		1	CHST3	10	73768163	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1444024	73768163	61766584	521	41831										
TSPAN14	81619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	82269147	82269147	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	actgggtgagggaccggttcCgggagttcttcgagagcaac	16	9	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:82269147C>T	ENST00000429989.3	+	5	593	c.370C>T	c.(370-372)Cgg>Tgg	p.R124W	TSPAN14_ENST00000372156.1_Missense_Mutation_p.R124W|TSPAN14_ENST00000372164.3_Missense_Mutation_p.R107W|TSPAN14_ENST00000372158.1_Missense_Mutation_p.R124W|TSPAN14_ENST00000341863.6_Intron|TSPAN14_ENST00000481124.1_Intron	NM_030927.2	NP_112189.2	Q8NG11	TSN14_HUMAN	tetraspanin 14	124					establishment of protein localization to plasma membrane (GO:0090002)|positive regulation of Notch signaling pathway (GO:0045747)|protein maturation (GO:0051604)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|tetraspanin-enriched microdomain (GO:0097197)	enzyme binding (GO:0019899)			central_nervous_system(1)|endometrium(1)|large_intestine(2)|lung(1)|ovary(1)|skin(1)	7			Colorectal(32;0.229)			GGACCGGTTCCGGGAGTTCTT	0.582																																																0													111	95	100					10																	82269147		2203	4300	6503	SO:0001583	missense	81619			AF311903	CCDS7369.1, CCDS44448.1	10q23.1	2013-02-14	2005-03-21	2005-03-21	ENSG00000108219	ENSG00000108219		"Tetraspanins"	23303	protein-coding gene	gene with protein product			"transmembrane 4 superfamily member 14"	TM4SF14		11230166	Standard	NM_030927		Approved	DC-TM4F2, MGC11352	uc001kcj.4	Q8NG11	OTTHUMG00000018615	ENST00000429989.3:c.370C>T	10.37:g.82269147C>T	ENSP00000396270:p.Arg124Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHE1|B4DHY6|D3DWD7|D3DWD8|Q567U7|Q9BU34|Q9H0U1	Missense_Mutation	SNP	ENST00000429989.3	37	CCDS7369.1	.	.	.	.	.	.	.	.	.	.	C	16.92	3.256647	0.59321	.	.	ENSG00000108219	ENST00000429989;ENST00000372157;ENST00000372164;ENST00000372158;ENST00000372156	D;D;D;D;D	0.87809	-2.3;-2.3;-2.3;-2.3;-2.3	5.21	4.23	0.50019	Tetraspanin, EC2 domain (1);	0.293169	0.37437	N	0.002084	T	0.82033	0.4949	L	0.47716	1.5	0.44048	D	0.996787	B;B	0.09022	0.001;0.002	B;B	0.15870	0.014;0.005	T	0.79845	-0.1631	10	0.72032	D	0.01	-34.6436	9.7385	0.40404	0.3472:0.6528:0.0:0.0	.	124;107	Q8NG11;Q8NG11-2	TSN14_HUMAN;.	W	124;94;107;124;124	ENSP00000396270:R124W;ENSP00000361230:R94W;ENSP00000361237:R107W;ENSP00000361231:R124W;ENSP00000361229:R124W	ENSP00000361229:R124W	R	+	1	2	TSPAN14	82259127	1.000000	0.71417	1.000000	0.80357	0.962000	0.63368	4.438000	0.59961	2.435000	0.82474	0.655000	0.94253	CGG		0.582	TSPAN14-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049081.2	NM_030927		T	82269147	C	T	82269147	3	4	664	1	0	0	0	0	1	0	0	0	16650	643	23	1	384	1	TSPAN14	10	82269147	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	8500984	82269147	53265600	522	41832										
PANK1	53354	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr10	91371798	91371798	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccgatgtccatgccaaaccaTgggaatgctaaaggacagaa	10	10	0	1	rs376656328		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:91371798T>C	ENST00000307534.4	-	2	866	c.711A>G	c.(709-711)ccA>ccG	p.P237P	PANK1_ENST00000322191.6_Silent_p.P12P|PANK1_ENST00000371774.2_Silent_p.P39P|PANK1_ENST00000342512.3_Silent_p.P12P	NM_148977.2	NP_683878.1	Q8TE04	PANK1_HUMAN	pantothenate kinase 1	237					coenzyme A biosynthetic process (GO:0015937)|coenzyme biosynthetic process (GO:0009108)|pantothenate metabolic process (GO:0015939)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cell periphery (GO:0071944)|clathrin coat (GO:0030118)|cytosol (GO:0005829)|nucleus (GO:0005634)|recycling endosome (GO:0055037)	ATP binding (GO:0005524)|pantothenate kinase activity (GO:0004594)			cervix(1)|kidney(1)|large_intestine(3)|lung(4)|prostate(2)	11						TGCCAAACCATGGGAATGCTA	0.433																																																0								T	,,	0,4406		0,0,2203	64	60	61		36,711,36	-12.2	0.1	10		61	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous,coding-synonymous,coding-synonymous	PANK1	NM_138316.3,NM_148977.2,NM_148978.2	,,	0,1,6502	CC,CT,TT		0.0116,0.0,0.0077	,,	12/315,237/599,12/374	91371798	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	53354			AF355198	CCDS7405.1, CCDS7406.1, CCDS31244.1	10q23.31	2008-05-14	2002-11-13	2002-11-15	ENSG00000152782	ENSG00000152782			8598	protein-coding gene	gene with protein product		606160	"pantothenate kinase"	PANK		11809413	Standard	NM_148977		Approved	MGC24596, PANK1a, PANK1b	uc001kgp.2	Q8TE04	OTTHUMG00000018718	ENST00000307534.4:c.711A>G	10.37:g.91371798T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NIP0|Q7RTX6|Q7Z495|Q8TBQ8	Silent	SNP	ENST00000307534.4	37	CCDS31244.1																																																																																				0.433	PANK1-201	KNOWN	basic|CCDS	protein_coding	protein_coding				C	91371798	T	C	91371798	2	2	664	1	0	0	0	0	0	0	0	1	11423	1451	51	3		3	PANK1	10	91371798	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	9102651	91371798	44162949	523	41833										
CPEB3	22849	mdanderson.org	37	chr10	93999850	93999850	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcggcggcggctgctgaggAggctgatggaaactcaagcc	18	10	1	2	rs3824734	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:93999850A>G	ENST00000265997.4	-	2	430	c.258T>C	c.(256-258)ccT>ccC	p.P86P	CPEB3_ENST00000412050.4_Silent_p.P86P	NM_014912.4	NP_055727.3	Q8NE35	CPEB3_HUMAN	cytoplasmic polyadenylation element binding protein 3	86	Pro-rich.				3'-UTR-mediated mRNA destabilization (GO:0061158)|cellular response to amino acid stimulus (GO:0071230)|long-term memory (GO:0007616)|negative regulation of cytoplasmic translational elongation (GO:1900248)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of translation (GO:0017148)|positive regulation of dendritic spine development (GO:0060999)|positive regulation of mRNA polyadenylation (GO:1900365)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|positive regulation of translation (GO:0045727)|regulation of dendritic spine development (GO:0060998)|regulation of synaptic plasticity (GO:0048167)|translation (GO:0006412)	apical dendrite (GO:0097440)|CCR4-NOT complex (GO:0030014)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|neuron projection (GO:0043005)|nucleus (GO:0005634)|synapse (GO:0045202)	mRNA 3'-UTR AU-rich region binding (GO:0035925)|mRNA 3'-UTR binding (GO:0003730)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|RNA stem-loop binding (GO:0035613)|translation factor activity, nucleic acid binding (GO:0008135)|translation repressor activity, nucleic acid binding (GO:0000900)			breast(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(5)|lung(5)|skin(2)|upper_aerodigestive_tract(2)	18		Colorectal(252;0.0869)				GCTGCTGAGGAGGCTGATGGA	0.721													G|||	3298	0.658546	0.9501	0.745	5008	,	,		9820	0.499		0.6173	False		,,,				2504	0.41															0								G	,	3896,456		1755,386,35	13	15	14		258,258	-0.1	1	10	dbSNP_107	14	5207,3285		1622,1963,661	no	coding-synonymous,coding-synonymous	CPEB3	NM_001178137.1,NM_014912.4	,	3377,2349,696	GG,GA,AA		38.6835,10.4779,29.1264	,	86/685,86/699	93999850	9103,3741	2176	4246	6422	SO:0001819	synonymous_variant	22849			AB023157	CCDS31246.1, CCDS53553.1	10q23.33	2013-02-12			ENSG00000107864	ENSG00000107864		"RNA binding motif (RRM) containing"	21746	protein-coding gene	gene with protein product		610606				10231032, 12672660	Standard	NM_014912		Approved	KIAA0940	uc001khw.2	Q8NE35	OTTHUMG00000018756	ENST00000265997.4:c.258T>C	10.37:g.93999850A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T389|Q9NQJ7|Q9Y2E9	Silent	SNP	ENST00000265997.4	37	CCDS31246.1																																																																																				0.721	CPEB3-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049387.2	NM_014912		G	93999850	A	G	93999850	2	3	664	1	0	0	0	0	0	0	0	1	3804	291	11	3		3	CPEB3	10	93999850	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	2628052	93999850	41534897	524	41834										
MYOF	26509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr10	95168570	95168570	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaaaaaagggttgtttcctcTcttgattcttgttcggtgtg	10	6	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:95168570T>G	ENST00000359263.4	-	7	702	c.703A>C	c.(703-705)Aga>Cga	p.R235R	MYOF_ENST00000371489.1_Silent_p.R235R|MYOF_ENST00000358334.5_Silent_p.R235R|MYOF_ENST00000371502.4_Silent_p.R235R|MYOF_ENST00000371501.4_Silent_p.R235R	NM_013451.3	NP_038479.1	Q9NZM1	MYOF_HUMAN	myoferlin	235	C2 2. {ECO:0000255|PROSITE- ProRule:PRU00041}.|Necessary for interaction with EHD2.				blood circulation (GO:0008015)|cellular response to heat (GO:0034605)|muscle contraction (GO:0006936)|plasma membrane repair (GO:0001778)|regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030947)	caveola (GO:0005901)|cytoplasmic vesicle (GO:0031410)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|nuclear envelope (GO:0005635)|plasma membrane (GO:0005886)	phospholipid binding (GO:0005543)			NS(2)|autonomic_ganglia(1)|breast(3)|endometrium(7)|kidney(7)|large_intestine(15)|lung(14)|ovary(4)|prostate(4)|skin(6)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	67						TTGTTTCCTCTCTTGATTCTT	0.517																																																0													129	121	124					10																	95168570		1940	4141	6081	SO:0001819	synonymous_variant	26509			AB033033	CCDS41550.1, CCDS41551.1	10q24	2014-06-27	2008-11-26	2008-11-26	ENSG00000138119	ENSG00000138119			3656	protein-coding gene	gene with protein product	"fer-1-like family member 3"	604603	"fer-1 (C.elegans)-like 3 (myoferlin)", "fer-1-like 3, myoferlin (C. elegans)"	FER1L3		10607832, 10995573, 17702744	Standard	NM_013451		Approved	KIAA1207	uc001kin.3	Q9NZM1	OTTHUMG00000018772	ENST00000359263.4:c.703A>C	10.37:g.95168570T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KQN5|Q5VWW2|Q5VWW3|Q5VWW4|Q5VWW5|Q7Z642|Q8IWH0|Q9HBU3|Q9NZM0|Q9ULL3|Q9Y4U4	Silent	SNP	ENST00000359263.4	37	CCDS41551.1																																																																																				0.517	MYOF-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000049423.2	NM_013451		G	95168570	T	G	95168570	2	3	664	1	0	0	0	0	0	0	0	1	10096	1559	54	5		5	MYOF	10	95168570	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1168720	95168570	40366177	525	41835										
PLCE1	51196	broad.mit.edu	37	chr10	96022395	96022395	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gattgagagcacatctctggGcatttttggggtgggcatac	14	7	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:96022395G>A	ENST00000371380.3	+	13	4194	c.3959G>A	c.(3958-3960)gGc>gAc	p.G1320D	PLCE1_ENST00000371375.1_Missense_Mutation_p.G1012D|PLCE1_ENST00000371385.3_Missense_Mutation_p.G1012D|PLCE1_ENST00000260766.3_Missense_Mutation_p.G1320D			Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1	1320					activation of MAPK activity (GO:0000187)|calcium-mediated signaling (GO:0019722)|cell proliferation (GO:0008283)|cytoskeleton organization (GO:0007010)|diacylglycerol biosynthetic process (GO:0006651)|epidermal growth factor receptor signaling pathway (GO:0007173)|glomerulus development (GO:0032835)|heart development (GO:0007507)|inositol phosphate metabolic process (GO:0043647)|inositol phosphate-mediated signaling (GO:0048016)|lipid catabolic process (GO:0016042)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|phospholipid metabolic process (GO:0006644)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of GTPase activity (GO:0043547)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|Ras protein signal transduction (GO:0007265)|regulation of cell growth (GO:0001558)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|regulation of protein kinase activity (GO:0045859)|regulation of Ras protein signal transduction (GO:0046578)|regulation of smooth muscle contraction (GO:0006940)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|enzyme binding (GO:0019899)|guanyl-nucleotide exchange factor activity (GO:0005085)|phosphatidylinositol phospholipase C activity (GO:0004435)|phospholipase C activity (GO:0004629)|Ras GTPase binding (GO:0017016)|receptor signaling protein activity (GO:0005057)			liver(1)|ovary(2)|skin(4)|upper_aerodigestive_tract(1)	8		Colorectal(252;0.0458)				ACATCTCTGGGCATTTTTGGG	0.473																																																0													213	206	208					10																	96022395		1988	4176	6164	SO:0001583	missense	51196				CCDS41552.1, CCDS53555.1	10q23	2010-02-22			ENSG00000138193	ENSG00000138193	3.1.4.11		17175	protein-coding gene	gene with protein product	"nephrosis type 3"	608414				11022047, 11022048	Standard	NM_016341		Approved	KIAA1516, PLCE, NPHS3	uc001kjk.3	Q9P212	OTTHUMG00000018789	ENST00000371380.3:c.3959G>A	10.37:g.96022395G>A	ENSP00000360431:p.Gly1320Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGW0|A6NLA1|A7MBN7|A8K1D7|B9EIJ6|Q1X6H8|Q5VWL4|Q5VWL5|Q9H9X8|Q9HBX6|Q9HC53|Q9UHV3	Missense_Mutation	SNP	ENST00000371380.3	37	CCDS41552.1	.	.	.	.	.	.	.	.	.	.	G	28.5	4.926955	0.92319	.	.	ENSG00000138193	ENST00000260766;ENST00000371380;ENST00000371385;ENST00000371375	T;T;T;T	0.24908	1.83;1.83;1.85;1.85	5.76	5.76	0.90799	.	0.000000	0.85682	D	0.000000	T	0.46870	0.1415	L	0.44542	1.39	0.58432	D	0.999995	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	0.999;1.0;0.996	T	0.28138	-1.0053	10	0.56958	D	0.05	.	19.9596	0.97236	0.0:0.0:1.0:0.0	.	1304;1012;1320	B7ZM61;Q9P212-2;Q9P212	.;.;PLCE1_HUMAN	D	1320;1320;1012;1012	ENSP00000260766:G1320D;ENSP00000360431:G1320D;ENSP00000360438:G1012D;ENSP00000360426:G1012D	ENSP00000260766:G1320D	G	+	2	0	PLCE1	96012385	1.000000	0.71417	0.976000	0.42696	0.799000	0.45148	9.827000	0.99397	2.726000	0.93360	0.655000	0.94253	GGC		0.473	PLCE1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049469.3	NM_016341		A	96022395	G	A	96022395	3	1	664	1	0	0	0	0	1	0	0	0	12041	1203	42	2	4295	2	PLCE1	10	96022395	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	853825	96022395	39512352	526	41836										
NOC3L	64318	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr10	96121511	96121511	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttagtttcctctgttcttttCggtacttcttgagagtgctt	8	8	3	1	rs77771649	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:96121511C>T	ENST00000371361.3	-	2	228	c.128G>A	c.(127-129)cGa>cAa	p.R43Q	NOC3L_ENST00000371350.1_Missense_Mutation_p.R43Q|NOC3L_ENST00000463649.1_5'UTR	NM_022451.9	NP_071896.8	Q8WTT2	NOC3L_HUMAN	nucleolar complex associated 3 homolog (S. cerevisiae)	43					fat cell differentiation (GO:0045444)	nuclear speck (GO:0016607)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)			endometrium(3)|large_intestine(17)|lung(5)|ovary(1)|skin(2)|stomach(1)	29		Colorectal(252;0.0897)				CTGTTCTTTTCGGTACTTCTT	0.373													C|||	18	0.00359425	0.0121	0.0029	5008	,	,		19349	0.0		0.0	False		,,,				2504	0.0															0								C	GLN/ARG	37,4369	41.6+/-74.8	0,37,2166	280	247	258		128	4.2	1	10	dbSNP_132	258	1,8599	1.2+/-3.3	0,1,4299	yes	missense	NOC3L	NM_022451.9	43	0,38,6465	TT,TC,CC		0.0116,0.8398,0.2922	probably-damaging	43/801	96121511	38,12968	2203	4300	6503	SO:0001583	missense	64318			AL355341	CCDS7433.1	10q23.33	2004-04-20	2005-08-01	2005-08-01	ENSG00000173145	ENSG00000173145			24034	protein-coding gene	gene with protein product		610769	"chromosome 10 open reading frame 117"	C10orf117		15564382	Standard	NM_022451		Approved	AD24, FLJ12820, FAD24	uc001kjq.1	Q8WTT2	OTTHUMG00000018788	ENST00000371361.3:c.128G>A	10.37:g.96121511C>T	ENSP00000360412:p.Arg43Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H5M6|Q9H9D8	Missense_Mutation	SNP	ENST00000371361.3	37	CCDS7433.1	8	0.003663003663003663	6	0.012195121951219513	2	0.0055248618784530384	0	0.0	0	0.0	C	31	5.065118	0.93898	0.008398	1.16E-4	ENSG00000173145	ENST00000371361;ENST00000371350	T;T	0.12672	2.66;2.66	5.09	4.19	0.49359	.	0.000000	0.85682	D	0.000000	T	0.16085	0.0387	N	0.19112	0.55	0.48185	D	0.999601	D	0.89917	1.0	D	0.79108	0.992	T	0.02417	-1.1162	10	0.62326	D	0.03	-4.2335	13.3566	0.60631	0.0:0.9238:0.0:0.0762	.	43	Q8WTT2	NOC3L_HUMAN	Q	43	ENSP00000360412:R43Q;ENSP00000360401:R43Q	ENSP00000360401:R43Q	R	-	2	0	NOC3L	96111501	1.000000	0.71417	0.993000	0.49108	0.998000	0.95712	7.461000	0.80834	1.145000	0.42336	0.561000	0.74099	CGA		0.373	NOC3L-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049466.1	NM_022451		T	96121511	C	T	96121511	3	4	664	1	0	0	0	0	1	0	0	0	10521	884	31	1	2354	1	NOC3L	10	96121511	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	99116	96121511	39413236	527	41837										
HPS1	3257	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr10	100177455	100177455	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctgacagcctcggttgggcGgttcttgctgtagtagcgca	14	11	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:100177455G>A	ENST00000325103.6	-	20	2202	c.1969C>T	c.(1969-1971)Cgc>Tgc	p.R657C	PYROXD2_ENST00000370575.4_5'Flank|HPS1_ENST00000467246.1_5'UTR|HPS1_ENST00000361490.4_Missense_Mutation_p.R657C	NM_000195.3	NP_000186.2	Q92902	HPS1_HUMAN	Hermansky-Pudlak syndrome 1	657					blood coagulation (GO:0007596)|eye pigmentation (GO:0048069)|lysosome organization (GO:0007040)|melanocyte differentiation (GO:0030318)|positive regulation of natural killer cell activation (GO:0032816)|retina development in camera-type eye (GO:0060041)|secretion of lysosomal enzymes (GO:0033299)|visual perception (GO:0007601)	BLOC-3 complex (GO:0031085)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|integral component of plasma membrane (GO:0005887)|lysosome (GO:0005764)	protein dimerization activity (GO:0046983)	p.R657C(1)		breast(1)|endometrium(1)|kidney(1)|large_intestine(5)|liver(1)|lung(9)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	23		Colorectal(252;0.234)		Epithelial(162;3.87e-12)|all cancers(201;5.63e-10)		TCGGTTGGGCGGTTCTTGCTG	0.662									Hermansky-Pudlak syndrome																																							1	Substitution - Missense(1)	prostate(1)											69	63	65					10																	100177455		2203	4300	6503	SO:0001583	missense	3257	Familial Cancer Database	HPS, HPS1-8	U79136	CCDS7475.1, CCDS7476.1	10q23.1-q23.3	2014-06-18		2002-05-01	ENSG00000107521	ENSG00000107521			5163	protein-coding gene	gene with protein product		604982	"Hermansky-Pudlak syndrome"	HPS		8541858, 7573033	Standard	NM_182639		Approved		uc021pwv.1	Q92902	OTTHUMG00000018876	ENST00000325103.6:c.1969C>T	10.37:g.100177455G>A	ENSP00000326649:p.Arg657Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8MRT2|O15402|O15502|Q5TAA3|Q8WXE5	Missense_Mutation	SNP	ENST00000325103.6	37	CCDS7475.1	.	.	.	.	.	.	.	.	.	.	G	18.54	3.646100	0.67358	.	.	ENSG00000107521	ENST00000325103;ENST00000361490;ENST00000407891	T;T	0.33438	1.41;1.41	5.5	4.59	0.56863	.	0.252703	0.46442	D	0.000298	T	0.36880	0.0983	L	0.44542	1.39	0.80722	D	1	D;D	0.71674	0.998;0.997	P;P	0.52856	0.599;0.711	T	0.03524	-1.1028	10	0.38643	T	0.18	.	13.7676	0.63004	0.0735:0.0:0.9265:0.0	.	624;658	Q92902-2;D3DR62	.;.	C	657;657;624	ENSP00000326649:R657C;ENSP00000355310:R657C	ENSP00000326649:R657C	R	-	1	0	HPS1	100167445	1.000000	0.71417	0.998000	0.56505	0.533000	0.34776	7.607000	0.82883	2.593000	0.87608	0.456000	0.33151	CGC		0.662	HPS1-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049776.1	NM_000195, NM_182637, NM_182638, NM_182639		A	100177455	G	A	100177455	3	1	664	1	0	0	0	0	1	0	0	0	7346	1116	39	1	137	1	HPS1	10	100177455	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4055944	100177455	35357292	528	41838										
COX15	1355	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	101483798	101483798	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atcccaggtgggcagcaaggCggtactgactgacccgaggg	16	11	0	2	rs377568460		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:101483798C>T	ENST00000016171.5	-	5	715	c.665G>A	c.(664-666)cGc>cAc	p.R222H	COX15_ENST00000370483.5_Missense_Mutation_p.R222H|CUTC_ENST00000493385.1_Intron			Q7KZN9	COX15_HUMAN	cytochrome c oxidase assembly homolog 15 (yeast)	222					cellular respiration (GO:0045333)|heme a biosynthetic process (GO:0006784)|heme biosynthetic process (GO:0006783)|hydrogen ion transmembrane transport (GO:1902600)|mitochondrial electron transport, cytochrome c to oxygen (GO:0006123)|oxidation-reduction process (GO:0055114)|porphyrin-containing compound metabolic process (GO:0006778)|respiratory chain complex IV assembly (GO:0008535)|respiratory gaseous exchange (GO:0007585)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain (GO:0005746)|mitochondrion (GO:0005739)	cytochrome-c oxidase activity (GO:0004129)|oxidoreductase activity, acting on the CH-CH group of donors (GO:0016627)			endometrium(1)|kidney(1)|large_intestine(4)|liver(1)|lung(4)|ovary(1)|upper_aerodigestive_tract(1)	13		Colorectal(252;0.234)		Epithelial(162;3.08e-10)|all cancers(201;2.43e-08)		GGCAGCAAGGCGGTACTGACT	0.522																																																0								C	HIS/ARG,HIS/ARG	0,4406		0,0,2203	131	129	130		665,665	4.6	1	10		130	2,8598	2.2+/-6.3	0,2,4298	no	missense,missense	COX15	NM_004376.5,NM_078470.4	29,29	0,2,6501	TT,TC,CC		0.0233,0.0,0.0154	probably-damaging,probably-damaging	222/389,222/411	101483798	2,13004	2203	4300	6503	SO:0001583	missense	1355			AF044323	CCDS7481.1, CCDS7482.1	10q24	2014-09-17	2012-10-15		ENSG00000014919	ENSG00000014919		"Mitochondrial respiratory chain complex assembly factors"	2263	protein-coding gene	gene with protein product		603646	"COX15 (yeast) homolog, cytochrome c oxidase assembly protein", "COX15 homolog, cytochrome c oxidase assembly protein (yeast)"			9878253	Standard	NM_078470		Approved		uc001kqb.4	Q7KZN9	OTTHUMG00000018893	ENST00000016171.5:c.665G>A	10.37:g.101483798C>T	ENSP00000016171:p.Arg222His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6I9|O60556|O75878|Q5TD00|Q5TD01|Q7Z3Q3|Q9NTN0	Missense_Mutation	SNP	ENST00000016171.5	37	CCDS7482.1	.	.	.	.	.	.	.	.	.	.	C	29.6	5.018218	0.93404	0.0	2.33E-4	ENSG00000014919	ENST00000370483;ENST00000016171	D;D	0.84442	-1.85;-1.85	4.61	4.61	0.57282	.	0.052347	0.85682	D	0.000000	D	0.95472	0.8529	H	0.97806	4.08	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.81914	0.99;0.995	D	0.97566	1.0101	10	0.87932	D	0	-6.6653	17.8123	0.88619	0.0:1.0:0.0:0.0	.	222;222	Q7KZN9-2;Q7KZN9	.;COX15_HUMAN	H	222	ENSP00000359514:R222H;ENSP00000016171:R222H	ENSP00000016171:R222H	R	-	2	0	COX15	101473788	1.000000	0.71417	1.000000	0.80357	0.937000	0.57800	7.211000	0.77933	2.269000	0.75478	0.462000	0.41574	CGC		0.522	COX15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049818.1	NP_510870		T	101483798	C	T	101483798	3	4	664	1	0	0	0	0	1	0	0	0	3766	768	27	1	657	1	COX15	10	101483798	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1306343	101483798	34050949	529	41839										
DNMBP	23268	broad.mit.edu;ucsc.edu	37	chr10	101716912	101716912	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccgtgcgccccagcagcttcGgccctgcagccagcctgcag	12	19	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:101716912G>A	ENST00000324109.4	-	4	410	c.319C>T	c.(319-321)Cga>Tga	p.R107*	DNMBP_ENST00000342239.3_Nonsense_Mutation_p.R107*|DNMBP-AS1_ENST00000434409.1_RNA	NM_015221.2	NP_056036.1	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	107	SH3 2. {ECO:0000255|PROSITE- ProRule:PRU00192}.				intracellular signal transduction (GO:0035556)	cell junction (GO:0030054)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|synapse (GO:0045202)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			central_nervous_system(1)|cervix(4)|endometrium(9)|large_intestine(14)|lung(19)|ovary(5)|prostate(1)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)	61		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		CAGCAGCTTCGGCCCTGCAGC	0.602																																																0													21	22	22					10																	101716912		2203	4299	6502	SO:0001587	stop_gained	23268			AL833283	CCDS7485.1	10q24.31	2012-07-24			ENSG00000107554	ENSG00000107554		"Rho guanine nucleotide exchange factors"	30373	protein-coding gene	gene with protein product	"scaffold protein TUBA"	611282				10231032, 14506234	Standard	NM_015221		Approved	KIAA1010, Tuba, ARHGEF36	uc001kqj.2	Q6XZF7	OTTHUMG00000018897	ENST00000324109.4:c.319C>T	10.37:g.101716912G>A	ENSP00000315659:p.Arg107*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVY3|Q9Y2L3	Nonsense_Mutation	SNP	ENST00000324109.4	37	CCDS7485.1	.	.	.	.	.	.	.	.	.	.	G	32	5.124634	0.94429	.	.	ENSG00000107554	ENST00000342239;ENST00000324109	.	.	.	5.46	4.55	0.56014	.	0.000000	0.41712	D	0.000830	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-9.6987	15.8694	0.79101	0.0:0.0:0.8632:0.1368	.	.	.	.	X	107	.	ENSP00000315659:R107X	R	-	1	2	DNMBP	101706902	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	2.754000	0.47532	1.412000	0.46977	0.555000	0.69702	CGA		0.602	DNMBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049832.2	NM_015221		A	101716912	G	A	101716912	4	1	664	1	0	0	0	0	0	1	0	0	4676	1124	39	1	4470	1	DNMBP	10	101716912	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	233114	101716912	33817835	530	41840										
SEMA4G	57715	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	102743469	102743469	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctccctcctctatgtggccTgtctgcgggaaggcagacga	12	14	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:102743469T>C	ENST00000370250.4	+	14	2471	c.2098T>C	c.(2098-2100)Tgt>Cgt	p.C700R	MRPL43_ENST00000318325.2_Intron|RP11-108L7.4_ENST00000447344.1_RNA|MRPL43_ENST00000299179.5_Intron|MRPL43_ENST00000342071.1_Intron|MRPL43_ENST00000370241.3_Intron|SEMA4G_ENST00000517724.1_Intron|SEMA4G_ENST00000210633.3_Missense_Mutation_p.C705R|MRPL43_ENST00000370242.4_Intron|MRPL43_ENST00000493646.1_5'Flank	NM_017893.3	NP_060363.2	Q9NTN9	SEM4G_HUMAN	sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4G	700					cell differentiation (GO:0030154)|nervous system development (GO:0007399)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	receptor activity (GO:0004872)			breast(3)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(9)|lung(5)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	25		Colorectal(252;0.234)		Epithelial(162;3.71e-09)|all cancers(201;2.1e-07)		CTATGTGGCCTGTCTGCGGGA	0.637																																																0													54	49	51					10																	102743469		2203	4300	6503	SO:0001583	missense	57715			AB046839	CCDS7501.1, CCDS55724.1	10q24.31	2013-01-11			ENSG00000095539	ENSG00000095539		"Semaphorins", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	10735	protein-coding gene	gene with protein product							Standard	NM_017893		Approved	FLJ20590, KIAA1619	uc001krw.2	Q9NTN9	OTTHUMG00000018922	ENST00000370250.4:c.2098T>C	10.37:g.102743469T>C	ENSP00000359270:p.Cys700Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A1A5C6|A6NJY8|Q58EY1|Q9HCF3	Missense_Mutation	SNP	ENST00000370250.4	37		.	.	.	.	.	.	.	.	.	.	t	19.60	3.857746	0.71834	.	.	ENSG00000095539	ENST00000370250;ENST00000210633	T;T	0.19394	2.15;2.21	5.53	5.53	0.82687	.	0.913030	0.09543	N	0.788077	T	0.33235	0.0856	L	0.34521	1.04	0.80722	D	1	D	0.76494	0.999	D	0.70935	0.971	T	0.01545	-1.1328	10	0.06757	T	0.87	.	14.843	0.70240	0.0:0.0:0.0:1.0	.	705	Q9NTN9-2	.	R	700;705	ENSP00000359270:C700R;ENSP00000210633:C705R	ENSP00000210633:C705R	C	+	1	0	SEMA4G	102733459	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.232000	0.78116	2.111000	0.64477	0.449000	0.29647	TGT		0.637	SEMA4G-002	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000049920.2			C	102743469	T	C	102743469	3	2	664	1	0	0	0	0	1	0	0	0	14049	1580	55	3	2167	3	SEMA4G	10	102743469	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1026557	102743469	32791278	531	41841										
CALHM1	255022	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	105215188	105215188	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgccttgatccgtgatgccaCgcagcttctccctttcctcc	7	17	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:105215188C>T	ENST00000329905.5	-	2	1008	c.872G>A	c.(871-873)cGt>cAt	p.R291H	CALHM2_ENST00000393235.1_5'Flank|RP11-225H22.4_ENST00000411906.1_RNA	NM_001001412.3	NP_001001412.3	Q8IU99	CAHM1_HUMAN	calcium homeostasis modulator 1	291					ATP transport (GO:0015867)|cation transport (GO:0006812)|protein homooligomerization (GO:0051260)|regulation of ion transmembrane transport (GO:0034765)|sensory perception of bitter taste (GO:0050913)|sensory perception of sweet taste (GO:0050916)|sensory perception of umami taste (GO:0050917)	endoplasmic reticulum (GO:0005783)|integral component of plasma membrane (GO:0005887)	calcium activated cation channel activity (GO:0005227)|calcium channel activity (GO:0005262)|identical protein binding (GO:0042802)|voltage-gated ion channel activity (GO:0005244)			large_intestine(2)|liver(1)|lung(5)|ovary(1)	9						CGTGATGCCACGCAGCTTCTC	0.667																																																0													72	54	60					10																	105215188		2203	4300	6503	SO:0001583	missense	255022			BC036208	CCDS7550.1	10q24.33	2008-07-02	2008-07-02	2008-07-02	ENSG00000185933	ENSG00000185933			23494	protein-coding gene	gene with protein product		612234	"family with sequence similarity 26, member C"	FAM26C		18585350	Standard	NM_001001412		Approved		uc001kxe.2	Q8IU99	OTTHUMG00000018991	ENST00000329905.5:c.872G>A	10.37:g.105215188C>T	ENSP00000329926:p.Arg291His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5W091	Missense_Mutation	SNP	ENST00000329905.5	37	CCDS7550.1	.	.	.	.	.	.	.	.	.	.	C	7.643	0.681194	0.14907	.	.	ENSG00000185933	ENST00000329905	T	0.18657	2.2	4.8	1.81	0.25067	.	0.301816	0.30752	N	0.008960	T	0.08935	0.0221	N	0.14661	0.345	0.09310	N	1	B	0.06786	0.001	B	0.06405	0.002	T	0.35500	-0.9786	10	0.11182	T	0.66	-6.5134	5.7241	0.18002	0.2155:0.5563:0.0:0.2282	.	291	Q8IU99	CAHM1_HUMAN	H	291	ENSP00000329926:R291H	ENSP00000329926:R291H	R	-	2	0	CALHM1	105205178	0.209000	0.23505	0.671000	0.29857	0.688000	0.40055	1.658000	0.37376	0.543000	0.28864	0.462000	0.41574	CGT		0.667	CALHM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050165.1	NM_001001412		T	105215188	C	T	105215188	3	4	664	1	0	0	0	0	1	0	0	0	2584	536	19	1	172	1	CALHM1	10	105215188	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2471719	105215188	30319559	532	41842										
BTBD16	118663	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr10	124057337	124057337	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agcaccatcaagaaattctaCgaggccggctgcaaggtgag	12	10	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:124057337C>T	ENST00000260723.4	+	8	896	c.645C>T	c.(643-645)taC>taT	p.Y215Y	BTBD16_ENST00000368994.2_Silent_p.Y216Y	NM_144587.2	NP_653188.2	Q32M84	BTBDG_HUMAN	BTB (POZ) domain containing 16	215										breast(1)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(5)|lung(3)|skin(2)|stomach(1)|urinary_tract(1)	15		all_neural(114;0.107)|Lung NSC(174;0.175)|all_lung(145;0.222)|Breast(234;0.238)				AGAAATTCTACGAGGCCGGCT	0.567																																																0													61	54	56					10																	124057337		2203	4300	6503	SO:0001819	synonymous_variant	118663			AK058088	CCDS31301.1	10q26.13	2013-01-24	2006-07-04	2006-07-04	ENSG00000138152	ENSG00000138152		"BTB/POZ domain containing"	26340	protein-coding gene	gene with protein product			"chromosome 10 open reading frame 87"	C10orf87			Standard	NM_144587		Approved	FLJ25359, Em:AC061711.1	uc001lgc.1	Q32M84	OTTHUMG00000019182	ENST00000260723.4:c.645C>T	10.37:g.124057337C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NM63|Q4VXL1|Q96LN0	Silent	SNP	ENST00000260723.4	37	CCDS31301.1																																																																																				0.567	BTBD16-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000050780.3	NM_144587		T	124057337	C	T	124057337	2	4	664	1	0	0	0	0	0	0	0	1	1543	547	19	1		1	BTBD16	10	124057337	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	18842149	124057337	11477410	533	41843										
PLEKHA1	59338	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	124172505	124172505	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atggtgaatgtgggaaaaagCaagtgtcttacagaactgat	12	4	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:124172505C>T	ENST00000368990.3	+	6	543	c.412C>T	c.(412-414)Caa>Taa	p.Q138*	PLEKHA1_ENST00000368989.2_Nonsense_Mutation_p.Q138*|PLEKHA1_ENST00000368988.1_Nonsense_Mutation_p.Q138*|PLEKHA1_ENST00000433307.1_Nonsense_Mutation_p.Q138*|PLEKHA1_ENST00000538022.1_Nonsense_Mutation_p.Q138*|PLEKHA1_ENST00000494222.1_3'UTR	NM_001001974.2	NP_001001974.1	Q9HB21	PKHA1_HUMAN	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 1	138					androgen metabolic process (GO:0008209)|B cell receptor signaling pathway (GO:0050853)|cellular response to hydrogen peroxide (GO:0070301)|establishment of protein localization (GO:0045184)|estrogen metabolic process (GO:0008210)|face morphogenesis (GO:0060325)|Leydig cell differentiation (GO:0033327)|luteinization (GO:0001553)|multicellular organism growth (GO:0035264)|negative regulation of protein kinase B signaling (GO:0051898)|palate development (GO:0060021)|phosphatidylinositol 3-kinase signaling (GO:0014065)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|post-embryonic development (GO:0009791)|ruffle organization (GO:0031529)|skeletal system morphogenesis (GO:0048705)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)	PDZ domain binding (GO:0030165)|phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(5)|urinary_tract(1)	13		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TGGGAAAAAGCAAGTGTCTTA	0.383																																																0													132	119	124					10																	124172505		2203	4300	6503	SO:0001587	stop_gained	59338			AF286160	CCDS7629.1, CCDS55730.1	10q26.3	2013-01-10	2002-01-14		ENSG00000107679	ENSG00000107679		"Pleckstrin homology (PH) domain containing"	14335	protein-coding gene	gene with protein product	"tandem PH domain containing protein-1"	607772	"pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 1"			11001876, 15485858	Standard	NM_001001974		Approved	TAPP1	uc001lge.2	Q9HB21	OTTHUMG00000019184	ENST00000368990.3:c.412C>T	10.37:g.124172505C>T	ENSP00000357986:p.Gln138*	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQ55|D3DRE2|Q9BVK0	Nonsense_Mutation	SNP	ENST00000368990.3	37	CCDS7629.1	.	.	.	.	.	.	.	.	.	.	C	38	6.990199	0.97987	.	.	ENSG00000107679	ENST00000368990;ENST00000368989;ENST00000409427;ENST00000368988;ENST00000538022;ENST00000433307	.	.	.	5.88	5.88	0.94601	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.42905	T	0.14	-19.5925	20.2314	0.98350	0.0:1.0:0.0:0.0	.	.	.	.	X	138	.	ENSP00000357984:Q138X	Q	+	1	0	PLEKHA1	124162495	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	7.126000	0.77201	2.789000	0.95967	0.591000	0.81541	CAA		0.383	PLEKHA1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050783.1	NM_001001974		T	124172505	C	T	124172505	4	4	664	1	0	0	0	0	0	1	0	0	12062	711	25	2	430	2	PLEKHA1	10	124172505	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	115168	124172505	11362242	534	41844										
DOCK1	1793	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr10	129216676	129216676	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	attgagaccatgcagctgacGaacgacaagatcaacagcat	9	10	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:129216676G>A	ENST00000280333.6	+	45	4609	c.4500G>A	c.(4498-4500)acG>acA	p.T1500T		NM_001380.3	NP_001371.1	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	1500	DHR-2.				apoptotic process (GO:0006915)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell migration (GO:0016477)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|hematopoietic progenitor cell differentiation (GO:0002244)|innate immune response (GO:0045087)|integrin-mediated signaling pathway (GO:0007229)|phagocytosis, engulfment (GO:0006911)|positive regulation of GTPase activity (GO:0043547)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)	GTPase activator activity (GO:0005096)|guanyl-nucleotide exchange factor activity (GO:0005085)			NS(2)|breast(1)|central_nervous_system(7)|endometrium(13)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(10)|lung(15)|ovary(4)|prostate(3)|stomach(2)|upper_aerodigestive_tract(5)|urinary_tract(1)	72		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		TGCAGCTGACGAACGACAAGA	0.597																																																0													62	73	69					10																	129216676		2199	4300	6499	SO:0001819	synonymous_variant	1793			D50857	CCDS73222.1	10q26.13-q26.3	2009-10-28			ENSG00000150760	ENSG00000150760			2987	protein-coding gene	gene with protein product	"DOwnstream of CrK"	601403	"dedicator of cyto-kinesis 1"			8657152, 8661160	Standard	XM_006717681		Approved	DOCK180, ced5	uc001ljt.3	Q14185	OTTHUMG00000019249	ENST00000280333.6:c.4500G>A	10.37:g.129216676G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1Z5	Silent	SNP	ENST00000280333.6	37																																																																																					0.597	DOCK1-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000050979.2	NM_001380		A	129216676	G	A	129216676	2	1	664	1	0	0	0	0	0	0	0	1	4686	1045	37	1		1	DOCK1	10	129216676	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5044171	129216676	6318071	535	41845										
MKI67	4288	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	129901498	129901498	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccggctctttgtcggtgtgcGtggtctcccctgaggtttgt	14	11	2	1	rs371728740		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:129901498G>A	ENST00000368654.3	-	13	8981	c.8606C>T	c.(8605-8607)aCg>aTg	p.T2869M	MKI67_ENST00000368653.3_Missense_Mutation_p.T2509M	NM_002417.4	NP_002408.3	P46013	KI67_HUMAN	marker of proliferation Ki-67	2869	16 X 122 AA approximate repeats.				cell proliferation (GO:0008283)|cellular response to heat (GO:0034605)|DNA metabolic process (GO:0006259)|hyaluronan metabolic process (GO:0030212)|meiotic nuclear division (GO:0007126)|organ regeneration (GO:0031100)|response to organic cyclic compound (GO:0014070)	chromosome, centromeric region (GO:0000775)|condensed chromosome (GO:0000793)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(5)|kidney(7)|large_intestine(30)|lung(64)|ovary(4)|pancreas(1)|prostate(4)|skin(2)|soft_tissue(1)|stomach(10)|upper_aerodigestive_tract(4)|urinary_tract(4)	159		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GTCGGTGTGCGTGGTCTCCCC	0.542																																																0													181	160	167					10																	129901498		2203	4300	6503	SO:0001583	missense	4288			X65550	CCDS7659.1, CCDS53588.1	10q26.2	2014-06-12	2013-10-10		ENSG00000148773	ENSG00000148773			7107	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 105"	176741	"antigen identified by monoclonal antibody Ki-67"			2571566, 16206250	Standard	NM_002417		Approved	MIB-, PPP1R105	uc001lke.3	P46013	OTTHUMG00000019255	ENST00000368654.3:c.8606C>T	10.37:g.129901498G>A	ENSP00000357643:p.Thr2869Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VWH2	Missense_Mutation	SNP	ENST00000368654.3	37	CCDS7659.1	.	.	.	.	.	.	.	.	.	.	G	8.274	0.813950	0.16537	.	.	ENSG00000148773	ENST00000368654;ENST00000368653;ENST00000537609	T;T	0.02121	4.44;4.44	4.16	-2.78	0.05859	.	.	.	.	.	T	0.02610	0.0079	L	0.56769	1.78	0.09310	N	1	B;B;B	0.21905	0.018;0.062;0.012	B;B;B	0.21708	0.005;0.036;0.01	T	0.40646	-0.9552	9	0.39692	T	0.17	.	4.8027	0.13305	0.4516:0.2774:0.271:0.0	.	2868;2509;2869	F5H4V4;P46013-2;P46013	.;.;KI67_HUMAN	M	2869;2509;2868	ENSP00000357643:T2869M;ENSP00000357642:T2509M	ENSP00000357642:T2509M	T	-	2	0	MKI67	129791488	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-2.745000	0.00796	-0.609000	0.05724	-0.126000	0.14955	ACG		0.542	MKI67-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000050999.1	NM_002417		A	129901498	G	A	129901498	3	1	664	1	0	0	0	0	1	0	0	0	9605	1145	40	1	1176	1	MKI67	10	129901498	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	684822	129901498	5633249	536	41846										
KNDC1	85442	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr10	134996849	134996849	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagcctgtcgtgcccacaggCgcacatctactctctggggg	12	15	2	0	rs201644896		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr10:134996849C>T	ENST00000304613.3	+	4	383	c.362C>T	c.(361-363)gCg>gTg	p.A121V	KNDC1_ENST00000368572.2_Splice_Site_p.A121V|KNDC1_ENST00000368571.2_Splice_Site_p.A56V			Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND) containing 1	121	KIND 1. {ECO:0000255|PROSITE- ProRule:PRU00709}.				cerebellar granule cell differentiation (GO:0021707)|positive regulation of protein phosphorylation (GO:0001934)|regulation of dendrite morphogenesis (GO:0048814)|small GTPase mediated signal transduction (GO:0007264)	dendrite (GO:0030425)|guanyl-nucleotide exchange factor complex (GO:0032045)|neuronal cell body (GO:0043025)	protein serine/threonine kinase activity (GO:0004674)|Ras guanyl-nucleotide exchange factor activity (GO:0005088)			NS(4)|breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(27)|ovary(1)|prostate(5)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	60		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)		TGCCCACAGGCGCACATCTAC	0.657																																																0									VAL/ALA	1,4391		0,1,2195	17	16	17		362	2.5	0.6	10		17	0,8580		0,0,4290	yes	missense-near-splice	KNDC1	NM_152643.6	64	0,1,6485	TT,TC,CC		0.0,0.0228,0.0077	possibly-damaging	121/1750	134996849	1,12971	2196	4290	6486	SO:0001630	splice_region_variant	85442			AK074179	CCDS7674.1	10q26.3	2004-09-14	2004-04-07		ENSG00000171798	ENSG00000171798			29374	protein-coding gene	gene with protein product			"RasGEF domain family, member 2"	RASGEF2, C10orf23		11214970	Standard	NM_152643		Approved	KIAA1768, bB439H18.3, FLJ25027	uc001llz.1	Q76NI1	OTTHUMG00000019303	ENST00000304613.3:c.361-1C>T	10.37:g.134996849C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0QZC5|Q5T233|Q6ZNH8|Q8TEE5|Q96LV7|Q9C095	Missense_Mutation	SNP	ENST00000304613.3	37	CCDS7674.1	.	.	.	.	.	.	.	.	.	.	C	15.34	2.804390	0.50315	2.28E-4	0.0	ENSG00000171798	ENST00000304613;ENST00000368572;ENST00000368571	T;T;T	0.30182	1.54;1.54;1.84	4.49	2.45	0.29901	KIND (2);	0.088104	0.46145	D	0.000304	T	0.24967	0.0606	M	0.67953	2.075	0.30336	N	0.786205	P;B	0.44195	0.828;0.213	B;B	0.35353	0.201;0.015	T	0.35773	-0.9775	10	0.87932	D	0	-13.4062	5.8947	0.18933	0.0:0.6975:0.1944:0.1081	.	56;121	Q76NI1-2;Q76NI1	.;VKIND_HUMAN	V	121;121;56	ENSP00000304437:A121V;ENSP00000357561:A121V;ENSP00000357560:A56V	ENSP00000304437:A121V	A	+	2	0	KNDC1	134846839	0.657000	0.27393	0.616000	0.29078	0.224000	0.24922	1.027000	0.30115	1.032000	0.39892	0.450000	0.29827	GCG		0.657	KNDC1-006	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000277044.3	NM_152643	Missense_Mutation	T	134996849	C	T	134996849	5	4	664	1	0	0	0	0	0	0	1	0	8433	782	27	1	376	1	KNDC1	10	134996849	Splice_Site	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5095351	134996849	537898	537	41847										
ANO9	338440	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	428582	428582	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggccgagctgctgaagagcgCggaggccaggacgcggtaga	19	10	0	3	rs199542627		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:428582C>T	ENST00000332826.6	-	13	1162	c.1078G>A	c.(1078-1080)Gcg>Acg	p.A360T		NM_001012302.2	NP_001012302	A1A5B4	ANO9_HUMAN	anoctamin 9	360					calcium activated galactosylceramide scrambling (GO:0061591)|calcium activated phosphatidylcholine scrambling (GO:0061590)|calcium activated phosphatidylserine scrambling (GO:0061589)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|ion transmembrane transport (GO:0034220)|negative regulation of intracellular calcium activated chloride channel activity (GO:1902939)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|intracellular (GO:0005622)|plasma membrane (GO:0005886)	intracellular calcium activated chloride channel activity (GO:0005229)|phospholipid scramblase activity (GO:0017128)			central_nervous_system(2)|cervix(1)|endometrium(3)|kidney(1)|lung(5)|ovary(1)|prostate(4)|skin(4)	21						CTGAAGAGCGCGGAGGCCAGG	0.667																																																0									THR/ALA	0,4388		0,0,2194	32	35	34		1078	2.2	0	11		34	2,8568	2.2+/-6.3	0,2,4283	yes	missense	ANO9	NM_001012302.2	58	0,2,6477	TT,TC,CC		0.0233,0.0,0.0154	probably-damaging	360/783	428582	2,12956	2194	4285	6479	SO:0001583	missense	338440			U33271	CCDS31326.1	11p15.5	2014-04-09	2008-08-28	2008-08-28	ENSG00000185101	ENSG00000185101		"Ion channels / Chloride channels : Calcium activated : Anoctamins"	20679	protein-coding gene	gene with protein product			"tumor protein p53 inducible protein 5", "transmembrane protein 16J"	TP53I5, TMEM16J		9305847, 24692353	Standard	NM_001012302		Approved	PIG5	uc001lpi.2	A1A5B4	OTTHUMG00000165446	ENST00000332826.6:c.1078G>A	11.37:g.428582C>T	ENSP00000332788:p.Ala360Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KUC4|B4E134|Q8TEN4	Missense_Mutation	SNP	ENST00000332826.6	37	CCDS31326.1	.	.	.	.	.	.	.	.	.	.	C	9.850	1.193288	0.22037	0.0	2.33E-4	ENSG00000185101	ENST00000332826	T	0.63744	-0.06	4.17	2.21	0.28008	.	1.993630	0.02753	U	0.117660	T	0.66277	0.2773	L	0.48877	1.53	0.09310	N	1	D;D	0.64830	0.981;0.994	P;P	0.53954	0.481;0.738	T	0.52646	-0.8548	10	0.17369	T	0.5	.	8.8995	0.35485	0.0:0.764:0.1515:0.0845	.	61;360	A1A5B4-2;A1A5B4	.;ANO9_HUMAN	T	360	ENSP00000332788:A360T	ENSP00000332788:A360T	A	-	1	0	ANO9	418582	0.013000	0.17824	0.002000	0.10522	0.001000	0.01503	1.289000	0.33307	0.879000	0.35944	-0.532000	0.04303	GCG		0.667	ANO9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384116.1	NM_001012302		T	428582	C	T	428582	3	4	664	1	0	0	0	0	1	0	0	0	704	768	27	1	1314	1	ANO9	11	428582	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10		428582	134577934	538	41848										
MUC5B	727897	hgsc.bcm.edu	37	chr11	1253980	1253980	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caagggcgtacagctcagcgActggagggacggcgtctgca	16	11	2	0	rs202127660		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:1253980A>G	ENST00000529681.1	+	17	2103	c.2045A>G	c.(2044-2046)gAc>gGc	p.D682G	MUC5B_ENST00000447027.1_Missense_Mutation_p.D685G	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	682					cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		CAGCTCAGCGACTGGAGGGAC	0.682																																																0													21	24	23					11																	1253980		2116	4228	6344	SO:0001583	missense	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.2045A>G	11.37:g.1253980A>G	ENSP00000436812:p.Asp682Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Missense_Mutation	SNP	ENST00000529681.1	37	CCDS44515.2	.	.	.	.	.	.	.	.	.	.	A	7.541	0.660740	0.14645	.	.	ENSG00000117983	ENST00000529681;ENST00000447027;ENST00000349637;ENST00000406844	T;T	0.76060	-0.99;-0.99	4.6	2.72	0.32119	Uncharacterised domain, cysteine-rich (2);	.	.	.	.	T	0.50103	0.1596	N	0.02960	-0.455	0.24874	N	0.992269	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.45920	-0.9228	9	0.87932	D	0	.	8.6635	0.34108	0.2416:0.0:0.7584:0.0	.	682;1341;685	Q9HC84;A7Y9J9;E9PBJ0	MUC5B_HUMAN;.;.	G	682;685;683;718	ENSP00000436812:D682G;ENSP00000415793:D685G	ENSP00000343037:D683G	D	+	2	0	MUC5B	1210556	0.999000	0.42202	0.632000	0.29296	0.070000	0.16714	2.607000	0.46300	0.373000	0.24621	-1.983000	0.00453	GAC		0.682	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		G	1253980	A	G	1253980	3	3	664	1	0	0	0	0	1	0	0	0	9986	275	10	3	2120	3	MUC5B	11	1253980	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	825398	1253980	133752536	539	41849										
TRIM68	55128	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	4624492	4624492	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgccttccaggtggcagttcGtttcctttcaccaacttcaa	7	13	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:4624492G>A	ENST00000300747.5	-	3	794	c.505C>T	c.(505-507)Cga>Tga	p.R169*		NM_018073.6	NP_060543.5	Q6AZZ1	TRI68_HUMAN	tripartite motif containing 68	169					protein autoubiquitination (GO:0051865)|regulation of androgen receptor signaling pathway (GO:0060765)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleolus (GO:0005730)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|histone acetyltransferase binding (GO:0035035)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|large_intestine(5)|liver(1)|lung(4)|ovary(1)|urinary_tract(1)	15		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;9.49e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0288)|LUSC - Lung squamous cell carcinoma(625;0.192)		GTGGCAGTTCGTTTCCTTTCA	0.522																																																0													184	159	167					11																	4624492		2201	4298	6499	SO:0001587	stop_gained	55128			AF360739	CCDS31356.1	11p15.4	2013-01-09	2011-01-25	2004-11-17		ENSG00000167333		"RING-type (C3HC4) zinc fingers", "Tripartite motif containing / Tripartite motif containing"	21161	protein-coding gene	gene with protein product		613184	"ring finger protein 137", "tripartite motif-containing 68"	RNF137		11597395	Standard	NM_018073		Approved	SS-56, FLJ10369	uc001lzf.2	Q6AZZ1		ENST00000300747.5:c.505C>T	11.37:g.4624492G>A	ENSP00000300747:p.Arg169*	Somatic		WXS	Illumina HiSeq	Phase_I	A6NI19|A8K551|B3KPM5|B4DVK4|Q8WZ70|Q96LE5|Q96PF7|Q9H9C2|Q9NW18	Nonsense_Mutation	SNP	ENST00000300747.5	37	CCDS31356.1	.	.	.	.	.	.	.	.	.	.	G	31	5.079343	0.94050	.	.	ENSG00000167333	ENST00000300747	.	.	.	4.76	1.54	0.23209	.	0.808617	0.10194	N	0.704299	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.15952	T	0.53	.	4.9031	0.13784	0.1013:0.0:0.5219:0.3768	.	.	.	.	X	169	.	ENSP00000300747:R169X	R	-	1	2	TRIM68	4581068	0.009000	0.17119	0.530000	0.27963	0.775000	0.43874	1.533000	0.36040	0.674000	0.31244	0.561000	0.74099	CGA		0.522	TRIM68-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385948.1	NM_018073		A	4624492	G	A	4624492	4	1	664	1	0	0	0	0	0	1	0	0	16553	1153	40	1	972	1	TRIM68	11	4624492	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3370512	4624492	130382024	540	41850										
TRIM34	53840	ucsc.edu	37	chr11	5655127	5655127	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagaagagaaaacttcctggAaggcaagaggagattctgaa	13	5	1	5			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:5655127A>G	ENST00000514226.1	+	3	854	c.517A>G	c.(517-519)Aag>Gag	p.K173E	HBG2_ENST00000380259.2_Intron|TRIM6-TRIM34_ENST00000354852.5_Missense_Mutation_p.K527E|TRIM34_ENST00000429814.2_Missense_Mutation_p.K173E|TRIM6-TRIM34_ENST00000457787.2_Missense_Mutation_p.K173E	NM_001003827.1	NP_001003827.1	Q9BYJ4	TRI34_HUMAN	tripartite motif containing 34	173					positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|protein trimerization (GO:0070206)	cytoplasm (GO:0005737)	zinc ion binding (GO:0008270)			NS(1)|kidney(1)|large_intestine(6)|lung(5)|ovary(1)|prostate(1)|stomach(1)|urinary_tract(1)	17		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;5.72e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AACTTCCTGGAAGGCAAGAGG	0.473																																																0													63	65	64					11																	5655127		2201	4297	6498	SO:0001583	missense	53840			AB039902	CCDS31391.1	11p15	2013-01-09	2011-01-25	2001-11-23		ENSG00000258659		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	10063	protein-coding gene	gene with protein product		605684	"tripartite motif-containing 34"	RNF21			Standard	NM_130390		Approved			Q9BYJ4	OTTHUMG00000066892	ENST00000514226.1:c.517A>G	11.37:g.5655127A>G	ENSP00000422947:p.Lys173Glu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQS7|Q9C016|Q9HCR0|Q9HCR1|Q9HCR2	Missense_Mutation	SNP	ENST00000514226.1	37	CCDS31391.1	.	.	.	.	.	.	.	.	.	.	A	13.97	2.394975	0.42512	.	.	ENSG00000258659;ENSG00000258659;ENSG00000258659;ENSG00000258659;ENSG00000258588	ENST00000337072;ENST00000514226;ENST00000429814;ENST00000457787;ENST00000354852	T;T;T;T	0.27890	3.56;3.56;3.56;1.64	3.78	2.61	0.31194	.	0.000000	0.33610	N	0.004729	T	0.32971	0.0847	M	0.71871	2.18	0.20196	N	0.999922	P;P;B	0.39376	0.67;0.646;0.025	B;B;B	0.42319	0.351;0.383;0.023	T	0.15093	-1.0449	10	0.46703	T	0.11	.	7.0658	0.25151	0.7678:0.2322:0.0:0.0	.	173;173;527	Q9BYJ4-2;Q9BYJ4;B2RNG4	.;TRI34_HUMAN;.	E	527;173;173;173;527	ENSP00000422947:K173E;ENSP00000402595:K173E;ENSP00000395982:K173E;ENSP00000346916:K527E	ENSP00000402595:K173E	K	+	1	0	TRIM34;TRIM6-TRIM34	5611703	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	1.381000	0.34362	0.772000	0.33382	0.533000	0.62120	AAG		0.473	TRIM34-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000143357.2	NM_001003827		G	5655127	A	G	5655127	3	3	664	1	0	0	0	0	1	0	0	0	16520	247	9	3	523	3	TRIM34	11	5655127	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	1030635	5655127	129351389	541	41851										
DNHD1	144132	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr11	6555328	6555328	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggagtactgagcaccagctcGtctccctagagcgtcagttc	11	13	2	2	rs372619391		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:6555328G>A	ENST00000527990.2	+	12	2923	c.2923G>A	c.(2923-2925)Gtc>Atc	p.V975I	DNHD1_ENST00000254579.6_Missense_Mutation_p.V975I			Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1	975					microtubule-based movement (GO:0007018)	dynein complex (GO:0030286)|extracellular vesicular exosome (GO:0070062)	microtubule motor activity (GO:0003777)			NS(1)|autonomic_ganglia(1)|breast(4)|endometrium(13)|kidney(6)|large_intestine(11)|lung(14)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	55		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		GCACCAGCTCGTCTCCCTAGA	0.582																																																0								G	ILE/VAL	2,1382		0,2,690	25	24	24		2923	-0.3	0	11		24	0,3182		0,0,1591	no	missense	DNHD1	NM_144666.2	29	0,2,2281	AA,AG,GG		0.0,0.1445,0.0438	benign	975/4754	6555328	2,4564	692	1591	2283	SO:0001583	missense	144132			AK128064	CCDS44532.1, CCDS7767.1	11p15.4	2011-02-10		2005-11-28	ENSG00000179532	ENSG00000179532			26532	protein-coding gene	gene with protein product			"chromosome 11 open reading frame 47", "dynein heavy chain domain 1-like", "coiled-coil domain containing 35"	DHCD1, C11orf47, DNHD1L, CCDC35		12975309	Standard	NM_173589		Approved	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796	uc001mdw.4	Q96M86	OTTHUMG00000133403	ENST00000527990.2:c.2923G>A	11.37:g.6555328G>A	ENSP00000436180:p.Val975Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKK8|Q6UWI9|Q8NAA2|Q8TEE6|Q9NSZ9	Missense_Mutation	SNP	ENST00000527990.2	37	CCDS44532.1	.	.	.	.	.	.	.	.	.	.	G	0.010	-1.752282	0.00663	0.001445	0.0	ENSG00000179532	ENST00000254579;ENST00000527990	T;T	0.25085	1.82;1.82	6.17	-0.271	0.12922	.	.	.	.	.	T	0.08626	0.0214	N	0.01874	-0.695	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.30416	-0.9979	9	0.37606	T	0.19	.	5.3228	0.15891	0.5461:0.1439:0.3099:0.0	.	975	Q96M86	DNHD1_HUMAN	I	975	ENSP00000254579:V975I;ENSP00000436180:V975I	ENSP00000254579:V975I	V	+	1	0	DNHD1	6511904	0.002000	0.14202	0.045000	0.18777	0.024000	0.10985	-0.061000	0.11693	-0.266000	0.09339	-0.238000	0.12139	GTC		0.582	DNHD1-007	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384673.2	NM_144666		A	6555328	G	A	6555328	3	1	664	1	0	0	0	0	1	0	0	0	4670	1145	40	1	2978	1	DNHD1	11	6555328	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	900201	6555328	128451188	542	41852										
TAF10	6881	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr11	6632970	6632970	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accacgggcttcacgtctccGttggccgcgctcggcagtac	12	16	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:6632970G>A	ENST00000299424.4	-	2	789	c.312C>T	c.(310-312)aaC>aaT	p.N104N	RP11-732A19.2_ENST00000527398.1_RNA|TAF10_ENST00000531760.1_5'UTR	NM_006284.3	NP_006275.1	Q12962	TAF10_HUMAN	TAF10 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 30kDa	104					chromatin organization (GO:0006325)|DNA-templated transcription, initiation (GO:0006352)|gene expression (GO:0010467)|histone deubiquitination (GO:0016578)|histone H3 acetylation (GO:0043966)|protein homooligomerization (GO:0051260)|regulation of transcription, DNA-templated (GO:0006355)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PCAF complex (GO:0000125)|perinuclear region of cytoplasm (GO:0048471)|STAGA complex (GO:0030914)|transcription factor TFIID complex (GO:0005669)|transcription factor TFTC complex (GO:0033276)	enzyme binding (GO:0019899)|estrogen receptor binding (GO:0030331)|RNA polymerase binding (GO:0070063)|transcription coactivator activity (GO:0003713)						Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.0481)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.129)		TCACGTCTCCGTTGGCCGCGC	0.637																																																0													36	42	40					11																	6632970		2201	4296	6497	SO:0001819	synonymous_variant	6881			U13991, U25816	CCDS7769.1	11p15.5-p15.2	2006-11-14	2002-08-29	2001-12-07	ENSG00000166337	ENSG00000166337			11543	protein-coding gene	gene with protein product		600475	"TATA box binding protein (TBP)-associated factor, RNA polymerase II, H, 30kD"	TAF2H, TAF2A		7923369	Standard	NM_006284		Approved	TAFII30	uc001mej.2	Q12962	OTTHUMG00000133402	ENST00000299424.4:c.312C>T	11.37:g.6632970G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O00703|Q13175|Q6FH13	Silent	SNP	ENST00000299424.4	37	CCDS7769.1																																																																																				0.637	TAF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257259.2	NM_006284		A	6632970	G	A	6632970	2	1	664	1	0	0	0	0	0	0	0	1	15526	1136	40	1		1	TAF10	11	6632970	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	77642	6632970	128373546	543	41853										
TPP1	1200	broad.mit.edu;bcgsc.ca	37	chr11	6638918	6638918	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agaatggcacttctgggctcCggctgccaagagccattttt	11	11	1	2	rs201613668		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:6638918C>T	ENST00000299427.6	-	4	379	c.319G>A	c.(319-321)Gga>Aga	p.G107R	TPP1_ENST00000534644.1_5'UTR|TPP1_ENST00000533371.1_5'UTR|RP11-732A19.9_ENST00000545572.1_RNA	NM_000391.3	NP_000382.3	P49638	TTPA_HUMAN	tripeptidyl peptidase I	0	CRAL-TRIO. {ECO:0000255|PROSITE- ProRule:PRU00056}.				embryonic placenta development (GO:0001892)|intermembrane transport (GO:0046909)|intracellular pH reduction (GO:0051452)|lipid metabolic process (GO:0006629)|negative regulation of cell death (GO:0060548)|negative regulation of establishment of blood-brain barrier (GO:0090212)|response to nutrient (GO:0007584)|response to pH (GO:0009268)|response to toxic substance (GO:0009636)|transport (GO:0006810)|vitamin E metabolic process (GO:0042360)|vitamin transport (GO:0051180)	cytosol (GO:0005829)|late endosome (GO:0005770)	phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|transporter activity (GO:0005215)|vitamin E binding (GO:0008431)			breast(2)|central_nervous_system(1)|endometrium(2)|large_intestine(6)|lung(9)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	23		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;3.45e-09)|BRCA - Breast invasive adenocarcinoma(625;0.131)	Vitamin E(DB00163)	TTCTGGGCTCCGGCTGCCAAG	0.542																																																0													145	137	140					11																	6638918		2201	4296	6497	SO:0001583	missense	1200			AF017456	CCDS7770.1	11p15.4	2014-09-17	2004-12-09	2004-12-10	ENSG00000166340	ENSG00000166340			2073	protein-coding gene	gene with protein product	"TPP I"	607998	"ceroid-lipofuscinosis, neuronal 2, late infantile (Jansky-Bielschowsky disease)", "spinocerebellar ataxia, autosomal recessive 7"	CLN2, SCAR7		9653647, 23418007	Standard	NM_000391		Approved		uc001mel.1	O14773	OTTHUMG00000133404	ENST00000299427.6:c.319G>A	11.37:g.6638918C>T	ENSP00000299427:p.Gly107Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q71V64	Missense_Mutation	SNP	ENST00000299427.6	37	CCDS7770.1	.	.	.	.	.	.	.	.	.	.	C	19.10	3.761740	0.69763	.	.	ENSG00000166340	ENST00000299427;ENST00000453338;ENST00000436873	T;T	0.80304	-1.36;-1.36	5.7	5.7	0.88788	Proteinase inhibitor, propeptide (1);Peptidase S53, propeptide (2);	0.000000	0.85682	D	0.000000	D	0.92414	0.7592	M	0.93854	3.465	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.998	D	0.93911	0.7197	10	0.87932	D	0	-19.7212	17.0031	0.86385	0.0:1.0:0.0:0.0	.	107;107	B4DEQ3;O14773	.;TPP1_HUMAN	R	107	ENSP00000299427:G107R;ENSP00000398136:G107R	ENSP00000299427:G107R	G	-	1	0	TPP1	6595494	1.000000	0.71417	1.000000	0.80357	0.383000	0.30230	6.487000	0.73633	2.688000	0.91661	0.655000	0.94253	GGA		0.542	TPP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257261.2			T	6638918	C	T	6638918	3	4	664	1	0	0	0	0	1	0	0	0	16423	661	23	1	1412	1	TPP1	11	6638918	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5948	6638918	128367598	544	41854										
DCHS1	8642	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	6650025	6650025	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccactcgaacagtgacatgcGttaactgaggaggtgagccc	12	11	0	3	rs146184962		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:6650025G>A	ENST00000299441.3	-	13	5609	c.5198C>T	c.(5197-5199)aCg>aTg	p.T1733M	RP11-732A19.6_ENST00000526633.1_RNA	NM_003737.2	NP_003728.1	Q96JQ0	PCD16_HUMAN	dachsous cadherin-related 1	1733	Cadherin 16. {ECO:0000255|PROSITE- ProRule:PRU00043}.				branching involved in ureteric bud morphogenesis (GO:0001658)|calcium-dependent cell-cell adhesion (GO:0016339)|cochlea development (GO:0090102)|digestive tract development (GO:0048565)|heart morphogenesis (GO:0003007)|heterophilic cell-cell adhesion (GO:0007157)|hippo signaling (GO:0035329)|homophilic cell adhesion (GO:0007156)|neural tube development (GO:0021915)|neurogenesis (GO:0022008)|ossification involved in bone maturation (GO:0043931)|post-anal tail morphogenesis (GO:0036342)	apical part of cell (GO:0045177)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(16)|liver(1)|lung(41)|ovary(4)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(6)|urinary_tract(4)	103		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGTGACATGCGTTAACTGAGG	0.557													G|||	1	0.000199681	0.0	0.0	5008	,	,		24423	0.0		0.001	False		,,,				2504	0.0															0													84	74	77					11																	6650025		2201	4296	6497	SO:0001583	missense	8642			AB000895	CCDS7771.1	11p15.4	2013-10-04	2013-10-04	2004-09-03	ENSG00000166341	ENSG00000166341		"Cadherins / Cadherin-related"	13681	protein-coding gene	gene with protein product	"cadherin-related family member 6"	603057	"protocadherin 16", "dachsous 1 (Drosophila)"	CDH25, PCDH16		9199196	Standard	XM_005253207		Approved	FIB1, KIAA1773, FLJ11790, CDHR6	uc001mem.1	Q96JQ0	OTTHUMG00000133398	ENST00000299441.3:c.5198C>T	11.37:g.6650025G>A	ENSP00000299441:p.Thr1733Met	Somatic		WXS	Illumina HiSeq	Phase_I	O15098	Missense_Mutation	SNP	ENST00000299441.3	37	CCDS7771.1	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	G	11.19	1.566660	0.28003	.	.	ENSG00000166341	ENST00000299441	T	0.01725	4.67	4.58	3.62	0.41486	Cadherin (4);Cadherin-like (1);	0.150272	0.31041	N	0.008375	T	0.04724	0.0128	L	0.58810	1.83	0.32005	N	0.602907	D	0.59767	0.986	P	0.55667	0.781	T	0.02202	-1.1196	10	0.59425	D	0.04	.	8.5943	0.33705	0.0916:0.1692:0.7392:0.0	.	1733	Q96JQ0	PCD16_HUMAN	M	1733	ENSP00000299441:T1733M	ENSP00000299441:T1733M	T	-	2	0	DCHS1	6606601	1.000000	0.71417	1.000000	0.80357	0.135000	0.20990	7.390000	0.79816	2.385000	0.81259	0.563000	0.77884	ACG		0.557	DCHS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257258.1	NM_003737		A	6650025	G	A	6650025	3	1	664	1	0	0	0	0	1	0	0	0	4289	1145	40	1	4734	1	DCHS1	11	6650025	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	11107	6650025	128356491	545	41855										
NLRP10	338322	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	7982431	7982431	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	catccaggatgaacaggagcCgctctggctgcctcagaatc	11	13	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:7982431C>T	ENST00000328600.2	-	2	889	c.728G>A	c.(727-729)cGg>cAg	p.R243Q		NM_176821.3	NP_789791.1	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	243	NACHT. {ECO:0000255|PROSITE- ProRule:PRU00136}.				defense response to fungus (GO:0050832)|defense response to Gram-negative bacterium (GO:0050829)|dendritic cell migration (GO:0036336)|helper T cell enhancement of adaptive immune response (GO:0035397)|innate immune response (GO:0045087)|positive regulation of interleukin-6 secretion (GO:2000778)|positive regulation of interleukin-8 secretion (GO:2000484)|positive regulation of T-helper 1 type immune response (GO:0002827)|positive regulation of T-helper 17 type immune response (GO:2000318)	cytoplasm (GO:0005737)|extrinsic component of plasma membrane (GO:0019897)	ATP binding (GO:0005524)			breast(1)|endometrium(2)|kidney(2)|large_intestine(8)|liver(1)|lung(28)|ovary(2)|pancreas(1)|prostate(2)|skin(8)|upper_aerodigestive_tract(1)|urinary_tract(2)	58				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GAACAGGAGCCGCTCTGGCTG	0.552																																																0													42	43	43					11																	7982431		2201	4296	6497	SO:0001583	missense	338322			AY154465	CCDS7784.1	11p15.4	2006-12-08	2006-12-08	2006-12-08		ENSG00000182261		"Nucleotide-binding domain and leucine rich repeat containing"	21464	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 10"	609662	"NACHT, leucine rich repeat and PYD containing 10"	NALP10		12563287	Standard	NM_176821		Approved	NOD8, PAN5, Pynod, CLR11.1	uc001mfv.1	Q86W26		ENST00000328600.2:c.728G>A	11.37:g.7982431C>T	ENSP00000327763:p.Arg243Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3C4|Q6JGT0	Missense_Mutation	SNP	ENST00000328600.2	37	CCDS7784.1	.	.	.	.	.	.	.	.	.	.	C	16.69	3.192945	0.58017	.	.	ENSG00000182261	ENST00000328600	D	0.83591	-1.74	4.85	2.94	0.34122	NACHT nucleoside triphosphatase (1);	0.000000	0.35207	N	0.003364	D	0.87795	0.6267	M	0.66439	2.03	0.24750	N	0.992983	D	0.89917	1.0	D	0.85130	0.997	T	0.77940	-0.2399	10	0.59425	D	0.04	.	8.135	0.31050	0.0:0.7994:0.0:0.2006	.	243	Q86W26	NAL10_HUMAN	Q	243	ENSP00000327763:R243Q	ENSP00000327763:R243Q	R	-	2	0	NLRP10	7939007	0.002000	0.14202	0.998000	0.56505	0.447000	0.32167	1.326000	0.33735	1.207000	0.43291	-0.140000	0.14226	CGG		0.552	NLRP10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385705.1	NM_176821		T	7982431	C	T	7982431	3	4	664	1	0	0	0	0	1	0	0	0	10479	652	23	1	1243	1	NLRP10	11	7982431	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1332406	7982431	127024085	546	41856										
SBF2	81846	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	9802030	9802030	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcactctgtccatcctgggCgcagaagttatacacacgtt	10	12	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:9802030C>T	ENST00000256190.8	-	40	5622	c.5485G>A	c.(5485-5487)Gcc>Acc	p.A1829T	SBF2-AS1_ENST00000527406.1_RNA|SBF2-AS1_ENST00000499953.2_RNA|SBF2-AS1_ENST00000525636.1_RNA|SBF2-AS1_ENST00000534671.1_RNA|SBF2-AS1_ENST00000498905.2_RNA	NM_030962.3	NP_112224.1	Q86WG5	MTMRD_HUMAN	SET binding factor 2	1829	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				cell death (GO:0008219)|myelination (GO:0042552)|positive regulation of Rab GTPase activity (GO:0032851)|protein tetramerization (GO:0051262)	membrane (GO:0016020)|vacuolar membrane (GO:0005774)	phosphatase activity (GO:0016791)|phosphatase regulator activity (GO:0019208)|phosphatidylinositol binding (GO:0035091)|Rab guanyl-nucleotide exchange factor activity (GO:0017112)	p.A1829T(1)		breast(4)|endometrium(8)|kidney(2)|large_intestine(8)|lung(16)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	48				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		CCATCCTGGGCGCAGAAGTTA	0.488																																																1	Substitution - Missense(1)	large_intestine(1)											141	119	127					11																	9802030		2201	4294	6495	SO:0001583	missense	81846			AB051553	CCDS31427.1	11p15.3	2014-09-17	2004-11-12	2004-11-12	ENSG00000133812	ENSG00000133812		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins", "DENN/MADD domain containing", "Pleckstrin homology (PH) domain containing"	2135	protein-coding gene	gene with protein product	"myotubularin related 13"	607697	"Charcot-Marie-Tooth neuropathy 4B2 (autosomal recessive, with myelin outfolding)", "DENN/MADD domain containing 7B"	CMT4B2		10644431	Standard	NM_030962		Approved	KIAA1766, MTMR13, DENND7B	uc001mib.2	Q86WG5	OTTHUMG00000165890	ENST00000256190.8:c.5485G>A	11.37:g.9802030C>T	ENSP00000256190:p.Ala1829Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MJF0|Q68DQ3|Q6P459|Q6PJD1|Q7Z325|Q7Z621|Q86VE2|Q96FE2|Q9C097	Missense_Mutation	SNP	ENST00000256190.8	37	CCDS31427.1	.	.	.	.	.	.	.	.	.	.	C	36	5.743529	0.96873	.	.	ENSG00000133812	ENST00000256190	T	0.27557	1.66	5.93	5.93	0.95920	Pleckstrin homology-type (1);Pleckstrin homology domain (3);	0.000000	0.85682	D	0.000000	T	0.64605	0.2613	M	0.87456	2.885	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.68599	-0.5366	10	0.87932	D	0	.	20.3409	0.98764	0.0:1.0:0.0:0.0	.	1829	Q86WG5	MTMRD_HUMAN	T	1829	ENSP00000256190:A1829T	ENSP00000256190:A1829T	A	-	1	0	SBF2	9758606	1.000000	0.71417	1.000000	0.80357	0.883000	0.51084	5.918000	0.69996	2.814000	0.96858	0.655000	0.94253	GCC		0.488	SBF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386911.2	NM_030962		T	9802030	C	T	9802030	3	4	664	1	0	0	0	0	1	0	0	0	13872	768	27	1	68	1	SBF2	11	9802030	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1819599	9802030	125204486	547	41857										
GALNTL4	374378	broad.mit.edu;mdanderson.org	37	chr11	11400665	11400665	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cacgtgggcatcaaagagtgCcaccacaggggcagtggccg	15	12	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:11400665C>T	ENST00000227756.4	-	4	1153	c.742G>A	c.(742-744)Gca>Aca	p.A248T		NM_198516.2	NP_940918.2	Q6P9A2	GLT18_HUMAN	polypeptide N-acetylgalactosaminyltransferase 18	248	Catalytic subdomain A.				protein glycosylation (GO:0006486)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)										TCAAAGAGTGCCACCACAGGG	0.607																																																0													68	59	62					11																	11400665		2201	4294	6495	SO:0001583	missense	374378			AK055111	CCDS7807.1	11p15	2014-03-13	2014-03-13	2013-01-25	ENSG00000110328	ENSG00000110328	2.4.1.41	"Glycosyltransferase family 2 domain containing"	30488	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 18"	615136	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase-like 4", "UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 18"	GALNTL4		22186971	Standard	NM_198516		Approved	MGC71806, GALNT15, GalNAc-T18	uc001mjo.2	Q6P9A2	OTTHUMG00000165707	ENST00000227756.4:c.742G>A	11.37:g.11400665C>T	ENSP00000227756:p.Ala248Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O95903|Q8NDY9	Missense_Mutation	SNP	ENST00000227756.4	37	CCDS7807.1	.	.	.	.	.	.	.	.	.	.	C	20.2	3.941178	0.73557	.	.	ENSG00000110328	ENST00000227756	T	0.61274	0.12	5.82	5.82	0.92795	Glycosyl transferase, family 2 (1);	0.066568	0.56097	D	0.000025	T	0.50292	0.1607	N	0.11284	0.12	0.80722	D	1	P	0.49447	0.924	P	0.55785	0.784	T	0.41698	-0.9494	10	0.02654	T	1	.	18.6715	0.91513	0.0:1.0:0.0:0.0	.	248	Q6P9A2	GLTL4_HUMAN	T	248	ENSP00000227756:A248T	ENSP00000227756:A248T	A	-	1	0	GALNTL4	11357241	1.000000	0.71417	0.999000	0.59377	0.863000	0.49368	7.760000	0.85248	2.762000	0.94881	0.514000	0.50259	GCA		0.607	GALNT18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385848.1	NM_198516		T	11400665	C	T	11400665	3	4	664	1	0	0	0	0	1	0	0	0	6230	739	26	2	1113	2	GALNTL4	11	11400665	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1598635	11400665	123605851	548	41858										
KCNC1	3746	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	17793281	17793281	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tctgcctggagacccacgagCgcttcaaccccatcgtgaac	9	16	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:17793281C>T	ENST00000379472.3	+	2	670	c.640C>T	c.(640-642)Cgc>Tgc	p.R214C	KCNC1_ENST00000265969.6_Missense_Mutation_p.R214C	NM_004976.4	NP_004967.1	P48547	KCNC1_HUMAN	potassium voltage-gated channel, Shaw-related subfamily, member 1	214					potassium ion transport (GO:0006813)|protein homooligomerization (GO:0051260)|synaptic transmission (GO:0007268)	plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|voltage-gated potassium channel activity (GO:0005249)			breast(1)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(9)|lung(7)|pancreas(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	33					Dalfampridine(DB06637)	GACCCACGAGCGCTTCAACCC	0.567																																																0													170	137	148					11																	17793281		2200	4293	6493	SO:0001583	missense	3746			M96747	CCDS7827.1, CCDS44547.1	11p15	2012-07-05			ENSG00000129159	ENSG00000129159		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6233	protein-coding gene	gene with protein product		176258				8449507, 16382104	Standard	NM_004976		Approved	Kv3.1	uc009yhc.1	P48547	OTTHUMG00000166359	ENST00000379472.3:c.640C>T	11.37:g.17793281C>T	ENSP00000368785:p.Arg214Cys	Somatic		WXS	Illumina HiSeq	Phase_I	K4DI87	Missense_Mutation	SNP	ENST00000379472.3	37	CCDS7827.1	.	.	.	.	.	.	.	.	.	.	C	19.29	3.799882	0.70567	.	.	ENSG00000129159	ENST00000265969;ENST00000379472	D;D	0.97430	-4.38;-4.38	4.7	3.75	0.43078	.	0.123303	0.48286	D	0.000188	D	0.93818	0.8023	N	0.14661	0.345	0.53688	D	0.99997	P;P	0.49358	0.923;0.896	P;B	0.48677	0.586;0.416	D	0.94079	0.7342	10	0.62326	D	0.03	.	11.9761	0.53091	0.3982:0.6018:0.0:0.0	.	214;214	Q3KNS8;P48547	.;KCNC1_HUMAN	C	214	ENSP00000265969:R214C;ENSP00000368785:R214C	ENSP00000265969:R214C	R	+	1	0	KCNC1	17749857	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.554000	0.60760	2.166000	0.68216	0.505000	0.49811	CGC		0.567	KCNC1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000389389.1	NM_004976		T	17793281	C	T	17793281	3	4	664	1	0	0	0	0	1	0	0	0	8021	768	27	1	646	1	KCNC1	11	17793281	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	6392616	17793281	117213235	549	41859										
SPTY2D1	144108	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	18636542	18636542	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acatgtaccactgactgtccGcctagagggatttgagtcat	10	10	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:18636542G>A	ENST00000336349.5	-	3	1514	c.1279C>T	c.(1279-1281)Cgg>Tgg	p.R427W	SPTY2D1_ENST00000543776.1_5'Flank	NM_194285.2	NP_919261.2	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1 (S. cerevisiae)	427	Ser-rich.									breast(4)|cervix(3)|endometrium(2)|kidney(3)|large_intestine(7)|lung(9)|skin(1)|stomach(1)	30						CTGACTGTCCGCCTAGAGGGA	0.582																																																0													94	89	91					11																	18636542		2199	4293	6492	SO:0001583	missense	144108			BX647798	CCDS31441.1	11p15.1	2005-10-28			ENSG00000179119	ENSG00000179119			26818	protein-coding gene	gene with protein product							Standard	NM_194285		Approved	FLJ39441, DKFZp686I068	uc001moy.3	Q68D10	OTTHUMG00000167733	ENST00000336349.5:c.1279C>T	11.37:g.18636542G>A	ENSP00000337991:p.Arg427Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6AWA5|Q6MZI5|Q7Z390|Q7Z470|Q86VG8|Q8N3E7|Q8N417|Q8N8I3	Missense_Mutation	SNP	ENST00000336349.5	37	CCDS31441.1	.	.	.	.	.	.	.	.	.	.	G	11.14	1.551665	0.27739	.	.	ENSG00000179119	ENST00000336349	T	0.32272	1.46	5.95	3.06	0.35304	.	0.651159	0.15755	N	0.246242	T	0.31451	0.0797	M	0.76328	2.33	0.09310	N	1	B	0.19817	0.039	B	0.08055	0.003	T	0.31668	-0.9935	10	0.66056	D	0.02	-0.1893	6.651	0.22961	0.1285:0.0:0.5147:0.3568	.	427	Q68D10	SPT2_HUMAN	W	427	ENSP00000337991:R427W	ENSP00000337991:R427W	R	-	1	2	SPTY2D1	18593118	0.011000	0.17503	0.043000	0.18650	0.749000	0.42624	1.693000	0.37742	0.402000	0.25451	0.563000	0.77884	CGG		0.582	SPTY2D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395941.1	NM_194285		A	18636542	G	A	18636542	3	1	664	1	0	0	0	0	1	0	0	0	15138	1086	38	1	794	1	SPTY2D1	11	18636542	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	843261	18636542	116369974	550	41860										
ZDHHC13	54503	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	19170818	19170818	+	Silent	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggagagggattcagcagcatCcacctggcagtattgtttca	12	9	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:19170818C>A	ENST00000446113.2	+	5	580	c.459C>A	c.(457-459)atC>atA	p.I153I	ZDHHC13_ENST00000532812.1_3'UTR|ZDHHC13_ENST00000399351.3_Silent_p.I23I	NM_019028.2	NP_061901.2	Q8IUH4	ZDH13_HUMAN	zinc finger, DHHC-type containing 13	153					metabolic process (GO:0008152)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|signal transduction (GO:0007165)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi-associated vesicle membrane (GO:0030660)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)	magnesium ion transmembrane transporter activity (GO:0015095)|palmitoyltransferase activity (GO:0016409)|protein-cysteine S-palmitoyltransferase activity (GO:0019706)|signal transducer activity (GO:0004871)|zinc ion binding (GO:0008270)			NS(1)|kidney(1)|lung(2)|skin(1)|upper_aerodigestive_tract(1)	6						TCAGCAGCATCCACCTGGCAG	0.403																																																0													93	82	85					11																	19170818		1910	4113	6023	SO:0001819	synonymous_variant	54503			AB024495	CCDS44550.1, CCDS44551.1	11p15.1	2013-01-10			ENSG00000177054	ENSG00000177054		"Zinc fingers, DHHC-type", "Ankyrin repeat domain containing"	18413	protein-coding gene	gene with protein product		612815				18794299	Standard	NM_001001483		Approved	FLJ10852, FLJ10941, HIP14L	uc001mpi.3	Q8IUH4	OTTHUMG00000166099	ENST00000446113.2:c.459C>A	11.37:g.19170818C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z2D3|Q86VK2|Q9NV30|Q9NV99	Silent	SNP	ENST00000446113.2	37	CCDS44550.1																																																																																				0.403	ZDHHC13-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387821.1	NM_019028		A	19170818	C	A	19170818	2	1	664	1	0	0	0	0	0	0	0	1	17615	845	30	4		4	ZDHHC13	11	19170818	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	534276	19170818	115835698	551	41861										
KIF18A	81930	broad.mit.edu;mdanderson.org	37	chr11	28110079	28110079	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tataatgcctacctttgaatCtgctaaggcattgatgacat	7	8	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:28110079C>G	ENST00000263181.6	-	6	1179	c.889G>C	c.(889-891)Gat>Cat	p.D297H		NM_031217.3	NP_112494.3	Q8NI77	KI18A_HUMAN	kinesin family member 18A	297	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|blood coagulation (GO:0007596)|metabolic process (GO:0008152)|microtubule depolymerization (GO:0007019)|microtubule-based movement (GO:0007018)|mitotic cell cycle (GO:0000278)|mitotic metaphase plate congression (GO:0007080)|protein transport (GO:0015031)	caveola (GO:0005901)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinesin complex (GO:0005871)|kinetochore microtubule (GO:0005828)|microtubule cytoskeleton (GO:0015630)|nucleus (GO:0005634)|ruffle (GO:0001726)	actin binding (GO:0003779)|ATP binding (GO:0005524)|microtubule binding (GO:0008017)|microtubule plus-end binding (GO:0051010)|plus-end-directed microtubule motor activity (GO:0008574)|tubulin-dependent ATPase activity (GO:0070463)|ubiquitin binding (GO:0043130)			breast(2)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(10)|ovary(3)|prostate(1)|skin(1)|urinary_tract(2)	36						ACCTTTGAATCTGCTAAGGCA	0.328																																																0													66	60	62					11																	28110079		2202	4299	6501	SO:0001583	missense	81930			AL136819	CCDS7867.1	11p14.1	2014-06-12			ENSG00000121621	ENSG00000121621		"Kinesins"	29441	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 99"	611271				11230166	Standard	NM_031217		Approved	DKFZP434G2226, PPP1R99	uc001msc.2	Q8NI77	OTTHUMG00000166195	ENST00000263181.6:c.889G>C	11.37:g.28110079C>G	ENSP00000263181:p.Asp297His	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VPE3|Q86VS5|Q9H0F3	Missense_Mutation	SNP	ENST00000263181.6	37	CCDS7867.1	.	.	.	.	.	.	.	.	.	.	C	12.76	2.033272	0.35893	.	.	ENSG00000121621	ENST00000263181	T	0.75938	-0.98	5.56	3.68	0.42216	Kinesin, motor domain (3);	0.093895	0.64402	D	0.000001	D	0.86789	0.6017	M	0.89287	3.02	0.51012	D	0.9999	D	0.71674	0.998	D	0.71414	0.973	D	0.88015	0.2765	10	0.87932	D	0	.	12.4601	0.55727	0.0:0.8619:0.0:0.1381	.	297	Q8NI77	KI18A_HUMAN	H	297	ENSP00000263181:D297H	ENSP00000263181:D297H	D	-	1	0	KIF18A	28066655	1.000000	0.71417	1.000000	0.80357	0.081000	0.17604	4.062000	0.57492	0.695000	0.31675	-0.229000	0.12294	GAT		0.328	KIF18A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388328.3	NM_031217		G	28110079	C	G	28110079	3	3	664	1	0	0	0	0	1	0	0	0	8287	913	32	4	1855	4	KIF18A	11	28110079	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	8939261	28110079	106896437	552	41862										
FBXO3	26273	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr11	33770354	33770354	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggtccttgaacttcttccacGtcacccttagcatttgttat	6	12	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:33770354G>A	ENST00000265651.3	-	9	1035	c.1017C>T	c.(1015-1017)gaC>gaT	p.D339D	FBXO3_ENST00000534136.1_Silent_p.D339D|FBXO3_ENST00000531080.1_Silent_p.D26D|FBXO3_ENST00000532057.1_Silent_p.D26D|FBXO3_ENST00000448981.2_Silent_p.D339D|FBXO3_ENST00000530401.1_Silent_p.D334D|FBXO3_ENST00000526785.1_Silent_p.D226D	NM_012175.3	NP_036307.2	Q9UK99	FBX3_HUMAN	F-box protein 3	339	ApaG. {ECO:0000255|PROSITE- ProRule:PRU00412}.				proteolysis (GO:0006508)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ubiquitin-protein transferase activity (GO:0004842)			NS(1)|breast(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(2)|pancreas(1)|stomach(1)	13		Lung NSC(402;0.0804)		BRCA - Breast invasive adenocarcinoma(625;0.00315)|Lung(977;0.00488)|LUSC - Lung squamous cell carcinoma(625;0.008)		CTTCTTCCACGTCACCCTTAG	0.403																																																0													117	113	114					11																	33770354		2202	4298	6500	SO:0001819	synonymous_variant	26273			AK001943	CCDS7887.1, CCDS44566.1	11p13	2006-07-07	2004-06-15		ENSG00000110429	ENSG00000110429		"F-boxes /  "other""	13582	protein-coding gene	gene with protein product		609089	"F-box only protein 3"			10531037	Standard	NM_033406		Approved	FBX3, FBA	uc001muz.3	Q9UK99	OTTHUMG00000166244	ENST00000265651.3:c.1017C>T	11.37:g.33770354G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KY16|D3DR05|Q86X90|Q9H0V2|Q9NUX2	Silent	SNP	ENST00000265651.3	37	CCDS7887.1																																																																																				0.403	FBXO3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388665.1	NM_012175		A	33770354	G	A	33770354	2	1	664	1	0	0	0	0	0	0	0	1	5746	1136	40	1		1	FBXO3	11	33770354	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5660275	33770354	101236162	553	41863										
ABTB2	25841	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	34192538	34192538	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcctcccacagttgagcatgCggaaacccaggtcctggttg	11	13	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:34192538C>T	ENST00000435224.2	-	5	1902	c.1478G>A	c.(1477-1479)cGc>cAc	p.R493H	ABTB2_ENST00000298992.2_Missense_Mutation_p.R307H|ABTB2_ENST00000530814.1_5'Flank	NM_145804.2	NP_665803.2	Q8N961	ABTB2_HUMAN	ankyrin repeat and BTB (POZ) domain containing 2	493					cellular response to toxic substance (GO:0097237)	nucleus (GO:0005634)				breast(2)|central_nervous_system(2)|endometrium(4)|kidney(2)|large_intestine(1)|lung(6)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	25		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(20;0.0691)				GTTGAGCATGCGGAAACCCAG	0.562																																																0													109	87	95					11																	34192538		2202	4298	6500	SO:0001583	missense	25841			AK056863	CCDS7890.1, CCDS7890.2	11p13	2013-10-02			ENSG00000166016	ENSG00000166016		"BTB/POZ domain containing", "Ankyrin repeat domain containing"	23842	protein-coding gene	gene with protein product							Standard	NM_145804		Approved	DKFZP586C1619, BTBD22, ABTB2A	uc001mvl.2	Q8N961	OTTHUMG00000044382	ENST00000435224.2:c.1478G>A	11.37:g.34192538C>T	ENSP00000410157:p.Arg493His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6S9|E9PRW7|Q52LD6|Q6MZW4|Q8NB44	Missense_Mutation	SNP	ENST00000435224.2	37	CCDS7890.2	.	.	.	.	.	.	.	.	.	.	C	34	5.350737	0.95830	.	.	ENSG00000166016	ENST00000435224;ENST00000298992	T;T	0.62105	0.06;0.05	5.03	5.03	0.67393	.	0.000000	0.85682	D	0.000000	T	0.74974	0.3787	L	0.45698	1.435	0.80722	D	1	D	0.76494	0.999	D	0.85130	0.997	T	0.77341	-0.2624	10	0.66056	D	0.02	.	18.3507	0.90337	0.0:1.0:0.0:0.0	.	307	Q8N961	ABTB2_HUMAN	H	493;307	ENSP00000410157:R493H;ENSP00000298992:R307H	ENSP00000298992:R307H	R	-	2	0	ABTB2	34149114	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.818000	0.86416	2.329000	0.79093	0.491000	0.48974	CGC		0.562	ABTB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388703.3	NM_145804		T	34192538	C	T	34192538	3	4	664	1	0	0	0	0	1	0	0	0	103	768	27	1	1651	1	ABTB2	11	34192538	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	422184	34192538	100813978	554	41864										
LRP4	4038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	46911059	46911059	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cacaggtgcgtgcagcctccGttgttgtccccacagcggtt	12	14	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:46911059G>A	ENST00000378623.1	-	16	2360	c.2118C>T	c.(2116-2118)aaC>aaT	p.N706N		NM_002334.3	NP_002325.2	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein 4	706	EGF-like 3.				dendrite morphogenesis (GO:0048813)|dorsal/ventral pattern formation (GO:0009953)|embryonic digit morphogenesis (GO:0042733)|endocytosis (GO:0006897)|extracellular matrix organization (GO:0030198)|hair follicle development (GO:0001942)|kidney development (GO:0001822)|limb development (GO:0060173)|negative regulation of axonogenesis (GO:0050771)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of ossification (GO:0030279)|odontogenesis of dentin-containing tooth (GO:0042475)|positive regulation of presynaptic membrane organization (GO:1901631)|postsynaptic membrane assembly (GO:0097104)|presynaptic membrane assembly (GO:0097105)|protein heterotetramerization (GO:0051290)|proximal/distal pattern formation (GO:0009954)|regulation of protein phosphorylation (GO:0001932)|skeletal muscle acetylcholine-gated channel clustering (GO:0071340)|synapse organization (GO:0050808)|synaptic growth at neuromuscular junction (GO:0051124)|Wnt signaling pathway (GO:0016055)	cell surface (GO:0009986)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|neuromuscular junction (GO:0031594)|neuronal cell body (GO:0043025)|postsynaptic density (GO:0014069)|synaptic membrane (GO:0097060)	calcium ion binding (GO:0005509)|receptor tyrosine kinase binding (GO:0030971)|scaffold protein binding (GO:0097110)			breast(7)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(13)|lung(24)|ovary(3)|pancreas(2)|prostate(5)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)	70				Lung(87;0.159)		TGCAGCCTCCGTTGTTGTCCC	0.587											OREG0020948	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													75	72	73					11																	46911059		2201	4299	6500	SO:0001819	synonymous_variant	4038			AB011540	CCDS31478.1	11p11.2	2013-05-29			ENSG00000134569	ENSG00000134569		"Low density lipoprotein receptors"	6696	protein-coding gene	gene with protein product		604270				9693030	Standard	NM_002334		Approved	MEGF7, CLSS, LRP-4, SOST2	uc001ndn.4	O75096	OTTHUMG00000166700	ENST00000378623.1:c.2118C>T	11.37:g.46911059G>A		Somatic	942	WXS	Illumina HiSeq	Phase_I	B2RN39|Q4AC85|Q5KTZ5	Silent	SNP	ENST00000378623.1	37	CCDS31478.1																																																																																				0.587	LRP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391133.1	NM_002334		A	46911059	G	A	46911059	2	1	664	1	0	0	0	0	0	0	0	1	8966	1136	40	1		1	LRP4	11	46911059	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	12718521	46911059	88095457	555	41865										
GLYATL1	92292	broad.mit.edu;bcgsc.ca	37	chr11	58711065	58711065	+	5'UTR	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcttctagtatccccaggagCgcgaagtgaacacggaaggt	13	10	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:58711065C>T	ENST00000317391.4	+	0	224				GLYATL1_ENST00000300079.5_Missense_Mutation_p.A25V|RP11-142C4.6_ENST00000533954.1_RNA	NM_001220494.1	NP_001207423.1	Q969I3	GLYL1_HUMAN	glycine-N-acyltransferase-like 1							mitochondrion (GO:0005739)	glutamine N-acyltransferase activity (GO:0047946)|glycine N-acyltransferase activity (GO:0047961)			NS(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(19)|ovary(1)|skin(4)|urinary_tract(1)	34					Glycine(DB00145)	tccccaggagcgcgaagtgaa	0.443																																																0													57	53	54					11																	58711065		2201	4295	6496	SO:0001623	5_prime_UTR_variant	92292			AK091965	CCDS31556.1, CCDS55768.1	11q12.1	2014-08-12			ENSG00000166840	ENSG00000166840			30519	protein-coding gene	gene with protein product		614761				12477932	Standard	NM_080661		Approved	MGC15397, FLJ34646	uc001nnh.2	Q969I3	OTTHUMG00000167221	ENST00000317391.4:c.-117C>T	11.37:g.58711065C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NDT0|Q7Z510|Q8NAW8	Missense_Mutation	SNP	ENST00000317391.4	37	CCDS55768.1	.	.	.	.	.	.	.	.	.	.	.	6.405	0.442787	0.12164	.	.	ENSG00000166840	ENST00000526351;ENST00000300079	T;T	0.52526	0.66;2.03	0.113	0.113	0.14631	.	.	.	.	.	T	0.18425	0.0442	N	0.08118	0	0.09310	N	0.999999	P	0.47841	0.901	B	0.29176	0.099	T	0.14144	-1.0483	8	0.87932	D	0	.	.	.	.	.	25	Q969I3-2	.	V	17;25	ENSP00000434652:A17V;ENSP00000300079:A25V	ENSP00000300079:A25V	A	+	2	0	GLYATL1	58467641	0.006000	0.16342	0.018000	0.16275	0.019000	0.09904	0.212000	0.17497	0.183000	0.20059	0.186000	0.17326	GCG		0.443	GLYATL1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393783.1	NM_080661		T	58711065	C	T	58711065	1	4	664	0	1	0	0	0	0	0	0	0	6487	768	27	1		1	GLYATL1	11	58711065	5'UTR	SNP	C	TCGA-KN-8428-01A-11D-2310-10	11800006	58711065	76295451	556	41866										
MS4A15	219995	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	60535105	60535105	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcttcttcatcgagggcggcGtccccttctggggaggagcc	14	13	4	0	rs76307175	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:60535105G>A	ENST00000405633.3	+	3	404	c.325G>A	c.(325-327)Gtc>Atc	p.V109I	MS4A15_ENST00000528170.1_Intron|MS4A15_ENST00000337911.4_Missense_Mutation_p.V16I	NM_001098835.1	NP_001092305.1	Q8N5U1	M4A15_HUMAN	membrane-spanning 4-domains, subfamily A, member 15	109						integral component of membrane (GO:0016021)				breast(1)|large_intestine(2)|lung(3)	6						CGAGGGCGGCGTCCCCTTCTG	0.682													G|||	20	0.00399361	0.0	0.0072	5008	,	,		13559	0.001		0.0139	False		,,,				2504	0.0															0								G	ILE/VAL,ILE/VAL	6,4334		0,6,2164	30	23	25		325,46	2.8	0.9	11	dbSNP_134	25	42,8438		0,42,4198	yes	missense,missense	MS4A15	NM_001098835.1,NM_152717.2	29,29	0,48,6362	AA,AG,GG		0.4953,0.1382,0.3744	benign,benign	109/241,16/148	60535105	48,12772	2170	4240	6410	SO:0001583	missense	219995			AY584608	CCDS7991.1, CCDS44617.1, CCDS60802.1	11q12.2	2008-03-25							28573	protein-coding gene	gene with protein product							Standard	NM_001098835		Approved		uc009ynf.1	Q8N5U1		ENST00000405633.3:c.325G>A	11.37:g.60535105G>A	ENSP00000386022:p.Val109Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A9UJY6|A9UJY7|F2Z2J5	Missense_Mutation	SNP	ENST00000405633.3	37	CCDS44617.1	12	0.005494505494505495	0	0.0	1	0.0027624309392265192	0	0.0	11	0.014511873350923483	G	10.69	1.420060	0.25552	0.001382	0.004953	ENSG00000166961	ENST00000337911;ENST00000405633	T;T	0.02323	4.34;4.34	4.93	2.75	0.32379	.	0.320649	0.30311	N	0.009907	T	0.01092	0.0036	N	0.11106	0.095	0.29717	N	0.838982	B	0.24368	0.102	B	0.26693	0.072	T	0.38585	-0.9654	10	0.27082	T	0.32	-50.2615	3.8604	0.08993	0.1587:0.2552:0.5861:0.0	.	109	Q8N5U1	M4A15_HUMAN	I	16;109	ENSP00000338692:V16I;ENSP00000386022:V109I	ENSP00000338692:V16I	V	+	1	0	MS4A15	60291681	0.978000	0.34361	0.914000	0.36105	0.562000	0.35680	1.994000	0.40757	1.052000	0.40392	0.561000	0.74099	GTC		0.682	MS4A15-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395618.1			A	60535105	G	A	60535105	3	1	664	1	0	0	0	0	1	0	0	0	9866	1145	40	1	331	1	MS4A15	11	60535105	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1824040	60535105	74471411	557	41867										
TMEM109	79073	hgsc.bcm.edu;mdanderson.org	37	chr11	60689599	60689599	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agctgcgctggcgccagaggCgagcggccaagggggcccgc	19	14	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:60689599C>T	ENST00000227525.3	+	4	1097	c.694C>T	c.(694-696)Cga>Tga	p.R232*	RP11-881M11.4_ENST00000543907.1_RNA|TMEM132A_ENST00000453848.2_5'Flank|TMEM132A_ENST00000005286.4_5'Flank|TMEM109_ENST00000536171.1_Nonsense_Mutation_p.R232*	NM_024092.2	NP_076997.1	Q9BVC6	TM109_HUMAN	transmembrane protein 109	232					cellular response to gamma radiation (GO:0071480)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|negative regulation of cell death (GO:0060548)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|sarcoplasmic reticulum (GO:0016529)				central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(1)|ovary(1)|skin(1)	8						GCGCCAGAGGCGAGCGGCCAA	0.692																																																0																																										SO:0001587	stop_gained	79073				CCDS7996.1	11q12.2	2005-12-22				ENSG00000110108			28771	protein-coding gene	gene with protein product						8619474, 9110174	Standard	NM_024092		Approved	MGC5508	uc001nqg.3	Q9BVC6		ENST00000227525.3:c.694C>T	11.37:g.60689599C>T	ENSP00000227525:p.Arg232*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000227525.3	37	CCDS7996.1	.	.	.	.	.	.	.	.	.	.	C	22.6	4.307184	0.81247	.	.	ENSG00000110108	ENST00000227525;ENST00000536171	.	.	.	5.05	4.05	0.47172	.	0.000000	0.64402	D	0.000009	.	.	.	.	.	.	0.47183	D	0.999345	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-36.6751	8.9868	0.35999	0.1609:0.751:0.0:0.0881	.	.	.	.	X	232	.	ENSP00000227525:R232X	R	+	1	2	TMEM109	60446175	0.920000	0.31207	0.993000	0.49108	0.983000	0.72400	1.480000	0.35464	2.344000	0.79699	0.650000	0.86243	CGA		0.692	TMEM109-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396343.1	NM_024092		T	60689599	C	T	60689599	4	4	664	1	0	0	0	0	0	1	0	0	16037	760	27	1	704	1	TMEM109	11	60689599	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	154494	60689599	74316917	558	41868										
VPS37C	55048	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	60899839	60899839	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcgcaccgggggtggtggaCggggtggaggggcatcgccg	24	9	0	0	rs375223987		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:60899839C>T	ENST00000301765.5	-	5	753	c.521G>A	c.(520-522)cGt>cAt	p.R174H		NM_017966.4	NP_060436.4	A5D8V6	VP37C_HUMAN	vacuolar protein sorting 37 homolog C (S. cerevisiae)	174	Pro-rich.				endosomal transport (GO:0016197)|intracellular transport of virus (GO:0075733)|membrane organization (GO:0061024)|protein transport (GO:0015031)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral protein processing (GO:0019082)|virion assembly (GO:0019068)	endosome membrane (GO:0010008)|ESCRT I complex (GO:0000813)|extracellular vesicular exosome (GO:0070062)				breast(1)|kidney(1)|large_intestine(3)|lung(1)|skin(1)	7						GGGTGGTGGACGGGGTGGAGG	0.672																																																0								C	HIS/ARG	0,4392		0,0,2196	12	15	14		521	3.7	0.1	11		14	1,8559		0,1,4279	no	missense	VPS37C	NM_017966.4	29	0,1,6475	TT,TC,CC		0.0117,0.0,0.0077	probably-damaging	174/356	60899839	1,12951	2196	4280	6476	SO:0001583	missense	55048			AK097326	CCDS31573.1	11q12.2	2008-02-05	2006-04-04			ENSG00000167987			26097	protein-coding gene	gene with protein product		610038	"vacuolar protein sorting 37C (yeast)"			15509564	Standard	XM_005274077		Approved	FLJ20847	uc001nqv.1	A5D8V6		ENST00000301765.5:c.521G>A	11.37:g.60899839C>T	ENSP00000301765:p.Arg174His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3K4	Missense_Mutation	SNP	ENST00000301765.5	37	CCDS31573.1	.	.	.	.	.	.	.	.	.	.	C	6.830	0.522243	0.13066	0.0	1.17E-4	ENSG00000167987	ENST00000301765;ENST00000540084	T	0.46451	0.87	4.71	3.67	0.42095	.	0.814749	0.11502	N	0.557626	T	0.21307	0.0513	L	0.27053	0.805	0.09310	N	1	P	0.45715	0.865	B	0.36504	0.226	T	0.04693	-1.0933	10	0.15066	T	0.55	-15.5277	2.6626	0.05031	0.0:0.4542:0.31:0.2359	.	174	A5D8V6	VP37C_HUMAN	H	174	ENSP00000301765:R174H	ENSP00000301765:R174H	R	-	2	0	VPS37C	60656415	0.000000	0.05858	0.123000	0.21794	0.470000	0.32858	0.020000	0.13466	2.165000	0.68154	0.462000	0.41574	CGT		0.672	VPS37C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396467.1	NM_017966		T	60899839	C	T	60899839	3	4	664	1	0	0	0	0	1	0	0	0	17219	536	19	1	550	1	VPS37C	11	60899839	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	210240	60899839	74106677	559	41869										
DDB1	1642	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr11	61081572	61081572	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagagggcaacttcaagataCgagccgagatgtccgtccag	12	10	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:61081572C>T	ENST00000301764.7	-	14	2097	c.1700G>A	c.(1699-1701)cGt>cAt	p.R567H	DDB1_ENST00000545930.1_5'Flank|DDB1_ENST00000450997.2_Intron	NM_001923.4	NP_001914.3	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1, 127kDa	567	Interaction with CDT1.|WD repeat beta-propeller B; Interaction with CUL4A.				DNA repair (GO:0006281)|histone H2A monoubiquitination (GO:0035518)|negative regulation of apoptotic process (GO:0043066)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair, DNA damage removal (GO:0000718)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|regulation of mitotic cell cycle phase transition (GO:1901990)|UV-damage excision repair (GO:0070914)|viral process (GO:0016032)|Wnt signaling pathway (GO:0016055)	Cul4-RING E3 ubiquitin ligase complex (GO:0080008)|Cul4A-RING E3 ubiquitin ligase complex (GO:0031464)|Cul4B-RING E3 ubiquitin ligase complex (GO:0031465)|cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(7)|lung(22)|ovary(2)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	48						CTTCAAGATACGAGCCGAGAT	0.507								Nucleotide excision repair (NER)																																								0													92	95	94					11																	61081572		2203	4299	6502	SO:0001583	missense	1642			AJ002955	CCDS31576.1	11q12-q13	2014-09-17	2002-08-29		ENSG00000167986	ENSG00000167986			2717	protein-coding gene	gene with protein product		600045	"damage-specific DNA binding protein 1 (127kD)"			8530102, 10574459	Standard	NM_001923		Approved	XPE	uc001nrc.5	Q16531	OTTHUMG00000168209	ENST00000301764.7:c.1700G>A	11.37:g.61081572C>T	ENSP00000301764:p.Arg567His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NG77|B2R648|B4DG00|O15176|Q13289|Q58F96	Missense_Mutation	SNP	ENST00000301764.7	37	CCDS31576.1	.	.	.	.	.	.	.	.	.	.	C	19.23	3.787793	0.70337	.	.	ENSG00000167986	ENST00000301764;ENST00000535147;ENST00000537877;ENST00000535967;ENST00000539739	T;T;T	0.52526	1.17;0.7;0.66	5.84	5.84	0.93424	WD40/YVTN repeat-like-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.48429	0.1499	L	0.60957	1.885	0.80722	D	1	P	0.38455	0.632	B	0.34722	0.188	T	0.50508	-0.8820	10	0.52906	T	0.07	-12.6831	20.1379	0.98040	0.0:1.0:0.0:0.0	.	567	Q16531	DDB1_HUMAN	H	567;34;131;218;286	ENSP00000301764:R567H;ENSP00000437713:R218H;ENSP00000445563:R286H	ENSP00000301764:R567H	R	-	2	0	DDB1	60838148	1.000000	0.71417	0.839000	0.33178	0.920000	0.55202	7.370000	0.79589	2.779000	0.95612	0.655000	0.94253	CGT		0.507	DDB1-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398816.1	NM_001923		T	61081572	C	T	61081572	3	4	664	1	0	0	0	0	1	0	0	0	4325	536	19	1	1778	1	DDB1	11	61081572	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	181733	61081572	73924944	560	41870										
DAGLA	747	hgsc.bcm.edu	37	chr11	61511437	61511437	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtggcggcgtcactcctgagCggccccccagtgctgcggcc	15	17	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:61511437C>T	ENST00000257215.5	+	20	2721	c.2605C>T	c.(2605-2607)Cgg>Tgg	p.R869W	RP11-467L20.10_ENST00000536405.1_lincRNA	NM_006133.2	NP_006124.1	Q9Y4D2	DGLA_HUMAN	diacylglycerol lipase, alpha	869					arachidonic acid metabolic process (GO:0019369)|blood coagulation (GO:0007596)|cell death (GO:0008219)|diacylglycerol catabolic process (GO:0046340)|endocannabinoid signaling pathway (GO:0071926)|neuroblast proliferation (GO:0007405)|neurotransmitter biosynthetic process (GO:0042136)|platelet activation (GO:0030168)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	hydrolase activity (GO:0016787)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(4)|liver(2)|lung(17)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(4)	43				READ - Rectum adenocarcinoma(4;0.219)		CACTCCTGAGCGGCCCCCCAG	0.731																																																0													27	36	33					11																	61511437		2165	4215	6380	SO:0001583	missense	747			AB014559	CCDS31578.1	11q12.3	2008-03-18	2007-02-28	2007-02-28		ENSG00000134780	3.1.1.-		1165	protein-coding gene	gene with protein product	"neural stem cell-derived dendrite regulator"	614015	"chromosome 11 open reading frame 11"	C11orf11		9734811	Standard	NM_006133		Approved	KIAA0659, NSDDR, DAGLALPHA	uc001nsa.3	Q9Y4D2		ENST00000257215.5:c.2605C>T	11.37:g.61511437C>T	ENSP00000257215:p.Arg869Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A7E233|Q6WQJ0	Missense_Mutation	SNP	ENST00000257215.5	37	CCDS31578.1	.	.	.	.	.	.	.	.	.	.	C	14.01	2.408759	0.42715	.	.	ENSG00000134780	ENST00000257215	T	0.24723	1.84	3.21	2.27	0.28462	.	0.599264	0.16232	N	0.223561	T	0.15132	0.0365	N	0.14661	0.345	0.41869	D	0.990266	D	0.69078	0.997	B	0.44315	0.446	T	0.04915	-1.0918	10	0.72032	D	0.01	-24.8238	6.5939	0.22661	0.18:0.7248:0.0:0.0952	.	869	Q9Y4D2	DGLA_HUMAN	W	869	ENSP00000257215:R869W	ENSP00000257215:R869W	R	+	1	2	DAGLA	61268013	1.000000	0.71417	0.999000	0.59377	0.935000	0.57460	4.100000	0.57762	0.899000	0.36444	0.561000	0.74099	CGG		0.731	DAGLA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398516.1	NM_006133		T	61511437	C	T	61511437	3	4	664	1	0	0	0	0	1	0	0	0	4228	759	27	1	2679	1	DAGLA	11	61511437	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	429865	61511437	73495079	561	41871										
INCENP	3619	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	61906227	61906227	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaggaggctgagcctgtggcGgcagctgagccagaggtaag	19	8	0	3	rs562346092	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:61906227G>A	ENST00000394818.3	+	6	1360	c.1158G>A	c.(1156-1158)gcG>gcA	p.A386A	INCENP_ENST00000278849.4_Silent_p.A386A	NM_001040694.1	NP_001035784.1	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	386					chromosome segregation (GO:0007059)|cytokinesis (GO:0000910)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	central element (GO:0000801)|chromocenter (GO:0010369)|chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|kinetochore (GO:0000776)|lateral element (GO:0000800)|microtubule (GO:0005874)|midbody (GO:0030496)|pericentric heterochromatin (GO:0005721)|protein complex (GO:0043234)|spindle (GO:0005819)				breast(1)|endometrium(1)|kidney(6)|large_intestine(2)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	19						AGCCTGTGGCGGCAGCTGAGC	0.637													G|||	2	0.000399361	0.0	0.0	5008	,	,		16788	0.0		0.0	False		,,,				2504	0.002															0													49	54	52					11																	61906227		2202	4299	6501	SO:0001819	synonymous_variant	3619			AF282265	CCDS31582.1, CCDS44624.1	11q12.3	2013-01-17	2002-08-29		ENSG00000149503	ENSG00000149503			6058	protein-coding gene	gene with protein product		604411	"inner centromere protein antigens (135kD, 155kD)"			1860899, 11453556	Standard	NM_001040694		Approved	FLJ31633	uc001nsw.1	Q9NQS7	OTTHUMG00000167470	ENST00000394818.3:c.1158G>A	11.37:g.61906227G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MQD2|Q5Y192	Silent	SNP	ENST00000394818.3	37	CCDS44624.1																																																																																				0.637	INCENP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000394723.2	NM_020238		A	61906227	G	A	61906227	2	1	664	1	0	0	0	0	0	0	0	1	7740	1103	39	1		1	INCENP	11	61906227	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	394790	61906227	73100289	562	41872										
AHNAK	79026	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr11	62286931	62286931	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gacttgatgtcagctttgggGctttttgccccaaatccaaa	9	10	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:62286931G>A	ENST00000378024.4	-	5	15232	c.14958C>T	c.(14956-14958)agC>agT	p.S4986S	AHNAK_ENST00000257247.7_Intron|AHNAK_ENST00000525875.1_5'Flank|AHNAK_ENST00000530124.1_Intron	NM_001620.1	NP_001611.1	Q09666	AHNK_HUMAN	AHNAK nucleoprotein	4986					protein oligomerization (GO:0051259)|regulation of RNA splicing (GO:0043484)|regulation of voltage-gated calcium channel activity (GO:1901385)	actin cytoskeleton (GO:0015629)|cell-cell contact zone (GO:0044291)|costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|vesicle (GO:0031982)	poly(A) RNA binding (GO:0044822)|S100 protein binding (GO:0044548)|structural molecule activity conferring elasticity (GO:0097493)			NS(3)|autonomic_ganglia(1)|breast(10)|central_nervous_system(5)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(33)|large_intestine(40)|liver(1)|lung(108)|ovary(13)|pancreas(4)|prostate(5)|skin(16)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(6)	268		Melanoma(852;0.155)				CAGCTTTGGGGCTTTTTGCCC	0.458																																																0													85	91	89					11																	62286931		2202	4299	6501	SO:0001819	synonymous_variant	79026			M80899	CCDS31584.1, CCDS44625.1	11q12-q13	2008-02-05	2007-03-30		ENSG00000124942	ENSG00000124942			347	protein-coding gene	gene with protein product	"desmoyokin"	103390	"AHNAK nucleoprotein (desmoyokin)"			7987395, 12153988	Standard	NM_024060		Approved	MGC5395	uc001ntl.3	Q09666	OTTHUMG00000167558	ENST00000378024.4:c.14958C>T	11.37:g.62286931G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A1A586	Silent	SNP	ENST00000378024.4	37	CCDS31584.1																																																																																				0.458	AHNAK-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395572.1	NM_024060		A	62286931	G	A	62286931	2	1	664	1	0	0	0	0	0	0	0	1	414	1194	42	2		2	AHNAK	11	62286931	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	380704	62286931	72719585	563	41873										
WDR74	54663	broad.mit.edu;mdanderson.org	37	chr11	62601996	62601996	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggatgctggatcataaacacGgacctagaggaaggctgaag	14	7	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:62601996G>A	ENST00000525239.1	-	8	1159	c.622C>T	c.(622-624)Cgt>Tgt	p.R208C	STX5_ENST00000394690.1_5'Flank|WDR74_ENST00000525752.1_Missense_Mutation_p.R151C|WDR74_ENST00000540620.1_5'Flank|STX5_ENST00000377897.4_5'Flank|STX5_ENST00000541317.1_5'Flank|RP11-727F15.9_ENST00000535817.1_RNA|WDR74_ENST00000278856.4_Missense_Mutation_p.R208C|WDR74_ENST00000529106.1_Missense_Mutation_p.R208C|RP11-727F15.9_ENST00000535867.1_RNA|STX5_ENST00000294179.3_5'Flank|WDR74_ENST00000311713.7_Missense_Mutation_p.R208C			Q6RFH5	WDR74_HUMAN	WD repeat domain 74	208					blastocyst formation (GO:0001825)|RNA metabolic process (GO:0016070)	nucleolus (GO:0005730)|nucleus (GO:0005634)				kidney(2)|large_intestine(1)|liver(1)|lung(3)|ovary(1)	8						TCATAAACACGGACCTAGAGG	0.572																																																0													39	44	43					11																	62601996		2056	4210	6266	SO:0001583	missense	54663				CCDS44630.1	11q12.3	2013-01-09				ENSG00000133316		"WD repeat domain containing"	25529	protein-coding gene	gene with protein product							Standard	NM_018093		Approved	FLJ10439	uc001nvm.2	Q6RFH5		ENST00000525239.1:c.622C>T	11.37:g.62601996G>A	ENSP00000432119:p.Arg208Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8G5|Q9BRC9|Q9H6X8|Q9NVY2	Missense_Mutation	SNP	ENST00000525239.1	37	CCDS44630.1	.	.	.	.	.	.	.	.	.	.	G	15.83	2.950333	0.53186	.	.	ENSG00000133316	ENST00000311713;ENST00000529106;ENST00000525239;ENST00000278856;ENST00000525752	T;T;T;T;T	0.33216	1.42;1.42;1.42;1.42;1.42	3.95	3.02	0.34903	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);	0.202885	0.38837	N	0.001555	T	0.52419	0.1733	M	0.83953	2.67	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.66497	0.944;0.919;0.944	T	0.55611	-0.8114	10	0.87932	D	0	-0.5544	8.9454	0.35756	0.0:0.0:0.5992:0.4008	.	151;208;208	E9PS41;Q6RFH5;Q6RFH5-2	.;WDR74_HUMAN;.	C	208;208;208;208;151	ENSP00000308931:R208C;ENSP00000435726:R208C;ENSP00000432119:R208C;ENSP00000278856:R208C;ENSP00000432113:R151C	ENSP00000278856:R208C	R	-	1	0	WDR74	62358572	1.000000	0.71417	1.000000	0.80357	0.736000	0.42039	3.834000	0.55798	0.835000	0.34877	0.313000	0.20887	CGT		0.572	WDR74-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395678.1	NM_018093		A	62601996	G	A	62601996	3	1	664	1	0	0	0	0	1	0	0	0	17336	1116	39	1	555	1	WDR74	11	62601996	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	315065	62601996	72404520	564	41874										
CCDC88B	283234	broad.mit.edu	37	chr11	64120286	64120286	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccctgctggcagagcgtgaaCgcctgatgcaagatgggcat	14	11	0	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:64120286C>T	ENST00000356786.5	+	20	3471	c.3427C>T	c.(3427-3429)Cgc>Tgc	p.R1143C	CCDC88B_ENST00000359902.2_Missense_Mutation_p.R295C|CCDC88B_ENST00000463837.1_3'UTR|CCDC88B_ENST00000301897.4_5'UTR	NM_032251.5	NP_115627.6	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88B	1143						membrane (GO:0016020)				endometrium(1)|kidney(2)|large_intestine(1)|lung(12)|ovary(3)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	27						AGAGCGTGAACGCCTGATGCA	0.682																																																0													24	28	26					11																	64120286		2199	4295	6494	SO:0001583	missense	283234			AK090436	CCDS8072.2	11q13.1	2013-03-13	2007-05-31	2007-05-31	ENSG00000168071	ENSG00000168071			26757	protein-coding gene	gene with protein product	"brain leucine zipper protein", "GRP78-interacting protein induced by ER stress"	611205	"coiled-coil domain containing 88"	CCDC88		15882442, 21289099	Standard	NM_032251		Approved	FLJ37970, BRLZ, HkRP3, FLJ00354, GIPIE	uc001nzy.3	A6NC98	OTTHUMG00000045419	ENST00000356786.5:c.3427C>T	11.37:g.64120286C>T	ENSP00000349238:p.Arg1143Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A5D8Y5|B5MDM2|Q05BL2|Q6RUV3|Q8N1Q6|Q8NF44|Q9H0H1	Missense_Mutation	SNP	ENST00000356786.5	37	CCDS8072.2	.	.	.	.	.	.	.	.	.	.	c	18.03	3.532071	0.64972	.	.	ENSG00000168071	ENST00000377638;ENST00000356786;ENST00000359902	T;T	0.47869	1.82;0.83	3.95	2.94	0.34122	.	.	.	.	.	T	0.58278	0.2111	L	0.54323	1.7	0.46701	D	0.999169	D;D;D	0.89917	1.0;1.0;1.0	P;D;P	0.72625	0.869;0.978;0.869	T	0.58781	-0.7576	9	0.59425	D	0.04	.	8.2175	0.31521	0.2379:0.7621:0.0:0.0	.	1143;279;1143	B2RTU8;A6NC98-5;A6NC98	.;.;CC88B_HUMAN	C	1025;1143;295	ENSP00000349238:R1143C;ENSP00000352974:R295C	ENSP00000349238:R1143C	R	+	1	0	CCDC88B	63876862	1.000000	0.71417	0.940000	0.37924	0.920000	0.55202	0.994000	0.29693	2.196000	0.70406	0.462000	0.41574	CGC		0.682	CCDC88B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000104845.1	NM_032251		T	64120286	C	T	64120286	3	4	664	1	0	0	0	0	1	0	0	0	2866	536	19	1	3505	1	CCDC88B	11	64120286	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1518290	64120286	70886230	565	41875										
ATG2A	23130	broad.mit.edu;bcgsc.ca	37	chr11	64665396	64665396	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accagtggtctctacgccttCggcctgcccttccagggggc	12	16	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:64665396C>T	ENST00000377264.3	-	35	5021	c.4909G>A	c.(4909-4911)Gaa>Aaa	p.E1637K	ATG2A_ENST00000421419.2_Missense_Mutation_p.E1639K	NM_015104.2	NP_055919.2	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	1637					autophagic vacuole assembly (GO:0000045)|cellular response to nitrogen starvation (GO:0006995)|mitochondrion degradation (GO:0000422)|nucleophagy (GO:0044804)	extrinsic component of membrane (GO:0019898)|lipid particle (GO:0005811)|pre-autophagosomal structure (GO:0000407)				breast(3)|central_nervous_system(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(19)|ovary(3)|prostate(5)|skin(1)|stomach(1)|urinary_tract(3)	55						TCTACGCCTTCGGCCTGCCCT	0.667																																																0													32	38	36					11																	64665396		2200	4296	6496	SO:0001583	missense	23130				CCDS31602.1	11q13.1	2014-02-12	2012-06-06		ENSG00000110046	ENSG00000110046			29028	protein-coding gene	gene with protein product			"ATG2 autophagy related 2 homolog A (S. cerevisiae)"			21887408	Standard	NM_015104		Approved	KIAA0404	uc001obx.3	Q2TAZ0	OTTHUMG00000066831	ENST00000377264.3:c.4909G>A	11.37:g.64665396C>T	ENSP00000366475:p.Glu1637Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O43154|Q14DM2|Q6ZTV2|Q7Z6K8|Q8IVY5|Q8TAI8|Q96HH7	Missense_Mutation	SNP	ENST00000377264.3	37	CCDS31602.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	10.23|10.23	1.293510|1.293510	0.23564|0.23564	.|.	.|.	ENSG00000110046|ENSG00000110046	ENST00000421419;ENST00000377264|ENST00000418259	T;T|.	0.06608|.	3.28;3.28|.	4.38|4.38	0.0643|0.0643	0.14352|0.14352	.|.	0.464888|.	0.21212|.	N|.	0.078283|.	T|T	0.40145|0.40145	0.1105|0.1105	L|L	0.61387|0.61387	1.9|1.9	0.09310|0.09310	N|N	1|1	B;B|.	0.26577|.	0.095;0.153|.	B;B|.	0.20184|.	0.013;0.028|.	T|T	0.35201|0.35201	-0.9798|-0.9798	10|5	0.10636|.	T|.	0.68|.	.|.	3.6629|3.6629	0.08245|0.08245	0.0:0.4688:0.188:0.3431|0.0:0.4688:0.188:0.3431	.|.	1637;1639|.	Q2TAZ0;Q2TAZ0-3|.	ATG2A_HUMAN;.|.	K|Q	1639;1637|1440	ENSP00000410522:E1639K;ENSP00000366475:E1637K|.	ENSP00000366475:E1637K|.	E|R	-|-	1|2	0|0	ATG2A|ATG2A	64421972|64421972	0.000000|0.000000	0.05858|0.05858	0.002000|0.002000	0.10522|0.10522	0.005000|0.005000	0.04900|0.04900	0.353000|0.353000	0.20130|0.20130	-0.066000|-0.066000	0.12998|0.12998	0.561000|0.561000	0.74099|0.74099	GAA|CGA		0.667	ATG2A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000143224.1	NM_015104		T	64665396	C	T	64665396	3	4	664	1	0	0	0	0	1	0	0	0	1093	893	31	1	935	1	ATG2A	11	64665396	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	545110	64665396	70341120	566	41876										
TSGA10IP	254187	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr11	65721060	65721060	+	RNA	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcctgctgcaggcctgggagCggcagcggcaggaggagcgg	21	11	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:65721060C>T	ENST00000532620.1	+	0	1405				TSGA10IP_ENST00000608857.1_RNA			Q3SY00	T10IP_HUMAN	testis specific, 10 interacting protein									p.R362R(1)		endometrium(2)|kidney(3)|lung(9)	14						GGCCTGGGAGCGGCAGCGGCA	0.697																																																1	Substitution - coding silent(1)	lung(1)											40	46	44					11																	65721060		1619	3582	5201			254187			AK057442	CCDS66138.1	11q13.1	2014-03-25			ENSG00000175513	ENSG00000175513			26555	protein-coding gene	gene with protein product						14702039	Standard	NM_152762		Approved	FLJ32880, FAM161C	uc001ogk.1	Q3SY00	OTTHUMG00000166753		11.37:g.65721060C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q3SXZ9|Q3SY01|Q96M26	Missense_Mutation	SNP	ENST00000532620.1	37																																																																																					0.697	TSGA10IP-001	KNOWN	basic	processed_transcript	polymorphic_pseudogene	OTTHUMT00000391373.2	NM_152762		T	65721060	C	T	65721060	1	4	664	0	1	0	0	0	0	0	0	0	16630	759	27	1		1	TSGA10IP	11	65721060	RNA	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1055664	65721060	69285456	567	41877										
SART1	9092	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	65744159	65744159	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gatgaggagcgctcagccaaCggtggctccgaatctgacgg	15	11	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:65744159C>T	ENST00000312397.5	+	14	1871	c.1779C>T	c.(1777-1779)aaC>aaT	p.N593N		NM_005146.4	NP_005137.1	O43290	SNUT1_HUMAN	squamous cell carcinoma antigen recognized by T cells	593					cell cycle arrest (GO:0007050)|intrinsic apoptotic signaling pathway (GO:0097193)|mRNA splicing, via spliceosome (GO:0000398)|positive regulation of cytotoxic T cell differentiation (GO:0045585)|spliceosomal snRNP assembly (GO:0000387)	Cajal body (GO:0015030)|catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			endometrium(1)|large_intestine(1)|lung(5)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11						GCTCAGCCAACGGTGGCTCCG	0.672																																																0													31	29	30					11																	65744159		2201	4296	6497	SO:0001819	synonymous_variant	9092			AB006198	CCDS31611.1	11q13.1	2009-01-06	2006-12-07		ENSG00000175467	ENSG00000175467			10538	protein-coding gene	gene with protein product	"small nuclear ribonucleoprotein 110kDa (U4/U6.U5)"	605941	"squamous cell carcinoma antigen recognised by T cells"			9449708	Standard	NM_005146		Approved	Ara1, Snu66, SNRNP110	uc001ogl.3	O43290	OTTHUMG00000166771	ENST00000312397.5:c.1779C>T	11.37:g.65744159C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NDN1|Q53GB5	Silent	SNP	ENST00000312397.5	37	CCDS31611.1																																																																																				0.672	SART1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391409.1			T	65744159	C	T	65744159	2	4	664	1	0	0	0	0	0	0	0	1	13859	535	19	1		1	SART1	11	65744159	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	23099	65744159	69262357	568	41878										
PACS1	55690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	65978707	65978707	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgggctataagaccttggccGtgggactcatcaacatggca	12	10	2	1	rs142653069	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:65978707G>A	ENST00000320580.4	+	4	670	c.637G>A	c.(637-639)Gtg>Atg	p.V213M		NM_018026.3	NP_060496.2	Q6VY07	PACS1_HUMAN	phosphofurin acidic cluster sorting protein 1	213				Missing (in Ref. 2; BAC04831). {ECO:0000305}.	protein targeting to Golgi (GO:0000042)|protein targeting to plasma membrane (GO:0072661)|regulation of defense response to virus by virus (GO:0050690)|viral process (GO:0016032)	COPI-coated vesicle (GO:0030137)|cytosol (GO:0005829)	ion channel binding (GO:0044325)		RBM14/PACS1(2)	breast(1)|central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(8)|lung(8)|ovary(6)|skin(2)|urinary_tract(1)	37						GACCTTGGCCGTGGGACTCAT	0.527																																																0								G	MET/VAL	0,4402		0,0,2201	155	126	136		637	4.2	1	11	dbSNP_134	136	4,8586	3.7+/-12.6	0,4,4291	yes	missense	PACS1	NM_018026.2	21	0,4,6492	AA,AG,GG		0.0466,0.0,0.0308	benign	213/964	65978707	4,12988	2201	4295	6496	SO:0001583	missense	55690			AB033001	CCDS8129.1	11q13.1-q13.2	2008-02-05			ENSG00000175115	ENSG00000175115			30032	protein-coding gene	gene with protein product		607492				12855553, 14608369	Standard	NM_018026		Approved	FLJ10209, KIAA1175	uc001oha.2	Q6VY07	OTTHUMG00000166889	ENST00000320580.4:c.637G>A	11.37:g.65978707G>A	ENSP00000316454:p.Val213Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PJY6|Q6PKB6|Q7Z590|Q7Z5W4|Q8N8K6|Q96MW0|Q9NW92|Q9ULP5	Missense_Mutation	SNP	ENST00000320580.4	37	CCDS8129.1	.	.	.	.	.	.	.	.	.	.	G	14.84	2.656829	0.47467	0.0	4.66E-4	ENSG00000175115	ENST00000320580;ENST00000527380	T	0.26810	1.71	5.09	4.16	0.48862	.	0.345518	0.30959	N	0.008532	T	0.27559	0.0677	M	0.78637	2.42	0.80722	D	1	B;B	0.32893	0.066;0.389	B;B	0.19148	0.007;0.024	T	0.16541	-1.0399	10	0.51188	T	0.08	-20.3959	12.9718	0.58517	0.0817:0.0:0.9183:0.0	.	213;213	Q6VY07;Q6VY07-2	PACS1_HUMAN;.	M	213;115	ENSP00000316454:V213M	ENSP00000316454:V213M	V	+	1	0	PACS1	65735283	0.856000	0.29760	0.999000	0.59377	0.853000	0.48598	1.113000	0.31184	2.659000	0.90383	0.313000	0.20887	GTG		0.527	PACS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391690.2	NM_018026		A	65978707	G	A	65978707	3	1	664	1	0	0	0	0	1	0	0	0	11379	1145	40	1	651	1	PACS1	11	65978707	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	234548	65978707	69027809	569	41879										
RAB1B	81876	broad.mit.edu;hgsc.bcm.edu	37	chr11	66039636	66039636	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgaactttcaggatgacacGtacacagagagctacatcag	9	10	2	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:66039636G>A	ENST00000311481.6	+	3	243	c.96G>A	c.(94-96)acG>acA	p.T32T	RAB1B_ENST00000527397.1_Silent_p.T32T|RP11-867G23.3_ENST00000501708.1_lincRNA	NM_030981.2	NP_112243.1	Q9H0U4	RAB1B_HUMAN	RAB1B, member RAS oncogene family	32					ER to Golgi vesicle-mediated transport (GO:0006888)|positive regulation of glycoprotein metabolic process (GO:1903020)|protein transport (GO:0015031)|small GTPase mediated signal transduction (GO:0007264)|virion assembly (GO:0019068)	endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|mitochondrion (GO:0005739)	GTP binding (GO:0005525)			large_intestine(2)|lung(1)|ovary(1)|prostate(1)	5						AGGATGACACGTACACAGAGA	0.532																																																0													213	205	208					11																	66039636		2200	4295	6495	SO:0001819	synonymous_variant	81876			AJ245875	CCDS31613.1	11q13.1	2008-02-05			ENSG00000174903	ENSG00000174903		"RAB, member RAS oncogene"	18370	protein-coding gene	gene with protein product		612565				9030196	Standard	NM_030981		Approved		uc001ohf.3	Q9H0U4	OTTHUMG00000166916	ENST00000311481.6:c.96G>A	11.37:g.66039636G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7S1	Silent	SNP	ENST00000311481.6	37	CCDS31613.1																																																																																				0.532	RAB1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391886.2	NM_030981		A	66039636	G	A	66039636	2	1	664	1	0	0	0	0	0	0	0	1	12919	1132	40	1		1	RAB1B	11	66039636	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	60929	66039636	68966880	570	41880										
RIN1	9610	broad.mit.edu;mdanderson.org	37	chr11	66101541	66101541	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcaggctcaggtgggacccGaaggctccggggccctgggc	19	13	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:66101541G>A	ENST00000311320.4	-	7	1566	c.1440C>T	c.(1438-1440)ttC>ttT	p.F480F	RIN1_ENST00000424433.2_Silent_p.F375F|RP11-867G23.12_ENST00000526655.1_RNA|RIN1_ENST00000524804.1_5'Flank|RIN1_ENST00000530056.1_Intron	NM_004292.2	NP_004283.2	Q13671	RIN1_HUMAN	Ras and Rab interactor 1	480	Ras and 14-3-3 protein binding region.|VPS9. {ECO:0000255|PROSITE- ProRule:PRU00550}.				associative learning (GO:0008306)|endocytosis (GO:0006897)|memory (GO:0007613)|negative regulation of synaptic plasticity (GO:0031914)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|dendrite (GO:0030425)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	GTPase activator activity (GO:0005096)			breast(1)|central_nervous_system(3)|haematopoietic_and_lymphoid_tissue(1)|lung(8)|ovary(1)	14						GGTGGGACCCGAAGGCTCCGG	0.731																																																0													7	7	7					11																	66101541		2115	4173	6288	SO:0001819	synonymous_variant	9610			L36463	CCDS31614.1	11q13.2	2005-09-18				ENSG00000174791			18749	protein-coding gene	gene with protein product		605965				9144171, 1849280	Standard	NM_004292		Approved		uc001ohn.1	Q13671		ENST00000311320.4:c.1440C>T	11.37:g.66101541G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O15010|Q00427|Q96CC8	Silent	SNP	ENST00000311320.4	37	CCDS31614.1																																																																																				0.731	RIN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392980.2	NM_004292		A	66101541	G	A	66101541	2	1	664	1	0	0	0	0	0	0	0	1	13384	1049	37	1		1	RIN1	11	66101541	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	61905	66101541	68904975	571	41881										
PITPNM1	9600	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	67261522	67261522	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acttgcccgacagcggctgcGtcatgatgtagacatccacc	10	14	1	2	rs371845321		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:67261522G>A	ENST00000534749.1	-	19	3067	c.2879C>T	c.(2878-2880)aCg>aTg	p.T960M	PITPNM1_ENST00000436757.2_Missense_Mutation_p.T959M|PITPNM1_ENST00000526450.1_5'UTR|PITPNM1_ENST00000356404.3_Missense_Mutation_p.T960M			O00562	PITM1_HUMAN	phosphatidylinositol transfer protein, membrane-associated 1	960					brain development (GO:0007420)|lipid metabolic process (GO:0006629)|phospholipid transport (GO:0015914)|phototransduction (GO:0007602)|protein transport (GO:0015031)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|lipid particle (GO:0005811)|membrane (GO:0016020)	metal ion binding (GO:0046872)|phosphatidylinositol transporter activity (GO:0008526)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(2)|liver(1)|lung(4)|ovary(1)|prostate(1)|skin(3)	18						CAGCGGCTGCGTCATGATGTA	0.652																																					GBM(28;144 709 4607 5525)											0								G	MET/THR,MET/THR	0,4398		0,0,2199	41	44	43		2876,2879	4.2	1	11		43	1,8589	1.2+/-3.3	0,1,4294	no	missense,missense	PITPNM1	NM_001130848.1,NM_004910.2	81,81	0,1,6493	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging,probably-damaging	959/1244,960/1245	67261522	1,12987	2199	4295	6494	SO:0001583	missense	9600			X98654	CCDS31620.1, CCDS44659.1	11q13	2008-07-21		2003-05-16	ENSG00000110697	ENSG00000110697			9003	protein-coding gene	gene with protein product	"PYK2 N-terminal domain-interacting receptor 2", "retinal degeneration B alpha 1"	608794		PITPNM		9680295	Standard	NM_004910		Approved	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB	uc001oly.3	O00562	OTTHUMG00000167675	ENST00000534749.1:c.2879C>T	11.37:g.67261522G>A	ENSP00000437286:p.Thr960Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NME4|Q6T7X3|Q8TBN3|Q9BZ73	Missense_Mutation	SNP	ENST00000534749.1	37	CCDS31620.1	.	.	.	.	.	.	.	.	.	.	G	22.7	4.322959	0.81580	0.0	1.16E-4	ENSG00000110697	ENST00000534749;ENST00000436757;ENST00000356404	T;T;T	0.49432	0.78;0.78;0.78	4.21	4.21	0.49690	.	0.000000	0.47852	D	0.000205	T	0.49201	0.1543	L	0.41492	1.28	0.58432	D	0.999999	P;D	0.60160	0.905;0.987	B;P	0.50754	0.305;0.649	T	0.52449	-0.8574	10	0.49607	T	0.09	-25.7326	15.5133	0.75802	0.0:0.0:1.0:0.0	.	959;960	O00562-2;O00562	.;PITM1_HUMAN	M	960;959;960	ENSP00000437286:T960M;ENSP00000398787:T959M;ENSP00000348772:T960M	ENSP00000348772:T960M	T	-	2	0	PITPNM1	67018098	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	6.624000	0.74243	2.071000	0.62044	0.305000	0.20034	ACG		0.652	PITPNM1-002	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395520.1	NM_004910		A	67261522	G	A	67261522	3	1	664	1	0	0	0	0	1	0	0	0	11957	1145	40	1	875	1	PITPNM1	11	67261522	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1159981	67261522	67744994	572	41882										
SUV420H1	51111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	67925896	67925896	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atcaaatctggtaccgcgtcGtcttttccaggagaatcgtg	10	10	3	1	rs149239650		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:67925896G>A	ENST00000304363.4	-	11	2270	c.1917C>T	c.(1915-1917)gaC>gaT	p.D639D		NM_017635.3	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 (Drosophila)	639					histone H4-K20 trimethylation (GO:0034773)|muscle organ development (GO:0007517)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	condensed nuclear chromosome, centromeric region (GO:0000780)	histone methyltransferase activity (H4-K20 specific) (GO:0042799)|histone-lysine N-methyltransferase activity (GO:0018024)			NS(1)|breast(3)|endometrium(4)|kidney(3)|large_intestine(9)|lung(15)|ovary(2)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	46						GTACCGCGTCGTCTTTTCCAG	0.507													G|||	1	0.000199681	0.0	0.0014	5008	,	,		21360	0.0		0.0	False		,,,				2504	0.0															0								G		1,4399	2.1+/-5.4	0,1,2199	92	83	86		1917	-6.6	0	11	dbSNP_134	86	2,8586	2.2+/-6.3	0,2,4292	no	coding-synonymous	SUV420H1	NM_017635.3		0,3,6491	AA,AG,GG		0.0233,0.0227,0.0231		639/886	67925896	3,12985	2200	4294	6494	SO:0001819	synonymous_variant	51111			AL512763	CCDS31623.1, CCDS44660.1	11q13.2	2011-07-01			ENSG00000110066	ENSG00000110066		"Chromatin-modifying enzymes / K-methyltransferases"	24283	protein-coding gene	gene with protein product		610881				10810093, 11401438	Standard	NM_016028		Approved	CGI-85, KMT5B	uc001onm.1	Q4FZB7	OTTHUMG00000150484	ENST00000304363.4:c.1917C>T	11.37:g.67925896G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7WNX7|Q3SX56|Q4V775|Q6P150|Q96E44|Q9BUL0|Q9H022|Q9H2K3|Q9NXV3|Q9Y393	Silent	SNP	ENST00000304363.4	37	CCDS31623.1																																																																																				0.507	SUV420H1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318319.1	NM_017635		A	67925896	G	A	67925896	2	1	664	1	0	0	0	0	0	0	0	1	15426	1136	40	1		1	SUV420H1	11	67925896	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	664374	67925896	67080620	573	41883										
CPT1A	1374	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	68530138	68530138	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cccgcacgaagtcgcatgacTcagtggtgcaggagcgcacg	14	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:68530138T>C	ENST00000265641.5	-	15	1986	c.1832A>G	c.(1831-1833)gAg>gGg	p.E611G	CPT1A_ENST00000376618.2_Missense_Mutation_p.E611G|CPT1A_ENST00000539743.1_Missense_Mutation_p.E611G|CPT1A_ENST00000540367.1_Missense_Mutation_p.E611G|CPT1A_ENST00000537756.2_5'UTR	NM_001876.3	NP_001867.2	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A (liver)	611					carnitine metabolic process (GO:0009437)|carnitine shuttle (GO:0006853)|cellular lipid metabolic process (GO:0044255)|cellular response to fatty acid (GO:0071398)|eating behavior (GO:0042755)|epithelial cell differentiation (GO:0030855)|fatty acid beta-oxidation (GO:0006635)|glucose metabolic process (GO:0006006)|long-chain fatty acid metabolic process (GO:0001676)|positive regulation of fatty acid beta-oxidation (GO:0032000)|protein homooligomerization (GO:0051260)|regulation of insulin secretion (GO:0050796)|response to drug (GO:0042493)|response to organic cyclic compound (GO:0014070)|small molecule metabolic process (GO:0044281)|triglyceride metabolic process (GO:0006641)	integral component of mitochondrial outer membrane (GO:0031307)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)	carnitine O-palmitoyltransferase activity (GO:0004095)			NS(2)|breast(1)|endometrium(2)|kidney(1)|large_intestine(7)|liver(1)|lung(17)|ovary(3)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	42	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		Glyburide(DB01016)|L-Carnitine(DB00583)|Perhexiline(DB01074)	GTCGCATGACTCAGTGGTGCA	0.597																																																0													78	68	71					11																	68530138		2200	4294	6494	SO:0001583	missense	1374			L39211	CCDS8185.1, CCDS31624.1	11q13.2	2007-07-26				ENSG00000110090	2.3.1.21		2328	protein-coding gene	gene with protein product		600528		CPT1		7892212, 9070950	Standard	NM_001876		Approved	CPT1-L, L-CPT1	uc001oog.4	P50416		ENST00000265641.5:c.1832A>G	11.37:g.68530138T>C	ENSP00000265641:p.Glu611Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TCU0|Q9BWK0	Missense_Mutation	SNP	ENST00000265641.5	37	CCDS8185.1	.	.	.	.	.	.	.	.	.	.	T	15.71	2.912559	0.52439	.	.	ENSG00000110090	ENST00000540367;ENST00000376618;ENST00000265641;ENST00000538308;ENST00000539743	D;D;D;D	0.90732	-2.72;-2.72;-2.72;-2.72	5.57	5.57	0.84162	.	0.051436	0.85682	D	0.000000	D	0.95341	0.8488	H	0.97983	4.12	0.80722	D	1	B;B	0.29671	0.254;0.214	B;B	0.37346	0.247;0.238	D	0.95305	0.8407	10	0.87932	D	0	.	16.0252	0.80538	0.0:0.0:0.0:1.0	.	611;611	P50416;P50416-2	CPT1A_HUMAN;.	G	611	ENSP00000439084:E611G;ENSP00000365803:E611G;ENSP00000265641:E611G;ENSP00000446108:E611G	ENSP00000265641:E611G	E	-	2	0	CPT1A	68286714	1.000000	0.71417	0.997000	0.53966	0.041000	0.13682	7.562000	0.82300	2.246000	0.74042	0.533000	0.62120	GAG		0.597	CPT1A-006	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397457.2	NM_001876		C	68530138	T	C	68530138	3	2	664	1	0	0	0	0	1	0	0	0	3833	1551	54	3	549	3	CPT1A	11	68530138	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	604242	68530138	66476378	574	41884										
ARAP1	116985	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	72404807	72404807	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggctgtccgtgcccagcccGtgcaggatgggcagcacctt	14	14	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:72404807G>A	ENST00000393609.3	-	28	3940	c.3738C>T	c.(3736-3738)caC>caT	p.H1246H	ARAP1_ENST00000429686.1_Silent_p.H940H|ARAP1_ENST00000455638.2_Silent_p.H1246H|ARAP1-AS1_ENST00000542022.1_RNA|ARAP1_ENST00000426523.1_Silent_p.H1001H|ARAP1_ENST00000334211.8_Silent_p.H1001H|ARAP1_ENST00000393605.3_Silent_p.H1006H|ARAP1_ENST00000495878.1_5'UTR|ARAP1_ENST00000359373.5_Silent_p.H1246H	NM_001040118.2	NP_001035207.1	Q96P48	ARAP1_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	1246	Ras-associating. {ECO:0000255|PROSITE- ProRule:PRU00166}.				actin filament reorganization involved in cell cycle (GO:0030037)|negative regulation of stress fiber assembly (GO:0051497)|positive regulation of Cdc42 GTPase activity (GO:0043089)|positive regulation of filopodium assembly (GO:0051491)|positive regulation of receptor recycling (GO:0001921)|regulation of ARF GTPase activity (GO:0032312)|regulation of cell shape (GO:0008360)|regulation of cellular component movement (GO:0051270)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)	ARF GTPase activator activity (GO:0008060)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|Rho GTPase activator activity (GO:0005100)|zinc ion binding (GO:0008270)			cervix(2)|endometrium(2)|large_intestine(10)|lung(8)|ovary(1)|skin(3)|urinary_tract(1)	27						TGCCCAGCCCGTGCAGGATGG	0.652																																					Ovarian(102;1198 1520 13195 17913 37529)											0													53	39	44					11																	72404807		2200	4292	6492	SO:0001819	synonymous_variant	116985			AF411983	CCDS8217.2, CCDS41687.1, CCDS44671.1	11q13.3	2013-01-11	2008-09-22	2008-09-22	ENSG00000186635	ENSG00000186635		"ADP-ribosylation factor GTPase activating proteins", "Sterile alpha motif (SAM) domain containing", "Pleckstrin homology (PH) domain containing", "Ankyrin repeat domain containing"	16925	protein-coding gene	gene with protein product		606646	"centaurin, delta 2"	CENTD2			Standard	NM_001040118		Approved		uc001osu.3	Q96P48	OTTHUMG00000157102	ENST00000393609.3:c.3738C>T	11.37:g.72404807G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A3KLL7|B2RTS2|O94879|Q4LDD5|Q59FI7|Q6PHS3|Q8WU51|Q96HP6|Q96L71	Silent	SNP	ENST00000393609.3	37	CCDS41687.1																																																																																				0.652	ARAP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000347428.1	NM_001040118		A	72404807	G	A	72404807	2	1	664	1	0	0	0	0	0	0	0	1	838	1136	40	1		1	ARAP1	11	72404807	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3874669	72404807	62601709	575	41885										
UCP2	7351	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	73689005	73689005	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagaggcaaagctcatttggCgctgcaggccggcaaccagc	13	13	1	1	rs145061662		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:73689005C>T	ENST00000310473.3	-	4	1105	c.263G>A	c.(262-264)cGc>cAc	p.R88H	UCP2_ENST00000542615.1_5'Flank|UCP2_ENST00000536983.1_Missense_Mutation_p.R88H	NM_003355.2	NP_003346.2	P55851	UCP2_HUMAN	uncoupling protein 2 (mitochondrial, proton carrier)	88					aging (GO:0007568)|cellular metabolic process (GO:0044237)|cellular response to amino acid starvation (GO:0034198)|cellular response to glucose stimulus (GO:0071333)|cellular response to insulin stimulus (GO:0032869)|female pregnancy (GO:0007565)|liver regeneration (GO:0097421)|mitochondrial transport (GO:0006839)|negative regulation of apoptotic process (GO:0043066)|negative regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0061179)|positive regulation of cell death (GO:0010942)|proton transport (GO:0015992)|regulation of mitochondrial membrane potential (GO:0051881)|respiratory electron transport chain (GO:0022904)|response to fatty acid (GO:0070542)|response to hypoxia (GO:0001666)|response to superoxide (GO:0000303)|small molecule metabolic process (GO:0044281)|transport (GO:0006810)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)				large_intestine(1)|lung(3)|prostate(1)	5	Breast(11;0.000112)					GCTCATTTGGCGCTGCAGGCC	0.597																																					Colon(191;388 2040 43557 45622 48925)											0								C	HIS/ARG	0,4400		0,0,2200	70	69	69		263	5.2	1	11	dbSNP_134	69	2,8584	2.2+/-6.3	0,2,4291	yes	missense	UCP2	NM_003355.2	29	0,2,6491	TT,TC,CC		0.0233,0.0,0.0154	probably-damaging	88/310	73689005	2,12984	2200	4293	6493	SO:0001583	missense	7351			U76367	CCDS8228.1	11q13	2014-02-12						"Solute carriers"	12518	protein-coding gene	gene with protein product		601693	"body mass index QTL 4", "body mass index quantitative trait 4"	BMIQ4		9196039, 11381268	Standard	NM_003355		Approved	SLC25A8	uc001oup.1	P55851		ENST00000310473.3:c.263G>A	11.37:g.73689005C>T	ENSP00000312029:p.Arg88His	Somatic		WXS	Illumina HiSeq	Phase_I	Q4PJH8|Q53HM3	Missense_Mutation	SNP	ENST00000310473.3	37	CCDS8228.1	.	.	.	.	.	.	.	.	.	.	C	29.8	5.035217	0.93575	0.0	2.33E-4	ENSG00000175567	ENST00000310473;ENST00000536983;ENST00000544615	D;D;D	0.81659	-1.52;-1.52;-1.52	6.07	5.15	0.70609	Mitochondrial carrier domain (2);	0.000000	0.85682	D	0.000000	D	0.93933	0.8058	H	0.98351	4.21	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.997;0.998	D	0.96356	0.9262	10	0.87932	D	0	-7.1629	16.1962	0.82025	0.0:0.8667:0.1333:0.0	.	88;88	F5GX45;P55851	.;UCP2_HUMAN	H	88;88;61	ENSP00000312029:R88H;ENSP00000441147:R88H;ENSP00000439951:R61H	ENSP00000312029:R88H	R	-	2	0	UCP2	73366653	1.000000	0.71417	1.000000	0.80357	0.961000	0.63080	7.776000	0.85560	1.562000	0.49601	0.655000	0.94253	CGC		0.597	UCP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398108.1	NM_003355		T	73689005	C	T	73689005	3	4	664	1	0	0	0	0	1	0	0	0	16943	768	27	1	686	1	UCP2	11	73689005	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1284198	73689005	61317511	576	41886										
P4HA3	283208	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr11	73988139	73988139	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcctgtgagggcagcaatgCggtggttgagggtcaccagt	18	8	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:73988139C>T	ENST00000331597.4	-	9	1271	c.1226G>A	c.(1225-1227)cGc>cAc	p.R409H	P4HA3_ENST00000427714.2_Missense_Mutation_p.R409H	NM_182904.3	NP_878907.1	Q7Z4N8	P4HA3_HUMAN	prolyl 4-hydroxylase, alpha polypeptide III	409						endoplasmic reticulum (GO:0005783)	iron ion binding (GO:0005506)|L-ascorbic acid binding (GO:0031418)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen (GO:0016702)|procollagen-proline 4-dioxygenase activity (GO:0004656)			NS(1)|biliary_tract(1)|breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|liver(1)|lung(5)|skin(1)	15	Breast(11;2.31e-05)					GGCAGCAATGCGGTGGTTGAG	0.522																																																0													194	148	163					11																	73988139		2200	4293	6493	SO:0001583	missense	283208			AY327887	CCDS8230.1, CCDS73347.1	11q13	2008-12-09	2008-12-09			ENSG00000149380			30135	protein-coding gene	gene with protein product	"collagen prolyl 4-hydroxylase alpha(III)"	608987	"procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha polypeptide III"			14500733	Standard	XM_005273924		Approved	C-P4Halpha(III)	uc001ouz.3	Q7Z4N8		ENST00000331597.4:c.1226G>A	11.37:g.73988139C>T	ENSP00000332170:p.Arg409His	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV13|B4DUD3|Q5EBL3|Q5JPA9	Missense_Mutation	SNP	ENST00000331597.4	37	CCDS8230.1	.	.	.	.	.	.	.	.	.	.	C	22.9	4.352642	0.82132	.	.	ENSG00000149380	ENST00000331597;ENST00000427714	T;T	0.70869	0.98;-0.52	5.2	5.2	0.72013	Prolyl 4-hydroxylase, alpha subunit (1);	0.097922	0.64402	D	0.000002	D	0.85944	0.5815	M	0.88906	2.99	0.43693	D	0.996141	D;D	0.89917	1.0;0.995	D;P	0.68621	0.959;0.679	D	0.88404	0.3017	10	0.87932	D	0	-16.3221	16.28	0.82672	0.0:1.0:0.0:0.0	.	409;409	B4DUD3;Q7Z4N8	.;P4HA3_HUMAN	H	409	ENSP00000332170:R409H;ENSP00000401749:R409H	ENSP00000332170:R409H	R	-	2	0	P4HA3	73665787	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	3.902000	0.56310	2.691000	0.91804	0.655000	0.94253	CGC		0.522	P4HA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382988.1	NM_182904		T	73988139	C	T	73988139	3	4	664	1	0	0	0	0	1	0	0	0	11365	768	27	1	428	1	P4HA3	11	73988139	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	299134	73988139	61018377	577	41887										
ARRB1	408	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	74988453	74988453	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttgttggtgttgttggtgaCgtggacgttgacgctgatgg	17	5	0	3	rs370469526		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:74988453C>T	ENST00000420843.2	-	9	755	c.658G>A	c.(658-660)Gtc>Atc	p.V220I	ARRB1_ENST00000360025.3_Missense_Mutation_p.V220I|ARRB1_ENST00000393505.4_Missense_Mutation_p.V220I	NM_004041.4	NP_004032.2	P49407	ARRB1_HUMAN	arrestin, beta 1	220					activation of MAPK activity (GO:0000187)|apoptotic DNA fragmentation (GO:0006309)|blood coagulation (GO:0007596)|follicle-stimulating hormone signaling pathway (GO:0042699)|G-protein coupled receptor internalization (GO:0002031)|membrane organization (GO:0061024)|negative regulation of apoptotic process (GO:0043066)|negative regulation of ERK1 and ERK2 cascade (GO:0070373)|negative regulation of GTPase activity (GO:0034260)|negative regulation of interleukin-6 production (GO:0032715)|negative regulation of interleukin-8 production (GO:0032717)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of protein ubiquitination (GO:0031397)|Notch signaling pathway (GO:0007219)|phototransduction (GO:0007602)|platelet activation (GO:0030168)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of GTPase activity (GO:0043547)|positive regulation of histone acetylation (GO:0035066)|positive regulation of histone H4 acetylation (GO:0090240)|positive regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0035774)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of protein binding (GO:0032092)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of receptor internalization (GO:0002092)|positive regulation of Rho protein signal transduction (GO:0035025)|positive regulation of smooth muscle cell apoptotic process (GO:0034393)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|post-Golgi vesicle-mediated transport (GO:0006892)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein transport (GO:0015031)|protein ubiquitination (GO:0016567)|stress fiber assembly (GO:0043149)|transcription from RNA polymerase II promoter (GO:0006366)	basolateral plasma membrane (GO:0016323)|chromatin (GO:0000785)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|Golgi membrane (GO:0000139)|lysosomal membrane (GO:0005765)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)|pseudopodium (GO:0031143)	angiotensin receptor binding (GO:0031701)|cysteine-type endopeptidase inhibitor activity involved in apoptotic process (GO:0043027)|enzyme inhibitor activity (GO:0004857)|GTPase activator activity (GO:0005096)|insulin-like growth factor receptor binding (GO:0005159)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)			breast(4)|large_intestine(2)|lung(4)|prostate(1)	11						TTGTTGGTGACGTGGACGTTG	0.547													C|||	1	0.000199681	0.0008	0.0	5008	,	,		19587	0.0		0.0	False		,,,				2504	0.0															0								C	ILE/VAL,ILE/VAL	0,4400		0,0,2200	333	267	290		658,658	5.1	1	11		290	1,8585	1.2+/-3.3	0,1,4292	no	missense,missense	ARRB1	NM_004041.4,NM_020251.3	29,29	0,1,6492	TT,TC,CC		0.0116,0.0,0.0077	benign,benign	220/419,220/411	74988453	1,12985	2200	4293	6493	SO:0001583	missense	408			BC003636	CCDS31640.1, CCDS44684.1	11q13	2008-12-11			ENSG00000137486	ENSG00000137486			711	protein-coding gene	gene with protein product	"arrestin 2"	107940		ARR1		8486659	Standard	NM_004041		Approved		uc001owe.2	P49407	OTTHUMG00000165444	ENST00000420843.2:c.658G>A	11.37:g.74988453C>T	ENSP00000409581:p.Val220Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B6V9G8|O75625|O75630|Q2PP20|Q9BTK8	Missense_Mutation	SNP	ENST00000420843.2	37	CCDS44684.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	10.98|10.98	1.504591|1.504591	0.26949|0.26949	0.0|0.0	1.16E-4|1.16E-4	ENSG00000137486|ENSG00000137486	ENST00000532447|ENST00000420843;ENST00000393505;ENST00000360025;ENST00000532525	.|T;T;T;T	.|0.14516	.|2.5;2.5;2.5;2.5	5.14|5.14	5.14|5.14	0.70334|0.70334	.|Immunoglobulin E-set (1);Arrestin, C-terminal (1);Arrestin-like, C-terminal (1);	.|0.000000	.|0.64402	.|D	.|0.000003	T|T	0.07954|0.07954	0.0199|0.0199	N|N	0.17594|0.17594	0.5|0.5	0.80722|0.80722	D|D	1|1	.|B;B	.|0.33266	.|0.029;0.404	.|B;B	.|0.26864	.|0.024;0.074	T|T	0.23583|0.23583	-1.0184|-1.0184	5|10	.|0.08837	.|T	.|0.75	-24.7659|-24.7659	16.0992|16.0992	0.81158|0.81158	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|220;220	.|P49407-2;P49407	.|.;ARRB1_HUMAN	H|I	44|220;220;220;215	.|ENSP00000409581:V220I;ENSP00000377141:V220I;ENSP00000353124:V220I;ENSP00000433171:V215I	.|ENSP00000353124:V220I	R|V	-|-	2|1	0|0	ARRB1|ARRB1	74666101|74666101	0.987000|0.987000	0.35691|0.35691	0.984000|0.984000	0.44739|0.44739	0.963000|0.963000	0.63663|0.63663	2.756000|2.756000	0.47549|0.47549	2.371000|2.371000	0.80710|0.80710	0.561000|0.561000	0.74099|0.74099	CGT|GTC		0.547	ARRB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000384092.3	NM_004041		T	74988453	C	T	74988453	3	4	664	1	0	0	0	0	1	0	0	0	980	536	19	1	630	1	ARRB1	11	74988453	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1000314	74988453	60018063	578	41888										
TSKU	25987	broad.mit.edu;mdanderson.org	37	chr11	76506753	76506753	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caatgcgaggtggagaccttCggccttttcgacagcttcag	12	11	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:76506753C>T	ENST00000527881.1	+	2	1119	c.93C>T	c.(91-93)ttC>ttT	p.F31F	TSKU_ENST00000333090.4_Silent_p.F31F			Q8WUA8	TSK_HUMAN	tsukushi, small leucine rich proteoglycan	31	LRRNT.				anterior commissure morphogenesis (GO:0021960)|ciliary body morphogenesis (GO:0061073)|corpus callosum morphogenesis (GO:0021540)|lateral ventricle development (GO:0021670)|negative regulation of Wnt signaling pathway (GO:0030178)|regulation of gene expression (GO:0010468)	extracellular space (GO:0005615)				NS(1)|large_intestine(4)|lung(6)|urinary_tract(1)	12	Ovarian(111;0.112)					TGGAGACCTTCGGCCTTTTCG	0.672																																																0													67	62	64					11																	76506753		2200	4292	6492	SO:0001819	synonymous_variant	25987			AK075476	CCDS8246.1	11q13.5	2012-12-05	2012-12-05	2006-11-21	ENSG00000182704	ENSG00000182704			28850	protein-coding gene	gene with protein product		608015	"leucine rich repeat containing 54", "tsukushin", "tsukushi small leucine rich proteoglycan homolog (Xenopus laevis)"	LRRC54		11085516, 19710929, 22880013	Standard	NM_001258210		Approved	E2IG4, TSK	uc031qcw.1	Q8WUA8		ENST00000527881.1:c.93C>T	11.37:g.76506753C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KQT7|Q6UXK1|Q9UG10|Q9UJX9	Silent	SNP	ENST00000527881.1	37	CCDS8246.1																																																																																				0.672	TSKU-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382871.1	NM_015516		T	76506753	C	T	76506753	2	4	664	1	0	0	0	0	0	0	0	1	16639	883	31	1		1	TSKU	11	76506753	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1518300	76506753	58499763	579	41889										
CHORDC1	26973	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	89935620	89935620	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttcctgctttttagctgcagGcagttcaaggcttgcccact	9	12	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:89935620G>T	ENST00000320585.6	-	11	1361	c.952C>A	c.(952-954)Cct>Act	p.P318T	CHORDC1_ENST00000529726.1_Missense_Mutation_p.P130T|CHORDC1_ENST00000457199.2_Missense_Mutation_p.P299T|CHORDC1_ENST00000529987.1_Missense_Mutation_p.P130T	NM_012124.2	NP_036256.2	Q9UHD1	CHRD1_HUMAN	cysteine and histidine-rich domain (CHORD) containing 1	318					chaperone-mediated protein folding (GO:0061077)|negative regulation of Rho-dependent protein serine/threonine kinase activity (GO:2000299)|regulation of cellular response to heat (GO:1900034)|regulation of centrosome duplication (GO:0010824)|response to stress (GO:0006950)		Hsp90 protein binding (GO:0051879)|zinc ion binding (GO:0008270)			endometrium(2)|large_intestine(2)|liver(1)|lung(6)	11		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.00915)				TTAGCTGCAGGCAGTTCAAGG	0.393																																																0													103	88	93					11																	89935620		2200	4298	6498	SO:0001583	missense	26973			AF192466	CCDS8289.1, CCDS44705.1	11q14.3	2011-01-25	2011-01-25		ENSG00000110172	ENSG00000110172			14525	protein-coding gene	gene with protein product		604353	"cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein 1", "cysteine and histidine-rich domain (CHORD)-containing 1"			10571178	Standard	NM_012124		Approved	CHP1	uc001pdg.2	Q9UHD1	OTTHUMG00000167305	ENST00000320585.6:c.952C>A	11.37:g.89935620G>T	ENSP00000319255:p.Pro318Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6P8|Q6IN49|Q8WVL9|Q9H3D6	Missense_Mutation	SNP	ENST00000320585.6	37	CCDS8289.1	.	.	.	.	.	.	.	.	.	.	G	24.0	4.486590	0.84854	.	.	ENSG00000110172	ENST00000320585;ENST00000529987;ENST00000457199;ENST00000529726	T;T;T;T	0.43294	0.96;0.99;0.95;0.99	5.43	5.43	0.79202	HSP20-like chaperone (1);	0.000000	0.85682	D	0.000000	T	0.53997	0.1831	L	0.35542	1.07	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.77557	0.99;0.978	T	0.48007	-0.9072	9	.	.	.	-0.1676	17.486	0.87688	0.0:0.0:1.0:0.0	.	299;318	Q9UHD1-2;Q9UHD1	.;CHRD1_HUMAN	T	318;130;299;130	ENSP00000319255:P318T;ENSP00000433719:P130T;ENSP00000401080:P299T;ENSP00000436632:P130T	.	P	-	1	0	CHORDC1	89575268	1.000000	0.71417	1.000000	0.80357	0.920000	0.55202	8.594000	0.90836	2.539000	0.85634	0.650000	0.86243	CCT		0.393	CHORDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394111.1	NM_012124		T	89935620	G	T	89935620	3	4	664	1	0	0	0	0	1	0	0	0	3367	1203	42	4	50	4	CHORDC1	11	89935620	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	13428867	89935620	45070896	580	41890										
FAT3	120114	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	92086239	92086239	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggctaaggaaggaaagtggTtgaatgagtacaagattaag	14	2	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:92086239T>C	ENST00000298047.6	+	1	978	c.961T>C	c.(961-963)Ttg>Ctg	p.L321L	FAT3_ENST00000409404.2_Silent_p.L321L|FAT3_ENST00000541502.1_Silent_p.L321L|FAT3_ENST00000525166.1_Silent_p.L171L			Q8TDW7	FAT3_HUMAN	FAT atypical cadherin 3	321	Cadherin 3. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)|multicellular organismal development (GO:0007275)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|endometrium(10)|kidney(4)|large_intestine(11)|liver(2)|lung(37)|ovary(5)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(5)	85		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AGGAAAGTGGTTGAATGAGTA	0.448										TCGA Ovarian(4;0.039)																																						0													76	71	72					11																	92086239		1954	4153	6107	SO:0001819	synonymous_variant	120114			AB076400		11q14.3	2013-05-31	2013-05-31		ENSG00000165323	ENSG00000165323		"Cadherins / Cadherin-related"	23112	protein-coding gene	gene with protein product	"cadherin-related family member 10"	612483	"FAT tumor suppressor homolog 3 (Drosophila)"			11811999	Standard	NM_001008781		Approved	KIAA1989, CDHF15, CDHR10	uc001pdj.4	Q8TDW7	OTTHUMG00000154468	ENST00000298047.6:c.961T>C	11.37:g.92086239T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B5MDB0|Q96AU6	Silent	SNP	ENST00000298047.6	37																																																																																					0.448	FAT3-201	KNOWN	basic	protein_coding	protein_coding		NM_001008781		C	92086239	T	C	92086239	2	2	664	1	0	0	0	0	0	0	0	1	5698	1722	60	3		3	FAT3	11	92086239	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	2150619	92086239	42920277	581	41891										
FAT3	120114	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	92577151	92577151	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcacacttacatccgcgtgCgagtcattgaggaaagcacc	9	13	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:92577151C>T	ENST00000298047.6	+	18	10635	c.10618C>T	c.(10618-10620)Cga>Tga	p.R3540*	FAT3_ENST00000409404.2_Nonsense_Mutation_p.R3540*|FAT3_ENST00000533797.1_5'Flank|FAT3_ENST00000525166.1_Nonsense_Mutation_p.R3390*			Q8TDW7	FAT3_HUMAN	FAT atypical cadherin 3	3540	Cadherin 32. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)|multicellular organismal development (GO:0007275)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|endometrium(10)|kidney(4)|large_intestine(11)|liver(2)|lung(37)|ovary(5)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(5)	85		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CATCCGCGTGCGAGTCATTGA	0.468										TCGA Ovarian(4;0.039)																																						0													169	166	167					11																	92577151		1940	4143	6083	SO:0001587	stop_gained	120114			AB076400		11q14.3	2013-05-31	2013-05-31		ENSG00000165323	ENSG00000165323		"Cadherins / Cadherin-related"	23112	protein-coding gene	gene with protein product	"cadherin-related family member 10"	612483	"FAT tumor suppressor homolog 3 (Drosophila)"			11811999	Standard	NM_001008781		Approved	KIAA1989, CDHF15, CDHR10	uc001pdj.4	Q8TDW7	OTTHUMG00000154468	ENST00000298047.6:c.10618C>T	11.37:g.92577151C>T	ENSP00000298047:p.Arg3540*	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDB0|Q96AU6	Nonsense_Mutation	SNP	ENST00000298047.6	37		.	.	.	.	.	.	.	.	.	.	C	51	18.536724	0.99906	.	.	ENSG00000165323	ENST00000298047;ENST00000409404;ENST00000525166	.	.	.	5.62	2.63	0.31362	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.05721	T	0.95	.	15.3673	0.74531	0.6076:0.3924:0.0:0.0	.	.	.	.	X	3540;3540;3390	.	ENSP00000298047:R3540X	R	+	1	2	FAT3	92216799	0.944000	0.32072	0.995000	0.50966	0.339000	0.28857	0.871000	0.28023	0.278000	0.22164	0.561000	0.74099	CGA		0.468	FAT3-201	KNOWN	basic	protein_coding	protein_coding		NM_001008781		T	92577151	C	T	92577151	4	4	664	1	0	0	0	0	0	1	0	0	5698	760	27	1	10688	1	FAT3	11	92577151	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	490912	92577151	42429365	582	41892										
PIWIL4	143689	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	94353042	94353042	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtggattcagaagcaacacGtaacgaatggcaagtgccgc	12	9	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:94353042G>A	ENST00000299001.6	+	18	2496	c.2285G>A	c.(2284-2286)cGt>cAt	p.R762H	RP11-867G2.8_ENST00000537874.1_RNA|RP11-867G2.8_ENST00000536540.1_RNA|PIWIL4_ENST00000537419.1_Missense_Mutation_p.R113H	NM_152431.2	NP_689644.2	Q7Z3Z4	PIWL4_HUMAN	piwi-like RNA-mediated gene silencing 4	762	Piwi. {ECO:0000255|PROSITE- ProRule:PRU00150}.				cell differentiation (GO:0030154)|DNA methylation involved in gamete generation (GO:0043046)|gene silencing by RNA (GO:0031047)|meiotic nuclear division (GO:0007126)|multicellular organismal development (GO:0007275)|piRNA metabolic process (GO:0034587)|regulation of translation (GO:0006417)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|P granule (GO:0043186)|piP-body (GO:0071547)	piRNA binding (GO:0034584)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(9)|lung(10)|prostate(1)|skin(1)|urinary_tract(2)	30		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				GAAGCAACACGTAACGAATGG	0.428																																																0													122	107	112					11																	94353042		2201	4298	6499	SO:0001583	missense	143689			AB079366	CCDS31656.1	11q12	2013-02-15	2013-02-15			ENSG00000134627		"Argonaute/PIWI family"	18444	protein-coding gene	gene with protein product		610315	"piwi-like 4 (Drosophila)"			12906857	Standard	NM_152431		Approved	FLJ36156, HIWI2, Miwi2	uc001pfa.3	Q7Z3Z4		ENST00000299001.6:c.2285G>A	11.37:g.94353042G>A	ENSP00000299001:p.Arg762His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DEG5|Q68CZ4|Q8N8G9|Q8N9V8|Q8NEH2	Missense_Mutation	SNP	ENST00000299001.6	37	CCDS31656.1	.	.	.	.	.	.	.	.	.	.	G	13.36	2.213149	0.39102	.	.	ENSG00000134627	ENST00000299001;ENST00000537419	T;T	0.28666	1.6;1.6	5.13	3.25	0.37280	Stem cell self-renewal protein Piwi (3);Ribonuclease H-like (1);	0.099888	0.39544	N	0.001325	T	0.43055	0.1230	L	0.52011	1.625	0.35257	D	0.779229	D	0.89917	1.0	D	0.87578	0.998	T	0.47661	-0.9100	10	0.13853	T	0.58	-6.5072	10.3432	0.43891	0.1625:0.0:0.8375:0.0	.	762	Q7Z3Z4	PIWL4_HUMAN	H	762;113	ENSP00000299001:R762H;ENSP00000439710:R113H	ENSP00000299001:R762H	R	+	2	0	PIWIL4	93992690	1.000000	0.71417	0.024000	0.17045	0.238000	0.25445	6.741000	0.74837	0.561000	0.29186	0.561000	0.74099	CGT		0.428	PIWIL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396388.1	NM_152431		A	94353042	G	A	94353042	3	1	664	1	0	0	0	0	1	0	0	0	11967	1145	40	1	2355	1	PIWIL4	11	94353042	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1775891	94353042	40653474	583	41893										
BIRC3	330	broad.mit.edu	37	chr11	102201825	102201825	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggaaatgggctttagtagaAgcctggtaaaacagacagtt	12	5	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:102201825A>G	ENST00000263464.3	+	6	3927	c.1177A>G	c.(1177-1179)Agc>Ggc	p.S393G	BIRC3_ENST00000532808.1_Missense_Mutation_p.S393G	NM_001165.4	NP_001156.1	Q13489	BIRC3_HUMAN	baculoviral IAP repeat containing 3	393					apoptotic process (GO:0006915)|cell surface receptor signaling pathway (GO:0007166)|innate immune response (GO:0045087)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of necroptotic process (GO:0060546)|negative regulation of phosphorylation (GO:0042326)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|NIK/NF-kappaB signaling (GO:0038061)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of protein ubiquitination (GO:0031398)|protein heterooligomerization (GO:0051291)|protein ubiquitination (GO:0016567)|regulation of apoptotic process (GO:0042981)|regulation of cysteine-type endopeptidase activity (GO:2000116)|regulation of inflammatory response (GO:0050727)|regulation of innate immune response (GO:0045088)|regulation of necroptotic process (GO:0060544)|regulation of nucleotide-binding oligomerization domain containing signaling pathway (GO:0070424)|regulation of RIG-I signaling pathway (GO:0039535)|regulation of toll-like receptor signaling pathway (GO:0034121)|spermatogenesis (GO:0007283)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor signaling pathway (GO:0002224)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane raft (GO:0045121)|nucleus (GO:0005634)|protein complex (GO:0043234)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			endometrium(3)|kidney(2)|large_intestine(7)|lung(5)|ovary(3)|skin(1)	21	all_cancers(8;0.00044)|all_epithelial(12;0.00348)|Lung NSC(15;0.227)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0093)	Lung(13;0.109)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0146)		CTTTAGTAGAAGCCTGGTAAA	0.383			T	MALT1	MALT																																		Dom	yes		11	11q22-q23	330	baculoviral IAP repeat-containing 3		L	0													101	103	103					11																	102201825		2203	4299	6502	SO:0001583	missense	330			L49432	CCDS8315.1	11q22	2011-01-25	2011-01-25			ENSG00000023445		"Baculoviral IAP repeat containing", "RING-type (C3HC4) zinc fingers"	591	protein-coding gene	gene with protein product	"apoptosis inhibitor 2", "TNFR2-TRAF signaling complex protein", "mammalian IAP homolog C", "inhibitor of apoptosis protein 1"	601721	"baculoviral IAP repeat-containing 3"	API2		8552191, 8548810	Standard	NM_001165		Approved	cIAP2, hiap-1, MIHC, RNF49, MALT2, c-IAP2	uc001pgx.3	Q13489		ENST00000263464.3:c.1177A>G	11.37:g.102201825A>G	ENSP00000263464:p.Ser393Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q16628|Q9HC27|Q9UP46	Missense_Mutation	SNP	ENST00000263464.3	37	CCDS8315.1	.	.	.	.	.	.	.	.	.	.	A	6.750	0.507284	0.12883	.	.	ENSG00000023445	ENST00000263464;ENST00000532808	T;T	0.21932	1.98;1.98	5.19	2.78	0.32641	.	0.645884	0.18860	N	0.129165	T	0.24084	0.0583	M	0.74258	2.255	0.09310	N	1	B	0.06786	0.001	B	0.06405	0.002	T	0.31194	-0.9952	10	0.14252	T	0.57	.	13.8423	0.63446	0.5406:0.4594:0.0:0.0	.	393	Q13489	BIRC3_HUMAN	G	393	ENSP00000263464:S393G;ENSP00000432907:S393G	ENSP00000263464:S393G	S	+	1	0	BIRC3	101707035	0.928000	0.31464	0.067000	0.19924	0.634000	0.38068	2.135000	0.42112	0.398000	0.25338	0.402000	0.26972	AGC		0.383	BIRC3-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394159.1	NM_001165		G	102201825	A	G	102201825	3	3	664	1	0	0	0	0	1	0	0	0	1436	72	3	3	1195	3	BIRC3	11	102201825	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	7848783	102201825	32804691	584	41894										
MMP1	4312	broad.mit.edu;bcgsc.ca	37	chr11	102667418	102667418	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgaaattgttggtccaccttTcatcttcatcaaaatgagca	6	9	4	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:102667418T>C	ENST00000315274.6	-	4	669	c.602A>G	c.(601-603)gAa>gGa	p.E201G	WTAPP1_ENST00000525739.2_RNA	NM_001145938.1|NM_002421.3	NP_001139410.1|NP_002412.1	P03956	MMP1_HUMAN	matrix metallopeptidase 1 (interstitial collagenase)	201	Metalloprotease.				blood coagulation (GO:0007596)|cellular protein metabolic process (GO:0044267)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|leukocyte migration (GO:0050900)|proteolysis (GO:0006508)|viral process (GO:0016032)	extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			breast(2)|endometrium(1)|large_intestine(2)|lung(18)|ovary(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	30	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)	Marimastat(DB00786)	GGTCCACCTTTCATCTTCATC	0.428																																																0													137	119	125					11																	102667418		2203	4299	6502	SO:0001583	missense	4312			X54925	CCDS8322.1	11q21-q22	2014-01-30	2005-08-08		ENSG00000196611	ENSG00000196611	3.4.24.7	"Endogenous ligands"	7155	protein-coding gene	gene with protein product		120353	"matrix metalloproteinase 1 (interstitial collagenase)"	CLG			Standard	NM_002421		Approved		uc001phi.2	P03956	OTTHUMG00000048192	ENST00000315274.6:c.602A>G	11.37:g.102667418T>C	ENSP00000322788:p.Glu201Gly	Somatic		WXS	Illumina HiSeq	Phase_I	P08156	Missense_Mutation	SNP	ENST00000315274.6	37	CCDS8322.1	.	.	.	.	.	.	.	.	.	.	t	24.5	4.542761	0.85917	.	.	ENSG00000196611	ENST00000315274	T	0.32272	1.46	5.87	5.87	0.94306	Peptidase M10, metallopeptidase (1);Peptidase, metallopeptidase (1);Metallopeptidase, catalytic domain (1);	0.083275	0.51477	D	0.000087	T	0.67804	0.2932	H	0.94385	3.53	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.77778	-0.2460	10	0.87932	D	0	.	16.5764	0.84681	0.0:0.0:0.0:1.0	.	201	P03956	MMP1_HUMAN	G	201	ENSP00000322788:E201G	ENSP00000322788:E201G	E	-	2	0	MMP1	102172628	1.000000	0.71417	0.855000	0.33649	0.694000	0.40290	7.655000	0.83696	2.371000	0.80710	0.533000	0.62120	GAA		0.428	MMP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109632.1	NM_002421		C	102667418	T	C	102667418	3	2	664	1	0	0	0	0	1	0	0	0	9655	1783	62	3	835	3	MMP1	11	102667418	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	465593	102667418	32339098	585	41895										
MMP12	4321	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr11	102738681	102738681	+	RNA	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tatgtcatcagcagagaggcGaaatgtgttgatgtcaacat	11	6	3	2	rs183458117		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:102738681G>A	ENST00000532855.1	-	0	840							P39900	MMP12_HUMAN	matrix metallopeptidase 12 (macrophage elastase)						collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|positive regulation of epithelial cell proliferation involved in wound healing (GO:0060054)|proteolysis (GO:0006508)|wound healing, spreading of epidermal cells (GO:0035313)	extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|endopeptidase activity (GO:0004175)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(4)|lung(9)|prostate(5)|skin(1)|upper_aerodigestive_tract(1)	26		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.014)	Acetohydroxamic Acid(DB00551)|Marimastat(DB00786)	GCAGAGAGGCGAAATGTGTTG	0.418													G|||	1	0.000199681	0.0	0.0014	5008	,	,		21284	0.0		0.0	False		,,,				2504	0.0															0													81	79	80					11																	102738681		1918	4125	6043			4321			L23808	CCDS73375.1	11q22.3	2009-02-26	2005-08-08			ENSG00000262406			7158	protein-coding gene	gene with protein product		601046	"matrix metalloproteinase 12 (macrophage elastase)"				Standard	NM_002426		Approved	HME	uc001phk.3	P39900			11.37:g.102738681G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9X8|B7ZLF6|Q2M1L9	Missense_Mutation	SNP	ENST00000532855.1	37																																																																																					0.418	MMP12-001	KNOWN	basic	processed_transcript	processed_transcript	OTTHUMT00000386646.1	NM_002426		A	102738681	G	A	102738681	1	1	664	0	1	0	0	0	0	0	0	0	9658	1049	37	1		1	MMP12	11	102738681	RNA	SNP	G	TCGA-KN-8428-01A-11D-2310-10	71263	102738681	32267835	586	41896										
DYNC2H1	79659	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	102987417	102987417	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgatcattatcctgagtcacGaatgttgcatctcttagaca	7	9	3	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:102987417G>A	ENST00000375735.2	+	5	884	c.740G>A	c.(739-741)cGa>cAa	p.R247Q	DYNC2H1_ENST00000334267.7_Missense_Mutation_p.R247Q|DYNC2H1_ENST00000398093.3_Missense_Mutation_p.R247Q	NM_001080463.1|NM_001377.2	NP_001073932.1|NP_001368.2	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	247	Stem. {ECO:0000250}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|asymmetric protein localization (GO:0008105)|cilium assembly (GO:0042384)|determination of left/right symmetry (GO:0007368)|dorsal/ventral pattern formation (GO:0009953)|embryonic limb morphogenesis (GO:0030326)|forebrain development (GO:0030900)|Golgi organization (GO:0007030)|intraciliary retrograde transport (GO:0035721)|positive regulation of smoothened signaling pathway (GO:0045880)|protein processing (GO:0016485)|spinal cord motor neuron differentiation (GO:0021522)	apical part of cell (GO:0045177)|axoneme (GO:0005930)|cytosol (GO:0005829)|dynein complex (GO:0030286)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|motile primary cilium (GO:0031512)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)|motor activity (GO:0003774)			NS(1)|endometrium(4)|kidney(5)|large_intestine(9)|lung(9)|ovary(1)|prostate(2)|upper_aerodigestive_tract(2)	33		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		CCTGAGTCACGAATGTTGCAT	0.348																																																0													202	193	196					11																	102987417		1880	4111	5991	SO:0001583	missense	79659			AB082528	CCDS44717.1, CCDS53701.1	11q21-q22.1	2011-06-02	2005-11-24	2005-11-24	ENSG00000187240	ENSG00000187240		"Cytoplasmic dyneins"	2962	protein-coding gene	gene with protein product		603297	"dynein, cytoplasmic, heavy polypeptide 2"	DNCH2		9763680, 9373155	Standard	NM_001080463		Approved	hdhc11, DHC2, DHC1b, DYH1B	uc001phn.1	Q8NCM8	OTTHUMG00000165941	ENST00000375735.2:c.740G>A	11.37:g.102987417G>A	ENSP00000364887:p.Arg247Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O00432|Q16693|Q3C1U8|Q4AC93|Q6ZMX7|Q6ZUM6|Q7Z363|Q8N977|Q92815|Q9HAE4	Missense_Mutation	SNP	ENST00000375735.2	37	CCDS53701.1	.	.	.	.	.	.	.	.	.	.	G	35	5.476600	0.96291	.	.	ENSG00000187240	ENST00000375735;ENST00000334267;ENST00000398093	T;T;T	0.70399	-0.48;-0.48;-0.48	5.49	5.49	0.81192	Dynein heavy chain, domain-1 (1);	0.636430	0.11876	U	0.521016	D	0.86125	0.5858	M	0.77820	2.39	0.80722	D	1	D;D;D	0.89917	1.0;0.98;0.997	D;P;P	0.83275	0.996;0.832;0.868	D	0.85384	0.1121	10	0.87932	D	0	.	19.3705	0.94481	0.0:0.0:1.0:0.0	.	247;247;247	Q8NCM8-3;Q8NCM8;Q8NCM8-2	.;DYHC2_HUMAN;.	Q	247	ENSP00000364887:R247Q;ENSP00000334021:R247Q;ENSP00000381167:R247Q	ENSP00000334021:R247Q	R	+	2	0	DYNC2H1	102492627	1.000000	0.71417	0.965000	0.40720	0.941000	0.58515	9.476000	0.97823	2.567000	0.86603	0.650000	0.86243	CGA		0.348	DYNC2H1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387196.1	XM_370652		A	102987417	G	A	102987417	3	1	664	1	0	0	0	0	1	0	0	0	4848	1058	37	1	758	1	DYNC2H1	11	102987417	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	248736	102987417	32019099	587	41897										
ATM	472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	108201014	108201014	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cactgaaagaggatcgtaaaCgcttcttatgtaaagcagtt	9	7	1	2	rs201314561		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:108201014C>T	ENST00000452508.2	+	51	7570	c.7381C>T	c.(7381-7383)Cgc>Tgc	p.R2461C	ATM_ENST00000278616.4_Missense_Mutation_p.R2461C|C11orf65_ENST00000525729.1_Intron			Q13315	ATM_HUMAN	ATM serine/threonine kinase	2461	FAT. {ECO:0000255|PROSITE- ProRule:PRU00534}.				brain development (GO:0007420)|cell cycle arrest (GO:0007050)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to gamma radiation (GO:0071480)|DNA damage induced protein phosphorylation (GO:0006975)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|heart development (GO:0007507)|histone mRNA catabolic process (GO:0071044)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|lipoprotein catabolic process (GO:0042159)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of B cell proliferation (GO:0030889)|neuron apoptotic process (GO:0051402)|oocyte development (GO:0048599)|peptidyl-serine phosphorylation (GO:0018105)|phosphatidylinositol-3-phosphate biosynthetic process (GO:0036092)|positive regulation of apoptotic process (GO:0043065)|positive regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043517)|positive regulation of neuron apoptotic process (GO:0043525)|pre-B cell allelic exclusion (GO:0002331)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|reciprocal meiotic recombination (GO:0007131)|replicative senescence (GO:0090399)|response to hypoxia (GO:0001666)|response to ionizing radiation (GO:0010212)|signal transduction (GO:0007165)|signal transduction involved in mitotic G2 DNA damage checkpoint (GO:0072434)|somitogenesis (GO:0001756)|telomere maintenance (GO:0000723)	cytoplasmic vesicle (GO:0031410)|nucleoplasm (GO:0005654)|spindle (GO:0005819)	1-phosphatidylinositol-3-kinase activity (GO:0016303)|ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA-dependent protein kinase activity (GO:0004677)|histone serine kinase activity (GO:0035174)|protein complex binding (GO:0032403)|protein dimerization activity (GO:0046983)|protein N-terminus binding (GO:0047485)|protein serine/threonine kinase activity (GO:0004674)			NS(4)|breast(23)|central_nervous_system(11)|endometrium(10)|haematopoietic_and_lymphoid_tissue(227)|kidney(19)|large_intestine(53)|liver(5)|lung(62)|ovary(6)|pancreas(4)|prostate(13)|skin(4)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	448		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)	Caffeine(DB00201)	GGATCGTAAACGCTTCTTATG	0.388			"D, Mis, N, F, S"		T-PLL	"leukemia, lymphoma, medulloblastoma, glioma"		Genes defective in diseases associated with sensitivity to DNA damaging agents	Ataxia Telangiectasia	TSP Lung(14;0.12)			C|||	1	0.000199681	0.0008	0.0	5008	,	,		20856	0.0		0.0	False		,,,				2504	0.0					yes	Rec	yes	Ataxia-telangiectasia	11	11q22.3	472	ataxia telangiectasia mutated		"L, O"	0								C	CYS/ARG	3,4399	6.2+/-15.9	0,3,2198	127	130	129		7381	4.7	1	11		129	0,8596		0,0,4298	no	missense	ATM	NM_000051.3	180	0,3,6496	TT,TC,CC		0.0,0.0682,0.0231	probably-damaging	2461/3057	108201014	3,12995	2201	4298	6499	SO:0001583	missense	472	Familial Cancer Database	AT, Louis-Bar syndrome	AB209133	CCDS31669.1	11q22-q23	2014-09-17	2014-06-17		ENSG00000149311	ENSG00000149311			795	protein-coding gene	gene with protein product	"TEL1, telomere maintenance 1, homolog (S. cerevisiae)"	607585	"ataxia telangiectasia mutated (includes complementation groups A, C and D)", "ataxia telangiectasia mutated"	ATA, ATDC, ATC, ATD			Standard	XM_005271561		Approved	TEL1, TELO1	uc001pkb.1	Q13315	OTTHUMG00000166480	ENST00000452508.2:c.7381C>T	11.37:g.108201014C>T	ENSP00000388058:p.Arg2461Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNX5|O15429|Q12758|Q16551|Q93007|Q9NP02|Q9UCX7	Missense_Mutation	SNP	ENST00000452508.2	37	CCDS31669.1	.	.	.	.	.	.	.	.	.	.	C	26.1	4.701750	0.88924	6.82E-4	0.0	ENSG00000149311	ENST00000278616;ENST00000452508	D;D	0.83591	-1.74;-1.74	4.7	4.7	0.59300	PIK-related kinase (1);PIK-related kinase, FAT (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	D	0.90150	0.6922	M	0.72118	2.19	0.80722	D	1	D	0.89917	1.0	D	0.73380	0.98	D	0.91062	0.4886	10	0.59425	D	0.04	.	16.9756	0.86312	0.0:1.0:0.0:0.0	.	2461	Q13315	ATM_HUMAN	C	2461	ENSP00000278616:R2461C;ENSP00000388058:R2461C	ENSP00000278616:R2461C	R	+	1	0	ATM	107706224	1.000000	0.71417	1.000000	0.80357	0.885000	0.51271	4.480000	0.60243	2.293000	0.77203	0.561000	0.74099	CGC		0.388	ATM-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389938.1	NM_000051		T	108201014	C	T	108201014	3	4	664	1	0	0	0	0	1	0	0	0	1109	536	19	1	7575	1	ATM	11	108201014	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5213597	108201014	26805502	588	41898										
PIH1D2	120379	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	111938616	111938616	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cacaccaaaggcattgtgatGattagcgtggatttttcttt	9	7	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:111938616G>A	ENST00000280350.4	-	6	1149	c.927C>T	c.(925-927)atC>atT	p.I309I	PIH1D2_ENST00000532211.1_Silent_p.I309I|PIH1D2_ENST00000431456.1_Intron|PIH1D2_ENST00000528775.1_Intron	NM_138789.3	NP_620144.1	Q8WWB5	PIHD2_HUMAN	PIH1 domain containing 2	309										endometrium(2)|kidney(1)|large_intestine(2)|lung(2)|ovary(1)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	11		all_cancers(61;1.09e-14)|all_epithelial(67;7.64e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;3.19e-07)|BRCA - Breast invasive adenocarcinoma(274;6.17e-07)|all cancers(92;6.18e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0508)		GCATTGTGATGATTAGCGTGG	0.343																																																0													174	164	167					11																	111938616		2201	4296	6497	SO:0001819	synonymous_variant	120379			BC019238	CCDS8355.1, CCDS44730.1	11q23.1	2007-01-31			ENSG00000150773	ENSG00000150773			25210	protein-coding gene	gene with protein product						12477932	Standard	NM_138789		Approved		uc001pmp.4	Q8WWB5	OTTHUMG00000166925	ENST00000280350.4:c.927C>T	11.37:g.111938616G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DU48|E9PD82	Silent	SNP	ENST00000280350.4	37	CCDS8355.1																																																																																				0.343	PIH1D2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391916.1	NM_138789		A	111938616	G	A	111938616	2	1	664	1	0	0	0	0	0	0	0	1	11914	1280	45	2		2	PIH1D2	11	111938616	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3737602	111938616	23067900	589	41899										
TTC12	54970	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr11	113187003	113187003	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gatgctgataaagagaaagaTttgcagaaatttcttaaaaa	8	3	1	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:113187003T>A	ENST00000529221.1	+	2	129	c.24T>A	c.(22-24)gaT>gaA	p.D8E	RP11-839D17.3_ENST00000533504.1_RNA|TTC12_ENST00000314756.3_Missense_Mutation_p.D8E|RP11-839D17.3_ENST00000526487.1_RNA|TTC12_ENST00000483239.2_Missense_Mutation_p.D8E|TTC12_ENST00000393020.1_Missense_Mutation_p.D8E	NM_017868.3	NP_060338.3	Q9H892	TTC12_HUMAN	tetratricopeptide repeat domain 12	8										breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(12)|pancreas(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	32		all_cancers(61;2.73e-16)|all_epithelial(67;8.64e-10)|Melanoma(852;1.46e-05)|all_hematologic(158;0.00014)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.183)|Renal(330;0.187)		BRCA - Breast invasive adenocarcinoma(274;5.3e-06)|Epithelial(105;8.37e-05)|all cancers(92;0.000694)		AAGAGAAAGATTTGCAGAAAT	0.333																																																0													44	48	47					11																	113187003		2201	4295	6496	SO:0001583	missense	54970			AK000542	CCDS8360.2	11q23.2	2013-01-10			ENSG00000149292	ENSG00000149292		"Tetratricopeptide (TTC) repeat domain containing"	23700	protein-coding gene	gene with protein product		610732				12964006	Standard	XM_005271607		Approved	FLJ13859, FLJ20535, TPARM	uc001pnu.3	Q9H892	OTTHUMG00000142832	ENST00000529221.1:c.24T>A	11.37:g.113187003T>A	ENSP00000433757:p.Asp8Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N5H9|Q9NWY3	Missense_Mutation	SNP	ENST00000529221.1	37	CCDS8360.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	13.16|13.16	2.154401|2.154401	0.38021|0.38021	.|.	.|.	ENSG00000149292|ENSG00000149292	ENST00000529221;ENST00000429951;ENST00000442859;ENST00000529850;ENST00000314756;ENST00000525965;ENST00000393020;ENST00000455306;ENST00000483239|ENST00000524580	T;T;T;T;T;T;T;T;T|.	0.56275|.	2.56;0.47;1.65;1.05;2.51;1.03;2.49;1.65;2.57|.	4.87|4.87	-0.324|-0.324	0.12706|0.12706	.|.	0.911967|.	0.09570|.	N|.	0.784259|.	T|T	0.50990|0.50990	0.1648|0.1648	M|M	0.64997|0.64997	1.995|1.995	0.29800|0.29800	N|N	0.832486|0.832486	P;P|.	0.46706|.	0.883;0.883|.	B;B|.	0.43301|.	0.415;0.415|.	T|T	0.55075|0.55075	-0.8197|-0.8197	10|6	0.34782|0.87932	T|D	0.22|0	-26.8681|-26.8681	8.7028|8.7028	0.34336|0.34336	0.0:0.4798:0.0:0.5202|0.0:0.4798:0.0:0.5202	.|.	8;8|.	A8K8G6;Q9H892|.	.;TTC12_HUMAN|.	E|N	8|7	ENSP00000433757:D8E;ENSP00000413335:D8E;ENSP00000400039:D8E;ENSP00000431806:D8E;ENSP00000315160:D8E;ENSP00000435308:D8E;ENSP00000376743:D8E;ENSP00000402004:D8E;ENSP00000419652:D8E|.	ENSP00000315160:D8E|ENSP00000436677:I7N	D|I	+|+	3|2	2|0	TTC12|TTC12	112692213|112692213	0.987000|0.987000	0.35691|0.35691	0.990000|0.990000	0.47175|0.47175	0.748000|0.748000	0.42578|0.42578	-0.111000|-0.111000	0.10807|0.10807	-0.230000|-0.230000	0.09840|0.09840	0.460000|0.460000	0.39030|0.39030	GAT|ATT		0.333	TTC12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286455.2	NM_017868		A	113187003	T	A	113187003	3	1	664	1	0	0	0	0	1	0	0	0	16691	1490	52	5	26	5	TTC12	11	113187003	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1248387	113187003	21819513	590	41900										
C11orf71	54494	broad.mit.edu	37	chr11	114262382	114262382	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agatagcttcagggtccaggTagtaactaaaatacacaaaa	8	7	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:114262382T>C	ENST00000325636.4	-	2	434	c.349A>G	c.(349-351)Acc>Gcc	p.T117A		NM_019021.3	NP_061894.2	Q6IPW1	CK071_HUMAN	chromosome 11 open reading frame 71	0										large_intestine(3)|lung(1)	4		all_cancers(61;1.15e-11)|all_epithelial(67;5.3e-06)|all_hematologic(158;0.000303)|Acute lymphoblastic leukemia(157;0.000966)|Melanoma(852;0.00153)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.0818)|Prostate(24;0.104)		BRCA - Breast invasive adenocarcinoma(274;2.6e-06)|Epithelial(105;4.31e-05)|all cancers(92;0.00036)		agggtccaggtagtaactaaa	0.358																																																0													68	64	65					11																	114262382		692	1591	2283	SO:0001583	missense	54494			BC071695	CCDS8369.2	11q23.2	2012-08-09			ENSG00000180425	ENSG00000180425			25937	protein-coding gene	gene with protein product						12477932	Standard	NM_001271562		Approved	FLJ20010	uc001pot.2	Q6IPW1	OTTHUMG00000168247	ENST00000325636.4:c.349A>G	11.37:g.114262382T>C	ENSP00000325508:p.Thr117Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IAD3|Q9NXX1	Missense_Mutation	SNP	ENST00000325636.4	37	CCDS8369.2	.	.	.	.	.	.	.	.	.	.	T	8.947	0.967299	0.18659	.	.	ENSG00000180425	ENST00000325636	.	.	.	1.61	-1.44	0.08856	.	.	.	.	.	T	0.25975	0.0633	.	.	.	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.19386	-1.0307	7	0.45353	T	0.12	0.035	4.8719	0.13637	0.0:0.6068:0.0:0.3932	.	117	Q6IPW1-2	.	A	117	.	ENSP00000325508:T117A	T	-	1	0	C11orf71	113767592	0.016000	0.18221	0.027000	0.17364	0.105000	0.19272	0.071000	0.14594	-0.306000	0.08818	0.372000	0.22366	ACC		0.358	C11orf71-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398959.1	NM_019021		C	114262382	T	C	114262382	3	2	664	1	0	0	0	0	1	0	0	0	1662	1638	57	3	98	3	C11orf71	11	114262382	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1075379	114262382	20744134	591	41901										
CEP164	22897	broad.mit.edu	37	chr11	117262985	117262985	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcacagtgctgagctggagcGgctctgctcctcattggagg	15	11	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:117262985G>A	ENST00000278935.3	+	18	2474	c.2327G>A	c.(2326-2328)cGg>cAg	p.R776Q	CEP164_ENST00000533706.1_3'UTR	NM_001271933.1|NM_014956.4	NP_001258862.1|NP_055771.4	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	776	Glu-rich.				cilium assembly (GO:0042384)|DNA repair (GO:0006281)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	centriole (GO:0005814)|centrosome (GO:0005813)|ciliary transition fiber (GO:0097539)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular space (GO:0005615)|nucleus (GO:0005634)				breast(3)|central_nervous_system(1)|kidney(7)|large_intestine(12)|lung(18)|ovary(3)|prostate(3)	47	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)		GAGCTGGAGCGGCTCTGCTCC	0.597																																																0													51	47	48					11																	117262985		2201	4296	6497	SO:0001583	missense	22897			AB028975	CCDS31683.1	11q23.3	2014-02-20			ENSG00000110274	ENSG00000110274			29182	protein-coding gene	gene with protein product		614848				10470851, 14654843	Standard	NM_014956		Approved	KIAA1052, NPHP15	uc001prc.3	Q9UPV0	OTTHUMG00000167070	ENST00000278935.3:c.2327G>A	11.37:g.117262985G>A	ENSP00000278935:p.Arg776Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PKH9|Q7Z2X9|Q9NVS0|Q9UFJ6	Missense_Mutation	SNP	ENST00000278935.3	37	CCDS31683.1	.	.	.	.	.	.	.	.	.	.	G	9.955	1.221185	0.22457	.	.	ENSG00000110274	ENST00000278935;ENST00000529538;ENST00000375253	T	0.41400	1.0	4.56	-2.63	0.06133	.	0.705996	0.12139	N	0.496071	T	0.19406	0.0466	N	0.12746	0.255	0.20074	N	0.999936	B;B;B;B	0.27117	0.047;0.168;0.078;0.078	B;B;B;B	0.20384	0.013;0.029;0.016;0.016	T	0.14559	-1.0468	10	0.27082	T	0.32	-4.898	7.9665	0.30102	0.6098:0.1213:0.2689:0.0	.	750;550;776;779	E9PI34;Q9NTH6;Q9UPV0;Q9UPV0-2	.;.;CE164_HUMAN;.	Q	776;750;657	ENSP00000278935:R776Q	ENSP00000278935:R776Q	R	+	2	0	CEP164	116768195	0.023000	0.18921	0.071000	0.20095	0.417000	0.31264	-0.959000	0.03853	-0.842000	0.04195	-0.339000	0.08088	CGG		0.597	CEP164-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392893.1	NM_014956		A	117262985	G	A	117262985	3	1	664	1	0	0	0	0	1	0	0	0	3251	1116	39	1	2389	1	CEP164	11	117262985	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3000603	117262985	17743531	592	41902										
MFRP	83552	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr11	119212383	119212383	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgcttcctggcagacagagcGgcaagggggcagaacactgc	15	12	0	3	rs374823079		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:119212383G>A	ENST00000530681.1	-	13	1759	c.1615C>T	c.(1615-1617)Cgc>Tgc	p.R539C	C1QTNF5_ENST00000528368.1_5'Flank|MFRP_ENST00000449574.2_Missense_Mutation_p.R539C|MFRP_ENST00000360167.4_Missense_Mutation_p.R421C|C1QTNF5_ENST00000445041.2_5'UTR|MFRP_ENST00000555262.1_Missense_Mutation_p.R539C|C1QTNF5_ENST00000525657.1_5'Flank	NM_001278431.1	NP_001265360.1	Q9BY79	MFRP_HUMAN	membrane frizzled-related protein	539	FZ. {ECO:0000255|PROSITE- ProRule:PRU00090}.				embryo development (GO:0009790)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(8)|prostate(1)|urinary_tract(1)	18		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		CAGACAGAGCGGCAAGGGGGC	0.647																																																0								G	CYS/ARG,	0,4398		0,0,2199	31	37	35		1615,	4	1	11		35	1,8589	1.2+/-3.3	0,1,4294	no	missense,utr-5	MFRP,C1QTNF5	NM_031433.2,NM_015645.3	180,	0,1,6493	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging,	539/580,	119212383	1,12987	2199	4295	6494	SO:0001583	missense	83552			AB055505	CCDS8421.1	11q23.3	2014-01-28			ENSG00000235718	ENSG00000235718			18121	protein-coding gene	gene with protein product	"membrane-type frizzled-related protein", "complement C1q tumor necrosis factor-related protein 5 precursor variant 1"	606227				11263980	Standard	NM_031433		Approved	FLJ30570, rd6, NNO2, C1QTNF5	uc001pwj.2	Q9BY79		ENST00000530681.1:c.1615C>T	11.37:g.119212383G>A	ENSP00000456533:p.Arg539Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ36|B0YJ37|B4DHN8|Q335M3|Q96DQ9	Missense_Mutation	SNP	ENST00000530681.1	37	CCDS8421.1	.	.	.	.	.	.	.	.	.	.	G	21.2	4.106910	0.77096	0.0	1.16E-4	ENSG00000235718	ENST00000555262;ENST00000449574;ENST00000360167	T;T;T	0.61510	0.1;0.1;0.1	4.89	3.95	0.45737	Frizzled domain (4);	0.000000	0.85682	D	0.000000	T	0.80644	0.4662	M	0.93150	3.385	0.58432	D	0.999998	D;D	0.89917	0.997;1.0	P;D	0.85130	0.887;0.997	D	0.84126	0.0409	10	0.54805	T	0.06	-22.1657	12.8114	0.57641	0.0:0.0:0.7042:0.2958	.	421;539	B4DHN8;Q9BY79	.;MFRP_HUMAN	C	539;539;421	ENSP00000450509:R539C;ENSP00000391664:R539C;ENSP00000353291:R421C	ENSP00000353291:R421C	R	-	1	0	MFRP	118717593	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	4.980000	0.63812	1.000000	0.39049	0.561000	0.74099	CGC		0.647	MFRP-001	KNOWN	basic|appris_principal|readthrough_transcript|CCDS	nonsense_mediated_decay	protein_coding	OTTHUMT00000415179.1	NM_031433		A	119212383	G	A	119212383	3	1	664	1	0	0	0	0	1	0	0	0	9533	1116	39	1	128	1	MFRP	11	119212383	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1949398	119212383	15794133	593	41903										
SRPR	6734	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	126135007	126135007	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgctccacggccccagcacGaaatgtatcacaggcagcaa	9	15	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:126135007G>A	ENST00000332118.6	-	11	1526	c.1372C>T	c.(1372-1374)Cgt>Tgt	p.R458C	SRPR_ENST00000532259.1_Missense_Mutation_p.R430C|SRPR_ENST00000530680.1_5'Flank	NM_003139.3	NP_003130.2	P08240	SRPR_HUMAN	signal recognition particle receptor (docking protein)	458					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|cotranslational protein targeting to membrane (GO:0006613)|endoplasmic reticulum unfolded protein response (GO:0030968)|gene expression (GO:0010467)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|signal recognition particle receptor complex (GO:0005785)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|poly(A) RNA binding (GO:0044822)|signal recognition particle binding (GO:0005047)			endometrium(7)|large_intestine(2)|lung(9)|ovary(2)|prostate(1)	21	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)		GCCCCAGCACGAAATGTATCA	0.517																																																0													57	54	55					11																	126135007		2201	4299	6500	SO:0001583	missense	6734			BC001162	CCDS31717.1, CCDS53722.1	11q24-q25	2012-10-02	2008-10-29		ENSG00000182934	ENSG00000182934			11307	protein-coding gene	gene with protein product		182180	"signal recognition particle receptor ('docking protein')"			3340536, 1312991	Standard	NM_001177842		Approved	SRP-alpha, Sralpha	uc001qdh.3	P08240	OTTHUMG00000165826	ENST00000332118.6:c.1372C>T	11.37:g.126135007G>A	ENSP00000328023:p.Arg458Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NIB3|B2R5Z8|B4E0H3|E9PJS4|Q9BVJ4	Missense_Mutation	SNP	ENST00000332118.6	37	CCDS31717.1	.	.	.	.	.	.	.	.	.	.	G	33	5.231973	0.95207	.	.	ENSG00000182934	ENST00000332118;ENST00000532259	.	.	.	5.26	5.26	0.73747	ATPase, AAA+ type, core (1);Signal recognition particle, SRP54 subunit, GTPase (2);	0.000000	0.85682	D	0.000000	D	0.91771	0.7397	H	0.99415	4.555	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.95098	0.8228	9	0.87932	D	0	-8.6525	19.0619	0.93096	0.0:0.0:1.0:0.0	.	430;458	E9PJS4;P08240	.;SRPR_HUMAN	C	458;430	.	ENSP00000328023:R458C	R	-	1	0	SRPR	125640217	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	9.345000	0.97053	2.744000	0.94065	0.650000	0.86243	CGT		0.517	SRPR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386425.2	NM_003139		A	126135007	G	A	126135007	3	1	664	1	0	0	0	0	1	0	0	0	15174	1058	37	1	560	1	SRPR	11	126135007	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6922624	126135007	8871509	594	41904										
KCNJ1	3758	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	128709264	128709264	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctctgggacataggatgtcCggacttggcaggtagcactg	14	10	1	0	rs373198476		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:128709264C>T	ENST00000392664.2	-	2	1048	c.932G>A	c.(931-933)cGg>cAg	p.R311Q	KCNJ1_ENST00000392666.1_Missense_Mutation_p.R292Q|KCNJ1_ENST00000324036.3_Missense_Mutation_p.R292Q|KCNJ1_ENST00000392665.2_Missense_Mutation_p.R292Q|KCNJ1_ENST00000440599.2_Missense_Mutation_p.R292Q	NM_000220.4	NP_000211.1	P48048	KCNJ1_HUMAN	potassium inwardly-rectifying channel, subfamily J, member 1	311					cardiovascular system development (GO:0072358)|excretion (GO:0007588)|kidney development (GO:0001822)|post-embryonic development (GO:0009791)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|regulation of G-protein activated inward rectifier potassium channel activity (GO:1900128)|renal sodium ion absorption (GO:0070294)|synaptic transmission (GO:0007268)|tissue homeostasis (GO:0001894)	plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	ATP binding (GO:0005524)|inward rectifier potassium channel activity (GO:0005242)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)			breast(2)|endometrium(1)|large_intestine(5)|lung(11)|ovary(3)|skin(1)	23	all_hematologic(175;0.0641)	all_lung(97;4.89e-06)|Lung NSC(97;9.34e-06)|Breast(109;0.00123)|all_hematologic(192;0.00793)|Renal(330;0.0112)|all_neural(223;0.0189)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;4.05e-06)|LUSC - Lung squamous cell carcinoma(976;0.008)|Lung(977;0.00942)	Bethanidine(DB00217)|Glimepiride(DB00222)|Glyburide(DB01016)|Glycodiazine(DB01382)|Minoxidil(DB00350)|Tolazamide(DB00839)|Tolbutamide(DB01124)|Yohimbine(DB01392)	ATAGGATGTCCGGACTTGGCA	0.498													C|||	1	0.000199681	0.0	0.0014	5008	,	,		20427	0.0		0.0	False		,,,				2504	0.0															0			GRCh37	CM994546	KCNJ1	M		C	GLN/ARG,GLN/ARG,GLN/ARG,GLN/ARG,GLN/ARG	0,4402		0,0,2201	73	69	70		932,875,875,875,875	5.6	1	11		70	1,8593	1.2+/-3.3	0,1,4296	no	missense,missense,missense,missense,missense	KCNJ1	NM_000220.2,NM_153764.1,NM_153765.1,NM_153766.1,NM_153767.2	43,43,43,43,43	0,1,6497	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging	311/392,292/373,292/373,292/373,292/373	128709264	1,12995	2201	4297	6498	SO:0001583	missense	3758			BC063109	CCDS8476.1, CCDS8477.1	11q24	2011-07-05			ENSG00000151704	ENSG00000151704		"Potassium channels", "Voltage-gated ion channels / Potassium channels, Inwardly rectifying"	6255	protein-coding gene	gene with protein product		600359				7680431, 8190102, 16382105	Standard	NM_153765		Approved	Kir1.1, ROMK1	uc001qeo.2	P48048	OTTHUMG00000048247	ENST00000392664.2:c.932G>A	11.37:g.128709264C>T	ENSP00000376432:p.Arg311Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMR4|Q6LD67	Missense_Mutation	SNP	ENST00000392664.2	37	CCDS8476.1	.	.	.	.	.	.	.	.	.	.	C	32	5.192115	0.94923	0.0	1.16E-4	ENSG00000151704	ENST00000392665;ENST00000392666;ENST00000440599;ENST00000324036;ENST00000392664	D;D;D;D;D	0.94758	-3.51;-3.51;-3.51;-3.51;-3.51	5.63	5.63	0.86233	Immunoglobulin E-set (1);Potassium channel, inwardly rectifying, Kir, conserved region 2 (2);Potassium channel, inwardly rectifying, Kir, cytoplasmic (1);	0.000000	0.85682	D	0.000000	D	0.98055	0.9359	M	0.93106	3.38	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.98703	1.0701	10	0.87932	D	0	.	19.6914	0.96002	0.0:1.0:0.0:0.0	.	311	P48048	IRK1_HUMAN	Q	292;292;292;292;311	ENSP00000376433:R292Q;ENSP00000376434:R292Q;ENSP00000406320:R292Q;ENSP00000316233:R292Q;ENSP00000376432:R311Q	ENSP00000316233:R292Q	R	-	2	0	KCNJ1	128214474	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.818000	0.86416	2.644000	0.89710	0.563000	0.77884	CGG		0.498	KCNJ1-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000386233.1	NM_000220		T	128709264	C	T	128709264	3	4	664	1	0	0	0	0	1	0	0	0	8050	652	23	1	247	1	KCNJ1	11	128709264	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2574257	128709264	6297252	595	41905										
KCNJ5	3762	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr11	128781258	128781258	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagattccaaaacaggcccgCgattatgtccccattgccac	7	14	0	1	rs201886526		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:128781258C>T	ENST00000338350.4	+	3	442	c.90C>T	c.(88-90)cgC>cgT	p.R30R	KCNJ5_ENST00000529694.1_Silent_p.R30R|KCNJ5_ENST00000533599.1_Silent_p.R30R			P48544	KCNJ5_HUMAN	potassium inwardly-rectifying channel, subfamily J, member 5	30					potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|synaptic transmission (GO:0007268)	plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	G-protein activated inward rectifier potassium channel activity (GO:0015467)			NS(1)|breast(1)|endometrium(4)|large_intestine(4)|liver(2)|lung(9)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	26	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)	Glyburide(DB01016)	AACAGGCCCGCGATTATGTCC	0.582													C|||	1	0.000199681	0.0	0.0	5008	,	,		19312	0.0		0.0	False		,,,				2504	0.001				Pancreas(108;2548 5082)|Esophageal Squamous(165;4544 6231)											0													78	80	80					11																	128781258		2201	4297	6498	SO:0001819	synonymous_variant	3762			D50134	CCDS8479.1	11q24	2014-09-17				ENSG00000120457		"Potassium channels", "Voltage-gated ion channels / Potassium channels, Inwardly rectifying"	6266	protein-coding gene	gene with protein product		600734				16382105	Standard	NM_000890		Approved	Kir3.4, CIR, KATP1, GIRK4, LQT13	uc001qet.3	P48544		ENST00000338350.4:c.90C>T	11.37:g.128781258C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R744|Q6DK13|Q6DK14|Q92807	Silent	SNP	ENST00000338350.4	37	CCDS8479.1																																																																																				0.582	KCNJ5-003	PUTATIVE	alternative_5_UTR|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000386239.1	NM_000890		T	128781258	C	T	128781258	2	4	664	1	0	0	0	0	0	0	0	1	8061	755	27	1		1	KCNJ5	11	128781258	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	71994	128781258	6225258	596	41906										
IGSF9B	22997	broad.mit.edu;mdanderson.org	37	chr11	133800913	133800913	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgggtgctggcagtgatgctCgtgaccacgttggtggcgac	17	9	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:133800913C>T	ENST00000321016.8	-	11	1715	c.1485G>A	c.(1483-1485)acG>acA	p.T495T	IGSF9B_ENST00000533871.2_Silent_p.T495T			Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	495	Ig-like 5.				homophilic cell adhesion (GO:0007156)|positive regulation of inhibitory postsynaptic membrane potential (GO:0097151)	dendrite (GO:0030425)|inhibitory synapse (GO:0060077)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)				breast(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(18)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	44	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)		CAGTGATGCTCGTGACCACGT	0.682																																																0													66	75	72					11																	133800913		2199	4294	6493	SO:0001819	synonymous_variant	22997			AK097578	CCDS61010.1	11q25	2013-02-11	2005-10-12	2005-11-20				"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	32326	protein-coding gene	gene with protein product		613773					Standard	NM_001277285		Approved	KIAA1030	uc031qfh.1	Q9UPX0		ENST00000321016.8:c.1485G>A	11.37:g.133800913C>T		Somatic		WXS	Illumina HiSeq	Phase_I	G5EA26	Silent	SNP	ENST00000321016.8	37																																																																																					0.682	IGSF9B-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		XM_290502		T	133800913	C	T	133800913	2	4	664	1	0	0	0	0	0	0	0	1	7613	871	31	1		1	IGSF9B	11	133800913	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5019655	133800913	1205603	597	41907										
JAM3	83700	broad.mit.edu;hgsc.bcm.edu	37	chr11	134009776	134009777	+	Nonsense_Mutation	DNP	CC	CC	AA													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggggctgtaaatctcaaatCcagcaatcgaaccccagtgg					rs143947882		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:134009776_134009777CC>AA	ENST00000299106.4	+	2	266_267	c.107_108CC>AA	c.(106-108)tCC>tAA	p.S36*	JAM3_ENST00000529443.2_Nonsense_Mutation_p.S81*|JAM3_ENST00000524969.1_3'UTR|JAM3_ENST00000441717.3_Nonsense_Mutation_p.S36*			Q9BX67	JAM3_HUMAN	junctional adhesion molecule 3	36	Ig-like V-type.				adaptive immune response (GO:0002250)|angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|cell-matrix adhesion (GO:0007160)|establishment of cell polarity (GO:0030010)|extracellular matrix organization (GO:0030198)|leukocyte migration (GO:0050900)|leukocyte migration involved in inflammatory response (GO:0002523)|myelination (GO:0042552)|myeloid progenitor cell differentiation (GO:0002318)|neutrophil homeostasis (GO:0001780)|regulation of actin cytoskeleton organization by cell-cell adhesion (GO:0090138)|regulation of neutrophil chemotaxis (GO:0090022)|spermatid development (GO:0007286)|transmission of nerve impulse (GO:0019226)	cell-cell contact zone (GO:0044291)|desmosome (GO:0030057)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|paranodal junction (GO:0033010)|plasma membrane (GO:0005886)|Schmidt-Lanterman incisure (GO:0043220)|tight junction (GO:0005923)	integrin binding (GO:0005178)			breast(1)|endometrium(1)|large_intestine(3)|lung(3)|ovary(1)|pancreas(1)	10	all_hematologic(175;0.127)	all_cancers(12;1.06e-21)|all_epithelial(12;3.37e-16)|all_lung(97;7.03e-06)|Lung NSC(97;1.67e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0506)|Esophageal squamous(93;0.0566)		Epithelial(10;1.55e-09)|BRCA - Breast invasive adenocarcinoma(10;1.35e-08)|all cancers(11;2.81e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00402)|Lung(977;0.245)		AATCTCAAATCCAGCAATCGAA	0.441											OREG0021547	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0																																										SO:0001587	stop_gained	83700			AF356518	CCDS8494.1, CCDS55799.1, CCDS8494.2	11q25	2013-01-29			ENSG00000166086	ENSG00000166086		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	15532	protein-coding gene	gene with protein product		606871					Standard	NM_032801		Approved	JAM-C, JAMC	uc001qhb.3	Q9BX67	OTTHUMG00000167130	Exception_encountered	11.37:g.134009776_134009777delinsAA	ENSP00000299106:p.Ser36*	Somatic	1607	WXS	Illumina HiSeq	Phase_I	B3KWG9|Q8WWL8|Q96FL1	Silent	DNP	ENST00000299106.4	37	CCDS8494.2																																																																																				0.441	JAM3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000393303.4	NM_032801		AA	134009777	CC	AA	134009776	4	1	664	1	0	0	0	0	0	1	0	0	7951	855	30	4	248	4	JAM3	11	134009776	Nonsense_Mutation	DNP	CC	TCGA-KN-8428-01A-11D-2310-10	208863	134009776	996740	598	41908										
NCAPD3	23310	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr11	134027834	134027834	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaggcttaccctgactgcacGttttttctgggcttccagaa	9	11	1	2	rs116394634	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr11:134027834G>A	ENST00000534548.2	-	31	4227	c.4163C>T	c.(4162-4164)aCg>aTg	p.T1388M		NM_015261.2	NP_056076.1	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	1388					mitotic cell cycle (GO:0000278)|mitotic chromosome condensation (GO:0007076)	germinal vesicle (GO:0042585)|membrane (GO:0016020)|nuclear condensin complex (GO:0000799)|nuclear pericentric heterochromatin (GO:0031618)|nucleoplasm (GO:0005654)	methylated histone binding (GO:0035064)			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(10)|kidney(5)|large_intestine(9)|liver(1)|lung(28)|ovary(3)|prostate(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	71	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		CTGACTGCACGTTTTTTCTGG	0.453													G|||	21	0.00419329	0.0144	0.0014	5008	,	,		19869	0.0		0.001	False		,,,				2504	0.0															0								G	MET/THR	48,4354	49.6+/-84.7	1,46,2154	214	220	218		4163	-5.2	0	11	dbSNP_132	218	1,8593	1.2+/-3.3	0,1,4296	yes	missense	NCAPD3	NM_015261.2	81	1,47,6450	AA,AG,GG		0.0116,1.0904,0.377	benign	1388/1499	134027834	49,12947	2201	4297	6498	SO:0001583	missense	23310			AK124878	CCDS31723.1	11q25	2008-02-04			ENSG00000151503	ENSG00000151503			28952	protein-coding gene	gene with protein product		609276				7584044, 8619474, 14532007	Standard	NM_015261		Approved	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6	uc001qhd.1	P42695	OTTHUMG00000167172	ENST00000534548.2:c.4163C>T	11.37:g.134027834G>A	ENSP00000433681:p.Thr1388Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFS2|Q4KMQ9	Missense_Mutation	SNP	ENST00000534548.2	37	CCDS31723.1	5	0.0022893772893772895	5	0.01016260162601626	0	0.0	0	0.0	0	0.0	G	8.614	0.889716	0.17540	0.010904	1.16E-4	ENSG00000151503	ENST00000534548	T	0.30448	1.53	3.99	-5.24	0.02789	.	1.841410	0.02497	N	0.090091	T	0.12305	0.0299	N	0.22421	0.69	0.09310	N	1	B;B	0.20368	0.032;0.044	B;B	0.13407	0.009;0.004	T	0.12837	-1.0532	10	0.52906	T	0.07	0.2656	1.8603	0.03187	0.2792:0.3818:0.2094:0.1296	.	1388;448	P42695;Q96FA6	CNDD3_HUMAN;.	M	1388	ENSP00000433681:T1388M	ENSP00000433681:T1388M	T	-	2	0	NCAPD3	133533044	0.000000	0.05858	0.000000	0.03702	0.008000	0.06430	0.108000	0.15396	-1.094000	0.03054	0.561000	0.74099	ACG		0.453	NCAPD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393575.2	NM_015261		A	134027834	G	A	134027834	3	1	664	1	0	0	0	0	1	0	0	0	10213	1145	40	1	353	1	NCAPD3	11	134027834	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	18058	134027834	978682	599	41909										
KCNA1	3736	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	5020791	5020791	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgaggaacgagtacttcttcGaccgcaaccggcccagcttc	10	14	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:5020791G>T	ENST00000382545.3	+	2	1354	c.247G>T	c.(247-249)Gac>Tac	p.D83Y	KCNA1_ENST00000543874.2_Intron	NM_000217.2	NP_000208.2	Q09470	KCNA1_HUMAN	potassium voltage-gated channel, shaker-related subfamily, member 1 (episodic ataxia with myokymia)	83					potassium ion transport (GO:0006813)|protein homooligomerization (GO:0051260)|synaptic transmission (GO:0007268)	apical plasma membrane (GO:0016324)|dendrite (GO:0030425)|juxtaparanode region of axon (GO:0044224)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|potassium channel activity (GO:0005267)|potassium ion transmembrane transporter activity (GO:0015079)			NS(1)|breast(3)|cervix(2)|endometrium(5)|kidney(1)|large_intestine(14)|lung(23)|ovary(3)|pancreas(2)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	63					Amitriptyline(DB00321)|Dalfampridine(DB06637)|Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Nifedipine(DB01115)|Sevoflurane(DB01236)	GTACTTCTTCGACCGCAACCG	0.632																																																0													65	66	66					12																	5020791		2203	4300	6503	SO:0001583	missense	3736			L02750	CCDS8535.1	12p13	2012-07-05			ENSG00000111262	ENSG00000111262		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6218	protein-coding gene	gene with protein product		176260		AEMK		1349297, 8821794, 16382104	Standard	NM_000217		Approved	Kv1.1, RBK1, HUK1, MBK1	uc001qnh.3	Q09470	OTTHUMG00000044398	ENST00000382545.3:c.247G>T	12.37:g.5020791G>T	ENSP00000371985:p.Asp83Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NM83|Q3MIQ9	Missense_Mutation	SNP	ENST00000382545.3	37	CCDS8535.1	.	.	.	.	.	.	.	.	.	.	G	18.01	3.528424	0.64860	.	.	ENSG00000111262	ENST00000382545;ENST00000228858	D	0.85773	-2.03	4.34	3.44	0.39384	BTB/POZ-like (1);BTB/POZ fold (2);Potassium channel, voltage dependent, Kv, tetramerisation (1);	0.000000	0.85682	D	0.000000	D	0.95774	0.8625	H	0.99650	4.68	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.96686	0.9507	10	0.87932	D	0	.	13.0486	0.58942	0.0:0.0:0.8379:0.1621	.	83	Q09470	KCNA1_HUMAN	Y	83	ENSP00000371985:D83Y	ENSP00000228858:D83Y	D	+	1	0	KCNA1	4891052	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.699000	0.84547	1.152000	0.42452	0.650000	0.86243	GAC		0.632	KCNA1-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000103343.2	NM_000217		T	5020791	G	T	5020791	3	4	664	1	0	0	0	0	1	0	0	0	8008	1058	37	4	249	4	KCNA1	12	5020791	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10		5020791	128831104	600	41910										
VWF	7450	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	6078503	6078503	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaagacctcctccttcactcGgacacactcattgatgaggc	7	14	2	3	rs61751296		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:6078503G>A	ENST00000261405.5	-	45	7857	c.7603C>T	c.(7603-7605)Cga>Tga	p.R2535*		NM_000552.3	NP_000543	P04275	VWF_HUMAN	von Willebrand factor	2535					blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|cell adhesion (GO:0007155)|cell-substrate adhesion (GO:0031589)|extracellular matrix organization (GO:0030198)|hemostasis (GO:0007599)|liver development (GO:0001889)|placenta development (GO:0001890)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|protein homooligomerization (GO:0051260)|response to wounding (GO:0009611)	endoplasmic reticulum (GO:0005783)|external side of plasma membrane (GO:0009897)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|platelet alpha granule (GO:0031091)|platelet alpha granule lumen (GO:0031093)|proteinaceous extracellular matrix (GO:0005578)|Weibel-Palade body (GO:0033093)	chaperone binding (GO:0051087)|collagen binding (GO:0005518)|glycoprotein binding (GO:0001948)|identical protein binding (GO:0042802)|immunoglobulin binding (GO:0019865)|integrin binding (GO:0005178)|protease binding (GO:0002020)|protein homodimerization activity (GO:0042803)|protein N-terminus binding (GO:0047485)			NS(1)|breast(6)|central_nervous_system(5)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(25)|lung(41)|ovary(7)|pancreas(2)|prostate(6)|skin(15)|stomach(1)|upper_aerodigestive_tract(5)	129					Antihemophilic Factor(DB00025)	TCCTTCACTCGGACACACTCA	0.607																																																0			GRCh37	CM910408	VWF	M	rs61751296	G	stop/ARG	0,4406		0,0,2203	59	59	59	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	7603	4	1	12	dbSNP_129	59	1,8599	1.2+/-3.3	0,1,4299	no	stop-gained	VWF	NM_000552.3		0,1,6502	AA,AG,GG		0.0116,0.0,0.0077		2535/2814	6078503	1,13005	2203	4300	6503	SO:0001587	stop_gained	7450				CCDS8539.1	12p13.3	2014-09-17			ENSG00000110799	ENSG00000110799		"Endogenous ligands"	12726	protein-coding gene	gene with protein product		613160		F8VWF		2251280	Standard	NM_000552		Approved		uc001qnn.1	P04275	OTTHUMG00000168265	ENST00000261405.5:c.7603C>T	12.37:g.6078503G>A	ENSP00000261405:p.Arg2535*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TCE8|Q99806	Nonsense_Mutation	SNP	ENST00000261405.5	37	CCDS8539.1	.	.	.	.	.	.	.	.	.	.	G	50	16.762652	0.99871	0.0	1.16E-4	ENSG00000110799	ENST00000261405	.	.	.	4.87	3.96	0.45880	.	0.217378	0.23358	N	0.049054	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	12.1546	0.54070	0.0:0.0:0.8279:0.1721	rs61751296	.	.	.	X	2535	.	ENSP00000261405:R2535X	R	-	1	2	VWF	5948764	1.000000	0.71417	1.000000	0.80357	0.894000	0.52154	2.597000	0.46214	1.234000	0.43709	0.561000	0.74099	CGA		0.607	VWF-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399020.1	NM_000552		A	6078503	G	A	6078503	4	1	664	1	0	0	0	0	0	1	0	0	17258	1124	39	1	870	1	VWF	12	6078503	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1057712	6078503	127773392	601	41911										
PLEKHG6	55200	broad.mit.edu;bcgsc.ca	37	chr12	6435610	6435610	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaggccgccctacagaagcTgaaggcagaggagtatgttc	13	11	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:6435610T>C	ENST00000396988.3	+	14	1771	c.1541T>C	c.(1540-1542)cTg>cCg	p.L514P	PLEKHG6_ENST00000011684.7_Missense_Mutation_p.L514P|PLEKHG6_ENST00000304581.8_Missense_Mutation_p.L44P|PLEKHG6_ENST00000449001.2_Missense_Mutation_p.L482P	NM_001144856.1	NP_001138328.1	Q3KR16	PKHG6_HUMAN	pleckstrin homology domain containing, family G (with RhoGef domain) member 6	514						cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)	GTPase activator activity (GO:0005096)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|kidney(3)|large_intestine(4)|lung(6)|ovary(1)|prostate(2)|skin(4)	23						CTACAGAAGCTGAAGGCAGAG	0.557																																																0													54	53	54					12																	6435610		2203	4300	6503	SO:0001583	missense	55200			AK001527	CCDS8541.1, CCDS44808.1	12p13.31	2013-01-11			ENSG00000008323	ENSG00000008323		"Pleckstrin homology (PH) domain containing"	25562	protein-coding gene	gene with protein product		611743					Standard	NM_018173		Approved	FLJ10665	uc001qnr.3	Q3KR16	OTTHUMG00000168266	ENST00000396988.3:c.1541T>C	12.37:g.6435610T>C	ENSP00000380185:p.Leu514Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q3SWR1|Q8N1P1|Q8WYY1|Q9H8F4|Q9NVK9	Missense_Mutation	SNP	ENST00000396988.3	37	CCDS8541.1	.	.	.	.	.	.	.	.	.	.	T	19.51	3.840501	0.71488	.	.	ENSG00000008323	ENST00000011684;ENST00000396988;ENST00000449001;ENST00000304581	T;T;T	0.69306	-0.26;-0.26;-0.39	5.21	5.21	0.72293	Pleckstrin homology-type (1);	0.000000	0.40064	N	0.001191	T	0.70552	0.3237	L	0.36672	1.1	0.53688	D	0.999976	D;D	0.61697	0.99;0.984	P;P	0.61201	0.885;0.819	T	0.73626	-0.3923	10	0.87932	D	0	-12.4017	11.4464	0.50125	0.0:0.0:0.0:1.0	.	482;514	Q3KR16-2;Q3KR16	.;PKHG6_HUMAN	P	514;514;482;44	ENSP00000011684:L514P;ENSP00000380185:L514P;ENSP00000393194:L482P	ENSP00000011684:L514P	L	+	2	0	PLEKHG6	6305871	1.000000	0.71417	1.000000	0.80357	0.851000	0.48451	3.432000	0.52824	2.195000	0.70347	0.529000	0.55759	CTG		0.557	PLEKHG6-003	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399031.1	NM_018173		C	6435610	T	C	6435610	3	2	664	1	0	0	0	0	1	0	0	0	12081	1580	55	3	1637	3	PLEKHG6	12	6435610	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	357107	6435610	127416285	602	41912										
SCNN1A	6337	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	6471284	6471284	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcccagcgtgtcctcctccaGggatggcagagtctctggca	13	14	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:6471284G>T	ENST00000228916.2	-	4	906	c.808C>A	c.(808-810)Ctg>Atg	p.L270M	SCNN1A_ENST00000358945.3_Missense_Mutation_p.L270M|SCNN1A_ENST00000543768.1_Missense_Mutation_p.L293M|SCNN1A_ENST00000538979.1_Intron|SCNN1A_ENST00000360168.3_Missense_Mutation_p.L329M|SCNN1A_ENST00000540037.1_De_novo_Start_OutOfFrame|SCNN1A_ENST00000396966.2_Missense_Mutation_p.L270M	NM_001038.5	NP_001029.1	P37088	SCNNA_HUMAN	sodium channel, non-voltage-gated 1 alpha subunit	270					excretion (GO:0007588)|ion transmembrane transport (GO:0034220)|multicellular organismal water homeostasis (GO:0050891)|response to stimulus (GO:0050896)|sensory perception of taste (GO:0050909)|sodium ion homeostasis (GO:0055078)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|ciliary membrane (GO:0060170)|cortical actin cytoskeleton (GO:0030864)|cytosol (GO:0005829)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|motile cilium (GO:0031514)|plasma membrane (GO:0005886)|sodium channel complex (GO:0034706)	ligand-gated sodium channel activity (GO:0015280)|WW domain binding (GO:0050699)			central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|liver(2)|lung(6)|prostate(1)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	27					Amiloride(DB00594)|Triamterene(DB00384)	TCCTCCTCCAGGGATGGCAGA	0.592																																																0													126	104	112					12																	6471284		2203	4300	6503	SO:0001583	missense	6337			Z92978	CCDS8543.1, CCDS53738.1, CCDS53739.1	12p13	2012-02-28	2012-02-28		ENSG00000111319	ENSG00000111319		"Ion channels / Sodium channel, nonvoltage-gated", "Sodium channels"	10599	protein-coding gene	gene with protein product		600228	"sodium channel, nonvoltage-gated 1 alpha", "sodium channel, non-voltage-gated 1 alpha"	SCNN1		7896277	Standard	NM_001038		Approved	ENaCalpha	uc001qnw.3	P37088	OTTHUMG00000168268	ENST00000228916.2:c.808C>A	12.37:g.6471284G>T	ENSP00000228916:p.Leu270Met	Somatic		WXS	Illumina HiSeq	Phase_I	A5X2U9|B4E2Q5|C5HTZ0|O43271|Q6GSQ6|Q9UM64	Missense_Mutation	SNP	ENST00000228916.2	37	CCDS8543.1	.	.	.	.	.	.	.	.	.	.	G	10.45	1.353258	0.24512	.	.	ENSG00000111319	ENST00000360168;ENST00000358945;ENST00000228916;ENST00000396966;ENST00000543768	T;T;T;T;T	0.70631	-0.45;-0.5;-0.43;-0.1;-0.43	5.05	3.19	0.36642	.	0.949950	0.08696	N	0.907143	T	0.79435	0.4445	M	0.70595	2.14	0.09310	N	1	D;D;P	0.56968	0.978;0.96;0.757	P;P;P	0.61003	0.878;0.882;0.511	T	0.61753	-0.6998	10	0.45353	T	0.12	-6.8226	6.8831	0.24185	0.0961:0.1769:0.727:0.0	.	293;270;329	B4E2Q5;P37088;P37088-2	.;SCNNA_HUMAN;.	M	329;270;270;270;293	ENSP00000353292:L329M;ENSP00000351825:L270M;ENSP00000228916:L270M;ENSP00000380166:L270M;ENSP00000438739:L293M	ENSP00000228916:L270M	L	-	1	2	SCNN1A	6341545	0.298000	0.24417	0.000000	0.03702	0.215000	0.24574	1.623000	0.37008	0.500000	0.27991	0.561000	0.74099	CTG		0.592	SCNN1A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000399055.1			T	6471284	G	T	6471284	3	4	664	1	0	0	0	0	1	0	0	0	13940	991	35	4	1241	4	SCNN1A	12	6471284	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	35674	6471284	127380611	603	41913										
IFFO1	25900	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	6657689	6657689	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaagtcaggctgtcacagtCgtcctcaaaatcatactccc	6	15	4	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:6657689C>T	ENST00000396840.2	-	6	1293	c.1252G>A	c.(1252-1254)Gac>Aac	p.D418N	IFFO1_ENST00000356896.4_Missense_Mutation_p.D421N|IFFO1_ENST00000336604.4_Missense_Mutation_p.D421N|IFFO1_ENST00000465801.1_Missense_Mutation_p.D114N|IFFO1_ENST00000436152.2_Missense_Mutation_p.D114N			Q0D2I5	IFFO1_HUMAN	intermediate filament family orphan 1	418						intermediate filament (GO:0005882)				central_nervous_system(1)|endometrium(1)|large_intestine(4)|lung(12)|ovary(1)|upper_aerodigestive_tract(1)	20						CTGTCACAGTCGTCCTCAAAA	0.642																																																0													65	65	65					12																	6657689		2203	4300	6503	SO:0001583	missense	25900			AF124432	CCDS8550.1, CCDS41741.1, CCDS8550.2, CCDS73425.1	12p13.31	2013-01-16	2008-09-11	2008-09-11	ENSG00000010295	ENSG00000010295		"Intermediate filament family orphans"	24970	protein-coding gene	gene with protein product		610495	"intermediate filament family orphan"	IFFO		8771189, 3052284	Standard	NM_001193457		Approved	HOM-TES-103	uc010sfe.2	Q0D2I5	OTTHUMG00000141264	ENST00000396840.2:c.1252G>A	12.37:g.6657689C>T	ENSP00000380052:p.Asp418Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q24JT6|Q7L5J9|Q7Z5X4|Q9BQ46	Missense_Mutation	SNP	ENST00000396840.2	37		.	.	.	.	.	.	.	.	.	.	C	23.1	4.373339	0.82573	.	.	ENSG00000010295	ENST00000436152;ENST00000465801;ENST00000336604;ENST00000396840;ENST00000356896;ENST00000423501	D;D;D;D;D	0.95069	-3.6;-3.31;-3.13;-3.13;-3.18	4.55	3.65	0.41850	.	0.057967	0.64402	D	0.000003	D	0.96565	0.8879	M	0.71581	2.175	0.80722	D	1	D;D;D;D;D;D	0.89917	0.984;1.0;0.984;0.984;0.984;1.0	P;D;P;P;P;D	0.91635	0.593;0.999;0.593;0.593;0.593;0.999	D	0.96579	0.9429	10	0.87932	D	0	-21.9407	13.8215	0.63322	0.1544:0.8456:0.0:0.0	.	420;113;421;418;421;122	Q0D2I5-7;Q6P593;Q0D2I5-4;Q0D2I5;Q0D2I5-5;B4DQQ1	.;.;.;IFFO1_HUMAN;.;.	N	114;114;421;418;421;58	ENSP00000390721:D114N;ENSP00000436261:D114N;ENSP00000337593:D421N;ENSP00000380052:D418N;ENSP00000349364:D421N	ENSP00000337593:D421N	D	-	1	0	IFFO1	6527950	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.681000	0.84073	0.878000	0.35920	-0.182000	0.12963	GAC		0.642	IFFO1-008	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000280428.1	NM_080730		T	6657689	C	T	6657689	3	4	664	1	0	0	0	0	1	0	0	0	7517	884	31	1	446	1	IFFO1	12	6657689	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	186405	6657689	127194206	604	41914										
LPCAT3	10162	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	7088722	7088722	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaaaaggcccagactcaggcGcttgagagcaggaatgatgc	14	9	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:7088722G>A	ENST00000261407.4	-	7	782	c.697C>T	c.(697-699)Cgc>Tgc	p.R233C	LPCAT3_ENST00000535021.1_5'UTR|U47924.30_ENST00000606112.1_lincRNA	NM_005768.5	NP_005759.4	Q6P1A2	MBOA5_HUMAN	lysophosphatidylcholine acyltransferase 3	233					glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylcholine acyl-chain remodeling (GO:0036151)|phosphatidylethanolamine acyl-chain remodeling (GO:0036152)|phosphatidylserine acyl-chain remodeling (GO:0036150)|phospholipid metabolic process (GO:0006644)|regulation of plasma lipoprotein particle levels (GO:0097006)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	1-acylglycerophosphocholine O-acyltransferase activity (GO:0047184)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(2)|lung(4)|ovary(1)|skin(2)	17						AGACTCAGGCGCTTGAGAGCA	0.512																																																0													104	86	92					12																	7088722		2203	4300	6503	SO:0001583	missense	10162			U72515	CCDS8572.1	12p13.31	2010-05-12	2008-06-24	2008-06-24	ENSG00000111684	ENSG00000111684			30244	protein-coding gene	gene with protein product		611950	"O-acyltransferase (membrane bound) domain containing 5", "membrane bound O-acyltransferase domain containing 5"	OACT5, MBOAT5		8723724, 9074930, 18195019	Standard	NM_005768		Approved	C3F, nessy	uc001qsi.3	Q6P1A2	OTTHUMG00000168970	ENST00000261407.4:c.697C>T	12.37:g.7088722G>A	ENSP00000261407:p.Arg233Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDH0|B7Z3N3|Q7KZS1|Q92980|Q9BW40	Missense_Mutation	SNP	ENST00000261407.4	37	CCDS8572.1	.	.	.	.	.	.	.	.	.	.	G	25.4	4.638586	0.87760	.	.	ENSG00000111684	ENST00000261407	T	0.73897	-0.79	5.63	5.63	0.86233	.	0.000000	0.85682	D	0.000000	D	0.86785	0.6016	M	0.76002	2.32	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.87116	0.2188	10	0.62326	D	0.03	-14.3872	19.7096	0.96089	0.0:0.0:1.0:0.0	.	233	Q6P1A2	MBOA5_HUMAN	C	233	ENSP00000261407:R233C	ENSP00000261407:R233C	R	-	1	0	LPCAT3	6958983	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	5.678000	0.68153	2.652000	0.90054	0.655000	0.94253	CGC		0.512	LPCAT3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401812.1	NM_005768		A	7088722	G	A	7088722	3	1	664	1	0	0	0	0	1	0	0	0	8919	1087	38	1	790	1	LPCAT3	12	7088722	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	431033	7088722	126763173	605	41915										
C1R	715	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	7188165	7188165	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aatcttctcctccatgacccCgaagccactgacatagccca	5	17	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:7188165C>T	ENST00000542285.1	-	11	1782	c.1633G>A	c.(1633-1635)Ggg>Agg	p.G545R				P00736	C1R_HUMAN	complement component 1, r subcomponent	597	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				complement activation (GO:0006956)|complement activation, classical pathway (GO:0006958)|immune response (GO:0006955)|innate immune response (GO:0045087)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			endometrium(4)|kidney(1)|large_intestine(4)|lung(6)|pancreas(1)	16					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)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	TCCATGACCCCGAAGCCACTG	0.552																																																0													49	50	49					12																	7188165		2064	4200	6264	SO:0001583	missense	715			M14058		12p13.31	2014-05-14			ENSG00000159403	ENSG00000159403	3.4.21.41	"Complement system"	1246	protein-coding gene	gene with protein product		613785					Standard	NM_001733		Approved		uc010sfy.2	P00736	OTTHUMG00000168149	ENST00000542285.1:c.1633G>A	12.37:g.7188165C>T	ENSP00000438615:p.Gly545Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJQ8|Q68D77|Q8J012	Missense_Mutation	SNP	ENST00000542285.1	37		.	.	.	.	.	.	.	.	.	.	C	23.6	4.438853	0.83885	.	.	ENSG00000159403	ENST00000290575;ENST00000542285	D	0.94000	-3.33	5.7	5.7	0.88788	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	0.000000	0.64402	D	0.000001	D	0.97071	0.9043	.	.	.	0.58432	D	0.999994	D	0.89917	1.0	D	0.97110	1.0	D	0.97261	0.9904	9	0.87932	D	0	.	19.8479	0.96722	0.0:1.0:0.0:0.0	.	597	P00736	C1R_HUMAN	R	560;545	ENSP00000438615:G545R	ENSP00000290575:G560R	G	-	1	0	C1R	7058420	1.000000	0.71417	1.000000	0.80357	0.804000	0.45430	5.510000	0.67018	2.681000	0.91329	0.655000	0.94253	GGG		0.552	C1R-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_001733		T	7188165	C	T	7188165	3	4	664	1	0	0	0	0	1	0	0	0	1974	652	23	1	332	1	C1R	12	7188165	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	99443	7188165	126663730	606	41916										
SLC2A3	6515	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr12	8083895	8083895	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggttgagagtgccaaaggcAccccgcagggcagtaggcga	16	10	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:8083895A>T	ENST00000075120.7	-	4	696	c.456T>A	c.(454-456)ggT>ggA	p.G152G		NM_006931.2	NP_008862.1	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose transporter), member 3	152					carbohydrate metabolic process (GO:0005975)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|L-ascorbic acid metabolic process (GO:0019852)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	glucose transmembrane transporter activity (GO:0005355)			central_nervous_system(1)|cervix(2)|endometrium(1)|kidney(3)|large_intestine(2)|lung(14)|ovary(3)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	30				Kidney(36;0.0866)		TGCCAAAGGCACCCCGCAGGG	0.522																																					Colon(96;424 1461 14416 20933 23688)											0													80	76	77					12																	8083895		2203	4300	6503	SO:0001819	synonymous_variant	6515			M20681	CCDS8586.1	12p13.3	2013-05-22			ENSG00000059804	ENSG00000059804		"Solute carriers"	11007	protein-coding gene	gene with protein product		138170		GLUT3			Standard	NM_006931		Approved		uc001qtr.3	P11169	OTTHUMG00000133685	ENST00000075120.7:c.456T>A	12.37:g.8083895A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R606|D3DUU6|Q6I9U2|Q9UG15	Silent	SNP	ENST00000075120.7	37	CCDS8586.1																																																																																				0.522	SLC2A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257914.1	NM_006931		T	8083895	A	T	8083895	2	4	664	1	0	0	0	0	0	0	0	1	14558	146	6	5		5	SLC2A3	12	8083895	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	895730	8083895	125768000	607	41917										
AICDA	57379	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	8757413	8757413	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agccccttaccaaaaggatgCgccgaagctgtctggagaga	12	11	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:8757413C>T	ENST00000229335.6	-	4	636	c.533G>A	c.(532-534)cGc>cAc	p.R178H	AICDA_ENST00000537228.1_Missense_Mutation_p.R168H	NM_020661.2	NP_065712.1	Q9GZX7	AICDA_HUMAN	activation-induced cytidine deaminase	178					B cell differentiation (GO:0030183)|cellular response to lipopolysaccharide (GO:0071222)|DNA demethylation (GO:0080111)|isotype switching (GO:0045190)|mRNA processing (GO:0006397)|negative regulation of methylation-dependent chromatin silencing (GO:0090310)|somatic diversification of immunoglobulins (GO:0016445)|somatic hypermutation of immunoglobulin genes (GO:0016446)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	cytidine deaminase activity (GO:0004126)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(4)|ovary(2)|pancreas(1)	16	Lung SC(5;0.184)					CAAAAGGATGCGCCGAAGCTG	0.378																																					GBM(62;896 1067 5527 26594 30137)											0													116	113	114					12																	8757413		1809	4078	5887	SO:0001583	missense	57379			AB040430	CCDS41747.1	12p13	2014-09-17			ENSG00000111732	ENSG00000111732		"Apolipoprotein B mRNA editing enzymes"	13203	protein-coding gene	gene with protein product		605257					Standard	NM_020661		Approved	HIGM2, CDA2, ARP2, AID	uc001qur.2	Q9GZX7	OTTHUMG00000168676	ENST00000229335.6:c.533G>A	12.37:g.8757413C>T	ENSP00000229335:p.Arg178His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6QJ81|Q8NFC1	Missense_Mutation	SNP	ENST00000229335.6	37	CCDS41747.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	21.6|21.6	4.174200|4.174200	0.78452|0.78452	.|.	.|.	ENSG00000111732|ENSG00000111732	ENST00000545512|ENST00000229335;ENST00000537228	.|T;T	.|0.64085	.|-0.08;-0.08	5.44|5.44	5.44|5.44	0.79542|0.79542	.|.	.|0.161178	.|0.56097	.|D	.|0.000025	T|T	0.78984|0.78984	0.4370|0.4370	M|M	0.78456|0.78456	2.415|2.415	0.58432|0.58432	D|D	0.999992|0.999992	.|D;D	.|0.76494	.|0.999;0.999	.|D;D	.|0.70935	.|0.971;0.958	T|T	0.80786|0.80786	-0.1227|-0.1227	5|10	.|0.59425	.|D	.|0.04	-21.6348|-21.6348	15.9806|15.9806	0.80105|0.80105	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|178;168	.|Q9GZX7;Q6QJ81	.|AICDA_HUMAN;.	T|H	177|178;168	.|ENSP00000229335:R178H;ENSP00000445691:R168H	.|ENSP00000229335:R178H	A|R	-|-	1|2	0|0	AICDA|AICDA	8648680|8648680	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.936000|0.936000	0.57629|0.57629	5.700000|5.700000	0.68318|0.68318	2.546000|2.546000	0.85860|0.85860	0.655000|0.655000	0.94253|0.94253	GCA|CGC		0.378	AICDA-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000400575.1	NM_020661		T	8757413	C	T	8757413	3	4	664	1	0	0	0	0	1	0	0	0	422	768	27	1	71	1	AICDA	12	8757413	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	673518	8757413	125094482	608	41918										
RIMKLB	57494	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	8902463	8902463	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atttatatatttcaggtctgCggatcaatggagagctaatc	9	6	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:8902463C>T	ENST00000538135.1	+	3	1006	c.181C>T	c.(181-183)Cgg>Tgg	p.R61W	RIMKLB_ENST00000535829.1_Missense_Mutation_p.R61W|RIMKLB_ENST00000299673.5_3'UTR|RIMKLB_ENST00000357529.3_Missense_Mutation_p.R61W			Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family member B	61					cellular protein modification process (GO:0006464)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|citrate-L-glutamate ligase activity (GO:0072591)|metal ion binding (GO:0046872)|N-acetyl-L-aspartate-L-glutamate ligase activity (GO:0072590)			central_nervous_system(2)|kidney(3)|large_intestine(5)|lung(5)|upper_aerodigestive_tract(1)|urinary_tract(2)	18						TTCAGGTCTGCGGATCAATGG	0.408																																																0													34	32	33					12																	8902463		1872	4104	5976	SO:0001583	missense	57494			AB033064	CCDS41748.1	12p13.31	2011-09-21	2008-10-13	2008-10-13	ENSG00000166532	ENSG00000166532	6.3.2.N6		29228	protein-coding gene	gene with protein product	"N-acetylaspartyl-glutamate synthetase"	614054	"family with sequence similarity 80, member B"	FAM80B		10574462, 20643647	Standard	XM_006719116		Approved	KIAA1238, NAAGS, NAAGS-I	uc001qux.2	Q9ULI2		ENST00000538135.1:c.181C>T	12.37:g.8902463C>T	ENSP00000440943:p.Arg61Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z834|D3DUV2|Q8N4P4|Q8WTW6	Missense_Mutation	SNP	ENST00000538135.1	37	CCDS41748.1	.	.	.	.	.	.	.	.	.	.	C	21.2	4.112773	0.77210	.	.	ENSG00000166532	ENST00000541044;ENST00000539923;ENST00000537189;ENST00000535829;ENST00000357529;ENST00000538135	.	.	.	5.47	5.47	0.80525	.	0.092366	0.45606	U	0.000341	T	0.67674	0.2918	L	0.47716	1.5	0.80722	D	1	D;D	0.76494	0.999;0.998	P;P	0.59221	0.854;0.732	T	0.68481	-0.5397	9	0.54805	T	0.06	.	17.8968	0.88891	0.0:1.0:0.0:0.0	.	61;61	Q9ULI2-2;Q9ULI2	.;RIMKB_HUMAN	W	61;61;122;61;61;61	.	ENSP00000350136:R61W	R	+	1	2	RIMKLB	8793730	1.000000	0.71417	0.953000	0.39169	0.434000	0.31775	7.392000	0.79840	2.571000	0.86741	0.591000	0.81541	CGG		0.408	RIMKLB-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398874.1	NM_020734		T	8902463	C	T	8902463	3	4	664	1	0	0	0	0	1	0	0	0	13379	759	27	1	187	1	RIMKLB	12	8902463	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	145050	8902463	124949432	609	41919										
LOH12CR1	118426	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	12618601	12618601	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	catcctccgccgcatacagaTgggcatcgaccagactgtgc	10	15	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:12618601T>C	ENST00000314565.4	+	4	813	c.482T>C	c.(481-483)aTg>aCg	p.M161T	LOH12CR1_ENST00000298571.6_Missense_Mutation_p.M113T|LOH12CR1_ENST00000542728.1_Missense_Mutation_p.M142T	NM_058169.3	NP_477517.1	Q969J3	L12R1_HUMAN	loss of heterozygosity, 12, chromosomal region 1	161										kidney(1)|large_intestine(1)|lung(1)|ovary(1)	4		Prostate(47;0.0802)		BRCA - Breast invasive adenocarcinoma(232;0.0205)		CGCATACAGATGGGCATCGAC	0.607																																																0													80	63	69					12																	12618601		2203	4300	6503	SO:0001583	missense	118426			AY037865	CCDS8649.1, CCDS73448.1	12p12	2008-07-03			ENSG00000165714	ENSG00000165714			17950	protein-coding gene	gene with protein product						11896457, 15284860	Standard	XR_242885		Approved	LOH1CR12	uc001ral.2	Q969J3	OTTHUMG00000168542	ENST00000314565.4:c.482T>C	12.37:g.12618601T>C	ENSP00000321546:p.Met161Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q96QS5	Missense_Mutation	SNP	ENST00000314565.4	37	CCDS8649.1	.	.	.	.	.	.	.	.	.	.	T	5.793	0.330582	0.10956	.	.	ENSG00000165714	ENST00000542728;ENST00000314565;ENST00000298571	T;T;T	0.42513	0.97;0.97;0.97	5.66	5.66	0.87406	.	0.000000	0.85682	D	0.000000	T	0.31295	0.0792	L	0.38838	1.175	0.58432	D	0.999996	B;B	0.30634	0.119;0.288	B;B	0.29267	0.067;0.1	T	0.09228	-1.0684	10	0.07990	T	0.79	-29.0378	14.4761	0.67546	0.0:0.0:0.0:1.0	.	113;161	Q969J3-2;Q969J3	.;L12R1_HUMAN	T	142;161;113	ENSP00000443023:M142T;ENSP00000321546:M161T;ENSP00000298571:M113T	ENSP00000298571:M113T	M	+	2	0	LOH12CR1	12509868	1.000000	0.71417	1.000000	0.80357	0.741000	0.42261	7.649000	0.83500	2.151000	0.67156	0.455000	0.32223	ATG		0.607	LOH12CR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400150.1			C	12618601	T	C	12618601	3	2	664	1	0	0	0	0	1	0	0	0	8898	1464	51	3	496	3	LOH12CR1	12	12618601	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	3716138	12618601	121233294	610	41920										
C12orf60	144608	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	14976228	14976228	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agtattcaaaagtgcccataCgccagtcatcatctctgtgc	7	12	4	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:14976228C>T	ENST00000330828.2	+	2	563	c.359C>T	c.(358-360)aCg>aTg	p.T120M	C12orf60_ENST00000527783.1_Intron	NM_175874.3	NP_787070.2	Q5U649	CL060_HUMAN	chromosome 12 open reading frame 60	120										breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(1)|ovary(1)|urinary_tract(2)	9						AGTGCCCATACGCCAGTCATC	0.428																																																0													159	156	157					12																	14976228		2203	4300	6503	SO:0001583	missense	144608			BC038836	CCDS8667.1	12p12.3	2012-08-16			ENSG00000182993	ENSG00000182993			28726	protein-coding gene	gene with protein product						12477932	Standard	NM_175874		Approved	MGC47869	uc001rcj.4	Q5U649	OTTHUMG00000167473	ENST00000330828.2:c.359C>T	12.37:g.14976228C>T	ENSP00000331691:p.Thr120Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1M7|Q5XKK8|Q8IXY2	Missense_Mutation	SNP	ENST00000330828.2	37	CCDS8667.1	.	.	.	.	.	.	.	.	.	.	C	14.26	2.480950	0.44044	.	.	ENSG00000182993	ENST00000330828	T	0.18174	2.23	4.62	-1.82	0.07857	.	1.310590	0.05203	N	0.505336	T	0.09818	0.0241	L	0.32530	0.975	0.09310	N	1	P	0.37398	0.593	B	0.24701	0.055	T	0.27606	-1.0069	10	0.59425	D	0.04	-5.0763	3.2598	0.06845	0.2825:0.3048:0.0:0.4127	.	120	Q5U649	CL060_HUMAN	M	120	ENSP00000331691:T120M	ENSP00000331691:T120M	T	+	2	0	C12orf60	14867495	0.000000	0.05858	0.001000	0.08648	0.021000	0.10359	-1.809000	0.01731	-0.207000	0.10187	0.561000	0.74099	ACG		0.428	C12orf60-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394735.1	NM_175874		T	14976228	C	T	14976228	3	4	664	1	0	0	0	0	1	0	0	0	1705	536	19	1	361	1	C12orf60	12	14976228	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2357627	14976228	118875667	611	41921										
ITPR2	3709	hgsc.bcm.edu;ucsc.edu	37	chr12	26581017	26581017	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accgagaacaatggagaaagTgtacctgtaaaatgtggaag	12	5	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:26581017T>C	ENST00000381340.3	-	49	7190	c.6774A>G	c.(6772-6774)acA>acG	p.T2258T		NM_002223.2	NP_002214.2	Q14571	ITPR2_HUMAN	inositol 1,4,5-trisphosphate receptor, type 2	2258					activation of phospholipase C activity (GO:0007202)|blood coagulation (GO:0007596)|cellular response to cAMP (GO:0071320)|cellular response to ethanol (GO:0071361)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|inositol phosphate-mediated signaling (GO:0048016)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet activation (GO:0030168)|regulation of insulin secretion (GO:0050796)|response to hypoxia (GO:0001666)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|transport (GO:0006810)	cell cortex (GO:0005938)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|platelet dense tubular network membrane (GO:0031095)|receptor complex (GO:0043235)|sarcoplasmic reticulum membrane (GO:0033017)	calcium ion transmembrane transporter activity (GO:0015085)|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0005220)|phosphatidylinositol binding (GO:0035091)		ETV6/ITPR2(2)	biliary_tract(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(16)|large_intestine(20)|liver(1)|lung(51)|ovary(5)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(5)|urinary_tract(3)	125	Colorectal(261;0.0847)				Caffeine(DB00201)	ATGGAGAAAGTGTACCTGTAA	0.358																																																0													63	57	59					12																	26581017		1845	4093	5938	SO:0001819	synonymous_variant	3709			D26350	CCDS41764.1	12p11.23	2014-07-18	2011-04-28		ENSG00000123104	ENSG00000123104		"Ion channels / Inositol triphosphate receptors"	6181	protein-coding gene	gene with protein product	"cilia and flagella associated protein 48"	600144	"inositol 1,4,5-triphosphate receptor, type 2"			8081734	Standard	XM_006719064		Approved	IP3R2, CFAP48	uc001rhg.3	Q14571	OTTHUMG00000169181	ENST00000381340.3:c.6774A>G	12.37:g.26581017T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O94773	Silent	SNP	ENST00000381340.3	37	CCDS41764.1																																																																																				0.358	ITPR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402732.1	NM_002223		C	26581017	T	C	26581017	2	2	664	1	0	0	0	0	0	0	0	1	7928	1683	59	3		3	ITPR2	12	26581017	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	11604789	26581017	107270878	612	41922										
KLHDC5	57542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	27933686	27933686	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgcctggcgcaggtgtacggGctgcccgacctgcaggaggc	17	14	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:27933686G>A	ENST00000381271.2	+	1	734	c.423G>A	c.(421-423)ggG>ggA	p.G141G	RP11-860B13.1_ENST00000545904.1_RNA	NM_020782.1	NP_065833.1	Q9P2K6	KLH42_HUMAN	kelch-like family member 42	141					mitotic nuclear division (GO:0007067)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein polyubiquitination (GO:0000209)|regulation of microtubule-based process (GO:0032886)	Cul3-RING ubiquitin ligase complex (GO:0031463)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)											AGGTGTACGGGCTGCCCGACC	0.657																																																0													51	55	54					12																	27933686		2203	4300	6503	SO:0001819	synonymous_variant	57542			AB037761	CCDS31763.1	12p11.22	2013-04-24	2013-02-22	2013-01-30	ENSG00000087448	ENSG00000087448		"Kelch-like"	29252	protein-coding gene	gene with protein product			"kelch domain containing 5"	KLHDC5		19261606	Standard	NM_020782		Approved	KIAA1340, Ctb9	uc001rij.3	Q9P2K6	OTTHUMG00000169217	ENST00000381271.2:c.423G>A	12.37:g.27933686G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2VPK1|Q8N334	Silent	SNP	ENST00000381271.2	37	CCDS31763.1																																																																																				0.657	KLHL42-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402904.1	NM_020782		A	27933686	G	A	27933686	2	1	664	1	0	0	0	0	0	0	0	1	8366	1190	42	2		2	KLHDC5	12	27933686	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1352669	27933686	105918209	613	41923										
LRRK2	120892	broad.mit.edu	37	chr12	40689347	40689347	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaactaagagatattgatgcCctaagccagaaatgctgtat	9	7	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:40689347C>A	ENST00000298910.7	+	23	3055	c.2997C>A	c.(2995-2997)gcC>gcA	p.A999A	LRRK2_ENST00000343742.2_Silent_p.A999A	NM_198578.3	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	999					activation of MAPK activity (GO:0000187)|activation of MAPKK activity (GO:0000186)|autophagy (GO:0006914)|cellular protein localization (GO:0034613)|cellular response to dopamine (GO:1903351)|cellular response to manganese ion (GO:0071287)|cellular response to oxidative stress (GO:0034599)|determination of adult lifespan (GO:0008340)|endocytosis (GO:0006897)|exploration behavior (GO:0035640)|GTP catabolic process (GO:0006184)|intracellular distribution of mitochondria (GO:0048312)|intracellular signal transduction (GO:0035556)|locomotory exploration behavior (GO:0035641)|MAPK cascade (GO:0000165)|negative regulation of GTPase activity (GO:0034260)|negative regulation of hydrogen peroxide-induced cell death (GO:1903206)|negative regulation of late endosome to lysosome transport (GO:1902823)|negative regulation of peroxidase activity (GO:2000469)|negative regulation of protein binding (GO:0032091)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of protein processing (GO:0010955)|negative regulation of protein processing involved in protein targeting to mitochondrion (GO:1903217)|negative regulation of protein targeting to mitochondrion (GO:1903215)|negative regulation of thioredoxin peroxidase activity by peptidyl-threonine phosphorylation (GO:1903125)|neuromuscular junction development (GO:0007528)|neuron death (GO:0070997)|neuron projection morphogenesis (GO:0048812)|olfactory bulb development (GO:0021772)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|positive regulation of autophagy (GO:0010508)|positive regulation of dopamine receptor signaling pathway (GO:0060161)|positive regulation of GTPase activity (GO:0043547)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of programmed cell death (GO:0043068)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein autoubiquitination (GO:1902499)|positive regulation of protein binding (GO:0032092)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein ubiquitination (GO:0031398)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|reactive oxygen species metabolic process (GO:0072593)|regulation of branching morphogenesis of a nerve (GO:2000172)|regulation of dendritic spine morphogenesis (GO:0061001)|regulation of dopamine receptor signaling pathway (GO:0060159)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of kidney size (GO:0035564)|regulation of locomotion (GO:0040012)|regulation of membrane potential (GO:0042391)|regulation of mitochondrial depolarization (GO:0051900)|regulation of neuroblast proliferation (GO:1902692)|regulation of neuron death (GO:1901214)|regulation of neuron maturation (GO:0014041)|regulation of protein kinase A signaling (GO:0010738)|regulation of synaptic transmission, glutamatergic (GO:0051966)|regulation of synaptic vesicle exocytosis (GO:2000300)|regulation of synaptic vesicle transport (GO:1902803)|response to oxidative stress (GO:0006979)|small GTPase mediated signal transduction (GO:0007264)|tangential migration from the subventricular zone to the olfactory bulb (GO:0022028)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytoplasmic side of mitochondrial outer membrane (GO:0032473)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|dendrite (GO:0030425)|dendrite cytoplasm (GO:0032839)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|inclusion body (GO:0016234)|lysosome (GO:0005764)|membrane raft (GO:0045121)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrial membrane (GO:0031966)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)|terminal bouton (GO:0043195)|trans-Golgi network (GO:0005802)	actin binding (GO:0003779)|ATP binding (GO:0005524)|clathrin binding (GO:0030276)|glycoprotein binding (GO:0001948)|GTP binding (GO:0005525)|GTP-dependent protein kinase activity (GO:0034211)|GTPase activator activity (GO:0005096)|GTPase activity (GO:0003924)|identical protein binding (GO:0042802)|ion channel binding (GO:0044325)|kinase activity (GO:0016301)|MAP kinase kinase activity (GO:0004708)|peroxidase inhibitor activity (GO:0036479)|protein homodimerization activity (GO:0042803)|protein kinase A binding (GO:0051018)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|Rho GTPase binding (GO:0017048)|SNARE binding (GO:0000149)|syntaxin-1 binding (GO:0017075)|tubulin binding (GO:0015631)			NS(3)|biliary_tract(1)|breast(6)|central_nervous_system(2)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(23)|large_intestine(31)|lung(55)|ovary(15)|pancreas(2)|prostate(4)|skin(4)|stomach(9)|upper_aerodigestive_tract(7)|urinary_tract(2)	181	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				ATATTGATGCCCTAAGCCAGA	0.418																																																0													83	77	79					12																	40689347		2203	4300	6503	SO:0001819	synonymous_variant	120892			AK026776	CCDS31774.1	12q12	2011-07-21			ENSG00000188906	ENSG00000188906		"Parkinson disease"	18618	protein-coding gene	gene with protein product		609007	"Parkinson disease (autosomal dominant) 8"	PARK8		15541308	Standard	NM_198578		Approved	ROCO2, DKFZp434H2111, FLJ45829, RIPK7	uc001rmg.4	Q5S007	OTTHUMG00000059742	ENST00000298910.7:c.2997C>A	12.37:g.40689347C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NJU2|Q6ZS50|Q8NCX9	Silent	SNP	ENST00000298910.7	37	CCDS31774.1																																																																																				0.418	LRRK2-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277179.1	XM_058513		A	40689347	C	A	40689347	2	1	664	1	0	0	0	0	0	0	0	1	9040	610	22	4		4	LRRK2	12	40689347	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	12755661	40689347	93162548	614	41924										
TMEM117	84216	broad.mit.edu	37	chr12	44238507	44238507	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccctggtctcgcatgattgTggcttacttggtgatcttct	10	10	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:44238507T>C	ENST00000266534.3	+	2	180	c.53T>C	c.(52-54)gTg>gCg	p.V18A	TMEM117_ENST00000551577.1_Missense_Mutation_p.V18A|TMEM117_ENST00000536799.1_5'Flank	NM_032256.1	NP_115632.1	Q9H0C3	TM117_HUMAN	transmembrane protein 117	18						endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)				breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(14)|urinary_tract(1)	23	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.124)		CGCATGATTGTGGCTTACTTG	0.388																																																0													191	191	191					12																	44238507		2203	4300	6503	SO:0001583	missense	84216			BC060798	CCDS8745.1, CCDS73462.1	12q12	2006-02-03				ENSG00000139173			25308	protein-coding gene	gene with protein product						11230166	Standard	NM_001286211		Approved	DKFZp434K2435	uc001rod.3	Q9H0C3	OTTHUMG00000169427	ENST00000266534.3:c.53T>C	12.37:g.44238507T>C	ENSP00000266534:p.Val18Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000266534.3	37	CCDS8745.1	.	.	.	.	.	.	.	.	.	.	T	20.9	4.059810	0.76074	.	.	ENSG00000139173	ENST00000551577;ENST00000266534	T;T	0.56275	0.47;0.47	5.72	5.72	0.89469	.	0.058546	0.64402	D	0.000002	T	0.48660	0.1512	L	0.43152	1.355	0.80722	D	1	P;P	0.39181	0.525;0.663	B;B	0.37731	0.188;0.257	T	0.53493	-0.8431	10	0.66056	D	0.02	-20.8088	16.2962	0.82776	0.0:0.0:0.0:1.0	.	18;18	F8VS00;Q9H0C3	.;TM117_HUMAN	A	18	ENSP00000448595:V18A;ENSP00000266534:V18A	ENSP00000266534:V18A	V	+	2	0	TMEM117	42524774	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.951000	0.87819	2.304000	0.77564	0.528000	0.53228	GTG		0.388	TMEM117-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403969.1	NM_032256		C	44238507	T	C	44238507	3	2	664	1	0	0	0	0	1	0	0	0	16043	1696	59	3	55	3	TMEM117	12	44238507	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	3549160	44238507	89613388	615	41925										
HDAC7	51564	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr12	48185382	48185382	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccattacctgccagcttcccGttgtccagtttgaggcggct	10	14	0	1	rs138164422		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:48185382G>A	ENST00000427332.2	-	15	1959	c.1803C>T	c.(1801-1803)aaC>aaT	p.N601N	HDAC7_ENST00000080059.7_Silent_p.N640N|HDAC7_ENST00000354334.3_Silent_p.N603N|HDAC7_ENST00000380610.4_Silent_p.N657N|HDAC7_ENST00000552960.1_Silent_p.N623N|HDAC7_ENST00000488927.1_5'UTR			Q8WUI4	HDAC7_HUMAN	histone deacetylase 7	601	Histone deacetylase.				cell-cell junction assembly (GO:0007043)|negative regulation of interleukin-2 production (GO:0032703)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|positive regulation of cell migration involved in sprouting angiogenesis (GO:0090050)|transcription, DNA-templated (GO:0006351)|vasculogenesis (GO:0001570)	cytoplasm (GO:0005737)|histone deacetylase complex (GO:0000118)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	14-3-3 protein binding (GO:0071889)|activating transcription factor binding (GO:0033613)|chromatin binding (GO:0003682)|metal ion binding (GO:0046872)|NAD-dependent histone deacetylase activity (H3-K14 specific) (GO:0032041)|NAD-dependent histone deacetylase activity (H3-K18 specific) (GO:0097372)|NAD-dependent histone deacetylase activity (H3-K9 specific) (GO:0046969)|NAD-dependent histone deacetylase activity (H4-K16 specific) (GO:0046970)|protein kinase binding (GO:0019901)|protein kinase C binding (GO:0005080)|repressing transcription factor binding (GO:0070491)|transcription corepressor activity (GO:0003714)			breast(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(6)|lung(11)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	25				GBM - Glioblastoma multiforme(48;0.137)		CCAGCTTCCCGTTGTCCAGTT	0.652																																																0								G	,	1,4405	2.1+/-5.4	0,1,2202	34	35	35		1809,1920	1.3	1	12	dbSNP_134	35	0,8600		0,0,4300	no	coding-synonymous,coding-synonymous	HDAC7	NM_001098416.2,NM_015401.3	,	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	,	603/955,640/992	48185382	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	51564			AF239243	CCDS8756.2, CCDS41776.1	12q13.1	2008-02-25	2008-02-25	2008-02-25	ENSG00000061273	ENSG00000061273			14067	protein-coding gene	gene with protein product		606542	"histone deacetylase 7A"	HDAC7A		10922406, 10640276	Standard	NM_015401		Approved	DKFZP586J0917	uc010slo.2	Q8WUI4	OTTHUMG00000152968	ENST00000427332.2:c.1803C>T	12.37:g.48185382G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KY08|B4DWI0|B4E0Q5|Q6P1W9|Q6W9G7|Q7Z4K2|Q7Z5I1|Q96K01|Q9BR73|Q9H7L0|Q9NW41|Q9NWA9|Q9NYK9|Q9UFU7	Silent	SNP	ENST00000427332.2	37		.	.	.	.	.	.	.	.	.	.	G	9.279	1.047755	0.19827	2.27E-4	0.0	ENSG00000061273	ENST00000548080	.	.	.	5.23	1.32	0.21799	.	.	.	.	.	T	0.57932	0.2087	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.51795	-0.8660	4	.	.	.	.	9.6755	0.40039	0.3745:0.0:0.6255:0.0	.	.	.	.	M	81	.	.	T	-	2	0	HDAC7	46471649	0.996000	0.38824	1.000000	0.80357	0.996000	0.88848	0.288000	0.18939	0.324000	0.23333	0.558000	0.71614	ACG		0.652	HDAC7-013	NOVEL	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000328804.2			A	48185382	G	A	48185382	2	1	664	1	0	0	0	0	0	0	0	1	7019	1136	40	1		1	HDAC7	12	48185382	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3946875	48185382	85666513	616	41926										
VDR	7421	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	48272845	48272845	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acagatccggggcacgttccGgtcaaagtctccagggtcag	13	12	3	1	rs147496897	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:48272845G>A	ENST00000395324.2	-	3	320	c.52C>T	c.(52-54)Cgg>Tgg	p.R18W	VDR_ENST00000550325.1_Missense_Mutation_p.R68W|VDR_ENST00000229022.3_Missense_Mutation_p.R18W|VDR_ENST00000549336.1_Missense_Mutation_p.R18W|VDR_ENST00000535672.1_5'UTR			P11473	VDR_HUMAN	vitamin D (1,25- dihydroxyvitamin D3) receptor	18					bile acid signaling pathway (GO:0038183)|calcium ion transport (GO:0006816)|cell morphogenesis (GO:0000902)|cellular calcium ion homeostasis (GO:0006874)|decidualization (GO:0046697)|gene expression (GO:0010467)|intestinal absorption (GO:0050892)|lactation (GO:0007595)|mammary gland branching involved in pregnancy (GO:0060745)|negative regulation of cell proliferation (GO:0008285)|negative regulation of keratinocyte proliferation (GO:0010839)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|organ morphogenesis (GO:0009887)|positive regulation of apoptotic process involved in mammary gland involution (GO:0060058)|positive regulation of gene expression (GO:0010628)|positive regulation of keratinocyte differentiation (GO:0045618)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of vitamin D 24-hydroxylase activity (GO:0010980)|regulation of calcidiol 1-monooxygenase activity (GO:0060558)|signal transduction (GO:0007165)|skeletal system development (GO:0001501)|transcription initiation from RNA polymerase II promoter (GO:0006367)|vitamin D receptor signaling pathway (GO:0070561)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)	calcitriol binding (GO:1902098)|calcitriol receptor activity (GO:0008434)|DNA binding (GO:0003677)|lithocholic acid binding (GO:1902121)|lithocholic acid receptor activity (GO:0038186)|retinoid X receptor binding (GO:0046965)|sequence-specific DNA binding (GO:0043565)|steroid hormone receptor activity (GO:0003707)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(10)|ovary(3)|skin(2)	22		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Alfacalcidol(DB01436)|Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Cholecalciferol(DB00169)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	GGCACGTTCCGGTCAAAGTCT	0.587													G|||	2	0.000399361	0.0008	0.0	5008	,	,		12672	0.0		0.0	False		,,,				2504	0.001															0													107	89	95					12																	48272845		2203	4300	6503	SO:0001583	missense	7421			J03258	CCDS8757.1, CCDS55820.1	12q12-q14	2014-06-13				ENSG00000111424		"Nuclear hormone receptors"	12679	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 163"	601769				1662663	Standard	NM_001017536		Approved	NR1I1, PPP1R163	uc001rql.3	P11473		ENST00000395324.2:c.52C>T	12.37:g.48272845G>A	ENSP00000378734:p.Arg18Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5Q1|G3V1V9|Q5PSV3	Missense_Mutation	SNP	ENST00000395324.2	37	CCDS8757.1	.	.	.	.	.	.	.	.	.	.	G	19.22	3.785656	0.70337	.	.	ENSG00000111424	ENST00000395324;ENST00000229022;ENST00000549336;ENST00000550325;ENST00000546653;ENST00000550314;ENST00000548664	D;D;D;D;D;D;D	0.94537	-3.37;-3.37;-3.37;-3.37;-2.92;-3.45;-3.3	5.58	5.58	0.84498	.	0.134840	0.50627	D	0.000118	D	0.96667	0.8912	M	0.75884	2.315	0.80722	D	1	D;D	0.89917	0.998;1.0	D;D	0.73708	0.918;0.981	D	0.96760	0.9560	10	0.87932	D	0	.	13.1559	0.59516	0.0:0.0:0.8403:0.1597	.	18;68	P11473;G3V1V9	VDR_HUMAN;.	W	18;18;18;68;18;18;18	ENSP00000378734:R18W;ENSP00000229022:R18W;ENSP00000449573:R18W;ENSP00000447173:R68W;ENSP00000448659:R18W;ENSP00000449561:R18W;ENSP00000450105:R18W	ENSP00000229022:R18W	R	-	1	2	VDR	46559112	0.992000	0.36948	1.000000	0.80357	0.937000	0.57800	0.594000	0.24014	2.630000	0.89119	0.655000	0.94253	CGG		0.587	VDR-001	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406433.1			A	48272845	G	A	48272845	3	1	664	1	0	0	0	0	1	0	0	0	17161	1115	39	1	1263	1	VDR	12	48272845	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	87463	48272845	85579050	617	41927										
RND1	27289	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	49251932	49251932	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttcagacacagcatggatgcCgtccgaaagatgctgtggat	12	9	1	2	rs145827381	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:49251932C>T	ENST00000309739.5	-	5	676	c.546G>A	c.(544-546)acG>acA	p.T182T		NM_014470.3	NP_055285.1	Q92730	RND1_HUMAN	Rho family GTPase 1	182					actin filament organization (GO:0007015)|axon guidance (GO:0007411)|GTP catabolic process (GO:0006184)|negative regulation of cell adhesion (GO:0007162)|neuron remodeling (GO:0016322)|small GTPase mediated signal transduction (GO:0007264)	adherens junction (GO:0005912)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|plasma membrane (GO:0005886)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|receptor binding (GO:0005102)			breast(1)|endometrium(1)|kidney(2)|large_intestine(2)|ovary(2)|skin(1)|urinary_tract(1)	10						GCATGGATGCCGTCCGAAAGA	0.557													C|||	2	0.000399361	0.0	0.0	5008	,	,		16084	0.002		0.0	False		,,,				2504	0.0															0													123	110	115					12																	49251932		2203	4300	6503	SO:0001819	synonymous_variant	27289			Y07923	CCDS8771.1	12q12	2008-01-23				ENSG00000172602			18314	protein-coding gene	gene with protein product	"ras homolog gene family, member S"	609038				9531558	Standard	NM_014470		Approved	Rho6, ARHS, RHOS	uc001rsn.3	Q92730	OTTHUMG00000170400	ENST00000309739.5:c.546G>A	12.37:g.49251932C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K9P7	Silent	SNP	ENST00000309739.5	37	CCDS8771.1																																																																																				0.557	RND1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408915.1	NM_014470		T	49251932	C	T	49251932	2	4	664	1	0	0	0	0	0	0	0	1	13432	639	23	1		1	RND1	12	49251932	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	979087	49251932	84599963	618	41928										
PRKAG1	5571	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	49396782	49396782	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tttcatccaccactacaagtCggtgaacctggcacagagca	8	13	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:49396782C>T	ENST00000548065.1	-	12	1352	c.896G>A	c.(895-897)cGa>cAa	p.R299Q	RP11-386G11.5_ENST00000552933.1_RNA|PRKAG1_ENST00000547306.1_Missense_Mutation_p.R248Q|PRKAG1_ENST00000395170.3_Missense_Mutation_p.R215Q|PRKAG1_ENST00000316299.5_Missense_Mutation_p.R308Q|PRKAG1_ENST00000552212.1_Missense_Mutation_p.R267Q|RP11-386G11.5_ENST00000547866.1_RNA|RP11-386G11.5_ENST00000547395.1_RNA|RP11-386G11.5_ENST00000552284.1_RNA			P54619	AAKG1_HUMAN	protein kinase, AMP-activated, gamma 1 non-catalytic subunit	299	CBS 4. {ECO:0000255|PROSITE- ProRule:PRU00703}.				cell cycle arrest (GO:0007050)|fatty acid biosynthetic process (GO:0006633)|insulin receptor signaling pathway (GO:0008286)|membrane organization (GO:0061024)|positive regulation of gene expression (GO:0010628)|positive regulation of protein kinase activity (GO:0045860)|protein heterooligomerization (GO:0051291)|protein phosphorylation (GO:0006468)|regulation of glycolytic process (GO:0006110)|signal transduction (GO:0007165)|spermatogenesis (GO:0007283)	AMP-activated protein kinase complex (GO:0031588)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	ADP binding (GO:0043531)|AMP binding (GO:0016208)|ATP binding (GO:0005524)|cAMP-dependent protein kinase activity (GO:0004691)|cAMP-dependent protein kinase regulator activity (GO:0008603)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)	p.R299Q(1)		cervix(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(1)|upper_aerodigestive_tract(1)	9					Acetylsalicylic acid(DB00945)	CACTACAAGTCGGTGAACCTG	0.542																																																1	Substitution - Missense(1)	large_intestine(1)											146	119	128					12																	49396782		2203	4300	6503	SO:0001583	missense	5571			U42412	CCDS8777.1, CCDS55824.1, CCDS55825.1	12q12-q14	1998-07-16				ENSG00000181929			9385	protein-coding gene	gene with protein product		602742				8557660, 8621499	Standard	NM_002733		Approved		uc001rsz.3	P54619	OTTHUMG00000170406	ENST00000548065.1:c.896G>A	12.37:g.49396782C>T	ENSP00000447433:p.Arg299Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DDT7|Q8N7V9	Missense_Mutation	SNP	ENST00000548065.1	37	CCDS8777.1	.	.	.	.	.	.	.	.	.	.	C	18.01	3.526842	0.64860	.	.	ENSG00000181929	ENST00000548362;ENST00000395170;ENST00000547306;ENST00000316299;ENST00000548065;ENST00000552212;ENST00000551770;ENST00000551696	D;D;D;D;D;D;D;D	0.94687	-3.49;-3.49;-3.49;-3.49;-3.49;-3.49;-3.49;-3.49	5.18	4.28	0.50868	Aldolase-type TIM barrel (1);Cystathionine beta-synthase, core (3);	0.056121	0.64402	D	0.000001	D	0.97620	0.9220	M	0.91920	3.255	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.98472	1.0601	10	0.87932	D	0	-4.9987	14.178	0.65555	0.151:0.849:0.0:0.0	.	308;299	Q8N7V9;P54619	.;AAKG1_HUMAN	Q	64;215;248;308;299;267;219;193	ENSP00000446987:R64Q;ENSP00000378599:R215Q;ENSP00000448873:R248Q;ENSP00000323867:R308Q;ENSP00000447433:R299Q;ENSP00000448972:R267Q;ENSP00000449121:R219Q;ENSP00000447671:R193Q	ENSP00000323867:R308Q	R	-	2	0	PRKAG1	47683049	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.574000	0.82434	1.402000	0.46780	0.655000	0.94253	CGA		0.542	PRKAG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408946.1	NM_002733		T	49396782	C	T	49396782	3	4	664	1	0	0	0	0	1	0	0	0	12510	884	31	1	103	1	PRKAG1	12	49396782	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	144850	49396782	84455113	619	41929										
PRPF40B	25766	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	50025707	50025707	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agcggtgcctgtcaccgcagCggtaagcactaggggccagc	15	13	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:50025707C>T	ENST00000380281.1	+	3	291	c.227C>T	c.(226-228)gCg>gTg	p.A76V	PRPF40B_ENST00000548825.2_Splice_Site_p.A98V|PRPF40B_ENST00000261897.1_Splice_Site_p.A70V			Q6NWY9	PR40B_HUMAN	PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae)	76					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)				breast(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(11)|ovary(1)|pancreas(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	34						GTCACCGCAGCGGTAAGCACT	0.542																																																0													166	151	156					12																	50025707		2203	4300	6503	SO:0001630	splice_region_variant	25766			AF049525	CCDS31796.1, CCDS31796.2	12q13.12	2014-09-17	2006-04-04			ENSG00000110844			25031	protein-coding gene	gene with protein product	"Huntingtin interacting protein C"		"PRP40 pre-mRNA processing factor 40 homolog B (yeast)"			9700202	Standard	NM_001031698		Approved	HYPC	uc001rus.2	Q6NWY9		ENST00000380281.1:c.228+1C>T	12.37:g.50025707C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O75401|Q6PI09|Q6ZWB3|Q8NCZ1|Q9H5G4|Q9NT95	Missense_Mutation	SNP	ENST00000380281.1	37		.	.	.	.	.	.	.	.	.	.	C	15.05	2.717180	0.48622	.	.	ENSG00000110844	ENST00000548825;ENST00000261897;ENST00000380281	T;T;T	0.25912	1.77;1.84;1.78	4.86	3.97	0.46021	.	0.196494	0.33834	N	0.004505	T	0.13756	0.0333	N	0.19112	0.55	0.34778	D	0.734407	B;B;B	0.06786	0.001;0.001;0.0	B;B;B	0.04013	0.0;0.001;0.001	T	0.16808	-1.0390	9	.	.	.	-6.4768	6.9653	0.24619	0.0:0.7305:0.1757:0.0938	.	76;70;76	Q6NWY9;Q6NWY9-2;Q6NWY9-3	PR40B_HUMAN;.;.	V	98;70;76	ENSP00000448073:A98V;ENSP00000261897:A70V;ENSP00000369634:A76V	.	A	+	2	0	PRPF40B	48311974	1.000000	0.71417	1.000000	0.80357	0.869000	0.49853	0.740000	0.26188	1.401000	0.46761	0.655000	0.94253	GCG		0.542	PRPF40B-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000404838.1	NM_012272	Missense_Mutation	T	50025707	C	T	50025707	5	4	664	1	0	0	0	0	0	0	1	0	12582	782	27	1	237	1	PRPF40B	12	50025707	Splice_Site	SNP	C	TCGA-KN-8428-01A-11D-2310-10	628925	50025707	83826188	620	41930										
NCKAP5L	57701	broad.mit.edu;hgsc.bcm.edu	37	chr12	50185655	50185655	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccacaagaggacagcgagtcGtagagtgagtcactgagaga	14	8	1	5			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:50185655G>A	ENST00000335999.6	-	13	4173	c.3972C>T	c.(3970-3972)taC>taT	p.Y1324Y		NM_001037806.3	NP_001032895.2	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	1320										central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(2)|lung(8)|prostate(2)	18						ACAGCGAGTCGTAGAGTGAGT	0.687																																																0													17	22	21					12																	50185655		2007	4171	6178	SO:0001819	synonymous_variant	57701			AB046822	CCDS41781.2	12q13.12	2009-08-14	2009-08-14	2009-08-14	ENSG00000167566	ENSG00000167566			29321	protein-coding gene	gene with protein product		615104	"KIAA1602"	KIAA1602			Standard	NM_001037806		Approved		uc009zlk.2	Q9HCH0	OTTHUMG00000156969	ENST00000335999.6:c.3972C>T	12.37:g.50185655G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2TB26|Q71RH1|Q8N4W1|Q96HX2	Silent	SNP	ENST00000335999.6	37	CCDS41781.2																																																																																				0.687	NCKAP5L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346884.2	XM_035497		A	50185655	G	A	50185655	2	1	664	1	0	0	0	0	0	0	0	1	10231	1140	40	1		1	NCKAP5L	12	50185655	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	159948	50185655	83666240	621	41931										
TMPRSS12	283471	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	51252617	51252617	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaactaataatatacatggaCgctatcctcataccaagaag	6	9	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:51252617C>T	ENST00000398458.3	+	3	465	c.433C>T	c.(433-435)Cgc>Tgc	p.R145C	TMPRSS12_ENST00000551456.1_Missense_Mutation_p.R145C	NM_182559.2	NP_872365	Q86WS5	TMPSC_HUMAN	transmembrane (C-terminal) protease, serine 12	145	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.					integral component of membrane (GO:0016021)	serine-type endopeptidase activity (GO:0004252)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(7)|ovary(1)|skin(1)|urinary_tract(1)	18						TATACATGGACGCTATCCTCA	0.279																																																0													33	31	31					12																	51252617		1815	4071	5886	SO:0001583	missense	283471			BC048112	CCDS44881.1	12q13.12	2014-08-12	2010-04-21		ENSG00000186452	ENSG00000186452		"Serine peptidases / Transmembrane"	28779	protein-coding gene	gene with protein product			"transmembrane protease, serine 12"				Standard	NM_182559		Approved	MGC57341, CT151	uc001rwx.4	Q86WS5	OTTHUMG00000169483	ENST00000398458.3:c.433C>T	12.37:g.51252617C>T	ENSP00000381476:p.Arg145Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B9ZVX2	Missense_Mutation	SNP	ENST00000398458.3	37	CCDS44881.1	.	.	.	.	.	.	.	.	.	.	C	12.32	1.903861	0.33628	.	.	ENSG00000186452	ENST00000551456;ENST00000398458	D;T	0.89343	-2.5;0.29	5.75	-11.5	0.00074	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	2.367380	0.01447	N	0.015346	D	0.83751	0.5322	L	0.55481	1.735	0.09310	N	1	D;P	0.60160	0.987;0.876	B;B	0.38500	0.275;0.054	T	0.77547	-0.2547	10	0.38643	T	0.18	4.4334	16.6272	0.84974	0.184:0.7002:0.1158:0.0	.	145;145	F8WBX2;Q86WS5	.;TMPSC_HUMAN	C	145	ENSP00000447259:R145C;ENSP00000381476:R145C	ENSP00000381476:R145C	R	+	1	0	TMPRSS12	49538884	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.762000	0.04745	-1.833000	0.01195	-1.120000	0.02017	CGC		0.279	TMPRSS12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404289.1	NM_182559		T	51252617	C	T	51252617	3	4	664	1	0	0	0	0	1	0	0	0	16256	536	19	1	443	1	TMPRSS12	12	51252617	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1066962	51252617	82599278	622	41932										
GALNT6	11226	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	51752021	51752021	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttgttccctcagctgcagtcGttccgaaatgtcaccgaagg	10	12	2	0	rs200682302		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:51752021G>A	ENST00000543196.2	-	8	1598	c.1393C>T	c.(1393-1395)Cga>Tga	p.R465*	GALNT6_ENST00000356317.3_Nonsense_Mutation_p.R465*			Q8NCL4	GALT6_HUMAN	polypeptide N-acetylgalactosaminyltransferase 6	465					cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein O-linked glycosylation (GO:0006493)	Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)	p.R465*(1)		endometrium(2)|large_intestine(6)|lung(7)|ovary(3)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	27						AGCTGCAGTCGTTCCGAAATG	0.468													g|||	1	0.000199681	0.0	0.0	5008	,	,		16880	0.0		0.0	False		,,,				2504	0.001															1	Substitution - Nonsense(1)	skin(1)							stop/ARG	0,4406		0,0,2203	226	189	201		1393	3	0.9	12		201	1,8599	1.2+/-3.3	0,1,4299	yes	stop-gained	GALNT6	NM_007210.3		0,1,6502	AA,AG,GG		0.0116,0.0,0.0077		465/623	51752021	1,13005	2203	4300	6503	SO:0001587	stop_gained	11226			Y08565	CCDS8813.1	12q13	2014-03-13	2014-03-13		ENSG00000139629	ENSG00000139629		"Glycosyltransferase family 2 domain containing"	4128	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 6"	605148	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 6 (GalNAc-T6)"			10464263	Standard	NM_007210		Approved	GalNAc-T6	uc001ryl.1	Q8NCL4		ENST00000543196.2:c.1393C>T	12.37:g.51752021G>A	ENSP00000444171:p.Arg465*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYH4|Q9H6G2|Q9UIV5	Nonsense_Mutation	SNP	ENST00000543196.2	37	CCDS8813.1	.	.	.	.	.	.	.	.	.	.	g	38	7.025785	0.98010	0.0	1.16E-4	ENSG00000139629	ENST00000543196;ENST00000356317;ENST00000546163	.	.	.	3.95	3.05	0.35203	.	0.563076	0.19138	N	0.121749	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	10.8734	0.46896	0.0:0.0:0.662:0.338	.	.	.	.	X	465;465;446	.	ENSP00000348668:R465X	R	-	1	2	GALNT6	50038288	0.273000	0.24181	0.862000	0.33874	0.948000	0.59901	0.695000	0.25527	1.215000	0.43411	0.457000	0.33378	CGA		0.468	GALNT6-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000469735.1	NM_007210		A	51752021	G	A	51752021	4	1	664	1	0	0	0	0	0	1	0	0	6224	1153	40	1	491	1	GALNT6	12	51752021	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	499404	51752021	82099874	623	41933										
NR4A1	3164	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	52449897	52449897	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggcggcgaaaccgctgccaGttctgccgcttccagaagtg	13	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:52449897G>A	ENST00000243050.1	+	4	1274	c.960G>A	c.(958-960)caG>caA	p.Q320Q	NR4A1_ENST00000394825.1_Silent_p.Q320Q|NR4A1_ENST00000360284.3_Silent_p.Q333Q|NR4A1_ENST00000545748.1_Silent_p.Q374Q|NR4A1_ENST00000394824.2_Silent_p.Q320Q|RP11-1100L3.8_ENST00000564363.1_lincRNA|NR4A1_ENST00000550082.1_Silent_p.Q333Q	NM_002135.4	NP_002126.2	P22736	NR4A1_HUMAN	nuclear receptor subfamily 4, group A, member 1	320					cell migration involved in sprouting angiogenesis (GO:0002042)|cellular response to fibroblast growth factor stimulus (GO:0044344)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|endothelial cell chemotaxis (GO:0035767)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|innate immune response (GO:0045087)|intracellular receptor signaling pathway (GO:0030522)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of apoptotic process (GO:0043065)|positive regulation of endothelial cell proliferation (GO:0001938)|signal transduction (GO:0007165)|skeletal muscle cell differentiation (GO:0035914)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding (GO:0043565)|steroid hormone receptor activity (GO:0003707)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(2)|large_intestine(2)|lung(8)|upper_aerodigestive_tract(2)	16				BRCA - Breast invasive adenocarcinoma(357;0.0967)		ACCGCTGCCAGTTCTGCCGCT	0.637																																																0													80	77	78					12																	52449897		2203	4300	6503	SO:0001819	synonymous_variant	3164			L13740	CCDS8818.1, CCDS55828.1, CCDS73471.1	12q13	2013-01-16			ENSG00000123358	ENSG00000123358		"Nuclear hormone receptors"	7980	protein-coding gene	gene with protein product		139139		HMR, GFRP1		2626032	Standard	NM_002135		Approved	TR3, N10, NAK-1, NGFIB, NUR77	uc001rzt.3	P22736	OTTHUMG00000150393	ENST00000243050.1:c.960G>A	12.37:g.52449897G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DML7|Q15627|Q53Y00|Q6IBU8	Silent	SNP	ENST00000243050.1	37	CCDS8818.1	.	.	.	.	.	.	.	.	.	.	G	16.04	3.008969	0.54361	.	.	ENSG00000123358	ENST00000550763	T	0.48201	0.82	4.27	3.38	0.38709	.	.	.	.	.	T	0.58694	0.2140	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.63301	-0.6668	6	0.72032	D	0.01	.	11.7719	0.51965	0.0893:0.0:0.9107:0.0	.	.	.	.	N	136	ENSP00000449858:S136N	ENSP00000449858:S136N	S	+	2	0	NR4A1	50736164	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.709000	0.47160	1.396000	0.46663	0.561000	0.74099	AGT		0.637	NR4A1-201	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000317922.2			A	52449897	G	A	52449897	2	1	664	1	0	0	0	0	0	0	0	1	10639	1020	36	2		2	NR4A1	12	52449897	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	697876	52449897	81401998	624	41934										
KRT81	3887	broad.mit.edu;hgsc.bcm.edu	37	chr12	52681795	52681795	+	Silent	SNP	G	G	A													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cggtaccaggactcggcctcGgcccggctgcgggtgacaat					rs200239075	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:52681795G>A	ENST00000327741.5	-	5	941	c.873C>T	c.(871-873)gcC>gcT	p.A291A	KRT86_ENST00000544024.1_Intron|KRT86_ENST00000423955.2_Intron	NM_002281.3	NP_002272.2	Q14533	KRT81_HUMAN	keratin 81	291	Coil 2.|Rod.					extracellular space (GO:0005615)|keratin filament (GO:0045095)	structural molecule activity (GO:0005198)			breast(2)|endometrium(3)|large_intestine(3)|lung(6)|prostate(1)|stomach(1)	16				BRCA - Breast invasive adenocarcinoma(357;0.189)		ACTCGGCCTCGGCCCGGCTGC	0.562																																																0													97	83	88					12																	52681795		2203	4300	6503	SO:0001819	synonymous_variant	3887			X81420	CCDS31805.1	12q13	2013-01-16	2006-07-17	2006-07-17	ENSG00000205426	ENSG00000205426		"-", "Intermediate filaments type II, keratins (basic)"	6458	protein-coding gene	gene with protein product	"hard keratin type II 1"	602153	"keratin, hair, basic, 1"	KRTHB1		7556444, 16831889	Standard	NM_002281		Approved	Hb-1	uc001sab.3	Q14533	OTTHUMG00000167574	ENST00000327741.5:c.873C>T	12.37:g.52681795G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q14846|Q16274|Q17R48|Q8WU52|Q9BR74	Silent	SNP	ENST00000327741.5	37	CCDS31805.1																																																																																				0.562	KRT81-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395128.2	NM_002281		A	52681795	G	A	52681795	2	1	664	1	0	0	0	0	0	0	0	1	8502	1103	39	1		1	KRT81	12	52681795	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	231898	52681795	81170100	625	41935	397	2								
KRT81	3887	hgsc.bcm.edu	37	chr12	52681804	52681804	+	Silent	SNP	G	G	A													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gactcggcctcggcccggctGcgggtgacaatgtcgtcata							TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:52681804G>A	ENST00000327741.5	-	5	932	c.864C>T	c.(862-864)cgC>cgT	p.R288R	KRT86_ENST00000544024.1_Intron|KRT86_ENST00000423955.2_Intron	NM_002281.3	NP_002272.2	Q14533	KRT81_HUMAN	keratin 81	288	Coil 2.|Rod.					extracellular space (GO:0005615)|keratin filament (GO:0045095)	structural molecule activity (GO:0005198)			breast(2)|endometrium(3)|large_intestine(3)|lung(6)|prostate(1)|stomach(1)	16				BRCA - Breast invasive adenocarcinoma(357;0.189)		CGGCCCGGCTGCGGGTGACAA	0.567																																																0													109	92	98					12																	52681804		2203	4300	6503	SO:0001819	synonymous_variant	3887			X81420	CCDS31805.1	12q13	2013-01-16	2006-07-17	2006-07-17	ENSG00000205426	ENSG00000205426		"-", "Intermediate filaments type II, keratins (basic)"	6458	protein-coding gene	gene with protein product	"hard keratin type II 1"	602153	"keratin, hair, basic, 1"	KRTHB1		7556444, 16831889	Standard	NM_002281		Approved	Hb-1	uc001sab.3	Q14533	OTTHUMG00000167574	ENST00000327741.5:c.864C>T	12.37:g.52681804G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q14846|Q16274|Q17R48|Q8WU52|Q9BR74	Silent	SNP	ENST00000327741.5	37	CCDS31805.1																																																																																				0.567	KRT81-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395128.2	NM_002281		A	52681804	G	A	52681804	2	1	664	1	0	0	0	0	0	0	0	1	8502	1306	46	2		2	KRT81	12	52681804	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	9	52681804	81170091	626	41936	397	2								
KRT81	3887	hgsc.bcm.edu	37	chr12	52682214	52682214	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acgttggcctccaggtctgaCttgcggaggtaggcgcagtc	15	11	1	1	rs141008448	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:52682214C>T	ENST00000327741.5	-	4	734	c.666G>A	c.(664-666)aaG>aaA	p.K222K	KRT86_ENST00000544024.1_Intron|KRT86_ENST00000423955.2_Intron	NM_002281.3	NP_002272.2	Q14533	KRT81_HUMAN	keratin 81	222	Coil 1B.|Rod.					extracellular space (GO:0005615)|keratin filament (GO:0045095)	structural molecule activity (GO:0005198)			breast(2)|endometrium(3)|large_intestine(3)|lung(6)|prostate(1)|stomach(1)	16				BRCA - Breast invasive adenocarcinoma(357;0.189)		CCAGGTCTGACTTGCGGAGGT	0.622													.|||	11	0.00219649	0.0	0.0	5008	,	,		18781	0.0099		0.0	False		,,,				2504	0.001															0													116	115	116					12																	52682214		2203	4300	6503	SO:0001819	synonymous_variant	3887			X81420	CCDS31805.1	12q13	2013-01-16	2006-07-17	2006-07-17	ENSG00000205426	ENSG00000205426		"-", "Intermediate filaments type II, keratins (basic)"	6458	protein-coding gene	gene with protein product	"hard keratin type II 1"	602153	"keratin, hair, basic, 1"	KRTHB1		7556444, 16831889	Standard	NM_002281		Approved	Hb-1	uc001sab.3	Q14533	OTTHUMG00000167574	ENST00000327741.5:c.666G>A	12.37:g.52682214C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14846|Q16274|Q17R48|Q8WU52|Q9BR74	Silent	SNP	ENST00000327741.5	37	CCDS31805.1																																																																																				0.622	KRT81-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395128.2	NM_002281		T	52682214	C	T	52682214	2	4	664	1	0	0	0	0	0	0	0	1	8502	564	20	2		2	KRT81	12	52682214	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	410	52682214	81169681	627	41937										
KRT6C	286887	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr12	52867039	52867039	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttgatctgctcacgctcctcGgcccgcacccgctggatggc	11	17	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:52867039G>A	ENST00000252250.6	-	1	530	c.483C>T	c.(481-483)gcC>gcT	p.A161A		NM_173086.4	NP_775109.2	P48668	K2C6C_HUMAN	keratin 6C	161	Head.				intermediate filament cytoskeleton organization (GO:0045104)	extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)|keratin filament (GO:0045095)	structural molecule activity (GO:0005198)			cervix(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(6)|ovary(3)|prostate(2)|skin(2)	23				BRCA - Breast invasive adenocarcinoma(357;0.0828)		CACGCTCCTCGGCCCGCACCC	0.612																																																0													34	25	28					12																	52867039		2187	4104	6291	SO:0001819	synonymous_variant	286887			L42611	CCDS8829.1	12q13.13	2013-01-16	2006-07-17	2006-07-17	ENSG00000170465	ENSG00000170465		"-", "Intermediate filaments type II, keratins (basic)"	20406	protein-coding gene	gene with protein product		612315	"keratin 6E"	KRT6E		7543104, 16831889	Standard	NM_173086		Approved		uc001sal.4	P48668	OTTHUMG00000169596	ENST00000252250.6:c.483C>T	12.37:g.52867039G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A1L4L5|P48666|Q2TAZ9|Q7RTN9	Silent	SNP	ENST00000252250.6	37	CCDS8829.1																																																																																				0.612	KRT6C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404976.1	NM_173086		A	52867039	G	A	52867039	2	1	664	1	0	0	0	0	0	0	0	1	8489	1103	39	1		1	KRT6C	12	52867039	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	184825	52867039	80984856	628	41938										
KRT6A	3853	mdanderson.org	37	chr12	52882315	52882315	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgctcagcatcagcaatggcGgcctgcaggttggcgcactg	14	12	2	0	rs369027797		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:52882315G>A	ENST00000330722.6	-	7	1289	c.1221C>T	c.(1219-1221)gcC>gcT	p.A407A		NM_005554.3	NP_005545.1	P02538	K2C6A_HUMAN	keratin 6A	407	Coil 2.|Rod.				cell differentiation (GO:0030154)|positive regulation of cell proliferation (GO:0008284)	extracellular vesicular exosome (GO:0070062)|keratin filament (GO:0045095)|membrane (GO:0016020)|nucleus (GO:0005634)	structural constituent of cytoskeleton (GO:0005200)			breast(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|liver(1)|lung(14)|ovary(4)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	39				BRCA - Breast invasive adenocarcinoma(357;0.189)		CAGCAATGGCGGCCTGCAGGT	0.557																																																0								G		2,4404	2.1+/-5.4	0,2,2201	71	67	68		1221	-5.9	0.7	12		68	2,8598		0,2,4298	no	coding-synonymous	KRT6A	NM_005554.3		0,4,6499	AA,AG,GG		0.0233,0.0454,0.0308		407/565	52882315	4,13002	2203	4300	6503	SO:0001819	synonymous_variant	3853			BC014152, L42593, L42610	CCDS41786.1	12q13.13	2013-01-16			ENSG00000205420	ENSG00000205420		"-", "Intermediate filaments type II, keratins (basic)"	6443	protein-coding gene	gene with protein product		148041	"keratin 6C", "keratin 6D"	KRT6C, KRT6D		1713141, 16831889	Standard	NM_005554		Approved	CK6C, K6C, CK6D, K6D	uc001sam.3	P02538	OTTHUMG00000169597	ENST00000330722.6:c.1221C>T	12.37:g.52882315G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4QPC1|P48667|Q08AR4|Q6NT67|Q96CL4	Silent	SNP	ENST00000330722.6	37	CCDS41786.1																																																																																				0.557	KRT6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404978.2	NM_005554		A	52882315	G	A	52882315	2	1	664	1	0	0	0	0	0	0	0	1	8487	1103	39	1		1	KRT6A	12	52882315	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	15276	52882315	80969580	629	41939										
KRT5	3852	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	52910639	52910639	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atggcgttctgcagattggcGcactacagatagaaaggagg	14	7	1	3	rs539263098		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:52910639G>A	ENST00000252242.4	-	7	1611	c.1221C>T	c.(1219-1221)tgC>tgT	p.C407C		NM_000424.3	NP_000415.2	P13647	K2C5_HUMAN	keratin 5	407	Coil 2.|Rod.				cell junction assembly (GO:0034329)|epidermis development (GO:0008544)|hemidesmosome assembly (GO:0031581)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)|keratin filament (GO:0045095)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	scaffold protein binding (GO:0097110)|structural constituent of cytoskeleton (GO:0005200)			endometrium(5)|kidney(1)|large_intestine(8)|lung(15)|prostate(4)|skin(2)	35				BRCA - Breast invasive adenocarcinoma(357;0.189)		GCAGATTGGCGCACTACAGAT	0.572													G|||	1	0.000199681	0.0	0.0	5008	,	,		20701	0.0		0.0	False		,,,				2504	0.001															0													53	49	51					12																	52910639		2203	4300	6503	SO:0001819	synonymous_variant	3852				CCDS8830.1	12q13.13	2013-01-16	2008-08-01		ENSG00000186081	ENSG00000186081		"-", "Intermediate filaments type II, keratins (basic)"	6442	protein-coding gene	gene with protein product		148040	"epidermolysis bullosa simplex 2 Dowling-Meara/Kobner/Weber-Cockayne types", "keratin 5 (epidermolysis bullosa simplex, Dowling-Meara/Kobner/Weber-Cockayne types)"	EBS2		1713141, 16831889	Standard	NM_000424		Approved	KRT5A	uc001san.3	P13647	OTTHUMG00000169657	ENST00000252242.4:c.1221C>T	12.37:g.52910639G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6PI71|Q6UBJ0|Q8TA91	Silent	SNP	ENST00000252242.4	37	CCDS8830.1	.	.	.	.	.	.	.	.	.	.	G	7.163	0.586132	0.13749	.	.	ENSG00000186081	ENST00000548409	.	.	.	5.72	-5.42	0.02640	.	.	.	.	.	T	0.65270	0.2675	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.67067	-0.5764	4	.	.	.	.	16.6149	0.84904	0.6611:0.0:0.3389:0.0	.	.	.	.	C	115	.	.	R	-	1	0	KRT5	51196906	0.000000	0.05858	0.889000	0.34880	0.847000	0.48162	-1.493000	0.02298	-0.962000	0.03604	-0.122000	0.15005	CGC		0.572	KRT5-001	KNOWN	overlapping_uORF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405312.1			A	52910639	G	A	52910639	2	1	664	1	0	0	0	0	0	0	0	1	8486	1079	38	1		1	KRT5	12	52910639	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	28324	52910639	80941256	630	41940										
KRT2	3849	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr12	53045674	53045674	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccaccaaatccaccagcggCgccaaagccaccacctcctc	6	21	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:53045674C>T	ENST00000309680.3	-	1	274	c.253G>A	c.(253-255)Gcc>Acc	p.A85T		NM_000423.2	NP_000414.2	P35908	K22E_HUMAN	keratin 2	85	Head.				epidermis development (GO:0008544)|keratinization (GO:0031424)|keratinocyte activation (GO:0032980)|keratinocyte migration (GO:0051546)|keratinocyte proliferation (GO:0043616)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|intermediate filament (GO:0005882)|intermediate filament cytoskeleton (GO:0045111)|keratin filament (GO:0045095)|membrane (GO:0016020)|nucleus (GO:0005634)	structural constituent of cytoskeleton (GO:0005200)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|lung(18)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	32				BRCA - Breast invasive adenocarcinoma(357;0.19)		ccaccagcggcgccaaagcca	0.622																																																0													52	37	42					12																	53045674		2203	4300	6503	SO:0001583	missense	3849				CCDS8835.1	12q13.13	2013-01-16	2008-08-01	2006-07-17	ENSG00000172867	ENSG00000172867		"-", "Intermediate filaments type II, keratins (basic)"	6439	protein-coding gene	gene with protein product	"epidermal ichthyosis bullosa of Siemens"	600194	"keratin 2A (epidermal ichthyosis bullosa of Siemens)"	KRT2A		7524919, 16831889	Standard	NM_000423		Approved	KRTE	uc001sat.3	P35908	OTTHUMG00000169748	ENST00000309680.3:c.253G>A	12.37:g.53045674C>T	ENSP00000310861:p.Ala85Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VAQ2	Missense_Mutation	SNP	ENST00000309680.3	37	CCDS8835.1	.	.	.	.	.	.	.	.	.	.	C	8.388	0.839044	0.16891	.	.	ENSG00000172867	ENST00000309680	D	0.85629	-2.01	5.27	-3.3	0.05003	.	.	.	.	.	T	0.69333	0.3099	L	0.27053	0.805	0.09310	N	1	B	0.18863	0.031	B	0.11329	0.006	T	0.52208	-0.8606	9	0.22706	T	0.39	.	4.007	0.09605	0.1764:0.4844:0.0701:0.2691	.	85	P35908	K22E_HUMAN	T	85	ENSP00000310861:A85T	ENSP00000310861:A85T	A	-	1	0	KRT2	51331941	0.000000	0.05858	0.000000	0.03702	0.015000	0.08874	-0.275000	0.08525	-0.506000	0.06558	-1.373000	0.01185	GCC		0.622	KRT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405704.1	NM_000423		T	53045674	C	T	53045674	3	4	664	1	0	0	0	0	1	0	0	0	8464	768	27	1	1702	1	KRT2	12	53045674	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	135035	53045674	80806221	631	41941										
ESPL1	9700	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	53663207	53663207	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gggcagaagccctgttggaaCggcgagctgcatttgcagct	15	10	0	1	rs145536592		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:53663207C>T	ENST00000257934.4	+	3	572	c.481C>T	c.(481-483)Cgg>Tgg	p.R161W	ESPL1_ENST00000552462.1_Missense_Mutation_p.R161W	NM_012291.4	NP_036423.4	Q14674	ESPL1_HUMAN	extra spindle pole bodies homolog 1 (S. cerevisiae)	161					apoptotic process (GO:0006915)|cytokinesis (GO:0000910)|establishment of mitotic spindle localization (GO:0040001)|homologous chromosome segregation (GO:0045143)|meiotic spindle organization (GO:0000212)|mitotic cell cycle (GO:0000278)|mitotic sister chromatid segregation (GO:0000070)|negative regulation of sister chromatid cohesion (GO:0045875)|positive regulation of mitotic metaphase/anaphase transition (GO:0045842)	centrosome (GO:0005813)|cytosol (GO:0005829)|nucleus (GO:0005634)	catalytic activity (GO:0003824)|cysteine-type peptidase activity (GO:0008234)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(10)|large_intestine(12)|lung(21)|ovary(2)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(8)	70						CCTGTTGGAACGGCGAGCTGC	0.577																																					Colon(53;1069 1201 2587 5382)											0								C	TRP/ARG	0,4406		0,0,2203	78	83	82		481	1.9	0	12	dbSNP_134	82	1,8599	1.2+/-3.3	0,1,4299	no	missense	ESPL1	NM_012291.4	101	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	161/2121	53663207	1,13005	2203	4300	6503	SO:0001583	missense	9700			D79987	CCDS8852.1	12q13.13	2014-08-04	2013-05-03		ENSG00000135476	ENSG00000135476	3.4.22.49		16856	protein-coding gene	gene with protein product	"separin", "separase", "separin, cysteine protease"	604143	"extra spindle poles like 1 (S. cerevisiae)"			8724849, 16258266	Standard	NM_012291		Approved	KIAA0165, ESP1, SEPA	uc001sck.2	Q14674	OTTHUMG00000169674	ENST00000257934.4:c.481C>T	12.37:g.53663207C>T	ENSP00000257934:p.Arg161Trp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000257934.4	37	CCDS8852.1	.	.	.	.	.	.	.	.	.	.	C	10.84	1.465148	0.26335	0.0	1.16E-4	ENSG00000135476	ENST00000257934;ENST00000552462	T;T	0.13778	2.56;2.56	4.89	1.85	0.25348	.	0.549157	0.17944	N	0.156737	T	0.17238	0.0414	L	0.57536	1.79	0.09310	N	1	D	0.62365	0.991	B	0.44315	0.446	T	0.09079	-1.0691	10	0.66056	D	0.02	.	12.8226	0.57702	0.4273:0.5727:0.0:0.0	.	161	Q14674	ESPL1_HUMAN	W	161	ENSP00000257934:R161W;ENSP00000449831:R161W	ENSP00000257934:R161W	R	+	1	2	ESPL1	51949474	0.000000	0.05858	0.007000	0.13788	0.086000	0.17979	0.105000	0.15333	0.279000	0.22186	0.561000	0.74099	CGG		0.577	ESPL1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406899.2	NM_012291		T	53663207	C	T	53663207	3	4	664	1	0	0	0	0	1	0	0	0	5255	527	19	1	487	1	ESPL1	12	53663207	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	617533	53663207	80188688	632	41942										
ESPL1	9700	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr12	53685530	53685530	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gacattcaggccctggcctaCgggctgtgcccaacccagcc	11	17	1	0	rs527909578		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:53685530C>T	ENST00000257934.4	+	26	5668	c.5577C>T	c.(5575-5577)taC>taT	p.Y1859Y	ESPL1_ENST00000552462.1_Silent_p.Y1859Y	NM_012291.4	NP_036423.4	Q14674	ESPL1_HUMAN	extra spindle pole bodies homolog 1 (S. cerevisiae)	1859					apoptotic process (GO:0006915)|cytokinesis (GO:0000910)|establishment of mitotic spindle localization (GO:0040001)|homologous chromosome segregation (GO:0045143)|meiotic spindle organization (GO:0000212)|mitotic cell cycle (GO:0000278)|mitotic sister chromatid segregation (GO:0000070)|negative regulation of sister chromatid cohesion (GO:0045875)|positive regulation of mitotic metaphase/anaphase transition (GO:0045842)	centrosome (GO:0005813)|cytosol (GO:0005829)|nucleus (GO:0005634)	catalytic activity (GO:0003824)|cysteine-type peptidase activity (GO:0008234)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(10)|large_intestine(12)|lung(21)|ovary(2)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(8)	70						CCCTGGCCTACGGGCTGTGCC	0.582													c|||	1	0.000199681	0.0	0.0	5008	,	,		19231	0.0		0.0	False		,,,				2504	0.001				Colon(53;1069 1201 2587 5382)											0													139	137	138					12																	53685530		2203	4300	6503	SO:0001819	synonymous_variant	9700			D79987	CCDS8852.1	12q13.13	2014-08-04	2013-05-03		ENSG00000135476	ENSG00000135476	3.4.22.49		16856	protein-coding gene	gene with protein product	"separin", "separase", "separin, cysteine protease"	604143	"extra spindle poles like 1 (S. cerevisiae)"			8724849, 16258266	Standard	NM_012291		Approved	KIAA0165, ESP1, SEPA	uc001sck.2	Q14674	OTTHUMG00000169674	ENST00000257934.4:c.5577C>T	12.37:g.53685530C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000257934.4	37	CCDS8852.1																																																																																				0.582	ESPL1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406899.2	NM_012291		T	53685530	C	T	53685530	2	4	664	1	0	0	0	0	0	0	0	1	5255	547	19	1		1	ESPL1	12	53685530	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	22323	53685530	80166365	633	41943										
TARBP2	7786	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	53895879	53895879	+	5'Flank	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgggaccagaatagggaagaCgcctgtgtacgaccttctca	12	10	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:53895879C>T	ENST00000267079.2	-	0	0				MAP3K12_ENST00000547488.1_5'Flank|TARBP2_ENST00000549028.1_3'UTR|MAP3K12_ENST00000547151.1_5'Flank|TARBP2_ENST00000266987.2_Missense_Mutation_p.T45M|TARBP2_ENST00000394357.2_Missense_Mutation_p.T24M|TARBP2_ENST00000552857.1_Intron|TARBP2_ENST00000456234.2_Missense_Mutation_p.T24M|RP11-793H13.11_ENST00000602306.1_RNA	NM_001193511.1|NM_006301.3	NP_001180440.1|NP_006292.3	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase 12						histone phosphorylation (GO:0016572)|intracellular signal transduction (GO:0035556)|JNK cascade (GO:0007254)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|growth cone (GO:0030426)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|MAP kinase kinase kinase activity (GO:0004709)|protein homodimerization activity (GO:0042803)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)			NS(2)|breast(2)|endometrium(1)|kidney(1)|large_intestine(7)|liver(1)|lung(16)|ovary(2)|pancreas(1)|prostate(1)|skin(3)	37						ATAGGGAAGACGCCTGTGTAC	0.597																																																0													105	88	94					12																	53895879		2203	4300	6503	SO:0001631	upstream_gene_variant	6895			U07358	CCDS8860.1, CCDS55831.1	12q13.13	2013-10-30			ENSG00000139625	ENSG00000139625		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6851	protein-coding gene	gene with protein product	"dual leucine zipper kinase DLK"	600447		ZPK		8037767	Standard	NM_006301		Approved	MUK, DLK, ZPKP1, MEKK12	uc001sdn.2	Q12852	OTTHUMG00000169854		12.37:g.53895879C>T	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	B3KSS9|G3V1Y2|Q86VQ5|Q8WY25	Missense_Mutation	SNP	ENST00000267079.2	37	CCDS8860.1	.	.	.	.	.	.	.	.	.	.	C	22.3	4.270886	0.80469	.	.	ENSG00000139546	ENST00000266987;ENST00000456234;ENST00000549610;ENST00000394357	T;T;T	0.76709	-1.04;-1.04;-1.04	3.95	3.95	0.45737	Double-stranded RNA-binding (3);Double-stranded RNA-binding-like (1);	0.000000	0.85682	D	0.000000	D	0.86924	0.6050	M	0.73753	2.245	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.996;0.998;0.998	D	0.87989	0.2748	10	0.52906	T	0.07	-9.0831	15.2673	0.73672	0.0:1.0:0.0:0.0	.	45;45;45	F8VWR8;A8K3X2;Q15633	.;.;TRBP2_HUMAN	M	45;24;45;24	ENSP00000266987:T45M;ENSP00000416077:T24M;ENSP00000377885:T24M	ENSP00000266987:T45M	T	+	2	0	TARBP2	52182146	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.295000	0.78780	2.197000	0.70478	0.467000	0.42956	ACG		0.597	MAP3K12-004	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000406267.1	NM_006301		T	53895879	C	T	53895879	1	4	664	0	1	0	0	0	0	0	0	0	15568	536	19	1		1	TARBP2	12	53895879	5'Flank	SNP	C	TCGA-KN-8428-01A-11D-2310-10	210349	53895879	79956016	634	41944										
HOXC13	3229	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	54333126	54333126	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acctgcagcagaagccttgcGcctaccacccgggcgataaa	10	15	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:54333126G>A	ENST00000243056.3	+	1	592	c.436G>A	c.(436-438)Gcc>Acc	p.A146T	HOXC-AS5_ENST00000512916.2_RNA	NM_017410.2	NP_059106.2	P31276	HXC13_HUMAN	homeobox C13	146					anatomical structure morphogenesis (GO:0009653)|anterior/posterior pattern specification (GO:0009952)|hair follicle development (GO:0001942)|nail development (GO:0035878)|tongue morphogenesis (GO:0043587)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding (GO:0043565)			breast(1)|large_intestine(1)|skin(1)	3						GAAGCCTTGCGCCTACCACCC	0.672			T	NUP98	AML																																		Dom	yes		12	12q13.3	3229	homeo box C13		L	0													13	14	14					12																	54333126		2194	4294	6488	SO:0001583	missense	3229				CCDS8865.1	12q13.13	2011-06-20	2005-12-22		ENSG00000123364	ENSG00000123364		"Homeoboxes / ANTP class : HOXL subclass"	5125	protein-coding gene	gene with protein product		142976	"homeo box C13"	HOX3, HOX3G		1973146, 1358459	Standard	NM_017410		Approved		uc001sei.3	P31276	OTTHUMG00000160008	ENST00000243056.3:c.436G>A	12.37:g.54333126G>A	ENSP00000243056:p.Ala146Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BL02|Q96J32|Q9NR24|Q9NYD5	Missense_Mutation	SNP	ENST00000243056.3	37	CCDS8865.1	.	.	.	.	.	.	.	.	.	.	G	15.22	2.768156	0.49680	.	.	ENSG00000123364	ENST00000243056	T	0.54071	0.59	2.87	0.899	0.19271	.	0.439557	0.22602	N	0.057946	T	0.36082	0.0954	L	0.34521	1.04	0.31154	N	0.705187	B	0.33238	0.403	B	0.28784	0.094	T	0.35992	-0.9766	10	0.46703	T	0.11	.	9.9089	0.41392	0.0:0.0:0.3313:0.6687	.	146	P31276	HXC13_HUMAN	T	146	ENSP00000243056:A146T	ENSP00000243056:A146T	A	+	1	0	HOXC13	52619393	1.000000	0.71417	0.996000	0.52242	0.978000	0.69477	1.192000	0.32150	0.241000	0.21283	0.313000	0.20887	GCC		0.672	HOXC13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358865.2			A	54333126	G	A	54333126	3	1	664	1	0	0	0	0	1	0	0	0	7319	1087	38	1	438	1	HOXC13	12	54333126	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	437247	54333126	79518769	635	41945										
ITGA7	3679	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	56090778	56090778	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttgggttcttccaggttacGgctcaggaacgtcacacggg	13	11	3	0	rs146411608		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:56090778G>A	ENST00000555728.1	-	13	1802	c.1774C>T	c.(1774-1776)Cgt>Tgt	p.R592C	ITGA7_ENST00000553804.1_Missense_Mutation_p.R552C|ITGA7_ENST00000347027.6_Missense_Mutation_p.R542C|ITGA7_ENST00000452168.2_Missense_Mutation_p.R455C|ITGA7_ENST00000257879.6_Missense_Mutation_p.R548C|ITGA7_ENST00000394230.2_Missense_Mutation_p.R552C|ITGA7_ENST00000394229.2_Missense_Mutation_p.R548C|ITGA7_ENST00000257880.7_Missense_Mutation_p.R592C			Q13683	ITA7_HUMAN	integrin, alpha 7	592					blood vessel morphogenesis (GO:0048514)|cell migration (GO:0016477)|cell-matrix adhesion (GO:0007160)|endodermal cell differentiation (GO:0035987)|extracellular matrix organization (GO:0030198)|heterotypic cell-cell adhesion (GO:0034113)|integrin-mediated signaling pathway (GO:0007229)|muscle organ development (GO:0007517)|regulation of cell shape (GO:0008360)|skeletal muscle tissue development (GO:0007519)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|integrin alpha7-beta1 complex (GO:0034677)|muscle tendon junction (GO:0005927)|neuromuscular junction (GO:0031594)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)	metal ion binding (GO:0046872)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(10)|lung(16)|ovary(2)|prostate(2)|skin(5)|soft_tissue(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	50						TCCAGGTTACGGCTCAGGAAC	0.617													G|||	1	0.000199681	0.0	0.0	5008	,	,		17775	0.001		0.0	False		,,,				2504	0.0															0													71	62	65					12																	56090778		2203	4300	6503	SO:0001583	missense	3679				CCDS8888.1, CCDS44914.1, CCDS55832.1	12q13	2014-09-17				ENSG00000135424		"Integrins"	6143	protein-coding gene	gene with protein product		600536				7607681	Standard	NM_002206		Approved		uc001shh.3	Q13683		ENST00000555728.1:c.1774C>T	12.37:g.56090778G>A	ENSP00000452387:p.Arg592Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3U0|C9JMD3|C9JMZ6|O43197|Q86W93|Q9NY89|Q9UET0|Q9UEV2	Missense_Mutation	SNP	ENST00000555728.1	37		1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	G	23.0	4.361745	0.82353	.	.	ENSG00000135424	ENST00000553804;ENST00000257879;ENST00000347027;ENST00000452168;ENST00000257880;ENST00000394230;ENST00000394229;ENST00000353687;ENST00000555728	T;T;T;T;T;T;T;T	0.71698	-0.57;-0.57;-0.59;-0.11;-0.55;-0.55;-0.56;-0.55	4.41	4.41	0.53225	Integrin alpha-2 (1);	0.070371	0.56097	D	0.000023	T	0.81809	0.4901	M	0.65498	2.005	0.80722	D	1	D;D;D;D	0.89917	0.993;0.995;0.984;1.0	P;P;P;D	0.72075	0.663;0.773;0.761;0.976	D	0.84193	0.0446	10	0.72032	D	0.01	.	14.8887	0.70590	0.0:0.0:1.0:0.0	.	455;592;552;611	Q13683-13;Q13683;Q13683-3;Q4LE35	.;ITA7_HUMAN;.;.	C	552;548;542;455;592;552;548;592;592	ENSP00000452120:R552C;ENSP00000257879:R548C;ENSP00000343009:R542C;ENSP00000393844:R455C;ENSP00000257880:R592C;ENSP00000377777:R552C;ENSP00000377776:R548C;ENSP00000452387:R592C	ENSP00000257879:R548C	R	-	1	0	ITGA7	54377045	1.000000	0.71417	0.977000	0.42913	0.666000	0.39218	4.398000	0.59697	2.180000	0.69256	0.561000	0.74099	CGT		0.617	ITGA7-014	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000410138.1	NM_002206		A	56090778	G	A	56090778	3	1	664	1	0	0	0	0	1	0	0	0	7888	1116	39	1	1827	1	ITGA7	12	56090778	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1757652	56090778	77761117	636	41946										
GDF11	10220	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	56142583	56142583	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cggaggccggcgtcacatccGtatccgctcactgaagattg	12	13	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:56142583G>A	ENST00000257868.5	+	2	696	c.659G>A	c.(658-660)cGt>cAt	p.R220H		NM_005811.3	NP_005802.1	O95390	GDF11_HUMAN	growth differentiation factor 11	220					camera-type eye morphogenesis (GO:0048593)|cell maturation (GO:0048469)|growth (GO:0040007)|mesoderm development (GO:0007498)|metanephros development (GO:0001656)|negative regulation of cell differentiation (GO:0045596)|negative regulation of cell proliferation (GO:0008285)|nervous system development (GO:0007399)|palate development (GO:0060021)|pancreas development (GO:0031016)|skeletal system development (GO:0001501)|spinal cord anterior/posterior patterning (GO:0021512)|ureteric bud development (GO:0001657)	extracellular space (GO:0005615)|protein complex (GO:0043234)				endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(1)|ovary(2)|prostate(1)|urinary_tract(1)	12						CGTCACATCCGTATCCGCTCA	0.612																																																0													51	41	45					12																	56142583		2203	4300	6503	SO:0001583	missense	10220			AF100907	CCDS8891.1	12q13.13	2008-08-01							4216	protein-coding gene	gene with protein product		603936				15988002	Standard	NM_005811		Approved	BMP-11	uc001shq.3	O95390		ENST00000257868.5:c.659G>A	12.37:g.56142583G>A	ENSP00000257868:p.Arg220His	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UID1|Q9UID2	Missense_Mutation	SNP	ENST00000257868.5	37	CCDS8891.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	16.67|16.67	3.187468|3.187468	0.57909|0.57909	.|.	.|.	ENSG00000135414|ENSG00000135414	ENST00000257868|ENST00000546799	T|.	0.65364|.	-0.15|.	4.75|4.75	4.75|4.75	0.60458|0.60458	Transforming growth factor-beta, N-terminal (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.73690|0.73690	0.3619|0.3619	M|M	0.73217|0.73217	2.22|2.22	0.58432|0.58432	D|D	0.999999|0.999999	P|.	0.39282|.	0.666|.	B|.	0.42245|.	0.381|.	T|T	0.74318|0.74318	-0.3704|-0.3704	10|5	0.45353|.	T|.	0.12|.	-5.14|-5.14	15.6178|15.6178	0.76780|0.76780	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	220|.	O95390|.	GDF11_HUMAN|.	H|I	220|193	ENSP00000257868:R220H|.	ENSP00000257868:R220H|.	R|V	+|+	2|1	0|0	GDF11|GDF11	54428850|54428850	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	8.062000|8.062000	0.89475|0.89475	2.380000|2.380000	0.81148|0.81148	0.555000|0.555000	0.69702|0.69702	CGT|GTA		0.612	GDF11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407842.3			A	56142583	G	A	56142583	3	1	664	1	0	0	0	0	1	0	0	0	6319	1145	40	1	665	1	GDF11	12	56142583	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	51805	56142583	77709312	637	41947										
ERBB3	2065	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	56478809	56478809	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagtgacaggctatgtcctcGtggccatgaatgaattctct	10	9	1	3	rs77228285		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:56478809G>A	ENST00000267101.3	+	3	705	c.265G>A	c.(265-267)Gtg>Atg	p.V89M	ERBB3_ENST00000411731.2_Missense_Mutation_p.V89M|ERBB3_ENST00000450146.2_Intron|ERBB3_ENST00000415288.2_Missense_Mutation_p.V30M	NM_001982.3	NP_001973.2	P21860	ERBB3_HUMAN	v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 3	89					cranial nerve development (GO:0021545)|endocardial cushion development (GO:0003197)|epidermal growth factor receptor signaling pathway (GO:0007173)|extrinsic apoptotic signaling pathway in absence of ligand (GO:0097192)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|negative regulation of cell adhesion (GO:0007162)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of secretion (GO:0051048)|negative regulation of signal transduction (GO:0009968)|neuron apoptotic process (GO:0051402)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peripheral nervous system development (GO:0007422)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein tyrosine kinase activity (GO:0061098)|regulation of cell proliferation (GO:0042127)|Schwann cell differentiation (GO:0014037)|signal transduction (GO:0007165)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|wound healing (GO:0042060)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)|lateral plasma membrane (GO:0016328)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|growth factor binding (GO:0019838)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|protein kinase activity (GO:0004672)|protein tyrosine kinase activator activity (GO:0030296)|transmembrane signaling receptor activity (GO:0004888)			central_nervous_system(2)|lung(3)|ovary(1)|skin(1)|stomach(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CTATGTCCTCGTGGCCATGAA	0.483																																																0													168	140	149					12																	56478809		2203	4300	6503	SO:0001583	missense	2065			M34309	CCDS31833.1, CCDS44918.1	12q13	2013-07-09	2013-07-09			ENSG00000065361			3431	protein-coding gene	gene with protein product		190151	"lethal congenital contracture syndrome 2"	LCCS2			Standard	NM_001982		Approved	HER3	uc001sjh.3	P21860	OTTHUMG00000170140	ENST00000267101.3:c.265G>A	12.37:g.56478809G>A	ENSP00000267101:p.Val89Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6L6|B4DIK7|B4DV32|E9PDT8|Q9BUD7	Missense_Mutation	SNP	ENST00000267101.3	37	CCDS31833.1	.	.	.	.	.	.	.	.	.	.	G	18.92	3.726333	0.69074	.	.	ENSG00000065361	ENST00000549282;ENST00000549061;ENST00000267101;ENST00000394099;ENST00000411731;ENST00000549672;ENST00000415288	D;D;D;D;D;D	0.81996	-1.56;-1.56;-1.56;-1.56;-1.56;-1.56	5.82	4.75	0.60458	EGF receptor, L domain (1);	0.125118	0.37577	N	0.002023	D	0.85461	0.5702	L	0.46819	1.47	0.80722	D	1	D;D	0.89917	0.981;1.0	P;D	0.67900	0.507;0.954	D	0.85354	0.1103	10	0.87932	D	0	.	7.8034	0.29187	0.217:0.0:0.783:0.0	.	89;89	P21860;P21860-2	ERBB3_HUMAN;.	M	89;30;89;89;89;30;30	ENSP00000448636:V89M;ENSP00000449138:V30M;ENSP00000267101:V89M;ENSP00000415753:V89M;ENSP00000449713:V30M;ENSP00000408340:V30M	ENSP00000267101:V89M	V	+	1	0	ERBB3	54765076	0.993000	0.37304	0.972000	0.41901	0.852000	0.48524	2.658000	0.46733	2.748000	0.94277	0.655000	0.94253	GTG		0.483	ERBB3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407619.3			A	56478809	G	A	56478809	3	1	664	1	0	0	0	0	1	0	0	0	5210	1145	40	1	275	1	ERBB3	12	56478809	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	336226	56478809	77373086	638	41948										
ANKRD52	283373	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	56648376	56648376	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctgacctccgctcccatccGaagcaggtacttcaccactt	6	18	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:56648376G>A	ENST00000267116.7	-	7	800	c.679C>T	c.(679-681)Cgg>Tgg	p.R227W		NM_173595.3	NP_775866.2	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	227										endometrium(9)|kidney(2)|large_intestine(8)|lung(6)|ovary(2)|prostate(1)|skin(1)	29						GCTCCCATCCGAAGCAGGTAC	0.567																																																0													41	42	41					12																	56648376		1982	4173	6155	SO:0001583	missense	283373			AK091555	CCDS44920.1	12q13.3	2013-01-10			ENSG00000139645	ENSG00000139645		"Serine/threonine phosphatases / Protein phosphatase 6, regulatory subunits", "Ankyrin repeat domain containing"	26614	protein-coding gene	gene with protein product	"protein phosphatase 6 ankyrin repeat subunit C"						Standard	NM_173595		Approved	FLJ34236, PP6-ARS-C	uc001skm.4	Q8NB46	OTTHUMG00000170329	ENST00000267116.7:c.679C>T	12.37:g.56648376G>A	ENSP00000267116:p.Arg227Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NE79|B1Q2K2	Missense_Mutation	SNP	ENST00000267116.7	37	CCDS44920.1	.	.	.	.	.	.	.	.	.	.	G	19.34	3.808497	0.70797	.	.	ENSG00000139645	ENST00000267116;ENST00000417002	T	0.65364	-0.15	4.85	4.85	0.62838	Ankyrin repeat-containing domain (4);	0.058570	0.64402	D	0.000005	T	0.74261	0.3693	M	0.73319	2.225	0.51482	D	0.99992	D	0.71674	0.998	D	0.64410	0.925	T	0.76515	-0.2931	10	0.87932	D	0	.	10.8398	0.46708	0.0:0.0:0.7084:0.2916	.	227	Q8NB46	ANR52_HUMAN	W	227	ENSP00000267116:R227W	ENSP00000267116:R227W	R	-	1	2	ANKRD52	54934643	0.011000	0.17503	1.000000	0.80357	0.989000	0.77384	1.099000	0.31013	2.688000	0.91661	0.655000	0.94253	CGG		0.567	ANKRD52-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408539.1	NM_173595		A	56648376	G	A	56648376	3	1	664	1	0	0	0	0	1	0	0	0	678	1057	37	1	2639	1	ANKRD52	12	56648376	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	169567	56648376	77203519	639	41949										
NACA	4666	ucsc.edu;mdanderson.org	37	chr12	57114975	57114975	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaggctagagctaaggcagcTggggagatgggaggccctat	18	7	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:57114975T>C	ENST00000454682.1	-	3	620	c.339A>G	c.(337-339)ccA>ccG	p.P113P	NACA_ENST00000546392.1_Intron|NACA_ENST00000356769.3_Intron|NACA_ENST00000550952.1_Silent_p.P113P|NACA_ENST00000552540.1_Intron|NACA_ENST00000551793.1_Intron|NACA_ENST00000393891.4_Intron|NACA_ENST00000548563.1_Intron	NM_001113203.2	NP_001106674.2	E9PAV3	NACAM_HUMAN	nascent polypeptide-associated complex alpha subunit	113	Pro-rich.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(1)|ovary(2)|upper_aerodigestive_tract(1)	10						CTAAGGCAGCTGGGGAGATGG	0.567			T	BCL6	NHL																																		Dom	yes		12	12q23-q24.1	4666	nascent-polypeptide-associated complex alpha polypeptide		L	0													66	66	66					12																	57114975		1568	3582	5150	SO:0001819	synonymous_variant	4666			X80909	CCDS31837.1, CCDS44925.1, CCDS44925.2	12q23-q24.1	2008-09-05	2007-04-20		ENSG00000196531	ENSG00000196531			7629	protein-coding gene	gene with protein product		601234	"nascent-polypeptide-associated complex alpha polypeptide"			8047162	Standard	NM_001113202		Approved	NACA1	uc001sma.2	E9PAV3		ENST00000454682.1:c.339A>G	12.37:g.57114975T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000454682.1	37																																																																																					0.567	NACA-201	KNOWN	basic	protein_coding	protein_coding		NM_005594		C	57114975	T	C	57114975	2	2	664	1	0	0	0	0	0	0	0	1	10140	1567	55	3		3	NACA	12	57114975	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	466599	57114975	76736920	640	41950										
R3HDM2	22864	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	57693939	57693939	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctcacacactgccaggctaCgcaccaactttagcttggaa	7	15	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:57693939C>T	ENST00000347140.3	-	5	623	c.233G>A	c.(232-234)cGt>cAt	p.R78H	R3HDM2_ENST00000402412.1_Missense_Mutation_p.R78H|R3HDM2_ENST00000403821.2_Missense_Mutation_p.R78H|R3HDM2_ENST00000358907.2_Missense_Mutation_p.R78H			Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2	78						nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(3)|ovary(3)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(1)	22						TGCCAGGCTACGCACCAACTT	0.403																																																0													59	51	53					12																	57693939		692	1591	2283	SO:0001583	missense	22864			AB023219	CCDS8937.2	12q13.3	2012-11-19			ENSG00000179912	ENSG00000179912			29167	protein-coding gene	gene with protein product							Standard	NM_014925		Approved	KIAA1002	uc009zpm.1	Q9Y2K5	OTTHUMG00000171568	ENST00000347140.3:c.233G>A	12.37:g.57693939C>T	ENSP00000317903:p.Arg78His	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M1T9|Q3ZCT5	Missense_Mutation	SNP	ENST00000347140.3	37	CCDS8937.2	.	.	.	.	.	.	.	.	.	.	C	33	5.259207	0.95368	.	.	ENSG00000179912	ENST00000347140;ENST00000402412;ENST00000358907;ENST00000403821	T;T;T;T	0.58358	0.54;0.34;0.54;0.61	5.05	5.05	0.67936	.	0.000000	0.85682	D	0.000000	T	0.69780	0.3149	L	0.59436	1.845	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.78314	0.991;0.991	T	0.71813	-0.4479	10	0.87932	D	0	-8.834	17.6848	0.88254	0.0:1.0:0.0:0.0	.	78;78	B5MCU0;Q9Y2K5	.;R3HD2_HUMAN	H	78	ENSP00000317903:R78H;ENSP00000385839:R78H;ENSP00000351784:R78H;ENSP00000385169:R78H	ENSP00000317903:R78H	R	-	2	0	R3HDM2	55980206	1.000000	0.71417	0.997000	0.53966	0.993000	0.82548	7.567000	0.82357	2.785000	0.95823	0.591000	0.81541	CGT		0.403	R3HDM2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000326570.2	NM_014925		T	57693939	C	T	57693939	3	4	664	1	0	0	0	0	1	0	0	0	12901	536	19	1	2777	1	R3HDM2	12	57693939	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	578964	57693939	76157956	641	41951										
CYP27B1	1594	ucsc.edu;mdanderson.org	37	chr12	58160795	58160795	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagcggacgcgatggaacacTctggaggcgtacttgagggt	16	9	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:58160795T>G	ENST00000228606.4	-	1	239	c.30A>C	c.(28-30)agA>agC	p.R10S	CYP27B1_ENST00000546496.1_5'Flank	NM_000785.3	NP_000776.1	O15528	CP27B_HUMAN	cytochrome P450, family 27, subfamily B, polypeptide 1	10					bone mineralization (GO:0030282)|calcitriol biosynthetic process from calciol (GO:0036378)|calcium ion homeostasis (GO:0055074)|calcium ion transport (GO:0006816)|decidualization (GO:0046697)|G1 to G0 transition (GO:0070314)|negative regulation of calcidiol 1-monooxygenase activity (GO:0010956)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|positive regulation of keratinocyte differentiation (GO:0045618)|positive regulation of vitamin D 24-hydroxylase activity (GO:0010980)|positive regulation of vitamin D receptor signaling pathway (GO:0070564)|regulation of bone mineralization (GO:0030500)|response to estrogen (GO:0043627)|response to interferon-gamma (GO:0034341)|response to lipopolysaccharide (GO:0032496)|response to vitamin D (GO:0033280)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|vitamin D catabolic process (GO:0042369)|vitamin D metabolic process (GO:0042359)|vitamin metabolic process (GO:0006766)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)	calcidiol 1-monooxygenase activity (GO:0004498)|heme binding (GO:0020037)|iron ion binding (GO:0005506)			central_nervous_system(3)|endometrium(1)|kidney(1)|large_intestine(3)|lung(5)|prostate(1)|urinary_tract(1)	15	all_cancers(7;8.09e-80)|Lung NSC(6;2.26e-27)|all_lung(6;1.99e-25)|all_epithelial(6;3.62e-18)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)		GBM - Glioblastoma multiforme(5;1.97e-113)|all cancers(5;1.54e-78)|BRCA - Breast invasive adenocarcinoma(9;0.0294)		Alfacalcidol(DB01436)|Calcidiol(DB00146)|Corticotropin(DB01285)|Ergocalciferol(DB00153)	GATGGAACACTCTGGAGGCGT	0.597																																																0													81	96	91					12																	58160795		2203	4300	6503	SO:0001583	missense	1594			AB006987	CCDS8954.1	12q14.1	2013-11-13	2003-01-14		ENSG00000111012	ENSG00000111012		"Cytochrome P450s"	2606	protein-coding gene	gene with protein product	"VDDR I", "1alpha(OH)ase", "25-Hydroxyvitamin D3 1alpha-hydroxylase"	609506	"cytochrome P450, subfamily XXVIIB (25-hydroxyvitamin D-1-alpha-hydroxylase), polypeptide 1"	VDD1, PDDR		9295274, 9344864	Standard	NM_000785		Approved	CYP1, P450c1	uc001spz.1	O15528	OTTHUMG00000170457	ENST00000228606.4:c.30A>C	12.37:g.58160795T>G	ENSP00000228606:p.Arg10Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RC61|Q548T3	Missense_Mutation	SNP	ENST00000228606.4	37	CCDS8954.1	.	.	.	.	.	.	.	.	.	.	T	14.50	2.553432	0.45487	.	.	ENSG00000111012	ENST00000228606	T	0.77098	-1.07	5.26	-3.2	0.05156	.	0.400045	0.25285	N	0.031768	T	0.47021	0.1423	N	0.08118	0	0.09310	N	1	B	0.32573	0.376	B	0.26770	0.073	T	0.51988	-0.8635	10	0.07175	T	0.84	.	10.5905	0.45306	0.0:0.622:0.1134:0.2646	.	10	O15528	CP27B_HUMAN	S	10	ENSP00000228606:R10S	ENSP00000228606:R10S	R	-	3	2	CYP27B1	56447062	0.234000	0.23783	0.002000	0.10522	0.031000	0.12232	-0.194000	0.09559	-1.300000	0.02341	-1.937000	0.00501	AGA		0.597	CYP27B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409248.1	NM_000785		G	58160795	T	G	58160795	3	3	664	1	0	0	0	0	1	0	0	0	4161	1548	54	5	1532	5	CYP27B1	12	58160795	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	466856	58160795	75691100	642	41952										
DYRK2	8445	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr12	68052183	68052183	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagcagagagtgggggaacgCgctgaaggggtgtgatgatc	20	5	0	4	rs138614034	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:68052183C>T	ENST00000344096.3	+	3	1909	c.1496C>T	c.(1495-1497)gCg>gTg	p.A499V	RP11-335O4.3_ENST00000425371.2_RNA|DYRK2_ENST00000393555.3_Missense_Mutation_p.A426V	NM_006482.2	NP_006473.2	Q92630	DYRK2_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 2	499	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cellular response to DNA damage stimulus (GO:0006974)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|negative regulation of NFAT protein import into nucleus (GO:0051534)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of glycogen biosynthetic process (GO:0045725)|protein phosphorylation (GO:0006468)|smoothened signaling pathway (GO:0007224)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)|ubiquitin ligase complex (GO:0000151)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|protein serine/threonine kinase activity (GO:0004674)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|protein tyrosine kinase activity (GO:0004713)|ubiquitin binding (GO:0043130)			breast(2)|central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(7)|lung(6)|ovary(2)|prostate(2)|skin(1)|urinary_tract(1)	30			Lung(24;6.81e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(7;0.000573)		TGGGGGAACGCGCTGAAGGGG	0.587																																																0								C	VAL/ALA,VAL/ALA	0,4406		0,0,2203	58	62	60		1277,1496	5.2	1	12	dbSNP_134	60	4,8596	3.7+/-12.6	0,4,4296	yes	missense,missense	DYRK2	NM_003583.3,NM_006482.2	64,64	0,4,6499	TT,TC,CC		0.0465,0.0,0.0308	probably-damaging,probably-damaging	426/529,499/602	68052183	4,13002	2203	4300	6503	SO:0001583	missense	8445			Y09216	CCDS8978.1, CCDS8979.1	12q15	2008-07-03				ENSG00000127334			3093	protein-coding gene	gene with protein product		603496				9748265	Standard	NM_003583		Approved		uc001str.4	Q92630		ENST00000344096.3:c.1496C>T	12.37:g.68052183C>T	ENSP00000342105:p.Ala499Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9V9|Q9BRB5	Missense_Mutation	SNP	ENST00000344096.3	37	CCDS8978.1	.	.	.	.	.	.	.	.	.	.	C	13.84	2.356088	0.41700	0.0	4.65E-4	ENSG00000127334	ENST00000344096;ENST00000393555	T;T	0.68025	-0.3;-0.28	5.17	5.17	0.71159	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.64800	0.2631	N	0.12471	0.22	0.80722	D	1	D	0.64830	0.994	P	0.58013	0.831	T	0.63677	-0.6583	9	.	.	.	.	19.5702	0.95409	0.0:1.0:0.0:0.0	.	499	Q92630	DYRK2_HUMAN	V	499;426	ENSP00000342105:A499V;ENSP00000377186:A426V	.	A	+	2	0	DYRK2	66338450	1.000000	0.71417	1.000000	0.80357	0.792000	0.44763	7.776000	0.85560	2.800000	0.96347	0.455000	0.32223	GCG		0.587	DYRK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000402218.1			T	68052183	C	T	68052183	3	4	664	1	0	0	0	0	1	0	0	0	4858	768	27	1	1506	1	DYRK2	12	68052183	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	9891388	68052183	65799712	643	41953										
CPSF6	11052	broad.mit.edu;ucsc.edu	37	chr12	69656278	69656278	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagagaacgagagaggcaccGggatcgtgaccgagaccgtg	16	10	0	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:69656278G>A	ENST00000435070.2	+	9	1705	c.1595G>A	c.(1594-1596)cGg>cAg	p.R532Q	CPSF6_ENST00000456847.3_Missense_Mutation_p.R459Q|CPSF6_ENST00000551516.1_Missense_Mutation_p.G35R|CPSF6_ENST00000266679.8_Missense_Mutation_p.R569Q	NM_007007.2	NP_008938.2	Q16630	CPSF6_HUMAN	cleavage and polyadenylation specific factor 6, 68kDa	532	Arg-rich.|Sufficient for nuclear targeting.				mRNA polyadenylation (GO:0006378)|mRNA processing (GO:0006397)|protein tetramerization (GO:0051262)	membrane (GO:0016020)|mRNA cleavage factor complex (GO:0005849)|nucleus (GO:0005634)|paraspeckles (GO:0042382)|ribonucleoprotein complex (GO:0030529)	mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			endometrium(1)|large_intestine(7)|lung(8)	16	all_epithelial(5;2.47e-36)|Lung NSC(4;1.1e-32)|all_lung(4;6.26e-31)|Breast(13;1.59e-06)|Esophageal squamous(21;0.187)		Epithelial(6;4.89e-17)|BRCA - Breast invasive adenocarcinoma(5;8.5e-10)|Lung(24;6.04e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|LUSC - Lung squamous cell carcinoma(43;0.171)|Kidney(9;0.241)			GAGAGGCACCGGGATcgtgac	0.493																																																0													197	143	161					12																	69656278		2203	4300	6503	SO:0001583	missense	11052			X67336	CCDS8988.1, CCDS73494.1	12q15	2013-06-18	2002-08-29			ENSG00000111605		"RNA binding motif (RRM) containing"	13871	protein-coding gene	gene with protein product	"cleavage factor Im complex 68 kDa subunit"	604979	"cleavage and polyadenylation specific factor 6, 68kD subunit"			9659921, 17267687	Standard	NM_007007		Approved	CFIM, HPBRII-4, HPBRII-7, CFIM68	uc001sut.4	Q16630		ENST00000435070.2:c.1595G>A	12.37:g.69656278G>A	ENSP00000391774:p.Arg532Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7K9|Q53ES1|Q9BSJ7|Q9BW18	Missense_Mutation	SNP	ENST00000435070.2	37	CCDS8988.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	25.6|25.6	4.650795|4.650795	0.87958|0.87958	.|.	.|.	ENSG00000111605|ENSG00000111605	ENST00000551516|ENST00000435070;ENST00000456847;ENST00000266679	.|T;T;T	.|0.73681	.|-0.77;-0.77;-0.77	5.74|5.74	5.74|5.74	0.90152|0.90152	.|.	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.76300|0.76300	0.3968|0.3968	M|M	0.74467|0.74467	2.265|2.265	0.40144|0.40144	D|D	0.976867|0.976867	.|P;D;D	.|0.56968	.|0.78;0.978;0.962	.|B;B;B	.|0.41412	.|0.022;0.356;0.194	T|T	0.79001|0.79001	-0.1981|-0.1981	5|9	.|.	.|.	.|.	-6.2025|-6.2025	19.9178|19.9178	0.97067|0.97067	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|281;569;532	.|B4DSU9;Q16630-2;Q16630	.|.;.;CPSF6_HUMAN	R|Q	35|532;459;569	.|ENSP00000391774:R532Q;ENSP00000391437:R459Q;ENSP00000266679:R569Q	.|.	G|R	+|+	1|2	0|0	CPSF6|CPSF6	67942545|67942545	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.978000|0.978000	0.69477|0.69477	9.869000|9.869000	0.99810|0.99810	2.880000|2.880000	0.98712|0.98712	0.650000|0.650000	0.86243|0.86243	GGG|CGG		0.493	CPSF6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403609.1	NM_007007		A	69656278	G	A	69656278	3	1	664	1	0	0	0	0	1	0	0	0	3831	1116	39	1	1629	1	CPSF6	12	69656278	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1604095	69656278	64195617	644	41954										
OSBPL8	114882	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	76780412	76780412	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tttcactactttcttcaaacGgaaataaggattttcttcaa	4	8	5	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:76780412G>A	ENST00000261183.3	-	13	1860	c.1381C>T	c.(1381-1383)Cgt>Tgt	p.R461C	OSBPL8_ENST00000393249.2_Missense_Mutation_p.R419C|OSBPL8_ENST00000393250.4_Missense_Mutation_p.R419C	NM_020841.4	NP_065892.1	Q9BZF1	OSBL8_HUMAN	oxysterol binding protein-like 8	461					fat cell differentiation (GO:0045444)|lipid transport (GO:0006869)|negative regulation of cell migration (GO:0030336)|negative regulation of sequestering of triglyceride (GO:0010891)|positive regulation of insulin receptor signaling pathway (GO:0046628)|positive regulation of protein kinase B signaling (GO:0051897)|protein localization to nuclear pore (GO:0090204)	membrane (GO:0016020)|nuclear membrane (GO:0031965)	cholesterol binding (GO:0015485)			breast(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(14)|ovary(2)	28						TTCTTCAAACGGAAATAAGGA	0.274																																																0													60	66	64					12																	76780412		2202	4283	6485	SO:0001583	missense	114882			AF392452	CCDS31862.1, CCDS41814.1	12q14	2013-01-10				ENSG00000091039		"Oxysterol binding proteins", "Pleckstrin homology (PH) domain containing"	16396	protein-coding gene	gene with protein product		606736				1735225, 17991739	Standard	NM_020841		Approved	OSBP10, ORP8, MST120, MSTP120	uc001sye.1	Q9BZF1		ENST00000261183.3:c.1381C>T	12.37:g.76780412G>A	ENSP00000261183:p.Arg461Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1T2|E9PE66|E9PE68|Q52LQ3|Q68D75|Q8WXP8|Q9P277	Missense_Mutation	SNP	ENST00000261183.3	37	CCDS31862.1	.	.	.	.	.	.	.	.	.	.	G	32	5.159090	0.94686	.	.	ENSG00000091039	ENST00000393249;ENST00000261183;ENST00000446075;ENST00000393250;ENST00000438913;ENST00000547540;ENST00000546946	T;T;T;T;T	0.61274	0.12;0.12;0.12;0.12;0.12	5.54	5.54	0.83059	.	0.000000	0.85682	D	0.000000	D	0.85182	0.5638	H	0.97131	3.945	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.89625	0.3851	10	0.87932	D	0	-12.342	19.8585	0.96775	0.0:0.0:1.0:0.0	.	436;461	F8VUA7;Q9BZF1	.;OSBL8_HUMAN	C	419;461;446;419;461;461;436	ENSP00000376939:R419C;ENSP00000261183:R461C;ENSP00000376940:R419C;ENSP00000450238:R461C;ENSP00000447893:R436C	ENSP00000261183:R461C	R	-	1	0	OSBPL8	75304543	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	6.021000	0.70832	2.760000	0.94817	0.655000	0.94253	CGT		0.274	OSBPL8-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000406357.1	NM_020841		A	76780412	G	A	76780412	3	1	664	1	0	0	0	0	1	0	0	0	11290	1116	39	1	1336	1	OSBPL8	12	76780412	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	7124134	76780412	57071483	645	41955										
ZDHHC17	23390	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	77222268	77222268	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtggttcttctggttttggaAtgatatcctttggttataaa	10	4	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:77222268A>G	ENST00000426126.2	+	10	1788	c.1139A>G	c.(1138-1140)aAt>aGt	p.N380S	ZDHHC17_ENST00000334822.5_Missense_Mutation_p.N380S	NM_015336.2	NP_056151.2	Q8IUH5	ZDH17_HUMAN	zinc finger, DHHC-type containing 17	380					lipoprotein transport (GO:0042953)|magnesium ion transport (GO:0015693)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|protein palmitoylation (GO:0018345)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi-associated vesicle membrane (GO:0030660)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)	identical protein binding (GO:0042802)|magnesium ion transmembrane transporter activity (GO:0015095)|palmitoyltransferase activity (GO:0016409)|protein-cysteine S-palmitoyltransferase activity (GO:0019706)|signal transducer activity (GO:0004871)|zinc ion binding (GO:0008270)			breast(2)|endometrium(2)|large_intestine(3)|liver(2)|lung(14)	23						TGGTTTTGGAATGATATCCTT	0.328																																																0													266	251	255					12																	77222268		1827	4076	5903	SO:0001583	missense	23390			AB023163	CCDS44946.1	12q21.2	2013-01-10				ENSG00000186908		"Zinc fingers, DHHC-type", "Ankyrin repeat domain containing"	18412	protein-coding gene	gene with protein product		607799				9700202, 18794299	Standard	NM_015336		Approved	HIP14, HYPH, KIAA0946	uc001syk.1	Q8IUH5	OTTHUMG00000169917	ENST00000426126.2:c.1139A>G	12.37:g.77222268A>G	ENSP00000403397:p.Asn380Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DR39|O75407|Q7Z2I0|Q86W89|Q86YK0|Q9P088|Q9UPZ8	Missense_Mutation	SNP	ENST00000426126.2	37	CCDS44946.1	.	.	.	.	.	.	.	.	.	.	A	13.87	2.367365	0.41902	.	.	ENSG00000186908	ENST00000426126;ENST00000334822	T;T	0.31769	1.48;1.48	5.72	5.72	0.89469	.	6.143080	0.00919	N	0.002577	T	0.21841	0.0526	N	0.03608	-0.345	0.80722	D	1	B	0.22414	0.069	B	0.18263	0.021	T	0.03453	-1.1035	10	0.25751	T	0.34	16.3248	16.0023	0.80306	1.0:0.0:0.0:0.0	.	380	Q8IUH5	ZDH17_HUMAN	S	380	ENSP00000403397:N380S;ENSP00000334868:N380S	ENSP00000334868:N380S	N	+	2	0	ZDHHC17	75746399	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.269000	0.78482	2.177000	0.69029	0.533000	0.62120	AAT		0.328	ZDHHC17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406555.1	NM_015336		G	77222268	A	G	77222268	3	3	664	1	0	0	0	0	1	0	0	0	17619	101	4	3	1177	3	ZDHHC17	12	77222268	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	441856	77222268	56629627	646	41956										
ATP2B1	490	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	89992451	89992451	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tacatcatgatgctggctggCgatggagggttgccgcctta	14	9	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:89992451C>T	ENST00000359142.3	-	20	3645	c.3421G>A	c.(3421-3423)Gcc>Acc	p.A1141T	ATP2B1_ENST00000393164.2_Intron|ATP2B1_ENST00000428670.3_Intron|ATP2B1_ENST00000261173.2_Intron|ATP2B1_ENST00000348959.3_Intron	NM_001001323.1	NP_001001323.1	P20020	AT2B1_HUMAN	ATPase, Ca++ transporting, plasma membrane 1	1141					blood coagulation (GO:0007596)|ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)|transport (GO:0006810)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|calcium-transporting ATPase activity (GO:0005388)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(13)|lung(15)|ovary(2)|prostate(2)|skin(3)|urinary_tract(1)	45						TGCTGGCTGGCGATGGAGGGT	0.478																																																0													200	199	199					12																	89992451		1985	4168	6153	SO:0001583	missense	490			J04027	CCDS9035.1, CCDS41817.1	12q21.33	2010-04-20			ENSG00000070961	ENSG00000070961	3.6.3.8	"ATPases / P-type"	814	protein-coding gene	gene with protein product	"plasma membrane calcium-transporting ATPase 1"	108731				1674727	Standard	NM_001682		Approved	PMCA1	uc001tbh.3	P20020		ENST00000359142.3:c.3421G>A	12.37:g.89992451C>T	ENSP00000352054:p.Ala1141Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q12992|Q12993|Q13819|Q13820|Q13821|Q16504|Q93082	Missense_Mutation	SNP	ENST00000359142.3	37	CCDS41817.1	.	.	.	.	.	.	.	.	.	.	C	6.580	0.475408	0.12521	.	.	ENSG00000070961	ENST00000359142	T	0.78481	-1.18	5.77	5.77	0.91146	.	.	.	.	.	T	0.53334	0.1790	N	0.01729	-0.75	0.80722	D	1	B	0.02656	0.0	B	0.04013	0.001	T	0.58629	-0.7603	9	0.02654	T	1	.	19.9855	0.97347	0.0:1.0:0.0:0.0	.	1141	P20020-2	.	T	1141	ENSP00000352054:A1141T	ENSP00000352054:A1141T	A	-	1	0	ATP2B1	88516582	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.028000	0.64115	2.715000	0.92844	0.655000	0.94253	GCC		0.478	ATP2B1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000406652.1	NM_001682		T	89992451	C	T	89992451	3	4	664	1	0	0	0	0	1	0	0	0	1139	768	27	1	403	1	ATP2B1	12	89992451	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	12770183	89992451	43859444	647	41957										
VEZT	55591	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr12	95694384	95694384	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttaccaccatgcaggaacagActtttggtggtgaggaggaa	13	7	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:95694384A>G	ENST00000436874.1	+	12	2380	c.2275A>G	c.(2275-2277)Act>Gct	p.T759A	VEZT_ENST00000261219.6_Missense_Mutation_p.T711A|VEZT_ENST00000356859.4_3'UTR	NM_017599.3	NP_060069.3	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane protein	759					chordate embryonic development (GO:0043009)|single organismal cell-cell adhesion (GO:0016337)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|stereocilia ankle link complex (GO:0002142)				endometrium(2)|kidney(3)|large_intestine(1)|lung(14)|ovary(2)|upper_aerodigestive_tract(1)	23						GCAGGAACAGACTTTTGGTGG	0.413																																																0													48	45	46					12																	95694384		1875	4107	5982	SO:0001583	missense	55591			AF216644	CCDS44954.1	12q22	2011-02-15			ENSG00000028203	ENSG00000028203			18258	protein-coding gene	gene with protein product						11080149, 16199027, 21156161	Standard	NM_017599		Approved	DKFZP761C241	uc001tdz.2	Q9HBM0	OTTHUMG00000170182	ENST00000436874.1:c.2275A>G	12.37:g.95694384A>G	ENSP00000410083:p.Thr759Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P1Q3|Q9H2F4|Q9H2U5|Q9NT70|Q9NVW0|Q9UF91	Missense_Mutation	SNP	ENST00000436874.1	37	CCDS44954.1	.	.	.	.	.	.	.	.	.	.	A	15.41	2.825883	0.50739	.	.	ENSG00000028203	ENST00000436874;ENST00000261219;ENST00000397792;ENST00000397796	T;T;T	0.31769	1.48;1.48;1.49	5.65	5.65	0.86999	.	0.000000	0.85682	D	0.000000	T	0.54743	0.1877	M	0.66939	2.045	0.54753	D	0.999984	D	0.76494	0.999	D	0.78314	0.991	T	0.57808	-0.7747	10	0.72032	D	0.01	-16.7085	15.8862	0.79251	1.0:0.0:0.0:0.0	.	759	Q9HBM0	VEZA_HUMAN	A	759;711;715;759	ENSP00000410083:T759A;ENSP00000261219:T711A;ENSP00000380894:T715A	ENSP00000261219:T711A	T	+	1	0	VEZT	94218515	1.000000	0.71417	1.000000	0.80357	0.825000	0.46686	7.704000	0.84595	2.150000	0.67090	0.528000	0.53228	ACT		0.413	VEZT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407804.2	NM_017599		G	95694384	A	G	95694384	3	3	664	1	0	0	0	0	1	0	0	0	17168	275	10	3	2321	3	VEZT	12	95694384	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	5701933	95694384	38157511	648	41958										
TMPO	7112	bcgsc.ca	37	chr12	98931296	98931296	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagaagagagaaccactaaaGggcagagcaaagactccagt	12	8	0	5			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:98931296G>T	ENST00000556029.1	+	4	965	c.609G>T	c.(607-609)aaG>aaT	p.K203N	TMPO_ENST00000393053.2_Missense_Mutation_p.K203N|TMPO_ENST00000261210.5_Missense_Mutation_p.K203N|TMPO_ENST00000343315.5_Missense_Mutation_p.K203N	NM_001032283.2	NP_001027454.1	P42167	LAP2B_HUMAN	thymopoietin	203	NAKAP95-binding N.|Nucleoplasmic. {ECO:0000255}.					cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)	DNA binding (GO:0003677)|lamin binding (GO:0005521)			breast(2)|endometrium(1)|large_intestine(4)|lung(5)|ovary(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	16						AACCACTAAAGGGCAGAGCAA	0.383																																																0													94	88	90					12																	98931296		2203	4300	6503	SO:0001583	missense	7112				CCDS9064.1, CCDS31879.1, CCDS31880.1	12q22	2014-09-17			ENSG00000120802	ENSG00000120802			11875	protein-coding gene	gene with protein product	"LEM domain containing 4"	188380				7517549	Standard	NM_003276		Approved	TP, LAP2, LEMD4	uc001tfh.2	P42166	OTTHUMG00000170210	ENST00000556029.1:c.609G>T	12.37:g.98931296G>T	ENSP00000450627:p.Lys203Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A2T926|Q14861	Missense_Mutation	SNP	ENST00000556029.1	37	CCDS31879.1	.	.	.	.	.	.	.	.	.	.	G	20.6	4.024802	0.75390	.	.	ENSG00000120802	ENST00000556029;ENST00000343315;ENST00000393053;ENST00000261210;ENST00000556678	T;T;T;T;T	0.74632	-0.04;0.26;-0.21;-0.86;-0.81	5.56	1.19	0.21007	.	.	.	.	.	T	0.79185	0.4403	L	0.47716	1.5	0.27883	N	0.939617	D;D;D	0.76494	0.999;0.972;0.997	D;P;P	0.63488	0.915;0.724;0.879	T	0.70923	-0.4740	9	0.72032	D	0.01	.	11.5403	0.50663	0.3536:0.0:0.6464:0.0	.	236;203;203	Q59G12;P42167;A2T926	.;LAP2B_HUMAN;.	N	203;203;203;203;110	ENSP00000450627:K203N;ENSP00000340251:K203N;ENSP00000376773:K203N;ENSP00000261210:K203N;ENSP00000451552:K110N	ENSP00000261210:K203N	K	+	3	2	TMPO	97455427	0.999000	0.42202	1.000000	0.80357	0.997000	0.91878	0.399000	0.20916	0.320000	0.23234	0.650000	0.86243	AAG		0.383	TMPO-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407973.2	NM_003276		T	98931296	G	T	98931296	3	4	664	1	0	0	0	0	1	0	0	0	16249	991	35	4	2147	4	TMPO	12	98931296	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3236912	98931296	34920599	649	41959										
GNPTAB	79158	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	102164267	102164267	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggtgacaatgaaaatattccGaacccatggtgcatgcctct	9	10	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:102164267G>A	ENST00000299314.7	-	9	1292	c.1030C>T	c.(1030-1032)Cgg>Tgg	p.R344W	RP11-511H9.3_ENST00000600133.1_RNA|GNPTAB_ENST00000549940.1_Missense_Mutation_p.R344W	NM_024312.4	NP_077288.2	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits	344					carbohydrate phosphorylation (GO:0046835)|cell differentiation (GO:0030154)|lysosome organization (GO:0007040)|protein secretion (GO:0009306)	Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity (GO:0003976)			NS(1)|breast(3)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(8)|lung(8)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	37						AAAATATTCCGAACCCATGGT	0.453																																																0													108	88	94					12																	102164267		2203	4300	6503	SO:0001583	missense	79158			AY687932	CCDS9088.1	12q23.3	2013-01-10				ENSG00000111670		"EF-hand domain containing"	29670	protein-coding gene	gene with protein product		607840		GNPTA		10574462, 16116615	Standard	NM_024312		Approved	KIAA1208, MGC4170	uc001tit.3	Q3T906	OTTHUMG00000170444	ENST00000299314.7:c.1030C>T	12.37:g.102164267G>A	ENSP00000299314:p.Arg344Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRQ9|Q3ZQK2|Q6IPW5|Q86TQ2|Q96N13|Q9ULL2	Missense_Mutation	SNP	ENST00000299314.7	37	CCDS9088.1	.	.	.	.	.	.	.	.	.	.	G	21.6	4.175474	0.78564	.	.	ENSG00000111670	ENST00000299314;ENST00000549940	D;D	0.92965	-3.14;-3.14	5.62	3.61	0.41365	.	0.000000	0.85682	D	0.000000	D	0.97034	0.9031	H	0.96269	3.795	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.998	D	0.97564	1.0100	10	0.87932	D	0	-21.6459	12.2157	0.54404	0.069:0.0:0.8031:0.1279	.	344;344	Q3T906-2;Q3T906	.;GNPTA_HUMAN	W	344	ENSP00000299314:R344W;ENSP00000449150:R344W	ENSP00000299314:R344W	R	-	1	2	GNPTAB	100688398	1.000000	0.71417	1.000000	0.80357	0.953000	0.61014	4.381000	0.59587	1.372000	0.46190	0.655000	0.94253	CGG		0.453	GNPTAB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409182.1			A	102164267	G	A	102164267	3	1	664	1	0	0	0	0	1	0	0	0	6552	1057	37	1	2792	1	GNPTAB	12	102164267	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3232971	102164267	31687628	650	41960										
C12orf48	55010	broad.mit.edu	37	chr12	102590010	102590010	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tagcaaaaagtaataaatgtActgccaaggacaagttgatt	8	5	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:102590010A>G	ENST00000358383.5	+	11	1726	c.1681A>G	c.(1681-1683)Act>Gct	p.T561A	PARPBP_ENST00000541394.1_Missense_Mutation_p.T638A|PARPBP_ENST00000535811.1_3'UTR|PARPBP_ENST00000543784.1_3'UTR|PARPBP_ENST00000327680.2_Missense_Mutation_p.T480A|PARPBP_ENST00000378128.3_3'UTR|PARPBP_ENST00000392911.2_Missense_Mutation_p.T480A			Q9NWS1	PARI_HUMAN	PARP1 binding protein	561					DNA repair (GO:0006281)|negative regulation of double-strand break repair via homologous recombination (GO:2000042)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)			endometrium(1)|lung(8)|urinary_tract(2)	11						TAATAAATGTACTGCCAAGGA	0.318																																																0													67	69	69					12																	102590010		2203	4299	6502	SO:0001583	missense	55010			AK000648	CCDS9090.1, CCDS9090.2	12q23.2	2013-03-14	2012-01-24	2012-01-24		ENSG00000185480			26074	protein-coding gene	gene with protein product	"PARP-1 binding protein"	613687	"chromosome 12 open reading frame 48"	C12orf48		20931645	Standard	NM_017915		Approved	FLJ20641, PARI	uc001tjf.3	Q9NWS1		ENST00000358383.5:c.1681A>G	12.37:g.102590010A>G	ENSP00000351153:p.Thr561Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4E0Y0|Q05C00|Q499L8|Q4FZA0|Q4KMW7|Q6NSC6|Q6PJA1|Q86W36	Missense_Mutation	SNP	ENST00000358383.5	37	CCDS9090.2	.	.	.	.	.	.	.	.	.	.	A	6.222	0.409187	0.11812	.	.	ENSG00000185480	ENST00000327680;ENST00000541394;ENST00000358383;ENST00000392911	T;T;T;T	0.40756	1.02;1.02;1.02;1.02	4.82	-0.464	0.12160	.	0.814911	0.11696	N	0.538409	T	0.23289	0.0563	L	0.43923	1.385	0.09310	N	1	B;B;B	0.17667	0.023;0.002;0.001	B;B;B	0.17433	0.018;0.006;0.004	T	0.29731	-1.0002	10	0.05833	T	0.94	-1.1585	0.7572	0.01000	0.3411:0.1255:0.293:0.2404	.	638;276;561	B4DZ31;Q9NWS1-5;Q9NWS1	.;.;PR1BP_HUMAN	A	480;638;561;480	ENSP00000332915:T480A;ENSP00000440850:T638A;ENSP00000351153:T561A;ENSP00000376643:T480A	ENSP00000332915:T480A	T	+	1	0	C12orf48	101114140	0.000000	0.05858	0.002000	0.10522	0.049000	0.14656	-0.250000	0.08830	-0.013000	0.14199	0.533000	0.62120	ACT		0.318	PARPBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397030.2	NM_017915		G	102590010	A	G	102590010	3	3	664	1	0	0	0	0	1	0	0	0	1694	391	14	3	1472	3	C12orf48	12	102590010	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	425743	102590010	31261885	651	41961										
GLT8D2	83468	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	104391269	104391269	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccaaatagatgactttctcGtgttggtggataagtagagg	12	5	1	3	rs142096211	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:104391269G>A	ENST00000360814.4	-	7	852	c.447C>T	c.(445-447)caC>caT	p.H149H	GLT8D2_ENST00000548660.1_Silent_p.H149H|GLT8D2_ENST00000546436.1_Silent_p.H149H	NM_031302.3	NP_112592.1	Q9H1C3	GL8D2_HUMAN	glycosyltransferase 8 domain containing 2	149						integral component of membrane (GO:0016021)	transferase activity, transferring glycosyl groups (GO:0016757)			kidney(3)|large_intestine(5)|lung(5)|ovary(1)|prostate(1)|skin(1)	16						TGACTTTCTCGTGTTGGTGGA	0.403																																																0								G		6,4400	11.4+/-27.6	0,6,2197	174	173	173		447	-9.5	0.7	12	dbSNP_134	173	8,8592	6.4+/-24.3	0,8,4292	no	coding-synonymous	GLT8D2	NM_031302.3		0,14,6489	AA,AG,GG		0.093,0.1362,0.1076		149/350	104391269	14,12992	2203	4300	6503	SO:0001819	synonymous_variant	83468			BC022343	CCDS9096.1	12q23.3	2013-02-22			ENSG00000120820	ENSG00000120820		"Glycosyltransferase family 8 domain containing"	24890	protein-coding gene	gene with protein product							Standard	NM_031302		Approved	FLJ31494	uc001tkh.1	Q9H1C3	OTTHUMG00000170120	ENST00000360814.4:c.447C>T	12.37:g.104391269G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q96KA2	Silent	SNP	ENST00000360814.4	37	CCDS9096.1																																																																																				0.403	GLT8D2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407371.1	NM_031302		A	104391269	G	A	104391269	2	1	664	1	0	0	0	0	0	0	0	1	6477	1136	40	1		1	GLT8D2	12	104391269	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1801259	104391269	29460626	652	41962										
ALDH1L2	160428	mdanderson.org	37	chr12	105464485	105464485	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acatttagctctgcacccacGgatctgtaggcttctgccac	8	14	3	0	rs74449999	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:105464485G>A	ENST00000258494.9	-	3	431	c.291C>T	c.(289-291)tcC>tcT	p.S97S	RP11-61E11.1_ENST00000547750.1_RNA|ALDH1L2_ENST00000424857.2_Silent_p.S97S	NM_001034173.3	NP_001029345.2	Q3SY69	AL1L2_HUMAN	aldehyde dehydrogenase 1 family, member L2	97	GART.				10-formyltetrahydrofolate catabolic process (GO:0009258)|biosynthetic process (GO:0009058)|one-carbon metabolic process (GO:0006730)	extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	formyltetrahydrofolate dehydrogenase activity (GO:0016155)|hydroxymethyl-, formyl- and related transferase activity (GO:0016742)|methyltransferase activity (GO:0008168)|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor (GO:0016620)			breast(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(13)|prostate(2)|skin(3)|stomach(2)	35						CTGCACCCACGGATCTGTAGG	0.483													G|||	59	0.0117812	0.003	0.0144	5008	,	,		17150	0.001		0.0408	False		,,,				2504	0.0031															0								G		39,4367	44.6+/-78.6	0,39,2164	184	148	160		291	-10.5	0.2	12	dbSNP_132	160	322,8278	114.0+/-174.0	8,306,3986	no	coding-synonymous	ALDH1L2	NM_001034173.3		8,345,6150	AA,AG,GG		3.7442,0.8852,2.7756		97/924	105464485	361,12645	2203	4300	6503	SO:0001819	synonymous_variant	160428			AK095827	CCDS31891.1	12q23.3	2014-09-11			ENSG00000136010	ENSG00000136010	1.5.1.6	"Aldehyde dehydrogenases"	26777	protein-coding gene	gene with protein product	"mitochondrial 10-formyltetrahydrofolate dehydrogenase"	613584				20498374	Standard	NM_001034173		Approved	FLJ38508, mtFDH	uc001tlc.3	Q3SY69	OTTHUMG00000169823	ENST00000258494.9:c.291C>T	12.37:g.105464485G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q3SY68|Q68D62|Q6AI55|Q8N922	Silent	SNP	ENST00000258494.9	37	CCDS31891.1																																																																																				0.483	ALDH1L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406098.1	XM_090294		A	105464485	G	A	105464485	2	1	664	1	0	0	0	0	0	0	0	1	495	1103	39	1		1	ALDH1L2	12	105464485	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1073216	105464485	28387410	653	41963										
RFX4	5992	broad.mit.edu	37	chr12	107105260	107105260	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggttctcccaaattctgagaCggcaaacatcactaaatcat	6	11	4	1	rs76703390	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:107105260C>T	ENST00000392842.1	+	10	1378	c.964C>T	c.(964-966)Cgg>Tgg	p.R322W	RFX4_ENST00000357881.4_Missense_Mutation_p.R331W|RP11-144F15.1_ENST00000551505.1_Intron|RFX4_ENST00000229387.5_Missense_Mutation_p.R228W	NM_213594.2	NP_998759.1	Q33E94	RFX4_HUMAN	regulatory factor X, 4 (influences HLA class II expression)	322	Necessary for dimerization.				cerebellar cortex morphogenesis (GO:0021696)|cilium assembly (GO:0042384)|dorsal spinal cord development (GO:0021516)|midbrain development (GO:0030901)|negative regulation of smoothened signaling pathway involved in ventral spinal cord patterning (GO:0021914)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of protein processing (GO:0070613)|telencephalon development (GO:0021537)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			NS(2)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(6)|lung(20)|pancreas(1)|upper_aerodigestive_tract(1)	35						AATTCTGAGACGGCAAACATC	0.408													C|||	3	0.000599042	0.0008	0.0	5008	,	,		19023	0.0		0.001	False		,,,				2504	0.001															0								C	TRP/ARG,TRP/ARG,TRP/ARG	2,4404	4.2+/-10.8	0,2,2201	151	132	139		991,682,964	4.6	1	12	dbSNP_132	139	4,8596	3.7+/-12.6	0,4,4296	yes	missense,missense,missense	RFX4	NM_001206691.1,NM_032491.5,NM_213594.2	101,101,101	0,6,6497	TT,TC,CC		0.0465,0.0454,0.0461	probably-damaging,probably-damaging,probably-damaging	331/745,228/642,322/736	107105260	6,13000	2203	4300	6503	SO:0001583	missense	5992			AB044245	CCDS9106.1, CCDS9108.1, CCDS55880.1	12q24	2008-08-05			ENSG00000111783	ENSG00000111783			9985	protein-coding gene	gene with protein product		603958				8600444, 11682486	Standard	NM_213594		Approved		uc001tlt.3	Q33E94	OTTHUMG00000169173	ENST00000392842.1:c.964C>T	12.37:g.107105260C>T	ENSP00000376585:p.Arg322Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5Y0|B2RDW4|Q33DW6|Q33DW7|Q33E95|Q6YM53|Q8MHQ1|Q8NC78|Q8NDF9|Q8SNA1|Q96S80|Q9BXI0	Missense_Mutation	SNP	ENST00000392842.1	37	CCDS9106.1	2	9.157509157509158E-4	0	0.0	0	0.0	0	0.0	2	0.002638522427440633	C	20.9	4.064115	0.76187	4.54E-4	4.65E-4	ENSG00000111783	ENST00000392842;ENST00000357881;ENST00000266774;ENST00000229387	T;T;T	0.50813	0.73;0.73;0.73	5.46	4.55	0.56014	.	0.000000	0.85682	D	0.000000	T	0.70360	0.3215	M	0.85859	2.78	0.58432	D	0.999999	D;D;D;D	0.89917	0.999;1.0;1.0;1.0	D;D;D;D	0.79108	0.917;0.992;0.992;0.973	T	0.75599	-0.3262	10	0.87932	D	0	-18.033	12.8063	0.57616	0.4362:0.5638:0.0:0.0	.	228;331;331;322	B2RDW4;Q33E94-2;Q33E94-4;Q33E94	.;.;.;RFX4_HUMAN	W	322;331;331;228	ENSP00000376585:R322W;ENSP00000350552:R331W;ENSP00000229387:R228W	ENSP00000229387:R228W	R	+	1	2	RFX4	105629390	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	2.116000	0.41930	1.254000	0.44035	0.655000	0.94253	CGG		0.408	RFX4-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402707.1	NM_032491		T	107105260	C	T	107105260	3	4	664	1	0	0	0	0	1	0	0	0	13278	527	19	1	1175	1	RFX4	12	107105260	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1640775	107105260	26746635	654	41964										
SVOP	55530	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	109316565	109316565	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgcctctacagccttcttccGactggagactggggttggga	13	11	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:109316565G>A	ENST00000299134.5	-	10	860	c.861C>T	c.(859-861)gtC>gtT	p.V287V		NM_018711.2	NP_061181.1	Q8N4V2	SVOP_HUMAN	SV2 related protein homolog (rat)	0						cell junction (GO:0030054)|integral component of membrane (GO:0016021)|synaptic vesicle (GO:0008021)	ion transmembrane transporter activity (GO:0015075)			breast(2)|lung(4)	6						GCCTTCTTCCGACTGGAGACT	0.542																																																0													60	57	58					12																	109316565		1959	4154	6113	SO:0001819	synonymous_variant	55530			BC033587	CCDS73520.1	12q24.11	2011-07-12				ENSG00000166111			25417	protein-coding gene	gene with protein product		611699					Standard	NM_018711		Approved	DKFZp761H039	uc010sxh.1	Q8N4V2		ENST00000299134.5:c.861C>T	12.37:g.109316565G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NPW5	Missense_Mutation	SNP	ENST00000299134.5	37																																																																																					0.542	SVOP-001	KNOWN	mRNA_start_NF|cds_start_NF|basic	protein_coding	protein_coding	OTTHUMT00000403982.1	NM_018711		A	109316565	G	A	109316565	2	1	664	1	0	0	0	0	0	0	0	1	15435	1057	37	1		1	SVOP	12	109316565	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2211305	109316565	24535330	655	41965										
MYO1H	283446	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	109882246	109882246	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccccaccccagggggatgccGttttgcagtgtggacacgtg	14	13	0	0	rs369009537		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:109882246G>A	ENST00000431443.2	+	29	2887	c.2887G>A	c.(2887-2889)Gtt>Att	p.V963I	RP11-256L11.3_ENST00000539987.1_RNA|MYO1H_ENST00000310903.5_Missense_Mutation_p.V953I	NM_001101421.3	NP_001094891.3	Q8N1T3	MYO1H_HUMAN	myosin IH	963	Myosin tail. {ECO:0000255}.					myosin complex (GO:0016459)	ATP binding (GO:0005524)|motor activity (GO:0003774)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(9)|lung(17)|prostate(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	47						GGGGGATGCCGTTTTGCAGTG	0.453																																																0													124	117	119					12																	109882246		1960	4161	6121	SO:0001583	missense	283446				CCDS53826.1	12q24.11	2011-09-27			ENSG00000174527	ENSG00000174527		"Myosins / Myosin superfamily : Class I"	13879	protein-coding gene	gene with protein product		614636					Standard	NM_001101421		Approved	FLJ37587	uc010sxn.1	Q8N1T3	OTTHUMG00000169252	ENST00000431443.2:c.2887G>A	12.37:g.109882246G>A	ENSP00000444076:p.Val963Ile	Somatic		WXS	Illumina HiSeq	Phase_I	F5H3C6	Missense_Mutation	SNP	ENST00000431443.2	37		.	.	.	.	.	.	.	.	.	.	G	0.010	-1.781801	0.00634	.	.	ENSG00000174527	ENST00000310903;ENST00000431443;ENST00000542268	T;T	0.39229	1.09;1.09	5.6	-6.93	0.01638	Myosin tail 2 (1);	.	.	.	.	T	0.14700	0.0355	N	0.03016	-0.435	0.09310	N	1	B;B	0.13145	0.007;0.006	B;B	0.13407	0.009;0.003	T	0.43032	-0.9416	9	0.02654	T	1	.	13.9631	0.64193	0.5982:0.0:0.4018:0.0	.	963;953	Q8N1T3;F5H3C6	MYO1H_HUMAN;.	I	953;963;144	ENSP00000439182:V953I;ENSP00000444076:V963I	ENSP00000439182:V953I	V	+	1	0	MYO1H	108366629	0.290000	0.24343	0.003000	0.11579	0.023000	0.10783	0.355000	0.20163	-1.700000	0.01414	-1.642000	0.00770	GTT		0.453	MYO1H-201	KNOWN	basic	protein_coding	protein_coding		NM_173597		A	109882246	G	A	109882246	3	1	664	1	0	0	0	0	1	0	0	0	10082	1145	40	1	2971	1	MYO1H	12	109882246	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	565681	109882246	23969649	656	41966										
GIT2	9815	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	110390995	110390995	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atcgttgtcttgactctcaaCgctgtgctggttattgatgg	11	8	2	2	rs560157222	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:110390995C>T	ENST00000355312.3	-	13	1143	c.1144G>A	c.(1144-1146)Gtt>Att	p.V382I	TCHP_ENST00000550780.1_Intron|GIT2_ENST00000320063.9_Missense_Mutation_p.V382I|GIT2_ENST00000553118.1_Missense_Mutation_p.V382I|GIT2_ENST00000338373.5_Missense_Mutation_p.V382I|GIT2_ENST00000547815.1_Missense_Mutation_p.V382I|GIT2_ENST00000356259.4_Missense_Mutation_p.V382I|GIT2_ENST00000361006.5_Missense_Mutation_p.V382I|GIT2_ENST00000354574.4_Missense_Mutation_p.V384I|GIT2_ENST00000343646.5_Intron|GIT2_ENST00000551209.1_Missense_Mutation_p.V381I|GIT2_ENST00000457474.2_Missense_Mutation_p.V384I|GIT2_ENST00000360185.4_Missense_Mutation_p.V382I	NM_057169.3	NP_476510.1	Q14161	GIT2_HUMAN	G protein-coupled receptor kinase interacting ArfGAP 2	382					behavioral response to pain (GO:0048266)|regulation of ARF GTPase activity (GO:0032312)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)	focal adhesion (GO:0005925)|nucleoplasm (GO:0005654)	ARF GTPase activator activity (GO:0008060)|zinc ion binding (GO:0008270)			NS(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(8)|lung(8)|skin(4)	27						TGACTCTCAACGCTGTGCTGG	0.428													C|||	5	0.000998403	0.0	0.0	5008	,	,		22911	0.0		0.0	False		,,,				2504	0.0051															0													253	212	226					12																	110390995		2203	4300	6503	SO:0001583	missense	9815			AF124491	CCDS9138.1, CCDS9139.1, CCDS44968.1, CCDS44969.1, CCDS55884.1	12q24.1	2013-01-10	2008-09-05			ENSG00000139436		"ADP-ribosylation factor GTPase activating proteins", "Ankyrin repeat domain containing"	4273	protein-coding gene	gene with protein product		608564	"G protein-coupled receptor kinase interactor 2"			9826657, 10896954	Standard	NM_139201		Approved	KIAA0148	uc001tps.2	Q14161	OTTHUMG00000169313	ENST00000355312.3:c.1144G>A	12.37:g.110390995C>T	ENSP00000347464:p.Val382Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q86U59|Q96CI2|Q9BV91|Q9Y5V2	Missense_Mutation	SNP	ENST00000355312.3	37	CCDS9138.1	.	.	.	.	.	.	.	.	.	.	C	11.70	1.718157	0.30503	.	.	ENSG00000139436	ENST00000355312;ENST00000360185;ENST00000354574;ENST00000338373;ENST00000356259;ENST00000457474;ENST00000361006;ENST00000553118;ENST00000551209;ENST00000542273;ENST00000547815;ENST00000320063	T;T;T;T;T;T;T;T;T;T;T	0.71222	-0.54;-0.49;-0.47;-0.44;-0.46;-0.44;-0.55;-0.54;-0.52;-0.49;-0.5	5.22	-4.34	0.03666	.	0.604715	0.18446	N	0.140997	T	0.45196	0.1330	N	0.08118	0	0.09310	N	1	B;B;B;B;B;B;B	0.11235	0.003;0.004;0.0;0.0;0.001;0.0;0.0	B;B;B;B;B;B;B	0.12156	0.007;0.001;0.0;0.0;0.002;0.0;0.001	T	0.28267	-1.0049	10	0.36615	T	0.2	.	12.9502	0.58397	0.0:0.2543:0.0:0.7457	.	382;382;384;384;382;382;382	B4E2E7;Q6FI58;Q14161-10;F8WAK2;Q14161-11;Q14161;Q14161-5	.;.;.;.;.;GIT2_HUMAN;.	I	382;382;384;382;382;384;382;382;381;320;382;382	ENSP00000347464:V382I;ENSP00000353312:V382I;ENSP00000346585:V384I;ENSP00000340342:V382I;ENSP00000348595:V382I;ENSP00000391813:V384I;ENSP00000354282:V382I;ENSP00000447465:V382I;ENSP00000448832:V381I;ENSP00000450348:V382I;ENSP00000323833:V382I	ENSP00000323833:V382I	V	-	1	0	GIT2	108875378	0.001000	0.12720	0.006000	0.13384	0.714000	0.41099	0.052000	0.14163	-0.534000	0.06315	-0.752000	0.03492	GTT		0.428	GIT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403407.1	NM_057169		T	110390995	C	T	110390995	3	4	664	1	0	0	0	0	1	0	0	0	6404	536	19	1	1195	1	GIT2	12	110390995	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	508749	110390995	23460900	657	41967										
OAS1	4938	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	113346548	113346548	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctccacgctggggcaaccccCgtgcgctcagcttcgtactg	11	17	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:113346548C>T	ENST00000202917.5	+	2	651	c.388C>T	c.(388-390)Cgt>Tgt	p.R130C	OAS1_ENST00000553185.1_Missense_Mutation_p.R130C|OAS1_ENST00000445409.2_Missense_Mutation_p.R130C|OAS1_ENST00000452357.2_Missense_Mutation_p.R130C|OAS1_ENST00000551241.1_Missense_Mutation_p.R130C|RP1-71H24.1_ENST00000552784.1_RNA	NM_016816.2	NP_058132.2	P00973	OAS1_HUMAN	2'-5'-oligoadenylate synthetase 1, 40/46kDa	130					cellular response to interferon-alpha (GO:0035457)|cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|glucose homeostasis (GO:0042593)|glucose metabolic process (GO:0006006)|interferon-gamma-mediated signaling pathway (GO:0060333)|negative regulation of viral genome replication (GO:0045071)|protein oligomerization (GO:0051259)|purine nucleotide biosynthetic process (GO:0006164)|regulation of ribonuclease activity (GO:0060700)|response to virus (GO:0009615)|type I interferon signaling pathway (GO:0060337)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	2'-5'-oligoadenylate synthetase activity (GO:0001730)|ATP binding (GO:0005524)|double-stranded RNA binding (GO:0003725)|metal ion binding (GO:0046872)|zinc ion binding (GO:0008270)			cervix(1)|endometrium(3)|kidney(1)|large_intestine(2)|liver(2)|lung(4)|ovary(2)|skin(1)	16						GGGCAACCCCCGTGCGCTCAG	0.577																																																0													81	77	78					12																	113346548		2203	4300	6503	SO:0001583	missense	4938			X04371	CCDS31905.1, CCDS41838.1, CCDS44980.1	12q24.2	2014-05-21	2011-07-21				2.7.7.-		8086	protein-coding gene	gene with protein product		164350	"2',5'-oligoadenylate synthetase 1 (40-46 kD)"	OIAS		9344649, 9325053	Standard	XM_006719434		Approved	OIASI, IFI-4	uc001tud.3	P00973		ENST00000202917.5:c.388C>T	12.37:g.113346548C>T	ENSP00000202917:p.Arg130Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4N8|P04820|P29080|P29081|P78485|P78486|Q16700|Q16701|Q1PG42|Q3ZM01|Q53GC5|Q53YA4|Q6A1Z3|Q6IPC6|Q6P7N9|Q96J61	Missense_Mutation	SNP	ENST00000202917.5	37	CCDS41838.1	.	.	.	.	.	.	.	.	.	.	C	15.75	2.926322	0.52759	.	.	ENSG00000089127	ENST00000202917;ENST00000445409;ENST00000452357;ENST00000549820;ENST00000551241;ENST00000377508;ENST00000553185;ENST00000550689	T;T;T;T;T;T	0.09723	2.95;2.95;2.95;2.95;2.95;2.95	4.31	2.4	0.29515	.	0.563411	0.15923	N	0.238042	T	0.34919	0.0914	M	0.91510	3.215	0.22581	N	0.998969	D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D	0.83275	0.995;0.993;0.991;0.996;0.993;0.988	T	0.13072	-1.0523	10	0.87932	D	0	-25.987	5.0945	0.14725	0.2056:0.6858:0.0:0.1087	.	130;130;130;130;130;130	B4DWE7;E7EMI9;F8VXY3;P00973;P00973-3;P00973-2	.;.;.;OAS1_HUMAN;.;.	C	130;130;130;130;130;130;130;126	ENSP00000202917:R130C;ENSP00000388001:R130C;ENSP00000415721:R130C;ENSP00000448790:R130C;ENSP00000448001:R130C;ENSP00000448348:R126C	ENSP00000202917:R130C	R	+	1	0	OAS1	111830931	0.151000	0.22747	0.204000	0.23530	0.009000	0.06853	0.901000	0.28445	0.541000	0.28827	0.455000	0.32223	CGT		0.577	OAS1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000405896.2			T	113346548	C	T	113346548	3	4	664	1	0	0	0	0	1	0	0	0	10806	652	23	1	394	1	OAS1	12	113346548	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2955553	113346548	20505347	658	41968										
RASAL1	8437	ucsc.edu	37	chr12	113554915	113554915	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tctgggaaagggcaggaggcGgaaccagcctttaggtggct	17	8	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:113554915G>A	ENST00000261729.5	-	9	1009	c.694C>T	c.(694-696)Cgc>Tgc	p.R232C	RASAL1_ENST00000418411.2_5'UTR|RASAL1_ENST00000548055.1_Missense_Mutation_p.R232C|RASAL1_ENST00000446861.3_Missense_Mutation_p.R232C|RASAL1_ENST00000546530.1_Missense_Mutation_p.R232C			O95294	RASL1_HUMAN	RAS protein activator like 1 (GAP1 like)	232					intracellular signal transduction (GO:0035556)|negative regulation of Ras protein signal transduction (GO:0046580)|positive regulation of Ras GTPase activity (GO:0032320)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)	metal ion binding (GO:0046872)|phospholipid binding (GO:0005543)|Ras GTPase activator activity (GO:0005099)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(19)|ovary(3)|prostate(2)|skin(2)	43						GGCAGGAGGCGGAACCAGCCT	0.627																																																0													53	50	51					12																	113554915		2203	4300	6503	SO:0001583	missense	8437			AF086713	CCDS9165.1, CCDS55888.1, CCDS55889.1, CCDS73529.1	12q23-q24	2013-01-10			ENSG00000111344	ENSG00000111344		"Pleckstrin homology (PH) domain containing"	9873	protein-coding gene	gene with protein product		604118				9751798	Standard	NM_001193520		Approved	RASAL	uc001tul.3	O95294	OTTHUMG00000169705	ENST00000261729.5:c.694C>T	12.37:g.113554915G>A	ENSP00000261729:p.Arg232Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKM4|C9JFK5|F8VQX1|Q52M03|Q59H24|Q96CC7	Missense_Mutation	SNP	ENST00000261729.5	37	CCDS9165.1	.	.	.	.	.	.	.	.	.	.	G	27.5	4.839684	0.91117	.	.	ENSG00000111344	ENST00000546530;ENST00000261729;ENST00000446861;ENST00000548055	T;T;T;T	0.80566	-1.39;-1.39;-1.39;-1.39	5.58	5.58	0.84498	C2 calcium/lipid-binding domain, CaLB (1);	0.055459	0.64402	D	0.000001	D	0.87951	0.6307	L	0.56769	1.78	0.54753	D	0.999989	D;D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D;D	0.79784	0.977;0.977;0.99;0.977;0.969;0.993;0.99	D	0.86489	0.1796	10	0.39692	T	0.17	.	18.3457	0.90321	0.0:0.0:1.0:0.0	.	232;232;232;244;232;232;232	B7ZKM4;B4DG06;F8VRH9;Q59H24;F8VQX1;O95294;O95294-2	.;.;.;.;.;RASL1_HUMAN;.	C	232	ENSP00000450244:R232C;ENSP00000261729:R232C;ENSP00000395920:R232C;ENSP00000448510:R232C	ENSP00000261729:R232C	R	-	1	0	RASAL1	112039298	1.000000	0.71417	1.000000	0.80357	0.973000	0.67179	3.605000	0.54088	2.611000	0.88343	0.655000	0.94253	CGC		0.627	RASAL1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000405522.2	NM_004658		A	113554915	G	A	113554915	3	1	664	1	0	0	0	0	1	0	0	0	13076	1116	39	1	1776	1	RASAL1	12	113554915	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	208367	113554915	20296980	659	41969										
PLBD2	196463	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	113825669	113825669	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccaatggctcctaccccttCcaggccctgcgtcagcgctc	9	19	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:113825669C>A	ENST00000280800.3	+	11	1591	c.1560C>A	c.(1558-1560)ttC>ttA	p.F520L	PLBD2_ENST00000545182.2_Missense_Mutation_p.F488L	NM_173542.3	NP_775813.2	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2	520					lipid catabolic process (GO:0016042)	extracellular vesicular exosome (GO:0070062)|lysosome (GO:0005764)	hydrolase activity (GO:0016787)			breast(1)|endometrium(1)|large_intestine(3)|lung(7)|prostate(1)	13						CCTACCCCTTCCAGGCCCTGC	0.632																																																0													146	145	145					12																	113825669		2203	4300	6503	SO:0001583	missense	196463			BC030618	CCDS9168.1, CCDS53834.1	12q24.13	2013-10-11				ENSG00000151176			27283	protein-coding gene	gene with protein product	"PLB homolog 2 (Dictyostelium)", "mannose-6-phosphate protein associated protein p76"					17105447, 15193148, 19019078	Standard	NM_001159727		Approved	p76	uc001tve.2	Q8NHP8	OTTHUMG00000169567	ENST00000280800.3:c.1560C>A	12.37:g.113825669C>A	ENSP00000280800:p.Phe520Leu	Somatic		WXS	Illumina HiSeq	Phase_I	F5H5E2	Missense_Mutation	SNP	ENST00000280800.3	37	CCDS9168.1	.	.	.	.	.	.	.	.	.	.	C	12.87	2.067603	0.36470	.	.	ENSG00000151176	ENST00000545182;ENST00000280800	T;T	0.17370	2.28;2.28	5.07	3.18	0.36537	.	0.000000	0.85682	D	0.000000	T	0.18676	0.0448	L	0.56340	1.77	0.29869	N	0.826998	P;P	0.37525	0.598;0.528	B;B	0.41374	0.355;0.274	T	0.06285	-1.0835	10	0.51188	T	0.08	-34.3898	8.5231	0.33289	0.0:0.6392:0.0:0.3608	.	488;520	F5H5E2;Q8NHP8	.;PLBL2_HUMAN	L	488;520	ENSP00000443463:F488L;ENSP00000280800:F520L	ENSP00000280800:F520L	F	+	3	2	PLBD2	112310052	1.000000	0.71417	0.972000	0.41901	0.529000	0.34654	1.313000	0.33585	1.251000	0.43983	0.555000	0.69702	TTC		0.632	PLBD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404835.1	NM_173542		A	113825669	C	A	113825669	3	1	664	1	0	0	0	0	1	0	0	0	12033	854	30	4	1602	4	PLBD2	12	113825669	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	270754	113825669	20026226	660	41970										
TAOK3	51347	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr12	118588925	118588925	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aataggttctttattctctcGctgcgttccttctgaagggc	9	10	3	1	rs539247810	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:118588925G>A	ENST00000392533.3	-	21	3064	c.2574C>T	c.(2572-2574)agC>agT	p.S858S	TAOK3_ENST00000537952.1_Silent_p.S398S|TAOK3_ENST00000543709.1_5'UTR|TAOK3_ENST00000419821.2_Silent_p.S858S|TAOK3_ENST00000536979.1_Silent_p.S53S	NM_016281.3	NP_057365.3	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	858					cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|MAPK cascade (GO:0000165)|mitotic G2 DNA damage checkpoint (GO:0007095)|negative regulation of JNK cascade (GO:0046329)|negative regulation of protein kinase activity (GO:0006469)|positive regulation of JNK cascade (GO:0046330)|positive regulation of JUN kinase activity (GO:0043507)|positive regulation of stress-activated MAPK cascade (GO:0032874)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|protein kinase inhibitor activity (GO:0004860)|protein serine/threonine kinase activity (GO:0004674)|transferase activity (GO:0016740)			central_nervous_system(1)|lung(5)|skin(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TTATTCTCTCGCTGCGTTCCT	0.458													G|||	8	0.00159744	0.0	0.0	5008	,	,		16400	0.0		0.0	False		,,,				2504	0.0082															0													125	126	125					12																	118588925		2203	4300	6503	SO:0001819	synonymous_variant	51347			AF135158	CCDS9188.1	12q	2007-08-03				ENSG00000135090			18133	protein-coding gene	gene with protein product						10559204, 10924369	Standard	NM_016281		Approved	JIK, DPK, MAP3K18	uc001twy.4	Q9H2K8		ENST00000392533.3:c.2574C>T	12.37:g.118588925G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q658N1|Q8IUM4|Q9HC79|Q9NZM9|Q9UHG7	Silent	SNP	ENST00000392533.3	37	CCDS9188.1																																																																																				0.458	TAOK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401456.2	NM_016281		A	118588925	G	A	118588925	2	1	664	1	0	0	0	0	0	0	0	1	15561	1078	38	1		1	TAOK3	12	118588925	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4763256	118588925	15262970	661	41971										
CCDC60	160777	broad.mit.edu;hgsc.bcm.edu	37	chr12	119968788	119968788	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaaacctggacttgcggattCgaccccatgtcctcctgaag	9	13	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:119968788C>T	ENST00000327554.2	+	13	1936	c.1471C>T	c.(1471-1473)Cga>Tga	p.R491*	RP11-768F21.1_ENST00000509470.2_lincRNA	NM_178499.3	NP_848594.2	Q8IWA6	CCD60_HUMAN	coiled-coil domain containing 60	491										endometrium(4)|kidney(3)|large_intestine(8)|lung(15)|ovary(2)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	40	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)		CTTGCGGATTCGACCCCATGT	0.522																																																0													126	108	114					12																	119968788		2203	4300	6503	SO:0001587	stop_gained	160777			BC040553	CCDS9190.1	12q24.23	2006-02-03			ENSG00000183273	ENSG00000183273			28610	protein-coding gene	gene with protein product						12477932	Standard	NM_178499		Approved	MGC39827	uc001txe.3	Q8IWA6	OTTHUMG00000168943	ENST00000327554.2:c.1471C>T	12.37:g.119968788C>T	ENSP00000333374:p.Arg491*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000327554.2	37	CCDS9190.1	.	.	.	.	.	.	.	.	.	.	C	42	9.525726	0.99195	.	.	ENSG00000183273	ENST00000327554	.	.	.	5.55	3.67	0.42095	.	0.238775	0.28760	N	0.014230	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-27.0254	12.2972	0.54854	0.3343:0.6657:0.0:0.0	.	.	.	.	X	491	.	.	R	+	1	2	CCDC60	118453171	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	1.361000	0.34136	0.624000	0.30286	0.655000	0.94253	CGA		0.522	CCDC60-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401680.1	NM_178499		T	119968788	C	T	119968788	4	4	664	1	0	0	0	0	0	1	0	0	2833	876	31	1	1521	1	CCDC60	12	119968788	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1379863	119968788	13883107	662	41972										
CIT	11113	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	120150093	120150093	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gggagctagcaagtagagggTtctcccgggccagcaggtgg	18	9	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:120150093T>C	ENST00000261833.7	-	36	4670	c.4618A>G	c.(4618-4620)Acc>Gcc	p.T1540A	MIR1178_ENST00000408396.1_RNA|CIT_ENST00000537607.1_5'UTR|CIT_ENST00000392521.2_Missense_Mutation_p.T1582A	NM_007174.2	NP_009105.1	O14578	CTRO_HUMAN	citron rho-interacting serine/threonine kinase	1540	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				cytokinesis (GO:0000910)|dendrite development (GO:0016358)|G2/M transition of mitotic cell cycle (GO:0000086)|generation of neurons (GO:0048699)|Golgi organization (GO:0007030)|intracellular signal transduction (GO:0035556)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|mitotic nuclear division (GO:0007067)|mitotic sister chromatid segregation (GO:0000070)|negative regulation of dendrite morphogenesis (GO:0050774)|regulation of actin polymerization or depolymerization (GO:0008064)|spermatogenesis (GO:0007283)	actin cytoskeleton (GO:0015629)|Golgi cisterna (GO:0031985)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|ruffle (GO:0001726)|vacuole (GO:0005773)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|PDZ domain binding (GO:0030165)|protein serine/threonine kinase activity (GO:0004674)|small GTPase regulator activity (GO:0005083)			breast(6)|endometrium(9)|kidney(4)|large_intestine(15)|liver(1)|lung(29)|ovary(7)|prostate(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(6)	86	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		AAGTAGAGGGTTCTCCCGGGC	0.532																																																0													199	207	204					12																	120150093		2203	4300	6503	SO:0001583	missense	11113			AB023166	CCDS9192.1, CCDS55891.1	12q24.23	2014-04-23	2014-04-23		ENSG00000122966	ENSG00000122966			1985	protein-coding gene	gene with protein product	"serine/threonine kinase 21"	605629	"citron (rho-interacting, serine/threonine kinase 21)"			9792683	Standard	NM_001206999		Approved	KIAA0949, STK21, CRIK	uc001txj.2	O14578	OTTHUMG00000134325	ENST00000261833.7:c.4618A>G	12.37:g.120150093T>C	ENSP00000261833:p.Thr1540Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M5E1|Q6XUH8|Q86UQ9|Q9UPZ7	Missense_Mutation	SNP	ENST00000261833.7	37	CCDS9192.1	.	.	.	.	.	.	.	.	.	.	T	13.39	2.221702	0.39300	.	.	ENSG00000122966	ENST00000392521;ENST00000261833	T;T	0.65916	-0.15;-0.18	5.64	4.45	0.53987	Pleckstrin homology-type (1);Pleckstrin homology domain (2);	0.064498	0.64402	D	0.000006	T	0.54919	0.1888	L	0.47716	1.5	0.40248	D	0.978031	B;B;B	0.21905	0.005;0.062;0.001	B;B;B	0.19148	0.001;0.024;0.003	T	0.54302	-0.8314	10	0.66056	D	0.02	.	11.8488	0.52399	0.1312:0.0:0.0:0.8688	.	1582;1540;1058	Q2M5E1;O14578;O14578-3	.;CTRO_HUMAN;.	A	1582;1540	ENSP00000376306:T1582A;ENSP00000261833:T1540A	ENSP00000261833:T1540A	T	-	1	0	CIT	118634476	0.999000	0.42202	1.000000	0.80357	0.997000	0.91878	2.035000	0.41155	0.908000	0.36671	0.533000	0.62120	ACC		0.532	CIT-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000259410.4	NM_007174		C	120150093	T	C	120150093	3	2	664	1	0	0	0	0	1	0	0	0	3440	1725	60	3	1513	3	CIT	12	120150093	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	181305	120150093	13701802	663	41973										
RNF10	9921	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	121000814	121000814	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcactggtgttgtggctgctCtggaacaactggtgctgatg	14	8	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:121000814C>A	ENST00000325954.4	+	8	1656	c.1195C>A	c.(1195-1197)Ctg>Atg	p.L399M	RNF10_ENST00000413266.2_Missense_Mutation_p.L399M	NM_014868.4	NP_055683.3	Q8N5U6	RNF10_HUMAN	ring finger protein 10	399					negative regulation of Schwann cell proliferation (GO:0010626)|positive regulation of myelination (GO:0031643)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein autoubiquitination (GO:0051865)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	transcription regulatory region DNA binding (GO:0044212)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|endometrium(4)|kidney(3)|large_intestine(5)|lung(11)|ovary(2)|upper_aerodigestive_tract(1)	27	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGTGGCTGCTCTGGAACAACT	0.537																																																0													142	128	132					12																	121000814		2203	4300	6503	SO:0001583	missense	9921			AB027196	CCDS9201.1	12q23-q24	2013-01-09			ENSG00000022840	ENSG00000022840		"RING-type (C3HC4) zinc fingers"	10055	protein-coding gene	gene with protein product							Standard	NM_014868		Approved	KIAA0262, RIE2	uc001typ.4	Q8N5U6	OTTHUMG00000168999	ENST00000325954.4:c.1195C>A	12.37:g.121000814C>A	ENSP00000322242:p.Leu399Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q92550|Q9NPP8|Q9ULW4	Missense_Mutation	SNP	ENST00000325954.4	37	CCDS9201.1	.	.	.	.	.	.	.	.	.	.	C	9.302	1.053360	0.19907	.	.	ENSG00000022840	ENST00000325954;ENST00000458409;ENST00000413266	D;D	0.89875	-2.56;-2.58	5.5	2.57	0.30868	.	0.472617	0.21042	N	0.081155	T	0.79661	0.4484	N	0.25647	0.755	0.30643	N	0.756245	B;B	0.19817	0.039;0.011	B;B	0.19391	0.025;0.007	T	0.70464	-0.4864	10	0.32370	T	0.25	.	7.635	0.28261	0.0:0.6905:0.1449:0.1646	.	399;399	Q8N5U6-2;Q8N5U6	.;RNF10_HUMAN	M	399	ENSP00000322242:L399M;ENSP00000415682:L399M	ENSP00000322242:L399M	L	+	1	2	RNF10	119485197	0.989000	0.36119	1.000000	0.80357	0.683000	0.39861	0.072000	0.14617	0.453000	0.26858	-0.797000	0.03246	CTG		0.537	RNF10-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000401898.4			A	121000814	C	A	121000814	3	1	664	1	0	0	0	0	1	0	0	0	13435	912	32	4	1225	4	RNF10	12	121000814	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	850721	121000814	12851081	664	41974										
SCARB1	949	ucsc.edu	37	chr12	125263104	125263104	+	3'UTR	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggtcaggcccagcggccaggCctggctggctcacggtgtcc	16	15	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:125263104C>T	ENST00000415380.2	-	0	1805				SCARB1_ENST00000376788.1_3'UTR|SCARB1_ENST00000261693.6_3'UTR|SCARB1_ENST00000546215.1_3'UTR|SCARB1_ENST00000339570.5_Missense_Mutation_p.G477D			Q8WTV0	SCRB1_HUMAN	scavenger receptor class B, member 1						adhesion of symbiont to host (GO:0044406)|androgen biosynthetic process (GO:0006702)|blood vessel endothelial cell migration (GO:0043534)|cell adhesion (GO:0007155)|cholesterol catabolic process (GO:0006707)|cholesterol efflux (GO:0033344)|cholesterol homeostasis (GO:0042632)|cholesterol import (GO:0070508)|detection of lipopolysaccharide (GO:0032497)|endothelial cell proliferation (GO:0001935)|high-density lipoprotein particle clearance (GO:0034384)|high-density lipoprotein particle remodeling (GO:0034375)|lipopolysaccharide transport (GO:0015920)|lipopolysaccharide-mediated signaling pathway (GO:0031663)|lipoprotein metabolic process (GO:0042157)|low-density lipoprotein particle clearance (GO:0034383)|phospholipid transport (GO:0015914)|positive regulation of cholesterol storage (GO:0010886)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of nitric-oxide synthase activity (GO:0051000)|positive regulation of triglyceride biosynthetic process (GO:0010867)|receptor-mediated endocytosis (GO:0006898)|recognition of apoptotic cell (GO:0043654)|regulation of phagocytosis (GO:0050764)|regulation of phosphatidylcholine catabolic process (GO:0010899)|reverse cholesterol transport (GO:0043691)|small molecule metabolic process (GO:0044281)|triglyceride homeostasis (GO:0070328)|viral process (GO:0016032)|wound healing (GO:0042060)	caveola (GO:0005901)|cell surface (GO:0009986)|endocytic vesicle membrane (GO:0030666)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|microvillus membrane (GO:0031528)|plasma membrane (GO:0005886)	1-phosphatidylinositol binding (GO:0005545)|apolipoprotein A-I binding (GO:0034186)|apolipoprotein binding (GO:0034185)|high-density lipoprotein particle binding (GO:0008035)|high-density lipoprotein particle receptor activity (GO:0070506)|lipopolysaccharide binding (GO:0001530)|lipopolysaccharide receptor activity (GO:0001875)|low-density lipoprotein particle binding (GO:0030169)|phosphatidylserine binding (GO:0001786)|transporter activity (GO:0005215)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(7)|prostate(1)	17	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)	AGCGGCCAGGCCTGGCTGGCT	0.706																																																0													4	7	6					12																	125263104		1754	3797	5551	SO:0001624	3_prime_UTR_variant	949			Z22555	CCDS9259.1, CCDS45008.1	12q24.32	2008-08-05	2002-09-06	2002-09-06	ENSG00000073060	ENSG00000073060			1664	protein-coding gene	gene with protein product		601040	"CD36 antigen (collagen type I receptor, thrombospondin receptor)-like 1"	CD36L1		7689561	Standard	NM_001082959		Approved	SRB1, CLA-1, CLA1, SR-BI	uc001ugm.4	Q8WTV0	OTTHUMG00000168544	ENST00000415380.2:c.*21G>A	12.37:g.125263104C>T		Somatic		WXS	Illumina HiSeq	Phase_I	F8W8N0|Q14016|Q52LZ5|Q6KFX4	Missense_Mutation	SNP	ENST00000415380.2	37		.	.	.	.	.	.	.	.	.	.	C	6.791	0.514930	0.12944	.	.	ENSG00000073060	ENST00000339570	T	0.59906	0.23	4.51	2.35	0.29111	.	.	.	.	.	T	0.29716	0.0742	N	0.08118	0	0.09310	N	0.999995	B	0.06786	0.001	B	0.04013	0.001	T	0.23154	-1.0196	9	0.09338	T	0.73	.	5.4703	0.16666	0.0:0.6756:0.0:0.3244	.	477	F8W8N0	.	D	477	ENSP00000343795:G477D	ENSP00000343795:G477D	G	-	2	0	SCARB1	123829057	0.000000	0.05858	0.000000	0.03702	0.208000	0.24298	-0.053000	0.11846	0.182000	0.20032	0.555000	0.69702	GGC		0.706	SCARB1-006	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000400165.1	NM_005505		T	125263104	C	T	125263104	1	4	664	0	1	0	0	0	0	0	0	0	13894	739	26	2		2	SCARB1	12	125263104	3'UTR	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4262290	125263104	8588791	665	41975										
GPR133	283383	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr12	131466490	131466490	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tctagaccaatcccttctgcGtatgggggacaggtcatctc	10	12	4	1	rs145796361	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:131466490G>A	ENST00000261654.5	+	5	931	c.372G>A	c.(370-372)gcG>gcA	p.A124A	GPR133_ENST00000535015.1_Silent_p.A156A	NM_198827.3	NP_942122.2	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133	124					G-protein coupled receptor signaling pathway (GO:0007186)|neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)	p.A124A(1)		NS(2)|breast(2)|endometrium(6)|kidney(1)|large_intestine(12)|lung(20)|ovary(3)|pancreas(6)|prostate(6)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(4)	67	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)		TCCCTTCTGCGTATGGGGGAC	0.507													g|||	8	0.00159744	0.0008	0.0043	5008	,	,		18530	0.0		0.001	False		,,,				2504	0.0031															1	Substitution - coding silent(1)	ovary(1)								0,4406		0,0,2203	134	124	127		372	-7.9	0	12	dbSNP_134	127	3,8597	3.7+/-12.6	0,3,4297	yes	coding-synonymous	GPR133	NM_198827.3		0,3,6500	AA,AG,GG		0.0349,0.0,0.0231		124/875	131466490	3,13003	2203	4300	6503	SO:0001819	synonymous_variant	283383			AY278561	CCDS9272.1	12q24.33	2014-08-08			ENSG00000111452	ENSG00000111452		"-", "GPCR / Class B : Orphans"	19893	protein-coding gene	gene with protein product		613639					Standard	NM_198827		Approved	DKFZp434B1272, PGR25	uc001uit.4	Q6QNK2	OTTHUMG00000168339	ENST00000261654.5:c.372G>A	12.37:g.131466490G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2CKK9|B7ZLF7|Q2M1L3|Q6ZMQ1|Q7Z7M2|Q86SM4	Silent	SNP	ENST00000261654.5	37	CCDS9272.1																																																																																				0.507	GPR133-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399356.1	NM_198827		A	131466490	G	A	131466490	2	1	664	1	0	0	0	0	0	0	0	1	6650	1132	40	1		1	GPR133	12	131466490	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6203386	131466490	2385405	666	41976										
EP400	57634	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	132474512	132474512	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcacttttattcaccagctcGttagaactgtggtgcgccat	9	11	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:132474512G>A	ENST00000333577.4	+	9	2630	c.2521G>A	c.(2521-2523)Gtt>Att	p.V841I	EP400_ENST00000389561.2_Missense_Mutation_p.V805I|EP400_ENST00000389562.2_Missense_Mutation_p.V804I|EP400_ENST00000332482.4_Missense_Mutation_p.V768I|EP400_ENST00000330386.6_Missense_Mutation_p.V805I			Q96L91	EP400_HUMAN	E1A binding protein p400	841	HSA. {ECO:0000255|PROSITE- ProRule:PRU00549}.				chromatin organization (GO:0006325)|histone H2A acetylation (GO:0043968)|histone H4 acetylation (GO:0043967)	NuA4 histone acetyltransferase complex (GO:0035267)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|Swr1 complex (GO:0000812)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|helicase activity (GO:0004386)			NS(1)|breast(6)|central_nervous_system(10)|cervix(1)|endometrium(21)|kidney(13)|large_intestine(25)|lung(56)|ovary(5)|prostate(8)|skin(6)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(3)	161	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)		TCACCAGCTCGTTAGAACTGT	0.448																																																0													50	48	49					12																	132474512		2203	4300	6503	SO:0001583	missense	57634			U80743	CCDS31929.1, CCDS31929.2	12q24.33	2008-02-01	2002-02-05	2002-02-08		ENSG00000183495			11958	protein-coding gene	gene with protein product		606265	"trinucleotide repeat containing 12"	TNRC12		9225980, 11509179	Standard	NM_015409		Approved	CAGH32, KIAA1498, P400, KIAA1818, DKFZP434I225	uc001ujn.3	Q96L91		ENST00000333577.4:c.2521G>A	12.37:g.132474512G>A	ENSP00000333602:p.Val841Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O15411|Q6P2F5|Q8N8Q7|Q8NE05|Q96JK7|Q9P230	Missense_Mutation	SNP	ENST00000333577.4	37		.	.	.	.	.	.	.	.	.	.	G	11.18	1.562698	0.27915	.	.	ENSG00000183495	ENST00000537902;ENST00000333577;ENST00000389561;ENST00000389562;ENST00000332482;ENST00000330386;ENST00000423130;ENST00000541296;ENST00000542457	D;D;D;D;D	0.91351	-2.83;-2.81;-2.81;-2.8;-2.81	5.05	4.16	0.48862	.	0.000000	0.85682	D	0.000000	D	0.88713	0.6511	M	0.77103	2.36	0.38212	D	0.940518	B;B;B;B;B	0.33826	0.104;0.061;0.104;0.038;0.427	B;B;B;B;B	0.25506	0.029;0.029;0.029;0.012;0.061	D	0.88106	0.2822	10	0.35671	T	0.21	.	13.9058	0.63834	0.0745:0.0:0.9255:0.0	.	805;805;804;841;768	Q96L91-2;Q96L91-4;Q96L91-5;F8WCN8;Q96L91-3	.;.;.;.;.	I	768;841;805;804;768;805;841;805;805	ENSP00000333602:V841I;ENSP00000374212:V805I;ENSP00000374213:V804I;ENSP00000331737:V768I;ENSP00000330620:V805I	ENSP00000330620:V805I	V	+	1	0	EP400	131040465	1.000000	0.71417	0.285000	0.24819	0.212000	0.24457	5.177000	0.65032	1.259000	0.44117	0.561000	0.74099	GTT		0.448	EP400-203	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_015409		A	132474512	G	A	132474512	3	1	664	1	0	0	0	0	1	0	0	0	5151	1145	40	1	2436	1	EP400	12	132474512	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1008022	132474512	1377383	667	41977										
POLE	5426	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	133250211	133250211	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcctccgggtctagctccaCgggatcatagcctagcttgg	12	13	2	0	rs115047349		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr12:133250211C>T	ENST00000320574.5	-	13	1352	c.1309G>A	c.(1309-1311)Gtg>Atg	p.V437M	POLE_ENST00000535270.1_Missense_Mutation_p.V410M	NM_006231.2	NP_006222.2	Q07864	DPOE1_HUMAN	polymerase (DNA directed), epsilon, catalytic subunit	437					base-excision repair, gap-filling (GO:0006287)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA synthesis involved in DNA repair (GO:0000731)|G1/S transition of mitotic cell cycle (GO:0000082)|in utero embryonic development (GO:0001701)|mitotic cell cycle (GO:0000278)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair, DNA gap filling (GO:0006297)|telomere maintenance (GO:0000723)|telomere maintenance via recombination (GO:0000722)|telomere maintenance via semi-conservative replication (GO:0032201)|transcription-coupled nucleotide-excision repair (GO:0006283)	cytoplasm (GO:0005737)|epsilon DNA polymerase complex (GO:0008622)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	4 iron, 4 sulfur cluster binding (GO:0051539)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|DNA-directed DNA polymerase activity (GO:0003887)|nucleotide binding (GO:0000166)|zinc ion binding (GO:0008270)			NS(2)|autonomic_ganglia(1)|breast(5)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(16)|lung(41)|ovary(3)|pancreas(2)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	89	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)	Cladribine(DB00242)	TCTAGCTCCACGGGATCATAG	0.617								DNA polymerases (catalytic subunits)																																								0													137	129	132					12																	133250211		2203	4300	6503	SO:0001583	missense	5426				CCDS9278.1	12q24.3	2014-09-17	2012-05-18		ENSG00000177084	ENSG00000177084		"DNA polymerases"	9177	protein-coding gene	gene with protein product	"DNA polymerase epsilon catalytic subunit A"	174762	"polymerase (DNA directed), epsilon"			8020968	Standard	NM_006231		Approved	POLE1	uc001uks.1	Q07864	OTTHUMG00000168045	ENST00000320574.5:c.1309G>A	12.37:g.133250211C>T	ENSP00000322570:p.Val437Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q13533|Q86VH9	Missense_Mutation	SNP	ENST00000320574.5	37	CCDS9278.1	.	.	.	.	.	.	.	.	.	.	C	18.54	3.645576	0.67358	.	.	ENSG00000177084	ENST00000320574;ENST00000455752;ENST00000535270;ENST00000539006;ENST00000376577;ENST00000535934	T;T;T;T	0.47177	4.7;4.7;4.7;0.85	5.62	5.62	0.85841	Ribonuclease H-like (1);	0.000000	0.85682	D	0.000000	T	0.67458	0.2895	M	0.76433	2.335	0.80722	D	1	D;D	0.64830	0.994;0.994	P;P	0.59595	0.86;0.815	T	0.68953	-0.5273	10	0.56958	D	0.05	.	19.656	0.95842	0.0:1.0:0.0:0.0	.	410;437	F5H1D6;Q07864	.;DPOE1_HUMAN	M	437;448;410;217;372;55	ENSP00000322570:V437M;ENSP00000406383:V448M;ENSP00000445753:V410M;ENSP00000442519:V217M	ENSP00000322570:V437M	V	-	1	0	POLE	131760284	1.000000	0.71417	0.975000	0.42487	0.086000	0.17979	7.736000	0.84948	2.660000	0.90430	0.305000	0.20034	GTG		0.617	POLE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397689.2	NM_006231		T	133250211	C	T	133250211	3	4	664	1	0	0	0	0	1	0	0	0	12203	536	19	1	5699	1	POLE	12	133250211	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	775699	133250211	601684	668	41978										
MPHOSPH8	54737	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr13	20220830	20220830	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaagaaaagaatttctgaagCcaaagaagaactaaaggagt	9	4	1	5			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr13:20220830C>T	ENST00000361479.5	+	3	685	c.617C>T	c.(616-618)gCc>gTc	p.A206V	MPHOSPH8_ENST00000414242.2_Missense_Mutation_p.A206V	NM_017520.3	NP_059990.2	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	206	Lys-rich.				negative regulation of transcription, DNA-templated (GO:0045892)|regulation of DNA methylation (GO:0044030)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nuclear heterochromatin (GO:0005720)|nuclear nucleosome (GO:0000788)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	methylated histone binding (GO:0035064)			breast(2)|endometrium(1)|large_intestine(2)|lung(8)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	16		all_cancers(29;2.83e-16)|all_lung(29;1.16e-17)|all_epithelial(30;8.13e-16)|Lung NSC(5;6.91e-15)|Lung SC(185;0.0367)		all cancers(112;8.43e-05)|Epithelial(112;0.000426)|OV - Ovarian serous cystadenocarcinoma(117;0.00596)|Lung(94;0.015)|LUSC - Lung squamous cell carcinoma(192;0.0795)		ATTTCTGAAGCCAAAGAAGAA	0.348																																																0													22	24	23					13																	20220830		2198	4296	6494	SO:0001583	missense	54737			AK056785, AJ293409	CCDS9287.1	13q12.11	2013-01-10			ENSG00000196199	ENSG00000196199		"Ankyrin repeat domain containing"	29810	protein-coding gene	gene with protein product		611626				8885239	Standard	NM_017520		Approved	mpp8, HSMPP8	uc001umh.3	Q99549	OTTHUMG00000016498	ENST00000361479.5:c.617C>T	13.37:g.20220830C>T	ENSP00000355388:p.Ala206Val	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6F9|Q5JPE5|Q5JTQ0|Q86TK3|Q96MK4|Q9BTP1	Missense_Mutation	SNP	ENST00000361479.5	37	CCDS9287.1	.	.	.	.	.	.	.	.	.	.	C	8.054	0.766734	0.15983	.	.	ENSG00000196199	ENST00000414242;ENST00000361479;ENST00000538024	T;T	0.34472	1.38;1.36	6.02	3.3	0.37823	.	0.602723	0.17580	N	0.169162	T	0.17152	0.0412	N	0.13043	0.29	0.21802	N	0.999539	B;B;B	0.17852	0.006;0.01;0.024	B;B;B	0.15052	0.003;0.011;0.012	T	0.30090	-0.9990	10	0.10377	T	0.69	.	5.8271	0.18560	0.0:0.5275:0.2606:0.2119	.	206;206;206	Q99549;Q99549-2;B3KS10	MPP8_HUMAN;.;.	V	206	ENSP00000414663:A206V;ENSP00000355388:A206V	ENSP00000355388:A206V	A	+	2	0	MPHOSPH8	19118830	0.115000	0.22152	1.000000	0.80357	0.482000	0.33219	0.744000	0.26245	0.402000	0.25451	0.650000	0.86243	GCC		0.348	MPHOSPH8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044028.2	NM_017520		T	20220830	C	T	20220830	3	4	664	1	0	0	0	0	1	0	0	0	9734	739	26	2	627	2	MPHOSPH8	13	20220830	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10		20220830	94949048	669	41979										
SLC7A1	6541	broad.mit.edu;ucsc.edu	37	chr13	30088682	30088682	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcatccagggacgcctcctCgctgtgccacaggccatagc	12	16	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr13:30088682C>T	ENST00000380752.5	-	13	2211	c.1825G>A	c.(1825-1827)Gag>Aag	p.E609K	SLC7A1_ENST00000473577.1_5'Flank	NM_003045.4	NP_003036.1	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid transporter, y+ system), member 1	609					amino acid transport (GO:0006865)|ion transport (GO:0006811)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	arginine transmembrane transporter activity (GO:0015181)			endometrium(2)|kidney(2)|large_intestine(6)|lung(10)|prostate(1)|stomach(1)|urinary_tract(2)	24		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	GACGCCTCCTCGCTGTGCCAC	0.667																																																0													53	42	46					13																	30088682		2203	4300	6503	SO:0001583	missense	6541			AF078107	CCDS9333.1	13q12.3	2013-05-22			ENSG00000139514	ENSG00000139514		"Solute carriers"	11057	protein-coding gene	gene with protein product	"ecotropic retroviral receptor", "amino acid transporter, cationic 1"	104615		ERR, ATRC1		1348489	Standard	NM_003045		Approved	CAT-1, HCAT1, REC1L	uc001uso.3	P30825	OTTHUMG00000016658	ENST00000380752.5:c.1825G>A	13.37:g.30088682C>T	ENSP00000370128:p.Glu609Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JR50	Missense_Mutation	SNP	ENST00000380752.5	37	CCDS9333.1	.	.	.	.	.	.	.	.	.	.	C	10.49	1.366122	0.24684	.	.	ENSG00000139514	ENST00000380752	D	0.84873	-1.91	4.27	4.27	0.50696	.	0.457271	0.25520	N	0.030112	T	0.57814	0.2079	N	0.02765	-0.5	0.31206	N	0.699233	P	0.34909	0.475	B	0.23716	0.048	T	0.63033	-0.6727	10	0.05436	T	0.98	.	9.9362	0.41552	0.0:0.9063:0.0:0.0937	.	609	P30825	CTR1_HUMAN	K	609	ENSP00000370128:E609K	ENSP00000370128:E609K	E	-	1	0	SLC7A1	28986682	0.965000	0.33210	0.937000	0.37676	0.968000	0.65278	2.298000	0.43602	2.387000	0.81309	0.561000	0.74099	GAG		0.667	SLC7A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044337.2	NM_003045		T	30088682	C	T	30088682	3	4	664	1	0	0	0	0	1	0	0	0	14705	893	31	1	68	1	SLC7A1	13	30088682	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	9867852	30088682	85081196	670	41980										
NBEA	26960	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr13	35733452	35733452	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gatagaccaggaagtggtgtAcatgtggaagtacatgatct	13	5	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr13:35733452A>G	ENST00000400445.3	+	22	3678	c.3144A>G	c.(3142-3144)gtA>gtG	p.V1048V	NBEA_ENST00000540320.1_Silent_p.V1048V|NBEA_ENST00000379939.2_Silent_p.V1048V|NBEA_ENST00000310336.4_Silent_p.V1048V	NM_015678.4	NP_056493.3	Q8NFP9	NBEA_HUMAN	neurobeachin	1048					protein localization (GO:0008104)	cytosol (GO:0005829)|endomembrane system (GO:0012505)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)				NS(1)|breast(1)|endometrium(14)|kidney(4)|large_intestine(29)|lung(40)|ovary(9)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	108		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)		GAAGTGGTGTACATGTGGAAG	0.393																																																0													91	87	88					13																	35733452		1895	4128	6023	SO:0001819	synonymous_variant	26960			AF467288	CCDS45026.1, CCDS55894.1	13q13	2014-09-17			ENSG00000172915	ENSG00000172915		"A-kinase anchor proteins", "WD repeat domain containing"	7648	protein-coding gene	gene with protein product		604889				10501977	Standard	NM_015678		Approved	KIAA1544, BCL8B, FLJ10197	uc021ric.1	Q8NFP9	OTTHUMG00000016724	ENST00000400445.3:c.3144A>G	13.37:g.35733452A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2H9|Q5T320|Q9HCM8|Q9NSU1|Q9NW98|Q9Y6J1	Silent	SNP	ENST00000400445.3	37	CCDS45026.1																																																																																				0.393	NBEA-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_015678		G	35733452	A	G	35733452	2	3	664	1	0	0	0	0	0	0	0	1	10194	378	14	3		3	NBEA	13	35733452	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	5644770	35733452	79436426	671	41981										
SPG20	23111	broad.mit.edu;ucsc.edu	37	chr13	36909383	36909383	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	taaaactcctctccaactgaTgaaaactccccagaatctgt	4	13	2	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr13:36909383T>C	ENST00000451493.1	-	2	802	c.585A>G	c.(583-585)tcA>tcG	p.S195S	SPG20_ENST00000355182.4_Silent_p.S195S|SPG20_ENST00000494062.2_Silent_p.S195S|SPG20_ENST00000495510.1_5'UTR|SPG20_ENST00000438666.2_Silent_p.S195S	NM_001142295.1	NP_001135767.1	Q8N0X7	SPG20_HUMAN	spastic paraplegia 20 (Troyer syndrome)	195					abscission (GO:0009838)|adipose tissue development (GO:0060612)|cell death (GO:0008219)|cell division (GO:0051301)|lipid particle organization (GO:0034389)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of collateral sprouting in absence of injury (GO:0048698)|neuromuscular process (GO:0050905)|regulation of mitochondrial membrane potential (GO:0051881)	cytoplasm (GO:0005737)|lipid particle (GO:0005811)|midbody (GO:0030496)|mitochondrial outer membrane (GO:0005741)|plasma membrane (GO:0005886)|synapse (GO:0045202)	ubiquitin protein ligase binding (GO:0031625)			breast(1)|endometrium(2)|kidney(1)|large_intestine(8)|lung(10)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	27		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		CTCCAACTGATGAAAACTCCC	0.453																																																0													66	64	65					13																	36909383		2203	4300	6503	SO:0001819	synonymous_variant	23111			AB011182	CCDS9356.1	13q13.1	2008-07-04	2007-04-23		ENSG00000133104	ENSG00000133104			18514	protein-coding gene	gene with protein product	"spartin"	607111				6022528, 12134148	Standard	NM_001142294		Approved	KIAA0610, TAHCCP1	uc001uvm.3	Q8N0X7	OTTHUMG00000016730	ENST00000451493.1:c.585A>G	13.37:g.36909383T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O60349|Q86Y67|Q9H1T2|Q9H1T3	Silent	SNP	ENST00000451493.1	37	CCDS9356.1																																																																																				0.453	SPG20-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044494.2			C	36909383	T	C	36909383	2	2	664	1	0	0	0	0	0	0	0	1	15054	1451	51	3		3	SPG20	13	36909383	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1175931	36909383	78260495	672	41982										
WBP4	11193	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr13	41657033	41657033	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aatctagaaatttaaggcaaCgaggtgatgatcaatagttg	10	4	2	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr13:41657033C>T	ENST00000379487.3	+	10	1514	c.1114C>T	c.(1114-1116)Cga>Tga	p.R372*	WBP4_ENST00000542082.1_Nonsense_Mutation_p.R351*	NM_007187.3	NP_009118.1	O75554	WBP4_HUMAN	WW domain binding protein 4	372					mRNA cis splicing, via spliceosome (GO:0045292)	nuclear speck (GO:0016607)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|spliceosomal complex (GO:0005681)	nucleic acid binding (GO:0003676)|proline-rich region binding (GO:0070064)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|liver(2)|lung(2)|prostate(1)|skin(1)	12		Lung NSC(96;3.55e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;3.11e-09)|Epithelial(112;3.37e-06)|OV - Ovarian serous cystadenocarcinoma(117;8.3e-05)|GBM - Glioblastoma multiforme(144;0.00102)|BRCA - Breast invasive adenocarcinoma(63;0.07)		TTTAAGGCAACGAGGTGATGA	0.378																																																0													58	56	57					13																	41657033		2203	4300	6503	SO:0001587	stop_gained	11193			AF071185	CCDS9375.1	13q13.3	2012-10-17	2012-10-17		ENSG00000120688	ENSG00000120688			12739	protein-coding gene	gene with protein product	"formin binding protein 21"	604981				9724750	Standard	NM_007187		Approved	FBP21, MGC117310	uc001uxt.3	O75554	OTTHUMG00000016784	ENST00000379487.3:c.1114C>T	13.37:g.41657033C>T	ENSP00000368801:p.Arg372*	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z4M2|Q32P29	Nonsense_Mutation	SNP	ENST00000379487.3	37	CCDS9375.1	.	.	.	.	.	.	.	.	.	.	C	39	7.700010	0.98441	.	.	ENSG00000120688	ENST00000379487;ENST00000542082	.	.	.	6.07	4.14	0.48551	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.43841	D	0.996429	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-5.4043	11.7567	0.51880	0.4966:0.5034:0.0:0.0	.	.	.	.	X	372;351	.	ENSP00000368801:R372X	R	+	1	2	WBP4	40555033	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	3.583000	0.53928	1.534000	0.49203	0.655000	0.94253	CGA		0.378	WBP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044655.2	NM_007187		T	41657033	C	T	41657033	4	4	664	1	0	0	0	0	0	1	0	0	17273	528	19	1	1152	1	WBP4	13	41657033	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4747650	41657033	73512845	673	41983										
SPERT	220082	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr13	46287927	46287927	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctccgggaggagaatcgcgCgctgcagcagctgctggagc	16	13	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr13:46287927C>T	ENST00000310521.1	+	3	847	c.767C>T	c.(766-768)gCg>gTg	p.A256V	SPERT_ENST00000378966.3_Missense_Mutation_p.A220V	NM_152719.1	NP_689932.1	Q8NA61	SPERT_HUMAN	spermatid associated	256						cytoplasmic membrane-bounded vesicle (GO:0016023)				NS(1)|central_nervous_system(1)|large_intestine(5)|lung(5)|ovary(1)|pancreas(1)|prostate(1)	15		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)		GAGAATCGCGCGCTGCAGCAG	0.692																																																0													19	17	18					13																	46287927		2187	4290	6477	SO:0001583	missense	220082			AK093129	CCDS9399.1, CCDS66540.1	13q14.13	2010-03-23			ENSG00000174015	ENSG00000174015			30720	protein-coding gene	gene with protein product	"spermatid flower-like structure protein", "testis specific leucine zipper protein nurit", "chibby homolog 2 (Drosophila)"					12204287, 20096028	Standard	NM_001286341		Approved	NURIT, CBY2	uc001van.1	Q8NA61	OTTHUMG00000016861	ENST00000310521.1:c.767C>T	13.37:g.46287927C>T	ENSP00000309189:p.Ala256Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8I5|Q8NHV2	Missense_Mutation	SNP	ENST00000310521.1	37	CCDS9399.1	.	.	.	.	.	.	.	.	.	.	C	14.63	2.592367	0.46214	.	.	ENSG00000174015	ENST00000310521;ENST00000378966	T;T	0.51071	0.74;0.72	5.27	5.27	0.74061	.	0.099939	0.44483	D	0.000442	T	0.34193	0.0889	L	0.32530	0.975	0.28594	N	0.909472	P;P	0.43352	0.804;0.531	B;B	0.38156	0.266;0.178	T	0.34825	-0.9813	10	0.40728	T	0.16	.	9.7621	0.40539	0.0:0.9087:0.0:0.0913	.	220;256	Q8NA61-2;Q8NA61	.;SPERT_HUMAN	V	256;220	ENSP00000309189:A256V;ENSP00000368249:A220V	ENSP00000309189:A256V	A	+	2	0	SPERT	45185928	0.113000	0.22115	0.988000	0.46212	0.856000	0.48823	2.116000	0.41930	2.735000	0.93741	0.655000	0.94253	GCG		0.692	SPERT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044786.2	NM_152719		T	46287927	C	T	46287927	3	4	664	1	0	0	0	0	1	0	0	0	15051	768	27	1	777	1	SPERT	13	46287927	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4630894	46287927	68881951	674	41984										
RB1	5925	broad.mit.edu;hgsc.bcm.edu	37	chr13	49033915	49033915	+	Frame_Shift_Del	DEL	C	C	-													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	catatcatctggacccttttCcagcacaccctgcagaatga							TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr13:49033915delC	ENST00000267163.4	+	20	2190	c.2052delC	c.(2050-2052)ttcfs	p.F684fs		NM_000321.2	NP_000312.2	P06400	RB_HUMAN	retinoblastoma 1	684	Domain B.|Pocket; binds T and E1A.				androgen receptor signaling pathway (GO:0030521)|cell cycle arrest (GO:0007050)|cell cycle checkpoint (GO:0000075)|cell morphogenesis involved in neuron differentiation (GO:0048667)|chromatin remodeling (GO:0006338)|digestive tract development (GO:0048565)|enucleate erythrocyte differentiation (GO:0043353)|G1/S transition of mitotic cell cycle (GO:0000082)|glial cell apoptotic process (GO:0034349)|hepatocyte apoptotic process (GO:0097284)|maintenance of mitotic sister chromatid cohesion (GO:0034088)|mitotic cell cycle (GO:0000278)|mitotic cell cycle checkpoint (GO:0007093)|myoblast differentiation (GO:0045445)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription from RNA polymerase II promoter during mitosis (GO:0007070)|negative regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0071930)|negative regulation of transcription, DNA-templated (GO:0045892)|neuron apoptotic process (GO:0051402)|neuron maturation (GO:0042551)|neuron projection development (GO:0031175)|positive regulation of macrophage differentiation (GO:0045651)|positive regulation of mitotic metaphase/anaphase transition (GO:0045842)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein localization to chromosome, centromeric region (GO:0071459)|Ras protein signal transduction (GO:0007265)|regulation of centromere complex assembly (GO:0090230)|regulation of cohesin localization to chromatin (GO:0071922)|regulation of lipid kinase activity (GO:0043550)|regulation of mitotic cell cycle (GO:0007346)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)|sister chromatid biorientation (GO:0031134)|skeletal muscle cell differentiation (GO:0035914)|striated muscle cell differentiation (GO:0051146)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	chromatin (GO:0000785)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|Rb-E2F complex (GO:0035189)|spindle (GO:0005819)|SWI/SNF complex (GO:0016514)	androgen receptor binding (GO:0050681)|core promoter binding (GO:0001047)|DNA binding (GO:0003677)|identical protein binding (GO:0042802)|kinase binding (GO:0019900)|phosphoprotein binding (GO:0051219)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|ubiquitin protein ligase binding (GO:0031625)	p.0?(15)|p.?(11)		NS(3)|adrenal_gland(1)|bone(22)|breast(30)|central_nervous_system(48)|cervix(3)|endometrium(14)|eye(95)|gastrointestinal_tract_(site_indeterminate)(1)|haematopoietic_and_lymphoid_tissue(20)|kidney(3)|large_intestine(10)|liver(3)|lung(153)|oesophagus(1)|ovary(13)|pancreas(5)|pituitary(1)|prostate(14)|salivary_gland(2)|skin(9)|soft_tissue(9)|stomach(4)|upper_aerodigestive_tract(1)|urinary_tract(31)	496		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(DB00071)|Insulin Regular(DB00030)"	GGACCCTTTTCCAGCACACCC	0.458		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)																												yes	Rec	yes	Familial retinoblastoma	13	13q14	5925	retinoblastoma gene		"L, E, M, O"	26	Whole gene deletion(15)|Unknown(11)	bone(10)|breast(5)|haematopoietic_and_lymphoid_tissue(4)|adrenal_gland(1)|eye(1)|soft_tissue(1)|endometrium(1)|urinary_tract(1)|lung(1)|liver(1)											97	91	93					13																	49033915		2203	4300	6503	SO:0001589	frameshift_variant	5925	Familial Cancer Database		M15400	CCDS31973.1	13q14.2	2014-09-17	2008-07-31		ENSG00000139687	ENSG00000139687		"Endogenous ligands"	9884	protein-coding gene	gene with protein product	"prepro-retinoblastoma-associated protein", "protein phosphatase 1, regulatory subunit 130"	614041	"osteosarcoma"	OSRC		1857421, 15057823	Standard	NM_000321		Approved	RB, PPP1R130	uc001vcb.3	P06400	OTTHUMG00000016900	ENST00000267163.4:c.2052delC	13.37:g.49033915delC	ENSP00000267163:p.Phe684fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5E3|P78499|Q5VW46|Q8IZL4	Frame_Shift_Del	DEL	ENST00000267163.4	37	CCDS31973.1																																																																																				0.458	RB1-002	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000044884.1			-	49033915	C	-	49033915	7	5	664	1	0	1	0	1	0	0	0	0	13111	854	30	0	2130	0	RB1	13	49033915	Frame_Shift_Del	DEL	C	TCGA-KN-8428-01A-11D-2310-10	2745988	49033915	66135963	675	41985	398	2								
RB1	5925	bcgsc.ca	37	chr13	49033916	49033916	+	Frame_Shift_Del	DEL	C	C	-													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atatcatctggacccttttcCagcacaccctgcagaatgag							TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr13:49033916delC	ENST00000267163.4	+	20	2191	c.2053delC	c.(2053-2055)cagfs	p.Q685fs		NM_000321.2	NP_000312.2	P06400	RB_HUMAN	retinoblastoma 1	685	Domain B.|Pocket; binds T and E1A.		Q -> P (in RB). {ECO:0000269|PubMed:7795591}.		androgen receptor signaling pathway (GO:0030521)|cell cycle arrest (GO:0007050)|cell cycle checkpoint (GO:0000075)|cell morphogenesis involved in neuron differentiation (GO:0048667)|chromatin remodeling (GO:0006338)|digestive tract development (GO:0048565)|enucleate erythrocyte differentiation (GO:0043353)|G1/S transition of mitotic cell cycle (GO:0000082)|glial cell apoptotic process (GO:0034349)|hepatocyte apoptotic process (GO:0097284)|maintenance of mitotic sister chromatid cohesion (GO:0034088)|mitotic cell cycle (GO:0000278)|mitotic cell cycle checkpoint (GO:0007093)|myoblast differentiation (GO:0045445)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription from RNA polymerase II promoter during mitosis (GO:0007070)|negative regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0071930)|negative regulation of transcription, DNA-templated (GO:0045892)|neuron apoptotic process (GO:0051402)|neuron maturation (GO:0042551)|neuron projection development (GO:0031175)|positive regulation of macrophage differentiation (GO:0045651)|positive regulation of mitotic metaphase/anaphase transition (GO:0045842)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein localization to chromosome, centromeric region (GO:0071459)|Ras protein signal transduction (GO:0007265)|regulation of centromere complex assembly (GO:0090230)|regulation of cohesin localization to chromatin (GO:0071922)|regulation of lipid kinase activity (GO:0043550)|regulation of mitotic cell cycle (GO:0007346)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)|sister chromatid biorientation (GO:0031134)|skeletal muscle cell differentiation (GO:0035914)|striated muscle cell differentiation (GO:0051146)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	chromatin (GO:0000785)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|Rb-E2F complex (GO:0035189)|spindle (GO:0005819)|SWI/SNF complex (GO:0016514)	androgen receptor binding (GO:0050681)|core promoter binding (GO:0001047)|DNA binding (GO:0003677)|identical protein binding (GO:0042802)|kinase binding (GO:0019900)|phosphoprotein binding (GO:0051219)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|ubiquitin protein ligase binding (GO:0031625)	p.0?(15)|p.?(11)|p.Q685*(2)		NS(3)|adrenal_gland(1)|bone(22)|breast(30)|central_nervous_system(48)|cervix(3)|endometrium(14)|eye(95)|gastrointestinal_tract_(site_indeterminate)(1)|haematopoietic_and_lymphoid_tissue(20)|kidney(3)|large_intestine(10)|liver(3)|lung(153)|oesophagus(1)|ovary(13)|pancreas(5)|pituitary(1)|prostate(14)|salivary_gland(2)|skin(9)|soft_tissue(9)|stomach(4)|upper_aerodigestive_tract(1)|urinary_tract(31)	496		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(DB00071)|Insulin Regular(DB00030)"	GACCCTTTTCCAGCACACCCT	0.458		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)																												yes	Rec	yes	Familial retinoblastoma	13	13q14	5925	retinoblastoma gene		"L, E, M, O"	28	Whole gene deletion(15)|Unknown(11)|Substitution - Nonsense(2)	bone(10)|breast(5)|haematopoietic_and_lymphoid_tissue(4)|lung(2)|adrenal_gland(1)|eye(1)|soft_tissue(1)|endometrium(1)|urinary_tract(1)|stomach(1)|liver(1)	GRCh37	CM016044	RB1	M							94	90	91					13																	49033916		2203	4300	6503	SO:0001589	frameshift_variant	5925	Familial Cancer Database		M15400	CCDS31973.1	13q14.2	2014-09-17	2008-07-31		ENSG00000139687	ENSG00000139687		"Endogenous ligands"	9884	protein-coding gene	gene with protein product	"prepro-retinoblastoma-associated protein", "protein phosphatase 1, regulatory subunit 130"	614041	"osteosarcoma"	OSRC		1857421, 15057823	Standard	NM_000321		Approved	RB, PPP1R130	uc001vcb.3	P06400	OTTHUMG00000016900	ENST00000267163.4:c.2053delC	13.37:g.49033916delC	ENSP00000267163:p.Gln685fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5E3|P78499|Q5VW46|Q8IZL4	Frame_Shift_Del	DEL	ENST00000267163.4	37	CCDS31973.1																																																																																				0.458	RB1-002	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000044884.1			-	49033916	C	-	49033916	7	5	664	1	0	1	0	1	0	0	0	0	13111	595	21	0	2131	0	RB1	13	49033916	Frame_Shift_Del	DEL	C	TCGA-KN-8428-01A-11D-2310-10	1	49033916	66135962	676	41986	398	2								
DIS3	22894	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr13	73348179	73348179	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtaggcttcaacattttctCgcttacagcagtcttaagct	7	10	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr13:73348179C>T	ENST00000377767.4	-	7	1106	c.1006G>A	c.(1006-1008)Gag>Aag	p.E336K	DIS3_ENST00000377780.4_Missense_Mutation_p.E306K|DIS3_ENST00000545453.1_Missense_Mutation_p.E174K	NM_014953.3	NP_055768.3	Q9Y2L1	RRP44_HUMAN	DIS3 exosome endoribonuclease and 3'-5' exoribonuclease	336					CUT catabolic process (GO:0071034)|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay (GO:0043928)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nucleic acid phosphodiester bond hydrolysis (GO:0090305)|positive regulation of GTPase activity (GO:0043547)|RNA metabolic process (GO:0016070)|RNA phosphodiester bond hydrolysis, exonucleolytic (GO:0090503)|rRNA catabolic process (GO:0016075)|rRNA processing (GO:0006364)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|exosome (RNase complex) (GO:0000178)|membrane (GO:0016020)|nuclear exosome (RNase complex) (GO:0000176)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	3'-5'-exoribonuclease activity (GO:0000175)|endonuclease activity (GO:0004519)|guanyl-nucleotide exchange factor activity (GO:0005085)|RNA binding (GO:0003723)			central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(7)|kidney(5)|large_intestine(10)|lung(6)|prostate(2)|skin(1)	35		Breast(118;0.0074)|Acute lymphoblastic leukemia(28;0.0195)		GBM - Glioblastoma multiforme(99;0.000181)		AACATTTTCTCGCTTACAGCA	0.343										Multiple Myeloma(4;0.011)																																						0													97	97	97					13																	73348179		2202	4300	6502	SO:0001583	missense	22894			AB023225	CCDS9447.1, CCDS45057.1	13q21.32	2014-03-05	2014-03-05	2007-01-12	ENSG00000083520	ENSG00000083520			20604	protein-coding gene	gene with protein product	"exosome component 11"	607533	"KIAA1008", "DIS3 mitotic control homolog (S. cerevisiae)"	KIAA1008		11935316, 9562621	Standard	XM_005266294		Approved	dis3p, RRP44, EXOSC11	uc001vix.4	Q9Y2L1	OTTHUMG00000017070	ENST00000377767.4:c.1006G>A	13.37:g.73348179C>T	ENSP00000366997:p.Glu336Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NI21|B2RBL2|Q5W0P7|Q5W0P8|Q658Z7|Q7Z481|Q8WWI2|Q9UG36	Missense_Mutation	SNP	ENST00000377767.4	37	CCDS9447.1	.	.	.	.	.	.	.	.	.	.	C	13.12	2.141048	0.37825	.	.	ENSG00000083520	ENST00000377767;ENST00000377780;ENST00000545453	T;T;T	0.40476	1.03;1.03;1.03	5.8	5.8	0.92144	.	0.528815	0.22419	N	0.060314	T	0.23210	0.0561	N	0.16307	0.4	0.34150	D	0.667477	B;B	0.02656	0.0;0.0	B;B	0.06405	0.002;0.001	T	0.27571	-1.0070	10	0.08837	T	0.75	.	9.0011	0.36083	0.0:0.8765:0.0:0.1235	.	306;336	Q9Y2L1-2;Q9Y2L1	.;RRP44_HUMAN	K	336;306;174	ENSP00000366997:E336K;ENSP00000367011:E306K;ENSP00000440058:E174K	ENSP00000366997:E336K	E	-	1	0	DIS3	72246180	0.999000	0.42202	0.900000	0.35374	0.851000	0.48451	4.910000	0.63321	2.737000	0.93849	0.563000	0.77884	GAG		0.343	DIS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045250.2	NM_014953		T	73348179	C	T	73348179	3	4	664	1	0	0	0	0	1	0	0	0	4537	893	31	1	1930	1	DIS3	13	73348179	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	24314263	73348179	41821699	677	41987										
HS6ST3	266722	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr13	97484970	97484970	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggctaacaatcgccaggtgCgcatgctggctgacctcagc	12	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr13:97484970C>T	ENST00000376705.2	+	2	958	c.934C>T	c.(934-936)Cgc>Tgc	p.R312C		NM_153456.3	NP_703157.2	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3	312					heparan sulfate proteoglycan biosynthetic process, enzymatic modification (GO:0015015)	integral component of membrane (GO:0016021)	heparan sulfate 6-O-sulfotransferase activity (GO:0017095)			NS(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(10)|ovary(1)|pancreas(1)|skin(1)	20	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					TCGCCAGGTGCGCATGCTGGC	0.527																																																0													77	72	74					13																	97484970		2203	4300	6503	SO:0001583	missense	266722			AF539426	CCDS9481.1	13q32.2	2007-12-04			ENSG00000185352	ENSG00000185352		"Sulfotransferases, membrane-bound"	19134	protein-coding gene	gene with protein product		609401					Standard	NM_153456		Approved		uc001vmw.4	Q8IZP7	OTTHUMG00000017232	ENST00000376705.2:c.934C>T	13.37:g.97484970C>T	ENSP00000365895:p.Arg312Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5W0L0|Q68CW6	Missense_Mutation	SNP	ENST00000376705.2	37	CCDS9481.1	.	.	.	.	.	.	.	.	.	.	C	27.0	4.788595	0.90367	.	.	ENSG00000185352	ENST00000376705	T	0.42131	0.98	5.65	5.65	0.86999	.	0.000000	0.85682	D	0.000000	T	0.73063	0.3539	M	0.90369	3.11	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.78532	-0.2168	10	0.87932	D	0	-28.732	19.7149	0.96113	0.0:1.0:0.0:0.0	.	312	Q8IZP7	H6ST3_HUMAN	C	312	ENSP00000365895:R312C	ENSP00000365895:R312C	R	+	1	0	HS6ST3	96282971	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.814000	0.86154	2.648000	0.89879	0.650000	0.86243	CGC		0.527	HS6ST3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045517.2	NM_153456		T	97484970	C	T	97484970	3	4	664	1	0	0	0	0	1	0	0	0	7379	768	27	1	940	1	HS6ST3	13	97484970	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	24136791	97484970	17684908	678	41988										
ATP11A	23250	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr13	113530121	113530121	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	actaccagaggatgtactacGtgttcatccagatgctgtcc	9	11	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr13:113530121G>A	ENST00000487903.1	+	28	3281	c.3193G>A	c.(3193-3195)Gtg>Atg	p.V1065M	ATP11A_ENST00000283558.8_Missense_Mutation_p.V1065M|ATP11A_ENST00000375630.2_Missense_Mutation_p.V1065M|ATP11A_ENST00000375645.3_Missense_Mutation_p.V1065M			P98196	AT11A_HUMAN	ATPase, class VI, type 11A	1065					phospholipid translocation (GO:0045332)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|plasma membrane (GO:0005886)|recycling endosome (GO:0055037)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			NS(1)|central_nervous_system(3)|cervix(1)|endometrium(6)|kidney(4)|large_intestine(12)|lung(17)|ovary(4)|skin(1)|stomach(1)|urinary_tract(1)	51	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)				GATGTACTACGTGTTCATCCA	0.617																																																0													87	81	83					13																	113530121		2203	4300	6503	SO:0001583	missense	23250			AB028944	CCDS32011.1	13q34	2010-04-20	2007-09-19		ENSG00000068650	ENSG00000068650	3.6.3.1	"ATPases / P-type"	13552	protein-coding gene	gene with protein product	"potential phospholipid-transporting ATPase IH", "phospholipid-translocating ATPase"	605868	"ATPase, Class VI, type 11A"			11015572	Standard	NM_032189		Approved	ATPIH, ATPIS, KIAA1021	uc001vsj.4	P98196	OTTHUMG00000017371	ENST00000487903.1:c.3193G>A	13.37:g.113530121G>A	ENSP00000420387:p.Val1065Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VXT2	Missense_Mutation	SNP	ENST00000487903.1	37	CCDS32011.1	.	.	.	.	.	.	.	.	.	.	G	18.02	3.529398	0.64860	.	.	ENSG00000068650	ENST00000487903;ENST00000375630;ENST00000375645;ENST00000283558;ENST00000419631	T;T;T;T;T	0.58210	0.35;0.35;0.35;0.35;0.35	4.79	4.79	0.61399	.	0.000000	0.85682	D	0.000000	T	0.71256	0.3318	M	0.73430	2.235	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.65140	0.932;0.932	T	0.74450	-0.3661	10	0.51188	T	0.08	.	17.8446	0.88725	0.0:0.0:1.0:0.0	.	1065;1065	E9PEJ6;P98196	.;AT11A_HUMAN	M	1065;1065;1065;1065;57	ENSP00000420387:V1065M;ENSP00000364781:V1065M;ENSP00000364796:V1065M;ENSP00000283558:V1065M;ENSP00000410824:V57M	ENSP00000283558:V1065M	V	+	1	0	ATP11A	112578122	1.000000	0.71417	0.985000	0.45067	0.068000	0.16541	8.990000	0.93510	2.198000	0.70561	0.561000	0.74099	GTG		0.617	ATP11A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000045834.3	NM_015205		A	113530121	G	A	113530121	3	1	664	1	0	0	0	0	1	0	0	0	1119	1145	40	1	3303	1	ATP11A	13	113530121	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	16045151	113530121	1639757	679	41989										
RASA3	22821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr13	114780772	114780772	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caccccagactcagtgatggCgtggaagacgcggtccacat	12	13	1	3	rs370539205		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr13:114780772C>T	ENST00000334062.7	-	14	1439	c.1318G>A	c.(1318-1320)Gcc>Acc	p.A440T	RASA3_ENST00000389544.4_Missense_Mutation_p.A408T	NM_007368.2	NP_031394.2	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	440	Ras-GAP. {ECO:0000255|PROSITE- ProRule:PRU00167}.				calcium ion transmembrane transport (GO:0070588)|intracellular signal transduction (GO:0035556)|negative regulation of Ras protein signal transduction (GO:0046580)|positive regulation of Ras GTPase activity (GO:0032320)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)	calcium-release channel activity (GO:0015278)|GTPase activator activity (GO:0005096)|metal ion binding (GO:0046872)|Ras GTPase activator activity (GO:0005099)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(8)|lung(20)|ovary(3)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	47	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)			TCAGTGATGGCGTGGAAGACG	0.647																																																0								C	THR/ALA	0,4406		0,0,2203	117	100	106		1318	3.3	0	13		106	1,8599	1.2+/-3.3	0,1,4299	no	missense	RASA3	NM_007368.2	58	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign	440/835	114780772	1,13005	2203	4300	6503	SO:0001583	missense	22821				CCDS32016.1	13q34	2013-01-10			ENSG00000185989	ENSG00000185989		"Pleckstrin homology (PH) domain containing"	20331	protein-coding gene	gene with protein product		605182				7637787, 9382842	Standard	NM_007368		Approved	GAP1IP4BP, GAPIII	uc001vui.3	Q14644	OTTHUMG00000017399	ENST00000334062.7:c.1318G>A	13.37:g.114780772C>T	ENSP00000335029:p.Ala440Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NL15|F8W6X8|Q8IUY2	Missense_Mutation	SNP	ENST00000334062.7	37	CCDS32016.1	.	.	.	.	.	.	.	.	.	.	C	11.71	1.720226	0.30503	0.0	1.16E-4	ENSG00000185989	ENST00000334062;ENST00000389544	T;T	0.80214	-1.35;-1.35	5.07	3.34	0.38264	Rho GTPase activation protein (1);Ras GTPase-activating protein (4);	0.267542	0.35936	N	0.002897	T	0.70535	0.3235	L	0.34521	1.04	0.80722	D	1	B	0.09022	0.002	B	0.28784	0.094	T	0.59016	-0.7533	9	.	.	.	.	10.2263	0.43227	0.0:0.834:0.0:0.166	.	440	Q14644	RASA3_HUMAN	T	440;408	ENSP00000335029:A440T;ENSP00000374195:A408T	.	A	-	1	0	RASA3	113798874	0.991000	0.36638	0.002000	0.10522	0.010000	0.07245	2.982000	0.49337	0.526000	0.28541	0.591000	0.81541	GCC		0.647	RASA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045957.2	NM_007368		T	114780772	C	T	114780772	3	4	664	1	0	0	0	0	1	0	0	0	13075	768	27	1	1230	1	RASA3	13	114780772	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1250651	114780772	389106	680	41990										
OR4K13	390433	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	20502143	20502143	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtatctgctgaagggccagaCgtagataaagacacacggag	13	8	1	4	rs199734457		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:20502143C>T	ENST00000315693.2	-	1	776	c.775G>A	c.(775-777)Gtc>Atc	p.V259I	AL359218.1_ENST00000580563.1_RNA	NM_001004714.1	NP_001004714.1	Q8NH42	OR4KD_HUMAN	olfactory receptor, family 4, subfamily K, member 13	259						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(3)|kidney(1)|large_intestine(2)|lung(11)|ovary(3)|skin(4)	24	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		AAGGGCCAGACGTAGATAAAG	0.403																																																0													91	83	86					14																	20502143		2203	4300	6503	SO:0001583	missense	390433				CCDS32028.1	14q11.2	2013-09-23			ENSG00000176253	ENSG00000176253		"GPCR / Class A : Olfactory receptors"	15351	protein-coding gene	gene with protein product							Standard	NM_001004714		Approved		uc010tkz.2	Q8NH42	OTTHUMG00000170781	ENST00000315693.2:c.775G>A	14.37:g.20502143C>T	ENSP00000319322:p.Val259Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF13	Missense_Mutation	SNP	ENST00000315693.2	37	CCDS32028.1	.	.	.	.	.	.	.	.	.	.	.	0.132	-1.112246	0.01799	.	.	ENSG00000176253	ENST00000315693	T	0.36699	1.24	3.46	1.51	0.23008	GPCR, rhodopsin-like superfamily (1);	0.230090	0.21786	U	0.069139	T	0.21631	0.0521	N	0.25060	0.705	0.09310	N	1	B	0.09022	0.002	B	0.12837	0.008	T	0.16305	-1.0407	10	0.33940	T	0.23	.	8.2777	0.31881	0.177:0.6517:0.1713:0.0	.	259	Q8NH42	OR4KD_HUMAN	I	259	ENSP00000319322:V259I	ENSP00000319322:V259I	V	-	1	0	OR4K13	19571983	0.000000	0.05858	0.004000	0.12327	0.003000	0.03518	-1.254000	0.02874	0.137000	0.18759	0.514000	0.50259	GTC		0.403	OR4K13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410344.1			T	20502143	C	T	20502143	3	4	664	1	0	0	0	0	1	0	0	0	11075	536	19	1	141	1	OR4K13	14	20502143	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10		20502143	86847397	681	41991										
TTC5	91875	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	20763923	20763923	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttccagaagttgttgctctcGttgccggggctctggccagg	14	11	2	1	rs199831317		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:20763923G>A	ENST00000258821.3	-	7	843	c.787C>T	c.(787-789)Cga>Tga	p.R263*		NM_138376.2	NP_612385.2	Q8N0Z6	TTC5_HUMAN	tetratricopeptide repeat domain 5	263					DNA repair (GO:0006281)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			endometrium(1)|kidney(2)|large_intestine(3)|lung(7)|ovary(1)|prostate(1)	15	all_cancers(95;0.00092)		Epithelial(56;1.1e-06)|all cancers(55;8.07e-06)	GBM - Glioblastoma multiforme(265;0.0106)		TGTTGCTCTCGTTGCCGGGGC	0.483																																																0																																										SO:0001587	stop_gained	91875			BC008647	CCDS9546.1	14q11.2	2013-01-11			ENSG00000136319	ENSG00000136319		"Tetratricopeptide (TTC) repeat domain containing"	19274	protein-coding gene	gene with protein product						11511361	Standard	NM_138376		Approved	Strap	uc001vwt.3	Q8N0Z6	OTTHUMG00000029506	ENST00000258821.3:c.787C>T	14.37:g.20763923G>A	ENSP00000258821:p.Arg263*	Somatic		WXS	Illumina HiSeq	Phase_I	A8MQ18|Q96HF9	Nonsense_Mutation	SNP	ENST00000258821.3	37	CCDS9546.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	34|34	5.344399|5.344399	0.95807|0.95807	.|.	.|.	ENSG00000136319|ENSG00000136319	ENST00000258821|ENST00000423949	.|.	.|.	.|.	4.94|4.94	4.94|4.94	0.65067|0.65067	.|.	0.058488|.	0.64402|.	D|.	0.000003|.	.|T	.|0.55577	.|0.1929	.|.	.|.	.|.	0.80722|0.80722	A|A	1|1	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.64296	.|-0.6441	.|3	0.07030|.	T|.	0.85|.	.|.	11.1516|11.1516	0.48462|0.48462	0.0:0.0:0.7045:0.2955|0.0:0.0:0.7045:0.2955	.|.	.|.	.|.	.|.	X|M	263|207	.|.	ENSP00000258821:R263X|.	R|T	-|-	1|2	2|0	TTC5|TTC5	19833763|19833763	1.000000|1.000000	0.71417|0.71417	0.990000|0.990000	0.47175|0.47175	0.997000|0.997000	0.91878|0.91878	2.883000|2.883000	0.48554|0.48554	2.459000|2.459000	0.83118|0.83118	0.655000|0.655000	0.94253|0.94253	CGA|ACG		0.483	TTC5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000073529.4	NM_138376		A	20763923	G	A	20763923	4	1	664	1	0	0	0	0	0	1	0	0	16723	1153	40	1	551	1	TTC5	14	20763923	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	261780	20763923	86585617	682	41992										
TEP1	7011	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	20854663	20854663	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggaggtcgattccgtgaaggCtgatacggtgaggggccgct	18	8	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:20854663C>A	ENST00000262715.5	-	19	2844	c.2804G>T	c.(2803-2805)aGc>aTc	p.S935I	TEP1_ENST00000556935.1_Missense_Mutation_p.S827I	NM_007110.4	NP_009041.2	Q99973	TEP1_HUMAN	telomerase-associated protein 1	935					RNA-dependent DNA replication (GO:0006278)|telomere maintenance via recombination (GO:0000722)	chromosome, telomeric region (GO:0000781)|cytoplasm (GO:0005737)|nuclear matrix (GO:0016363)|ribonucleoprotein complex (GO:0030529)|telomerase holoenzyme complex (GO:0005697)	ATP binding (GO:0005524)|RNA binding (GO:0003723)			NS(4)|breast(1)|central_nervous_system(4)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(9)|lung(48)|ovary(7)|pancreas(1)|prostate(2)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	96	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)		TCCGTGAAGGCTGATACGGTG	0.637																																																0													44	39	41					14																	20854663		2203	4300	6503	SO:0001583	missense	7011				CCDS9548.1	14q11.2	2013-01-10			ENSG00000129566	ENSG00000129566		"WD repeat domain containing"	11726	protein-coding gene	gene with protein product	"TROVE domain family, member 1"	601686				9403057	Standard	NM_007110		Approved	TP1, TLP1, VAULT2, p240, TROVE1	uc001vxe.3	Q99973	OTTHUMG00000029515	ENST00000262715.5:c.2804G>T	14.37:g.20854663C>A	ENSP00000262715:p.Ser935Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A0AUV9	Missense_Mutation	SNP	ENST00000262715.5	37	CCDS9548.1	.	.	.	.	.	.	.	.	.	.	C	13.11	2.139513	0.37728	.	.	ENSG00000129566	ENST00000262715;ENST00000359243;ENST00000556935	T;T	0.43294	0.95;0.95	5.21	3.35	0.38373	.	0.534882	0.22064	N	0.065124	T	0.42314	0.1197	L	0.31420	0.93	0.49299	D	0.999771	P;D;P	0.58620	0.815;0.983;0.934	B;P;P	0.56700	0.387;0.804;0.617	T	0.34725	-0.9817	10	0.72032	D	0.01	-7.6996	8.1729	0.31264	0.0:0.4663:0.447:0.0867	.	827;285;935	G3V5X7;G3V2A4;Q99973	.;.;TEP1_HUMAN	I	935;935;827	ENSP00000262715:S935I;ENSP00000452574:S827I	ENSP00000262715:S935I	S	-	2	0	TEP1	19924503	0.948000	0.32251	0.939000	0.37840	0.011000	0.07611	1.342000	0.33919	1.168000	0.42723	-0.176000	0.13171	AGC		0.637	TEP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000073563.2	NM_007110		A	20854663	C	A	20854663	3	1	664	1	0	0	0	0	1	0	0	0	15771	797	28	4	5227	4	TEP1	14	20854663	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	90740	20854663	86494877	683	41993										
OR5AU1	390445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	21623218	21623218	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtagatgacagcaactgtgcGgtcctgggtcaaggagtagc	15	8	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:21623218G>A	ENST00000304418.3	-	1	1004	c.967C>T	c.(967-969)Cgc>Tgc	p.R323C		NM_001004731.1	NP_001004731.1	Q8NGC0	O5AU1_HUMAN	olfactory receptor, family 5, subfamily AU, member 1	323						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(12)|pancreas(1)	21	all_cancers(95;0.00238)		Epithelial(56;6.88e-07)|all cancers(55;6.02e-06)	GBM - Glioblastoma multiforme(265;0.0192)		GCAACTGTGCGGTCCTGGGTC	0.498																																																0													115	107	110					14																	21623218		2203	4300	6503	SO:0001583	missense	390445			AL157687	CCDS32042.1	14q11.2	2013-09-23			ENSG00000169327	ENSG00000169327		"GPCR / Class A : Olfactory receptors"	15362	protein-coding gene	gene with protein product							Standard	NM_001004731		Approved		uc010tlp.2	Q8NGC0	OTTHUMG00000170753	ENST00000304418.3:c.967C>T	14.37:g.21623218G>A	ENSP00000302057:p.Arg323Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP78|Q6IEU2|Q96R10	Missense_Mutation	SNP	ENST00000304418.3	37	CCDS32042.1	.	.	.	.	.	.	.	.	.	.	G	10.17	1.276421	0.23307	.	.	ENSG00000169327	ENST00000304418	T	0.00130	8.69	4.48	0.337	0.15966	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.00271	0.0008	M	0.70787	2.145	0.09310	N	0.999999	D	0.64830	0.994	P	0.58820	0.846	T	0.48864	-0.8997	9	0.87932	D	0	.	0.8644	0.01200	0.288:0.1586:0.3903:0.1631	.	323	Q8NGC0	O5AU1_HUMAN	C	323	ENSP00000302057:R323C	ENSP00000302057:R323C	R	-	1	0	OR5AU1	20693058	0.049000	0.20398	0.105000	0.21289	0.031000	0.12232	0.129000	0.15830	0.505000	0.28104	0.491000	0.48974	CGC		0.498	OR5AU1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410213.1			A	21623218	G	A	21623218	3	1	664	1	0	0	0	0	1	0	0	0	11154	1116	39	1	124	1	OR5AU1	14	21623218	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	768555	21623218	85726322	684	41994										
SUPT16H	11198	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr14	21834651	21834651	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcttctgctttttaaccacGtccatgacagcgttatacac	7	12	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:21834651G>A	ENST00000216297.2	-	8	1331	c.993C>T	c.(991-993)gaC>gaT	p.D331D		NM_007192.3	NP_009123.1	Q9Y5B9	SP16H_HUMAN	suppressor of Ty 16 homolog (S. cerevisiae)	331					DNA repair (GO:0006281)|DNA replication (GO:0006260)|gene expression (GO:0010467)|nucleosome disassembly (GO:0006337)|positive regulation of DNA-templated transcription, elongation (GO:0032786)|positive regulation of viral transcription (GO:0050434)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|viral process (GO:0016032)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			breast(3)|endometrium(4)|kidney(1)|large_intestine(9)|lung(6)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	27	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		TTTTAACCACGTCCATGACAG	0.353																																																0													234	212	219					14																	21834651		2203	4300	6503	SO:0001819	synonymous_variant	11198			AF152961	CCDS9569.1	14q11.1	2008-08-13	2001-11-28		ENSG00000092201	ENSG00000092201			11465	protein-coding gene	gene with protein product	"facilitates chromatin remodeling 140 kDa subunit"	605012	"suppressor of Ty (S.cerevisiae) 16 homolog"			9489704, 11239457	Standard	NM_007192		Approved	FACT, FACTP140, SPT16/CDC68, FLJ14010, FLJ10857, CDC68	uc001wao.2	Q9Y5B9	OTTHUMG00000029685	ENST00000216297.2:c.993C>T	14.37:g.21834651G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6GMT8|Q6P2F1|Q6PJM1|Q9NRX0	Silent	SNP	ENST00000216297.2	37	CCDS9569.1																																																																																				0.353	SUPT16H-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000074025.2			A	21834651	G	A	21834651	2	1	664	1	0	0	0	0	0	0	0	1	15408	1136	40	1		1	SUPT16H	14	21834651	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	211433	21834651	85514889	685	41995										
ACIN1	22985	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr14	23530539	23530539	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcttcttttctttagacttcGcacgttccttgcggcggcgg	10	12	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:23530539G>A	ENST00000262710.1	-	17	3893	c.3566C>T	c.(3565-3567)gCg>gTg	p.A1189V	ACIN1_ENST00000555053.1_Missense_Mutation_p.A1176V|ACIN1_ENST00000357481.2_Missense_Mutation_p.A431V|ACIN1_ENST00000557515.1_Missense_Mutation_p.A430V|ACIN1_ENST00000397341.3_Missense_Mutation_p.A431V|ACIN1_ENST00000338631.6_Missense_Mutation_p.A462V|ACIN1_ENST00000605057.1_Missense_Mutation_p.A1131V|ACIN1_ENST00000457657.1_Missense_Mutation_p.A1149V	NM_001164814.1|NM_014977.3	NP_001158286.1|NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	1189	Arg/Asp/Glu/Lys-rich.				apoptotic chromosome condensation (GO:0030263)|apoptotic process (GO:0006915)|ATP catabolic process (GO:0006200)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|erythrocyte differentiation (GO:0030218)|mRNA processing (GO:0006397)|negative regulation of mRNA splicing, via spliceosome (GO:0048025)|positive regulation of apoptotic process (GO:0043065)|positive regulation of monocyte differentiation (GO:0045657)|RNA splicing (GO:0008380)	ASAP complex (GO:0061574)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATPase activity (GO:0016887)|enzyme binding (GO:0019899)|nucleic acid binding (GO:0003676)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(6)|kidney(4)|large_intestine(9)|lung(10)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	37	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		TTTAGACTTCGCACGTTCCTT	0.562																																																0													185	190	188					14																	23530539		2203	4300	6503	SO:0001583	missense	22985			AB014570	CCDS9587.1, CCDS53887.1, CCDS53888.1, CCDS53889.1, CCDS55905.1	14q11.2	2008-11-25	2004-03-31	2004-04-01	ENSG00000100813	ENSG00000100813			17066	protein-coding gene	gene with protein product	"functional spliceosome-associated protein 152"	604562	"apoptotic chromatin condensation inducer in the nucleus"	ACINUS		9734811, 10490026	Standard	NM_014977		Approved	KIAA0670, fSAP152	uc001wit.4	Q9UKV3	OTTHUMG00000028716	ENST00000262710.1:c.3566C>T	14.37:g.23530539G>A	ENSP00000262710:p.Ala1189Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTT4|D3DS45|O75158|Q9UG91|Q9UKV1|Q9UKV2	Missense_Mutation	SNP	ENST00000262710.1	37	CCDS9587.1	.	.	.	.	.	.	.	.	.	.	G	18.12	3.553228	0.65425	.	.	ENSG00000100813	ENST00000557515;ENST00000338631;ENST00000357481;ENST00000262710;ENST00000457657;ENST00000397341;ENST00000555053	T;T;T;T;T;T;T	0.05513	3.43;3.43;3.43;3.43;3.43;3.43;3.43	4.79	3.89	0.44902	.	0.000000	0.39341	N	0.001387	T	0.04543	0.0124	L	0.34521	1.04	0.37513	D	0.917249	P;P;B;B;B	0.37500	0.597;0.462;0.231;0.022;0.086	B;B;B;B;B	0.22753	0.041;0.018;0.01;0.005;0.005	T	0.50162	-0.8860	10	0.33141	T	0.24	-10.8231	12.5296	0.56106	0.0831:0.0:0.9169:0.0	.	1176;1189;1149;462;431	G3V3M7;Q9UKV3;E7EQT4;Q9UKV3-2;Q9UKV3-3	.;ACINU_HUMAN;.;.;.	V	430;462;431;1189;1149;431;1176	ENSP00000451138:A430V;ENSP00000345541:A462V;ENSP00000350073:A431V;ENSP00000262710:A1189V;ENSP00000405677:A1149V;ENSP00000380502:A431V;ENSP00000451328:A1176V	ENSP00000262710:A1189V	A	-	2	0	ACIN1	22600379	0.968000	0.33430	0.923000	0.36655	0.736000	0.42039	2.188000	0.42612	1.358000	0.45922	0.563000	0.77884	GCG		0.562	ACIN1-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000071707.3	NM_014977		A	23530539	G	A	23530539	3	1	664	1	0	0	0	0	1	0	0	0	142	1087	38	1	471	1	ACIN1	14	23530539	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1695888	23530539	83819001	686	41996										
SLC7A8	23428	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr14	23596496	23596496	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcctctgtccctgagccccGctccacctcggggtacacga	9	19	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:23596496G>A	ENST00000316902.7	-	11	2223	c.1498C>T	c.(1498-1500)Cgg>Tgg	p.R500W	SLC7A8_ENST00000469263.1_Missense_Mutation_p.A282V|SLC7A8_ENST00000453702.1_Missense_Mutation_p.R297W|SLC7A8_ENST00000422941.2_Missense_Mutation_p.R276W|SLC7A8_ENST00000529705.2_Missense_Mutation_p.R395W	NM_012244.3	NP_036376.2	Q9UHI5	LAT2_HUMAN	solute carrier family 7 (amino acid transporter light chain, L system), member 8	500					amino acid transport (GO:0006865)|blood coagulation (GO:0007596)|cellular amino acid metabolic process (GO:0006520)|ion transport (GO:0006811)|leukocyte migration (GO:0050900)|metal ion homeostasis (GO:0055065)|neutral amino acid transport (GO:0015804)|organic cation transport (GO:0015695)|response to toxic substance (GO:0009636)|toxin transport (GO:1901998)|transmembrane transport (GO:0055085)|transport (GO:0006810)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	amino acid transmembrane transporter activity (GO:0015171)|L-amino acid transmembrane transporter activity (GO:0015179)|neutral amino acid transmembrane transporter activity (GO:0015175)|organic cation transmembrane transporter activity (GO:0015101)|peptide antigen binding (GO:0042605)|toxin transporter activity (GO:0019534)			autonomic_ganglia(1)|endometrium(6)|kidney(4)|large_intestine(6)|lung(5)|ovary(1)|skin(1)	24	all_cancers(95;4.6e-05)			GBM - Glioblastoma multiforme(265;0.00809)	L-Alanine(DB00160)|L-DOPA(DB01235)|L-Glutamine(DB00130)|L-Phenylalanine(DB00120)	CCTGAGCCCCGCTCCACCTCG	0.592																																																0													197	149	165					14																	23596496		2203	4300	6503	SO:0001583	missense	23428			Y18483	CCDS9590.1, CCDS41924.1, CCDS58304.1, CCDS58305.1	14q11.2	2013-05-22	2011-07-12		ENSG00000092068	ENSG00000092068		"Solute carriers"	11066	protein-coding gene	gene with protein product		604235				10080183, 10391915	Standard	NM_001267036		Approved	LPI-PC1, LAT2	uc001wiz.4	Q9UHI5	OTTHUMG00000028720	ENST00000316902.7:c.1498C>T	14.37:g.23596496G>A	ENSP00000320378:p.Arg500Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8Q4|B4DKT4|B4DTV6|D3DS46|F2Z2J4|Q86U05|Q9UKQ6|Q9UKQ7|Q9UKQ8|Q9Y445	Missense_Mutation	SNP	ENST00000316902.7	37	CCDS9590.1	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	G|G|G	13.09|13.09|13.09	2.131992|2.131992|2.131992	0.37630|0.37630|0.37630	.|.|.	.|.|.	ENSG00000092068|ENSG00000092068|ENSG00000092068	ENST00000206514|ENST00000469263|ENST00000316902;ENST00000453702;ENST00000529705;ENST00000422941	.|D|D;D;D;D	.|0.92249|0.90385	.|-3.0|-2.66;-2.18;-2.49;-2.16	3.88|3.88|3.88	0.298|0.298|0.298	0.15766|0.15766|0.15766	.|.|.	.|.|1.355130	.|.|0.04310	.|.|N	.|.|0.348721	.|T|T	.|0.81479|0.81479	.|0.4831|0.4831	N|N|N	0.08118|0.08118|0.08118	0|0|0	0.09310|0.09310|0.09310	N|N|N	1|1|1	.|B|D;P;P	.|0.13145|0.53312	.|0.007|0.959;0.927;0.587	.|B|B;B;B	.|0.08055|0.44163	.|0.003|0.443;0.113;0.023	.|T|T	.|0.73148|0.73148	.|-0.4074|-0.4074	.|9|10	.|0.87932|0.66056	.|D|D	.|0|0.02	.|.|.	4.4348|4.4348|4.4348	0.11545|0.11545|0.11545	0.0:0.399:0.3526:0.2484|0.0:0.399:0.3526:0.2484|0.0:0.399:0.3526:0.2484	.|.|.	.|282|395;276;500	.|E9PLV9|B4DKT4;B4DTV6;Q9UHI5	.|.|.;.;LAT2_HUMAN	.|V|W	-1|282|500;297;395;276	.|ENSP00000435114:A282V|ENSP00000320378:R500W;ENSP00000391577:R297W;ENSP00000434345:R395W;ENSP00000416398:R276W	.|ENSP00000435114:A282V|ENSP00000320378:R500W	.|A|R	-|-|-	.|2|1	.|0|2	SLC7A8|SLC7A8|SLC7A8	22666336|22666336|22666336	0.000000|0.000000|0.000000	0.05858|0.05858|0.05858	0.000000|0.000000|0.000000	0.03702|0.03702|0.03702	0.007000|0.007000|0.007000	0.05969|0.05969|0.05969	0.185000|0.185000|0.185000	0.16958|0.16958|0.16958	-0.297000|-0.297000|-0.297000	0.08934|0.08934|0.08934	-0.410000|-0.410000|-0.410000	0.06199|0.06199|0.06199	.|GCG|CGG		0.592	SLC7A8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071718.3			A	23596496	G	A	23596496	3	1	664	1	0	0	0	0	1	0	0	0	14717	1086	38	1	113	1	SLC7A8	14	23596496	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	65957	23596496	83753044	687	41997										
LRRC16B	90668	broad.mit.edu	37	chr14	24529235	24529235	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgacatctcccaagcctatcGcagcgcgcctgagcgcaccg	10	18	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:24529235G>A	ENST00000342740.5	+	23	2079	c.1925G>A	c.(1924-1926)cGc>cAc	p.R642H	LRRC16B_ENST00000334420.7_5'UTR	NM_138360.3	NP_612369.3	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	642						cytoplasm (GO:0005737)				breast(3)|central_nervous_system(2)|cervix(3)|endometrium(7)|kidney(1)|large_intestine(9)|liver(1)|lung(15)|ovary(2)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(4)	52				GBM - Glioblastoma multiforme(265;0.019)		CAAGCCTATCGCAGCGCGCCT	0.657																																																0													142	124	130					14																	24529235		2203	4300	6503	SO:0001583	missense	90668			AI017934	CCDS32054.1	14q11.2-q12	2010-09-10	2008-02-12	2008-02-12					20272	protein-coding gene	gene with protein product		614716	"chromosome 14 open reading frame 121"	C14orf121		19846667	Standard	NM_138360		Approved	BC008134, crml-1, CARMIL3	uc001wlj.2	Q8ND23		ENST00000342740.5:c.1925G>A	14.37:g.24529235G>A	ENSP00000340467:p.Arg642His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TEF7|Q96HS9	Missense_Mutation	SNP	ENST00000342740.5	37	CCDS32054.1	.	.	.	.	.	.	.	.	.	.	G	17.14	3.314513	0.60524	.	.	ENSG00000186648	ENST00000342740	T	0.50001	0.76	4.52	4.52	0.55395	.	0.067934	0.64402	D	0.000013	T	0.36963	0.0986	L	0.53249	1.67	0.80722	D	1	P	0.35011	0.48	B	0.23852	0.049	T	0.41752	-0.9491	10	0.72032	D	0.01	-2.2737	8.3812	0.32472	0.1048:0.0:0.8952:0.0	.	642	Q8ND23	LR16B_HUMAN	H	642	ENSP00000340467:R642H	ENSP00000340467:R642H	R	+	2	0	LRRC16B	23599075	1.000000	0.71417	1.000000	0.80357	0.855000	0.48748	5.311000	0.65786	2.331000	0.79229	0.561000	0.74099	CGC		0.657	LRRC16B-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416527.1	NM_138360		A	24529235	G	A	24529235	3	1	664	1	0	0	0	0	1	0	0	0	8979	1087	38	1	2015	1	LRRC16B	14	24529235	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	932739	24529235	82820305	688	41998										
PSME2	5721	broad.mit.edu	37	chr14	24615753	24615753	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccccattacctgtttgcggGcttccccgctcaggcgcacc	9	18	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:24615753G>A	ENST00000216802.5	-	1	677	c.38C>T	c.(37-39)gCc>gTc	p.A13V	RNF31_ENST00000382687.3_5'Flank|PSME2_ENST00000560410.1_Missense_Mutation_p.A13V|PSME2_ENST00000471700.2_5'UTR|RNF31_ENST00000559275.1_5'Flank|RNF31_ENST00000324103.6_5'Flank	NM_002818.2	NP_002809.2	Q9UL46	PSME2_HUMAN	proteasome (prosome, macropain) activator subunit 2 (PA28 beta)	13					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|cellular nitrogen compound metabolic process (GO:0034641)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|negative regulation of apoptotic process (GO:0043066)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|viral process (GO:0016032)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|proteasome activator complex (GO:0008537)|proteasome complex (GO:0000502)				endometrium(1)|lung(3)|prostate(2)	6				GBM - Glioblastoma multiforme(265;0.00839)		CTGTTTGCGGGCTTCCCCGCT	0.627																																																0													72	70	71					14																	24615753		2203	4300	6503	SO:0001583	missense	5721				CCDS9614.1	14q11.2	2010-03-10			ENSG00000100911	ENSG00000100911		"Proteasome (prosome, macropain) subunits"	9569	protein-coding gene	gene with protein product		602161				7789512	Standard	NM_002818		Approved	PA28beta	uc001wmj.3	Q9UL46	OTTHUMG00000028797	ENST00000216802.5:c.38C>T	14.37:g.24615753G>A	ENSP00000216802:p.Ala13Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q15129	Missense_Mutation	SNP	ENST00000216802.5	37	CCDS9614.1	.	.	.	.	.	.	.	.	.	.	G	17.45	3.392027	0.62066	.	.	ENSG00000100911	ENST00000216802	T	0.42900	0.96	5.22	5.22	0.72569	Proteasome activator pa28, REG alpha subunit (2);	0.421812	0.27004	N	0.021411	T	0.27832	0.0685	N	0.19112	0.55	0.34426	D	0.697993	B	0.06786	0.001	B	0.11329	0.006	T	0.25257	-1.0137	10	0.14656	T	0.56	-30.1892	14.1557	0.65417	0.0:0.0:1.0:0.0	.	13	Q9UL46	PSME2_HUMAN	V	13	ENSP00000216802:A13V	ENSP00000216802:A13V	A	-	2	0	PSME2	23685593	1.000000	0.71417	1.000000	0.80357	0.885000	0.51271	2.980000	0.49321	2.714000	0.92807	0.561000	0.74099	GCC		0.627	PSME2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071918.3	NM_002818		A	24615753	G	A	24615753	3	1	664	1	0	0	0	0	1	0	0	0	12717	1203	42	2	725	2	PSME2	14	24615753	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	86518	24615753	82733787	689	41999										
TSSK4	283629	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr14	24675808	24675808	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcattctggaactggctcagGgtggtgatgtccttgaatgg	14	7	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:24675808G>A	ENST00000287913.6	+	2	487	c.319G>A	c.(319-321)Ggt>Agt	p.G107S	TM9SF1_ENST00000556387.1_Intron|TSSK4_ENST00000428351.2_Intron|TM9SF1_ENST00000530611.1_Intron|TSSK4_ENST00000339917.5_Missense_Mutation_p.G107S|TSSK4_ENST00000556621.1_Missense_Mutation_p.G31S			Q6SA08	TSSK4_HUMAN	testis-specific serine kinase 4	107	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|positive regulation of CREB transcription factor activity (GO:0032793)|protein phosphorylation (GO:0006468)|spermatogenesis (GO:0007283)		ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|protein serine/threonine kinase activity (GO:0004674)			cervix(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(2)	8				GBM - Glioblastoma multiforme(265;0.018)		ACTGGCTCAGGGTGGTGATGT	0.547																																																0													151	128	136					14																	24675808		2203	4300	6503	SO:0001583	missense	283629			AF542390	CCDS9618.1, CCDS53890.1	14q11.2	2006-03-31	2005-03-10	2005-03-12	ENSG00000139908	ENSG00000139908			19825	protein-coding gene	gene with protein product	"chromosome 14 open reading frame 20"	610711	"serine/threonine kinase 22E"	C14orf20, STK22E			Standard	NM_174944		Approved		uc001wnh.3	Q6SA08	OTTHUMG00000029323	ENST00000287913.6:c.319G>A	14.37:g.24675808G>A	ENSP00000287913:p.Gly107Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q2TA60|Q6ZNM2	Missense_Mutation	SNP	ENST00000287913.6	37	CCDS9618.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	15.80|15.80	2.939586|2.939586	0.52972|0.52972	.|.	.|.	ENSG00000139908|ENSG00000139908	ENST00000555092|ENST00000339917;ENST00000556621;ENST00000287913	.|T;T;T	.|0.32988	.|1.43;1.43;1.43	4.97|4.97	4.97|4.97	0.65823|0.65823	.|Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000|0.000000	0.52532|0.52532	D|D	0.000068|0.000068	T|T	0.40272|0.40272	0.1110|0.1110	M|M	0.71206|0.71206	2.165|2.165	0.80722|0.80722	D|D	1|1	.|P;P	.|0.37423	.|0.539;0.594	.|B;P	.|0.45167	.|0.341;0.472	T|T	0.23691|0.23691	-1.0181|-1.0181	6|10	.|0.45353	.|T	.|0.12	.|.	10.7571|10.7571	0.46243|0.46243	0.0:0.0:0.8106:0.1894|0.0:0.0:0.8106:0.1894	.|.	.|107;107	.|Q6SA08-2;Q6SA08	.|.;TSSK4_HUMAN	E|S	101|107;31;107	.|ENSP00000339179:G107S;ENSP00000452054:G31S;ENSP00000287913:G107S	.|ENSP00000287913:G107S	G|G	+|+	2|1	0|0	TSSK4|TSSK4	23745648|23745648	0.486000|0.486000	0.25980|0.25980	1.000000|1.000000	0.80357|0.80357	0.982000|0.982000	0.71751|0.71751	1.702000|1.702000	0.37836|0.37836	2.583000|2.583000	0.87209|0.87209	0.462000|0.462000	0.41574|0.41574	GGG|GGT		0.547	TSSK4-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000073139.3	NM_174944		A	24675808	G	A	24675808	3	1	664	1	0	0	0	0	1	0	0	0	16683	1232	43	2	325	2	TSSK4	14	24675808	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	60055	24675808	82673732	690	42000										
TINF2	26277	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	24709841	24709841	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaaacagcatgactgtggggCgctccttatggcctccccta	11	13	0	1	rs121918544		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:24709841C>T	ENST00000267415.7	-	6	1186	c.845G>A	c.(844-846)cGc>cAc	p.R282H	TINF2_ENST00000559019.1_3'UTR|TINF2_ENST00000558566.1_3'UTR|TINF2_ENST00000399423.4_Missense_Mutation_p.R282H|TINF2_ENST00000558510.1_5'Flank|TINF2_ENST00000540705.1_Missense_Mutation_p.R247H|TINF2_ENST00000538777.1_Missense_Mutation_p.R68H	NM_001099274.1	NP_001092744.1	Q9BSI4	TINF2_HUMAN	TERF1 (TRF1)-interacting nuclear factor 2	282			R -> H (in DKCA3 and DKCA5). {ECO:0000269|PubMed:18252230}.|R -> S (in DKCA3). {ECO:0000269|PubMed:18252230}.		negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of protein ADP-ribosylation (GO:0010836)|negative regulation of telomere maintenance via telomerase (GO:0032211)|positive regulation of telomere maintenance (GO:0032206)|protein localization to chromosome (GO:0034502)|protein localization to chromosome, telomeric region (GO:0070198)|telomere assembly (GO:0032202)|telomere maintenance (GO:0000723)|telomere maintenance via telomere lengthening (GO:0010833)	chromosome, telomeric region (GO:0000781)|nuclear telomere cap complex (GO:0000783)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perinucleolar chromocenter (GO:0010370)	telomeric DNA binding (GO:0042162)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|prostate(1)|urinary_tract(1)	7				GBM - Glioblastoma multiforme(265;0.0185)		GACTGTGGGGCGCTCCTTATG	0.552									Congenital Dyskeratosis;Ataxia Pancytopenia syndrome																																							0			GRCh37	CM080574	TINF2	M	rs121918544						72	69	70					14																	24709841		1959	4153	6112	SO:0001583	missense	26277	Familial Cancer Database	Zinsser-Engman-Cole syndrome, Dyskeratosis Congenita;Myelocerebellar disorder	AF195512	CCDS41936.1, CCDS41937.1	14q12	2008-07-29				ENSG00000092330			11824	protein-coding gene	gene with protein product		604319				10581025, 18252230	Standard	NM_012461		Approved	TIN2	uc001woa.4	Q9BSI4		ENST00000267415.7:c.845G>A	14.37:g.24709841C>T	ENSP00000267415:p.Arg282His	Somatic		WXS	Illumina HiSeq	Phase_I	B3W5Q7|Q9H904|Q9UHC2	Missense_Mutation	SNP	ENST00000267415.7	37	CCDS41936.1	.	.	.	.	.	.	.	.	.	.	C	16.30	3.084034	0.55861	.	.	ENSG00000092330	ENST00000267415;ENST00000540705;ENST00000399423;ENST00000538777	D;D;D;D	0.94184	-2.97;-2.98;-2.96;-3.37	5.16	5.16	0.70880	.	0.338213	0.29002	N	0.013456	D	0.90830	0.7120	M	0.66939	2.045	0.41571	A	0.988685	P;P	0.41710	0.76;0.76	B;B	0.32533	0.147;0.147	D	0.94700	0.7882	9	0.87932	D	0	-14.2187	14.1675	0.65488	0.0:1.0:0.0:0.0	.	247;282	B4DFJ1;Q9BSI4	.;TINF2_HUMAN	H	282;247;282;68	ENSP00000267415:R282H;ENSP00000442154:R247H;ENSP00000382350:R282H;ENSP00000437495:R68H	ENSP00000267415:R282H	R	-	2	0	TINF2	23779681	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	3.482000	0.53186	2.404000	0.81709	0.462000	0.41574	CGC		0.552	TINF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415406.2			T	24709841	C	T	24709841	3	4	664	1	0	0	0	0	1	0	0	0	15935	768	27	1	530	1	TINF2	14	24709841	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	34033	24709841	82639699	691	42001										
NYNRIN	57523	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	24877295	24877295	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctggaggagctggtggggcGactgcgctggggccctgccc	20	12	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:24877295G>A	ENST00000382554.3	+	3	737	c.419G>A	c.(418-420)cGa>cAa	p.R140Q		NM_025081.2	NP_079357.2	Q9P2P1	NYNRI_HUMAN	NYN domain and retroviral integrase containing	140					DNA integration (GO:0015074)	integral component of membrane (GO:0016021)	nucleic acid binding (GO:0003676)	p.R140Q(1)		breast(3)|central_nervous_system(1)|endometrium(7)|kidney(6)|large_intestine(8)|lung(21)|ovary(2)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	56						CTGGTGGGGCGACTGCGCTGG	0.682																																																1	Substitution - Missense(1)	prostate(1)											34	40	38					14																	24877295		2027	4175	6202	SO:0001583	missense	57523			AB037726	CCDS45090.1	14q11.2	2009-10-14	2009-10-14	2009-10-14		ENSG00000205978			20165	protein-coding gene	gene with protein product	"Cousin of GIN1"		"KIAA1305"	KIAA1305		19561090, 17114934	Standard	NM_025081		Approved	FLJ11811, CGIN1	uc001wpf.4	Q9P2P1		ENST00000382554.3:c.419G>A	14.37:g.24877295G>A	ENSP00000371994:p.Arg140Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P153|Q86TR3|Q9HAC4	Missense_Mutation	SNP	ENST00000382554.3	37	CCDS45090.1	.	.	.	.	.	.	.	.	.	.	G	19.82	3.897699	0.72639	.	.	ENSG00000205978	ENST00000382554	T	0.14640	2.49	4.93	4.04	0.47022	.	0.120816	0.27262	N	0.020170	T	0.14270	0.0345	M	0.65975	2.015	0.25000	N	0.991479	B	0.29612	0.251	B	0.21917	0.037	T	0.20273	-1.0280	10	0.87932	D	0	.	7.2114	0.25935	0.194:0.0:0.806:0.0	.	140	Q9P2P1	NYNRI_HUMAN	Q	140	ENSP00000371994:R140Q	ENSP00000371994:R140Q	R	+	2	0	NYNRIN	23947135	0.838000	0.29461	0.923000	0.36655	0.905000	0.53344	2.990000	0.49401	1.297000	0.44761	0.563000	0.77884	CGA		0.682	NYNRIN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412939.1			A	24877295	G	A	24877295	3	1	664	1	0	0	0	0	1	0	0	0	10803	1058	37	1	425	1	NYNRIN	14	24877295	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	167454	24877295	82472245	692	42002										
NYNRIN	57523	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr14	24879316	24879316	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accagcttccagaggtaccaCgaggccctgaatacaccctt	8	15	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:24879316C>T	ENST00000382554.3	+	4	2634	c.2316C>T	c.(2314-2316)caC>caT	p.H772H		NM_025081.2	NP_079357.2	Q9P2P1	NYNRI_HUMAN	NYN domain and retroviral integrase containing	772					DNA integration (GO:0015074)	integral component of membrane (GO:0016021)	nucleic acid binding (GO:0003676)			breast(3)|central_nervous_system(1)|endometrium(7)|kidney(6)|large_intestine(8)|lung(21)|ovary(2)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	56						AGAGGTACCACGAGGCCCTGA	0.627																																																0													47	52	50					14																	24879316		2105	4231	6336	SO:0001819	synonymous_variant	57523			AB037726	CCDS45090.1	14q11.2	2009-10-14	2009-10-14	2009-10-14		ENSG00000205978			20165	protein-coding gene	gene with protein product	"Cousin of GIN1"		"KIAA1305"	KIAA1305		19561090, 17114934	Standard	NM_025081		Approved	FLJ11811, CGIN1	uc001wpf.4	Q9P2P1		ENST00000382554.3:c.2316C>T	14.37:g.24879316C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6P153|Q86TR3|Q9HAC4	Silent	SNP	ENST00000382554.3	37	CCDS45090.1																																																																																				0.627	NYNRIN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412939.1			T	24879316	C	T	24879316	2	4	664	1	0	0	0	0	0	0	0	1	10803	535	19	1		1	NYNRIN	14	24879316	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2021	24879316	82470224	693	42003										
HECTD1	25831	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	31609189	31609189	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctattaactttcgaattaacGcaactgctggtcgactgcga	8	10	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:31609189G>A	ENST00000399332.1	-	19	3376	c.2888C>T	c.(2887-2889)gCg>gTg	p.A963V	HECTD1_ENST00000553700.1_Missense_Mutation_p.A963V|RNU6-541P_ENST00000384709.1_RNA	NM_015382.2	NP_056197.2	Q9ULT8	HECD1_HUMAN	HECT domain containing E3 ubiquitin protein ligase 1	963					neural tube closure (GO:0001843)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ligase activity (GO:0016874)|metal ion binding (GO:0046872)|ubiquitin-protein transferase activity (GO:0004842)	p.A963_V971delALIRKLIAV(1)		breast(10)|endometrium(7)|kidney(5)|large_intestine(12)|lung(23)|ovary(4)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	70	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)		TCGAATTAACGCAACTGCTGG	0.338																																																1	Deletion - In frame(1)	breast(1)											123	115	118					14																	31609189		1825	4090	5915	SO:0001583	missense	25831			AB032957	CCDS41939.1	14q12	2013-01-10	2012-02-23		ENSG00000092148	ENSG00000092148		"Ankyrin repeat domain containing"	20157	protein-coding gene	gene with protein product			"HECT domain containing 1"			10574461	Standard	XM_005267502		Approved	KIAA1131	uc001wrc.1	Q9ULT8	OTTHUMG00000170670	ENST00000399332.1:c.2888C>T	14.37:g.31609189G>A	ENSP00000382269:p.Ala963Val	Somatic		WXS	Illumina HiSeq	Phase_I	D3DS86|Q6P445|Q86VJ1|Q96F34|Q9UFZ7	Missense_Mutation	SNP	ENST00000399332.1	37	CCDS41939.1	.	.	.	.	.	.	.	.	.	.	G	13.06	2.125292	0.37533	.	.	ENSG00000092148	ENST00000553700;ENST00000261312;ENST00000399332;ENST00000553957	T;T;T	0.41400	1.0;1.0;1.5	5.89	5.01	0.66863	Armadillo-type fold (1);	0.000000	0.64402	U	0.000001	T	0.25082	0.0609	L	0.27053	0.805	0.80722	D	1	P;B	0.40250	0.709;0.008	B;B	0.30251	0.113;0.002	T	0.05666	-1.0871	10	0.11182	T	0.66	-13.4886	14.9607	0.71156	0.0681:0.0:0.9319:0.0	.	963;963	D3DS86;Q9ULT8	.;HECD1_HUMAN	V	963;965;963;437	ENSP00000450697:A963V;ENSP00000382269:A963V;ENSP00000451860:A437V	ENSP00000261312:A965V	A	-	2	0	HECTD1	30678940	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	7.738000	0.84966	1.506000	0.48736	0.655000	0.94253	GCG		0.338	HECTD1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409942.1			A	31609189	G	A	31609189	3	1	664	1	0	0	0	0	1	0	0	0	7046	1087	38	1	5044	1	HECTD1	14	31609189	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6729873	31609189	75740351	694	42004										
NPAS3	64067	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr14	34145548	34145548	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcactgctgaggacggagcCagctcagcatcttcctcctc	11	15	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:34145548C>T	ENST00000356141.4	+	6	690	c.690C>T	c.(688-690)gcC>gcT	p.A230A	NPAS3_ENST00000551492.1_Silent_p.A235A|NPAS3_ENST00000346562.2_Silent_p.A198A|NPAS3_ENST00000551008.1_Silent_p.A128A|NPAS3_ENST00000548645.1_Silent_p.A200A|NPAS3_ENST00000357798.5_Silent_p.A217A|NPAS3_ENST00000547068.1_Silent_p.A126A|NPAS3_ENST00000341321.4_Silent_p.A230A			Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3	230					locomotory behavior (GO:0007626)|maternal behavior (GO:0042711)|positive regulation of transcription, DNA-templated (GO:0045893)|startle response (GO:0001964)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|signal transducer activity (GO:0004871)			breast(4)|endometrium(3)|kidney(1)|large_intestine(6)|liver(2)|lung(14)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	40	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		AGGACGGAGCCAGCTCAGCAT	0.622																																																0													56	54	55					14																	34145548		2203	4300	6503	SO:0001819	synonymous_variant	64067			AF164438	CCDS9645.1, CCDS53891.1, CCDS53892.1, CCDS55912.1	14q13.1	2013-08-23			ENSG00000151322	ENSG00000151322		"Basic helix-loop-helix proteins"	19311	protein-coding gene	gene with protein product		609430					Standard	NM_022123		Approved	MOP6, PASD6, bHLHe12	uc001wru.3	Q8IXF0	OTTHUMG00000140215	ENST00000356141.4:c.690C>T	14.37:g.34145548C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q86US6|Q86US7|Q8IXF2|Q9BY81|Q9H323|Q9Y4L8	Silent	SNP	ENST00000356141.4	37	CCDS53891.1																																																																																				0.622	NPAS3-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000276645.1			T	34145548	C	T	34145548	2	4	664	1	0	0	0	0	0	0	0	1	10571	581	21	2		2	NPAS3	14	34145548	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2536359	34145548	73203992	695	42005										
SDCCAG1	9147	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr14	50272839	50272839	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttcagtcaaggtccgtgggGggatgggttctcctagaata	14	8	3	1	rs374912149		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:50272839G>A	ENST00000298310.5	-	19	2206	c.1757C>T	c.(1756-1758)cCc>cTc	p.P586L	NEMF_ENST00000556925.1_5'UTR|NEMF_ENST00000546046.1_Missense_Mutation_p.P565L|NEMF_ENST00000545773.1_Missense_Mutation_p.P544L			O60524	NEMF_HUMAN	nuclear export mediator factor	586					nuclear export (GO:0051168)	nucleus (GO:0005634)				breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(13)|liver(1)|lung(9)|prostate(1)|skin(1)|urinary_tract(1)	36						GGTCCGTGGGGGGATGGGTTC	0.473																																																0								G	LEU/PRO	0,4406		0,0,2203	97	81	86		1757	6	1	14		86	1,8599		0,1,4299	no	missense	NEMF	NM_004713.3	98	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	586/1077	50272839	1,13005	2203	4300	6503	SO:0001583	missense	9147			AF039687	CCDS9694.1	14q21.3	2012-11-19	2011-01-31	2011-01-31	ENSG00000165525	ENSG00000165525			10663	protein-coding gene	gene with protein product		608378	"serologically defined colon cancer antigen 1"	SDCCAG1		9610721, 10575219	Standard	XR_429334		Approved	NY-CO-1, FLJ10051	uc001wxc.3	O60524	OTTHUMG00000170857	ENST00000298310.5:c.1757C>T	14.37:g.50272839G>A	ENSP00000298310:p.Pro586Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A0JLQ3|B3KSK1|B4DDL3|B4DHA9|B4E3F3|Q32Q66|Q8WW70|Q9NWG1	Missense_Mutation	SNP	ENST00000298310.5	37	CCDS9694.1	.	.	.	.	.	.	.	.	.	.	G	33	5.237392	0.95240	0.0	1.16E-4	ENSG00000165525	ENST00000298310;ENST00000545773;ENST00000546046;ENST00000534912;ENST00000555970	T;T;T;T	0.59083	0.29;0.36;0.45;0.36	6.01	6.01	0.97437	Domain of unknown function DUF814 (1);	0.000000	0.85682	D	0.000000	D	0.83454	0.5258	M	0.93720	3.45	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.91635	0.996;0.997;0.999;0.999	D	0.86229	0.1636	10	0.66056	D	0.02	-9.9353	20.1162	0.97934	0.0:0.0:1.0:0.0	.	565;561;544;586	O60524-3;O60524-5;O60524-4;O60524	.;.;.;NEMF_HUMAN	L	586;544;565;358;544	ENSP00000298310:P586L;ENSP00000438309:P544L;ENSP00000441016:P565L;ENSP00000452540:P544L	ENSP00000298310:P586L	P	-	2	0	NEMF	49342589	1.000000	0.71417	0.969000	0.41365	0.983000	0.72400	8.734000	0.91543	2.861000	0.98227	0.650000	0.86243	CCC		0.473	NEMF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410798.1	NM_004713		A	50272839	G	A	50272839	3	1	664	1	0	0	0	0	1	0	0	0	13970	1232	43	2	1533	2	SDCCAG1	14	50272839	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	16127291	50272839	57076701	696	42006										
NIN	51199	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	51245506	51245506	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccgcttcatactcctcactgCgttgcgtcttccagtgctag	8	15	3	0	rs190295991	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:51245506C>T	ENST00000382041.3	-	6	642	c.452G>A	c.(451-453)cGc>cAc	p.R151H	NIN_ENST00000382043.4_Missense_Mutation_p.R151H|NIN_ENST00000245441.5_Missense_Mutation_p.R151H|NIN_ENST00000453196.1_Missense_Mutation_p.R151H|NIN_ENST00000530997.2_Missense_Mutation_p.R151H|NIN_ENST00000389868.3_Missense_Mutation_p.R151H|NIN_ENST00000324330.9_Missense_Mutation_p.R151H	NM_016350.4|NM_182946.1	NP_057434.4|NP_891991	Q8N4C6	NIN_HUMAN	ninein (GSK3B interacting protein)	151					centrosome localization (GO:0051642)|centrosome-templated microtubule nucleation (GO:0090222)|microtubule anchoring at centrosome (GO:0034454)	centriole (GO:0005814)|centrosome (GO:0005813)|microtubule (GO:0005874)|nucleolus (GO:0005730)|spindle pole (GO:0000922)	calcium ion binding (GO:0005509)|GTP binding (GO:0005525)			breast(4)|central_nervous_system(1)|cervix(2)|endometrium(10)|kidney(5)|large_intestine(13)|lung(16)|ovary(1)|pancreas(1)|prostate(5)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(5)	71	all_epithelial(31;0.00244)|Breast(41;0.127)					CTCCTCACTGCGTTGCGTCTT	0.512			T	PDGFRB	MPD								C|||	3	0.000599042	0.0	0.0	5008	,	,		18810	0.003		0.0	False		,,,				2504	0.0						Dom	yes		14	14q24	51199	ninein (GSK3B interacting protein)		L	0								C	HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG	0,4406		0,0,2203	133	108	117		452,452,452,452	-5.1	0	14		117	2,8598	2.2+/-6.3	0,2,4298	yes	missense,missense,missense,missense	NIN	NM_016350.4,NM_020921.3,NM_182944.2,NM_182946.1	29,29,29,29	0,2,6501	TT,TC,CC		0.0233,0.0,0.0154	benign,benign,benign,benign	151/1378,151/2134,151/2047,151/2091	51245506	2,13004	2203	4300	6503	SO:0001583	missense	51199			AF212162	CCDS32078.1, CCDS32079.1, CCDS32078.2	14q21-q22	2013-01-10			ENSG00000100503	ENSG00000100503		"EF-hand domain containing"	14906	protein-coding gene	gene with protein product		608684				11004522, 11162463	Standard	NM_020921		Approved		uc001wyi.3	Q8N4C6	OTTHUMG00000029569	ENST00000382041.3:c.452G>A	14.37:g.51245506C>T	ENSP00000371472:p.Arg151His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDB8|B7WPA3|C9JSB6|C9JSG2|C9JXL2|Q5BKU3|Q6P0P6|Q9BWU6|Q9C012|Q9C013|Q9C014|Q9H5I6|Q9HAT7|Q9HBY5|Q9HCK7|Q9UH61	Missense_Mutation	SNP	ENST00000382041.3	37	CCDS32079.1	3	0.0013736263736263737	0	0.0	0	0.0	3	0.005244755244755245	0	0.0	C	15.77	2.930127	0.52759	0.0	2.33E-4	ENSG00000100503	ENST00000245441;ENST00000311149;ENST00000389868;ENST00000382043;ENST00000324292;ENST00000382041;ENST00000324330;ENST00000453196;ENST00000453401	T;T;T;T;T;T;T	0.22743	1.94;1.94;1.94;1.94;1.94;1.94;1.94	5.3	-5.11	0.02901	.	0.773947	0.12806	N	0.437624	T	0.04588	0.0125	N	0.03115	-0.41	0.09310	N	0.999999	B;B;B;B;B	0.16166	0.01;0.016;0.007;0.0;0.006	B;B;B;B;B	0.06405	0.002;0.002;0.002;0.0;0.001	T	0.29366	-1.0014	10	0.33141	T	0.24	3.2268	7.5949	0.28041	0.0:0.2535:0.2088:0.5377	.	157;151;151;151;151	Q8N4C6-5;C9J066;Q8N4C6;Q5BKU3;Q8N4C6-7	.;.;NIN_HUMAN;.;.	H	151;151;151;151;157;151;151;151;113	ENSP00000245441:R151H;ENSP00000374518:R151H;ENSP00000371474:R151H;ENSP00000371472:R151H;ENSP00000324210:R151H;ENSP00000412391:R151H;ENSP00000398641:R113H	ENSP00000245441:R151H	R	-	2	0	NIN	50315256	0.000000	0.05858	0.012000	0.15200	0.841000	0.47740	-1.605000	0.02074	-0.845000	0.04179	-0.345000	0.07892	CGC		0.512	NIN-016	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000395207.2	NM_182946		T	51245506	C	T	51245506	3	4	664	1	0	0	0	0	1	0	0	0	10424	768	27	1	6201	1	NIN	14	51245506	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	972667	51245506	56104034	697	42007										
GPR137C	283554	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr14	53100600	53100600	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gttccagagcttactttttcGacaatccaagacgatatgat	7	9	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:53100600G>A	ENST00000321662.6	+	6	1048	c.1048G>A	c.(1048-1050)Gac>Aac	p.D350N		NM_001099652.1	NP_001093122.1	Q8N3F9	G137C_HUMAN	G protein-coupled receptor 137C	350						integral component of membrane (GO:0016021)				NS(1)|kidney(1)|large_intestine(1)|lung(3)|ovary(1)|prostate(1)	8	Breast(41;0.0716)					TTACTTTTTCGACAATCCAAG	0.393																																																0													121	115	117					14																	53100600		1896	4119	6015	SO:0001583	missense	283554			BX647179	CCDS45106.1	14q22.1	2012-08-10				ENSG00000180998			25445	protein-coding gene	gene with protein product							Standard	NM_001099652		Approved	DKFZp762F0713, TM7SF1L2	uc001wzu.4	Q8N3F9		ENST00000321662.6:c.1048G>A	14.37:g.53100600G>A	ENSP00000315106:p.Asp350Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q86SM2	Missense_Mutation	SNP	ENST00000321662.6	37	CCDS45106.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	33|33	5.280854|5.280854	0.95489|0.95489	.|.	.|.	ENSG00000180998|ENSG00000180998	ENST00000321662|ENST00000542169	T|.	0.60797|.	0.16|.	5.55|5.55	5.55|5.55	0.83447|0.83447	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.72028|0.72028	0.3410|0.3410	L|L	0.53561|0.53561	1.675|1.675	0.80722|0.80722	D|D	1|1	D;D|.	0.89917|.	1.0;1.0|.	D;D|.	0.87578|.	0.998;0.998|.	T|T	0.67476|0.67476	-0.5661|-0.5661	10|5	0.45353|.	T|.	0.12|.	-19.2591|-19.2591	19.8667|19.8667	0.96806|0.96806	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	350;179|.	Q8N3F9;B3KW22|.	G137C_HUMAN;.|.	N|Q	350|319	ENSP00000315106:D350N|.	ENSP00000315106:D350N|.	D|R	+|+	1|2	0|0	GPR137C|GPR137C	52170350|52170350	1.000000|1.000000	0.71417|0.71417	0.988000|0.988000	0.46212|0.46212	0.988000|0.988000	0.76386|0.76386	9.174000|9.174000	0.94824|0.94824	2.773000|2.773000	0.95371|0.95371	0.655000|0.655000	0.94253|0.94253	GAC|CGA		0.393	GPR137C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411685.1	XM_290615		A	53100600	G	A	53100600	3	1	664	1	0	0	0	0	1	0	0	0	6654	1058	37	1	1070	1	GPR137C	14	53100600	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1855094	53100600	54248940	698	42008										
SYT16	83851	broad.mit.edu;bcgsc.ca	37	chr14	62463128	62463128	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaattgggccagtgatgacCgcaagttaccacatgtgctt	10	11	0	2	rs533386682		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:62463128C>T	ENST00000430451.2	+	1	588	c.391C>T	c.(391-393)Cgc>Tgc	p.R131C	SYT16_ENST00000446982.2_Missense_Mutation_p.R131C	NM_031914.2	NP_114120.2	Q17RD7	SYT16_HUMAN	synaptotagmin XVI	131			R -> L (in dbSNP:rs17099370). {ECO:0000269|PubMed:15238157}.		exocytosis (GO:0006887)					central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(11)|lung(12)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	35				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		CAGTGATGACCGCAAGTTACC	0.502													C|||	1	0.000199681	0.0	0.0	5008	,	,		20897	0.0		0.0	False		,,,				2504	0.001															0													131	122	125					14																	62463128		1905	4122	6027	SO:0001583	missense	83851			BC040924	CCDS45121.1	14q23.2	2014-07-02	2005-07-15	2005-07-15	ENSG00000139973	ENSG00000139973		"Synaptotagmins"	23142	protein-coding gene	gene with protein product	"synaptotagmin XIV-related", " chr14 synaptotagmin"	610950	"synaptotagmin XIV-like"	SYT14L		11543631	Standard	NM_031914		Approved	yt14r, CHR14SYT, Strep14	uc001xfu.1	Q17RD7	OTTHUMG00000171106	ENST00000430451.2:c.391C>T	14.37:g.62463128C>T	ENSP00000394700:p.Arg131Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZH2|B7ZL60|C9J8I3|Q707N2|Q7Z441|Q8IUU0|Q9BQR8	Missense_Mutation	SNP	ENST00000430451.2	37	CCDS45121.1	.	.	.	.	.	.	.	.	.	.	C	4.550	0.102148	0.08731	.	.	ENSG00000139973	ENST00000446982;ENST00000430451	T;T	0.32272	1.46;3.72	5.45	4.54	0.55810	.	0.450724	0.18822	N	0.130228	T	0.13329	0.0323	N	0.08118	0	0.09310	N	1	P;P	0.41978	0.61;0.767	B;B	0.36885	0.235;0.183	T	0.05716	-1.0868	10	0.38643	T	0.18	-9.7901	5.7569	0.18178	0.1541:0.6415:0.1314:0.0729	.	131;131	B4DZH2;Q17RD7	.;SYT16_HUMAN	C	131	ENSP00000388023:R131C;ENSP00000394700:R131C	ENSP00000394700:R131C	R	+	1	0	SYT16	61532881	0.002000	0.14202	0.264000	0.24511	0.256000	0.26092	0.467000	0.22035	1.455000	0.47813	0.655000	0.94253	CGC		0.502	SYT16-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000411700.1	NM_031914		T	62463128	C	T	62463128	3	4	664	1	0	0	0	0	1	0	0	0	15484	652	23	1	393	1	SYT16	14	62463128	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	9362528	62463128	44886412	699	42009										
ZFYVE1	53349	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	73441651	73441651	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgttatctttaaaggacgtcGcacacttgttgcagctctgt	9	10	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:73441651G>A	ENST00000556143.1	-	10	2543	c.1823C>T	c.(1822-1824)gCg>gTg	p.A608V	ZFYVE1_ENST00000394207.2_Missense_Mutation_p.A193V|ZFYVE1_ENST00000555072.1_Missense_Mutation_p.A193V|ZFYVE1_ENST00000554145.1_5'UTR|ZFYVE1_ENST00000318876.5_Missense_Mutation_p.A594V|ZFYVE1_ENST00000553891.1_Missense_Mutation_p.A608V	NM_001281735.1|NM_021260.2	NP_001268664.1|NP_067083.1	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1	608					negative regulation of phosphatase activity (GO:0010923)	autophagic vacuole (GO:0005776)|endoplasmic reticulum (GO:0005783)|ER-mitochondrion membrane contact site (GO:0044233)|Golgi stack (GO:0005795)|perinuclear region of cytoplasm (GO:0048471)|pre-autophagosomal structure (GO:0000407)	1-phosphatidylinositol binding (GO:0005545)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(17)|ovary(1)|prostate(2)|skin(1)	35		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		AAAGGACGTCGCACACTTGTT	0.527																																																0													81	77	78					14																	73441651		2203	4300	6503	SO:0001583	missense	53349			AF251025	CCDS9811.1, CCDS41969.1, CCDS61498.1	14q24.2	2014-06-13	2003-02-28	2003-03-07		ENSG00000165861		"Zinc fingers, FYVE domain containing"	13180	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 172"	605471	"zinc finger protein, subfamily 2A (FYVE domain containing), 1"	ZNFN2A1		11024279, 11256955	Standard	NM_021260		Approved	DFCP1, KIAA1589, TAFF1, PPP1R172	uc001xnm.3	Q9HBF4		ENST00000556143.1:c.1823C>T	14.37:g.73441651G>A	ENSP00000450742:p.Ala608Val	Somatic		WXS	Illumina HiSeq	Phase_I	J3KNL9|Q8WYX7|Q96K57|Q9BXP9|Q9HCI3	Missense_Mutation	SNP	ENST00000556143.1	37	CCDS9811.1	.	.	.	.	.	.	.	.	.	.	G	14.80	2.644266	0.47258	.	.	ENSG00000165861	ENST00000553891;ENST00000318876;ENST00000556143;ENST00000394207;ENST00000555072	T;T;T;T;T	0.76968	-1.06;-1.06;-1.06;-1.06;-1.06	6.17	4.3	0.51218	Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, FYVE-type (2);Zinc finger, FYVE-related (1);Zinc finger, FYVE/PHD-type (1);	0.753997	0.13519	N	0.381842	T	0.65842	0.2730	L	0.34521	1.04	0.09310	N	0.999998	B;B	0.31256	0.316;0.126	B;B	0.24006	0.05;0.041	T	0.56932	-0.7897	10	0.54805	T	0.06	-12.6079	9.4951	0.38984	0.0:0.2226:0.4171:0.3602	.	608;608	G3V5N8;Q9HBF4	.;ZFYV1_HUMAN	V	608;594;608;193;193	ENSP00000452442:A608V;ENSP00000326921:A594V;ENSP00000450742:A608V;ENSP00000377757:A193V;ENSP00000452232:A193V	ENSP00000326921:A608V	A	-	2	0	ZFYVE1	72511404	0.793000	0.28825	1.000000	0.80357	0.994000	0.84299	1.786000	0.38694	0.880000	0.35969	0.655000	0.94253	GCG		0.527	ZFYVE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413172.1	NM_021260		A	73441651	G	A	73441651	3	1	664	1	0	0	0	0	1	0	0	0	17675	1087	38	1	522	1	ZFYVE1	14	73441651	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	10978523	73441651	33907889	700	42010										
RBM25	58517	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	73570174	73570174	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcagatcgtaataaggatcGcagtcgatcaaggtaaggct	11	8	2	1	rs202176813		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:73570174G>A	ENST00000261973.7	+	10	1427	c.1142G>A	c.(1141-1143)cGc>cAc	p.R381H	RBM25_ENST00000527432.1_Missense_Mutation_p.R381H	NM_021239.2	NP_067062.1	P49756	RBM25_HUMAN	RNA binding motif protein 25	381	Arg-rich.|Glu-rich.|Necessary for nuclear speckle localization.				mRNA processing (GO:0006397)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|regulation of apoptotic process (GO:0042981)|RNA splicing (GO:0008380)	cytoplasm (GO:0005737)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)	mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(2)|central_nervous_system(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(7)|lung(6)|ovary(2)|pancreas(1)	31				BRCA - Breast invasive adenocarcinoma(234;0.00362)|OV - Ovarian serous cystadenocarcinoma(108;0.0688)		AATAAGGATCGCAGTCGATCA	0.468																																																0													73	64	67					14																	73570174		2203	4300	6503	SO:0001583	missense	58517			BX647116	CCDS32113.1	14q24.3	2013-02-12	2004-04-23	2004-04-29	ENSG00000119707	ENSG00000119707		"RNA binding motif (RRM) containing"	23244	protein-coding gene	gene with protein product	"functional spliceosome-associated protein 94"	612427	"RNA-binding region (RNP1, RRM) containing 7"	RNPC7		9847074, 7596406	Standard	NM_021239		Approved	S164, fSAP94, NET52, Snu71	uc001xno.3	P49756	OTTHUMG00000167540	ENST00000261973.7:c.1142G>A	14.37:g.73570174G>A	ENSP00000261973:p.Arg381His	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJL9|B2RNA8|B3KT03|Q2TA72|Q5XJ17|Q6P665|Q9H6A1|Q9UEQ5|Q9UIE9	Missense_Mutation	SNP	ENST00000261973.7	37	CCDS32113.1	.	.	.	.	.	.	.	.	.	.	G	16.73	3.205316	0.58234	.	.	ENSG00000119707	ENST00000261973;ENST00000527432	T;T	0.15952	2.38;2.38	5.75	5.75	0.90469	.	0.053390	0.85682	D	0.000000	T	0.14787	0.0357	L	0.34521	1.04	0.80722	D	1	P	0.42483	0.781	B	0.35240	0.198	T	0.01706	-1.1291	10	0.46703	T	0.11	.	17.7126	0.88326	0.0:0.0:1.0:0.0	.	381	P49756	RBM25_HUMAN	H	381	ENSP00000261973:R381H;ENSP00000431150:R381H	ENSP00000261973:R381H	R	+	2	0	RBM25	72639927	1.000000	0.71417	0.999000	0.59377	0.976000	0.68499	8.547000	0.90665	2.712000	0.92718	0.655000	0.94253	CGC		0.468	RBM25-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394966.1	XM_027330		A	73570174	G	A	73570174	3	1	664	1	0	0	0	0	1	0	0	0	13138	1087	38	1	1176	1	RBM25	14	73570174	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	128523	73570174	33779366	701	42011										
YLPM1	56252	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	75302098	75302098	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggctgaaaaagccctcaatcGaaccaaatatatatgagact	7	9	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:75302098G>A	ENST00000552421.1	+	19	4431	c.4307G>A	c.(4306-4308)cGa>cAa	p.R1436Q	YLPM1_ENST00000325680.7_Missense_Mutation_p.R2142Q			P49750	YLPM1_HUMAN	YLP motif containing 1	1947					regulation of telomere maintenance (GO:0032204)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)			breast(4)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(12)|lung(24)|ovary(3)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(1)	62			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		GCCCTCAATCGAACCAAATAT	0.413																																																0													96	97	97					14																	75302098		1872	4103	5975	SO:0001583	missense	56252			AK090435	CCDS45135.1	14q24.3	2014-06-13	2004-07-15	2004-07-15	ENSG00000119596	ENSG00000119596			17798	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 169"		"chromosome 14 open reading frame 170"	C14orf170		7596406	Standard	NM_019589		Approved	ZAP, PPP1R169	uc001xqj.4	P49750	OTTHUMG00000172503	ENST00000552421.1:c.4307G>A	14.37:g.75302098G>A	ENSP00000447921:p.Arg1436Gln	Somatic		WXS	Illumina HiSeq	Phase_I	P49752|Q96I64|Q9P1V7	Missense_Mutation	SNP	ENST00000552421.1	37		.	.	.	.	.	.	.	.	.	.	G	21.6	4.179110	0.78564	.	.	ENSG00000119596	ENST00000552421;ENST00000325680	T;T	0.36699	1.24;1.24	5.9	5.9	0.94986	.	0.000000	0.64402	D	0.000018	T	0.49626	0.1568	N	0.24115	0.695	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.45293	-0.9271	10	0.46703	T	0.11	-8.0289	20.2768	0.98488	0.0:0.0:1.0:0.0	.	2142	P49750-4	.	Q	1436;2142	ENSP00000447921:R1436Q;ENSP00000324463:R2142Q	ENSP00000324463:R2142Q	R	+	2	0	YLPM1	74371851	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.869000	0.99810	2.797000	0.96272	0.655000	0.94253	CGA		0.413	YLPM1-008	NOVEL	not_organism_supported|basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000404450.1	NM_019589		A	75302098	G	A	75302098	3	1	664	1	0	0	0	0	1	0	0	0	17498	1058	37	1	6503	1	YLPM1	14	75302098	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1731924	75302098	32047442	702	42012										
NEK9	91754	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	75555313	75555313	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgagaggagatgggctgtcaGgcatggggataaattctgca	16	5	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:75555313G>T	ENST00000238616.5	-	20	2632	c.2474C>A	c.(2473-2475)cCt>cAt	p.P825H		NM_033116.4	NP_149107.4	Q8TD19	NEK9_HUMAN	NIMA-related kinase 9	825	Interaction with NEK6.|Pro/Ser/Thr-rich.				mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic nuclear envelope disassembly (GO:0007077)	cytosol (GO:0005829)|nucleus (GO:0005634)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)			endometrium(4)|kidney(2)|large_intestine(4)|lung(13)|ovary(1)|prostate(2)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)	31				BRCA - Breast invasive adenocarcinoma(234;0.00718)		TGGGCTGTCAGGCATGGGGAT	0.448											OREG0022811	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													103	94	97					14																	75555313		2203	4300	6503	SO:0001583	missense	91754			AY048580	CCDS9839.1	14q24.2	2012-11-15	2012-11-15		ENSG00000119638	ENSG00000119638			18591	protein-coding gene	gene with protein product		609798	"NIMA (never in mitosis gene a)- related kinase 9"			11864968	Standard	NM_033116		Approved	Nek8, NERCC, DKFZp434D0935, MGC16714	uc001xrl.3	Q8TD19	OTTHUMG00000171768	ENST00000238616.5:c.2474C>A	14.37:g.75555313G>T	ENSP00000238616:p.Pro825His	Somatic	1161	WXS	Illumina HiSeq	Phase_I	Q52LK6|Q8NCN0|Q8TCY4|Q9UPI4|Q9Y6S4|Q9Y6S5|Q9Y6S6	Missense_Mutation	SNP	ENST00000238616.5	37	CCDS9839.1	.	.	.	.	.	.	.	.	.	.	G	31	5.071923	0.93950	.	.	ENSG00000119638	ENST00000238616	T	0.74632	-0.86	6.17	6.17	0.99709	.	0.000000	0.85682	D	0.000000	T	0.80592	0.4652	N	0.24115	0.695	0.58432	D	0.999999	D;D	0.89917	1.0;1.0	D;D	0.76575	0.956;0.988	T	0.81745	-0.0792	10	0.87932	D	0	.	20.8794	0.99867	0.0:0.0:1.0:0.0	.	825;168	Q8TD19;Q6PKF2	NEK9_HUMAN;.	H	825	ENSP00000238616:P825H	ENSP00000238616:P825H	P	-	2	0	NEK9	74625066	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.490000	0.97952	2.941000	0.99782	0.655000	0.94253	CCT		0.448	NEK9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415021.1	NM_033116		T	75555313	G	T	75555313	3	4	664	1	0	0	0	0	1	0	0	0	10338	1000	35	4	477	4	NEK9	14	75555313	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	253215	75555313	31794227	703	42013										
GPR65	8477	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr14	88477823	88477823	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaaagtctaccaagctgtgcGgcacaataaagccacggaaa	10	10	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:88477823G>A	ENST00000267549.3	+	2	1190	c.632G>A	c.(631-633)cGg>cAg	p.R211Q	RP11-300J18.2_ENST00000554433.1_RNA	NM_003608.3	NP_003599.2	Q8IYL9	PSYR_HUMAN	G protein-coupled receptor 65	211					actin cytoskeleton reorganization (GO:0031532)|activation of Rho GTPase activity (GO:0032862)|apoptotic process (GO:0006915)|G-protein coupled receptor signaling pathway (GO:0007186)|immune response (GO:0006955)|multicellular organismal development (GO:0007275)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of stress fiber assembly (GO:0051496)|response to acidic pH (GO:0010447)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(8)|prostate(1)	16						CAAGCTGTGCGGCACAATAAA	0.423																																																0													58	57	57					14																	88477823		2203	4300	6503	SO:0001583	missense	8477			U95218	CCDS9879.1	14q31-q32.1	2012-08-21			ENSG00000140030	ENSG00000140030		"GPCR / Class A : Orphans"	4517	protein-coding gene	gene with protein product		604620				9655242	Standard	NM_003608		Approved	hTDAG8, TDAG8	uc001xvv.3	Q8IYL9	OTTHUMG00000028648	ENST00000267549.3:c.632G>A	14.37:g.88477823G>A	ENSP00000267549:p.Arg211Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O75819	Missense_Mutation	SNP	ENST00000267549.3	37	CCDS9879.1	.	.	.	.	.	.	.	.	.	.	G	11.75	1.731479	0.30684	.	.	ENSG00000140030	ENST00000267549	T	0.42131	0.98	5.96	-8.89	0.00785	GPCR, rhodopsin-like superfamily (1);	1.610560	0.03651	N	0.240992	T	0.24928	0.0605	N	0.21282	0.65	0.09310	N	1	B	0.27316	0.175	B	0.23275	0.045	T	0.09662	-1.0664	10	0.20519	T	0.43	.	12.3078	0.54912	0.6519:0.0:0.2666:0.0815	.	211	Q8IYL9	PSYR_HUMAN	Q	211	ENSP00000267549:R211Q	ENSP00000267549:R211Q	R	+	2	0	GPR65	87547576	0.000000	0.05858	0.007000	0.13788	0.684000	0.39900	-1.016000	0.03633	-1.274000	0.02421	-0.133000	0.14855	CGG		0.423	GPR65-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071564.4			A	88477823	G	A	88477823	3	1	664	1	0	0	0	0	1	0	0	0	6713	1116	39	1	634	1	GPR65	14	88477823	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	12922510	88477823	18871717	704	42014										
KCNK10	54207	broad.mit.edu;mdanderson.org	37	chr14	88652027	88652027	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgagttacacatcttttccGtctcctcctctttcttctcc	3	16	5	1	rs370557951		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:88652027G>A	ENST00000340700.5	-	7	1920	c.1469C>T	c.(1468-1470)aCg>aTg	p.T490M	KCNK10_ENST00000312350.5_Missense_Mutation_p.T495M|KCNK10_ENST00000319231.5_Missense_Mutation_p.T495M	NM_021161.4	NP_066984.1	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	490					signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|transport (GO:0006810)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	potassium channel activity (GO:0005267)|voltage-gated ion channel activity (GO:0005244)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(25)|ovary(3)|pancreas(2)|prostate(2)|skin(4)|upper_aerodigestive_tract(1)	47						CATCTTTTCCGTCTCCTCCTC	0.502																																																0								G	MET/THR,MET/THR,MET/THR	0,4406		0,0,2203	166	161	163		1469,1484,1484	3.6	0.2	14		163	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,missense	KCNK10	NM_021161.4,NM_138317.2,NM_138318.2	81,81,81	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging,probably-damaging,probably-damaging	490/539,495/544,495/544	88652027	1,13005	2203	4300	6503	SO:0001583	missense	54207			AF279890	CCDS9880.1, CCDS9881.1, CCDS9882.1	14q31	2014-06-12						"Potassium channels", "Voltage-gated ion channels / Potassium channels, Two-P"	6273	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 97"	605873				10880510, 16382106	Standard	NM_021161		Approved	K2p10.1, TREK-2, TREK2, PPP1R97	uc001xwn.3	P57789		ENST00000340700.5:c.1469C>T	14.37:g.88652027G>A	ENSP00000343104:p.Thr490Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8T4|B2RCT3|B5TJL4|Q6B014|Q8TDK7|Q8TDK8|Q9HB59	Missense_Mutation	SNP	ENST00000340700.5	37	CCDS9880.1	.	.	.	.	.	.	.	.	.	.	G	12.72	2.022338	0.35701	0.0	1.16E-4	ENSG00000100433	ENST00000340700;ENST00000312350;ENST00000319231	D;D;D	0.91180	-2.79;-2.8;-2.78	5.5	3.62	0.41486	.	1.171940	0.05778	N	0.608048	D	0.82370	0.5022	N	0.22421	0.69	0.09310	N	1	B;B;B	0.33904	0.431;0.431;0.431	B;B;B	0.24269	0.031;0.021;0.052	T	0.72747	-0.4200	10	0.72032	D	0.01	.	4.8714	0.13635	0.0817:0.1471:0.6189:0.1523	.	490;495;495	P57789;B2R8T4;Q6B014	KCNKA_HUMAN;.;.	M	490;495;495	ENSP00000343104:T490M;ENSP00000310568:T495M;ENSP00000312811:T495M	ENSP00000310568:T495M	T	-	2	0	KCNK10	87721780	0.070000	0.21116	0.171000	0.22900	0.939000	0.58152	1.814000	0.38972	0.650000	0.30769	0.655000	0.94253	ACG		0.502	KCNK10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410167.1	NM_021161		A	88652027	G	A	88652027	3	1	664	1	0	0	0	0	1	0	0	0	8066	1145	40	1	151	1	KCNK10	14	88652027	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	174204	88652027	18697513	705	42015										
PTPN21	11099	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr14	88945933	88945933	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgacctcctgcagcgagtgCgccacgggcaggctgtcctc	13	16	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:88945933C>T	ENST00000556564.1	-	13	2126	c.1842G>A	c.(1840-1842)gcG>gcA	p.A614A	PTPN21_ENST00000328736.3_Silent_p.A614A	NM_007039.3	NP_008970.2	Q16825	PTN21_HUMAN	protein tyrosine phosphatase, non-receptor type 21	614					peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)	protein tyrosine phosphatase activity (GO:0004725)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(13)|liver(1)|lung(7)|ovary(4)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	45						GCAGCGAGTGCGCCACGGGCA	0.687																																																0													19	19	19					14																	88945933		2200	4293	6493	SO:0001819	synonymous_variant	11099			X79510	CCDS9884.1	14q31	2011-06-09				ENSG00000070778		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Non-receptor"	9651	protein-coding gene	gene with protein product		603271				7519780	Standard	NM_007039		Approved	PTPD1, PTPRL10	uc001xwv.4	Q16825		ENST00000556564.1:c.1842G>A	14.37:g.88945933C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000556564.1	37	CCDS9884.1																																																																																				0.687	PTPN21-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410303.1			T	88945933	C	T	88945933	2	4	664	1	0	0	0	0	0	0	0	1	12799	755	27	1		1	PTPN21	14	88945933	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	293906	88945933	18403607	706	42016										
TTC8	123016	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr14	89307767	89307767	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtctattgtttttcctctgtAggcttccatgcttacaagtc	7	10	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:89307767A>G	ENST00000345383.5	+	5	543		c.e5-1		TTC8_ENST00000536576.1_Intron|Y_RNA_ENST00000384612.1_RNA|TTC8_ENST00000346301.4_Intron|TTC8_ENST00000380656.2_Splice_Site|TTC8_ENST00000338104.6_Splice_Site|TTC8_ENST00000354441.6_Intron|TTC8_ENST00000358622.5_5'Flank	NM_198309.2	NP_938051.1	Q8TAM2	TTC8_HUMAN	tetratricopeptide repeat domain 8						axon guidance (GO:0007411)|camera-type eye photoreceptor cell differentiation (GO:0060219)|cilium assembly (GO:0042384)|establishment of anatomical structure orientation (GO:0048560)|fat cell differentiation (GO:0045444)|multicellular organism growth (GO:0035264)|nonmotile primary cilium assembly (GO:0035058)|olfactory bulb development (GO:0021772)|protein transport (GO:0015031)|regulation of protein localization (GO:0032880)|renal tubule development (GO:0061326)|sensory perception of smell (GO:0007608)|sensory processing (GO:0050893)	BBSome (GO:0034464)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cilium (GO:0005929)|cytoplasm (GO:0005737)|photoreceptor connecting cilium (GO:0032391)|plasma membrane (GO:0005886)	RNA polymerase II repressing transcription factor binding (GO:0001103)			endometrium(2)|kidney(1)|large_intestine(4)|lung(7)|prostate(1)	15						TTTCCTCTGTAGGCTTCCATG	0.308																																																0													70	70	70					14																	89307767		2203	4298	6501	SO:0001630	splice_region_variant	123016			AK093891	CCDS9885.1, CCDS9886.1, CCDS32137.1, CCDS73674.1, CCDS73675.1	14q31.3	2013-02-14				ENSG00000165533		"Tetratricopeptide (TTC) repeat domain containing"	20087	protein-coding gene	gene with protein product		608132				14520415, 20451172	Standard	NM_144596		Approved	BBS8, RP51	uc001xxi.3	Q8TAM2		ENST00000345383.5:c.460-1A>G	14.37:g.89307767A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NFG2|B3KWA5|Q67B97|Q86SY0|Q86TV9|Q86U26|Q8NDH9|Q96DG8	Splice_Site	SNP	ENST00000345383.5	37	CCDS9885.1	.	.	.	.	.	.	.	.	.	.	A	17.48	3.401036	0.62288	.	.	ENSG00000165533	ENST00000343648;ENST00000345383;ENST00000338104;ENST00000380656;ENST00000556651	.	.	.	5.6	5.6	0.85130	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.7711	0.78170	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	TTC8	88377520	1.000000	0.71417	0.985000	0.45067	0.836000	0.47400	8.876000	0.92379	2.136000	0.66102	0.460000	0.39030	.		0.308	TTC8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410861.1	NM_144596	Intron	G	89307767	A	G	89307767	5	3	664	1	0	0	0	0	0	0	1	0	16726	434	15	3	510	3	TTC8	14	89307767	Splice_Site	SNP	A	TCGA-KN-8428-01A-11D-2310-10	361834	89307767	18041773	707	42017										
FOXN3	1112	broad.mit.edu	37	chr14	89817014	89817014	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaaagaagtctgaattgcttAcctttgatatgcctgaggac	9	7	1	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:89817014A>G	ENST00000345097.4	-	3	797		c.e3+1		RP11-356K23.1_ENST00000556942.1_RNA|FOXN3_ENST00000555353.1_Splice_Site|FOXN3_ENST00000557258.1_Splice_Site|RP11-356K23.1_ENST00000555407.1_RNA|FOXN3_ENST00000555658.1_Splice_Site|FOXN3_ENST00000261302.5_Splice_Site	NM_001085471.1	NP_001078940.1	O00409	FOXN3_HUMAN	forkhead box N3						mitotic G2 DNA damage checkpoint (GO:0007095)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	protein C-terminus binding (GO:0008022)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(4)|large_intestine(4)|lung(5)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	18						TGAATTGCTTACCTTTGATAT	0.393																																																0													178	160	166					14																	89817014		2203	4300	6503	SO:0001630	splice_region_variant	1112				CCDS32138.1, CCDS41977.1	14q32.11	2012-04-17	2007-05-02	2007-05-02	ENSG00000053254	ENSG00000053254		"Forkhead boxes"	1928	protein-coding gene	gene with protein product		602628	"chromosome 14 open reading frame 116", "checkpoint suppressor 1"	C14orf116, CHES1		9154802	Standard	NM_005197		Approved		uc001xxo.4	O00409	OTTHUMG00000170898	ENST00000345097.4:c.680+1T>C	14.37:g.89817014A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q96II7|Q9UIE7	Splice_Site	SNP	ENST00000345097.4	37	CCDS41977.1	.	.	.	.	.	.	.	.	.	.	A	21.8	4.207484	0.79240	.	.	ENSG00000053254	ENST00000345097;ENST00000261302;ENST00000557258;ENST00000555353;ENST00000553840;ENST00000553353;ENST00000556916	.	.	.	6.04	6.04	0.98038	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.5763	0.84648	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	FOXN3	88886767	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	9.019000	0.93662	2.317000	0.78254	0.459000	0.35465	.		0.393	FOXN3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410902.2	NM_005197	Intron	G	89817014	A	G	89817014	5	3	664	1	0	0	0	0	0	0	1	0	6028	405	14	3	810	3	FOXN3	14	89817014	Splice_Site	SNP	A	TCGA-KN-8428-01A-11D-2310-10	509247	89817014	17532526	708	42018										
RPS6KA5	9252	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	91366523	91366523	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cactttcgacaaattgaaaaActaccttctcccaggggttt	6	11	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:91366523A>C	ENST00000261991.3	-	11	1481	c.1308T>G	c.(1306-1308)agT>agG	p.S436R	RPS6KA5_ENST00000536315.2_Missense_Mutation_p.S357R|RPS6KA5_ENST00000418736.2_Missense_Mutation_p.S436R	NM_004755.2	NP_004746.2	O75582	KS6A5_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide 5	436	Protein kinase 2. {ECO:0000255|PROSITE- ProRule:PRU00159}.				axon guidance (GO:0007411)|epidermal growth factor receptor signaling pathway (GO:0007173)|histone H2A-S1 phosphorylation (GO:0043990)|histone H3-S10 phosphorylation (GO:0043987)|histone H3-S28 phosphorylation (GO:0043988)|histone phosphorylation (GO:0016572)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|interleukin-1-mediated signaling pathway (GO:0070498)|intracellular signal transduction (GO:0035556)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of cytokine production (GO:0001818)|negative regulation of transcription, DNA-templated (GO:0045892)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of CREB transcription factor activity (GO:0032793)|positive regulation of histone acetylation (GO:0035066)|positive regulation of histone phosphorylation (GO:0033129)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein phosphorylation (GO:0006468)|regulation of transcription, DNA-templated (GO:0006355)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			endometrium(2)|large_intestine(8)|lung(8)|ovary(1)|prostate(1)|skin(2)|urinary_tract(2)	24		all_cancers(154;0.0148)|Melanoma(154;0.099)|all_epithelial(191;0.146)		Epithelial(152;0.182)|BRCA - Breast invasive adenocarcinoma(234;0.201)		AAATTGAAAAACTACCTTCTC	0.328																																																0													87	91	90					14																	91366523		2203	4299	6502	SO:0001583	missense	9252			AF074393	CCDS9893.1, CCDS45149.1	14q31-q32.1	2011-04-05	2002-08-29			ENSG00000100784			10434	protein-coding gene	gene with protein product		603607	"ribosomal protein S6 kinase, 90kD, polypeptide 5"			9687510, 10702687	Standard	NM_004755		Approved	MSK1, RLPK	uc001xys.2	O75582		ENST00000261991.3:c.1308T>G	14.37:g.91366523A>C	ENSP00000261991:p.Ser436Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O95316|Q96AF7	Missense_Mutation	SNP	ENST00000261991.3	37	CCDS9893.1	.	.	.	.	.	.	.	.	.	.	A	14.68	2.606994	0.46527	.	.	ENSG00000100784	ENST00000261991;ENST00000536315;ENST00000418736	T;T;T	0.53423	0.62;0.62;0.62	5.81	0.863	0.19062	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.56441	0.1985	L	0.46567	1.45	0.58432	D	0.999999	D;D	0.76494	0.957;0.999	P;D	0.77557	0.775;0.99	T	0.53767	-0.8392	10	0.87932	D	0	.	9.5152	0.39102	0.736:0.0:0.264:0.0	.	436;436	O75582-2;O75582	.;KS6A5_HUMAN	R	436;357;436	ENSP00000261991:S436R;ENSP00000442803:S357R;ENSP00000402787:S436R	ENSP00000261991:S436R	S	-	3	2	RPS6KA5	90436276	1.000000	0.71417	0.985000	0.45067	0.116000	0.19942	2.924000	0.48876	-0.079000	0.12707	-0.250000	0.11733	AGT		0.328	RPS6KA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411442.2	NM_004755		C	91366523	A	C	91366523	3	2	664	1	0	0	0	0	1	0	0	0	13667	40	2	5	1134	5	RPS6KA5	14	91366523	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	1549509	91366523	15983017	709	42019										
GOLGA5	9950	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	93277911	93277911	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cacagagcgagtttgctgcaCgccttaataaagtggaaatg	11	8	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:93277911C>T	ENST00000163416.2	+	6	1388	c.1132C>T	c.(1132-1134)Cgc>Tgc	p.R378C	GOLGA5_ENST00000355976.2_Missense_Mutation_p.R378C	NM_005113.2	NP_005104	Q8TBA6	GOGA5_HUMAN	golgin A5	378					Golgi organization (GO:0007030)|Golgi vesicle transport (GO:0048193)	cis-Golgi network (GO:0005801)|Golgi apparatus (GO:0005794)|Golgi cisterna (GO:0031985)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	protein homodimerization activity (GO:0042803)|Rab GTPase binding (GO:0017137)			large_intestine(6)|lung(1)|ovary(2)	9		all_cancers(154;0.0934)		COAD - Colon adenocarcinoma(157;0.222)		GTTTGCTGCACGCCTTAATAA	0.358			T	RET	papillary thyroid																																		Dom	yes		14	14q	9950	"golgi autoantigen, golgin subfamily a, 5  (PTC5)"		E	0													71	74	73					14																	93277911		2203	4300	6503	SO:0001583	missense	9950			AF085199	CCDS9905.1	14q32.12	2012-05-04	2010-02-12		ENSG00000066455	ENSG00000066455			4428	protein-coding gene	gene with protein product	"golgi integral membrane protein 5"	606918	"golgi autoantigen, golgin subfamily a, 5"			2734021, 9443391, 15004235	Standard	NM_005113		Approved	ret-II, golgin-84, rfg5, GOLIM5	uc001yaz.1	Q8TBA6	OTTHUMG00000171217	ENST00000163416.2:c.1132C>T	14.37:g.93277911C>T	ENSP00000163416:p.Arg378Cys	Somatic		WXS	Illumina HiSeq	Phase_I	C9JRU1|O95287|Q03962|Q2TS49|Q9UQQ7	Missense_Mutation	SNP	ENST00000163416.2	37	CCDS9905.1	.	.	.	.	.	.	.	.	.	.	C	17.13	3.310531	0.60414	.	.	ENSG00000066455	ENST00000163416;ENST00000355976;ENST00000439315	T;T	0.55930	0.49;0.49	5.22	4.33	0.51752	.	0.130046	0.35262	N	0.003329	T	0.51958	0.1705	M	0.71581	2.175	0.80722	D	1	P	0.47106	0.89	B	0.38985	0.287	T	0.61098	-0.7131	10	0.87932	D	0	-2.9888	14.1378	0.65297	0.0:0.9268:0.0:0.0731	.	378	Q8TBA6	GOGA5_HUMAN	C	378;378;287	ENSP00000163416:R378C;ENSP00000348252:R378C	ENSP00000163416:R378C	R	+	1	0	GOLGA5	92347664	1.000000	0.71417	0.999000	0.59377	0.821000	0.46438	5.516000	0.67055	1.192000	0.43071	0.557000	0.71058	CGC		0.358	GOLGA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412365.1			T	93277911	C	T	93277911	3	4	664	1	0	0	0	0	1	0	0	0	6563	536	19	1	1150	1	GOLGA5	14	93277911	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1911388	93277911	14071629	710	42020										
ATG2B	55102	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr14	96772058	96772058	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agtgtaagggggctttgctcGtatcggtcttattaacgggc	14	7	1	0	rs138090571		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:96772058G>A	ENST00000359933.4	-	31	5494	c.4601C>T	c.(4600-4602)aCg>aTg	p.T1534M	ATG2B_ENST00000261834.5_5'UTR	NM_018036.5	NP_060506	Q96BY7	ATG2B_HUMAN	autophagy related 2B	1534					autophagic vacuole assembly (GO:0000045)|cellular response to nitrogen starvation (GO:0006995)|mitochondrion degradation (GO:0000422)|nucleophagy (GO:0044804)	extrinsic component of membrane (GO:0019898)|lipid particle (GO:0005811)|pre-autophagosomal structure (GO:0000407)				breast(3)|cervix(2)|endometrium(7)|kidney(4)|large_intestine(11)|liver(1)|lung(26)|ovary(1)|prostate(1)|skin(1)|urinary_tract(7)	64		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		GGCTTTGCTCGTATCGGTCTT	0.403																																																0								G	MET/THR	1,4405	2.1+/-5.4	0,1,2202	134	122	126		4601	1.4	0	14	dbSNP_134	126	1,8599	1.2+/-3.3	0,1,4299	yes	missense	ATG2B	NM_018036.5	81	0,2,6501	AA,AG,GG		0.0116,0.0227,0.0154	possibly-damaging	1534/2079	96772058	2,13004	2203	4300	6503	SO:0001583	missense	55102			AK001104	CCDS9944.2	14q32.31	2014-02-12	2012-06-06	2007-07-31	ENSG00000066739	ENSG00000066739			20187	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 103", "ATG2 autophagy related 2 homolog B (S. cerevisiae)"	C14orf103		22350415	Standard	NM_018036		Approved	FLJ10242	uc001yfi.3	Q96BY7	OTTHUMG00000149933	ENST00000359933.4:c.4601C>T	14.37:g.96772058G>A	ENSP00000353010:p.Thr1534Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZRE7|Q96DQ3|Q9NW80	Missense_Mutation	SNP	ENST00000359933.4	37	CCDS9944.2	.	.	.	.	.	.	.	.	.	.	G	11.09	1.535650	0.27475	2.27E-4	1.16E-4	ENSG00000066739	ENST00000359933	T	0.48201	0.82	5.55	1.43	0.22495	.	0.856800	0.10787	N	0.634158	T	0.48822	0.1521	L	0.57536	1.79	0.09310	N	1	D	0.59767	0.986	B	0.42386	0.386	T	0.50074	-0.8870	10	0.48119	T	0.1	.	17.9381	0.89019	0.0:0.515:0.485:0.0	.	1534	Q96BY7	ATG2B_HUMAN	M	1534	ENSP00000353010:T1534M	ENSP00000261834:T178M	T	-	2	0	ATG2B	95841811	0.053000	0.20554	0.000000	0.03702	0.082000	0.17680	2.208000	0.42797	-0.005000	0.14395	-0.189000	0.12847	ACG		0.403	ATG2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000314037.1	NM_018036		A	96772058	G	A	96772058	3	1	664	1	0	0	0	0	1	0	0	0	1094	1145	40	1	1683	1	ATG2B	14	96772058	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3494147	96772058	10577482	711	42021										
PAPOLA	10914	broad.mit.edu	37	chr14	97014212	97014212	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcatgtaaaaagaaagcaacTccatcaactactacctaatc	4	11	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:97014212T>A	ENST00000216277.8	+	16	1698	c.1478T>A	c.(1477-1479)cTc>cAc	p.L493H	PAPOLA_ENST00000392990.2_Missense_Mutation_p.L493H	NM_032632.4	NP_116021.2	P51003	PAPOA_HUMAN	poly(A) polymerase alpha	493					gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA splicing, via spliceosome (GO:0000398)|RNA polyadenylation (GO:0043631)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|polynucleotide adenylyltransferase activity (GO:0004652)|RNA binding (GO:0003723)			breast(1)|endometrium(5)|kidney(3)|large_intestine(4)|lung(6)|skin(1)|urinary_tract(1)	21		all_cancers(154;0.0555)|all_epithelial(191;0.149)|Melanoma(154;0.155)		COAD - Colon adenocarcinoma(157;0.213)		AGAAAGCAACTCCATCAACTA	0.308																																					NSCLC(19;254 734 11908 35501 39234)											0													83	82	82					14																	97014212		2203	4298	6501	SO:0001583	missense	10914			X76770	CCDS9946.1, CCDS58334.1, CCDS58335.1	14q32.1-q32.2	2008-02-08				ENSG00000090060	2.7.7.19		14981	protein-coding gene	gene with protein product		605553				8302877, 10429366	Standard	NM_032632		Approved	PAP	uc001yfq.3	P51003		ENST00000216277.8:c.1478T>A	14.37:g.97014212T>A	ENSP00000216277:p.Leu493His	Somatic		WXS	Illumina HiSeq	Phase_I	Q86SX4|Q86TV0|Q8IYF5|Q9BVU2	Missense_Mutation	SNP	ENST00000216277.8	37	CCDS9946.1	.	.	.	.	.	.	.	.	.	.	T	25.3	4.622974	0.87460	.	.	ENSG00000090060	ENST00000216277;ENST00000546064;ENST00000392990;ENST00000555626	.	.	.	5.54	5.54	0.83059	Poly(A) polymerase, RNA-binding domain (2);Nucleotidyltransferase, class I, C-terminal-like (1);	0.000000	0.85682	D	0.000000	T	0.80706	0.4674	M	0.83774	2.66	0.80722	D	1	D;D;D	0.69078	0.997;0.987;0.997	D;D;D	0.77557	0.983;0.99;0.99	D	0.83960	0.0321	9	0.87932	D	0	.	15.6775	0.77338	0.0:0.0:0.0:1.0	.	509;509;493	F5H5I8;B4DYF4;P51003	.;.;PAPOA_HUMAN	H	493;509;493;243	.	ENSP00000216277:L493H	L	+	2	0	PAPOLA	96083965	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.693000	0.84214	2.104000	0.64026	0.533000	0.62120	CTC		0.308	PAPOLA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413411.2			A	97014212	T	A	97014212	3	1	664	1	0	0	0	0	1	0	0	0	11436	1551	54	5	1540	5	PAPOLA	14	97014212	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	242154	97014212	10335328	712	42022										
HHIPL1	84439	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr14	100141822	100141822	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttcggccagggcggctcgctGcccattctgctggacgatgt	14	13	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:100141822G>A	ENST00000330710.5	+	9	2306	c.2208G>A	c.(2206-2208)ctG>ctA	p.L736L		NM_001127258.1	NP_001120730.1	Q96JK4	HIPL1_HUMAN	HHIP-like 1	736	SRCR. {ECO:0000255|PROSITE- ProRule:PRU00196}.				carbohydrate metabolic process (GO:0005975)	extracellular region (GO:0005576)|membrane (GO:0016020)	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor (GO:0016901)|quinone binding (GO:0048038)|scavenger receptor activity (GO:0005044)			breast(1)|endometrium(2)|large_intestine(2)|lung(8)|skin(2)	15		Melanoma(154;0.128)				GCGGCTCGCTGCCCATTCTGC	0.697																																																0													9	13	12					14																	100141822		688	1582	2270	SO:0001819	synonymous_variant	84439			AB058725	CCDS9953.1, CCDS45162.1	14q32	2008-01-16	2008-01-16	2008-01-16		ENSG00000182218			19710	protein-coding gene	gene with protein product			"KIAA1822"	KIAA1822			Standard	NM_032425		Approved		uc010avs.3	Q96JK4		ENST00000330710.5:c.2208G>A	14.37:g.100141822G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2RUF8|B2RN09|Q6UXX2	Silent	SNP	ENST00000330710.5	37	CCDS45162.1																																																																																				0.697	HHIPL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413811.1	XM_041566		A	100141822	G	A	100141822	2	1	664	1	0	0	0	0	0	0	0	1	7100	1306	46	2		2	HHIPL1	14	100141822	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3127610	100141822	7207718	713	42023										
RTL1	388015	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr14	101350657	101350657	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagttctgcggttgagtgctCggtctggttttgctcttgag	14	7	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:101350657C>T	ENST00000534062.1	-	1	527	c.469G>A	c.(469-471)Gag>Aag	p.E157K	MIR433_ENST00000384837.1_RNA|MIR127_ENST00000384876.1_RNA|MIR136_ENST00000385207.1_RNA|MIR432_ENST00000606207.1_RNA	NM_001134888.2	NP_001128360.1	A6NKG5	RTL1_HUMAN	retrotransposon-like 1	157					multicellular organismal development (GO:0007275)	integral component of membrane (GO:0016021)				breast(1)|endometrium(5)|kidney(4)|large_intestine(1)|lung(5)|pancreas(1)|prostate(2)|skin(2)	21						GTTGAGTGCTCGGTCTGGTTT	0.522																																																0													268	231	242					14																	101350657		692	1591	2283	SO:0001583	missense	388015				CCDS53910.1	14q32.2	2012-04-18			ENSG00000254656	ENSG00000254656			14665	protein-coding gene	gene with protein product		611896				16155747, 15854907, 12796779	Standard	NM_001134888		Approved	PEG11, MART1, Mar1	uc010txj.1	A6NKG5	OTTHUMG00000167573	ENST00000534062.1:c.469G>A	14.37:g.101350657C>T	ENSP00000435342:p.Glu157Lys	Somatic		WXS	Illumina HiSeq	Phase_I	E9PKS8	Missense_Mutation	SNP	ENST00000534062.1	37	CCDS53910.1	.	.	.	.	.	.	.	.	.	.	C	5.423	0.263163	0.10294	.	.	ENSG00000254656	ENST00000534062	T	0.21734	1.99	2.2	0.156	0.14910	.	.	.	.	.	T	0.07503	0.0189	N	0.08118	0	0.09310	N	1	B	0.06786	0.001	B	0.01281	0.0	T	0.40327	-0.9569	9	0.07175	T	0.84	.	4.2224	0.10565	0.0:0.5895:0.0:0.4105	.	157	E9PKS8	.	K	157	ENSP00000435342:E157K	ENSP00000435342:E157K	E	-	1	0	RTL1	100420410	0.000000	0.05858	0.000000	0.03702	0.004000	0.04260	-0.172000	0.09868	0.018000	0.15052	0.555000	0.69702	GAG		0.522	RTL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395127.1	NM_001134888		T	101350657	C	T	101350657	3	4	664	1	0	0	0	0	1	0	0	0	13737	893	31	1	3611	1	RTL1	14	101350657	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1208835	101350657	5998883	714	42024										
ZNF839	55778	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	102807759	102807759	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagcgtgttccaggcgggccCgcagcttcaggcactggcta	15	13	1	0	rs544983444	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:102807759C>T	ENST00000558850.1	+	8	2029	c.1679C>T	c.(1678-1680)cCg>cTg	p.P560L	AL137229.1_ENST00000577622.1_RNA|ZNF839_ENST00000559185.1_Missense_Mutation_p.P560L|ZNF839_ENST00000262236.5_Missense_Mutation_p.P562L|ZNF839_ENST00000442396.2_Missense_Mutation_p.P676L|ZNF839_ENST00000420933.2_3'UTR	NM_001267827.1	NP_001254756.1	A8K0R7	ZN839_HUMAN	zinc finger protein 839	560							metal ion binding (GO:0046872)			breast(2)|central_nervous_system(1)|endometrium(5)|large_intestine(2)|lung(5)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	19						CAGGCGGGCCCGCAGCTTCAG	0.557													C|||	3	0.000599042	0.0	0.0	5008	,	,		16604	0.0		0.0	False		,,,				2504	0.0031															0													61	62	62					14																	102807759		1970	4167	6137	SO:0001583	missense	55778			AK093342	CCDS45164.1, CCDS58336.1	14q32.32	2010-05-06	2008-06-23	2008-06-23	ENSG00000022976	ENSG00000022976			20345	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 131"	C14orf131			Standard	NM_018335		Approved		uc010awk.2	A8K0R7		ENST00000558850.1:c.1679C>T	14.37:g.102807759C>T	ENSP00000453363:p.Pro560Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KSD2|Q53FH5|Q6GPI5|Q86TU1|Q9BQ86|Q9NUU3	Missense_Mutation	SNP	ENST00000558850.1	37	CCDS58336.1	.	.	.	.	.	.	.	.	.	.	C	10.77	1.444871	0.25987	.	.	ENSG00000022976	ENST00000442396;ENST00000262236;ENST00000398436;ENST00000420933	T;T	0.16897	2.31;2.31	4.56	-4.45	0.03546	.	2.076230	0.02062	N	0.050829	T	0.07052	0.0179	N	0.04636	-0.2	0.09310	N	1	B;B;B	0.31077	0.307;0.134;0.134	B;B;B	0.24394	0.053;0.023;0.031	T	0.18967	-1.0320	10	0.45353	T	0.12	.	5.4007	0.16295	0.3927:0.2829:0.3244:0.0	.	676;562;560	A8K0R7-5;A8K0R7-2;A8K0R7	.;.;ZN839_HUMAN	L	676;562;228;94	ENSP00000399863:P676L;ENSP00000262236:P562L	ENSP00000262236:P562L	P	+	2	0	ZNF839	101877512	0.000000	0.05858	0.003000	0.11579	0.068000	0.16541	-0.134000	0.10436	-1.147000	0.02851	-0.578000	0.04140	CCG		0.557	ZNF839-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000415492.2	NM_018335		T	102807759	C	T	102807759	3	4	664	1	0	0	0	0	1	0	0	0	18200	652	23	1	2057	1	ZNF839	14	102807759	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1457102	102807759	4541781	715	42025										
C14orf73	91828	hgsc.bcm.edu	37	chr14	103568933	103568933	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttggttcgccgcgacctgcaGaaggtgcggcaggaggtgca	17	10	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:103568933G>A	ENST00000380069.3	+	2	949	c.873G>A	c.(871-873)caG>caA	p.Q291Q		NM_001077594.1	NP_001071062.1	Q17RC7	EX3L4_HUMAN	exocyst complex component 3-like 4	291					exocytosis (GO:0006887)	exocyst (GO:0000145)				cervix(2)|endometrium(2)|lung(4)|ovary(1)|skin(1)	10						GCGACCTGCAGAAGGTGCGGC	0.746																																																0													4	7	6					14																	103568933		1955	3925	5880	SO:0001819	synonymous_variant	91828			AK000671	CCDS32163.1	14q32.32	2011-01-31	2011-01-31	2011-01-31	ENSG00000205436	ENSG00000205436			20120	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 73"	C14orf73			Standard	NM_001077594		Approved		uc001ymk.3	Q17RC7		ENST00000380069.3:c.873G>A	14.37:g.103568933G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q14CR2	Silent	SNP	ENST00000380069.3	37	CCDS32163.1																																																																																				0.746	EXOC3L4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415663.1	XM_941093		A	103568933	G	A	103568933	2	1	664	1	0	0	0	0	0	0	0	1	1781	933	33	2		2	C14orf73	14	103568933	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	761174	103568933	3780607	716	42026										
CKB	1152	broad.mit.edu;mdanderson.org	37	chr14	103988669	103988669	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acgcctgtctggatgacgtcGtccagcgtgaagccgctcgg	14	13	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:103988669G>A	ENST00000348956.2	-	2	519	c.162C>T	c.(160-162)gaC>gaT	p.D54D	RP11-600F24.7_ENST00000568177.1_RNA	NM_001823.4	NP_001814.2	P12277	KCRB_HUMAN	creatine kinase, brain	54	Phosphagen kinase N-terminal. {ECO:0000255|PROSITE-ProRule:PRU00842}.				cellular chloride ion homeostasis (GO:0030644)|cellular nitrogen compound metabolic process (GO:0034641)|creatine metabolic process (GO:0006600)|small molecule metabolic process (GO:0044281)|substantia nigra development (GO:0021762)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|creatine kinase activity (GO:0004111)			lung(2)|prostate(1)	3		Melanoma(154;0.155)	Epithelial(46;0.14)		Creatine(DB00148)	GGATGACGTCGTCCAGCGTGA	0.726																																					Esophageal Squamous(186;2492 2823 49929 50127)											0													46	45	45					14																	103988669		2200	4298	6498	SO:0001819	synonymous_variant	1152				CCDS9981.1	14q32.32	2012-10-02			ENSG00000166165	ENSG00000166165	2.7.3.2		1991	protein-coding gene	gene with protein product		123280		CKBB			Standard	NM_001823		Approved		uc001ynf.2	P12277	OTTHUMG00000171786	ENST00000348956.2:c.162C>T	14.37:g.103988669G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K236|B2R5R4|Q2LE07|Q6FG40|Q9UC66	Silent	SNP	ENST00000348956.2	37	CCDS9981.1																																																																																				0.726	CKB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415111.1			A	103988669	G	A	103988669	2	1	664	1	0	0	0	0	0	0	0	1	3448	1136	40	1		1	CKB	14	103988669	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	419736	103988669	3360871	717	42027										
TDRD9	122402	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	104431775	104431775	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcttggaccactacgttcagCgctccgcctactgcagcatt	8	15	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:104431775C>T	ENST00000409874.4	+	4	574	c.526C>T	c.(526-528)Cgc>Tgc	p.R176C	TDRD9_ENST00000339063.5_Missense_Mutation_p.R176C|TDRD9_ENST00000554571.1_3'UTR	NM_153046.2	NP_694591.2	Q8NDG6	TDRD9_HUMAN	tudor domain containing 9	176	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				cell differentiation (GO:0030154)|DNA methylation involved in gamete generation (GO:0043046)|fertilization (GO:0009566)|gene silencing by RNA (GO:0031047)|male meiosis (GO:0007140)|multicellular organismal development (GO:0007275)|piRNA metabolic process (GO:0034587)|spermatogenesis (GO:0007283)	nucleus (GO:0005634)|piP-body (GO:0071547)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|nucleic acid binding (GO:0003676)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(4)|lung(10)|ovary(2)|pancreas(1)|prostate(2)|skin(2)|stomach(3)|upper_aerodigestive_tract(1)	33		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0768)				CTACGTTCAGCGCTCCGCCTA	0.562																																																0													81	77	78					14																	104431775		692	1591	2283	SO:0001583	missense	122402			AK093483	CCDS9987.2	14q32.33	2013-01-23	2004-04-01	2004-04-02	ENSG00000156414	ENSG00000156414		"Tudor domain containing"	20122	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 75"	C14orf75			Standard	NM_153046		Approved	DKFZp434N0820, FLJ36164, NET54	uc001yom.4	Q8NDG6	OTTHUMG00000152876	ENST00000409874.4:c.526C>T	14.37:g.104431775C>T	ENSP00000387303:p.Arg176Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4S7|Q6ZU54|Q8N7T3|Q8N827|Q8N9V5|Q96AS9	Missense_Mutation	SNP	ENST00000409874.4	37	CCDS9987.2	.	.	.	.	.	.	.	.	.	.	C	15.34	2.804306	0.50315	.	.	ENSG00000156414	ENST00000409874;ENST00000339063	T;T	0.15487	2.42;2.42	4.54	2.55	0.30701	DEAD-like helicase (2);DNA/RNA helicase, DEAD/DEAH box type, N-terminal (1);	.	.	.	.	T	0.33323	0.0859	L	0.60067	1.865	0.28715	N	0.903313	D	0.89917	1.0	D	0.66847	0.947	T	0.07578	-1.0765	9	0.87932	D	0	.	9.2326	0.37446	0.0:0.7723:0.1464:0.0813	.	176	Q8NDG6	TDRD9_HUMAN	C	176	ENSP00000387303:R176C;ENSP00000343545:R176C	ENSP00000343545:R176C	R	+	1	0	TDRD9	103501528	0.995000	0.38212	0.691000	0.30163	0.390000	0.30446	3.237000	0.51344	1.025000	0.39708	0.460000	0.39030	CGC		0.562	TDRD9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328325.3	NM_153046		T	104431775	C	T	104431775	3	4	664	1	0	0	0	0	1	0	0	0	15748	768	27	1	540	1	TDRD9	14	104431775	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	443106	104431775	2917765	718	42028										
KIAA0284	283638	mdanderson.org	37	chr14	105354293	105354293	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cccttcagcagggcccgctcAggcagtgcccgatacacctc	10	18	2	0	rs2582548	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:105354293A>G	ENST00000414716.3	+	12	3945	c.3717A>G	c.(3715-3717)tcA>tcG	p.S1239S	CEP170B_ENST00000418279.1_Silent_p.S1169S|CEP170B_ENST00000453495.1_Silent_p.S1240S|CEP170B_ENST00000556508.1_Silent_p.S1169S	NM_001112726.2	NP_001106197.1	Q9Y4F5	C170B_HUMAN	centrosomal protein 170B	1239						cytoplasm (GO:0005737)|microtubule (GO:0005874)		p.S1170S(1)|p.S1169S(1)|p.S1239S(1)									GGGCCCGCTCAGGCAGTGCCC	0.682													g|||	2823	0.563698	0.5454	0.6527	5008	,	,		15507	0.2272		0.7753	False		,,,				2504	0.6544															3	Substitution - coding silent(3)	prostate(3)							,	2278,1490		703,872,309	4	5	4		3717,3507	-2	0.9	14	dbSNP_100	4	6255,1709		2492,1271,219	no	coding-synonymous,coding-synonymous	KIAA0284	NM_001112726.2,NM_015005.2	,	3195,2143,528	GG,GA,AA		21.4591,39.5435,27.2673	,	1239/1555,1169/1520	105354293	8533,3199	1884	3982	5866	SO:0001819	synonymous_variant	283638			AB006622	CCDS45175.1, CCDS45176.1, CCDS45176.2	14q32.33	2014-02-20	2012-11-30	2012-11-30	ENSG00000099814	ENSG00000099814			20362	protein-coding gene	gene with protein product	"Cep170-related"		"KIAA0284"	KIAA0284		23087211	Standard	NM_015005		Approved	FAM68C, Cep170R	uc010axb.4	Q9Y4F5	OTTHUMG00000170763	ENST00000414716.3:c.3717A>G	14.37:g.105354293A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q2KHR7|Q86TI7	Silent	SNP	ENST00000414716.3	37	CCDS45175.1																																																																																				0.682	CEP170B-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000410289.2	NM_001112726		G	105354293	A	G	105354293	2	3	664	1	0	0	0	0	0	0	0	1	8173	175	7	3		3	KIAA0284	14	105354293	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	922518	105354293	1995247	719	42029										
AHNAK2	113146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	105416582	105416582	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggggaggtgccctttgaagcCggctccctcgggaagggggc	19	11	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr14:105416582C>T	ENST00000333244.5	-	7	5325	c.5206G>A	c.(5206-5208)Ggc>Agc	p.G1736S	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1736						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			CCTTTGAAGCCGGCTCCCTCG	0.637																																																0													85	97	93					14																	105416582		1811	4033	5844	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.5206G>A	14.37:g.105416582C>T	ENSP00000353114:p.Gly1736Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	.	.	.	.	.	.	.	.	.	.	c	15.52	2.858847	0.51376	.	.	ENSG00000185567	ENST00000333244	T	0.01527	4.8	4.8	-4.57	0.03421	.	.	.	.	.	T	0.02083	0.0065	L	0.45581	1.43	0.09310	N	1	P	0.45240	0.854	P	0.46253	0.509	T	0.26395	-1.0104	9	0.08179	T	0.78	-4.5506	8.8196	0.35018	0.0:0.377:0.0985:0.5245	.	1736	Q8IVF2	AHNK2_HUMAN	S	1736	ENSP00000353114:G1736S	ENSP00000353114:G1736S	G	-	1	0	AHNAK2	104487627	0.001000	0.12720	0.000000	0.03702	0.000000	0.00434	-0.303000	0.08210	-1.144000	0.02862	-1.256000	0.01477	GGC		0.637	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		T	105416582	C	T	105416582	3	4	664	1	0	0	0	0	1	0	0	0	415	652	23	1	12185	1	AHNAK2	14	105416582	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	62289	105416582	1932958	720	42030										
CYFIP1	23191	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	22999456	22999456	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttctggatgaccccatctggCgcgggcctctgcccagcaat	11	15	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:22999456C>T	ENST00000313077.7	+	29	3453	c.3328C>T	c.(3328-3330)Cgc>Tgc	p.R1110C	CYFIP1_ENST00000560848.1_Missense_Mutation_p.R1110C|CYFIP1_ENST00000435939.2_Missense_Mutation_p.R679C	NM_014608.2	NP_055423.1			cytoplasmic FMR1 interacting protein 1									p.R1110C(1)		endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(9)|liver(1)|lung(14)|ovary(4)|pancreas(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	40		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)		CCCCATCTGGCGCGGGCCTCT	0.592																																																1	Substitution - Missense(1)	large_intestine(1)											59	59	59					15																	22999456		2203	4300	6503	SO:0001583	missense	23191			D38549	CCDS73695.1, CCDS73696.1	15q11	2008-07-18			ENSG00000068793	ENSG00000273749			13759	protein-coding gene	gene with protein product	"selective hybridizing clone", "cytoplasmic FMRP interacting protein 1"	606322				11438699	Standard	XM_005272543		Approved	KIAA0068, P140SRA-1, SHYC	uc001yus.3	Q7L576	OTTHUMG00000129100	ENST00000313077.7:c.3328C>T	15.37:g.22999456C>T	ENSP00000324549:p.Arg1110Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000313077.7	37	CCDS10009.1	.	.	.	.	.	.	.	.	.	.	C	31	5.063093	0.93898	.	.	ENSG00000068793	ENST00000313077;ENST00000412127;ENST00000435939	T;T	0.23754	1.89;1.89	5.55	5.55	0.83447	.	0.000000	0.64402	D	0.000002	T	0.31513	0.0799	N	0.17082	0.46	0.80722	D	1	B;D	0.63046	0.129;0.992	B;P	0.56088	0.022;0.791	T	0.05402	-1.0887	10	0.42905	T	0.14	-15.0561	19.4921	0.95054	0.0:1.0:0.0:0.0	.	679;1110	Q7L576-2;Q7L576	.;CYFP1_HUMAN	C	1110;1112;679	ENSP00000324549:R1110C;ENSP00000405956:R679C	ENSP00000324549:R1110C	R	+	1	0	CYFIP1	20550897	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	5.977000	0.70492	2.624000	0.88883	0.561000	0.74099	CGC		0.592	CYFIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251136.2	NM_014608		T	22999456	C	T	22999456	3	4	664	1	0	0	0	0	1	0	0	0	4139	768	27	1	3819	1	CYFIP1	15	22999456	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10		22999456	79531936	721	42031										
MAGEL2	54551	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	23889371	23889371	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tactctgcgggctcagtgtaAgggattcgcctgtactctag	12	10	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:23889371A>T	ENST00000532292.1	-	1	1804	c.1710T>A	c.(1708-1710)ccT>ccA	p.P570P		NM_019066.4	NP_061939.3	Q9UJ55	MAGL2_HUMAN	MAGE-like 2	453					Arp2/3 complex-mediated actin nucleation (GO:0034314)|protein K63-linked ubiquitination (GO:0070534)|retrograde transport, endosome to Golgi (GO:0042147)	endosome (GO:0005768)	ubiquitin-protein transferase activity (GO:0004842)			breast(1)|endometrium(1)|large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)	7		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)		GCTCAGTGTAAGGGATTCGCC	0.507																																																0													49	50	50					15																	23889371		1914	4128	6042	SO:0001819	synonymous_variant	54551			AJ243531	CCDS73700.1	15q11-q12	2008-07-18				ENSG00000254585			6814	protein-coding gene	gene with protein product		605283		NDNL1		10556298	Standard	NM_019066		Approved	nM15	uc001ywj.4	Q9UJ55		ENST00000532292.1:c.1710T>A	15.37:g.23889371A>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000532292.1	37		.	.	.	.	.	.	.	.	.	.	A	6.277	0.419253	0.11870	.	.	ENSG00000254585	ENST00000532292	.	.	.	4.52	-8.18	0.01053	.	.	.	.	.	T	0.28928	0.0718	.	.	.	0.21499	N	0.999664	.	.	.	.	.	.	T	0.34875	-0.9811	4	.	.	.	.	11.1534	0.48473	0.7556:0.1131:0.1313:0.0	.	.	.	.	H	602	.	.	L	-	2	0	MAGEL2	21440464	0.082000	0.21442	0.000000	0.03702	0.825000	0.46686	-0.403000	0.07214	-1.612000	0.01579	-0.414000	0.06135	CTT		0.507	MAGEL2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000395182.2	NM_019066		T	23889371	A	T	23889371	2	4	664	1	0	0	0	0	0	0	0	1	9196	59	3	5		5	MAGEL2	15	23889371	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	889915	23889371	78642021	722	42032										
HERC2	8924	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	28427617	28427617	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caaacaccttggttcttatcGtagctgctgattccagccca	7	13	1	1	rs200987196		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:28427617G>A	ENST00000261609.7	-	57	8975	c.8867C>T	c.(8866-8868)aCg>aTg	p.T2956M		NM_004667.5	NP_004658.3			HECT and RLD domain containing E3 ubiquitin protein ligase 2											NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(3)|cervix(3)|endometrium(20)|kidney(11)|large_intestine(33)|lung(95)|ovary(7)|prostate(8)|skin(7)|upper_aerodigestive_tract(8)|urinary_tract(4)	204		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)		GGTTCTTATCGTAGCTGCTGA	0.493													G|||	1	0.000199681	0.0	0.0	5008	,	,		14650	0.0		0.0	False		,,,				2504	0.001															0													70	71	71					15																	28427617		2203	4300	6503	SO:0001583	missense	8924			AF071172	CCDS10021.1	15q13	2012-02-23	2012-02-23		ENSG00000128731	ENSG00000128731			4868	protein-coding gene	gene with protein product		605837	"hect domain and RLD 2"			9949213	Standard	NM_004667		Approved	jdf2, p528, D15F37S1	uc001zbj.4	O95714	OTTHUMG00000129251	ENST00000261609.7:c.8867C>T	15.37:g.28427617G>A	ENSP00000261609:p.Thr2956Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000261609.7	37	CCDS10021.1	.	.	.	.	.	.	.	.	.	.	G	16.44	3.123030	0.56613	.	.	ENSG00000128731	ENST00000261609	T	0.39406	1.08	5.16	5.16	0.70880	.	0.055502	0.64402	D	0.000001	T	0.45637	0.1352	N	0.08118	0	0.58432	D	0.999995	D	0.89917	1.0	D	0.69654	0.965	T	0.55995	-0.8052	10	0.48119	T	0.1	.	18.6542	0.91445	0.0:0.0:1.0:0.0	.	2956	O95714	HERC2_HUMAN	M	2956	ENSP00000261609:T2956M	ENSP00000261609:T2956M	T	-	2	0	HERC2	26101212	1.000000	0.71417	0.729000	0.30791	0.363000	0.29612	6.593000	0.74100	2.386000	0.81285	0.650000	0.86243	ACG		0.493	HERC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251358.2	NM_004667		A	28427617	G	A	28427617	3	1	664	1	0	0	0	0	1	0	0	0	7065	1145	40	1	5785	1	HERC2	15	28427617	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4538246	28427617	74103775	723	42033										
HERC2	8924	broad.mit.edu	37	chr15	28478879	28478879	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttccacgggatgctcgggggGaaacatgatcggtgtggtca	16	8	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:28478879G>A	ENST00000261609.7	-	28	4390	c.4282C>T	c.(4282-4284)Ccc>Tcc	p.P1428S		NM_004667.5	NP_004658.3			HECT and RLD domain containing E3 ubiquitin protein ligase 2									p.P1428S(1)		NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(3)|cervix(3)|endometrium(20)|kidney(11)|large_intestine(33)|lung(95)|ovary(7)|prostate(8)|skin(7)|upper_aerodigestive_tract(8)|urinary_tract(4)	204		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)		TGCTCGGGGGGAAACATGATC	0.458																																																1	Substitution - Missense(1)	large_intestine(1)											53	51	51					15																	28478879		2203	4283	6486	SO:0001583	missense	8924			AF071172	CCDS10021.1	15q13	2012-02-23	2012-02-23		ENSG00000128731	ENSG00000128731			4868	protein-coding gene	gene with protein product		605837	"hect domain and RLD 2"			9949213	Standard	NM_004667		Approved	jdf2, p528, D15F37S1	uc001zbj.4	O95714	OTTHUMG00000129251	ENST00000261609.7:c.4282C>T	15.37:g.28478879G>A	ENSP00000261609:p.Pro1428Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000261609.7	37	CCDS10021.1	.	.	.	.	.	.	.	.	.	.	g	9.301	1.053063	0.19907	.	.	ENSG00000128731	ENST00000261609	T	0.37915	1.17	4.24	4.24	0.50183	.	0.000000	0.85682	D	0.000000	T	0.48277	0.1491	L	0.40543	1.245	0.80722	D	1	D	0.63880	0.993	D	0.72982	0.979	T	0.26780	-1.0093	10	0.13470	T	0.59	.	17.2162	0.86945	0.0:0.0:1.0:0.0	.	1428	O95714	HERC2_HUMAN	S	1428	ENSP00000261609:P1428S	ENSP00000261609:P1428S	P	-	1	0	HERC2	26152474	1.000000	0.71417	1.000000	0.80357	0.060000	0.15804	9.260000	0.95568	2.360000	0.80028	0.550000	0.68814	CCC		0.458	HERC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251358.2	NM_004667		A	28478879	G	A	28478879	3	1	664	1	0	0	0	0	1	0	0	0	7065	1174	41	2	10486	2	HERC2	15	28478879	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	51262	28478879	74052513	724	42034										
TJP1	7082	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	30010880	30010880	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agctggctgctcttcgtgccGcagggcggatgctctaggtg	16	11	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:30010880G>A	ENST00000346128.6	-	21	3940	c.3466C>T	c.(3466-3468)Cgg>Tgg	p.R1156W	TJP1_ENST00000356107.6_Missense_Mutation_p.R1156W|TJP1_ENST00000400011.2_Missense_Mutation_p.R1080W|TJP1_ENST00000545208.2_Missense_Mutation_p.R1076W	NM_003257.3|NM_175610.2	NP_003248.3|NP_783297.2	Q07157	ZO1_HUMAN	tight junction protein 1	1156					apoptotic process (GO:0006915)|blastocyst formation (GO:0001825)|cell-cell junction assembly (GO:0007043)|cell-cell signaling involved in cell-cell junction organization (GO:1901350)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular response to glucose stimulus (GO:0071333)|hippo signaling (GO:0035329)|membrane organization (GO:0061024)|negative regulation of vascular permeability (GO:0043116)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to lipopolysaccharide (GO:0032496)|response to magnetism (GO:0071000)|sensory perception of sound (GO:0007605)	apical junction complex (GO:0043296)|apical part of cell (GO:0045177)|apical plasma membrane (GO:0016324)|apicolateral plasma membrane (GO:0016327)|basolateral plasma membrane (GO:0016323)|cell junction (GO:0030054)|cell-cell adherens junction (GO:0005913)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|gap junction (GO:0005921)|intercalated disc (GO:0014704)|intercellular canaliculus (GO:0046581)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|tight junction (GO:0005923)				breast(4)|central_nervous_system(2)|endometrium(8)|kidney(3)|large_intestine(12)|liver(1)|lung(29)|ovary(4)|pancreas(1)|prostate(3)|urinary_tract(1)	68		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)		TCTTCGTGCCGCAGGGCGGAT	0.592																																					Melanoma(77;681 1843 6309 6570)											0													88	93	92					15																	30010880		2091	4227	6318	SO:0001583	missense	7082				CCDS42007.1, CCDS45199.1, CCDS73702.1	15q13	2012-07-12	2012-07-12		ENSG00000104067	ENSG00000104067			11827	protein-coding gene	gene with protein product	"zona occludens 1", "tight junction protein ZO-1"	601009				8825647	Standard	XM_005254616		Approved	ZO-1, MGC133289, DKFZp686M05161	uc001zcr.3	Q07157	OTTHUMG00000137397	ENST00000346128.6:c.3466C>T	15.37:g.30010880G>A	ENSP00000281537:p.Arg1156Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3K1|Q2NKP3|Q4ZGJ6	Missense_Mutation	SNP	ENST00000346128.6	37	CCDS42007.1	.	.	.	.	.	.	.	.	.	.	G	17.20	3.328664	0.60743	.	.	ENSG00000104067	ENST00000346128;ENST00000400011;ENST00000545208;ENST00000400007;ENST00000356107	T;T	0.11604	2.82;2.76	6.05	5.13	0.70059	.	0.057456	0.64402	D	0.000001	T	0.31513	0.0799	L	0.61218	1.895	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;0.999;1.0	D;D;D;D	0.72075	0.971;0.976;0.928;0.973	T	0.04427	-1.0952	10	0.87932	D	0	.	16.7023	0.85357	0.0:0.0:0.8694:0.1306	.	1149;1076;1156;1080	A9CQZ8;Q07157-2;Q07157;G5E9E7	.;.;ZO1_HUMAN;.	W	1156;1080;1156;1076;1076	ENSP00000281537:R1156W;ENSP00000382890:R1080W	ENSP00000281537:R1156W	R	-	1	2	TJP1	27798172	1.000000	0.71417	0.074000	0.20217	0.074000	0.17049	5.902000	0.69869	1.538000	0.49270	0.650000	0.86243	CGG		0.592	TJP1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000268237.3	NM_003257		A	30010880	G	A	30010880	3	1	664	1	0	0	0	0	1	0	0	0	15941	1086	38	1	1812	1	TJP1	15	30010880	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1532001	30010880	72520512	725	42035										
CHRNA7	1139	mdanderson.org	37	chr15	32460285	32460285	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcgccgtggcgccgccgcccGccagcaacgggaacctgctg	15	18	0	0	rs573369306		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:32460285G>A	ENST00000306901.3	+	10	1232	c.1135G>A	c.(1135-1137)Gcc>Acc	p.A379T	CHRNA7_ENST00000455693.2_Missense_Mutation_p.A198T|CHRNA7_ENST00000454250.3_Missense_Mutation_p.A408T	NM_000746.5	NP_000737.1	P36544	ACHA7_HUMAN	cholinergic receptor, nicotinic, alpha 7 (neuronal)	379					activation of MAPK activity (GO:0000187)|associative learning (GO:0008306)|B cell activation (GO:0042113)|behavioral response to ethanol (GO:0048149)|behavioral response to nicotine (GO:0035095)|calcium ion transport (GO:0006816)|cation transmembrane transport (GO:0098655)|cellular calcium ion homeostasis (GO:0006874)|cognition (GO:0050890)|dopamine biosynthetic process (GO:0042416)|endocytosis (GO:0006897)|generation of ovulation cycle rhythm (GO:0060112)|ion transmembrane transport (GO:0034220)|ion transport (GO:0006811)|memory (GO:0007613)|negative regulation of inflammatory response (GO:0050728)|negative regulation of interleukin-1 beta production (GO:0032691)|negative regulation of interleukin-6 production (GO:0032715)|negative regulation of tumor necrosis factor production (GO:0032720)|neuronal action potential (GO:0019228)|positive regulation of angiogenesis (GO:0045766)|positive regulation of cell proliferation (GO:0008284)|positive regulation of heart rate involved in baroreceptor response to decreased systemic arterial blood pressure (GO:0001988)|regulation of norepinephrine secretion (GO:0014061)|regulation of synaptic transmission, dopaminergic (GO:0032225)|response to food (GO:0032094)|response to hypoxia (GO:0001666)|response to nicotine (GO:0035094)|signal transduction (GO:0007165)|sperm motility (GO:0030317)|synaptic transmission (GO:0007268)|synaptic transmission, cholinergic (GO:0007271)|T cell activation (GO:0042110)	acetylcholine-gated channel complex (GO:0005892)|apical plasma membrane (GO:0016324)|asymmetric synapse (GO:0032279)|axon (GO:0030424)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|dendritic shaft (GO:0043198)|dendritic spine (GO:0043197)|external side of plasma membrane (GO:0009897)|growth cone (GO:0030426)|integral component of membrane (GO:0016021)|membrane raft (GO:0045121)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)|presynaptic membrane (GO:0042734)	acetylcholine binding (GO:0042166)|acetylcholine receptor activity (GO:0015464)|acetylcholine-activated cation-selective channel activity (GO:0004889)|acetylcholine-gated cation channel activity (GO:0022848)|beta-amyloid binding (GO:0001540)|chloride channel regulator activity (GO:0017081)|drug binding (GO:0008144)|protein homodimerization activity (GO:0042803)|toxic substance binding (GO:0015643)			endometrium(3)|large_intestine(1)|lung(6)|ovary(2)	12		all_lung(180;6.35e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)	Amobarbital(DB01351)|Aprobarbital(DB01352)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Dextromethorphan(DB00514)|Galantamine(DB00674)|Heptabarbital(DB01354)|Hexobarbital(DB01355)|Methylphenobarbital(DB00849)|Nicotine(DB00184)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Primidone(DB00794)|Secobarbital(DB00418)|Talbutal(DB00306)|Thiopental(DB00599)|Varenicline(DB01273)	GCCGCCGCCCGCCAGCAACGG	0.716																																					Esophageal Squamous(193;529 2900 40232 43193)											0													16	24	21					15																	32460285		2179	4281	6460	SO:0001583	missense	1139			Z23141	CCDS10027.1, CCDS53924.1	15q13.3	2012-02-11	2012-02-07		ENSG00000175344	ENSG00000175344		"Cholinergic receptors", "Ligand-gated ion channels / Acetylcholine receptors, nicotinic"	1960	protein-coding gene	gene with protein product	"acetylcholine receptor, nicotinic, alpha 7 (neuronal)"	118511	"cholinergic receptor, nicotinic, alpha polypeptide 7"			8188270	Standard	NM_001190455		Approved		uc021sic.2	P36544	OTTHUMG00000129285	ENST00000306901.3:c.1135G>A	15.37:g.32460285G>A	ENSP00000303727:p.Ala379Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7Q4|B4DFS0|Q15826|Q8IUZ4|Q96RH2|Q99555|Q9BXH0	Missense_Mutation	SNP	ENST00000306901.3	37	CCDS10027.1	.	.	.	.	.	.	.	.	.	.	g	3.425	-0.117298	0.06838	.	.	ENSG00000175344	ENST00000437966;ENST00000454250;ENST00000306901;ENST00000455693	T;T;T	0.19669	2.13;2.13;2.13	3.84	-0.555	0.11807	Neurotransmitter-gated ion-channel transmembrane domain (2);	2.523290	0.01582	N	0.021155	T	0.08179	0.0204	N	0.03000	-0.44	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.06405	0.002;0.001	T	0.20505	-1.0273	10	0.12766	T	0.61	.	3.6481	0.08192	0.494:0.0:0.3237:0.1823	.	408;379	B4DFS0;P36544	.;ACHA7_HUMAN	T	289;408;379;198	ENSP00000407546:A408T;ENSP00000303727:A379T;ENSP00000405989:A198T	ENSP00000303727:A379T	A	+	1	0	CHRNA7	30247577	0.000000	0.05858	0.001000	0.08648	0.477000	0.33069	-0.094000	0.11094	-0.091000	0.12440	0.650000	0.86243	GCC		0.716	CHRNA7-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000251410.2			A	32460285	G	A	32460285	3	1	664	1	0	0	0	0	1	0	0	0	3390	1087	38	1	1173	1	CHRNA7	15	32460285	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2449405	32460285	70071107	726	42036										
CASC5	57082	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr15	40916787	40916787	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgacatttatgttattcctcAgcctcatttctcaaccgacc	4	13	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:40916787A>G	ENST00000346991.5	+	11	4793	c.4403A>G	c.(4402-4404)cAg>cGg	p.Q1468R	CASC5_ENST00000399668.2_Missense_Mutation_p.Q1442R			Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5	1468					acrosome assembly (GO:0001675)|attachment of spindle microtubules to kinetochore (GO:0008608)|CENP-A containing nucleosome assembly (GO:0034080)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of phosphatase activity (GO:0010923)|nucleosome assembly (GO:0006334)|protein localization to kinetochore (GO:0034501)|spindle assembly checkpoint (GO:0071173)	acrosomal vesicle (GO:0001669)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|kinetochore (GO:0000776)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				NS(1)|breast(7)|central_nervous_system(1)|endometrium(6)|kidney(4)|large_intestine(13)|lung(16)|skin(3)|stomach(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	57		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		GTTATTCCTCAGCCTCATTTC	0.353																																																0													89	85	86					15																	40916787		1851	4093	5944	SO:0001583	missense	57082			AF173994	CCDS42023.1, CCDS42024.1	15q14	2013-07-03			ENSG00000137812	ENSG00000137812		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	24054	protein-coding gene	gene with protein product	"cancer/testis antigen 29", "kinetochore null 1 homolog (C. elegans)", "blinkin, bub-linking kinetochore protein", "protein phosphatase 1, regulatory subunit 55"	609173				10980622, 10780384, 18045986	Standard	NM_170589		Approved	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7	uc010bbt.1	Q8NG31	OTTHUMG00000166532	ENST00000346991.5:c.4403A>G	15.37:g.40916787A>G	ENSP00000335463:p.Gln1468Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHE1|Q8WXA6|Q9HCK2|Q9NR92	Missense_Mutation	SNP	ENST00000346991.5	37	CCDS42023.1	.	.	.	.	.	.	.	.	.	.	A	5.267	0.234746	0.09969	.	.	ENSG00000137812	ENST00000346991;ENST00000260369;ENST00000399668	T;T	0.05717	3.4;3.4	4.6	2.17	0.27698	.	0.926357	0.08995	N	0.863806	T	0.11623	0.0283	M	0.61703	1.905	0.09310	N	1	P;P;D	0.54047	0.557;0.557;0.964	B;B;P	0.45829	0.299;0.299;0.494	T	0.26121	-1.0112	10	0.87932	D	0	.	10.278	0.43521	0.6807:0.3193:0.0:0.0	.	1442;1468;1442	Q8NG31-2;Q8NG31;Q8NG31-4	.;CASC5_HUMAN;.	R	1468;1442;1442	ENSP00000335463:Q1468R;ENSP00000382576:Q1442R	ENSP00000260369:Q1442R	Q	+	2	0	CASC5	38704079	0.080000	0.21391	0.512000	0.27736	0.026000	0.11368	1.336000	0.33850	0.324000	0.23333	0.491000	0.48974	CAG		0.353	CASC5-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000390224.2	NM_144508		G	40916787	A	G	40916787	3	3	664	1	0	0	0	0	1	0	0	0	2665	188	7	3	4441	3	CASC5	15	40916787	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	8456502	40916787	61614605	727	42037										
ZFYVE19	84936	hgsc.bcm.edu;mdanderson.org	37	chr15	41105576	41105576	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcccagacagtgatgacgaCgaggatgaggagacagccat	13	10	0	5	rs201883316		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:41105576C>T	ENST00000355341.4	+	8	1572	c.1071C>T	c.(1069-1071)gaC>gaT	p.D357D	ZFYVE19_ENST00000564258.1_Silent_p.D182D|ZFYVE19_ENST00000299173.10_Silent_p.D289D|ZFYVE19_ENST00000336455.5_Silent_p.D347D|ZFYVE19_ENST00000570108.1_Silent_p.D334D	NM_001077268.1	NP_001070736.1	Q96K21	ANCHR_HUMAN	zinc finger, FYVE domain containing 19	357					abscission (GO:0009838)|cell division (GO:0051301)|cytokinesis checkpoint (GO:0031565)|negative regulation of cytokinesis (GO:0032466)	centrosome (GO:0005813)|cleavage furrow (GO:0032154)|cytoplasm (GO:0005737)|midbody (GO:0030496)	phosphatidylinositol-3-phosphate binding (GO:0032266)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(1)|large_intestine(1)|lung(4)|skin(1)	9		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)		GTGATGACGACGAGGATGAGG	0.582													C|||	1	0.000199681	0.0	0.0014	5008	,	,		19736	0.0		0.0	False		,,,				2504	0.0															0								C		1,4161		0,1,2080	50	57	54		1071	-6.9	0.6	15		54	0,8418		0,0,4209	no	coding-synonymous	ZFYVE19	NM_001077268.1		0,1,6289	TT,TC,CC		0.0,0.024,0.0079		357/472	41105576	1,12579	2081	4209	6290	SO:0001819	synonymous_variant	84936			AK027746	CCDS42025.1, CCDS58353.1, CCDS58354.1, CCDS58355.1	15q14	2008-05-02				ENSG00000166140		"Zinc fingers, FYVE domain containing"	20758	protein-coding gene	gene with protein product							Standard	NM_001077268		Approved	FLJ14840	uc031qrk.1	Q96K21		ENST00000355341.4:c.1071C>T	15.37:g.41105576C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KVB2|C9JNF4|H3BUF9|Q86WC2|Q8WU96	Silent	SNP	ENST00000355341.4	37	CCDS42025.1																																																																																				0.582	ZFYVE19-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000418996.1	NM_032850		T	41105576	C	T	41105576	2	4	664	1	0	0	0	0	0	0	0	1	17677	535	19	1		1	ZFYVE19	15	41105576	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	188789	41105576	61425816	728	42038										
RTF1	23168	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr15	41769459	41769459	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagaggccctggaccgccagCggaccaagaacatatccgct	11	15	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:41769459C>T	ENST00000389629.4	+	13	1669	c.1657C>T	c.(1657-1659)Cgg>Tgg	p.R553W		NM_015138.4	NP_055953.3	Q92541	RTF1_HUMAN	Rtf1, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae)	553					DNA-templated transcription, initiation (GO:0006352)|endodermal cell fate commitment (GO:0001711)|histone H3-K4 trimethylation (GO:0080182)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of histone H3-K4 methylation (GO:0051571)|positive regulation of transcription elongation from RNA polymerase II promoter (GO:0032968)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|stem cell maintenance (GO:0019827)|Wnt signaling pathway (GO:0016055)	Cdc73/Paf1 complex (GO:0016593)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)|single-stranded DNA binding (GO:0003697)			central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(2)|lung(6)|ovary(2)|prostate(1)|skin(1)	18		all_cancers(109;1.79e-19)|all_epithelial(112;8.18e-17)|Lung NSC(122;3.16e-11)|all_lung(180;8.14e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;1.15e-16)|GBM - Glioblastoma multiforme(113;1.81e-06)|BRCA - Breast invasive adenocarcinoma(123;0.119)		GGACCGCCAGCGGACCAAGAA	0.547																																																0													113	123	120					15																	41769459		2203	4300	6503	SO:0001583	missense	23168			D87440	CCDS32200.2	15q14	2004-03-03	2005-07-20	2005-07-20	ENSG00000137815	ENSG00000137815			28996	protein-coding gene	gene with protein product		611633	"KIAA0252"	KIAA0252		15632063	Standard	NM_015138		Approved		uc001zny.3	Q92541	OTTHUMG00000133744	ENST00000389629.4:c.1657C>T	15.37:g.41769459C>T	ENSP00000374280:p.Arg553Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q96BX6	Missense_Mutation	SNP	ENST00000389629.4	37	CCDS32200.2	.	.	.	.	.	.	.	.	.	.	C	21.0	4.078271	0.76528	.	.	ENSG00000137815	ENST00000389629	.	.	.	5.42	3.49	0.39957	.	0.000000	0.85682	D	0.000000	T	0.77280	0.4107	M	0.76727	2.345	0.80722	D	1	D	0.89917	1.0	D	0.71414	0.973	T	0.80074	-0.1534	9	0.72032	D	0.01	-4.1498	14.5409	0.67995	0.2674:0.7326:0.0:0.0	.	553	Q92541	RTF1_HUMAN	W	553	.	ENSP00000374280:R553W	R	+	1	2	RTF1	39556751	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	4.470000	0.60175	0.808000	0.34231	-0.311000	0.09066	CGG		0.547	RTF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258111.1	NM_015138		T	41769459	C	T	41769459	3	4	664	1	0	0	0	0	1	0	0	0	13734	759	27	1	1707	1	RTF1	15	41769459	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	663883	41769459	60761933	729	42039										
RPAP1	26015	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	41814441	41814441	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcccggggcagccaatatgGcagccagctgaggaaaagca	14	11	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:41814441G>A	ENST00000304330.4	-	20	2866	c.2750C>T	c.(2749-2751)gCc>gTc	p.A917V	RPAP1_ENST00000561603.1_Missense_Mutation_p.A917V	NM_015540.2	NP_056355.2	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	917	Leu-rich.					nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)			NS(1)|breast(1)|cervix(2)|endometrium(4)|kidney(4)|large_intestine(6)|lung(16)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(5)	45		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)		AGCCAATATGGCAGCCAGCTG	0.562																																																0													18	23	21					15																	41814441		2201	4297	6498	SO:0001583	missense	26015			BC000246	CCDS10079.1	15q14	2004-03-16			ENSG00000103932	ENSG00000103932			24567	protein-coding gene	gene with protein product		611475				10718198	Standard	XM_005254297		Approved	DKFZP727M111, KIAA1403, MGC858, FLJ12732	uc001zod.3	Q9BWH6	OTTHUMG00000130342	ENST00000304330.4:c.2750C>T	15.37:g.41814441G>A	ENSP00000306123:p.Ala917Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H9I2|Q9NSQ5|Q9P2E4|Q9UFS7	Missense_Mutation	SNP	ENST00000304330.4	37	CCDS10079.1	.	.	.	.	.	.	.	.	.	.	G	4.735	0.136744	0.09032	.	.	ENSG00000103932	ENST00000304330	T	0.11821	2.74	5.0	0.893	0.19236	.	0.969729	0.08589	N	0.923357	T	0.10252	0.0251	N	0.25647	0.755	0.09310	N	1	B	0.02656	0.0	B	0.06405	0.002	T	0.35549	-0.9784	10	0.46703	T	0.11	-9.0683	8.2846	0.31922	0.4263:0.0:0.5737:0.0	.	917	Q9BWH6	RPAP1_HUMAN	V	917	ENSP00000306123:A917V	ENSP00000306123:A917V	A	-	2	0	RPAP1	39601733	0.017000	0.18338	0.002000	0.10522	0.564000	0.35744	1.305000	0.33493	0.009000	0.14813	-0.391000	0.06502	GCC		0.562	RPAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252694.2	NM_015540		A	41814441	G	A	41814441	3	1	664	1	0	0	0	0	1	0	0	0	13554	1203	42	2	1455	2	RPAP1	15	41814441	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	44982	41814441	60716951	730	42040										
PLA2G4B	100137049	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr15	42131115	42131115	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctgaggactcagtctcatgGctgtggtaaggcctggcagg	15	10	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:42131115G>T	ENST00000452633.1	+	2	356	c.4G>T	c.(4-6)Gct>Tct	p.A2S	PLA2G4B_ENST00000542534.2_Intron|JMJD7-PLA2G4B_ENST00000342159.4_Intron|JMJD7-PLA2G4B_ENST00000476036.1_Intron|PLA2G4B_ENST00000458483.1_Missense_Mutation_p.A2S|JMJD7-PLA2G4B_ENST00000382448.4_Intron			P0C869	PA24B_HUMAN	phospholipase A2, group IVB (cytosolic)	2	C2. {ECO:0000255|PROSITE- ProRule:PRU00041}.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|arachidonic acid metabolic process (GO:0019369)|calcium-mediated signaling (GO:0019722)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|glycerophospholipid biosynthetic process (GO:0046474)|glycerophospholipid catabolic process (GO:0046475)|inflammatory response (GO:0006954)|parturition (GO:0007567)|phosphatidic acid biosynthetic process (GO:0006654)|phosphatidylcholine acyl-chain remodeling (GO:0036151)|phosphatidylethanolamine acyl-chain remodeling (GO:0036152)|phosphatidylglycerol acyl-chain remodeling (GO:0036148)|phosphatidylserine acyl-chain remodeling (GO:0036150)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|endosome (GO:0005768)|extracellular region (GO:0005576)|mitochondrial inner membrane (GO:0005743)	calcium ion binding (GO:0005509)|calcium-dependent phospholipase A2 activity (GO:0047498)|calcium-dependent phospholipid binding (GO:0005544)|lysophospholipase activity (GO:0004622)						all_cancers(109;1.84e-13)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		all cancers(2;1.08e-30)|Epithelial(2;1.43e-22)|OV - Ovarian serous cystadenocarcinoma(18;1.13e-17)|GBM - Glioblastoma multiforme(94;9.77e-07)|Colorectal(2;0.0129)|COAD - Colon adenocarcinoma(120;0.0371)		CAGTCTCATGGCTGTGGTAAG	0.562																																																0													44	40	41					15																	42131115		1567	3581	5148	SO:0001583	missense	100137049			AF065215	CCDS45241.1	15q11.2-q21.3	2010-08-17			ENSG00000243708	ENSG00000243708	3.1.1.4		9036	protein-coding gene	gene with protein product		606088				9705332	Standard	NM_001114633		Approved	cPLA2-beta, HsT16992		P0C869	OTTHUMG00000156809	ENST00000452633.1:c.4G>T	15.37:g.42131115G>T	ENSP00000396045:p.Ala2Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRT9|O95712|Q19KD5|Q19KD6|Q59GF9|Q8TB10|Q9UKV7	Missense_Mutation	SNP	ENST00000452633.1	37	CCDS45241.1	.	.	.	.	.	.	.	.	.	.	.	15.82	2.945454	0.53079	.	.	ENSG00000168970;ENSG00000243708	ENST00000458483;ENST00000452633	T;T	0.01313	5.02;5.02	5.15	5.15	0.70609	.	.	.	.	.	T	0.01189	0.0039	.	.	.	0.22666	N	0.998871	P	0.46987	0.888	B	0.42163	0.378	T	0.52102	-0.8620	8	0.06757	T	0.87	-0.7799	14.5006	0.67719	0.0:0.0:1.0:0.0	.	2	P0C869	PA24B_HUMAN	S	2	ENSP00000416610:A2S;ENSP00000396045:A2S	ENSP00000416610:A2S	A	+	1	0	JMJD7-PLA2G4B;PLA2G4B	39918407	1.000000	0.71417	1.000000	0.80357	0.689000	0.40095	4.743000	0.62110	2.567000	0.86603	0.655000	0.94253	GCT		0.562	PLA2G4B-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000345969.1	NM_001114633		T	42131115	G	T	42131115	3	4	664	1	0	0	0	0	1	0	0	0	12009	1203	42	4	6	4	PLA2G4B	15	42131115	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	316674	42131115	60400277	731	42041										
EHD4	30844	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr15	42193092	42193092	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gatatcttgccattgatgggCgacagagtgtagaagagctc	13	7	1	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:42193092C>T	ENST00000220325.4	-	6	1460	c.1377G>A	c.(1375-1377)tcG>tcA	p.S459S	RP11-23P13.6_ENST00000564432.2_RNA	NM_139265.3	NP_644670.1	Q9H223	EHD4_HUMAN	EH-domain containing 4	459	EH. {ECO:0000255|PROSITE- ProRule:PRU00077}.				cellular response to growth factor stimulus (GO:0071363)|endocytic recycling (GO:0032456)|pinocytosis (GO:0006907)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|protein homooligomerization (GO:0051260)|regulation of endocytosis (GO:0030100)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|recycling endosome membrane (GO:0055038)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|nucleic acid binding (GO:0003676)			NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(6)|lung(7)|ovary(2)|stomach(1)|urinary_tract(1)	20		all_cancers(109;2.54e-12)|all_epithelial(112;6.59e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		OV - Ovarian serous cystadenocarcinoma(18;1.6e-19)|GBM - Glioblastoma multiforme(94;3.77e-06)|COAD - Colon adenocarcinoma(120;0.0474)|Colorectal(105;0.0538)		CATTGATGGGCGACAGAGTGT	0.602																																																0													86	72	77					15																	42193092		2203	4299	6502	SO:0001819	synonymous_variant	30844			AF181265	CCDS10081.1	15q11.1	2013-01-10			ENSG00000103966	ENSG00000103966		"EF-hand domain containing"	3245	protein-coding gene	gene with protein product		605892		PAST4		10673336, 11533061	Standard	NM_139265		Approved		uc001zot.3	Q9H223	OTTHUMG00000130370	ENST00000220325.4:c.1377G>A	15.37:g.42193092C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9HAR1|Q9NZN2	Silent	SNP	ENST00000220325.4	37	CCDS10081.1																																																																																				0.602	EHD4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252737.2	NM_139265		T	42193092	C	T	42193092	2	4	664	1	0	0	0	0	0	0	0	1	4982	755	27	1		1	EHD4	15	42193092	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	61977	42193092	60338300	732	42042										
TMEM87A	25963	broad.mit.edu	37	chr15	42564314	42564314	+	Frame_Shift_Del	DEL	T	T	-													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tctttccaaaactaaaataaTttttcccctgcaaacataaa							TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:42564314delT	ENST00000389834.4	-	2	416	c.152delA	c.(151-153)aatfs	p.N51fs	TMEM87A_ENST00000307216.6_Frame_Shift_Del_p.N51fs|TMEM87A_ENST00000448392.1_Intron|TMEM87A_ENST00000568432.1_5'UTR|GANC_ENST00000566442.1_5'Flank|GANC_ENST00000440615.2_5'Flank|GANC_ENST00000318010.8_5'Flank	NM_015497.3	NP_056312.2	Q8NBN3	TM87A_HUMAN	transmembrane protein 87A	51						integral component of membrane (GO:0016021)				breast(1)|endometrium(4)|kidney(4)|large_intestine(1)|lung(9)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	24		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)		ACTAAAATAATTTTTCCCCTG	0.294																																																0													36	37	37					15																	42564314		2202	4296	6498	SO:0001589	frameshift_variant	25963			AF132733	CCDS32205.1, CCDS45243.1, CCDS66742.1	15q15.1	2005-10-30				ENSG00000103978			24522	protein-coding gene	gene with protein product						12477932	Standard	XM_005254287		Approved	DKFZP564G2022	uc021sjr.1	Q8NBN3		ENST00000389834.4:c.152delA	15.37:g.42564314delT	ENSP00000374484:p.Asn51fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NT77|Q8NCA4|Q9BS46|Q9P103|Q9Y3Y7	Frame_Shift_Del	DEL	ENST00000389834.4	37	CCDS32205.1																																																																																				0.294	TMEM87A-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000420482.2	NM_015497		-	42564314	T	-	42564314	7	5	664	1	0	1	0	1	0	0	0	0	16222	1493	52	0	1637	0	TMEM87A	15	42564314	Frame_Shift_Del	DEL	T	TCGA-KN-8428-01A-11D-2310-10	371222	42564314	59967078	733	42043										
GANC	2595	broad.mit.edu;mdanderson.org	37	chr15	42619597	42619597	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggatttcaccaatcccaaggTcagagagtggtattcaagtc	10	9	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:42619597T>C	ENST00000318010.8	+	13	1697	c.1457T>C	c.(1456-1458)gTc>gCc	p.V486A		NM_198141.2	NP_937784.2	Q8TET4	GANC_HUMAN	glucosidase, alpha; neutral C	486					carbohydrate metabolic process (GO:0005975)		alpha-1,4-glucosidase activity (GO:0004558)|carbohydrate binding (GO:0030246)|maltose alpha-glucosidase activity (GO:0032450)			breast(1)|central_nervous_system(3)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	23		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)	Miglitol(DB00491)	AATCCCAAGGTCAGAGAGTGG	0.423																																																0													291	254	267					15																	42619597		2203	4299	6502	SO:0001583	missense	2595			AF545045	CCDS10084.1	15q15.2	2012-10-02			ENSG00000214013	ENSG00000214013	3.2.1.20		4139	protein-coding gene	gene with protein product		104180				6995030, 12370436	Standard	NM_198141		Approved		uc001zpi.3	Q8TET4	OTTHUMG00000130487	ENST00000318010.8:c.1457T>C	15.37:g.42619597T>C	ENSP00000326227:p.Val486Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LQ4|Q8IWZ0|Q8IZM4|Q8IZM5	Missense_Mutation	SNP	ENST00000318010.8	37	CCDS10084.1	.	.	.	.	.	.	.	.	.	.	T	22.4	4.281005	0.80692	.	.	ENSG00000214013	ENST00000318010	D	0.95035	-3.59	5.32	5.32	0.75619	Glycoside hydrolase, superfamily (1);	0.121554	0.56097	D	0.000027	D	0.90477	0.7017	N	0.17248	0.465	0.52099	D	0.999945	P	0.36616	0.561	B	0.42882	0.401	D	0.89515	0.3774	10	0.31617	T	0.26	-16.5794	13.884	0.63698	0.0:0.0:0.0:1.0	.	486	Q8TET4	GANC_HUMAN	A	486	ENSP00000326227:V486A	ENSP00000326227:V486A	V	+	2	0	GANC	40406889	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	4.305000	0.59110	2.013000	0.59113	0.528000	0.53228	GTC		0.423	GANC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252887.2	NM_198141		C	42619597	T	C	42619597	3	2	664	1	0	0	0	0	1	0	0	0	6241	1667	58	3	1507	3	GANC	15	42619597	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	55283	42619597	59911795	734	42044										
TGM7	116179	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	43585733	43585733	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggtagaagggctggccgcggCgcacagtgagccgcttgacg	18	11	0	3	rs150218635	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:43585733C>T	ENST00000452443.2	-	2	111	c.107G>A	c.(106-108)cGc>cAc	p.R36H		NM_052955.2	NP_443187.1	Q96PF1	TGM7_HUMAN	transglutaminase 7	36					peptide cross-linking (GO:0018149)		metal ion binding (GO:0046872)|protein-glutamine gamma-glutamyltransferase activity (GO:0003810)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(8)|lung(16)|ovary(2)|prostate(4)|skin(1)	39		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)	CTGGCCGCGGCGCACAGTGAG	0.617																																																0									HIS/ARG	5,4397	9.9+/-24.2	0,5,2196	84	86	85		107	5.1	1	15	dbSNP_134	85	0,8596		0,0,4298	no	missense	TGM7	NM_052955.2	29	0,5,6494	TT,TC,CC		0.0,0.1136,0.0385	probably-damaging	36/711	43585733	5,12993	2201	4298	6499	SO:0001583	missense	116179			AF363393	CCDS32213.1	15q15.2	2004-07-01				ENSG00000159495		"Transglutaminases"	30790	protein-coding gene	gene with protein product	"transglutaminase Z"	606776				11390390	Standard	NM_052955		Approved	TGMZ	uc001zrf.1	Q96PF1		ENST00000452443.2:c.107G>A	15.37:g.43585733C>T	ENSP00000389466:p.Arg36His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000452443.2	37	CCDS32213.1	.	.	.	.	.	.	.	.	.	.	c	21.9	4.211069	0.79240	0.001136	0.0	ENSG00000159495	ENST00000452443	D	0.98947	-5.26	5.07	5.07	0.68467	Immunoglobulin E-set (1);Transglutaminase, N-terminal (1);Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	D	0.99275	0.9747	M	0.92833	3.35	0.38616	D	0.951023	D	0.89917	1.0	D	0.91635	0.999	D	0.99858	1.1079	10	0.87932	D	0	-20.0004	14.3332	0.66572	0.0:1.0:0.0:0.0	.	36	Q96PF1	TGM7_HUMAN	H	36	ENSP00000389466:R36H	ENSP00000389466:R36H	R	-	2	0	TGM7	41373025	1.000000	0.71417	0.967000	0.41034	0.064000	0.16182	5.029000	0.64121	2.534000	0.85438	0.454000	0.30748	CGC		0.617	TGM7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000432489.1	NM_052955		T	43585733	C	T	43585733	3	4	664	1	0	0	0	0	1	0	0	0	15847	768	27	1	2073	1	TGM7	15	43585733	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	966136	43585733	58945659	735	42045										
TP53BP1	7158	broad.mit.edu	37	chr15	43773188	43773188	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcccttctcttcctccacaGcaggagcagattccactgac	6	17	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:43773188G>A	ENST00000263801.3	-	5	641	c.389C>T	c.(388-390)gCt>gTt	p.A130V	TP53BP1_ENST00000382044.4_Missense_Mutation_p.A135V|TP53BP1_ENST00000382039.3_Missense_Mutation_p.A135V|TP53BP1_ENST00000450115.2_Missense_Mutation_p.A135V	NM_005657.2	NP_005648.1	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1	130					cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|kinetochore (GO:0000776)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|replication fork (GO:0005657)	damaged DNA binding (GO:0003684)|methylated histone binding (GO:0035064)|p53 binding (GO:0002039)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II transcription cofactor activity (GO:0001104)|telomeric DNA binding (GO:0042162)			breast(4)|endometrium(5)|kidney(7)|large_intestine(22)|lung(13)|ovary(4)|pancreas(2)|prostate(1)|skin(10)|upper_aerodigestive_tract(1)|urinary_tract(3)	72		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		ttcctccACAGCAGGAGCAGA	0.453								Other conserved DNA damage response genes																																								0													229	175	193					15																	43773188		2201	4298	6499	SO:0001583	missense	7158			U09477	CCDS10096.1, CCDS45250.1, CCDS45251.1	15q15-q21	2007-08-02	2007-08-02		ENSG00000067369	ENSG00000067369			11999	protein-coding gene	gene with protein product		605230	"tumor protein p53-binding protein, 1"			8016121, 9748285	Standard	NM_005657		Approved	53BP1, p202	uc001zrr.4	Q12888	OTTHUMG00000059757	ENST00000263801.3:c.389C>T	15.37:g.43773188G>A	ENSP00000263801:p.Ala130Val	Somatic		WXS	Illumina HiSeq	Phase_I	F8VY86|Q2M1Z7|Q4LE46|Q5FWZ3|Q7Z3U4	Missense_Mutation	SNP	ENST00000263801.3	37	CCDS10096.1	.	.	.	.	.	.	.	.	.	.	G	9.638	1.138150	0.21123	.	.	ENSG00000067369	ENST00000263801;ENST00000382044;ENST00000382039;ENST00000450115;ENST00000413546	T;T;T;T;T	0.09911	3.75;3.75;3.75;3.75;2.93	4.61	3.68	0.42216	.	1.743780	0.02818	N	0.125177	T	0.09555	0.0235	N	0.22421	0.69	0.09310	N	1	B;B;B;B	0.02656	0.0;0.0;0.0;0.0	B;B;B;B	0.04013	0.0;0.0;0.001;0.001	T	0.31024	-0.9958	10	0.24483	T	0.36	2.085	8.1265	0.31001	0.1171:0.0:0.8829:0.0	.	135;130;135;135	B7Z3E7;Q12888;Q12888-2;F8VY86	.;TP53B_HUMAN;.;.	V	130;135;135;135;135	ENSP00000263801:A130V;ENSP00000371475:A135V;ENSP00000371470:A135V;ENSP00000393497:A135V;ENSP00000388028:A135V	ENSP00000263801:A130V	A	-	2	0	TP53BP1	41560480	0.025000	0.19082	0.020000	0.16555	0.831000	0.47069	1.588000	0.36633	1.054000	0.40438	0.467000	0.42956	GCT		0.453	TP53BP1-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000132897.3			A	43773188	G	A	43773188	3	1	664	1	0	0	0	0	1	0	0	0	16395	971	34	2	5625	2	TP53BP1	15	43773188	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	187455	43773188	58758204	736	42046										
MAP1A	4130	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr15	43821457	43821457	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgggagagtagagaggctaCgggagaaggaaaaggttcag	18	4	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:43821457C>T	ENST00000300231.5	+	4	8236	c.7786C>T	c.(7786-7788)Cgg>Tgg	p.R2596W	MAP1A_ENST00000382031.1_Missense_Mutation_p.R2834W|MAP1A_ENST00000399453.1_Missense_Mutation_p.R2596W			P78559	MAP1A_HUMAN	microtubule-associated protein 1A	2596					microtubule cytoskeleton organization (GO:0000226)|sensory perception of sound (GO:0007605)	cytosol (GO:0005829)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)	structural molecule activity (GO:0005198)			breast(5)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(11)|liver(2)|lung(19)|ovary(5)|pancreas(3)|prostate(2)|skin(6)|soft_tissue(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	66		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)	AGAGAGGCTACGGGAGAAGGA	0.662																																																0													36	43	41					15																	43821457		1912	4110	6022	SO:0001583	missense	4130			U38292	CCDS42031.1	15q15.3	2006-06-15			ENSG00000166963	ENSG00000166963			6835	protein-coding gene	gene with protein product		600178		MAP1L		7806212, 7629894	Standard	XM_005254385		Approved		uc001zrt.3	P78559	OTTHUMG00000059756	ENST00000300231.5:c.7786C>T	15.37:g.43821457C>T	ENSP00000300231:p.Arg2596Trp	Somatic		WXS	Illumina HiSeq	Phase_I	O95643|Q12973|Q15882|Q9UJT4	Missense_Mutation	SNP	ENST00000300231.5	37	CCDS42031.1	.	.	.	.	.	.	.	.	.	.	C	13.09	2.132937	0.37630	.	.	ENSG00000166963	ENST00000382031;ENST00000399453;ENST00000300231	T;T;T	0.01505	4.82;4.82;4.82	4.95	4.95	0.65309	.	.	.	.	.	T	0.04452	0.0122	N	0.22421	0.69	0.37754	D	0.92608	D	0.89917	1.0	D	0.67548	0.952	T	0.52660	-0.8546	9	0.87932	D	0	-12.1772	12.2202	0.54429	0.0:0.9111:0.0:0.0889	.	2596	P78559	MAP1A_HUMAN	W	2834;2596;2596	ENSP00000371462:R2834W;ENSP00000382380:R2596W;ENSP00000300231:R2596W	ENSP00000300231:R2596W	R	+	1	2	MAP1A	41608749	0.182000	0.23173	1.000000	0.80357	0.988000	0.76386	1.218000	0.32467	2.557000	0.86248	0.462000	0.41574	CGG		0.662	MAP1A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000132894.5	NM_002373		T	43821457	C	T	43821457	3	4	664	1	0	0	0	0	1	0	0	0	9234	527	19	1	7788	1	MAP1A	15	43821457	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	48269	43821457	58709935	737	42047										
DUOX2	50506	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr15	45396231	45396231	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atacatggtaaacattagacGggacttatcctctggggagc	11	8	1	1	rs201955961		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:45396231G>A	ENST00000603300.1	-	20	2783	c.2581C>T	c.(2581-2583)Cgt>Tgt	p.R861C	DUOX2_ENST00000389039.6_Missense_Mutation_p.R861C	NM_014080.4	NP_054799.4	Q9NRD8	DUOX2_HUMAN	dual oxidase 2	861	EF-hand 2. {ECO:0000255|PROSITE- ProRule:PRU00448}.				adenohypophysis morphogenesis (GO:0048855)|bone mineralization (GO:0030282)|cuticle development (GO:0042335)|cytokine-mediated signaling pathway (GO:0019221)|fertilization (GO:0009566)|hormone biosynthetic process (GO:0042446)|hydrogen peroxide catabolic process (GO:0042744)|inner ear development (GO:0048839)|multicellular organism growth (GO:0035264)|oxidation-reduction process (GO:0055114)|response to cAMP (GO:0051591)|response to virus (GO:0009615)|thyroid gland development (GO:0030878)|thyroid hormone generation (GO:0006590)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|heme binding (GO:0020037)|NAD(P)H oxidase activity (GO:0016174)|peroxidase activity (GO:0004601)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|lung(28)|ovary(3)|pancreas(1)|prostate(4)|skin(7)|urinary_tract(1)	63		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)		AACATTAGACGGGACTTATCC	0.507																																																0								G	CYS/ARG	0,4396		0,0,2198	120	108	112		2581	5.2	1	15		112	2,8594	2.2+/-6.3	0,2,4296	no	missense	DUOX2	NM_014080.4	180	0,2,6494	AA,AG,GG		0.0233,0.0,0.0154	probably-damaging	861/1549	45396231	2,12990	2198	4298	6496	SO:0001583	missense	50506			AF181972	CCDS10117.1	15q15.3-q21	2013-01-10			ENSG00000140279	ENSG00000140279		"EF-hand domain containing"	13273	protein-coding gene	gene with protein product	"dual oxidase-like domains 2", "nicotinamide adenine dinucleotide phosphate oxidase", "flavoprotein NADPH oxidase", "NADPH thyroid oxidase 2", "NADH/NADPH thyroid oxidase p138-tox", "NADPH oxidase/peroxidase DUOX2"	606759				10601291, 10806195	Standard	NM_014080		Approved	P138-TOX, P138(TOX), THOX2, LNOX2	uc010bea.3	Q9NRD8	OTTHUMG00000131355	ENST00000603300.1:c.2581C>T	15.37:g.45396231G>A	ENSP00000475084:p.Arg861Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8MQ13|D2XI64|Q9NR02|Q9UHF9	Missense_Mutation	SNP	ENST00000603300.1	37	CCDS10117.1	.	.	.	.	.	.	.	.	.	.	G	19.83	3.900727	0.72754	0.0	2.33E-4	ENSG00000140279	ENST00000389039	.	.	.	5.23	5.23	0.72850	EF-hand-like domain (1);	0.399295	0.26955	N	0.021659	T	0.82001	0.4942	H	0.94964	3.605	0.44611	D	0.997587	D;D	0.89917	1.0;1.0	D;D	0.67725	0.953;0.953	D	0.85455	0.1163	9	0.87932	D	0	-10.1059	9.4386	0.38655	0.0:0.1432:0.6886:0.1681	.	861;423	Q9NRD8;Q59GU9	DUOX2_HUMAN;.	C	861	.	ENSP00000373691:R861C	R	-	1	0	DUOX2	43183523	1.000000	0.71417	1.000000	0.80357	0.951000	0.60555	3.975000	0.56859	2.579000	0.87056	0.563000	0.77884	CGT		0.507	DUOX2-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_014080		A	45396231	G	A	45396231	3	1	664	1	0	0	0	0	1	0	0	0	4803	1116	39	1	2125	1	DUOX2	15	45396231	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1574774	45396231	57135161	738	42048										
FBN1	2200	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr15	48703307	48703307	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tttttataaagtggagtactActgatttgtaatgaataggt	9	2	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:48703307A>G	ENST00000316623.5	-	66	8951	c.8496T>C	c.(8494-8496)agT>agC	p.S2832S	FBN1_ENST00000561429.1_5'Flank	NM_000138.4	NP_000129	P35555	FBN1_HUMAN	fibrillin 1	2832					extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|heart development (GO:0007507)|kidney development (GO:0001822)|sequestering of BMP in extracellular matrix (GO:0035582)|sequestering of TGFbeta in extracellular matrix (GO:0035583)|skeletal system development (GO:0001501)	basement membrane (GO:0005604)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|microfibril (GO:0001527)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|extracellular matrix structural constituent (GO:0005201)			NS(1)|breast(5)|cervix(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(4)|kidney(6)|large_intestine(43)|liver(1)|lung(49)|ovary(4)|pancreas(1)|prostate(9)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	139		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GTGGAGTACTACTGATTTGTA	0.373																																																0													123	125	124					15																	48703307		2198	4296	6494	SO:0001819	synonymous_variant	2200			X63556	CCDS32232.1	15q21.1	2014-09-17	2006-04-25			ENSG00000166147			3603	protein-coding gene	gene with protein product	"Marfan syndrome"	134797	"fibrillin 1 (Marfan syndrome)"	FBN, MFS1, WMS		10036187, 12525539	Standard	NM_000138		Approved	MASS, OCTD, SGS	uc001zwx.2	P35555		ENST00000316623.5:c.8496T>C	15.37:g.48703307A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RUU0|D2JYH6|Q15972|Q75N87	Silent	SNP	ENST00000316623.5	37	CCDS32232.1																																																																																				0.373	FBN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000417355.1			G	48703307	A	G	48703307	2	3	664	1	0	0	0	0	0	0	0	1	5709	388	14	3		3	FBN1	15	48703307	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	3307076	48703307	53828085	739	42049										
FBN1	2200	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr15	48755319	48755319	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgttcacagggcttgttccaCgcccggccaatgttgtagga	12	11	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:48755319C>T	ENST00000316623.5	-	42	5639	c.5184G>A	c.(5182-5184)gcG>gcA	p.A1728A		NM_000138.4	NP_000129	P35555	FBN1_HUMAN	fibrillin 1	1728	TB 7.		A -> T (in GPHYSD2 and ACMICD). {ECO:0000269|PubMed:21683322}.|A -> V (in GPHYSD2). {ECO:0000269|PubMed:21683322}.		extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|heart development (GO:0007507)|kidney development (GO:0001822)|sequestering of BMP in extracellular matrix (GO:0035582)|sequestering of TGFbeta in extracellular matrix (GO:0035583)|skeletal system development (GO:0001501)	basement membrane (GO:0005604)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|microfibril (GO:0001527)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|extracellular matrix structural constituent (GO:0005201)			NS(1)|breast(5)|cervix(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(4)|kidney(6)|large_intestine(43)|liver(1)|lung(49)|ovary(4)|pancreas(1)|prostate(9)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	139		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GCTTGTTCCACGCCCGGCCAA	0.423																																																0													119	120	120					15																	48755319		2198	4296	6494	SO:0001819	synonymous_variant	2200			X63556	CCDS32232.1	15q21.1	2014-09-17	2006-04-25			ENSG00000166147			3603	protein-coding gene	gene with protein product	"Marfan syndrome"	134797	"fibrillin 1 (Marfan syndrome)"	FBN, MFS1, WMS		10036187, 12525539	Standard	NM_000138		Approved	MASS, OCTD, SGS	uc001zwx.2	P35555		ENST00000316623.5:c.5184G>A	15.37:g.48755319C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RUU0|D2JYH6|Q15972|Q75N87	Silent	SNP	ENST00000316623.5	37	CCDS32232.1																																																																																				0.423	FBN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000417355.1			T	48755319	C	T	48755319	2	4	664	1	0	0	0	0	0	0	0	1	5709	523	19	1		1	FBN1	15	48755319	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	52012	48755319	53776073	740	42050										
CEP152	22995	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	49030737	49030737	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tctgtatctgaaagataaccGgatggtgaaaactgtttgga	11	5	2	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:49030737G>A	ENST00000380950.2	-	27	5029	c.4842C>T	c.(4840-4842)tcC>tcT	p.S1614S	CEP152_ENST00000399334.3_Silent_p.S1558S	NM_001194998.1|NM_014985.3	NP_001181927.1|NP_055800.2	O94986	CE152_HUMAN	centrosomal protein 152kDa	1614					cell projection organization (GO:0030030)|centriole replication (GO:0007099)|centrosome duplication (GO:0051298)|de novo centriole assembly (GO:0098535)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)	centrosome (GO:0005813)|cytosol (GO:0005829)|deuterosome (GO:0098536)|nucleus (GO:0005634)	protein kinase binding (GO:0019901)			breast(3)|cervix(3)|endometrium(3)|kidney(3)|large_intestine(16)|lung(30)|ovary(1)|prostate(2)|skin(2)	63		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		AAAGATAACCGGATGGTGAAA	0.378																																																0													100	99	99					15																	49030737		1904	4130	6034	SO:0001819	synonymous_variant	22995			AB020719	CCDS42033.1, CCDS58361.1	15q21.1	2014-02-20							29298	protein-coding gene	gene with protein product	"asterless"	613529	"microcephaly, primary autosomal recessive 4"	MCPH4		14654843, 21131973	Standard	NM_014985		Approved	KIAA0912, SCKL5	uc001zwz.3	O94986		ENST00000380950.2:c.4842C>T	15.37:g.49030737G>A		Somatic		WXS	Illumina HiSeq	Phase_I	E7ER66|Q17RV1|Q6NTA0	Silent	SNP	ENST00000380950.2	37	CCDS58361.1																																																																																				0.378	CEP152-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000417365.1	NM_014985		A	49030737	G	A	49030737	2	1	664	1	0	0	0	0	0	0	0	1	3250	1103	39	1		1	CEP152	15	49030737	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	275418	49030737	53500655	741	42051										
SECISBP2L	9728	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	49304966	49304966	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agggctgacttttggttaaaGgttttctattagtagagtct	11	4	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:49304966G>T	ENST00000559471.1	-	12	1873	c.1610C>A	c.(1609-1611)cCt>cAt	p.P537H	SECISBP2L_ENST00000261847.3_Missense_Mutation_p.P492H	NM_001193489.1	NP_001180418.1	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	537							poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(5)|kidney(8)|large_intestine(12)|lung(11)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|urinary_tract(1)	46						TTTGGTTAAAGGTTTTCTATT	0.353																																																0													102	109	107					15																	49304966		2197	4295	6492	SO:0001583	missense	9728			BC033001	CCDS32234.1, CCDS53942.1	15q21.1	2014-02-12				ENSG00000138593			28997	protein-coding gene	gene with protein product		615756					Standard	NM_001193489		Approved	KIAA0256	uc001zxe.2	Q93073		ENST00000559471.1:c.1610C>A	15.37:g.49304966G>T	ENSP00000453854:p.Pro537His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N767	Missense_Mutation	SNP	ENST00000559471.1	37	CCDS53942.1	.	.	.	.	.	.	.	.	.	.	G	16.72	3.201942	0.58234	.	.	ENSG00000138593	ENST00000261847;ENST00000380927	T	0.72725	-0.68	5.76	5.76	0.90799	.	0.411718	0.29853	N	0.011027	T	0.53610	0.1807	N	0.08118	0	0.28199	N	0.927438	B;P	0.41569	0.412;0.755	B;B	0.41036	0.125;0.346	T	0.57207	-0.7851	10	0.52906	T	0.07	.	13.2058	0.59795	0.0726:0.0:0.9274:0.0	.	537;492	Q93073;Q93073-2	SBP2L_HUMAN;.	H	492;537	ENSP00000261847:P492H	ENSP00000261847:P492H	P	-	2	0	SECISBP2L	47092258	1.000000	0.71417	0.999000	0.59377	0.998000	0.95712	6.336000	0.72954	2.727000	0.93392	0.650000	0.86243	CCT		0.353	SECISBP2L-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000417277.1	NM_014701		T	49304966	G	T	49304966	3	4	664	1	0	0	0	0	1	0	0	0	14020	1000	35	4	1723	4	SECISBP2L	15	49304966	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	274229	49304966	53226426	742	42052										
HERC1	8925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	63966709	63966709	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caagaactgcagggctgctcGcatctccacgtcttcatgaa	9	13	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:63966709G>A	ENST00000443617.2	-	38	7765	c.7678C>T	c.(7678-7680)Cga>Tga	p.R2560*	RP11-317G6.1_ENST00000559303.2_RNA	NM_003922.3	NP_003913.3	Q15751	HERC1_HUMAN	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	2560					cerebellar Purkinje cell differentiation (GO:0021702)|negative regulation of autophagy (GO:0010507)|neuromuscular process controlling balance (GO:0050885)|neuron projection development (GO:0031175)|positive regulation of GTPase activity (GO:0043547)|transport (GO:0006810)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			NS(3)|breast(9)|central_nervous_system(4)|endometrium(23)|haematopoietic_and_lymphoid_tissue(1)|kidney(12)|large_intestine(22)|liver(1)|lung(36)|ovary(7)|prostate(4)|skin(3)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	132						AGGGCTGCTCGCATCTCCACG	0.493																																																0													74	72	73					15																	63966709		2050	4221	6271	SO:0001587	stop_gained	8925			U50078	CCDS45277.1	15q22	2013-01-10	2012-02-23			ENSG00000103657		"WD repeat domain containing"	4867	protein-coding gene	gene with protein product		605109	"hect (homologous to the E6-AP (UBE3A) carboxyl terminus) domain and RCC1 (CHC1)-like domain (RLD) 1"			8861955, 9233772	Standard	NM_003922		Approved	p532, p619	uc002amp.3	Q15751		ENST00000443617.2:c.7678C>T	15.37:g.63966709G>A	ENSP00000390158:p.Arg2560*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IW65	Nonsense_Mutation	SNP	ENST00000443617.2	37	CCDS45277.1	.	.	.	.	.	.	.	.	.	.	G	48	14.509192	0.99798	.	.	ENSG00000103657	ENST00000443617	.	.	.	5.87	5.87	0.94306	.	0.000000	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	14.9748	0.71264	0.0:0.0:0.8574:0.1426	.	.	.	.	X	2560	.	ENSP00000390158:R2560X	R	-	1	2	HERC1	61753762	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.095000	0.57728	2.775000	0.95449	0.650000	0.86243	CGA		0.493	HERC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418523.1	NM_003922		A	63966709	G	A	63966709	4	1	664	1	0	0	0	0	0	1	0	0	7064	1095	38	1	7071	1	HERC1	15	63966709	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	14661743	63966709	38564683	743	42053										
PLEKHO2	80301	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	65157910	65157910	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgttgaacaaggtgctgggCagtgagccggcccctgttag	15	10	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:65157910C>T	ENST00000323544.4	+	6	1424	c.1296C>T	c.(1294-1296)ggC>ggT	p.G432G	AC069368.3_ENST00000437723.1_Intron	NM_001195059.1|NM_025201.4	NP_001181988.1|NP_079477.2	Q8TD55	PKHO2_HUMAN	pleckstrin homology domain containing, family O member 2	432										NS(1)|breast(1)|cervix(3)|endometrium(1)|kidney(2)|large_intestine(5)|lung(9)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	25						AGGTGCTGGGCAGTGAGCCGG	0.612																																																0													46	49	48					15																	65157910		2202	4299	6501	SO:0001819	synonymous_variant	80301			AF318373	CCDS10196.1, CCDS73739.1	15q22.31	2013-01-10	2007-12-14	2007-12-14	ENSG00000241839	ENSG00000241839		"Pleckstrin homology (PH) domain containing"	30026	protein-coding gene	gene with protein product			"pleckstrin homology domain containing, family Q member 1"	PLEKHQ1		12477932	Standard	NM_025201		Approved	DKFZp761K2312, PP1628, pp9099	uc002anv.3	Q8TD55	OTTHUMG00000133050	ENST00000323544.4:c.1296C>T	15.37:g.65157910C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q7L4H4|Q8WYS8	Silent	SNP	ENST00000323544.4	37	CCDS10196.1																																																																																				0.612	PLEKHO2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256659.1	NM_025201		T	65157910	C	T	65157910	2	4	664	1	0	0	0	0	0	0	0	1	12092	697	25	2		2	PLEKHO2	15	65157910	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1191201	65157910	37373482	744	42054										
MEGF11	84465	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	66214758	66214758	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagggcctgctgctgtgcacGcagagggggcatggctgggc	19	11	0	1	rs146260891	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:66214758G>A	ENST00000409699.2	-	15	2047	c.1875C>T	c.(1873-1875)tgC>tgT	p.C625C	MEGF11_ENST00000360698.4_Silent_p.C625C|MEGF11_ENST00000395614.1_5'UTR|MEGF11_ENST00000395625.2_Silent_p.C550C|MEGF11_ENST00000422354.1_Silent_p.C625C|MEGF11_ENST00000288745.3_Silent_p.C550C			A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11	625					homotypic cell-cell adhesion (GO:0034109)|retina layer formation (GO:0010842)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(4)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	19						TGCTGTGCACGCAGAGGGGGC	0.637													G|||	2	0.000399361	0.0015	0.0	5008	,	,		17955	0.0		0.0	False		,,,				2504	0.0															0								G		2,4396		0,2,2197	24	22	22		1875	-1.3	1	15	dbSNP_134	22	0,8580		0,0,4290	no	coding-synonymous	MEGF11	NM_032445.2		0,2,6487	AA,AG,GG		0.0,0.0455,0.0154		625/1045	66214758	2,12976	2199	4290	6489	SO:0001819	synonymous_variant	84465			AB058677	CCDS10213.2	15q22.31	2006-03-31			ENSG00000157890	ENSG00000157890			29635	protein-coding gene	gene with protein product		612454				11347906	Standard	NM_032445		Approved	KIAA1781, DKFZp434L121	uc002apm.2	A6BM72	OTTHUMG00000133175	ENST00000409699.2:c.1875C>T	15.37:g.66214758G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q17R86|Q6UXS5|Q8ND91|Q96KG6	Silent	SNP	ENST00000409699.2	37	CCDS10213.2																																																																																				0.637	MEGF11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329307.2	NM_032445		A	66214758	G	A	66214758	2	1	664	1	0	0	0	0	0	0	0	1	9468	1079	38	1		1	MEGF11	15	66214758	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1056848	66214758	36316634	745	42055										
SMAD3	4088	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	67358664	67358664	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggagaaggccatcaccacgCagaacgtcaacaccaagtgc	10	13	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:67358664C>T	ENST00000327367.4	+	1	482	c.172C>T	c.(172-174)Cag>Tag	p.Q58*		NM_005902.3	NP_005893.1	P84022	SMAD3_HUMAN	SMAD family member 3	58	MH1. {ECO:0000255|PROSITE- ProRule:PRU00438}.				activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|activation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway (GO:0097296)|activin receptor signaling pathway (GO:0032924)|cell cycle arrest (GO:0007050)|cell-cell junction organization (GO:0045216)|developmental growth (GO:0048589)|embryonic cranial skeleton morphogenesis (GO:0048701)|embryonic foregut morphogenesis (GO:0048617)|embryonic pattern specification (GO:0009880)|endoderm development (GO:0007492)|evasion or tolerance of host defenses by virus (GO:0019049)|extrinsic apoptotic signaling pathway (GO:0097191)|gene expression (GO:0010467)|heart looping (GO:0001947)|immune response (GO:0006955)|immune system development (GO:0002520)|in utero embryonic development (GO:0001701)|intracellular signal transduction (GO:0035556)|lens fiber cell differentiation (GO:0070306)|liver development (GO:0001889)|mesoderm formation (GO:0001707)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of inflammatory response (GO:0050728)|negative regulation of mitotic cell cycle (GO:0045930)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of osteoblast proliferation (GO:0033689)|negative regulation of protein catabolic process (GO:0042177)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|negative regulation of wound healing (GO:0061045)|nodal signaling pathway (GO:0038092)|osteoblast development (GO:0002076)|paraxial mesoderm morphogenesis (GO:0048340)|pericardium development (GO:0060039)|positive regulation of alkaline phosphatase activity (GO:0010694)|positive regulation of bone mineralization (GO:0030501)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of catenin import into nucleus (GO:0035413)|positive regulation of cell migration (GO:0030335)|positive regulation of chondrocyte differentiation (GO:0032332)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of focal adhesion assembly (GO:0051894)|positive regulation of gene expression (GO:0010628)|positive regulation of gene expression involved in extracellular matrix organization (GO:1901313)|positive regulation of interleukin-1 beta production (GO:0032731)|positive regulation of positive chemotaxis (GO:0050927)|positive regulation of stress fiber assembly (GO:0051496)|positive regulation of transcription factor import into nucleus (GO:0042993)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of transforming growth factor beta3 production (GO:0032916)|primary miRNA processing (GO:0031053)|protein stabilization (GO:0050821)|regulation of binding (GO:0051098)|regulation of epithelial cell proliferation (GO:0050678)|regulation of immune response (GO:0050776)|regulation of striated muscle tissue development (GO:0016202)|regulation of transforming growth factor beta receptor signaling pathway (GO:0017015)|regulation of transforming growth factor beta2 production (GO:0032909)|response to hypoxia (GO:0001666)|signal transduction involved in regulation of gene expression (GO:0023019)|SMAD protein complex assembly (GO:0007183)|somitogenesis (GO:0001756)|T cell activation (GO:0042110)|thyroid gland development (GO:0030878)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transdifferentiation (GO:0060290)|transforming growth factor beta receptor signaling pathway (GO:0007179)|transport (GO:0006810)|ureteric bud development (GO:0001657)|wound healing (GO:0042060)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear chromatin (GO:0000790)|nuclear inner membrane (GO:0005637)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|SMAD protein complex (GO:0071141)|SMAD2-SMAD3 protein complex (GO:0071144)|transcription factor complex (GO:0005667)	beta-catenin binding (GO:0008013)|bHLH transcription factor binding (GO:0043425)|chromatin DNA binding (GO:0031490)|co-SMAD binding (GO:0070410)|core promoter proximal region sequence-specific DNA binding (GO:0000987)|double-stranded DNA binding (GO:0003690)|enhancer binding (GO:0035326)|phosphatase binding (GO:0019902)|protein homodimerization activity (GO:0042803)|protein kinase binding (GO:0019901)|R-SMAD binding (GO:0070412)|RNA polymerase II activating transcription factor binding (GO:0001102)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|transforming growth factor beta receptor binding (GO:0005160)|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity (GO:0030618)|ubiquitin binding (GO:0043130)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|central_nervous_system(1)|endometrium(4)|large_intestine(11)|lung(9)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	31				Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(7;0.125)		CATCACCACGCAGAACGTCAA	0.677																																																0													98	91	93					15																	67358664		2199	4299	6498	SO:0001587	stop_gained	4088			BC050743	CCDS10222.1, CCDS45288.1, CCDS53950.1, CCDS53951.1	15q21-q22	2006-11-06	2006-11-06	2004-05-26	ENSG00000166949	ENSG00000166949		"SMADs"	6769	protein-coding gene	gene with protein product		603109	"MAD, mothers against decapentaplegic homolog 3 (Drosophila)", "SMAD, mothers against DPP homolog 3 (Drosophila)"	MADH3		8774881, 8673135	Standard	NM_001145102		Approved	JV15-2, HsT17436	uc002aqj.3	P84022	OTTHUMG00000133230	ENST00000327367.4:c.172C>T	15.37:g.67358664C>T	ENSP00000332973:p.Gln58*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4B6|B7Z4Z5|B7Z6M9|B7Z9Q2|F5H383|O09064|O09144|O14510|O35273|Q92940|Q93002|Q9GKR4	Nonsense_Mutation	SNP	ENST00000327367.4	37	CCDS10222.1	.	.	.	.	.	.	.	.	.	.	C	40	8.222234	0.98712	.	.	ENSG00000166949	ENST00000327367;ENST00000535241	.	.	.	4.21	4.21	0.49690	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.39692	T	0.17	.	16.0748	0.80962	0.0:1.0:0.0:0.0	.	.	.	.	X	58	.	ENSP00000332973:Q58X	Q	+	1	0	SMAD3	65145718	1.000000	0.71417	1.000000	0.80357	0.925000	0.55904	7.334000	0.79224	2.315000	0.78130	0.561000	0.74099	CAG		0.677	SMAD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256967.2	NM_005902		T	67358664	C	T	67358664	4	4	664	1	0	0	0	0	0	1	0	0	14772	711	25	2	174	2	SMAD3	15	67358664	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1143906	67358664	35172728	746	42056										
GLCE	26035	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	69548276	69548276	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccagtttccacggcgttcgaGtagtggcttcagagtggatg	14	9	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:69548276G>T	ENST00000261858.2	+	3	359	c.131G>T	c.(130-132)aGt>aTt	p.S44I	GLCE_ENST00000559420.2_5'UTR	NM_015554.1	NP_056369.1	O94923	GLCE_HUMAN	glucuronic acid epimerase	44					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan metabolic process (GO:0030203)|heparan sulfate proteoglycan biosynthetic process (GO:0015012)|heparin biosynthetic process (GO:0030210)|small molecule metabolic process (GO:0044281)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	heparosan-N-sulfate-glucuronate 5-epimerase activity (GO:0047464)|racemase and epimerase activity, acting on carbohydrates and derivatives (GO:0016857)|UDP-glucuronate 5'-epimerase activity (GO:0050379)			NS(1)|breast(1)|kidney(2)|large_intestine(6)|lung(4)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	18						CGGCGTTCGAGTAGTGGCTTC	0.438																																																0													101	97	98					15																	69548276		2200	4298	6498	SO:0001583	missense	26035			AB020643	CCDS32277.1	15q23	2007-01-30	2007-01-30			ENSG00000138604	5.1.3.12		17855	protein-coding gene	gene with protein product	"heparan sulfate epimerase"	612134	"D-glucuronyl C5-epimerase", "UDP-glucuronic acid epimerase"			15853773	Standard	NM_015554		Approved	KIAA0836, HSEPI	uc002ary.1	O94923		ENST00000261858.2:c.131G>T	15.37:g.69548276G>T	ENSP00000261858:p.Ser44Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GUQ2	Missense_Mutation	SNP	ENST00000261858.2	37	CCDS32277.1	.	.	.	.	.	.	.	.	.	.	G	12.11	1.841090	0.32513	.	.	ENSG00000138604	ENST00000261858	T	0.32515	1.45	5.3	3.39	0.38822	.	0.732889	0.14624	N	0.308237	T	0.16557	0.0398	N	0.08118	0	0.30766	N	0.743522	B	0.12013	0.005	B	0.09377	0.004	T	0.09465	-1.0673	10	0.39692	T	0.17	-12.9551	11.3542	0.49607	0.1588:0.0:0.8412:0.0	.	44	O94923	GLCE_HUMAN	I	44	ENSP00000261858:S44I	ENSP00000261858:S44I	S	+	2	0	GLCE	67335330	0.027000	0.19231	1.000000	0.80357	0.886000	0.51366	0.851000	0.27751	1.361000	0.45981	0.655000	0.94253	AGT		0.438	GLCE-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_015554		T	69548276	G	T	69548276	3	4	664	1	0	0	0	0	1	0	0	0	6439	1029	36	4	133	4	GLCE	15	69548276	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2189612	69548276	32983116	747	42057										
MYO9A	4649	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr15	72292238	72292238	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcttttctcccactgtcaccGtcttccttgtaactaatgct	5	14	3	0	rs148826761		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:72292238G>A	ENST00000356056.5	-	9	1896	c.1424C>T	c.(1423-1425)aCg>aTg	p.T475M	MYO9A_ENST00000444904.1_Missense_Mutation_p.T456M|MYO9A_ENST00000563542.1_5'UTR|MYO9A_ENST00000566885.1_Missense_Mutation_p.T70M|MYO9A_ENST00000424560.1_Missense_Mutation_p.T475M|MYO9A_ENST00000564571.1_Missense_Mutation_p.T475M|RP11-390D11.1_ENST00000568391.1_RNA	NM_006901.3	NP_008832.2	B2RTY4	MYO9A_HUMAN	myosin IXA	475	Myosin motor.				regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|visual perception (GO:0007601)	cytosol (GO:0005829)|integral component of membrane (GO:0016021)|unconventional myosin complex (GO:0016461)	ATP binding (GO:0005524)|GTPase activator activity (GO:0005096)|metal ion binding (GO:0046872)|motor activity (GO:0003774)			NS(4)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(29)|lung(27)|ovary(1)|pancreas(1)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	88						CACTGTCACCGTCTTCCTTGT	0.328																																																0								G	MET/THR	0,4398		0,0,2199	166	151	156		1424	5.7	1	15	dbSNP_134	156	1,8593	1.2+/-3.3	0,1,4296	no	missense	MYO9A	NM_006901.2	81	0,1,6495	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	475/2549	72292238	1,12991	2199	4297	6496	SO:0001583	missense	4649			AF117888	CCDS10239.1	15q22-q23	2011-09-27			ENSG00000066933	ENSG00000066933		"Myosins / Myosin superfamily : Class IX"	7608	protein-coding gene	gene with protein product		604875				10409426	Standard	NM_006901		Approved	FLJ11061, FLJ13244, MGC71859	uc002atl.5	B2RTY4	OTTHUMG00000133440	ENST00000356056.5:c.1424C>T	15.37:g.72292238G>A	ENSP00000348349:p.Thr475Met	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1T5|C9IYB3|C9JA86|Q14787|Q3YLD7|Q3YLD8|Q6P986|Q9H8T5|Q9NTG2|Q9NUY2|Q9UEP3|Q9UNJ2	Missense_Mutation	SNP	ENST00000356056.5	37	CCDS10239.1	.	.	.	.	.	.	.	.	.	.	G	29.3	4.993643	0.93167	0.0	1.16E-4	ENSG00000066933	ENST00000356056;ENST00000424560;ENST00000444904;ENST00000261864;ENST00000446448	D;D;D	0.86627	-2.15;-2.15;-2.15	5.73	5.73	0.89815	Myosin head, motor domain (2);	.	.	.	.	D	0.88614	0.6484	N	0.17594	0.5	0.80722	D	1	D;P;D;D	0.89917	1.0;0.884;0.988;0.974	D;B;P;P	0.85130	0.997;0.422;0.576;0.871	D	0.87321	0.2318	9	0.30078	T	0.28	.	19.4942	0.95065	0.0:0.0:1.0:0.0	.	456;475;456;475	B2RTY4-2;B2RTY4-3;B7WP69;B2RTY4	.;.;.;MYO9A_HUMAN	M	475;475;456;456;475	ENSP00000348349:T475M;ENSP00000399162:T475M;ENSP00000398250:T456M	ENSP00000261864:T456M	T	-	2	0	MYO9A	70079292	1.000000	0.71417	0.987000	0.45799	0.989000	0.77384	9.145000	0.94634	2.706000	0.92434	0.557000	0.71058	ACG		0.328	MYO9A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257308.1	NM_006901		A	72292238	G	A	72292238	3	1	664	1	0	0	0	0	1	0	0	0	10091	1145	40	1	6358	1	MYO9A	15	72292238	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2743962	72292238	30239154	748	42058										
HCN4	10021	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	73615982	73615982	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccttggcgtctgcccggcacCgaggttgcccagcccagatc	12	17	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:73615982C>T	ENST00000261917.3	-	8	3445	c.2452G>A	c.(2452-2454)Ggt>Agt	p.G818S		NM_005477.2	NP_005468.1	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic nucleotide-gated potassium channel 4	818					blood circulation (GO:0008015)|cation transport (GO:0006812)|cellular response to cAMP (GO:0071320)|cellular response to cGMP (GO:0071321)|in utero embryonic development (GO:0001701)|muscle contraction (GO:0006936)|potassium ion transmembrane transport (GO:0071805)|regulation of heart rate (GO:0002027)|regulation of membrane potential (GO:0042391)|sodium ion transmembrane transport (GO:0035725)|synaptic transmission (GO:0007268)	integral component of plasma membrane (GO:0005887)|intrinsic component of plasma membrane (GO:0031226)|plasma membrane (GO:0005886)|terminal bouton (GO:0043195)	cAMP binding (GO:0030552)|cation channel activity (GO:0005261)|identical protein binding (GO:0042802)|intracellular cAMP activated cation channel activity (GO:0005222)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated sodium channel activity (GO:0005248)			NS(2)|biliary_tract(1)|breast(1)|endometrium(4)|kidney(1)|large_intestine(13)|liver(1)|lung(18)|ovary(6)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	55				COAD - Colon adenocarcinoma(1;0.142)		TGCCCGGCACCGAGGTTGCCC	0.697																																																0													26	30	29					15																	73615982		2194	4295	6489	SO:0001583	missense	10021			AJ132429	CCDS10248.1	15q24.1	2011-07-05			ENSG00000138622	ENSG00000138622		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	16882	protein-coding gene	gene with protein product		605206				10228147, 10430953, 16382102	Standard	NM_005477		Approved		uc002avp.3	Q9Y3Q4	OTTHUMG00000137563	ENST00000261917.3:c.2452G>A	15.37:g.73615982C>T	ENSP00000261917:p.Gly818Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UMQ7	Missense_Mutation	SNP	ENST00000261917.3	37	CCDS10248.1	.	.	.	.	.	.	.	.	.	.	C	8.628	0.892994	0.17613	.	.	ENSG00000138622	ENST00000261917	T	0.78003	-1.14	3.59	3.59	0.41128	.	.	.	.	.	T	0.69780	0.3149	L	0.47716	1.5	0.09310	N	1	D	0.67145	0.996	P	0.45343	0.477	T	0.59268	-0.7486	9	0.08599	T	0.76	.	10.7797	0.46371	0.1896:0.8104:0.0:0.0	.	818	Q9Y3Q4	HCN4_HUMAN	S	818	ENSP00000261917:G818S	ENSP00000261917:G818S	G	-	1	0	HCN4	71403035	0.254000	0.23992	0.173000	0.22940	0.177000	0.22998	1.910000	0.39927	1.828000	0.53243	0.462000	0.41574	GGT		0.697	HCN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268900.2	NM_005477		T	73615982	C	T	73615982	3	4	664	1	0	0	0	0	1	0	0	0	7006	652	23	1	1163	1	HCN4	15	73615982	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1323744	73615982	28915410	749	42059										
PML	5371	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	74315583	74315583	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgcagaggatgaagtgctaCgcctcggaccaggaggtgct	16	9	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:74315583C>T	ENST00000268058.3	+	3	1113	c.1017C>T	c.(1015-1017)taC>taT	p.Y339Y	PML_ENST00000436891.3_Silent_p.Y339Y|PML_ENST00000395132.2_Silent_p.Y339Y|PML_ENST00000563500.1_Silent_p.Y339Y|PML_ENST00000354026.6_Silent_p.Y339Y|PML_ENST00000567543.1_Silent_p.Y339Y|PML_ENST00000569965.1_Silent_p.Y339Y|PML_ENST00000395135.3_Silent_p.Y339Y|PML_ENST00000565898.1_Silent_p.Y339Y|PML_ENST00000569161.1_3'UTR|PML_ENST00000435786.2_Silent_p.Y339Y|PML_ENST00000268059.6_Silent_p.Y339Y|PML_ENST00000359928.4_Silent_p.Y339Y|PML_ENST00000569477.1_Silent_p.Y339Y|PML_ENST00000564428.1_Silent_p.Y339Y	NM_033238.2	NP_150241.2	P29590	PML_HUMAN	promyelocytic leukemia	339					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic process (GO:0006915)|branching involved in mammary gland duct morphogenesis (GO:0060444)|cell cycle arrest (GO:0007050)|cell fate commitment (GO:0045165)|cellular response to interleukin-4 (GO:0071353)|cellular senescence (GO:0090398)|circadian regulation of gene expression (GO:0032922)|common-partner SMAD protein phosphorylation (GO:0007182)|cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|endoplasmic reticulum calcium ion homeostasis (GO:0032469)|entrainment of circadian clock by photoperiod (GO:0043153)|extrinsic apoptotic signaling pathway (GO:0097191)|innate immune response (GO:0045087)|interferon-gamma-mediated signaling pathway (GO:0060333)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress (GO:0070059)|intrinsic apoptotic signaling pathway in response to oxidative stress (GO:0008631)|maintenance of protein location in nucleus (GO:0051457)|myeloid cell differentiation (GO:0030099)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of mitotic cell cycle (GO:0045930)|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000059)|negative regulation of telomerase activity (GO:0051974)|negative regulation of telomere maintenance via telomerase (GO:0032211)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of translation in response to oxidative stress (GO:0032938)|negative regulation of viral release from host cell (GO:1902187)|PML body organization (GO:0030578)|positive regulation of apoptotic process involved in mammary gland involution (GO:0060058)|positive regulation of defense response to virus by host (GO:0002230)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of histone deacetylation (GO:0031065)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein complex assembly (GO:0006461)|protein stabilization (GO:0050821)|protein targeting (GO:0006605)|regulation of calcium ion transport into cytosol (GO:0010522)|regulation of circadian rhythm (GO:0042752)|regulation of double-strand break repair (GO:2000779)|regulation of MHC class I biosynthetic process (GO:0045343)|regulation of protein phosphorylation (GO:0001932)|regulation of transcription, DNA-templated (GO:0006355)|response to cytokine (GO:0034097)|response to gamma radiation (GO:0010332)|response to hypoxia (GO:0001666)|response to UV (GO:0009411)|retinoic acid receptor signaling pathway (GO:0048384)|SMAD protein import into nucleus (GO:0007184)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome (GO:0005768)|extrinsic component of endoplasmic reticulum membrane (GO:0042406)|nuclear matrix (GO:0016363)|nuclear membrane (GO:0031965)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)	cobalt ion binding (GO:0050897)|DNA binding (GO:0003677)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|SUMO binding (GO:0032183)|transcription coactivator activity (GO:0003713)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(2)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(6)|lung(8)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	31						TGAAGTGCTACGCCTCGGACC	0.692			T	"RARA, PAX5"	"APL, ALL"																																		Dom	yes		15	15q22	5371	promyelocytic leukemia		L	0													26	31	30					15																	74315583		2193	4284	6477	SO:0001819	synonymous_variant	5371			AB208950	CCDS10255.1, CCDS10256.1, CCDS10257.1, CCDS10258.1, CCDS45297.1, CCDS45298.1, CCDS45299.1, CCDS45300.1, CCDS58386.1	15q24.1	2011-04-21			ENSG00000140464	ENSG00000140464		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	9113	protein-coding gene	gene with protein product		102578					Standard	NM_033244		Approved	MYL, TRIM19, RNF71	uc002awv.3	P29590	OTTHUMG00000137607	ENST00000268058.3:c.1017C>T	15.37:g.74315583C>T		Somatic		WXS	Illumina HiSeq	Phase_I	E9PBR7|P29591|P29592|P29593|Q00755|Q15959|Q59FP9|Q8WUA0|Q96S41|Q9BPW2|Q9BWP7|Q9BZX6|Q9BZX7|Q9BZX8|Q9BZX9|Q9BZY0|Q9BZY2|Q9BZY3	Silent	SNP	ENST00000268058.3	37	CCDS10255.1																																																																																				0.692	PML-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269021.3	NM_002675		T	74315583	C	T	74315583	2	4	664	1	0	0	0	0	0	0	0	1	12142	547	19	1		1	PML	15	74315583	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	699601	74315583	28215809	750	42060										
PML	5371	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr15	74327978	74327978	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcagcccaccccaccggataCgaggggctgtgcgatcccgc	12	17	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:74327978C>T	ENST00000268058.3	+	7	1806				PML_ENST00000436891.3_3'UTR|PML_ENST00000395132.2_Intron|PML_ENST00000563500.1_3'UTR|PML_ENST00000354026.6_Nonsense_Mutation_p.R678*|PML_ENST00000569965.1_Intron|PML_ENST00000395135.3_Intron|PML_ENST00000565898.1_Intron|PML_ENST00000435786.2_3'UTR|PML_ENST00000268059.6_Nonsense_Mutation_p.R726*|PML_ENST00000359928.4_Intron|PML_ENST00000564428.1_Intron	NM_033238.2	NP_150241.2	P29590	PML_HUMAN	promyelocytic leukemia						activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic process (GO:0006915)|branching involved in mammary gland duct morphogenesis (GO:0060444)|cell cycle arrest (GO:0007050)|cell fate commitment (GO:0045165)|cellular response to interleukin-4 (GO:0071353)|cellular senescence (GO:0090398)|circadian regulation of gene expression (GO:0032922)|common-partner SMAD protein phosphorylation (GO:0007182)|cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|endoplasmic reticulum calcium ion homeostasis (GO:0032469)|entrainment of circadian clock by photoperiod (GO:0043153)|extrinsic apoptotic signaling pathway (GO:0097191)|innate immune response (GO:0045087)|interferon-gamma-mediated signaling pathway (GO:0060333)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress (GO:0070059)|intrinsic apoptotic signaling pathway in response to oxidative stress (GO:0008631)|maintenance of protein location in nucleus (GO:0051457)|myeloid cell differentiation (GO:0030099)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of mitotic cell cycle (GO:0045930)|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000059)|negative regulation of telomerase activity (GO:0051974)|negative regulation of telomere maintenance via telomerase (GO:0032211)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of translation in response to oxidative stress (GO:0032938)|negative regulation of viral release from host cell (GO:1902187)|PML body organization (GO:0030578)|positive regulation of apoptotic process involved in mammary gland involution (GO:0060058)|positive regulation of defense response to virus by host (GO:0002230)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of histone deacetylation (GO:0031065)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein complex assembly (GO:0006461)|protein stabilization (GO:0050821)|protein targeting (GO:0006605)|regulation of calcium ion transport into cytosol (GO:0010522)|regulation of circadian rhythm (GO:0042752)|regulation of double-strand break repair (GO:2000779)|regulation of MHC class I biosynthetic process (GO:0045343)|regulation of protein phosphorylation (GO:0001932)|regulation of transcription, DNA-templated (GO:0006355)|response to cytokine (GO:0034097)|response to gamma radiation (GO:0010332)|response to hypoxia (GO:0001666)|response to UV (GO:0009411)|retinoic acid receptor signaling pathway (GO:0048384)|SMAD protein import into nucleus (GO:0007184)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome (GO:0005768)|extrinsic component of endoplasmic reticulum membrane (GO:0042406)|nuclear matrix (GO:0016363)|nuclear membrane (GO:0031965)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)	cobalt ion binding (GO:0050897)|DNA binding (GO:0003677)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|SUMO binding (GO:0032183)|transcription coactivator activity (GO:0003713)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(2)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(6)|lung(8)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	31						CCACCGGATACGAGGGGCTGT	0.627			T	"RARA, PAX5"	"APL, ALL"																																		Dom	yes		15	15q22	5371	promyelocytic leukemia		L	0													59	62	61					15																	74327978		2198	4296	6494	SO:0001627	intron_variant	5371			AB208950	CCDS10255.1, CCDS10256.1, CCDS10257.1, CCDS10258.1, CCDS45297.1, CCDS45298.1, CCDS45299.1, CCDS45300.1, CCDS58386.1	15q24.1	2011-04-21			ENSG00000140464	ENSG00000140464		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	9113	protein-coding gene	gene with protein product		102578					Standard	NM_033244		Approved	MYL, TRIM19, RNF71	uc002awv.3	P29590	OTTHUMG00000137607	ENST00000268058.3:c.1710+1107C>T	15.37:g.74327978C>T		Somatic		WXS	Illumina HiSeq	Phase_I	E9PBR7|P29591|P29592|P29593|Q00755|Q15959|Q59FP9|Q8WUA0|Q96S41|Q9BPW2|Q9BWP7|Q9BZX6|Q9BZX7|Q9BZX8|Q9BZX9|Q9BZY0|Q9BZY2|Q9BZY3	Nonsense_Mutation	SNP	ENST00000268058.3	37	CCDS10255.1	.	.	.	.	.	.	.	.	.	.	C	18.71	3.681459	0.68042	.	.	ENSG00000140464	ENST00000268059;ENST00000354026	.	.	.	2.93	-1.43	0.08884	.	.	.	.	.	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	2.2058	0.03935	0.1872:0.3287:0.3666:0.1176	.	.	.	.	X	726;678	.	ENSP00000268059:R726X	R	+	1	2	PML	72115031	0.000000	0.05858	0.000000	0.03702	0.019000	0.09904	-0.282000	0.08445	-0.309000	0.08779	0.462000	0.41574	CGA		0.627	PML-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269021.3	NM_002675		T	74327978	C	T	74327978	1	4	664	0	1	0	0	0	0	0	0	0	12142	528	19	1		1	PML	15	74327978	Intron	SNP	C	TCGA-KN-8428-01A-11D-2310-10	12395	74327978	28203414	751	42061										
CCDC33	80125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	74554873	74554873	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agcccctatctggggggacaCggtgaatgtggagatccaag	15	9	1	2	rs201382754		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:74554873C>T	ENST00000398814.3	+	3	709	c.278C>T	c.(277-279)aCg>aTg	p.T93M	CCDC33_ENST00000321288.5_Missense_Mutation_p.T296M	NM_025055.3	NP_079331.3	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33	296										breast(2)|central_nervous_system(2)|endometrium(1)|kidney(2)|large_intestine(2)|lung(17)|ovary(4)|pancreas(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(2)	39						TGGGGGGACACGGTGAATGTG	0.582													C|||	1	0.000199681	0.0008	0.0	5008	,	,		18790	0.0		0.0	False		,,,				2504	0.0															0								C	MET/THR	4,4038		0,4,2017	31	34	33		278	3.8	1	15		33	0,8320		0,0,4160	yes	missense	CCDC33	NM_025055.3	81	0,4,6177	TT,TC,CC		0.0,0.099,0.0324	probably-damaging	93/756	74554873	4,12358	2021	4160	6181	SO:0001583	missense	80125			BC025689	CCDS42058.1, CCDS42059.1, CCDS73753.1	15q24.1	2009-08-06				ENSG00000140481			26552	protein-coding gene	gene with protein product	"cancer/testis antigen 61"					12477932	Standard	NM_025055		Approved	FLJ32855, CT61	uc002axo.4	Q8N5R6		ENST00000398814.3:c.278C>T	15.37:g.74554873C>T	ENSP00000381795:p.Thr93Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3U4|A8MPQ6|A8MV61|A8MVU9|B3KQ49|Q8TAX6|Q9H5Q6	Missense_Mutation	SNP	ENST00000398814.3	37	CCDS42058.1	.	.	.	.	.	.	.	.	.	.	C	15.67	2.902160	0.52227	9.9E-4	0.0	ENSG00000140481	ENST00000321288;ENST00000398814	T;T	0.70631	-0.5;-0.5	4.67	3.75	0.43078	.	0.000000	0.38005	U	0.001850	T	0.78104	0.4231	M	0.65975	2.015	0.33452	D	0.583762	D	0.89917	1.0	D	0.66847	0.947	T	0.82020	-0.0664	10	0.48119	T	0.1	.	7.77	0.29001	0.0:0.8872:0.0:0.1128	.	93	Q8N5R6-6	.	M	296;93	ENSP00000325012:T296M;ENSP00000381795:T93M	ENSP00000325012:T296M	T	+	2	0	CCDC33	72341926	0.099000	0.21834	0.983000	0.44433	0.675000	0.39556	0.539000	0.23175	2.141000	0.66446	0.462000	0.41574	ACG		0.582	CCDC33-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000419491.2	NM_182791		T	74554873	C	T	74554873	3	4	664	1	0	0	0	0	1	0	0	0	2808	536	19	1	288	1	CCDC33	15	74554873	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	226895	74554873	27976519	752	42062										
LMAN1L	79748	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	75108525	75108525	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctgggcctggaggaagtgcGgctgacgccatccatgagga	16	11	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:75108525G>A	ENST00000309664.5	+	2	342	c.203G>A	c.(202-204)cGg>cAg	p.R68Q	LMAN1L_ENST00000379709.3_Missense_Mutation_p.R68Q	NM_021819.2	NP_068591.2	Q9HAT1	LMA1L_HUMAN	lectin, mannose-binding, 1 like	68	L-type lectin-like. {ECO:0000255|PROSITE- ProRule:PRU00658}.					integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)			NS(2)|breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(8)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	19						GAGGAAGTGCGGCTGACGCCA	0.642																																																0													31	26	27					15																	75108525		2159	4232	6391	SO:0001583	missense	79748			AF303398	CCDS10270.1	15q24.1	2005-08-05			ENSG00000140506	ENSG00000140506			6632	protein-coding gene	gene with protein product		609548				11255007	Standard	NM_021819		Approved	ERGL, ERGIC-53L	uc002ayt.1	Q9HAT1	OTTHUMG00000142813	ENST00000309664.5:c.203G>A	15.37:g.75108525G>A	ENSP00000310431:p.Arg68Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UWN2	Missense_Mutation	SNP	ENST00000309664.5	37	CCDS10270.1	.	.	.	.	.	.	.	.	.	.	G	32	5.114969	0.94339	.	.	ENSG00000140506	ENST00000309664;ENST00000379709	T;T	0.67171	-0.25;-0.25	5.35	5.35	0.76521	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);	0.000000	0.64402	D	0.000005	D	0.84520	0.5490	M	0.89715	3.055	0.58432	D	0.999999	D;D	0.89917	1.0;1.0	D;D	0.91635	0.997;0.999	D	0.87546	0.2462	10	0.87932	D	0	.	14.5567	0.68106	0.0:0.0:1.0:0.0	.	68;68	Q9HAT1-3;Q9HAT1	.;LMA1L_HUMAN	Q	68	ENSP00000310431:R68Q;ENSP00000369031:R68Q	ENSP00000310431:R68Q	R	+	2	0	LMAN1L	72895578	1.000000	0.71417	0.999000	0.59377	0.975000	0.68041	3.605000	0.54088	2.508000	0.84585	0.484000	0.47621	CGG		0.642	LMAN1L-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286397.4			A	75108525	G	A	75108525	3	1	664	1	0	0	0	0	1	0	0	0	8844	1116	39	1	209	1	LMAN1L	15	75108525	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	553652	75108525	27422867	753	42063										
SNX33	257364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	75949418	75949418	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgggtttcgccctgcaggcCgagatgaaccacttccacca	11	14	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:75949418C>T	ENST00000308527.5	+	2	2784	c.1587C>T	c.(1585-1587)gcC>gcT	p.A529A		NM_153271.1	NP_695003.1	Q8WV41	SNX33_HUMAN	sorting nexin 33	529	BAR.				cleavage furrow formation (GO:0036089)|endocytosis (GO:0006897)|endosomal transport (GO:0016197)|endosome organization (GO:0007032)|intracellular protein transport (GO:0006886)|macropinocytosis (GO:0044351)|membrane tubulation (GO:0097320)|mitotic cytokinesis (GO:0000281)|mitotic nuclear division (GO:0007067)|negative regulation of endocytosis (GO:0045806)|negative regulation of protein localization to cell surface (GO:2000009)|positive regulation of membrane protein ectodomain proteolysis (GO:0051044)|positive regulation of protein localization to cell surface (GO:2000010)|protein import (GO:0017038)	cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|endosome (GO:0005768)|extrinsic component of membrane (GO:0019898)|membrane (GO:0016020)	identical protein binding (GO:0042802)|phosphatidylinositol binding (GO:0035091)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(3)|ovary(1)|prostate(1)|soft_tissue(1)|urinary_tract(2)	19						CCCTGCAGGCCGAGATGAACC	0.627																																																0													99	82	88					15																	75949418		2197	4294	6491	SO:0001819	synonymous_variant	257364			AK091291	CCDS10283.1	15q23	2008-04-18	2008-03-25	2008-03-25	ENSG00000173548	ENSG00000173548			28468	protein-coding gene	gene with protein product			"SH3 and PX domain containing 3"	SH3PX3		16374509, 16782399, 18353773	Standard	NM_153271		Approved	MGC32065, SH3PXD3C, SNX30	uc002bau.3	Q8WV41	OTTHUMG00000142835	ENST00000308527.5:c.1587C>T	15.37:g.75949418C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B1NM17	Silent	SNP	ENST00000308527.5	37	CCDS10283.1																																																																																				0.627	SNX33-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286471.1	NM_153271		T	75949418	C	T	75949418	2	4	664	1	0	0	0	0	0	0	0	1	14916	639	23	1		1	SNX33	15	75949418	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	840893	75949418	26581974	754	42064										
CSPG4	1464	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	75980709	75980709	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggacattggtgaggacaggCgcatctgggtcaccaccaat	13	10	2	1	rs144209551		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:75980709C>T	ENST00000308508.5	-	3	2789	c.2697G>A	c.(2695-2697)gcG>gcA	p.A899A		NM_001897.4	NP_001888.2	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4	899	Gly/Ser-rich (glycosaminoglycan attachment domain).|Interaction with COL5A1. {ECO:0000250}.|Interaction with COL6A2. {ECO:0000250}.				activation of MAPK activity (GO:0000187)|angiogenesis (GO:0001525)|carbohydrate metabolic process (GO:0005975)|cell proliferation (GO:0008283)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|glial cell migration (GO:0008347)|glycosaminoglycan metabolic process (GO:0030203)|intracellular signal transduction (GO:0035556)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|small molecule metabolic process (GO:0044281)|tissue remodeling (GO:0048771)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cell projection (GO:0042995)|cell surface (GO:0009986)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi lumen (GO:0005796)|integral component of plasma membrane (GO:0005887)|lysosomal lumen (GO:0043202)	protein kinase binding (GO:0019901)|signal transducer activity (GO:0004871)			breast(1)|cervix(2)|endometrium(5)|kidney(5)|large_intestine(3)|liver(2)|lung(18)|ovary(2)|pancreas(2)|prostate(4)|skin(4)	48						TGAGGACAGGCGCATCTGGGT	0.567																																																0								C		0,4392		0,0,2196	69	65	67		2697	-10	0	15	dbSNP_134	67	2,8586		0,2,4292	no	coding-synonymous	CSPG4	NM_001897.4		0,2,6488	TT,TC,CC		0.0233,0.0,0.0154		899/2323	75980709	2,12978	2196	4294	6490	SO:0001819	synonymous_variant	1464			X96753, AY359468	CCDS10284.1	15q24.2	2010-04-19	2007-02-16		ENSG00000173546	ENSG00000173546		"Proteoglycans / Cell surface : Other"	2466	protein-coding gene	gene with protein product	"melanoma-associated chondroitin sulfate proteoglycan"	601172	"chondroitin sulfate proteoglycan 4 (melanoma-associated)"			8790396, 16407841	Standard	NM_001897		Approved	MCSPG, MEL-CSPG, MSK16, NG2, MCSP, HMW-MAA	uc002baw.3	Q6UVK1	OTTHUMG00000142836	ENST00000308508.5:c.2697G>A	15.37:g.75980709C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DW77|Q92675	Silent	SNP	ENST00000308508.5	37	CCDS10284.1																																																																																				0.567	CSPG4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286472.1	NM_001897		T	75980709	C	T	75980709	2	4	664	1	0	0	0	0	0	0	0	1	3962	755	27	1		1	CSPG4	15	75980709	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	31291	75980709	26550683	755	42065										
TSPAN3	10099	hgsc.bcm.edu	37	chr15	77363263	77363263	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaggttgagaaagaccagcaCggtcttggaggaggtgatgc	17	6	1	3	rs111428129	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:77363263C>T	ENST00000267970.4	-	1	307	c.34G>A	c.(34-36)Gtg>Atg	p.V12M	TSPAN3_ENST00000561277.1_Intron|TSPAN3_ENST00000558745.1_Intron|TSPAN3_ENST00000424443.3_Missense_Mutation_p.V12M|TSPAN3_ENST00000559494.1_Missense_Mutation_p.V12M|TSPAN3_ENST00000346495.2_Missense_Mutation_p.V12M|TSPAN3_ENST00000558394.1_5'UTR|RP11-797A18.6_ENST00000602975.1_RNA	NM_001168412.1|NM_005724.5|NM_198902.2	NP_001161884.1|NP_005715.1|NP_944492.1	O60637	TSN3_HUMAN	tetraspanin 3	12						extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				kidney(1)|large_intestine(2)|lung(6)|urinary_tract(1)	10				all cancers(203;1.14e-19)		AAGACCAGCACGGTCTTGGAG	0.756													C|||	12	0.00239617	0.0	0.0014	5008	,	,		7377	0.0		0.0099	False		,,,				2504	0.001															0								C	MET/VAL,MET/VAL,MET/VAL	3,3785		0,3,1891	13	14	13		34,34,34	5.6	1	15	dbSNP_132	13	29,7105		0,29,3538	yes	missense,missense,missense	TSPAN3	NM_001168412.1,NM_005724.5,NM_198902.2	21,21,21	0,32,5429	TT,TC,CC		0.4065,0.0792,0.293	benign,benign,benign	12/190,12/254,12/229	77363263	32,10890	1894	3567	5461	SO:0001583	missense	10099				CCDS10292.1, CCDS10293.1, CCDS53963.1	15q23	2013-02-14	2005-03-21	2005-03-21	ENSG00000140391	ENSG00000140391		"Tetraspanins"	17752	protein-coding gene	gene with protein product		613134	"transmembrane 4 superfamily member 8"	TM4SF8			Standard	NM_005724		Approved	TM4-A, TSPAN-3	uc002bcj.3	O60637	OTTHUMG00000143728	ENST00000267970.4:c.34G>A	15.37:g.77363263C>T	ENSP00000267970:p.Val12Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEH4|B3KQQ2|B4DP19|Q9BW22|Q9NVX9	Missense_Mutation	SNP	ENST00000267970.4	37	CCDS10292.1	5	0.0022893772893772895	0	0.0	0	0.0	0	0.0	5	0.006596306068601583	C	32	5.138719	0.94560	7.92E-4	0.004065	ENSG00000140391	ENST00000267970;ENST00000424443;ENST00000346495	T;T;T	0.80653	-1.4;0.53;-1.4	5.58	5.58	0.84498	.	0.392961	0.24808	N	0.035429	T	0.78566	0.4303	L	0.45137	1.4	0.80722	D	1	D;P;B	0.59357	0.985;0.535;0.368	P;B;B	0.55749	0.783;0.169;0.169	T	0.79694	-0.1696	10	0.38643	T	0.18	.	16.4874	0.84188	0.0:1.0:0.0:0.0	.	12;12;12	B4DP19;A6NEH4;O60637	.;.;TSN3_HUMAN	M	12	ENSP00000267970:V12M;ENSP00000407243:V12M;ENSP00000341329:V12M	ENSP00000267970:V12M	V	-	1	0	TSPAN3	75150318	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	3.131000	0.50515	2.619000	0.88677	0.563000	0.77884	GTG		0.756	TSPAN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000289792.3	NM_005724		T	77363263	C	T	77363263	3	4	664	1	0	0	0	0	1	0	0	0	16657	536	19	1	755	1	TSPAN3	15	77363263	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1382554	77363263	25168129	756	42066										
RASGRF1	5923	mdanderson.org;bcgsc.ca	37	chr15	79324607	79324607	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggctgtactggtggttgcggAcgaactcttggtagatgttg	16	6	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:79324607A>G	ENST00000419573.3	-	7	1284	c.1010T>C	c.(1009-1011)gTc>gCc	p.V337A	RASGRF1_ENST00000560334.1_5'UTR|RASGRF1_ENST00000558480.2_Missense_Mutation_p.V337A	NM_002891.4	NP_002882.3	Q13972	RGRF1_HUMAN	Ras protein-specific guanine nucleotide-releasing factor 1	337	DH. {ECO:0000255|PROSITE- ProRule:PRU00062}.				activation of Rac GTPase activity (GO:0032863)|cell proliferation (GO:0008283)|long-term memory (GO:0007616)|neuron projection development (GO:0031175)|positive regulation of Ras GTPase activity (GO:0032320)|positive regulation of Ras protein signal transduction (GO:0046579)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)|regulation of neuronal synaptic plasticity (GO:0048168)|regulation of Rac protein signal transduction (GO:0035020)|regulation of Ras protein signal transduction (GO:0046578)|regulation of synaptic plasticity (GO:0048167)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)|synaptic transmission (GO:0007268)	cytosol (GO:0005829)|growth cone (GO:0030426)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)	guanyl-nucleotide exchange factor activity (GO:0005085)|Ras guanyl-nucleotide exchange factor activity (GO:0005088)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(2)|central_nervous_system(2)|endometrium(7)|kidney(4)|large_intestine(18)|lung(23)|ovary(2)|prostate(6)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	71						GTGGTTGCGGACGAACTCTTG	0.587																																																0													182	108	133					15																	79324607		2196	4293	6489	SO:0001583	missense	5923			M91815	CCDS10309.1, CCDS42065.1, CCDS45320.1	15q24	2013-01-10			ENSG00000058335	ENSG00000058335		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	9875	protein-coding gene	gene with protein product		606600		GRF1		7684828, 1379731	Standard	NM_153815		Approved	CDC25L, CDC25, GRF55, H-GRF55, GNRP, PP13187	uc002beq.3	Q13972	OTTHUMG00000144172	ENST00000419573.3:c.1010T>C	15.37:g.79324607A>G	ENSP00000405963:p.Val337Ala	Somatic		WXS	Illumina HiSeq	Phase_I	F8VPA5|H0YKF2|J3KQP9|Q16027	Missense_Mutation	SNP	ENST00000419573.3	37	CCDS10309.1	.	.	.	.	.	.	.	.	.	.	A	22.5	4.303454	0.81136	.	.	ENSG00000058335	ENST00000419573;ENST00000394741	T	0.64618	-0.11	4.35	4.35	0.52113	Dbl homology (DH) domain (5);	0.000000	0.64402	D	0.000001	T	0.74906	0.3778	M	0.74389	2.26	0.80722	D	1	D;D;D;D	0.89917	0.999;0.999;1.0;0.998	D;D;D;D	0.81914	0.986;0.991;0.995;0.984	T	0.72757	-0.4197	10	0.22706	T	0.39	.	11.5552	0.50743	1.0:0.0:0.0:0.0	.	337;337;337;337	A8K270;Q8IUU5;Q13972;F8VPA5	.;.;RGRF1_HUMAN;.	A	337	ENSP00000405963:V337A	ENSP00000378224:V337A	V	-	2	0	RASGRF1	77111662	1.000000	0.71417	0.656000	0.29637	0.959000	0.62525	8.915000	0.92740	1.833000	0.53350	0.402000	0.26972	GTC		0.587	RASGRF1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000291371.3	NM_002891		G	79324607	A	G	79324607	3	3	664	1	0	0	0	0	1	0	0	0	13085	275	10	3	2899	3	RASGRF1	15	79324607	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	1961344	79324607	23206785	757	42067										
MESDC1	59274	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr15	81295560	81295560	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcgcagcaccccgacgggggCgccaagatgtcggaccacag	15	15	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:81295560C>T	ENST00000267984.2	+	1	2266	c.948C>T	c.(946-948)ggC>ggT	p.G316G		NM_022566.2	NP_072088.1	Q9H1K6	MESD1_HUMAN	mesoderm development candidate 1	316										endometrium(1)|lung(2)	3						CCGACGGGGGCGCCAAGATGT	0.672																																																0													11	14	13					15																	81295560		2197	4294	6491	SO:0001819	synonymous_variant	59274			AY007810	CCDS10316.1	15q13	2008-07-18			ENSG00000140406	ENSG00000140406			13519	protein-coding gene	gene with protein product		615466				11247670	Standard	NM_022566		Approved	MGC99595	uc002bfz.3	Q9H1K6	OTTHUMG00000144185	ENST00000267984.2:c.948C>T	15.37:g.81295560C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000267984.2	37	CCDS10316.1																																																																																				0.672	MESDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000291390.1	NM_022566		T	81295560	C	T	81295560	2	4	664	1	0	0	0	0	0	0	0	1	9487	755	27	1		1	MESDC1	15	81295560	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1970953	81295560	21235832	758	42068										
TMC3	342125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	81630237	81630237	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctgagctttagagaccgtgCgatgctctggagataataga	13	7	1	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:81630237C>T	ENST00000359440.5	-	19	2245	c.2110G>A	c.(2110-2112)Gca>Aca	p.A704T	RP11-761I4.3_ENST00000560973.1_RNA|RP11-761I4.3_ENST00000560851.1_RNA|RP11-761I4.3_ENST00000559781.1_RNA|TMC3_ENST00000558726.1_Missense_Mutation_p.A705T	NM_001080532.1	NP_001074001.1			transmembrane channel-like 3											autonomic_ganglia(2)|breast(1)|endometrium(4)|kidney(1)|large_intestine(7)|liver(1)|lung(11)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	34						AGAGACCGTGCGATGCTCTGG	0.443																																																0													155	157	156					15																	81630237		2013	4183	6196	SO:0001583	missense	342125			AY263163	CCDS45324.1	15q24.3	2006-11-24				ENSG00000188869			22995	protein-coding gene	gene with protein product						12906855, 12812529	Standard	NM_001080532		Approved		uc021ssk.1	Q7Z5M5		ENST00000359440.5:c.2110G>A	15.37:g.81630237C>T	ENSP00000352413:p.Ala704Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000359440.5	37	CCDS45324.1	.	.	.	.	.	.	.	.	.	.	C	20.9	4.072804	0.76415	.	.	ENSG00000188869	ENST00000359440	T	0.66280	-0.2	4.64	4.64	0.57946	.	0.000000	0.85682	D	0.000000	T	0.63271	0.2497	L	0.40543	1.245	0.54753	D	0.999985	D;D	0.55385	0.965;0.971	B;P	0.51833	0.411;0.681	T	0.62378	-0.6867	10	0.35671	T	0.21	-18.4032	15.8865	0.79255	0.0:1.0:0.0:0.0	.	704;704	Q7Z5M5-2;Q7Z5M5	.;TMC3_HUMAN	T	704	ENSP00000352413:A704T	ENSP00000352413:A704T	A	-	1	0	TMC3	79417292	1.000000	0.71417	0.994000	0.49952	0.760000	0.43138	6.445000	0.73456	2.390000	0.81377	0.655000	0.94253	GCA		0.443	TMC3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000417795.3	NM_181841		T	81630237	C	T	81630237	3	4	664	1	0	0	0	0	1	0	0	0	15998	768	27	1	1208	1	TMC3	15	81630237	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	334677	81630237	20901155	759	42069										
TMC3	342125	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	81637207	81637207	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggtataagctgaaatgctgGtctcttccaaggcccatgtg	11	9	1	1	rs199835792		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:81637207G>A	ENST00000359440.5	-	13	1553	c.1418C>T	c.(1417-1419)aCc>aTc	p.T473I	RP11-761I4.3_ENST00000560851.1_RNA|RP11-761I4.3_ENST00000559781.1_RNA|TMC3_ENST00000558726.1_Missense_Mutation_p.T474I|RP11-761I4.3_ENST00000559277.1_RNA	NM_001080532.1	NP_001074001.1			transmembrane channel-like 3											autonomic_ganglia(2)|breast(1)|endometrium(4)|kidney(1)|large_intestine(7)|liver(1)|lung(11)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	34						TGAAATGCTGGTCTCTTCCAA	0.512																																																0								G	ILE/THR	0,3932		0,0,1966	118	113	115		1418	2.6	0	15		115	5,8309		0,5,4152	yes	missense	TMC3	NM_001080532.1	89	0,5,6118	AA,AG,GG		0.0601,0.0,0.0408	benign	473/1101	81637207	5,12241	1966	4157	6123	SO:0001583	missense	342125			AY263163	CCDS45324.1	15q24.3	2006-11-24				ENSG00000188869			22995	protein-coding gene	gene with protein product						12906855, 12812529	Standard	NM_001080532		Approved		uc021ssk.1	Q7Z5M5		ENST00000359440.5:c.1418C>T	15.37:g.81637207G>A	ENSP00000352413:p.Thr473Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000359440.5	37	CCDS45324.1	.	.	.	.	.	.	.	.	.	.	G	6.015	0.371195	0.11409	0.0	6.01E-4	ENSG00000188869	ENST00000359440	T	0.63744	-0.06	3.51	2.6	0.31112	.	1.197350	0.05767	N	0.605985	T	0.54727	0.1876	L	0.51422	1.61	0.09310	N	1	B;B	0.14438	0.0;0.01	B;B	0.14023	0.002;0.01	T	0.42749	-0.9433	10	0.41790	T	0.15	-2.3549	4.5851	0.12279	0.1137:0.0:0.6126:0.2737	.	473;473	Q7Z5M5-2;Q7Z5M5	.;TMC3_HUMAN	I	473	ENSP00000352413:T473I	ENSP00000352413:T473I	T	-	2	0	TMC3	79424262	0.000000	0.05858	0.002000	0.10522	0.017000	0.09413	0.211000	0.17474	1.049000	0.40321	-0.136000	0.14681	ACC		0.512	TMC3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000417795.3	NM_181841		A	81637207	G	A	81637207	3	1	664	1	0	0	0	0	1	0	0	0	15998	1261	44	2	1924	2	TMC3	15	81637207	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6970	81637207	20894185	760	42070										
HOMER2	9455	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr15	83527811	83527811	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggcaatcttcagcttgtcaTtctcagacttcaggtgtgtg	10	9	5	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:83527811T>C	ENST00000304231.8	-	5	689	c.497A>G	c.(496-498)aAt>aGt	p.N166S	HOMER2_ENST00000399166.2_Missense_Mutation_p.N155S|HOMER2_ENST00000426485.1_Missense_Mutation_p.N166S|HOMER2_ENST00000450735.2_Missense_Mutation_p.N155S	NM_199330.2	NP_955362.1	Q9NSB8	HOME2_HUMAN	homer homolog 2 (Drosophila)	166					behavioral response to cocaine (GO:0048148)|calcium-mediated signaling using intracellular calcium source (GO:0035584)|chemical homeostasis within a tissue (GO:0048875)|G-protein coupled glutamate receptor signaling pathway (GO:0007216)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)	apical part of cell (GO:0045177)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|neuronal cell body (GO:0043025)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)				cervix(1)|endometrium(2)|lung(6)	9						CAGCTTGTCATTCTCAGACTT	0.502																																																0													134	139	137					15																	83527811		2008	4168	6176	SO:0001583	missense	9455			AF093264	CCDS45334.1, CCDS45336.1	15q24.3	2008-02-05				ENSG00000103942			17513	protein-coding gene	gene with protein product		604799				9808459, 9808458	Standard	NM_199330		Approved	CPD, Cupidin, Vesl-2, HOMER-2B, HOMER-2, HOMER-2A	uc002bjg.3	Q9NSB8		ENST00000304231.8:c.497A>G	15.37:g.83527811T>C	ENSP00000305632:p.Asn166Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O95269|O95349|Q9NSB6|Q9NSB7|Q9UNT7	Missense_Mutation	SNP	ENST00000304231.8	37	CCDS45334.1	.	.	.	.	.	.	.	.	.	.	t	13.46	2.244416	0.39697	.	.	ENSG00000103942	ENST00000304231;ENST00000450735;ENST00000426485;ENST00000399166	T;T;T;T	0.77358	2.11;-1.09;2.4;2.45	5.92	5.92	0.95590	.	0.204008	0.49916	D	0.000127	T	0.77798	0.4184	M	0.80982	2.52	0.48511	D	0.999668	B;P;P;P	0.46142	0.041;0.835;0.873;0.835	B;B;B;B	0.38156	0.096;0.18;0.266;0.238	T	0.79125	-0.1932	10	0.33940	T	0.23	.	15.5454	0.76093	0.0:0.0:0.0:1.0	.	155;166;155;166	F8W826;E9PAZ1;Q9NSB8-2;Q9NSB8	.;.;.;HOME2_HUMAN	S	166;155;166;155	ENSP00000305632:N166S;ENSP00000407634:N155S;ENSP00000394293:N166S;ENSP00000382119:N155S	ENSP00000305632:N166S	N	-	2	0	HOMER2	81324865	1.000000	0.71417	0.933000	0.37362	0.573000	0.36030	7.135000	0.77276	2.260000	0.74910	0.529000	0.55759	AAT		0.502	HOMER2-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000418689.1			C	83527811	T	C	83527811	3	2	664	1	0	0	0	0	1	0	0	0	7286	1493	52	3	587	3	HOMER2	15	83527811	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1890604	83527811	19003581	761	42071										
ALPK3	57538	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	85403008	85403008	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tagggtctccactctgcagcGcaggggatgaggggccggcg	18	11	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:85403008G>A	ENST00000258888.5	+	8	4740	c.4573G>A	c.(4573-4575)Gca>Aca	p.A1525T		NM_020778.4	NP_065829.3	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1525	Ig-like 2.				heart development (GO:0007507)	nucleus (GO:0005634)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			NS(3)|breast(2)|central_nervous_system(2)|endometrium(12)|kidney(4)|large_intestine(9)|lung(27)|ovary(3)|prostate(5)|skin(8)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	81			BRCA - Breast invasive adenocarcinoma(143;0.0587)			ACTCTGCAGCGCAGGGGATGA	0.657																																																0													20	19	19					15																	85403008		2202	4297	6499	SO:0001630	splice_region_variant	57538			AY044449	CCDS10333.1	15q25.2	2013-01-29			ENSG00000136383	ENSG00000136383		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	17574	protein-coding gene	gene with protein product	"myocyte induction differentiation originator", "muscle alpha-kinase"					10021370	Standard	NM_020778		Approved	MAK, KIAA1330, Midori	uc002ble.3	Q96L96	OTTHUMG00000148667	ENST00000258888.5:c.4572-1G>A	15.37:g.85403008G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9P2L6	Missense_Mutation	SNP	ENST00000258888.5	37	CCDS10333.1	.	.	.	.	.	.	.	.	.	.	G	29.4	5.006425	0.93287	.	.	ENSG00000136383	ENST00000258888	T	0.40476	1.03	5.45	5.45	0.79879	Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.139747	0.49305	D	0.000153	T	0.56426	0.1984	L	0.55481	1.735	0.44268	D	0.997126	D	0.76494	0.999	D	0.66084	0.941	T	0.58476	-0.7630	10	0.87932	D	0	-6.3153	11.8267	0.52271	0.0:0.0:0.8249:0.1751	.	1525	Q96L96	ALPK3_HUMAN	T	1525	ENSP00000258888:A1525T	ENSP00000258888:A1525T	A	+	1	0	ALPK3	83204012	1.000000	0.71417	1.000000	0.80357	0.918000	0.54935	3.260000	0.51523	2.564000	0.86499	0.563000	0.77884	GCA		0.657	ALPK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000308997.1	NM_020778	Missense_Mutation	A	85403008	G	A	85403008	5	1	664	1	0	0	0	0	0	0	1	0	546	1101	38	1	4603	1	ALPK3	15	85403008	Splice_Site	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1875197	85403008	17128384	762	42072										
AGBL1	123624	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	86807816	86807816	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagatgcctgggacgtagatGcaattttctgcccaaggatg	12	9	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:86807816G>A	ENST00000441037.2	+	10	1371	c.1276G>A	c.(1276-1278)Gca>Aca	p.A426T	AGBL1_ENST00000389298.3_Missense_Mutation_p.A157T|AGBL1_ENST00000421325.2_Missense_Mutation_p.A426T	NM_152336.2	NP_689549.2	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	426					C-terminal protein deglutamylation (GO:0035609)|protein side chain deglutamylation (GO:0035610)	cytoplasm (GO:0005737)	metallocarboxypeptidase activity (GO:0004181)|tubulin binding (GO:0015631)|zinc ion binding (GO:0008270)			NS(3)|breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(8)|liver(2)|lung(28)|ovary(2)|prostate(4)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	62						GGACGTAGATGCAATTTTCTG	0.443																																																0													102	103	103					15																	86807816		1884	4119	6003	SO:0001583	missense	123624			AK056872	CCDS58398.1	15q25.3	2014-06-23			ENSG00000166748	ENSG00000166748			26504	protein-coding gene	gene with protein product	"cytosolic carboxypeptidase 4"	615496				21074048, 24094747	Standard	NM_152336		Approved	FLJ32310, CCP4	uc002blz.1	Q96MI9	OTTHUMG00000149978	ENST00000441037.2:c.1276G>A	15.37:g.86807816G>A	ENSP00000413001:p.Ala426Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4X5|A6NJH6|C9JHL5	Missense_Mutation	SNP	ENST00000441037.2	37	CCDS58398.1	.	.	.	.	.	.	.	.	.	.	G	11.05	1.525621	0.27299	.	.	ENSG00000166748	ENST00000441037;ENST00000421325;ENST00000389298	T;T	0.09817	2.94;2.94	5.44	0.615	0.17608	Armadillo-type fold (1);	1.706500	0.02572	N	0.097924	T	0.11965	0.0291	L	0.56769	1.78	0.09310	N	1	P;B;B	0.37276	0.589;0.053;0.004	B;B;B	0.33392	0.163;0.022;0.002	T	0.33007	-0.9885	10	0.25751	T	0.34	0.0701	6.5659	0.22511	0.5759:0.0:0.4241:0.0	.	125;157;426	Q96MI9-2;Q96MI9-3;Q96MI9	.;.;CBPC4_HUMAN	T	455;426;157	ENSP00000397173:A426T;ENSP00000373949:A157T	ENSP00000373949:A157T	A	+	1	0	AGBL1	84608820	0.000000	0.05858	0.000000	0.03702	0.114000	0.19823	-0.445000	0.06845	0.286000	0.22352	0.650000	0.86243	GCA		0.443	AGBL1-001	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000314929.5	NM_152336		A	86807816	G	A	86807816	3	1	664	1	0	0	0	0	1	0	0	0	375	1319	46	2	1310	2	AGBL1	15	86807816	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1404808	86807816	15723576	763	42073										
NTRK3	4916	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	88420245	88420245	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agatctccttgatgttcaacCgctgctgtggttccctctgc	9	13	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:88420245C>T	ENST00000360948.2	-	19	2602	c.2441G>A	c.(2440-2442)cGg>cAg	p.R814Q	NTRK3_ENST00000557856.1_Missense_Mutation_p.R792Q|NTRK3_ENST00000355254.2_Missense_Mutation_p.R800Q|NTRK3_ENST00000394480.2_Missense_Mutation_p.R800Q|NTRK3_ENST00000357724.2_Missense_Mutation_p.R806Q	NM_001012338.2	NP_001012338.1	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	814	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of MAPK activity (GO:0000187)|activation of protein kinase B activity (GO:0032148)|activation of Ras GTPase activity (GO:0032856)|cellular response to retinoic acid (GO:0071300)|circadian rhythm (GO:0007623)|cochlea development (GO:0090102)|lens fiber cell differentiation (GO:0070306)|mechanoreceptor differentiation (GO:0042490)|modulation by virus of host transcription (GO:0019056)|negative regulation of astrocyte differentiation (GO:0048712)|negative regulation of cell death (GO:0060548)|negative regulation of protein phosphorylation (GO:0001933)|neuron fate specification (GO:0048665)|neuron migration (GO:0001764)|neurotrophin signaling pathway (GO:0038179)|positive regulation of actin cytoskeleton reorganization (GO:2000251)|positive regulation of axon extension involved in regeneration (GO:0048691)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of gene expression (GO:0010628)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of positive chemotaxis (GO:0050927)|protein autophosphorylation (GO:0046777)|response to axon injury (GO:0048678)|response to corticosterone (GO:0051412)|response to ethanol (GO:0045471)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|neurotrophin binding (GO:0043121)|neurotrophin receptor activity (GO:0005030)|p53 binding (GO:0002039)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)		ETV6/NTRK3(238)	breast(3)|central_nervous_system(3)|endometrium(6)|kidney(1)|large_intestine(22)|lung(63)|ovary(6)|pancreas(3)|prostate(1)|skin(4)|stomach(5)|upper_aerodigestive_tract(2)	119			BRCA - Breast invasive adenocarcinoma(143;0.211)			GATGTTCAACCGCTGCTGTGG	0.547			T	ETV6	"congenital fibrosarcoma, Secretory breast "					TSP Lung(13;0.10)																													Dom	yes		15	15q25	4916	"neurotrophic tyrosine kinase, receptor, type 3"		"E, M"	0													155	123	134					15																	88420245		2201	4299	6500	SO:0001583	missense	4916			U05012	CCDS10340.1, CCDS32322.1, CCDS32323.1, CCDS58399.1	15q24-q25	2013-01-11			ENSG00000140538	ENSG00000140538	2.7.10.1	"Immunoglobulin superfamily / I-set domain containing"	8033	protein-coding gene	gene with protein product		191316				7806211	Standard	NM_001012338		Approved	TRKC	uc002bme.2	Q16288	OTTHUMG00000148677	ENST00000360948.2:c.2441G>A	15.37:g.88420245C>T	ENSP00000354207:p.Arg814Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z4C5|E9PG56|H0YND1|O75682|Q12827|Q16289	Missense_Mutation	SNP	ENST00000360948.2	37	CCDS32322.1	.	.	.	.	.	.	.	.	.	.	C	35	5.501625	0.96371	.	.	ENSG00000140538	ENST00000394480;ENST00000360948;ENST00000357724;ENST00000355254	D;D;D;D	0.98345	-4.88;-4.88;-4.88;-4.88	5.58	5.58	0.84498	Serine-threonine/tyrosine-protein kinase (2);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	D	0.99426	0.9797	H	0.97983	4.12	0.80722	D	1	D;D;D	0.89917	1.0;0.999;1.0	D;D;D	0.97110	1.0;0.99;1.0	D	0.98364	1.0550	10	0.87932	D	0	.	18.1313	0.89602	0.0:1.0:0.0:0.0	.	792;800;814	B7Z4C5;Q16288-3;Q16288	.;.;NTRK3_HUMAN	Q	800;814;806;800	ENSP00000377990:R800Q;ENSP00000354207:R814Q;ENSP00000350356:R806Q;ENSP00000347397:R800Q	ENSP00000347397:R800Q	R	-	2	0	NTRK3	86221249	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.636000	0.83301	2.640000	0.89533	0.561000	0.74099	CGG		0.547	NTRK3-204	KNOWN	basic|CCDS	protein_coding	protein_coding				T	88420245	C	T	88420245	3	4	664	1	0	0	0	0	1	0	0	0	10715	652	23	1	82	1	NTRK3	15	88420245	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1612429	88420245	14111147	764	42074										
IGF1R	3480	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	99454671	99454671	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accgtttactacaaggaagcGtgagtttctgctttgggtga	12	7	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:99454671G>A	ENST00000268035.6	+	7	2200		c.e7+1		IGF1R_ENST00000558762.1_Splice_Site	NM_000875.3	NP_000866.1	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor						axonogenesis (GO:0007409)|brain development (GO:0007420)|epidermis development (GO:0008544)|establishment of cell polarity (GO:0030010)|exocrine pancreas development (GO:0031017)|immune response (GO:0006955)|inactivation of MAPKK activity (GO:0051389)|insulin receptor signaling pathway (GO:0008286)|insulin-like growth factor receptor signaling pathway (GO:0048009)|male sex determination (GO:0030238)|mammary gland development (GO:0030879)|negative regulation of apoptotic process (GO:0043066)|negative regulation of muscle cell apoptotic process (GO:0010656)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|peptidyl-tyrosine autophosphorylation (GO:0038083)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cytokinesis (GO:0032467)|positive regulation of DNA replication (GO:0045740)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of mitosis (GO:0045840)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of steroid hormone biosynthetic process (GO:0090031)|prostate gland epithelium morphogenesis (GO:0060740)|protein autophosphorylation (GO:0046777)|protein heterooligomerization (GO:0051291)|protein tetramerization (GO:0051262)|regulation of JNK cascade (GO:0046328)|response to vitamin E (GO:0033197)|signal transduction (GO:0007165)	caveola (GO:0005901)|integral component of plasma membrane (GO:0005887)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|insulin binding (GO:0043559)|insulin receptor binding (GO:0005158)|insulin receptor substrate binding (GO:0043560)|insulin-like growth factor binding (GO:0005520)|insulin-like growth factor I binding (GO:0031994)|insulin-like growth factor-activated receptor activity (GO:0005010)|phosphatidylinositol 3-kinase binding (GO:0043548)|protein tyrosine kinase activity (GO:0004713)			NS(2)|breast(1)|central_nervous_system(1)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(13)|lung(20)|ovary(1)|prostate(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	63	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		"""Insulin(DB00071)|Insulin Glargine(DB00047)|Insulin Lispro(DB00046)|Insulin Regular(DB00030)|Mecasermin(DB01277)"	ACAAGGAAGCGTGAGTTTCTG	0.537																																																0													158	141	147					15																	99454671		2197	4297	6494	SO:0001630	splice_region_variant	3480			M69229	CCDS10378.1, CCDS73785.1	15q26.3	2013-02-11			ENSG00000140443	ENSG00000140443		"CD molecules", "Fibronectin type III domain containing"	5465	protein-coding gene	gene with protein product		147370				1316909	Standard	XM_006720486		Approved	JTK13, CD221, IGFIR, MGC18216, IGFR	uc002bul.3	P08069	OTTHUMG00000149851	ENST00000268035.6:c.1589+1G>A	15.37:g.99454671G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B1B5Y2|Q14CV2|Q9UCC0	Splice_Site	SNP	ENST00000268035.6	37	CCDS10378.1	.	.	.	.	.	.	.	.	.	.	G	29.4	5.005527	0.93287	.	.	ENSG00000140443	ENST00000268035	.	.	.	5.67	5.67	0.87782	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	20.1313	0.98000	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	IGF1R	97272194	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.778000	0.99011	2.837000	0.97791	0.655000	0.94253	.		0.537	IGF1R-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000313537.2	NM_000875	Intron	A	99454671	G	A	99454671	5	1	664	1	0	0	0	0	0	0	1	0	7578	1159	40	1	1616	1	IGF1R	15	99454671	Splice_Site	SNP	G	TCGA-KN-8428-01A-11D-2310-10	11034426	99454671	3076721	765	42075										
OR4F15	390649	broad.mit.edu	37	chr15	102359272	102359272	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cattcaggaacaaagacatgAaagtggcaatgaggagactg	12	6	1	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr15:102359272A>G	ENST00000332238.4	+	1	907	c.883A>G	c.(883-885)Aaa>Gaa	p.K295E		NM_001001674.1	NP_001001674.1	Q8NGB8	O4F15_HUMAN	olfactory receptor, family 4, subfamily F, member 15	295						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(10)	19	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)			CAAAGACATGAAAGTGGCAAT	0.383																																																0													67	58	61					15																	102359272		2203	4300	6503	SO:0001583	missense	390649			BK004405	CCDS32342.1	15q26.3	2012-08-09				ENSG00000182854		"GPCR / Class A : Olfactory receptors"	15078	protein-coding gene	gene with protein product							Standard	NM_001001674		Approved		uc010uts.2	Q8NGB8		ENST00000332238.4:c.883A>G	15.37:g.102359272A>G	ENSP00000333184:p.Lys295Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNQ5|Q6IF57|Q96R70	Missense_Mutation	SNP	ENST00000332238.4	37	CCDS32342.1	.	.	.	.	.	.	.	.	.	.	.	13.80	2.344493	0.41498	.	.	ENSG00000182854	ENST00000332238	T	0.41065	1.01	5.46	4.32	0.51571	.	.	.	.	.	T	0.62245	0.2412	M	0.93016	3.37	0.29484	N	0.8561	P	0.45283	0.855	P	0.49597	0.616	T	0.66015	-0.6028	8	.	.	.	.	10.9232	0.47178	0.8426:0.1574:0.0:0.0	.	295	Q8NGB8	O4F15_HUMAN	E	295	ENSP00000333184:K295E	.	K	+	1	0	OR4F15	100176795	0.985000	0.35326	0.848000	0.33437	0.046000	0.14306	3.710000	0.54860	1.067000	0.40740	0.528000	0.53228	AAA		0.383	OR4F15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000417594.1	NM_001001674		G	102359272	A	G	102359272	3	3	664	1	0	0	0	0	1	0	0	0	11068	247	9	3	885	3	OR4F15	15	102359272	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	2904601	102359272	172120	766	42076										
RHBDL1	9028	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	727990	727990	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acggcaccttcctgctcttcGccgtcttctggaacgtcttc	8	16	4	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:727990G>A	ENST00000219551.2	+	7	1282	c.1255G>A	c.(1255-1257)Gcc>Acc	p.A419T	RHBDL1_ENST00000352681.3_Missense_Mutation_p.A354T|LA16c-313D11.9_ENST00000571933.1_RNA|STUB1_ENST00000219548.4_5'Flank|LA16c-313D11.9_ENST00000567091.1_RNA|STUB1_ENST00000565677.1_5'Flank			O75783	RHBL1_HUMAN	rhomboid, veinlet-like 1 (Drosophila)	419					signal transduction (GO:0007165)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	calcium ion binding (GO:0005509)|serine-type endopeptidase activity (GO:0004252)			endometrium(1)|kidney(1)|lung(4)|urinary_tract(3)	9		Hepatocellular(780;0.0218)				CCTGCTCTTCGCCGTCTTCTG	0.687																																																0													53	46	49					16																	727990		2195	4296	6491	SO:0001583	missense	9028			Y17108	CCDS61779.1	16p13.3	2008-02-05	2001-11-28	2003-04-11	ENSG00000103269	ENSG00000103269			10007	protein-coding gene	gene with protein product		603264	"rhomboid (veinlet, Drosophila)-like"	RHBDL		9662444	Standard	NM_001278720		Approved	RRP	uc002cis.1	O75783	OTTHUMG00000121141	ENST00000219551.2:c.1255G>A	16.37:g.727990G>A	ENSP00000219551:p.Ala419Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A2IDC0|A2IDC1|Q0VAX4|Q9NQ85	Missense_Mutation	SNP	ENST00000219551.2	37	CCDS10418.1	.	.	.	.	.	.	.	.	.	.	G	25.3	4.620438	0.87460	.	.	ENSG00000103269	ENST00000352681;ENST00000219551	T;T	0.38401	1.21;1.14	4.41	4.41	0.53225	.	0.000000	0.85682	D	0.000000	T	0.53351	0.1791	L	0.58583	1.82	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.65684	0.937;0.925	T	0.54603	-0.8269	10	0.48119	T	0.1	-19.5669	14.4906	0.67647	0.0:0.0:1.0:0.0	.	419;354	O75783;O75783-2	RHBL1_HUMAN;.	T	354;419	ENSP00000344206:A354T;ENSP00000219551:A419T	ENSP00000219551:A419T	A	+	1	0	RHBDL1	667991	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	9.376000	0.97181	1.998000	0.58463	0.561000	0.74099	GCC		0.687	RHBDL1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000241619.1	NM_003961		A	727990	G	A	727990	3	1	664	1	0	0	0	0	1	0	0	0	13334	1087	38	1	1281	1	RHBDL1	16	727990	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10		727990	89626763	767	42077										
MSLN	10232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr16	818456	818456	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcggaggagcggcaccgcccGgtgcgggactggatcctacg	18	13	0	0	rs201466189	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:818456G>A	ENST00000382862.3	+	16	1793	c.1698G>A	c.(1696-1698)ccG>ccA	p.P566P	MSLN_ENST00000566549.1_Silent_p.P558P|MIR662_ENST00000384847.1_RNA|MSLN_ENST00000563941.1_Silent_p.P558P|MSLN_ENST00000545450.2_Silent_p.P558P	NM_013404.4	NP_037536.2	Q13421	MSLN_HUMAN	mesothelin	566					cell adhesion (GO:0007155)|pancreas development (GO:0031016)	anchored component of membrane (GO:0031225)|cell surface (GO:0009986)|extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|plasma membrane (GO:0005886)				breast(2)|kidney(2)|lung(11)|pancreas(1)|prostate(1)|skin(3)	20		Hepatocellular(780;0.00335)				GGCACCGCCCGGTGCGGGACT	0.687																																																0								G	,,	0,4354		0,0,2177	23	29	27		1674,1674,1698	-8.5	0	16		27	1,8563	1.2+/-3.3	0,1,4281	no	coding-synonymous,coding-synonymous,coding-synonymous	MSLN	NM_001177355.1,NM_005823.5,NM_013404.4	,,	0,1,6458	AA,AG,GG		0.0117,0.0,0.0077	,,	558/623,558/623,566/631	818456	1,12917	2177	4282	6459	SO:0001819	synonymous_variant	10232			U40434	CCDS32356.1, CCDS45370.1	16p13.3	2008-04-16			ENSG00000102854	ENSG00000102854			7371	protein-coding gene	gene with protein product		601051				7665620, 8552591	Standard	NM_005823		Approved	CAK1, MPF	uc002cjw.2	Q13421	OTTHUMG00000047992	ENST00000382862.3:c.1698G>A	16.37:g.818456G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DU65|Q14859|Q4VQD5|Q96GR6|Q96KJ5|Q9BR17|Q9BTR2|Q9UCB2|Q9UK57	Silent	SNP	ENST00000382862.3	37	CCDS32356.1																																																																																				0.687	MSLN-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000109253.2			A	818456	G	A	818456	2	1	664	1	0	0	0	0	0	0	0	1	9888	1103	39	1		1	MSLN	16	818456	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	90466	818456	89536297	768	42078										
TPSAB1	7177	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr16	1291624	1291624	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agccacgtccacacggtcacCctgccccctgcctcagagac	8	20	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:1291624C>G	ENST00000338844.3	+	4	456	c.423C>G	c.(421-423)acC>acG	p.T141T	TPSAB1_ENST00000461509.2_Silent_p.T148T	NM_003294.3	NP_003285.2	Q15661	TRYB1_HUMAN	tryptase alpha/beta 1	141	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.		T -> A (in dbSNP:rs1800992). {ECO:0000269|PubMed:10898108}.|T -> M (in allele alpha).		defense response (GO:0006952)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			NS(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(4)|skin(1)	10		Hepatocellular(780;0.00369)				ACACGGTCACCCTGCCCCCTG	0.662																																																0													31	25	27					16																	1291624		2198	4297	6495	SO:0001819	synonymous_variant	7177			M33494	CCDS10431.1	16p13.3	2009-11-13	2004-10-14	2004-10-15	ENSG00000172236	ENSG00000172236			12019	protein-coding gene	gene with protein product	"tryptase alpha II", "tryptase beta I", "tryptase-I", "tryptase-II", "tryptase-III"	191080	"tryptase beta 1"	TPSB1, TPS1, TPS2		2203827, 9920877	Standard	NM_003294		Approved		uc002ckz.3	Q15661	OTTHUMG00000090467	ENST00000338844.3:c.423C>G	16.37:g.1291624C>G		Somatic		WXS	Illumina HiSeq	Phase_I	D2E6R9|D2E6S1|P15157|Q15663|Q6B052|Q9H2Y4|Q9H2Y5|Q9UQI1	Silent	SNP	ENST00000338844.3	37	CCDS10431.1																																																																																				0.662	TPSAB1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000206914.1	NM_003294		G	1291624	C	G	1291624	2	3	664	1	0	0	0	0	0	0	0	1	16435	610	22	4		4	TPSAB1	16	1291624	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	473168	1291624	89063129	769	42079										
TPSD1	23430	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr16	1306310	1306311	+	Missense_Mutation	DNP	GC	GC	AT													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccttgctccccagatgctgaGcctgctgctgctggcgctgc					rs201494832		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:1306310_1306311GC>AT	ENST00000211076.3	+	1	177_178	c.29_30GC>AT	c.(28-30)aGC>aAT	p.S10N	RP11-616M22.5_ENST00000566997.1_RNA|TPSD1_ENST00000397534.2_Missense_Mutation_p.S3N	NM_012217.2	NP_036349.1	Q9BZJ3	TRYD_HUMAN	tryptase delta 1	10						extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)	p.S10I(1)		breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(9)|skin(1)|stomach(2)|upper_aerodigestive_tract(3)	20		Hepatocellular(780;0.00369)				CAGATGCTGAGCCTGCTGCTGC	0.683																																																1	Substitution - Missense(1)	lung(1)																																								SO:0001583	missense	23430			AF206664	CCDS10432.1	16p13.3	2008-07-29			ENSG00000095917	ENSG00000095917	3.4.21.59		14118	protein-coding gene	gene with protein product	"mMCP-7-like II", "mMCP-7-like I", "MMCP-7-LIKE-2"	609272				9920877	Standard	NM_012217		Approved		uc002clb.1	Q9BZJ3	OTTHUMG00000128511	Exception_encountered	16.37:g.1306310_1306311delinsAT	ENSP00000211076:p.Ser10Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O95824|Q8TDI6|Q96L36|Q96RZ5|Q9H2Y6|Q9UQI8	Silent	DNP	ENST00000211076.3	37	CCDS10432.1																																																																																				0.683	TPSD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250320.2			AT	1306311	GC	AT	1306310	3	1	664	1	0	0	0	0	1	0	0	0	16437	971	34	2	31	2	TPSD1	16	1306310	Missense_Mutation	DNP	GC	TCGA-KN-8428-01A-11D-2310-10	14686	1306310	89048443	770	42080										
TPSD1	23430	ucsc.edu;mdanderson.org	37	chr16	1306954	1306954	+	Silent	SNP	C	C	G													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgctggagctggaggagccCgtgaacatctccagccacat					rs61729110	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:1306954C>G	ENST00000211076.3	+	3	559	c.411C>G	c.(409-411)ccC>ccG	p.P137P	RP11-616M22.5_ENST00000566997.1_RNA|TPSD1_ENST00000397534.2_Silent_p.P130P	NM_012217.2	NP_036349.1	Q9BZJ3	TRYD_HUMAN	tryptase delta 1	137	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.					extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(9)|skin(1)|stomach(2)|upper_aerodigestive_tract(3)	20		Hepatocellular(780;0.00369)				TGGAGGAGCCCGTGAACATCT	0.667													c|||	60	0.0119808	0.0454	0.0	5008	,	,		18890	0.0		0.0	False		,,,				2504	0.0															0								C		166,4232	100.7+/-139.4	2,162,2035	58	58	58		411	-1.9	0.1	16	dbSNP_129	58	1,8595		0,1,4297	no	coding-synonymous	TPSD1	NM_012217.2		2,163,6332	GG,GC,CC		0.0116,3.7744,1.2852		137/243	1306954	167,12827	2199	4298	6497	SO:0001819	synonymous_variant	23430			AF206664	CCDS10432.1	16p13.3	2008-07-29			ENSG00000095917	ENSG00000095917	3.4.21.59		14118	protein-coding gene	gene with protein product	"mMCP-7-like II", "mMCP-7-like I", "MMCP-7-LIKE-2"	609272				9920877	Standard	NM_012217		Approved		uc002clb.1	Q9BZJ3	OTTHUMG00000128511	ENST00000211076.3:c.411C>G	16.37:g.1306954C>G		Somatic		WXS	Illumina HiSeq	Phase_I	O95824|Q8TDI6|Q96L36|Q96RZ5|Q9H2Y6|Q9UQI8	Silent	SNP	ENST00000211076.3	37	CCDS10432.1																																																																																				0.667	TPSD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250320.2			G	1306954	C	G	1306954	2	3	664	1	0	0	0	0	0	0	0	1	16437	639	23	4		4	TPSD1	16	1306954	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	644	1306954	89047799	771	42081	399	2								
TPSD1	23430	ucsc.edu;bcgsc.ca	37	chr16	1306961	1306961	+	Missense_Mutation	SNP	A	A	G													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agctggaggagcccgtgaacAtctccagccacatccacacg					rs139077060		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:1306961A>G	ENST00000211076.3	+	3	566	c.418A>G	c.(418-420)Atc>Gtc	p.I140V	RP11-616M22.5_ENST00000566997.1_RNA|TPSD1_ENST00000397534.2_Missense_Mutation_p.I133V	NM_012217.2	NP_036349.1	Q9BZJ3	TRYD_HUMAN	tryptase delta 1	140	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.					extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(9)|skin(1)|stomach(2)|upper_aerodigestive_tract(3)	20		Hepatocellular(780;0.00369)				GCCCGTGAACATCTCCAGCCA	0.652																																																0								A	VAL/ILE	1,4397		0,1,2198	52	51	51		418	-1.8	0.1	16	dbSNP_134	51	0,8596		0,0,4298	no	missense	TPSD1	NM_012217.2	29	0,1,6496	GG,GA,AA		0.0,0.0227,0.0077	benign	140/243	1306961	1,12993	2199	4298	6497	SO:0001583	missense	23430			AF206664	CCDS10432.1	16p13.3	2008-07-29			ENSG00000095917	ENSG00000095917	3.4.21.59		14118	protein-coding gene	gene with protein product	"mMCP-7-like II", "mMCP-7-like I", "MMCP-7-LIKE-2"	609272				9920877	Standard	NM_012217		Approved		uc002clb.1	Q9BZJ3	OTTHUMG00000128511	ENST00000211076.3:c.418A>G	16.37:g.1306961A>G	ENSP00000211076:p.Ile140Val	Somatic		WXS	Illumina HiSeq	Phase_I	O95824|Q8TDI6|Q96L36|Q96RZ5|Q9H2Y6|Q9UQI8	Missense_Mutation	SNP	ENST00000211076.3	37	CCDS10432.1	.	.	.	.	.	.	.	.	.	.	a	0.001	-3.254975	0.00022	2.27E-4	0.0	ENSG00000095917	ENST00000397534;ENST00000211076	D;D	0.81499	-1.5;-1.5	2.55	-1.82	0.07857	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	1.511430	0.04283	N	0.344227	T	0.62441	0.2428	N	0.17674	0.51	0.09310	N	1	B;B	0.09022	0.0;0.002	B;B	0.11329	0.001;0.006	T	0.41822	-0.9487	10	0.15499	T	0.54	.	2.4188	0.04443	0.3756:0.0:0.2912:0.3332	.	124;140	C9JJL5;Q9BZJ3	.;TRYD_HUMAN	V	133;140	ENSP00000380668:I133V;ENSP00000211076:I140V	ENSP00000211076:I140V	I	+	1	0	TPSD1	1246962	0.000000	0.05858	0.056000	0.19401	0.068000	0.16541	-2.552000	0.00927	-0.143000	0.11334	-1.425000	0.01104	ATC		0.652	TPSD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250320.2			G	1306961	A	G	1306961	3	3	664	1	0	0	0	0	1	0	0	0	16437	217	8	3	428	3	TPSD1	16	1306961	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	7	1306961	89047792	772	42082	399	2								
IFT140	9742	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr16	1574679	1574679	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccgccaggtttcctgtctcGttggctatttgcgcagccta	11	13	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:1574679G>A	ENST00000426508.2	-	24	3378	c.3015C>T	c.(3013-3015)aaC>aaT	p.N1005N	IFT140_ENST00000361339.5_Silent_p.N199N	NM_014714.3	NP_055529.2	Q96RY7	IF140_HUMAN	intraflagellar transport 140	1005					cilium assembly (GO:0042384)|intraciliary retrograde transport (GO:0035721)|protein localization to cilium (GO:0061512)|regulation of cilium assembly (GO:1902017)|renal system development (GO:0072001)|retina development in camera-type eye (GO:0060041)|skeletal system morphogenesis (GO:0048705)	axoneme (GO:0005930)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|intraciliary transport particle A (GO:0030991)|photoreceptor connecting cilium (GO:0032391)				breast(1)|central_nervous_system(2)|endometrium(7)|kidney(4)|large_intestine(12)|lung(10)|ovary(5)|pancreas(1)|prostate(4)|skin(4)|stomach(2)|urinary_tract(1)	53		Hepatocellular(780;0.219)				TTCCTGTCTCGTTGGCTATTT	0.647																																																0													53	55	54					16																	1574679		2199	4300	6499	SO:0001819	synonymous_variant	9742			AB011162	CCDS10439.1	16p13.3	2014-07-03	2014-07-03	2005-11-02	ENSG00000187535	ENSG00000187535		"Intraflagellar transport homologs", "WD repeat domain containing"	29077	protein-coding gene	gene with protein product		614620	"WD and tetratricopeptide repeats 2", "intraflagellar transport 140 homolog (Chlamydomonas)"	WDTC2		9628581	Standard	NM_014714		Approved	gs114, KIAA0590	uc002cmb.3	Q96RY7	OTTHUMG00000128585	ENST00000426508.2:c.3015C>T	16.37:g.1574679G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2A2A8|D3DU75|O60332|Q9UG52	Silent	SNP	ENST00000426508.2	37	CCDS10439.1																																																																																				0.647	IFT140-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250438.2	NM_014714		A	1574679	G	A	1574679	2	1	664	1	0	0	0	0	0	0	0	1	7563	1136	40	1		1	IFT140	16	1574679	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	267718	1574679	88780074	773	42083										
IFT140	9742	broad.mit.edu	37	chr16	1612076	1612076	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctctcatgaagcaggaagccGtgctcttcggaaatgaagaa	11	9	2	3	rs375957506		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:1612076G>A	ENST00000426508.2	-	18	2472	c.2109C>T	c.(2107-2109)caC>caT	p.H703H	IFT140_ENST00000439987.2_5'UTR	NM_014714.3	NP_055529.2	Q96RY7	IF140_HUMAN	intraflagellar transport 140	703					cilium assembly (GO:0042384)|intraciliary retrograde transport (GO:0035721)|protein localization to cilium (GO:0061512)|regulation of cilium assembly (GO:1902017)|renal system development (GO:0072001)|retina development in camera-type eye (GO:0060041)|skeletal system morphogenesis (GO:0048705)	axoneme (GO:0005930)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|intraciliary transport particle A (GO:0030991)|photoreceptor connecting cilium (GO:0032391)				breast(1)|central_nervous_system(2)|endometrium(7)|kidney(4)|large_intestine(12)|lung(10)|ovary(5)|pancreas(1)|prostate(4)|skin(4)|stomach(2)|urinary_tract(1)	53		Hepatocellular(780;0.219)				GCAGGAAGCCGTGCTCTTCGG	0.463																																																0								G		1,4397	2.1+/-5.4	0,1,2198	70	71	71		2109	-9.5	0.4	16		71	0,8600		0,0,4300	no	coding-synonymous	IFT140	NM_014714.3		0,1,6498	AA,AG,GG		0.0,0.0227,0.0077		703/1463	1612076	1,12997	2199	4300	6499	SO:0001819	synonymous_variant	9742			AB011162	CCDS10439.1	16p13.3	2014-07-03	2014-07-03	2005-11-02	ENSG00000187535	ENSG00000187535		"Intraflagellar transport homologs", "WD repeat domain containing"	29077	protein-coding gene	gene with protein product		614620	"WD and tetratricopeptide repeats 2", "intraflagellar transport 140 homolog (Chlamydomonas)"	WDTC2		9628581	Standard	NM_014714		Approved	gs114, KIAA0590	uc002cmb.3	Q96RY7	OTTHUMG00000128585	ENST00000426508.2:c.2109C>T	16.37:g.1612076G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2A2A8|D3DU75|O60332|Q9UG52	Silent	SNP	ENST00000426508.2	37	CCDS10439.1																																																																																				0.463	IFT140-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250438.2	NM_014714		A	1612076	G	A	1612076	2	1	664	1	0	0	0	0	0	0	0	1	7563	1136	40	1		1	IFT140	16	1612076	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	37397	1612076	88742677	774	42084										
SEPX1	6123	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	1991404	1991404	+	IGR	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acacttggcacacacgtaaaCgcctgtggtggaaggagagg	14	9	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:1991404C>T	ENST00000268661.7	-	0	2182				MSRB1_ENST00000399753.2_Missense_Mutation_p.V20I|MSRB1_ENST00000489198.1_5'UTR|MSRB1_ENST00000564908.1_Missense_Mutation_p.V20I|MSRB1_ENST00000361871.3_Missense_Mutation_p.V20I	NM_005061.2	NP_005052.1	Q92901	RL3L_HUMAN	ribosomal protein L3-like						cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|membrane (GO:0016020)|ribosome (GO:0005840)	RNA binding (GO:0003723)|structural constituent of ribosome (GO:0003735)			NS(1)|endometrium(5)|kidney(2)|large_intestine(2)|lung(5)|prostate(1)|upper_aerodigestive_tract(1)	17						CACACGTAAACGCCTGTGGTG	0.592																																																0													30	33	32					16																	1991404		2092	4221	6313	SO:0001628	intergenic_variant	51734			U65581	CCDS10450.1	16p13.3	2008-02-05			ENSG00000140986	ENSG00000140986		"L ribosomal proteins"	10351	protein-coding gene	gene with protein product						8921388	Standard	NM_005061		Approved		uc002cnh.3	Q92901	OTTHUMG00000128685		16.37:g.1991404C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000268661.7	37	CCDS10450.1	.	.	.	.	.	.	.	.	.	.	C	10.06	1.247097	0.22796	.	.	ENSG00000198736	ENST00000361871;ENST00000399753	T;T	0.75154	-0.91;-0.91	4.74	-6.66	0.01789	Mss4-like (1);Methionine sulphoxide reductase B (2);	0.829113	0.11048	N	0.605335	T	0.43166	0.1235	N	0.03891	-0.335	0.09310	N	0.999999	B	0.02656	0.0	B	0.01281	0.0	T	0.50171	-0.8859	10	0.02654	T	1	1.6117	15.1597	0.72775	0.0:0.2787:0.0:0.7213	.	20	Q9NZV6	MSRB1_HUMAN	I	20	ENSP00000355084:V20I;ENSP00000382657:V20I	ENSP00000355084:V20I	V	-	1	0	SEPX1	1931405	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.249000	0.08842	-1.211000	0.02624	-1.769000	0.00663	GTT		0.592	RPL3L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250582.2	NM_005061		T	1991404	C	T	1991404	1	4	664	0	1	0	0	0	0	0	0	0	14086	536	19	1		1	SEPX1	16	1991404	IGR	SNP	C	TCGA-KN-8428-01A-11D-2310-10	379328	1991404	88363349	775	42085										
TBL3	10607	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	2026870	2026870	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	actgcactgtgaagctgtggCctcttcccaaagccttgctg	10	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:2026870C>T	ENST00000568546.1	+	14	1476	c.1348C>T	c.(1348-1350)Cct>Tct	p.P450S		NM_006453.2	NP_006444.2	Q12788	TBL3_HUMAN	transducin (beta)-like 3	450					G-protein coupled receptor signaling pathway coupled to cGMP nucleotide second messenger (GO:0007199)|intracellular signal transduction (GO:0035556)|rRNA processing (GO:0006364)	nucleolus (GO:0005730)|nucleus (GO:0005634)|small-subunit processome (GO:0032040)	poly(A) RNA binding (GO:0044822)|receptor signaling protein activity (GO:0005057)			breast(1)|endometrium(2)|kidney(4)|lung(7)|ovary(1)|prostate(2)|skin(1)	18						GAAGCTGTGGCCTCTTCCCAA	0.602																																					Melanoma(118;616 1651 35077 38081 48633)											0													103	83	90					16																	2026870		2198	4300	6498	SO:0001583	missense	10607			U02609	CCDS10453.1	16p13.3	2013-01-10			ENSG00000183751	ENSG00000183751		"WD repeat domain containing"	11587	protein-coding gene	gene with protein product		605915				8307582	Standard	NM_006453		Approved	SAZD, UTP13	uc002cnu.1	Q12788	OTTHUMG00000128710	ENST00000568546.1:c.1348C>T	16.37:g.2026870C>T	ENSP00000454836:p.Pro450Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q59GD6|Q8IVB7|Q96A78	Missense_Mutation	SNP	ENST00000568546.1	37	CCDS10453.1	.	.	.	.	.	.	.	.	.	.	C	8.346	0.829811	0.16749	.	.	ENSG00000183751	ENST00000332704	.	.	.	5.27	4.3	0.51218	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.683346	0.15040	N	0.283918	T	0.14960	0.0361	N	0.01668	-0.77	0.35595	D	0.807376	B;P	0.36990	0.097;0.577	B;B	0.31442	0.048;0.13	T	0.14952	-1.0454	9	0.28530	T	0.3	-25.4819	8.6372	0.33955	0.2797:0.5848:0.1355:0.0	.	212;450	A0JLS5;Q12788	.;TBL3_HUMAN	S	450	.	ENSP00000331815:P450S	P	+	1	0	TBL3	1966871	1.000000	0.71417	0.996000	0.52242	0.960000	0.62799	1.635000	0.37134	1.186000	0.42985	0.561000	0.74099	CCT		0.602	TBL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250615.3	NM_006453		T	2026870	C	T	2026870	3	4	664	1	0	0	0	0	1	0	0	0	15655	739	26	2	1402	2	TBL3	16	2026870	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	35466	2026870	88327883	776	42086										
NTHL1	4913	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr16	2093638	2093638	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttgggcccaacacccggcagCgccaccagctcggccacaga	11	18	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:2093638C>T	ENST00000219066.1	-	4	657	c.639G>A	c.(637-639)gcG>gcA	p.A213A	NTHL1_ENST00000562951.1_5'UTR	NM_002528.5	NP_002519.1			nth endonuclease III-like 1 (E. coli)											lung(1)	1						CACCCGGCAGCGCCACCAGCT	0.627								Base excision repair (BER), DNA glycosylases																																								0																																										SO:0001819	synonymous_variant	4913			U81285	CCDS10457.1	16p13.3	2008-02-05	2001-11-28		ENSG00000065057	ENSG00000065057			8028	protein-coding gene	gene with protein product		602656	"nth (E.coli endonuclease III)-like 1"			9045706, 8990169	Standard	NM_002528		Approved	NTH1, OCTS3	uc002col.1	P78549	OTTHUMG00000128744	ENST00000219066.1:c.639G>A	16.37:g.2093638C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000219066.1	37	CCDS10457.1																																																																																				0.627	NTHL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250656.1	NM_002528		T	2093638	C	T	2093638	2	4	664	1	0	0	0	0	0	0	0	1	10705	755	27	1		1	NTHL1	16	2093638	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	66768	2093638	88261115	777	42087										
TRAF7	84231	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	2226329	2226329	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcaccagggcagtgtcaccGcgctggctgtgtcccggggc	16	14	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:2226329G>A	ENST00000326181.6	+	20	2074	c.1942G>A	c.(1942-1944)Gcg>Acg	p.A648T		NM_032271.2	NP_115647.2	Q6Q0C0	TRAF7_HUMAN	TNF receptor-associated factor 7, E3 ubiquitin protein ligase	648					activation of MAPKKK activity (GO:0000185)|apoptotic process (GO:0006915)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of MAPK cascade (GO:0043410)|protein ubiquitination (GO:0016567)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasmic vesicle (GO:0031410)|ubiquitin ligase complex (GO:0000151)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(8)|ovary(1)|pancreas(1)|prostate(2)|skin(1)	23						CAGTGTCACCGCGCTGGCTGT	0.642																																																0													24	23	23					16																	2226329		2189	4297	6486	SO:0001583	missense	84231			AL136921	CCDS10461.1	16p13.3	2013-01-10	2012-02-23	2004-06-04	ENSG00000131653	ENSG00000131653		"RING-type (C3HC4) zinc fingers", "WD repeat domain containing"	20456	protein-coding gene	gene with protein product		606692	"ring finger and WD repeat domain 1", "TNF receptor-associated factor 7"	RFWD1		11230166, 15001576	Standard	NM_032271		Approved	RNF119, DKFZp586I021, MGC7807	uc002cow.3	Q6Q0C0	OTTHUMG00000128826	ENST00000326181.6:c.1942G>A	16.37:g.2226329G>A	ENSP00000318944:p.Ala648Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H073	Missense_Mutation	SNP	ENST00000326181.6	37	CCDS10461.1	.	.	.	.	.	.	.	.	.	.	G	18.56	3.650320	0.67472	.	.	ENSG00000131653	ENST00000326181	T	0.61510	0.1	4.99	4.99	0.66335	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.44117	0.1278	N	0.25380	0.74	0.80722	D	1	P	0.34724	0.465	B	0.28385	0.089	T	0.41270	-0.9518	10	0.35671	T	0.21	-34.4038	17.4344	0.87547	0.0:0.0:1.0:0.0	.	648	Q6Q0C0	TRAF7_HUMAN	T	648	ENSP00000318944:A648T	ENSP00000318944:A648T	A	+	1	0	TRAF7	2166330	1.000000	0.71417	0.209000	0.23619	0.664000	0.39144	8.732000	0.91534	2.599000	0.87857	0.563000	0.77884	GCG		0.642	TRAF7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250762.1	NM_032271		A	2226329	G	A	2226329	3	1	664	1	0	0	0	0	1	0	0	0	16458	1087	38	1	2016	1	TRAF7	16	2226329	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	132691	2226329	88128424	778	42088										
E4F1	1877	mdanderson.org	37	chr16	2282184	2282184	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tctcctaggtggtgggcacaTcaaagaggtcatcgtggctg	14	9	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:2282184T>C	ENST00000301727.4	+	4	476	c.428T>C	c.(427-429)aTc>aCc	p.I143T	E4F1_ENST00000564139.1_Missense_Mutation_p.I143T|E4F1_ENST00000565090.1_Missense_Mutation_p.I143T	NM_004424.3	NP_004415.2	Q66K89	E4F1_HUMAN	E4F transcription factor 1	143					cell proliferation (GO:0008283)|DNA replication (GO:0006260)|mitotic cell cycle arrest (GO:0071850)|mitotic nuclear division (GO:0007067)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|protein ubiquitination (GO:0016567)|regulation of cell cycle process (GO:0010564)|regulation of growth (GO:0040008)|regulation of mitotic cell cycle, embryonic (GO:0009794)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|spindle (GO:0005819)	cAMP response element binding (GO:0035497)|DNA binding (GO:0003677)|ligase activity (GO:0016874)|metal ion binding (GO:0046872)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001227)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)			ovary(1)	1						GGTGGGCACATCAAAGAGGTC	0.692																																																0													62	74	70					16																	2282184		2196	4290	6486	SO:0001583	missense	1877			U87269	CCDS32370.1, CCDS73809.1, CCDS73810.1	16p13.3	2013-01-08				ENSG00000167967		"Zinc fingers, C2H2-type"	3121	protein-coding gene	gene with protein product		603022				9763670, 8828041	Standard	XM_005255155		Approved	E4F	uc002cpm.3	Q66K89		ENST00000301727.4:c.428T>C	16.37:g.2282184T>C	ENSP00000301727:p.Ile143Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2R4|O00146	Missense_Mutation	SNP	ENST00000301727.4	37	CCDS32370.1	.	.	.	.	.	.	.	.	.	.	T	10.68	1.417085	0.25552	.	.	ENSG00000167967	ENST00000301727	T	0.06768	3.26	5.33	5.33	0.75918	.	0.250879	0.44097	D	0.000499	T	0.20901	0.0503	L	0.53249	1.67	0.36522	D	0.870225	D;D;D	0.63880	0.988;0.988;0.993	P;P;D	0.72338	0.728;0.788;0.977	T	0.15206	-1.0445	10	0.18710	T	0.47	-31.1599	12.6759	0.56893	0.0:0.0:0.0:1.0	.	139;143;143	E9PFZ8;E7EMF7;Q66K89	.;.;E4F1_HUMAN	T	143	ENSP00000301727:I143T	ENSP00000301727:I143T	I	+	2	0	E4F1	2222185	1.000000	0.71417	1.000000	0.80357	0.896000	0.52359	0.816000	0.27267	2.026000	0.59711	0.459000	0.35465	ATC		0.692	E4F1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000435225.1	NM_004424		C	2282184	T	C	2282184	3	2	664	1	0	0	0	0	1	0	0	0	4876	1435	50	3	442	3	E4F1	16	2282184	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	55855	2282184	88072569	779	42089										
CEMP1	752014	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	2580968	2580968	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgggagaggagctgtcttgCcagggctcccaggcagggag	18	10	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:2580968C>T	ENST00000567119.1	-	1	441	c.107G>A	c.(106-108)gGc>gAc	p.G36D	AMDHD2_ENST00000565570.1_3'UTR|CEMP1_ENST00000565480.1_Missense_Mutation_p.G36D|MIR3178_ENST00000581887.1_RNA|CEMP1_ENST00000382350.1_Missense_Mutation_p.G36D|AMDHD2_ENST00000302956.4_3'UTR	NM_001048212.3	NP_001041677.1	Q6PRD7	CEMP1_HUMAN	cementum protein 1	36						cytoplasm (GO:0005737)				lung(1)|skin(1)	2						AGCTGTCTTGCCAGGGCTCCC	0.632																																																0													33	39	37					16																	2580968		2033	4178	6211	SO:0001583	missense	752014			AY584596	CCDS42108.1	16p13.3	2006-09-22							32553	protein-coding gene	gene with protein product	"cementum protein-23"	611113				16263347	Standard	NM_001048212		Approved	CP-23	uc002cqr.3	Q6PRD7		ENST00000567119.1:c.107G>A	16.37:g.2580968C>T	ENSP00000457380:p.Gly36Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B2RUY1	Missense_Mutation	SNP	ENST00000567119.1	37	CCDS42108.1	.	.	.	.	.	.	.	.	.	.	C	2.931	-0.220975	0.06061	.	.	ENSG00000205923	ENST00000382350	T	0.59083	0.29	1.38	-2.75	0.05914	.	.	.	.	.	T	0.30696	0.0773	N	0.08118	0	0.09310	N	1	B	0.09022	0.002	B	0.04013	0.001	T	0.10019	-1.0648	9	0.87932	D	0	.	3.7716	0.08643	0.0:0.2959:0.4032:0.3009	.	36	Q6PRD7	CEMP1_HUMAN	D	36	ENSP00000371787:G36D	ENSP00000371787:G36D	G	-	2	0	CEMP1	2520969	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	0.036000	0.13819	-1.512000	0.01791	0.561000	0.74099	GGC		0.632	CEMP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000435686.1	NM_001048212		T	2580968	C	T	2580968	3	4	664	1	0	0	0	0	1	0	0	0	3226	739	26	2	640	2	CEMP1	16	2580968	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	298784	2580968	87773785	780	42090										
ZNF263	10127	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr16	3334016	3334016	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agccggctccaagagctttgCcatgggtggcttcggcctga	14	12	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:3334016C>T	ENST00000219069.5	+	1	1074	c.198C>T	c.(196-198)tgC>tgT	p.C66C	ZNF263_ENST00000573578.1_Silent_p.C66C|ZNF263_ENST00000538765.1_Intron|ZNF263_ENST00000574253.1_Silent_p.C66C	NM_005741.4	NP_005732.2	O14978	ZN263_HUMAN	zinc finger protein 263	66	SCAN box. {ECO:0000255|PROSITE- ProRule:PRU00187}.				negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|microtubule cytoskeleton (GO:0015630)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|endometrium(2)|large_intestine(4)|lung(5)|ovary(1)|skin(4)|urinary_tract(3)	20						AAGAGCTTTGCCATGGGTGGC	0.632																																																0													54	59	57					16																	3334016		2197	4300	6497	SO:0001819	synonymous_variant	10127			AC004232	CCDS10499.1	16p13.3	2013-01-09			ENSG00000006194	ENSG00000006194		"Zinc fingers, C2H2-type", "-", "-", "-"	13056	protein-coding gene	gene with protein product		604191				9256059	Standard	NM_005741		Approved	FPM315, ZKSCAN12, ZSCAN44	uc002cuq.3	O14978	OTTHUMG00000129323	ENST00000219069.5:c.198C>T	16.37:g.3334016C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R634|O43387|Q96H95	Silent	SNP	ENST00000219069.5	37	CCDS10499.1																																																																																				0.632	ZNF263-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251463.2			T	3334016	C	T	3334016	2	4	664	1	0	0	0	0	0	0	0	1	17815	747	26	2		2	ZNF263	16	3334016	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	753048	3334016	87020737	781	42091										
PPL	5493	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr16	4934370	4934370	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagcttcttcctgctccagcGctgccagccgctgctgcaac	9	18	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:4934370G>A	ENST00000345988.2	-	22	4375	c.4286C>T	c.(4285-4287)gCg>gTg	p.A1429V	PPL_ENST00000590782.2_Missense_Mutation_p.A1427V	NM_002705.4	NP_002696	O60437	PEPL_HUMAN	periplakin	1429					keratinization (GO:0031424)	cell junction (GO:0030054)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	structural constituent of cytoskeleton (GO:0005200)			breast(6)|central_nervous_system(1)|endometrium(11)|kidney(5)|large_intestine(12)|lung(12)|ovary(4)|prostate(5)|skin(3)|stomach(1)|urinary_tract(2)	62						CTGCTCCAGCGCTGCCAGCCG	0.687																																																0													53	55	55					16																	4934370		2161	4247	6408	SO:0001583	missense	5493			AF013717	CCDS10526.1	16p13.3	2008-02-05			ENSG00000118898	ENSG00000118898			9273	protein-coding gene	gene with protein product		602871				9570964, 9521878	Standard	NM_002705		Approved		uc002cyd.1	O60437	OTTHUMG00000129528	ENST00000345988.2:c.4286C>T	16.37:g.4934370G>A	ENSP00000340510:p.Ala1429Val	Somatic		WXS	Illumina HiSeq	Phase_I	O60314|O60454|Q14C98	Missense_Mutation	SNP	ENST00000345988.2	37	CCDS10526.1	.	.	.	.	.	.	.	.	.	.	G	5.476	0.272799	0.10349	.	.	ENSG00000118898	ENST00000345988	T	0.36340	1.26	5.44	-2.13	0.07144	.	0.684498	0.14258	N	0.330964	T	0.22166	0.0534	L	0.29908	0.895	0.09310	N	0.999996	B	0.09022	0.002	B	0.04013	0.001	T	0.12941	-1.0528	10	0.56958	D	0.05	.	7.0929	0.25293	0.3621:0.0:0.1348:0.5031	.	1429	O60437	PEPL_HUMAN	V	1429	ENSP00000340510:A1429V	ENSP00000340510:A1429V	A	-	2	0	PPL	4874371	0.097000	0.21791	0.000000	0.03702	0.075000	0.17131	0.914000	0.28624	-0.697000	0.05092	-0.948000	0.02665	GCG		0.687	PPL-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251715.1	NM_002705		A	4934370	G	A	4934370	3	1	664	1	0	0	0	0	1	0	0	0	12344	1087	38	1	988	1	PPL	16	4934370	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1600354	4934370	85420383	782	42092										
PPL	5493	broad.mit.edu;mdanderson.org	37	chr16	4940317	4940317	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgctcgtaggctgccttggcGctctgtaggctctgcgccct	13	14	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:4940317G>A	ENST00000345988.2	-	18	2270	c.2181C>T	c.(2179-2181)agC>agT	p.S727S	PPL_ENST00000590782.2_Silent_p.S725S	NM_002705.4	NP_002696	O60437	PEPL_HUMAN	periplakin	727					keratinization (GO:0031424)	cell junction (GO:0030054)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	structural constituent of cytoskeleton (GO:0005200)			breast(6)|central_nervous_system(1)|endometrium(11)|kidney(5)|large_intestine(12)|lung(12)|ovary(4)|prostate(5)|skin(3)|stomach(1)|urinary_tract(2)	62						CTGCCTTGGCGCTCTGTAGGC	0.567																																																0													92	75	81					16																	4940317		2197	4300	6497	SO:0001819	synonymous_variant	5493			AF013717	CCDS10526.1	16p13.3	2008-02-05			ENSG00000118898	ENSG00000118898			9273	protein-coding gene	gene with protein product		602871				9570964, 9521878	Standard	NM_002705		Approved		uc002cyd.1	O60437	OTTHUMG00000129528	ENST00000345988.2:c.2181C>T	16.37:g.4940317G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60314|O60454|Q14C98	Silent	SNP	ENST00000345988.2	37	CCDS10526.1																																																																																				0.567	PPL-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251715.1	NM_002705		A	4940317	G	A	4940317	2	1	664	1	0	0	0	0	0	0	0	1	12344	1078	38	1		1	PPL	16	4940317	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5947	4940317	85414436	783	42093										
ALG1	56052	mdanderson.org	37	chr16	5129069	5129069	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aattctcttctcatagaggaCgaagacttctccatcctgct	6	12	3	2	rs144029725	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:5129069C>T	ENST00000262374.5	+	8	898	c.867C>T	c.(865-867)gaC>gaT	p.D289D	ALG1_ENST00000588623.1_Silent_p.D178D|ALG1_ENST00000544428.1_Silent_p.D178D	NM_019109.4	NP_061982.3	Q9BT22	ALG1_HUMAN	ALG1, chitobiosyldiphosphodolichol beta-mannosyltransferase	289					cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|lipopolysaccharide biosynthetic process (GO:0009103)|mannosylation (GO:0097502)|post-translational protein modification (GO:0043687)|protein glycosylation (GO:0006486)|protein N-linked glycosylation via asparagine (GO:0018279)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	chitobiosyldiphosphodolichol beta-mannosyltransferase activity (GO:0004578)|mannosyltransferase activity (GO:0000030)			breast(1)|cervix(1)|endometrium(1)|large_intestine(1)|lung(5)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	13		Ovarian(90;0.0164)				TCATAGAGGACGAAGACTTCT	0.567													C|||	11	0.00219649	0.0076	0.0014	5008	,	,		18008	0.0		0.0	False		,,,				2504	0.0															0								C		21,2761		0,21,1370	13	14	13		867	0.7	1	16	dbSNP_134	13	0,4778		0,0,2389	no	coding-synonymous	ALG1	NM_019109.4		0,21,3759	TT,TC,CC		0.0,0.7549,0.2778		289/465	5129069	21,7539	1391	2389	3780	SO:0001819	synonymous_variant	56052			AB019038	CCDS10528.1	16p13.3	2013-02-22	2013-02-22		ENSG00000033011	ENSG00000033011	2.4.1.142	"Glycosyltransferase group 1 domain containing"	18294	protein-coding gene	gene with protein product		605907	"asparagine-linked glycosylation 1 homolog (yeast, beta-1,4-mannosyltransferase)", "asparagine-linked glycosylation 1, beta-1,4-mannosyltransferase homolog (S. cerevisiae)"			10704531	Standard	NM_019109		Approved	HMT-1, HMAT1	uc002cym.3	Q9BT22	OTTHUMG00000129529	ENST00000262374.5:c.867C>T	16.37:g.5129069C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DP08|Q6UVZ9|Q8N5Y4|Q9P2Y2	Silent	SNP	ENST00000262374.5	37	CCDS10528.1																																																																																				0.567	ALG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251716.2	NM_019109		T	5129069	C	T	5129069	2	4	664	1	0	0	0	0	0	0	0	1	510	535	19	1		1	ALG1	16	5129069	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	188752	5129069	85225684	784	42094										
C16orf68	79091	broad.mit.edu	37	chr16	8729031	8729031	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctcttccctccaggtgtggCggggcgccctgctcctggca	13	17	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:8729031C>T	ENST00000381920.3	+	5	820	c.562C>T	c.(562-564)Cgg>Tgg	p.R188W	METTL22_ENST00000568967.1_3'UTR|METTL22_ENST00000561758.1_Missense_Mutation_p.R132W	NM_024109.2	NP_077014.2	Q9BUU2	MET22_HUMAN	methyltransferase like 22	188						nucleus (GO:0005634)	methyltransferase activity (GO:0008168)			large_intestine(5)|lung(4)	9						CCAGGTGTGGCGGGGCGCCCT	0.647																																																0													74	77	76					16																	8729031		2107	4230	6337	SO:0001583	missense	79091			AK022495	CCDS10533.2	16p13.2	2014-07-15	2011-03-03	2011-03-03	ENSG00000067365	ENSG00000067365			28368	protein-coding gene	gene with protein product		615261	"chromosome 16 open reading frame 68"	C16orf68		24140279	Standard	XM_005255570		Approved	FLJ12433,MGC2654	uc002cyz.3	Q9BUU2	OTTHUMG00000129694	ENST00000381920.3:c.562C>T	16.37:g.8729031C>T	ENSP00000371345:p.Arg188Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B2RD29|D3DUF2|Q6XYB4|Q9HA03	Missense_Mutation	SNP	ENST00000381920.3	37	CCDS10533.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	19.90|19.90	3.912727|3.912727	0.72983|0.72983	.|.	.|.	ENSG00000067365|ENSG00000067365	ENST00000163678|ENST00000381920	T|T	0.50813|0.06768	0.73|3.26	4.69|4.69	3.67|3.67	0.42095|0.42095	.|.	.|0.229248	.|0.35970	.|N	.|0.002876	T|T	0.30854|0.30854	0.0778|0.0778	M|M	0.85630|0.85630	2.765|2.765	0.80722|0.80722	D|D	1|1	.|D	.|0.89917	.|1.0	.|D	.|0.80764	.|0.994	T|T	0.14896|0.14896	-1.0456|-1.0456	7|10	0.66056|0.72032	D|D	0.02|0.01	-20.7383|-20.7383	13.4424|13.4424	0.61121|0.61121	0.1564:0.8436:0.0:0.0|0.1564:0.8436:0.0:0.0	.|.	.|188	.|Q9BUU2	.|MET22_HUMAN	V|W	174|188	ENSP00000163678:A174V|ENSP00000371345:R188W	ENSP00000163678:A174V|ENSP00000371345:R188W	A|R	+|+	2|1	0|2	METTL22|METTL22	8636532|8636532	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.960000|0.960000	0.62799|0.62799	3.311000|3.311000	0.51919|0.51919	2.324000|2.324000	0.78689|0.78689	0.655000|0.655000	0.94253|0.94253	GCG|CGG		0.647	METTL22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251901.1	NM_024109		T	8729031	C	T	8729031	3	4	664	1	0	0	0	0	1	0	0	0	1829	759	27	1	576	1	C16orf68	16	8729031	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3599962	8729031	81625722	785	42095										
KIAA0430	9665	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr16	15711251	15711251	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caattcgtggaggagccgtcGtgtgactgggaagaccccaa	14	10	0	2	rs533235779	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:15711251G>A	ENST00000396368.3	-	14	3068	c.2862C>T	c.(2860-2862)caC>caT	p.H954H	KIAA0430_ENST00000548025.1_Silent_p.H951H|KIAA0430_ENST00000602337.1_Silent_p.H951H|KIAA0430_ENST00000344181.3_Silent_p.H596H|KIAA0430_ENST00000551742.1_Silent_p.H954H|KIAA0430_ENST00000540441.2_Silent_p.H789H	NM_001184998.1|NM_001184999.1|NM_014647.3	NP_001171927.1|NP_001171928.1|NP_055462.2	Q9Y4F3	MARF1_HUMAN	KIAA0430	954					double-strand break repair (GO:0006302)|female meiotic division (GO:0007143)|negative regulation of phosphatase activity (GO:0010923)|oogenesis (GO:0048477)|regulation of gene expression (GO:0010468)	membrane (GO:0016020)|peroxisome (GO:0005777)	nucleotide binding (GO:0000166)|RNA binding (GO:0003723)			breast(4)|endometrium(8)|kidney(4)|large_intestine(2)|lung(13)|ovary(3)|prostate(5)|skin(1)	40						AGGAGCCGTCGTGTGACTGGG	0.537													G|||	2	0.000399361	0.0	0.0029	5008	,	,		15822	0.0		0.0	False		,,,				2504	0.0															0													55	57	56					16																	15711251		1877	4102	5979	SO:0001819	synonymous_variant	9665			AB007890	CCDS10562.2, CCDS53990.1, CCDS55991.1	16p13.11	2013-01-11			ENSG00000166783	ENSG00000166783		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	29562	protein-coding gene	gene with protein product	"limkain b1", "protein phosphatase 1, regulatory subunit 34", "meiosis arrest female 1"	614593				9455477, 10493829, 15932519, 22442484, 23090997	Standard	NM_014647		Approved	LKAP, PPP1R34, Marf1	uc010uzw.2	Q9Y4F3	OTTHUMG00000129884	ENST00000396368.3:c.2862C>T	16.37:g.15711251G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MSK2|B2RNX2|B4DYY9|B7ZMG1|B7ZMG2|F8VV09|Q6P1R6|Q8WYR2|Q9Y4J9	Silent	SNP	ENST00000396368.3	37	CCDS10562.2																																																																																				0.537	KIAA0430-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252131.2	NM_014647		A	15711251	G	A	15711251	2	1	664	1	0	0	0	0	0	0	0	1	8184	1136	40	1		1	KIAA0430	16	15711251	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6982220	15711251	74643502	786	42096										
MYH11	4629	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr16	15818057	15818057	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttcttttccaggttggacacGagttgccgctggttgtccaa	11	10	1	0	rs369335485		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:15818057G>A	ENST00000300036.5	-	31	4435	c.4326C>T	c.(4324-4326)ctC>ctT	p.L1442L	AF001548.5_ENST00000574212.1_RNA|MYH11_ENST00000576790.2_Silent_p.L1442L|NDE1_ENST00000396355.1_Silent_p.T319T|MYH11_ENST00000396324.3_Silent_p.L1449L|NDE1_ENST00000396354.1_Silent_p.T319T|NDE1_ENST00000342673.5_Silent_p.T319T|NDE1_ENST00000571896.1_3'UTR|MYH11_ENST00000452625.2_Silent_p.L1449L	NM_002474.2	NP_002465.1	P35749	MYH11_HUMAN	myosin, heavy chain 11, smooth muscle	1442					axon guidance (GO:0007411)|cardiac muscle fiber development (GO:0048739)|elastic fiber assembly (GO:0048251)|muscle contraction (GO:0006936)|skeletal muscle myosin thick filament assembly (GO:0030241)|smooth muscle contraction (GO:0006939)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|muscle myosin complex (GO:0005859)|myosin filament (GO:0032982)|smooth muscle contractile fiber (GO:0030485)|stress fiber (GO:0001725)	ATP binding (GO:0005524)|motor activity (GO:0003774)|structural constituent of muscle (GO:0008307)			NS(2)|breast(7)|central_nervous_system(1)|endometrium(11)|kidney(5)|large_intestine(34)|liver(1)|lung(37)|ovary(9)|pancreas(1)|prostate(7)|skin(7)|upper_aerodigestive_tract(1)	123						GGTTGGACACGAGTTGCCGCT	0.547			T	CBFB	AML																																		Dom	yes		16	16p13.13-p13.12	4629	"myosin, heavy polypeptide 11, smooth muscle"		L	0													87	83	85					16																	15818057		2197	4300	6497	SO:0001819	synonymous_variant	4629			X69292	CCDS10565.1, CCDS10566.1, CCDS45423.1, CCDS45424.1	16p13.11	2011-09-27	2006-09-29		ENSG00000133392	ENSG00000133392		"Myosins / Myosin superfamily : Class II"	7569	protein-coding gene	gene with protein product		160745	"myosin, heavy polypeptide 11, smooth muscle"			7684189	Standard	NM_001040113		Approved	SMMHC, SMHC	uc002ddx.3	P35749	OTTHUMG00000129935	ENST00000300036.5:c.4326C>T	16.37:g.15818057G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D2JYH7|O00396|O94944|P78422|Q3MIV8|Q3MNF0|Q3MNF1	Silent	SNP	ENST00000300036.5	37	CCDS10565.1																																																																																				0.547	MYH11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252192.2	NM_001040113		A	15818057	G	A	15818057	2	1	664	1	0	0	0	0	0	0	0	1	10038	1045	37	1		1	MYH11	16	15818057	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	106806	15818057	74536696	787	42097										
ITPRIPL2	162073	hgsc.bcm.edu;ucsc.edu	37	chr16	19126839	19126839	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgtggggtgtgaacacagcAcgccaggagcagaagctgct	15	10	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:19126839A>C	ENST00000381440.3	+	1	1586	c.1056A>C	c.(1054-1056)gcA>gcC	p.A352A	CTD-2349B8.1_ENST00000564808.2_Intron	NM_001034841.3	NP_001030013.1	Q3MIP1	IPIL2_HUMAN	inositol 1,4,5-trisphosphate receptor interacting protein-like 2	352						integral component of membrane (GO:0016021)				endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	9						TGAACACAGCACGCCAGGAGC	0.652																																																0													35	40	39					16																	19126839		2196	4300	6496	SO:0001819	synonymous_variant	162073				CCDS32395.1	16p12.3	2011-04-28	2011-04-28		ENSG00000205730	ENSG00000205730			27257	protein-coding gene	gene with protein product			"inositol 1,4,5-triphosphate receptor interacting protein-like 2"				Standard	NM_001034841		Approved	FLJ22994, MGC126798, MGC126800, LOC162073	uc002dfu.4	Q3MIP1		ENST00000381440.3:c.1056A>C	16.37:g.19126839A>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000381440.3	37	CCDS32395.1																																																																																				0.652	ITPRIPL2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000435827.3	NM_001034841		C	19126839	A	C	19126839	2	2	664	1	0	0	0	0	0	0	0	1	7932	146	6	5		5	ITPRIPL2	16	19126839	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	3308782	19126839	71227914	788	42098										
SYT17	51760	broad.mit.edu;mdanderson.org	37	chr16	19236099	19236099	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acaattgatcctttctacaaTgaatccttcagcttcaaagt	4	10	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:19236099T>C	ENST00000355377.2	+	7	1565	c.1167T>C	c.(1165-1167)aaT>aaC	p.N389N	SYT17_ENST00000568433.1_Silent_p.N83N|SYT17_ENST00000562711.2_Silent_p.N385N|SYT17_ENST00000568115.1_Silent_p.N328N|SYT17_ENST00000562034.1_Silent_p.N328N	NM_016524.2	NP_057608.2	Q9BSW7	SYT17_HUMAN	synaptotagmin XVII	389	C2 2. {ECO:0000255|PROSITE- ProRule:PRU00041}.				exocytosis (GO:0006887)	membrane (GO:0016020)|synaptic vesicle (GO:0008021)|trans-Golgi network (GO:0005802)	transporter activity (GO:0005215)			NS(1)|central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(3)|ovary(1)|skin(1)	17						CTTTCTACAATGAATCCTTCA	0.448																																																0													126	124	125					16																	19236099		2197	4300	6497	SO:0001819	synonymous_variant	51760				CCDS10575.1	16p12.3	2013-01-21			ENSG00000103528	ENSG00000103528		"Synaptotagmins"	24119	protein-coding gene	gene with protein product	"B/K protein"					10493829	Standard	NM_016524		Approved		uc002dfw.3	Q9BSW7	OTTHUMG00000131461	ENST00000355377.2:c.1167T>C	16.37:g.19236099T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O43330|Q9NZ18	Silent	SNP	ENST00000355377.2	37	CCDS10575.1																																																																																				0.448	SYT17-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254286.2	NM_016524		C	19236099	T	C	19236099	2	2	664	1	0	0	0	0	0	0	0	1	15485	1461	51	3		3	SYT17	16	19236099	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	109260	19236099	71118654	789	42099										
UMOD	7369	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	20360337	20360337	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gggcgacaggcggaagccttCggggcagacgcaggagaagg	20	9	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:20360337C>T	ENST00000570689.1	-	3	432	c.286G>A	c.(286-288)Gaa>Aaa	p.E96K	UMOD_ENST00000302509.4_Missense_Mutation_p.E96K|UMOD_ENST00000396142.2_Missense_Mutation_p.E96K|UMOD_ENST00000396138.4_Missense_Mutation_p.E145K|UMOD_ENST00000424589.1_Missense_Mutation_p.E129K|UMOD_ENST00000396134.2_Missense_Mutation_p.E129K			P07911	UROM_HUMAN	uromodulin	96	EGF-like 2; calcium-binding. {ECO:0000255|PROSITE-ProRule:PRU00076}.		VCPEG -> AASC (in MCKD2). {ECO:0000269|PubMed:14531790}.		cellular defense response (GO:0006968)|chemical homeostasis (GO:0048878)|excretion (GO:0007588)|heterophilic cell-cell adhesion (GO:0007157)|leukocyte cell-cell adhesion (GO:0007159)|metanephric ascending thin limb development (GO:0072218)|metanephric distal convoluted tubule development (GO:0072221)|metanephric thick ascending limb development (GO:0072233)|negative regulation of cell proliferation (GO:0008285)|neutrophil migration (GO:1990266)|regulation of ion homeostasis (GO:2000021)|response to organic substance (GO:0010033)	anchored component of membrane (GO:0031225)|apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|cytoplasmic vesicle (GO:0031410)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi apparatus (GO:0005794)|membrane raft (GO:0045121)|primary cilium (GO:0072372)|spindle pole (GO:0000922)	calcium ion binding (GO:0005509)|IgG binding (GO:0019864)			endometrium(5)|kidney(1)|large_intestine(7)|lung(20)|ovary(1)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	41						CGGAAGCCTTCGGGGCAGACG	0.637																																																0													32	21	25					16																	20360337		2202	4299	6501	SO:0001583	missense	7369			M17778	CCDS10583.1, CCDS61876.1	16p12.3	2008-06-23	2008-06-23		ENSG00000169344	ENSG00000169344			12559	protein-coding gene	gene with protein product	"Tamm-Horsfall glycoprotein", "uromucoid"	191845	"uromodulin (uromucoid, Tamm-Horsfall glycoprotein)"			8382593	Standard	NM_003361		Approved		uc002dha.3	P07911	OTTHUMG00000131488	ENST00000570689.1:c.286G>A	16.37:g.20360337C>T	ENSP00000460548:p.Glu96Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KP48|B3KRN9|E9PEA4|Q540J6|Q6ZS84|Q8IYG0	Missense_Mutation	SNP	ENST00000570689.1	37	CCDS10583.1	.	.	.	.	.	.	.	.	.	.	c	8.398	0.841251	0.16891	.	.	ENSG00000169344	ENST00000396138;ENST00000396134;ENST00000424589;ENST00000302509;ENST00000429954;ENST00000396142	D;D;D;D	0.92348	-3.02;-3.02;-3.02;-3.02	5.45	1.09	0.20402	Growth factor, receptor (1);EGF-like region, conserved site (1);EGF-like calcium-binding (2);Epidermal growth factor-like, type 3 (1);	0.984329	0.08288	N	0.968839	T	0.80717	0.4676	N	0.25201	0.72	0.09310	N	1	P;P	0.40250	0.709;0.567	B;B	0.28784	0.094;0.065	T	0.68010	-0.5522	10	0.12766	T	0.61	-6.0448	7.0601	0.25121	0.0:0.4396:0.403:0.1574	.	129;96	E9PEA4;P07911	.;UROM_HUMAN	K	96;129;129;96;96;96	ENSP00000379438:E129K;ENSP00000416346:E129K;ENSP00000306279:E96K;ENSP00000379446:E96K	ENSP00000306279:E96K	E	-	1	0	UMOD	20267838	0.000000	0.05858	0.000000	0.03702	0.006000	0.05464	0.211000	0.17474	0.227000	0.20999	-0.313000	0.08912	GAA		0.637	UMOD-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000436862.1			T	20360337	C	T	20360337	3	4	664	1	0	0	0	0	1	0	0	0	16991	893	31	1	1672	1	UMOD	16	20360337	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1124238	20360337	69994416	790	42100										
DCUN1D3	123879	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr16	20873571	20873571	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttcccgctcatccttgtagCgcctgaacagttcttccaat	6	15	2	1	rs368022474		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:20873571C>T	ENST00000324344.4	-	2	575	c.290G>A	c.(289-291)cGc>cAc	p.R97H	ERI2_ENST00000564349.1_Intron|DCUN1D3_ENST00000563934.1_Missense_Mutation_p.R97H	NM_173475.2	NP_775746.1	Q8IWE4	DCNL3_HUMAN	DCN1, defective in cullin neddylation 1, domain containing 3	97	DCUN1. {ECO:0000255|PROSITE- ProRule:PRU00574}.				negative regulation of cell growth (GO:0030308)|positive regulation of apoptotic process (GO:0043065)|response to gamma radiation (GO:0010332)|response to UV-C (GO:0010225)	perinuclear region of cytoplasm (GO:0048471)				NS(2)|breast(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(3)|ovary(2)	14				GBM - Glioblastoma multiforme(48;0.249)		ATCCTTGTAGCGCCTGAACAG	0.542																																																0								C	HIS/ARG	0,4402		0,0,2201	162	144	150		290	5.9	1	16		150	2,8598	2.2+/-6.3	0,2,4298	no	missense	DCUN1D3	NM_173475.2	29	0,2,6499	TT,TC,CC		0.0233,0.0,0.0154	benign	97/305	20873571	2,13000	2201	4300	6501	SO:0001583	missense	123879			BC040442	CCDS10592.1	16p12.3	2013-06-10	2013-06-10		ENSG00000188215	ENSG00000188215			28734	protein-coding gene	gene with protein product			"DCN1, defective in cullin neddylation 1, domain containing 3 (S. cerevisiae)"			15988528	Standard	NM_173475		Approved	MGC48972, FLJ41725, DKFZp686O0290	uc002dhz.3	Q8IWE4	OTTHUMG00000131553	ENST00000324344.4:c.290G>A	16.37:g.20873571C>T	ENSP00000319482:p.Arg97His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVY4	Missense_Mutation	SNP	ENST00000324344.4	37	CCDS10592.1	.	.	.	.	.	.	.	.	.	.	C	19.01	3.744633	0.69418	0.0	2.33E-4	ENSG00000188215	ENST00000324344	D	0.94092	-3.35	5.92	5.92	0.95590	Domain of unknown function DUF298 (1);	0.090703	0.85682	D	0.000000	D	0.91026	0.7177	L	0.41356	1.27	0.51012	D	0.999909	B	0.21309	0.054	B	0.12837	0.008	D	0.86060	0.1531	10	0.51188	T	0.08	-6.6182	20.3214	0.98679	0.0:1.0:0.0:0.0	.	97	Q8IWE4	DCNL3_HUMAN	H	97	ENSP00000319482:R97H	ENSP00000319482:R97H	R	-	2	0	DCUN1D3	20781072	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.089000	0.71384	2.804000	0.96469	0.655000	0.94253	CGC		0.542	DCUN1D3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254415.2	NM_173475		T	20873571	C	T	20873571	3	4	664	1	0	0	0	0	1	0	0	0	4317	768	27	1	632	1	DCUN1D3	16	20873571	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	513234	20873571	69481182	791	42101										
DNAH3	55567	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	20996802	20996802	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctttgtcctgcttcaggacaCggcagatcctagagatgtgc	11	11	1	2	rs200916697		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:20996802C>T	ENST00000261383.3	-	48	7261	c.7262G>A	c.(7261-7263)cGt>cAt	p.R2421H	DNAH3_ENST00000415178.1_3'UTR	NM_017539.1	NP_060009.1	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2421	AAA 4. {ECO:0000250}.				cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|microtubule motor activity (GO:0003777)			NS(3)|autonomic_ganglia(1)|breast(12)|central_nervous_system(3)|cervix(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(4)|kidney(10)|large_intestine(42)|liver(2)|lung(57)|ovary(14)|pancreas(1)|prostate(7)|skin(11)|stomach(5)|upper_aerodigestive_tract(7)|urinary_tract(6)	202				GBM - Glioblastoma multiforme(48;0.207)		CTTCAGGACACGGCAGATCCT	0.552													C|||	1	0.000199681	0.0	0.0	5008	,	,		19647	0.001		0.0	False		,,,				2504	0.0															0													81	70	74					16																	20996802		2201	4300	6501	SO:0001583	missense	55567			U83574	CCDS10594.1	16p12.2	2008-08-01	2006-09-04		ENSG00000158486	ENSG00000158486		"Axonemal dyneins"	2949	protein-coding gene	gene with protein product		603334	"dynein, axonemal, heavy polypeptide 3"			9256245, 9373155	Standard	NM_017539		Approved	Dnahc3b, DLP3, Hsadhc3, DKFZp434N074	uc010vbe.2	Q8TD57	OTTHUMG00000090677	ENST00000261383.3:c.7262G>A	16.37:g.20996802C>T	ENSP00000261383:p.Arg2421His	Somatic		WXS	Illumina HiSeq	Phase_I	O00437|O15437|O43326|Q3C0H2|Q8WUP9|Q9UEM3|Q9UEM5|Q9UG35	Missense_Mutation	SNP	ENST00000261383.3	37	CCDS10594.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	C	29.4	4.999055	0.93227	.	.	ENSG00000158486	ENST00000261383	T	0.57273	0.41	5.43	5.43	0.79202	Dynein heavy chain, P-loop containing D4 domain (1);	0.000000	0.64402	D	0.000001	D	0.85699	0.5757	H	0.99454	4.575	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.92110	0.5695	10	0.87932	D	0	.	19.2603	0.93966	0.0:1.0:0.0:0.0	.	2421	Q8TD57	DYH3_HUMAN	H	2421	ENSP00000261383:R2421H	ENSP00000261383:R2421H	R	-	2	0	DNAH3	20904303	1.000000	0.71417	1.000000	0.80357	0.873000	0.50193	7.783000	0.85696	2.554000	0.86153	0.655000	0.94253	CGT		0.552	DNAH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207361.1	NM_017539		T	20996802	C	T	20996802	3	4	664	1	0	0	0	0	1	0	0	0	4605	536	19	1	5147	1	DNAH3	16	20996802	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	123231	20996802	69357951	792	42102										
OTOA	146183	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	21734300	21734300	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttcctcttggctgcactcccGtaagtgaacatcagccccca	7	16	2	1	rs148690740		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:21734300G>A	ENST00000286149.4	+	17	1923		c.e17+1		OTOA_ENST00000388956.4_Splice_Site|OTOA_ENST00000388957.3_Splice_Site|OTOA_ENST00000388958.3_Splice_Site			Q7RTW8	OTOAN_HUMAN	otoancorin						cell-matrix adhesion (GO:0007160)|sensory perception of sound (GO:0007605)|transmission of nerve impulse (GO:0019226)	anchored component of membrane (GO:0031225)|apical plasma membrane (GO:0016324)|proteinaceous extracellular matrix (GO:0005578)				breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(9)|liver(2)|lung(23)|ovary(1)|prostate(1)|skin(5)|stomach(1)	46				GBM - Glioblastoma multiforme(48;0.0414)		CTGCACTCCCGTAAGTGAACA	0.478																																																0								G	,,	1,4395	2.1+/-5.4	0,1,2197	96	81	86		,,	4.8	1	16	dbSNP_134	86	1,8599	1.2+/-3.3	0,1,4299	no	splice-5,splice-5,splice-5	OTOA	NM_001161683.1,NM_144672.3,NM_170664.2	,,	0,2,6496	AA,AG,GG		0.0116,0.0227,0.0154	,,	,,	21734300	2,12994	2198	4300	6498	SO:0001630	splice_region_variant	146183			AK057335	CCDS10600.2, CCDS32403.1, CCDS53994.1	16p12.2	2009-08-18	2002-07-05		ENSG00000155719	ENSG00000155719			16378	protein-coding gene	gene with protein product	"cancer/testis antigen 108"	607038	"deafness, autosomal recessive 22"	DFNB22		11972037, 19088187	Standard	NM_170664		Approved	CT108	uc002djh.3	Q7RTW8	OTTHUMG00000090721	ENST00000286149.4:c.1922+1G>A	16.37:g.21734300G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A1L3A8|A2VDI0|B3KWU3|E9PF51|Q8NA86|Q96M76	Splice_Site	SNP	ENST00000286149.4	37		.	.	.	.	.	.	.	.	.	.	G	20.7	4.037065	0.75617	2.27E-4	1.16E-4	ENSG00000155719	ENST00000388958;ENST00000286149;ENST00000388956;ENST00000388957	.	.	.	4.77	4.77	0.60923	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.6549	0.77126	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	OTOA	21641801	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	5.715000	0.68430	2.353000	0.79882	0.655000	0.94253	.		0.478	OTOA-003	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000430021.1		Intron	A	21734300	G	A	21734300	5	1	664	1	0	0	0	0	0	0	1	0	11309	1159	40	1	1993	1	OTOA	16	21734300	Splice_Site	SNP	G	TCGA-KN-8428-01A-11D-2310-10	737498	21734300	68620453	793	42103										
UQCRC2	7385	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	21968871	21968871	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggaaccacccatttgctgcGtcttacatccagtctggtga	9	12	2	1	rs371099781		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:21968871G>A	ENST00000268379.4	+	3	1015	c.251G>A	c.(250-252)cGt>cAt	p.R84H	UQCRC2_ENST00000561553.1_Missense_Mutation_p.R84H	NM_003366.2	NP_003357.2	P22695	QCR2_HUMAN	ubiquinol-cytochrome c reductase core protein II	84					aerobic respiration (GO:0009060)|cellular metabolic process (GO:0044237)|oxidative phosphorylation (GO:0006119)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain complex III (GO:0005750)|mitochondrion (GO:0005739)	metal ion binding (GO:0046872)|metalloendopeptidase activity (GO:0004222)			breast(1)|cervix(1)|endometrium(2)|large_intestine(5)|lung(4)|prostate(1)|skin(1)	15				GBM - Glioblastoma multiforme(48;0.0264)		CATTTGCTGCGTCTTACATCC	0.388																																					Colon(123;450 1645 12841 25393 45623)											0								G	HIS/ARG	0,4396		0,0,2198	175	151	159		251	5.2	1	16		159	1,8599	1.2+/-3.3	0,1,4299	no	missense	UQCRC2	NM_003366.2	29	0,1,6497	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	84/454	21968871	1,12995	2198	4300	6498	SO:0001583	missense	7385			J04973	CCDS10601.1	16p12	2011-07-04			ENSG00000140740	ENSG00000140740	1.10.2.2	"Mitochondrial respiratory chain complex / Complex III"	12586	protein-coding gene	gene with protein product		191329				8288258, 2547763	Standard	NM_003366		Approved	QCR2, UQCR2	uc002djx.3	P22695	OTTHUMG00000131585	ENST00000268379.4:c.251G>A	16.37:g.21968871G>A	ENSP00000268379:p.Arg84His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KSN4|Q9BQ05	Missense_Mutation	SNP	ENST00000268379.4	37	CCDS10601.1	.	.	.	.	.	.	.	.	.	.	G	18.48	3.633627	0.67015	0.0	1.16E-4	ENSG00000140740	ENST00000268379	T	0.17691	2.26	5.19	5.19	0.71726	Peptidase M16, core (1);Metalloenzyme, LuxS/M16 peptidase-like, metal-binding (1);Peptidase M16, N-terminal (1);	0.000000	0.85682	D	0.000000	T	0.41926	0.1180	M	0.73217	2.22	0.80722	D	1	D	0.76494	0.999	D	0.66979	0.948	T	0.31447	-0.9943	10	0.87932	D	0	-9.502	17.6661	0.88203	0.0:0.0:1.0:0.0	.	84	P22695	QCR2_HUMAN	H	84	ENSP00000268379:R84H	ENSP00000268379:R84H	R	+	2	0	UQCRC2	21876372	1.000000	0.71417	1.000000	0.80357	0.626000	0.37791	9.322000	0.96357	2.569000	0.86673	0.655000	0.94253	CGT		0.388	UQCRC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254466.1	NM_003366		A	21968871	G	A	21968871	3	1	664	1	0	0	0	0	1	0	0	0	17032	1145	40	1	261	1	UQCRC2	16	21968871	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	234571	21968871	68385882	794	42104										
ERN2	5347	mdanderson.org	37	chr16	23702743	23702743	+	IGR	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttctccagccagtcactgaCgtcctggggcccagagagct	11	15	2	2	rs144279415	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:23702743C>T	ENST00000300093.4	+	0	2227				ERN2_ENST00000457008.2_Missense_Mutation_p.V742I|ERN2_ENST00000256797.4_Missense_Mutation_p.V842I	NM_005030.3	NP_005021.2	P53350	PLK1_HUMAN	polo-like kinase 1						activation of mitotic anaphase-promoting complex activity (GO:0007092)|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|cell proliferation (GO:0008283)|centrosome organization (GO:0051297)|cytokinesis (GO:0000910)|establishment of protein localization (GO:0045184)|G2 DNA damage checkpoint (GO:0031572)|G2/M transition of mitotic cell cycle (GO:0000086)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|microtubule bundle formation (GO:0001578)|mitotic cell cycle (GO:0000278)|mitotic cytokinesis (GO:0000281)|mitotic nuclear division (GO:0007067)|mitotic nuclear envelope disassembly (GO:0007077)|mitotic sister chromatid segregation (GO:0000070)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045736)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|peptidyl-serine phosphorylation (GO:0018105)|polar body extrusion after meiotic divisions (GO:0040038)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of proteolysis (GO:0045862)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|positive regulation of ubiquitin-protein transferase activity (GO:0051443)|protein destabilization (GO:0031648)|protein localization to chromatin (GO:0071168)|protein phosphorylation (GO:0006468)|protein ubiquitination (GO:0016567)|regulation of cell cycle (GO:0051726)|regulation of mitotic cell cycle (GO:0007346)|regulation of mitotic metaphase/anaphase transition (GO:0030071)|regulation of protein binding (GO:0043393)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|response to antibiotic (GO:0046677)	centrosome (GO:0005813)|condensed nuclear chromosome outer kinetochore (GO:0000942)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinetochore (GO:0000776)|microtubule cytoskeleton (GO:0015630)|midbody (GO:0030496)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle (GO:0005819)|spindle midzone (GO:0051233)|spindle pole (GO:0000922)	anaphase-promoting complex binding (GO:0010997)|ATP binding (GO:0005524)|kinase activity (GO:0016301)|microtubule binding (GO:0008017)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(10)|lung(7)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	23				GBM - Glioblastoma multiforme(48;0.0156)		CAGTCACTGACGTCCTGGGGC	0.622													C|||	2	0.000399361	0.0015	0.0	5008	,	,		17344	0.0		0.0	False		,,,				2504	0.0				Colon(12;240 564 27038 33155)											0								C	ILE/VAL	2,4392	4.2+/-10.8	0,2,2195	19	21	20		2524	4.7	0.9	16	dbSNP_134	20	0,8600		0,0,4300	yes	missense	ERN2	NM_033266.3	29	0,2,6495	TT,TC,CC		0.0,0.0455,0.0154	probably-damaging	842/975	23702743	2,12992	2197	4300	6497	SO:0001628	intergenic_variant	10595				CCDS10616.1	16p	2013-01-17	2010-06-24	2004-01-28	ENSG00000166851	ENSG00000166851			9077	protein-coding gene	gene with protein product		602098	"polo-like kinase (Drosophila)"	PLK		8127874	Standard	NM_005030		Approved		uc002dlz.1	P53350	OTTHUMG00000096984		16.37:g.23702743C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q15153|Q99746	Missense_Mutation	SNP	ENST00000300093.4	37	CCDS10616.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	C	18.31	3.595516	0.66219	4.55E-4	0.0	ENSG00000134398	ENST00000256797;ENST00000457008	T;T	0.35973	1.28;1.28	5.68	4.73	0.59995	.	0.000000	0.85682	D	0.000000	T	0.62282	0.2415	M	0.85373	2.75	0.58432	D	0.999997	B;D	0.89917	0.161;1.0	B;D	0.77557	0.018;0.99	T	0.67189	-0.5733	10	0.54805	T	0.06	.	12.4641	0.55749	0.0:0.9188:0.0:0.0812	.	742;794	E7ETG2;A5YM65	.;.	I	842;742	ENSP00000256797:V842I;ENSP00000413812:V742I	ENSP00000256797:V842I	V	-	1	0	ERN2	23610244	1.000000	0.71417	0.888000	0.34837	0.437000	0.31866	4.598000	0.61069	1.410000	0.46936	0.563000	0.77884	GTC		0.622	PLK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214057.2	NM_005030		T	23702743	C	T	23702743	1	4	664	0	1	0	0	0	0	0	0	0	5240	536	19	1		1	ERN2	16	23702743	IGR	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1733872	23702743	66652010	795	42105										
CHP2	63928	broad.mit.edu	37	chr16	23767738	23767738	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agctctatgacctggatcgcGatgggaagatctccaggcat	12	10	2	2	rs79455352	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:23767738G>A	ENST00000300113.2	+	5	805	c.382G>A	c.(382-384)Gat>Aat	p.D128N		NM_022097.2	NP_071380.1	O43745	CHP2_HUMAN	calcineurin-like EF-hand protein 2	128	EF-hand 3. {ECO:0000255|PROSITE- ProRule:PRU00448}.				cellular response to calcium ion (GO:0071277)|positive regulation of calcineurin-NFAT signaling cascade (GO:0070886)|positive regulation of cell proliferation (GO:0008284)|positive regulation of phosphatase activity (GO:0010922)|positive regulation of protein import into nucleus (GO:0042307)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)	p.D128Y(1)		central_nervous_system(1)|large_intestine(2)|lung(3)|prostate(2)|stomach(1)	9				GBM - Glioblastoma multiforme(48;0.0144)		CCTGGATCGCGATGGGAAGAT	0.537																																																1	Substitution - Missense(1)	stomach(1)											86	69	75					16																	23767738		2197	4300	6497	SO:0001583	missense	63928				CCDS10617.1	16p12.2	2013-01-11	2013-01-11		ENSG00000166869	ENSG00000166869		"EF-hand domain containing"	24927	protein-coding gene	gene with protein product						12226101	Standard	NM_022097		Approved		uc002dmb.1	O43745	OTTHUMG00000131611	ENST00000300113.2:c.382G>A	16.37:g.23767738G>A	ENSP00000300113:p.Asp128Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2I8	Missense_Mutation	SNP	ENST00000300113.2	37	CCDS10617.1	.	.	.	.	.	.	.	.	.	.	G	16.76	3.211780	0.58452	.	.	ENSG00000166869	ENST00000300113	T	0.79352	-1.26	3.82	3.82	0.43975	EF-hand-like domain (1);	0.000000	0.85682	D	0.000000	T	0.68293	0.2985	N	0.21324	0.655	0.58432	D	0.999999	D	0.58268	0.982	P	0.46237	0.508	T	0.69529	-0.5121	10	0.36615	T	0.2	-17.3968	14.0131	0.64509	0.0:0.0:1.0:0.0	.	128	O43745	CHP2_HUMAN	N	128	ENSP00000300113:D128N	ENSP00000300113:D128N	D	+	1	0	AC130454.2	23675239	1.000000	0.71417	0.942000	0.38095	0.291000	0.27294	8.034000	0.88864	2.414000	0.81942	0.591000	0.81541	GAT		0.537	CHP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254498.1	NM_022097		A	23767738	G	A	23767738	3	1	664	1	0	0	0	0	1	0	0	0	3369	1058	37	1	400	1	CHP2	16	23767738	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	64995	23767738	66587015	796	42106										
PRKCB	5579	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	23999859	23999859	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtggtgcacaagcggtgccAtgaatttgtcacattctcct	10	10	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:23999859A>G	ENST00000321728.7	+	3	411	c.236A>G	c.(235-237)cAt>cGt	p.H79R	PRKCB_ENST00000303531.7_Missense_Mutation_p.H79R	NM_212535.2	NP_997700.1	P05771	KPCB_HUMAN	protein kinase C, beta	79					apoptotic process (GO:0006915)|B cell activation (GO:0042113)|B cell receptor signaling pathway (GO:0050853)|blood coagulation (GO:0007596)|calcium ion transport (GO:0006816)|cellular calcium ion homeostasis (GO:0006874)|cellular response to carbohydrate stimulus (GO:0071322)|histone H3-T6 phosphorylation (GO:0035408)|intracellular signal transduction (GO:0035556)|lipoprotein transport (GO:0042953)|negative regulation of glucose transport (GO:0010829)|negative regulation of insulin receptor signaling pathway (GO:0046627)|platelet activation (GO:0030168)|positive regulation of angiogenesis (GO:0045766)|positive regulation of B cell receptor signaling pathway (GO:0050861)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030949)|protein phosphorylation (GO:0006468)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	androgen receptor binding (GO:0050681)|ATP binding (GO:0005524)|calcium channel regulator activity (GO:0005246)|chromatin binding (GO:0003682)|histone binding (GO:0042393)|histone kinase activity (H3-T6 specific) (GO:0035403)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|protein kinase C activity (GO:0004697)|protein kinase C binding (GO:0005080)|protein serine/threonine kinase activity (GO:0004674)|zinc ion binding (GO:0008270)			central_nervous_system(3)|large_intestine(1)|lung(2)|ovary(3)	9					Tamoxifen(DB00675)|Vitamin E(DB00163)	AAGCGGTGCCATGAATTTGTC	0.517																																																0													147	130	135					16																	23999859		2197	4300	6497	SO:0001583	missense	5579			M13975	CCDS10618.1, CCDS10619.1	16p12	2009-07-10	2008-08-18	2008-08-18	ENSG00000166501	ENSG00000166501	2.7.11.1		9395	protein-coding gene	gene with protein product		176970	"protein kinase C, beta 1"	PRKCB2, PKCB, PRKCB1		3658678	Standard	NM_002738		Approved		uc002dme.3	P05771	OTTHUMG00000131615	ENST00000321728.7:c.236A>G	16.37:g.23999859A>G	ENSP00000318315:p.His79Arg	Somatic		WXS	Illumina HiSeq	Phase_I	C5IFJ8|D3DWF5|O43744|P05127|Q15138|Q93060|Q9UE49|Q9UE50|Q9UEH8|Q9UJ30|Q9UJ33	Missense_Mutation	SNP	ENST00000321728.7	37	CCDS10618.1	.	.	.	.	.	.	.	.	.	.	A	24.4	4.522160	0.85600	.	.	ENSG00000166501	ENST00000321728;ENST00000303531	D;D	0.93366	-3.21;-3.21	5.58	5.58	0.84498	Protein kinase C-like, phorbol ester/diacylglycerol binding (4);	0.000000	0.85682	D	0.000000	D	0.96153	0.8746	M	0.75615	2.305	0.80722	D	1	D;D	0.71674	0.995;0.998	D;D	0.79784	0.98;0.993	D	0.96355	0.9261	10	0.62326	D	0.03	.	13.6966	0.62582	1.0:0.0:0.0:0.0	.	79;79	P05771-2;P05771	.;KPCB_HUMAN	R	79	ENSP00000318315:H79R;ENSP00000305355:H79R	ENSP00000305355:H79R	H	+	2	0	PRKCB	23907360	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.493000	0.90474	2.122000	0.65172	0.459000	0.35465	CAT		0.517	PRKCB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254504.2	NM_212535		G	23999859	A	G	23999859	3	3	664	1	0	0	0	0	1	0	0	0	12518	217	8	3	246	3	PRKCB	16	23999859	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	232121	23999859	66354894	797	42107										
SULT1A2	6799	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr16	28603675	28603675	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttcttcttcatctccttgaaCgacgtgtgctcaaccatgag	7	12	5	2	rs141569114	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:28603675C>T	ENST00000395630.1	-	7	1034	c.684G>A	c.(682-684)tcG>tcA	p.S228S	SULT1A2_ENST00000335715.4_Silent_p.S228S|SULT1A2_ENST00000533150.1_Silent_p.S195S	NM_177528.2	NP_803564	P50226	ST1A2_HUMAN	sulfotransferase family, cytosolic, 1A, phenol-preferring, member 2	228					3'-phosphoadenosine 5'-phosphosulfate metabolic process (GO:0050427)|amine biosynthetic process (GO:0009309)|catecholamine metabolic process (GO:0006584)|phenol-containing compound metabolic process (GO:0018958)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|sulfation (GO:0051923)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)	aryl sulfotransferase activity (GO:0004062)|flavonol 3-sulfotransferase activity (GO:0047894)|sulfotransferase activity (GO:0008146)			NS(2)|breast(1)|endometrium(2)|kidney(3)|large_intestine(1)|lung(3)|skin(2)	14						TCTCCTTGAACGACGTGTGCT	0.552													.|||	3	0.000599042	0.0015	0.0	5008	,	,		19209	0.0		0.0	False		,,,				2504	0.001															0								C	,	1,4393	2.1+/-5.4	0,1,2196	215	187	197		684,684	-10	0.1	16	dbSNP_134	197	0,8600		0,0,4300	no	coding-synonymous,coding-synonymous	SULT1A2	NM_001054.3,NM_177528.2	,	0,1,6496	TT,TC,CC		0.0,0.0228,0.0077	,	228/296,228/296	28603675	1,12993	2197	4300	6497	SO:0001819	synonymous_variant	6799			U34804	CCDS10636.1	16p12.1	2008-02-05			ENSG00000197165	ENSG00000197165	2.8.2.1	"Sulfotransferases, cytosolic"	11454	protein-coding gene	gene with protein product		601292		STP2		8661000, 8912648	Standard	NM_001054		Approved	HAST4	uc002dqh.2	P50226	OTTHUMG00000048082	ENST00000395630.1:c.684G>A	16.37:g.28603675C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A9QY25|P78393|Q14CJ7	Silent	SNP	ENST00000395630.1	37	CCDS10636.1																																																																																				0.552	SULT1A2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109415.2	NM_001054		T	28603675	C	T	28603675	2	4	664	1	0	0	0	0	0	0	0	1	15385	523	19	1		1	SULT1A2	16	28603675	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4603816	28603675	61751078	798	42108										
ASPHD1	253982	broad.mit.edu	37	chr16	29917204	29917204	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggccctcgactttgtcttcGccccagacccttgaaggaag	10	14	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:29917204G>A	ENST00000308748.5	+	3	1411	c.1159G>A	c.(1159-1161)Gcc>Acc	p.A387T	ASPHD1_ENST00000483405.1_Missense_Mutation_p.A106T	NM_181718.3	NP_859069.2	Q5U4P2	ASPH1_HUMAN	aspartate beta-hydroxylase domain containing 1	387					peptidyl-amino acid modification (GO:0018193)	integral component of membrane (GO:0016021)	dioxygenase activity (GO:0051213)			endometrium(4)|large_intestine(2)|lung(1)|prostate(1)	8						CTTTGTCTTCGCCCCAGACCC	0.632																																																0													49	42	45					16																	29917204		2197	4300	6497	SO:0001583	missense	253982			AF070642	CCDS10660.1	16p11.2	2008-02-05			ENSG00000174939	ENSG00000174939			27380	protein-coding gene	gene with protein product							Standard	NM_181718		Approved		uc002dut.3	Q5U4P2	OTTHUMG00000132121	ENST00000308748.5:c.1159G>A	16.37:g.29917204G>A	ENSP00000311447:p.Ala387Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVE3|B7ZLZ3|Q8IW63|Q8N316|Q96H00	Missense_Mutation	SNP	ENST00000308748.5	37	CCDS10660.1	.	.	.	.	.	.	.	.	.	.	G	17.65	3.441667	0.63067	.	.	ENSG00000174939	ENST00000414952;ENST00000308748	T;T	0.47177	0.85;0.85	5.76	3.81	0.43845	.	0.245036	0.35291	N	0.003313	T	0.24812	0.0602	N	0.05351	-0.065	0.80722	D	1	P	0.36587	0.559	B	0.29524	0.103	T	0.09335	-1.0679	10	0.52906	T	0.07	-4.2254	11.6302	0.51168	0.1466:0.0:0.8534:0.0	.	387	Q5U4P2	ASPH1_HUMAN	T	387	ENSP00000388036:A387T;ENSP00000311447:A387T	ENSP00000311447:A387T	A	+	1	0	ASPHD1	29824705	1.000000	0.71417	1.000000	0.80357	0.900000	0.52787	3.176000	0.50863	0.794000	0.33899	-0.140000	0.14226	GCC		0.632	ASPHD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000255163.2	NM_181718		A	29917204	G	A	29917204	3	1	664	1	0	0	0	0	1	0	0	0	1054	1087	38	1	1169	1	ASPHD1	16	29917204	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1313529	29917204	60437549	799	42109										
TBX6	6911	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	30097724	30097724	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagccgagtagggggctgagCgcccggagtctggagcctcc	17	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:30097724C>T	ENST00000395224.2	-	9	1192	c.1133G>A	c.(1132-1134)cGc>cAc	p.R378H	TBX6_ENST00000279386.2_Missense_Mutation_p.R378H	NM_004608.3	NP_004599.2	O95947	TBX6_HUMAN	T-box 6	378					anatomical structure morphogenesis (GO:0009653)|cell fate specification (GO:0001708)|mesoderm development (GO:0007498)|mesoderm formation (GO:0001707)|negative regulation of neuron maturation (GO:0014043)|negative regulation of neuron projection development (GO:0010977)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|signal transduction involved in regulation of gene expression (GO:0023019)|somite rostral/caudal axis specification (GO:0032525)	nucleus (GO:0005634)	DNA binding (GO:0003677)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)|pancreas(1)	9						GGGGGCTGAGCGCCCGGAGTC	0.697																																																0													6	8	8					16																	30097724		2104	4124	6228	SO:0001583	missense	6911			AJ007989	CCDS10670.1	16p11.2	2008-02-05			ENSG00000149922	ENSG00000149922		"T-boxes"	11605	protein-coding gene	gene with protein product		602427				9888994, 9933572	Standard	NM_004608		Approved		uc010veh.2	O95947	OTTHUMG00000132115	ENST00000395224.2:c.1133G>A	16.37:g.30097724C>T	ENSP00000378650:p.Arg378His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TAS4|Q9HA44	Missense_Mutation	SNP	ENST00000395224.2	37	CCDS10670.1	.	.	.	.	.	.	.	.	.	.	C	9.618	1.133005	0.21041	.	.	ENSG00000149922	ENST00000395224;ENST00000279386	D;D	0.87256	-2.23;-2.23	5.25	2.23	0.28157	.	1.998930	0.02243	N	0.065938	T	0.78966	0.4367	N	0.19112	0.55	0.27721	N	0.945124	B	0.06786	0.001	B	0.04013	0.001	T	0.63825	-0.6549	10	0.46703	T	0.11	.	4.3271	0.11045	0.1582:0.5904:0.0:0.2514	.	378	O95947	TBX6_HUMAN	H	378	ENSP00000378650:R378H;ENSP00000279386:R378H	ENSP00000279386:R378H	R	-	2	0	TBX6	30005225	0.898000	0.30612	0.980000	0.43619	0.289000	0.27227	0.761000	0.26489	0.231000	0.21079	-0.300000	0.09419	CGC		0.697	TBX6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255157.2	NM_004608, NM_080758		T	30097724	C	T	30097724	3	4	664	1	0	0	0	0	1	0	0	0	15674	768	27	1	181	1	TBX6	16	30097724	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	180520	30097724	60257029	800	42110										
SRCAP	10847	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr16	30748499	30748499	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggactggtggaggcacccacCggcgcagtaaaaaggccaaa	14	11	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:30748499C>T	ENST00000262518.4	+	34	7523	c.7138C>T	c.(7138-7140)Cgg>Tgg	p.R2380W	SRCAP_ENST00000344771.4_Missense_Mutation_p.R2222W|SRCAP_ENST00000395059.2_Missense_Mutation_p.R2318W	NM_006662.2	NP_006653.2	Q6ZRS2	SRCAP_HUMAN	Snf2-related CREBBP activator protein	2380					histone acetylation (GO:0016573)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|protein complex (GO:0043234)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|histone acetyltransferase activity (GO:0004402)|transcription coactivator activity (GO:0003713)	p.R2380W(1)		NS(1)|breast(3)|cervix(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(22)|liver(3)|lung(62)|ovary(6)|pancreas(1)|prostate(4)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(5)	136			Colorectal(24;0.198)			AGGCACCCACCGGCGCAGTAA	0.652																																																1	Substitution - Missense(1)	large_intestine(1)											39	43	42					16																	30748499		2197	4300	6497	SO:0001583	missense	10847			AB002307	CCDS10689.2	16p11.2	2009-08-06			ENSG00000080603	ENSG00000080603			16974	protein-coding gene	gene with protein product	"Swi2/Snf2-related ATPase homolog (S. cerevisiae)", "domino homolog 1 (Drosophila)"	611421				10347196, 9205841	Standard	NM_006662		Approved	KIAA0309, EAF1, SWR1, DOMO1	uc002dze.1	Q6ZRS2	OTTHUMG00000132393	ENST00000262518.4:c.7138C>T	16.37:g.30748499C>T	ENSP00000262518:p.Arg2380Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B0JZA6|O15026|Q7Z744|Q9Y5L9	Missense_Mutation	SNP	ENST00000262518.4	37	CCDS10689.2	.	.	.	.	.	.	.	.	.	.	C	14.98	2.697016	0.48202	.	.	ENSG00000080603	ENST00000262518;ENST00000395059;ENST00000344771	D;D;D	0.93366	-3.13;-3.19;-3.21	4.8	4.8	0.61643	.	0.000000	0.42682	D	0.000670	D	0.92450	0.7603	N	0.08118	0	0.33581	D	0.599891	D;D	0.89917	1.0;1.0	D;D	0.79108	0.992;0.981	D	0.95121	0.8246	10	0.72032	D	0.01	-1.144	16.865	0.86027	0.0:1.0:0.0:0.0	.	2318;2380	Q6ZRS2-2;Q6ZRS2	.;SRCAP_HUMAN	W	2380;2318;2222	ENSP00000262518:R2380W;ENSP00000378499:R2318W;ENSP00000343042:R2222W	ENSP00000262518:R2380W	R	+	1	2	SRCAP	30656000	1.000000	0.71417	1.000000	0.80357	0.962000	0.63368	2.762000	0.47597	2.513000	0.84729	0.558000	0.71614	CGG		0.652	SRCAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255523.1	NM_006662		T	30748499	C	T	30748499	3	4	664	1	0	0	0	0	1	0	0	0	15147	643	23	1	7264	1	SRCAP	16	30748499	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	650775	30748499	59606254	801	42111										
RNF40	9810	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr16	30777565	30777565	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agctggagaaactgcaggccGaacttcagggggctgtgcgg	17	9	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:30777565G>A	ENST00000324685.6	+	9	1510	c.1075G>A	c.(1075-1077)Gaa>Aaa	p.E359K	RNF40_ENST00000402121.3_Intron|RNF40_ENST00000357890.5_Intron|RNF40_ENST00000563683.1_Intron	NM_001207033.1|NM_014771.3	NP_001193962.1|NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40, E3 ubiquitin protein ligase	359					histone H2B ubiquitination (GO:0033523)|histone monoubiquitination (GO:0010390)|ubiquitin-dependent protein catabolic process (GO:0006511)	HULC complex (GO:0033503)|membrane (GO:0016020)|neuron projection (GO:0043005)|nucleus (GO:0005634)|ubiquitin ligase complex (GO:0000151)	ligase activity (GO:0016874)|protein homodimerization activity (GO:0042803)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			central_nervous_system(2)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(6)|lung(10)|prostate(2)	30			Colorectal(24;0.198)			ACTGCAGGCCGAACTTCAGGG	0.587																																																0													72	81	78					16																	30777565		2197	4300	6497	SO:0001583	missense	9810			AB014561	CCDS10691.1, CCDS55994.1	16p11.2-p11.1	2012-02-23	2012-02-23		ENSG00000103549	ENSG00000103549		"RING-type (C3HC4) zinc fingers"	16867	protein-coding gene	gene with protein product	"BRE1 E3 ubiquitin ligase homolog B (S. cerevisiae)"	607700	"ring finger protein 40"			9734811, 10944455, 12121982	Standard	NM_014771		Approved	KIAA0661, RBP95, BRE1B, STARING	uc002dzq.3	O75150	OTTHUMG00000132394	ENST00000324685.6:c.1075G>A	16.37:g.30777565G>A	ENSP00000325677:p.Glu359Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6AHZ6|Q6N005|Q7L3T6|Q8N615|Q96T18|Q9BSV9|Q9HC82	Missense_Mutation	SNP	ENST00000324685.6	37	CCDS10691.1	.	.	.	.	.	.	.	.	.	.	G	27.1	4.798379	0.90538	.	.	ENSG00000103549	ENST00000324685;ENST00000452273	T	0.27720	1.65	5.8	5.8	0.92144	.	0.000000	0.85682	D	0.000000	T	0.42854	0.1221	L	0.47716	1.5	0.80722	D	1	D;D	0.76494	0.995;0.999	P;P	0.58520	0.738;0.84	T	0.06716	-1.0811	10	0.09843	T	0.71	-4.4002	18.8306	0.92137	0.0:0.0:1.0:0.0	.	359;359	A8K6K1;O75150	.;BRE1B_HUMAN	K	359;208	ENSP00000325677:E359K	ENSP00000325677:E359K	E	+	1	0	RNF40	30685066	1.000000	0.71417	0.921000	0.36526	0.956000	0.61745	8.988000	0.93501	2.747000	0.94245	0.462000	0.41574	GAA		0.587	RNF40-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255524.2	NM_014771		A	30777565	G	A	30777565	3	1	664	1	0	0	0	0	1	0	0	0	13506	1059	37	1	1105	1	RNF40	16	30777565	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	29066	30777565	59577188	802	42112										
ZNF646	9726	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	31090347	31090347	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggctacaggcttcaccggcGccaggcccacagctcctctg	11	17	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:31090347G>A	ENST00000394979.2	+	1	3125	c.2702G>A	c.(2701-2703)cGc>cAc	p.R901H	ZNF646_ENST00000300850.5_Missense_Mutation_p.R901H			O15015	ZN646_HUMAN	zinc finger protein 646	901					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(4)|cervix(2)|endometrium(8)|kidney(4)|large_intestine(1)|lung(21)|ovary(1)|prostate(4)|skin(3)	49						CTTCACCGGCGCCAGGCCCAC	0.652																																																0													25	28	27					16																	31090347		2197	4299	6496	SO:0001583	missense	9726			AB002294	CCDS10702.1	16p11.2	2013-01-08			ENSG00000167395	ENSG00000167395		"Zinc fingers, C2H2-type"	29004	protein-coding gene	gene with protein product							Standard	NM_014699		Approved	KIAA0296	uc002eap.3	O15015	OTTHUMG00000047355	ENST00000394979.2:c.2702G>A	16.37:g.31090347G>A	ENSP00000378429:p.Arg901His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVD8	Missense_Mutation	SNP	ENST00000394979.2	37		.	.	.	.	.	.	.	.	.	.	G	18.78	3.696206	0.68386	.	.	ENSG00000167395	ENST00000300850;ENST00000394979	T;T	0.33865	1.39;1.39	5.25	4.28	0.50868	.	.	.	.	.	T	0.24890	0.0604	L	0.29908	0.895	0.38415	D	0.946034	B	0.24651	0.108	B	0.18871	0.023	T	0.11084	-1.0602	9	0.59425	D	0.04	-13.1981	7.6144	0.28150	0.2539:0.0:0.7461:0.0	.	901	O15015-2	.	H	901	ENSP00000300850:R901H;ENSP00000378429:R901H	ENSP00000300850:R901H	R	+	2	0	ZNF646	30997848	0.018000	0.18449	1.000000	0.80357	0.978000	0.69477	0.214000	0.17541	1.188000	0.43014	0.563000	0.77884	CGC		0.652	ZNF646-003	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000108510.2	NM_014699		A	31090347	G	A	31090347	3	1	664	1	0	0	0	0	1	0	0	0	18074	1087	38	1	2704	1	ZNF646	16	31090347	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	312782	31090347	59264406	803	42113										
ZNF423	23090	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr16	49671194	49671194	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccattggagatggagttggcGcttgctgagagccgctgccg	16	10	0	2	rs151294188	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:49671194G>A	ENST00000561648.1	-	4	1922	c.1869C>T	c.(1867-1869)agC>agT	p.S623S	ZNF423_ENST00000562871.1_Silent_p.S563S|ZNF423_ENST00000535559.1_Silent_p.S506S|ZNF423_ENST00000262383.2_Silent_p.S623S|ZNF423_ENST00000562520.1_Silent_p.S563S|ZNF423_ENST00000563137.2_Silent_p.S563S|ZNF423_ENST00000567169.1_Silent_p.S506S	NM_001271620.1	NP_001258549.1	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	623					cell differentiation (GO:0030154)|negative regulation of transcription, DNA-templated (GO:0045892)|nervous system development (GO:0007399)|Notch signaling pathway (GO:0007219)|positive regulation of BMP signaling pathway (GO:0030513)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(8)|kidney(6)|large_intestine(16)|lung(47)|ovary(1)|pancreas(2)|prostate(4)|skin(1)|urinary_tract(2)	89		all_cancers(37;0.0155)				TGGAGTTGGCGCTTGCTGAGA	0.577																																																0								G		1,4395	2.1+/-5.4	0,1,2197	81	72	75		1869	-8.6	0	16	dbSNP_134	75	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	ZNF423	NM_015069.2		0,2,6496	AA,AG,GG		0.0116,0.0227,0.0154		623/1285	49671194	2,12994	2198	4300	6498	SO:0001819	synonymous_variant	23090			AB018303	CCDS32445.1, CCDS61930.1	16q12	2014-01-28				ENSG00000102935		"Zinc fingers, C2H2-type"	16762	protein-coding gene	gene with protein product	"OLF-1/EBF associated zinc finger gene", " Smad- and Olf-interacting zinc finger protein", "early B-cell factor associated zinc finger protein"	604557				9872452, 10660046	Standard	NM_001271620		Approved	KIAA0760, OAZ, Roaz, Ebfaz, Zfp104, NPHP14, JBTS19	uc031qwd.1	Q2M1K9		ENST00000561648.1:c.1869C>T	16.37:g.49671194G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O94860|Q76N04|Q9NZ13	Silent	SNP	ENST00000561648.1	37	CCDS32445.1																																																																																				0.577	ZNF423-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000423258.1	NM_015069		A	49671194	G	A	49671194	2	1	664	1	0	0	0	0	0	0	0	1	17910	1078	38	1		1	ZNF423	16	49671194	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	18580847	49671194	40683559	804	42114										
SALL1	6299	broad.mit.edu	37	chr16	51173805	51173805	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgctgcaggaccacagcgttCgtgaacttcttctggcagat	11	11	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:51173805C>T	ENST00000251020.4	-	2	2361	c.2328G>A	c.(2326-2328)acG>acA	p.T776T	SALL1_ENST00000541611.1_Intron|SALL1_ENST00000566102.1_Intron|SALL1_ENST00000440970.1_Silent_p.T679T	NM_002968.2	NP_002959.2	Q9NSC2	SALL1_HUMAN	spalt-like transcription factor 1	776					adrenal gland development (GO:0030325)|branching involved in ureteric bud morphogenesis (GO:0001658)|embryonic digestive tract development (GO:0048566)|embryonic digit morphogenesis (GO:0042733)|forelimb morphogenesis (GO:0035136)|gonad development (GO:0008406)|heart development (GO:0007507)|hindlimb morphogenesis (GO:0035137)|histone deacetylation (GO:0016575)|inductive cell-cell signaling (GO:0031129)|kidney development (GO:0001822)|kidney epithelium development (GO:0072073)|limb development (GO:0060173)|mesenchymal to epithelial transition involved in metanephros morphogenesis (GO:0003337)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neural tube closure (GO:0001843)|olfactory bulb interneuron differentiation (GO:0021889)|olfactory bulb mitral cell layer development (GO:0061034)|olfactory nerve development (GO:0021553)|outer ear morphogenesis (GO:0042473)|pituitary gland development (GO:0021983)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of Wnt signaling pathway (GO:0030177)|regulation of neural precursor cell proliferation (GO:2000177)|transcription, DNA-templated (GO:0006351)|ureteric bud development (GO:0001657)|ureteric bud invasion (GO:0072092)|ventricular septum development (GO:0003281)	chromocenter (GO:0010369)|cytoplasm (GO:0005737)|heterochromatin (GO:0000792)|nucleus (GO:0005634)|NuRD complex (GO:0016581)	beta-catenin binding (GO:0008013)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.T776T(1)		NS(4)|breast(2)|central_nervous_system(2)|endometrium(3)|kidney(5)|large_intestine(25)|lung(61)|ovary(3)|prostate(6)|skin(12)|upper_aerodigestive_tract(3)	126		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			CCACAGCGTTCGTGAACTTCT	0.557																																					GBM(103;1352 1446 1855 4775 8890)											1	Substitution - coding silent(1)	large_intestine(1)											90	93	92					16																	51173805		2198	4300	6498	SO:0001819	synonymous_variant	6299			X98833	CCDS10747.1, CCDS45483.1	16q12.1	2014-09-17	2013-10-17		ENSG00000103449	ENSG00000103449		"Zinc fingers, C2H2-type"	10524	protein-coding gene	gene with protein product		602218	"sal (Drosophila)-like 1", "sal-like 1 (Drosophila)"	TBS		9425907	Standard	NM_002968		Approved	Hsal1, ZNF794	uc021tie.1	Q9NSC2	OTTHUMG00000133176	ENST00000251020.4:c.2328G>A	16.37:g.51173805C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q99881|Q9NSC3|Q9P1R0	Silent	SNP	ENST00000251020.4	37	CCDS10747.1																																																																																				0.557	SALL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256883.2	NM_002968		T	51173805	C	T	51173805	2	4	664	1	0	0	0	0	0	0	0	1	13823	871	31	1		1	SALL1	16	51173805	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1502611	51173805	39180948	805	42115										
IRX6	79190	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr16	55360358	55360358	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctctctgctgcgcaccctaCgatagtcgactgctgggcag	12	14	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:55360358C>T	ENST00000290552.7	+	2	1488	c.156C>T	c.(154-156)taC>taT	p.Y52Y	IRX6_ENST00000558315.1_3'UTR|RP11-26L20.3_ENST00000558730.2_RNA	NM_024335.2	NP_077311.2	P78412	IRX6_HUMAN	iroquois homeobox 6	52					regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)			breast(2)|central_nervous_system(5)|endometrium(3)|kidney(2)|large_intestine(6)|liver(2)|lung(10)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	33						GCGCACCCTACGATAGTCGAC	0.652																																																0													36	33	34					16																	55360358		2198	4300	6498	SO:0001819	synonymous_variant	79190			AF319966	CCDS32449.1	16q12.2	2011-06-20	2007-07-13	2003-01-10		ENSG00000159387		"Homeoboxes / TALE class"	14675	protein-coding gene	gene with protein product		606196	"iroquois homeobox protein 7", "iroquois homeobox protein 6"	IRX7			Standard	NM_024335		Approved	IRX-3	uc002ehy.3	P78412		ENST00000290552.7:c.156C>T	16.37:g.55360358C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RN06|Q7Z2K0	Silent	SNP	ENST00000290552.7	37	CCDS32449.1																																																																																				0.652	IRX6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000417445.4	NM_024335		T	55360358	C	T	55360358	2	4	664	1	0	0	0	0	0	0	0	1	7855	547	19	1		1	IRX6	16	55360358	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4186553	55360358	34994395	806	42116										
SLC6A2	6530	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr16	55690630	55690630	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttctggcgcggatgaacccGcaggtgcagcccgagaacaa	13	13	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:55690630G>A	ENST00000379906.2	+	1	279	c.24G>A	c.(22-24)ccG>ccA	p.P8P	SLC6A2_ENST00000414754.3_Silent_p.P8P|SLC6A2_ENST00000566163.1_Silent_p.P8P|SLC6A2_ENST00000219833.8_Silent_p.P8P|SLC6A2_ENST00000561820.1_Silent_p.P8P|SLC6A2_ENST00000568943.1_Silent_p.P8P	NM_001043.3	NP_001034.1	P23975	SC6A2_HUMAN	solute carrier family 6 (neurotransmitter transporter), member 2	8					monoamine transport (GO:0015844)|norepinephrine transport (GO:0015874)|response to drug (GO:0042493)|response to pain (GO:0048265)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|transport (GO:0006810)	cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|membrane raft (GO:0045121)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)	monoamine transmembrane transporter activity (GO:0008504)|norepinephrine:sodium symporter activity (GO:0005334)			breast(1)|endometrium(3)|kidney(1)|large_intestine(8)|lung(20)|ovary(3)|pancreas(2)|prostate(2)|upper_aerodigestive_tract(1)	41				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amitriptyline(DB00321)|Amoxapine(DB00543)|Amphetamine(DB00182)|Atomoxetine(DB00289)|Bupropion(DB01156)|Chlorphenamine(DB01114)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Desvenlafaxine(DB06700)|Dexmethylphenidate(DB06701)|Dextroamphetamine(DB01576)|Dextromethorphan(DB00514)|Diethylpropion(DB00937)|Dopamine(DB00988)|Doxepin(DB01142)|Droxidopa(DB06262)|Duloxetine(DB00476)|Ephedra(DB01363)|Ephedrine(DB01364)|Ergotamine(DB00696)|Escitalopram(DB01175)|Ginkgo biloba(DB01381)|Guanadrel(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Iobenguane(DB06704)|Ketamine(DB01221)|Levomilnacipran(DB08918)|Levonordefrin(DB06707)|Loxapine(DB00408)|Maprotiline(DB00934)|Mazindol(DB00579)|Methamphetamine(DB01577)|Methylphenidate(DB00422)|Mianserin(DB06148)|Milnacipran(DB04896)|Mirtazapine(DB00370)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Orphenadrine(DB01173)|Paroxetine(DB00715)|Pethidine(DB00454)|Phendimetrazine(DB01579)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Pseudoephedrine(DB00852)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tapentadol(DB06204)|Tramadol(DB00193)|Trimipramine(DB00726)|Venlafaxine(DB00285)	GGATGAACCCGCAGGTGCAGC	0.652																																																0													28	32	31					16																	55690630		2196	4295	6491	SO:0001819	synonymous_variant	6530				CCDS10754.1, CCDS54011.1, CCDS58463.1	16q12.2	2013-07-19	2013-07-19		ENSG00000103546	ENSG00000103546		"Solute carriers"	11048	protein-coding gene	gene with protein product	"norepinephrine transporter"	163970	"solute carrier family 6 (neurotransmitter transporter, noradrenalin), member 2"	NET1, NAT1, SLC6A5		2008212	Standard	NM_001043		Approved	NET	uc021tio.1	P23975	OTTHUMG00000133208	ENST00000379906.2:c.24G>A	16.37:g.55690630G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R707|B4DX48|Q96KH8	Silent	SNP	ENST00000379906.2	37	CCDS10754.1																																																																																				0.652	SLC6A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256922.2			A	55690630	G	A	55690630	2	1	664	1	0	0	0	0	0	0	0	1	14696	1074	38	1		1	SLC6A2	16	55690630	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	330272	55690630	34664123	807	42117										
FAM192A	80011	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	57188284	57188284	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgatggtgccttcgctgtctGagctggactcggagtcgctg	15	10	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:57188284G>A	ENST00000309137.8	-	7	941	c.683C>T	c.(682-684)tCa>tTa	p.S228L	FAM192A_ENST00000566077.1_Missense_Mutation_p.S151L|FAM192A_ENST00000567439.1_Missense_Mutation_p.S228L|FAM192A_ENST00000564108.1_Missense_Mutation_p.S228L|FAM192A_ENST00000569266.1_Missense_Mutation_p.S228L|FAM192A_ENST00000389447.5_Missense_Mutation_p.S228L	NM_024946.2	NP_079222.1	Q9GZU8	F192A_HUMAN	family with sequence similarity 192, member A	228						nucleus (GO:0005634)				endometrium(2)|large_intestine(3)|lung(4)|prostate(2)	11						TTCGCTGTCTGAGCTGGACTC	0.597																																																0													58	68	65					16																	57188284		2041	4200	6241	SO:0001583	missense	80011				CCDS42168.1	16q13	2009-08-19	2009-08-19	2009-08-19		ENSG00000172775			29856	protein-coding gene	gene with protein product	"NEFA interacting nuclear protein NIP30"		"chromosome 16 open reading frame 94"	C16orf94		12477932	Standard	NM_024946		Approved	NIP30	uc021tiy.1	Q9GZU8		ENST00000309137.8:c.683C>T	16.37:g.57188284G>A	ENSP00000335808:p.Ser228Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000309137.8	37	CCDS42168.1	.	.	.	.	.	.	.	.	.	.	G	19.20	3.782533	0.70222	.	.	ENSG00000172775	ENST00000309137;ENST00000389447	.	.	.	5.25	5.25	0.73442	.	0.436913	0.24854	N	0.035075	T	0.59797	0.2220	L	0.42245	1.32	0.58432	D	0.999996	B	0.21821	0.061	B	0.24848	0.056	T	0.58736	-0.7584	9	0.72032	D	0.01	-0.3098	19.0487	0.93032	0.0:0.0:1.0:0.0	.	228	Q9GZU8	F192A_HUMAN	L	228	.	ENSP00000335808:S228L	S	-	2	0	FAM192A	55745785	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.800000	0.62524	2.724000	0.93272	0.563000	0.77884	TCA		0.597	FAM192A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000433022.2	NM_024946		A	57188284	G	A	57188284	3	1	664	1	0	0	0	0	1	0	0	0	5527	1294	45	2	85	2	FAM192A	16	57188284	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1497654	57188284	33166469	808	42118										
SLC12A4	6560	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	67980419	67980419	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagcaccacggagttatgccGcatgcctcccaggccacagg	11	16	0	0	rs370220716		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:67980419G>A	ENST00000316341.3	-	18	2499	c.2359C>T	c.(2359-2361)Cgg>Tgg	p.R787W	SLC12A4_ENST00000422611.2_Missense_Mutation_p.R789W|SLC12A4_ENST00000338335.3_Intron|CTC-479C5.17_ENST00000590594.1_lincRNA|SLC12A4_ENST00000541864.2_Missense_Mutation_p.R756W|SLC12A4_ENST00000576616.1_Missense_Mutation_p.R787W|SLC12A4_ENST00000537830.2_Missense_Mutation_p.R781W|SLC12A4_ENST00000572037.1_Missense_Mutation_p.R739W|LCAT_ENST00000264005.5_5'Flank	NM_001145961.1|NM_005072.4	NP_001139433.1|NP_005063.1	Q9UP95	S12A4_HUMAN	solute carrier family 12 (potassium/chloride transporter), member 4	787					cell volume homeostasis (GO:0006884)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|ion transport (GO:0006811)|potassium ion transport (GO:0006813)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|plasma membrane (GO:0005886)	potassium:chloride symporter activity (GO:0015379)|protein kinase binding (GO:0019901)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(3)|lung(2)|ovary(2)|prostate(4)|skin(2)|urinary_tract(3)	29		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)	Bumetanide(DB00887)|Potassium Chloride(DB00761)	GAGTTATGCCGCATGCCTCCC	0.652																																																0								G	TRP/ARG,TRP/ARG,TRP/ARG,TRP/ARG,TRP/ARG	0,4396		0,0,2198	56	57	57		2359,2365,2341,2266,2359	2.2	1	16		57	1,8597	1.2+/-3.3	0,1,4298	no	missense,missense,missense,missense,missense	SLC12A4	NM_001145961.1,NM_001145962.1,NM_001145963.1,NM_001145964.1,NM_005072.4	101,101,101,101,101	0,1,6496	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging	787/1080,789/1088,781/1080,756/1055,787/1086	67980419	1,12993	2198	4299	6497	SO:0001583	missense	6560				CCDS10855.1, CCDS54030.1, CCDS54031.1, CCDS54032.1	16q22.1	2013-07-18	2013-07-18		ENSG00000124067	ENSG00000124067		"Solute carriers"	10913	protein-coding gene	gene with protein product		604119				8663127	Standard	NM_005072		Approved	KCC1	uc010ceu.2	Q9UP95	OTTHUMG00000137535	ENST00000316341.3:c.2359C>T	16.37:g.67980419G>A	ENSP00000318557:p.Arg787Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DF69|B4DR04|B4DZ82|B7ZAV0|F5H066|F5H0S9|F5H3C0|O60632|O75893|Q13953|Q96LD5	Missense_Mutation	SNP	ENST00000316341.3	37	CCDS10855.1	.	.	.	.	.	.	.	.	.	.	G	18.93	3.728223	0.69074	0.0	1.16E-4	ENSG00000124067	ENST00000422611;ENST00000541864;ENST00000537830;ENST00000316341	D;D;D;D	0.92595	-3.07;-3.07;-3.07;-3.07	4.57	2.23	0.28157	.	0.048575	0.85682	D	0.000000	D	0.94837	0.8332	M	0.80982	2.52	0.80722	D	1	D;D;D;D;D;D	0.63046	0.989;0.986;0.992;0.992;0.992;0.986	P;P;D;P;P;P	0.63381	0.877;0.582;0.914;0.761;0.828;0.582	D	0.93878	0.7168	10	0.87932	D	0	.	11.329	0.49465	0.0:0.0:0.3051:0.6949	.	789;787;756;781;787;787	F5H3C0;B4DF30;F5H066;F5H0S9;Q9UP95-2;Q9UP95	.;.;.;.;.;S12A4_HUMAN	W	789;756;781;787	ENSP00000395983:R789W;ENSP00000438334:R756W;ENSP00000445962:R781W;ENSP00000318557:R787W	ENSP00000318557:R787W	R	-	1	2	SLC12A4	66537920	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	3.502000	0.53332	0.220000	0.20860	-0.262000	0.10625	CGG		0.652	SLC12A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268864.4	NM_005072		A	67980419	G	A	67980419	3	1	664	1	0	0	0	0	1	0	0	0	14398	1086	38	1	926	1	SLC12A4	16	67980419	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	10792135	67980419	22374334	809	42119										
PDPR	55066	broad.mit.edu	37	chr16	70164360	70164360	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaccggacatctgttcttcaTgtaatggtcaaaaaaggtca	9	8	5	0	rs201953730		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:70164360T>A	ENST00000288050.4	+	7	1599	c.642T>A	c.(640-642)caT>caA	p.H214Q	PDPR_ENST00000568530.1_Missense_Mutation_p.H214Q|PDPR_ENST00000398122.3_Missense_Mutation_p.H114Q	NM_017990.3	NP_060460.4	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory subunit	214					cellular metabolic process (GO:0044237)|glycine catabolic process (GO:0006546)|pyruvate metabolic process (GO:0006090)|regulation of acetyl-CoA biosynthetic process from pyruvate (GO:0010510)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|mitochondrial matrix (GO:0005759)	aminomethyltransferase activity (GO:0004047)|oxidoreductase activity (GO:0016491)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(2)|large_intestine(3)|lung(17)|skin(2)|stomach(3)	33				BRCA - Breast invasive adenocarcinoma(221;0.124)		CTGTTCTTCATGTAATGGTCA	0.448																																																0													147	148	147					16																	70164360		1917	4144	6061	SO:0001583	missense	55066				CCDS45520.1	16q22.1	2010-08-24			ENSG00000090857	ENSG00000090857			30264	protein-coding gene	gene with protein product						9395502	Standard	NM_017990		Approved	PDP3	uc002eyf.1	Q8NCN5		ENST00000288050.4:c.642T>A	16.37:g.70164360T>A	ENSP00000288050:p.His214Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A7E298|A8K8Y7|B3KSE1|Q6AI20|Q6AWC9	Missense_Mutation	SNP	ENST00000288050.4	37	CCDS45520.1	6	0.0027472527472527475	0	0.0	3	0.008287292817679558	0	0.0	3	0.00395778364116095	T	12.71	2.019723	0.35606	.	.	ENSG00000090857	ENST00000288050;ENST00000398122	D;D	0.84660	-1.88;-1.88	4.93	-2.98	0.05513	FAD dependent oxidoreductase (1);	0.054244	0.64402	D	0.000001	T	0.62575	0.2439	N	0.16790	0.44	0.80722	D	1	B	0.14438	0.01	B	0.18263	0.021	T	0.41484	-0.9506	10	0.33940	T	0.23	.	10.9854	0.47518	0.0:0.4457:0.0:0.5543	.	214	Q8NCN5	PDPR_HUMAN	Q	214;114	ENSP00000288050:H214Q;ENSP00000381190:H114Q	ENSP00000288050:H214Q	H	+	3	2	PDPR	68721861	0.947000	0.32204	0.893000	0.35052	0.909000	0.53808	0.008000	0.13197	-0.680000	0.05211	-0.479000	0.04858	CAT		0.448	PDPR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000434502.1	NM_017990		A	70164360	T	A	70164360	3	1	664	1	0	0	0	0	1	0	0	0	11696	1461	51	5	660	5	PDPR	16	70164360	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	2183941	70164360	20190393	810	42120										
TAT	6898	broad.mit.edu	37	chr16	71602619	71602619	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gacacaggcacccaccgttgCtgggaggcagtggacagact	14	12	0	1	rs137946175	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:71602619C>T	ENST00000355962.4	-	11	1352	c.1219G>A	c.(1219-1221)Gca>Aca	p.A407T	RP11-432I5.1_ENST00000561529.1_RNA	NM_000353.2	NP_000344.1	P17735	ATTY_HUMAN	tyrosine aminotransferase	407					2-oxoglutarate metabolic process (GO:0006103)|biosynthetic process (GO:0009058)|cellular nitrogen compound metabolic process (GO:0034641)|glutamate metabolic process (GO:0006536)|L-phenylalanine catabolic process (GO:0006559)|response to glucocorticoid (GO:0051384)|response to mercury ion (GO:0046689)|response to oxidative stress (GO:0006979)|small molecule metabolic process (GO:0044281)|tyrosine catabolic process (GO:0006572)	cytosol (GO:0005829)|mitochondrion (GO:0005739)	amino acid binding (GO:0016597)|L-phenylalanine:2-oxoglutarate aminotransferase activity (GO:0080130)|L-tyrosine:2-oxoglutarate aminotransferase activity (GO:0004838)|pyridoxal phosphate binding (GO:0030170)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(9)|ovary(2)|prostate(1)|skin(3)	29		Ovarian(137;0.125)		Kidney(780;0.0157)	L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)	CCCACCGTTGCTGGGAGGCAG	0.498																																					Melanoma(198;542 2142 10292 21661 50033)|Esophageal Squamous(48;487 1013 5572 44395 52594)											0								C	THR/ALA	3,4393	6.2+/-15.9	0,3,2195	62	52	55		1219	5	0.7	16	dbSNP_134	55	0,8600		0,0,4300	yes	missense	TAT	NM_000353.2	58	0,3,6495	TT,TC,CC		0.0,0.0682,0.0231	benign	407/455	71602619	3,12993	2198	4300	6498	SO:0001583	missense	6898				CCDS10903.1	16q22.1	2012-10-02			ENSG00000198650	ENSG00000198650	2.6.1.5		11573	protein-coding gene	gene with protein product		613018					Standard	NM_000353		Approved		uc002fap.2	P17735	OTTHUMG00000137590	ENST00000355962.4:c.1219G>A	16.37:g.71602619C>T	ENSP00000348234:p.Ala407Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8I1|D3DWS2	Missense_Mutation	SNP	ENST00000355962.4	37	CCDS10903.1	.	.	.	.	.	.	.	.	.	.	C	34	5.312294	0.95655	6.82E-4	0.0	ENSG00000198650	ENST00000355962	D	0.88354	-2.37	5.93	4.98	0.66077	Tyrosine aminotransferase (1);Aminotransferase, class I/classII (1);Tyrosine/nicotianamine aminotransferase (1);Pyridoxal phosphate-dependent transferase, major region, subdomain 2 (1);Pyridoxal phosphate-dependent transferase, major domain (1);	0.194477	0.53938	D	0.000045	D	0.92410	0.7591	M	0.76574	2.34	0.80722	D	1	D	0.55605	0.972	P	0.54060	0.741	D	0.93310	0.6684	10	0.87932	D	0	-0.4645	16.6213	0.84931	0.131:0.869:0.0:0.0	.	407	P17735	ATTY_HUMAN	T	407	ENSP00000348234:A407T	ENSP00000348234:A407T	A	-	1	0	TAT	70160120	1.000000	0.71417	0.715000	0.30552	0.919000	0.55068	7.567000	0.82357	1.517000	0.48917	-0.169000	0.13324	GCA		0.498	TAT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268989.1			T	71602619	C	T	71602619	3	4	664	1	0	0	0	0	1	0	0	0	15602	797	28	2	153	2	TAT	16	71602619	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1438259	71602619	18752134	811	42121										
ZFHX3	463	broad.mit.edu	37	chr16	72822644	72822644	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctggggttggggagctcagCgacgctgaggacggtttatt	18	7	1	1	rs138129897	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:72822644C>T	ENST00000268489.5	-	10	10203	c.9531G>A	c.(9529-9531)tcG>tcA	p.S3177S	ZFHX3_ENST00000397992.5_Silent_p.S2263S|RP5-991G20.4_ENST00000569195.1_RNA|RP5-991G20.1_ENST00000563328.2_RNA|AC004943.1_ENST00000584072.1_RNA	NM_006885.3	NP_008816.3	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3	3177					brain development (GO:0007420)|cell cycle arrest (GO:0007050)|muscle organ development (GO:0007517)|negative regulation of myoblast differentiation (GO:0045662)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of myoblast differentiation (GO:0045663)|regulation of neuron differentiation (GO:0045664)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	enzyme binding (GO:0019899)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)			NS(3)|breast(7)|cervix(2)|endometrium(18)|haematopoietic_and_lymphoid_tissue(5)|kidney(8)|large_intestine(22)|liver(1)|lung(46)|ovary(5)|pancreas(1)|prostate(15)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(11)	153		Ovarian(137;0.13)				GGGAGCTCAGCGACGCTGAGG	0.607													C|||	3	0.000599042	0.0	0.0	5008	,	,		14507	0.0		0.0	False		,,,				2504	0.0031															0													73	78	76					16																	72822644		2198	4300	6498	SO:0001819	synonymous_variant	463			D10250	CCDS10908.1, CCDS54035.1	16q22.3	2012-03-09	2007-08-09	2007-08-09	ENSG00000140836	ENSG00000140836		"Zinc fingers, C2H2-type", "Homeoboxes / ZF class"	777	protein-coding gene	gene with protein product		104155	"AT-binding transcription factor 1"	ATBF1		1719379, 7592926	Standard	NM_006885		Approved	ZNF927	uc002fck.3	Q15911	OTTHUMG00000137599	ENST00000268489.5:c.9531G>A	16.37:g.72822644C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DWS8|O15101|Q13719	Silent	SNP	ENST00000268489.5	37	CCDS10908.1																																																																																				0.607	ZFHX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269008.1	NM_006885		T	72822644	C	T	72822644	2	4	664	1	0	0	0	0	0	0	0	1	17646	755	27	1		1	ZFHX3	16	72822644	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1220025	72822644	17532109	812	42122										
MON1B	22879	broad.mit.edu	37	chr16	77228770	77228770	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctgatggttttttctacgcCtacgtggcccgcctggatgc	11	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:77228770C>A	ENST00000248248.3	+	4	1364	c.1014C>A	c.(1012-1014)gcC>gcA	p.A338A	MON1B_ENST00000545553.1_Silent_p.A192A|MON1B_ENST00000320859.6_Intron|MON1B_ENST00000439557.2_Silent_p.A229A	NM_014940.2	NP_055755.1	Q7L1V2	MON1B_HUMAN	MON1 secretory trafficking family member B	338										breast(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(3)|ovary(1)|upper_aerodigestive_tract(1)	17						TTTTCTACGCCTACGTGGCCC	0.637																																																0													97	99	98					16																	77228770		2198	4300	6498	SO:0001819	synonymous_variant	22879			BC024277	CCDS10925.1, CCDS67082.1, CCDS67083.1	16q23.1	2013-08-21	2013-08-21		ENSG00000103111	ENSG00000103111			25020	protein-coding gene	gene with protein product		608954	"MON1 homolog B (yeast)"			10048485	Standard	NM_014940		Approved	SAND2, HSRG1, KIAA0872	uc002fez.3	Q7L1V2	OTTHUMG00000137618	ENST00000248248.3:c.1014C>A	16.37:g.77228770C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DDZ0|O94949	Silent	SNP	ENST00000248248.3	37	CCDS10925.1																																																																																				0.637	MON1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269036.2	NM_014940		A	77228770	C	A	77228770	2	1	664	1	0	0	0	0	0	0	0	1	9706	668	24	4		4	MON1B	16	77228770	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	4406126	77228770	13125983	813	42123										
WFDC1	58189	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	84353088	84353088	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgaacccctgctctgtccctCgggctatgagtgccacatcc	9	17	1	1	rs145066295		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:84353088C>T	ENST00000219454.5	+	4	799	c.473C>T	c.(472-474)tCg>tTg	p.S158L	WFDC1_ENST00000568638.1_Missense_Mutation_p.S158L	NM_001282466.1|NM_001282467.1	NP_001269395.1|NP_001269396.1	Q9HC57	WFDC1_HUMAN	WAP four-disulfide core domain 1	158					negative regulation of cell growth (GO:0030308)|negative regulation of epithelial cell proliferation (GO:0050680)|response to drug (GO:0042493)|response to estradiol (GO:0032355)	extracellular space (GO:0005615)	serine-type endopeptidase inhibitor activity (GO:0004867)	p.S158L(1)		breast(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(1)|ovary(1)	9						CTCTGTCCCTCGGGCTATGAG	0.662													C|||	1	0.000199681	0.0	0.0	5008	,	,		20424	0.001		0.0	False		,,,				2504	0.0															1	Substitution - Missense(1)	endometrium(1)						C	LEU/SER	1,4399	2.1+/-5.4	0,1,2199	80	62	68		473	4.4	1	16	dbSNP_134	68	1,8599		0,1,4299	no	missense	WFDC1	NM_021197.2	145	0,2,6498	TT,TC,CC		0.0116,0.0227,0.0154	benign	158/221	84353088	2,12998	2200	4300	6500	SO:0001583	missense	58189			AF302109	CCDS10946.1	16q24.1	2013-01-21			ENSG00000103175	ENSG00000103175		"WAP four-disulfide core domain containing"	15466	protein-coding gene	gene with protein product		605322				10967136	Standard	NM_021197		Approved	PS20	uc002fhw.3	Q9HC57	OTTHUMG00000137641	ENST00000219454.5:c.473C>T	16.37:g.84353088C>T	ENSP00000219454:p.Ser158Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUL7|Q8NC27|Q9HAU1	Missense_Mutation	SNP	ENST00000219454.5	37	CCDS10946.1	.	.	.	.	.	.	.	.	.	.	C	17.96	3.516037	0.64634	2.27E-4	1.16E-4	ENSG00000103175	ENST00000219454	T	0.32753	1.44	4.43	4.43	0.53597	.	0.130447	0.49916	D	0.000127	T	0.21962	0.0529	N	0.24115	0.695	0.45704	D	0.998618	P	0.40083	0.702	B	0.35240	0.198	T	0.10451	-1.0629	10	0.62326	D	0.03	-16.3228	15.7941	0.78394	0.0:1.0:0.0:0.0	.	158	Q9HC57	WFDC1_HUMAN	L	158	ENSP00000219454:S158L	ENSP00000219454:S158L	S	+	2	0	WFDC1	82910589	1.000000	0.71417	0.986000	0.45419	0.725000	0.41563	6.721000	0.74728	2.295000	0.77249	0.555000	0.69702	TCG		0.662	WFDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269083.2			T	84353088	C	T	84353088	3	4	664	1	0	0	0	0	1	0	0	0	17358	893	31	1	487	1	WFDC1	16	84353088	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	7124318	84353088	6001665	814	42124										
USP10	9100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr16	84778426	84778426	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaagcaagctatggctccatCgactgccagtacccaggctc	10	14	0	0	rs200755558	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:84778426C>T	ENST00000219473.7	+	4	452	c.339C>T	c.(337-339)atC>atT	p.I113I	USP10_ENST00000570191.1_Silent_p.I117I|USP10_ENST00000562743.1_3'UTR	NM_001272075.1|NM_005153.2	NP_001259004.1|NP_005144.2	Q14694	UBP10_HUMAN	ubiquitin specific peptidase 10	113					autophagy (GO:0006914)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA repair (GO:0006281)|protein deubiquitination (GO:0016579)|regulation of autophagy (GO:0010506)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|early endosome (GO:0005769)|intermediate filament cytoskeleton (GO:0045111)|nucleus (GO:0005634)	cysteine-type endopeptidase activity (GO:0004197)|ion channel binding (GO:0044325)|p53 binding (GO:0002039)|poly(A) RNA binding (GO:0044822)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			endometrium(3)|kidney(1)|large_intestine(7)|lung(3)|prostate(1)|stomach(1)|urinary_tract(1)	17						ATGGCTCCATCGACTGCCAGT	0.488													C|||	2	0.000399361	0.0	0.0	5008	,	,		16534	0.002		0.0	False		,,,				2504	0.0															0													70	69	69					16																	84778426		1853	4099	5952	SO:0001819	synonymous_variant	9100			D80012	CCDS45537.1, CCDS62004.1	16q	2008-03-25	2005-08-08			ENSG00000103194		"Ubiquitin-specific peptidases"	12608	protein-coding gene	gene with protein product		609818	"ubiquitin specific protease 10"			12838346	Standard	NM_005153		Approved	UBPO, KIAA0190	uc002fii.3	Q14694		ENST00000219473.7:c.339C>T	16.37:g.84778426C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RDJ8|B4DS84|Q9BWG7|Q9NSL7	Silent	SNP	ENST00000219473.7	37	CCDS45537.1																																																																																				0.488	USP10-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000433660.1			T	84778426	C	T	84778426	2	4	664	1	0	0	0	0	0	0	0	1	17053	874	31	1		1	USP10	16	84778426	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	425338	84778426	5576327	815	42125										
ACSF3	197322	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr16	89169104	89169104	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtccatggtgtggtcaacgcGctgctctgtcctctctgggt	13	12	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:89169104G>A	ENST00000317447.4	+	4	1136	c.759G>A	c.(757-759)gcG>gcA	p.A253A	ACSF3_ENST00000406948.3_Silent_p.A253A|ACSF3_ENST00000378345.4_De_novo_Start_InFrame	NM_001127214.2|NM_001243279.1|NM_001284316.1|NM_174917.3	NP_001120686.1|NP_001230208.1|NP_001271245.1|NP_777577.2	Q4G176	ACSF3_HUMAN	acyl-CoA synthetase family member 3	253					fatty acid biosynthetic process (GO:0006633)|fatty acid metabolic process (GO:0006631)|malonate catabolic process (GO:0090410)	mitochondrion (GO:0005739)	acid-thiol ligase activity (GO:0016878)|ATP binding (GO:0005524)|malonyl-CoA synthetase activity (GO:0090409)			central_nervous_system(1)|endometrium(1)|kidney(2)|lung(9)|prostate(1)|urinary_tract(1)	15				BRCA - Breast invasive adenocarcinoma(80;0.0281)		TGGTCAACGCGCTGCTCTGTC	0.627																																																0													130	93	106					16																	89169104		2198	4300	6498	SO:0001819	synonymous_variant	197322			AK075499	CCDS10974.1, CCDS73926.1	16q24.3	2013-01-15			ENSG00000176715	ENSG00000176715		"Acyl-CoA synthetase family"	27288	protein-coding gene	gene with protein product	"malonyl-CoA synthetase"	614245				17762044, 21846720	Standard	XM_005256293		Approved		uc010cig.2	Q4G176	OTTHUMG00000138044	ENST00000317447.4:c.759G>A	16.37:g.89169104G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K4J8|C9JQL6|Q6INA0|Q8N2F7	Silent	SNP	ENST00000317447.4	37	CCDS10974.1	.	.	.	.	.	.	.	.	.	.	G	3.211	-0.161523	0.06502	.	.	ENSG00000176715	ENST00000543676	.	.	.	5.02	5.02	0.67125	.	0.090843	0.85682	D	0.000000	T	0.74238	0.3690	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.73720	-0.3894	5	.	.	.	-30.6413	18.3267	0.90256	0.0:0.0:1.0:0.0	.	.	.	.	T	1	.	.	A	+	1	0	ACSF3	87696605	1.000000	0.71417	1.000000	0.80357	0.025000	0.11179	7.177000	0.77650	2.326000	0.78906	0.467000	0.42956	GCT		0.627	ACSF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269919.1	NM_174917		A	89169104	G	A	89169104	2	1	664	1	0	0	0	0	0	0	0	1	176	1074	38	1		1	ACSF3	16	89169104	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4390678	89169104	1185649	816	42126										
DEF8	54849	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	90020686	90020686	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atatgatgagaagctggcccGtttccggcaggcccacctca	11	13	1	2	rs373457887		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:90020686G>A	ENST00000268676.7	+	3	298	c.209G>A	c.(208-210)cGt>cAt	p.R70H	DEF8_ENST00000418391.2_Missense_Mutation_p.R9H|DEF8_ENST00000567874.1_Intron|DEF8_ENST00000563594.1_Missense_Mutation_p.R9H|DEF8_ENST00000563795.1_Missense_Mutation_p.R9H|DEF8_ENST00000570182.1_Missense_Mutation_p.R9H|DEF8_ENST00000569453.1_Missense_Mutation_p.R9H	NM_207514.2	NP_997397.1	Q6ZN54	DEFI8_HUMAN	differentially expressed in FDCP 8 homolog (mouse)	70					intracellular signal transduction (GO:0035556)		zinc ion binding (GO:0008270)			central_nervous_system(1)|cervix(1)|large_intestine(1)|lung(8)|upper_aerodigestive_tract(1)	12		all_cancers(9;7.59e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.0019)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0274)		AAGCTGGCCCGTTTCCGGCAG	0.632																																																0								G	HIS/ARG,,HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG	1,4395	2.1+/-5.4	0,1,2197	74	71	72		26,,26,26,26,26,26,26,209	5.1	1	16		72	0,8600		0,0,4300	no	missense,intron,missense,missense,missense,missense,missense,missense,missense	DEF8	NM_001242816.1,NM_001242817.1,NM_001242818.1,NM_001242819.1,NM_001242820.1,NM_001242821.1,NM_001242822.1,NM_017702.3,NM_207514.2	29,,29,29,29,29,29,29,29	0,1,6497	AA,AG,GG		0.0,0.0227,0.0077	benign,,benign,benign,benign,benign,benign,benign,benign	9/442,,9/452,9/435,9/452,9/198,9/198,9/198,70/513	90020686	1,12995	2198	4300	6498	SO:0001583	missense	54849			AK131370	CCDS10989.1, CCDS45555.1, CCDS58493.1, CCDS58494.1, CCDS58495.1, CCDS58496.1	16q24.3	2011-01-31			ENSG00000140995	ENSG00000140995			25969	protein-coding gene	gene with protein product						12477932	Standard	NM_207514		Approved	FLJ20186	uc002fpn.2	Q6ZN54	OTTHUMG00000138989	ENST00000268676.7:c.209G>A	16.37:g.90020686G>A	ENSP00000268676:p.Arg70His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KT65|B4DK62|B4E0S9|B7Z3H6|H3BUG7|Q8N8N3|Q9NXL0	Missense_Mutation	SNP	ENST00000268676.7	37	CCDS10989.1	.	.	.	.	.	.	.	.	.	.	G	22.0	4.230866	0.79688	2.27E-4	0.0	ENSG00000140995	ENST00000268676;ENST00000418391	T;T	0.50277	0.75;0.76	5.11	5.11	0.69529	.	0.412580	0.24735	N	0.036023	T	0.47451	0.1446	M	0.69823	2.125	0.38061	D	0.936082	B;B;B;P	0.35600	0.116;0.116;0.014;0.511	B;B;B;B	0.25291	0.016;0.016;0.003;0.059	T	0.60566	-0.7238	10	0.87932	D	0	-15.9482	17.6689	0.88211	0.0:0.0:1.0:0.0	.	9;9;70;9	Q6ZN54-5;Q6ZN54-3;Q6ZN54;Q6ZN54-2	.;.;DEFI8_HUMAN;.	H	70;9	ENSP00000268676:R70H;ENSP00000412784:R9H	ENSP00000268676:R70H	R	+	2	0	DEF8	88548187	1.000000	0.71417	1.000000	0.80357	0.931000	0.56810	4.092000	0.57707	2.538000	0.85594	0.561000	0.74099	CGT		0.632	DEF8-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000272878.1	NM_207514		A	90020686	G	A	90020686	3	1	664	1	0	0	0	0	1	0	0	0	4389	1145	40	1	215	1	DEF8	16	90020686	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	851582	90020686	334067	817	42127										
C16orf3	2622	mdanderson.org	37	chr16	90095596	90095597	+	Intron	DNP	AT	AT	GC													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcagcttacggggcaggctAtggggcagcctacggggcag					rs61118444|rs55742939|rs71137702	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr16:90095596_90095597AT>GC	ENST00000268699.4	+	2	212				GAS8_ENST00000536122.1_Intron|C16orf3_ENST00000408886.2_Missense_Mutation_p.I52A|GAS8_ENST00000540721.1_Intron	NM_001481.2	NP_001472.1	O95995	GAS8_HUMAN	growth arrest-specific 8						cellular protein localization (GO:0034613)|negative regulation of cell proliferation (GO:0008285)|sperm motility (GO:0030317)	Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|motile cilium (GO:0031514)				endometrium(3)|large_intestine(2)|lung(6)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	14		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)		ggggcaggctatggggcagcct	0.663																																																0																																										SO:0001627	intron_variant	750			AF050079	CCDS10992.1, CCDS67101.1, CCDS73932.1	16q24.3	2014-07-18	2003-01-16	2003-01-17	ENSG00000141013	ENSG00000141013			4166	protein-coding gene	gene with protein product		605178	"growth arrest-specific 11"	GAS11		9790751	Standard	NM_001481		Approved		uc002fqi.1	O95995	OTTHUMG00000138988	Exception_encountered	16.37:g.90095596_90095597delinsGC		Somatic		WXS	Illumina HiSeq	Phase_I	B2RCT1|B7Z4U1|G3V1L5|Q2M234	Missense_Mutation	DNP	ENST00000268699.4	37	CCDS10992.1																																																																																				0.663	GAS8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000272877.2			GC	90095597	AT	GC	90095596	1	3	664	0	1	0	0	0	0	0	0	0	1814	449	16	3		3	C16orf3	16	90095596	Intron	DNP	AT	TCGA-KN-8428-01A-11D-2310-10	74910	90095596	259157	818	42128										
ITGAE	3682	hgsc.bcm.edu;ucsc.edu	37	chr17	3649159	3649159	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcttacgtctgaacactgcaGccgtctcctctgcttcccca	6	17	4	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:3649159G>A	ENST00000263087.4	-	18	2316	c.2218C>T	c.(2218-2220)Ctg>Ttg	p.L740L		NM_002208.4	NP_002199.3	P38570	ITAE_HUMAN	integrin, alpha E (antigen CD103, human mucosal lymphocyte antigen 1; alpha polypeptide)	740					cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|integrin-mediated signaling pathway (GO:0007229)	external side of plasma membrane (GO:0009897)|integrin complex (GO:0008305)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)			NS(1)|breast(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(13)|lung(14)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	41				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)		GAACACTGCAGCCGTCTCCTC	0.597																																					NSCLC(182;635 2928 8995 38788)											0													137	110	119					17																	3649159		2203	4300	6503	SO:0001819	synonymous_variant	3682			L25851	CCDS32531.1	17p13	2010-03-23				ENSG00000083457		"CD molecules", "Integrins"	6147	protein-coding gene	gene with protein product		604682				8119947	Standard	NM_002208		Approved	CD103, HUMINAE	uc002fwo.4	P38570		ENST00000263087.4:c.2218C>T	17.37:g.3649159G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q17RS6|Q9NZU9	Silent	SNP	ENST00000263087.4	37	CCDS32531.1																																																																																				0.597	ITGAE-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438169.1	NM_002208		A	3649159	G	A	3649159	2	1	664	1	0	0	0	0	0	0	0	1	7892	962	34	2		2	ITGAE	17	3649159	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10		3649159	77546051	819	42129										
ATP2A3	489	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr17	3839671	3839671	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcgggttgaagcccagagccGtggcaggtaggccgtctgtc	17	11	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:3839671G>A	ENST00000352011.3	-	16	2468	c.2414C>T	c.(2413-2415)aCg>aTg	p.T805M	ATP2A3_ENST00000359983.3_Missense_Mutation_p.T805M|ATP2A3_ENST00000397035.3_Missense_Mutation_p.T805M|ATP2A3_ENST00000397041.3_Missense_Mutation_p.T805M|ATP2A3_ENST00000397043.3_Missense_Mutation_p.T805M|ATP2A3_ENST00000309890.7_Missense_Mutation_p.T805M|ATP2A3_ENST00000397039.1_De_novo_Start_InFrame			Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous	805					blood coagulation (GO:0007596)|calcium ion transmembrane transport (GO:0070588)|calcium ion transport (GO:0006816)|ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)|transport (GO:0006810)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|platelet dense tubular network membrane (GO:0031095)|sarcoplasmic reticulum (GO:0016529)	ATP binding (GO:0005524)|calcium-transporting ATPase activity (GO:0005388)|metal ion binding (GO:0046872)	p.T805M(1)		breast(1)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(3)|prostate(1)|skin(3)|stomach(1)|urinary_tract(1)	36				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		GCCCAGAGCCGTGGCAGGTAG	0.622																																					GBM(32;29 774 15719 37967)											1	Substitution - Missense(1)	large_intestine(1)											76	78	77					17																	3839671		2203	4300	6503	SO:0001583	missense	489				CCDS11041.1, CCDS11042.1, CCDS42234.1, CCDS45579.1, CCDS45580.1	17p13.3	2012-10-22			ENSG00000074370	ENSG00000074370	3.6.3.8	"ATPases / P-type"	813	protein-coding gene	gene with protein product	"sarcoplasmic/endoplasmic reticulum calcium ATPase 3", "calcium pump 3"	601929				8809064	Standard	NM_005173		Approved	SERCA3	uc002fwy.2	Q93084		ENST00000352011.3:c.2414C>T	17.37:g.3839671G>A	ENSP00000301387:p.Thr805Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8MZG0|D3DTJ8|O60900|O60901|O75501|O75502|Q16115|Q6JHX1|Q8TEX5|Q8TEX6	Missense_Mutation	SNP	ENST00000352011.3	37	CCDS11041.1	.	.	.	.	.	.	.	.	.	.	G	21.3	4.131325	0.77549	.	.	ENSG00000074370	ENST00000397043;ENST00000352011;ENST00000359983;ENST00000397041;ENST00000397045;ENST00000309890;ENST00000397035	D;D;D;D;D;D	0.95821	-3.82;-3.82;-3.82;-3.82;-3.82;-3.82	4.16	4.16	0.48862	ATPase, P-type cation-transporter, C-terminal (1);ATPase, P-type,  transmembrane domain (1);	0.000000	0.85682	D	0.000000	D	0.97617	0.9219	M	0.83384	2.64	0.80722	D	1	D;D;D;D;D;D	0.89917	1.0;0.987;0.996;0.995;0.995;0.987	D;P;P;P;P;P	0.87578	0.998;0.52;0.551;0.52;0.52;0.52	D	0.97484	1.0049	10	0.49607	T	0.09	.	16.7249	0.85419	0.0:0.0:1.0:0.0	.	805;805;805;805;805;805	Q93084-4;Q93084-2;Q93084;Q93084-6;G3XAE1;Q93084-3	.;.;AT2A3_HUMAN;.;.;.	M	805	ENSP00000380236:T805M;ENSP00000301387:T805M;ENSP00000353072:T805M;ENSP00000380234:T805M;ENSP00000312577:T805M;ENSP00000380229:T805M	ENSP00000312577:T805M	T	-	2	0	ATP2A3	3786420	1.000000	0.71417	0.963000	0.40424	0.828000	0.46876	9.657000	0.98554	2.607000	0.88179	0.561000	0.74099	ACG		0.622	ATP2A3-015	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000438401.1	NM_174953		A	3839671	G	A	3839671	3	1	664	1	0	0	0	0	1	0	0	0	1138	1145	40	1	820	1	ATP2A3	17	3839671	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	190512	3839671	77355539	820	42130										
SMTNL2	342527	hgsc.bcm.edu;ucsc.edu	37	chr17	4500239	4500239	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agcatcaagcagatcctgctCgagtggtgccgcagcaagac	12	12	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:4500239C>T	ENST00000389313.4	+	6	1141	c.1074C>T	c.(1072-1074)ctC>ctT	p.L358L	SMTNL2_ENST00000338859.4_Silent_p.L214L	NM_001114974.1	NP_001108446.1	Q2TAL5	SMTL2_HUMAN	smoothelin-like 2	358	CH. {ECO:0000255|PROSITE- ProRule:PRU00044}.									breast(1)|endometrium(9)|kidney(1)|lung(1)|skin(1)	13				READ - Rectum adenocarcinoma(115;0.0325)		AGATCCTGCTCGAGTGGTGCC	0.692																																																0													12	11	11					17																	4500239		2105	4143	6248	SO:0001819	synonymous_variant	342527			AK124452	CCDS11048.1, CCDS45583.1	17p13.2	2006-04-26			ENSG00000188176	ENSG00000188176			24764	protein-coding gene	gene with protein product							Standard	NM_001114974		Approved	FLJ42461	uc002fyf.1	Q2TAL5	OTTHUMG00000132938	ENST00000389313.4:c.1074C>T	17.37:g.4500239C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZVK6	Silent	SNP	ENST00000389313.4	37	CCDS45583.1																																																																																				0.692	SMTNL2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000439129.1	NM_198501		T	4500239	C	T	4500239	2	4	664	1	0	0	0	0	0	0	0	1	14829	871	31	1		1	SMTNL2	17	4500239	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	660568	4500239	76694971	821	42131										
USP6	9098	mdanderson.org	37	chr17	5044784	5044784	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcaaatagtagtaaaatagaTagacaaaagggtaagtctcc	9	5	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:5044784T>C	ENST00000574788.1	+	23	3793	c.1563T>C	c.(1561-1563)gaT>gaC	p.D521D	USP6_ENST00000332776.4_Silent_p.D521D|USP6_ENST00000304328.5_Silent_p.D204D|USP6_ENST00000250066.6_Silent_p.D521D			P35125	UBP6_HUMAN	ubiquitin specific peptidase 6	521					cellular protein modification process (GO:0006464)|protein deubiquitination (GO:0016579)|regulation of vesicle-mediated transport (GO:0060627)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|recycling endosome (GO:0055037)	calmodulin binding (GO:0005516)|cysteine-type endopeptidase activity (GO:0004197)|nucleic acid binding (GO:0003676)|Rab GTPase activator activity (GO:0005097)|ubiquitin-specific protease activity (GO:0004843)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(4)|lung(15)|ovary(1)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	34						GTAAAATAGATAGACAAAAGG	0.294			T	"COL1A1, CDH11, ZNF9, OMD"	aneurysmal bone cysts																																		Dom	yes		17	17p13	9098	ubiquitin specific peptidase 6 (Tre-2 oncogene)		M	0													82	78	79					17																	5044784		2203	4295	6498	SO:0001819	synonymous_variant	9098			X63547	CCDS11069.2	17p13	2014-06-12	2014-06-12		ENSG00000129204	ENSG00000129204	3.4.19.12	"Ubiquitin-specific peptidases"	12629	protein-coding gene	gene with protein product	"ubiquitin carboxyl-terminal hydrolase 6", "TBC1D3 and USP32 fusion", "Tre-2 oncogene"	604334	"ubiquitin specific protease 6 (Tre-2 oncogene)", "TRE oncogene, Smith Magenis syndrome chromosome region", "ubiquitin specific peptidase 6 (Tre-2 oncogene)"	HRP1, TRESMCR		12838346, 1349106	Standard	NM_004505		Approved	Tre-2, TRE17, Tre2	uc002gav.1	P35125	OTTHUMG00000099449	ENST00000574788.1:c.1563T>C	17.37:g.5044784T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q15634|Q86WP6|Q8IWT4	Silent	SNP	ENST00000574788.1	37	CCDS11069.2																																																																																				0.294	USP6-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438990.1	NM_004505		C	5044784	T	C	5044784	2	2	664	1	0	0	0	0	0	0	0	1	17098	1403	49	3		3	USP6	17	5044784	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	544545	5044784	76150426	822	42132										
NLRP1	22861	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr17	5436264	5436264	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgagaggcaggagaaggcacGcacaagagttccaccggtac	14	10	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:5436264G>A	ENST00000572272.1	-	11	3173	c.3174C>T	c.(3172-3174)tgC>tgT	p.C1058C	NLRP1_ENST00000345221.3_Silent_p.C1058C|NLRP1_ENST00000262467.5_Silent_p.C1062C|NLRP1_ENST00000354411.3_Silent_p.C1028C|NLRP1_ENST00000571307.1_5'UTR|NLRP1_ENST00000577119.1_Silent_p.C1028C|NLRP1_ENST00000269280.4_Silent_p.C1058C			Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1	1058					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic process (GO:0006915)|defense response to bacterium (GO:0042742)|innate immune response (GO:0045087)|neuron apoptotic process (GO:0051402)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|positive regulation of interleukin-1 beta secretion (GO:0050718)|regulation of inflammatory response (GO:0050727)|response to muramyl dipeptide (GO:0032495)	cytosol (GO:0005829)|intracellular (GO:0005622)|NLRP1 inflammasome complex (GO:0072558)|nucleus (GO:0005634)	ATP binding (GO:0005524)|cysteine-type endopeptidase activator activity involved in apoptotic process (GO:0008656)|enzyme binding (GO:0019899)|protein domain specific binding (GO:0019904)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(7)|kidney(2)|large_intestine(17)|liver(5)|lung(17)|ovary(1)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	65		Colorectal(1115;3.48e-05)				GAGAAGGCACGCACAAGAGTT	0.607																																																0													88	77	81					17																	5436264		2203	4300	6503	SO:0001819	synonymous_variant	22861			AB023143	CCDS32537.1, CCDS42244.1, CCDS42245.1, CCDS42246.1, CCDS58508.1	17p13	2014-01-29	2006-12-08	2006-12-08	ENSG00000091592	ENSG00000091592		"Nucleotide-binding domain and leucine rich repeat containing"	14374	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 1"	606636	"NACHT, leucine rich repeat and PYD (pyrin domain) containing 1", "systemic lupus erythematosus, vitiligo-related 1"	NALP1, SLEV1		8781126, 12563287, 17377159	Standard	NM_033006		Approved	KIAA0926, DKFZp586O1822, CARD7, NAC, CLR17.1, DEFCAP, VAMAS1	uc002gci.3	Q9C000		ENST00000572272.1:c.3174C>T	17.37:g.5436264G>A		Somatic		WXS	Illumina HiSeq	Phase_I	E9PE50|I6L9D9|Q9BZZ8|Q9BZZ9|Q9H5Z7|Q9H5Z8|Q9HAV8|Q9UFT4|Q9Y2E0	Silent	SNP	ENST00000572272.1	37	CCDS42246.1																																																																																				0.607	NLRP1-011	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000439517.1	NM_033004		A	5436264	G	A	5436264	2	1	664	1	0	0	0	0	0	0	0	1	10478	1079	38	1		1	NLRP1	17	5436264	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	391480	5436264	75758946	823	42133										
SLC16A13	201232	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	6941569	6941569	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccgggctggcactgacaggcGtgggcctctcctccttcaca	12	16	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:6941569G>A	ENST00000308027.6	+	3	750	c.442G>A	c.(442-444)Gtg>Atg	p.V148M		NM_201566.2	NP_963860.1	Q7RTY0	MOT13_HUMAN	solute carrier family 16, member 13	148						Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	symporter activity (GO:0015293)			haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|liver(2)|lung(3)|ovary(1)|skin(1)|stomach(1)	10						ACTGACAGGCGTGGGCCTCTC	0.642																																																0													77	81	80					17																	6941569		2203	4300	6503	SO:0001583	missense	201232			BN000145	CCDS11085.1	17p13.1	2013-07-18	2013-07-18		ENSG00000174327	ENSG00000174327		"Solute carriers"	31037	protein-coding gene	gene with protein product	"monocarboxylic acid transporter 13"		"solute carrier family 16 (monocarboxylic acid transporters), member 13"				Standard	NM_201566		Approved	MCT13	uc002geh.3	Q7RTY0	OTTHUMG00000102089	ENST00000308027.6:c.442G>A	17.37:g.6941569G>A	ENSP00000309751:p.Val148Met	Somatic		WXS	Illumina HiSeq	Phase_I	A3KMG3|A5PKU5|Q2VP92	Missense_Mutation	SNP	ENST00000308027.6	37	CCDS11085.1	.	.	.	.	.	.	.	.	.	.	G	18.14	3.558032	0.65538	.	.	ENSG00000174327	ENST00000308027	T	0.37584	1.19	5.54	4.37	0.52481	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.212945	0.40640	N	0.001057	T	0.23886	0.0578	N	0.24115	0.695	0.45046	D	0.998069	P	0.37398	0.593	B	0.33521	0.165	T	0.06516	-1.0822	10	0.48119	T	0.1	.	12.5283	0.56100	0.095:0.0:0.905:0.0	.	148	Q7RTY0	MOT13_HUMAN	M	148	ENSP00000309751:V148M	ENSP00000309751:V148M	V	+	1	0	SLC16A13	6882293	1.000000	0.71417	0.988000	0.46212	0.914000	0.54420	4.252000	0.58785	2.602000	0.87976	0.563000	0.77884	GTG		0.642	SLC16A13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219923.2			A	6941569	G	A	6941569	3	1	664	1	0	0	0	0	1	0	0	0	14419	1145	40	1	452	1	SLC16A13	17	6941569	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1505305	6941569	74253641	824	42134										
NEURL4	84461	hgsc.bcm.edu;mdanderson.org	37	chr17	7228701	7228701	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cggcggagacggtcactgtgGttgttattgtggacgatggt	17	6	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:7228701G>A	ENST00000399464.2	-	8	1473	c.1458C>T	c.(1456-1458)aaC>aaT	p.N486N	NEURL4_ENST00000570460.1_Silent_p.N464N|NEURL4_ENST00000315614.7_Silent_p.N486N	NM_032442.2	NP_115818.2	Q96JN8	NEUL4_HUMAN	neuralized E3 ubiquitin protein ligase 4	486						cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)				central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(6)|lung(12)|ovary(2)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	34						GGTCACTGTGGTTGTTATTGT	0.642																																																0													111	122	119					17																	7228701		2123	4217	6340	SO:0001819	synonymous_variant	84461				CCDS42251.1, CCDS42252.1	17p13	2013-10-24	2013-10-24		ENSG00000215041	ENSG00000215041			34410	protein-coding gene	gene with protein product		615865	"neuralized homolog 4 (Drosophila)"			22261722, 22441691	Standard	NM_001005408		Approved	KIAA1787	uc002gga.1	Q96JN8	OTTHUMG00000132319	ENST00000399464.2:c.1458C>T	17.37:g.7228701G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6GPI8|Q96IU9|Q9H0B0	Silent	SNP	ENST00000399464.2	37	CCDS42251.1																																																																																				0.642	NEURL4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000255434.2	NM_032442		A	7228701	G	A	7228701	2	1	664	1	0	0	0	0	0	0	0	1	10354	1252	44	2		2	NEURL4	17	7228701	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	287132	7228701	73966509	825	42135										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	7578263	7578263	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acgcaaatttccttccactcGgataagatgctgaggagggg	12	9	0	2	rs397516435		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:7578263G>A	ENST00000269305.4	-	6	775	c.586C>T	c.(586-588)Cga>Tga	p.R196*	TP53_ENST00000445888.2_Nonsense_Mutation_p.R196*|TP53_ENST00000359597.4_Nonsense_Mutation_p.R196*|TP53_ENST00000574684.1_Intron|TP53_ENST00000413465.2_Nonsense_Mutation_p.R196*|TP53_ENST00000455263.2_Nonsense_Mutation_p.R196*|TP53_ENST00000420246.2_Nonsense_Mutation_p.R196*	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	196	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with FBXO42.|Required for interaction with ZNF385A.		R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> S (in a sporadic cancer; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.R196*(167)|p.R64*(14)|p.R103*(14)|p.0?(8)|p.R196fs*51(7)|p.?(5)|p.A189_V197delAPPQHLIRV(4)|p.P191_E198>Q(3)|p.R196R(2)|p.I195fs*50(1)|p.R64fs*>27(1)|p.R103fs*51(1)|p.P191fs*6(1)|p.I195_G199delIRVEG(1)|p.P98_E105>Q(1)|p.I195fs*12(1)|p.P59_E66>Q(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	CCTTCCACTCGGATAAGATGC	0.552		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	232	Substitution - Nonsense(195)|Deletion - Frameshift(11)|Whole gene deletion(8)|Deletion - In frame(5)|Complex - deletion inframe(5)|Unknown(5)|Substitution - coding silent(2)|Complex - frameshift(1)	large_intestine(54)|breast(29)|upper_aerodigestive_tract(22)|lung(22)|haematopoietic_and_lymphoid_tissue(17)|skin(17)|biliary_tract(11)|central_nervous_system(11)|oesophagus(11)|ovary(11)|stomach(8)|urinary_tract(7)|bone(4)|liver(3)|pancreas(3)|eye(1)|kidney(1)	GRCh37	CM941329	TP53	M							102	91	94					17																	7578263		2203	4300	6503	SO:0001587	stop_gained	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.586C>T	17.37:g.7578263G>A	ENSP00000269305:p.Arg196*	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Nonsense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	G	14.02	2.409843	0.42715	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944;ENST00000414315	.	.	.	5.41	4.44	0.53790	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-19.9531	12.3046	0.54895	0.0827:0.0:0.9173:0.0	.	.	.	.	X	196;196;196;196;196;196;185;103;64;103;64	.	ENSP00000269305:R196X	R	-	1	2	TP53	7518988	1.000000	0.71417	0.997000	0.53966	0.023000	0.10783	2.166000	0.42406	1.427000	0.47276	-0.140000	0.14226	CGA		0.552	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		A	7578263	G	A	7578263	4	1	664	1	0	0	0	0	0	1	0	0	16393	1124	39	1	708	1	TP53	17	7578263	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	349562	7578263	73616947	826	42136										
CHD3	1107	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	7814222	7814222	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acggggcggccttcagcgccGcacccgtaggggccctggcc	16	17	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:7814222G>A	ENST00000330494.7	+	39	5962	c.5812G>A	c.(5812-5814)Gca>Aca	p.A1938T	CHD3_ENST00000358181.4_Missense_Mutation_p.A1904T|CHD3_ENST00000380358.4_Missense_Mutation_p.A1997T|AC025335.1_ENST00000324348.7_RNA	NM_001005273.2	NP_001005273.1	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1938	Required for interaction with PCNT.				centrosome organization (GO:0051297)|chromatin assembly or disassembly (GO:0006333)|chromatin modification (GO:0016568)|DNA duplex unwinding (GO:0032508)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|spindle organization (GO:0007051)|transcription, DNA-templated (GO:0006351)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|intermediate filament cytoskeleton (GO:0045111)|nucleolus (GO:0005730)|nucleus (GO:0005634)|NuRD complex (GO:0016581)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(1)|cervix(2)|endometrium(11)|kidney(6)|large_intestine(13)|liver(2)|lung(14)|ovary(1)|pancreas(1)|prostate(7)|skin(3)|urinary_tract(2)	65		Prostate(122;0.202)				CTTCAGCGCCGCACCCGTAGG	0.627																																																0													61	72	68					17																	7814222		2203	4299	6502	SO:0001583	missense	1107			U08379	CCDS32553.2, CCDS32554.1, CCDS32555.1	17p13	2013-01-28			ENSG00000170004	ENSG00000170004		"Zinc fingers, PHD-type"	1918	protein-coding gene	gene with protein product		602120				9326634, 7560064	Standard	NM_001005271		Approved	Mi-2a, ZFH, Mi2-ALPHA	uc002gjd.2	Q12873	OTTHUMG00000150427	ENST00000330494.7:c.5812G>A	17.37:g.7814222G>A	ENSP00000332628:p.Ala1938Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTQ9|E9PG89|Q9Y4I0	Missense_Mutation	SNP	ENST00000330494.7	37	CCDS32554.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	g|g	11.87|11.87	1.767540|1.767540	0.31320|0.31320	.|.	.|.	ENSG00000170004|ENSG00000170004	ENST00000380358;ENST00000358181;ENST00000330494|ENST00000439235;ENST00000449744	D;D;D|.	0.90385|.	-2.66;-2.59;-2.59|.	5.05|5.05	3.02|3.02	0.34903|0.34903	.|.	0.000000|.	0.42821|.	D|.	0.000656|.	T|T	0.32912|0.32912	0.0845|0.0845	N|N	0.14661|0.14661	0.345|0.345	0.33703|0.33703	D|D	0.614842|0.614842	B;B;B;B;B|.	0.11235|.	0.003;0.004;0.0;0.0;0.002|.	B;B;B;B;B|.	0.04013|.	0.001;0.001;0.001;0.0;0.001|.	T|T	0.47341|0.47341	-0.9125|-0.9125	10|6	0.20519|0.56958	T|D	0.43|0.05	-6.0176|-6.0176	6.1389|6.1389	0.20249|0.20249	0.3916:0.0:0.6084:0.0|0.3916:0.0:0.6084:0.0	.|.	917;515;1904;1938;1997|.	B4DLC6;B3KWV4;Q12873-2;Q12873;E9PG89|.	.;.;.;CHD3_HUMAN;.|.	T|H	1997;1904;1938|281;175	ENSP00000369716:A1997T;ENSP00000350907:A1904T;ENSP00000332628:A1938T|.	ENSP00000332628:A1938T|ENSP00000395252:R281H	A|R	+|+	1|2	0|0	CHD3|CHD3	7754947|7754947	0.705000|0.705000	0.27846|0.27846	1.000000|1.000000	0.80357|0.80357	0.939000|0.939000	0.58152|0.58152	2.108000|2.108000	0.41854|0.41854	1.358000|1.358000	0.45922|0.45922	0.604000|0.604000	0.83254|0.83254	GCA|CGC		0.627	CHD3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318050.1	NM_001005273		A	7814222	G	A	7814222	3	1	664	1	0	0	0	0	1	0	0	0	3328	1087	38	1	6247	1	CHD3	17	7814222	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	235959	7814222	73380988	827	42137										
PER1	5187	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr17	8044491	8044491	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagcttgaagccttggccccGccttgggcctcctcgcagcc	12	17	0	1	rs199916672	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:8044491G>A	ENST00000317276.4	-	23	4005	c.3768C>T	c.(3766-3768)ggC>ggT	p.G1256G	PER1_ENST00000581082.1_Silent_p.G1233G|PER1_ENST00000578089.1_5'Flank	NM_002616.2	NP_002607.2	O15534	PER1_HUMAN	period circadian clock 1	1256	CRY binding domain. {ECO:0000250}.				circadian regulation of gene expression (GO:0032922)|circadian regulation of translation (GO:0097167)|circadian rhythm (GO:0007623)|entrainment of circadian clock (GO:0009649)|entrainment of circadian clock by photoperiod (GO:0043153)|histone H3 acetylation (GO:0043966)|histone H3 deacetylation (GO:0070932)|histone H4 acetylation (GO:0043967)|negative regulation of glucocorticoid receptor signaling pathway (GO:2000323)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of JNK cascade (GO:0046329)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|posttranscriptional regulation of gene expression (GO:0010608)|regulation of circadian rhythm (GO:0042752)|regulation of cytokine production involved in inflammatory response (GO:1900015)|regulation of hair cycle (GO:0042634)|regulation of p38MAPK cascade (GO:1900744)|regulation of sodium ion transport (GO:0002028)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	chromatin DNA binding (GO:0031490)|E-box binding (GO:0070888)|kinase binding (GO:0019900)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|signal transducer activity (GO:0004871)|transcription factor binding transcription factor activity (GO:0000989)|ubiquitin protein ligase binding (GO:0031625)			breast(4)|central_nervous_system(1)|endometrium(2)|kidney(7)|large_intestine(3)|lung(15)|ovary(4)|pancreas(1)|prostate(5)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	47						CCTTGGCCCCGCCTTGGGCCT	0.637			T	ETV6	"AML, CMML"			Other conserved DNA damage response genes					G|||	3	0.000599042	0.0	0.0	5008	,	,		18924	0.0		0.0	False		,,,				2504	0.0031						Dom	yes		17	17p13.1-17p12	5187	period homolog 1 (Drosophila)		L	0								G		0,4406		0,0,2203	156	168	164		3768	0.2	0	17		164	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	PER1	NM_002616.2		0,1,6502	AA,AG,GG		0.0116,0.0,0.0077		1256/1291	8044491	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	5187			AB002107	CCDS11131.1	17p13.1	2012-12-13	2012-12-13			ENSG00000179094			8845	protein-coding gene	gene with protein product		602260	"period (Drosophila) homolog 1", "period homolog 1 (Drosophila)"	PER		9323128	Standard	NM_002616		Approved	RIGUI	uc002gkd.3	O15534		ENST00000317276.4:c.3768C>T	17.37:g.8044491G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RPA8|B4DI49|D3DTR3	Silent	SNP	ENST00000317276.4	37	CCDS11131.1																																																																																				0.637	PER1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441481.2			A	8044491	G	A	8044491	2	1	664	1	0	0	0	0	0	0	0	1	11736	1074	38	1		1	PER1	17	8044491	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	230269	8044491	73150719	828	42138										
MYH13	8735	ucsc.edu;mdanderson.org	37	chr17	10267836	10267836	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaaaaatggccatttctgcGtcagagctcatgactgcaga	9	11	3	3	rs34042358	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:10267836G>A	ENST00000418404.3	-	2	175	c.12C>T	c.(10-12)gaC>gaT	p.D4D	MYH13_ENST00000252172.4_Silent_p.D4D			Q9UKX3	MYH13_HUMAN	myosin, heavy chain 13, skeletal muscle	4					cellular response to starvation (GO:0009267)|metabolic process (GO:0008152)|muscle contraction (GO:0006936)	extracellular vesicular exosome (GO:0070062)|muscle myosin complex (GO:0005859)|myofibril (GO:0030016)|myosin filament (GO:0032982)	ATP binding (GO:0005524)|microfilament motor activity (GO:0000146)			breast(3)|cervix(2)|endometrium(11)|kidney(7)|large_intestine(21)|lung(48)|ovary(7)|skin(2)|upper_aerodigestive_tract(5)|urinary_tract(2)	108						CCATTTCTGCGTCAGAGCTCA	0.527																																																0													49	46	47					17																	10267836		1937	4152	6089	SO:0001819	synonymous_variant	8735			AF075248	CCDS45613.1	17p13	2011-09-27	2006-09-29			ENSG00000006788		"Myosins / Myosin superfamily : Class II"	7571	protein-coding gene	gene with protein product	"extraocular muscle myosin heavy chain", "extraocular myosin heavy chain"	603487	"myosin, heavy polypeptide 13, skeletal muscle"			9806854	Standard	NM_003802		Approved	MyHC-eo	uc002gmk.1	Q9UKX3		ENST00000418404.3:c.12C>T	17.37:g.10267836G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O95252|Q9P0U8	Silent	SNP	ENST00000418404.3	37	CCDS45613.1																																																																																				0.527	MYH13-003	KNOWN	alternative_3_UTR|alternative_5_UTR|NMD_exception|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000442255.1	NM_003802		A	10267836	G	A	10267836	2	1	664	1	0	0	0	0	0	0	0	1	10039	1136	40	1		1	MYH13	17	10267836	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2223345	10267836	70927374	829	42139										
ELAC2	60528	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	12896262	12896262	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cccgcacctgccgcagctccCgcttctccctgcgctcctcc	7	24	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:12896262C>T	ENST00000338034.4	-	24	2593	c.2354G>A	c.(2353-2355)cGg>cAg	p.R785Q	ELAC2_ENST00000395962.2_Missense_Mutation_p.R766Q|ELAC2_ENST00000426905.3_Missense_Mutation_p.R745Q|RP11-597M12.1_ENST00000582915.1_RNA	NM_018127.6|NM_173717.1	NP_060597.4|NP_776065.1	Q9BQ52	RNZ2_HUMAN	elaC ribonuclease Z 2	785					mitochondrial tRNA 3'-trailer cleavage, endonucleolytic (GO:0072684)	mitochondrion (GO:0005739)|nucleus (GO:0005634)	endonuclease activity (GO:0004519)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(4)|kidney(2)|large_intestine(4)|lung(8)|skin(1)	23						CCGCAGCTCCCGCTTCTCCCT	0.647																																																0													53	56	55					17																	12896262		2203	4300	6503	SO:0001583	missense	60528			AF304370	CCDS11164.1, CCDS54093.1	17p11.2	2013-05-24	2013-05-24		ENSG00000006744	ENSG00000006744	3.1.26.11		14198	protein-coding gene	gene with protein product	"tRNase Z (long form)"	605367	"elaC (E. coli) homolog 2", "elaC homolog 2 (E. coli)"			10986046, 16636667, 21559454	Standard	NM_018127		Approved	FLJ10530, HPC2	uc010vvr.2	Q9BQ52	OTTHUMG00000058764	ENST00000338034.4:c.2354G>A	17.37:g.12896262C>T	ENSP00000337445:p.Arg785Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DPL9|Q6IA94|Q9HAS8|Q9HAS9|Q9NVT1	Missense_Mutation	SNP	ENST00000338034.4	37	CCDS11164.1	.	.	.	.	.	.	.	.	.	.	C	19.64	3.865682	0.71949	.	.	ENSG00000006744	ENST00000426905;ENST00000338034;ENST00000395962	T;T;T	0.69040	0.15;-0.33;-0.37	5.53	5.53	0.82687	.	0.000000	0.85682	D	0.000000	D	0.82337	0.5015	M	0.79011	2.435	0.80722	D	1	D;D;D;D;D;D;D;D	0.89917	0.999;1.0;1.0;1.0;1.0;0.999;1.0;1.0	D;D;D;D;D;D;D;D	0.83275	0.978;0.992;0.996;0.992;0.992;0.978;0.992;0.996	D	0.83997	0.0341	10	0.66056	D	0.02	-33.6924	16.9478	0.86235	0.0:1.0:0.0:0.0	.	745;768;766;583;785;545;770;413	B4DPL9;E9PGJ0;G5E9D5;E7ES68;Q9BQ52;B3KSU9;B4DT15;Q9BQ52-3	.;.;.;.;RNZ2_HUMAN;.;.;.	Q	745;785;766	ENSP00000405223:R745Q;ENSP00000337445:R785Q;ENSP00000379291:R766Q	ENSP00000337445:R785Q	R	-	2	0	ELAC2	12836987	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.133000	0.77259	2.593000	0.87608	0.655000	0.94253	CGG		0.647	ELAC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000129934.5			T	12896262	C	T	12896262	3	4	664	1	0	0	0	0	1	0	0	0	5049	652	23	1	130	1	ELAC2	17	12896262	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2628426	12896262	68298948	830	42140										
MED9	55090	ucsc.edu	37	chr17	17380564	17380564	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcctttttacctttggttcAcaacatcatcaaatggtaag	5	10	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:17380564A>G	ENST00000268711.3	+	1	265	c.209A>G	c.(208-210)cAc>cGc	p.H70R	MED9_ENST00000580462.1_Missense_Mutation_p.H70R|MED9_ENST00000585041.1_3'UTR	NM_018019.2	NP_060489.1	Q9NWA0	MED9_HUMAN	mediator complex subunit 9	70						mediator complex (GO:0016592)	RNA polymerase II transcription cofactor activity (GO:0001104)			cervix(1)|endometrium(1)|large_intestine(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	7						CCTTTGGTTCACAACATCATC	0.597																																																0													34	34	34					17																	17380564		2203	4300	6503	SO:0001583	missense	55090			BC000647	CCDS11184.1	17p11.2	2007-07-30	2007-07-30		ENSG00000141026	ENSG00000141026			25487	protein-coding gene	gene with protein product		609878	"mediator of RNA polymerase II transcription, subunit 9 homolog (S. cerevisiae)"			11997338	Standard	NM_018019		Approved	FLJ10193, MED25	uc002grh.1	Q9NWA0	OTTHUMG00000059293	ENST00000268711.3:c.209A>G	17.37:g.17380564A>G	ENSP00000268711:p.His70Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000268711.3	37	CCDS11184.1	.	.	.	.	.	.	.	.	.	.	A	22.8	4.338659	0.81911	.	.	ENSG00000141026	ENST00000268711	.	.	.	5.74	5.74	0.90152	.	0.000000	0.85682	D	0.000000	T	0.70971	0.3285	L	0.59912	1.85	0.44439	D	0.997367	D	0.62365	0.991	D	0.78314	0.991	T	0.71609	-0.4541	9	0.48119	T	0.1	-36.0499	12.4145	0.55486	1.0:0.0:0.0:0.0	.	70	Q9NWA0	MED9_HUMAN	R	70	.	ENSP00000268711:H70R	H	+	2	0	MED9	17321289	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	4.540000	0.60664	2.182000	0.69389	0.482000	0.46254	CAC		0.597	MED9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131669.2	NM_018019		G	17380564	A	G	17380564	3	3	664	1	0	0	0	0	1	0	0	0	9461	159	6	3	211	3	MED9	17	17380564	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	4484302	17380564	63814646	831	42141										
MYO15A	51168	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	18052173	18052173	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctacgtgttagacctggtgtCggacctggagctgctcaggg	15	10	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:18052173C>T	ENST00000205890.5	+	33	7201	c.6863C>T	c.(6862-6864)tCg>tTg	p.S2288L	snoU13_ENST00000459354.1_RNA	NM_016239.3	NP_057323.3	Q9UKN7	MYO15_HUMAN	myosin XVA	2288	Tail.				inner ear morphogenesis (GO:0042472)|locomotory behavior (GO:0007626)|sensory perception of sound (GO:0007605)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|myosin complex (GO:0016459)|stereocilium (GO:0032420)	ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(5)|central_nervous_system(2)|endometrium(17)|kidney(3)|large_intestine(16)|lung(27)|ovary(3)|pancreas(1)|prostate(6)|skin(13)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	99	all_neural(463;0.228)					GACCTGGTGTCGGACCTGGAG	0.627																																																0													24	27	26					17																	18052173		2055	4201	6256	SO:0001583	missense	51168			AF144094	CCDS42271.1	17p11.2	2011-09-27			ENSG00000091536	ENSG00000091536		"Myosins / Myosin superfamily : Class XV"	7594	protein-coding gene	gene with protein product		602666		DFNB3, MYO15		9603736	Standard	NM_016239		Approved		uc021trl.1	Q9UKN7	OTTHUMG00000059390	ENST00000205890.5:c.6863C>T	17.37:g.18052173C>T	ENSP00000205890:p.Ser2288Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFC7	Missense_Mutation	SNP	ENST00000205890.5	37	CCDS42271.1	.	.	.	.	.	.	.	.	.	.	c	17.57	3.421513	0.62622	.	.	ENSG00000091536	ENST00000205890	D	0.89810	-2.57	4.48	4.48	0.54585	.	.	.	.	.	D	0.89252	0.6662	M	0.76002	2.32	0.80722	D	1	D	0.58970	0.984	P	0.45538	0.484	D	0.90609	0.4550	9	0.66056	D	0.02	.	13.1395	0.59426	0.0:0.8391:0.1609:0.0	.	2288	Q9UKN7	MYO15_HUMAN	L	2288	ENSP00000205890:S2288L	ENSP00000205890:S2288L	S	+	2	0	MYO15A	17992898	1.000000	0.71417	0.984000	0.44739	0.907000	0.53573	5.725000	0.68507	2.322000	0.78497	0.450000	0.29827	TCG		0.627	MYO15A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132048.1	NM_016239		T	18052173	C	T	18052173	3	4	664	1	0	0	0	0	1	0	0	0	10070	893	31	1	6985	1	MYO15A	17	18052173	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	671609	18052173	63143037	832	42142										
SLC5A10	125206	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr17	18923133	18923133	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagccagacacgcggccagcCgtcctggggagcatccacta	13	15	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:18923133C>T	ENST00000395645.3	+	13	1536	c.1518C>T	c.(1516-1518)gcC>gcT	p.A506A	SLC5A10_ENST00000395642.1_Silent_p.A476A|SLC5A10_ENST00000417251.2_Silent_p.A470A|SLC5A10_ENST00000317977.6_Silent_p.A476A|SLC5A10_ENST00000395643.2_Silent_p.A479A|SLC5A10_ENST00000395647.2_Silent_p.A522A	NM_001042450.2	NP_001035915.1	A0PJK1	SC5AA_HUMAN	solute carrier family 5 (sodium/sugar cotransporter), member 10	506					sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(3)|ovary(3)|prostate(3)|skin(3)	24						CGCGGCCAGCCGTCCTGGGGA	0.657																																																0													47	44	45					17																	18923133		2203	4299	6502	SO:0001819	synonymous_variant	125206				CCDS11201.2, CCDS42275.1, CCDS59277.1, CCDS59278.1, CCDS74008.1	17p11.2	2013-07-19	2013-07-19		ENSG00000154025	ENSG00000154025		"Solute carriers"	23155	protein-coding gene	gene with protein product			"solute carrier family 5 (sodium/glucose cotransporter), member 10"				Standard	NM_152351		Approved	SGLT5	uc002gut.2	A0PJK1	OTTHUMG00000178143	ENST00000395645.3:c.1518C>T	17.37:g.18923133C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MUC9|B4DPI0|B7WPR4|Q6P5X0|Q8IXM4|Q96LQ1	Silent	SNP	ENST00000395645.3	37	CCDS42275.1																																																																																				0.657	SLC5A10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132129.2	NM_152351		T	18923133	C	T	18923133	2	4	664	1	0	0	0	0	0	0	0	1	14675	639	23	1		1	SLC5A10	17	18923133	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	870960	18923133	62272077	833	42143										
MYO18A	399687	broad.mit.edu	37	chr17	27423863	27423863	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttgcagctcagccgtcagtCgctggcacttcttcttgagc	10	14	4	1	rs375872794		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:27423863C>T	ENST00000527372.1	-	28	4481	c.4301G>A	c.(4300-4302)cGa>cAa	p.R1434Q	MYO18A_ENST00000354329.4_Missense_Mutation_p.R1434Q|MYO18A_ENST00000533112.1_Missense_Mutation_p.R1434Q|MYO18A_ENST00000531253.1_Missense_Mutation_p.R1434Q	NM_078471.3	NP_510880.2	Q92614	MY18A_HUMAN	myosin XVIIIA	1434					actomyosin structure organization (GO:0031032)|cell migration (GO:0016477)|DNA metabolic process (GO:0006259)|Golgi organization (GO:0007030)|Golgi vesicle budding (GO:0048194)|negative regulation of apoptotic process (GO:0043066)|positive regulation of protein secretion (GO:0050714)	actomyosin (GO:0042641)|Golgi membrane (GO:0000139)|membrane (GO:0016020)|myosin complex (GO:0016459)|trans-Golgi network (GO:0005802)	actin filament binding (GO:0051015)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|DNA binding (GO:0003677)|motor activity (GO:0003774)|poly(A) RNA binding (GO:0044822)			NS(1)|cervix(1)|endometrium(6)|kidney(6)|lung(20)|urinary_tract(2)	36			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			AGCCGTCAGTCGCTGGCACTT	0.617																																					Esophageal Squamous(182;472 2015 7001 15270 22562)											0								C	GLN/ARG,GLN/ARG	1,4255		0,1,2127	28	31	30		4301,4301	5.5	1	17		30	0,8536		0,0,4268	no	missense,missense	MYO18A	NM_078471.3,NM_203318.1	43,43	0,1,6395	TT,TC,CC		0.0,0.0235,0.0078	probably-damaging,probably-damaging	1434/2055,1434/2040	27423863	1,12791	2128	4268	6396	SO:0001583	missense	399687			D86970	CCDS45641.1, CCDS45642.1	17q11.2	2011-09-27			ENSG00000196535	ENSG00000196535		"Myosins / Myosin superfamily : Class XVIII"	31104	protein-coding gene	gene with protein product		610067				12761286	Standard	NM_078471		Approved	KIAA0216, MysPDZ	uc002hdt.1	Q92614	OTTHUMG00000166360	ENST00000527372.1:c.4301G>A	17.37:g.27423863C>T	ENSP00000437073:p.Arg1434Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q5H9U3|Q5W9F9|Q5W9G1|Q8IXP8	Missense_Mutation	SNP	ENST00000527372.1	37	CCDS45642.1	.	.	.	.	.	.	.	.	.	.	C	34	5.306160	0.95629	2.35E-4	0.0	ENSG00000196535	ENST00000354329;ENST00000359450;ENST00000533112;ENST00000531253;ENST00000527372;ENST00000529799;ENST00000540575;ENST00000458428	D;T;D;D	0.83250	-1.7;1.57;-1.7;-1.7	5.53	5.53	0.82687	Myosin tail (1);	0.105696	0.64402	D	0.000013	D	0.90079	0.6901	M	0.77820	2.39	0.33459	D	0.584714	D;D;D;D;D	0.65815	0.99;0.975;0.975;0.975;0.995	P;P;P;P;P	0.58210	0.593;0.482;0.482;0.482;0.835	D	0.93109	0.6515	10	0.72032	D	0.01	.	19.4519	0.94871	0.0:1.0:0.0:0.0	.	1103;1046;1434;1434;1434	Q92614-2;F8W6Y3;Q92614-3;Q92614-4;Q92614	.;.;.;.;MY18A_HUMAN	Q	1434;1434;1434;1434;1434;330;330;1046	ENSP00000346291:R1434Q;ENSP00000435932:R1434Q;ENSP00000434228:R1434Q;ENSP00000437073:R1434Q	ENSP00000346291:R1434Q	R	-	2	0	MYO18A	24447989	0.977000	0.34250	0.999000	0.59377	0.922000	0.55478	2.369000	0.44231	2.606000	0.88127	0.591000	0.81541	CGA		0.617	MYO18A-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000389396.1	NM_078471		T	27423863	C	T	27423863	3	4	664	1	0	0	0	0	1	0	0	0	10072	884	31	1	1923	1	MYO18A	17	27423863	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	8500730	27423863	53771347	834	42144										
GIT1	28964	broad.mit.edu	37	chr17	27901911	27901911	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagcagccgcagtgagctccGcactggctccagggctggcc	15	15	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:27901911G>A	ENST00000225394.3	-	20	2343	c.2095C>T	c.(2095-2097)Cgg>Tgg	p.R699W	GIT1_ENST00000394869.3_Missense_Mutation_p.R708W|GIT1_ENST00000579937.1_3'UTR|GIT1_ENST00000581348.1_Missense_Mutation_p.R685W|RP11-68I3.2_ENST00000581474.1_RNA	NM_014030.3	NP_054749.2	Q9Y2X7	GIT1_HUMAN	G protein-coupled receptor kinase interacting ArfGAP 1	699	Interaction with PXN and TGFB1I1. {ECO:0000250}.				regulation of ARF GTPase activity (GO:0032312)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)	aggresome (GO:0016235)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|membrane (GO:0016020)	ARF GTPase activator activity (GO:0008060)|zinc ion binding (GO:0008270)			large_intestine(2)|lung(3)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	9				READ - Rectum adenocarcinoma(3;0.0419)|Colorectal(3;0.069)		AGTGAGCTCCGCACTGGCTCC	0.657																																					Colon(81;41 1719 20078 35068)											0													9	10	10					17																	27901911		2177	4255	6432	SO:0001583	missense	28964			AF124490	CCDS11250.1, CCDS42290.1	17p11.2	2013-01-10	2008-09-05		ENSG00000108262	ENSG00000108262		"ADP-ribosylation factor GTPase activating proteins", "Ankyrin repeat domain containing"	4272	protein-coding gene	gene with protein product		608434	"G protein-coupled receptor kinase interactor 1"			9826657, 10896954	Standard	NM_014030		Approved		uc002heg.2	Q9Y2X7	OTTHUMG00000132730	ENST00000225394.3:c.2095C>T	17.37:g.27901911G>A	ENSP00000225394:p.Arg699Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DGU9|B4DSV3|Q86SS0|Q9BRJ4	Missense_Mutation	SNP	ENST00000225394.3	37	CCDS11250.1	.	.	.	.	.	.	.	.	.	.	G	19.71	3.879048	0.72294	.	.	ENSG00000108262	ENST00000225394;ENST00000394869	T;T	0.75938	-0.92;-0.98	4.65	4.65	0.58169	G protein-coupled receptor kinase-interacting protein 1 C term (1);	0.063541	0.64402	D	0.000005	D	0.87676	0.6237	M	0.85197	2.74	0.80722	D	1	D;D;D	0.89917	1.0;1.0;0.999	D;D;D	0.87578	0.998;0.998;0.994	D	0.89738	0.3931	10	0.87932	D	0	.	17.7096	0.88318	0.0:0.0:1.0:0.0	.	712;708;699	Q59FC3;B4DGU9;Q9Y2X7	.;.;GIT1_HUMAN	W	699;708	ENSP00000225394:R699W;ENSP00000378338:R708W	ENSP00000225394:R699W	R	-	1	2	GIT1	24926037	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	2.645000	0.46621	2.574000	0.86865	0.655000	0.94253	CGG		0.657	GIT1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256073.1	NM_014030		A	27901911	G	A	27901911	3	1	664	1	0	0	0	0	1	0	0	0	6403	1086	38	1	194	1	GIT1	17	27901911	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	478048	27901911	53293299	835	42145										
NF1	4763	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	29653046	29653046	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccgcagtctatatctataacTgtaactcctgggtcagggag	10	10	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:29653046T>C	ENST00000358273.4	+	37	5427	c.5044T>C	c.(5044-5046)Tgt>Cgt	p.C1682R	NF1_ENST00000581113.2_3'UTR|NF1_ENST00000356175.3_Missense_Mutation_p.C1661R	NM_001042492.2	NP_001035957.1	P21359	NF1_HUMAN	neurofibromin 1	1682	CRAL-TRIO. {ECO:0000255|PROSITE- ProRule:PRU00056}.|Lipid binding.				actin cytoskeleton organization (GO:0030036)|adrenal gland development (GO:0030325)|artery morphogenesis (GO:0048844)|brain development (GO:0007420)|camera-type eye morphogenesis (GO:0048593)|cell communication (GO:0007154)|cerebral cortex development (GO:0021987)|cognition (GO:0050890)|collagen fibril organization (GO:0030199)|extracellular matrix organization (GO:0030198)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|forebrain astrocyte development (GO:0021897)|forebrain morphogenesis (GO:0048853)|heart development (GO:0007507)|liver development (GO:0001889)|MAPK cascade (GO:0000165)|metanephros development (GO:0001656)|myelination in peripheral nervous system (GO:0022011)|negative regulation of angiogenesis (GO:0016525)|negative regulation of astrocyte differentiation (GO:0048712)|negative regulation of cell migration (GO:0030336)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of endothelial cell proliferation (GO:0001937)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of MAPK cascade (GO:0043409)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of neurotransmitter secretion (GO:0046929)|negative regulation of oligodendrocyte differentiation (GO:0048715)|negative regulation of osteoclast differentiation (GO:0045671)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of Rac protein signal transduction (GO:0035021)|negative regulation of Ras protein signal transduction (GO:0046580)|negative regulation of transcription factor import into nucleus (GO:0042992)|neural tube development (GO:0021915)|osteoblast differentiation (GO:0001649)|peripheral nervous system development (GO:0007422)|phosphatidylinositol 3-kinase signaling (GO:0014065)|pigmentation (GO:0043473)|positive regulation of adenylate cyclase activity (GO:0045762)|positive regulation of apoptotic process (GO:0043065)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001241)|positive regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902043)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of Ras GTPase activity (GO:0032320)|Ras protein signal transduction (GO:0007265)|regulation of angiogenesis (GO:0045765)|regulation of blood vessel endothelial cell migration (GO:0043535)|regulation of bone resorption (GO:0045124)|regulation of cell-matrix adhesion (GO:0001952)|regulation of glial cell differentiation (GO:0045685)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of Ras GTPase activity (GO:0032318)|regulation of synaptic transmission, GABAergic (GO:0032228)|response to hypoxia (GO:0001666)|Schwann cell development (GO:0014044)|skeletal muscle tissue development (GO:0007519)|smooth muscle tissue development (GO:0048745)|spinal cord development (GO:0021510)|sympathetic nervous system development (GO:0048485)|visual learning (GO:0008542)|wound healing (GO:0042060)	axon (GO:0030424)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)|membrane (GO:0016020)|nucleus (GO:0005634)	phosphatidylcholine binding (GO:0031210)|phosphatidylethanolamine binding (GO:0008429)|Ras GTPase activator activity (GO:0005099)	p.0?(8)|p.?(3)	NF1/ACCN1(2)	autonomic_ganglia(12)|breast(11)|central_nervous_system(72)|cervix(6)|endometrium(12)|haematopoietic_and_lymphoid_tissue(59)|kidney(9)|large_intestine(39)|liver(1)|lung(80)|ovary(20)|pancreas(2)|prostate(2)|skin(8)|soft_tissue(249)|stomach(2)|thyroid(1)|upper_aerodigestive_tract(5)|urinary_tract(9)	599		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)		TATCTATAACTGTAACTCCTG	0.463			"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)																												yes	Rec	yes	Neurofibromatosis type 1	17	17q12	4763	neurofibromatosis type 1 gene		O	11	Whole gene deletion(8)|Unknown(3)	soft_tissue(7)|autonomic_ganglia(2)|lung(1)|central_nervous_system(1)											104	99	101					17																	29653046		2203	4300	6503	SO:0001583	missense	4763	Familial Cancer Database	NF1, von Recklinghausen disease, incl.: Hereditary Spinal Neurofibromatosis, Neurofibromatosis-Noonan syndrome		CCDS11264.1, CCDS42292.1, CCDS45645.1	17q11.2	2014-09-17	2008-07-31		ENSG00000196712	ENSG00000196712			7765	protein-coding gene	gene with protein product	"neurofibromatosis", "von Recklinghausen disease", "Watson disease"	613113				1715669	Standard	NM_000267		Approved		uc002hgg.3	P21359	OTTHUMG00000132871	ENST00000358273.4:c.5044T>C	17.37:g.29653046T>C	ENSP00000351015:p.Cys1682Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O00662|Q14284|Q14930|Q14931|Q9UMK3	Missense_Mutation	SNP	ENST00000358273.4	37	CCDS42292.1	.	.	.	.	.	.	.	.	.	.	T	24.1	4.495195	0.85069	.	.	ENSG00000196712	ENST00000358273;ENST00000356175;ENST00000456735	T;T;T	0.62498	0.02;0.02;0.02	5.63	5.63	0.86233	Cellular retinaldehyde-binding/triple function, C-terminal (2);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.80071	0.4556	M	0.80028	2.48	0.80722	D	1	D;D;D	0.89917	1.0;0.999;1.0	D;D;D	0.87578	0.996;0.998;0.99	T	0.82862	-0.0247	10	0.72032	D	0.01	.	15.0195	0.71617	0.0:0.0:0.0:1.0	.	711;1661;1682	Q59FX3;P21359-2;P21359	.;.;NF1_HUMAN	R	1682;1661;1327	ENSP00000351015:C1682R;ENSP00000348498:C1661R;ENSP00000389907:C1327R	ENSP00000348498:C1661R	C	+	1	0	NF1	26677172	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.665000	0.83852	2.156000	0.67533	0.528000	0.53228	TGT		0.463	NF1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256351.2	NM_000267		C	29653046	T	C	29653046	3	2	664	1	0	0	0	0	1	0	0	0	10363	1580	55	3	5251	3	NF1	17	29653046	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1751135	29653046	51542164	836	42146										
GPR179	440435	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr17	36499408	36499408	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	taggcttggggggagccctgGcatggctcctgccccacgcg	16	14	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:36499408G>A	ENST00000342292.4	-	1	285	c.265C>T	c.(265-267)Cca>Tca	p.P89S		NM_001004334.2	NP_001004334.2	Q6PRD1	GP179_HUMAN	G protein-coupled receptor 179	89					visual perception (GO:0007601)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			breast(4)|cervix(2)|endometrium(9)|kidney(3)|large_intestine(16)|lung(15)|ovary(4)|pancreas(1)|prostate(1)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	60	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				GGGAGCCCTGGCATGGCTCCT	0.627																																																0													26	27	27					17																	36499408		1973	4131	6104	SO:0001583	missense	440435				CCDS42308.1	17q21.1	2014-05-06	2006-02-16	2006-02-16	ENSG00000188888	ENSG00000277399		"GPCR / Class C : Orphans"	31371	protein-coding gene	gene with protein product		614515	"GPR158-like 1", "GPR179"	GPR158L1			Standard	NM_001004334		Approved	CSNB1E	uc002hpz.3	Q6PRD1	OTTHUMG00000188545	ENST00000342292.4:c.265C>T	17.37:g.36499408G>A	ENSP00000345060:p.Pro89Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000342292.4	37	CCDS42308.1	.	.	.	.	.	.	.	.	.	.	G	2.305	-0.359368	0.05138	.	.	ENSG00000188888	ENST00000342292	T	0.77877	-1.13	5.32	-6.93	0.01638	.	1.079380	0.07091	N	0.838662	T	0.61211	0.2329	L	0.28694	0.88	0.09310	N	1	P	0.35077	0.483	B	0.30943	0.122	T	0.53823	-0.8384	10	0.44086	T	0.13	0.5925	11.1639	0.48531	0.3154:0.5573:0.1273:0.0	.	89	Q6PRD1	GP179_HUMAN	S	89	ENSP00000345060:P89S	ENSP00000345060:P89S	P	-	1	0	GPR179	33752934	0.000000	0.05858	0.003000	0.11579	0.003000	0.03518	-0.709000	0.05030	-1.063000	0.03177	-0.768000	0.03414	CCA		0.627	GPR179-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255329.2			A	36499408	G	A	36499408	3	1	664	1	0	0	0	0	1	0	0	0	6681	1203	42	2	6882	2	GPR179	17	36499408	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6846362	36499408	44695802	837	42147										
SOCS7	30837	broad.mit.edu	37	chr17	36521270	36521270	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagtctttccccctacctccGcctcctccaccccatgcccc	3	25	1	0	rs149190855		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:36521270G>A	ENST00000577233.1	+	4	1038	c.1038G>A	c.(1036-1038)ccG>ccA	p.P346P	SOCS7_ENST00000331159.5_Intron	NM_014598.2	NP_055413.1	O14512	SOCS7_HUMAN	suppressor of cytokine signaling 7	346	Mediates interaction with SORBS3.|Poly-Pro.				fat cell differentiation (GO:0045444)|insulin receptor signaling pathway (GO:0008286)|intracellular signal transduction (GO:0035556)|negative regulation of signal transduction (GO:0009968)|protein ubiquitination (GO:0016567)|regulation of growth (GO:0040008)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	SH3 domain binding (GO:0017124)			central_nervous_system(1)|endometrium(1)|kidney(1)|prostate(1)|skin(5)	9	Breast(7;3.47e-17)					CCCTACCTCCGCCTCCTCCAC	0.498																																																0								G		0,4406		0,0,2203	87	81	83		1038	2.5	1	17	dbSNP_134	83	3,8597	3.0+/-9.4	0,3,4297	no	coding-synonymous	SOCS7	NM_014598.2		0,3,6500	AA,AG,GG		0.0349,0.0,0.0231		346/582	36521270	3,13003	2203	4300	6503	SO:0001819	synonymous_variant	30837			AB005216	CCDS32637.1	17q12	2014-08-12			ENSG00000274211	ENSG00000274211		"Suppressors of cytokine signaling", "SH2 domain containing"	29846	protein-coding gene	gene with protein product	"Nck, Ash and phospholipase C binding protein", "NCK-associated protein 4"	608788				9344857, 12076535	Standard	XM_005257264		Approved	NAP4, NCKAP4	uc002hqa.3	O14512	OTTHUMG00000188546	ENST00000577233.1:c.1038G>A	17.37:g.36521270G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2VCU2|Q0IJ63	Silent	SNP	ENST00000577233.1	37	CCDS32637.1																																																																																				0.498	SOCS7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440486.4	XM_371052		A	36521270	G	A	36521270	2	1	664	1	0	0	0	0	0	0	0	1	14932	1074	38	1		1	SOCS7	17	36521270	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	21862	36521270	44673940	838	42148										
GRB7	2886	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	37900401	37900401	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caggacggaagctttggaaaCgctttttctgcttcttgcgc	11	10	2	0	rs373836261		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:37900401C>T	ENST00000309156.4	+	7	999	c.742C>T	c.(742-744)Cgc>Tgc	p.R248C	GRB7_ENST00000394204.1_Missense_Mutation_p.R248C|GRB7_ENST00000309185.3_Missense_Mutation_p.R248C|GRB7_ENST00000445327.2_Missense_Mutation_p.R271C|GRB7_ENST00000394209.2_Missense_Mutation_p.R248C|GRB7_ENST00000394211.3_Missense_Mutation_p.R248C	NM_005310.3	NP_005301.2	Q14451	GRB7_HUMAN	growth factor receptor-bound protein 7	248	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				blood coagulation (GO:0007596)|epidermal growth factor receptor signaling pathway (GO:0007173)|leukocyte migration (GO:0050900)|negative regulation of translation (GO:0017148)|positive regulation of cell migration (GO:0030335)|positive regulation of signal transduction (GO:0009967)|stress granule assembly (GO:0034063)	cell projection (GO:0042995)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|plasma membrane (GO:0005886)	identical protein binding (GO:0042802)|phosphatidylinositol binding (GO:0035091)|protein kinase binding (GO:0019901)|RNA binding (GO:0003723)|SH3/SH2 adaptor activity (GO:0005070)			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	18	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;6.86e-60)|all cancers(3;1.65e-53)|BRCA - Breast invasive adenocarcinoma(8;2.03e-43)|STAD - Stomach adenocarcinoma(3;1.43e-12)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			GCTTTGGAAACGCTTTTTCTG	0.567													C|||	1	0.000199681	0.0008	0.0	5008	,	,		17930	0.0		0.0	False		,,,				2504	0.0															0								C	CYS/ARG,CYS/ARG,CYS/ARG,CYS/ARG	0,4406		0,0,2203	173	173	173		742,811,742,742	5.5	1	17		173	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,missense,missense	GRB7	NM_001030002.2,NM_001242442.1,NM_001242443.1,NM_005310.3	180,180,180,180	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging,probably-damaging,probably-damaging,probably-damaging	248/533,271/556,248/533,248/533	37900401	1,13005	2203	4300	6503	SO:0001583	missense	2886			D43772	CCDS11345.1, CCDS56028.1	17q12	2013-02-14			ENSG00000141738	ENSG00000141738		"Pleckstrin homology (PH) domain containing", "SH2 domain containing"	4567	protein-coding gene	gene with protein product		601522					Standard	NM_005310		Approved		uc021twu.1	Q14451	OTTHUMG00000133253	ENST00000309156.4:c.742C>T	17.37:g.37900401C>T	ENSP00000310771:p.Arg248Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAV1|B3KNL0|B3KWP9|B7WP75|J3KQM4|Q53YD3|Q92568|Q96DF9|Q9Y220	Missense_Mutation	SNP	ENST00000309156.4	37	CCDS11345.1	.	.	.	.	.	.	.	.	.	.	C	22.7	4.328103	0.81690	0.0	1.16E-4	ENSG00000141738	ENST00000309185;ENST00000309156;ENST00000394211;ENST00000394209;ENST00000445327;ENST00000394204	T;T;T;T;T;T	0.21191	2.02;2.02;2.02;2.02;2.02;2.02	5.47	5.47	0.80525	Pleckstrin homology-type (1);Pleckstrin homology domain (3);	0.111742	0.64402	D	0.000015	T	0.39600	0.1084	L	0.46157	1.445	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.985	T	0.11397	-1.0589	10	0.87932	D	0	-28.253	13.697	0.62587	0.155:0.845:0.0:0.0	.	248;248	Q14451-2;Q14451	.;GRB7_HUMAN	C	248;248;248;248;271;248	ENSP00000311752:R248C;ENSP00000310771:R248C;ENSP00000377761:R248C;ENSP00000377759:R248C;ENSP00000403459:R271C;ENSP00000377754:R248C	ENSP00000310771:R248C	R	+	1	0	GRB7	35153927	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	3.202000	0.51067	2.571000	0.86741	0.561000	0.74099	CGC		0.567	GRB7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257024.2	NM_005310		T	37900401	C	T	37900401	3	4	664	1	0	0	0	0	1	0	0	0	6766	536	19	1	764	1	GRB7	17	37900401	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1379131	37900401	43294809	839	42149										
RAPGEFL1	51195	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	38345215	38345215	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgcagacccgggtggccttcCggggctctgatgagagtgag	17	10	1	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:38345215C>T	ENST00000456989.2	+	5	524	c.478C>T	c.(478-480)Cgg>Tgg	p.R160W	RAPGEFL1_ENST00000264644.6_Missense_Mutation_p.R105W|RAPGEFL1_ENST00000544503.1_Missense_Mutation_p.R154W|RAPGEFL1_ENST00000540388.1_3'UTR|RAPGEFL1_ENST00000436615.3_Missense_Mutation_p.R105W			Q9UHV5	RPGFL_HUMAN	Rap guanine nucleotide exchange factor (GEF)-like 1	311					G-protein coupled receptor signaling pathway (GO:0007186)|nervous system development (GO:0007399)|positive regulation of GTPase activity (GO:0043547)|small GTPase mediated signal transduction (GO:0007264)	membrane (GO:0016020)	guanyl-nucleotide exchange factor activity (GO:0005085)			breast(1)|central_nervous_system(2)|kidney(1)|large_intestine(2)|lung(5)|ovary(1)|prostate(2)|skin(1)	15						GGTGGCCTTCCGGGGCTCTGA	0.612																																					Esophageal Squamous(28;274 750 6870 14218 42203)											0													39	43	41					17																	38345215		2203	4300	6503	SO:0001583	missense	51195			AF117946	CCDS11363.1	17q21.2	2006-08-01	2004-03-26		ENSG00000108352	ENSG00000108352			17428	protein-coding gene	gene with protein product	"Link guanine nucleotide exchange factor II"		"RAP guanine-nucleotide-exchange factor (GEF)-like 1"				Standard	NM_016339		Approved	Link-GEFII	uc010cwu.1	Q9UHV5	OTTHUMG00000133325	ENST00000456989.2:c.478C>T	17.37:g.38345215C>T	ENSP00000394530:p.Arg160Trp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000456989.2	37		.	.	.	.	.	.	.	.	.	.	C	21.8	4.198133	0.79015	.	.	ENSG00000108352	ENST00000456989;ENST00000543876;ENST00000544503;ENST00000537255;ENST00000264644;ENST00000436615	T;T;T;T	0.48522	0.81;0.81;0.81;0.81	5.73	4.73	0.59995	Ras guanine nucleotide exchange factor, domain (1);	0.063189	0.64402	D	0.000014	T	0.63861	0.2547	L	0.58101	1.795	0.53688	D	0.999976	D;D	0.89917	0.999;1.0	D;D	0.87578	0.96;0.998	T	0.66803	-0.5831	10	0.87932	D	0	.	12.5738	0.56352	0.3021:0.6979:0.0:0.0	.	41;311	B4DGK9;Q9UHV5	.;RPGFL_HUMAN	W	160;105;154;105;310;105	ENSP00000394530:R160W;ENSP00000440226:R105W;ENSP00000438631:R154W;ENSP00000408322:R105W	ENSP00000264644:R310W	R	+	1	2	RAPGEFL1	35598741	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	2.343000	0.44001	1.355000	0.45865	0.655000	0.94253	CGG		0.612	RAPGEFL1-005	PUTATIVE	non_canonical_conserved|basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000397518.1	NM_016339		T	38345215	C	T	38345215	3	4	664	1	0	0	0	0	1	0	0	0	13062	643	23	1	323	1	RAPGEFL1	17	38345215	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	444814	38345215	42849995	840	42150										
RARA	5914	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr17	38512460	38512460	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agctccaacagaagcagcccGgccacccactccccgtgacc	8	20	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:38512460G>T	ENST00000254066.5	+	9	1826	c.1371G>T	c.(1369-1371)ccG>ccT	p.P457P	RARA_ENST00000425707.3_Silent_p.P360P|RARA_ENST00000394081.3_Silent_p.P452P|RARA_ENST00000420042.1_3'UTR|RARA_ENST00000394089.2_Silent_p.P457P|RARA_ENST00000394086.3_Silent_p.P473P	NM_000964.3	NP_000955.1	P10276	RARA_HUMAN	retinoic acid receptor, alpha	457					apoptotic cell clearance (GO:0043277)|cellular response to estrogen stimulus (GO:0071391)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to retinoic acid (GO:0071300)|chondroblast differentiation (GO:0060591)|embryonic camera-type eye development (GO:0031076)|face development (GO:0060324)|female pregnancy (GO:0007565)|gene expression (GO:0010467)|germ cell development (GO:0007281)|glandular epithelial cell development (GO:0002068)|growth plate cartilage development (GO:0003417)|intracellular estrogen receptor signaling pathway (GO:0030520)|limb development (GO:0060173)|liver development (GO:0001889)|multicellular organism growth (GO:0035264)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cartilage development (GO:0061037)|negative regulation of cell proliferation (GO:0008285)|negative regulation of granulocyte differentiation (GO:0030853)|negative regulation of interferon-gamma production (GO:0032689)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of translational initiation (GO:0045947)|negative regulation of tumor necrosis factor production (GO:0032720)|neural tube closure (GO:0001843)|outflow tract septum morphogenesis (GO:0003148)|positive regulation of binding (GO:0051099)|positive regulation of cell cycle (GO:0045787)|positive regulation of cell proliferation (GO:0008284)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of interleukin-13 production (GO:0032736)|positive regulation of interleukin-4 production (GO:0032753)|positive regulation of interleukin-5 production (GO:0032754)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of T-helper 2 cell differentiation (GO:0045630)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|prostate gland development (GO:0030850)|protein phosphorylation (GO:0006468)|regulation of myelination (GO:0031641)|regulation of synaptic plasticity (GO:0048167)|response to cytokine (GO:0034097)|response to estradiol (GO:0032355)|response to ethanol (GO:0045471)|response to retinoic acid (GO:0032526)|response to vitamin A (GO:0033189)|retinoic acid receptor signaling pathway (GO:0048384)|Sertoli cell fate commitment (GO:0060010)|signal transduction (GO:0007165)|spermatogenesis (GO:0007283)|trachea cartilage development (GO:0060534)|transcription initiation from RNA polymerase II promoter (GO:0006367)|ureteric bud development (GO:0001657)|ventricular cardiac muscle cell differentiation (GO:0055012)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|neuronal cell body (GO:0043025)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	chromatin DNA binding (GO:0031490)|drug binding (GO:0008144)|enzyme binding (GO:0019899)|mRNA 5'-UTR binding (GO:0048027)|phosphatidylinositol 3-kinase regulator activity (GO:0035014)|protein domain specific binding (GO:0019904)|protein heterodimerization activity (GO:0046982)|protein kinase A binding (GO:0051018)|protein kinase B binding (GO:0043422)|receptor binding (GO:0005102)|retinoic acid binding (GO:0001972)|retinoic acid receptor activity (GO:0003708)|retinoic acid-responsive element binding (GO:0044323)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|sequence-specific DNA binding transcription factor activity (GO:0003700)|steroid hormone receptor activity (GO:0003707)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)|translation repressor activity, nucleic acid binding (GO:0000900)|zinc ion binding (GO:0008270)			breast(1)|kidney(4)|large_intestine(1)|lung(6)|ovary(1)|prostate(1)|urinary_tract(2)	16		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00143)		Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Isotretinoin(DB00982)|Tamibarotene(DB04942)|Tazarotene(DB00799)	GAAGCAGCCCGGCCACCCACT	0.731			T	"PML, ZNF145, TIF1, NUMA1, NPM1"	APL																																		Dom	yes		17	17q12	5914	"retinoic acid receptor, alpha"		L	0													2	2	2					17																	38512460		1439	2883	4322	SO:0001819	synonymous_variant	5914			X06538	CCDS11366.1, CCDS42317.1, CCDS45671.1	17q21.1	2014-01-20			ENSG00000131759	ENSG00000131759		"Nuclear hormone receptors"	9864	protein-coding gene	gene with protein product		180240				2825036, 8244378	Standard	NM_001145301		Approved	RAR, NR1B1	uc002huk.2	P10276	OTTHUMG00000133328	ENST00000254066.5:c.1371G>T	17.37:g.38512460G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B8Y636|P78456|Q13440|Q13441|Q96S41|Q9NQS0	Silent	SNP	ENST00000254066.5	37	CCDS11366.1	.	.	.	.	.	.	.	.	.	.	G	10.13	1.265831	0.23136	.	.	ENSG00000131759	ENST00000319149	.	.	.	5.24	0.475	0.16774	.	1.324360	0.05783	N	0.608960	T	0.50582	0.1624	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.50600	-0.8809	6	0.72032	D	0.01	.	1.303	0.02083	0.217:0.2236:0.3994:0.1599	.	.	.	.	L	449	.	ENSP00000316769:R449L	R	+	2	0	RARA	35765986	0.183000	0.23186	0.998000	0.56505	0.986000	0.74619	-0.636000	0.05465	-0.058000	0.13177	0.561000	0.74099	CGG		0.731	RARA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257136.2			T	38512460	G	T	38512460	2	4	664	1	0	0	0	0	0	0	0	1	13065	1103	39	4		4	RARA	17	38512460	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	167245	38512460	42682750	841	42151										
TMEM99	147184	hgsc.bcm.edu;bcgsc.ca	37	chr17	38990812	38990812	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttgctccggctgtgtcccctCgctctgttgttccagctatg	10	14	1	0	rs189743949		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:38990812C>T	ENST00000301665.3	+	3	348	c.44C>T	c.(43-45)tCg>tTg	p.S15L		NM_001195386.1|NM_001195387.1|NM_145274.3	NP_001182315.1|NP_001182316.1|NP_660317.2	Q8N816	TMM99_HUMAN	transmembrane protein 99	15						integral component of membrane (GO:0016021)				cervix(1)|large_intestine(1)|lung(5)|skin(2)|urinary_tract(1)	10		Breast(137;0.000301)				TGTGTCCCCTCGCTCTGTTGT	0.552													C|||	1	0.000199681	0.0	0.0	5008	,	,		17027	0.0		0.001	False		,,,				2504	0.0															0								C	LEU/SER,LEU/SER,LEU/SER	1,4215		0,1,2107	113	109	111		44,44,44	-0.3	0	17		111	2,8456		0,2,4227	yes	missense,missense,missense	TMEM99	NM_145274.3,NM_001195387.1,NM_001195386.1	145,145,145	0,3,6334	TT,TC,CC		0.0236,0.0237,0.0237	,,	15/259,15/259,15/259	38990812	3,12671	2108	4229	6337	SO:0001583	missense	147184			AK097454	CCDS42319.1	17q21.2	2008-11-06			ENSG00000167920	ENSG00000167920			28305	protein-coding gene	gene with protein product						12477932	Standard	NM_001195386		Approved	MGC21518	uc021txc.1	Q8N816	OTTHUMG00000133579	ENST00000301665.3:c.44C>T	17.37:g.38990812C>T	ENSP00000301665:p.Ser15Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DQ34|Q96BP9	Missense_Mutation	SNP	ENST00000301665.3	37	CCDS42319.1	2	9.157509157509158E-4	0	0.0	0	0.0	0	0.0	2	0.002638522427440633	C	0.059	-1.229268	0.01518	2.37E-4	2.36E-4	ENSG00000167920	ENST00000436612;ENST00000301665	T;T	0.29142	1.58;1.58	0.131	-0.261	0.12963	.	.	.	.	.	T	0.12987	0.0315	N	0.08118	0	0.09310	N	1	.	.	.	.	.	.	T	0.22068	-1.0227	6	0.87932	D	0	.	.	.	.	.	15	Q8N816	TMM99_HUMAN	L	15	ENSP00000390036:S15L;ENSP00000301665:S15L	ENSP00000301665:S15L	S	+	2	0	TMEM99	36244338	0.010000	0.17322	0.011000	0.14972	0.011000	0.07611	-1.070000	0.03440	-1.420000	0.02009	-1.450000	0.01041	TCG		0.552	TMEM99-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257681.1	NM_145274		T	38990812	C	T	38990812	3	4	664	1	0	0	0	0	1	0	0	0	16238	893	31	1	46	1	TMEM99	17	38990812	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	478352	38990812	42204398	842	42152										
KRTAP9-9	81870	broad.mit.edu;mdanderson.org	37	chr17	39411913	39411913	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtgggtccagctgctgtggCcaaaccagctgtgggtccag	15	11	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:39411913C>T	ENST00000394008.1	+	1	278	c.276C>T	c.(274-276)ggC>ggT	p.G92G		NM_030975.2	NP_112237.2	Q9BYP9	KRA99_HUMAN	keratin associated protein 9-9	77	14 X 5 AA repeats of C-C-[RQVGE]- [SPSTNQ]-[TASL].					keratin filament (GO:0045095)				endometrium(3)|skin(2)|upper_aerodigestive_tract(1)	6		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			GCTGCTGTGGCCAAACCAGCT	0.627																																																0													60	62	62					17																	39411913		2203	4299	6502	SO:0001819	synonymous_variant	81870			AJ406951	CCDS54127.1	17q21.2	2010-06-03			ENSG00000198083	ENSG00000198083		"Keratin associated proteins"	16773	protein-coding gene	gene with protein product			"keratin associated protein 9-5"	KRTAP9-5		11279113	Standard	NM_030975		Approved	KAP9.9, KAP9.5	uc021txh.1	Q9BYP9	OTTHUMG00000133602	ENST00000394008.1:c.276C>T	17.37:g.39411913C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B5MDD6|Q9BYQ1	Silent	SNP	ENST00000394008.1	37	CCDS54127.1																																																																																				0.627	KRTAP9-9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257710.1	NM_030975		T	39411913	C	T	39411913	2	4	664	1	0	0	0	0	0	0	0	1	8584	726	26	2		2	KRTAP9-9	17	39411913	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	421101	39411913	41783297	843	42153										
KRT15	3866	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr17	39673348	39673348	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agcgcacttgagcctgaagtCgtccgcagccagcctggcat	12	14	0	2	rs147023381		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:39673348C>T	ENST00000254043.3	-	2	4153	c.568G>A	c.(568-570)Gac>Aac	p.D190N	KRT15_ENST00000393974.3_Intron|KRT15_ENST00000393976.2_Missense_Mutation_p.D190N|KRT15_ENST00000393981.3_Intron	NM_002275.3	NP_002266	P19012	K1C15_HUMAN	keratin 15	190	Coil 1B.|Rod.				epidermis development (GO:0008544)	extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)|nucleus (GO:0005634)	scaffold protein binding (GO:0097110)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(3)|lung(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	16		Breast(137;0.000286)				AGCCTGAAGTCGTCCGCAGCC	0.597																																																0								C	ASN/ASP	0,4406		0,0,2203	177	167	171		568	3.9	1	17	dbSNP_134	171	1,8599	1.2+/-3.3	0,1,4299	no	missense	KRT15	NM_002275.3	23	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	190/457	39673348	1,13005	2203	4300	6503	SO:0001583	missense	3866				CCDS11398.1	17q21.2	2013-06-20			ENSG00000171346	ENSG00000171346		"-", "Intermediate filaments type I, keratins (acidic)"	6421	protein-coding gene	gene with protein product	"keratin-15, basic", "keratin-15, beta", "type I cytoskeletal 15", "cytokeratin 15"	148030				16831889	Standard	NM_002275		Approved	K15, CK15, K1CO	uc002hwy.3	P19012	OTTHUMG00000133435	ENST00000254043.3:c.568G>A	17.37:g.39673348C>T	ENSP00000254043:p.Asp190Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQY1|B3KRA2|E0CX14|Q53XV8|Q9BUG4	Missense_Mutation	SNP	ENST00000254043.3	37	CCDS11398.1	.	.	.	.	.	.	.	.	.	.	C	26.3	4.728445	0.89390	0.0	1.16E-4	ENSG00000171346	ENST00000254043;ENST00000393976	D;D	0.89746	-2.56;-2.56	4.86	3.87	0.44632	Filament (1);	0.000000	0.52532	D	0.000076	D	0.95300	0.8475	M	0.92367	3.3	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.95861	0.8883	10	0.87932	D	0	.	13.692	0.62550	0.0:0.9238:0.0:0.0762	.	190	P19012	K1C15_HUMAN	N	190	ENSP00000254043:D190N;ENSP00000377546:D190N	ENSP00000254043:D190N	D	-	1	0	KRT15	36926874	0.996000	0.38824	0.962000	0.40283	0.692000	0.40212	5.074000	0.64401	2.525000	0.85131	0.655000	0.94253	GAC		0.597	KRT15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257301.1	NM_002275		T	39673348	C	T	39673348	3	4	664	1	0	0	0	0	1	0	0	0	8459	884	31	1	830	1	KRT15	17	39673348	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	261435	39673348	41521862	844	42154										
KIF18B	146909	broad.mit.edu;mdanderson.org	37	chr17	43004364	43004364	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcccaaacctcacctcgcaaCgcgcttcttcttgcaggcag	7	17	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:43004364C>T	ENST00000593135.1	-	14	2456	c.2359G>A	c.(2359-2361)Gtt>Att	p.V787I	KIF18B_ENST00000438933.2_Missense_Mutation_p.V799I|KIF18B_ENST00000587309.1_Missense_Mutation_p.V799I|KIF18B_ENST00000339151.4_Missense_Mutation_p.V790I|KIF18B_ENST00000590129.1_Missense_Mutation_p.V808I	NM_001265577.1	NP_001252506.1	Q86Y91	KI18B_HUMAN	kinesin family member 18B	799					ATP catabolic process (GO:0006200)|metabolic process (GO:0008152)|microtubule depolymerization (GO:0007019)|microtubule-based movement (GO:0007018)|mitotic cell cycle (GO:0000278)|mitotic sister chromatid segregation (GO:0000070)|regulation of cell division (GO:0051302)	astral microtubule (GO:0000235)|cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule plus-end (GO:0035371)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|kinesin binding (GO:0019894)|motor activity (GO:0003774)|plus-end-directed microtubule motor activity (GO:0008574)	p.V799I(1)		breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(9)|ovary(2)	21		Prostate(33;0.155)				CACCTCGCAACGCGCTTCTTC	0.637																																																1	Substitution - Missense(1)	large_intestine(1)											33	36	35					17																	43004364		2033	4203	6236	SO:0001583	missense	146909				CCDS45709.1, CCDS58555.1, CCDS45709.2	17q21.31	2014-09-04			ENSG00000186185			"Kinesins"	27102	protein-coding gene	gene with protein product		614570				16084724	Standard	NM_001264573		Approved		uc010wjh.3	Q86Y91	OTTHUMG00000179867	ENST00000593135.1:c.2359G>A	17.37:g.43004364C>T	ENSP00000465992:p.Val787Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJI2|B7ZM49|B9EGM8|D5L6I1	Missense_Mutation	SNP	ENST00000593135.1	37	CCDS45709.2	.	.	.	.	.	.	.	.	.	.	C	7.843	0.722392	0.15439	.	.	ENSG00000186185	ENST00000438933;ENST00000339151;ENST00000376982	T;T	0.72615	-0.66;-0.67	4.94	-9.87	0.00470	.	.	.	.	.	T	0.44117	0.1278	N	0.16478	0.41	0.09310	N	1	B;B;B	0.10296	0.003;0.001;0.001	B;B;B	0.06405	0.001;0.002;0.001	T	0.29579	-1.0007	9	0.36615	T	0.2	.	4.9781	0.14151	0.0807:0.4484:0.343:0.1279	.	799;796;808	Q86Y91;Q86Y91-3;Q86Y91-2	KI18B_HUMAN;.;.	I	799;790;799	ENSP00000412798:V799I;ENSP00000341466:V790I	ENSP00000341466:V790I	V	-	1	0	KIF18B	40359890	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-4.657000	0.00202	-3.230000	0.00209	-1.004000	0.02495	GTT		0.637	KIF18B-001	PUTATIVE	basic|appris_candidate|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000448724.1	NM_001080443		T	43004364	C	T	43004364	3	4	664	1	0	0	0	0	1	0	0	0	8288	536	19	1	210	1	KIF18B	17	43004364	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3331016	43004364	38190846	845	42155										
NOG	9241	broad.mit.edu;bcgsc.ca	37	chr17	54672235	54672235	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gggggccagcgctgcggctgGattcccatccagtaccccat	13	15	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:54672235G>A	ENST00000332822.4	+	1	1176	c.651G>A	c.(649-651)tgG>tgA	p.W217*		NM_005450.4	NP_005441.1	Q13253	NOGG_HUMAN	noggin	217			W -> G (in SYNS1). {ECO:0000269|PubMed:10080184}.		axial mesoderm development (GO:0048318)|BMP signaling pathway (GO:0030509)|cartilage development (GO:0051216)|cell differentiation in hindbrain (GO:0021533)|cellular response to BMP stimulus (GO:0071773)|dorsal/ventral pattern formation (GO:0009953)|embryonic digit morphogenesis (GO:0042733)|embryonic skeletal joint morphogenesis (GO:0060272)|embryonic skeletal system development (GO:0048706)|endoderm formation (GO:0001706)|epithelial to mesenchymal transition (GO:0001837)|face morphogenesis (GO:0060325)|fibroblast growth factor receptor signaling pathway involved in neural plate anterior/posterior pattern formation (GO:0060825)|in utero embryonic development (GO:0001701)|limb development (GO:0060173)|lung morphogenesis (GO:0060425)|mesoderm formation (GO:0001707)|middle ear morphogenesis (GO:0042474)|motor neuron axon guidance (GO:0008045)|negative regulation of apoptotic signaling pathway (GO:2001234)|negative regulation of astrocyte differentiation (GO:0048712)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cardiac muscle cell proliferation (GO:0060044)|negative regulation of cartilage development (GO:0061037)|negative regulation of cell migration (GO:0030336)|negative regulation of cytokine activity (GO:0060302)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of pathway-restricted SMAD protein phosphorylation (GO:0060394)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nervous system development (GO:0007399)|neural plate morphogenesis (GO:0001839)|neural tube closure (GO:0001843)|notochord morphogenesis (GO:0048570)|osteoblast differentiation (GO:0001649)|pituitary gland development (GO:0021983)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of glomerulus development (GO:0090193)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|prostatic bud formation (GO:0060513)|regulation of fibroblast growth factor receptor signaling pathway involved in neural plate anterior/posterior pattern formation (GO:2000313)|skeletal system development (GO:0001501)|somatic stem cell maintenance (GO:0035019)|somite development (GO:0061053)|spinal cord development (GO:0021510)|ureteric bud formation (GO:0060676)|wound healing (GO:0042060)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	cytokine binding (GO:0019955)|protein homodimerization activity (GO:0042803)			ovary(1)	1	Breast(9;5.24e-08)					GCTGCGGCTGGATTCCCATCC	0.682																																																0													15	16	16					17																	54672235		2198	4288	6486	SO:0001587	stop_gained	9241			U31202	CCDS11589.1	17q22	2006-04-25	2003-03-12		ENSG00000183691	ENSG00000183691			7866	protein-coding gene	gene with protein product		602991	"synostoses (multiple) syndrome 1", "symphalangism 1 (proximal)"	SYNS1, SYM1		7666191, 10080184, 11545688	Standard	NM_005450		Approved		uc002iup.2	Q13253	OTTHUMG00000151770	ENST00000332822.4:c.651G>A	17.37:g.54672235G>A	ENSP00000328181:p.Trp217*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000332822.4	37	CCDS11589.1	.	.	.	.	.	.	.	.	.	.	G	41	8.622229	0.98888	.	.	ENSG00000183691	ENST00000332822	.	.	.	4.65	4.65	0.58169	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-12.4384	17.712	0.88324	0.0:0.0:1.0:0.0	.	.	.	.	X	217	.	ENSP00000328181:W217X	W	+	3	0	NOG	52027234	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.550000	0.98110	2.418000	0.82041	0.561000	0.74099	TGG		0.682	NOG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323857.1	NM_005450		A	54672235	G	A	54672235	4	1	664	1	0	0	0	0	0	1	0	0	10526	1183	41	2	653	2	NOG	17	54672235	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	11667871	54672235	26522975	846	42156										
TRIM25	7706	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	54985879	54985879	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atccagtgctctcgacgcccCgttgatctgactgtacatga	9	13	2	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:54985879C>T	ENST00000316881.4	-	2	692	c.643G>A	c.(643-645)Ggg>Agg	p.G215R	TRIM25_ENST00000537230.1_Missense_Mutation_p.G215R	NM_005082.4	NP_005073.2	Q14258	TRI25_HUMAN	tripartite motif containing 25	215	Interaction with influenza A virus NS1.				defense response to virus (GO:0051607)|innate immune response (GO:0045087)|negative regulation of type I interferon production (GO:0032480)|negative regulation of viral entry into host cell (GO:0046597)|negative regulation of viral release from host cell (GO:1902187)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|protein ubiquitination (GO:0016567)|regulation of viral entry into host cell (GO:0046596)|regulation of viral release from host cell (GO:1902186)|response to estrogen (GO:0043627)|response to vitamin D (GO:0033280)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	acid-amino acid ligase activity (GO:0016881)|poly(A) RNA binding (GO:0044822)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			breast(2)|endometrium(2)|kidney(4)|large_intestine(3)|lung(6)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	21	Breast(9;6.15e-08)					CTCGACGCCCCGTTGATCTGA	0.582																																																0													149	107	121					17																	54985879		2203	4300	6503	SO:0001583	missense	7706			D21205	CCDS11591.1	17q23.1	2013-01-09	2011-01-25	2004-03-30				"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	12932	protein-coding gene	gene with protein product		600453	"zinc finger protein 147 (estrogen-responsive finger protein)", "tripartite motif-containing 25"	ZNF147		7789997	Standard	NM_005082		Approved	EFP, RNF147	uc002iut.3	Q14258		ENST00000316881.4:c.643G>A	17.37:g.54985879C>T	ENSP00000323889:p.Gly215Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000316881.4	37	CCDS11591.1	.	.	.	.	.	.	.	.	.	.	C	9.289	1.050020	0.19827	.	.	ENSG00000121060	ENST00000316881;ENST00000537230	T;T	0.41065	1.01;1.01	4.38	4.38	0.52667	.	0.208574	0.33753	N	0.004600	T	0.29588	0.0738	L	0.41356	1.27	0.30299	N	0.789598	B	0.32829	0.386	B	0.20184	0.028	T	0.20009	-1.0288	10	0.27082	T	0.32	.	12.7546	0.57328	0.0:1.0:0.0:0.0	.	215	Q14258	TRI25_HUMAN	R	215	ENSP00000323889:G215R;ENSP00000445961:G215R	ENSP00000323889:G215R	G	-	1	0	TRIM25	52340878	0.146000	0.22672	0.563000	0.28383	0.539000	0.34962	2.313000	0.43735	2.706000	0.92434	0.655000	0.94253	GGG		0.582	TRIM25-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440609.1	NM_005082		T	54985879	C	T	54985879	3	4	664	1	0	0	0	0	1	0	0	0	16511	652	23	1	1281	1	TRIM25	17	54985879	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	313644	54985879	26209331	847	42157										
OR4D2	124538	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	56247381	56247381	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcagtgatggcctttgaccGcctcattgccatctcccggc	9	16	3	2	rs142058863	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:56247381G>A	ENST00000545221.1	+	1	365	c.365G>A	c.(364-366)cGc>cAc	p.R122H		NM_001004707.3	NP_001004707.1	P58180	OR4D2_HUMAN	olfactory receptor, family 4, subfamily D, member 2	122						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.R122H(1)		breast(1)|kidney(1)|large_intestine(1)|lung(19)|ovary(1)|skin(2)|stomach(1)	26						GCCTTTGACCGCCTCATTGCC	0.562																																																1	Substitution - Missense(1)	stomach(1)						G	HIS/ARG	1,4405	2.1+/-5.4	0,1,2202	83	81	81		365	3.7	0.6	17	dbSNP_134	81	3,8597	3.0+/-9.4	0,3,4297	yes	missense	OR4D2	NM_001004707.3	29	0,4,6499	AA,AG,GG		0.0349,0.0227,0.0308	probably-damaging	122/308	56247381	4,13002	2203	4300	6503	SO:0001583	missense	124538				CCDS32688.1	17q22	2013-09-23			ENSG00000255713	ENSG00000255713		"GPCR / Class A : Olfactory receptors"	8294	protein-coding gene	gene with protein product							Standard	NM_001004707		Approved		uc010wnp.2	P58180	OTTHUMG00000178801	ENST00000545221.1:c.365G>A	17.37:g.56247381G>A	ENSP00000441354:p.Arg122His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFN8|Q96R75	Missense_Mutation	SNP	ENST00000545221.1	37	CCDS32688.1	.	.	.	.	.	.	.	.	.	.	G	11.28	1.592236	0.28357	2.27E-4	3.49E-4	ENSG00000255713	ENST00000545221	T	0.77489	-1.1	5.71	3.74	0.42951	GPCR, rhodopsin-like superfamily (1);	0.000000	0.56097	D	0.000034	T	0.76040	0.3932	M	0.86178	2.8	0.36718	D	0.881022	P	0.35684	0.515	B	0.27715	0.082	T	0.80400	-0.1398	10	0.87932	D	0	-26.1465	10.7946	0.46453	0.1547:0.0:0.8453:0.0	.	122	P58180	OR4D2_HUMAN	H	122	ENSP00000441354:R122H	ENSP00000441354:R122H	R	+	2	0	OR4D2	53602380	1.000000	0.71417	0.567000	0.28434	0.094000	0.18550	7.976000	0.88070	0.899000	0.36444	-0.166000	0.13349	CGC		0.562	OR4D2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443366.1			A	56247381	G	A	56247381	3	1	664	1	0	0	0	0	1	0	0	0	11063	1087	38	1	367	1	OR4D2	17	56247381	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1261502	56247381	24947829	848	42158										
OR4D2	124538	broad.mit.edu;bcgsc.ca	37	chr17	56247407	56247407	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttgccatctcccggcccctcCgctatgtcaccgtcatgaac	7	18	3	1	rs370339516		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:56247407C>T	ENST00000545221.1	+	1	391	c.391C>T	c.(391-393)Cgc>Tgc	p.R131C		NM_001004707.3	NP_001004707.1	P58180	OR4D2_HUMAN	olfactory receptor, family 4, subfamily D, member 2	131						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|kidney(1)|large_intestine(1)|lung(19)|ovary(1)|skin(2)|stomach(1)	26						CCGGCCCCTCCGCTATGTCAC	0.567																																																0								C	CYS/ARG	2,4404	4.2+/-10.8	0,2,2201	84	84	84		391	5.7	1	17		84	0,8600		0,0,4300	no	missense	OR4D2	NM_001004707.3	180	0,2,6501	TT,TC,CC		0.0,0.0454,0.0154	probably-damaging	131/308	56247407	2,13004	2203	4300	6503	SO:0001583	missense	124538				CCDS32688.1	17q22	2013-09-23			ENSG00000255713	ENSG00000255713		"GPCR / Class A : Olfactory receptors"	8294	protein-coding gene	gene with protein product							Standard	NM_001004707		Approved		uc010wnp.2	P58180	OTTHUMG00000178801	ENST00000545221.1:c.391C>T	17.37:g.56247407C>T	ENSP00000441354:p.Arg131Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFN8|Q96R75	Missense_Mutation	SNP	ENST00000545221.1	37	CCDS32688.1	.	.	.	.	.	.	.	.	.	.	C	27.2	4.810088	0.90707	4.54E-4	0.0	ENSG00000255713	ENST00000545221	T	0.00922	5.54	5.71	5.71	0.89125	GPCR, rhodopsin-like superfamily (1);	0.000000	0.56097	D	0.000021	T	0.03053	0.0090	L	0.59436	1.845	0.43787	D	0.996324	D	0.65815	0.995	P	0.52343	0.696	T	0.50056	-0.8872	10	0.87932	D	0	-22.3682	17.7075	0.88312	0.0:1.0:0.0:0.0	.	131	P58180	OR4D2_HUMAN	C	131	ENSP00000441354:R131C	ENSP00000441354:R131C	R	+	1	0	OR4D2	53602406	0.086000	0.21541	1.000000	0.80357	0.944000	0.59088	3.329000	0.52060	2.860000	0.98153	0.609000	0.83330	CGC		0.567	OR4D2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443366.1			T	56247407	C	T	56247407	3	4	664	1	0	0	0	0	1	0	0	0	11063	652	23	1	393	1	OR4D2	17	56247407	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	26	56247407	24947803	849	42159										
MKS1	54903	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr17	56290442	56290442	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agctcctgcttctccccctcCgtctcaatcctgtaaggtca	6	17	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:56290442C>T	ENST00000393119.2	-	8	833	c.759G>A	c.(757-759)acG>acA	p.T253T	MKS1_ENST00000337050.7_Silent_p.T253T|MKS1_ENST00000546108.1_Silent_p.T50T|MKS1_ENST00000313863.6_Silent_p.T253T|MKS1_ENST00000537529.2_Silent_p.T243T	NM_017777.3	NP_060247.2	Q9NXB0	MKS1_HUMAN	Meckel syndrome, type 1	253					branching morphogenesis of an epithelial tube (GO:0048754)|cilium assembly (GO:0042384)|cilium morphogenesis (GO:0060271)	centriole (GO:0005814)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|membrane (GO:0016020)|TCTN-B9D complex (GO:0036038)				endometrium(5)|kidney(3)|large_intestine(3)|lung(10)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	26						TCTCCCCCTCCGTCTCAATCC	0.562																																																0													70	72	71					17																	56290442		1937	4138	6075	SO:0001819	synonymous_variant	54903			DQ185029	CCDS11603.2, CCDS54148.1	17q21-q24	2014-09-17			ENSG00000011143	ENSG00000011143			7121	protein-coding gene	gene with protein product	"POC12 centriolar protein homolog (Chlamydomonas)"	609883		MKS		7550354, 16415886, 18327255	Standard	NM_017777		Approved	FLJ20345, POC12, BBS13	uc002ivr.2	Q9NXB0	OTTHUMG00000133714	ENST00000393119.2:c.759G>A	17.37:g.56290442C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7WNX4|F5H885|Q284T0|Q96G13	Silent	SNP	ENST00000393119.2	37	CCDS11603.2	.	.	.	.	.	.	.	.	.	.	C	1.361	-0.588849	0.03799	.	.	ENSG00000011143	ENST00000313863	.	.	.	5.69	-11.4	0.00090	.	.	.	.	.	T	0.30572	0.0769	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.38672	-0.9650	4	.	.	.	-24.1711	1.1885	0.01860	0.2967:0.3287:0.1524:0.2222	.	.	.	.	Q	254	.	.	R	-	2	0	MKS1	53645441	0.000000	0.05858	0.404000	0.26397	0.178000	0.23041	-2.189000	0.01248	-2.371000	0.00602	-0.311000	0.09066	CGG		0.562	MKS1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258015.2	NM_017777		T	56290442	C	T	56290442	2	4	664	1	0	0	0	0	0	0	0	1	9616	639	23	1		1	MKS1	17	56290442	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	43035	56290442	24904768	850	42160										
SEPT4	5414	ucsc.edu;bcgsc.ca	37	chr17	56599003	56599003	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caaaatgctcaatctcctccCggatctgacaaacagatgag	7	12	3	3	rs533106066		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:56599003C>T	ENST00000317268.3	-	8	1096	c.920G>A	c.(919-921)cGg>cAg	p.R307Q	SEPT4_ENST00000579371.1_Missense_Mutation_p.R208Q|SEPT4_ENST00000412945.3_Missense_Mutation_p.R299Q|SEPT4_ENST00000457347.2_Missense_Mutation_p.R322Q|SEPT4_ENST00000580809.1_3'UTR|SEPT4_ENST00000580844.1_Missense_Mutation_p.R208Q|SEPT4_ENST00000393086.1_Missense_Mutation_p.R288Q|SEPT4_ENST00000426861.1_3'UTR|SEPT4_ENST00000317256.6_Missense_Mutation_p.R288Q|RP11-112H10.4_ENST00000580589.1_RNA|SEPT4_ENST00000583114.1_Missense_Mutation_p.R160Q	NM_004574.3	NP_004565.1	O43236	SEPT4_HUMAN	septin 4	307	Septin-type G.				apoptotic process (GO:0006915)|brain development (GO:0007420)|cell cycle (GO:0007049)|cell division (GO:0051301)|GTP catabolic process (GO:0006184)|positive regulation of apoptotic process (GO:0043065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of protein ubiquitination (GO:0031398)|regulation of apoptotic process (GO:0042981)|sperm capacitation (GO:0048240)|sperm mitochondrion organization (GO:0030382)	cytoskeleton (GO:0005856)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|sperm annulus (GO:0097227)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural molecule activity (GO:0005198)			NS(1)|endometrium(2)|kidney(2)|large_intestine(5)|lung(4)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	18	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AATCTCCTCCCGGATCTGACA	0.512													C|||	1	0.000199681	0.0008	0.0	5008	,	,		19676	0.0		0.0	False		,,,				2504	0.0															0													111	107	108					17																	56599003		2203	4300	6503	SO:0001583	missense	5414			AF073312	CCDS11609.1, CCDS11610.1, CCDS45743.1, CCDS56041.1, CCDS58581.1, CCDS58582.1	17q22	2013-01-21	2005-01-11	2005-01-12	ENSG00000108387	ENSG00000108387		"Septins"	9165	protein-coding gene	gene with protein product	"bradeoin", "septin-M"	603696	"peanut-like 2 (Drosophila)"	PNUTL2		9889007	Standard	NM_001198713		Approved	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART	uc002iwm.2	O43236		ENST00000317268.3:c.920G>A	17.37:g.56599003C>T	ENSP00000321674:p.Arg307Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RD42|B3KSX9|B4DXC6|B4DXV5|Q6IAP3|Q9H315|Q9UM58	Missense_Mutation	SNP	ENST00000317268.3	37	CCDS11610.1	.	.	.	.	.	.	.	.	.	.	C	12.46	1.945750	0.34377	.	.	ENSG00000108387	ENST00000412945;ENST00000457347;ENST00000317256;ENST00000317268;ENST00000393086	T;T;T;T	0.33865	1.39;1.39;1.39;1.39	5.59	5.59	0.84812	.	0.061554	0.64402	D	0.000005	T	0.53351	0.1791	L	0.46567	1.45	0.54753	D	0.999987	P;D;P;P;P	0.89917	0.882;1.0;0.941;0.497;0.952	B;D;B;B;P	0.67382	0.212;0.951;0.358;0.118;0.49	T	0.52238	-0.8602	10	0.62326	D	0.03	.	17.0726	0.86578	0.0:1.0:0.0:0.0	.	299;322;288;160;307	O43236-3;O43236-4;O43236-2;O43236-5;O43236	.;.;.;.;SEPT4_HUMAN	Q	299;321;288;307;288	ENSP00000414779:R299Q;ENSP00000321071:R288Q;ENSP00000321674:R307Q;ENSP00000376801:R288Q	ENSP00000321071:R288Q	R	-	2	0	SEPT4	53954002	1.000000	0.71417	1.000000	0.80357	0.944000	0.59088	6.077000	0.71275	2.619000	0.88677	0.557000	0.71058	CGG		0.512	SEPT4-008	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000445420.1	NM_080417		T	56599003	C	T	56599003	3	4	664	1	0	0	0	0	1	0	0	0	14079	652	23	1	536	1	SEPT4	17	56599003	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	308561	56599003	24596207	851	42161										
BCAS3	54828	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr17	59445725	59445725	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgaccctgctggaggtgtgCgggagctggcctgagggctt	19	9	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:59445725C>T	ENST00000390652.5	+	24	2539	c.2508C>T	c.(2506-2508)tgC>tgT	p.C836C	RP11-332H18.5_ENST00000585765.1_RNA|BCAS3_ENST00000407086.3_Silent_p.C821C|BCAS3_ENST00000408905.3_Silent_p.C821C|BCAS3_ENST00000589222.1_Silent_p.C821C|BCAS3_ENST00000588462.1_Silent_p.C836C|BCAS3_ENST00000585812.1_3'UTR|BCAS3_ENST00000585744.1_Silent_p.C607C|BCAS3_ENST00000588874.1_Silent_p.C592C	NM_001099432.1	NP_001092902.1			breast carcinoma amplified sequence 3											NS(1)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(5)|lung(24)|ovary(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	44			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			TGGAGGTGTGCGGGAGCTGGC	0.642																																																0													78	89	85					17																	59445725		2139	4247	6386	SO:0001819	synonymous_variant	54828			AF361219	CCDS11626.1, CCDS45749.1	17q23.2	2013-06-25			ENSG00000141376	ENSG00000141376		"WD repeat domain containing"	14347	protein-coding gene	gene with protein product		607470				12378525	Standard	NM_017679		Approved	FLJ20128	uc002iyv.4	Q9H6U6	OTTHUMG00000180064	ENST00000390652.5:c.2508C>T	17.37:g.59445725C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000390652.5	37	CCDS45749.1																																																																																				0.642	BCAS3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000449578.1	NM_017679		T	59445725	C	T	59445725	2	4	664	1	0	0	0	0	0	0	0	1	1352	776	27	1		1	BCAS3	17	59445725	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2846722	59445725	21749485	852	42162										
TANC2	26115	broad.mit.edu	37	chr17	61497780	61497780	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tctgtaggctctcccactagAcagacctatcagtccacctc	6	16	3	2	rs200208895		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:61497780A>G	ENST00000424789.2	+	25	4441	c.4437A>G	c.(4435-4437)agA>agG	p.R1479R	RP11-269G24.3_ENST00000583552.1_RNA|TANC2_ENST00000389520.4_Silent_p.R1489R	NM_025185.3	NP_079461.2	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 2	1479					in utero embryonic development (GO:0001701)					breast(1)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(15)|ovary(2)|upper_aerodigestive_tract(3)	44						CTCCCACTAGACAGACCTATC	0.552																																																0								A		0,4060		0,0,2030	105	105	105		4437	-1.6	1	17		105	2,8370		0,2,4184	no	coding-synonymous	TANC2	NM_025185.3		0,2,6214	GG,GA,AA		0.0239,0.0,0.0161		1479/1991	61497780	2,12430	2030	4186	6216	SO:0001819	synonymous_variant	26115			AB032974	CCDS45754.1	17q23.3	2013-01-11				ENSG00000170921		"Ankyrin repeat domain containing", "Tetratricopeptide (TTC) repeat domain containing"	30212	protein-coding gene	gene with protein product	"rolling pebbles homolog B (Drosophila)"	615047					Standard	NM_025185		Approved	DKFZP564D166, FLJ10215, FLJ11824, KIAA1148, KIAA1636, rols, ROLSA	uc002jal.4	Q9HCD6		ENST00000424789.2:c.4437A>G	17.37:g.61497780A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9HAC3|Q9NW88|Q9NXY9|Q9ULS2	Silent	SNP	ENST00000424789.2	37	CCDS45754.1																																																																																				0.552	TANC2-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444765.1			G	61497780	A	G	61497780	2	3	664	1	0	0	0	0	0	0	0	1	15557	272	10	3		3	TANC2	17	61497780	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	2052055	61497780	19697430	853	42163										
TEX2	55852	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr17	62291323	62291323	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcgaggcagcagggccggcGgggtcatggccaacttgggg	21	10	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:62291323G>A	ENST00000583097.1	-	2	427	c.255C>T	c.(253-255)ccC>ccT	p.P85P	TEX2_ENST00000258991.3_Silent_p.P85P|TEX2_ENST00000584379.1_Silent_p.P85P			Q8IWB9	TEX2_HUMAN	testis expressed 2	85					signal transduction (GO:0007165)|sphingolipid metabolic process (GO:0006665)	integral component of membrane (GO:0016021)				breast(3)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(2)|lung(15)|ovary(1)|pancreas(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	41			BRCA - Breast invasive adenocarcinoma(8;1.33e-10)	READ - Rectum adenocarcinoma(1115;0.0689)		CAGGGCCGGCGGGGTCATGGC	0.577																																																0													144	144	144					17																	62291323		2203	4300	6503	SO:0001819	synonymous_variant	55852			AB051525	CCDS11658.1, CCDS74131.1	17q23.3	2007-03-13	2007-03-13			ENSG00000136478			30884	protein-coding gene	gene with protein product	"transmembrane protein 96"		"testis expressed sequence 2"			11214970	Standard	XM_005257507		Approved	HT008, TMEM96, KIAA1738	uc002jee.3	Q8IWB9		ENST00000583097.1:c.255C>T	17.37:g.62291323G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6AHZ5|Q8N3L0|Q9C0C5	Silent	SNP	ENST00000583097.1	37																																																																																					0.577	TEX2-003	KNOWN	alternative_5_UTR|basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000443745.1	NM_018469		A	62291323	G	A	62291323	2	1	664	1	0	0	0	0	0	0	0	1	15793	1103	39	1		1	TEX2	17	62291323	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	793543	62291323	18903887	854	42164										
HELZ	9931	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	65134098	65134098	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atcagataatctcttttttcGaagttcagcacgtattctaa	5	8	4	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:65134098G>A	ENST00000358691.5	-	22	3068	c.2902C>T	c.(2902-2904)Cga>Tga	p.R968*	HELZ_ENST00000580168.1_Nonsense_Mutation_p.R969*	NM_014877.3	NP_055692	P42694	HELZ_HUMAN	helicase with zinc finger	968						membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(5)|endometrium(9)|kidney(3)|large_intestine(11)|liver(1)|lung(24)|ovary(1)|pancreas(1)|prostate(1)|skin(8)|upper_aerodigestive_tract(2)|urinary_tract(2)	69	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					CTCTTTTTTCGAAGTTCAGCA	0.378																																																0													202	205	204					17																	65134098		2079	4211	6290	SO:0001587	stop_gained	9931			D29677	CCDS42374.1	17q24.2	2013-01-18			ENSG00000198265	ENSG00000198265		"Zinc fingers, CCCH-type domain containing"	16878	protein-coding gene	gene with protein product	"down-regulated in human cancers"	606699				10471385, 12691822	Standard	NM_014877		Approved	KIAA0054, HUMORF5, DHRC	uc002jfx.4	P42694	OTTHUMG00000179555	ENST00000358691.5:c.2902C>T	17.37:g.65134098G>A	ENSP00000351524:p.Arg968*	Somatic		WXS	Illumina HiSeq	Phase_I	I6L9H4	Nonsense_Mutation	SNP	ENST00000358691.5	37	CCDS42374.1	.	.	.	.	.	.	.	.	.	.	G	43	9.825446	0.99273	.	.	ENSG00000198265	ENST00000358691	.	.	.	5.24	5.24	0.73138	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-10.5631	18.8583	0.92262	0.0:0.0:1.0:0.0	.	.	.	.	X	968	.	ENSP00000351524:R968X	R	-	1	2	HELZ	62564560	1.000000	0.71417	1.000000	0.80357	0.854000	0.48673	9.476000	0.97823	2.437000	0.82529	0.655000	0.94253	CGA		0.378	HELZ-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000447068.1	NM_014877		A	65134098	G	A	65134098	4	1	664	1	0	0	0	0	0	1	0	0	7056	1066	37	1	2974	1	HELZ	17	65134098	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2842775	65134098	16061112	855	42165										
KIF19	124602	mdanderson.org	37	chr17	72350412	72350412	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctggcacccgcgacagagcGcagcagcctgtccctgcact	12	17	0	1	rs2271535	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:72350412G>A	ENST00000389916.4	+	18	2558	c.2420G>A	c.(2419-2421)cGc>cAc	p.R807H	AC103809.2_ENST00000599136.1_5'Flank	NM_153209.3	NP_694941.2	Q2TAC6	KIF19_HUMAN	kinesin family member 19	807			R -> H (in dbSNP:rs2271535).		ATP catabolic process (GO:0006200)|axonemal microtubule depolymerization (GO:0060404)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|plus-end specific microtubule depolymerization (GO:0070462)	cilium (GO:0005929)|cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|plus-end-directed microtubule motor activity (GO:0008574)			autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(6)|large_intestine(3)|lung(16)|ovary(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	41						GCGACAGAGCGCAGCAGCCTG	0.711													G|||	1718	0.343051	0.0756	0.4207	5008	,	,		13893	0.4008		0.4712	False		,,,				2504	0.4581															0								G	HIS/ARG	571,3475		68,435,1520	16	22	20		2420	1.8	1	17	dbSNP_100	20	3907,4455		949,2009,1223	yes	missense	KIF19	NM_153209.3	29	1017,2444,2743	AA,AG,GG		46.7233,14.1127,36.0896	possibly-damaging	807/999	72350412	4478,7930	2023	4181	6204	SO:0001583	missense	124602			AK094619	CCDS32718.2	17q25	2007-02-13			ENSG00000196169	ENSG00000196169		"Kinesins"	26735	protein-coding gene	gene with protein product						11416179	Standard	NM_153209		Approved	FLJ37300, KIF19A	uc031rei.1	Q2TAC6	OTTHUMG00000150694	ENST00000389916.4:c.2420G>A	17.37:g.72350412G>A	ENSP00000374566:p.Arg807His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLG2|B7ZKR1|Q52M87|Q8N1X8|Q8TAB6	Missense_Mutation	SNP	ENST00000389916.4	37	CCDS32718.2	790	0.3617216117216117	40	0.08130081300813008	149	0.4116022099447514	242	0.4230769230769231	359	0.4736147757255937	G	12.77	2.036734	0.35893	0.141127	0.467233	ENSG00000196169	ENST00000389916	T	0.71817	-0.6	5.06	1.78	0.24846	.	.	.	.	.	T	0.00012	0.0000	L	0.54323	1.7	0.41050	P	0.014703000000000022	B	0.13594	0.008	B	0.06405	0.002	T	0.38351	-0.9665	8	0.37606	T	0.19	.	6.784	0.23664	0.2165:0.2365:0.547:0.0	rs2271535;rs58995647	807	Q2TAC6	KIF19_HUMAN	H	807	ENSP00000374566:R807H	ENSP00000374566:R807H	R	+	2	0	KIF19	69862007	1.000000	0.71417	0.967000	0.41034	0.417000	0.31264	1.286000	0.33273	1.141000	0.42275	0.556000	0.70494	CGC		0.711	KIF19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319644.2	NM_153209		A	72350412	G	A	72350412	3	1	664	1	0	0	0	0	1	0	0	0	8289	1087	38	1	2490	1	KIF19	17	72350412	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	7216314	72350412	8844798	856	42166										
RECQL5	9400	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	73626346	73626346	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccagctccacggccttggccCggaggtcagctctgtgggtg	15	14	2	0	rs199975622		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:73626346C>T	ENST00000317905.5	-	14	1889	c.1730G>A	c.(1729-1731)cGg>cAg	p.R577Q	RECQL5_ENST00000423245.2_Missense_Mutation_p.R550Q|RECQL5_ENST00000443199.2_5'UTR	NM_004259.6	NP_004250.4	O94762	RECQ5_HUMAN	RecQ protein-like 5	577	Interaction with POLR2A.				chromosome separation (GO:0051304)|DNA duplex unwinding (GO:0032508)|DNA metabolic process (GO:0006259)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|mitotic nuclear division (GO:0007067)|negative regulation of transcription elongation from RNA polymerase II promoter (GO:0034244)	cytoplasm (GO:0005737)|DNA-directed RNA polymerase II, holoenzyme (GO:0016591)|nuclear membrane (GO:0031965)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|DNA helicase activity (GO:0003678)|nucleic acid binding (GO:0003676)|RNA polymerase II core binding (GO:0000993)			breast(1)|cervix(3)|endometrium(3)|kidney(7)|large_intestine(7)|lung(8)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(5)	36	all_cancers(13;2.73e-08)|Breast(9;6.04e-09)|all_epithelial(9;6.79e-09)		all cancers(21;1.15e-06)|Epithelial(20;2.19e-06)|Lung(188;0.101)|LUSC - Lung squamous cell carcinoma(166;0.112)			GGCCTTGGCCCGGAGGTCAGC	0.632								Other identified genes with known or suspected DNA repair function					C|||	1	0.000199681	0.0008	0.0	5008	,	,		20052	0.0		0.0	False		,,,				2504	0.0															0								C	GLN/ARG	1,4217		0,1,2108	37	39	38		1730	-0.9	0.3	17		38	3,8465		0,3,4231	yes	missense	RECQL5	NM_004259.6	43	0,4,6339	TT,TC,CC		0.0354,0.0237,0.0315	benign	577/992	73626346	4,12682	2109	4234	6343	SO:0001583	missense	9400			AB006533	CCDS32735.1, CCDS42380.1, CCDS45777.1	17q25	2014-03-07	2014-03-07	2014-03-07	ENSG00000108469	ENSG00000108469			9950	protein-coding gene	gene with protein product	"RecQ protein 5"	603781				9878247	Standard	NM_004259		Approved	RecQ5, FLJ90603	uc010dgl.3	O94762		ENST00000317905.5:c.1730G>A	17.37:g.73626346C>T	ENSP00000317636:p.Arg577Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H0B1|Q9P1W7|Q9UNC8	Missense_Mutation	SNP	ENST00000317905.5	37	CCDS42380.1	.	.	.	.	.	.	.	.	.	.	C	10.88	1.474567	0.26511	2.37E-4	3.54E-4	ENSG00000108469	ENST00000443199;ENST00000423245;ENST00000317905	T	0.54866	0.55	5.39	-0.855	0.10700	.	0.552264	0.18297	N	0.145543	T	0.11580	0.0282	N	0.00246	-1.78	0.09310	N	0.999996	B;B	0.06786	0.001;0.001	B;B	0.06405	0.002;0.002	T	0.27640	-1.0068	10	0.15499	T	0.54	-0.663	1.7148	0.02899	0.1404:0.319:0.1278:0.4129	.	577;550	O94762;Q6P4G0	RECQ5_HUMAN;.	Q	172;577;577	ENSP00000317636:R577Q	ENSP00000317636:R577Q	R	-	2	0	RECQL5	71137941	0.002000	0.14202	0.343000	0.25615	0.582000	0.36321	-0.443000	0.06862	-0.506000	0.06558	-0.302000	0.09304	CGG		0.632	RECQL5-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000448207.1	NM_004259		T	73626346	C	T	73626346	3	4	664	1	0	0	0	0	1	0	0	0	13216	652	23	1	1273	1	RECQL5	17	73626346	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1275934	73626346	7568864	857	42167										
RNF157	114804	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	74157965	74157965	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgttggcctggtagcgcagcGtgtctgcacaggtgttacag	15	9	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:74157965G>A	ENST00000269391.6	-	10	1043	c.911C>T	c.(910-912)aCg>aTg	p.T304M	RNF157_ENST00000319945.6_Missense_Mutation_p.T304M	NM_052916.2	NP_443148.1	Q96PX1	RN157_HUMAN	ring finger protein 157	304							zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|cervix(1)|large_intestine(3)|lung(12)|ovary(2)|prostate(1)|skin(1)|stomach(2)|urinary_tract(1)	25			LUSC - Lung squamous cell carcinoma(166;0.187)			GTAGCGCAGCGTGTCTGCACA	0.602																																					GBM(186;507 2120 27388 27773 52994)											0													132	117	122					17																	74157965		2203	4300	6503	SO:0001583	missense	114804			AK091467	CCDS32740.1	17q25.3	2004-02-27			ENSG00000141576	ENSG00000141576		"RING-type (C3HC4) zinc fingers"	29402	protein-coding gene	gene with protein product						11572484	Standard	NM_052916		Approved	KIAA1917	uc002jqz.3	Q96PX1	OTTHUMG00000132627	ENST00000269391.6:c.911C>T	17.37:g.74157965G>A	ENSP00000269391:p.Thr304Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NB72|Q96N56	Missense_Mutation	SNP	ENST00000269391.6	37	CCDS32740.1	.	.	.	.	.	.	.	.	.	.	G	32	5.168123	0.94768	.	.	ENSG00000141576	ENST00000269391;ENST00000319945;ENST00000301610	T;T	0.67345	-0.26;-0.26	5.49	5.49	0.81192	Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, RING-type (2);	0.000000	0.85682	D	0.000000	T	0.74313	0.3700	L	0.28274	0.84	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.76575	0.988;0.985	T	0.77313	-0.2634	10	0.72032	D	0.01	-33.4353	19.3674	0.94469	0.0:0.0:1.0:0.0	.	304;304	Q96PX1-2;Q96PX1	.;RN157_HUMAN	M	304;304;266	ENSP00000269391:T304M;ENSP00000321837:T304M	ENSP00000269391:T304M	T	-	2	0	RNF157	71669560	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.869000	0.99810	2.577000	0.86979	0.655000	0.94253	ACG		0.602	RNF157-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255874.2	XM_290732		A	74157965	G	A	74157965	3	1	664	1	0	0	0	0	1	0	0	0	13467	1145	40	1	1168	1	RNF157	17	74157965	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	531619	74157965	7037245	858	42168										
MGAT5B	146664	broad.mit.edu;bcgsc.ca	37	chr17	74901299	74901299	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttctggacctgatgggcagcGggaaggagtccctgatcttc	14	10	2	2	rs199861646		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:74901299G>A	ENST00000569840.2	+	7	1313	c.739G>A	c.(739-741)Ggg>Agg	p.G247R	MGAT5B_ENST00000301618.4_Missense_Mutation_p.G247R|MGAT5B_ENST00000428789.2_Missense_Mutation_p.G258R|MGAT5B_ENST00000374998.3_3'UTR	NM_001199172.1	NP_001186101.1	Q3V5L5	MGT5B_HUMAN	mannosyl (alpha-1,6-)-glycoprotein beta-1,6-N-acetyl-glucosaminyltransferase, isozyme B	247					protein N-linked glycosylation (GO:0006487)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase activity (GO:0030144)|metal ion binding (GO:0046872)			breast(1)|endometrium(4)|kidney(1)|large_intestine(2)|lung(15)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29						GATGGGCAGCGGGAAGGAGTC	0.637																																																0													40	44	42					17																	74901299		2203	4300	6503	SO:0001583	missense	146664			AB109185	CCDS11751.1, CCDS45788.1, CCDS59299.1	17q25.3	2013-02-25	2005-11-16		ENSG00000167889	ENSG00000167889		"Mannosyl-glycoprotein beta N-acetylglucosaminyltransferases"	24140	protein-coding gene	gene with protein product		612441	"mannosyl (alpha-1,6-)-glycoprotein beta-1,6-N-acetyl-glucosaminyltransferase, isoenzyme B"			14617637, 14623122	Standard	NM_001199172		Approved	GnT-IX, FLJ25132, GnT-VB	uc002jth.3	Q3V5L5	OTTHUMG00000177278	ENST00000569840.2:c.739G>A	17.37:g.74901299G>A	ENSP00000456037:p.Gly247Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P3S8|Q6P6B3|Q766X5|Q76D04|Q96LS2	Missense_Mutation	SNP	ENST00000569840.2	37	CCDS59299.1	.	.	.	.	.	.	.	.	.	.	G	18.95	3.732689	0.69189	.	.	ENSG00000167889	ENST00000374998;ENST00000301618;ENST00000428789	T;T	0.44083	0.94;0.93	5.22	5.22	0.72569	.	0.000000	0.85682	D	0.000000	T	0.60077	0.2241	M	0.61703	1.905	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.53774	-0.8391	10	0.12430	T	0.62	-47.5883	17.7669	0.88481	0.0:0.0:1.0:0.0	.	258;247	Q3V5L5-2;Q3V5L5-5	.;.	R	247;247;258	ENSP00000301618:G247R;ENSP00000391227:G258R	ENSP00000301618:G247R	G	+	1	0	MGAT5B	72412894	1.000000	0.71417	0.997000	0.53966	0.957000	0.61999	8.893000	0.92498	2.416000	0.81992	0.514000	0.50259	GGG		0.637	MGAT5B-010	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000460624.2	NM_144677		A	74901299	G	A	74901299	3	1	664	1	0	0	0	0	1	0	0	0	9556	1116	39	1	866	1	MGAT5B	17	74901299	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	743334	74901299	6293911	859	42169										
SEPT9	10801	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr17	75471796	75471796	+	Intron	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gatggaggcaaggaagtcttCgccggggcaagggcaccagc	17	10	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:75471796C>T	ENST00000427177.1	+	4	847				SEPT9_ENST00000591198.1_Intron|SEPT9_ENST00000541152.2_Intron|SEPT9_ENST00000590294.1_Intron|SEPT9_ENST00000592420.1_Intron|SEPT9_ENST00000427674.2_Intron|RP11-75C10.9_ENST00000591110.1_RNA|SEPT9_ENST00000431235.2_Intron|SEPT9_ENST00000423034.2_Intron|SEPT9_ENST00000592951.1_Intron|SEPT9_ENST00000427180.1_Missense_Mutation_p.R66C|SEPT9_ENST00000588690.1_Intron|SEPT9_ENST00000585930.1_Intron|SEPT9_ENST00000591088.1_Intron|SEPT9_ENST00000590917.1_Intron|SEPT9_ENST00000449803.2_Intron|SEPT9_ENST00000592481.1_Intron|SEPT9_ENST00000329047.8_Intron	NM_001113491.1	NP_001106963.1	Q9UHD8	SEPT9_HUMAN	septin 9						cell cycle (GO:0007049)|cell division (GO:0051301)|GTP catabolic process (GO:0006184)|protein heterooligomerization (GO:0051291)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|microtubule (GO:0005874)|perinuclear region of cytoplasm (GO:0048471)|stress fiber (GO:0001725)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			autonomic_ganglia(1)|breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(2)|ovary(1)|pancreas(1)|prostate(2)	16			BRCA - Breast invasive adenocarcinoma(99;0.153)			AGGAAGTCTTCGCCGGGGCAA	0.652																																																0													39	41	41					17																	75471796		1568	3582	5150	SO:0001627	intron_variant	10801			AB023208	CCDS45790.1, CCDS45791.1, CCDS45792.1, CCDS45793.1, CCDS45794.1, CCDS45795.1, CCDS74166.1	17q25.3	2014-09-17	2005-01-11	2005-01-12	ENSG00000184640	ENSG00000184640		"Septins"	7323	protein-coding gene	gene with protein product	"Ov/Br septin"	604061	"MLL septin-like fusion"	MSF		10339604, 10485469	Standard	NM_006640		Approved	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1	uc002jts.4	Q9UHD8		ENST00000427177.1:c.722-6430C>T	17.37:g.75471796C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K2V3|B3KPM0|B4DTL9|B4E0N2|B4E274|B7Z654|Q96QF3|Q96QF4|Q96QF5|Q9HA04|Q9UG40|Q9Y5W4	Missense_Mutation	SNP	ENST00000427177.1	37	CCDS45790.1	.	.	.	.	.	.	.	.	.	.	C	8.511	0.866491	0.17250	.	.	ENSG00000184640	ENST00000427180	T	0.54675	0.56	1.35	-0.966	0.10320	.	.	.	.	.	T	0.35008	0.0917	.	.	.	0.09310	N	0.999999	B	0.02656	0.0	B	0.01281	0.0	T	0.30179	-0.9987	8	0.72032	D	0.01	.	2.6267	0.04931	0.0:0.4635:0.3143:0.2222	.	66	Q9UHD8-8	.	C	66	ENSP00000415624:R66C	ENSP00000415624:R66C	R	+	1	0	SEPT9	72983391	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.942000	0.03921	-0.256000	0.09473	0.297000	0.19635	CGC		0.652	SEPT9-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000436304.2	NM_006640		T	75471796	C	T	75471796	1	4	664	0	1	0	0	0	0	0	0	0	14084	884	31	1		1	SEPT9	17	75471796	Intron	SNP	C	TCGA-KN-8428-01A-11D-2310-10	570497	75471796	5723414	860	42170										
TNRC6C	57690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	76071339	76071339	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaaagagtcttccgtggacCgccccacctttcttgacaag	8	15	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:76071339C>T	ENST00000588061.1	+	10	3767	c.3040C>T	c.(3040-3042)Cgc>Tgc	p.R1014C	TNRC6C_ENST00000588847.1_Missense_Mutation_p.R1011C|TNRC6C_ENST00000544502.1_Missense_Mutation_p.R1011C|TNRC6C_ENST00000301624.4_Missense_Mutation_p.R1014C|TNRC6C_ENST00000541771.1_Missense_Mutation_p.R1014C|TNRC6C_ENST00000335749.4_Missense_Mutation_p.R1011C			Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C	1014					embryonic hemopoiesis (GO:0035162)|endoderm formation (GO:0001706)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|innate immune response (GO:0045087)|negative regulation of translation involved in gene silencing by miRNA (GO:0035278)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch signaling pathway (GO:0007219)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|regulation of gene silencing by miRNA (GO:0060964)	cytosol (GO:0005829)	nucleotide binding (GO:0000166)|RNA binding (GO:0003723)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(9)|lung(16)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	40			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			TTCCGTGGACCGCCCCACCTT	0.507																																																0													18	20	19					17																	76071339		1866	4088	5954	SO:0001583	missense	57690			AL834429	CCDS45798.1, CCDS45799.1	17q25.3	2012-10-04			ENSG00000078687	ENSG00000078687		"Trinucleotide (CAG) repeat containing"	29318	protein-coding gene	gene with protein product		610741					Standard	NM_018996		Approved	KIAA1582, FLJ20015	uc002juf.2	Q9HCJ0	OTTHUMG00000132642	ENST00000588061.1:c.3040C>T	17.37:g.76071339C>T	ENSP00000468647:p.Arg1014Cys	Somatic		WXS	Illumina HiSeq	Phase_I	G3XAB8|Q86UE5|Q8N3D8|Q96MU9	Missense_Mutation	SNP	ENST00000588061.1	37	CCDS45798.1	.	.	.	.	.	.	.	.	.	.	C	27.9	4.875961	0.91664	.	.	ENSG00000078687	ENST00000455761;ENST00000395801;ENST00000335749;ENST00000301624;ENST00000541771;ENST00000544502	T;T;T;T	0.17691	2.27;2.26;2.26;2.27	5.86	5.86	0.93980	.	0.000000	0.85682	D	0.000000	T	0.41096	0.1144	L	0.55481	1.735	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.996;0.999;0.996	T	0.03184	-1.1063	10	0.54805	T	0.06	-13.682	20.1707	0.98158	0.0:1.0:0.0:0.0	.	1011;1014;1014	G3XAB8;Q9HCJ0-2;Q9HCJ0	.;.;TNR6C_HUMAN	C	1014;1011;1011;1014;1014;1011	ENSP00000336783:R1011C;ENSP00000301624:R1014C;ENSP00000440310:R1014C;ENSP00000442421:R1011C	ENSP00000301624:R1014C	R	+	1	0	TNRC6C	73582934	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.226000	0.65299	2.773000	0.95371	0.655000	0.94253	CGC		0.507	TNRC6C-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000395947.1	NM_018996		T	76071339	C	T	76071339	3	4	664	1	0	0	0	0	1	0	0	0	16354	652	23	1	3062	1	TNRC6C	17	76071339	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	599543	76071339	5123871	861	42171										
RNF213	57674	hgsc.bcm.edu;mdanderson.org	37	chr17	78318717	78318717	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggctctgtcgaaggcaccccGgaggaatgcctccagcattt	12	13	1	0	rs140158248	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:78318717G>A	ENST00000582970.1	+	29	6725	c.6582G>A	c.(6580-6582)ccG>ccA	p.P2194P	RNF213_ENST00000508628.2_Silent_p.P2243P|RNF213_ENST00000336301.6_Silent_p.P267P	NM_001256071.1	NP_001243000.1	Q63HN8	RN213_HUMAN	ring finger protein 213	2194					ATP catabolic process (GO:0006200)|protein autoubiquitination (GO:0051865)|protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)|membrane (GO:0016020)	ATPase activity (GO:0016887)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(7)|central_nervous_system(1)|cervix(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(23)|lung(36)|ovary(11)|pancreas(2)|prostate(4)|skin(3)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	130	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			AAGGCACCCCGGAGGAATGCC	0.473													G|||	11	0.00219649	0.0076	0.0	5008	,	,		21249	0.001		0.0	False		,,,				2504	0.0															0								G		28,4378	34.3+/-65.2	0,28,2175	93	94	94		6729	-11.1	0	17	dbSNP_134	94	0,8600		0,0,4300	no	coding-synonymous	RNF213	NM_020914.4		0,28,6475	AA,AG,GG		0.0,0.6355,0.2153		2243/5257	78318717	28,12978	2203	4300	6503	SO:0001819	synonymous_variant	57674			AK074030	CCDS58606.1	17q25.3	2013-01-09	2007-02-08	2007-02-08		ENSG00000173821		"RING-type (C3HC4) zinc fingers"	14539	protein-coding gene	gene with protein product		613768	"chromosome 17 open reading frame 27", "KIAA1618", "moyamoya disease 2", "Moyamoya disease 2"	C17orf27, KIAA1618, MYMY2		10997877, 21048783, 21799892	Standard	NM_020954		Approved	KIAA1554, NET57	uc021uen.2	Q63HN8		ENST00000582970.1:c.6582G>A	17.37:g.78318717G>A		Somatic		WXS	Illumina HiSeq	Phase_I	C9JCP4|D6RI12|F8WKS1|Q658P6|Q69YK7|Q6MZR1|Q8IWF4|Q8IZX1|Q8IZX2|Q8N406|Q8TEU0|Q9H6C9|Q9H6H9|Q9H6P3|Q9H8A9|Q9HCF4|Q9HCL8	Silent	SNP	ENST00000582970.1	37	CCDS58606.1																																																																																				0.473	RNF213-020	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000443298.1	NM_020914		A	78318717	G	A	78318717	2	1	664	1	0	0	0	0	0	0	0	1	13490	1103	39	1		1	RNF213	17	78318717	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2247378	78318717	2876493	862	42172										
RNF213	57674	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr17	78320904	78320904	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atctgctcctcagacatcctCgtccaggaccgagtccaagg	9	15	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:78320904C>T	ENST00000582970.1	+	29	8912	c.8769C>T	c.(8767-8769)ctC>ctT	p.L2923L	RNF213_ENST00000508628.2_Silent_p.L2972L|RNF213_ENST00000336301.6_Silent_p.L996L	NM_001256071.1	NP_001243000.1	Q63HN8	RN213_HUMAN	ring finger protein 213	2923					ATP catabolic process (GO:0006200)|protein autoubiquitination (GO:0051865)|protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)|membrane (GO:0016020)	ATPase activity (GO:0016887)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(7)|central_nervous_system(1)|cervix(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(23)|lung(36)|ovary(11)|pancreas(2)|prostate(4)|skin(3)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	130	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			CAGACATCCTCGTCCAGGACC	0.557																																																0													60	53	55					17																	78320904		2203	4300	6503	SO:0001819	synonymous_variant	57674			AK074030	CCDS58606.1	17q25.3	2013-01-09	2007-02-08	2007-02-08		ENSG00000173821		"RING-type (C3HC4) zinc fingers"	14539	protein-coding gene	gene with protein product		613768	"chromosome 17 open reading frame 27", "KIAA1618", "moyamoya disease 2", "Moyamoya disease 2"	C17orf27, KIAA1618, MYMY2		10997877, 21048783, 21799892	Standard	NM_020954		Approved	KIAA1554, NET57	uc021uen.2	Q63HN8		ENST00000582970.1:c.8769C>T	17.37:g.78320904C>T		Somatic		WXS	Illumina HiSeq	Phase_I	C9JCP4|D6RI12|F8WKS1|Q658P6|Q69YK7|Q6MZR1|Q8IWF4|Q8IZX1|Q8IZX2|Q8N406|Q8TEU0|Q9H6C9|Q9H6H9|Q9H6P3|Q9H8A9|Q9HCF4|Q9HCL8	Silent	SNP	ENST00000582970.1	37	CCDS58606.1																																																																																				0.557	RNF213-020	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000443298.1	NM_020914		T	78320904	C	T	78320904	2	4	664	1	0	0	0	0	0	0	0	1	13490	871	31	1		1	RNF213	17	78320904	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2187	78320904	2874306	863	42173										
C17orf56	146705	broad.mit.edu;mdanderson.org	37	chr17	79203107	79203107	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agggagcagggctccgggacGagaccggggttgaactcaga	18	9	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:79203107G>A	ENST00000300714.3	-	12	1256	c.1199C>T	c.(1198-1200)tCg>tTg	p.S400L	AC027601.1_ENST00000575922.1_RNA|ENTHD2_ENST00000374769.2_Missense_Mutation_p.S316L|AC027601.1_ENST00000569559.1_RNA	NM_144679.2	NP_653280.1	Q96N21	AP4AT_HUMAN	ENTH domain containing 2	400	Pro-rich.					cytoplasmic vesicle (GO:0031410)											GCTCCGGGACGAGACCGGGGT	0.697																																																0													12	10	11					17																	79203107		2186	4284	6470	SO:0001583	missense	146705			AK056090	CCDS11779.1	17q25.3	2012-07-18	2012-07-18	2012-07-18	ENSG00000167302	ENSG00000167302			26458	protein-coding gene	gene with protein product			"chromosome 17 open reading frame 56"	C17orf56			Standard	NM_144679		Approved	FLJ31528	uc002jzu.2	Q96N21	OTTHUMG00000177866	ENST00000300714.3:c.1199C>T	17.37:g.79203107G>A	ENSP00000300714:p.Ser400Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQU0|Q6ZSQ9	Missense_Mutation	SNP	ENST00000300714.3	37	CCDS11779.1	.	.	.	.	.	.	.	.	.	.	G	4.727	0.135111	0.09032	.	.	ENSG00000167302	ENST00000300714;ENST00000374769	T;T	0.63255	-0.03;-0.03	4.31	-5.6	0.02497	.	.	.	.	.	T	0.33030	0.0849	N	0.16478	0.41	0.09310	N	1	B;B	0.09022	0.002;0.001	B;B	0.04013	0.001;0.001	T	0.39563	-0.9608	9	0.02654	T	1	2.2347	6.7078	0.23260	0.6036:0.0:0.2796:0.1168	.	400;316	Q96N21;Q96N21-2	CQ056_HUMAN;.	L	400;316	ENSP00000300714:S400L;ENSP00000363901:S316L	ENSP00000300714:S400L	S	-	2	0	C17orf56	76817702	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.483000	0.06536	-1.170000	0.02769	-0.373000	0.07131	TCG		0.697	ENTHD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000439315.1	NM_144679		A	79203107	G	A	79203107	3	1	664	1	0	0	0	0	1	0	0	0	1866	1059	37	1	382	1	C17orf56	17	79203107	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	882203	79203107	1992103	864	42174										
SLC38A10	124565	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	79226231	79226231	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gatcttcaggaagatcacccGcctcctccaaggcctgggcc	10	16	3	1	rs376751634		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:79226231G>A	ENST00000374759.3	-	13	2092	c.1709C>T	c.(1708-1710)gCg>gTg	p.A570V	SLC38A10_ENST00000288439.5_Missense_Mutation_p.A570V	NM_001037984.1	NP_001033073.1	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10	570					amino acid transport (GO:0006865)|bone development (GO:0060348)|sodium ion transport (GO:0006814)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)				NS(1)|breast(2)|endometrium(4)|kidney(2)|large_intestine(2)|lung(7)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	23	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			AAGATCACCCGCCTCCTCCAA	0.622																																																0									VAL/ALA,VAL/ALA	1,4405	2.1+/-5.4	0,1,2202	47	53	51		1709,1709	-4.2	0	17		51	0,8600		0,0,4300	no	missense,missense	SLC38A10	NM_001037984.1,NM_138570.2	64,64	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	benign,benign	570/1120,570/781	79226231	1,13005	2203	4300	6503	SO:0001583	missense	124565			BC014642	CCDS11780.1, CCDS42397.1	17q25.3	2013-05-22			ENSG00000157637	ENSG00000157637		"Solute carriers"	28237	protein-coding gene	gene with protein product							Standard	XM_005257019		Approved	MGC15523, PP1744	uc002jzz.1	Q9HBR0	OTTHUMG00000168049	ENST00000374759.3:c.1709C>T	17.37:g.79226231G>A	ENSP00000363891:p.Ala570Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZRC5|Q8NA99|Q96C66	Missense_Mutation	SNP	ENST00000374759.3	37	CCDS42397.1	.	.	.	.	.	.	.	.	.	.	G	4.717	0.133407	0.09032	2.27E-4	0.0	ENSG00000157637	ENST00000374759;ENST00000288439	T;T	0.09630	3.21;2.96	3.57	-4.19	0.03835	.	1376.610000	0.00166	N	0.000000	T	0.06325	0.0163	N	0.11255	0.115	0.09310	N	1	B;B	0.11235	0.004;0.002	B;B	0.06405	0.002;0.001	T	0.34725	-0.9817	10	0.22109	T	0.4	-0.1859	10.2033	0.43099	0.5972:0.0:0.4028:0.0	.	570;570	Q9HBR0-2;Q9HBR0	.;S38AA_HUMAN	V	570	ENSP00000363891:A570V;ENSP00000288439:A570V	ENSP00000288439:A570V	A	-	2	0	SLC38A10	76840826	0.000000	0.05858	0.000000	0.03702	0.067000	0.16453	-0.578000	0.05841	-0.783000	0.04534	-0.760000	0.03462	GCG		0.622	SLC38A10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000397747.1	NM_138570		A	79226231	G	A	79226231	3	1	664	1	0	0	0	0	1	0	0	0	14615	1087	38	1	1944	1	SLC38A10	17	79226231	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	23124	79226231	1968979	865	42175										
C17orf70	80233	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr17	79512906	79512906	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggtggcacagcacaggggcaCgcctggaggggaggcatcag	19	10	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:79512906C>T	ENST00000327787.8	-	6	2222	c.2176G>A	c.(2176-2178)Gtg>Atg	p.V726M	C17orf70_ENST00000425898.2_Missense_Mutation_p.V375M|C17orf70_ENST00000537152.1_Missense_Mutation_p.V575M			Q0VG06	FP100_HUMAN	chromosome 17 open reading frame 70	726					DNA repair (GO:0006281)	cytoplasm (GO:0005737)|Fanconi anaemia nuclear complex (GO:0043240)|intermediate filament cytoskeleton (GO:0045111)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|central_nervous_system(1)|endometrium(1)|lung(11)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	19	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			CACAGGGGCACGCCTGGAGGG	0.642																																																0													39	31	34					17																	79512906		2199	4300	6499	SO:0001583	missense	80233			BC008883	CCDS32765.1, CCDS32765.2	17q25.3	2012-05-30			ENSG00000185504	ENSG00000185504			26171	protein-coding gene	gene with protein product	"Fanconi anemia-associated protein, 100kDa"	611301				17396147	Standard	NM_025161		Approved	FLJ22175, FAAP100	uc002kaq.3	Q0VG06	OTTHUMG00000167764	ENST00000327787.8:c.2176G>A	17.37:g.79512906C>T	ENSP00000333283:p.Val726Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNM1|Q8N3F7|Q9BV13|Q9H6K7|Q9H7E8	Missense_Mutation	SNP	ENST00000327787.8	37	CCDS32765.2	.	.	.	.	.	.	.	.	.	.	C	15.77	2.930341	0.52866	.	.	ENSG00000185504	ENST00000327787;ENST00000425898;ENST00000361039;ENST00000537152	T;T;T	0.35421	1.31;1.31;1.31	4.41	-1.67	0.08238	.	1.397600	0.05224	N	0.509143	T	0.32010	0.0815	L	0.44542	1.39	0.09310	N	1	D;D	0.57571	0.98;0.98	B;P	0.48598	0.407;0.583	T	0.19877	-1.0292	10	0.39692	T	0.17	-4.1034	1.4826	0.02440	0.1482:0.4547:0.136:0.2612	.	726;375	Q0VG06;E7EVV8	FP100_HUMAN;.	M	726;375;99;575	ENSP00000333283:V726M;ENSP00000399674:V375M;ENSP00000440151:V575M	ENSP00000333283:V726M	V	-	1	0	C17orf70	77123359	0.000000	0.05858	0.000000	0.03702	0.242000	0.25591	-0.558000	0.05978	-0.283000	0.09115	-0.304000	0.09214	GTG		0.642	C17orf70-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396170.1	NM_025161		T	79512906	C	T	79512906	3	4	664	1	0	0	0	0	1	0	0	0	1879	536	19	1	485	1	C17orf70	17	79512906	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	286675	79512906	1682304	866	42176										
HGS	9146	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	79663491	79663491	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agaagcttcgccgggcagccGaggaggcagagcgccagcgc	17	13	0	2	rs567318549		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr17:79663491G>A	ENST00000329138.4	+	16	1633	c.1498G>A	c.(1498-1500)Gag>Aag	p.E500K		NM_004712.4	NP_004703.1	O14964	HGS_HUMAN	hepatocyte growth factor-regulated tyrosine kinase substrate	500	Interaction with NF2.|Interaction with SNAP25 and TRAK2. {ECO:0000250}.|Interaction with SNX1. {ECO:0000250}.|Interaction with STAM1. {ECO:0000250}.				endosomal transport (GO:0016197)|endosome to lysosome transport (GO:0008333)|epidermal growth factor receptor signaling pathway (GO:0007173)|membrane invagination (GO:0010324)|membrane organization (GO:0061024)|negative regulation of cell proliferation (GO:0008285)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|negative regulation of JAK-STAT cascade (GO:0046426)|positive regulation of gene expression (GO:0010628)|protein localization to membrane (GO:0072657)|protein targeting to lysosome (GO:0006622)|regulation of protein catabolic process (GO:0042176)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|early endosome (GO:0005769)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|secretory granule (GO:0030141)	metal ion binding (GO:0046872)|protein domain specific binding (GO:0019904)			endometrium(2)|kidney(3)|lung(4)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	12	all_neural(118;0.0878)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)			CCGGGCAGCCGAGGAGGCAGA	0.687													G|||	1	0.000199681	0.0	0.0	5008	,	,		14536	0.0		0.0	False		,,,				2504	0.001															0													10	13	12					17																	79663491		2176	4273	6449	SO:0001583	missense	9146			D84064	CCDS11784.1	17q25	2009-04-29				ENSG00000185359		"Zinc fingers, FYVE domain containing"	4897	protein-coding gene	gene with protein product		604375				9407053, 9630564	Standard	NM_004712		Approved	Hrs, ZFYVE8, Vps27	uc002kbg.3	O14964		ENST00000329138.4:c.1498G>A	17.37:g.79663491G>A	ENSP00000331201:p.Glu500Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NR36	Missense_Mutation	SNP	ENST00000329138.4	37	CCDS11784.1	.	.	.	.	.	.	.	.	.	.	G	35	5.497274	0.96355	.	.	ENSG00000185359	ENST00000329138;ENST00000442335	T	0.04706	3.57	4.42	4.42	0.53409	Hepatocyte growth factor-regulated tyrosine kinase substrate, helical domain (1);	0.000000	0.85682	D	0.000000	T	0.17704	0.0425	L	0.57536	1.79	0.80722	D	1	D	0.76494	0.999	D	0.74674	0.984	T	0.00636	-1.1633	10	0.51188	T	0.08	-37.8227	16.3585	0.83245	0.0:0.0:1.0:0.0	.	500	O14964	HGS_HUMAN	K	500	ENSP00000331201:E500K	ENSP00000331201:E500K	E	+	1	0	HGS	77273896	1.000000	0.71417	0.954000	0.39281	0.992000	0.81027	9.099000	0.94207	2.164000	0.68074	0.549000	0.68633	GAG		0.687	HGS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440541.1	NM_004712		A	79663491	G	A	79663491	3	1	664	1	0	0	0	0	1	0	0	0	7094	1059	37	1	1560	1	HGS	17	79663491	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	150585	79663491	1531719	867	42177										
USP14	9097	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr18	198072	198072	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcctcatctgcatcggcagCgacaccttctaaaaagaaaa	6	13	3	1	rs199949125		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:198072C>T	ENST00000261601.7	+	9	792	c.701C>T	c.(700-702)gCg>gTg	p.A234V	USP14_ENST00000400266.3_Missense_Mutation_p.A223V|USP14_ENST00000383589.2_Missense_Mutation_p.A188V|USP14_ENST00000582707.1_Missense_Mutation_p.A199V	NM_005151.3	NP_005142.1	P54578	UBP14_HUMAN	ubiquitin specific peptidase 14 (tRNA-guanine transglycosylase)	234	USP.				negative regulation of endopeptidase activity (GO:0010951)|protein deubiquitination (GO:0016579)|regulation of chemotaxis (GO:0050920)|regulation of proteasomal protein catabolic process (GO:0061136)|synaptic transmission (GO:0007268)|ubiquitin-dependent protein catabolic process (GO:0006511)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)|proteasome complex (GO:0000502)|synapse (GO:0045202)	cysteine-type endopeptidase activity (GO:0004197)|endopeptidase inhibitor activity (GO:0004866)|proteasome binding (GO:0070628)|tRNA guanylyltransferase activity (GO:0008193)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			endometrium(1)|large_intestine(1)|lung(5)|ovary(2)|skin(2)	11		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)				GCATCGGCAGCGACACCTTCT	0.333													C|||	1	0.000199681	0.0	0.0	5008	,	,		14356	0.001		0.0	False		,,,				2504	0.0															0													58	60	59					18																	198072		2203	4300	6503	SO:0001583	missense	9097			U30888	CCDS32780.1, CCDS32781.1	18p11.32	2006-10-06	2005-08-08			ENSG00000101557		"Ubiquitin-specific peptidases"	12612	protein-coding gene	gene with protein product		607274	"ubiquitin specific protease 14 (tRNA-guanine transglycosylase)"			12838346	Standard	NM_001037334		Approved	TGT	uc002kkf.1	P54578		ENST00000261601.7:c.701C>T	18.37:g.198072C>T	ENSP00000261601:p.Ala234Val	Somatic		WXS	Illumina HiSeq	Phase_I	J3QRZ5|Q53XY5	Missense_Mutation	SNP	ENST00000261601.7	37	CCDS32780.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	C	7.068	0.567778	0.13560	.	.	ENSG00000101557	ENST00000261601;ENST00000383589;ENST00000400266	T;T	0.31247	1.5;1.5	6.17	1.12	0.20585	Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2 (2);	0.254724	0.44902	N	0.000410	T	0.13157	0.0319	N	0.19112	0.55	0.44728	D	0.997725	B;B;B	0.09022	0.001;0.002;0.001	B;B;B	0.09377	0.003;0.004;0.003	T	0.14559	-1.0468	10	0.09084	T	0.74	-5.7672	3.78	0.08677	0.1964:0.4519:0.0:0.3516	.	223;199;234	B7Z4N8;A6NJA2;P54578	.;.;UBP14_HUMAN	V	234;199;223	ENSP00000261601:A234V;ENSP00000383125:A223V	ENSP00000261601:A234V	A	+	2	0	USP14	188072	0.165000	0.22948	0.949000	0.38748	0.530000	0.34684	0.732000	0.26072	0.190000	0.20209	-0.302000	0.09304	GCG		0.333	USP14-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440305.3	NM_005151		T	198072	C	T	198072	3	4	664	1	0	0	0	0	1	0	0	0	17057	768	27	1	735	1	USP14	18	198072	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10		198072	77879176	868	42178										
THOC1	9984	broad.mit.edu;mdanderson.org	37	chr18	216576	216576	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gttggctggaagaagtgaggGcttctccgtgctaatagtct	14	7	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:216576G>A	ENST00000261600.6	-	19	1519	c.1512C>T	c.(1510-1512)agC>agT	p.S504S		NM_005131.2	NP_005122.2	Q96FV9	THOC1_HUMAN	THO complex 1	504					apoptotic process (GO:0006915)|mRNA export from nucleus (GO:0006406)|mRNA processing (GO:0006397)|negative regulation of DNA damage checkpoint (GO:2000002)|negative regulation of isotype switching to IgA isotypes (GO:0048297)|positive regulation of DNA-templated transcription, elongation (GO:0032786)|regulation of DNA recombination (GO:0000018)|regulation of DNA-templated transcription, elongation (GO:0032784)|replication fork processing (GO:0031297)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)|viral mRNA export from host cell nucleus (GO:0046784)	cytoplasm (GO:0005737)|intercellular bridge (GO:0045171)|nucleus (GO:0005634)|THO complex (GO:0000347)|THO complex part of transcription export complex (GO:0000445)|transcription export complex (GO:0000346)	DNA binding (GO:0003677)|RNA binding (GO:0003723)			breast(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(5)|ovary(1)|skin(1)|stomach(1)|urinary_tract(1)	20		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)				AGAAGTGAGGGCTTCTCCGTG	0.393																																																0													151	151	151					18																	216576		1851	4094	5945	SO:0001819	synonymous_variant	9984			AK055354	CCDS45820.1	18p11.32	2013-02-11			ENSG00000079134	ENSG00000079134		"THO complex subunits"	19070	protein-coding gene	gene with protein product		606930				11979277	Standard	NM_005131		Approved	P84, HPR1	uc002kkj.4	Q96FV9		ENST00000261600.6:c.1512C>T	18.37:g.216576G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBP6|Q15219|Q64I72|Q64I73	Silent	SNP	ENST00000261600.6	37	CCDS45820.1																																																																																				0.393	THOC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440348.5	NM_005131		A	216576	G	A	216576	2	1	664	1	0	0	0	0	0	0	0	1	15876	1194	42	2		2	THOC1	18	216576	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	18504	216576	77860672	869	42179										
NDC80	10403	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	2610781	2610781	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaactagttgtgcaaaccaCgactgaagaaagacgaaaag	9	9	0	3	rs536241153		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:2610781C>T	ENST00000261597.4	+	16	1894	c.1712C>T	c.(1711-1713)aCg>aTg	p.T571M		NM_006101.2	NP_006092.1	O14777	NDC80_HUMAN	NDC80 kinetochore complex component	571	Interaction with NEK2 and ZWINT.|Interaction with the C-terminus of CDCA1 and the SPBC24-SPBC25 subcomplex.				attachment of spindle microtubules to kinetochore (GO:0008608)|chromosome segregation (GO:0007059)|establishment of mitotic spindle orientation (GO:0000132)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic sister chromatid segregation (GO:0000070)|mitotic spindle organization (GO:0007052)	chromosome, centromeric region (GO:0000775)|condensed chromosome kinetochore (GO:0000777)|condensed nuclear chromosome outer kinetochore (GO:0000942)|cytosol (GO:0005829)|kinetochore (GO:0000776)|membrane (GO:0016020)|Ndc80 complex (GO:0031262)|nucleus (GO:0005634)				NS(1)|biliary_tract(2)|breast(1)|endometrium(1)|kidney(3)|large_intestine(2)|lung(6)|ovary(2)|prostate(2)|urinary_tract(2)	22						GTGCAAACCACGACTGAAGAA	0.388													C|||	1	0.000199681	0.0	0.0014	5008	,	,		16274	0.0		0.0	False		,,,				2504	0.0															0													188	173	178					18																	2610781		2203	4300	6503	SO:0001583	missense	10403			AF017790	CCDS11827.1	18p11.31	2013-01-17	2013-01-17	2007-03-02	ENSG00000080986	ENSG00000080986			16909	protein-coding gene	gene with protein product		607272	"highly expressed in cancer, rich in leucine heptad repeats (yeast)", "kinetochore associated 2", "NDC80 kinetochore complex component homolog (S. cerevisiae)"	KNTC2		9315664, 12351790	Standard	NM_006101		Approved	HEC, HEC1, hsNDC80, TID3	uc002kli.3	O14777	OTTHUMG00000131483	ENST00000261597.4:c.1712C>T	18.37:g.2610781C>T	ENSP00000261597:p.Thr571Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PJX2	Missense_Mutation	SNP	ENST00000261597.4	37	CCDS11827.1	.	.	.	.	.	.	.	.	.	.	C	11.34	1.611199	0.28712	.	.	ENSG00000080986	ENST00000261597	T	0.50001	0.76	5.34	5.34	0.76211	.	0.045740	0.85682	D	0.000000	T	0.65821	0.2728	M	0.66939	2.045	0.53688	D	0.999977	D	0.89917	1.0	D	0.69479	0.964	T	0.61589	-0.7032	10	0.27785	T	0.31	-12.0354	17.7979	0.88578	0.0:1.0:0.0:0.0	.	571	O14777	NDC80_HUMAN	M	571	ENSP00000261597:T571M	ENSP00000261597:T571M	T	+	2	0	NDC80	2600781	1.000000	0.71417	1.000000	0.80357	0.043000	0.13939	4.732000	0.62029	2.500000	0.84329	0.585000	0.79938	ACG		0.388	NDC80-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254327.1	NM_006101		T	2610781	C	T	2610781	3	4	664	1	0	0	0	0	1	0	0	0	10249	536	19	1	1770	1	NDC80	18	2610781	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2394205	2610781	75466467	870	42180										
ROCK1	6093	broad.mit.edu;mdanderson.org	37	chr18	18533573	18533573	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtatttttgaccactttccGgaaagactgatttgcagtgg	10	7	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:18533573G>A	ENST00000399799.2	-	32	4967	c.4027C>T	c.(4027-4029)Cgg>Tgg	p.R1343W		NM_005406.2	NP_005397.1	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein kinase 1	1343	Auto-inhibitory.				actin cytoskeleton organization (GO:0030036)|apical constriction (GO:0003383)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|bleb assembly (GO:0032060)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|leukocyte cell-cell adhesion (GO:0007159)|leukocyte migration (GO:0050900)|leukocyte tethering or rolling (GO:0050901)|membrane to membrane docking (GO:0022614)|myoblast migration (GO:0051451)|negative regulation of angiogenesis (GO:0016525)|negative regulation of neuron apoptotic process (GO:0043524)|positive regulation of focal adhesion assembly (GO:0051894)|protein phosphorylation (GO:0006468)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of cell adhesion (GO:0030155)|regulation of cell motility (GO:2000145)|regulation of establishment of cell polarity (GO:2000114)|regulation of focal adhesion assembly (GO:0051893)|regulation of keratinocyte differentiation (GO:0045616)|regulation of stress fiber assembly (GO:0051492)|Rho protein signal transduction (GO:0007266)|signal transduction (GO:0007165)|smooth muscle contraction (GO:0006939)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(4)|central_nervous_system(1)|large_intestine(8)|lung(2)	16	Melanoma(1;0.165)					ACCACTTTCCGGAAAGACTGA	0.358																																																0													91	101	97					18																	18533573		2201	4296	6497	SO:0001583	missense	6093				CCDS11870.2	18q11.2	2013-01-10			ENSG00000067900	ENSG00000067900	2.7.11.1	"Pleckstrin homology (PH) domain containing"	10251	protein-coding gene	gene with protein product		601702				8617235	Standard	NM_005406		Approved	p160ROCK	uc002kte.3	Q13464	OTTHUMG00000131723	ENST00000399799.2:c.4027C>T	18.37:g.18533573G>A	ENSP00000382697:p.Arg1343Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ91|Q2KHM4|Q59GZ4	Missense_Mutation	SNP	ENST00000399799.2	37	CCDS11870.2	.	.	.	.	.	.	.	.	.	.	G	11.86	1.764115	0.31228	.	.	ENSG00000067900	ENST00000399799	T	0.72394	-0.65	4.88	3.99	0.46301	.	0.000000	0.85682	D	0.000000	T	0.69296	0.3095	N	0.08118	0	0.58432	D	0.999999	D	0.89917	1.0	D	0.85130	0.997	T	0.75628	-0.3252	10	0.87932	D	0	.	13.4607	0.61225	0.0:0.0:0.6287:0.3713	.	1343	Q13464	ROCK1_HUMAN	W	1343	ENSP00000382697:R1343W	ENSP00000382697:R1343W	R	-	1	2	ROCK1	16787571	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	3.691000	0.54720	1.024000	0.39682	0.404000	0.27445	CGG		0.358	ROCK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254641.2	NM_005406		A	18533573	G	A	18533573	3	1	664	1	0	0	0	0	1	0	0	0	13530	1115	39	1	45	1	ROCK1	18	18533573	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	15922792	18533573	59543675	871	42181										
LAMA3	3909	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr18	21474920	21474920	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aacgacctggccaccatgggCgagcagctccgcctggtcaa	12	15	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:21474920C>T	ENST00000313654.9	+	44	5752	c.5511C>T	c.(5509-5511)ggC>ggT	p.G1837G	LAMA3_ENST00000269217.6_Silent_p.G228G|LAMA3_ENST00000399516.3_Silent_p.G1837G|AC010754.1_ENST00000408462.1_RNA|LAMA3_ENST00000587184.1_Silent_p.G228G	NM_198129.1	NP_937762.1	Q16787	LAMA3_HUMAN	laminin, alpha 3	1837	Domain II and I.				cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|endodermal cell differentiation (GO:0035987)|epidermis development (GO:0008544)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of embryonic development (GO:0045995)	basement membrane (GO:0005604)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)|laminin-5 complex (GO:0005610)	structural molecule activity (GO:0005198)			NS(2)|breast(4)|central_nervous_system(3)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(24)|lung(54)|ovary(8)|prostate(6)|skin(7)|urinary_tract(4)	128	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)					CCACCATGGGCGAGCAGCTCC	0.622																																																0													54	46	49					18																	21474920		2203	4300	6503	SO:0001819	synonymous_variant	3909			L34155	CCDS11880.1, CCDS42419.1, CCDS45838.1, CCDS59307.1	18q11.2	2013-03-01	2002-08-29		ENSG00000053747	ENSG00000053747		"Laminins"	6483	protein-coding gene	gene with protein product		600805	"laminin, alpha 3 (nicein (150kD), kalinin (165kD), BM600 (150kD), epilegrin)"	LAMNA		8077230	Standard	NM_000227		Approved	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin	uc002kuq.3	Q16787	OTTHUMG00000131874	ENST00000313654.9:c.5511C>T	18.37:g.21474920C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ33|Q13679|Q13680|Q6VU67|Q6VU68|Q6VU69|Q76E14|Q96TG0	Silent	SNP	ENST00000313654.9	37	CCDS42419.1																																																																																				0.622	LAMA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254824.3	NM_000227, NM_198129		T	21474920	C	T	21474920	2	4	664	1	0	0	0	0	0	0	0	1	8614	755	27	1		1	LAMA3	18	21474920	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2941347	21474920	56602328	872	42182										
DSG4	147409	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	28972125	28972125	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccttgcattttagtactcagCcagtattgaagagaattgtt	8	7	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:28972125C>T	ENST00000308128.4	+	8	962	c.827C>T	c.(826-828)gCc>gTc	p.A276V	RP11-534N16.1_ENST00000581856.1_RNA|RP11-534N16.1_ENST00000578477.1_RNA|DSG4_ENST00000359747.4_Missense_Mutation_p.A276V|RP11-534N16.1_ENST00000581452.1_RNA	NM_177986.3	NP_817123.1	Q86SJ6	DSG4_HUMAN	desmoglein 4	276	Cadherin 3. {ECO:0000255|PROSITE- ProRule:PRU00043}.		Missing (in HYPT6). {ECO:0000269|PubMed:12705872, ECO:0000269|PubMed:15191570}.		anagen (GO:0042640)|BMP signaling pathway (GO:0030509)|homophilic cell adhesion (GO:0007156)|keratinocyte differentiation (GO:0030216)|single organismal cell-cell adhesion (GO:0016337)	desmosome (GO:0030057)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(1)|central_nervous_system(6)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(11)|liver(2)|lung(35)|ovary(4)|skin(1)|stomach(1)|urinary_tract(1)	70			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			TAGTACTCAGCCAGTATTGAA	0.294																																																0													99	99	99					18																	28972125		2203	4300	6503	SO:0001583	missense	147409			AY177664, AY168788	CCDS11897.1, CCDS45845.1	18q12.1	2010-01-26			ENSG00000175065	ENSG00000175065		"Cadherins / Major cadherins"	21307	protein-coding gene	gene with protein product		607892				12648213	Standard	NM_001134453		Approved	CDHF13, LAH	uc002kwq.2	Q86SJ6	OTTHUMG00000131979	ENST00000308128.4:c.827C>T	18.37:g.28972125C>T	ENSP00000311859:p.Ala276Val	Somatic		WXS	Illumina HiSeq	Phase_I	A2RUI1|Q6Y9L9|Q8IXV4	Missense_Mutation	SNP	ENST00000308128.4	37	CCDS11897.1	.	.	.	.	.	.	.	.	.	.	C	13.99	2.400614	0.42613	.	.	ENSG00000175065	ENST00000308128;ENST00000359747	T;T	0.52295	0.67;0.67	5.66	5.66	0.87406	Cadherin (4);Cadherin-like (1);	0.000000	0.34603	N	0.003836	T	0.31389	0.0795	N	0.17082	0.46	0.39001	D	0.959358	B;B	0.33379	0.207;0.41	B;B	0.37091	0.219;0.241	T	0.17228	-1.0376	10	0.15499	T	0.54	.	10.5213	0.44920	0.0:0.856:0.0:0.144	.	276;276	Q86SJ6-2;Q86SJ6	.;DSG4_HUMAN	V	276	ENSP00000311859:A276V;ENSP00000352785:A276V	ENSP00000311859:A276V	A	+	2	0	DSG4	27226123	1.000000	0.71417	1.000000	0.80357	0.956000	0.61745	2.728000	0.47319	2.830000	0.97506	0.655000	0.94253	GCC		0.294	DSG4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254941.1	NM_177986		T	28972125	C	T	28972125	3	4	664	1	0	0	0	0	1	0	0	0	4781	739	26	2	857	2	DSG4	18	28972125	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	7497205	28972125	49105123	873	42183										
TCEB3C	162699	broad.mit.edu	37	chr18	44554924	44554924	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcggatcggattttcgtggtCactactcgcagccgctgctc	12	13	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:44554924C>T	ENST00000330682.2	-	1	1525	c.1290G>A	c.(1288-1290)gtG>gtA	p.V430V	KATNAL2_ENST00000356157.7_Intron|KATNAL2_ENST00000592005.1_Intron|KATNAL2_ENST00000245121.5_Intron	NM_145653.3	NP_663628.2	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide 3C (elongin A3)	430	Activation domain. {ECO:0000250}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	integral component of membrane (GO:0016021)|nucleus (GO:0005634)	DNA binding (GO:0003677)			NS(1)|cervix(1)|endometrium(5)|kidney(4)|large_intestine(1)|lung(16)|skin(2)	30						TTTTCGTGGTCACTACTCGCA	0.567																																																0													8	8	8					18																	44554924		1152	2342	3494	SO:0001819	synonymous_variant	162699			AB076840	CCDS11931.1	18q21.1	2008-08-13			ENSG00000183791	ENSG00000183791			24617	protein-coding gene	gene with protein product	"elongin A3"					11932239, 11994304	Standard	NM_145653		Approved	HsT829, TCEB3L2	uc010xdb.2	Q8NG57	OTTHUMG00000132651	ENST00000330682.2:c.1290G>A	18.37:g.44554924C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000330682.2	37	CCDS11931.1																																																																																				0.567	TCEB3C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255902.1	NM_145653		T	44554924	C	T	44554924	2	4	664	1	0	0	0	0	0	0	0	1	15695	813	29	2		2	TCEB3C	18	44554924	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	15582799	44554924	33522324	874	42184										
TCEB3B	51224	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr18	44561229	44561229	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaggtctctgttgccccggaGgtgttctgcgtgctgtccgt	15	11	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:44561229G>T	ENST00000332567.4	-	1	759	c.407C>A	c.(406-408)cCt>cAt	p.P136H	KATNAL2_ENST00000356157.7_Intron|KATNAL2_ENST00000592005.1_Intron|KATNAL2_ENST00000245121.5_Intron	NM_016427.2	NP_057511.2	Q8IYF1	ELOA2_HUMAN	transcription elongation factor B polypeptide 3B (elongin A2)	136					regulation of DNA-templated transcription, elongation (GO:0032784)|transcription from RNA polymerase II promoter (GO:0006366)	integral component of membrane (GO:0016021)|nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|cervix(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(15)|lung(24)|ovary(2)|pancreas(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	58						TTGCCCCGGAGGTGTTCTGCG	0.632																																																0													56	65	62					18																	44561229		2203	4294	6497	SO:0001583	missense	51224			BC036022	CCDS11932.1	18q21.1	2009-08-04			ENSG00000206181	ENSG00000206181			30771	protein-coding gene	gene with protein product	"transcription elongation factor (SIII) elongin A2", "elongin A2"	609522				7660129, 8244996	Standard	NM_016427		Approved	HsT832, TCEB3L	uc002lcr.1	Q8IYF1	OTTHUMG00000132649	ENST00000332567.4:c.407C>A	18.37:g.44561229G>T	ENSP00000331302:p.Pro136His	Somatic		WXS	Illumina HiSeq	Phase_I	Q9P2V9	Missense_Mutation	SNP	ENST00000332567.4	37	CCDS11932.1	.	.	.	.	.	.	.	.	.	.	g	5.687	0.311323	0.10789	.	.	ENSG00000206181	ENST00000332567	T	0.07021	3.23	2.74	-5.48	0.02592	.	2.324160	0.02057	N	0.050446	T	0.16599	0.0399	L	0.47716	1.5	0.09310	N	1	D	0.89917	1.0	D	0.73708	0.981	T	0.40098	-0.9581	10	0.15499	T	0.54	-0.0466	6.1248	0.20174	0.3003:0.372:0.3277:0.0	.	136	Q8IYF1	ELOA2_HUMAN	H	136	ENSP00000331302:P136H	ENSP00000331302:P136H	P	-	2	0	TCEB3B	42815227	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.530000	0.02221	-2.758000	0.00371	-1.335000	0.01260	CCT		0.632	TCEB3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255900.1	NM_016427		T	44561229	G	T	44561229	3	4	664	1	0	0	0	0	1	0	0	0	15694	1000	35	4	1858	4	TCEB3B	18	44561229	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6305	44561229	33516019	875	42185										
ZBTB7C	201501	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr18	45567082	45567082	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttgtcatcctcctccccccCgtcccccccaggctccatga	5	23	1	1	rs200362895		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:45567082C>T	ENST00000588982.1	-	3	898	c.397G>A	c.(397-399)Ggg>Agg	p.G133R	ZBTB7C_ENST00000590800.1_Missense_Mutation_p.G133R|ZBTB7C_ENST00000332053.2_Missense_Mutation_p.G133R|ZBTB7C_ENST00000586438.1_Missense_Mutation_p.G133R|ZBTB7C_ENST00000535628.2_Missense_Mutation_p.G133R			A1YPR0	ZBT7C_HUMAN	zinc finger and BTB domain containing 7C	133	Asp-rich.|Glu-rich.						metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)			endometrium(8)|kidney(1)|large_intestine(7)|lung(3)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	23						tcctcccccccgtcccccCCA	0.582																																																0													141	98	112					18																	45567082		2203	4300	6503	SO:0001583	missense	201501			Y14591	CCDS32830.1	18q21.1	2013-01-08		2005-04-07	ENSG00000184828	ENSG00000184828		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	31700	protein-coding gene	gene with protein product			"zinc finger and BTB domain containing 36"	ZBTB36			Standard	NM_001039360		Approved	ZNF857C	uc002ldb.3	A1YPR0		ENST00000588982.1:c.397G>A	18.37:g.45567082C>T	ENSP00000468782:p.Gly133Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O73453	Missense_Mutation	SNP	ENST00000588982.1	37	CCDS32830.1	.	.	.	.	.	.	.	.	.	.	C	10.38	1.334375	0.24253	.	.	ENSG00000184828	ENST00000535628;ENST00000332053	T;T	0.08984	3.03;3.03	4.93	4.93	0.64822	.	0.313831	0.32987	N	0.005419	T	0.07773	0.0195	N	0.14661	0.345	0.31493	N	0.665741	P;P;D	0.58268	0.501;0.501;0.982	B;B;P	0.44732	0.122;0.098;0.459	T	0.06534	-1.0821	10	0.34782	T	0.22	.	18.1181	0.89563	0.0:1.0:0.0:0.0	.	133;133;133	B4DKU0;B2RG49;A1YPR0	.;.;ZBT7C_HUMAN	R	133	ENSP00000439781:G133R;ENSP00000328732:G133R	ENSP00000328732:G133R	G	-	1	0	ZBTB7C	43821080	0.350000	0.24878	0.016000	0.15963	0.168000	0.22595	4.459000	0.60102	2.285000	0.76669	0.561000	0.74099	GGG		0.582	ZBTB7C-025	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450731.1	NM_001039360		T	45567082	C	T	45567082	3	4	664	1	0	0	0	0	1	0	0	0	17567	652	23	1	1470	1	ZBTB7C	18	45567082	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1005853	45567082	32510166	876	42186										
KIAA0427	9811	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr18	46146071	46146071	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gggctgctggctgacaagacGgagggtgatggcgagagcga	20	7	0	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:46146071G>A	ENST00000256413.3	+	2	430	c.135G>A	c.(133-135)acG>acA	p.T45T	CTIF_ENST00000382998.4_Silent_p.T45T	NM_014772.2	NP_055587.1	O43310	CTIF_HUMAN	CBP80/20-dependent translation initiation factor	45	Interaction with NCBP1/CBP80.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|regulation of translational initiation (GO:0006446)	cytoplasm (GO:0005737)|perinuclear region of cytoplasm (GO:0048471)	RNA binding (GO:0003723)			breast(2)|endometrium(1)|kidney(2)|large_intestine(3)|lung(14)|ovary(3)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	31						CTGACAAGACGGAGGGTGATG	0.652																																																0													37	28	31					18																	46146071		2201	4299	6500	SO:0001819	synonymous_variant	9811			AB007887	CCDS11935.1, CCDS45864.1	18q21.1	2011-01-20	2011-01-20	2011-01-20	ENSG00000134030	ENSG00000134030			23925	protein-coding gene	gene with protein product		613178	"KIAA0427"	KIAA0427		9455477, 19648179	Standard	NM_014772		Approved		uc002ldd.3	O43310	OTTHUMG00000132656	ENST00000256413.3:c.135G>A	18.37:g.46146071G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KTR8|Q8IVD5	Silent	SNP	ENST00000256413.3	37	CCDS11935.1																																																																																				0.652	CTIF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255907.1	NM_014772		A	46146071	G	A	46146071	2	1	664	1	0	0	0	0	0	0	0	1	8183	1103	39	1		1	KIAA0427	18	46146071	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	578989	46146071	31931177	877	42187										
MYO5B	4645	mdanderson.org	37	chr18	47363927	47363927	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaagagcagacgtccttccGcaagagcaggttgttaagag	12	10	0	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:47363927G>A	ENST00000285039.7	-	37	5397	c.5098C>T	c.(5098-5100)Cgg>Tgg	p.R1700W	RP11-886H22.1_ENST00000590532.2_Missense_Mutation_p.R23W|SCARNA17_ENST00000589499.1_RNA|MYO5B_ENST00000592688.1_Missense_Mutation_p.R270W|MYO5B_ENST00000324581.6_Missense_Mutation_p.R815W	NM_001080467.2	NP_001073936.1	Q9ULV0	MYO5B_HUMAN	myosin VB	1700	Dilute. {ECO:0000255|PROSITE- ProRule:PRU00503}.				endosome localization (GO:0032439)|metabolic process (GO:0008152)|protein transport (GO:0015031)|transmembrane transport (GO:0055085)|vesicle-mediated transport (GO:0016192)|water transport (GO:0006833)	apical cortex (GO:0045179)|cytoplasmic vesicle membrane (GO:0030659)|extracellular vesicular exosome (GO:0070062)|myosin complex (GO:0016459)|protein complex (GO:0043234)	ATP binding (GO:0005524)|microfilament motor activity (GO:0000146)|Rab GTPase binding (GO:0017137)			NS(1)|breast(6)|central_nervous_system(2)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(6)|lung(29)|ovary(3)|pancreas(1)|prostate(1)|skin(9)|upper_aerodigestive_tract(2)|urinary_tract(4)	87				READ - Rectum adenocarcinoma(32;0.103)		ACGTCCTTCCGCAAGAGCAGG	0.532																																																0													69	68	68					18																	47363927		2041	4196	6237	SO:0001583	missense	4645			AB032945	CCDS42436.1	18q	2011-09-27			ENSG00000167306	ENSG00000167306		"Myosins / Myosin superfamily : Class V"	7603	protein-coding gene	gene with protein product		606540				8884266, 17462998	Standard	NM_001080467		Approved	KIAA1119	uc002leb.2	Q9ULV0		ENST00000285039.7:c.5098C>T	18.37:g.47363927G>A	ENSP00000285039:p.Arg1700Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1R3|Q0P656|Q9H6Y6	Missense_Mutation	SNP	ENST00000285039.7	37	CCDS42436.1	.	.	.	.	.	.	.	.	.	.	G	19.95	3.921476	0.73213	.	.	ENSG00000167306	ENST00000285039;ENST00000324581	D;T	0.89939	-2.59;1.88	4.77	2.84	0.33178	Dilute (1);Dil domain (1);	0.000000	0.85682	D	0.000000	D	0.95159	0.8431	M	0.93462	3.42	0.58432	D	0.999999	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.95459	0.8541	10	0.87932	D	0	.	11.3617	0.49646	0.0:0.0:0.4652:0.5348	.	1700;815	Q9ULV0;Q9H6Y6	MYO5B_HUMAN;.	W	1700;815	ENSP00000285039:R1700W;ENSP00000315531:R815W	ENSP00000285039:R1700W	R	-	1	2	MYO5B	45617925	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	1.565000	0.36386	1.356000	0.45884	0.591000	0.81541	CGG		0.532	MYO5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000448515.2			A	47363927	G	A	47363927	3	1	664	1	0	0	0	0	1	0	0	0	10086	1086	38	1	464	1	MYO5B	18	47363927	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1217856	47363927	30713321	878	42188										
WDR7	23335	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr18	54358459	54358459	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccttgcaggtgttcgatgccGgagactattccttgttgtgt	12	9	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:54358459G>A	ENST00000254442.3	+	8	941	c.730G>A	c.(730-732)Gga>Aga	p.G244R	WDR7_ENST00000589935.1_Intron|WDR7_ENST00000357574.3_Missense_Mutation_p.G244R	NM_015285.2	NP_056100.2	Q9Y4E6	WDR7_HUMAN	WD repeat domain 7	244					hematopoietic progenitor cell differentiation (GO:0002244)					NS(1)|breast(5)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(14)|lung(37)|ovary(3)|prostate(2)|skin(4)|upper_aerodigestive_tract(3)	78				Lung(128;0.0238)|Colorectal(16;0.0296)		GTTCGATGCCGGAGACTATTC	0.398																																																0													123	132	129					18																	54358459		2203	4300	6503	SO:0001583	missense	23335			AB011113	CCDS11962.1, CCDS11963.1	18q21.31	2013-01-09			ENSG00000091157	ENSG00000091157		"WD repeat domain containing"	13490	protein-coding gene	gene with protein product		613473				10828621	Standard	XM_005266674		Approved	KIAA0541, TRAG	uc002lgk.1	Q9Y4E6	OTTHUMG00000132721	ENST00000254442.3:c.730G>A	18.37:g.54358459G>A	ENSP00000254442:p.Gly244Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2C8|Q86UX5|Q86VP2|Q96PS7	Missense_Mutation	SNP	ENST00000254442.3	37	CCDS11962.1	.	.	.	.	.	.	.	.	.	.	G	32	5.130878	0.94473	.	.	ENSG00000091157	ENST00000254442;ENST00000357574;ENST00000398311	T;T	0.03920	3.76;3.76	5.45	5.45	0.79879	WD40/YVTN repeat-like-containing domain (1);Quinonprotein alcohol dehydrogenase-like (1);	0.052701	0.85682	D	0.000000	T	0.13713	0.0332	M	0.66939	2.045	0.80722	D	1	D;D	0.59767	0.986;0.968	P;B	0.51516	0.672;0.235	T	0.02026	-1.1227	10	0.30078	T	0.28	.	19.2552	0.93943	0.0:0.0:1.0:0.0	.	244;244	Q9Y4E6-2;Q9Y4E6	.;WDR7_HUMAN	R	244	ENSP00000254442:G244R;ENSP00000350187:G244R	ENSP00000254442:G244R	G	+	1	0	WDR7	52509457	1.000000	0.71417	1.000000	0.80357	0.909000	0.53808	7.810000	0.86072	2.729000	0.93468	0.460000	0.39030	GGA		0.398	WDR7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256062.1			A	54358459	G	A	54358459	3	1	664	1	0	0	0	0	1	0	0	0	17332	1117	39	1	756	1	WDR7	18	54358459	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	6994532	54358459	23718789	879	42189										
WDR7	23335	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	54591323	54591323	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcgaactttgtgccgatgccGagaaacaacttgccaagtat	9	10	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:54591323G>A	ENST00000254442.3	+	22	3908	c.3697G>A	c.(3697-3699)Gag>Aag	p.E1233K	WDR7_ENST00000589935.1_Intron|WDR7_ENST00000357574.3_Missense_Mutation_p.E1200K	NM_015285.2	NP_056100.2	Q9Y4E6	WDR7_HUMAN	WD repeat domain 7	1233					hematopoietic progenitor cell differentiation (GO:0002244)					NS(1)|breast(5)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(14)|lung(37)|ovary(3)|prostate(2)|skin(4)|upper_aerodigestive_tract(3)	78				Lung(128;0.0238)|Colorectal(16;0.0296)		TGCCGATGCCGAGAAACAACT	0.428																																																0													184	171	176					18																	54591323		2203	4300	6503	SO:0001583	missense	23335			AB011113	CCDS11962.1, CCDS11963.1	18q21.31	2013-01-09			ENSG00000091157	ENSG00000091157		"WD repeat domain containing"	13490	protein-coding gene	gene with protein product		613473				10828621	Standard	XM_005266674		Approved	KIAA0541, TRAG	uc002lgk.1	Q9Y4E6	OTTHUMG00000132721	ENST00000254442.3:c.3697G>A	18.37:g.54591323G>A	ENSP00000254442:p.Glu1233Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2C8|Q86UX5|Q86VP2|Q96PS7	Missense_Mutation	SNP	ENST00000254442.3	37	CCDS11962.1	.	.	.	.	.	.	.	.	.	.	G	27.9	4.869877	0.91587	.	.	ENSG00000091157	ENST00000254442;ENST00000357574;ENST00000444065;ENST00000398311	T;T	0.69806	-0.43;2.64	5.45	5.45	0.79879	.	0.000000	0.85682	D	0.000000	T	0.73016	0.3533	L	0.27053	0.805	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.76575	0.988;0.972	T	0.71248	-0.4649	10	0.33141	T	0.24	.	18.869	0.92305	0.0:0.0:1.0:0.0	.	1200;1233	Q9Y4E6-2;Q9Y4E6	.;WDR7_HUMAN	K	1233;1200;558;1200	ENSP00000254442:E1233K;ENSP00000350187:E1200K	ENSP00000254442:E1233K	E	+	1	0	WDR7	52742321	1.000000	0.71417	0.998000	0.56505	0.929000	0.56500	9.438000	0.97539	2.553000	0.86117	0.591000	0.81541	GAG		0.428	WDR7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256062.1			A	54591323	G	A	54591323	3	1	664	1	0	0	0	0	1	0	0	0	17332	1059	37	1	3779	1	WDR7	18	54591323	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	232864	54591323	23485925	880	42190										
ALPK2	115701	broad.mit.edu	37	chr18	56191246	56191246	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	taatagagtccctggtccttCggactggcttgcacgatggc	12	11	0	1	rs145864025	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:56191246C>T	ENST00000361673.3	-	7	5763	c.5550G>A	c.(5548-5550)ccG>ccA	p.P1850P		NM_052947.3	NP_443179.3	Q86TB3	ALPK2_HUMAN	alpha-kinase 2	1850	Ig-like 2.					nucleus (GO:0005634)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|central_nervous_system(3)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(13)|lung(33)|ovary(7)|prostate(1)|skin(10)|upper_aerodigestive_tract(2)	84						CCTGGTCCTTCGGACTGGCTT	0.448													C|||	4	0.000798722	0.003	0.0	5008	,	,		22113	0.0		0.0	False		,,,				2504	0.0															0								C		19,4387	26.2+/-53.5	0,19,2184	91	87	89		5550	-0.9	0.8	18	dbSNP_134	89	0,8600		0,0,4300	no	coding-synonymous	ALPK2	NM_052947.3		0,19,6484	TT,TC,CC		0.0,0.4312,0.1461		1850/2171	56191246	19,12987	2203	4300	6503	SO:0001819	synonymous_variant	115701			AY044450	CCDS11966.2	18q21.31	2013-01-11			ENSG00000198796	ENSG00000198796		"Immunoglobulin superfamily / I-set domain containing"	20565	protein-coding gene	gene with protein product	"heart alpha-kinase"					10021370	Standard	NM_052947		Approved	HAK	uc002lhj.4	Q86TB3	OTTHUMG00000132755	ENST00000361673.3:c.5550G>A	18.37:g.56191246C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZUX0|Q8NAT5|Q96L95	Silent	SNP	ENST00000361673.3	37	CCDS11966.2																																																																																				0.448	ALPK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256126.1	NM_052947		T	56191246	C	T	56191246	2	4	664	1	0	0	0	0	0	0	0	1	545	871	31	1		1	ALPK2	18	56191246	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1599923	56191246	21886002	881	42191										
DOK6	220164	bcgsc.ca	37	chr18	67406218	67406218	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagaatgtgtgacacaggagAaggactattcacttttcaaa	9	7	2	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:67406218A>G	ENST00000382713.5	+	6	807	c.617A>G	c.(616-618)gAa>gGa	p.E206G	DOK6_ENST00000584435.1_3'UTR	NM_152721.5	NP_689934.2	Q6PKX4	DOK6_HUMAN	docking protein 6	206	IRS-type PTB. {ECO:0000255|PROSITE- ProRule:PRU00389}.									central_nervous_system(1)|cervix(1)|endometrium(1)|large_intestine(6)|lung(6)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	20		Colorectal(73;0.083)|Esophageal squamous(42;0.131)				GACACAGGAGAAGGACTATTC	0.428																																																0													154	151	152					18																	67406218		2203	4300	6503	SO:0001583	missense	220164			AK057795	CCDS32841.1	18q22.2	2013-01-10	2005-01-18	2005-01-18		ENSG00000206052		"Pleckstrin homology (PH) domain containing"	28301	protein-coding gene	gene with protein product		611402	"docking protein 5-like"	DOK5L		15286081	Standard	NM_152721		Approved	MGC20785, HsT3226	uc002lkl.3	Q6PKX4		ENST00000382713.5:c.617A>G	18.37:g.67406218A>G	ENSP00000372160:p.Glu206Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNG3|Q4V9S3|Q8WUZ8|Q96HI2|Q96LU2	Missense_Mutation	SNP	ENST00000382713.5	37	CCDS32841.1	.	.	.	.	.	.	.	.	.	.	A	15.60	2.880649	0.51801	.	.	ENSG00000206052	ENST00000382713	D	0.85258	-1.96	6.17	6.17	0.99709	Pleckstrin homology-type (1);Insulin receptor substrate-1, PTB (3);	0.000000	0.85682	D	0.000000	D	0.93298	0.7864	M	0.86502	2.82	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.94001	0.7275	10	0.66056	D	0.02	-18.3736	16.0034	0.80327	1.0:0.0:0.0:0.0	.	206	Q6PKX4	DOK6_HUMAN	G	206	ENSP00000372160:E206G	ENSP00000372160:E206G	E	+	2	0	DOK6	65557198	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.160000	0.94734	2.371000	0.80710	0.533000	0.62120	GAA		0.428	DOK6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000442969.1	NM_152721		G	67406218	A	G	67406218	3	3	664	1	0	0	0	0	1	0	0	0	4703	246	9	3	639	3	DOK6	18	67406218	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	11214972	67406218	10671030	882	42192										
ATP9B	374868	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	76886295	76886295	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttggctgttactatgacacGggaagcaattgatgaatttc	10	7	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:76886295G>A	ENST00000426216.2	+	5	604	c.587G>A	c.(586-588)cGg>cAg	p.R196Q	ATP9B_ENST00000307671.7_Missense_Mutation_p.R196Q|ATP9B_ENST00000591464.1_3'UTR	NM_198531.3	NP_940933.3	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	196					establishment of protein localization to Golgi (GO:0072600)|phospholipid translocation (GO:0045332)	integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)|trans-Golgi network (GO:0005802)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			NS(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(15)|ovary(3)|prostate(1)|skin(2)|stomach(1)	38		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)		ACTATGACACGGGAAGCAATT	0.333																																																0													168	147	154					18																	76886295		2203	4300	6503	SO:0001583	missense	374868			R51412	CCDS12014.1	18q23	2010-04-20	2007-09-19		ENSG00000166377	ENSG00000166377		"ATPases / P-type"	13541	protein-coding gene	gene with protein product		614446	"ATPase, Class II, type 9B"			9548971, 11015572	Standard	NM_198531		Approved	ATPIIB	uc002lmx.3	O43861	OTTHUMG00000132898	ENST00000426216.2:c.587G>A	18.37:g.76886295G>A	ENSP00000398076:p.Arg196Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O60872|Q08AD8|Q08AD9	Missense_Mutation	SNP	ENST00000426216.2	37	CCDS12014.1	.	.	.	.	.	.	.	.	.	.	G	20.9	4.060644	0.76074	.	.	ENSG00000166377	ENST00000542323;ENST00000426216;ENST00000307671	T;T	0.76709	-1.04;-1.04	5.42	5.42	0.78866	ATPase, P-type, ATPase-associated domain (1);ATPase,  P-type, cytoplasmic transduction domain A (1);	0.000000	0.85682	D	0.000000	D	0.90079	0.6901	M	0.88906	2.99	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.71184	0.972;0.952	D	0.91498	0.5217	10	0.87932	D	0	.	19.164	0.93546	0.0:0.0:1.0:0.0	.	196;196	O43861;O43861-2	ATP9B_HUMAN;.	Q	119;196;196	ENSP00000398076:R196Q;ENSP00000304500:R196Q	ENSP00000304500:R196Q	R	+	2	0	ATP9B	74987283	1.000000	0.71417	0.758000	0.31321	0.165000	0.22458	8.533000	0.90617	2.703000	0.92315	0.591000	0.81541	CGG		0.333	ATP9B-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000256402.3	NM_198531		A	76886295	G	A	76886295	3	1	664	1	0	0	0	0	1	0	0	0	1199	1116	39	1	605	1	ATP9B	18	76886295	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	9480077	76886295	1190953	883	42193										
NFATC1	4772	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr18	77170445	77170445	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caacgtcagccccgccctgcCgctccccacggcgcactcca	8	23	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr18:77170445C>T	ENST00000427363.2	+	2	170	c.170C>T	c.(169-171)cCg>cTg	p.P57L	NFATC1_ENST00000591814.1_Missense_Mutation_p.P57L|NFATC1_ENST00000592223.1_Missense_Mutation_p.P44L|NFATC1_ENST00000542384.1_Missense_Mutation_p.P57L|NFATC1_ENST00000586434.1_Missense_Mutation_p.P44L|NFATC1_ENST00000545796.1_Intron|NFATC1_ENST00000253506.5_Missense_Mutation_p.P57L|NFATC1_ENST00000587635.1_Missense_Mutation_p.P57L|NFATC1_ENST00000329101.4_Missense_Mutation_p.P44L|NFATC1_ENST00000397790.2_Intron|NFATC1_ENST00000318065.5_Missense_Mutation_p.P44L			O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 1	57					calcium ion transport (GO:0006816)|epithelial to mesenchymal transition (GO:0001837)|Fc-epsilon receptor signaling pathway (GO:0038095)|G1/S transition of mitotic cell cycle (GO:0000082)|heart development (GO:0007507)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|osteoclast differentiation (GO:0030316)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|transcription factor complex (GO:0005667)	FK506 binding (GO:0005528)|mitogen-activated protein kinase p38 binding (GO:0048273)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001205)|RNA polymerase II transcription factor binding (GO:0001085)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			NS(2)|breast(1)|endometrium(7)|kidney(1)|large_intestine(4)|lung(17)|ovary(2)|prostate(4)|skin(1)|soft_tissue(1)	40		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)	Pseudoephedrine(DB00852)	CCCGCCCTGCCGCTCCCCACG	0.632																																					GBM(151;1210 2593 28719 45011)											0													66	78	74					18																	77170445		2203	4299	6502	SO:0001583	missense	4772			U08015	CCDS12015.1, CCDS12016.1, CCDS32850.1, CCDS59326.1, CCDS59327.1, CCDS62467.1, CCDS62468.1, CCDS62469.1, CCDS62470.1, CCDS62471.1	18q23	2009-11-24			ENSG00000131196	ENSG00000131196		"Nuclear factor of activated T-cells"	7775	protein-coding gene	gene with protein product		600489				8202141	Standard	NM_001278669		Approved	NF-ATC, NFATc, NFAT2	uc002lnf.3	O95644	OTTHUMG00000132897	ENST00000427363.2:c.170C>T	18.37:g.77170445C>T	ENSP00000389377:p.Pro57Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B5B2M4|B5B2M5|B5B2M6|B5B2M7|B5B2M8|B5B2M9|B5B2N1|Q12865|Q15793|Q2M1S3	Missense_Mutation	SNP	ENST00000427363.2	37		.	.	.	.	.	.	.	.	.	.	C	14.76	2.632325	0.46944	.	.	ENSG00000131196	ENST00000318065;ENST00000253506;ENST00000542384;ENST00000329101;ENST00000427363;ENST00000397794	T;T;T	0.48836	0.8;0.8;0.8	4.39	3.51	0.40186	.	0.394001	0.26824	N	0.022317	T	0.57710	0.2072	M	0.65498	2.005	0.80722	D	1	D;D;D;D;D;D;D	0.69078	0.995;0.992;0.963;0.992;0.992;0.997;0.979	P;B;B;P;P;P;B	0.52881	0.712;0.44;0.238;0.559;0.559;0.559;0.319	T	0.64997	-0.6275	10	0.87932	D	0	-22.4283	14.4591	0.67438	0.0:0.8519:0.1481:0.0	.	44;44;57;57;57;44;57	B5B2M7;B5B2N1;B5B2M6;O95644;B5B2M4;B5B2M5;Q2M1S3	.;.;.;NFAC1_HUMAN;.;.;.	L	57;57;57;44;44;21	ENSP00000253506:P57L;ENSP00000442435:P57L;ENSP00000327850:P44L	ENSP00000253506:P57L	P	+	2	0	NFATC1	75271433	0.996000	0.38824	0.023000	0.16930	0.004000	0.04260	3.399000	0.52586	1.054000	0.40438	-0.264000	0.10439	CCG		0.632	NFATC1-007	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000450507.1	NM_172390		T	77170445	C	T	77170445	3	4	664	1	0	0	0	0	1	0	0	0	10368	652	23	1	268	1	NFATC1	18	77170445	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	284150	77170445	906803	884	42194										
BSG	682	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	579590	579590	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgccacagaggtcacagggcAccgctggctgaaggggggcg	18	12	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:579590A>G	ENST00000333511.3	+	3	576	c.506A>G	c.(505-507)cAc>cGc	p.H169R	BSG_ENST00000545507.2_5'UTR|BSG_ENST00000574970.1_3'UTR|BSG_ENST00000353555.4_Missense_Mutation_p.H53R|BSG_ENST00000346916.4_Intron	NM_001728.3	NP_001719.2	P35613	BASI_HUMAN	basigin (Ok blood group)	169	Ig-like C2-type.				blood coagulation (GO:0007596)|cell surface receptor signaling pathway (GO:0007166)|cellular metabolic process (GO:0044237)|decidualization (GO:0046697)|embryo implantation (GO:0007566)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|leukocyte migration (GO:0050900)|odontogenesis of dentin-containing tooth (GO:0042475)|protein targeting to plasma membrane (GO:0072661)|pyruvate metabolic process (GO:0006090)|response to cAMP (GO:0051591)|response to mercury ion (GO:0046689)|response to peptide hormone (GO:0043434)|small molecule metabolic process (GO:0044281)	acrosomal membrane (GO:0002080)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi membrane (GO:0000139)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|membrane raft (GO:0045121)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)	mannose binding (GO:0005537)			central_nervous_system(1)|endometrium(3)|lung(1)	5		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)		GTCACAGGGCACCGCTGGCTG	0.627																																																0													61	53	56					19																	579590		2202	4298	6500	SO:0001583	missense	682			L10240	CCDS12032.1, CCDS12033.1, CCDS12034.1, CCDS58635.1	19p13.3	2014-07-19	2014-01-02		ENSG00000172270	ENSG00000172270		"CD molecules", "Blood group antigens", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	1116	protein-coding gene	gene with protein product	"Ok blood group"	109480	"basigin"	OK		8404035, 7812975	Standard	NM_198591		Approved	EMMPRIN, CD147	uc002loz.4	P35613		ENST00000333511.3:c.506A>G	19.37:g.579590A>G	ENSP00000333769:p.His169Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJW1|D3YLG5|Q7Z796|Q8IZL7	Missense_Mutation	SNP	ENST00000333511.3	37	CCDS12033.1	.	.	.	.	.	.	.	.	.	.	A	14.00	2.405786	0.42715	.	.	ENSG00000172270	ENST00000333511;ENST00000353555	T;T	0.13307	2.6;3.12	4.24	4.24	0.50183	Immunoglobulin-like (1);	0.179527	0.48286	D	0.000188	T	0.35393	0.0930	M	0.83483	2.645	0.42996	D	0.994508	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.91635	0.998;0.997;0.999;0.997	T	0.18116	-1.0347	10	0.25106	T	0.35	-53.7606	9.7618	0.40537	1.0:0.0:0.0:0.0	.	53;169;53;169	P35613-2;B4DNE1;Q54A51;P35613	.;.;.;BASI_HUMAN	R	169;53	ENSP00000333769:H169R;ENSP00000343809:H53R	ENSP00000333769:H169R	H	+	2	0	BSG	530590	1.000000	0.71417	0.654000	0.29608	0.144000	0.21451	2.723000	0.47277	1.570000	0.49709	0.454000	0.30748	CAC		0.627	BSG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438630.2	NM_001728		G	579590	A	G	579590	3	3	664	1	0	0	0	0	1	0	0	0	1531	159	6	3	552	3	BSG	19	579590	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10		579590	58549393	885	42195										
SBNO2	22904	hgsc.bcm.edu;mdanderson.org	37	chr19	1116900	1116900	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cccgcgtgcgcgcctcgcccGtggactgcagcccgatgacc	13	19	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:1116900G>A	ENST00000361757.3	-	16	1967	c.1730C>T	c.(1729-1731)aCg>aTg	p.T577M	SBNO2_ENST00000438103.2_Missense_Mutation_p.T520M|SBNO2_ENST00000587024.1_Missense_Mutation_p.T567M	NM_014963.2	NP_055778.2	Q9Y2G9	SBNO2_HUMAN	strawberry notch homolog 2 (Drosophila)	577					bone mineralization (GO:0030282)|bone trabecula morphogenesis (GO:0061430)|macrophage activation involved in immune response (GO:0002281)|negative regulation of transcription, DNA-templated (GO:0045892)|osteoclast fusion (GO:0072675)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of inflammatory response (GO:0050727)|transcription, DNA-templated (GO:0006351)					NS(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(2)|lung(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	14		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|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)		CGCCTCGCCCGTGGACTGCAG	0.677																																																0																																										SO:0001583	missense	22904			AK074102	CCDS45894.1, CCDS45895.1	19p13.3	2008-02-05	2006-10-06	2006-10-06		ENSG00000064932			29158	protein-coding gene	gene with protein product		615729	"KIAA0963"	KIAA0963		10231032	Standard	NM_014963		Approved	FLJ00173, Stno, Sno	uc002lrk.4	Q9Y2G9		ENST00000361757.3:c.1730C>T	19.37:g.1116900G>A	ENSP00000354733:p.Thr577Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8P2|B3KWJ1|O75257|Q3KQX0|Q8TEM0	Missense_Mutation	SNP	ENST00000361757.3	37	CCDS45894.1	.	.	.	.	.	.	.	.	.	.	G	25.2	4.609753	0.87258	.	.	ENSG00000064932	ENST00000361757;ENST00000438103;ENST00000250872	T;T	0.37058	1.22;1.22	4.18	4.18	0.49190	.	0.000000	0.85682	D	0.000000	T	0.67655	0.2916	M	0.91612	3.225	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;0.999;0.999	T	0.77259	-0.2654	10	0.87932	D	0	-21.2277	16.0091	0.80385	0.0:0.0:1.0:0.0	.	577;577;520	B4DV91;Q9Y2G9;Q9Y2G9-3	.;SBNO2_HUMAN;.	M	577;520;601	ENSP00000354733:T577M;ENSP00000400762:T520M	ENSP00000250872:T601M	T	-	2	0	SBNO2	1067900	1.000000	0.71417	0.937000	0.37676	0.824000	0.46624	9.372000	0.97165	2.320000	0.78422	0.563000	0.77884	ACG		0.677	SBNO2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000458065.2	NM_014963		A	1116900	G	A	1116900	3	1	664	1	0	0	0	0	1	0	0	0	13876	1145	40	1	2438	1	SBNO2	19	1116900	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	537310	1116900	58012083	886	42196										
SBNO2	22904	mdanderson.org	37	chr19	1116911	1116911	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcctcgcccgtggactgcagCccgatgaccacgcactgtgg	13	16	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:1116911C>T	ENST00000361757.3	-	16	1956	c.1719G>A	c.(1717-1719)ggG>ggA	p.G573G	SBNO2_ENST00000438103.2_Silent_p.G516G|SBNO2_ENST00000587024.1_Silent_p.G563G	NM_014963.2	NP_055778.2	Q9Y2G9	SBNO2_HUMAN	strawberry notch homolog 2 (Drosophila)	573					bone mineralization (GO:0030282)|bone trabecula morphogenesis (GO:0061430)|macrophage activation involved in immune response (GO:0002281)|negative regulation of transcription, DNA-templated (GO:0045892)|osteoclast fusion (GO:0072675)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of inflammatory response (GO:0050727)|transcription, DNA-templated (GO:0006351)					NS(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(2)|lung(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	14		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|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)		TGGACTGCAGCCCGATGACCA	0.687																																																0													24	28	26					19																	1116911		2138	4209	6347	SO:0001819	synonymous_variant	22904			AK074102	CCDS45894.1, CCDS45895.1	19p13.3	2008-02-05	2006-10-06	2006-10-06		ENSG00000064932			29158	protein-coding gene	gene with protein product		615729	"KIAA0963"	KIAA0963		10231032	Standard	NM_014963		Approved	FLJ00173, Stno, Sno	uc002lrk.4	Q9Y2G9		ENST00000361757.3:c.1719G>A	19.37:g.1116911C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K8P2|B3KWJ1|O75257|Q3KQX0|Q8TEM0	Silent	SNP	ENST00000361757.3	37	CCDS45894.1																																																																																				0.687	SBNO2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000458065.2	NM_014963		T	1116911	C	T	1116911	2	4	664	1	0	0	0	0	0	0	0	1	13876	726	26	2		2	SBNO2	19	1116911	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	11	1116911	58012072	887	42197										
TCF3	6929	hgsc.bcm.edu	37	chr19	1621856	1621856	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cccaggaggctgtcggccccGctgacaggcggcgtgtggct	17	14	0	1	rs377363979		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:1621856G>A	ENST00000262965.5	-	11	1280	c.936C>T	c.(934-936)agC>agT	p.S312S	TCF3_ENST00000453954.2_Silent_p.S228S|TCF3_ENST00000395423.3_Silent_p.S261S|TCF3_ENST00000588136.1_Silent_p.S312S|TCF3_ENST00000344749.5_Silent_p.S312S	NM_003200.3	NP_003191.1	Q9HCS4	TF7L1_HUMAN	transcription factor 3	0	Pro-rich.				anterior/posterior axis specification, embryo (GO:0008595)|axial mesoderm morphogenesis (GO:0048319)|brain development (GO:0007420)|canonical Wnt signaling pathway (GO:0060070)|chromatin organization (GO:0006325)|generation of neurons (GO:0048699)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription from RNA polymerase II promoter during mitosis (GO:0046022)|regulation of stem cell maintenance (GO:2000036)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|regulation of Wnt signaling pathway (GO:0030111)|skin development (GO:0043588)|somatic stem cell maintenance (GO:0035019)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|transcription factor complex (GO:0005667)	beta-catenin binding (GO:0008013)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|central_nervous_system(1)|kidney(2)|large_intestine(2)|lung(6)|ovary(1)|skin(2)	16		Acute lymphoblastic leukemia(61;5.94e-12)|all_hematologic(61;1.27e-07)		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)		TGTCGGCCCCGCTGACAGGCG	0.701			T	"PBX1, HLF, TFPT"	pre B-ALL																																		Dom	yes		19	19p13.3	6929	transcription factor 3 (E2A immunoglobulin enhancer binding factors E12/E47)		L	0								G	,	1,4351		0,1,2175	9	12	11		936,936	-8.8	0	19		11	2,8548		0,2,4273	no	coding-synonymous,coding-synonymous	TCF3	NM_001136139.2,NM_003200.3	,	0,3,6448	AA,AG,GG		0.0234,0.023,0.0233	,	312/652,312/655	1621856	3,12899	2176	4275	6451	SO:0001819	synonymous_variant	6929			M65214	CCDS12074.1, CCDS45899.1	19p13.3	2014-02-13	2013-02-26		ENSG00000071564	ENSG00000071564		"Basic helix-loop-helix proteins"	11633	protein-coding gene	gene with protein product	"transcription factor E2-alpha", "immunoglobulin transcription factor 1", "kappa-E2-binding factor", "E2A immunoglobulin enhancer-binding factor E12/E47", "VDR interacting repressor"	147141				2308859, 1967983	Standard	NM_003200		Approved	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47	uc002ltt.4	P15923	OTTHUMG00000180031	ENST00000262965.5:c.936C>T	19.37:g.1621856G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q53R97|Q6PD70|Q9NP00	Silent	SNP	ENST00000262965.5	37	CCDS12074.1																																																																																				0.701	TCF3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000449367.1	NM_003200		A	1621856	G	A	1621856	2	1	664	1	0	0	0	0	0	0	0	1	15706	1078	38	1		1	TCF3	19	1621856	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	504945	1621856	57507127	888	42198										
FAM108A1	81926	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr19	1881247	1881247	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgctcacctggcaccaggcaCgcagcgaacatacatgcagg	11	14	1	0	rs536953984		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:1881247C>T	ENST00000292577.7	-	2	752	c.319G>A	c.(319-321)Gtg>Atg	p.V107M	ABHD17A_ENST00000250974.9_Missense_Mutation_p.V107M|ABHD17A_ENST00000590661.1_Missense_Mutation_p.V107M	NM_001130111.1	NP_001123583.1	Q96GS6	AB17A_HUMAN	abhydrolase domain containing 17A	107						extracellular region (GO:0005576)|membrane (GO:0016020)	hydrolase activity (GO:0016787)										GCACCAGGCACGCAGCGAACA	0.657													c|||	1	0.000199681	0.0	0.0	5008	,	,		14967	0.0		0.0	False		,,,				2504	0.001															0													37	42	40					19																	1881247		2202	4300	6502	SO:0001583	missense	81926			BC020512	CCDS32867.1, CCDS45902.1	19p13.3	2013-03-15	2013-03-15	2013-03-15	ENSG00000129968	ENSG00000129968		"Abhydrolase domain containing"	28756	protein-coding gene	gene with protein product			"chromosome 19 open reading frame 27", "family with sequence similarity 108, member A1"	C19orf27, FAM108A1		14702039	Standard	NM_031213		Approved	MGC5244	uc002lug.3	Q96GS6	OTTHUMG00000171872	ENST00000292577.7:c.319G>A	19.37:g.1881247C>T	ENSP00000292577:p.Val107Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0G8|D6W5Z9|Q6PJU2|Q8WUH9|Q9BWL0|Q9H7Q9	Missense_Mutation	SNP	ENST00000292577.7	37	CCDS45902.1	.	.	.	.	.	.	.	.	.	.	c	21.4	4.148561	0.78001	.	.	ENSG00000129968	ENST00000250974;ENST00000292577	T;T	0.32272	1.46;1.51	4.0	4.0	0.46444	.	0.251859	0.39210	N	0.001438	T	0.41673	0.1169	L	0.54323	1.7	0.46631	D	0.999133	P;D;D;D	0.58268	0.904;0.982;0.967;0.982	B;P;P;P	0.52710	0.255;0.707;0.52;0.62	T	0.37663	-0.9696	10	0.49607	T	0.09	-8.8925	15.6325	0.76923	0.0:1.0:0.0:0.0	.	107;107;107;107	Q96GS6;Q96GS6-2;Q96GS6-3;Q96GS6-4	F18A1_HUMAN;.;.;.	M	107	ENSP00000250974:V107M;ENSP00000292577:V107M	ENSP00000250974:V107M	V	-	1	0	FAM108A1	1832247	0.534000	0.26362	0.949000	0.38748	0.778000	0.44026	2.927000	0.48900	2.226000	0.72624	0.561000	0.74099	GTG		0.657	ABHD17A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415556.2	NM_031213		T	1881247	C	T	1881247	3	4	664	1	0	0	0	0	1	0	0	0	5395	536	19	1	786	1	FAM108A1	19	1881247	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	259391	1881247	57247736	889	42199										
AMH	268	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	2249496	2249496	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agcccacaagagcctctgtgCctggtggcactgggcgggga	16	12	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:2249496C>T	ENST00000221496.4	+	1	187	c.165C>T	c.(163-165)tgC>tgT	p.C55C	MIR4321_ENST00000592276.1_RNA	NM_000479.3	NP_000470	P03971	MIS_HUMAN	anti-Mullerian hormone	55					aging (GO:0007568)|cell-cell signaling (GO:0007267)|gonadal mesoderm development (GO:0007506)|Mullerian duct regression (GO:0001880)|positive regulation of gene expression (GO:0010628)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|preantral ovarian follicle growth (GO:0001546)|response to drug (GO:0042493)|response to organic cyclic compound (GO:0014070)|sex determination (GO:0007530)|sex differentiation (GO:0007548)|urogenital system development (GO:0001655)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)	hormone activity (GO:0005179)|receptor binding (GO:0005102)			lung(2)	2		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)		AGCCTCTGTGCCTGGTGGCAC	0.667									Persistant Mullerian Duct Syndrome (type I and II)																																							0													17	19	19					19																	2249496		2197	4297	6494	SO:0001819	synonymous_variant	268	Familial Cancer Database	PMDS, Persistent Oviduct Syndrome	K03474	CCDS12085.1	19p13.3	2014-01-30				ENSG00000104899		"Endogenous ligands"	464	protein-coding gene	gene with protein product		600957				3754790, 18784351	Standard	NM_000479		Approved	MIS	uc002lvh.2	P03971		ENST00000221496.4:c.165C>T	19.37:g.2249496C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O75246|Q6GTN3	Silent	SNP	ENST00000221496.4	37	CCDS12085.1																																																																																				0.667	AMH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451276.3	NM_000479		T	2249496	C	T	2249496	2	4	664	1	0	0	0	0	0	0	0	1	572	747	26	2		2	AMH	19	2249496	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	368249	2249496	56879487	890	42200										
TMPRSS9	360200	hgsc.bcm.edu;mdanderson.org	37	chr19	2425067	2425067	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgagcggcgcggaggggcagCtggagcgcgtggcgcgcatc	21	11	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:2425067C>T	ENST00000332578.3	+	15	2683	c.2683C>T	c.(2683-2685)Ctg>Ttg	p.L895L		NM_182973.1	NP_892018.1	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	895	Peptidase S1 3. {ECO:0000255|PROSITE- ProRule:PRU00274}.				plasminogen activation (GO:0031639)	integral component of plasma membrane (GO:0005887)	serine-type endopeptidase activity (GO:0004252)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(3)|large_intestine(3)|lung(12)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	29				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)		GGAGGGGCAGCTGGAGCGCGT	0.711																																																0													12	10	11					19																	2425067		2178	4267	6445	SO:0001819	synonymous_variant	360200			AJ488946	CCDS12088.1	19p13.3	2010-04-13						"Serine peptidases / Transmembrane"	30079	protein-coding gene	gene with protein product	"polyserase 1"	610477				12886014	Standard	NM_182973		Approved		uc010xgx.2	Q7Z410		ENST00000332578.3:c.2683C>T	19.37:g.2425067C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZND6|Q7Z411	Silent	SNP	ENST00000332578.3	37	CCDS12088.1																																																																																				0.711	TMPRSS9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451330.3	NM_182973		T	2425067	C	T	2425067	2	4	664	1	0	0	0	0	0	0	0	1	16265	796	28	2		2	TMPRSS9	19	2425067	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	175571	2425067	56703916	891	42201										
SGTA	6449	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	2757763	2757763	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccaaggggttgttgccacccGaaatcatgccggacatgctg	12	12	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:2757763G>A	ENST00000221566.2	-	10	916	c.755C>T	c.(754-756)tCg>tTg	p.S252L		NM_003021.3	NP_003012.1	O43765	SGTA_HUMAN	small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha	252					viral process (GO:0016032)	cytoplasm (GO:0005737)				endometrium(2)|large_intestine(2)|lung(2)|ovary(1)	7		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)		GTTGCCACCCGAAATCATGCC	0.667																																																0													84	67	73					19																	2757763		2202	4300	6502	SO:0001583	missense	6449			AJ223828	CCDS12094.1	19p13	2013-01-10	2003-11-24	2003-11-26		ENSG00000104969		"Tetratricopeptide (TTC) repeat domain containing"	10819	protein-coding gene	gene with protein product		603419	"small glutamine-rich tetratricopeptide repeat (TPR)-containing"	SGT		9740675, 12735788	Standard	NM_003021		Approved		uc002lwi.1	O43765		ENST00000221566.2:c.755C>T	19.37:g.2757763G>A	ENSP00000221566:p.Ser252Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D6W610|Q6FIA9|Q9BTZ9	Missense_Mutation	SNP	ENST00000221566.2	37	CCDS12094.1	.	.	.	.	.	.	.	.	.	.	G	10.49	1.365421	0.24684	.	.	ENSG00000104969	ENST00000221566	T	0.37235	1.21	4.68	3.63	0.41609	.	0.439728	0.26055	N	0.026613	T	0.32645	0.0836	M	0.72118	2.19	0.58432	D	0.999995	P	0.46512	0.879	B	0.34180	0.177	T	0.26395	-1.0104	10	0.52906	T	0.07	-13.5307	11.172	0.48577	0.0:0.0:0.8153:0.1847	.	252	O43765	SGTA_HUMAN	L	252	ENSP00000221566:S252L	ENSP00000221566:S252L	S	-	2	0	SGTA	2708763	1.000000	0.71417	0.121000	0.21740	0.002000	0.02628	7.190000	0.77755	0.951000	0.37770	-0.181000	0.13052	TCG		0.667	SGTA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451448.2	NM_003021		A	2757763	G	A	2757763	3	1	664	1	0	0	0	0	1	0	0	0	14238	1059	37	1	194	1	SGTA	19	2757763	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	332696	2757763	56371220	892	42202										
S1PR4	8698	broad.mit.edu	37	chr19	3179323	3179323	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctggccgcgctgctggggaTgctgcctttgctgggctgga	18	11	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:3179323T>G	ENST00000246115.3	+	1	588	c.533T>G	c.(532-534)aTg>aGg	p.M178R	S1PR4_ENST00000591346.1_3'UTR	NM_003775.3	NP_003766.1	O95977	S1PR4_HUMAN	sphingosine-1-phosphate receptor 4	178					activation of phospholipase C activity (GO:0007202)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|G-protein coupled receptor signaling pathway (GO:0007186)|immune response (GO:0006955)|positive regulation of cytosolic calcium ion concentration (GO:0007204)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|lipid binding (GO:0008289)|sphingosine-1-phosphate receptor activity (GO:0038036)			breast(1)|kidney(2)|lung(5)|ovary(1)|skin(2)|upper_aerodigestive_tract(2)	13						CTGCTGGGGATGCTGCCTTTG	0.667																																					GBM(82;318 1638 33279 49708)											0													73	77	76					19																	3179323		2203	4299	6502	SO:0001583	missense	8698			AJ000479	CCDS12105.1	19p13.3	2012-08-08	2008-04-30	2008-04-30		ENSG00000125910		"GPCR / Class A : Lysophospholipid receptors : Sphingosine 1-phosphate"	3170	protein-coding gene	gene with protein product		603751	"endothelial differentiation, G-protein-coupled receptor 6", "endothelial differentiation, lysophosphatidic acid G-protein-coupled receptor, 6"	EDG6		9790765	Standard	NM_003775		Approved		uc002lxg.3	O95977		ENST00000246115.3:c.533T>G	19.37:g.3179323T>G	ENSP00000246115:p.Met178Arg	Somatic		WXS	Illumina HiSeq	Phase_I	D6W612	Missense_Mutation	SNP	ENST00000246115.3	37	CCDS12105.1	.	.	.	.	.	.	.	.	.	.	T	9.100	1.003889	0.19199	.	.	ENSG00000125910	ENST00000246115	T	0.72505	-0.66	4.17	4.17	0.49024	GPCR, rhodopsin-like superfamily (1);	0.183707	0.38381	N	0.001712	T	0.56514	0.1990	L	0.27053	0.805	0.29963	N	0.819214	B	0.14438	0.01	B	0.06405	0.002	T	0.54970	-0.8213	10	0.36615	T	0.2	.	12.346	0.55122	0.0:0.0:0.0:1.0	.	178	O95977	S1PR4_HUMAN	R	178	ENSP00000246115:M178R	ENSP00000246115:M178R	M	+	2	0	S1PR4	3130323	1.000000	0.71417	0.972000	0.41901	0.067000	0.16453	4.698000	0.61789	1.660000	0.50760	0.379000	0.24179	ATG		0.667	S1PR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452517.1	NM_003775		G	3179323	T	G	3179323	3	3	664	1	0	0	0	0	1	0	0	0	13809	1464	51	5	535	5	S1PR4	19	3179323	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	421560	3179323	55949660	893	42203										
TBXA2R	6915	hgsc.bcm.edu	37	chr19	3595775	3595775	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggctggagacgccggagcaCggcgcggcggaacaggatat	18	10	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:3595775C>T	ENST00000375190.4	-	3	1336	c.943G>A	c.(943-945)Gtg>Atg	p.V315M	TBXA2R_ENST00000587717.1_5'Flank|TBXA2R_ENST00000411851.3_Missense_Mutation_p.V315M|TBXA2R_ENST00000589966.1_Missense_Mutation_p.R185H	NM_001060.5|NM_201636.2	NP_001051.1|NP_963998.2	P21731	TA2R_HUMAN	thromboxane A2 receptor	315					blood coagulation (GO:0007596)|G-protein coupled receptor signaling pathway (GO:0007186)|inflammatory response (GO:0006954)|platelet activation (GO:0030168)|positive regulation of angiogenesis (GO:0045766)|positive regulation of blood pressure (GO:0045777)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of GTPase activity (GO:0043547)|positive regulation of smooth muscle contraction (GO:0045987)|positive regulation of vasoconstriction (GO:0045907)|response to drug (GO:0042493)|response to lipopolysaccharide (GO:0032496)|response to nutrient (GO:0007584)|second-messenger-mediated signaling (GO:0019932)|thromboxane A2 signaling pathway (GO:0038193)	acrosomal vesicle (GO:0001669)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	guanyl-nucleotide exchange factor activity (GO:0005085)|thromboxane A2 receptor activity (GO:0004961)			kidney(1)|lung(2)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	8		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)	CGCCGGAGCACGGCGCGGCGG	0.677																																																0													17	22	21					19																	3595775		2172	4275	6447	SO:0001583	missense	6915				CCDS42467.1, CCDS54198.1	19p13.3	2014-09-17						"GPCR / Class A : Prostanoid receptors"	11608	protein-coding gene	gene with protein product		188070				1825698	Standard	NM_001060		Approved		uc021umv.1	P21731		ENST00000375190.4:c.943G>A	19.37:g.3595775C>T	ENSP00000364336:p.Val315Met	Somatic		WXS	Illumina HiSeq	Phase_I	O75228|Q6DK52|Q9UCY1|Q9UCY2	Missense_Mutation	SNP	ENST00000375190.4	37	CCDS42467.1	.	.	.	.	.	.	.	.	.	.	C	18.95	3.732336	0.69189	.	.	ENSG00000006638	ENST00000411851;ENST00000375190	T;T	0.39229	1.09;1.09	5.27	5.27	0.74061	.	0.000000	0.64402	D	0.000001	T	0.55641	0.1933	L	0.32530	0.975	0.51767	D	0.99993	D	0.89917	1.0	D	0.87578	0.998	T	0.59043	-0.7528	10	0.87932	D	0	-38.9854	17.4889	0.87698	0.0:1.0:0.0:0.0	.	315	P21731	TA2R_HUMAN	M	315	ENSP00000393333:V315M;ENSP00000364336:V315M	ENSP00000364336:V315M	V	-	1	0	TBXA2R	3546775	1.000000	0.71417	0.825000	0.32803	0.106000	0.19336	5.784000	0.68990	2.486000	0.83907	0.561000	0.74099	GTG		0.677	TBXA2R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453081.2			T	3595775	C	T	3595775	3	4	664	1	0	0	0	0	1	0	0	0	15675	536	19	1	337	1	TBXA2R	19	3595775	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	416452	3595775	55533208	894	42204										
CHAF1A	10036	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr19	4409549	4409549	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atcttggctgtgagaccaccGcaaatcaagtcccttccagc	8	14	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:4409549G>A	ENST00000301280.5	+	3	854	c.753G>A	c.(751-753)ccG>ccA	p.P251P		NM_005483.2	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	251	Binds to CBX1 chromo shadow domain.				cell cycle (GO:0007049)|chromatin assembly (GO:0031497)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|DNA replication-dependent nucleosome assembly (GO:0006335)|protein complex assembly (GO:0006461)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	CAF-1 complex (GO:0033186)|nuclear chromatin (GO:0000790)|protein complex (GO:0043234)	chromatin binding (GO:0003682)|chromo shadow domain binding (GO:0070087)|identical protein binding (GO:0042802)|unfolded protein binding (GO:0051082)	p.P251P(1)		breast(1)|endometrium(4)|kidney(3)|large_intestine(5)|lung(6)|ovary(1)|pancreas(1)|prostate(2)|skin(3)|urinary_tract(1)	27		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		TGAGACCACCGCAAATCAAGT	0.542								Chromatin Structure																																								1	Substitution - coding silent(1)	endometrium(1)											108	102	104					19																	4409549		2203	4300	6503	SO:0001819	synonymous_variant	10036			U20979	CCDS32875.1	19p13.3	2008-07-16				ENSG00000167670			1910	protein-coding gene	gene with protein product	"chromatin assembly factor I (150 kDa)"	601246				7600578	Standard	NM_005483		Approved	CAF1P150, CAF1B, CAF-1, CAF1, P150, MGC71229	uc002mal.3	Q13111		ENST00000301280.5:c.753G>A	19.37:g.4409549G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6NXG5|Q7Z7K3|Q9UJY8	Silent	SNP	ENST00000301280.5	37	CCDS32875.1																																																																																				0.542	CHAF1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458310.2	NM_005483		A	4409549	G	A	4409549	2	1	664	1	0	0	0	0	0	0	0	1	3313	1074	38	1		1	CHAF1A	19	4409549	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	813774	4409549	54719434	895	42205										
PLIN4	729359	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	4511019	4511019	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cataagcacagccttggaggCgtccacgccggtctgcacgg	13	14	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:4511019C>T	ENST00000301286.3	-	3	2910	c.2911G>A	c.(2911-2913)Gcc>Acc	p.A971T		NM_001080400.1	NP_001073869.1	Q96Q06	PLIN4_HUMAN	perilipin 4	971	27 X 33 AA approximate tandem repeat.					cytoplasm (GO:0005737)|lipid particle (GO:0005811)|plasma membrane (GO:0005886)				NS(2)|breast(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(14)|ovary(1)|skin(2)|soft_tissue(1)|stomach(2)	41						GCCTTGGAGGCGTCCACGCCG	0.617																																																0													42	48	46					19																	4511019		2173	4255	6428	SO:0001583	missense	729359			AB067468	CCDS45927.1	19p13.3	2009-10-06	2009-08-12	2009-08-12	ENSG00000167676	ENSG00000167676		"Perilipins"	29393	protein-coding gene	gene with protein product		613247	"KIAA1881"	KIAA1881		11572484, 19638644	Standard	NM_001080400		Approved	S3-12	uc002mar.1	Q96Q06	OTTHUMG00000167571	ENST00000301286.3:c.2911G>A	19.37:g.4511019C>T	ENSP00000301286:p.Ala971Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEI2	Missense_Mutation	SNP	ENST00000301286.3	37	CCDS45927.1	.	.	.	.	.	.	.	.	.	.	T	0.035	-1.313322	0.01331	.	.	ENSG00000167676	ENST00000301286	T	0.01767	4.65	4.9	2.79	0.32731	.	0.000000	0.49305	N	0.000143	T	0.00666	0.0022	N	0.01048	-1.04	0.19775	N	0.999956	B	0.02656	0.0	B	0.04013	0.001	T	0.48456	-0.9034	10	0.11182	T	0.66	-9.5149	7.6921	0.28573	0.0:0.2515:0.0:0.7485	.	971	Q96Q06	PLIN4_HUMAN	T	971	ENSP00000301286:A971T	ENSP00000301286:A971T	A	-	1	0	PLIN4	4462019	0.011000	0.17503	0.929000	0.37066	0.001000	0.01503	0.205000	0.17356	0.728000	0.32382	-0.443000	0.05667	GCC		0.617	PLIN4-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395095.1	XM_170901		T	4511019	C	T	4511019	3	4	664	1	0	0	0	0	1	0	0	0	12099	768	27	1	1178	1	PLIN4	19	4511019	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	101470	4511019	54617964	896	42206										
LONP1	9361	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	5707746	5707746	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcctgcagctcatgggactCggccccggtgagcgcggcgc	16	15	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:5707746C>T	ENST00000360614.3	-	6	1181	c.1024G>A	c.(1024-1026)Gag>Aag	p.E342K	LONP1_ENST00000590729.1_Missense_Mutation_p.E212K|LONP1_ENST00000540670.2_Missense_Mutation_p.E146K|LONP1_ENST00000593119.1_Missense_Mutation_p.E278K|LONP1_ENST00000585374.1_Missense_Mutation_p.E228K	NM_004793.2	NP_004784.2			lon peptidase 1, mitochondrial											breast(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(12)|upper_aerodigestive_tract(1)|urinary_tract(1)	24						TCATGGGACTCGGCCCCGGTG	0.662																																																0													58	60	59					19																	5707746		2203	4300	6503	SO:0001583	missense	9361			U02389	CCDS12148.1, CCDS62507.1, CCDS62508.1	19p13.2	2014-01-28	2006-10-20	2006-10-20	ENSG00000196365	ENSG00000196365		"ATPases / AAA-type", "Serine peptidases / Serine peptidases"	9479	protein-coding gene	gene with protein product		605490	"protease, serine, 15"	PRSS15		8248235, 8119403	Standard	NM_004793		Approved	LonHS, hLON, PIM1	uc002mcx.4	P36776		ENST00000360614.3:c.1024G>A	19.37:g.5707746C>T	ENSP00000353826:p.Glu342Lys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000360614.3	37	CCDS12148.1	.	.	.	.	.	.	.	.	.	.	C	18.57	3.652507	0.67472	.	.	ENSG00000196365	ENST00000360614;ENST00000358403;ENST00000540670	T;T	0.41400	1.0;1.0	4.63	3.57	0.40892	Peptidase S16, lon N-terminal (2);	0.051787	0.85682	D	0.000000	T	0.56934	0.2019	M	0.85041	2.73	0.58432	D	0.999999	D;P;D	0.55800	0.973;0.951;0.973	P;P;P	0.55087	0.768;0.768;0.768	T	0.58769	-0.7578	10	0.27785	T	0.31	-44.5514	10.9772	0.47473	0.0:0.9037:0.0:0.0963	.	342;278;342	E5KMH8;Q8N8K8;P36776	.;.;LONM_HUMAN	K	342;306;146	ENSP00000353826:E342K;ENSP00000441523:E146K	ENSP00000351177:E306K	E	-	1	0	LONP1	5658746	1.000000	0.71417	0.991000	0.47740	0.223000	0.24884	7.368000	0.79567	2.111000	0.64477	0.555000	0.69702	GAG		0.662	LONP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451662.1	NM_004793		T	5707746	C	T	5707746	3	4	664	1	0	0	0	0	1	0	0	0	8899	893	31	1	1907	1	LONP1	19	5707746	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1196727	5707746	53421237	897	42207										
FUT6	2528	broad.mit.edu	37	chr19	5832569	5832569	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgtggcttggccgggcccaGgggatccatgggtcagagta	17	10	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:5832569G>T	ENST00000318336.4	-	3	1204	c.10C>A	c.(10-12)Ctg>Atg	p.L4M	FUT6_ENST00000592563.1_Missense_Mutation_p.L4M|FUT6_ENST00000524754.1_Missense_Mutation_p.L4M|FUT6_ENST00000527106.1_Missense_Mutation_p.L4M|FUT6_ENST00000286955.5_Missense_Mutation_p.L4M	NM_000150.2	NP_000141.1	P51993	FUT6_HUMAN	fucosyltransferase 6 (alpha (1,3) fucosyltransferase)	4					fucosylation (GO:0036065)|L-fucose catabolic process (GO:0042355)|protein glycosylation (GO:0006486)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity (GO:0017060)|alpha-(1->3)-fucosyltransferase activity (GO:0046920)|fucosyltransferase activity (GO:0008417)			endometrium(2)|kidney(1)|large_intestine(1)|lung(2)	6						GCCGGGCCCAGGGGATCCATG	0.572																																																0													24	23	23					19																	5832569		2203	4298	6501	SO:0001583	missense	2528				CCDS12152.1	19p13.3	2013-02-26			ENSG00000156413	ENSG00000156413	2.4.1.65	"Fucosyltransferases"	4017	protein-coding gene	gene with protein product	"alpha-(1,3)-fucosyltransferase", "galactoside 3-L-fucosyltransferase"	136836				1520296, 7782074	Standard	NM_001040701		Approved	FT1A, FCT3A, FucT-VI, FLJ40754	uc002mdh.1	P51993	OTTHUMG00000167335	ENST00000318336.4:c.10C>A	19.37:g.5832569G>T	ENSP00000313398:p.Leu4Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEX0|D6W637|Q9UND8	Missense_Mutation	SNP	ENST00000318336.4	37	CCDS12152.1	.	.	.	.	.	.	.	.	.	.	G	6.593	0.477774	0.12521	.	.	ENSG00000156413	ENST00000524754;ENST00000527106;ENST00000318336;ENST00000286955;ENST00000341530;ENST00000529165;ENST00000531085;ENST00000531199;ENST00000532464;ENST00000528505	T;T;T;T;T;T;T;T;T	0.60424	1.47;1.47;1.47;1.47;0.73;1.53;1.05;0.95;0.19	3.7	-0.311	0.12761	.	2.076500	0.03294	N	0.188040	T	0.52386	0.1731	L	0.59436	1.845	0.09310	N	1	P;P	0.45283	0.855;0.744	B;B	0.39027	0.288;0.288	T	0.46721	-0.9171	10	0.39692	T	0.17	.	7.2312	0.26043	0.0:0.1502:0.4851:0.3647	.	4;4	C9J8A2;P51993	.;FUT6_HUMAN	M	4	ENSP00000431708:L4M;ENSP00000432954:L4M;ENSP00000313398:L4M;ENSP00000286955:L4M;ENSP00000436547:L4M;ENSP00000432161:L4M;ENSP00000436413:L4M;ENSP00000431880:L4M;ENSP00000433811:L4M	ENSP00000286955:L4M	L	-	1	2	FUT6	5783569	0.000000	0.05858	0.000000	0.03702	0.015000	0.08874	0.153000	0.16323	-0.057000	0.13199	0.436000	0.28706	CTG		0.572	FUT6-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394218.2	NM_000150		T	5832569	G	T	5832569	3	4	664	1	0	0	0	0	1	0	0	0	6115	991	35	4	1073	4	FUT6	19	5832569	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	124823	5832569	53296414	898	42208										
GPR108	56927	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	6733232	6733232	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccagcggccaggaagcaggcGgacatgaccatgtagagctt	14	11	0	2	rs77003966	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:6733232G>A	ENST00000264080.7	-	9	830	c.804C>T	c.(802-804)tcC>tcT	p.S268S	GPR108_ENST00000598626.1_5'Flank|GPR108_ENST00000430424.4_Silent_p.S26S	NM_001080452.1	NP_001073921.1	Q9NPR9	GP108_HUMAN	G protein-coupled receptor 108	268						integral component of membrane (GO:0016021)				breast(2)|cervix(1)|large_intestine(4)|lung(4)|skin(1)|urinary_tract(1)	13						GGAAGCAGGCGGACATGACCA	0.627													G|||	3	0.000599042	0.0023	0.0	5008	,	,		16773	0.0		0.0	False		,,,				2504	0.0															0								G		9,4243		0,9,2117	60	70	67		804	-6.2	0.9	19	dbSNP_132	67	0,8446		0,0,4223	no	coding-synonymous	GPR108	NM_001080452.1		0,9,6340	AA,AG,GG		0.0,0.2117,0.0709		268/544	6733232	9,12689	2126	4223	6349	SO:0001819	synonymous_variant	56927				CCDS42479.1	19p13.3	2014-01-30				ENSG00000125734		"GPCR / Unclassified : 7TM orphan receptors"	17829	protein-coding gene	gene with protein product							Standard	NM_001080452		Approved	LUSTR2	uc002mfp.3	Q9NPR9	OTTHUMG00000170129	ENST00000264080.7:c.804C>T	19.37:g.6733232G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B9EJD7	Silent	SNP	ENST00000264080.7	37	CCDS42479.1																																																																																				0.627	GPR108-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407508.2			A	6733232	G	A	6733232	2	1	664	1	0	0	0	0	0	0	0	1	6631	1103	39	1		1	GPR108	19	6733232	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	900663	6733232	52395751	899	42209										
ARHGEF18	23370	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	7505040	7505040	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcacagcgcgctccccggcCgccccgagctgtctttttac	11	18	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:7505040C>T	ENST00000359920.6	+	1	467	c.214C>T	c.(214-216)Cgc>Tgc	p.R72C	CTD-2207O23.3_ENST00000593531.1_Intron|ARHGEF18_ENST00000319670.9_Intron	NM_001130955.1	NP_001124427.1	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor (GEF) 18	72					actin cytoskeleton organization (GO:0030036)|apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of cell shape (GO:0008360)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|transforming growth factor beta receptor signaling pathway (GO:0007179)	apical part of cell (GO:0045177)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytosol (GO:0005829)	guanyl-nucleotide exchange factor activity (GO:0005085)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)	p.R72C(1)		central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(4)|ovary(2)|prostate(2)|stomach(1)|urinary_tract(1)	23		Renal(5;0.0902)				GCTCCCCGGCCGCCCCGAGCT	0.662																																																1	Substitution - Missense(1)	endometrium(1)											18	23	21					19																	7505040		692	1591	2283	SO:0001583	missense	23370			AK074372	CCDS12177.1, CCDS45946.1	19p13.3	2013-01-10	2009-06-12			ENSG00000104880		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	17090	protein-coding gene	gene with protein product	"Rho-specific guanine nucleotide exchange factor p114"		"rho/rac guanine nucleotide exchange factor (GEF) 18"			9628581, 11318610	Standard	NM_015318		Approved	P114-RhoGEF, KIAA0521, MGC15913	uc002mgi.3	Q6ZSZ5		ENST00000359920.6:c.214C>T	19.37:g.7505040C>T	ENSP00000352995:p.Arg72Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8MV62|B5ME81|O60274|Q6DD92	Missense_Mutation	SNP	ENST00000359920.6	37	CCDS45946.1	.	.	.	.	.	.	.	.	.	.	C	9.017	0.983984	0.18889	.	.	ENSG00000104880	ENST00000359920	T	0.31769	1.48	5.49	4.44	0.53790	.	0.551628	0.15055	N	0.283090	T	0.22589	0.0545	N	0.12182	0.205	0.35488	D	0.798702	D	0.65815	0.995	B	0.44315	0.446	T	0.34725	-0.9817	10	0.87932	D	0	-1.0871	13.9825	0.64313	0.0:0.8471:0.1529:0.0	.	72	Q6ZSZ5	ARHGI_HUMAN	C	72	ENSP00000352995:R72C	ENSP00000352995:R72C	R	+	1	0	ARHGEF18	7411040	0.914000	0.31030	0.068000	0.19968	0.180000	0.23129	1.808000	0.38912	1.289000	0.44618	0.561000	0.74099	CGC		0.662	ARHGEF18-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000436340.1	NM_015318		T	7505040	C	T	7505040	3	4	664	1	0	0	0	0	1	0	0	0	901	652	23	1	216	1	ARHGEF18	19	7505040	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	771808	7505040	51623943	900	42210										
ARHGEF18	23370	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	7521290	7521290	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aatacgtctttgcttctgtgGtatgtatcctgtctcttcag	8	9	4	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:7521290G>A	ENST00000359920.6	+	8	1870		c.e8+1		CTD-2207O23.3_ENST00000593531.1_Splice_Site|ARHGEF18_ENST00000319670.9_Splice_Site	NM_001130955.1	NP_001124427.1	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor (GEF) 18						actin cytoskeleton organization (GO:0030036)|apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of cell shape (GO:0008360)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|transforming growth factor beta receptor signaling pathway (GO:0007179)	apical part of cell (GO:0045177)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytosol (GO:0005829)	guanyl-nucleotide exchange factor activity (GO:0005085)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(4)|ovary(2)|prostate(2)|stomach(1)|urinary_tract(1)	23		Renal(5;0.0902)				TGCTTCTGTGGTATGTATCCT	0.502																																																0													265	244	251					19																	7521290		2203	4300	6503	SO:0001630	splice_region_variant	23370			AK074372	CCDS12177.1, CCDS45946.1	19p13.3	2013-01-10	2009-06-12			ENSG00000104880		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	17090	protein-coding gene	gene with protein product	"Rho-specific guanine nucleotide exchange factor p114"		"rho/rac guanine nucleotide exchange factor (GEF) 18"			9628581, 11318610	Standard	NM_015318		Approved	P114-RhoGEF, KIAA0521, MGC15913	uc002mgi.3	Q6ZSZ5		ENST00000359920.6:c.1617+1G>A	19.37:g.7521290G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MV62|B5ME81|O60274|Q6DD92	Splice_Site	SNP	ENST00000359920.6	37	CCDS45946.1	.	.	.	.	.	.	.	.	.	.	G	12.61	1.988343	0.35036	.	.	ENSG00000104880	ENST00000319670;ENST00000359920	.	.	.	4.7	4.7	0.59300	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.1329	0.72539	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	ARHGEF18	7427290	1.000000	0.71417	0.762000	0.31397	0.109000	0.19521	9.177000	0.94849	2.167000	0.68274	0.655000	0.94253	.		0.502	ARHGEF18-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000436340.1	NM_015318	Intron	A	7521290	G	A	7521290	5	1	664	1	0	0	0	0	0	0	1	0	901	1275	44	2	1648	2	ARHGEF18	19	7521290	Splice_Site	SNP	G	TCGA-KN-8428-01A-11D-2310-10	16250	7521290	51607693	901	42211										
PNPLA6	10908	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr19	7606949	7606949	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtctccatgccaggggacatCtcaggtttggagcactgggt	14	10	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:7606949C>T	ENST00000221249.6	+	13	1562	c.1131C>T	c.(1129-1131)atC>atT	p.I377I	PNPLA6_ENST00000450331.3_Silent_p.I377I|PNPLA6_ENST00000545201.2_Silent_p.I377I|PNPLA6_ENST00000414982.3_Silent_p.I425I|PNPLA6_ENST00000600737.1_Silent_p.I416I	NM_006702.4	NP_006693.3	Q8IY17	PLPL6_HUMAN	patatin-like phospholipase domain containing 6	416					angiogenesis (GO:0001525)|cell death (GO:0008219)|lipid catabolic process (GO:0016042)|organ morphogenesis (GO:0009887)|phosphatidylcholine metabolic process (GO:0046470)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	lysophospholipase activity (GO:0004622)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(6)|lung(14)|ovary(3)|stomach(1)|upper_aerodigestive_tract(1)	35						CAGGGGACATCTCAGGTTTGG	0.597																																																0													42	41	41					19																	7606949		2203	4300	6503	SO:0001819	synonymous_variant	10908			AJ004832	CCDS32891.1, CCDS54206.1, CCDS54207.1, CCDS59343.1	19p13.2	2013-09-11						"Patatin-like phospholipase domain containing"	16268	protein-coding gene	gene with protein product	"neuropathy target esterase"	603197				9576844, 16799181, 19029121	Standard	NM_006702		Approved	NTE, sws, iPLA2delta, SPG39	uc010xjq.2	Q8IY17		ENST00000221249.6:c.1131C>T	19.37:g.7606949C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NGQ0|B4DFB9|B7Z7T2|F5H5K9|J3KQS3|O60859|Q86W58|Q9UG58	Silent	SNP	ENST00000221249.6	37	CCDS32891.1																																																																																				0.597	PNPLA6-001	KNOWN	NAGNAG_splice_site|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459275.1	NM_006702		T	7606949	C	T	7606949	2	4	664	1	0	0	0	0	0	0	0	1	12176	903	32	2		2	PNPLA6	19	7606949	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	85659	7606949	51522034	902	42212										
FBN3	84467	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	8201286	8201286	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctcaccaatgcactcgccgCgcacgtcctgggtgtagccc	11	17	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:8201286C>T	ENST00000600128.1	-	11	1745	c.1331G>A	c.(1330-1332)cGc>cAc	p.R444H	FBN3_ENST00000601739.1_Missense_Mutation_p.R444H|FBN3_ENST00000270509.2_Missense_Mutation_p.R444H			Q75N90	FBN3_HUMAN	fibrillin 3	444	EGF-like 3. {ECO:0000255|PROSITE- ProRule:PRU00076}.					proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|extracellular matrix structural constituent (GO:0005201)			NS(1)|breast(9)|central_nervous_system(2)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(15)|lung(53)|ovary(7)|pancreas(2)|prostate(3)|skin(10)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	132						GCACTCGCCGCGCACGTCCTG	0.647																																																0													73	68	69					19																	8201286		2203	4300	6503	SO:0001583	missense	84467				CCDS12196.1	19p13	2008-02-05							18794	protein-coding gene	gene with protein product		608529					Standard	NM_032447		Approved		uc002mjf.3	Q75N90		ENST00000600128.1:c.1331G>A	19.37:g.8201286C>T	ENSP00000470498:p.Arg444His	Somatic		WXS	Illumina HiSeq	Phase_I	Q75N91|Q75N92|Q75N93|Q86SJ5|Q96JP8	Missense_Mutation	SNP	ENST00000600128.1	37	CCDS12196.1	.	.	.	.	.	.	.	.	.	.	c	14.65	2.598035	0.46318	.	.	ENSG00000142449	ENST00000270509	T	0.29917	1.55	4.4	2.25	0.28309	Epidermal growth factor-like (1);EGF-like region, conserved site (1);Epidermal growth factor-like, type 3 (1);	0.000000	0.85682	U	0.000000	T	0.17704	0.0425	L	0.37466	1.105	0.31353	N	0.682257	P	0.49253	0.921	B	0.31869	0.137	T	0.15350	-1.0440	10	0.45353	T	0.12	.	10.0282	0.42085	0.0:0.8332:0.0:0.1668	.	444	Q75N90	FBN3_HUMAN	H	444	ENSP00000270509:R444H	ENSP00000270509:R444H	R	-	2	0	FBN3	8107286	0.908000	0.30866	0.002000	0.10522	0.009000	0.06853	2.777000	0.47717	0.313000	0.23062	0.462000	0.41574	CGC		0.647	FBN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000461428.2	NM_032447		T	8201286	C	T	8201286	3	4	664	1	0	0	0	0	1	0	0	0	5711	768	27	1	7314	1	FBN3	19	8201286	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	594337	8201286	50927697	903	42213										
FBN3	84467	broad.mit.edu	37	chr19	8209801	8209801	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atgaagccatacacacaggcGcagcggttgggcccaatgca	12	12	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:8209801G>A	ENST00000600128.1	-	6	915	c.501C>T	c.(499-501)tgC>tgT	p.C167C	FBN3_ENST00000601739.1_Silent_p.C167C|FBN3_ENST00000270509.2_Silent_p.C167C			Q75N90	FBN3_HUMAN	fibrillin 3	167	EGF-like 1. {ECO:0000255|PROSITE- ProRule:PRU00076}.					proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|extracellular matrix structural constituent (GO:0005201)			NS(1)|breast(9)|central_nervous_system(2)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(15)|lung(53)|ovary(7)|pancreas(2)|prostate(3)|skin(10)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	132						ACACACAGGCGCAGCGGTTGG	0.622																																																0													52	40	44					19																	8209801		2202	4300	6502	SO:0001819	synonymous_variant	84467				CCDS12196.1	19p13	2008-02-05							18794	protein-coding gene	gene with protein product		608529					Standard	NM_032447		Approved		uc002mjf.3	Q75N90		ENST00000600128.1:c.501C>T	19.37:g.8209801G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q75N91|Q75N92|Q75N93|Q86SJ5|Q96JP8	Silent	SNP	ENST00000600128.1	37	CCDS12196.1																																																																																				0.622	FBN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000461428.2	NM_032447		A	8209801	G	A	8209801	2	1	664	1	0	0	0	0	0	0	0	1	5711	1079	38	1		1	FBN3	19	8209801	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	8515	8209801	50919182	904	42214										
MYO1F	4542	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	8592315	8592315	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcccttcttcactttctctCgcccaatcacatacacacac	2	18	4	0	rs201723456	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:8592315C>T	ENST00000338257.8	-	22	2648	c.2381G>A	c.(2380-2382)cGa>cAa	p.R794Q		NM_012335.3	NP_036467.2	O00160	MYO1F_HUMAN	myosin IF	794	Myosin tail. {ECO:0000255}.				defense response to Gram-positive bacterium (GO:0050830)|negative regulation of cell adhesion (GO:0007162)|neutrophil degranulation (GO:0043312)|positive regulation of cell migration (GO:0030335)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of innate immune response (GO:0045088)	cortical actin cytoskeleton (GO:0030864)|filamentous actin (GO:0031941)|unconventional myosin complex (GO:0016461)	actin binding (GO:0003779)|ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(6)|large_intestine(7)|lung(13)|ovary(3)|prostate(3)|skin(3)|urinary_tract(1)	42						CACTTTCTCTCGCCCAATCAC	0.562													C|||	2	0.000399361	0.0008	0.0	5008	,	,		21929	0.0		0.0	False		,,,				2504	0.001															0								C	GLN/ARG	0,4020		0,0,2010	83	84	83		2381	5.2	1	19		83	1,8367		0,1,4183	no	missense	MYO1F	NM_012335.3	43	0,1,6193	TT,TC,CC		0.012,0.0,0.0081	possibly-damaging	794/1099	8592315	1,12387	2010	4184	6194	SO:0001583	missense	4542			X98411	CCDS42494.1	19p13.3-p13.2	2011-09-27			ENSG00000142347	ENSG00000142347		"Myosins / Myosin superfamily : Class I"	7600	protein-coding gene	gene with protein product		601480				9119401, 8884266	Standard	NM_012335		Approved		uc002mkg.3	O00160	OTTHUMG00000156005	ENST00000338257.8:c.2381G>A	19.37:g.8592315C>T	ENSP00000344871:p.Arg794Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WWN7	Missense_Mutation	SNP	ENST00000338257.8	37	CCDS42494.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	C	27.9	4.876209	0.91664	0.0	1.2E-4	ENSG00000142347	ENST00000305795;ENST00000338257	T	0.35973	1.28	5.16	5.16	0.70880	Myosin tail 2 (1);	0.000000	0.64402	D	0.000001	T	0.32675	0.0837	L	0.52126	1.63	0.80722	D	1	P	0.39022	0.655	B	0.34489	0.184	T	0.08994	-1.0695	10	0.21014	T	0.42	.	17.7053	0.88308	0.0:1.0:0.0:0.0	.	794	O00160	MYO1F_HUMAN	Q	839;794	ENSP00000344871:R794Q	ENSP00000304899:R839Q	R	-	2	0	MYO1F	8498315	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.773000	0.62331	2.430000	0.82344	0.456000	0.33151	CGA		0.562	MYO1F-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342716.2			T	8592315	C	T	8592315	3	4	664	1	0	0	0	0	1	0	0	0	10080	884	31	1	943	1	MYO1F	19	8592315	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	382514	8592315	50536668	905	42215										
OLFM2	93145	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	9967485	9967485	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgggcgcagtcactcacccGgctatccgcactgggggcca	14	15	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:9967485G>A	ENST00000264833.4	-	5	870	c.685C>T	c.(685-687)Cgg>Tgg	p.R229W	OLFM2_ENST00000590841.1_Missense_Mutation_p.R151W	NM_058164.2	NP_477512.1	O95897	NOE2_HUMAN	olfactomedin 2	229	Olfactomedin-like. {ECO:0000255|PROSITE- ProRule:PRU00446}.				protein secretion (GO:0009306)	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex (GO:0032281)|cell junction (GO:0030054)|extracellular region (GO:0005576)|synapse (GO:0045202)				breast(1)|cervix(1)|endometrium(3)|large_intestine(8)|lung(9)|ovary(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(2)	31						TCACTCACCCGGCTATCCGCA	0.647																																																0													22	22	22					19																	9967485		2202	4300	6502	SO:0001583	missense	93145			AF131839	CCDS12221.1	19p13.2	2008-07-03				ENSG00000105088			17189	protein-coding gene	gene with protein product	"noelin 2"						Standard	NM_058164		Approved	OlfC, NOE2	uc002mmp.3	O95897		ENST00000264833.4:c.685C>T	19.37:g.9967485G>A	ENSP00000264833:p.Arg229Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IMJ3|Q96FC2	Missense_Mutation	SNP	ENST00000264833.4	37	CCDS12221.1	.	.	.	.	.	.	.	.	.	.	G	19.50	3.839856	0.71488	.	.	ENSG00000105088	ENST00000264833	D	0.89746	-2.56	4.45	3.4	0.38934	Olfactomedin-like (3);	0.000000	0.85682	D	0.000000	D	0.94251	0.8154	M	0.88704	2.975	0.53688	D	0.99997	D	0.89917	1.0	D	0.91635	0.999	D	0.93817	0.7115	9	.	.	.	.	9.735	0.40382	0.0:0.0:0.6267:0.3732	.	229	O95897	NOE2_HUMAN	W	229	ENSP00000264833:R229W	.	R	-	1	2	OLFM2	9828485	1.000000	0.71417	0.998000	0.56505	0.975000	0.68041	0.534000	0.23098	1.069000	0.40788	0.563000	0.77884	CGG		0.647	OLFM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451119.1			A	9967485	G	A	9967485	3	1	664	1	0	0	0	0	1	0	0	0	10860	1115	39	1	687	1	OLFM2	19	9967485	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1375170	9967485	49161498	906	42216										
DNMT1	1786	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	10246467	10246467	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggtaggtgtcagggaagcccTgggagcgggcacactcccgc	17	12	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:10246467T>C	ENST00000340748.4	-	38	4905	c.4670A>G	c.(4669-4671)cAg>cGg	p.Q1557R	DNMT1_ENST00000540357.1_Missense_Mutation_p.Q1560R|DNMT1_ENST00000359526.4_Missense_Mutation_p.Q1573R			P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1	1557	Catalytic.|Interaction with the PRC2/EED-EZH2 complex. {ECO:0000250}.|SAM-dependent MTase C5-type. {ECO:0000255|PROSITE-ProRule:PRU01016}.				cellular response to amino acid stimulus (GO:0071230)|chromatin modification (GO:0016568)|DNA methylation (GO:0006306)|gene silencing (GO:0016458)|maintenance of DNA methylation (GO:0010216)|negative regulation of histone H3-K9 methylation (GO:0051573)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of gene expression (GO:0010628)|positive regulation of histone H3-K4 methylation (GO:0051571)|regulation of cell proliferation (GO:0042127)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|pericentric heterochromatin (GO:0005721)|replication fork (GO:0005657)	chromatin binding (GO:0003682)|DNA (cytosine-5-)-methyltransferase activity (GO:0003886)|DNA binding (GO:0003677)|DNA-methyltransferase activity (GO:0009008)|methyl-CpG binding (GO:0008327)|RNA binding (GO:0003723)|zinc ion binding (GO:0008270)			breast(5)|endometrium(8)|kidney(5)|large_intestine(21)|lung(11)|ovary(2)|pancreas(1)|prostate(10)|skin(5)|stomach(1)|urinary_tract(1)	70			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Procainamide(DB01035)	AGGGAAGCCCTGGGAGCGGGC	0.697																																																0													22	21	21					19																	10246467		2198	4297	6495	SO:0001583	missense	1786			X63692	CCDS12228.1, CCDS45958.1	19p13.2	2014-09-17				ENSG00000130816	2.1.1.37		2976	protein-coding gene	gene with protein product		126375		DNMT		1594447	Standard	NM_001379		Approved	MCMT, CXXC9	uc010xlc.2	P26358		ENST00000340748.4:c.4670A>G	19.37:g.10246467T>C	ENSP00000345739:p.Gln1557Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV63|B7ZLW6|Q9UHG5|Q9ULA2|Q9UMZ6	Missense_Mutation	SNP	ENST00000340748.4	37	CCDS12228.1	.	.	.	.	.	.	.	.	.	.	T	24.4	4.530539	0.85706	.	.	ENSG00000130816	ENST00000359526;ENST00000540357;ENST00000340748;ENST00000541266	T;T;T	0.56275	0.47;0.47;0.47	5.22	4.17	0.49024	.	0.000000	0.85682	D	0.000000	T	0.82217	0.4989	H	0.98883	4.36	0.53688	D	0.999972	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.999	D	0.86248	0.1647	10	0.87932	D	0	-37.846	11.1333	0.48360	0.0:0.0:0.1553:0.8447	.	1560;1573;1557	F5GX68;P26358-2;P26358	.;.;DNMT1_HUMAN	R	1573;1560;1557;1425	ENSP00000352516:Q1573R;ENSP00000440457:Q1560R;ENSP00000345739:Q1557R	ENSP00000345739:Q1557R	Q	-	2	0	DNMT1	10107467	1.000000	0.71417	1.000000	0.80357	0.936000	0.57629	7.749000	0.85096	0.779000	0.33543	0.459000	0.35465	CAG		0.697	DNMT1-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451166.1	NM_001379		C	10246467	T	C	10246467	3	2	664	1	0	0	0	0	1	0	0	0	4677	1580	55	3	192	3	DNMT1	19	10246467	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	278982	10246467	48882516	907	42217										
ICAM4	3386	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	10398019	10398019	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgagggcctggagctccctcGcgcactgcctcgtgacctgc	13	16	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:10398019G>A	ENST00000380770.3	+	1	377	c.331G>A	c.(331-333)Gcg>Acg	p.A111T	CTD-2369P2.5_ENST00000592893.1_RNA|ICAM4_ENST00000393717.2_Missense_Mutation_p.A111T|ICAM4_ENST00000340992.4_Missense_Mutation_p.A111T|ICAM5_ENST00000221980.4_5'Flank|CTD-2369P2.8_ENST00000589379.1_RNA	NM_001544.4	NP_001535.1	Q14773	ICAM4_HUMAN	intercellular adhesion molecule 4 (Landsteiner-Wiener blood group)	111	Ig-like C2-type 1.				extracellular matrix organization (GO:0030198)|regulation of immune response (GO:0050776)|single organismal cell-cell adhesion (GO:0016337)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	integrin binding (GO:0005178)			breast(1)|large_intestine(3)|lung(2)|pancreas(1)	7			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			GAGCTCCCTCGCGCACTGCCT	0.677																																																0													20	21	20					19																	10398019		2203	4300	6503	SO:0001583	missense	3386			X93093	CCDS12232.1, CCDS32904.1, CCDS42500.1	19p13.2	2014-07-19	2006-02-23		ENSG00000105371	ENSG00000105371		"CD molecules", "Blood group antigens", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5347	protein-coding gene	gene with protein product		614088	"intercellular adhesion molecule 4, Landsteiner-Wiener blood group", "Landsteiner-Wiener blood group", "intercellular adhesion molecule 4 (LW blood group)"	LW		8639917, 6431896	Standard	NM_001039132		Approved	CD242	uc002mnr.2	Q14773	OTTHUMG00000180405	ENST00000380770.3:c.331G>A	19.37:g.10398019G>A	ENSP00000370147:p.Ala111Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A0M8X2|Q14771|Q14772|Q16375|Q9BWR0	Missense_Mutation	SNP	ENST00000380770.3	37	CCDS12232.1	.	.	.	.	.	.	.	.	.	.	G	10.68	1.419667	0.25552	.	.	ENSG00000105371	ENST00000340992;ENST00000380770;ENST00000393717	T;T;T	0.21932	1.98;1.98;1.98	4.18	4.18	0.49190	Intercellular adhesion molecule, N-terminal (1);Immunoglobulin-like fold (1);	0.677075	0.13608	N	0.375336	T	0.20007	0.0481	N	0.22421	0.69	0.09310	N	1	D;D;D	0.57899	0.981;0.958;0.977	B;B;P	0.49047	0.356;0.353;0.599	T	0.06789	-1.0807	10	0.34782	T	0.22	-1.6884	11.8729	0.52531	0.0:0.0:1.0:0.0	.	111;111;111	Q14773-2;Q14773;Q9BWR0	.;ICAM4_HUMAN;.	T	111	ENSP00000342114:A111T;ENSP00000370147:A111T;ENSP00000377320:A111T	ENSP00000342114:A111T	A	+	1	0	ICAM4	10259019	0.125000	0.22332	0.004000	0.12327	0.006000	0.05464	4.235000	0.58666	2.162000	0.67917	0.491000	0.48974	GCG		0.677	ICAM4-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000451214.1	NM_001544		A	10398019	G	A	10398019	3	1	664	1	0	0	0	0	1	0	0	0	7489	1087	38	1	333	1	ICAM4	19	10398019	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	151552	10398019	48730964	908	42218										
TYK2	7297	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	10477123	10477123	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggccacctcctccagggggAtgccatggcggagagcgagg	17	12	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:10477123A>G	ENST00000525621.1	-	6	1080	c.599T>C	c.(598-600)aTc>aCc	p.I200T	TYK2_ENST00000529370.1_Missense_Mutation_p.I200T|TYK2_ENST00000524462.1_Missense_Mutation_p.I15T|TYK2_ENST00000264818.6_Missense_Mutation_p.I200T	NM_003331.4	NP_003322.3	P29597	TYK2_HUMAN	tyrosine kinase 2	200	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.				cytokine-mediated signaling pathway (GO:0019221)|intracellular signal transduction (GO:0035556)|peptidyl-tyrosine phosphorylation (GO:0018108)|protein phosphorylation (GO:0006468)|regulation of type I interferon-mediated signaling pathway (GO:0060338)|type I interferon signaling pathway (GO:0060337)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|growth hormone receptor binding (GO:0005131)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein tyrosine kinase activity (GO:0004713)			breast(1)|central_nervous_system(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(11)|kidney(6)|large_intestine(3)|lung(19)|ovary(4)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	64			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			CTCCAGGGGGATGCCATGGCG	0.607																																																0													94	86	89					19																	10477123		2203	4300	6503	SO:0001583	missense	7297				CCDS12236.1	19p13.2	2014-09-17			ENSG00000105397	ENSG00000105397	2.7.10.1		12440	protein-coding gene	gene with protein product		176941				2156206	Standard	NM_003331		Approved	JTK1	uc002moc.4	P29597	OTTHUMG00000166373	ENST00000525621.1:c.599T>C	19.37:g.10477123A>G	ENSP00000431885:p.Ile200Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6QB10|Q96CH0	Missense_Mutation	SNP	ENST00000525621.1	37	CCDS12236.1	.	.	.	.	.	.	.	.	.	.	A	8.411	0.844139	0.16963	.	.	ENSG00000105397	ENST00000524462;ENST00000525621;ENST00000264818;ENST00000529370	T;T;T;T	0.75154	-0.91;0.95;0.95;0.95	5.15	5.15	0.70609	FERM central domain (1);Band 4.1 domain (1);FERM domain (1);	0.510102	0.15582	N	0.254823	T	0.61664	0.2365	L	0.34521	1.04	0.23260	N	0.99802	B;B	0.31769	0.339;0.061	B;B	0.24701	0.055;0.044	T	0.50224	-0.8853	10	0.21540	T	0.41	-38.9989	12.9524	0.58409	1.0:0.0:0.0:0.0	.	200;200	E9PPF2;P29597	.;TYK2_HUMAN	T	15;200;200;200	ENSP00000433203:I15T;ENSP00000431885:I200T;ENSP00000264818:I200T;ENSP00000432728:I200T	ENSP00000264818:I200T	I	-	2	0	TYK2	10338123	0.002000	0.14202	0.933000	0.37362	0.262000	0.26303	1.690000	0.37711	1.943000	0.56356	0.460000	0.39030	ATC		0.607	TYK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389443.1			G	10477123	A	G	10477123	3	3	664	1	0	0	0	0	1	0	0	0	16822	333	12	3	3044	3	TYK2	19	10477123	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	79104	10477123	48651860	909	42219										
AP1M2	10053	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	10692022	10692022	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acagaaacaccttgagcttgAtggtaccgacgatttcgctc	9	11	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:10692022A>G	ENST00000250244.6	-	6	675	c.593T>C	c.(592-594)aTc>aCc	p.I198T	AP1M2_ENST00000590923.1_Missense_Mutation_p.I198T	NM_005498.4	NP_005489.2	Q9Y6Q5	AP1M2_HUMAN	adaptor-related protein complex 1, mu 2 subunit	198	MHD. {ECO:0000255|PROSITE- ProRule:PRU00404}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|membrane organization (GO:0061024)|post-Golgi vesicle-mediated transport (GO:0006892)|protein targeting (GO:0006605)|regulation of defense response to virus by virus (GO:0050690)|vesicle targeting (GO:0006903)|viral process (GO:0016032)	clathrin adaptor complex (GO:0030131)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|Golgi membrane (GO:0000139)|lysosomal membrane (GO:0005765)|trans-Golgi network membrane (GO:0032588)				endometrium(4)|large_intestine(1)|lung(1)|ovary(2)|urinary_tract(1)	9			Epithelial(33;1.58e-05)|all cancers(31;6.36e-05)			CTTGAGCTTGATGGTACCGAC	0.562											OREG0025241	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													56	57	57					19																	10692022		2065	4220	6285	SO:0001583	missense	10053			AF020797	CCDS45964.1	19p13.2	2008-10-07				ENSG00000129354			558	protein-coding gene	gene with protein product		607309				10338135	Standard	NM_005498		Approved	HSMU1B, mu2, AP1-mu2	uc002mpc.3	Q9Y6Q5		ENST00000250244.6:c.593T>C	19.37:g.10692022A>G	ENSP00000250244:p.Ile198Thr	Somatic	666	WXS	Illumina HiSeq	Phase_I	B2RDV5|Q9BSI8	Missense_Mutation	SNP	ENST00000250244.6	37	CCDS45964.1	.	.	.	.	.	.	.	.	.	.	a	22.3	4.268826	0.80469	.	.	ENSG00000129354	ENST00000250244	T	0.32988	1.43	5.28	4.25	0.50352	Clathrin adaptor, mu subunit, C-terminal (3);	0.119066	0.56097	D	0.000037	T	0.62950	0.2470	H	0.97315	3.98	0.54753	D	0.999986	P;B	0.47034	0.889;0.065	P;B	0.55222	0.771;0.093	T	0.73040	-0.4108	10	0.87932	D	0	-44.2162	11.4368	0.50072	0.8485:0.1515:0.0:0.0	.	198;198	Q9Y6Q5-2;Q9Y6Q5	.;AP1M2_HUMAN	T	198	ENSP00000250244:I198T	ENSP00000250244:I198T	I	-	2	0	AP1M2	10553022	1.000000	0.71417	1.000000	0.80357	0.855000	0.48748	9.284000	0.95882	0.832000	0.34804	0.449000	0.29647	ATC		0.562	AP1M2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000452034.1			G	10692022	A	G	10692022	3	3	664	1	0	0	0	0	1	0	0	0	735	333	12	3	706	3	AP1M2	19	10692022	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	214899	10692022	48436961	910	42220										
ILF3	3609	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	10794618	10794618	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gggtatggaagctatgggtaCggaggcaactcggcgacagc	17	8	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:10794618C>T	ENST00000590261.1	+	16	2031	c.2031C>T	c.(2029-2031)taC>taT	p.Y677Y	ILF3_ENST00000318511.3_Silent_p.Y677Y|ILF3_ENST00000420083.1_Silent_p.Y677Y|ILF3_ENST00000250241.8_Silent_p.Y677Y|ILF3_ENST00000407004.3_Silent_p.Y681Y|ILF3_ENST00000449870.1_Silent_p.Y681Y|ILF3_ENST00000588657.1_Silent_p.Y681Y|ILF3_ENST00000589998.1_Silent_p.Y677Y|ILF3_ENST00000592763.1_Silent_p.Y681Y			Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3, 90kDa	677	Interaction with PRMT1.				defense response to virus (GO:0051607)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of translation (GO:0017148)|negative regulation of viral genome replication (GO:0045071)|positive regulation of transcription, DNA-templated (GO:0045893)|protein phosphorylation (GO:0006468)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	DNA binding (GO:0003677)|double-stranded RNA binding (GO:0003725)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(9)|ovary(6)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	31			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)			GCTATGGGTACGGAGGCAACT	0.582																																																0													169	139	149					19																	10794618		2203	4300	6503	SO:0001819	synonymous_variant	3609			U10324	CCDS12246.1, CCDS12247.1, CCDS45965.1, CCDS45966.1, CCDS45967.1	19p13.2	2012-08-10	2002-08-29		ENSG00000129351	ENSG00000129351			6038	protein-coding gene	gene with protein product	"M-phase phosphoprotein 4"	603182	"interleukin enhancer binding factor 3, 90kD"			7519613, 8885239	Standard	NM_012218		Approved	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1	uc002mpo.3	Q12906		ENST00000590261.1:c.2031C>T	19.37:g.10794618C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6F2|G5E9M5|O43409|Q6P1X1|Q86XY7|Q99544|Q99545|Q9BZH4|Q9BZH5|Q9NQ95|Q9NQ96|Q9NQ97|Q9NQ98|Q9NQ99|Q9NQA0|Q9NQA1|Q9NQA2|Q9NRN2|Q9NRN3|Q9NRN4|Q9UMZ9|Q9UN00|Q9UN84|Q9UNA2	Silent	SNP	ENST00000590261.1	37	CCDS12246.1																																																																																				0.582	ILF3-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452074.1			T	10794618	C	T	10794618	2	4	664	1	0	0	0	0	0	0	0	1	7719	547	19	1		1	ILF3	19	10794618	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	102596	10794618	48334365	911	42221										
QTRT1	81890	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	10818003	10818003	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gacatcatcatgcagctggaCgacgtggttagcagtactgt	12	9	2	0	rs151104617		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:10818003C>T	ENST00000250237.5	+	4	487	c.477C>T	c.(475-477)gaC>gaT	p.D159D	QTRT1_ENST00000585885.1_3'UTR	NM_031209.2	NP_112486.1	Q9BXR0	TGT_HUMAN	queuine tRNA-ribosyltransferase 1	159					queuosine biosynthetic process (GO:0008616)|tRNA modification (GO:0006400)	mitochondrion (GO:0005739)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|queuine tRNA-ribosyltransferase activity (GO:0008479)			large_intestine(2)|lung(7)|prostate(1)|skin(1)|urinary_tract(1)	12			Epithelial(33;1.55e-05)|all cancers(31;3.42e-05)			TGCAGCTGGACGACGTGGTTA	0.567																																																0								C		1,4405	2.1+/-5.4	0,1,2202	334	247	277		477	-3.2	0.3	19	dbSNP_134	277	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	QTRT1	NM_031209.2		0,2,6501	TT,TC,CC		0.0116,0.0227,0.0154		159/404	10818003	2,13004	2203	4300	6503	SO:0001819	synonymous_variant	81890			AF302783	CCDS12248.1	19p13.3	2014-06-11	2008-07-31		ENSG00000213339	ENSG00000213339	2.4.2.29		23797	protein-coding gene	gene with protein product	"tRNA-guanine transglycosylase"	609615				20354154	Standard	NM_031209		Approved	TGT	uc002mpr.3	Q9BXR0		ENST00000250237.5:c.477C>T	19.37:g.10818003C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DFM7|Q96BQ4|Q9BXQ9	Silent	SNP	ENST00000250237.5	37	CCDS12248.1																																																																																				0.567	QTRT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452086.1	NM_031209		T	10818003	C	T	10818003	2	4	664	1	0	0	0	0	0	0	0	1	12898	535	19	1		1	QTRT1	19	10818003	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	23385	10818003	48310980	912	42222										
TMEM205	374882	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	11453630	11453630	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtacttggggtccttctctCgcagctggcggtagggatcg	15	10	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:11453630C>T	ENST00000354882.5	-	3	857	c.431G>A	c.(430-432)cGa>cAa	p.R144Q	TMEM205_ENST00000586956.1_Missense_Mutation_p.R144Q|TMEM205_ENST00000589555.1_Missense_Mutation_p.R144Q|CCDC159_ENST00000588790.1_5'Flank|TMEM205_ENST00000586590.1_Missense_Mutation_p.R144Q|TMEM205_ENST00000587948.1_Missense_Mutation_p.R144Q|TMEM205_ENST00000586218.1_Missense_Mutation_p.R83Q|TMEM205_ENST00000588560.1_Missense_Mutation_p.R144Q|TMEM205_ENST00000447337.1_Missense_Mutation_p.R144Q|TMEM205_ENST00000593256.2_Missense_Mutation_p.R144Q|RAB3D_ENST00000589655.1_Intron			Q6UW68	TM205_HUMAN	transmembrane protein 205	144						extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				endometrium(1)|lung(1)	2						GTCCTTCTCTCGCAGCTGGCG	0.622																																																0													99	89	93					19																	11453630		2203	4300	6503	SO:0001583	missense	374882			AK127147	CCDS32909.1	19p13.2	2008-01-09				ENSG00000105518			29631	protein-coding gene	gene with protein product		613771				12975309	Standard	NM_198536		Approved	UNQ501, MBC3205	uc002mrb.2	Q6UW68		ENST00000354882.5:c.431G>A	19.37:g.11453630C>T	ENSP00000346954:p.Arg144Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000354882.5	37	CCDS32909.1	.	.	.	.	.	.	.	.	.	.	C	11.25	1.582875	0.28268	.	.	ENSG00000105518	ENST00000354882;ENST00000447337	.	.	.	4.96	0.39	0.16275	.	0.078138	0.51477	U	0.000099	T	0.44329	0.1288	L	0.55103	1.725	0.37141	D	0.90169	B	0.11235	0.004	B	0.09377	0.004	T	0.33420	-0.9869	9	0.13108	T	0.6	-15.8945	8.4711	0.32986	0.0:0.5096:0.0:0.4904	.	144	Q6UW68	TM205_HUMAN	Q	144	.	ENSP00000346954:R144Q	R	-	2	0	TMEM205	11314630	0.258000	0.24033	0.360000	0.25837	0.555000	0.35460	0.735000	0.26115	0.001000	0.14605	-0.768000	0.03414	CGA		0.622	TMEM205-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458743.1	NM_198536		T	11453630	C	T	11453630	3	4	664	1	0	0	0	0	1	0	0	0	16142	884	31	1	142	1	TMEM205	19	11453630	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	635627	11453630	47675353	913	42223										
ELAVL3	1995	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	11568980	11568980	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcttctgacttgggttgttCgcgaacttgactgtgatggg	14	7	2	3	rs547655016		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:11568980C>T	ENST00000359227.3	-	5	1033	c.609G>A	c.(607-609)gcG>gcA	p.A203A	ELAVL3_ENST00000438662.2_Silent_p.A203A	NM_001420.3|NM_032281.2	NP_001411.2|NP_115657.2	Q14576	ELAV3_HUMAN	ELAV like neuron-specific RNA binding protein 3	203	RRM 2. {ECO:0000255|PROSITE- ProRule:PRU00176}.				cell differentiation (GO:0030154)|nervous system development (GO:0007399)		AU-rich element binding (GO:0017091)|nucleotide binding (GO:0000166)	p.A203A(1)		breast(1)|endometrium(2)|large_intestine(4)|lung(5)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	15						TTGGGTTGTTCGCGAACTTGA	0.602													C|||	1	0.000199681	0.0	0.0	5008	,	,		17572	0.0		0.001	False		,,,				2504	0.0															1	Substitution - coding silent(1)	upper_aerodigestive_tract(1)											88	77	81					19																	11568980		2203	4300	6503	SO:0001819	synonymous_variant	1995				CCDS32912.1, CCDS45978.1	19p13.2	2013-10-03	2013-10-03			ENSG00000196361		"RNA binding motif (RRM) containing"	3314	protein-coding gene	gene with protein product	"Hu antigen C", "paraneoplastic limbic encephalitis antigen 21", "paraneoplastic cerebellar degeneration-associated antigen", "ELAV-like protein 3"	603458	"ELAV (embryonic lethal, abnormal vision, Drosophila)-like 3 (Hu antigen C)"			9799595	Standard	NM_001420		Approved	HUC, PLE21, DKFZp547J036, HUCL, MGC20653	uc002mry.1	Q14576		ENST00000359227.3:c.609G>A	19.37:g.11568980C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q16135|Q96CL8|Q96QS9	Silent	SNP	ENST00000359227.3	37	CCDS32912.1																																																																																				0.602	ELAVL3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000458827.2	NM_001420		T	11568980	C	T	11568980	2	4	664	1	0	0	0	0	0	0	0	1	5053	871	31	1		1	ELAVL3	19	11568980	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	115350	11568980	47560003	914	42224										
ZNF653	115950	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	11598527	11598527	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgctcggccaggctttccaCgtggtggacgtcaaagggaa	14	11	1	0	rs140179197	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:11598527C>T	ENST00000293771.5	-	4	887	c.751G>A	c.(751-753)Gtg>Atg	p.V251M	CTC-398G3.6_ENST00000585656.1_Intron	NM_138783.3	NP_620138.2	Q96CK0	ZN653_HUMAN	zinc finger protein 653	251					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(2)|kidney(3)|large_intestine(2)|lung(8)|prostate(1)|skin(1)	17						AGGCTTTCCACGTGGTGGACG	0.687													C|||	9	0.00179712	0.0008	0.0014	5008	,	,		12948	0.0		0.005	False		,,,				2504	0.002				Pancreas(83;980 1446 4542 6441 43352)											0								C	MET/VAL	17,4389	21.2+/-45.6	0,17,2186	52	49	50		751	3.2	1	19	dbSNP_134	50	46,8554	28.5+/-78.6	0,46,4254	yes	missense	ZNF653	NM_138783.3	21	0,63,6440	TT,TC,CC		0.5349,0.3858,0.4844	benign	251/616	11598527	63,12943	2203	4300	6503	SO:0001583	missense	115950			AY072704	CCDS12261.1	19p13.2	2013-01-08						"Zinc fingers, C2H2-type"	25196	protein-coding gene	gene with protein product		611371				12477932	Standard	NM_138783		Approved	Zip67	uc002mrz.2	Q96CK0		ENST00000293771.5:c.751G>A	19.37:g.11598527C>T	ENSP00000293771:p.Val251Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q96AS7	Missense_Mutation	SNP	ENST00000293771.5	37	CCDS12261.1	3	0.0013736263736263737	0	0.0	0	0.0	0	0.0	3	0.00395778364116095	C	9.411	1.080482	0.20309	0.003858	0.005349	ENSG00000161914	ENST00000293771	T	0.11169	2.8	4.49	3.2	0.36748	.	0.848002	0.10512	N	0.665997	T	0.03220	0.0094	N	0.03608	-0.345	0.32087	N	0.592312	B	0.22211	0.066	B	0.12156	0.007	T	0.07009	-1.0795	10	0.56958	D	0.05	-30.1147	6.9266	0.24418	0.0:0.7833:0.0:0.2167	.	251	Q96CK0	ZN653_HUMAN	M	251	ENSP00000293771:V251M	ENSP00000293771:V251M	V	-	1	0	ZNF653	11459527	0.988000	0.35896	0.998000	0.56505	0.571000	0.35966	0.664000	0.25068	2.210000	0.71456	0.561000	0.74099	GTG		0.687	ZNF653-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458836.2	NM_138783		T	11598527	C	T	11598527	3	4	664	1	0	0	0	0	1	0	0	0	18078	536	19	1	1120	1	ZNF653	19	11598527	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	29547	11598527	47530456	915	42225										
ZNF441	126068	broad.mit.edu	37	chr19	11891522	11891522	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cattttatcatcttggaagcTttcaaagacacatgatagtg	7	7	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:11891522T>G	ENST00000357901.4	+	4	985	c.883T>G	c.(883-885)Ttt>Gtt	p.F295V	ZNF441_ENST00000454339.2_Missense_Mutation_p.F228V	NM_152355.2	NP_689568.2	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	295					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|kidney(1)|large_intestine(3)|lung(7)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	19						TCTTGGAAGCTTTCAAAGACA	0.393																																																0													100	101	101					19																	11891522		2203	4300	6503	SO:0001583	missense	126068			AK095956	CCDS12266.2	19p13.13	2013-01-08			ENSG00000197044	ENSG00000197044		"Zinc fingers, C2H2-type", "-"	20875	protein-coding gene	gene with protein product							Standard	NM_152355		Approved	FLJ38637	uc010dyj.3	Q8N8Z8	OTTHUMG00000154449	ENST00000357901.4:c.883T>G	19.37:g.11891522T>G	ENSP00000350576:p.Phe295Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000357901.4	37	CCDS12266.2	.	.	.	.	.	.	.	.	.	.	-	14.82	2.650710	0.47362	.	.	ENSG00000197044	ENST00000409902;ENST00000357901;ENST00000454339	T;T	0.18338	2.22;2.22	0.998	-1.72	0.08107	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.13415	0.0325	L	0.33189	0.99	0.09310	N	1	B	0.28713	0.22	B	0.34652	0.187	T	0.35574	-0.9783	9	0.72032	D	0.01	.	6.5207	0.22272	0.0:0.4892:0.0:0.5108	.	295	Q8N8Z8	ZN441_HUMAN	V	251;295;228	ENSP00000350576:F295V;ENSP00000403738:F228V	ENSP00000350576:F295V	F	+	1	0	ZNF441	11752522	0.000000	0.05858	0.005000	0.12908	0.776000	0.43924	-0.479000	0.06567	-0.701000	0.05063	0.248000	0.18094	TTT		0.393	ZNF441-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335273.3	NM_152355		G	11891522	T	G	11891522	3	3	664	1	0	0	0	0	1	0	0	0	17926	1609	56	5	897	5	ZNF441	19	11891522	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	292995	11891522	47237461	916	42226										
ZNF441	126068	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	11892622	11892622	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cccagtgcctttcataaacaTgaaaggacccacagtatgga	8	11	1	1	rs376601123		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:11892622T>C	ENST00000357901.4	+	4	2085	c.1983T>C	c.(1981-1983)caT>caC	p.H661H	ZNF441_ENST00000454339.2_Silent_p.H594H	NM_152355.2	NP_689568.2	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	661					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|kidney(1)|large_intestine(3)|lung(7)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	19						TTCATAAACATGAAAGGACCC	0.388																																																0								T		1,4405	2.1+/-5.4	0,1,2202	70	74	73		1983	0.1	0	19		73	0,8600		0,0,4300	no	coding-synonymous	ZNF441	NM_152355.2		0,1,6502	CC,CT,TT		0.0,0.0227,0.0077		661/694	11892622	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	126068			AK095956	CCDS12266.2	19p13.13	2013-01-08			ENSG00000197044	ENSG00000197044		"Zinc fingers, C2H2-type", "-"	20875	protein-coding gene	gene with protein product							Standard	NM_152355		Approved	FLJ38637	uc010dyj.3	Q8N8Z8	OTTHUMG00000154449	ENST00000357901.4:c.1983T>C	19.37:g.11892622T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000357901.4	37	CCDS12266.2																																																																																				0.388	ZNF441-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335273.3	NM_152355		C	11892622	T	C	11892622	2	2	664	1	0	0	0	0	0	0	0	1	17926	1461	51	3		3	ZNF441	19	11892622	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1100	11892622	47236361	917	42227										
ZNF878	729747	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	12155144	12155144	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctctccagtgtgtgtcctttCatgtattcgaagatccttga	8	10	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:12155144C>T	ENST00000547628.1	-	4	1209	c.1072G>A	c.(1072-1074)Gaa>Aaa	p.E358K	CTD-2006C1.2_ENST00000476474.1_RNA|CTD-2006C1.2_ENST00000591838.1_RNA|ZNF878_ENST00000602107.1_Missense_Mutation_p.E405K|CTD-2006C1.10_ENST00000547473.1_Intron|CTD-2006C1.2_ENST00000591898.1_RNA	NM_001080404.2	NP_001073873.2	C9JN71	ZN878_HUMAN	zinc finger protein 878	358					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)			cervix(1)|endometrium(1)|kidney(1)|lung(4)|urinary_tract(1)	8						TGTGTCCTTTCATGTATTCGA	0.388																																																0													46	51	49					19																	12155144		2194	4296	6490	SO:0001583	missense	729747				CCDS45984.1, CCDS45984.2	19p13.2	2013-01-08				ENSG00000257446		"Zinc fingers, C2H2-type", "-"	37246	protein-coding gene	gene with protein product							Standard	NM_001080404		Approved		uc021upl.1	C9JN71		ENST00000547628.1:c.1072G>A	19.37:g.12155144C>T	ENSP00000447931:p.Glu358Lys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000547628.1	37	CCDS45984.2	.	.	.	.	.	.	.	.	.	.	C	12.44	1.939478	0.34189	.	.	ENSG00000257446;ENSG00000232371	ENST00000547628;ENST00000440730	T	0.07327	3.2	1.29	-2.13	0.07144	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.06554	0.0168	L	0.28014	0.82	0.09310	N	1	P	0.45283	0.855	P	0.46850	0.529	T	0.35375	-0.9791	9	0.26408	T	0.33	.	4.3632	0.11211	0.0:0.2994:0.4899:0.2107	.	358	C9JN71	ZN878_HUMAN	K	358;405	ENSP00000447931:E358K	ENSP00000447931:E358K	E	-	1	0	AC022415.4;ZNF878	12016144	0.000000	0.05858	0.001000	0.08648	0.520000	0.34377	-0.192000	0.09587	-0.128000	0.11641	0.305000	0.20034	GAA		0.388	ZNF878-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403723.1	NM_001080404		T	12155144	C	T	12155144	3	4	664	1	0	0	0	0	1	0	0	0	18208	835	29	2	527	2	ZNF878	19	12155144	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	262522	12155144	46973839	918	42228										
ZNF799	90576	bcgsc.ca	37	chr19	12502787	12502787	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctttcccacgttgtttatgcGtatctggcttctctccacat	6	13	2	0	rs12974755	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:12502787G>A	ENST00000430385.3	-	4	625	c.425C>T	c.(424-426)aCg>aTg	p.T142M	CTD-3105H18.14_ENST00000435033.1_Intron|ZNF799_ENST00000419318.1_Missense_Mutation_p.T110M|CTD-3105H18.16_ENST00000595562.1_Missense_Mutation_p.T142M	NM_001080821.2	NP_001074290.1	Q96GE5	ZN799_HUMAN	zinc finger protein 799	142					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(3)|kidney(2)|large_intestine(4)|lung(4)|ovary(2)|prostate(2)|skin(2)	19						TTGTTTATGCGTATCTGGCTT	0.423													G|||	443	0.0884585	0.0174	0.0793	5008	,	,		22280	0.0585		0.1501	False		,,,				2504	0.1585															0								G	MET/THR	191,4215	123.7+/-161.0	5,181,2017	163	154	158		425	-0.8	0	19	dbSNP_121	158	1319,7281	260.2+/-283.1	101,1117,3082	no	missense	ZNF799	NM_001080821.2	81	106,1298,5099	AA,AG,GG		15.3372,4.335,11.61	possibly-damaging	142/644	12502787	1510,11496	2203	4300	6503	SO:0001583	missense	90576			BC009517	CCDS45989.1	19p13.2	2013-01-08			ENSG00000196466	ENSG00000196466		"Zinc fingers, C2H2-type", "-"	28071	protein-coding gene	gene with protein product			"zinc finger protein 842"	ZNF842			Standard	NM_001080821		Approved	HIT-40, MGC71805	uc002mts.4	Q96GE5	OTTHUMG00000156408	ENST00000430385.3:c.425C>T	19.37:g.12502787G>A	ENSP00000411084:p.Thr142Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000430385.3	37	CCDS45989.1	185	0.08470695970695971	11	0.022357723577235773	33	0.09116022099447514	26	0.045454545454545456	115	0.1517150395778364	G	11.07	1.529300	0.27387	0.04335	0.153372	ENSG00000196466	ENST00000419318;ENST00000430385	T;T	0.08458	3.09;3.22	1.0	-0.771	0.11002	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.00073	0.0002	M	0.64997	1.995	0.80722	P	0.0	D	0.65815	0.995	P	0.54060	0.741	T	0.16041	-1.0416	8	0.72032	D	0.01	.	6.2771	0.20987	0.0:0.0:0.6435:0.3565	rs12974755	142	Q96GE5	ZN799_HUMAN	M	110;142	ENSP00000415278:T110M;ENSP00000411084:T142M	ENSP00000415278:T110M	T	-	2	0	ZNF799	12363787	0.001000	0.12720	0.005000	0.12908	0.287000	0.27160	-0.024000	0.12435	-0.311000	0.08754	0.430000	0.28490	ACG		0.423	ZNF799-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344099.2	NM_001080821		A	12502787	G	A	12502787	3	1	664	1	0	0	0	0	1	0	0	0	18178	1145	40	1	1510	1	ZNF799	19	12502787	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	347643	12502787	46626196	919	42229										
ZNF709	163051	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	12574914	12574914	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tttctctccagtgtgagttcGttcatggattcgaaaggaac	10	8	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:12574914G>A	ENST00000397732.3	-	4	1993	c.1822C>T	c.(1822-1824)Cga>Tga	p.R608*	CTD-3105H18.18_ENST00000598753.1_Intron|ZNF709_ENST00000428311.1_Nonsense_Mutation_p.R608*	NM_152601.3	NP_689814.1	Q8N972	ZN709_HUMAN	zinc finger protein 709	608					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			large_intestine(3)|upper_aerodigestive_tract(3)	6						GTGTGAGTTCGTTCATGGATT	0.428																																					GBM(33;565 669 12371 29134 51667)											0													139	149	145					19																	12574914		2203	4300	6503	SO:0001587	stop_gained	163051			AK095600	CCDS42504.1	19p13.2	2013-01-08			ENSG00000242852	ENSG00000242852		"Zinc fingers, C2H2-type", "-"	20629	protein-coding gene	gene with protein product							Standard	NM_152601		Approved	FLJ38281	uc002mtv.4	Q8N972	OTTHUMG00000156406	ENST00000397732.3:c.1822C>T	19.37:g.12574914G>A	ENSP00000380840:p.Arg608*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4E6	Nonsense_Mutation	SNP	ENST00000397732.3	37	CCDS42504.1	.	.	.	.	.	.	.	.	.	.	g	38	6.779989	0.97833	.	.	ENSG00000242852;ENSG00000196826	ENST00000397732;ENST00000428311	.	.	.	2.79	-0.572	0.11745	.	.	.	.	.	.	.	.	.	.	.	0.42414	D	0.992616	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	5.2002	0.15260	0.0:0.211:0.1661:0.6228	.	.	.	.	X	608	.	ENSP00000404127:R608X	R	-	1	2	ZNF709;CTD-2192J16.17	12435914	0.000000	0.05858	0.000000	0.03702	0.135000	0.20990	-0.742000	0.04850	-0.192000	0.10432	-1.077000	0.02231	CGA		0.428	ZNF709-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344088.1	NM_152601		A	12574914	G	A	12574914	4	1	664	1	0	0	0	0	0	1	0	0	18125	1153	40	1	107	1	ZNF709	19	12574914	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	72127	12574914	46554069	920	42230										
TNPO2	30000	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr19	12812988	12812988	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggcagagggactcgtcaggCgacctgcaaccccgagcggc	15	14	1	1	rs368882556		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:12812988C>T	ENST00000592287.1	-	21	2417	c.2309G>A	c.(2308-2310)cGc>cAc	p.R770H	TNPO2_ENST00000356861.5_Intron|TNPO2_ENST00000425528.1_Missense_Mutation_p.R770H|TNPO2_ENST00000450764.2_Intron|TNPO2_ENST00000588216.1_Intron|TNPO2_ENST00000441499.1_Intron	NM_001136196.1	NP_001129668.1	O14787	TNPO2_HUMAN	transportin 2	770					intracellular protein transport (GO:0006886)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	nuclear localization sequence binding (GO:0008139)			autonomic_ganglia(1)|breast(2)|endometrium(5)|kidney(2)|large_intestine(2)|lung(12)|ovary(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	28						ACTCGTCAGGCGACCTGCAAC	0.682																																																0								C	,HIS/ARG,	0,4222		0,0,2111	30	37	35		,2309,	3.1	1	19		35	1,8433		0,1,4216	no	intron,missense,intron	TNPO2	NM_001136195.1,NM_001136196.1,NM_013433.4	,29,	0,1,6327	TT,TC,CC		0.0119,0.0,0.0079	,benign,	,770/898,	12812988	1,12655	2111	4217	6328	SO:0001583	missense	30000			AF019039	CCDS45991.1, CCDS45992.1	19p13.13	2009-01-12	2009-01-12			ENSG00000105576		"Importins"	19998	protein-coding gene	gene with protein product	"importin 3", "karyopherin beta 2b"	603002				9298975, 12384575	Standard	NM_013433		Approved	IPO3, KPNB2B, FLJ12155, TRN2	uc002muo.3	O14787		ENST00000592287.1:c.2309G>A	19.37:g.12812988C>T	ENSP00000468434:p.Arg770His	Somatic		WXS	Illumina HiSeq	Phase_I	O14655|Q6IN77	Missense_Mutation	SNP	ENST00000592287.1	37	CCDS45991.1	.	.	.	.	.	.	.	.	.	.	C	14.19	2.460680	0.43736	0.0	1.19E-4	ENSG00000105576	ENST00000425528;ENST00000450764	T	0.22945	1.93	5.26	3.08	0.35506	Armadillo-like helical (1);Armadillo-type fold (1);	0.554792	0.17271	N	0.180376	T	0.08980	0.0222	N	0.14661	0.345	0.80722	D	1	P	0.46457	0.878	B	0.21360	0.034	T	0.24154	-1.0168	9	.	.	.	-17.3437	7.4918	0.27466	0.1649:0.7487:0.0:0.0864	.	770	O14787	TNPO2_HUMAN	H	770	ENSP00000407182:R770H	.	R	-	2	0	TNPO2	12673988	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	1.150000	0.31639	0.563000	0.29222	0.561000	0.74099	CGC		0.682	TNPO2-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000450785.1	NM_013433		T	12812988	C	T	12812988	3	4	664	1	0	0	0	0	1	0	0	0	16348	768	27	1	400	1	TNPO2	19	12812988	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	238074	12812988	46315995	921	42231										
BEST2	54831	broad.mit.edu	37	chr19	12865478	12865478	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgcacggacgcgacgaccgCggccgcctctaccggcgcac	14	18	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:12865478C>T	ENST00000549706.1	+	4	684	c.360C>T	c.(358-360)cgC>cgT	p.R120R	BEST2_ENST00000553030.1_Silent_p.R120R|BEST2_ENST00000042931.1_Silent_p.R120R			Q8NFU1	BEST2_HUMAN	bestrophin 2	120					chloride transmembrane transport (GO:1902476)|membrane depolarization (GO:0051899)|sensory perception of smell (GO:0007608)	chloride channel complex (GO:0034707)|cilium (GO:0005929)|plasma membrane (GO:0005886)	chloride channel activity (GO:0005254)			breast(3)|endometrium(1)|large_intestine(4)|lung(2)|ovary(1)|pancreas(1)	12						GCGACGACCGCGGCCGCCTCT	0.697																																																0													11	12	12					19																	12865478		2086	4168	6254	SO:0001819	synonymous_variant	54831			AF440756	CCDS42506.1	19p13.13	2014-08-12	2006-10-18	2006-10-18	ENSG00000039987	ENSG00000039987		"Ion channels / Chloride channels : Calcium activated : Bestrophins"	17107	protein-coding gene	gene with protein product		607335	"vitelliform macular dystrophy 2-like 1"	VMD2L1		12032738, 16912113	Standard	NM_017682		Approved	FLJ20132	uc002mux.3	Q8NFU1	OTTHUMG00000169293	ENST00000549706.1:c.360C>T	19.37:g.12865478C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q53YQ8|Q9NXP0	Silent	SNP	ENST00000549706.1	37	CCDS42506.1																																																																																				0.697	BEST2-002	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403343.1	NM_017682		T	12865478	C	T	12865478	2	4	664	1	0	0	0	0	0	0	0	1	1405	755	27	1		1	BEST2	19	12865478	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	52490	12865478	46263505	922	42232										
NFIX	4784	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	13183866	13183866	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttgtgtctcctgcagaatccGgacaatcagatagttcaaac	8	10	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:13183866G>A	ENST00000592199.1	+	3	565	c.565G>A	c.(565-567)Gga>Aga	p.G189R	NFIX_ENST00000585575.1_Missense_Mutation_p.G181R|NFIX_ENST00000358552.3_Missense_Mutation_p.G188R|AC007787.2_ENST00000588095.1_RNA|NFIX_ENST00000360105.4_Missense_Mutation_p.G192R|NFIX_ENST00000587760.1_Missense_Mutation_p.G181R|NFIX_ENST00000588228.1_Missense_Mutation_p.G142R|NFIX_ENST00000588680.1_3'UTR|NFIX_ENST00000587260.1_Missense_Mutation_p.G188R|NFIX_ENST00000397661.2_Missense_Mutation_p.G189R			Q14938	NFIX_HUMAN	nuclear factor I/X (CCAAT-binding transcription factor)	189					astrocyte differentiation (GO:0048708)|cerebellar granule cell differentiation (GO:0021707)|cerebellar Purkinje cell layer development (GO:0021680)|DNA replication (GO:0006260)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(1)|endometrium(3)|kidney(2)|large_intestine(1)|lung(1)|skin(1)|urinary_tract(1)	11			OV - Ovarian serous cystadenocarcinoma(19;8.2e-22)			TGCAGAATCCGGACAATCAGA	0.557																																																0													138	139	139					19																	13183866		2015	4165	6180	SO:0001583	missense	4784			U18761	CCDS45996.1, CCDS59359.1	19p13.3	2008-02-05				ENSG00000008441			7788	protein-coding gene	gene with protein product		164005				8340106, 7590749	Standard	NM_001271043		Approved	NF1A	uc010xmx.2	Q14938		ENST00000592199.1:c.565G>A	19.37:g.13183866G>A	ENSP00000467512:p.Gly189Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DM25|O60413|Q0VG09|Q12859|Q13050|Q13052|Q5U094|Q9UPH1|Q9Y6R8	Missense_Mutation	SNP	ENST00000592199.1	37		.	.	.	.	.	.	.	.	.	.	G	24.0	4.480896	0.84747	.	.	ENSG00000008441	ENST00000397661;ENST00000360105;ENST00000264825;ENST00000438869;ENST00000358552	T;T	0.45276	0.91;0.9	4.59	4.59	0.56863	CTF transcription factor/nuclear factor 1, DNA-binding domain (1);	0.000000	0.85682	D	0.000000	T	0.58864	0.2152	L	0.55481	1.735	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.97110	0.999;0.999;0.999;0.999;1.0	T	0.59177	-0.7503	10	0.48119	T	0.1	.	14.6799	0.69009	0.0:0.0:1.0:0.0	.	197;188;192;189;189	B4DHW2;Q14938-5;F8W8H9;Q14938;Q14938-3	.;.;.;NFIX_HUMAN;.	R	189;189;192;142;188	ENSP00000380781:G189R;ENSP00000351354:G188R	ENSP00000264825:G192R	G	+	1	0	NFIX	13044866	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	8.228000	0.89789	2.280000	0.76307	0.462000	0.41574	GGA		0.557	NFIX-013	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000452763.1	NM_002501		A	13183866	G	A	13183866	3	1	664	1	0	0	0	0	1	0	0	0	10381	1117	39	1	575	1	NFIX	19	13183866	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	318388	13183866	45945117	923	42233										
NFIX	4784	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	13186460	13186460	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctggcagcagccagtccagCgggtggcccaacgatgtgga	16	12	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:13186460C>T	ENST00000592199.1	+	6	930	c.930C>T	c.(928-930)agC>agT	p.S310S	NFIX_ENST00000585575.1_Silent_p.S302S|NFIX_ENST00000358552.3_Silent_p.S309S|NFIX_ENST00000360105.4_Silent_p.S313S|NFIX_ENST00000587760.1_Silent_p.S302S|NFIX_ENST00000588228.1_Silent_p.S263S|NFIX_ENST00000587260.1_Silent_p.S309S|NFIX_ENST00000397661.2_Silent_p.S310S			Q14938	NFIX_HUMAN	nuclear factor I/X (CCAAT-binding transcription factor)	310					astrocyte differentiation (GO:0048708)|cerebellar granule cell differentiation (GO:0021707)|cerebellar Purkinje cell layer development (GO:0021680)|DNA replication (GO:0006260)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(1)|endometrium(3)|kidney(2)|large_intestine(1)|lung(1)|skin(1)|urinary_tract(1)	11			OV - Ovarian serous cystadenocarcinoma(19;8.2e-22)			GCCAGTCCAGCGGGTGGCCCA	0.607																																																0													26	32	30					19																	13186460		2038	4192	6230	SO:0001819	synonymous_variant	4784			U18761	CCDS45996.1, CCDS59359.1	19p13.3	2008-02-05				ENSG00000008441			7788	protein-coding gene	gene with protein product		164005				8340106, 7590749	Standard	NM_001271043		Approved	NF1A	uc010xmx.2	Q14938		ENST00000592199.1:c.930C>T	19.37:g.13186460C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DM25|O60413|Q0VG09|Q12859|Q13050|Q13052|Q5U094|Q9UPH1|Q9Y6R8	Silent	SNP	ENST00000592199.1	37																																																																																					0.607	NFIX-013	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000452763.1	NM_002501		T	13186460	C	T	13186460	2	4	664	1	0	0	0	0	0	0	0	1	10381	767	27	1		1	NFIX	19	13186460	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2594	13186460	45942523	924	42234										
NACC1	112939	broad.mit.edu;bcgsc.ca	37	chr19	13248350	13248350	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttctaccaacgatccccgtCggaagcccctggacagccgc	9	18	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:13248350C>T	ENST00000292431.4	+	5	1411	c.1285C>T	c.(1285-1287)Cgg>Tgg	p.R429W	CTC-250I14.3_ENST00000591825.1_RNA	NM_052876.3	NP_443108.1	Q96RE7	NACC1_HUMAN	nucleus accumbens associated 1, BEN and BTB (POZ) domain containing	429	BEN. {ECO:0000255|PROSITE- ProRule:PRU00784}.				negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)|protein homooligomerization (GO:0051260)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nuclear body (GO:0016604)|nucleus (GO:0005634)				endometrium(3)|large_intestine(2)|lung(3)|skin(1)	9						CGATCCCCGTCGGAAGCCCCT	0.652																																																0													17	17	17					19																	13248350		2199	4290	6489	SO:0001583	missense	112939			AF395817	CCDS12294.1	19p13.13	2013-01-09	2008-10-03	2008-10-03		ENSG00000160877		"BEN domain containing", "BTB/POZ domain containing"	20967	protein-coding gene	gene with protein product	"nucleus accumbens associated 1", "BEN domain containing 8"	610672	"BTB (POZ) domain containing 14B"	BTBD14B		12477932	Standard	NM_052876		Approved	NAC1, NAC-1, BEND8, BTBD30	uc002mwm.4	Q96RE7		ENST00000292431.4:c.1285C>T	19.37:g.13248350C>T	ENSP00000292431:p.Arg429Trp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000292431.4	37	CCDS12294.1	.	.	.	.	.	.	.	.	.	.	C	16.35	3.097309	0.56075	.	.	ENSG00000160877	ENST00000292431	T	0.49139	0.79	4.33	4.33	0.51752	BEN domain (2);	0.061313	0.64402	D	0.000013	T	0.50240	0.1604	N	0.19112	0.55	0.47698	D	0.999499	D	0.89917	1.0	D	0.79784	0.993	T	0.54091	-0.8345	10	0.87932	D	0	.	9.6254	0.39748	0.2084:0.7916:0.0:0.0	.	429	Q96RE7	NACC1_HUMAN	W	429	ENSP00000292431:R429W	ENSP00000292431:R429W	R	+	1	2	NACC1	13109350	0.964000	0.33143	0.997000	0.53966	0.081000	0.17604	2.266000	0.43320	2.267000	0.75376	0.555000	0.69702	CGG		0.652	NACC1-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452879.1	NM_052876		T	13248350	C	T	13248350	3	4	664	1	0	0	0	0	1	0	0	0	10142	875	31	1	1299	1	NACC1	19	13248350	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	61890	13248350	45880633	925	42235										
ZSWIM4	65249	mdanderson.org	37	chr19	13936443	13936443	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccctgctctttaagctggcGcaggacgcctgcaagacagc	12	14	1	1	rs202144110	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:13936443G>A	ENST00000254323.2	+	11	2133	c.1944G>A	c.(1942-1944)gcG>gcA	p.A648A	ZSWIM4_ENST00000440752.2_Silent_p.A482A	NM_023072.2	NP_075560.2	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4	648							zinc ion binding (GO:0008270)			central_nervous_system(3)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(11)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	27			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			TTAAGCTGGCGCAGGACGCCT	0.662													G|||	3	0.000599042	0.0	0.0043	5008	,	,		15695	0.0		0.0	False		,,,				2504	0.0															0								G		0,4406		0,0,2203	63	65	65		1944	-7.8	0.9	19		65	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	ZSWIM4	NM_023072.2		0,1,6502	AA,AG,GG		0.0116,0.0,0.0077		648/990	13936443	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	65249			AK022283	CCDS32924.1	19p13.13	2012-02-23			ENSG00000132003	ENSG00000132003		"Zinc fingers, SWIM-type"	25704	protein-coding gene	gene with protein product							Standard	NM_023072		Approved	FLJ12221	uc002mxh.1	Q9H7M6		ENST00000254323.2:c.1944G>A	19.37:g.13936443G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000254323.2	37	CCDS32924.1																																																																																				0.662	ZSWIM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457457.1	XM_031342		A	13936443	G	A	13936443	2	1	664	1	0	0	0	0	0	0	0	1	18255	1074	38	1		1	ZSWIM4	19	13936443	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	688093	13936443	45192540	926	42236										
LPHN1	22859	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	14268815	14268815	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accagtagcccagcatggaaCgctccgagtagttccagaag	11	12	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:14268815C>T	ENST00000340736.6	-	14	2726	c.2429G>A	c.(2428-2430)cGt>cAt	p.R810H	CTB-55O6.12_ENST00000588387.1_RNA|LPHN1_ENST00000361434.3_Missense_Mutation_p.R805H|CTB-55O6.12_ENST00000592086.1_RNA|CTB-55O6.12_ENST00000588658.1_RNA	NM_001008701.2	NP_001008701.1	O94910	LPHN1_HUMAN	latrophilin 1	810	GPS. {ECO:0000255|PROSITE- ProRule:PRU00098}.				calcium-mediated signaling using intracellular calcium source (GO:0035584)|G-protein coupled receptor signaling pathway (GO:0007186)|heterophilic cell-cell adhesion (GO:0007157)|neuropeptide signaling pathway (GO:0007218)|positive regulation of synapse maturation (GO:0090129)	axon (GO:0030424)|cell junction (GO:0030054)|growth cone (GO:0030426)|integral component of membrane (GO:0016021)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)|presynaptic membrane (GO:0042734)|synapse (GO:0045202)	carbohydrate binding (GO:0030246)|cell adhesion molecule binding (GO:0050839)|G-protein coupled receptor activity (GO:0004930)|latrotoxin receptor activity (GO:0016524)			central_nervous_system(1)|cervix(2)|endometrium(6)|kidney(1)|large_intestine(3)|liver(1)|lung(10)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	32						CAGCATGGAACGCTCCGAGTA	0.567																																																0													202	161	175					19																	14268815		2203	4300	6503	SO:0001583	missense	22859			AB020628	CCDS12307.1, CCDS32928.1	19p13.2	2014-08-08				ENSG00000072071		"-", "GPCR / Class B : Orphans"	20973	protein-coding gene	gene with protein product						10994649	Standard	NM_014921		Approved	KIAA0821, CIRL1, LEC2	uc010xnn.2	O94910		ENST00000340736.6:c.2429G>A	19.37:g.14268815C>T	ENSP00000340688:p.Arg810His	Somatic		WXS	Illumina HiSeq	Phase_I	Q96IE7|Q9BU07|Q9HAR3	Missense_Mutation	SNP	ENST00000340736.6	37	CCDS32928.1	.	.	.	.	.	.	.	.	.	.	C	13.07	2.126719	0.37533	.	.	ENSG00000072071	ENST00000340736;ENST00000361434	T;T	0.70631	-0.5;-0.5	4.73	4.73	0.59995	GPS domain (3);	0.000000	0.85682	D	0.000000	T	0.70465	0.3227	L	0.41961	1.31	0.50632	D	0.999883	P;P	0.42203	0.74;0.773	P;P	0.47015	0.479;0.534	T	0.73757	-0.3882	10	0.56958	D	0.05	.	15.5416	0.76052	0.0:1.0:0.0:0.0	.	805;810	O94910-2;O94910	.;LPHN1_HUMAN	H	810;805	ENSP00000340688:R810H;ENSP00000355328:R805H	ENSP00000340688:R810H	R	-	2	0	LPHN1	14129815	1.000000	0.71417	0.918000	0.36340	0.417000	0.31264	4.920000	0.63390	2.339000	0.79563	0.561000	0.74099	CGT		0.567	LPHN1-001	KNOWN	overlapping_uORF|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000459696.1	NM_014921		T	14268815	C	T	14268815	3	4	664	1	0	0	0	0	1	0	0	0	8922	536	19	1	2039	1	LPHN1	19	14268815	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	332372	14268815	44860168	927	42237										
LPHN1	22859	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	14273936	14273936	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggtcatacttgacgatgttgCgcgtgcgctccttgttgtag	13	9	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:14273936C>T	ENST00000340736.6	-	6	989	c.692G>A	c.(691-693)cGc>cAc	p.R231H	LPHN1_ENST00000591528.1_5'UTR|CTB-55O6.12_ENST00000588387.1_RNA|LPHN1_ENST00000361434.3_Missense_Mutation_p.R226H|CTB-55O6.12_ENST00000592086.1_RNA	NM_001008701.2	NP_001008701.1	O94910	LPHN1_HUMAN	latrophilin 1	231	Olfactomedin-like. {ECO:0000255|PROSITE- ProRule:PRU00446}.				calcium-mediated signaling using intracellular calcium source (GO:0035584)|G-protein coupled receptor signaling pathway (GO:0007186)|heterophilic cell-cell adhesion (GO:0007157)|neuropeptide signaling pathway (GO:0007218)|positive regulation of synapse maturation (GO:0090129)	axon (GO:0030424)|cell junction (GO:0030054)|growth cone (GO:0030426)|integral component of membrane (GO:0016021)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)|presynaptic membrane (GO:0042734)|synapse (GO:0045202)	carbohydrate binding (GO:0030246)|cell adhesion molecule binding (GO:0050839)|G-protein coupled receptor activity (GO:0004930)|latrotoxin receptor activity (GO:0016524)			central_nervous_system(1)|cervix(2)|endometrium(6)|kidney(1)|large_intestine(3)|liver(1)|lung(10)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	32						GACGATGTTGCGCGTGCGCTC	0.622																																																0													145	100	115					19																	14273936		2203	4300	6503	SO:0001583	missense	22859			AB020628	CCDS12307.1, CCDS32928.1	19p13.2	2014-08-08				ENSG00000072071		"-", "GPCR / Class B : Orphans"	20973	protein-coding gene	gene with protein product						10994649	Standard	NM_014921		Approved	KIAA0821, CIRL1, LEC2	uc010xnn.2	O94910		ENST00000340736.6:c.692G>A	19.37:g.14273936C>T	ENSP00000340688:p.Arg231His	Somatic		WXS	Illumina HiSeq	Phase_I	Q96IE7|Q9BU07|Q9HAR3	Missense_Mutation	SNP	ENST00000340736.6	37	CCDS32928.1	.	.	.	.	.	.	.	.	.	.	C	29.2	4.983472	0.93044	.	.	ENSG00000072071	ENST00000340736;ENST00000361434	D;D	0.90069	-2.61;-2.61	4.8	4.8	0.61643	Olfactomedin-like (3);	0.000000	0.85682	D	0.000000	D	0.93893	0.8046	M	0.74467	2.265	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.83275	0.996;0.996	D	0.94657	0.7844	10	0.87932	D	0	.	15.3705	0.74560	0.0:1.0:0.0:0.0	.	226;231	O94910-2;O94910	.;LPHN1_HUMAN	H	231;226	ENSP00000340688:R231H;ENSP00000355328:R226H	ENSP00000340688:R231H	R	-	2	0	LPHN1	14134936	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.749000	0.85096	2.204000	0.70986	0.655000	0.94253	CGC		0.622	LPHN1-001	KNOWN	overlapping_uORF|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000459696.1	NM_014921		T	14273936	C	T	14273936	3	4	664	1	0	0	0	0	1	0	0	0	8922	768	27	1	3808	1	LPHN1	19	14273936	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	5121	14273936	44855047	928	42238										
SLC1A6	6511	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	15063793	15063793	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcttccgtgggcaagccgacCgacgtaagcacaatgaccat	10	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:15063793C>T	ENST00000221742.3	-	8	1453	c.1446G>A	c.(1444-1446)tcG>tcA	p.S482S	SLC1A6_ENST00000600144.1_Silent_p.S404S|SLC1A6_ENST00000430939.2_Silent_p.S418S	NM_005071.1	NP_005062.1	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity aspartate/glutamate transporter), member 6	482					aspartate transport (GO:0015810)|ion transport (GO:0006811)|L-glutamate transport (GO:0015813)|regulation of membrane potential (GO:0042391)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	L-aspartate transmembrane transporter activity (GO:0015183)|L-glutamate transmembrane transporter activity (GO:0005313)|sodium:dicarboxylate symporter activity (GO:0017153)			breast(1)|central_nervous_system(2)|endometrium(6)|large_intestine(8)|liver(1)|lung(12)|ovary(3)|pancreas(3)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	42						GCAAGCCGACCGACGTAAGCA	0.612																																																0													189	149	162					19																	15063793		2203	4300	6503	SO:0001819	synonymous_variant	6511				CCDS12321.1, CCDS62578.1	19p13.12	2013-07-15			ENSG00000105143	ENSG00000105143		"Solute carriers"	10944	protein-coding gene	gene with protein product		600637				7791878	Standard	NM_005071		Approved	EAAT4	uc002naa.2	P48664	OTTHUMG00000183351	ENST00000221742.3:c.1446G>A	19.37:g.15063793C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N753	Silent	SNP	ENST00000221742.3	37	CCDS12321.1																																																																																				0.612	SLC1A6-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466283.1	NM_005071		T	15063793	C	T	15063793	2	4	664	1	0	0	0	0	0	0	0	1	14449	639	23	1		1	SLC1A6	19	15063793	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	789857	15063793	44065190	929	42239										
NOTCH3	4854	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	15297722	15297722	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttggcagacacagtcgtagcGgttgatgccatcacggcaga	13	10	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:15297722G>A	ENST00000263388.2	-	12	1993	c.1918C>T	c.(1918-1920)Cgc>Tgc	p.R640C		NM_000435.2	NP_000426.2	Q9UM47	NOTC3_HUMAN	notch 3	640	EGF-like 16; calcium-binding. {ECO:0000255|PROSITE-ProRule:PRU00076}.				forebrain development (GO:0030900)|gene expression (GO:0010467)|glomerular capillary formation (GO:0072104)|negative regulation of neuron differentiation (GO:0045665)|neuron fate commitment (GO:0048663)|Notch receptor processing (GO:0007220)|Notch signaling pathway (GO:0007219)|positive regulation of smooth muscle cell proliferation (GO:0048661)|regulation of transcription, DNA-templated (GO:0006355)|transcription initiation from RNA polymerase II promoter (GO:0006367)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)			breast(4)|central_nervous_system(3)|endometrium(10)|kidney(3)|large_intestine(16)|liver(1)|lung(31)|ovary(8)|prostate(3)|skin(7)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	93			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			CAGTCGTAGCGGTTGATGCCA	0.582																																																0													106	82	90					19																	15297722		2203	4300	6503	SO:0001583	missense	4854			U97669	CCDS12326.1	19p13.2-p13.1	2013-01-10	2010-06-24			ENSG00000074181		"Ankyrin repeat domain containing"	7883	protein-coding gene	gene with protein product		600276	"Notch (Drosophila) homolog 3", "Notch homolog 3 (Drosophila)"	CADASIL		7835890	Standard	NM_000435		Approved	CASIL	uc002nan.3	Q9UM47		ENST00000263388.2:c.1918C>T	19.37:g.15297722G>A	ENSP00000263388:p.Arg640Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UEB3|Q9UPL3|Q9Y6L8	Missense_Mutation	SNP	ENST00000263388.2	37	CCDS12326.1	.	.	.	.	.	.	.	.	.	.	G	19.27	3.794432	0.70452	.	.	ENSG00000074181	ENST00000263388;ENST00000539383	D	0.95137	-3.62	4.52	3.45	0.39498	EGF-like calcium-binding, conserved site (1);EGF-like calcium-binding (1);Epidermal growth factor-like, type 3 (1);	.	.	.	.	D	0.96040	0.8710	M	0.72479	2.2	0.58432	D	0.999998	D;D	0.89917	1.0;1.0	D;D	0.76071	0.956;0.987	D	0.95023	0.8162	9	0.56958	D	0.05	.	8.8859	0.35402	0.0:0.1636:0.6673:0.1691	.	643;640	Q59FL3;Q9UM47	.;NOTC3_HUMAN	C	640;642	ENSP00000263388:R640C	ENSP00000263388:R640C	R	-	1	0	NOTCH3	15158722	0.999000	0.42202	1.000000	0.80357	0.991000	0.79684	0.750000	0.26334	0.979000	0.38497	0.655000	0.94253	CGC		0.582	NOTCH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465714.1	NM_000435		A	15297722	G	A	15297722	3	1	664	1	0	0	0	0	1	0	0	0	10557	1116	39	1	5135	1	NOTCH3	19	15297722	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	233929	15297722	43831261	930	42240										
CYP4F3	4051	broad.mit.edu	37	chr19	15752327	15752327	+	Silent	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcctggctcctggcccgcatCctggcctggacctatacctt	9	17	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:15752327C>A	ENST00000221307.8	+	2	149	c.102C>A	c.(100-102)atC>atA	p.I34I	CYP4F3_ENST00000591058.1_Silent_p.I34I|CYP4F3_ENST00000585846.1_Silent_p.I34I|CYP4F3_ENST00000586182.2_Silent_p.I34I	NM_000896.2	NP_000887.2	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F, polypeptide 3	34					arachidonic acid metabolic process (GO:0019369)|icosanoid metabolic process (GO:0006690)|leukotriene metabolic process (GO:0006691)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	alpha-tocopherol omega-hydroxylase activity (GO:0052871)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|leukotriene-B4 20-monooxygenase activity (GO:0050051)|monooxygenase activity (GO:0004497)			endometrium(3)|large_intestine(4)|lung(21)|ovary(3)|prostate(2)|stomach(1)	34						TGGCCCGCATCCTGGCCTGGA	0.637																																																0													60	63	62					19																	15752327		2203	4300	6503	SO:0001819	synonymous_variant	4051			AB002454	CCDS12332.1, CCDS59362.1	19p13.12	2013-02-21	2003-01-14		ENSG00000186529	ENSG00000186529		"Cytochrome P450s"	2646	protein-coding gene	gene with protein product		601270	"cytochrome P450, subfamily IVF, polypeptide 3 (leukotriene B4 omega hydroxylase)"	LTB4H		8486631, 9539102	Standard	NM_000896		Approved	CYP4F	uc010xol.2	Q08477	OTTHUMG00000182374	ENST00000221307.8:c.102C>A	19.37:g.15752327C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8Z3|O60634|Q5U740	Silent	SNP	ENST00000221307.8	37	CCDS12332.1																																																																																				0.637	CYP4F3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000460819.3	NM_000896		A	15752327	C	A	15752327	2	1	664	1	0	0	0	0	0	0	0	1	4192	845	30	4		4	CYP4F3	19	15752327	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	454605	15752327	43376656	931	42241										
AP1M1	8907	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	16345014	16345014	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctacctgtgccccaggtgcGctacctgaagatcattgaga	11	12	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:16345014G>A	ENST00000291439.3	+	11	1627	c.1178G>A	c.(1177-1179)cGc>cAc	p.R393H	AP1M1_ENST00000541844.1_Missense_Mutation_p.R321H|AP1M1_ENST00000590756.1_Missense_Mutation_p.R321H|AP1M1_ENST00000444449.2_Missense_Mutation_p.R405H|AP1M1_ENST00000429941.2_Missense_Mutation_p.R340H	NM_032493.3	NP_115882.1	Q9BXS5	AP1M1_HUMAN	adaptor-related protein complex 1, mu 1 subunit	393	MHD. {ECO:0000255|PROSITE- ProRule:PRU00404}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|endosome to melanosome transport (GO:0035646)|intracellular protein transport (GO:0006886)|melanosome organization (GO:0032438)|membrane organization (GO:0061024)|post-Golgi vesicle-mediated transport (GO:0006892)|regulation of defense response to virus by virus (GO:0050690)|viral process (GO:0016032)	clathrin adaptor complex (GO:0030131)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|trans-Golgi network membrane (GO:0032588)				breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(7)|ovary(3)|prostate(2)	21						CCCCAGGTGCGCTACCTGAAG	0.647																																																0													63	56	58					19																	16345014		2203	4300	6503	SO:0001583	missense	8907				CCDS12342.1, CCDS46008.1	19p13.12	2008-05-23							13667	protein-coding gene	gene with protein product		603535				9653655, 17988225	Standard	NM_032493		Approved	AP47, CLAPM2	uc002ndv.2	Q9BXS5		ENST00000291439.3:c.1178G>A	19.37:g.16345014G>A	ENSP00000291439:p.Arg393His	Somatic		WXS	Illumina HiSeq	Phase_I	Q4TTY5	Missense_Mutation	SNP	ENST00000291439.3	37	CCDS12342.1	.	.	.	.	.	.	.	.	.	.	G	25.6	4.657095	0.88154	.	.	ENSG00000072958	ENST00000444449;ENST00000291439;ENST00000541844;ENST00000429941	T;T;T;T	0.22743	1.94;1.94;1.94;1.94	3.58	3.58	0.41010	Clathrin adaptor, mu subunit, C-terminal (3);	0.000000	0.85682	D	0.000000	T	0.48589	0.1508	M	0.93978	3.48	0.80722	D	1	D;P;P	0.57899	0.981;0.864;0.864	P;P;P	0.54312	0.748;0.458;0.458	T	0.66771	-0.5839	10	0.72032	D	0.01	-29.6875	14.7335	0.69399	0.0:0.0:1.0:0.0	.	340;405;393	E7ENJ6;Q4TTY5;Q9BXS5	.;.;AP1M1_HUMAN	H	405;393;321;340	ENSP00000388996:R405H;ENSP00000291439:R393H;ENSP00000445682:R321H;ENSP00000411498:R340H	ENSP00000291439:R393H	R	+	2	0	AP1M1	16206014	1.000000	0.71417	1.000000	0.80357	0.942000	0.58702	9.354000	0.97083	2.017000	0.59298	0.561000	0.74099	CGC		0.647	AP1M1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460492.1	NM_032493		A	16345014	G	A	16345014	3	1	664	1	0	0	0	0	1	0	0	0	734	1087	38	1	1260	1	AP1M1	19	16345014	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	592687	16345014	42783969	932	42242										
SIN3B	23309	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	16976291	16976291	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtgcagaagaagctatctcGgatggcgccggaagaccagg	15	9	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:16976291G>A	ENST00000248054.5	+	11	1475	c.1454G>A	c.(1453-1455)cGg>cAg	p.R485Q	SIN3B_ENST00000595541.1_Missense_Mutation_p.R75Q|SIN3B_ENST00000379803.1_Missense_Mutation_p.R517Q					SIN3 transcription regulator family member B											endometrium(4)|kidney(2)|large_intestine(8)|lung(8)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	26						AAGCTATCTCGGATGGCGCCG	0.582																																																0													88	78	81					19																	16976291		2203	4300	6503	SO:0001583	missense	23309			AB014600	CCDS32946.1, CCDS74308.1	19p13.12	2013-08-21	2013-08-21						19354	protein-coding gene	gene with protein product		607777	"SIN3 homolog B, transcription regulator (yeast)", "SIN3 transcription regulator homolog B (yeast)"			9734811	Standard	XM_005259832		Approved	KIAA0700	uc002ney.2	O75182		ENST00000248054.5:c.1454G>A	19.37:g.16976291G>A	ENSP00000248054:p.Arg485Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000248054.5	37		.	.	.	.	.	.	.	.	.	.	G	20.1	3.934950	0.73442	.	.	ENSG00000127511	ENST00000379803;ENST00000248054	T;T	0.47869	0.86;0.83	4.77	4.77	0.60923	Histone deacetylase interacting (2);	0.054954	0.85682	D	0.000000	T	0.58623	0.2135	L	0.55103	1.725	0.80722	D	1	P;P;D	0.59357	0.928;0.603;0.985	P;B;P	0.56751	0.54;0.265;0.805	T	0.55095	-0.8194	10	0.27082	T	0.32	-13.5955	17.85	0.88744	0.0:0.0:1.0:0.0	.	75;485;517	B7Z392;O75182-2;O75182	.;.;SIN3B_HUMAN	Q	517;485	ENSP00000369131:R517Q;ENSP00000248054:R485Q	ENSP00000248054:R485Q	R	+	2	0	SIN3B	16837291	1.000000	0.71417	0.728000	0.30774	0.473000	0.32948	7.776000	0.85560	2.205000	0.71048	0.456000	0.33151	CGG		0.582	SIN3B-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000462846.1	NM_015260		A	16976291	G	A	16976291	3	1	664	1	0	0	0	0	1	0	0	0	14339	1116	39	1	1596	1	SIN3B	19	16976291	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	631277	16976291	42152692	933	42243										
HAPLN4	404037	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	19369385	19369385	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agcgttcctcggcgttatggCgatacccgtagttgcgcagg	14	11	0	0	rs372695408		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:19369385C>T	ENST00000291481.7	-	4	827	c.764G>A	c.(763-765)cGc>cAc	p.R255H	AC138430.4_ENST00000586064.2_RNA	NM_023002.2	NP_075378.1	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	255	Link 1. {ECO:0000255|PROSITE- ProRule:PRU00323, ECO:0000305}.				cell adhesion (GO:0007155)	proteinaceous extracellular matrix (GO:0005578)	hyaluronic acid binding (GO:0005540)			NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(7)|pancreas(1)|prostate(1)	16			Epithelial(12;0.00575)		Hyaluronan(DB08818)	GGCGTTATGGCGATACCCGTA	0.701																																																0								C	HIS/ARG	0,4406		0,0,2203	75	61	66		764	4	0.7	19		66	1,8599	1.2+/-3.3	0,1,4299	no	missense	HAPLN4	NM_023002.2	29	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	255/403	19369385	1,13005	2203	4300	6503	SO:0001583	missense	404037			AB107883	CCDS12398.1	19p13.1	2013-01-11						"Immunoglobulin superfamily / V-set domain containing"	31357	protein-coding gene	gene with protein product	"brain link protein 2"					12663660	Standard	NM_023002		Approved	BRAL2, KIAA1926	uc002nmb.3	Q86UW8		ENST00000291481.7:c.764G>A	19.37:g.19369385C>T	ENSP00000291481:p.Arg255His	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKW5|Q96PW2	Missense_Mutation	SNP	ENST00000291481.7	37	CCDS12398.1	.	.	.	.	.	.	.	.	.	.	C	23.6	4.435566	0.83885	0.0	1.16E-4	ENSG00000187664	ENST00000291481	T	0.14144	2.53	3.97	3.97	0.46021	C-type lectin fold (1);Link (3);C-type lectin-like (1);	0.071699	0.50627	D	0.000116	T	0.48995	0.1531	H	0.95539	3.685	0.46222	D	0.99893	D	0.89917	1.0	D	0.79784	0.993	T	0.66516	-0.5904	10	0.72032	D	0.01	-25.3078	14.7601	0.69600	0.0:1.0:0.0:0.0	.	255	Q86UW8	HPLN4_HUMAN	H	255	ENSP00000291481:R255H	ENSP00000291481:R255H	R	-	2	0	HAPLN4	19230385	0.996000	0.38824	0.692000	0.30179	0.636000	0.38137	3.440000	0.52886	2.055000	0.61198	0.313000	0.20887	CGC		0.701	HAPLN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460117.2	NM_023002		T	19369385	C	T	19369385	3	4	664	1	0	0	0	0	1	0	0	0	6964	768	27	1	452	1	HAPLN4	19	19369385	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2393094	19369385	39759598	934	42244										
ZNF737	100129842	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr19	20735292	20735292	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgcacctacctgaggggttgGctaccatctcatgtttcttc	9	12	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:20735292G>A	ENST00000427401.4	-	3	309	c.215C>T	c.(214-216)gCc>gTc	p.A72V	ZNF737_ENST00000596797.1_Missense_Mutation_p.A72V|CTC-513N18.7_ENST00000595094.1_lincRNA	NM_001159293.1	NP_001152765.1	O75373	ZN737_HUMAN	zinc finger protein 737	72	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|kidney(1)|lung(7)|ovary(1)|stomach(1)|urinary_tract(1)	13						TGAGGGGTTGGCTACCATCTC	0.413																																																0													163	135	143					19																	20735292		692	1591	2283	SO:0001583	missense	100129842			BC015765	CCDS54238.1	19p12	2013-01-08						"Zinc fingers, C2H2-type", "-"	32468	protein-coding gene	gene with protein product		603984					Standard	NM_001159293		Approved	ZNF102	uc002npa.3	O75373		ENST00000427401.4:c.215C>T	19.37:g.20735292G>A	ENSP00000395733:p.Ala72Val	Somatic		WXS	Illumina HiSeq	Phase_I	C9JHM3	Missense_Mutation	SNP	ENST00000427401.4	37	CCDS54238.1	.	.	.	.	.	.	.	.	.	.	g	5.004	0.186380	0.09495	.	.	ENSG00000237440	ENST00000427401	T	0.06933	3.24	0.118	0.118	0.14667	.	.	.	.	.	T	0.11024	0.0269	L	0.43701	1.375	0.09310	N	1	P	0.40376	0.715	P	0.47827	0.558	T	0.26395	-1.0104	8	0.49607	T	0.09	.	.	.	.	.	72	C9JHM3	.	V	72	ENSP00000395733:A72V	ENSP00000395733:A72V	A	-	2	0	ZNF737	20527132	0.879000	0.30193	0.005000	0.12908	0.005000	0.04900	1.348000	0.33987	0.191000	0.20236	0.194000	0.17425	GCC		0.413	ZNF737-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447844.2	NM_145289		A	20735292	G	A	20735292	3	1	664	1	0	0	0	0	1	0	0	0	18138	1203	42	2	1403	2	ZNF737	19	20735292	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1365907	20735292	38393691	935	42245										
ANKRD27	84079	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	33137475	33137475	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgggcactgagagaagacagGcaaaaccagctcctaattta	10	9	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:33137475G>A	ENST00000306065.4	-	4	418	c.260C>T	c.(259-261)gCc>gTc	p.A87V	ANKRD27_ENST00000587352.1_Missense_Mutation_p.A87V	NM_032139.2	NP_115515.2	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	87					early endosome to late endosome transport (GO:0045022)|positive regulation of GTPase activity (GO:0043547)	cytoplasm (GO:0005737)|early endosome (GO:0005769)|lysosome (GO:0005764)|membrane (GO:0016020)	GTPase activator activity (GO:0005096)|guanyl-nucleotide exchange factor activity (GO:0005085)			breast(3)|endometrium(7)|kidney(2)|large_intestine(6)|lung(15)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(2)	42	Esophageal squamous(110;0.137)					GAGAAGACAGGCAAAACCAGC	0.443																																																0													85	86	86					19																	33137475		2203	4300	6503	SO:0001583	missense	84079			AK054561	CCDS32986.1	19q13.12	2013-01-10				ENSG00000105186		"Ankyrin repeat domain containing"	25310	protein-coding gene	gene with protein product	"Vps9 domain and ankyrin-repeat-containing protein"					11230166, 16525121	Standard	NM_032139		Approved	FLJ00040, DKFZp434L0718, VARP	uc002ntn.1	Q96NW4		ENST00000306065.4:c.260C>T	19.37:g.33137475G>A	ENSP00000304292:p.Ala87Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q71MF5|Q86UC3|Q8ND80|Q9H0I4	Missense_Mutation	SNP	ENST00000306065.4	37	CCDS32986.1	.	.	.	.	.	.	.	.	.	.	G	20.9	4.068697	0.76301	.	.	ENSG00000105186	ENST00000306065	T	0.62364	0.03	5.13	4.03	0.46877	.	0.390695	0.22004	N	0.065963	T	0.55721	0.1938	L	0.36672	1.1	0.27654	N	0.947297	P	0.44195	0.828	B	0.44163	0.443	T	0.56926	-0.7898	10	0.62326	D	0.03	-17.2719	13.01	0.58725	0.0:0.0:0.7561:0.2439	.	87	Q96NW4	ANR27_HUMAN	V	87	ENSP00000304292:A87V	ENSP00000304292:A87V	A	-	2	0	ANKRD27	37829315	0.776000	0.28616	1.000000	0.80357	0.998000	0.95712	1.745000	0.38278	2.409000	0.81822	0.545000	0.68477	GCC		0.443	ANKRD27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450329.1	NM_032139		A	33137475	G	A	33137475	3	1	664	1	0	0	0	0	1	0	0	0	655	1203	42	2	2996	2	ANKRD27	19	33137475	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	12402183	33137475	25991508	936	42246										
WDR88	126248	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	33666433	33666433	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcatcgtcatcatcatcatcGgaaagggagaactcaccgcc	8	13	6	1	rs145406953	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:33666433G>A	ENST00000355868.3	+	11	1450	c.1374G>A	c.(1372-1374)tcG>tcA	p.S458S	AC008738.2_ENST00000577275.1_RNA|WDR88_ENST00000361680.2_3'UTR|CTD-2540B15.10_ENST00000590117.1_RNA	NM_173479.3	NP_775750.3	Q6ZMY6	WDR88_HUMAN	WD repeat domain 88	458	Poly-Ser.									breast(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(8)|ovary(2)|prostate(1)|urinary_tract(1)	25	Esophageal squamous(110;0.137)					CATCATCATCGGAAAGGGAGA	0.522													G|||	6	0.00119808	0.003	0.0029	5008	,	,		18538	0.0		0.0	False		,,,				2504	0.0															0								G		12,4394	20.2+/-43.8	0,12,2191	108	102	104		1374	-6.3	0	19	dbSNP_134	104	0,8600		0,0,4300	no	coding-synonymous	WDR88	NM_173479.3		0,12,6491	AA,AG,GG		0.0,0.2724,0.0923		458/473	33666433	12,12994	2203	4300	6503	SO:0001819	synonymous_variant	126248			BC031227	CCDS12429.1	19q13.11	2013-01-09	2007-04-04	2007-04-04		ENSG00000166359		"WD repeat domain containing"	26999	protein-coding gene	gene with protein product			"PQQ repeat and WD repeat domain containing"	PQWD		12477932	Standard	NM_173479		Approved		uc002nui.3	Q6ZMY6		ENST00000355868.3:c.1374G>A	19.37:g.33666433G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NEF8	Silent	SNP	ENST00000355868.3	37	CCDS12429.1																																																																																				0.522	WDR88-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450840.1	NM_173479		A	33666433	G	A	33666433	2	1	664	1	0	0	0	0	0	0	0	1	17347	1103	39	1		1	WDR88	19	33666433	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	528958	33666433	25462550	937	42247										
WTIP	126374	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	34984440	34984440	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctaccacccaggctgcttccGgtgctccgtgtgcaatgagt	11	14	0	1	rs539423563		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:34984440G>A	ENST00000590071.2	+	5	1281	c.944G>A	c.(943-945)cGg>cAg	p.R315Q	WTIP_ENST00000270288.6_Missense_Mutation_p.R539Q	NM_001080436.1	NP_001073905.1	A6NIX2	WTIP_HUMAN	Wilms tumor 1 interacting protein	315	LIM zinc-binding 2. {ECO:0000255|PROSITE- ProRule:PRU00125}.				cytoskeleton organization (GO:0007010)|gene silencing by miRNA (GO:0035195)|negative regulation of hippo signaling (GO:0035331)|positive regulation of gene silencing by miRNA (GO:2000637)|regulation of cell morphogenesis (GO:0022604)|regulation of transcription, DNA-templated (GO:0006355)|response to hypoxia (GO:0001666)|transcription, DNA-templated (GO:0006351)	cell junction (GO:0030054)|cytoplasmic mRNA processing body (GO:0000932)|nucleus (GO:0005634)	transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			NS(1)|large_intestine(2)|lung(1)	4	all_lung(56;5.94e-07)|Lung NSC(56;9.35e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			GGCTGCTTCCGGTGCTCCGTG	0.642													G|||	1	0.000199681	0.0	0.0	5008	,	,		17989	0.0		0.001	False		,,,				2504	0.0															0													59	68	65					19																	34984440		2186	4290	6476	SO:0001583	missense	126374			AK130059	CCDS59375.1	19q13.11	2012-03-16			ENSG00000142279	ENSG00000142279			20964	protein-coding gene	gene with protein product	"WT1-interacting protein"	614790				14736876	Standard	NM_001080436		Approved		uc002nvm.3	A6NIX2		ENST00000590071.2:c.944G>A	19.37:g.34984440G>A	ENSP00000466953:p.Arg315Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000590071.2	37	CCDS59375.1	.	.	.	.	.	.	.	.	.	.	G	35	5.541018	0.96474	.	.	ENSG00000142279	ENST00000270288	D	0.88664	-2.41	5.59	5.59	0.84812	Zinc finger, LIM-type (4);	0.000000	0.85682	D	0.000000	D	0.91908	0.7438	L	0.37630	1.12	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.91746	0.5408	10	0.48119	T	0.1	.	18.3542	0.90351	0.0:0.0:1.0:0.0	.	539	A6NIX2	WTIP_HUMAN	Q	539	ENSP00000270288:R539Q	ENSP00000270288:R539Q	R	+	2	0	WTIP	39676280	1.000000	0.71417	1.000000	0.80357	0.938000	0.57974	9.268000	0.95675	2.624000	0.88883	0.561000	0.74099	CGG		0.642	WTIP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459381.3	XM_059037		A	34984440	G	A	34984440	3	1	664	1	0	0	0	0	1	0	0	0	17422	1116	39	1	962	1	WTIP	19	34984440	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1318007	34984440	24144543	938	42248										
FFAR2	2867	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	35941487	35941487	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttgggagagggctgcaggtgCtgcggaatcagggctcctcc	17	10	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:35941487C>T	ENST00000599180.2	+	2	951	c.871C>T	c.(871-873)Ctg>Ttg	p.L291L	FFAR2_ENST00000246549.2_Silent_p.L291L|FFAR2_ENST00000601590.1_Intron			O15552	FFAR2_HUMAN	free fatty acid receptor 2	291					cell surface pattern recognition receptor signaling pathway (GO:0002752)|cellular response to fatty acid (GO:0071398)|fat cell differentiation (GO:0045444)|G-protein coupled receptor signaling pathway (GO:0007186)|glucose homeostasis (GO:0042593)|leukocyte chemotaxis involved in inflammatory response (GO:0002232)|lipid storage (GO:0019915)|mucosal immune response (GO:0002385)|positive regulation of acute inflammatory response to non-antigenic stimulus (GO:0002879)|positive regulation of chemokine production (GO:0032722)|positive regulation of cytokine production involved in immune response (GO:0002720)|positive regulation of interleukin-8 secretion (GO:2000484)|regulation of acute inflammatory response (GO:0002673)|regulation of peptide hormone secretion (GO:0090276)	cell projection (GO:0042995)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|lipid binding (GO:0008289)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(6)|skin(1)|urinary_tract(1)	22	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)			GCTGCAGGTGCTGCGGAATCA	0.582																																					GBM(40;139 809 9833 23358 48736)											0													92	90	91					19																	35941487		2203	4300	6503	SO:0001819	synonymous_variant	2867			AF024690	CCDS12461.1	19q13.1	2012-08-08	2006-02-15	2006-02-15		ENSG00000126262		"GPCR / Class A : Fatty acid receptors"	4501	protein-coding gene	gene with protein product		603823	"G protein-coupled receptor 43"	GPR43		9344866	Standard	NM_005306		Approved	FFA2R	uc010eea.3	O15552		ENST00000599180.2:c.871C>T	19.37:g.35941487C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0M0J9|Q4VAZ3|Q4VAZ5|Q4VBL5	Silent	SNP	ENST00000599180.2	37	CCDS12461.1																																																																																				0.582	FFAR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466120.3	NM_005306		T	35941487	C	T	35941487	2	4	664	1	0	0	0	0	0	0	0	1	5835	796	28	2		2	FFAR2	19	35941487	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	957047	35941487	23187496	939	42249										
RBM42	79171	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	36120479	36120479	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atcccaactgctgtgcctgcGgtgcccactgtccccacggt	10	17	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:36120479G>A	ENST00000262633.4	+	2	291	c.186G>A	c.(184-186)gcG>gcA	p.A62A	RBM42_ENST00000360475.4_Silent_p.A62A|RBM42_ENST00000589871.1_Silent_p.A62A|RBM42_ENST00000586618.1_Silent_p.A62A|RBM42_ENST00000588161.1_Silent_p.A62A|RBM42_ENST00000592202.1_Silent_p.A62A|RBM42_ENST00000589559.1_Silent_p.A62A	NM_024321.3	NP_077297.2	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	62						cytoplasm (GO:0005737)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(3)|large_intestine(7)|lung(9)|prostate(1)	21	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			CTGTGCCTGCGGTGCCCACTG	0.592																																																0													88	83	84					19																	36120479		2203	4300	6503	SO:0001819	synonymous_variant	79171			BC004204	CCDS12468.1	19q13.12	2013-02-12				ENSG00000126254		"RNA binding motif (RRM) containing"	28117	protein-coding gene	gene with protein product		613232				12477932	Standard	NM_024321		Approved	MGC10433	uc002oan.3	Q9BTD8		ENST00000262633.4:c.186G>A	19.37:g.36120479G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O00320|Q8N5R7|Q9BU66	Silent	SNP	ENST00000262633.4	37	CCDS12468.1																																																																																				0.592	RBM42-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459057.2	NM_024321		A	36120479	G	A	36120479	2	1	664	1	0	0	0	0	0	0	0	1	13149	1103	39	1		1	RBM42	19	36120479	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	178992	36120479	23008504	940	42250										
MLL4	9757	broad.mit.edu	37	chr19	36210431	36210431	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gttccctgcgctctgcgctcCgatcccagcgaggtgagtga	13	14	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:36210431C>T	ENST00000222270.7	+	2	424	c.424C>T	c.(424-426)Cga>Tga	p.R142*	KMT2B_ENST00000341701.1_Nonsense_Mutation_p.R142*|KMT2B_ENST00000607650.1_RNA|KMT2B_ENST00000420124.1_Nonsense_Mutation_p.R142*	NM_014727.1	NP_055542.1	Q9UMN6	KMT2B_HUMAN	lysine (K)-specific methyltransferase 2B	142					chromatin-mediated maintenance of transcription (GO:0048096)|gene silencing (GO:0016458)|histone H3-K4 methylation (GO:0051568)|histone H3-K4 trimethylation (GO:0080182)|oocyte differentiation (GO:0009994)|ovarian follicle development (GO:0001541)|ovulation (GO:0030728)|regulation of histone H3-K4 methylation (GO:0051569)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)										CTCTGCGCTCCGATCCCAGCG	0.562																																																0													52	53	52					19																	36210431		1939	4139	6078	SO:0001587	stop_gained	8085			AJ007041	CCDS46055.1	19q13.1	2014-02-18			ENSG00000105663	ENSG00000272333		"Chromatin-modifying enzymes / K-methyltransferases"	15840	protein-coding gene	gene with protein product	"myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila) 4"	606834				10409430, 10637508	Standard	XM_006723513		Approved	KIAA0304, MLL2, TRX2, HRX2, WBP7, MLL1B, MLL4		Q9UMN6	OTTHUMG00000048119	ENST00000222270.7:c.424C>T	19.37:g.36210431C>T	ENSP00000222270:p.Arg142*	Somatic		WXS	Illumina HiSeq	Phase_I	O15022|O95836|Q96GP2|Q96IP3|Q9UK25|Q9Y668|Q9Y669	Nonsense_Mutation	SNP	ENST00000222270.7	37	CCDS46055.1	.	.	.	.	.	.	.	.	.	.	C	22.9	4.350651	0.82132	.	.	ENSG00000105663	ENST00000222270;ENST00000420124;ENST00000341701	.	.	.	5.35	5.35	0.76521	.	0.000000	0.34828	N	0.003645	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	11.6267	0.51149	0.1776:0.8223:0.0:0.0	.	.	.	.	X	142	.	ENSP00000222270:R142X	R	+	1	2	AD000671.1	40902271	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.185000	0.58330	2.516000	0.84829	0.561000	0.74099	CGA		0.562	KMT2B-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_014727		T	36210431	C	T	36210431	4	4	664	1	0	0	0	0	0	1	0	0	9630	644	23	1	430	1	MLL4	19	36210431	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	89952	36210431	22918552	941	42251										
MLL4	9757	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	36210898	36210898	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	catgtgagccctccacccccCggcggtctcggggacggccc	13	19	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:36210898C>T	ENST00000222270.7	+	3	649	c.649C>T	c.(649-651)Cgg>Tgg	p.R217W	KMT2B_ENST00000341701.1_Missense_Mutation_p.R217W|KMT2B_ENST00000607650.1_RNA|KMT2B_ENST00000420124.1_Missense_Mutation_p.R217W	NM_014727.1	NP_055542.1	Q9UMN6	KMT2B_HUMAN	lysine (K)-specific methyltransferase 2B	217					chromatin-mediated maintenance of transcription (GO:0048096)|gene silencing (GO:0016458)|histone H3-K4 methylation (GO:0051568)|histone H3-K4 trimethylation (GO:0080182)|oocyte differentiation (GO:0009994)|ovarian follicle development (GO:0001541)|ovulation (GO:0030728)|regulation of histone H3-K4 methylation (GO:0051569)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)										CTCCACCCCCCGGCGGTCTCG	0.682																																																0													19	27	24					19																	36210898		1968	4135	6103	SO:0001583	missense	8085			AJ007041	CCDS46055.1	19q13.1	2014-02-18			ENSG00000105663	ENSG00000272333		"Chromatin-modifying enzymes / K-methyltransferases"	15840	protein-coding gene	gene with protein product	"myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila) 4"	606834				10409430, 10637508	Standard	XM_006723513		Approved	KIAA0304, MLL2, TRX2, HRX2, WBP7, MLL1B, MLL4		Q9UMN6	OTTHUMG00000048119	ENST00000222270.7:c.649C>T	19.37:g.36210898C>T	ENSP00000222270:p.Arg217Trp	Somatic		WXS	Illumina HiSeq	Phase_I	O15022|O95836|Q96GP2|Q96IP3|Q9UK25|Q9Y668|Q9Y669	Missense_Mutation	SNP	ENST00000222270.7	37	CCDS46055.1	.	.	.	.	.	.	.	.	.	.	C	20.3	3.974481	0.74246	.	.	ENSG00000105663	ENST00000222270;ENST00000420124;ENST00000341701	D;D;T	0.85773	-2.03;-2.03;0.51	5.59	5.59	0.84812	AT hook, DNA-binding motif (1);	0.000000	0.41823	D	0.000801	D	0.85457	0.5701	N	0.14661	0.345	0.37476	D	0.9158	D	0.89917	1.0	D	0.69654	0.965	D	0.89018	0.3433	10	0.87932	D	0	.	15.0853	0.72148	0.0:1.0:0.0:0.0	.	217	Q9UMN6	MLL4_HUMAN	W	217	ENSP00000222270:R217W;ENSP00000398837:R217W;ENSP00000345761:R217W	ENSP00000222270:R217W	R	+	1	2	AD000671.1	40902738	0.993000	0.37304	0.999000	0.59377	0.937000	0.57800	3.836000	0.55813	2.632000	0.89209	0.561000	0.74099	CGG		0.682	KMT2B-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_014727		T	36210898	C	T	36210898	3	4	664	1	0	0	0	0	1	0	0	0	9630	643	23	1	659	1	MLL4	19	36210898	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	467	36210898	22918085	942	42252										
C19orf55	148137	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr19	36255795	36255795	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atccctgctggacctggagaCgctgagcctacagagcagag	13	12	0	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:36255795C>T	ENST00000544099.1	+	6	647	c.584C>T	c.(583-585)aCg>aTg	p.T195M	C19orf55_ENST00000396908.4_Missense_Mutation_p.T195M			Q2NL68	PRSR3_HUMAN		195										cervix(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(3)|ovary(2)|prostate(1)	15	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)			GACCTGGAGACGCTGAGCCTA	0.642																																																0													40	50	47					19																	36255795		2110	4233	6343	SO:0001583	missense	148137																														ENST00000544099.1:c.584C>T	19.37:g.36255795C>T	ENSP00000467267:p.Thr195Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NDI3|Q8WWC8|Q96NL4	Missense_Mutation	SNP	ENST00000544099.1	37		.	.	.	.	.	.	.	.	.	.	C	13.30	2.195170	0.38806	.	.	ENSG00000167595	ENST00000396908;ENST00000301165	T;T	0.48836	0.8;0.8	4.42	3.39	0.38822	.	0.000000	0.39407	N	0.001370	T	0.56630	0.1998	M	0.68952	2.095	0.30480	N	0.772409	D	0.65815	0.995	P	0.57009	0.811	T	0.60571	-0.7237	10	0.72032	D	0.01	-14.8863	8.2684	0.31829	0.0:0.8908:0.0:0.1092	.	195	E5RFB9	.	M	195;194	ENSP00000380116:T195M;ENSP00000301165:T194M	ENSP00000301165:T194M	T	+	2	0	C19orf55	40947635	0.579000	0.26725	0.872000	0.34217	0.828000	0.46876	0.707000	0.25704	1.217000	0.43442	0.558000	0.71614	ACG		0.642	C19orf55-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000398160.2			T	36255795	C	T	36255795	3	4	664	1	0	0	0	0	1	0	0	0	1939	536	19	1	606	1	C19orf55	19	36255795	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	44897	36255795	22873188	943	42253										
ARHGAP33	115703	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	36279135	36279135	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccgtacccctcatagggtgcCgggtccctggggccctcctg	13	17	1	0	rs200225433		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:36279135C>T	ENST00000007510.4	+	21	3812	c.3668C>T	c.(3667-3669)cCg>cTg	p.P1223L	ARHGAP33_ENST00000378944.5_Missense_Mutation_p.P1059L|ARHGAP33_ENST00000314737.5_Missense_Mutation_p.P1062L|AC002398.5_ENST00000433059.1_lincRNA			O14559	RHG33_HUMAN	Rho GTPase activating protein 33	1223					protein transport (GO:0015031)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|plasma membrane (GO:0005886)	phosphatidylinositol binding (GO:0035091)|Rac GTPase activator activity (GO:0030675)			endometrium(7)|large_intestine(8)|lung(13)|ovary(1)|pancreas(1)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	37						CATAGGGTGCCGGGTCCCTGG	0.692																																																0													10	14	13					19																	36279135		2088	4091	6179	SO:0001583	missense	115703			AY044864	CCDS12477.1, CCDS54254.1	19q13.13	2011-06-29	2010-02-19	2010-02-19		ENSG00000004777		"Rho GTPase activating proteins"	23085	protein-coding gene	gene with protein product		614902	"sorting nexin 26"	SNX26		12297274, 12461558	Standard	NM_052948		Approved	FLJ39019, TCGAP	uc002obs.2	O14559		ENST00000007510.4:c.3668C>T	19.37:g.36279135C>T	ENSP00000007510:p.Pro1223Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O14552|O14560|Q6ZSP6|Q96CP3|Q9NT23	Missense_Mutation	SNP	ENST00000007510.4	37		.	.	.	.	.	.	.	.	.	.	c	9.803	1.181068	0.21787	.	.	ENSG00000004777	ENST00000007510;ENST00000314737;ENST00000378944	T;T;T	0.10099	3.34;2.91;3.19	3.99	2.82	0.32997	.	0.000000	0.35870	N	0.002934	T	0.05914	0.0154	N	0.14661	0.345	0.09310	N	0.999998	B;B	0.12630	0.006;0.006	B;B	0.04013	0.001;0.001	T	0.25257	-1.0137	10	0.87932	D	0	.	6.6413	0.22911	0.0:0.7092:0.1855:0.1053	.	1059;1062	O14559-10;O14559-11	.;.	L	1223;1062;1059	ENSP00000007510:P1223L;ENSP00000320038:P1062L;ENSP00000368227:P1059L	ENSP00000007510:P1223L	P	+	2	0	ARHGAP33	40970975	0.003000	0.15002	0.775000	0.31657	0.131000	0.20780	1.223000	0.32527	2.174000	0.68829	0.401000	0.26515	CCG		0.692	ARHGAP33-201	KNOWN	basic	protein_coding	protein_coding		NM_052948		T	36279135	C	T	36279135	3	4	664	1	0	0	0	0	1	0	0	0	882	652	23	1	3750	1	ARHGAP33	19	36279135	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	23340	36279135	22849848	944	42254										
KIRREL2	84063	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	36349605	36349605	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaccccaaatccaccttgcaGtccccccagaagccccccag	6	21	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:36349605G>A	ENST00000360202.5	+	4	559		c.e4-1		NPHS1_ENST00000591817.1_Intron|KIRREL2_ENST00000262625.7_Splice_Site|KIRREL2_ENST00000347900.6_Splice_Site|KIRREL2_ENST00000592409.1_Splice_Site	NM_032123.5|NM_199180.2	NP_115499.4|NP_954649.2	Q6UWL6	KIRR2_HUMAN	kin of IRRE like 2 (Drosophila)						cell adhesion (GO:0007155)|negative regulation of protein phosphorylation (GO:0001933)|single organismal cell-cell adhesion (GO:0016337)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|slit diaphragm (GO:0036057)				breast(2)|central_nervous_system(1)|endometrium(6)|large_intestine(6)|liver(2)|lung(22)|ovary(2)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	48	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)			CCACCTTGCAGTCCCCCCAGA	0.627																																																0													50	58	55					19																	36349605		2203	4300	6503	SO:0001630	splice_region_variant	84063			AL136654	CCDS12479.1, CCDS12480.1, CCDS12481.1	19q13.13	2013-01-29				ENSG00000126259		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	18816	protein-coding gene	gene with protein product		607762				12837264, 12504092	Standard	NM_199180		Approved	NLG1, NEPH3, FILTRIN, DKFZp564A1164, MGC15718	uc002ocb.4	Q6UWL6		ENST00000360202.5:c.362-1G>A	19.37:g.36349605G>A		Somatic		WXS	Illumina HiSeq	Phase_I	C9JHF1|C9JJ76|F1T0I2|Q6P1R1|Q7Z5P1|Q7Z5P2|Q96IQ8|Q9H0T1	Splice_Site	SNP	ENST00000360202.5	37	CCDS12481.1	.	.	.	.	.	.	.	.	.	.	G	11.33	1.607817	0.28623	.	.	ENSG00000126259	ENST00000262625;ENST00000347900;ENST00000360202;ENST00000341658	.	.	.	5.6	5.6	0.85130	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.466	0.75400	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	KIRREL2	41041445	1.000000	0.71417	0.995000	0.50966	0.020000	0.10135	7.608000	0.82898	2.793000	0.96121	0.563000	0.77884	.		0.627	KIRREL2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000452561.1	NM_032123	Intron	A	36349605	G	A	36349605	5	1	664	1	0	0	0	0	0	0	1	0	8332	1043	36	2	375	2	KIRREL2	19	36349605	Splice_Site	SNP	G	TCGA-KN-8428-01A-11D-2310-10	70470	36349605	22779378	945	42255										
WDR62	284403	broad.mit.edu	37	chr19	36592604	36592604	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccgacctggagtgcagcttcGcagccatccactccccagct	9	18	0	0	rs370416793		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:36592604G>A	ENST00000270301.7	+	25	3010	c.3010G>A	c.(3010-3012)Gca>Aca	p.A1004T	WDR62_ENST00000401500.2_Missense_Mutation_p.A1004T			O43379	WDR62_HUMAN	WD repeat domain 62	1004					cerebral cortex development (GO:0021987)|neurogenesis (GO:0022008)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|spindle pole (GO:0000922)				cervix(1)|endometrium(8)|kidney(2)|large_intestine(8)|lung(15)|prostate(4)|stomach(2)|urinary_tract(3)	43	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GTGCAGCTTCGCAGCCATCCA	0.667																																																0													21	17	18					19																	36592604		2051	3901	5952	SO:0001583	missense	284403			BX647726	CCDS33001.1, CCDS46059.1	19q13.12	2013-01-09	2005-05-09	2005-05-09	ENSG00000075702	ENSG00000075702		"WD repeat domain containing"	24502	protein-coding gene	gene with protein product		613583	"chromosome 19 open reading frame 14", "microcephaly, primary autosomal recessive 2"	C19orf14, MCPH2		19910486, 20729831, 20890278, 21496009	Standard	NM_001083961		Approved	DKFZP434J046, FLJ33298	uc002odd.2	O43379	OTTHUMG00000048139	ENST00000270301.7:c.3010G>A	19.37:g.36592604G>A	ENSP00000270301:p.Ala1004Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q63HP9|Q659D7|Q8NBF7|Q96AD9	Missense_Mutation	SNP	ENST00000270301.7	37	CCDS33001.1	.	.	.	.	.	.	.	.	.	.	G	8.541	0.873333	0.17322	.	.	ENSG00000075702	ENST00000401500;ENST00000270301	T;T	0.45668	0.98;0.89	4.28	-6.24	0.02046	.	1.437660	0.03815	N	0.266608	T	0.17662	0.0424	N	0.04355	-0.22	0.21473	N	0.999679	B;B	0.13145	0.007;0.004	B;B	0.08055	0.003;0.001	T	0.14476	-1.0471	10	0.19590	T	0.45	-7.7739	6.9063	0.24311	0.5919:0.0:0.2839:0.1241	.	1004;1004	O43379-4;O43379	.;WDR62_HUMAN	T	1004	ENSP00000384792:A1004T;ENSP00000270301:A1004T	ENSP00000270301:A1004T	A	+	1	0	WDR62	41284444	0.000000	0.05858	0.000000	0.03702	0.005000	0.04900	-1.504000	0.02275	-1.191000	0.02695	-0.825000	0.03093	GCA		0.667	WDR62-006	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000457436.1	NM_015671		A	36592604	G	A	36592604	3	1	664	1	0	0	0	0	1	0	0	0	17325	1087	38	1	3108	1	WDR62	19	36592604	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	242999	36592604	22536379	946	42256										
ZNF569	148266	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr19	37916858	37916858	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atcacatcaggtttggtgaaCggatagcctgtcaaagggaa	12	7	3	1	rs534219621		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:37916858C>T	ENST00000316950.6	-	5	707	c.150G>A	c.(148-150)ccG>ccA	p.P50P	ZNF569_ENST00000392149.2_Silent_p.P50P|ZNF569_ENST00000392150.2_Intron|ZNF569_ENST00000591073.1_5'Flank|ZNF569_ENST00000592490.1_Intron|ZNF569_ENST00000589833.1_Silent_p.P74P	NM_152484.2	NP_689697.2	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	50	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(5)|endometrium(4)|large_intestine(16)|lung(11)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	40			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GTTTGGTGAACGGATAGCCTG	0.443													C|||	1	0.000199681	0.0	0.0	5008	,	,		17935	0.0		0.0	False		,,,				2504	0.001															0													295	283	287					19																	37916858		2203	4300	6503	SO:0001819	synonymous_variant	148266			AL833408	CCDS12503.1	19q13.12	2013-09-20			ENSG00000196437	ENSG00000196437		"Zinc fingers, C2H2-type", "-"	24737	protein-coding gene	gene with protein product		613904				12477932	Standard	NM_152484		Approved	FLJ32053, ZAP1	uc002ogi.3	Q5MCW4	OTTHUMG00000048172	ENST00000316950.6:c.150G>A	19.37:g.37916858C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1S2|Q15925|Q17RR6|Q96MQ2	Silent	SNP	ENST00000316950.6	37	CCDS12503.1																																																																																				0.443	ZNF569-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109594.2	NM_152484		T	37916858	C	T	37916858	2	4	664	1	0	0	0	0	0	0	0	1	18012	523	19	1		1	ZNF569	19	37916858	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1324254	37916858	21212125	947	42257										
RASGRP4	115727	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	38901988	38901988	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	actgacaccccactcaccccGacagcggtagccttgcttgg	9	17	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:38901988G>A	ENST00000587738.1	-	14	1784	c.1714C>T	c.(1714-1716)Cgg>Tgg	p.R572W	RASGRP4_ENST00000586305.1_Missense_Mutation_p.R558W|RASGRP4_ENST00000433821.2_Missense_Mutation_p.R480W|RASGRP4_ENST00000293062.9_Missense_Mutation_p.R475W|RASGRP4_ENST00000587753.1_Missense_Mutation_p.R503W|RASGRP4_ENST00000454404.2_Missense_Mutation_p.R538W|RASGRP4_ENST00000426920.2_Missense_Mutation_p.R383W			Q8TDF6	GRP4_HUMAN	RAS guanyl releasing protein 4	572					activation of phospholipase C activity (GO:0007202)|cell growth (GO:0016049)|cell proliferation (GO:0008283)|myeloid cell differentiation (GO:0030099)|positive regulation of Ras GTPase activity (GO:0032320)|positive regulation of Ras protein signal transduction (GO:0046579)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|response to extracellular stimulus (GO:0009991)|small GTPase mediated signal transduction (GO:0007264)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cytoplasm (GO:0005737)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|diacylglycerol binding (GO:0019992)|GTP-dependent protein binding (GO:0030742)|Ras guanyl-nucleotide exchange factor activity (GO:0005088)			cervix(1)|kidney(1)|large_intestine(4)|lung(12)|pancreas(1)|prostate(3)|skin(1)	23	all_cancers(60;4.21e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CACTCACCCCGACAGCGGTAG	0.617																																																0													26	27	27					19																	38901988		1972	4154	6126	SO:0001583	missense	115727			AY048119	CCDS46068.1, CCDS54262.1, CCDS54263.1, CCDS54264.1	19q13.1	2013-01-10						"EF-hand domain containing"	18958	protein-coding gene	gene with protein product		607320				11956218	Standard	NM_170604		Approved		uc021uub.1	Q8TDF6		ENST00000587738.1:c.1714C>T	19.37:g.38901988G>A	ENSP00000465772:p.Arg572Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8M4|C0LTP2|C0LTP3|C0LTP4|C0LTP5|C0LTP7|C9J416|C9JHZ1|Q8N858|Q96QN5|Q96QN6|Q96QN7	Missense_Mutation	SNP	ENST00000587738.1	37	CCDS46068.1	.	.	.	.	.	.	.	.	.	.	G	23.5	4.423059	0.83559	.	.	ENSG00000171777	ENST00000433821;ENST00000293062;ENST00000426920;ENST00000405332;ENST00000454404	D;D;D	0.93133	-3.17;-3.17;-3.17	5.7	5.7	0.88788	Protein kinase C-like, phorbol ester/diacylglycerol binding (4);Diacylglycerol/phorbol-ester binding (1);	0.200789	0.42964	D	0.000636	D	0.96836	0.8967	M	0.89095	3.005	0.39659	D	0.970589	D;D;D;D;D;D;D	0.89917	0.998;1.0;0.995;0.995;0.995;0.984;0.998	P;D;P;P;P;P;P	0.79784	0.817;0.993;0.745;0.745;0.745;0.828;0.885	D	0.97572	1.0105	10	0.87932	D	0	.	12.2986	0.54862	0.0:0.0:0.8308:0.1692	.	383;475;480;538;503;558;572	C0LTP5;C0LTP7;C0LTP2;C0LTP4;C0LTP3;Q8TDF6-2;Q8TDF6	.;.;.;.;.;.;GRP4_HUMAN	W	480;475;383;572;572	ENSP00000411878:R480W;ENSP00000293062:R475W;ENSP00000445966:R383W	ENSP00000293062:R475W	R	-	1	2	RASGRP4	43593828	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	3.229000	0.51278	2.687000	0.91594	0.655000	0.94253	CGG		0.617	RASGRP4-013	KNOWN	non_canonical_other|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460540.1	NM_170604		A	38901988	G	A	38901988	3	1	664	1	0	0	0	0	1	0	0	0	13090	1057	37	1	323	1	RASGRP4	19	38901988	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	985130	38901988	20226995	948	42258										
MAP4K1	11184	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	39090577	39090577	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agccagacctgagagagacaTgagaacgttgttgatggagt	14	6	0	5			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:39090577T>C	ENST00000591517.1	-	22	1685	c.1657A>G	c.(1657-1659)Atg>Gtg	p.M553V	MAP4K1_ENST00000586296.1_Intron|MAP4K1_ENST00000423454.2_Intron|MAP4K1_ENST00000589130.1_Missense_Mutation_p.M549V|CTB-186G2.1_ENST00000589557.1_RNA|MAP4K1_ENST00000396857.2_Missense_Mutation_p.M553V	NM_007181.4	NP_009112.1	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase kinase 1	553	CNH. {ECO:0000255|PROSITE- ProRule:PRU00795}.				activation of JUN kinase activity (GO:0007257)|activation of MAPKKK activity (GO:0000185)|cell proliferation (GO:0008283)|intracellular signal transduction (GO:0035556)|peptidyl-serine phosphorylation (GO:0018105)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|response to stress (GO:0006950)	membrane (GO:0016020)	ATP binding (GO:0005524)|MAP kinase kinase kinase kinase activity (GO:0008349)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|small GTPase regulator activity (GO:0005083)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(3)|lung(24)|ovary(1)|prostate(1)|skin(5)|stomach(1)|urinary_tract(1)	44	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GAGAGAGACATGAGAACGTTG	0.587																																																0													138	143	142					19																	39090577		2053	4212	6265	SO:0001583	missense	11184			U66464	CCDS42564.1, CCDS59385.1	19q13.1-q13.4	2011-06-09				ENSG00000104814	2.7.11.1	"Mitogen-activated protein kinase cascade / Kinase kinase kinase kinases"	6863	protein-coding gene	gene with protein product	"hematopoietic progenitor kinase 1"	601983				8824585	Standard	NM_001042600		Approved	HPK1	uc002oix.1	Q92918		ENST00000591517.1:c.1657A>G	19.37:g.39090577T>C	ENSP00000465039:p.Met553Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000591517.1	37	CCDS59385.1	.	.	.	.	.	.	.	.	.	.	.	14.30	2.494029	0.44352	.	.	ENSG00000104814	ENST00000396857;ENST00000221409	T	0.04015	3.73	4.87	3.86	0.44501	Citron-like (3);	0.046500	0.85682	N	0.000000	T	0.06781	0.0173	L	0.58810	1.83	0.80722	D	1	B;B	0.21821	0.049;0.061	B;B	0.23574	0.028;0.047	T	0.11591	-1.0581	10	0.87932	D	0	.	8.1226	0.30980	0.0:0.093:0.0:0.907	.	553;553	Q92918-2;Q92918	.;M4K1_HUMAN	V	553	ENSP00000380066:M553V	ENSP00000221409:M553V	M	-	1	0	MAP4K1	43782417	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	4.078000	0.57606	0.907000	0.36646	0.454000	0.30748	ATG		0.587	MAP4K1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000453390.1	NM_001042600		C	39090577	T	C	39090577	3	2	664	1	0	0	0	0	1	0	0	0	9266	1464	51	3	950	3	MAP4K1	19	39090577	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	188589	39090577	20038406	949	42259										
ZFP36	7538	bcgsc.ca	37	chr19	39899072	39899072	+	Frame_Shift_Del	DEL	C	C	-													0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttctctgctgcccctggcacCcccctggctcgaagagaccc							TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:39899072delC	ENST00000248673.3	+	2	772	c.714delC	c.(712-714)accfs	p.T238fs	ZFP36_ENST00000597629.1_Frame_Shift_Del_p.T244fs|MIR4530_ENST00000581459.1_RNA	NM_003407.3	NP_003398.2	P26651	TTP_HUMAN	ZFP36 ring finger protein	238					3'-UTR-mediated mRNA stabilization (GO:0070935)|gene expression (GO:0010467)|intracellular signal transduction (GO:0035556)|mRNA catabolic process (GO:0006402)|mRNA metabolic process (GO:0016071)|negative regulation of inflammatory response (GO:0050728)|negative regulation of myeloid cell differentiation (GO:0045638)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of translation involved in gene silencing by miRNA (GO:0035278)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|regulation of tumor necrosis factor production (GO:0032680)|response to starvation (GO:0042594)|RNA destabilization (GO:0050779)|RNA metabolic process (GO:0016070)	cytoplasm (GO:0005737)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|nucleus (GO:0005634)	14-3-3 protein binding (GO:0071889)|AU-rich element binding (GO:0017091)|C-C chemokine binding (GO:0019957)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)|mRNA 3'-UTR AU-rich region binding (GO:0035925)|mRNA binding (GO:0003729)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)|single-stranded RNA binding (GO:0003727)			large_intestine(1)|lung(5)|pancreas(1)	7	all_cancers(60;6.54e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;1.53e-06)|Ovarian(47;0.0512)		Epithelial(26;2.92e-26)|all cancers(26;2.01e-23)|Lung(45;0.000499)|LUSC - Lung squamous cell carcinoma(53;0.000657)			CCCCTGGCACCCCCCTGGCTC	0.682																																					NSCLC(67;1164 1324 12056 21056 30097)											0													35	40	39					19																	39899072		2202	4300	6502	SO:0001589	frameshift_variant	7538			M63625	CCDS12534.1, CCDS12534.2	19q13.1	2012-11-27	2012-11-27			ENSG00000128016		"RING-type (C3HC4) zinc fingers"	12862	protein-coding gene	gene with protein product		190700	"zinc finger protein 36, C3H type, homolog (mouse)"			1699942	Standard	NM_003407		Approved	RNF162A, TIS11, G0S24, TTP, NUP475, tristetraprolin	uc002olh.2	P26651		ENST00000248673.3:c.714delC	19.37:g.39899072delC	ENSP00000248673:p.Thr238fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RA54	Frame_Shift_Del	DEL	ENST00000248673.3	37																																																																																					0.682	ZFP36-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding				-	39899072	C	-	39899072	7	5	664	1	0	1	0	1	0	0	0	0	17657	610	22	0	720	0	ZFP36	19	39899072	Frame_Shift_Del	DEL	C	TCGA-KN-8428-01A-11D-2310-10	808495	39899072	19229911	950	42260										
FCGBP	8857	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr19	40366434	40366434	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccgcgtacgccgccggcacGcgcaggcgcacgaagctgtc	15	17	0	0	rs373753795		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:40366434G>A	ENST00000221347.6	-	30	13807	c.13800C>T	c.(13798-13800)cgC>cgT	p.R4600R		NM_003890.2	NP_003881.2	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein	4600	VWFD 11. {ECO:0000255|PROSITE- ProRule:PRU00580}.					extracellular vesicular exosome (GO:0070062)		p.R4600R(1)		NS(3)|autonomic_ganglia(1)|breast(7)|central_nervous_system(5)|endometrium(13)|kidney(9)|large_intestine(27)|lung(49)|ovary(8)|pancreas(3)|prostate(13)|skin(9)|stomach(9)|upper_aerodigestive_tract(6)|urinary_tract(3)	165	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)			CCGCCGGCACGCGCAGGCGCA	0.672																																																1	Substitution - coding silent(1)	upper_aerodigestive_tract(1)											45	51	49					19																	40366434		2202	4297	6499	SO:0001819	synonymous_variant	8857			D84239		19q13.2	2013-09-20			ENSG00000090920	ENSG00000275395			13572	protein-coding gene	gene with protein product	"IgG Fc binding protein", "Human Fc gamma BP"					9182547	Standard	NM_003890		Approved	FC(GAMMA)BP	uc002omp.4	Q9Y6R7	OTTHUMG00000182580	ENST00000221347.6:c.13800C>T	19.37:g.40366434G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O95784	Silent	SNP	ENST00000221347.6	37	CCDS12546.1																																																																																				0.672	FCGBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462507.1	NM_003890		A	40366434	G	A	40366434	2	1	664	1	0	0	0	0	0	0	0	1	5785	1074	38	1		1	FCGBP	19	40366434	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	467362	40366434	18762549	951	42261										
FCGBP	8857	broad.mit.edu;mdanderson.org	37	chr19	40368741	40368741	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atagctgctggggagcgtcaCgtctacccgccagttccagt	12	13	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:40368741C>T	ENST00000221347.6	-	28	12614	c.12607G>A	c.(12607-12609)Gtg>Atg	p.V4203M		NM_003890.2	NP_003881.2	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein	4203	VWFD 10. {ECO:0000255|PROSITE- ProRule:PRU00580}.					extracellular vesicular exosome (GO:0070062)				NS(3)|autonomic_ganglia(1)|breast(7)|central_nervous_system(5)|endometrium(13)|kidney(9)|large_intestine(27)|lung(49)|ovary(8)|pancreas(3)|prostate(13)|skin(9)|stomach(9)|upper_aerodigestive_tract(6)|urinary_tract(3)	165	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)			GGGAGCGTCACGTCTACCCGC	0.607																																																0													244	249	247					19																	40368741		2203	4300	6503	SO:0001583	missense	8857			D84239		19q13.2	2013-09-20			ENSG00000090920	ENSG00000275395			13572	protein-coding gene	gene with protein product	"IgG Fc binding protein", "Human Fc gamma BP"					9182547	Standard	NM_003890		Approved	FC(GAMMA)BP	uc002omp.4	Q9Y6R7	OTTHUMG00000182580	ENST00000221347.6:c.12607G>A	19.37:g.40368741C>T	ENSP00000221347:p.Val4203Met	Somatic		WXS	Illumina HiSeq	Phase_I	O95784	Missense_Mutation	SNP	ENST00000221347.6	37	CCDS12546.1	.	.	.	.	.	.	.	.	.	.	C	11.79	1.742965	0.30865	.	.	ENSG00000090920	ENST00000221347	T	0.63255	-0.03	3.92	2.89	0.33648	von Willebrand factor, type D domain (3);	.	.	.	.	T	0.78629	0.4313	M	0.88842	2.985	0.20563	N	0.99989	D	0.89917	1.0	D	0.68943	0.961	T	0.65442	-0.6167	9	0.72032	D	0.01	.	7.7633	0.28965	0.0:0.8163:0.0:0.1837	.	4203	Q9Y6R7	FCGBP_HUMAN	M	4203	ENSP00000221347:V4203M	ENSP00000221347:V4203M	V	-	1	0	FCGBP	45060581	0.000000	0.05858	0.865000	0.33974	0.018000	0.09664	-0.540000	0.06106	2.201000	0.70794	0.305000	0.20034	GTG		0.607	FCGBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462507.1	NM_003890		T	40368741	C	T	40368741	3	4	664	1	0	0	0	0	1	0	0	0	5785	536	19	1	3646	1	FCGBP	19	40368741	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2307	40368741	18760242	952	42262										
CNTD2	79935	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr19	40730407	40730407	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggaagtacctcgggaagcacGcactcttccattttgcacgc	10	13	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:40730407G>A	ENST00000430325.2	-	3	549	c.501C>T	c.(499-501)tgC>tgT	p.C167C	CNTD2_ENST00000513948.1_Silent_p.C61C|CNTD2_ENST00000433940.1_Silent_p.C137C	NM_024877.3	NP_079153.2	Q9H8S5	CNTD2_HUMAN	cyclin N-terminal domain containing 2	167	Cyclin N-terminal.				regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)					lung(1)|prostate(1)	2						CGGGAAGCACGCACTCTTCCA	0.592																																																0													178	196	190					19																	40730407		2203	4300	6503	SO:0001819	synonymous_variant	79935			AK023327	CCDS12551.1, CCDS12551.2	19q13.2	2014-07-03				ENSG00000105219			25805	protein-coding gene	gene with protein product	"cyclin P"					11237006	Standard	NM_024877		Approved	FLJ13265, CCNP	uc010xvi.2	Q9H8S5		ENST00000430325.2:c.501C>T	19.37:g.40730407G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DX65	Silent	SNP	ENST00000430325.2	37	CCDS12551.2																																																																																				0.592	CNTD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360785.1	NM_024877		A	40730407	G	A	40730407	2	1	664	1	0	0	0	0	0	0	0	1	3638	1079	38	1		1	CNTD2	19	40730407	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	361666	40730407	18398576	953	42263										
SPTBN4	57731	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	41072217	41072217	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	catgaggccttccgcaaagcGgctgcagcctgggaagagag	15	11	0	2	rs577033896		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:41072217G>A	ENST00000352632.3	+	30	6374	c.6288G>A	c.(6286-6288)gcG>gcA	p.A2096A	SPTBN4_ENST00000338932.3_Silent_p.A2096A|SPTBN4_ENST00000392025.1_Silent_p.A839A|SPTBN4_ENST00000598249.1_Silent_p.A2096A			Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4	2096					actin filament capping (GO:0051693)|adult walking behavior (GO:0007628)|axon guidance (GO:0007411)|axonogenesis (GO:0007409)|cardiac conduction (GO:0061337)|central nervous system projection neuron axonogenesis (GO:0021952)|clustering of voltage-gated sodium channels (GO:0045162)|cytoskeletal anchoring at plasma membrane (GO:0007016)|establishment of protein localization to plasma membrane (GO:0090002)|fertilization (GO:0009566)|negative regulation of heart rate (GO:0010459)|positive regulation of multicellular organism growth (GO:0040018)|regulation of peptidyl-serine phosphorylation (GO:0033135)|regulation of sodium ion transport (GO:0002028)|sensory perception of sound (GO:0007605)|transmission of nerve impulse (GO:0019226)|vesicle-mediated transport (GO:0016192)	adherens junction (GO:0005912)|axon hillock (GO:0043203)|axon initial segment (GO:0043194)|cell body fiber (GO:0070852)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|node of Ranvier (GO:0033268)|nuclear matrix (GO:0016363)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)|PML body (GO:0016605)|spectrin (GO:0008091)	actin binding (GO:0003779)|ankyrin binding (GO:0030506)|phosphatase binding (GO:0019902)|phospholipid binding (GO:0005543)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)			breast(4)|central_nervous_system(1)|endometrium(6)|kidney(7)|large_intestine(9)|lung(32)|ovary(3)|prostate(2)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	73			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TCCGCAAAGCGGCTGCAGCCT	0.667													g|||	1	0.000199681	0.0	0.0	5008	,	,		14384	0.001		0.0	False		,,,				2504	0.0															0													17	19	18					19																	41072217		2200	4300	6500	SO:0001819	synonymous_variant	57731			AF082075	CCDS12559.1, CCDS42569.1	19q13.13	2013-01-10				ENSG00000160460		"Pleckstrin homology (PH) domain containing"	14896	protein-coding gene	gene with protein product		606214				11086001	Standard	NM_020971		Approved	SPTBN3, KIAA1642	uc002onz.3	Q9H254		ENST00000352632.3:c.6288G>A	19.37:g.41072217G>A		Somatic		WXS	Illumina HiSeq	Phase_I	E9PGQ5|Q9H1K7|Q9H1K8|Q9H1K9|Q9H253|Q9H3G8|Q9HCD0	Silent	SNP	ENST00000352632.3	37	CCDS12559.1																																																																																				0.667	SPTBN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462559.2			A	41072217	G	A	41072217	2	1	664	1	0	0	0	0	0	0	0	1	15133	1103	39	1		1	SPTBN4	19	41072217	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	341810	41072217	18056766	954	42264										
ADCK4	79934	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr19	41198899	41198899	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atttgaggtccctggacttcTgcaggacacagtctctgtct	10	11	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:41198899T>C	ENST00000324464.3	-	14	1554	c.1253A>G	c.(1252-1254)cAg>cGg	p.Q418R	NUMBL_ENST00000599594.1_5'Flank|NUMBL_ENST00000252891.4_5'Flank|NUMBL_ENST00000540131.1_5'Flank|ADCK4_ENST00000243583.6_Missense_Mutation_p.Q377R|NUMBL_ENST00000598779.1_5'Flank|ADCK4_ENST00000450541.1_Missense_Mutation_p.Q377R	NM_024876.3	NP_079152.3	Q96D53	ADCK4_HUMAN	aarF domain containing kinase 4	418	Protein kinase.					integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(1)|endometrium(3)|large_intestine(3)|lung(6)|stomach(2)|urinary_tract(1)	17			Lung(22;9.49e-05)|LUSC - Lung squamous cell carcinoma(20;0.000219)			CCTGGACTTCTGCAGGACACA	0.607																																																0													98	90	93					19																	41198899		2203	4300	6503	SO:0001583	missense	79934			AK022291	CCDS12562.1, CCDS46081.1	19q13.2	2008-02-05				ENSG00000123815			19041	protein-coding gene	gene with protein product		615567					Standard	NM_024876		Approved	FLJ12229, COQ8	uc002oor.2	Q96D53		ENST00000324464.3:c.1253A>G	19.37:g.41198899T>C	ENSP00000315118:p.Gln418Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TAJ1|Q9HA52	Missense_Mutation	SNP	ENST00000324464.3	37	CCDS12562.1	.	.	.	.	.	.	.	.	.	.	T	10.22	1.291259	0.23564	.	.	ENSG00000123815	ENST00000324464;ENST00000450541;ENST00000243583	T;T;T	0.54071	0.59;0.59;0.59	5.37	4.35	0.52113	Protein kinase-like domain (1);	0.444670	0.24973	N	0.034129	T	0.33614	0.0869	N	0.17594	0.5	0.37920	D	0.931658	B;B	0.06786	0.001;0.001	B;B	0.08055	0.001;0.003	T	0.15838	-1.0423	10	0.39692	T	0.17	-11.5279	7.7486	0.28883	0.0:0.1652:0.0:0.8348	.	418;377	Q96D53;Q96D53-2	ADCK4_HUMAN;.	R	418;377;377	ENSP00000315118:Q418R;ENSP00000412839:Q377R;ENSP00000243583:Q377R	ENSP00000243583:Q377R	Q	-	2	0	ADCK4	45890739	0.994000	0.37717	0.998000	0.56505	0.579000	0.36224	2.254000	0.43214	0.884000	0.36064	0.533000	0.62120	CAG		0.607	ADCK4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000462731.1	NM_024876		C	41198899	T	C	41198899	3	2	664	1	0	0	0	0	1	0	0	0	290	1580	55	3	389	3	ADCK4	19	41198899	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	126682	41198899	17930084	955	42265										
POU2F2	5452	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	42600329	42600329	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcctcggggtgggatggtgGctccaagcatttggggggct	18	9	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:42600329G>A	ENST00000526816.2	-	8	583	c.568C>T	c.(568-570)Cca>Tca	p.P190S	POU2F2_ENST00000560398.1_Missense_Mutation_p.P196S|POU2F2_ENST00000560558.1_Missense_Mutation_p.P135S|POU2F2_ENST00000529952.1_Missense_Mutation_p.P190S|POU2F2_ENST00000342301.4_Missense_Mutation_p.P190S|POU2F2_ENST00000529067.1_Missense_Mutation_p.P174S|POU2F2_ENST00000533720.1_Missense_Mutation_p.P174S|POU2F2_ENST00000389341.5_Missense_Mutation_p.P174S			P09086	PO2F2_HUMAN	POU class 2 homeobox 2	190					cell maturation (GO:0048469)|humoral immune response (GO:0006959)|immunoglobulin secretion involved in immune response (GO:0002380)|mature B cell differentiation (GO:0002335)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			kidney(1)|large_intestine(5)|lung(4)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	17		Prostate(69;0.059)			Dolutegravir(DB08930)	TGGGATGGTGGCTCCAAGCAT	0.682																																																0													35	35	35					19																	42600329		2203	4300	6503	SO:0001583	missense	5452				CCDS33035.1, CCDS56094.1, CCDS56095.1, CCDS58665.1	19q13.2	2011-06-20	2007-07-13					"Homeoboxes / POU class"	9213	protein-coding gene	gene with protein product		164176	"POU domain class 2, transcription factor 2"	OTF2			Standard	NM_001207026		Approved	OCT2	uc002osp.3	P09086		ENST00000526816.2:c.568C>T	19.37:g.42600329G>A	ENSP00000431603:p.Pro190Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q16648|Q7M4M8|Q9BRS4	Missense_Mutation	SNP	ENST00000526816.2	37	CCDS56095.1	.	.	.	.	.	.	.	.	.	.	G	14.91	2.676257	0.47886	.	.	ENSG00000028277	ENST00000389341;ENST00000342301;ENST00000292077;ENST00000533720;ENST00000526816;ENST00000529067;ENST00000529952	D;D;D;T;D	0.83335	-1.64;-1.65;-1.71;-1.43;-1.57	4.33	4.33	0.51752	.	0.634983	0.12915	N	0.428654	T	0.78553	0.4301	N	0.22421	0.69	0.40871	D	0.983912	B;D;B	0.57257	0.356;0.979;0.409	B;P;B	0.51777	0.185;0.679;0.249	T	0.71862	-0.4464	10	0.11794	T	0.64	.	14.2132	0.65778	0.0:0.0:1.0:0.0	.	174;190;174	P09086-4;P09086;P09086-3	.;PO2F2_HUMAN;.	S	174;190;190;174;189;174;190	ENSP00000373992:P174S;ENSP00000339369:P190S;ENSP00000437221:P174S;ENSP00000437224:P174S;ENSP00000436988:P190S	ENSP00000292077:P190S	P	-	1	0	POU2F2	47292169	0.963000	0.33076	1.000000	0.80357	0.997000	0.91878	1.558000	0.36309	2.393000	0.81446	0.650000	0.86243	CCA		0.682	POU2F2-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000387329.3			A	42600329	G	A	42600329	3	1	664	1	0	0	0	0	1	0	0	0	12279	1203	42	2	899	2	POU2F2	19	42600329	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1401430	42600329	16528654	956	42266										
ZNF526	116115	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	42729973	42729973	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccccctgaacggcgtcaccGctgtggggtttgtggcaagg	16	12	1	1	rs149858475		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:42729973G>A	ENST00000301215.3	+	3	1643	c.1418G>A	c.(1417-1419)cGc>cAc	p.R473H		NM_133444.1	NP_597701.1	Q8TF50	ZN526_HUMAN	zinc finger protein 526	473					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			autonomic_ganglia(1)|cervix(1)|endometrium(4)|large_intestine(3)|lung(9)|prostate(1)|skin(3)	22		Prostate(69;0.0704)				CGGCGTCACCGCTGTGGGGTT	0.657																																																0								G	HIS/ARG	0,4406		0,0,2203	67	70	69		1418	0.3	0	19	dbSNP_134	69	1,8599	1.2+/-3.3	0,1,4299	no	missense	ZNF526	NM_133444.1	29	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	473/671	42729973	1,13005	2203	4300	6503	SO:0001583	missense	116115			AB075831	CCDS12598.1	19q13.31	2013-01-08				ENSG00000167625		"Zinc fingers, C2H2-type"	29415	protein-coding gene	gene with protein product		614387				11853319	Standard	NM_133444		Approved	KIAA1951, MGC4267	uc002osz.1	Q8TF50		ENST00000301215.3:c.1418G>A	19.37:g.42729973G>A	ENSP00000301215:p.Arg473His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KV29|Q69YI2|Q96E24	Missense_Mutation	SNP	ENST00000301215.3	37	CCDS12598.1	.	.	.	.	.	.	.	.	.	.	G	12.97	2.096005	0.36952	0.0	1.16E-4	ENSG00000167625	ENST00000437878;ENST00000301215	T	0.14893	2.47	4.97	0.305	0.15801	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (2);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.513891	0.17231	N	0.181951	T	0.11153	0.0272	L	0.28649	0.875	0.09310	N	1	P	0.48350	0.909	B	0.40565	0.333	T	0.17018	-1.0383	10	0.54805	T	0.06	-18.3772	8.4082	0.32627	0.4764:0.0:0.5236:0.0	.	473	Q8TF50	ZN526_HUMAN	H	329;473	ENSP00000301215:R473H	ENSP00000301215:R473H	R	+	2	0	ZNF526	47421813	0.000000	0.05858	0.000000	0.03702	0.972000	0.66771	-0.022000	0.12480	0.093000	0.17368	0.650000	0.86243	CGC		0.657	ZNF526-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463681.2	XM_057401		A	42729973	G	A	42729973	3	1	664	1	0	0	0	0	1	0	0	0	17979	1087	38	1	1420	1	ZNF526	19	42729973	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	129644	42729973	16399010	957	42267										
ERF	2077	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	42754628	42754628	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccctggtactcctccttccGcagcagctccaggataaagt	9	15	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:42754628G>A	ENST00000222329.4	-	2	269	c.112C>T	c.(112-114)Cgg>Tgg	p.R38W	ERF_ENST00000595941.1_5'UTR|ERF_ENST00000440177.2_5'UTR|AC006486.9_ENST00000594664.1_Intron	NM_006494.2	NP_006485.2	P50548	ERF_HUMAN	Ets2 repressor factor	38					cell cycle (GO:0007049)|cell differentiation (GO:0030154)|chorio-allantoic fusion (GO:0060710)|ectodermal cell differentiation (GO:0010668)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription from RNA polymerase II promoter (GO:0006366)|trophoblast giant cell differentiation (GO:0060707)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|transcription corepressor activity (GO:0003714)			central_nervous_system(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(7)|skin(1)	17		Prostate(69;0.00682)				TCCTCCTTCCGCAGCAGCTCC	0.622																																																0													56	49	52					19																	42754628		2203	4300	6503	SO:0001583	missense	2077			U58535	CCDS12600.1	19q13	2008-07-16				ENSG00000105722			3444	protein-coding gene	gene with protein product	"Ets2 repressor factor"	611888				7588608, 9192842	Standard	XM_005258644		Approved	PE-2, PE2	uc002ote.4	P50548		ENST00000222329.4:c.112C>T	19.37:g.42754628G>A	ENSP00000222329:p.Arg38Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAP1|B7Z4R0|Q59G38|Q9UPI7	Missense_Mutation	SNP	ENST00000222329.4	37	CCDS12600.1	.	.	.	.	.	.	.	.	.	.	G	18.53	3.643487	0.67244	.	.	ENSG00000105722	ENST00000222329	T	0.23754	1.89	5.45	3.27	0.37495	Winged helix-turn-helix transcription repressor DNA-binding (1);Ets (4);	0.000000	0.85682	D	0.000000	T	0.39279	0.1072	L	0.36672	1.1	0.80722	D	1	D	0.89917	1.0	D	0.80764	0.994	T	0.21245	-1.0251	10	0.87932	D	0	.	12.9636	0.58472	0.0:0.0:0.7055:0.2945	.	38	P50548	ERF_HUMAN	W	38	ENSP00000222329:R38W	ENSP00000222329:R38W	R	-	1	2	ERF	47446468	0.030000	0.19436	0.992000	0.48379	0.952000	0.60782	0.880000	0.28159	0.766000	0.33244	0.655000	0.94253	CGG		0.622	ERF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463684.1	NM_006494		A	42754628	G	A	42754628	3	1	664	1	0	0	0	0	1	0	0	0	5223	1086	38	1	1546	1	ERF	19	42754628	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	24655	42754628	16374355	958	42268										
MEGF8	1954	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	42861000	42861000	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gggcccaggcccatcgccccGctccttccatgcagccgcat	10	20	0	0	rs397515427		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:42861000G>A	ENST00000251268.6	+	27	4697	c.4697G>A	c.(4696-4698)cGc>cAc	p.R1566H	MEGF8_ENST00000334370.4_Missense_Mutation_p.R1499H	NM_001271938.1	NP_001258867.1	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	1566			R -> H (in CRPT2). {ECO:0000269|PubMed:23063620}.		BMP signaling pathway (GO:0030509)|cell migration involved in gastrulation (GO:0042074)|craniofacial suture morphogenesis (GO:0097094)|determination of digestive tract left/right asymmetry (GO:0071907)|determination of heart left/right asymmetry (GO:0061371)|embryonic heart tube left/right pattern formation (GO:0060971)|embryonic heart tube morphogenesis (GO:0003143)|embryonic limb morphogenesis (GO:0030326)|embryonic skeletal system morphogenesis (GO:0048704)|epiboly involved in gastrulation with mouth forming second (GO:0055113)|fasciculation of sensory neuron axon (GO:0097155)|left/right pattern formation (GO:0060972)|limb morphogenesis (GO:0035108)|positive regulation of axon extension involved in axon guidance (GO:0048842)|regulation of gene expression (GO:0010468)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|receptor activity (GO:0004872)			breast(2)|cervix(1)|endometrium(11)|kidney(2)|large_intestine(9)|lung(20)|ovary(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	50		Prostate(69;0.00682)				CCATCGCCCCGCTCCTTCCAT	0.662																																																0													29	27	28					19																	42861000		2197	4284	6481	SO:0001583	missense	1954			AB011541	CCDS12604.2, CCDS62693.1	19q13.2	2011-11-24	2006-03-31	2006-03-31	ENSG00000105429	ENSG00000105429			3233	protein-coding gene	gene with protein product	"HBV pre s2 binding protein 1"	604267	"EGF-like-domain, multiple 4", "chromosome 19 open reading frame 49"	EGFL4, C19orf49		9693030	Standard	NM_001410		Approved	SBP1, FLJ22365	uc002otm.5	Q7Z7M0	OTTHUMG00000150342	ENST00000251268.6:c.4697G>A	19.37:g.42861000G>A	ENSP00000251268:p.Arg1566His	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAY0|O75097	Missense_Mutation	SNP	ENST00000251268.6	37		.	.	.	.	.	.	.	.	.	.	G	22.3	4.267534	0.80469	.	.	ENSG00000105429	ENST00000334370;ENST00000251268	D;D	0.83163	-1.69;-1.69	5.11	5.11	0.69529	Galactose oxidase/kelch, beta-propeller (1);Kelch-type beta propeller (1);	0.000000	0.64402	D	0.000001	D	0.92241	0.7539	M	0.87381	2.88	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.993	D	0.93570	0.6903	10	0.87932	D	0	-30.787	17.3138	0.87217	0.0:0.0:1.0:0.0	.	1566;1499	Q7Z7M0;Q7Z7M0-2	MEGF8_HUMAN;.	H	1499;1566	ENSP00000334219:R1499H;ENSP00000251268:R1566H	ENSP00000251268:R1566H	R	+	2	0	MEGF8	47552840	1.000000	0.71417	1.000000	0.80357	0.478000	0.33099	7.659000	0.83766	2.400000	0.81607	0.563000	0.77884	CGC		0.662	MEGF8-002	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000463854.1	NM_001410		A	42861000	G	A	42861000	3	1	664	1	0	0	0	0	1	0	0	0	9470	1087	38	1	4598	1	MEGF8	19	42861000	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	106372	42861000	16267983	959	42269										
LYPD3	27076	hgsc.bcm.edu;ucsc.edu	37	chr19	43965542	43965542	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccacggccaacagaagggcTgccaatccagctgtgggagc	14	13	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:43965542T>C	ENST00000244333.3	-	5	1090	c.1002A>G	c.(1000-1002)gcA>gcG	p.A334A		NM_014400.2	NP_055215.2	O95274	LYPD3_HUMAN	LY6/PLAUR domain containing 3	334					cell-matrix adhesion (GO:0007160)|cellular component movement (GO:0006928)	anchored component of plasma membrane (GO:0046658)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)				cervix(1)|endometrium(1)|kidney(2)|large_intestine(3)|lung(1)|pancreas(1)|upper_aerodigestive_tract(2)	11		Prostate(69;0.0153)				ACAGAAGGGCTGCCAATCCAG	0.592																																																0													29	31	30					19																	43965542		2203	4300	6503	SO:0001819	synonymous_variant	27076			AF082889	CCDS12620.1	19q13.31	2008-02-05				ENSG00000124466			24880	protein-coding gene	gene with protein product		609484				11179665, 11245483	Standard	NM_014400		Approved	C4.4A	uc002owl.1	O95274		ENST00000244333.3:c.1002A>G	19.37:g.43965542T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UJ74	Silent	SNP	ENST00000244333.3	37	CCDS12620.1																																																																																				0.592	LYPD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463177.1	NM_014400		C	43965542	T	C	43965542	2	2	664	1	0	0	0	0	0	0	0	1	9118	1567	55	3		3	LYPD3	19	43965542	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1104542	43965542	15163441	960	42270										
ZNF234	10780	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr19	44661482	44661482	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agtatgtggtaaagccttccGtcagagttcatatcttaaaa	8	7	3	1	rs376364041		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:44661482G>A	ENST00000426739.2	+	6	1571	c.1313G>A	c.(1312-1314)cGt>cAt	p.R438H	ZNF234_ENST00000592437.1_Missense_Mutation_p.R438H	NM_006630.2	NP_006621.1	Q14588	ZN234_HUMAN	zinc finger protein 234	438					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|lung(11)|ovary(1)|prostate(1)	23		Prostate(69;0.0435)				AAAGCCTTCCGTCAGAGTTCA	0.413																																																0								G	HIS/ARG,HIS/ARG	0,4142		0,0,2071	60	61	61		1313,1313	2.8	0.4	19		61	1,8475		0,1,4237	no	missense,missense	ZNF234	NM_001144824.1,NM_006630.2	29,29	0,1,6308	AA,AG,GG		0.0118,0.0,0.0079	probably-damaging,probably-damaging	438/701,438/701	44661482	1,12617	2071	4238	6309	SO:0001583	missense	10780			X78927	CCDS46101.1	19q13	2013-01-08				ENSG00000263002		"Zinc fingers, C2H2-type", "-"	13027	protein-coding gene	gene with protein product		604750		ZNF269		7865130	Standard	NM_006630		Approved	HZF4	uc002oyl.4	Q14588		ENST00000426739.2:c.1313G>A	19.37:g.44661482G>A	ENSP00000400878:p.Arg438His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1C8|Q96IR4|Q9NS45|Q9NYT7	Missense_Mutation	SNP	ENST00000426739.2	37	CCDS46101.1	.	.	.	.	.	.	.	.	.	.	G	15.99	2.996673	0.54147	0.0	1.18E-4	ENSG00000167380	ENST00000426739	T	0.07567	3.18	3.94	2.8	0.32819	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.15132	0.0365	L	0.46157	1.445	0.09310	N	1	D	0.65815	0.995	P	0.55545	0.778	T	0.07271	-1.0781	9	0.41790	T	0.15	.	10.4269	0.44385	0.0:0.0:0.8053:0.1947	.	438	Q14588	ZN234_HUMAN	H	438	ENSP00000400878:R438H	ENSP00000400878:R438H	R	+	2	0	ZNF226	49353322	0.001000	0.12720	0.393000	0.26258	0.996000	0.88848	0.825000	0.27393	2.192000	0.70111	0.591000	0.81541	CGT		0.413	ZNF234-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460586.2			A	44661482	G	A	44661482	3	1	664	1	0	0	0	0	1	0	0	0	17799	1145	40	1	1327	1	ZNF234	19	44661482	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	695940	44661482	14467501	961	42271										
CEACAM16	388551	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	45207383	45207383	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcagcagccccagccccaccGccgaggtccgctggttcttc	11	19	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:45207383G>A	ENST00000405314.2	+	3	575	c.478G>A	c.(478-480)Gcc>Acc	p.A160T	CTB-171A8.1_ENST00000590796.1_RNA|CEACAM16_ENST00000587331.1_Missense_Mutation_p.A160T			Q2WEN9	CEA16_HUMAN	carcinoembryonic antigen-related cell adhesion molecule 16	160	Ig-like C2-type 1.				sensory perception of sound (GO:0007605)	extracellular region (GO:0005576)|stereocilium bundle tip (GO:0032426)				endometrium(3)|large_intestine(2)|lung(3)|ovary(1)	9	Lung NSC(12;0.000698)|all_lung(12;0.002)	Prostate(69;0.0376)|Ovarian(192;0.231)				CAGCCCCACCGCCGAGGTCCG	0.697																																																0													11	15	13					19																	45207383		1958	4115	6073	SO:0001583	missense	388551				CCDS54278.1	19q13.31	2014-01-27			ENSG00000213892	ENSG00000213892		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	31948	protein-coding gene	gene with protein product		614591				21368133	Standard	NM_001039213		Approved	DFNA4B	uc010xxd.2	Q2WEN9	OTTHUMG00000151519	ENST00000405314.2:c.478G>A	19.37:g.45207383G>A	ENSP00000385576:p.Ala160Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A7LI12	Missense_Mutation	SNP	ENST00000405314.2	37	CCDS54278.1	.	.	.	.	.	.	.	.	.	.	G	5.932	0.355948	0.11239	.	.	ENSG00000213892	ENST00000396750;ENST00000405314	T	0.12465	2.68	5.64	4.6	0.57074	Immunoglobulin subtype (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.298565	0.17891	U	0.158524	T	0.11707	0.0285	N	0.17764	0.52	0.09310	N	1	D	0.63046	0.992	P	0.50570	0.644	T	0.08472	-1.0720	10	0.09590	T	0.72	-17.3407	10.5959	0.45338	0.0888:0.0:0.9112:0.0	.	219	Q2WEN9	CEA16_HUMAN	T	225;160	ENSP00000385576:A160T	ENSP00000379974:A225T	A	+	1	0	CEACAM16	49899223	0.611000	0.26992	0.104000	0.21259	0.023000	0.10783	4.896000	0.63222	1.520000	0.48965	0.561000	0.74099	GCC		0.697	CEACAM16-201	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding		XM_371177		A	45207383	G	A	45207383	3	1	664	1	0	0	0	0	1	0	0	0	3190	1087	38	1	488	1	CEACAM16	19	45207383	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	545901	45207383	13921600	962	42272										
BCL3	602	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	45262838	45262838	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctccgaggccctggccggcCggtgcccccctccccagctc	11	23	0	0	rs377071242		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:45262838C>T	ENST00000164227.5	+	9	1575	c.1331C>T	c.(1330-1332)cCg>cTg	p.P444L		NM_005178.4	NP_005169.2	P20749	BCL3_HUMAN	B-cell CLL/lymphoma 3	444	Pro/Ser-rich.				antimicrobial humoral response (GO:0019730)|cellular response to DNA damage stimulus (GO:0006974)|defense response to bacterium (GO:0042742)|defense response to protozoan (GO:0042832)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|extracellular matrix organization (GO:0030198)|follicular dendritic cell differentiation (GO:0002268)|germinal center formation (GO:0002467)|humoral immune response mediated by circulating immunoglobulin (GO:0002455)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|maintenance of protein location in nucleus (GO:0051457)|marginal zone B cell differentiation (GO:0002315)|negative regulation of apoptotic process (GO:0043066)|negative regulation of interleukin-8 biosynthetic process (GO:0045415)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of tumor necrosis factor biosynthetic process (GO:0042536)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interleukin-10 biosynthetic process (GO:0045082)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of translation (GO:0045727)|protein import into nucleus, translocation (GO:0000060)|regulation of apoptotic process (GO:0042981)|regulation of DNA binding (GO:0051101)|regulation of NF-kappaB import into nucleus (GO:0042345)|response to UV-C (GO:0010225)|response to virus (GO:0009615)|spleen development (GO:0048536)|T-helper 1 type immune response (GO:0042088)|T-helper 2 cell differentiation (GO:0045064)|transcription, DNA-templated (GO:0006351)	Bcl3-Bcl10 complex (GO:0032996)|Bcl3/NF-kappaB2 complex (GO:0033257)|cytoplasm (GO:0005737)|intercellular bridge (GO:0045171)|nucleus (GO:0005634)|protein complex (GO:0043234)	DNA binding (GO:0003677)|protein binding, bridging (GO:0030674)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)	p.P436Q(1)		kidney(1)|large_intestine(2)|lung(2)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	10	Lung NSC(12;0.000698)|all_lung(12;0.002)	Ovarian(192;0.0728)				CCTGGCCGGCCGGTGCCCCCC	0.682			T	IGH@	CLL								C|||	1	0.000199681	0.0	0.0	5008	,	,		12004	0.001		0.0	False		,,,				2504	0.0						Dom	yes		19	19q13	602	B-cell CLL/lymphoma 3		L	1	Substitution - Missense(1)	ovary(1)						C	LEU/PRO	0,4404		0,0,2202	34	43	40		1331	4.6	1	19		40	2,8588		0,2,4293	no	missense	BCL3	NM_005178.4	98	0,2,6495	TT,TC,CC		0.0233,0.0,0.0154	probably-damaging	444/455	45262838	2,12992	2202	4295	6497	SO:0001583	missense	602			M31732	CCDS12642.2	19q13.1-q13.2	2013-01-10			ENSG00000069399	ENSG00000069399		"Ankyrin repeat domain containing"	998	protein-coding gene	gene with protein product	"B-cell lymphoma 3-encoded protein", "B-cell leukemia/lymphoma 3", "chronic lymphatic leukemia protein"	109560		D19S37, BCL4		1501714, 2180580	Standard	NM_005178		Approved		uc010xxe.2	P20749	OTTHUMG00000151517	ENST00000164227.5:c.1331C>T	19.37:g.45262838C>T	ENSP00000164227:p.Pro444Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000164227.5	37	CCDS12642.2	.	.	.	.	.	.	.	.	.	.	C	17.71	3.456786	0.63401	0.0	2.33E-4	ENSG00000069399	ENST00000164227	T	0.47869	0.83	4.64	4.64	0.57946	.	0.000000	0.42548	D	0.000681	T	0.55847	0.1946	L	0.27053	0.805	0.47584	D	0.999465	D	0.89917	1.0	D	0.81914	0.995	T	0.61227	-0.7105	10	0.72032	D	0.01	-22.3929	14.9891	0.71371	0.0:1.0:0.0:0.0	.	444	P20749	BCL3_HUMAN	L	444	ENSP00000164227:P444L	ENSP00000164227:P444L	P	+	2	0	BCL3	49954678	0.975000	0.34042	0.968000	0.41197	0.951000	0.60555	2.622000	0.46427	2.115000	0.64714	0.491000	0.48974	CCG		0.682	BCL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322976.1	NM_005178		T	45262838	C	T	45262838	3	4	664	1	0	0	0	0	1	0	0	0	1375	652	23	1	1365	1	BCL3	19	45262838	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	55455	45262838	13866145	963	42273										
PVRL2	5819	broad.mit.edu	37	chr19	45375403	45375403	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tacctgtgaccctctctgtaCgctgtgagtgtatcgggggt	13	10	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:45375403C>T	ENST00000252483.5	+	3	772	c.772C>T	c.(772-774)Cgc>Tgc	p.R258C	PVRL2_ENST00000252485.4_Missense_Mutation_p.R258C	NM_001042724.1	NP_001036189.1	Q92692	PVRL2_HUMAN	poliovirus receptor-related 2 (herpesvirus entry mediator B)	258					acrosome assembly (GO:0001675)|adherens junction organization (GO:0034332)|adhesion of symbiont to host (GO:0044406)|cell junction assembly (GO:0034329)|cell part morphogenesis (GO:0032990)|cell-cell junction organization (GO:0045216)|cilium organization (GO:0044782)|coreceptor-mediated virion attachment to host cell (GO:0046814)|cytoskeleton organization (GO:0007010)|establishment of mitochondrion localization (GO:0051654)|fertilization (GO:0009566)|fusion of virus membrane with host plasma membrane (GO:0019064)|homophilic cell adhesion (GO:0007156)|positive regulation of immunoglobulin mediated immune response (GO:0002891)|positive regulation of mast cell activation (GO:0033005)|positive regulation of natural killer cell mediated cytotoxicity (GO:0045954)|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target (GO:0002860)|regulation of immune response (GO:0050776)|signal transduction (GO:0007165)|sperm mitochondrion organization (GO:0030382)|spermatid development (GO:0007286)|spermatid nucleus differentiation (GO:0007289)|susceptibility to natural killer cell mediated cytotoxicity (GO:0042271)|susceptibility to T cell mediated cytotoxicity (GO:0060370)	cell surface (GO:0009986)|cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|zonula adherens (GO:0005915)	cell adhesion molecule binding (GO:0050839)|coreceptor activity (GO:0015026)|identical protein binding (GO:0042802)|protein homodimerization activity (GO:0042803)|virus receptor activity (GO:0001618)	p.R258C(1)		breast(1)|endometrium(1)|large_intestine(6)|lung(5)	13	Lung NSC(12;0.00195)|all_lung(12;0.00522)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0143)		CCTCTCTGTACGCTGTGAGTG	0.557																																																1	Substitution - Missense(1)	large_intestine(1)											160	118	132					19																	45375403		2203	4300	6503	SO:0001583	missense	5819			X80038	CCDS12645.1, CCDS42576.1	19q13.32	2013-01-29			ENSG00000130202	ENSG00000130202		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9707	protein-coding gene	gene with protein product		600798		HVEB		7622062, 10196354	Standard	NM_001042724		Approved	PVRR2, PRR2, CD112	uc002ozw.1	Q92692	OTTHUMG00000180839	ENST00000252483.5:c.772C>T	19.37:g.45375403C>T	ENSP00000252483:p.Arg258Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5L5|O75455|Q6IBI6|Q96J29	Missense_Mutation	SNP	ENST00000252483.5	37	CCDS42576.1	.	.	.	.	.	.	.	.	.	.	C	16.62	3.172643	0.57584	.	.	ENSG00000130202	ENST00000252483;ENST00000252485	T;T	0.15487	2.42;2.42	4.25	3.15	0.36227	Immunoglobulin-like fold (1);	0.000000	0.49305	D	0.000142	T	0.36138	0.0956	M	0.79475	2.455	0.47441	D	0.999425	D;D	0.89917	1.0;1.0	P;D	0.65987	0.872;0.94	T	0.14643	-1.0465	10	0.72032	D	0.01	.	8.3414	0.32245	0.254:0.746:0.0:0.0	.	258;258	Q92692;Q92692-2	PVRL2_HUMAN;.	C	258	ENSP00000252483:R258C;ENSP00000252485:R258C	ENSP00000252483:R258C	R	+	1	0	PVRL2	50067243	1.000000	0.71417	1.000000	0.80357	0.786000	0.44442	2.396000	0.44468	2.190000	0.69967	0.561000	0.74099	CGC		0.557	PVRL2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000453231.1	NM_002856		T	45375403	C	T	45375403	3	4	664	1	0	0	0	0	1	0	0	0	12853	536	19	1	782	1	PVRL2	19	45375403	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	112565	45375403	13753580	964	42274										
TOMM40	10452	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	45397308	45397308	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcaccctggggaacccagacGtcctcgtgggttcaggtaag	13	12	2	1	rs373123327		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:45397308G>A	ENST00000426677.2	+	5	808	c.628G>A	c.(628-630)Gtc>Atc	p.V210I	TOMM40_ENST00000592434.1_Missense_Mutation_p.V210I|TOMM40_ENST00000405636.2_Missense_Mutation_p.V210I|TOMM40_ENST00000252487.5_Missense_Mutation_p.V210I	NM_001128917.1	NP_001122389.1	O96008	TOM40_HUMAN	translocase of outer mitochondrial membrane 40 homolog (yeast)	210					cellular protein metabolic process (GO:0044267)|ion transport (GO:0006811)|protein targeting to mitochondrion (GO:0006626)|protein transmembrane transport (GO:0071806)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|integral component of mitochondrial outer membrane (GO:0031307)|mitochondrial outer membrane translocase complex (GO:0005742)|pore complex (GO:0046930)	porin activity (GO:0015288)|protein transmembrane transporter activity (GO:0008320)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|lung(2)|ovary(1)	5	Lung NSC(12;0.0018)|all_lung(12;0.00481)			OV - Ovarian serous cystadenocarcinoma(262;0.0033)|Epithelial(262;0.176)		GAACCCAGACGTCCTCGTGGG	0.577													G|||	1	0.000199681	0.0008	0.0	5008	,	,		17156	0.0		0.0	False		,,,				2504	0.0															0								G	ILE/VAL,ILE/VAL,ILE/VAL	2,4404	2.1+/-5.4	0,2,2201	35	35	35		628,628,628	4.7	0.9	19		35	0,8600		0,0,4300	no	missense,missense,missense	TOMM40	NM_001128916.1,NM_001128917.1,NM_006114.2	29,29,29	0,2,6501	AA,AG,GG		0.0,0.0454,0.0154	benign,benign,benign	210/362,210/362,210/362	45397308	2,13004	2203	4300	6503	SO:0001583	missense	10452			AF043250	CCDS12646.1	19q13	2008-07-04				ENSG00000130204			18001	protein-coding gene	gene with protein product		608061				10980201, 15644312	Standard	NM_006114		Approved	PEREC1, D19S1177E, C19orf1, TOM40, PER-EC1	uc002paa.4	O96008		ENST00000426677.2:c.628G>A	19.37:g.45397308G>A	ENSP00000410339:p.Val210Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q86VW4|Q8WY09|Q8WY10|Q8WY11|Q9BR95	Missense_Mutation	SNP	ENST00000426677.2	37	CCDS12646.1	.	.	.	.	.	.	.	.	.	.	G	4.709	0.131812	0.08981	4.54E-4	0.0	ENSG00000130204	ENST00000426677;ENST00000405636;ENST00000252487	T;T;T	0.40225	1.04;1.04;1.04	4.66	4.66	0.58398	.	0.070286	0.56097	D	0.000025	T	0.17195	0.0413	N	0.11131	0.1	0.49582	D	0.999807	B;B	0.31290	0.318;0.046	B;B	0.24394	0.031;0.053	T	0.14643	-1.0465	10	0.02654	T	1	-6.3551	8.8123	0.34974	0.1042:0.0:0.8958:0.0	.	210;210	O96008-2;O96008	.;TOM40_HUMAN	I	210	ENSP00000410339:V210I;ENSP00000385184:V210I;ENSP00000252487:V210I	ENSP00000252487:V210I	V	+	1	0	TOMM40	50089148	0.996000	0.38824	0.916000	0.36221	0.676000	0.39594	2.372000	0.44257	2.133000	0.65898	0.561000	0.74099	GTC		0.577	TOMM40-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453241.1			A	45397308	G	A	45397308	3	1	664	1	0	0	0	0	1	0	0	0	16370	1145	40	1	646	1	TOMM40	19	45397308	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	21905	45397308	13731675	965	42275										
RSPH6A	81492	broad.mit.edu;ucsc.edu	37	chr19	46308230	46308230	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggccgacgccggcctgctcGaagtagaaggcagtctccat	13	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:46308230G>A	ENST00000221538.3	-	3	1075	c.933C>T	c.(931-933)ttC>ttT	p.F311F	RSPH6A_ENST00000600188.1_Silent_p.F47F|RSPH6A_ENST00000597055.1_Silent_p.F311F	NM_030785.3	NP_110412.1	Q9H0K4	RSH6A_HUMAN	radial spoke head 6 homolog A (Chlamydomonas)	311						intracellular (GO:0005622)				central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(6)|liver(1)|lung(14)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	32						CGGCCTGCTCGAAGTAGAAGG	0.617																																																0													46	43	44					19																	46308230		2203	4300	6503	SO:0001819	synonymous_variant	81492			AL136761	CCDS12675.1	19q13.3	2010-02-17	2009-11-18	2009-11-18	ENSG00000104941	ENSG00000104941			14241	protein-coding gene	gene with protein product		607548	"radial spokehead-like 1"	RSHL1		11237735	Standard	NM_030785		Approved	RSP4, RSP6, RSPH4B	uc002pdm.3	Q9H0K4		ENST00000221538.3:c.933C>T	19.37:g.46308230G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q53FE2|Q6PEZ9	Silent	SNP	ENST00000221538.3	37	CCDS12675.1																																																																																				0.617	RSPH6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000461657.1			A	46308230	G	A	46308230	2	1	664	1	0	0	0	0	0	0	0	1	13720	1049	37	1		1	RSPH6A	19	46308230	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	910922	46308230	12820753	966	42276										
GRIN2D	2906	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	48945611	48945611	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgcctggggcccacccaccGcatggacttcctgctggcct	11	18	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:48945611G>A	ENST00000263269.3	+	12	2733	c.2645G>A	c.(2644-2646)cGc>cAc	p.R882H		NM_000836.2	NP_000827.2	O15399	NMDE4_HUMAN	glutamate receptor, ionotropic, N-methyl D-aspartate 2D	882					adult locomotory behavior (GO:0008344)|ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|regulation of sensory perception of pain (GO:0051930)|signal transduction (GO:0007165)|startle response (GO:0001964)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)	cell junction (GO:0030054)|dendrite (GO:0030425)|N-methyl-D-aspartate selective glutamate receptor complex (GO:0017146)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	extracellular-glutamate-gated ion channel activity (GO:0005234)|N-methyl-D-aspartate selective glutamate receptor activity (GO:0004972)			autonomic_ganglia(1)|breast(6)|endometrium(2)|large_intestine(9)|lung(12)|ovary(5)|pancreas(1)|prostate(1)	37		all_epithelial(76;1.11e-06)|all_lung(116;5.79e-06)|Lung NSC(112;1.18e-05)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		all cancers(93;0.00014)|OV - Ovarian serous cystadenocarcinoma(262;0.000233)|Epithelial(262;0.0112)|GBM - Glioblastoma multiforme(486;0.0161)	Acamprosate(DB00659)|Acetylcysteine(DB06151)|Atomoxetine(DB00289)|Gabapentin(DB00996)|Ketobemidone(DB06738)|Milnacipran(DB04896)|Orphenadrine(DB01173)|Pentobarbital(DB00312)|Pethidine(DB00454)|Phenobarbital(DB01174)|Secobarbital(DB00418)	CCCACCCACCGCATGGACTTC	0.657																																																0													56	60	59					19																	48945611		2203	4300	6503	SO:0001583	missense	2906			U77783	CCDS12719.1	19q13.33	2012-08-29			ENSG00000105464	ENSG00000105464		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4588	protein-coding gene	gene with protein product	"N-methyl-d-aspartate receptor subunit 2D"	602717		NMDAR2D		9480759, 9418891	Standard	NM_000836		Approved	GluN2D, EB11, NR2D	uc002pjc.4	O15399		ENST00000263269.3:c.2645G>A	19.37:g.48945611G>A	ENSP00000263269:p.Arg882His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000263269.3	37	CCDS12719.1	.	.	.	.	.	.	.	.	.	.	g	13.09	2.132782	0.37630	.	.	ENSG00000105464	ENST00000263269	T	0.13196	2.61	3.85	2.82	0.32997	.	0.075697	0.50627	D	0.000120	T	0.08537	0.0212	N	0.20986	0.625	0.25545	N	0.987145	B	0.15473	0.013	B	0.08055	0.003	T	0.17531	-1.0366	10	0.56958	D	0.05	.	7.5626	0.27860	0.2035:0.0:0.7965:0.0	.	882	O15399	NMDE4_HUMAN	H	882	ENSP00000263269:R882H	ENSP00000263269:R882H	R	+	2	0	GRIN2D	53637423	0.999000	0.42202	1.000000	0.80357	0.463000	0.32649	2.343000	0.44001	2.161000	0.67846	0.450000	0.29827	CGC		0.657	GRIN2D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466121.1			A	48945611	G	A	48945611	3	1	664	1	0	0	0	0	1	0	0	0	6789	1087	38	1	2687	1	GRIN2D	19	48945611	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2637381	48945611	10183372	967	42277										
LMTK3	114783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	49002432	49002432	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cacccacggggcggtcccccGctcccccaagacctcggcag	11	21	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:49002432G>A	ENST00000600059.1	-	11	2121	c.1894C>T	c.(1894-1896)Cgg>Tgg	p.R632W	LMTK3_ENST00000270238.3_Missense_Mutation_p.R661W			Q96Q04	LMTK3_HUMAN	lemur tyrosine kinase 3	632	Pro-rich.				negative regulation of phosphatase activity (GO:0010923)	integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(3)|central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(9)|prostate(1)	16		all_lung(116;0.000147)|Lung NSC(112;0.000251)|all_epithelial(76;0.000326)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000114)|all cancers(93;0.000141)|Epithelial(262;0.00854)|GBM - Glioblastoma multiforme(486;0.0231)		GCGGTCCCCCGCTCCCCCAAG	0.731																																																0													3	3	3					19																	49002432		1342	3198	4540	SO:0001583	missense	114783			AB067470	CCDS46136.1	19q13.33	2014-06-12				ENSG00000142235			19295	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 101"						Standard	NM_001080434		Approved	KIAA1883, LMR3, TYKLM3, PPP1R101	uc002pjk.3	Q96Q04		ENST00000600059.1:c.1894C>T	19.37:g.49002432G>A	ENSP00000472020:p.Arg632Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0U1	Missense_Mutation	SNP	ENST00000600059.1	37		.	.	.	.	.	.	.	.	.	.	G	13.39	2.221564	0.39300	.	.	ENSG00000142235	ENST00000270238	T	0.79247	-1.25	3.86	1.28	0.21552	.	1.169160	0.06763	U	0.782141	T	0.55049	0.1896	N	0.08118	0	0.25401	N	0.988445	D	0.56968	0.978	B	0.37422	0.249	T	0.51419	-0.8708	10	0.45353	T	0.12	.	7.4012	0.26965	0.0:0.184:0.6273:0.1887	.	632	Q96Q04	LMTK3_HUMAN	W	661	ENSP00000270238:R661W	ENSP00000270238:R661W	R	-	1	2	LMTK3	53694244	0.035000	0.19736	0.954000	0.39281	0.332000	0.28634	2.264000	0.43302	0.685000	0.31468	0.386000	0.25728	CGG		0.731	LMTK3-002	KNOWN	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000466137.1	NM_052895		A	49002432	G	A	49002432	3	1	664	1	0	0	0	0	1	0	0	0	8867	1086	38	1	2508	1	LMTK3	19	49002432	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	56821	49002432	10126551	968	42278										
FUT2	2524	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	49206425	49206425	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gacgatcaatgcaataggccGcctggggaaccagatgggcg	15	10	1	1	rs374416675		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:49206425G>A	ENST00000425340.2	+	2	329	c.212G>A	c.(211-213)cGc>cAc	p.R71H	FUT2_ENST00000391876.4_Missense_Mutation_p.R71H	NM_000511.5|NM_001097638.2	NP_000502.4|NP_001091107.1	Q10981	FUT2_HUMAN	fucosyltransferase 2 (secretor status included)	71					carbohydrate metabolic process (GO:0005975)|fucosylation (GO:0036065)|L-fucose catabolic process (GO:0042355)|protein glycosylation (GO:0006486)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	fucosyltransferase activity (GO:0008417)|galactoside 2-alpha-L-fucosyltransferase activity (GO:0008107)			breast(1)|central_nervous_system(2)|endometrium(1)|large_intestine(1)|lung(2)	7		all_lung(116;4.89e-06)|all_epithelial(76;7.04e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.00011)|all cancers(93;0.000238)|GBM - Glioblastoma multiforme(486;0.0164)|Epithelial(262;0.017)		GCAATAGGCCGCCTGGGGAAC	0.622																																																0								G	HIS/ARG,HIS/ARG	1,4405	2.1+/-5.4	0,1,2202	59	56	57		212,212	4.3	1	19		57	0,8600		0,0,4300	no	missense,missense	FUT2	NM_000511.5,NM_001097638.2	29,29	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	probably-damaging,probably-damaging	71/344,71/344	49206425	1,13005	2203	4300	6503	SO:0001583	missense	2524				CCDS33069.1	19q13.33	2014-07-19			ENSG00000176920	ENSG00000176920		"Fucosyltransferases"	4013	protein-coding gene	gene with protein product	"alpha (1,2) fucosyltransferase", "galactoside 2-alpha-L-fucosyltransferase 2", "GDP-L-fucose:beta-D-galactoside 2-alpha-L-fucosyltransferase 2", "alpha(1,2)FT2", "secretor factor", "secretor blood group alpha-2-fucosyltransferase"	182100		SE		1763885	Standard	NM_000511		Approved	sej, Se2, SEC2	uc010emc.3	Q10981	OTTHUMG00000164427	ENST00000425340.2:c.212G>A	19.37:g.49206425G>A	ENSP00000387498:p.Arg71His	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAG5|Q14338|Q5D0G2	Missense_Mutation	SNP	ENST00000425340.2	37	CCDS33069.1	.	.	.	.	.	.	.	.	.	.	G	21.5	4.153140	0.78001	2.27E-4	0.0	ENSG00000176920	ENST00000522966;ENST00000425340;ENST00000391876	D;D;D	0.96802	-4.13;-4.13;-4.13	4.33	4.33	0.51752	.	.	.	.	.	D	0.98283	0.9431	M	0.90759	3.145	0.42790	D	0.993895	D	0.89917	1.0	D	0.97110	1.0	D	0.99712	1.1007	9	0.87932	D	0	.	14.7241	0.69329	0.0:0.0:1.0:0.0	.	71	Q10981	FUT2_HUMAN	H	71	ENSP00000430227:R71H;ENSP00000387498:R71H;ENSP00000375748:R71H	ENSP00000375748:R71H	R	+	2	0	FUT2	53898237	1.000000	0.71417	0.999000	0.59377	0.801000	0.45260	5.966000	0.70395	2.131000	0.65755	0.549000	0.68633	CGC		0.622	FUT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378731.2	NM_000511		A	49206425	G	A	49206425	3	1	664	1	0	0	0	0	1	0	0	0	6111	1087	38	1	214	1	FUT2	19	49206425	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	203993	49206425	9922558	969	42279										
GYS1	2997	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	49473833	49473833	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tatttccagtccagaaggtcGgagaggcgctccgtgcggtt	14	10	0	2	rs372542706		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:49473833G>A	ENST00000323798.3	-	14	1975	c.1779C>T	c.(1777-1779)tcC>tcT	p.S593S	GYS1_ENST00000544287.1_Silent_p.S226S|GYS1_ENST00000541188.1_Silent_p.S513S|GYS1_ENST00000263276.6_Silent_p.S529S	NM_002103.4	NP_002094.2	P13807	GYS1_HUMAN	glycogen synthase 1 (muscle)	593					carbohydrate metabolic process (GO:0005975)|glucose metabolic process (GO:0006006)|glycogen biosynthetic process (GO:0005978)|heart development (GO:0007507)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|inclusion body (GO:0016234)|membrane (GO:0016020)	glucose binding (GO:0005536)|glycogen (starch) synthase activity (GO:0004373)|glycogen synthase activity, transferring glucose-1-phosphate (GO:0061547)|protein kinase binding (GO:0019901)			breast(1)|endometrium(4)|kidney(2)|large_intestine(3)|lung(5)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	22		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000164)|all cancers(93;0.000226)|GBM - Glioblastoma multiforme(486;0.00561)|Epithelial(262;0.0286)		CCAGAAGGTCGGAGAGGCGCT	0.597											OREG0025611	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0								G	,	1,4405	2.1+/-5.4	0,1,2202	33	37	36		1587,1779	-10.4	0.1	19		36	0,8600		0,0,4300	no	coding-synonymous,coding-synonymous	GYS1	NM_001161587.1,NM_002103.4	,	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	,	529/674,593/738	49473833	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	2997				CCDS12747.1, CCDS54292.1	19q13.3	2013-02-22			ENSG00000104812	ENSG00000104812	2.4.1.11	"Glycosyltransferase group 1 domain containing"	4706	protein-coding gene	gene with protein product		138570		GYS			Standard	NM_002103		Approved	GSY	uc002plp.3	P13807	OTTHUMG00000150723	ENST00000323798.3:c.1779C>T	19.37:g.49473833G>A		Somatic	962	WXS	Illumina HiSeq	Phase_I	Q9BTT9	Silent	SNP	ENST00000323798.3	37	CCDS12747.1																																																																																				0.597	GYS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319791.1	NM_002103		A	49473833	G	A	49473833	2	1	664	1	0	0	0	0	0	0	0	1	6919	1103	39	1		1	GYS1	19	49473833	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	267408	49473833	9655150	970	42280										
NTF4	4909	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	49564657	49564657	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccggctgaggagtgtgcagaCgcaggcagtgtcaattcgaa	15	9	1	2	rs200081067		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:49564657C>T	ENST00000593537.1	-	1	597	c.598G>A	c.(598-600)Gtc>Atc	p.V200I	NTF4_ENST00000301411.3_Missense_Mutation_p.V200I|CTB-60B18.12_ENST00000597865.1_RNA|CGB7_ENST00000356213.4_5'Flank|CTB-60B18.18_ENST00000599209.1_lincRNA|NTF4_ENST00000451356.2_Intron|CGB7_ENST00000597853.1_5'Flank|NTF4_ENST00000594938.1_5'Flank			P34130	NTF4_HUMAN	neurotrophin 4	200					adult locomotory behavior (GO:0008344)|epidermis development (GO:0008544)|ganglion mother cell fate determination (GO:0007402)|innervation (GO:0060384)|long-term memory (GO:0007616)|mechanoreceptor differentiation (GO:0042490)|negative regulation of cell death (GO:0060548)|sensory organ boundary specification (GO:0008052)|taste bud development (GO:0061193)	endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	growth factor activity (GO:0008083)			kidney(1)|lung(4)|upper_aerodigestive_tract(1)	6		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000371)|OV - Ovarian serous cystadenocarcinoma(262;0.000503)|GBM - Glioblastoma multiforme(486;0.00518)|Epithelial(262;0.0427)		AGTGTGCAGACGCAGGCAGTG	0.602																																																0													37	34	35					19																	49564657		2203	4300	6503	SO:0001583	missense	4909				CCDS12754.1	19q13.3	2014-01-30	2008-01-31	2008-01-31		ENSG00000225950		"Endogenous ligands"	8024	protein-coding gene	gene with protein product	"neurotrophic factor 4"	162662	"neurotrophin 5 (neurotrophin 4/5)"	NTF5		1496419	Standard	NM_006179		Approved	NT-4/5, GLC1O	uc010yah.1	P34130		ENST00000593537.1:c.598G>A	19.37:g.49564657C>T	ENSP00000469455:p.Val200Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FH56	Missense_Mutation	SNP	ENST00000593537.1	37	CCDS12754.1	.	.	.	.	.	.	.	.	.	.	C	23.2	4.387981	0.82902	.	.	ENSG00000167744	ENST00000301411	T	0.72835	-0.69	3.27	3.27	0.37495	Nerve growth factor-related (5);	0.000000	0.64402	D	0.000013	T	0.78168	0.4241	M	0.64170	1.965	0.54753	D	0.999981	D	0.76494	0.999	P	0.58454	0.839	T	0.82067	-0.0641	10	0.87932	D	0	-2.3554	14.4638	0.67470	0.0:1.0:0.0:0.0	.	200	P34130	NTF4_HUMAN	I	200	ENSP00000301411:V200I	ENSP00000301411:V200I	V	-	1	0	NTF4	54256469	1.000000	0.71417	0.995000	0.50966	0.883000	0.51084	7.450000	0.80656	2.150000	0.67090	0.313000	0.20887	GTC		0.602	NTF4-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466258.1	NM_006179		T	49564657	C	T	49564657	3	4	664	1	0	0	0	0	1	0	0	0	10704	536	19	1	38	1	NTF4	19	49564657	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	90824	49564657	9564326	971	42281										
AP2A1	160	hgsc.bcm.edu	37	chr19	50305240	50305240	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gacctgcgcttcctacagtcGacgccctcgccctccgccga	9	20	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:50305240G>A	ENST00000359032.5	+	15	1956	c.1956G>A	c.(1954-1956)tcG>tcA	p.S652S	AP2A1_ENST00000354293.5_Silent_p.S652S	NM_014203.2	NP_055018.2	O95782	AP2A1_HUMAN	adaptor-related protein complex 2, alpha 1 subunit	652					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|axon guidance (GO:0007411)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|Golgi to endosome transport (GO:0006895)|intracellular protein transport (GO:0006886)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|negative regulation of hyaluronan biosynthetic process (GO:1900126)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of defense response to virus by virus (GO:0050690)|synaptic transmission (GO:0007268)|viral process (GO:0016032)	AP-2 adaptor complex (GO:0030122)|apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|clathrin coat of trans-Golgi network vesicle (GO:0030130)|clathrin-coated endocytic vesicle membrane (GO:0030669)|cytosol (GO:0005829)|endocytic vesicle membrane (GO:0030666)|membrane (GO:0016020)|plasma membrane (GO:0005886)	protein kinase binding (GO:0019901)|protein transporter activity (GO:0008565)			cervix(1)|endometrium(5)|kidney(1)|large_intestine(3)|lung(7)|ovary(2)	19		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.0023)|GBM - Glioblastoma multiforme(134;0.0157)		TCCTACAGTCGACGCCCTCGC	0.731																																																0													5	7	6					19																	50305240		1835	3913	5748	SO:0001819	synonymous_variant	160			AA993745	CCDS46148.1, CCDS46149.1	19q13.3	2008-05-23				ENSG00000196961			561	protein-coding gene	gene with protein product		601026		CLAPA1, ADTAA		2564002	Standard	NM_014203		Approved		uc002ppn.3	O95782		ENST00000359032.5:c.1956G>A	19.37:g.50305240G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q96CI7|Q96PP6|Q96PP7|Q9H070	Silent	SNP	ENST00000359032.5	37	CCDS46148.1																																																																																				0.731	AP2A1-008	NOVEL	non_canonical_U12|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000465809.1			A	50305240	G	A	50305240	2	1	664	1	0	0	0	0	0	0	0	1	739	1045	37	1		1	AP2A1	19	50305240	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	740583	50305240	8823743	972	42282										
ZNF473	25888	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr19	50548036	50548036	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcttctggaactccaatttCggagaagcctgtatagagga	12	8	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:50548036C>T	ENST00000595661.1	+	6	831	c.336C>T	c.(334-336)ttC>ttT	p.F112F	ZNF473_ENST00000601364.1_Intron|ZNF473_ENST00000270617.3_Silent_p.F112F|ZNF473_ENST00000445728.3_Silent_p.F100F|CTD-2126E3.3_ENST00000599914.1_RNA|CTD-2126E3.3_ENST00000599410.1_RNA|ZNF473_ENST00000391821.2_Silent_p.F112F			Q8WTR7	ZN473_HUMAN	zinc finger protein 473	112					gene expression (GO:0010467)|histone mRNA 3'-end processing (GO:0006398)|histone mRNA metabolic process (GO:0008334)|mRNA 3'-end processing (GO:0031124)|regulation of transcription, DNA-templated (GO:0006355)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	Cajal body (GO:0015030)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(9)|liver(2)|lung(12)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	37		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		ACTCCAATTTCGGAGAAGCCT	0.473																																																0													64	64	64					19																	50548036		2203	4300	6503	SO:0001819	synonymous_variant	25888			AB032967	CCDS33077.1	19q13.33	2013-01-08						"Zinc fingers, C2H2-type", "-"	23239	protein-coding gene	gene with protein product						11782445	Standard	NM_015428		Approved	KIAA1141, DKFZP434N043, HZFP100	uc002prn.3	Q8WTR7		ENST00000595661.1:c.336C>T	19.37:g.50548036C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K8T7|Q9ULS9|Q9Y4Q7	Silent	SNP	ENST00000595661.1	37	CCDS33077.1																																																																																				0.473	ZNF473-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464833.1	XM_046390		T	50548036	C	T	50548036	2	4	664	1	0	0	0	0	0	0	0	1	17943	883	31	1		1	ZNF473	19	50548036	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	242796	50548036	8580947	973	42283										
MYH14	79784	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr19	50760714	50760714	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acaccaaccccagttttgtcCgctgcattgtccccaaccac	5	18	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:50760714C>T	ENST00000596571.1	+	15	2080	c.2080C>T	c.(2080-2082)Cgc>Tgc	p.R694C	MYH14_ENST00000440075.2_Missense_Mutation_p.R735C|MYH14_ENST00000376970.2_Missense_Mutation_p.R727C|MYH14_ENST00000601313.1_Missense_Mutation_p.R735C|MYH14_ENST00000425460.1_Missense_Mutation_p.R702C|MYH14_ENST00000598205.1_Missense_Mutation_p.R702C|MYH14_ENST00000262269.8_Missense_Mutation_p.R735C			Q7Z406	MYH14_HUMAN	myosin, heavy chain 14, non-muscle	694	Myosin motor.				actin filament-based movement (GO:0030048)|actomyosin structure organization (GO:0031032)|ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|mitochondrion morphogenesis (GO:0070584)|neuronal action potential (GO:0019228)|regulation of cell shape (GO:0008360)|sensory perception of sound (GO:0007605)|skeletal muscle atrophy (GO:0014732)|skeletal muscle contraction (GO:0003009)|skeletal muscle tissue development (GO:0007519)|vocalization behavior (GO:0071625)	actomyosin (GO:0042641)|axon (GO:0030424)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|growth cone (GO:0030426)|membrane (GO:0016020)|myosin II complex (GO:0016460)|myosin II filament (GO:0097513)|stress fiber (GO:0001725)	actin-dependent ATPase activity (GO:0030898)|ATP binding (GO:0005524)|microfilament motor activity (GO:0000146)			central_nervous_system(1)|cervix(2)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(10)|ovary(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	46		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		CAGTTTTGTCCGCTGCATTGT	0.612																																																0													31	34	33					19																	50760714		2136	4251	6387	SO:0001583	missense	79784			AY165122	CCDS46151.1, CCDS54295.1, CCDS59411.1	19q13.33	2011-09-27	2009-11-19			ENSG00000105357		"Myosins / Myosin superfamily : Class II"	23212	protein-coding gene	gene with protein product		608568	"myosin, heavy polypeptide 14", "myosin, heavy chain 14"	DFNA4		12909352, 15015131, 17940200	Standard	NM_024729		Approved	FLJ13881, KIAA2034, MHC16, MYH17	uc010enu.1	Q7Z406		ENST00000596571.1:c.2080C>T	19.37:g.50760714C>T	ENSP00000472819:p.Arg694Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1S2|C3TTN4|Q5CZ75|Q6XYE4|Q76B62|Q8WV23|Q96I22|Q9BT27|Q9BW35|Q9H882	Missense_Mutation	SNP	ENST00000596571.1	37	CCDS59411.1	.	.	.	.	.	.	.	.	.	.	C	25.7	4.660691	0.88154	.	.	ENSG00000105357	ENST00000301415;ENST00000440075;ENST00000376970;ENST00000425460;ENST00000376965;ENST00000262269	D;D;D;D	0.90732	-2.72;-2.72;-2.72;-2.72	4.51	4.51	0.55191	Myosin head, motor domain (2);	.	.	.	.	D	0.97315	0.9122	H	0.98701	4.305	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;0.996	D	0.98463	1.0597	9	0.87932	D	0	.	15.1131	0.72375	0.0:1.0:0.0:0.0	.	735;694;702	Q7Z406-2;Q7Z406;Q7Z406-6	.;MYH14_HUMAN;.	C	694;735;727;702;694;735	ENSP00000406273:R735C;ENSP00000366169:R727C;ENSP00000407879:R702C;ENSP00000262269:R735C	ENSP00000262269:R735C	R	+	1	0	MYH14	55452526	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.546000	0.82137	2.520000	0.84964	0.655000	0.94253	CGC		0.612	MYH14-008	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000464710.2	NM_024729		T	50760714	C	T	50760714	3	4	664	1	0	0	0	0	1	0	0	0	10040	652	23	1	2269	1	MYH14	19	50760714	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	212678	50760714	8368269	974	42284										
LRRC4B	94030	broad.mit.edu	37	chr19	51021776	51021776	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcatgagggtgccgttgggCgtcagccagttgacggaggt	18	8	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:51021776C>T	ENST00000599957.1	-	3	1391	c.1194G>A	c.(1192-1194)acG>acA	p.T398T	LRRC4B_ENST00000389201.3_Silent_p.T398T			Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B	398	Ig-like C2-type.				positive regulation of synapse assembly (GO:0051965)	cell junction (GO:0030054)|cerebellar mossy fiber (GO:0044300)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|synapse (GO:0045202)				breast(1)|central_nervous_system(1)|endometrium(4)|large_intestine(6)|liver(1)|lung(11)|prostate(4)|skin(1)|urinary_tract(1)	30		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		TGCCGTTGGGCGTCAGCCAGT	0.647																																																0													61	71	68					19																	51021776		2190	4279	6469	SO:0001819	synonymous_variant	94030			BC032460	CCDS42595.1	19q13.33	2014-01-30	2004-06-14	2004-06-16	ENSG00000131409	ENSG00000131409		"Immunoglobulin superfamily / I-set domain containing", "Endogenous ligands"	25042	protein-coding gene	gene with protein product	"netrin-G3 ligand"		"leucine-rich repeats and immunoglobulin-like domains 4"	LRIG4		11441184	Standard	NM_001080457		Approved	DKFZp761A179, HSM	uc002pss.3	Q9NT99		ENST00000599957.1:c.1194G>A	19.37:g.51021776C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q3ZCQ4|Q58F20	Silent	SNP	ENST00000599957.1	37	CCDS42595.1																																																																																				0.647	LRRC4B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464907.1	NM_001080457		T	51021776	C	T	51021776	2	4	664	1	0	0	0	0	0	0	0	1	9014	755	27	1		1	LRRC4B	19	51021776	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	261062	51021776	8107207	975	42285										
SIGLEC7	27036	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	51646040	51646040	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggaattataaatatgaccaGctctctgtgaacgtgacagg	10	7	1	3	rs541602063		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:51646040G>A	ENST00000317643.6	+	1	483	c.414G>A	c.(412-414)caG>caA	p.Q138Q	SIGLEC7_ENST00000305628.7_Silent_p.Q138Q|SIGLEC7_ENST00000600577.1_Silent_p.Q138Q	NM_014385.2	NP_055200.1	Q9Y286	SIGL7_HUMAN	sialic acid binding Ig-like lectin 7	138					cell adhesion (GO:0007155)	integral component of plasma membrane (GO:0005887)	carbohydrate binding (GO:0030246)|receptor activity (GO:0004872)			autonomic_ganglia(1)|breast(1)|endometrium(2)|kidney(1)|large_intestine(10)|lung(11)|skin(2)|stomach(1)	29		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000836)|OV - Ovarian serous cystadenocarcinoma(262;0.00297)		AATATGACCAGCTCTCTGTGA	0.483													.|||	1	0.000199681	0.0	0.0	5008	,	,		20713	0.001		0.0	False		,,,				2504	0.0															0													68	73	71					19																	51646040		2203	4300	6503	SO:0001819	synonymous_variant	27036			AF170485	CCDS12826.1, CCDS42601.1, CCDS62771.1	19q13.41	2014-03-20			ENSG00000168995	ENSG00000168995		"Sialic acid binding Ig-like lectins", "CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	10876	protein-coding gene	gene with protein product		604410	"sialic acid binding Ig-like lectin 19, pseudogene", "sialic acid binding Ig-like lectin, pseudogene 2"	SIGLEC19P, SIGLECP2		10567377	Standard	NM_001277201		Approved	SIGLEC-7, p75/AIRM1, QA79, CD328	uc002pvv.1	Q9Y286	OTTHUMG00000182895	ENST00000317643.6:c.414G>A	19.37:g.51646040G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NZQ1|Q9UJ86|Q9UJ87|Q9Y502	Silent	SNP	ENST00000317643.6	37	CCDS12826.1																																																																																				0.483	SIGLEC7-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464226.2	NM_016543		A	51646040	G	A	51646040	2	1	664	1	0	0	0	0	0	0	0	1	14326	962	34	2		2	SIGLEC7	19	51646040	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	624264	51646040	7482943	976	42286										
CD33	945	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	51738931	51738931	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accacagggtcagcctccccGgtgagtgatggggcatcctg	14	13	1	2	rs111722079		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:51738931G>A	ENST00000262262.4	+	6	945	c.924G>A	c.(922-924)ccG>ccA	p.P308P	CD33_ENST00000421133.2_Splice_Site_p.P181P|CD33_ENST00000391796.3_Splice_Site_p.P308P|CD33_ENST00000436584.2_Silent_p.P181P	NM_001772.3	NP_001763.3	P20138	CD33_HUMAN	CD33 molecule	308					cell adhesion (GO:0007155)|cell-cell signaling (GO:0007267)|negative regulation of cell proliferation (GO:0008285)|signal transduction (GO:0007165)	external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)|receptor activity (GO:0004872)			NS(1)|breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(3)|lung(15)|skin(1)|stomach(1)	24		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000224)|OV - Ovarian serous cystadenocarcinoma(262;0.00468)	Gemtuzumab ozogamicin(DB00056)	CAGCCTCCCCGGTGAGTGATG	0.597													g|||	1	0.000199681	0.0	0.0	5008	,	,		16666	0.0		0.001	False		,,,				2504	0.0															0								G	,,	0,4406		0,0,2203	68	58	61		543,924,924	2.7	0.8	19	dbSNP_132	61	8,8588	6.4+/-24.3	0,8,4290	yes	coding-synonymous-near-splice,coding-synonymous-near-splice,coding-synonymous-near-splice	CD33	NM_001082618.1,NM_001177608.1,NM_001772.3	,,	0,8,6493	AA,AG,GG		0.0931,0.0,0.0615	,,	181/238,308/311,308/365	51738931	8,12994	2203	4298	6501	SO:0001630	splice_region_variant	945			M23197	CCDS33084.1, CCDS46157.1, CCDS54299.1	19q13.3	2013-01-29	2006-03-28		ENSG00000105383	ENSG00000105383		"CD molecules", "Sialic acid binding Ig-like lectins", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	1659	protein-coding gene	gene with protein product	"sialic acid binding Ig-like lectin 3"	159590	"CD33 antigen (gp67)"			3139766, 9465907	Standard	NM_001772		Approved	SIGLEC3, SIGLEC-3, p67, FLJ00391	uc002pwa.2	P20138		ENST00000262262.4:c.924+1G>A	19.37:g.51738931G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4E3P8|C9JEN7|F8WAL2|Q8TD24	Silent	SNP	ENST00000262262.4	37	CCDS33084.1																																																																																				0.597	CD33-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000464199.2	NM_001772	Silent	A	51738931	G	A	51738931	5	1	664	1	0	0	0	0	0	0	1	0	3007	1130	39	1	946	1	CD33	19	51738931	Splice_Site	SNP	G	TCGA-KN-8428-01A-11D-2310-10	92891	51738931	7390052	977	42287										
HAS1	3036	hgsc.bcm.edu	37	chr19	52217097	52217097	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccgccttggccagtgccacGccctgcacgcacagcagcac	11	19	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:52217097G>A	ENST00000222115.1	-	5	1354	c.1320C>T	c.(1318-1320)ggC>ggT	p.G440G	HAS1_ENST00000601714.1_Silent_p.G447G|HAS1_ENST00000540069.2_Silent_p.G439G	NM_001523.2	NP_001514.2	Q92839	HYAS1_HUMAN	hyaluronan synthase 1	440					carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|cellular response to platelet-derived growth factor stimulus (GO:0036120)|extracellular matrix assembly (GO:0085029)|extracellular polysaccharide biosynthetic process (GO:0045226)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan metabolic process (GO:0030203)|hyaluronan biosynthetic process (GO:0030213)|hyaluronan metabolic process (GO:0030212)|negative regulation of fibroblast migration (GO:0010764)|small molecule metabolic process (GO:0044281)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	hyaluronan synthase activity (GO:0050501)			breast(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(13)|ovary(1)|pancreas(1)|prostate(1)|skin(4)	40		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00102)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		CCAGTGCCACGCCCTGCACGC	0.697																																					NSCLC(132;636 2450 45807 47979)											0													21	21	21					19																	52217097		2188	4289	6477	SO:0001819	synonymous_variant	3036			U59269	CCDS12838.1, CCDS74436.1	19q13.3-q13.4	2013-02-22			ENSG00000105509	ENSG00000105509	2.4.1.212	"Glycosyltransferase family 2 domain containing"	4818	protein-coding gene	gene with protein product		601463		HAS		9169154	Standard	XM_005258834		Approved		uc002pxo.1	Q92839		ENST00000222115.1:c.1320C>T	19.37:g.52217097G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q14470|Q9NS49	Silent	SNP	ENST00000222115.1	37	CCDS12838.1																																																																																				0.697	HAS1-005	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000466953.1	NM_001523		A	52217097	G	A	52217097	2	1	664	1	0	0	0	0	0	0	0	1	6968	1074	38	1		1	HAS1	19	52217097	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	478166	52217097	6911886	978	42288										
ZNF616	90317	broad.mit.edu;mdanderson.org	37	chr19	52619951	52619951	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttcataaagtctcccttcagTttgaactttctgcagttcag	6	10	5	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:52619951T>C	ENST00000600228.1	-	4	727	c.466A>G	c.(466-468)Act>Gct	p.T156A	ZNF616_ENST00000330123.5_3'UTR	NM_178523.3	NP_848618.2	Q08AN1	ZN616_HUMAN	zinc finger protein 616	156					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(4)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(14)|lung(14)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	48				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		CTCCCTTCAGTTTGAACTTTC	0.363																																																0													161	148	153					19																	52619951		2202	4300	6502	SO:0001583	missense	90317			AK092266	CCDS33090.1	19q13.41	2013-01-08				ENSG00000204611		"Zinc fingers, C2H2-type", "-"	28062	protein-coding gene	gene with protein product							Standard	NM_178523		Approved	MGC45556	uc002pym.3	Q08AN1		ENST00000600228.1:c.466A>G	19.37:g.52619951T>C	ENSP00000471000:p.Thr156Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRV1|Q0P658|Q658V7	Missense_Mutation	SNP	ENST00000600228.1	37	CCDS33090.1	.	.	.	.	.	.	.	.	.	.	T	15.07	2.723677	0.48728	.	.	ENSG00000204611	ENST00000330123	.	.	.	1.57	0.191	0.15130	.	.	.	.	.	T	0.49729	0.1574	M	0.75264	2.295	0.23727	N	0.997009	P	0.45569	0.861	P	0.51701	0.677	T	0.38001	-0.9681	8	0.45353	T	0.12	.	6.4896	0.22107	0.0:0.0:0.2421:0.7579	.	156	Q08AN1	ZN616_HUMAN	A	156	.	ENSP00000328722:T156A	T	-	1	0	ZNF616	57311763	0.000000	0.05858	0.011000	0.14972	0.036000	0.12997	0.067000	0.14510	0.701000	0.31803	0.254000	0.18369	ACT		0.363	ZNF616-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462451.1	XM_030892		C	52619951	T	C	52619951	3	2	664	1	0	0	0	0	1	0	0	0	18053	1725	60	3	1883	3	ZNF616	19	52619951	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	402854	52619951	6509032	979	42289										
ZNF534	147658	broad.mit.edu	37	chr19	52941908	52941908	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttggcaattcacgccttgcaCgacataggaaaattcatact	7	10	2	0	rs199880338		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:52941908C>T	ENST00000332323.6	+	4	1295	c.1234C>T	c.(1234-1236)Cga>Tga	p.R412*	ZNF534_ENST00000432303.2_Intron|ZNF534_ENST00000301085.4_Intron|ZNF534_ENST00000433050.1_Nonsense_Mutation_p.R399*	NM_001143939.1	NP_001137411.1	Q76KX8	ZN534_HUMAN	zinc finger protein 534	412					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|lung(1)|prostate(1)|skin(1)	4						ACGCCTTGCACGACATAGGAA	0.423													C|||	1	0.000199681	0.0	0.0	5008	,	,		23868	0.0		0.0	False		,,,				2504	0.001															0								C	stop/ARG,stop/ARG	0,1384		0,0,692	87	79	81		1195,1234	-2.5	0	19		81	1,3181		0,1,1590	no	stop-gained,stop-gained	ZNF534	NM_001143938.1,NM_001143939.1	,	0,1,2282	TT,TC,CC		0.0314,0.0,0.0219	,	399/662,412/675	52941908	1,4565	692	1591	2283	SO:0001587	stop_gained	147658			AK058073	CCDS46165.1, CCDS46166.1	19q13.41	2013-01-08	2004-02-06	2004-02-11	ENSG00000198633	ENSG00000198633		"Zinc fingers, C2H2-type", "-"	26337	protein-coding gene	gene with protein product			"KRAB domain only 3"	KRBO3			Standard	NM_001143938		Approved	FLJ25344	uc002pzk.3	Q76KX8	OTTHUMG00000156493	ENST00000332323.6:c.1234C>T	19.37:g.52941908C>T	ENSP00000327538:p.Arg412*	Somatic		WXS	Illumina HiSeq	Phase_I	Q76KX9	Nonsense_Mutation	SNP	ENST00000332323.6	37	CCDS46165.1	.	.	.	.	.	.	.	.	.	.	C	14.15	2.450957	0.43531	0.0	3.14E-4	ENSG00000198633	ENST00000332323;ENST00000433050;ENST00000391790	.	.	.	1.76	-2.52	0.06346	.	.	.	.	.	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	0.15499	T	0.54	.	0.327	0.00312	0.1935:0.2786:0.1922:0.3357	.	.	.	.	X	412;399;411	.	ENSP00000327538:R412X	R	+	1	2	ZNF534	57633720	0.000000	0.05858	0.000000	0.03702	0.024000	0.10985	-9.090000	0.00014	-0.646000	0.05452	0.411000	0.27672	CGA		0.423	ZNF534-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000460877.1	NM_182512		T	52941908	C	T	52941908	4	4	664	1	0	0	0	0	0	1	0	0	17985	528	19	1	1248	1	ZNF534	19	52941908	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	321957	52941908	6187075	980	42290										
TSEN34	79042	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr19	54696083	54696083	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcaaggccaggcccctggacTggcgtgtccagtctaaagac	12	13	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:54696083T>C	ENST00000396383.1	+	4	915	c.604T>C	c.(604-606)Tgg>Cgg	p.W202R	TSEN34_ENST00000302937.4_Missense_Mutation_p.W202R|TSEN34_ENST00000396388.2_Missense_Mutation_p.W202R|MBOAT7_ENST00000245615.1_5'Flank|MBOAT7_ENST00000391754.1_5'Flank|MBOAT7_ENST00000338624.6_5'Flank|TSEN34_ENST00000429671.2_Missense_Mutation_p.W202R|CTD-3093M3.1_ENST00000594382.1_lincRNA|MBOAT7_ENST00000474910.1_5'Flank|MBOAT7_ENST00000431666.2_5'Flank			Q9BSV6	SEN34_HUMAN	TSEN34 tRNA splicing endonuclease subunit	202					mRNA processing (GO:0006397)|tRNA-type intron splice site recognition and cleavage (GO:0000379)	tRNA-intron endonuclease complex (GO:0000214)	lyase activity (GO:0016829)|nucleic acid binding (GO:0003676)|tRNA-intron endonuclease activity (GO:0000213)			endometrium(1)|large_intestine(1)|lung(6)|prostate(1)|upper_aerodigestive_tract(1)	10	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GCCCCTGGACTGGCGTGTCCA	0.647																																					Esophageal Squamous(37;841 964 4869 42824)											0													53	56	55					19																	54696083		1873	4083	5956	SO:0001583	missense	79042			AF211970	CCDS42609.1, CCDS74446.1	19q13.4	2013-08-06	2013-08-06	2005-03-12	ENSG00000170892	ENSG00000170892		"tRNA splicing endonuclease subunits"	15506	protein-coding gene	gene with protein product		608754	"leukocyte receptor cluster (LRC) member 5", "tRNA splicing endonuclease 34 homolog (SEN34, S. cerevisiae)", "tRNA splicing endonuclease 34 homolog (S. cerevisiae)"	LENG5		10941842, 15109492	Standard	NM_024075		Approved	SEN34, SEN34L	uc002qdw.3	Q9BSV6	OTTHUMG00000066515	ENST00000396383.1:c.604T>C	19.37:g.54696083T>C	ENSP00000379667:p.Trp202Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNB1|B0V3J1|Q9BVT1|Q9H6H5	Missense_Mutation	SNP	ENST00000396383.1	37	CCDS42609.1	.	.	.	.	.	.	.	.	.	.	T	12.83	2.054183	0.36277	.	.	ENSG00000170892	ENST00000455798;ENST00000456872;ENST00000302937;ENST00000429671;ENST00000396383;ENST00000396388	T;T;T;T;T;T	0.62941	-0.01;0.02;0.03;0.02;0.03;0.03	4.56	4.56	0.56223	.	0.135233	0.53938	D	0.000042	T	0.41534	0.1163	N	0.24115	0.695	0.33529	D	0.593424	B;B	0.31968	0.15;0.349	B;B	0.24848	0.041;0.056	T	0.50701	-0.8797	10	0.10377	T	0.69	.	11.7599	0.51896	0.0:0.0:0.0:1.0	.	202;202	E7EQB3;Q9BSV6	.;SEN34_HUMAN	R	202;205;202;202;202;202	ENSP00000400743:W202R;ENSP00000408689:W205R;ENSP00000305524:W202R;ENSP00000397402:W202R;ENSP00000379667:W202R;ENSP00000379671:W202R	ENSP00000305524:W202R	W	+	1	0	TSEN34	59387895	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.144000	0.31565	1.842000	0.53543	0.459000	0.35465	TGG		0.647	TSEN34-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000142200.1	NM_024075		C	54696083	T	C	54696083	3	2	664	1	0	0	0	0	1	0	0	0	16625	1580	55	3	614	3	TSEN34	19	54696083	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1754175	54696083	4432900	981	42291										
LENG8	114823	hgsc.bcm.edu;mdanderson.org	37	chr19	54966579	54966579	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gggaacctgtctgggaagccCgatgactggccccaggacat	14	12	1	1	rs889147	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:54966579C>T	ENST00000326764.5	+	8	1337	c.858C>T	c.(856-858)ccC>ccT	p.P286P	LENG8_ENST00000376514.2_Intron	NM_052925.2	NP_443157.1	Q96PV6	LENG8_HUMAN	leukocyte receptor cluster (LRC) member 8	249										breast(1)|central_nervous_system(3)|endometrium(3)|kidney(1)|large_intestine(6)|lung(9)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	30	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		CTGGGAAGCCCGATGACTGGC	0.617																																																0													51	59	56					19																	54966579		2202	4300	6502	SO:0001819	synonymous_variant	114823			AF211975	CCDS12894.1	19q13.4	2008-02-05			ENSG00000167615	ENSG00000167615			15500	protein-coding gene	gene with protein product						10941842	Standard	XM_005278248		Approved	KIAA1932, MGC40108, pp13842	uc002qfw.2	Q96PV6	OTTHUMG00000065548	ENST00000326764.5:c.858C>T	19.37:g.54966579C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0VJY9|Q8IZ27|Q8NCX6	Silent	SNP	ENST00000326764.5	37	CCDS12894.1																																																																																				0.617	LENG8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140523.2	NM_052925		T	54966579	C	T	54966579	2	4	664	1	0	0	0	0	0	0	0	1	8731	639	23	1		1	LENG8	19	54966579	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	270496	54966579	4162404	982	42292										
KIR3DL3	115653	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr19	55239156	55239156	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acggtcatcctgcaatgttgGtcagatgtcaggtttgagcg	13	8	3	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:55239156G>A	ENST00000291860.1	+	4	453	c.435G>A	c.(433-435)tgG>tgA	p.W145*	KIR3DL1_ENST00000538269.1_Intron|KIR2DL4_ENST00000396284.2_Intron|KIR3DL1_ENST00000541392.1_Intron|CTB-61M7.1_ENST00000400864.3_RNA|KIR3DL1_ENST00000402254.2_Intron	NM_153443.3	NP_703144.2	Q8N743	KI3L3_HUMAN	killer cell immunoglobulin-like receptor, three domains, long cytoplasmic tail, 3	145	Ig-like C2-type 2. {ECO:0000305}.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(5)|ovary(3)|prostate(1)|skin(1)	21				GBM - Glioblastoma multiforme(193;0.0192)		TGCAATGTTGGTCAGATGTCA	0.572																																																0													30	24	26					19																	55239156		1948	3303	5251	SO:0001587	stop_gained	115653			AF352324	CCDS12903.1	19q13.4	2014-05-22			ENSG00000242019	ENSG00000242019		"Killer cell immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	16312	protein-coding gene	gene with protein product		610095				11513144	Standard	NM_153443		Approved	KIRC1, KIR3DL7, KIR44, CD158z	uc002qgu.1	Q8N743	OTTHUMG00000065884	ENST00000291860.1:c.435G>A	19.37:g.55239156G>A	ENSP00000291860:p.Trp145*	Somatic		WXS	Illumina HiSeq	Phase_I	A9PL62|A9PL64|A9PL65|A9PL66|A9PL67|A9PL68|A9PZV4|A9PZV7|A9PZV8|A9Q066|A9Q0R5|A9Q242|A9Q250|A9Q251|O95056|Q1X775|Q1X777|Q1X778|Q1X779|Q1X780|Q1X781|Q1X782|Q1X783|Q7Z7N4|Q8NHI2|Q8NHI3|Q9UEI4	Nonsense_Mutation	SNP	ENST00000291860.1	37	CCDS12903.1	.	.	.	.	.	.	.	.	.	.	N	11.70	1.716055	0.30413	.	.	ENSG00000242019	ENST00000291860	.	.	.	1.38	-2.75	0.05914	.	1.619910	0.04495	U	0.380315	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	3.4034	0.07332	0.0:0.3197:0.4555:0.2248	.	.	.	.	X	145	.	ENSP00000291860:W145X	W	+	3	0	KIR3DL3	59930968	0.001000	0.12720	0.000000	0.03702	0.051000	0.14879	-0.574000	0.05868	-0.726000	0.04895	0.205000	0.17691	TGG		0.572	KIR3DL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000141147.1	NM_153443		A	55239156	G	A	55239156	4	1	664	1	0	0	0	0	0	1	0	0	8329	1270	44	2	449	2	KIR3DL3	19	55239156	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	272577	55239156	3889827	983	42293										
ZNF628	89887	mdanderson.org	37	chr19	55995597	55995597	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caggcccagcctcgggccccGcggggctccccggggctcca	15	20	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:55995597G>A	ENST00000598519.1	+	3	3590	c.3037G>A	c.(3037-3039)Gcg>Acg	p.A1013T	ZNF628_ENST00000391718.2_Missense_Mutation_p.A1009T|NAT14_ENST00000591590.1_5'Flank|NAT14_ENST00000205194.4_5'Flank|NAT14_ENST00000587400.1_5'Flank			Q5EBL2	ZN628_HUMAN	zinc finger protein 628	1013					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(4)|kidney(1)|lung(2)	7	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0531)		CTCGGGCCCCGCGGGGCTCCC	0.716																																																0													3	3	3					19																	55995597		1920	3767	5687	SO:0001583	missense	89887			AF367249	CCDS33116.3	19q13.43	2013-01-08			ENSG00000197483	ENSG00000197483		"Zinc fingers, C2H2-type"	28054	protein-coding gene	gene with protein product	"Zinc finger expressed in Embryonal cells and Certain adult organs"	610671					Standard	NM_033113		Approved	ZEC, Zfp628	uc002qld.3	Q5EBL2	OTTHUMG00000150396	ENST00000598519.1:c.3037G>A	19.37:g.55995597G>A	ENSP00000469591:p.Ala1013Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q86X34	Missense_Mutation	SNP	ENST00000598519.1	37	CCDS33116.3	.	.	.	.	.	.	.	.	.	.	.	7.440	0.640533	0.14386	.	.	ENSG00000197483	ENST00000391718	T	0.07908	3.15	2.98	1.92	0.25849	.	0.899723	0.09173	N	0.838513	T	0.04407	0.0121	N	0.08118	0	0.09310	N	1	B	0.16166	0.016	B	0.06405	0.002	T	0.41233	-0.9520	10	0.41790	T	0.15	-0.551	5.8577	0.18728	0.1534:0.0:0.8466:0.0	.	1009	Q5EBL2	ZN628_HUMAN	T	1009	ENSP00000375598:A1009T	ENSP00000375598:A1009T	A	+	1	0	ZNF628	60687409	0.000000	0.05858	0.000000	0.03702	0.010000	0.07245	0.543000	0.23237	0.601000	0.29879	0.472000	0.43445	GCG		0.716	ZNF628-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000317934.2	XM_058964		A	55995597	G	A	55995597	3	1	664	1	0	0	0	0	1	0	0	0	18064	1087	38	1	3027	1	ZNF628	19	55995597	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	756441	55995597	3133386	984	42294										
ZNF835	90485	mdanderson.org	37	chr19	57175578	57175578	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgcacgcgtagggcttctcgCctgtgtggatgcgccggtgc	16	13	1	0	rs12610410	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:57175578C>T	ENST00000537055.2	-	2	1220	c.989G>A	c.(988-990)gGc>gAc	p.G330D		NM_001005850.2	NP_001005850.2	Q9Y2P0	ZN835_HUMAN	zinc finger protein 835	330					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(10)|lung(22)|pancreas(3)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)	47						GGGCTTCTCGCCTGTGTGGAT	0.706													.|||	598	0.119409	0.0817	0.0692	5008	,	,		17838	0.1667		0.1223	False		,,,				2504	0.1544															0								C	ASP/GLY	316,4088		23,270,1909	19	19	19		989	2.1	0	19	dbSNP_120	19	1177,7417		79,1019,3199	yes	missense	ZNF835	NM_001005850.2	94	102,1289,5108	TT,TC,CC		13.6956,7.1753,11.4864	probably-damaging	330/538	57175578	1493,11505	2202	4297	6499	SO:0001583	missense	90485			AK023017	CCDS56105.1	19q13.43	2013-01-08			ENSG00000127903	ENSG00000127903		"Zinc fingers, C2H2-type"	34332	protein-coding gene	gene with protein product							Standard	NM_001005850		Approved	BC37295_3	uc010ygn.2	Q9Y2P0		ENST00000537055.2:c.989G>A	19.37:g.57175578C>T	ENSP00000444747:p.Gly330Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z5Y0|G3V1S0	Missense_Mutation	SNP	ENST00000537055.2	37	CCDS56105.1	263	0.12042124542124542	54	0.10975609756097561	25	0.06906077348066299	99	0.17307692307692307	85	0.11213720316622691	C	21.3	4.123991	0.77436	0.071753	0.136956	ENSG00000127903	ENST00000342088;ENST00000537055	T	0.26660	1.72	2.12	2.12	0.27331	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.00178	0.0005	M	0.64676	1.99	0.31405	P	0.676168	D	0.89917	1.0	D	0.85130	0.997	T	0.09707	-1.0662	8	0.66056	D	0.02	.	11.9519	0.52961	0.0:1.0:0.0:0.0	rs12610410	352	Q9Y2P0	ZN835_HUMAN	D	352;330	ENSP00000444747:G330D	ENSP00000341756:G352D	G	-	2	0	ZNF835	61867390	0.926000	0.31397	0.003000	0.11579	0.279000	0.26890	4.604000	0.61112	1.502000	0.48669	0.561000	0.74099	GGC		0.706	ZNF835-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459800.1	NM_001005850		T	57175578	C	T	57175578	3	4	664	1	0	0	0	0	1	0	0	0	18198	739	26	2	626	2	ZNF835	19	57175578	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1179981	57175578	1953405	985	42295										
ZIM3	114026	broad.mit.edu	37	chr19	57647366	57647366	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cattctacacctttctgcgtAgtcagcgtttccttattgat	6	11	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:57647366A>G	ENST00000269834.1	-	5	724	c.339T>C	c.(337-339)acT>acC	p.T113T	U3_ENST00000516874.1_RNA	NM_052882.1	NP_443114.1	Q96PE6	ZIM3_HUMAN	zinc finger, imprinted 3	113					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(3)|kidney(2)|large_intestine(13)|lung(27)|pancreas(1)|prostate(3)|skin(1)|urinary_tract(1)	52		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)		CTTTCTGCGTAGTCAGCGTTT	0.413																																																0													203	197	199					19																	57647366		2203	4300	6503	SO:0001819	synonymous_variant	114026			AF365931	CCDS33125.1	19q13.4	2013-01-08				ENSG00000141946		"Zinc fingers, C2H2-type", "-"	16366	protein-coding gene	gene with protein product							Standard	NM_052882		Approved	ZNF657	uc002qnz.1	Q96PE6		ENST00000269834.1:c.339T>C	19.37:g.57647366A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q14CA6	Silent	SNP	ENST00000269834.1	37	CCDS33125.1																																																																																				0.413	ZIM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465078.1			G	57647366	A	G	57647366	2	3	664	1	0	0	0	0	0	0	0	1	17697	407	15	3		3	ZIM3	19	57647366	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	471788	57647366	1481617	986	42296										
ZNF805	390980	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr19	57765510	57765510	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccttcacccactgctctacTttcatcttgcataaaagggc	6	14	4	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:57765510T>G	ENST00000414468.2	+	4	1323	c.1323T>G	c.(1321-1323)acT>acG	p.T441T	ZNF805_ENST00000354309.4_Silent_p.T308T|ZNF805_ENST00000535550.1_Silent_p.T308T	NM_001023563.3	NP_001018857.2	Q5CZA5	ZN805_HUMAN	zinc finger protein 805	441					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(3)|kidney(3)|lung(1)|stomach(1)	9						ACTGCTCTACTTTCATCTTGC	0.498																																																0													48	49	49					19																	57765510		692	1591	2283	SO:0001819	synonymous_variant	390980			AF024708	CCDS46207.1, CCDS46208.1	19q13.43	2013-01-08			ENSG00000204524	ENSG00000204524		"Zinc fingers, C2H2-type", "-"	23272	protein-coding gene	gene with protein product							Standard	NM_001023563		Approved		uc010ygt.2	Q5CZA5		ENST00000414468.2:c.1323T>G	19.37:g.57765510T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DNM5	Silent	SNP	ENST00000414468.2	37	CCDS46207.1																																																																																				0.498	ZNF805-002	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465722.1	NM_001023563		G	57765510	T	G	57765510	2	3	664	1	0	0	0	0	0	0	0	1	18184	1596	56	5		5	ZNF805	19	57765510	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	118144	57765510	1363473	987	42297										
ZNF773	374928	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	58017797	58017797	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tagaagtgcccagttcaaacGttcagcaacaccagaagcag	9	11	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:58017797G>A	ENST00000282292.4	+	4	474	c.334G>A	c.(334-336)Gtt>Att	p.V112I	ZNF773_ENST00000599847.1_Intron|ZNF773_ENST00000598770.1_Missense_Mutation_p.V111I|ZNF773_ENST00000593916.1_Intron	NM_198542.1	NP_940944.1	Q6PK81	ZN773_HUMAN	zinc finger protein 773	112					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(6)|ovary(1)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	22		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)		CAGTTCAAACGTTCAGCAACA	0.488																																																0													94	96	95					19																	58017797		2203	4300	6503	SO:0001583	missense	374928			BC005167	CCDS33134.1	19q13.43	2013-01-08	2006-12-15	2006-12-15		ENSG00000152439		"Zinc fingers, C2H2-type", "-"	30487	protein-coding gene	gene with protein product			"zinc finger protein 419B"	ZNF419B		12477932	Standard	NM_198542		Approved	MGC4728	uc002qox.3	Q6PK81		ENST00000282292.4:c.334G>A	19.37:g.58017797G>A	ENSP00000282292:p.Val112Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q96DL8	Missense_Mutation	SNP	ENST00000282292.4	37	CCDS33134.1	.	.	.	.	.	.	.	.	.	.	G	5.699	0.313462	0.10789	.	.	ENSG00000152439	ENST00000282292	T	0.05855	3.38	1.25	-1.2	0.09554	.	.	.	.	.	T	0.02767	0.0083	N	0.11560	0.145	0.09310	N	1	B;B	0.09022	0.001;0.002	B;B	0.04013	0.001;0.0	T	0.44112	-0.9349	9	0.49607	T	0.09	.	0.4362	0.00479	0.2328:0.3037:0.2641:0.1993	.	111;112	Q6PK81-2;Q6PK81	.;ZN773_HUMAN	I	112	ENSP00000282292:V112I	ENSP00000282292:V112I	V	+	1	0	ZNF773	62709609	0.000000	0.05858	0.001000	0.08648	0.366000	0.29705	-1.381000	0.02549	-0.307000	0.08804	0.313000	0.20887	GTT		0.488	ZNF773-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000466475.1	NM_198542		A	58017797	G	A	58017797	3	1	664	1	0	0	0	0	1	0	0	0	18158	1145	40	1	348	1	ZNF773	19	58017797	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	252287	58017797	1111186	988	42298										
ZNF776	284309	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr19	58264681	58264681	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgttggtatggagcaaaagaCgagacaccttctaagcagac	11	8	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr19:58264681C>T	ENST00000317178.5	+	3	446	c.183C>T	c.(181-183)gaC>gaT	p.D61D	ZNF776_ENST00000431353.1_3'UTR|AC003006.7_ENST00000594684.1_Silent_p.D61D	NM_173632.3	NP_775903.3	Q68DI1	ZN776_HUMAN	zinc finger protein 776	61	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			cervix(1)|endometrium(2)|kidney(13)|large_intestine(3)|lung(7)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	31		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)		GAGCAAAAGACGAGACACCTT	0.443																																																0													122	124	123					19																	58264681		2203	4300	6503	SO:0001819	synonymous_variant	284309			AK095607	CCDS12962.2	19q13.43	2013-01-08			ENSG00000152443	ENSG00000152443		"Zinc fingers, C2H2-type", "-"	26765	protein-coding gene	gene with protein product							Standard	NM_173632		Approved	FLJ38288		Q68DI1	OTTHUMG00000156943	ENST00000317178.5:c.183C>T	19.37:g.58264681C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZS36|Q8N968	Silent	SNP	ENST00000317178.5	37	CCDS12962.2																																																																																				0.443	ZNF776-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346722.2	NM_173632		T	58264681	C	T	58264681	2	4	664	1	0	0	0	0	0	0	0	1	18161	535	19	1		1	ZNF776	19	58264681	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	246884	58264681	864302	989	42299										
RBCK1	10616	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr20	398443	398443	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgggcagcggctggcacgagAccaggagaccctgcactccc	14	15	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:398443A>T	ENST00000356286.5	+	4	1034	c.329A>T	c.(328-330)gAc>gTc	p.D110V	RBCK1_ENST00000353660.3_Missense_Mutation_p.D68V|RBCK1_ENST00000382181.2_5'UTR	NM_031229.2	NP_112506.2	Q9BYM8	HOIL1_HUMAN	RanBP-type and C3HC4-type zinc finger containing 1	110	Interaction with IRF3.|Interaction with RNF31.|Interaction with TAB2.|Ubiquitin-like. {ECO:0000255|PROSITE- ProRule:PRU00214}.				negative regulation of necroptotic process (GO:0060546)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|positive regulation of apoptotic process (GO:0043065)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB import into nucleus (GO:0042346)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein linear polyubiquitination (GO:0097039)|protein polyubiquitination (GO:0000209)|T cell receptor signaling pathway (GO:0050852)|viral process (GO:0016032)	LUBAC complex (GO:0071797)	ligase activity (GO:0016874)|ubiquitin binding (GO:0043130)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			kidney(1)|lung(4)	5		all_epithelial(17;0.172)|Lung NSC(37;0.191)|Breast(17;0.231)				CTGGCACGAGACCAGGAGACC	0.612																																																0													48	41	43					20																	398443		2203	4300	6503	SO:0001583	missense	10616			U67322	CCDS12998.1, CCDS13000.2	20p13	2014-09-17	2006-06-28	2006-06-28	ENSG00000125826	ENSG00000125826		"RING-type (C3HC4) zinc fingers", "Zinc fingers, RAN-binding domain containing"	15864	protein-coding gene	gene with protein product	"heme-oxidized IRP2 ubiquitin ligase 1"	610924	"chromosome 20 open reading frame 18"	C20orf18			Standard	NM_031229		Approved	RBCK2, XAP4, RNF54, ZRANB4, UBCE7IP3, HOIL1	uc002wdp.4	Q9BYM8	OTTHUMG00000031634	ENST00000356286.5:c.329A>T	20.37:g.398443A>T	ENSP00000348632:p.Asp110Val	Somatic		WXS	Illumina HiSeq	Phase_I	O95623|Q86SL2|Q96BS3|Q9BYM9	Missense_Mutation	SNP	ENST00000356286.5	37	CCDS13000.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	23.8|23.8	4.453339|4.453339	0.84209|0.84209	.|.	.|.	ENSG00000125826|ENSG00000125826	ENST00000411647;ENST00000356286;ENST00000441733;ENST00000353660;ENST00000400244;ENST00000400243|ENST00000414880	T;T;T;T|.	0.22945|.	1.93;1.93;1.93;1.93|.	4.77|4.77	4.77|4.77	0.60923|0.60923	Ubiquitin supergroup (1);|.	0.051204|.	0.85682|.	D|.	0.000000|.	T|T	0.71634|0.71634	0.3363|0.3363	M|M	0.73217|0.73217	2.22|2.22	0.80722|0.80722	D|D	1|1	D;D;D|.	0.89917|.	1.0;1.0;0.997|.	D;D;D|.	0.91635|.	0.999;0.986;0.925|.	T|T	0.72388|0.72388	-0.4309|-0.4309	10|5	0.87932|.	D|.	0|.	-22.682|-22.682	12.5534|12.5534	0.56240|0.56240	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	100;68;110|.	B4E0F5;Q9BYM8-3;Q9BYM8|.	.;.;HOIL1_HUMAN|.	V|S	110;110;109;68;110;151|143	ENSP00000415080:D110V;ENSP00000348632:D110V;ENSP00000387799:D109V;ENSP00000254960:D68V|.	ENSP00000254960:D68V|.	D|T	+|+	2|1	0|0	RBCK1|RBCK1	346443|346443	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.994000|0.994000	0.84299|0.84299	5.134000|5.134000	0.64770|0.64770	2.131000|2.131000	0.65755|0.65755	0.374000|0.374000	0.22700|0.22700	GAC|ACC		0.612	RBCK1-010	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077461.3	NM_031229		T	398443	A	T	398443	3	4	664	1	0	0	0	0	1	0	0	0	13120	275	10	5	362	5	RBCK1	20	398443	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10		398443	62627077	990	42300										
TBC1D20	128637	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr20	420958	420958	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagtcatataaccgcacgacGtgcctgaagtcagacaggac	10	11	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:420958G>A	ENST00000354200.4	-	6	849	c.702C>T	c.(700-702)caC>caT	p.H234H	TBC1D20_ENST00000461188.1_5'UTR	NM_144628.2	NP_653229.1	Q96BZ9	TBC20_HUMAN	TBC1 domain family, member 20	234	Rab-GAP TBC. {ECO:0000255|PROSITE- ProRule:PRU00163}.				acrosome assembly (GO:0001675)|cargo loading into COPII-coated vesicle (GO:0090110)|ER to Golgi vesicle-mediated transport (GO:0006888)|Golgi organization (GO:0007030)|lens fiber cell morphogenesis (GO:0070309)|lipid particle organization (GO:0034389)|positive regulation of ER to Golgi vesicle-mediated transport (GO:1902953)|positive regulation of GTP catabolic process (GO:0033126)|positive regulation of Rab GTPase activity (GO:0032851)|seminiferous tubule development (GO:0072520)|virion assembly (GO:0019068)	endoplasmic reticulum membrane (GO:0005789)|integral component of Golgi membrane (GO:0030173)|nuclear membrane (GO:0031965)	Rab GTPase activator activity (GO:0005097)|Rab GTPase binding (GO:0017137)			central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(2)|skin(1)|upper_aerodigestive_tract(1)	12		all_epithelial(17;0.228)|Breast(17;0.231)				ACCGCACGACGTGCCTGAAGT	0.552																																																0													111	89	96					20																	420958		2203	4300	6503	SO:0001819	synonymous_variant	128637			AK055573	CCDS13002.1	20p13	2013-07-10	2005-01-05	2005-01-05	ENSG00000125875	ENSG00000125875			16133	protein-coding gene	gene with protein product		611663	"chromosome 20 open reading frame 140"	C20orf140		17901050	Standard	XM_005260661		Approved	dJ852M4.2	uc002wds.3	Q96BZ9	OTTHUMG00000031637	ENST00000354200.4:c.702C>T	20.37:g.420958G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6I3|B9A6M1|Q5JWQ7|Q6ZSY8|Q96NE1|Q9BYM7|Q9H140	Silent	SNP	ENST00000354200.4	37	CCDS13002.1																																																																																				0.552	TBC1D20-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251397.2	NM_144628		A	420958	G	A	420958	2	1	664	1	0	0	0	0	0	0	0	1	15621	1136	40	1		1	TBC1D20	20	420958	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	22515	420958	62604562	991	42301										
FAM110A	83541	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	826273	826273	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cggtggtggagcgcaatgccCgcgtgatcaagtggttgtat	16	8	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:826273C>T	ENST00000304189.2	+	3	1207	c.826C>T	c.(826-828)Cgc>Tgc	p.R276C	FAM110A_ENST00000381941.3_Missense_Mutation_p.R276C|FAM110A_ENST00000381939.1_Missense_Mutation_p.R276C|FAM110A_ENST00000541082.1_Missense_Mutation_p.R276C|FAM110A_ENST00000246100.3_Missense_Mutation_p.R276C			Q9BQ89	F110A_HUMAN	family with sequence similarity 110, member A	276						cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)				breast(1)|lung(2)	3						GCGCAATGCCCGCGTGATCAA	0.657																																																0													54	63	60					20																	826273		2203	4300	6503	SO:0001583	missense	83541			BC012800	CCDS13008.1	20p13	2007-06-21	2007-03-21	2007-03-21	ENSG00000125898	ENSG00000125898			16188	protein-coding gene	gene with protein product		611393	"chromosome 20 open reading frame 55"	C20orf55		17499476	Standard	NM_001042353		Approved	bA371L19.3	uc002wef.1	Q9BQ89	OTTHUMG00000031649	ENST00000304189.2:c.826C>T	20.37:g.826273C>T	ENSP00000354163:p.Arg276Cys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVW2|Q5R1M7	Missense_Mutation	SNP	ENST00000304189.2	37	CCDS13008.1	.	.	.	.	.	.	.	.	.	.	.	23.2	4.389789	0.82902	.	.	ENSG00000125898	ENST00000381941;ENST00000304189;ENST00000381939;ENST00000246100;ENST00000541082	T;T;T;T;T	0.71817	-0.6;-0.6;-0.6;-0.6;-0.6	4.38	4.38	0.52667	.	0.000000	0.64402	D	0.000006	D	0.84745	0.5540	M	0.83384	2.64	0.58432	D	0.999996	D	0.89917	1.0	D	0.91635	0.999	D	0.87576	0.2481	10	0.87932	D	0	-3.4911	15.6478	0.77068	0.0:1.0:0.0:0.0	.	276	Q9BQ89	F110A_HUMAN	C	276	ENSP00000371367:R276C;ENSP00000354163:R276C;ENSP00000371365:R276C;ENSP00000246100:R276C;ENSP00000445228:R276C	ENSP00000246100:R276C	R	+	1	0	FAM110A	774273	0.955000	0.32602	1.000000	0.80357	0.987000	0.75469	1.451000	0.35145	2.269000	0.75478	0.484000	0.47621	CGC		0.657	FAM110A-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077489.1	NM_031424		T	826273	C	T	826273	3	4	664	1	0	0	0	0	1	0	0	0	5400	652	23	1	828	1	FAM110A	20	826273	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	405315	826273	62199247	992	42302										
SNRPB	6628	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	2442418	2442418	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagtctagggccttggtgggCgcattcccgggggagggggc	21	9	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:2442418C>T	ENST00000438552.2	-	7	869	c.707G>A	c.(706-708)cGc>cAc	p.R236H	SNORD119_ENST00000515997.1_RNA|SNRPB_ENST00000381342.2_3'UTR	NM_198216.1	NP_937859.1	P14678	RSMB_HUMAN	small nuclear ribonucleoprotein polypeptides B and B1	236	Repeat-rich region.				gene expression (GO:0010467)|histone mRNA metabolic process (GO:0008334)|mRNA 3'-end processing (GO:0031124)|mRNA splicing, via spliceosome (GO:0000398)|ncRNA metabolic process (GO:0034660)|RNA metabolic process (GO:0016070)|RNA splicing (GO:0008380)|spliceosomal snRNP assembly (GO:0000387)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	catalytic step 2 spliceosome (GO:0071013)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|histone pre-mRNA 3'end processing complex (GO:0071204)|methylosome (GO:0034709)|nucleoplasm (GO:0005654)|small nuclear ribonucleoprotein complex (GO:0030532)|SMN-Sm protein complex (GO:0034719)|spliceosomal complex (GO:0005681)|U1 snRNP (GO:0005685)|U12-type spliceosomal complex (GO:0005689)|U4 snRNP (GO:0005687)|U7 snRNP (GO:0005683)	histone pre-mRNA DCP binding (GO:0071208)|poly(A) RNA binding (GO:0044822)	p.R236H(1)		kidney(1)|large_intestine(2)|lung(4)|ovary(1)|skin(1)|urinary_tract(1)	10						CCTTGGTGGGCGCATTCCCGG	0.542																																																1	Substitution - Missense(1)	kidney(1)											47	51	50					20																	2442418		2203	4300	6503	SO:0001583	missense	6628				CCDS13026.1, CCDS13027.1	20p13	2011-10-11			ENSG00000125835	ENSG00000125835			11153	protein-coding gene	gene with protein product		182282		SNRPB1		1376292	Standard	NM_003091		Approved	COD, SmB/SmB', Sm-B/B', snRNP-B	uc002wfz.1	P14678	OTTHUMG00000031694	ENST00000438552.2:c.707G>A	20.37:g.2442418C>T	ENSP00000412566:p.Arg236His	Somatic		WXS	Illumina HiSeq	Phase_I	Q15490|Q6IB35|Q9UIS5	Missense_Mutation	SNP	ENST00000438552.2	37	CCDS13026.1	.	.	.	.	.	.	.	.	.	.	C	12.29	1.892568	0.33442	.	.	ENSG00000125835	ENST00000438552;ENST00000303103	T	0.44881	0.91	4.7	1.51	0.23008	.	0.298090	0.36338	N	0.002646	T	0.26195	0.0639	N	0.24115	0.695	0.80722	D	1	B	0.02656	0.0	B	0.01281	0.0	T	0.06534	-1.0821	10	0.87932	D	0	.	7.9054	0.29759	0.0:0.7006:0.0:0.2994	.	236	P14678	RSMB_HUMAN	H	236;284	ENSP00000412566:R236H	ENSP00000303591:R284H	R	-	2	0	SNRPB	2390418	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	1.285000	0.33261	0.234000	0.21139	0.561000	0.74099	CGC		0.542	SNRPB-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000077585.2			T	2442418	C	T	2442418	3	4	664	1	0	0	0	0	1	0	0	0	14874	768	27	1	19	1	SNRPB	20	2442418	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1616145	2442418	60583102	993	42303										
ZNF343	79175	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr20	2464066	2464066	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaggcttctcatttgagtgcGtcctctggtgtctgatgaga	12	8	3	3	rs139834625	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:2464066G>A	ENST00000278772.4	-	6	2028	c.1541C>T	c.(1540-1542)aCg>aTg	p.T514M	RP4-734P14.4_ENST00000461548.1_Intron	NM_001282495.1|NM_001282496.1|NM_024325.4	NP_001269424.1|NP_001269425.1|NP_077301.4	Q6P1L6	ZN343_HUMAN	zinc finger protein 343	514					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|lung(11)|skin(4)|upper_aerodigestive_tract(1)	25						ATTTGAGTGCGTCCTCTGGTG	0.493													G|||	24	0.00479233	0.0166	0.0014	5008	,	,		21849	0.0		0.001	False		,,,				2504	0.0															0								G	MET/THR	37,4369	42.3+/-75.8	0,37,2166	132	121	125		1541	-4.2	0	20	dbSNP_134	125	0,8600		0,0,4300	yes	missense	ZNF343	NM_024325.4	81	0,37,6466	AA,AG,GG		0.0,0.8398,0.2845	probably-damaging	514/600	2464066	37,12969	2203	4300	6503	SO:0001583	missense	79175			AK096911	CCDS13028.1, CCDS74692.1, CCDS74693.1, CCDS74694.1	20p13	2013-01-08			ENSG00000088876	ENSG00000088876		"Zinc fingers, C2H2-type", "-"	16017	protein-coding gene	gene with protein product							Standard	NM_001282498		Approved	MGC10715	uc002wge.1	Q6P1L6	OTTHUMG00000031701	ENST00000278772.4:c.1541C>T	20.37:g.2464066G>A	ENSP00000278772:p.Thr514Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JXU8|Q5JXU9|Q8N8F2|Q96EX8|Q96NA5|Q9BQB0	Missense_Mutation	SNP	ENST00000278772.4	37	CCDS13028.1	8	0.003663003663003663	7	0.014227642276422764	0	0.0	0	0.0	1	0.0013192612137203166	G	11.96	1.794078	0.31777	0.008398	0.0	ENSG00000088876	ENST00000278772	T	0.54279	0.58	2.57	-4.18	0.03846	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.53384	0.1793	L	0.53561	1.675	0.09310	N	1	D	0.89917	1.0	D	0.77557	0.99	T	0.57236	-0.7846	9	0.59425	D	0.04	.	9.4035	0.38447	0.7197:0.0:0.2803:0.0	.	514	Q6P1L6	ZN343_HUMAN	M	514	ENSP00000278772:T514M	ENSP00000278772:T514M	T	-	2	0	ZNF343	2412066	0.000000	0.05858	0.000000	0.03702	0.019000	0.09904	-0.510000	0.06328	-1.297000	0.02351	-0.216000	0.12614	ACG		0.493	ZNF343-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077617.1	NM_024325		A	2464066	G	A	2464066	3	1	664	1	0	0	0	0	1	0	0	0	17870	1145	40	1	262	1	ZNF343	20	2464066	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	21648	2464066	60561454	994	42304										
TMC2	117532	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	2560637	2560637	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	catcgtatttcatctttctcCgatggatgtatggagttaac	8	8	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:2560637C>T	ENST00000358864.1	+	7	784	c.769C>T	c.(769-771)Cga>Tga	p.R257*		NM_080751.2	NP_542789.2	Q8TDI7	TMC2_HUMAN	transmembrane channel-like 2	257					detection of mechanical stimulus involved in sensory perception of sound (GO:0050910)|vestibular reflex (GO:0060005)	integral component of membrane (GO:0016021)|stereocilium bundle tip (GO:0032426)	voltage-gated calcium channel activity (GO:0005245)			NS(1)|breast(3)|cervix(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(14)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	35						CATCTTTCTCCGATGGATGTA	0.398																																																0													243	210	221					20																	2560637		2203	4300	6503	SO:0001587	stop_gained	117532			AF417580	CCDS13029.2	20p13	2010-08-05	2003-02-23		ENSG00000149488	ENSG00000149488			16527	protein-coding gene	gene with protein product		606707	"transmembrane, cochlear expressed, 2"	C20orf145		11850618, 12906855	Standard	XM_005260660		Approved	dJ686C3.3	uc002wgf.1	Q8TDI7	OTTHUMG00000031698	ENST00000358864.1:c.769C>T	20.37:g.2560637C>T	ENSP00000351732:p.Arg257*	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JXT0|Q5JXT1|Q6UWW4|Q6ZS41|Q8N9F3|Q9BYN2|Q9BYN3|Q9BYN4|Q9BYN5	Nonsense_Mutation	SNP	ENST00000358864.1	37	CCDS13029.2	.	.	.	.	.	.	.	.	.	.	C	37	6.154665	0.97329	.	.	ENSG00000149488	ENST00000358864	.	.	.	5.12	4.14	0.48551	.	0.139429	0.47852	D	0.000214	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-2.4483	10.8042	0.46507	0.3434:0.6566:0.0:0.0	.	.	.	.	X	257	.	ENSP00000351732:R257X	R	+	1	2	TMC2	2508637	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	2.957000	0.49137	1.232000	0.43678	0.563000	0.77884	CGA		0.398	TMC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077601.2			T	2560637	C	T	2560637	4	4	664	1	0	0	0	0	0	1	0	0	15997	644	23	1	795	1	TMC2	20	2560637	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	96571	2560637	60464883	995	42305										
PRNP	5621	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	4680473	4680473	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agaacttcaccgagaccgacGttaagatgatggagcgcgtg	13	9	1	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:4680473G>A	ENST00000379440.4	+	2	894	c.607G>A	c.(607-609)Gtt>Att	p.V203I	PRNP_ENST00000430350.2_Missense_Mutation_p.V203I	NM_000311.3|NM_001080121.1|NM_001080122.1|NM_001080123.1|NM_001271561.1|NM_183079.2	NP_000302.1|NP_001073590.1|NP_001073591.1|NP_001073592.1|NP_001258490.1|NP_898902.1	F7VJQ1	APRIO_HUMAN	prion protein	0						integral component of membrane (GO:0016021)|mitochondrial outer membrane (GO:0005741)				central_nervous_system(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(5)|skin(1)	14						CGAGACCGACGTTAAGATGAT	0.522																																																0			GRCh37	CM001314	PRNP	M							176	151	159					20																	4680473		2203	4300	6503	SO:0001583	missense	5621			M13899	CCDS13080.1	20p13	2014-06-05	2008-07-28		ENSG00000171867	ENSG00000171867		"CD molecules"	9449	protein-coding gene	gene with protein product	"Creutzfeldt-Jakob disease", "Gerstmann-Strausler-Scheinker syndrome", "fatal familial insomnia", "p27-30"	176640	"prion protein (p27-30)"	PRIP, GSS, CJD			Standard	NM_000311		Approved	CD230, PRP, AltPrP	uc002wkw.4	F7VJQ1	OTTHUMG00000031786	ENST00000379440.4:c.607G>A	20.37:g.4680473G>A	ENSP00000368752:p.Val203Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000379440.4	37	CCDS13080.1	.	.	.	.	.	.	.	.	.	.	G	0.827	-0.746602	0.03065	.	.	ENSG00000171867	ENST00000379440;ENST00000430350;ENST00000424424;ENST00000444805;ENST00000457586	D;D;D;D	0.92048	-2.96;-2.96;-2.96;-2.36	5.39	-4.2	0.03823	Prion/Doppel protein, beta-ribbon domain (4);	0.953375	0.08715	N	0.904371	T	0.80819	0.4696	N	0.20807	0.61	0.09310	N	1	B;B;B	0.25521	0.002;0.002;0.128	B;B;B	0.19148	0.003;0.002;0.024	T	0.67933	-0.5542	10	0.02654	T	1	-0.7995	11.8224	0.52247	0.68:0.0:0.32:0.0	.	203;203;235	B2NI04;P04156;O75942	.;PRIO_HUMAN;.	I	203;203;203;142;203	ENSP00000368752:V203I;ENSP00000399376:V203I;ENSP00000411599:V203I;ENSP00000415284:V203I	ENSP00000368752:V203I	V	+	1	0	PRNP	4628473	0.000000	0.05858	0.041000	0.18516	0.863000	0.49368	-0.472000	0.06623	-0.660000	0.05352	-0.136000	0.14681	GTT		0.522	PRNP-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077820.2	NM_000311		A	4680473	G	A	4680473	3	1	664	1	0	0	0	0	1	0	0	0	12554	1145	40	1	609	1	PRNP	20	4680473	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2119836	4680473	58345047	996	42306										
C20orf196	149840	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	5843951	5843951	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggcccgggtgatcttcaacCgggacggctgctccgtctta	13	13	3	1	rs140278441		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:5843951C>T	ENST00000303142.6	+	3	547	c.460C>T	c.(460-462)Cgg>Tgg	p.R154W		NM_152504.2	NP_689717.2	Q8IYI0	CT196_HUMAN	chromosome 20 open reading frame 196	154										endometrium(2)|kidney(1)|large_intestine(2)|lung(3)|stomach(1)	9						GATCTTCAACCGGGACGGCTG	0.522																																																0								C	TRP/ARG	2,4404	4.2+/-10.8	0,2,2201	58	57	57		460	3.9	1	20	dbSNP_134	57	0,8600		0,0,4300	no	missense	C20orf196	NM_152504.2	101	0,2,6501	TT,TC,CC		0.0,0.0454,0.0154	benign	154/206	5843951	2,13004	2203	4300	6503	SO:0001583	missense	149840			AK057796	CCDS13091.1	20p12.3	2006-07-07			ENSG00000171984	ENSG00000171984			26318	protein-coding gene	gene with protein product						12477932	Standard	NM_152504		Approved	FLJ25067	uc002wmf.3	Q8IYI0	OTTHUMG00000031813	ENST00000303142.6:c.460C>T	20.37:g.5843951C>T	ENSP00000305875:p.Arg154Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9J3|Q5TGA9|Q96LU1	Missense_Mutation	SNP	ENST00000303142.6	37	CCDS13091.1	.	.	.	.	.	.	.	.	.	.	C	13.17	2.157705	0.38119	4.54E-4	0.0	ENSG00000171984	ENST00000303142	T	0.55588	0.51	5.86	3.92	0.45320	.	0.356526	0.24113	N	0.041425	T	0.36082	0.0954	L	0.28115	0.83	0.36750	D	0.88268	B	0.26876	0.162	B	0.20384	0.029	T	0.34775	-0.9815	10	0.54805	T	0.06	-11.3596	7.7804	0.29062	0.16:0.7582:0.0:0.0817	.	154	Q8IYI0	CT196_HUMAN	W	154	ENSP00000305875:R154W	ENSP00000305875:R154W	R	+	1	2	C20orf196	5791951	0.902000	0.30710	0.971000	0.41717	0.576000	0.36127	0.336000	0.19823	0.813000	0.34350	-0.899000	0.02877	CGG		0.522	C20orf196-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077882.2	NM_152504		T	5843951	C	T	5843951	3	4	664	1	0	0	0	0	1	0	0	0	2103	643	23	1	466	1	C20orf196	20	5843951	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1163478	5843951	57181569	997	42307										
MACROD2	140733	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	16021924	16021924	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aaatactccaggtcctgatgGtaaggttctgagctattgga	11	7	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:16021924G>A	ENST00000310348.4	+	16	1231		c.e16+1		MACROD2_ENST00000378058.3_Splice_Site|MACROD2_ENST00000407045.3_Splice_Site|MACROD2_ENST00000402914.1_Splice_Site|MACROD2_ENST00000217246.4_Splice_Site			A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2						brain development (GO:0007420)|cellular response to DNA damage stimulus (GO:0006974)|protein de-ADP-ribosylation (GO:0051725)|purine nucleoside metabolic process (GO:0042278)	nucleus (GO:0005634)	deacetylase activity (GO:0019213)|hydrolase activity, acting on glycosyl bonds (GO:0016798)			breast(2)|kidney(4)|large_intestine(5)|lung(8)|skin(1)	20		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				GGTCCTGATGGTAAGGTTCTG	0.443																																																0													65	65	65					20																	16021924		2203	4299	6502	SO:0001630	splice_region_variant	140733			BC101218	CCDS13120.2, CCDS33443.1	20p12.1	2011-04-28	2007-07-24	2007-07-24	ENSG00000172264	ENSG00000172264			16126	protein-coding gene	gene with protein product		611567	"chromosome 20 open reading frame 133"	C20orf133			Standard	NM_080676		Approved	dJ631M13.5	uc002wot.3	A1Z1Q3	OTTHUMG00000031919	ENST00000310348.4:c.1231+1G>A	20.37:g.16021924G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NFF7|B0QZ39|B3KWV0|Q0P6D5|Q495E0|Q5W199|Q6ZN71	Splice_Site	SNP	ENST00000310348.4	37	CCDS13120.2	.	.	.	.	.	.	.	.	.	.	G	12.40	1.926267	0.34002	.	.	ENSG00000172264	ENST00000217246;ENST00000310348;ENST00000402914;ENST00000378058;ENST00000407045	.	.	.	5.37	5.37	0.77165	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.3828	0.83481	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	MACROD2	15969924	1.000000	0.71417	0.998000	0.56505	0.191000	0.23601	5.251000	0.65438	2.679000	0.91253	0.655000	0.94253	.		0.443	MACROD2-201	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_080676	Intron	A	16021924	G	A	16021924	5	1	664	1	0	0	0	0	0	0	1	0	9153	1275	44	2	1294	2	MACROD2	20	16021924	Splice_Site	SNP	G	TCGA-KN-8428-01A-11D-2310-10	10177973	16021924	47003596	998	42308										
OVOL2	58495	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr20	18022295	18022295	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaggtgacggttcagcatgcGctgcagacggaagcccttgc	15	11	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:18022295G>A	ENST00000278780.6	-	3	636	c.394C>T	c.(394-396)Cgc>Tgc	p.R132C	OVOL2_ENST00000483661.1_5'UTR	NM_021220.2	NP_067043.2	Q9BRP0	OVOL2_HUMAN	ovo-like zinc finger 2	132					angiogenesis (GO:0001525)|dorsal/ventral pattern formation (GO:0009953)|embryonic digestive tract morphogenesis (GO:0048557)|endocardium formation (GO:0060214)|heart looping (GO:0001947)|heart trabecula formation (GO:0060347)|labyrinthine layer blood vessel development (GO:0060716)|negative regulation of cell proliferation (GO:0008285)|negative regulation of epithelial to mesenchymal transition (GO:0010719)|negative regulation of keratinocyte differentiation (GO:0045617)|negative regulation of Notch signaling pathway (GO:0045746)|negative regulation of transcription by competitive promoter binding (GO:0010944)|negative regulation of transcription, DNA-templated (GO:0045892)|neural crest cell migration (GO:0001755)|neural fold formation (GO:0001842)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cell cycle (GO:0051726)|regulation of keratinocyte proliferation (GO:0010837)|regulation of transcription from RNA polymerase II promoter (GO:0006357)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|transcription regulatory region DNA binding (GO:0044212)			central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(3)	6						TTCAGCATGCGCTGCAGACGG	0.597																																																0													126	82	97					20																	18022295		2203	4300	6503	SO:0001583	missense	58495			AK022284	CCDS13132.1	20p11.23	2013-10-17	2013-10-17	2005-05-31	ENSG00000125850	ENSG00000125850		"Zinc fingers, C2H2-type"	15804	protein-coding gene	gene with protein product			"zinc finger protein 339", "ovo-like 2 (Drosophila)"	ZNF339			Standard	NM_021220		Approved	bA504H3.3, HOVO2	uc002wqi.1	Q9BRP0	OTTHUMG00000031960	ENST00000278780.6:c.394C>T	20.37:g.18022295G>A	ENSP00000278780:p.Arg132Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T8B4|Q9BX22|Q9HA54|Q9Y4M0	Missense_Mutation	SNP	ENST00000278780.6	37	CCDS13132.1	.	.	.	.	.	.	.	.	.	.	G	25.5	4.645835	0.87958	.	.	ENSG00000125850	ENST00000278780	T	0.76709	-1.04	5.57	4.59	0.56863	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.85682	D	0.000000	D	0.82416	0.5032	L	0.36672	1.1	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.83289	-0.0034	10	0.56958	D	0.05	-48.5453	14.8485	0.70277	0.0:0.0:0.7425:0.2575	.	132	Q9BRP0	OVOL2_HUMAN	C	132	ENSP00000278780:R132C	ENSP00000278780:R132C	R	-	1	0	OVOL2	17970295	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	4.724000	0.61972	2.624000	0.88883	0.655000	0.94253	CGC		0.597	OVOL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078148.5	NM_021220		A	18022295	G	A	18022295	3	1	664	1	0	0	0	0	1	0	0	0	11334	1087	38	1	441	1	OVOL2	20	18022295	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2000371	18022295	45003225	999	42309										
ZNF133	7692	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	18287023	18287023	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agaggaaaaaaaatgttcacCggcaacctgtccaggtgagt	11	8	1	2	rs149645929		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:18287023C>T	ENST00000316358.4	+	3	300	c.203C>T	c.(202-204)cCg>cTg	p.P68L	ZNF133_ENST00000401790.1_Missense_Mutation_p.P68L|ZNF133_ENST00000538547.1_Intron|ZNF133_ENST00000535822.1_5'UTR|ZNF133_ENST00000377671.3_Missense_Mutation_p.P68L|ZNF133_ENST00000396026.3_Missense_Mutation_p.P71L|ZNF133_ENST00000402618.2_5'UTR	NM_001282998.1|NM_001282999.1|NM_001283000.1|NM_001283001.1|NM_001283008.1	NP_001269927.1|NP_001269928.1|NP_001269929.1|NP_001269930.1|NP_001269937.1	P52736	ZN133_HUMAN	zinc finger protein 133	68	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			autonomic_ganglia(1)|breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(8)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	26						AAATGTTCACCGGCAACCTGT	0.507																																																0								C	LEU/PRO,LEU/PRO	1,4405	2.1+/-5.4	0,1,2202	51	50	51		203,203	-3	0	20	dbSNP_134	51	0,8600		0,0,4300	no	missense,missense	ZNF133	NM_001083330.1,NM_003434.4	98,98	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	benign,benign	68/654,68/654	18287023	1,13005	2203	4300	6503	SO:0001583	missense	7692			AK123005	CCDS13134.1, CCDS63234.1, CCDS63235.1, CCDS74703.1, CCDS74704.1	20p11.23	2013-01-08	2006-06-13		ENSG00000125846	ENSG00000125846		"Zinc fingers, C2H2-type", "-"	12917	protein-coding gene	gene with protein product		604075	"zinc finger protein 150 (pHZ-66)", "zinc finger protein 133 (clone pHZ-13)"	ZNF150		7557990, 7649249	Standard	XM_005260819		Approved	pHZ-13, pHZ-66	uc010gcs.3	P52736	OTTHUMG00000031965	ENST00000316358.4:c.203C>T	20.37:g.18287023C>T	ENSP00000346090:p.Pro68Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5S4|B4DHU7|B4DIB8|B7ZAS1|F5H289|J3KQ11|J3KQJ0|Q53XU1|Q5JXV8|Q9BUV2|Q9H443	Missense_Mutation	SNP	ENST00000316358.4	37		.	.	.	.	.	.	.	.	.	.	C	3.466	-0.108858	0.06924	2.27E-4	0.0	ENSG00000125846	ENST00000377671;ENST00000360010;ENST00000396026;ENST00000401790;ENST00000434018;ENST00000316358;ENST00000425686	T;T;T;T;T;T;T	0.05996	3.39;5.52;3.36;3.36;5.59;3.36;5.58	4.49	-2.96	0.05547	Krueppel-associated box (1);	0.996321	0.08125	N	0.994047	T	0.02807	0.0084	N	0.13299	0.325	0.09310	N	0.999999	B;B;B	0.09022	0.001;0.001;0.002	B;B;B	0.06405	0.001;0.001;0.002	T	0.48198	-0.9056	10	0.10636	T	0.68	-1.5162	3.469	0.07561	0.4587:0.2608:0.0:0.2805	.	71;68;68	B4DHU7;P52736;P52736-2	.;ZN133_HUMAN;.	L	68;68;71;68;68;68;68	ENSP00000366899:P68L;ENSP00000353105:P68L;ENSP00000400897:P71L;ENSP00000383945:P68L;ENSP00000403835:P68L;ENSP00000346090:P68L;ENSP00000406638:P68L	ENSP00000346090:P68L	P	+	2	0	ZNF133	18235023	0.000000	0.05858	0.000000	0.03702	0.051000	0.14879	-0.090000	0.11163	-0.266000	0.09339	-0.136000	0.14681	CCG		0.507	ZNF133-002	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000127616.1	NM_003434		T	18287023	C	T	18287023	3	4	664	1	0	0	0	0	1	0	0	0	17735	652	23	1	209	1	ZNF133	20	18287023	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	264728	18287023	44738497	1000	42310										
RALGAPA2	57186	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	20475759	20475759	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caacaatgcaatgaaaacgtAcctcaggtttcttcgttatc	6	10	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:20475759A>G	ENST00000202677.7	-	36	5375		c.e36+1			NM_020343.3	NP_065076.2	Q2PPJ7	RGPA2_HUMAN	Ral GTPase activating protein, alpha subunit 2 (catalytic)						activation of Ral GTPase activity (GO:0032859)|membrane organization (GO:0061024)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|plasma membrane (GO:0005886)	protein heterodimerization activity (GO:0046982)|Ral GTPase activator activity (GO:0017123)			endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(6)|liver(1)|lung(25)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	54						ATGAAAACGTACCTCAGGTTT	0.378																																																0													135	130	131					20																	20475759		1904	4129	6033	SO:0001630	splice_region_variant	57186			AL078634, DQ310704	CCDS46584.1	20p11.23	2009-09-09	2009-09-09	2009-09-09	ENSG00000188559	ENSG00000188559			16207	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 74"	C20orf74		16490346, 19520869	Standard	NM_020343		Approved	dJ1049G11.4, AS250, KIAA1272, RapGAPalpha2	uc002wrz.3	Q2PPJ7	OTTHUMG00000032010	ENST00000202677.7:c.5367+1T>C	20.37:g.20475759A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q4VXU6|Q5JUA3|Q5JUA4|Q5T9K3|Q96CX9|Q9BQT7|Q9H9D9|Q9ULE8	Splice_Site	SNP	ENST00000202677.7	37	CCDS46584.1	.	.	.	.	.	.	.	.	.	.	A	17.22	3.333165	0.60853	.	.	ENSG00000188559	ENST00000417022;ENST00000430436;ENST00000202677;ENST00000427175	.	.	.	5.55	5.55	0.83447	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.7051	0.77573	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	RALGAPA2	20423759	1.000000	0.71417	0.985000	0.45067	0.556000	0.35491	9.273000	0.95719	2.106000	0.64143	0.460000	0.39030	.		0.378	RALGAPA2-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000471941.1	NM_020343	Intron	G	20475759	A	G	20475759	5	3	664	1	0	0	0	0	0	0	1	0	13027	405	14	3	268	3	RALGAPA2	20	20475759	Splice_Site	SNP	A	TCGA-KN-8428-01A-11D-2310-10	2188736	20475759	42549761	1001	42311										
NKX2-4	644524	hgsc.bcm.edu;ucsc.edu	37	chr20	21376975	21376975	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcgcgctcgggcgccgacagGtacttctgctgcttgaagcg	14	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:21376975G>A	ENST00000351817.4	-	2	1267	c.639C>T	c.(637-639)taC>taT	p.Y213Y	RP11-227D2.3_ENST00000552439.1_RNA|RP11-227D2.3_ENST00000419666.2_RNA	NM_033176.1	NP_149416.1	Q9H2Z4	NKX24_HUMAN	NK2 homeobox 4	213					multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)			lung(2)|upper_aerodigestive_tract(1)	3						GCGCCGACAGGTACTTCTGCT	0.667																																																0													30	31	31					20																	21376975		2202	4299	6501	SO:0001819	synonymous_variant	644524				CCDS42855.1	20p11.22	2012-03-09	2007-07-09	2002-10-04	ENSG00000125816	ENSG00000125816		"Homeoboxes / ANTP class : NKL subclass"	7837	protein-coding gene	gene with protein product		607808	"NK-2 (Drosophila) homolog D", "NK2 transcription factor related, locus 4 (Drosophila)"	NKX2D		1346742, 10818213	Standard	NM_033176		Approved	NKX2.4	uc010gcz.3	Q9H2Z4	OTTHUMG00000032022	ENST00000351817.4:c.639C>T	20.37:g.21376975G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VZV8	Silent	SNP	ENST00000351817.4	37	CCDS42855.1																																																																																				0.667	NKX2-4-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078270.2			A	21376975	G	A	21376975	2	1	664	1	0	0	0	0	0	0	0	1	10459	1256	44	2		2	NKX2-4	20	21376975	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	901216	21376975	41648545	1002	42312										
CST5	1473	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	23858242	23858242	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcacattgaagtagtagttcAccccacccacgatctacacg	6	14	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:23858242A>G	ENST00000304710.4	-	2	318	c.245T>C	c.(244-246)gTg>gCg	p.V82A		NM_001900.4	NP_001891.2	P28325	CYTD_HUMAN	cystatin D	82					negative regulation of endopeptidase activity (GO:0010951)	extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	cysteine-type endopeptidase inhibitor activity (GO:0004869)			breast(1)|kidney(1)|large_intestine(1)|lung(6)|skin(1)|stomach(1)	11						GTAGTAGTTCACCCCACCCAC	0.532																																																0													199	147	165					20																	23858242		2203	4300	6503	SO:0001583	missense	1473				CCDS13162.1	20p11.21	2008-04-15			ENSG00000170367	ENSG00000170367			2477	protein-coding gene	gene with protein product		123858				1939105	Standard	NM_001900		Approved		uc002wtr.1	P28325	OTTHUMG00000032089	ENST00000304710.4:c.245T>C	20.37:g.23858242A>G	ENSP00000307132:p.Val82Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JRF5|Q9UCA0	Missense_Mutation	SNP	ENST00000304710.4	37	CCDS13162.1	.	.	.	.	.	.	.	.	.	.	A	11.84	1.758309	0.31137	.	.	ENSG00000170367	ENST00000304710	T	0.27402	1.67	2.56	1.43	0.22495	Proteinase inhibitor I25, cystatin, conserved site (1);Proteinase inhibitor I25, cystatin (2);	1.558470	0.04237	U	0.336299	T	0.50377	0.1612	M	0.77103	2.36	0.09310	N	1	P	0.52692	0.955	P	0.61533	0.89	T	0.12785	-1.0534	10	0.30854	T	0.27	.	4.3883	0.11328	0.8291:0.0:0.1709:0.0	.	82	P28325	CYTD_HUMAN	A	82	ENSP00000307132:V82A	ENSP00000307132:V82A	V	-	2	0	CST5	23806242	0.030000	0.19436	0.050000	0.19076	0.025000	0.11179	0.314000	0.19432	0.230000	0.21059	-0.464000	0.05259	GTG		0.532	CST5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078355.2	NM_001900		G	23858242	A	G	23858242	3	3	664	1	0	0	0	0	1	0	0	0	3977	159	6	3	191	3	CST5	20	23858242	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	2481267	23858242	39167278	1003	42313										
TMEM90B	79953	broad.mit.edu;mdanderson.org	37	chr20	24524119	24524119	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caaagacagcctcgagtaccCggatgggaagttcattgacc	11	11	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:24524119C>T	ENST00000376862.3	+	2	1019	c.386C>T	c.(385-387)cCg>cTg	p.P129L		NM_024893.1	NP_079169.1	Q9H7V2	SYNG1_HUMAN	synapse differentiation inducing 1	129					intracellular protein transport (GO:0006886)|positive regulation of synapse assembly (GO:0051965)|response to biotic stimulus (GO:0009607)|synaptic vesicle clustering (GO:0097091)	cell body (GO:0044297)|cell junction (GO:0030054)|dendritic shaft (GO:0043198)|dendritic spine (GO:0043197)|early endosome membrane (GO:0031901)|excitatory synapse (GO:0060076)|integral component of plasma membrane (GO:0005887)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)	glutamate receptor binding (GO:0035254)|protein homodimerization activity (GO:0042803)	p.P129L(1)		breast(2)|endometrium(1)|large_intestine(3)|lung(14)|prostate(1)|skin(3)	24						CTCGAGTACCCGGATGGGAAG	0.607																																																1	Substitution - Missense(1)	large_intestine(1)											81	84	83					20																	24524119		2203	4300	6503	SO:0001583	missense	79953			AK024282	CCDS13164.1	20p11.21	2011-06-30	2011-06-30	2011-06-30	ENSG00000101463	ENSG00000101463			15885	protein-coding gene	gene with protein product	"interferon induced transmembrane protein domain containing 5", "synapse differentiation induced gene 1"	614311	"chromosome 20 open reading frame 39", "transmembrane protein 90B"	C20orf39, TMEM90B		20152115	Standard	NM_024893		Approved	FLJ14220, IFITMD5, SynDIG1	uc002wtw.1	Q9H7V2	OTTHUMG00000032104	ENST00000376862.3:c.386C>T	20.37:g.24524119C>T	ENSP00000366058:p.Pro129Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IA30|Q9H514	Missense_Mutation	SNP	ENST00000376862.3	37	CCDS13164.1	.	.	.	.	.	.	.	.	.	.	C	17.21	3.330865	0.60853	.	.	ENSG00000101463	ENST00000376862	D	0.90444	-2.67	5.47	5.47	0.80525	.	0.138225	0.51477	D	0.000099	D	0.86485	0.5944	M	0.62723	1.935	0.80722	D	1	D	0.54772	0.968	B	0.28385	0.089	D	0.89436	0.3720	10	0.87932	D	0	-33.8773	16.8193	0.85741	0.0:1.0:0.0:0.0	.	129	Q9H7V2	SYNG1_HUMAN	L	129	ENSP00000366058:P129L	ENSP00000366058:P129L	P	+	2	0	SYNDIG1	24472119	0.989000	0.36119	0.975000	0.42487	0.689000	0.40095	7.082000	0.76851	2.582000	0.87167	0.561000	0.74099	CCG		0.607	SYNDIG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078376.1	NM_024893		T	24524119	C	T	24524119	3	4	664	1	0	0	0	0	1	0	0	0	16231	652	23	1	388	1	TMEM90B	20	24524119	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	665877	24524119	38501401	1004	42314										
COX4I2	84701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr20	30231238	30231238	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagttcaatgagacctttgcGgagatgaaccgtcgctccaa	10	11	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:30231238G>A	ENST00000376075.3	+	4	354	c.279G>A	c.(277-279)gcG>gcA	p.A93A	COX4I2_ENST00000490030.1_Intron	NM_032609.2	NP_115998.2	Q96KJ9	COX42_HUMAN	cytochrome c oxidase subunit IV isoform 2 (lung)	93					cellular respiration (GO:0045333)|generation of precursor metabolites and energy (GO:0006091)|hydrogen ion transmembrane transport (GO:1902600)|oxidation-reduction process (GO:0055114)	mitochondrial respiratory chain complex IV (GO:0005751)	cytochrome-c oxidase activity (GO:0004129)			breast(1)|endometrium(1)|large_intestine(4)|liver(1)|lung(3)|ovary(1)	11	all_cancers(5;7.12e-06)|Lung NSC(7;3.95e-06)|all_epithelial(3;4.36e-06)|all_lung(7;6.68e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Epithelial(4;1.01e-05)|all cancers(5;9.46e-05)|OV - Ovarian serous cystadenocarcinoma(3;0.00121)|Colorectal(19;0.0055)|COAD - Colon adenocarcinoma(19;0.0264)			AGACCTTTGCGGAGATGAACC	0.567																																																0													187	151	163					20																	30231238		2203	4300	6503	SO:0001819	synonymous_variant	84701			AF257180	CCDS13187.1	20q11.21	2011-07-04	2004-08-11		ENSG00000131055	ENSG00000131055		"Mitochondrial respiratory chain complex / Complex IV"	16232	protein-coding gene	gene with protein product	"cytochrome c oxidase subunit IV-like 2"	607976	"cytochrome c oxidase subunit IV isoform 2"	COX4L2		11311561, 17937768	Standard	NM_032609		Approved	COXIV-2, COX4B, dJ857M17.2, COX4-2	uc002wwj.1	Q96KJ9	OTTHUMG00000032180	ENST00000376075.3:c.279G>A	20.37:g.30231238G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6GTF4|Q9H0Z4	Silent	SNP	ENST00000376075.3	37	CCDS13187.1																																																																																				0.567	COX4I2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078548.1	NM_032609		A	30231238	G	A	30231238	2	1	664	1	0	0	0	0	0	0	0	1	3772	1103	39	1		1	COX4I2	20	30231238	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5707119	30231238	32794282	1005	42315										
CEP250	11190	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	34050290	34050290	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	actacagcagcagatggcagAgaatcaggcagcctcctggc	12	12	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:34050290A>C	ENST00000397527.1	+	4	818	c.98A>C	c.(97-99)gAg>gCg	p.E33A	CEP250_ENST00000397524.1_Missense_Mutation_p.E33A|CEP250_ENST00000342580.4_Missense_Mutation_p.E33A	NM_007186.3	NP_009117.2	Q9BV73	CP250_HUMAN	centrosomal protein 250kDa	33					centriole-centriole cohesion (GO:0010457)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|protein localization (GO:0008104)|protein localization to organelle (GO:0033365)|regulation of centriole-centriole cohesion (GO:0030997)	centriole (GO:0005814)|centrosome (GO:0005813)|cilium (GO:0005929)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|microtubule organizing center (GO:0005815)|protein complex (GO:0043234)|spindle pole centrosome (GO:0031616)	protein C-terminus binding (GO:0008022)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)			NS(1)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(13)|lung(13)|ovary(4)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	45	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			CAGATGGCAGAGAATCAGGCA	0.582																																																0													42	38	40					20																	34050290		2203	4299	6502	SO:0001583	missense	11190			AF022655	CCDS13255.1	20q11.22	2014-02-20	2006-01-11	2006-01-11	ENSG00000126001	ENSG00000126001			1859	protein-coding gene	gene with protein product		609689	"centrosomal protein 2"	CEP2		9506584, 9647649	Standard	NM_007186		Approved	C-NAP1	uc021wco.1	Q9BV73	OTTHUMG00000032343	ENST00000397527.1:c.98A>C	20.37:g.34050290A>C	ENSP00000380661:p.Glu33Ala	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5Q3|O14812|O60588|Q9H450	Missense_Mutation	SNP	ENST00000397527.1	37	CCDS13255.1	.	.	.	.	.	.	.	.	.	.	A	19.61	3.859359	0.71834	.	.	ENSG00000126001	ENST00000446710;ENST00000420564;ENST00000397527;ENST00000342580;ENST00000397524;ENST00000425934	T;T;T;T	0.55760	2.43;2.37;0.5;1.4	5.12	5.12	0.69794	.	0.228497	0.30809	N	0.008828	T	0.51975	0.1706	M	0.71581	2.175	0.45883	D	0.998736	P	0.46142	0.873	B	0.39660	0.306	T	0.61128	-0.7125	10	0.72032	D	0.01	.	12.5217	0.56062	1.0:0.0:0.0:0.0	.	33	Q9BV73	CP250_HUMAN	A	33	ENSP00000380661:E33A;ENSP00000341541:E33A;ENSP00000380658:E33A;ENSP00000413827:E33A	ENSP00000341541:E33A	E	+	2	0	CEP250	33513704	1.000000	0.71417	0.996000	0.52242	0.980000	0.70556	6.683000	0.74533	2.132000	0.65825	0.528000	0.53228	GAG		0.582	CEP250-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078877.7	NM_007186		C	34050290	A	C	34050290	3	2	664	1	0	0	0	0	1	0	0	0	3254	304	11	5	100	5	CEP250	20	34050290	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	3819052	34050290	28975230	1006	42316										
SPAG4	6676	ucsc.edu	37	chr20	34207645	34207645	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acaccggaggagccaacagcGccccccgcgatttcgcggtc	12	17	0	0	rs376632243|rs532323841	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:34207645G>A	ENST00000374273.3	+	10	1166	c.1054G>A	c.(1054-1056)Gcc>Acc	p.A352T		NM_003116.1	NP_003107.1	Q9NPE6	SPAG4_HUMAN	sperm associated antigen 4	352	SUN. {ECO:0000255|PROSITE- ProRule:PRU00802}.				spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|integral component of membrane (GO:0016021)|motile cilium (GO:0031514)	structural molecule activity (GO:0005198)			NS(1)|cervix(5)|kidney(1)|large_intestine(3)|lung(10)|ovary(1)	21	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.0127)			AGCCAACAGCGCCCCCCGCGA	0.627																																																0													37	39	38					20																	34207645		2203	4300	6503	SO:0001583	missense	6676			AF043344	CCDS13259.1	20q11.2	2010-04-23			ENSG00000061656	ENSG00000061656			11214	protein-coding gene	gene with protein product	"acrosomal protein ACR55", "Sad1 and UNC84 domain containing 4", "cancer/testis antigen 127"	603038				9691178, 10373309	Standard	NM_003116		Approved	SUN4, CT127	uc002xdb.1	Q9NPE6	OTTHUMG00000032352	ENST00000374273.3:c.1054G>A	20.37:g.34207645G>A	ENSP00000363391:p.Ala352Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O43648	Missense_Mutation	SNP	ENST00000374273.3	37	CCDS13259.1	.	.	.	.	.	.	.	.	.	.	G	17.52	3.411031	0.62399	.	.	ENSG00000061656	ENST00000374273;ENST00000430878	T;T	0.52754	0.65;0.65	4.66	3.72	0.42706	Sad1/UNC-like, C-terminal (2);	0.000000	0.85682	D	0.000000	T	0.50274	0.1606	M	0.88241	2.94	0.46396	D	0.999025	P	0.52692	0.955	B	0.38327	0.271	T	0.62412	-0.6860	10	0.87932	D	0	-0.0314	10.1876	0.43006	0.0:0.0:0.8012:0.1988	.	352	Q9NPE6	SPAG4_HUMAN	T	352;47	ENSP00000363391:A352T;ENSP00000399231:A47T	ENSP00000363391:A352T	A	+	1	0	SPAG4	33671059	1.000000	0.71417	0.993000	0.49108	0.957000	0.61999	3.537000	0.53590	1.186000	0.42985	-0.218000	0.12543	GCC		0.627	SPAG4-001	KNOWN	mRNA_start_NF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078896.1	NM_003116		A	34207645	G	A	34207645	3	1	664	1	0	0	0	0	1	0	0	0	14993	1087	38	1	1092	1	SPAG4	20	34207645	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	157355	34207645	28817875	1007	42317										
C20orf117	140710	broad.mit.edu;mdanderson.org	37	chr20	35467800	35467800	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acgtcctcctccatatagacGtcccgcatctccagcatctc	5	18	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:35467800G>A	ENST00000357779.3	-	2	344	c.18C>T	c.(16-18)gaC>gaT	p.D6D	SOGA1_ENST00000237536.4_Silent_p.D244D|SOGA1_ENST00000279034.6_Silent_p.D6D			O94964	SOGA1_HUMAN	suppressor of glucose, autophagy associated 1	6					insulin receptor signaling pathway (GO:0008286)|negative regulation of gluconeogenesis (GO:0045721)|regulation of autophagy (GO:0010506)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)				endometrium(5)|kidney(1)|lung(21)|urinary_tract(1)	28						CCATATAGACGTCCCGCATCT	0.627																																																0													40	44	42					20																	35467800		2113	4241	6354	SO:0001819	synonymous_variant	140710			AK126630	CCDS46598.1, CCDS54459.1	20q11.23	2012-03-01	2012-02-27	2012-02-27	ENSG00000149639	ENSG00000149639			16111	protein-coding gene	gene with protein product	"suppressor of glucose by autophagy", "suppressor of glucose from autophagy"		"chromosome 20 open reading frame 117", "KIAA0889"	C20orf117, KIAA0889		20813965	Standard	NM_080627		Approved	dJ132F21.1, FLJ44670, SOGA	uc021wcx.1	O94964	OTTHUMG00000032395	ENST00000357779.3:c.18C>T	20.37:g.35467800G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NK10|Q14DB2|Q5JW51|Q6ZTG8	Silent	SNP	ENST00000357779.3	37																																																																																					0.627	SOGA1-201	KNOWN	basic	protein_coding	protein_coding		NM_199181		A	35467800	G	A	35467800	2	1	664	1	0	0	0	0	0	0	0	1	2085	1136	40	1		1	C20orf117	20	35467800	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1260155	35467800	27557720	1008	42318										
SLC32A1	140679	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	37353701	37353701	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtggcgaattcgggggccacGacaagcccaaaatcacggcg	14	12	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:37353701G>A	ENST00000217420.1	+	1	597	c.334G>A	c.(334-336)Gac>Aac	p.D112N		NM_080552.2	NP_542119.1	Q9H598	VIAAT_HUMAN	solute carrier family 32 (GABA vesicular transporter), member 1	112					aging (GO:0007568)|ion transport (GO:0006811)|neurotransmitter secretion (GO:0007269)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	cell tip (GO:0051286)|clathrin-sculpted gamma-aminobutyric acid transport vesicle membrane (GO:0061202)|cone cell pedicle (GO:0044316)|dendrite (GO:0030425)|dendrite terminus (GO:0044292)|inhibitory synapse (GO:0060077)|integral component of membrane (GO:0016021)|neuron projection (GO:0043005)|neuron projection terminus (GO:0044306)|plasma membrane (GO:0005886)|synaptic vesicle membrane (GO:0030672)	gamma-aminobutyric acid:proton symporter activity (GO:0015495)|glycine transmembrane transporter activity (GO:0015187)			breast(2)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(11)|lung(16)|urinary_tract(1)	38		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CGGGGGCCACGACAAGCCCAA	0.652																																																0													43	47	45					20																	37353701		2151	4231	6382	SO:0001583	missense	140679			AL133519	CCDS13307.1	20q11	2013-05-22			ENSG00000101438	ENSG00000101438		"Solute carriers"	11018	protein-coding gene	gene with protein product			"vesicular inhibitory amino acid transporter"	VIAAT		19843525	Standard	NM_080552		Approved	VGAT, bA122O1.1	uc002xjc.3	Q9H598	OTTHUMG00000032457	ENST00000217420.1:c.334G>A	20.37:g.37353701G>A	ENSP00000217420:p.Asp112Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N489	Missense_Mutation	SNP	ENST00000217420.1	37	CCDS13307.1	.	.	.	.	.	.	.	.	.	.	G	20.4	3.979286	0.74360	.	.	ENSG00000101438	ENST00000217420	T	0.06933	3.24	5.09	5.09	0.68999	.	0.235220	0.42420	D	0.000720	T	0.04182	0.0116	N	0.08118	0	0.49051	D	0.999741	P	0.34724	0.465	B	0.23716	0.048	T	0.54423	-0.8296	10	0.17369	T	0.5	-37.7686	15.968	0.79987	0.0:0.0:1.0:0.0	.	112	Q9H598	VIAAT_HUMAN	N	112	ENSP00000217420:D112N	ENSP00000217420:D112N	D	+	1	0	SLC32A1	36787115	1.000000	0.71417	0.990000	0.47175	0.852000	0.48524	9.583000	0.98217	2.365000	0.80145	0.561000	0.74099	GAC		0.652	SLC32A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079206.1	NM_080552		A	37353701	G	A	37353701	3	1	664	1	0	0	0	0	1	0	0	0	14578	1058	37	1	336	1	SLC32A1	20	37353701	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1885901	37353701	25671819	1009	42319										
PPP1R16B	26051	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	37529279	37529279	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acatgccatatgacctctgcGaggatgaacccaccctggat	9	13	1	2	rs139690056	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:37529279G>A	ENST00000299824.1	+	5	712	c.523G>A	c.(523-525)Gag>Aag	p.E175K	PPP1R16B_ENST00000373331.2_Missense_Mutation_p.E175K	NM_015568.2	NP_056383.1	Q96T49	PP16B_HUMAN	protein phosphatase 1, regulatory subunit 16B	175					regulation of filopodium assembly (GO:0051489)|signal transduction (GO:0007165)	nucleus (GO:0005634)|plasma membrane (GO:0005886)	protein phosphatase binding (GO:0019903)			biliary_tract(1)|endometrium(4)|kidney(3)|large_intestine(10)|lung(23)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)	49		Myeloproliferative disorder(115;0.00878)				TGACCTCTGCGAGGATGAACC	0.572																																																0								G	LYS/GLU,LYS/GLU	0,4406		0,0,2203	159	104	123		523,523	5	1	20	dbSNP_134	123	1,8599	1.2+/-3.3	0,1,4299	yes	missense,missense	PPP1R16B	NM_001172735.1,NM_015568.2	56,56	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging,probably-damaging	175/526,175/568	37529279	1,13005	2203	4300	6503	SO:0001583	missense	26051			AB020630	CCDS13309.1, CCDS54462.1	20q11.23	2013-01-10	2011-10-04		ENSG00000101445	ENSG00000101445		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits", "Ankyrin repeat domain containing"	15850	protein-coding gene	gene with protein product	"TGF-beta-inhibited membrane-associated protein", "ankyrin repeat domain protein 4"	613275	"protein phosphatase 1, regulatory (inhibitor) subunit 16B"			10048485, 12055102	Standard	NM_001172735		Approved	KIAA0823, TIMAP, ANKRD4	uc002xje.3	Q96T49	OTTHUMG00000032465	ENST00000299824.1:c.523G>A	20.37:g.37529279G>A	ENSP00000299824:p.Glu175Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRR6|E9PFS8|O94912|Q5W9G4|Q9NQG4	Missense_Mutation	SNP	ENST00000299824.1	37	CCDS13309.1	.	.	.	.	.	.	.	.	.	.	G	36	5.767257	0.96914	0.0	1.16E-4	ENSG00000101445	ENST00000299824;ENST00000373331	T;T	0.52754	0.65;0.65	4.98	4.98	0.66077	Ankyrin repeat-containing domain (3);	0.000000	0.85682	D	0.000000	T	0.67392	0.2888	M	0.68952	2.095	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.73380	0.957;0.98	T	0.65829	-0.6073	10	0.42905	T	0.14	.	18.8173	0.92081	0.0:0.0:1.0:0.0	.	175;175	E9PFS8;Q96T49	.;PP16B_HUMAN	K	175	ENSP00000299824:E175K;ENSP00000362428:E175K	ENSP00000299824:E175K	E	+	1	0	PPP1R16B	36962693	1.000000	0.71417	0.995000	0.50966	0.997000	0.91878	9.657000	0.98554	2.746000	0.94184	0.655000	0.94253	GAG		0.572	PPP1R16B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079220.2	NM_015568		A	37529279	G	A	37529279	3	1	664	1	0	0	0	0	1	0	0	0	12376	1059	37	1	537	1	PPP1R16B	20	37529279	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	175578	37529279	25496241	1010	42320										
PLCG1	5335	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr20	39801085	39801085	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tggcacagaacgtgcttgctAccgggacatgtcatccttcc	10	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:39801085A>G	ENST00000373271.1	+	26	3335	c.2930A>G	c.(2929-2931)tAc>tGc	p.Y977C	PLCG1_ENST00000373272.2_Missense_Mutation_p.Y977C|PLCG1_ENST00000608689.1_3'UTR|PLCG1_ENST00000244007.3_Missense_Mutation_p.Y977C	NM_182811.1	NP_877963.1	P19174	PLCG1_HUMAN	phospholipase C, gamma 1	977	PI-PLC Y-box. {ECO:0000255|PROSITE- ProRule:PRU00271}.				activation of MAPKK activity (GO:0000186)|activation of phospholipase C activity (GO:0007202)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|calcium-mediated signaling (GO:0019722)|cell migration (GO:0016477)|cellular response to epidermal growth factor stimulus (GO:0071364)|cytokine-mediated signaling pathway (GO:0019221)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|in utero embryonic development (GO:0001701)|innate immune response (GO:0045087)|inositol phosphate metabolic process (GO:0043647)|leukocyte migration (GO:0050900)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phospholipid catabolic process (GO:0009395)|positive regulation of angiogenesis (GO:0045766)|positive regulation of blood vessel endothelial cell migration (GO:0043536)|positive regulation of epithelial cell migration (GO:0010634)|positive regulation of release of sequestered calcium ion into cytosol (GO:0051281)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|T cell receptor signaling pathway (GO:0050852)|viral process (GO:0016032)	cell projection (GO:0042995)|cell-cell junction (GO:0005911)|COP9 signalosome (GO:0008180)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	calcium ion binding (GO:0005509)|neurotrophin TRKA receptor binding (GO:0005168)|phosphatidylinositol phospholipase C activity (GO:0004435)|phospholipase C activity (GO:0004629)|protein kinase binding (GO:0019901)|receptor signaling protein activity (GO:0005057)			breast(5)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(16)|skin(6)|urinary_tract(2)	46		Myeloproliferative disorder(115;0.00878)				CGTGCTTGCTACCGGGACATG	0.517																																																0													54	49	51					20																	39801085		2203	4300	6503	SO:0001583	missense	5335			M34667	CCDS13313.1, CCDS13314.1	20q12-q13.1	2013-02-14	2004-01-29		ENSG00000124181	ENSG00000124181	3.1.4.11	"Pleckstrin homology (PH) domain containing", "EF-hand domain containing", "SH2 domain containing"	9065	protein-coding gene	gene with protein product		172420	"phospholipase C, gamma 1 (formerly subtype 148)"	PLC1		2167438, 3254788	Standard	NM_182811		Approved	PLC148, PLC-II, PLCgamma1, NCKAP3	uc002xjo.1	P19174	OTTHUMG00000033082	ENST00000373271.1:c.2930A>G	20.37:g.39801085A>G	ENSP00000362368:p.Tyr977Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLY7|B9EGH4|E1P5W4|Q2V575	Missense_Mutation	SNP	ENST00000373271.1	37	CCDS13314.1	.	.	.	.	.	.	.	.	.	.	A	14.98	2.698732	0.48307	.	.	ENSG00000124181	ENST00000244007;ENST00000373271;ENST00000373272	T;T;T	0.53640	0.61;0.61;0.61	5.67	5.67	0.87782	PLC-like phosphodiesterase, TIM beta/alpha-barrel domain (2);Phospholipase C, phosphatidylinositol-specific, Y domain (3);	0.116625	0.64402	D	0.000015	T	0.55737	0.1939	M	0.64260	1.97	0.54753	D	0.999989	B;P;B	0.35348	0.09;0.496;0.11	B;B;B	0.43728	0.067;0.429;0.111	T	0.58165	-0.7684	10	0.56958	D	0.05	.	15.9087	0.79450	1.0:0.0:0.0:0.0	.	977;977;977	P19174-2;P19174;A2A284	.;PLCG1_HUMAN;.	C	977	ENSP00000244007:Y977C;ENSP00000362368:Y977C;ENSP00000362369:Y977C	ENSP00000244007:Y977C	Y	+	2	0	PLCG1	39234499	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	3.230000	0.51286	2.165000	0.68154	0.533000	0.62120	TAC		0.517	PLCG1-005	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000080514.3	NM_182811		G	39801085	A	G	39801085	3	3	664	1	0	0	0	0	1	0	0	0	12042	391	14	3	3032	3	PLCG1	20	39801085	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	2271806	39801085	23224435	1011	42321										
LPIN3	64900	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	39980542	39980542	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cctggactctgagaatgcagCgctttacttcccccaaaggt	9	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:39980542C>T	ENST00000373257.3	+	8	1275	c.1184C>T	c.(1183-1185)gCg>gTg	p.A395V		NM_022896.1	NP_075047.1	Q9BQK8	LPIN3_HUMAN	lipin 3	395					fatty acid metabolic process (GO:0006631)|glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylcholine biosynthetic process (GO:0006656)|phosphatidylethanolamine biosynthetic process (GO:0006646)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum membrane (GO:0005789)|nucleus (GO:0005634)	phosphatidate phosphatase activity (GO:0008195)			breast(2)|central_nervous_system(1)|cervix(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|liver(2)|lung(7)|ovary(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	31		Myeloproliferative disorder(115;0.000739)				GAGAATGCAGCGCTTTACTTC	0.597																																																0													106	99	101					20																	39980542		2203	4300	6503	SO:0001583	missense	64900			AL132654	CCDS33469.1	20q11.2-q12	2006-04-04	2002-05-23		ENSG00000132793	ENSG00000132793			14451	protein-coding gene	gene with protein product		605520	"lipin 3-like"	LIPN3L		11138012	Standard	XM_005260515		Approved	SMP2	uc002xjx.3	Q9BQK8	OTTHUMG00000033056	ENST00000373257.3:c.1184C>T	20.37:g.39980542C>T	ENSP00000362354:p.Ala395Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTT5|Q5TDB9|Q9NPY8|Q9UJE5	Missense_Mutation	SNP	ENST00000373257.3	37	CCDS33469.1	.	.	.	.	.	.	.	.	.	.	C	22.3	4.268312	0.80469	.	.	ENSG00000132793	ENST00000373257;ENST00000373259	D	0.86097	-2.07	5.32	3.4	0.38934	.	0.129916	0.50627	N	0.000109	D	0.91459	0.7304	M	0.83384	2.64	0.53688	D	0.999976	D;D	0.89917	1.0;1.0	D;D	0.80764	0.923;0.994	D	0.90563	0.4517	9	.	.	.	-19.3926	10.7572	0.46243	0.0:0.844:0.0:0.156	.	396;395	Q9BQK8-2;Q9BQK8	.;LPIN3_HUMAN	V	395;59	ENSP00000362354:A395V	.	A	+	2	0	LPIN3	39413956	0.999000	0.42202	0.991000	0.47740	0.889000	0.51656	3.976000	0.56867	0.629000	0.30376	-0.222000	0.12452	GCG		0.597	LPIN3-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080393.1	NM_022896		T	39980542	C	T	39980542	3	4	664	1	0	0	0	0	1	0	0	0	8927	768	27	1	1210	1	LPIN3	20	39980542	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	179457	39980542	23044978	1012	42322										
MMP9	4318	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr20	44641958	44641958	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccgcagcccacggctcccccGacggtctgccccaccggacc	10	23	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:44641958G>A	ENST00000372330.3	+	9	1414	c.1395G>A	c.(1393-1395)ccG>ccA	p.P465P	RP11-465L10.10_ENST00000535913.1_RNA	NM_004994.2	NP_004985.2	P14780	MMP9_HUMAN	matrix metallopeptidase 9 (gelatinase B, 92kDa gelatinase, 92kDa type IV collagenase)	465					collagen catabolic process (GO:0030574)|embryo implantation (GO:0007566)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|leukocyte migration (GO:0050900)|macrophage differentiation (GO:0030225)|negative regulation of cation channel activity (GO:2001258)|ossification (GO:0001503)|positive regulation of apoptotic process (GO:0043065)|positive regulation of keratinocyte migration (GO:0051549)|positive regulation of receptor binding (GO:1900122)|proteolysis (GO:0006508)|skeletal system development (GO:0001501)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)	collagen binding (GO:0005518)|identical protein binding (GO:0042802)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			breast(2)|endometrium(4)|large_intestine(14)|liver(2)|lung(17)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(3)	46		Myeloproliferative disorder(115;0.0122)			Captopril(DB01197)|Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)	CGGCTCCCCCGACGGTCTGCC	0.687											OREG0025990	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													45	60	55					20																	44641958		2185	4271	6456	SO:0001819	synonymous_variant	4318				CCDS13390.1	20q12-q13	2008-01-07	2005-08-08		ENSG00000100985	ENSG00000100985	3.4.24.35		7176	protein-coding gene	gene with protein product		120361	"matrix metalloproteinase 9 (gelatinase B, 92kD gelatinase, 92kD type IV collagenase)", "matrix metalloproteinase 9 (gelatinase B, 92kDa gelatinase, 92kDa type IV collagenase)"	CLG4B		2158484	Standard	NM_004994		Approved		uc002xqz.3	P14780	OTTHUMG00000033044	ENST00000372330.3:c.1395G>A	20.37:g.44641958G>A		Somatic	925	WXS	Illumina HiSeq	Phase_I	B2R7V9|Q3LR70|Q8N725|Q9H4Z1|Q9UCJ9|Q9UCL1|Q9UDK2	Silent	SNP	ENST00000372330.3	37	CCDS13390.1																																																																																				0.687	MMP9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080337.1			A	44641958	G	A	44641958	2	1	664	1	0	0	0	0	0	0	0	1	9676	1045	37	1		1	MMP9	20	44641958	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4661416	44641958	18383562	1013	42323										
SLC2A10	81031	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	45355544	45355544	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agatctaccctgtggagataCgaggaagagccttcgccttc	11	11	1	3	rs370547023		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:45355544C>T	ENST00000359271.2	+	3	1580	c.1330C>T	c.(1330-1332)Cga>Tga	p.R444*		NM_030777.3	NP_110404.1	O95528	GTR10_HUMAN	solute carrier family 2 (facilitated glucose transporter), member 10	444					glucose transport (GO:0015758)|proton transport (GO:0015992)|transmembrane transport (GO:0055085)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	sugar:proton symporter activity (GO:0005351)			central_nervous_system(2)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(9)|liver(2)|lung(13)|ovary(1)|skin(3)|upper_aerodigestive_tract(1)	34		Myeloproliferative disorder(115;0.0122)				TGTGGAGATACGAGGAAGAGC	0.592																																																0			GRCh37	CM070263	SLC2A10	M		C	stop/ARG	0,4406		0,0,2203	154	139	144		1330	2.6	1	20		144	1,8599	1.2+/-3.3	0,1,4299	no	stop-gained	SLC2A10	NM_030777.3		0,1,6502	TT,TC,CC		0.0116,0.0,0.0077		444/542	45355544	1,13005	2203	4300	6503	SO:0001587	stop_gained	81031			AL137188	CCDS13402.1	20q13.12	2013-05-22			ENSG00000197496	ENSG00000197496		"Solute carriers"	13444	protein-coding gene	gene with protein product		606145				11247674	Standard	NM_030777		Approved	GLUT10	uc002xsl.3	O95528	OTTHUMG00000032657	ENST00000359271.2:c.1330C>T	20.37:g.45355544C>T	ENSP00000352216:p.Arg444*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4J6|Q3MIX5|Q9H4I6	Nonsense_Mutation	SNP	ENST00000359271.2	37	CCDS13402.1	.	.	.	.	.	.	.	.	.	.	C	36	5.906790	0.97093	0.0	1.16E-4	ENSG00000197496	ENST00000359271	.	.	.	5.8	2.61	0.31194	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-8.5252	15.405	0.74871	0.5717:0.4283:0.0:0.0	.	.	.	.	X	444	.	ENSP00000352216:R444X	R	+	1	2	SLC2A10	44788951	0.989000	0.36119	1.000000	0.80357	0.179000	0.23085	1.977000	0.40589	0.768000	0.33290	0.467000	0.42956	CGA		0.592	SLC2A10-001	KNOWN	mRNA_end_NF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079578.2			T	45355544	C	T	45355544	4	4	664	1	0	0	0	0	0	1	0	0	14552	528	19	1	1340	1	SLC2A10	20	45355544	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	713586	45355544	17669976	1014	42324										
SULF2	55959	broad.mit.edu	37	chr20	46365622	46365622	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atgggtgtggtcacgaaggcGttgatgaagtgcgccccgcc	16	10	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:46365622G>A	ENST00000359930.4	-	3	1091	c.240C>T	c.(238-240)aaC>aaT	p.N80N	SULF2_ENST00000467815.1_Silent_p.N80N|SULF2_ENST00000478766.1_5'UTR|SULF2_ENST00000361612.4_Silent_p.N80N|SULF2_ENST00000484875.1_Silent_p.N80N	NM_018837.3	NP_061325.1	Q8IWU5	SULF2_HUMAN	sulfatase 2	80					bone development (GO:0060348)|cartilage development (GO:0051216)|chondrocyte development (GO:0002063)|embryonic skeletal system development (GO:0048706)|esophagus smooth muscle contraction (GO:0014846)|glial cell-derived neurotrophic factor receptor signaling pathway (GO:0035860)|glomerular basement membrane development (GO:0032836)|glomerular filtration (GO:0003094)|heparan sulfate proteoglycan metabolic process (GO:0030201)|innervation (GO:0060384)|kidney development (GO:0001822)|negative regulation of fibroblast growth factor receptor signaling pathway (GO:0040037)|positive regulation of Wnt signaling pathway (GO:0030177)|positive regulation vascular endothelial growth factor production (GO:0010575)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	arylsulfatase activity (GO:0004065)|calcium ion binding (GO:0005509)|N-acetylglucosamine-6-sulfatase activity (GO:0008449)			breast(2)|endometrium(4)|kidney(1)|large_intestine(7)|lung(22)|ovary(4)|pancreas(1)|prostate(5)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	54						TCACGAAGGCGTTGATGAAGT	0.582																																																0													235	181	199					20																	46365622		2203	4300	6503	SO:0001819	synonymous_variant	55959			AY101176	CCDS13408.1, CCDS13409.1, CCDS13409.2	20q13.12-q13.13	2008-05-14			ENSG00000196562	ENSG00000196562			20392	protein-coding gene	gene with protein product		610013				12368295	Standard	NM_018837		Approved	KIAA1247, HSULF-2, SULF-2	uc002xto.3	Q8IWU5	OTTHUMG00000032675	ENST00000359930.4:c.240C>T	20.37:g.46365622G>A		Somatic		WXS	Illumina HiSeq	Phase_I	E1P5U6|Q5JYE1|Q6UX86|Q96SG2|Q9H1H0|Q9UJR3|Q9ULH3	Silent	SNP	ENST00000359930.4	37	CCDS13408.1																																																																																				0.582	SULF2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079606.1	NM_018837		A	46365622	G	A	46365622	2	1	664	1	0	0	0	0	0	0	0	1	15383	1136	40	1		1	SULF2	20	46365622	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1010078	46365622	16659898	1015	42325										
KCNB1	3745	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	48098552	48098552	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcctcgccttcccgctcccGtagggtctcggcctcacgct	9	20	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:48098552G>A	ENST00000371741.4	-	1	632	c.466C>T	c.(466-468)Cgg>Tgg	p.R156W		NM_004975.2	NP_004966.1	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related subfamily, member 1	156					energy reserve metabolic process (GO:0006112)|protein homooligomerization (GO:0051260)|regulation of insulin secretion (GO:0050796)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)	dendrite (GO:0030425)|dendrite membrane (GO:0032590)|neuronal cell body membrane (GO:0032809)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|outward rectifier potassium channel activity (GO:0015271)			central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(8)|liver(1)|lung(22)|pancreas(2)|prostate(7)|skin(4)|stomach(1)|urinary_tract(1)	53			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)		Dalfampridine(DB06637)	TCCCGCTCCCGTAGGGTCTCG	0.582																																																0													170	138	148					20																	48098552		2203	4300	6503	SO:0001583	missense	3745			AF026005	CCDS13418.1	20q13.2	2012-07-05			ENSG00000158445	ENSG00000158445		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6231	protein-coding gene	gene with protein product		600397				7774931, 16382104	Standard	NM_004975		Approved	Kv2.1	uc002xur.1	Q14721	OTTHUMG00000033051	ENST00000371741.4:c.466C>T	20.37:g.48098552G>A	ENSP00000360806:p.Arg156Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q14193	Missense_Mutation	SNP	ENST00000371741.4	37	CCDS13418.1	.	.	.	.	.	.	.	.	.	.	G	13.24	2.177032	0.38413	.	.	ENSG00000158445	ENST00000371741;ENST00000538812	D	0.96554	-4.05	5.15	3.17	0.36434	.	0.132166	0.46758	D	0.000280	D	0.97845	0.9292	M	0.85542	2.76	0.32967	D	0.521814	D	0.89917	1.0	D	0.67548	0.952	D	0.99908	1.1188	10	0.87932	D	0	.	13.7034	0.62622	0.0:0.0:0.6011:0.3989	.	156	Q14721	KCNB1_HUMAN	W	156;111	ENSP00000360806:R156W	ENSP00000360806:R156W	R	-	1	2	KCNB1	47531959	0.998000	0.40836	0.009000	0.14445	0.619000	0.37552	1.309000	0.33539	0.726000	0.32339	-0.311000	0.09066	CGG		0.582	KCNB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080374.3	NM_004975		A	48098552	G	A	48098552	3	1	664	1	0	0	0	0	1	0	0	0	8019	1144	40	1	2118	1	KCNB1	20	48098552	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1732930	48098552	14926968	1016	42326										
SPATA2	9825	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	48524979	48524979	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atggaactgcacgtacttccGaaataagtcatccttgaatt	7	9	1	1	rs77667957		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:48524979G>A	ENST00000422556.1	-	2	398	c.49C>T	c.(49-51)Cgg>Tgg	p.R17W	SPATA2_ENST00000543716.1_Intron|SPATA2_ENST00000289431.5_Missense_Mutation_p.R17W	NM_001135773.1	NP_001129245.1	Q9UM82	SPAT2_HUMAN	spermatogenesis associated 2	17					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)				central_nervous_system(1)|endometrium(2)|large_intestine(3)|lung(11)|ovary(1)|prostate(1)|skin(1)	20	Hepatocellular(150;0.133)		BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			ACGTACTTCCGAAATAAGTCA	0.552																																																0								G	TRP/ARG,TRP/ARG	0,4406		0,0,2203	90	84	86		49,49	3.8	1	20	dbSNP_131	86	3,8597	3.0+/-9.4	0,3,4297	yes	missense,missense	SPATA2	NM_001135773.1,NM_006038.3	101,101	0,3,6500	AA,AG,GG		0.0349,0.0,0.0231	probably-damaging,probably-damaging	17/521,17/521	48524979	3,13003	2203	4300	6503	SO:0001583	missense	9825			AB018300	CCDS13422.1	20q13.13	2014-06-13			ENSG00000158480	ENSG00000158480			14681	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 145"	607662					Standard	NM_001135773		Approved	KIAA0757, PD1, tamo, PPP1R145	uc002xuw.3	Q9UM82	OTTHUMG00000032704	ENST00000422556.1:c.49C>T	20.37:g.48524979G>A	ENSP00000416799:p.Arg17Trp	Somatic		WXS	Illumina HiSeq	Phase_I	E1P626|O94857	Missense_Mutation	SNP	ENST00000422556.1	37	CCDS13422.1	.	.	.	.	.	.	.	.	.	.	G	22.0	4.223817	0.79576	0.0	3.49E-4	ENSG00000158480	ENST00000289431;ENST00000422556	T;T	0.57107	0.42;0.42	4.79	3.77	0.43336	.	0.000000	0.85682	D	0.000000	T	0.67392	0.2888	M	0.66939	2.045	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.69487	-0.5132	10	0.87932	D	0	-23.3774	10.756	0.46237	0.0:0.0:0.6354:0.3646	.	17	Q9UM82	SPAT2_HUMAN	W	17	ENSP00000289431:R17W;ENSP00000416799:R17W	ENSP00000289431:R17W	R	-	1	2	SPATA2	47958386	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	5.214000	0.65236	2.661000	0.90470	0.655000	0.94253	CGG		0.552	SPATA2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079658.1	NM_006038		A	48524979	G	A	48524979	3	1	664	1	0	0	0	0	1	0	0	0	15017	1057	37	1	1521	1	SPATA2	20	48524979	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	426427	48524979	14500541	1017	42327										
TMEM189	387522	broad.mit.edu;mdanderson.org	37	chr20	48744630	48744630	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagcgtggcagcccaaagtaCgtgtgcgaccacttgtggat	13	11	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:48744630C>T	ENST00000341698.2	-	5	572	c.573G>A	c.(571-573)acG>acA	p.T191T	TMEM189_ENST00000371650.5_Silent_p.T188T|TMEM189_ENST00000371652.4_Silent_p.T191T|TMEM189_ENST00000371656.2_Silent_p.T116T|TMEM189_ENST00000557021.1_Silent_p.T191T	NM_001257399.1	NP_001244328.1			TMEM189-UBE2V1 readthrough											breast(1)|endometrium(4)|large_intestine(6)|lung(6)	17			BRCA - Breast invasive adenocarcinoma(9;8.29e-07)			GCCCAAAGTACGTGTGCGACC	0.587																																																0													219	146	171					20																	48744630		2203	4300	6503	SO:0001819	synonymous_variant	387521			U39361	CCDS13424.1	20q13.13	2011-05-31			ENSG00000124208	ENSG00000124208			33521	other	readthrough						11076860	Standard	NM_199203		Approved	Kua-UEV, CROC-1B	uc002xvf.3		OTTHUMG00000033085	ENST00000341698.2:c.573G>A	20.37:g.48744630C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000341698.2	37	CCDS13424.1																																																																																				0.587	TMEM189-UBE2V1-001	KNOWN	basic|appris_principal|readthrough_transcript|CCDS	protein_coding	protein_coding	OTTHUMT00000080532.5			T	48744630	C	T	48744630	2	4	664	1	0	0	0	0	0	0	0	1	16123	523	19	1		1	TMEM189	20	48744630	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	219651	48744630	14280890	1018	42328										
FAM65C	140876	broad.mit.edu	37	chr20	49218734	49218734	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcgagggccacgccaggccCgtcctctctgtccccggttg	12	18	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:49218734C>T	ENST00000327979.2	-	13	1933	c.1522G>A	c.(1522-1524)Ggg>Agg	p.G508R	FAM65C_ENST00000045083.2_Missense_Mutation_p.G508R|FAM65C_ENST00000535356.1_Missense_Mutation_p.G512R			Q96MK2	FA65C_HUMAN	family with sequence similarity 65, member C	508										endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|liver(1)|lung(12)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	29						ACGCCAGGCCCGTCCTCTCTG	0.697																																																0													28	28	28					20																	49218734		2203	4300	6503	SO:0001583	missense	140876			AL133230	CCDS13431.2	20q13.13	2011-11-24	2008-06-13	2008-06-13	ENSG00000042062	ENSG00000042062			16168	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 175", "chromosome 20 open reading frame 176"	C20orf175, C20orf176			Standard	XM_005260294		Approved	dJ530I15.2, dJ530I15.3	uc002xvm.3	Q96MK2	OTTHUMG00000032724	ENST00000327979.2:c.1522G>A	20.37:g.49218734C>T	ENSP00000332663:p.Gly508Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5QPB6|Q9NQQ2	Missense_Mutation	SNP	ENST00000327979.2	37	CCDS13431.2	.	.	.	.	.	.	.	.	.	.	C	11.17	1.559252	0.27827	.	.	ENSG00000042062	ENST00000327979;ENST00000045083;ENST00000535356	T;T;T	0.16597	2.33;2.33;2.33	4.63	-2.66	0.06077	.	0.766780	0.12147	N	0.495269	T	0.07773	0.0195	N	0.21583	0.68	0.09310	N	1	B;B	0.18968	0.013;0.032	B;B	0.14578	0.011;0.006	T	0.33599	-0.9862	10	0.25751	T	0.34	-9.5507	1.9319	0.03328	0.1256:0.437:0.1229:0.3144	.	512;508	F5H0X2;Q96MK2	.;FA65C_HUMAN	R	508;508;512	ENSP00000332663:G508R;ENSP00000045083:G508R;ENSP00000439802:G512R	ENSP00000045083:G508R	G	-	1	0	FAM65C	48652141	0.000000	0.05858	0.000000	0.03702	0.011000	0.07611	-0.606000	0.05654	-0.521000	0.06426	-1.036000	0.02392	GGG		0.697	FAM65C-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257962.1			T	49218734	C	T	49218734	3	4	664	1	0	0	0	0	1	0	0	0	5608	652	23	1	1358	1	FAM65C	20	49218734	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	474104	49218734	13806786	1019	42329										
BCAS1	8537	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr20	52601913	52601913	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcaggttcaggggttgtcacGgactgtgtgtgccccgatgg	17	9	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:52601913G>A	ENST00000395961.3	-	7	1219	c.1053C>T	c.(1051-1053)tcC>tcT	p.S351S	BCAS1_ENST00000371435.2_Silent_p.S351S|BCAS1_ENST00000434986.2_Silent_p.S109S|BCAS1_ENST00000371440.3_Silent_p.S396S	NM_003657.2	NP_003648.2	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	351						cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)				NS(1)|autonomic_ganglia(1)|central_nervous_system(1)|endometrium(2)|large_intestine(3)|lung(23)|ovary(2)|skin(2)|stomach(1)|urinary_tract(1)	37	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			GGGTTGTCACGGACTGTGTGT	0.517																																																0													261	222	235					20																	52601913		2203	4300	6503	SO:0001819	synonymous_variant	8537			AF041260	CCDS13444.1	20q13.2	2006-11-10			ENSG00000064787	ENSG00000064787			974	protein-coding gene	gene with protein product		602968				9671742	Standard	NM_003657		Approved	NABC1, AIBC1	uc002xws.2	O75363	OTTHUMG00000032772	ENST00000395961.3:c.1053C>T	20.37:g.52601913G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0AVG5|Q68CZ3	Silent	SNP	ENST00000395961.3	37	CCDS13444.1	.	.	.	.	.	.	.	.	.	.	G	4.443	0.082021	0.08533	.	.	ENSG00000064787	ENST00000422805	.	.	.	4.44	-6.42	0.01932	.	.	.	.	.	T	0.16385	0.0394	.	.	.	0.09310	N	0.999999	.	.	.	.	.	.	T	0.29941	-0.9995	4	.	.	.	-2.4618	1.8346	0.03137	0.1966:0.1373:0.3962:0.2698	.	.	.	.	L	70	.	.	P	-	2	0	BCAS1	52035320	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-2.874000	0.00718	-0.508000	0.06540	-0.302000	0.09304	CCG		0.517	BCAS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079766.2	NM_003657		A	52601913	G	A	52601913	2	1	664	1	0	0	0	0	0	0	0	1	1350	1103	39	1		1	BCAS1	20	52601913	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3383179	52601913	10423607	1020	42330										
BCAS1	8537	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	52645320	52645320	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgatccaagggatgaatctgCggcttggtctccggtacgtc	13	10	2	2	rs201371925		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:52645320C>T	ENST00000395961.3	-	4	500	c.334G>A	c.(334-336)Gca>Aca	p.A112T	BCAS1_ENST00000371435.2_Missense_Mutation_p.A112T|BCAS1_ENST00000371440.3_Missense_Mutation_p.A112T|BCAS1_ENST00000411563.1_Missense_Mutation_p.A15T	NM_003657.2	NP_003648.2	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	112						cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)				NS(1)|autonomic_ganglia(1)|central_nervous_system(1)|endometrium(2)|large_intestine(3)|lung(23)|ovary(2)|skin(2)|stomach(1)|urinary_tract(1)	37	Breast(2;9.53e-15)|Lung NSC(4;5.57e-06)|all_lung(4;1.44e-05)		STAD - Stomach adenocarcinoma(23;0.116)|Colorectal(105;0.198)			GATGAATCTGCGGCTTGGTCT	0.532																																																0													71	68	69					20																	52645320		2203	4300	6503	SO:0001583	missense	8537			AF041260	CCDS13444.1	20q13.2	2006-11-10			ENSG00000064787	ENSG00000064787			974	protein-coding gene	gene with protein product		602968				9671742	Standard	NM_003657		Approved	NABC1, AIBC1	uc002xws.2	O75363	OTTHUMG00000032772	ENST00000395961.3:c.334G>A	20.37:g.52645320C>T	ENSP00000379290:p.Ala112Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVG5|Q68CZ3	Missense_Mutation	SNP	ENST00000395961.3	37	CCDS13444.1	.	.	.	.	.	.	.	.	.	.	C	1.524	-0.546098	0.04024	.	.	ENSG00000064787	ENST00000371440;ENST00000395961;ENST00000371435;ENST00000411563	T;T;T;T	0.04758	3.56;3.56;3.56;3.56	5.11	-3.93	0.04143	.	0.785958	0.11479	N	0.559912	T	0.00784	0.0026	N	0.00142	-2.005	0.09310	N	0.999999	B;B;B;B;B;B	0.02656	0.0;0.0;0.0;0.0;0.0;0.0	B;B;B;B;B;B	0.01281	0.0;0.0;0.0;0.0;0.0;0.0	T	0.38520	-0.9657	10	0.02654	T	1	-0.4969	4.5089	0.11901	0.5014:0.2285:0.0:0.2701	.	15;112;112;112;112;112	B4E2C4;B2RCQ5;O75363-2;G3XAF7;A0AVG7;O75363	.;.;.;.;.;BCAS1_HUMAN	T	112;112;112;15	ENSP00000360495:A112T;ENSP00000379290:A112T;ENSP00000360490:A112T;ENSP00000397442:A15T	ENSP00000360490:A112T	A	-	1	0	BCAS1	52078727	0.082000	0.21442	0.548000	0.28192	0.660000	0.38997	-0.061000	0.11693	-1.046000	0.03246	-0.414000	0.06135	GCA		0.532	BCAS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079766.2	NM_003657		T	52645320	C	T	52645320	3	4	664	1	0	0	0	0	1	0	0	0	1350	768	27	1	1456	1	BCAS1	20	52645320	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	43407	52645320	10380200	1021	42331										
C20orf107	388799	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr20	55111249	55111249	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agcagagtcctcctggccttCgaggcttcccatttcgcact	9	15	0	1	rs200395408	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:55111249C>T	ENST00000371325.1	+	2	367	c.271C>T	c.(271-273)Cga>Tga	p.R91*		NM_001013646.2	NP_001013668.2	Q5JX69	F209B_HUMAN	family with sequence similarity 209, member B	91						integral component of membrane (GO:0016021)|nucleus (GO:0005634)											TCCTGGCCTTCGAGGCTTCCC	0.408													C|||	2	0.000399361	0.0015	0.0	5008	,	,		21293	0.0		0.0	False		,,,				2504	0.0															0													89	91	90					20																	55111249		2203	4300	6503	SO:0001587	stop_gained	388799			AL109806	CCDS33494.1	20q13.31	2011-11-24	2011-11-24	2011-11-24	ENSG00000213714	ENSG00000213714			16101	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 107"	C20orf107			Standard	NM_001013646		Approved	dJ1153D9.4	uc002xxz.4	Q5JX69	OTTHUMG00000032800	ENST00000371325.1:c.271C>T	20.37:g.55111249C>T	ENSP00000360376:p.Arg91*	Somatic		WXS	Illumina HiSeq	Phase_I	Q3KRB5	Nonsense_Mutation	SNP	ENST00000371325.1	37	CCDS33494.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	C	19.90	3.913153	0.72983	.	.	ENSG00000213714	ENST00000371325	.	.	.	2.71	2.71	0.32032	.	0.451422	0.16428	U	0.214854	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-7.8967	9.076	0.36522	0.0:1.0:0.0:0.0	.	.	.	.	X	91	.	ENSP00000360376:R91X	R	+	1	2	C20orf107	54544656	0.280000	0.24249	0.316000	0.25252	0.524000	0.34500	0.976000	0.29462	1.829000	0.53265	0.491000	0.48974	CGA		0.408	FAM209B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079816.1			T	55111249	C	T	55111249	4	4	664	1	0	0	0	0	0	1	0	0	2079	876	31	1	277	1	C20orf107	20	55111249	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2465929	55111249	7914271	1022	42332										
BMP7	655	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	55803427	55803427	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gatcttggaaagatcaaaccGgaactctcgatggtggtagc	12	8	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:55803427G>A	ENST00000395863.3	-	2	974	c.469C>T	c.(469-471)Cgg>Tgg	p.R157W	BMP7_ENST00000395864.3_Missense_Mutation_p.R157W|BMP7_ENST00000450594.2_Missense_Mutation_p.R157W	NM_001719.2	NP_001710.1	P18075	BMP7_HUMAN	bone morphogenetic protein 7	157					axon guidance (GO:0007411)|BMP signaling pathway (GO:0030509)|branching involved in salivary gland morphogenesis (GO:0060445)|branching morphogenesis of an epithelial tube (GO:0048754)|cartilage development (GO:0051216)|cellular response to hypoxia (GO:0071456)|dendrite development (GO:0016358)|embryonic camera-type eye morphogenesis (GO:0048596)|embryonic limb morphogenesis (GO:0030326)|embryonic pattern specification (GO:0009880)|embryonic skeletal joint morphogenesis (GO:0060272)|epithelial cell differentiation (GO:0030855)|epithelial to mesenchymal transition (GO:0001837)|extracellular matrix organization (GO:0030198)|growth (GO:0040007)|mesenchymal cell differentiation (GO:0048762)|mesenchyme development (GO:0060485)|mesoderm formation (GO:0001707)|mesonephros development (GO:0001823)|metanephric mesenchymal cell proliferation involved in metanephros development (GO:0072136)|metanephric mesenchyme morphogenesis (GO:0072133)|metanephros development (GO:0001656)|monocyte aggregation (GO:0070487)|negative regulation of cell cycle (GO:0045786)|negative regulation of cell death (GO:0060548)|negative regulation of glomerular mesangial cell proliferation (GO:0072125)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of mesenchymal cell apoptotic process involved in nephron morphogenesis (GO:0072040)|negative regulation of mitosis (GO:0045839)|negative regulation of neurogenesis (GO:0050768)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of NF-kappaB import into nucleus (GO:0042347)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of Notch signaling pathway (GO:0045746)|negative regulation of phosphorylation (GO:0042326)|negative regulation of prostatic bud formation (GO:0060686)|negative regulation of striated muscle cell apoptotic process (GO:0010664)|negative regulation of transcription, DNA-templated (GO:0045892)|nephrogenic mesenchyme morphogenesis (GO:0072134)|neuron projection morphogenesis (GO:0048812)|odontogenesis of dentin-containing tooth (GO:0042475)|ossification (GO:0001503)|positive regulation of apoptotic process (GO:0043065)|positive regulation of bone mineralization (GO:0030501)|positive regulation of dendrite development (GO:1900006)|positive regulation of heterotypic cell-cell adhesion (GO:0034116)|positive regulation of hyaluranon cable assembly (GO:1900106)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of pathway-restricted SMAD protein phosphorylation (GO:0010862)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein localization to nucleus (GO:0034504)|regulation of branching involved in prostate gland morphogenesis (GO:0060687)|regulation of pathway-restricted SMAD protein phosphorylation (GO:0060393)|regulation of removal of superoxide radicals (GO:2000121)|response to estradiol (GO:0032355)|response to peptide hormone (GO:0043434)|response to vitamin D (GO:0033280)|skeletal system development (GO:0001501)|SMAD protein signal transduction (GO:0060395)|steroid hormone mediated signaling pathway (GO:0043401)|ureteric bud development (GO:0001657)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|membrane-bounded vesicle (GO:0031988)	heparin binding (GO:0008201)			endometrium(4)|kidney(1)|large_intestine(7)|lung(6)|prostate(1)|skin(1)	20	all_lung(29;0.0133)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;2.49e-13)|Epithelial(14;1.74e-08)|all cancers(14;2.05e-07)			AGATCAAACCGGAACTCTCGA	0.512																																																0													168	165	166					20																	55803427		2203	4300	6503	SO:0001583	missense	655				CCDS13455.1	20q13	2014-01-30	2008-05-22		ENSG00000101144	ENSG00000101144		"Bone morphogenetic proteins", "Endogenous ligands"	1074	protein-coding gene	gene with protein product	"osteogenic protein 1"	112267				1427904	Standard	NM_001719		Approved	OP-1	uc010gip.1	P18075	OTTHUMG00000032812	ENST00000395863.3:c.469C>T	20.37:g.55803427G>A	ENSP00000379204:p.Arg157Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H512|Q9NTQ7	Missense_Mutation	SNP	ENST00000395863.3	37	CCDS13455.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	15.15|15.15	2.748028|2.748028	0.49257|0.49257	.|.	.|.	ENSG00000101144|ENSG00000101144	ENST00000433911|ENST00000395863;ENST00000395864;ENST00000450594	.|T;T;T	.|0.64438	.|-0.1;-0.1;-0.1	5.33|5.33	4.32|4.32	0.51571|0.51571	.|Transforming growth factor-beta, N-terminal (1);	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.72236|0.72236	0.3435|0.3435	L|L	0.47016|0.47016	1.485|1.485	0.80722|0.80722	D|D	1|1	.|B;B;D	.|0.89917	.|0.066;0.02;1.0	.|B;B;D	.|0.85130	.|0.039;0.013;0.997	T|T	0.69483|0.69483	-0.5133|-0.5133	5|10	.|0.34782	.|T	.|0.22	.|.	15.5359|15.5359	0.76001|0.76001	0.0:0.0:0.8035:0.1965|0.0:0.0:0.8035:0.1965	.|.	.|157;157;157	.|B1AKZ9;P18075;B1AL00	.|.;BMP7_HUMAN;.	L|W	42|157	.|ENSP00000379204:R157W;ENSP00000379205:R157W;ENSP00000398687:R157W	.|ENSP00000379204:R157W	P|R	-|-	2|1	0|2	BMP7|BMP7	55236834|55236834	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.975000|0.975000	0.68041|0.68041	3.728000|3.728000	0.54991|0.54991	2.644000|2.644000	0.89710|0.89710	0.655000|0.655000	0.94253|0.94253	CCG|CGG		0.512	BMP7-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000079831.2			A	55803427	G	A	55803427	3	1	664	1	0	0	0	0	1	0	0	0	1465	1115	39	1	850	1	BMP7	20	55803427	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	692178	55803427	7222093	1023	42333										
ZBP1	81030	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr20	56185305	56185305	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttgctgttgccgatggtggcGtcctcgagaaagcacgattt	13	9	0	1	rs186925447		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:56185305G>A	ENST00000371173.3	-	7	1170	c.993C>T	c.(991-993)gaC>gaT	p.D331D	ZBP1_ENST00000340462.4_Silent_p.D308D|ZBP1_ENST00000395822.3_Silent_p.D256D|ZBP1_ENST00000343535.4_Silent_p.D331D	NM_001160417.1|NM_030776.2	NP_001153889.1|NP_110403.2	Q9H171	ZBP1_HUMAN	Z-DNA binding protein 1	331					innate immune response (GO:0045087)|positive regulation of type I interferon production (GO:0032481)|positive regulation of type I interferon-mediated signaling pathway (GO:0060340)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	DNA binding (GO:0003677)|double-stranded RNA adenosine deaminase activity (GO:0003726)|left-handed Z-DNA binding (GO:0003692)|RNA binding (GO:0003723)	p.D331D(1)		large_intestine(11)|lung(8)|ovary(4)|prostate(1)|skin(2)|urinary_tract(1)	27	Lung NSC(12;0.000545)|all_lung(29;0.00195)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;7.87e-13)|Epithelial(14;3.26e-09)|all cancers(14;3.62e-08)			CGATGGTGGCGTCCTCGAGAA	0.597													G|||	1	0.000199681	0.0	0.0	5008	,	,		18253	0.001		0.0	False		,,,				2504	0.0															1	Substitution - coding silent(1)	large_intestine(1)						G	,,	1,4405	2.1+/-5.4	0,1,2202	209	213	211		990,768,993	-6.6	0	20		211	0,8600		0,0,4300	no	coding-synonymous,coding-synonymous,coding-synonymous	ZBP1	NM_001160417.1,NM_001160418.1,NM_030776.2	,,	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	,,	330/429,256/355,331/430	56185305	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	81030			AJ300575	CCDS13461.1, CCDS54477.1, CCDS54478.1	20q13.31	2009-08-21	2002-07-25	2002-07-26	ENSG00000124256	ENSG00000124256			16176	protein-coding gene	gene with protein product	"DNA-dependent activator of IRFs"	606750	"chromosome 20 open reading frame 183"	C20orf183		11842111	Standard	NM_030776		Approved	dJ718J7.3, DLM1, DLM-1, DAI	uc002xyo.3	Q9H171	OTTHUMG00000032824	ENST00000371173.3:c.993C>T	20.37:g.56185305G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2A2F7|B3KVA1|F5GYT1|Q5JY39|Q9BYW4	Silent	SNP	ENST00000371173.3	37	CCDS13461.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	G	2.819	-0.245245	0.05906	2.27E-4	0.0	ENSG00000124256	ENST00000453793	.	.	.	4.03	-6.57	0.01842	.	.	.	.	.	T	0.24967	0.0606	.	.	.	0.09310	N	1	.	.	.	.	.	.	T	0.27400	-1.0075	4	.	.	.	-18.5432	6.8038	0.23766	0.4777:0.2171:0.3052:0.0	.	.	.	.	M	6	.	.	T	-	2	0	ZBP1	55618711	0.000000	0.05858	0.000000	0.03702	0.005000	0.04900	-1.448000	0.02394	-1.778000	0.01282	-1.564000	0.00881	ACG		0.597	ZBP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079849.1	NM_030776		A	56185305	G	A	56185305	2	1	664	1	0	0	0	0	0	0	0	1	17533	1136	40	1		1	ZBP1	20	56185305	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	381878	56185305	6840215	1024	42334										
PMEPA1	56937	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr20	56227600	56227600	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtggaagcgctcccgctgggCgaagggcggcacggccaggc	19	13	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:56227600C>T	ENST00000341744.3	-	4	692	c.373G>A	c.(373-375)Gcc>Acc	p.A125T	PMEPA1_ENST00000395816.3_Missense_Mutation_p.A75T|PMEPA1_ENST00000395814.1_Missense_Mutation_p.A75T|PMEPA1_ENST00000265626.4_Missense_Mutation_p.A75T|PMEPA1_ENST00000347215.4_Missense_Mutation_p.A90T	NM_020182.4	NP_064567.2	Q969W9	PMEPA_HUMAN	prostate transmembrane protein, androgen induced 1	125					androgen receptor signaling pathway (GO:0030521)|negative regulation of pathway-restricted SMAD protein phosphorylation (GO:0060394)|negative regulation of SMAD protein complex assembly (GO:0010991)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|transforming growth factor beta receptor signaling pathway (GO:0007179)	early endosome membrane (GO:0031901)|endosome membrane (GO:0010008)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	R-SMAD binding (GO:0070412)|WW domain binding (GO:0050699)			breast(3)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(4)|pancreas(1)|prostate(1)	16						TCCCGCTGGGCGAAGGGCGGC	0.706																																																0													20	21	21					20																	56227600		2198	4286	6484	SO:0001583	missense	56937			AF224278	CCDS13462.1, CCDS13463.1, CCDS13464.1	20q13.31-q13.33	2008-04-03	2008-04-03	2008-04-03	ENSG00000124225	ENSG00000124225			14107	protein-coding gene	gene with protein product	"solid tumor-associated 1"	606564	"transmembrane, prostate androgen induced RNA"	TMEPAI		10873380	Standard	NM_020182		Approved	STAG1	uc002xyq.4	Q969W9	OTTHUMG00000032831	ENST00000341744.3:c.373G>A	20.37:g.56227600C>T	ENSP00000345826:p.Ala125Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TDR6|Q8NER4|Q96B72|Q9UJD3	Missense_Mutation	SNP	ENST00000341744.3	37	CCDS13463.1	.	.	.	.	.	.	.	.	.	.	C	11.05	1.524389	0.27299	.	.	ENSG00000124225	ENST00000341744;ENST00000347215;ENST00000395816;ENST00000265626;ENST00000395814;ENST00000414037;ENST00000395819	T;T;T;T;T;T;T	0.45668	0.89;0.9;0.92;0.92;0.92;0.9;0.9	5.32	-5.54	0.02544	.	0.645184	0.15683	N	0.249802	T	0.14743	0.0356	N	0.11255	0.115	0.22835	N	0.998677	B;B	0.13594	0.003;0.008	B;B	0.06405	0.001;0.002	T	0.06552	-1.0820	10	0.34782	T	0.22	-17.5275	1.6546	0.02779	0.1716:0.1762:0.1887:0.4634	.	90;125	Q5JY37;Q969W9	.;PMEPA_HUMAN	T	125;90;75;75;75;97;182	ENSP00000345826:A125T;ENSP00000344014:A90T;ENSP00000379161:A75T;ENSP00000265626:A75T;ENSP00000379159:A75T;ENSP00000401506:A97T;ENSP00000379164:A182T	ENSP00000265626:A75T	A	-	1	0	PMEPA1	55661006	0.000000	0.05858	0.918000	0.36340	0.589000	0.36550	-1.384000	0.02542	-0.775000	0.04584	-0.216000	0.12614	GCC		0.706	PMEPA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079858.2	NM_020182		T	56227600	C	T	56227600	3	4	664	1	0	0	0	0	1	0	0	0	12139	768	27	1	494	1	PMEPA1	20	56227600	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	42295	56227600	6797920	1025	42335										
ZNF831	128611	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr20	57769704	57769704	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tctgtgtacttggcggtgcaCtttcctggtagcagcctccg	12	12	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:57769704C>T	ENST00000371030.2	+	1	3630	c.3630C>T	c.(3628-3630)caC>caT	p.H1210H		NM_178457.1	NP_848552.1	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1210							metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(15)|lung(71)|ovary(2)|pancreas(1)|prostate(4)|skin(16)|upper_aerodigestive_tract(2)|urinary_tract(3)	125	all_lung(29;0.0085)					TGGCGGTGCACTTTCCTGGTA	0.642																																																0													31	36	34					20																	57769704		2094	4220	6314	SO:0001819	synonymous_variant	128611			AL121919	CCDS42894.1	20q13.32	2008-10-20	2008-03-25	2008-03-25	ENSG00000124203	ENSG00000124203			16167	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 174"	C20orf174			Standard	NM_178457		Approved	dJ492J12.1	uc002yan.3	Q5JPB2	OTTHUMG00000032864	ENST00000371030.2:c.3630C>T	20.37:g.57769704C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TDR4|Q8TCP0	Silent	SNP	ENST00000371030.2	37	CCDS42894.1																																																																																				0.642	ZNF831-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000079916.2	NM_178457		T	57769704	C	T	57769704	2	4	664	1	0	0	0	0	0	0	0	1	18197	564	20	2		2	ZNF831	20	57769704	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1542104	57769704	5255816	1026	42336										
EDN3	1908	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr20	57899467	57899467	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccggcagtggactcgccctcGctccatctacctgcccccgc	9	21	1	0	rs11570351	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:57899467G>A	ENST00000337938.2	+	5	1056	c.670G>A	c.(670-672)Gct>Act	p.A224T	EDN3_ENST00000371028.2_Missense_Mutation_p.A224T|EDN3_ENST00000371025.3_3'UTR|EDN3_ENST00000395654.3_Missense_Mutation_p.A210T|EDN3_ENST00000311585.7_3'UTR	NM_207034.1	NP_996917.1	P14138	EDN3_HUMAN	endothelin 3	224			A -> T (in HSCR4; dbSNP:rs11570351). {ECO:0000269|PubMed:9359047}.		blood circulation (GO:0008015)|cell surface receptor signaling pathway (GO:0007166)|cell-cell signaling (GO:0007267)|inositol phosphate-mediated signaling (GO:0048016)|melanocyte differentiation (GO:0030318)|multicellular organismal development (GO:0007275)|neural crest cell migration (GO:0001755)|neuron differentiation (GO:0030182)|neutrophil chemotaxis (GO:0030593)|peptide hormone secretion (GO:0030072)|positive regulation of cell proliferation (GO:0008284)|positive regulation of heart rate (GO:0010460)|positive regulation of hormone secretion (GO:0046887)|positive regulation of leukocyte chemotaxis (GO:0002690)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of mitosis (GO:0045840)|regulation of developmental pigmentation (GO:0048070)|regulation of systemic arterial blood pressure by endothelin (GO:0003100)|regulation of vasoconstriction (GO:0019229)|signal transduction (GO:0007165)|vasoconstriction (GO:0042310)|vein smooth muscle contraction (GO:0014826)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	hormone activity (GO:0005179)|receptor binding (GO:0005102)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|liver(1)|lung(9)|skin(2)|upper_aerodigestive_tract(2)	19	all_lung(29;0.0115)					ACTCGCCCTCGCTCCATCTAC	0.592													G|||	7	0.00139776	0.0053	0.0	5008	,	,		15172	0.0		0.0	False		,,,				2504	0.0															0			GRCh37	CM972864	EDN3	M	rs11570351	G	THR/ALA,,THR/ALA,THR/ALA	21,4385	28.1+/-56.4	0,21,2182	93	94	94	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	670,,628,670	0.2	0	20	dbSNP_120	94	1,8599	1.2+/-3.3	0,1,4299	yes	missense,utr-3,missense,missense	EDN3	NM_000114.2,NM_207032.1,NM_207033.1,NM_207034.1	58,,58,58	0,22,6481	AA,AG,GG		0.0116,0.4766,0.1692	benign,,benign,benign	224/239,,210/225,224/239	57899467	22,12984	2203	4300	6503	SO:0001583	missense	1908			X52001	CCDS13477.1, CCDS13478.1, CCDS13479.1	20q13.2-q13.3	2013-02-26			ENSG00000124205	ENSG00000124205		"Endogenous ligands"	3178	protein-coding gene	gene with protein product		131242					Standard	NM_000114		Approved	ET3	uc002yaq.3	P14138	OTTHUMG00000032867	ENST00000337938.2:c.670G>A	20.37:g.57899467G>A	ENSP00000337128:p.Ala224Thr	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5I5|Q03229|Q7Z6D2|Q9UGT7	Missense_Mutation	SNP	ENST00000337938.2	37	CCDS13477.1	5	0.0022893772893772895	5	0.01016260162601626	0	0.0	0	0.0	0	0.0	G	10.61	1.399258	0.25291	0.004766	1.16E-4	ENSG00000124205	ENST00000337938;ENST00000371028;ENST00000395654	D;D;D	0.96232	-2.15;-2.15;-3.95	4.51	0.201	0.15186	.	.	.	.	.	D	0.86439	0.5933	N	0.22421	0.69	0.09310	N	1	B;B	0.32350	0.366;0.251	B;B	0.23419	0.046;0.021	T	0.80797	-0.1222	9	0.62326	D	0.03	.	4.04	0.09746	0.2984:0.1754:0.5262:0.0	rs11570351	210;224	P14138-2;P14138	.;EDN3_HUMAN	T	224;224;210	ENSP00000337128:A224T;ENSP00000360067:A224T;ENSP00000379015:A210T	ENSP00000337128:A224T	A	+	1	0	EDN3	57332862	0.000000	0.05858	0.000000	0.03702	0.004000	0.04260	-0.158000	0.10070	-0.021000	0.14009	-0.251000	0.11542	GCT		0.592	EDN3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079919.2	NM_000114		A	57899467	G	A	57899467	3	1	664	1	0	0	0	0	1	0	0	0	4920	1087	38	1	727	1	EDN3	20	57899467	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	129763	57899467	5126053	1027	42337										
HRH3	11255	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	60791451	60791451	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcccctcttgagtgagcgcgGcctctcagtgcccctcgagg	13	16	2	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:60791451G>A	ENST00000340177.5	-	3	1233	c.949C>T	c.(949-951)Ccg>Tcg	p.P317S	HRH3_ENST00000317393.6_Missense_Mutation_p.P317S	NM_007232.2	NP_009163.2	Q9Y5N1	HRH3_HUMAN	histamine receptor H3	317					brain development (GO:0007420)|drinking behavior (GO:0042756)|eating behavior (GO:0042755)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|learning (GO:0007612)|memory (GO:0007613)|negative regulation of adenylate cyclase activity (GO:0007194)|negative regulation of blood pressure (GO:0045776)|negative regulation of gamma-aminobutyric acid secretion (GO:0014053)|negative regulation of glutamate secretion (GO:0014050)|negative regulation of serotonin secretion (GO:0014063)|neurotransmitter secretion (GO:0007269)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of epithelial cell proliferation (GO:0050679)|regulation of norepinephrine secretion (GO:0014061)|response to organic cyclic compound (GO:0014070)	integral component of plasma membrane (GO:0005887)|myelin sheath (GO:0043209)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)	drug binding (GO:0008144)|histamine receptor activity (GO:0004969)			breast(1)|endometrium(1)|lung(4)|skin(2)|upper_aerodigestive_tract(1)	9	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;7.08e-07)		Betahistine(DB06698)|Histamine Phosphate(DB00667)|Mirtazapine(DB00370)	AGTGAGCGCGGCCTCTCAGTG	0.706																																																0													7	7	7					20																	60791451		2146	4213	6359	SO:0001583	missense	11255			AF140538	CCDS13493.1	20q13.33	2013-09-19			ENSG00000101180	ENSG00000101180		"GPCR / Class A : Histamine receptors"	5184	protein-coding gene	gene with protein product		604525				10347254	Standard	NM_007232		Approved	GPCR97	uc002ycf.2	Q9Y5N1	OTTHUMG00000032899	ENST00000340177.5:c.949C>T	20.37:g.60791451G>A	ENSP00000342560:p.Pro317Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q4QRI7|Q9GZX2|Q9H4K8	Missense_Mutation	SNP	ENST00000340177.5	37	CCDS13493.1	.	.	.	.	.	.	.	.	.	.	G	11.45	1.643694	0.29246	.	.	ENSG00000101180	ENST00000340177;ENST00000317393;ENST00000370797	T;T	0.69040	-0.3;-0.37	4.8	4.8	0.61643	GPCR, rhodopsin-like superfamily (1);	0.239450	0.36972	N	0.002304	T	0.55878	0.1948	M	0.64997	1.995	0.09310	N	1	B;B	0.24823	0.112;0.051	B;B	0.24541	0.032;0.054	T	0.44360	-0.9333	10	0.07482	T	0.82	-16.1255	7.4237	0.27085	0.0829:0.0:0.6663:0.2508	.	317;317	Q9Y5N1-2;Q9Y5N1	.;HRH3_HUMAN	S	317;317;287	ENSP00000342560:P317S;ENSP00000321482:P317S	ENSP00000321482:P317S	P	-	1	0	HRH3	60224846	0.961000	0.32948	0.987000	0.45799	0.965000	0.64279	2.510000	0.45468	2.185000	0.69588	0.407000	0.27541	CCG		0.706	HRH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079994.1	NM_007232		A	60791451	G	A	60791451	3	1	664	1	0	0	0	0	1	0	0	0	7364	1203	42	2	392	2	HRH3	20	60791451	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2891984	60791451	2234069	1028	42338										
C20orf20	55257	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	61429984	61429984	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgaatccagagaggaacttcGtccttccagaagagatcatt	9	10	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:61429984G>A	ENST00000370487.3	+	3	387	c.316G>A	c.(316-318)Gtc>Atc	p.V106I	OGFR-AS1_ENST00000431361.1_RNA	NM_018270.4	NP_060740.1	Q9NV56	MRGBP_HUMAN	MRG/MORF4L binding protein	106					chromatin modification (GO:0016568)|chromatin organization (GO:0006325)|regulation of growth (GO:0040008)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	H4/H2A histone acetyltransferase complex (GO:0043189)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)											GAGGAACTTCGTCCTTCCAGA	0.483																																																0													142	141	142					20																	61429984		2203	4300	6503	SO:0001583	missense	55257			AK001776	CCDS13503.1	20q13.33	2012-10-29	2012-10-29	2012-10-29	ENSG00000101189	ENSG00000101189			15866	protein-coding gene	gene with protein product		611157	"chromosome 20 open reading frame 20"	C20orf20		12963728	Standard	NM_018270		Approved	FLJ10914, MRG15BP, Eaf7	uc002ydi.3	Q9NV56	OTTHUMG00000032940	ENST00000370487.3:c.316G>A	20.37:g.61429984G>A	ENSP00000359518:p.Val106Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8C4L5	Missense_Mutation	SNP	ENST00000370487.3	37	CCDS13503.1	.	.	.	.	.	.	.	.	.	.	G	12.94	2.089004	0.36855	.	.	ENSG00000101189	ENST00000370487	.	.	.	5.16	2.97	0.34412	.	0.301114	0.36893	N	0.002358	T	0.12263	0.0298	N	0.01482	-0.84	0.28329	N	0.921897	B	0.15473	0.013	B	0.12156	0.007	T	0.11665	-1.0578	9	0.33940	T	0.23	-21.2312	6.3757	0.21505	0.429:0.0:0.571:0.0	.	106	Q9NV56	MRGBP_HUMAN	I	106	.	ENSP00000359518:V106I	V	+	1	0	C20orf20	60900429	0.982000	0.34865	0.993000	0.49108	0.989000	0.77384	1.498000	0.35660	1.154000	0.42482	0.561000	0.74099	GTC		0.483	MRGBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080080.1	NM_018270		A	61429984	G	A	61429984	3	1	664	1	0	0	0	0	1	0	0	0	2105	1145	40	1	326	1	C20orf20	20	61429984	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	638533	61429984	1595536	1029	42339										
NKAIN4	128414	broad.mit.edu;mdanderson.org	37	chr20	61878938	61878938	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccccacgctcaccgcgatcaGgatctgcaggcaactgtgta	10	15	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:61878938G>A	ENST00000370316.3	-	4	552	c.463C>T	c.(463-465)Ctg>Ttg	p.L155L	NKAIN4_ENST00000370307.2_Silent_p.L93L|NKAIN4_ENST00000370313.1_Silent_p.L93L|NKAIN4_ENST00000466885.1_5'UTR	NM_152864.3	NP_690603.3	Q8IVV8	NKAI4_HUMAN	Na+/K+ transporting ATPase interacting 4	155						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				endometrium(2)|lung(1)|ovary(1)	4	all_cancers(38;2.72e-09)					ACCGCGATCAGGATCTGCAGG	0.701																																																0													19	17	18					20																	61878938		1898	3620	5518	SO:0001819	synonymous_variant	128414			BC041812	CCDS13514.1	20q13.33	2007-10-04	2007-10-04	2007-10-04	ENSG00000101198	ENSG00000101198		"Na+/K+ transporting ATPase interacting"	16191	protein-coding gene	gene with protein product		612873	"chromosome 20 open reading frame 58"	C20orf58		17606467	Standard	NM_152864		Approved	bA261N11.2, FAM77A	uc002yek.3	Q8IVV8	OTTHUMG00000032959	ENST00000370316.3:c.463C>T	20.37:g.61878938G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q4VXQ6|Q9BQU8|Q9BQU9	Silent	SNP	ENST00000370316.3	37	CCDS13514.1																																																																																				0.701	NKAIN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080117.3	NM_152864		A	61878938	G	A	61878938	2	1	664	1	0	0	0	0	0	0	0	1	10445	991	35	2		2	NKAIN4	20	61878938	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	448954	61878938	1146582	1030	42340										
CHRNA4	1137	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr20	61981545	61981545	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccagggggacacagaaggaCggtgagggcgggtgcaggct	20	8	0	2	rs200528988		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:61981545C>T	ENST00000370263.4	-	5	1439	c.1218G>A	c.(1216-1218)ccG>ccA	p.P406P	CHRNA4_ENST00000463705.1_5'UTR	NM_000744.6|NM_001256573.1	NP_000735.1|NP_001243502.1	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 (neuronal)	406					action potential (GO:0001508)|B cell activation (GO:0042113)|behavioral response to nicotine (GO:0035095)|calcium ion transport (GO:0006816)|cation transmembrane transport (GO:0098655)|cognition (GO:0050890)|DNA repair (GO:0006281)|exploration behavior (GO:0035640)|ion transmembrane transport (GO:0034220)|ion transport (GO:0006811)|locomotory behavior (GO:0007626)|membrane depolarization (GO:0051899)|neurological system process (GO:0050877)|regulation of dopamine secretion (GO:0014059)|regulation of inhibitory postsynaptic membrane potential (GO:0060080)|regulation of membrane potential (GO:0042391)|respiratory gaseous exchange (GO:0007585)|response to hypoxia (GO:0001666)|response to nicotine (GO:0035094)|response to oxidative stress (GO:0006979)|sensory perception of pain (GO:0019233)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|synaptic transmission, cholinergic (GO:0007271)	acetylcholine-gated channel complex (GO:0005892)|cell junction (GO:0030054)|dendrite (GO:0030425)|external side of plasma membrane (GO:0009897)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	acetylcholine binding (GO:0042166)|acetylcholine receptor activity (GO:0015464)|acetylcholine-activated cation-selective channel activity (GO:0004889)|ligand-gated ion channel activity (GO:0015276)			breast(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(19)|prostate(3)|skin(3)|soft_tissue(1)	33	all_cancers(38;1.71e-10)				Amobarbital(DB01351)|Aprobarbital(DB01352)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Dextromethorphan(DB00514)|Galantamine(DB00674)|Heptabarbital(DB01354)|Hexobarbital(DB01355)|Methylphenobarbital(DB00849)|Nicotine(DB00184)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Primidone(DB00794)|Secobarbital(DB00418)|Talbutal(DB00306)|Thiopental(DB00599)|Varenicline(DB01273)	CACAGAAGGACGGTGAGGGCG	0.672																																																0													15	14	15					20																	61981545		2191	4283	6474	SO:0001819	synonymous_variant	1137				CCDS13517.1	20q13.33	2013-09-20	2012-02-07		ENSG00000101204	ENSG00000101204		"Cholinergic receptors", "Ligand-gated ion channels / Acetylcholine receptors, nicotinic"	1958	protein-coding gene	gene with protein product	"acetylcholine receptor, nicotinic, alpha 4 (neuronal)"	118504	"cholinergic receptor, nicotinic, alpha polypeptide 4"	EBN, EBN1		1505988	Standard	NM_000744		Approved	BFNC	uc002yes.3	P43681	OTTHUMG00000033080	ENST00000370263.4:c.1218G>A	20.37:g.61981545C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q4JGR7|Q4VAQ5|Q4VAQ6	Silent	SNP	ENST00000370263.4	37	CCDS13517.1																																																																																				0.672	CHRNA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080508.3			T	61981545	C	T	61981545	2	4	664	1	0	0	0	0	0	0	0	1	3387	523	19	1		1	CHRNA4	20	61981545	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	102607	61981545	1043975	1031	42341										
KCNQ2	3785	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr20	62065203	62065203	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gttcgctcgtagtactgccaCgtggagtgcaggtctgtgcg	15	10	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:62065203C>T	ENST00000359125.2	-	8	1251	c.1077G>A	c.(1075-1077)acG>acA	p.T359T	KCNQ2_ENST00000354587.3_Silent_p.T359T|KCNQ2_ENST00000359689.1_Silent_p.T359T|KCNQ2_ENST00000344462.4_Silent_p.T359T|KCNQ2_ENST00000482957.1_5'UTR|KCNQ2_ENST00000360480.3_Silent_p.T359T|KCNQ2_ENST00000344425.5_Silent_p.T359T|KCNQ2_ENST00000370224.1_Silent_p.T359T|KCNQ2_ENST00000357249.2_Silent_p.T359T	NM_172107.2	NP_742105.1	O43526	KCNQ2_HUMAN	potassium voltage-gated channel, KQT-like subfamily, member 2	359					axon guidance (GO:0007411)|nervous system development (GO:0007399)|potassium ion transport (GO:0006813)|synaptic transmission (GO:0007268)|transmission of nerve impulse (GO:0019226)	axon initial segment (GO:0043194)|node of Ranvier (GO:0033268)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	ankyrin binding (GO:0030506)|delayed rectifier potassium channel activity (GO:0005251)|potassium channel activity (GO:0005267)|voltage-gated potassium channel activity (GO:0005249)			biliary_tract(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(4)|liver(1)|lung(30)|ovary(2)|prostate(4)|skin(3)|upper_aerodigestive_tract(1)	65	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)|Diclofenac(DB00586)|Ezogabine(DB04953)|Meclofenamic acid(DB00939)	AGTACTGCCACGTGGAGTGCA	0.592																																																0													136	112	120					20																	62065203		2203	4300	6503	SO:0001819	synonymous_variant	3785			AF033348	CCDS13518.1, CCDS13519.1, CCDS13520.1, CCDS13521.1, CCDS46629.1	20q13.33	2012-07-05			ENSG00000075043	ENSG00000075043		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6296	protein-coding gene	gene with protein product		602235		EBN, EBN1		9425895, 16382104	Standard	NM_172107		Approved	Kv7.2, ENB1, BFNC, KCNA11, HNSPC	uc002yex.3	O43526	OTTHUMG00000033049	ENST00000359125.2:c.1077G>A	20.37:g.62065203C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O43796|O75580|O95845|Q4VXP4|Q4VXR6|Q5VYT8|Q96J59|Q99454	Silent	SNP	ENST00000359125.2	37	CCDS13520.1																																																																																				0.592	KCNQ2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000080353.1	NM_172109		T	62065203	C	T	62065203	2	4	664	1	0	0	0	0	0	0	0	1	8090	523	19	1		1	KCNQ2	20	62065203	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	83658	62065203	960317	1032	42342										
C20orf195	79025	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr20	62187191	62187191	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgacctcggacctgagtccgCacctgctcaagcgccaccac	9	18	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:62187191C>T	ENST00000370098.3	+	2	267	c.175C>T	c.(175-177)Cac>Tac	p.H59Y	C20orf195_ENST00000370097.1_Missense_Mutation_p.H59Y	NM_024059.2	NP_076964.1	Q9BVV2	CT195_HUMAN	chromosome 20 open reading frame 195	59						extracellular vesicular exosome (GO:0070062)				large_intestine(3)|lung(4)	7	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)			CCTGAGTCCGCACCTGCTCAA	0.647																																																0													60	54	56					20																	62187191		2203	4300	6503	SO:0001583	missense	79025				CCDS13526.1	20q13.33	2014-02-12			ENSG00000125531	ENSG00000125531			28764	protein-coding gene	gene with protein product						12477932	Standard	NM_024059		Approved	MGC5356	uc002yfj.3	Q9BVV2	OTTHUMG00000032980	ENST00000370098.3:c.175C>T	20.37:g.62187191C>T	ENSP00000359116:p.His59Tyr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000370098.3	37	CCDS13526.1	.	.	.	.	.	.	.	.	.	.	C	9.739	1.164239	0.21538	.	.	ENSG00000125531	ENST00000370098;ENST00000370097	.	.	.	5.26	4.31	0.51392	.	0.121992	0.36303	N	0.002662	T	0.26846	0.0657	N	0.24115	0.695	0.24081	N	0.995942	P	0.45176	0.852	B	0.43783	0.431	T	0.09930	-1.0652	9	0.66056	D	0.02	-28.4762	8.4646	0.32949	0.1533:0.7689:0.0:0.0778	.	59	Q9BVV2	CT195_HUMAN	Y	59	.	ENSP00000359115:H59Y	H	+	1	0	C20orf195	61657635	0.306000	0.24490	0.489000	0.27452	0.313000	0.28021	2.399000	0.44495	1.203000	0.43233	0.655000	0.94253	CAC		0.647	C20orf195-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080155.1	NM_024059		T	62187191	C	T	62187191	3	4	664	1	0	0	0	0	1	0	0	0	2102	710	25	2	177	2	C20orf195	20	62187191	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	121988	62187191	838329	1033	42343										
PRIC285	85441	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	62200925	62200925	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cacacggaagcgctcaccccGtgcgtagagccggcctggcg	14	16	1	1	rs371600411	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:62200925G>A	ENST00000467148.1	-	4	733	c.664C>T	c.(664-666)Cgg>Tgg	p.R222W	HELZ2_ENST00000479540.1_5'Flank|HELZ2_ENST00000427522.2_5'Flank	NM_001037335.2	NP_001032412.2	Q9BYK8	HELZ2_HUMAN	helicase with zinc finger 2, transcriptional coactivator	222					cellular lipid metabolic process (GO:0044255)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	membrane (GO:0016020)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)										CGCTCACCCCGTGCGTAGAGC	0.667													G|||	3	0.000599042	0.0023	0.0	5008	,	,		16090	0.0		0.0	False		,,,				2504	0.0															0								G	TRP/ARG	1,4335		0,1,2167	13	14	14		664	-3.5	0	20		14	0,8544		0,0,4272	no	missense	PRIC285	NM_001037335.2	101	0,1,6439	AA,AG,GG		0.0,0.0231,0.0078	probably-damaging	222/2650	62200925	1,12879	2168	4272	6440	SO:0001583	missense	85441			AB201715	CCDS13527.1, CCDS33508.1	20q13.33	2012-09-26			ENSG00000130589	ENSG00000130589			30021	protein-coding gene	gene with protein product	"peroxisomal proliferator activated receptor A interacting complex 285", "PPARG-DBD-interacting protein 1"	611265				11214970, 12189208, 16239304	Standard	NM_001037335		Approved	PDIP1, PRIC285, KIAA1769	uc002yfm.2	Q9BYK8	OTTHUMG00000032969	ENST00000467148.1:c.664C>T	20.37:g.62200925G>A	ENSP00000417401:p.Arg222Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q3C2G2|Q4VXQ1|Q8TEF3|Q96ND3|Q9C094	Missense_Mutation	SNP	ENST00000467148.1	37	CCDS33508.1	.	.	.	.	.	.	.	.	.	.	G	7.374	0.627323	0.14257	2.31E-4	0.0	ENSG00000130589	ENST00000467148	T	0.02472	4.28	4.5	-3.51	0.04696	.	2.574830	0.01368	N	0.012460	T	0.02688	0.0081	L	0.36672	1.1	0.09310	N	1	D	0.61080	0.989	B	0.40534	0.332	T	0.35051	-0.9804	10	0.72032	D	0.01	-1.2993	2.2691	0.04086	0.1313:0.3039:0.2558:0.309	.	222	Q9BYK8	PR285_HUMAN	W	222	ENSP00000417401:R222W	ENSP00000417401:R222W	R	-	1	2	RP4-697K14.7	61671369	0.000000	0.05858	0.000000	0.03702	0.005000	0.04900	-0.170000	0.09897	-1.144000	0.02862	0.563000	0.77884	CGG		0.667	HELZ2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354127.1	NM_001037335		A	62200925	G	A	62200925	3	1	664	1	0	0	0	0	1	0	0	0	12495	1144	40	1	7372	1	PRIC285	20	62200925	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	13734	62200925	824595	1034	42344										
RTEL1	51750	mdanderson.org	37	chr20	62322288	62322288	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gaacagcgggcggggagcccTggcgaggagcaggtacagtt	19	9	0	0	rs3208007	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:62322288T>C	ENST00000360203.5	+	27	2869	c.2544T>C	c.(2542-2544)ccT>ccC	p.P848P	RTEL1-TNFRSF6B_ENST00000482936.1_Silent_p.P848P|RTEL1_ENST00000370003.1_Silent_p.P93P|RTEL1_ENST00000318100.4_Silent_p.P848P|RTEL1_ENST00000508582.2_Silent_p.P872P|RTEL1_ENST00000370018.3_Silent_p.P848P					regulator of telomere elongation helicase 1											NS(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(12)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	24	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)			CGGGGAGCCCTGGCGAGGAGC	0.692													C|||	3596	0.718051	0.9735	0.7161	5008	,	,		14969	0.2907		0.7952	False		,,,				2504	0.7352															0								C	,	3922,276		1840,242,17	15	16	16		2544,2616	-2	0	20	dbSNP_105	16	6536,1786		2569,1398,194	no	coding-synonymous,coding-synonymous	RTEL1	NM_016434.3,NM_032957.4	,	4409,1640,211	CC,CT,TT		21.4612,6.5746,16.4696	,	848/1220,872/1244	62322288	10458,2062	2099	4161	6260	SO:0001819	synonymous_variant	51750			AB029011	CCDS13530.2, CCDS13531.1, CCDS13530.3, CCDS63331.1, CCDS74751.1	20q13.3	2012-06-27	2004-10-29	2004-10-29	ENSG00000258366	ENSG00000258366			15888	protein-coding gene	gene with protein product		608833	"chromosome 20 open reading frame 41"	C20orf41		10655513, 15210109	Standard	NM_016434		Approved	bK3184A7.3, NHL, DKFZP434C013, KIAA1088, RTEL	uc011abd.2	Q9NZ71	OTTHUMG00000032992	ENST00000360203.5:c.2544T>C	20.37:g.62322288T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000360203.5	37																																																																																					0.692	RTEL1-011	NOVEL	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000289781.1	NM_032957		C	62322288	T	C	62322288	2	2	664	1	0	0	0	0	0	0	0	1	13733	1567	55	3		3	RTEL1	20	62322288	Silent	SNP	T	TCGA-KN-8428-01A-11D-2310-10	121363	62322288	703232	1035	42345										
UCKL1	54963	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr20	62571654	62571654	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atcttgtcctcaggcacgtcGtggtcctaccgagtgtattg	11	11	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:62571654G>A	ENST00000354216.6	-	14	1458	c.1416C>T	c.(1414-1416)caC>caT	p.H472H	UCKL1_ENST00000369892.3_Silent_p.H472H|MIR647_ENST00000384823.1_RNA|UCKL1_ENST00000358711.3_3'UTR|UCKL1_ENST00000369908.5_Silent_p.H457H|MIR1914_ENST00000607800.1_RNA	NM_017859.3	NP_060329.2	Q9NWZ5	UCKL1_HUMAN	uridine-cytidine kinase 1-like 1	472					CTP salvage (GO:0044211)|UMP salvage (GO:0044206)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|uridine kinase activity (GO:0004849)			endometrium(3)|large_intestine(1)|lung(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	8	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CAGGCACGTCGTGGTCCTACC	0.577																																																0													114	89	97					20																	62571654		2198	4292	6490	SO:0001819	synonymous_variant	54963			AK000524	CCDS13547.1, CCDS54479.1	20q13.33	2012-09-20	2004-07-13	2004-07-13	ENSG00000198276	ENSG00000198276			15938	protein-coding gene	gene with protein product		610866	"uridine kinase-like 1"	URKL1			Standard	NM_017859		Approved	FLJ20517	uc010gkn.3	Q9NWZ5	OTTHUMG00000033003	ENST00000354216.6:c.1416C>T	20.37:g.62571654G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8N2|Q5JWV0|Q70AQ5|Q8N524|Q9H3Z2	Silent	SNP	ENST00000354216.6	37	CCDS13547.1																																																																																				0.577	UCKL1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000080236.1	NM_017859		A	62571654	G	A	62571654	2	1	664	1	0	0	0	0	0	0	0	1	16937	1136	40	1		1	UCKL1	20	62571654	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	249366	62571654	453866	1036	42346										
ZNF512B	57473	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr20	62598240	62598240	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcccttaccccttggcaccGctggtaatggtacttgagcc	10	14	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr20:62598240G>A	ENST00000450537.1	-	4	442	c.382C>T	c.(382-384)Cgg>Tgg	p.R128W	ZNF512B_ENST00000369888.1_Missense_Mutation_p.R128W|ZNF512B_ENST00000217130.3_Missense_Mutation_p.R128W			Q96KM6	Z512B_HUMAN	zinc finger protein 512B	128					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|cervix(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(3)|lung(16)|ovary(1)|prostate(4)|skin(1)	33	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CCTTGGCACCGCTGGTAATGG	0.612																																																0													106	93	98					20																	62598240		2203	4300	6503	SO:0001583	missense	57473			AB033022	CCDS13548.1	20q13.33	2011-02-09			ENSG00000196700	ENSG00000196700			29212	protein-coding gene	gene with protein product						10574462	Standard	NM_020713		Approved	GM632, MGC149845, MGC149846	uc002yhl.2	Q96KM6	OTTHUMG00000033008	ENST00000450537.1:c.382C>T	20.37:g.62598240G>A	ENSP00000393795:p.Arg128Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q08AK9|Q9ULM4	Missense_Mutation	SNP	ENST00000450537.1	37	CCDS13548.1	.	.	.	.	.	.	.	.	.	.	G	29.1	4.976442	0.92982	.	.	ENSG00000196700	ENST00000369888;ENST00000450537;ENST00000217130	T;T;T	0.39056	1.1;1.1;1.1	5.25	5.25	0.73442	.	0.000000	0.85682	D	0.000000	T	0.54303	0.1850	L	0.29908	0.895	0.51482	D	0.999921	D	0.89917	1.0	D	0.91635	0.999	T	0.58364	-0.7649	10	0.87932	D	0	-24.539	17.032	0.86463	0.0:0.0:1.0:0.0	.	128	Q96KM6	Z512B_HUMAN	W	128	ENSP00000358904:R128W;ENSP00000393795:R128W;ENSP00000217130:R128W	ENSP00000217130:R128W	R	-	1	2	ZNF512B	62068684	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.065000	0.93941	2.451000	0.82905	0.585000	0.79938	CGG		0.612	ZNF512B-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080246.1	NM_020713		A	62598240	G	A	62598240	3	1	664	1	0	0	0	0	1	0	0	0	17969	1086	38	1	2352	1	ZNF512B	20	62598240	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	26586	62598240	427280	1037	42347										
RNF160	26046	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr21	30307615	30307615	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcatatgatagactgaacaaGccaagtgtggaatgtggtat	11	5	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr21:30307615G>A	ENST00000361371.5	-	27	4770	c.4691C>T	c.(4690-4692)gCt>gTt	p.A1564V	LTN1_ENST00000389194.2_Missense_Mutation_p.A1610V			O94822	LTN1_HUMAN	listerin E3 ubiquitin protein ligase 1	1564					protein ubiquitination (GO:0016567)		ligase activity (GO:0016874)|zinc ion binding (GO:0008270)			NS(1)|central_nervous_system(1)|endometrium(4)|kidney(5)|large_intestine(12)|lung(19)|ovary(5)|pancreas(1)|prostate(2)|skin(6)|stomach(2)|upper_aerodigestive_tract(2)	60						GACTGAACAAGCCAAGTGTGG	0.333																																																0													92	80	84					21																	30307615		2203	4300	6503	SO:0001583	missense	26046			AK001915	CCDS33527.1, CCDS33527.2	21q21.3	2013-01-09	2010-09-17	2010-09-17	ENSG00000198862	ENSG00000198862		"RING-type (C3HC4) zinc fingers"	13082	protein-coding gene	gene with protein product	"listerin"	613083	"chromosome 21 open reading frame 98", "zinc finger protein 294", "ring finger protein 160"	C21orf98, C21orf10, ZNF294, RNF160		20835226, 19196968	Standard	NM_015565		Approved	KIAA0714, FLJ11053, LISTERIN	uc002ymr.2	O94822	OTTHUMG00000078803	ENST00000361371.5:c.4691C>T	21.37:g.30307615G>A	ENSP00000354977:p.Ala1564Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NL41|A7E2D0|B2RTS0|C9J7U3|J3KPL4|Q05C47|Q9H8M4|Q9NUY5|Q9P0E9	Missense_Mutation	SNP	ENST00000361371.5	37		.	.	.	.	.	.	.	.	.	.	G	29.1	4.977803	0.92982	.	.	ENSG00000198862	ENST00000389194;ENST00000361371	T;T	0.24538	1.85;1.86	5.26	5.26	0.73747	.	0.000000	0.85682	D	0.000000	T	0.44891	0.1315	L	0.41824	1.3	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.25572	-1.0128	10	0.54805	T	0.06	.	19.0456	0.93018	0.0:0.0:1.0:0.0	.	1564	O94822	LTN1_HUMAN	V	1610;1564	ENSP00000373846:A1610V;ENSP00000354977:A1564V	ENSP00000354977:A1564V	A	-	2	0	LTN1	29229486	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	9.657000	0.98554	2.738000	0.93877	0.591000	0.81541	GCT		0.333	LTN1-008	NOVEL	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000472108.1	NM_015565		A	30307615	G	A	30307615	3	1	664	1	0	0	0	0	1	0	0	0	13468	971	34	2	625	2	RNF160	21	30307615	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10		30307615	17822280	1038	42348										
ITSN1	6453	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr21	35260567	35260567	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agtccccacgggagagattgTggtccgcttggacctgcagt	14	11	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr21:35260567T>C	ENST00000381318.3	+	40	5417	c.5129T>C	c.(5128-5130)gTg>gCg	p.V1710A	ITSN1_ENST00000399367.3_Missense_Mutation_p.V1705A|ITSN1_ENST00000399326.3_3'UTR|ITSN1_ENST00000437442.2_Missense_Mutation_p.V1649A|AP000304.12_ENST00000429238.1_Intron|ITSN1_ENST00000381285.4_Missense_Mutation_p.V1710A	NM_003024.2	NP_003015.2	Q15811	ITSN1_HUMAN	intersectin 1 (SH3 domain protein)	1710					apoptotic signaling pathway (GO:0097190)|negative regulation of neuron apoptotic process (GO:0043524)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|positive regulation of protein kinase B signaling (GO:0051897)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|synaptic vesicle endocytosis (GO:0048488)	cell junction (GO:0030054)|coated pit (GO:0005905)|cytosol (GO:0005829)|endocytic vesicle (GO:0030139)|lamellipodium (GO:0030027)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)|synapse (GO:0045202)	calcium ion binding (GO:0005509)|guanyl-nucleotide exchange factor activity (GO:0005085)|kinase activator activity (GO:0019209)|proline-rich region binding (GO:0070064)|protein complex scaffold (GO:0032947)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(1)|cervix(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(16)|lung(26)|ovary(4)|prostate(1)|skin(4)|stomach(1)|urinary_tract(2)	67						GGAGAGATTGTGGTCCGCTTG	0.592																																																0													68	60	63					21																	35260567		2203	4300	6503	SO:0001583	missense	6453			AF064244	CCDS33545.1, CCDS33546.1	21q22.1-q22.2	2013-01-10			ENSG00000205726	ENSG00000205726		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing", "EF-hand domain containing"	6183	protein-coding gene	gene with protein product	"SH3 domain protein-1A", "human intersectin-SH3 domain-containing protein SH3P17", "Src homology 3 domain-containing protein", "intersectin 1 short form variant, 11", "intersectin 1 short form variant 3", "intersectin short variant 12"	602442		SH3D1A, ITSN		9799604, 9813051	Standard	NM_003024		Approved	SH3P17, MGC134948, MGC134949	uc002yta.1	Q15811	OTTHUMG00000065284	ENST00000381318.3:c.5129T>C	21.37:g.35260567T>C	ENSP00000370719:p.Val1710Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A7Y322|A8CTX8|A8CTY3|A8CTY7|A8D7D0|A8DCP3|B4DTM2|E7ERJ1|E9PE44|E9PG01|E9PHV2|O95216|Q0PW94|Q0PW95|Q0PW97|Q14BD3|Q1ED40|Q20BK3|Q9UET5|Q9UK60|Q9UNK1|Q9UNK2|Q9UQ92	Missense_Mutation	SNP	ENST00000381318.3	37	CCDS33545.1	.	.	.	.	.	.	.	.	.	.	T	19.92	3.916719	0.73098	.	.	ENSG00000205726	ENST00000381318;ENST00000381285;ENST00000381288;ENST00000399367;ENST00000437442	T;T;T;T	0.67171	-0.25;-0.25;-0.25;-0.25	5.65	5.65	0.86999	C2 calcium/lipid-binding domain, CaLB (1);	0.000000	0.85682	D	0.000000	T	0.73892	0.3645	L	0.38175	1.15	0.80722	D	1	D;D;D	0.71674	0.998;0.994;0.994	D;D;D	0.75484	0.986;0.97;0.97	T	0.71407	-0.4602	10	0.29301	T	0.29	.	15.8787	0.79185	0.0:0.0:0.0:1.0	.	1649;1705;1710	A8CTY3;A8CTX8;Q15811	.;.;ITSN1_HUMAN	A	1710;1710;1639;1705;1649	ENSP00000370719:V1710A;ENSP00000370685:V1710A;ENSP00000382301:V1705A;ENSP00000387377:V1649A	ENSP00000370685:V1710A	V	+	2	0	ITSN1	34182437	1.000000	0.71417	0.997000	0.53966	0.960000	0.62799	7.671000	0.83941	2.139000	0.66308	0.533000	0.62120	GTG		0.592	ITSN1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000140070.4	NM_003024		C	35260567	T	C	35260567	3	2	664	1	0	0	0	0	1	0	0	0	7933	1696	59	3	5289	3	ITSN1	21	35260567	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	4952952	35260567	12869328	1039	42349										
KCNE1	3753	mdanderson.org	37	chr21	35821711	35821711	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tagacgttgaatgggtcgttCgagtgctccagcttcttgga	13	8	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr21:35821711C>T	ENST00000337385.3	-	3	597	c.222G>A	c.(220-222)tcG>tcA	p.S74S	KCNE1_ENST00000416357.2_Silent_p.S74S|KCNE1_ENST00000399286.2_Silent_p.S74S|KCNE1_ENST00000432085.1_Silent_p.S74S|KCNE1_ENST00000399289.3_Silent_p.S74S|KCNE1_ENST00000399284.1_Silent_p.S74S	NM_001270402.1|NM_001270403.1	NP_001257331.1|NP_001257332.1	P15382	KCNE1_HUMAN	potassium voltage-gated channel, Isk-related family, member 1	74			S -> L (in LQT5). {ECO:0000269|PubMed:9354802}.		cardiac muscle cell action potential involved in contraction (GO:0086002)|cellular response to cAMP (GO:0071320)|membrane repolarization (GO:0086009)|membrane repolarization during action potential (GO:0086011)|membrane repolarization during cardiac muscle cell action potential (GO:0086013)|positive regulation of potassium ion transmembrane transport (GO:1901381)|potassium ion export (GO:0071435)|potassium ion transmembrane transport (GO:0071805)|protein N-linked glycosylation (GO:0006487)|protein O-linked glycosylation (GO:0006493)|regulation of delayed rectifier potassium channel activity (GO:1902259)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of potassium ion transmembrane transport (GO:1901379)|regulation of ventricular cardiac muscle cell membrane repolarization (GO:0060307)|sensory perception of sound (GO:0007605)|ventricular cardiac muscle cell action potential (GO:0086005)	cell surface (GO:0009986)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)|Z disc (GO:0030018)	potassium channel regulator activity (GO:0015459)|telethonin binding (GO:0031433)|voltage-gated potassium channel activity (GO:0005249)			large_intestine(4)|lung(1)|ovary(2)	7					Indapamide(DB00808)	ATGGGTCGTTCGAGTGCTCCA	0.572																																																0													95	81	86					21																	35821711		2203	4300	6503	SO:0001819	synonymous_variant	3753			L28168	CCDS13636.1	21q22.1-q22.2	2014-09-17			ENSG00000180509	ENSG00000180509		"Potassium channels"	6240	protein-coding gene	gene with protein product		176261				8432548	Standard	NM_001127670		Approved	minK, ISK, JLNS2, LQT5	uc010gmp.4	P15382	OTTHUMG00000086236	ENST00000337385.3:c.222G>A	21.37:g.35821711C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A5H1P2|Q8N709|Q91Z94	Silent	SNP	ENST00000337385.3	37	CCDS13636.1																																																																																				0.572	KCNE1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000194155.1			T	35821711	C	T	35821711	2	4	664	1	0	0	0	0	0	0	0	1	8028	871	31	1		1	KCNE1	21	35821711	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	561144	35821711	12308184	1040	42350										
IGSF5	150084	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr21	41151173	41151173	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acgctgctgctgctgccgccGtcgttgttgtggctgcaact	13	13	0	0	rs199672249		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr21:41151173G>A	ENST00000380588.4	+	5	978	c.875G>A	c.(874-876)cGt>cAt	p.R292H	IGSF5_ENST00000479378.1_3'UTR	NM_001080444.1	NP_001073913.1	Q9NSI5	IGSF5_HUMAN	immunoglobulin superfamily, member 5	292	Cys-rich.				single organismal cell-cell adhesion (GO:0016337)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|tight junction (GO:0005923)				breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(9)|lung(7)|skin(2)|stomach(1)	23		Prostate(19;5.35e-06)				tgctgccgccgtcgttgttgt	0.463													-|||	1	0.000199681	0.0	0.0	5008	,	,		16702	0.0		0.001	False		,,,				2504	0.0															0								G	HIS/ARG	1,4405		0,1,2202	55	53	54		875	-2.3	0	21		54	2,8598		0,2,4298	no	missense	IGSF5	NM_001080444.1	29	0,3,6500	AA,AG,GG		0.0233,0.0227,0.0231	benign	292/408	41151173	3,13003	2203	4300	6503	SO:0001583	missense	150084				CCDS33562.1	21q22.2	2013-01-29			ENSG00000183067	ENSG00000183067		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5952	protein-coding gene	gene with protein product	"junctional adhesion molecule 4"	610638					Standard	NM_001080444		Approved	JAM4	uc002yyo.3	Q9NSI5	OTTHUMG00000086724	ENST00000380588.4:c.875G>A	21.37:g.41151173G>A	ENSP00000369962:p.Arg292His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000380588.4	37	CCDS33562.1	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	-	10.72	1.429696	0.25726	2.27E-4	2.33E-4	ENSG00000183067	ENST00000380588	T	0.06768	3.26	4.24	-2.27	0.06846	.	.	.	.	.	T	0.03390	0.0098	N	0.08118	0	0.09310	N	1	B	0.06786	0.001	B	0.01281	0.0	T	0.41538	-0.9503	9	0.72032	D	0.01	.	1.1088	0.01700	0.4273:0.1665:0.2534:0.1528	.	292	Q9NSI5	IGSF5_HUMAN	H	292	ENSP00000369962:R292H	ENSP00000369962:R292H	R	+	2	0	IGSF5	40073043	0.000000	0.05858	0.001000	0.08648	0.001000	0.01503	0.137000	0.15995	-0.476000	0.06842	-0.140000	0.14226	CGT		0.463	IGSF5-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195005.1			A	41151173	G	A	41151173	3	1	664	1	0	0	0	0	1	0	0	0	7609	1145	40	1	893	1	IGSF5	21	41151173	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5329462	41151173	6978722	1041	42351										
UMODL1	89766	mdanderson.org	37	chr21	43531403	43531403	+	Intron	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccaggtgaaccccagccagCggagcaccagccacgcgaac	12	17	0	1	rs220127	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr21:43531403C>G	ENST00000408910.2	+	11	1899				UMODL1_ENST00000400427.1_Missense_Mutation_p.R619G|UMODL1_ENST00000400424.2_Intron|UMODL1_ENST00000408989.2_Missense_Mutation_p.R691G|C21orf128_ENST00000329015.2_5'Flank	NM_001004416.2	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1						adipose tissue development (GO:0060612)|cellular response to gonadotropin-releasing hormone (GO:0097211)|multicellular organismal reproductive process (GO:0048609)|regulation of apoptotic process (GO:0042981)|regulation of gene expression (GO:0010468)|regulation of ovarian follicle development (GO:2000354)|single fertilization (GO:0007338)	cytoplasm (GO:0005737)|external side of plasma membrane (GO:0009897)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)|peptidase inhibitor activity (GO:0030414)			breast(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(5)|lung(22)|ovary(2)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	47						CCCCAGCCAGCGGAGCACCAG	0.731													G|||	3619	0.722644	0.4304	0.8343	5008	,	,		9993	0.881		0.8062	False		,,,				2504	0.7894				Pancreas(122;680 807 13940 14411 22888 25505 31742 36028 36332 38435)											0								-	,GLY/ARG,,GLY/ARG	2088,1402		642,804,299	4	7	6		,1855,,2071	-3.3	0	21	dbSNP_79	6	6286,1428		2593,1100,164	no	intron,missense,intron,missense	UMODL1	NM_001004416.2,NM_001199527.1,NM_001199528.2,NM_173568.3	,125,,125	3235,1904,463	GG,GC,CC		18.5118,40.1719,25.2588	,benign,,benign	,619/1375,,691/1447	43531403	8374,2830	1745	3857	5602	SO:0001627	intron_variant	89766				CCDS42935.1, CCDS42936.1, CCDS56214.1, CCDS56215.1	21q22.3	2008-07-04			ENSG00000177398	ENSG00000177398			12560	protein-coding gene	gene with protein product	"olfactorin"	613859				16026467	Standard	NM_173568		Approved		uc002zag.1	Q5DID0	OTTHUMG00000086788	ENST00000408910.2:c.1899+172C>G	21.37:g.43531403C>G		Somatic		WXS	Illumina HiSeq	Phase_I	C9JCE6|Q5DIC9|Q6LA40|Q6LA41|Q8N216	Missense_Mutation	SNP	ENST00000408910.2	37	CCDS42936.1	1618	0.7408424908424909	212	0.43089430894308944	295	0.8149171270718232	490	0.8566433566433567	621	0.8192612137203166	G	2.002	-0.429238	0.04701	0.598281	0.814882	ENSG00000177398	ENST00000400427;ENST00000408989	T;T	0.71461	-0.57;-0.37	2.16	-3.33	0.04958	.	.	.	.	.	T	0.00012	0.0000	.	.	.	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.34004	-0.9846	7	0.19590	T	0.45	.	2.0086	0.03482	0.2061:0.4652:0.166:0.1626	rs220127;rs520946	691	Q5DID0-2	.	G	619;691	ENSP00000383279:R619G;ENSP00000386126:R691G	ENSP00000383279:R619G	R	+	1	2	UMODL1	42404472	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.665000	0.05286	-1.264000	0.02452	-1.000000	0.02509	CGG		0.731	UMODL1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195292.2			G	43531403	C	G	43531403	1	3	664	0	1	0	0	0	0	0	0	0	16992	759	27	4		4	UMODL1	21	43531403	Intron	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2380230	43531403	4598492	1042	42352										
CCT8L2	150160	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr22	17072519	17072519	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caccacgatgccatacttgtCcgccagtgtgagggtctcct	10	14	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:17072519C>T	ENST00000359963.3	-	1	1181	c.922G>A	c.(922-924)Gac>Aac	p.D308N		NM_014406.4	NP_055221.1	Q96SF2	TCPQM_HUMAN	chaperonin containing TCP1, subunit 8 (theta)-like 2	308					anion transport (GO:0006820)|cellular protein metabolic process (GO:0044267)|potassium ion transmembrane transport (GO:0071805)|transport (GO:0006810)	cytoplasm (GO:0005737)	anion channel activity (GO:0005253)|ATP binding (GO:0005524)|calcium-activated potassium channel activity (GO:0015269)			breast(3)|endometrium(7)|kidney(1)|large_intestine(8)|liver(2)|lung(37)|ovary(3)|prostate(3)|skin(2)|stomach(1)	67	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)				CCATACTTGTCCGCCAGTGTG	0.532																																																0													189	167	174					22																	17072519		2203	4300	6503	SO:0001583	missense	150160			AP003553	CCDS13738.1	22q11.1	2011-09-01			ENSG00000198445	ENSG00000198445			15553	protein-coding gene	gene with protein product							Standard	NM_014406		Approved	CESK1	uc002zlp.1	Q96SF2	OTTHUMG00000141302	ENST00000359963.3:c.922G>A	22.37:g.17072519C>T	ENSP00000353048:p.Asp308Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A4QPH3|Q9UJS3	Missense_Mutation	SNP	ENST00000359963.3	37	CCDS13738.1	.	.	.	.	.	.	.	.	.	.	c	0.023	-1.400013	0.01165	.	.	ENSG00000198445	ENST00000359963	T	0.77358	-1.09	1.98	1.98	0.26296	.	0.178508	0.26457	N	0.024274	T	0.43700	0.1259	N	0.02158	-0.66	0.09310	N	1	B	0.06786	0.001	B	0.11329	0.006	T	0.41928	-0.9481	10	0.02654	T	1	-16.9039	7.4423	0.27190	0.0:1.0:0.0:0.0	.	308	Q96SF2	TCPQM_HUMAN	N	308	ENSP00000353048:D308N	ENSP00000353048:D308N	D	-	1	0	CCT8L2	15452519	0.128000	0.22383	0.002000	0.10522	0.007000	0.05969	1.637000	0.37155	1.115000	0.41800	0.379000	0.24179	GAC		0.532	CCT8L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280580.1			T	17072519	C	T	17072519	3	4	664	1	0	0	0	0	1	0	0	0	2963	855	30	2	755	2	CCT8L2	22	17072519	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10		17072519	34232047	1043	42353										
PRODH	5625	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	18912624	18912624	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcgcacttggcctcattggCgtagaagtaggtgcgggcac	15	10	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:18912624C>T	ENST00000357068.6	-	4	872	c.607G>A	c.(607-609)Gcc>Acc	p.A203T	PRODH_ENST00000334029.2_Missense_Mutation_p.A95T|PRODH_ENST00000420436.1_Missense_Mutation_p.A95T	NM_016335.4	NP_057419	O43272	PROD_HUMAN	proline dehydrogenase (oxidase) 1	203					4-hydroxyproline catabolic process (GO:0019470)|cellular nitrogen compound metabolic process (GO:0034641)|intrinsic apoptotic signaling pathway in response to oxidative stress (GO:0008631)|proline catabolic process (GO:0006562)|proline catabolic process to glutamate (GO:0010133)|proline metabolic process (GO:0006560)|small molecule metabolic process (GO:0044281)	mitochondrial inner membrane (GO:0005743)	FAD binding (GO:0071949)|proline dehydrogenase activity (GO:0004657)			breast(1)|endometrium(3)|lung(4)|upper_aerodigestive_tract(1)	9					L-Proline(DB00172)	GCCTCATTGGCGTAGAAGTAG	0.597																																																0													136	117	124					22																	18912624		2203	4300	6503	SO:0001583	missense	5625			AF010310	CCDS13754.1, CCDS56223.1	22q11.2	2014-07-10	2001-12-05		ENSG00000100033	ENSG00000100033	1.5.5.2		9453	protein-coding gene	gene with protein product		606810	"proline dehydrogenase (proline oxidase )"			9385373, 10192398	Standard	NM_001195226		Approved	HSPOX2, PRODH1, PIG6, PRODH2, TP53I6	uc002zok.4	O43272	OTTHUMG00000150163	ENST00000357068.6:c.607G>A	22.37:g.18912624C>T	ENSP00000349577:p.Ala203Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF53|O14680|Q0P507|Q147W8|Q504W1|Q59FI8|Q6NV86|Q9UF13	Missense_Mutation	SNP	ENST00000357068.6	37	CCDS13754.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	23.7|23.7	4.447846|4.447846	0.84101|0.84101	.|.	.|.	ENSG00000100033|ENSG00000100033	ENST00000357068;ENST00000438924;ENST00000450579|ENST00000457083	T;T|.	0.75938|.	-0.98;-0.98|.	5.03|5.03	5.03|5.03	0.67393|0.67393	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.69593|0.69593	0.3128|0.3128	L|L	0.55990|0.55990	1.75|1.75	0.58432|0.58432	D|D	0.999999|0.999999	D;P;P|.	0.55385|.	0.971;0.95;0.87|.	B;B;B|.	0.40165|.	0.321;0.265;0.184|.	T|T	0.67436|0.67436	-0.5671|-0.5671	10|5	0.28530|.	T|.	0.3|.	-18.4529|-18.4529	16.2912|16.2912	0.82752|0.82752	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	119;203;95|.	O43272-1;O43272;E7EQL6|.	.;PROD_HUMAN;.|.	T|H	203;85;44|126	ENSP00000349577:A203T;ENSP00000396806:A44T|.	ENSP00000334726:A95T|.	A|R	-|-	1|2	0|0	PRODH|PRODH	17292624|17292624	0.997000|0.997000	0.39634|0.39634	0.995000|0.995000	0.50966|0.50966	0.847000|0.847000	0.48162|0.48162	4.493000|4.493000	0.60341|0.60341	2.528000|2.528000	0.85240|0.85240	0.450000|0.450000	0.29827|0.29827	GCC|CGC		0.597	PRODH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316637.2	NM_016335		T	18912624	C	T	18912624	3	4	664	1	0	0	0	0	1	0	0	0	12558	768	27	1	1239	1	PRODH	22	18912624	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1840105	18912624	32391942	1044	42354										
SEPT5	5413	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	19707904	19707904	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agtacttccgtgatgagagcGgcctcaaccgaaagaacatc	10	11	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:19707904G>A	ENST00000455784.2	+	6	549	c.424G>A	c.(424-426)Ggc>Agc	p.G142S	SEPT5_ENST00000383045.3_Missense_Mutation_p.G151S|SEPT5_ENST00000438754.2_Missense_Mutation_p.G151S|SEPT5_ENST00000406395.1_Missense_Mutation_p.G142S|GP1BB_ENST00000366425.3_5'Flank	NM_002688.5	NP_002679.2	Q99719	SEPT5_HUMAN	septin 5	142	Septin-type G.				cytokinesis (GO:0000910)|GTP catabolic process (GO:0006184)|regulation of exocytosis (GO:0017157)|regulation of synaptic vesicle exocytosis (GO:2000300)|synaptic vesicle targeting (GO:0016080)	plasma membrane (GO:0005886)|septin complex (GO:0031105)|synaptic vesicle (GO:0008021)|terminal bouton (GO:0043195)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural molecule activity (GO:0005198)			lung(1)|upper_aerodigestive_tract(1)	2	Colorectal(54;0.0993)					TGATGAGAGCGGCCTCAACCG	0.597																																																0													158	142	147					22																	19707904		2203	4300	6503	SO:0001583	missense	5413			Y11593	CCDS13764.1, CCDS56224.1	22q11.2	2013-01-21	2005-01-11	2005-01-12	ENSG00000184702	ENSG00000184702		"Septins"	9164	protein-coding gene	gene with protein product		602724	"peanut-like 1 (Drosophila)"	PNUTL1		9385360, 9611266	Standard	NM_002688		Approved	HCDCREL-1, H5		Q99719	OTTHUMG00000150399	ENST00000455784.2:c.424G>A	22.37:g.19707904G>A	ENSP00000391311:p.Gly142Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O15251|Q96MY5	Missense_Mutation	SNP	ENST00000455784.2	37	CCDS13764.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	29.9|29.9	5.046567|5.046567	0.93740|0.93740	.|.	.|.	ENSG00000184702|ENSG00000184702	ENST00000455784;ENST00000406395;ENST00000446882;ENST00000412544;ENST00000431124;ENST00000383045;ENST00000438754;ENST00000395109|ENST00000413258	T;T;T;T;T;T;T|.	0.50548|.	0.74;0.74;0.74;0.74;0.74;0.74;0.74|.	3.88|3.88	3.88|3.88	0.44766|0.44766	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.73628|0.73628	0.3611|0.3611	M|M	0.72624|0.72624	2.21|2.21	0.80722|0.80722	D|D	1|1	D|.	0.89917|.	1.0|.	D|.	0.85130|.	0.997|.	T|T	0.75340|0.75340	-0.3352|-0.3352	10|5	0.66056|.	D|.	0.02|.	.|.	16.403|16.403	0.83649|0.83649	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	142|.	Q99719|.	SEPT5_HUMAN|.	S|Q	142;142;113;95;180;151;151;95|38	ENSP00000391311:G142S;ENSP00000384535:G142S;ENSP00000408678:G95S;ENSP00000414488:G180S;ENSP00000372515:G151S;ENSP00000394541:G151S;ENSP00000378541:G95S|.	ENSP00000372515:G151S|.	G|R	+|+	1|2	0|0	SEPT5|SEPT5	18087904|18087904	1.000000|1.000000	0.71417|0.71417	0.964000|0.964000	0.40570|0.40570	0.765000|0.765000	0.43378|0.43378	7.612000|7.612000	0.82975|0.82975	2.154000|2.154000	0.67381|0.67381	0.462000|0.462000	0.41574|0.41574	GGC|CGG		0.597	SEPT5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317937.1	NM_002688		A	19707904	G	A	19707904	3	1	664	1	0	0	0	0	1	0	0	0	14080	1116	39	1	446	1	SEPT5	22	19707904	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	795280	19707904	31596662	1045	42355										
C22orf29	79680	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr22	19839716	19839716	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atctgctgccatggatgtgcGttggcataattggcggctgc	14	9	1	0	rs376068168		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:19839716G>A	ENST00000405640.1	-	2	737	c.69C>T	c.(67-69)aaC>aaT	p.N23N	GNB1L_ENST00000405009.1_Intron|C22orf29_ENST00000407472.1_Silent_p.N23N|GNB1L_ENST00000329517.6_Intron|GNB1L_ENST00000403325.1_Intron|GNB1L_ENST00000460402.1_Intron|C22orf29_ENST00000484072.1_Intron|C22orf29_ENST00000328554.4_Silent_p.N23N			Q7L3V2	BOP_HUMAN	chromosome 22 open reading frame 29	23					mitochondrial outer membrane permeabilization (GO:0097345)|regulation of mitochondrial membrane potential (GO:0051881)	mitochondrion (GO:0005739)				NS(1)|large_intestine(1)|lung(3)|prostate(1)|urinary_tract(1)	7	Colorectal(54;0.0993)					ATGGATGTGCGTTGGCATAAT	0.642																																																0								G	,	0,4406		0,0,2203	81	76	78		69,	-7.4	0	22		78	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous,intron	GNB1L,C22orf29	NM_024627.5,NM_053004.2	,	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	,	23/365,	19839716	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	79680			BX640998	CCDS13769.1	22q11.21	2006-07-05			ENSG00000215012	ENSG00000215012			26112	protein-coding gene	gene with protein product						12477932	Standard	NM_024627		Approved	FLJ21125	uc002zqh.3	Q7L3V2	OTTHUMG00000030314	ENST00000405640.1:c.69C>T	22.37:g.19839716G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5E7|D3DX21|Q6MZM8|Q6N000|Q9H7A0	Silent	SNP	ENST00000405640.1	37	CCDS13769.1																																																																																				0.642	C22orf29-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317290.2	NM_024627		A	19839716	G	A	19839716	2	1	664	1	0	0	0	0	0	0	0	1	2143	1136	40	1		1	C22orf29	22	19839716	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	131812	19839716	31464850	1046	42356										
PI4KA	5297	broad.mit.edu;mdanderson.org	37	chr22	21082095	21082095	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcacatcactaacggctccCgggtccaaccgaacgagacg	11	15	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:21082095C>T	ENST00000572273.1	-	40	4796	c.4566G>A	c.(4564-4566)ccG>ccA	p.P1522P	PI4KA_ENST00000255882.6_Silent_p.P1580P|PI4KA_ENST00000414196.3_Silent_p.P332P|AC007308.6_ENST00000430719.1_RNA			P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase, catalytic, alpha	1522	PIK helical. {ECO:0000255|PROSITE- ProRule:PRU00878}.				phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi-associated vesicle membrane (GO:0030660)|membrane (GO:0016020)|plasma membrane (GO:0005886)	1-phosphatidylinositol 4-kinase activity (GO:0004430)|ATP binding (GO:0005524)			breast(3)|endometrium(8)|kidney(9)|large_intestine(19)|lung(29)|ovary(1)|pancreas(1)|prostate(3)|salivary_gland(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	79	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)			TAACGGCTCCCGGGTCCAACC	0.542																																					GBM(136;1332 1831 3115 23601 50806)											0													135	106	116					22																	21082095		2203	4300	6503	SO:0001819	synonymous_variant	5297			L36151	CCDS33603.1, CCDS33603.2	22q11.21	2011-05-25	2007-08-14	2007-08-02	ENSG00000241973	ENSG00000241973			8983	protein-coding gene	gene with protein product		600286		PIK4CA		7961848, 8662589	Standard	NM_002650		Approved	PI4K-ALPHA, pi4K230	uc002zsz.5	P42356	OTTHUMG00000167440	ENST00000572273.1:c.4566G>A	22.37:g.21082095C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z625|Q9UPG2	Silent	SNP	ENST00000572273.1	37																																																																																					0.542	PI4KA-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_058004		T	21082095	C	T	21082095	2	4	664	1	0	0	0	0	0	0	0	1	11880	639	23	1		1	PI4KA	22	21082095	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1242379	21082095	30222471	1047	42357										
ZNF280A	129025	broad.mit.edu;bcgsc.ca	37	chr22	22868961	22868961	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtgctggcaggtggtgtggtCttcccagctgtcgttcctct	14	11	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:22868961C>T	ENST00000302097.3	-	2	1246	c.994G>A	c.(994-996)Gac>Aac	p.D332N		NM_080740.3	NP_542778.1	P59817	Z280A_HUMAN	zinc finger protein 280A	332					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|large_intestine(4)|lung(8)|ovary(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	18	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)		GTGGTGTGGTCTTCCCAGCTG	0.478																																																0													146	130	136					22																	22868961		2203	4300	6503	SO:0001583	missense	129025			D87009	CCDS13800.1	22q11.21	2007-09-20	2007-09-20	2007-09-20	ENSG00000169548	ENSG00000169548			18597	protein-coding gene	gene with protein product			"zinc finger protein 280", "suppressor of hairy wing homolog 1 (Drosophila)"	ZNF280, SUHW1		9074928	Standard	NM_080740		Approved	3'OY11.1, ZNF636	uc002zwe.3	P59817	OTTHUMG00000030545	ENST00000302097.3:c.994G>A	22.37:g.22868961C>T	ENSP00000302855:p.Asp332Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000302097.3	37	CCDS13800.1	.	.	.	.	.	.	.	.	.	.	c	0.591	-0.832942	0.02713	.	.	ENSG00000169548	ENST00000302097	T	0.01092	5.35	3.9	-1.13	0.09775	.	.	.	.	.	T	0.00412	0.0013	N	0.00538	-1.39	0.09310	N	0.99999	B	0.02656	0.0	B	0.01281	0.0	T	0.44314	-0.9336	9	0.12430	T	0.62	0.3313	6.2591	0.20889	0.0:0.0988:0.2772:0.624	.	332	P59817	Z280A_HUMAN	N	332	ENSP00000302855:D332N	ENSP00000302855:D332N	D	-	1	0	ZNF280A	21198961	0.996000	0.38824	0.113000	0.21522	0.730000	0.41778	2.624000	0.46444	-0.274000	0.09232	-1.044000	0.02363	GAC		0.478	ZNF280A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075433.3	NM_080740		T	22868961	C	T	22868961	3	4	664	1	0	0	0	0	1	0	0	0	17826	913	32	2	638	2	ZNF280A	22	22868961	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1786866	22868961	28435605	1048	42358										
IGLL5	100423062	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr22	23230424	23230424	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagcagccgatccagcctgcGgagcctgtggggcaggtaag	16	11	0	0	rs534077784	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:23230424G>A	ENST00000526893.1	+	1	465	c.191G>A	c.(190-192)cGg>cAg	p.R64Q	IGLL5_ENST00000531372.1_Missense_Mutation_p.R64Q|hsa-mir-5571_ENST00000577998.1_RNA|IGLL5_ENST00000532223.2_Missense_Mutation_p.R64Q	NM_001178126.1	NP_001171597.1	B9A064	IGLL5_HUMAN	immunoglobulin lambda-like polypeptide 5	64						extracellular vesicular exosome (GO:0070062)				breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|lung(3)|urinary_tract(1)	7						TCCAGCCTGCGGAGCCTGTGG	0.647													G|||	2	0.000399361	0.0015	0.0	5008	,	,		11770	0.0		0.0	False		,,,				2504	0.0															0																																										SO:0001583	missense	100423062			M34518, M34515	CCDS54506.1	22q11.22	2013-01-11			ENSG00000254709	ENSG00000254709		"Immunoglobulin superfamily / C1-set domain containing"	38476	protein-coding gene	gene with protein product							Standard	NM_001178126		Approved		uc010gtu.3	B9A064	OTTHUMG00000165670	ENST00000526893.1:c.191G>A	22.37:g.23230424G>A	ENSP00000431254:p.Arg64Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000526893.1	37	CCDS54506.1	.	.	.	.	.	.	.	.	.	.	G	9.191	1.025926	0.19512	.	.	ENSG00000254709	ENST00000532223;ENST00000526893;ENST00000531372	T;T	0.00571	6.53;6.5	3.92	-2.68	0.06041	.	.	.	.	.	T	0.00384	0.0012	N	0.19112	0.55	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.40720	-0.9548	9	0.87932	D	0	.	5.98	0.19401	0.3958:0.1334:0.4708:0.0	.	64	B9A064	IGLL5_HUMAN	Q	64	ENSP00000436353:R64Q;ENSP00000431254:R64Q	ENSP00000431254:R64Q	R	+	2	0	IGLL5	21560424	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.573000	0.02134	-0.708000	0.05015	-0.829000	0.03081	CGG		0.647	IGLL5-002	KNOWN	basic|appris_candidate|readthrough_transcript|CCDS	protein_coding	protein_coding	OTTHUMT00000385699.1	NM_001178126		A	23230424	G	A	23230424	3	1	664	1	0	0	0	0	1	0	0	0	7601	1116	39	1	193	1	IGLL5	22	23230424	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	361463	23230424	28074142	1049	42359										
GNAZ	2781	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	23438268	23438268	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgagctgctgggtgtcatgcGacggctctgggccgacccag	16	13	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:23438268G>A	ENST00000248996.4	+	2	1052	c.386G>A	c.(385-387)cGa>cAa	p.R129Q	RTDR1_ENST00000216036.4_Intron	NM_002073.2	NP_002064.1	P19086	GNAZ_HUMAN	guanine nucleotide binding protein (G protein), alpha z polypeptide	129					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|G-protein coupled receptor signaling pathway (GO:0007186)|intracellular signal transduction (GO:0035556)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|heterotrimeric G-protein complex (GO:0005834)|nuclear envelope (GO:0005635)|plasma membrane (GO:0005886)	G-protein beta/gamma-subunit complex binding (GO:0031683)|G-protein coupled serotonin receptor binding (GO:0031821)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|metal ion binding (GO:0046872)|receptor signaling protein activity (GO:0005057)|signal transducer activity (GO:0004871)			endometrium(3)|kidney(1)|large_intestine(1)|lung(7)|prostate(1)|skin(5)|urinary_tract(1)	19	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		GGTGTCATGCGACGGCTCTGG	0.677																																																0													54	54	54					22																	23438268		2203	4299	6502	SO:0001583	missense	2781				CCDS13804.1	22q11.1-q11.2	2008-06-10			ENSG00000128266	ENSG00000128266			4395	protein-coding gene	gene with protein product		139160				2115889	Standard	NM_002073		Approved		uc002zwu.1	P19086	OTTHUMG00000150611	ENST00000248996.4:c.386G>A	22.37:g.23438268G>A	ENSP00000248996:p.Arg129Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6C1|Q4QRJ6	Missense_Mutation	SNP	ENST00000248996.4	37	CCDS13804.1	.	.	.	.	.	.	.	.	.	.	G	11.93	1.785671	0.31593	.	.	ENSG00000128266	ENST00000248996;ENST00000456059	D	0.88586	-2.4	4.85	2.38	0.29361	G protein alpha subunit, helical insertion (2);	0.055374	0.64402	D	0.000001	T	0.77370	0.4120	N	0.21194	0.64	0.35898	D	0.830197	B	0.06786	0.001	B	0.01281	0.0	T	0.72465	-0.4285	10	0.42905	T	0.14	.	4.3483	0.11143	0.4511:0.0:0.5489:0.0	.	129	P19086	GNAZ_HUMAN	Q	129;77	ENSP00000248996:R129Q	ENSP00000248996:R129Q	R	+	2	0	GNAZ	21768268	1.000000	0.71417	1.000000	0.80357	0.018000	0.09664	6.248000	0.72418	1.197000	0.43143	0.655000	0.94253	CGA		0.677	GNAZ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319073.1	NM_002073		A	23438268	G	A	23438268	3	1	664	1	0	0	0	0	1	0	0	0	6521	1058	37	1	388	1	GNAZ	22	23438268	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	207844	23438268	27866298	1050	42360										
SMARCB1	6598	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr22	24176351	24176351	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gatgaggcgtcttgccaacaCggccccggcctggtaaccag	13	14	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:24176351C>T	ENST00000263121.7	+	9	1338	c.1142C>T	c.(1141-1143)aCg>aTg	p.T381M	SMARCB1_ENST00000407082.3_Missense_Mutation_p.T335M|DERL3_ENST00000464023.1_5'Flank|SMARCB1_ENST00000407422.3_Missense_Mutation_p.T372M|SMARCB1_ENST00000344921.6_Missense_Mutation_p.T390M	NM_003073.3	NP_003064.2	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1	381					ATP-dependent chromatin remodeling (GO:0043044)|blastocyst hatching (GO:0001835)|cell differentiation (GO:0030154)|chromatin remodeling (GO:0006338)|DNA integration (GO:0015074)|DNA repair (GO:0006281)|mitotic cell cycle phase transition (GO:0044772)|negative regulation of cell proliferation (GO:0008285)|nervous system development (GO:0007399)|nucleosome disassembly (GO:0006337)|positive regulation by host of viral transcription (GO:0043923)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|single stranded viral RNA replication via double stranded DNA intermediate (GO:0039692)|transcription, DNA-templated (GO:0006351)	nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|protein complex (GO:0043234)|SWI/SNF complex (GO:0016514)|XY body (GO:0001741)	p53 binding (GO:0002039)|Tat protein binding (GO:0030957)|transcription coactivator activity (GO:0003713)	p.?(2)|p.L266_*386del(1)		bone(4)|central_nervous_system(198)|endometrium(4)|haematopoietic_and_lymphoid_tissue(25)|kidney(3)|large_intestine(5)|liver(2)|lung(5)|meninges(5)|ovary(4)|pancreas(1)|prostate(2)|skin(6)|soft_tissue(194)	458		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				CTTGCCAACACGGCCCCGGCC	0.652			"D, N, F, S"		malignant rhabdoid	malignant rhabdoid																																yes	Rec	yes	Rhabdoid predisposition syndrome	22	22q11	6598	"SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1"		M	3	Unknown(2)|Deletion - In frame(1)	central_nervous_system(3)											34	26	29					22																	24176351		2193	4297	6490	SO:0001583	missense	6598			U04847	CCDS13817.1, CCDS46671.1	22q11.23	2014-09-17			ENSG00000099956	ENSG00000099956			11103	protein-coding gene	gene with protein product	"sucrose nonfermenting, yeast, homolog-like 1", "integrase interactor 1", "malignant rhabdoid tumor suppressor", "protein phosphatase 1, regulatory subunit 144"	601607		SNF5L1		7801128, 10319872, 10365963	Standard	NM_003073		Approved	BAF47, Ini1, Snr1, hSNFS, Sfh1p, RDT, PPP1R144	uc002zyb.3	Q12824	OTTHUMG00000150737	ENST00000263121.7:c.1142C>T	22.37:g.24176351C>T	ENSP00000263121:p.Thr381Met	Somatic		WXS	Illumina HiSeq	Phase_I	O75784|O95474|Q17S11|Q38GA1|Q76N08|Q9UBH2	Missense_Mutation	SNP	ENST00000263121.7	37	CCDS13817.1	.	.	.	.	.	.	.	.	.	.	C	17.27	3.346690	0.61073	.	.	ENSG00000099956	ENST00000344921;ENST00000263121;ENST00000407422;ENST00000407082	D;D;D;D	0.94417	-3.42;-3.41;-3.42;-3.33	5.07	5.07	0.68467	.	0.000000	0.85682	D	0.000000	D	0.95778	0.8626	L	0.40543	1.245	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.81914	0.995;0.983;0.988	D	0.96175	0.9126	10	0.62326	D	0.03	-17.4606	17.8693	0.88806	0.0:1.0:0.0:0.0	.	390;372;381	G5E975;Q17S11;Q12824	.;.;SNF5_HUMAN	M	390;381;372;335	ENSP00000340883:T390M;ENSP00000263121:T381M;ENSP00000383984:T372M;ENSP00000385226:T335M	ENSP00000263121:T381M	T	+	2	0	SMARCB1	22506351	1.000000	0.71417	0.998000	0.56505	0.132000	0.20833	7.508000	0.81686	2.544000	0.85801	0.543000	0.68304	ACG		0.652	SMARCB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000319872.1	NM_003073		T	24176351	C	T	24176351	3	4	664	1	0	0	0	0	1	0	0	0	14787	536	19	1	1176	1	SMARCB1	22	24176351	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	738083	24176351	27128215	1051	42361										
ADORA2A	135	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	24836835	24836835	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gatcttcctggcggcgcgacGacagctgaagcagatggaga	15	10	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:24836835G>A	ENST00000337539.7	+	3	1076	c.617G>A	c.(616-618)cGa>cAa	p.R206Q	SPECC1L-ADORA2A_ENST00000358654.2_3'UTR|ADORA2A-AS1_ENST00000326341.4_RNA|ADORA2A-AS1_ENST00000543438.1_RNA|ADORA2A_ENST00000496497.1_3'UTR|ADORA2A-AS1_ENST00000427813.2_RNA	NM_000675.4|NM_001278497.1|NM_001278498.1|NM_001278499.1|NM_001278500.1	NP_000666.2|NP_001265426.1|NP_001265427.1|NP_001265428.1|NP_001265429.1	P29274	AA2AR_HUMAN	adenosine A2a receptor	206					activation of adenylate cyclase activity (GO:0007190)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|apoptotic process (GO:0006915)|blood circulation (GO:0008015)|blood coagulation (GO:0007596)|cAMP biosynthetic process (GO:0006171)|cell-cell signaling (GO:0007267)|cellular defense response (GO:0006968)|central nervous system development (GO:0007417)|inflammatory response (GO:0006954)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phagocytosis (GO:0006909)|positive regulation of adenylate cyclase activity involved in G-protein coupled receptor signaling pathway (GO:0010579)|sensory perception (GO:0007600)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	enzyme binding (GO:0019899)|G-protein coupled adenosine receptor activity (GO:0001609)|identical protein binding (GO:0042802)			breast(1)|endometrium(2)|kidney(2)|large_intestine(7)|liver(1)|lung(7)|skin(1)	21	Colorectal(2;0.196)				Adenosine(DB00640)|Caffeine(DB00201)|Defibrotide(DB04932)|Dyphylline(DB00651)|Enprofylline(DB00824)|Mefloquine(DB00358)|Oxtriphylline(DB01303)|Pentoxifylline(DB00806)|Regadenoson(DB06213)|Theobromine(DB01412)|Theophylline(DB00277)	GCGGCGCGACGACAGCTGAAG	0.592																																																0													137	137	137					22																	24836835		2203	4300	6503	SO:0001583	missense	135			X68486	CCDS13826.1	22q11.23	2012-08-08			ENSG00000128271	ENSG00000128271		"GPCR / Class A : Adenosine receptors"	263	protein-coding gene	gene with protein product		102776		ADORA2		1662665, 2541503	Standard	NM_001278497		Approved	RDC8	uc002zzy.4	P29274	OTTHUMG00000150761	ENST00000337539.7:c.617G>A	22.37:g.24836835G>A	ENSP00000336630:p.Arg206Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7E0	Missense_Mutation	SNP	ENST00000337539.7	37	CCDS13826.1	.	.	.	.	.	.	.	.	.	.	G	16.47	3.132314	0.56828	.	.	ENSG00000128271	ENST00000444262;ENST00000541988;ENST00000337539;ENST00000417596	T;T	0.41400	1.0;1.0	5.13	4.11	0.48088	GPCR, rhodopsin-like superfamily (1);	0.066245	0.64402	D	0.000009	T	0.27629	0.0679	L	0.38649	1.16	0.38637	D	0.951517	P	0.37824	0.609	B	0.27170	0.077	T	0.19778	-1.0295	10	0.59425	D	0.04	-14.2909	9.1234	0.36801	0.1663:0.0:0.8337:0.0	.	206	P29274	AA2AR_HUMAN	Q	206	ENSP00000414802:R206Q;ENSP00000336630:R206Q	ENSP00000336630:R206Q	R	+	2	0	ADORA2A	23166835	1.000000	0.71417	0.969000	0.41365	0.881000	0.50899	5.322000	0.65852	1.156000	0.42514	0.462000	0.41574	CGA		0.592	ADORA2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319971.2	NM_000675		A	24836835	G	A	24836835	3	1	664	1	0	0	0	0	1	0	0	0	327	1058	37	1	623	1	ADORA2A	22	24836835	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	660484	24836835	26467731	1052	42362										
ADORA2A	135	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	24837116	24837116	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcgagttccgccagaccttcCgcaagatcattcgcagccac	9	16	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:24837116C>T	ENST00000337539.7	+	3	1357	c.898C>T	c.(898-900)Cgc>Tgc	p.R300C	SPECC1L-ADORA2A_ENST00000358654.2_3'UTR|ADORA2A-AS1_ENST00000326341.4_RNA|ADORA2A-AS1_ENST00000543438.1_RNA|ADORA2A_ENST00000496497.1_3'UTR|ADORA2A-AS1_ENST00000427813.2_RNA	NM_000675.4|NM_001278497.1|NM_001278498.1|NM_001278499.1|NM_001278500.1	NP_000666.2|NP_001265426.1|NP_001265427.1|NP_001265428.1|NP_001265429.1	P29274	AA2AR_HUMAN	adenosine A2a receptor	300			R -> H (in dbSNP:rs4990).		activation of adenylate cyclase activity (GO:0007190)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|apoptotic process (GO:0006915)|blood circulation (GO:0008015)|blood coagulation (GO:0007596)|cAMP biosynthetic process (GO:0006171)|cell-cell signaling (GO:0007267)|cellular defense response (GO:0006968)|central nervous system development (GO:0007417)|inflammatory response (GO:0006954)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phagocytosis (GO:0006909)|positive regulation of adenylate cyclase activity involved in G-protein coupled receptor signaling pathway (GO:0010579)|sensory perception (GO:0007600)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	enzyme binding (GO:0019899)|G-protein coupled adenosine receptor activity (GO:0001609)|identical protein binding (GO:0042802)			breast(1)|endometrium(2)|kidney(2)|large_intestine(7)|liver(1)|lung(7)|skin(1)	21	Colorectal(2;0.196)				Adenosine(DB00640)|Caffeine(DB00201)|Defibrotide(DB04932)|Dyphylline(DB00651)|Enprofylline(DB00824)|Mefloquine(DB00358)|Oxtriphylline(DB01303)|Pentoxifylline(DB00806)|Regadenoson(DB06213)|Theobromine(DB01412)|Theophylline(DB00277)	CCAGACCTTCCGCAAGATCAT	0.582																																																0													75	66	69					22																	24837116		2203	4300	6503	SO:0001583	missense	135			X68486	CCDS13826.1	22q11.23	2012-08-08			ENSG00000128271	ENSG00000128271		"GPCR / Class A : Adenosine receptors"	263	protein-coding gene	gene with protein product		102776		ADORA2		1662665, 2541503	Standard	NM_001278497		Approved	RDC8	uc002zzy.4	P29274	OTTHUMG00000150761	ENST00000337539.7:c.898C>T	22.37:g.24837116C>T	ENSP00000336630:p.Arg300Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7E0	Missense_Mutation	SNP	ENST00000337539.7	37	CCDS13826.1	.	.	.	.	.	.	.	.	.	.	C	16.90	3.250623	0.59212	.	.	ENSG00000128271	ENST00000444262;ENST00000541988;ENST00000337539;ENST00000417596	T;T	0.40476	1.03;1.03	5.27	5.27	0.74061	.	0.000000	0.85682	D	0.000000	T	0.41880	0.1178	L	0.61218	1.895	0.80722	D	1	D	0.63880	0.993	B	0.42916	0.402	T	0.39143	-0.9628	10	0.40728	T	0.16	-50.0074	12.9218	0.58237	0.162:0.8379:0.0:0.0	.	300	P29274	AA2AR_HUMAN	C	300	ENSP00000414802:R300C;ENSP00000336630:R300C	ENSP00000336630:R300C	R	+	1	0	ADORA2A	23167116	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	4.516000	0.60496	2.473000	0.83533	0.462000	0.41574	CGC		0.582	ADORA2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319971.2	NM_000675		T	24837116	C	T	24837116	3	4	664	1	0	0	0	0	1	0	0	0	327	652	23	1	904	1	ADORA2A	22	24837116	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	281	24837116	26467450	1053	42363										
MYO18B	84700	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	26422449	26422449	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggacactgagaggacccagtCggcattggcactgagcagag	15	10	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:26422449C>T	ENST00000407587.2	+	43	6681	c.6512C>T	c.(6511-6513)tCg>tTg	p.S2171L	MYO18B_ENST00000335473.7_Missense_Mutation_p.S2170L|MYO18B_ENST00000536101.1_Missense_Mutation_p.S2170L			Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2170						cytoplasm (GO:0005737)|nucleus (GO:0005634)|unconventional myosin complex (GO:0016461)	ATP binding (GO:0005524)|motor activity (GO:0003774)			NS(2)|breast(6)|central_nervous_system(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(4)|kidney(5)|large_intestine(27)|liver(2)|lung(60)|ovary(7)|prostate(8)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(2)	146						AGGACCCAGTCGGCATTGGCA	0.507																																																0													112	122	119					22																	26422449		1922	4134	6056	SO:0001583	missense	84700			AJ310931	CCDS54507.1	22q12.1	2011-09-27			ENSG00000133454	ENSG00000133454		"Myosins / Myosin superfamily : Class XVIII"	18150	protein-coding gene	gene with protein product		607295				12209013, 12547197	Standard	NM_032608		Approved	BK125H2.1	uc003abz.1	Q8IUG5	OTTHUMG00000151129	ENST00000407587.2:c.6512C>T	22.37:g.26422449C>T	ENSP00000386096:p.Ser2171Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RWP3|F5GYU7|Q8NDI8|Q8TE65|Q8WWS0|Q96KH2|Q96KR8|Q96KR9	Missense_Mutation	SNP	ENST00000407587.2	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	11.35|11.35	1.612358|1.612358	0.28712|0.28712	.|.	.|.	ENSG00000133454|ENSG00000133454	ENST00000543971|ENST00000536101;ENST00000335473;ENST00000407587	.|D;D;D	.|0.86627	.|-2.13;-2.13;-2.15	4.28|4.28	-0.72|-0.72	0.11195|0.11195	.|.	.|.	.|.	.|.	.|.	T|T	0.69548|0.69548	0.3123|0.3123	N|N	0.08118|0.08118	0|0	0.09310|0.09310	N|N	1|1	.|B;B;B;B;B	.|0.26935	.|0.164;0.102;0.043;0.002;0.072	.|B;B;B;B;B	.|0.14578	.|0.011;0.005;0.005;0.001;0.011	T|T	0.55685|0.55685	-0.8102|-0.8102	5|9	.|0.28530	.|T	.|0.3	.|.	7.9115|7.9115	0.29793|0.29793	0.0:0.5385:0.3586:0.1029|0.0:0.5385:0.3586:0.1029	.|.	.|1683;2172;2170;2171;2170	.|Q8IUG5-2;B0QYF5;Q8IUG5;F5GXR6;F5GYU7	.|.;.;MY18B_HUMAN;.;.	W|L	120|2170;2170;2171	.|ENSP00000441229:S2170L;ENSP00000334563:S2170L;ENSP00000386096:S2171L	.|ENSP00000334563:S2170L	R|S	+|+	1|2	2|0	MYO18B|MYO18B	24752449|24752449	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.001000|0.001000	0.01503|0.01503	-0.212000|-0.212000	0.09319|0.09319	0.019000|0.019000	0.15079|0.15079	0.591000|0.591000	0.81541|0.81541	CGG|TCG		0.507	MYO18B-006	NOVEL	non_canonical_conserved|basic|appris_candidate_longest|exp_conf	protein_coding	protein_coding	OTTHUMT00000400691.1	NM_032608		T	26422449	C	T	26422449	3	4	664	1	0	0	0	0	1	0	0	0	10073	893	31	1	6675	1	MYO18B	22	26422449	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1585333	26422449	24882117	1054	42364										
SEZ6L	23544	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr22	26688611	26688611	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aggaggcccgccccaagcacGccttgccccccaagaagaaa	10	17	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:26688611G>A	ENST00000248933.6	+	2	429	c.334G>A	c.(334-336)Gcc>Acc	p.A112T	SEZ6L_ENST00000403121.1_5'UTR|SEZ6L_ENST00000404234.3_Missense_Mutation_p.A112T|SEZ6L_ENST00000343706.4_Missense_Mutation_p.A112T|SEZ6L_ENST00000529632.2_Missense_Mutation_p.A112T|SEZ6L_ENST00000360929.3_Missense_Mutation_p.A112T|SEZ6L_ENST00000402979.1_5'UTR			Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	112					adult locomotory behavior (GO:0008344)|cerebellar Purkinje cell layer development (GO:0021680)|regulation of protein kinase C signaling (GO:0090036)|synapse maturation (GO:0060074)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)				breast(1)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(18)|lung(35)|ovary(4)|pancreas(1)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	80						CCCCAAGCACGCCTTGCCCCC	0.647																																																0													43	36	39					22																	26688611		2203	4300	6503	SO:0001583	missense	23544			AL050253	CCDS13833.1, CCDS54508.1, CCDS54510.1, CCDS54511.1, CCDS74837.1	22q12.1	2008-05-14	2001-11-28		ENSG00000100095	ENSG00000100095			10763	protein-coding gene	gene with protein product		607021	"seizure related gene 6 (mouse)-like"				Standard	NM_021115		Approved		uc003acb.3	Q9BYH1	OTTHUMG00000150870	ENST00000248933.6:c.334G>A	22.37:g.26688611G>A	ENSP00000248933:p.Ala112Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A0AUW7|B0QYG4|B0QYG5|B7ZLJ6|G8JLP3|O95917|Q5THY5|Q6IBZ4|Q6UXD4|Q9NUI3|Q9NUI4|Q9NUI5|Q9Y2E1|Q9Y3J6	Missense_Mutation	SNP	ENST00000248933.6	37	CCDS13833.1	.	.	.	.	.	.	.	.	.	.	G	1.111	-0.658295	0.03454	.	.	ENSG00000100095	ENST00000404234;ENST00000529632;ENST00000360929;ENST00000248933;ENST00000343706	T;T;T;T;T	0.29917	1.55;1.55;1.55;1.55;1.55	4.15	-7.7	0.01259	.	1.340970	0.05467	N	0.552354	T	0.10380	0.0254	N	0.08118	0	0.09310	N	0.999995	B;B;B;B;B;B	0.23891	0.001;0.001;0.009;0.093;0.001;0.001	B;B;B;B;B;B	0.12837	0.001;0.001;0.005;0.008;0.001;0.001	T	0.20009	-1.0288	10	0.13108	T	0.6	.	3.7933	0.08730	0.5686:0.1179:0.2071:0.1064	.	112;112;112;112;112;112	B7ZLJ8;B7ZLJ6;Q9BYH1-5;Q9BYH1-4;B0QYG3;Q9BYH1	.;.;.;.;.;SE6L1_HUMAN	T	112	ENSP00000384772:A112T;ENSP00000437037:A112T;ENSP00000354185:A112T;ENSP00000248933:A112T;ENSP00000342661:A112T	ENSP00000248933:A112T	A	+	1	0	SEZ6L	25018611	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.512000	0.06313	-1.455000	0.01923	-0.300000	0.09419	GCC		0.647	SEZ6L-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000320359.3			A	26688611	G	A	26688611	3	1	664	1	0	0	0	0	1	0	0	0	14156	1087	38	1	340	1	SEZ6L	22	26688611	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	266162	26688611	24615955	1055	42365										
CHEK2	11200	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr22	29091740	29091740	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aactccagcagtccacagcaCggttatacccagcagtccca	7	16	0	0	rs200649225		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:29091740C>T	ENST00000405598.1	-	12	1408	c.1217G>A	c.(1216-1218)cGt>cAt	p.R406H	CHEK2_ENST00000382580.2_Missense_Mutation_p.R449H|CHEK2_ENST00000402731.1_Missense_Mutation_p.R377H|CHEK2_ENST00000328354.6_Missense_Mutation_p.R406H|CHEK2_ENST00000403642.1_Missense_Mutation_p.R315H|CHEK2_ENST00000544772.1_Missense_Mutation_p.R185H|CHEK2_ENST00000382566.1_3'UTR|CHEK2_ENST00000348295.3_Missense_Mutation_p.R377H|CHEK2_ENST00000382578.1_Missense_Mutation_p.R315H|CHEK2_ENST00000382565.1_Intron|CHEK2_ENST00000404276.1_Missense_Mutation_p.R406H|CHEK2_ENST00000464581.1_5'Flank			O96017	CHK2_HUMAN	checkpoint kinase 2	406	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.		R -> H (in dbSNP:rs299671).		cellular protein catabolic process (GO:0044257)|cellular response to DNA damage stimulus (GO:0006974)|DNA damage checkpoint (GO:0000077)|DNA damage induced protein phosphorylation (GO:0006975)|double-strand break repair (GO:0006302)|G2/M transition of mitotic cell cycle (GO:0000086)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|positive regulation of transcription, DNA-templated (GO:0045893)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|protein stabilization (GO:0050821)|regulation of protein catabolic process (GO:0042176)|regulation of transcription, DNA-templated (GO:0006355)|replicative senescence (GO:0090399)|response to gamma radiation (GO:0010332)|signal transduction in response to DNA damage (GO:0042770)|signal transduction involved in intra-S DNA damage checkpoint (GO:0072428)|spindle assembly involved in mitosis (GO:0090307)|transcription, DNA-templated (GO:0006351)	nucleoplasm (GO:0005654)|PML body (GO:0016605)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)|ubiquitin protein ligase binding (GO:0031625)			central_nervous_system(17)|endometrium(2)|kidney(11)|large_intestine(2)|lung(11)|ovary(1)|prostate(4)|stomach(2)	50						GTCCACAGCACGGTTATACCC	0.443			F			breast		Direct reversal of damage;Other conserved DNA damage response genes					C|||	1	0.000199681	0.0	0.0	5008	,	,		19868	0.0		0.0	False		,,,				2504	0.001					yes	Rec		familial breast cancer	22	22q12.1	11200	CHK2 checkpoint homolog (S. pombe)		E	0								C	HIS/ARG,HIS/ARG,HIS/ARG	0,4406		0,0,2203	40	41	41		1346,1217,1130	3.5	0.9	22		41	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,missense	CHEK2	NM_001005735.1,NM_007194.3,NM_145862.2	29,29,29	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging,probably-damaging,probably-damaging	449/587,406/544,377/515	29091740	1,13005	2203	4300	6503	SO:0001583	missense	11200			AF086904	CCDS13843.1, CCDS13844.1, CCDS33629.1	22q12.1	2014-09-17	2011-11-11	2001-09-27	ENSG00000183765	ENSG00000183765			16627	protein-coding gene	gene with protein product		604373	"CHK2 (checkpoint, S.pombe) homolog", "CHK2 checkpoint homolog (S. pombe)"	RAD53		9836640, 10097108	Standard	NM_001257387		Approved	CDS1, CHK2, HuCds1, PP1425, bA444G7	uc003adt.1	O96017	OTTHUMG00000151023	ENST00000405598.1:c.1217G>A	22.37:g.29091740C>T	ENSP00000386087:p.Arg406His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3Y9|B7ZBF3|B7ZBF4|B7ZBF5|Q6QA03|Q6QA04|Q6QA05|Q6QA06|Q6QA07|Q6QA08|Q6QA10|Q6QA11|Q6QA12|Q6QA13|Q9HBS5|Q9HCQ8|Q9UGF0|Q9UGF1	Missense_Mutation	SNP	ENST00000405598.1	37	CCDS13843.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	21.7|21.7	4.191485|4.191485	0.78902|0.78902	0.0|0.0	1.16E-4|1.16E-4	ENSG00000183765|ENSG00000183765	ENST00000348295;ENST00000382578;ENST00000382563;ENST00000544772;ENST00000328354;ENST00000404276;ENST00000405598;ENST00000382580;ENST00000403642;ENST00000402731|ENST00000434810	T;T;T;T;T;T;T;T;T|.	0.66280|.	-0.2;-0.2;-0.2;-0.2;-0.2;-0.2;-0.2;-0.2;-0.2|.	5.73|5.73	3.53|3.53	0.40419|0.40419	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);|.	0.264364|.	0.40064|.	N|.	0.001198|.	T|T	0.52901|0.52901	0.1763|0.1763	L|L	0.37850|0.37850	1.14|1.14	0.58432|0.58432	D|D	0.999996|0.999996	D;D;D;D;D;D|.	0.89917|.	1.0;0.997;1.0;1.0;0.997;0.999|.	P;P;D;D;P;P|.	0.69307|.	0.858;0.839;0.963;0.953;0.763;0.766|.	T|T	0.47560|0.47560	-0.9108|-0.9108	10|5	0.59425|.	D|.	0.04|.	-8.0499|-8.0499	10.4422|10.4422	0.44472|0.44472	0.0:0.7927:0.1342:0.0731|0.0:0.7927:0.1342:0.0731	.|.	315;185;406;377;406;449|.	O96017-4;Q9HBS5;A8JZZ5;O96017-12;O96017;O96017-9|.	.;.;.;.;CHK2_HUMAN;.|.	H|M	377;315;89;185;406;406;406;449;315;377|150	ENSP00000329012:R377H;ENSP00000372021:R315H;ENSP00000442458:R185H;ENSP00000329178:R406H;ENSP00000385747:R406H;ENSP00000386087:R406H;ENSP00000372023:R449H;ENSP00000384919:R315H;ENSP00000384835:R377H|.	ENSP00000329178:R406H|.	R|V	-|-	2|1	0|0	CHEK2|CHEK2	27421740|27421740	0.854000|0.854000	0.29725|0.29725	0.920000|0.920000	0.36463|0.36463	0.956000|0.956000	0.61745|0.61745	1.622000|1.622000	0.36997|0.36997	1.429000|1.429000	0.47314|0.47314	0.650000|0.650000	0.86243|0.86243	CGT|GTG		0.443	CHEK2-005	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000321150.1	NM_001005735		T	29091740	C	T	29091740	3	4	664	1	0	0	0	0	1	0	0	0	3337	536	19	1	434	1	CHEK2	22	29091740	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2403129	29091740	22212826	1056	42366										
GAL3ST1	9514	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	30951743	30951743	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagcaccgtgatgaagatggCgttggtcggcaccaggccgc	16	11	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:30951743C>T	ENST00000402321.1	-	3	786	c.469G>A	c.(469-471)Gcc>Acc	p.A157T	GAL3ST1_ENST00000402369.1_Missense_Mutation_p.A157T|GAL3ST1_ENST00000443111.2_Missense_Mutation_p.A157T|GAL3ST1_ENST00000406361.1_Missense_Mutation_p.A157T|GAL3ST1_ENST00000338911.5_Missense_Mutation_p.A157T|GAL3ST1_ENST00000401975.1_Missense_Mutation_p.A157T|GAL3ST1_ENST00000406955.1_Missense_Mutation_p.A157T			Q99999	G3ST1_HUMAN	galactose-3-O-sulfotransferase 1	157					galactosylceramide biosynthetic process (GO:0006682)|glycosphingolipid metabolic process (GO:0006687)|myelination (GO:0042552)|protein N-linked glycosylation (GO:0006487)|small molecule metabolic process (GO:0044281)|spermatogenesis (GO:0007283)|sphingolipid metabolic process (GO:0006665)	Golgi membrane (GO:0000139)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	galactosylceramide sulfotransferase activity (GO:0001733)|sulfotransferase activity (GO:0008146)			NS(1)|breast(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(8)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	21						ATGAAGATGGCGTTGGTCGGC	0.657																																																0													78	82	81					22																	30951743		2203	4300	6503	SO:0001583	missense	9514			D88667	CCDS13879.1	22q12.2	2007-04-02			ENSG00000128242	ENSG00000128242		"Sulfotransferases, membrane-bound"	24240	protein-coding gene	gene with protein product	"cerebroside (3' phosphoadenylylsulfate:galactosylceramide 3') sulfotransferase"	602300				9847074, 9030544	Standard	NM_004861		Approved	CST	uc003aii.1	Q99999	OTTHUMG00000151200	ENST00000402321.1:c.469G>A	22.37:g.30951743C>T	ENSP00000385735:p.Ala157Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q96C63	Missense_Mutation	SNP	ENST00000402321.1	37	CCDS13879.1	.	.	.	.	.	.	.	.	.	.	C	10.26	1.301624	0.23736	.	.	ENSG00000128242	ENST00000406955;ENST00000402321;ENST00000402369;ENST00000401975;ENST00000338911;ENST00000406361;ENST00000443111;ENST00000441967;ENST00000431313;ENST00000452827;ENST00000437282;ENST00000416358;ENST00000427899	T;T;T;T;T;T;T;T;T;T;T;T;T	0.12774	2.65;2.65;2.65;2.65;2.65;2.65;2.65;2.65;2.65;2.65;2.65;2.65;2.65	5.11	4.06	0.47325	.	0.050236	0.85682	D	0.000000	T	0.06096	0.0158	N	0.13371	0.34	0.80722	D	1	P	0.43314	0.803	B	0.33295	0.161	T	0.15578	-1.0432	10	0.02654	T	1	-23.5279	14.5964	0.68410	0.1566:0.8434:0.0:0.0	.	157	Q99999	G3ST1_HUMAN	T	157;157;157;157;157;157;157;157;158;157;157;157;158	ENSP00000385825:A157T;ENSP00000385735:A157T;ENSP00000384122:A157T;ENSP00000384388:A157T;ENSP00000343234:A157T;ENSP00000385207:A157T;ENSP00000402587:A157T;ENSP00000390545:A157T;ENSP00000395080:A158T;ENSP00000405017:A157T;ENSP00000401426:A157T;ENSP00000391485:A157T;ENSP00000397092:A158T	ENSP00000343234:A157T	A	-	1	0	GAL3ST1	29281743	0.998000	0.40836	1.000000	0.80357	0.921000	0.55340	0.766000	0.26560	1.048000	0.40298	0.491000	0.48974	GCC		0.657	GAL3ST1-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321745.1	NM_004861		T	30951743	C	T	30951743	3	4	664	1	0	0	0	0	1	0	0	0	6204	768	27	1	806	1	GAL3ST1	22	30951743	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1860003	30951743	20352823	1057	42367										
MORC2	22880	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	31328607	31328607	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtcaggctcaatgcggaggCattcggaagtggagggctct	16	8	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:31328607C>T	ENST00000397641.3	-	23	3080	c.2672G>A	c.(2671-2673)tGc>tAc	p.C891Y	MORC2-AS1_ENST00000441558.1_RNA|MORC2_ENST00000215862.4_Missense_Mutation_p.C829Y			Q9Y6X9	MORC2_HUMAN	MORC family CW-type zinc finger 2	891						cytoplasm (GO:0005737)|nucleus (GO:0005634)	zinc ion binding (GO:0008270)			breast(2)|kidney(2)|large_intestine(5)|lung(4)|ovary(2)|pancreas(1)|skin(4)|upper_aerodigestive_tract(1)	21						AATGCGGAGGCATTCGGAAGT	0.592																																																0													116	89	98					22																	31328607		2203	4300	6503	SO:0001583	missense	22880			AB020659	CCDS33636.1	22q12.2	2005-06-15	2005-06-15	2005-06-15	ENSG00000133422	ENSG00000133422			23573	protein-coding gene	gene with protein product			"zinc finger, CW-type with coiled-coil domain 1", "zinc finger, CW type with coiled-coil domain 1"	ZCWCC1		14607086	Standard	XM_005261391		Approved	ZCW3, KIAA0852, AC004542.C22.1	uc003aje.1	Q9Y6X9	OTTHUMG00000151193	ENST00000397641.3:c.2672G>A	22.37:g.31328607C>T	ENSP00000380763:p.Cys891Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNB1|Q9UF28|Q9Y6V2	Missense_Mutation	SNP	ENST00000397641.3	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	14.68|14.68	2.608736|2.608736	0.46527|0.46527	.|.	.|.	ENSG00000133422|ENSG00000133422	ENST00000397641;ENST00000215862|ENST00000445980	T;T|.	0.13307|.	2.61;2.6|.	5.95|5.95	5.95|5.95	0.96441|0.96441	.|.	0.336528|.	0.32884|.	N|.	0.005525|.	T|T	0.65471|0.65471	0.2694|0.2694	L|L	0.56769|0.56769	1.78|1.78	0.80722|0.80722	D|D	1|1	P|.	0.44195|.	0.828|.	B|.	0.40782|.	0.34|.	T|T	0.61969|0.61969	-0.6953|-0.6953	10|5	0.51188|.	T|.	0.08|.	.|.	13.5674|13.5674	0.61826|0.61826	0.0:0.9293:0.0:0.0707|0.0:0.9293:0.0:0.0707	.|.	891|.	Q9Y6X9|.	MORC2_HUMAN|.	Y|I	891;829|52	ENSP00000380763:C891Y;ENSP00000215862:C829Y|.	ENSP00000215862:C829Y|.	C|M	-|-	2|3	0|0	MORC2|MORC2	29658607|29658607	0.993000|0.993000	0.37304|0.37304	0.813000|0.813000	0.32504|0.32504	0.013000|0.013000	0.08279|0.08279	3.318000|3.318000	0.51975|0.51975	2.825000|2.825000	0.97269|0.97269	0.655000|0.655000	0.94253|0.94253	TGC|ATG		0.592	MORC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000321710.2	NM_014941		T	31328607	C	T	31328607	3	4	664	1	0	0	0	0	1	0	0	0	9709	710	25	2	442	2	MORC2	22	31328607	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	376864	31328607	19975959	1058	42368										
EIF4ENIF1	56478	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	31843508	31843508	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagcaaggtcatgtggcaagGccagcccttctaaagctgcc	11	13	2	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:31843508G>A	ENST00000397525.1	-	14	2115	c.1892C>T	c.(1891-1893)gCc>gTc	p.A631V	EIF4ENIF1_ENST00000344710.5_Missense_Mutation_p.A457V|EIF4ENIF1_ENST00000330125.5_Missense_Mutation_p.A631V|EIF4ENIF1_ENST00000397523.1_Missense_Mutation_p.A607V|EIF4ENIF1_ENST00000382180.2_Missense_Mutation_p.A286V	NM_001164501.1	NP_001157973.1	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E nuclear import factor 1	631						cytoplasm (GO:0005737)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|protein transporter activity (GO:0008565)			autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(9)|lung(8)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	36						ATGTGGCAAGGCCAGCCCTTC	0.512																																																0													70	64	66					22																	31843508		2203	4300	6503	SO:0001583	missense	56478			AF240775	CCDS13898.1, CCDS54520.1	22q11.2	2007-01-16			ENSG00000184708	ENSG00000184708			16687	protein-coding gene	gene with protein product		607445				10856257	Standard	NM_019843		Approved	4E-T, FLJ21601, Clast4, 2610509L04Rik	uc003akz.2	Q9NRA8	OTTHUMG00000030793	ENST00000397525.1:c.1892C>T	22.37:g.31843508G>A	ENSP00000380659:p.Ala631Val	Somatic		WXS	Illumina HiSeq	Phase_I	B1AKL2|B1AKL3|B2RBF1|Q8NCF2|Q9H708	Missense_Mutation	SNP	ENST00000397525.1	37	CCDS13898.1	.	.	.	.	.	.	.	.	.	.	G	16.13	3.034959	0.54896	.	.	ENSG00000184708	ENST00000344710;ENST00000397525;ENST00000330125;ENST00000397523;ENST00000382180;ENST00000418321	.	.	.	6.17	4.01	0.46588	.	0.388525	0.28908	N	0.013746	T	0.37320	0.0999	L	0.34521	1.04	0.27305	N	0.957477	B;B;B;B	0.27910	0.193;0.193;0.161;0.085	B;B;B;B	0.31614	0.129;0.129;0.079;0.133	T	0.21586	-1.0241	9	0.34782	T	0.22	-5.9143	12.3657	0.55226	0.0:0.1258:0.7445:0.1297	.	457;631;456;607	B1AKL3;Q9NRA8;Q9NRA8-2;B1AKL4	.;4ET_HUMAN;.;.	V	457;631;631;607;286;188	.	ENSP00000328103:A631V	A	-	2	0	EIF4ENIF1	30173508	0.844000	0.29557	0.978000	0.43139	0.805000	0.45488	3.314000	0.51943	2.941000	0.99782	0.655000	0.94253	GCC		0.512	EIF4ENIF1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000127926.1	NM_019843		A	31843508	G	A	31843508	3	1	664	1	0	0	0	0	1	0	0	0	5037	1203	42	2	1089	2	EIF4ENIF1	22	31843508	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	514901	31843508	19461058	1059	42369										
EIF4ENIF1	56478	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	31851930	31851930	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tagagaaccacctactgaacCgactggcagagactgaccct	9	13	0	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:31851930C>T	ENST00000397525.1	-	8	1230	c.1007G>A	c.(1006-1008)cGg>cAg	p.R336Q	EIF4ENIF1_ENST00000344710.5_Missense_Mutation_p.R173Q|RP11-247I13.11_ENST00000464523.1_RNA|EIF4ENIF1_ENST00000330125.5_Missense_Mutation_p.R336Q|EIF4ENIF1_ENST00000397523.1_Missense_Mutation_p.R336Q|EIF4ENIF1_ENST00000382180.2_Missense_Mutation_p.R15Q	NM_001164501.1	NP_001157973.1	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E nuclear import factor 1	336						cytoplasm (GO:0005737)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|protein transporter activity (GO:0008565)	p.R336Q(1)		autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(9)|lung(8)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	36						CCTACTGAACCGACTGGCAGA	0.433											OREG0003517	type=REGULATORY REGION|Gene=LOC486366|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay																																				1	Substitution - Missense(1)	endometrium(1)											98	90	93					22																	31851930		2203	4300	6503	SO:0001583	missense	56478			AF240775	CCDS13898.1, CCDS54520.1	22q11.2	2007-01-16			ENSG00000184708	ENSG00000184708			16687	protein-coding gene	gene with protein product		607445				10856257	Standard	NM_019843		Approved	4E-T, FLJ21601, Clast4, 2610509L04Rik	uc003akz.2	Q9NRA8	OTTHUMG00000030793	ENST00000397525.1:c.1007G>A	22.37:g.31851930C>T	ENSP00000380659:p.Arg336Gln	Somatic	828	WXS	Illumina HiSeq	Phase_I	B1AKL2|B1AKL3|B2RBF1|Q8NCF2|Q9H708	Missense_Mutation	SNP	ENST00000397525.1	37	CCDS13898.1	.	.	.	.	.	.	.	.	.	.	C	35	5.526108	0.96431	.	.	ENSG00000184708	ENST00000344710;ENST00000397525;ENST00000330125;ENST00000397523;ENST00000382180;ENST00000420671	.	.	.	6.07	6.07	0.98685	.	0.000000	0.85682	D	0.000000	T	0.78285	0.4259	M	0.67397	2.05	0.58432	D	0.999999	D;D;D;D	0.89917	0.999;0.999;1.0;1.0	P;D;D;D	0.85130	0.874;0.986;0.963;0.997	T	0.76124	-0.3074	9	0.45353	T	0.12	-15.0571	17.8153	0.88630	0.0:1.0:0.0:0.0	.	173;336;173;336	B1AKL3;Q9NRA8;Q9NRA8-2;B1AKL4	.;4ET_HUMAN;.;.	Q	173;336;336;336;15;336	.	ENSP00000328103:R336Q	R	-	2	0	EIF4ENIF1	30181930	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.158000	0.77470	2.885000	0.99019	0.655000	0.94253	CGG		0.433	EIF4ENIF1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000127926.1	NM_019843		T	31851930	C	T	31851930	3	4	664	1	0	0	0	0	1	0	0	0	5037	652	23	1	2001	1	EIF4ENIF1	22	31851930	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	8422	31851930	19452636	1060	42370										
PISD	23761	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr22	32019743	32019743	+	Intron	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcaggaggtagtagaggacgGtcaagggccaggagcgcagt	19	7	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:32019743G>A	ENST00000439502.2	-	4	545				PISD_ENST00000266095.5_Missense_Mutation_p.T49I|PISD_ENST00000478893.1_5'UTR|PISD_ENST00000382151.2_Missense_Mutation_p.T49I|PISD_ENST00000336566.4_Intron|PISD_ENST00000397500.1_Missense_Mutation_p.T49I			Q9UG56	PISD_HUMAN	phosphatidylserine decarboxylase						glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylethanolamine biosynthetic process (GO:0006646)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	mitochondrion (GO:0005739)|nucleus (GO:0005634)	phosphatidylserine decarboxylase activity (GO:0004609)			central_nervous_system(3)|endometrium(2)|large_intestine(4)|lung(1)|ovary(1)|prostate(1)	12					Phosphatidylserine(DB00144)	GTAGAGGACGGTCAAGGGCCA	0.672																																																0													106	85	92					22																	32019743		2203	4300	6503	SO:0001627	intron_variant	23761				CCDS13899.1	22q12.2	2011-01-25			ENSG00000241878	ENSG00000241878	4.1.1.65		8999	protein-coding gene	gene with protein product		612770				10591208	Standard	NM_014338		Approved	dJ858B16.2, PSDC	uc003alk.2	Q9UG56	OTTHUMG00000030252	ENST00000439502.2:c.322-1872C>T	22.37:g.32019743G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B1AKM7|O43207|O95535|Q6IC28|Q96GQ2|Q9UGA9	Missense_Mutation	SNP	ENST00000439502.2	37		.	.	.	.	.	.	.	.	.	.	G	19.23	3.786977	0.70337	.	.	ENSG00000241878	ENST00000382151;ENST00000266095;ENST00000397500;ENST00000451635;ENST00000422020;ENST00000442379;ENST00000431201;ENST00000429683	.	.	.	5.61	4.6	0.57074	.	.	.	.	.	T	0.56790	0.2009	M	0.63843	1.955	0.43187	D	0.995015	B;P	0.37276	0.139;0.589	B;B	0.38378	0.039;0.272	T	0.60944	-0.7162	8	0.56958	D	0.05	.	13.5452	0.61699	0.0747:0.0:0.9253:0.0	.	49;49	B1AKM6;Q9UG56-2	.;.	I	49	.	ENSP00000266095:T49I	T	-	2	0	PISD	30349743	1.000000	0.71417	0.881000	0.34555	0.988000	0.76386	6.289000	0.72696	1.370000	0.46153	0.591000	0.81541	ACC		0.672	PISD-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000075106.4			A	32019743	G	A	32019743	1	1	664	0	1	0	0	0	0	0	0	0	11953	1261	44	2		2	PISD	22	32019743	Intron	SNP	G	TCGA-KN-8428-01A-11D-2310-10	167813	32019743	19284823	1061	42371										
RFPL2	10739	broad.mit.edu;bcgsc.ca	37	chr22	32587274	32587274	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tctgatgcgcccacttcggaCgctcctgaggtcgtcagaaa	11	13	2	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:32587274C>T	ENST00000400237.1	-	5	1557	c.622G>A	c.(622-624)Gtc>Atc	p.V208I	RFPL2_ENST00000248980.4_Missense_Mutation_p.V147I|RFPL2_ENST00000489846.1_5'UTR|RFPL2_ENST00000248983.4_Missense_Mutation_p.V118I|RFPL2_ENST00000400236.3_Missense_Mutation_p.V118I			O75678	RFPL2_HUMAN	ret finger protein-like 2	208	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.						zinc ion binding (GO:0008270)			endometrium(2)|kidney(4)|large_intestine(3)|lung(9)|ovary(1)|skin(2)	21						CCACTTCGGACGCTCCTGAGG	0.527																																																0													131	120	123					22																	32587274		2203	4300	6503	SO:0001583	missense	10739			AJ010231	CCDS43009.1, CCDS46694.1, CCDS43009.2	22q12.3	2008-06-12				ENSG00000128253		"RING-type (C3HC4) zinc fingers"	9979	protein-coding gene	gene with protein product		605969				10508838	Standard	NM_001098527		Approved	RNF79	uc003amg.3	O75678		ENST00000400237.1:c.622G>A	22.37:g.32587274C>T	ENSP00000383096:p.Val208Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000400237.1	37	CCDS43009.2	.	.	.	.	.	.	.	.	.	.	C	12.40	1.927680	0.34002	.	.	ENSG00000128253	ENST00000248980;ENST00000248983;ENST00000400236;ENST00000400237	T;T;T;T	0.24723	1.84;1.84;1.84;1.84	0.351	-0.702	0.11265	Concanavalin A-like lectin/glucanase (1);SPRY-associated (1);Butyrophylin-like (1);B30.2/SPRY domain (1);	.	.	.	.	T	0.35128	0.0921	M	0.66378	2.025	0.09310	N	1	D;D	0.57257	0.979;0.967	P;P	0.55785	0.784;0.677	T	0.19614	-1.0300	9	0.59425	D	0.04	.	4.8587	0.13571	0.3466:0.6534:0.0:0.0	.	208;147	O75678;O75678-3	RFPL2_HUMAN;.	I	147;118;118;208	ENSP00000248980:V147I;ENSP00000248983:V118I;ENSP00000383095:V118I;ENSP00000383096:V208I	ENSP00000248980:V147I	V	-	1	0	RFPL2	30917274	0.426000	0.25506	0.003000	0.11579	0.003000	0.03518	1.638000	0.37165	-0.726000	0.04895	-0.745000	0.03516	GTC		0.527	RFPL2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000075262.2	NM_006605		T	32587274	C	T	32587274	3	4	664	1	0	0	0	0	1	0	0	0	13267	536	19	1	518	1	RFPL2	22	32587274	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	567531	32587274	18717292	1062	42372										
RBM9	23543	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	36334942	36334942	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ataacctggagtcagaggctCgttctatgagaaagacaaga	11	7	2	4			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:36334942C>T	ENST00000438146.2	-	2	189	c.190G>A	c.(190-192)Gag>Aag	p.E64K	RBFOX2_ENST00000359369.4_5'UTR	NM_001082578.1|NM_001082579.1	NP_001076047|NP_001076048.1	O43251	RFOX2_HUMAN	RNA binding protein, fox-1 homolog (C. elegans) 2	4					dendrite morphogenesis (GO:0048813)|intracellular estrogen receptor signaling pathway (GO:0030520)|mRNA processing (GO:0006397)|negative regulation of transcription, DNA-templated (GO:0045892)|neuromuscular process controlling balance (GO:0050885)|radial glia guided migration of Purkinje cell (GO:0021942)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|regulation of cell proliferation (GO:0042127)|regulation of definitive erythrocyte differentiation (GO:0010724)|RNA metabolic process (GO:0016070)|RNA splicing (GO:0008380)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)			endometrium(4)|large_intestine(7)|lung(7)	18						GTCAGAGGCTCGTTCTATGAG	0.403																																																0													83	84	84					22																	36334942		1915	4130	6045	SO:0001583	missense	23543			AL009266	CCDS13921.1, CCDS43013.1, CCDS46699.1, CCDS46700.1, CCDS46701.1	22q12-q13	2013-02-12	2010-09-10	2010-09-10	ENSG00000100320	ENSG00000100320		"RNA binding motif (RRM) containing"	9906	protein-coding gene	gene with protein product	"hexaribonucleotide binding protein 2"	612149	"RNA binding motif protein 9"	RBM9			Standard	NM_014309		Approved	HNRBP2, FOX-2, HRNBP2	uc003aon.4	O43251	OTTHUMG00000150585	ENST00000438146.2:c.190G>A	22.37:g.36334942C>T	ENSP00000413035:p.Glu64Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A4F5G8|A8K5Z5|B0QYY8|B0QYY9|Q0PRL5|Q0VH35|Q5TF71|Q6IC09|Q8TD00|Q8WYB1|Q96DZ6|Q96NL7|Q9UGW4|Q9UH33	Missense_Mutation	SNP	ENST00000438146.2	37	CCDS43013.1	.	.	.	.	.	.	.	.	.	.	C	16.70	3.195731	0.58126	.	.	ENSG00000100320	ENST00000338644;ENST00000438146;ENST00000408983	T;T	0.49139	0.79;1.42	5.22	5.22	0.72569	.	0.000000	0.43416	D	0.000577	T	0.47820	0.1466	N	0.08118	0	0.32323	N	0.562168	D;D	0.65815	0.995;0.995	D;D	0.68192	0.956;0.956	T	0.60342	-0.7282	10	0.87932	D	0	.	14.1472	0.65357	0.0:1.0:0.0:0.0	.	64;64	O43251-6;O43251-8	.;.	K	4;64;16	ENSP00000413035:E64K;ENSP00000386177:E16K	ENSP00000342831:E4K	E	-	1	0	RBFOX2	34664888	1.000000	0.71417	1.000000	0.80357	0.973000	0.67179	3.801000	0.55545	2.717000	0.92951	0.563000	0.77884	GAG		0.403	RBFOX2-005	KNOWN	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000319299.3			T	36334942	C	T	36334942	3	4	664	1	0	0	0	0	1	0	0	0	13160	893	31	1	1258	1	RBM9	22	36334942	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3747668	36334942	14969624	1063	42373										
PDXP	57026	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	38061706	38061706	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcttatggtgggtgaccgccTggagaccgacatcctctttg	13	11	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:38061706T>C	ENST00000215904.6	+	2	775	c.719T>C	c.(718-720)cTg>cCg	p.L240P	SH3BP1_ENST00000599616.1_Missense_Mutation_p.L549P|PDXP_ENST00000403251.1_Missense_Mutation_p.L23P	NM_020315.4	NP_064711.1	Q96GD0	PLPP_HUMAN	pyridoxal (pyridoxine, vitamin B6) phosphatase	240					actin rod assembly (GO:0031247)|cellular response to ATP (GO:0071318)|positive regulation of actin filament depolymerization (GO:0030836)|protein dephosphorylation (GO:0006470)|pyridoxal phosphate catabolic process (GO:0032361)|regulation of cytokinesis (GO:0032465)|regulation of mitosis (GO:0007088)	cell projection (GO:0042995)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	heat shock protein binding (GO:0031072)|magnesium ion binding (GO:0000287)|phosphoprotein phosphatase activity (GO:0004721)|phosphoserine phosphatase activity (GO:0004647)|pyridoxal phosphatase activity (GO:0033883)			kidney(1)|large_intestine(1)|lung(5)|ovary(2)	9	Melanoma(58;0.0574)					GGTGACCGCCTGGAGACCGAC	0.642																																																0													137	122	127					22																	38061706		2203	4300	6503	SO:0001583	missense	57026			BC064922	CCDS13953.1	22q12.3	2005-08-16			ENSG00000241360	ENSG00000241360			30259	protein-coding gene	gene with protein product		609246				14522954	Standard	NM_020315		Approved	dJ37E16.5, FLJ32703		Q96GD0	OTTHUMG00000044618	ENST00000215904.6:c.719T>C	22.37:g.38061706T>C	ENSP00000215904:p.Leu240Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UGY2	Missense_Mutation	SNP	ENST00000215904.6	37	CCDS13953.1	.	.	.	.	.	.	.	.	.	.	T	26.5	4.744933	0.89663	.	.	ENSG00000241360	ENST00000215904;ENST00000403251	T;T	0.36340	1.26;1.26	5.78	5.78	0.91487	Haloacid dehalogenase-like hydrolase (1);HAD-like domain (2);	.	.	.	.	T	0.62696	0.2449	M	0.76938	2.355	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.67252	-0.5717	9	0.87932	D	0	-7.7132	16.1061	0.81223	0.0:0.0:0.0:1.0	.	240;549	Q96GD0;Q6ZT62	PLPP_HUMAN;.	P	240;23	ENSP00000215904:L240P;ENSP00000385336:L23P	ENSP00000215904:L240P	L	+	2	0	PDXP	36391652	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	7.955000	0.87856	2.210000	0.71456	0.459000	0.35465	CTG		0.642	PDXP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000104105.2	NM_020315		C	38061706	T	C	38061706	3	2	664	1	0	0	0	0	1	0	0	0	11705	1580	55	3	725	3	PDXP	22	38061706	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	1726764	38061706	13242860	1064	42374										
TRIOBP	11078	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	38153951	38153951	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgcctgctggtgaggggccgCgccggggcctgggtgccccc	19	15	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:38153951C>T	ENST00000406386.3	+	16	6274	c.6019C>T	c.(6019-6021)Cgc>Tgc	p.R2007C	TRIOBP_ENST00000407319.2_Missense_Mutation_p.R294C|TRIOBP_ENST00000403663.2_Missense_Mutation_p.R294C	NM_001039141.2	NP_001034230.1	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein	2007					actin modification (GO:0030047)|barbed-end actin filament capping (GO:0051016)|mitotic nuclear division (GO:0007067)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|nucleus (GO:0005634)	actin filament binding (GO:0051015)|GTP-Rho binding (GO:0017049)|myosin II binding (GO:0045159)|ubiquitin protein ligase binding (GO:0031625)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(3)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	12	Melanoma(58;0.0574)					TGAGGGGCCGCGCCGGGGCCT	0.682																																																0													9	11	11					22																	38153951		2090	4132	6222	SO:0001583	missense	11078			AB051449	CCDS33644.1, CCDS43015.1, CCDS43016.1	22q13.1	2014-06-03			ENSG00000100106	ENSG00000100106		"Pleckstrin homology (PH) domain containing"	17009	protein-coding gene	gene with protein product		609761		DFNB28		11148140, 16385457, 16385458	Standard	NM_001039141		Approved	HRIHFB2122, KIAA1662, Tara, TAP68	uc003atr.3	Q9H2D6	OTTHUMG00000150657	ENST00000406386.3:c.6019C>T	22.37:g.38153951C>T	ENSP00000384312:p.Arg2007Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B1AHD4|B1AHD7|F2Z2W0|F8W6V6|O94797|Q2PZW8|Q2Q3Z9|Q2Q400|Q5R3M6|Q96DW1|Q9BT77|Q9BTL7|Q9BY98|Q9Y3L4	Missense_Mutation	SNP	ENST00000406386.3	37	CCDS43015.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	15.50|15.50	2.853008|2.853008	0.51270|0.51270	.|.	.|.	ENSG00000100106|ENSG00000100106	ENST00000428075|ENST00000406386;ENST00000407319;ENST00000403663;ENST00000418339;ENST00000417857	.|T	.|0.24151	.|1.87	5.41|5.41	5.41|5.41	0.78517|0.78517	.|.	.|.	.|.	.|.	.|.	T|T	0.44222|0.44222	0.1283|0.1283	L|L	0.59436|0.59436	1.845|1.845	0.09310|0.09310	N|N	1|1	.|D;D;D	.|0.89917	.|1.0;1.0;1.0	.|D;D;D	.|0.68039	.|0.955;0.945;0.928	T|T	0.29458|0.29458	-1.0011|-1.0011	5|9	.|0.49607	.|T	.|0.09	.|.	10.746|10.746	0.46181|0.46181	0.0:0.7937:0.1333:0.0729|0.0:0.7937:0.1333:0.0729	.|.	.|294;294;2007	.|F8W6V6;F2Z2W0;Q9H2D6	.|.;.;TARA_HUMAN	V|C	247|2007;294;294;253;223	.|ENSP00000384312:R2007C	.|ENSP00000386026:R294C	A|R	+|+	2|1	0|0	TRIOBP|TRIOBP	36483897|36483897	0.954000|0.954000	0.32549|0.32549	0.903000|0.903000	0.35520|0.35520	0.727000|0.727000	0.41649|0.41649	2.030000|2.030000	0.41108|0.41108	2.527000|2.527000	0.85204|0.85204	0.561000|0.561000	0.74099|0.74099	GCG|CGC		0.682	TRIOBP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000319439.2			T	38153951	C	T	38153951	3	4	664	1	0	0	0	0	1	0	0	0	16565	768	27	1	6260	1	TRIOBP	22	38153951	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	92245	38153951	13150615	1065	42375										
PLA2G6	8398	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr22	38522429	38522429	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgaacgctggcttccgggccCgtgagatgtgcatgagatcc	14	11	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:38522429C>T	ENST00000332509.3	-	10	1559	c.1376G>A	c.(1375-1377)cGg>cAg	p.R459Q	PLA2G6_ENST00000335539.3_Missense_Mutation_p.R405Q|PLA2G6_ENST00000490473.1_5'UTR|PLA2G6_ENST00000402064.1_Missense_Mutation_p.R405Q	NM_003560.2	NP_003551.2	O60733	PLPL9_HUMAN	phospholipase A2, group VI (cytosolic, calcium-independent)	459					cardiolipin acyl-chain remodeling (GO:0035965)|cardiolipin biosynthetic process (GO:0032049)|cell death (GO:0008219)|chemotaxis (GO:0006935)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|glycerophospholipid biosynthetic process (GO:0046474)|innate immune response (GO:0045087)|lipid catabolic process (GO:0016042)|maternal process involved in female pregnancy (GO:0060135)|memory (GO:0007613)|negative regulation of synaptic transmission, glutamatergic (GO:0051967)|phosphatidylcholine acyl-chain remodeling (GO:0036151)|phosphatidylethanolamine acyl-chain remodeling (GO:0036152)|phospholipid metabolic process (GO:0006644)|positive regulation of arachidonic acid secretion (GO:0090238)|positive regulation of ceramide biosynthetic process (GO:2000304)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of exocytosis (GO:0045921)|positive regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0035774)|positive regulation of protein kinase C signaling (GO:0090037)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of vasodilation (GO:0045909)|regulation of store-operated calcium channel activity (GO:1901339)|response to endoplasmic reticulum stress (GO:0034976)|small molecule metabolic process (GO:0044281)|urinary bladder smooth muscle contraction (GO:0014832)	cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrion (GO:0005739)	calcium-independent phospholipase A2 activity (GO:0047499)|phospholipase A2 activity (GO:0004623)			breast(2)|endometrium(6)|kidney(1)|large_intestine(4)|liver(1)|lung(8)|ovary(1)|upper_aerodigestive_tract(1)	24	Melanoma(58;0.045)				Quinacrine(DB01103)	CTTCCGGGCCCGTGAGATGTG	0.612																																																0													115	99	105					22																	38522429		2203	4300	6503	SO:0001583	missense	8398			AF064594	CCDS13967.1, CCDS33645.1	22q13.1	2013-01-10			ENSG00000184381	ENSG00000184381	3.1.1.4	"Patatin-like phospholipase domain containing", "Parkinson disease", "Ankyrin repeat domain containing"	9039	protein-coding gene	gene with protein product	"neurodegeneration with brain iron accumulation 2"	603604				9417066, 16799181, 19029121	Standard	NM_001199562		Approved	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2	uc003aux.1	O60733	OTTHUMG00000151246	ENST00000332509.3:c.1376G>A	22.37:g.38522429C>T	ENSP00000333142:p.Arg459Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K597|B0QYE8|O75645|Q8N452|Q9UG29|Q9UIT0|Q9Y671	Missense_Mutation	SNP	ENST00000332509.3	37	CCDS13967.1	.	.	.	.	.	.	.	.	.	.	C	16.56	3.158668	0.57368	.	.	ENSG00000184381	ENST00000332509;ENST00000419848;ENST00000335539;ENST00000402064;ENST00000396860	T;T;T	0.61980	0.08;0.06;0.06	4.7	4.7	0.59300	.	0.186924	0.45606	D	0.000343	T	0.60881	0.2303	N	0.14661	0.345	0.80722	D	1	D;D	0.71674	0.998;0.959	D;B	0.75484	0.986;0.287	T	0.55679	-0.8103	10	0.16896	T	0.51	-32.198	13.0024	0.58683	0.0:1.0:0.0:0.0	.	405;459	O60733-2;O60733	.;PA2G6_HUMAN	Q	459;320;405;405;459	ENSP00000333142:R459Q;ENSP00000335149:R405Q;ENSP00000386100:R405Q	ENSP00000333142:R459Q	R	-	2	0	PLA2G6	36852375	0.996000	0.38824	0.991000	0.47740	0.242000	0.25591	3.576000	0.53878	2.428000	0.82296	0.655000	0.94253	CGG		0.612	PLA2G6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321860.1	NM_001004426		T	38522429	C	T	38522429	3	4	664	1	0	0	0	0	1	0	0	0	12015	652	23	1	1076	1	PLA2G6	22	38522429	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	368478	38522429	12782137	1066	42376										
PLA2G6	8398	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr22	38536030	38536030	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gccgagtggatggggtagccGttggggcccatgatgttgca	18	8	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:38536030G>A	ENST00000332509.3	-	5	939	c.756C>T	c.(754-756)aaC>aaT	p.N252N	PLA2G6_ENST00000335539.3_Silent_p.N252N|PLA2G6_ENST00000402064.1_Silent_p.N252N	NM_003560.2	NP_003551.2	O60733	PLPL9_HUMAN	phospholipase A2, group VI (cytosolic, calcium-independent)	252					cardiolipin acyl-chain remodeling (GO:0035965)|cardiolipin biosynthetic process (GO:0032049)|cell death (GO:0008219)|chemotaxis (GO:0006935)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|glycerophospholipid biosynthetic process (GO:0046474)|innate immune response (GO:0045087)|lipid catabolic process (GO:0016042)|maternal process involved in female pregnancy (GO:0060135)|memory (GO:0007613)|negative regulation of synaptic transmission, glutamatergic (GO:0051967)|phosphatidylcholine acyl-chain remodeling (GO:0036151)|phosphatidylethanolamine acyl-chain remodeling (GO:0036152)|phospholipid metabolic process (GO:0006644)|positive regulation of arachidonic acid secretion (GO:0090238)|positive regulation of ceramide biosynthetic process (GO:2000304)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of exocytosis (GO:0045921)|positive regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0035774)|positive regulation of protein kinase C signaling (GO:0090037)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of vasodilation (GO:0045909)|regulation of store-operated calcium channel activity (GO:1901339)|response to endoplasmic reticulum stress (GO:0034976)|small molecule metabolic process (GO:0044281)|urinary bladder smooth muscle contraction (GO:0014832)	cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrion (GO:0005739)	calcium-independent phospholipase A2 activity (GO:0047499)|phospholipase A2 activity (GO:0004623)			breast(2)|endometrium(6)|kidney(1)|large_intestine(4)|liver(1)|lung(8)|ovary(1)|upper_aerodigestive_tract(1)	24	Melanoma(58;0.045)				Quinacrine(DB01103)	TGGGGTAGCCGTTGGGGCCCA	0.637																																																0													44	44	44					22																	38536030		2203	4300	6503	SO:0001819	synonymous_variant	8398			AF064594	CCDS13967.1, CCDS33645.1	22q13.1	2013-01-10			ENSG00000184381	ENSG00000184381	3.1.1.4	"Patatin-like phospholipase domain containing", "Parkinson disease", "Ankyrin repeat domain containing"	9039	protein-coding gene	gene with protein product	"neurodegeneration with brain iron accumulation 2"	603604				9417066, 16799181, 19029121	Standard	NM_001199562		Approved	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2	uc003aux.1	O60733	OTTHUMG00000151246	ENST00000332509.3:c.756C>T	22.37:g.38536030G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K597|B0QYE8|O75645|Q8N452|Q9UG29|Q9UIT0|Q9Y671	Silent	SNP	ENST00000332509.3	37	CCDS13967.1	.	.	.	.	.	.	.	.	.	.	G	2.650	-0.282260	0.05642	.	.	ENSG00000184381	ENST00000427453;ENST00000452542	.	.	.	5.69	-5.62	0.02481	.	.	.	.	.	T	0.38799	0.1054	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.36817	-0.9732	4	.	.	.	-0.0272	3.4062	0.07341	0.3981:0.3313:0.1814:0.0892	.	.	.	.	M	4;83	.	.	T	-	2	0	PLA2G6	36865976	0.000000	0.05858	0.001000	0.08648	0.418000	0.31294	-0.887000	0.04152	-1.319000	0.02286	-0.224000	0.12420	ACG		0.637	PLA2G6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321860.1	NM_001004426		A	38536030	G	A	38536030	2	1	664	1	0	0	0	0	0	0	0	1	12015	1136	40	1		1	PLA2G6	22	38536030	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	13601	38536030	12768536	1067	42377										
KDELR3	11015	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	38875685	38875685	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acagtgagaatgacacattcCgcctggagtttcttctggtc	10	10	2	2	rs569201267		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:38875685C>T	ENST00000216014.4	+	3	452	c.280C>T	c.(280-282)Cgc>Tgc	p.R94C	KDELR3_ENST00000471268.1_3'UTR|KDELR3_ENST00000409006.3_Missense_Mutation_p.R94C	NM_006855.2	NP_006846.1	O43731	ERD23_HUMAN	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 3	94					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|protein retention in ER lumen (GO:0006621)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	ER retention sequence binding (GO:0046923)			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(5)|ovary(2)|prostate(1)	13	Melanoma(58;0.0286)					TGACACATTCCGCCTGGAGTT	0.443													C|||	1	0.000199681	0.0	0.0	5008	,	,		21964	0.001		0.0	False		,,,				2504	0.0				Ovarian(11;103 529 24120 28493 32980)											0													288	291	290					22																	38875685		2203	4300	6503	SO:0001583	missense	11015			AL035081	CCDS13972.1, CCDS46705.1	22q13	2008-05-02			ENSG00000100196	ENSG00000100196			6306	protein-coding gene	gene with protein product							Standard	NM_006855		Approved		uc003avu.3	O43731	OTTHUMG00000153520	ENST00000216014.4:c.280C>T	22.37:g.38875685C>T	ENSP00000216014:p.Arg94Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7T7|B8ZZ26|O95557|Q4V750|Q4V767|Q53FP4|Q53GK1	Missense_Mutation	SNP	ENST00000216014.4	37	CCDS13972.1	.	.	.	.	.	.	.	.	.	.	C	21.4	4.140095	0.77775	.	.	ENSG00000100196	ENST00000216014;ENST00000409006	T;T	0.29655	1.56;1.56	4.63	4.63	0.57726	.	0.000000	0.85682	D	0.000000	T	0.52008	0.1708	M	0.86420	2.815	0.80722	D	1	P;D	0.53462	0.937;0.96	P;P	0.50791	0.633;0.65	T	0.64136	-0.6478	10	0.62326	D	0.03	.	17.7055	0.88308	0.0:1.0:0.0:0.0	.	94;94	O43731;O43731-2	ERD23_HUMAN;.	C	94	ENSP00000216014:R94C;ENSP00000386918:R94C	ENSP00000216014:R94C	R	+	1	0	KDELR3	37205631	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.574000	0.53863	2.401000	0.81631	0.655000	0.94253	CGC		0.443	KDELR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331474.1			T	38875685	C	T	38875685	3	4	664	1	0	0	0	0	1	0	0	0	8128	652	23	1	290	1	KDELR3	22	38875685	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	339655	38875685	12428881	1068	42378										
APOBEC3G	60489	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr22	39482315	39482315	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acacggtttccttgaaggccGccatgcagagctgtgcttcc	11	13	0	2	rs17000736	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:39482315G>A	ENST00000407997.3	+	6	1124	c.767G>A	c.(766-768)cGc>cAc	p.R256H	APOBEC3G_ENST00000452957.2_Missense_Mutation_p.R256H	NM_021822.3	NP_068594.1	Q9HC16	ABC3G_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3G	256	Necessary for homooligomerization.		R -> H (in dbSNP:rs17000736).		base conversion or substitution editing (GO:0016553)|cytidine deamination (GO:0009972)|defense response to virus (GO:0051607)|DNA cytosine deamination (GO:0070383)|innate immune response (GO:0045087)|negative regulation of single stranded viral RNA replication via double stranded DNA intermediate (GO:0045869)|negative regulation of transposition (GO:0010529)|negative regulation of viral genome replication (GO:0045071)|negative regulation of viral process (GO:0048525)|positive regulation of defense response to virus by host (GO:0002230)|viral process (GO:0016032)	apolipoprotein B mRNA editing enzyme complex (GO:0030895)|cytoplasm (GO:0005737)|cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|ribonucleoprotein complex (GO:0030529)	cytidine deaminase activity (GO:0004126)|deoxycytidine deaminase activity (GO:0047844)|protein homodimerization activity (GO:0042803)|RNA binding (GO:0003723)|zinc ion binding (GO:0008270)			central_nervous_system(1)|large_intestine(4)|lung(5)|skin(1)|stomach(1)	12	Melanoma(58;0.04)					CTTGAAGGCCGCCATGCAGAG	0.498													G|||	19	0.00379393	0.0144	0.0	5008	,	,		17133	0.0		0.0	False		,,,				2504	0.0															0								G	HIS/ARG	68,4338		0,68,2135	77	80	79		767	-0.7	0	22	dbSNP_123	79	0,8600		0,0,4300	yes	missense	APOBEC3G	NM_021822.3	29	0,68,6435	AA,AG,GG		0.0,1.5433,0.5228	probably-damaging	256/385	39482315	68,12938	2203	4300	6503	SO:0001583	missense	60489			AF182420	CCDS13984.1	22q13.1-q13.2	2008-05-15			ENSG00000239713	ENSG00000239713		"Apolipoprotein B mRNA editing enzymes"	17357	protein-coding gene	gene with protein product		607113				11863358	Standard	NM_021822		Approved	CEM15, MDS019, dJ494G10.1, FLJ12740, bK150C2.7		Q9HC16	OTTHUMG00000151081	ENST00000407997.3:c.767G>A	22.37:g.39482315G>A	ENSP00000385057:p.Arg256His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDR9|Q45F02|Q5TF77|Q7Z2N1|Q7Z2N4|Q9H9H8	Missense_Mutation	SNP	ENST00000407997.3	37	CCDS13984.1	7	0.003205128205128205	7	0.014227642276422764	0	0.0	0	0.0	0	0.0	.	9.142	1.014009	0.19277	0.015433	0.0	ENSG00000239713	ENST00000452957;ENST00000407997	T;T	0.64803	-0.12;-0.12	1.65	-0.725	0.11174	APOBEC-like, N-terminal (1);Cytidine deaminase-like (1);	.	.	.	.	T	0.49541	0.1563	L	0.43646	1.37	0.09310	N	1	D	0.89917	1.0	D	0.97110	1.0	T	0.48281	-0.9049	9	0.41790	T	0.15	.	4.413	0.11443	0.1617:0.2335:0.6048:0.0	rs17000736;rs17000736	256	Q9HC16	ABC3G_HUMAN	H	256	ENSP00000413376:R256H;ENSP00000385057:R256H	ENSP00000385057:R256H	R	+	2	0	APOBEC3G	37812261	0.968000	0.33430	0.002000	0.10522	0.018000	0.09664	2.037000	0.41174	-0.131000	0.11578	-0.315000	0.08773	CGC		0.498	APOBEC3G-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321219.1	NM_021822		A	39482315	G	A	39482315	3	1	664	1	0	0	0	0	1	0	0	0	794	1087	38	1	789	1	APOBEC3G	22	39482315	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	606630	39482315	11822251	1069	42379										
TNRC6B	23112	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	40717184	40717184	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cccagggcactgccctgatcCgatacagcaccaaacaggag	10	15	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:40717184C>T	ENST00000454349.2	+	22	5276	c.5065C>T	c.(5065-5067)Cga>Tga	p.R1689*	TNRC6B_ENST00000402203.1_Nonsense_Mutation_p.R885*|TNRC6B_ENST00000335727.9_Nonsense_Mutation_p.R1579*|TNRC6B_ENST00000301923.9_Nonsense_Mutation_p.R885*	NM_001162501.1	NP_001155973.1	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B	1689	RRM.|Silencing domain; interaction with CNOT1 and PAN3.				epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|innate immune response (GO:0045087)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch signaling pathway (GO:0007219)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|regulation of translation (GO:0006417)	cytosol (GO:0005829)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)	1						TGCCCTGATCCGATACAGCAC	0.522																																																0													66	65	65					22																	40717184		2080	4227	6307	SO:0001587	stop_gained	23112			AB029016	CCDS46712.1, CCDS46713.1, CCDS54533.1	22q13	2006-08-22			ENSG00000100354	ENSG00000100354		"Trinucleotide (CAG) repeat containing"	29190	protein-coding gene	gene with protein product		610740					Standard	NM_015088		Approved	KIAA1093	uc011aor.2	Q9UPQ9	OTTHUMG00000151114	ENST00000454349.2:c.5065C>T	22.37:g.40717184C>T	ENSP00000401946:p.Arg1689*	Somatic		WXS	Illumina HiSeq	Phase_I	B0QY73|B0QY78|B4DGC0|Q5TH52|Q8TBX2	Nonsense_Mutation	SNP	ENST00000454349.2	37	CCDS54533.1	.	.	.	.	.	.	.	.	.	.	C	46	12.313979	0.99656	.	.	ENSG00000100354	ENST00000301923;ENST00000402203;ENST00000454349;ENST00000400140;ENST00000335727	.	.	.	5.52	5.52	0.82312	.	0.063647	0.64402	D	0.000004	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-7.1621	19.8022	0.96513	0.0:1.0:0.0:0.0	.	.	.	.	X	885;885;1689;1579;1579	.	ENSP00000306759:R885X	R	+	1	2	TNRC6B	39047130	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	4.839000	0.62810	2.764000	0.94973	0.650000	0.86243	CGA		0.522	TNRC6B-202	KNOWN	basic|CCDS	protein_coding	protein_coding				T	40717184	C	T	40717184	4	4	664	1	0	0	0	0	0	1	0	0	16353	644	23	1	5272	1	TNRC6B	22	40717184	Nonsense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1234869	40717184	10587382	1070	42380										
CENPM	79019	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	42341239	42341239	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	acgtacttaccacctgtggcGaggaaacacaccttccccaa	7	15	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:42341239G>A	ENST00000215980.5	-	4	387	c.300C>T	c.(298-300)ctC>ctT	p.L100L	CENPM_ENST00000407253.3_Silent_p.L100L|CENPM_ENST00000402338.1_Silent_p.L66L|CENPM_ENST00000404067.1_Silent_p.L66L|CENPM_ENST00000402420.1_Missense_Mutation_p.R95C	NM_024053.3	NP_076958.1	Q9NSP4	CENPM_HUMAN	centromere protein M	100					mitotic cell cycle (GO:0000278)	cytosol (GO:0005829)|kinetochore (GO:0000776)|nucleus (GO:0005634)				kidney(1)|large_intestine(1)|prostate(1)	3						CACCTGTGGCGAGGAAACACA	0.602																																																0													105	81	89					22																	42341239		2203	4300	6503	SO:0001819	synonymous_variant	79019			BC000705	CCDS14025.1, CCDS46719.1, CCDS46720.1	22q13.2	2013-11-05	2006-06-15	2006-06-15	ENSG00000100162	ENSG00000100162			18352	protein-coding gene	gene with protein product		610152	"chromosome 22 open reading frame 18"	C22orf18		16622420, 16622419	Standard	NM_001110215		Approved	Pane1, CENP-M, MGC861	uc003bbn.3	Q9NSP4	OTTHUMG00000151277	ENST00000215980.5:c.300C>T	22.37:g.42341239G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A7LM22|B1AHQ9|Q6I9W3	Silent	SNP	ENST00000215980.5	37	CCDS14025.1	.	.	.	.	.	.	.	.	.	.	G	12.19	1.864539	0.32977	.	.	ENSG00000100162	ENST00000402420	.	.	.	5.71	-11.4	0.00090	.	.	.	.	.	T	0.27832	0.0685	.	.	.	0.20489	N	0.999892	.	.	.	.	.	.	T	0.38908	-0.9639	5	0.46703	T	0.11	-11.2713	5.7759	0.18279	0.3699:0.39:0.1722:0.0679	.	.	.	.	C	95	.	ENSP00000384132:R95C	R	-	1	0	CENPM	40671185	0.000000	0.05858	0.009000	0.14445	0.516000	0.34256	-2.795000	0.00764	-2.780000	0.00361	-0.797000	0.03246	CGC		0.602	CENPM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322058.1	NM_024053		A	42341239	G	A	42341239	2	1	664	1	0	0	0	0	0	0	0	1	3239	1045	37	1		1	CENPM	22	42341239	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1624055	42341239	8963327	1071	42381										
C22orf32	91689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	42475891	42475891	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgcatggagcggctcaggccGgagcctggtaccgtcgaggt	17	12	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:42475891G>T	ENST00000331479.3	+	1	193	c.119G>T	c.(118-120)cGg>cTg	p.R40L		NM_033318.4	NP_201575.3	Q9H4I9	EMRE_HUMAN	single-pass membrane protein with aspartate-rich tail 1	40					calcium ion transmembrane import into mitochondrion (GO:0036444)|mitochondrial calcium ion homeostasis (GO:0051560)|mitochondrial calcium ion transport (GO:0006851)	integral component of mitochondrial inner membrane (GO:0031305)|uniplex complex (GO:1990246)											GGCTCAGGCCGGAGCCTGGTA	0.652																																																0													67	70	69					22																	42475891		2203	4300	6503	SO:0001583	missense	91689			BC024237	CCDS14031.1	22q13.2	2013-03-08	2013-03-08	2013-03-08	ENSG00000183172	ENSG00000183172			25055	protein-coding gene	gene with protein product		615588	"chromosome 22 open reading frame 32"	C22orf32		12477932	Standard	NM_033318		Approved	dJ186O1.1, DDDD	uc003bca.3	Q9H4I9	OTTHUMG00000151286	ENST00000331479.3:c.119G>T	22.37:g.42475891G>T	ENSP00000327467:p.Arg40Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5D1|Q8TAB9	Missense_Mutation	SNP	ENST00000331479.3	37	CCDS14031.1	.	.	.	.	.	.	.	.	.	.	G	16.87	3.242444	0.58995	.	.	ENSG00000183172	ENST00000331479	T	0.39229	1.09	6.08	-9.13	0.00704	.	1.290520	0.04919	N	0.454658	T	0.14141	0.0342	N	0.08118	0	0.09310	N	1	B	0.09022	0.002	B	0.10450	0.005	T	0.14783	-1.0460	10	0.09338	T	0.73	0.8194	2.0571	0.03583	0.226:0.2377:0.3707:0.1656	.	40	Q9H4I9	CV032_HUMAN	L	40	ENSP00000327467:R40L	ENSP00000327467:R40L	R	+	2	0	C22orf32	40805837	0.004000	0.15560	0.003000	0.11579	0.031000	0.12232	-0.474000	0.06607	-1.272000	0.02427	-1.239000	0.01543	CGG		0.652	SMDT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322086.1	NM_033318		T	42475891	G	T	42475891	3	4	664	1	0	0	0	0	1	0	0	0	2146	1116	39	4	121	4	C22orf32	22	42475891	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	134652	42475891	8828675	1072	42382										
C22orf32	91689	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	42475902	42475902	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gctcaggccggagcctggtaCcgtcgaggtcagtcatcgtt	14	12	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:42475902C>A	ENST00000331479.3	+	1	204	c.130C>A	c.(130-132)Ccg>Acg	p.P44T		NM_033318.4	NP_201575.3	Q9H4I9	EMRE_HUMAN	single-pass membrane protein with aspartate-rich tail 1	44					calcium ion transmembrane import into mitochondrion (GO:0036444)|mitochondrial calcium ion homeostasis (GO:0051560)|mitochondrial calcium ion transport (GO:0006851)	integral component of mitochondrial inner membrane (GO:0031305)|uniplex complex (GO:1990246)											GAGCCTGGTACCGTCGAGGTC	0.647																																																0													70	72	71					22																	42475902		2203	4300	6503	SO:0001583	missense	91689			BC024237	CCDS14031.1	22q13.2	2013-03-08	2013-03-08	2013-03-08	ENSG00000183172	ENSG00000183172			25055	protein-coding gene	gene with protein product		615588	"chromosome 22 open reading frame 32"	C22orf32		12477932	Standard	NM_033318		Approved	dJ186O1.1, DDDD	uc003bca.3	Q9H4I9	OTTHUMG00000151286	ENST00000331479.3:c.130C>A	22.37:g.42475902C>A	ENSP00000327467:p.Pro44Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5D1|Q8TAB9	Missense_Mutation	SNP	ENST00000331479.3	37	CCDS14031.1	.	.	.	.	.	.	.	.	.	.	C	32	5.110148	0.94292	.	.	ENSG00000183172	ENST00000331479	T	0.46063	0.88	6.08	5.07	0.68467	.	0.053286	0.85682	D	0.000000	T	0.59865	0.2225	M	0.66939	2.045	0.58432	D	0.99999	D	0.62365	0.991	P	0.61201	0.885	T	0.63655	-0.6588	10	0.59425	D	0.04	-7.7469	15.0475	0.71838	0.0:0.9316:0.0:0.0684	.	44	Q9H4I9	CV032_HUMAN	T	44	ENSP00000327467:P44T	ENSP00000327467:P44T	P	+	1	0	C22orf32	40805848	0.997000	0.39634	1.000000	0.80357	0.733000	0.41908	2.943000	0.49026	1.591000	0.50007	0.591000	0.81541	CCG		0.647	SMDT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322086.1	NM_033318		A	42475902	C	A	42475902	3	1	664	1	0	0	0	0	1	0	0	0	2146	507	18	4	132	4	C22orf32	22	42475902	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	11	42475902	8828664	1073	42383										
CYP2D6	1565	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr22	42525053	42525053	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accggagtggttggcgaaggCggcacaaaggcaggcggcct	18	10	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:42525053C>T	ENST00000360608.5	-	3	601	c.487G>A	c.(487-489)Gcc>Acc	p.A163T	NDUFA6-AS1_ENST00000416037.2_RNA|NDUFA6-AS1_ENST00000608288.1_RNA|NDUFA6-AS1_ENST00000608491.1_RNA|CYP2D6_ENST00000389970.3_Missense_Mutation_p.A163T|NDUFA6-AS1_ENST00000439129.1_RNA|CYP2D6_ENST00000359033.4_Intron	NM_000106.5	NP_000097	P10635	CP2D6_HUMAN	cytochrome P450, family 2, subfamily D, polypeptide 6	163					alkaloid catabolic process (GO:0009822)|alkaloid metabolic process (GO:0009820)|coumarin metabolic process (GO:0009804)|drug catabolic process (GO:0042737)|drug metabolic process (GO:0017144)|heterocycle metabolic process (GO:0046483)|isoquinoline alkaloid metabolic process (GO:0033076)|monoterpenoid metabolic process (GO:0016098)|negative regulation of binding (GO:0051100)|negative regulation of cellular organofluorine metabolic process (GO:0090350)|oxidation-reduction process (GO:0055114)|oxidative demethylation (GO:0070989)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|mitochondrion (GO:0005739)	aromatase activity (GO:0070330)|drug binding (GO:0008144)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity (GO:0016491)			NS(1)|breast(2)|endometrium(1)|large_intestine(2)|lung(4)|prostate(7)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	21					Abiraterone(DB05812)|Acebutolol(DB01193)|Acetaminophen(DB00316)|Ajmaline(DB01426)|Almotriptan(DB00918)|Alogliptin(DB06203)|Alprenolol(DB00866)|Aminophenazone(DB01424)|Amiodarone(DB01118)|Amitriptyline(DB00321)|Amlodipine(DB00381)|Amodiaquine(DB00613)|Amoxapine(DB00543)|Amphetamine(DB00182)|Amprenavir(DB00701)|Amsacrine(DB00276)|Antipyrine(DB01435)|Aprindine(DB01429)|Arformoterol(DB01274)|Aripiprazole(DB01238)|Artemether(DB06697)|Asenapine(DB06216)|Astemizole(DB00637)|Atomoxetine(DB00289)|Atorvastatin(DB01076)|Azelastine(DB00972)|Benzatropine(DB00245)|Benzyl alcohol(DB06770)|Bepridil(DB01244)|Betaxolol(DB00195)|Bicalutamide(DB01128)|Biperiden(DB00810)|Bisoprolol(DB00612)|Bortezomib(DB00188)|Brompheniramine(DB00835)|Bupivacaine(DB00297)|Buprenorphine(DB00921)|Bupropion(DB01156)|Buspirone(DB00490)|Caffeine(DB00201)|Captopril(DB01197)|Carbinoxamine(DB00748)|Carteolol(DB00521)|Carvedilol(DB01136)|Celecoxib(DB00482)|Cephalexin(DB00567)|Cevimeline(DB00185)|Chlordiazepoxide(DB00475)|Chloroquine(DB00608)|Chlorphenamine(DB01114)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cholecalciferol(DB00169)|Ciclesonide(DB01410)|Cilostazol(DB01166)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Cinnarizine(DB00568)|Cisapride(DB00604)|Citalopram(DB00215)|Clemastine(DB00283)|Clevidipine(DB04920)|Clomipramine(DB01242)|Clonidine(DB00575)|Clotrimazole(DB00257)|Clozapine(DB00363)|Cocaine(DB00907)|Codeine(DB00318)|Cyclobenzaprine(DB00924)|Cyclophosphamide(DB00531)|Cyclosporine(DB00091)|Dapagliflozin(DB06292)|Darifenacin(DB00496)|Debrisoquin(DB04840)|Delavirdine(DB00705)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexamethasone(DB01234)|Dexfenfluramine(DB01191)|Dexmedetomidine(DB00633)|Dexmethylphenidate(DB06701)|Dextroamphetamine(DB01576)|Dextromethorphan(DB00514)|Dextropropoxyphene(DB00647)|Dihydrocodeine(DB01551)|Diltiazem(DB00343)|Dimethyl sulfoxide(DB01093)|Diphenhydramine(DB01075)|Dolasetron(DB00757)|Domperidone(DB01184)|Donepezil(DB00843)|Dopamine(DB00988)|Doxazosin(DB00590)|Doxepin(DB01142)|Doxorubicin(DB00997)|Dronedarone(DB04855)|Duloxetine(DB00476)|Efavirenz(DB00625)|Eletriptan(DB00216)|Encainide(DB01228)|Enzalutamide(DB08899)|Epinastine(DB00751)|Erlotinib(DB00530)|Escitalopram(DB01175)|Ethylmorphine(DB01466)|Etoricoxib(DB01628)|Felodipine(DB01023)|Fesoterodine(DB06702)|Fexofenadine(DB00950)|Fingolimod(DB08868)|Flecainide(DB01195)|Flunarizine(DB04841)|Fluoxetine(DB00472)|Fluphenazine(DB00623)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Galantamine(DB00674)|Gefitinib(DB00317)|Glutethimide(DB01437)|Granisetron(DB00889)|Halofantrine(DB01218)|Haloperidol(DB00502)|Halothane(DB01159)|Histamine Phosphate(DB00667)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Hydroxychloroquine(DB01611)|Hydroxyurea(DB01005)|Hydroxyzine(DB00557)|Idarubicin(DB01177)|Iloperidone(DB04946)|Imatinib(DB00619)|Imipramine(DB00458)|Indinavir(DB00224)|Ipratropium bromide(DB00332)|Irbesartan(DB01029)|Isoniazid(DB00951)|Itraconazole(DB01167)|Ketoconazole(DB01026)|L-DOPA(DB01235)|Labetalol(DB00598)|Lansoprazole(DB00448)|Lercanidipine(DB00528)|Levomilnacipran(DB08918)|Lidocaine(DB00281)|Lisuride(DB00589)|Lomustine(DB01206)|Loperamide(DB00836)|Lopinavir(DB01601)|Loratadine(DB00455)|Lorcaserin(DB04871)|Lovastatin(DB00227)|Lumefantrine(DB06708)|Maprotiline(DB00934)|Mefloquine(DB00358)|Mepyramine(DB06691)|Mequitazine(DB01071)|Mesoridazine(DB00933)|Methadone(DB00333)|Methamphetamine(DB01577)|Methazolamide(DB00703)|Methimazole(DB00763)|Methotrimeprazine(DB01403)|Methoxyflurane(DB01028)|Methylnaltrexone(DB06800)|Methylphenidate(DB00422)|Methyprylon(DB01107)|Metoclopramide(DB01233)|Metoprolol(DB00264)|Mexiletine(DB00379)|Mianserin(DB06148)|Miconazole(DB01110)|Midodrine(DB00211)|Mifepristone(DB00834)|Minaprine(DB00805)|Mirabegron(DB08893)|Mirtazapine(DB00370)|Moclobemide(DB01171)|Morphine(DB00295)|Nateglinide(DB00731)|Nebivolol(DB04861)|Nefazodone(DB01149)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Niacin(DB00627)|Nicardipine(DB00622)|Nicergoline(DB00699)|Nicotine(DB00184)|Nifedipine(DB01115)|Nilotinib(DB04868)|Nitrofural(DB00336)|Nortriptyline(DB00540)|Olanzapine(DB00334)|Omeprazole(DB00338)|Ondansetron(DB00904)|Oxamniquine(DB01096)|Oxprenolol(DB01580)|Oxybutynin(DB01062)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Paliperidone(DB01267)|Palonosetron(DB00377)|Paroxetine(DB00715)|Pazopanib(DB06589)|Pentamidine(DB00738)|Pergolide(DB01186)|Perhexiline(DB01074)|Perphenazine(DB00850)|Pethidine(DB00454)|Phenformin(DB00914)|Phentermine(DB00191)|Pimozide(DB01100)|Pindolol(DB00960)|Pioglitazone(DB01132)|Piperazine(DB00592)|Pipotiazine(DB01621)|Ponatinib(DB08901)|Pravastatin(DB00175)|Praziquantel(DB01058)|Primaquine(DB01087)|Procainamide(DB01035)|Prochlorperazine(DB00433)|Progesterone(DB00396)|Proguanil(DB01131)|Promethazine(DB01069)|Propafenone(DB01182)|Propofol(DB00818)|Propranolol(DB00571)|Protriptyline(DB00344)|Pseudoephedrine(DB00852)|Pyrimethamine(DB00205)|Quetiapine(DB01224)|Quinidine(DB00908)|Quinine(DB00468)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ranolazine(DB00243)|Reboxetine(DB00234)|Remoxipride(DB00409)|Rifapentine(DB01201)|Risperidone(DB00734)|Ritonavir(DB00503)|Rivastigmine(DB00989)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Rosiglitazone(DB00412)|Rotigotine(DB05271)|Saquinavir(DB01232)|Selegiline(DB01037)|Sertindole(DB06144)|Sertraline(DB01104)|Sildenafil(DB00203)|Simvastatin(DB00641)|Sorafenib(DB00398)|Sulfanilamide(DB00259)|Sulfaphenazole(DB06729)|Tamoxifen(DB00675)|Tamsulosin(DB00706)|Tapentadol(DB06204)|Telithromycin(DB00976)|Temsirolimus(DB06287)|Terbinafine(DB00857)|Tetrabenazine(DB04844)|Theophylline(DB00277)|Thioridazine(DB00679)|Thiothixene(DB01623)|Ticlopidine(DB00208)|Timolol(DB00373)|Tiotropium(DB01409)|Tipranavir(DB00932)|Tolterodine(DB01036)|Trabectedin(DB05109)|Tramadol(DB00193)|Tranylcypromine(DB00752)|Trazodone(DB00656)|Trimipramine(DB00726)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Trospium(DB00209)|Vemurafenib(DB08881)|Venlafaxine(DB00285)|Verapamil(DB00661)|Vilazodone(DB06684)|Vinblastine(DB00570)|Vinorelbine(DB00361)|Yohimbine(DB01392)|Zafirlukast(DB00549)|Zalcitabine(DB00943)|Ziprasidone(DB00246)|Zolpidem(DB00425)	TTGGCGAAGGCGGCACAAAGG	0.667																																																0													12	16	15					22																	42525053		2133	4213	6346	SO:0001583	missense	1565			M20403	CCDS33657.1, CCDS46721.1	22q13.1	2014-09-17	2003-01-14		ENSG00000100197	ENSG00000100197		"Cytochrome P450s"	2625	protein-coding gene	gene with protein product		124030	"cytochrome P450, subfamily IID (debrisoquine, sparteine, etc., -metabolizing), polypeptide 6", "cytochrome P450, family 2, subfamily D, polypeptide 7 pseudogene 2", "cytochrome P450, subfamily II (debrisoquine, sparteine, etc., -metabolising), polypeptide 7 pseudogene 2", "cytochrome P450, family 2, subfamily D, polypeptide 8 pseudogene 2", "cytochrome P450, subfamily IID (debrisoquine, sparteine, etc., -metabolising), polypeptide 8 pseudogene 2"	CYP2DL1, CYP2D7P2, CYP2D7BP, CYP2D8P2, CYP2D7AP		8449513	Standard	NM_000106		Approved	CPD6, P450-DB1, CYP2D, P450C2D	uc003bce.3	P10635	OTTHUMG00000150918	ENST00000360608.5:c.487G>A	22.37:g.42525053C>T	ENSP00000353820:p.Ala163Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q16752|Q2XND6|Q2XND7|Q2XNE0|Q6B012|Q6NXU8	Missense_Mutation	SNP	ENST00000360608.5	37	CCDS46721.1	.	.	.	.	.	.	.	.	.	.	c	13.04	2.117873	0.37339	.	.	ENSG00000100197	ENST00000360608;ENST00000389970;ENST00000413640	T;T	0.68765	-0.35;-0.35	3.37	2.35	0.29111	.	0.598136	0.15077	N	0.281880	T	0.64125	0.2570	L	0.53617	1.68	0.42544	D	0.993086	D	0.67145	0.996	P	0.47864	0.559	T	0.65261	-0.6211	10	0.56958	D	0.05	.	8.8621	0.35265	0.0:0.8829:0.0:0.1171	.	163	Q6NWU0	.	T	163;163;112	ENSP00000353820:A163T;ENSP00000374620:A163T	ENSP00000353820:A163T	A	-	1	0	CYP2D6	40854997	0.998000	0.40836	0.840000	0.33206	0.020000	0.10135	4.220000	0.58567	0.987000	0.38709	0.305000	0.20034	GCC		0.667	CYP2D6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000320525.1			T	42525053	C	T	42525053	3	4	664	1	0	0	0	0	1	0	0	0	4171	768	27	1	1034	1	CYP2D6	22	42525053	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	49151	42525053	8779513	1074	42384										
TCF20	6942	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr22	42607545	42607545	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gagagataaaagaacgaacaCgcctcctcatgattaagggg	11	8	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:42607545C>T	ENST00000359486.3	-	1	3903	c.3767G>A	c.(3766-3768)cGt>cAt	p.R1256H	TCF20_ENST00000335626.4_Missense_Mutation_p.R1256H|TCF20_ENST00000404876.1_5'Flank	NM_005650.1	NP_005641.1	Q9UGU0	TCF20_HUMAN	transcription factor 20 (AR1)	1256					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)|transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(7)|large_intestine(13)|lung(22)|ovary(5)|prostate(1)|skin(2)|soft_tissue(1)|upper_aerodigestive_tract(2)|urinary_tract(5)	66						AGAACGAACACGCCTCCTCAT	0.453																																																0													146	134	138					22																	42607545		2203	4300	6503	SO:0001583	missense	6942			U19345	CCDS14032.1, CCDS14033.1	22q13.3	2011-02-08			ENSG00000100207	ENSG00000100207			11631	protein-coding gene	gene with protein product	"stromelysin-1 platelet-derived growth factor-responsive element binding protein"	603107				9730594, 10995766	Standard	NM_005650		Approved	AR1, SPBP	uc003bcj.1	Q9UGU0	OTTHUMG00000150920	ENST00000359486.3:c.3767G>A	22.37:g.42607545C>T	ENSP00000352463:p.Arg1256His	Somatic		WXS	Illumina HiSeq	Phase_I	A9JX12|O14528|Q13078|Q4V353|Q9H4M0	Missense_Mutation	SNP	ENST00000359486.3	37	CCDS14033.1	.	.	.	.	.	.	.	.	.	.	C	20.4	3.985812	0.74589	.	.	ENSG00000100207	ENST00000359486;ENST00000335626	T;T	0.73575	-0.76;-0.75	5.53	5.53	0.82687	.	0.000000	0.64402	D	0.000002	D	0.84092	0.5396	L	0.50333	1.59	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.83275	0.996;0.991	D	0.84556	0.0647	10	0.87932	D	0	-15.6878	19.6556	0.95837	0.0:1.0:0.0:0.0	.	1256;1256	Q9UGU0-2;Q9UGU0	.;TCF20_HUMAN	H	1256	ENSP00000352463:R1256H;ENSP00000335561:R1256H	ENSP00000335561:R1256H	R	-	2	0	TCF20	40937489	1.000000	0.71417	0.998000	0.56505	0.997000	0.91878	7.065000	0.76727	2.882000	0.98803	0.655000	0.94253	CGT		0.453	TCF20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320531.1	NM_181492		T	42607545	C	T	42607545	3	4	664	1	0	0	0	0	1	0	0	0	15702	536	19	1	2153	1	TCF20	22	42607545	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	82492	42607545	8697021	1075	42385										
POLDIP3	84271	broad.mit.edu	37	chr22	42987962	42987962	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgctttctccctaacttaccGtccagacaccggttgttgta	7	13	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:42987962G>A	ENST00000252115.5	-	7	1124	c.1020C>T	c.(1018-1020)gaC>gaT	p.D340D	POLDIP3_ENST00000451060.2_Splice_Site_p.D184D|POLDIP3_ENST00000491021.1_5'UTR|POLDIP3_ENST00000348657.2_Splice_Site_p.D311D|POLDIP3_ENST00000339677.6_Intron	NM_032311.3	NP_115687.2	Q9BY77	PDIP3_HUMAN	polymerase (DNA-directed), delta interacting protein 3	340	RRM. {ECO:0000255|PROSITE- ProRule:PRU00176}.				poly(A)+ mRNA export from nucleus (GO:0016973)|positive regulation of translation (GO:0045727)	cytoplasm (GO:0005737)|nuclear speck (GO:0016607)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			biliary_tract(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(3)|upper_aerodigestive_tract(1)	16						CTAACTTACCGTCCAGACACC	0.542																																					Ovarian(52;967 1128 5875 19997 42537)											0													238	191	207					22																	42987962		2203	4300	6503	SO:0001630	splice_region_variant	84271				CCDS14038.1, CCDS14039.1, CCDS74873.1	22q13.31	2013-02-12			ENSG00000100227	ENSG00000100227		"RNA binding motif (RRM) containing"	23782	protein-coding gene	gene with protein product		611520				12522211	Standard	NM_032311		Approved	PDIP46, KIAA1649	uc003bcu.3	Q9BY77	OTTHUMG00000150887	ENST00000252115.5:c.1021+1C>T	22.37:g.42987962G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6F8|A8K6V9|Q009A7|Q5H972|Q6PGN6|Q7Z6Z0|Q9NSP5|Q9NSP6	Silent	SNP	ENST00000252115.5	37	CCDS14038.1																																																																																				0.542	POLDIP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320433.1	NM_032311	Silent	A	42987962	G	A	42987962	5	1	664	1	0	0	0	0	0	0	1	0	12202	1159	40	1	257	1	POLDIP3	22	42987962	Splice_Site	SNP	G	TCGA-KN-8428-01A-11D-2310-10	380417	42987962	8316604	1076	42386										
ARFGAP3	26286	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	43236982	43236982	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcctccgacttgcatgcatcGcaactgaaaccatgaccagt	7	14	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:43236982G>A	ENST00000263245.5	-	3	448	c.229C>T	c.(229-231)Cga>Tga	p.R77*	ARFGAP3_ENST00000429508.2_Nonsense_Mutation_p.R77*|ARFGAP3_ENST00000437119.2_Nonsense_Mutation_p.R77*	NM_001142293.1|NM_014570.4	NP_001135765.1|NP_055385.3	Q9NP61	ARFG3_HUMAN	ADP-ribosylation factor GTPase activating protein 3	77	Arf-GAP. {ECO:0000255|PROSITE- ProRule:PRU00288}.				intracellular protein transport (GO:0006886)|positive regulation of GTPase activity (GO:0043547)|protein secretion (GO:0009306)|regulation of ARF GTPase activity (GO:0032312)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	ARF GTPase activator activity (GO:0008060)|protein transporter activity (GO:0008565)|zinc ion binding (GO:0008270)			breast(3)|endometrium(1)|kidney(1)|large_intestine(3)|lung(2)|ovary(1)	11						TGCATGCATCGCAACTGAAAC	0.353																																					GBM(58;544 1030 21460 27159 48838)											0													92	80	84					22																	43236982		2203	4300	6503	SO:0001587	stop_gained	26286			AK002083	CCDS14042.1, CCDS46722.1	22q13.2	2009-11-30	2002-08-20	2002-08-23	ENSG00000242247	ENSG00000242247		"ADP-ribosylation factor GTPase activating proteins"	661	protein-coding gene	gene with protein product		612439	"ADP-ribosylation factor GTPase activating protein 1"	ARFGAP1		10704287, 11172815	Standard	NM_014570		Approved		uc003bdd.2	Q9NP61	OTTHUMG00000150718	ENST00000263245.5:c.229C>T	22.37:g.43236982G>A	ENSP00000263245:p.Arg77*	Somatic		WXS	Illumina HiSeq	Phase_I	E9PB03|Q9BSC6|Q9H9J0|Q9NT10|Q9NUP5|Q9Y4V3|Q9Y4V4	Nonsense_Mutation	SNP	ENST00000263245.5	37	CCDS14042.1	.	.	.	.	.	.	.	.	.	.	g	26.1	4.700696	0.88924	.	.	ENSG00000242247	ENST00000263245;ENST00000429508;ENST00000437119;ENST00000454099;ENST00000435208	.	.	.	5.22	2.97	0.34412	.	0.000000	0.64402	D	0.000002	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	11.2764	0.49170	0.0:0.0:0.3933:0.6066	.	.	.	.	X	77;77;77;77;55	.	ENSP00000263245:R77X	R	-	1	2	ARFGAP3	41566926	1.000000	0.71417	0.757000	0.31301	0.901000	0.52897	3.349000	0.52217	1.149000	0.42402	0.580000	0.79431	CGA		0.353	ARFGAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319747.2	NM_014570		A	43236982	G	A	43236982	4	1	664	1	0	0	0	0	0	1	0	0	851	1095	38	1	1377	1	ARFGAP3	22	43236982	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	249020	43236982	8067584	1077	42387										
TSPO	706	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr22	43558971	43558971	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggcgggacaaccatggctggCgtgggggacggcggctgcca	20	11	0	0	rs41371752	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:43558971C>T	ENST00000396265.3	+	3	378	c.203C>T	c.(202-204)gCg>gTg	p.A68V	TSPO_ENST00000337554.3_Missense_Mutation_p.R162C|TSPO_ENST00000583777.1_Missense_Mutation_p.R58C|TSPO_ENST00000329563.4_Missense_Mutation_p.R162C			B1AH88	TSPOB_HUMAN	translocator protein (18kDa)	68					adrenal gland development (GO:0030325)|aging (GO:0007568)|behavioral response to pain (GO:0048266)|cellular hypotonic response (GO:0071476)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to zinc ion (GO:0071294)|chloride transport (GO:0006821)|contact inhibition (GO:0060242)|glial cell migration (GO:0008347)|negative regulation of glial cell proliferation (GO:0060253)|negative regulation of nitric oxide biosynthetic process (GO:0045019)|negative regulation of tumor necrosis factor production (GO:0032720)|peripheral nervous system axon regeneration (GO:0014012)|positive regulation of apoptotic process (GO:0043065)|positive regulation of calcium ion transport (GO:0051928)|positive regulation of glial cell proliferation (GO:0060252)|positive regulation of mitochondrial depolarization (GO:0051901)|positive regulation of necrotic cell death (GO:0010940)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|regulation of steroid biosynthetic process (GO:0050810)|response to drug (GO:0042493)|response to manganese ion (GO:0010042)|response to progesterone (GO:0032570)|response to testosterone (GO:0033574)|response to vitamin B1 (GO:0010266)|steroid biosynthetic process (GO:0006694)	mitochondrial outer membrane (GO:0005741)	androgen binding (GO:0005497)|benzodiazepine receptor activity (GO:0008503)			endometrium(1)|prostate(1)	2		Ovarian(80;0.0694)				CCATGGCTGGCGTGGGGGACG	0.677																																																0													27	21	23					22																	43558971		2189	4284	6473	SO:0001583	missense	706			AF075589	CCDS33661.1	22q13.3	2006-07-12	2006-07-12	2006-07-12	ENSG00000100300	ENSG00000100300			1158	protein-coding gene	gene with protein product	"peripheral-type benzodiazepine receptor/recognition site"	109610	"benzodiazapine receptor (peripheral)"	BZRP		1326278, 1847678, 16822554	Standard	NM_000714		Approved	PBR, MBR, PKBS, mDRC, DBI, IBP, pk18	uc003bdo.4	B1AH88	OTTHUMG00000150573	ENST00000396265.3:c.203C>T	22.37:g.43558971C>T	ENSP00000379563:p.Ala68Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q13849|Q6IAZ7	Missense_Mutation	SNP	ENST00000396265.3	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	14.92|14.92	2.678935|2.678935	0.47886|0.47886	.|.	.|.	ENSG00000100300|ENSG00000100300	ENST00000396265|ENST00000337554;ENST00000329563	T|T;T	0.54479|0.24538	0.57|1.85;1.85	4.38|4.38	3.35|3.35	0.38373|0.38373	.|.	.|0.339156	.|0.29192	.|N	.|0.012880	T|T	0.27629|0.27629	0.0679|0.0679	L|L	0.54323|0.54323	1.7|1.7	0.09310|0.09310	N|N	1|1	D|D	0.71674|0.65815	0.998|0.995	P|P	0.59948|0.46339	0.866|0.513	T|T	0.11518|0.11518	-1.0584|-1.0584	9|10	0.87932|0.59425	D|D	0|0.04	-12.9691|-12.9691	9.6469|9.6469	0.39872|0.39872	0.4008:0.5992:0.0:0.0|0.4008:0.5992:0.0:0.0	.|.	68|162	B1AH88|P30536	TSPOB_HUMAN|TSPOA_HUMAN	V|C	68|162	ENSP00000379563:A68V|ENSP00000338004:R162C;ENSP00000328973:R162C	ENSP00000379563:A68V|ENSP00000328973:R162C	A|R	+|+	2|1	0|0	TSPO|TSPO	41888915|41888915	0.327000|0.327000	0.24678|0.24678	0.029000|0.029000	0.17559|0.17559	0.070000|0.070000	0.16714|0.16714	1.141000|1.141000	0.31528|0.31528	1.156000|1.156000	0.42514|0.42514	0.655000|0.655000	0.94253|0.94253	GCG|CGT		0.677	TSPO-201	KNOWN	basic	protein_coding	protein_coding		NM_007311		T	43558971	C	T	43558971	3	4	664	1	0	0	0	0	1	0	0	0	16667	768	27	1	494	1	TSPO	22	43558971	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	321989	43558971	7745595	1078	42388										
CELSR1	9620	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr22	46806300	46806300	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gacggccacccgtaccttccCgggtgccattgttggcgatg	13	14	0	0	rs368495315		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:46806300C>T	ENST00000262738.3	-	7	4927	c.4928G>A	c.(4927-4929)cGg>cAg	p.R1643Q		NM_014246.1	NP_055061.1	Q9NYQ6	CELR1_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 1	1643	Laminin G-like 1. {ECO:0000255|PROSITE- ProRule:PRU00122}.				anterior/posterior pattern specification (GO:0009952)|apical protein localization (GO:0045176)|central nervous system development (GO:0007417)|establishment of body hair planar orientation (GO:0048105)|establishment of planar polarity (GO:0001736)|establishment of planar polarity of embryonic epithelium (GO:0042249)|G-protein coupled receptor signaling pathway (GO:0007186)|hair follicle development (GO:0001942)|homophilic cell adhesion (GO:0007156)|inner ear morphogenesis (GO:0042472)|lateral sprouting involved in lung morphogenesis (GO:0060490)|locomotory behavior (GO:0007626)|neural tube closure (GO:0001843)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|orthogonal dichotomous subdivision of terminal units involved in lung branching morphogenesis (GO:0060488)|planar cell polarity pathway involved in neural tube closure (GO:0090179)|planar dichotomous subdivision of terminal units involved in lung branching morphogenesis (GO:0060489)|protein localization involved in establishment of planar polarity (GO:0090251)|regulation of actin cytoskeleton organization (GO:0032956)|Rho protein signal transduction (GO:0007266)|wound healing (GO:0042060)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)|protein dimerization activity (GO:0046983)|transmembrane signaling receptor activity (GO:0004888)			breast(8)|central_nervous_system(5)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(5)|kidney(4)|large_intestine(13)|lung(27)|ovary(2)|pancreas(2)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(3)	95		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)		CGTACCTTCCCGGGTGCCATT	0.627																																																0								C	GLN/ARG	4,4402	6.2+/-15.9	0,4,2199	92	82	85		4928	-2.2	0.8	22		85	0,8600		0,0,4300	no	missense	CELSR1	NM_014246.1	43	0,4,6499	TT,TC,CC		0.0,0.0908,0.0308	possibly-damaging	1643/3015	46806300	4,13002	2203	4300	6503	SO:0001583	missense	9620			AF231024	CCDS14076.1	22q13.31	2014-08-08	2013-02-18		ENSG00000075275	ENSG00000075275		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	1850	protein-coding gene	gene with protein product	"flamingo homolog 2 (Drosophila)"	604523	"cadherin, EGF LAG seven-pass G-type receptor 1, flamingo (Drosophila) homolog"			9339365	Standard	XM_006724383		Approved	ME2, HFMI2, FMI2, CDHF9	uc003bhw.1	Q9NYQ6	OTTHUMG00000150423	ENST00000262738.3:c.4928G>A	22.37:g.46806300C>T	ENSP00000262738:p.Arg1643Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O95722|Q5TH47|Q9BWQ5|Q9Y506|Q9Y526	Missense_Mutation	SNP	ENST00000262738.3	37	CCDS14076.1	.	.	.	.	.	.	.	.	.	.	C	2.193	-0.384861	0.04966	9.08E-4	0.0	ENSG00000075275	ENST00000262738	D	0.87334	-2.24	4.41	-2.16	0.07080	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (1);	0.953479	0.08591	N	0.923106	T	0.66056	0.2751	N	0.11201	0.11	0.09310	N	0.999999	P	0.34587	0.458	B	0.28849	0.095	T	0.58059	-0.7703	10	0.23302	T	0.38	.	1.3803	0.02229	0.2552:0.428:0.1032:0.2136	.	1643	Q9NYQ6	CELR1_HUMAN	Q	1643	ENSP00000262738:R1643Q	ENSP00000262738:R1643Q	R	-	2	0	CELSR1	45184964	0.000000	0.05858	0.843000	0.33291	0.036000	0.12997	-0.232000	0.09055	-0.130000	0.11599	-0.710000	0.03640	CGG		0.627	CELSR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318037.1	NM_014246		T	46806300	C	T	46806300	3	4	664	1	0	0	0	0	1	0	0	0	3223	652	23	1	4232	1	CELSR1	22	46806300	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3247329	46806300	4498266	1079	42389										
TBC1D22A	25771	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	47189694	47189694	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accccccagcggcgacctccGgctggtgaagtcggtcagtg	14	15	1	1	rs535972526		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:47189694G>A	ENST00000337137.4	+	3	582	c.416G>A	c.(415-417)cGg>cAg	p.R139Q	TBC1D22A_ENST00000406733.1_Missense_Mutation_p.R92Q|TBC1D22A_ENST00000355704.3_Missense_Mutation_p.R120Q|TBC1D22A_ENST00000407381.3_Missense_Mutation_p.R139Q|TBC1D22A_ENST00000380995.1_Missense_Mutation_p.R92Q	NM_001284304.1|NM_001284305.1|NM_014346.2	NP_001271233.1|NP_001271234.1|NP_055161.1	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	139							protein homodimerization activity (GO:0042803)|Rab GTPase activator activity (GO:0005097)			breast(1)|endometrium(3)|large_intestine(10)|lung(5)|ovary(2)|prostate(1)	22		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		GGCGACCTCCGGCTGGTGAAG	0.667																																																0													10	12	11					22																	47189694		2124	4155	6279	SO:0001583	missense	25771			AK125705	CCDS14078.1, CCDS63511.1, CCDS63512.1, CCDS74877.1	22q13	2008-01-22	2005-01-05	2005-01-05	ENSG00000054611	ENSG00000054611			1309	protein-coding gene	gene with protein product			"chromosome 22 open reading frame 4"	C22orf4			Standard	XM_005261496		Approved		uc003bib.3	Q8WUA7	OTTHUMG00000150332	ENST00000337137.4:c.416G>A	22.37:g.47189694G>A	ENSP00000336724:p.Arg139Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B0QYI2|B0QYI3|B9A6M3|Q5TE47|Q6ZUH2|Q92680|Q9BVD6|Q9UGG0|Q9UGT2|Q9UGU6|Q9UH25|Q9Y4W5	Missense_Mutation	SNP	ENST00000337137.4	37	CCDS14078.1	.	.	.	.	.	.	.	.	.	.	G	17.67	3.447214	0.63178	.	.	ENSG00000054611	ENST00000337137;ENST00000380995;ENST00000407381;ENST00000355704;ENST00000406733	T;T;T;T;T	0.44881	1.87;0.91;1.84;1.82;1.92	4.57	4.57	0.56435	.	0.000000	0.85682	D	0.000000	T	0.40398	0.1115	M	0.77820	2.39	0.40491	D	0.980544	B;P;D;B	0.54047	0.17;0.765;0.964;0.17	B;B;B;B	0.39068	0.018;0.081;0.289;0.018	T	0.46596	-0.9180	10	0.12430	T	0.62	6.9507	14.2057	0.65732	0.0:0.0:1.0:0.0	.	139;120;139;139	B9A6M3;Q8WUA7-2;B0QYI1;Q8WUA7	.;.;.;TB22A_HUMAN	Q	139;92;139;120;92	ENSP00000336724:R139Q;ENSP00000370383:R92Q;ENSP00000384036:R139Q;ENSP00000347932:R120Q;ENSP00000385634:R92Q	ENSP00000336724:R139Q	R	+	2	0	TBC1D22A	45568358	1.000000	0.71417	1.000000	0.80357	0.761000	0.43186	6.219000	0.72231	2.367000	0.80283	0.511000	0.50034	CGG		0.667	TBC1D22A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317600.3	NM_014346		A	47189694	G	A	47189694	3	1	664	1	0	0	0	0	1	0	0	0	15623	1116	39	1	426	1	TBC1D22A	22	47189694	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	383394	47189694	4114872	1080	42390										
BRD1	23774	ucsc.edu	37	chr22	50217223	50217223	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggccctcggggatgtagggcAccccgtagcactcctggtgc	15	14	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:50217223A>G	ENST00000216267.8	-	1	1229	c.743T>C	c.(742-744)gTg>gCg	p.V248A	BRD1_ENST00000404760.1_Missense_Mutation_p.V248A|BRD1_ENST00000404034.1_Missense_Mutation_p.V248A|BRD1_ENST00000542442.1_5'Flank|BRD1_ENST00000457780.2_Missense_Mutation_p.V248A|BRD1_ENST00000459821.1_5'Flank|BRD1_ENST00000342989.5_5'Flank	NM_014577.1	NP_055392.1	O95696	BRD1_HUMAN	bromodomain containing 1	248					histone H3 acetylation (GO:0043966)	MOZ/MORF histone acetyltransferase complex (GO:0070776)|nucleus (GO:0005634)	histone binding (GO:0042393)|zinc ion binding (GO:0008270)			endometrium(6)|kidney(3)|large_intestine(5)|lung(17)|ovary(1)|pancreas(1)|prostate(3)|skin(1)	37		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		GATGTAGGGCACCCCGTAGCA	0.662																																																0													35	31	32					22																	50217223		2203	4300	6503	SO:0001583	missense	23774			AF005067	CCDS14080.1	22q13.33	2008-07-01	2002-01-14		ENSG00000100425	ENSG00000100425			1102	protein-coding gene	gene with protein product	"BR140-like"	604589	"bromodomain-containing 1"			10591208, 10602503	Standard	NM_014577		Approved	BRL, BRPF2	uc003biv.3	O95696	OTTHUMG00000150288	ENST00000216267.8:c.743T>C	22.37:g.50217223A>G	ENSP00000216267:p.Val248Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6ZJA4	Missense_Mutation	SNP	ENST00000216267.8	37	CCDS14080.1	.	.	.	.	.	.	.	.	.	.	A	22.8	4.334999	0.81801	.	.	ENSG00000100425	ENST00000216267;ENST00000404034;ENST00000404760;ENST00000457780	D;D;D;D	0.87887	-2.31;-2.31;-2.31;-2.31	5.0	5.0	0.66597	Zinc finger, PHD-finger (1);Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, PHD-type, conserved site (1);Zinc finger, PHD-type (1);Zinc finger, FYVE/PHD-type (1);	0.000000	0.85682	D	0.000000	D	0.93697	0.7986	M	0.85945	2.785	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.998	D	0.94314	0.7548	9	.	.	.	.	14.7	0.69150	1.0:0.0:0.0:0.0	.	248;248;248	Q86X06;O95696;O95696-2	.;BRD1_HUMAN;.	A	248	ENSP00000216267:V248A;ENSP00000384076:V248A;ENSP00000385858:V248A;ENSP00000410042:V248A	.	V	-	2	0	BRD1	48603227	1.000000	0.71417	0.996000	0.52242	0.989000	0.77384	8.769000	0.91742	1.882000	0.54519	0.383000	0.25322	GTG		0.662	BRD1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317402.1	NM_014577		G	50217223	A	G	50217223	3	3	664	1	0	0	0	0	1	0	0	0	1503	159	6	3	2481	3	BRD1	22	50217223	Missense_Mutation	SNP	A	TCGA-KN-8428-01A-11D-2310-10	3027529	50217223	1087343	1081	42391										
PANX2	56666	broad.mit.edu	37	chr22	50617544	50617544	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agccgaaacgccacacacccGctgctgcacatcaacacgct	7	18	1	0	rs114447696	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:50617544G>A	ENST00000395842.2	+	3	1872	c.1872G>A	c.(1870-1872)ccG>ccA	p.P624P	PANX2_ENST00000159647.5_Silent_p.P624P	NM_052839.3	NP_443071.2	Q96RD6	PANX2_HUMAN	pannexin 2	624					ion transport (GO:0006811)|protein hexamerization (GO:0034214)|response to ischemia (GO:0002931)|synaptic transmission (GO:0007268)	cytoplasm (GO:0005737)|gap junction (GO:0005921)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	gap junction hemi-channel activity (GO:0055077)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(1)|lung(1)|skin(1)	7		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		CCACACACCCGCTGCTGCACA	0.716													G|||	4	0.000798722	0.0	0.0	5008	,	,		14056	0.003		0.0	False		,,,				2504	0.001															0													43	40	41					22																	50617544		2197	4298	6495	SO:0001819	synonymous_variant	56666				CCDS14085.2, CCDS54544.1	22q13.33	2011-12-05			ENSG00000073150	ENSG00000073150		"Ion channels / Pannexins"	8600	protein-coding gene	gene with protein product		608421				14702039, 14597722	Standard	NM_052839		Approved	hPANX2, PX2	uc003bjn.4	Q96RD6	OTTHUMG00000044649	ENST00000395842.2:c.1872G>A	22.37:g.50617544G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z684|Q96RD5|Q9UGX8	Silent	SNP	ENST00000395842.2	37	CCDS14085.2																																																																																				0.716	PANX2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075010.3	NM_052839		A	50617544	G	A	50617544	2	1	664	1	0	0	0	0	0	0	0	1	11428	1074	38	1		1	PANX2	22	50617544	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	400321	50617544	687022	1082	42392										
TUBGCP6	85378	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	50664592	50664592	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cacctctttggagatgagcaCgtagccatgtgtccagtaca	10	11	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:50664592C>T	ENST00000248846.5	-	9	1824	c.1720G>A	c.(1720-1722)Gtg>Atg	p.V574M	TUBGCP6_ENST00000439308.2_Missense_Mutation_p.V574M|TUBGCP6_ENST00000491449.1_5'UTR			Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	574					G2/M transition of mitotic cell cycle (GO:0000086)|microtubule nucleation (GO:0007020)|mitotic cell cycle (GO:0000278)	centrosome (GO:0005813)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|gamma-tubulin ring complex (GO:0008274)|membrane (GO:0016020)|microtubule (GO:0005874)|spindle pole (GO:0000922)	microtubule binding (GO:0008017)			breast(4)|central_nervous_system(2)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(4)|lung(13)|ovary(3)|prostate(2)|skin(2)	45		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		GAGATGAGCACGTAGCCATGT	0.557																																																0													241	225	231					22																	50664592		2203	4300	6503	SO:0001583	missense	85378			AB051456	CCDS14087.1	22q13.31-q13.33	2008-07-01			ENSG00000128159	ENSG00000128159			18127	protein-coding gene	gene with protein product	"gamma-tubulin complex component 6"	610053				11694571, 11258795	Standard	XR_244458		Approved	GCP6, KIAA1669, DJ402G11.6	uc003bkb.1	Q96RT7	OTTHUMG00000030150	ENST00000248846.5:c.1720G>A	22.37:g.50664592C>T	ENSP00000248846:p.Val574Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JZ80|Q6PJ40|Q86YE9|Q9BY91|Q9UGX3|Q9UGX4	Missense_Mutation	SNP	ENST00000248846.5	37	CCDS14087.1	.	.	.	.	.	.	.	.	.	.	C	17.26	3.343671	0.61073	.	.	ENSG00000128159	ENST00000248846;ENST00000439308	T;T	0.08458	3.09;3.09	5.04	4.01	0.46588	.	0.292321	0.33290	N	0.005065	T	0.11623	0.0283	L	0.59436	1.845	0.36269	D	0.855028	P;D	0.54207	0.929;0.965	B;B	0.42995	0.329;0.404	T	0.19712	-1.0297	10	0.45353	T	0.12	.	13.7035	0.62624	0.0:0.9239:0.0:0.0761	.	574;574	B2RWN4;Q96RT7	.;GCP6_HUMAN	M	574	ENSP00000248846:V574M;ENSP00000397387:V574M	ENSP00000248846:V574M	V	-	1	0	TUBGCP6	49006719	1.000000	0.71417	1.000000	0.80357	0.656000	0.38851	2.274000	0.43390	1.109000	0.41680	0.462000	0.41574	GTG		0.557	TUBGCP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075004.3	NM_020461		T	50664592	C	T	50664592	3	4	664	1	0	0	0	0	1	0	0	0	16782	536	19	1	3807	1	TUBGCP6	22	50664592	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	47048	50664592	639974	1083	42393										
PLXNB2	23654	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr22	50720400	50720400	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctgagcagggcacggtgcccGtccatctcgatcagcaccgt	12	15	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:50720400G>A	ENST00000449103.1	-	20	3368	c.3228C>T	c.(3226-3228)gaC>gaT	p.D1076D	PLXNB2_ENST00000359337.4_Silent_p.D1076D|PLXNB2_ENST00000496720.1_5'Flank			O15031	PLXB2_HUMAN	plexin B2	1076	IPT/TIG 3.				brain development (GO:0007420)|neural tube closure (GO:0001843)|neuroblast proliferation (GO:0007405)|positive regulation of axonogenesis (GO:0050772)|regulation of cell shape (GO:0008360)|regulation of neuron migration (GO:2001222)|regulation of protein phosphorylation (GO:0001932)|regulation of Rho GTPase activity (GO:0032319)|semaphorin-plexin signaling pathway (GO:0071526)	cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)	GTPase activator activity (GO:0005096)|semaphorin receptor activity (GO:0017154)			breast(2)|central_nervous_system(4)|cervix(2)|endometrium(11)|kidney(4)|large_intestine(3)|liver(1)|lung(20)|ovary(5)|prostate(6)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	66		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CACGGTGCCCGTCCATCTCGA	0.597																																																0													54	60	58					22																	50720400		2083	4193	6276	SO:0001819	synonymous_variant	23654				CCDS43035.1	22q13.33	2008-06-12			ENSG00000196576	ENSG00000196576		"Plexins"	9104	protein-coding gene	gene with protein product		604293				10520995, 12183458	Standard	NM_012401		Approved	MM1, KIAA0315, PLEXB2	uc003bkv.4	O15031	OTTHUMG00000150219	ENST00000449103.1:c.3228C>T	22.37:g.50720400G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6QRH0|Q7KZU3|Q9BSU7	Silent	SNP	ENST00000449103.1	37	CCDS43035.1	.	.	.	.	.	.	.	.	.	.	G	8.224	0.803093	0.16397	.	.	ENSG00000196576	ENST00000427829	.	.	.	4.63	-2.52	0.06346	.	.	.	.	.	T	0.55657	0.1934	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.54682	-0.8257	4	.	.	.	.	10.9952	0.47571	0.6569:0.0:0.3431:0.0	.	.	.	.	M	94	.	.	T	-	2	0	PLXNB2	49062527	1.000000	0.71417	0.997000	0.53966	0.684000	0.39900	0.683000	0.25349	-0.211000	0.10124	0.313000	0.20887	ACG		0.597	PLXNB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316874.3	NM_012401		A	50720400	G	A	50720400	2	1	664	1	0	0	0	0	0	0	0	1	12131	1136	40	1		1	PLXNB2	22	50720400	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	55808	50720400	584166	1084	42394										
PLXNB2	23654	hgsc.bcm.edu	37	chr22	50726135	50726135	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcatgttctgtggctgggcGctggtgacggccacgcagga	16	11	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:50726135G>A	ENST00000449103.1	-	7	1709	c.1569C>T	c.(1567-1569)agC>agT	p.S523S	PLXNB2_ENST00000359337.4_Silent_p.S523S|PLXNB2_ENST00000496720.1_5'Flank			O15031	PLXB2_HUMAN	plexin B2	523					brain development (GO:0007420)|neural tube closure (GO:0001843)|neuroblast proliferation (GO:0007405)|positive regulation of axonogenesis (GO:0050772)|regulation of cell shape (GO:0008360)|regulation of neuron migration (GO:2001222)|regulation of protein phosphorylation (GO:0001932)|regulation of Rho GTPase activity (GO:0032319)|semaphorin-plexin signaling pathway (GO:0071526)	cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)	GTPase activator activity (GO:0005096)|semaphorin receptor activity (GO:0017154)			breast(2)|central_nervous_system(4)|cervix(2)|endometrium(11)|kidney(4)|large_intestine(3)|liver(1)|lung(20)|ovary(5)|prostate(6)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	66		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GTGGCTGGGCGCTGGTGACGG	0.746																																																0													3	4	4					22																	50726135		1668	3672	5340	SO:0001819	synonymous_variant	23654				CCDS43035.1	22q13.33	2008-06-12			ENSG00000196576	ENSG00000196576		"Plexins"	9104	protein-coding gene	gene with protein product		604293				10520995, 12183458	Standard	NM_012401		Approved	MM1, KIAA0315, PLEXB2	uc003bkv.4	O15031	OTTHUMG00000150219	ENST00000449103.1:c.1569C>T	22.37:g.50726135G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6QRH0|Q7KZU3|Q9BSU7	Silent	SNP	ENST00000449103.1	37	CCDS43035.1																																																																																				0.746	PLXNB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316874.3	NM_012401		A	50726135	G	A	50726135	2	1	664	1	0	0	0	0	0	0	0	1	12131	1078	38	1		1	PLXNB2	22	50726135	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5735	50726135	578431	1085	42395										
ARSA	410	broad.mit.edu	37	chr22	51064679	51064679	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cgcaagagaccggagcagccGcctcgggacatacgcatggt	14	13	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:51064679G>A	ENST00000547307.1	-	5	1281	c.876C>T	c.(874-876)ggC>ggT	p.G292G	ARSA_ENST00000610191.1_5'Flank|ARSA_ENST00000216124.5_Silent_p.G294G|ARSA_ENST00000395621.3_Silent_p.G294G|ARSA_ENST00000453344.2_Silent_p.G208G|ARSA_ENST00000356098.5_Silent_p.G294G|ARSA_ENST00000547805.1_Silent_p.G292G|ARSA_ENST00000395619.3_Silent_p.G294G			P15289	ARSA_HUMAN	arylsulfatase A	292					autophagy (GO:0006914)|binding of sperm to zona pellucida (GO:0007339)|cellular protein metabolic process (GO:0044267)|central nervous system development (GO:0007417)|glycosphingolipid metabolic process (GO:0006687)|post-translational protein modification (GO:0043687)|response to estrogen (GO:0043627)|response to ethanol (GO:0045471)|response to methylmercury (GO:0051597)|response to nutrient (GO:0007584)|response to pH (GO:0009268)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	acrosomal vesicle (GO:0001669)|endoplasmic reticulum lumen (GO:0005788)|endosome (GO:0005768)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|extrinsic component of external side of plasma membrane (GO:0031232)|integral component of membrane (GO:0016021)|lysosomal lumen (GO:0043202)|lysosome (GO:0005764)	arylsulfatase activity (GO:0004065)|calcium ion binding (GO:0005509)|cerebroside-sulfatase activity (GO:0004098)|sulfuric ester hydrolase activity (GO:0008484)			endometrium(1)|large_intestine(1)|lung(5)|pancreas(1)|skin(1)	9		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)|Suramin(DB04786)	CGGAGCAGCCGCCTCGGGACA	0.652																																																0													48	44	45					22																	51064679		2203	4300	6503	SO:0001819	synonymous_variant	410			X52150	CCDS14100.1, CCDS46736.1, CCDS14100.2	22q13.33	2013-09-19			ENSG00000100299	ENSG00000100299	3.1.6.8	"Arylsulfatase family"	713	protein-coding gene	gene with protein product	"metachromatic leucodystrophy"	607574				15772092	Standard	NM_000487		Approved		uc003bmz.5	P15289	OTTHUMG00000150180	ENST00000547307.1:c.876C>T	22.37:g.51064679G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RCA6|B7XD04|F8WCC8|Q6ICI5|Q96CJ0	Silent	SNP	ENST00000547307.1	37																																																																																					0.652	ARSA-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_000487		A	51064679	G	A	51064679	2	1	664	1	0	0	0	0	0	0	0	1	987	1074	38	1		1	ARSA	22	51064679	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	338544	51064679	239887	1086	42396										
SHANK3	85358	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr22	51117231	51117231	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctcgcagcccagctggacaaCgccacggacctgctaaaggt	11	15	0	0	rs79762996	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chr22:51117231C>T	ENST00000414786.2	+	5	710	c.483C>T	c.(481-483)aaC>aaT	p.N161N	SHANK3_ENST00000262795.3_Silent_p.N161N|SHANK3_ENST00000445220.2_Silent_p.N161N			Q9BYB0	SHAN3_HUMAN	SH3 and multiple ankyrin repeat domains 3	161					adult behavior (GO:0030534)|alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor clustering (GO:0097113)|brain morphogenesis (GO:0048854)|dendritic spine morphogenesis (GO:0060997)|guanylate kinase-associated protein clustering (GO:0097117)|learning (GO:0007612)|MAPK cascade (GO:0000165)|memory (GO:0007613)|N-methyl-D-aspartate receptor clustering (GO:0097114)|negative regulation of actin filament bundle assembly (GO:0032232)|negative regulation of cell volume (GO:0045794)|positive regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:2000969)|positive regulation of dendritic spine development (GO:0060999)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of glutamate receptor signaling pathway (GO:1900451)|positive regulation of long-term neuronal synaptic plasticity (GO:0048170)|positive regulation of synapse structural plasticity (GO:0051835)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|postsynaptic density assembly (GO:0097107)|regulation of dendritic spine morphogenesis (GO:0061001)|regulation of long term synaptic depression (GO:1900452)|regulation of long-term synaptic potentiation (GO:1900271)|social behavior (GO:0035176)|striatal medium spiny neuron differentiation (GO:0021773)|synapse assembly (GO:0007416)|vocal learning (GO:0042297)|vocalization behavior (GO:0071625)	cell junction (GO:0030054)|ciliary membrane (GO:0060170)|cytoplasm (GO:0005737)|neuron projection (GO:0043005)|neuron spine (GO:0044309)|neuronal postsynaptic density (GO:0097481)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	GKAP/Homer scaffold activity (GO:0030160)|identical protein binding (GO:0042802)|ionotropic glutamate receptor binding (GO:0035255)|protein C-terminus binding (GO:0008022)|scaffold protein binding (GO:0097110)|SH3 domain binding (GO:0017124)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(1)|kidney(1)|lung(5)	8		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		AGCTGGACAACGCCACGGACC	0.652													C|||	16	0.00319489	0.0	0.0014	5008	,	,		19825	0.0149		0.0	False		,,,				2504	0.0															0													42	46	45					22																	51117231		2155	4252	6407	SO:0001819	synonymous_variant	85358			AB051437		22q13.3	2013-11-14			ENSG00000251322	ENSG00000251322		"Sterile alpha motif (SAM) domain containing", "Ankyrin repeat domain containing"	14294	protein-coding gene	gene with protein product	"proline rich synapse associated protein 2", "shank postsynaptic density protein"	606230				11258795, 11431708, 10806096, 17173049	Standard	NM_033517		Approved	SPANK-2, prosap2, KIAA1650, PSAP2	uc031ryd.1	Q9BYB0	OTTHUMG00000150169	ENST00000414786.2:c.483C>T	22.37:g.51117231C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D7UT47|Q8TET3	Silent	SNP	ENST00000414786.2	37																																																																																					0.652	SHANK3-001	KNOWN	non_canonical_polymorphism|basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000316674.2	NM_001080420		T	51117231	C	T	51117231	2	4	664	1	0	0	0	0	0	0	0	1	14279	535	19	1		1	SHANK3	22	51117231	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	52552	51117231	187335	1087	42397										
SLC25A6	293	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	1506261	1506261	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ccacggccgtcacggtctgcGcgatcatccagctcaccacg	10	18	4	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:1506261G>A	ENST00000381401.5	-	3	1364	c.650C>T	c.(649-651)gCg>gTg	p.A217V	SLC25A6_ENST00000475167.1_5'UTR	NM_001636.3	NP_001627.2	P12236	ADT3_HUMAN	solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 6	217					active induction of host immune response by virus (GO:0046732)|ADP transport (GO:0015866)|apoptotic process (GO:0006915)|ATP transport (GO:0015867)|cellular protein metabolic process (GO:0044267)|energy reserve metabolic process (GO:0006112)|modulation by virus of host morphology or physiology (GO:0019048)|protein targeting to mitochondrion (GO:0006626)|regulation of insulin secretion (GO:0050796)|small molecule metabolic process (GO:0044281)|viral life cycle (GO:0019058)|viral process (GO:0016032)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrial inner membrane presequence translocase complex (GO:0005744)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	ATP:ADP antiporter activity (GO:0005471)			haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(8)|upper_aerodigestive_tract(1)	11		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Clodronate(DB00720)	CACGGTCTGCGCGATCATCCA	0.692																																																0													114	98	104					X																	1506261		2203	4296	6499	SO:0001583	missense	293			AY007135	CCDS14114.1	Xp22.32 and Yp11.3	2013-05-22			ENSG00000169100	ENSG00000169100		"Pseudoautosomal regions / PAR1", "Solute carriers"	10992	protein-coding gene	gene with protein product		300151, 403000		ANT3			Standard	NM_001636		Approved	ANT3Y, MGC17525	uc004cpt.3	P12236	OTTHUMG00000021058	ENST00000381401.5:c.650C>T	X.37:g.1506261G>A	ENSP00000370808:p.Ala217Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q96C49	Missense_Mutation	SNP	ENST00000381401.5	37	CCDS14114.1	.	.	.	.	.	.	.	.	.	.	.	22.2	4.252145	0.80135	.	.	ENSG00000169100	ENST00000381401	T	0.80566	-1.39	1.87	1.87	0.25490	Mitochondrial carrier domain (2);	0.000000	0.53938	U	0.000046	D	0.90184	0.6932	H	0.99444	4.57	0.09310	N	1	D	0.76494	0.999	P	0.48921	0.595	D	0.84987	0.0892	10	0.87932	D	0	.	12.0724	0.53624	0.0:0.0:1.0:0.0	.	217	P12236	ADT3_HUMAN	V	217	ENSP00000370808:A217V	ENSP00000370808:A217V	A	-	2	0	SLC25A6	1466261	1.000000	0.71417	0.650000	0.29550	0.657000	0.38888	7.381000	0.79718	0.987000	0.38709	0.409000	0.27619	GCG		0.692	SLC25A6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055596.1	NM_001636		A	1506261	G	A	1506261	3	1	664	1	0	0	0	0	1	0	0	0	14526	1087	38	1	254	1	SLC25A6	23	1506261	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10		1506261	153764299	1088	42398										
ARSH	347527	broad.mit.edu	37	chrX	2933300	2933300	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gcctttctgtttttcacttcCtggtactctagttatggatt	7	9	3	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:2933300C>A	ENST00000381130.2	+	4	630	c.630C>A	c.(628-630)tcC>tcA	p.S210S		NM_001011719.1	NP_001011719.1	Q5FYA8	ARSH_HUMAN	arylsulfatase family, member H	210					cellular protein metabolic process (GO:0044267)|glycosphingolipid metabolic process (GO:0006687)|post-translational protein modification (GO:0043687)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum lumen (GO:0005788)|integral component of membrane (GO:0016021)	arylsulfatase activity (GO:0004065)|metal ion binding (GO:0046872)			breast(3)|endometrium(8)|kidney(2)|large_intestine(6)|lung(13)|skin(1)|stomach(1)	34		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)				TTTTCACTTCCTGGTACTCTA	0.453																																																0													189	126	148					X																	2933300		2203	4300	6503	SO:0001819	synonymous_variant	347527			AY875940	CCDS35198.1	Xp22.33	2013-02-14	2006-03-07		ENSG00000205667	ENSG00000205667		"Arylsulfatase family"	32488	protein-coding gene	gene with protein product		300586	"arylsulfatase H"			16174644	Standard	NM_001011719		Approved		uc011mhj.2	Q5FYA8	OTTHUMG00000159612	ENST00000381130.2:c.630C>A	X.37:g.2933300C>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000381130.2	37	CCDS35198.1																																																																																				0.453	ARSH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356489.1	NM_001011719		A	2933300	C	A	2933300	2	1	664	1	0	0	0	0	0	0	0	1	993	668	24	4		4	ARSH	23	2933300	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	1427039	2933300	152337260	1089	42399										
NLGN4X	57502	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	5827148	5827148	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cacaggaggccccagcccccGagccaaagatggtcactctc	10	17	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:5827148G>A	ENST00000381095.3	-	4	1385	c.758C>T	c.(757-759)tCg>tTg	p.S253L	NLGN4X_ENST00000381093.2_Missense_Mutation_p.S273L|NLGN4X_ENST00000538097.1_Missense_Mutation_p.S253L|NLGN4X_ENST00000381092.1_Missense_Mutation_p.S253L|NLGN4X_ENST00000275857.6_Missense_Mutation_p.S253L	NM_001282145.1|NM_001282146.1|NM_181332.1	NP_001269074.1|NP_001269075.1|NP_851849.1	Q8N0W4	NLGNX_HUMAN	neuroligin 4, X-linked	253					adult behavior (GO:0030534)|brainstem development (GO:0003360)|cell-cell junction organization (GO:0045216)|cerebellum development (GO:0021549)|learning (GO:0007612)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|neuron cell-cell adhesion (GO:0007158)|neuron differentiation (GO:0030182)|organ growth (GO:0035265)|presynaptic membrane assembly (GO:0097105)|social behavior (GO:0035176)|synapse organization (GO:0050808)|vocalization behavior (GO:0071625)	cell junction (GO:0030054)|cell surface (GO:0009986)|dendrite (GO:0030425)|excitatory synapse (GO:0060076)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|synapse (GO:0045202)	cell adhesion molecule binding (GO:0050839)|chloride ion binding (GO:0031404)|neurexin family protein binding (GO:0042043)|protein homodimerization activity (GO:0042803)|receptor activity (GO:0004872)			breast(1)|cervix(2)|endometrium(4)|large_intestine(21)|lung(39)|ovary(4)|prostate(2)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)	81						CCCAGCCCCCGAGCCAAAGAT	0.587																																																0													68	63	65					X																	5827148		2203	4300	6503	SO:0001583	missense	57502			AB033086	CCDS14126.1	Xp22.33	2008-02-05	2004-05-21	2004-05-26	ENSG00000146938	ENSG00000146938			14287	protein-coding gene	gene with protein product		300427	"neuroligin 4"	NLGN4		10574462	Standard	XM_005274564		Approved	KIAA1260, NLGN, HLNX	uc004crr.3	Q8N0W4	OTTHUMG00000021093	ENST00000381095.3:c.758C>T	X.37:g.5827148G>A	ENSP00000370485:p.Ser253Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UX10|Q9ULG0	Missense_Mutation	SNP	ENST00000381095.3	37	CCDS14126.1	.	.	.	.	.	.	.	.	.	.	G	17.09	3.300364	0.60195	.	.	ENSG00000146938	ENST00000381095;ENST00000381093;ENST00000275857;ENST00000381092;ENST00000538097	T;T;T;T;T	0.67865	-0.29;-0.29;-0.29;-0.29;-0.29	3.48	3.48	0.39840	Carboxylesterase, type B (1);	.	.	.	.	T	0.75620	0.3874	L	0.47716	1.5	0.58432	D	0.999998	D;D;D	0.89917	0.981;1.0;0.998	P;D;P	0.83275	0.698;0.996;0.774	T	0.78237	-0.2282	9	0.66056	D	0.02	.	13.8719	0.63624	0.0:0.0:1.0:0.0	.	310;253;273	A6NMU8;Q8N0W4;Q8N0W4-2	.;NLGNX_HUMAN;.	L	253;273;253;253;253	ENSP00000370485:S253L;ENSP00000370483:S273L;ENSP00000275857:S253L;ENSP00000370482:S253L;ENSP00000439203:S253L	ENSP00000275857:S253L	S	-	2	0	NLGN4X	5837148	1.000000	0.71417	0.648000	0.29521	0.217000	0.24651	8.345000	0.90057	1.508000	0.48769	0.600000	0.82982	TCG		0.587	NLGN4X-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000055673.1	NM_020742		A	5827148	G	A	5827148	3	1	664	1	0	0	0	0	1	0	0	0	10471	1059	37	1	1704	1	NLGN4X	23	5827148	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	2893848	5827148	149443412	1090	42400										
ATXN3L	92552	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	13337345	13337345	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttctctattggtttcttggcGgcttagttcaagggccctct	10	10	4	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:13337345G>A	ENST00000380622.2	-	1	1173	c.709C>T	c.(709-711)Cgc>Tgc	p.R237C	GS1-600G8.3_ENST00000431486.1_RNA	NM_001135995.1	NP_001129467.1	Q9H3M9	ATX3L_HUMAN	ataxin 3-like	237					protein deubiquitination (GO:0016579)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	omega peptidase activity (GO:0008242)|ubiquitin-specific protease activity (GO:0004843)			endometrium(3)|kidney(1)|large_intestine(6)|lung(12)|ovary(2)|prostate(1)|skin(2)|urinary_tract(1)	28						GTTTCTTGGCGGCTTAGTTCA	0.423																																																0													277	251	259					X																	13337345		1568	3582	5150	SO:0001583	missense	92552				CCDS48080.1	Xp22	2010-09-30			ENSG00000123594	ENSG00000123594			24173	protein-coding gene	gene with protein product		300920					Standard	NM_001135995		Approved	MJDL	uc010ned.3	Q9H3M9	OTTHUMG00000021146	ENST00000380622.2:c.709C>T	X.37:g.13337345G>A	ENSP00000369996:p.Arg237Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNY8	Missense_Mutation	SNP	ENST00000380622.2	37	CCDS48080.1	.	.	.	.	.	.	.	.	.	.	g	8.243	0.807365	0.16467	.	.	ENSG00000123594	ENST00000380622	T	0.21031	2.03	0.793	0.793	0.18632	Ubiquitin interacting motif (3);	0.000000	0.85682	D	0.000000	T	0.16769	0.0403	L	0.47190	1.495	0.58432	D	0.999997	P	0.47545	0.897	B	0.43701	0.428	T	0.03524	-1.1028	10	0.87932	D	0	.	3.7528	0.08573	0.0:1.0E-4:0.5717:0.4282	.	237	Q9H3M9	ATX3L_HUMAN	C	237	ENSP00000369996:R237C	ENSP00000369996:R237C	R	-	1	0	ATXN3L	13247266	0.829000	0.29322	0.002000	0.10522	0.004000	0.04260	0.433000	0.21477	0.661000	0.30985	0.417000	0.27973	CGC		0.423	ATXN3L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055785.2	NM_001135995		A	13337345	G	A	13337345	3	1	664	1	0	0	0	0	1	0	0	0	1214	1116	39	1	362	1	ATXN3L	23	13337345	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	7510197	13337345	141933215	1091	42401										
KLHL34	257240	hgsc.bcm.edu	37	chrX	21675168	21675168	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gatgatgaggcccttgacccGggcgggcagcacgaggccag	17	12	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:21675168G>A	ENST00000379499.2	-	1	1280	c.739C>T	c.(739-741)Cgg>Tgg	p.R247W		NM_153270.1	NP_695002.1	Q8N239	KLH34_HUMAN	kelch-like family member 34	247						extracellular space (GO:0005615)				cervix(1)|endometrium(7)|kidney(1)|large_intestine(3)|lung(11)|ovary(2)|urinary_tract(1)	26						CCCTTGACCCGGGCGGGCAGC	0.682																																																0													18	19	18					X																	21675168		2198	4293	6491	SO:0001583	missense	257240			AK092279	CCDS14199.1	Xp22.12	2013-02-22	2013-02-22		ENSG00000185915	ENSG00000185915		"Kelch-like", "BTB/POZ domain containing"	26634	protein-coding gene	gene with protein product			"kelch-like 34 (Drosophila)"				Standard	NM_153270		Approved	FLJ34960, RP11-450P7.3	uc004czz.1	Q8N239	OTTHUMG00000021234	ENST00000379499.2:c.739C>T	X.37:g.21675168G>A	ENSP00000368813:p.Arg247Trp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000379499.2	37	CCDS14199.1	.	.	.	.	.	.	.	.	.	.	G	10.88	1.476305	0.26511	.	.	ENSG00000185915	ENST00000379499	T	0.73258	-0.73	4.65	3.76	0.43208	.	0.431057	0.22852	N	0.054854	T	0.59932	0.2230	N	0.22421	0.69	0.09310	N	1	D	0.76494	0.999	P	0.52672	0.706	T	0.55673	-0.8104	10	0.72032	D	0.01	.	1.0565	0.01591	0.1687:0.1555:0.3336:0.3422	.	247	Q8N239	KLH34_HUMAN	W	247	ENSP00000368813:R247W	ENSP00000368813:R247W	R	-	1	2	KLHL34	21585089	0.000000	0.05858	0.118000	0.21660	0.405000	0.30901	0.188000	0.17018	0.909000	0.36697	0.422000	0.28245	CGG		0.682	KLHL34-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056022.1	NM_153270		A	21675168	G	A	21675168	3	1	664	1	0	0	0	0	1	0	0	0	8394	1115	39	1	1199	1	KLHL34	23	21675168	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	8337823	21675168	133595392	1092	42402										
CXorf22	170063	mdanderson.org;bcgsc.ca	37	chrX	35944236	35944236	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagacgaagacacttttgacCggctacttatttcaatagaa	7	8	1	4	rs368440669		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:35944236C>T	ENST00000297866.5	+	2	418	c.352C>T	c.(352-354)Cgg>Tgg	p.R118W		NM_152632.3	NP_689845.2	Q6ZTR5	CX022_HUMAN	chromosome X open reading frame 22	118										breast(2)|central_nervous_system(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(9)|lung(18)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(3)	44						CACTTTTGACCGGCTACTTAT	0.348																																																0													61	57	58					X																	35944236		2202	4300	6502	SO:0001583	missense	170063			BC027936	CCDS14237.2	Xp21.1	2014-08-07			ENSG00000165164	ENSG00000165164			28546	protein-coding gene	gene with protein product						12477932	Standard	NM_152632		Approved	MGC34831	uc004ddj.3	Q6ZTR5	OTTHUMG00000021350	ENST00000297866.5:c.352C>T	X.37:g.35944236C>T	ENSP00000297866:p.Arg118Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JRM8|Q8N6X8	Missense_Mutation	SNP	ENST00000297866.5	37	CCDS14237.2	.	.	.	.	.	.	.	.	.	.	C	11.10	1.538677	0.27475	.	.	ENSG00000165164	ENST00000297866	T	0.16073	2.37	4.73	2.49	0.30216	.	0.493349	0.22804	N	0.055437	T	0.23492	0.0568	L	0.50333	1.59	0.09310	N	1	D	0.76494	0.999	P	0.56700	0.804	T	0.03784	-1.1004	10	0.51188	T	0.08	-6.9226	5.4006	0.16293	0.3062:0.5041:0.1897:0.0	.	118	Q6ZTR5	CX022_HUMAN	W	118	ENSP00000297866:R118W	ENSP00000297866:R118W	R	+	1	2	CXorf22	35854157	0.000000	0.05858	0.015000	0.15790	0.006000	0.05464	0.120000	0.15647	0.851000	0.35264	0.529000	0.55759	CGG		0.348	CXorf22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056216.2	NM_152632		T	35944236	C	T	35944236	3	4	664	1	0	0	0	0	1	0	0	0	4104	643	23	1	358	1	CXorf22	23	35944236	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	14269068	35944236	119326324	1093	42403										
FAM47C	442444	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	37028375	37028375	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gactggagtgtcccatctccGcccagagcctcccaagactc	9	17	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:37028375G>A	ENST00000358047.3	+	1	1944	c.1892G>A	c.(1891-1893)cGc>cAc	p.R631H		NM_001013736.2	NP_001013758.1	Q5HY64	FA47C_HUMAN	family with sequence similarity 47, member C	631										breast(4)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(15)|lung(63)|ovary(6)|pancreas(1)|prostate(6)|skin(8)|upper_aerodigestive_tract(4)|urinary_tract(1)	120						TCCCATCTCCGCCCAGAGCCT	0.637																																																0													30	35	33					X																	37028375		2147	4213	6360	SO:0001583	missense	442444			AK125992	CCDS35227.1	Xp21.1	2006-07-04			ENSG00000198173	ENSG00000198173			25301	protein-coding gene	gene with protein product							Standard	NM_001013736		Approved		uc004ddl.2	Q5HY64	OTTHUMG00000024025	ENST00000358047.3:c.1892G>A	X.37:g.37028375G>A	ENSP00000367913:p.Arg631His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZU46	Missense_Mutation	SNP	ENST00000358047.3	37	CCDS35227.1	.	.	.	.	.	.	.	.	.	.	-	10.60	1.394681	0.25205	.	.	ENSG00000198173	ENST00000358047	T	0.15834	2.39	1.67	-3.33	0.04958	.	.	.	.	.	T	0.07098	0.0180	N	0.10685	0.025	0.09310	N	1	P	0.37781	0.608	B	0.37387	0.248	T	0.29792	-1.0000	9	0.39692	T	0.17	.	5.1076	0.14793	0.1894:0.5823:0.2283:0.0	.	631	Q5HY64	FA47C_HUMAN	H	631	ENSP00000367913:R631H	ENSP00000367913:R631H	R	+	2	0	FAM47C	36938296	0.000000	0.05858	0.001000	0.08648	0.004000	0.04260	-2.462000	0.00997	-0.572000	0.06006	0.414000	0.27820	CGC		0.637	FAM47C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060508.1	NM_001013736		A	37028375	G	A	37028375	3	1	664	1	0	0	0	0	1	0	0	0	5578	1087	38	1	1894	1	FAM47C	23	37028375	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1084139	37028375	118242185	1094	42404										
CCDC22	28952	broad.mit.edu;mdanderson.org	37	chrX	49106626	49106626	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagatcgagacagagctgggCaagaagaccctcagcaacct	11	12	1	5			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:49106626C>T	ENST00000376227.3	+	17	1958	c.1788C>T	c.(1786-1788)ggC>ggT	p.G596G		NM_014008.3	NP_054727.1	O60826	CCD22_HUMAN	coiled-coil domain containing 22	596										NS(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(5)|prostate(2)|skin(1)	18						CAGAGCTGGGCAAGAAGACCC	0.637																																																0													47	37	40					X																	49106626		2096	4057	6153	SO:0001819	synonymous_variant	28952			BC000972	CCDS14322.1	Xp11.23	2008-02-05	2005-07-24	2005-07-24	ENSG00000101997	ENSG00000101997			28909	protein-coding gene	gene with protein product		300859	"chromosome X open reading frame 37"	CXorf37		12477932	Standard	NM_014008		Approved	JM1	uc004dnd.2	O60826	OTTHUMG00000024141	ENST00000376227.3:c.1788C>T	X.37:g.49106626C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7G1	Silent	SNP	ENST00000376227.3	37	CCDS14322.1																																																																																				0.637	CCDC22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060822.1	NM_014008		T	49106626	C	T	49106626	2	4	664	1	0	0	0	0	0	0	0	1	2799	697	25	2		2	CCDC22	23	49106626	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	12078251	49106626	106163934	1095	42405										
HUWE1	10075	broad.mit.edu;bcgsc.ca	37	chrX	53615355	53615355	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atcttacctcaaaaagtagcGttaaaagcaagattctagta	6	7	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:53615355G>A	ENST00000342160.3	-	36	5058	c.4601C>T	c.(4600-4602)aCg>aTg	p.T1534M	HUWE1_ENST00000262854.6_Missense_Mutation_p.T1534M|HUWE1_ENST00000218328.8_Missense_Mutation_p.T1534M			Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1, E3 ubiquitin protein ligase	1534					base-excision repair (GO:0006284)|cell differentiation (GO:0030154)|histone ubiquitination (GO:0016574)|protein monoubiquitination (GO:0006513)|protein polyubiquitination (GO:0000209)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	DNA binding (GO:0003677)|ligase activity (GO:0016874)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)			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						AAAAAGTAGCGTTAAAAGCAA	0.403																																																0													96	73	81					X																	53615355		2203	4300	6503	SO:0001583	missense	10075			AB071605	CCDS35301.1	Xp11.22	2014-06-09	2012-02-23		ENSG00000086758	ENSG00000086758			30892	protein-coding gene	gene with protein product		300697	"HECT, UBA and WWE domain containing 1"			9205841, 10998601	Standard	NM_031407		Approved	Ib772, KIAA0312, UREB1	uc004dsp.4	Q7Z6Z7	OTTHUMG00000021617	ENST00000342160.3:c.4601C>T	X.37:g.53615355G>A	ENSP00000340648:p.Thr1534Met	Somatic		WXS	Illumina HiSeq	Phase_I	O15029|Q4G2Z2|Q5H961|Q6P4D0|Q8NG67|Q9BUI0|Q9HCJ4|Q9NSL6|Q9P0A9	Missense_Mutation	SNP	ENST00000342160.3	37	CCDS35301.1	.	.	.	.	.	.	.	.	.	.	G	22.8	4.338524	0.81911	.	.	ENSG00000086758	ENST00000342160;ENST00000262854;ENST00000218328	T;T;T	0.50277	1.04;1.04;0.75	5.83	5.83	0.93111	Armadillo-like helical (1);	0.119337	0.56097	D	0.000037	T	0.53802	0.1819	L	0.29908	0.895	0.80722	D	1	D;P	0.71674	0.998;0.784	P;B	0.57009	0.811;0.271	T	0.56878	-0.7906	10	0.72032	D	0.01	.	17.7172	0.88341	0.0:0.0:1.0:0.0	.	1534;1534	Q7Z6Z7;Q7Z6Z7-2	HUWE1_HUMAN;.	M	1534	ENSP00000340648:T1534M;ENSP00000262854:T1534M;ENSP00000218328:T1534M	ENSP00000218328:T1534M	T	-	2	0	HUWE1	53632080	1.000000	0.71417	0.938000	0.37757	0.939000	0.58152	9.444000	0.97578	2.457000	0.83068	0.600000	0.82982	ACG		0.403	HUWE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056766.1	XM_497119		A	53615355	G	A	53615355	3	1	664	1	0	0	0	0	1	0	0	0	7468	1145	40	1	8715	1	HUWE1	23	53615355	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	4508729	53615355	101655205	1096	42406										
PHF8	23133	broad.mit.edu;mdanderson.org	37	chrX	54012317	54012317	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agatcaagaatgccaccagcGccactaccattcccaagctt	6	15	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:54012317G>A	ENST00000357988.5	-	17	2527	c.2169C>T	c.(2167-2169)ggC>ggT	p.G723G	PHF8_ENST00000338154.6_Silent_p.G687G|PHF8_ENST00000338946.6_Silent_p.G586G|PHF8_ENST00000322659.8_Intron	NM_001184896.1	NP_001171825.1	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	723					brain development (GO:0007420)|G1/S transition of mitotic cell cycle (GO:0000082)|histone H3-K27 demethylation (GO:0071557)|histone H3-K36 demethylation (GO:0070544)|histone H3-K9 demethylation (GO:0033169)|histone H4-K20 demethylation (GO:0035574)|mitotic cell cycle (GO:0000278)|negative regulation of chromatin silencing at rDNA (GO:0061188)|positive regulation of transcription from RNA polymerase I promoter (GO:0045943)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	microtubule cytoskeleton (GO:0015630)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|histone demethylase activity (GO:0032452)|histone demethylase activity (H3-K27 specific) (GO:0071558)|histone demethylase activity (H3-K36 specific) (GO:0051864)|histone demethylase activity (H3-K9 specific) (GO:0032454)|histone demethylase activity (H4-K20 specific) (GO:0035575)|iron ion binding (GO:0005506)|methylated histone binding (GO:0035064)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706)|zinc ion binding (GO:0008270)			endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(7)|lung(10)|ovary(4)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)	40						TGCCACCAGCGCCACTACCAT	0.552																																																0													299	195	230					X																	54012317		2203	4300	6503	SO:0001819	synonymous_variant	23133			AB029034	CCDS14355.1, CCDS55418.1, CCDS55419.1, CCDS55420.1	Xp11.22	2013-01-28			ENSG00000172943	ENSG00000172943		"Chromatin-modifying enzymes / K-demethylases", "Zinc fingers, PHD-type"	20672	protein-coding gene	gene with protein product	"jumonji C domain-containing histone demethylase 1F"	300560				10470851, 20023638, 20644565	Standard	NM_015107		Approved	ZNF422, KIAA1111, JHDM1F	uc004dsu.3	Q9UPP1	OTTHUMG00000021622	ENST00000357988.5:c.2169C>T	X.37:g.54012317G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KMV4|B7Z911|Q5H9U5|Q5JPR9|Q5JPS0|Q5JPS2|Q5JPS3|Q5VUJ4|Q7Z6D4|Q9HAH2	Silent	SNP	ENST00000357988.5	37	CCDS55420.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	9.449|9.449	1.089971|1.089971	0.20390|0.20390	.|.	.|.	ENSG00000172943|ENSG00000172943	ENST00000396282;ENST00000375189|ENST00000443302	.|.	.|.	.|.	5.26|5.26	1.47|1.47	0.22746|0.22746	.|.	.|.	.|.	.|.	.|.	T|T	0.52108|0.52108	0.1714|0.1714	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	T|T	0.38090|0.38090	-0.9677|-0.9677	5|4	0.72032|.	D|.	0.01|.	-5.9991|-5.9991	5.6227|5.6227	0.17465|0.17465	0.0:0.1638:0.5054:0.3307|0.0:0.1638:0.5054:0.3307	.|.	.|.	.|.	.|.	V|C	591;163|451	.|.	ENSP00000364335:A163V|.	A|R	-|-	2|1	0|0	PHF8|PHF8	54029042|54029042	0.697000|0.697000	0.27767|0.27767	1.000000|1.000000	0.80357|0.80357	0.989000|0.989000	0.77384|0.77384	-0.320000|-0.320000	0.08028|0.08028	0.167000|0.167000	0.19631|0.19631	-0.328000|-0.328000	0.08392|0.08392	GCG|CGC		0.552	PHF8-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000056784.2	NM_015107		A	54012317	G	A	54012317	2	1	664	1	0	0	0	0	0	0	0	1	11847	1074	38	1		1	PHF8	23	54012317	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	396962	54012317	101258243	1097	42407										
EDA2R	60401	broad.mit.edu	37	chrX	65819457	65819457	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttttgcaggtccagctctgTgcattcgatggggctgtgga	14	9	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:65819457T>G	ENST00000374719.3	-	6	819	c.763A>C	c.(763-765)Aca>Cca	p.T255P	EDA2R_ENST00000450752.1_Missense_Mutation_p.T276P|EDA2R_ENST00000456230.2_Missense_Mutation_p.T255P|EDA2R_ENST00000253392.5_Missense_Mutation_p.T276P|EDA2R_ENST00000396050.1_Missense_Mutation_p.T255P|EDA2R_ENST00000451436.2_Missense_Mutation_p.T131P	NM_021783.3	NP_068555	Q9HAV5	TNR27_HUMAN	ectodysplasin A2 receptor	255					cell differentiation (GO:0030154)|embryo development (GO:0009790)|epidermis development (GO:0008544)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|positive regulation of JNK cascade (GO:0046330)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|tumor necrosis factor-mediated signaling pathway (GO:0033209)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)	receptor activity (GO:0004872)|tumor necrosis factor-activated receptor activity (GO:0005031)			breast(1)|endometrium(2)|large_intestine(4)|lung(4)|skin(1)|upper_aerodigestive_tract(1)	13						TCCAGCTCTGTGCATTCGATG	0.577																																																0													47	39	41					X																	65819457		2203	4299	6502	SO:0001583	missense	60401			AF298812	CCDS14386.1, CCDS56603.1	Xq11.1	2013-05-22			ENSG00000131080	ENSG00000131080		"Tumor necrosis factor receptor superfamily"	17756	protein-coding gene	gene with protein product		300276				11039935	Standard	NM_021783		Approved	XEDAR, EDA-A2R, EDAA2R, TNFRSF27	uc004dwt.2	Q9HAV5	OTTHUMG00000021736	ENST00000374719.3:c.763A>C	X.37:g.65819457T>G	ENSP00000363851:p.Thr255Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VYX9|Q5VYY0|Q6UWM2|Q8IZA6	Missense_Mutation	SNP	ENST00000374719.3	37	CCDS14386.1	.	.	.	.	.	.	.	.	.	.	T	18.01	3.527179	0.64860	.	.	ENSG00000131080	ENST00000374719;ENST00000396050;ENST00000451436;ENST00000253392;ENST00000456230;ENST00000450752	D;D;D;D;D	0.92299	-2.63;-2.63;-3.01;-2.63;-3.01	3.7	3.7	0.42460	.	0.214563	0.22867	U	0.054663	D	0.92244	0.7540	L	0.29908	0.895	0.35532	D	0.802292	D;D;D	0.89917	0.999;1.0;0.999	D;D;D	0.87578	0.991;0.998;0.921	D	0.93696	0.7011	10	0.87932	D	0	-0.5066	9.5549	0.39332	0.0:0.0:0.0:1.0	.	131;276;255	E7EUS4;Q9HAV5-2;Q9HAV5	.;.;TNR27_HUMAN	P	255;255;131;276;255;276	ENSP00000363851:T255P;ENSP00000379365:T255P;ENSP00000253392:T276P;ENSP00000393935:T255P;ENSP00000402929:T276P	ENSP00000253392:T276P	T	-	1	0	EDA2R	65736182	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	3.914000	0.56401	1.363000	0.46019	0.425000	0.28330	ACA		0.577	EDA2R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057002.1	NM_021783		G	65819457	T	G	65819457	3	3	664	1	0	0	0	0	1	0	0	0	4906	1696	59	5	134	5	EDA2R	23	65819457	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	11807140	65819457	89451103	1098	42408										
KIF4A	24137	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	69595076	69595076	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgagtgagcgccgccgcaaaCgtctccaggagctggagggt	16	11	1	2	rs374256182		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:69595076C>T	ENST00000374403.3	+	17	1883	c.1801C>T	c.(1801-1803)Cgt>Tgt	p.R601C	KIF4A_ENST00000374388.3_Missense_Mutation_p.R601C	NM_012310.4	NP_036442.3	O95239	KIF4A_HUMAN	kinesin family member 4A	601					anterograde axon cargo transport (GO:0008089)|antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|organelle organization (GO:0006996)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinesin complex (GO:0005871)|membrane (GO:0016020)|midbody (GO:0030496)|nucleus (GO:0005634)|spindle microtubule (GO:0005876)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|DNA binding (GO:0003677)|microtubule motor activity (GO:0003777)|plus-end-directed microtubule motor activity (GO:0008574)			breast(6)|endometrium(9)|kidney(3)|large_intestine(8)|lung(15)|ovary(4)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	51						CCGCCGCAAACGTCTCCAGGA	0.473																																																0								C	CYS/ARG	1,3834		0,1,0,1631,571	71	61	65		1801	5.5	1	X		65	1,6727		0,0,1,2428,1871	no	missense	KIF4A	NM_012310.4	180	0,1,1,4059,2442	TT,TC,T,CC,C		0.0149,0.0261,0.0189	benign	601/1233	69595076	2,10561	2203	4300	6503	SO:0001583	missense	24137			AF179308	CCDS14401.1	Xq13.1	2008-08-11			ENSG00000090889	ENSG00000090889		"Kinesins"	13339	protein-coding gene	gene with protein product	"chromokinesin"	300521				10773663	Standard	NM_012310		Approved	KIF4-G1, KIF4, HSA271784, FLJ12530, FLJ12655, FLJ14204, FLJ20631	uc004dyg.3	O95239	OTTHUMG00000021775	ENST00000374403.3:c.1801C>T	X.37:g.69595076C>T	ENSP00000363524:p.Arg601Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7V5|D3DVU4|Q86TN3|Q86XX7|Q9NNY6|Q9NY24|Q9UMW3	Missense_Mutation	SNP	ENST00000374403.3	37	CCDS14401.1	.	.	.	.	.	.	.	.	.	.	C	15.84	2.951877	0.53293	2.61E-4	1.49E-4	ENSG00000090889	ENST00000374388;ENST00000374403	T;T	0.70631	2.25;-0.5	5.53	5.53	0.82687	.	0.102401	0.42821	D	0.000648	T	0.68192	0.2974	L	0.55743	1.74	0.80722	D	1	B;B	0.28713	0.033;0.22	B;B	0.35770	0.013;0.21	T	0.68511	-0.5389	10	0.56958	D	0.05	.	10.7456	0.46179	0.3019:0.6981:0.0:0.0	.	601;601	O95239;O95239-2	KIF4A_HUMAN;.	C	601	ENSP00000363509:R601C;ENSP00000363524:R601C	ENSP00000363509:R601C	R	+	1	0	KIF4A	69511801	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	2.564000	0.45931	2.562000	0.86427	0.600000	0.82982	CGT		0.473	KIF4A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057068.1	NM_012310		T	69595076	C	T	69595076	3	4	664	1	0	0	0	0	1	0	0	0	8310	536	19	1	1863	1	KIF4A	23	69595076	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3775619	69595076	85675484	1099	42409										
TEX11	56159	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	70080718	70080718	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	aagacttaccataatcagtcGttgaatactttgttctgagg	8	7	2	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:70080718G>A	ENST00000395889.2	-	6	513	c.358C>T	c.(358-360)Cga>Tga	p.R120*	TEX11_ENST00000374333.2_Nonsense_Mutation_p.R105*|TEX11_ENST00000344304.3_Nonsense_Mutation_p.R120*	NM_001003811.1	NP_001003811.1	Q8IYF3	TEX11_HUMAN	testis expressed 11	120					chiasma assembly (GO:0051026)|fertilization (GO:0009566)|male gonad development (GO:0008584)|male meiosis chromosome segregation (GO:0007060)|meiotic gene conversion (GO:0006311)|negative regulation of apoptotic process (GO:0043066)|reciprocal meiotic recombination (GO:0007131)|resolution of meiotic recombination intermediates (GO:0000712)|synaptonemal complex assembly (GO:0007130)	central element (GO:0000801)		p.R105R(1)		breast(4)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(12)|lung(13)|ovary(3)|prostate(3)|skin(3)	48	Renal(35;0.156)					ATAATCAGTCGTTGAATACTT	0.363																																																1	Substitution - coding silent(1)	endometrium(1)											113	86	95					X																	70080718		2203	4300	6503	SO:0001587	stop_gained	56159			AF285594	CCDS35323.1, CCDS43968.1	Xp11	2008-02-05	2007-03-13		ENSG00000120498	ENSG00000120498			11733	protein-coding gene	gene with protein product		300311	"testis expressed sequence 11"			11279525	Standard	NM_001003811		Approved	TSGA3, TGC1	uc004dyl.3	Q8IYF3	OTTHUMG00000021782	ENST00000395889.2:c.358C>T	X.37:g.70080718G>A	ENSP00000379226:p.Arg120*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8V6|Q5JQQ8|Q96LZ4|Q96M47|Q9BXU6	Nonsense_Mutation	SNP	ENST00000395889.2	37	CCDS35323.1	.	.	.	.	.	.	.	.	.	.	G	17.36	3.368975	0.61624	.	.	ENSG00000120498	ENST00000374333;ENST00000395889;ENST00000344304	.	.	.	4.63	3.47	0.39725	.	0.063218	0.64402	D	0.000007	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-9.315	7.2818	0.26316	0.0:0.0:0.2363:0.7637	.	.	.	.	X	105;120;120	.	.	R	-	1	2	TEX11	69997443	0.990000	0.36364	0.315000	0.25238	0.035000	0.12851	2.358000	0.44134	0.618000	0.30179	-0.507000	0.04495	CGA		0.363	TEX11-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000359072.1			A	70080718	G	A	70080718	4	1	664	1	0	0	0	0	0	1	0	0	15786	1153	40	1	2568	1	TEX11	23	70080718	Nonsense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	485642	70080718	85189842	1100	42410										
GJB1	2705	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	70443744	70443744	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tccagcctggctgcaacagcGtttgctatgaccaattcttc	8	13	1	1	rs116840818		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:70443744G>A	ENST00000374022.3	+	2	282	c.187G>A	c.(187-189)Gtt>Att	p.V63I	GJB1_ENST00000374029.1_Missense_Mutation_p.V63I|GJB1_ENST00000361726.6_Missense_Mutation_p.V63I	NM_001097642.2	NP_001091111.1	P08034	CXB1_HUMAN	gap junction protein, beta 1, 32kDa	63			V -> I (in CMTX1; can be associated with Gln-22). {ECO:0000269|PubMed:12477701, ECO:0000269|PubMed:8162049, ECO:0000269|PubMed:9099841, ECO:0000269|PubMed:9361298, ECO:0000269|PubMed:9633821}.		cell death (GO:0008219)|cell-cell signaling (GO:0007267)|gap junction assembly (GO:0016264)|membrane organization (GO:0061024)|nervous system development (GO:0007399)|protein oligomerization (GO:0051259)|purine ribonucleotide transport (GO:0015868)|transport (GO:0006810)	connexon complex (GO:0005922)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	gap junction channel activity (GO:0005243)			breast(1)|endometrium(1)|large_intestine(3)|lung(4)|prostate(1)	10	Renal(35;0.156)					CTGCAACAGCGTTTGCTATGA	0.557																																																0			GRCh37	CM940832	GJB1	M	rs116840818						107	74	85					X																	70443744		2203	4300	6503	SO:0001583	missense	2705			X04325	CCDS14408.1	Xq13.1	2014-09-17	2007-01-16		ENSG00000169562	ENSG00000169562		"Ion channels / Gap junction proteins (connexins)"	4283	protein-coding gene	gene with protein product	"Charcot-Marie-Tooth neuropathy, X-linked", "connexin 32"	304040	"gap junction protein, beta 1, 32kD (connexin 32, Charcot-Marie-Tooth neuropathy, X-linked)", "gap junction protein, beta 1, 32kDa (connexin 32, Charcot-Marie-Tooth neuropathy, X-linked)", "gap junction protein, beta 1, 32kDa (connexin 32)"	CMTX1, CMTX		1319395	Standard	NM_000166		Approved	CX32	uc004dzf.3	P08034	OTTHUMG00000021797	ENST00000374022.3:c.187G>A	X.37:g.70443744G>A	ENSP00000363134:p.Val63Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8R2|D3DVV2|Q5U0S4	Missense_Mutation	SNP	ENST00000374022.3	37	CCDS14408.1	.	.	.	.	.	.	.	.	.	.	G	11.07	1.529886	0.27387	.	.	ENSG00000169562	ENST00000374029;ENST00000374022;ENST00000447581;ENST00000361726	D;D;D;D	0.99405	-5.84;-5.84;-5.84;-5.84	4.56	3.68	0.42216	Connexin, conserved site (1);Connexin, N-terminal (2);	0.000000	0.85682	D	0.000000	D	0.99450	0.9805	M	0.82517	2.595	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.98789	1.0735	10	0.87932	D	0	.	13.3254	0.60457	0.0:0.0:0.841:0.159	.	63	P08034	CXB1_HUMAN	I	63	ENSP00000363141:V63I;ENSP00000363134:V63I;ENSP00000407223:V63I;ENSP00000354900:V63I	ENSP00000354900:V63I	V	+	1	0	GJB1	70360469	1.000000	0.71417	0.040000	0.18447	0.004000	0.04260	9.654000	0.98509	0.925000	0.37094	-0.369000	0.07265	GTT		0.557	GJB1-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057133.1	NM_000166		A	70443744	G	A	70443744	3	1	664	1	0	0	0	0	1	0	0	0	6414	1145	40	1	189	1	GJB1	23	70443744	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	363026	70443744	84826816	1101	42411										
NHSL2	340527	hgsc.bcm.edu;mdanderson.org	37	chrX	71360545	71360545	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	accaagtgtcccgccaccggCgatgacctgcaatcacttgg	10	15	1	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:71360545C>T	ENST00000373677.1	+	2	3311	c.2049C>T	c.(2047-2049)ggC>ggT	p.G683G	NHSL2_ENST00000510661.1_Silent_p.G818G|NHSL2_ENST00000535692.1_Silent_p.G683G|NHSL2_ENST00000540800.1_Silent_p.G1049G			Q5HYW2	NHSL2_HUMAN	NHS-like 2	683										NS(1)|breast(3)|endometrium(4)|kidney(2)|large_intestine(10)|lung(7)|stomach(1)	28	Renal(35;0.156)					CCGCCACCGGCGATGACCTGC	0.557																																																0													54	49	51					X																	71360545		2203	4300	6503	SO:0001819	synonymous_variant	340527					Xq13.1	2009-02-18			ENSG00000204131	ENSG00000204131			33737	protein-coding gene	gene with protein product							Standard	NM_001013627		Approved		uc011mqa.2	Q5HYW2	OTTHUMG00000021807	ENST00000373677.1:c.2049C>T	X.37:g.71360545C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RN94	Silent	SNP	ENST00000373677.1	37																																																																																					0.557	NHSL2-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000057170.1	NM_001013627		T	71360545	C	T	71360545	2	4	664	1	0	0	0	0	0	0	0	1	10419	755	27	1		1	NHSL2	23	71360545	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	916801	71360545	83910015	1102	42412										
ERCC6L	54821	broad.mit.edu	37	chrX	71425000	71425000	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	actcttttagttcttttccaCgctttacaagagtctcatag	5	10	3	1	rs140225715	byFrequency	TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:71425000C>T	ENST00000334463.3	-	2	3752	c.3617G>A	c.(3616-3618)cGt>cAt	p.R1206H	ERCC6L_ENST00000373657.1_Missense_Mutation_p.R1083H|PIN4_ENST00000423432.2_Intron	NM_017669.2	NP_060139.2	Q2NKX8	ERC6L_HUMAN	excision repair cross-complementation group 6-like	1206					mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	cytosol (GO:0005829)|kinetochore (GO:0000776)|membrane (GO:0016020)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)			breast(2)|cervix(1)|endometrium(9)|kidney(4)|large_intestine(9)|lung(9)|ovary(3)|skin(1)	38	Renal(35;0.156)					TTCTTTTCCACGCTTTACAAG	0.458													C|||	1	0.000264901	0.0008	0.0	3775	,	,		13090	0.0		0.0	False		,,,				2504	0.0															0								C	,HIS/ARG	8,3827		0,7,1,1625,570	91	78	83		,3617	2.8	0.2	X	dbSNP_134	83	0,6728		0,0,0,2428,1872	yes	intron,missense	PIN4,ERCC6L	NM_001170747.1,NM_017669.2	,29	0,7,1,4053,2442	TT,TC,T,CC,C		0.0,0.2086,0.0757	,benign	,1206/1251	71425000	8,10555	2203	4300	6503	SO:0001583	missense	54821			AK000112	CCDS35329.1	Xq13.1	2014-03-07	2014-03-07		ENSG00000186871	ENSG00000186871			20794	protein-coding gene	gene with protein product	"PLK1-interacting checkpoint helicase"	300687	"excision repair cross-complementing rodent repair deficiency, complementation group 6-like"			17218258	Standard	NM_017669		Approved	FLJ20105, PICH, RAD26L	uc004eaq.1	Q2NKX8	OTTHUMG00000021810	ENST00000334463.3:c.3617G>A	X.37:g.71425000C>T	ENSP00000334675:p.Arg1206His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NCI1|Q96H93|Q9NXQ8	Missense_Mutation	SNP	ENST00000334463.3	37	CCDS35329.1	.	.	.	.	.	.	.	.	.	.	C	11.48	1.650356	0.29336	0.002086	0.0	ENSG00000186871	ENST00000373657;ENST00000334463	T;T	0.76578	-1.03;-1.03	5.49	2.8	0.32819	Tetratricopeptide-like helical (1);Tetratricopeptide repeat-containing (1);	.	.	.	.	T	0.67373	0.2886	L	0.38531	1.155	0.09310	N	1	B	0.16802	0.019	B	0.10450	0.005	T	0.55667	-0.8105	9	0.48119	T	0.1	-0.5306	8.781	0.34792	0.0:0.7424:0.0:0.2576	.	1206	Q2NKX8	ERC6L_HUMAN	H	1083;1206	ENSP00000362761:R1083H;ENSP00000334675:R1206H	ENSP00000334675:R1206H	R	-	2	0	ERCC6L	71341725	0.010000	0.17322	0.226000	0.23910	0.687000	0.40016	0.450000	0.21762	0.161000	0.19458	-0.269000	0.10298	CGT		0.458	ERCC6L-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057174.2	NM_017669		T	71425000	C	T	71425000	3	4	664	1	0	0	0	0	1	0	0	0	5220	536	19	1	139	1	ERCC6L	23	71425000	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	64455	71425000	83845560	1103	42413										
SLC16A2	6567	broad.mit.edu;bcgsc.ca	37	chrX	73744294	73744294	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcctgggccactactttcaaCgccgcctgggtctggccaat	10	15	2	0	rs201194222		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:73744294C>T	ENST00000587091.1	+	3	853	c.676C>T	c.(676-678)Cgc>Tgc	p.R226C	SLC16A2_ENST00000276033.5_Missense_Mutation_p.R300C	NM_006517.4	NP_006508.2	P36021	MOT8_HUMAN	solute carrier family 16, member 2 (thyroid hormone transporter)	226					monocarboxylic acid transport (GO:0015718)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	monocarboxylic acid transmembrane transporter activity (GO:0008028)|symporter activity (GO:0015293)|transporter activity (GO:0005215)	p.R300C(1)		breast(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(4)|ovary(1)|skin(2)	21					L-Leucine(DB00149)|L-Tryptophan(DB00150)|L-Tyrosine(DB00135)|Levothyroxine(DB00451)|Liotrix(DB01583)|Pyruvic acid(DB00119)	CTACTTTCAACGCCGCCTGGG	0.547																																																1	Substitution - Missense(1)	endometrium(1)						C	CYS/ARG	1,3834		0,0,1,1632,570	110	83	92		898	5.8	1	X		92	1,6727		0,1,0,2427,1872	yes	missense	SLC16A2	NM_006517.3	180	0,1,1,4059,2442	TT,TC,T,CC,C		0.0149,0.0261,0.0189	probably-damaging	300/614	73744294	2,10561	2203	4300	6503	SO:0001583	missense	6567				CCDS14426.1, CCDS14426.2	Xq13.2	2013-05-22	2012-03-20		ENSG00000147100	ENSG00000147100		"Solute carriers"	10923	protein-coding gene	gene with protein product		300095	"solute carrier family 16 (monocarboxylic acid transporters), member 2 (putative transporter)", "Allan-Herndon-Dudley syndrome", "solute carrier family 16 (monocarboxylic acid transporters), member 2", "mental retardation, X-linked 22", "solute carrier family 16, member 2 (monocarboxylic acid transporter 8)"	DXS128, AHDS, MRX22		7981683, 12871948, 15889350	Standard	NM_006517		Approved	XPCT, MCT8, MCT7	uc031tjy.1	P36021	OTTHUMG00000021857	ENST00000587091.1:c.676C>T	X.37:g.73744294C>T	ENSP00000465734:p.Arg226Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z797	Missense_Mutation	SNP	ENST00000587091.1	37	CCDS14426.2	.	.	.	.	.	.	.	.	.	.	C	19.77	3.889751	0.72524	2.61E-4	1.49E-4	ENSG00000147100	ENST00000276033	T	0.58797	0.31	5.75	5.75	0.90469	Major facilitator superfamily domain, general substrate transporter (1);	0.321801	0.35235	N	0.003345	T	0.75547	0.3864	M	0.76838	2.35	0.53688	D	0.999975	D	0.89917	1.0	D	0.75020	0.985	T	0.78727	-0.2091	10	0.87932	D	0	.	13.8526	0.63506	0.1524:0.8475:0.0:0.0	.	226	P36021	MOT8_HUMAN	C	300	ENSP00000276033:R300C	ENSP00000276033:R300C	R	+	1	0	SLC16A2	73661019	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	3.506000	0.53364	2.420000	0.82092	0.597000	0.82753	CGC		0.547	SLC16A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057266.3			T	73744294	C	T	73744294	3	4	664	1	0	0	0	0	1	0	0	0	14421	536	19	1	908	1	SLC16A2	23	73744294	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	2319294	73744294	81526266	1104	42414										
ATRX	546	broad.mit.edu	37	chrX	76888847	76888847	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgtagcttctctcctgaggaCgtttcacagttgctaattca	8	10	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:76888847C>T	ENST00000373344.5	-	19	5196	c.4982G>A	c.(4981-4983)cGt>cAt	p.R1661H	ATRX_ENST00000480283.1_5'UTR|ATRX_ENST00000395603.3_Missense_Mutation_p.R1623H	NM_000489.3	NP_000480.3	P46100	ATRX_HUMAN	alpha thalassemia/mental retardation syndrome X-linked	1661	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				ATP catabolic process (GO:0006200)|cellular response to hydroxyurea (GO:0072711)|chromatin remodeling (GO:0006338)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA duplex unwinding (GO:0032508)|DNA methylation (GO:0006306)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|DNA replication-independent nucleosome assembly (GO:0006336)|forebrain development (GO:0030900)|negative regulation of telomeric RNA transcription from RNA pol II promoter (GO:1901581)|nucleosome assembly (GO:0006334)|positive regulation of nuclear cell cycle DNA replication (GO:0010571)|positive regulation of telomere maintenance (GO:0032206)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|replication fork processing (GO:0031297)|seminiferous tubule development (GO:0072520)|Sertoli cell development (GO:0060009)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|nuclear heterochromatin (GO:0005720)|nucleolus (GO:0005730)|nucleus (GO:0005634)|SWI/SNF superfamily-type complex (GO:0070603)|telomeric heterochromatin (GO:0031933)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|chromo shadow domain binding (GO:0070087)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)|DNA translocase activity (GO:0015616)|helicase activity (GO:0004386)|histone binding (GO:0042393)|methylated histone binding (GO:0035064)|zinc ion binding (GO:0008270)	p.?(1)		bone(1)|breast(6)|central_nervous_system(31)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(15)|kidney(14)|large_intestine(1)|liver(1)|lung(40)|ovary(2)|pancreas(13)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	145						CTCCTGAGGACGTTTCACAGT	0.363			"Mis, F, N"		"Pancreatic neuroendocrine tumors, paediatric GBM"		ATR-X (alpha thalassemia/mental retardation) syndrome																																Rec	yes		X	Xq21.1	546	alpha thalassemia/mental retardation syndrome X-linked	yes	E	1	Unknown(1)	bone(1)											209	202	204					X																	76888847		2203	4296	6499	SO:0001583	missense	546			U72937	CCDS14434.1, CCDS14435.1	Xq21.1	2014-06-17	2010-06-24		ENSG00000085224	ENSG00000085224			886	protein-coding gene	gene with protein product	"RAD54 homolog (S. cerevisiae)"	300032	"alpha thalassemia/mental retardation syndrome X-linked (RAD54 (S. cerevisiae) homolog)", "Juberg-Marsidi syndrome"	RAD54, JMS		7874112, 1415255, 8503439, 8630485	Standard	NM_000489		Approved	XH2, XNP	uc004ecp.4	P46100	OTTHUMG00000022686	ENST00000373344.5:c.4982G>A	X.37:g.76888847C>T	ENSP00000362441:p.Arg1661His	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTE2|P51068|Q15886|Q59FB5|Q59H31|Q5H9A2|Q5JWI4|Q7Z2J1|Q9H0Z1|Q9NTS3	Missense_Mutation	SNP	ENST00000373344.5	37	CCDS14434.1	.	.	.	.	.	.	.	.	.	.	C	16.26	3.073045	0.55646	.	.	ENSG00000085224	ENST00000373344;ENST00000395603	D;D	0.93763	-3.28;-3.28	5.83	5.83	0.93111	DEAD-like helicase (2);SNF2-related (1);	0.066342	0.56097	D	0.000024	D	0.93822	0.8024	L	0.59967	1.855	0.80722	D	1	P;P	0.45176	0.784;0.852	P;P	0.46825	0.528;0.52	D	0.94045	0.7313	10	0.62326	D	0.03	-6.8896	19.0151	0.92890	0.0:1.0:0.0:0.0	.	1623;1661	P46100-4;P46100	.;ATRX_HUMAN	H	1661;1623	ENSP00000362441:R1661H;ENSP00000378967:R1623H	ENSP00000362441:R1661H	R	-	2	0	ATRX	76775503	1.000000	0.71417	1.000000	0.80357	0.757000	0.42996	5.662000	0.68032	2.440000	0.82611	0.594000	0.82650	CGT		0.363	ATRX-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058860.2	NM_000489		T	76888847	C	T	76888847	3	4	664	1	0	0	0	0	1	0	0	0	1208	536	19	1	2564	1	ATRX	23	76888847	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	3144553	76888847	78381713	1105	42415										
HDX	139324	broad.mit.edu	37	chrX	83599463	83599463	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cttcttcgattcccaatccaAgtctttataagagaaatata	4	9	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:83599463A>C	ENST00000297977.5	-	6	1566	c.1455T>G	c.(1453-1455)acT>acG	p.T485T	HDX_ENST00000373177.2_Silent_p.T485T|HDX_ENST00000506585.2_Silent_p.T427T	NM_001177479.1|NM_144657.4	NP_001170950.1|NP_653258.2	Q7Z353	HDX_HUMAN	highly divergent homeobox	485						nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|endometrium(6)|kidney(2)|large_intestine(12)|liver(1)|lung(19)|ovary(1)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	48						TCCCAATCCAAGTCTTTATAA	0.373																																					Pancreas(53;231 1169 36156 43751 51139)											0													39	41	40					X																	83599463		2201	4292	6493	SO:0001819	synonymous_variant	139324			BX538112	CCDS35342.1, CCDS55456.1	Xq21.1	2012-03-09	2007-07-13	2007-07-13	ENSG00000165259	ENSG00000165259		"Homeoboxes / POU class"	26411	protein-coding gene	gene with protein product			"chromosome X open reading frame 43"	CXorf43			Standard	NM_144657		Approved	FLJ30678	uc004eek.2	Q7Z353	OTTHUMG00000021926	ENST00000297977.5:c.1455T>G	X.37:g.83599463A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1Y5|B7ZL18|Q5JZB4|Q96NK7	Silent	SNP	ENST00000297977.5	37	CCDS35342.1																																																																																				0.373	HDX-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057379.2	NM_144657		C	83599463	A	C	83599463	2	2	664	1	0	0	0	0	0	0	0	1	7033	59	3	5		5	HDX	23	83599463	Silent	SNP	A	TCGA-KN-8428-01A-11D-2310-10	6710616	83599463	71671097	1106	42416										
FAM199X	139231	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	103431192	103431192	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgagtactgagatgggtcttCgggagcaacttgatattatt	12	5	1	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:103431192C>T	ENST00000493442.1	+	4	785	c.619C>T	c.(619-621)Cgg>Tgg	p.R207W	FAM199X_ENST00000299906.5_3'UTR	NM_207318.3	NP_997201.1	Q6PEV8	F199X_HUMAN	family with sequence similarity 199, X-linked	207										breast(1)|cervix(1)|endometrium(1)|large_intestine(3)|lung(2)|ovary(1)|prostate(1)|skin(1)	11						GATGGGTCTTCGGGAGCAACT	0.358																																																0													132	122	126					X																	103431192		2203	4300	6503	SO:0001583	missense	139231			BC016683	CCDS35364.1	Xq22	2010-02-11	2010-02-11	2010-02-11	ENSG00000123575	ENSG00000123575			25195	protein-coding gene	gene with protein product			"chromosome X open reading frame 39"	CXorf39			Standard	NM_207318		Approved		uc004elw.3	Q6PEV8	OTTHUMG00000022126	ENST00000493442.1:c.619C>T	X.37:g.103431192C>T	ENSP00000417581:p.Arg207Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WVP6|Q96AV3	Missense_Mutation	SNP	ENST00000493442.1	37	CCDS35364.1	.	.	.	.	.	.	.	.	.	.	C	20.8	4.043222	0.75732	.	.	ENSG00000123575	ENST00000493442	.	.	.	4.86	4.86	0.63082	.	0.000000	0.85682	D	0.000000	T	0.76198	0.3954	M	0.62723	1.935	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.81914	0.995;0.988	T	0.76509	-0.2933	8	.	.	.	-8.1108	16.3372	0.83068	0.0:1.0:0.0:0.0	.	207;207	Q6PEV8-2;Q6PEV8	.;F199X_HUMAN	W	207	.	.	R	+	1	2	FAM199X	103317848	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	4.818000	0.62657	2.141000	0.66446	0.600000	0.82982	CGG		0.358	FAM199X-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057764.1	NM_207318		T	103431192	C	T	103431192	3	4	664	1	0	0	0	0	1	0	0	0	5534	875	31	1	633	1	FAM199X	23	103431192	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	19831729	103431192	51839368	1107	42417										
TEX13A	56157	broad.mit.edu	37	chrX	104463685	104463685	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	cagattcccttcccacagtcGaagcaagtatccctccgtga	7	15	0	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:104463685G>A	ENST00000413579.1	-	5	1302	c.1191C>T	c.(1189-1191)ttC>ttT	p.F397F	TEX13A_ENST00000372575.1_3'UTR|IL1RAPL2_ENST00000344799.4_Intron|TEX13A_ENST00000372578.3_3'UTR|IL1RAPL2_ENST00000372582.1_Intron			Q9BXU3	TX13A_HUMAN	testis expressed 13A	397							zinc ion binding (GO:0008270)			large_intestine(5)|ovary(2)|upper_aerodigestive_tract(1)	8						TCCCACAGTCGAAGCAAGTAT	0.478																																																0													173	163	166					X																	104463685		2072	4192	6264	SO:0001819	synonymous_variant	56157			AF285597	CCDS76005.1	Xq28	2012-04-20	2007-03-13		ENSG00000133149	ENSG00000268629			11735	protein-coding gene	gene with protein product		300312	"testis expressed sequence 13A"			11279525	Standard	NM_031274		Approved		uc004ema.3	Q9BXU3	OTTHUMG00000022133	ENST00000413579.1:c.1191C>T	X.37:g.104463685G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B1B1G8|Q32NB6	Silent	SNP	ENST00000413579.1	37																																																																																					0.478	TEX13A-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_031274		A	104463685	G	A	104463685	2	1	664	1	0	0	0	0	0	0	0	1	15788	1059	37	1		1	TEX13A	23	104463685	Silent	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1032493	104463685	50806875	1108	42418										
TBC1D8B	54885	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	106070529	106070529	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	caaaactcaggctcagatgcGgagcagcttcaactcaatat	8	11	4	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:106070529G>A	ENST00000357242.5	+	7	1339	c.1165G>A	c.(1165-1167)Gga>Aga	p.G389R	TBC1D8B_ENST00000310452.2_Missense_Mutation_p.G389R|TBC1D8B_ENST00000276175.3_Missense_Mutation_p.G389R|TBC1D8B_ENST00000481617.2_Missense_Mutation_p.G389R	NM_017752.2	NP_060222.2	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	389							calcium ion binding (GO:0005509)|Rab GTPase activator activity (GO:0005097)			NS(2)|breast(4)|central_nervous_system(1)|endometrium(3)|kidney(5)|large_intestine(6)|liver(4)|lung(15)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	47						GCTCAGATGCGGAGCAGCTTC	0.373																																																0													89	88	89					X																	106070529		2203	4299	6502	SO:0001583	missense	54885			AK123957	CCDS14522.1, CCDS14523.1	Xq22.3	2013-01-10			ENSG00000133138	ENSG00000133138		"EF-hand domain containing"	24715	protein-coding gene	gene with protein product						8889548	Standard	NM_017752		Approved	FLJ20298, RP11-321G1.1	uc004emo.3	Q0IIM8	OTTHUMG00000022152	ENST00000357242.5:c.1165G>A	X.37:g.106070529G>A	ENSP00000349781:p.Gly389Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B9A6K5|B9A6K6|Q5JRB7|Q6ZVX5|Q9NXE3	Missense_Mutation	SNP	ENST00000357242.5	37	CCDS14522.1	.	.	.	.	.	.	.	.	.	.	g	7.605	0.673622	0.14776	.	.	ENSG00000133138	ENST00000357242;ENST00000310452;ENST00000481617;ENST00000276175	T;T;T;T	0.22539	3.18;2.57;1.95;3.17	5.36	4.48	0.54585	.	0.188414	0.46145	N	0.000304	T	0.10809	0.0264	N	0.17474	0.49	0.30827	N	0.737095	B;B;B	0.14012	0.005;0.001;0.009	B;B;B	0.10450	0.003;0.001;0.005	T	0.22347	-1.0219	10	0.14656	T	0.56	-1.9774	6.6205	0.22800	0.1004:0.1854:0.7142:0.0	.	389;389;389	Q0IIM8;B9A6K6;D6RFZ2	TBC8B_HUMAN;.;.	R	389	ENSP00000349781:G389R;ENSP00000310675:G389R;ENSP00000421375:G389R;ENSP00000276175:G389R	ENSP00000276175:G389R	G	+	1	0	TBC1D8B	105957185	0.986000	0.35501	0.107000	0.21349	0.337000	0.28794	1.727000	0.38095	0.990000	0.38787	0.502000	0.49764	GGA		0.373	TBC1D8B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000057807.2	NM_017752		A	106070529	G	A	106070529	3	1	664	1	0	0	0	0	1	0	0	0	15638	1117	39	1	1191	1	TBC1D8B	23	106070529	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	1606844	106070529	49200031	1109	42419										
LRCH2	57631	hgsc.bcm.edu	37	chrX	114357360	114357360	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	catgaatactagcaacagaaCgtggccttatatgattggct	9	8	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:114357360C>T	ENST00000317135.8	-	19	2093	c.2063G>A	c.(2062-2064)cGt>cAt	p.R688H	LRCH2_ENST00000538422.1_Missense_Mutation_p.R671H	NM_020871.3	NP_065922.3	Q5VUJ6	LRCH2_HUMAN	leucine-rich repeats and calponin homology (CH) domain containing 2	688	CH. {ECO:0000255|PROSITE- ProRule:PRU00044}.									breast(1)|endometrium(4)|kidney(3)|large_intestine(3)|lung(6)|ovary(1)|prostate(1)	19						AGCAACAGAACGTGGCCTTAT	0.368																																																0													108	97	101					X																	114357360		1959	4150	6109	SO:0001583	missense	57631			AB040928	CCDS48155.1, CCDS59175.1	Xq24	2008-02-05			ENSG00000130224	ENSG00000130224			29292	protein-coding gene	gene with protein product						10819331	Standard	NM_020871		Approved	KIAA1495	uc010nqe.3	Q5VUJ6	OTTHUMG00000022233	ENST00000317135.8:c.2063G>A	X.37:g.114357360C>T	ENSP00000325091:p.Arg688His	Somatic		WXS	Illumina HiSeq	Phase_I	F5H2T1|Q08AD5|Q9HA88|Q9P233	Missense_Mutation	SNP	ENST00000317135.8	37	CCDS48155.1	.	.	.	.	.	.	.	.	.	.	C	23.8	4.463448	0.84425	.	.	ENSG00000130224	ENST00000317135;ENST00000536655;ENST00000538422	D;D	0.95069	-3.6;-3.6	5.39	5.39	0.77823	Calponin homology domain (5);	0.117372	0.64402	D	0.000015	D	0.97294	0.9115	M	0.83692	2.655	0.80722	D	1	D;D	0.89917	1.0;0.971	D;P	0.87578	0.998;0.8	D	0.97619	1.0134	10	0.59425	D	0.04	-7.9127	16.6315	0.85035	0.0:1.0:0.0:0.0	.	688;671	Q5VUJ6;F5H2T1	LRCH2_HUMAN;.	H	688;167;671	ENSP00000325091:R688H;ENSP00000439366:R671H	ENSP00000325091:R688H	R	-	2	0	LRCH2	114263616	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	7.320000	0.79064	2.499000	0.84300	0.422000	0.28245	CGT		0.368	LRCH2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000057971.2	NM_020871		T	114357360	C	T	114357360	3	4	664	1	0	0	0	0	1	0	0	0	8940	536	19	1	246	1	LRCH2	23	114357360	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	8286831	114357360	40913200	1110	42420										
IL13RA1	3597	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chrX	117907851	117907851	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tcattctccaggtaagaagcGcaattccacactctacataa	5	12	3	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:117907851G>A	ENST00000371666.3	+	9	1086	c.1019G>A	c.(1018-1020)cGc>cAc	p.R340H	IL13RA1_ENST00000371637.3_Missense_Mutation_p.R139H	NM_001560.2	NP_001551.1	P78552	I13R1_HUMAN	interleukin 13 receptor, alpha 1	340					cell surface receptor signaling pathway (GO:0007166)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of immunoglobulin production (GO:0002639)	interleukin-13 receptor complex (GO:0005898)|plasma membrane (GO:0005886)	interleukin-13 receptor activity (GO:0016515)			endometrium(2)|kidney(1)|large_intestine(2)|lung(7)	12						GGTAAGAAGCGCAATTCCACA	0.393																																																0													268	234	246					X																	117907851		2203	4300	6503	SO:0001583	missense	3597			U62858	CCDS14573.1	Xq24	2008-02-05			ENSG00000131724	ENSG00000131724		"Interleukins and interleukin receptors", "CD molecules"	5974	protein-coding gene	gene with protein product	"IL13 receptor alpha-1 chain", "CD213a1 antigen"	300119				8910586, 9013879	Standard	NM_001560		Approved	IL-13Ra, NR4, CD213a1	uc004eqs.3	P78552	OTTHUMG00000022258	ENST00000371666.3:c.1019G>A	X.37:g.117907851G>A	ENSP00000360730:p.Arg340His	Somatic		WXS	Illumina HiSeq	Phase_I	O95646|Q5JSL4|Q99656|Q9UDY5	Missense_Mutation	SNP	ENST00000371666.3	37	CCDS14573.1	.	.	.	.	.	.	.	.	.	.	G	13.31	2.198911	0.38806	.	.	ENSG00000131724	ENST00000371666;ENST00000371637	D	0.90620	-2.7	5.54	0.181	0.15073	.	1.672200	0.03378	N	0.199998	T	0.79575	0.4469	N	0.08118	0	0.09310	N	1	B;B	0.06786	0.001;0.001	B;B	0.04013	0.001;0.001	T	0.66622	-0.5877	10	0.38643	T	0.18	0.6536	3.5262	0.07760	0.39:0.3911:0.1338:0.0851	.	340;340	Q5JSL4;P78552	.;I13R1_HUMAN	H	340;139	ENSP00000360730:R340H	ENSP00000360700:R139H	R	+	2	0	IL13RA1	117791879	0.000000	0.05858	0.001000	0.08648	0.130000	0.20726	0.181000	0.16880	-0.027000	0.13873	-0.377000	0.06932	CGC		0.393	IL13RA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058009.1	NM_001560		A	117907851	G	A	117907851	3	1	664	1	0	0	0	0	1	0	0	0	7636	1087	38	1	1053	1	IL13RA1	23	117907851	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	3550491	117907851	37362709	1111	42421										
DCAF12L2	340578	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	125299514	125299514	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gtcccgcatgagggggatgcGcgtgatgtggcctgactgca	17	10	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:125299514G>A	ENST00000360028.2	-	1	420	c.394C>T	c.(394-396)Cgc>Tgc	p.R132C	DCAF12L2_ENST00000538699.1_Missense_Mutation_p.R132C			Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	132										NS(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(11)|lung(36)|ovary(2)|pancreas(1)|skin(2)|upper_aerodigestive_tract(3)	64						AGGGGGATGCGCGTGATGTGG	0.637																																																0													87	80	83					X																	125299514		2203	4300	6503	SO:0001583	missense	340578			AL445072	CCDS43991.1	Xq25	2013-01-09	2009-07-17	2009-07-17	ENSG00000198354	ENSG00000198354		"WD repeat domain containing"	32950	protein-coding gene	gene with protein product			"WD repeat domain 40C"	WDR40C			Standard	NM_001013628		Approved		uc004euk.2	Q5VW00	OTTHUMG00000022348	ENST00000360028.2:c.394C>T	X.37:g.125299514G>A	ENSP00000353128:p.Arg132Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN42	Missense_Mutation	SNP	ENST00000360028.2	37	CCDS43991.1	.	.	.	.	.	.	.	.	.	.	g	9.379	1.072568	0.20147	.	.	ENSG00000198354	ENST00000538699;ENST00000360028	T;T	0.38401	1.14;1.14	3.89	2.03	0.26663	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);	.	.	.	.	T	0.42921	0.1224	M	0.67953	2.075	0.09310	N	1	D	0.67145	0.996	P	0.50791	0.65	T	0.23511	-1.0186	9	0.49607	T	0.09	.	7.8811	0.29623	0.0:0.0:0.5518:0.4482	.	132	Q5VW00	DC122_HUMAN	C	132	ENSP00000441489:R132C;ENSP00000353128:R132C	ENSP00000353128:R132C	R	-	1	0	DCAF12L2	125127195	1.000000	0.71417	0.000000	0.03702	0.001000	0.01503	3.290000	0.51755	0.396000	0.25283	-0.337000	0.08149	CGC		0.637	DCAF12L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058181.1	NM_001013628		A	125299514	G	A	125299514	3	1	664	1	0	0	0	0	1	0	0	0	4267	1087	38	1	1001	1	DCAF12L2	23	125299514	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	7391663	125299514	29971046	1112	42422										
BCORL1	63035	mdanderson.org;bcgsc.ca	37	chrX	129190044	129190044	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ctctgagactgtggagctggTgcggtacgagccagacctac	14	11	1	2			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:129190044T>C	ENST00000218147.7	+	13	5266	c.5069T>C	c.(5068-5070)gTg>gCg	p.V1690A	BCORL1_ENST00000303743.5_Missense_Mutation_p.V1764A|BCORL1_ENST00000540052.1_Missense_Mutation_p.V1690A|BCORL1_ENST00000359304.2_Missense_Mutation_p.V1560A			Q5H9F3	BCORL_HUMAN	BCL6 corepressor-like 1	1690					chromatin modification (GO:0016568)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(4)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(9)|liver(3)|lung(30)|ovary(7)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	75						GTGGAGCTGGTGCGGTACGAG	0.607																																																0													40	39	40					X																	129190044		2203	4300	6503	SO:0001583	missense	63035			AL136450	CCDS14616.1	Xq25-q26.1	2014-09-17	2010-06-10		ENSG00000085185	ENSG00000085185		"Ankyrin repeat domain containing"	25657	protein-coding gene	gene with protein product		300688	"chromosome X open reading frame 10", "BCL6 co-repressor-like 1"	CXorf10			Standard	NM_021946		Approved	FLJ11362	uc022cdu.1	Q5H9F3	OTTHUMG00000022379	ENST00000218147.7:c.5069T>C	X.37:g.129190044T>C	ENSP00000218147:p.Val1690Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDQ8|Q5H9F2|Q5H9F4|Q6ZVE0|Q8TEN3|Q9Y528	Missense_Mutation	SNP	ENST00000218147.7	37	CCDS14616.1	.	.	.	.	.	.	.	.	.	.	t	20.8	4.048561	0.75846	.	.	ENSG00000085185	ENST00000218147;ENST00000303743;ENST00000359304;ENST00000540052;ENST00000456822	T;T;T;T;T	0.55413	0.54;0.52;0.56;0.54;0.55	4.85	4.85	0.62838	.	0.000000	0.31507	N	0.007529	T	0.65123	0.2661	M	0.65975	2.015	0.50313	D	0.999861	D;D	0.63880	0.971;0.993	P;P	0.56960	0.697;0.81	T	0.70096	-0.4966	10	0.87932	D	0	-11.4851	13.6255	0.62161	0.0:0.0:0.0:1.0	.	1764;1690	Q5H9F3-3;Q5H9F3	.;BCORL_HUMAN	A	1690;1764;1560;1690;1364	ENSP00000218147:V1690A;ENSP00000307541:V1764A;ENSP00000352253:V1560A;ENSP00000437775:V1690A;ENSP00000399483:V1364A	ENSP00000218147:V1690A	V	+	2	0	BCORL1	129017725	1.000000	0.71417	0.997000	0.53966	0.875000	0.50365	7.163000	0.77524	1.790000	0.52503	0.414000	0.27820	GTG		0.607	BCORL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058223.1	NM_021946		C	129190044	T	C	129190044	3	2	664	1	0	0	0	0	1	0	0	0	1387	1696	59	3	5341	3	BCORL1	23	129190044	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	3890530	129190044	26080516	1113	42423										
ZNF280C	55609	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	129363022	129363022	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	agggtgtgggatattgccggTaacagtgctggcaggtggtg	19	5	0	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:129363022T>C	ENST00000370978.4	-	10	1229	c.1076A>G	c.(1075-1077)tAc>tGc	p.Y359C		NM_017666.4	NP_060136.1	Q8ND82	Z280C_HUMAN	zinc finger protein 280C	359					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(3)|kidney(4)|large_intestine(9)|lung(6)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	26						ATATTGCCGGTAACAGTGCTG	0.438																																																0													382	281	315					X																	129363022		2203	4300	6503	SO:0001583	missense	55609			AL834333	CCDS14622.1	Xq25	2008-05-02	2007-09-20	2007-09-20	ENSG00000056277	ENSG00000056277			25955	protein-coding gene	gene with protein product			"suppressor of hairy wing homolog 3 (Drosophila)"	SUHW3		12477932	Standard	NM_017666		Approved	FLJ20095, ZNF633	uc004evm.3	Q8ND82	OTTHUMG00000022393	ENST00000370978.4:c.1076A>G	X.37:g.129363022T>C	ENSP00000360017:p.Tyr359Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2V8|Q9NXR3	Missense_Mutation	SNP	ENST00000370978.4	37	CCDS14622.1	.	.	.	.	.	.	.	.	.	.	t	16.18	3.051089	0.55218	.	.	ENSG00000056277	ENST00000066465;ENST00000370978;ENST00000447817	T;T	0.05855	4.24;3.38	4.12	4.12	0.48240	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (1);	.	.	.	.	T	0.17238	0.0414	L	0.50333	1.59	0.33810	D	0.627693	D;D	0.89917	1.0;1.0	D;D	0.79108	0.982;0.992	T	0.10706	-1.0618	9	0.48119	T	0.1	.	10.3849	0.44134	0.0:0.0:0.0:1.0	.	359;359	Q9UJJ2;Q8ND82	.;Z280C_HUMAN	C	359	ENSP00000360017:Y359C;ENSP00000408521:Y359C	ENSP00000066465:Y359C	Y	-	2	0	ZNF280C	129190703	1.000000	0.71417	1.000000	0.80357	0.851000	0.48451	2.917000	0.48821	1.647000	0.50633	0.422000	0.28245	TAC		0.438	ZNF280C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058251.1	NM_017666		C	129363022	T	C	129363022	3	2	664	1	0	0	0	0	1	0	0	0	17828	1638	57	3	1177	3	ZNF280C	23	129363022	Missense_Mutation	SNP	T	TCGA-KN-8428-01A-11D-2310-10	172978	129363022	25907538	1114	42424										
ENOX2	10495	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	129804011	129804011	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	tgggggtggagatggtggacGcaatctttcttcttccattc	13	8	3	1	rs143816261		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:129804011G>A	ENST00000370927.1	-	5	730	c.709C>T	c.(709-711)Cgt>Tgt	p.R237C	ENOX2_ENST00000370935.1_Missense_Mutation_p.R208C|ENOX2_ENST00000338144.3_Missense_Mutation_p.R237C|ENOX2_ENST00000394363.1_Missense_Mutation_p.R208C			Q16206	ENOX2_HUMAN	ecto-NOX disulfide-thiol exchanger 2	237					cell growth (GO:0016049)|oxidation-reduction process (GO:0055114)|regulation of growth (GO:0040008)|ultradian rhythm (GO:0007624)	cytosol (GO:0005829)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)	nucleic acid binding (GO:0003676)|nucleotide binding (GO:0000166)|protein disulfide oxidoreductase activity (GO:0015035)			breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(17)|ovary(1)|prostate(3)	33						GATGGTGGACGCAATCTTTCT	0.463													G|||	5	0.0013245	0.0	0.0	3775	,	,		15898	0.005		0.0	False		,,,				2504	0.0				Ovarian(101;828 1506 2951 9500 35258)											0													229	173	192					X																	129804011		2203	4300	6503	SO:0001583	missense	10495			AF207881	CCDS14626.1, CCDS14627.1	Xq25	2013-02-12	2007-03-23	2007-03-23	ENSG00000165675	ENSG00000165675		"RNA binding motif (RRM) containing"	2259	protein-coding gene	gene with protein product		300282	"cytosolic ovarian carcinoma antigen 1"	COVA1		8150545, 11888291	Standard	NM_006375		Approved	APK1, tNOX	uc004evw.3	Q16206	OTTHUMG00000022401	ENST00000370927.1:c.709C>T	X.37:g.129804011G>A	ENSP00000359965:p.Arg237Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K197|A8K1C2|Q5VTJ1|Q5VTJ2|Q8WUX0|Q9NTP6|Q9UH82	Missense_Mutation	SNP	ENST00000370927.1	37	CCDS14626.1	5	0.0030138637733574444	0	0.0	0	0.0	3	0.00528169014084507	0	0.0	G	21.1	4.093527	0.76756	.	.	ENSG00000165675	ENST00000538435;ENST00000370935;ENST00000338144;ENST00000394363;ENST00000350369;ENST00000370927;ENST00000432489	.	.	.	5.31	5.31	0.75309	.	0.063433	0.64402	D	0.000004	T	0.68550	0.3013	M	0.76574	2.34	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.66497	0.944;0.944	T	0.73962	-0.3817	8	.	.	.	-5.4965	10.2292	0.43245	0.0:0.0:0.803:0.197	.	237;265	Q16206;A4QPE1	ENOX2_HUMAN;.	C	208;208;237;208;265;237;208	.	.	R	-	1	0	ENOX2	129631692	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.896000	0.63222	2.463000	0.83235	0.600000	0.82982	CGT		0.463	ENOX2-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000058277.1	NM_182314		A	129804011	G	A	129804011	3	1	664	1	0	0	0	0	1	0	0	0	5129	1087	38	1	1159	1	ENOX2	23	129804011	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	440989	129804011	25466549	1115	42425										
ATP11C	286410	broad.mit.edu;mdanderson.org	37	chrX	138884415	138884415	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttgtagaggtcaggttgaggCtgttcacattcaattgctgc	12	7	3	2	rs376810884		TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:138884415C>T	ENST00000327569.3	-	7	746	c.648G>A	c.(646-648)caG>caA	p.Q216Q	ATP11C_ENST00000370543.1_Silent_p.Q216Q|ATP11C_ENST00000361648.2_Silent_p.Q216Q|ATP11C_ENST00000359686.2_Silent_p.Q216Q|ATP11C_ENST00000370557.1_Silent_p.Q213Q	NM_173694.4	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C	216					ion transmembrane transport (GO:0034220)|phospholipid translocation (GO:0045332)|positive regulation of B cell differentiation (GO:0045579)|pre-B cell differentiation (GO:0002329)|transmembrane transport (GO:0055085)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			breast(2)|central_nervous_system(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(15)|lung(31)|ovary(5)|prostate(1)|skin(3)	75	Acute lymphoblastic leukemia(192;0.000127)					CAGGTTGAGGCTGTTCACATT	0.423																																																0								C	,	0,3835		0,0,1632,571	286	228	247		648,648	3.9	1	X		247	1,6727		0,1,2427,1872	no	coding-synonymous,coding-synonymous	ATP11C	NM_001010986.2,NM_173694.4	,	0,1,4059,2443	TT,TC,CC,C		0.0149,0.0,0.0095	,	216/1120,216/1133	138884415	1,10562	2203	4300	6503	SO:0001819	synonymous_variant	286410			AJ580094	CCDS14668.1, CCDS35410.1	Xq27.1	2011-06-09	2007-09-19		ENSG00000101974	ENSG00000101974		"ATPases / P-type"	13554	protein-coding gene	gene with protein product		300516	"ATPase, Class VI, type 11C"			11015572	Standard	NM_173694		Approved	ATPIG, ATPIQ	uc004faz.3	Q8NB49	OTTHUMG00000022538	ENST00000327569.3:c.648G>A	X.37:g.138884415C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JT69|Q5JT70|Q5JT71|Q5JT72|Q5JT73|Q6ZND5|Q6ZU50|Q6ZUP7|Q70IJ9|Q70IK0|Q8WX24	Silent	SNP	ENST00000327569.3	37	CCDS14668.1																																																																																				0.423	ATP11C-008	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000354945.1	NM_173694		T	138884415	C	T	138884415	2	4	664	1	0	0	0	0	0	0	0	1	1121	796	28	2		2	ATP11C	23	138884415	Silent	SNP	C	TCGA-KN-8428-01A-11D-2310-10	9080404	138884415	16386145	1116	42426										
FMR1	2332	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	147011711	147011711	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	catgcactttcggagtctgcGcactaagttgtctctgataa	9	10	2	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:147011711G>A	ENST00000370475.4	+	7	706	c.578G>A	c.(577-579)cGc>cAc	p.R193H	FMR1_ENST00000440235.2_5'Flank|FMR1_ENST00000439526.2_Missense_Mutation_p.R193H|FMR1_ENST00000218200.8_Missense_Mutation_p.R193H|FMR1_ENST00000370470.1_Missense_Mutation_p.R193H|FMR1_ENST00000334557.6_Missense_Mutation_p.R193H|FMR1_ENST00000370471.3_Missense_Mutation_p.R193H|FMR1_ENST00000370477.1_Missense_Mutation_p.R193H	NM_002024.5	NP_002015.1	Q06787	FMR1_HUMAN	fragile X mental retardation 1	193					central nervous system development (GO:0007417)|mRNA transport (GO:0051028)|negative regulation of translational initiation (GO:0045947)	cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytoplasmic stress granule (GO:0010494)|dendritic shaft (GO:0043198)|dendritic spine (GO:0043197)|membrane (GO:0016020)|mRNA cap binding complex (GO:0005845)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|synapse (GO:0045202)	mRNA binding (GO:0003729)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)	p.R193H(1)		NS(1)|breast(1)|endometrium(7)|kidney(1)|large_intestine(8)|lung(13)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)	35	Acute lymphoblastic leukemia(192;6.56e-05)					CGGAGTCTGCGCACTAAGTTG	0.408									Fragile X syndrome																																							1	Substitution - Missense(1)	NS(1)											141	117	125					X																	147011711		2203	4300	6503	SO:0001583	missense	2332	Familial Cancer Database	Martin-Bell syndrome, FRAXA syndrome	X69962	CCDS14682.1, CCDS55518.1, CCDS55519.1, CCDS76039.1	Xq27.3	2014-09-17			ENSG00000102081	ENSG00000102081			3775	protein-coding gene	gene with protein product		309550	"premature ovarian failure 1"	POF1, POF		1572655	Standard	NM_002024		Approved	FMRP, FRAXA, MGC87458	uc010nst.3	Q06787	OTTHUMG00000022606	ENST00000370475.4:c.578G>A	X.37:g.147011711G>A	ENSP00000359506:p.Arg193His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNH4|D3DWT0|D3DWT1|D3DWT2|G8JL90|Q16578|Q5PQZ6|Q99054	Missense_Mutation	SNP	ENST00000370475.4	37	CCDS14682.1	.	.	.	.	.	.	.	.	.	.	G	25.4	4.631865	0.87660	.	.	ENSG00000102081	ENST00000218200;ENST00000370471;ENST00000370477;ENST00000370475;ENST00000334557;ENST00000439526;ENST00000370470	T;T;T;T;T;T;T	0.61627	0.86;0.09;0.9;0.88;1.18;0.9;0.92	5.06	5.06	0.68205	.	0.000000	0.85682	D	0.000000	T	0.78935	0.4362	M	0.85542	2.76	0.80722	D	1	D;D;D;D;D	0.89917	0.998;0.998;1.0;1.0;1.0	P;D;D;D;D	0.85130	0.858;0.924;0.994;0.997;0.997	T	0.83127	-0.0115	10	0.87932	D	0	-20.2599	16.6447	0.85173	0.0:0.0:1.0:0.0	.	193;193;109;193;193	Q8IXW7;Q06787;Q59GC1;Q06787-8;G3V0J0	.;FMR1_HUMAN;.;.;.	H	193	ENSP00000218200:R193H;ENSP00000359502:R193H;ENSP00000359508:R193H;ENSP00000359506:R193H;ENSP00000355115:R193H;ENSP00000395923:R193H;ENSP00000359501:R193H	ENSP00000218200:R193H	R	+	2	0	FMR1	146819403	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.679000	0.98649	2.221000	0.72209	0.600000	0.82982	CGC		0.408	FMR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058655.1	NM_002024		A	147011711	G	A	147011711	3	1	664	1	0	0	0	0	1	0	0	0	5967	1087	38	1	604	1	FMR1	23	147011711	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	8127296	147011711	8258849	1117	42427										
DUSP9	1852	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	152915503	152915503	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	gggtcagccgttctgtcaccGtcactgtggcctacctcatg	11	14	5	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:152915503G>A	ENST00000342782.3	+	4	1163	c.898G>A	c.(898-900)Gtc>Atc	p.V300I	DUSP9_ENST00000370167.4_Missense_Mutation_p.V300I			Q99956	DUS9_HUMAN	dual specificity phosphatase 9	300	Tyrosine-protein phosphatase.				inactivation of MAPK activity (GO:0000188)|JNK cascade (GO:0007254)|protein dephosphorylation (GO:0006470)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	MAP kinase tyrosine/serine/threonine phosphatase activity (GO:0017017)|phosphoprotein phosphatase activity (GO:0004721)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(9)|ovary(2)|prostate(1)	16	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TTCTGTCACCGTCACTGTGGC	0.582																																																0													247	211	223					X																	152915503		2203	4300	6503	SO:0001583	missense	1852			Y08302	CCDS14724.1	Xq28	2011-06-09			ENSG00000130829	ENSG00000130829		"Protein tyrosine phosphatases / Class I Cys-based PTPs : MAP kinase phosphatases"	3076	protein-coding gene	gene with protein product	"map kinase phosphatase 4"	300134				9030581, 9286695	Standard	NM_001395		Approved	MKP-4, MKP4	uc004fhx.4	Q99956	OTTHUMG00000024211	ENST00000342782.3:c.898G>A	X.37:g.152915503G>A	ENSP00000345853:p.Val300Ile	Somatic		WXS	Illumina HiSeq	Phase_I	D3DWU5	Missense_Mutation	SNP	ENST00000342782.3	37	CCDS14724.1	.	.	.	.	.	.	.	.	.	.	g	21.6	4.173822	0.78452	.	.	ENSG00000130829	ENST00000370167;ENST00000342782	D;D	0.86030	-2.06;-2.06	4.94	4.05	0.47172	Dual specificity phosphatase, catalytic domain (1);Protein-tyrosine/Dual-specificity phosphatase (1);Dual specificity phosphatase, subgroup, catalytic domain (2);	0.233047	0.28077	N	0.016699	T	0.79644	0.4481	N	0.11651	0.15	0.52099	D	0.999946	P	0.43578	0.811	P	0.53006	0.715	T	0.75639	-0.3248	10	0.21014	T	0.42	.	13.1079	0.59257	0.0:0.1585:0.8415:0.0	.	300	Q99956	DUS9_HUMAN	I	300	ENSP00000359186:V300I;ENSP00000345853:V300I	ENSP00000345853:V300I	V	+	1	0	DUSP9	152568697	1.000000	0.71417	0.800000	0.32199	0.866000	0.49608	7.582000	0.82546	1.036000	0.39998	0.529000	0.55759	GTC		0.582	DUSP9-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000061022.3	NM_001395		A	152915503	G	A	152915503	3	1	664	1	0	0	0	0	1	0	0	0	4834	1145	40	1	908	1	DUSP9	23	152915503	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	5903792	152915503	2355057	1118	42428										
PLXNB3	5365	broad.mit.edu	37	chrX	153037418	153037418	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	atgtgcagtacgccgtgagcGtggccagccggccctgcaac	14	14	0	1			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:153037418G>A	ENST00000361971.5	+	15	2731	c.2617G>A	c.(2617-2619)Gtg>Atg	p.V873M	PLXNB3_ENST00000538543.1_3'UTR|PLXNB3_ENST00000538966.1_Missense_Mutation_p.V896M|PLXNB3_ENST00000538282.1_Missense_Mutation_p.V483M|PLXNB3_ENST00000538776.1_Missense_Mutation_p.V526M	NM_005393.2	NP_005384.2	Q9ULL4	PLXB3_HUMAN	plexin B3	873	IPT/TIG 1.				axon guidance (GO:0007411)|cell chemotaxis (GO:0060326)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell migration (GO:0030336)|negative regulation of GTPase activity (GO:0034260)|negative regulation of lamellipodium assembly (GO:0010593)|positive chemotaxis (GO:0050918)|positive regulation of endothelial cell proliferation (GO:0001938)|semaphorin-plexin signaling pathway (GO:0071526)	integral component of membrane (GO:0016021)|intracellular (GO:0005622)|plasma membrane (GO:0005886)	protein domain specific binding (GO:0019904)|semaphorin receptor activity (GO:0017154)			central_nervous_system(1)|endometrium(7)|large_intestine(2)|lung(15)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	32	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CGCCGTGAGCGTGGCCAGCCG	0.697																																																0													39	35	36					X																	153037418		2195	4292	6487	SO:0001583	missense	5365			AF149019	CCDS14729.1, CCDS55536.1	Xq28	2008-02-05			ENSG00000198753	ENSG00000198753		"Plexins"	9105	protein-coding gene	gene with protein product		300214		PLXN6		10520995	Standard	NM_005393		Approved	PLEXR, PLEXB3	uc010nuk.2	Q9ULL4	OTTHUMG00000024217	ENST00000361971.5:c.2617G>A	X.37:g.153037418G>A	ENSP00000355378:p.Val873Met	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3E6|F5H773|Q9HDA4	Missense_Mutation	SNP	ENST00000361971.5	37	CCDS14729.1	.	.	.	.	.	.	.	.	.	.	G	17.55	3.416537	0.62511	.	.	ENSG00000198753	ENST00000538966;ENST00000361971;ENST00000538776;ENST00000538282	T;T;T;T	0.79454	-1.27;-1.27;-1.27;-1.27	4.96	4.96	0.65561	Cell surface receptor IPT/TIG (2);Immunoglobulin E-set (1);Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	D	0.87281	0.6138	M	0.76433	2.335	0.58432	D	0.999997	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.91635	0.997;0.984;0.997;0.999	D	0.88962	0.3394	10	0.87932	D	0	.	14.6355	0.68686	0.0:0.0:1.0:0.0	.	526;555;896;873	B7Z3H9;B7Z9A5;F5H773;Q9ULL4	.;.;.;PLXB3_HUMAN	M	896;873;526;483	ENSP00000442736:V896M;ENSP00000355378:V873M;ENSP00000445569:V526M;ENSP00000441919:V483M	ENSP00000355378:V873M	V	+	1	0	PLXNB3	152690612	1.000000	0.71417	0.892000	0.35008	0.041000	0.13682	7.691000	0.84191	2.035000	0.60131	0.513000	0.50165	GTG		0.697	PLXNB3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000061063.1			A	153037418	G	A	153037418	3	1	664	1	0	0	0	0	1	0	0	0	12132	1145	40	1	2789	1	PLXNB3	23	153037418	Missense_Mutation	SNP	G	TCGA-KN-8428-01A-11D-2310-10	121915	153037418	2233142	1119	42429										
MECP2	4204	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	153296438	153296438	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ggctttctttttggcctcggCggcagcggctgccaccacac	12	15	1	0			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:153296438C>T	ENST00000303391.6	-	4	1090	c.841G>A	c.(841-843)Gcc>Acc	p.A281T	MECP2_ENST00000453960.2_Missense_Mutation_p.A293T|MECP2_ENST00000460227.1_5'Flank	NM_004992.3	NP_004983.1	P51608	MECP2_HUMAN	methyl CpG binding protein 2	281					adult locomotory behavior (GO:0008344)|behavioral fear response (GO:0001662)|cardiolipin metabolic process (GO:0032048)|catecholamine secretion (GO:0050432)|cerebellum development (GO:0021549)|chromatin silencing (GO:0006342)|dendrite development (GO:0016358)|glucocorticoid metabolic process (GO:0008211)|glutamine metabolic process (GO:0006541)|histone acetylation (GO:0016573)|histone methylation (GO:0016571)|inositol metabolic process (GO:0006020)|long-term memory (GO:0007616)|long-term synaptic potentiation (GO:0060291)|mitochondrial electron transport, ubiquinol to cytochrome c (GO:0006122)|negative regulation of histone acetylation (GO:0035067)|negative regulation of histone methylation (GO:0031061)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neurological system process involved in regulation of systemic arterial blood pressure (GO:0001976)|neuron maturation (GO:0042551)|pathogenesis (GO:0009405)|phosphatidylcholine metabolic process (GO:0046470)|positive regulation of cell proliferation (GO:0008284)|positive regulation of synapse assembly (GO:0051965)|positive regulation of transcription, DNA-templated (GO:0045893)|post-embryonic development (GO:0009791)|proprioception (GO:0019230)|protein localization (GO:0008104)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of gene expression by genetic imprinting (GO:0006349)|regulation of respiratory gaseous exchange by neurological system process (GO:0002087)|respiratory gaseous exchange (GO:0007585)|response to hypoxia (GO:0001666)|sensory perception of pain (GO:0019233)|social behavior (GO:0035176)|startle response (GO:0001964)|synapse assembly (GO:0007416)|transcription, DNA-templated (GO:0006351)|ventricular system development (GO:0021591)|visual learning (GO:0008542)	cytosol (GO:0005829)|extracellular space (GO:0005615)|heterochromatin (GO:0000792)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|double-stranded methylated DNA binding (GO:0010385)|methyl-CpG binding (GO:0008327)|mRNA binding (GO:0003729)|poly(A) RNA binding (GO:0044822)|protein domain specific binding (GO:0019904)|protein N-terminus binding (GO:0047485)|sequence-specific DNA binding transcription factor activity (GO:0003700)|siRNA binding (GO:0035197)|transcription corepressor activity (GO:0003714)			breast(2)|cervix(2)|endometrium(2)|kidney(3)|large_intestine(3)|lung(8)|prostate(2)|urinary_tract(1)	23	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					TTGGCCTCGGCGGCAGCGGCT	0.612																																																0													48	49	48					X																	153296438		2195	4279	6474	SO:0001583	missense	4204			AF158180	CCDS14741.1, CCDS48193.1	Xq28	2014-09-17	2014-06-18		ENSG00000169057	ENSG00000169057			6990	protein-coding gene	gene with protein product		300005	"mental retardation, X-linked 16", "mental retardation, X-linked 79", "Rett syndrome", "methyl CpG binding protein 2 (Rett syndrome)"	RTT, MRX16, MRX79		1606614, 10508514	Standard	NM_004992		Approved		uc004fjw.2	P51608	OTTHUMG00000024229	ENST00000303391.6:c.841G>A	X.37:g.153296438C>T	ENSP00000301948:p.Ala281Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O15233|Q6QHH9|Q7Z384	Missense_Mutation	SNP	ENST00000303391.6	37	CCDS14741.1	.	.	.	.	.	.	.	.	.	.	C	11.29	1.595254	0.28445	.	.	ENSG00000169057	ENST00000303391;ENST00000545451;ENST00000453960	D;D	0.91945	-2.94;-2.93	5.06	5.06	0.68205	.	0.273357	0.41001	D	0.000965	T	0.81683	0.4874	N	0.19112	0.55	0.80722	D	1	P;P	0.49253	0.82;0.921	B;B	0.32762	0.152;0.129	T	0.82571	-0.0391	10	0.08837	T	0.75	-13.0911	16.204	0.82108	0.0:1.0:0.0:0.0	.	293;281	P51608-2;P51608	.;MECP2_HUMAN	T	281;281;293	ENSP00000301948:A281T;ENSP00000395535:A293T	ENSP00000301948:A281T	A	-	1	0	MECP2	152949632	0.756000	0.28383	0.130000	0.21974	0.767000	0.43475	2.124000	0.42006	2.344000	0.79699	0.600000	0.82982	GCC		0.612	MECP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000061144.1	NM_004992		T	153296438	C	T	153296438	3	4	664	1	0	0	0	0	1	0	0	0	9430	768	27	1	623	1	MECP2	23	153296438	Missense_Mutation	SNP	C	TCGA-KN-8428-01A-11D-2310-10	259020	153296438	1974122	1120	42430										
F8	2157	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	154197604	154197604	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0134649910233393	15	1	0.152445659322395	2.07326096678457	0.133427685981185	0.000361402876274473	0.0722953517071164	0	ttttaaagatccaagatattAccatgttggtgggaagagat	10	4	0	3			TCGA-KN-8428-01A-11D-2310-10	TCGA-KN-8428-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	322f0b01-2118-4dbe-aba1-3875a54ee71b	7a9405f5-81bf-4879-abfe-2688b8f3ca93	g.chrX:154197604A>G	ENST00000360256.4	-	7	1210		c.e7+1		F8_ENST00000483822.1_5'Flank	NM_000132.3	NP_000123.1	P00451	FA8_HUMAN	coagulation factor VIII, procoagulant component						acute-phase response (GO:0006953)|blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|cell adhesion (GO:0007155)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|plasma membrane (GO:0005886)|platelet alpha granule lumen (GO:0031093)	copper ion binding (GO:0005507)|oxidoreductase activity (GO:0016491)|serine-type endopeptidase activity (GO:0004252)			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(3)|kidney(6)|large_intestine(27)|liver(1)|lung(47)|ovary(5)|pancreas(3)|prostate(1)|skin(5)|upper_aerodigestive_tract(5)|urinary_tract(2)	120	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	CCAAGATATTACCATGTTGGT	0.358																																																0													70	63	66					X																	154197604		2203	4300	6503	SO:0001630	splice_region_variant	2157			M90707	CCDS35457.1, CCDS44026.1	Xq28	2014-09-17	2008-07-29		ENSG00000185010	ENSG00000185010			3546	protein-coding gene	gene with protein product	"Factor VIIIF8B", "hemophilia A"	300841		F8C		6438528, 3935400	Standard	NM_000132		Approved	FVIII, DXS1253E, HEMA	uc004fmt.3	P00451	OTTHUMG00000022688	ENST00000360256.4:c.1009+1T>C	X.37:g.154197604A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q14286|Q5HY69	Splice_Site	SNP	ENST00000360256.4	37	CCDS35457.1	.	.	.	.	.	.	.	.	.	.	A	15.84	2.952972	0.53293	.	.	ENSG00000185010	ENST00000360256	.	.	.	5.65	5.65	0.86999	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	12.1694	0.54148	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	F8	153850798	1.000000	0.71417	0.997000	0.53966	0.645000	0.38454	6.308000	0.72820	1.894000	0.54839	0.441000	0.28932	.		0.358	F8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058869.4		Intron	G	154197604	A	G	154197604	5	3	664	1	0	0	0	0	0	0	1	0	5352	405	14	3	6152	3	F8	23	154197604	Splice_Site	SNP	A	TCGA-KN-8428-01A-11D-2310-10	901166	154197604	1072956	1121	42431										
AGRN	375790	broad.mit.edu	37	chr1	983488	983489	+	In_Frame_Ins	INS	-	-	CCA													0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	tcgcgcctgccgtcctctgcINStgtgacccctcgggccccgc							TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr1:983488_983489insCCA	ENST00000379370.2	+	23	3898_3899	c.3848_3849insCCA	c.(3847-3852)gctgtg>gcCCAtgtg	p.1283_1284AV>AHV		NM_198576.3	NP_940978.2	O00468	AGRIN_HUMAN	agrin	1283	Ser/Thr-rich.				axon guidance (GO:0007411)|carbohydrate metabolic process (GO:0005975)|chondroitin sulfate metabolic process (GO:0030204)|clustering of voltage-gated sodium channels (GO:0045162)|extracellular matrix organization (GO:0030198)|G-protein coupled acetylcholine receptor signaling pathway (GO:0007213)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|neuromuscular junction development (GO:0007528)|neurotransmitter receptor metabolic process (GO:0045213)|phototransduction, visible light (GO:0007603)|plasma membrane organization (GO:0007009)|positive regulation of filopodium assembly (GO:0051491)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of synaptic growth at neuromuscular junction (GO:0045887)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|receptor clustering (GO:0043113)|retinoid metabolic process (GO:0001523)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synapse organization (GO:0050808)	basal lamina (GO:0005605)|cell junction (GO:0030054)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|lysosomal lumen (GO:0043202)|plasma membrane (GO:0005886)|synapse (GO:0045202)	acetylcholine receptor regulator activity (GO:0030548)|calcium ion binding (GO:0005509)|chondroitin sulfate binding (GO:0035374)|dystroglycan binding (GO:0002162)|heparan sulfate proteoglycan binding (GO:0043395)|laminin binding (GO:0043236)|sialic acid binding (GO:0033691)|structural constituent of cytoskeleton (GO:0005200)			breast(1)|central_nervous_system(2)|endometrium(8)|kidney(3)|large_intestine(2)|lung(20)|ovary(1)|prostate(1)|skin(3)|urinary_tract(1)	42	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		CCGTCCTCTGCTGTGACCCCTC	0.698																																																0																																										SO:0001652	inframe_insertion	375790			XM_372195	CCDS30551.1	1p36.33	2014-09-17		2007-02-16	ENSG00000188157	ENSG00000188157		"Proteoglycans / Extracellular Matrix : Other"	329	protein-coding gene	gene with protein product	"agrin proteoglycan"	103320				1851019, 12270958	Standard	NM_198576		Approved	AGRIN	uc001ack.2	O00468	OTTHUMG00000040778	Exception_encountered	1.37:g.983488_983489insCCA	ENSP00000368678:p.Ala1283_Val1284insHis	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SVA1|Q5SVA2|Q60FE1|Q7KYS8|Q8N4J5|Q96IC1|Q9BTD4	In_Frame_Ins	INS	ENST00000379370.2	37	CCDS30551.1																																																																																				0.698	AGRN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097990.2	NM_198576		CCA	983489	-	CCA	983488	7	5	665	1	0	1	1	0	0	0	0	0	397	797	28	0	3938	0	AGRN	1	983488	In_Frame_Ins	INS	-	TCGA-KN-8429-01A-11D-2310-10		983488	248267133	1	42432	400	2								
AGRN	375790	broad.mit.edu	37	chr1	983491	983493	+	In_Frame_Del	DEL	TGA	TGA	-													0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	gcgcctgccgtcctctgctgTgacccctcgggccccgcacc							TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	TGA	TGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr1:983491_983493delTGA	ENST00000379370.2	+	23	3901_3903	c.3851_3853delTGA	c.(3850-3855)gtgacc>gcc	p.1284_1285VT>A		NM_198576.3	NP_940978.2	O00468	AGRIN_HUMAN	agrin	1284	Ser/Thr-rich.				axon guidance (GO:0007411)|carbohydrate metabolic process (GO:0005975)|chondroitin sulfate metabolic process (GO:0030204)|clustering of voltage-gated sodium channels (GO:0045162)|extracellular matrix organization (GO:0030198)|G-protein coupled acetylcholine receptor signaling pathway (GO:0007213)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|neuromuscular junction development (GO:0007528)|neurotransmitter receptor metabolic process (GO:0045213)|phototransduction, visible light (GO:0007603)|plasma membrane organization (GO:0007009)|positive regulation of filopodium assembly (GO:0051491)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of synaptic growth at neuromuscular junction (GO:0045887)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|receptor clustering (GO:0043113)|retinoid metabolic process (GO:0001523)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synapse organization (GO:0050808)	basal lamina (GO:0005605)|cell junction (GO:0030054)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|lysosomal lumen (GO:0043202)|plasma membrane (GO:0005886)|synapse (GO:0045202)	acetylcholine receptor regulator activity (GO:0030548)|calcium ion binding (GO:0005509)|chondroitin sulfate binding (GO:0035374)|dystroglycan binding (GO:0002162)|heparan sulfate proteoglycan binding (GO:0043395)|laminin binding (GO:0043236)|sialic acid binding (GO:0033691)|structural constituent of cytoskeleton (GO:0005200)			breast(1)|central_nervous_system(2)|endometrium(8)|kidney(3)|large_intestine(2)|lung(20)|ovary(1)|prostate(1)|skin(3)|urinary_tract(1)	42	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		TCCTCTGCTGTGACCCCTCGGGC	0.695																																																0																																										SO:0001651	inframe_deletion	375790			XM_372195	CCDS30551.1	1p36.33	2014-09-17		2007-02-16	ENSG00000188157	ENSG00000188157		"Proteoglycans / Extracellular Matrix : Other"	329	protein-coding gene	gene with protein product	"agrin proteoglycan"	103320				1851019, 12270958	Standard	NM_198576		Approved	AGRIN	uc001ack.2	O00468	OTTHUMG00000040778	ENST00000379370.2:c.3851_3853delTGA	1.37:g.983491_983493delTGA	ENSP00000368678:p.Val1284_Thr1285delinsAla	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SVA1|Q5SVA2|Q60FE1|Q7KYS8|Q8N4J5|Q96IC1|Q9BTD4	In_Frame_Del	DEL	ENST00000379370.2	37	CCDS30551.1																																																																																				0.695	AGRN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097990.2	NM_198576		-	983493	TGA	-	983491	7	5	665	1	0	1	0	1	0	0	0	0	397	1696	59	0	3941	0	AGRN	1	983491	In_Frame_Del	DEL	TGA	TCGA-KN-8429-01A-11D-2310-10	3	983491	248267130	2	42433	400	2								
NBPF1	55672	mdanderson.org	37	chr1	16907914	16907914	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	ctcctgagtattcagtgttaCctgggggcagatgattccag	12	9	1	3			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr1:16907914C>T	ENST00000430580.2	-	15	2267		c.e15+1		NBPF1_ENST00000432949.1_5'Flank	NM_017940.3	NP_060410.2	Q3BBV0	NBPF1_HUMAN	neuroblastoma breakpoint family, member 1							cytoplasm (GO:0005737)									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)		TTCAGTGTTACCTGGGGGCAG	0.438																																																0													255	285	274					1																	16907914		1493	2696	4189	SO:0001630	splice_region_variant	55672			AB051480		1p36.13	2013-01-30			ENSG00000219481	ENSG00000219481		"neuroblastoma breakpoint family"	26088	protein-coding gene	gene with protein product		610501				11214970, 16079250	Standard	NM_017940		Approved	FLJ20719, KIAA1693	uc001ayw.4	Q3BBV0	OTTHUMG00000002487	ENST00000430580.2:c.1379+1G>A	1.37:g.16907914C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N4E8|Q9C0H0	Splice_Site	SNP	ENST00000430580.2	37																																																																																					0.438	NBPF1-005	NOVEL	upstream_uORF|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000106436.3	NM_017940	Intron	T	16907914	C	T	16907914	5	4	665	1	0	0	0	0	0	0	1	0	10199	521	18	2	2104	2	NBPF1	1	16907914	Splice_Site	SNP	C	TCGA-KN-8429-01A-11D-2310-10	15924423	16907914	232342707	3	42434										
RBMXL1	494115	mdanderson.org	37	chr1	89449237	89449237	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	gggggcggtccatgtctaccTctttcaaatgatggtttggt	13	8	3	1	rs200727134		TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr1:89449237T>A	ENST00000321792.5	-	2	700	c.273A>T	c.(271-273)agA>agT	p.R91S	CCBL2_ENST00000260508.4_Intron|CCBL2_ENST00000446900.2_Intron|CCBL2_ENST00000370491.3_Intron|CCBL2_ENST00000370485.2_Intron|RBMXL1_ENST00000399794.2_Missense_Mutation_p.R91S|RBMXL1_ENST00000413769.1_5'UTR	NM_019610.5	NP_062556.2	Q96E39	RMXL1_HUMAN	RNA binding motif protein, X-linked-like 1	91					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|RNA binding (GO:0003723)										CATGTCTACCTCTTTCAAATG	0.522											OREG0013593	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													103	106	105					1																	89449237		2203	4300	6503	SO:0001583	missense	494115			BC012942	CCDS716.1	1p22.2	2013-02-12	2007-01-04	2007-01-04	ENSG00000213516	ENSG00000213516		"RNA binding motif (RRM) containing"	25073	protein-coding gene	gene with protein product	"kynurenine aminotransferase III"					10441733	Standard	NM_019610		Approved	KAT3	uc001dms.3	Q96E39	OTTHUMG00000010661	ENST00000321792.5:c.273A>T	1.37:g.89449237T>A	ENSP00000318415:p.Arg91Ser	Somatic	1267	WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000321792.5	37	CCDS716.1	.	.	.	.	.	.	.	.	.	.	T	0.418	-0.909529	0.02434	.	.	ENSG00000213516	ENST00000321792;ENST00000399794	T;T	0.74315	-0.83;-0.83	1.59	-1.88	0.07713	Nucleotide-binding, alpha-beta plait (1);	0.103071	0.64402	N	0.000004	T	0.12518	0.0304	N	0.02412	-0.56	0.24373	N	0.994823	B	0.02656	0.0	B	0.01281	0.0	T	0.33394	-0.9870	10	0.02654	T	1	-5.4219	1.5207	0.02515	0.4483:0.0:0.2296:0.322	.	91	Q96E39	RBMXL_HUMAN	S	91	ENSP00000318415:R91S;ENSP00000446099:R91S	ENSP00000318415:R91S	R	-	3	2	RBMXL1	89221825	0.996000	0.38824	0.677000	0.29947	0.326000	0.28443	0.395000	0.20850	-0.106000	0.12110	-1.038000	0.02383	AGA		0.522	RBMXL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029403.3	NM_019610		A	89449237	T	A	89449237	3	1	665	1	0	0	0	0	1	0	0	0	13166	1548	54	5	903	5	RBMXL1	1	89449237	Missense_Mutation	SNP	T	TCGA-KN-8429-01A-11D-2310-10	72541323	89449237	159801384	4	42435										
CLCC1	23155	broad.mit.edu	37	chr1	109486125	109486125	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	aatacatccaattccatcccAaactgaacagaaagctgatg	5	11	0	3			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr1:109486125A>C	ENST00000369971.2	-	6	803	c.674T>G	c.(673-675)tTg>tGg	p.L225W	CLCC1_ENST00000348264.2_Intron|CLCC1_ENST00000369970.3_Missense_Mutation_p.L175W|CLCC1_ENST00000415331.1_Missense_Mutation_p.L175W|CLCC1_ENST00000369968.2_Intron|CLCC1_ENST00000302500.4_Intron|CLCC1_ENST00000356970.2_Missense_Mutation_p.L225W|CLCC1_ENST00000369976.1_Intron|CLCC1_ENST00000369969.2_Intron|AKNAD1_ENST00000357393.4_Intron|CLCC1_ENST00000482889.1_5'UTR	NM_001048210.1	NP_001041675.1	Q96S66	CLCC1_HUMAN	chloride channel CLIC-like 1	225						chloride channel complex (GO:0034707)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)	chloride channel activity (GO:0005254)			autonomic_ganglia(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(7)|liver(1)|skin(1)	14		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.231)		ATTCCATCCCAAACTGAACAG	0.368																																																0													94	105	101					1																	109486125		2203	4300	6503	SO:0001583	missense	23155			AB018304	CCDS793.1, CCDS41362.1, CCDS60214.1, CCDS60215.1	1p13.3	2008-02-05			ENSG00000121940	ENSG00000121940			29675	protein-coding gene	gene with protein product	"Mid1-related chloride channel (yeast)"					9872452, 11279057	Standard	NM_001048210		Approved	MCLC	uc001dwf.2	Q96S66	OTTHUMG00000011732	ENST00000369971.2:c.674T>G	1.37:g.109486125A>C	ENSP00000358988:p.Leu225Trp	Somatic		WXS	Illumina HiSeq	Phase_I	O94861|Q8WYP8|Q8WYP9|Q9BU25	Missense_Mutation	SNP	ENST00000369971.2	37	CCDS41362.1	.	.	.	.	.	.	.	.	.	.	A	19.54	3.847298	0.71603	.	.	ENSG00000121940	ENST00000356970;ENST00000369971;ENST00000415331;ENST00000369970	T;T;T;T	0.55588	0.51;0.51;0.51;0.51	5.26	5.26	0.73747	.	0.241386	0.42420	D	0.000720	T	0.61565	0.2357	M	0.72118	2.19	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.68943	0.919;0.961	T	0.67546	-0.5643	10	0.72032	D	0.01	-0.3509	11.4695	0.50259	0.927:0.0:0.073:0.0	.	175;225	Q96S66-2;Q96S66	.;CLCC1_HUMAN	W	225;225;175;175	ENSP00000349456:L225W;ENSP00000358988:L225W;ENSP00000411591:L175W;ENSP00000358987:L175W	ENSP00000349456:L225W	L	-	2	0	CLCC1	109287648	0.996000	0.38824	0.948000	0.38648	0.811000	0.45836	3.750000	0.55157	2.114000	0.64651	0.482000	0.46254	TTG		0.368	CLCC1-203	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032405.1	NM_015127		C	109486125	A	C	109486125	3	2	665	1	0	0	0	0	1	0	0	0	3462	131	5	5	1005	5	CLCC1	1	109486125	Missense_Mutation	SNP	A	TCGA-KN-8429-01A-11D-2310-10	20036888	109486125	139764496	5	42436										
OVGP1	5016	bcgsc.ca	37	chr1	111957517	111957517	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	agggctcacagactgatgacTcacaggggtcacagactgat	12	10	3	5	rs3767609|rs201350653|rs549398942	byFrequency	TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr1:111957517T>C	ENST00000369732.3	-	11	1661	c.1606A>G	c.(1606-1608)Agt>Ggt	p.S536G		NM_002557.3	NP_002548.3	Q12889	OVGP1_HUMAN	oviductal glycoprotein 1, 120kDa	536			S -> G (in dbSNP:rs3767609).		binding of sperm to zona pellucida (GO:0007339)|carbohydrate metabolic process (GO:0005975)|chitin catabolic process (GO:0006032)|female pregnancy (GO:0007565)|multicellular organism reproduction (GO:0032504)|negative regulation of binding of sperm to zona pellucida (GO:2000360)|single fertilization (GO:0007338)	cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|egg coat (GO:0035805)|perivitelline space (GO:0098595)	chitinase activity (GO:0004568)	p.T597_V604delTPVSHQSV(2)|p.T533_V540delTPVSHQSV(2)		NS(1)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(13)|ovary(4)|prostate(1)|skin(4)|stomach(3)|urinary_tract(1)	39		all_cancers(81;8.18e-06)|all_epithelial(167;5.64e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000302)		Lung(183;0.0253)|Colorectal(144;0.033)|all cancers(265;0.0552)|Epithelial(280;0.0802)|COAD - Colon adenocarcinoma(174;0.123)|LUSC - Lung squamous cell carcinoma(189;0.14)		GACTGATGACTCACAGGGGTC	0.547													T|||	1503	0.30012	0.4092	0.2291	5008	,	,		16183	0.2044		0.2972	False		,,,				2504	0.3047															4	Deletion - In frame(4)	haematopoietic_and_lymphoid_tissue(2)|stomach(2)						T	GLY/SER	1138,3170		242,654,1258	58	69	66		1606	-4.5	0	1	dbSNP_107	66	2424,6110		368,1688,2211	yes	missense	OVGP1	NM_002557.3	56	610,2342,3469	CC,CT,TT		28.404,26.416,27.7371	benign	536/679	111957517	3562,9280	2154	4267	6421	SO:0001583	missense	5016			U09550	CCDS834.1	1p13.2	2008-07-31	2008-07-31		ENSG00000085465	ENSG00000085465		"Mucins"	8524	protein-coding gene	gene with protein product	"oviductin"	603578	"mucin 9"	MUC9		7819450, 9341614	Standard	NM_002557		Approved	CHIT5	uc001eba.3	Q12889	OTTHUMG00000011746	ENST00000369732.3:c.1606A>G	1.37:g.111957517T>C	ENSP00000358747:p.Ser536Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV19|B9EGE1|Q15841	Missense_Mutation	SNP	ENST00000369732.3	37	CCDS834.1	.	.	.	.	.	.	.	.	.	.	T	6.657	0.489649	0.12702	0.26416	0.28404	ENSG00000085465	ENST00000369732;ENST00000369728;ENST00000434331	T	0.02787	4.16	2.23	-4.46	0.03536	.	.	.	.	.	T	0.00524	0.0017	N	0.19112	0.55	0.80722	P	0.0	B;B	0.02656	0.0;0.0	B;B	0.04013	0.0;0.001	T	0.44982	-0.9292	8	0.31617	T	0.26	0.2049	3.9657	0.09431	0.0:0.2687:0.3546:0.3767	rs3767609;rs3767609	536;600	Q12889;Q59HH5	OVGP1_HUMAN;.	G	536;600;344	ENSP00000358747:S536G	ENSP00000358743:S600G	S	-	1	0	OVGP1	111759040	0.017000	0.18338	0.000000	0.03702	0.168000	0.22595	0.634000	0.24614	-1.729000	0.01364	0.254000	0.18369	AGT		0.547	OVGP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032461.1	NM_002557		C	111957517	T	C	111957517	3	2	665	1	0	0	0	0	1	0	0	0	11332	1551	54	3	434	3	OVGP1	1	111957517	Missense_Mutation	SNP	T	TCGA-KN-8429-01A-11D-2310-10	2471392	111957517	137293104	6	42437										
CGN	57530	bcgsc.ca	37	chr1	151497210	151497210	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	aggggaaacagcgagtagagGagcagctgaggctgcgggag	20	6	0	2			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr1:151497210G>T	ENST00000271636.7	+	8	1595	c.1462G>T	c.(1462-1464)Gag>Tag	p.E488*		NM_020770.2	NP_065821.1	Q9P2M7	CING_HUMAN	cingulin	482	Glu-rich.				transforming growth factor beta receptor signaling pathway (GO:0007179)	cell junction (GO:0030054)|myosin complex (GO:0016459)|tight junction (GO:0005923)	actin binding (GO:0003779)|motor activity (GO:0003774)			NS(1)|central_nervous_system(3)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(8)|liver(1)|lung(14)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	45	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)			GCGAGTAGAGGAGCAGCTGAG	0.572																																																0													27	28	27					1																	151497210		2203	4300	6503	SO:0001587	stop_gained	57530			AB037740	CCDS999.1	1q21	2008-02-05			ENSG00000143375	ENSG00000143375			17429	protein-coding gene	gene with protein product		609473				11042084, 12529927	Standard	NM_020770		Approved	KIAA1319	uc009wmw.3	Q9P2M7	OTTHUMG00000012497	ENST00000271636.7:c.1462G>T	1.37:g.151497210G>T	ENSP00000271636:p.Glu488*	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8L3|A7MD22|Q5T386|Q9NR25	Nonsense_Mutation	SNP	ENST00000271636.7	37	CCDS999.1	.	.	.	.	.	.	.	.	.	.	G	39	7.894441	0.98548	.	.	ENSG00000143375	ENST00000271636	.	.	.	4.86	4.86	0.63082	.	0.255650	0.40222	N	0.001153	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.24483	T	0.36	-27.7576	15.5281	0.75928	0.0:0.0:1.0:0.0	.	.	.	.	X	488	.	ENSP00000271636:E488X	E	+	1	0	CGN	149763834	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	7.226000	0.78060	2.522000	0.85027	0.655000	0.94253	GAG		0.572	CGN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034900.3	NM_020770		T	151497210	G	T	151497210	4	4	665	1	0	0	0	0	0	1	0	0	3305	1175	41	4	1488	4	CGN	1	151497210	Nonsense_Mutation	SNP	G	TCGA-KN-8429-01A-11D-2310-10	39539693	151497210	97753411	7	42438										
ATP8B2	57198	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr1	154315638	154315638	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	gatgagggggccctggtcacCgcagccaggaactttggttt	15	10	1	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr1:154315638C>T	ENST00000368489.3	+	16	1602	c.1602C>T	c.(1600-1602)acC>acT	p.T534T		NM_020452.3	NP_065185.1	P98198	AT8B2_HUMAN	ATPase, aminophospholipid transporter, class I, type 8B, member 2	520					ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)		IL6R/ATP8B2(2)	breast(2)|endometrium(4)|kidney(3)|large_intestine(7)|lung(25)|ovary(3)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	51	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CCCTGGTCACCGCAGCCAGGA	0.567																																																0													72	58	63					1																	154315638		2203	4300	6503	SO:0001819	synonymous_variant	57198			AB032963	CCDS1066.1, CCDS41405.1	1q21.3	2012-03-09	2012-03-09		ENSG00000143515	ENSG00000143515		"ATPases / P-type"	13534	protein-coding gene	gene with protein product		605867	"ATPase, class I, type 8B, member 2"			10574461, 11015572	Standard	NM_020452		Approved	ATPID, KIAA1137	uc001fex.3	P98198	OTTHUMG00000035979	ENST00000368489.3:c.1602C>T	1.37:g.154315638C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4E3P4|Q6NT69|Q7Z486|Q96I43|Q96NQ7	Silent	SNP	ENST00000368489.3	37	CCDS1066.1																																																																																				0.567	ATP8B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087658.2	NM_020452		T	154315638	C	T	154315638	2	4	665	1	0	0	0	0	0	0	0	1	1195	639	23	1		1	ATP8B2	1	154315638	Silent	SNP	C	TCGA-KN-8429-01A-11D-2310-10	2818428	154315638	94934983	8	42439										
CD5L	922	mdanderson.org;bcgsc.ca	37	chr1	157805692	157805692	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	tcttcttgctcacactgagcCaatgtatcttctgttcctgt	6	12	5	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr1:157805692C>G	ENST00000368174.4	-	3	405	c.309G>C	c.(307-309)ttG>ttC	p.L103F	CD5L_ENST00000484609.1_5'Flank	NM_005894.2	NP_005885.1	O43866	CD5L_HUMAN	CD5 molecule-like	103	SRCR 1. {ECO:0000255|PROSITE- ProRule:PRU00196}.				apoptotic process (GO:0006915)|cellular defense response (GO:0006968)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	scavenger receptor activity (GO:0005044)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(9)|lung(25)|ovary(1)|prostate(1)|stomach(1)|urinary_tract(1)	52	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CACACTGAGCCAATGTATCTT	0.488																																																0													213	217	216					1																	157805692		2203	4300	6503	SO:0001583	missense	922			U82812	CCDS1171.1	1q21-q23	2008-02-05	2006-03-28		ENSG00000073754	ENSG00000073754			1690	protein-coding gene	gene with protein product		602592	"apoptosis inhibitor 6", "CD5 antigen-like (scavenger receptor cysteine rich family)"	API6		9045627	Standard	NM_005894		Approved	Spalpha	uc001frk.4	O43866	OTTHUMG00000022440	ENST00000368174.4:c.309G>C	1.37:g.157805692C>G	ENSP00000357156:p.Leu103Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7M5|Q6UX63	Missense_Mutation	SNP	ENST00000368174.4	37	CCDS1171.1	.	.	.	.	.	.	.	.	.	.	C	14.22	2.471904	0.43942	.	.	ENSG00000073754	ENST00000368174	T	0.57907	0.37	4.68	4.68	0.58851	Speract/scavenger receptor (2);Speract/scavenger receptor-related (2);	0.000000	0.35291	N	0.003305	T	0.65491	0.2696	M	0.90759	3.145	0.09310	N	1	D	0.71674	0.998	D	0.68353	0.957	T	0.62296	-0.6884	10	0.87932	D	0	.	8.6725	0.34159	0.0:0.8993:0.0:0.1007	.	103	O43866	CD5L_HUMAN	F	103	ENSP00000357156:L103F	ENSP00000357156:L103F	L	-	3	2	CD5L	156072316	0.000000	0.05858	0.194000	0.23346	0.023000	0.10783	-1.013000	0.03645	2.419000	0.82065	0.563000	0.77884	TTG		0.488	CD5L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058346.1	NM_005894		G	157805692	C	G	157805692	3	3	665	1	0	0	0	0	1	0	0	0	3029	593	21	4	750	4	CD5L	1	157805692	Missense_Mutation	SNP	C	TCGA-KN-8429-01A-11D-2310-10	3490054	157805692	91444929	9	42440										
IGFN1	91156	bcgsc.ca	37	chr1	201181673	201181673	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	tctagggtctggatatgaacGggacatctggaaagcaggcc	14	8	3	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr1:201181673G>A	ENST00000335211.4	+	12	7782	c.7652G>A	c.(7651-7653)cGg>cAg	p.R2551Q	IGFN1_ENST00000295591.8_5'UTR|IGFN1_ENST00000451870.2_Intron	NM_001164586.1	NP_001158058.1	Q86VF2	IGFN1_HUMAN	immunoglobulin-like and fibronectin type III domain containing 1	0						nucleus (GO:0005634)|Z disc (GO:0030018)				autonomic_ganglia(2)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(6)|lung(21)|ovary(2)|pancreas(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	45						GGATATGAACGGGACATCTGG	0.587																																																0													25	27	27					1																	201181673		692	1591	2283	SO:0001583	missense	91156			AY245430	CCDS53455.1	1q32.1	2013-02-11			ENSG00000163395	ENSG00000163395		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	24607	protein-coding gene	gene with protein product							Standard	NM_001164586		Approved	DKFZp434B1231, EEF1A2BP1	uc001gwc.3	Q86VF2	OTTHUMG00000035728	ENST00000335211.4:c.7652G>A	1.37:g.201181673G>A	ENSP00000334714:p.Arg2551Gln	Somatic		WXS	Illumina HiSeq	Phase_I	F8WAI1|Q9NT72	Missense_Mutation	SNP	ENST00000335211.4	37	CCDS53455.1	.	.	.	.	.	.	.	.	.	.	g	10.75	1.439042	0.25900	.	.	ENSG00000163395	ENST00000335211	T	0.51574	0.7	3.53	-7.07	0.01563	.	.	.	.	.	T	0.20251	0.0487	N	0.08118	0	0.09310	N	0.999997	.	.	.	.	.	.	T	0.22871	-1.0204	6	.	.	.	.	7.8001	0.29170	0.326:0.0:0.5404:0.1336	.	.	.	.	Q	2551	ENSP00000334714:R2551Q	.	R	+	2	0	IGFN1	199448296	0.000000	0.05858	0.000000	0.03702	0.078000	0.17371	-3.048000	0.00629	-2.294000	0.00663	-0.778000	0.03378	CGG		0.587	IGFN1-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_178275		A	201181673	G	A	201181673	3	1	665	1	0	0	0	0	1	0	0	0	7597	1116	39	1	7694	1	IGFN1	1	201181673	Missense_Mutation	SNP	G	TCGA-KN-8429-01A-11D-2310-10	43375981	201181673	48068948	10	42441										
TEKT4	150483	ucsc.edu	37	chr2	95542418	95542419	+	Missense_Mutation	DNP	TG	TG	CA													0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	atgagcctggagaaggacatTgccgccatgaccaacagtct					rs199648585|rs75603622	byFrequency	TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr2:95542418_95542419TG>CA	ENST00000295201.4	+	6	1349_1350	c.1212_1213TG>CA	c.(1210-1215)atTGcc>atCAcc	p.A405T	AC097374.2_ENST00000568768.1_RNA	NM_144705.2	NP_653306.1	Q8WW24	TEKT4_HUMAN	tektin 4	405					cell projection organization (GO:0030030)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|motile cilium (GO:0031514)|nucleus (GO:0005634)				NS(1)|breast(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(15)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	28						AGAAGGACATTGCCGCCATGAC	0.584																																																0																																										SO:0001583	missense	150483			AK097438	CCDS2005.1	2q11.2	2008-02-05			ENSG00000163060	ENSG00000163060			31012	protein-coding gene	gene with protein product							Standard	XM_005263876		Approved	MGC27019	uc002stw.1	Q8WW24	OTTHUMG00000130396	Exception_encountered	2.37:g.95542418_95542419delinsCA	ENSP00000295201:p.Ala405Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	DNP	ENST00000295201.4	37	CCDS2005.1																																																																																				0.584	TEKT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252777.1	NM_144705		CA	95542419	TG	CA	95542418	3	2	665	1	0	0	0	0	1	0	0	0	15767	1800	63	3	1234	3	TEKT4	2	95542418	Missense_Mutation	DNP	TG	TCGA-KN-8429-01A-11D-2310-10		95542418	147656955	11	42442										
IL1R2	7850	bcgsc.ca	37	chr2	102626112	102626112	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	gtagccctgaggtgcccccaGgtgccctactggttgtgggc	15	13	0	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr2:102626112G>T	ENST00000332549.3	+	3	385	c.156G>T	c.(154-156)caG>caT	p.Q52H	IL1R2_ENST00000393414.2_Missense_Mutation_p.Q52H|IL1R2_ENST00000441002.1_Missense_Mutation_p.Q52H	NM_004633.3	NP_004624.1	P27930	IL1R2_HUMAN	interleukin 1 receptor, type II	52	Ig-like C2-type 1.				cytokine-mediated signaling pathway (GO:0019221)|immune response (GO:0006955)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	interleukin-1 receptor activity (GO:0004908)|interleukin-1, Type II, blocking receptor activity (GO:0004910)			breast(3)|endometrium(1)|kidney(1)|large_intestine(8)|lung(13)|ovary(1)|skin(1)	28						GGTGCCCCCAGGTGCCCTACT	0.597																																					Pancreas(106;189 1628 2302 5133 12295)											0													133	140	138					2																	102626112		2203	4300	6503	SO:0001583	missense	7850			X59770	CCDS2054.1, CCDS58719.1	2q12	2013-01-11			ENSG00000115590	ENSG00000115590		"Interleukins and interleukin receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5994	protein-coding gene	gene with protein product		147811		IL1RB		10191101, 1833184	Standard	NM_004633		Approved	CD121b	uc002tbm.3	P27930	OTTHUMG00000130695	ENST00000332549.3:c.156G>T	2.37:g.102626112G>T	ENSP00000330959:p.Gln52His	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVJ5|Q6LCE6|Q9UE68	Missense_Mutation	SNP	ENST00000332549.3	37	CCDS2054.1	.	.	.	.	.	.	.	.	.	.	G	10.41	1.342180	0.24339	.	.	ENSG00000115590	ENST00000332549;ENST00000393414;ENST00000457817;ENST00000441002	T;T;T;T	0.76968	-1.06;-1.06;-1.06;-1.06	5.8	0.212	0.15240	Immunoglobulin subtype (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.844176	0.10659	N	0.648915	T	0.70211	0.3198	L	0.54323	1.7	0.09310	N	1	D	0.56521	0.976	P	0.49502	0.613	T	0.58544	-0.7618	10	0.15499	T	0.54	.	1.1662	0.01816	0.1664:0.2397:0.3437:0.2502	.	52	P27930	IL1R2_HUMAN	H	52	ENSP00000330959:Q52H;ENSP00000377066:Q52H;ENSP00000408415:Q52H;ENSP00000414611:Q52H	ENSP00000330959:Q52H	Q	+	3	2	IL1R2	101992544	0.116000	0.22171	0.348000	0.25681	0.571000	0.35966	0.556000	0.23438	0.389000	0.25086	0.561000	0.74099	CAG		0.597	IL1R2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253191.1	NM_004633		T	102626112	G	T	102626112	3	4	665	1	0	0	0	0	1	0	0	0	7666	991	35	4	162	4	IL1R2	2	102626112	Missense_Mutation	SNP	G	TCGA-KN-8429-01A-11D-2310-10	7083694	102626112	140573261	12	42443										
POTEF	728378	mdanderson.org	37	chr2	130872871	130872871	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	agttttactacttctgaattCccattggcagaggccagatg	9	9	1	3	rs199770435		TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr2:130872871C>T	ENST00000409914.2	-	4	951	c.552G>A	c.(550-552)ggG>ggA	p.G184G	POTEF_ENST00000357462.5_Silent_p.G184G|POTEF_ENST00000361163.4_Silent_p.G184G|POTEF_ENST00000360967.5_Silent_p.G184G	NM_001099771.2	NP_001093241.1	A5A3E0	POTEF_HUMAN	POTE ankyrin domain family, member F	184					retina homeostasis (GO:0001895)	blood microparticle (GO:0072562)|cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)		p.G184G(2)		breast(1)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(4)|lung(28)|ovary(3)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)	53						CTTCTGAATTCCCATTGGCAG	0.423																																																2	Substitution - coding silent(2)	prostate(2)											45	53	50					2																	130872871		2105	4041	6146	SO:0001819	synonymous_variant	728378			EF523384	CCDS46409.1	2q21.1	2013-01-10	2008-11-26	2008-11-26	ENSG00000196604	ENSG00000196604		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33905	protein-coding gene	gene with protein product			"ANKRD26-like family C, member 1B"	A26C1B		17101985	Standard	NM_001099771		Approved	POTEACTIN, POTE2alpha	uc010fmh.2	A5A3E0	OTTHUMG00000153628	ENST00000409914.2:c.552G>A	2.37:g.130872871C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NC34	Silent	SNP	ENST00000409914.2	37	CCDS46409.1																																																																																				0.423	POTEF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331889.2	NM_001099771		T	130872871	C	T	130872871	2	4	665	1	0	0	0	0	0	0	0	1	12272	842	30	2		2	POTEF	2	130872871	Silent	SNP	C	TCGA-KN-8429-01A-11D-2310-10	28246759	130872871	112326502	13	42444										
PASK	23178	mdanderson.org	37	chr2	242080064	242080064	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	gcaggacacactgccccgcgGttcggacgggtccgtgtgct	15	14	0	0			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr2:242080064G>T	ENST00000405260.1	-	3	999	c.301C>A	c.(301-303)Ccg>Acg	p.P101T	PASK_ENST00000539818.1_Intron|PASK_ENST00000234040.4_Missense_Mutation_p.P101T|PASK_ENST00000403638.3_Missense_Mutation_p.P101T|PASK_ENST00000358649.4_Missense_Mutation_p.P101T|PASK_ENST00000544142.1_Intron	NM_001252120.1	NP_001239049.1	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	101					negative regulation of glycogen biosynthetic process (GO:0045719)|positive regulation of translation (GO:0045727)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of energy homeostasis (GO:2000505)|regulation of glucagon secretion (GO:0070092)|regulation of respiratory gaseous exchange (GO:0043576)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)	ATP binding (GO:0005524)|phosphatidylinositol binding (GO:0035091)|protein serine/threonine kinase activity (GO:0004674)|signal transducer activity (GO:0004871)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(6)|lung(20)|ovary(4)|prostate(4)|skin(1)|stomach(1)|urinary_tract(2)	53		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		CTGCCCCGCGGTTCGGACGGG	0.597																																																0													74	71	72					2																	242080064		2203	4300	6503	SO:0001583	missense	23178			U79240	CCDS2545.1, CCDS58758.1, CCDS58759.1	2q37.3	2008-05-23			ENSG00000115687	ENSG00000115687			17270	protein-coding gene	gene with protein product		607505				11688972, 11459942, 15148392	Standard	NM_001252119		Approved	PASKIN, KIAA0135, STK37	uc010fzl.2	Q96RG2	OTTHUMG00000133392	ENST00000405260.1:c.301C>A	2.37:g.242080064G>T	ENSP00000384016:p.Pro101Thr	Somatic		WXS	Illumina HiSeq	Phase_I	G5E9F1|Q05BE4|Q68DY3|Q6GSJ5|Q86XH6|Q99763|Q9UFR7	Missense_Mutation	SNP	ENST00000405260.1	37	CCDS2545.1	.	.	.	.	.	.	.	.	.	.	G	0.841	-0.741927	0.03088	.	.	ENSG00000115687	ENST00000234040;ENST00000405260;ENST00000358649;ENST00000403638;ENST00000452907	T;T;T;T	0.66995	-0.24;-0.24;-0.19;0.76	4.67	-0.193	0.13244	.	0.522234	0.17487	N	0.172473	T	0.45155	0.1328	L	0.40543	1.245	0.18873	N	0.999988	B;B;P;B	0.38078	0.146;0.228;0.617;0.146	B;B;B;B	0.30855	0.057;0.083;0.121;0.057	T	0.43048	-0.9415	10	0.07325	T	0.83	.	9.3561	0.38168	0.8464:0.0:0.1536:0.0	.	101;101;101;101	B7Z7R6;Q96RG2-2;G5E9F1;Q96RG2	.;.;.;PASK_HUMAN	T	101	ENSP00000234040:P101T;ENSP00000384016:P101T;ENSP00000351475:P101T;ENSP00000384438:P101T	ENSP00000234040:P101T	P	-	1	0	PASK	241728737	0.001000	0.12720	0.000000	0.03702	0.000000	0.00434	0.569000	0.23638	-0.212000	0.10109	-0.258000	0.10820	CCG		0.597	PASK-003	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000323753.1	NM_015148		T	242080064	G	T	242080064	3	4	665	1	0	0	0	0	1	0	0	0	11479	1261	44	4	3734	4	PASK	2	242080064	Missense_Mutation	SNP	G	TCGA-KN-8429-01A-11D-2310-10	111207193	242080064	1119309	14	42445										
HDAC11	79885	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	13544436	13544436	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	caagcgtgtgtacatcatggAtgtctacaaccgccacatct	8	12	3	0			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr3:13544436A>G	ENST00000295757.3	+	8	788	c.605A>G	c.(604-606)gAt>gGt	p.D202G	HDAC11_ENST00000433119.1_Missense_Mutation_p.M160V|HDAC11_ENST00000402271.1_Missense_Mutation_p.D123G|HDAC11_ENST00000522202.1_Missense_Mutation_p.D151G|HDAC11_ENST00000405025.1_Intron|HDAC11_ENST00000402259.1_Intron|HDAC11_ENST00000404040.1_Missense_Mutation_p.D102G|HDAC11_ENST00000404548.1_Intron|HDAC11_ENST00000437379.2_Missense_Mutation_p.D174G|HDAC11_ENST00000495099.2_3'UTR|HDAC11_ENST00000446613.2_Missense_Mutation_p.D10G	NM_024827.3	NP_079103.2	Q96DB2	HDA11_HUMAN	histone deacetylase 11	202	Histone deacetylase.				chromatin modification (GO:0016568)|histone deacetylation (GO:0016575)|oligodendrocyte development (GO:0014003)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	extracellular vesicular exosome (GO:0070062)|histone deacetylase complex (GO:0000118)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	histone deacetylase activity (GO:0004407)|NAD-dependent histone deacetylase activity (H3-K14 specific) (GO:0032041)|NAD-dependent histone deacetylase activity (H3-K18 specific) (GO:0097372)|NAD-dependent histone deacetylase activity (H3-K9 specific) (GO:0046969)|NAD-dependent histone deacetylase activity (H4-K16 specific) (GO:0046970)|transcription factor binding (GO:0008134)			breast(1)|endometrium(2)|large_intestine(1)|lung(2)|ovary(4)|prostate(3)	13						TACATCATGGATGTCTACAAC	0.582																																																0													195	181	186					3																	13544436		2203	4300	6503	SO:0001583	missense	79885			AK025426	CCDS2615.1, CCDS46760.1	3p25.1	2008-07-18			ENSG00000163517	ENSG00000163517	3.5.1.98		19086	protein-coding gene	gene with protein product		607226				11948178	Standard	NM_001136041		Approved		uc003bxy.3	Q96DB2	OTTHUMG00000129800	ENST00000295757.3:c.605A>G	3.37:g.13544436A>G	ENSP00000295757:p.Asp202Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DDK1|Q9H6I7|Q9H6X3|Q9NTC9	Missense_Mutation	SNP	ENST00000295757.3	37	CCDS2615.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	26.9|26.9	4.784923|4.784923	0.90282|0.90282	.|.	.|.	ENSG00000163517|ENSG00000163517	ENST00000295757;ENST00000402271;ENST00000446613;ENST00000404040;ENST00000405478;ENST00000522202;ENST00000437379|ENST00000433119;ENST00000434848	T;T;T;T;T;T;T|.	0.70986|.	-0.53;-0.53;-0.53;-0.53;-0.53;-0.53;-0.53|.	4.94|4.94	4.94|4.94	0.65067|0.65067	Histone deacetylase domain (2);|.	0.117295|.	0.53938|.	D|.	0.000041|.	T|T	0.73837|0.73837	0.3638|0.3638	M|M	0.92833|0.92833	3.35|3.35	0.80722|0.80722	D|D	1|1	D;D|B	0.89917|0.14012	1.0;1.0|0.009	D;D|B	0.97110|0.11329	1.0;0.999|0.006	T|T	0.75852|0.75852	-0.3171|-0.3171	10|8	0.87932|0.87932	D|D	0|0	-10.674|-10.674	12.5707|12.5707	0.56334|0.56334	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	151;202|160	B4DDK1;Q96DB2|Q658J9	.;HDA11_HUMAN|.	G|V	202;123;10;102;174;151;174|160;168	ENSP00000295757:D202G;ENSP00000384123:D123G;ENSP00000401487:D10G;ENSP00000385475:D102G;ENSP00000385252:D174G;ENSP00000429794:D151G;ENSP00000395188:D174G|.	ENSP00000295757:D202G|ENSP00000412514:M160V	D|M	+|+	2|1	0|0	HDAC11|HDAC11	13519436|13519436	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.986000|0.986000	0.74619|0.74619	7.983000|7.983000	0.88140|0.88140	1.867000|1.867000	0.54127|0.54127	0.402000|0.402000	0.26972|0.26972	GAT|ATG		0.582	HDAC11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252028.5	NM_024827		G	13544436	A	G	13544436	3	3	665	1	0	0	0	0	1	0	0	0	7013	333	12	3	635	3	HDAC11	3	13544436	Missense_Mutation	SNP	A	TCGA-KN-8429-01A-11D-2310-10		13544436	184477994	15	42446										
LRRIQ4	344657	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	169540071	169540071	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	cagcttcctccacgccctgcGcgagctccggctctaccaga	9	19	1	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr3:169540071G>A	ENST00000340806.6	+	1	362	c.362G>A	c.(361-363)cGc>cAc	p.R121H		NM_001080460.1	NP_001073929.1	A6NIV6	LRIQ4_HUMAN	leucine-rich repeats and IQ motif containing 4	121										breast(2)|endometrium(2)|kidney(2)|large_intestine(6)|lung(14)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	30						CACGCCCTGCGCGAGCTCCGG	0.607																																																0													53	59	57					3																	169540071		2072	4209	6281	SO:0001583	missense	344657				CCDS46951.1	3q26.2	2008-08-08	2008-06-12	2008-06-12	ENSG00000188306	ENSG00000188306			34298	protein-coding gene	gene with protein product	"leucine rich repeat containing 64"						Standard	NM_001080460		Approved	LRRC64	uc003fgb.3	A6NIV6	OTTHUMG00000164420	ENST00000340806.6:c.362G>A	3.37:g.169540071G>A	ENSP00000342188:p.Arg121His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000340806.6	37	CCDS46951.1	.	.	.	.	.	.	.	.	.	.	G	24.7	4.565378	0.86439	.	.	ENSG00000188306	ENST00000340806	T	0.59772	0.24	5.56	5.56	0.83823	.	0.082415	0.51477	D	0.000088	T	0.61009	0.2313	M	0.77820	2.39	0.41284	D	0.986936	P	0.52316	0.952	B	0.43225	0.412	T	0.67280	-0.5710	10	0.49607	T	0.09	.	13.7965	0.63175	0.0754:0.0:0.9246:0.0	.	121	A6NIV6	LRIQ4_HUMAN	H	121	ENSP00000342188:R121H	ENSP00000342188:R121H	R	+	2	0	LRRIQ4	171022765	0.280000	0.24249	0.844000	0.33320	0.588000	0.36517	2.749000	0.47492	2.631000	0.89168	0.462000	0.41574	CGC		0.607	LRRIQ4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378698.1	NM_001080460		A	169540071	G	A	169540071	3	1	665	1	0	0	0	0	1	0	0	0	9038	1087	38	1	364	1	LRRIQ4	3	169540071	Missense_Mutation	SNP	G	TCGA-KN-8429-01A-11D-2310-10	155995635	169540071	28482359	16	42447										
TP63	8626	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	189526226	189526226	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	atgctctctctccatcacccGccatcccctccaacaccgac	3	22	3	0			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr3:189526226G>A	ENST00000264731.3	+	4	579	c.490G>A	c.(490-492)Gcc>Acc	p.A164T	TP63_ENST00000392463.2_Missense_Mutation_p.A70T|TP63_ENST00000437221.1_Missense_Mutation_p.A70T|TP63_ENST00000392460.3_Missense_Mutation_p.A164T|TP63_ENST00000392461.3_Missense_Mutation_p.A70T|TP63_ENST00000320472.5_Missense_Mutation_p.A164T|TP63_ENST00000449992.1_Intron|TP63_ENST00000418709.2_Missense_Mutation_p.A164T|TP63_ENST00000440651.2_Missense_Mutation_p.A164T|TP63_ENST00000456148.1_Missense_Mutation_p.A70T|TP63_ENST00000354600.5_Missense_Mutation_p.A70T|TP63_ENST00000382063.4_Intron	NM_001114978.1|NM_003722.4	NP_001108450.1|NP_003713.3	Q9H3D4	P63_HUMAN	tumor protein p63	164					apoptotic process (GO:0006915)|cell aging (GO:0007569)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to UV (GO:0034644)|chromatin remodeling (GO:0006338)|cloacal septation (GO:0060197)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|ectoderm and mesoderm interaction (GO:0007499)|embryonic limb morphogenesis (GO:0030326)|epidermal cell division (GO:0010481)|epithelial cell development (GO:0002064)|establishment of planar polarity (GO:0001736)|establishment of skin barrier (GO:0061436)|female genitalia morphogenesis (GO:0048807)|hair follicle morphogenesis (GO:0031069)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|keratinocyte differentiation (GO:0030216)|keratinocyte proliferation (GO:0043616)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organismal aging (GO:0010259)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cellular senescence (GO:2000773)|negative regulation of keratinocyte differentiation (GO:0045617)|negative regulation of mesoderm development (GO:2000381)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|odontogenesis of dentin-containing tooth (GO:0042475)|polarized epithelial cell differentiation (GO:0030859)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell cycle G1/S phase transition (GO:1902808)|positive regulation of fibroblast apoptotic process (GO:2000271)|positive regulation of keratinocyte proliferation (GO:0010838)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of Notch signaling pathway (GO:0045747)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|post-anal tail morphogenesis (GO:0036342)|prostatic bud formation (GO:0060513)|protein homotetramerization (GO:0051289)|proximal/distal pattern formation (GO:0009954)|regulation of epidermal cell division (GO:0010482)|regulation of neuron apoptotic process (GO:0043523)|response to gamma radiation (GO:0010332)|response to X-ray (GO:0010165)|skeletal system development (GO:0001501)|smooth muscle tissue development (GO:0048745)|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development (GO:0060529)|sympathetic nervous system development (GO:0048485)|urinary bladder development (GO:0060157)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|double-stranded DNA binding (GO:0003690)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|p53 binding (GO:0002039)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding transcription factor activity (GO:0000989)|transcription regulatory region DNA binding (GO:0044212)|WW domain binding (GO:0050699)			breast(2)|central_nervous_system(2)|cervix(1)|endometrium(7)|kidney(5)|large_intestine(12)|lung(15)|ovary(2)|skin(9)|upper_aerodigestive_tract(6)	61	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		TCCATCACCCGCCATCCCCTC	0.637										HNSCC(45;0.13)																																						0													171	124	140					3																	189526226		2203	4300	6503	SO:0001583	missense	8626			AB010153	CCDS3293.1, CCDS46976.1, CCDS46977.1, CCDS46978.1, CCDS46979.1, CCDS46980.1	3q27-q29	2014-09-17			ENSG00000073282	ENSG00000073282			15979	protein-coding gene	gene with protein product		603273	"tumor protein p73-like", "tumor protein p53-like", "tumor protein p53-competing protein"	TP73L, TP53L, TP53CP		9774969, 9662378, 11181441, 11181451	Standard	NM_003722		Approved	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP	uc003fry.2	Q9H3D4	OTTHUMG00000156313	ENST00000264731.3:c.490G>A	3.37:g.189526226G>A	ENSP00000264731:p.Ala164Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O75080|O75195|O75922|O76078|Q6VEG2|Q6VEG3|Q6VEG4|Q6VFJ1|Q6VFJ2|Q6VFJ3|Q6VH20|Q7LDI3|Q7LDI4|Q7LDI5|Q96KR0|Q9H3D2|Q9H3D3|Q9H3P8|Q9NPH7|Q9P1B4|Q9P1B5|Q9P1B6|Q9P1B7|Q9UBV9|Q9UE10|Q9UP26|Q9UP27|Q9UP28|Q9UP74	Missense_Mutation	SNP	ENST00000264731.3	37	CCDS3293.1	.	.	.	.	.	.	.	.	.	.	G	9.717	1.158763	0.21454	.	.	ENSG00000073282	ENST00000264731;ENST00000418709;ENST00000320472;ENST00000392460;ENST00000440651;ENST00000354600;ENST00000434928;ENST00000437221;ENST00000392463;ENST00000392461;ENST00000456148	D;D;D;D;D;D;D;D;D;D;D	0.99732	-6.57;-6.57;-6.57;-6.57;-6.57;-6.57;-6.57;-6.57;-6.57;-6.57;-6.57	5.83	4.96	0.65561	p53, DNA-binding domain (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.106561	0.64402	D	0.000004	D	0.97269	0.9107	N	0.01705	-0.755	0.58432	D	0.999998	P;P;B;B;B;B;P;P;P	0.41643	0.758;0.758;0.347;0.347;0.187;0.223;0.758;0.677;0.758	B;B;B;B;B;B;B;B;B	0.41917	0.254;0.254;0.154;0.127;0.08;0.044;0.254;0.37;0.254	D	0.99222	1.0879	9	.	.	.	-7.0778	14.0633	0.64812	0.0719:0.0:0.9281:0.0	.	164;164;70;70;70;70;164;164;164	Q9H3D4-7;Q9H3D4-11;Q9H3D4-4;Q9H3D4-2;Q9H3D4-6;C9D7C9;Q9H3D4-3;Q9H3D4;Q9H3D4-5	.;.;.;.;.;.;.;P63_HUMAN;.	T	164;164;164;164;164;70;70;70;70;70;70	ENSP00000264731:A164T;ENSP00000407144:A164T;ENSP00000317510:A164T;ENSP00000376253:A164T;ENSP00000394337:A164T;ENSP00000346614:A70T;ENSP00000401661:A70T;ENSP00000392488:A70T;ENSP00000376256:A70T;ENSP00000376254:A70T;ENSP00000389485:A70T	.	A	+	1	0	TP63	191008920	1.000000	0.71417	0.888000	0.34837	0.136000	0.21042	7.863000	0.87023	1.485000	0.48380	-0.140000	0.14226	GCC		0.637	TP63-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000343865.1	NM_003722		A	189526226	G	A	189526226	3	1	665	1	0	0	0	0	1	0	0	0	16404	1087	38	1	550	1	TP63	3	189526226	Missense_Mutation	SNP	G	TCGA-KN-8429-01A-11D-2310-10	19986155	189526226	8496204	17	42448										
LGI2	55203	hgsc.bcm.edu;ucsc.edu	37	chr4	25005583	25005583	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	ccatcgatatcaacaaactcCgcatccgtgtccctgaacca	5	16	1	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr4:25005583C>T	ENST00000382114.4	-	8	1313	c.1128G>A	c.(1126-1128)gcG>gcA	p.A376A		NM_018176.3	NP_060646.2	Q8N0V4	LGI2_HUMAN	leucine-rich repeat LGI family, member 2	376						extracellular region (GO:0005576)				breast(2)|endometrium(2)|kidney(2)|large_intestine(6)|lung(15)|prostate(1)|skin(3)|stomach(2)	33		Breast(46;0.173)				CAACAAACTCCGCATCCGTGT	0.483																																																0													117	121	120					4																	25005583		2203	4300	6503	SO:0001819	synonymous_variant	55203			AJ487516	CCDS3431.1	4p15.31	2008-07-28			ENSG00000153012	ENSG00000153012			18710	protein-coding gene	gene with protein product		608301				12023020, 16014869	Standard	NM_018176		Approved	KIAA1916, FLJ10675	uc003grf.2	Q8N0V4	OTTHUMG00000097749	ENST00000382114.4:c.1128G>A	4.37:g.25005583C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q3MIN2|Q8NDW6|Q96PX2|Q9NVK4	Silent	SNP	ENST00000382114.4	37	CCDS3431.1																																																																																				0.483	LGI2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214978.1			T	25005583	C	T	25005583	2	4	665	1	0	0	0	0	0	0	0	1	8759	639	23	1		1	LGI2	4	25005583	Silent	SNP	C	TCGA-KN-8429-01A-11D-2310-10		25005583	166148693	18	42449										
ADAMTS3	9508	broad.mit.edu;mdanderson.org	37	chr4	73205262	73205262	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	acgtgctctttgccatggaaAcggaccacagagtcatccac	9	13	2	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr4:73205262A>G	ENST00000286657.4	-	5	846	c.810T>C	c.(808-810)cgT>cgC	p.R270R		NM_014243.2	NP_055058.2	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 3	270	Peptidase M12B. {ECO:0000255|PROSITE- ProRule:PRU00276}.				collagen biosynthetic process (GO:0032964)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular fibril organization (GO:0043206)|extracellular matrix organization (GO:0030198)|positive regulation of vascular endothelial growth factor signaling pathway (GO:1900748)|protein processing (GO:0016485)|vascular endothelial growth factor production (GO:0010573)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)	endopeptidase activity (GO:0004175)|heparin binding (GO:0008201)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|cervix(1)|endometrium(5)|kidney(6)|large_intestine(21)|lung(33)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	76			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)			TGCCATGGAAACGGACCACAG	0.453																																					NSCLC(168;1941 2048 2918 13048 43078)											0													322	324	324					4																	73205262		2203	4300	6503	SO:0001819	synonymous_variant	9508			AB002364	CCDS3553.1	4q21	2008-07-29	2005-08-19		ENSG00000156140	ENSG00000156140	3.4.24.-	"ADAM metallopeptidases with thrombospondin type 1 motif"	219	protein-coding gene	gene with protein product		605011	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 3"			10094461	Standard	NM_014243		Approved	KIAA0366, ADAMTS-4	uc003hgk.2	O15072	OTTHUMG00000129912	ENST00000286657.4:c.810T>C	4.37:g.73205262A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A1L3U9|Q9BXZ8	Silent	SNP	ENST00000286657.4	37	CCDS3553.1																																																																																				0.453	ADAMTS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252164.2			G	73205262	A	G	73205262	2	3	665	1	0	0	0	0	0	0	0	1	267	30	2	3		3	ADAMTS3	4	73205262	Silent	SNP	A	TCGA-KN-8429-01A-11D-2310-10	48199679	73205262	117949014	19	42450										
C4orf17	84103	broad.mit.edu;mdanderson.org	37	chr4	100460404	100460404	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	cagaagaaacacctcaatggAaccagcagcagagactggga	11	10	1	3			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr4:100460404A>C	ENST00000326581.4	+	7	1075	c.713A>C	c.(712-714)gAa>gCa	p.E238A	C4orf17_ENST00000514652.1_Missense_Mutation_p.E238A	NM_032149.2	NP_115525.2	Q53FE4	CD017_HUMAN	chromosome 4 open reading frame 17	238										central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(9)|prostate(1)|urinary_tract(3)	18				OV - Ovarian serous cystadenocarcinoma(123;2.08e-08)		ACCTCAATGGAACCAGCAGCA	0.428																																																0													133	137	136					4																	100460404		2203	4300	6503	SO:0001583	missense	84103			AL136838	CCDS3649.1	4q23	2008-02-05			ENSG00000138813	ENSG00000138813			25274	protein-coding gene	gene with protein product						11230166	Standard	NM_032149		Approved	DKFZP434G072	uc003huw.3	Q53FE4	OTTHUMG00000131027	ENST00000326581.4:c.713A>C	4.37:g.100460404A>C	ENSP00000322582:p.Glu238Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FI84|Q6IS77|Q8NA78|Q9H0D9	Missense_Mutation	SNP	ENST00000326581.4	37	CCDS3649.1	.	.	.	.	.	.	.	.	.	.	A	13.98	2.400323	0.42613	.	.	ENSG00000138813	ENST00000326581;ENST00000514652	T;T	0.18960	2.18;2.18	5.09	3.92	0.45320	.	0.143577	0.33477	N	0.004867	T	0.33673	0.0871	M	0.69823	2.125	0.09310	N	1	D	0.60160	0.987	P	0.56751	0.805	T	0.11867	-1.0570	10	0.34782	T	0.22	-18.0611	7.0975	0.25317	0.9013:0.0:0.0987:0.0	.	238	Q53FE4	CD017_HUMAN	A	238	ENSP00000322582:E238A;ENSP00000427663:E238A	ENSP00000322582:E238A	E	+	2	0	C4orf17	100679427	0.272000	0.24172	0.066000	0.19879	0.050000	0.14768	1.885000	0.39678	0.987000	0.38709	0.533000	0.62120	GAA		0.428	C4orf17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253670.2	NM_032149		C	100460404	A	C	100460404	3	2	665	1	0	0	0	0	1	0	0	0	2254	246	9	5	735	5	C4orf17	4	100460404	Missense_Mutation	SNP	A	TCGA-KN-8429-01A-11D-2310-10	27255142	100460404	90693872	20	42451										
TBCK	93627	broad.mit.edu	37	chr4	107154198	107154198	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	aacagttcatcgtactgatgAcagcgaggaatatccacttc	8	10	1	2	rs149535149		TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr4:107154198A>G	ENST00000273980.5	-	18	1983	c.1536T>C	c.(1534-1536)tgT>tgC	p.C512C	TBCK_ENST00000361687.4_Silent_p.C449C|TBCK_ENST00000394706.3_Silent_p.C473C|TBCK_ENST00000394708.2_Silent_p.C512C|TBCK_ENST00000432496.2_Silent_p.C512C					TBC1 domain containing kinase											NS(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(9)|ovary(1)|pancreas(1)|prostate(3)|stomach(1)|upper_aerodigestive_tract(1)	25						CGTACTGATGACAGCGAGGAA	0.363																																																0								A	,,,	0,4406		0,0,2203	122	116	118		1536,1536,1419,1347	1.5	1	4	dbSNP_134	118	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	TBCK	NM_001163435.1,NM_001163436.1,NM_001163437.1,NM_033115.3	,,,	0,1,6502	GG,GA,AA		0.0116,0.0,0.0077	,,,	512/894,512/894,473/855,449/831	107154198	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	93627				CCDS3673.1, CCDS54788.1, CCDS54789.1	4q24	2014-09-17			ENSG00000145348	ENSG00000145348			28261	protein-coding gene	gene with protein product						12471243	Standard	XR_427553		Approved	MGC16169, HSPC302	uc010ilv.2	Q8TEA7	OTTHUMG00000131214	ENST00000273980.5:c.1536T>C	4.37:g.107154198A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000273980.5	37	CCDS54788.1																																																																																				0.363	TBCK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253953.4	NM_033115		G	107154198	A	G	107154198	2	3	665	1	0	0	0	0	0	0	0	1	15648	273	10	3		3	TBCK	4	107154198	Silent	SNP	A	TCGA-KN-8429-01A-11D-2310-10	6693794	107154198	84000078	21	42452										
TERT	7015	broad.mit.edu	37	chr5	1294102	1294102	+	Frame_Shift_Del	DEL	C	C	-													0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	ggcccgcgtggtgctggcggCccacggatgggtgggagtgg							TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr5:1294102delC	ENST00000310581.5	-	2	956	c.899delG	c.(898-900)ggcfs	p.G300fs	TERT_ENST00000296820.5_Frame_Shift_Del_p.G300fs|TERT_ENST00000508104.2_Frame_Shift_Del_p.G300fs|TERT_ENST00000522877.1_5'Flank|TERT_ENST00000334602.6_Frame_Shift_Del_p.G300fs	NM_001193376.1|NM_198253.2	NP_001180305.1|NP_937983.2	O14746	TERT_HUMAN	telomerase reverse transcriptase	300	Linker.				DNA strand elongation (GO:0022616)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|replicative senescence (GO:0090399)|telomere formation via telomerase (GO:0032203)|telomere maintenance (GO:0000723)|telomere maintenance via telomerase (GO:0007004)	chromosome, telomeric region (GO:0000781)|cytoplasm (GO:0005737)|nuclear telomere cap complex (GO:0000783)|nucleoplasm (GO:0005654)|telomerase holoenzyme complex (GO:0005697)	metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|telomerase activity (GO:0003720)|telomeric DNA binding (GO:0042162)|telomeric RNA binding (GO:0070034)|telomeric template RNA reverse transcriptase activity (GO:0003721)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(2)|kidney(4)|large_intestine(3)|lung(22)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	41	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)		Zidovudine(DB00495)	GTGCTGGCGGCCCACGGATGG	0.677									TERT Mutation-Associated Haematological Disorders;Pulmonary Fibrosis, Idiopathic;Congenital Dyskeratosis																																							0													18	17	17					5																	1294102		2161	4254	6415	SO:0001589	frameshift_variant	7015	Familial Cancer Database	;Hamman-Rich syndrome, Fibrocystic Pulmonary Dysplasia;Zinsser-Engman-Cole syndrome, Dyskeratosis Congenita	AF015950	CCDS3861.2, CCDS54831.1	5p15.33	2014-09-17			ENSG00000164362	ENSG00000164362			11730	protein-coding gene	gene with protein product		187270				9252327	Standard	NM_198253		Approved	TRT, TP2, TCS1, hEST2, EST2	uc003jcb.1	O14746	OTTHUMG00000090357	ENST00000310581.5:c.899delG	5.37:g.1294102delC	ENSP00000309572:p.Gly300fs	Somatic		WXS	Illumina HiSeq	Phase_I	O14783|Q2XS35|Q8N6C3|Q8NG38|Q8NG46	Frame_Shift_Del	DEL	ENST00000310581.5	37	CCDS3861.2																																																																																				0.677	TERT-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000206729.2			-	1294102	C	-	1294102	7	5	665	1	0	1	0	1	0	0	0	0	15776	739	26	0	2559	0	TERT	5	1294102	Frame_Shift_Del	DEL	C	TCGA-KN-8429-01A-11D-2310-10		1294102	179621158	22	42453										
ERAP2	64167	bcgsc.ca	37	chr5	96232568	96232568	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	tgtggagcagtctgtcaaatGtaagtcatatgttgggtaac	12	5	3	0	rs75364820		TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr5:96232568G>A	ENST00000437043.3	+	9	2214		c.e9+1		CTD-2260A17.2_ENST00000501338.1_Intron|ERAP2_ENST00000515095.1_Splice_Site|ERAP2_ENST00000379904.4_Splice_Site	NM_001130140.1|NM_022350.3	NP_001123612.1|NP_071745.1	Q6P179	ERAP2_HUMAN	endoplasmic reticulum aminopeptidase 2						antigen processing and presentation of endogenous peptide antigen via MHC class I (GO:0019885)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|regulation of blood pressure (GO:0008217)	endoplasmic reticulum lumen (GO:0005788)|integral component of membrane (GO:0016021)	aminopeptidase activity (GO:0004177)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(6)|lung(6)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)	24		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)		TCTGTCAAATGTAAGTCATAT	0.323																																																0													106	115	112					5																	96232568		2203	4298	6501	SO:0001630	splice_region_variant	64167			AF191545	CCDS4086.1	5q15	2007-11-21			ENSG00000164308	ENSG00000164308			29499	protein-coding gene	gene with protein product	"leukocyte-derived arginine aminopeptidase"	609497				12799365, 15908954	Standard	NM_022350		Approved	L-RAP, LRAP	uc003kmt.3	Q6P179	OTTHUMG00000128718	ENST00000437043.3:c.1503+1G>A	5.37:g.96232568G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z5K1|Q8TD32|Q8WVJ4|Q9HBX2	Splice_Site	SNP	ENST00000437043.3	37	CCDS4086.1	.	.	.	.	.	.	.	.	.	.	G	11.61	1.690341	0.29962	.	.	ENSG00000164308	ENST00000437043;ENST00000510373;ENST00000513084;ENST00000379904	.	.	.	5.01	3.23	0.37069	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	10.6132	0.45434	0.1496:0.0:0.8504:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	ERAP2	96258324	1.000000	0.71417	0.243000	0.24186	0.446000	0.32137	6.798000	0.75155	0.630000	0.30394	0.563000	0.77884	.		0.323	ERAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250623.2	NM_022350	Intron	A	96232568	G	A	96232568	5	1	665	1	0	0	0	0	0	0	1	0	5206	1391	48	2	1534	2	ERAP2	5	96232568	Splice_Site	SNP	G	TCGA-KN-8429-01A-11D-2310-10	94938466	96232568	84682692	23	42454										
RNF145	153830	bcgsc.ca	37	chr5	158630640	158630640	+	5'UTR	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	agccatgttgttttttttttTctttttttttttcttggaga	6	4	2	1	rs368977591		TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr5:158630640T>C	ENST00000424310.2	-	0	345				RNF145_ENST00000520638.1_Missense_Mutation_p.K10E|RNF145_ENST00000521606.2_Missense_Mutation_p.K13E|RNF145_ENST00000518802.1_Missense_Mutation_p.K26E|RNF145_ENST00000274542.2_Missense_Mutation_p.K24E|RNF145_ENST00000519865.1_5'UTR	NM_001199383.1	NP_001186312.1	Q96MT1	RN145_HUMAN	ring finger protein 145							integral component of membrane (GO:0016021)	zinc ion binding (GO:0008270)			endometrium(7)|kidney(2)|large_intestine(5)|lung(9)|ovary(3)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	30	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			tttttttttttcttttttttt	0.368																																																0													33	36	35					5																	158630640		2203	4300	6503	SO:0001623	5_prime_UTR_variant	153830			BC042684	CCDS4344.1, CCDS56390.1, CCDS56391.1, CCDS56392.1, CCDS56393.1	5q33.3	2013-01-09			ENSG00000145860	ENSG00000145860		"RING-type (C3HC4) zinc fingers"	20853	protein-coding gene	gene with protein product							Standard	NM_001199380		Approved	FLJ31951	uc003lxo.2	Q96MT1	OTTHUMG00000130306	ENST00000424310.2:c.-15A>G	5.37:g.158630640T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z903|B7Z949|E7EVI7|Q8IVP7	Missense_Mutation	SNP	ENST00000424310.2	37	CCDS56390.1	.	.	.	.	.	.	.	.	.	.	T	0.006	-2.071233	0.00379	.	.	ENSG00000145860	ENST00000274542;ENST00000521606;ENST00000413445;ENST00000518802;ENST00000520638	T;T;T;T;T	0.77489	-1.09;-1.07;-1.07;-1.1;-1.06	1.66	0.33	0.15929	.	4.233800	0.00610	N	0.000418	T	0.52581	0.1743	N	0.08118	0	0.09310	N	0.999996	P;P;P;P;P	0.42584	0.784;0.544;0.544;0.544;0.673	B;B;B;B;B	0.28638	0.092;0.032;0.032;0.032;0.071	T	0.53711	-0.8400	10	0.41790	T	0.15	18.6048	3.7362	0.08511	0.0:0.2254:0.0:0.7746	.	12;13;10;26;24	E7EW26;B7Z949;B7Z903;E7EVI7;Q96MT1-2	.;.;.;.;.	E	24;12;13;26;10	ENSP00000274542:K24E;ENSP00000430753:K12E;ENSP00000445115:K13E;ENSP00000430955:K26E;ENSP00000429071:K10E	ENSP00000274542:K24E	K	-	1	0	RNF145	158563218	0.030000	0.19436	0.002000	0.10522	0.002000	0.02628	0.517000	0.22832	-0.074000	0.12820	-1.322000	0.01289	AAA		0.368	RNF145-002	PUTATIVE	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374048.1	NM_144726		C	158630640	T	C	158630640	1	2	665	0	1	0	0	0	0	0	0	0	13460	1792	62	3		3	RNF145	5	158630640	5'UTR	SNP	T	TCGA-KN-8429-01A-11D-2310-10	62398072	158630640	22284620	24	42455										
ELMO1	9844	broad.mit.edu	37	chr7	37136306	37136306	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	aagggacattcatgcttgtcTtctcgactactgttctcaag	8	10	4	0			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr7:37136306T>C	ENST00000310758.4	-	15	1865	c.1218A>G	c.(1216-1218)gaA>gaG	p.E406E	ELMO1_ENST00000442504.1_Silent_p.E406E|ELMO1_ENST00000341056.3_Silent_p.E108E|ELMO1_ENST00000448602.1_Silent_p.E406E	NM_001206480.1|NM_014800.10	NP_001193409.1|NP_055615.8	Q92556	ELMO1_HUMAN	engulfment and cell motility 1	406	ELMO. {ECO:0000255|PROSITE- ProRule:PRU00664}.				actin cytoskeleton organization (GO:0030036)|apoptotic process (GO:0006915)|cellular component movement (GO:0006928)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|phagocytosis, engulfment (GO:0006911)|Rac protein signal transduction (GO:0016601)|regulation of defense response to virus by virus (GO:0050690)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|membrane (GO:0016020)|plasma membrane (GO:0005886)	SH3 domain binding (GO:0017124)			breast(2)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(11)|liver(2)|lung(28)|ovary(3)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	58						CATGCTTGTCTTCTCGACTAC	0.408																																																0													177	142	154					7																	37136306		2203	4300	6503	SO:0001819	synonymous_variant	9844			AF398885	CCDS5449.1, CCDS5450.1	7p14.1	2012-07-10	2006-01-20		ENSG00000155849	ENSG00000155849		"Engulfment and cell motility proteins"	16286	protein-coding gene	gene with protein product		606420	"engulfment and cell motility 1 (ced-12 homolog, C. elegans)"			11595183	Standard	NM_001039459		Approved	KIAA0281, CED12, ELMO-1, CED-12	uc003tfk.2	Q92556	OTTHUMG00000023701	ENST00000310758.4:c.1218A>G	7.37:g.37136306T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A4D1X6|Q29R79|Q6ZTJ0|Q96PB0|Q9H0I1	Silent	SNP	ENST00000310758.4	37	CCDS5449.1	.	.	.	.	.	.	.	.	.	.	T	9.607	1.130145	0.21041	.	.	ENSG00000155849	ENST00000433246	.	.	.	4.96	4.96	0.65561	.	.	.	.	.	T	0.70762	0.3261	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.70510	-0.4852	4	.	.	.	.	14.9674	0.71204	0.0:0.0:0.0:1.0	.	.	.	.	R	186	.	.	K	-	2	0	ELMO1	37102831	0.999000	0.42202	1.000000	0.80357	0.988000	0.76386	0.469000	0.22067	1.998000	0.58463	0.460000	0.39030	AAG		0.408	ELMO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219830.4	NM_130442		C	37136306	T	C	37136306	2	2	665	1	0	0	0	0	0	0	0	1	5067	1606	56	3		3	ELMO1	7	37136306	Silent	SNP	T	TCGA-KN-8429-01A-11D-2310-10		37136306	122002357	25	42456										
ATP6V0A4	50617	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr7	138437565	138437566	+	Missense_Mutation	DNP	CT	CT	GA													0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	agcaggcgctggcggtgagaCtctgtttgtgttatgaccta							TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr7:138437565_138437566CT>GA	ENST00000310018.2	-	11	1115_1116	c.833_834AG>TC	c.(832-834)gAG>gTC	p.E278V	ATP6V0A4_ENST00000393054.1_Missense_Mutation_p.E278V|ATP6V0A4_ENST00000353492.4_Missense_Mutation_p.E278V	NM_020632.2|NM_130840.2	NP_065683.2|NP_570855.2	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit a4	278					ATP hydrolysis coupled proton transport (GO:0015991)|cellular iron ion homeostasis (GO:0006879)|excretion (GO:0007588)|insulin receptor signaling pathway (GO:0008286)|interaction with host (GO:0051701)|ossification (GO:0001503)|phagosome maturation (GO:0090382)|proton transport (GO:0015992)|regulation of pH (GO:0006885)|sensory perception of sound (GO:0007605)|transferrin transport (GO:0033572)|transmembrane transport (GO:0055085)	apical part of cell (GO:0045177)|apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|endosome (GO:0005768)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)|vacuolar proton-transporting V-type ATPase, V0 domain (GO:0000220)	ATPase binding (GO:0051117)|hydrogen ion transmembrane transporter activity (GO:0015078)			NS(1)|endometrium(3)|kidney(2)|large_intestine(10)|lung(15)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	36						GGCGGTGAGACTCTGTTTGTGT	0.495																																																0																																										SO:0001583	missense	50617			AF245517	CCDS5849.1	7q34	2011-06-09	2006-01-20	2002-05-10	ENSG00000105929	ENSG00000105929		"ATPases / V-type"	866	protein-coding gene	gene with protein product		605239	"ATPase, H+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 1B", "ATPase, H+ transporting, lysosomal V0 subunit a isoform 4", "ATPase, H+ transporting, lysosomal V0 subunit A4"	ATP6N1B, ATP6N2, RTA1C		10577919, 10973252	Standard	XM_005250393		Approved	RDRTA2, VPP2, RTADR, a4, Vph1, Stv1	uc003vuf.3	Q9HBG4	OTTHUMG00000157122	ENST00000310018.2:c.833_834delinsGA	7.37:g.138437565_138437566delinsGA	ENSP00000308122:p.Glu278Val	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1R4|A8KA80|Q32M47	Missense_Mutation	DNP	ENST00000310018.2	37	CCDS5849.1																																																																																				0.495	ATP6V0A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347514.1	NM_020632		GA	138437566	CT	GA	138437565	3	3	665	1	0	0	0	0	1	0	0	0	1170	564	20	4	1736	4	ATP6V0A4	7	138437565	Missense_Mutation	DNP	CT	TCGA-KN-8429-01A-11D-2310-10	101301259	138437565	20701098	26	42457	401	2								
ATP6V0A4	50617	bcgsc.ca	37	chr7	138437566	138437566	+	Missense_Mutation	SNP	T	T	A													0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	gcaggcgctggcggtgagacTctgtttgtgttatgacctat							TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr7:138437566T>A	ENST00000310018.2	-	11	1115	c.833A>T	c.(832-834)gAg>gTg	p.E278V	ATP6V0A4_ENST00000393054.1_Missense_Mutation_p.E278V|ATP6V0A4_ENST00000353492.4_Missense_Mutation_p.E278V	NM_020632.2|NM_130840.2	NP_065683.2|NP_570855.2	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit a4	278					ATP hydrolysis coupled proton transport (GO:0015991)|cellular iron ion homeostasis (GO:0006879)|excretion (GO:0007588)|insulin receptor signaling pathway (GO:0008286)|interaction with host (GO:0051701)|ossification (GO:0001503)|phagosome maturation (GO:0090382)|proton transport (GO:0015992)|regulation of pH (GO:0006885)|sensory perception of sound (GO:0007605)|transferrin transport (GO:0033572)|transmembrane transport (GO:0055085)	apical part of cell (GO:0045177)|apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|endosome (GO:0005768)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)|vacuolar proton-transporting V-type ATPase, V0 domain (GO:0000220)	ATPase binding (GO:0051117)|hydrogen ion transmembrane transporter activity (GO:0015078)			NS(1)|endometrium(3)|kidney(2)|large_intestine(10)|lung(15)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	36						GCGGTGAGACTCTGTTTGTGT	0.498																																																0													61	57	59					7																	138437566		2203	4300	6503	SO:0001583	missense	50617			AF245517	CCDS5849.1	7q34	2011-06-09	2006-01-20	2002-05-10	ENSG00000105929	ENSG00000105929		"ATPases / V-type"	866	protein-coding gene	gene with protein product		605239	"ATPase, H+ transporting, lysosomal (vacuolar proton pump) non-catalytic accessory protein 1B", "ATPase, H+ transporting, lysosomal V0 subunit a isoform 4", "ATPase, H+ transporting, lysosomal V0 subunit A4"	ATP6N1B, ATP6N2, RTA1C		10577919, 10973252	Standard	XM_005250393		Approved	RDRTA2, VPP2, RTADR, a4, Vph1, Stv1	uc003vuf.3	Q9HBG4	OTTHUMG00000157122	ENST00000310018.2:c.833A>T	7.37:g.138437566T>A	ENSP00000308122:p.Glu278Val	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1R4|A8KA80|Q32M47	Missense_Mutation	SNP	ENST00000310018.2	37	CCDS5849.1	.	.	.	.	.	.	.	.	.	.	T	26.9	4.777405	0.90195	.	.	ENSG00000105929	ENST00000310018;ENST00000393054;ENST00000353492	D;D;D	0.87256	-2.23;-2.23;-2.23	5.49	5.49	0.81192	.	0.152547	0.47455	D	0.000235	D	0.93966	0.8068	M	0.85859	2.78	0.58432	D	0.999999	D	0.89917	1.0	D	0.97110	1.0	D	0.94767	0.7941	10	0.72032	D	0.01	-28.8362	15.8766	0.79170	0.0:0.0:0.0:1.0	.	278	Q9HBG4	VPP4_HUMAN	V	278	ENSP00000308122:E278V;ENSP00000376774:E278V;ENSP00000253856:E278V	ENSP00000308122:E278V	E	-	2	0	ATP6V0A4	138088106	1.000000	0.71417	0.972000	0.41901	0.977000	0.68977	6.134000	0.71689	2.208000	0.71279	0.533000	0.62120	GAG		0.498	ATP6V0A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347514.1	NM_020632		A	138437566	T	A	138437566	3	1	665	1	0	0	0	0	1	0	0	0	1170	1551	54	5	1737	5	ATP6V0A4	7	138437566	Missense_Mutation	SNP	T	TCGA-KN-8429-01A-11D-2310-10	1	138437566	20701097	27	42458	401	2								
MNX1	3110	hgsc.bcm.edu;bcgsc.ca	37	chr7	156799223	156799223	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	cacctcgaagcgcttgggccGcgacaggtacttgttgagct	13	12	0	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr7:156799223G>A	ENST00000252971.6	-	2	1102	c.802C>T	c.(802-804)Cgg>Tgg	p.R268W	MNX1-AS2_ENST00000429228.1_RNA|MNX1_ENST00000469500.1_Intron|MNX1_ENST00000543409.1_Missense_Mutation_p.R56W	NM_005515.3	NP_005506.3	P50219	MNX1_HUMAN	motor neuron and pancreas homeobox 1	268					anatomical structure morphogenesis (GO:0009653)|diaphragm development (GO:0060539)|dorsal/ventral neural tube patterning (GO:0021904)|endocrine pancreas development (GO:0031018)|humoral immune response (GO:0006959)|motor neuron axon guidance (GO:0008045)|nerve development (GO:0021675)|neuron migration (GO:0001764)|post-embryonic development (GO:0009791)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|spinal cord motor neuron cell fate specification (GO:0021520)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(1)|large_intestine(1)|lung(4)|skin(1)	7	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGCTTGGGCCGCGACAGGTAC	0.697																																																0													44	43	43					7																	156799223		2202	4300	6502	SO:0001583	missense	3110			AF107457	CCDS34788.1, CCDS55187.1	7q36	2012-03-09	2007-08-09	2007-08-09	ENSG00000130675	ENSG00000130675		"Homeoboxes / ANTP class : HOXL subclass"	4979	protein-coding gene	gene with protein product		142994	"homeo box HB9", "homeobox HB9"	HLXB9		9843207	Standard	NM_001165255		Approved	HB9, HOXHB9, SCRA1	uc003wmz.4	P50219	OTTHUMG00000157181	ENST00000252971.6:c.802C>T	7.37:g.156799223G>A	ENSP00000252971:p.Arg268Trp	Somatic		WXS	Illumina HiSeq	Phase_I	F5H401|Q9Y648	Missense_Mutation	SNP	ENST00000252971.6	37	CCDS34788.1	.	.	.	.	.	.	.	.	.	.	G	19.42	3.824984	0.71143	.	.	ENSG00000130675	ENST00000252971;ENST00000543409;ENST00000542972;ENST00000428439	D;D;D	0.96459	-4.02;-4.02;-4.02	3.96	0.905	0.19307	Homeobox, eukaryotic (1);Homeodomain-related (1);Homeobox (3);Homeodomain-like (1);	0.000000	0.36972	U	0.002313	D	0.98479	0.9493	H	0.95850	3.73	0.42035	D	0.991044	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;0.998;0.995	D	0.98607	1.0661	10	0.87932	D	0	-27.5498	12.5851	0.56412	0.0:0.0:0.4215:0.5785	.	104;268;56	Q9UDY3;P50219;F5H401	.;MNX1_HUMAN;.	W	268;56;98;56	ENSP00000252971:R268W;ENSP00000438552:R56W;ENSP00000401158:R56W	ENSP00000252971:R268W	R	-	1	2	MNX1	156491984	0.467000	0.25831	0.845000	0.33349	0.985000	0.73830	0.680000	0.25306	-0.054000	0.13266	-0.276000	0.10085	CGG		0.697	MNX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347796.3			A	156799223	G	A	156799223	3	1	665	1	0	0	0	0	1	0	0	0	9686	1086	38	1	411	1	MNX1	7	156799223	Missense_Mutation	SNP	G	TCGA-KN-8429-01A-11D-2310-10	18361657	156799223	2339440	28	42459										
PPP1R3B	79660	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	8998708	8998708	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	cttctcaaatgcgaggttctGaaccttcacagtgcctgcaa	8	12	3	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr8:8998708G>A	ENST00000310455.3	-	2	604	c.454C>T	c.(454-456)Cag>Tag	p.Q152*	RP11-10A14.3_ENST00000522057.1_RNA|RP11-10A14.3_ENST00000520017.1_RNA|PPP1R3B_ENST00000519699.1_Nonsense_Mutation_p.Q152*	NM_001201329.1|NM_024607.3	NP_001188258.1|NP_078883.2	Q86XI6	PPR3B_HUMAN	protein phosphatase 1, regulatory subunit 3B	152	CBM21. {ECO:0000255|PROSITE- ProRule:PRU00491}.				glycogen metabolic process (GO:0005977)|regulation of glycogen biosynthetic process (GO:0005979)|regulation of glycogen catabolic process (GO:0005981)	glycogen granule (GO:0042587)|intracellular membrane-bounded organelle (GO:0043231)|protein phosphatase type 1 complex (GO:0000164)	protein phosphatase regulator activity (GO:0019888)			endometrium(1)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)|skin(1)	12				COAD - Colon adenocarcinoma(149;0.0717)|READ - Rectum adenocarcinoma(644;0.241)		GCGAGGTTCTGAACCTTCACA	0.478																																																0													188	161	170					8																	8998708		2203	4300	6503	SO:0001587	stop_gained	79660			AK024067	CCDS5973.1	8p23.1	2012-04-17	2011-10-04		ENSG00000173281	ENSG00000173281		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	14942	protein-coding gene	gene with protein product	"PP1 subunit R4", "hepatic glycogen-targeting subunit, G(L)"	610541	"protein phosphatase 1, regulatory (inhibitor) subunit 3B"			11948623, 17555403	Standard	NM_024607		Approved	GL, FLJ14005, PPP1R4	uc003wsn.4	Q86XI6	OTTHUMG00000129329	ENST00000310455.3:c.454C>T	8.37:g.8998708G>A	ENSP00000308318:p.Gln152*	Somatic		WXS	Illumina HiSeq	Phase_I	B3KTV3|Q9H812	Nonsense_Mutation	SNP	ENST00000310455.3	37	CCDS5973.1	.	.	.	.	.	.	.	.	.	.	G	38	7.007912	0.97998	.	.	ENSG00000173281	ENST00000310455;ENST00000519699	.	.	.	5.87	5.87	0.94306	.	0.098174	0.64402	D	0.000002	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-24.5559	12.7339	0.57212	0.0:0.0:0.7426:0.2574	.	.	.	.	X	152	.	ENSP00000308318:Q152X	Q	-	1	0	PPP1R3B	9036118	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	5.830000	0.69324	2.780000	0.95670	0.561000	0.74099	CAG		0.478	PPP1R3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251472.1	NM_024607		A	8998708	G	A	8998708	4	1	665	1	0	0	0	0	0	1	0	0	12382	1299	45	2	407	2	PPP1R3B	8	8998708	Nonsense_Mutation	SNP	G	TCGA-KN-8429-01A-11D-2310-10		8998708	137365314	29	42460										
DOCK5	80005	bcgsc.ca	37	chr8	25178551	25178551	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	tataagatttaccttccgacAcaggtcatctcaggaaagta	7	9	2	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr8:25178551A>G	ENST00000276440.7	+	16	1642	c.1598A>G	c.(1597-1599)cAc>cGc	p.H533R		NM_024940.6	NP_079216.4	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	533	DHR-1.				positive regulation of GTPase activity (GO:0043547)|small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)	guanyl-nucleotide exchange factor activity (GO:0005085)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(12)|kidney(9)|large_intestine(13)|lung(20)|ovary(3)|prostate(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	72		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)		ACCTTCCGACACAGGTCATCT	0.373																																					Pancreas(145;34 1887 3271 10937 30165)											0													76	68	71					8																	25178551		2203	4300	6503	SO:0001583	missense	80005				CCDS6047.1	8p21.2	2009-04-17			ENSG00000147459	ENSG00000147459			23476	protein-coding gene	gene with protein product						12432077	Standard	NM_024940		Approved	FLJ21034	uc003xeg.3	Q9H7D0	OTTHUMG00000131991	ENST00000276440.7:c.1598A>G	8.37:g.25178551A>G	ENSP00000276440:p.His533Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNY0|Q5XKD5|Q6AI11|Q6PJS6|Q6ZTS6	Missense_Mutation	SNP	ENST00000276440.7	37	CCDS6047.1	.	.	.	.	.	.	.	.	.	.	A	24.5	4.536956	0.85812	.	.	ENSG00000147459	ENST00000276440	T	0.17691	2.26	6.16	6.16	0.99307	.	0.000000	0.85682	D	0.000000	T	0.54532	0.1864	M	0.93375	3.41	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;0.999;1.0	T	0.66448	-0.5921	10	0.72032	D	0.01	.	16.8061	0.85666	1.0:0.0:0.0:0.0	.	523;308;533	D3DSS6;Q68DL4;Q9H7D0	.;.;DOCK5_HUMAN	R	533	ENSP00000276440:H533R	ENSP00000276440:H533R	H	+	2	0	DOCK5	25234468	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	8.692000	0.91284	2.367000	0.80283	0.528000	0.53228	CAC		0.373	DOCK5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254955.2	NM_024940		G	25178551	A	G	25178551	3	3	665	1	0	0	0	0	1	0	0	0	4692	159	6	3	1660	3	DOCK5	8	25178551	Missense_Mutation	SNP	A	TCGA-KN-8429-01A-11D-2310-10	16179843	25178551	121185471	30	42461										
FBXO16	157574	broad.mit.edu	37	chr8	28321189	28321189	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	aagatgtataaagataacacCcttggaagcttggttgtaaa	9	5	0	2			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr8:28321189C>A	ENST00000380254.2	-	4	430	c.282G>T	c.(280-282)agG>agT	p.R94S	FBXO16_ENST00000518734.1_Missense_Mutation_p.R82S|FBXO16_ENST00000517436.1_5'UTR|FBXO16_ENST00000346498.2_Missense_Mutation_p.R82S	NM_001258211.1|NM_172366.3	NP_001245140.1|NP_758954.1	Q8IX29	FBX16_HUMAN	F-box protein 16	94	F-box. {ECO:0000255|PROSITE- ProRule:PRU00080}.									large_intestine(2)|ovary(1)	3		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.121)|Kidney(114;0.144)|Colorectal(74;0.249)		AAGATAACACCCTTGGAAGCT	0.483																																																0													72	70	70					8																	28321189		2203	4300	6503	SO:0001583	missense	157574			AF453435	CCDS6068.1, CCDS59099.1	8p21.1	2008-02-05	2004-06-15		ENSG00000214050	ENSG00000214050		"F-boxes /  "other""	13618	protein-coding gene	gene with protein product		608519	"F-box only protein 16"			12243353	Standard	NM_172366		Approved	FBX16	uc003xgu.4	Q8IX29	OTTHUMG00000102147	ENST00000380254.2:c.282G>T	8.37:g.28321189C>A	ENSP00000369604:p.Arg94Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q3T1B2|Q3T1B3|Q3T1B4	Missense_Mutation	SNP	ENST00000380254.2	37	CCDS6068.1	.	.	.	.	.	.	.	.	.	.	C	18.47	3.630403	0.67015	.	.	ENSG00000214050	ENST00000380254;ENST00000346498;ENST00000518734;ENST00000517673	T;T;T;T	0.53857	1.04;1.04;1.04;0.6	5.63	1.67	0.24075	F-box domain, cyclin-like (2);F-box domain, Skp2-like (1);	0.000000	0.85682	U	0.000000	T	0.48660	0.1512	L	0.35542	1.07	0.80722	D	1	P;P;P	0.50156	0.832;0.932;0.932	P;P;P	0.54965	0.669;0.765;0.765	T	0.44636	-0.9315	10	0.87932	D	0	-46.5598	4.7587	0.13097	0.0:0.4167:0.2818:0.3015	.	82;82;94	Q3T1B3;Q3T1B2;Q8IX29	.;.;FBX16_HUMAN	S	94;82;82;94	ENSP00000369604:R94S;ENSP00000341416:R82S;ENSP00000429687:R82S;ENSP00000429390:R94S	ENSP00000341416:R82S	R	-	3	2	FBXO16	28377108	0.831000	0.29352	0.877000	0.34402	0.977000	0.68977	-0.041000	0.12084	0.088000	0.17205	-0.218000	0.12543	AGG		0.483	FBXO16-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000219988.2	NM_172366		A	28321189	C	A	28321189	3	1	665	1	0	0	0	0	1	0	0	0	5736	622	22	4	620	4	FBXO16	8	28321189	Missense_Mutation	SNP	C	TCGA-KN-8429-01A-11D-2310-10	3142638	28321189	118042833	31	42462										
ABCA1	19	hgsc.bcm.edu	37	chr9	107556793	107556794	+	Splice_Site	INS	-	-	A													0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	attgatattattcagcttctINSaaaaaaaaaaaaaaaaaatg					rs397938228|rs77663187|rs377469216		TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr9:107556793_107556794insA	ENST00000374736.3	-	40	5777		c.e40-2			NM_005502.3	NP_005493.2	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 1						apolipoprotein A-I-mediated signaling pathway (GO:0038027)|cellular lipid metabolic process (GO:0044255)|cellular response to cholesterol (GO:0071397)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to retinoic acid (GO:0071300)|cholesterol efflux (GO:0033344)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|endosomal transport (GO:0016197)|G-protein coupled receptor signaling pathway (GO:0007186)|high-density lipoprotein particle assembly (GO:0034380)|interleukin-1 beta secretion (GO:0050702)|intracellular cholesterol transport (GO:0032367)|lipoprotein metabolic process (GO:0042157)|lysosome organization (GO:0007040)|negative regulation of cholesterol storage (GO:0010887)|negative regulation of macrophage derived foam cell differentiation (GO:0010745)|peptide secretion (GO:0002790)|phagocytosis, engulfment (GO:0006911)|phospholipid efflux (GO:0033700)|phospholipid homeostasis (GO:0055091)|phospholipid translocation (GO:0045332)|platelet dense granule organization (GO:0060155)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of cholesterol efflux (GO:0010875)|protein lipidation (GO:0006497)|regulation of Cdc42 protein signal transduction (GO:0032489)|response to drug (GO:0042493)|response to laminar fluid shear stress (GO:0034616)|response to low-density lipoprotein particle (GO:0055098)|response to nutrient (GO:0007584)|reverse cholesterol transport (GO:0043691)|small molecule metabolic process (GO:0044281)	endocytic vesicle (GO:0030139)|external side of plasma membrane (GO:0009897)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|membrane raft (GO:0045121)|perinuclear region of cytoplasm (GO:0048471)|phagocytic vesicle (GO:0045335)|plasma membrane (GO:0005886)	anion transmembrane transporter activity (GO:0008509)|apolipoprotein A-I binding (GO:0034186)|apolipoprotein A-I receptor activity (GO:0034188)|apolipoprotein binding (GO:0034185)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase binding (GO:0051117)|cholesterol binding (GO:0015485)|cholesterol transporter activity (GO:0017127)|phospholipid binding (GO:0005543)|phospholipid transporter activity (GO:0005548)|receptor binding (GO:0005102)|small GTPase binding (GO:0031267)|syntaxin binding (GO:0019905)	p.?(2)		NS(1)|autonomic_ganglia(1)|breast(5)|central_nervous_system(2)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(31)|liver(1)|lung(40)|ovary(5)|pancreas(2)|prostate(4)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	115				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glyburide(DB01016)|Probucol(DB01599)	ATTCAGCTTCTAAAAAAAAAAA	0.406																																																2	Unknown(2)	lung(1)|kidney(1)																																								SO:0001630	splice_region_variant	19			AJ012376	CCDS6762.1	9q31	2014-03-14			ENSG00000165029	ENSG00000165029		"ATP binding cassette transporters / subfamily A"	29	protein-coding gene	gene with protein product	"Tangier disease"	600046		ABC1, HDLDT1		8088782, 10431236, 10431237, 10431238	Standard	NM_005502		Approved	TGD	uc004bcl.3	O95477	OTTHUMG00000020417	ENST00000374736.3:c.5383-2->T	9.37:g.107556804_107556804dupA		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VX33|Q96S56|Q96T85|Q9NQV4|Q9UN06|Q9UN07|Q9UN08|Q9UN09	Splice_Site	INS	ENST00000374736.3	37	CCDS6762.1																																																																																				0.406	ABCA1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053491.1	NM_005502	Intron	A	107556794	-	A	107556793	8	5	665	1	0	1	1	0	0	0	1	0	28	1536	53	0	1448	0	ABCA1	9	107556793	Splice_Site	INS	-	TCGA-KN-8429-01A-11D-2310-10		107556793	33656638	32	42463										
CUL2	8453	hgsc.bcm.edu;bcgsc.ca	37	chr10	35320289	35320289	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	tggataacccatgaattaaaCgttttgccagcattcttgcg	8	9	1	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr10:35320289C>T	ENST00000374748.1	-	15	1638	c.1325G>A	c.(1324-1326)cGt>cAt	p.R442H	CUL2_ENST00000374751.3_Missense_Mutation_p.R442H|CUL2_ENST00000374742.1_Missense_Mutation_p.R442H|CUL2_ENST00000537177.1_Missense_Mutation_p.R461H|CUL2_ENST00000374746.1_Missense_Mutation_p.R442H|CUL2_ENST00000374749.3_Missense_Mutation_p.R442H|CUL2_ENST00000602371.1_Missense_Mutation_p.R385H			Q13617	CUL2_HUMAN	cullin 2	442					cell cycle arrest (GO:0007050)|cellular response to hypoxia (GO:0071456)|G1/S transition of mitotic cell cycle (GO:0000082)|intrinsic apoptotic signaling pathway (GO:0097193)|negative regulation of cell proliferation (GO:0008285)|protein ubiquitination (GO:0016567)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|ubiquitin-dependent protein catabolic process (GO:0006511)|viral process (GO:0016032)	Cul2-RING ubiquitin ligase complex (GO:0031462)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|VCB complex (GO:0030891)	ubiquitin protein ligase binding (GO:0031625)			breast(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(11)|ovary(3)|prostate(2)|skin(1)|urinary_tract(2)	31						ATGAATTAAACGTTTTGCCAG	0.303																																																0													84	83	83					10																	35320289		2203	4300	6503	SO:0001583	missense	8453			U83410	CCDS7179.1, CCDS73086.1	10p11.2	2011-05-24			ENSG00000108094	ENSG00000108094			2552	protein-coding gene	gene with protein product		603135				8681378	Standard	NM_003591		Approved		uc021ppa.1	Q13617	OTTHUMG00000017950	ENST00000374748.1:c.1325G>A	10.37:g.35320289C>T	ENSP00000363880:p.Arg442His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KT95|B7Z6K8|D3DRY6|G3V1S2|O00200|Q5T2B6|Q9UNF9	Missense_Mutation	SNP	ENST00000374748.1	37	CCDS7179.1	.	.	.	.	.	.	.	.	.	.	C	28.4	4.914130	0.92178	.	.	ENSG00000108094	ENST00000374751;ENST00000374748;ENST00000374746;ENST00000374749;ENST00000374754;ENST00000374742;ENST00000537177	D;D;D;D;D;D	0.89939	-2.59;-2.59;-2.59;-2.59;-2.59;-2.59	5.87	4.97	0.65823	Cullin, N-terminal (1);Cullin homology (3);	0.000000	0.85682	D	0.000000	D	0.95335	0.8486	M	0.90198	3.095	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.96153	0.9109	10	0.87932	D	0	-18.5811	15.1993	0.73122	0.0:0.9322:0.0:0.0678	.	442;461;442	Q5T2B5;G3V1S2;Q13617	.;.;CUL2_HUMAN	H	442;442;442;442;385;442;461	ENSP00000363883:R442H;ENSP00000363880:R442H;ENSP00000363878:R442H;ENSP00000363881:R442H;ENSP00000363874:R442H;ENSP00000444856:R461H	ENSP00000363874:R442H	R	-	2	0	CUL2	35360295	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.814000	0.86154	1.477000	0.48234	0.591000	0.81541	CGT		0.303	CUL2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047538.1	NM_003591		T	35320289	C	T	35320289	3	4	665	1	0	0	0	0	1	0	0	0	4057	536	19	1	944	1	CUL2	10	35320289	Missense_Mutation	SNP	C	TCGA-KN-8429-01A-11D-2310-10		35320289	100214458	33	42464										
TDRD1	56165	broad.mit.edu	37	chr10	115973824	115973824	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	acagtagatgttgtggtctgTgtgatatatagtcctggaga	13	4	1	3			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr10:115973824T>C	ENST00000369280.1	+	16	2623	c.2163T>C	c.(2161-2163)tgT>tgC	p.C721C	TDRD1_ENST00000422662.1_Silent_p.C325C|TDRD1_ENST00000251864.2_Silent_p.C721C|TDRD1_ENST00000369281.2_Silent_p.C664C|TDRD1_ENST00000369282.1_Silent_p.C721C			Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	721					DNA methylation involved in gamete generation (GO:0043046)|gene silencing by RNA (GO:0031047)|germ cell development (GO:0007281)|meiotic nuclear division (GO:0007126)|multicellular organismal development (GO:0007275)|piRNA metabolic process (GO:0034587)|spermatogenesis (GO:0007283)	chromatoid body (GO:0033391)|cytoplasm (GO:0005737)|P granule (GO:0043186)|pi-body (GO:0071546)	metal ion binding (GO:0046872)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(15)|ovary(1)|prostate(2)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(5)	48		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		TTGTGGTCTGTGTGATATATA	0.373																																																0													281	261	268					10																	115973824		2203	4300	6503	SO:0001819	synonymous_variant	56165			AF285606	CCDS7588.1	10q26.11	2013-01-23			ENSG00000095627	ENSG00000095627		"Tudor domain containing"	11712	protein-coding gene	gene with protein product	"cancer/testis antigen 41.1"	605796				11279525	Standard	NM_198795		Approved	CT41.1	uc001lbg.1	Q9BXT4	OTTHUMG00000019083	ENST00000369280.1:c.2163T>C	10.37:g.115973824T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NEN3|A6NMN2|B3KVI4|B4E2L5|D3DRC2|Q4G0Y8|Q6P518|Q9H7B3	Silent	SNP	ENST00000369280.1	37																																																																																					0.373	TDRD1-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000050457.2			C	115973824	T	C	115973824	2	2	665	1	0	0	0	0	0	0	0	1	15742	1702	59	3		3	TDRD1	10	115973824	Silent	SNP	T	TCGA-KN-8429-01A-11D-2310-10	80653535	115973824	19560923	34	42465										
ANO9	338440	broad.mit.edu	37	chr11	421030	421030	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	gaagaggtccatcatgcagcCgctggcgtggcactgcgggg	17	11	1	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr11:421030C>T	ENST00000332826.6	-	17	1489	c.1405G>A	c.(1405-1407)Ggc>Agc	p.G469S		NM_001012302.2	NP_001012302	A1A5B4	ANO9_HUMAN	anoctamin 9	469					calcium activated galactosylceramide scrambling (GO:0061591)|calcium activated phosphatidylcholine scrambling (GO:0061590)|calcium activated phosphatidylserine scrambling (GO:0061589)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|ion transmembrane transport (GO:0034220)|negative regulation of intracellular calcium activated chloride channel activity (GO:1902939)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|intracellular (GO:0005622)|plasma membrane (GO:0005886)	intracellular calcium activated chloride channel activity (GO:0005229)|phospholipid scramblase activity (GO:0017128)			central_nervous_system(2)|cervix(1)|endometrium(3)|kidney(1)|lung(5)|ovary(1)|prostate(4)|skin(4)	21						ATCATGCAGCCGCTGGCGTGG	0.657																																																0													25	27	27					11																	421030		2201	4293	6494	SO:0001583	missense	338440			U33271	CCDS31326.1	11p15.5	2014-04-09	2008-08-28	2008-08-28	ENSG00000185101	ENSG00000185101		"Ion channels / Chloride channels : Calcium activated : Anoctamins"	20679	protein-coding gene	gene with protein product			"tumor protein p53 inducible protein 5", "transmembrane protein 16J"	TP53I5, TMEM16J		9305847, 24692353	Standard	NM_001012302		Approved	PIG5	uc001lpi.2	A1A5B4	OTTHUMG00000165446	ENST00000332826.6:c.1405G>A	11.37:g.421030C>T	ENSP00000332788:p.Gly469Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KUC4|B4E134|Q8TEN4	Missense_Mutation	SNP	ENST00000332826.6	37	CCDS31326.1	.	.	.	.	.	.	.	.	.	.	C	34	5.335785	0.95758	.	.	ENSG00000185101	ENST00000332826	T	0.71579	-0.58	3.99	3.99	0.46301	.	0.217963	0.38548	N	0.001644	D	0.85279	0.5660	M	0.85299	2.745	0.58432	D	0.999999	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.88270	0.2929	10	0.62326	D	0.03	.	16.4677	0.84087	0.0:1.0:0.0:0.0	.	170;469	A1A5B4-2;A1A5B4	.;ANO9_HUMAN	S	469	ENSP00000332788:G469S	ENSP00000332788:G469S	G	-	1	0	ANO9	411030	1.000000	0.71417	1.000000	0.80357	0.956000	0.61745	4.818000	0.62657	1.946000	0.56461	0.306000	0.20318	GGC		0.657	ANO9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384116.1	NM_001012302		T	421030	C	T	421030	3	4	665	1	0	0	0	0	1	0	0	0	704	652	23	1	971	1	ANO9	11	421030	Missense_Mutation	SNP	C	TCGA-KN-8429-01A-11D-2310-10		421030	134585486	35	42466										
MUC6	4588	broad.mit.edu	37	chr11	1018550	1018551	+	Frame_Shift_Ins	INS	-	-	G													0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	cagtgacaggacctgtggaaINSgggacgggactccccgccgt							TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr11:1018550_1018551insG	ENST00000421673.2	-	31	4300_4301	c.4250_4251insC	c.(4249-4251)cctfs	p.P1417fs		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1417	Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GACCTGTGGAAGGGACGGGACT	0.559																																																0																																										SO:0001589	frameshift_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4251dupC	11.37:g.1018553_1018553dupG	ENSP00000406861:p.Pro1417fs	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Frame_Shift_Ins	INS	ENST00000421673.2	37	CCDS44513.1																																																																																				0.559	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		G	1018551	-	G	1018550	7	5	665	1	0	1	1	0	0	0	0	0	9987	59	3	0	3080	0	MUC6	11	1018550	Frame_Shift_Ins	INS	-	TCGA-KN-8429-01A-11D-2310-10	597520	1018550	133987966	36	42467										
OR52M1	119772	mdanderson.org	37	chr11	4566711	4566711	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	gcttgtgacattggcctggaCgcctgcttgggccaaatgtt	13	10	0	1	rs2709182	byFrequency	TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr11:4566711C>T	ENST00000360213.1	+	1	291	c.291C>T	c.(289-291)gaC>gaT	p.D97D		NM_001004137.1	NP_001004137.1	Q8NGK5	O52M1_HUMAN	olfactory receptor, family 52, subfamily M, member 1	97						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(2)|large_intestine(2)|lung(9)|pancreas(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	18		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTGGCCTGGACGCCTGCTTGG	0.512													T|||	2190	0.4373	0.5174	0.3444	5008	,	,		21627	0.2639		0.492	False		,,,				2504	0.5174															0								T		2223,2179	585.3+/-386.2	556,1111,534	164	148	153		291	4.7	1	11	dbSNP_100	153	4454,4142	565.0+/-388.4	1154,2146,998	no	coding-synonymous	OR52M1	NM_001004137.1		1710,3257,1532	TT,TC,CC		48.1852,49.5002,48.6306		97/318	4566711	6677,6321	2201	4298	6499	SO:0001819	synonymous_variant	119772			AB065789	CCDS31353.1	11p15.4	2012-08-09	2002-11-13	2002-11-15	ENSG00000197790	ENSG00000197790		"GPCR / Class A : Olfactory receptors"	15225	protein-coding gene	gene with protein product			"olfactory receptor, family 52, subfamily M, member 1 pseudogene"	OR52M1P			Standard	NM_001004137		Approved		uc010qyf.2	Q8NGK5	OTTHUMG00000165706	ENST00000360213.1:c.291C>T	11.37:g.4566711C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000360213.1	37	CCDS31353.1																																																																																				0.512	OR52M1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385847.1	NM_001004137		T	4566711	C	T	4566711	2	4	665	1	0	0	0	0	0	0	0	1	11133	535	19	1		1	OR52M1	11	4566711	Silent	SNP	C	TCGA-KN-8429-01A-11D-2310-10	3548161	4566711	130439805	37	42468										
ANO3	63982	mdanderson.org	37	chr11	26569053	26569053	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	gcagcaattgttggtttgtgCgttttcttctatggattatt	10	5	2	0	rs201539223		TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr11:26569053C>T	ENST00000256737.3	+	12	2097	c.1245C>T	c.(1243-1245)tgC>tgT	p.C415C	ANO3_ENST00000529242.1_3'UTR|ANO3_ENST00000525139.1_Silent_p.C399C|ANO3_ENST00000537978.1_Silent_p.C399C|ANO3_ENST00000531568.1_Silent_p.C269C	NM_031418.2	NP_113606.2	Q9BYT9	ANO3_HUMAN	anoctamin 3	415					calcium activated galactosylceramide scrambling (GO:0061591)|calcium activated phosphatidylcholine scrambling (GO:0061590)|ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	phospholipid scramblase activity (GO:0017128)			breast(2)|central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(12)|lung(33)|ovary(2)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	68						TTGGTTTGTGCGTTTTCTTCT	0.368													C|||	1	0.000199681	0.0	0.0014	5008	,	,		17646	0.0		0.0	False		,,,				2504	0.0															0													320	287	298					11																	26569053		2203	4300	6503	SO:0001819	synonymous_variant	63982			AJ300461	CCDS31447.1	11p14.2	2014-04-09	2008-08-28	2008-08-28	ENSG00000134343	ENSG00000134343		"Ion channels / Chloride channels : Calcium activated : Anoctamins"	14004	protein-coding gene	gene with protein product	"transmembrane protein 16C (eight membrane-spanning domains)"	610110	"chromosome 11 open reading frame 25", "transmembrane protein 16C"	C11orf25, TMEM16C		12739008, 15067359, 23200863, 24692353	Standard	NM_031418		Approved	GENX-3947, DYT23	uc001mqt.4	Q9BYT9	OTTHUMG00000166096	ENST00000256737.3:c.1245C>T	11.37:g.26569053C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3F5	Silent	SNP	ENST00000256737.3	37	CCDS31447.1																																																																																				0.368	ANO3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000387806.1	NM_031418		T	26569053	C	T	26569053	2	4	665	1	0	0	0	0	0	0	0	1	698	776	27	1		1	ANO3	11	26569053	Silent	SNP	C	TCGA-KN-8429-01A-11D-2310-10	22002342	26569053	108437463	38	42469										
OR5D18	219438	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	55587779	55587779	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	ttatgcgttcattgttgtaaCcatcctcaagatgcgttcag	8	9	3	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr11:55587779C>T	ENST00000333976.4	+	1	694	c.674C>T	c.(673-675)aCc>aTc	p.T225I		NM_001001952.1	NP_001001952.1	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D, member 18	225						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(2)|breast(1)|endometrium(3)|large_intestine(6)|lung(33)|ovary(1)|prostate(3)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	55		all_epithelial(135;0.208)				ATTGTTGTAACCATCCTCAAG	0.488																																																0													171	141	151					11																	55587779		2200	4296	6496	SO:0001583	missense	219438			AB065781	CCDS31510.1	11q11	2012-08-09			ENSG00000186119	ENSG00000186119		"GPCR / Class A : Olfactory receptors"	15285	protein-coding gene	gene with protein product							Standard	NM_001001952		Approved		uc010rin.2	Q8NGL1	OTTHUMG00000166811	ENST00000333976.4:c.674C>T	11.37:g.55587779C>T	ENSP00000335025:p.Thr225Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF67|Q6IFD3|Q96RB3	Missense_Mutation	SNP	ENST00000333976.4	37	CCDS31510.1	.	.	.	.	.	.	.	.	.	.	.	5.664	0.307208	0.10733	.	.	ENSG00000186119	ENST00000333976	T	0.00193	8.58	4.73	4.73	0.59995	GPCR, rhodopsin-like superfamily (1);	0.000000	0.40640	N	0.001058	T	0.00384	0.0012	M	0.85859	2.78	0.09310	N	1	P	0.37330	0.59	B	0.43575	0.424	T	0.18903	-1.0322	10	0.72032	D	0.01	-52.0107	12.7851	0.57500	0.1644:0.8356:0.0:0.0	.	225	Q8NGL1	OR5DI_HUMAN	I	225	ENSP00000335025:T225I	ENSP00000335025:T225I	T	+	2	0	OR5D18	55344355	0.005000	0.15991	0.123000	0.21794	0.068000	0.16541	2.037000	0.41174	2.402000	0.81655	0.567000	0.79289	ACC		0.488	OR5D18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391515.1	NM_001001952		T	55587779	C	T	55587779	3	4	665	1	0	0	0	0	1	0	0	0	11164	507	18	2	676	2	OR5D18	11	55587779	Missense_Mutation	SNP	C	TCGA-KN-8429-01A-11D-2310-10	29018726	55587779	79418737	39	42470										
SF1	7536	mdanderson.org	37	chr11	64533401	64533401	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	gaagggtccatgggaggcggAggaggagggggcggggcata	24	5	0	0			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr11:64533401A>C	ENST00000377390.3	-	13	2146	c.1809T>G	c.(1807-1809)ccT>ccG	p.P603P	SF1_ENST00000433274.2_Silent_p.P577P|SF1_ENST00000422298.2_Intron|SF1_ENST00000489544.1_5'Flank|SF1_ENST00000227503.9_Intron|SF1_ENST00000377394.3_Intron|SF1_ENST00000334944.5_Intron|SF1_ENST00000377387.1_Intron	NM_004630.3	NP_004621.2	Q15637	SF01_HUMAN	splicing factor 1	603	Pro-rich.				Leydig cell differentiation (GO:0033327)|male sex determination (GO:0030238)|mRNA 3'-splice site recognition (GO:0000389)|mRNA splicing, via spliceosome (GO:0000398)|negative regulation of smooth muscle cell proliferation (GO:0048662)|regulation of steroid biosynthetic process (GO:0050810)|regulation of transcription, DNA-templated (GO:0006355)|spliceosomal complex assembly (GO:0000245)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|ribosome (GO:0005840)|spliceosomal complex (GO:0005681)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(12)|ovary(2)|skin(2)	31						TGGGAGGCGGAGGAGGAGGGG	0.726																																																0													8	8	8					11																	64533401		2124	4172	6296	SO:0001819	synonymous_variant	7536			D26120	CCDS8080.1, CCDS8081.1, CCDS31599.1, CCDS44642.1, CCDS44642.2, CCDS53660.1, CCDS53661.1	11q13	2014-09-17	2001-12-19	2002-01-11	ENSG00000168066	ENSG00000168066		"Zinc fingers, CCHC domain containing"	12950	protein-coding gene	gene with protein product		601516	"zinc finger protein 162"	ZNF162		7912130, 9573336	Standard	NM_201997		Approved	ZFM1, ZCCHC25	uc001oaz.2	Q15637	OTTHUMG00000066833	ENST00000377390.3:c.1809T>G	11.37:g.64533401A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z1Q1|C9JJE2|Q14818|Q14819|Q15913|Q8IY00|Q92744|Q92745|Q969H7|Q9BW01|Q9UEI0	Silent	SNP	ENST00000377390.3	37	CCDS31599.1	.	.	.	.	.	.	.	.	.	.	A	7.114	0.576643	0.13686	.	.	ENSG00000168066	ENST00000413725	.	.	.	4.73	0.919	0.19392	.	.	.	.	.	T	0.42607	0.1210	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.20107	-1.0285	4	.	.	.	.	1.9493	0.03363	0.4292:0.3236:0.0907:0.1565	.	.	.	.	R	173	.	.	L	-	2	0	SF1	64289977	1.000000	0.71417	0.999000	0.59377	0.997000	0.91878	1.067000	0.30616	-0.091000	0.12440	0.454000	0.30748	CTC		0.726	SF1-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000143242.1	NM_004630		C	64533401	A	C	64533401	2	2	665	1	0	0	0	0	0	0	0	1	14158	291	11	5		5	SF1	11	64533401	Silent	SNP	A	TCGA-KN-8429-01A-11D-2310-10	8945622	64533401	70473115	40	42471										
FGF6	2251	ucsc.edu	37	chr12	4554715	4554715	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	tccccgggacatagtgatgaAcagtttctgtcccagggcca	11	12	1	2			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr12:4554715A>G	ENST00000228837.2	-	1	65	c.22T>C	c.(22-24)Ttc>Ctc	p.F8L		NM_020996.1	NP_066276.2	P10767	FGF6_HUMAN	fibroblast growth factor 6	8					angiogenesis (GO:0001525)|cartilage condensation (GO:0001502)|cell proliferation (GO:0008283)|cell-cell signaling (GO:0007267)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|myoblast differentiation (GO:0045445)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell division (GO:0051781)|positive regulation of cell proliferation (GO:0008284)|signal transduction (GO:0007165)	extracellular region (GO:0005576)|sarcolemma (GO:0042383)	growth factor activity (GO:0008083)			NS(1)|breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(6)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	20			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)			ATAGTGATGAACAGTTTCTGT	0.582																																																0													49	56	54					12																	4554715		2203	4300	6503	SO:0001583	missense	2251			X63454	CCDS8527.1	12p13	2014-01-30				ENSG00000111241		"Endogenous ligands"	3684	protein-coding gene	gene with protein product		134921				16597617	Standard	NM_020996		Approved		uc001qmr.1	P10767		ENST00000228837.2:c.22T>C	12.37:g.4554715A>G	ENSP00000228837:p.Phe8Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAE1	Missense_Mutation	SNP	ENST00000228837.2	37	CCDS8527.1	.	.	.	.	.	.	.	.	.	.	A	6.186	0.402488	0.11696	.	.	ENSG00000111241	ENST00000228837	T	0.32753	1.44	5.0	1.03	0.20045	.	0.165360	0.56097	N	0.000034	T	0.08313	0.0207	N	0.01729	-0.75	0.31700	N	0.640804	B	0.02656	0.0	B	0.01281	0.0	T	0.40059	-0.9583	10	0.02654	T	1	.	7.2764	0.26288	0.3464:0.0:0.6536:0.0	.	8	P10767	FGF6_HUMAN	L	8	ENSP00000228837:F8L	ENSP00000228837:F8L	F	-	1	0	FGF6	4424976	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	3.502000	0.53332	0.365000	0.24400	0.459000	0.35465	TTC		0.582	FGF6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398939.1	NM_020996		G	4554715	A	G	4554715	3	3	665	1	0	0	0	0	1	0	0	0	5863	43	2	3	616	3	FGF6	12	4554715	Missense_Mutation	SNP	A	TCGA-KN-8429-01A-11D-2310-10		4554715	129297180	41	42472										
DDX11	1663	mdanderson.org	37	chr12	31242416	31242416	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	ctgtgtggacatgcagagaaGcaggcacggtagccactggg	16	9	0	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr12:31242416G>A	ENST00000407793.2	+	8	1123	c.872G>A	c.(871-873)aGc>aAc	p.S291N	DDX11_ENST00000545668.1_Missense_Mutation_p.S291N|DDX11_ENST00000542838.1_Missense_Mutation_p.S291N|DDX11_ENST00000228264.6_Missense_Mutation_p.S265N|DDX11_ENST00000350437.4_Missense_Mutation_p.S291N|DDX11_ENST00000251758.5_3'UTR	NM_030653.3|NM_152438.1	NP_085911.2|NP_689651.1	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11	291	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|ATP catabolic process (GO:0006200)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|sister chromatid cohesion (GO:0007062)|viral process (GO:0016032)	midbody (GO:0030496)|nuclear chromatin (GO:0000790)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle pole (GO:0000922)	4 iron, 4 sulfur cluster binding (GO:0051539)|ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA-dependent ATPase activity (GO:0008094)|double-stranded DNA binding (GO:0003690)|helicase activity (GO:0004386)|metal ion binding (GO:0046872)|RNA binding (GO:0003723)|single-stranded DNA binding (GO:0003697)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(11)|large_intestine(5)|lung(23)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	57	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					ATGCAGAGAAGCAGGCACGGT	0.512										Multiple Myeloma(12;0.14)																																						0													36	44	42					12																	31242416		2203	4300	6503	SO:0001583	missense	1663			U75969	CCDS8721.1, CCDS41767.1, CCDS44856.1, CCDS58224.1	12p11.21	2012-02-23	2012-02-23		ENSG00000013573	ENSG00000013573		"DEAD-boxes"	2736	protein-coding gene	gene with protein product	"CHL1-like helicase homolog (S. cerevisiae)"	601150	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11 (S.cerevisiae CHL1-like helicase)", "DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11"				Standard	NM_030653		Approved	CHLR1, KRG2, CHL1, ChlR1, WABS	uc001rjv.2	Q96FC9	OTTHUMG00000168435	ENST00000407793.2:c.872G>A	12.37:g.31242416G>A	ENSP00000384703:p.Ser291Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q13333|Q86VQ4|Q86W62|Q92498|Q92770|Q92998|Q92999	Missense_Mutation	SNP	ENST00000407793.2	37	CCDS44856.1	.	.	.	.	.	.	.	.	.	.	G	0.033	-1.321428	0.01320	.	.	ENSG00000013573	ENST00000542838;ENST00000407793;ENST00000228264;ENST00000438391;ENST00000545668;ENST00000350437	T;T;T;T;T;T	0.71579	-0.58;-0.58;-0.58;-0.58;-0.58;-0.58	3.45	0.218	0.15270	DEAD2 (1);Helicase-like, DEXD box c2 type (1);Helicase, superfamily 1/2, ATP-binding domain, DinG/Rad3-type (1);	0.418647	0.29424	N	0.012196	T	0.35508	0.0934	N	0.02357	-0.585	0.80722	D	1	B;B;B	0.12013	0.005;0.001;0.001	B;B;B	0.14023	0.01;0.003;0.004	T	0.04165	-1.0972	10	0.12103	T	0.63	.	5.4846	0.16743	0.5522:0.0:0.4478:0.0	.	291;291;291	Q96FC9;Q96FC9-4;Q96FC9-2	DDX11_HUMAN;.;.	N	291;291;265;262;291;291	ENSP00000443426:S291N;ENSP00000384703:S291N;ENSP00000228264:S265N;ENSP00000407646:S262N;ENSP00000440402:S291N;ENSP00000309965:S291N	ENSP00000228264:S265N	S	+	2	0	DDX11	31133683	1.000000	0.71417	0.242000	0.24170	0.022000	0.10575	3.115000	0.50391	0.180000	0.19960	0.505000	0.49811	AGC		0.512	DDX11-202	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000399728.1	NM_030653		A	31242416	G	A	31242416	3	1	665	1	0	0	0	0	1	0	0	0	4345	971	34	2	898	2	DDX11	12	31242416	Missense_Mutation	SNP	G	TCGA-KN-8429-01A-11D-2310-10	26687701	31242416	102609479	42	42473										
RPH3A	22895	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	113333605	113333605	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	tttttctatgacatcaaacaCagtgacctggcaaagaagtc	7	9	2	3			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr12:113333605C>G	ENST00000389385.4	+	21	2378	c.1881C>G	c.(1879-1881)caC>caG	p.H627Q	RPH3A_ENST00000543106.2_Missense_Mutation_p.H627Q|RPH3A_ENST00000551052.1_Missense_Mutation_p.H623Q|RPH3A_ENST00000415485.3_Missense_Mutation_p.H627Q|RPH3A_ENST00000548866.1_Missense_Mutation_p.H578Q|RPH3A_ENST00000447659.2_Missense_Mutation_p.H578Q|RPH3A_ENST00000420983.2_Missense_Mutation_p.H627Q|RPH3A_ENST00000549913.2_3'UTR	NM_001143854.1|NM_014954.3	NP_001137326.1|NP_055769.2	Q9Y2J0	RP3A_HUMAN	rabphilin 3A	627	C2 2. {ECO:0000255|PROSITE- ProRule:PRU00041}.				intracellular protein transport (GO:0006886)	cell junction (GO:0030054)|membrane (GO:0016020)|synaptic vesicle (GO:0008021)	calcium ion binding (GO:0005509)|calcium-dependent phospholipid binding (GO:0005544)|phosphatidylinositol phosphate binding (GO:1901981)|transporter activity (GO:0005215)			breast(1)|central_nervous_system(3)|cervix(2)|endometrium(2)|kidney(1)|large_intestine(8)|lung(16)|ovary(3)|prostate(4)|skin(6)|urinary_tract(1)	47				BRCA - Breast invasive adenocarcinoma(302;0.00453)		ACATCAAACACAGTGACCTGG	0.468																																																0													97	79	85					12																	113333605		2203	4300	6503	SO:0001583	missense	22895			AB023202	CCDS31904.1, CCDS44979.1	12q24.13	2014-07-02	2014-07-02		ENSG00000089169	ENSG00000089169		"Synaptotagmins"	17056	protein-coding gene	gene with protein product		612159	"rabphilin 3A homolog (mouse)"			10231032, 7822236	Standard	NM_014954		Approved	KIAA0985, rabphilin, exophilin-1	uc001ttz.3	Q9Y2J0	OTTHUMG00000169713	ENST00000389385.4:c.1881C>G	12.37:g.113333605C>G	ENSP00000374036:p.His627Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3C3|Q96AE0	Missense_Mutation	SNP	ENST00000389385.4	37	CCDS44979.1	.	.	.	.	.	.	.	.	.	.	C	17.75	3.466660	0.63625	.	.	ENSG00000089169	ENST00000543106;ENST00000389385;ENST00000447659;ENST00000551052;ENST00000415485;ENST00000548866;ENST00000420983;ENST00000549913	T;T;T;T;T;T;T	0.68479	-0.33;-0.33;-0.33;-0.33;-0.33;-0.33;-0.33	5.42	-1.8	0.07907	C2 membrane targeting protein (1);C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);Synaptotagmin (1);	0.000000	0.64402	D	0.000007	T	0.65903	0.2736	N	0.25789	0.76	0.52099	D	0.999943	D;P;D	0.89917	1.0;0.794;0.999	D;P;D	0.74348	0.983;0.53;0.969	T	0.61574	-0.7035	10	0.29301	T	0.29	.	13.0375	0.58881	0.0:0.6808:0.0:0.3192	.	578;627;623	F8VP47;Q9Y2J0;Q9Y2J0-2	.;RP3A_HUMAN;.	Q	627;627;578;623;627;578;627;279	ENSP00000440384:H627Q;ENSP00000374036:H627Q;ENSP00000413254:H578Q;ENSP00000448297:H623Q;ENSP00000405357:H627Q;ENSP00000450347:H578Q;ENSP00000408889:H627Q	ENSP00000374036:H627Q	H	+	3	2	RPH3A	111817988	0.990000	0.36364	0.969000	0.41365	0.996000	0.88848	0.331000	0.19733	-0.114000	0.11936	-0.137000	0.14449	CAC		0.468	RPH3A-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000405561.1	NM_014954		G	113333605	C	G	113333605	3	3	665	1	0	0	0	0	1	0	0	0	13564	477	17	4	1955	4	RPH3A	12	113333605	Missense_Mutation	SNP	C	TCGA-KN-8429-01A-11D-2310-10	82091189	113333605	20518290	43	42474										
TUBA3C	7278	mdanderson.org	37	chr13	19751292	19751292	+	Silent	SNP	T	T	C													0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	tcgtggtaggccttctcggcTgagatgaccggggcgtaggt					rs147482964	byFrequency	TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr13:19751292T>C	ENST00000400113.3	-	4	935	c.831A>G	c.(829-831)tcA>tcG	p.S277S		NM_006001.2	NP_005992.1	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	277					'de novo' posttranslational protein folding (GO:0051084)|cellular protein metabolic process (GO:0044267)|microtubule-based process (GO:0007017)|protein folding (GO:0006457)|protein polymerization (GO:0051258)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|biliary_tract(1)|breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(12)|lung(33)|ovary(4)|prostate(7)|skin(7)|urinary_tract(1)	72		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		CCTTCTCGGCTGAGATGACCG	0.612																																																0													131	119	123					13																	19751292		2203	4300	6503	SO:0001819	synonymous_variant	7278			AF005392	CCDS9284.1	13q12.11	2007-06-20	2007-02-12	2007-02-12	ENSG00000198033	ENSG00000198033		"Tubulins"	12408	protein-coding gene	gene with protein product		602528	"tubulin, alpha 2"	TUBA2		9465305	Standard	NM_006001		Approved	bA408E5.3	uc009zzj.3	Q13748	OTTHUMG00000016481	ENST00000400113.3:c.831A>G	13.37:g.19751292T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NJQ0|Q5W099|Q6PEY3|Q96F18	Silent	SNP	ENST00000400113.3	37	CCDS9284.1																																																																																				0.612	TUBA3C-002	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044007.2	NM_006001		C	19751292	T	C	19751292	2	2	665	1	0	0	0	0	0	0	0	1	16758	1567	55	3		3	TUBA3C	13	19751292	Silent	SNP	T	TCGA-KN-8429-01A-11D-2310-10		19751292	95418586	44	42475	402	2								
TUBA3C	7278	mdanderson.org	37	chr13	19751301	19751301	+	Silent	SNP	C	C	T													0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	gccttctcggctgagatgacCggggcgtaggtggccagggg					rs140548354		TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr13:19751301C>T	ENST00000400113.3	-	4	926	c.822G>A	c.(820-822)ccG>ccA	p.P274P		NM_006001.2	NP_005992.1	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	274					'de novo' posttranslational protein folding (GO:0051084)|cellular protein metabolic process (GO:0044267)|microtubule-based process (GO:0007017)|protein folding (GO:0006457)|protein polymerization (GO:0051258)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|biliary_tract(1)|breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(12)|lung(33)|ovary(4)|prostate(7)|skin(7)|urinary_tract(1)	72		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		CTGAGATGACCGGGGCGTAGG	0.607																																																0													123	114	117					13																	19751301		2203	4300	6503	SO:0001819	synonymous_variant	7278			AF005392	CCDS9284.1	13q12.11	2007-06-20	2007-02-12	2007-02-12	ENSG00000198033	ENSG00000198033		"Tubulins"	12408	protein-coding gene	gene with protein product		602528	"tubulin, alpha 2"	TUBA2		9465305	Standard	NM_006001		Approved	bA408E5.3	uc009zzj.3	Q13748	OTTHUMG00000016481	ENST00000400113.3:c.822G>A	13.37:g.19751301C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NJQ0|Q5W099|Q6PEY3|Q96F18	Silent	SNP	ENST00000400113.3	37	CCDS9284.1																																																																																				0.607	TUBA3C-002	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044007.2	NM_006001		T	19751301	C	T	19751301	2	4	665	1	0	0	0	0	0	0	0	1	16758	639	23	1		1	TUBA3C	13	19751301	Silent	SNP	C	TCGA-KN-8429-01A-11D-2310-10	9	19751301	95418577	45	42476	402	2								
MLNR	2862	broad.mit.edu	37	chr13	49794805	49794805	+	Frame_Shift_Del	DEL	G	G	-													0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	ggtgttcgggccgctgctctGccgcctgtccctctacgtgg							TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr13:49794805delG	ENST00000218721.1	+	1	332	c.332delG	c.(331-333)tgcfs	p.C111fs	MLNR_ENST00000398307.1_Frame_Shift_Del_p.C111fs	NM_001507.1	NP_001498.1	O43193	MTLR_HUMAN	motilin receptor	111					digestion (GO:0007586)|G-protein coupled receptor signaling pathway (GO:0007186)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|growth hormone-releasing hormone receptor activity (GO:0016520)			endometrium(3)|large_intestine(4)|lung(5)|ovary(1)|prostate(1)	14		all_lung(13;8.31e-06)|Lung NSC(96;0.000251)|Breast(56;0.0008)|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;6.1e-09)		CCGCTGCTCTGCCGCCTGTCC	0.706																																																0													20	18	19					13																	49794805		2199	4298	6497	SO:0001589	frameshift_variant	2862			AF034632	CCDS9414.1	13q14-q21	2012-08-08	2004-05-27	2004-05-28	ENSG00000102539	ENSG00000102539		"GPCR / Class A : Motilin receptors"	4495	protein-coding gene	gene with protein product		602885	"G protein-coupled receptor 38"	GPR38		9441746	Standard	NM_001507		Approved		uc010tgj.2	O43193	OTTHUMG00000016909	ENST00000218721.1:c.332delG	13.37:g.49794805delG	ENSP00000218721:p.Cys111fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000218721.1	37	CCDS9414.1																																																																																				0.706	MLNR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044897.1	NM_001507		-	49794805	G	-	49794805	7	5	665	1	0	1	0	1	0	0	0	0	9639	1319	46	0	334	0	MLNR	13	49794805	Frame_Shift_Del	DEL	G	TCGA-KN-8429-01A-11D-2310-10	30043504	49794805	65375073	46	42477										
DACT1	51339	mdanderson.org	37	chr14	59112179	59112179	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	ttcatgctgtggctgtgcagAgcccaatgtttctcctttgt	10	10	2	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr14:59112179A>G	ENST00000335867.4	+	4	862	c.838A>G	c.(838-840)Agc>Ggc	p.S280G	DACT1_ENST00000556859.1_5'UTR|DACT1_ENST00000555845.1_3'UTR|DACT1_ENST00000541264.2_5'UTR|DACT1_ENST00000395153.3_Missense_Mutation_p.S243G			Q9NYF0	DACT1_HUMAN	dishevelled-binding antagonist of beta-catenin 1	280					dendrite morphogenesis (GO:0048813)|embryonic hindgut morphogenesis (GO:0048619)|gastrulation with mouth forming second (GO:0001702)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of JNK cascade (GO:0046329)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of Wnt signaling pathway (GO:0030178)|positive regulation of catenin import into nucleus (GO:0035413)|positive regulation of fat cell differentiation (GO:0045600)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of Wnt signaling pathway (GO:0030177)|regulation of catenin import into nucleus (GO:0035412)|regulation of protein stability (GO:0031647)|regulation of Wnt signaling pathway, planar cell polarity pathway (GO:2000095)|synapse organization (GO:0050808)|Wnt signaling pathway (GO:0016055)	beta-catenin destruction complex (GO:0030877)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|synapse (GO:0045202)	beta-catenin binding (GO:0008013)|delta-catenin binding (GO:0070097)|protein kinase A binding (GO:0051018)|protein kinase C binding (GO:0005080)			endometrium(7)|kidney(3)|large_intestine(11)|lung(27)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	53						GGCTGTGCAGAGCCCAATGTT	0.502																																																0													144	132	136					14																	59112179		2203	4300	6503	SO:0001583	missense	51339			AF251079	CCDS9736.1, CCDS41961.1	14q22.3	2013-05-15	2013-05-15		ENSG00000165617	ENSG00000165617			17748	protein-coding gene	gene with protein product		607861	"dapper homolog 1, antagonist of beta-catenin (xenopus)", "dapper, antagonist of beta-catenin, homolog 1 (Xenopus laevis)"			11970895	Standard	NM_001079520		Approved	DAPPER1, THYEX3, HDPR1, DAPPER, FRODO	uc001xdw.3	Q9NYF0	OTTHUMG00000140324	ENST00000335867.4:c.838A>G	14.37:g.59112179A>G	ENSP00000337439:p.Ser280Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MYJ2|Q86TY0	Missense_Mutation	SNP	ENST00000335867.4	37	CCDS9736.1	.	.	.	.	.	.	.	.	.	.	A	22.4	4.289521	0.80914	.	.	ENSG00000165617	ENST00000395153;ENST00000335867	T;T	0.69306	-0.39;-0.39	5.71	5.71	0.89125	.	0.101407	0.64402	D	0.000001	D	0.83184	0.5199	M	0.83603	2.65	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.85130	0.997;0.996	D	0.85748	0.1341	10	0.72032	D	0.01	-21.4663	15.979	0.80091	1.0:0.0:0.0:0.0	.	243;280	A8MYJ2;Q9NYF0	.;DACT1_HUMAN	G	243;280	ENSP00000378582:S243G;ENSP00000337439:S280G	ENSP00000337439:S280G	S	+	1	0	DACT1	58181932	1.000000	0.71417	1.000000	0.80357	0.930000	0.56654	7.122000	0.77169	2.182000	0.69389	0.460000	0.39030	AGC		0.502	DACT1-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000325515.1	NM_016651		G	59112179	A	G	59112179	3	3	665	1	0	0	0	0	1	0	0	0	4224	304	11	3	852	3	DACT1	14	59112179	Missense_Mutation	SNP	A	TCGA-KN-8429-01A-11D-2310-10		59112179	48237361	47	42478										
ENTPD5	957	broad.mit.edu	37	chr14	74443082	74443082	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	ctccccctaggtccaaggtcCccacagtctcctgtctgtgg	9	17	2	0	rs375628237		TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr14:74443082C>T	ENST00000334696.6	-	9	906	c.587G>A	c.(586-588)gGg>gAg	p.G196E	ENTPD5_ENST00000557325.1_Missense_Mutation_p.G196E	NM_001249.2	NP_001240.1	O75356	ENTP5_HUMAN	ectonucleoside triphosphate diphosphohydrolase 5	196					'de novo' posttranslational protein folding (GO:0051084)|ATP metabolic process (GO:0046034)|cell growth (GO:0016049)|cell proliferation (GO:0008283)|positive regulation of glycolytic process (GO:0045821)|protein N-linked glycosylation (GO:0006487)|regulation of phosphatidylinositol 3-kinase signaling (GO:0014066)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)	guanosine-diphosphatase activity (GO:0004382)|uridine-diphosphatase activity (GO:0045134)			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(2)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	10				BRCA - Breast invasive adenocarcinoma(234;0.00394)		GTCCAAGGTCCCCACAGTCTC	0.542																																																0								C	GLU/GLY	2,4404	4.2+/-10.8	0,2,2201	102	87	92		587	5.5	1	14		92	0,8600		0,0,4300	no	missense	ENTPD5	NM_001249.2	98	0,2,6501	TT,TC,CC		0.0,0.0454,0.0154	probably-damaging	196/429	74443082	2,13004	2203	4300	6503	SO:0001583	missense	957			AF039918	CCDS9825.1	14q24	2003-10-03	2003-10-03			ENSG00000187097			3367	protein-coding gene	gene with protein product		603162	"proto-oncogene CPH"	CD39L4, PCPH		9271669, 9676430	Standard	NM_001249		Approved	NTPDase-5	uc010tuo.2	O75356		ENST00000334696.6:c.587G>A	14.37:g.74443082C>T	ENSP00000335246:p.Gly196Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A1L4C5|Q96RX0	Missense_Mutation	SNP	ENST00000334696.6	37	CCDS9825.1	.	.	.	.	.	.	.	.	.	.	C	35	5.438026	0.96168	4.54E-4	0.0	ENSG00000187097	ENST00000557325;ENST00000334696;ENST00000553284	T;T;T	0.23552	1.9;1.9;1.9	5.53	5.53	0.82687	.	0.000000	0.85682	D	0.000000	T	0.66982	0.2845	H	0.96175	3.78	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.77392	-0.2605	10	0.87932	D	0	-3.7302	19.6556	0.95837	0.0:1.0:0.0:0.0	.	196;196	O75356;G3V4I0	ENTP5_HUMAN;.	E	196	ENSP00000451810:G196E;ENSP00000335246:G196E;ENSP00000451591:G196E	ENSP00000335246:G196E	G	-	2	0	ENTPD5	73512835	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	6.687000	0.74552	2.882000	0.98803	0.655000	0.94253	GGG		0.542	ENTPD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412637.1	NM_001249		T	74443082	C	T	74443082	3	4	665	1	0	0	0	0	1	0	0	0	5144	623	22	2	731	2	ENTPD5	14	74443082	Missense_Mutation	SNP	C	TCGA-KN-8429-01A-11D-2310-10	15330903	74443082	32906458	48	42479										
KIAA1409	57578	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr14	93963546	93963546	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	tgggccttcacaagtgaagcCtccagctgtgcaaatgcttt	10	11	1	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr14:93963546C>A	ENST00000393151.2	+	7	812	c.812C>A	c.(811-813)cCt>cAt	p.P271H	UNC79_ENST00000553484.1_Missense_Mutation_p.P271H|UNC79_ENST00000256339.4_Missense_Mutation_p.P94H|UNC79_ENST00000555664.1_Missense_Mutation_p.P271H			Q9P2D8	UNC79_HUMAN	unc-79 homolog (C. elegans)	271					behavioral response to ethanol (GO:0048149)|ion transmembrane transport (GO:0034220)|multicellular organism growth (GO:0035264)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(3)|cervix(2)|endometrium(10)|kidney(7)|large_intestine(18)|liver(1)|lung(64)|ovary(1)|prostate(5)|skin(3)|urinary_tract(4)	118						CAAGTGAAGCCTCCAGCTGTG	0.438																																																0													98	91	93					14																	93963546		2203	4300	6503	SO:0001583	missense	57578			AB037830	CCDS9911.2	14q32.13	2011-08-18	2011-08-18	2011-08-18	ENSG00000133958	ENSG00000133958			19966	protein-coding gene	gene with protein product			"KIAA1409"	KIAA1409		20714347, 21040849	Standard	NM_020818		Approved		uc001ybs.1	Q9P2D8	OTTHUMG00000029783	ENST00000393151.2:c.812C>A	14.37:g.93963546C>A	ENSP00000376858:p.Pro271His	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDL6|Q6ZUT7	Missense_Mutation	SNP	ENST00000393151.2	37		.	.	.	.	.	.	.	.	.	.	C	20.2	3.944488	0.73672	.	.	ENSG00000133958	ENST00000256339;ENST00000555664;ENST00000553484;ENST00000393151;ENST00000393153	T;T;T;T	0.18016	2.25;2.24;2.24;2.24	5.48	5.48	0.80851	.	0.000000	0.85682	D	0.000000	T	0.34687	0.0906	L	0.36672	1.1	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	T	0.01824	-1.1266	10	0.44086	T	0.13	-14.0484	19.3549	0.94408	0.0:1.0:0.0:0.0	.	271	C9JQL1	.	H	94;271;271;271;271	ENSP00000256339:P94H;ENSP00000450868:P271H;ENSP00000451360:P271H;ENSP00000376858:P271H	ENSP00000256339:P94H	P	+	2	0	KIAA1409	93033299	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.818000	0.86416	2.569000	0.86673	0.563000	0.77884	CCT		0.438	UNC79-006	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000412766.1	XM_028395		A	93963546	C	A	93963546	3	1	665	1	0	0	0	0	1	0	0	0	8237	681	24	4	295	4	KIAA1409	14	93963546	Missense_Mutation	SNP	C	TCGA-KN-8429-01A-11D-2310-10	19520464	93963546	13385994	49	42480										
EPB42	2038	broad.mit.edu	37	chr15	43499534	43499534	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	cctcacagcacttccagaccAcacatgaggcatttatggca	7	14	1	2			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr15:43499534A>G	ENST00000441366.2	-	9	1406	c.1181T>C	c.(1180-1182)gTg>gCg	p.V394A	EPB42_ENST00000563128.1_5'Flank|EPB42_ENST00000300215.3_Missense_Mutation_p.V424A|EPB42_ENST00000540029.1_Missense_Mutation_p.V316A	NM_000119.2|NM_001114134.1	NP_000110.2|NP_001107606.1	P16452	EPB42_HUMAN	erythrocyte membrane protein band 4.2	394					cell morphogenesis (GO:0000902)|erythrocyte maturation (GO:0043249)|hemoglobin metabolic process (GO:0020027)|iron ion homeostasis (GO:0055072)|peptide cross-linking (GO:0018149)|regulation of cell shape (GO:0008360)|spleen development (GO:0048536)	cortical cytoskeleton (GO:0030863)|cytoskeleton (GO:0005856)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|protein-glutamine gamma-glutamyltransferase activity (GO:0003810)|structural constituent of cytoskeleton (GO:0005200)			endometrium(3)|large_intestine(6)|lung(6)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	20		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.7e-07)		CTTCCAGACCACACATGAGGC	0.562																																																0													111	79	90					15																	43499534		2203	4299	6502	SO:0001583	missense	2038			M60298	CCDS10093.1, CCDS45249.1	15q15-q21	2013-05-02			ENSG00000166947	ENSG00000166947		"Transglutaminases"	3381	protein-coding gene	gene with protein product	"Erythrocyte surface protein band 4.2"	177070				1284644	Standard	NM_000119		Approved	PA, MGC116735, MGC116737	uc001zrb.4	P16452	OTTHUMG00000130701	ENST00000441366.2:c.1181T>C	15.37:g.43499534A>G	ENSP00000396616:p.Val394Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q4KKX0|Q4VB97	Missense_Mutation	SNP	ENST00000441366.2	37	CCDS45249.1	.	.	.	.	.	.	.	.	.	.	A	9.956	1.221440	0.22457	.	.	ENSG00000166947	ENST00000300215;ENST00000540029;ENST00000441366	T;T;T	0.54279	0.58;0.58;0.58	6.02	3.62	0.41486	.	0.538253	0.21503	N	0.073494	T	0.45337	0.1337	M	0.63208	1.945	0.28107	N	0.93115	B;B;B;B	0.20052	0.041;0.007;0.023;0.007	B;B;B;B	0.19946	0.027;0.005;0.011;0.005	T	0.39272	-0.9622	10	0.46703	T	0.11	-14.4242	5.6677	0.17704	0.7642:0.0:0.0833:0.1525	.	316;394;424;394	F5H563;B7Z4C3;P16452-2;P16452	.;.;.;EPB42_HUMAN	A	424;316;394	ENSP00000300215:V424A;ENSP00000444699:V316A;ENSP00000396616:V394A	ENSP00000300215:V424A	V	-	2	0	EPB42	41286826	0.084000	0.21492	0.995000	0.50966	0.008000	0.06430	1.606000	0.36826	2.299000	0.77371	0.528000	0.53228	GTG		0.562	EPB42-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000432219.1	NM_000119		G	43499534	A	G	43499534	3	3	665	1	0	0	0	0	1	0	0	0	5160	159	6	3	914	3	EPB42	15	43499534	Missense_Mutation	SNP	A	TCGA-KN-8429-01A-11D-2310-10		43499534	59031858	50	42481										
THSD4	79875	mdanderson.org	37	chr15	72040774	72040774	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	tttcagtgctcggtgccctgCggcgtgggacagaggacccg	16	12	1	1	rs1872056	byFrequency	TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr15:72040774C>T	ENST00000355327.3	+	14	2390	c.2256C>T	c.(2254-2256)tgC>tgT	p.C752C	THSD4_ENST00000357769.4_Silent_p.C392C|THSD4_ENST00000567838.1_3'UTR|THSD4_ENST00000261862.6_Silent_p.C752C			Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	752	TSP type-1 3. {ECO:0000255|PROSITE- ProRule:PRU00210}.				elastic fiber assembly (GO:0048251)	extracellular vesicular exosome (GO:0070062)|microfibril (GO:0001527)	metalloendopeptidase activity (GO:0004222)			breast(1)|central_nervous_system(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(20)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	42						CGGTGCCCTGCGGCGTGGGAC	0.562													C|||	998	0.199281	0.3086	0.147	5008	,	,		19695	0.0823		0.2644	False		,,,				2504	0.1421															0								C		1281,3079		190,901,1089	121	135	130		2256	-8.4	0.6	15	dbSNP_92	130	2145,6401		312,1521,2440	no	coding-synonymous	THSD4	NM_024817.2		502,2422,3529	TT,TC,CC		25.0995,29.3807,26.5458		752/1019	72040774	3426,9480	2180	4273	6453	SO:0001819	synonymous_variant	79875			AK023772	CCDS10238.2, CCDS66817.1	15q23	2009-11-09			ENSG00000187720	ENSG00000187720			25835	protein-coding gene	gene with protein product		614476				19734141	Standard	NM_001286429		Approved	FVSY9334, PRO34005, FLJ13710, ADAMTSL6	uc002atb.1	Q6ZMP0	OTTHUMG00000133389	ENST00000355327.3:c.2256C>T	15.37:g.72040774C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RTY3|B4DR13|Q6MZI3|Q6UXZ8|Q9H8E4	Silent	SNP	ENST00000355327.3	37	CCDS10238.2																																																																																				0.562	THSD4-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257253.2	NM_024817		T	72040774	C	T	72040774	2	4	665	1	0	0	0	0	0	0	0	1	15890	776	27	1		1	THSD4	15	72040774	Silent	SNP	C	TCGA-KN-8429-01A-11D-2310-10	28541240	72040774	30490618	51	42482										
RASGRF1	5923	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	79324635	79324635	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	ttggtagatgttgagcatggGcagcaggatgtcaaataggt	15	4	1	2			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr15:79324635G>A	ENST00000419573.3	-	7	1256	c.982C>T	c.(982-984)Ccc>Tcc	p.P328S	RASGRF1_ENST00000560334.1_5'UTR|RASGRF1_ENST00000558480.2_Missense_Mutation_p.P328S	NM_002891.4	NP_002882.3	Q13972	RGRF1_HUMAN	Ras protein-specific guanine nucleotide-releasing factor 1	328	DH. {ECO:0000255|PROSITE- ProRule:PRU00062}.				activation of Rac GTPase activity (GO:0032863)|cell proliferation (GO:0008283)|long-term memory (GO:0007616)|neuron projection development (GO:0031175)|positive regulation of Ras GTPase activity (GO:0032320)|positive regulation of Ras protein signal transduction (GO:0046579)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)|regulation of neuronal synaptic plasticity (GO:0048168)|regulation of Rac protein signal transduction (GO:0035020)|regulation of Ras protein signal transduction (GO:0046578)|regulation of synaptic plasticity (GO:0048167)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)|synaptic transmission (GO:0007268)	cytosol (GO:0005829)|growth cone (GO:0030426)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)	guanyl-nucleotide exchange factor activity (GO:0005085)|Ras guanyl-nucleotide exchange factor activity (GO:0005088)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(2)|central_nervous_system(2)|endometrium(7)|kidney(4)|large_intestine(18)|lung(23)|ovary(2)|prostate(6)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	71						TTGAGCATGGGCAGCAGGATG	0.587																																																0													159	98	118					15																	79324635		2196	4293	6489	SO:0001583	missense	5923			M91815	CCDS10309.1, CCDS42065.1, CCDS45320.1	15q24	2013-01-10			ENSG00000058335	ENSG00000058335		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	9875	protein-coding gene	gene with protein product		606600		GRF1		7684828, 1379731	Standard	NM_153815		Approved	CDC25L, CDC25, GRF55, H-GRF55, GNRP, PP13187	uc002beq.3	Q13972	OTTHUMG00000144172	ENST00000419573.3:c.982C>T	15.37:g.79324635G>A	ENSP00000405963:p.Pro328Ser	Somatic		WXS	Illumina HiSeq	Phase_I	F8VPA5|H0YKF2|J3KQP9|Q16027	Missense_Mutation	SNP	ENST00000419573.3	37	CCDS10309.1	.	.	.	.	.	.	.	.	.	.	G	24.5	4.538020	0.85917	.	.	ENSG00000058335	ENST00000419573;ENST00000394741	T	0.62232	0.04	4.35	4.35	0.52113	Dbl homology (DH) domain (5);	0.000000	0.85682	D	0.000000	T	0.72795	0.3505	L	0.46157	1.445	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	1.0;1.0;1.0;1.0	T	0.75752	-0.3207	10	0.72032	D	0.01	.	14.4226	0.67193	0.0:0.0:1.0:0.0	.	328;328;328;328	A8K270;Q8IUU5;Q13972;F8VPA5	.;.;RGRF1_HUMAN;.	S	328	ENSP00000405963:P328S	ENSP00000378224:P328S	P	-	1	0	RASGRF1	77111690	1.000000	0.71417	1.000000	0.80357	0.964000	0.63967	9.418000	0.97395	2.258000	0.74832	0.491000	0.48974	CCC		0.587	RASGRF1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000291371.3	NM_002891		A	79324635	G	A	79324635	3	1	665	1	0	0	0	0	1	0	0	0	13085	1203	42	2	2927	2	RASGRF1	15	79324635	Missense_Mutation	SNP	G	TCGA-KN-8429-01A-11D-2310-10	7283861	79324635	23206757	52	42483										
LINS1	55180	mdanderson.org	37	chr15	101110265	101110265	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	ggattatagccattttcatgTgtgtgatggtcccacatttc	9	8	1	1	rs2411836	byFrequency	TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr15:101110265T>A	ENST00000314742.8	-	7	1674	c.1452A>T	c.(1450-1452)acA>acT	p.T484T	LINS_ENST00000559149.1_5'Flank	NM_001040616.2	NP_001035706	Q8NG48	LINES_HUMAN	lines homolog (Drosophila)	484								p.T484T(1)		central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(3)|ovary(1)|prostate(1)|skin(1)|stomach(4)	21						CATTTTCATGTGTGTGATGGT	0.353													T|||	1560	0.311502	0.2375	0.2493	5008	,	,		17495	0.246		0.4513	False		,,,				2504	0.3793															1	Substitution - coding silent(1)	stomach(1)						T		1242,3164	413.7+/-336.6	157,928,1118	56	55	55		1452	-0.9	0.8	15	dbSNP_100	55	4032,4566	526.5+/-381.0	961,2110,1228	no	coding-synonymous	LINS	NM_001040616.2		1118,3038,2346	AA,AT,TT		46.8946,28.1888,40.5568		484/758	101110265	5274,7730	2203	4299	6502	SO:0001819	synonymous_variant	55180			AK095448	CCDS10385.1	15q26.3	2010-09-08	2010-09-08	2010-09-08	ENSG00000140471	ENSG00000140471			30922	protein-coding gene	gene with protein product		610350	"lines homolog 1 (Drosophila)"	LINS1		12119551, 8889548	Standard	NM_001040616		Approved	WINS1	uc002bwg.3	Q8NG48	OTTHUMG00000149865	ENST00000314742.8:c.1452A>T	15.37:g.101110265T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q96FW2|Q9NVQ3	Silent	SNP	ENST00000314742.8	37	CCDS10385.1																																																																																				0.353	LINS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313592.1	NM_018148		A	101110265	T	A	101110265	2	1	665	1	0	0	0	0	0	0	0	1	8825	1683	59	5		5	LINS1	15	101110265	Silent	SNP	T	TCGA-KN-8429-01A-11D-2310-10	21785630	101110265	1421127	53	42484										
DHX8	1659	broad.mit.edu	37	chr17	41585844	41585844	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	actctgctcttcccagtgagAtgcagacccgaatctttgac	8	13	3	3			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr17:41585844A>G	ENST00000262415.3	+	16	2530	c.2458A>G	c.(2458-2460)Atg>Gtg	p.M820V	DHX8_ENST00000540306.1_Missense_Mutation_p.M820V	NM_004941.1	NP_004932.1	Q14562	DHX8_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 8	820	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				ATP catabolic process (GO:0006200)|mRNA splicing, via spliceosome (GO:0000398)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)	ATP binding (GO:0005524)|ATP-dependent RNA helicase activity (GO:0004004)|identical protein binding (GO:0042802)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(9)|lung(17)|ovary(2)|pancreas(1)|prostate(1)|skin(3)|urinary_tract(1)	42		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.08)		TCCCAGTGAGATGCAGACCCG	0.478																																					NSCLC(56;1548 1661 49258 49987)											0													115	105	109					17																	41585844		2203	4300	6503	SO:0001583	missense	1659			D50487	CCDS11464.1	17q21.31	2005-08-19	2003-06-13	2003-06-20		ENSG00000067596		"DEAH-boxes"	2749	protein-coding gene	gene with protein product		600396	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 8 (RNA helicase)"	DDX8		7935475	Standard	NM_004941		Approved	HRH1, PRP22, PRPF22	uc002idu.1	Q14562		ENST00000262415.3:c.2458A>G	17.37:g.41585844A>G	ENSP00000262415:p.Met820Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000262415.3	37	CCDS11464.1	.	.	.	.	.	.	.	.	.	.	A	15.56	2.868390	0.51588	.	.	ENSG00000067596	ENST00000540306;ENST00000262415	T;T	0.74737	-0.87;-0.87	5.68	5.68	0.88126	Helicase, C-terminal (3);	0.000000	0.85682	D	0.000000	T	0.63721	0.2535	N	0.12611	0.24	0.80722	D	1	P;B	0.34629	0.46;0.091	B;B	0.40329	0.279;0.326	T	0.66296	-0.5959	10	0.42905	T	0.14	.	15.0989	0.72256	1.0:0.0:0.0:0.0	.	820;820	F5H658;Q14562	.;DHX8_HUMAN	V	820	ENSP00000437886:M820V;ENSP00000262415:M820V	ENSP00000262415:M820V	M	+	1	0	DHX8	38941370	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.237000	0.95368	2.162000	0.67917	0.459000	0.35465	ATG		0.478	DHX8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453485.1			G	41585844	A	G	41585844	3	3	665	1	0	0	0	0	1	0	0	0	4517	333	12	3	2520	3	DHX8	17	41585844	Missense_Mutation	SNP	A	TCGA-KN-8429-01A-11D-2310-10		41585844	39609366	54	42485										
CRHR1	1394	hgsc.bcm.edu	37	chr17	43910515	43910515	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	gccttctaggtgctggtttgGcaaaaggcctggggtgtaca	15	8	1	0			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr17:43910515G>A	ENST00000398285.3	+	10	869	c.869G>A	c.(868-870)gGc>gAc	p.G290D	CRHR1_ENST00000339069.5_Missense_Mutation_p.G160D|CRHR1_ENST00000352855.5_Missense_Mutation_p.G221D|CRHR1_ENST00000293493.7_Missense_Mutation_p.G86D|CRHR1_ENST00000577353.1_Missense_Mutation_p.G261D|CRHR1_ENST00000314537.5_Missense_Mutation_p.G261D	NM_001145146.1	NP_001138618.1	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	290					activation of adenylate cyclase activity (GO:0007190)|adrenal gland development (GO:0030325)|behavioral response to cocaine (GO:0048148)|behavioral response to ethanol (GO:0048149)|behavioral response to pain (GO:0048266)|cellular response to corticotropin-releasing hormone stimulus (GO:0071376)|corticotropin secretion (GO:0051458)|epithelial cell differentiation (GO:0030855)|fear response (GO:0042596)|female pregnancy (GO:0007565)|general adaptation syndrome, behavioral process (GO:0051867)|hypothalamus development (GO:0021854)|immune response (GO:0006955)|locomotory exploration behavior (GO:0035641)|long-term synaptic potentiation (GO:0060291)|memory (GO:0007613)|negative regulation of epinephrine secretion (GO:0032811)|negative regulation of feeding behavior (GO:2000252)|negative regulation of neuron death (GO:1901215)|negative regulation of voltage-gated calcium channel activity (GO:1901386)|neuropeptide signaling pathway (GO:0007218)|parturition (GO:0007567)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|positive regulation of adenylate cyclase activity involved in G-protein coupled receptor signaling pathway (GO:0010579)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of mast cell degranulation (GO:0043306)|regulation of adenylate cyclase activity involved in G-protein coupled receptor signaling pathway (GO:0010578)|regulation of corticosterone secretion (GO:2000852)|response to hypoxia (GO:0001666)|response to immobilization stress (GO:0035902)|visual learning (GO:0008542)	apical part of cell (GO:0045177)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|intrinsic component of plasma membrane (GO:0031226)|multivesicular body (GO:0005771)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)|vesicle (GO:0031982)	corticotrophin-releasing factor receptor activity (GO:0015056)|corticotropin-releasing hormone binding (GO:0051424)|corticotropin-releasing hormone receptor activity (GO:0043404)			NS(1)|breast(1)|endometrium(1)|large_intestine(4)|lung(15)|pancreas(1)|skin(1)	24	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		TGCTGGTTTGGCAAAAGGCCT	0.607																																					Ovarian(110;57 1568 10207 38216 49865)											0													124	130	128					17																	43910515		1993	4160	6153	SO:0001583	missense	1394			L23332	CCDS42350.1, CCDS45712.1, CCDS45713.1, CCDS45714.1	17q12-q22	2012-08-14			ENSG00000120088	ENSG00000120088		"GPCR / Class B : Corticotropin-releasing factor receptors"	2357	protein-coding gene	gene with protein product	"corticotropin-releasing factor receptor"	122561		CRHR		7590738	Standard	NM_004382		Approved	CRF-R, CRF1	uc010dap.3	P34998		ENST00000398285.3:c.869G>A	17.37:g.43910515G>A	ENSP00000381333:p.Gly290Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DIE9|Q13008|Q4QRJ1|Q9UK64	Missense_Mutation	SNP	ENST00000398285.3	37	CCDS45712.1	.	.	.	.	.	.	.	.	.	.	G	16.46	3.130090	0.56721	.	.	ENSG00000120088	ENST00000293493;ENST00000339069;ENST00000398285;ENST00000314537;ENST00000347197;ENST00000352855	T;T;T;T;T	0.42131	0.98;0.98;0.98;0.98;0.98	5.2	5.2	0.72013	GPCR, family 2-like (1);	0.000000	0.85682	D	0.000000	T	0.36331	0.0963	N	0.14661	0.345	0.80722	D	1	P;B;P;P;P;P	0.47034	0.889;0.333;0.536;0.877;0.48;0.819	P;P;B;P;B;B	0.51742	0.618;0.449;0.306;0.678;0.276;0.398	T	0.06899	-1.0801	10	0.11182	T	0.66	.	16.2316	0.82347	0.0:0.0:1.0:0.0	.	261;290;160;160;221;261	P34998-4;P34998;B3TIK8;B4DMR5;P34998-3;P34998-2	.;CRFR1_HUMAN;.;.;.;.	D	86;160;290;261;261;221	ENSP00000293493:G86D;ENSP00000340522:G160D;ENSP00000381333:G290D;ENSP00000326060:G261D;ENSP00000344068:G221D	ENSP00000293493:G86D	G	+	2	0	CRHR1	41266296	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	9.869000	0.99810	2.427000	0.82271	0.561000	0.74099	GGC		0.607	CRHR1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000441241.3			A	43910515	G	A	43910515	3	1	665	1	0	0	0	0	1	0	0	0	3873	1203	42	2	907	2	CRHR1	17	43910515	Missense_Mutation	SNP	G	TCGA-KN-8429-01A-11D-2310-10	2324671	43910515	37284695	55	42486										
USP32	84669	mdanderson.org	37	chr17	58292024	58292024	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	gcatatcttcctctttaatgCgcagcctttgagatagatat	7	9	2	2	rs571048538	byFrequency	TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr17:58292024C>T	ENST00000300896.4	-	17	2173	c.1979G>A	c.(1978-1980)cGc>cAc	p.R660H	USP32_ENST00000592339.1_Missense_Mutation_p.R330H	NM_032582.3	NP_115971.2	Q8NFA0	UBP32_HUMAN	ubiquitin specific peptidase 32	660					protein deubiquitination (GO:0016579)|ubiquitin-dependent protein catabolic process (GO:0006511)	Golgi apparatus (GO:0005794)|membrane (GO:0016020)	calcium ion binding (GO:0005509)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			NS(3)|breast(5)|endometrium(5)|kidney(4)|large_intestine(12)|liver(1)|lung(24)|pancreas(1)|prostate(3)|skin(3)|urinary_tract(1)	62	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			CTCTTTAATGCGCAGCCTTTG	0.408													C|||	3	0.000599042	0.0023	0.0	5008	,	,		19451	0.0		0.0	False		,,,				2504	0.0															0													41	38	39					17																	58292024		2201	4295	6496	SO:0001583	missense	84669			AF533230	CCDS32697.1	17q23.3	2013-01-10	2005-08-08		ENSG00000170832	ENSG00000170832		"Ubiquitin-specific peptidases", "EF-hand domain containing"	19143	protein-coding gene	gene with protein product		607740	"ubiquitin specific protease 32"			12838346	Standard	NM_032582		Approved	NY-REN-60, USP10	uc002iyo.1	Q8NFA0		ENST00000300896.4:c.1979G>A	17.37:g.58292024C>T	ENSP00000300896:p.Arg660His	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z5T3|Q9BX85|Q9Y591	Missense_Mutation	SNP	ENST00000300896.4	37	CCDS32697.1	.	.	.	.	.	.	.	.	.	.	C	35	5.530108	0.96446	.	.	ENSG00000170832	ENST00000300896	T	0.50001	0.76	5.39	5.39	0.77823	.	0.000000	0.85682	D	0.000000	T	0.46073	0.1374	L	0.48642	1.525	0.80722	D	1	P	0.50617	0.937	B	0.41440	0.357	T	0.49113	-0.8973	10	0.49607	T	0.09	.	19.155	0.93506	0.0:1.0:0.0:0.0	.	660	Q8NFA0	UBP32_HUMAN	H	660	ENSP00000300896:R660H	ENSP00000300896:R660H	R	-	2	0	USP32	55646806	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.717000	0.84732	2.539000	0.85634	0.650000	0.86243	CGC		0.408	USP32-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449235.2	NM_032582		T	58292024	C	T	58292024	3	4	665	1	0	0	0	0	1	0	0	0	17075	768	27	1	2907	1	USP32	17	58292024	Missense_Mutation	SNP	C	TCGA-KN-8429-01A-11D-2310-10	14381509	58292024	22903186	56	42487										
ADCYAP1	116	mdanderson.org	37	chr18	907675	907675	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	cgcaggccagaggaagaggcGtacggcgaggacggaaaccc	17	11	0	2	rs8192597	byFrequency	TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr18:907675G>A	ENST00000579794.1	+	2	404	c.126G>A	c.(124-126)gcG>gcA	p.A42A	RP11-672L10.2_ENST00000581719.2_RNA|RP11-672L10.2_ENST00000580612.1_RNA|ADCYAP1_ENST00000450565.3_Silent_p.A42A|RP11-672L10.3_ENST00000582554.1_RNA|RP11-672L10.2_ENST00000577358.1_RNA	NM_001117.3	NP_001108.2	P18509	PACA_HUMAN	adenylate cyclase activating polypeptide 1 (pituitary)	42					activation of adenylate cyclase activity (GO:0007190)|ATP metabolic process (GO:0046034)|behavioral fear response (GO:0001662)|cAMP-mediated signaling (GO:0019933)|cell-cell signaling (GO:0007267)|cellular response to glucocorticoid stimulus (GO:0071385)|female pregnancy (GO:0007565)|histamine secretion (GO:0001821)|negative regulation of acute inflammatory response to antigenic stimulus (GO:0002865)|negative regulation of acute inflammatory response to non-antigenic stimulus (GO:0002878)|negative regulation of cell cycle (GO:0045786)|negative regulation of glial cell proliferation (GO:0060253)|negative regulation of muscle cell apoptotic process (GO:0010656)|negative regulation of potassium ion transport (GO:0043267)|negative regulation of Rho GTPase activity (GO:0034259)|neuron projection development (GO:0031175)|neuropeptide signaling pathway (GO:0007218)|neurotrophin TRK receptor signaling pathway (GO:0048011)|ovarian follicle development (GO:0001541)|pituitary gland development (GO:0021983)|positive regulation of adenylate cyclase activity involved in G-protein coupled receptor signaling pathway (GO:0010579)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of growth hormone secretion (GO:0060124)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of neuron projection development (GO:0010976)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of Rap GTPase activity (GO:0032854)|positive regulation of somatostatin secretion (GO:0090274)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of vasodilation (GO:0045909)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|regulation of oligodendrocyte progenitor proliferation (GO:0070445)|regulation of postsynaptic membrane potential (GO:0060078)|regulation of protein localization (GO:0032880)|response to ethanol (GO:0045471)|response to starvation (GO:0042594)|sensory perception of pain (GO:0019233)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|terminal bouton (GO:0043195)	neuropeptide hormone activity (GO:0005184)|peptide hormone receptor binding (GO:0051428)|pituitary adenylate cyclase activating polypeptide activity (GO:0016521)|receptor binding (GO:0005102)|receptor signaling protein activity (GO:0005057)			endometrium(1)|large_intestine(3)|lung(7)|upper_aerodigestive_tract(1)	12						AGGAAGAGGCGTACGGCGAGG	0.726													G|||	3516	0.702077	0.5061	0.7622	5008	,	,		8604	0.8492		0.6889	False		,,,				2504	0.7863															0								G	,	2350,1996		679,992,502	9	11	11		126,126	-3.4	1	18	dbSNP_117	11	6028,2476		2167,1694,391	no	coding-synonymous,coding-synonymous	ADCYAP1	NM_001099733.1,NM_001117.3	,	2846,2686,893	AA,AG,GG		29.1157,45.9273,34.8016	,	42/177,42/177	907675	8378,4472	2173	4252	6425	SO:0001819	synonymous_variant	116			S83513	CCDS11825.1	18p11	2013-02-28			ENSG00000141433	ENSG00000141433		"Endogenous ligands"	241	protein-coding gene	gene with protein product	"prepro-PACAP"	102980				1730060	Standard	NM_001099733		Approved	PACAP	uc010dkh.4	P18509	OTTHUMG00000131479	ENST00000579794.1:c.126G>A	18.37:g.907675G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R7N4|Q52LQ0	Silent	SNP	ENST00000579794.1	37	CCDS11825.1																																																																																				0.726	ADCYAP1-003	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440765.3	NM_001117		A	907675	G	A	907675	2	1	665	1	0	0	0	0	0	0	0	1	302	1132	40	1		1	ADCYAP1	18	907675	Silent	SNP	G	TCGA-KN-8429-01A-11D-2310-10		907675	77169573	57	42488										
ANKRD30B	374860	broad.mit.edu	37	chr18	14837637	14837637	+	Frame_Shift_Del	DEL	G	G	-													0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	agatgcccacatcagaattaGgaagaaaagaagatacaaaa							TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr18:14837637delG	ENST00000358984.4	+	30	2773	c.2593delG	c.(2593-2595)ggafs	p.G865fs		NM_001145029.1	NP_001138501.1	Q9BXX2	AN30B_HUMAN	ankyrin repeat domain 30B	865										breast(3)|endometrium(4)|kidney(3)|lung(8)|ovary(1)|prostate(2)|skin(1)	22						ATCAGAATTAGGAAGAAAAGA	0.264																																																0													19	24	23					18																	14837637		690	1579	2269	SO:0001589	frameshift_variant	374860			BC028407	CCDS54182.1	18p11.21	2013-01-10			ENSG00000180777	ENSG00000180777		"Ankyrin repeat domain containing"	24165	protein-coding gene	gene with protein product						11280766	Standard	NM_001145029		Approved	NY-BR-1.1	uc010dlo.2	Q9BXX2		ENST00000358984.4:c.2593delG	18.37:g.14837637delG	ENSP00000351875:p.Gly865fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DGP1|F8WAG3|Q4G175	Frame_Shift_Del	DEL	ENST00000358984.4	37	CCDS54182.1																																																																																				0.264	ANKRD30B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000443557.1	NM_001145029		-	14837637	G	-	14837637	7	5	665	1	0	1	0	1	0	0	0	0	659	1001	35	0	2711	0	ANKRD30B	18	14837637	Frame_Shift_Del	DEL	G	TCGA-KN-8429-01A-11D-2310-10	13929962	14837637	63239611	58	42489										
MUC16	94025	mdanderson.org	37	chr19	9025604	9025604	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	ttctcacctgagcaaggtcaAtctgcagccagagtacagag	10	11	3	3	rs200791776		TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr19:9025604A>G	ENST00000397910.4	-	15	37053	c.36850T>C	c.(36850-36852)Ttg>Ctg	p.L12284L		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	12286	SEA 2. {ECO:0000255|PROSITE- ProRule:PRU00188}.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						AGCAAGGTCAATCTGCAGCCA	0.522																																																0													115	104	108					19																	9025604		1962	4161	6123	SO:0001819	synonymous_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.36850T>C	19.37:g.9025604A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Silent	SNP	ENST00000397910.4	37	CCDS54212.1																																																																																				0.522	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		G	9025604	A	G	9025604	2	3	665	1	0	0	0	0	0	0	0	1	9980	98	4	3		3	MUC16	19	9025604	Silent	SNP	A	TCGA-KN-8429-01A-11D-2310-10		9025604	50103379	59	42490										
ZNF653	115950	broad.mit.edu;ucsc.edu	37	chr19	11598244	11598244	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	cgcccagtccactgccggggAcaccgctgcctgctgccatg	12	18	0	0			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr19:11598244A>G	ENST00000293771.5	-	4	1170	c.1034T>C	c.(1033-1035)gTc>gCc	p.V345A	CTC-398G3.6_ENST00000585656.1_Intron	NM_138783.3	NP_620138.2	Q96CK0	ZN653_HUMAN	zinc finger protein 653	345					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(2)|kidney(3)|large_intestine(2)|lung(8)|prostate(1)|skin(1)	17						ACTGCCGGGGACACCGCTGCC	0.652																																					Pancreas(83;980 1446 4542 6441 43352)											0													65	55	58					19																	11598244		2203	4300	6503	SO:0001583	missense	115950			AY072704	CCDS12261.1	19p13.2	2013-01-08						"Zinc fingers, C2H2-type"	25196	protein-coding gene	gene with protein product		611371				12477932	Standard	NM_138783		Approved	Zip67	uc002mrz.2	Q96CK0		ENST00000293771.5:c.1034T>C	19.37:g.11598244A>G	ENSP00000293771:p.Val345Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q96AS7	Missense_Mutation	SNP	ENST00000293771.5	37	CCDS12261.1	.	.	.	.	.	.	.	.	.	.	G	0.005	-2.176622	0.00312	.	.	ENSG00000161914	ENST00000293771	T	0.10005	2.92	2.93	2.93	0.34026	.	0.686095	0.11916	N	0.517184	T	0.04227	0.0117	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.43426	-0.9392	10	0.02654	T	1	-7.9695	6.1699	0.20410	0.1428:0.0:0.8572:0.0	.	345	Q96CK0	ZN653_HUMAN	A	345	ENSP00000293771:V345A	ENSP00000293771:V345A	V	-	2	0	ZNF653	11459244	0.617000	0.27043	0.586000	0.28679	0.056000	0.15407	1.002000	0.29796	0.805000	0.34159	-0.642000	0.03964	GTC		0.652	ZNF653-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458836.2	NM_138783		G	11598244	A	G	11598244	3	3	665	1	0	0	0	0	1	0	0	0	18078	275	10	3	837	3	ZNF653	19	11598244	Missense_Mutation	SNP	A	TCGA-KN-8429-01A-11D-2310-10	2572640	11598244	47530739	60	42491										
OR10H2	26538	mdanderson.org	37	chr19	15839047	15839047	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	catgtacctcttcctgtgcgTcctctcagtctccgagatcc	7	16	3	1	rs201424847	byFrequency	TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr19:15839047T>C	ENST00000305899.3	+	1	214	c.194T>C	c.(193-195)gTc>gCc	p.V65A		NM_013939.2	NP_039227.1	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H, member 2	65						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(10)|ovary(2)|skin(3)|stomach(1)	27	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					TTCCTGTGCGTCCTCTCAGTC	0.637																																																0													234	188	204					19																	15839047		2203	4300	6503	SO:0001583	missense	26538			AC004597	CCDS12333.1	19p13.1	2012-08-09				ENSG00000171942		"GPCR / Class A : Olfactory receptors"	8173	protein-coding gene	gene with protein product							Standard	NM_013939		Approved		uc002nbm.2	O60403		ENST00000305899.3:c.194T>C	19.37:g.15839047T>C	ENSP00000306095:p.Val65Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFQ1|Q96R58	Missense_Mutation	SNP	ENST00000305899.3	37	CCDS12333.1	.	.	.	.	.	.	.	.	.	.	.	0.151	-1.091346	0.01858	.	.	ENSG00000171942	ENST00000305899	T	0.02890	4.12	3.4	2.24	0.28232	GPCR, rhodopsin-like superfamily (1);	0.275578	0.25848	N	0.027919	T	0.01695	0.0054	N	0.17474	0.49	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.49062	-0.8978	10	0.15499	T	0.54	.	5.1985	0.15250	0.2013:0.6781:0.0:0.1206	.	65	O60403	O10H2_HUMAN	A	65	ENSP00000306095:V65A	ENSP00000306095:V65A	V	+	2	0	OR10H2	15700047	0.000000	0.05858	0.937000	0.37676	0.644000	0.38419	0.494000	0.22467	0.427000	0.26145	-0.254000	0.11334	GTC		0.637	OR10H2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460917.1			C	15839047	T	C	15839047	3	2	665	1	0	0	0	0	1	0	0	0	10913	1667	58	3	196	3	OR10H2	19	15839047	Missense_Mutation	SNP	T	TCGA-KN-8429-01A-11D-2310-10	4240803	15839047	43289936	61	42492										
TMEM91	641649	broad.mit.edu	37	chr19	41884219	41884219	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	gagtttccccaaagccatggAcagccctagtcttcgtgagc	10	13	1	1			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr19:41884219A>G	ENST00000392002.2	+	2	665	c.5A>G	c.(4-6)gAc>gGc	p.D2G	CTC-435M10.3_ENST00000540732.1_Missense_Mutation_p.D2G|CTC-435M10.3_ENST00000604424.1_Intron|TMEM91_ENST00000604123.1_Missense_Mutation_p.D59G|BCKDHA_ENST00000595085.1_Missense_Mutation_p.D2G|TMEM91_ENST00000542945.1_Missense_Mutation_p.D2G|TMEM91_ENST00000544232.1_Missense_Mutation_p.D2G|TMEM91_ENST00000539627.1_Missense_Mutation_p.D2G|TMEM91_ENST00000436170.2_Missense_Mutation_p.D2G|TMEM91_ENST00000413014.2_Missense_Mutation_p.D2G|TMEM91_ENST00000356385.4_Missense_Mutation_p.D2G|TMEM91_ENST00000447302.2_Missense_Mutation_p.D2G	NM_001098821.1	NP_001092291.1	Q6ZNR0	TMM91_HUMAN	transmembrane protein 91	2					hematopoietic progenitor cell differentiation (GO:0002244)|response to biotic stimulus (GO:0009607)	integral component of membrane (GO:0016021)				lung(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	5						AAAGCCATGGACAGCCCTAGT	0.557																																																0													66	64	65					19																	41884219		1881	4112	5993	SO:0001583	missense	641649			AK130820, BC063705	CCDS42571.1, CCDS42572.1, CCDS46082.1, CCDS46083.1, CCDS46084.1	19q13.2	2009-10-16							32393	protein-coding gene	gene with protein product	"interferon induced transmembrane protein domain containing 6"					12477932	Standard	NM_001098824		Approved	FLJ27310, IFITMD6		Q6ZNR0		ENST00000392002.2:c.5A>G	19.37:g.41884219A>G	ENSP00000375859:p.Asp2Gly	Somatic		WXS	Illumina HiSeq	Phase_I	C9J9D1|C9JZ62|C9K046|Q6P434	Missense_Mutation	SNP	ENST00000392002.2	37	CCDS42571.1	.	.	.	.	.	.	.	.	.	.	A	14.53	2.563594	0.45694	.	.	ENSG00000142046;ENSG00000142046;ENSG00000142046;ENSG00000142046;ENSG00000142046;ENSG00000142046;ENSG00000142046;ENSG00000142046;ENSG00000142046;ENSG00000142046;ENSG00000255730	ENST00000539627;ENST00000413014;ENST00000392002;ENST00000436170;ENST00000447302;ENST00000544232;ENST00000542945;ENST00000537354;ENST00000342187;ENST00000356385;ENST00000540732	D;D	0.99226	-4.46;-5.59	4.44	4.44	0.53790	.	0.000000	0.41605	D	0.000858	D	0.98557	0.9518	L	0.27053	0.805	0.33346	D	0.570468	D;D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;0.996;1.0;1.0	D;D;D;D;D;D;D	0.83275	0.992;0.992;0.992;0.992;0.981;0.992;0.996	D	0.99780	1.1027	10	0.87932	D	0	.	10.2932	0.43608	1.0:0.0:0.0:0.0	.	2;2;2;2;2;2;2	C9J9D1;C9JZ62;C9K046;Q6P434;F5H5P2;Q6ZNR0;F5GWC9	.;.;.;.;.;TMM91_HUMAN;.	G	2	ENSP00000375859:D2G;ENSP00000443246:D2G	ENSP00000443246:D2G	D	+	2	0	CTC-435M10.3;TMEM91	46576059	0.998000	0.40836	0.986000	0.45419	0.165000	0.22458	3.619000	0.54196	2.013000	0.59113	0.459000	0.35465	GAC		0.557	TMEM91-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398302.2			G	41884219	A	G	41884219	3	3	665	1	0	0	0	0	1	0	0	0	16232	275	10	3	7	3	TMEM91	19	41884219	Missense_Mutation	SNP	A	TCGA-KN-8429-01A-11D-2310-10	26045172	41884219	17244764	62	42493										
ZNF418	147686	mdanderson.org	37	chr19	58439306	58439306	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	ccacacatttcacaagagtgGgccttcttgggagacacacc	9	13	2	2	rs7253514	byFrequency	TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr19:58439306G>A	ENST00000396147.1	-	4	534	c.243C>T	c.(241-243)gcC>gcT	p.A81A	ZNF418_ENST00000599086.1_5'Flank|ZNF418_ENST00000600989.1_Intron|ZNF418_ENST00000595830.1_Silent_p.A81A|ZNF418_ENST00000599852.1_5'UTR|ZNF418_ENST00000425570.3_Silent_p.A102A	NM_133460.1	NP_597717.1	Q8TF45	ZN418_HUMAN	zinc finger protein 418	81	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			cervix(1)|endometrium(6)|kidney(1)|large_intestine(6)|lung(9)|prostate(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	31		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;0.0158)		CACAAGAGTGGGCCTTCTTGG	0.507													G|||	1448	0.289137	0.2595	0.3573	5008	,	,		18775	0.4048		0.2545	False		,,,				2504	0.1973															0								G		1066,3340		131,804,1268	62	66	64		243	-1.5	0	19	dbSNP_116	64	2219,6381		293,1633,2374	no	coding-synonymous	ZNF418	NM_133460.1		424,2437,3642	AA,AG,GG		25.8023,24.1943,25.2576		81/677	58439306	3285,9721	2203	4300	6503	SO:0001819	synonymous_variant	147686			AB075836, AY695825	CCDS42642.1	19q13.43	2013-01-08				ENSG00000196724		"Zinc fingers, C2H2-type", "-"	20647	protein-coding gene	gene with protein product						11853319	Standard	NM_133460		Approved	KIAA1956, FLJ31551	uc002qqs.1	Q8TF45		ENST00000396147.1:c.243C>T	19.37:g.58439306G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M1S2|Q670L5|Q96N18	Silent	SNP	ENST00000396147.1	37	CCDS42642.1																																																																																				0.507	ZNF418-001	KNOWN	NMD_exception|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466693.1	NM_133460		A	58439306	G	A	58439306	2	1	665	1	0	0	0	0	0	0	0	1	17907	1219	43	2		2	ZNF418	19	58439306	Silent	SNP	G	TCGA-KN-8429-01A-11D-2310-10	16555087	58439306	689677	63	42494										
MN1	4330	hgsc.bcm.edu	37	chr22	28194900	28194900	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	cgctgctgctgctgctgctgTtgctgttgctgttgctgctg	14	11	0	0	rs202212250|rs530519178	byFrequency	TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr22:28194900T>C	ENST00000302326.4	-	1	2586	c.1632A>G	c.(1630-1632)caA>caG	p.Q544Q		NM_002430.2	NP_002421.3	Q10571	MN1_HUMAN	meningioma (disrupted in balanced translocation) 1	544	Poly-Gln.				intramembranous ossification (GO:0001957)					NS(1)|breast(2)|central_nervous_system(3)|endometrium(4)|kidney(3)|large_intestine(6)|lung(15)|ovary(3)|prostate(4)|skin(3)|upper_aerodigestive_tract(1)	45						gctgctgctgttgctgttgct	0.647			T	ETV6	"AML, meningioma"								C|||	5	0.000998403	0.0023	0.0	5008	,	,		12597	0.0		0.0	False		,,,				2504	0.002						Dom	yes		22	22q13	4330	meningioma (disrupted in balanced translocation) 1		"L, O"	0																																										SO:0001819	synonymous_variant	4330			X82209	CCDS42998.1	22q12.1	2010-09-29			ENSG00000169184	ENSG00000169184			7180	protein-coding gene	gene with protein product	"probable tumor suppressor protein MN1"	156100	"meningioma chromosome region"	MGCR		7731706, 12569362	Standard	NM_002430		Approved	MGCR1-PEN, MGCR1	uc003adj.3	Q10571	OTTHUMG00000150975	ENST00000302326.4:c.1632A>G	22.37:g.28194900T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1V9	Silent	SNP	ENST00000302326.4	37	CCDS42998.1																																																																																				0.647	MN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320737.1	NM_002430		C	28194900	T	C	28194900	2	2	665	1	0	0	0	0	0	0	0	1	9680	1722	60	3		3	MN1	22	28194900	Silent	SNP	T	TCGA-KN-8429-01A-11D-2310-10		28194900	23109666	64	42495			1	107		3	3	28	N	T_C	1.500171e-09
MN1	4330	mdanderson.org	37	chr22	28194912	28194912	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	tgctgctgttgctgttgctgTtgctgctgctgctgctgctg	14	10	0	0			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr22:28194912T>C	ENST00000302326.4	-	1	2574	c.1620A>G	c.(1618-1620)caA>caG	p.Q540Q		NM_002430.2	NP_002421.3	Q10571	MN1_HUMAN	meningioma (disrupted in balanced translocation) 1	540	Poly-Gln.				intramembranous ossification (GO:0001957)					NS(1)|breast(2)|central_nervous_system(3)|endometrium(4)|kidney(3)|large_intestine(6)|lung(15)|ovary(3)|prostate(4)|skin(3)|upper_aerodigestive_tract(1)	45						gctgttgctgttgctgctgct	0.657			T	ETV6	"AML, meningioma"																																		Dom	yes		22	22q13	4330	meningioma (disrupted in balanced translocation) 1		"L, O"	0													4	5	5					22																	28194912		1941	3935	5876	SO:0001819	synonymous_variant	4330			X82209	CCDS42998.1	22q12.1	2010-09-29			ENSG00000169184	ENSG00000169184			7180	protein-coding gene	gene with protein product	"probable tumor suppressor protein MN1"	156100	"meningioma chromosome region"	MGCR		7731706, 12569362	Standard	NM_002430		Approved	MGCR1-PEN, MGCR1	uc003adj.3	Q10571	OTTHUMG00000150975	ENST00000302326.4:c.1620A>G	22.37:g.28194912T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1V9	Silent	SNP	ENST00000302326.4	37	CCDS42998.1																																																																																				0.657	MN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320737.1	NM_002430		C	28194912	T	C	28194912	2	2	665	1	0	0	0	0	0	0	0	1	9680	1722	60	3		3	MN1	22	28194912	Silent	SNP	T	TCGA-KN-8429-01A-11D-2310-10	12	28194912	23109654	65	42496			1	107		3	3	28	N	T_C	1.500171e-09
MN1	4330	mdanderson.org	37	chr22	28194927	28194927	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	tgctgttgctgctgctgctgCtgctgttgctgctgctgctg	14	11	0	0	rs570740760	byFrequency	TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chr22:28194927C>T	ENST00000302326.4	-	1	2559	c.1605G>A	c.(1603-1605)caG>caA	p.Q535Q		NM_002430.2	NP_002421.3	Q10571	MN1_HUMAN	meningioma (disrupted in balanced translocation) 1	535	Poly-Gln.				intramembranous ossification (GO:0001957)					NS(1)|breast(2)|central_nervous_system(3)|endometrium(4)|kidney(3)|large_intestine(6)|lung(15)|ovary(3)|prostate(4)|skin(3)|upper_aerodigestive_tract(1)	45						gctgctgctgctgctgttgct	0.647			T	ETV6	"AML, meningioma"								C|||	8	0.00159744	0.0008	0.0043	5008	,	,		12376	0.001		0.002	False		,,,				2504	0.001						Dom	yes		22	22q13	4330	meningioma (disrupted in balanced translocation) 1		"L, O"	0																																										SO:0001819	synonymous_variant	4330			X82209	CCDS42998.1	22q12.1	2010-09-29			ENSG00000169184	ENSG00000169184			7180	protein-coding gene	gene with protein product	"probable tumor suppressor protein MN1"	156100	"meningioma chromosome region"	MGCR		7731706, 12569362	Standard	NM_002430		Approved	MGCR1-PEN, MGCR1	uc003adj.3	Q10571	OTTHUMG00000150975	ENST00000302326.4:c.1605G>A	22.37:g.28194927C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1V9	Silent	SNP	ENST00000302326.4	37	CCDS42998.1																																																																																				0.647	MN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320737.1	NM_002430		T	28194927	C	T	28194927	2	4	665	1	0	0	0	0	0	0	0	1	9680	796	28	2		2	MN1	22	28194927	Silent	SNP	C	TCGA-KN-8429-01A-11D-2310-10	15	28194927	23109639	66	42497			1	107		3	3	28	N	T_C	1.500171e-09
PLXNB3	5365	bcgsc.ca	37	chrX	153035378	153035378	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.299049049049049	0	0.322972972972973	1	1	0	gctgccgggccaccacccccGccaggagcagggccaggtaa	14	17	0	0			TCGA-KN-8429-01A-11D-2310-10	TCGA-KN-8429-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	58c7e9c3-1345-48c0-a758-0887358b8696	8a9aade0-01c0-49a8-9a47-1498341edff7	g.chrX:153035378G>A	ENST00000361971.5	+	7	1727	c.1613G>A	c.(1612-1614)cGc>cAc	p.R538H	PLXNB3_ENST00000538776.1_Missense_Mutation_p.R191H|PLXNB3_ENST00000538966.1_Missense_Mutation_p.R561H|PLXNB3_ENST00000538543.1_Missense_Mutation_p.R88H|PLXNB3_ENST00000538282.1_Missense_Mutation_p.R148H	NM_005393.2	NP_005384.2	Q9ULL4	PLXB3_HUMAN	plexin B3	538					axon guidance (GO:0007411)|cell chemotaxis (GO:0060326)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell migration (GO:0030336)|negative regulation of GTPase activity (GO:0034260)|negative regulation of lamellipodium assembly (GO:0010593)|positive chemotaxis (GO:0050918)|positive regulation of endothelial cell proliferation (GO:0001938)|semaphorin-plexin signaling pathway (GO:0071526)	integral component of membrane (GO:0016021)|intracellular (GO:0005622)|plasma membrane (GO:0005886)	protein domain specific binding (GO:0019904)|semaphorin receptor activity (GO:0017154)			central_nervous_system(1)|endometrium(7)|large_intestine(2)|lung(15)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	32	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CACCACCCCCGCCAGGAGCAG	0.687																																																0													17	19	18					X																	153035378		2188	4287	6475	SO:0001583	missense	5365			AF149019	CCDS14729.1, CCDS55536.1	Xq28	2008-02-05			ENSG00000198753	ENSG00000198753		"Plexins"	9105	protein-coding gene	gene with protein product		300214		PLXN6		10520995	Standard	NM_005393		Approved	PLEXR, PLEXB3	uc010nuk.2	Q9ULL4	OTTHUMG00000024217	ENST00000361971.5:c.1613G>A	X.37:g.153035378G>A	ENSP00000355378:p.Arg538His	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3E6|F5H773|Q9HDA4	Missense_Mutation	SNP	ENST00000361971.5	37	CCDS14729.1	.	.	.	.	.	.	.	.	.	.	G	23.3	4.395171	0.83011	.	.	ENSG00000198753	ENST00000538966;ENST00000361971;ENST00000538776;ENST00000538543;ENST00000538282	T;T;T;T;T	0.69926	5.11;5.08;4.53;1.71;-0.44	4.71	4.71	0.59529	.	0.000000	0.85682	D	0.000000	T	0.81692	0.4876	M	0.87381	2.88	0.36655	D	0.87762	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.83275	0.991;0.991;0.967;0.996;0.991	D	0.83398	0.0021	10	0.15066	T	0.55	.	14.1448	0.65344	0.0:0.0:1.0:0.0	.	191;220;88;561;538	B7Z3H9;B7Z9A5;F5GZZ4;F5H773;Q9ULL4	.;.;.;.;PLXB3_HUMAN	H	561;538;191;88;148	ENSP00000442736:R561H;ENSP00000355378:R538H;ENSP00000445569:R191H;ENSP00000444086:R88H;ENSP00000441919:R148H	ENSP00000355378:R538H	R	+	2	0	PLXNB3	152688572	1.000000	0.71417	1.000000	0.80357	0.816000	0.46133	3.241000	0.51376	1.910000	0.55303	0.600000	0.82982	CGC		0.687	PLXNB3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000061063.1			A	153035378	G	A	153035378	3	1	665	1	0	0	0	0	1	0	0	0	12132	1087	38	1	1753	1	PLXNB3	23	153035378	Missense_Mutation	SNP	G	TCGA-KN-8429-01A-11D-2310-10		153035378	2235182	67	42498										
ARHGEF19	128272	broad.mit.edu	37	chr1	16525737	16525737	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tgtatgtcctaacacactgaAcctgggggcaatctgacagc	10	11	1	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr1:16525737A>G	ENST00000270747.3	-	15	2295	c.2159T>C	c.(2158-2160)gTt>gCt	p.V720A	ARHGEF19-AS1_ENST00000457809.1_RNA|ARHGEF19_ENST00000478117.1_5'UTR	NM_153213.3	NP_694945.2	Q8IW93	ARHGJ_HUMAN	Rho guanine nucleotide exchange factor (GEF) 19	720	SH3. {ECO:0000255|PROSITE- ProRule:PRU00192}.				regulation of actin cytoskeleton organization (GO:0032956)|wound healing (GO:0042060)		GTPase activator activity (GO:0005096)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			cervix(1)|endometrium(1)|lung(3)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	12		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|Colorectal(212;3.48e-07)|COAD - Colon adenocarcinoma(227;2.19e-05)|BRCA - Breast invasive adenocarcinoma(304;9.46e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.0117)|READ - Rectum adenocarcinoma(331;0.0649)		AACACACTGAACCTGGGGGCA	0.607																																																0													103	87	92					1																	16525737		2203	4300	6503	SO:0001583	missense	128272			BC012982	CCDS170.1	1p36.13	2011-11-16			ENSG00000142632	ENSG00000142632		"Rho guanine nucleotide exchange factors"	26604	protein-coding gene	gene with protein product		612496				12477932	Standard	NM_153213		Approved	FLJ33962, WGEF	uc001ayc.1	Q8IW93	OTTHUMG00000002219	ENST00000270747.3:c.2159T>C	1.37:g.16525737A>G	ENSP00000270747:p.Val720Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJ04|Q5TEV2|Q6PJQ4|Q8N244	Missense_Mutation	SNP	ENST00000270747.3	37	CCDS170.1	.	.	.	.	.	.	.	.	.	.	A	21.3	4.123998	0.77436	.	.	ENSG00000142632	ENST00000270747	T	0.30182	1.54	4.57	4.57	0.56435	Src homology-3 domain (3);	0.000000	0.56097	D	0.000025	T	0.42562	0.1208	L	0.39326	1.205	0.80722	D	1	D	0.59767	0.986	D	0.64877	0.93	T	0.27123	-1.0083	10	0.51188	T	0.08	.	11.9367	0.52878	1.0:0.0:0.0:0.0	.	720	Q8IW93	ARHGJ_HUMAN	A	720	ENSP00000270747:V720A	ENSP00000270747:V720A	V	-	2	0	ARHGEF19	16398324	1.000000	0.71417	1.000000	0.80357	0.911000	0.54048	8.037000	0.88933	1.939000	0.56221	0.459000	0.35465	GTT		0.607	ARHGEF19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006289.1	NM_153213		G	16525737	A	G	16525737	3	3	666	1	0	0	0	0	1	0	0	0	902	43	2	3	257	3	ARHGEF19	1	16525737	Missense_Mutation	SNP	A	TCGA-KN-8430-01A-11D-2310-10		16525737	232724884	1	42499										
RCAN3	11123	hgsc.bcm.edu;bcgsc.ca	37	chr1	24861635	24861635	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tcgacacccagcgtggtggtTcatgtctgtgaaagtgaaac	12	9	2	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr1:24861635T>C	ENST00000374395.4	+	5	907	c.594T>C	c.(592-594)gtT>gtC	p.V198V	RCAN3_ENST00000436717.2_Silent_p.V188V|RCAN3_ENST00000538532.1_Silent_p.V140V|RCAN3_ENST00000374393.2_Missense_Mutation_p.F83S|RCAN3_ENST00000412742.2_Missense_Mutation_p.F141S	NM_001251978.1|NM_001251979.1|NM_001251984.1	NP_001238907.1|NP_001238908.1|NP_001238913.1	Q9UKA8	RCAN3_HUMAN	RCAN family member 3	198					anatomical structure morphogenesis (GO:0009653)|calcium-mediated signaling (GO:0019722)		RNA binding (GO:0003723)|troponin I binding (GO:0031013)			central_nervous_system(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(2)	7		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)		GCGTGGTGGTTCATGTCTGTG	0.498																																																0													47	49	48					1																	24861635		2203	4300	6503	SO:0001819	synonymous_variant	11123				CCDS254.1, CCDS57980.1, CCDS57981.1, CCDS57982.1, CCDS72730.1	1p35.3-p33	2008-02-05	2007-06-26	2007-06-26	ENSG00000117602	ENSG00000117602			3042	protein-coding gene	gene with protein product		605860	"Down syndrome critical region gene 1-like 2"	DSCR1L2		10756093	Standard	NM_001251984		Approved		uc001bjj.3	Q9UKA8	OTTHUMG00000003298	ENST00000374395.4:c.594T>C	1.37:g.24861635T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A4GU14|A4LA69|E3VWE2|E5L4P0|E5L4P7|E7ENV1|E7EWD8|G1FI66|G1FLF0|Q5ECL3|Q5TGC6|Q9NUC8|Q9UKA7	Missense_Mutation	SNP	ENST00000374395.4	37	CCDS254.1	.	.	.	.	.	.	.	.	.	.	T	16.58	3.162723	0.57368	.	.	ENSG00000117602	ENST00000412742;ENST00000374393	.	.	.	5.45	-10.9	0.00192	.	.	.	.	.	T	0.34164	0.0888	.	.	.	0.19300	N	0.999973	B;B	0.06786	0.001;0.0	B;B	0.06405	0.002;0.001	T	0.42258	-0.9462	7	0.87932	D	0	-33.0566	15.3457	0.74334	0.0:0.2117:0.6205:0.1677	.	83;141	E7EWD8;E7ENV1	.;.	S	141;83	.	ENSP00000363514:F83S	F	+	2	0	RCAN3	24734222	0.074000	0.21230	0.212000	0.23672	0.975000	0.68041	-0.717000	0.04986	-1.894000	0.01105	-0.435000	0.05868	TTC		0.498	RCAN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000009176.2			C	24861635	T	C	24861635	2	2	666	1	0	0	0	0	0	0	0	1	13183	1770	62	3		3	RCAN3	1	24861635	Silent	SNP	T	TCGA-KN-8430-01A-11D-2310-10	8335898	24861635	224388986	2	42500										
CELSR2	1952	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	109805471	109805471	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tgctactaggcggggtgcctGacctgcccgagagcttccca	13	14	0	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr1:109805471G>T	ENST00000271332.3	+	7	4649	c.4588G>T	c.(4588-4590)Gac>Tac	p.D1530Y		NM_001408.2	NP_001399.1	Q9HCU4	CELR2_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 2	1530	Laminin G-like 1. {ECO:0000255|PROSITE- ProRule:PRU00122}.				cerebrospinal fluid secretion (GO:0033326)|cilium assembly (GO:0042384)|cilium movement (GO:0003341)|dendrite morphogenesis (GO:0048813)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|neural plate anterior/posterior regionalization (GO:0021999)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|regulation of cell-cell adhesion (GO:0022407)|regulation of protein localization (GO:0032880)|regulation of transcription, DNA-templated (GO:0006355)|ventricular system development (GO:0021591)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|cervix(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(14)|lung(27)|ovary(5)|prostate(1)|skin(3)|urinary_tract(2)	82		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)		CGGGGTGCCTGACCTGCCCGA	0.642																																					NSCLC(158;1285 2011 34800 34852 42084)											0													55	57	56					1																	109805471		2202	4300	6502	SO:0001583	missense	1952			D87469	CCDS796.1	1p13.3	2014-08-08	2013-02-18		ENSG00000143126	ENSG00000143126		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	3231	protein-coding gene	gene with protein product		604265	"cadherin, EGF LAG seven-pass G-type receptor 2, flamingo (Drosophila) homolog"	EGFL2		9693030, 10907856	Standard	NM_001408		Approved	KIAA0279, MEGF3, Flamingo1, CDHF10	uc001dxa.4	Q9HCU4	OTTHUMG00000012003	ENST00000271332.3:c.4588G>T	1.37:g.109805471G>T	ENSP00000271332:p.Asp1530Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T2Y7|Q92566	Missense_Mutation	SNP	ENST00000271332.3	37	CCDS796.1	.	.	.	.	.	.	.	.	.	.	G	17.49	3.403315	0.62288	.	.	ENSG00000143126	ENST00000271332	T	0.81415	-1.49	4.6	3.65	0.41850	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (2);Laminin G, subdomain 2 (1);	.	.	.	.	T	0.79534	0.4462	M	0.62088	1.915	0.38754	D	0.954164	D	0.64830	0.994	D	0.64410	0.925	T	0.80618	-0.1302	9	0.59425	D	0.04	.	5.235	0.15441	0.168:0.0:0.6532:0.1788	.	1530	Q9HCU4	CELR2_HUMAN	Y	1530	ENSP00000271332:D1530Y	ENSP00000271332:D1530Y	D	+	1	0	CELSR2	109606994	0.999000	0.42202	0.933000	0.37362	0.852000	0.48524	3.366000	0.52343	1.221000	0.43506	0.561000	0.74099	GAC		0.642	CELSR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033200.1	NM_001408		T	109805471	G	T	109805471	3	4	666	1	0	0	0	0	1	0	0	0	3224	1290	45	4	4614	4	CELSR2	1	109805471	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	84943836	109805471	139445150	3	42501										
NBPF16	284565	ucsc.edu	37	chr1	148756448	148756448	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tctccttttccaggctcaacGgcgtgctgatggaagtggaa	12	10	2	1	rs201036679	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr1:148756448G>A	ENST00000417839.1	+	16	1967	c.1777G>A	c.(1777-1779)Ggc>Agc	p.G593S		NM_001102663.1	NP_001096133	Q5SXJ2	NBPFG_HUMAN		593	NBPF 6. {ECO:0000255|PROSITE- ProRule:PRU00647}.					cytoplasm (GO:0005737)				breast(1)|large_intestine(1)|lung(1)|pancreas(1)	4	all_hematologic(923;0.032)					CAGGCTCAACGGCGTGCTGAT	0.443													.|||	2359	0.471046	0.441	0.4942	5008	,	,		13733	0.4782		0.493	False		,,,				2504	0.4652															0													19	14	16					1																	148756448		1538	3069	4607	SO:0001583	missense	728936																														ENST00000417839.1:c.1777G>A	1.37:g.148756448G>A	ENSP00000395369:p.Gly593Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8MPT6	Missense_Mutation	SNP	ENST00000417839.1	37	CCDS41384.1	.	.	.	.	.	.	.	.	.	.	a	0.032	-1.326930	0.01309	.	.	ENSG00000203827	ENST00000417839;ENST00000254372	T	0.06218	3.33	0.109	-0.218	0.13142	DUF1220 (2);	.	.	.	.	T	0.00754	0.0025	N	0.21448	0.665	0.09310	N	1	P;B	0.40211	0.707;0.002	B;B	0.30855	0.121;0.006	T	0.45011	-0.9290	8	0.19147	T	0.46	.	.	.	.	.	593;403	Q5SXJ2;B4DRP3	NBPFG_HUMAN;.	S	593	ENSP00000395369:G593S	ENSP00000254372:G593S	G	+	1	0	NBPF16	147023072	0.998000	0.40836	0.068000	0.19968	0.069000	0.16628	0.720000	0.25896	-1.122000	0.02945	-1.109000	0.02080	GGC		0.443	NBPF16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097693.1			A	148756448	G	A	148756448	3	1	666	1	0	0	0	0	1	0	0	0	10203	1116	39	1	3908	1	NBPF16	1	148756448	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	38950977	148756448	100494173	4	42502										
CENPF	1063	broad.mit.edu	37	chr1	214815136	214815136	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	agttaatgacttattacaagAgaatgaacagctgatgaagg	10	4	0	5			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr1:214815136A>G	ENST00000366955.3	+	12	3623	c.3455A>G	c.(3454-3456)gAg>gGg	p.E1152G		NM_016343.3	NP_057427.3	P49454	CENPF_HUMAN	centromere protein F, 350/400kDa	0					cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|chromosome segregation (GO:0007059)|DNA replication (GO:0006260)|G2/M transition of mitotic cell cycle (GO:0000086)|kinetochore assembly (GO:0051382)|metaphase plate congression (GO:0051310)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|muscle organ development (GO:0007517)|negative regulation of transcription, DNA-templated (GO:0045892)|protein transport (GO:0015031)|regulation of cell cycle (GO:0051726)|regulation of G2/M transition of mitotic cell cycle (GO:0010389)|regulation of striated muscle tissue development (GO:0016202)|response to drug (GO:0042493)	chromosome, centromeric region (GO:0000775)|condensed chromosome outer kinetochore (GO:0000940)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinetochore (GO:0000776)|midbody (GO:0030496)|nuclear envelope (GO:0005635)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)|pronucleus (GO:0045120)|spindle (GO:0005819)|spindle pole (GO:0000922)	chromatin binding (GO:0003682)|dynein binding (GO:0045502)|protein C-terminus binding (GO:0008022)|protein homodimerization activity (GO:0042803)|transcription factor binding (GO:0008134)			NS(2)|breast(2)|central_nervous_system(4)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(37)|lung(47)|ovary(7)|prostate(3)|skin(6)|stomach(1)|urinary_tract(1)	126				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TTATTACAAGAGAATGAACAG	0.343																																					Colon(80;575 1284 11000 14801 43496)											0													62	64	63					1																	214815136		2203	4300	6503	SO:0001583	missense	1063			U30872	CCDS31023.1	1q41	2013-11-05	2013-01-17		ENSG00000117724	ENSG00000117724			1857	protein-coding gene	gene with protein product	"mitosin"	600236	"centromere protein F, 350/400kDa (mitosin)"			7904902, 7851898	Standard	NM_016343		Approved	hcp-1	uc001hkm.3	P49454	OTTHUMG00000036955	ENST00000366955.3:c.3455A>G	1.37:g.214815136A>G	ENSP00000355922:p.Glu1152Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q13171|Q13246|Q5VVM7	Missense_Mutation	SNP	ENST00000366955.3	37	CCDS31023.1	.	.	.	.	.	.	.	.	.	.	A	11.28	1.593293	0.28357	.	.	ENSG00000117724	ENST00000366955	T	0.05382	3.45	5.01	5.01	0.66863	.	0.000000	0.38436	N	0.001682	T	0.08670	0.0215	.	.	.	0.41890	D	0.990365	P	0.48503	0.911	P	0.45406	0.479	T	0.14559	-1.0468	9	0.40728	T	0.16	.	9.8173	0.40860	0.9189:0.0:0.0811:0.0	.	1152	P49454	CENPF_HUMAN	G	1152	ENSP00000355922:E1152G	ENSP00000355922:E1152G	E	+	2	0	CENPF	212881759	1.000000	0.71417	0.946000	0.38457	0.294000	0.27393	4.975000	0.63777	2.011000	0.59026	0.496000	0.49642	GAG		0.343	CENPF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089749.1	NM_016343		G	214815136	A	G	214815136	3	3	666	1	0	0	0	0	1	0	0	0	3233	304	11	3	3497	3	CENPF	1	214815136	Missense_Mutation	SNP	A	TCGA-KN-8430-01A-11D-2310-10	66058688	214815136	34435485	5	42503										
ALLC	55821	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr2	3743874	3743874	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	attttctgtaggagttggcgGggcaaagtctatggcggatg	16	5	2	0			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr2:3743874G>A	ENST00000252505.3	+	9	839	c.677G>A	c.(676-678)gGg>gAg	p.G226E	ALLC_ENST00000471711.1_3'UTR	NM_018436.3	NP_060906.3	Q8N6M5	ALLC_HUMAN	allantoicase	245					allantoin catabolic process (GO:0000256)		allantoicase activity (GO:0004037)			breast(4)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(6)|lung(12)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	30	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)		GGAGTTGGCGGGGCAAAGTCT	0.363										HNSCC(21;0.051)																																						0													87	82	84					2																	3743874		1850	4109	5959	SO:0001583	missense	55821			AF215924	CCDS46223.1	2p25.3	2008-02-05			ENSG00000151360	ENSG00000151360			17377	protein-coding gene	gene with protein product		612396				11054555	Standard	NM_018436		Approved	ALC	uc010ewt.3	Q8N6M5	OTTHUMG00000151485	ENST00000252505.3:c.677G>A	2.37:g.3743874G>A	ENSP00000252505:p.Gly226Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q53T95|Q5RL81|Q96RE6|Q9NZA7	Missense_Mutation	SNP	ENST00000252505.3	37	CCDS46223.1	.	.	.	.	.	.	.	.	.	.	G	11.39	1.625012	0.28889	.	.	ENSG00000151360	ENST00000252505	.	.	.	5.66	-9.89	0.00464	Allantoicase domain (1);Galactose-binding domain-like (1);	2.153630	0.01366	N	0.012415	T	0.07999	0.0200	N	0.00661	-1.28	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.36625	-0.9740	9	0.51188	T	0.08	-16.7355	4.9664	0.14093	0.1423:0.2747:0.492:0.091	.	245	Q8N6M5	ALLC_HUMAN	E	226	.	ENSP00000252505:G226E	G	+	2	0	ALLC	3721749	0.000000	0.05858	0.000000	0.03702	0.029000	0.11900	-0.294000	0.08309	-1.949000	0.01031	-0.345000	0.07892	GGG		0.363	ALLC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322855.1			A	3743874	G	A	3743874	3	1	666	1	0	0	0	0	1	0	0	0	534	1232	43	2	707	2	ALLC	2	3743874	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10		3743874	239455499	6	42504										
LIPT1	51601	broad.mit.edu	37	chr2	99778524	99778524	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	aaaaaatgggctcattttacAgtcaatttccaatgatgtct	6	7	3	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr2:99778524A>T	ENST00000393473.2	+	3	328	c.104A>T	c.(103-105)cAg>cTg	p.Q35L	LIPT1_ENST00000393471.2_Missense_Mutation_p.Q35L|LIPT1_ENST00000393474.3_Missense_Mutation_p.Q35L|LIPT1_ENST00000393477.3_Missense_Mutation_p.Q35L|MRPL30_ENST00000410042.1_Intron|LIPT1_ENST00000340066.1_Missense_Mutation_p.Q35L	NM_001204830.1|NM_015929.3	NP_001191759.1|NP_057013.1	Q9Y234	LIPT_HUMAN	lipoyltransferase 1	35					cellular protein modification process (GO:0006464)|lipid metabolic process (GO:0006629)|protein lipoylation (GO:0009249)	mitochondrion (GO:0005739)	transferase activity, transferring acyl groups (GO:0016746)			large_intestine(6)|lung(1)	7					Lipoic Acid(DB00166)	CTCATTTTACAGTCAATTTCC	0.383																																					GBM(84;665 1268 21657 25485 30647)											0													95	91	93					2																	99778524		2203	4300	6503	SO:0001583	missense	51601			AB017566	CCDS2039.1	2q11.2	2010-11-25			ENSG00000144182	ENSG00000144182	2.3.1.181		29569	protein-coding gene	gene with protein product		610284				10103005	Standard	NM_145197		Approved	MGC12290, MGC13378	uc002szq.4	Q9Y234	OTTHUMG00000130640	ENST00000393473.2:c.104A>T	2.37:g.99778524A>T	ENSP00000377115:p.Gln35Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZFZ1	Missense_Mutation	SNP	ENST00000393473.2	37	CCDS2039.1	.	.	.	.	.	.	.	.	.	.	A	6.644	0.487261	0.12641	.	.	ENSG00000144182	ENST00000393473;ENST00000393477;ENST00000393474;ENST00000340066;ENST00000393471;ENST00000449211;ENST00000434566;ENST00000415142;ENST00000436234	.	.	.	5.06	5.06	0.68205	.	0.259619	0.38663	N	0.001611	T	0.41213	0.1149	N	0.20986	0.625	0.80722	D	1	B	0.15930	0.015	B	0.13407	0.009	T	0.27905	-1.0060	9	0.10111	T	0.7	-21.4158	14.1412	0.65320	1.0:0.0:0.0:0.0	.	35	Q9Y234	LIPT_HUMAN	L	35	.	ENSP00000342071:Q35L	Q	+	2	0	LIPT1	99144956	1.000000	0.71417	0.998000	0.56505	0.145000	0.21501	3.555000	0.53727	2.123000	0.65237	0.533000	0.62120	CAG		0.383	LIPT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253128.1	NM_015929		T	99778524	A	T	99778524	3	4	666	1	0	0	0	0	1	0	0	0	8836	188	7	5	106	5	LIPT1	2	99778524	Missense_Mutation	SNP	A	TCGA-KN-8430-01A-11D-2310-10	96034650	99778524	143420849	7	42505										
GPR148	344561	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr2	131486934	131486934	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ctggctgtcagccccctgctGctggtgaccatcctgcggaa	12	15	1	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr2:131486934G>A	ENST00000309926.4	+	1	292	c.210G>A	c.(208-210)ctG>ctA	p.L70L		NM_207364.2	NP_997247.2	Q8TDV2	GP148_HUMAN	G protein-coupled receptor 148	70						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			NS(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(3)|lung(15)|skin(3)|upper_aerodigestive_tract(1)	27	Colorectal(110;0.1)					GCCCCCTGCTGCTGGTGACCA	0.632																																																0													55	54	54					2																	131486934		2203	4300	6503	SO:0001819	synonymous_variant	344561			AY255532	CCDS2163.1	2q21.2	2012-08-21			ENSG00000173302	ENSG00000173302		"GPCR / Class A : Orphans"	23623	protein-coding gene	gene with protein product						12679517	Standard	NM_207364		Approved	PGR6	uc002trv.2	Q8TDV2	OTTHUMG00000131655	ENST00000309926.4:c.210G>A	2.37:g.131486934G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M369|Q86SP7|Q86U87	Silent	SNP	ENST00000309926.4	37	CCDS2163.1																																																																																				0.632	GPR148-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254552.3	XM_293092		A	131486934	G	A	131486934	2	1	666	1	0	0	0	0	0	0	0	1	6660	1306	46	2		2	GPR148	2	131486934	Silent	SNP	G	TCGA-KN-8430-01A-11D-2310-10	31708410	131486934	111712439	8	42506										
LCT	3938	broad.mit.edu;mdanderson.org	37	chr2	136558375	136558375	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gcagtgccaggcctattggaGactcctggaaacatacacat	10	11	0	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr2:136558375G>A	ENST00000264162.2	-	12	4678	c.4668C>T	c.(4666-4668)gtC>gtT	p.V1556V		NM_002299.2	NP_002290.2	P09848	LPH_HUMAN	lactase	1556	4 X approximate repeats.				carbohydrate metabolic process (GO:0005975)|polysaccharide digestion (GO:0044245)|small molecule metabolic process (GO:0044281)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	glycosylceramidase activity (GO:0017042)|lactase activity (GO:0000016)			breast(6)|central_nervous_system(3)|cervix(1)|endometrium(8)|kidney(2)|large_intestine(26)|lung(57)|ovary(7)|pancreas(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(4)	124				BRCA - Breast invasive adenocarcinoma(221;0.169)	Vitamin C(DB00126)	GCCTATTGGAGACTCCTGGAA	0.507																																																0													54	50	51					2																	136558375		2203	4300	6503	SO:0001819	synonymous_variant	3938			X07994	CCDS2178.1	2q21	2014-09-17			ENSG00000115850	ENSG00000115850	3.2.1.108, 3.2.1.62		6530	protein-coding gene	gene with protein product		603202					Standard	NM_002299		Approved		uc002tuu.1	P09848	OTTHUMG00000131738	ENST00000264162.2:c.4668C>T	2.37:g.136558375G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZG58	Silent	SNP	ENST00000264162.2	37	CCDS2178.1																																																																																				0.507	LCT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254657.1	NM_002299		A	136558375	G	A	136558375	2	1	666	1	0	0	0	0	0	0	0	1	8700	929	33	2		2	LCT	2	136558375	Silent	SNP	G	TCGA-KN-8430-01A-11D-2310-10	5071441	136558375	106640998	9	42507										
GAD1	2571	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr2	171709233	171709233	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gcttctttcagggccaactcAgtcacctggaaccctcacaa	7	15	5	0			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr2:171709233A>C	ENST00000358196.3	+	13	1744	c.1194A>C	c.(1192-1194)tcA>tcC	p.S398S		NM_000817.2	NP_000808.2	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 (brain, 67kDa)	398					gamma-aminobutyric acid biosynthetic process (GO:0009449)|glutamate catabolic process (GO:0006538)|glutamate decarboxylation to succinate (GO:0006540)|neurotransmitter biosynthetic process (GO:0042136)|neurotransmitter secretion (GO:0007269)|protein-pyridoxal-5-phosphate linkage (GO:0018352)|response to drug (GO:0042493)|synaptic transmission (GO:0007268)	clathrin-sculpted gamma-aminobutyric acid transport vesicle membrane (GO:0061202)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|vesicle membrane (GO:0012506)	glutamate binding (GO:0016595)|glutamate decarboxylase activity (GO:0004351)|pyridoxal phosphate binding (GO:0030170)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(11)|lung(15)|ovary(1)|urinary_tract(2)	35						GGGCCAACTCAGTCACCTGGA	0.507																																																0													171	134	147					2																	171709233		2203	4300	6503	SO:0001819	synonymous_variant	2571				CCDS2239.1, CCDS2240.1	2q31	2008-02-05	2002-08-29		ENSG00000128683	ENSG00000128683	4.1.1.15		4092	protein-coding gene	gene with protein product		605363	"glutamate decarboxylase 1 (brain, 67kD)"	GAD		1549570	Standard	XM_005246443		Approved		uc002ugi.3	Q99259	OTTHUMG00000044175	ENST00000358196.3:c.1194A>C	2.37:g.171709233A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q49AK1|Q53TQ7|Q9BU91|Q9UHH4	Silent	SNP	ENST00000358196.3	37	CCDS2239.1																																																																																				0.507	GAD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000102664.2			C	171709233	A	C	171709233	2	2	666	1	0	0	0	0	0	0	0	1	6186	175	7	5		5	GAD1	2	171709233	Silent	SNP	A	TCGA-KN-8430-01A-11D-2310-10	35150858	171709233	71490140	10	42508										
TTN	7273	broad.mit.edu	37	chr2	179426292	179426292	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ctttctttatactcaagatgAtagccaattactcgacttcc	4	11	2	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr2:179426292A>G	ENST00000591111.1	-	276	79868	c.79644T>C	c.(79642-79644)taT>taC	p.Y26548Y	TTN-AS1_ENST00000419746.1_RNA|TTN-AS1_ENST00000592689.1_RNA|TTN-AS1_ENST00000592750.1_RNA|TTN-AS1_ENST00000591332.1_RNA|TTN-AS1_ENST00000592600.1_RNA|TTN-AS1_ENST00000586452.1_RNA|TTN-AS1_ENST00000456053.1_RNA|TTN_ENST00000359218.5_Silent_p.Y19249Y|TTN_ENST00000460472.2_Silent_p.Y19124Y|TTN_ENST00000589042.1_Silent_p.Y28189Y|TTN-AS1_ENST00000590932.1_RNA|TTN_ENST00000342175.6_Silent_p.Y19316Y|TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000590807.1_RNA|TTN_ENST00000342992.6_Silent_p.Y25621Y|TTN-AS1_ENST00000586831.1_RNA|TTN-AS1_ENST00000592630.1_RNA|TTN-AS1_ENST00000586707.1_RNA|TTN-AS1_ENST00000438095.1_RNA			Q8WZ42	TITIN_HUMAN	titin	26548	Fibronectin type-III 93. {ECO:0000255|PROSITE-ProRule:PRU00316}.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACTCAAGATGATAGCCAATTA	0.418																																																0													87	80	83					2																	179426292		1902	4113	6015	SO:0001819	synonymous_variant	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.79644T>C	2.37:g.179426292A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Silent	SNP	ENST00000591111.1	37																																																																																					0.418	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		G	179426292	A	G	179426292	2	3	666	1	0	0	0	0	0	0	0	1	16747	340	12	3		3	TTN	2	179426292	Silent	SNP	A	TCGA-KN-8430-01A-11D-2310-10	7717059	179426292	63773081	11	42509										
FANCD2	2177	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	10107113	10107113	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gtgcctggctccgtatttccGgttactgagactttgtgtgg	13	9	0	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr3:10107113G>A	ENST00000419585.1	+	24	2365	c.2204G>A	c.(2203-2205)cGg>cAg	p.R735Q	FANCD2_ENST00000383806.1_Missense_Mutation_p.R735Q|FANCD2_ENST00000383807.1_Missense_Mutation_p.R735Q|FANCD2_ENST00000287647.3_Missense_Mutation_p.R735Q			Q9BXW9	FACD2_HUMAN	Fanconi anemia, complementation group D2	735					DNA repair (GO:0006281)|gamete generation (GO:0007276)|response to gamma radiation (GO:0010332)|synapsis (GO:0007129)	condensed chromosome (GO:0000793)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA polymerase binding (GO:0070182)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(10)|ovary(1)|prostate(3)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(3)	51				OV - Ovarian serous cystadenocarcinoma(96;0.148)		CCGTATTTCCGGTTACTGAGA	0.443			"D, Mis, N, F"			"AML, leukemia"		Involved in tolerance or repair of DNA crosslinks	Fanconi Anemia																													yes	Rec		Fanconi anaemia D2	3	3p26	2177	"Fanconi anemia, complementation group D2"		L	0													169	166	167					3																	10107113		2203	4300	6503	SO:0001583	missense	2177	Familial Cancer Database	Pancytopenia Dysmelia, FA (several complementation groups)	AF340183	CCDS2595.1, CCDS33696.1	3p25.3	2014-09-17		2001-10-05	ENSG00000144554	ENSG00000144554		"Fanconi anemia, complementation groups"	3585	protein-coding gene	gene with protein product		613984		FACD, FANCD		7581463, 11239453, 18475298	Standard	XM_005264946		Approved	FAD, FA-D2	uc003buw.3	Q9BXW9	OTTHUMG00000128670	ENST00000419585.1:c.2204G>A	3.37:g.10107113G>A	ENSP00000398754:p.Arg735Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q2LA86|Q69YP9|Q6PJN7|Q9BQ06|Q9H9T9	Missense_Mutation	SNP	ENST00000419585.1	37	CCDS33696.1	.	.	.	.	.	.	.	.	.	.	G	31	5.080597	0.94050	.	.	ENSG00000144554	ENST00000287647;ENST00000383807;ENST00000383806;ENST00000419585	T;T;T;T	0.60424	0.19;0.19;0.19;0.19	5.29	4.4	0.53042	.	0.000000	0.85682	D	0.000000	T	0.73636	0.3612	M	0.72576	2.205	0.42130	D	0.991465	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.76953	-0.2768	10	0.72032	D	0.01	.	13.0316	0.58845	0.0:0.0:0.8374:0.1626	.	735;735	Q9BXW9-2;Q9BXW9	.;FACD2_HUMAN	Q	735	ENSP00000287647:R735Q;ENSP00000373318:R735Q;ENSP00000373317:R735Q;ENSP00000398754:R735Q	ENSP00000287647:R735Q	R	+	2	0	FANCD2	10082113	1.000000	0.71417	0.998000	0.56505	0.949000	0.60115	9.152000	0.94680	1.227000	0.43598	0.585000	0.79938	CGG		0.443	FANCD2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000339873.1			A	10107113	G	A	10107113	3	1	666	1	0	0	0	0	1	0	0	0	5672	1116	39	1	2294	1	FANCD2	3	10107113	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10		10107113	187915317	12	42510										
C3orf20	84077	broad.mit.edu;hgsc.bcm.edu	37	chr3	14724245	14724246	+	Frame_Shift_Ins	INS	-	-	A													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ttacatcaagagtaacctagINSaattatatcagcaatacaca							TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr3:14724245_14724246insA	ENST00000253697.3	+	3	477_478	c.25_26insA	c.(25-27)gaafs	p.E9fs	C3orf20_ENST00000435614.1_Intron|C3orf20_ENST00000412910.1_Intron	NM_032137.4	NP_115513.4	Q8ND61	CC020_HUMAN	chromosome 3 open reading frame 20	9						cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(13)|lung(11)|ovary(4)|skin(2)	40						GAGTAACCTAGAATTATATCAG	0.48																																																0																																										SO:0001589	frameshift_variant	84077			AL136781	CCDS33706.1, CCDS54555.1	3p25.1	2011-01-25			ENSG00000131379	ENSG00000131379			25320	protein-coding gene	gene with protein product						11230166	Standard	NM_032137		Approved	DKFZP434N1817	uc003byy.3	Q8ND61	OTTHUMG00000155545	ENST00000253697.3:c.27dupA	3.37:g.14724247_14724247dupA	ENSP00000253697:p.Glu9fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q7L0U6|Q8NCP2|Q9H0I7	Frame_Shift_Ins	INS	ENST00000253697.3	37	CCDS33706.1																																																																																				0.48	C3orf20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340586.1	NM_032137		A	14724246	-	A	14724245	7	5	666	1	0	1	1	0	0	0	0	0	2215	943	33	0	27	0	C3orf20	3	14724245	Frame_Shift_Ins	INS	-	TCGA-KN-8430-01A-11D-2310-10	4617132	14724245	183298185	13	42511	403	2								
C3orf20	84077	bcgsc.ca	37	chr3	14724246	14724247	+	Frame_Shift_Ins	INS	-	-	A													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tacatcaagagtaacctagaINSattatatcagcaatacacag							TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr3:14724246_14724247insA	ENST00000253697.3	+	3	478_479	c.26_27insA	c.(25-30)gaattafs	p.L10fs	C3orf20_ENST00000435614.1_Intron|C3orf20_ENST00000412910.1_Intron	NM_032137.4	NP_115513.4	Q8ND61	CC020_HUMAN	chromosome 3 open reading frame 20	10						cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(13)|lung(11)|ovary(4)|skin(2)	40						AGTAACCTAGAATTATATCAGC	0.48																																																0																																										SO:0001589	frameshift_variant	84077			AL136781	CCDS33706.1, CCDS54555.1	3p25.1	2011-01-25			ENSG00000131379	ENSG00000131379			25320	protein-coding gene	gene with protein product						11230166	Standard	NM_032137		Approved	DKFZP434N1817	uc003byy.3	Q8ND61	OTTHUMG00000155545	ENST00000253697.3:c.27dupA	3.37:g.14724247_14724247dupA	ENSP00000253697:p.Leu10fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q7L0U6|Q8NCP2|Q9H0I7	Frame_Shift_Ins	INS	ENST00000253697.3	37	CCDS33706.1																																																																																				0.48	C3orf20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340586.1	NM_032137		A	14724247	-	A	14724246	7	5	666	1	0	1	1	0	0	0	0	0	2215	246	9	0	28	0	C3orf20	3	14724246	Frame_Shift_Ins	INS	-	TCGA-KN-8430-01A-11D-2310-10	1	14724246	183298184	14	42512	403	2								
DAZL	1618	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	16630168	16630168	+	Nonstop_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	actagataagccaggaggatCaaacagatttaagcattgcc	9	8	1	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr3:16630168C>G	ENST00000399444.2	-	11	1180	c.887G>C	c.(886-888)tGa>tCa	p.*296S	DAZL_ENST00000250863.8_Nonstop_Mutation_p.*316S	NM_001351.3	NP_001342.2	Q92904	DAZL_HUMAN	deleted in azoospermia-like	0					female meiosis II (GO:0007147)|germ cell development (GO:0007281)|multicellular organismal development (GO:0007275)|oocyte maturation (GO:0001556)|positive regulation of meiosis (GO:0045836)|positive regulation of translational initiation (GO:0045948)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|polysome (GO:0005844)	mRNA 3'-UTR binding (GO:0003730)|nucleotide binding (GO:0000166)|RNA binding (GO:0003723)|translation activator activity (GO:0008494)		RAF1/DAZL(2)	endometrium(1)|large_intestine(3)|lung(4)|prostate(3)	11						CCAGGAGGATCAAACAGATTT	0.338																																																0													182	177	179					3																	16630168		1823	4083	5906	SO:0001578	stop_lost	1618			BC027595	CCDS43059.1, CCDS54556.1	3p24	2013-02-12			ENSG00000092345	ENSG00000092345		"RNA binding motif (RRM) containing"	2685	protein-coding gene	gene with protein product		601486		DAZLA		8896558	Standard	NM_001351		Approved	DAZH, SPGYLA, MGC26406, DAZL1	uc003cbb.3	Q92904	OTTHUMG00000157050	ENST00000399444.2:c.887G>C	3.37:g.16630168C>G		Somatic		WXS	Illumina HiSeq	Phase_I	O15396|Q5HYB4|Q92909	Missense_Mutation	SNP	ENST00000399444.2	37	CCDS43059.1	.	.	.	.	.	.	.	.	.	.	C	12.36	1.915762	0.33815	.	.	ENSG00000092345	ENST00000250863;ENST00000399444	.	.	.	5.47	4.59	0.56863	.	.	.	.	.	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	11.6359	0.51202	0.0:0.9173:0.0:0.0827	.	.	.	.	S	316;296	.	.	X	-	2	2	DAZL	16605172	1.000000	0.71417	1.000000	0.80357	0.938000	0.57974	1.683000	0.37638	2.560000	0.86352	0.655000	0.94253	TGA		0.338	DAZL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347261.2	NM_001351		G	16630168	C	G	16630168	4	3	666	1	0	0	0	0	0	0	0	0	4248	837	29	4	4	4	DAZL	3	16630168	Nonstop_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10	1905922	16630168	181392262	15	42513										
DAZL	1618	hgsc.bcm.edu;mdanderson.org	37	chr3	16630220	16630221	+	Splice_Site	DNP	CC	CC	TT													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	aaagtgatgcactcttttatCctggaaaagacagaaagagt							TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr3:16630220_16630221CC>TT	ENST00000399444.2	-	11	1128	c.835_835GG>AA	c.(835-837)GGga>AAgga	p.G279K	DAZL_ENST00000250863.8_Splice_Site_p.G299K	NM_001351.3	NP_001342.2	Q92904	DAZL_HUMAN	deleted in azoospermia-like	279					female meiosis II (GO:0007147)|germ cell development (GO:0007281)|multicellular organismal development (GO:0007275)|oocyte maturation (GO:0001556)|positive regulation of meiosis (GO:0045836)|positive regulation of translational initiation (GO:0045948)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|polysome (GO:0005844)	mRNA 3'-UTR binding (GO:0003730)|nucleotide binding (GO:0000166)|RNA binding (GO:0003723)|translation activator activity (GO:0008494)		RAF1/DAZL(2)	endometrium(1)|large_intestine(3)|lung(4)|prostate(3)	11						ACTCTTTTATCCTGGAAAAGAC	0.342																																																0																																										SO:0001630	splice_region_variant	1618			BC027595	CCDS43059.1, CCDS54556.1	3p24	2013-02-12			ENSG00000092345	ENSG00000092345		"RNA binding motif (RRM) containing"	2685	protein-coding gene	gene with protein product		601486		DAZLA		8896558	Standard	NM_001351		Approved	DAZH, SPGYLA, MGC26406, DAZL1	uc003cbb.3	Q92904	OTTHUMG00000157050	ENST00000399444.2:c.835_835delinsTT	3.37:g.16630220_16630221delinsTT		Somatic		WXS	Illumina HiSeq	Phase_I	O15396|Q5HYB4|Q92909	Splice_Site	DNP	ENST00000399444.2	37	CCDS43059.1																																																																																				0.342	DAZL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347261.2	NM_001351	Missense_Mutation	TT	16630221	CC	TT	16630220	5	4	666	1	0	0	0	0	0	0	1	0	4248	869	30	2	56	2	DAZL	3	16630220	Splice_Site	DNP	CC	TCGA-KN-8430-01A-11D-2310-10	52	16630220	181392210	16	42514										
SMARCC1	6599	hgsc.bcm.edu	37	chr3	47823126	47823126	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ttgcccagccagacccgcacCgaatccagctgggacaccgt	10	17	0	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr3:47823126C>T	ENST00000254480.5	-	1	281	c.162G>A	c.(160-162)tcG>tcA	p.S54S	SMARCC1_ENST00000425518.1_Intron	NM_003074.3	NP_003065.3	Q92922	SMRC1_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1	54					ATP-dependent chromatin remodeling (GO:0043044)|chromatin remodeling (GO:0006338)|insulin receptor signaling pathway (GO:0008286)|nervous system development (GO:0007399)|nucleosome disassembly (GO:0006337)|organ morphogenesis (GO:0009887)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|protein complex (GO:0043234)|SWI/SNF complex (GO:0016514)|XY body (GO:0001741)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|protein N-terminus binding (GO:0047485)|transcription coactivator activity (GO:0003713)			breast(1)|endometrium(5)|kidney(2)|large_intestine(3)|lung(15)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	33				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		AGACCCGCACCGAATCCAGCT	0.701																																																0													18	22	21					3																	47823126		2177	4262	6439	SO:0001819	synonymous_variant	6599			U66615	CCDS2758.1	3p21.31	2008-05-15			ENSG00000173473	ENSG00000173473			11104	protein-coding gene	gene with protein product		601732				8804307	Standard	NM_003074		Approved	BAF155, SRG3, Rsc8, CRACC1	uc003crq.2	Q92922	OTTHUMG00000133519	ENST00000254480.5:c.162G>A	3.37:g.47823126C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q17RS0|Q6P172|Q8IWH2	Silent	SNP	ENST00000254480.5	37	CCDS2758.1																																																																																				0.701	SMARCC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257491.1			T	47823126	C	T	47823126	2	4	666	1	0	0	0	0	0	0	0	1	14788	639	23	1		1	SMARCC1	3	47823126	Silent	SNP	C	TCGA-KN-8430-01A-11D-2310-10	31192906	47823126	150199304	17	42515										
PBRM1	55193	mdanderson.org;bcgsc.ca	37	chr3	52643600	52643600	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tgggacatgagagtcctcatCtccctccaggtctctgcgtg	11	13	3	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr3:52643600C>A	ENST00000296302.7	-	16	2297	c.2296G>T	c.(2296-2298)Gat>Tat	p.D766Y	PBRM1_ENST00000394830.3_Missense_Mutation_p.D766Y|PBRM1_ENST00000409767.1_Missense_Mutation_p.D781Y|PBRM1_ENST00000356770.4_Missense_Mutation_p.D734Y|PBRM1_ENST00000337303.4_Missense_Mutation_p.D766Y|PBRM1_ENST00000409057.1_Missense_Mutation_p.D766Y|PBRM1_ENST00000410007.1_Missense_Mutation_p.D766Y|PBRM1_ENST00000409114.3_Missense_Mutation_p.D781Y			Q86U86	PB1_HUMAN	polybromo 1	766					chromatin remodeling (GO:0006338)|heart development (GO:0007507)|mitotic nuclear division (GO:0007067)|negative regulation of cell proliferation (GO:0008285)|placenta development (GO:0001890)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	kinetochore (GO:0000776)|nuclear chromosome (GO:0000228)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)	p.D766fs*22(2)|p.D734fs*22(1)		breast(5)|endometrium(5)|kidney(301)|liver(1)|lung(22)|pancreas(1)	335				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		GAGTCCTCATCTCCCTCCAGG	0.433			"Mis, N, F, S, D, O"		"clear cell renal carcinoma, breast"																																		Rec	yes		3	3p21	55193	polybromo 1		E	3	Deletion - Frameshift(3)	kidney(3)											82	79	80					3																	52643600		2203	4300	6503	SO:0001583	missense	55193			BC015323	CCDS43099.1	3p21	2007-03-29			ENSG00000163939	ENSG00000163939			30064	protein-coding gene	gene with protein product		606083				11078522, 11483580	Standard	NM_018313		Approved	BAF180, PB1	uc003der.2	Q86U86	OTTHUMG00000152663	ENST00000296302.7:c.2296G>T	3.37:g.52643600C>A	ENSP00000296302:p.Asp766Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A1L381|A1L382|A4FUJ7|Q1RMD1|Q1RMD2|Q96MS2|Q9H2T3|Q9H2T4|Q9H2T5|Q9H301|Q9H314	Missense_Mutation	SNP	ENST00000296302.7	37		.	.	.	.	.	.	.	.	.	.	C	21.2	4.105828	0.77096	.	.	ENSG00000163939	ENST00000356770;ENST00000394830;ENST00000296302;ENST00000337303;ENST00000409057;ENST00000410007;ENST00000409114;ENST00000409767;ENST00000423351;ENST00000446103	T;T;T;T;T;T;T;T;T;T	0.18960	2.18;2.18;2.18;2.18;2.18;2.18;2.18;2.18;2.18;2.18	6.17	6.17	0.99709	Bromodomain (1);	0.090503	0.85682	D	0.000000	T	0.24774	0.0601	L	0.29908	0.895	0.58432	D	0.999995	D;P;D;D;P;D;D;D;D;D;D	0.62365	0.968;0.804;0.972;0.988;0.796;0.959;0.959;0.985;0.991;0.959;0.959	B;B;B;P;B;B;B;P;B;B;P	0.46237	0.409;0.075;0.291;0.492;0.146;0.312;0.406;0.494;0.407;0.312;0.508	T	0.00304	-1.1832	10	0.54805	T	0.06	-5.6171	20.8794	0.99867	0.0:1.0:0.0:0.0	.	766;141;766;766;766;766;781;781;766;734;766	Q86U86-9;Q6IRX1;Q86U86-6;E7EVG2;Q86U86-4;Q86U86-2;Q86U86-8;Q86U86-7;Q86U86;Q86U86-3;Q86U86-5	.;.;.;.;.;.;.;.;PB1_HUMAN;.;.	Y	734;766;766;766;766;766;781;781;766;725	ENSP00000349213:D734Y;ENSP00000378307:D766Y;ENSP00000296302:D766Y;ENSP00000338302:D766Y;ENSP00000386593:D766Y;ENSP00000386529:D766Y;ENSP00000386643:D781Y;ENSP00000386601:D781Y;ENSP00000387775:D766Y;ENSP00000397662:D725Y	ENSP00000296302:D766Y	D	-	1	0	PBRM1	52618640	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	5.994000	0.70623	2.941000	0.99782	0.655000	0.94253	GAT		0.433	PBRM1-008	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000327232.1	NM_018165		A	52643600	C	A	52643600	3	1	666	1	0	0	0	0	1	0	0	0	11498	913	32	4	2664	4	PBRM1	3	52643600	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10	4820474	52643600	145378830	18	42516										
CACNA1D	776	broad.mit.edu	37	chr3	53844075	53844075	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gagtcactcgacccggtcgtGggccacccctccagcaaccc	10	19	1	0			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr3:53844075G>T	ENST00000350061.5	+	47	6453	c.5942G>T	c.(5941-5943)tGg>tTg	p.W1981L	CACNA1D_ENST00000422281.2_Missense_Mutation_p.W1957L|CACNA1D_ENST00000288139.4_Missense_Mutation_p.W2001L|CACNA1D_ENST00000544977.1_3'UTR	NM_001128840.1	NP_001122312.1	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type, alpha 1D subunit	1981					adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|axon guidance (GO:0007411)|calcium ion import (GO:0070509)|calcium ion transmembrane transport (GO:0070588)|calcium ion transport (GO:0006816)|energy reserve metabolic process (GO:0006112)|membrane depolarization during action potential (GO:0086010)|membrane depolarization during cardiac muscle cell action potential (GO:0086012)|membrane repolarization during SA node cell action potential (GO:0086052)|positive regulation of calcium ion transport (GO:0051928)|regulation of atrial cardiac muscle cell membrane repolarization (GO:0060372)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of insulin secretion (GO:0050796)|regulation of potassium ion transmembrane transport (GO:1901379)|regulation of potassium ion transmembrane transporter activity (GO:1901016)|sensory perception of sound (GO:0007605)|small molecule metabolic process (GO:0044281)	plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)|Z disc (GO:0030018)	alpha-actinin binding (GO:0051393)|ankyrin binding (GO:0030506)|high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)|voltage-gated calcium channel activity involved in cardiac muscle cell action potential (GO:0086007)|voltage-gated calcium channel activity involved SA node cell action potential (GO:0086059)			breast(3)|central_nervous_system(9)|cervix(2)|endometrium(11)|kidney(7)|large_intestine(13)|liver(1)|lung(29)|ovary(6)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	90				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)	Amlodipine(DB00381)|Cinnarizine(DB00568)|Clevidipine(DB04920)|Dronedarone(DB04855)|Felodipine(DB01023)|Isradipine(DB00270)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Verapamil(DB00661)	ACCCGGTCGTGGGCCACCCCT	0.612																																																0													57	59	58					3																	53844075		2203	4300	6503	SO:0001583	missense	776			AB209171	CCDS2872.1, CCDS46848.1, CCDS46849.1	3p14.3	2012-03-07			ENSG00000157388	ENSG00000157388		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1391	protein-coding gene	gene with protein product		114206		CCHL1A2, CACNL1A2		1664412	Standard	NM_000720		Approved	Cav1.3, CACH3, CACN4	uc003dgu.5	Q01668	OTTHUMG00000158278	ENST00000350061.5:c.5942G>T	3.37:g.53844075G>T	ENSP00000288133:p.Trp1981Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B0FYA3|Q13916|Q13931|Q71UT1|Q9UDC3	Missense_Mutation	SNP	ENST00000350061.5	37	CCDS46848.1	.	.	.	.	.	.	.	.	.	.	G	20.7	4.039880	0.75732	.	.	ENSG00000157388	ENST00000350061;ENST00000288139;ENST00000422281;ENST00000481478	T;T;T;T	0.58358	0.34;0.34;0.34;0.34	5.21	5.21	0.72293	.	0.090555	0.49305	D	0.000149	T	0.72236	0.3435	M	0.74647	2.275	0.80722	D	1	D;B;B;D	0.76494	0.999;0.012;0.439;0.999	D;B;B;D	0.70716	0.934;0.009;0.109;0.97	T	0.74321	-0.3703	10	0.56958	D	0.05	.	17.3269	0.87251	0.0:0.0:1.0:0.0	.	1957;1674;1981;2001	B0FYA3;Q59GD8;Q01668;Q01668-2	.;.;CAC1D_HUMAN;.	L	1981;2001;1957;1674	ENSP00000288133:W1981L;ENSP00000288139:W2001L;ENSP00000409174:W1957L;ENSP00000418014:W1674L	ENSP00000288139:W2001L	W	+	2	0	CACNA1D	53819115	1.000000	0.71417	0.999000	0.59377	0.915000	0.54546	9.790000	0.99075	2.608000	0.88229	0.460000	0.39030	TGG		0.612	CACNA1D-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350557.1	NM_000720		T	53844075	G	T	53844075	3	4	666	1	0	0	0	0	1	0	0	0	2543	1357	47	4	6300	4	CACNA1D	3	53844075	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	1200475	53844075	144178355	19	42517										
OR5H14	403273	mdanderson.org	37	chr3	97868391	97868391	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gtcatctggaaagaccctcaTcttcatatcccaatgtactt	5	12	5	1	rs143765725		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr3:97868391T>C	ENST00000437310.1	+	1	222	c.162T>C	c.(160-162)caT>caC	p.H54H	RP11-343D2.11_ENST00000508964.1_RNA	NM_001005514.1	NP_001005514.1	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H, member 14	54						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(3)|lung(17)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	31						AAGACCCTCATCTTCATATCC	0.418													t|||	1	0.000199681	0.0	0.0014	5008	,	,		21040	0.0		0.0	False		,,,				2504	0.0															0																																										SO:0001819	synonymous_variant	403273				CCDS33798.1	3q11.2	2013-09-23			ENSG00000236032	ENSG00000236032		"GPCR / Class A : Olfactory receptors"	31286	protein-coding gene	gene with protein product							Standard	NM_001005514		Approved		uc003dsg.1	A6NHG9	OTTHUMG00000160079	ENST00000437310.1:c.162T>C	3.37:g.97868391T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B9EH15	Silent	SNP	ENST00000437310.1	37	CCDS33798.1																																																																																				0.418	OR5H14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359112.1			C	97868391	T	C	97868391	2	2	666	1	0	0	0	0	0	0	0	1	11167	1432	50	3		3	OR5H14	3	97868391	Silent	SNP	T	TCGA-KN-8430-01A-11D-2310-10	44024316	97868391	100154039	20	42518										
STAG1	10274	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	136076575	136076575	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	aacttacactgtctttttgtCctgtcgaagaagtttagaag	8	7	1	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr3:136076575C>T	ENST00000383202.2	-	28	3308	c.3052G>A	c.(3052-3054)Gac>Aac	p.D1018N	STAG1_ENST00000536929.1_Missense_Mutation_p.D602N|STAG1_ENST00000434713.2_Missense_Mutation_p.D758N|STAG1_ENST00000236698.5_Missense_Mutation_p.D1018N	NM_005862.2	NP_005853.2	Q8WVM7	STAG1_HUMAN	stromal antigen 1	1018					chromosome segregation (GO:0007059)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	cell junction (GO:0030054)|chromatin (GO:0000785)|chromosome (GO:0005694)|chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)			NS(2)|breast(4)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(16)|lung(16)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	58						GTCTTTTTGTCCTGTCGAAGA	0.294																																																0													83	82	83					3																	136076575		2201	4298	6499	SO:0001583	missense	10274			Z75330	CCDS3090.1	3q22.2-q22.3	2011-08-12			ENSG00000118007	ENSG00000118007			11354	protein-coding gene	gene with protein product		604358				9305759	Standard	XM_006713471		Approved	SA-1, SCC3A	uc003era.1	Q8WVM7	OTTHUMG00000159798	ENST00000383202.2:c.3052G>A	3.37:g.136076575C>T	ENSP00000372689:p.Asp1018Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O00539|Q6P275	Missense_Mutation	SNP	ENST00000383202.2	37	CCDS3090.1	.	.	.	.	.	.	.	.	.	.	C	29.5	5.010320	0.93346	.	.	ENSG00000118007	ENST00000383202;ENST00000236698;ENST00000434713;ENST00000536929	D;D;D;D	0.85411	-1.98;-1.98;-1.98;-1.98	5.37	5.37	0.77165	.	0.000000	0.85682	D	0.000000	D	0.93916	0.8053	M	0.89968	3.075	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	D	0.94931	0.8082	10	0.87932	D	0	.	18.0967	0.89492	0.0:1.0:0.0:0.0	.	1018;1018	Q6P275;Q8WVM7	.;STAG1_HUMAN	N	1018;1018;758;602	ENSP00000372689:D1018N;ENSP00000236698:D1018N;ENSP00000404396:D758N;ENSP00000445787:D602N	ENSP00000236698:D1018N	D	-	1	0	STAG1	137559265	1.000000	0.71417	1.000000	0.80357	0.937000	0.57800	7.814000	0.86154	2.495000	0.84180	0.650000	0.86243	GAC		0.294	STAG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357366.1	NM_005862		T	136076575	C	T	136076575	3	4	666	1	0	0	0	0	1	0	0	0	15254	855	30	2	752	2	STAG1	3	136076575	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10	38208184	136076575	61945855	21	42519										
SLC26A1	10861	mdanderson.org	37	chr4	985339	985339	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	cgcgtggcggggagcaggtcCtgcaccagcgcccggacgca	17	15	0	0	rs200471470	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr4:985339C>G	ENST00000361661.2	-	3	530	c.153G>C	c.(151-153)caG>caC	p.Q51H	IDUA_ENST00000247933.4_Intron|SLC26A1_ENST00000398516.2_Missense_Mutation_p.Q51H|IDUA_ENST00000453894.1_Intron|SLC26A1_ENST00000513138.1_5'Flank|SLC26A1_ENST00000398520.2_Missense_Mutation_p.Q51H	NM_213613.2	NP_998778.1	Q9H2B4	S26A1_HUMAN	solute carrier family 26 (anion exchanger), member 1	51					3'-phosphoadenosine 5'-phosphosulfate biosynthetic process (GO:0050428)|3'-phosphoadenosine 5'-phosphosulfate metabolic process (GO:0050427)|carbohydrate metabolic process (GO:0005975)|chloride transport (GO:0006821)|glycosaminoglycan metabolic process (GO:0030203)|ion transport (GO:0006811)|oxalate transport (GO:0019532)|small molecule metabolic process (GO:0044281)|sulfate transmembrane transport (GO:1902358)|sulfate transport (GO:0008272)|transmembrane transport (GO:0055085)|xenobiotic metabolic process (GO:0006805)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	anion:anion antiporter activity (GO:0015301)|chloride transmembrane transporter activity (GO:0015108)|oxalate transmembrane transporter activity (GO:0019531)|secondary active sulfate transmembrane transporter activity (GO:0008271)|sulfate transmembrane transporter activity (GO:0015116)			central_nervous_system(1)|endometrium(4)|pancreas(1)|prostate(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			GGAGCAGGTCCTGCACCAGCG	0.697																																																0								C	,HIS/GLN,HIS/GLN,HIS/GLN	0,4396		0,0,2198	26	24	25		,153,153,153	-1.1	0	4		25	3,8583		0,3,4290	no	intron,missense,missense,missense	IDUA,SLC26A1	NM_000203.3,NM_022042.2,NM_134425.1,NM_213613.2	,24,24,24	0,3,6488	GG,GC,CC		0.0349,0.0,0.0231	,possibly-damaging,possibly-damaging,possibly-damaging	,51/702,51/225,51/702	985339	3,12979	2198	4293	6491	SO:0001583	missense	10861			AF297659	CCDS33933.1, CCDS33934.1	4p16.3	2013-07-18	2013-07-18		ENSG00000145217	ENSG00000145217		"Solute carriers"	10993	protein-coding gene	gene with protein product		610130	"solute carrier family 26 (sulfate transporter), member 1"				Standard	NM_213613		Approved	SAT-1, EDM4	uc003gcc.3	Q9H2B4	OTTHUMG00000160003	ENST00000361661.2:c.153G>C	4.37:g.985339C>G	ENSP00000354721:p.Gln51His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9N2|Q7Z5R3|Q96BK0	Missense_Mutation	SNP	ENST00000361661.2	37	CCDS33934.1	.	.	.	.	.	.	.	.	.	.	C	10.75	1.437794	0.25900	0.0	3.49E-4	ENSG00000145217	ENST00000398520;ENST00000361661;ENST00000398516	D;D;D	0.93307	-3.02;-3.2;-3.2	5.12	-1.13	0.09775	.	0.352418	0.31257	N	0.007971	D	0.85818	0.5785	N	0.19112	0.55	0.09310	N	0.999997	P;P	0.43477	0.808;0.808	B;P	0.45753	0.332;0.492	T	0.79172	-0.1913	10	0.30078	T	0.28	.	6.2708	0.20953	0.0:0.4781:0.1248:0.3971	.	51;51	Q9H2B4;Q96BK0	S26A1_HUMAN;.	H	51	ENSP00000381532:Q51H;ENSP00000354721:Q51H;ENSP00000381528:Q51H	ENSP00000354721:Q51H	Q	-	3	2	SLC26A1	975339	0.023000	0.18921	0.007000	0.13788	0.125000	0.20455	1.512000	0.35812	0.014000	0.14944	-0.379000	0.06801	CAG		0.697	SLC26A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358783.1	NM_022042, NM_134425		G	985339	C	G	985339	3	3	666	1	0	0	0	0	1	0	0	0	14527	680	24	4	2063	4	SLC26A1	4	985339	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10		985339	190168937	22	42520										
KCTD8	386617	mdanderson.org	37	chr4	44176969	44176969	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ttggacagatttgtttcccgGgacttgctgatgagggtctg	14	7	1	3			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr4:44176969G>C	ENST00000360029.3	-	2	1543	c.1260C>G	c.(1258-1260)tcC>tcG	p.S420S		NM_198353.2	NP_938167.1	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerization domain containing 8	420					protein homooligomerization (GO:0051260)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)	cell junction (GO:0030054)|postsynaptic membrane (GO:0045211)|receptor complex (GO:0043235)				central_nervous_system(3)|endometrium(4)|kidney(2)|large_intestine(5)|lung(19)|ovary(1)|prostate(3)|upper_aerodigestive_tract(4)	41						TTGTTTCCCGGGACTTGCTGA	0.413										HNSCC(17;0.042)																																						0													212	222	219					4																	44176969		2203	4300	6503	SO:0001819	synonymous_variant	386617			AK123347	CCDS3467.1	4p13	2013-06-20	2013-06-20		ENSG00000183783	ENSG00000183783			22394	protein-coding gene	gene with protein product			"potassium channel tetramerisation domain containing 8"				Standard	NM_198353		Approved		uc003gwu.3	Q6ZWB6	OTTHUMG00000099409	ENST00000360029.3:c.1260C>G	4.37:g.44176969G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2RU39	Silent	SNP	ENST00000360029.3	37	CCDS3467.1																																																																																				0.413	KCTD8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216868.1			C	44176969	G	C	44176969	2	2	666	1	0	0	0	0	0	0	0	1	8122	1219	43	4		4	KCTD8	4	44176969	Silent	SNP	G	TCGA-KN-8430-01A-11D-2310-10	43191630	44176969	146977307	23	42521										
KIAA1211	57482	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	57181970	57181970	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ctcctcctgctggtgttcgcGagctcgggaagggtccggag	16	12	0	0			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr4:57181970G>A	ENST00000504228.1	+	6	2407	c.2302G>A	c.(2302-2304)Gag>Aag	p.E768K	KIAA1211_ENST00000264229.6_Missense_Mutation_p.E768K|KIAA1211_ENST00000541073.1_Missense_Mutation_p.E761K			Q6ZU35	K1211_HUMAN	KIAA1211	768										endometrium(7)|large_intestine(10)|lung(39)|ovary(2)|prostate(3)|skin(3)|stomach(1)	65	Glioma(25;0.08)|all_neural(26;0.101)					TGGTGTTCGCGAGCTCGGGAA	0.602																																																0													52	65	60					4																	57181970		1945	4138	6083	SO:0001583	missense	57482			AB033037	CCDS43230.1	4q12	2012-08-03			ENSG00000109265	ENSG00000109265			29219	protein-coding gene	gene with protein product						10574462, 11230166	Standard	NM_020722		Approved		uc003hbk.2	Q6ZU35	OTTHUMG00000160749	ENST00000504228.1:c.2302G>A	4.37:g.57181970G>A	ENSP00000423366:p.Glu768Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NTE2|Q9NTP8|Q9ULK9	Missense_Mutation	SNP	ENST00000504228.1	37	CCDS43230.1	.	.	.	.	.	.	.	.	.	.	G	6.105	0.387601	0.11581	.	.	ENSG00000109265	ENST00000264229;ENST00000504228;ENST00000541073;ENST00000546221	T;T;T	0.11712	2.75;2.75;2.75	3.92	3.08	0.35506	.	.	.	.	.	T	0.04998	0.0134	N	0.12182	0.205	0.09310	N	1	B;B;B	0.14012	0.009;0.009;0.009	B;B;B	0.15052	0.012;0.004;0.004	T	0.45145	-0.9281	9	0.11182	T	0.66	-12.7984	4.905	0.13793	0.405:0.0:0.595:0.0	.	761;761;768	B7ZVZ4;F5H1N7;Q6ZU35	.;.;K1211_HUMAN	K	768;768;761;678	ENSP00000264229:E768K;ENSP00000423366:E768K;ENSP00000444006:E761K	ENSP00000264229:E768K	E	+	1	0	KIAA1211	56876727	0.791000	0.28800	0.025000	0.17156	0.005000	0.04900	4.000000	0.57039	0.855000	0.35359	0.561000	0.74099	GAG		0.602	KIAA1211-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362097.2	NM_020722		A	57181970	G	A	57181970	3	1	666	1	0	0	0	0	1	0	0	0	8222	1059	37	1	2320	1	KIAA1211	4	57181970	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	13005001	57181970	133972306	24	42522										
CCDC158	339965	broad.mit.edu	37	chr4	77305357	77305357	+	Frame_Shift_Del	DEL	T	T	-													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	catgctgtcatgttcacataTttttttgcctgaggcttctt							TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr4:77305357delT	ENST00000388914.3	-	5	762	c.610delA	c.(610-612)atafs	p.I204fs	CCDC158_ENST00000434846.2_Frame_Shift_Del_p.I204fs	NM_001042784.1	NP_001036249.1	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158	204										breast(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|lung(28)|ovary(3)|pancreas(1)|prostate(1)|skin(6)|stomach(1)	56						TGTTCACATATTTTTTTGCCT	0.393																																																0													106	97	100					4																	77305357		1872	4116	5988	SO:0001589	frameshift_variant	339965			BC035224	CCDS43242.1	4q21.1	2009-04-06			ENSG00000163749	ENSG00000163749			26374	protein-coding gene	gene with protein product						12477932	Standard	NM_001042784		Approved	FLJ25770	uc003hkb.4	Q5M9N0	OTTHUMG00000160916	ENST00000388914.3:c.610delA	4.37:g.77305357delT	ENSP00000373566:p.Ile204fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYQ1|Q8N7D4|Q8N7E3	Frame_Shift_Del	DEL	ENST00000388914.3	37	CCDS43242.1																																																																																				0.393	CCDC158-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362694.2	NM_001042784		-	77305357	T	-	77305357	7	5	666	1	0	1	0	1	0	0	0	0	2792	1493	52	0	2811	0	CCDC158	4	77305357	Frame_Shift_Del	DEL	T	TCGA-KN-8430-01A-11D-2310-10	20123387	77305357	113848919	25	42523										
HERC5	51191	broad.mit.edu;mdanderson.org	37	chr4	89408222	89408222	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tgtcatttccatttttaggaCgcttcagaaaatgtacaatg	7	7	2	1	rs369956338		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr4:89408222C>T	ENST00000264350.3	+	15	2007	c.1854C>T	c.(1852-1854)gaC>gaT	p.D618D	HERC5_ENST00000508159.1_Silent_p.D256D	NM_016323.3	NP_057407.2	Q9UII4	HERC5_HUMAN	HECT and RLD domain containing E3 ubiquitin protein ligase 5	618					cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|innate immune response (GO:0045087)|ISG15-protein conjugation (GO:0032020)|negative regulation of type I interferon production (GO:0032480)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of defense response to virus (GO:0050688)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	ISG15 ligase activity (GO:0042296)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)			NS(2)|breast(3)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(11)|liver(2)|lung(17)|ovary(4)|prostate(1)|skin(4)	53		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		ATTTTTAGGACGCTTCAGAAA	0.338																																					Esophageal Squamous(39;887 1012 34045 50514)											0								C		1,4405	2.1+/-5.4	0,1,2202	78	77	77		1854	-3.7	0	4		77	0,8596		0,0,4298	no	coding-synonymous	HERC5	NM_016323.2		0,1,6500	TT,TC,CC		0.0,0.0227,0.0077		618/1025	89408222	1,13001	2203	4298	6501	SO:0001819	synonymous_variant	51191			AB027289	CCDS3630.1	4q22.1-q23	2012-02-23	2012-02-23		ENSG00000138646	ENSG00000138646			24368	protein-coding gene	gene with protein product		608242	"hect domain and RLD 5"			10581175	Standard	NM_016323		Approved	CEB1	uc003hrt.4	Q9UII4	OTTHUMG00000130953	ENST00000264350.3:c.1854C>T	4.37:g.89408222C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RTQ1|Q69G20	Silent	SNP	ENST00000264350.3	37	CCDS3630.1																																																																																				0.338	HERC5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253554.2	NM_016323		T	89408222	C	T	89408222	2	4	666	1	0	0	0	0	0	0	0	1	7068	535	19	1		1	HERC5	4	89408222	Silent	SNP	C	TCGA-KN-8430-01A-11D-2310-10	12102865	89408222	101746054	26	42524										
ADH1A	124	mdanderson.org	37	chr4	100203572	100203572	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tcagtcatttcctttagcacCtcctggatgggtttcttgta	8	10	3	0			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr4:100203572C>T	ENST00000209668.2	-	6	872	c.759G>A	c.(757-759)gaG>gaA	p.E253E	RP11-696N14.1_ENST00000506160.1_RNA|RP11-696N14.1_ENST00000500358.2_RNA	NM_000667.3	NP_000658.1	P07327	ADH1A_HUMAN	alcohol dehydrogenase 1A (class I), alpha polypeptide	253					alcohol metabolic process (GO:0006066)|drug metabolic process (GO:0017144)|ethanol oxidation (GO:0006069)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)	alcohol dehydrogenase (NAD) activity (GO:0004022)|alcohol dehydrogenase activity, zinc-dependent (GO:0004024)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(2)|large_intestine(3)|lung(11)|ovary(1)|prostate(1)|skin(4)|stomach(1)	25				OV - Ovarian serous cystadenocarcinoma(123;9.56e-08)	Ethanol(DB00898)|Fomepizole(DB01213)	CCTTTAGCACCTCCTGGATGG	0.463																																																0													352	350	351					4																	100203572		2203	4300	6503	SO:0001819	synonymous_variant	124			M12963	CCDS3648.1	4q23	2009-12-04			ENSG00000187758	ENSG00000187758	1.1.1.1	"Alcohol dehydrogenases"	249	protein-coding gene	gene with protein product		103700		ADH1		3006456	Standard	NM_000667		Approved		uc003hur.2	P07327	OTTHUMG00000131026	ENST00000209668.2:c.759G>A	4.37:g.100203572C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K3E3|Q17R68	Silent	SNP	ENST00000209668.2	37	CCDS3648.1																																																																																				0.463	ADH1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253669.1	NM_000667		T	100203572	C	T	100203572	2	4	666	1	0	0	0	0	0	0	0	1	307	680	24	2		2	ADH1A	4	100203572	Silent	SNP	C	TCGA-KN-8430-01A-11D-2310-10	10795350	100203572	90950704	27	42525										
COL25A1	84570	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr4	110221771	110221771	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tacattctgaaggtgcttctCttgcgattcttattttagcc	7	9	3	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr4:110221771C>G	ENST00000399132.1	-	3	865	c.335G>C	c.(334-336)aGa>aCa	p.R112T	COL25A1_ENST00000399127.1_Missense_Mutation_p.R112T|AC004051.2_ENST00000500526.1_lincRNA|COL25A1_ENST00000399126.1_Missense_Mutation_p.R112T	NM_198721.2	NP_942014.1			collagen, type XXV, alpha 1											NS(3)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(8)|lung(19)|ovary(2)|pancreas(1)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	49		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		AGGTGCTTCTCTTGCGATTCT	0.383																																																0													195	173	180					4																	110221771		1849	4102	5951	SO:0001583	missense	84570			AF293340	CCDS43258.1, CCDS43259.1, CCDS58922.1	4q25	2013-01-16			ENSG00000188517	ENSG00000188517		"Collagens"	18603	protein-coding gene	gene with protein product		610004				11927537	Standard	NM_001256074		Approved		uc003hze.2	Q9BXS0	OTTHUMG00000150039	ENST00000399132.1:c.335G>C	4.37:g.110221771C>G	ENSP00000382083:p.Arg112Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000399132.1	37	CCDS43258.1	.	.	.	.	.	.	.	.	.	.	C	13.00	2.107390	0.37145	.	.	ENSG00000188517	ENST00000399132;ENST00000333642;ENST00000401873;ENST00000399127;ENST00000399126;ENST00000443653	D;T;D	0.92048	-2.75;0.71;-2.96	5.38	5.38	0.77491	.	0.000000	0.51477	D	0.000084	D	0.93497	0.7925	L	0.36672	1.1	0.80722	D	1	D;D;D	0.71674	0.998;0.989;0.967	D;D;P	0.78314	0.991;0.985;0.879	D	0.92353	0.5891	9	.	.	.	-13.2884	16.4169	0.83745	0.0:1.0:0.0:0.0	.	112;112;112	A8MWQ5;Q9BXS0-2;Q9BXS0	.;.;COPA1_HUMAN	T	112	ENSP00000382083:R112T;ENSP00000382078:R112T;ENSP00000382077:R112T	.	R	-	2	0	COL25A1	110441220	1.000000	0.71417	0.999000	0.59377	0.997000	0.91878	5.104000	0.64584	2.686000	0.91538	0.650000	0.86243	AGA		0.383	COL25A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000315938.2	NM_032518		G	110221771	C	G	110221771	3	3	666	1	0	0	0	0	1	0	0	0	3686	913	32	4	1853	4	COL25A1	4	110221771	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10	10018199	110221771	80932505	28	42526										
KIAA1109	84162	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	123265699	123265699	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tgcaagcaaaatggatactaCgttaataaatatatctggta	7	5	1	0			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr4:123265699C>T	ENST00000264501.4	+	74	13089	c.12716C>T	c.(12715-12717)aCg>aTg	p.T4239M	KIAA1109_ENST00000388738.3_Missense_Mutation_p.T4239M			Q2LD37	K1109_HUMAN	KIAA1109	4239					regulation of cell growth (GO:0001558)|regulation of epithelial cell differentiation (GO:0030856)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)				breast(7)|central_nervous_system(1)|cervix(1)|endometrium(16)|kidney(6)|large_intestine(33)|liver(4)|lung(74)|ovary(9)|pancreas(1)|prostate(5)|skin(6)|upper_aerodigestive_tract(6)|urinary_tract(3)	172						ATGGATACTACGTTAATAAAT	0.308																																																0													103	99	100					4																	123265699		1834	4083	5917	SO:0001583	missense	84162			AL137384	CCDS43267.1	4q28.1	2012-07-09			ENSG00000138688	ENSG00000138688			26953	protein-coding gene	gene with protein product	"fragile site-associated"	611565				16386706	Standard	NM_015312		Approved	FLJ21404, FSA, KIAA1371, Tweek	uc003ieh.3	Q2LD37	OTTHUMG00000150116	ENST00000264501.4:c.12716C>T	4.37:g.123265699C>T	ENSP00000264501:p.Thr4239Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W598|Q5CZA9|Q6ZS70|Q6ZV75|Q86XA5|Q8WVD8|Q9H742|Q9NT48|Q9NTC3|Q9NTI4|Q9P2H6|Q9UPP3	Missense_Mutation	SNP	ENST00000264501.4	37	CCDS43267.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	24.7|24.7	4.557440|4.557440	0.86231|0.86231	.|.	.|.	ENSG00000138688|ENSG00000138688	ENST00000306802|ENST00000264501;ENST00000388738;ENST00000438707	.|T;T;T	.|0.32753	.|2.42;2.42;1.44	5.52|5.52	5.52|5.52	0.82312|0.82312	.|.	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.51924|0.51924	0.1703|0.1703	L|L	0.47716|0.47716	1.5|1.5	0.80722|0.80722	D|D	1|1	.|D;D	.|0.89917	.|1.0;1.0	.|D;D	.|0.85130	.|0.997;0.996	T|T	0.50591|0.50591	-0.8810|-0.8810	5|10	.|0.66056	.|D	.|0.02	.|.	19.4516|19.4516	0.94871|0.94871	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|4238;4239	.|Q2LD37-4;Q2LD37	.|.;K1109_HUMAN	C|M	615|4239;4239;908	.|ENSP00000264501:T4239M;ENSP00000373390:T4239M;ENSP00000410874:T908M	.|ENSP00000264501:T4239M	R|T	+|+	1|2	0|0	KIAA1109|KIAA1109	123485149|123485149	1.000000|1.000000	0.71417|0.71417	0.997000|0.997000	0.53966|0.53966	0.951000|0.951000	0.60555|0.60555	7.631000|7.631000	0.83237|0.83237	2.590000|2.590000	0.87494|0.87494	0.655000|0.655000	0.94253|0.94253	CGT|ACG		0.308	KIAA1109-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316415.1	NM_020797		T	123265699	C	T	123265699	3	4	666	1	0	0	0	0	1	0	0	0	8215	536	19	1	13002	1	KIAA1109	4	123265699	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10	13043928	123265699	67888577	29	42527										
FRG1	2483	mdanderson.org	37	chr4	190873411	190873411	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	atacatgcactcgacaatggTctttttaccctgggagctcc	8	12	1	0			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr4:190873411T>C	ENST00000226798.4	+	3	450	c.228T>C	c.(226-228)ggT>ggC	p.G76G	FRG1_ENST00000514482.1_3'UTR	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1	76					mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		TCGACAATGGTCTTTTTACCC	0.423																																																0													88	102	97					4																	190873411		2202	4292	6494	SO:0001819	synonymous_variant	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.228T>C	4.37:g.190873411T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Silent	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	.	4.506	0.093856	0.08632	.	.	ENSG00000109536	ENST00000524583	.	.	.	3.47	-6.93	0.01638	.	.	.	.	.	T	0.49847	0.1581	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.57447	-0.7810	5	0.72032	D	0.01	-6.6814	2.1213	0.03726	0.2624:0.3899:0.0988:0.2489	.	.	.	.	A	6	.	ENSP00000435067:V6A	V	+	2	0	FRG1	191110405	0.036000	0.19791	0.635000	0.29338	0.933000	0.57130	-0.963000	0.03837	-1.953000	0.01026	-1.442000	0.01069	GTC		0.423	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477		C	190873411	T	C	190873411	2	2	666	1	0	0	0	0	0	0	0	1	6053	1654	58	3		3	FRG1	4	190873411	Silent	SNP	T	TCGA-KN-8430-01A-11D-2310-10	67607712	190873411	280865	30	42528										
SDHA	6389	mdanderson.org	37	chr5	236676	236676	+	Missense_Mutation	SNP	G	G	A													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ggacctggttgtctttggtcGggcatgtgccctgagcatcg					rs138277996	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr5:236676G>A	ENST00000264932.6	+	10	1509	c.1394G>A	c.(1393-1395)cGg>cAg	p.R465Q	SDHA_ENST00000510361.1_Missense_Mutation_p.R417Q|SDHA_ENST00000504309.1_Missense_Mutation_p.R465Q	NM_004168.2	NP_004159.2	P31040	SDHA_HUMAN	succinate dehydrogenase complex, subunit A, flavoprotein (Fp)	465					cellular metabolic process (GO:0044237)|nervous system development (GO:0007399)|oxidation-reduction process (GO:0055114)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)|succinate metabolic process (GO:0006105)|tricarboxylic acid cycle (GO:0006099)	mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain complex II (GO:0005749)|mitochondrion (GO:0005739)	flavin adenine dinucleotide binding (GO:0050660)|succinate dehydrogenase (ubiquinone) activity (GO:0008177)			NS(1)|breast(1)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(6)|liver(2)|lung(16)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	40			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	GTCTTTGGTCGGGCATGTGCC	0.577									Familial Paragangliomas																																							0													87	79	82					5																	236676		2203	4300	6503	SO:0001583	missense	6389	Familial Cancer Database	Hereditary Glomus Tumors, Familial Paragangliomas, Hereditary Paragangliomas, type 1-3: PGL1, PGL2, PGL3, incl. Familial Carotid Body Paraganglioma and Sensorineural Hearing Loss	BC001380	CCDS3853.1	5p15	2014-09-17			ENSG00000073578	ENSG00000073578		"Mitochondrial respiratory chain complex / Complex II"	10680	protein-coding gene	gene with protein product		600857		SDH2		7798181	Standard	XM_005248329		Approved	FP, SDHF	uc003jao.4	P31040	OTTHUMG00000090275	ENST00000264932.6:c.1394G>A	5.37:g.236676G>A	ENSP00000264932:p.Arg465Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5J6|B4DJ60|E9PBJ5|Q16395|Q59GW8|Q8IW48|Q9UMY5	Missense_Mutation	SNP	ENST00000264932.6	37	CCDS3853.1	149|149	0.06822344322344322|0.06822344322344322	31|31	0.06300813008130081|0.06300813008130081	39|39	0.10773480662983426|0.10773480662983426	48|48	0.08391608391608392|0.08391608391608392	31|31	0.040897097625329816|0.040897097625329816	a|a	35|35	5.478541|5.478541	0.96291|0.96291	.|.	.|.	ENSG00000073578|ENSG00000073578	ENST00000515815|ENST00000264932;ENST00000327872;ENST00000504309;ENST00000510361	.|T;T;T	.|0.66280	.|-0.2;-0.2;-0.2	5.01|5.01	5.01|5.01	0.66863|0.66863	.|.	.|0.225299	.|0.34932	.|U	.|0.003561	T|T	0.04227|0.04227	0.0117|0.0117	H|H	0.94423|0.94423	3.535|3.535	0.80722|0.80722	D|D	1|1	.|P;D;D;D;D	.|0.61080	.|0.718;0.989;0.982;0.978;0.987	.|B;B;B;B;B	.|0.41666	.|0.122;0.342;0.236;0.217;0.363	T|T	0.57585|0.57585	-0.7786|-0.7786	5|10	.|0.87932	.|D	.|0	.|.	14.1614|14.1614	0.65450|0.65450	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|417;465;59;465;465	.|E9PBJ5;B4DYN5;B3KYA5;D6RFM5;P31040	.|.;.;.;.;DHSA_HUMAN	R|Q	17|465;320;465;417	.|ENSP00000264932:R465Q;ENSP00000426514:R465Q;ENSP00000427703:R417Q	.|ENSP00000264932:R465Q	G|R	+|+	1|2	0|0	SDHA|SDHA	289676|289676	1.000000|1.000000	0.71417|0.71417	0.997000|0.997000	0.53966|0.53966	0.875000|0.875000	0.50365|0.50365	7.637000|7.637000	0.83313|0.83313	2.483000|2.483000	0.83821|0.83821	0.650000|0.650000	0.86243|0.86243	GGG|CGG		0.577	SDHA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206599.1	NM_004168		A	236676	G	A	236676	3	1	666	1	0	0	0	0	1	0	0	0	13976	1116	39	1	1432	1	SDHA	5	236676	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10		236676	180678584	31	42529	404	2								
SDHA	6389	mdanderson.org	37	chr5	236678	236678	+	Missense_Mutation	SNP	G	G	A													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	acctggttgtctttggtcggGcatgtgccctgagcatcgaa					rs111387770	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr5:236678G>A	ENST00000264932.6	+	10	1511	c.1396G>A	c.(1396-1398)Gca>Aca	p.A466T	SDHA_ENST00000510361.1_Missense_Mutation_p.A418T|SDHA_ENST00000504309.1_Missense_Mutation_p.A466T	NM_004168.2	NP_004159.2	P31040	SDHA_HUMAN	succinate dehydrogenase complex, subunit A, flavoprotein (Fp)	466					cellular metabolic process (GO:0044237)|nervous system development (GO:0007399)|oxidation-reduction process (GO:0055114)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)|succinate metabolic process (GO:0006105)|tricarboxylic acid cycle (GO:0006099)	mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain complex II (GO:0005749)|mitochondrion (GO:0005739)	flavin adenine dinucleotide binding (GO:0050660)|succinate dehydrogenase (ubiquinone) activity (GO:0008177)			NS(1)|breast(1)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(6)|liver(2)|lung(16)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	40			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	CTTTGGTCGGGCATGTGCCCT	0.577									Familial Paragangliomas																																							0													86	78	81					5																	236678		2203	4300	6503	SO:0001583	missense	6389	Familial Cancer Database	Hereditary Glomus Tumors, Familial Paragangliomas, Hereditary Paragangliomas, type 1-3: PGL1, PGL2, PGL3, incl. Familial Carotid Body Paraganglioma and Sensorineural Hearing Loss	BC001380	CCDS3853.1	5p15	2014-09-17			ENSG00000073578	ENSG00000073578		"Mitochondrial respiratory chain complex / Complex II"	10680	protein-coding gene	gene with protein product		600857		SDH2		7798181	Standard	XM_005248329		Approved	FP, SDHF	uc003jao.4	P31040	OTTHUMG00000090275	ENST00000264932.6:c.1396G>A	5.37:g.236678G>A	ENSP00000264932:p.Ala466Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5J6|B4DJ60|E9PBJ5|Q16395|Q59GW8|Q8IW48|Q9UMY5	Missense_Mutation	SNP	ENST00000264932.6	37	CCDS3853.1	235	0.10760073260073261	47	0.09552845528455285	43	0.11878453038674033	73	0.12762237762237763	72	0.09498680738786279	g	32	5.147215	0.94603	.	.	ENSG00000073578	ENST00000264932;ENST00000327872;ENST00000504309;ENST00000510361	T;T;T	0.63580	-0.05;-0.05;-0.05	5.01	5.01	0.66863	.	0.138027	0.47852	U	0.000203	T	0.02012	0.0063	M	0.86097	2.795	0.80722	D	1	B;B;D;B;B	0.59357	0.085;0.268;0.985;0.433;0.411	B;B;P;B;B	0.50109	0.049;0.189;0.631;0.132;0.068	T	0.27706	-1.0066	10	0.87932	D	0	.	14.1614	0.65450	0.0:0.0:1.0:0.0	.	418;466;60;466;466	E9PBJ5;B4DYN5;B3KYA5;D6RFM5;P31040	.;.;.;.;DHSA_HUMAN	T	466;321;466;418	ENSP00000264932:A466T;ENSP00000426514:A466T;ENSP00000427703:A418T	ENSP00000264932:A466T	A	+	1	0	SDHA	289678	1.000000	0.71417	0.992000	0.48379	0.881000	0.50899	9.454000	0.97621	2.483000	0.83821	0.650000	0.86243	GCA		0.577	SDHA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206599.1	NM_004168		A	236678	G	A	236678	3	1	666	1	0	0	0	0	1	0	0	0	13976	1203	42	2	1434	2	SDHA	5	236678	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	2	236678	180678582	32	42530	404	2								
ZFR	51663	broad.mit.edu	37	chr5	32444365	32444372	+	Frame_Shift_Del	DEL	GCCCCGCT	GCCCCGCT	-													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ccgcagccgccgccgccgccGccccgctgtgggtgaatcca							TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	GCCCCGCT	GCCCCGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr5:32444365_32444372delGCCCCGCT	ENST00000265069.8	-	2	202_209	c.100_107delAGCGGGGC	c.(100-108)agcggggcgfs	p.SGA34fs		NM_016107.3	NP_057191.2	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	34					multicellular organismal development (GO:0007275)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|kidney(3)|large_intestine(9)|lung(14)|upper_aerodigestive_tract(2)	32				STAD - Stomach adenocarcinoma(35;0.19)		cgccgccgccgccCCGCTGTGGGTGAAT	0.668																																																0																																										SO:0001589	frameshift_variant	51663			AF100742	CCDS34139.1	5p15.2	2014-03-03			ENSG00000056097	ENSG00000056097			17277	protein-coding gene	gene with protein product		615635				11574164, 24482476	Standard	NM_016107		Approved	ZFR1, SPG71	uc003jhr.1	Q96KR1	OTTHUMG00000161979	ENST00000265069.8:c.100_107delAGCGGGGC	5.37:g.32444365_32444372delGCCCCGCT	ENSP00000265069:p.Ser34fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNR5|Q05C08|Q3B7X5|Q6P5A3|Q86UA0|Q9H6V4|Q9NTI1|Q9Y687	Frame_Shift_Del	DEL	ENST00000265069.8	37	CCDS34139.1																																																																																				0.668	ZFR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366586.1			-	32444372	GCCCCGCT	-	32444365	7	5	666	1	0	1	0	1	0	0	0	0	17671	1087	38	0	3193	0	ZFR	5	32444365	Frame_Shift_Del	DEL	GCCCCGCT	TCGA-KN-8430-01A-11D-2310-10	32207687	32444365	148470895	33	42531	405	2								
ZFR	51663	bcgsc.ca	37	chr5	32444366	32444373	+	Frame_Shift_Del	DEL	GCCCCGCT	GCCCCGCT	-													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	cgcagccgccgccgccgccgCcccgctgtgggtgaatccaa							TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	GCCCCGCT	GCCCCGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr5:32444366_32444373delGCCCCGCT	ENST00000265069.8	-	2	201_208	c.99_106delAGCGGGGC	c.(97-108)caagcggggccgfs	p.QAGP33fs		NM_016107.3	NP_057191.2	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	33					multicellular organismal development (GO:0007275)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|kidney(3)|large_intestine(9)|lung(14)|upper_aerodigestive_tract(2)	32				STAD - Stomach adenocarcinoma(35;0.19)		gccgccgccgccCCGCTGTGGGTGAATC	0.663																																																0																																										SO:0001589	frameshift_variant	51663			AF100742	CCDS34139.1	5p15.2	2014-03-03			ENSG00000056097	ENSG00000056097			17277	protein-coding gene	gene with protein product		615635				11574164, 24482476	Standard	NM_016107		Approved	ZFR1, SPG71	uc003jhr.1	Q96KR1	OTTHUMG00000161979	ENST00000265069.8:c.99_106delAGCGGGGC	5.37:g.32444366_32444373delGCCCCGCT	ENSP00000265069:p.Gln33fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNR5|Q05C08|Q3B7X5|Q6P5A3|Q86UA0|Q9H6V4|Q9NTI1|Q9Y687	Frame_Shift_Del	DEL	ENST00000265069.8	37	CCDS34139.1																																																																																				0.663	ZFR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366586.1			-	32444373	GCCCCGCT	-	32444366	7	5	666	1	0	1	0	1	0	0	0	0	17671	739	26	0	3194	0	ZFR	5	32444366	Frame_Shift_Del	DEL	GCCCCGCT	TCGA-KN-8430-01A-11D-2310-10	1	32444366	148470894	34	42532	405	2								
CMYA5	202333	broad.mit.edu	37	chr5	79025641	79025641	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tattcaagtagtggcagagcAgaacaaggaatacagctcag	11	7	2	2	rs369390314		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr5:79025641A>G	ENST00000446378.2	+	2	1084	c.1053A>G	c.(1051-1053)gcA>gcG	p.A351A		NM_153610.3	NP_705838.3	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	351					negative regulation of calcineurin-NFAT signaling cascade (GO:0070885)|negative regulation of protein phosphatase type 2B activity (GO:0032513)|regulation of skeletal muscle adaptation (GO:0014733)	costamere (GO:0043034)				NS(2)|breast(4)|central_nervous_system(1)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(37)|lung(34)|ovary(6)|pancreas(2)|prostate(5)|skin(5)|stomach(11)|upper_aerodigestive_tract(3)|urinary_tract(1)	128		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)		GTGGCAGAGCAGAACAAGGAA	0.453																																																0								A		0,4162		0,0,2081	70	69	69		1053	1.4	0.1	5		69	1,8441		0,1,4220	no	coding-synonymous	CMYA5	NM_153610.3		0,1,6301	GG,GA,AA		0.0118,0.0,0.0079		351/4070	79025641	1,12603	2081	4221	6302	SO:0001819	synonymous_variant	202333			AW755254, AL831986	CCDS47238.1	5q14.1	2013-02-11			ENSG00000164309	ENSG00000164309		"Tripartite motif containing / Tripartite motif containing", "A-kinase anchor proteins", "Fibronectin type III domain containing"	14305	protein-coding gene	gene with protein product	"genethonin-3", "tripartite motif-containing 76"	612193	"chromosome 5 open reading frame 10"	C5orf10		14688250	Standard	NM_153610		Approved	myospryn, SPRYD2, DKFZp451G223, TRIM76	uc003kgc.3	Q8N3K9	OTTHUMG00000162548	ENST00000446378.2:c.1053A>G	5.37:g.79025641A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJB7|Q05CT4|Q2NKX1|Q2T9G9|Q69YQ8|Q69YQ9|Q6P517|Q6P5U3|Q7Z4I1|Q86T34|Q86T49|Q8N3S4|Q8N3S7|Q8NAG8|Q9UK88	Silent	SNP	ENST00000446378.2	37	CCDS47238.1																																																																																				0.453	CMYA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369497.1	NM_153610		G	79025641	A	G	79025641	2	3	666	1	0	0	0	0	0	0	0	1	3592	175	7	3		3	CMYA5	5	79025641	Silent	SNP	A	TCGA-KN-8430-01A-11D-2310-10	46581275	79025641	101889619	35	42533										
DMXL1	1657	broad.mit.edu	37	chr5	118505983	118505983	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gtcattttggatcatctgatAcattttccacacatatgagc	6	9	3	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr5:118505983A>G	ENST00000311085.8	+	24	5577	c.5497A>G	c.(5497-5499)Aca>Gca	p.T1833A	DMXL1_ENST00000539542.1_Missense_Mutation_p.T1833A	NM_005509.4	NP_005500.4	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1833										breast(3)|central_nervous_system(1)|endometrium(14)|kidney(4)|large_intestine(20)|liver(6)|lung(28)|ovary(2)|prostate(5)|skin(2)|upper_aerodigestive_tract(1)	86		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)		ATCATCTGATACATTTTCCAC	0.348																																																0													70	70	70					5																	118505983		2202	4300	6502	SO:0001583	missense	1657			AJ005821	CCDS4125.1, CCDS75289.1	5q22	2013-01-10			ENSG00000172869	ENSG00000172869		"WD repeat domain containing"	2937	protein-coding gene	gene with protein product		605671				10708522	Standard	NM_005509		Approved		uc003ksd.2	Q9Y485	OTTHUMG00000128898	ENST00000311085.8:c.5497A>G	5.37:g.118505983A>G	ENSP00000309690:p.Thr1833Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000311085.8	37	CCDS4125.1	.	.	.	.	.	.	.	.	.	.	A	1.142	-0.649136	0.03506	.	.	ENSG00000172869	ENST00000311085;ENST00000539542	T;T	0.09163	3.01;3.01	5.52	3.57	0.40892	.	0.395739	0.27275	N	0.020120	T	0.01940	0.0061	N	0.00347	-1.61	0.22199	N	0.999298	B;B	0.02656	0.0;0.0	B;B	0.04013	0.0;0.001	T	0.40887	-0.9539	10	0.11182	T	0.66	-0.7386	2.8114	0.05443	0.3498:0.0:0.3273:0.3229	.	1833;1833	F5H269;Q9Y485	.;DMXL1_HUMAN	A	1833	ENSP00000309690:T1833A;ENSP00000439479:T1833A	ENSP00000309690:T1833A	T	+	1	0	DMXL1	118533882	0.002000	0.14202	0.949000	0.38748	0.910000	0.53928	0.366000	0.20365	0.558000	0.29135	0.455000	0.32223	ACA		0.348	DMXL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250862.1	NM_005509		G	118505983	A	G	118505983	3	3	666	1	0	0	0	0	1	0	0	0	4596	391	14	3	5591	3	DMXL1	5	118505983	Missense_Mutation	SNP	A	TCGA-KN-8430-01A-11D-2310-10	39480342	118505983	62409277	36	42534										
VEGFA	7422	broad.mit.edu	37	chr6	43746626	43746626	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tctctccctacccattgcagAccaaagaaagatagagcaag	7	12	1	4			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr6:43746626A>G	ENST00000523873.1	+	5	431	c.393A>G	c.(391-393)agA>agG	p.R131R	VEGFA_ENST00000482630.2_Splice_Site_p.R311R|VEGFA_ENST00000230480.6_Splice_Site_p.R103R|VEGFA_ENST00000523950.1_Splice_Site_p.R131R|VEGFA_ENST00000324450.6_Intron|VEGFA_ENST00000417285.2_Splice_Site_p.R311R|VEGFA_ENST00000518689.1_Splice_Site_p.R131R|VEGFA_ENST00000520948.1_Splice_Site_p.R131R|VEGFA_ENST00000425836.2_Splice_Site_p.R311R|VEGFA_ENST00000372067.3_Splice_Site_p.R311R|VEGFA_ENST00000457104.2_Intron|VEGFA_ENST00000523125.1_Splice_Site_p.R131R|VEGFA_ENST00000413642.3_Splice_Site_p.R311R|VEGFA_ENST00000518824.1_Splice_Site_p.R131R|VEGFA_ENST00000372055.4_Splice_Site_p.R311R|VEGFA_ENST00000372064.4_Splice_Site_p.R311R|VEGFA_ENST00000372077.4_Splice_Site_p.R131R			P15692	VEGFA_HUMAN	vascular endothelial growth factor A	131					activation of protein kinase activity (GO:0032147)|angiogenesis (GO:0001525)|artery morphogenesis (GO:0048844)|basophil chemotaxis (GO:0002575)|blood coagulation (GO:0007596)|branching morphogenesis of an epithelial tube (GO:0048754)|camera-type eye morphogenesis (GO:0048593)|cardiac muscle fiber development (GO:0048739)|cardiac vascular smooth muscle cell development (GO:0060948)|cell maturation (GO:0048469)|cell migration involved in sprouting angiogenesis (GO:0002042)|cellular response to hypoxia (GO:0071456)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|commissural neuron axon guidance (GO:0071679)|coronary artery morphogenesis (GO:0060982)|coronary vein morphogenesis (GO:0003169)|dopaminergic neuron differentiation (GO:0071542)|endothelial cell chemotaxis (GO:0035767)|epithelial cell differentiation (GO:0030855)|eye photoreceptor cell development (GO:0042462)|growth (GO:0040007)|heart morphogenesis (GO:0003007)|in utero embryonic development (GO:0001701)|induction of positive chemotaxis (GO:0050930)|kidney development (GO:0001822)|lactation (GO:0007595)|lung development (GO:0030324)|lymph vessel morphogenesis (GO:0036303)|macrophage differentiation (GO:0030225)|mammary gland alveolus development (GO:0060749)|mesoderm development (GO:0007498)|monocyte differentiation (GO:0030224)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nervous system development (GO:0007399)|outflow tract morphogenesis (GO:0003151)|ovarian follicle development (GO:0001541)|patterning of blood vessels (GO:0001569)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive chemotaxis (GO:0050918)|positive regulation of angiogenesis (GO:0045766)|positive regulation of axon extension involved in axon guidance (GO:0048842)|positive regulation of blood vessel endothelial cell migration (GO:0043536)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|positive regulation of cell adhesion (GO:0045785)|positive regulation of cell division (GO:0051781)|positive regulation of cell migration (GO:0030335)|positive regulation of cell migration involved in sprouting angiogenesis (GO:0090050)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cell proliferation by VEGF-activated platelet derived growth factor receptor signaling pathway (GO:0038091)|positive regulation of cellular component movement (GO:0051272)|positive regulation of CREB transcription factor activity (GO:0032793)|positive regulation of endothelial cell chemotaxis by VEGF-activated vascular endothelial growth factor receptor signaling pathway (GO:0038033)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of focal adhesion assembly (GO:0051894)|positive regulation of gene expression (GO:0010628)|positive regulation of histone deacetylase activity (GO:1901727)|positive regulation of intracellular signal transduction (GO:1902533)|positive regulation of leukocyte migration (GO:0002687)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of mast cell chemotaxis (GO:0060754)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of neuroblast proliferation (GO:0002052)|positive regulation of p38MAPK cascade (GO:1900745)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of peptidyl-tyrosine autophosphorylation (GO:1900086)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of positive chemotaxis (GO:0050927)|positive regulation of protein autophosphorylation (GO:0031954)|positive regulation of protein complex assembly (GO:0031334)|positive regulation of protein kinase C signaling (GO:0090037)|positive regulation of protein localization to early endosome (GO:1902966)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of receptor internalization (GO:0002092)|positive regulation of retinal ganglion cell axon guidance (GO:1902336)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061419)|positive regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030949)|positive regulation of vascular permeability (GO:0043117)|post-embryonic camera-type eye development (GO:0031077)|primitive erythrocyte differentiation (GO:0060319)|regulation of cell shape (GO:0008360)|regulation of retinal ganglion cell axon guidance (GO:0090259)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|response to hypoxia (GO:0001666)|surfactant homeostasis (GO:0043129)|tube formation (GO:0035148)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)|vascular endothelial growth factor signaling pathway (GO:0038084)|vasculogenesis (GO:0001570)|VEGF-activated neuropilin signaling pathway (GO:0038190)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|membrane (GO:0016020)|platelet alpha granule lumen (GO:0031093)|proteinaceous extracellular matrix (GO:0005578)|secretory granule (GO:0030141)	chemoattractant activity (GO:0042056)|cytokine activity (GO:0005125)|extracellular matrix binding (GO:0050840)|fibronectin binding (GO:0001968)|growth factor activity (GO:0008083)|heparin binding (GO:0008201)|identical protein binding (GO:0042802)|neuropilin binding (GO:0038191)|platelet-derived growth factor receptor binding (GO:0005161)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|receptor agonist activity (GO:0048018)|vascular endothelial growth factor receptor 1 binding (GO:0043183)|vascular endothelial growth factor receptor 2 binding (GO:0043184)|vascular endothelial growth factor receptor binding (GO:0005172)			breast(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(1)|ovary(1)|prostate(1)	9	all_cancers(18;5.46e-07)|all_epithelial(2;5.96e-08)|Lung NSC(15;0.000157)|all_lung(25;0.000486)|Hepatocellular(11;0.00309)		all cancers(41;0.000413)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0742)|OV - Ovarian serous cystadenocarcinoma(102;0.196)		Aflibercept(DB08885)|Bevacizumab(DB00112)|Carvedilol(DB01136)|Dalteparin(DB06779)|Gliclazide(DB01120)|Minocycline(DB01017)|Ranibizumab(DB01270)|Vandetanib(DB05294)	CCCATTGCAGACCAAAGAAAG	0.438																																																0													199	171	181					6																	43746626		2203	4300	6503	SO:0001630	splice_region_variant	7422			AB021221	CCDS34457.1, CCDS4907.2, CCDS34458.1, CCDS47432.1, CCDS47433.1, CCDS47434.1, CCDS47435.1, CCDS55007.1, CCDS55008.1, CCDS55009.1, CCDS55010.1, CCDS55011.1, CCDS55012.1, CCDS55013.1, CCDS55014.1, CCDS55015.1, CCDS69125.1	6p12	2008-02-05	2006-10-31	2006-10-31	ENSG00000112715	ENSG00000112715			12680	protein-coding gene	gene with protein product		192240	"vascular endothelial growth factor"	VEGF		8786112	Standard	NM_001025366		Approved	VEGF-A, VPF	uc003owh.3	P15692	OTTHUMG00000014745	ENST00000523873.1:c.393-1A>G	6.37:g.43746626A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B5BU86|H0Y2S8|H0Y407|H0Y414|H0Y462|H0Y8N2|H3BLW7|O60720|O75875|Q074Z4|Q16889|Q5UB46|Q6P0P5|Q96KJ0|Q96L82|Q96NW5|Q9H1W8|Q9H1W9|Q9UH58|Q9UL23	Silent	SNP	ENST00000523873.1	37	CCDS55010.1	.	.	.	.	.	.	.	.	.	.	A	15.98	2.991235	0.54041	.	.	ENSG00000112715	ENST00000519767	.	.	.	5.67	5.67	0.87782	.	.	.	.	.	T	0.62159	0.2405	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.62927	-0.6750	4	.	.	.	.	13.9439	0.64073	1.0:0.0:0.0:0.0	.	.	.	.	A	283	.	.	T	+	1	0	VEGFA	43854604	1.000000	0.71417	1.000000	0.80357	0.965000	0.64279	6.043000	0.71004	2.288000	0.76882	0.533000	0.62120	ACC		0.438	VEGFA-021	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000374460.1	NM_001025366	Silent	G	43746626	A	G	43746626	5	3	666	1	0	0	0	0	0	0	1	0	17162	289	10	3	951	3	VEGFA	6	43746626	Splice_Site	SNP	A	TCGA-KN-8430-01A-11D-2310-10		43746626	127368441	37	42535										
CAPN11	11131	broad.mit.edu;bcgsc.ca	37	chr6	44150954	44150954	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gcttcatcagctgtttcctgAggctaaagaccatgttcagt	9	10	3	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr6:44150954A>G	ENST00000398776.1	+	21	2154	c.2116A>G	c.(2116-2118)Agg>Ggg	p.R706G	CAPN11_ENST00000542245.1_Missense_Mutation_p.R706G	NM_007058.3	NP_008989.2	Q9UMQ6	CAN11_HUMAN	calpain 11	706	Domain IV.				proteolysis (GO:0006508)	acrosomal vesicle (GO:0001669)|cytoplasm (GO:0005737)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)|peptidase activity (GO:0008233)			breast(3)|endometrium(5)|kidney(1)|large_intestine(5)|lung(17)|ovary(1)|pancreas(1)|prostate(2)|stomach(1)	36	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)			CTGTTTCCTGAGGCTAAAGAC	0.547																																																0													145	137	139					6																	44150954		1967	4158	6125	SO:0001583	missense	11131			AJ242832	CCDS47436.1	6p12	2013-01-10			ENSG00000137225	ENSG00000137225		"EF-hand domain containing"	1478	protein-coding gene	gene with protein product		604822				10409436	Standard	NM_007058		Approved		uc003owt.1	Q9UMQ6	OTTHUMG00000014758	ENST00000398776.1:c.2116A>G	6.37:g.44150954A>G	ENSP00000381758:p.Arg706Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RA64|Q5T3G1|Q8N4R5	Missense_Mutation	SNP	ENST00000398776.1	37	CCDS47436.1	.	.	.	.	.	.	.	.	.	.	A	17.02	3.282348	0.59867	.	.	ENSG00000137225	ENST00000398776;ENST00000542245	T;T	0.31510	1.49;1.49	5.23	4.04	0.47022	EF-hand-like domain (1);	0.674554	0.12929	N	0.427557	T	0.49847	0.1581	M	0.92784	3.345	0.27095	N	0.962762	D	0.76494	0.999	D	0.65684	0.937	T	0.51466	-0.8702	10	0.87932	D	0	.	11.4587	0.50197	0.8492:0.1508:0.0:0.0	.	706	Q9UMQ6	CAN11_HUMAN	G	706	ENSP00000381758:R706G;ENSP00000441078:R706G	ENSP00000381758:R706G	R	+	1	2	CAPN11	44258932	0.993000	0.37304	1.000000	0.80357	0.909000	0.53808	2.567000	0.45956	0.952000	0.37798	0.523000	0.50628	AGG		0.547	CAPN11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040714.3			G	44150954	A	G	44150954	3	3	666	1	0	0	0	0	1	0	0	0	2626	295	11	3	2198	3	CAPN11	6	44150954	Missense_Mutation	SNP	A	TCGA-KN-8430-01A-11D-2310-10	404328	44150954	126964113	38	42536										
DST	667	broad.mit.edu	37	chr6	56422170	56422171	+	Frame_Shift_Ins	INS	-	-	A													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gggtcaattgacaagggcccINSaagaacactgaccataagtt							TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr6:56422170_56422171insA	ENST00000361203.3	-	55	13960_13961	c.13953_13954insT	c.(13951-13956)cttgggfs	p.G4652fs	DST_ENST00000421834.2_Frame_Shift_Ins_p.G2566fs|DST_ENST00000244364.6_Frame_Shift_Ins_p.G2240fs|DST_ENST00000446842.2_Frame_Shift_Ins_p.G4328fs|DST_ENST00000370769.4_Frame_Shift_Ins_p.G4654fs|DST_ENST00000370754.5_Frame_Shift_Ins_p.G4832fs|DST_ENST00000312431.6_3'UTR|DST_ENST00000370788.2_Frame_Shift_Ins_p.G2566fs			Q03001	DYST_HUMAN	dystonin	4652					axonogenesis (GO:0007409)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cell motility (GO:0048870)|cytoplasmic microtubule organization (GO:0031122)|cytoskeleton organization (GO:0007010)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)|integrin-mediated signaling pathway (GO:0007229)|intermediate filament cytoskeleton organization (GO:0045104)|maintenance of cell polarity (GO:0030011)|microtubule cytoskeleton organization (GO:0000226)|regulation of microtubule polymerization or depolymerization (GO:0031110)|response to wounding (GO:0009611)|retrograde axon cargo transport (GO:0008090)	actin cytoskeleton (GO:0015629)|axon (GO:0030424)|basal plasma membrane (GO:0009925)|basement membrane (GO:0005604)|cell leading edge (GO:0031252)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|integral component of membrane (GO:0016021)|intermediate filament (GO:0005882)|intermediate filament cytoskeleton (GO:0045111)|microtubule cytoskeleton (GO:0015630)|microtubule plus-end (GO:0035371)|neurofilament cytoskeleton (GO:0060053)|nucleus (GO:0005634)|Z disc (GO:0030018)	calcium ion binding (GO:0005509)|integrin binding (GO:0005178)|microtubule plus-end binding (GO:0051010)|protein C-terminus binding (GO:0008022)|protein homodimerization activity (GO:0042803)			NS(1)|breast(5)|central_nervous_system(8)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(22)|lung(43)|ovary(7)|prostate(1)|skin(4)|upper_aerodigestive_tract(3)	105	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			GACAAGGGCCCAAGAACACTGA	0.426																																																0																																										SO:0001589	frameshift_variant	667			M22942, M69225	CCDS4959.1, CCDS47443.1, CCDS75474.1	6p12.1	2013-01-10	2004-06-25	2004-07-01	ENSG00000151914	ENSG00000151914		"EF-hand domain containing"	1090	protein-coding gene	gene with protein product		113810	"bullous pemphigoid antigen 1, 230/240kDa"	BPAG1		2461961, 2276744	Standard	NM_001144770		Approved	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2	uc021zba.2	Q03001	OTTHUMG00000014913	ENST00000361203.3:c.13954dupT	6.37:g.56422172_56422172dupA	ENSP00000354508:p.Gly4652fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3H1|O94833|Q12825|Q13266|Q13267|Q13775|Q5TBT0|Q5TBT2|Q5TF23|Q5TF24|Q8N1T8|Q8N8J3|Q8WXK8|Q8WXK9|Q96AK9|Q96DQ5|Q96J76|Q96QT5|Q9H555|Q9UGD7|Q9UGD8|Q9UN10	Frame_Shift_Ins	INS	ENST00000361203.3	37																																																																																					0.426	DST-004	NOVEL	not_organism_supported|basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000041021.3	NM_001723		A	56422171	-	A	56422170	7	5	666	1	0	1	1	0	0	0	0	0	4785	594	21	0	8977	0	DST	6	56422170	Frame_Shift_Ins	INS	-	TCGA-KN-8430-01A-11D-2310-10	12271216	56422170	114692897	39	42537										
SAMD5	389432	broad.mit.edu	37	chr6	147830410	147830411	+	Frame_Shift_Ins	INS	-	-	C													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ctctcgcggccacacgaccgINSccccccgcagcagggagctg							TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr6:147830410_147830411insC	ENST00000367474.1	+	1	348_349	c.346_347insC	c.(346-348)gccfs	p.A116fs		NM_001030060.2	NP_001025231.1	Q5TGI4	SAMD5_HUMAN	sterile alpha motif domain containing 5	116													Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;9.55e-10)|GBM - Glioblastoma multiforme(68;0.112)		CCACACGACCGCCCCCCGCAGC	0.743																																																0																																										SO:0001589	frameshift_variant	389432			AL354880	CCDS34548.1	6q24.3	2013-01-10			ENSG00000203727	ENSG00000203727		"Sterile alpha motif (SAM) domain containing"	21180	protein-coding gene	gene with protein product							Standard	NM_001030060		Approved	dJ875H10.1	uc003qmc.2	Q5TGI4	OTTHUMG00000015767	ENST00000367474.1:c.352dupC	6.37:g.147830416_147830416dupC	ENSP00000356444:p.Ala116fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000367474.1	37	CCDS34548.1																																																																																				0.743	SAMD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042610.1	NM_001030060		C	147830411	-	C	147830410	7	5	666	1	0	1	1	0	0	0	0	0	13836	1087	38	0	348	0	SAMD5	6	147830410	Frame_Shift_Ins	INS	-	TCGA-KN-8430-01A-11D-2310-10	91408240	147830410	23284657	40	42538										
TTLL2	83887	bcgsc.ca	37	chr6	167753795	167753795	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tttccgaatgaccgaacacaAcagtgttaaaccgtggcagc	9	11	0	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr6:167753795A>G	ENST00000239587.5	+	3	495	c.407A>G	c.(406-408)aAc>aGc	p.N136S		NM_031949.4	NP_114155.4	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	136	TTL. {ECO:0000255|PROSITE- ProRule:PRU00568}.				cellular protein modification process (GO:0006464)		ligase activity (GO:0016874)			central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(8)|lung(17)|ovary(1)|prostate(1)|skin(2)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	39		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)		ACCGAACACAACAGTGTTAAA	0.522																																																0													158	139	145					6																	167753795		2203	4300	6503	SO:0001583	missense	83887			AK093039	CCDS5301.1	6q27	2013-02-14		2004-01-14	ENSG00000120440	ENSG00000120440		"Tubulin tyrosine ligase-like family"	21211	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 104"	C6orf104		11054573	Standard	XM_006715572		Approved	NYD-TSPG, dJ366N23.3	uc003qvs.1	Q9BWV7	OTTHUMG00000016023	ENST00000239587.5:c.407A>G	6.37:g.167753795A>G	ENSP00000239587:p.Asn136Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RB11|B3KS77|Q7Z6R8|Q86X22	Missense_Mutation	SNP	ENST00000239587.5	37	CCDS5301.1	.	.	.	.	.	.	.	.	.	.	a	0.436	-0.900972	0.02472	.	.	ENSG00000120440	ENST00000239587;ENST00000540954	T	0.02258	4.37	3.37	-4.51	0.03483	.	2.260220	0.02250	N	0.066544	T	0.00300	0.0009	N	0.05078	-0.115	0.09310	N	1	B	0.11235	0.004	B	0.08055	0.003	T	0.47032	-0.9148	10	0.10111	T	0.7	.	0.763	0.01010	0.4153:0.1434:0.1229:0.3185	.	136	Q9BWV7	TTLL2_HUMAN	S	136;63	ENSP00000239587:N136S	ENSP00000239587:N136S	N	+	2	0	TTLL2	167673785	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	0.078000	0.14761	-0.589000	0.05874	-2.495000	0.00193	AAC		0.522	TTLL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043127.3	NM_031949		G	167753795	A	G	167753795	3	3	666	1	0	0	0	0	1	0	0	0	16739	43	2	3	417	3	TTLL2	6	167753795	Missense_Mutation	SNP	A	TCGA-KN-8430-01A-11D-2310-10	19923385	167753795	3361272	41	42539										
TRRAP	8295	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	98609129	98609129	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	cagcgtccatgattgcggtcGcccggtgcttcgcccagcca	12	16	0	1	rs145619183		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr7:98609129G>A	ENST00000359863.4	+	71	11475	c.11266G>A	c.(11266-11268)Gcc>Acc	p.A3756T	AC004893.11_ENST00000360902.1_RNA|TRRAP_ENST00000355540.3_Missense_Mutation_p.A3727T|TRRAP_ENST00000446306.3_Missense_Mutation_p.A3745T	NM_001244580.1	NP_001231509.1	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated protein	3756	PI3K/PI4K. {ECO:0000255|PROSITE- ProRule:PRU00269}.				chromatin organization (GO:0006325)|histone acetylation (GO:0016573)|histone deubiquitination (GO:0016578)|histone H2A acetylation (GO:0043968)|histone H4 acetylation (GO:0043967)|mitotic cell cycle checkpoint (GO:0007093)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	NuA4 histone acetyltransferase complex (GO:0035267)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PCAF complex (GO:0000125)|STAGA complex (GO:0030914)|Swr1 complex (GO:0000812)|transcription factor TFTC complex (GO:0033276)	phosphotransferase activity, alcohol group as acceptor (GO:0016773)|transcription coactivator activity (GO:0003713)|transcription cofactor activity (GO:0003712)			NS(3)|breast(1)|central_nervous_system(10)|endometrium(16)|kidney(7)|large_intestine(36)|liver(1)|lung(54)|ovary(10)|pancreas(1)|prostate(8)|skin(16)|stomach(5)|upper_aerodigestive_tract(6)|urinary_tract(2)	176	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GATTGCGGTCGCCCGGTGCTT	0.612																																																0								G	THR/ALA	1,4405	2.1+/-5.4	0,1,2202	69	64	66		11179	3.8	0.3	7	dbSNP_134	66	0,8600		0,0,4300	no	missense	TRRAP	NM_003496.3	58	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	probably-damaging	3727/3831	98609129	1,13005	2203	4300	6503	SO:0001583	missense	8295			AF076974	CCDS5659.1, CCDS59066.1	7q21.2-q22.1	2010-06-22			ENSG00000196367	ENSG00000196367			12347	protein-coding gene	gene with protein product		603015				9708738, 9885574	Standard	NM_003496		Approved	TR-AP, PAF400, Tra1	uc003upp.3	Q9Y4A5	OTTHUMG00000150403	ENST00000359863.4:c.11266G>A	7.37:g.98609129G>A	ENSP00000352925:p.Ala3756Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A4D265|O75218|Q9Y631|Q9Y6H4	Missense_Mutation	SNP	ENST00000359863.4	37	CCDS59066.1	.	.	.	.	.	.	.	.	.	.	G	22.9	4.352462	0.82132	2.27E-4	0.0	ENSG00000196367	ENST00000359863;ENST00000355540;ENST00000446306	T;T	0.81330	-1.48;-1.48	5.67	3.83	0.44106	Protein kinase-like domain (1);Phosphatidylinositol 3-/4-kinase, catalytic (3);	0.055645	0.64402	D	0.000001	D	0.91212	0.7231	M	0.91196	3.185	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.74348	0.98;0.976;0.983	D	0.92652	0.6134	10	0.87932	D	0	.	15.096	0.72235	0.0:0.0:0.7422:0.2578	.	3727;3484;3756	Q9Y4A5-2;Q59FH1;Q9Y4A5	.;.;TRRAP_HUMAN	T	3756;3727;3744	ENSP00000352925:A3756T;ENSP00000347733:A3727T	ENSP00000347733:A3727T	A	+	1	0	TRRAP	98447065	1.000000	0.71417	0.273000	0.24645	0.502000	0.33828	7.626000	0.83164	0.715000	0.32103	0.655000	0.94253	GCC		0.612	TRRAP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000317978.1	NM_003496		A	98609129	G	A	98609129	3	1	666	1	0	0	0	0	1	0	0	0	16613	1087	38	1	11453	1	TRRAP	7	98609129	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10		98609129	60529534	42	42540										
MYL10	93408	hgsc.bcm.edu;mdanderson.org	37	chr7	101267298	101267298	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	cagcctgggcgacagagccaGactctgtcaaacaaacaaat	9	12	2	2	rs186580198	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr7:101267298G>C	ENST00000223167.4	-	3	352	c.175C>G	c.(175-177)Ctg>Gtg	p.L59V		NM_138403.4	NP_612412.2	Q9BUA6	MYL10_HUMAN	myosin, light chain 10, regulatory	59						mitochondrion (GO:0005739)	calcium ion binding (GO:0005509)			breast(1)|kidney(1)|large_intestine(3)|lung(6)|ovary(1)	12						gacagagccagactctgtcaa	0.502													G|||	22	0.00439297	0.0015	0.0058	5008	,	,		14497	0.0		0.0129	False		,,,				2504	0.0031				Esophageal Squamous(24;575 709 17516 40384 51639)											0													2	4	3					7																	101267298		450	613	1063	SO:0001583	missense	93408			BC002778	CCDS34713.1	7q22.1	2013-01-10			ENSG00000106436	ENSG00000106436		"Myosins / Light chain", "EF-hand domain containing"	29825	protein-coding gene	gene with protein product						1628631	Standard	NM_138403		Approved	MGC3479, MYLC2PL, PLRLC	uc003uyr.3	Q9BUA6	OTTHUMG00000157137	ENST00000223167.4:c.175C>G	7.37:g.101267298G>C	ENSP00000223167:p.Leu59Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000223167.4	37	CCDS34713.1	9	0.004120879120879121	1	0.0020325203252032522	1	0.0027624309392265192	0	0.0	7	0.009234828496042216	G	2.238	-0.374445	0.05034	.	.	ENSG00000106436	ENST00000223167	T	0.23950	1.88	0.235	0.235	0.15431	.	.	.	.	.	T	0.18002	0.0432	M	0.72624	2.21	0.20563	N	0.999885	B	0.06786	0.001	B	0.01281	0.0	T	0.23440	-1.0188	8	0.33141	T	0.24	.	.	.	.	.	59	Q9BUA6	MYL10_HUMAN	V	59	ENSP00000223167:L59V	ENSP00000223167:L59V	L	-	1	2	MYL10	101054018	0.036000	0.19791	0.124000	0.21820	0.129000	0.20672	-0.572000	0.05881	0.308000	0.22923	0.313000	0.20887	CTG		0.502	MYL10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347575.1	NM_138403		C	101267298	G	C	101267298	3	2	666	1	0	0	0	0	1	0	0	0	10051	933	33	4	529	4	MYL10	7	101267298	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	2658169	101267298	57871365	43	42541										
SSPO	23145	broad.mit.edu;mdanderson.org	37	chr7	149480236	149480236	+	RNA	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ttcacccagaaccagcaggaCgacttcctgacaccagccgg	9	16	1	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr7:149480236C>T	ENST00000378016.2	+	0	2118							A2VEC9	SSPO_HUMAN	SCO-spondin						cell adhesion (GO:0007155)	extracellular space (GO:0005615)	peptidase inhibitor activity (GO:0030414)					Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			ACCAGCAGGACGACTTCCTGA	0.592																																																0													97	102	100					7																	149480236		2179	4270	6449			23145			AK093431		7q36.1	2013-08-07	2013-08-06		ENSG00000197558	ENSG00000197558			21998	protein-coding gene	gene with protein product	"subcommissural organ spondin", "SCO protein, thrombospondin domain containing"		"SCO-spondin homolog (Bos taurus)"			8743952, 11008217	Standard	NM_198455		Approved	SCO-spondin, KIAA0543, FLJ36112	uc010lpk.3	A2VEC9	OTTHUMG00000157884		7.37:g.149480236C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q76B61	Silent	SNP	ENST00000378016.2	37																																																																																					0.592	SSPO-202	KNOWN	basic	processed_transcript	processed_transcript				T	149480236	C	T	149480236	1	4	666	0	1	0	0	0	0	0	0	0	15201	535	19	1		1	SSPO	7	149480236	RNA	SNP	C	TCGA-KN-8430-01A-11D-2310-10	48212938	149480236	9658427	44	42542										
NOM1	64434	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr7	156742689	156742689	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	aaaagccgtaaggaactgagGaaggagaagcggcacctgcg	15	8	0	2	rs375339990		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr7:156742689G>A	ENST00000275820.3	+	1	273	c.258G>A	c.(256-258)agG>agA	p.R86R		NM_138400.1	NP_612409.1	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	86	Necessary for nucleolar localization and for targeting PPP1CA to the nucleolus.					nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			endometrium(5)|kidney(4)|large_intestine(9)|lung(7)|ovary(1)|prostate(2)|skin(2)|urinary_tract(1)	31	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		AGGAACTGAGGAAGGAGAAGC	0.701																																																0								G		2,3778		0,2,1888	5	7	6		258	-5	0.1	7		6	0,7658		0,0,3829	no	coding-synonymous	NOM1	NM_138400.1		0,2,5717	AA,AG,GG		0.0,0.0529,0.0175		86/861	156742689	2,11436	1890	3829	5719	SO:0001819	synonymous_variant	64434			AF107455	CCDS34787.1	7q36.3	2014-06-13	2005-03-30	2005-03-30	ENSG00000146909	ENSG00000146909			13244	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 113"	611269	"chromosome 7 open reading frame 3"	C7orf3		10329000	Standard	XM_005249560		Approved	SGD1, PPP1R113	uc003wmy.3	Q5C9Z4	OTTHUMG00000152639	ENST00000275820.3:c.258G>A	7.37:g.156742689G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q96I08	Silent	SNP	ENST00000275820.3	37	CCDS34787.1																																																																																				0.701	NOM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327098.1	NM_138400		A	156742689	G	A	156742689	2	1	666	1	0	0	0	0	0	0	0	1	10537	1165	41	2		2	NOM1	7	156742689	Silent	SNP	G	TCGA-KN-8430-01A-11D-2310-10	7262453	156742689	2395974	45	42543										
CLN8	2055	broad.mit.edu;hgsc.bcm.edu	37	chr8	1728652	1728652	+	Frame_Shift_Del	DEL	G	G	-													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	actcagcagcttctcaatccGgtggactggaacttcgcaca							TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr8:1728652delG	ENST00000331222.4	+	3	1027	c.780delG	c.(778-780)ccgfs	p.P260fs	CLN8_ENST00000523237.1_3'UTR	NM_018941.3	NP_061764.2	Q9UBY8	CLN8_HUMAN	ceroid-lipofuscinosis, neuronal 8 (epilepsy, progressive with mental retardation)	260	TLC. {ECO:0000255|PROSITE- ProRule:PRU00205}.				adult walking behavior (GO:0007628)|age-dependent response to oxidative stress (GO:0001306)|associative learning (GO:0008306)|cell death (GO:0008219)|cellular protein catabolic process (GO:0044257)|ceramide biosynthetic process (GO:0046513)|ceramide metabolic process (GO:0006672)|cholesterol metabolic process (GO:0008203)|L-glutamate uptake involved in synaptic transmission (GO:0051935)|lipid biosynthetic process (GO:0008610)|lipid transport (GO:0006869)|lysosome organization (GO:0007040)|mitochondrial membrane organization (GO:0007006)|musculoskeletal movement (GO:0050881)|negative regulation of apoptotic process (GO:0043066)|negative regulation of proteolysis (GO:0045861)|negative regulation of transferase activity (GO:0051348)|nervous system development (GO:0007399)|neurofilament cytoskeleton organization (GO:0060052)|neuromuscular process controlling balance (GO:0050885)|neuromuscular process controlling posture (GO:0050884)|phospholipid metabolic process (GO:0006644)|photoreceptor cell maintenance (GO:0045494)|protein catabolic process (GO:0030163)|regulation of cell size (GO:0008361)|retina development in camera-type eye (GO:0060041)|social behavior (GO:0035176)|somatic motor neuron differentiation (GO:0021523)|visual perception (GO:0007601)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)				central_nervous_system(1)|endometrium(3)|kidney(4)|large_intestine(4)|lung(7)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	24		Ovarian(12;0.0563)|Colorectal(14;0.0815)|Hepatocellular(245;0.0831)		BRCA - Breast invasive adenocarcinoma(11;7.67e-05)|READ - Rectum adenocarcinoma(644;0.0913)		TTCTCAATCCGGTGGACTGGA	0.547																																					Pancreas(155;338 1942 6138 10888 50612)											0													117	117	117					8																	1728652		2203	4300	6503	SO:0001589	frameshift_variant	2055			AF123761	CCDS5956.1	8p23.3	2014-09-17			ENSG00000182372	ENSG00000182372			2079	protein-coding gene	gene with protein product		607837	"chromosome 8 open reading frame 61"	EPMR, C8orf61		10508524	Standard	NM_018941		Approved	FLJ39417	uc003wpo.4	Q9UBY8	OTTHUMG00000090343	ENST00000331222.4:c.780delG	8.37:g.1728652delG	ENSP00000328182:p.Pro260fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q86U71|Q96I95	Frame_Shift_Del	DEL	ENST00000331222.4	37	CCDS5956.1																																																																																				0.547	CLN8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206715.2	NM_018941		-	1728652	G	-	1728652	7	5	666	1	0	1	0	1	0	0	0	0	3548	1103	39	0	786	0	CLN8	8	1728652	Frame_Shift_Del	DEL	G	TCGA-KN-8430-01A-11D-2310-10		1728652	144635370	46	42544	406	2								
CLN8	2055	bcgsc.ca	37	chr8	1728653	1728653	+	Frame_Shift_Del	DEL	G	G	-													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ctcagcagcttctcaatccgGtggactggaacttcgcacag							TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr8:1728653delG	ENST00000331222.4	+	3	1028	c.781delG	c.(781-783)gtgfs	p.V261fs	CLN8_ENST00000523237.1_3'UTR	NM_018941.3	NP_061764.2	Q9UBY8	CLN8_HUMAN	ceroid-lipofuscinosis, neuronal 8 (epilepsy, progressive with mental retardation)	261	TLC. {ECO:0000255|PROSITE- ProRule:PRU00205}.				adult walking behavior (GO:0007628)|age-dependent response to oxidative stress (GO:0001306)|associative learning (GO:0008306)|cell death (GO:0008219)|cellular protein catabolic process (GO:0044257)|ceramide biosynthetic process (GO:0046513)|ceramide metabolic process (GO:0006672)|cholesterol metabolic process (GO:0008203)|L-glutamate uptake involved in synaptic transmission (GO:0051935)|lipid biosynthetic process (GO:0008610)|lipid transport (GO:0006869)|lysosome organization (GO:0007040)|mitochondrial membrane organization (GO:0007006)|musculoskeletal movement (GO:0050881)|negative regulation of apoptotic process (GO:0043066)|negative regulation of proteolysis (GO:0045861)|negative regulation of transferase activity (GO:0051348)|nervous system development (GO:0007399)|neurofilament cytoskeleton organization (GO:0060052)|neuromuscular process controlling balance (GO:0050885)|neuromuscular process controlling posture (GO:0050884)|phospholipid metabolic process (GO:0006644)|photoreceptor cell maintenance (GO:0045494)|protein catabolic process (GO:0030163)|regulation of cell size (GO:0008361)|retina development in camera-type eye (GO:0060041)|social behavior (GO:0035176)|somatic motor neuron differentiation (GO:0021523)|visual perception (GO:0007601)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)				central_nervous_system(1)|endometrium(3)|kidney(4)|large_intestine(4)|lung(7)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	24		Ovarian(12;0.0563)|Colorectal(14;0.0815)|Hepatocellular(245;0.0831)		BRCA - Breast invasive adenocarcinoma(11;7.67e-05)|READ - Rectum adenocarcinoma(644;0.0913)		TCTCAATCCGGTGGACTGGAA	0.552																																					Pancreas(155;338 1942 6138 10888 50612)											0													116	116	116					8																	1728653		2203	4300	6503	SO:0001589	frameshift_variant	2055			AF123761	CCDS5956.1	8p23.3	2014-09-17			ENSG00000182372	ENSG00000182372			2079	protein-coding gene	gene with protein product		607837	"chromosome 8 open reading frame 61"	EPMR, C8orf61		10508524	Standard	NM_018941		Approved	FLJ39417	uc003wpo.4	Q9UBY8	OTTHUMG00000090343	ENST00000331222.4:c.781delG	8.37:g.1728653delG	ENSP00000328182:p.Val261fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q86U71|Q96I95	Frame_Shift_Del	DEL	ENST00000331222.4	37	CCDS5956.1																																																																																				0.552	CLN8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206715.2	NM_018941		-	1728653	G	-	1728653	7	5	666	1	0	1	0	1	0	0	0	0	3548	1261	44	0	787	0	CLN8	8	1728653	Frame_Shift_Del	DEL	G	TCGA-KN-8430-01A-11D-2310-10	1	1728653	144635369	47	42545	406	2								
MTMR9	66036	broad.mit.edu	37	chr8	11162509	11162509	+	Frame_Shift_Del	DEL	A	A	-													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	cagtactaagctattaccacAaaaaaaatgggatggtaagt							TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr8:11162509delA	ENST00000221086.3	+	4	1050	c.577delA	c.(577-579)aaafs	p.K194fs	MTMR9_ENST00000526292.1_Frame_Shift_Del_p.K109fs	NM_015458.3	NP_056273.2	Q96QG7	MTMR9_HUMAN	myotubularin related protein 9	194	Myotubularin phosphatase. {ECO:0000255|PROSITE-ProRule:PRU00669}.			K -> R (in Ref. 2; BAA91170). {ECO:0000305}.		cytoplasm (GO:0005737)	enzyme regulator activity (GO:0030234)|phosphatase activity (GO:0016791)			cervix(1)|endometrium(3)|kidney(2)|large_intestine(2)|lung(4)|ovary(1)|skin(1)|urinary_tract(2)	16			STAD - Stomach adenocarcinoma(15;0.215)	COAD - Colon adenocarcinoma(149;0.0678)		CTATTACCACAAAAAAAATGG	0.453																																																0													97	82	87					8																	11162509		2203	4300	6503	SO:0001589	frameshift_variant	66036			AJ297823	CCDS5979.1	8p23-p22	2011-06-09	2002-09-05	2002-09-06	ENSG00000104643	ENSG00000104643		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	14596	protein-coding gene	gene with protein product		606260	"myotubularin related protein 8"	C8orf9, MTMR8		11472061, 11896452, 12890864	Standard	NM_015458		Approved	DKFZp434K171, LIP-STYX	uc003wtm.3	Q96QG7	OTTHUMG00000090647	ENST00000221086.3:c.577delA	8.37:g.11162509delA	ENSP00000221086:p.Lys194fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z291|Q52LU3|Q8WW11|Q96QG6|Q9NX50	Frame_Shift_Del	DEL	ENST00000221086.3	37	CCDS5979.1																																																																																				0.453	MTMR9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207307.2	NM_015458		-	11162509	A	-	11162509	7	5	666	1	0	1	0	1	0	0	0	0	9957	131	5	0	591	0	MTMR9	8	11162509	Frame_Shift_Del	DEL	A	TCGA-KN-8430-01A-11D-2310-10	9433856	11162509	135201513	48	42546										
NSMAF	8439	bcgsc.ca	37	chr8	59512397	59512397	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ttcaggctattgactagaaaGctcacatcatcaccatagaa	6	10	4	3			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr8:59512397G>T	ENST00000038176.3	-	18	1577	c.1365C>A	c.(1363-1365)agC>agA	p.S455R	NSMAF_ENST00000427130.2_Missense_Mutation_p.S486R|NSMAF_ENST00000519858.1_5'Flank	NM_003580.3	NP_003571.2	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation associated factor	455	BEACH. {ECO:0000255|PROSITE- ProRule:PRU00026}.				ceramide metabolic process (GO:0006672)|intracellular signal transduction (GO:0035556)|positive regulation of apoptotic process (GO:0043065)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)	receptor signaling protein activity (GO:0005057)|sphingomyelin phosphodiesterase activator activity (GO:0016230)			autonomic_ganglia(1)|central_nervous_system(1)|endometrium(7)|kidney(3)|large_intestine(7)|lung(11)|ovary(1)|pancreas(1)|prostate(2)|skin(3)|urinary_tract(1)	38		all_lung(136;0.174)|Lung NSC(129;0.2)				TGACTAGAAAGCTCACATCAT	0.438																																																0													84	84	84					8																	59512397		2203	4300	6503	SO:0001583	missense	8439			X96586	CCDS6173.1, CCDS47864.1	8q12-q13	2013-01-10			ENSG00000035681	ENSG00000035681		"WD repeat domain containing"	8017	protein-coding gene	gene with protein product		603043				8808629, 10640829	Standard	NM_003580		Approved	FAN	uc011lee.2	Q92636	OTTHUMG00000164352	ENST00000038176.3:c.1365C>A	8.37:g.59512397G>T	ENSP00000038176:p.Ser455Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFB0|E9PCH0|Q8IW26	Missense_Mutation	SNP	ENST00000038176.3	37	CCDS6173.1	.	.	.	.	.	.	.	.	.	.	G	15.40	2.821634	0.50633	.	.	ENSG00000035681	ENST00000038176;ENST00000427130	T;T	0.80480	-1.38;-1.38	6.08	6.08	0.98989	BEACH domain (4);	0.115644	0.85682	D	0.000000	T	0.79269	0.4417	M	0.72894	2.215	0.47374	D	0.999403	B;B	0.18610	0.029;0.02	B;B	0.21917	0.022;0.037	T	0.72381	-0.4311	9	.	.	.	.	13.2481	0.60033	0.1122:0.0:0.8878:0.0	.	486;455	Q92636-2;Q92636	.;FAN_HUMAN	R	455;486	ENSP00000038176:S455R;ENSP00000411012:S486R	.	S	-	3	2	NSMAF	59674951	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	3.236000	0.51336	2.894000	0.99253	0.591000	0.81541	AGC		0.438	NSMAF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378384.1	NM_003580		T	59512397	G	T	59512397	3	4	666	1	0	0	0	0	1	0	0	0	10681	962	34	4	1444	4	NSMAF	8	59512397	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	48349888	59512397	86851625	49	42547										
SLC26A7	115111	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr8	92378833	92378833	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	cctgcagcaggtgaaaattaTctcaataaacaacccgcttg	7	11	1	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr8:92378833T>C	ENST00000276609.3	+	14	1753	c.1514T>C	c.(1513-1515)aTc>aCc	p.I505T	SLC26A7_ENST00000520249.1_3'UTR|SLC26A7_ENST00000523719.1_Missense_Mutation_p.I505T|SLC26A7_ENST00000309536.2_Missense_Mutation_p.I505T	NM_001282356.1|NM_052832.2	NP_001269285.1|NP_439897.1			solute carrier family 26 (anion exchanger), member 7											breast(1)|cervix(1)|endometrium(4)|large_intestine(10)|lung(26)|ovary(3)|skin(4)|upper_aerodigestive_tract(1)	50			BRCA - Breast invasive adenocarcinoma(11;0.00802)			GTGAAAATTATCTCAATAAAC	0.328																																																0													45	49	47					8																	92378833		2203	4300	6503	SO:0001583	missense	115111			AF331521	CCDS6254.1, CCDS6255.1, CCDS75765.1	8q23	2013-07-18	2013-07-18		ENSG00000147606	ENSG00000147606		"Solute carriers"	14467	protein-coding gene	gene with protein product		608479	"solute carrier family 26, member 7"			11834742, 11829495, 16524946	Standard	NM_134266		Approved	SUT2	uc003yez.3	Q8TE54	OTTHUMG00000164062	ENST00000276609.3:c.1514T>C	8.37:g.92378833T>C	ENSP00000276609:p.Ile505Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000276609.3	37	CCDS6254.1	.	.	.	.	.	.	.	.	.	.	T	15.13	2.741478	0.49151	.	.	ENSG00000147606	ENST00000523719;ENST00000276609;ENST00000309536	D;D;D	0.88818	-2.43;-2.43;-2.43	5.33	5.33	0.75918	Sulphate transporter/antisigma-factor antagonist STAS (4);	0.224247	0.31760	N	0.007101	D	0.85457	0.5701	L	0.57536	1.79	0.32391	N	0.553211	P;B	0.35272	0.493;0.324	B;B	0.28385	0.053;0.089	D	0.89445	0.3726	10	0.87932	D	0	.	12.8205	0.57690	0.0:0.0:0.0:1.0	.	505;505	Q8TE54-2;Q8TE54	.;S26A7_HUMAN	T	505	ENSP00000428849:I505T;ENSP00000276609:I505T;ENSP00000309504:I505T	ENSP00000276609:I505T	I	+	2	0	SLC26A7	92448009	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.465000	0.60141	2.025000	0.59659	0.533000	0.62120	ATC		0.328	SLC26A7-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377011.1			C	92378833	T	C	92378833	3	2	666	1	0	0	0	0	1	0	0	0	14535	1435	50	3	1564	3	SLC26A7	8	92378833	Missense_Mutation	SNP	T	TCGA-KN-8430-01A-11D-2310-10	32866436	92378833	53985189	50	42548										
C8orf85	441376	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr8	117954928	117954928	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	agcccaaaagatgatgctgcGaatccggaataaagaaatgc	10	8	0	3			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr8:117954928G>A	ENST00000378279.3	+	2	501	c.456G>A	c.(454-456)gcG>gcA	p.A152A	AARD_ENST00000523536.1_3'UTR	NM_001025357.2	NP_001020528.1	Q4LEZ3	AARD_HUMAN	alanine and arginine rich domain containing protein	152					lung development (GO:0030324)												ATGATGCTGCGAATCCGGAAT	0.502																																																0													68	63	65					8																	117954928		2203	4300	6503	SO:0001819	synonymous_variant	441376			AB181519, BC140924	CCDS34935.1	8q24.11	2012-04-19	2012-04-19	2012-04-19	ENSG00000205002	ENSG00000205002			33842	protein-coding gene	gene with protein product	"Alanine and arginine-rich domain-containing protein"		"chromosome 8 open reading frame 85"	C8orf85			Standard	NM_001025357		Approved	LOC441376	uc003yof.3	Q4LEZ3	OTTHUMG00000164961	ENST00000378279.3:c.456G>A	8.37:g.117954928G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A5PKU8	Silent	SNP	ENST00000378279.3	37	CCDS34935.1																																																																																				0.502	AARD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381195.1	NM_001025357		A	117954928	G	A	117954928	2	1	666	1	0	0	0	0	0	0	0	1	2443	1045	37	1		1	C8orf85	8	117954928	Silent	SNP	G	TCGA-KN-8430-01A-11D-2310-10	25576095	117954928	28409094	51	42549										
RHPN1	114822	broad.mit.edu	37	chr8	144462920	144462920	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	agctcgaccgtgaggatgacTtctgtgaggctgccgaggcc	15	11	1	3			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr8:144462920T>C	ENST00000289013.6	+	11	1479	c.1378T>C	c.(1378-1380)Ttc>Ctc	p.F460L		NM_052924.2	NP_443156.2	Q8TCX5	RHPN1_HUMAN	rhophilin, Rho GTPase binding protein 1	485	BRO1. {ECO:0000255|PROSITE- ProRule:PRU00526}.				signal transduction (GO:0007165)		small GTPase regulator activity (GO:0005083)			endometrium(1)|large_intestine(1)|lung(7)	9	all_cancers(97;7.39e-11)|all_epithelial(106;5.44e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.156)			TGAGGATGACTTCTGTGAGGC	0.672																																																0													20	24	22					8																	144462920		2120	4235	6355	SO:0001583	missense	114822			AB067516	CCDS47927.1	8q24.3	2003-02-06			ENSG00000158106	ENSG00000158106			19973	protein-coding gene	gene with protein product		601031				11572484	Standard	NM_052924		Approved	KIAA1929, RHPN, ODF5	uc003yyb.3	Q8TCX5	OTTHUMG00000165006	ENST00000289013.6:c.1378T>C	8.37:g.144462920T>C	ENSP00000289013:p.Phe460Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TAV1|Q96PV9	Missense_Mutation	SNP	ENST00000289013.6	37	CCDS47927.1	.	.	.	.	.	.	.	.	.	.	T	10.45	1.354829	0.24512	.	.	ENSG00000158106	ENST00000289013	T	0.17691	2.26	4.62	4.62	0.57501	.	0.000000	0.85682	D	0.000000	T	0.33498	0.0865	L	0.51914	1.62	0.49687	D	0.999819	D	0.89917	1.0	D	0.87578	0.998	T	0.02539	-1.1144	10	0.28530	T	0.3	-13.6319	13.1807	0.59653	0.0:0.0:0.0:1.0	.	460	Q8TCX5-2	.	L	460	ENSP00000289013:F460L	ENSP00000289013:F460L	F	+	1	0	RHPN1	144534063	1.000000	0.71417	0.998000	0.56505	0.091000	0.18340	7.502000	0.81614	1.712000	0.51347	0.260000	0.18958	TTC		0.672	RHPN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381417.1			C	144462920	T	C	144462920	3	2	666	1	0	0	0	0	1	0	0	0	13363	1609	56	3	1420	3	RHPN1	8	144462920	Missense_Mutation	SNP	T	TCGA-KN-8430-01A-11D-2310-10	26507992	144462920	1901102	52	42550										
IFNA21	3452	mdanderson.org	37	chr9	21166520	21166520	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	aggccctcctattacccaggCtgtgggtctgaggcagatca	12	12	2	2	rs140583107		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr9:21166520C>G	ENST00000380225.1	-	1	139	c.92G>C	c.(91-93)aGc>aCc	p.S31T		NM_002175.2	NP_002166.2	P01568	IFN21_HUMAN	interferon, alpha 21	31					adaptive immune response (GO:0002250)|B cell differentiation (GO:0030183)|B cell proliferation (GO:0042100)|blood coagulation (GO:0007596)|cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|humoral immune response (GO:0006959)|innate immune response (GO:0045087)|natural killer cell activation involved in immune response (GO:0002323)|positive regulation of peptidyl-serine phosphorylation of STAT protein (GO:0033141)|regulation of MHC class I biosynthetic process (GO:0045343)|regulation of type I interferon-mediated signaling pathway (GO:0060338)|response to exogenous dsRNA (GO:0043330)|T cell activation involved in immune response (GO:0002286)|type I interferon signaling pathway (GO:0060337)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	cytokine activity (GO:0005125)|cytokine receptor binding (GO:0005126)|type I interferon receptor binding (GO:0005132)			NS(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(1)|lung(5)|skin(3)	14				GBM - Glioblastoma multiforme(5;1.93e-187)|Lung(24;2.12e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		ATTACCCAGGCTGTGGGTCTG	0.522													C|||	1	0.000199681	0.0	0.0	5008	,	,		20238	0.0		0.0	False		,,,				2504	0.001															0													58	62	61					9																	21166520		2202	4280	6482	SO:0001583	missense	3452				CCDS6497.1	9p22	2010-12-10			ENSG00000137080	ENSG00000137080		"Interferons"	5424	protein-coding gene	gene with protein product	"leukocyte interferon protein"	147584				1385305	Standard	NM_002175		Approved	IFN-alphaI	uc003zom.2	P01568	OTTHUMG00000019653	ENST00000380225.1:c.92G>C	9.37:g.21166520C>G	ENSP00000369574:p.Ser31Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q14608|Q5VWD1|Q7M4Q4	Missense_Mutation	SNP	ENST00000380225.1	37	CCDS6497.1	.	.	.	.	.	.	.	.	.	.	N	4.824	0.153276	0.09185	.	.	ENSG00000137080	ENST00000380225	T	0.03413	3.94	3.16	-1.15	0.09709	Four-helical cytokine-like, core (1);Four-helical cytokine, core (1);	0.796247	0.11535	N	0.554284	T	0.04182	0.0116	M	0.72118	2.19	0.09310	N	1	B	0.10296	0.003	B	0.23018	0.043	T	0.47573	-0.9107	10	0.20519	T	0.43	.	0.656	0.00834	0.1988:0.3809:0.1955:0.2248	.	31	P01568	IFN21_HUMAN	T	31	ENSP00000369574:S31T	ENSP00000369574:S31T	S	-	2	0	IFNA21	21156520	0.000000	0.05858	0.000000	0.03702	0.143000	0.21401	-0.915000	0.04033	-0.239000	0.09710	0.644000	0.83932	AGC		0.522	IFNA21-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051882.1	NM_002175		G	21166520	C	G	21166520	3	3	666	1	0	0	0	0	1	0	0	0	7545	797	28	4	481	4	IFNA21	9	21166520	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10		21166520	120046911	53	42551										
FKTN	2218	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr9	108358893	108358893	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tcctagaatggagctggtttGtcaaaatccaaaggaagccg	11	8	1	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr9:108358893G>T	ENST00000223528.2	+	3	244	c.120G>T	c.(118-120)ttG>ttT	p.L40F	FKTN_ENST00000602661.1_Missense_Mutation_p.L40F|FKTN_ENST00000357998.5_Missense_Mutation_p.L40F|FKTN_ENST00000540160.1_Missense_Mutation_p.L40F|FKTN_ENST00000448551.2_Missense_Mutation_p.L40F|FKTN_ENST00000490134.1_3'UTR	NM_006731.2	NP_006722.2	O75072	FKTN_HUMAN	fukutin	40					muscle organ development (GO:0007517)|negative regulation of cell proliferation (GO:0008285)|negative regulation of JNK cascade (GO:0046329)|nervous system development (GO:0007399)|regulation of protein glycosylation (GO:0060049)	cis-Golgi network (GO:0005801)|endoplasmic reticulum (GO:0005783)|extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	transferase activity (GO:0016740)			breast(3)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(9)|ovary(1)|skin(3)|upper_aerodigestive_tract(1)	25						GAGCTGGTTTGTCAAAATCCA	0.323																																																0													90	91	90					9																	108358893		2203	4300	6503	SO:0001583	missense	2218				CCDS6766.1	9q31-q33	2014-09-17	2007-11-21	2007-11-21	ENSG00000106692	ENSG00000106692			3622	protein-coding gene	gene with protein product		607440	"Fukuyama type congenital muscular dystrophy (fukutin)"	FCMD		8275093, 17036286, 17044012	Standard	NM_001079802		Approved	LGMD2M	uc004bcs.3	O75072	OTTHUMG00000020425	ENST00000223528.2:c.120G>T	9.37:g.108358893G>T	ENSP00000223528:p.Leu40Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B4DUX9|J3KP13|Q3MIJ1|Q96TE1|Q9P295	Missense_Mutation	SNP	ENST00000223528.2	37	CCDS6766.1	.	.	.	.	.	.	.	.	.	.	G	11.37	1.617468	0.28801	.	.	ENSG00000106692	ENST00000223528;ENST00000448551;ENST00000540160;ENST00000357998	D;D;D;D	0.91068	-2.45;-2.78;-1.59;-2.78	5.83	3.16	0.36331	.	0.412429	0.26345	N	0.024912	T	0.74015	0.3661	N	0.04880	-0.145	0.23341	N	0.997877	B;B;B	0.06786	0.001;0.0;0.0	B;B;B	0.09377	0.004;0.001;0.0	T	0.58967	-0.7542	10	0.30078	T	0.28	-4.1447	1.2504	0.01981	0.5098:0.1362:0.1005:0.2535	.	40;40;40	B4E2W4;B4DUX9;O75072	.;.;FKTN_HUMAN	F	40	ENSP00000223528:L40F;ENSP00000399140:L40F;ENSP00000439423:L40F;ENSP00000350687:L40F	ENSP00000223528:L40F	L	+	3	2	FKTN	107398714	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	1.290000	0.33319	0.912000	0.36772	-0.218000	0.12543	TTG		0.323	FKTN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053505.1	NM_006731		T	108358893	G	T	108358893	3	4	666	1	0	0	0	0	1	0	0	0	5926	1368	48	4	126	4	FKTN	9	108358893	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	87192373	108358893	32854538	54	42552										
RC3H2	54542	bcgsc.ca	37	chr9	125639808	125639808	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tgttcctcgtggacaaccccCttgctgtcgcaaatctcggc	9	15	1	0			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr9:125639808C>T	ENST00000373670.1	-	8	1867	c.1267G>A	c.(1267-1269)Ggg>Agg	p.G423R	RC3H2_ENST00000423239.2_Missense_Mutation_p.G423R|RC3H2_ENST00000357244.2_Missense_Mutation_p.G423R|RC3H2_ENST00000373665.2_Missense_Mutation_p.G423R|SNORD90_ENST00000391145.1_RNA|RC3H2_ENST00000335387.5_Missense_Mutation_p.G423R			Q9HBD1	RC3H2_HUMAN	ring finger and CCCH-type domains 2	423					B cell homeostasis (GO:0001782)|limb development (GO:0060173)|lung alveolus development (GO:0048286)|lymph node development (GO:0048535)|multicellular organism growth (GO:0035264)|positive regulation of NIK/NF-kappaB signaling (GO:1901224)|post-embryonic development (GO:0009791)|posttranscriptional regulation of gene expression (GO:0010608)|protein polyubiquitination (GO:0000209)|spleen development (GO:0048536)|T cell homeostasis (GO:0043029)|T cell proliferation (GO:0042098)|T follicular helper cell differentiation (GO:0061470)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	DNA binding (GO:0003677)|mRNA binding (GO:0003729)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(3)|central_nervous_system(1)|endometrium(6)|large_intestine(4)|liver(1)|lung(11)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	33						GGACAACCCCCTTGCTGTCGC	0.418																																																0													276	270	272					9																	125639808		1898	4121	6019	SO:0001583	missense	54542			AK000308	CCDS43874.1, CCDS48014.1	9q34	2013-01-18	2010-09-15	2007-02-06	ENSG00000056586	ENSG00000056586		"RING-type (C3HC4) zinc fingers", "Zinc fingers, CCCH-type domain containing"	21461	protein-coding gene	gene with protein product		615231	"membrane associated DNA binding protein", "ring finger and CCCH-type zinc finger domains 2"	MNAB		10938276	Standard	NM_001100588		Approved	FLJ20301, FLJ20713, RNF164	uc010mwc.1	Q9HBD1	OTTHUMG00000020632	ENST00000373670.1:c.1267G>A	9.37:g.125639808C>T	ENSP00000362774:p.Gly423Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VXB1|Q5JPD7|Q86ST6|Q8N3D6|Q96F27|Q9H5J2|Q9HBD2|Q9NWN9|Q9NXE1	Missense_Mutation	SNP	ENST00000373670.1	37	CCDS43874.1	.	.	.	.	.	.	.	.	.	.	C	27.2	4.810872	0.90707	.	.	ENSG00000056586	ENST00000373670;ENST00000357244;ENST00000373663;ENST00000423239;ENST00000373665;ENST00000335387	T;T;T;T;T	0.75821	-0.97;-0.97;-0.97;-0.97;-0.97	5.54	5.54	0.83059	Zinc finger, CCCH-type (3);	0.109140	0.64402	N	0.000006	D	0.84660	0.5521	M	0.69463	2.115	0.54753	D	0.999985	B;D;D;D	0.76494	0.329;0.988;0.999;0.998	B;D;D;D	0.70487	0.327;0.954;0.969;0.948	T	0.82774	-0.0291	10	0.35671	T	0.21	-10.2029	18.4783	0.90800	0.0:1.0:0.0:0.0	.	423;294;423;423	A6NHN2;Q4VXB0;Q9HBD1;Q9HBD1-4	.;.;RC3H2_HUMAN;.	R	423;423;294;423;423;423	ENSP00000362774:G423R;ENSP00000349783:G423R;ENSP00000411767:G423R;ENSP00000362769:G423R;ENSP00000335150:G423R	ENSP00000335150:G423R	G	-	1	0	RC3H2	124679629	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	6.043000	0.71004	2.627000	0.88993	0.637000	0.83480	GGG		0.418	RC3H2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053966.1	NM_018835		T	125639808	C	T	125639808	3	4	666	1	0	0	0	0	1	0	0	0	13180	681	24	2	2438	2	RC3H2	9	125639808	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10	17280915	125639808	15573623	55	42553										
LAMC3	10319	bcgsc.ca	37	chr9	133951292	133951292	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ctccaacaccagctacgcgcTtctctggaatctgctggagg	10	14	2	0			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr9:133951292T>C	ENST00000361069.4	+	21	3702	c.3569T>C	c.(3568-3570)cTt>cCt	p.L1190P	LAMC3_ENST00000480883.1_Intron	NM_006059.3	NP_006050.3	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3	1190	Domain II and I.				astrocyte development (GO:0014002)|cell adhesion (GO:0007155)|cell morphogenesis involved in differentiation (GO:0000904)|extracellular matrix organization (GO:0030198)|retina development in camera-type eye (GO:0060041)|visual perception (GO:0007601)	basement membrane (GO:0005604)|extracellular region (GO:0005576)|membrane (GO:0016020)|proteinaceous extracellular matrix (GO:0005578)	structural molecule activity (GO:0005198)			endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(12)|lung(31)|ovary(3)|pancreas(1)|prostate(3)|upper_aerodigestive_tract(2)|urinary_tract(3)	69	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		AGCTACGCGCTTCTCTGGAAT	0.627																																																0													51	45	47					9																	133951292		2203	4300	6503	SO:0001583	missense	10319			AF041835	CCDS6938.1	9q31-q34	2013-03-01			ENSG00000050555	ENSG00000050555		"Laminins"	6494	protein-coding gene	gene with protein product		604349				10225960	Standard	NM_006059		Approved	DKFZp434E202	uc004caa.1	Q9Y6N6	OTTHUMG00000020819	ENST00000361069.4:c.3569T>C	9.37:g.133951292T>C	ENSP00000354360:p.Leu1190Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B1APX9|B1APY0|Q59H72	Missense_Mutation	SNP	ENST00000361069.4	37	CCDS6938.1	.	.	.	.	.	.	.	.	.	.	T	15.53	2.859643	0.51376	.	.	ENSG00000050555	ENST00000361069;ENST00000355048	T	0.31247	1.5	5.03	5.03	0.67393	.	0.073516	0.56097	D	0.000025	T	0.52964	0.1767	M	0.72118	2.19	0.80722	D	1	D	0.76494	0.999	D	0.74674	0.984	T	0.56323	-0.7998	10	0.62326	D	0.03	.	12.8413	0.57805	0.0:0.0:0.0:1.0	.	1190	Q9Y6N6	LAMC3_HUMAN	P	1190	ENSP00000354360:L1190P	ENSP00000347156:L1190P	L	+	2	0	LAMC3	132941113	0.937000	0.31787	0.601000	0.28877	0.099000	0.18886	2.761000	0.47589	2.027000	0.59764	0.397000	0.26171	CTT		0.627	LAMC3-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054717.3	NM_006059		C	133951292	T	C	133951292	3	2	666	1	0	0	0	0	1	0	0	0	8623	1609	56	3	3651	3	LAMC3	9	133951292	Missense_Mutation	SNP	T	TCGA-KN-8430-01A-11D-2310-10	8311484	133951292	7262139	56	42554										
FRG2B	441581	mdanderson.org	37	chr10	135438998	135438998	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	cccagtgcaagccctggaacGtcccctatggtgggcatcac	11	15	1	0	rs200937977		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr10:135438998G>T	ENST00000425520.1	-	4	494	c.442C>A	c.(442-444)Cgt>Agt	p.R148S	FRG2B_ENST00000443774.1_Missense_Mutation_p.R149S	NM_001080998.1	NP_001074467.1	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	148						nucleus (GO:0005634)				endometrium(2)|kidney(2)|lung(14)|ovary(1)|prostate(1)	20		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		GCCCTGGAACGTCCCCTATGG	0.527																																																0													114	128	123					10																	135438998		2199	4299	6498	SO:0001583	missense	441581			AY744466	CCDS44502.1	10q26.3	2012-10-02			ENSG00000225899	ENSG00000225899			33518	protein-coding gene	gene with protein product						15520407	Standard	NM_001080998		Approved		uc010qvg.2	Q96QU4	OTTHUMG00000019328	ENST00000425520.1:c.442C>A	10.37:g.135438998G>T	ENSP00000401310:p.Arg148Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VSQ1	Missense_Mutation	SNP	ENST00000425520.1	37	CCDS44502.1	.	.	.	.	.	.	.	.	.	.	.	1.237	-0.622516	0.03636	.	.	ENSG00000225899	ENST00000443774;ENST00000425520	T;T	0.43688	0.94;0.94	.	.	.	.	2.267060	0.02456	N	0.086049	T	0.27933	0.0688	N	0.19112	0.55	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.16808	-1.0390	8	0.36615	T	0.2	0.3215	.	.	.	.	148	Q96QU4	FRG2B_HUMAN	S	149;148	ENSP00000408343:R149S;ENSP00000401310:R148S	ENSP00000401310:R148S	R	-	1	0	FRG2B	135288988	0.004000	0.15560	0.164000	0.22755	0.165000	0.22458	-0.657000	0.05335	0.119000	0.18210	0.121000	0.15741	CGT		0.527	FRG2B-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000467780.1	NM_001080998		T	135438998	G	T	135438998	3	4	666	1	0	0	0	0	1	0	0	0	6054	1145	40	4	397	4	FRG2B	10	135438998	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10		135438998	95749	57	42555										
FRG2B	441581	mdanderson.org	37	chr10	135439079	135439079	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tcttgattttttattcaatgAcaagctgcactccttttctg	5	9	3	2	rs201410894		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr10:135439079A>T	ENST00000425520.1	-	4	413	c.361T>A	c.(361-363)Tca>Aca	p.S121T	FRG2B_ENST00000443774.1_Missense_Mutation_p.S122T	NM_001080998.1	NP_001074467.1	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	121						nucleus (GO:0005634)				endometrium(2)|kidney(2)|lung(14)|ovary(1)|prostate(1)	20		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		TTATTCAATGACAAGCTGCAC	0.512																																																0													31	38	36					10																	135439079		2125	4248	6373	SO:0001583	missense	441581			AY744466	CCDS44502.1	10q26.3	2012-10-02			ENSG00000225899	ENSG00000225899			33518	protein-coding gene	gene with protein product						15520407	Standard	NM_001080998		Approved		uc010qvg.2	Q96QU4	OTTHUMG00000019328	ENST00000425520.1:c.361T>A	10.37:g.135439079A>T	ENSP00000401310:p.Ser121Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VSQ1	Missense_Mutation	SNP	ENST00000425520.1	37	CCDS44502.1	.	.	.	.	.	.	.	.	.	.	.	0.001	-3.722229	0.00005	.	.	ENSG00000225899	ENST00000443774;ENST00000425520	T;T	0.42900	0.96;0.96	.	.	.	.	.	.	.	.	T	0.09774	0.0240	N	0.01576	-0.805	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.15321	-1.0441	7	0.02654	T	1	-1.6731	.	.	.	.	121	Q96QU4	FRG2B_HUMAN	T	122;121	ENSP00000408343:S122T;ENSP00000401310:S121T	ENSP00000401310:S121T	S	-	1	0	FRG2B	135289069	0.000000	0.05858	0.039000	0.18376	0.039000	0.13416	-0.790000	0.04604	-1.869000	0.01141	-1.957000	0.00481	TCA		0.512	FRG2B-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000467780.1	NM_001080998		T	135439079	A	T	135439079	3	4	666	1	0	0	0	0	1	0	0	0	6054	275	10	5	478	5	FRG2B	10	135439079	Missense_Mutation	SNP	A	TCGA-KN-8430-01A-11D-2310-10	81	135439079	95668	58	42556										
MUC6	4588	mdanderson.org	37	chr11	1018169	1018169	+	Silent	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ctagtggggttgggagtaatCgtggtagtagaagttggggt	19	2	0	1	rs111749447|rs77647814	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr11:1018169C>G	ENST00000421673.2	-	31	4682	c.4632G>C	c.(4630-4632)acG>acC	p.T1544T		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1544	Pro-rich.|Thr-rich.			T -> S (in Ref. 2; AAQ82434). {ECO:0000305}.	cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		TGGGAGTAATCGTGGTAGTAG	0.552																																																0													238	243	241					11																	1018169		2145	4235	6380	SO:0001819	synonymous_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4632G>C	11.37:g.1018169C>G		Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Silent	SNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.552	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		G	1018169	C	G	1018169	2	3	666	1	0	0	0	0	0	0	0	1	9987	871	31	4		4	MUC6	11	1018169	Silent	SNP	C	TCGA-KN-8430-01A-11D-2310-10		1018169	133988347	59	42557										
MUC6	4588	mdanderson.org	37	chr11	1018348	1018348	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	cttgagcgttgttggtggagGaatggtacctgttggcgctg	17	6	0	1	rs202193006		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr11:1018348G>A	ENST00000421673.2	-	31	4503	c.4453C>T	c.(4453-4455)Cct>Tct	p.P1485S		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1485	Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GTTGGTGGAGGAATGGTACCT	0.592																																																0													254	257	256					11																	1018348		2184	4263	6447	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4453C>T	11.37:g.1018348G>A	ENSP00000406861:p.Pro1485Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	4.529	0.098268	0.08681	.	.	ENSG00000184956	ENST00000421673	T	0.17054	2.3	2.28	-0.0764	0.13723	.	.	.	.	.	T	0.15089	0.0364	L	0.58101	1.795	0.09310	N	1	B	0.26809	0.16	B	0.20577	0.03	T	0.31530	-0.9940	9	0.19590	T	0.45	.	9.5843	0.39506	0.0:0.4031:0.5969:0.0	.	1485	Q6W4X9	MUC6_HUMAN	S	1485	ENSP00000406861:P1485S	ENSP00000406861:P1485S	P	-	1	0	MUC6	1008348	0.000000	0.05858	0.000000	0.03702	0.108000	0.19459	0.135000	0.15952	-0.162000	0.10964	0.313000	0.20887	CCT		0.592	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1018348	G	A	1018348	3	1	666	1	0	0	0	0	1	0	0	0	9987	1174	41	2	2878	2	MUC6	11	1018348	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	179	1018348	133988168	60	42558										
MUC2	4583	broad.mit.edu	37	chr11	1092953	1092953	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	acccatcaccaccaccactaCggtgaccccaaccccaacac	3	22	1	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr11:1092953C>T	ENST00000441003.2	+	30	4799	c.4772C>T	c.(4771-4773)aCg>aTg	p.T1591M	MUC2_ENST00000333592.6_5'Flank|MUC2_ENST00000361558.6_Intron|MUC2_ENST00000359061.5_Splice_Site_p.T1592M	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)		p.T1592M(1)|p.T1591M(1)		NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	accaccactacggtgacccca	0.627																																																2	Substitution - Missense(2)	endometrium(2)											54	86	74					11																	1092953		1812	3313	5125	SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4772C>T	11.37:g.1092953C>T	ENSP00000415183:p.Thr1591Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	C	3.179	-0.168424	0.06461	.	.	ENSG00000198788	ENST00000441003;ENST00000359061	T;T	0.16743	2.32;2.56	1.75	-0.619	0.11572	.	6.725620	0.00827	U	0.001636	T	0.08846	0.0219	.	.	.	0.09310	N	1	D	0.60575	0.988	B	0.34489	0.184	T	0.24548	-1.0157	9	0.32370	T	0.25	.	3.3423	0.07123	0.2481:0.5888:0.0:0.163	.	1591	E7EUV1	.	M	1591;1592	ENSP00000415183:T1591M;ENSP00000351956:T1592M	ENSP00000351956:T1592M	T	+	2	0	MUC2	1082953	0.064000	0.20934	0.000000	0.03702	0.189000	0.23516	1.615000	0.36922	-0.313000	0.08728	0.121000	0.15741	ACG		0.627	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		T	1092953	C	T	1092953	3	4	666	1	0	0	0	0	1	0	0	0	9982	536	19	1	4890	1	MUC2	11	1092953	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10	74605	1092953	133913563	61	42559										
MUC2	4583	mdanderson.org	37	chr11	1093047	1093047	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	accccaaccccaacacccacTggcacacagaccccaacccc	3	24	0	1	rs12575208		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr11:1093047T>C	ENST00000441003.2	+	30	4893	c.4866T>C	c.(4864-4866)acT>acC	p.T1622T	MUC2_ENST00000333592.6_5'Flank|MUC2_ENST00000361558.6_Intron|MUC2_ENST00000359061.5_Intron	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	caacacccactggcacacaga	0.632																																																0													129	166	153					11																	1093047		1887	3615	5502	SO:0001819	synonymous_variant	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4866T>C	11.37:g.1093047T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Silent	SNP	ENST00000441003.2	37																																																																																					0.632	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		C	1093047	T	C	1093047	2	2	666	1	0	0	0	0	0	0	0	1	9982	1567	55	3		3	MUC2	11	1093047	Silent	SNP	T	TCGA-KN-8430-01A-11D-2310-10	94	1093047	133913469	62	42560										
WEE1	7465	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr11	9610060	9610060	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gagcactcttcactgaccggAtggccactaggtccaccacc	9	16	2	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr11:9610060A>T	ENST00000450114.2	+	11	2105	c.1852A>T	c.(1852-1854)Atg>Ttg	p.M618L	WEE1_ENST00000299613.6_Missense_Mutation_p.M404L	NM_003390.3	NP_003381.1	P30291	WEE1_HUMAN	WEE1 G2 checkpoint kinase	618					blood coagulation (GO:0007596)|establishment of cell polarity (GO:0030010)|G1/S transition of mitotic cell cycle (GO:0000082)|G2/M transition of mitotic cell cycle (GO:0000086)|microtubule cytoskeleton organization (GO:0000226)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|neuron projection morphogenesis (GO:0048812)|regulation of cell cycle (GO:0051726)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein serine/threonine kinase activity (GO:0004674)|protein tyrosine kinase activity (GO:0004713)			breast(2)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(6)|ovary(1)|prostate(2)|skin(1)|urinary_tract(1)	23				all cancers(16;4.59e-09)|Epithelial(150;3.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0484)		CACTGACCGGATGGCCACTAG	0.428																																																0													138	133	135					11																	9610060		2201	4294	6495	SO:0001583	missense	7465			X62048	CCDS7800.1, CCDS44536.1	11p15.4	2013-10-21	2013-10-21		ENSG00000166483	ENSG00000166483			12761	protein-coding gene	gene with protein product		193525	"wee1+ (S. pombe) homolog", "WEE1 homolog (S. pombe)"			1840647	Standard	NM_003390		Approved		uc001mhs.3	P30291	OTTHUMG00000165863	ENST00000450114.2:c.1852A>T	11.37:g.9610060A>T	ENSP00000402084:p.Met618Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVE1|D3DQV0	Missense_Mutation	SNP	ENST00000450114.2	37	CCDS7800.1	.	.	.	.	.	.	.	.	.	.	A	10.04	1.242223	0.22796	.	.	ENSG00000166483	ENST00000450114;ENST00000299613;ENST00000527848	T;T;T	0.51574	0.83;0.7;0.99	5.31	5.31	0.75309	Protein kinase-like domain (1);	0.105878	0.64402	D	0.000003	T	0.23370	0.0565	N	0.08118	0	0.33277	D	0.561807	B	0.10296	0.003	B	0.04013	0.001	T	0.26573	-1.0099	10	0.07482	T	0.82	-15.606	9.7489	0.40464	0.9229:0.0:0.0771:0.0	.	618	P30291	WEE1_HUMAN	L	618;404;70	ENSP00000402084:M618L;ENSP00000299613:M404L;ENSP00000432284:M70L	ENSP00000299613:M404L	M	+	1	0	WEE1	9566636	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	3.551000	0.53698	2.014000	0.59158	0.460000	0.39030	ATG		0.428	WEE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386757.1	NM_003390		T	9610060	A	T	9610060	3	4	666	1	0	0	0	0	1	0	0	0	17356	333	12	5	1894	5	WEE1	11	9610060	Missense_Mutation	SNP	A	TCGA-KN-8430-01A-11D-2310-10	8517013	9610060	125396456	63	42561										
CD44	960	broad.mit.edu;bcgsc.ca	37	chr11	35226107	35226107	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	agaaacagctacccagaaggAacagtggtttggcaacagat	11	8	0	3			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr11:35226107A>G	ENST00000428726.2	+	10	1325	c.1202A>G	c.(1201-1203)gAa>gGa	p.E401G	CD44_ENST00000437706.2_Missense_Mutation_p.E401G|CD44_ENST00000433354.2_Missense_Mutation_p.E402G|CD44_ENST00000263398.6_Intron|CD44_ENST00000449691.2_Intron|CD44_ENST00000352818.4_Intron|CD44_ENST00000415148.2_Missense_Mutation_p.E358G|CD44_ENST00000433892.2_Intron|CD44_ENST00000526669.2_Intron|CD44_ENST00000360158.4_Intron|CD44_ENST00000278386.6_Intron|CD44_ENST00000434472.2_Intron	NM_000610.3	NP_000601.3	P16070	CD44_HUMAN	CD44 molecule (Indian blood group)	401	Stem.				blood coagulation (GO:0007596)|branching involved in prostate gland morphogenesis (GO:0060442)|branching involved in ureteric bud morphogenesis (GO:0001658)|carbohydrate metabolic process (GO:0005975)|cartilage development (GO:0051216)|cell-matrix adhesion (GO:0007160)|cellular response to fibroblast growth factor stimulus (GO:0044344)|cytokine-mediated signaling pathway (GO:0019221)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glycosaminoglycan metabolic process (GO:0030203)|hyaluronan catabolic process (GO:0030214)|hyaluronan metabolic process (GO:0030212)|interferon-gamma-mediated signaling pathway (GO:0060333)|leukocyte migration (GO:0050900)|monocyte aggregation (GO:0070487)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043518)|negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:1902166)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of gene expression (GO:0010628)|positive regulation of heterotypic cell-cell adhesion (GO:0034116)|positive regulation of monocyte aggregation (GO:1900625)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|single organismal cell-cell adhesion (GO:0016337)|small molecule metabolic process (GO:0044281)|Wnt signaling pathway (GO:0016055)|wound healing involved in inflammatory response (GO:0002246)	basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	collagen binding (GO:0005518)|hyaluronic acid binding (GO:0005540)|hyalurononglucosaminidase activity (GO:0004415)			cervix(1)|endometrium(1)|kidney(2)|large_intestine(4)|lung(13)|pancreas(1)|skin(1)	23	all_cancers(35;0.212)|all_lung(20;0.0874)|all_epithelial(35;0.112)	all_hematologic(20;0.107)	STAD - Stomach adenocarcinoma(6;0.00731)		Hyaluronan(DB08818)	ACCCAGAAGGAACAGTGGTTT	0.453																																																0													170	143	152					11																	35226107		2202	4298	6500	SO:0001583	missense	960			M59040	CCDS7897.1, CCDS31455.1, CCDS31456.1, CCDS31457.1, CCDS31458.1, CCDS55754.1, CCDS55755.1	11p13	2014-07-18	2006-03-28		ENSG00000026508	ENSG00000026508		"CD molecules", "Blood group antigens", "Proteoglycans / Cell surface : Other"	1681	protein-coding gene	gene with protein product	"hematopoietic cell E- and L-selectin ligand", "chondroitin sulfate proteoglycan 8"	107269	"CD44 antigen (homing function and Indian blood group system)"	MIC4, MDU2, MDU3		2454887	Standard	NM_001202555		Approved	IN, MC56, Pgp1, CD44R, HCELL, CSPG8	uc001mvu.3	P16070	OTTHUMG00000044388	ENST00000428726.2:c.1202A>G	11.37:g.35226107A>G	ENSP00000398632:p.Glu401Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A5YRN9|B6EAT9|D3DR12|D3DR13|O95370|P22511|Q04858|Q13419|Q13957|Q13958|Q13959|Q13960|Q13961|Q13967|Q13968|Q13980|Q15861|Q16064|Q16065|Q16066|Q16208|Q16522|Q86T72|Q86Z27|Q8N694|Q92493|Q96J24|Q9H5A5|Q9UC28|Q9UC29|Q9UC30|Q9UCB0|Q9UJ36	Missense_Mutation	SNP	ENST00000428726.2	37	CCDS7897.1	.	.	.	.	.	.	.	.	.	.	A	11.85	1.761218	0.31137	.	.	ENSG00000026508	ENST00000415148;ENST00000433354;ENST00000437706;ENST00000428726;ENST00000531110;ENST00000528672	T;T;T;T;T;T	0.24350	1.86;1.86;1.86;1.86;1.86;1.86	5.05	3.94	0.45596	.	0.251258	0.28307	N	0.015828	T	0.43166	0.1235	M	0.72118	2.19	0.22017	N	0.999417	P;D	0.71674	0.728;0.998	B;D	0.72982	0.425;0.979	T	0.18493	-1.0335	10	0.40728	T	0.16	-18.3994	6.7294	0.23375	0.8981:0.0:0.1019:0.0	.	358;401	P16070-4;P16070	.;CD44_HUMAN	G	358;402;401;401;113;53	ENSP00000389830:E358G;ENSP00000414567:E402G;ENSP00000403990:E401G;ENSP00000398632:E401G;ENSP00000436549:E113G;ENSP00000431860:E53G	ENSP00000389830:E358G	E	+	2	0	CD44	35182683	0.806000	0.28996	0.621000	0.29145	0.003000	0.03518	3.848000	0.55903	2.199000	0.70637	0.533000	0.62120	GAA		0.453	CD44-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000388927.1	NM_000610		G	35226107	A	G	35226107	3	3	666	1	0	0	0	0	1	0	0	0	3019	246	9	3	1240	3	CD44	11	35226107	Missense_Mutation	SNP	A	TCGA-KN-8430-01A-11D-2310-10	25616047	35226107	99780409	64	42562										
SIPA1	6494	broad.mit.edu;bcgsc.ca	37	chr11	65409950	65409950	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tcagctccggacactccgtgGcaccatctcggaggacgcgc	12	16	2	0			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr11:65409950G>C	ENST00000394224.3	+	4	1120	c.824G>C	c.(823-825)gGc>gCc	p.G275A	SIPA1_ENST00000527525.1_Missense_Mutation_p.G275A|SIPA1_ENST00000534313.1_Missense_Mutation_p.G275A|SIPA1_ENST00000394227.3_Missense_Mutation_p.G275A	NM_153253.29	NP_694985.29	Q96FS4	SIPA1_HUMAN	signal-induced proliferation-associated 1	275					cell proliferation (GO:0008283)|cellular response to water deprivation (GO:0042631)|cytoskeleton organization (GO:0007010)|intracellular signal transduction (GO:0035556)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell cycle (GO:0045786)|negative regulation of cell growth (GO:0030308)|positive regulation of GTPase activity (GO:0043547)|positive regulation of Rap GTPase activity (GO:0032854)|signal transduction (GO:0007165)	cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)|protein complex (GO:0043234)|transport vesicle (GO:0030133)	GTPase activator activity (GO:0005096)|Rap GTPase activator activity (GO:0046582)			cervix(1)|endometrium(2)|large_intestine(2)|lung(3)|prostate(1)|urinary_tract(1)	10						ACACTCCGTGGCACCATCTCG	0.682																																																0													25	24	25					11																	65409950		2201	4295	6496	SO:0001583	missense	6494			AH006363, BC010492, BM677738	CCDS8108.1	11q13.3	2008-09-12	2008-09-12		ENSG00000213445	ENSG00000213445			10885	protein-coding gene	gene with protein product		602180				9027487	Standard	NM_006747		Approved	SPA1	uc001ofb.2	Q96FS4	OTTHUMG00000166541	ENST00000394224.3:c.824G>C	11.37:g.65409950G>C	ENSP00000377771:p.Gly275Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O14518|O60484|O60618|Q2YD83	Missense_Mutation	SNP	ENST00000394224.3	37	CCDS8108.1	.	.	.	.	.	.	.	.	.	.	G	20.9	4.073406	0.76415	.	.	ENSG00000213445	ENST00000534313;ENST00000527525;ENST00000394224;ENST00000394227	D;D;D;D	0.93811	-3.29;-3.29;-3.29;-3.29	4.0	4.0	0.46444	.	0.000000	0.50627	U	0.000103	D	0.96476	0.8850	M	0.84219	2.685	0.58432	D	0.999994	D;D	0.89917	1.0;0.999	D;D	0.91635	0.999;0.995	D	0.96844	0.9620	10	0.72032	D	0.01	-23.9387	13.9767	0.64277	0.0:0.0:1.0:0.0	.	275;275	F6RY50;Q96FS4	.;SIPA1_HUMAN	A	275	ENSP00000436269:G275A;ENSP00000433686:G275A;ENSP00000377771:G275A;ENSP00000377774:G275A	ENSP00000377771:G275A	G	+	2	0	SIPA1	65166526	1.000000	0.71417	1.000000	0.80357	0.335000	0.28730	7.634000	0.83273	2.240000	0.73641	0.455000	0.32223	GGC		0.682	SIPA1-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390356.1	NM_006747		C	65409950	G	C	65409950	3	2	666	1	0	0	0	0	1	0	0	0	14341	1203	42	4	834	4	SIPA1	11	65409950	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	30183843	65409950	69596566	65	42563										
MYO7A	4647	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	76917244	76917244	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tacttccctgatgacactgaCgaggtgagggtcaccggctt	12	11	1	4	rs375992788		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr11:76917244C>G	ENST00000409709.3	+	41	6011	c.5739C>G	c.(5737-5739)gaC>gaG	p.D1913E	MYO7A_ENST00000605744.1_3'UTR|MYO7A_ENST00000409619.2_Missense_Mutation_p.D1864E|MYO7A_ENST00000458637.2_Missense_Mutation_p.D1875E	NM_000260.3	NP_000251.3	Q13402	MYO7A_HUMAN	myosin VIIA	1913	FERM 2. {ECO:0000255|PROSITE- ProRule:PRU00084}.				actin filament-based movement (GO:0030048)|auditory receptor cell stereocilium organization (GO:0060088)|equilibrioception (GO:0050957)|eye photoreceptor cell development (GO:0042462)|intracellular protein transport (GO:0006886)|lysosome organization (GO:0007040)|metabolic process (GO:0008152)|phagolysosome assembly (GO:0001845)|pigment granule transport (GO:0051904)|post-embryonic organ morphogenesis (GO:0048563)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|lysosomal membrane (GO:0005765)|melanosome (GO:0042470)|myosin VII complex (GO:0031477)|photoreceptor connecting cilium (GO:0032391)|photoreceptor inner segment (GO:0001917)|photoreceptor outer segment (GO:0001750)|stereocilium (GO:0032420)|synapse (GO:0045202)	actin filament binding (GO:0051015)|actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|calmodulin binding (GO:0005516)|microfilament motor activity (GO:0000146)|spectrin binding (GO:0030507)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(10)|lung(32)|ovary(4)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	64						ATGACACTGACGAGGTGAGGG	0.607																																																0													70	77	75					11																	76917244		1972	4145	6117	SO:0001583	missense	4647			U39226	CCDS53683.1, CCDS53684.1, CCDS53685.1	11q13.5	2013-01-08	2005-09-12		ENSG00000137474	ENSG00000137474		"A-kinase anchor proteins", "Myosins / Myosin superfamily : Class VII"	7606	protein-coding gene	gene with protein product		276903	"myosin VIIA (Usher syndrome 1B (autosomal recessive, severe))"	USH1B, DFNB2, DFNA11		8884266	Standard	NM_000260		Approved	NSRD2	uc001oyb.2	Q13402	OTTHUMG00000152822	ENST00000409709.3:c.5739C>G	11.37:g.76917244C>G	ENSP00000386331:p.Asp1913Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B9A011|F8VUN5|P78427|Q13321|Q14785|Q92821|Q92822	Missense_Mutation	SNP	ENST00000409709.3	37	CCDS53683.1	.	.	.	.	.	.	.	.	.	.	c	11.46	1.646762	0.29246	.	.	ENSG00000137474	ENST00000409709;ENST00000458637;ENST00000409619;ENST00000545136;ENST00000358342;ENST00000343356;ENST00000341717;ENST00000458169;ENST00000544424	T;T;T;T	0.74947	-0.89;-0.89;-0.89;-0.89	4.54	-3.63	0.04529	Band 4.1 domain (1);FERM domain (1);	0.000000	0.85682	U	0.000000	T	0.79633	0.4479	M	0.66939	2.045	0.80722	D	1	B;D	0.76494	0.174;0.999	B;D	0.69654	0.132;0.965	T	0.77259	-0.2654	10	0.38643	T	0.18	.	12.1312	0.53944	0.0:0.2909:0.0:0.7091	.	1875;1913	F8VUN5;Q13402	.;MYO7A_HUMAN	E	1913;1875;1864;1086;1912;1882;1789;1055;528	ENSP00000386331:D1913E;ENSP00000392185:D1875E;ENSP00000386635:D1864E;ENSP00000417017:D1055E	ENSP00000345075:D1789E	D	+	3	2	MYO7A	76594892	0.116000	0.22171	0.565000	0.28409	0.133000	0.20885	-0.586000	0.05787	-0.625000	0.05604	-0.299000	0.09455	GAC		0.607	MYO7A-001	KNOWN	non_canonical_conserved|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000328133.1	NM_000260		G	76917244	C	G	76917244	3	3	666	1	0	0	0	0	1	0	0	0	10089	535	19	4	5931	4	MYO7A	11	76917244	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10	11507294	76917244	58089272	66	42564										
FAT3	120114	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	92543184	92543184	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	cactacaacacctgtgtctaTgagaacacagccaccaaggc	7	14	1	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr11:92543184T>A	ENST00000298047.6	+	12	9440	c.9423T>A	c.(9421-9423)taT>taA	p.Y3141*	FAT3_ENST00000525166.1_Nonsense_Mutation_p.Y2991*|FAT3_ENST00000409404.2_Nonsense_Mutation_p.Y3141*			Q8TDW7	FAT3_HUMAN	FAT atypical cadherin 3	3141	Cadherin 29. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)|multicellular organismal development (GO:0007275)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|endometrium(10)|kidney(4)|large_intestine(11)|liver(2)|lung(37)|ovary(5)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(5)	85		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CCTGTGTCTATGAGAACACAG	0.527										TCGA Ovarian(4;0.039)																																						0													58	59	59					11																	92543184		1943	4133	6076	SO:0001587	stop_gained	120114			AB076400		11q14.3	2013-05-31	2013-05-31		ENSG00000165323	ENSG00000165323		"Cadherins / Cadherin-related"	23112	protein-coding gene	gene with protein product	"cadherin-related family member 10"	612483	"FAT tumor suppressor homolog 3 (Drosophila)"			11811999	Standard	NM_001008781		Approved	KIAA1989, CDHF15, CDHR10	uc001pdj.4	Q8TDW7	OTTHUMG00000154468	ENST00000298047.6:c.9423T>A	11.37:g.92543184T>A	ENSP00000298047:p.Tyr3141*	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDB0|Q96AU6	Nonsense_Mutation	SNP	ENST00000298047.6	37		.	.	.	.	.	.	.	.	.	.	T	51	17.442473	0.99886	.	.	ENSG00000165323	ENST00000298047;ENST00000409404;ENST00000525166	.	.	.	5.16	2.85	0.33270	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	8.2732	0.31857	0.0:0.229:0.0:0.771	.	.	.	.	X	3141;3141;2991	.	ENSP00000298047:Y3141X	Y	+	3	2	FAT3	92182832	0.997000	0.39634	1.000000	0.80357	0.922000	0.55478	0.366000	0.20365	0.321000	0.23259	0.460000	0.39030	TAT		0.527	FAT3-201	KNOWN	basic	protein_coding	protein_coding		NM_001008781		A	92543184	T	A	92543184	4	1	666	1	0	0	0	0	0	1	0	0	5698	1471	51	5	9469	5	FAT3	11	92543184	Nonsense_Mutation	SNP	T	TCGA-KN-8430-01A-11D-2310-10	15625940	92543184	42463332	67	42565										
OR10G8	219869	mdanderson.org	37	chr11	123900385	123900385	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	catgggccttccccatgcccCagcgctggacgcccccctct	9	21	1	0	rs149524303	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr11:123900385C>A	ENST00000431524.1	+	1	89	c.56C>A	c.(55-57)cCa>cAa	p.P19Q		NM_001004464.1	NP_001004464.1	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G, member 8	19						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(7)|large_intestine(2)|lung(21)|ovary(1)|prostate(5)|skin(1)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	44		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)		CCCCATGCCCCAGCGCTGGAC	0.567																																																0																																										SO:0001583	missense	219869			AB065755	CCDS31704.1	11q24.1	2012-08-09			ENSG00000234560	ENSG00000234560		"GPCR / Class A : Olfactory receptors"	14845	protein-coding gene	gene with protein product							Standard	NM_001004464		Approved		uc001pzp.1	Q8NGN5	OTTHUMG00000165968	ENST00000431524.1:c.56C>A	11.37:g.123900385C>A	ENSP00000389072:p.Pro19Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNJ3|Q6IEV2	Missense_Mutation	SNP	ENST00000431524.1	37	CCDS31704.1	.	.	.	.	.	.	.	.	.	.	C	10.41	1.342383	0.24339	.	.	ENSG00000234560	ENST00000431524	T	0.00428	7.44	2.95	2.95	0.34219	.	0.136796	0.33670	N	0.004664	T	0.00384	0.0012	M	0.64170	1.965	0.25608	N	0.986521	B	0.12630	0.006	B	0.15870	0.014	T	0.37798	-0.9690	10	0.32370	T	0.25	.	8.8035	0.34923	0.2255:0.7745:0.0:0.0	.	19	Q8NGN5	O10G8_HUMAN	Q	19	ENSP00000389072:P19Q	ENSP00000389072:P19Q	P	+	2	0	OR10G8	123405595	0.001000	0.12720	0.073000	0.20177	0.007000	0.05969	1.082000	0.30803	1.634000	0.50500	0.585000	0.79938	CCA		0.567	OR10G8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387270.1	NM_001004464		A	123900385	C	A	123900385	3	1	666	1	0	0	0	0	1	0	0	0	10910	594	21	4	58	4	OR10G8	11	123900385	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10	31357201	123900385	11106131	68	42566			1	108		2	2	27	N	G_C	9.070317e-05
OR10G8	219869	mdanderson.org	37	chr11	123900411	123900411	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tggacgcccccctctttggaGtcttcctggtggtttacgtg	12	12	2	0	rs202220125	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr11:123900411G>A	ENST00000431524.1	+	1	115	c.82G>A	c.(82-84)Gtc>Atc	p.V28I		NM_001004464.1	NP_001004464.1	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G, member 8	28						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(7)|large_intestine(2)|lung(21)|ovary(1)|prostate(5)|skin(1)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	44		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)		CCTCTTTGGAGTCTTCCTGGT	0.572													G|||	7	0.00139776	0.0	0.0043	5008	,	,		19799	0.0		0.001	False		,,,				2504	0.0031															0													195	177	183					11																	123900411		2201	4299	6500	SO:0001583	missense	219869			AB065755	CCDS31704.1	11q24.1	2012-08-09			ENSG00000234560	ENSG00000234560		"GPCR / Class A : Olfactory receptors"	14845	protein-coding gene	gene with protein product							Standard	NM_001004464		Approved		uc001pzp.1	Q8NGN5	OTTHUMG00000165968	ENST00000431524.1:c.82G>A	11.37:g.123900411G>A	ENSP00000389072:p.Val28Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNJ3|Q6IEV2	Missense_Mutation	SNP	ENST00000431524.1	37	CCDS31704.1	.	.	.	.	.	.	.	.	.	.	G	4.296	0.054107	0.08291	.	.	ENSG00000234560	ENST00000431524	T	0.02916	4.11	2.95	-4.35	0.03656	.	0.824866	0.10366	N	0.683403	T	0.01254	0.0041	N	0.16066	0.365	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.48258	-0.9051	10	0.10377	T	0.69	.	1.3401	0.02153	0.2804:0.2787:0.3033:0.1376	.	28	Q8NGN5	O10G8_HUMAN	I	28	ENSP00000389072:V28I	ENSP00000389072:V28I	V	+	1	0	OR10G8	123405621	0.000000	0.05858	0.003000	0.11579	0.022000	0.10575	-3.513000	0.00446	-1.037000	0.03283	-0.324000	0.08512	GTC		0.572	OR10G8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387270.1	NM_001004464		A	123900411	G	A	123900411	3	1	666	1	0	0	0	0	1	0	0	0	10910	1029	36	2	84	2	OR10G8	11	123900411	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	26	123900411	11106105	69	42567			1	108		2	2	27	N	G_C	9.070317e-05
ADAMTS8	11095	ucsc.edu;bcgsc.ca	37	chr11	130284611	130284611	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	agaggtgttggggcagtggcGgaaatccggcccaaagatct	16	8	1	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr11:130284611G>A	ENST00000257359.6	-	5	2087	c.1381C>T	c.(1381-1383)Cgc>Tgc	p.R461C		NM_007037.4	NP_008968.4	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 8	461	Disintegrin.				negative regulation of cell proliferation (GO:0008285)|phosphate ion transmembrane transport (GO:0035435)	proteinaceous extracellular matrix (GO:0005578)	heparin binding (GO:0008201)|integrin binding (GO:0005178)|low-affinity phosphate transmembrane transporter activity (GO:0009673)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(2)|prostate(1)|skin(1)	10	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		GGGCAGTGGCGGAAATCCGGC	0.677																																																0													49	56	54					11																	130284611		2051	4202	6253	SO:0001583	missense	11095			AF060153	CCDS41732.1	11q25	2008-07-18	2005-08-19		ENSG00000134917	ENSG00000134917		"ADAM metallopeptidases with thrombospondin type 1 motif"	224	protein-coding gene	gene with protein product		605175	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 8"			10438512	Standard	NM_007037		Approved	METH2, FLJ41712, ADAM-TS8	uc001qgg.4	Q9UP79	OTTHUMG00000165656	ENST00000257359.6:c.1381C>T	11.37:g.130284611G>A	ENSP00000257359:p.Arg461Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NZS0	Missense_Mutation	SNP	ENST00000257359.6	37	CCDS41732.1	.	.	.	.	.	.	.	.	.	.	G	18.67	3.673513	0.67928	.	.	ENSG00000134917	ENST00000257359;ENST00000414575	T	0.60797	0.16	5.59	4.68	0.58851	.	0.602094	0.19398	N	0.115243	T	0.72187	0.3429	M	0.76938	2.355	0.40367	D	0.9793	D	0.89917	1.0	P	0.62560	0.904	T	0.75731	-0.3215	10	0.87932	D	0	.	10.5172	0.44896	0.1472:0.0:0.8528:0.0	.	461	Q9UP79	ATS8_HUMAN	C	461;490	ENSP00000257359:R461C	ENSP00000257359:R461C	R	-	1	0	ADAMTS8	129789821	0.996000	0.38824	1.000000	0.80357	0.914000	0.54420	1.602000	0.36783	1.356000	0.45884	0.655000	0.94253	CGC		0.677	ADAMTS8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385636.1	NM_007037		A	130284611	G	A	130284611	3	1	666	1	0	0	0	0	1	0	0	0	272	1116	39	1	1308	1	ADAMTS8	11	130284611	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	6384200	130284611	4721905	70	42568										
TAS2R46	259292	mdanderson.org	37	chr12	11214005	11214005	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tcctttcacccagtacctcaCatgccacaaaactgaaagaa	4	14	2	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr12:11214005C>T	ENST00000533467.1	-	1	888	c.889G>A	c.(889-891)Gtg>Atg	p.V297M	PRR4_ENST00000536668.1_Intron|TAS2R14_ENST00000381852.4_Intron	NM_176887.2	NP_795368.2	P59540	T2R46_HUMAN	taste receptor, type 2, member 46	297				HV -> QM (in Ref. 3). {ECO:0000305}.	detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	cilium (GO:0005929)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			endometrium(1)|kidney(1)|large_intestine(2)|lung(3)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	12			OV - Ovarian serous cystadenocarcinoma(49;0.0344)	BRCA - Breast invasive adenocarcinoma(232;0.196)		CAGTACCTCACATGCCACAAA	0.418																																																0													182	183	183					12																	11214005		2032	4234	6266	SO:0001583	missense	259292			AF494227	CCDS53748.1	12p13.2	2012-08-22				ENSG00000226761		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	18877	protein-coding gene	gene with protein product		612774				12379855	Standard	NM_176887		Approved	T2R54	uc001qzp.1	P59540		ENST00000533467.1:c.889G>A	12.37:g.11214005C>T	ENSP00000436450:p.Val297Met	Somatic		WXS	Illumina HiSeq	Phase_I	P59548|Q645X6	Missense_Mutation	SNP	ENST00000533467.1	37	CCDS53748.1	.	.	.	.	.	.	.	.	.	.	C	3.988	-0.005081	0.07773	.	.	ENSG00000226761	ENST00000533467	T	0.37584	1.19	2.54	1.59	0.23543	.	.	.	.	.	T	0.25457	0.0619	L	0.33245	0.995	0.09310	N	1	B	0.15930	0.015	B	0.26969	0.075	T	0.27468	-1.0073	9	0.36615	T	0.2	.	4.5917	0.12310	0.0:0.3575:0.432:0.2105	.	297	P59540	T2R46_HUMAN	M	297	ENSP00000436450:V297M	ENSP00000436450:V297M	V	-	1	0	TAS2R46	11105272	0.000000	0.05858	0.004000	0.12327	0.077000	0.17291	-1.385000	0.02540	0.356000	0.24157	0.194000	0.17425	GTG		0.418	TAS2R46-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383559.1	NM_176887		T	11214005	C	T	11214005	3	4	666	1	0	0	0	0	1	0	0	0	15594	478	17	2	44	2	TAS2R46	12	11214005	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10		11214005	122637890	71	42569										
TAS2R30	259293	mdanderson.org	37	chr12	11286736	11286736	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	aaggagatcttttgtctcttGacccactcaatggaatttac	7	9	3	2	rs112605675		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr12:11286736G>C	ENST00000539585.1	-	1	507	c.108C>G	c.(106-108)gtC>gtG	p.V36V	PRR4_ENST00000536668.1_Intron|TAS2R14_ENST00000381852.4_Intron	NM_001097643.1	NP_001091112.1	P59541	T2R30_HUMAN	taste receptor, type 2, member 30	36					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)	p.V36V(1)		autonomic_ganglia(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(4)|skin(1)	13						TTTGTCTCTTGACCCACTCAA	0.388																																																1	Substitution - coding silent(1)	lung(1)											67	66	66					12																	11286736		2014	4225	6239	SO:0001819	synonymous_variant	259293			AX097746, AF494233	CCDS53750.1	12p13.2	2012-08-22				ENSG00000256188		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19112	protein-coding gene	gene with protein product		613963	"taste receptor, type 2, member 47"	TAS2R47			Standard	NM_001097643		Approved	T2R30	uc009zhs.1	P59541		ENST00000539585.1:c.108C>G	12.37:g.11286736G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q645X7	Silent	SNP	ENST00000539585.1	37	CCDS53750.1																																																																																				0.388	TAS2R30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400238.1	NM_001097643		C	11286736	G	C	11286736	2	2	666	1	0	0	0	0	0	0	0	1	15585	1277	45	4		4	TAS2R30	12	11286736	Silent	SNP	G	TCGA-KN-8430-01A-11D-2310-10	72731	11286736	122565159	72	42570										
PRB2	653247	mdanderson.org	37	chr12	11546751	11546751	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ggtgggggaccttgaggtttGttgcctccttgtgggggtgg	20	6	0	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr12:11546751G>C	ENST00000389362.4	-	3	296	c.261C>G	c.(259-261)aaC>aaG	p.N87K	PRB1_ENST00000546254.1_Intron|PRB2_ENST00000545829.1_5'Flank	NM_006248.3	NP_006239.3	P02812	PRB2_HUMAN	proline-rich protein BstNI subfamily 2	87	15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-P-Q-G-[GD]-[NKS]-[KSQ]- [PRS]-[QRS] [GPS]-[PSAR]-[PSR].					extracellular region (GO:0005576)				NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(14)|pancreas(1)|prostate(5)|skin(4)|stomach(2)|urinary_tract(1)	37		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			CTTGAGGTTTGTTGCCTCCTT	0.607																																																0																																										SO:0001583	missense	653247			K03208	CCDS41757.2	12p13.2	2012-10-02			ENSG00000121335	ENSG00000121335			9338	protein-coding gene	gene with protein product		168810				8554050	Standard	NM_006248		Approved	PRPPRB1, Ps, cP7	uc010shk.1	P02812	OTTHUMG00000156975	ENST00000389362.4:c.261C>G	12.37:g.11546751G>C	ENSP00000374013:p.Asn87Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O00599|P02811|P04281	Missense_Mutation	SNP	ENST00000389362.4	37	CCDS41757.2	.	.	.	.	.	.	.	.	.	.	.	1.981	-0.434036	0.04669	.	.	ENSG00000121335	ENST00000389362	T	0.03982	3.74	1.06	-2.12	0.07165	.	.	.	.	.	T	0.03220	0.0094	L	0.43152	1.355	0.09310	N	1	B	0.12630	0.006	B	0.11329	0.006	T	0.50825	-0.8782	9	0.05620	T	0.96	.	3.3787	0.07247	0.2438:0.2649:0.4913:0.0	.	87	P02812	PRB2_HUMAN	K	87	ENSP00000374013:N87K	ENSP00000374013:N87K	N	-	3	2	PRB2	11438018	.	.	0.002000	0.10522	0.047000	0.14425	.	.	-1.987000	0.00982	-1.380000	0.01176	AAC		0.607	PRB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346925.2	NM_006248		C	11546751	G	C	11546751	3	2	666	1	0	0	0	0	1	0	0	0	12453	1368	48	4	993	4	PRB2	12	11546751	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	260015	11546751	122305144	73	42571										
CDKN1B	1027	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	12871758	12871758	+	Splice_Site	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	aaaaatttcccctgcgcttaGattcttctactcaaaacaaa	3	11	3	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr12:12871758G>C	ENST00000228872.4	+	2	1191		c.e2-1		CDKN1B_ENST00000396340.1_Intron|CDKN1B_ENST00000477087.1_Splice_Site	NM_004064.3	NP_004055.1	P46527	CDN1B_HUMAN	cyclin-dependent kinase inhibitor 1B (p27, Kip1)						activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|autophagic cell death (GO:0048102)|cell cycle arrest (GO:0007050)|cellular response to antibiotic (GO:0071236)|cellular response to lithium ion (GO:0071285)|cellular response to organic cyclic compound (GO:0071407)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|G1/S transition of mitotic cell cycle (GO:0000082)|innate immune response (GO:0045087)|inner ear development (GO:0048839)|mitotic cell cycle (GO:0000278)|mitotic cell cycle arrest (GO:0071850)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cellular component movement (GO:0051271)|negative regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045736)|negative regulation of epithelial cell proliferation involved in prostate gland development (GO:0060770)|negative regulation of kinase activity (GO:0033673)|negative regulation of mitotic cell cycle (GO:0045930)|negative regulation of phosphorylation (GO:0042326)|negative regulation of transcription, DNA-templated (GO:0045892)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell death (GO:0010942)|positive regulation of cell proliferation (GO:0008284)|positive regulation of microtubule polymerization (GO:0031116)|positive regulation of protein catabolic process (GO:0045732)|potassium ion transport (GO:0006813)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|response to amino acid (GO:0043200)|response to cadmium ion (GO:0046686)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to glucose (GO:0009749)|response to hypoxia (GO:0001666)|response to peptide hormone (GO:0043434)|sensory perception of sound (GO:0007605)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome (GO:0005768)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|protein complex (GO:0043234)	cyclin-dependent protein serine/threonine kinase inhibitor activity (GO:0004861)|protein phosphatase binding (GO:0019903)|transforming growth factor beta receptor, cytoplasmic mediator activity (GO:0005072)			breast(1)|large_intestine(3)|lung(3)|ovary(1)|prostate(5)	13		Prostate(47;0.0322)|all_epithelial(100;0.159)		BRCA - Breast invasive adenocarcinoma(232;0.0336)		CCTGCGCTTAGATTCTTCTAC	0.438																																																0													72	86	81					12																	12871758		2203	4300	6503	SO:0001630	splice_region_variant	1027			AF480891	CCDS8653.1	12p13.1-p12	2008-08-04			ENSG00000111276	ENSG00000111276			1785	protein-coding gene	gene with protein product		600778				8033212	Standard	NM_004064		Approved	KIP1, P27KIP1	uc001rat.2	P46527	OTTHUMG00000149914	ENST00000228872.4:c.476-1G>C	12.37:g.12871758G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q16307|Q5U0H2|Q9BUS6	Splice_Site	SNP	ENST00000228872.4	37	CCDS8653.1	.	.	.	.	.	.	.	.	.	.	G	17.09	3.301381	0.60195	.	.	ENSG00000111276	ENST00000228872;ENST00000535674;ENST00000442489	.	.	.	5.13	5.13	0.70059	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.7715	0.85538	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	CDKN1B	12763025	1.000000	0.71417	0.994000	0.49952	0.746000	0.42486	6.881000	0.75584	2.384000	0.81235	0.655000	0.94253	.		0.438	CDKN1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313878.2	NM_004064	Intron	C	12871758	G	C	12871758	5	2	666	1	0	0	0	0	0	0	1	0	3161	956	33	4	481	4	CDKN1B	12	12871758	Splice_Site	SNP	G	TCGA-KN-8430-01A-11D-2310-10	1325007	12871758	120980137	74	42572										
KIF21A	55605	hgsc.bcm.edu;mdanderson.org	37	chr12	39735383	39735383	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tcttcctcctcctcctcctcCtcttcttcatcctcatgatc	1	20	5	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr12:39735383C>T	ENST00000361418.5	-	14	1860	c.1845G>A	c.(1843-1845)gaG>gaA	p.E615E	KIF21A_ENST00000395670.3_Silent_p.E615E|KIF21A_ENST00000361961.3_Silent_p.E602E|KIF21A_ENST00000541463.2_Silent_p.E602E|KIF21A_ENST00000544797.2_Silent_p.E602E			Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	615					ATP catabolic process (GO:0006200)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)	p.E602D(1)|p.E602E(1)		NS(1)|breast(1)|central_nervous_system(1)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(14)|lung(41)|ovary(5)|pancreas(1)|prostate(1)|skin(4)|stomach(1)|urinary_tract(2)	86		Lung NSC(34;0.179)|all_lung(34;0.213)				cctcctcctcctcttcttcat	0.398																																																2	Substitution - Missense(1)|Substitution - coding silent(1)	lung(1)|kidney(1)											85	82	83					12																	39735383		2203	4299	6502	SO:0001819	synonymous_variant	55605			AK000059	CCDS31773.1, CCDS53774.1, CCDS53775.1, CCDS53776.1	12q12	2013-01-10						"Kinesins", "WD repeat domain containing"	19349	protein-coding gene	gene with protein product		608283	"fibrosis of the extraocular muscles, congenital, 1"	FEOM1		10225949	Standard	NM_017641		Approved	FLJ20052	uc001rly.3	Q7Z4S6	OTTHUMG00000169335	ENST00000361418.5:c.1845G>A	12.37:g.39735383C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MX28|B0I1R9|B9EGE4|F5H0C3|F5H219|Q2UVF1|Q6UKL9|Q7Z668|Q86WZ5|Q8IVZ8|Q9C0F5|Q9NXU4|Q9Y590	Silent	SNP	ENST00000361418.5	37	CCDS53776.1																																																																																				0.398	KIF21A-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403581.1	NM_017641		T	39735383	C	T	39735383	2	4	666	1	0	0	0	0	0	0	0	1	8295	680	24	2		2	KIF21A	12	39735383	Silent	SNP	C	TCGA-KN-8430-01A-11D-2310-10	26863625	39735383	94116512	75	42573										
TBK1	29110	broad.mit.edu	37	chr12	64873884	64873884	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ctggagtggagacatgcctgTttcttgcagtctttctcggt	12	9	3	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr12:64873884T>C	ENST00000331710.5	+	7	1133	c.794T>C	c.(793-795)gTt>gCt	p.V265A		NM_013254.3	NP_037386.1	Q9UHD2	TBK1_HUMAN	TANK-binding kinase 1	265	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				defense response to Gram-positive bacterium (GO:0050830)|defense response to virus (GO:0051607)|dendritic cell proliferation (GO:0044565)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of gene expression (GO:0010629)|negative regulation of type I interferon production (GO:0032480)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interferon-alpha production (GO:0032727)|positive regulation of interferon-beta biosynthetic process (GO:0045359)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of type I interferon production (GO:0032481)|response to virus (GO:0009615)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor signaling pathway (GO:0002224)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)|type I interferon production (GO:0032606)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome membrane (GO:0010008)	ATP binding (GO:0005524)|nucleic acid binding (GO:0003676)|phosphoprotein binding (GO:0051219)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|central_nervous_system(2)|large_intestine(7)|lung(7)|ovary(1)|pancreas(1)	20				GBM - Glioblastoma multiforme(28;0.0386)		GACATGCCTGTTTCTTGCAGT	0.398																																																0													201	191	194					12																	64873884		2203	4300	6503	SO:0001583	missense	29110			AF191838	CCDS8968.1	12q14.2	2006-06-10			ENSG00000183735	ENSG00000183735			11584	protein-coding gene	gene with protein product		604834				10581243, 10783893	Standard	NM_013254		Approved	NAK	uc001ssc.2	Q9UHD2	OTTHUMG00000168796	ENST00000331710.5:c.794T>C	12.37:g.64873884T>C	ENSP00000329967:p.Val265Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4S4|Q8IYV3|Q9NUJ5	Missense_Mutation	SNP	ENST00000331710.5	37	CCDS8968.1	.	.	.	.	.	.	.	.	.	.	T	11.43	1.637133	0.29157	.	.	ENSG00000183735	ENST00000331710	T	0.64803	-0.12	4.71	3.57	0.40892	Protein kinase, catalytic domain (1);	0.553565	0.19822	N	0.105285	T	0.31327	0.0793	N	0.01874	-0.695	0.30188	N	0.79977	B	0.02656	0.0	B	0.08055	0.003	T	0.20907	-1.0261	9	.	.	.	-3.3263	9.9944	0.41891	0.0:0.0804:0.0:0.9196	.	265	Q9UHD2	TBK1_HUMAN	A	265	ENSP00000329967:V265A	.	V	+	2	0	TBK1	63160151	0.968000	0.33430	0.914000	0.36105	0.893000	0.52053	4.470000	0.60175	0.795000	0.33922	0.477000	0.44152	GTT		0.398	TBK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401130.1	NM_013254		C	64873884	T	C	64873884	3	2	666	1	0	0	0	0	1	0	0	0	15649	1725	60	3	816	3	TBK1	12	64873884	Missense_Mutation	SNP	T	TCGA-KN-8430-01A-11D-2310-10	25138501	64873884	68978011	76	42574										
GPR133	283383	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	131593399	131593399	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gtcggaggacagcaagcaccGttactactatgggatgggat	14	8	0	0	rs141128784		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr12:131593399G>A	ENST00000261654.5	+	18	2577	c.2018G>A	c.(2017-2019)cGt>cAt	p.R673H	GPR133_ENST00000535015.1_Missense_Mutation_p.R705H|GPR133_ENST00000376682.4_Missense_Mutation_p.R359H|GPR133_ENST00000543617.1_Missense_Mutation_p.R192H	NM_198827.3	NP_942122.2	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133	673					G-protein coupled receptor signaling pathway (GO:0007186)|neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)	p.R673H(1)		NS(2)|breast(2)|endometrium(6)|kidney(1)|large_intestine(12)|lung(20)|ovary(3)|pancreas(6)|prostate(6)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(4)	67	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)		AGCAAGCACCGTTACTACTat	0.607													g|||	1	0.000199681	0.0008	0.0	5008	,	,		11651	0.0		0.0	False		,,,				2504	0.0															1	Substitution - Missense(1)	prostate(1)						A	HIS/ARG	4,4402	8.1+/-20.4	0,4,2199	114	105	108		2018	-5.2	0.3	12	dbSNP_134	108	0,8600		0,0,4300	no	missense	GPR133	NM_198827.3	29	0,4,6499	AA,AG,GG		0.0,0.0908,0.0308	benign	673/875	131593399	4,13002	2203	4300	6503	SO:0001583	missense	283383			AY278561	CCDS9272.1	12q24.33	2014-08-08			ENSG00000111452	ENSG00000111452		"-", "GPCR / Class B : Orphans"	19893	protein-coding gene	gene with protein product		613639					Standard	NM_198827		Approved	DKFZp434B1272, PGR25	uc001uit.4	Q6QNK2	OTTHUMG00000168339	ENST00000261654.5:c.2018G>A	12.37:g.131593399G>A	ENSP00000261654:p.Arg673His	Somatic		WXS	Illumina HiSeq	Phase_I	B2CKK9|B7ZLF7|Q2M1L3|Q6ZMQ1|Q7Z7M2|Q86SM4	Missense_Mutation	SNP	ENST00000261654.5	37	CCDS9272.1	.	.	.	.	.	.	.	.	.	.	g	13.48	2.250340	0.39797	9.08E-4	0.0	ENSG00000111452	ENST00000261654;ENST00000535015;ENST00000376682;ENST00000543617	T;T;T;T	0.42513	1.18;1.21;0.97;0.97	4.78	-5.21	0.02815	GPCR, family 2-like (1);	0.429012	0.26038	N	0.026706	T	0.34629	0.0904	M	0.70842	2.15	0.20074	N	0.999931	B;B;B	0.31351	0.001;0.32;0.216	B;B;B	0.33568	0.005;0.064;0.166	T	0.21415	-1.0246	10	0.33141	T	0.24	.	8.6912	0.34267	0.2113:0.0:0.4899:0.2988	.	705;192;673	B7ZLF7;Q6QNK2-3;Q6QNK2	.;.;GP133_HUMAN	H	673;705;359;192	ENSP00000261654:R673H;ENSP00000444425:R705H;ENSP00000365872:R359H;ENSP00000438021:R192H	ENSP00000261654:R673H	R	+	2	0	GPR133	130159352	0.869000	0.29996	0.336000	0.25522	0.819000	0.46315	0.830000	0.27462	-1.407000	0.02043	-1.480000	0.00990	CGT		0.607	GPR133-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399356.1	NM_198827		A	131593399	G	A	131593399	3	1	666	1	0	0	0	0	1	0	0	0	6650	1145	40	1	2088	1	GPR133	12	131593399	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	66719515	131593399	2258496	77	42575										
SKA3	221150	hgsc.bcm.edu	37	chr13	21742126	21742126	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ccttttaacagagctgcttaCcttttattattcctcgcatt	4	11	0	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr13:21742126C>A	ENST00000314759.5	-	4	868		c.e4+1		SKA3_ENST00000400018.3_Splice_Site	NM_145061.5	NP_659498.4	Q8IX90	SKA3_HUMAN	spindle and kinetochore associated complex subunit 3						chromosome segregation (GO:0007059)|mitotic nuclear division (GO:0007067)|regulation of microtubule polymerization or depolymerization (GO:0031110)	condensed chromosome outer kinetochore (GO:0000940)|cytoplasm (GO:0005737)|spindle microtubule (GO:0005876)				breast(1)|endometrium(3)|kidney(2)|large_intestine(2)|lung(6)|ovary(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	19						GAGCTGCTTACCTTTTATTAT	0.284																																																0													63	58	60					13																	21742126		2203	4297	6500	SO:0001630	splice_region_variant	221150			AF361358	CCDS31946.1, CCDS53856.1	13q11	2013-01-17	2009-08-19	2009-08-19	ENSG00000165480	ENSG00000165480			20262	protein-coding gene	gene with protein product			"chromosome 13 open reading frame 3"	C13orf3		19387489, 19289083, 19646878, 19360002	Standard	NM_145061		Approved	MGC4832, RAMA1	uc001unt.3	Q8IX90	OTTHUMG00000016539	ENST00000314759.5:c.743+1G>T	13.37:g.21742126C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2A330|A2A331|B2RBY2|Q5VZV5|Q86WR2|Q8NBG1|Q96D22	Splice_Site	SNP	ENST00000314759.5	37	CCDS31946.1	.	.	.	.	.	.	.	.	.	.	C	12.82	2.052163	0.36181	.	.	ENSG00000165480	ENST00000314759;ENST00000400018	.	.	.	5.86	5.86	0.93980	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.6803	0.77364	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	SKA3	20640126	1.000000	0.71417	1.000000	0.80357	0.302000	0.27658	4.395000	0.59678	2.777000	0.95525	0.655000	0.94253	.		0.284	SKA3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000272912.1	NM_145061	Intron	A	21742126	C	A	21742126	5	1	666	1	0	0	0	0	0	0	1	0	14367	521	18	4	565	4	SKA3	13	21742126	Splice_Site	SNP	C	TCGA-KN-8430-01A-11D-2310-10		21742126	93427752	78	42576										
PABPC3	5042	bcgsc.ca	37	chr13	25671027	25671027	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ccgatgaaagtggaaaatccAaaggatttggatttgtaagc	11	5	0	1	rs78826513	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr13:25671027A>G	ENST00000281589.3	+	1	728	c.691A>G	c.(691-693)Aaa>Gaa	p.K231E		NM_030979.2	NP_112241.2	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	231	RRM 3. {ECO:0000255|PROSITE- ProRule:PRU00176}.				mRNA metabolic process (GO:0016071)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)			breast(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(21)|ovary(4)|pancreas(1)|skin(3)	47		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)		TGGAAAATCCAAAGGATTTGG	0.418																																																0													81	76	78					13																	25671027		2203	4300	6503	SO:0001583	missense	5042			AF132026	CCDS9311.1	13q12-q13	2013-02-12	2001-11-28		ENSG00000151846	ENSG00000151846		"RNA binding motif (RRM) containing"	8556	protein-coding gene	gene with protein product	"testis PABP"	604680	"poly(A)-binding protein, cytoplasmic 3"	PABPL3		8432538, 10543404	Standard	NM_030979		Approved	PABP3, tPABP	uc001upy.3	Q9H361	OTTHUMG00000016601	ENST00000281589.3:c.691A>G	13.37:g.25671027A>G	ENSP00000281589:p.Lys231Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHV0|Q9H086	Missense_Mutation	SNP	ENST00000281589.3	37	CCDS9311.1	.	.	.	.	.	.	.	.	.	.	A	14.76	2.631048	0.46944	.	.	ENSG00000151846	ENST00000281589	T	0.08807	3.05	0.993	0.993	0.19825	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.000000	0.49916	U	0.000136	T	0.27063	0.0663	M	0.90198	3.095	0.34162	D	0.668825	D	0.65815	0.995	D	0.67725	0.953	T	0.36553	-0.9743	10	0.87932	D	0	.	6.1165	0.20130	1.0:0.0:0.0:0.0	.	231	Q9H361	PABP3_HUMAN	E	231	ENSP00000281589:K231E	ENSP00000281589:K231E	K	+	1	0	PABPC3	24569027	0.998000	0.40836	0.994000	0.49952	0.967000	0.64934	2.374000	0.44274	0.692000	0.31613	0.374000	0.22700	AAA		0.418	PABPC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044220.2	NM_030979		G	25671027	A	G	25671027	3	3	666	1	0	0	0	0	1	0	0	0	11372	131	5	3	693	3	PABPC3	13	25671027	Missense_Mutation	SNP	A	TCGA-KN-8430-01A-11D-2310-10	3928901	25671027	89498851	79	42577										
PDS5B	23047	bcgsc.ca	37	chr13	33253045	33253045	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	attgtctcatgaaccatcctGatttagcaaaagacttaaca	5	9	1	3			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr13:33253045G>T	ENST00000315596.10	+	10	1222	c.1036G>T	c.(1036-1038)Gat>Tat	p.D346Y		NM_015032.3	NP_055847.1	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog B (S. cerevisiae)	346					cell proliferation (GO:0008283)|mitotic cell cycle (GO:0000278)|mitotic sister chromatid cohesion (GO:0007064)|negative regulation of cell proliferation (GO:0008285)|regulation of cell proliferation (GO:0042127)	chromatin (GO:0000785)|chromosome (GO:0005694)|chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)			NS(2)|breast(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(4)|kidney(5)|large_intestine(14)|lung(14)|ovary(5)|pancreas(1)|prostate(5)|skin(1)|upper_aerodigestive_tract(1)	62		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		GAACCATCCTGATTTAGCAAA	0.343																																																0													99	87	91					13																	33253045		1831	4086	5917	SO:0001583	missense	23047			AB023196	CCDS41878.1	13q12.3	2008-02-05	2007-07-18	2007-07-18	ENSG00000083642	ENSG00000083642			20418	protein-coding gene	gene with protein product		605333	"androgen-induced proliferation inhibitor"	APRIN		8812419, 10215036	Standard	NM_015032		Approved	AS3, KIAA0979, FLJ23236, CG008	uc010abf.3	Q9NTI5	OTTHUMG00000016704	ENST00000315596.10:c.1036G>T	13.37:g.33253045G>T	ENSP00000313851:p.Asp346Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5R3S3|Q5W0K8|Q6NSC3|Q8IXT6|Q9H5N8|Q9Y2I5|Q9Y451	Missense_Mutation	SNP	ENST00000315596.10	37	CCDS41878.1	.	.	.	.	.	.	.	.	.	.	G	27.8	4.863929	0.91511	.	.	ENSG00000083642	ENST00000315596;ENST00000421084	T	0.69806	-0.43	5.49	5.49	0.81192	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.72334	0.3447	L	0.59436	1.845	0.80722	D	1	P;P	0.44877	0.845;0.658	P;B	0.48524	0.58;0.211	T	0.70963	-0.4729	10	0.38643	T	0.18	-1.4873	19.3744	0.94502	0.0:0.0:1.0:0.0	.	346;346	Q9NTI5;Q9NTI5-3	PDS5B_HUMAN;.	Y	346	ENSP00000313851:D346Y	ENSP00000313851:D346Y	D	+	1	0	PDS5B	32151045	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.711000	0.98735	2.585000	0.87301	0.561000	0.74099	GAT		0.343	PDS5B-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044428.3	NM_015032		T	33253045	G	T	33253045	3	4	666	1	0	0	0	0	1	0	0	0	11699	1290	45	4	1070	4	PDS5B	13	33253045	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	7582018	33253045	81916833	80	42578										
ZNF219	51222	mdanderson.org	37	chr14	21560706	21560706	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gttgcctcacgttcgggctcCggctccggctccggctgggg	16	15	1	0	rs370417468|rs1065496	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr14:21560706C>G	ENST00000360947.3	-	3	1161	c.750G>C	c.(748-750)ccG>ccC	p.P250P	ZNF219_ENST00000421093.2_Silent_p.P250P|ZNF219_ENST00000451119.2_Silent_p.P250P|ZNF219_ENST00000556101.1_5'Flank|RP11-998D10.7_ENST00000554733.2_lincRNA	NM_016423.2	NP_057507.2	Q9P2Y4	ZN219_HUMAN	zinc finger protein 219	250					negative regulation of transcription, DNA-templated (GO:0045892)|regulation of neurotransmitter levels (GO:0001505)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	integral component of membrane (GO:0016021)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histamine receptor activity (GO:0004969)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|cervix(1)|large_intestine(1)|lung(1)|ovary(1)|prostate(2)	8	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;9.86e-11)|Epithelial(56;1.27e-08)|all cancers(55;6.06e-08)	GBM - Glioblastoma multiforme(265;0.0191)		gttcgggctccggctccggct	0.726											OREG0022565	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	C|||	448	0.0894569	0.1097	0.049	5008	,	,		11470	0.0942		0.0785	False		,,,				2504	0.0971															0								C	,,	331,3629		14,303,1663	6	7	7		750,750,750	-8.1	0.1	14	dbSNP_86	7	434,7432		9,416,3508	no	coding-synonymous,coding-synonymous,coding-synonymous	ZNF219	NM_001101672.1,NM_001102454.1,NM_016423.2	,,	23,719,5171	GG,GC,CC		5.5174,8.3586,6.4688	,,	250/723,250/723,250/723	21560706	765,11061	1980	3933	5913	SO:0001819	synonymous_variant	51222			AB015427	CCDS9568.1	14q11	2013-01-08			ENSG00000165804	ENSG00000165804		"Zinc fingers, C2H2-type"	13011	protein-coding gene	gene with protein product		605036				10819330	Standard	NM_016423		Approved		uc001vzs.2	Q9P2Y4	OTTHUMG00000029647	ENST00000360947.3:c.750G>C	14.37:g.21560706C>G		Somatic	749	WXS	Illumina HiSeq	Phase_I	D3DS16|Q53Y57|Q8IYC1|Q9BW28	Silent	SNP	ENST00000360947.3	37	CCDS9568.1																																																																																				0.726	ZNF219-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000073931.2			G	21560706	C	G	21560706	2	3	666	1	0	0	0	0	0	0	0	1	17785	639	23	4		4	ZNF219	14	21560706	Silent	SNP	C	TCGA-KN-8430-01A-11D-2310-10		21560706	85788834	81	42579										
FLRT2	23768	mdanderson.org;bcgsc.ca	37	chr14	86087938	86087938	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tatcatttccctggggctctActcacaggtgtccaaactcc	7	14	3	0			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr14:86087938A>G	ENST00000330753.4	+	2	847	c.80A>G	c.(79-81)tAc>tGc	p.Y27C	FLRT2_ENST00000554746.1_Missense_Mutation_p.Y27C	NM_013231.4	NP_037363.1	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	27					axon guidance (GO:0007411)|cell adhesion (GO:0007155)|intracellular signal transduction (GO:0035556)|regulation of neuron migration (GO:2001222)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|proteinaceous extracellular matrix (GO:0005578)	chemorepellent activity (GO:0045499)|protein binding, bridging (GO:0030674)|receptor signaling protein activity (GO:0005057)			NS(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|large_intestine(21)|lung(27)|ovary(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	73				BRCA - Breast invasive adenocarcinoma(234;0.0319)		CTGGGGCTCTACTCACAGGTG	0.517																																																0													93	90	91					14																	86087938		2203	4300	6503	SO:0001583	missense	23768			AF169676	CCDS9877.1	14q24-q32	2013-02-11				ENSG00000185070		"Fibronectin type III domain containing"	3761	protein-coding gene	gene with protein product		604807				10644439, 16872596	Standard	XM_005267490		Approved		uc001xvr.3	O43155		ENST00000330753.4:c.80A>G	14.37:g.86087938A>G	ENSP00000332879:p.Tyr27Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV84|B7ZLP3	Missense_Mutation	SNP	ENST00000330753.4	37	CCDS9877.1	.	.	.	.	.	.	.	.	.	.	A	14.23	2.473548	0.43942	.	.	ENSG00000185070	ENST00000330753;ENST00000554746	T;T	0.55588	0.51;0.51	5.73	0.269	0.15631	.	0.474802	0.24024	N	0.042253	T	0.27765	0.0683	N	0.14661	0.345	0.28151	N	0.929377	B	0.02656	0.0	B	0.01281	0.0	T	0.07908	-1.0748	10	0.39692	T	0.17	-5.2127	4.1128	0.10067	0.4357:0.3756:0.0674:0.1213	.	27	O43155	FLRT2_HUMAN	C	27	ENSP00000332879:Y27C;ENSP00000451050:Y27C	ENSP00000332879:Y27C	Y	+	2	0	FLRT2	85157691	0.034000	0.19679	0.993000	0.49108	0.996000	0.88848	0.102000	0.15272	0.084000	0.17077	0.533000	0.62120	TAC		0.517	FLRT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413193.1			G	86087938	A	G	86087938	3	3	666	1	0	0	0	0	1	0	0	0	5946	391	14	3	82	3	FLRT2	14	86087938	Missense_Mutation	SNP	A	TCGA-KN-8430-01A-11D-2310-10	64527232	86087938	21261602	82	42580										
CLMN	79789	broad.mit.edu	37	chr14	95662949	95662949	+	Frame_Shift_Del	DEL	T	T	-													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ccacatgtttccttttttccTtttttttactactgattgat							TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr14:95662949delT	ENST00000298912.4	-	10	2707	c.2594delA	c.(2593-2595)aagfs	p.K865fs	CLMN_ENST00000557215.1_5'Flank|CLMN_ENST00000556441.1_5'Flank	NM_024734.3	NP_079010.2	Q96JQ2	CLMN_HUMAN	calmin (calponin-like, transmembrane)	865					negative regulation of cell proliferation (GO:0008285)|neuron projection development (GO:0031175)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)		p.K865fs*10(1)		central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(10)|lung(17)|prostate(3)|skin(3)	44				Epithelial(152;0.193)		CCTTTTTTCCTTTTTTTTACT	0.408																																																1	Deletion - Frameshift(1)	large_intestine(1)											152	132	139					14																	95662949		2203	4300	6503	SO:0001589	frameshift_variant	79789			AB033014	CCDS9933.1	14q32.13	2012-10-02			ENSG00000165959	ENSG00000165959			19972	protein-coding gene	gene with protein product		611121				11386753	Standard	NM_024734		Approved	FLJ12383, KIAA1188, KIAA0500	uc001yef.2	Q96JQ2	OTTHUMG00000171629	ENST00000298912.4:c.2594delA	14.37:g.95662949delT	ENSP00000298912:p.Lys865fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAR7|Q9H713|Q9HA23|Q9HA57|Q9UFP4|Q9ULN2	Frame_Shift_Del	DEL	ENST00000298912.4	37	CCDS9933.1																																																																																				0.408	CLMN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414518.2			-	95662949	T	-	95662949	7	5	666	1	0	1	0	1	0	0	0	0	3544	1609	56	0	430	0	CLMN	14	95662949	Frame_Shift_Del	DEL	T	TCGA-KN-8430-01A-11D-2310-10	9575011	95662949	11686591	83	42581										
DEGS2	123099	mdanderson.org	37	chr14	100625902	100625902	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tgtagacccactcgaagtcgCtgcggctcgcgctgttgccc	12	15	0	1	rs7157599	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr14:100625902C>T	ENST00000553834.1	-	1	30	c.23G>A	c.(22-24)aGc>aAc	p.S8N	DEGS2_ENST00000305631.5_Missense_Mutation_p.S8N					delta(4)-desaturase, sphingolipid 2											breast(1)|lung(6)|skin(1)	8		Melanoma(154;0.212)				CTCGAAGTCGCTGCGGCTCGC	0.766													c|||	3842	0.767173	0.8661	0.768	5008	,	,		8798	0.7282		0.6948	False		,,,				2504	0.7474															0								T	ASN/SER	2896,464		1254,388,38	8	7	8	http://www.ncbi.nlm.nih.gov/pubmed?term	23	0.5	1	14	dbSNP_116	8	4583,1505		1740,1103,201	yes	missense	DEGS2	NM_206918.2	46	2994,1491,239	TT,TC,CC	http://www.ncbi.nlm.nih.gov/pubmed?term	24.7208,13.8095,20.8404	benign	8/324	100625902	7479,1969	1680	3044	4724	SO:0001583	missense	123099				CCDS9956.1	14q32.2	2013-09-02	2011-12-09	2004-12-14	ENSG00000168350	ENSG00000168350		"Fatty acid desaturases"	20113	protein-coding gene	gene with protein product	"sphingolipid delta(4)-desaturase 2", "dihydroceramide desaturase 2"	610862	"chromosome 14 open reading frame 66", "degenerative spermatocyte homolog 2, lipid desaturase (Drosophila)"	C14orf66			Standard	NM_206918		Approved	DES2, FADS8	uc001ygx.2	Q6QHC5	OTTHUMG00000171537	ENST00000553834.1:c.23G>A	14.37:g.100625902C>T	ENSP00000450637:p.Ser8Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000553834.1	37		1662	0.760989010989011	431	0.8760162601626016	274	0.7569060773480663	424	0.7412587412587412	533	0.7031662269129287	.	9.769	1.172237	0.21704	0.861905	0.752792	ENSG00000168350	ENST00000305631;ENST00000553834	T;T	0.40476	1.03;1.03	4.72	0.456	0.16655	Sphingolipid delta4-desaturase, N-terminal (1);	0.817312	0.11149	N	0.594331	T	0.00012	0.0000	N	0.13003	0.285	0.58432	P	9.000000000036756E-6	B	0.02656	0.0	B	0.04013	0.001	T	0.21827	-1.0234	9	0.17369	T	0.5	-1.5775	5.1779	0.15145	0.1384:0.5173:0.2681:0.0762	rs7157599;rs60508435;rs7157599	8	Q6QHC5	DEGS2_HUMAN	N	8	ENSP00000307126:S8N;ENSP00000450637:S8N	ENSP00000307126:S8N	S	-	2	0	DEGS2	99695655	0.085000	0.21516	0.990000	0.47175	0.532000	0.34746	-0.317000	0.08060	-0.209000	0.10156	-0.336000	0.08194	AGC		0.766	DEGS2-002	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000414004.1	NM_206918		T	100625902	C	T	100625902	3	4	666	1	0	0	0	0	1	0	0	0	4425	797	28	2	960	2	DEGS2	14	100625902	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10	4962953	100625902	6723638	84	42582										
MYO9A	4649	mdanderson.org	37	chr15	72190902	72190902	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gtaccccgtggagactgaagGccttcaggcaccaattctgt	11	12	2	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr15:72190902G>T	ENST00000356056.5	-	25	4414	c.3942C>A	c.(3940-3942)ggC>ggA	p.G1314G	MYO9A_ENST00000424560.1_Silent_p.G1314G|MYO9A_ENST00000564571.1_Silent_p.G1314G|MYO9A_ENST00000566885.1_Silent_p.G934G|MYO9A_ENST00000563542.1_5'UTR|MYO9A_ENST00000444904.1_Silent_p.G1295G	NM_006901.3	NP_008832.2	B2RTY4	MYO9A_HUMAN	myosin IXA	1314	Tail.				regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|visual perception (GO:0007601)	cytosol (GO:0005829)|integral component of membrane (GO:0016021)|unconventional myosin complex (GO:0016461)	ATP binding (GO:0005524)|GTPase activator activity (GO:0005096)|metal ion binding (GO:0046872)|motor activity (GO:0003774)			NS(4)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(29)|lung(27)|ovary(1)|pancreas(1)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	88						GAGACTGAAGGCCTTCAGGCA	0.458																																																0													116	116	116					15																	72190902		2199	4297	6496	SO:0001819	synonymous_variant	4649			AF117888	CCDS10239.1	15q22-q23	2011-09-27			ENSG00000066933	ENSG00000066933		"Myosins / Myosin superfamily : Class IX"	7608	protein-coding gene	gene with protein product		604875				10409426	Standard	NM_006901		Approved	FLJ11061, FLJ13244, MGC71859	uc002atl.5	B2RTY4	OTTHUMG00000133440	ENST00000356056.5:c.3942C>A	15.37:g.72190902G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0I1T5|C9IYB3|C9JA86|Q14787|Q3YLD7|Q3YLD8|Q6P986|Q9H8T5|Q9NTG2|Q9NUY2|Q9UEP3|Q9UNJ2	Silent	SNP	ENST00000356056.5	37	CCDS10239.1																																																																																				0.458	MYO9A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257308.1	NM_006901		T	72190902	G	T	72190902	2	4	666	1	0	0	0	0	0	0	0	1	10091	1190	42	4		4	MYO9A	15	72190902	Silent	SNP	G	TCGA-KN-8430-01A-11D-2310-10		72190902	30340490	85	42583										
OR4F4	26682	broad.mit.edu	37	chr15	102462595	102462595	+	Frame_Shift_Del	DEL	A	A	-													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gagctttggacgacttatctAaagggcaatgctggatggtc							TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr15:102462595delA	ENST00000326183.3	-	1	703	c.668delT	c.(667-669)ttafs	p.L223fs		NM_001004195.2	NP_001004195.2	Q96R69	OR4F4_HUMAN	olfactory receptor, family 4, subfamily F, member 4	223						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			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)			CGACTTATCTAAAGGGCAATG	0.413																																																0													303	467	415					15																	102462595		1925	4157	6082	SO:0001589	frameshift_variant	26682				CCDS32343.1	15q26.3	2012-08-09			ENSG00000177693	ENSG00000177693		"GPCR / Class A : Olfactory receptors"	8301	protein-coding gene	gene with protein product							Standard	NM_001004195		Approved	OR4F18	uc002cdf.1	Q96R69		ENST00000326183.3:c.668delT	15.37:g.102462595delA	ENSP00000317482:p.Leu223fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNI5|Q6IFN9	Nonsense_Mutation	DEL	ENST00000326183.3	37	CCDS32343.1																																																																																				0.413	OR4F4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000417599.1	NM_001004195		-	102462595	A	-	102462595	7	5	666	1	0	1	0	1	0	0	0	0	11071	372	13	0	253	0	OR4F4	15	102462595	Frame_Shift_Del	DEL	A	TCGA-KN-8430-01A-11D-2310-10	30271693	102462595	68797	86	42584										
ZNF598	90850	hgsc.bcm.edu	37	chr16	2059622	2059622	+	Splice_Site	DEL	C	C	-													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	acaccgggtggtcgcagcggCcccagcgccgtggcctccag					rs11366527		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr16:2059622delC	ENST00000431526.1	-	3	139	c.125delG	c.(124-126)ggc>gc	p.G42fs	ZNF598_ENST00000563630.1_5'UTR|ZNF598_ENST00000562103.1_5'UTR	NM_178167.2	NP_835461.2	Q86UK7	ZN598_HUMAN	zinc finger protein 598	42							poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|lung(7)|skin(1)|urinary_tract(1)	16						GTCGCAGCGGCCCCAGCGCCG	0.736													CCC|CCCC|CCC|insertion	5008	1.0	1.0	1.0	5008	,	,		6036	1.0		1.0	False		,,,				2504	1.0															0										2432,4		1216,0,2	1	1	1			2.3	1	16	dbSNP_120	2	5091,7		2545,1,3	no	frameshift	ZNF598	NM_178167.2		3761,1,5	A1A1,A1R,RR		0.1373,0.1642,0.146			2059622	7523,11	285	632	917	SO:0001630	splice_region_variant	90850			BC029270		16p13.3	2008-05-02				ENSG00000167962		"Zinc fingers, C2H2-type"	28079	protein-coding gene	gene with protein product							Standard	NM_178167		Approved	FLJ00086	uc002cof.2	Q86UK7		ENST00000431526.1:c.124-1G>-	16.37:g.2059622delC		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IW49|Q8N3D9|Q96FG3|Q9H7J3	Frame_Shift_Del	DEL	ENST00000431526.1	37																																																																																					0.736	ZNF598-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_178167	Frame_Shift_Del	-	2059622	C	-	2059622	8	5	666	1	0	1	0	1	0	0	1	0	18040	739	26	0	2637	0	ZNF598	16	2059622	Splice_Site	DEL	C	TCGA-KN-8430-01A-11D-2310-10		2059622	88295131	87	42585										
PKD1	5310	mdanderson.org	37	chr16	2154573	2154573	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tggtctctgcctgcaggatgAgcatcatggcctccagcttg	12	12	2	1	rs201238819		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr16:2154573A>C	ENST00000262304.4	-	22	8295	c.8087T>G	c.(8086-8088)cTc>cGc	p.L2696R	PKD1_ENST00000561991.1_5'UTR|PKD1_ENST00000423118.1_Missense_Mutation_p.L2696R	NM_001009944.2	NP_001009944	P98161	PKD1_HUMAN	polycystic kidney disease 1 (autosomal dominant)	2696	REJ. {ECO:0000255|PROSITE- ProRule:PRU00511}.		L -> R (in PKD1). {ECO:0000269|PubMed:11316854}.		anatomical structure morphogenesis (GO:0009653)|branching morphogenesis of an epithelial tube (GO:0048754)|calcium ion transmembrane transport (GO:0070588)|calcium-independent cell-matrix adhesion (GO:0007161)|cartilage condensation (GO:0001502)|cartilage development (GO:0051216)|cation transmembrane transport (GO:0098655)|cell cycle arrest (GO:0007050)|cell-matrix adhesion (GO:0007160)|cytoplasmic sequestering of transcription factor (GO:0042994)|detection of mechanical stimulus (GO:0050982)|digestive tract development (GO:0048565)|embryonic placenta development (GO:0001892)|genitalia development (GO:0048806)|heart development (GO:0007507)|homophilic cell adhesion (GO:0007156)|in utero embryonic development (GO:0001701)|JAK-STAT cascade (GO:0007259)|kidney development (GO:0001822)|liver development (GO:0001889)|lung epithelium development (GO:0060428)|mesonephric duct development (GO:0072177)|mesonephric tubule development (GO:0072164)|metanephric ascending thin limb development (GO:0072218)|metanephric collecting duct development (GO:0072205)|metanephric distal tubule morphogenesis (GO:0072287)|metanephric proximal tubule development (GO:0072237)|neural tube development (GO:0021915)|neuropeptide signaling pathway (GO:0007218)|nitrogen compound metabolic process (GO:0006807)|peptidyl-serine phosphorylation (GO:0018105)|placenta blood vessel development (GO:0060674)|positive regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031659)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of protein binding (GO:0032092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein export from nucleus (GO:0006611)|regulation of mitotic spindle organization (GO:0060236)|regulation of proteasomal protein catabolic process (GO:0061136)|response to fluid shear stress (GO:0034405)|skin development (GO:0043588)|spinal cord development (GO:0021510)	basolateral plasma membrane (GO:0016323)|cilium (GO:0005929)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|lateral plasma membrane (GO:0016328)|motile primary cilium (GO:0031512)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|polycystin complex (GO:0002133)	calcium channel activity (GO:0005262)|carbohydrate binding (GO:0030246)|cation channel activity (GO:0005261)|ion channel binding (GO:0044325)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)	p.L2696R(3)		breast(1)|central_nervous_system(3)|cervix(1)|endometrium(7)|kidney(6)|lung(34)|prostate(4)|skin(10)|upper_aerodigestive_tract(3)|urinary_tract(3)	72						CTGCAGGATGAGCATCATGGC	0.677																																																3	Substitution - Missense(3)	skin(2)|endometrium(1)	GRCh37	CM014074	PKD1	M							16	12	13					16																	2154573		2107	4184	6291	SO:0001583	missense	5310			L33243	CCDS32369.1, CCDS45385.1	16p13.3	2014-01-28			ENSG00000008710	ENSG00000008710		"Voltage-gated ion channels / Transient receptor potential cation channels"	9008	protein-coding gene	gene with protein product	"polycystin 1", "transient receptor potential cation channel, subfamily P, member 1"	601313					Standard	NM_001009944		Approved	PBP, Pc-1, TRPP1	uc002cos.1	P98161	OTTHUMG00000155795	ENST00000262304.4:c.8087T>G	16.37:g.2154573A>C	ENSP00000262304:p.Leu2696Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q15140|Q15141	Missense_Mutation	SNP	ENST00000262304.4	37	CCDS32369.1	.	.	.	.	.	.	.	.	.	.	-	0.355	-0.942715	0.02322	.	.	ENSG00000008710	ENST00000262304;ENST00000423118;ENST00000306101;ENST00000382481	T;T	0.32988	1.43;1.43	4.37	-1.71	0.08133	Egg jelly receptor, REJ-like (1);Polycystin cation channel (1);	0.646468	0.16090	N	0.230081	T	0.05181	0.0138	N	0.00347	-1.61	0.20873	N	0.99984	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.001	T	0.35500	-0.9786	10	0.12430	T	0.62	.	2.3268	0.04224	0.102:0.2587:0.2052:0.4341	.	2696;2696	P98161-3;P98161	.;PKD1_HUMAN	R	2696;2696;2031;975	ENSP00000262304:L2696R;ENSP00000399501:L2696R	ENSP00000262304:L2696R	L	-	2	0	PKD1	2094574	0.916000	0.31088	0.097000	0.21041	0.126000	0.20510	0.857000	0.27831	-0.349000	0.08274	-0.335000	0.08231	CTC		0.677	PKD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000341688.1			C	2154573	A	C	2154573	3	2	666	1	0	0	0	0	1	0	0	0	11970	304	11	5	4924	5	PKD1	16	2154573	Missense_Mutation	SNP	A	TCGA-KN-8430-01A-11D-2310-10	94951	2154573	88200180	88	42586										
ITGAD	3681	broad.mit.edu	37	chr16	31421837	31421837	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gaatgtggacatgagggactCttacctgggtgagaaacggc	15	7	1	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr16:31421837C>T	ENST00000389202.2	+	11	1254	c.1205C>T	c.(1204-1206)tCt>tTt	p.S402F		NM_005353.2	NP_005344.2	Q13349	ITAD_HUMAN	integrin, alpha D	402					activated T cell proliferation (GO:0050798)|extracellular matrix organization (GO:0030198)|heterotypic cell-cell adhesion (GO:0034113)|immune response (GO:0006955)|integrin-mediated signaling pathway (GO:0007229)	cell surface (GO:0009986)|integrin complex (GO:0008305)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|liver(2)|lung(43)|ovary(1)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	71						ATGAGGGACTCTTACCTGGGT	0.597																																																0													73	70	71					16																	31421837		2197	4300	6497	SO:0001583	missense	3681			U40274	CCDS32438.1	16p13.1-p11	2010-03-23				ENSG00000156886		"CD molecules", "Integrins"	6146	protein-coding gene	gene with protein product		602453				8666289, 9598326	Standard	NM_005353		Approved	CD11d, ADB2	uc002ebv.1	Q13349		ENST00000389202.2:c.1205C>T	16.37:g.31421837C>T	ENSP00000373854:p.Ser402Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q15575|Q15576	Missense_Mutation	SNP	ENST00000389202.2	37	CCDS32438.1	.	.	.	.	.	.	.	.	.	.	c	13.46	2.243558	0.39697	.	.	ENSG00000156886	ENST00000444228;ENST00000389202	T	0.23754	1.89	4.43	4.43	0.53597	.	.	.	.	.	T	0.56426	0.1984	M	0.89658	3.05	0.32435	N	0.547457	D;D	0.62365	0.991;0.991	D;D	0.65010	0.931;0.931	T	0.72453	-0.4289	9	0.87932	D	0	.	14.5149	0.67811	0.0:1.0:0.0:0.0	.	418;402	Q59H14;Q13349	.;ITAD_HUMAN	F	418;402	ENSP00000373854:S402F	ENSP00000373854:S402F	S	+	2	0	ITGAD	31329338	0.967000	0.33354	0.825000	0.32803	0.100000	0.18952	3.338000	0.52128	2.007000	0.58848	0.197000	0.17608	TCT		0.597	ITGAD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000432836.1	NM_005353		T	31421837	C	T	31421837	3	4	666	1	0	0	0	0	1	0	0	0	7891	913	32	2	1247	2	ITGAD	16	31421837	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10	29267264	31421837	58932916	89	42587										
ZNF319	57567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	58031971	58031971	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ctctcctgctgcctgcagggGtgcgtgttgtgggggctgca	17	11	1	0			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr16:58031971G>C	ENST00000299237.2	-	2	821	c.199C>G	c.(199-201)Ccc>Gcc	p.P67A	USB1_ENST00000561743.1_5'Flank	NM_020807.1	NP_065858.1	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	67	Pro-rich.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			large_intestine(2)|lung(4)|ovary(1)|urinary_tract(1)	8						GCCTGCAGGGGTGCGTGTTGT	0.692																																																0													36	38	37					16																	58031971		2198	4299	6497	SO:0001583	missense	57567			AB037809	CCDS32462.1	16q21	2013-01-08				ENSG00000166188		"Zinc fingers, C2H2-type"	13644	protein-coding gene	gene with protein product						10718198, 11161788	Standard	XM_005256069		Approved	KIAA1388, Zfp319	uc002emx.1	Q9P2F9		ENST00000299237.2:c.199C>G	16.37:g.58031971G>C	ENSP00000299237:p.Pro67Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LH8	Missense_Mutation	SNP	ENST00000299237.2	37	CCDS32462.1	.	.	.	.	.	.	.	.	.	.	G	5.379	0.255089	0.10185	.	.	ENSG00000166188	ENST00000299237	T	0.03035	4.07	5.34	4.38	0.52667	.	0.085303	0.47455	D	0.000239	T	0.03220	0.0094	N	0.20685	0.6	0.36971	D	0.893841	B	0.18461	0.028	B	0.12156	0.007	T	0.46289	-0.9202	10	0.17832	T	0.49	-23.7999	15.0798	0.72106	0.0:0.1425:0.8575:0.0	.	67	Q9P2F9	ZN319_HUMAN	A	67	ENSP00000299237:P67A	ENSP00000299237:P67A	P	-	1	0	ZNF319	56589472	0.999000	0.42202	0.766000	0.31476	0.008000	0.06430	3.229000	0.51278	1.237000	0.43756	-0.302000	0.09304	CCC		0.692	ZNF319-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000430317.1			C	58031971	G	C	58031971	3	2	666	1	0	0	0	0	1	0	0	0	17849	1261	44	4	1553	4	ZNF319	16	58031971	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	26610134	58031971	32322782	90	42588										
CDH16	1014	broad.mit.edu	37	chr16	66942345	66942345	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tgctggttgatccgggtcctTcttccttgacatggtccagt	11	11	1	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr16:66942345T>C	ENST00000299752.4	-	18	2633	c.2440A>G	c.(2440-2442)Aag>Gag	p.K814E	CDH16_ENST00000394055.3_Missense_Mutation_p.K792E|CDH16_ENST00000568632.1_Missense_Mutation_p.K717E|CDH16_ENST00000565796.1_Missense_Mutation_p.K775E|CDH16_ENST00000570262.1_Missense_Mutation_p.K734E	NM_001204744.1|NM_001204745.1|NM_004062.3	NP_001191673.1|NP_001191674.1|NP_004053.1	O75309	CAD16_HUMAN	cadherin 16, KSP-cadherin	814					calcium-dependent cell-cell adhesion (GO:0016339)|cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)	basolateral plasma membrane (GO:0016323)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)			endometrium(1)|kidney(3)|large_intestine(10)|lung(15)|ovary(2)|prostate(2)|skin(5)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	41		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		TCCGGGTCCTTCTTCCTTGAC	0.577																																																0													111	106	108					16																	66942345		2200	4300	6500	SO:0001583	missense	1014			AF016272	CCDS10823.1, CCDS56002.1, CCDS58471.1, CCDS58472.1	16q22.1	2010-01-26			ENSG00000166589	ENSG00000166589		"Cadherins / Major cadherins"	1755	protein-coding gene	gene with protein product		603118				9721215, 7615566	Standard	NM_004062		Approved		uc002eql.3	O75309	OTTHUMG00000137518	ENST00000299752.4:c.2440A>G	16.37:g.66942345T>C	ENSP00000299752:p.Lys814Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DPA8|H3BPD3|Q6UW93	Missense_Mutation	SNP	ENST00000299752.4	37	CCDS10823.1	.	.	.	.	.	.	.	.	.	.	T	14.62	2.589247	0.46110	.	.	ENSG00000166589	ENST00000394055;ENST00000299752;ENST00000544875	T;T	0.59906	0.23;0.25	5.52	4.43	0.53597	.	0.165860	0.37219	N	0.002181	T	0.59004	0.2162	N	0.22421	0.69	0.39445	D	0.967316	D;D;D	0.69078	0.997;0.997;0.988	P;D;P	0.75020	0.879;0.985;0.76	T	0.60999	-0.7151	10	0.51188	T	0.08	-26.4532	7.9819	0.30188	0.0:0.0924:0.0:0.9076	.	792;814;814	O75309-2;B2R7S8;O75309	.;.;CAD16_HUMAN	E	792;814;778	ENSP00000377619:K792E;ENSP00000299752:K814E	ENSP00000299752:K814E	K	-	1	0	CDH16	65499846	1.000000	0.71417	1.000000	0.80357	0.242000	0.25591	3.426000	0.52778	0.936000	0.37367	0.533000	0.62120	AAG		0.577	CDH16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268839.2	NM_004062		C	66942345	T	C	66942345	3	2	666	1	0	0	0	0	1	0	0	0	3103	1792	62	3	53	3	CDH16	16	66942345	Missense_Mutation	SNP	T	TCGA-KN-8430-01A-11D-2310-10	8910374	66942345	23412408	91	42589										
HPR	3250	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr16	72110892	72110892	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ggctgggatcctaagctttgAtaagagctgtgctgtggctg	15	7	0	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr16:72110892A>G	ENST00000540303.2	+	5	991	c.959A>G	c.(958-960)gAt>gGt	p.D320G	HPR_ENST00000561690.1_Nonstop_Mutation_p.*118W|HPR_ENST00000228226.8_Missense_Mutation_p.D357G|HPR_ENST00000356967.5_Missense_Mutation_p.D320G	NM_020995.3	NP_066275.3	P00739	HPTR_HUMAN	haptoglobin-related protein	320	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.					blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|spherical high-density lipoprotein particle (GO:0034366)	hemoglobin binding (GO:0030492)|serine-type endopeptidase activity (GO:0004252)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(7)|prostate(1)|stomach(1)|urinary_tract(2)	20		Ovarian(137;0.125)				CTAAGCTTTGATAAGAGCTGT	0.542																																																0													260	173	202					16																	72110892		2087	4219	6306	SO:0001583	missense	3250			BC160066	CCDS42193.1	16q22.2	2012-10-03			ENSG00000261701	ENSG00000261701			5156	protein-coding gene	gene with protein product		140210				2987228, 16778136	Standard	NM_020995		Approved		uc002fby.3	P00739	OTTHUMG00000173010	ENST00000540303.2:c.959A>G	16.37:g.72110892A>G	ENSP00000441828:p.Asp320Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q7LE20|Q92658|Q92659|Q9ULB0	Missense_Mutation	SNP	ENST00000540303.2	37	CCDS42193.1	.	.	.	.	.	.	.	.	.	.	A	9.648	1.140896	0.21205	.	.	ENSG00000257017	ENST00000356967;ENST00000540303;ENST00000228226	D;D;D	0.88975	-2.45;-2.45;-2.45	2.64	2.64	0.31445	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	0.000000	0.85682	D	0.000000	T	0.78464	0.4287	N	0.01140	-0.99	0.40259	D	0.97815	D	0.89917	1.0	D	0.97110	1.0	T	0.75671	-0.3237	10	0.02654	T	1	.	7.1984	0.25866	0.7742:0.2258:0.0:0.0	.	320	P00739	HPTR_HUMAN	G	320;320;357	ENSP00000349451:D320G;ENSP00000441828:D320G;ENSP00000228226:D357G	ENSP00000228226:D357G	D	+	2	0	HP	70668393	0.995000	0.38212	1.000000	0.80357	0.524000	0.34500	2.861000	0.48380	1.198000	0.43158	0.338000	0.21704	GAT		0.542	HPR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000421696.1	NM_020995		G	72110892	A	G	72110892	3	3	666	1	0	0	0	0	1	0	0	0	7344	333	12	3	977	3	HPR	16	72110892	Missense_Mutation	SNP	A	TCGA-KN-8430-01A-11D-2310-10	5168547	72110892	18243861	92	42590										
WDR59	79726	broad.mit.edu	37	chr16	74976691	74976691	+	Frame_Shift_Del	DEL	T	T	-													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tggtggcaaggcagttagcaTtttttttattccatttgacc							TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr16:74976691delT	ENST00000262144.6	-	7	609	c.479delA	c.(478-480)aatfs	p.N160fs		NM_030581.3	NP_085058.3	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	160										breast(3)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(13)|ovary(1)|prostate(1)	27						GCAGTTAGCATTTTTTTTATT	0.502																																																0													84	76	79					16																	74976691		2198	4300	6498	SO:0001589	frameshift_variant	79726			AB067510	CCDS32488.1	16q22.3	2013-01-09				ENSG00000103091		"WD repeat domain containing"	25706	protein-coding gene	gene with protein product						11572484	Standard	XM_005256146		Approved	FLJ12270	uc002fdh.1	Q6PJI9		ENST00000262144.6:c.479delA	16.37:g.74976691delT	ENSP00000262144:p.Asn160fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRC3|Q71RE7|Q96PW5|Q9BSW6|Q9HA43	Frame_Shift_Del	DEL	ENST00000262144.6	37	CCDS32488.1																																																																																				0.502	WDR59-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410601.3	NM_030581		-	74976691	T	-	74976691	7	5	666	1	0	1	0	1	0	0	0	0	17320	1493	52	0	2525	0	WDR59	16	74976691	Frame_Shift_Del	DEL	T	TCGA-KN-8430-01A-11D-2310-10	2865799	74976691	15378062	93	42591										
AP2B1	163	ucsc.edu	37	chr17	34044214	34044214	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ttttgaatctgtatttctagAcactgtttccagcaagttgc	7	8	2	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr17:34044214A>G	ENST00000262325.7	+	20	3138	c.2585A>G	c.(2584-2586)gAc>gGc	p.D862G	AP2B1_ENST00000538556.1_Splice_Site_p.D805G|AP2B1_ENST00000592545.1_Splice_Site_p.D838G|AP2B1_ENST00000589344.1_Splice_Site_p.D876G|AP2B1_ENST00000545922.2_3'UTR|AP2B1_ENST00000312678.8_Splice_Site_p.D876G|AP2B1_ENST00000537622.2_Splice_Site_p.D876G	NM_001282.2	NP_001273.1	P63010	AP2B1_HUMAN	adaptor-related protein complex 2, beta 1 subunit	862	Interaction with ARRB1.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|axon guidance (GO:0007411)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|intracellular protein transport (GO:0006886)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of defense response to virus by virus (GO:0050690)|synaptic transmission (GO:0007268)|viral process (GO:0016032)	clathrin adaptor complex (GO:0030131)|clathrin-coated endocytic vesicle membrane (GO:0030669)|coated pit (GO:0005905)|cytosol (GO:0005829)|endocytic vesicle membrane (GO:0030666)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|plasma membrane (GO:0005886)	clathrin binding (GO:0030276)|protein transporter activity (GO:0008565)			NS(1)|breast(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(6)|ovary(3)|pancreas(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	28		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		GTATTTCTAGACACTGTTTCC	0.398																																																0													107	100	103					17																	34044214		2203	4300	6503	SO:0001630	splice_region_variant	163			M34175	CCDS32621.1, CCDS32622.1	17q11.2-q12	2010-06-18			ENSG00000006125	ENSG00000006125			563	protein-coding gene	gene with protein product		601025		ADTB2, CLAPB1		8262066, 8595912	Standard	XM_005257937		Approved		uc002hjq.3	P63010		ENST00000262325.7:c.2585-1A>G	17.37:g.34044214A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NJP3|P21851|Q7Z451|Q96J19	Missense_Mutation	SNP	ENST00000262325.7	37	CCDS32622.1	.	.	.	.	.	.	.	.	.	.	A	19.07	3.755295	0.69648	.	.	ENSG00000006125	ENST00000262325;ENST00000312678;ENST00000538556;ENST00000537622;ENST00000545922	T;T;T;T	0.41758	1.26;1.26;0.99;1.26	5.86	5.86	0.93980	Coatomer/calthrin adaptor appendage, C-terminal subdomain (1);Clathrin adaptor, beta-adaptin, appendage, C-terminal subdomain (1);Beta2-adaptin/TATA-box binding, C-terminal (1);	0.000000	0.85682	D	0.000000	T	0.67477	0.2897	M	0.83483	2.645	0.80722	D	1	D;P;B;B	0.59357	0.985;0.486;0.001;0.001	D;P;B;B	0.74023	0.982;0.457;0.029;0.01	T	0.70502	-0.4854	9	.	.	.	.	15.7408	0.77894	1.0:0.0:0.0:0.0	.	613;838;862;876	F5GYG9;B4DWG4;P63010;P63010-2	.;.;AP2B1_HUMAN;.	G	862;876;805;876;613	ENSP00000262325:D862G;ENSP00000314414:D876G;ENSP00000440563:D805G;ENSP00000437413:D876G	.	D	+	2	0	AP2B1	31068327	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.339000	0.96797	2.367000	0.80283	0.528000	0.53228	GAC		0.398	AP2B1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000448969.1		Missense_Mutation	G	34044214	A	G	34044214	5	3	666	1	0	0	0	0	0	0	1	0	741	289	10	3	2705	3	AP2B1	17	34044214	Splice_Site	SNP	A	TCGA-KN-8430-01A-11D-2310-10		34044214	47150996	94	42592										
HEXDC	284004	broad.mit.edu	37	chr17	80377733	80377733	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	atttagaccttaaaggagctCcaccaaaggtctcgtacctc	7	12	1	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr17:80377733C>A	ENST00000327949.9	+	1	69	c.58C>A	c.(58-60)Cca>Aca	p.P20T	HEXDC_ENST00000577944.1_Missense_Mutation_p.P20T|Y_RNA_ENST00000364369.1_RNA|OGFOD3_ENST00000313056.5_5'Flank|OGFOD3_ENST00000329197.5_5'Flank|HEXDC_ENST00000337014.6_Missense_Mutation_p.P20T			Q8WVB3	HEXDC_HUMAN	hexosaminidase (glycosyl hydrolase family 20, catalytic domain) containing	20					carbohydrate metabolic process (GO:0005975)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	beta-N-acetylhexosaminidase activity (GO:0004563)			breast(1)|endometrium(1)|kidney(3)|large_intestine(1)|lung(7)|ovary(1)|prostate(1)|skin(1)	16	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			TAAAGGAGCTCCACCAAAGGT	0.428																																																0													89	90	90					17																	80377733		1877	4092	5969	SO:0001583	missense	284004			AK074405	CCDS42402.1	17q25.3	2011-12-19			ENSG00000169660	ENSG00000169660			26307	protein-coding gene	gene with protein product						12477932	Standard	NM_173620		Approved	FLJ23825	uc002kev.4	Q8WVB3		ENST00000327949.9:c.58C>A	17.37:g.80377733C>A	ENSP00000332634:p.Pro20Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B7UUP6|Q8IYN4|Q8TE81	Missense_Mutation	SNP	ENST00000327949.9	37		.	.	.	.	.	.	.	.	.	.	C	18.36	3.607611	0.66558	.	.	ENSG00000169660	ENST00000337014;ENST00000327949	D;D	0.90133	-2.62;-2.62	4.97	4.97	0.65823	Glycoside hydrolase, subgroup, catalytic domain (1);Glycoside hydrolase, superfamily (1);	0.144606	0.46442	D	0.000281	D	0.94997	0.8381	M	0.83603	2.65	0.58432	D	0.999998	D;D	0.76494	0.996;0.999	D;D	0.72982	0.935;0.979	D	0.93758	0.7064	10	0.30078	T	0.28	-22.7356	15.7781	0.78240	0.0:1.0:0.0:0.0	.	20;20	Q8WVB3;Q8WVB3-2	HEXDC_HUMAN;.	T	20	ENSP00000337854:P20T;ENSP00000332634:P20T	ENSP00000332634:P20T	P	+	1	0	HEXDC	77971022	0.946000	0.32159	0.252000	0.24328	0.687000	0.40016	3.236000	0.51336	2.568000	0.86640	0.655000	0.94253	CCA		0.428	HEXDC-003	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000443513.1	NM_173620		A	80377733	C	A	80377733	3	1	666	1	0	0	0	0	1	0	0	0	7082	855	30	4	60	4	HEXDC	17	80377733	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10	46333519	80377733	817477	95	42593										
SIGLEC15	284266	ucsc.edu	37	chr18	43418922	43418922	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ccgccaacagcctgggccgcTccgaggccagcgtctacctg	12	18	1	0			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr18:43418922T>C	ENST00000389474.3	+	4	953	c.736T>C	c.(736-738)Tcc>Ccc	p.S246P	SIGLEC15_ENST00000546268.1_Missense_Mutation_p.S92P|SIGLEC15_ENST00000587418.1_Silent_p.A15A|SIGLEC15_ENST00000602118.2_3'UTR	NM_213602.2	NP_998767.1	Q6ZMC9	SIG15_HUMAN	sialic acid binding Ig-like lectin 15	246	Ig-like C2-type.				cellular response to lipoprotein particle stimulus (GO:0071402)|innate immune response (GO:0045087)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of bone resorption (GO:0045124)|regulation of osteoclast development (GO:2001204)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|protein complex (GO:0043234)				endometrium(1)|large_intestine(1)|lung(1)|upper_aerodigestive_tract(1)	4						CCTGGGCCGCTCCGAGGCCAG	0.706																																																0													10	12	11					18																	43418922		2096	4142	6238	SO:0001583	missense	284266			AK095432	CCDS32819.1	18q21.1	2014-01-28	2007-05-31	2007-05-31	ENSG00000197046	ENSG00000197046		"Sialic acid binding Ig-like lectins", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	27596	protein-coding gene	gene with protein product			"CD33 antigen-like 3", "CD33 molecule-like 3"	CD33L3		17483134	Standard	NM_213602		Approved	HsT1361	uc002lbl.1	Q6ZMC9		ENST00000389474.3:c.736T>C	18.37:g.43418922T>C	ENSP00000374125:p.Ser246Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2Y5|B4DVQ9	Missense_Mutation	SNP	ENST00000389474.3	37	CCDS32819.1	.	.	.	.	.	.	.	.	.	.	T	15.34	2.804493	0.50315	.	.	ENSG00000197046	ENST00000389474;ENST00000546268	T;T	0.73258	2.7;-0.73	4.63	0.601	0.17529	Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.227470	0.36444	N	0.002590	T	0.61211	0.2329	L	0.57536	1.79	0.23893	N	0.996547	B	0.28400	0.21	B	0.30251	0.113	T	0.54084	-0.8346	10	0.52906	T	0.07	-9.3574	5.9974	0.19501	0.1501:0.0:0.575:0.2749	.	246	Q6ZMC9	SIG15_HUMAN	P	246;92	ENSP00000374125:S246P;ENSP00000443509:S92P	ENSP00000374125:S246P	S	+	1	0	SIGLEC15	41672920	0.650000	0.27331	0.945000	0.38365	0.961000	0.63080	2.248000	0.43160	-0.075000	0.12798	-0.648000	0.03929	TCC		0.706	SIGLEC15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410768.2	NM_213602		C	43418922	T	C	43418922	3	2	666	1	0	0	0	0	1	0	0	0	14323	1551	54	3	750	3	SIGLEC15	18	43418922	Missense_Mutation	SNP	T	TCGA-KN-8430-01A-11D-2310-10		43418922	34658326	96	42594										
PPAP2C	8612	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	288028	288028	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ctcctgccttacaaggatgaCggtggccgtgatggtgaccc	13	12	0	3	rs148329482	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr19:288028C>T	ENST00000269812.3	-	2	245	c.196G>A	c.(196-198)Gtc>Atc	p.V66I	PPAP2C_ENST00000434325.2_Missense_Mutation_p.V10I|PPAP2C_ENST00000327790.3_Missense_Mutation_p.V87I	NM_003712.2|NM_177526.1	NP_003703.1|NP_803545.1	O43688	LPP2_HUMAN	phosphatidic acid phosphatase type 2C	66					dephosphorylation (GO:0016311)|small molecule metabolic process (GO:0044281)|sphingolipid biosynthetic process (GO:0030148)|sphingolipid metabolic process (GO:0006665)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	phosphatidate phosphatase activity (GO:0008195)|phosphoprotein phosphatase activity (GO:0004721)			breast(1)|central_nervous_system(1)|endometrium(1)|lung(1)|skin(1)	5		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACAAGGATGACGGTGGCCGTG	0.642													.|||	6	0.00119808	0.0	0.0	5008	,	,		12700	0.0		0.006	False		,,,				2504	0.0															0								C	ILE/VAL,ILE/VAL,ILE/VAL	1,4405	824.9+/-416.5	0,1,2202	113	99	104		196,28,259	-3.8	0	19	dbSNP_134	104	0,8600		0,0,4300	yes	missense,missense,missense	PPAP2C	NM_003712.2,NM_177526.1,NM_177543.1	29,29,29	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	benign,benign,benign	66/289,10/233,87/310	288028	1,13005	2203	4300	6503	SO:0001583	missense	8612			AF035959	CCDS12023.1, CCDS12024.1, CCDS45889.1	19p13	2009-05-27				ENSG00000141934	3.1.3.4		9230	protein-coding gene	gene with protein product		607126				9570154, 9607309	Standard	NM_177543		Approved	PAP-2c, LPP2	uc002loh.3	O43688		ENST00000269812.3:c.196G>A	19.37:g.288028C>T	ENSP00000269812:p.Val66Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLV0|E9PAY8	Missense_Mutation	SNP	ENST00000269812.3	37	CCDS12023.1	6	0.0027472527472527475	0	0.0	0	0.0	0	0.0	6	0.0079155672823219	T	0.525	-0.860463	0.02610	2.27E-4	0.0	ENSG00000141934	ENST00000269812;ENST00000327790;ENST00000434325	T;T;T	0.74632	-0.86;-0.83;1.61	4.44	-3.8	0.04307	.	0.415488	0.22661	N	0.057186	T	0.38214	0.1032	N	0.17631	0.505	0.09310	N	1	B;B	0.17038	0.0;0.02	B;B	0.13407	0.001;0.009	T	0.44236	-0.9341	10	0.02654	T	1	-8.3324	7.8963	0.29708	0.0:0.6408:0.1073:0.2519	.	66;87	O43688;O43688-2	LPP2_HUMAN;.	I	66;87;10	ENSP00000269812:V66I;ENSP00000329697:V87I;ENSP00000388565:V10I	ENSP00000269812:V66I	V	-	1	0	PPAP2C	239028	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-1.062000	0.03468	-0.363000	0.08101	-1.796000	0.00623	GTC		0.642	PPAP2C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451777.2			T	288028	C	T	288028	3	4	666	1	0	0	0	0	1	0	0	0	12299	536	19	1	690	1	PPAP2C	19	288028	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10		288028	58840955	97	42595										
DPP9	91039	bcgsc.ca	37	chr19	4719881	4719881	+	5'UTR	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	accttctccaacttccggtgTtctccttgtccaggcgcagt	8	15	2	0			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr19:4719881T>C	ENST00000598800.1	-	0	258				DPP9_ENST00000262960.9_Missense_Mutation_p.N13S|DPP9_ENST00000597849.1_Missense_Mutation_p.N13S			Q86TI2	DPP9_HUMAN	dipeptidyl-peptidase 9							cytoplasm (GO:0005737)|membrane (GO:0016020)	aminopeptidase activity (GO:0004177)|identical protein binding (GO:0042802)|serine-type peptidase activity (GO:0008236)			cervix(2)|endometrium(3)|kidney(3)|large_intestine(2)|lung(6)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	20		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00884)		ACTTCCGGTGTTCTCCTTGTC	0.577																																																0													106	104	105					19																	4719881		692	1591	2283	SO:0001623	5_prime_UTR_variant	91039			AF452102	CCDS45928.1	19p13.3	2014-06-11	2006-01-12		ENSG00000142002	ENSG00000142002			18648	protein-coding gene	gene with protein product		608258	"dipeptidylpeptidase 9"				Standard	NM_139159		Approved		uc002mba.3	Q86TI2	OTTHUMG00000182040	ENST00000598800.1:c.-248A>G	19.37:g.4719881T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O75273|O75868|Q1ZZB8|Q6AI37|Q6UAL0|Q6ZMT2|Q6ZNJ5|Q8N2J7|Q8N3F5|Q8WXD8|Q96NT8|Q9BVR3	Missense_Mutation	SNP	ENST00000598800.1	37		.	.	.	.	.	.	.	.	.	.	T	9.005	0.980970	0.18812	.	.	ENSG00000142002	ENST00000357909;ENST00000381797;ENST00000262960	T	0.28895	1.59	3.29	0.804	0.18697	.	0.204155	0.28712	N	0.014387	T	0.11707	0.0285	N	0.08118	0	0.09310	N	1	B	0.13594	0.008	B	0.12156	0.007	T	0.16630	-1.0396	10	0.26408	T	0.33	-11.1953	3.6575	0.08226	0.1805:0.0:0.3564:0.463	.	13	Q1ZZB8	.	S	92;92;13	ENSP00000262960:N13S	ENSP00000262960:N13S	N	-	2	0	DPP9	4670881	0.973000	0.33851	0.010000	0.14722	0.913000	0.54294	1.896000	0.39789	0.329000	0.23460	0.459000	0.35465	AAC		0.577	DPP9-026	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000459343.2			C	4719881	T	C	4719881	1	2	666	0	1	0	0	0	0	0	0	0	4735	1725	60	3		3	DPP9	19	4719881	5'UTR	SNP	T	TCGA-KN-8430-01A-11D-2310-10	4431853	4719881	54409102	98	42596										
MUC16	94025	mdanderson.org	37	chr19	9006370	9006370	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	aaggtcagtctgcagccagaAtacagagggccaacactggt	12	10	2	2	rs79341062	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr19:9006370A>G	ENST00000397910.4	-	45	39851	c.39648T>C	c.(39646-39648)taT>taC	p.Y13216Y	MUC16_ENST00000380951.5_5'Flank	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13218	SEA 8. {ECO:0000255|PROSITE- ProRule:PRU00188}.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TGCAGCCAGAATACAGAGGGC	0.522																																																0													104	85	91					19																	9006370		2007	4178	6185	SO:0001819	synonymous_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.39648T>C	19.37:g.9006370A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Silent	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	.	2.163	-0.391777	0.04932	.	.	ENSG00000181143	ENST00000542240	.	.	.	2.73	-2.09	0.07232	.	.	.	.	.	T	0.36799	0.0980	.	.	.	.	.	.	.	.	.	.	.	.	T	0.44544	-0.9321	3	.	.	.	-18.4462	7.5909	0.28021	0.6138:0.0:0.3862:0.0	.	.	.	.	T	56	.	.	I	-	2	0	MUC16	8867370	0.000000	0.05858	0.001000	0.08648	0.002000	0.02628	-2.632000	0.00870	-0.715000	0.04968	-2.373000	0.00235	ATT		0.522	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		G	9006370	A	G	9006370	2	3	666	1	0	0	0	0	0	0	0	1	9980	108	4	3		3	MUC16	19	9006370	Silent	SNP	A	TCGA-KN-8430-01A-11D-2310-10	4286489	9006370	50122613	99	42597										
MUC16	94025	broad.mit.edu	37	chr19	9049341	9049341	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ggtgactaatgaggctatcgTctttggttcaccaggagaaa	12	7	2	3			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr19:9049341T>C	ENST00000397910.4	-	5	32493	c.32290A>G	c.(32290-32292)Acg>Gcg	p.T10764A		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	10766	Thr-rich.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						GAGGCTATCGTCTTTGGTTCA	0.478																																																0													139	128	131					19																	9049341		1936	4138	6074	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.32290A>G	19.37:g.9049341T>C	ENSP00000381008:p.Thr10764Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	t	6.017	0.371456	0.11409	.	.	ENSG00000181143	ENST00000397910	T	0.02301	4.35	2.66	1.62	0.23740	.	.	.	.	.	T	0.02610	0.0079	L	0.34521	1.04	.	.	.	B	0.30068	0.267	B	0.37304	0.246	T	0.29852	-0.9998	8	0.87932	D	0	.	4.5679	0.12196	0.0:0.157:0.0:0.843	.	10764	B5ME49	.	A	10764	ENSP00000381008:T10764A	ENSP00000381008:T10764A	T	-	1	0	MUC16	8910341	0.001000	0.12720	0.000000	0.03702	0.009000	0.06853	0.303000	0.19210	0.440000	0.26502	0.388000	0.25769	ACG		0.478	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		C	9049341	T	C	9049341	3	2	666	1	0	0	0	0	1	0	0	0	9980	1667	58	3	11553	3	MUC16	19	9049341	Missense_Mutation	SNP	T	TCGA-KN-8430-01A-11D-2310-10	42971	9049341	50079642	100	42598										
ANKLE1	126549	mdanderson.org	37	chr19	17393015	17393015	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ccaaggcggggaccccaacgCtcggtaagatagagcctggg	15	12	0	2	rs1864116	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr19:17393015C>T	ENST00000394458.3	+	2	488	c.212C>T	c.(211-213)gCt>gTt	p.A71V	CTD-2278I10.6_ENST00000596542.1_3'UTR|ANKLE1_ENST00000404085.1_Missense_Mutation_p.A93V|ANKLE1_ENST00000433424.2_Missense_Mutation_p.A125V|ANKLE1_ENST00000598347.1_Missense_Mutation_p.A71V|ANKLE1_ENST00000594072.1_Missense_Mutation_p.A60V	NM_152363.4	NP_689576	Q8NAG6	ANKL1_HUMAN	ankyrin repeat and LEM domain containing 1	71			A -> V (in dbSNP:rs1864116). {ECO:0000269|PubMed:14702039, ECO:0000269|Ref.1}.							large_intestine(1)|lung(3)|prostate(1)|skin(1)|urinary_tract(1)	7						GACCCCAACGCTCGGTAAGAT	0.741													C|||	3182	0.635383	0.798	0.5533	5008	,	,		8910	0.3125		0.834	False		,,,				2504	0.6022															0								C	VAL/ALA	2161,339		925,311,14	2	2	2		212	0.8	0.5	19	dbSNP_92	2	4508,662		1957,594,34	yes	missense	ANKLE1	NM_152363.4	64	2882,905,48	TT,TC,CC		12.8046,13.56,13.0508	probably-damaging	71/616	17393015	6669,1001	1250	2585	3835	SO:0001583	missense	126549			AK096688	CCDS12354.2, CCDS12354.3	19p13.11	2013-01-10	2008-03-25	2008-03-25	ENSG00000160117	ENSG00000160117		"Ankyrin repeat domain containing"	26812	protein-coding gene	gene with protein product	"LEM domain containing 6"		"ankyrin repeat domain 41"	ANKRD41			Standard	NM_152363		Approved	FLJ39369, LEMD6	uc002nga.2	Q8NAG6	OTTHUMG00000150839	ENST00000394458.3:c.212C>T	19.37:g.17393015C>T	ENSP00000377971:p.Ala71Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8VU82|Q8N8J8	Missense_Mutation	SNP	ENST00000394458.3	37	CCDS12354.2	1399	0.6405677655677655	380	0.7723577235772358	218	0.6022099447513812	164	0.2867132867132867	637	0.8403693931398417	C	16.19	3.054076	0.55218	0.8644	0.871954	ENSG00000160117	ENST00000404261;ENST00000433424;ENST00000404085;ENST00000394458;ENST00000438921	T;T;T	0.67865	-0.29;-0.29;-0.29	4.15	0.796	0.18648	Ankyrin repeat-containing domain (4);	0.432303	0.19437	N	0.114285	T	0.00012	0.0000	N	0.20807	0.61	0.80722	P	0.0	B;B;B	0.15930	0.005;0.015;0.002	B;B;B	0.17722	0.016;0.015;0.019	T	0.27606	-1.0069	9	0.18710	T	0.47	-20.551	6.1339	0.20221	0.0:0.667:0.0:0.333	rs1864116;rs17238816;rs59648740;rs1864116	71;57;71	E7ETZ9;Q8NAG6-1;Q8NAG6	.;.;ANKL1_HUMAN	V	71;125;93;60;71	ENSP00000384753:A71V;ENSP00000394460:A125V;ENSP00000384008:A93V	ENSP00000377971:A60V	A	+	2	0	ANKLE1	17254015	0.002000	0.14202	0.527000	0.27925	0.842000	0.47809	0.606000	0.24194	0.078000	0.16900	0.555000	0.69702	GCT		0.741	ANKLE1-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000325392.2	NM_152363		T	17393015	C	T	17393015	3	4	666	1	0	0	0	0	1	0	0	0	632	797	28	2	218	2	ANKLE1	19	17393015	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10	8343674	17393015	41735968	101	42599										
INSL3	3640	mdanderson.org	37	chr19	17932190	17932190	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gggcccccgcacacgcgcacTagcgcgcgtacgaagtggtg	15	15	0	0	rs1047233	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr19:17932190T>C	ENST00000317306.7	-	1	142	c.126A>G	c.(124-126)ctA>ctG	p.L42L	INSL3_ENST00000379695.5_Silent_p.L42L	NM_005543.3	NP_005534.2	P51460	INSL3_HUMAN	insulin-like 3 (Leydig cell)	42					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cell-cell signaling (GO:0007267)|in utero embryonic development (GO:0001701)|male gonad development (GO:0008584)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|oocyte maturation (GO:0001556)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of cell proliferation (GO:0008284)|spermatogenesis (GO:0007283)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|perinuclear region of cytoplasm (GO:0048471)	insulin receptor binding (GO:0005158)|protease binding (GO:0002020)|receptor binding (GO:0005102)			breast(1)|lung(1)	2						ACACGCGCACTAGCGCGCGTA	0.721													C|||	1288	0.257188	0.3941	0.3127	5008	,	,		12303	0.005		0.4076	False		,,,				2504	0.138															0								C		1224,2548		247,730,909	4	7	6		126	-1.9	1	19	dbSNP_86	6	2298,4938		486,1326,1806	no	coding-synonymous	INSL3	NM_005543.2		733,2056,2715	CC,CT,TT		31.7579,32.4496,31.9949		42/132	17932190	3522,7486	1886	3618	5504	SO:0001819	synonymous_variant	3640				CCDS12365.1, CCDS58655.1	19p13.2-p12	2013-02-26	2003-05-13			ENSG00000248099		"Endogenous ligands"	6086	protein-coding gene	gene with protein product	"prepro-INSL3"	146738	"relaxin-like factor"	RLNL		8020942	Standard	NM_001265587		Approved	RLF, MGC119818, MGC119819	uc010ebf.2	P51460		ENST00000317306.7:c.126A>G	19.37:g.17932190T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ72|G3XAG0|Q3KPI5|Q3KPI6|Q6YNB5|Q9UEA2|Q9UPH6	Silent	SNP	ENST00000317306.7	37	CCDS12365.1																																																																																				0.721	INSL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466836.1	NM_005543		C	17932190	T	C	17932190	2	2	666	1	0	0	0	0	0	0	0	1	7774	1509	53	3		3	INSL3	19	17932190	Silent	SNP	T	TCGA-KN-8430-01A-11D-2310-10	539175	17932190	41196793	102	42600										
TSHZ3	57616	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	31768447	31768447	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ccaggctgttgctcatcttgAaaagcatgctcatggggtcc	11	11	3	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr19:31768447A>G	ENST00000240587.4	-	2	2579	c.2252T>C	c.(2251-2253)tTc>tCc	p.F751S		NM_020856.2	NP_065907.2	Q63HK5	TSH3_HUMAN	teashirt zinc finger homeobox 3	751					in utero embryonic development (GO:0001701)|kidney morphogenesis (GO:0060993)|kidney smooth muscle cell differentiation (GO:0072195)|lung development (GO:0030324)|metanephros development (GO:0001656)|musculoskeletal movement (GO:0050881)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of smooth muscle cell differentiation (GO:0051152)|regulation of respiratory gaseous exchange by neurological system process (GO:0002087)|sensory perception of touch (GO:0050975)|transcription, DNA-templated (GO:0006351)|ureter smooth muscle cell differentiation (GO:0072193)|ureteric bud development (GO:0001657)|ureteric peristalsis (GO:0072105)	growth cone (GO:0030426)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(4)|endometrium(15)|kidney(9)|large_intestine(20)|lung(60)|ovary(4)|pancreas(2)|prostate(4)|skin(5)	123	Esophageal squamous(110;0.226)					GCTCATCTTGAAAAGCATGCT	0.602																																																0													60	62	61					19																	31768447		2203	4300	6503	SO:0001583	missense	57616			AL136805	CCDS12421.2	19q13.11	2013-11-20	2007-07-16	2006-03-14	ENSG00000121297	ENSG00000121297		"Teashirt zinc fingers", "Homeoboxes / ZF class", "Zinc fingers, C2H2-type"	30700	protein-coding gene	gene with protein product	"teashirt 3"	614119	"zinc finger protein 537", "teashirt family zinc finger 3"	ZNF537			Standard	NM_020856		Approved	KIAA1474, TSH3	uc002nsy.4	Q63HK5	OTTHUMG00000150184	ENST00000240587.4:c.2252T>C	19.37:g.31768447A>G	ENSP00000240587:p.Phe751Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H0G6|Q9P254	Missense_Mutation	SNP	ENST00000240587.4	37	CCDS12421.2	.	.	.	.	.	.	.	.	.	.	A	15.59	2.877495	0.51801	.	.	ENSG00000121297	ENST00000240587	T	0.39406	1.08	5.37	5.37	0.77165	.	0.051638	0.85682	D	0.000000	T	0.49643	0.1569	N	0.22421	0.69	0.58432	D	0.999999	D	0.65815	0.995	D	0.72982	0.979	T	0.46582	-0.9181	10	0.33141	T	0.24	-30.3567	15.3715	0.74568	1.0:0.0:0.0:0.0	.	751	Q63HK5	TSH3_HUMAN	S	751	ENSP00000240587:F751S	ENSP00000240587:F751S	F	-	2	0	TSHZ3	36460287	1.000000	0.71417	0.999000	0.59377	0.997000	0.91878	8.930000	0.92872	2.024000	0.59613	0.533000	0.62120	TTC		0.602	TSHZ3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316743.2	NM_020856		G	31768447	A	G	31768447	3	3	666	1	0	0	0	0	1	0	0	0	16637	246	9	3	997	3	TSHZ3	19	31768447	Missense_Mutation	SNP	A	TCGA-KN-8430-01A-11D-2310-10	13836257	31768447	27360536	103	42601										
ZFP30	22835	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	38127148	38127148	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	accttccactgagataagttCatttcataaatatcctttcc	3	11	2	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr19:38127148C>A	ENST00000351218.2	-	6	851	c.294G>T	c.(292-294)atG>atT	p.M98I	ZFP30_ENST00000514101.2_Missense_Mutation_p.M98I|ZFP30_ENST00000392144.1_Missense_Mutation_p.M98I|ZFP30_ENST00000589018.1_Intron	NM_014898.2	NP_055713.1	Q9Y2G7	ZFP30_HUMAN	ZFP30 zinc finger protein	98					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(12)|prostate(1)|soft_tissue(1)|upper_aerodigestive_tract(1)	21			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GAGATAAGTTCATTTCATAAA	0.343																																																0													45	44	44					19																	38127148		2203	4299	6502	SO:0001583	missense	22835			AB023178	CCDS33005.1	19q13.13	2013-01-08	2012-11-27		ENSG00000120784	ENSG00000120784		"Zinc fingers, C2H2-type", "-"	29555	protein-coding gene	gene with protein product			"zinc finger protein 30 homolog (mouse)"			10231032	Standard	NM_014898		Approved	ZNF745, KIAA0961	uc002ogx.1	Q9Y2G7	OTTHUMG00000048177	ENST00000351218.2:c.294G>T	19.37:g.38127148C>A	ENSP00000343581:p.Met98Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q58EY8	Missense_Mutation	SNP	ENST00000351218.2	37	CCDS33005.1	.	.	.	.	.	.	.	.	.	.	C	1.877	-0.458894	0.04508	.	.	ENSG00000120784	ENST00000351218;ENST00000514101;ENST00000392144;ENST00000440715	T;T;T	0.04758	3.56;3.56;3.56	3.82	-2.98	0.05513	.	0.679876	0.12433	N	0.469377	T	0.01320	0.0043	N	0.01493	-0.835	0.22412	N	0.999124	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.45948	-0.9226	10	0.19590	T	0.45	.	2.0782	0.03629	0.2677:0.4359:0.1246:0.1718	.	98;98	D3Y2A0;Q9Y2G7	.;ZFP30_HUMAN	I	98;98;98;97	ENSP00000343581:M98I;ENSP00000422930:M98I;ENSP00000375988:M98I	ENSP00000343581:M98I	M	-	3	0	ZFP30	42818988	0.145000	0.22656	0.979000	0.43373	0.964000	0.63967	-0.420000	0.07062	-0.269000	0.09298	0.561000	0.74099	ATG		0.343	ZFP30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109601.2	NM_014898		A	38127148	C	A	38127148	3	1	666	1	0	0	0	0	1	0	0	0	17656	826	29	4	1269	4	ZFP30	19	38127148	Missense_Mutation	SNP	C	TCGA-KN-8430-01A-11D-2310-10	6358701	38127148	21001835	104	42602										
NR1H2	7376	ucsc.edu	37	chr19	50881825	50881825	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	aagaagaagattcggaaacaGcagcaggagtcacagtcaca	11	8	2	3	rs55817866	byFrequency	TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr19:50881825G>A	ENST00000253727.5	+	6	754	c.519G>A	c.(517-519)caG>caA	p.Q173Q	NR1H2_ENST00000411902.2_Silent_p.Q76Q|NR1H2_ENST00000598168.1_Silent_p.Q173Q|NR1H2_ENST00000542413.1_5'UTR|NR1H2_ENST00000593926.1_Silent_p.Q173Q|NR1H2_ENST00000599105.1_Silent_p.Q173Q	NM_007121.5	NP_009052	P55055	NR1H2_HUMAN	nuclear receptor subfamily 1, group H, member 2	173					cellular lipid metabolic process (GO:0044255)|gene expression (GO:0010467)|negative regulation of cholesterol storage (GO:0010887)|negative regulation of interferon-gamma-mediated signaling pathway (GO:0060336)|negative regulation of lipid transport (GO:0032369)|negative regulation of macrophage derived foam cell differentiation (GO:0010745)|negative regulation of pinocytosis (GO:0048550)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cellular protein metabolic process (GO:0032270)|positive regulation of cholesterol efflux (GO:0010875)|positive regulation of cholesterol transport (GO:0032376)|positive regulation of fatty acid biosynthetic process (GO:0045723)|positive regulation of lipoprotein lipase activity (GO:0051006)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of triglyceride biosynthetic process (GO:0010867)|regulation of cholesterol homeostasis (GO:2000188)|retinoic acid receptor signaling pathway (GO:0048384)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	apolipoprotein A-I receptor binding (GO:0034191)|ATPase binding (GO:0051117)|DNA binding (GO:0003677)|ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific transcription regulatory region DNA binding RNA polymerase II transcription factor recruiting transcription factor activity (GO:0001133)|steroid hormone receptor activity (GO:0003707)|zinc ion binding (GO:0008270)			endometrium(2)|large_intestine(1)|lung(3)|upper_aerodigestive_tract(2)	8		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		TTCGGAAACAGCAGCAGGAGT	0.637																																																0													38	47	44					19																	50881825		2140	4249	6389	SO:0001819	synonymous_variant	7376			U14534	CCDS42593.1, CCDS58673.1	19q13.3	2013-01-16				ENSG00000131408		"Nuclear hormone receptors"	7965	protein-coding gene	gene with protein product	"liver X receptor-beta"	600380	"ubiquitously-expressed nuclear receptor"	UNR		7782080, 7971966	Standard	NM_007121		Approved	NER, NER-I, RIP15, LXR-b	uc010enw.4	P55055		ENST00000253727.5:c.519G>A	19.37:g.50881825G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K490|B4DNM6|E7EWA6|Q12970|Q5I0Y1	Silent	SNP	ENST00000253727.5	37	CCDS42593.1																																																																																				0.637	NR1H2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464724.2			A	50881825	G	A	50881825	2	1	666	1	0	0	0	0	0	0	0	1	10624	962	34	2		2	NR1H2	19	50881825	Silent	SNP	G	TCGA-KN-8430-01A-11D-2310-10	12754677	50881825	8247158	105	42603										
LILRA1	11024	mdanderson.org	37	chr19	55106239	55106239	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gagacccaggagtaccgtctGtatagagaaaagaaaacagc	11	8	1	3			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr19:55106239G>A	ENST00000251372.3	+	4	362	c.180G>A	c.(178-180)ctG>ctA	p.L60L	LILRB1_ENST00000396321.2_Intron|LILRA1_ENST00000453777.1_Silent_p.L60L|LILRB1_ENST00000418536.2_Intron|LILRB1_ENST00000448689.1_Intron|LILRA1_ENST00000473156.1_3'UTR	NM_006863.2	NP_006854.1	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 1	60	Ig-like C2-type 1.				cell surface receptor signaling pathway (GO:0007166)|defense response (GO:0006952)|immune system process (GO:0002376)|regulation of immune response (GO:0050776)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	antigen binding (GO:0003823)|transmembrane signaling receptor activity (GO:0004888)	p.L60L(3)		breast(2)|central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(5)|liver(1)|lung(23)|ovary(1)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)	47				GBM - Glioblastoma multiforme(193;0.0348)		AGTACCGTCTGTATAGAGAAA	0.572																																																3	Substitution - coding silent(3)	kidney(3)											124	119	121					19																	55106239		2203	4300	6503	SO:0001819	synonymous_variant	11024			AF025530	CCDS12901.1, CCDS62802.1	19q13.4	2013-01-11			ENSG00000104974	ENSG00000104974		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6602	protein-coding gene	gene with protein product		604810				9548455	Standard	NM_006863		Approved	LIR-6, CD85i, LIR6	uc002qgh.2	O75019	OTTHUMG00000065701	ENST00000251372.3:c.180G>A	19.37:g.55106239G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O75018|Q3MJA6	Silent	SNP	ENST00000251372.3	37	CCDS12901.1																																																																																				0.572	LILRA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140807.2	NM_006863		A	55106239	G	A	55106239	2	1	666	1	0	0	0	0	0	0	0	1	8791	1364	48	2		2	LILRA1	19	55106239	Silent	SNP	G	TCGA-KN-8430-01A-11D-2310-10	4224414	55106239	4022744	106	42604										
COL20A1	57642	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr20	61926524	61926524	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	gtggctgggcgccaccctggGaagagagcaagttcaaggta	16	9	1	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr20:61926524G>T	ENST00000358894.6	+	2	165	c.65G>T	c.(64-66)gGa>gTa	p.G22V	COL20A1_ENST00000422202.1_Missense_Mutation_p.G22V|COL20A1_ENST00000326996.6_Missense_Mutation_p.G22V|COL20A1_ENST00000435874.1_Missense_Mutation_p.G22V	NM_020882.2	NP_065933.2	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	22					extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)				NS(3)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(21)|ovary(1)|prostate(3)|urinary_tract(2)	36	all_cancers(38;1.39e-10)					GCCACCCTGGGAAGAGAGCAA	0.697																																																0													13	17	16					20																	61926524		1985	4080	6065	SO:0001583	missense	57642			BC043183	CCDS46628.1	20q13.33	2014-02-12			ENSG00000101203	ENSG00000101203		"Collagens", "Fibronectin type III domain containing"	14670	protein-coding gene	gene with protein product						10819331	Standard	NM_020882		Approved	KIAA1510	uc011aau.2	Q9P218	OTTHUMG00000032964	ENST00000358894.6:c.65G>T	20.37:g.61926524G>T	ENSP00000351767:p.Gly22Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VXQ4|Q6PI59|Q8WUT2|Q96CY9|Q9BQU6|Q9BQU7	Missense_Mutation	SNP	ENST00000358894.6	37	CCDS46628.1	.	.	.	.	.	.	.	.	.	.	G	6.546	0.468969	0.12461	.	.	ENSG00000101203	ENST00000358894;ENST00000326996;ENST00000435874;ENST00000422202	D;D;D;D	0.86164	-2.08;-2.05;-1.98;-1.98	2.84	1.79	0.24919	.	0.173457	0.37261	U	0.002171	T	0.74824	0.3767	L	0.28274	0.84	0.09310	N	0.999998	B	0.30068	0.267	B	0.22386	0.039	T	0.63233	-0.6683	10	0.40728	T	0.16	.	7.8695	0.29556	0.0:0.3747:0.6253:0.0	.	22	Q9P218	COKA1_HUMAN	V	22	ENSP00000351767:G22V;ENSP00000323077:G22V;ENSP00000408690:G22V;ENSP00000414753:G22V	ENSP00000323077:G22V	G	+	2	0	COL20A1	61396969	0.281000	0.24258	0.008000	0.14137	0.006000	0.05464	0.941000	0.29005	0.404000	0.25506	0.313000	0.20887	GGA		0.697	COL20A1-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000144595.2	NM_020882		T	61926524	G	T	61926524	3	4	666	1	0	0	0	0	1	0	0	0	3681	1174	41	4	67	4	COL20A1	20	61926524	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10		61926524	1098996	107	42605										
DSCAM	1826	bcgsc.ca	37	chr21	41719789	41719789	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	ggagagttcctggtcctcagTtcctgtcacgctgcaggaca	12	12	2	1			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr21:41719789T>C	ENST00000400454.1	-	6	1495	c.1018A>G	c.(1018-1020)Act>Gct	p.T340A		NM_001271534.1|NM_001389.3	NP_001258463.1|NP_001380.2	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule	340	Ig-like C2-type 4.				cell adhesion (GO:0007155)|dendrite morphogenesis (GO:0048813)|dendrite self-avoidance (GO:0070593)|locomotory behavior (GO:0007626)|negative regulation of cell adhesion (GO:0007162)|nervous system development (GO:0007399)|positive regulation of axon extension involved in axon guidance (GO:0048842)|positive regulation of phosphorylation (GO:0042327)|post-embryonic retina morphogenesis in camera-type eye (GO:0060060)	axon (GO:0030424)|extracellular region (GO:0005576)|growth cone (GO:0030426)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)				NS(2)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(22)|haematopoietic_and_lymphoid_tissue(4)|kidney(6)|large_intestine(22)|lung(47)|ovary(7)|pancreas(2)|prostate(3)|skin(14)|upper_aerodigestive_tract(6)|urinary_tract(4)	142		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TGGTCCTCAGTTCCTGTCACG	0.493																																					Melanoma(134;970 1778 1785 21664 32388)											0													153	139	144					21																	41719789		1948	4154	6102	SO:0001583	missense	1826			AF023449	CCDS42929.1	21q22.2-q22.3	2013-02-11			ENSG00000171587	ENSG00000171587		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	3039	protein-coding gene	gene with protein product		602523				9426258	Standard	NM_001271534		Approved	CHD2-42, CHD2-52	uc002yyq.1	O60469	OTTHUMG00000086732	ENST00000400454.1:c.1018A>G	21.37:g.41719789T>C	ENSP00000383303:p.Thr340Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O60468	Missense_Mutation	SNP	ENST00000400454.1	37	CCDS42929.1	.	.	.	.	.	.	.	.	.	.	T	13.39	2.223647	0.39300	.	.	ENSG00000171587	ENST00000400454;ENST00000404019	T;T	0.66995	-0.24;-0.24	5.58	1.76	0.24704	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.364917	0.31859	N	0.006951	T	0.53562	0.1804	L	0.46157	1.445	0.21822	N	0.999522	B	0.23128	0.08	B	0.28465	0.09	T	0.37596	-0.9699	10	0.20519	T	0.43	.	6.4105	0.21688	0.26:0.0672:0.0:0.6728	.	340	O60469	DSCAM_HUMAN	A	340;92	ENSP00000383303:T340A;ENSP00000385342:T92A	ENSP00000383303:T340A	T	-	1	0	DSCAM	40641659	1.000000	0.71417	0.800000	0.32199	0.977000	0.68977	2.985000	0.49362	0.045000	0.15804	-0.438000	0.05819	ACT		0.493	DSCAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195029.1	NM_001389		C	41719789	T	C	41719789	3	2	666	1	0	0	0	0	1	0	0	0	4770	1725	60	3	5132	3	DSCAM	21	41719789	Missense_Mutation	SNP	T	TCGA-KN-8430-01A-11D-2310-10		41719789	6410106	108	42606										
KRTAP10-5	386680	broad.mit.edu	37	chr21	46000294	46000294	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	caggggctgggctcacaggcCgcctggcagcaggggctgga	19	12	1	0	rs201287112		TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr21:46000294C>T	ENST00000400372.1	-	1	187	c.162G>A	c.(160-162)gcG>gcA	p.A54A	TSPEAR_ENST00000323084.4_Intron	NM_198694.2	NP_941967.2	P60370	KR105_HUMAN	keratin associated protein 10-5	54	22 X 5 AA repeats of C-C-X(3).					keratin filament (GO:0045095)				endometrium(2)|kidney(1)|lung(9)|prostate(1)|upper_aerodigestive_tract(1)	14						GCTCACAGGCCGCCTGGCAGC	0.716													.|||	1	0.000199681	0.0008	0.0	5008	,	,		17574	0.0		0.0	False		,,,				2504	0.0															0													30	36	34					21																	46000294		2190	4281	6471	SO:0001819	synonymous_variant	386680			AJ566384	CCDS42958.1	21q22.3	2007-10-05			ENSG00000241123	ENSG00000241123		"Keratin associated proteins"	22969	protein-coding gene	gene with protein product				KRTAP18-5			Standard	NM_198694		Approved	KAP10.5, KAP18.5	uc002zfl.1	P60370	OTTHUMG00000057638	ENST00000400372.1:c.162G>A	21.37:g.46000294C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAR7|Q0VAR8|Q70LJ3	Silent	SNP	ENST00000400372.1	37	CCDS42958.1																																																																																				0.716	KRTAP10-5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128042.1			T	46000294	C	T	46000294	2	4	666	1	0	0	0	0	0	0	0	1	8519	639	23	1		1	KRTAP10-5	21	46000294	Silent	SNP	C	TCGA-KN-8430-01A-11D-2310-10	4280505	46000294	2129601	109	42607										
CLTCL1	8218	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	19175230	19175230	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tgtcataggcatcgatagatGcccttaagccctaggaagac	10	10	1	2			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr22:19175230G>A	ENST00000263200.10	-	29	4517	c.4445C>T	c.(4444-4446)gCa>gTa	p.A1482V	CLTCL1_ENST00000427926.1_Missense_Mutation_p.A1482V|CLTCL1_ENST00000442042.2_Intron|CLTCL1_ENST00000353891.5_Intron	NM_007098.3	NP_009029.3	P53675	CLH2_HUMAN	clathrin, heavy chain-like 1	1482	Heavy chain arm.|Involved in binding clathrin light chain. {ECO:0000250}.|Proximal segment.				anatomical structure morphogenesis (GO:0009653)|intracellular protein transport (GO:0006886)|mitotic nuclear division (GO:0007067)|positive regulation of glucose import (GO:0046326)|receptor-mediated endocytosis (GO:0006898)|signal transduction (GO:0007165)	clathrin coat of coated pit (GO:0030132)|clathrin coat of trans-Golgi network vesicle (GO:0030130)|clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|coated vesicle (GO:0030135)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|spindle (GO:0005819)|trans-Golgi network (GO:0005802)	signal transducer activity (GO:0004871)|structural molecule activity (GO:0005198)			breast(2)|central_nervous_system(3)|cervix(2)|endometrium(9)|kidney(3)|large_intestine(11)|lung(9)|ovary(5)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	49	Colorectal(54;0.0993)					ATCGATAGATGCCCTTAAGCC	0.522			T	?	ALCL																																		Dom	yes		22	22q11.21	8218	"clathrin, heavy polypeptide-like 1"		L	0													55	56	56					22																	19175230		2041	4191	6232	SO:0001583	missense	8218				CCDS46662.1, CCDS54497.1, CCDS46662.2, CCDS54497.2	22q11.2	2008-06-10	2006-09-29		ENSG00000070371	ENSG00000070371			2093	protein-coding gene	gene with protein product		601273	"clathrin, heavy polypeptide-like 1"	CLTCL		8844170, 15133132	Standard	NM_007098		Approved	CLTD, CLH22, CHC22	uc021wle.1	P53675	OTTHUMG00000150109	ENST00000263200.10:c.4445C>T	22.37:g.19175230G>A	ENSP00000445677:p.Ala1482Val	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7U5|Q14017|Q15808|Q15809	Missense_Mutation	SNP	ENST00000263200.10	37	CCDS46662.1	.	.	.	.	.	.	.	.	.	.	G	13.10	2.136704	0.37728	.	.	ENSG00000070371	ENST00000263200;ENST00000427926	T;T	0.22539	1.95;1.95	3.97	3.97	0.46021	Tetratricopeptide-like helical (1);Armadillo-type fold (1);	0.213152	0.39146	N	0.001446	T	0.21841	0.0526	L	0.45581	1.43	0.54753	D	0.999989	B	0.14805	0.011	B	0.18871	0.023	T	0.05257	-1.0896	10	0.41790	T	0.15	-1.1575	16.2212	0.82258	0.0:0.0:1.0:0.0	.	1482	P53675	CLH2_HUMAN	V	1482	ENSP00000445677:A1482V;ENSP00000441158:A1482V	ENSP00000445677:A1482V	A	-	2	0	CLTCL1	17555230	1.000000	0.71417	0.626000	0.29213	0.216000	0.24613	4.814000	0.62627	2.043000	0.60533	0.650000	0.86243	GCA		0.522	CLTCL1-001	KNOWN	non_canonical_genome_sequence_error|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316397.5	NM_007098		A	19175230	G	A	19175230	3	1	666	1	0	0	0	0	1	0	0	0	3569	1319	46	2	493	2	CLTCL1	22	19175230	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10		19175230	32129336	110	42608										
KREMEN1	83999	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	29517360	29517360	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tttagtgcctggaaaccttgGctgctacaaggatcatggaa	11	8	1	0			TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chr22:29517360G>T	ENST00000407188.1	+	4	362	c.362G>T	c.(361-363)gGc>gTc	p.G121V	KREMEN1_ENST00000327813.5_Missense_Mutation_p.G123V|KREMEN1_ENST00000400335.4_Missense_Mutation_p.G123V|KREMEN1_ENST00000400338.2_Missense_Mutation_p.G123V			Q96MU8	KREM1_HUMAN	kringle containing transmembrane protein 1	121	WSC. {ECO:0000255|PROSITE- ProRule:PRU00558}.				cell communication (GO:0007154)|regulation of canonical Wnt signaling pathway (GO:0060828)|Wnt signaling pathway (GO:0016055)	integral component of membrane (GO:0016021)|membrane (GO:0016020)				breast(1)|endometrium(3)|large_intestine(2)|lung(8)|ovary(3)|prostate(1)|upper_aerodigestive_tract(2)	20						GGAAACCTTGGCTGCTACAAG	0.428																																																0													93	94	94					22																	29517360		2109	4236	6345	SO:0001583	missense	83999			AB059618	CCDS43000.1, CCDS13849.1, CCDS43000.2	22q12.1	2008-03-27	2002-11-13	2002-11-15	ENSG00000183762	ENSG00000183762			17550	protein-coding gene	gene with protein product		609898	"kringle containing transmembrane protein"	KREMEN		11267660	Standard	NM_001039570		Approved	KRM1	uc011akm.1	Q96MU8	OTTHUMG00000030987	ENST00000407188.1:c.362G>T	22.37:g.29517360G>T	ENSP00000385431:p.Gly121Val	Somatic		WXS	Illumina HiSeq	Phase_I	B0QY46|B0QY47|B1AJR5|Q5TIB9|Q6P3X6|Q9BY70|Q9UGS5|Q9UGU1	Missense_Mutation	SNP	ENST00000407188.1	37	CCDS43000.2	.	.	.	.	.	.	.	.	.	.	G	22.9	4.350252	0.82132	.	.	ENSG00000183762	ENST00000400335;ENST00000400338;ENST00000327813;ENST00000407188	T;T;T;T	0.67345	-0.26;-0.26;-0.26;-0.26	5.14	5.14	0.70334	Carbohydrate-binding WSC (2);Kringle-like fold (1);	0.000000	0.64402	D	0.000006	D	0.88247	0.6385	H	0.97516	4.02	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;0.999	D	0.91893	0.5525	10	0.62326	D	0.03	.	16.4852	0.84182	0.0:0.0:1.0:0.0	.	121;123;123	Q96MU8;Q96MU8-2;Q96MU8-3	KREM1_HUMAN;.;.	V	123;123;123;121	ENSP00000383189:G123V;ENSP00000383192:G123V;ENSP00000331242:G123V;ENSP00000385431:G121V	ENSP00000331242:G123V	G	+	2	0	KREMEN1	27847360	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	9.201000	0.95017	2.566000	0.86566	0.563000	0.77884	GGC		0.428	KREMEN1-004	KNOWN	non_canonical_TEC|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320947.1			T	29517360	G	T	29517360	3	4	666	1	0	0	0	0	1	0	0	0	8449	1203	42	4	382	4	KREMEN1	22	29517360	Missense_Mutation	SNP	G	TCGA-KN-8430-01A-11D-2310-10	10342130	29517360	21787206	111	42609										
USP9Y	8287	broad.mit.edu	37	chrY	14888667	14888667	+	Frame_Shift_Del	DEL	A	A	-													0.0648148148148148	7	1	1.22810203199308	2.81962201222902	0.509351073176855	0.361455108359133	1	0	tgtgtgtttttgatggtgacAaaaacagcattaattgtgca							TCGA-KN-8430-01A-11D-2310-10	TCGA-KN-8430-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	70fd4434-02c9-4016-bb89-86bec4317489	0e26ad23-4697-4346-bb99-8cddd8d612c7	g.chrY:14888667delA	ENST00000338981.3	+	19	3457	c.2512delA	c.(2512-2514)aaafs	p.K838fs	USP9Y_ENST00000426564.2_3'UTR	NM_004654.3	NP_004645.2	O00507	USP9Y_HUMAN	ubiquitin specific peptidase 9, Y-linked	838					BMP signaling pathway (GO:0030509)|protein deubiquitination (GO:0016579)|spermatogenesis (GO:0007283)|transforming growth factor beta receptor signaling pathway (GO:0007179)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)	co-SMAD binding (GO:0070410)|cysteine-type peptidase activity (GO:0008234)|ubiquitin-specific protease activity (GO:0004843)			kidney(1)|large_intestine(8)|lung(5)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	17						TGATGGTGACAAAAACAGCAT	0.328																																																0																																										SO:0001589	frameshift_variant	8287			Y13618	CCDS14781.1	Yq11.2	2010-04-09	2009-03-17		ENSG00000114374	ENSG00000114374		"Ubiquitin-specific peptidases"	12633	protein-coding gene	gene with protein product	"fat facets-like homolog (Drosophila)"	400005	"ubiquitin specific peptidase 9, Y-linked (fat facets-like, Drosophila)"			8922996, 9384609, 19246359	Standard	NM_004654		Approved	DFFRY	uc004fst.1	O00507	OTTHUMG00000036469	ENST00000338981.3:c.2512delA	Y.37:g.14888667delA	ENSP00000342812:p.Lys838fs	Somatic		WXS	Illumina HiSeq	Phase_I	O14601	Frame_Shift_Del	DEL	ENST00000338981.3	37	CCDS14781.1																																																																																				0.328	USP9Y-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088703.2	NM_004654		-	14888667	A	-	14888667	7	5	666	1	0	1	0	1	0	0	0	0	17103	131	5	0	2578	0	USP9Y	24	14888667	Frame_Shift_Del	DEL	A	TCGA-KN-8430-01A-11D-2310-10		14888667	44484899	112	42610										
CLCNKB	1188	broad.mit.edu	37	chr1	16383402	16383402	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	aacctgacaaatccgccagcCccaaagtgagccggcccagc	9	17	0	2	rs6698427		TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr1:16383402C>T	ENST00000375679.4	+	20	2166	c.2055C>T	c.(2053-2055)gcC>gcT	p.A685A	CLCNKB_ENST00000375667.3_Silent_p.A515A|FAM131C_ENST00000494078.1_5'Flank	NM_000085.4	NP_000076.2	P51801	CLCKB_HUMAN	chloride channel, voltage-sensitive Kb	685					excretion (GO:0007588)|ion transmembrane transport (GO:0034220)|regulation of anion transport (GO:0044070)|transmembrane transport (GO:0055085)|transport (GO:0006810)	chloride channel complex (GO:0034707)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	adenyl nucleotide binding (GO:0030554)|metal ion binding (GO:0046872)|voltage-gated chloride channel activity (GO:0005247)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|ovary(2)|prostate(1)|skin(6)|stomach(2)|urinary_tract(1)	21		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)		ATCCGCCAGCCCCAAAGTGAG	0.587																																																0													66	64	65					1																	16383402		2203	4300	6503	SO:0001819	synonymous_variant	1188			AK098217	CCDS168.1, CCDS57974.1	1p36	2012-09-26	2012-02-23		ENSG00000184908	ENSG00000184908		"Ion channels / Chloride channels : Voltage-sensitive"	2027	protein-coding gene	gene with protein product		602023	"chloride channel Kb"				Standard	NM_000085		Approved	hClC-Kb		P51801	OTTHUMG00000009530	ENST00000375679.4:c.2055C>T	1.37:g.16383402C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KUY3|Q5T5Q7|Q5T5Q8	Silent	SNP	ENST00000375679.4	37	CCDS168.1																																																																																				0.587	CLCNKB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026331.1	NM_000085		T	16383402	C	T	16383402	2	4	667	1	0	0	0	0	0	0	0	1	3472	610	22	2		2	CLCNKB	1	16383402	Silent	SNP	C	TCGA-KN-8431-01A-11D-2310-10		16383402	232867219	1	42611										
USP48	84196	mdanderson.org	37	chr1	22109370	22109370	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	atgcggtaagcggtctcgatGtgctcctgcgacacctcctc	11	14	1	0	rs10917042	byFrequency	TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr1:22109370G>A	ENST00000308271.9	-	1	729	c.81C>T	c.(79-81)caC>caT	p.H27H	USP48_ENST00000400301.1_Silent_p.H27H|USP48_ENST00000421625.2_Silent_p.H27H|USP48_ENST00000529637.1_Silent_p.H27H	NM_032236.5	NP_115612.4	Q86UV5	UBP48_HUMAN	ubiquitin specific peptidase 48	27					ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	ubiquitin-specific protease activity (GO:0004843)			NS(1)|endometrium(6)|kidney(2)|large_intestine(11)|lung(14)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	42		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		CGGTCTCGATGTGCTCCTGCG	0.736													G|||	1411	0.281749	0.028	0.5274	5008	,	,		12624	0.5893		0.2197	False		,,,				2504	0.1973															0								G	,	275,4053		11,253,1900	18	16	17		81,81	0.8	1	1	dbSNP_120	17	1858,6642		203,1452,2595	no	coding-synonymous,coding-synonymous	USP48	NM_001032730.1,NM_032236.5	,	214,1705,4495	AA,AG,GG		21.8588,6.354,16.6277	,	27/486,27/1036	22109370	2133,10695	2164	4250	6414	SO:0001819	synonymous_variant	84196			AF502942	CCDS30623.1, CCDS44084.1	1p36.12	2008-02-05	2005-08-08	2004-04-07	ENSG00000090686	ENSG00000090686		"Ubiquitin-specific peptidases"	18533	protein-coding gene	gene with protein product			"ubiquitin specific protease 31", "ubiquitin specific protease 48"	USP31		12838346	Standard	XM_005246009		Approved	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879	uc001bfb.3	Q86UV5	OTTHUMG00000007798	ENST00000308271.9:c.81C>T	1.37:g.22109370G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKS7|Q2M3I4|Q5SZI4|Q5T3T5|Q6NX53|Q8N3F6|Q96F64|Q96IQ3|Q9H5N3|Q9H5T7|Q9NUJ6|Q9NXR0	Silent	SNP	ENST00000308271.9	37	CCDS30623.1																																																																																				0.736	USP48-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000021372.1	NM_032236		A	22109370	G	A	22109370	2	1	667	1	0	0	0	0	0	0	0	1	17091	1368	48	2		2	USP48	1	22109370	Silent	SNP	G	TCGA-KN-8431-01A-11D-2310-10	5725968	22109370	227141251	2	42612										
C1orf213	80818	broad.mit.edu;hgsc.bcm.edu	37	chr1	23696027	23696028	+	5'Flank	INS	-	-	T													0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	tagatctcgaattcgtagacINSttgcaggcgaagcccagata					rs372720347|rs147377149		TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr1:23696027_23696028insT	ENST00000314011.4	-	0	0				C1orf213_ENST00000454117.1_Intron|C1orf213_ENST00000458053.1_Intron|C1orf213_ENST00000518821.1_Intron|C1orf213_ENST00000335648.3_Frame_Shift_Ins_p.L80fs|Y_RNA_ENST00000364535.1_RNA|ZNF436_ENST00000374608.3_5'Flank|C1orf213_ENST00000437367.2_Intron	NM_001077195.1	NP_001070663.1	Q9C0F3	ZN436_HUMAN	zinc finger protein 436						regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(2)|lung(8)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	19		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;5.97e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000977)|KIRC - Kidney renal clear cell carcinoma(1967;0.00336)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		AATTCGTAGACTTGCAGGCGAA	0.564																																																0																																										SO:0001631	upstream_gene_variant	148898			AB051497	CCDS233.1	1p36	2013-01-08			ENSG00000125945	ENSG00000125945		"Zinc fingers, C2H2-type", "-"	20814	protein-coding gene	gene with protein product		611703				11214970	Standard	NM_001077195		Approved	KIAA1710, Zfp46	uc001bgt.3	Q9C0F3	OTTHUMG00000003232		1.37:g.23696029_23696029dupT	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	Q658I9	RNA	INS	ENST00000314011.4	37	CCDS233.1																																																																																				0.564	ZNF436-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008908.1	NM_030634		T	23696028	-	T	23696027	6	5	667	0	1	1	1	0	0	0	0	0	2032	564	20	0		0	C1orf213	1	23696027	5'Flank	INS	-	TCGA-KN-8431-01A-11D-2310-10	1586657	23696027	225554594	3	42613	407	2								
C1orf213	80818	bcgsc.ca	37	chr1	23696028	23696029	+	5'Flank	INS	-	-	T													0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	agatctcgaattcgtagactINStgcaggcgaagcccagatat					rs147377149		TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr1:23696028_23696029insT	ENST00000314011.4	-	0	0				C1orf213_ENST00000454117.1_Intron|C1orf213_ENST00000458053.1_Intron|C1orf213_ENST00000518821.1_Intron|C1orf213_ENST00000335648.3_Frame_Shift_Ins_p.L80fs|Y_RNA_ENST00000364535.1_RNA|ZNF436_ENST00000374608.3_5'Flank|C1orf213_ENST00000437367.2_Intron	NM_001077195.1	NP_001070663.1	Q9C0F3	ZN436_HUMAN	zinc finger protein 436						regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(2)|lung(8)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	19		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.44e-26)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;5.97e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000977)|KIRC - Kidney renal clear cell carcinoma(1967;0.00336)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		ATTCGTAGACTTGCAGGCGAAG	0.569																																																0																																										SO:0001631	upstream_gene_variant	148898			AB051497	CCDS233.1	1p36	2013-01-08			ENSG00000125945	ENSG00000125945		"Zinc fingers, C2H2-type", "-"	20814	protein-coding gene	gene with protein product		611703				11214970	Standard	NM_001077195		Approved	KIAA1710, Zfp46	uc001bgt.3	Q9C0F3	OTTHUMG00000003232		1.37:g.23696029_23696029dupT	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	Q658I9	RNA	INS	ENST00000314011.4	37	CCDS233.1																																																																																				0.569	ZNF436-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008908.1	NM_030634		T	23696029	-	T	23696028	6	5	667	0	1	1	1	0	0	0	0	0	2032	1606	56	0		0	C1orf213	1	23696028	5'Flank	INS	-	TCGA-KN-8431-01A-11D-2310-10	1	23696028	225554593	4	42614	407	2								
OR2T33	391195	mdanderson.org	37	chr1	248436932	248436932	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	tgtccatgagggaaagttggCtcaggaggaagtacatgggc	16	6	1	1	rs200639224		TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr1:248436932C>T	ENST00000318021.2	-	1	206	c.185G>A	c.(184-186)aGc>aAc	p.S62N		NM_001004695.1	NP_001004695.1	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T, member 33	62						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(2)|breast(1)|endometrium(6)|kidney(1)|large_intestine(10)|lung(41)|ovary(1)|prostate(1)|skin(4)	67	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)			GGAAAGTTGGCTCAGGAGGAA	0.542																																																0								C	ASN/SER	2,4402		0,2,2200	83	75	78		185	2.7	1	1		78	0,8600		0,0,4300	no	missense	OR2T33	NM_001004695.1	46	0,2,6500	TT,TC,CC		0.0,0.0454,0.0154	probably-damaging	62/321	248436932	2,13002	2202	4300	6502	SO:0001583	missense	391195				CCDS31109.1	1q44	2012-08-09			ENSG00000177212	ENSG00000177212		"GPCR / Class A : Olfactory receptors"	31255	protein-coding gene	gene with protein product							Standard	NM_001004695		Approved		uc010pzi.2	Q8NG76	OTTHUMG00000040458	ENST00000318021.2:c.185G>A	1.37:g.248436932C>T	ENSP00000324687:p.Ser62Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNN0	Missense_Mutation	SNP	ENST00000318021.2	37	CCDS31109.1	18	0.008241758241758242	18	0.036585365853658534	0	0.0	0	0.0	0	0.0	-	10.52	1.373951	0.24857	4.54E-4	0.0	ENSG00000177212	ENST00000318021	T	0.00402	7.56	2.7	2.7	0.31948	GPCR, rhodopsin-like superfamily (1);	0.175206	0.27384	U	0.019616	T	0.00144	0.0004	M	0.88570	2.965	0.09310	N	1	B	0.20368	0.044	B	0.23716	0.048	T	0.50583	-0.8811	10	0.72032	D	0.01	.	2.1724	0.03853	0.1962:0.4885:0.1919:0.1235	.	62	Q8NG76	O2T33_HUMAN	N	62	ENSP00000324687:S62N	ENSP00000324687:S62N	S	-	2	0	OR2T33	246503555	0.000000	0.05858	0.974000	0.42286	0.950000	0.60333	-1.519000	0.02243	1.437000	0.47472	0.494000	0.49563	AGC		0.542	OR2T33-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097354.1	NM_001004695		T	248436932	C	T	248436932	3	4	667	1	0	0	0	0	1	0	0	0	11031	797	28	2	780	2	OR2T33	1	248436932	Missense_Mutation	SNP	C	TCGA-KN-8431-01A-11D-2310-10	224740904	248436932	813689	5	42615										
HADHB	3032	broad.mit.edu;bcgsc.ca	37	chr2	26502036	26502036	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	ctgagttctccaccagtgagAccatgggccactctgcagac	10	14	2	3			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr2:26502036A>G	ENST00000317799.5	+	9	768	c.664A>G	c.(664-666)Acc>Gcc	p.T222A	HADHB_ENST00000405867.3_Intron|HADHB_ENST00000545822.1_Missense_Mutation_p.T200A|HADHB_ENST00000537713.1_Missense_Mutation_p.T207A|HADHB_ENST00000494615.1_3'UTR	NM_000183.2	NP_000174.1	P55084	ECHB_HUMAN	hydroxyacyl-CoA dehydrogenase/3-ketoacyl-CoA thiolase/enoyl-CoA hydratase (trifunctional protein), beta subunit	222					cardiolipin acyl-chain remodeling (GO:0035965)|cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation (GO:0006635)|glycerophospholipid biosynthetic process (GO:0046474)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|mitochondrial envelope (GO:0005740)|mitochondrial fatty acid beta-oxidation multienzyme complex (GO:0016507)|mitochondrial inner membrane (GO:0005743)|mitochondrial nucleoid (GO:0042645)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)	3-hydroxyacyl-CoA dehydrogenase activity (GO:0003857)|acetyl-CoA C-acyltransferase activity (GO:0003988)|enoyl-CoA hydratase activity (GO:0004300)|fatty-acyl-CoA binding (GO:0000062)|long-chain-3-hydroxyacyl-CoA dehydrogenase activity (GO:0016509)|long-chain-enoyl-CoA hydratase activity (GO:0016508)|NAD binding (GO:0051287)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(7)|ovary(1)|prostate(1)|skin(1)	19	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CACCAGTGAGACCATGGGCCA	0.537																																																0													101	97	98					2																	26502036		2203	4300	6503	SO:0001583	missense	3032				CCDS1722.1, CCDS62871.1, CCDS62872.1	2p23	2010-04-30	2010-04-30		ENSG00000138029	ENSG00000138029	2.3.1.16		4803	protein-coding gene	gene with protein product	"mitochondrial trifunctional protein, beta subunit"	143450	"hydroxyacyl-Coenzyme A dehydrogenase/3-ketoacyl-Coenzyme A thiolase/enoyl-Coenzyme A hydratase (trifunctional protein), beta subunit"			9605857	Standard	NM_000183		Approved	MTPB	uc002rgz.3	P55084	OTTHUMG00000096978	ENST00000317799.5:c.664A>G	2.37:g.26502036A>G	ENSP00000325136:p.Thr222Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RB16|B4E2W0|O14969|Q53TA6|Q96C77|Q9H3F5|Q9T2V8	Missense_Mutation	SNP	ENST00000317799.5	37	CCDS1722.1	.	.	.	.	.	.	.	.	.	.	A	19.07	3.756867	0.69648	.	.	ENSG00000138029	ENST00000317799;ENST00000537713;ENST00000545822	D;D;D	0.87103	-2.21;-2.21;-2.21	5.69	5.69	0.88448	Thiolase-like, subgroup (1);Thiolase, N-terminal (1);Thiolase-like (1);	0.090399	0.85682	D	0.000000	D	0.86973	0.6062	L	0.52364	1.645	0.80722	D	1	P;B;P	0.42692	0.747;0.287;0.787	B;B;P	0.45712	0.358;0.411;0.491	D	0.87747	0.2589	10	0.56958	D	0.05	-23.2145	15.0712	0.72040	1.0:0.0:0.0:0.0	.	207;200;222	F5GZQ3;B4E2W0;P55084	.;.;ECHB_HUMAN	A	222;207;200	ENSP00000325136:T222A;ENSP00000444295:T207A;ENSP00000442665:T200A	ENSP00000325136:T222A	T	+	1	0	HADHB	26355540	1.000000	0.71417	1.000000	0.80357	0.950000	0.60333	7.044000	0.76578	2.291000	0.77112	0.533000	0.62120	ACC		0.537	HADHB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214050.2	NM_000183		G	26502036	A	G	26502036	3	3	667	1	0	0	0	0	1	0	0	0	6951	275	10	3	694	3	HADHB	2	26502036	Missense_Mutation	SNP	A	TCGA-KN-8431-01A-11D-2310-10		26502036	216697337	6	42616										
NDUFS1	4719	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	207008833	207008833	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	ttggctcggtaagtctttgaCgttttagcccatcataggca	10	9	2	1	rs137994727		TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr2:207008833C>G	ENST00000233190.6	-	10	1162	c.896G>C	c.(895-897)cGt>cCt	p.R299P	NDUFS1_ENST00000432169.1_Missense_Mutation_p.R188P|NDUFS1_ENST00000449699.1_Missense_Mutation_p.R299P|NDUFS1_ENST00000455934.2_Missense_Mutation_p.R313P|NDUFS1_ENST00000457011.1_Missense_Mutation_p.R183P|NDUFS1_ENST00000440274.1_Missense_Mutation_p.R263P|NDUFS1_ENST00000423725.1_Missense_Mutation_p.R242P	NM_005006.6	NP_004997.4	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1, 75kDa (NADH-coenzyme Q reductase)	299	4Fe-4S Mo/W bis-MGD-type. {ECO:0000255|PROSITE-ProRule:PRU01004}.				apoptotic mitochondrial changes (GO:0008637)|ATP metabolic process (GO:0046034)|cellular metabolic process (GO:0044237)|cellular respiration (GO:0045333)|mitochondrial electron transport, NADH to ubiquinone (GO:0006120)|reactive oxygen species metabolic process (GO:0072593)|regulation of mitochondrial membrane potential (GO:0051881)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)	mitochondrial inner membrane (GO:0005743)|mitochondrial intermembrane space (GO:0005758)|mitochondrial respiratory chain complex I (GO:0005747)	2 iron, 2 sulfur cluster binding (GO:0051537)|4 iron, 4 sulfur cluster binding (GO:0051539)|electron carrier activity (GO:0009055)|metal ion binding (GO:0046872)|NADH dehydrogenase (ubiquinone) activity (GO:0008137)			breast(1)|central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(7)|lung(15)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	38						AAGTCTTTGACGTTTTAGCCC	0.368																																																0													101	98	99					2																	207008833		2203	4300	6503	SO:0001583	missense	4719				CCDS2366.1, CCDS56162.1, CCDS56163.1, CCDS56164.1, CCDS56165.1	2q33-q34	2011-07-04	2002-08-29		ENSG00000023228	ENSG00000023228	1.6.5.3	"Mitochondrial respiratory chain complex / Complex I"	7707	protein-coding gene	gene with protein product	"complex I 75kDa subunit", "NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial"	157655	"NADH dehydrogenase (ubiquinone) Fe-S protein 1 (75kD) (NADH-coenzyme Q reductase)"			1935949	Standard	NM_005006		Approved	CI-75k	uc010ziq.2	P28331	OTTHUMG00000132892	ENST00000233190.6:c.896G>C	2.37:g.207008833C>G	ENSP00000233190:p.Arg299Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DIN9|B4DJA0|B4DPG1|B4DUC1|E7ENF3|Q53TR8|Q8N1C4|Q8TCC9	Missense_Mutation	SNP	ENST00000233190.6	37	CCDS2366.1	.	.	.	.	.	.	.	.	.	.	C	22.1	4.241323	0.79912	.	.	ENSG00000023228	ENST00000233190;ENST00000423725;ENST00000457011;ENST00000440274;ENST00000455934;ENST00000449699;ENST00000432169	D;D;D;D;D;D;D	0.81821	-1.54;-1.54;-1.54;-1.54;-1.54;-1.54;-1.54	5.87	4.04	0.47022	.	0.093926	0.64402	D	0.000001	D	0.90130	0.6916	M	0.89214	3.015	0.80722	D	1	P;D;D;D	0.89917	0.819;1.0;1.0;1.0	B;D;D;D	0.83275	0.19;0.996;0.996;0.993	D	0.90265	0.4303	10	0.59425	D	0.04	-23.6636	11.7113	0.51626	0.0:0.8093:0.1241:0.0665	.	188;263;313;299	B4DPG1;E7ENF3;B4DJA0;P28331	.;.;.;NDUS1_HUMAN	P	299;242;183;263;313;299;188	ENSP00000233190:R299P;ENSP00000397760:R242P;ENSP00000400976:R183P;ENSP00000409766:R263P;ENSP00000392709:R313P;ENSP00000399912:R299P;ENSP00000409689:R188P	ENSP00000233190:R299P	R	-	2	0	NDUFS1	206717078	1.000000	0.71417	0.998000	0.56505	0.995000	0.86356	7.744000	0.85034	0.801000	0.34066	0.591000	0.81541	CGT		0.368	NDUFS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256391.4	NM_005006		G	207008833	C	G	207008833	3	3	667	1	0	0	0	0	1	0	0	0	10298	536	19	4	1327	4	NDUFS1	2	207008833	Missense_Mutation	SNP	C	TCGA-KN-8431-01A-11D-2310-10	180506797	207008833	36190540	7	42617										
GPD1L	23171	broad.mit.edu	37	chr3	32169635	32169643	+	In_Frame_Del	DEL	AAGATGTGG	AAGATGTGG	-													0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	agaaatttgcctccacagtcAagatgtgggtctttgaagaa							TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	AAGATGTGG	AAGATGTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr3:32169635_32169643delAAGATGTGG	ENST00000282541.5	+	2	316_324	c.115_123delAAGATGTGG	c.(115-123)aagatgtggdel	p.KMW39del		NM_015141.3	NP_055956.1	Q8N335	GPD1L_HUMAN	glycerol-3-phosphate dehydrogenase 1-like	39					carbohydrate metabolic process (GO:0005975)|cellular lipid metabolic process (GO:0044255)|glycerol-3-phosphate catabolic process (GO:0046168)|glycerophospholipid biosynthetic process (GO:0046474)|NAD metabolic process (GO:0019674)|NADH metabolic process (GO:0006734)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|negative regulation of protein kinase C signaling (GO:0090038)|phosphatidic acid biosynthetic process (GO:0006654)|phospholipid metabolic process (GO:0006644)|positive regulation of protein localization to cell surface (GO:2000010)|positive regulation of sodium ion transport (GO:0010765)|regulation of heart rate (GO:0002027)|regulation of sodium ion transmembrane transporter activity (GO:2000649)|regulation of ventricular cardiac muscle cell membrane depolarization (GO:0060373)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)|ventricular cardiac muscle cell action potential (GO:0086005)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|glycerol-3-phosphate dehydrogenase complex (GO:0009331)|plasma membrane (GO:0005886)	glycerol-3-phosphate dehydrogenase [NAD+] activity (GO:0004367)|ion channel binding (GO:0044325)|NAD binding (GO:0051287)|sodium channel regulator activity (GO:0017080)			large_intestine(4)|lung(7)|ovary(1)	12						CTCCACAGTCAAGATGTGGGTCTTTGAAG	0.354																																																0																																										SO:0001651	inframe_deletion	23171			D42047	CCDS33729.1	3p22.3	2014-09-17			ENSG00000152642	ENSG00000152642			28956	protein-coding gene	gene with protein product		611778				7788527	Standard	NM_015141		Approved	KIAA0089	uc003cew.3	Q8N335	OTTHUMG00000155846	ENST00000282541.5:c.115_123delAAGATGTGG	3.37:g.32169635_32169643delAAGATGTGG	ENSP00000282541:p.Lys39_Trp41del	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9U3|Q14702|Q9BRM5	In_Frame_Del	DEL	ENST00000282541.5	37	CCDS33729.1																																																																																				0.354	GPD1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341975.2	NM_015141		-	32169643	AAGATGTGG	-	32169635	7	5	667	1	0	1	0	1	0	0	0	0	6612	131	5	0	121	0	GPD1L	3	32169635	In_Frame_Del	DEL	AAGATGTGG	TCGA-KN-8431-01A-11D-2310-10		32169635	165852795	8	42618	408	2								
GPD1L	23171	bcgsc.ca	37	chr3	32169636	32169644	+	In_Frame_Del	DEL	AAGATGTGG	AAGATGTGG	-													0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	gaaatttgcctccacagtcaAgatgtgggtctttgaagaaa							TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	AAGATGTGG	AAGATGTGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr3:32169636_32169644delAAGATGTGG	ENST00000282541.5	+	2	317_325	c.116_124delAAGATGTGG	c.(115-126)aaagatgtggtc>atc	p.39_42KDVV>I		NM_015141.3	NP_055956.1	Q8N335	GPD1L_HUMAN	glycerol-3-phosphate dehydrogenase 1-like	39					carbohydrate metabolic process (GO:0005975)|cellular lipid metabolic process (GO:0044255)|glycerol-3-phosphate catabolic process (GO:0046168)|glycerophospholipid biosynthetic process (GO:0046474)|NAD metabolic process (GO:0019674)|NADH metabolic process (GO:0006734)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|negative regulation of protein kinase C signaling (GO:0090038)|phosphatidic acid biosynthetic process (GO:0006654)|phospholipid metabolic process (GO:0006644)|positive regulation of protein localization to cell surface (GO:2000010)|positive regulation of sodium ion transport (GO:0010765)|regulation of heart rate (GO:0002027)|regulation of sodium ion transmembrane transporter activity (GO:2000649)|regulation of ventricular cardiac muscle cell membrane depolarization (GO:0060373)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)|ventricular cardiac muscle cell action potential (GO:0086005)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|glycerol-3-phosphate dehydrogenase complex (GO:0009331)|plasma membrane (GO:0005886)	glycerol-3-phosphate dehydrogenase [NAD+] activity (GO:0004367)|ion channel binding (GO:0044325)|NAD binding (GO:0051287)|sodium channel regulator activity (GO:0017080)			large_intestine(4)|lung(7)|ovary(1)	12						TCCACAGTCAAGATGTGGGTCTTTGAAGA	0.354																																																0																																										SO:0001651	inframe_deletion	23171			D42047	CCDS33729.1	3p22.3	2014-09-17			ENSG00000152642	ENSG00000152642			28956	protein-coding gene	gene with protein product		611778				7788527	Standard	NM_015141		Approved	KIAA0089	uc003cew.3	Q8N335	OTTHUMG00000155846	ENST00000282541.5:c.116_124delAAGATGTGG	3.37:g.32169636_32169644delAAGATGTGG	ENSP00000282541:p.Lys39_Val42delinsIle	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9U3|Q14702|Q9BRM5	In_Frame_Del	DEL	ENST00000282541.5	37	CCDS33729.1																																																																																				0.354	GPD1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341975.2	NM_015141		-	32169644	AAGATGTGG	-	32169636	7	5	667	1	0	1	0	1	0	0	0	0	6612	72	3	0	122	0	GPD1L	3	32169636	In_Frame_Del	DEL	AAGATGTGG	TCGA-KN-8431-01A-11D-2310-10	1	32169636	165852794	9	42619	408	2								
NHEDC1	150159	mdanderson.org	37	chr4	103826788	103826788	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	cgaacacataatgccaaactTagagtggcaacagatatgcc	8	10	0	2	rs201197585		TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr4:103826788T>G	ENST00000296422.7	-	11	1356	c.1215A>C	c.(1213-1215)ctA>ctC	p.L405L	SLC9B1_ENST00000394789.3_Silent_p.L405L|SLC9B1_ENST00000512651.2_Intron	NM_139173.3	NP_631912	Q4ZJI4	SL9B1_HUMAN	solute carrier family 9, subfamily B (NHA1, cation proton antiporter 1), member 1	405					ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	solute:proton antiporter activity (GO:0015299)	p.L405L(1)									ATGCCAAACTTAGAGTGGCAA	0.318																																																1	Substitution - coding silent(1)	pancreas(1)											54	54	54					4																	103826788		2201	4295	6496	SO:0001819	synonymous_variant	150159			AF447585	CCDS34041.1, CCDS47119.1	4q24	2013-05-22	2012-03-22	2011-07-26	ENSG00000164037	ENSG00000164037		"Solute carriers"	24244	protein-coding gene	gene with protein product		611527	"Na+/H+ exchanger domain containing 1", "solute carrier family 9, subfamily B (cation proton antiporter 2), member 1"	NHEDC1		16850186	Standard	NM_139173		Approved	NHA1	uc003hww.3	Q4ZJI4	OTTHUMG00000161114	ENST00000296422.7:c.1215A>C	4.37:g.103826788T>G		Somatic		WXS	Illumina HiSeq	Phase_I	A1KXV1|B9EH04|C9JBP7|Q49A30|Q8NCV2|Q8WVZ0	Silent	SNP	ENST00000296422.7	37	CCDS34041.1																																																																																				0.318	SLC9B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363841.1	NM_139173		G	103826788	T	G	103826788	2	3	667	1	0	0	0	0	0	0	0	1	10407	1741	61	5		5	NHEDC1	4	103826788	Silent	SNP	T	TCGA-KN-8431-01A-11D-2310-10		103826788	87327488	10	42620										
CCNA2	890	broad.mit.edu	37	chr4	122743634	122743634	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	aaactaatggctgaattaaaAgccagggcatcttcacgctc	8	10	2	1			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr4:122743634A>G	ENST00000274026.5	-	2	684	c.381T>C	c.(379-381)gcT>gcC	p.A127A		NM_001237.3	NP_001228	P20248	CCNA2_HUMAN	cyclin A2	127					G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|mitotic G2 DNA damage checkpoint (GO:0007095)|mitotic nuclear division (GO:0007067)|organ regeneration (GO:0031100)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of transcription, DNA-templated (GO:0045893)|Ras protein signal transduction (GO:0007265)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of G2/M transition of mitotic cell cycle (GO:0010389)|response to estradiol (GO:0032355)|response to glucagon (GO:0033762)	cytoplasm (GO:0005737)|female pronucleus (GO:0001939)|male pronucleus (GO:0001940)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				breast(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(4)|ovary(1)|skin(1)	12						CTGAATTAAAAGCCAGGGCAT	0.413																																																0													102	100	101					4																	122743634		2203	4300	6503	SO:0001819	synonymous_variant	890				CCDS3723.1	4q27	2012-07-12			ENSG00000145386	ENSG00000145386			1578	protein-coding gene	gene with protein product		123835		CCNA, CCN1		1675006	Standard	NM_001237		Approved		uc003iec.4	P20248	OTTHUMG00000133072	ENST00000274026.5:c.381T>C	4.37:g.122743634A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7B6|Q2M3U6|Q4W5P4|Q6LER8	Silent	SNP	ENST00000274026.5	37	CCDS3723.1																																																																																				0.413	CCNA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256712.2	NM_001237		G	122743634	A	G	122743634	2	3	667	1	0	0	0	0	0	0	0	1	2912	59	3	3		3	CCNA2	4	122743634	Silent	SNP	A	TCGA-KN-8431-01A-11D-2310-10	18916846	122743634	68410642	11	42621										
NPY2R	4887	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr4	156136035	156136035	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	agtgttccacatcatcgccaTgtgctccacttttgccaatc	6	14	1	0			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr4:156136035T>A	ENST00000329476.3	+	2	1433	c.944T>A	c.(943-945)aTg>aAg	p.M315K	NPY2R_ENST00000506608.1_Missense_Mutation_p.M315K	NM_000910.2	NP_000901.1	P49146	NPY2R_HUMAN	neuropeptide Y receptor Y2	315					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|behavioral fear response (GO:0001662)|cardiac left ventricle morphogenesis (GO:0003214)|locomotory behavior (GO:0007626)|negative regulation of cAMP biosynthetic process (GO:0030818)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|negative regulation of feeding behavior (GO:2000252)|negative regulation of neurological system process (GO:0031645)|negative regulation of secretion (GO:0051048)|negative regulation of synaptic transmission, glutamatergic (GO:0051967)|neuropeptide signaling pathway (GO:0007218)|nitric oxide mediated signal transduction (GO:0007263)|outflow tract morphogenesis (GO:0003151)|positive regulation of cell adhesion (GO:0045785)|positive regulation of circadian sleep/wake cycle, non-REM sleep (GO:0046010)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of dopamine secretion (GO:0033603)|positive regulation of peptide secretion (GO:0002793)|positive regulation of smooth muscle contraction (GO:0045987)|regulation of sensory perception of pain (GO:0051930)|secretion (GO:0046903)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium channel regulator activity (GO:0005246)|neuropeptide Y receptor activity (GO:0004983)|peptide YY receptor activity (GO:0001601)|receptor activity (GO:0004872)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(17)|prostate(1)|skin(5)|urinary_tract(1)	36	all_hematologic(180;0.24)	Renal(120;0.0854)			Cysteamine(DB00847)	ATCATCGCCATGTGCTCCACT	0.537																																																0													125	99	108					4																	156136035		2203	4300	6503	SO:0001583	missense	4887			U42766	CCDS3791.1	4q31	2012-08-08				ENSG00000185149		"GPCR / Class A : Neuropeptide receptors : Y"	7957	protein-coding gene	gene with protein product		162642				7559383	Standard	NM_000910		Approved		uc003ioq.3	P49146		ENST00000329476.3:c.944T>A	4.37:g.156136035T>A	ENSP00000332591:p.Met315Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q13281|Q13457|Q4W5G7|Q6AZZ6|Q9UE67	Missense_Mutation	SNP	ENST00000329476.3	37	CCDS3791.1	.	.	.	.	.	.	.	.	.	.	T	20.7	4.026321	0.75390	.	.	ENSG00000185149	ENST00000329476;ENST00000506608	T;T	0.64803	-0.12;-0.12	5.86	5.86	0.93980	GPCR, rhodopsin-like superfamily (1);	0.000000	0.85682	D	0.000000	D	0.84320	0.5446	M	0.93197	3.39	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.88428	0.3033	10	0.87932	D	0	.	15.4267	0.75059	0.0:0.0:0.0:1.0	.	315	P49146	NPY2R_HUMAN	K	315	ENSP00000332591:M315K;ENSP00000426366:M315K	ENSP00000332591:M315K	M	+	2	0	NPY2R	156355485	1.000000	0.71417	1.000000	0.80357	0.804000	0.45430	8.040000	0.89188	2.236000	0.73375	0.523000	0.50628	ATG		0.537	NPY2R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365128.1	NM_000910		A	156136035	T	A	156136035	3	1	667	1	0	0	0	0	1	0	0	0	10616	1464	51	5	946	5	NPY2R	4	156136035	Missense_Mutation	SNP	T	TCGA-KN-8431-01A-11D-2310-10	33392401	156136035	35018241	12	42622										
KIF2A	3796	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	61653554	61653554	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	tatgtgtgtgtgtaagaaaaCgaccactcaataaaaaaggt	9	5	1	1			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr5:61653554C>T	ENST00000401507.3	+	8	1002	c.691C>T	c.(691-693)Cga>Tga	p.R231*	KIF2A_ENST00000509663.2_Intron|KIF2A_ENST00000407818.3_Nonsense_Mutation_p.R231*|KIF2A_ENST00000506857.1_Nonsense_Mutation_p.R185*|KIF2A_ENST00000381103.2_Nonsense_Mutation_p.R211*	NM_001243953.1|NM_004520.4	NP_001230882.1|NP_004511.2	O00139	KIF2A_HUMAN	kinesin heavy chain member 2A	231	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|blood coagulation (GO:0007596)|cell differentiation (GO:0030154)|metabolic process (GO:0008152)|microtubule depolymerization (GO:0007019)|microtubule-based movement (GO:0007018)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic spindle organization (GO:0007052)|nervous system development (GO:0007399)	centrosome (GO:0005813)|cytosol (GO:0005829)|kinesin complex (GO:0005871)|membrane (GO:0016020)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)|motor activity (GO:0003774)			NS(1)|endometrium(3)|kidney(3)|large_intestine(3)|lung(3)|ovary(1)|skin(1)	15		Lung NSC(810;8.94e-06)|Prostate(74;0.0132)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.14)		TGTAAGAAAACGACCACTCAA	0.254																																																0													75	79	78					5																	61653554		2201	4297	6498	SO:0001587	stop_gained	3796			BC031828	CCDS3980.2, CCDS47216.1, CCDS58949.1	5q12-q13	2008-02-05	2006-09-26	2006-09-26	ENSG00000068796	ENSG00000068796		"Kinesins"	6318	protein-coding gene	gene with protein product		602591	"kinesin heavy chain member 2"	KIF2		9177777	Standard	NM_001098511		Approved	HK2	uc003jsz.4	O00139	OTTHUMG00000097755	ENST00000401507.3:c.691C>T	5.37:g.61653554C>T	ENSP00000385622:p.Arg231*	Somatic		WXS	Illumina HiSeq	Phase_I	A5YM42|A5YM54|B4DY54|D3DW97|E9PB70|Q7Z5I3|Q8N5Q7	Nonsense_Mutation	SNP	ENST00000401507.3	37	CCDS3980.2	.	.	.	.	.	.	.	.	.	.	C	38	7.152452	0.98099	.	.	ENSG00000068796	ENST00000401507;ENST00000381103;ENST00000514082;ENST00000407818;ENST00000506857	.	.	.	5.3	5.3	0.74995	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	18.9318	0.92570	0.0:1.0:0.0:0.0	.	.	.	.	X	231;211;212;231;185	.	ENSP00000370493:R211X	R	+	1	2	KIF2A	61689311	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.421000	0.59848	2.459000	0.83118	0.585000	0.79938	CGA		0.254	KIF2A-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317989.1	NM_004520		T	61653554	C	T	61653554	4	4	667	1	0	0	0	0	0	1	0	0	8304	528	19	1	721	1	KIF2A	5	61653554	Nonsense_Mutation	SNP	C	TCGA-KN-8431-01A-11D-2310-10		61653554	119261706	13	42623										
MEF2C	4208	hgsc.bcm.edu	37	chr5	88025096	88025096	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	attccttgtcctggtaaagtAggagttgctacggaaaccac	10	9	0	0			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr5:88025096A>G	ENST00000437473.2	-	9	1320	c.903T>C	c.(901-903)ccT>ccC	p.P301P	MEF2C_ENST00000504921.2_Silent_p.P301P|MEF2C_ENST00000340208.5_Silent_p.P311P|MEF2C_ENST00000514028.1_Silent_p.P301P|MEF2C_ENST00000424173.2_Silent_p.P291P|MEF2C_ENST00000506554.1_Silent_p.P301P|MEF2C_ENST00000514015.1_Silent_p.P301P|MEF2C_ENST00000503554.1_5'Flank|MEF2C_ENST00000508569.1_Silent_p.P293P|MEF2C_ENST00000510942.1_Silent_p.P293P|MEF2C_ENST00000539796.1_Silent_p.P245P	NM_001193350.1|NM_002397.4	NP_001180279.1|NP_002388.2	Q06413	MEF2C_HUMAN	myocyte enhancer factor 2C	301					apoptotic process (GO:0006915)|B cell homeostasis (GO:0001782)|B cell proliferation (GO:0042100)|B cell receptor signaling pathway (GO:0050853)|blood vessel development (GO:0001568)|blood vessel remodeling (GO:0001974)|cardiac muscle hypertrophy in response to stress (GO:0014898)|cardiac ventricle formation (GO:0003211)|cartilage morphogenesis (GO:0060536)|cell morphogenesis involved in neuron differentiation (GO:0048667)|cellular response to calcium ion (GO:0071277)|cellular response to drug (GO:0035690)|cellular response to fluid shear stress (GO:0071498)|cellular response to glucose stimulus (GO:0071333)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to parathyroid hormone stimulus (GO:0071374)|cellular response to retinoic acid (GO:0071300)|cellular response to transforming growth factor beta stimulus (GO:0071560)|cellular response to trichostatin A (GO:0035984)|chondrocyte differentiation (GO:0002062)|dentate gyrus development (GO:0021542)|embryonic viscerocranium morphogenesis (GO:0048703)|endochondral ossification (GO:0001958)|epithelial cell proliferation involved in renal tubule morphogenesis (GO:2001013)|germinal center formation (GO:0002467)|glomerulus morphogenesis (GO:0072102)|heart development (GO:0007507)|heart looping (GO:0001947)|humoral immune response (GO:0006959)|innate immune response (GO:0045087)|learning or memory (GO:0007611)|MAPK cascade (GO:0000165)|melanocyte differentiation (GO:0030318)|monocyte differentiation (GO:0030224)|muscle cell differentiation (GO:0042692)|muscle cell fate determination (GO:0007521)|muscle organ development (GO:0007517)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|myotube differentiation (GO:0014902)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of gene expression (GO:0010629)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of ossification (GO:0030279)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nephron tubule epithelial cell differentiation (GO:0072160)|nervous system development (GO:0007399)|neural crest cell differentiation (GO:0014033)|neuron development (GO:0048666)|neuron differentiation (GO:0030182)|neuron migration (GO:0001764)|neurotrophin TRK receptor signaling pathway (GO:0048011)|osteoblast differentiation (GO:0001649)|outflow tract morphogenesis (GO:0003151)|palate development (GO:0060021)|platelet formation (GO:0030220)|positive regulation of alkaline phosphatase activity (GO:0010694)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of behavioral fear response (GO:2000987)|positive regulation of bone mineralization (GO:0030501)|positive regulation of cardiac muscle cell differentiation (GO:2000727)|positive regulation of cardiac muscle cell proliferation (GO:0060045)|positive regulation of cardiac muscle hypertrophy (GO:0010613)|positive regulation of cell proliferation in bone marrow (GO:0071864)|positive regulation of gene expression (GO:0010628)|positive regulation of macrophage apoptotic process (GO:2000111)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of myoblast differentiation (GO:0045663)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of protein homodimerization activity (GO:0090073)|positive regulation of skeletal muscle cell differentiation (GO:2001016)|positive regulation of skeletal muscle tissue development (GO:0048643)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|primary heart field specification (GO:0003138)|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:2000311)|regulation of dendritic spine development (GO:0060998)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of germinal center formation (GO:0002634)|regulation of megakaryocyte differentiation (GO:0045652)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)|regulation of neuron apoptotic process (GO:0043523)|regulation of neurotransmitter secretion (GO:0046928)|regulation of sarcomere organization (GO:0060297)|regulation of synapse assembly (GO:0051963)|regulation of synaptic activity (GO:0060025)|regulation of synaptic plasticity (GO:0048167)|regulation of synaptic transmission, glutamatergic (GO:0051966)|regulation of transcription, DNA-templated (GO:0006355)|renal tubule morphogenesis (GO:0061333)|response to ischemia (GO:0002931)|response to virus (GO:0009615)|response to vitamin E (GO:0033197)|secondary heart field specification (GO:0003139)|sinoatrial valve morphogenesis (GO:0003185)|skeletal muscle tissue development (GO:0007519)|smooth muscle cell differentiation (GO:0051145)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)|ventricular cardiac muscle cell differentiation (GO:0055012)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|protein complex (GO:0043234)|sarcomere (GO:0030017)	activating transcription factor binding (GO:0033613)|AT DNA binding (GO:0003680)|chromatin binding (GO:0003682)|core promoter sequence-specific DNA binding (GO:0001046)|DNA binding (GO:0003677)|miRNA binding (GO:0035198)|protein heterodimerization activity (GO:0046982)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity (GO:0000983)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001205)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(9)|lung(9)|ovary(2)|pancreas(1)|prostate(4)|skin(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	40		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)		CTGGTAAAGTAGGAGTTGCTA	0.398										HNSCC(66;0.2)																																						0													74	82	80					5																	88025096		1860	4108	5968	SO:0001819	synonymous_variant	4208			AL833268	CCDS47244.1, CCDS47245.1, CCDS54877.1, CCDS54878.1	5q14.3	2013-07-03	2007-04-24		ENSG00000081189	ENSG00000081189		"Myocyte enhancer factors"	6996	protein-coding gene	gene with protein product		600662				8455629	Standard	NM_002397		Approved		uc003kjl.3	Q06413	OTTHUMG00000162634	ENST00000437473.2:c.903T>C	5.37:g.88025096A>G		Somatic		WXS	Illumina HiSeq	Phase_I	C9JMZ0|D7F7N5|F8W7V7	Silent	SNP	ENST00000437473.2	37	CCDS47245.1																																																																																				0.398	MEF2C-003	KNOWN	alternative_5_UTR|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000369817.1	NM_002397		G	88025096	A	G	88025096	2	3	667	1	0	0	0	0	0	0	0	1	9464	407	15	3		3	MEF2C	5	88025096	Silent	SNP	A	TCGA-KN-8431-01A-11D-2310-10	26371542	88025096	92890164	14	42624										
DMXL1	1657	broad.mit.edu	37	chr5	118525451	118525451	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	acagaacaaacgttttaggcCgtcaaaaatgtcttgcagag	9	8	2	2			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr5:118525451C>T	ENST00000311085.8	+	29	7264	c.7184C>T	c.(7183-7185)cCg>cTg	p.P2395L	DMXL1_ENST00000539542.1_Missense_Mutation_p.P2395L	NM_005509.4	NP_005500.4	Q9Y485	DMXL1_HUMAN	Dmx-like 1	2395										breast(3)|central_nervous_system(1)|endometrium(14)|kidney(4)|large_intestine(20)|liver(6)|lung(28)|ovary(2)|prostate(5)|skin(2)|upper_aerodigestive_tract(1)	86		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)		CGTTTTAGGCCGTCAAAAATG	0.403																																																0													103	104	104					5																	118525451		2202	4300	6502	SO:0001583	missense	1657			AJ005821	CCDS4125.1, CCDS75289.1	5q22	2013-01-10			ENSG00000172869	ENSG00000172869		"WD repeat domain containing"	2937	protein-coding gene	gene with protein product		605671				10708522	Standard	NM_005509		Approved		uc003ksd.2	Q9Y485	OTTHUMG00000128898	ENST00000311085.8:c.7184C>T	5.37:g.118525451C>T	ENSP00000309690:p.Pro2395Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000311085.8	37	CCDS4125.1	.	.	.	.	.	.	.	.	.	.	C	12.20	1.866827	0.32977	.	.	ENSG00000172869	ENST00000311085;ENST00000539542	T;T	0.08634	3.07;3.07	5.95	5.95	0.96441	.	0.611989	0.18961	N	0.126395	T	0.06781	0.0173	N	0.22421	0.69	0.38100	D	0.937229	B;B	0.06786	0.001;0.0	B;B	0.04013	0.001;0.0	T	0.40346	-0.9568	10	0.18710	T	0.47	-1.0995	13.5655	0.61815	0.0:0.9292:0.0:0.0708	.	2395;2395	F5H269;Q9Y485	.;DMXL1_HUMAN	L	2395	ENSP00000309690:P2395L;ENSP00000439479:P2395L	ENSP00000309690:P2395L	P	+	2	0	DMXL1	118553350	1.000000	0.71417	0.995000	0.50966	0.581000	0.36288	2.212000	0.42835	2.821000	0.97095	0.650000	0.86243	CCG		0.403	DMXL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250862.1	NM_005509		T	118525451	C	T	118525451	3	4	667	1	0	0	0	0	1	0	0	0	4596	652	23	1	7298	1	DMXL1	5	118525451	Missense_Mutation	SNP	C	TCGA-KN-8431-01A-11D-2310-10	30500355	118525451	62389809	15	42625										
GCNT2	2651	ucsc.edu	37	chr6	10626704	10626704	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	cggagacttaaagtggctggTtaattcaccaagcctgtttg	11	8	1	1	rs200336999		TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr6:10626704T>G	ENST00000379597.3	+	3	1629	c.1073T>G	c.(1072-1074)gTt>gGt	p.V358G	GCNT2_ENST00000316170.3_Missense_Mutation_p.V356G|GCNT2_ENST00000410107.1_Missense_Mutation_p.V72G|GCNT2_ENST00000265012.4_Missense_Mutation_p.V358G|GCNT2_ENST00000397423.2_3'UTR|GCNT2_ENST00000495262.1_Missense_Mutation_p.V358G			Q8N0V5	GNT2A_HUMAN	glucosaminyl (N-acetyl) transferase 2, I-branching enzyme (I blood group)	358					maintenance of lens transparency (GO:0036438)|negative regulation of cell-substrate adhesion (GO:0010812)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of heterotypic cell-cell adhesion (GO:0034116)|positive regulation of protein kinase B signaling (GO:0051897)|posttranscriptional regulation of gene expression (GO:0010608)|protein glycosylation (GO:0006486)|transforming growth factor beta receptor signaling pathway (GO:0007179)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity (GO:0008109)			endometrium(2)|kidney(1)|large_intestine(5)|lung(2)|ovary(2)	12	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)		AAGTGGCTGGTTAATTCACCA	0.423																																																0													110	109	109					6																	10626704		2203	4300	6503	SO:0001583	missense	2651			L41605	CCDS4512.1, CCDS4513.1, CCDS34338.1	6p24.2	2014-07-18	2006-02-23		ENSG00000111846	ENSG00000111846	2.4.1.150	"Blood group antigens", "Glucosaminyl (N-acetyl) transferase and xylosyltransferase family"	4204	protein-coding gene	gene with protein product	"Ii blood group", "unassigned linkage group 3"	600429	"glucosaminyl (N-acetyl) transferase 5", "glucosaminyl (N-acetyl) transferase 2, I-branching enzyme", "glucosaminyl (N-acetyl) transferase 2, I-branching enzyme (Ii blood group)", "cataract, congenital"	NACGT1, II, GCNT5, CCAT		8449405, 9915862	Standard	NM_145649		Approved	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3	uc003mze.3	Q06430	OTTHUMG00000014244	ENST00000379597.3:c.1073T>G	6.37:g.10626704T>G	ENSP00000368917:p.Val358Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000379597.3	37	CCDS34338.1	.	.	.	.	.	.	.	.	.	.	T	14.84	2.655719	0.47467	.	.	ENSG00000111846	ENST00000410107;ENST00000495262;ENST00000379597;ENST00000316170;ENST00000265012	T;T;T;T;T	0.47869	0.83;2.85;2.85;2.85;2.86	5.6	1.6	0.23607	.	1.025490	0.07750	N	0.948455	T	0.24967	0.0606	L	0.39898	1.24	0.09310	N	1	B;B;B;B	0.31705	0.336;0.154;0.336;0.076	B;B;B;B	0.39027	0.197;0.079;0.288;0.18	T	0.45687	-0.9244	10	0.72032	D	0.01	-30.6503	7.7404	0.28837	0.241:0.0:0.1261:0.6329	.	358;72;358;356	Q8N0V5;B7ZBL3;Q8NFS9;Q06430	GNT2A_HUMAN;.;GNT2C_HUMAN;GNT2B_HUMAN	G	72;358;358;356;358	ENSP00000386321:V72G;ENSP00000419411:V358G;ENSP00000368917:V358G;ENSP00000314844:V356G;ENSP00000265012:V358G	ENSP00000265012:V358G	V	+	2	0	GCNT2	10734690	0.181000	0.23161	0.048000	0.18961	0.987000	0.75469	1.266000	0.33039	0.374000	0.24650	0.528000	0.53228	GTT		0.423	GCNT2-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000327912.3	NM_145649		G	10626704	T	G	10626704	3	3	667	1	0	0	0	0	1	0	0	0	6308	1725	60	5	2935	5	GCNT2	6	10626704	Missense_Mutation	SNP	T	TCGA-KN-8431-01A-11D-2310-10		10626704	160488363	16	42626										
HLA-A	3105	bcgsc.ca	37	chr6	29911261	29911261	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	gagagcctacctggatggcaCgtgcgtggagtggctccgca	16	11	0	1			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr6:29911261C>G	ENST00000396634.1	+	5	901	c.560C>G	c.(559-561)aCg>aGg	p.T187R	HLA-A_ENST00000376802.2_Missense_Mutation_p.T187R|HLA-A_ENST00000376806.5_Missense_Mutation_p.T187R|HLA-A_ENST00000376809.5_Missense_Mutation_p.T187R			P16189	1A31_HUMAN	major histocompatibility complex, class I, A	187	Alpha-2.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	beta-2-microglobulin binding (GO:0030881)|peptide antigen binding (GO:0042605)|TAP binding (GO:0046977)			central_nervous_system(2)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	30						CTGGATGGCACGTGCGTGGAG	0.667									Osteosarcoma, Familial Clustering of;Naso-/Oropharyngeal/Laryngeal Cancer, Familial Clustering of;Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of	Multiple Myeloma(9;0.094)			g|||	1039	0.207468	0.0809	0.1037	5008	,	,		12986	0.3185		0.2018	False		,,,				2504	0.3436															0													45	35	39					6																	29911261		1508	2702	4210	SO:0001583	missense	3105	Familial Cancer Database	Familial Osteogenic Sarcoma;incl.: Familial Head and Neck Cancer; ;Lichen Sclerosis, Familial	D32129	CCDS34373.1	6p21.3	2013-01-11			ENSG00000206503	ENSG00000206503		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4931	protein-coding gene	gene with protein product		142800				8838351	Standard	NM_001242758		Approved		uc003nol.3	P01891	OTTHUMG00000130501	ENST00000396634.1:c.560C>G	6.37:g.29911261C>G	ENSP00000379873:p.Thr187Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O62924|O98009|O98137|Q8MHM1|Q9TPQ3|Q9TQ24|Q9UQU6|Q9UQU7	Missense_Mutation	SNP	ENST00000396634.1	37	CCDS34373.1	360	0.16483516483516483	26	0.052845528455284556	33	0.09116022099447514	149	0.26048951048951047	152	0.20052770448548812	.	0.003	-2.554518	0.00138	.	.	ENSG00000206503	ENST00000396634;ENST00000376806;ENST00000376809;ENST00000376802	T;T;T;T	0.00768	5.72;5.72;5.72;5.72	3.78	-7.56	0.01322	MHC class I, alpha chain, alpha1/alpha2 (6);MHC classes I/II-like antigen recognition protein (3);MHC class I-like antigen recognition (3);	80.137900	0.00166	N	0.000017	T	0.00109	0.0003	L	0.33668	1.02	0.80722	P	0.0	B;B;B;B;B;B	0.16396	0.017;0.003;0.003;0.001;0.003;0.003	B;B;B;B;B;B	0.22386	0.017;0.039;0.02;0.009;0.02;0.02	T	0.50980	-0.8763	9	0.05620	T	0.96	.	2.6157	0.04902	0.4361:0.0993:0.2856:0.1791	rs3129017;rs9260159;rs41555617	66;187;187;187;187;187	B4DVB9;Q5SRN7;P16188;Q5SRN5;P30455;P04439	.;.;1A30_HUMAN;.;1A36_HUMAN;1A03_HUMAN	R	187	ENSP00000379873:T187R;ENSP00000366002:T187R;ENSP00000366005:T187R;ENSP00000365998:T187R	ENSP00000365998:T187R	T	+	2	0	HLA-A	30019240	0.000000	0.05858	0.000000	0.03702	0.007000	0.05969	-13.082000	0.00001	-8.487000	0.00000	-3.856000	0.00018	ACG		0.667	HLA-A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252909.1	NM_002116		G	29911261	C	G	29911261	3	3	667	1	0	0	0	0	1	0	0	0	7202	536	19	4	570	4	HLA-A	6	29911261	Missense_Mutation	SNP	C	TCGA-KN-8431-01A-11D-2310-10	19284557	29911261	141203806	17	42627										
KCNK5	8645	hgsc.bcm.edu	37	chr6	39159435	39159435	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	ccacaaacatgctcaccttcCagttgacaaaaagggacagc	7	13	1	1			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr6:39159435C>T	ENST00000359534.3	-	5	1069	c.731G>A	c.(730-732)tGg>tAg	p.W244*		NM_003740.3	NP_003731.1	O95279	KCNK5_HUMAN	potassium channel, subfamily K, member 5	244					excretion (GO:0007588)|potassium ion transport (GO:0006813)	integral component of plasma membrane (GO:0005887)	potassium channel activity (GO:0005267)|voltage-gated ion channel activity (GO:0005244)			central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(6)|lung(4)|skin(3)	19						GCTCACCTTCCAGTTGACAAA	0.587																																																0													83	92	89					6																	39159435		2203	4300	6503	SO:0001587	stop_gained	8645			AF084830	CCDS4841.1	6p21	2012-03-07			ENSG00000164626	ENSG00000164626		"Potassium channels", "Voltage-gated ion channels / Potassium channels, Two-P"	6280	protein-coding gene	gene with protein product		603493				9812978, 16382106	Standard	XM_005249456		Approved	K2p5.1, TASK-2	uc003oon.3	O95279	OTTHUMG00000014642	ENST00000359534.3:c.731G>A	6.37:g.39159435C>T	ENSP00000352527:p.Trp244*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAQ6|B5TJL2|Q5VV76	Nonsense_Mutation	SNP	ENST00000359534.3	37	CCDS4841.1	.	.	.	.	.	.	.	.	.	.	C	39	7.558550	0.98358	.	.	ENSG00000164626	ENST00000359534	.	.	.	5.27	5.27	0.74061	.	0.691332	0.14594	N	0.310056	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	19.2502	0.93921	0.0:1.0:0.0:0.0	.	.	.	.	X	244	.	ENSP00000352527:W244X	W	-	2	0	KCNK5	39267413	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	5.880000	0.69698	2.619000	0.88677	0.561000	0.74099	TGG		0.587	KCNK5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040449.1	NM_003740		T	39159435	C	T	39159435	4	4	667	1	0	0	0	0	0	1	0	0	8076	595	21	2	772	2	KCNK5	6	39159435	Nonsense_Mutation	SNP	C	TCGA-KN-8431-01A-11D-2310-10	9248174	39159435	131955632	18	42628										
TREML2	79865	mdanderson.org	37	chr6	41166022	41166022	+	Silent	SNP	A	A	G													0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	cctttcacccagactcgggcAaagccaggctcacacttctt					rs386700523|rs139267947		TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr6:41166022A>G	ENST00000483722.1	-	2	386	c.201T>C	c.(199-201)ttT>ttC	p.F67F		NM_024807.2	NP_079083.2	Q5T2D2	TRML2_HUMAN	triggering receptor expressed on myeloid cells-like 2	67	Ig-like V-type.				T cell activation (GO:0042110)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	receptor activity (GO:0004872)			breast(1)|central_nervous_system(1)|large_intestine(1)|lung(13)|ovary(1)|prostate(1)	18	Ovarian(28;0.0418)|Colorectal(47;0.196)					AGACTCGGGCAAAGCCAGGCT	0.572																																																0													135	134	134					6																	41166022		2203	4300	6503	SO:0001819	synonymous_variant	79865			AK023755	CCDS4853.1, CCDS4853.2	6p21.1	2013-01-11	2004-04-14	2004-04-16	ENSG00000112195	ENSG00000112195		"Immunoglobulin superfamily / V-set domain containing"	21092	protein-coding gene	gene with protein product	"TREM-like transcript 2"	609715	"chromosome 6 open reading frame 76"	C6orf76		12645956	Standard	NM_024807		Approved	FLJ13693, TLT2, dJ238O23.1	uc010jxm.1	Q5T2D2	OTTHUMG00000016349	ENST00000483722.1:c.201T>C	6.37:g.41166022A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q08AP8|Q08AP9|Q8IWY0|Q9H8E9	Silent	SNP	ENST00000483722.1	37	CCDS4853.2																																																																																				0.572	TREML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043756.3	NM_024807		G	41166022	A	G	41166022	2	3	667	1	0	0	0	0	0	0	0	1	16485	127	5	3		3	TREML2	6	41166022	Silent	SNP	A	TCGA-KN-8431-01A-11D-2310-10	2006587	41166022	129949045	19	42629	409	2								
TREML2	79865	mdanderson.org	37	chr6	41166025	41166025	+	Silent	SNP	G	G	A													0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	ttcacccagactcgggcaaaGccaggctcacacttcttctt					rs113267424	byFrequency	TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr6:41166025G>A	ENST00000483722.1	-	2	383	c.198C>T	c.(196-198)ggC>ggT	p.G66G		NM_024807.2	NP_079083.2	Q5T2D2	TRML2_HUMAN	triggering receptor expressed on myeloid cells-like 2	66	Ig-like V-type.				T cell activation (GO:0042110)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	receptor activity (GO:0004872)			breast(1)|central_nervous_system(1)|large_intestine(1)|lung(13)|ovary(1)|prostate(1)	18	Ovarian(28;0.0418)|Colorectal(47;0.196)					CTCGGGCAAAGCCAGGCTCAC	0.567																																																0													139	139	139					6																	41166025		2203	4300	6503	SO:0001819	synonymous_variant	79865			AK023755	CCDS4853.1, CCDS4853.2	6p21.1	2013-01-11	2004-04-14	2004-04-16	ENSG00000112195	ENSG00000112195		"Immunoglobulin superfamily / V-set domain containing"	21092	protein-coding gene	gene with protein product	"TREM-like transcript 2"	609715	"chromosome 6 open reading frame 76"	C6orf76		12645956	Standard	NM_024807		Approved	FLJ13693, TLT2, dJ238O23.1	uc010jxm.1	Q5T2D2	OTTHUMG00000016349	ENST00000483722.1:c.198C>T	6.37:g.41166025G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q08AP8|Q08AP9|Q8IWY0|Q9H8E9	Silent	SNP	ENST00000483722.1	37	CCDS4853.2																																																																																				0.567	TREML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043756.3	NM_024807		A	41166025	G	A	41166025	2	1	667	1	0	0	0	0	0	0	0	1	16485	958	34	2		2	TREML2	6	41166025	Silent	SNP	G	TCGA-KN-8431-01A-11D-2310-10	3	41166025	129949042	20	42630	409	2								
DST	667	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr6	56480802	56480802	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	cagtaagaggatcaattatgCcccctgtactgacttgggct	10	10	1	2			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr6:56480802C>T	ENST00000370765.6	-	24	7570	c.7463G>A	c.(7462-7464)gGc>gAc	p.G2488D	DST_ENST00000361203.3_Intron|DST_ENST00000244364.6_Intron|DST_ENST00000446842.2_Intron|DST_ENST00000312431.6_Intron|DST_ENST00000370788.2_Intron|DST_ENST00000421834.2_Intron|DST_ENST00000370769.4_Intron|DST_ENST00000370754.5_Intron	NM_001723.5	NP_001714.1	Q03001	DYST_HUMAN	dystonin	1784					axonogenesis (GO:0007409)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cell motility (GO:0048870)|cytoplasmic microtubule organization (GO:0031122)|cytoskeleton organization (GO:0007010)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)|integrin-mediated signaling pathway (GO:0007229)|intermediate filament cytoskeleton organization (GO:0045104)|maintenance of cell polarity (GO:0030011)|microtubule cytoskeleton organization (GO:0000226)|regulation of microtubule polymerization or depolymerization (GO:0031110)|response to wounding (GO:0009611)|retrograde axon cargo transport (GO:0008090)	actin cytoskeleton (GO:0015629)|axon (GO:0030424)|basal plasma membrane (GO:0009925)|basement membrane (GO:0005604)|cell leading edge (GO:0031252)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|integral component of membrane (GO:0016021)|intermediate filament (GO:0005882)|intermediate filament cytoskeleton (GO:0045111)|microtubule cytoskeleton (GO:0015630)|microtubule plus-end (GO:0035371)|neurofilament cytoskeleton (GO:0060053)|nucleus (GO:0005634)|Z disc (GO:0030018)	calcium ion binding (GO:0005509)|integrin binding (GO:0005178)|microtubule plus-end binding (GO:0051010)|protein C-terminus binding (GO:0008022)|protein homodimerization activity (GO:0042803)			NS(1)|breast(5)|central_nervous_system(8)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(22)|lung(43)|ovary(7)|prostate(1)|skin(4)|upper_aerodigestive_tract(3)	105	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			ATCAATTATGCCCCCTGTACT	0.517																																																0													71	77	75					6																	56480802		2203	4300	6503	SO:0001583	missense	667			M22942, M69225	CCDS4959.1, CCDS47443.1, CCDS75474.1	6p12.1	2013-01-10	2004-06-25	2004-07-01	ENSG00000151914	ENSG00000151914		"EF-hand domain containing"	1090	protein-coding gene	gene with protein product		113810	"bullous pemphigoid antigen 1, 230/240kDa"	BPAG1		2461961, 2276744	Standard	NM_001144770		Approved	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2	uc021zba.2	Q03001	OTTHUMG00000014913	ENST00000370765.6:c.7463G>A	6.37:g.56480802C>T	ENSP00000359801:p.Gly2488Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3H1|O94833|Q12825|Q13266|Q13267|Q13775|Q5TBT0|Q5TBT2|Q5TF23|Q5TF24|Q8N1T8|Q8N8J3|Q8WXK8|Q8WXK9|Q96AK9|Q96DQ5|Q96J76|Q96QT5|Q9H555|Q9UGD7|Q9UGD8|Q9UN10	Missense_Mutation	SNP	ENST00000370765.6	37	CCDS4959.1	.	.	.	.	.	.	.	.	.	.	C	22.7	4.322255	0.81580	.	.	ENSG00000151914	ENST00000370765	D	0.86030	-2.06	5.94	5.94	0.96194	.	.	.	.	.	D	0.92341	0.7570	.	.	.	0.35699	D	0.815492	D	0.89917	1.0	D	0.97110	1.0	D	0.91303	0.5068	7	0.52906	T	0.07	.	20.3593	0.98849	0.0:1.0:0.0:0.0	.	2488	Q03001-3	.	D	2488	ENSP00000359801:G2488D	ENSP00000359801:G2488D	G	-	2	0	DST	56588761	1.000000	0.71417	0.990000	0.47175	0.960000	0.62799	7.818000	0.86416	2.822000	0.97130	0.557000	0.71058	GGC		0.517	DST-010	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000041027.2	NM_001723		T	56480802	C	T	56480802	3	4	667	1	0	0	0	0	1	0	0	0	4785	739	26	2	12936	2	DST	6	56480802	Missense_Mutation	SNP	C	TCGA-KN-8431-01A-11D-2310-10	15314777	56480802	114634265	21	42631										
RINT1	60561	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr7	105182935	105182935	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	gaatcaaagcaatttcttaaTcagtttctggagcaggaaac	8	7	4	0			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr7:105182935T>C	ENST00000257700.2	+	4	585	c.354T>C	c.(352-354)aaT>aaC	p.N118N	RINT1_ENST00000477285.1_3'UTR	NM_021930.4	NP_068749.3	Q6NUQ1	RINT1_HUMAN	RAD50 interactor 1	118					G2 DNA damage checkpoint (GO:0031572)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)				central_nervous_system(1)|endometrium(2)|large_intestine(4)|lung(9)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	22						AATTTCTTAATCAGTTTCTGG	0.378																																																0													96	98	97					7																	105182935		2203	4300	6503	SO:0001819	synonymous_variant	60561			AF317622	CCDS34726.1	7q22.2	2007-05-03			ENSG00000135249	ENSG00000135249			21876	protein-coding gene	gene with protein product		610089				11096100, 15029241	Standard	NM_021930		Approved	FLJ11785, RINT-1	uc003vda.1	Q6NUQ1	OTTHUMG00000157400	ENST00000257700.2:c.354T>C	7.37:g.105182935T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q75MG9|Q75MH0|Q96IW8|Q9H229|Q9HAD9	Silent	SNP	ENST00000257700.2	37	CCDS34726.1																																																																																				0.378	RINT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348686.1	NM_021930		C	105182935	T	C	105182935	2	2	667	1	0	0	0	0	0	0	0	1	13389	1432	50	3		3	RINT1	7	105182935	Silent	SNP	T	TCGA-KN-8431-01A-11D-2310-10		105182935	53955728	22	42632										
CTAGE6P	340307	broad.mit.edu	37	chr7	143453697	143453697	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	gatttttaatatgctctgtaAgctcttcctttgttttgtcc	6	8	2	0			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr7:143453697A>G	ENST00000470691.2	-	1	1092	c.1055T>C	c.(1054-1056)cTt>cCt	p.L352P	RNU6-267P_ENST00000516714.1_RNA	NM_178561.4	NP_848656.2	Q86UF2	CTGE6_HUMAN	CTAGE family, member 6	352						integral component of membrane (GO:0016021)						Melanoma(164;0.0903)					ATGCTCTGTAAGCTCTTCCTT	0.303																																																0													16	13	14					7																	143453697		1804	4014	5818	SO:0001583	missense	340307			BC043153	CCDS64790.1	7q35	2013-05-22	2013-02-25	2013-02-25	ENSG00000271321	ENSG00000271321			28644	protein-coding gene	gene with protein product			"CTAGE family, member 6, pseudogene"	CTAGE6P		12477932	Standard	NM_178561		Approved	MGC41943	uc003wdk.4	Q86UF2	OTTHUMG00000157770	ENST00000470691.2:c.1055T>C	7.37:g.143453697A>G	ENSP00000474388:p.Leu352Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A4FU29|Q3ZCM5	Missense_Mutation	SNP	ENST00000470691.2	37																																																																																					0.303	CTAGE6-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000349580.2	NM_178561		G	143453697	A	G	143453697	3	3	667	1	0	0	0	0	1	0	0	0	3997	72	3	3	1282	3	CTAGE6P	7	143453697	Missense_Mutation	SNP	A	TCGA-KN-8431-01A-11D-2310-10	38270762	143453697	15684966	23	42633										
SMARCA2	6595	broad.mit.edu	37	chr9	2039815	2039815	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	cagcagcagcagcagcagcaGcaacagcagccgcagcagca	12	15	0	0	rs574062756	byFrequency	TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr9:2039815G>A	ENST00000382203.1	+	4	914	c.705G>A	c.(703-705)caG>caA	p.Q235Q	SMARCA2_ENST00000357248.2_Silent_p.Q235Q|SMARCA2_ENST00000349721.2_Silent_p.Q235Q|RP11-264I13.2_ENST00000426860.1_RNA|SMARCA2_ENST00000382194.1_Silent_p.Q235Q|SMARCA2_ENST00000491574.1_3'UTR			P51531	SMCA2_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	235	Poly-Gln.				aortic smooth muscle cell differentiation (GO:0035887)|ATP catabolic process (GO:0006200)|chromatin remodeling (GO:0006338)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|nervous system development (GO:0007399)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)	intermediate filament cytoskeleton (GO:0045111)|intracellular membrane-bounded organelle (GO:0043231)|nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SWI/SNF complex (GO:0016514)	ATP binding (GO:0005524)|DNA-dependent ATPase activity (GO:0008094)|helicase activity (GO:0004386)|RNA polymerase II transcription coactivator activity (GO:0001105)|transcription coactivator activity (GO:0003713)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(3)|large_intestine(11)|liver(2)|lung(19)|ovary(3)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	56		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		agcagcagcagcaacagcagc	0.587													G|||	41	0.0081869	0.0151	0.0029	5008	,	,		10366	0.0089		0.0	False		,,,				2504	0.0102															0													10	13	12					9																	2039815		2161	4205	6366	SO:0001819	synonymous_variant	6595			D26155	CCDS34977.1, CCDS34978.1, CCDS75807.1, CCDS75808.1	9p24.3	2008-11-11	2006-11-09		ENSG00000080503	ENSG00000080503			11098	protein-coding gene	gene with protein product		600014		SNF2L2		8012116	Standard	NM_003070		Approved	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2	uc003zhc.3	P51531	OTTHUMG00000019445	ENST00000382203.1:c.705G>A	9.37:g.2039815G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B1ALG3|B1ALG4|D3DRH4|D3DRH5	Silent	SNP	ENST00000382203.1	37	CCDS34977.1																																																																																				0.587	SMARCA2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000051505.1	NM_003070		A	2039815	G	A	2039815	2	1	667	1	0	0	0	0	0	0	0	1	14782	962	34	2		2	SMARCA2	9	2039815	Silent	SNP	G	TCGA-KN-8431-01A-11D-2310-10		2039815	139173616	24	42634										
C8G	733	broad.mit.edu	37	chr9	139839860	139839860	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	ctcagaggccacgccggcccGcatcccccatcagcaccatc	8	21	2	1			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr9:139839860G>T	ENST00000224181.3	+	1	148	c.88G>T	c.(88-90)Gca>Tca	p.A30S	FBXW5_ENST00000483559.1_5'Flank|FBXW5_ENST00000325285.3_5'Flank	NM_000606.2	NP_000597.2	P07360	CO8G_HUMAN	complement component 8, gamma polypeptide	30					complement activation, alternative pathway (GO:0006957)|complement activation, classical pathway (GO:0006958)|cytolysis (GO:0019835)|innate immune response (GO:0045087)|regulation of complement activation (GO:0030449)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|membrane attack complex (GO:0005579)	retinol binding (GO:0019841)			NS(1)|prostate(1)|skin(1)	3	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.19)	OV - Ovarian serous cystadenocarcinoma(145;7.88e-06)|Epithelial(140;0.000107)		ACGCCGGCCCGCATCCCCCAT	0.647											OREG0019623	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													18	19	18					9																	139839860		2195	4295	6490	SO:0001583	missense	733			X06465	CCDS7017.1	9q	2011-11-15			ENSG00000176919	ENSG00000176919		"Complement system", "Lipocalins"	1354	protein-coding gene	gene with protein product		120930					Standard	NM_000606		Approved		uc004cka.2	P07360	OTTHUMG00000020955	ENST00000224181.3:c.88G>T	9.37:g.139839860G>T	ENSP00000224181:p.Ala30Ser	Somatic	1651	WXS	Illumina HiSeq	Phase_I	Q14CT8|Q14CU0|Q5SQ07	Missense_Mutation	SNP	ENST00000224181.3	37	CCDS7017.1	.	.	.	.	.	.	.	.	.	.	g	9.776	1.174015	0.21704	.	.	ENSG00000176919	ENST00000371634;ENST00000224181	T;T	0.23950	1.88;2.67	5.06	-5.45	0.02616	Calycin-like (1);Calycin (1);	1.279830	0.05352	N	0.532000	T	0.18551	0.0445	L	0.36672	1.1	0.09310	N	1	B	0.26258	0.145	B	0.20577	0.03	T	0.31916	-0.9926	10	0.46703	T	0.11	-4.3064	9.5945	0.39565	0.4247:0.199:0.3763:0.0	.	30	P07360	CO8G_HUMAN	S	30	ENSP00000360697:A30S;ENSP00000224181:A30S	ENSP00000224181:A30S	A	+	1	0	C8G	138959681	0.000000	0.05858	0.000000	0.03702	0.012000	0.07955	-1.305000	0.02738	-1.057000	0.03201	-0.328000	0.08392	GCA		0.647	C8G-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055178.1			T	139839860	G	T	139839860	3	4	667	1	0	0	0	0	1	0	0	0	2420	1087	38	4	90	4	C8G	9	139839860	Missense_Mutation	SNP	G	TCGA-KN-8431-01A-11D-2310-10	137800045	139839860	1373571	25	42635										
FBXO18	84893	bcgsc.ca	37	chr10	5960320	5960320	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	tacagctatcatgaacatagTtctgtctcagccatgtggga	9	9	3	1			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr10:5960320T>C	ENST00000362091.4	+	13	2094	c.1979T>C	c.(1978-1980)gTt>gCt	p.V660A	FBXO18_ENST00000379999.5_Missense_Mutation_p.V711A|FBXO18_ENST00000397269.3_Missense_Mutation_p.V147A	NM_001258453.1|NM_178150.2	NP_001245382.1|NP_835363.1	Q8NFZ0	FBX18_HUMAN	F-box protein, helicase, 18	660					DNA catabolic process, endonucleolytic (GO:0000737)|positive regulation of intrinsic apoptotic signaling pathway in response to DNA damage (GO:1902231)|positive regulation of protein phosphorylation (GO:0001934)|response to intra-S DNA damage checkpoint signaling (GO:0072429)	nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA binding (GO:0003677)			NS(2)|breast(2)|kidney(2)|large_intestine(16)|lung(9)|ovary(2)|prostate(3)|skin(3)|stomach(1)	40						ATGAACATAGTTCTGTCTCAG	0.512																																																0													151	156	154					10																	5960320		2203	4300	6503	SO:0001583	missense	84893			AK095343	CCDS7072.1, CCDS7073.1, CCDS73064.1	10p15.1	2004-08-24	2004-06-15		ENSG00000134452	ENSG00000134452		"F-boxes /  "other""	13620	protein-coding gene	gene with protein product		607222	"F-box only protein 18"			10531037, 11956208	Standard	NM_032807		Approved	FBH1, FLJ14590, Fbx18	uc001iit.4	Q8NFZ0	OTTHUMG00000017609	ENST00000362091.4:c.1979T>C	10.37:g.5960320T>C	ENSP00000355415:p.Val660Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JVB0|Q5JVB1|Q7Z4Q6|Q7Z4R0|Q8N1P5|Q8N586|Q96E82|Q96K67|Q96SW7|Q9UFB2	Missense_Mutation	SNP	ENST00000362091.4	37	CCDS7072.1	.	.	.	.	.	.	.	.	.	.	T	25.6	4.656864	0.88154	.	.	ENSG00000134452	ENST00000397269;ENST00000362091;ENST00000379999	D;D;D	0.82433	-1.61;-1.61;-1.61	6.0	6.0	0.97389	.	0.264586	0.38548	N	0.001659	D	0.84156	0.5410	L	0.39898	1.24	0.50313	D	0.999867	D;P;P	0.53745	0.962;0.918;0.931	P;P;P	0.52454	0.466;0.525;0.699	D	0.85834	0.1393	10	0.72032	D	0.01	-23.0821	16.2107	0.82151	0.0:0.0:0.0:1.0	.	711;660;586	Q8NFZ0-2;Q8NFZ0;Q2TAK1	.;FBX18_HUMAN;.	A	147;660;711	ENSP00000380439:V147A;ENSP00000355415:V660A;ENSP00000369335:V711A	ENSP00000355415:V660A	V	+	2	0	FBXO18	6000326	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	7.192000	0.77771	2.299000	0.77371	0.529000	0.55759	GTT		0.512	FBXO18-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046596.1	NM_032807		C	5960320	T	C	5960320	3	2	667	1	0	0	0	0	1	0	0	0	5738	1725	60	3	2191	3	FBXO18	10	5960320	Missense_Mutation	SNP	T	TCGA-KN-8431-01A-11D-2310-10		5960320	129574427	26	42636										
IDE	3416	ucsc.edu	37	chr10	94291641	94291641	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	tctctgtctttgcaactttcAtcgaacaaggggcacagaaa	8	10	3	1			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr10:94291641A>G	ENST00000265986.6	-	4	581	c.525T>C	c.(523-525)gaT>gaC	p.D175D		NM_004969.3	NP_004960.2	P14735	IDE_HUMAN	insulin-degrading enzyme	175					beta-amyloid metabolic process (GO:0050435)|bradykinin catabolic process (GO:0010815)|determination of adult lifespan (GO:0008340)|hormone catabolic process (GO:0042447)|insulin catabolic process (GO:1901143)|insulin metabolic process (GO:1901142)|insulin receptor signaling pathway (GO:0008286)|negative regulation of proteolysis (GO:0045861)|positive regulation of protein oligomerization (GO:0032461)|protein heterooligomerization (GO:0051291)|protein homooligomerization (GO:0051260)|protein homotetramerization (GO:0051289)|proteolysis (GO:0006508)|proteolysis involved in cellular protein catabolic process (GO:0051603)|ubiquitin homeostasis (GO:0010992)|viral process (GO:0016032)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|cytosolic proteasome complex (GO:0031597)|extracellular space (GO:0005615)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|peroxisomal matrix (GO:0005782)|peroxisome (GO:0005777)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|beta-amyloid binding (GO:0001540)|beta-endorphin binding (GO:0031626)|glycoprotein binding (GO:0001948)|insulin binding (GO:0043559)|metalloendopeptidase activity (GO:0004222)|peptide binding (GO:0042277)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)|ubiquitin binding (GO:0043130)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(10)|liver(1)|lung(10)|ovary(2)|urinary_tract(2)	33					"""Insulin(DB00071)|Bacitracin(DB00626)|Insulin Regular(DB00030)"	TGCAACTTTCATCGAACAAGG	0.363																																																0													73	68	70					10																	94291641		2203	4300	6503	SO:0001819	synonymous_variant	3416			M21188	CCDS7421.1, CCDS53554.1	10q23-q25	2007-03-27			ENSG00000119912	ENSG00000119912			5381	protein-coding gene	gene with protein product	"insulysin"	146680				2293021	Standard	NM_004969		Approved		uc001kia.3	P14735	OTTHUMG00000018759	ENST00000265986.6:c.525T>C	10.37:g.94291641A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R721|B7ZAU2|D3DR35|Q5T5N2	Silent	SNP	ENST00000265986.6	37	CCDS7421.1																																																																																				0.363	IDE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049393.1	NM_004969		G	94291641	A	G	94291641	2	3	667	1	0	0	0	0	0	0	0	1	7500	214	8	3		3	IDE	10	94291641	Silent	SNP	A	TCGA-KN-8431-01A-11D-2310-10	88331321	94291641	41243106	27	42637										
MUC6	4588	mdanderson.org	37	chr11	1017654	1017654	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	ttcctgtactggtggggttgGgggtgatgttggtggtagaa	19	3	0	2			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr11:1017654G>A	ENST00000421673.2	-	31	5197	c.5147C>T	c.(5146-5148)cCc>cTc	p.P1716L		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1716	Approximate repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GGTGGGGTTGGGGGTGATGTT	0.517																																																0													586	579	581					11																	1017654		2195	4281	6476	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5147C>T	11.37:g.1017654G>A	ENSP00000406861:p.Pro1716Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	7.873	0.728666	0.15507	.	.	ENSG00000184956	ENST00000421673	T	0.22539	1.95	1.58	0.52	0.17040	.	.	.	.	.	T	0.16854	0.0405	L	0.58101	1.795	0.09310	N	1	B	0.06786	0.001	B	0.01281	0.0	T	0.30357	-0.9981	9	0.33940	T	0.23	.	2.2855	0.04125	0.2093:0.0:0.4243:0.3664	.	1716	Q6W4X9	MUC6_HUMAN	L	1716	ENSP00000406861:P1716L	ENSP00000406861:P1716L	P	-	2	0	MUC6	1007654	0.000000	0.05858	0.003000	0.11579	0.046000	0.14306	0.316000	0.19469	0.185000	0.20105	0.271000	0.19318	CCC		0.517	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1017654	G	A	1017654	3	1	667	1	0	0	0	0	1	0	0	0	9987	1232	43	2	2184	2	MUC6	11	1017654	Missense_Mutation	SNP	G	TCGA-KN-8431-01A-11D-2310-10		1017654	133988862	28	42638			1	109		2	2	16	G		2.858787e-05
MUC6	4588	mdanderson.org	37	chr11	1017669	1017669	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	ggttgggggtgatgttggtgGtagaagttgaggtggcttca	20	2	1	3			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr11:1017669G>A	ENST00000421673.2	-	31	5182	c.5132C>T	c.(5131-5133)aCc>aTc	p.T1711I		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1711	Approximate repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GATGTTGGTGGTAGAAGTTGA	0.532																																																0													642	631	635					11																	1017669		2196	4287	6483	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5132C>T	11.37:g.1017669G>A	ENSP00000406861:p.Thr1711Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	7.740	0.700992	0.15172	.	.	ENSG00000184956	ENST00000421673	T	0.18810	2.19	1.44	0.44	0.16572	.	.	.	.	.	T	0.09686	0.0238	N	0.22421	0.69	0.09310	N	1	P	0.50819	0.939	B	0.33454	0.164	T	0.23013	-1.0200	9	0.38643	T	0.18	.	6.7634	0.23552	0.0:0.0:0.7213:0.2787	.	1711	Q6W4X9	MUC6_HUMAN	I	1711	ENSP00000406861:T1711I	ENSP00000406861:T1711I	T	-	2	0	MUC6	1007669	0.000000	0.05858	0.003000	0.11579	0.070000	0.16714	-0.005000	0.12855	0.159000	0.19401	0.281000	0.19383	ACC		0.532	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1017669	G	A	1017669	3	1	667	1	0	0	0	0	1	0	0	0	9987	1261	44	2	2199	2	MUC6	11	1017669	Missense_Mutation	SNP	G	TCGA-KN-8431-01A-11D-2310-10	15	1017669	133988847	29	42639			1	109		2	2	16	G		2.858787e-05
OR5M9	390162	broad.mit.edu	37	chr11	56230641	56230641	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	tctgataataagttttccagCattttgggggtaacgttgga	11	5	1	1			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr11:56230641C>A	ENST00000279791.1	-	1	236	c.237G>T	c.(235-237)atG>atT	p.M79I		NM_001004743.1	NP_001004743.1	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M, member 9	79						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(17)|ovary(1)|prostate(1)|skin(4)|urinary_tract(2)	36	Esophageal squamous(21;0.00448)					AGTTTTCCAGCATTTTGGGGG	0.453																																																0													87	89	89					11																	56230641		2201	4296	6497	SO:0001583	missense	390162			AB065747	CCDS31531.1	11q11	2012-08-09			ENSG00000150269	ENSG00000150269		"GPCR / Class A : Olfactory receptors"	15294	protein-coding gene	gene with protein product							Standard	NM_001004743		Approved		uc010rjj.2	Q8NGP3	OTTHUMG00000166874	ENST00000279791.1:c.237G>T	11.37:g.56230641C>A	ENSP00000279791:p.Met79Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEW5|Q96RB9	Missense_Mutation	SNP	ENST00000279791.1	37	CCDS31531.1	.	.	.	.	.	.	.	.	.	.	C	14.06	2.423338	0.43020	.	.	ENSG00000150269	ENST00000279791	T	0.05513	3.43	4.85	4.85	0.62838	GPCR, rhodopsin-like superfamily (1);	0.000000	0.56097	D	0.000034	T	0.10380	0.0254	L	0.58510	1.815	0.31057	N	0.714523	P	0.35226	0.491	B	0.35971	0.215	T	0.01935	-1.1244	10	0.87932	D	0	-37.1441	15.8179	0.78618	0.0:1.0:0.0:0.0	.	79	Q8NGP3	OR5M9_HUMAN	I	79	ENSP00000279791:M79I	ENSP00000279791:M79I	M	-	3	0	OR5M9	55987217	0.000000	0.05858	1.000000	0.80357	0.763000	0.43281	0.307000	0.19296	2.394000	0.81467	0.549000	0.68633	ATG		0.453	OR5M9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391638.1	NM_001004743		A	56230641	C	A	56230641	3	1	667	1	0	0	0	0	1	0	0	0	11184	710	25	4	697	4	OR5M9	11	56230641	Missense_Mutation	SNP	C	TCGA-KN-8431-01A-11D-2310-10	55212972	56230641	78775875	30	42640										
NUMA1	10068	broad.mit.edu	37	chr11	71715034	71715034	+	IGR	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	gcgggttccactgcgagtgtTgggggaagccttggacaggg	19	8	0	0			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr11:71715034T>G	ENST00000393703.4	+	0	1788				NUMA1_ENST00000358965.6_Missense_Mutation_p.N2065H|NUMA1_ENST00000351960.6_Missense_Mutation_p.N943H|NUMA1_ENST00000393695.3_Missense_Mutation_p.N2079H	NM_001039660.1	NP_001034749.1	O95998	I18BP_HUMAN	interleukin 18 binding protein						cellular response to hydrogen peroxide (GO:0070301)|cellular response to tumor necrosis factor (GO:0071356)|extracellular negative regulation of signal transduction (GO:1900116)|response to lipopolysaccharide (GO:0032496)|T-helper 1 type immune response (GO:0042088)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	interleukin-18 binding (GO:0042007)|receptor antagonist activity (GO:0048019)			endometrium(2)|kidney(1)|large_intestine(3)|lung(1)	7						CTGCGAGTGTTGGGGGAAGCC	0.642																																																0													68	79	75					11																	71715034		2200	4293	6493	SO:0001628	intergenic_variant	4926			AF110798	CCDS8206.2, CCDS44666.1	11q13	2013-01-11			ENSG00000137496	ENSG00000137496		"Interleukins and interleukin receptors", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5987	protein-coding gene	gene with protein product	"MC51L-53L-54L homolog gene product"	604113				10023777	Standard	NM_001145055		Approved	IL18BPa	uc001orf.1	O95998	OTTHUMG00000133713		11.37:g.71715034T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KUZ0|B7WPK4|O95993|O96027|Q9NZA9|Q9UBR7	Missense_Mutation	SNP	ENST00000393703.4	37	CCDS8206.2	.	.	.	.	.	.	.	.	.	.	T	15.27	2.785011	0.49997	.	.	ENSG00000137497	ENST00000351960;ENST00000358965;ENST00000393695;ENST00000359652;ENST00000536544	T;T;T	0.18338	2.22;2.7;2.7	4.94	3.79	0.43588	.	0.757314	0.12099	N	0.499697	T	0.20659	0.0497	N	0.14661	0.345	0.30119	N	0.80582	P;P;P;D	0.64830	0.547;0.514;0.547;0.994	B;B;B;P	0.62560	0.346;0.351;0.346;0.904	T	0.05273	-1.0895	10	0.54805	T	0.06	.	8.8246	0.35047	0.0:0.0:0.3009:0.6991	.	2085;2065;2079;943	Q4LE64;Q14980-2;Q14980;Q9BTE9	.;.;NUMA1_HUMAN;.	H	943;2065;2079;1628;1052	ENSP00000260051:N943H;ENSP00000351851:N2065H;ENSP00000377298:N2079H	ENSP00000260051:N943H	N	-	1	0	NUMA1	71392682	0.004000	0.15560	0.959000	0.39883	0.398000	0.30690	1.487000	0.35540	2.081000	0.62600	0.533000	0.62120	AAC		0.642	IL18BP-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000258012.2	NM_173042		G	71715034	T	G	71715034	1	3	667	0	1	0	0	0	0	0	0	0	10757	1812	63	5		5	NUMA1	11	71715034	IGR	SNP	T	TCGA-KN-8431-01A-11D-2310-10	15484393	71715034	63291482	31	42641										
MED17	9440	mdanderson.org	37	chr11	93517886	93517886	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	accgagggcgacgcgcaggaGtggccgggcgccgggtccag	20	13	0	0	rs2848477	byFrequency	TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr11:93517886G>C	ENST00000251871.3	+	1	494	c.207G>C	c.(205-207)gaG>gaC	p.E69D	MED17_ENST00000530819.1_Missense_Mutation_p.E69D	NM_004268.4	NP_004259.3	Q9NVC6	MED17_HUMAN	mediator complex subunit 17	69			E -> D (in dbSNP:rs2848477). {ECO:0000269|PubMed:10198638, ECO:0000269|PubMed:10235266, ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:18691976, ECO:0000269|PubMed:19369195}.		androgen receptor signaling pathway (GO:0030521)|gene expression (GO:0010467)|intracellular steroid hormone receptor signaling pathway (GO:0030518)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|stem cell maintenance (GO:0019827)|transcription initiation from RNA polymerase II promoter (GO:0006367)	mediator complex (GO:0016592)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|receptor activity (GO:0004872)|RNA polymerase II transcription cofactor activity (GO:0001104)|thyroid hormone receptor binding (GO:0046966)|transcription coactivator activity (GO:0003713)|transcription cofactor activity (GO:0003712)|vitamin D receptor binding (GO:0042809)			large_intestine(2)|lung(11)|ovary(1)	14		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				ACGCGCAGGAGTGGCCGGGCG	0.726											OREG0021291	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	C|||	2833	0.565695	0.2821	0.7464	5008	,	,		13355	0.7411		0.6382	False		,,,				2504	0.5654															0								C	ASP/GLU	1525,2613		338,849,882	8	7	7		207	1.7	1	11	dbSNP_100	7	5300,2958		1815,1670,644	no	missense	MED17	NM_004268.4	45	2153,2519,1526	CC,CG,GG		35.8198,36.8536,44.9419	benign	69/652	93517886	6825,5571	2069	4129	6198	SO:0001583	missense	9440			AF104254	CCDS8295.1	11q21	2007-07-30	2007-07-30	2007-07-30	ENSG00000042429	ENSG00000042429			2375	protein-coding gene	gene with protein product		603810	"cofactor required for Sp1 transcriptional activation, subunit 6 (77kD)", "cofactor required for Sp1 transcriptional activation, subunit 6, 77kDa"	CRSP6		9989412, 10198638	Standard	NM_004268		Approved	CRSP77, TRAP80, DRIP80	uc001pem.4	Q9NVC6	OTTHUMG00000167497	ENST00000251871.3:c.207G>C	11.37:g.93517886G>C	ENSP00000251871:p.Glu69Asp	Somatic	1298	WXS	Illumina HiSeq	Phase_I	B3KN07|Q9HA81|Q9UNP7|Q9Y2W0|Q9Y660	Missense_Mutation	SNP	ENST00000251871.3	37	CCDS8295.1	1311	0.6002747252747253	130	0.26422764227642276	259	0.7154696132596685	427	0.7465034965034965	495	0.6530343007915568	C	3.538	-0.094237	0.07053	0.368536	0.641802	ENSG00000042429	ENST00000251871;ENST00000530819;ENST00000427225;ENST00000533359	T;T;T	0.55588	0.51;0.51;0.51	5.76	1.67	0.24075	.	0.143160	0.64402	N	0.000006	T	0.00012	0.0000	L	0.50333	1.59	0.51482	P	7.199999999996098E-5	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.41251	-0.9519	9	0.12103	T	0.63	-17.8592	6.367	0.21461	0.0:0.5236:0.2246:0.2518	rs2848477;rs17845635;rs17858567	69;69	Q9NVC6;Q9NVC6-2	MED17_HUMAN;.	D	69;69;39;69	ENSP00000251871:E69D;ENSP00000434459:E69D;ENSP00000431524:E69D	ENSP00000251871:E69D	E	+	3	2	MED17	93157534	0.996000	0.38824	1.000000	0.80357	0.330000	0.28571	0.190000	0.17057	0.391000	0.25143	-0.216000	0.12614	GAG		0.726	MED17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394800.2	NM_004268		C	93517886	G	C	93517886	3	2	667	1	0	0	0	0	1	0	0	0	9442	1020	36	4	209	4	MED17	11	93517886	Missense_Mutation	SNP	G	TCGA-KN-8431-01A-11D-2310-10	21802852	93517886	41488630	32	42642										
CNTN5	53942	mdanderson.org	37	chr11	99690461	99690461	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	gaattattattcccccatcaAtctttatcattcctcagatg	3	11	4	1	rs10893933		TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr11:99690461A>G	ENST00000524871.1	+	4	532	c.242A>G	c.(241-243)aAt>aGt	p.N81S	CNTN5_ENST00000279463.3_Missense_Mutation_p.N81S|CNTN5_ENST00000418526.2_Intron|CNTN5_ENST00000527185.1_Missense_Mutation_p.N81S|CNTN5_ENST00000528682.1_Missense_Mutation_p.N81S	NM_014361.3	NP_055176.1	O94779	CNTN5_HUMAN	contactin 5	81			N -> S (in dbSNP:rs10893933).		cell adhesion (GO:0007155)|sensory perception of sound (GO:0007605)	anchored component of membrane (GO:0031225)|cytoplasm (GO:0005737)|plasma membrane (GO:0005886)				NS(2)|breast(2)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(12)|lung(38)|ovary(2)|pancreas(2)|prostate(2)|skin(7)|upper_aerodigestive_tract(2)|urinary_tract(1)	81		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)		TCCCCCATCAATCTTTATCAT	0.428																																																0													53	52	52					11																	99690461		1877	4084	5961	SO:0001583	missense	53942			AB013802	CCDS53696.1, CCDS53697.1, CCDS58168.1	11q22.1	2013-02-11			ENSG00000149972	ENSG00000149972		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	2175	protein-coding gene	gene with protein product		607219					Standard	NM_014361		Approved	NB-2, hNB-2	uc021qpb.1	O94779	OTTHUMG00000167579	ENST00000524871.1:c.242A>G	11.37:g.99690461A>G	ENSP00000435637:p.Asn81Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A1L4P0|B7ZM07|E9PKE8|O94780|Q49AF3	Missense_Mutation	SNP	ENST00000524871.1	37	CCDS53696.1	.	.	.	.	.	.	.	.	.	.	A	5.900	0.350168	0.11182	.	.	ENSG00000149972	ENST00000527185;ENST00000528682;ENST00000524871;ENST00000279463	T;T;T;T	0.53857	0.6;0.67;0.67;0.67	5.06	1.42	0.22433	.	0.775582	0.11744	N	0.533735	T	0.31513	0.0799	N	0.19112	0.55	0.31324	P	0.685664	B;B	0.19445	0.036;0.036	B;B	0.15052	0.012;0.012	T	0.37619	-0.9698	9	0.08179	T	0.78	.	8.939	0.35718	0.7862:0.0:0.2138:0.0	rs10893933;rs10893933	81;81	E9PKE8;O94779	.;CNTN5_HUMAN	S	81	ENSP00000433575:N81S;ENSP00000436185:N81S;ENSP00000435637:N81S;ENSP00000279463:N81S	ENSP00000279463:N81S	N	+	2	0	CNTN5	99195671	0.984000	0.35163	0.688000	0.30117	0.746000	0.42486	2.566000	0.45948	0.128000	0.18479	0.528000	0.53228	AAT		0.428	CNTN5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395148.2	NM_014361		G	99690461	A	G	99690461	3	3	667	1	0	0	0	0	1	0	0	0	3646	101	4	3	248	3	CNTN5	11	99690461	Missense_Mutation	SNP	A	TCGA-KN-8431-01A-11D-2310-10	6172575	99690461	35316055	33	42643										
LST-3TM12	338821	hgsc.bcm.edu	37	chr12	21168673	21168673	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	agaaaggagatttgagatatCctcttctcttgttggtttaa	9	5	2	3	rs560786449		TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr12:21168673C>T	ENST00000421593.2	+	1	44	c.44C>T	c.(43-45)tCc>tTc	p.S15F	SLCO1B3_ENST00000553473.1_Intron|SLCO1B7_ENST00000554957.1_Intron|LST3_ENST00000381541.3_Intron|LST3_ENST00000540229.1_Intron	NM_001009562.4	NP_001009562.3	G3V0H7	SO1B7_HUMAN	solute carrier organic anion transporter family, member 1B7 (non-functional)	15						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(25)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	46						TTTGAGATATCCTCTTCTCTT	0.308													C|||	1	0.000199681	0.0008	0.0	5008	,	,		14693	0.0		0.0	False		,,,				2504	0.0															0													81	81	81					12																	21168673		2149	4285	6434	SO:0001583	missense	338821			AF401642	CCDS44843.1	12p12.3	2013-05-22			ENSG00000205754	ENSG00000205754		"Solute carriers"	32934	protein-coding gene	gene with protein product							Standard	NM_001009562		Approved	LST3, SLC21A21		G3V0H7	OTTHUMG00000169045	ENST00000421593.2:c.44C>T	12.37:g.21168673C>T	ENSP00000394168:p.Ser15Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q71QF0	Missense_Mutation	SNP	ENST00000421593.2	37	CCDS44843.1	.	.	.	.	.	.	.	.	.	.	.	13.32	2.201898	0.38905	.	.	ENSG00000205754	ENST00000421593	D	0.85171	-1.95	2.68	2.68	0.31781	.	0.613533	0.18029	N	0.153991	D	0.92011	0.7469	M	0.86502	2.82	0.80722	D	1	D	0.59357	0.985	D	0.65987	0.94	D	0.92969	0.6396	10	0.87932	D	0	.	12.7175	0.57123	0.0:1.0:0.0:0.0	.	15	G3V0H7	.	F	15	ENSP00000394168:S15F	ENSP00000394168:S15F	S	+	2	0	SLCO1B7	21059940	0.541000	0.26417	0.931000	0.37212	0.210000	0.24377	6.583000	0.74053	1.476000	0.48215	0.407000	0.27541	TCC		0.308	SLCO1B7-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000402066.1	NM_001009562		T	21168673	C	T	21168673	3	4	667	1	0	0	0	0	1	0	0	0	9073	855	30	2	46	2	LST-3TM12	12	21168673	Missense_Mutation	SNP	C	TCGA-KN-8431-01A-11D-2310-10		21168673	112683222	34	42644										
KDM2B	84678	ucsc.edu	37	chr12	121891003	121891003	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	catgtccttgcagaagtggcActctccgcactcggtccgca	10	15	1	1			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr12:121891003A>G	ENST00000377071.4	-	13	1951	c.1879T>C	c.(1879-1881)Tgc>Cgc	p.C627R	KDM2B_ENST00000536437.1_Missense_Mutation_p.C510R|KDM2B_ENST00000377069.4_Missense_Mutation_p.C596R|KDM2B_ENST00000542973.1_5'UTR	NM_032590.4	NP_115979.3	Q8NHM5	KDM2B_HUMAN	lysine (K)-specific demethylase 2B	627					embryonic camera-type eye morphogenesis (GO:0048596)|forebrain development (GO:0030900)|fourth ventricle development (GO:0021592)|hindbrain development (GO:0030902)|histone demethylation (GO:0016577)|histone H2A monoubiquitination (GO:0035518)|initiation of neural tube closure (GO:0021993)|lateral ventricle development (GO:0021670)|midbrain development (GO:0030901)|midbrain-hindbrain boundary morphogenesis (GO:0021555)|negative regulation of neural precursor cell proliferation (GO:2000178)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|spermatogenesis (GO:0007283)|third ventricle development (GO:0021678)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone demethylase activity (GO:0032452)|histone demethylase activity (H3-K36 specific) (GO:0051864)|rRNA binding (GO:0019843)|zinc ion binding (GO:0008270)			breast(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(8)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	19						CAGAAGTGGCACTCTCCGCAC	0.692																																																0													26	31	29					12																	121891003		2048	4183	6231	SO:0001583	missense	84678			AJ459424	CCDS41849.1, CCDS41850.1	12q24.31	2014-02-18	2009-04-06	2009-04-06	ENSG00000089094	ENSG00000089094		"F-boxes / Leucine-rich repeats", "Chromatin-modifying enzymes / K-demethylases"	13610	protein-coding gene	gene with protein product	"jumonji C domain-containing histone demethylase 1B"	609078	"F-box and leucine-rich repeat protein 10"	FBXL10		10799292	Standard	NM_032590		Approved	PCCX2, CXXC2, Fbl10, JHDM1B	uc001uat.3	Q8NHM5	OTTHUMG00000169071	ENST00000377071.4:c.1879T>C	12.37:g.121891003A>G	ENSP00000366271:p.Cys627Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8MRS1|Q8NCI2|Q96HC7|Q96SL0|Q96T03|Q9NS96|Q9UF75	Missense_Mutation	SNP	ENST00000377071.4	37	CCDS41850.1	.	.	.	.	.	.	.	.	.	.	A	23.9	4.474763	0.84640	.	.	ENSG00000089094	ENST00000397480;ENST00000377069;ENST00000377071;ENST00000536437;ENST00000397478;ENST00000540043;ENST00000261824	T;T;T	0.77229	-0.16;-0.8;-1.08	5.03	5.03	0.67393	Zinc finger, CXXC-type (2);	0.000000	0.56097	D	0.000023	D	0.91043	0.7182	H	0.94847	3.59	0.80722	D	1	D;D;D;D;D	0.76494	0.999;0.999;0.999;0.997;0.999	D;D;D;D;D	0.87578	0.998;0.998;0.998;0.988;0.998	D	0.93505	0.6848	10	0.87932	D	0	-17.4654	14.9219	0.70843	1.0:0.0:0.0:0.0	.	67;510;627;596;67	B7ZB05;Q1RLM7;Q8NHM5;A8MRS1;B4DSN4	.;.;KDM2B_HUMAN;.;.	R	627;596;627;510;627;67;627	ENSP00000366269:C596R;ENSP00000366271:C627R;ENSP00000445196:C510R	ENSP00000261824:C627R	C	-	1	0	KDM2B	120375386	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.126000	0.94411	2.112000	0.64535	0.454000	0.30748	TGC		0.692	KDM2B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000402132.2	NM_032590		G	121891003	A	G	121891003	3	3	667	1	0	0	0	0	1	0	0	0	8132	159	6	3	2227	3	KDM2B	12	121891003	Missense_Mutation	SNP	A	TCGA-KN-8431-01A-11D-2310-10	100722330	121891003	11960892	35	42645										
FLJ10357	55701	mdanderson.org	37	chr14	21549893	21549893	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	agaggaggatccagcaacacGtgggagaggaggcgagccca	17	9	0	2	rs7143633	byFrequency	TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr14:21549893G>C	ENST00000298694.4	+	14	2993	c.2866G>C	c.(2866-2868)Gtg>Ctg	p.V956L	ARHGEF40_ENST00000298693.3_Missense_Mutation_p.V956L			Q8TER5	ARH40_HUMAN	Rho guanine nucleotide exchange factor (GEF) 40	956			V -> L (in dbSNP:rs7143633). {ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:17974005}.			cytoplasm (GO:0005737)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			large_intestine(4)|ovary(3)|upper_aerodigestive_tract(2)	9						CCAGCAACACGTGGGAGAGGA	0.741													C|||	3908	0.780351	0.798	0.8963	5008	,	,		15114	0.5546		0.836	False		,,,				2504	0.8497															0								C	LEU/VAL	3448,786		1409,630,78	8	10	9		2866	4.8	1	14	dbSNP_116	9	7161,1095		3118,925,85	yes	missense	ARHGEF40	NM_018071.3	32	4527,1555,163	CC,CG,GG		13.2631,18.564,15.06	benign	956/1520	21549893	10609,1881	2117	4128	6245	SO:0001583	missense	55701				CCDS32041.1	14q11.2	2012-07-24			ENSG00000165801	ENSG00000165801		"Rho guanine nucleotide exchange factors"	25516	protein-coding gene	gene with protein product		610018				16143467	Standard	NM_001278529		Approved	solo, FLJ10357	uc001vzp.3	Q8TER5		ENST00000298694.4:c.2866G>C	14.37:g.21549893G>C	ENSP00000298694:p.Val956Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A5PL07|Q9BWP5|Q9H7L6|Q9NTF9|Q9NW24	Missense_Mutation	SNP	ENST00000298694.4	37	CCDS32041.1	1650	0.7554945054945055	392	0.7967479674796748	323	0.8922651933701657	308	0.5384615384615384	627	0.8271767810026385	C	0.838	-0.743038	0.03088	0.81436	0.867369	ENSG00000165801	ENST00000298694;ENST00000298693	T;T	0.01821	4.67;4.62	5.71	4.76	0.60689	.	0.000000	0.43260	N	0.000599	T	0.00012	0.0000	N	0.01352	-0.895	0.80722	P	0.0	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.25152	-1.0140	9	0.02654	T	1	.	12.2401	0.54538	0.0:0.6703:0.3297:0.0	rs7143633;rs61154299;rs7143633	956;956;242	Q8TER5-4;Q8TER5;Q8TER5-2	.;ARH40_HUMAN;.	L	956	ENSP00000298694:V956L;ENSP00000298693:V956L	ENSP00000298693:V956L	V	+	1	0	ARHGEF40	20619733	0.310000	0.24527	0.974000	0.42286	0.417000	0.31264	0.545000	0.23268	1.428000	0.47296	-0.216000	0.12614	GTG		0.741	ARHGEF40-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413122.1			C	21549893	G	C	21549893	3	2	667	1	0	0	0	0	1	0	0	0	5933	1145	40	4	2920	4	FLJ10357	14	21549893	Missense_Mutation	SNP	G	TCGA-KN-8431-01A-11D-2310-10		21549893	85799647	36	42646										
MYH7	4625	broad.mit.edu;mdanderson.org	37	chr14	23892897	23892897	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	gtcagcttggcaatgatctcAtccagcccagccatctcctc	7	16	3	1	rs140244068		TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr14:23892897A>T	ENST00000355349.3	-	24	3120	c.2958T>A	c.(2956-2958)gaT>gaA	p.D986E		NM_000257.2	NP_000248.2	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	986					adult heart development (GO:0007512)|ATP catabolic process (GO:0006200)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|regulation of heart rate (GO:0002027)|regulation of the force of heart contraction (GO:0002026)|striated muscle contraction (GO:0006941)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)	cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|muscle myosin complex (GO:0005859)|myosin complex (GO:0016459)|myosin filament (GO:0032982)|nucleus (GO:0005634)|sarcomere (GO:0030017)|stress fiber (GO:0001725)|Z disc (GO:0030018)	actin-dependent ATPase activity (GO:0030898)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microfilament motor activity (GO:0000146)			NS(3)|breast(4)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(5)|large_intestine(19)|lung(57)|ovary(5)|prostate(9)|skin(5)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(5)	137	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		CAATGATCTCATCCAGCCCAG	0.552																																																0													152	144	147					14																	23892897		2203	4300	6503	SO:0001583	missense	4625			M58018	CCDS9601.1	14q11.2-q13	2014-09-17	2006-09-29		ENSG00000092054	ENSG00000092054		"Myosins / Myosin superfamily : Class II"	7577	protein-coding gene	gene with protein product		160760	"myopathy, distal 1", "myosin, heavy polypeptide 7, cardiac muscle, beta"	CMH1, MPD1		2494889, 8483915, 15322983	Standard	XM_005267696		Approved	CMD1S	uc001wjx.3	P12883	OTTHUMG00000028755	ENST00000355349.3:c.2958T>A	14.37:g.23892897A>T	ENSP00000347507:p.Asp986Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A2TDB6|B6D424|Q14836|Q14837|Q14904|Q16579|Q2M1Y6|Q92679|Q9H1D5|Q9UDA2|Q9UMM8	Missense_Mutation	SNP	ENST00000355349.3	37	CCDS9601.1	.	.	.	.	.	.	.	.	.	.	A	18.20	3.571521	0.65765	.	.	ENSG00000092054	ENST00000355349;ENST00000544444	D	0.88664	-2.41	5.06	-3.3	0.05003	.	.	.	.	.	T	0.82268	0.5000	N	0.20483	0.58	0.40115	D	0.976535	P	0.39282	0.666	P	0.45712	0.491	T	0.75010	-0.3468	9	0.42905	T	0.14	.	11.5747	0.50854	0.6067:0.0:0.3933:0.0	.	986	P12883	MYH7_HUMAN	E	986	ENSP00000347507:D986E	ENSP00000347507:D986E	D	-	3	2	MYH7	22962737	0.743000	0.28239	0.990000	0.47175	0.962000	0.63368	0.029000	0.13666	-0.447000	0.07138	-0.290000	0.09829	GAT		0.552	MYH7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071798.3	NM_000257		T	23892897	A	T	23892897	3	4	667	1	0	0	0	0	1	0	0	0	10046	214	8	5	2917	5	MYH7	14	23892897	Missense_Mutation	SNP	A	TCGA-KN-8431-01A-11D-2310-10	2343004	23892897	83456643	37	42647										
SOS2	6655	mdanderson.org;bcgsc.ca	37	chr14	50626363	50626363	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	tctaacattcgatctagagtActacgataatgaagagaaat	7	6	2	3			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr14:50626363A>T	ENST00000216373.5	-	10	1912	c.1638T>A	c.(1636-1638)agT>agA	p.S546R	SOS2_ENST00000555794.1_5'UTR|SOS2_ENST00000543680.1_Missense_Mutation_p.S513R	NM_006939.2	NP_008870.2	Q07890	SOS2_HUMAN	son of sevenless homolog 2 (Drosophila)	546	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				apoptotic signaling pathway (GO:0097190)|axon guidance (GO:0007411)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of small GTPase mediated signal transduction (GO:0051057)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	DNA binding (GO:0003677)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(13)|lung(16)|ovary(2)|skin(1)	39	all_epithelial(31;0.000822)|Breast(41;0.0065)					GATCTAGAGTACTACGATAAT	0.343																																																0													106	110	109					14																	50626363		2203	4300	6503	SO:0001583	missense	6655			L13858	CCDS9697.1	14q21	2013-01-10	2001-12-04		ENSG00000100485	ENSG00000100485		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	11188	protein-coding gene	gene with protein product		601247	"son of sevenless (Drosophilia) homolog 2"			8276400	Standard	NM_006939		Approved		uc001wxs.4	Q07890	OTTHUMG00000140292	ENST00000216373.5:c.1638T>A	14.37:g.50626363A>T	ENSP00000216373:p.Ser546Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKT6|D3DSB4|Q15503|Q17RN1	Missense_Mutation	SNP	ENST00000216373.5	37	CCDS9697.1	.	.	.	.	.	.	.	.	.	.	A	14.73	2.621350	0.46736	.	.	ENSG00000100485	ENST00000216373;ENST00000543680	D;D	0.88124	-2.34;-2.34	5.24	1.63	0.23807	Pleckstrin homology-type (1);Pleckstrin homology domain (1);	0.122555	0.85682	D	0.000000	D	0.87951	0.6307	M	0.81942	2.565	0.54753	D	0.999985	P;P;D	0.58620	0.866;0.913;0.983	B;B;P	0.48030	0.391;0.342;0.564	D	0.85809	0.1378	10	0.56958	D	0.05	.	9.9675	0.41734	0.5506:0.0:0.4494:0.0	.	513;576;546	B7ZKT6;Q59G32;Q07890	.;.;SOS2_HUMAN	R	546;513	ENSP00000216373:S546R;ENSP00000445328:S513R	ENSP00000216373:S546R	S	-	3	2	SOS2	49696113	0.972000	0.33761	1.000000	0.80357	0.991000	0.79684	0.220000	0.17660	0.099000	0.17552	0.477000	0.44152	AGT		0.343	SOS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276878.2			T	50626363	A	T	50626363	3	4	667	1	0	0	0	0	1	0	0	0	14950	388	14	5	2416	5	SOS2	14	50626363	Missense_Mutation	SNP	A	TCGA-KN-8431-01A-11D-2310-10	26733466	50626363	56723177	38	42648										
SOS2	6655	broad.mit.edu;mdanderson.org	37	chr14	50626456	50626456	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	atgctgttctcatctttggaTactaattcaaatgcatgctt	6	8	3	0			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr14:50626456T>A	ENST00000216373.5	-	10	1819	c.1545A>T	c.(1543-1545)gtA>gtT	p.V515V	SOS2_ENST00000555794.1_5'UTR|SOS2_ENST00000543680.1_Silent_p.V482V	NM_006939.2	NP_008870.2	Q07890	SOS2_HUMAN	son of sevenless homolog 2 (Drosophila)	515	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				apoptotic signaling pathway (GO:0097190)|axon guidance (GO:0007411)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of small GTPase mediated signal transduction (GO:0051057)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	DNA binding (GO:0003677)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(13)|lung(16)|ovary(2)|skin(1)	39	all_epithelial(31;0.000822)|Breast(41;0.0065)					CATCTTTGGATACTAATTCAA	0.343																																																0													86	88	87					14																	50626456		2203	4300	6503	SO:0001819	synonymous_variant	6655			L13858	CCDS9697.1	14q21	2013-01-10	2001-12-04		ENSG00000100485	ENSG00000100485		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	11188	protein-coding gene	gene with protein product		601247	"son of sevenless (Drosophilia) homolog 2"			8276400	Standard	NM_006939		Approved		uc001wxs.4	Q07890	OTTHUMG00000140292	ENST00000216373.5:c.1545A>T	14.37:g.50626456T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKT6|D3DSB4|Q15503|Q17RN1	Silent	SNP	ENST00000216373.5	37	CCDS9697.1																																																																																				0.343	SOS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276878.2			A	50626456	T	A	50626456	2	1	667	1	0	0	0	0	0	0	0	1	14950	1393	49	5		5	SOS2	14	50626456	Silent	SNP	T	TCGA-KN-8431-01A-11D-2310-10	93	50626456	56723084	39	42649										
C14orf73	91828	broad.mit.edu;ucsc.edu	37	chr14	103576543	103576543	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	tgcccagtgccatggctgtgCtgatcacctgcgtctagttc	11	13	2	1			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr14:103576543C>T	ENST00000380069.3	+	11	2228	c.2152C>T	c.(2152-2154)Ctg>Ttg	p.L718L		NM_001077594.1	NP_001071062.1	Q17RC7	EX3L4_HUMAN	exocyst complex component 3-like 4	718					exocytosis (GO:0006887)	exocyst (GO:0000145)				cervix(2)|endometrium(2)|lung(4)|ovary(1)|skin(1)	10						CATGGCTGTGCTGATCACCTG	0.692																																																0													8	8	8					14																	103576543		2011	3950	5961	SO:0001819	synonymous_variant	91828			AK000671	CCDS32163.1	14q32.32	2011-01-31	2011-01-31	2011-01-31	ENSG00000205436	ENSG00000205436			20120	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 73"	C14orf73			Standard	NM_001077594		Approved		uc001ymk.3	Q17RC7		ENST00000380069.3:c.2152C>T	14.37:g.103576543C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14CR2	Silent	SNP	ENST00000380069.3	37	CCDS32163.1																																																																																				0.692	EXOC3L4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415663.1	XM_941093		T	103576543	C	T	103576543	2	4	667	1	0	0	0	0	0	0	0	1	1781	796	28	2		2	C14orf73	14	103576543	Silent	SNP	C	TCGA-KN-8431-01A-11D-2310-10	52950087	103576543	3772997	40	42650										
CHAC1	79094	broad.mit.edu	37	chr15	41247647	41247647	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	gaagtacctgaatgtgcgagAggcagtgcttggtggctacg	16	7	0	2			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr15:41247647A>G	ENST00000446533.3	+	3	779	c.470A>G	c.(469-471)gAg>gGg	p.E157G	CHAC1_ENST00000487220.1_5'UTR|CHAC1_ENST00000444189.2_Intron	NM_001142776.1|NM_024111.3	NP_001136248.1|NP_077016.2	Q9BUX1	CHAC1_HUMAN	ChaC, cation transport regulator homolog 1 (E. coli)	157					intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress (GO:0070059)|negative regulation of Notch signaling pathway (GO:0045746)|negative regulation of protein processing (GO:0010955)|neurogenesis (GO:0022008)|Notch signaling pathway (GO:0007219)|response to unfolded protein (GO:0006986)	cytosol (GO:0005829)|trans-Golgi network (GO:0005802)	Notch binding (GO:0005112)			endometrium(1)|large_intestine(1)|skin(1)	3		all_cancers(109;1.42e-13)|all_epithelial(112;1.48e-11)|Lung NSC(122;5.77e-09)|all_lung(180;1.08e-07)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;2.66e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.163)		AATGTGCGAGAGGCAGTGCTT	0.577																																																0													219	167	185					15																	41247647		2203	4299	6502	SO:0001583	missense	79094			BC019625	CCDS10070.2, CCDS45233.1	15q15.1	2013-09-12	2006-09-12		ENSG00000128965	ENSG00000128965			28680	protein-coding gene	gene with protein product	"gamma-GCT acting on glutathione homolog 1"	614587	"ChaC, cation transport regulator-like 1 (E. coli)"			23070364	Standard	NM_024111		Approved	MGC4504	uc001znh.2	Q9BUX1	OTTHUMG00000130208	ENST00000446533.3:c.470A>G	15.37:g.41247647A>G	ENSP00000398105:p.Glu157Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VIA0	Missense_Mutation	SNP	ENST00000446533.3	37	CCDS10070.2	.	.	.	.	.	.	.	.	.	.	A	18.28	3.589030	0.66105	.	.	ENSG00000128965	ENST00000446533	T	0.72942	-0.7	6.03	6.03	0.97812	Butirosin biosynthesis, BtrG-like (1);	0.046444	0.85682	D	0.000000	D	0.90383	0.6990	H	0.97874	4.095	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.93794	0.7095	10	0.87932	D	0	-30.8996	16.5655	0.84588	1.0:0.0:0.0:0.0	.	157	Q9BUX1	CHAC1_HUMAN	G	157	ENSP00000398105:E157G	ENSP00000398105:E157G	E	+	2	0	CHAC1	39034939	1.000000	0.71417	0.842000	0.33263	0.012000	0.07955	9.271000	0.95698	2.302000	0.77476	0.533000	0.62120	GAG		0.577	CHAC1-001	KNOWN	downstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252526.3	NM_024111		G	41247647	A	G	41247647	3	3	667	1	0	0	0	0	1	0	0	0	3310	304	11	3	480	3	CHAC1	15	41247647	Missense_Mutation	SNP	A	TCGA-KN-8431-01A-11D-2310-10		41247647	61283745	41	42651										
CDH11	1009	hgsc.bcm.edu	37	chr16	65006841	65006841	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	aagacagtgatgttgagccaGgctgtttcctctctatccag	10	10	1	3			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr16:65006841G>T	ENST00000268603.4	-	9	1971	c.1356C>A	c.(1354-1356)gcC>gcA	p.A452A	CDH11_ENST00000394156.3_Silent_p.A452A|CDH11_ENST00000566827.1_Silent_p.A326A	NM_001797.2	NP_001788.2	P55287	CAD11_HUMAN	cadherin 11, type 2, OB-cadherin (osteoblast)	452	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				adherens junction organization (GO:0034332)|cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|corticospinal tract morphogenesis (GO:0021957)|homophilic cell adhesion (GO:0007156)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(5)|kidney(5)|large_intestine(19)|lung(40)|ovary(3)|prostate(3)|skin(2)|urinary_tract(2)	88		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		TGTTGAGCCAGGCTGTTTCCT	0.388			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)																													Dom	yes		16	16q22.1	1009	"cadherin 11, type 2, OB-cadherin (osteoblast)"		M	0													132	133	132					16																	65006841		2203	4300	6503	SO:0001819	synonymous_variant	1009			D21255	CCDS10803.1	16q21	2010-01-26			ENSG00000140937	ENSG00000140937		"Cadherins / Major cadherins"	1750	protein-coding gene	gene with protein product	"OB-Cadherin"	600023				9615235	Standard	NM_001797		Approved	OB, CAD11	uc002eoi.3	P55287	OTTHUMG00000137494	ENST00000268603.4:c.1356C>A	16.37:g.65006841G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5D6|A8MZC8|B7WP28|Q15065|Q15066|Q9UQ93|Q9UQ94	Silent	SNP	ENST00000268603.4	37	CCDS10803.1																																																																																				0.388	CDH11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268755.1	NM_033664		T	65006841	G	T	65006841	2	4	667	1	0	0	0	0	0	0	0	1	3099	987	35	4		4	CDH11	16	65006841	Silent	SNP	G	TCGA-KN-8431-01A-11D-2310-10		65006841	25347912	42	42652										
ZFHX3	463	mdanderson.org	37	chr16	72991715	72991715	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	ctgccgccgccgccgcagccAccgccgccgccgccgccccg	12	26	0	0	rs4788682	byFrequency	TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr16:72991715A>G	ENST00000268489.5	-	2	3002	c.2330T>C	c.(2329-2331)gTg>gCg	p.V777A	ZFHX3_ENST00000397992.5_Intron	NM_006885.3	NP_008816.3	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3	777	Poly-Ala.		V -> A (in dbSNP:rs4788682). {ECO:0000269|PubMed:7592926}.		brain development (GO:0007420)|cell cycle arrest (GO:0007050)|muscle organ development (GO:0007517)|negative regulation of myoblast differentiation (GO:0045662)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of myoblast differentiation (GO:0045663)|regulation of neuron differentiation (GO:0045664)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	enzyme binding (GO:0019899)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)			NS(3)|breast(7)|cervix(2)|endometrium(18)|haematopoietic_and_lymphoid_tissue(5)|kidney(8)|large_intestine(22)|liver(1)|lung(46)|ovary(5)|pancreas(1)|prostate(15)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(11)	153		Ovarian(137;0.13)				cgccgcagccaccgccgccgc	0.642													G|||	3834	0.765575	0.7474	0.8862	5008	,	,		9194	0.6855		0.8559	False		,,,				2504	0.6943															0								G	,ALA/VAL	3072,924		1241,590,167	11	18	16		,2330	4.5	0	16	dbSNP_111	16	6627,1175		2887,853,161	no	intron,missense	ZFHX3	NM_001164766.1,NM_006885.3	,64	4128,1443,328	GG,GA,AA		15.0602,23.1231,17.7912	,benign	,777/3704	72991715	9699,2099	1998	3901	5899	SO:0001583	missense	463			D10250	CCDS10908.1, CCDS54035.1	16q22.3	2012-03-09	2007-08-09	2007-08-09	ENSG00000140836	ENSG00000140836		"Zinc fingers, C2H2-type", "Homeoboxes / ZF class"	777	protein-coding gene	gene with protein product		104155	"AT-binding transcription factor 1"	ATBF1		1719379, 7592926	Standard	NM_006885		Approved	ZNF927	uc002fck.3	Q15911	OTTHUMG00000137599	ENST00000268489.5:c.2330T>C	16.37:g.72991715A>G	ENSP00000268489:p.Val777Ala	Somatic		WXS	Illumina HiSeq	Phase_I	D3DWS8|O15101|Q13719	Missense_Mutation	SNP	ENST00000268489.5	37	CCDS10908.1	1678	0.7683150183150184	361	0.733739837398374	312	0.861878453038674	376	0.6573426573426573	629	0.8298153034300791	G	1.367	-0.587199	0.03827	0.768769	0.849398	ENSG00000140836	ENST00000268489	T	0.72615	-0.67	5.49	4.54	0.55810	.	0.000000	0.36555	N	0.002526	T	0.00012	0.0000	N	0.08118	0	0.09310	P	1.0	B	0.09022	0.002	B	0.01281	0.0	T	0.36553	-0.9743	9	0.10902	T	0.67	.	12.3576	0.55184	0.1365:0.0:0.8635:0.0	rs4788682;rs57247863	777	Q15911	ZFHX3_HUMAN	A	777	ENSP00000268489:V777A	ENSP00000268489:V777A	V	-	2	0	ZFHX3	71549216	1.000000	0.71417	0.004000	0.12327	0.024000	0.10985	5.328000	0.65887	0.709000	0.31976	-0.215000	0.12644	GTG		0.642	ZFHX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269008.1	NM_006885		G	72991715	A	G	72991715	3	3	667	1	0	0	0	0	1	0	0	0	17646	159	6	3	8817	3	ZFHX3	16	72991715	Missense_Mutation	SNP	A	TCGA-KN-8431-01A-11D-2310-10	7984874	72991715	17363038	43	42653										
ACSF3	197322	broad.mit.edu;bcgsc.ca	37	chr16	89167160	89167160	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	gtcctgccggctggcgcctgCgagacacagaggaagtggtc	16	12	0	2			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr16:89167160C>T	ENST00000317447.4	+	3	448	c.71C>T	c.(70-72)gCg>gTg	p.A24V	ACSF3_ENST00000406948.3_Missense_Mutation_p.A24V|ACSF3_ENST00000378345.4_Intron	NM_001127214.2|NM_001243279.1|NM_001284316.1|NM_174917.3	NP_001120686.1|NP_001230208.1|NP_001271245.1|NP_777577.2	Q4G176	ACSF3_HUMAN	acyl-CoA synthetase family member 3	24					fatty acid biosynthetic process (GO:0006633)|fatty acid metabolic process (GO:0006631)|malonate catabolic process (GO:0090410)	mitochondrion (GO:0005739)	acid-thiol ligase activity (GO:0016878)|ATP binding (GO:0005524)|malonyl-CoA synthetase activity (GO:0090409)			central_nervous_system(1)|endometrium(1)|kidney(2)|lung(9)|prostate(1)|urinary_tract(1)	15				BRCA - Breast invasive adenocarcinoma(80;0.0281)		CTGGCGCCTGCGAGACACAGA	0.677																																																0													18	21	20					16																	89167160		2187	4275	6462	SO:0001583	missense	197322			AK075499	CCDS10974.1, CCDS73926.1	16q24.3	2013-01-15			ENSG00000176715	ENSG00000176715		"Acyl-CoA synthetase family"	27288	protein-coding gene	gene with protein product	"malonyl-CoA synthetase"	614245				17762044, 21846720	Standard	XM_005256293		Approved		uc010cig.2	Q4G176	OTTHUMG00000138044	ENST00000317447.4:c.71C>T	16.37:g.89167160C>T	ENSP00000320646:p.Ala24Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4J8|C9JQL6|Q6INA0|Q8N2F7	Missense_Mutation	SNP	ENST00000317447.4	37	CCDS10974.1	.	.	.	.	.	.	.	.	.	.	C	8.492	0.862167	0.17178	.	.	ENSG00000176715	ENST00000317447;ENST00000537290;ENST00000406948	T;T;T	0.55588	0.94;0.51;0.94	5.02	-2.79	0.05841	.	8.160970	0.00166	N	0.000000	T	0.21267	0.0512	N	0.02539	-0.55	0.09310	N	1	B	0.14805	0.011	B	0.04013	0.001	T	0.27571	-1.0070	10	0.06236	T	0.91	0.3531	3.8312	0.08874	0.1036:0.3059:0.4224:0.1682	.	24	Q4G176	ACSF3_HUMAN	V	24	ENSP00000320646:A24V;ENSP00000440734:A24V;ENSP00000384627:A24V	ENSP00000320646:A24V	A	+	2	0	ACSF3	87694661	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.995000	0.03712	-0.559000	0.06110	-1.027000	0.02421	GCG		0.677	ACSF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269919.1	NM_174917		T	89167160	C	T	89167160	3	4	667	1	0	0	0	0	1	0	0	0	176	768	27	1	73	1	ACSF3	16	89167160	Missense_Mutation	SNP	C	TCGA-KN-8431-01A-11D-2310-10	16175445	89167160	1187593	44	42654										
AMAC1L3	643664	mdanderson.org	37	chr17	7386090	7386091	+	Missense_Mutation	DNP	GC	GC	AA													0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	tgggggcagtggggatcctcGccttggtctccttcacatgt					rs7209977|rs541352076	byFrequency	TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr17:7386090_7386091GC>AA	ENST00000412468.2	+	2	902_903	c.787_788GC>AA	c.(787-789)GCc>AAc	p.A263N	POLR2A_ENST00000572844.1_5'Flank|POLR2A_ENST00000322644.6_5'Flank|ZBTB4_ENST00000311403.4_Intron	NM_001102614.1	NP_001096084.1	P0C7Q6	S35G6_HUMAN	solute carrier family 35, member G6	263			A -> T (in dbSNP:rs7209977).			integral component of membrane (GO:0016021)											GGGGATCCTCGCCTTGGTCTCC	0.634																																																0																																										SO:0001583	missense	643664				CCDS45603.1	17p13.1	2013-05-22	2011-08-03	2011-08-03		ENSG00000259224		"Solute carriers"	31351	protein-coding gene	gene with protein product			"transmembrane protein 21B", "acyl-malonyl condensing enzyme 1-like 3"	TMEM21B, AMAC1L3			Standard	NM_001102614		Approved		uc010cmj.1	P0C7Q6		Exception_encountered	17.37:g.7386090_7386091delinsAA	ENSP00000396523:p.Ala263Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	DNP	ENST00000412468.2	37	CCDS45603.1																																																																																				0.634	SLC35G6-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001102614		AA	7386091	GC	AA	7386090	3	1	667	1	0	0	0	0	1	0	0	0	561	1087	38	1	793	1	AMAC1L3	17	7386090	Missense_Mutation	DNP	GC	TCGA-KN-8431-01A-11D-2310-10		7386090	73809120	45	42655			2	110		2	2	25	N	GC_A	4.57402e-05
AMAC1L3	643664	mdanderson.org	37	chr17	7386114	7386114	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	tggtctccttcacatgtgtgAgctatgcggtcaccaaggcc	11	12	3	1	rs199996601	byFrequency	TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr17:7386114A>G	ENST00000412468.2	+	2	926	c.811A>G	c.(811-813)Agc>Ggc	p.S271G	POLR2A_ENST00000572844.1_5'Flank|POLR2A_ENST00000322644.6_5'Flank|ZBTB4_ENST00000311403.4_Intron	NM_001102614.1	NP_001096084.1	P0C7Q6	S35G6_HUMAN	solute carrier family 35, member G6	271						integral component of membrane (GO:0016021)											CACATGTGTGAGCTATGCGGT	0.592																																																0													137	112	120					17																	7386114		2203	4300	6503	SO:0001583	missense	643664				CCDS45603.1	17p13.1	2013-05-22	2011-08-03	2011-08-03		ENSG00000259224		"Solute carriers"	31351	protein-coding gene	gene with protein product			"transmembrane protein 21B", "acyl-malonyl condensing enzyme 1-like 3"	TMEM21B, AMAC1L3			Standard	NM_001102614		Approved		uc010cmj.1	P0C7Q6		ENST00000412468.2:c.811A>G	17.37:g.7386114A>G	ENSP00000396523:p.Ser271Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000412468.2	37	CCDS45603.1	.	.	.	.	.	.	.	.	.	.	A	0.943	-0.708930	0.03230	.	.	ENSG00000181222	ENST00000412468	T	0.52295	0.67	4.06	2.97	0.34412	.	.	.	.	.	T	0.34279	0.0892	L	0.44542	1.39	0.25098	N	0.99081	B	0.02656	0.0	B	0.04013	0.001	T	0.23940	-1.0174	9	0.22706	T	0.39	-2.9278	4.559	0.12151	0.7349:0.0:0.0961:0.1691	.	271	P0C7Q6	S35G6_HUMAN	G	271	ENSP00000396523:S271G	ENSP00000396523:S271G	S	+	1	0	SLC35G6	7326838	0.924000	0.31332	0.993000	0.49108	0.007000	0.05969	0.595000	0.24029	0.560000	0.29169	-0.516000	0.04426	AGC		0.592	SLC35G6-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001102614		G	7386114	A	G	7386114	3	3	667	1	0	0	0	0	1	0	0	0	561	304	11	3	817	3	AMAC1L3	17	7386114	Missense_Mutation	SNP	A	TCGA-KN-8431-01A-11D-2310-10	24	7386114	73809096	46	42656			2	110		2	2	25	N	GC_A	4.57402e-05
TP53	7157	broad.mit.edu	37	chr17	7578212	7578212	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	gggcaccaccacactatgtcGaaaagtgtttctgtcatcca	8	12	2	0	rs397516436		TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr17:7578212G>A	ENST00000269305.4	-	6	826	c.637C>T	c.(637-639)Cga>Tga	p.R213*	TP53_ENST00000359597.4_Nonsense_Mutation_p.R213*|TP53_ENST00000413465.2_Nonsense_Mutation_p.R213*|TP53_ENST00000574684.1_Intron|TP53_ENST00000445888.2_Nonsense_Mutation_p.R213*|TP53_ENST00000420246.2_Nonsense_Mutation_p.R213*|TP53_ENST00000455263.2_Nonsense_Mutation_p.R213*	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	213	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with FBXO42.|Required for interaction with ZNF385A.		R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation). {ECO:0000269|PubMed:16959974}.|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> W (in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.R213*(250)|p.R81*(21)|p.R120*(21)|p.0?(8)|p.?(5)|p.R213G(5)|p.R213fs*35(3)|p.R213fs*34(3)|p.D208_V216delDRNTFRHSV(1)|p.R120G(1)|p.D207_R213delDDRNTFR(1)|p.T211_S215delTFRHS(1)|p.R81fs*>11(1)|p.D208fs*1(1)|p.R120fs*35(1)|p.R81G(1)|p.R209_R213delRNTFR(1)|p.R213fs*2(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213R(1)|p.R213fs*32(1)|p.R209fs*6(1)|p.R213W(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	ACACTATGTCGAAAAGTGTTT	0.532		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	333	Substitution - Nonsense(292)|Deletion - Frameshift(8)|Whole gene deletion(8)|Substitution - Missense(8)|Deletion - In frame(5)|Insertion - Frameshift(5)|Unknown(5)|Complex - deletion inframe(1)|Substitution - coding silent(1)	large_intestine(89)|breast(45)|lung(37)|upper_aerodigestive_tract(30)|central_nervous_system(18)|skin(16)|oesophagus(15)|stomach(14)|ovary(14)|haematopoietic_and_lymphoid_tissue(10)|urinary_tract(9)|biliary_tract(8)|liver(8)|soft_tissue(5)|endometrium(5)|bone(4)|prostate(3)|thyroid(1)|pancreas(1)|autonomic_ganglia(1)	GRCh37	CM951226	TP53	M							132	118	123					17																	7578212		2203	4300	6503	SO:0001587	stop_gained	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.637C>T	17.37:g.7578212G>A	ENSP00000269305:p.Arg213*	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Nonsense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	G	37	6.039727	0.97226	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944;ENST00000414315	.	.	.	5.28	3.25	0.37280	.	0.057335	0.64402	D	0.000003	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-7.5444	12.7263	0.57173	0.0:0.0:0.701:0.299	.	.	.	.	X	213;213;213;213;213;213;202;120;81;120;81	.	ENSP00000269305:R213X	R	-	1	2	TP53	7518937	0.971000	0.33674	0.123000	0.21794	0.957000	0.61999	1.659000	0.37387	0.702000	0.31825	0.563000	0.77884	CGA		0.532	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		A	7578212	G	A	7578212	4	1	667	1	0	0	0	0	0	1	0	0	16393	1066	37	1	657	1	TP53	17	7578212	Nonsense_Mutation	SNP	G	TCGA-KN-8431-01A-11D-2310-10	192098	7578212	73616998	47	42657										
RAI1	10743	ucsc.edu	37	chr17	17712752	17712752	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	tttgaaatgtcccaaacataAggtaggggaccacagtgttt	10	7	0	1			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr17:17712752A>G	ENST00000353383.1	+	5	6177	c.5708A>G	c.(5707-5709)aAg>aGg	p.K1903R	RAI1_ENST00000261641.6_Intron	NM_030665.3	NP_109590.3	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	1903					circadian regulation of gene expression (GO:0032922)|negative regulation of multicellular organism growth (GO:0040015)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	enhancer binding (GO:0035326)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(14)|ovary(1)|prostate(1)|skin(5)|urinary_tract(7)	48				READ - Rectum adenocarcinoma(1115;0.0276)		CCCAAACATAAGGTAGGGGAC	0.567																																																0													114	126	122					17																	17712752		2203	4300	6503	SO:0001630	splice_region_variant	10743			AJ230819	CCDS11188.1	17p11.2	2011-02-08			ENSG00000108557	ENSG00000108557			9834	protein-coding gene	gene with protein product		607642	"Smith-Magenis syndrome chromosome region"	SMCR		10036180	Standard	NM_030665		Approved	DKFZP434A139, SMS, KIAA1820, MGC12824	uc002grm.3	Q7Z5J4	OTTHUMG00000059314	ENST00000353383.1:c.5709+1A>G	17.37:g.17712752A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3B4|Q8ND08|Q8WU64|Q96JK5|Q9H1C1|Q9H1C2|Q9UF69	Missense_Mutation	SNP	ENST00000353383.1	37	CCDS11188.1	.	.	.	.	.	.	.	.	.	.	A	22.8	4.338487	0.81911	.	.	ENSG00000108557	ENST00000353383	T	0.70282	-0.47	4.87	3.77	0.43336	Zinc finger, PHD-type (1);	.	.	.	.	T	0.74589	0.3736	L	0.31926	0.97	0.80722	D	1	D	0.71674	0.998	D	0.85130	0.997	T	0.73072	-0.4098	9	0.45353	T	0.12	.	11.187	0.48662	0.8455:0.1545:0.0:0.0	.	1903	Q7Z5J4	RAI1_HUMAN	R	1903	ENSP00000323074:K1903R	ENSP00000323074:K1903R	K	+	2	0	RAI1	17653477	1.000000	0.71417	1.000000	0.80357	0.862000	0.49288	7.258000	0.78371	0.797000	0.33971	-0.438000	0.05819	AAG		0.567	RAI1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131775.1	NM_030665	Missense_Mutation	G	17712752	A	G	17712752	5	3	667	1	0	0	0	0	0	0	1	0	13020	86	3	3	5718	3	RAI1	17	17712752	Splice_Site	SNP	A	TCGA-KN-8431-01A-11D-2310-10	10134540	17712752	63482458	48	42658										
HNF1B	6928	broad.mit.edu;hgsc.bcm.edu	37	chr17	36099508	36099510	+	In_Frame_Del	DEL	TTG	TTG	-													0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	gggtcttcataggggtgcccTtgttgagatgctgggagagg							TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr17:36099508_36099510delTTG	ENST00000225893.4	-	2	826_828	c.465_467delCAA	c.(463-468)aacaag>aag	p.N155del	HNF1B_ENST00000427275.2_In_Frame_Del_p.N155del|HNF1B_ENST00000560016.1_In_Frame_Del_p.N155del|HNF1B_ENST00000561193.1_In_Frame_Del_p.N155del	NM_000458.2|NM_001165923.1	NP_000449.1|NP_001159395.1	P35680	HNF1B_HUMAN	HNF1 homeobox B	155					anterior/posterior pattern specification (GO:0009952)|branching morphogenesis of an epithelial tube (GO:0048754)|embryonic digestive tract morphogenesis (GO:0048557)|endocrine pancreas development (GO:0031018)|endodermal cell fate specification (GO:0001714)|epithelial cell proliferation (GO:0050673)|genitalia development (GO:0048806)|hepatoblast differentiation (GO:0061017)|hindbrain development (GO:0030902)|inner cell mass cell differentiation (GO:0001826)|insulin secretion (GO:0030073)|kidney development (GO:0001822)|mesonephric duct formation (GO:0072181)|negative regulation of mesenchymal cell apoptotic process involved in mesonephric nephron morphogenesis (GO:0061296)|negative regulation of mesenchymal cell apoptotic process involved in metanephros development (GO:1900212)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription initiation from RNA polymerase II promoter (GO:0060261)|positive regulation of transcription, DNA-templated (GO:0045893)|pronephric nephron tubule development (GO:0039020)|pronephros development (GO:0048793)|regulation of branch elongation involved in ureteric bud branching (GO:0072095)|regulation of endodermal cell fate specification (GO:0042663)|regulation of pronephros size (GO:0035565)|regulation of Wnt signaling pathway (GO:0030111)|response to glucose (GO:0009749)|ureteric bud elongation (GO:0060677)	nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|protein homodimerization activity (GO:0042803)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|central_nervous_system(3)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(6)|kidney(3)|large_intestine(2)|liver(1)|lung(3)|ovary(3)|prostate(1)|skin(2)	28		Breast(25;0.00765)|Ovarian(249;0.15)	STAD - Stomach adenocarcinoma(1;0.0142)			AGGGGTGCCCTTGTTGAGATGCT	0.542																																					Colon(71;102 1179 9001 27917 43397)											0			GRCh37	CM060487	HNF1B	M																																				SO:0001651	inframe_deletion	6928			BC017714	CCDS11324.1, CCDS58538.1	17q12	2014-05-06	2007-08-24	2007-08-24	ENSG00000108753	ENSG00000275410		"Homeoboxes / HNF class"	11630	protein-coding gene	gene with protein product		189907	"transcription factor 2, hepatic; LF-B3; variant hepatic nuclear factor"	TCF2		1677179, 10484768	Standard	NM_000458		Approved	LFB3, VHNF1, HNF1beta, MODY5	uc002hok.4	P35680	OTTHUMG00000188478	ENST00000225893.4:c.465_467delCAA	17.37:g.36099511_36099513delTTG	ENSP00000225893:p.Asn155del	Somatic		WXS	Illumina HiSeq	Phase_I	B4DKM3|E0YMJ9	In_Frame_Del	DEL	ENST00000225893.4	37	CCDS11324.1																																																																																				0.542	HNF1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256807.3	NM_000458		-	36099510	TTG	-	36099508	7	5	667	1	0	1	0	1	0	0	0	0	7259	1609	56	0	1238	0	HNF1B	17	36099508	In_Frame_Del	DEL	TTG	TCGA-KN-8431-01A-11D-2310-10	18386756	36099508	45095702	49	42659	410	2								
HNF1B	6928	bcgsc.ca	37	chr17	36099509	36099511	+	In_Frame_Del	DEL	TTG	TTG	-													0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	ggtcttcataggggtgccctTgttgagatgctgggagaggt							TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr17:36099509_36099511delTTG	ENST00000225893.4	-	2	825_827	c.464_466delCAA	c.(463-468)acaaag>aag	p.T155del	HNF1B_ENST00000427275.2_In_Frame_Del_p.T155del|HNF1B_ENST00000560016.1_In_Frame_Del_p.T155del|HNF1B_ENST00000561193.1_In_Frame_Del_p.T155del	NM_000458.2|NM_001165923.1	NP_000449.1|NP_001159395.1	P35680	HNF1B_HUMAN	HNF1 homeobox B	155					anterior/posterior pattern specification (GO:0009952)|branching morphogenesis of an epithelial tube (GO:0048754)|embryonic digestive tract morphogenesis (GO:0048557)|endocrine pancreas development (GO:0031018)|endodermal cell fate specification (GO:0001714)|epithelial cell proliferation (GO:0050673)|genitalia development (GO:0048806)|hepatoblast differentiation (GO:0061017)|hindbrain development (GO:0030902)|inner cell mass cell differentiation (GO:0001826)|insulin secretion (GO:0030073)|kidney development (GO:0001822)|mesonephric duct formation (GO:0072181)|negative regulation of mesenchymal cell apoptotic process involved in mesonephric nephron morphogenesis (GO:0061296)|negative regulation of mesenchymal cell apoptotic process involved in metanephros development (GO:1900212)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription initiation from RNA polymerase II promoter (GO:0060261)|positive regulation of transcription, DNA-templated (GO:0045893)|pronephric nephron tubule development (GO:0039020)|pronephros development (GO:0048793)|regulation of branch elongation involved in ureteric bud branching (GO:0072095)|regulation of endodermal cell fate specification (GO:0042663)|regulation of pronephros size (GO:0035565)|regulation of Wnt signaling pathway (GO:0030111)|response to glucose (GO:0009749)|ureteric bud elongation (GO:0060677)	nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|protein homodimerization activity (GO:0042803)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|central_nervous_system(3)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(6)|kidney(3)|large_intestine(2)|liver(1)|lung(3)|ovary(3)|prostate(1)|skin(2)	28		Breast(25;0.00765)|Ovarian(249;0.15)	STAD - Stomach adenocarcinoma(1;0.0142)			GGGGTGCCCTTGTTGAGATGCTG	0.547																																					Colon(71;102 1179 9001 27917 43397)											0			GRCh37	CM060487	HNF1B	M																																				SO:0001651	inframe_deletion	6928			BC017714	CCDS11324.1, CCDS58538.1	17q12	2014-05-06	2007-08-24	2007-08-24	ENSG00000108753	ENSG00000275410		"Homeoboxes / HNF class"	11630	protein-coding gene	gene with protein product		189907	"transcription factor 2, hepatic; LF-B3; variant hepatic nuclear factor"	TCF2		1677179, 10484768	Standard	NM_000458		Approved	LFB3, VHNF1, HNF1beta, MODY5	uc002hok.4	P35680	OTTHUMG00000188478	ENST00000225893.4:c.464_466delCAA	17.37:g.36099509_36099511delTTG	ENSP00000225893:p.Thr155del	Somatic		WXS	Illumina HiSeq	Phase_I	B4DKM3|E0YMJ9	In_Frame_Del	DEL	ENST00000225893.4	37	CCDS11324.1																																																																																				0.547	HNF1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256807.3	NM_000458		-	36099511	TTG	-	36099509	7	5	667	1	0	1	0	1	0	0	0	0	7259	1821	63	0	1239	0	HNF1B	17	36099509	In_Frame_Del	DEL	TTG	TCGA-KN-8431-01A-11D-2310-10	1	36099509	45095701	50	42660	410	2								
UBTF	7343	broad.mit.edu	37	chr17	42289365	42289365	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	gtgcttctggatatagtctcTcatgatctcctgcagagcca	9	11	4	2			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr17:42289365T>C	ENST00000302904.4	-	9	1273	c.781A>G	c.(781-783)Aga>Gga	p.R261G	UBTF_ENST00000533177.1_Missense_Mutation_p.R224G|UBTF_ENST00000393606.3_Missense_Mutation_p.R224G|UBTF_ENST00000527034.1_Missense_Mutation_p.R224G|UBTF_ENST00000436088.1_Missense_Mutation_p.R261G|UBTF_ENST00000343638.5_Missense_Mutation_p.R224G|CTB-175E5.7_ENST00000586560.1_RNA|UBTF_ENST00000526094.1_Missense_Mutation_p.R224G|UBTF_ENST00000529383.1_Missense_Mutation_p.R261G			P17480	UBF1_HUMAN	upstream binding transcription factor, RNA polymerase I	261					chromatin silencing at rDNA (GO:0000183)|gene expression (GO:0010467)|positive regulation of transcription from RNA polymerase I promoter (GO:0045943)|regulation of transcription from RNA polymerase I promoter (GO:0006356)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription from RNA polymerase I promoter (GO:0006360)|transcription initiation from RNA polymerase I promoter (GO:0006361)	nucleolus (GO:0005730)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(2)|endometrium(1)|large_intestine(9)|lung(10)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	29		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.114)		ATATAGTCTCTCATGATCTCC	0.607																																																0													138	126	130					17																	42289365		2203	4300	6503	SO:0001583	missense	7343			BC042297	CCDS11480.1, CCDS42346.1	17q21.31	2014-03-25			ENSG00000108312	ENSG00000108312			12511	protein-coding gene	gene with protein product		600673				9126496	Standard	NM_001076683		Approved	UBF, NOR-90, UBF1, UBF2	uc010czs.3	P17480	OTTHUMG00000167585	ENST00000302904.4:c.781A>G	17.37:g.42289365T>C	ENSP00000302640:p.Arg261Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6R8	Missense_Mutation	SNP	ENST00000302904.4	37	CCDS11480.1	.	.	.	.	.	.	.	.	.	.	t	15.35	2.808102	0.50421	.	.	ENSG00000108312	ENST00000343638;ENST00000302904;ENST00000527034;ENST00000533177;ENST00000436088;ENST00000393606;ENST00000526094;ENST00000529383	D;D;D;D;D;D;D;D	0.98419	-4.88;-4.71;-4.92;-4.88;-4.71;-4.88;-4.88;-4.71	4.58	2.19	0.27852	High mobility group, superfamily (1);High mobility group, HMG1/HMG2 (4);	0.061420	0.64402	N	0.000008	D	0.98204	0.9406	M	0.61703	1.905	0.49213	D	0.999767	D;P;D	0.76494	0.999;0.856;0.999	D;P;D	0.87578	0.997;0.771;0.998	D	0.96981	0.9715	10	0.25751	T	0.34	-8.2683	12.7655	0.57388	0.0:0.0:0.5518:0.4481	.	224;224;261	E9PKP7;P17480-2;P17480	.;.;UBF1_HUMAN	G	224;261;224;224;261;224;224;261	ENSP00000345297:R224G;ENSP00000302640:R261G;ENSP00000431539:R224G;ENSP00000437180:R224G;ENSP00000390669:R261G;ENSP00000377231:R224G;ENSP00000432925:R224G;ENSP00000435708:R261G	ENSP00000302640:R261G	R	-	1	2	UBTF	39644891	1.000000	0.71417	0.999000	0.59377	0.958000	0.62258	3.366000	0.52343	1.032000	0.39892	0.254000	0.18369	AGA		0.607	UBTF-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395205.1	NM_014233		C	42289365	T	C	42289365	3	2	667	1	0	0	0	0	1	0	0	0	16921	1559	54	3	1565	3	UBTF	17	42289365	Missense_Mutation	SNP	T	TCGA-KN-8431-01A-11D-2310-10	6189856	42289365	38905845	51	42661										
ZACN	353174	ucsc.edu	37	chr17	74075997	74075997	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	ggacactcgcctggcctggaAcactagtgcacacccgcggc	12	16	0	0			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr17:74075997A>G	ENST00000334586.5	+	4	379	c.296A>G	c.(295-297)aAc>aGc	p.N99S	ZACN_ENST00000392503.2_Intron|EXOC7_ENST00000591724.1_5'Flank	NM_180990.3	NP_851321.2	Q401N2	ZACN_HUMAN	zinc activated ligand-gated ion channel	99					ion transmembrane transport (GO:0034220)|response to zinc ion (GO:0010043)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	extracellular ligand-gated ion channel activity (GO:0005230)|ligand-gated ion channel activity (GO:0015276)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|large_intestine(1)|lung(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	11						CTGGCCTGGAACACTAGTGCA	0.612																																																0													47	43	45					17																	74075997		2202	4299	6501	SO:0001583	missense	353174			AK122638	CCDS11740.2	17q25.3	2012-01-18	2008-04-17	2008-04-17	ENSG00000186919	ENSG00000186919		"Ligand-gated ion channels / Zinc activated channels"	29504	protein-coding gene	gene with protein product		610935	"ligand-gated ion channel, zinc activated 1"	LGICZ1		12381728, 16083862	Standard	NM_180990		Approved	LGICZ, L2, ZAC, ZAC1	uc002jqn.2	Q401N2	OTTHUMG00000157186	ENST00000334586.5:c.296A>G	17.37:g.74075997A>G	ENSP00000334854:p.Asn99Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q2TB29|Q6ZWK3|Q86YW4	Missense_Mutation	SNP	ENST00000334586.5	37	CCDS11740.2	.	.	.	.	.	.	.	.	.	.	A	14.59	2.580793	0.46006	.	.	ENSG00000186919	ENST00000334586	T	0.80738	-1.41	3.79	3.79	0.43588	Neurotransmitter-gated ion-channel ligand-binding (3);	0.314541	0.28538	N	0.014981	T	0.79885	0.4523	M	0.65975	2.015	0.51233	D	0.999919	P	0.43826	0.818	P	0.44647	0.456	T	0.81167	-0.1056	10	0.59425	D	0.04	-24.5066	10.1512	0.42794	1.0:0.0:0.0:0.0	.	99	Q401N2	ZACN_HUMAN	S	99	ENSP00000334854:N99S	ENSP00000334854:N99S	N	+	2	0	ZACN	71587592	0.972000	0.33761	0.755000	0.31263	0.354000	0.29330	2.868000	0.48436	1.587000	0.49959	0.533000	0.62120	AAC		0.612	ZACN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347827.2	NM_180990		G	74075997	A	G	74075997	3	3	667	1	0	0	0	0	1	0	0	0	17522	43	2	3	310	3	ZACN	17	74075997	Missense_Mutation	SNP	A	TCGA-KN-8431-01A-11D-2310-10	31786632	74075997	7119213	52	42662										
AZI1	22994	broad.mit.edu	37	chr17	79164828	79164828	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	accgctcctgaagcttccgcTccgactgctccagctcggag	10	17	0	1			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr17:79164828T>C	ENST00000269392.4	-	23	3078	c.2831A>G	c.(2830-2832)gAg>gGg	p.E944G	AZI1_ENST00000575907.1_Missense_Mutation_p.E908G|AZI1_ENST00000374782.3_Missense_Mutation_p.E905G|AZI1_ENST00000450824.2_Missense_Mutation_p.E941G	NM_014984.2	NP_055799.2	Q9UPN4	CP131_HUMAN		944					cell differentiation (GO:0030154)|G2/M transition of mitotic cell cycle (GO:0000086)|intraciliary transport involved in cilium morphogenesis (GO:0035735)|mitotic cell cycle (GO:0000278)|multicellular organismal development (GO:0007275)|positive regulation of cell proliferation (GO:0008284)|positive regulation of intracellular protein transport (GO:0090316)|regulation of centrosome duplication (GO:0010824)|spermatogenesis (GO:0007283)	BBSome (GO:0034464)|cell projection (GO:0042995)|centriolar satellite (GO:0034451)|centriole (GO:0005814)|centrosome (GO:0005813)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)	protein homodimerization activity (GO:0042803)			breast(1)|central_nervous_system(3)|endometrium(6)|kidney(3)|large_intestine(1)|lung(12)|ovary(2)|prostate(3)|urinary_tract(5)	36	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			AAGCTTCCGCTCCGACTGCTC	0.662																																																0													43	51	48					17																	79164828		2203	4299	6502	SO:0001583	missense	22994																														ENST00000269392.4:c.2831A>G	17.37:g.79164828T>C	ENSP00000269392:p.Glu944Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHI8|B2RN11|Q96F50	Missense_Mutation	SNP	ENST00000269392.4	37		.	.	.	.	.	.	.	.	.	.	T	24.2	4.503710	0.85176	.	.	ENSG00000141577	ENST00000450824;ENST00000374782;ENST00000269392	T;T;T	0.20881	2.04;2.06;2.05	4.49	4.49	0.54785	.	0.000000	0.85682	D	0.000000	T	0.43964	0.1271	M	0.66939	2.045	0.58432	D	0.999993	D;D;D;D	0.89917	0.999;0.993;1.0;1.0	D;P;D;D	0.76575	0.928;0.888;0.988;0.988	T	0.43718	-0.9374	10	0.72032	D	0.01	-26.681	13.9375	0.64034	0.0:0.0:0.0:1.0	.	941;944;905;941	B2RN10;Q9UPN4;Q9UPN4-3;Q9UPN4-2	.;AZI1_HUMAN;.;.	G	941;905;944	ENSP00000393583:E941G;ENSP00000363914:E905G;ENSP00000269392:E944G	ENSP00000269392:E944G	E	-	2	0	AZI1	76779423	1.000000	0.71417	0.985000	0.45067	0.919000	0.55068	4.810000	0.62598	1.900000	0.55004	0.482000	0.46254	GAG		0.662	AZI1-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000256070.1			C	79164828	T	C	79164828	3	2	667	1	0	0	0	0	1	0	0	0	1240	1551	54	3	436	3	AZI1	17	79164828	Missense_Mutation	SNP	T	TCGA-KN-8431-01A-11D-2310-10	5088831	79164828	2030382	53	42663										
INSL3	3640	mdanderson.org	37	chr19	17932289	17932289	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	gcagggcccagcagcaccagCgcccaggcgggcagacgggg	18	15	0	1	rs2286663	byFrequency	TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr19:17932289C>T	ENST00000317306.7	-	1	43	c.27G>A	c.(25-27)gcG>gcA	p.A9A	INSL3_ENST00000379695.5_Silent_p.A9A	NM_005543.3	NP_005534.2	P51460	INSL3_HUMAN	insulin-like 3 (Leydig cell)	9					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cell-cell signaling (GO:0007267)|in utero embryonic development (GO:0001701)|male gonad development (GO:0008584)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|oocyte maturation (GO:0001556)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of cell proliferation (GO:0008284)|spermatogenesis (GO:0007283)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|perinuclear region of cytoplasm (GO:0048471)	insulin receptor binding (GO:0005158)|protease binding (GO:0002020)|receptor binding (GO:0005102)			breast(1)|lung(1)	2						GCAGCACCAGCGCCCAGGCGG	0.726													C|||	615	0.122804	0.112	0.1513	5008	,	,		13113	0.2024		0.0547	False		,,,				2504	0.1053															0								C		234,3118		10,214,1452	4	7	6		27	-4.7	0.1	19	dbSNP_100	6	233,6007		3,227,2890	no	coding-synonymous	INSL3	NM_005543.2		13,441,4342	TT,TC,CC		3.734,6.9809,4.8686		9/132	17932289	467,9125	1676	3120	4796	SO:0001819	synonymous_variant	3640				CCDS12365.1, CCDS58655.1	19p13.2-p12	2013-02-26	2003-05-13			ENSG00000248099		"Endogenous ligands"	6086	protein-coding gene	gene with protein product	"prepro-INSL3"	146738	"relaxin-like factor"	RLNL		8020942	Standard	NM_001265587		Approved	RLF, MGC119818, MGC119819	uc010ebf.2	P51460		ENST00000317306.7:c.27G>A	19.37:g.17932289C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ72|G3XAG0|Q3KPI5|Q3KPI6|Q6YNB5|Q9UEA2|Q9UPH6	Silent	SNP	ENST00000317306.7	37	CCDS12365.1																																																																																				0.726	INSL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466836.1	NM_005543		T	17932289	C	T	17932289	2	4	667	1	0	0	0	0	0	0	0	1	7774	755	27	1		1	INSL3	19	17932289	Silent	SNP	C	TCGA-KN-8431-01A-11D-2310-10		17932289	41196694	54	42664										
DLL3	10683	broad.mit.edu	37	chr19	39994863	39994863	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	gcccgtcctctgctaccaccGgatgccttgtccctgggcct	10	18	1	0	rs139297205		TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr19:39994863G>A	ENST00000205143.4	+	5	812	c.805G>A	c.(805-807)Gga>Aga	p.G269R	DLL3_ENST00000356433.5_Missense_Mutation_p.G269R	NM_016941.3	NP_058637.1	Q9NYJ7	DLL3_HUMAN	delta-like 3 (Drosophila)	269					compartment pattern specification (GO:0007386)|negative regulation of neurogenesis (GO:0050768)|Notch signaling pathway (GO:0007219)|paraxial mesoderm development (GO:0048339)|skeletal system development (GO:0001501)|somitogenesis (GO:0001756)	integral component of membrane (GO:0016021)	Notch binding (GO:0005112)			breast(1)|central_nervous_system(2)|endometrium(3)|kidney(2)|large_intestine(4)|lung(7)	19	all_cancers(60;4.04e-06)|all_lung(34;1.77e-07)|Lung NSC(34;2.09e-07)|all_epithelial(25;1.13e-05)|Ovarian(47;0.159)		Epithelial(26;5.89e-26)|all cancers(26;1.96e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			TGCTACCACCGGATGCCTTGT	0.642																																																0			GRCh37	CM065111	DLL3	M	rs139297205	G	ARG/GLY,ARG/GLY	1,4405	2.1+/-5.4	0,1,2202	77	69	71		805,805	-0.6	0.2	19	dbSNP_134	71	5,8595	4.3+/-15.6	0,5,4295	yes	missense,missense	DLL3	NM_016941.3,NM_203486.2	125,125	0,6,6497	AA,AG,GG		0.0581,0.0227,0.0461	benign,benign	269/619,269/588	39994863	6,13000	2203	4300	6503	SO:0001583	missense	10683			AF241373	CCDS12537.1, CCDS12538.1	19q13.2	2008-05-14	2001-12-03			ENSG00000090932			2909	protein-coding gene	gene with protein product		602768	"delta (Drosophila)-like 3"			10364530, 10742114	Standard	NM_203486		Approved	SCDO1	uc002olx.2	Q9NYJ7		ENST00000205143.4:c.805G>A	19.37:g.39994863G>A	ENSP00000205143:p.Gly269Arg	Somatic		WXS	Illumina HiSeq	Phase_I	E9PFG2|Q8NBS4	Missense_Mutation	SNP	ENST00000205143.4	37	CCDS12538.1	.	.	.	.	.	.	.	.	.	.	G	4.072	0.011286	0.07912	2.27E-4	5.81E-4	ENSG00000090932	ENST00000356433;ENST00000205143	D;D	0.89617	-2.49;-2.54	5.4	-0.643	0.11482	.	0.427722	0.19935	N	0.102780	T	0.64627	0.2615	N	0.02158	-0.66	0.18873	N	0.999982	B;B;B	0.11235	0.004;0.002;0.0	B;B;B	0.06405	0.002;0.001;0.001	T	0.56817	-0.7916	9	.	.	.	.	4.0338	0.09721	0.2132:0.1101:0.5644:0.1123	.	269;269;269	Q8NBS4;Q9NYJ7;E9PFG2	.;DLL3_HUMAN;.	R	269	ENSP00000348810:G269R;ENSP00000205143:G269R	.	G	+	1	0	DLL3	44686703	0.991000	0.36638	0.191000	0.23289	0.009000	0.06853	2.220000	0.42908	0.369000	0.24510	-1.020000	0.02445	GGA		0.642	DLL3-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000464958.1			A	39994863	G	A	39994863	3	1	667	1	0	0	0	0	1	0	0	0	4569	1117	39	1	823	1	DLL3	19	39994863	Missense_Mutation	SNP	G	TCGA-KN-8431-01A-11D-2310-10	22062574	39994863	19134120	55	42665										
DYRK1B	9149	broad.mit.edu	37	chr19	40321175	40321176	+	Frame_Shift_Ins	INS	-	-	C													0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	ctggggtggcgcctgctgggINScccgccgcttcttcttcgca							TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr19:40321175_40321176insC	ENST00000593685.1	-	4	679_680	c.211_212insG	c.(211-213)gccfs	p.A71fs	DYRK1B_ENST00000348817.3_Frame_Shift_Ins_p.A71fs|DYRK1B_ENST00000323039.5_Frame_Shift_Ins_p.A71fs|DYRK1B_ENST00000601972.1_Frame_Shift_Ins_p.A71fs|DYRK1B_ENST00000430012.2_Frame_Shift_Ins_p.A71fs|DYRK1B_ENST00000597639.1_Frame_Shift_Ins_p.A71fs			Q9Y463	DYR1B_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1B	71					adipose tissue development (GO:0060612)|myoblast fusion (GO:0007520)|positive regulation of transcription, DNA-templated (GO:0045893)|protein phosphorylation (GO:0006468)	nucleus (GO:0005634)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|protein tyrosine kinase activity (GO:0004713)|transcription coactivator activity (GO:0003713)			central_nervous_system(1)|endometrium(1)|large_intestine(7)|lung(7)|ovary(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	24	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)		Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)			CGCCTGCTGGGCCCGCCGCTTC	0.584																																																0																																										SO:0001589	frameshift_variant	9149			Y17999	CCDS12543.1, CCDS12544.1, CCDS46075.1	19q13.2	2012-10-02			ENSG00000105204	ENSG00000105204	2.7.12.1		3092	protein-coding gene	gene with protein product	"minibrain-related kinase"	604556				9918863	Standard	XM_005259395		Approved	MIRK	uc002omj.3	Q9Y463		ENST00000593685.1:c.212dupG	19.37:g.40321178_40321178dupC	ENSP00000469863:p.Ala71fs	Somatic		WXS	Illumina HiSeq	Phase_I	O75258|O75788|O75789	Frame_Shift_Ins	INS	ENST00000593685.1	37	CCDS12543.1																																																																																				0.584	DYRK1B-006	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462874.2	NM_004714		C	40321176	-	C	40321175	7	5	667	1	0	1	1	0	0	0	0	0	4857	1203	42	0	1709	0	DYRK1B	19	40321175	Frame_Shift_Ins	INS	-	TCGA-KN-8431-01A-11D-2310-10	326312	40321175	18807808	56	42666										
ZNF180	7733	broad.mit.edu	37	chr19	44980907	44980907	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	ggcttttctccagtatgagtTctctgatgtacaacaagaac	8	9	2	3			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr19:44980907T>C	ENST00000221327.4	-	5	2072	c.1791A>G	c.(1789-1791)agA>agG	p.R597R	ZNF180_ENST00000585514.1_5'Flank|ZNF180_ENST00000391956.4_Silent_p.R572R|AC069278.4_ENST00000591684.1_lincRNA|ZNF180_ENST00000592529.1_Silent_p.R570R	NM_013256.3	NP_037388.2	Q9UJW8	ZN180_HUMAN	zinc finger protein 180	597					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(1)|endometrium(3)|kidney(5)|large_intestine(14)|lung(6)|ovary(2)|urinary_tract(1)	33		Prostate(69;0.0435)				CAGTATGAGTTCTCTGATGTA	0.418																																					Esophageal Squamous(180;1353 2003 32862 46574 49854)											0													107	109	108					19																	44980907		2203	4300	6503	SO:0001819	synonymous_variant	7733			AF192913	CCDS12639.1, CCDS62707.1, CCDS62708.1	19q13.2	2013-01-08	2006-08-22			ENSG00000167384		"Zinc fingers, C2H2-type", "-"	12970	protein-coding gene	gene with protein product		606740	"zinc finger protein 180 (HHZ168)"				Standard	NM_001288762		Approved	HHZ168	uc002ozf.4	Q9UJW8		ENST00000221327.4:c.1791A>G	19.37:g.44980907T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RCN6|B3KV56|K7EQX9|Q58F03|Q9P1U2	Silent	SNP	ENST00000221327.4	37	CCDS12639.1																																																																																				0.418	ZNF180-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000451601.1	NM_013256		C	44980907	T	C	44980907	2	2	667	1	0	0	0	0	0	0	0	1	17760	1780	62	3		3	ZNF180	19	44980907	Silent	SNP	T	TCGA-KN-8431-01A-11D-2310-10	4659732	44980907	14148076	57	42667										
SRC	6714	broad.mit.edu;bcgsc.ca	37	chr20	36022638	36022638	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	tactgctcaatgcagagaacCcgagagggaccttcctcgtg	11	12	1	2			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr20:36022638C>T	ENST00000373578.2	+	7	860	c.511C>T	c.(511-513)Ccg>Tcg	p.P171S	SRC_ENST00000360723.4_Missense_Mutation_p.P177S|SRC_ENST00000373567.2_Missense_Mutation_p.P171S|SRC_ENST00000358208.4_Missense_Mutation_p.P171S|SRC_ENST00000373558.2_Missense_Mutation_p.P177S|SRC_ENST00000445403.1_Missense_Mutation_p.P171S	NM_198291.1	NP_938033.1	P12931	SRC_HUMAN	SRC proto-oncogene, non-receptor tyrosine kinase	171	SH2. {ECO:0000255|PROSITE- ProRule:PRU00191}.				axon guidance (GO:0007411)|blood coagulation (GO:0007596)|bone resorption (GO:0045453)|branching involved in mammary gland duct morphogenesis (GO:0060444)|cell adhesion (GO:0007155)|cell cycle (GO:0007049)|cellular response to progesterone stimulus (GO:0071393)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|forebrain development (GO:0030900)|innate immune response (GO:0045087)|integrin-mediated signaling pathway (GO:0007229)|intracellular signal transduction (GO:0035556)|leukocyte migration (GO:0050900)|membrane organization (GO:0061024)|negative regulation of anoikis (GO:2000811)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of intrinsic apoptotic signaling pathway (GO:2001243)|negative regulation of mitochondrial depolarization (GO:0051902)|negative regulation of protein homooligomerization (GO:0032463)|neurotrophin TRK receptor signaling pathway (GO:0048011)|oogenesis (GO:0048477)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet activation (GO:0030168)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of integrin activation (GO:0033625)|positive regulation of podosome assembly (GO:0071803)|positive regulation of protein kinase B signaling (GO:0051897)|progesterone receptor signaling pathway (GO:0050847)|protein autophosphorylation (GO:0046777)|Ras protein signal transduction (GO:0007265)|regulation of bone resorption (GO:0045124)|regulation of caveolin-mediated endocytosis (GO:2001286)|regulation of cell-cell adhesion (GO:0022407)|regulation of early endosome to late endosome transport (GO:2000641)|regulation of epithelial cell migration (GO:0010632)|regulation of intracellular estrogen receptor signaling pathway (GO:0033146)|regulation of protein binding (GO:0043393)|regulation of vascular permeability (GO:0043114)|response to interleukin-1 (GO:0070555)|signal complex assembly (GO:0007172)|signal transduction (GO:0007165)|stress fiber assembly (GO:0043149)|T cell costimulation (GO:0031295)|transforming growth factor beta receptor signaling pathway (GO:0007179)|uterus development (GO:0060065)|viral process (GO:0016032)	caveola (GO:0005901)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|late endosome (GO:0005770)|lysosome (GO:0005764)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|enzyme binding (GO:0019899)|ephrin receptor binding (GO:0046875)|growth factor receptor binding (GO:0070851)|heme binding (GO:0020037)|integrin binding (GO:0005178)|ion channel binding (GO:0044325)|kinase activity (GO:0016301)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|phosphoprotein binding (GO:0051219)|protein kinase activity (GO:0004672)|protein tyrosine kinase activity (GO:0004713)|receptor binding (GO:0005102)|SH2 domain binding (GO:0042169)|SH3/SH2 adaptor activity (GO:0005070)			NS(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(16)|lung(4)|ovary(1)|prostate(1)|urinary_tract(1)	30		Myeloproliferative disorder(115;0.00878)			Bosutinib(DB06616)|Dasatinib(DB01254)|Ponatinib(DB08901)	TGCAGAGAACCCGAGAGGGAC	0.567																																																0													103	100	101					20																	36022638		2203	4300	6503	SO:0001583	missense	6714			AF077754	CCDS13294.1	20q12-q13	2014-06-25	2014-06-25		ENSG00000197122	ENSG00000197122		"SH2 domain containing"	11283	protein-coding gene	gene with protein product		190090	"v-src avian sarcoma (Schmidt-Ruppin A-2) viral oncogene homolog"	SRC1		2582238	Standard	NM_005417		Approved	ASV, c-src	uc002xgy.3	P12931	OTTHUMG00000032417	ENST00000373578.2:c.511C>T	20.37:g.36022638C>T	ENSP00000362680:p.Pro171Ser	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5V4|Q76P87|Q86VB9|Q9H5A8	Missense_Mutation	SNP	ENST00000373578.2	37	CCDS13294.1	.	.	.	.	.	.	.	.	.	.	C	11.84	1.760002	0.31137	.	.	ENSG00000197122	ENST00000445403;ENST00000373578;ENST00000360723;ENST00000358208;ENST00000373567;ENST00000373558	D;D;D;D;D;D	0.88741	-2.42;-2.42;-2.42;-2.42;-2.42;-2.42	4.88	4.88	0.63580	SH2 motif (4);	0.110608	0.64402	D	0.000014	D	0.85427	0.5694	L	0.45352	1.415	0.44469	D	0.997404	P	0.41080	0.737	B	0.41135	0.348	D	0.83441	0.0043	10	0.23302	T	0.38	.	15.5649	0.76284	0.0:1.0:0.0:0.0	.	171	P12931	SRC_HUMAN	S	171;171;177;171;171;177	ENSP00000408503:P171S;ENSP00000362680:P171S;ENSP00000353950:P177S;ENSP00000350941:P171S;ENSP00000362668:P171S;ENSP00000362659:P177S	ENSP00000350941:P171S	P	+	1	0	SRC	35456052	1.000000	0.71417	0.985000	0.45067	0.663000	0.39108	3.598000	0.54038	2.526000	0.85167	0.561000	0.74099	CCG		0.567	SRC-001	KNOWN	non_canonical_TEC|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268142.1	NM_005417		T	36022638	C	T	36022638	3	4	667	1	0	0	0	0	1	0	0	0	15146	623	22	2	525	2	SRC	20	36022638	Missense_Mutation	SNP	C	TCGA-KN-8431-01A-11D-2310-10		36022638	27002882	58	42668										
DSCAM	1826	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr21	41684190	41684190	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	catccttctgccaggtgatcGtgatgggtaagtcccctgag	12	11	1	3	rs565609019		TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr21:41684190G>A	ENST00000400454.1	-	9	2357	c.1880C>T	c.(1879-1881)aCg>aTg	p.T627M		NM_001271534.1|NM_001389.3	NP_001258463.1|NP_001380.2	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule	627	Ig-like C2-type 7.				cell adhesion (GO:0007155)|dendrite morphogenesis (GO:0048813)|dendrite self-avoidance (GO:0070593)|locomotory behavior (GO:0007626)|negative regulation of cell adhesion (GO:0007162)|nervous system development (GO:0007399)|positive regulation of axon extension involved in axon guidance (GO:0048842)|positive regulation of phosphorylation (GO:0042327)|post-embryonic retina morphogenesis in camera-type eye (GO:0060060)	axon (GO:0030424)|extracellular region (GO:0005576)|growth cone (GO:0030426)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)				NS(2)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(22)|haematopoietic_and_lymphoid_tissue(4)|kidney(6)|large_intestine(22)|lung(47)|ovary(7)|pancreas(2)|prostate(3)|skin(14)|upper_aerodigestive_tract(6)|urinary_tract(4)	142		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CCAGGTGATCGTGATGGGTAA	0.532													G|||	1	0.000199681	0.0	0.0	5008	,	,		15104	0.0		0.0	False		,,,				2504	0.001				Melanoma(134;970 1778 1785 21664 32388)											0													64	62	63					21																	41684190		1907	4135	6042	SO:0001583	missense	1826			AF023449	CCDS42929.1	21q22.2-q22.3	2013-02-11			ENSG00000171587	ENSG00000171587		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	3039	protein-coding gene	gene with protein product		602523				9426258	Standard	NM_001271534		Approved	CHD2-42, CHD2-52	uc002yyq.1	O60469	OTTHUMG00000086732	ENST00000400454.1:c.1880C>T	21.37:g.41684190G>A	ENSP00000383303:p.Thr627Met	Somatic		WXS	Illumina HiSeq	Phase_I	O60468	Missense_Mutation	SNP	ENST00000400454.1	37	CCDS42929.1	.	.	.	.	.	.	.	.	.	.	G	15.74	2.921590	0.52653	.	.	ENSG00000171587	ENST00000400454;ENST00000404019	T;T	0.68479	-0.33;-0.33	5.55	4.64	0.57946	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.259938	0.38959	N	0.001504	T	0.74779	0.3761	M	0.72118	2.19	0.30527	N	0.767845	D	0.56287	0.975	P	0.52758	0.708	T	0.75795	-0.3192	10	0.37606	T	0.19	.	16.2728	0.82629	0.0:0.1328:0.8672:0.0	.	627	O60469	DSCAM_HUMAN	M	627;379	ENSP00000383303:T627M;ENSP00000385342:T379M	ENSP00000383303:T627M	T	-	2	0	DSCAM	40606060	0.969000	0.33509	0.960000	0.40013	0.808000	0.45660	1.706000	0.37878	1.284000	0.44531	0.563000	0.77884	ACG		0.532	DSCAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195029.1	NM_001389		A	41684190	G	A	41684190	3	1	667	1	0	0	0	0	1	0	0	0	4770	1145	40	1	4258	1	DSCAM	21	41684190	Missense_Mutation	SNP	G	TCGA-KN-8431-01A-11D-2310-10		41684190	6445705	59	42669										
HMGXB4	10042	broad.mit.edu	37	chr22	35661575	35661576	+	Frame_Shift_Del	DEL	AG	AG	-													0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	aaaaaagaagagaaggacaaAgagagagagagaggagaaaa							TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chr22:35661575_35661576delAG	ENST00000216106.5	+	5	1322_1323	c.1194_1195delAG	c.(1192-1197)aaagagfs	p.E399fs	HMGXB4_ENST00000444518.2_Frame_Shift_Del_p.E290fs	NM_001003681.2	NP_001003681.1	Q9UGU5	HMGX4_HUMAN	HMG box domain containing 4	399					endosome to lysosome transport (GO:0008333)|negative regulation of Wnt signaling pathway (GO:0030178)|Wnt signaling pathway (GO:0016055)	NURF complex (GO:0016589)	DNA binding (GO:0003677)			breast(1)|endometrium(1)|large_intestine(6)|liver(1)|lung(4)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	19						agaaggacaaagagagagagag	0.465																																																0																																										SO:0001589	frameshift_variant	10042			AJ010069	CCDS33641.1	22q13	2011-07-01	2009-01-05	2009-01-05	ENSG00000100281	ENSG00000100281		"High mobility group / Non-canonical"	5003	protein-coding gene	gene with protein product		604702	"high-mobility group protein 2-like 1"	HMG2L1		10329004, 10591208, 20511232	Standard	NM_001003681		Approved	THC211630	uc003anl.3	Q9UGU5	OTTHUMG00000150439	ENST00000216106.5:c.1194_1195delAG	22.37:g.35661585_35661586delAG	ENSP00000216106:p.Glu399fs	Somatic		WXS	Illumina HiSeq	Phase_I	O75672|O75673|Q9UMT5	Frame_Shift_Del	DEL	ENST00000216106.5	37	CCDS33641.1																																																																																				0.465	HMGXB4-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318104.2	NM_005487		-	35661576	AG	-	35661575	7	5	667	1	0	1	0	1	0	0	0	0	7246	69	3	0	1208	0	HMGXB4	22	35661575	Frame_Shift_Del	DEL	AG	TCGA-KN-8431-01A-11D-2310-10		35661575	15642991	60	42670										
FAM47C	442444	mdanderson.org	37	chrX	37028209	37028209	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	gtctccgcccggagcctcccGatactggagtgtcccatctc	10	17	2	0			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chrX:37028209G>A	ENST00000358047.3	+	1	1778	c.1726G>A	c.(1726-1728)Gat>Aat	p.D576N		NM_001013736.2	NP_001013758.1	Q5HY64	FA47C_HUMAN	family with sequence similarity 47, member C	576								p.D576N(2)		breast(4)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(15)|lung(63)|ovary(6)|pancreas(1)|prostate(6)|skin(8)|upper_aerodigestive_tract(4)|urinary_tract(1)	120						GGAGCCTCCCGATACTGGAGT	0.647													-|||	4	0.0010596	0.003	0.0	3775	,	,		11352	0.0		0.0	False		,,,				2504	0.0															2	Substitution - Missense(2)	skin(2)											53	60	57					X																	37028209		2202	4300	6502	SO:0001583	missense	442444			AK125992	CCDS35227.1	Xp21.1	2006-07-04			ENSG00000198173	ENSG00000198173			25301	protein-coding gene	gene with protein product							Standard	NM_001013736		Approved		uc004ddl.2	Q5HY64	OTTHUMG00000024025	ENST00000358047.3:c.1726G>A	X.37:g.37028209G>A	ENSP00000367913:p.Asp576Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZU46	Missense_Mutation	SNP	ENST00000358047.3	37	CCDS35227.1	.	.	.	.	.	.	.	.	.	.	-	13.20	2.164778	0.38217	.	.	ENSG00000198173	ENST00000358047	T	0.13778	2.56	1.68	-1.72	0.08107	.	.	.	.	.	T	0.02970	0.0088	N	0.04508	-0.205	0.09310	N	1	P	0.40197	0.706	B	0.21917	0.037	T	0.34453	-0.9828	9	0.21014	T	0.42	.	0.8287	0.01126	0.1821:0.2196:0.3774:0.2209	.	576	Q5HY64	FA47C_HUMAN	N	576	ENSP00000367913:D576N	ENSP00000367913:D576N	D	+	1	0	FAM47C	36938130	0.000000	0.05858	0.001000	0.08648	0.005000	0.04900	-1.469000	0.02348	-0.773000	0.04596	0.400000	0.26472	GAT		0.647	FAM47C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060508.1	NM_001013736		A	37028209	G	A	37028209	3	1	667	1	0	0	0	0	1	0	0	0	5578	1058	37	1	1728	1	FAM47C	23	37028209	Missense_Mutation	SNP	G	TCGA-KN-8431-01A-11D-2310-10		37028209	118242351	61	42671										
WAS	7454	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	48545247	48545247	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	acatcacgagttcacgatacCgtgggctcccagcacctgga	10	14	2	0			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chrX:48545247C>T	ENST00000376701.4	+	7	712	c.637C>T	c.(637-639)Cgt>Tgt	p.R213C	WAS_ENST00000483750.1_3'UTR	NM_000377.2	NP_000368.1	P42768	WASP_HUMAN	Wiskott-Aldrich syndrome	213					actin filament polymerization (GO:0030041)|actin filament-based movement (GO:0030048)|actin polymerization or depolymerization (GO:0008154)|blood coagulation (GO:0007596)|defense response (GO:0006952)|endosomal transport (GO:0016197)|epidermis development (GO:0008544)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|immune response (GO:0006955)|innate immune response (GO:0045087)|positive regulation of Arp2/3 complex-mediated actin nucleation (GO:2000601)|protein complex assembly (GO:0006461)|regulation of catalytic activity (GO:0050790)|T cell activation (GO:0042110)|T cell receptor signaling pathway (GO:0050852)	actin cytoskeleton (GO:0015629)|cell-cell junction (GO:0005911)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|vesicle membrane (GO:0012506)	identical protein binding (GO:0042802)|phospholipase binding (GO:0043274)|protein kinase binding (GO:0019901)|SH3 domain binding (GO:0017124)|small GTPase regulator activity (GO:0005083)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(9)|ovary(4)|skin(1)|upper_aerodigestive_tract(1)	28		all_lung(315;1.27e-10)				TTCACGATACCGTGGGCTCCC	0.567			"Mis, N, F, S"			lymphoma																																	X-linked recessive		Wiskott-Aldrich syndrome	X	Xp11.23-p11.22	7454	Wiskott-Aldrich syndrome		L	0													89	70	76					X																	48545247		2203	4300	6503	SO:0001583	missense	7454			AF115548	CCDS14303.1	Xp11.4-p11.21	2014-09-17	2012-07-12		ENSG00000015285	ENSG00000015285			12731	protein-coding gene	gene with protein product	"eczema-thrombocytopenia"	300392	"thrombocytopenia 1 (X-linked)", "Wiskott-Aldrich syndrome (eczema-thrombocytopenia)"	IMD2, THC		7795648	Standard	NM_000377		Approved	WASP	uc004dkm.4	P42768	OTTHUMG00000034483	ENST00000376701.4:c.637C>T	X.37:g.48545247C>T	ENSP00000365891:p.Arg213Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BU11|Q9UNJ9	Missense_Mutation	SNP	ENST00000376701.4	37	CCDS14303.1	.	.	.	.	.	.	.	.	.	.	C	18.57	3.652001	0.67472	.	.	ENSG00000015285	ENST00000450772;ENST00000376701	D;D	0.99741	-6.49;-6.6	4.39	4.39	0.52855	.	0.000000	0.85682	D	0.000000	D	0.99444	0.9803	L	0.52011	1.625	0.58432	D	0.999991	D	0.89917	1.0	D	0.74023	0.982	D	0.98302	1.0519	10	0.72032	D	0.01	-7.2719	13.6191	0.62126	0.0:1.0:0.0:0.0	.	213	P42768	WASP_HUMAN	C	213	ENSP00000410537:R213C;ENSP00000365891:R213C	ENSP00000365891:R213C	R	+	1	0	WAS	48430191	1.000000	0.71417	1.000000	0.80357	0.749000	0.42624	5.209000	0.65208	1.777000	0.52277	0.279000	0.19357	CGT		0.567	WAS-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083379.1	NM_000377		T	48545247	C	T	48545247	3	4	667	1	0	0	0	0	1	0	0	0	17263	652	23	1	663	1	WAS	23	48545247	Missense_Mutation	SNP	C	TCGA-KN-8431-01A-11D-2310-10	11517038	48545247	106725313	62	42672										
ZDHHC9	51114	bcgsc.ca	37	chrX	128945410	128945410	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0169491525423729	1	1	0.351076923076923	0	0.417948717948718	1	1	0	caaggggccacacagcacttCacagcagttcttcacaatat	7	13	3	0			TCGA-KN-8431-01A-11D-2310-10	TCGA-KN-8431-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	93b51c61-6eea-4228-a102-840a2e118522	3e1c3b30-dc01-472e-b1c3-b81a850659d3	g.chrX:128945410C>T	ENST00000357166.6	-	9	1244	c.853G>A	c.(853-855)Gaa>Aaa	p.E285K	ZDHHC9_ENST00000371064.3_Missense_Mutation_p.E285K	NM_016032.3	NP_057116.2	Q9Y397	ZDHC9_HUMAN	zinc finger, DHHC-type containing 9	285					peptidyl-L-cysteine S-palmitoylation (GO:0018230)|protein palmitoylation (GO:0018345)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|intrinsic component of Golgi membrane (GO:0031228)|palmitoyltransferase complex (GO:0002178)	palmitoyltransferase activity (GO:0016409)|protein-cysteine S-palmitoyltransferase activity (GO:0019706)|Ras palmitoyltransferase activity (GO:0043849)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(3)|lung(8)|ovary(1)|pancreas(1)	19						CACAGCACTTCACAGCAGTTC	0.517																																																0													123	88	100					X																	128945410		2203	4300	6503	SO:0001583	missense	51114			AF151847	CCDS35395.1	Xq26.1	2008-02-05			ENSG00000188706	ENSG00000188706		"Zinc fingers, DHHC-type"	18475	protein-coding gene	gene with protein product		300646	"zinc finger, DHHC-type containing 10", "chromosome X open reading frame 11"	ZDHHC10, CXorf11		10810093	Standard	NM_001008222		Approved	ZNF379, CGI-89, ZNF380	uc004euw.3	Q9Y397	OTTHUMG00000022375	ENST00000357166.6:c.853G>A	X.37:g.128945410C>T	ENSP00000349689:p.Glu285Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4F6G2|D3DTF9|Q59EK4|Q5JSW5|Q8WWS7|Q9BPY4|Q9NSP0|Q9NVL0|Q9NVR6	Missense_Mutation	SNP	ENST00000357166.6	37	CCDS35395.1	.	.	.	.	.	.	.	.	.	.	C	19.31	3.803195	0.70682	.	.	ENSG00000188706	ENST00000357166;ENST00000371064	T;T	0.41400	1.0;1.0	5.44	5.44	0.79542	.	0.000000	0.85682	D	0.000000	T	0.37433	0.1003	L	0.38175	1.15	0.80722	D	1	B	0.19706	0.038	B	0.20955	0.032	T	0.09292	-1.0681	10	0.33940	T	0.23	-9.4076	18.1866	0.89795	0.0:1.0:0.0:0.0	.	285	Q9Y397	ZDHC9_HUMAN	K	285	ENSP00000349689:E285K;ENSP00000360103:E285K	ENSP00000349689:E285K	E	-	1	0	ZDHHC9	128773091	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	5.666000	0.68059	2.419000	0.82065	0.594000	0.82650	GAA		0.517	ZDHHC9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058213.1	NM_016032		T	128945410	C	T	128945410	3	4	667	1	0	0	0	0	1	0	0	0	17634	835	29	2	253	2	ZDHHC9	23	128945410	Missense_Mutation	SNP	C	TCGA-KN-8431-01A-11D-2310-10	80400163	128945410	26325150	63	42673										
TMEM51	55092	broad.mit.edu	37	chr1	15545898	15545898	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	acgaggaagtgatgaacacaAactactcagaagcaagggga	12	7	1	3			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:15545898A>T	ENST00000428417.1	+	3	867	c.421A>T	c.(421-423)Aac>Tac	p.N141Y	TMEM51_ENST00000376008.2_Missense_Mutation_p.N141Y|TMEM51_ENST00000376014.3_Missense_Mutation_p.N141Y|TMEM51_ENST00000400796.3_Missense_Mutation_p.N141Y|TMEM51_ENST00000434578.2_3'UTR	NM_001136217.1	NP_001129689.1	Q9NW97	TMM51_HUMAN	transmembrane protein 51	141						integral component of membrane (GO:0016021)				breast(1)|central_nervous_system(1)|cervix(3)|large_intestine(2)|lung(5)|prostate(2)	14		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)		GATGAACACAAACTACTCAGA	0.557																																																0													94	90	91					1																	15545898		2203	4300	6503	SO:0001583	missense	55092			AK098467	CCDS154.1	1p36.21	2008-02-05	2005-05-22	2005-05-22	ENSG00000171729	ENSG00000171729			25488	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 72"	C1orf72		12477932	Standard	NM_018022		Approved	FLJ10199	uc001avx.3	Q9NW97	OTTHUMG00000002046	ENST00000428417.1:c.421A>T	1.37:g.15545898A>T	ENSP00000394899:p.Asn141Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K819	Missense_Mutation	SNP	ENST00000428417.1	37	CCDS154.1	.	.	.	.	.	.	.	.	.	.	A	15.89	2.965433	0.53507	.	.	ENSG00000171729	ENST00000428417;ENST00000376014;ENST00000451326;ENST00000434578;ENST00000400796;ENST00000376008;ENST00000303840	T;T;T;T	0.31247	1.5;1.5;1.5;1.5	5.63	2.01	0.26516	.	0.282098	0.44285	D	0.000471	T	0.29652	0.0740	L	0.44542	1.39	0.23366	N	0.997829	P	0.48016	0.904	P	0.47251	0.542	T	0.11179	-1.0598	10	0.72032	D	0.01	1.1303	8.5456	0.33419	0.5697:0.0:0.4303:0.0	.	141	Q9NW97	TMM51_HUMAN	Y	141	ENSP00000394899:N141Y;ENSP00000365182:N141Y;ENSP00000383600:N141Y;ENSP00000365176:N141Y	ENSP00000303666:N141Y	N	+	1	0	TMEM51	15418485	0.984000	0.35163	0.961000	0.40146	0.964000	0.63967	2.179000	0.42528	0.092000	0.17331	0.454000	0.30748	AAC		0.557	TMEM51-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005699.3	NM_018022		T	15545898	A	T	15545898	3	4	668	1	0	0	0	0	1	0	0	0	16189	14	1	5	427	5	TMEM51	1	15545898	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10		15545898	233704723	1	42674										
IGSF21	84966	broad.mit.edu;mdanderson.org	37	chr1	18692186	18692186	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gcccatgcaggcagaggtcaCgctgggtaagacttggtggg	17	9	1	2	rs374130273		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:18692186C>T	ENST00000251296.1	+	6	1393	c.1010C>T	c.(1009-1011)aCg>aTg	p.T337M		NM_032880.4	NP_116269.3	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21	337						extracellular region (GO:0005576)				endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(16)|ovary(3)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	40		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)		GCAGAGGTCACGCTGGGTAAG	0.612													C|||	1	0.000199681	0.0	0.0	5008	,	,		19210	0.0		0.001	False		,,,				2504	0.0															0								C	MET/THR	1,4403	2.1+/-5.4	0,1,2201	46	38	41		1010	2.6	1	1		41	0,8600		0,0,4300	no	missense	IGSF21	NM_032880.4	81	0,1,6501	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging	337/468	18692186	1,13003	2202	4300	6502	SO:0001583	missense	84966			AK075316	CCDS184.1	1p36.13	2013-01-29			ENSG00000117154	ENSG00000117154		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	28246	protein-coding gene	gene with protein product						12477932	Standard	NM_032880		Approved	MGC15730, RP11-121A23.1	uc001bau.2	Q96ID5	OTTHUMG00000002432	ENST00000251296.1:c.1010C>T	1.37:g.18692186C>T	ENSP00000251296:p.Thr337Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NBR8	Missense_Mutation	SNP	ENST00000251296.1	37	CCDS184.1	.	.	.	.	.	.	.	.	.	.	C	17.00	3.277902	0.59758	2.27E-4	0.0	ENSG00000117154	ENST00000251296	T	0.33654	1.4	4.53	2.6	0.31112	Immunoglobulin-like fold (1);	0.209202	0.49305	D	0.000158	T	0.38719	0.1051	L	0.27053	0.805	0.51767	D	0.999934	D	0.89917	1.0	D	0.63192	0.912	T	0.08722	-1.0708	10	0.35671	T	0.21	-18.4742	9.5314	0.39196	0.0:0.82:0.0:0.18	.	337	Q96ID5	IGS21_HUMAN	M	337	ENSP00000251296:T337M	ENSP00000251296:T337M	T	+	2	0	IGSF21	18564773	0.997000	0.39634	1.000000	0.80357	0.963000	0.63663	2.192000	0.42649	1.025000	0.39708	0.491000	0.48974	ACG		0.612	IGSF21-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006924.1	NM_032880		T	18692186	C	T	18692186	3	4	668	1	0	0	0	0	1	0	0	0	7606	536	19	1	1032	1	IGSF21	1	18692186	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	3146288	18692186	230558435	2	42675										
INADL	10207	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	62380292	62380292	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tacataacaaggccaacaaaAtcaccggtaaccagaaccag	6	12	1	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:62380292A>G	ENST00000371158.2	+	26	3640	c.3526A>G	c.(3526-3528)Atc>Gtc	p.I1176V	INADL_ENST00000316485.6_Missense_Mutation_p.I1176V	NM_176877.2	NP_795352	Q8NI35	INADL_HUMAN	InaD-like (Drosophila)	1176					cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|intracellular signal transduction (GO:0035556)|tight junction assembly (GO:0070830)	apical part of cell (GO:0045177)|extracellular vesicular exosome (GO:0070062)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|tight junction (GO:0005923)				breast(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(8)|liver(1)|lung(51)|ovary(3)|pancreas(1)|prostate(7)|skin(5)|stomach(1)|upper_aerodigestive_tract(3)	103						GGCCAACAAAATCACCGGTAA	0.358																																																0													92	98	96					1																	62380292		2203	4300	6503	SO:0001583	missense	10207			AB044807	CCDS617.2	1p31	2008-02-05			ENSG00000132849	ENSG00000132849			28881	protein-coding gene	gene with protein product		603199				9280290, 11374908	Standard	NM_176877		Approved	Cipp, PATJ	uc001dab.3	Q8NI35	OTTHUMG00000008560	ENST00000371158.2:c.3526A>G	1.37:g.62380292A>G	ENSP00000360200:p.Ile1176Val	Somatic		WXS	Illumina HiSeq	Phase_I	O15249|O43742|O60833|Q5VUA5|Q5VUA6|Q5VUA7|Q5VUA8|Q5VUA9|Q5VUB0|Q8WU78|Q9H3N9	Missense_Mutation	SNP	ENST00000371158.2	37	CCDS617.2	.	.	.	.	.	.	.	.	.	.	A	0.171	-1.071684	0.01918	.	.	ENSG00000132849	ENST00000371158;ENST00000316485;ENST00000371156;ENST00000395513	T;T	0.11604	2.89;2.76	4.69	-2.35	0.06684	.	0.883263	0.09789	N	0.755596	T	0.07503	0.0189	L	0.43152	1.355	0.09310	N	1	B;B;B	0.06786	0.0;0.0;0.001	B;B;B	0.06405	0.002;0.001;0.002	T	0.44667	-0.9313	10	0.15499	T	0.54	.	5.5168	0.16912	0.3216:0.3144:0.364:0.0	.	1176;1176;1176	F8W8T2;Q8NI35;Q8NI35-4	.;INADL_HUMAN;.	V	1176	ENSP00000360200:I1176V;ENSP00000326199:I1176V	ENSP00000326199:I1176V	I	+	1	0	INADL	62152880	0.001000	0.12720	0.001000	0.08648	0.017000	0.09413	0.124000	0.15728	-0.165000	0.10908	-0.370000	0.07254	ATC		0.358	INADL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023639.2	NM_170605		G	62380292	A	G	62380292	3	3	668	1	0	0	0	0	1	0	0	0	7738	101	4	3	3624	3	INADL	1	62380292	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10	43688106	62380292	186870329	3	42676										
LEPR	3953	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	66102278	66102278	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ttgaaggattctttctctaaTagctcatgggagatagaggc	11	6	3	3	rs34130975		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:66102278T>G	ENST00000349533.6	+	20	3263	c.3078T>G	c.(3076-3078)aaT>aaG	p.N1026K	LEPR_ENST00000406510.3_Missense_Mutation_p.N93K	NM_002303.5	NP_002294.2	O15243	OBRG_HUMAN	leptin receptor	0					negative regulation of growth hormone receptor signaling pathway (GO:0060400)|negative regulation of JAK-STAT cascade (GO:0046426)|negative regulation of protein localization to cell surface (GO:2000009)	endosome (GO:0005768)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	receptor binding (GO:0005102)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(7)|lung(22)|skin(2)	36				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		CTTTCTCTAATAGCTCATGGG	0.398																																																0													76	84	81					1																	66102278		2200	4297	6497	SO:0001583	missense	3953			U43168	CCDS631.1, CCDS30740.1, CCDS30741.1, CCDS55604.1	1p31	2014-09-17			ENSG00000116678	ENSG00000116678		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6554	protein-coding gene	gene with protein product		601007				8548812, 8812446	Standard	NM_001003680		Approved	OBR, CD295	uc001dci.3	P48357	OTTHUMG00000009115	ENST00000349533.6:c.3078T>G	1.37:g.66102278T>G	ENSP00000330393:p.Asn1026Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FHL5	Missense_Mutation	SNP	ENST00000349533.6	37	CCDS631.1	.	.	.	.	.	.	.	.	.	.	T	4.357	0.065741	0.08388	.	.	ENSG00000116678	ENST00000349533;ENST00000406510	T	0.55760	0.5	5.4	-2.75	0.05914	.	0.793868	0.12345	N	0.477125	T	0.16514	0.0397	L	0.33485	1.01	0.09310	N	1	B	0.06786	0.001	B	0.08055	0.003	T	0.27938	-1.0059	10	0.44086	T	0.13	-0.5985	7.554	0.27814	0.0:0.4301:0.2383:0.3316	.	1026	P48357	LEPR_HUMAN	K	1026;93	ENSP00000330393:N1026K	ENSP00000330393:N1026K	N	+	3	2	LEPR	65874866	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.591000	0.05753	-0.675000	0.05246	-1.133000	0.01973	AAT		0.398	LEPR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025275.1	NM_002303		G	66102278	T	G	66102278	3	3	668	1	0	0	0	0	1	0	0	0	8735	1403	49	5	3378	5	LEPR	1	66102278	Missense_Mutation	SNP	T	TCGA-KN-8432-01A-11D-2310-10	3721986	66102278	183148343	4	42677										
HIPK1	204851	hgsc.bcm.edu;bcgsc.ca	37	chr1	114483037	114483037	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gctgcaagtgttttcgccccCatcagtgtcgtcgagtgcct	11	13	1	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:114483037C>T	ENST00000369558.1	+	2	264	c.32C>T	c.(31-33)cCa>cTa	p.P11L	HIPK1_ENST00000369555.2_Missense_Mutation_p.P11L|HIPK1_ENST00000426820.2_Missense_Mutation_p.P11L|HIPK1_ENST00000369554.2_Missense_Mutation_p.P11L|HIPK1_ENST00000369561.4_Missense_Mutation_p.P11L|HIPK1_ENST00000369559.4_Missense_Mutation_p.P11L			Q86Z02	HIPK1_HUMAN	homeodomain interacting protein kinase 1	11					anterior/posterior pattern specification (GO:0009952)|definitive hemopoiesis (GO:0060216)|embryonic camera-type eye morphogenesis (GO:0048596)|embryonic retina morphogenesis in camera-type eye (GO:0060059)|endothelial cell apoptotic process (GO:0072577)|extrinsic apoptotic signaling pathway (GO:0097191)|eye development (GO:0001654)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|iris morphogenesis (GO:0061072)|lens induction in camera-type eye (GO:0060235)|neuron differentiation (GO:0030182)|positive regulation of angiogenesis (GO:0045766)|positive regulation of cell proliferation (GO:0008284)|regulation of transcription, DNA-templated (GO:0006355)|regulation of tumor necrosis factor-mediated signaling pathway (GO:0010803)|retina layer formation (GO:0010842)|smoothened signaling pathway (GO:0007224)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|PML body (GO:0016605)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(9)|lung(15)|ovary(4)|prostate(2)	39	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)		TTTTCGCCCCCATCAGTGTCG	0.433																																																0													146	158	154					1																	114483037		2203	4300	6503	SO:0001583	missense	204851			AB089957	CCDS867.1, CCDS868.1, CCDS869.1, CCDS41370.1	1p13.1	2008-02-05			ENSG00000163349	ENSG00000163349			19006	protein-coding gene	gene with protein product		608003					Standard	NM_198268		Approved	KIAA0630, Myak, MGC26642, Nbak2, MGC33446, MGC33548	uc001eem.3	Q86Z02	OTTHUMG00000011983	ENST00000369558.1:c.32C>T	1.37:g.114483037C>T	ENSP00000358571:p.Pro11Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJ34|O75125|Q5SQL2|Q5SQL4|Q5SQL5|Q8IYD7|Q8NDN5|Q8NEB6|Q8TBZ1	Missense_Mutation	SNP	ENST00000369558.1	37	CCDS867.1	.	.	.	.	.	.	.	.	.	.	C	12.25	1.881132	0.33255	.	.	ENSG00000163349	ENST00000426820;ENST00000369559;ENST00000443627;ENST00000369554;ENST00000369555;ENST00000369558;ENST00000369561;ENST00000514621;ENST00000503968	T;T;T;T;T;T;T;T;T	0.48836	0.8;0.8;0.83;0.83;0.83;0.83;0.84;0.84;0.83	4.78	4.78	0.61160	.	0.090347	0.48286	D	0.000197	T	0.26882	0.0658	L	0.32530	0.975	0.80722	D	1	B;B	0.30281	0.18;0.275	B;B	0.27796	0.038;0.083	T	0.20273	-1.0280	10	0.56958	D	0.05	.	17.834	0.88691	0.0:1.0:0.0:0.0	.	11;11	Q86Z02;Q86Z02-2	HIPK1_HUMAN;.	L	82;11;11;11;11;11;11;11;11	ENSP00000407442:P82L;ENSP00000358572:P11L;ENSP00000409673:P11L;ENSP00000358567:P11L;ENSP00000358568:P11L;ENSP00000358571:P11L;ENSP00000358574:P11L;ENSP00000422322:P11L;ENSP00000426695:P11L	ENSP00000358567:P11L	P	+	2	0	HIPK1	114284560	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	2.224000	0.42945	2.182000	0.69389	0.650000	0.86243	CCA		0.433	HIPK1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000033127.1	NM_198268		T	114483037	C	T	114483037	3	4	668	1	0	0	0	0	1	0	0	0	7123	594	21	2	34	2	HIPK1	1	114483037	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	48380759	114483037	134767584	5	42678										
ANP32E	81611	mdanderson.org	37	chr1	150199057	150199057	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tcctcctcttcctcttcctcCtcctcttcctcatatccttc	0	21	4	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:150199057C>T	ENST00000314136.8	-	5	933	c.564G>A	c.(562-564)gaG>gaA	p.E188E	ANP32E_ENST00000369115.2_Silent_p.E56E|ANP32E_ENST00000369119.3_Silent_p.E140E|ANP32E_ENST00000436748.2_Silent_p.E147E|ANP32E_ENST00000369116.4_Silent_p.E56E|ANP32E_ENST00000533654.1_Missense_Mutation_p.R133K|ANP32E_ENST00000369114.5_Intron	NM_001136478.2|NM_001280559.1|NM_030920.3	NP_001129950.1|NP_001267488.1|NP_112182.1	Q9BTT0	AN32E_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32 family, member E	188	Asp/Glu-rich (highly acidic).				histone exchange (GO:0043486)|negative regulation of catalytic activity (GO:0043086)	cytoplasmic membrane-bounded vesicle (GO:0016023)|nucleus (GO:0005634)|Swr1 complex (GO:0000812)	histone binding (GO:0042393)|phosphatase inhibitor activity (GO:0019212)			breast(3)|endometrium(3)|lung(7)|skin(1)|urinary_tract(1)	15	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			cctcttcctcctcctcttcct	0.438																																																0													238	207	217					1																	150199057		2203	4300	6503	SO:0001819	synonymous_variant	81611			AK092672	CCDS946.1, CCDS44214.1, CCDS44215.1, CCDS60245.1	1q22	2008-02-05			ENSG00000143401	ENSG00000143401		"ANP32 acidic nuclear phosphoproteins"	16673	protein-coding gene	gene with protein product		609611				12438741	Standard	NM_030920		Approved	LANPL, MGC5350, LANP-L	uc001etw.3	Q9BTT0	OTTHUMG00000012547	ENST00000314136.8:c.564G>A	1.37:g.150199057C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4E0I6|E9PEA6|Q5TB18|Q5TB20|Q8N1S4|Q8WWW9	Silent	SNP	ENST00000314136.8	37	CCDS946.1	.	.	.	.	.	.	.	.	.	.	C	2.195	-0.384257	0.04966	.	.	ENSG00000143401	ENST00000533654	T	0.00282	8.31	5.31	-2.29	0.06805	.	.	.	.	.	T	0.00039	0.0001	.	.	.	0.80722	D	1	B	0.02656	0.0	B	0.08055	0.003	T	0.02385	-1.1167	8	0.28530	T	0.3	.	0.7934	0.01061	0.2726:0.2404:0.1094:0.3777	.	133	E9PLC4	.	K	133	ENSP00000435215:R133K	ENSP00000435215:R133K	R	-	2	0	ANP32E	148465681	0.560000	0.26570	0.552000	0.28243	0.061000	0.15899	-0.914000	0.04038	-0.093000	0.12396	0.561000	0.74099	AGG		0.438	ANP32E-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000035056.1	NM_030920		T	150199057	C	T	150199057	2	4	668	1	0	0	0	0	0	0	0	1	709	680	24	2		2	ANP32E	1	150199057	Silent	SNP	C	TCGA-KN-8432-01A-11D-2310-10	35716020	150199057	99051564	6	42679										
FLAD1	80308	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	154965424	154965424	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ataccgtgcggaacccggccCtgaagtgcctgagcccagga	13	14	0	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:154965424C>G	ENST00000292180.3	+	7	1997	c.1675C>G	c.(1675-1677)Ctg>Gtg	p.L559V	FLAD1_ENST00000368432.1_3'UTR|FLAD1_ENST00000315144.10_Missense_Mutation_p.L462V|FLAD1_ENST00000368428.1_Missense_Mutation_p.L100V|LENEP_ENST00000392487.1_5'Flank|FLAD1_ENST00000295530.2_3'UTR|FLAD1_ENST00000405236.2_3'UTR	NM_025207.4	NP_079483.3	Q8NFF5	FAD1_HUMAN	flavin adenine dinucleotide synthetase 1	559					FAD biosynthetic process (GO:0006747)|Mo-molybdopterin cofactor biosynthetic process (GO:0006777)|riboflavin metabolic process (GO:0006771)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|FMN adenylyltransferase activity (GO:0003919)			endometrium(3)|kidney(4)|large_intestine(2)|lung(7)|ovary(3)|skin(3)	22	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)			GAACCCGGCCCTGAAGTGCCT	0.607																																																0													74	64	67					1																	154965424		2203	4300	6503	SO:0001583	missense	80308				CCDS1078.1, CCDS1079.1, CCDS53371.1, CCDS53372.1	1q22	2013-03-05	2013-03-05		ENSG00000160688	ENSG00000160688	2.7.7.2		24671	protein-coding gene	gene with protein product		610595	"Fad1, flavin adenine dinucleotide synthetase, homolog (yeast)", "FAD1 flavin adenine dinucleotide synthetase homolog (S. cerevisiae)", "flavin adenine dinucleotide synthetase"				Standard	NM_001184891		Approved	PP591, FAD1	uc001fgf.2	Q8NFF5	OTTHUMG00000037416	ENST00000292180.3:c.1675C>G	1.37:g.154965424C>G	ENSP00000292180:p.Leu559Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N5J1|Q8N686|Q8WU93|Q8WUJ4|Q96CR8|Q99764|Q9HBN6	Missense_Mutation	SNP	ENST00000292180.3	37	CCDS1078.1	.	.	.	.	.	.	.	.	.	.	C	12.56	1.973492	0.34848	.	.	ENSG00000160688	ENST00000315144;ENST00000292180;ENST00000368428	.	.	.	5.2	2.23	0.28157	.	0.000000	0.64402	D	0.000001	T	0.76371	0.3978	M	0.91300	3.195	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.81189	-0.1046	9	0.87932	D	0	-12.7998	12.1264	0.53919	0.0:0.7294:0.0:0.2706	.	559	Q8NFF5	FAD1_HUMAN	V	462;559;100	.	ENSP00000292180:L559V	L	+	1	2	FLAD1	153232048	1.000000	0.71417	0.991000	0.47740	0.030000	0.12068	3.914000	0.56401	0.380000	0.24823	-1.203000	0.01651	CTG		0.607	FLAD1-001	NOVEL	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000091089.1	NM_025207		G	154965424	C	G	154965424	3	3	668	1	0	0	0	0	1	0	0	0	5927	680	24	4	1845	4	FLAD1	1	154965424	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	4766367	154965424	94285197	7	42680										
ARHGEF2	9181	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	155932493	155932493	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	aggtcttacacatctgctccGcactaggacctgagaactag	9	12	2	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:155932493G>A	ENST00000361247.4	-	9	1091	c.992C>T	c.(991-993)gCg>gTg	p.A331V	ARHGEF2_ENST00000313695.7_Missense_Mutation_p.A303V|ARHGEF2_ENST00000313667.4_Missense_Mutation_p.A330V|ARHGEF2_ENST00000368316.1_Missense_Mutation_p.A303V|ARHGEF2_ENST00000368315.4_Missense_Mutation_p.A332V|ARHGEF2_ENST00000462460.2_Missense_Mutation_p.A376V|ARHGEF2_ENST00000477754.2_Intron	NM_001162383.1|NM_001162384.1	NP_001155855.1|NP_001155856.1	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor (GEF) 2	331	DH. {ECO:0000255|PROSITE- ProRule:PRU00062}.				actin filament organization (GO:0007015)|apoptotic signaling pathway (GO:0097190)|cell morphogenesis (GO:0000902)|cellular hyperosmotic response (GO:0071474)|cellular response to muramyl dipeptide (GO:0071225)|cellular response to tumor necrosis factor (GO:0071356)|establishment of mitotic spindle orientation (GO:0000132)|innate immune response (GO:0045087)|intracellular protein transport (GO:0006886)|mitotic nuclear division (GO:0007067)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|negative regulation of intrinsic apoptotic signaling pathway in response to osmotic stress (GO:1902219)|negative regulation of microtubule depolymerization (GO:0007026)|negative regulation of necroptotic process (GO:0060546)|negative regulation of neurogenesis (GO:0050768)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor production (GO:0032760)|regulation of cell proliferation (GO:0042127)|regulation of Rho protein signal transduction (GO:0035023)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|dendritic shaft (GO:0043198)|focal adhesion (GO:0005925)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|neuronal cell body (GO:0043025)|protein complex (GO:0043234)|ruffle membrane (GO:0032587)|tight junction (GO:0005923)|vesicle (GO:0031982)	microtubule binding (GO:0008017)|Rac GTPase binding (GO:0048365)|Rac guanyl-nucleotide exchange factor activity (GO:0030676)|Rho GTPase binding (GO:0017048)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			breast(4)|cervix(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(4)|kidney(2)|large_intestine(6)|lung(15)|ovary(1)|skin(2)	40	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					CATCTGCTCCGCACTAGGACC	0.537																																					Melanoma(178;35 2768 6610 28839)											0													70	68	68					1																	155932493		2203	4300	6503	SO:0001583	missense	9181			AB014551	CCDS1125.1, CCDS53375.1, CCDS53376.1	1q21-q22	2013-01-10	2009-06-12		ENSG00000116584	ENSG00000116584		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	682	protein-coding gene	gene with protein product		607560	"rho/rac guanine nucleotide exchange factor (GEF) 2"			9857026, 9734811	Standard	NM_004723		Approved	LFP40, GEF-H1, KIAA0651, P40	uc001fmt.2	Q92974	OTTHUMG00000017464	ENST00000361247.4:c.992C>T	1.37:g.155932493G>A	ENSP00000354837:p.Ala331Val	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVA6|O75142|Q15079|Q5VY92|Q8TDA3|Q8WUG4|Q9H023	Missense_Mutation	SNP	ENST00000361247.4	37	CCDS53376.1	.	.	.	.	.	.	.	.	.	.	G	20.2	3.951615	0.73787	.	.	ENSG00000116584	ENST00000313695;ENST00000361247;ENST00000368315;ENST00000368316;ENST00000435736;ENST00000543433;ENST00000313667	T;T;T;T;T	0.69435	-0.4;-0.4;-0.4;-0.4;-0.4	5.08	5.08	0.68730	Dbl homology (DH) domain (5);	0.000000	0.47852	D	0.000207	T	0.79131	0.4394	M	0.82056	2.57	0.53005	D	0.999967	D;D;P;D	0.76494	0.999;0.997;0.455;0.985	D;P;B;P	0.69142	0.962;0.875;0.151;0.71	T	0.81055	-0.1106	10	0.72032	D	0.01	-16.4095	16.3414	0.83083	0.0:0.0:1.0:0.0	.	376;375;331;330	B7Z977;D3DVA5;Q92974;Q92974-2	.;.;ARHG2_HUMAN;.	V	303;331;332;303;376;304;330	ENSP00000315325:A303V;ENSP00000354837:A331V;ENSP00000357298:A332V;ENSP00000357299:A303V;ENSP00000314787:A330V	ENSP00000314787:A330V	A	-	2	0	ARHGEF2	154199117	1.000000	0.71417	0.342000	0.25602	0.665000	0.39181	4.965000	0.63708	2.803000	0.96430	0.609000	0.83330	GCG		0.537	ARHGEF2-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000046204.2	NM_004723		A	155932493	G	A	155932493	3	1	668	1	0	0	0	0	1	0	0	0	903	1087	38	1	2024	1	ARHGEF2	1	155932493	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10	967069	155932493	93318128	8	42681										
MR1	3140	mdanderson.org;bcgsc.ca	37	chr1	181021437	181021437	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tacagctctcttctgcaaagCtcatggcttttaccccccag	6	15	3	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:181021437C>A	ENST00000367580.5	+	4	676	c.671C>A	c.(670-672)gCt>gAt	p.A224D	MR1_ENST00000367579.3_Missense_Mutation_p.A179D|MR1_ENST00000282990.6_Intron|MR1_ENST00000434571.2_Intron|MR1_ENST00000438435.2_Intron	NM_001531.2	NP_001522.1	Q95460	HMR1_HUMAN	major histocompatibility complex, class I-related	224	Alpha-3.|Ig-like C1-type.				antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|immune response (GO:0006955)|innate immune response (GO:0045087)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|signal transduction (GO:0007165)	endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|MHC class I protein complex (GO:0042612)	MHC class I receptor activity (GO:0032393)|peptide antigen binding (GO:0042605)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(5)|lung(2)|prostate(1)|skin(2)|stomach(1)|urinary_tract(1)	18					Antithymocyte globulin(DB00098)	TTCTGCAAAGCTCATGGCTTT	0.428																																					Colon(174;1412 1962 45296 46549 47110)											0													55	55	55					1																	181021437		2203	4300	6503	SO:0001583	missense	3140			AF010446	CCDS1342.1, CCDS53440.1, CCDS53441.1, CCDS53442.1	1q25.3	2013-01-11	2003-03-05	2003-03-07	ENSG00000153029	ENSG00000153029		"Immunoglobulin superfamily / C1-set domain containing"	4975	protein-coding gene	gene with protein product		600764	"major histocompatibility complex, class I-like sequence"	HLALS		7624800, 9784382	Standard	NM_001194999		Approved		uc001goq.2	Q95460	OTTHUMG00000035175	ENST00000367580.5:c.671C>A	1.37:g.181021437C>A	ENSP00000356552:p.Ala224Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2V9|B4E3B1|O97985|O97986|Q53GM1|Q95HB8|Q9MY23|Q9NPL2|Q9TQB3|Q9TQB9|Q9TQK3	Missense_Mutation	SNP	ENST00000367580.5	37	CCDS1342.1	.	.	.	.	.	.	.	.	.	.	C	18.93	3.727807	0.69074	.	.	ENSG00000153029	ENST00000367580;ENST00000367579	T;T	0.21734	1.99;1.99	4.52	3.57	0.40892	Immunoglobulin-like (1);Immunoglobulin C1-set (2);Immunoglobulin-like fold (1);	0.116516	0.38326	N	0.001730	T	0.56499	0.1989	H	0.96833	3.89	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.74023	0.982;0.981	T	0.66512	-0.5905	10	0.87932	D	0	.	9.5573	0.39346	0.0:0.8917:0.0:0.1083	.	179;224	Q95460-2;Q95460	.;HMR1_HUMAN	D	224;179	ENSP00000356552:A224D;ENSP00000356551:A179D	ENSP00000356551:A179D	A	+	2	0	MR1	179288060	0.477000	0.25909	0.999000	0.59377	0.874000	0.50279	0.758000	0.26447	1.056000	0.40484	0.655000	0.94253	GCT		0.428	MR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085134.2	NM_001531		A	181021437	C	A	181021437	3	1	668	1	0	0	0	0	1	0	0	0	9759	797	28	4	685	4	MR1	1	181021437	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	25088944	181021437	68229184	9	42682										
RGL1	23179	broad.mit.edu	37	chr1	183885724	183885724	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	aagcgctctgtctcggtgacGtccattacctcgactgtgct	10	13	2	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:183885724G>A	ENST00000360851.3	+	16	2071	c.1893G>A	c.(1891-1893)acG>acA	p.T631T	RGL1_ENST00000536277.1_Silent_p.T629T|RGL1_ENST00000304685.4_Silent_p.T666T|RGL1_ENST00000539189.1_Silent_p.T602T			Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation stimulator-like 1	631					cellular lipid metabolic process (GO:0044255)|positive regulation of Ral GTPase activity (GO:0032852)|small GTPase mediated signal transduction (GO:0007264)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	Ral guanyl-nucleotide exchange factor activity (GO:0008321)			breast(5)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(12)|liver(1)|lung(17)|ovary(4)|prostate(3)|stomach(1)	51						TCTCGGTGACGTCCATTACCT	0.498																																																0													197	180	186					1																	183885724		2203	4300	6503	SO:0001819	synonymous_variant	23179			AF186780	CCDS1359.1, CCDS72992.1	1q25.2	2008-02-05			ENSG00000143344	ENSG00000143344			30281	protein-coding gene	gene with protein product		605667				10760592, 10231032	Standard	XM_005245010		Approved	RGL	uc001gqm.3	Q9NZL6	OTTHUMG00000035328	ENST00000360851.3:c.1893G>A	1.37:g.183885724G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SXQ2|Q5SXQ6|Q9HBY3|Q9HBY4|Q9NZL5|Q9UG43|Q9Y2G6	Silent	SNP	ENST00000360851.3	37																																																																																					0.498	RGL1-002	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000085742.1	NM_015149		A	183885724	G	A	183885724	2	1	668	1	0	0	0	0	0	0	0	1	13289	1132	40	1		1	RGL1	1	183885724	Silent	SNP	G	TCGA-KN-8432-01A-11D-2310-10	2864287	183885724	65364897	10	42683										
KIF21B	23046	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr1	200943959	200943959	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tccagaccttgatgacacccGcacggcaggcgctgagcagc	12	15	0	4			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:200943959G>A	ENST00000422435.2	-	34	5013	c.4697C>T	c.(4696-4698)gCg>gTg	p.A1566V	KIF21B_ENST00000461742.2_Missense_Mutation_p.A1566V|KIF21B_ENST00000332129.2_Missense_Mutation_p.A1553V|KIF21B_ENST00000360529.5_Missense_Mutation_p.A1553V	NM_001252100.1	NP_001239029.1	O75037	KI21B_HUMAN	kinesin family member 21B	1566					ATP catabolic process (GO:0006200)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			autonomic_ganglia(1)|breast(4)|central_nervous_system(1)|cervix(1)|endometrium(15)|kidney(4)|large_intestine(8)|liver(1)|lung(27)|ovary(3)|pancreas(1)|prostate(5)|skin(8)|stomach(2)|urinary_tract(2)	83						GATGACACCCGCACGGCAGGC	0.607																																																0													195	172	180					1																	200943959		2203	4300	6503	SO:0001583	missense	23046			BC031927	CCDS30965.1, CCDS58054.1, CCDS58055.1, CCDS58056.1	1q32.1	2013-01-10			ENSG00000116852	ENSG00000116852		"Kinesins", "WD repeat domain containing"	29442	protein-coding gene	gene with protein product		608322				9455484	Standard	NM_001252100		Approved	DKFZP434J212, KIAA0449	uc001gvs.2	O75037	OTTHUMG00000035787	ENST00000422435.2:c.4697C>T	1.37:g.200943959G>A	ENSP00000411831:p.Ala1566Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP62|B7ZMI0|Q5T4J3	Missense_Mutation	SNP	ENST00000422435.2	37	CCDS58056.1	.	.	.	.	.	.	.	.	.	.	G	16.20	3.056322	0.55325	.	.	ENSG00000116852	ENST00000332129;ENST00000360529;ENST00000461742;ENST00000422435;ENST00000539858	T;T;T;T	0.59906	0.23;0.23;0.23;0.23	4.48	2.48	0.30137	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.211121	0.39146	N	0.001442	T	0.50905	0.1643	L	0.51422	1.61	0.29302	N	0.868603	P;P;P;P	0.49253	0.921;0.845;0.921;0.903	B;B;B;B	0.41135	0.348;0.348;0.348;0.236	T	0.56523	-0.7965	10	0.72032	D	0.01	.	13.2708	0.60159	0.0:0.6602:0.3398:0.0	.	1553;1566;1566;1553	B7ZMI0;B2RP62;O75037;O75037-2	.;.;KI21B_HUMAN;.	V	1553;1553;1566;1566;1566	ENSP00000328494:A1553V;ENSP00000353724:A1553V;ENSP00000433808:A1566V;ENSP00000411831:A1566V	ENSP00000328494:A1553V	A	-	2	0	KIF21B	199210582	0.999000	0.42202	0.024000	0.17045	0.930000	0.56654	3.649000	0.54417	0.840000	0.34995	0.561000	0.74099	GCG		0.607	KIF21B-006	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000382635.1	XM_371332		A	200943959	G	A	200943959	3	1	668	1	0	0	0	0	1	0	0	0	8296	1087	38	1	224	1	KIF21B	1	200943959	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10	17058235	200943959	48306662	11	42684										
SUSD4	55061	hgsc.bcm.edu;ucsc.edu	37	chr1	223465989	223465989	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gcacacacttgaaggtcatcGaaccctacatcaacaaagag	7	12	2	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:223465989G>A	ENST00000343846.3	-	2	786	c.153C>T	c.(151-153)ttC>ttT	p.F51F	SUSD4_ENST00000366878.4_Silent_p.F51F|SUSD4_ENST00000344029.6_Silent_p.F51F|SUSD4_ENST00000484758.2_Intron|SUSD4_ENST00000454695.2_5'UTR|SUSD4_ENST00000494793.2_Silent_p.F51F|SUSD4_ENST00000478605.1_5'UTR			Q5VX71	SUSD4_HUMAN	sushi domain containing 4	51						integral component of membrane (GO:0016021)				cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(5)|liver(1)|lung(5)|skin(1)	17				GBM - Glioblastoma multiforme(131;0.0611)		GAAGGTCATCGAACCCTACAT	0.502																																																0													48	53	52					1																	223465989		2203	4300	6503	SO:0001819	synonymous_variant	55061			AK096265	CCDS31034.1, CCDS41471.1	1q41	2008-05-14			ENSG00000143502	ENSG00000143502			25470	protein-coding gene	gene with protein product		615827				12477932	Standard	NM_017982		Approved	FLJ10052	uc001hny.4	Q5VX71	OTTHUMG00000037936	ENST00000343846.3:c.153C>T	1.37:g.223465989G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DTB9|Q6UX62|Q9BSR0|Q9NWG0	Silent	SNP	ENST00000343846.3	37	CCDS41471.1																																																																																				0.502	SUSD4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092592.2	NM_017982		A	223465989	G	A	223465989	2	1	668	1	0	0	0	0	0	0	0	1	15422	1049	37	1		1	SUSD4	1	223465989	Silent	SNP	G	TCGA-KN-8432-01A-11D-2310-10	22522030	223465989	25784632	12	42685										
CAPN2	824	broad.mit.edu	37	chr1	223936794	223936794	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tttcagaagctggtgaagggGcacgcgtactcggtcaccgg	15	10	2	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:223936794G>C	ENST00000295006.5	+	6	1092	c.783G>C	c.(781-783)ggG>ggC	p.G261G	CAPN2_ENST00000433674.2_Silent_p.G183G	NM_001748.4	NP_001739	P17655	CAN2_HUMAN	calpain 2, (m/II) large subunit	261	Calpain catalytic. {ECO:0000255|PROSITE- ProRule:PRU00239}.				blastocyst development (GO:0001824)|cellular response to amino acid stimulus (GO:0071230)|myoblast fusion (GO:0007520)|protein autoprocessing (GO:0016540)|proteolysis (GO:0006508)|proteolysis involved in cellular protein catabolic process (GO:0051603)|regulation of cytoskeleton organization (GO:0051493)|response to hypoxia (GO:0001666)	chromatin (GO:0000785)|cortical actin cytoskeleton (GO:0030864)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi apparatus (GO:0005794)|membrane raft (GO:0045121)|nucleus (GO:0005634)|perinuclear endoplasmic reticulum (GO:0097038)|plasma membrane (GO:0005886)|pseudopodium (GO:0031143)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)|cysteine-type peptidase activity (GO:0008234)|cytoskeletal protein binding (GO:0008092)			breast(3)|endometrium(1)|kidney(1)|large_intestine(9)|lung(10)|prostate(1)|skin(1)|stomach(3)	29				GBM - Glioblastoma multiforme(131;0.109)		TGGTGAAGGGGCACGCGTACT	0.647											OREG0014276	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													62	55	57					1																	223936794		2203	4300	6503	SO:0001819	synonymous_variant	824			J04700	CCDS31035.1, CCDS53478.1	1q41-q42	2013-01-10			ENSG00000162909	ENSG00000162909	3.4.22.52	"EF-hand domain containing"	1479	protein-coding gene	gene with protein product		114230				2852952, 2539381	Standard	NM_001748		Approved	mCANP, CANPml, CANPL2	uc001hob.4	P17655	OTTHUMG00000037376	ENST00000295006.5:c.783G>C	1.37:g.223936794G>C		Somatic	2293	WXS	Illumina HiSeq	Phase_I	A6NDG7|B7ZA96|E7ES58|Q16738|Q6PJT3|Q8WU26|Q9HBB1	Silent	SNP	ENST00000295006.5	37	CCDS31035.1																																																																																				0.647	CAPN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090973.1	NM_001748		C	223936794	G	C	223936794	2	2	668	1	0	0	0	0	0	0	0	1	2629	1190	42	4		4	CAPN2	1	223936794	Silent	SNP	G	TCGA-KN-8432-01A-11D-2310-10	470805	223936794	25313827	13	42686										
OBSCN	84033	broad.mit.edu	37	chr1	228432096	228432096	+	Frame_Shift_Del	DEL	A	A	-													0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ctgtgaggtggcccaggcccAgacggaggtgacgtggtaca							TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:228432096delA	ENST00000422127.1	+	11	3349	c.3305delA	c.(3304-3306)cagfs	p.Q1102fs	OBSCN_ENST00000570156.2_Frame_Shift_Del_p.Q1194fs|OBSCN_ENST00000366707.4_5'UTR|OBSCN_ENST00000284548.11_Frame_Shift_Del_p.Q1102fs|OBSCN_ENST00000366709.4_5'UTR	NM_001098623.2	NP_001092093.2	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF	1102	Ig-like 11.				apoptotic signaling pathway (GO:0097190)|multicellular organismal development (GO:0007275)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|protein localization to M-band (GO:0036309)|regulation of small GTPase mediated signal transduction (GO:0051056)|sarcomere organization (GO:0045214)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|M band (GO:0031430)|myofibril (GO:0030016)|Z disc (GO:0030018)	ankyrin binding (GO:0030506)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			NS(2)|breast(7)|central_nervous_system(5)|cervix(2)|endometrium(30)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(37)|lung(89)|ovary(8)|pancreas(3)|prostate(13)|skin(6)|stomach(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	223		Prostate(94;0.0405)				GCCCAGGCCCAGACGGAGGTG	0.597																																																0													85	82	83					1																	228432096		2033	4172	6205	SO:0001589	frameshift_variant	84033			AJ002535	CCDS1570.2, CCDS58065.1, CCDS59204.1	1q42	2014-09-17			ENSG00000154358	ENSG00000154358		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	15719	protein-coding gene	gene with protein product		608616				11448995, 11814696	Standard	NM_001098623		Approved	KIAA1556, UNC89, KIAA1639, ARHGEF30	uc001hsq.2	Q5VST9	OTTHUMG00000039772	ENST00000422127.1:c.3305delA	1.37:g.228432096delA	ENSP00000409493:p.Gln1102fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q2A664|Q5T7G8|Q5T7G9|Q5VSU2|Q86YC7|Q8NHN0|Q8NHN1|Q8NHN2|Q8NHN3|Q8NHN4|Q8NHN5|Q8NHN6|Q8NHN7|Q8NHN8|Q8NHN9|Q96AA2|Q9HCD3|Q9HCL6	Frame_Shift_Del	DEL	ENST00000422127.1	37	CCDS58065.1																																																																																				0.597	OBSCN-204	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_052843		-	228432096	A	-	228432096	7	5	668	1	0	1	0	1	0	0	0	0	10819	188	7	0	3343	0	OBSCN	1	228432096	Frame_Shift_Del	DEL	A	TCGA-KN-8432-01A-11D-2310-10	4495302	228432096	20818525	14	42687										
HNRNPU	3192	broad.mit.edu	37	chr1	245025801	245025803	+	In_Frame_Del	DEL	TCT	TCT	-													0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ctgtgtcatcgaagtgttcaTcttcttcttcaacaggtggc					rs538951206		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	TCT	TCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:245025801_245025803delTCT	ENST00000283179.9	-	3	1000_1002	c.837_839delAGA	c.(835-840)gaagat>gat	p.E279del	HNRNPU_ENST00000444376.2_In_Frame_Del_p.E260del|RP11-11N7.4_ENST00000610145.1_lincRNA			Q00839	HNRPU_HUMAN	heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A)	279	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.				CRD-mediated mRNA stabilization (GO:0070934)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|osteoblast differentiation (GO:0001649)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|CRD-mediated mRNA stability complex (GO:0070937)|cytoplasmic ribonucleoprotein granule (GO:0036464)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			NS(1)|endometrium(2)|large_intestine(1)|lung(10)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	20	all_cancers(71;6.97e-06)|all_epithelial(71;0.000104)|all_neural(11;0.0269)|Breast(184;0.0545)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0989)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.00868)			GAAGTGTTCATCTTCTTCTTCAA	0.394																																					NSCLC(33;911 1010 3329 23631 49995)											0																																										SO:0001651	inframe_deletion	3192			X65488	CCDS31081.1, CCDS41479.1	1q44	2011-10-24		2007-08-16	ENSG00000153187	ENSG00000153187			5048	protein-coding gene	gene with protein product		602869		HNRPU		7509195, 8068679	Standard	NM_031844		Approved	SAF-A, hnRNPU	uc001iaz.1	Q00839	OTTHUMG00000040396	ENST00000283179.9:c.837_839delAGA	1.37:g.245025807_245025809delTCT	ENSP00000283179:p.Glu279del	Somatic		WXS	Illumina HiSeq	Phase_I	O75507|Q8N174|Q96HY9|Q9BQ09	In_Frame_Del	DEL	ENST00000283179.9	37	CCDS41479.1																																																																																				0.394	HNRNPU-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000097163.3	NM_031844		-	245025803	TCT	-	245025801	7	5	668	1	0	1	0	1	0	0	0	0	7280	1435	50	0	1686	0	HNRNPU	1	245025801	In_Frame_Del	DEL	TCT	TCGA-KN-8432-01A-11D-2310-10	16593705	245025801	4224820	15	42688										
CNST	163882	broad.mit.edu	37	chr1	246811292	246811292	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	agaatctgccttctgatgagAgctgtctttctcttgatgat	9	8	4	5			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr1:246811292A>G	ENST00000366513.4	+	9	2058	c.1789A>G	c.(1789-1791)Agc>Ggc	p.S597G	CNST_ENST00000483271.1_3'UTR|CNST_ENST00000366512.3_Missense_Mutation_p.S597G	NM_152609.2	NP_689822.2	Q6PJW8	CNST_HUMAN	consortin, connexin sorting protein	597					negative regulation of phosphatase activity (GO:0010923)|positive regulation of Golgi to plasma membrane protein transport (GO:0042998)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|trans-Golgi network (GO:0005802)|transport vesicle (GO:0030133)	connexin binding (GO:0071253)|phosphatase binding (GO:0019902)			breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(12)|prostate(1)|urinary_tract(2)	28						TTCTGATGAGAGCTGTCTTTC	0.388																																																0													83	87	86					1																	246811292		2203	4300	6503	SO:0001583	missense	163882			AK056563	CCDS1628.1, CCDS44343.1	1q44	2012-04-17	2009-11-03	2009-11-03	ENSG00000162852	ENSG00000162852		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	26486	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 64"	613439	"chromosome 1 open reading frame 71"	C1orf71		19864490	Standard	NM_152609		Approved	FLJ32001, PPP1R64	uc001ibp.3	Q6PJW8	OTTHUMG00000040090	ENST00000366513.4:c.1789A>G	1.37:g.246811292A>G	ENSP00000355470:p.Ser597Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VSY9|Q5VTM7|Q8IYA9|Q8N3L5|Q8NB09|Q8TEI2|Q96MR5	Missense_Mutation	SNP	ENST00000366513.4	37	CCDS1628.1	.	.	.	.	.	.	.	.	.	.	A	16.18	3.051141	0.55218	.	.	ENSG00000162852	ENST00000366513;ENST00000366512	T;T	0.25912	2.05;1.77	5.62	1.8	0.24995	.	0.454768	0.26082	N	0.026447	T	0.26159	0.0638	M	0.77103	2.36	0.09310	N	0.999997	B;B	0.27997	0.096;0.197	B;B	0.25614	0.039;0.062	T	0.26087	-1.0113	10	0.72032	D	0.01	-27.1833	5.9865	0.19436	0.7426:0.0:0.1354:0.1219	.	597;597	Q6PJW8;Q6PJW8-2	CNST_HUMAN;.	G	597	ENSP00000355470:S597G;ENSP00000355469:S597G	ENSP00000355469:S597G	S	+	1	0	CNST	244877915	0.974000	0.33945	0.007000	0.13788	0.744000	0.42396	2.531000	0.45650	0.498000	0.27948	0.383000	0.25322	AGC		0.388	CNST-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096780.1	NM_152609		G	246811292	A	G	246811292	3	3	668	1	0	0	0	0	1	0	0	0	3636	304	11	3	1819	3	CNST	1	246811292	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10	1785491	246811292	2439329	16	42689										
CAPN13	92291	ucsc.edu;bcgsc.ca	37	chr2	30953639	30953639	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ctttgcttcagttgtacatgAccaggctcatccactgaaaa	7	11	2	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr2:30953639A>G	ENST00000295055.8	-	22	2173	c.1997T>C	c.(1996-1998)gTc>gCc	p.V666A	CAPN13_ENST00000534090.2_Missense_Mutation_p.V666A	NM_144575.2	NP_653176.2	Q6MZZ7	CAN13_HUMAN	calpain 13	666	EF-hand 2.				proteolysis (GO:0006508)	cytoplasm (GO:0005737)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(5)|large_intestine(5)|lung(11)|ovary(1)|prostate(1)|stomach(2)|urinary_tract(1)	30	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.155)					GTTGTACATGACCAGGCTCAT	0.478																																																0													129	129	129					2																	30953639		1977	4150	6127	SO:0001583	missense	92291				CCDS46252.1	2p22-p21	2008-02-05			ENSG00000162949	ENSG00000162949			16663	protein-coding gene	gene with protein product		610228				11675017	Standard	NM_144575		Approved	FLJ23523	uc021vfm.1	Q6MZZ7	OTTHUMG00000152053	ENST00000295055.8:c.1997T>C	2.37:g.30953639A>G	ENSP00000295055:p.Val666Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RF0|Q580X1|Q8TE80	Missense_Mutation	SNP	ENST00000295055.8	37	CCDS46252.1	.	.	.	.	.	.	.	.	.	.	A	14.50	2.554372	0.45487	.	.	ENSG00000162949	ENST00000295055;ENST00000534090	T;T	0.31769	1.48;1.48	4.79	2.48	0.30137	EF-hand-like domain (1);	0.654613	0.16302	N	0.220413	T	0.19167	0.0460	L	0.29908	0.895	0.32415	N	0.550165	P	0.50710	0.938	B	0.40329	0.326	T	0.25082	-1.0142	10	0.56958	D	0.05	.	5.5473	0.17071	0.7872:0.0:0.2128:0.0	.	666	Q6MZZ7	CAN13_HUMAN	A	666	ENSP00000295055:V666A;ENSP00000431298:V666A	ENSP00000295055:V666A	V	-	2	0	CAPN13	30807143	1.000000	0.71417	1.000000	0.80357	0.495000	0.33615	1.684000	0.37649	0.940000	0.37473	0.533000	0.62120	GTC		0.478	CAPN13-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000325101.2	NM_144575		G	30953639	A	G	30953639	3	3	668	1	0	0	0	0	1	0	0	0	2628	275	10	3	16	3	CAPN13	2	30953639	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10		30953639	212245734	17	42690										
XDH	7498	broad.mit.edu	37	chr2	31590910	31590910	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	caggtccataaaaggagttgTtctttatagcatcctgagga	10	7	1	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr2:31590910T>C	ENST00000379416.3	-	20	2162	c.2114A>G	c.(2113-2115)aAc>aGc	p.N705S		NM_000379.3	NP_000370.2	P47989	XDH_HUMAN	xanthine dehydrogenase	705					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|lactation (GO:0007595)|negative regulation of endothelial cell differentiation (GO:0045602)|negative regulation of endothelial cell proliferation (GO:0001937)|negative regulation of gene expression (GO:0010629)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of vascular endothelial growth factor signaling pathway (GO:1900747)|negative regulation of vasculogenesis (GO:2001213)|nucleobase-containing small molecule metabolic process (GO:0055086)|positive regulation of p38MAPK cascade (GO:1900745)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|purine nucleobase metabolic process (GO:0006144)|purine nucleotide catabolic process (GO:0006195)|small molecule metabolic process (GO:0044281)|xanthine catabolic process (GO:0009115)	cytosol (GO:0005829)|extracellular space (GO:0005615)|peroxisome (GO:0005777)	2 iron, 2 sulfur cluster binding (GO:0051537)|electron carrier activity (GO:0009055)|flavin adenine dinucleotide binding (GO:0050660)|iron ion binding (GO:0005506)|molybdopterin cofactor binding (GO:0043546)|protein homodimerization activity (GO:0042803)|UDP-N-acetylmuramate dehydrogenase activity (GO:0008762)|xanthine dehydrogenase activity (GO:0004854)|xanthine oxidase activity (GO:0004855)			breast(3)|central_nervous_system(2)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(13)|lung(31)|ovary(1)|pancreas(1)|prostate(3)|skin(9)|urinary_tract(1)	74	Acute lymphoblastic leukemia(172;0.155)				Aldesleukin(DB00041)|Allopurinol(DB00437)|Azathioprine(DB00993)|Carboplatin(DB00958)|Carvedilol(DB01136)|Chlorphenesin(DB00856)|Cisplatin(DB00515)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Doxorubicin(DB00997)|Flavin adenine dinucleotide(DB03147)|L-Carnitine(DB00583)|Menadione(DB00170)|Mercaptopurine(DB01033)|Nitrofural(DB00336)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Spermine(DB00127)|Trifluoperazine(DB00831)	AAAGGAGTTGTTCTTTATAGC	0.438																																					Colon(66;682 1445 30109 40147)											0													157	148	151					2																	31590910		2203	4300	6503	SO:0001583	missense	7498			D11456	CCDS1775.1	2p23.1	2009-07-10	2003-03-20		ENSG00000158125	ENSG00000158125	1.17.1.4		12805	protein-coding gene	gene with protein product		607633	"xanthene dehydrogenase"			8224915	Standard	NM_000379		Approved	XOR, XO	uc002rnv.1	P47989	OTTHUMG00000099385	ENST00000379416.3:c.2114A>G	2.37:g.31590910T>C	ENSP00000368727:p.Asn705Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q16681|Q16712|Q4PJ16	Missense_Mutation	SNP	ENST00000379416.3	37	CCDS1775.1	.	.	.	.	.	.	.	.	.	.	T	15.87	2.961610	0.53400	.	.	ENSG00000158125	ENST00000379416	T	0.38077	1.16	6.02	6.02	0.97574	Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding (3);	0.371642	0.33457	N	0.004886	T	0.31575	0.0801	L	0.28556	0.865	0.34950	D	0.751198	B	0.22080	0.064	B	0.27170	0.077	T	0.39761	-0.9598	10	0.59425	D	0.04	.	14.4967	0.67694	0.0:0.0:0.0:1.0	.	705	P47989	XDH_HUMAN	S	705	ENSP00000368727:N705S	ENSP00000368727:N705S	N	-	2	0	XDH	31444414	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	3.093000	0.50217	2.311000	0.77944	0.533000	0.62120	AAC		0.438	XDH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216840.1	NM_000379		C	31590910	T	C	31590910	3	2	668	1	0	0	0	0	1	0	0	0	17438	1725	60	3	1955	3	XDH	2	31590910	Missense_Mutation	SNP	T	TCGA-KN-8432-01A-11D-2310-10	637271	31590910	211608463	18	42691										
HNRPLL	92906	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	38818735	38818735	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ccaccacagattcacagagtCctcgaacatggacgacgggt	10	13	1	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr2:38818735C>A	ENST00000449105.3	-	2	584	c.245G>T	c.(244-246)gGa>gTa	p.G82V	HNRNPLL_ENST00000608859.1_Missense_Mutation_p.G82V|HNRNPLL_ENST00000378915.3_Missense_Mutation_p.G82V|HNRNPLL_ENST00000409636.1_Missense_Mutation_p.G77V|HNRNPLL_ENST00000409328.1_Missense_Mutation_p.G82V|HNRNPLL_ENST00000410076.1_Missense_Mutation_p.G77V|HNRNPLL_ENST00000498516.1_5'UTR|HNRNPLL_ENST00000358367.4_Missense_Mutation_p.G82V			Q8WVV9	HNRLL_HUMAN	heterogeneous nuclear ribonucleoprotein L-like	82	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				mRNA processing (GO:0006397)|positive regulation of RNA splicing (GO:0033120)	membrane (GO:0016020)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)										TTCACAGAGTCCTCGAACATG	0.403																																																0													125	120	122					2																	38818735		2203	4300	6503	SO:0001583	missense	92906			BC008217	CCDS46261.1, CCDS1796.2	2p22	2014-02-10		2013-06-12	ENSG00000143889	ENSG00000143889		"RNA binding motif (RRM) containing"	25127	protein-coding gene	gene with protein product		611208		HNRPLL		18669861	Standard	NM_138394		Approved		uc021vgc.1	Q8WVV9	OTTHUMG00000102075	ENST00000449105.3:c.245G>T	2.37:g.38818735C>A	ENSP00000390625:p.Gly82Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q53T80|Q5JB51|Q5JB52|Q659B9|Q8IVH5|Q8IVH6|Q96HR5	Missense_Mutation	SNP	ENST00000449105.3	37		.	.	.	.	.	.	.	.	.	.	C	34	5.354370	0.95830	.	.	ENSG00000143889	ENST00000449105;ENST00000409636;ENST00000378915;ENST00000409328;ENST00000358367;ENST00000410076;ENST00000425682	T;T;T;T;T;T;T	0.12361	2.69;2.69;2.69;2.69;2.69;2.69;2.69	5.84	5.84	0.93424	.	0.000000	0.85682	D	0.000000	T	0.48926	0.1527	M	0.89715	3.055	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.56153	-0.8026	10	0.87932	D	0	.	20.1992	0.98252	0.0:1.0:0.0:0.0	.	77;82	C9J9G0;D6W592	.;.	V	82;77;82;82;82;77;21	ENSP00000390625:G82V;ENSP00000387088:G77V;ENSP00000368195:G82V;ENSP00000386575:G82V;ENSP00000351136:G82V;ENSP00000386695:G77V;ENSP00000396669:G21V	ENSP00000351136:G82V	G	-	2	0	HNRPLL	38672239	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.515000	0.81761	2.775000	0.95449	0.650000	0.86243	GGA		0.403	HNRNPLL-001	KNOWN	non_canonical_conserved|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000219887.2	NM_138394		A	38818735	C	A	38818735	3	1	668	1	0	0	0	0	1	0	0	0	7284	855	30	4	1431	4	HNRPLL	2	38818735	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	7227825	38818735	204380638	19	42692										
SFRS7	6432	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	38978394	38978394	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ctccgtaccgcccgtaacgcGacatgatgacagacccgcgt	10	16	0	3			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr2:38978394G>A	ENST00000313117.6	-	1	242	c.5C>T	c.(4-6)tCg>tTg	p.S2L	GEMIN6_ENST00000409011.1_5'Flank|SRSF7_ENST00000446327.2_Missense_Mutation_p.S2L|SRSF7_ENST00000409276.1_Missense_Mutation_p.S2L	NM_001031684.2|NM_001195446.1	NP_001026854.1|NP_001182375.1	Q16629	SRSF7_HUMAN	serine/arginine-rich splicing factor 7	2					gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA export from nucleus (GO:0006406)|mRNA processing (GO:0006397)|mRNA splicing, via spliceosome (GO:0000398)|negative regulation of mRNA splicing, via spliceosome (GO:0048025)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	12						CCCGTAACGCGACATGATGAC	0.627																																																0													188	146	160					2																	38978394		2203	4300	6503	SO:0001583	missense	6432			L41887	CCDS33183.1, CCDS56115.1	2p22.1	2013-02-12	2010-06-22	2010-06-22	ENSG00000115875	ENSG00000115875		"Zinc fingers, CCHC domain containing", "Serine/arginine-rich splicing factors", "RNA binding motif (RRM) containing"	10789	protein-coding gene	gene with protein product	"SR splicing factor 7"	600572	"splicing factor, arginine/serine-rich 7 (35kD)", "splicing factor, arginine/serine-rich 7, 35kDa"	SFRS7		8013463, 20516191	Standard	NM_001031684		Approved	9G8, ZCRB2, HSSG1, AAG3, RBM37, ZCCHC20	uc002rqz.3	Q16629	OTTHUMG00000102076	ENST00000313117.6:c.5C>T	2.37:g.38978394G>A	ENSP00000325905:p.Ser2Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DLU6|G5E9M3|Q564D3	Missense_Mutation	SNP	ENST00000313117.6	37	CCDS33183.1	.	.	.	.	.	.	.	.	.	.	G	27.6	4.846108	0.91277	.	.	ENSG00000115875	ENST00000313117;ENST00000446327;ENST00000409276	T;T;T	0.26957	1.77;1.7;2.38	4.98	4.98	0.66077	.	0.610527	0.14490	N	0.316430	T	0.47002	0.1422	M	0.82323	2.585	0.80722	D	1	P;P	0.51449	0.945;0.909	P;B	0.50314	0.637;0.434	T	0.54510	-0.8283	10	0.72032	D	0.01	.	17.4054	0.87472	0.0:0.0:1.0:0.0	.	2;2	G5E9M3;Q16629	.;SRSF7_HUMAN	L	2	ENSP00000325905:S2L;ENSP00000402264:S2L;ENSP00000386806:S2L	ENSP00000325905:S2L	S	-	2	0	SRSF7	38831898	1.000000	0.71417	1.000000	0.80357	0.762000	0.43233	6.372000	0.73123	2.574000	0.86865	0.561000	0.74099	TCG		0.627	SRSF7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219889.2	NM_001031684		A	38978394	G	A	38978394	3	1	668	1	0	0	0	0	1	0	0	0	14195	1059	37	1	743	1	SFRS7	2	38978394	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10	159659	38978394	204220979	20	42693										
TUBA3D	113457	mdanderson.org	37	chr2	132236921	132236921	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tacaggcagctcttccacccGgagcagctgatcaccgggaa	11	14	2	1	rs4065352	byFrequency	TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr2:132236921G>A	ENST00000321253.6	+	3	374	c.267G>A	c.(265-267)ccG>ccA	p.P89P	TUBA3D_ENST00000409047.2_3'UTR	NM_080386.3	NP_525125.2	Q13748	TBA3C_HUMAN	tubulin, alpha 3d	89					'de novo' posttranslational protein folding (GO:0051084)|cellular protein metabolic process (GO:0044267)|microtubule-based process (GO:0007017)|protein folding (GO:0006457)|protein polymerization (GO:0051258)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)			breast(2)|endometrium(1)|kidney(1)|large_intestine(3)|lung(18)|prostate(2)|skin(2)|upper_aerodigestive_tract(3)	32				BRCA - Breast invasive adenocarcinoma(221;0.13)		TCTTCCACCCGGAGCAGCTGA	0.532																																					Ovarian(137;2059 2432 35543 39401)											0													137	125	129					2																	132236921		2203	4300	6503	SO:0001819	synonymous_variant	113457			K03460	CCDS33290.1	2q21.1	2007-03-16			ENSG00000075886	ENSG00000075886		"Tubulins"	24071	protein-coding gene	gene with protein product	"alpha-tubulin isotype H2-alpha"					3785200	Standard	NM_080386		Approved	H2-ALPHA	uc002tsu.4	Q13748	OTTHUMG00000153600	ENST00000321253.6:c.267G>A	2.37:g.132236921G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NJQ0|Q5W099|Q6PEY3|Q96F18	Silent	SNP	ENST00000321253.6	37	CCDS33290.1																																																																																				0.532	TUBA3D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331800.2	NM_080386		A	132236921	G	A	132236921	2	1	668	1	0	0	0	0	0	0	0	1	16759	1103	39	1		1	TUBA3D	2	132236921	Silent	SNP	G	TCGA-KN-8432-01A-11D-2310-10	93258527	132236921	110962452	21	42694										
MCM6	4175	broad.mit.edu	37	chr2	136614368	136614368	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tgggagctgacaaatttataTtctgtttcaatgattttgat	8	4	2	3			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr2:136614368T>C	ENST00000264156.2	-	11	1616	c.1556A>G	c.(1555-1557)aAt>aGt	p.N519S	MCM6_ENST00000492091.1_Intron	NM_005915.5	NP_005906.2	Q14566	MCM6_HUMAN	minichromosome maintenance complex component 6	519	MCM.				DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA strand elongation involved in DNA replication (GO:0006271)|DNA unwinding involved in DNA replication (GO:0006268)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)	MCM complex (GO:0042555)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA helicase activity (GO:0003678)|identical protein binding (GO:0042802)|single-stranded DNA binding (GO:0003697)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(5)|liver(1)|lung(15)|prostate(2)|skin(1)	29				BRCA - Breast invasive adenocarcinoma(221;0.166)		CAAATTTATATTCTGTTTCAA	0.423																																					Ovarian(196;141 2104 8848 24991 25939)											0													133	127	129					2																	136614368		2203	4300	6503	SO:0001583	missense	4175				CCDS2179.1	2q14-q21	2008-02-05	2007-04-04		ENSG00000076003	ENSG00000076003			6949	protein-coding gene	gene with protein product	"MIS5 homolog (S.pombe)"	601806	"minichromosome maintenance deficient (mis5, S. pombe) 6", "MCM6 minichromosome maintenance deficient 6 (MIS5 homolog, S. pombe) (S. cerevisiae)", "minichromosome maintenance deficient 6 homolog (S. cerevisiae)"				Standard	NM_005915		Approved	Mis5	uc002tuw.4	Q14566	OTTHUMG00000131739	ENST00000264156.2:c.1556A>G	2.37:g.136614368T>C	ENSP00000264156:p.Asn519Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6H2|Q13504|Q99859	Missense_Mutation	SNP	ENST00000264156.2	37	CCDS2179.1	.	.	.	.	.	.	.	.	.	.	T	26.5	4.742623	0.89573	.	.	ENSG00000076003	ENST00000264156	T	0.09255	3.0	5.67	5.67	0.87782	.	0.000000	0.85682	D	0.000000	T	0.48892	0.1525	H	0.97103	3.94	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.67268	-0.5713	10	0.87932	D	0	-24.3423	15.8953	0.79329	0.0:0.0:0.0:1.0	.	519	Q14566	MCM6_HUMAN	S	519	ENSP00000264156:N519S	ENSP00000264156:N519S	N	-	2	0	MCM6	136330838	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.902000	0.87389	2.158000	0.67659	0.482000	0.46254	AAT		0.423	MCM6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254658.1	NM_005915		C	136614368	T	C	136614368	3	2	668	1	0	0	0	0	1	0	0	0	9398	1493	52	3	937	3	MCM6	2	136614368	Missense_Mutation	SNP	T	TCGA-KN-8432-01A-11D-2310-10	4377447	136614368	106585005	22	42695										
LRP2	4036	broad.mit.edu	37	chr2	169999257	169999257	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gcacagctgtatcctccaggTctcagaaggcagaggtggct	13	11	1	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr2:169999257T>C	ENST00000263816.3	-	71	13320	c.13035A>G	c.(13033-13035)agA>agG	p.R4345R		NM_004525.2	NP_004516.2	P98164	LRP2_HUMAN	low density lipoprotein receptor-related protein 2	4345	EGF-like 16. {ECO:0000255|PROSITE- ProRule:PRU00076}.				cell proliferation (GO:0008283)|endocytosis (GO:0006897)|forebrain development (GO:0030900)|lipid metabolic process (GO:0006629)|phototransduction, visible light (GO:0007603)|protein glycosylation (GO:0006486)|receptor-mediated endocytosis (GO:0006898)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|vitamin D metabolic process (GO:0042359)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|coated pit (GO:0005905)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)			biliary_tract(1)|breast(16)|central_nervous_system(6)|cervix(2)|endometrium(24)|haematopoietic_and_lymphoid_tissue(2)|kidney(17)|large_intestine(70)|liver(1)|lung(117)|ovary(19)|pancreas(1)|prostate(2)|skin(17)|upper_aerodigestive_tract(7)|urinary_tract(13)	315				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	"""Insulin(DB00071)|Gentamicin(DB00798)|Insulin Regular(DB00030)|Urokinase(DB00013)"	ATCCTCCAGGTCTCAGAAGGC	0.537																																																0													109	104	105					2																	169999257		2203	4300	6503	SO:0001819	synonymous_variant	4036				CCDS2232.1	2q31.1	2013-05-28	2010-01-26		ENSG00000081479	ENSG00000081479		"Low density lipoprotein receptors"	6694	protein-coding gene	gene with protein product	"megalin"	600073				7959795	Standard	NM_004525		Approved	gp330, DBS	uc002ues.3	P98164	OTTHUMG00000132179	ENST00000263816.3:c.13035A>G	2.37:g.169999257T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O00711|Q16215	Silent	SNP	ENST00000263816.3	37	CCDS2232.1																																																																																				0.537	LRP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255231.2	NM_004525		C	169999257	T	C	169999257	2	2	668	1	0	0	0	0	0	0	0	1	8963	1664	58	3		3	LRP2	2	169999257	Silent	SNP	T	TCGA-KN-8432-01A-11D-2310-10	33384889	169999257	73200116	23	42696										
ZNF142	7701	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	219513452	219513452	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	atcttttcatgagcatgcatCttgcctacatgatcctggta	7	10	3	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr2:219513452C>G	ENST00000449707.1	-	6	1600	c.1179G>C	c.(1177-1179)aaG>aaC	p.K393N	ZNF142_ENST00000411696.2_Missense_Mutation_p.K393N	NM_001105537.1	NP_001099007.1	P52746	ZN142_HUMAN	zinc finger protein 142	393					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(7)|endometrium(7)|large_intestine(5)|lung(12)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	38		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		gagcaTGCATCTTGCCTACAT	0.542											OREG0015202	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																									Colon(170;867 1942 8995 15834 18053)											0													96	90	92					2																	219513452		2076	4224	6300	SO:0001583	missense	7701			U09849	CCDS42817.1	2q35	2013-01-08	2006-06-13		ENSG00000115568	ENSG00000115568		"Zinc fingers, C2H2-type"	12927	protein-coding gene	gene with protein product		604083	"zinc finger protein 142 (clone pHZ-49)"				Standard	NM_001105537		Approved	KIAA0236, pHZ-49	uc002vin.4	P52746	OTTHUMG00000154736	ENST00000449707.1:c.1179G>C	2.37:g.219513452C>G	ENSP00000408643:p.Lys393Asn	Somatic	2259	WXS	Illumina HiSeq	Phase_I	Q92510	Missense_Mutation	SNP	ENST00000449707.1	37	CCDS42817.1	.	.	.	.	.	.	.	.	.	.	C	16.42	3.118889	0.56505	.	.	ENSG00000115568	ENST00000449707;ENST00000411696	T;T	0.14144	2.53;2.53	5.87	4.99	0.66335	Zinc finger, C2H2-like (1);	0.091759	0.85682	D	0.000000	T	0.31544	0.0800	M	0.72894	2.215	0.41280	D	0.986901	D;P	0.54964	0.969;0.955	P;P	0.57468	0.711;0.821	T	0.01162	-1.1432	10	0.72032	D	0.01	-6.4339	14.7909	0.69841	0.0:0.9311:0.0:0.0689	.	393;230	P52746;A8MWU9	ZN142_HUMAN;.	N	393	ENSP00000408643:K393N;ENSP00000398798:K393N	ENSP00000398798:K393N	K	-	3	2	ZNF142	219221696	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.872000	0.48467	2.941000	0.99782	0.655000	0.94253	AAG		0.542	ZNF142-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336833.1	NM_005081		G	219513452	C	G	219513452	3	3	668	1	0	0	0	0	1	0	0	0	17743	912	32	4	3904	4	ZNF142	2	219513452	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	49514195	219513452	23685921	24	42697										
OBSL1	23363	broad.mit.edu	37	chr2	220432822	220432822	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gcgcacccggccccgcatctCgcacaggtagataccatcat	9	17	2	1	rs2292359		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr2:220432822C>T	ENST00000404537.1	-	2	1293	c.1237G>A	c.(1237-1239)Gag>Aag	p.E413K	OBSL1_ENST00000373876.1_Missense_Mutation_p.E413K|OBSL1_ENST00000289656.3_5'UTR|OBSL1_ENST00000603926.1_Missense_Mutation_p.E413K|OBSL1_ENST00000265318.4_Missense_Mutation_p.E413K|OBSL1_ENST00000491370.1_5'Flank|OBSL1_ENST00000373873.4_Missense_Mutation_p.E413K	NM_015311.2	NP_056126.1	O75147	OBSL1_HUMAN	obscurin-like 1	413	Ig-like 4.				cardiac myofibril assembly (GO:0055003)|cytoskeleton organization (GO:0007010)|Golgi organization (GO:0007030)|microtubule cytoskeleton organization (GO:0000226)|positive regulation of dendrite morphogenesis (GO:0050775)|protein localization to Golgi apparatus (GO:0034067)|regulation of mitosis (GO:0007088)	3M complex (GO:1990393)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|intercalated disc (GO:0014704)|M band (GO:0031430)|perinuclear region of cytoplasm (GO:0048471)|Z disc (GO:0030018)	cytoskeletal adaptor activity (GO:0008093)						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)		CCCCGCATCTCGCACAGGTAG	0.637											OREG0003988	type=REGULATORY REGION|Gene=OBSL1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay																																				0													71	78	76					2																	220432822		2129	4236	6365	SO:0001583	missense	23363			BC007201	CCDS46520.1, CCDS54433.1, CCDS63134.1	2q35	2013-01-29			ENSG00000124006	ENSG00000124006		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	29092	protein-coding gene	gene with protein product		610991				9734811	Standard	NM_015311		Approved	KIAA0657	uc010fwk.3	O75147	OTTHUMG00000059157	ENST00000404537.1:c.1237G>A	2.37:g.220432822C>T	ENSP00000385636:p.Glu413Lys	Somatic	2266	WXS	Illumina HiSeq	Phase_I	A4KVA4|A4KVA5|Q96IW3|S4R3M6	Missense_Mutation	SNP	ENST00000404537.1	37	CCDS46520.1	.	.	.	.	.	.	.	.	.	.	C	23.2	4.389568	0.82902	.	.	ENSG00000124006	ENST00000265318;ENST00000404537;ENST00000373876;ENST00000373873	T;T;T;T	0.65364	-0.15;-0.15;-0.15;-0.15	5.17	5.17	0.71159	Immunoglobulin subtype (1);Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.75860	0.3907	M	0.65677	2.01	0.49483	D	0.999798	D;D	0.89917	1.0;0.998	D;P	0.87578	0.998;0.85	T	0.73072	-0.4098	9	0.33141	T	0.24	.	14.4333	0.67266	0.0:0.7489:0.2511:0.0	rs2292359	413;413	O75147;O75147-2	OBSL1_HUMAN;.	K	413	ENSP00000265318:E413K;ENSP00000385636:E413K;ENSP00000362983:E413K;ENSP00000362980:E413K	ENSP00000265318:E413K	E	-	1	0	OBSL1	220141066	0.999000	0.42202	1.000000	0.80357	0.893000	0.52053	3.913000	0.56394	2.694000	0.91930	0.650000	0.86243	GAG		0.637	OBSL1-014	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322012.1			T	220432822	C	T	220432822	3	4	668	1	0	0	0	0	1	0	0	0	10820	893	31	1	4685	1	OBSL1	2	220432822	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	919370	220432822	22766551	25	42698										
ITM2C	81618	bcgsc.ca	37	chr2	231741668	231741668	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ctcgcaacttctgggagctcCtcatgaacgtgaaggtgcgc	12	12	2	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr2:231741668C>T	ENST00000326427.6	+	4	673	c.547C>T	c.(547-549)Ctc>Ttc	p.L183F	ITM2C_ENST00000335005.6_Missense_Mutation_p.L136F|ITM2C_ENST00000409704.2_Missense_Mutation_p.L121F|ITM2C_ENST00000326407.6_Intron|ITM2C_ENST00000492029.1_3'UTR	NM_030926.4	NP_112188.1	Q9NQX7	ITM2C_HUMAN	integral membrane protein 2C	183	BRICHOS. {ECO:0000255|PROSITE- ProRule:PRU00255}.				negative regulation of neuron projection development (GO:0010977)|neuron differentiation (GO:0030182)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|lysosome (GO:0005764)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|beta-amyloid binding (GO:0001540)			cervix(2)|lung(1)|ovary(1)|skin(1)	5		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;8.47e-12)|all cancers(144;3.44e-09)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)		CTGGGAGCTCCTCATGAACGT	0.577																																																0													107	105	106					2																	231741668		2203	4300	6503	SO:0001583	missense	81618			AF038953	CCDS2479.1, CCDS33395.1, CCDS33396.1, CCDS74665.1	2q37	2012-10-10			ENSG00000135916	ENSG00000135916		"BRICHOS domain containing"	6175	protein-coding gene	gene with protein product	"BRICHOS domain containing 2C"	609554				9653160	Standard	NM_030926		Approved	BRI3, E25, hRPC.1050_D_4, ITM3, BRICD2C	uc002vqz.3	Q9NQX7	OTTHUMG00000133219	ENST00000326427.6:c.547C>T	2.37:g.231741668C>T	ENSP00000322730:p.Leu183Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPG4|Q4G0A8|Q53H84|Q6IAE7|Q86VK5|Q8N288|Q8TAW0|Q9BUP8	Missense_Mutation	SNP	ENST00000326427.6	37	CCDS2479.1	.	.	.	.	.	.	.	.	.	.	C	19.50	3.838631	0.71373	.	.	ENSG00000135916	ENST00000541852;ENST00000326427;ENST00000335005;ENST00000543957;ENST00000409704;ENST00000418408	T;T;T;T;T;T	0.79454	-1.27;-1.27;-1.27;-1.27;-1.27;-1.27	5.8	5.8	0.92144	BRICHOS (2);	0.000000	0.85682	D	0.000000	D	0.84642	0.5517	L	0.49513	1.565	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.994;0.999	T	0.83072	-0.0142	9	.	.	.	-27.6121	15.5632	0.76266	0.0:1.0:0.0:0.0	.	136;183	Q9NQX7-2;Q9NQX7	.;ITM2C_HUMAN	F	121;183;136;121;121;121	ENSP00000440295:L121F;ENSP00000322730:L183F;ENSP00000335121:L136F;ENSP00000444899:L121F;ENSP00000387242:L121F;ENSP00000403257:L121F	.	L	+	1	0	ITM2C	231449912	0.998000	0.40836	1.000000	0.80357	0.993000	0.82548	2.967000	0.49216	2.735000	0.93741	0.655000	0.94253	CTC		0.577	ITM2C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256954.2	NM_030926		T	231741668	C	T	231741668	3	4	668	1	0	0	0	0	1	0	0	0	7921	681	24	2	561	2	ITM2C	2	231741668	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	11308846	231741668	11457705	26	42699										
ALPPL2	251	hgsc.bcm.edu;mdanderson.org	37	chr2	233274094	233274094	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gcctacacggtcctcctataCggaaacggtccaggctatgt	10	13	0	0	rs563231782	byFrequency	TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr2:233274094C>T	ENST00000295453.3	+	10	1288	c.1236C>T	c.(1234-1236)taC>taT	p.Y412Y		NM_031313.2	NP_112603.2	P10696	PPBN_HUMAN	alkaline phosphatase, placental-like 2	412					dephosphorylation (GO:0016311)	anchored component of membrane (GO:0031225)|plasma membrane (GO:0005886)	alkaline phosphatase activity (GO:0004035)|metal ion binding (GO:0046872)			breast(2)|kidney(1)|large_intestine(1)|liver(2)|lung(6)|skin(1)	13		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)	Amifostine(DB01143)	TCCTCCTATACGGAAACGGTC	0.662													c|||	2	0.000399361	0.0	0.0029	5008	,	,		12898	0.0		0.0	False		,,,				2504	0.0															0													14	12	13					2																	233274094		2132	4175	6307	SO:0001819	synonymous_variant	251			J04948	CCDS2491.1	2q37	2008-05-20			ENSG00000163286	ENSG00000163286			441	protein-coding gene	gene with protein product		171810					Standard	NM_031313		Approved		uc002vss.4	P10696	OTTHUMG00000133257	ENST00000295453.3:c.1236C>T	2.37:g.233274094C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8KAF2|Q16727|Q53S81|Q96CM1	Silent	SNP	ENST00000295453.3	37	CCDS2491.1																																																																																				0.662	ALPPL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257034.2	NM_031313		T	233274094	C	T	233274094	2	4	668	1	0	0	0	0	0	0	0	1	549	547	19	1		1	ALPPL2	2	233274094	Silent	SNP	C	TCGA-KN-8432-01A-11D-2310-10	1532426	233274094	9925279	27	42700										
UGT1A1	54658	bcgsc.ca	37	chr2	234669525	234669542	+	In_Frame_Del	DEL	CTCCTCTCATTCAGATCA	CTCCTCTCATTCAGATCA	-													0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	cctacgtgcccaggcctctcTcctctcattcagatcacatg					rs199675631|rs550460320		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	CTCCTCTCATTCAGATCA	CTCCTCTCATTCAGATCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr2:234669525_234669542delCTCCTCTCATTCAGATCA	ENST00000608383.1	+	1	592_609	c.592_609delCTCCTCTCATTCAGATCA	c.(592-609)ctcctctcattcagatcadel	p.LLSFRS198del	UGT1A6_ENST00000406651.1_Intron|UGT1A4_ENST00000373409.3_Intron|UGT1A1_ENST00000609767.1_Intron|UGT1A10_ENST00000344644.5_Intron|UGT1A10_ENST00000373445.1_Intron|UGT1A8_ENST00000305208.5_In_Frame_Del_p.LLSFRS198del|UGT1A1_ENST00000373450.4_Intron|UGT1A3_ENST00000482026.1_Intron|UGT1A6_ENST00000305139.6_Intron|UGT1A7_ENST00000373426.3_Intron|UGT1A9_ENST00000354728.4_Intron|UGT1A1_ENST00000608381.1_Intron|UGT1A6_ENST00000373424.1_Intron|UGT1A1_ENST00000609637.1_Intron|UGT1A5_ENST00000373414.3_Intron|UGT1A1_ENST00000360418.3_In_Frame_Del_p.LLSFRS198del			P22309	UD11_HUMAN	UDP glucuronosyltransferase 1 family, polypeptide A1	198					acute-phase response (GO:0006953)|bilirubin conjugation (GO:0006789)|biphenyl catabolic process (GO:0070980)|cellular glucuronidation (GO:0052695)|cellular response to ethanol (GO:0071361)|cellular response to glucocorticoid stimulus (GO:0071385)|digestion (GO:0007586)|drug metabolic process (GO:0017144)|estrogen metabolic process (GO:0008210)|flavone metabolic process (GO:0051552)|flavonoid glucuronidation (GO:0052696)|heme catabolic process (GO:0042167)|heterocycle metabolic process (GO:0046483)|liver development (GO:0001889)|negative regulation of catalytic activity (GO:0043086)|negative regulation of cellular glucuronidation (GO:2001030)|negative regulation of steroid metabolic process (GO:0045939)|organ regeneration (GO:0031100)|porphyrin-containing compound metabolic process (GO:0006778)|response to drug (GO:0042493)|response to lipopolysaccharide (GO:0032496)|response to nutrient (GO:0007584)|response to starvation (GO:0042594)|retinoic acid metabolic process (GO:0042573)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|xenobiotic glucuronidation (GO:0052697)|xenobiotic metabolic process (GO:0006805)	cytochrome complex (GO:0070069)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of plasma membrane (GO:0005887)	enzyme binding (GO:0019899)|enzyme inhibitor activity (GO:0004857)|glucuronosyltransferase activity (GO:0015020)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|retinoic acid binding (GO:0001972)|steroid binding (GO:0005496)			breast(1)|central_nervous_system(2)|endometrium(7)|large_intestine(5)|lung(9)|skin(4)|urinary_tract(2)	30		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;4.1e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000435)|Lung(119;0.00211)|LUSC - Lung squamous cell carcinoma(224;0.0054)	Abacavir(DB01048)|Acetaminophen(DB00316)|Adenine(DB00173)|Atorvastatin(DB01076)|Axitinib(DB06626)|Diclofenac(DB00586)|Dolutegravir(DB08930)|Eltrombopag(DB06210)|Erlotinib(DB00530)|Estradiol(DB00783)|Etoposide(DB00773)|Ezetimibe(DB00973)|Ezogabine(DB04953)|Flunitrazepam(DB01544)|Flurbiprofen(DB00712)|Fluvastatin(DB01095)|Ibuprofen(DB01050)|Indacaterol(DB05039)|Indomethacin(DB00328)|Irinotecan(DB00762)|Losartan(DB00678)|Lovastatin(DB00227)|Morphine(DB00295)|Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|Naltrexone(DB00704)|Naproxen(DB00788)|Nilotinib(DB04868)|Pazopanib(DB06589)|Propofol(DB00818)|Raltegravir(DB06817)|Regorafenib(DB08896)|Rifampicin(DB01045)|Simvastatin(DB00641)|Sorafenib(DB00398)|Suprofen(DB00870)|Testosterone Propionate(DB01420)	CAGGCCTCTCTCCTCTCATTCAGATCACATGACCTTCC	0.523																																																0																																										SO:0001651	inframe_deletion	54658			M57899	CCDS2510.1	2q37.1	2014-09-17	2005-07-20		ENSG00000242366	ENSG00000242366	2.4.1.17	"UDP glucuronosyltransferases"	12530	other	complex locus constituent		191740	"UDP glycosyltransferase 1 family, polypeptide A1"	UGT1, GNT1		9295054, 9535849	Standard	NM_000463		Approved	UGT1A		P22309	OTTHUMG00000059117	ENST00000608383.1:c.592_609delCTCCTCTCATTCAGATCA	2.37:g.234669525_234669542delCTCCTCTCATTCAGATCA	ENSP00000476741:p.Leu198_Ser203del	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJC3|B8K286	In_Frame_Del	DEL	ENST00000608383.1	37	CCDS2510.1																																																																																				0.523	UGT1A1-203	KNOWN	basic|CCDS	protein_coding	protein_coding				-	234669542	CTCCTCTCATTCAGATCA	-	234669525	7	5	668	1	0	1	0	1	0	0	0	0	16956	1551	54	0	594	0	UGT1A1	2	234669525	In_Frame_Del	DEL	CTCCTCTCATTCAGATCA	TCGA-KN-8432-01A-11D-2310-10	1395431	234669525	8529848	28	42701										
C2orf85	285093	ucsc.edu;bcgsc.ca	37	chr2	242815181	242815181	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	agggcggtggccacgttgccTacggcccccagggcaatggc	16	14	0	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr2:242815181T>C	ENST00000343216.3	+	2	1502	c.1474T>C	c.(1474-1476)Tac>Cac	p.Y492H		NM_173821.2	NP_776182.2																					CCACGTTGCCTACGGCCCCCA	0.632																																																0													67	80	76					2																	242815181		2078	4195	6273	SO:0001583	missense	285093																														ENST00000343216.3:c.1474T>C	2.37:g.242815181T>C	ENSP00000345374:p.Tyr492His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000343216.3	37	CCDS42843.1	.	.	.	.	.	.	.	.	.	.	.	10.51	1.369156	0.24771	.	.	ENSG00000188011	ENST00000343216	T	0.24151	1.87	1.96	-0.631	0.11526	.	.	.	.	.	T	0.08626	0.0214	N	0.08118	0	0.09310	N	1	P	0.46020	0.871	B	0.34242	0.178	T	0.19484	-1.0304	9	0.87932	D	0	-7.1084	1.7057	0.02881	0.5123:0.0:0.1891:0.2986	.	492	Q14D33	CB085_HUMAN	H	492	ENSP00000345374:Y492H	ENSP00000345374:Y492H	Y	+	1	0	C2orf85	242463854	0.000000	0.05858	0.000000	0.03702	0.688000	0.40055	-1.805000	0.01737	-0.153000	0.11137	0.165000	0.16767	TAC		0.632	CXXC11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322310.1			C	242815181	T	C	242815181	3	2	668	1	0	0	0	0	1	0	0	0	2202	1522	53	3	1480	3	C2orf85	2	242815181	Missense_Mutation	SNP	T	TCGA-KN-8432-01A-11D-2310-10	8145656	242815181	384192	29	42702										
VHL	7428	ucsc.edu;bcgsc.ca	37	chr3	10183608	10183608	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	cgtcgaagagtacggccctgAagaagacggcggggaggagt	18	8	0	4			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr3:10183608A>G	ENST00000256474.2	+	1	917	c.77A>G	c.(76-78)gAa>gGa	p.E26G	snoU13_ENST00000458986.1_RNA|VHL_ENST00000345392.2_Missense_Mutation_p.E26G	NM_000551.3	NP_000542.1	P40337	VHL_HUMAN	von Hippel-Lindau tumor suppressor, E3 ubiquitin protein ligase	26	8 X 5 AA tandem repeats of G-[PAVG]-E-E- [DAYSLE].				cell morphogenesis (GO:0000902)|cellular response to hypoxia (GO:0071456)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061428)|positive regulation of cell differentiation (GO:0045597)|positive regulation of transcription, DNA-templated (GO:0045893)|protein stabilization (GO:0050821)|protein ubiquitination (GO:0016567)|proteolysis (GO:0006508)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of transcription, DNA-templated (GO:0006355)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|intermediate filament cytoskeleton (GO:0045111)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	enzyme binding (GO:0019899)|transcription factor binding (GO:0008134)|ubiquitin protein ligase activity (GO:0061630)|ubiquitin-protein transferase activity (GO:0004842)	p.E26G(1)		adrenal_gland(25)|autonomic_ganglia(3)|central_nervous_system(2)|endometrium(6)|kidney(1662)|large_intestine(14)|lung(6)|pancreas(18)|paratesticular_tissues(1)|pleura(1)|skin(1)|soft_tissue(24)|thyroid(3)|upper_aerodigestive_tract(3)	1769				Kidney(1;0.000404)|KIRC - Kidney renal clear cell carcinoma(1;0.000569)		TACGGCCCTGAAGAAGACGGC	0.731		1	"D, Mis, N, F, S"		"renal, hemangioma, pheochromocytoma"	"renal, hemangioma, pheochromocytoma"			von Hippel-Lindau disease;Pheochromocytoma (Adrenal), Familial;Chuvash Polycythemia																													yes	Rec	yes	von Hippel-Lindau syndrome	3	3p25	7428	von Hippel-Lindau syndrome gene		"E, M, O"	1	Substitution - Missense(1)	kidney(1)											9	12	11					3																	10183608		1937	3843	5780	SO:0001583	missense	7428	Familial Cancer Database	VHL; ;Erythrocytosis, Familial type 2	L15409	CCDS2597.1, CCDS2598.1	3p25.3	2014-09-17	2012-02-23		ENSG00000134086	ENSG00000134086			12687	protein-coding gene	gene with protein product		608537	"von Hippel-Lindau syndrome", "von Hippel-Lindau tumor suppressor"			9671762	Standard	NM_000551		Approved	VHL1	uc003bvc.3	P40337	OTTHUMG00000128668	ENST00000256474.2:c.77A>G	3.37:g.10183608A>G	ENSP00000256474:p.Glu26Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE45|Q13599|Q6PDA9	Missense_Mutation	SNP	ENST00000256474.2	37	CCDS2597.1	.	.	.	.	.	.	.	.	.	.	A	14.31	2.495981	0.44352	.	.	ENSG00000134086	ENST00000256474;ENST00000345392;ENST00000450183	D;D	0.85013	-1.93;-1.93	3.41	-0.726	0.11170	.	0.806388	0.09846	N	0.748190	T	0.69378	0.3104	N	0.14661	0.345	0.09310	N	1	B;B	0.11235	0.004;0.002	B;B	0.11329	0.006;0.003	T	0.57365	-0.7824	10	0.87932	D	0	-2.5634	3.318	0.07040	0.5484:0.2091:0.2425:0.0	.	26;26	P40337-2;P40337	.;VHL_HUMAN	G	26	ENSP00000256474:E26G;ENSP00000344757:E26G	ENSP00000256474:E26G	E	+	2	0	VHL	10158608	0.001000	0.12720	0.000000	0.03702	0.048000	0.14542	0.232000	0.17891	-0.217000	0.10033	-0.572000	0.04151	GAA		0.731	VHL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250559.1	NM_000551		G	10183608	A	G	10183608	3	3	668	1	0	0	0	0	1	0	0	0	17174	246	9	3	79	3	VHL	3	10183608	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10		10183608	187838822	30	42703										
ABHD14A	25864	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	52014444	52014444	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	caccttcaaaggaggcaagcAcagaggcagggcgggcagcg	16	11	1	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr3:52014444A>C	ENST00000273596.3	+	4	501	c.433A>C	c.(433-435)Aca>Cca	p.T145P	ABHD14A-ACY1_ENST00000463937.1_Intron|ABHD14B_ENST00000483233.1_Intron|ABHD14A_ENST00000491470.1_Intron|ACY1_ENST00000458031.2_Intron	NM_015407.4	NP_056222.2	Q9BUJ0	ABHEA_HUMAN	abhydrolase domain containing 14A	145						cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	hydrolase activity (GO:0016787)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|stomach(1)	6				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GGAGGCAAGCACAGAGGCAGG	0.642																																																0													41	47	45					3																	52014444		2203	4300	6503	SO:0001583	missense	25864			AY358201	CCDS2843.1	3p21.1	2011-02-14			ENSG00000248487	ENSG00000248487		"Abhydrolase domain containing"	24538	protein-coding gene	gene with protein product							Standard	NM_015407		Approved	DKFZP564O243, DORZ1	uc003dco.3	Q9BUJ0	OTTHUMG00000157818	ENST00000273596.3:c.433A>C	3.37:g.52014444A>C	ENSP00000273596:p.Thr145Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXU8|Q9Y3T7	Missense_Mutation	SNP	ENST00000273596.3	37	CCDS2843.1	.	.	.	.	.	.	.	.	.	.	A	17.75	3.465322	0.63513	.	.	ENSG00000248487	ENST00000497864;ENST00000494478;ENST00000273596;ENST00000538216	T;T;T	0.34472	1.36;1.36;1.93	5.69	5.69	0.88448	.	.	.	.	.	T	0.35885	0.0947	L	0.56396	1.775	0.80722	D	1	B	0.16166	0.016	B	0.17433	0.018	T	0.11717	-1.0576	9	0.24483	T	0.36	.	14.1954	0.65667	1.0:0.0:0.0:0.0	.	145	Q9BUJ0	ABHEA_HUMAN	P	210;140;145;103	ENSP00000418242:T210P;ENSP00000420475:T140P;ENSP00000273596:T145P	ENSP00000273596:T145P	T	+	1	0	ABHD14A	51989484	0.998000	0.40836	0.998000	0.56505	0.825000	0.46686	4.292000	0.59031	2.170000	0.68504	0.460000	0.39030	ACA		0.642	ABHD14A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349689.1	NM_015407		C	52014444	A	C	52014444	3	2	668	1	0	0	0	0	1	0	0	0	79	159	6	5	447	5	ABHD14A	3	52014444	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10	41830836	52014444	146007986	31	42704										
SNTN	132203	broad.mit.edu;bcgsc.ca	37	chr3	63649637	63649637	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	aagaaaccaagccaaaatacAgagagatcctttctgaactt	6	9	1	4			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr3:63649637A>T	ENST00000343837.3	+	4	330	c.310A>T	c.(310-312)Aga>Tga	p.R104*	SNTN_ENST00000496807.1_Intron	NM_001080537.1	NP_001074006.1	A6NMZ2	SNTAN_HUMAN	sentan, cilia apical structure protein	104						cilium (GO:0005929)	calcium ion binding (GO:0005509)			endometrium(2)|ovary(1)	3						GCCAAAATACAGAGAGATCCT	0.358																																																0													104	99	101					3																	63649637		2203	4300	6503	SO:0001587	stop_gained	132203			AK126350	CCDS33779.1	3p14.2	2009-03-10	2009-03-10		ENSG00000188817	ENSG00000188817			33706	protein-coding gene	gene with protein product	"S100A-like protein"					18829862	Standard	NM_001080537		Approved	FLJ44379, S100AL	uc003dlr.3	A6NMZ2	OTTHUMG00000158766	ENST00000343837.3:c.310A>T	3.37:g.63649637A>T	ENSP00000341442:p.Arg104*	Somatic		WXS	Illumina HiSeq	Phase_I	B7FF65	Nonsense_Mutation	SNP	ENST00000343837.3	37	CCDS33779.1	.	.	.	.	.	.	.	.	.	.	A	21.2	4.110024	0.77210	.	.	ENSG00000188817	ENST00000343837;ENST00000469440	.	.	.	5.6	4.5	0.54988	.	0.722044	0.13102	N	0.413673	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.34782	T	0.22	-0.7598	10.5063	0.44836	0.7943:0.2057:0.0:0.0	.	.	.	.	X	104;134	.	ENSP00000341442:R104X	R	+	1	2	SNTN	63624677	1.000000	0.71417	0.207000	0.23584	0.947000	0.59692	1.480000	0.35464	1.049000	0.40321	0.482000	0.46254	AGA		0.358	SNTN-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352094.1	NM_001080537		T	63649637	A	T	63649637	4	4	668	1	0	0	0	0	0	1	0	0	14889	180	7	5	324	5	SNTN	3	63649637	Nonsense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10	11635193	63649637	134372793	32	42705										
OR5H14	403273	mdanderson.org	37	chr3	97868588	97868588	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tctcttggcaacaatggcatAtgatcgctatgtagccatat	8	9	1	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr3:97868588A>G	ENST00000437310.1	+	1	419	c.359A>G	c.(358-360)tAt>tGt	p.Y120C	RP11-343D2.11_ENST00000508964.1_RNA	NM_001005514.1	NP_001005514.1	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H, member 14	120						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(3)|lung(17)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	31						ACAATGGCATATGATCGCTAT	0.403																																																0													118	130	126					3																	97868588		2203	4299	6502	SO:0001583	missense	403273				CCDS33798.1	3q11.2	2013-09-23			ENSG00000236032	ENSG00000236032		"GPCR / Class A : Olfactory receptors"	31286	protein-coding gene	gene with protein product							Standard	NM_001005514		Approved		uc003dsg.1	A6NHG9	OTTHUMG00000160079	ENST00000437310.1:c.359A>G	3.37:g.97868588A>G	ENSP00000401706:p.Tyr120Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B9EH15	Missense_Mutation	SNP	ENST00000437310.1	37	CCDS33798.1	.	.	.	.	.	.	.	.	.	.	A	3.665	-0.068796	0.07228	.	.	ENSG00000236032	ENST00000437310	T	0.01347	4.99	2.49	2.49	0.30216	GPCR, rhodopsin-like superfamily (1);	0.000000	0.42420	D	0.000704	T	0.02807	0.0084	M	0.84683	2.71	0.22581	N	0.998966	B	0.33280	0.405	B	0.30782	0.12	T	0.23440	-1.0188	10	0.72032	D	0.01	.	8.4219	0.32705	1.0:0.0:0.0:0.0	.	120	A6NHG9	O5H14_HUMAN	C	120	ENSP00000401706:Y120C	ENSP00000401706:Y120C	Y	+	2	0	OR5H14	99351278	1.000000	0.71417	0.963000	0.40424	0.048000	0.14542	3.811000	0.55620	1.132000	0.42129	0.164000	0.16699	TAT		0.403	OR5H14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359112.1			G	97868588	A	G	97868588	3	3	668	1	0	0	0	0	1	0	0	0	11167	449	16	3	361	3	OR5H14	3	97868588	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10	34218951	97868588	100153842	33	42706										
MCM2	4171	broad.mit.edu	37	chr3	127323460	127323460	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tgctccctcagggactaccgCgccatcccagagctggacgc	11	17	1	1	rs186022338		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr3:127323460C>T	ENST00000265056.7	+	3	490	c.246C>T	c.(244-246)cgC>cgT	p.R82R		NM_004526.2	NP_004517.2	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	82	Interaction with KAT7. {ECO:0000250}.				cell cycle (GO:0007049)|cellular response to interleukin-4 (GO:0071353)|DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA strand elongation involved in DNA replication (GO:0006271)|DNA unwinding involved in DNA replication (GO:0006268)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|nucleosome assembly (GO:0006334)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|MCM complex (GO:0042555)|microtubule cytoskeleton (GO:0015630)|nuclear origin of replication recognition complex (GO:0005664)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)|DNA replication origin binding (GO:0003688)|metal ion binding (GO:0046872)			ovary(3)|skin(2)|stomach(1)	6						GGGACTACCGCGCCATCCCAG	0.592													C|||	1	0.000199681	0.0	0.0	5008	,	,		19091	0.001		0.0	False		,,,				2504	0.0															0								C		0,4406		0,0,2203	50	54	53		246	-10.6	0.4	3		53	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	MCM2	NM_004526.2		0,1,6502	TT,TC,CC		0.0116,0.0,0.0077		82/905	127323460	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	4171			X67334	CCDS3043.1	3q21	2007-04-04	2007-04-04		ENSG00000073111	ENSG00000073111			6944	protein-coding gene	gene with protein product	"mitotin"	116945	"minichromosome maintenance deficient (S. cerevisiae) 2 (mitotin)", "MCM2 minichromosome maintenance deficient 2, mitotin (S. cerevisiae)"	CCNL1, CDCL1		1710453, 8258304	Standard	NM_004526		Approved	D3S3194, KIAA0030, BM28, cdc19	uc003ejp.4	P49736	OTTHUMG00000159637	ENST00000265056.7:c.246C>T	3.37:g.127323460C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14577|Q15023|Q8N2V1|Q969W7|Q96AE1|Q9BRM7	Silent	SNP	ENST00000265056.7	37	CCDS3043.1																																																																																				0.592	MCM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356612.1			T	127323460	C	T	127323460	2	4	668	1	0	0	0	0	0	0	0	1	9393	755	27	1		1	MCM2	3	127323460	Silent	SNP	C	TCGA-KN-8432-01A-11D-2310-10	29454872	127323460	70698970	34	42707										
IGSF10	285313	broad.mit.edu	37	chr3	151163769	151163769	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tctagatctctctgtttgggTttcataagtgatgacagatg	10	6	4	4			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr3:151163769T>C	ENST00000282466.3	-	4	3999	c.4000A>G	c.(4000-4002)Acc>Gcc	p.T1334A		NM_001178145.1|NM_001178146.1|NM_178822.4	NP_001171616.1|NP_001171617.1|NP_849144.2	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10	1334					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)	extracellular region (GO:0005576)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(24)|liver(4)|lung(43)|ovary(8)|prostate(4)|skin(9)|stomach(1)|urinary_tract(3)	116			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TCTGTTTGGGTTTCATAAGTG	0.418																																																0													326	309	315					3																	151163769		2203	4300	6503	SO:0001583	missense	285313			AY273815	CCDS3160.1	3q25.1	2013-01-11			ENSG00000152580	ENSG00000152580		"Immunoglobulin superfamily / I-set domain containing"	26384	protein-coding gene	gene with protein product						12477932	Standard	NM_178822		Approved	FLJ25972, CMF608	uc011bod.2	Q6WRI0	OTTHUMG00000159856	ENST00000282466.3:c.4000A>G	3.37:g.151163769T>C	ENSP00000282466:p.Thr1334Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q86YJ9|Q8N772|Q8NA84	Missense_Mutation	SNP	ENST00000282466.3	37	CCDS3160.1	.	.	.	.	.	.	.	.	.	.	T	6.485	0.457729	0.12342	.	.	ENSG00000152580	ENST00000282466	T	0.70516	-0.49	4.51	3.34	0.38264	.	0.434043	0.19170	N	0.120951	T	0.47154	0.1430	N	0.08118	0	0.09310	N	1	B	0.09022	0.002	B	0.06405	0.002	T	0.36237	-0.9756	10	0.46703	T	0.11	.	7.0675	0.25159	0.0:0.1882:0.0:0.8118	.	1334	Q6WRI0	IGS10_HUMAN	A	1334	ENSP00000282466:T1334A	ENSP00000282466:T1334A	T	-	1	0	IGSF10	152646459	0.010000	0.17322	0.157000	0.22605	0.025000	0.11179	0.441000	0.21611	0.695000	0.31675	0.482000	0.46254	ACC		0.418	IGSF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357782.1	NM_178822		C	151163769	T	C	151163769	3	2	668	1	0	0	0	0	1	0	0	0	7604	1725	60	3	3931	3	IGSF10	3	151163769	Missense_Mutation	SNP	T	TCGA-KN-8432-01A-11D-2310-10	23840309	151163769	46858661	35	42708										
FRYL	285527	broad.mit.edu;mdanderson.org	37	chr4	48513002	48513002	+	Splice_Site	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ccaaactttctttgaattgtCtatggagaaaagcagaagaa	8	6	2	4			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr4:48513002C>G	ENST00000503238.1	-	55	8145		c.e55-1		FRYL_ENST00000537810.1_Splice_Site|FRYL_ENST00000358350.4_Splice_Site|FRYL_ENST00000264319.7_Splice_Site|FRYL_ENST00000507873.2_Splice_Site			O94915	FRYL_HUMAN	FRY-like						regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)					breast(2)|central_nervous_system(2)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(21)|lung(38)|ovary(1)|pancreas(1)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	91						TTTGAATTGTCTATGGAGAAA	0.328																																																0													57	52	54					4																	48513002		1845	4085	5930	SO:0001630	splice_region_variant	285527			AL833170	CCDS43227.1	4p12	2011-08-03	2006-11-17	2005-11-24	ENSG00000075539	ENSG00000075539			29127	protein-coding gene	gene with protein product			"KIAA0826", "furry homolog-like (Drosophila)"	KIAA0826		10048485	Standard	NM_015030		Approved	DKFZp686E205	uc003gyh.1	O94915	OTTHUMG00000160608	ENST00000503238.1:c.8146-1G>C	4.37:g.48513002C>G		Somatic		WXS	Illumina HiSeq	Phase_I	O95640|Q8WTZ5|Q9NT40	Splice_Site	SNP	ENST00000503238.1	37	CCDS43227.1	.	.	.	.	.	.	.	.	.	.	C	13.37	2.216286	0.39201	.	.	ENSG00000075539	ENST00000503238;ENST00000358350;ENST00000537810;ENST00000264319;ENST00000507873	.	.	.	5.73	5.73	0.89815	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	20.27	0.98469	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	FRYL	48207759	1.000000	0.71417	0.998000	0.56505	0.058000	0.15608	7.194000	0.77789	2.854000	0.98071	0.655000	0.94253	.		0.328	FRYL-011	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000369265.2		Intron	G	48513002	C	G	48513002	5	3	668	1	0	0	0	0	0	0	1	0	6071	927	32	4	924	4	FRYL	4	48513002	Splice_Site	SNP	C	TCGA-KN-8432-01A-11D-2310-10		48513002	142641274	36	42709										
LRRC66	339977	broad.mit.edu;mdanderson.org	37	chr4	52861445	52861445	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	agggaagctgttatttctccGgagagggaagggtctaattc	14	6	2	1	rs187026269		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr4:52861445G>A	ENST00000343457.3	-	4	1749	c.1743C>T	c.(1741-1743)tcC>tcT	p.S581S		NM_001024611.1	NP_001019782.1	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	581						integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(9)|kidney(1)|large_intestine(8)|lung(34)|ovary(1)|pancreas(1)|prostate(2)|skin(1)	58						TTATTTCTCCGGAGAGGGAAG	0.498													G|||	1	0.000199681	0.0008	0.0	5008	,	,		19676	0.0		0.0	False		,,,				2504	0.0															0													103	110	108					4																	52861445		2124	4276	6400	SO:0001819	synonymous_variant	339977			BC040414	CCDS43229.1	4q12	2008-08-08			ENSG00000188993	ENSG00000188993			34299	protein-coding gene	gene with protein product							Standard	XM_005265739		Approved		uc003gzi.3	Q68CR7	OTTHUMG00000160623	ENST00000343457.3:c.1743C>T	4.37:g.52861445G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000343457.3	37	CCDS43229.1																																																																																				0.498	LRRC66-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361473.1	NM_001024611		A	52861445	G	A	52861445	2	1	668	1	0	0	0	0	0	0	0	1	9025	1103	39	1		1	LRRC66	4	52861445	Silent	SNP	G	TCGA-KN-8432-01A-11D-2310-10	4348443	52861445	138292831	37	42710										
MUC7	4589	broad.mit.edu	37	chr4	71347311	71347311	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	caccagagaccacagctgccCcacccacaccttctgcaact	5	20	1	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr4:71347311C>T	ENST00000304887.5	+	3	1040	c.850C>T	c.(850-852)Cca>Tca	p.P284S	MUC7_ENST00000413702.1_Missense_Mutation_p.P284S|MUC7_ENST00000456088.1_Missense_Mutation_p.P284S	NM_152291.2	NP_689504.2	Q8TAX7	MUC7_HUMAN	mucin 7, secreted	284	Thr-rich.				cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				central_nervous_system(1)|endometrium(3)|kidney(5)|large_intestine(2)|lung(23)|ovary(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	42			Lung(101;0.211)			CACAGCTGCCCCACCCACACC	0.577																																																0													408	367	381					4																	71347311		2203	4300	6503	SO:0001583	missense	4589			BC025688	CCDS3541.1	4q13.3	2008-02-05	2006-03-14		ENSG00000171195	ENSG00000171195		"Mucins"	7518	protein-coding gene	gene with protein product		158375	"mucin 7, salivary"			8838308	Standard	NM_152291		Approved	FLJ27047, MG2	uc003hfj.3	Q8TAX7	OTTHUMG00000129916	ENST00000304887.5:c.850C>T	4.37:g.71347311C>T	ENSP00000302021:p.Pro284Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UCD7|Q9UCD8	Missense_Mutation	SNP	ENST00000304887.5	37	CCDS3541.1	.	.	.	.	.	.	.	.	.	.	C	6.574	0.474257	0.12521	.	.	ENSG00000171195	ENST00000413702;ENST00000456088;ENST00000304887	T;T;T	0.64085	-0.08;-0.08;-0.08	1.95	1.09	0.20402	.	.	.	.	.	T	0.36936	0.0985	N	0.19112	0.55	0.09310	N	1	P	0.41784	0.762	B	0.35655	0.207	T	0.15350	-1.0440	8	.	.	.	.	2.6366	0.04959	0.2801:0.5462:0.0:0.1737	.	284	Q8TAX7	MUC7_HUMAN	S	284	ENSP00000407422:P284S;ENSP00000400585:P284S;ENSP00000302021:P284S	.	P	+	1	0	MUC7	71381900	0.003000	0.15002	0.001000	0.08648	0.004000	0.04260	0.878000	0.28126	0.357000	0.24183	0.603000	0.83216	CCA		0.577	MUC7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252168.2	NM_152291		T	71347311	C	T	71347311	3	4	668	1	0	0	0	0	1	0	0	0	9988	623	22	2	856	2	MUC7	4	71347311	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	18485866	71347311	119806965	38	42711										
MTTP	4547	broad.mit.edu	37	chr4	100503089	100503091	+	In_Frame_Del	DEL	ATG	ATG	-													0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	aactggtctctcattaaataAtgaccggctgtacaagctca							TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	ATG	ATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr4:100503089_100503091delATG	ENST00000265517.5	+	2	292_294	c.89_91delATG	c.(88-93)aatgac>aac	p.D31del	MTTP_ENST00000457717.1_In_Frame_Del_p.D31del|MTTP_ENST00000422897.2_In_Frame_Del_p.D31del|MTTP_ENST00000511045.1_In_Frame_Del_p.D58del			P55157	MTP_HUMAN	microsomal triglyceride transfer protein	31	Vitellogenin. {ECO:0000255|PROSITE- ProRule:PRU00557}.				cholesterol homeostasis (GO:0042632)|lipid metabolic process (GO:0006629)|lipoprotein metabolic process (GO:0042157)|lipoprotein transport (GO:0042953)|protein lipidation (GO:0006497)|response to calcium ion (GO:0051592)|small molecule metabolic process (GO:0044281)|triglyceride metabolic process (GO:0006641)	basolateral plasma membrane (GO:0016323)|brush border membrane (GO:0031526)|endoplasmic reticulum lumen (GO:0005788)|Golgi apparatus (GO:0005794)|membrane-bounded vesicle (GO:0031988)|microvillus membrane (GO:0031528)|receptor complex (GO:0043235)|rough endoplasmic reticulum (GO:0005791)	lipid binding (GO:0008289)|lipid transporter activity (GO:0005319)			breast(3)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(14)|lung(19)|ovary(4)|prostate(5)|skin(1)|urinary_tract(1)	57				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)|Lomitapide(DB08827)	TCATTAAATAATGACCGGCTGTA	0.458																																																0																																										SO:0001651	inframe_deletion	4547				CCDS3651.1, CCDS75169.1	4q24	2008-02-05	2005-11-04	2005-11-04	ENSG00000138823	ENSG00000138823			7467	protein-coding gene	gene with protein product		157147	"microsomal triglyceride transfer protein (large polypeptide, 88kD)", "microsomal triglyceride transfer protein (large polypeptide, 88kDa)"	MTP		8111381	Standard	XM_005263025		Approved	ABL	uc003hvc.4	P55157	OTTHUMG00000131023	ENST00000265517.5:c.89_91delATG	4.37:g.100503089_100503091delATG	ENSP00000265517:p.Asp31del	Somatic		WXS	Illumina HiSeq	Phase_I	A8K428|Q08AM4|Q6P5T3	In_Frame_Del	DEL	ENST00000265517.5	37	CCDS3651.1																																																																																				0.458	MTTP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253662.3			-	100503091	ATG	-	100503089	7	5	668	1	0	1	0	1	0	0	0	0	9971	101	4	0	95	0	MTTP	4	100503089	In_Frame_Del	DEL	ATG	TCGA-KN-8432-01A-11D-2310-10	29155778	100503089	90651187	39	42712										
NPY1R	4886	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	164247528	164247528	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tcaagatgattatgatcaagGccaggtttccagagacacca	9	9	2	4			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr4:164247528G>C	ENST00000296533.2	-	2	710	c.179C>G	c.(178-180)gCc>gGc	p.A60G	NPY1R_ENST00000509586.1_Intron	NM_000909.5	NP_000900.1	P25929	NPY1R_HUMAN	neuropeptide Y receptor Y1	60					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|feeding behavior (GO:0007631)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|glucose metabolic process (GO:0006006)|locomotory behavior (GO:0007626)|neuropeptide signaling pathway (GO:0007218)|outflow tract morphogenesis (GO:0003151)|regulation of blood pressure (GO:0008217)|regulation of multicellular organism growth (GO:0040014)|sensory perception of pain (GO:0019233)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	neuropeptide Y receptor activity (GO:0004983)|pancreatic polypeptide receptor activity (GO:0001602)|peptide YY receptor activity (GO:0001601)			breast(1)|cervix(1)|large_intestine(4)|lung(18)|pancreas(1)|skin(1)|upper_aerodigestive_tract(4)	30	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				TATGATCAAGGCCAGGTTTCC	0.408																																																0													126	114	118					4																	164247528		2203	4300	6503	SO:0001583	missense	4886				CCDS34089.1	4q31.3-q32	2012-08-08				ENSG00000164128		"GPCR / Class A : Neuropeptide receptors : Y"	7956	protein-coding gene	gene with protein product		162641		NPYR		8095935	Standard	NM_000909		Approved		uc003iqm.2	P25929		ENST00000296533.2:c.179C>G	4.37:g.164247528G>C	ENSP00000354652:p.Ala60Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6H5	Missense_Mutation	SNP	ENST00000296533.2	37	CCDS34089.1	.	.	.	.	.	.	.	.	.	.	G	17.03	3.283635	0.59867	.	.	ENSG00000164128	ENST00000296533;ENST00000504790;ENST00000515701	T	0.72505	-0.66	5.56	5.56	0.83823	GPCR, rhodopsin-like superfamily (1);	0.000000	0.85682	D	0.000000	T	0.66446	0.2790	L	0.31420	0.93	0.80722	D	1	P	0.44521	0.837	B	0.43990	0.438	T	0.67632	-0.5621	10	0.45353	T	0.12	.	19.5226	0.95192	0.0:0.0:1.0:0.0	.	60	P25929	NPY1R_HUMAN	G	60	ENSP00000354652:A60G	ENSP00000354652:A60G	A	-	2	0	NPY1R	164466978	1.000000	0.71417	0.999000	0.59377	0.998000	0.95712	6.145000	0.71769	2.617000	0.88574	0.585000	0.79938	GCC		0.408	NPY1R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364685.1			C	164247528	G	C	164247528	3	2	668	1	0	0	0	0	1	0	0	0	10615	1203	42	4	983	4	NPY1R	4	164247528	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10	63744439	164247528	26906748	40	42713										
TKTL2	84076	broad.mit.edu	37	chr4	164393866	164393866	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	catcgtgtcaccactcagaaCaataactctttcatttgcac	4	13	4	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr4:164393866C>A	ENST00000280605.3	-	1	1181	c.1021G>T	c.(1021-1023)Gtt>Ttt	p.V341F		NM_032136.4	NP_115512.3	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	341						cytoplasm (GO:0005737)	metal ion binding (GO:0046872)|transketolase activity (GO:0004802)			breast(1)|endometrium(4)|kidney(2)|large_intestine(9)|lung(42)|ovary(3)|pancreas(1)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)	70	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				CCACTCAGaacaataactctt	0.433																																																0													120	117	118					4																	164393866		2203	4300	6503	SO:0001583	missense	84076			BC028707	CCDS3805.1	4q32.2	2009-10-06			ENSG00000151005	ENSG00000151005			25313	protein-coding gene	gene with protein product	"similar to transketolase"					11230166	Standard	NM_032136		Approved	FLJ32975, DKFZP434L1717	uc003iqp.4	Q9H0I9	OTTHUMG00000161527	ENST00000280605.3:c.1021G>T	4.37:g.164393866C>A	ENSP00000280605:p.Val341Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A4FVB4|Q8NCT0|Q96M82	Missense_Mutation	SNP	ENST00000280605.3	37	CCDS3805.1	.	.	.	.	.	.	.	.	.	.	C	23.7	4.441919	0.83993	.	.	ENSG00000151005	ENST00000280605	D	0.92249	-3.0	4.3	4.3	0.51218	Transketolase-like, pyrimidine-binding domain (2);	0.133117	0.48286	D	0.000182	D	0.95787	0.8629	M	0.83603	2.65	0.45005	D	0.998025	D	0.61697	0.99	D	0.69142	0.962	D	0.96047	0.9028	10	0.87932	D	0	-19.7279	15.0576	0.71927	0.0:1.0:0.0:0.0	.	341	Q9H0I9	TKTL2_HUMAN	F	341	ENSP00000280605:V341F	ENSP00000280605:V341F	V	-	1	0	TKTL2	164613316	1.000000	0.71417	1.000000	0.80357	0.964000	0.63967	7.325000	0.79124	2.672000	0.90937	0.655000	0.94253	GTT		0.433	TKTL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365207.1	NM_032136		A	164393866	C	A	164393866	3	1	668	1	0	0	0	0	1	0	0	0	15948	478	17	4	863	4	TKTL2	4	164393866	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	146338	164393866	26760410	41	42714										
SDHA	6389	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr5	235341	235341	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tggccacgcgcctgcctggcAtttcagagacagccatgatc	11	14	1	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr5:235341A>T	ENST00000264932.6	+	9	1262	c.1147A>T	c.(1147-1149)Att>Ttt	p.I383F	SDHA_ENST00000510361.1_Missense_Mutation_p.I335F|SDHA_ENST00000504309.1_Missense_Mutation_p.I383F	NM_004168.2	NP_004159.2	P31040	SDHA_HUMAN	succinate dehydrogenase complex, subunit A, flavoprotein (Fp)	383					cellular metabolic process (GO:0044237)|nervous system development (GO:0007399)|oxidation-reduction process (GO:0055114)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)|succinate metabolic process (GO:0006105)|tricarboxylic acid cycle (GO:0006099)	mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain complex II (GO:0005749)|mitochondrion (GO:0005739)	flavin adenine dinucleotide binding (GO:0050660)|succinate dehydrogenase (ubiquinone) activity (GO:0008177)			NS(1)|breast(1)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(6)|liver(2)|lung(16)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	40			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	CCTGCCTGGCATTTCAGAGAC	0.592									Familial Paragangliomas																																							0													65	59	61					5																	235341		2203	4300	6503	SO:0001583	missense	6389	Familial Cancer Database	Hereditary Glomus Tumors, Familial Paragangliomas, Hereditary Paragangliomas, type 1-3: PGL1, PGL2, PGL3, incl. Familial Carotid Body Paraganglioma and Sensorineural Hearing Loss	BC001380	CCDS3853.1	5p15	2014-09-17			ENSG00000073578	ENSG00000073578		"Mitochondrial respiratory chain complex / Complex II"	10680	protein-coding gene	gene with protein product		600857		SDH2		7798181	Standard	XM_005248329		Approved	FP, SDHF	uc003jao.4	P31040	OTTHUMG00000090275	ENST00000264932.6:c.1147A>T	5.37:g.235341A>T	ENSP00000264932:p.Ile383Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5J6|B4DJ60|E9PBJ5|Q16395|Q59GW8|Q8IW48|Q9UMY5	Missense_Mutation	SNP	ENST00000264932.6	37	CCDS3853.1	.	.	.	.	.	.	.	.	.	.	N	24.4	4.530122	0.85706	.	.	ENSG00000073578	ENST00000264932;ENST00000327872;ENST00000504309;ENST00000510361	T;T;T	0.70399	-0.48;-0.48;-0.48	5.12	5.12	0.69794	Fumarate reductase/succinate dehydrogenase flavoprotein, N-terminal (1);	0.000000	0.85682	U	0.000000	D	0.90160	0.6925	H	0.98936	4.375	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.97110	1.0;0.998;1.0;0.998;0.998	D	0.93509	0.6851	10	0.87932	D	0	.	13.1683	0.59583	1.0:0.0:0.0:0.0	.	335;383;383;383;389	E9PBJ5;B4DYN5;D6RFM5;P31040;Q59GW8	.;.;.;DHSA_HUMAN;.	F	383;238;383;335	ENSP00000264932:I383F;ENSP00000426514:I383F;ENSP00000427703:I335F	ENSP00000264932:I383F	I	+	1	0	SDHA	288341	1.000000	0.71417	0.995000	0.50966	0.738000	0.42128	8.509000	0.90529	2.055000	0.61198	0.455000	0.32223	ATT		0.592	SDHA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206599.1	NM_004168		T	235341	A	T	235341	3	4	668	1	0	0	0	0	1	0	0	0	13976	217	8	5	1181	5	SDHA	5	235341	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10		235341	180679919	42	42715										
ANKRD43	134548	broad.mit.edu	37	chr5	132149586	132149590	+	Frame_Shift_Del	DEL	ACCCT	ACCCT	-													0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	cccccggagcccgagcccgcAcccttcggccccccgggggc							TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	ACCCT	ACCCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr5:132149586_132149590delACCCT	ENST00000378693.2	+	1	554_558	c.273_277delACCCT	c.(271-279)gcacccttcfs	p.PF92fs		NM_175873.4	NP_787069.3	Q2M3V2	SWAHA_HUMAN	sosondowah ankyrin repeat domain family member A	92	Pro-rich.																CCGAGCCCGCACCCTTCGGCCCCCC	0.712																																																0																																										SO:0001589	frameshift_variant	134548			AK090823	CCDS43361.1	5q23.3	2013-01-10	2012-01-12	2012-01-12	ENSG00000198944	ENSG00000198944		"Ankyrin repeat domain containing"	27033	protein-coding gene	gene with protein product			"ankyrin repeat domain 43"	ANKRD43		22234889	Standard	NM_175873		Approved		uc003kxw.3	Q2M3V2	OTTHUMG00000059844	ENST00000378693.2:c.273_277delACCCT	5.37:g.132149586_132149590delACCCT	ENSP00000367965:p.Pro92fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NAE7	Frame_Shift_Del	DEL	ENST00000378693.2	37	CCDS43361.1																																																																																				0.712	SOWAHA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000133062.1	NM_175873		-	132149590	ACCCT	-	132149586	7	5	668	1	0	1	0	1	0	0	0	0	671	146	6	0	275	0	ANKRD43	5	132149586	Frame_Shift_Del	DEL	ACCCT	TCGA-KN-8432-01A-11D-2310-10	131914245	132149586	48765674	43	42716										
ANKHD1-EIF4EBP3	8637	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	139928655	139928655	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	agcaggagacagaggaagagAtacccggtaaggaaagcagg	16	6	0	3			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr5:139928655A>G	ENST00000310331.2	+	2	340	c.268A>G	c.(268-270)Ata>Gta	p.I90V	ANKHD1_ENST00000297183.6_Missense_Mutation_p.D2615G|ANKHD1-EIF4EBP3_ENST00000532219.1_Missense_Mutation_p.D2615G|SRA1_ENST00000520427.1_5'Flank	NM_003732.2	NP_003723.1	O60516	4EBP3_HUMAN	eukaryotic translation initiation factor 4E binding protein 3	90					negative regulation of translational initiation (GO:0045947)	eukaryotic translation initiation factor 4F complex (GO:0016281)|membrane (GO:0016020)	translation repressor activity (GO:0030371)			endometrium(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAGGAAGAGATACCCGGTAA	0.557																																																0													48	50	49					5																	139928655		2203	4300	6503	SO:0001583	missense	404734			AF038869	CCDS4226.1	5q31.3	2007-07-18			ENSG00000243056	ENSG00000243056			3290	protein-coding gene	gene with protein product		603483				9593750	Standard	NM_003732		Approved	4E-BP3	uc003lfy.1	O60516	OTTHUMG00000129498	ENST00000310331.2:c.268A>G	5.37:g.139928655A>G	ENSP00000308472:p.Ile90Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000310331.2	37	CCDS4226.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	18.54|18.54	3.646949|3.646949	0.67358|0.67358	.|.	.|.	ENSG00000131503;ENSG00000254996;ENSG00000254996|ENSG00000243056	ENST00000297183;ENST00000532219;ENST00000437495|ENST00000310331	T;T;T|.	0.73258|.	-0.73;-0.73;0.58|.	5.49|5.49	5.49|5.49	0.81192|0.81192	.|.	.|.	.|.	.|.	.|.	T|T	0.40222|0.40222	0.1108|0.1108	N|N	0.17474|0.17474	0.49|0.49	0.39119|0.39119	D|D	0.961632|0.961632	B|B	0.12013|0.06786	0.005|0.001	B|B	0.14023|0.04013	0.01|0.001	T|T	0.32666|0.32666	-0.9898|-0.9898	8|7	.|.	.|.	.|.	.|.	12.9688|12.9688	0.58501|0.58501	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	2615|90	Q8IWZ2|O60516	.|4EBP3_HUMAN	G|V	2615;2615;634|90	ENSP00000297183:D2615G;ENSP00000432016:D2615G;ENSP00000396882:D634G|.	.|.	D|I	+|+	2|1	0|0	ANKHD1-EIF4EBP3;ANKHD1|EIF4EBP3	139908839|139908839	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.991000|0.991000	0.79684|0.79684	3.202000|3.202000	0.51067|0.51067	2.091000|2.091000	0.63221|0.63221	0.533000|0.533000	0.62120|0.62120	GAT|ATA		0.557	EIF4EBP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251668.2	NM_003732		G	139928655	A	G	139928655	3	3	668	1	0	0	0	0	1	0	0	0	629	333	12	3	7982	3	ANKHD1-EIF4EBP3	5	139928655	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10	7779069	139928655	40986605	44	42717										
ZNF354A	6940	mdanderson.org	37	chr5	178139379	178139380	+	Missense_Mutation	DNP	CC	CC	GT													0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gagttacacctgaatgttttCccacactcgttacatttata					rs199632980|rs201342253	byFrequency	TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr5:178139379_178139380CC>GT	ENST00000335815.2	-	5	1696_1697	c.1499_1500GG>AC	c.(1498-1500)gGG>gAC	p.G500D		NM_005649.2	NP_005640.2	O60765	Z354A_HUMAN	zinc finger protein 354A	500					regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|sensory perception of sound (GO:0007605)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(2)|large_intestine(7)|lung(3)|ovary(2)|skin(2)|stomach(2)	19	all_cancers(89;0.000536)|Renal(175;0.000159)|all_epithelial(37;0.000221)|Lung NSC(126;0.00308)|all_lung(126;0.00536)	all_cancers(40;0.0452)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.185)		TGAATGTTTTCCCACACTCGTT	0.391																																																0																																										SO:0001583	missense	6940			AF116030	CCDS4438.1	5q35.3	2013-01-08		2001-11-23	ENSG00000169131	ENSG00000169131		"Zinc fingers, C2H2-type", "-"	11628	protein-coding gene	gene with protein product		602444		TCF17		9465904	Standard	NM_005649		Approved	KID-1, EZNF, HKL1, KID1	uc003mjj.3	O60765	OTTHUMG00000130895	ENST00000335815.2:c.1499_1500delinsGT	5.37:g.178139379_178139380delinsGT	ENSP00000337122:p.Gly500Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UNJ8	Missense_Mutation	DNP	ENST00000335815.2	37	CCDS4438.1																																																																																				0.391	ZNF354A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253481.1	NM_005649		GT	178139380	CC	GT	178139379	3	3	668	1	0	0	0	0	1	0	0	0	17876	842	30	4	321	4	ZNF354A	5	178139379	Missense_Mutation	DNP	CC	TCGA-KN-8432-01A-11D-2310-10	38210724	178139379	2775881	45	42718	411	2								
ZNF354A	6940	mdanderson.org	37	chr5	178139385	178139385	+	Silent	SNP	C	C	T													0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	cacctgaatgttttcccacaCtcgttacatttatagggtct					rs199620032	byFrequency	TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr5:178139385C>T	ENST00000335815.2	-	5	1691	c.1494G>A	c.(1492-1494)gaG>gaA	p.E498E		NM_005649.2	NP_005640.2	O60765	Z354A_HUMAN	zinc finger protein 354A	498					regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|sensory perception of sound (GO:0007605)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(2)|large_intestine(7)|lung(3)|ovary(2)|skin(2)|stomach(2)	19	all_cancers(89;0.000536)|Renal(175;0.000159)|all_epithelial(37;0.000221)|Lung NSC(126;0.00308)|all_lung(126;0.00536)	all_cancers(40;0.0452)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.185)		TTTTCCCACACTCGTTACATT	0.388																																																0													122	119	120					5																	178139385		2203	4300	6503	SO:0001819	synonymous_variant	6940			AF116030	CCDS4438.1	5q35.3	2013-01-08		2001-11-23	ENSG00000169131	ENSG00000169131		"Zinc fingers, C2H2-type", "-"	11628	protein-coding gene	gene with protein product		602444		TCF17		9465904	Standard	NM_005649		Approved	KID-1, EZNF, HKL1, KID1	uc003mjj.3	O60765	OTTHUMG00000130895	ENST00000335815.2:c.1494G>A	5.37:g.178139385C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UNJ8	Silent	SNP	ENST00000335815.2	37	CCDS4438.1																																																																																				0.388	ZNF354A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253481.1	NM_005649		T	178139385	C	T	178139385	2	4	668	1	0	0	0	0	0	0	0	1	17876	564	20	2		2	ZNF354A	5	178139385	Silent	SNP	C	TCGA-KN-8432-01A-11D-2310-10	6	178139385	2775875	46	42719	411	2								
HLA-DQA2	3118	mdanderson.org	37	chr6	32714168	32714168	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tccagacaccaagggctcttAtgaatcccatcctgaaaagg	8	12	1	3	rs9276437	byFrequency	TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr6:32714168A>G	ENST00000374940.3	+	4	867	c.765A>G	c.(763-765)ttA>ttG	p.L255L		NM_020056.4	NP_064440.1	P01906	DQA2_HUMAN	major histocompatibility complex, class II, DQ alpha 2	255					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|immune response (GO:0006955)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|endosome (GO:0005768)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)	MHC class II receptor activity (GO:0032395)			endometrium(2)|large_intestine(3)|lung(7)|skin(1)	13					"""Insulin(DB00071)"	AAGGGCTCTTATGAATCCCAT	0.517													.|||	786	0.156949	0.3033	0.219	5008	,	,		21502	0.0655		0.1153	False		,,,				2504	0.0521															0								G		751,2271		79,593,839	119	121	120		765	1.1	0.1	6	dbSNP_118	120	527,4891		14,499,2196	no	coding-synonymous	HLA-DQA2	NM_020056.4		93,1092,3035	GG,GA,AA		9.7268,24.8511,15.1422		255/256	32714168	1278,7162	1511	2709	4220	SO:0001819	synonymous_variant	3118				CCDS4753.1	6p21.3	2013-01-11			ENSG00000237541	ENSG00000237541		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4943	protein-coding gene	gene with protein product		613503		HLA-DXA			Standard	NM_020056		Approved		uc003obx.3	P01906	OTTHUMG00000031108	ENST00000374940.3:c.765A>G	6.37:g.32714168A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A2BF37|B0V0E7|O19789|Q5SQ94|Q5SR04	Silent	SNP	ENST00000374940.3	37	CCDS4753.1																																																																																				0.517	HLA-DQA2-001	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076179.2	NM_020056		G	32714168	A	G	32714168	2	3	668	1	0	0	0	0	0	0	0	1	7212	446	16	3		3	HLA-DQA2	6	32714168	Silent	SNP	A	TCGA-KN-8432-01A-11D-2310-10		32714168	138400899	47	42720										
MTCH1	23787	broad.mit.edu;hgsc.bcm.edu	37	chr6	36938223	36938223	+	Frame_Shift_Del	DEL	G	G	-													0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	aggtcgccaactagcaggaaGgggtaggtcagcatgctcac							TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr6:36938223delG	ENST00000373627.5	-	10	1105	c.981delC	c.(979-981)cccfs	p.P327fs	MTCH1_ENST00000538808.1_Frame_Shift_Del_p.P154fs|MTCH1_ENST00000471737.1_5'UTR|MTCH1_ENST00000373616.5_Frame_Shift_Del_p.P310fs	NM_001271641.1	NP_001258570.1	Q9NZJ7	MTCH1_HUMAN	mitochondrial carrier 1	327					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|neuronal ion channel clustering (GO:0045161)|positive regulation of apoptotic process (GO:0043065)|regulation of signal transduction (GO:0009966)|transport (GO:0006810)	integral component of membrane (GO:0016021)|intracellular (GO:0005622)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)				endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|prostate(1)	6						CTAGCAGGAAGGGGTAGGTCA	0.622																																																0													87	79	82					6																	36938223		2203	4300	6503	SO:0001589	frameshift_variant	23787			AF151822	CCDS4828.1, CCDS64411.1	6p21.2	2013-05-22	2011-05-19		ENSG00000137409	ENSG00000137409		"Solute carriers"	17586	protein-coding gene	gene with protein product	"solute carrier family 25, member 49"	610449	"mitochondrial carrier homolog 1 (C. elegans)"			12377771	Standard	NM_014341		Approved	CGI-64, PSAP, SLC25A49	uc003ond.2	Q9NZJ7	OTTHUMG00000014614	ENST00000373627.5:c.981delC	6.37:g.36938223delG	ENSP00000362730:p.Pro327fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAX5|B2RCE3|Q6PK60|Q6UX45|Q7L465|Q9BW23|Q9NZR6|Q9UJZ5	Frame_Shift_Del	DEL	ENST00000373627.5	37																																																																																					0.622	MTCH1-008	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000040396.1	NM_014341		-	36938223	G	-	36938223	7	5	668	1	0	1	0	1	0	0	0	0	9920	987	35	0	200	0	MTCH1	6	36938223	Frame_Shift_Del	DEL	G	TCGA-KN-8432-01A-11D-2310-10	4224055	36938223	134176844	48	42721	412	2								
MTCH1	23787	bcgsc.ca	37	chr6	36938224	36938224	+	Frame_Shift_Del	DEL	G	G	-													0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ggtcgccaactagcaggaagGggtaggtcagcatgctcact							TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr6:36938224delG	ENST00000373627.5	-	10	1104	c.980delC	c.(979-981)cccfs	p.P327fs	MTCH1_ENST00000538808.1_Frame_Shift_Del_p.P154fs|MTCH1_ENST00000471737.1_5'UTR|MTCH1_ENST00000373616.5_Frame_Shift_Del_p.P310fs	NM_001271641.1	NP_001258570.1	Q9NZJ7	MTCH1_HUMAN	mitochondrial carrier 1	327					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|neuronal ion channel clustering (GO:0045161)|positive regulation of apoptotic process (GO:0043065)|regulation of signal transduction (GO:0009966)|transport (GO:0006810)	integral component of membrane (GO:0016021)|intracellular (GO:0005622)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)				endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|prostate(1)	6						TAGCAGGAAGGGGTAGGTCAG	0.617																																																0													87	78	81					6																	36938224		2203	4300	6503	SO:0001589	frameshift_variant	23787			AF151822	CCDS4828.1, CCDS64411.1	6p21.2	2013-05-22	2011-05-19		ENSG00000137409	ENSG00000137409		"Solute carriers"	17586	protein-coding gene	gene with protein product	"solute carrier family 25, member 49"	610449	"mitochondrial carrier homolog 1 (C. elegans)"			12377771	Standard	NM_014341		Approved	CGI-64, PSAP, SLC25A49	uc003ond.2	Q9NZJ7	OTTHUMG00000014614	ENST00000373627.5:c.980delC	6.37:g.36938224delG	ENSP00000362730:p.Pro327fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAX5|B2RCE3|Q6PK60|Q6UX45|Q7L465|Q9BW23|Q9NZR6|Q9UJZ5	Frame_Shift_Del	DEL	ENST00000373627.5	37																																																																																					0.617	MTCH1-008	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000040396.1	NM_014341		-	36938224	G	-	36938224	7	5	668	1	0	1	0	1	0	0	0	0	9920	1232	43	0	201	0	MTCH1	6	36938224	Frame_Shift_Del	DEL	G	TCGA-KN-8432-01A-11D-2310-10	1	36938224	134176843	49	42722	412	2								
RNF8	9025	bcgsc.ca	37	chr6	37336717	37336717	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	agtcacagaggttcatcatgAgcagaaagcctcaaactctt	8	10	5	3			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr6:37336717A>G	ENST00000373479.4	+	3	891	c.698A>G	c.(697-699)gAg>gGg	p.E233G	RNF8_ENST00000469731.1_Missense_Mutation_p.E233G|RNF8_ENST00000479516.1_3'UTR	NM_003958.3|NM_183078.2	NP_003949.1|NP_898901.1	O76064	RNF8_HUMAN	ring finger protein 8, E3 ubiquitin protein ligase	233					cellular response to DNA damage stimulus (GO:0006974)|double-strand break repair (GO:0006302)|double-strand break repair via nonhomologous end joining (GO:0006303)|histone exchange (GO:0043486)|histone H2A K63-linked ubiquitination (GO:0070535)|histone H2A ubiquitination (GO:0033522)|histone H2B ubiquitination (GO:0033523)|interstrand cross-link repair (GO:0036297)|isotype switching (GO:0045190)|mitotic nuclear division (GO:0007067)|negative regulation of translational elongation (GO:0045900)|positive regulation of DNA repair (GO:0045739)|protein autoubiquitination (GO:0051865)|protein K48-linked ubiquitination (GO:0070936)|protein K63-linked ubiquitination (GO:0070534)|response to ionizing radiation (GO:0010212)|spermatid development (GO:0007286)|ubiquitin-dependent protein catabolic process (GO:0006511)	chromosome, telomeric region (GO:0000781)|nucleolus (GO:0005730)|nucleus (GO:0005634)|site of double-strand break (GO:0035861)|ubiquitin ligase complex (GO:0000151)	acid-amino acid ligase activity (GO:0016881)|chromatin binding (GO:0003682)|histone binding (GO:0042393)|protein homodimerization activity (GO:0042803)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			endometrium(1)|kidney(1)|large_intestine(2)|lung(7)|ovary(1)|urinary_tract(1)	13						GTTCATCATGAGCAGAAAGCC	0.463																																																0													93	98	97					6																	37336717		2203	4300	6503	SO:0001583	missense	9025			AB012770	CCDS4833.1, CCDS4834.1	6p21.3	2013-01-09	2012-02-23		ENSG00000112130	ENSG00000112130		"RING-type (C3HC4) zinc fingers"	10071	protein-coding gene	gene with protein product		611685	"ring finger protein (C3HC4 type) 8", "ring finger protein 8"			9734811, 9852682	Standard	NM_003958		Approved	KIAA0646	uc003onq.4	O76064	OTTHUMG00000014620	ENST00000373479.4:c.698A>G	6.37:g.37336717A>G	ENSP00000362578:p.Glu233Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NN24|A8MYC0|B4DPG0|Q53H16|Q5NKW5	Missense_Mutation	SNP	ENST00000373479.4	37	CCDS4834.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	11.90|11.90	1.777999|1.777999	0.31502|0.31502	.|.	.|.	ENSG00000112130|ENSG00000112130	ENST00000373479;ENST00000487950;ENST00000469731|ENST00000498460	D;T;T|.	0.82893|.	-1.66;0.84;0.86|.	6.07|6.07	6.07|6.07	0.98685|0.98685	.|.	1.171240|.	0.06183|.	N|.	0.679756|.	T|.	0.35098|.	0.0920|.	N|N	0.14661|0.14661	0.345|0.345	0.49915|0.49915	D|D	0.999837|0.999837	B;B|.	0.23937|.	0.094;0.039|.	B;B|.	0.16722|.	0.016;0.016|.	T|.	0.34875|.	-0.9811|.	10|.	0.54805|.	T|.	0.06|.	-0.8433|-0.8433	15.8218|15.8218	0.78654|0.78654	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	176;233|.	C9J858;O76064|.	.;RNF8_HUMAN|.	G|W	233;176;233|22	ENSP00000362578:E233G;ENSP00000417736:E176G;ENSP00000418879:E233G|.	ENSP00000362578:E233G|.	E|X	+|+	2|3	0|0	RNF8|RNF8	37444695|37444695	1.000000|1.000000	0.71417|0.71417	0.949000|0.949000	0.38748|0.38748	0.413000|0.413000	0.31143|0.31143	2.544000|2.544000	0.45761|0.45761	2.326000|2.326000	0.78906|0.78906	0.533000|0.533000	0.62120|0.62120	GAG|TGA		0.463	RNF8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040403.2			G	37336717	A	G	37336717	3	3	668	1	0	0	0	0	1	0	0	0	13513	304	11	3	708	3	RNF8	6	37336717	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10	398493	37336717	133778350	50	42723										
KCNQ5	56479	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr6	73787542	73787542	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ttattttttcgtctttccttGtctatctggtggaaaaggat	8	6	3	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr6:73787542G>T	ENST00000370398.1	+	5	959	c.850G>T	c.(850-852)Gtc>Ttc	p.V284F	KCNQ5_ENST00000370392.1_Missense_Mutation_p.V284F|KCNQ5_ENST00000402622.2_Missense_Mutation_p.V284F|KCNQ5_ENST00000355635.3_Missense_Mutation_p.V284F|KCNQ5_ENST00000355194.4_Missense_Mutation_p.V284F|KCNQ5_ENST00000414165.2_Missense_Mutation_p.V284F|KCNQ5_ENST00000342056.2_Missense_Mutation_p.V284F|KCNQ5_ENST00000403813.2_Missense_Mutation_p.V284F	NM_019842.3	NP_062816.2	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like subfamily, member 5	284					protein complex assembly (GO:0006461)|synaptic transmission (GO:0007268)	plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|inward rectifier potassium channel activity (GO:0005242)			breast(1)|cervix(1)|endometrium(6)|kidney(7)|large_intestine(13)|lung(15)|ovary(4)|pancreas(1)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	57		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)	Ezogabine(DB04953)	GTCTTTCCTTGTCTATCTGGT	0.333																																					GBM(142;1375 1859 14391 23261 44706)											0													130	112	118					6																	73787542		2203	4300	6503	SO:0001583	missense	56479			AF202977	CCDS4976.1, CCDS55034.1	6q14	2012-07-05			ENSG00000185760	ENSG00000185760		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6299	protein-coding gene	gene with protein product		607357				10787416, 10816588, 16382104	Standard	NM_019842		Approved	Kv7.5	uc011dyh.2	Q9NR82	OTTHUMG00000015020	ENST00000370398.1:c.850G>T	6.37:g.73787542G>T	ENSP00000359425:p.Val284Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKT6|A6PVT6|A8MSQ5|B4DS33|B5MC83|B7ZL37|F5GZV0|Q17RE1|Q5VVP3|Q86W40|Q9NRN0|Q9NYA6	Missense_Mutation	SNP	ENST00000370398.1	37	CCDS4976.1	.	.	.	.	.	.	.	.	.	.	G	29.9	5.043519	0.93685	.	.	ENSG00000185760	ENST00000342056;ENST00000451840;ENST00000355194;ENST00000370398;ENST00000370392;ENST00000402622;ENST00000355635;ENST00000403813;ENST00000414165	D;D;D;D;D;D;D;D	0.96745	-4.11;-4.11;-4.11;-4.11;-4.11;-4.11;-4.11;-4.11	5.86	5.86	0.93980	Ion transport (1);	0.000000	0.85682	D	0.000000	D	0.97272	0.9108	L	0.48260	1.515	0.80722	D	1	D;D;D;D;D;D	0.89917	0.998;0.999;1.0;1.0;1.0;1.0	D;D;D;D;D;D	0.87578	0.976;0.986;0.998;0.996;0.997;0.991	D	0.97750	1.0214	10	0.87932	D	0	.	20.1823	0.98208	0.0:0.0:1.0:0.0	.	284;284;284;284;284;284	F5GZV0;Q9NR82-3;A6PVT6;Q9NR82-2;Q9NR82;Q9NR82-4	.;.;.;.;KCNQ5_HUMAN;.	F	284	ENSP00000345055:V284F;ENSP00000347326:V284F;ENSP00000359425:V284F;ENSP00000359419:V284F;ENSP00000385501:V284F;ENSP00000347853:V284F;ENSP00000384453:V284F;ENSP00000409861:V284F	ENSP00000345055:V284F	V	+	1	0	KCNQ5	73844263	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.869000	0.99810	2.771000	0.95319	0.650000	0.86243	GTC		0.333	KCNQ5-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000041198.3	NM_019842		T	73787542	G	T	73787542	3	4	668	1	0	0	0	0	1	0	0	0	8093	1377	48	4	868	4	KCNQ5	6	73787542	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10	36450825	73787542	97327525	51	42724										
LAMA4	3910	broad.mit.edu;mdanderson.org	37	chr6	112480083	112480083	+	Splice_Site	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gcataaatccctgacgcattCtaaagaaaaaaattttaata	4	7	1	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr6:112480083C>G	ENST00000230538.7	-	14	2066		c.e14-1		LAMA4_ENST00000389463.4_Splice_Site|RP1-142L7.5_ENST00000585373.1_RNA|LAMA4_ENST00000522006.1_Splice_Site|LAMA4_ENST00000424408.2_Splice_Site|RP1-142L7.5_ENST00000425503.1_RNA	NM_001105206.2	NP_001098676.2	Q16363	LAMA4_HUMAN	laminin, alpha 4						blood vessel development (GO:0001568)|brown fat cell differentiation (GO:0050873)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of embryonic development (GO:0045995)	basal lamina (GO:0005605)|basement membrane (GO:0005604)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)	extracellular matrix structural constituent (GO:0005201)			NS(1)|breast(6)|central_nervous_system(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(18)|lung(42)|ovary(4)|pancreas(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(8)	100		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)		CTGACGCATTCTAAAGAAAAA	0.308																																																0													75	70	71					6																	112480083		2202	4300	6502	SO:0001630	splice_region_variant	3910				CCDS34514.1, CCDS43491.1, CCDS43492.1	6q21	2014-09-17			ENSG00000112769	ENSG00000112769		"Laminins"	6484	protein-coding gene	gene with protein product		600133				7959779	Standard	NM_001105206		Approved	LAMA3	uc003pvu.3	Q16363	OTTHUMG00000015386	ENST00000230538.7:c.1669-1G>C	6.37:g.112480083C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q14731|Q14735|Q15335|Q4LE44|Q5SZG8|Q9BTB8|Q9UE18|Q9UJN9	Splice_Site	SNP	ENST00000230538.7	37	CCDS43491.1	.	.	.	.	.	.	.	.	.	.	C	16.85	3.237236	0.58886	.	.	ENSG00000112769	ENST00000230538;ENST00000522006;ENST00000389463;ENST00000424408	.	.	.	5.68	5.68	0.88126	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.695	0.85333	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	LAMA4	112586776	1.000000	0.71417	0.997000	0.53966	0.815000	0.46073	4.452000	0.60054	2.668000	0.90789	0.591000	0.81541	.		0.308	LAMA4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000041876.2	NM_001105206	Intron	G	112480083	C	G	112480083	5	3	668	1	0	0	0	0	0	0	1	0	8615	927	32	4	3907	4	LAMA4	6	112480083	Splice_Site	SNP	C	TCGA-KN-8432-01A-11D-2310-10	38692541	112480083	58634984	52	42725										
MED23	9439	broad.mit.edu	37	chr6	131919846	131919846	+	Frame_Shift_Del	DEL	T	T	-													0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tcctatactcctcctccacaTtttttttcagattaaaacgg							TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr6:131919846delT	ENST00000368068.3	-	19	2455	c.2276delA	c.(2275-2277)aatfs	p.N759fs	MED23_ENST00000545957.1_Frame_Shift_Del_p.N400fs|MED23_ENST00000540546.1_Frame_Shift_Del_p.N765fs|MED23_ENST00000354577.4_Frame_Shift_Del_p.N765fs|MED23_ENST00000368060.3_Frame_Shift_Del_p.N759fs|MED23_ENST00000368058.1_Frame_Shift_Del_p.N765fs|MED23_ENST00000403834.3_Frame_Shift_Del_p.N765fs|MED23_ENST00000479213.1_5'Flank|MED23_ENST00000368053.4_Frame_Shift_Del_p.N765fs	NM_004830.3	NP_004821.2	Q9ULK4	MED23_HUMAN	mediator complex subunit 23	759					gene expression (GO:0010467)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|transcription initiation from RNA polymerase II promoter (GO:0006367)	mediator complex (GO:0016592)|nucleoplasm (GO:0005654)|transcription factor complex (GO:0005667)	transcription coactivator activity (GO:0003713)	p.N759fs*7(1)|p.N765fs*7(1)		NS(1)|breast(3)|central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(12)|lung(15)|ovary(1)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	44	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		CTCCTCCACATTTTTTTTCAG	0.378																																																2	Insertion - Frameshift(2)	large_intestine(2)											154	151	152					6																	131919846		2203	4300	6503	SO:0001589	frameshift_variant	9439			AF104255	CCDS5146.1, CCDS5147.1, CCDS59039.1	6q22.33-q24.1	2008-02-05	2007-08-08	2007-07-30	ENSG00000112282	ENSG00000112282			2372	protein-coding gene	gene with protein product		605042	"cofactor required for Sp1 transcriptional activation, subunit 3, 130kDa"	CRSP3		9989412	Standard	NM_004830		Approved	CRSP130, DRIP130, Sur2	uc003qcs.2	Q9ULK4	OTTHUMG00000015565	ENST00000368068.3:c.2276delA	6.37:g.131919846delT	ENSP00000357047:p.Asn759fs	Somatic		WXS	Illumina HiSeq	Phase_I	B9TX55|O95403|Q5JWT3|Q5JWT4|Q6P9H6|Q9H0J2|Q9NTT9|Q9NTU0|Q9Y5P7|Q9Y667	Frame_Shift_Del	DEL	ENST00000368068.3	37	CCDS5147.1																																																																																				0.378	MED23-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000042215.1			-	131919846	T	-	131919846	7	5	668	1	0	1	0	1	0	0	0	0	9448	1493	52	0	1881	0	MED23	6	131919846	Frame_Shift_Del	DEL	T	TCGA-KN-8432-01A-11D-2310-10	19439763	131919846	39195221	53	42726										
TAAR2	9287	broad.mit.edu	37	chr6	132945376	132945376	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ttttttgtctgtgttcttttGaaatgtgaaagttcatgttg	9	3	3	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr6:132945376G>C	ENST00000367931.1	-	1	38	c.39C>G	c.(37-39)ttC>ttG	p.F13L	TAAR2_ENST00000537809.1_5'UTR			Q9P1P5	TAAR2_HUMAN	trace amine associated receptor 2	13					G-protein coupled receptor signaling pathway (GO:0007186)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|trace-amine receptor activity (GO:0001594)			breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(15)|ovary(1)|skin(1)	23	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00608)|GBM - Glioblastoma multiforme(226;0.0151)		GTGTTCTTTTGAAATGTGAAA	0.378																																																0													163	139	147					6																	132945376		2203	4300	6503	SO:0001583	missense	9287			AF112460	CCDS34541.1, CCDS5157.1	6q24	2012-08-08	2005-02-23	2005-02-24	ENSG00000146378	ENSG00000146378		"GPCR / Class A : Trace amine associated receptors"	4514	protein-coding gene	gene with protein product		604849	"G protein-coupled receptor 58"	GPR58		10684976, 15718104	Standard	NM_014626		Approved		uc003qdl.1	Q9P1P5	OTTHUMG00000015585	ENST00000367931.1:c.39C>G	6.37:g.132945376G>C	ENSP00000356908:p.Phe13Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5QD02|Q6NWS1|Q6NWS2|Q6NWS3	Missense_Mutation	SNP	ENST00000367931.1	37	CCDS34541.1	.	.	.	.	.	.	.	.	.	.	G	10.65	1.411143	0.25465	.	.	ENSG00000146378	ENST00000367931	T	0.58797	0.31	3.9	-0.907	0.10521	.	4.101820	0.00541	N	0.000221	T	0.08758	0.0217	N	0.08118	0	0.20926	N	0.999828	B	0.02656	0.0	B	0.01281	0.0	T	0.08229	-1.0732	10	0.02654	T	1	-3.0145	0.5532	0.00666	0.1716:0.2031:0.2155:0.4097	.	13	Q9P1P5	TAAR2_HUMAN	L	13	ENSP00000356908:F13L	ENSP00000356908:F13L	F	-	3	2	TAAR2	132987069	0.001000	0.12720	0.003000	0.11579	0.183000	0.23260	-0.531000	0.06171	-0.161000	0.10983	0.650000	0.86243	TTC		0.378	TAAR2-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000390735.1	NM_014626		C	132945376	G	C	132945376	3	2	668	1	0	0	0	0	1	0	0	0	15502	1281	45	4	1024	4	TAAR2	6	132945376	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10	1025530	132945376	38169691	54	42727										
AHR	196	hgsc.bcm.edu;ucsc.edu	37	chr7	17369578	17369578	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tgtatcttttttctttagtcTgatgtcatacatcagagtgt	7	6	5	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr7:17369578T>A	ENST00000242057.4	+	5	1096	c.453T>A	c.(451-453)tcT>tcA	p.S151S		NM_001621.4	NP_001612.1	P35869	AHR_HUMAN	aryl hydrocarbon receptor	151	PAS 1. {ECO:0000255|PROSITE- ProRule:PRU00140}.				apoptotic process (GO:0006915)|blood vessel development (GO:0001568)|cell cycle (GO:0007049)|circadian regulation of gene expression (GO:0032922)|intracellular receptor signaling pathway (GO:0030522)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of RNA polymerase II transcriptional preinitiation complex assembly (GO:0045899)|positive regulation of transcription, DNA-templated (GO:0045893)|prostate gland development (GO:0030850)|regulation of B cell proliferation (GO:0030888)|regulation of gene expression (GO:0010468)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|response to toxic substance (GO:0009636)|response to xenobiotic stimulus (GO:0009410)|transcription from RNA polymerase II promoter (GO:0006366)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|cytosolic aryl hydrocarbon receptor complex (GO:0034752)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|E-box binding (GO:0070888)|enhancer binding (GO:0035326)|Hsp90 protein binding (GO:0051879)|ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|protein dimerization activity (GO:0046983)|protein heterodimerization activity (GO:0046982)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			NS(1)|central_nervous_system(1)|endometrium(3)|kidney(4)|large_intestine(8)|lung(11)|ovary(1)|pancreas(1)|urinary_tract(3)	33	Lung NSC(10;0.0392)|all_lung(11;0.0754)				Atorvastatin(DB01076)|Flutamide(DB00499)|Ginseng(DB01404)|Leflunomide(DB01097)|Mexiletine(DB00379)|Nimodipine(DB00393)	TTCTTTAGTCTGATGTCATAC	0.358																																																0													68	69	69					7																	17369578		2203	4300	6503	SO:0001819	synonymous_variant	196			L19872	CCDS5366.1	7p15	2013-05-21			ENSG00000106546	ENSG00000106546		"Basic helix-loop-helix proteins"	348	protein-coding gene	gene with protein product		600253				8125016	Standard	NM_001621		Approved	bHLHe76	uc011jxz.1	P35869	OTTHUMG00000149967	ENST00000242057.4:c.453T>A	7.37:g.17369578T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D130|Q13728|Q13803|Q13804	Silent	SNP	ENST00000242057.4	37	CCDS5366.1																																																																																				0.358	AHR-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000314620.2	NM_001621		A	17369578	T	A	17369578	2	1	668	1	0	0	0	0	0	0	0	1	416	1567	55	5		5	AHR	7	17369578	Silent	SNP	T	TCGA-KN-8432-01A-11D-2310-10		17369578	141769085	55	42728										
VWC2	375567	ucsc.edu	37	chr7	49815089	49815089	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ccagttccctcctggtcaccTgctgcctgatggtggctctg	11	15	2	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr7:49815089T>C	ENST00000340652.4	+	2	614	c.58T>C	c.(58-60)Tgc>Cgc	p.C20R		NM_198570.3	NP_940972.2	Q2TAL6	VWC2_HUMAN	von Willebrand factor C domain containing 2	20					negative regulation of BMP signaling pathway (GO:0030514)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of neuron differentiation (GO:0045666)	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex (GO:0032281)|basement membrane (GO:0005604)|cell junction (GO:0030054)|extracellular space (GO:0005615)|interstitial matrix (GO:0005614)|synapse (GO:0045202)				cervix(1)|endometrium(2)|large_intestine(1)|lung(3)|prostate(1)	8						CCTGGTCACCTGCTGCCTGAT	0.711																																																0													22	17	19					7																	49815089		2200	4299	6499	SO:0001583	missense	375567			AY358393	CCDS5508.1	7p12.3-p12.2	2007-07-19			ENSG00000188730	ENSG00000188730			30200	protein-coding gene	gene with protein product	"brorin", "brain-specific chordin-like"	611108				17400546	Standard	NM_198570		Approved	PSST739, UNQ739	uc003tot.1	Q2TAL6	OTTHUMG00000129265	ENST00000340652.4:c.58T>C	7.37:g.49815089T>C	ENSP00000341819:p.Cys20Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXE2	Missense_Mutation	SNP	ENST00000340652.4	37	CCDS5508.1	.	.	.	.	.	.	.	.	.	.	T	16.31	3.086076	0.55861	.	.	ENSG00000188730	ENST00000340652	T	0.33654	1.4	4.53	3.34	0.38264	.	0.159801	0.43747	D	0.000532	T	0.16981	0.0408	N	0.08118	0	0.47547	D	0.999459	P	0.41041	0.736	B	0.32465	0.146	T	0.06481	-1.0824	10	0.87932	D	0	-12.7074	11.0243	0.47736	0.0:0.0:0.1567:0.8433	.	20	Q2TAL6	VWC2_HUMAN	R	20	ENSP00000341819:C20R	ENSP00000341819:C20R	C	+	1	0	VWC2	49785635	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.836000	0.62789	0.538000	0.28769	0.454000	0.30748	TGC		0.711	VWC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251375.2	NM_198570		C	49815089	T	C	49815089	3	2	668	1	0	0	0	0	1	0	0	0	17255	1580	55	3	60	3	VWC2	7	49815089	Missense_Mutation	SNP	T	TCGA-KN-8432-01A-11D-2310-10	32445511	49815089	109323574	56	42729										
IKZF1	10320	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr7	50444370	50444370	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ggctcccacagggaccaaggCagctcggctttgtcgggagt	15	12	0	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr7:50444370C>T	ENST00000331340.3	+	4	455	c.300C>T	c.(298-300)ggC>ggT	p.G100G	IKZF1_ENST00000343574.5_Intron|IKZF1_ENST00000439701.1_Silent_p.G100G|IKZF1_ENST00000346667.4_Intron|IKZF1_ENST00000438033.1_Intron|IKZF1_ENST00000357364.4_Silent_p.G100G|IKZF1_ENST00000349824.4_Silent_p.G100G|IKZF1_ENST00000359197.5_Silent_p.G100G|IKZF1_ENST00000440768.2_Silent_p.G100G	NM_001220769.1|NM_001220772.1|NM_001220773.1|NM_001220775.1|NM_006060.4	NP_001207698.1|NP_001207701.1|NP_001207702.1|NP_001207704.1|NP_006051.1	Q13422	IKZF1_HUMAN	IKAROS family zinc finger 1 (Ikaros)	100					B cell differentiation (GO:0030183)|cell cycle (GO:0007049)|chromatin modification (GO:0016568)|forebrain development (GO:0030900)|lymph node development (GO:0048535)|mesoderm development (GO:0007498)|natural killer cell differentiation (GO:0001779)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Peyer's patch development (GO:0048541)|positive regulation of multicellular organism growth (GO:0040018)|positive regulation of neutrophil differentiation (GO:0045660)|positive regulation of NK T cell differentiation (GO:0051138)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|retina development in camera-type eye (GO:0060041)|T cell differentiation (GO:0030217)|thymus development (GO:0048538)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|pericentric heterochromatin (GO:0005721)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.?(131)		haematopoietic_and_lymphoid_tissue(275)|lung(1)	276	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;7.29e-10)|all_hematologic(4;4.8e-07)				GGGACCAAGGCAGCTCGGCTT	0.512			"D,T"	BCL6	"ALL, DLBCL"																																		"Rec,Dom"	yes		7	7p12.2	10320	IKAROS family zinc finger 1		L	131	Unknown(131)	haematopoietic_and_lymphoid_tissue(131)											91	98	96					7																	50444370		1949	4133	6082	SO:0001819	synonymous_variant	10320			U40462	CCDS59055.1, CCDS69299.1, CCDS75596.1, CCDS75597.1	7p12.2	2014-06-12	2006-08-25	2006-08-25	ENSG00000185811	ENSG00000185811		"Zinc fingers, C2H2-type", "IKAROS zinc fingers"	13176	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 92"	603023	"zinc finger protein, subfamily 1A, 1 (Ikaros)"	ZNFN1A1		1439790, 7935426	Standard	NM_006060		Approved	hIk-1, LyF-1, Hs.54452, IKAROS, PPP1R92	uc003tow.4	Q13422	OTTHUMG00000155907	ENST00000331340.3:c.300C>T	7.37:g.50444370C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4D260|B4E0Z1|D3DVM5|O00598|Q53XL2|Q69BM4|Q8WVA3	Silent	SNP	ENST00000331340.3	37																																																																																					0.512	IKZF1-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000342242.1	NM_006060		T	50444370	C	T	50444370	2	4	668	1	0	0	0	0	0	0	0	1	7621	697	25	2		2	IKZF1	7	50444370	Silent	SNP	C	TCGA-KN-8432-01A-11D-2310-10	629281	50444370	108694293	57	42730										
GTF2IRD2B	389524	hgsc.bcm.edu	37	chr7	74563945	74563945	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	aataataccacccagttggcCatattcatccgtggtgtcga	8	11	1	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr7:74563945C>A	ENST00000312575.7	+	16	1867	c.1692C>A	c.(1690-1692)gcC>gcA	p.A564A	GTF2IRD2B_ENST00000418185.2_Silent_p.A111A	NM_001003795.2	NP_001003795.1	Q6EKJ0	GTD2B_HUMAN	GTF2I repeat domain containing 2B	564					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)			endometrium(1)|ovary(2)|prostate(1)	4						cccagttggccatattcatcc	0.438																																																0													12	13	13					7																	74563945		2195	4276	6471	SO:0001819	synonymous_variant	389524			AY312850	CCDS34659.1	7q11.23	2014-05-06			ENSG00000174428	ENSG00000174428			33125	protein-coding gene	gene with protein product		608900				15100712	Standard	XM_005277580		Approved		uc003ubt.3	Q6EKJ0	OTTHUMG00000181534	ENST00000312575.7:c.1692C>A	7.37:g.74563945C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RNE9|Q69GU6|Q8N979|Q9H739	Silent	SNP	ENST00000312575.7	37	CCDS34659.1																																																																																				0.438	GTF2IRD2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342728.1	NM_001003795		A	74563945	C	A	74563945	2	1	668	1	0	0	0	0	0	0	0	1	6877	581	21	4		4	GTF2IRD2B	7	74563945	Silent	SNP	C	TCGA-KN-8432-01A-11D-2310-10	24119575	74563945	84574718	58	42731										
MLL3	58508	mdanderson.org	37	chr7	151962294	151962294	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	cacagtttgcatcttccttcGctataattaacagtgaaaca	5	10	1	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr7:151962294G>A	ENST00000262189.6	-	8	1231	c.1013C>T	c.(1012-1014)tCg>tTg	p.S338L	KMT2C_ENST00000355193.2_Splice_Site_p.S338L	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	338					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)										ATCTTCCTTCGCTATAATTAA	0.368																																																0													67	63	64					7																	151962294		2203	4299	6502	SO:0001630	splice_region_variant	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.1013-1C>T	7.37:g.151962294G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Missense_Mutation	SNP	ENST00000262189.6	37	CCDS5931.1	.	.	.	.	.	.	.	.	.	.	G	10.41	1.342287	0.24339	.	.	ENSG00000055609	ENST00000262189;ENST00000355193	D;D	0.98862	-5.19;-5.19	4.65	4.65	0.58169	Zinc finger, RING/FYVE/PHD-type (1);Protein kinase C-like, phorbol ester/diacylglycerol binding (1);Zinc finger, FYVE/PHD-type (1);	0.000000	0.36482	U	0.002566	D	0.98024	0.9349	L	0.29908	0.895	0.80722	D	1	D	0.76494	0.999	D	0.72625	0.978	D	0.97032	0.9751	10	0.11794	T	0.64	.	17.9157	0.88950	0.0:0.0:1.0:0.0	.	338	Q8NEZ4	MLL3_HUMAN	L	338	ENSP00000262189:S338L;ENSP00000347325:S338L	ENSP00000262189:S338L	S	-	2	0	MLL3	151593227	1.000000	0.71417	0.997000	0.53966	0.003000	0.03518	7.569000	0.82380	2.271000	0.75665	0.557000	0.71058	TCG		0.368	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3		Missense_Mutation	A	151962294	G	A	151962294	5	1	668	1	0	0	0	0	0	0	1	0	9629	1101	38	1	13930	1	MLL3	7	151962294	Splice_Site	SNP	G	TCGA-KN-8432-01A-11D-2310-10	77398349	151962294	7176369	59	42732										
XKR6	286046	broad.mit.edu	37	chr8	10755515	10755515	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gaggagtggtccgtctcgatAtcgaatgcctactgcggtgg	15	9	1	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr8:10755515A>C	ENST00000416569.2	-	3	1899	c.1873T>G	c.(1873-1875)Tat>Gat	p.Y625D	XKR6_ENST00000304437.2_Missense_Mutation_p.Y346D	NM_173683.3	NP_775954.2	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related family, member 6	625						integral component of membrane (GO:0016021)				breast(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(8)|ovary(2)|prostate(1)|skin(3)	31				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		CCGTCTCGATATCGAATGCCT	0.468																																																0													125	116	119					8																	10755515		2203	4300	6503	SO:0001583	missense	286046			BC024146	CCDS5978.2	8p23.1	2009-05-27	2006-01-12	2005-07-28	ENSG00000171044	ENSG00000171044			27806	protein-coding gene	gene with protein product			"chromosome 8 open reading frame 7", "chromosome 8 open reading frame 21", "X Kell blood group precursor-related family, member 6", "chromosome 8 open reading frame 5"	C8orf7, C8orf21, C8orf5			Standard	NM_173683		Approved		uc003wtk.1	Q5GH73	OTTHUMG00000129351	ENST00000416569.2:c.1873T>G	8.37:g.10755515A>C	ENSP00000416707:p.Tyr625Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TBA0	Missense_Mutation	SNP	ENST00000416569.2	37	CCDS5978.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	15.93|15.93	2.978415|2.978415	0.53720|0.53720	.|.	.|.	ENSG00000171044|ENSG00000171044	ENST00000382461|ENST00000304437;ENST00000416569	.|D;D	.|0.94000	.|-3.11;-3.33	4.55|4.55	4.55|4.55	0.56014|0.56014	.|.	.|0.135739	.|0.51477	.|D	.|0.000086	D|D	0.96037|0.96037	0.8709|0.8709	M|M	0.73962|0.73962	2.25|2.25	0.58432|0.58432	D|D	0.999991|0.999991	.|D	.|0.76494	.|0.999	.|D	.|0.80764	.|0.994	D|D	0.96450|0.96450	0.9333|0.9333	5|10	.|0.87932	.|D	.|0	-7.7754|-7.7754	13.2781|13.2781	0.60198|0.60198	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	.|625	.|Q5GH73	.|XKR6_HUMAN	E|D	401|346;625	.|ENSP00000307120:Y346D;ENSP00000416707:Y625D	.|ENSP00000307120:Y346D	D|Y	-|-	3|1	2|0	XKR6|XKR6	10792925|10792925	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.992000|0.992000	0.81027|0.81027	9.123000|9.123000	0.94387|0.94387	1.911000|1.911000	0.55334|0.55334	0.449000|0.449000	0.29647|0.29647	GAT|TAT		0.468	XKR6-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383958.1	NM_173683		C	10755515	A	C	10755515	3	2	668	1	0	0	0	0	1	0	0	0	17447	449	16	5	56	5	XKR6	8	10755515	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10		10755515	135608507	60	42733										
INTS10	55174	broad.mit.edu	37	chr8	19680921	19680921	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ttttatatcaattatgtcacTaggtctactcaaatagaaaa	4	6	4	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr8:19680921T>C	ENST00000397977.3	+	6	1031	c.633T>C	c.(631-633)acT>acC	p.T211T		NM_018142.2	NP_060612.2	Q9NVR2	INT10_HUMAN	integrator complex subunit 10	211					snRNA processing (GO:0016180)	integrator complex (GO:0032039)				breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(2)|lung(8)|ovary(2)|prostate(1)|urinary_tract(1)	20				Colorectal(111;0.057)|COAD - Colon adenocarcinoma(73;0.215)		ATTATGTCACTAGGTCTACTC	0.323																																																0													93	87	89					8																	19680921		1824	4075	5899	SO:0001819	synonymous_variant	55174			AK001431	CCDS6011.2	8p21.3	2006-04-26	2006-03-15	2006-03-15	ENSG00000104613	ENSG00000104613			25548	protein-coding gene	gene with protein product		611353	"chromosome 8 open reading frame 35"	C8orf35		16239144	Standard	XM_005273558		Approved	FLJ10569, INT10	uc003wzj.3	Q9NVR2	OTTHUMG00000131065	ENST00000397977.3:c.633T>C	8.37:g.19680921T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IA93|Q7L538|Q7L8C8|Q9H3W8	Silent	SNP	ENST00000397977.3	37	CCDS6011.2	.	.	.	.	.	.	.	.	.	.	T	9.641	1.138867	0.21123	.	.	ENSG00000104613	ENST00000523846	.	.	.	5.38	-3.37	0.04898	.	.	.	.	.	T	0.39809	0.1092	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.34453	-0.9828	4	.	.	.	-18.7854	2.7856	0.05373	0.1213:0.3811:0.2493:0.2483	.	.	.	.	P	8	.	.	L	+	2	0	INTS10	19725201	0.444000	0.25649	0.939000	0.37840	0.952000	0.60782	-0.305000	0.08188	-0.481000	0.06792	0.379000	0.24179	CTA		0.323	INTS10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253724.2	NM_018142		C	19680921	T	C	19680921	2	2	668	1	0	0	0	0	0	0	0	1	7783	1509	53	3		3	INTS10	8	19680921	Silent	SNP	T	TCGA-KN-8432-01A-11D-2310-10	8925406	19680921	126683101	61	42734										
KIAA1429	25962	broad.mit.edu;bcgsc.ca	37	chr8	95539559	95539559	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	caagtcagcaattccatcttCatcactggaaatttgttcat	5	10	5	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr8:95539559C>T	ENST00000297591.5	-	8	988	c.913G>A	c.(913-915)Gaa>Aaa	p.E305K	KIAA1429_ENST00000421249.2_Missense_Mutation_p.E305K|KIAA1429_ENST00000437199.1_Missense_Mutation_p.E305K	NM_015496.4	NP_056311.2	Q69YN4	VIR_HUMAN	KIAA1429	305	Glu-rich.				mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(4)|kidney(5)|large_intestine(16)|lung(28)|ovary(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	66	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			ATTCCATCTTCATCACTGGAA	0.318																																																0													54	54	54					8																	95539559		2203	4300	6503	SO:0001583	missense	25962			AB037850	CCDS34923.1, CCDS47894.1	8q22.1	2008-11-25			ENSG00000164944	ENSG00000164944			24500	protein-coding gene	gene with protein product	"functional spliceosome-associated protein 121"					10718198	Standard	NM_015496		Approved	DKFZP434I116, fSAP121	uc003ygo.2	Q69YN4	OTTHUMG00000164426	ENST00000297591.5:c.913G>A	8.37:g.95539559C>T	ENSP00000297591:p.Glu305Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M1N0|Q6AHX9|Q6NT78|Q7Z6C7|Q8IXH4|Q9BTH4|Q9H9C9|Q9NWR3|Q9P2B8|Q9UFW1	Missense_Mutation	SNP	ENST00000297591.5	37	CCDS34923.1	.	.	.	.	.	.	.	.	.	.	C	24.9	4.584510	0.86748	.	.	ENSG00000164944	ENST00000297591;ENST00000437199;ENST00000421249	T;T;T	0.55052	0.56;0.57;0.54	5.7	5.7	0.88788	.	0.000000	0.85682	D	0.000000	T	0.72811	0.3507	M	0.66939	2.045	0.80722	D	1	D;D	0.67145	0.996;0.996	D;D	0.76071	0.987;0.987	T	0.73997	-0.3806	10	0.72032	D	0.01	-17.3179	19.8292	0.96628	0.0:1.0:0.0:0.0	.	305;305	Q69YN4-4;Q69YN4	.;VIR_HUMAN	K	305	ENSP00000297591:E305K;ENSP00000395600:E305K;ENSP00000398390:E305K	ENSP00000297591:E305K	E	-	1	0	KIAA1429	95608735	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.487000	0.81328	2.689000	0.91719	0.491000	0.48974	GAA		0.318	KIAA1429-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378720.2	NM_015496		T	95539559	C	T	95539559	3	4	668	1	0	0	0	0	1	0	0	0	8238	835	29	2	4647	2	KIAA1429	8	95539559	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	75858638	95539559	50824463	62	42735										
STK3	6788	ucsc.edu	37	chr8	99779547	99779547	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	aacaggtacttgtttaattgCgacaacttgaccggattcct	8	9	0	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr8:99779547C>T	ENST00000419617.2	-	3	300	c.160G>A	c.(160-162)Gca>Aca	p.A54T	STK3_ENST00000523601.1_Missense_Mutation_p.A82T	NM_006281.3	NP_006272.2	Q13188	STK3_HUMAN	serine/threonine kinase 3	54	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				apoptotic process (GO:0006915)|cell differentiation involved in embryonic placenta development (GO:0060706)|central nervous system development (GO:0007417)|endocardium development (GO:0003157)|hepatocyte apoptotic process (GO:0097284)|hippo signaling (GO:0035329)|intracellular signal transduction (GO:0035556)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cell proliferation (GO:0008285)|negative regulation of organ growth (GO:0046621)|neural tube formation (GO:0001841)|positive regulation of apoptotic process (GO:0043065)|positive regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902043)|positive regulation of JNK cascade (GO:0046330)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of protein serine/threonine kinase activity (GO:0071902)|primitive hemopoiesis (GO:0060215)|protein phosphorylation (GO:0006468)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|protein dimerization activity (GO:0046983)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activator activity (GO:0043539)|protein serine/threonine kinase activity (GO:0004674)	p.A54T(1)		breast(2)|endometrium(2)|kidney(1)|large_intestine(4)|lung(6)|ovary(1)|upper_aerodigestive_tract(1)	17	Breast(36;2.4e-06)	Breast(495;0.106)	OV - Ovarian serous cystadenocarcinoma(57;0.0382)	KIRC - Kidney renal clear cell carcinoma(542;9.44e-06)		TGTTTAATTGCGACAACTTGA	0.323																																																1	Substitution - Missense(1)	large_intestine(1)											108	100	103					8																	99779547		1877	4142	6019	SO:0001583	missense	6788			BC010640	CCDS47900.1, CCDS59108.1, CCDS75774.1	8q22.2	2011-05-24	2010-06-25		ENSG00000104375	ENSG00000104375			11406	protein-coding gene	gene with protein product		605030	"serine/threonine kinase 3 (Ste20, yeast homolog)"			8816758	Standard	NM_006281		Approved	MST2, KRS1	uc003yip.4	Q13188	OTTHUMG00000164651	ENST00000419617.2:c.160G>A	8.37:g.99779547C>T	ENSP00000390500:p.Ala54Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K722|B3KYA7|Q15445|Q15801|Q96FM6	Missense_Mutation	SNP	ENST00000419617.2	37	CCDS47900.1	.	.	.	.	.	.	.	.	.	.	C	34	5.319913	0.95682	.	.	ENSG00000104375	ENST00000419617;ENST00000523601;ENST00000518165	T;T;T	0.41758	0.99;0.99;1.53	5.67	5.67	0.87782	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.77308	0.4111	H	0.95950	3.745	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.77004	0.978;0.989;0.985	D	0.84472	0.0600	10	0.87932	D	0	.	19.7782	0.96405	0.0:1.0:0.0:0.0	.	54;54;82	E5RFQ9;Q13188;B3KYA7	.;STK3_HUMAN;.	T	54;82;54	ENSP00000390500:A54T;ENSP00000429744:A82T;ENSP00000428014:A54T	ENSP00000390500:A54T	A	-	1	0	STK3	99848723	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.776000	0.85560	2.667000	0.90743	0.561000	0.74099	GCA		0.323	STK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379635.1	NM_006281		T	99779547	C	T	99779547	3	4	668	1	0	0	0	0	1	0	0	0	15307	768	27	1	1351	1	STK3	8	99779547	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	4239988	99779547	46584475	63	42736										
VPS13B	157680	ucsc.edu;bcgsc.ca	37	chr8	100533136	100533136	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ttttgttacagctaatcaggCagcaaaagaagacactgtgg	10	7	1	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr8:100533136C>T	ENST00000358544.2	+	30	4829	c.4718C>T	c.(4717-4719)gCa>gTa	p.A1573V	VPS13B_ENST00000357162.2_Missense_Mutation_p.A1548V|VPS13B_ENST00000395996.1_3'UTR	NM_017890.4	NP_060360.3	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13 homolog B (yeast)	1573					protein transport (GO:0015031)					NS(1)|autonomic_ganglia(1)|breast(6)|central_nervous_system(4)|cervix(3)|endometrium(11)|haematopoietic_and_lymphoid_tissue(4)|kidney(10)|large_intestine(37)|lung(78)|ovary(8)|pancreas(3)|prostate(5)|skin(9)|upper_aerodigestive_tract(4)|urinary_tract(9)	193	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			GCTAATCAGGCAGCAAAAGAA	0.418																																					Colon(161;2205 2542 7338 31318)											0													126	113	117					8																	100533136		2203	4300	6503	SO:0001583	missense	157680			AJ608772	CCDS6280.1, CCDS6281.1, CCDS6283.1, CCDS47903.1	8q22-q23	2014-09-17	2006-12-19	2005-04-08	ENSG00000132549	ENSG00000132549			2183	protein-coding gene	gene with protein product		607817	"Cohen syndrome 1"	CHS1, COH1		7920642, 15498460	Standard	NM_181661		Approved		uc003yiv.4	Q7Z7G8	OTTHUMG00000140383	ENST00000358544.2:c.4718C>T	8.37:g.100533136C>T	ENSP00000351346:p.Ala1573Val	Somatic		WXS	Illumina HiSeq	Phase_I	C9JD30|Q709C6|Q709C7|Q7Z7G4|Q7Z7G5|Q7Z7G6|Q7Z7G7|Q8NB77|Q9NWV1|Q9Y4E7	Missense_Mutation	SNP	ENST00000358544.2	37	CCDS6280.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	10.90|10.90	1.480516|1.480516	0.26598|0.26598	.|.	.|.	ENSG00000132549|ENSG00000132549	ENST00000357162;ENST00000358544|ENST00000521559	T;T|.	0.69685|.	-0.42;-0.41|.	5.65|5.65	3.78|3.78	0.43462|0.43462	.|.	0.685114|.	0.14477|.	N|.	0.317196|.	T|.	0.38746|.	0.1052|.	L|L	0.44542|0.44542	1.39|1.39	0.09310|0.09310	N|N	0.999991|0.999991	B;B|.	0.19200|.	0.034;0.02|.	B;B|.	0.18561|.	0.022;0.01|.	T|.	0.21484|.	-1.0244|.	10|.	0.30854|.	T|.	0.27|.	.|.	8.2142|8.2142	0.31501|0.31501	0.3052:0.6236:0.0:0.0712|0.3052:0.6236:0.0:0.0712	.|.	1548;1573|.	Q7Z7G8-2;Q7Z7G8|.	.;VP13B_HUMAN|.	V|X	1548;1573|4	ENSP00000349685:A1548V;ENSP00000351346:A1573V|.	ENSP00000349685:A1548V|.	A|Q	+|+	2|1	0|0	VPS13B|VPS13B	100602312|100602312	1.000000|1.000000	0.71417|0.71417	0.780000|0.780000	0.31762|0.31762	0.896000|0.896000	0.52359|0.52359	2.548000|2.548000	0.45794|0.45794	0.648000|0.648000	0.30732|0.30732	0.557000|0.557000	0.71058|0.71058	GCA|CAG		0.418	VPS13B-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000277138.1	NM_184042		T	100533136	C	T	100533136	3	4	668	1	0	0	0	0	1	0	0	0	17202	710	25	2	5026	2	VPS13B	8	100533136	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	753589	100533136	45830886	64	42737										
TG	7038	ucsc.edu	37	chr8	133911147	133911147	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	aagacctgttcgtcccagccTgcctagaagtaagggtctgg	12	11	1	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr8:133911147T>C	ENST00000220616.4	+	14	3362	c.3322T>C	c.(3322-3324)Tgc>Cgc	p.C1108R	TG_ENST00000377869.1_Missense_Mutation_p.C1108R	NM_003235.4	NP_003226.4	P01266	THYG_HUMAN	thyroglobulin	1108	Thyroglobulin type-1 9. {ECO:0000255|PROSITE-ProRule:PRU00500}.				hormone biosynthetic process (GO:0042446)|iodide transport (GO:0015705)|regulation of myelination (GO:0031641)|signal transduction (GO:0007165)|thyroid gland development (GO:0030878)|thyroid hormone generation (GO:0006590)	extracellular region (GO:0005576)|extracellular space (GO:0005615)				NS(1)|breast(11)|central_nervous_system(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(34)|liver(2)|lung(59)|ovary(9)|pancreas(2)|prostate(6)|skin(7)|stomach(4)|upper_aerodigestive_tract(4)|urinary_tract(8)	168	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CGTCCCAGCCTGCCTAGAAGT	0.493																																																0													54	45	48					8																	133911147		2203	4300	6503	SO:0001583	missense	7038			AU141420	CCDS34944.1	8q24	2012-10-02			ENSG00000042832	ENSG00000042832			11764	protein-coding gene	gene with protein product		188450					Standard	NM_003235		Approved	TGN, AITD3	uc003ytw.3	P01266	OTTHUMG00000164649	ENST00000220616.4:c.3322T>C	8.37:g.133911147T>C	ENSP00000220616:p.Cys1108Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O15274|O43899|Q15593|Q15948|Q9NYR1|Q9NYR2|Q9UMZ0|Q9UNY3	Missense_Mutation	SNP	ENST00000220616.4	37	CCDS34944.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	16.81|16.81	3.226747|3.226747	0.58668|0.58668	.|.	.|.	ENSG00000042832|ENSG00000042832	ENST00000377869;ENST00000220616|ENST00000543313	D;D|.	0.87491|.	-2.26;-2.26|.	5.74|5.74	5.74|5.74	0.90152|0.90152	Thyroglobulin type-1 (6);|.	0.000000|.	0.64402|.	D|.	0.000001|.	T|T	0.73721|0.73721	0.3623|0.3623	M|M	0.75264|0.75264	2.295|2.295	0.80722|0.80722	D|D	1|1	D|.	0.89917|.	1.0|.	D|.	0.79108|.	0.992|.	T|T	0.74578|0.74578	-0.3619|-0.3619	10|5	0.87932|.	D|.	0|.	.|.	13.4199|13.4199	0.60992|0.60992	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	1108|.	P01266|.	THYG_HUMAN|.	R|P	1108|15	ENSP00000367100:C1108R;ENSP00000220616:C1108R|.	ENSP00000220616:C1108R|.	C|L	+|+	1|2	0|0	TG|TG	133980329|133980329	1.000000|1.000000	0.71417|0.71417	0.990000|0.990000	0.47175|0.47175	0.437000|0.437000	0.31866|0.31866	4.466000|4.466000	0.60148|0.60148	2.182000|2.182000	0.69389|0.69389	0.533000|0.533000	0.62120|0.62120	TGC|CTG		0.493	TG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379606.1	NM_003235		C	133911147	T	C	133911147	3	2	668	1	0	0	0	0	1	0	0	0	15825	1580	55	3	3376	3	TG	8	133911147	Missense_Mutation	SNP	T	TCGA-KN-8432-01A-11D-2310-10	33378011	133911147	12452875	65	42738										
BAI1	575	ucsc.edu;bcgsc.ca	37	chr8	143603450	143603450	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	cctccggaaccgcctcatccGcaagcgcttcctctgcctgg	9	19	2	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr8:143603450G>A	ENST00000517894.1	+	21	4043	c.3149G>A	c.(3148-3150)cGc>cAc	p.R1050H	BAI1_ENST00000323289.5_Missense_Mutation_p.R1050H			O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	1050					axonogenesis (GO:0007409)|cell adhesion (GO:0007155)|G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cell proliferation (GO:0008285)|neuropeptide signaling pathway (GO:0007218)|peripheral nervous system development (GO:0007422)|signal transduction (GO:0007165)	cell-cell junction (GO:0005911)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(2)|lung(28)|ovary(4)|pancreas(1)|prostate(7)	57	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)					CGCCTCATCCGCAAGCGCTTC	0.652																																																0													30	40	37					8																	143603450		2200	4299	6499	SO:0001583	missense	575			AB005297	CCDS64985.1	8q24.3	2014-08-08			ENSG00000181790	ENSG00000181790		"-", "GPCR / Class B : Orphans"	943	protein-coding gene	gene with protein product		602682				9533023	Standard	NM_001702		Approved		uc003ywm.3	O14514	OTTHUMG00000164732	ENST00000517894.1:c.3149G>A	8.37:g.143603450G>A	ENSP00000430945:p.Arg1050His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000517894.1	37		.	.	.	.	.	.	.	.	.	.	G	28.6	4.933063	0.92458	.	.	ENSG00000181790	ENST00000517894;ENST00000323289	T;T	0.39787	1.06;1.06	3.78	3.78	0.43462	.	0.156800	0.43110	U	0.000612	T	0.51024	0.1650	L	0.46947	1.48	0.58432	D	0.999997	D	0.60160	0.987	P	0.56648	0.803	T	0.57493	-0.7802	10	0.87932	D	0	.	14.6053	0.68475	0.0:0.0:1.0:0.0	.	1050	E9PBK0	.	H	1050	ENSP00000430945:R1050H;ENSP00000313046:R1050H	ENSP00000313046:R1050H	R	+	2	0	BAI1	143600452	1.000000	0.71417	1.000000	0.80357	0.919000	0.55068	7.618000	0.83043	1.641000	0.50575	0.305000	0.20034	CGC		0.652	BAI1-001	KNOWN	non_canonical_conserved|not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000379963.3	NM_001702		A	143603450	G	A	143603450	3	1	668	1	0	0	0	0	1	0	0	0	1298	1087	38	1	3227	1	BAI1	8	143603450	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10	9692303	143603450	2760572	66	42739										
TYRP1	7306	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr9	12695641	12695641	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gagatcagaagaaatactggGgccagatggcaacacgccac	12	10	1	4			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr9:12695641G>A	ENST00000388918.5	+	3	641	c.512G>A	c.(511-513)gGg>gAg	p.G171E	TYRP1_ENST00000381137.2_5'UTR|TYRP1_ENST00000381136.2_5'Flank	NM_000550.2	NP_000541.1	P17643	TYRP1_HUMAN	tyrosinase-related protein 1	171					acetoacetic acid metabolic process (GO:0043438)|melanin biosynthetic process (GO:0042438)|melanocyte differentiation (GO:0030318)|melanosome organization (GO:0032438)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endosome membrane (GO:0010008)|integral component of membrane (GO:0016021)|melanosome (GO:0042470)|melanosome membrane (GO:0033162)	copper ion binding (GO:0005507)|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 (GO:0016716)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)			NS(1)|endometrium(4)|kidney(2)|large_intestine(4)|lung(10)|stomach(1)	22		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)		GAAATACTGGGGCCAGATGGC	0.433									Oculocutaneous Albinism																																							0													110	104	106					9																	12695641		2203	4300	6503	SO:0001583	missense	7306	Familial Cancer Database		L33830	CCDS34990.1	9p23	2013-01-08			ENSG00000107165	ENSG00000107165			12450	protein-coding gene	gene with protein product		115501		TYRP, CAS2		9434945	Standard	NM_000550		Approved	GP75, CATB, TRP, b-PROTEIN, OCA3	uc003zkv.4	P17643	OTTHUMG00000021034	ENST00000388918.5:c.512G>A	9.37:g.12695641G>A	ENSP00000373570:p.Gly171Glu	Somatic		WXS	Illumina HiSeq	Phase_I	P78468|P78469|Q13721|Q15679	Missense_Mutation	SNP	ENST00000388918.5	37	CCDS34990.1	.	.	.	.	.	.	.	.	.	.	G	24.5	4.532938	0.85812	.	.	ENSG00000107165	ENST00000388918	D	0.85484	-1.99	5.5	5.5	0.81552	Uncharacterised domain, di-copper centre (2);	0.097018	0.64402	D	0.000001	D	0.90614	0.7057	M	0.83384	2.64	0.80722	D	1	D	0.54601	0.967	P	0.56434	0.798	D	0.91438	0.5171	10	0.72032	D	0.01	-9.7978	13.0431	0.58910	0.0739:0.0:0.9261:0.0	.	171	P17643	TYRP1_HUMAN	E	171	ENSP00000373570:G171E	ENSP00000373570:G171E	G	+	2	0	TYRP1	12685641	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	7.632000	0.83247	2.739000	0.93911	0.467000	0.42956	GGG		0.433	TYRP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055502.3	NM_000550		A	12695641	G	A	12695641	3	1	668	1	0	0	0	0	1	0	0	0	16828	1232	43	2	518	2	TYRP1	9	12695641	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10		12695641	128517790	67	42740										
PRSS3	5646	mdanderson.org	37	chr9	33797978	33797978	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tcaaactctcctcacctgccGtcatcaatgcccgcgtgtcc	6	18	5	0	rs145485932		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr9:33797978G>A	ENST00000361005.5	+	3	523	c.523G>A	c.(523-525)Gtc>Atc	p.V175I	PRSS3_ENST00000429677.3_Missense_Mutation_p.V111I|PRSS3_ENST00000379405.3_Missense_Mutation_p.V118I|RP11-133O22.6_ENST00000454429.2_RNA|PRSS3_ENST00000342836.4_Missense_Mutation_p.V132I	NM_007343.3	NP_031369	P35030	TRY3_HUMAN	protease, serine, 3	175	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|endothelial cell migration (GO:0043542)|innate immune response (GO:0045087)|proteolysis (GO:0006508)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)|zymogen activation (GO:0031638)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			large_intestine(3)|lung(4)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	13			LUSC - Lung squamous cell carcinoma(29;0.0176)			CTCACCTGCCGTCATCAATGC	0.562																																																0													252	190	211					9																	33797978		2203	4300	6503	SO:0001583	missense	5646				CCDS6545.1, CCDS47958.1, CCDS56570.1, CCDS56571.1	9p13	2010-05-07	2008-03-11		ENSG00000010438	ENSG00000010438	3.4.21.4	"Serine peptidases / Serine peptidases"	9486	protein-coding gene	gene with protein product	"mesotrypsin"	613578	"protease, serine, 4 (trypsin 4, brain)", "protease, serine, 3 (mesotrypsin)"	PRSS4		2326201, 8294000	Standard	NM_002771		Approved	TRY3, TRY4	uc003ztj.4	P35030	OTTHUMG00000019798	ENST00000361005.5:c.523G>A	9.37:g.33797978G>A	ENSP00000354280:p.Val175Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8CED1|A8CED3|A9Z1Y4|E7ES07|F8W7P3|P15951|Q15665|Q5VXV0|Q6ISJ4|Q9UQV3	Missense_Mutation	SNP	ENST00000361005.5	37	CCDS47958.1	13	0.005952380952380952	5	0.01016260162601626	4	0.011049723756906077	0	0.0	4	0.005277044854881266	G	9.092	1.002042	0.19121	.	.	ENSG00000010438	ENST00000361005;ENST00000457896;ENST00000342836;ENST00000429677;ENST00000379405	D;D;D;D;D	0.88509	-2.39;-2.39;-2.39;-2.39;-2.39	3.62	-4.24	0.03777	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	2.578480	0.00881	N	0.002127	T	0.75273	0.3827	L	0.28458	0.855	0.09310	N	1	B;B;B	0.06786	0.0;0.001;0.0	B;B;B	0.04013	0.0;0.001;0.0	T	0.63422	-0.6641	10	0.41790	T	0.15	.	4.242	0.10652	0.4472:0.0:0.3013:0.2515	.	118;175;132	P35030-3;P35030;P35030-4	.;TRY3_HUMAN;.	I	175;130;132;111;118	ENSP00000354280:V175I;ENSP00000401249:V130I;ENSP00000340889:V132I;ENSP00000401828:V111I;ENSP00000368715:V118I	ENSP00000340889:V132I	V	+	1	0	PRSS3	33787978	0.000000	0.05858	0.000000	0.03702	0.050000	0.14768	-2.290000	0.01148	-0.947000	0.03673	-0.643000	0.03959	GTC		0.562	PRSS3-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000052121.1	NM_002771		A	33797978	G	A	33797978	3	1	668	1	0	0	0	0	1	0	0	0	12632	1145	40	1	577	1	PRSS3	9	33797978	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10	21102337	33797978	107415453	68	42741										
CORO2A	7464	broad.mit.edu;bcgsc.ca	37	chr9	100888937	100888937	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ctgcccaccttggcatcttcTcctccaacagggaggaagac	9	15	2	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr9:100888937T>C	ENST00000343933.5	-	11	1597	c.1340A>G	c.(1339-1341)gAg>gGg	p.E447G	CORO2A_ENST00000375077.4_Missense_Mutation_p.E447G	NM_003389.3	NP_003380.3	Q92828	COR2A_HUMAN	coronin, actin binding protein, 2A	447					actin cytoskeleton organization (GO:0030036)|intracellular signal transduction (GO:0035556)	actin cytoskeleton (GO:0015629)|transcriptional repressor complex (GO:0017053)	actin filament binding (GO:0051015)			endometrium(2)|kidney(2)|large_intestine(8)|lung(7)|ovary(1)|pancreas(1)|skin(4)|urinary_tract(1)	26		Acute lymphoblastic leukemia(62;0.0559)				TGGCATCTTCTCCTCCAACAG	0.542																																																0													142	145	144					9																	100888937		2203	4300	6503	SO:0001583	missense	7464			U57057	CCDS6735.1	9q22.3	2013-01-10	2001-11-28		ENSG00000106789	ENSG00000106789		"Coronins", "WD repeat domain containing"	2255	protein-coding gene	gene with protein product	"coronin 2A", "coronin-like protein B", "WD protein IR10", "WD-repeat protein 2"	602159	"coronin, actin-binding protein, 2A"			8985118	Standard	NM_052820		Approved	IR10, WDR2	uc004aym.3	Q92828	OTTHUMG00000020340	ENST00000343933.5:c.1340A>G	9.37:g.100888937T>C	ENSP00000343746:p.Glu447Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TBR5|Q92829|Q9BWS5	Missense_Mutation	SNP	ENST00000343933.5	37	CCDS6735.1	.	.	.	.	.	.	.	.	.	.	T	8.352	0.831191	0.16820	.	.	ENSG00000106789	ENST00000343933;ENST00000375077	T;T	0.72835	-0.69;-0.69	5.36	1.71	0.24356	.	0.368808	0.29602	N	0.011696	T	0.59018	0.2163	L	0.52573	1.65	0.36267	D	0.854913	B;B	0.26318	0.146;0.146	B;B	0.24974	0.057;0.038	T	0.53294	-0.8459	10	0.27082	T	0.32	-17.8995	7.7838	0.29080	0.0:0.2385:0.0:0.7615	.	447;447	Q92828;A8K9S3	COR2A_HUMAN;.	G	447	ENSP00000343746:E447G;ENSP00000364218:E447G	ENSP00000343746:E447G	E	-	2	0	CORO2A	99928758	0.311000	0.24536	0.926000	0.36857	0.170000	0.22686	1.294000	0.33365	0.048000	0.15891	0.418000	0.28097	GAG		0.542	CORO2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053357.1	NM_003389		C	100888937	T	C	100888937	3	2	668	1	0	0	0	0	1	0	0	0	3758	1551	54	3	245	3	CORO2A	9	100888937	Missense_Mutation	SNP	T	TCGA-KN-8432-01A-11D-2310-10	67090959	100888937	40324494	69	42742										
RAD23B	5887	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	110068852	110068852	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	cttctgaacctgcacctgctAgtgcagctaaacaagagaag	9	11	1	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr9:110068852A>T	ENST00000358015.3	+	4	772	c.421A>T	c.(421-423)Agt>Tgt	p.S141C	RAD23B_ENST00000416373.2_Missense_Mutation_p.S69C	NM_001244713.1|NM_002874.4	NP_001231642.1|NP_002865.1	P54727	RD23B_HUMAN	RAD23 homolog B (S. cerevisiae)	141					DNA repair (GO:0006281)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair, DNA damage recognition (GO:0000715)|nucleotide-excision repair, DNA damage removal (GO:0000718)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032434)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|proteasome complex (GO:0000502)|XPC complex (GO:0071942)	damaged DNA binding (GO:0003684)|polyubiquitin binding (GO:0031593)|single-stranded DNA binding (GO:0003697)			breast(3)|cervix(1)|endometrium(1)|large_intestine(3)|lung(2)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	14						TGCACCTGCTAGTGCAGCTAA	0.552								Direct reversal of damage;Nucleotide excision repair (NER)																																								0													69	68	68					9																	110068852		2203	4300	6503	SO:0001583	missense	5887				CCDS6769.1, CCDS59138.1	9q31.2	2008-07-21	2001-11-28		ENSG00000119318	ENSG00000119318			9813	protein-coding gene	gene with protein product	"XP-C repair complementing protein", "XP-C repair complementing complex 58 kDa"	600062	"RAD23 (S. cerevisiae) homolog B"			7851894, 8168482	Standard	NM_002874		Approved	HHR23B, P58, HR23B	uc004bde.3	P54727	OTTHUMG00000020446	ENST00000358015.3:c.421A>T	9.37:g.110068852A>T	ENSP00000350708:p.Ser141Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWK8|G5E9P0|Q7Z5K8|Q8WUB0	Missense_Mutation	SNP	ENST00000358015.3	37	CCDS6769.1	.	.	.	.	.	.	.	.	.	.	A	19.41	3.821602	0.71028	.	.	ENSG00000119318	ENST00000419616;ENST00000358015;ENST00000374678;ENST00000416373	T;T;T	0.48836	0.8;2.16;2.12	5.61	3.31	0.37934	.	0.388826	0.31188	N	0.008099	T	0.43787	0.1263	L	0.47716	1.5	0.34108	D	0.662702	P;D;P	0.57257	0.454;0.979;0.454	B;P;B	0.46975	0.241;0.533;0.159	T	0.59941	-0.7359	10	0.66056	D	0.02	-12.6394	8.892	0.35439	0.8468:0.0:0.1532:0.0	.	120;141;141	B7Z4W4;B4DEA3;P54727	.;.;RD23B_HUMAN	C	141;141;69;69	ENSP00000416868:S141C;ENSP00000350708:S141C;ENSP00000405623:S69C	ENSP00000350708:S141C	S	+	1	0	RAD23B	109108673	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	3.045000	0.49838	0.969000	0.38237	0.460000	0.39030	AGT		0.552	RAD23B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053548.1	NM_002874		T	110068852	A	T	110068852	3	4	668	1	0	0	0	0	1	0	0	0	12996	420	15	5	435	5	RAD23B	9	110068852	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10	9179915	110068852	31144579	70	42743										
PITRM1	10531	bcgsc.ca	37	chr10	3186494	3186494	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tggttcttaccatgaccagcTtcctaatgacctgggagcca	9	12	1	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr10:3186494T>C	ENST00000224949.4	-	22	2556	c.2522A>G	c.(2521-2523)aAg>aGg	p.K841R	PITRM1_ENST00000451104.2_Missense_Mutation_p.K743R|PITRM1-AS1_ENST00000441377.1_RNA|PITRM1_ENST00000380994.1_Missense_Mutation_p.K399R|PITRM1_ENST00000380989.2_Missense_Mutation_p.K842R|PITRM1-AS1_ENST00000598280.1_RNA|PITRM1_ENST00000464395.1_5'UTR|PITRM1-AS1_ENST00000601046.1_RNA			Q5JRX3	PREP_HUMAN	pitrilysin metallopeptidase 1	841					positive regulation of catalytic activity (GO:0043085)|proteolysis (GO:0006508)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	enzyme activator activity (GO:0008047)|metal ion binding (GO:0046872)|metalloendopeptidase activity (GO:0004222)			breast(2)|cervix(1)|endometrium(2)|kidney(5)|large_intestine(5)|liver(1)|lung(5)|ovary(1)|pancreas(1)|prostate(4)|skin(1)|stomach(2)|urinary_tract(3)	33						CATGACCAGCTTCCTAATGAC	0.542																																																0													28	34	32					10																	3186494		1976	4136	6112	SO:0001583	missense	10531			AB029027	CCDS55699.1, CCDS55700.1, CCDS59208.1	10p15.2	2008-07-30	2005-08-17		ENSG00000107959	ENSG00000107959			17663	protein-coding gene	gene with protein product	"PreP peptidasome"		"pitrilysin metalloproteinase 1"			1036083, 10470851, 16849325	Standard	NM_014889		Approved	MP1, KIAA1104, hMP1, PreP	uc009xhv.2	Q5JRX3	OTTHUMG00000017557	ENST00000224949.4:c.2522A>G	10.37:g.3186494T>C	ENSP00000224949:p.Lys841Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B3KMJ6|B4E0J8|C9JSL2|E7ES23|O95204|Q2M2G6|Q4VBR1|Q5JRW7|Q7L5Z7|Q9BSI6|Q9BVJ5|Q9UPP8	Missense_Mutation	SNP	ENST00000224949.4	37	CCDS59208.1	.	.	.	.	.	.	.	.	.	.	t	9.334	1.061380	0.19987	.	.	ENSG00000107959	ENST00000224949;ENST00000380980;ENST00000380989;ENST00000380994;ENST00000451104;ENST00000455371;ENST00000424714	T;T;T;T;T;T	0.56275	3.12;3.12;3.12;3.12;1.72;0.47	4.63	3.49	0.39957	Peptidase M16, C-terminal (1);	0.095516	0.64402	D	0.000001	T	0.42539	0.1207	L	0.42245	1.32	0.36616	D	0.8755	B;B;B;B;B	0.26120	0.002;0.007;0.142;0.142;0.019	B;B;B;B;B	0.31686	0.007;0.021;0.134;0.134;0.038	T	0.40869	-0.9540	10	0.31617	T	0.26	-29.364	7.2853	0.26335	0.0:0.1041:0.0:0.8959	.	834;743;842;841;834	E9PDX6;E7ES23;C9JSL2;Q5JRX3;B4DH07	.;.;.;PREP_HUMAN;.	R	841;834;842;399;743;22;60	ENSP00000224949:K841R;ENSP00000370377:K842R;ENSP00000370382:K399R;ENSP00000401201:K743R;ENSP00000399307:K22R;ENSP00000402072:K60R	ENSP00000224949:K841R	K	-	2	0	PITRM1	3176494	1.000000	0.71417	0.962000	0.40283	0.031000	0.12232	1.381000	0.34362	0.880000	0.35969	0.379000	0.24179	AAG		0.542	PITRM1-007	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000046469.2			C	3186494	T	C	3186494	3	2	668	1	0	0	0	0	1	0	0	0	11960	1609	56	3	615	3	PITRM1	10	3186494	Missense_Mutation	SNP	T	TCGA-KN-8432-01A-11D-2310-10		3186494	132348253	71	42744										
FAM21C	253725	broad.mit.edu;mdanderson.org	37	chr10	46248632	46248632	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	accttatttcaaccagagtgAcctcttcacggaagcctccc	6	15	3	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr10:46248632A>G	ENST00000336378.4	+	13	1245	c.1127A>G	c.(1126-1128)gAc>gGc	p.D376G	FAM21C_ENST00000537517.1_Missense_Mutation_p.D352G|FAM21C_ENST00000374362.2_Missense_Mutation_p.D376G|FAM21C_ENST00000540872.1_Missense_Mutation_p.D376G|FAM21C_ENST00000359860.4_Missense_Mutation_p.D320G	NM_015262.2	NP_056077.2	Q9Y4E1	FA21C_HUMAN	family with sequence similarity 21, member C	376					retrograde transport, endosome to Golgi (GO:0042147)	early endosome (GO:0005769)|endosome (GO:0005768)|plasma membrane (GO:0005886)|WASH complex (GO:0071203)				central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(6)|lung(8)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	28						AACCAGAGTGACCTCTTCACG	0.473																																																0													37	40	39					10																	46248632		1230	3396	4626	SO:0001583	missense	253725				CCDS44374.1, CCDS44374.2, CCDS53528.1, CCDS53529.1	10q11.22	2014-05-09			ENSG00000172661	ENSG00000172661			23414	protein-coding gene	gene with protein product		613631				20498093	Standard	NM_015262		Approved	Em:AC012044.3, KIAA0592	uc001jcu.3	Q9Y4E1	OTTHUMG00000018089	ENST00000336378.4:c.1127A>G	10.37:g.46248632A>G	ENSP00000337541:p.Asp376Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZQ6|B9EK53|F5H0J6|F5H871|Q5SQU4|Q5SQU5|Q7L521|Q9UG79	Missense_Mutation	SNP	ENST00000336378.4	37		.	.	.	.	.	.	.	.	.	.	A	16.46	3.128197	0.56721	.	.	ENSG00000172661	ENST00000336378;ENST00000540872;ENST00000537517;ENST00000374362;ENST00000399588;ENST00000359860;ENST00000436993	.	.	.	3.23	3.23	0.37069	.	0.000000	0.85682	D	0.000000	T	0.69593	0.3128	M	0.71581	2.175	0.50813	D	0.999894	D;D;D;D	0.89917	0.998;1.0;1.0;1.0	D;D;D;D	0.97110	0.995;1.0;1.0;0.999	T	0.67998	-0.5525	9	0.37606	T	0.19	-18.0159	8.1116	0.30917	1.0:0.0:0.0:0.0	.	352;376;376;321	F5H871;Q9Y4E1-4;Q9Y4E1;Q9Y4E1-3	.;.;FA21C_HUMAN;.	G	376;376;352;376;376;320;288	.	ENSP00000337541:D376G	D	+	2	0	FAM21C	45568638	1.000000	0.71417	1.000000	0.80357	0.946000	0.59487	3.870000	0.56070	1.486000	0.48398	0.491000	0.48974	GAC		0.473	FAM21C-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding				G	46248632	A	G	46248632	3	3	668	1	0	0	0	0	1	0	0	0	5546	275	10	3	1177	3	FAM21C	10	46248632	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10	43062138	46248632	89286115	72	42745										
PLCE1	51196	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr10	95891977	95891977	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	aacagaaaatacagttggatCtctactccatttcctcacca	4	12	2	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr10:95891977C>T	ENST00000371380.3	+	2	1488	c.1253C>T	c.(1252-1254)tCt>tTt	p.S418F	PLCE1_ENST00000371385.3_Missense_Mutation_p.S110F|PLCE1_ENST00000260766.3_Missense_Mutation_p.S418F|PLCE1_ENST00000371375.1_Missense_Mutation_p.S110F			Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1	418					activation of MAPK activity (GO:0000187)|calcium-mediated signaling (GO:0019722)|cell proliferation (GO:0008283)|cytoskeleton organization (GO:0007010)|diacylglycerol biosynthetic process (GO:0006651)|epidermal growth factor receptor signaling pathway (GO:0007173)|glomerulus development (GO:0032835)|heart development (GO:0007507)|inositol phosphate metabolic process (GO:0043647)|inositol phosphate-mediated signaling (GO:0048016)|lipid catabolic process (GO:0016042)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|phospholipid metabolic process (GO:0006644)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of GTPase activity (GO:0043547)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|Ras protein signal transduction (GO:0007265)|regulation of cell growth (GO:0001558)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|regulation of protein kinase activity (GO:0045859)|regulation of Ras protein signal transduction (GO:0046578)|regulation of smooth muscle contraction (GO:0006940)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|enzyme binding (GO:0019899)|guanyl-nucleotide exchange factor activity (GO:0005085)|phosphatidylinositol phospholipase C activity (GO:0004435)|phospholipase C activity (GO:0004629)|Ras GTPase binding (GO:0017016)|receptor signaling protein activity (GO:0005057)			liver(1)|ovary(2)|skin(4)|upper_aerodigestive_tract(1)	8		Colorectal(252;0.0458)				ACAGTTGGATCTCTACTCCAT	0.428																																																0													131	133	133					10																	95891977		2003	4165	6168	SO:0001583	missense	51196				CCDS41552.1, CCDS53555.1	10q23	2010-02-22			ENSG00000138193	ENSG00000138193	3.1.4.11		17175	protein-coding gene	gene with protein product	"nephrosis type 3"	608414				11022047, 11022048	Standard	NM_016341		Approved	KIAA1516, PLCE, NPHS3	uc001kjk.3	Q9P212	OTTHUMG00000018789	ENST00000371380.3:c.1253C>T	10.37:g.95891977C>T	ENSP00000360431:p.Ser418Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGW0|A6NLA1|A7MBN7|A8K1D7|B9EIJ6|Q1X6H8|Q5VWL4|Q5VWL5|Q9H9X8|Q9HBX6|Q9HC53|Q9UHV3	Missense_Mutation	SNP	ENST00000371380.3	37	CCDS41552.1	.	.	.	.	.	.	.	.	.	.	C	13.17	2.157637	0.38119	.	.	ENSG00000138193	ENST00000260766;ENST00000371380;ENST00000371385;ENST00000371375	T;T;T;T	0.72725	-0.68;-0.68;-0.68;-0.68	5.08	4.11	0.48088	Ras guanine nucleotide exchange factor, domain (1);	0.773966	0.11722	N	0.535812	T	0.51041	0.1651	N	0.24115	0.695	0.29947	N	0.820542	B;B;B	0.14438	0.003;0.01;0.001	B;B;B	0.13407	0.002;0.009;0.002	T	0.43523	-0.9386	10	0.10902	T	0.67	.	6.5663	0.22513	0.2799:0.6291:0.0:0.091	.	418;110;418	B7ZM61;Q9P212-2;Q9P212	.;.;PLCE1_HUMAN	F	418;418;110;110	ENSP00000260766:S418F;ENSP00000360431:S418F;ENSP00000360438:S110F;ENSP00000360426:S110F	ENSP00000260766:S418F	S	+	2	0	PLCE1	95881967	0.999000	0.42202	1.000000	0.80357	0.926000	0.56050	1.272000	0.33109	2.512000	0.84698	0.563000	0.77884	TCT		0.428	PLCE1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049469.3	NM_016341		T	95891977	C	T	95891977	3	4	668	1	0	0	0	0	1	0	0	0	12041	913	32	2	1545	2	PLCE1	10	95891977	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	49643345	95891977	39642770	73	42746										
UBQLN3	50613	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	5530008	5530008	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gttaagcattgggtccataaTatctgtgtacatagtgcaaa	9	6	1	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr11:5530008T>C	ENST00000311659.4	-	2	928	c.781A>G	c.(781-783)Att>Gtt	p.I261V	HBG2_ENST00000380259.2_Intron	NM_017481.2	NP_059509.1	Q9H347	UBQL3_HUMAN	ubiquilin 3	261										NS(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(16)|ovary(4)|prostate(1)|skin(2)	39		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)		GGGTCCATAATATCTGTGTAC	0.517																																					Ovarian(72;684 1260 12332 41642 52180)											0													112	101	105					11																	5530008		2201	4297	6498	SO:0001583	missense	50613			AF230481	CCDS7758.1	11p15	2013-02-12			ENSG00000175520	ENSG00000175520		"Ubiquilin family"	12510	protein-coding gene	gene with protein product		605473				10831842	Standard	NM_017481		Approved	TUP-1	uc001may.1	Q9H347	OTTHUMG00000066886	ENST00000311659.4:c.781A>G	11.37:g.5530008T>C	ENSP00000347997:p.Ile261Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NRE0	Missense_Mutation	SNP	ENST00000311659.4	37	CCDS7758.1	.	.	.	.	.	.	.	.	.	.	t	13.37	2.216064	0.39201	.	.	ENSG00000175520	ENST00000311659	T	0.35789	1.29	5.63	4.49	0.54785	.	0.149702	0.30901	N	0.008646	T	0.22627	0.0546	N	0.16656	0.425	0.32801	D	0.500105	B	0.10296	0.003	B	0.12837	0.008	T	0.17379	-1.0371	10	0.45353	T	0.12	-9.1027	10.2748	0.43504	0.0:0.0823:0.0:0.9177	.	261	Q9H347	UBQL3_HUMAN	V	261	ENSP00000347997:I261V	ENSP00000347997:I261V	I	-	1	0	UBQLN3	5486584	0.997000	0.39634	1.000000	0.80357	0.980000	0.70556	1.572000	0.36461	2.262000	0.75019	0.478000	0.44815	ATT		0.517	UBQLN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000143348.1	NM_017481		C	5530008	T	C	5530008	3	2	668	1	0	0	0	0	1	0	0	0	16910	1406	49	3	1190	3	UBQLN3	11	5530008	Missense_Mutation	SNP	T	TCGA-KN-8432-01A-11D-2310-10		5530008	129476508	74	42747										
OR52N1	79473	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	5809593	5809593	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	aacaagcatcacacccctaaGaaaagtgaggaacccagctt	7	12	1	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr11:5809593G>A	ENST00000317078.1	-	1	453	c.454C>T	c.(454-456)Ctt>Ttt	p.L152F	TRIM5_ENST00000380027.1_Intron	NM_001001913.1	NP_001001913.1	Q8NH53	O52N1_HUMAN	olfactory receptor, family 52, subfamily N, member 1	152						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(2)|large_intestine(6)|lung(15)|prostate(2)|skin(3)	31		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.05e-11)|LUSC - Lung squamous cell carcinoma(625;0.112)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.195)		ACACCCCTAAGAAAAGTGAGG	0.522																																																0													121	104	110					11																	5809593		2201	4296	6497	SO:0001583	missense	79473			AB065538	CCDS31398.1	11p15.4	2012-08-09			ENSG00000181001	ENSG00000181001		"GPCR / Class A : Olfactory receptors"	14853	protein-coding gene	gene with protein product							Standard	NM_001001913		Approved		uc010qzo.2	Q8NH53	OTTHUMG00000168800	ENST00000317078.1:c.454C>T	11.37:g.5809593G>A	ENSP00000322823:p.Leu152Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFF6	Missense_Mutation	SNP	ENST00000317078.1	37	CCDS31398.1	.	.	.	.	.	.	.	.	.	.	G	1.194	-0.634327	0.03584	.	.	ENSG00000181001	ENST00000317078	T	0.41758	0.99	4.59	2.53	0.30540	GPCR, rhodopsin-like superfamily (1);	0.498524	0.16680	N	0.203974	T	0.33352	0.0860	L	0.48877	1.53	0.09310	N	1	B	0.18968	0.032	B	0.27170	0.077	T	0.25187	-1.0139	10	0.35671	T	0.21	.	5.4489	0.16552	0.1029:0.0:0.4403:0.4568	.	152	Q8NH53	O52N1_HUMAN	F	152	ENSP00000322823:L152F	ENSP00000322823:L152F	L	-	1	0	OR52N1	5766169	0.000000	0.05858	0.033000	0.17914	0.082000	0.17680	-2.660000	0.00851	0.531000	0.28639	-0.466000	0.05196	CTT		0.522	OR52N1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401142.1	NM_001001913		A	5809593	G	A	5809593	3	1	668	1	0	0	0	0	1	0	0	0	11134	942	33	2	511	2	OR52N1	11	5809593	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10	279585	5809593	129196923	75	42748										
OR1S2	219958	mdanderson.org	37	chr11	57970981	57970981	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ataggagaagaagatgagtaCaaaggggaagatgataactg	14	2	0	6	rs11229278|rs34249289	byFrequency	TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr11:57970981C>T	ENST00000302592.6	-	1	672	c.673G>A	c.(673-675)Gta>Ata	p.V225I		NM_001004459.1	NP_001004459.1	Q8NGQ3	OR1S2_HUMAN	olfactory receptor, family 1, subfamily S, member 2	225			V -> A (in dbSNP:rs11229277).|V -> I (in dbSNP:rs11229278).			integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(11)|kidney(1)|large_intestine(4)|lung(23)|ovary(2)|skin(2)|stomach(2)|urinary_tract(1)	46		Breast(21;0.0589)				AAGATGAGTACAAAGGGGAAG	0.458													C|||	426	0.0850639	0.0265	0.1138	5008	,	,		23191	0.0556		0.1083	False		,,,				2504	0.1503															0													165	137	146					11																	57970981		2201	4296	6497	SO:0001583	missense	219958			BK004297	CCDS31545.1	11q12.1	2012-08-09			ENSG00000197887	ENSG00000197887		"GPCR / Class A : Olfactory receptors"	15141	protein-coding gene	gene with protein product							Standard	NM_001004459		Approved		uc010rkb.2	Q8NGQ3	OTTHUMG00000167541	ENST00000302592.6:c.673G>A	11.37:g.57970981C>T	ENSP00000305469:p.Val225Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFG5|Q96R85	Missense_Mutation	SNP	ENST00000302592.6	37	CCDS31545.1	109	0.04990842490842491	13	0.026422764227642278	27	0.07458563535911603	19	0.033216783216783216	50	0.06596306068601583	C	0.180	-1.063021	0.01950	.	.	ENSG00000197887	ENST00000302592	T	0.36699	1.24	4.75	2.83	0.33086	GPCR, rhodopsin-like superfamily (1);	0.471664	0.17897	N	0.158338	T	0.01387	0.0045	N	0.05383	-0.06	0.80722	P	0.0	B	0.14805	0.011	B	0.23852	0.049	T	0.12426	-1.0548	9	0.17369	T	0.5	.	12.7854	0.57502	0.2978:0.7022:0.0:0.0	rs11229278;rs52811080;rs11229278	225	Q8NGQ3	OR1S2_HUMAN	I	225	ENSP00000305469:V225I	ENSP00000305469:V225I	V	-	1	0	OR1S2	57727557	0.000000	0.05858	0.426000	0.26672	0.853000	0.48598	-1.185000	0.03073	0.691000	0.31592	0.655000	0.94253	GTA		0.458	OR1S2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394703.2	NM_001004459		T	57970981	C	T	57970981	3	4	668	1	0	0	0	0	1	0	0	0	10980	478	17	2	307	2	OR1S2	11	57970981	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	52161388	57970981	77035535	76	42749										
FERMT3	83706	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	63988121	63988121	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tcgttgccccccgtttccagCgaaagttcaaggccaagcag	10	14	1	0	rs121918295		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr11:63988121C>T	ENST00000279227.5	+	12	1632	c.1537C>T	c.(1537-1539)Cga>Tga	p.R513*	FERMT3_ENST00000345728.5_Nonsense_Mutation_p.R509*	NM_178443.2	NP_848537.1	Q86UX7	URP2_HUMAN	fermitin family member 3	513	FERM.				integrin activation (GO:0033622)|integrin-mediated signaling pathway (GO:0007229)|leukocyte cell-cell adhesion (GO:0007159)|platelet aggregation (GO:0070527)|regulation of cell-cell adhesion mediated by integrin (GO:0033632)|substrate adhesion-dependent cell spreading (GO:0034446)	cell junction (GO:0030054)|cell projection (GO:0042995)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|podosome (GO:0002102)	integrin binding (GO:0005178)			breast(1)|cervix(1)|endometrium(4)|large_intestine(2)|lung(6)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	18						CCGTTTCCAGCGAAAGTTCAA	0.652																																																0													15	14	14					11																	63988121		2195	4291	6486	SO:0001587	stop_gained	83706			L25343	CCDS8059.1, CCDS8060.1	11q13.1	2014-09-17	2010-06-24		ENSG00000149781	ENSG00000149781		"Fermitins", "Pleckstrin homology (PH) domain containing"	23151	protein-coding gene	gene with protein product	"kindlin-3"	607901	"fermitin family homolog 3 (Drosophila)"				Standard	NM_178443		Approved	URP2, KIND3, MIG2B, MGC10966, MIG-2, UNC112C	uc001nym.2	Q86UX7	OTTHUMG00000167790	ENST00000279227.5:c.1537C>T	11.37:g.63988121C>T	ENSP00000279227:p.Arg513*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUA1|Q8N207|Q9BT48	Nonsense_Mutation	SNP	ENST00000279227.5	37	CCDS8060.1	.	.	.	.	.	.	.	.	.	.	C	36	5.881654	0.97062	.	.	ENSG00000149781	ENST00000345728;ENST00000279227	.	.	.	4.21	3.29	0.37713	.	0.071181	0.53938	D	0.000043	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.14656	T	0.56	-14.009	10.2263	0.43227	0.4891:0.5109:0.0:0.0	.	.	.	.	X	509;513	.	ENSP00000279227:R513X	R	+	1	2	FERMT3	63744697	1.000000	0.71417	0.995000	0.50966	0.878000	0.50629	3.997000	0.57016	1.108000	0.41662	0.491000	0.48974	CGA		0.652	FERMT3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000396297.1	NM_031471		T	63988121	C	T	63988121	4	4	668	1	0	0	0	0	0	1	0	0	5826	760	27	1	1579	1	FERMT3	11	63988121	Nonsense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	6017140	63988121	71018395	77	42750										
ATG2A	23130	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	64676833	64676833	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gtggcttccctccatcttcaTagatacctggagggggatgg	13	10	2	1	rs148849835		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr11:64676833T>C	ENST00000377264.3	-	15	2226	c.2114A>G	c.(2113-2115)tAt>tGt	p.Y705C	ATG2A_ENST00000421419.2_Missense_Mutation_p.Y705C	NM_015104.2	NP_055919.2	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	705					autophagic vacuole assembly (GO:0000045)|cellular response to nitrogen starvation (GO:0006995)|mitochondrion degradation (GO:0000422)|nucleophagy (GO:0044804)	extrinsic component of membrane (GO:0019898)|lipid particle (GO:0005811)|pre-autophagosomal structure (GO:0000407)				breast(3)|central_nervous_system(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(19)|ovary(3)|prostate(5)|skin(1)|stomach(1)|urinary_tract(3)	55						TCCATCTTCATAGATACCTGG	0.587																																																0													42	41	41					11																	64676833		2201	4295	6496	SO:0001583	missense	23130				CCDS31602.1	11q13.1	2014-02-12	2012-06-06		ENSG00000110046	ENSG00000110046			29028	protein-coding gene	gene with protein product			"ATG2 autophagy related 2 homolog A (S. cerevisiae)"			21887408	Standard	NM_015104		Approved	KIAA0404	uc001obx.3	Q2TAZ0	OTTHUMG00000066831	ENST00000377264.3:c.2114A>G	11.37:g.64676833T>C	ENSP00000366475:p.Tyr705Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O43154|Q14DM2|Q6ZTV2|Q7Z6K8|Q8IVY5|Q8TAI8|Q96HH7	Missense_Mutation	SNP	ENST00000377264.3	37	CCDS31602.1	.	.	.	.	.	.	.	.	.	.	T	16.85	3.235828	0.58886	.	.	ENSG00000110046	ENST00000421419;ENST00000377264	T;T	0.11063	2.81;2.81	5.3	5.3	0.74995	.	0.325293	0.29722	N	0.011371	T	0.27765	0.0683	L	0.55481	1.735	0.52099	D	0.999942	D	0.76494	0.999	D	0.73380	0.98	T	0.00807	-1.1558	10	0.87932	D	0	.	13.511	0.61513	0.0:0.0:0.0:1.0	.	705	Q2TAZ0	ATG2A_HUMAN	C	705	ENSP00000410522:Y705C;ENSP00000366475:Y705C	ENSP00000366475:Y705C	Y	-	2	0	ATG2A	64433409	0.966000	0.33281	0.468000	0.27192	0.753000	0.42808	1.740000	0.38228	2.129000	0.65627	0.533000	0.62120	TAT		0.587	ATG2A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000143224.1	NM_015104		C	64676833	T	C	64676833	3	2	668	1	0	0	0	0	1	0	0	0	1093	1406	49	3	3810	3	ATG2A	11	64676833	Missense_Mutation	SNP	T	TCGA-KN-8432-01A-11D-2310-10	688712	64676833	70329683	78	42751										
FLI1	2313	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr11	128679073	128679073	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tccgtatcagatcctgggccCgaccagcagtcgcctagcca	10	16	1	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr11:128679073C>T	ENST00000527786.2	+	8	1292	c.803C>T	c.(802-804)cCg>cTg	p.P268L	FLI1_ENST00000281428.8_Missense_Mutation_p.P202L|FLI1_ENST00000525560.1_Missense_Mutation_p.P75L|FLI1_ENST00000344954.6_Missense_Mutation_p.P235L|FLI1_ENST00000534087.2_Missense_Mutation_p.P235L	NM_001271010.1|NM_002017.4	NP_001257939.1|NP_002008.2	Q01543	FLI1_HUMAN	Fli-1 proto-oncogene, ETS transcription factor	268					blood circulation (GO:0008015)|cell differentiation (GO:0030154)|hemostasis (GO:0007599)|megakaryocyte development (GO:0035855)|organ morphogenesis (GO:0009887)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)		EWSR1/FLI1(2569)	NS(1)|central_nervous_system(2)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(14)|ovary(3)|prostate(2)	31	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)		ATCCTGGGCCCGACCAGCAGT	0.423			T	EWSR1	Ewing sarcoma																																		Dom	yes		11	11q24	2313	Friend leukemia virus integration 1		M	0													86	84	84					11																	128679073		1841	4087	5928	SO:0001583	missense	2313			M98833	CCDS44768.1, CCDS53725.1, CCDS59230.1, CCDS59231.1	11q24.1-q24.3	2014-09-17	2013-08-07		ENSG00000151702	ENSG00000151702			3749	protein-coding gene	gene with protein product		193067	"Friend leukemia virus integration 1"			1765382	Standard	NM_001167681		Approved	SIC-1, EWSR2	uc010sbu.2	Q01543	OTTHUMG00000165792	ENST00000527786.2:c.803C>T	11.37:g.128679073C>T	ENSP00000433488:p.Pro268Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8H2|B4DFV4|B4DTC6|G3V183|Q14319|Q92480|Q9UE07	Missense_Mutation	SNP	ENST00000527786.2	37	CCDS44768.1	.	.	.	.	.	.	.	.	.	.	C	25.5	4.643889	0.87859	.	.	ENSG00000151702	ENST00000525560;ENST00000344954;ENST00000429175;ENST00000534087;ENST00000281428	T;T;T;T;T	0.26810	1.71;2.25;2.26;2.25;2.26	5.69	5.69	0.88448	Winged helix-turn-helix transcription repressor DNA-binding (1);	0.000000	0.85682	D	0.000000	T	0.41511	0.1162	M	0.74647	2.275	0.80722	D	1	P;D;D	0.57257	0.953;0.979;0.971	B;B;P	0.47573	0.348;0.406;0.55	T	0.41574	-0.9501	10	0.66056	D	0.02	.	19.8045	0.96525	0.0:1.0:0.0:0.0	.	268;75;202	Q01543;B4DFV4;Q01543-2	FLI1_HUMAN;.;.	L	75;235;268;235;202	ENSP00000437124:P75L;ENSP00000339627:P235L;ENSP00000399985:P268L;ENSP00000432950:P235L;ENSP00000281428:P202L	ENSP00000281428:P202L	P	+	2	0	FLI1	128184283	1.000000	0.71417	0.944000	0.38274	0.991000	0.79684	7.722000	0.84778	2.676000	0.91093	0.655000	0.94253	CCG		0.423	FLI1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386226.2	NM_002017		T	128679073	C	T	128679073	3	4	668	1	0	0	0	0	1	0	0	0	5931	652	23	1	833	1	FLI1	11	128679073	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	64002240	128679073	6327443	79	42752										
TAS2R30	259293	broad.mit.edu	37	chr12	11286136	11286137	+	Frame_Shift_Ins	INS	-	-	A													0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gaaagtaaatggcacataacINSagaagaaaggaggtcacagt							TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr12:11286136_11286137insA	ENST00000539585.1	-	1	1106_1107	c.707_708insT	c.(706-708)ctgfs	p.L236fs	PRR4_ENST00000536668.1_Intron|TAS2R14_ENST00000381852.4_Intron	NM_001097643.1	NP_001091112.1	P59541	T2R30_HUMAN	taste receptor, type 2, member 30	236					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			autonomic_ganglia(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(4)|skin(1)	13						TGGCACATAACAGAAGAAAGGA	0.411																																																0																																										SO:0001589	frameshift_variant	259293			AX097746, AF494233	CCDS53750.1	12p13.2	2012-08-22				ENSG00000256188		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19112	protein-coding gene	gene with protein product		613963	"taste receptor, type 2, member 47"	TAS2R47			Standard	NM_001097643		Approved	T2R30	uc009zhs.1	P59541		ENST00000539585.1:c.708dupT	12.37:g.11286137_11286137dupA	ENSP00000444736:p.Leu236fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q645X7	Frame_Shift_Ins	INS	ENST00000539585.1	37	CCDS53750.1																																																																																				0.411	TAS2R30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400238.1	NM_001097643		A	11286137	-	A	11286136	7	5	668	1	0	1	1	0	0	0	0	0	15585	465	17	0	255	0	TAS2R30	12	11286136	Frame_Shift_Ins	INS	-	TCGA-KN-8432-01A-11D-2310-10		11286136	122565759	80	42753										
SLC38A1	81539	broad.mit.edu	37	chr12	46633473	46633473	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	aatactcacctatttatctgAccattttctacttcggtgaa	4	10	3	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr12:46633473A>G	ENST00000398637.5	-	3	805	c.111T>C	c.(109-111)ggT>ggC	p.G37G	SLC38A1_ENST00000439706.1_Silent_p.G37G|SLC38A1_ENST00000552197.1_Silent_p.G37G|SLC38A1_ENST00000549633.1_Intron|SLC38A1_ENST00000546893.1_Silent_p.G37G|SLC38A1_ENST00000549049.1_Silent_p.G37G	NM_001077484.1|NM_001278387.1|NM_001278388.1|NM_001278389.1|NM_030674.3	NP_001070952.1|NP_001265316.1|NP_001265317.1|NP_001265318.1|NP_109599.3	Q9H2H9	S38A1_HUMAN	solute carrier family 38, member 1	37					amino acid transmembrane transport (GO:0003333)|amino acid transport (GO:0006865)|ion transport (GO:0006811)|neurotransmitter uptake (GO:0001504)|neutral amino acid transport (GO:0015804)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	neutral amino acid transmembrane transporter activity (GO:0015175)|sodium:amino acid symporter activity (GO:0005283)			NS(2)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(7)|ovary(2)|prostate(1)|skin(2)	23	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)			TATTTATCTGACCATTTTCTA	0.418																																																0													151	140	144					12																	46633473		1874	4124	5998	SO:0001819	synonymous_variant	81539			AF271070	CCDS41774.1, CCDS61106.1	12q13.11	2013-05-22				ENSG00000111371		"Solute carriers"	13447	protein-coding gene	gene with protein product		608490				10891391	Standard	NM_030674		Approved	ATA1, NAT2, SAT1	uc001rpc.3	Q9H2H9		ENST00000398637.5:c.111T>C	12.37:g.46633473A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC61|Q8NCF8|Q96JX2|Q9H2Q2	Silent	SNP	ENST00000398637.5	37	CCDS41774.1																																																																																				0.418	SLC38A1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404218.2			G	46633473	A	G	46633473	2	3	668	1	0	0	0	0	0	0	0	1	14614	262	10	3		3	SLC38A1	12	46633473	Silent	SNP	A	TCGA-KN-8432-01A-11D-2310-10	35347337	46633473	87218422	81	42754										
WNT1	7471	broad.mit.edu;hgsc.bcm.edu	37	chr12	49373357	49373365	+	In_Frame_Del	DEL	CTGATACGC	CTGATACGC	-													0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tgagccgcaaacagcggcgtCtgatacgccaaaatccgggg							TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	CTGATACGC	CTGATACGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr12:49373357_49373365delCTGATACGC	ENST00000293549.3	+	2	247_255	c.211_219delCTGATACGC	c.(211-219)ctgatacgcdel	p.LIR71del		NM_005430.3	NP_005421.1	P04628	WNT1_HUMAN	wingless-type MMTV integration site family, member 1	71					bone development (GO:0060348)|branching involved in ureteric bud morphogenesis (GO:0001658)|canonical Wnt signaling pathway (GO:0060070)|canonical Wnt signaling pathway involved in negative regulation of apoptotic process (GO:0044336)|cell fate commitment (GO:0045165)|cell-cell signaling (GO:0007267)|cellular response to peptide hormone stimulus (GO:0071375)|central nervous system morphogenesis (GO:0021551)|cerebellum formation (GO:0021588)|diencephalon development (GO:0021536)|embryonic axis specification (GO:0000578)|forebrain anterior/posterior pattern specification (GO:0021797)|hematopoietic stem cell proliferation (GO:0071425)|hepatocyte differentiation (GO:0070365)|inner ear morphogenesis (GO:0042472)|midbrain development (GO:0030901)|midbrain-hindbrain boundary maturation during brain development (GO:0022004)|myoblast fusion (GO:0007520)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of cell aging (GO:0090344)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-substrate adhesion (GO:0010812)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000059)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron differentiation (GO:0030182)|neuron fate determination (GO:0048664)|organ regeneration (GO:0031100)|positive regulation of cell proliferation (GO:0008284)|positive regulation of dermatome development (GO:0061184)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of insulin-like growth factor receptor signaling pathway (GO:0043568)|positive regulation of lamellipodium assembly (GO:0010592)|positive regulation of Notch signaling pathway (GO:0045747)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|response to wounding (GO:0009611)|signal transduction in response to DNA damage (GO:0042770)|Spemann organizer formation (GO:0060061)|spinal cord association neuron differentiation (GO:0021527)|T cell differentiation in thymus (GO:0033077)|ubiquitin-dependent SMAD protein catabolic process (GO:0030579)|Wnt signaling pathway (GO:0016055)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi lumen (GO:0005796)|plasma membrane (GO:0005886)|proteinaceous extracellular matrix (GO:0005578)	cytokine activity (GO:0005125)|frizzled binding (GO:0005109)|receptor agonist activity (GO:0048018)|transcription regulatory region DNA binding (GO:0044212)			endometrium(1)|kidney(1)|large_intestine(1)|lung(7)|prostate(1)	11				BRCA - Breast invasive adenocarcinoma(357;0.244)		ACAGCGGCGTCTGATACGCCAAAATCCGG	0.603																																																0																																										SO:0001651	inframe_deletion	7471			X03072	CCDS8776.1	12q13	2013-02-28				ENSG00000125084		"Wingless-type MMTV integration sites", "Endogenous ligands"	12774	protein-coding gene	gene with protein product		164820		INT1		2998762, 3281802	Standard	NM_005430		Approved		uc001rsu.3	P04628	OTTHUMG00000170403	ENST00000293549.3:c.211_219delCTGATACGC	12.37:g.49373357_49373365delCTGATACGC	ENSP00000293549:p.Leu71_Arg73del	Somatic		WXS	Illumina HiSeq	Phase_I	Q5U0N2	In_Frame_Del	DEL	ENST00000293549.3	37	CCDS8776.1																																																																																				0.603	WNT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408937.1			-	49373365	CTGATACGC	-	49373357	7	5	668	1	0	1	0	1	0	0	0	0	17393	912	32	0	217	0	WNT1	12	49373357	In_Frame_Del	DEL	CTGATACGC	TCGA-KN-8432-01A-11D-2310-10	2739884	49373357	84478538	82	42755	413	2								
WNT1	7471	bcgsc.ca	37	chr12	49373358	49373366	+	In_Frame_Del	DEL	CTGATACGC	CTGATACGC	-													0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gagccgcaaacagcggcgtcTgatacgccaaaatccgggga							TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	CTGATACGC	CTGATACGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr12:49373358_49373366delCTGATACGC	ENST00000293549.3	+	2	248_256	c.212_220delCTGATACGC	c.(211-222)cctgatacgcaa>caa	p.PDT71del		NM_005430.3	NP_005421.1	P04628	WNT1_HUMAN	wingless-type MMTV integration site family, member 1	71					bone development (GO:0060348)|branching involved in ureteric bud morphogenesis (GO:0001658)|canonical Wnt signaling pathway (GO:0060070)|canonical Wnt signaling pathway involved in negative regulation of apoptotic process (GO:0044336)|cell fate commitment (GO:0045165)|cell-cell signaling (GO:0007267)|cellular response to peptide hormone stimulus (GO:0071375)|central nervous system morphogenesis (GO:0021551)|cerebellum formation (GO:0021588)|diencephalon development (GO:0021536)|embryonic axis specification (GO:0000578)|forebrain anterior/posterior pattern specification (GO:0021797)|hematopoietic stem cell proliferation (GO:0071425)|hepatocyte differentiation (GO:0070365)|inner ear morphogenesis (GO:0042472)|midbrain development (GO:0030901)|midbrain-hindbrain boundary maturation during brain development (GO:0022004)|myoblast fusion (GO:0007520)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of cell aging (GO:0090344)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-substrate adhesion (GO:0010812)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000059)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron differentiation (GO:0030182)|neuron fate determination (GO:0048664)|organ regeneration (GO:0031100)|positive regulation of cell proliferation (GO:0008284)|positive regulation of dermatome development (GO:0061184)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of insulin-like growth factor receptor signaling pathway (GO:0043568)|positive regulation of lamellipodium assembly (GO:0010592)|positive regulation of Notch signaling pathway (GO:0045747)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|response to wounding (GO:0009611)|signal transduction in response to DNA damage (GO:0042770)|Spemann organizer formation (GO:0060061)|spinal cord association neuron differentiation (GO:0021527)|T cell differentiation in thymus (GO:0033077)|ubiquitin-dependent SMAD protein catabolic process (GO:0030579)|Wnt signaling pathway (GO:0016055)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi lumen (GO:0005796)|plasma membrane (GO:0005886)|proteinaceous extracellular matrix (GO:0005578)	cytokine activity (GO:0005125)|frizzled binding (GO:0005109)|receptor agonist activity (GO:0048018)|transcription regulatory region DNA binding (GO:0044212)			endometrium(1)|kidney(1)|large_intestine(1)|lung(7)|prostate(1)	11				BRCA - Breast invasive adenocarcinoma(357;0.244)		CAGCGGCGTCTGATACGCCAAAATCCGGG	0.608																																																0																																										SO:0001651	inframe_deletion	7471			X03072	CCDS8776.1	12q13	2013-02-28				ENSG00000125084		"Wingless-type MMTV integration sites", "Endogenous ligands"	12774	protein-coding gene	gene with protein product		164820		INT1		2998762, 3281802	Standard	NM_005430		Approved		uc001rsu.3	P04628	OTTHUMG00000170403	ENST00000293549.3:c.212_220delCTGATACGC	12.37:g.49373358_49373366delCTGATACGC	ENSP00000293549:p.Pro71_Thr73del	Somatic		WXS	Illumina HiSeq	Phase_I	Q5U0N2	In_Frame_Del	DEL	ENST00000293549.3	37	CCDS8776.1																																																																																				0.608	WNT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408937.1			-	49373366	CTGATACGC	-	49373358	7	5	668	1	0	1	0	1	0	0	0	0	17393	1580	55	0	218	0	WNT1	12	49373358	In_Frame_Del	DEL	CTGATACGC	TCGA-KN-8432-01A-11D-2310-10	1	49373358	84478537	83	42756	413	2								
KRT6B	3854	mdanderson.org	37	chr12	52845665	52845665	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ccaatggagatcctcttggaGccccccaggccatacagact	9	15	1	2	rs141114189		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr12:52845665G>T	ENST00000252252.3	-	1	245	c.198C>A	c.(196-198)ggC>ggA	p.G66G		NM_005555.3	NP_005546.2	P04259	K2C6B_HUMAN	keratin 6B	66	Head.				ectoderm development (GO:0007398)	extracellular vesicular exosome (GO:0070062)|keratin filament (GO:0045095)	structural constituent of cytoskeleton (GO:0005200)			NS(1)|breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(19)|ovary(4)|prostate(2)	40				BRCA - Breast invasive adenocarcinoma(357;0.083)		TCCTCTTGGAGCCCCCCAGGC	0.657																																																0													21	24	23					12																	52845665		1932	3915	5847	SO:0001819	synonymous_variant	3854			BC034535	CCDS8828.1	12q13.13	2013-01-16	2004-08-11		ENSG00000185479	ENSG00000185479		"-", "Intermediate filaments type II, keratins (basic)"	6444	protein-coding gene	gene with protein product		148042	"keratin-like 1 (a type II keratin sequence)"	KRTL1		1713141, 16831889	Standard	NM_005555		Approved		uc001sak.3	P04259	OTTHUMG00000169593	ENST00000252252.3:c.198C>A	12.37:g.52845665G>T		Somatic		WXS	Illumina HiSeq	Phase_I	P48669	Silent	SNP	ENST00000252252.3	37	CCDS8828.1																																																																																				0.657	KRT6B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404969.1	NM_005555		T	52845665	G	T	52845665	2	4	668	1	0	0	0	0	0	0	0	1	8488	958	34	4		4	KRT6B	12	52845665	Silent	SNP	G	TCGA-KN-8432-01A-11D-2310-10	3472307	52845665	81006230	84	42757										
N4BP2L2	10443	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr13	33016882	33016882	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	agataaattatgtagcacaaAagaaggaatataatttttgt	7	2	0	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr13:33016882A>C	ENST00000504114.1	-	6	1838	c.1747T>G	c.(1747-1749)Ttt>Gtt	p.F583V	N4BP2L2_ENST00000446957.2_Intron|N4BP2L2_ENST00000357505.6_Missense_Mutation_p.F583V|N4BP2L2_ENST00000399396.3_Missense_Mutation_p.F598V|N4BP2L2_ENST00000380121.3_5'UTR			Q92802	N42L2_HUMAN	NEDD4 binding protein 2-like 2	33					negative regulation of hematopoietic stem cell differentiation (GO:1902037)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of hematopoietic stem cell proliferation (GO:1902035)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|transcriptional repressor complex (GO:0017053)	enzyme binding (GO:0019899)|RNA polymerase II transcription corepressor activity (GO:0001106)			kidney(4)|large_intestine(3)|liver(1)|lung(6)|skin(1)|urinary_tract(1)	16		Lung SC(185;0.0262)		all cancers(112;9.5e-07)|Epithelial(112;5.07e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00196)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.243)		TGTAGCACAAAAGAAGGAATA	0.323																																																0													33	34	34					13																	33016882		1820	4072	5892	SO:0001583	missense	10443			U50532	CCDS9346.1, CCDS45024.1, CCDS61307.1	13q13.1	2010-12-02			ENSG00000244754	ENSG00000244754			26916	protein-coding gene	gene with protein product	"phosphonoformate immuno-associated protein 5"	615788				8812419	Standard	NM_014887		Approved	CG005, PFAAP5	uc010abe.1	Q92802	OTTHUMG00000016700	ENST00000504114.1:c.1747T>G	13.37:g.33016882A>C	ENSP00000427477:p.Phe583Val	Somatic		WXS	Illumina HiSeq	Phase_I	A3KME8	Missense_Mutation	SNP	ENST00000504114.1	37		.	.	.	.	.	.	.	.	.	.	A	10.17	1.275345	0.23307	.	.	ENSG00000139617;ENSG00000139617;ENSG00000244754;ENSG00000244754;ENSG00000244754	ENST00000380121;ENST00000503296;ENST00000504114;ENST00000357505;ENST00000399396	.	.	.	4.19	2.34	0.29019	.	0.431030	0.19579	N	0.110903	T	0.22399	0.0540	N	0.08118	0	0.09310	N	1	B;B;B;B	0.11235	0.004;0.004;0.002;0.002	B;B;B;B	0.11329	0.004;0.004;0.006;0.006	T	0.21314	-1.0249	9	0.72032	D	0.01	-1.6649	8.8591	0.35247	0.1856:0.0:0.8144:0.0	.	583;598;481;481	B4DPY1;Q92802-3;Q96KV2;Q9Y3H6	.;.;.;.	V	481;510;583;583;598	.	ENSP00000350104:F583V	F	-	1	0	N4BP2L2;RP11-298P3.4	31914882	0.609000	0.26975	0.004000	0.12327	0.032000	0.12392	1.209000	0.32357	0.476000	0.27440	-0.345000	0.07892	TTT		0.323	N4BP2L2-004	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000361380.1	NM_014887		C	33016882	A	C	33016882	3	2	668	1	0	0	0	0	1	0	0	0	10119	14	1	5	478	5	N4BP2L2	13	33016882	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10		33016882	82152996	85	42758										
EPSTI1	94240	ucsc.edu;bcgsc.ca	37	chr13	43469222	43469222	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ttgacttttgccttggagtcGgtccagaaaagcattattta	9	7	0	2	rs201385523		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr13:43469222G>A	ENST00000398762.3	-	11	870	c.871C>T	c.(871-873)Cga>Tga	p.R291*	EPSTI1_ENST00000313624.7_Nonsense_Mutation_p.R280*|EPSTI1_ENST00000313640.7_Nonsense_Mutation_p.R291*			Q96J88	ESIP1_HUMAN	epithelial stromal interaction 1 (breast)	291										endometrium(2)|kidney(1)|large_intestine(1)|lung(11)|ovary(1)|skin(1)	17		Lung NSC(96;3.6e-06)|Breast(139;0.00869)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		GBM - Glioblastoma multiforme(144;0.000528)|BRCA - Breast invasive adenocarcinoma(63;0.0858)		CCTTGGAGTCGGTCCAGAAAA	0.413																																																0								G	stop/ARG,stop/ARG	0,4406		0,0,2203	62	60	60		871,838	5.7	1	13		60	2,8598	3.0+/-9.4	0,2,4298	yes	stop-gained,stop-gained	EPSTI1	NM_001002264.1,NM_033255.2	,	0,2,6501	AA,AG,GG		0.0233,0.0,0.0154	,	291/411,280/308	43469222	2,13004	2203	4300	6503	SO:0001587	stop_gained	94240			AF396928	CCDS9387.1, CCDS31964.1	13q13.3	2011-06-27			ENSG00000133106	ENSG00000133106			16465	protein-coding gene	gene with protein product	"epithelial stromal interaction protein 1"	607441				11991720	Standard	NM_033255		Approved	BRESI1, MGC29634	uc001uyw.2	Q96J88	OTTHUMG00000016814	ENST00000398762.3:c.871C>T	13.37:g.43469222G>A	ENSP00000381746:p.Arg291*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVC7|Q8NDQ7	Nonsense_Mutation	SNP	ENST00000398762.3	37	CCDS9387.1	.	.	.	.	.	.	.	.	.	.	G	28.1	4.895090	0.91962	0.0	2.33E-4	ENSG00000133106	ENST00000313640;ENST00000313624;ENST00000398762	.	.	.	5.71	5.71	0.89125	.	0.195514	0.32884	N	0.005535	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-5.6042	12.3473	0.55128	0.0:0.0:0.8316:0.1684	.	.	.	.	X	291;280;291	.	ENSP00000318643:R280X	R	-	1	2	EPSTI1	42367222	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	2.439000	0.44846	2.691000	0.91804	0.561000	0.74099	CGA		0.413	EPSTI1-010	PUTATIVE	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000400321.1	NM_001002264		A	43469222	G	A	43469222	4	1	668	1	0	0	0	0	0	1	0	0	5200	1124	39	1	373	1	EPSTI1	13	43469222	Nonsense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10	10452340	43469222	71700656	86	42759										
PCDH8	5100	broad.mit.edu	37	chr13	53420463	53420465	+	In_Frame_Del	DEL	GGT	GGT	-													0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	accacgaagctgacagttgcGgtggtggtgagcgggggacg							TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	GGT	GGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr13:53420463_53420465delGGT	ENST00000377942.3	-	1	2310_2312	c.2107_2109delACC	c.(2107-2109)accdel	p.T703del	PCDH8_ENST00000338862.4_In_Frame_Del_p.T703del	NM_002590.3	NP_002581.2	O95206	PCDH8_HUMAN	protocadherin 8	703	Cadherin 6. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell-cell signaling (GO:0007267)|homophilic cell adhesion (GO:0007156)|morphogenesis of embryonic epithelium (GO:0016331)|somitogenesis (GO:0001756)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|cell projection (GO:0042995)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	calcium ion binding (GO:0005509)			breast(1)|central_nervous_system(2)|endometrium(2)|large_intestine(5)|lung(23)|ovary(1)|skin(1)|urinary_tract(1)	36		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		TGACAGTTGCGGTGGTGGTGAGC	0.714																																					GBM(36;25 841 9273 49207)											0																																										SO:0001651	inframe_deletion	5100			AF061573	CCDS9438.1, CCDS9439.1	13q21.1	2010-02-22			ENSG00000136099	ENSG00000136099		"Cadherins / Protocadherins : Non-clustered"	8660	protein-coding gene	gene with protein product		603580				9787079, 9315676	Standard	NM_002590		Approved	PAPC, ARCADLIN	uc001vhi.3	O95206	OTTHUMG00000016979	ENST00000377942.3:c.2107_2109delACC	13.37:g.53420469_53420471delGGT	ENSP00000367177:p.Thr703del	Somatic		WXS	Illumina HiSeq	Phase_I	B4DMV7|Q5TAN1|Q5TAN2|Q8IYE9|Q96SF1	In_Frame_Del	DEL	ENST00000377942.3	37	CCDS9438.1																																																																																				0.714	PCDH8-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000045108.2	NM_002590		-	53420465	GGT	-	53420463	7	5	668	1	0	1	0	1	0	0	0	0	11524	1103	39	0	1115	0	PCDH8	13	53420463	In_Frame_Del	DEL	GGT	TCGA-KN-8432-01A-11D-2310-10	9951241	53420463	61749415	87	42760										
ESR2	2100	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	64727212	64727212	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	catgtgtaccaactccttgtCggccaacttggtcagggaca	10	12	1	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr14:64727212C>T	ENST00000341099.4	-	5	1324	c.907G>A	c.(907-909)Gac>Aac	p.D303N	ESR2_ENST00000357782.2_Missense_Mutation_p.D303N|ESR2_ENST00000358599.5_Missense_Mutation_p.D303N|ESR2_ENST00000555483.1_5'UTR|ESR2_ENST00000554572.1_Missense_Mutation_p.D303N|ESR2_ENST00000555278.1_Missense_Mutation_p.D303N|ESR2_ENST00000542956.1_Missense_Mutation_p.D303N|ESR2_ENST00000267525.6_Missense_Mutation_p.D303N|ESR2_ENST00000353772.3_Missense_Mutation_p.D303N|ESR2_ENST00000553796.1_Missense_Mutation_p.D303N|ESR2_ENST00000557772.1_Missense_Mutation_p.D303N	NM_001437.2	NP_001428.1	Q92731	ESR2_HUMAN	estrogen receptor 2 (ER beta)	303	Steroid-binding.				brain development (GO:0007420)|cell-cell signaling (GO:0007267)|epithelial cell maturation involved in prostate gland development (GO:0060743)|extracellular negative regulation of signal transduction (GO:1900116)|gene expression (GO:0010467)|hormone-mediated apoptotic signaling pathway (GO:0008628)|intracellular estrogen receptor signaling pathway (GO:0030520)|negative regulation of androgen receptor signaling pathway (GO:0060766)|negative regulation of cell growth (GO:0030308)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron migration (GO:0001764)|ovarian follicle development (GO:0001541)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|prostate gland epithelium morphogenesis (GO:0060740)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)|transcription initiation from RNA polymerase II promoter (GO:0006367)|uterus development (GO:0060065)|vagina development (GO:0060068)	extracellular region (GO:0005576)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	core promoter sequence-specific DNA binding (GO:0001046)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|estrogen receptor activity (GO:0030284)|estrogen response element binding (GO:0034056)|ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|receptor antagonist activity (GO:0048019)|sequence-specific DNA binding transcription factor activity (GO:0003700)|steroid binding (GO:0005496)|steroid hormone receptor activity (GO:0003707)|transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)			central_nervous_system(2)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(5)|ovary(1)|prostate(1)|skin(3)|stomach(1)|urinary_tract(1)	23				all cancers(60;0.00916)|OV - Ovarian serous cystadenocarcinoma(108;0.0111)|BRCA - Breast invasive adenocarcinoma(234;0.0437)	Diethylstilbestrol(DB00255)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estropipate(DB04574)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Trilostane(DB01108)	AACTCCTTGTCGGCCAACTTG	0.582																																																0													102	103	103					14																	64727212		2203	4300	6503	SO:0001583	missense	2100			X99101	CCDS9762.1, CCDS32096.1, CCDS55920.1, CCDS61469.1, CCDS61470.1	14q21-q22	2013-01-16			ENSG00000140009	ENSG00000140009		"Nuclear hormone receptors"	3468	protein-coding gene	gene with protein product		601663				8769313	Standard	NM_001214902		Approved	NR3A2, Erb	uc001xha.1	Q92731	OTTHUMG00000141306	ENST00000341099.4:c.907G>A	14.37:g.64727212C>T	ENSP00000343925:p.Asp303Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8K5|G3V5M5|O60608|O60685|O60702|O60703|O75583|O75584|Q0MWT5|Q0MWT6|Q86Z31|Q9UEV6|Q9UHD3|Q9UQK9	Missense_Mutation	SNP	ENST00000341099.4	37	CCDS9762.1	.	.	.	.	.	.	.	.	.	.	C	36	5.714190	0.96830	.	.	ENSG00000140009	ENST00000556275;ENST00000542956;ENST00000554572;ENST00000353772;ENST00000358599;ENST00000555278;ENST00000553796;ENST00000357782;ENST00000557772;ENST00000341099;ENST00000267525	D;D;D;D;D;D;D;D;D;D;T	0.96685	-4.09;-4.09;-4.09;-4.09;-4.09;-4.09;-4.09;-4.09;-4.09;-4.09;0.62	5.83	5.83	0.93111	Nuclear hormone receptor, ligand-binding (2);Nuclear hormone receptor, ligand-binding, core (2);	0.000000	0.85682	D	0.000000	D	0.98302	0.9437	M	0.84219	2.685	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;0.998;1.0	D;D;D;P;D	0.97110	1.0;0.999;0.972;0.883;0.984	D	0.98691	1.0696	10	0.72032	D	0.01	.	20.1374	0.98035	0.0:1.0:0.0:0.0	.	303;303;303;303;303	Q92731-7;Q92731;Q92731-6;Q92731-5;F1D8N3	.;ESR2_HUMAN;.;.;.	N	303	ENSP00000452485:D303N;ENSP00000441792:D303N;ENSP00000450699:D303N;ENSP00000335551:D303N;ENSP00000351412:D303N;ENSP00000450488:D303N;ENSP00000452426:D303N;ENSP00000350427:D303N;ENSP00000451582:D303N;ENSP00000343925:D303N;ENSP00000267525:D303N	ENSP00000267525:D303N	D	-	1	0	ESR2	63796965	1.000000	0.71417	0.994000	0.49952	0.972000	0.66771	7.726000	0.84824	2.763000	0.94921	0.563000	0.77884	GAC		0.582	ESR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280621.1			T	64727212	C	T	64727212	3	4	668	1	0	0	0	0	1	0	0	0	5259	884	31	1	791	1	ESR2	14	64727212	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10		64727212	42622328	88	42761										
C14orf115	55237	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr14	74824716	74824716	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	cgggccaagttgtacctggaGcattgcatctccctgaacac	10	13	1	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr14:74824716G>C	ENST00000256362.4	+	2	1471	c.1230G>C	c.(1228-1230)gaG>gaC	p.E410D		NM_018228.2	NP_060698.2	Q9H8Y1	VRTN_HUMAN	vertebrae development associated	410					transposition, DNA-mediated (GO:0006313)		sequence-specific DNA binding (GO:0043565)|transposase activity (GO:0004803)			NS(1)|autonomic_ganglia(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(10)|lung(15)|ovary(5)|prostate(2)|skin(1)|urinary_tract(1)	41						TGTACCTGGAGCATTGCATCT	0.577																																																0													116	103	108					14																	74824716		2203	4300	6503	SO:0001583	missense	55237			AK001673	CCDS9830.1	14q24.2	2012-12-07	2012-12-07	2010-10-20	ENSG00000133980	ENSG00000133980			20223	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 115", "vertebrae development homolog (pig)"	C14orf115		21232157	Standard	NM_018228		Approved	FLJ10811, vertnin	uc001xpw.4	Q9H8Y1	OTTHUMG00000171208	ENST00000256362.4:c.1230G>C	14.37:g.74824716G>C	ENSP00000256362:p.Glu410Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NVC7	Missense_Mutation	SNP	ENST00000256362.4	37	CCDS9830.1	.	.	.	.	.	.	.	.	.	.	G	16.99	3.273359	0.59649	.	.	ENSG00000133980	ENST00000256362	T	0.50001	0.76	4.59	4.59	0.56863	.	0.072575	0.56097	D	0.000031	T	0.48169	0.1485	L	0.27053	0.805	0.31311	N	0.687184	D	0.67145	0.996	P	0.58266	0.836	T	0.54603	-0.8269	10	0.62326	D	0.03	-6.1439	10.3686	0.44039	0.09:0.0:0.91:0.0	.	410	Q9H8Y1	VRTN_HUMAN	D	410	ENSP00000256362:E410D	ENSP00000256362:E410D	E	+	3	2	VRTN	73894469	1.000000	0.71417	1.000000	0.80357	0.952000	0.60782	1.475000	0.35409	2.371000	0.80710	0.561000	0.74099	GAG		0.577	VRTN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412339.1	NM_018228		C	74824716	G	C	74824716	3	2	668	1	0	0	0	0	1	0	0	0	1742	962	34	4	1232	4	C14orf115	14	74824716	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10	10097504	74824716	32524824	89	42762										
KIAA0284	283638	broad.mit.edu	37	chr14	105359440	105359440	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ccctcagcaacatgcccagcAcccccgcctcgaccatctct	5	22	2	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr14:105359440A>C	ENST00000414716.3	+	14	4234	c.4006A>C	c.(4006-4008)Acc>Ccc	p.T1336P	CEP170B_ENST00000453495.1_Missense_Mutation_p.T1372P|CEP170B_ENST00000556508.1_Missense_Mutation_p.T1301P|CEP170B_ENST00000418279.1_Missense_Mutation_p.T1266P	NM_001112726.2	NP_001106197.1	Q9Y4F5	C170B_HUMAN	centrosomal protein 170B	1371						cytoplasm (GO:0005737)|microtubule (GO:0005874)											CATGCCCAGCACCCCCGCCTC	0.687																																																0													16	25	22					14																	105359440		2084	4203	6287	SO:0001583	missense	283638			AB006622	CCDS45175.1, CCDS45176.1, CCDS45176.2	14q32.33	2014-02-20	2012-11-30	2012-11-30	ENSG00000099814	ENSG00000099814			20362	protein-coding gene	gene with protein product	"Cep170-related"		"KIAA0284"	KIAA0284		23087211	Standard	NM_015005		Approved	FAM68C, Cep170R	uc010axb.4	Q9Y4F5	OTTHUMG00000170763	ENST00000414716.3:c.4006A>C	14.37:g.105359440A>C	ENSP00000404151:p.Thr1336Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q2KHR7|Q86TI7	Missense_Mutation	SNP	ENST00000414716.3	37	CCDS45175.1	.	.	.	.	.	.	.	.	.	.	A	18.15	3.559308	0.65538	.	.	ENSG00000099814	ENST00000556508;ENST00000414716;ENST00000453495;ENST00000418279;ENST00000429757	T;T;T;T	0.56103	0.5;0.62;0.48;0.63	4.45	3.25	0.37280	.	0.337000	0.26919	N	0.021828	T	0.57844	0.2081	M	0.71581	2.175	0.36088	D	0.843223	P;P;B	0.43169	0.776;0.8;0.429	P;B;B	0.47626	0.552;0.261;0.326	T	0.67122	-0.5750	10	0.87932	D	0	-24.8257	10.0086	0.41972	0.8482:0.0:0.0:0.1518	.	1336;1371;1266	Q9Y4F5-2;Q9Y4F5;E9PFC1	.;K0284_HUMAN;.	P	1301;1336;1372;1266;4	ENSP00000451249:T1301P;ENSP00000404151:T1336P;ENSP00000407238:T1372P;ENSP00000415006:T1266P	ENSP00000404151:T1336P	T	+	1	0	KIAA0284	104430485	1.000000	0.71417	1.000000	0.80357	0.945000	0.59286	4.006000	0.57083	0.527000	0.28560	0.347000	0.21830	ACC		0.687	CEP170B-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000410289.2	NM_001112726		C	105359440	A	C	105359440	3	2	668	1	0	0	0	0	1	0	0	0	8173	159	6	5	4056	5	KIAA0284	14	105359440	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10	30534724	105359440	1990100	90	42763										
EIF2AK4	440275	ucsc.edu	37	chr15	40235659	40235659	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ttgttaaaatctcgcctagaAgaactggccaagaaacactg	8	9	1	3			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr15:40235659A>G	ENST00000263791.5	+	3	376	c.333A>G	c.(331-333)gaA>gaG	p.E111E	EIF2AK4_ENST00000382727.2_Silent_p.E111E|EIF2AK4_ENST00000560648.1_Silent_p.E111E|EIF2AK4_ENST00000559624.1_Silent_p.E111E	NM_001013703.2	NP_001013725.2	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha kinase 4	111	RWD. {ECO:0000255|PROSITE- ProRule:PRU00179}.				cellular response to starvation (GO:0009267)|endoplasmic reticulum unfolded protein response (GO:0030968)|negative regulation of translation (GO:0017148)|protein phosphorylation (GO:0006468)|regulation of translational initiation (GO:0006446)|regulation of translational initiation in response to stress (GO:0043558)	cytosolic ribosome (GO:0022626)	ATP binding (GO:0005524)|eukaryotic translation initiation factor 2alpha kinase activity (GO:0004694)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(2)|endometrium(1)|kidney(3)|large_intestine(8)|lung(18)|ovary(1)|prostate(3)|skin(2)|stomach(1)	40		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)		CTCGCCTAGAAGAACTGGCCA	0.338																																																0													108	104	105					15																	40235659		1818	4085	5903	SO:0001819	synonymous_variant	440275			AB037759	CCDS42016.1	15q13.3	2008-08-18				ENSG00000128829			19687	protein-coding gene	gene with protein product		609280				10504407	Standard	XM_005254392		Approved	GCN2, KIAA1338	uc001zkm.1	Q9P2K8		ENST00000263791.5:c.333A>G	15.37:g.40235659A>G		Somatic		WXS	Illumina HiSeq	Phase_I	C9JEC4|Q69YL7|Q6DC97|Q96GN6|Q9H5K1|Q9NSQ3|Q9NSZ5|Q9UJ56	Silent	SNP	ENST00000263791.5	37	CCDS42016.1																																																																																				0.338	EIF2AK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418395.1			G	40235659	A	G	40235659	2	3	668	1	0	0	0	0	0	0	0	1	5001	69	3	3		3	EIF2AK4	15	40235659	Silent	SNP	A	TCGA-KN-8432-01A-11D-2310-10		40235659	62295733	91	42764										
SQRDL	58472	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr15	45954211	45954211	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tggtgccaaacaattgtcctCatctggtcgtcccacggcaa	9	13	2	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr15:45954211C>T	ENST00000260324.7	+	3	679	c.293C>T	c.(292-294)tCa>tTa	p.S98L	RP11-96O20.4_ENST00000564080.1_Missense_Mutation_p.S98L|SQRDL_ENST00000568606.1_Missense_Mutation_p.S98L	NM_021199.3	NP_067022.1	Q9Y6N5	SQRD_HUMAN	sulfide quinone reductase-like (yeast)	98					cellular nitrogen compound metabolic process (GO:0034641)|small molecule metabolic process (GO:0044281)|sulfide oxidation, using sulfide:quinone oxidoreductase (GO:0070221)|sulfur amino acid catabolic process (GO:0000098)|sulfur amino acid metabolic process (GO:0000096)	mitochondrial inner membrane (GO:0005743)	sulfide:quinone oxidoreductase activity (GO:0070224)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|ovary(1)|prostate(2)	11		Lung NSC(122;0.000117)|all_lung(180;0.000737)|Melanoma(134;0.0417)		all cancers(107;5.89e-18)|GBM - Glioblastoma multiforme(94;1.21e-06)|COAD - Colon adenocarcinoma(120;0.17)|Colorectal(133;0.188)		CAATTGTCCTCATCTGGTCGT	0.443																																																0													115	94	101					15																	45954211		2198	4297	6495	SO:0001583	missense	58472			AF042284	CCDS10127.1	15q21.1	2010-08-05			ENSG00000137767	ENSG00000137767			20390	protein-coding gene	gene with protein product						10810093, 10224084	Standard	NM_021199		Approved	CGI-44	uc001zvu.4	Q9Y6N5	OTTHUMG00000131476	ENST00000260324.7:c.293C>T	15.37:g.45954211C>T	ENSP00000260324:p.Ser98Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UQM8	Missense_Mutation	SNP	ENST00000260324.7	37	CCDS10127.1	.	.	.	.	.	.	.	.	.	.	C	7.286	0.610024	0.14066	.	.	ENSG00000137767	ENST00000260324	T	0.50277	0.75	5.52	2.58	0.30949	Pyridine nucleotide-disulphide oxidoreductase, FAD/NAD(P)-binding domain (1);	0.422413	0.26646	N	0.023238	T	0.39835	0.1093	M	0.71581	2.175	0.18873	N	0.999982	B	0.06786	0.001	B	0.13407	0.009	T	0.37361	-0.9709	10	0.37606	T	0.19	.	2.3248	0.04220	0.1332:0.5191:0.1299:0.2178	.	98	Q9Y6N5	SQRD_HUMAN	L	98	ENSP00000260324:S98L	ENSP00000260324:S98L	S	+	2	0	SQRDL	43741503	0.001000	0.12720	0.280000	0.24747	0.020000	0.10135	1.158000	0.31737	0.277000	0.22141	-0.140000	0.14226	TCA		0.443	SQRDL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254319.2			T	45954211	C	T	45954211	3	4	668	1	0	0	0	0	1	0	0	0	15141	838	29	2	299	2	SQRDL	15	45954211	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	5718552	45954211	56577181	92	42765										
TRPM7	54822	broad.mit.edu;mdanderson.org	37	chr15	50884111	50884111	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gaatttgccaaacttacctaCaaatgctccaaattctgtat	4	10	1	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr15:50884111C>T	ENST00000313478.7	-	26	4602	c.4321G>A	c.(4321-4323)Gta>Ata	p.V1441I	TRPM7_ENST00000560955.1_Missense_Mutation_p.V1441I	NM_017672.4	NP_060142.3	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel, subfamily M, member 7	1441					actomyosin structure organization (GO:0031032)|calcium ion transmembrane transport (GO:0070588)|calcium-dependent cell-matrix adhesion (GO:0016340)|cellular magnesium ion homeostasis (GO:0010961)|ion transmembrane transport (GO:0034220)|necroptotic process (GO:0070266)|protein autophosphorylation (GO:0046777)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	ATP binding (GO:0005524)|calcium channel activity (GO:0005262)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)			breast(3)|central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(17)|lung(13)|ovary(4)|pancreas(1)|skin(4)|stomach(3)	52				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		AACTTACCTACAAATGCTCCA	0.318																																																0													74	69	71					15																	50884111		1799	4066	5865	SO:0001583	missense	54822			AF346629	CCDS42035.1, CCDS73725.1	15q21	2011-12-14				ENSG00000092439		"Voltage-gated ion channels / Transient receptor potential cation channels"	17994	protein-coding gene	gene with protein product		605692				11161216, 11385574, 16382100	Standard	XM_005254486		Approved	CHAK1, LTRPC7, TRP-PLIK	uc001zyt.4	Q96QT4		ENST00000313478.7:c.4321G>A	15.37:g.50884111C>T	ENSP00000320239:p.Val1441Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZMF5|Q86VJ4|Q8NBW2|Q9BXB2|Q9NXQ2	Missense_Mutation	SNP	ENST00000313478.7	37	CCDS42035.1	.	.	.	.	.	.	.	.	.	.	C	16.29	3.081246	0.55753	.	.	ENSG00000092439	ENST00000313478	T	0.56611	0.45	5.91	4.05	0.47172	.	0.337756	0.27315	N	0.019932	T	0.37237	0.0996	N	0.24115	0.695	0.44668	D	0.997658	B	0.27229	0.172	B	0.25140	0.058	T	0.09840	-1.0656	10	0.27082	T	0.32	.	12.4344	0.55590	0.0:0.8654:0.0:0.1346	.	1441	Q96QT4	TRPM7_HUMAN	I	1441	ENSP00000320239:V1441I	ENSP00000320239:V1441I	V	-	1	0	TRPM7	48671403	1.000000	0.71417	1.000000	0.80357	0.971000	0.66376	3.988000	0.56951	0.861000	0.35504	-0.259000	0.10710	GTA		0.318	TRPM7-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000418604.1	NM_017672		T	50884111	C	T	50884111	3	4	668	1	0	0	0	0	1	0	0	0	16603	478	17	2	1332	2	TRPM7	15	50884111	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	4929900	50884111	51647281	93	42766										
SLTM	79811	mdanderson.org	37	chr15	59191919	59191919	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gcttcagaatctgtaattttCacatttttacctgtttctag	5	8	4	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr15:59191919C>A	ENST00000380516.2	-	7	894	c.807G>T	c.(805-807)gtG>gtT	p.V269V	SLTM_ENST00000536328.1_Intron|SLTM_ENST00000557950.1_5'Flank	NM_001013843.1|NM_024755.2	NP_001013865.1|NP_079031.2	Q9NWH9	SLTM_HUMAN	SAFB-like, transcription modulator	269					apoptotic process (GO:0006915)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(3)|kidney(1)|large_intestine(9)|lung(10)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	28						CTGTAATTTTCACATTTTTAC	0.453																																																0													157	147	150					15																	59191919		2192	4292	6484	SO:0001819	synonymous_variant	79811			BC046119	CCDS10168.2	15q21.3	2013-02-12			ENSG00000137776	ENSG00000137776		"RNA binding motif (RRM) containing"	20709	protein-coding gene	gene with protein product							Standard	XR_243128		Approved	Met, FLJ13213	uc002afp.3	Q9NWH9	OTTHUMG00000074033	ENST00000380516.2:c.807G>T	15.37:g.59191919C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5V8|B2RTX3|Q2VPK7|Q52MB3|Q658J7|Q6ZNF2|Q86TK6|Q9H7C3|Q9H8U9	Silent	SNP	ENST00000380516.2	37	CCDS10168.2																																																																																				0.453	SLTM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157124.1	NM_024755		A	59191919	C	A	59191919	2	1	668	1	0	0	0	0	0	0	0	1	14767	813	29	4		4	SLTM	15	59191919	Silent	SNP	C	TCGA-KN-8432-01A-11D-2310-10	8307808	59191919	43339473	94	42767										
CD276	80381	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	73995325	73995325	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tgcacagcatcctgcgggtgGtgctgggtgcaaatggcacc	15	11	0	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr15:73995325G>T	ENST00000318443.5	+	4	933	c.631G>T	c.(631-633)Gtg>Ttg	p.V211L	CD276_ENST00000564751.1_Intron|CD276_ENST00000561213.1_Missense_Mutation_p.V211L|CD276_ENST00000537340.2_Missense_Mutation_p.V65L|CD276_ENST00000318424.5_Intron	NM_001024736.1	NP_001019907.1	Q5ZPR3	CD276_HUMAN	CD276 molecule	211	Ig-like C2-type 1.				cell proliferation (GO:0008283)|immune response (GO:0006955)|negative regulation of inflammatory response (GO:0050728)|negative regulation of interferon-gamma biosynthetic process (GO:0045077)|negative regulation of interleukin-2 biosynthetic process (GO:0045085)|negative regulation of T cell proliferation (GO:0042130)|positive regulation of bone mineralization (GO:0030501)|positive regulation of interferon-gamma biosynthetic process (GO:0045078)|positive regulation of interleukin-2 secretion (GO:1900042)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of T cell proliferation (GO:0042102)|regulation of immune response (GO:0050776)|T cell activation (GO:0042110)	external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	receptor binding (GO:0005102)			endometrium(3)|lung(5)|ovary(1)|skin(2)|stomach(1)|urinary_tract(1)	13						CCTGCGGGTGGTGCTGGGTGC	0.632																																																0													97	78	85					15																	73995325		2198	4297	6495	SO:0001583	missense	80381			AF302102	CCDS10251.1, CCDS32288.1	15q23-q24	2013-01-11	2006-03-28		ENSG00000103855	ENSG00000103855		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing"	19137	protein-coding gene	gene with protein product		605715	"CD276 antigen"			11224528, 12055244	Standard	XM_005254699		Approved	B7-H3, B7H3, B7RP-2	uc002avv.1	Q5ZPR3	OTTHUMG00000137585	ENST00000318443.5:c.631G>T	15.37:g.73995325G>T	ENSP00000320084:p.Val211Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P5Y4|Q6UXI2|Q8NBI8|Q8NC34|Q8NCB6|Q9BXR1	Missense_Mutation	SNP	ENST00000318443.5	37	CCDS32288.1	.	.	.	.	.	.	.	.	.	.	G	5.969	0.362837	0.11296	.	.	ENSG00000103855	ENST00000318443;ENST00000379823;ENST00000537340	T;T	0.76709	-1.04;-1.04	3.29	1.34	0.21922	Immunoglobulin subtype 2 (1);CD80-like, immunoglobulin C2-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.56156	0.1966	N	0.13235	0.315	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.08055	0.002;0.003;0.002	T	0.48490	-0.9031	9	0.41790	T	0.15	.	4.3949	0.11358	0.3111:0.177:0.5119:0.0	.	157;211;211	B4DK26;Q5ZPR3;Q5ZPR3-4	.;CD276_HUMAN;.	L	211;211;65	ENSP00000320084:V211L;ENSP00000441087:V65L	ENSP00000320084:V211L	V	+	1	0	CD276	71782378	0.996000	0.38824	1.000000	0.80357	0.135000	0.20990	0.346000	0.19997	0.712000	0.32039	0.313000	0.20887	GTG		0.632	CD276-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268979.1	NM_025240		T	73995325	G	T	73995325	3	4	668	1	0	0	0	0	1	0	0	0	2994	1261	44	4	641	4	CD276	15	73995325	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10	14803406	73995325	28536067	95	42768										
ZNF592	9640	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	85334093	85334093	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	aaaggagaattgcctgcactAtgcccgcaaggtgggctaca	12	10	0	1	rs370083133		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr15:85334093A>G	ENST00000560079.2	+	5	2666	c.2378A>G	c.(2377-2379)tAt>tGt	p.Y793C	ZNF592_ENST00000299927.3_Missense_Mutation_p.Y793C	NM_014630.2	NP_055445.2	Q92610	ZN592_HUMAN	zinc finger protein 592	793					cell death (GO:0008219)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|endometrium(2)|kidney(1)|large_intestine(12)|lung(14)|ovary(4)|prostate(2)|skin(2)|urinary_tract(1)	40			BRCA - Breast invasive adenocarcinoma(143;0.0587)			TGCCTGCACTATGCCCGCAAG	0.562																																																0								A	CYS/TYR	1,4405	2.1+/-5.4	0,1,2202	102	86	92		2378	5.6	1	15		92	0,8598		0,0,4299	no	missense	ZNF592	NM_014630.2	194	0,1,6501	GG,GA,AA		0.0,0.0227,0.0077	probably-damaging	793/1268	85334093	1,13003	2203	4299	6502	SO:0001583	missense	9640			D86966	CCDS32317.1	15q25.2	2011-03-15				ENSG00000166716		"Zinc fingers, C2H2-type"	28986	protein-coding gene	gene with protein product		613624	"spinocerebellar ataxia, autosomal recessive 5"	SCAR5		9039502, 12030328, 20531441	Standard	NM_014630		Approved	KIAA0211, CAMOS	uc002bld.3	Q92610		ENST00000560079.2:c.2378A>G	15.37:g.85334093A>G	ENSP00000452877:p.Tyr793Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M1T2|Q504Y9	Missense_Mutation	SNP	ENST00000560079.2	37	CCDS32317.1	.	.	.	.	.	.	.	.	.	.	A	21.8	4.198225	0.79015	2.27E-4	0.0	ENSG00000166716	ENST00000299927	T	0.03035	4.07	5.61	5.61	0.85477	.	0.000000	0.85682	D	0.000000	T	0.13713	0.0332	L	0.52011	1.625	0.53688	D	0.999975	D	0.89917	1.0	D	0.91635	0.999	T	0.00300	-1.1835	10	0.72032	D	0.01	-16.0348	13.7682	0.63008	1.0:0.0:0.0:0.0	.	793	Q92610	ZN592_HUMAN	C	793	ENSP00000299927:Y793C	ENSP00000299927:Y793C	Y	+	2	0	ZNF592	83135097	1.000000	0.71417	1.000000	0.80357	0.878000	0.50629	5.104000	0.64584	2.138000	0.66242	0.460000	0.39030	TAT		0.562	ZNF592-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418779.2	NM_014630		G	85334093	A	G	85334093	3	3	668	1	0	0	0	0	1	0	0	0	18034	449	16	3	2384	3	ZNF592	15	85334093	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10	11338768	85334093	17197299	96	42769										
SOX8	30812	ucsc.edu	37	chr16	1034902	1034902	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	cttcgacgtccacgagttcgAccagtacctgcccctgggcg	11	16	0	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr16:1034902A>G	ENST00000293894.3	+	3	972	c.857A>G	c.(856-858)gAc>gGc	p.D286G		NM_014587.3	NP_055402.2	P57073	SOX8_HUMAN	SRY (sex determining region Y)-box 8	286					adipose tissue development (GO:0060612)|astrocyte fate commitment (GO:0060018)|cell fate commitment (GO:0045165)|cell maturation (GO:0048469)|enteric nervous system development (GO:0048484)|fat cell differentiation (GO:0045444)|in utero embryonic development (GO:0001701)|male gonad development (GO:0008584)|metanephric nephron tubule formation (GO:0072289)|morphogenesis of a branching epithelium (GO:0061138)|negative regulation of apoptotic process (GO:0043066)|negative regulation of myoblast differentiation (GO:0045662)|negative regulation of photoreceptor cell differentiation (GO:0046533)|negative regulation of transcription, DNA-templated (GO:0045892)|neural crest cell migration (GO:0001755)|oligodendrocyte differentiation (GO:0048709)|osteoblast differentiation (GO:0001649)|peripheral nervous system development (GO:0007422)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|positive regulation of gliogenesis (GO:0014015)|positive regulation of kidney development (GO:0090184)|positive regulation of osteoblast proliferation (GO:0033690)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of hormone levels (GO:0010817)|renal vesicle induction (GO:0072034)|retina development in camera-type eye (GO:0060041)|retinal rod cell differentiation (GO:0060221)|Sertoli cell development (GO:0060009)|signal transduction (GO:0007165)|skeletal muscle cell differentiation (GO:0035914)|spermatogenesis (GO:0007283)|ureter morphogenesis (GO:0072197)	cytoplasm (GO:0005737)|nuclear transcription factor complex (GO:0044798)|nucleus (GO:0005634)	DNA binding (GO:0003677)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)			central_nervous_system(1)|kidney(1)|lung(5)|prostate(2)|skin(1)	10		Hepatocellular(780;0.00308)				CACGAGTTCGACCAGTACCTG	0.692																																																0													24	24	24					16																	1034902		2194	4295	6489	SO:0001583	missense	30812			AF164104	CCDS10428.1	16p13.3	2008-05-23			ENSG00000005513	ENSG00000005513		"SRY (sex determining region Y)-boxes"	11203	protein-coding gene	gene with protein product		605923				10662550, 10684944	Standard	NM_014587		Approved		uc002ckn.3	P57073	OTTHUMG00000122101	ENST00000293894.3:c.857A>G	16.37:g.1034902A>G	ENSP00000293894:p.Asp286Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NZW2	Missense_Mutation	SNP	ENST00000293894.3	37	CCDS10428.1	.	.	.	.	.	.	.	.	.	.	A	21.1	4.096470	0.76870	.	.	ENSG00000005513	ENST00000293894	T	0.79033	-1.23	4.17	4.17	0.49024	.	0.000000	0.85682	D	0.000000	D	0.89781	0.6814	M	0.92833	3.35	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.91611	0.5303	10	0.62326	D	0.03	.	12.6002	0.56492	1.0:0.0:0.0:0.0	.	286	P57073	SOX8_HUMAN	G	286	ENSP00000293894:D286G	ENSP00000293894:D286G	D	+	2	0	SOX8	974903	1.000000	0.71417	0.998000	0.56505	0.951000	0.60555	7.015000	0.76387	1.751000	0.51876	0.529000	0.55759	GAC		0.692	SOX8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000242867.1			G	1034902	A	G	1034902	3	3	668	1	0	0	0	0	1	0	0	0	14970	275	10	3	867	3	SOX8	16	1034902	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10		1034902	89319851	97	42770										
ARL6IP1	23204	hgsc.bcm.edu	37	chr16	18806888	18806888	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	caaatttcatggaatctttgCtgttgttcagtggtcctaga	9	7	3	1	rs201647214		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr16:18806888C>T	ENST00000304414.7	-	4	517	c.306G>A	c.(304-306)caG>caA	p.Q102Q	ARL6IP1_ENST00000562819.1_Intron|ARL6IP1_ENST00000546206.2_Silent_p.Q73Q|RP11-1035H13.3_ENST00000567078.2_Silent_p.Q102Q	NM_015161.1	NP_055976.1	Q15041	AR6P1_HUMAN	ADP-ribosylation factor-like 6 interacting protein 1	102					cell death (GO:0008219)|cotranslational protein targeting to membrane (GO:0006613)	cytosol (GO:0005829)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|Sec61 translocon complex (GO:0005784)				breast(1)|large_intestine(2)|lung(6)|pancreas(1)|prostate(1)	11						GGAATCTTTGCTGTTGTTCAG	0.383																																																0													77	69	72					16																	18806888		2197	4300	6497	SO:0001819	synonymous_variant	23204			BC010281	CCDS10572.1	16p12-p11.2	2014-03-12	2006-09-26	2006-09-26	ENSG00000170540	ENSG00000170540			697	protein-coding gene	gene with protein product		607669	"ADP-ribosylation factor-like 6 interacting protein"	ARL6IP		24482476	Standard	NM_015161		Approved	AIP1, ARMER, KIAA0069, SPG61	uc002dfl.1	Q15041	OTTHUMG00000131367	ENST00000304414.7:c.306G>A	16.37:g.18806888C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000304414.7	37	CCDS10572.1																																																																																				0.383	ARL6IP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254156.2	NM_015161		T	18806888	C	T	18806888	2	4	668	1	0	0	0	0	0	0	0	1	942	796	28	2		2	ARL6IP1	16	18806888	Silent	SNP	C	TCGA-KN-8432-01A-11D-2310-10	17771986	18806888	71547865	98	42771										
NLRC5	84166	ucsc.edu;bcgsc.ca	37	chr16	57057697	57057697	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	cccttcctttgctttttcagGcctgaagcgcccacatcaga	7	15	2	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr16:57057697G>T	ENST00000262510.6	+	5	581	c.356G>T	c.(355-357)gGc>gTc	p.G119V	NLRC5_ENST00000436936.1_Splice_Site_p.G119V|NLRC5_ENST00000308149.7_Splice_Site_p.G119V|NLRC5_ENST00000539144.1_Splice_Site_p.G119V	NM_032206.4	NP_115582.4	Q86WI3	NLRC5_HUMAN	NLR family, CARD domain containing 5	119					defense response to virus (GO:0051607)|innate immune response (GO:0045087)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of type I interferon production (GO:0032480)|negative regulation of type I interferon-mediated signaling pathway (GO:0060339)|positive regulation of interferon-gamma-mediated signaling pathway (GO:0060335)|positive regulation of MHC class I biosynthetic process (GO:0045345)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of type I interferon-mediated signaling pathway (GO:0060340)|regulation of kinase activity (GO:0043549)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	ATP binding (GO:0005524)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)			NS(2)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(16)|lung(21)|ovary(8)|prostate(1)|skin(6)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	75		all_neural(199;0.225)				GCTTTTTCAGGCCTGAAGCGC	0.592																																																0													44	40	41					16																	57057697		2198	4300	6498	SO:0001630	splice_region_variant	84166			AF389420	CCDS10773.1	16q13	2008-02-05			ENSG00000140853	ENSG00000140853		"Nucleotide-binding domain and leucine rich repeat containing"	29933	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and CARD domain containing 5", "NOD-like receptor C5"	613537				12615073	Standard	NM_032206		Approved	NOD27, CLR16.1, FLJ21709	uc021tiu.1	Q86WI3	OTTHUMG00000133470	ENST00000262510.6:c.356-1G>T	16.37:g.57057697G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B5MEF1|C9JMD8|Q6P4A6|Q86VM7|Q8NF42|Q8TEE2|Q8TEJ1|Q969L7	Missense_Mutation	SNP	ENST00000262510.6	37	CCDS10773.1	.	.	.	.	.	.	.	.	.	.	G	11.19	1.564515	0.27915	.	.	ENSG00000140853	ENST00000262510;ENST00000308149;ENST00000436936;ENST00000539144	T;T;T;T	0.75050	-0.7;-0.71;-0.9;-0.71	4.62	2.64	0.31445	.	0.000000	0.33005	N	0.005397	T	0.64034	0.2562	L	0.56769	1.78	0.45995	D	0.998801	B	0.26195	0.144	B	0.20955	0.032	T	0.54951	-0.8216	9	.	.	.	.	6.2817	0.21011	0.1009:0.1866:0.7125:0.0	.	119	Q86WI3	NLRC5_HUMAN	V	119	ENSP00000262510:G119V;ENSP00000308886:G119V;ENSP00000389739:G119V;ENSP00000441727:G119V	.	G	+	2	0	NLRC5	55615198	0.743000	0.28239	0.804000	0.32291	0.857000	0.48899	0.785000	0.26830	0.557000	0.29117	0.557000	0.71058	GGC		0.592	NLRC5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257346.1	NM_032206	Missense_Mutation	T	57057697	G	T	57057697	5	4	668	1	0	0	0	0	0	0	1	0	10477	1217	42	4	366	4	NLRC5	16	57057697	Splice_Site	SNP	G	TCGA-KN-8432-01A-11D-2310-10	38250809	57057697	33297056	99	42772										
CALB2	794	broad.mit.edu;ucsc.edu	37	chr16	71419536	71419536	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gcccttttgaaggatctgtaCgagaaaaacaaaaaggtgag	11	6	1	3	rs139080757		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr16:71419536C>T	ENST00000302628.4	+	10	761	c.684C>T	c.(682-684)taC>taT	p.Y228Y	CALB2_ENST00000349553.5_3'UTR	NM_001740.4	NP_001731.2	P22676	CALB2_HUMAN	calbindin 2	228	EF-hand 5. {ECO:0000255|PROSITE- ProRule:PRU00448}.				cytosolic calcium ion homeostasis (GO:0051480)	cytoplasm (GO:0005737)|gap junction (GO:0005921)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)			NS(1)|breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(7)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	18		Ovarian(137;0.125)				AGGATCTGTACGAGAAAAACA	0.577																																																0								C	,	1,4395		0,1,2197	51	47	48		684,	-4.6	0.8	16	dbSNP_134	48	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous,utr-3	CALB2	NM_001740.4,NM_007088.3	,	0,2,6496	TT,TC,CC		0.0116,0.0227,0.0154	,	228/272,	71419536	2,12994	2198	4300	6498	SO:0001819	synonymous_variant	794			X56667	CCDS10899.1	16q22.2	2013-01-10	2008-05-19		ENSG00000172137	ENSG00000172137		"EF-hand domain containing"	1435	protein-coding gene	gene with protein product	"calretinin"	114051	"calbindin 2, 29kDa (calretinin)"			1906795	Standard	NM_001740		Approved	CAL2	uc002faa.4	P22676	OTTHUMG00000137589	ENST00000302628.4:c.684C>T	16.37:g.71419536C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K4Y1|Q53HD2|Q96BK4	Silent	SNP	ENST00000302628.4	37	CCDS10899.1																																																																																				0.577	CALB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268988.1	NM_001740		T	71419536	C	T	71419536	2	4	668	1	0	0	0	0	0	0	0	1	2576	547	19	1		1	CALB2	16	71419536	Silent	SNP	C	TCGA-KN-8432-01A-11D-2310-10	14361839	71419536	18935217	100	42773										
FANCA	2175	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr16	89838101	89838101	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	cctaccatgtgttcccgtggCtccagtctcggcgtgttgat	11	13	1	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr16:89838101C>T	ENST00000389301.3	-	23	2166	c.2136G>A	c.(2134-2136)gaG>gaA	p.E712E	FANCA_ENST00000567284.2_5'UTR|FANCA_ENST00000568369.1_Silent_p.E712E	NM_000135.2	NP_000126.2	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A	712					DNA repair (GO:0006281)|female gonad development (GO:0008585)|male gonad development (GO:0008584)|male meiosis (GO:0007140)|protein complex assembly (GO:0006461)|regulation of cell proliferation (GO:0042127)	cytoplasm (GO:0005737)|Fanconi anaemia nuclear complex (GO:0043240)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				breast(5)|central_nervous_system(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(16)|ovary(3)|skin(2)|urinary_tract(3)	47		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		GTTCCCGTGGCTCCAGTCTCG	0.517			"D, Mis, N, F, S"			"AML, leukemia"		Involved in tolerance or repair of DNA crosslinks	Fanconi Anemia																													yes	Rec		Fanconi anaemia A	16	16q24.3	2175	"Fanconi anemia, complementation group A"		L	0													172	142	152					16																	89838101		2198	4300	6498	SO:0001819	synonymous_variant	2175	Familial Cancer Database	Pancytopenia Dysmelia, FA (several complementation groups)	Z83067	CCDS32515.1, CCDS42221.1, CCDS67099.1	16q24.3	2014-09-17			ENSG00000187741	ENSG00000187741		"Fanconi anemia, complementation groups"	3582	protein-coding gene	gene with protein product		607139		FACA, FANCH		7581462, 9382107	Standard	NM_001286167		Approved	FAA, FA-H, FAH	uc002fou.1	O15360		ENST00000389301.3:c.2136G>A	16.37:g.89838101C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A5D923|B4DRI7|H3BSR5|O75266|Q6PL10|Q92497|Q96H18|Q9UEA5|Q9UEL8|Q9UEL9|Q9UPK3|Q9Y6M2	Silent	SNP	ENST00000389301.3	37	CCDS32515.1																																																																																				0.517	FANCA-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000421927.1			T	89838101	C	T	89838101	2	4	668	1	0	0	0	0	0	0	0	1	5669	796	28	2		2	FANCA	16	89838101	Silent	SNP	C	TCGA-KN-8432-01A-11D-2310-10	18418565	89838101	516652	101	42774										
SUPT6H	6830	hgsc.bcm.edu;bcgsc.ca	37	chr17	27028052	27028052	+	Nonsense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gccagcccatcaccacccctCagtaccaccagctccaggcc	6	22	2	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr17:27028052C>T	ENST00000314616.6	+	36	5183	c.4900C>T	c.(4900-4902)Cag>Tag	p.Q1634*	SUPT6H_ENST00000347486.4_Nonsense_Mutation_p.Q1634*	NM_003170.3	NP_003161.2	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog (S. cerevisiae)	1634	Interaction with histone H2B and H3.				chromatin remodeling (GO:0006338)|mRNA processing (GO:0006397)|mRNA transport (GO:0051028)|negative regulation of histone H3-K27 methylation (GO:0061086)|positive regulation of transcription elongation from RNA polymerase II promoter (GO:0032968)|regulation of isotype switching (GO:0045191)|regulation of mRNA export from nucleus (GO:0010793)|regulation of mRNA processing (GO:0050684)|regulation of muscle cell differentiation (GO:0051147)|regulation of transcription, DNA-templated (GO:0006355)|RNA splicing (GO:0008380)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone binding (GO:0042393)|hydrolase activity, acting on ester bonds (GO:0016788)|poly(A) RNA binding (GO:0044822)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(4)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(9)|kidney(2)|large_intestine(15)|lung(21)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	64	Lung NSC(42;0.00431)					CACCACCCCTCAGTACCACCA	0.642																																																0													185	172	176					17																	27028052		2203	4300	6503	SO:0001587	stop_gained	6830			U38658	CCDS32596.1	17q11.2	2013-02-14	2001-11-28			ENSG00000109111		"SH2 domain containing"	11470	protein-coding gene	gene with protein product		601333	"suppressor of Ty (S.cerevisiae) 6 homolog"			8786132	Standard	XM_005258026		Approved	KIAA0162, SPT6H	uc002hby.3	Q7KZ85		ENST00000314616.6:c.4900C>T	17.37:g.27028052C>T	ENSP00000319104:p.Gln1634*	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2B4|Q15737|Q6GMQ4|Q7KYW9|Q7LDK4|Q8N526|Q92775|Q96AH3|Q9BTH9|Q9BTI2	Nonsense_Mutation	SNP	ENST00000314616.6	37	CCDS32596.1	.	.	.	.	.	.	.	.	.	.	C	46	12.401632	0.99664	.	.	ENSG00000109111	ENST00000314616;ENST00000347486	.	.	.	5.23	5.23	0.72850	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-9.7182	18.8074	0.92043	0.0:1.0:0.0:0.0	.	.	.	.	X	1634;634	.	ENSP00000319104:Q1634X	Q	+	1	0	SUPT6H	24052179	1.000000	0.71417	0.988000	0.46212	0.899000	0.52679	7.209000	0.77916	2.465000	0.83290	0.650000	0.86243	CAG		0.642	SUPT6H-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000446422.2	NM_003170		T	27028052	C	T	27028052	4	4	668	1	0	0	0	0	0	1	0	0	15412	827	29	2	5038	2	SUPT6H	17	27028052	Nonsense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10		27028052	54167158	102	42775										
ERBB2	2064	bcgsc.ca	37	chr17	37881117	37881117	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	atgtccgggaaaaccgcggaCgcctgggctcccaggacctg	14	14	0	0	rs542027040		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr17:37881117C>T	ENST00000269571.5	+	20	2605	c.2446C>T	c.(2446-2448)Cgc>Tgc	p.R816C	ERBB2_ENST00000541774.1_Missense_Mutation_p.R801C|MIR4728_ENST00000580969.1_RNA|ERBB2_ENST00000445658.2_Missense_Mutation_p.R540C|ERBB2_ENST00000584450.1_Missense_Mutation_p.R816C|ERBB2_ENST00000406381.2_Missense_Mutation_p.R786C|ERBB2_ENST00000540147.1_Missense_Mutation_p.R786C|ERBB2_ENST00000584601.1_Missense_Mutation_p.R786C			P04626	ERBB2_HUMAN	v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2	816	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				axon guidance (GO:0007411)|cell proliferation (GO:0008283)|cell surface receptor signaling pathway (GO:0007166)|enzyme linked receptor protein signaling pathway (GO:0007167)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|motor neuron axon guidance (GO:0008045)|myelination (GO:0042552)|negative regulation of immature T cell proliferation in thymus (GO:0033088)|neuromuscular junction development (GO:0007528)|neurotrophin TRK receptor signaling pathway (GO:0048011)|oligodendrocyte differentiation (GO:0048709)|peptidyl-tyrosine phosphorylation (GO:0018108)|peripheral nervous system development (GO:0007422)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell adhesion (GO:0045785)|positive regulation of cell growth (GO:0030307)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of transcription from RNA polymerase I promoter (GO:0045943)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|positive regulation of translation (GO:0045727)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of angiogenesis (GO:0045765)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of microtubule-based process (GO:0032886)|signal transduction (GO:0007165)|signal transduction by phosphorylation (GO:0023014)|transcription, DNA-templated (GO:0006351)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|wound healing (GO:0042060)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|endosome membrane (GO:0010008)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|ErbB-3 class receptor binding (GO:0043125)|identical protein binding (GO:0042802)|protein C-terminus binding (GO:0008022)|protein dimerization activity (GO:0046983)|protein heterodimerization activity (GO:0046982)|protein phosphatase binding (GO:0019903)|protein tyrosine kinase activity (GO:0004713)|receptor signaling protein tyrosine kinase activity (GO:0004716)|RNA polymerase I core binding (GO:0001042)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)|transmembrane signaling receptor activity (GO:0004888)			NS(1)|breast(16)|central_nervous_system(17)|endometrium(6)|haematopoietic_and_lymphoid_tissue(8)|kidney(4)|large_intestine(16)|liver(3)|lung(125)|ovary(18)|pancreas(1)|prostate(4)|skin(1)|stomach(14)|upper_aerodigestive_tract(9)|urinary_tract(4)	247	all_cancers(6;1.06e-93)|all_epithelial(6;2.33e-113)|Breast(7;9.37e-100)|Lung NSC(9;9.76e-10)|all_lung(9;5.34e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)	Ovarian(249;0.0547)|Colorectal(1115;0.234)	UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Epithelial(3;9.42e-64)|all cancers(3;5.61e-57)|BRCA - Breast invasive adenocarcinoma(8;2.5e-45)|STAD - Stomach adenocarcinoma(3;9.03e-13)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0767)	ado-trastuzumab emtansine(DB05773)|Afatinib(DB08916)|Lapatinib(DB01259)|Pertuzumab(DB06366)|Trastuzumab(DB00072)	AAACCGCGGACGCCTGGGCTC	0.592		1	"A, Mis, O"		"breast, ovarian, other tumour types, NSCLC, gastric"					TCGA GBM(5;<1E-08)			C|||	1	0.000199681	0.0	0.0	5008	,	,		18540	0.0		0.0	False		,,,				2504	0.001						Dom	yes		17	17q21.1	2064	"v-erb-b2 erythroblastic leukemia viral oncogene homolog 2, neuro/glioblastoma derived oncogene homolog (avian)"		E	0													55	54	54					17																	37881117		2203	4300	6503	SO:0001583	missense	2064			X03363	CCDS32642.1, CCDS45667.1, CCDS74052.1	17q11.2-q12	2014-09-17	2013-07-09			ENSG00000141736		"CD molecules"	3430	protein-coding gene	gene with protein product	"neuro/glioblastoma derived oncogene homolog"	164870	"v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2 (neuro/glioblastoma derived oncogene homolog)"	NGL			Standard	XM_005257140		Approved	NEU, HER-2, CD340, HER2	uc002hso.3	P04626		ENST00000269571.5:c.2446C>T	17.37:g.37881117C>T	ENSP00000269571:p.Arg816Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RZG3|B4DHN3|Q14256|Q6LDV1|Q9UMK4|X5D2V5	Missense_Mutation	SNP	ENST00000269571.5	37	CCDS32642.1	.	.	.	.	.	.	.	.	.	.	C	13.25	2.181207	0.38511	.	.	ENSG00000141736	ENST00000406381;ENST00000541774;ENST00000445658;ENST00000269571;ENST00000540147	D;D;D;D;D	0.83250	-1.7;-1.7;-1.7;-1.7;-1.7	5.15	4.14	0.48551	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	.	.	.	.	D	0.89033	0.6600	M	0.62088	1.915	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.76071	0.974;0.987;0.974	D	0.89754	0.3942	9	0.62326	D	0.03	.	14.6498	0.68789	0.1461:0.8539:0.0:0.0	.	540;801;816	B4DTR1;P04626-4;P04626	.;.;ERBB2_HUMAN	C	786;801;540;816;786	ENSP00000385185:R786C;ENSP00000446466:R801C;ENSP00000404047:R540C;ENSP00000269571:R816C;ENSP00000443562:R786C	ENSP00000269571:R816C	R	+	1	0	ERBB2	35134643	0.730000	0.28100	0.949000	0.38748	0.972000	0.66771	0.936000	0.28938	2.397000	0.81536	0.563000	0.77884	CGC		0.592	ERBB2-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445621.2			T	37881117	C	T	37881117	3	4	668	1	0	0	0	0	1	0	0	0	5208	536	19	1	2524	1	ERBB2	17	37881117	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	10853065	37881117	43314093	103	42776										
RAPGEFL1	51195	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr17	38346943	38346943	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ctggagacacagagatccacCgagtggagcctgaggacgtt	14	10	0	3			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr17:38346943C>T	ENST00000456989.2	+	8	857	c.811C>T	c.(811-813)Cga>Tga	p.R271*	RAPGEFL1_ENST00000436615.3_Nonsense_Mutation_p.R216*|RAPGEFL1_ENST00000540388.1_3'UTR|RAPGEFL1_ENST00000264644.6_Nonsense_Mutation_p.R216*|RAPGEFL1_ENST00000544503.1_Nonsense_Mutation_p.R265*			Q9UHV5	RPGFL_HUMAN	Rap guanine nucleotide exchange factor (GEF)-like 1	422					G-protein coupled receptor signaling pathway (GO:0007186)|nervous system development (GO:0007399)|positive regulation of GTPase activity (GO:0043547)|small GTPase mediated signal transduction (GO:0007264)	membrane (GO:0016020)	guanyl-nucleotide exchange factor activity (GO:0005085)			breast(1)|central_nervous_system(2)|kidney(1)|large_intestine(2)|lung(5)|ovary(1)|prostate(2)|skin(1)	15						AGAGATCCACCGAGTGGAGCC	0.647																																					Esophageal Squamous(28;274 750 6870 14218 42203)											0													132	115	121					17																	38346943		2203	4300	6503	SO:0001587	stop_gained	51195			AF117946	CCDS11363.1	17q21.2	2006-08-01	2004-03-26		ENSG00000108352	ENSG00000108352			17428	protein-coding gene	gene with protein product	"Link guanine nucleotide exchange factor II"		"RAP guanine-nucleotide-exchange factor (GEF)-like 1"				Standard	NM_016339		Approved	Link-GEFII	uc010cwu.1	Q9UHV5	OTTHUMG00000133325	ENST00000456989.2:c.811C>T	17.37:g.38346943C>T	ENSP00000394530:p.Arg271*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000456989.2	37		.	.	.	.	.	.	.	.	.	.	C	41	8.578792	0.98870	.	.	ENSG00000108352	ENST00000456989;ENST00000544503;ENST00000537255;ENST00000264644;ENST00000436615	.	.	.	5.31	5.31	0.75309	.	0.402136	0.23380	N	0.048804	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.34782	T	0.22	.	13.1138	0.59289	0.1606:0.8394:0.0:0.0	.	.	.	.	X	271;265;216;421;216	.	ENSP00000264644:R421X	R	+	1	2	RAPGEFL1	35600469	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	4.201000	0.58439	2.635000	0.89317	0.591000	0.81541	CGA		0.647	RAPGEFL1-005	PUTATIVE	non_canonical_conserved|basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000397518.1	NM_016339		T	38346943	C	T	38346943	4	4	668	1	0	0	0	0	0	1	0	0	13062	644	23	1	668	1	RAPGEFL1	17	38346943	Nonsense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	465826	38346943	42848267	104	42777										
STAT5B	6777	broad.mit.edu	37	chr17	40364022	40364022	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	cctgttgaactgggaccaggAcacagacaggccactgtagt	12	11	0	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr17:40364022A>G	ENST00000293328.3	-	13	1828	c.1660T>C	c.(1660-1662)Tcc>Ccc	p.S554P		NM_012448.3	NP_036580.2	P51692	STA5B_HUMAN	signal transducer and activator of transcription 5B	554					2-oxoglutarate metabolic process (GO:0006103)|acute-phase response (GO:0006953)|allantoin metabolic process (GO:0000255)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to growth factor stimulus (GO:0071363)|cellular response to hormone stimulus (GO:0032870)|citrate metabolic process (GO:0006101)|creatine metabolic process (GO:0006600)|creatinine metabolic process (GO:0046449)|development of secondary female sexual characteristics (GO:0046543)|development of secondary male sexual characteristics (GO:0046544)|fatty acid metabolic process (GO:0006631)|female pregnancy (GO:0007565)|isoleucine metabolic process (GO:0006549)|JAK-STAT cascade (GO:0007259)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|lactation (GO:0007595)|lipid storage (GO:0019915)|liver development (GO:0001889)|luteinization (GO:0001553)|natural killer cell differentiation (GO:0001779)|negative regulation of apoptotic process (GO:0043066)|negative regulation of erythrocyte differentiation (GO:0045647)|oxaloacetate metabolic process (GO:0006107)|Peyer's patch development (GO:0048541)|positive regulation of activated T cell proliferation (GO:0042104)|positive regulation of B cell differentiation (GO:0045579)|positive regulation of cellular component movement (GO:0051272)|positive regulation of gamma-delta T cell differentiation (GO:0045588)|positive regulation of inflammatory response (GO:0050729)|positive regulation of interleukin-2 biosynthetic process (GO:0045086)|positive regulation of mitotic cell cycle (GO:0045931)|positive regulation of multicellular organism growth (GO:0040018)|positive regulation of natural killer cell differentiation (GO:0032825)|positive regulation of natural killer cell mediated cytotoxicity (GO:0045954)|positive regulation of natural killer cell proliferation (GO:0032819)|positive regulation of smooth muscle cell proliferation (GO:0048661)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|progesterone metabolic process (GO:0042448)|prolactin signaling pathway (GO:0038161)|regulation of cell adhesion (GO:0030155)|regulation of epithelial cell differentiation (GO:0030856)|regulation of multicellular organism growth (GO:0040014)|regulation of steroid metabolic process (GO:0019218)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to estradiol (GO:0032355)|response to ethanol (GO:0045471)|response to hypoxia (GO:0001666)|response to interleukin-15 (GO:0070672)|response to interleukin-2 (GO:0070669)|response to interleukin-4 (GO:0070670)|response to lipopolysaccharide (GO:0032496)|succinate metabolic process (GO:0006105)|T cell differentiation in thymus (GO:0033077)|T cell homeostasis (GO:0043029)|taurine metabolic process (GO:0019530)|transcription from RNA polymerase II promoter (GO:0006366)|valine metabolic process (GO:0006573)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|chromatin binding (GO:0003682)|double-stranded DNA binding (GO:0003690)|glucocorticoid receptor binding (GO:0035259)|protein dimerization activity (GO:0046983)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)			breast(2)|endometrium(3)|kidney(2)|large_intestine(5)|lung(5)|ovary(3)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	27		all_cancers(22;4.15e-07)|all_epithelial(22;2.83e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.135)	Dasatinib(DB01254)	TGGGACCAGGACACAGACAGG	0.607																																																0													63	50	54					17																	40364022		2203	4300	6503	SO:0001583	missense	6777			BC065227	CCDS11423.1	17q11.2	2014-09-17			ENSG00000173757	ENSG00000173757		"SH2 domain containing"	11367	protein-coding gene	gene with protein product		604260				8631883	Standard	NM_012448		Approved		uc002hzh.3	P51692	OTTHUMG00000150724	ENST00000293328.3:c.1660T>C	17.37:g.40364022A>G	ENSP00000293328:p.Ser554Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WWS8	Missense_Mutation	SNP	ENST00000293328.3	37	CCDS11423.1	.	.	.	.	.	.	.	.	.	.	A	21.3	4.128074	0.77549	.	.	ENSG00000173757	ENST00000293328	D	0.88664	-2.41	5.42	5.42	0.78866	STAT transcription factor, DNA-binding (1);p53-like transcription factor, DNA-binding (1);EF-hand-like domain (1);	0.095971	0.64402	D	0.000001	D	0.91935	0.7446	L	0.45422	1.42	0.52501	D	0.999959	D	0.64830	0.994	D	0.71184	0.972	D	0.92839	0.6287	10	0.87932	D	0	-3.9242	15.6229	0.76820	1.0:0.0:0.0:0.0	.	554	P51692	STA5B_HUMAN	P	554	ENSP00000293328:S554P	ENSP00000293328:S554P	S	-	1	0	STAT5B	37617548	1.000000	0.71417	1.000000	0.80357	0.773000	0.43773	5.667000	0.68067	2.279000	0.76181	0.402000	0.26972	TCC		0.607	STAT5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319797.1	NM_012448		G	40364022	A	G	40364022	3	3	668	1	0	0	0	0	1	0	0	0	15281	275	10	3	731	3	STAT5B	17	40364022	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10	2017079	40364022	40831188	105	42778										
SCN4A	6329	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr17	62021160	62021160	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gagccaagcttcttcatggcGttatagtatttcttctgttc	8	9	4	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr17:62021160G>A	ENST00000435607.1	-	22	4039	c.3963C>T	c.(3961-3963)aaC>aaT	p.N1321N	SCN4A_ENST00000578147.1_Silent_p.N1321N	NM_000334.4	NP_000325.4	P35499	SCN4A_HUMAN	sodium channel, voltage-gated, type IV, alpha subunit	1321					membrane depolarization during action potential (GO:0086010)|muscle contraction (GO:0006936)|neuronal action potential (GO:0019228)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)			breast(4)|central_nervous_system(3)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(23)|lung(40)|ovary(3)|pancreas(1)|prostate(6)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	101					Diclofenac(DB00586)|Flecainide(DB01195)|Propofol(DB00818)|Valproic Acid(DB00313)|Zonisamide(DB00909)	TCTTCATGGCGTTATAGTATT	0.547																																																0													98	99	99					17																	62021160		2157	4294	6451	SO:0001819	synonymous_variant	6329			U24693		17q23.3	2012-02-26	2007-01-23					"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10591	protein-coding gene	gene with protein product		603967		HYKPP		1654742, 1659948, 16382098	Standard	XM_005257566		Approved	Nav1.4, HYPP, SkM1	uc002jds.1	P35499		ENST00000435607.1:c.3963C>T	17.37:g.62021160G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q15478|Q16447|Q7Z6B1	Silent	SNP	ENST00000435607.1	37	CCDS45761.1																																																																																				0.547	SCN4A-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_000334		A	62021160	G	A	62021160	2	1	668	1	0	0	0	0	0	0	0	1	13933	1136	40	1		1	SCN4A	17	62021160	Silent	SNP	G	TCGA-KN-8432-01A-11D-2310-10	21657138	62021160	19174050	106	42779										
CCDC137	339230	broad.mit.edu;bcgsc.ca	37	chr17	79633801	79633801	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gcctcccggcgtggagatggCgggagctggtcgcggagcag	20	11	0	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr17:79633801C>T	ENST00000329214.8	+	1	408	c.5C>T	c.(4-6)gCg>gTg	p.A2V	OXLD1_ENST00000374741.3_5'Flank|OXLD1_ENST00000573786.1_5'Flank|OXLD1_ENST00000571503.1_5'Flank	NM_199287.2	NP_954981.1	Q6PK04	CC137_HUMAN	coiled-coil domain containing 137	2							poly(A) RNA binding (GO:0044822)			NS(1)|central_nervous_system(2)|endometrium(2)|large_intestine(5)|lung(2)	12	all_neural(118;0.0878)|all_lung(278;0.23)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			GTGGAGATGGCGGGAGCTGGT	0.716																																																0													15	23	20					17																	79633801		2120	4226	6346	SO:0001583	missense	339230			BC009369	CCDS42400.1	17q25.3	2008-07-04				ENSG00000185298			33451	protein-coding gene	gene with protein product		614271					Standard	NM_199287		Approved	MGC16597	uc002kbc.4	Q6PK04		ENST00000329214.8:c.5C>T	17.37:g.79633801C>T	ENSP00000329360:p.Ala2Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000329214.8	37	CCDS42400.1	.	.	.	.	.	.	.	.	.	.	C	14.41	2.527202	0.44969	.	.	ENSG00000185298	ENST00000329214	T	0.22336	1.96	3.0	0.871	0.19107	.	0.877314	0.09590	N	0.781616	T	0.21718	0.0523	L	0.51422	1.61	0.22531	N	0.999019	D	0.63880	0.993	P	0.46452	0.517	T	0.19647	-1.0299	10	0.30078	T	0.28	.	7.5055	0.27542	0.4677:0.5323:0.0:0.0	.	2	Q6PK04	CC137_HUMAN	V	2	ENSP00000329360:A2V	ENSP00000329360:A2V	A	+	2	0	CCDC137	77244206	0.000000	0.05858	0.345000	0.25642	0.004000	0.04260	-2.213000	0.01224	0.269000	0.21961	-0.311000	0.09066	GCG		0.716	CCDC137-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440387.1			T	79633801	C	T	79633801	3	4	668	1	0	0	0	0	1	0	0	0	2773	768	27	1	7	1	CCDC137	17	79633801	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	17612641	79633801	1561409	107	42780										
KIAA1012	22878	broad.mit.edu	37	chr18	29450409	29450409	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ccaaagcaatgacaaatcagTcaacaaaagtagaactttca	5	9	3	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr18:29450409T>C	ENST00000283351.4	-	16	2649	c.2314A>G	c.(2314-2316)Act>Gct	p.T772A	TRAPPC8_ENST00000582539.1_Missense_Mutation_p.T718A	NM_014939.3	NP_055754	Q9Y2L5	TPPC8_HUMAN	trafficking protein particle complex 8	772					vesicle-mediated transport (GO:0016192)	Golgi apparatus (GO:0005794)				breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(6)|large_intestine(7)|liver(2)|lung(13)|ovary(6)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	47						GACAAATCAGTCAACAAAAGT	0.289																																																0													62	63	63					18																	29450409		2202	4297	6499	SO:0001583	missense	22878			AB023229	CCDS11901.1	18q12.1	2011-10-10	2010-06-29	2010-06-29	ENSG00000153339	ENSG00000153339		"Trafficking protein particle complex"	29169	protein-coding gene	gene with protein product	"general sporulation gene 1 homolog (S. cerevisiae)"	614136	"KIAA1012"	KIAA1012		10231032, 11230166	Standard	NM_014939		Approved	HsT2706, TRS85, GSG1	uc002kxc.4	Q9Y2L5	OTTHUMG00000132267	ENST00000283351.4:c.2314A>G	18.37:g.29450409T>C	ENSP00000283351:p.Thr772Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A0JP15|B3KME5|Q9H0L2	Missense_Mutation	SNP	ENST00000283351.4	37	CCDS11901.1	.	.	.	.	.	.	.	.	.	.	T	11.99	1.803684	0.31869	.	.	ENSG00000153339	ENST00000283351	T	0.08282	3.11	5.98	4.8	0.61643	.	0.099720	0.64402	D	0.000001	T	0.09598	0.0236	L	0.45581	1.43	0.80722	D	1	B	0.09022	0.002	B	0.09377	0.004	T	0.06162	-1.0842	10	0.42905	T	0.14	.	12.2287	0.54476	0.1311:0.0:0.0:0.8689	.	772	Q9Y2L5	TPPC8_HUMAN	A	772	ENSP00000283351:T772A	ENSP00000283351:T772A	T	-	1	0	TRAPPC8	27704407	1.000000	0.71417	1.000000	0.80357	0.953000	0.61014	2.958000	0.49145	1.042000	0.40150	0.528000	0.53228	ACT		0.289	TRAPPC8-001	KNOWN	NAGNAG_splice_site|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255355.1	NM_014939		C	29450409	T	C	29450409	3	2	668	1	0	0	0	0	1	0	0	0	8211	1667	58	3	2049	3	KIAA1012	18	29450409	Missense_Mutation	SNP	T	TCGA-KN-8432-01A-11D-2310-10		29450409	48626839	108	42781										
MALT1	10892	broad.mit.edu	37	chr18	56414969	56414969	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gatgcatttatttcaagtttCgctcaccatgcttcatgtca	6	10	4	0	rs200126163		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr18:56414969C>T	ENST00000348428.3	+	17	2628	c.2370C>T	c.(2368-2370)ttC>ttT	p.F790F	MALT1_ENST00000345724.3_Silent_p.F779F|RP11-126O1.4_ENST00000588835.1_RNA	NM_006785.2|NM_173844.1	NP_006776.1|NP_776216.1	Q9UDY8	MALT1_HUMAN	mucosa associated lymphoid tissue lymphoma translocation gene 1	790					activation of NF-kappaB-inducing kinase activity (GO:0007250)|B-1 B cell differentiation (GO:0001923)|defense response (GO:0006952)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|negative regulation of apoptotic process (GO:0043066)|nuclear export (GO:0051168)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interleukin-2 production (GO:0032743)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of T cell activation (GO:0050870)|positive regulation of T cell cytokine production (GO:0002726)|protein oligomerization (GO:0051259)|protein ubiquitination (GO:0016567)|proteolysis (GO:0006508)|regulation of apoptotic process (GO:0042981)|regulation of T cell receptor signaling pathway (GO:0050856)|response to fungus (GO:0009620)|response to molecule of bacterial origin (GO:0002237)|T cell proliferation (GO:0042098)|T cell receptor signaling pathway (GO:0050852)	CBM complex (GO:0032449)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	cysteine-type endopeptidase activity (GO:0004197)|peptidase activity (GO:0008233)|protein self-association (GO:0043621)|signal transducer activity (GO:0004871)|ubiquitin-protein transferase activity (GO:0004842)			central_nervous_system(1)|large_intestine(7)|lung(1)|ovary(2)|skin(1)	12						TTTCAAGTTTCGCTCACCATG	0.403			T	BIRC3	MALT								C|||	1	0.000199681	0.0008	0.0	5008	,	,		21654	0.0		0.0	False		,,,				2504	0.0						Dom	yes		18	18q21	10892	mucosa associated lymphoid tissue lymphoma translocation gene 1		L	0								C	,	0,4406		0,0,2203	157	154	155		2370,2337	-7.5	0	18		155	3,8597	3.0+/-9.4	0,3,4297	no	coding-synonymous,coding-synonymous	MALT1	NM_006785.2,NM_173844.1	,	0,3,6500	TT,TC,CC		0.0349,0.0,0.0231	,	790/825,779/814	56414969	3,13003	2203	4300	6503	SO:0001819	synonymous_variant	10892				CCDS11967.1, CCDS11968.1	18q21	2013-01-11			ENSG00000172175	ENSG00000172175		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6819	protein-coding gene	gene with protein product	"paracaspase"	604860		MLT		10339464, 10406266, 10523859	Standard	NM_006785		Approved		uc002lhm.1	Q9UDY8	OTTHUMG00000132761	ENST00000348428.3:c.2370C>T	18.37:g.56414969C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NTB7|Q9ULX4	Silent	SNP	ENST00000348428.3	37	CCDS11967.1																																																																																				0.403	MALT1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256132.2			T	56414969	C	T	56414969	2	4	668	1	0	0	0	0	0	0	0	1	9209	883	31	1		1	MALT1	18	56414969	Silent	SNP	C	TCGA-KN-8432-01A-11D-2310-10	26964560	56414969	21662279	109	42782										
ANGPTL4	51129	hgsc.bcm.edu;mdanderson.org	37	chr19	8429323	8429323	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	cgcgctttgcgtcctgggacGagatgaatgtcctggcgcac	14	12	0	2	rs116843064	byFrequency	TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr19:8429323G>A	ENST00000301455.2	+	1	289	c.118G>A	c.(118-120)Gag>Aag	p.E40K	ANGPTL4_ENST00000393962.2_Missense_Mutation_p.E40K|ANGPTL4_ENST00000541807.1_5'UTR	NM_139314.1	NP_647475.1	Q9BY76	ANGL4_HUMAN	angiopoietin-like 4	40			E -> K (associated with lower plasma levels of triglyceride and higher levels of HDL cholesterol; dbSNP:rs116843064). {ECO:0000269|PubMed:17322881}.		angiogenesis (GO:0001525)|cell differentiation (GO:0030154)|cellular lipid metabolic process (GO:0044255)|negative regulation of apoptotic process (GO:0043066)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of lipoprotein lipase activity (GO:0051005)|positive regulation of angiogenesis (GO:0045766)|protein homooligomerization (GO:0051260)|response to hypoxia (GO:0001666)|small molecule metabolic process (GO:0044281)|triglyceride homeostasis (GO:0070328)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)	enzyme inhibitor activity (GO:0004857)			large_intestine(1)|lung(1)|ovary(2)|skin(2)	6						GTCCTGGGACGAGATGAATGT	0.721													g|||	47	0.00938498	0.003	0.0245	5008	,	,		12942	0.0		0.0258	False		,,,				2504	0.0															0			GRCh37	CM071551	ANGPTL4	M	rs116843064		LYS/GLU,LYS/GLU	4,4192		0,4,2094	7	5	6	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	118,118	4.9	1	19	dbSNP_132	6	132,8100		1,130,3985	yes	missense,missense	ANGPTL4	NM_001039667.1,NM_139314.1	56,56	1,134,6079	AA,AG,GG		1.6035,0.0953,1.0943	probably-damaging,probably-damaging	40/369,40/407	8429323	136,12292	2098	4116	6214	SO:0001583	missense	51129			AF202636	CCDS12200.1, CCDS42493.1	19p13.3	2013-10-07				ENSG00000167772		"Fibrinogen C domain containing"	16039	protein-coding gene	gene with protein product	"fasting-induced adipose factor", "hepatic angiopoietin-related protein", "PPARG angiopoietin related protein", "hepatic fibrinogen/angiopoietin-related protein", "peroxisome proliferator-activated receptor (PPAR) gamma induced angiopoietin-related protein", "angiopoietin-related protein 4"	605910				10698685, 10866690, 23960078	Standard	NM_139314		Approved	pp1158, PGAR, ARP4, HFARP, FIAF, NL2	uc002mjq.1	Q9BY76		ENST00000301455.2:c.118G>A	19.37:g.8429323G>A	ENSP00000301455:p.Glu40Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8MY84|B4E089|D6W670|F5H0I2|Q53HQ6|Q53HU1|Q6UXN0|Q9HBV4|Q9NZU4|Q9Y5B3	Missense_Mutation	SNP	ENST00000301455.2	37	CCDS12200.1	33	0.01510989010989011	2	0.0040650406504065045	9	0.024861878453038673	0	0.0	22	0.029023746701846966	G	37	6.185911	0.97357	9.53E-4	0.016035	ENSG00000167772	ENST00000301455;ENST00000393962	T;T	0.60672	0.17;0.17	4.95	4.95	0.65309	.	0.244919	0.39210	U	0.001425	T	0.47600	0.1454	L	0.59436	1.845	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.63033	0.91;0.91	T	0.66337	-0.5949	10	0.72032	D	0.01	.	15.7013	0.77544	0.0:0.0:1.0:0.0	.	40;40	A8MY84;Q9BY76	.;ANGL4_HUMAN	K	40	ENSP00000301455:E40K;ENSP00000377534:E40K	ENSP00000301455:E40K	E	+	1	0	ANGPTL4	8335323	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	6.344000	0.72991	2.295000	0.77249	0.486000	0.48141	GAG		0.721	ANGPTL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460322.1	NM_139314		A	8429323	G	A	8429323	3	1	668	1	0	0	0	0	1	0	0	0	616	1059	37	1	120	1	ANGPTL4	19	8429323	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10		8429323	50699660	110	42783										
RLN3	117579	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	14139176	14139176	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gcgggggctcccggtggagaCgatcagacatcctggcccac	15	14	1	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr19:14139176C>T	ENST00000431365.2	+	1	217	c.160C>T	c.(160-162)Cga>Tga	p.R54*	CTB-55O6.4_ENST00000590528.1_RNA|RLN3_ENST00000585987.1_Nonsense_Mutation_p.R54*	NM_080864.2	NP_543140.1	Q8WXF3	REL3_HUMAN	relaxin 3	54						extracellular region (GO:0005576)				endometrium(1)|lung(4)	5						CCGGTGGAGACGATCAGACAT	0.642																																																0													46	49	48					19																	14139176		2203	4299	6502	SO:0001587	stop_gained	117579			AF447451	CCDS12302.1	19p13.2	2013-02-26	2004-11-15					"Endogenous ligands"	17135	protein-coding gene	gene with protein product	"prorelaxin H3"	606855	"relaxin 3 (H3)"				Standard	NM_080864		Approved	ZINS4, RXN3, H3	uc002mxw.1	Q8WXF3		ENST00000431365.2:c.160C>T	19.37:g.14139176C>T	ENSP00000397415:p.Arg54*	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXW5	Nonsense_Mutation	SNP	ENST00000431365.2	37	CCDS12302.1	.	.	.	.	.	.	.	.	.	.	C	20.7	4.029163	0.75504	.	.	ENSG00000171136	ENST00000431365	.	.	.	4.27	4.27	0.50696	.	0.128902	0.46442	D	0.000290	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-30.5073	13.9885	0.64350	0.0:1.0:0.0:0.0	.	.	.	.	X	54	.	ENSP00000397415:R54X	R	+	1	2	RLN3	14000176	1.000000	0.71417	0.650000	0.29550	0.202000	0.24057	3.267000	0.51577	2.093000	0.63338	0.491000	0.48974	CGA		0.642	RLN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458529.1			T	14139176	C	T	14139176	4	4	668	1	0	0	0	0	0	1	0	0	13406	528	19	1	162	1	RLN3	19	14139176	Nonsense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	5709853	14139176	44989807	111	42784										
CAPNS1	826	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	36632120	36632120	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ggcggagtcatcagcgccatCaggtaaggcggagactatca	14	10	4	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr19:36632120C>T	ENST00000246533.3	+	2	805	c.207C>T	c.(205-207)atC>atT	p.I69I	AD001527.7_ENST00000604228.1_RNA|CAPNS1_ENST00000587718.1_Silent_p.I69I|CAPNS1_ENST00000588780.1_Silent_p.I69I|CAPNS1_ENST00000589146.1_Intron|CAPNS1_ENST00000588815.1_Silent_p.I69I|CAPNS1_ENST00000590874.1_Silent_p.I69I	NM_001003962.1|NM_001749.2	NP_001003962.1|NP_001740.1	P04632	CPNS1_HUMAN	calpain, small subunit 1	69					extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|positive regulation of cell proliferation (GO:0008284)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)			cervix(1)|large_intestine(1)|lung(2)|upper_aerodigestive_tract(1)	5	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TCAGCGCCATCAGGTAAGGCG	0.692																																					Esophageal Squamous(129;1541 1691 5780 18353 34150)											0													10	9	9					19																	36632120		2183	4282	6465	SO:0001819	synonymous_variant	826			X04106	CCDS12489.1	19q13.1	2013-01-10		2001-08-10	ENSG00000126247	ENSG00000126247	3.4.22.52	"EF-hand domain containing"	1481	protein-coding gene	gene with protein product		114170		CAPN4		3024120, 3016651	Standard	NM_001003962		Approved	CANP, CANPS, 30K, CDPS	uc002odj.3	P04632		ENST00000246533.3:c.207C>T	19.37:g.36632120C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0P1|Q8WTX3|Q96EW0	Silent	SNP	ENST00000246533.3	37	CCDS12489.1																																																																																				0.692	CAPNS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457411.2			T	36632120	C	T	36632120	2	4	668	1	0	0	0	0	0	0	0	1	2635	816	29	2		2	CAPNS1	19	36632120	Silent	SNP	C	TCGA-KN-8432-01A-11D-2310-10	22492944	36632120	22496863	112	42785										
KCNN4	3783	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	44276195	44276195	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	cgatcttgccccacatggtgCccggcaccacgtcaccatag	9	17	2	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr19:44276195C>T	ENST00000262888.3	-	4	1171	c.776G>A	c.(775-777)gGc>gAc	p.G259D		NM_002250.2	NP_002241.1	O15554	KCNN4_HUMAN	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 4	259					calcium ion transport (GO:0006816)|cell volume homeostasis (GO:0006884)|defense response (GO:0006952)|immune system process (GO:0002376)|phospholipid translocation (GO:0045332)|positive regulation of protein secretion (GO:0050714)|positive regulation of T cell receptor signaling pathway (GO:0050862)|potassium ion export (GO:0071435)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|saliva secretion (GO:0046541)|stabilization of membrane potential (GO:0030322)|synaptic transmission (GO:0007268)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|membrane raft (GO:0045121)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	calcium-activated potassium channel activity (GO:0015269)|calmodulin binding (GO:0005516)|Intermediate conductance calcium-activated potassium channel activity (GO:0022894)|protein phosphatase binding (GO:0019903)			biliary_tract(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	15		Prostate(69;0.0352)			Clotrimazole(DB00257)|Enflurane(DB00228)|Halothane(DB01159)|Miconazole(DB01110)|Procaine(DB00721)|Quinine(DB00468)	CCACATGGTGCCCGGCACCAC	0.572																																																0													150	114	126					19																	44276195		2203	4300	6503	SO:0001583	missense	3783			AF022797	CCDS12630.1	19q13.2	2012-07-05				ENSG00000104783		"Potassium channels", "Voltage-gated ion channels / Potassium channels, calcium-activated"	6293	protein-coding gene	gene with protein product		602754				9380751, 9407042, 16382103	Standard	NM_002250		Approved	KCa3.1, hSK4, hKCa4, hIKCa1	uc002oxl.3	O15554		ENST00000262888.3:c.776G>A	19.37:g.44276195C>T	ENSP00000262888:p.Gly259Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q53XR4	Missense_Mutation	SNP	ENST00000262888.3	37	CCDS12630.1	.	.	.	.	.	.	.	.	.	.	C	15.91	2.972251	0.53614	.	.	ENSG00000104783	ENST00000262888;ENST00000407385	T	0.23552	1.9	5.28	5.28	0.74379	Ion transport 2 (1);	0.399496	0.28125	N	0.016502	T	0.18551	0.0445	N	0.11756	0.17	0.46478	D	0.999061	D;D	0.53312	0.959;0.959	P;P	0.47251	0.542;0.542	T	0.01280	-1.1397	10	0.51188	T	0.08	-20.4112	10.2688	0.43470	0.0:0.9096:0.0:0.0904	.	153;259	D1MQ10;O15554	.;KCNN4_HUMAN	D	259;127	ENSP00000262888:G259D	ENSP00000262888:G259D	G	-	2	0	KCNN4	48968035	0.551000	0.26497	0.990000	0.47175	0.990000	0.78478	1.525000	0.35953	2.648000	0.89879	0.561000	0.74099	GGC		0.572	KCNN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463598.1	NM_002250		T	44276195	C	T	44276195	3	4	668	1	0	0	0	0	1	0	0	0	8088	739	26	2	527	2	KCNN4	19	44276195	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	7644075	44276195	14852788	113	42786										
NUCB1	4924	broad.mit.edu	37	chr19	49425109	49425111	+	In_Frame_Del	DEL	AGC	AGC	-													0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gctgcacatggagcagcggaAgcagcagcagcagcagcagc							TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	AGC	AGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr19:49425109_49425111delAGC	ENST00000405315.4	+	12	1533_1535	c.1199_1201delAGC	c.(1198-1203)aagcag>aag	p.Q407del	NUCB1-AS1_ENST00000416432.1_RNA|NUCB1_ENST00000407032.1_In_Frame_Del_p.Q407del|NUCB1_ENST00000263273.5_In_Frame_Del_p.Q407del|NUCB1_ENST00000485798.1_3'UTR	NM_006184.5	NP_006175.2	Q02818	NUCB1_HUMAN	nucleobindin 1	407	Poly-Gln.					endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	calcium ion binding (GO:0005509)|DNA binding (GO:0003677)			cervix(1)|endometrium(4)|large_intestine(4)|lung(8)	17		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;8.64e-05)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000171)|all cancers(93;0.000333)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0244)		Gagcagcggaagcagcagcagca	0.64																																																0																																										SO:0001651	inframe_deletion	4924			BC002356	CCDS12740.1	19q13.33	2013-01-10			ENSG00000104805	ENSG00000104805		"EF-hand domain containing"	8043	protein-coding gene	gene with protein product		601323				8661046	Standard	NM_006184		Approved	NUC, Calnuc	uc002plb.4	Q02818	OTTHUMG00000152514	ENST00000405315.4:c.1199_1201delAGC	19.37:g.49425118_49425120delAGC	ENSP00000385923:p.Gln407del	Somatic		WXS	Illumina HiSeq	Phase_I	B2RD64|Q15838|Q7Z4J7|Q9BUR1	In_Frame_Del	DEL	ENST00000405315.4	37	CCDS12740.1																																																																																				0.64	NUCB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000326545.2	NM_006184		-	49425111	AGC	-	49425109	7	5	668	1	0	1	0	1	0	0	0	0	10725	72	3	0	1241	0	NUCB1	19	49425109	In_Frame_Del	DEL	AGC	TCGA-KN-8432-01A-11D-2310-10	5148914	49425109	9703874	114	42787										
KIR2DL1	3811	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	55285024	55285024	+	Intron	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	cctacagatgctacggttctGttactcactccccctatcag	6	15	3	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr19:55285024G>C	ENST00000538269.1	+	2	61				KIR2DL1_ENST00000336077.6_Missense_Mutation_p.V104L|KIR2DL4_ENST00000396284.2_Intron|KIR3DL1_ENST00000402254.2_Intron|KIR2DL3_ENST00000434419.2_Intron|KIR2DL1_ENST00000291633.7_Missense_Mutation_p.V104L|KIR3DL1_ENST00000541392.1_Intron|CTB-61M7.1_ENST00000400864.3_RNA			P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three domains, long cytoplasmic tail, 1						immune response (GO:0006955)|regulation of immune response (GO:0050776)|signal transduction (GO:0007165)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	HLA-B specific inhibitory MHC class I receptor activity (GO:0030109)			breast(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	11				GBM - Glioblastoma multiforme(193;0.0192)		CTACGGTTCTGTTACTCACTC	0.532																																																0													272	244	254					19																	55285024		2177	4210	6387	SO:0001627	intron_variant	3802			L41269	CCDS42621.1	19q13.4	2014-05-22			ENSG00000167633	ENSG00000167633		"Killer cell immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6338	protein-coding gene	gene with protein product		604946		KIR		7716543, 7749980	Standard	NM_013289		Approved	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158E1, CD158e2		P43629	OTTHUMG00000065933	ENST00000538269.1:c.35-43965G>C	19.37:g.55285024G>C		Somatic		WXS	Illumina HiSeq	Phase_I	O43473|Q14946|Q16541	Missense_Mutation	SNP	ENST00000538269.1	37		.	.	.	.	.	.	.	.	.	.	g	0.614	-0.823718	0.02755	.	.	ENSG00000125498	ENST00000336077;ENST00000291633	T;T	0.00717	5.79;5.79	1.24	-2.48	0.06423	.	.	.	.	.	T	0.00637	0.0021	L	0.29908	0.895	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.001	T	0.51647	-0.8679	9	0.51188	T	0.08	.	1.1611	0.01806	0.1669:0.2905:0.3355:0.2071	.	104;104	Q6IST4;Q6H2H3	.;.	L	104	ENSP00000336769:V104L;ENSP00000291633:V104L	ENSP00000291633:V104L	V	+	1	0	KIR2DL1	59976836	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-3.538000	0.00438	-4.634000	0.00038	-3.779000	0.00021	GTT		0.532	KIR3DL1-202	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_013289		C	55285024	G	C	55285024	1	2	668	0	1	0	0	0	0	0	0	0	8323	1377	48	4		4	KIR2DL1	19	55285024	Intron	SNP	G	TCGA-KN-8432-01A-11D-2310-10	5859915	55285024	3843959	115	42788										
ZNF264	9422	broad.mit.edu	37	chr19	57724079	57724079	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	atccacactggagagaagccCtataaatgtagtgaatgtgg	11	7	0	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr19:57724079C>T	ENST00000263095.6	+	4	2028	c.1614C>T	c.(1612-1614)ccC>ccT	p.P538P	ZNF264_ENST00000536056.1_Silent_p.P538P	NM_003417.4	NP_003408.1	O43296	ZN264_HUMAN	zinc finger protein 264	538					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(2)|kidney(1)|large_intestine(10)|lung(8)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	27		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;0.0135)		GAGAGAAGCCCTATAAATGTA	0.463																																																0													101	99	100					19																	57724079		2203	4300	6503	SO:0001819	synonymous_variant	9422			AB007872	CCDS33127.1	19q13.4	2013-01-08				ENSG00000083844		"Zinc fingers, C2H2-type", "-"	13057	protein-coding gene	gene with protein product		604668				9455477	Standard	NM_003417		Approved	KIAA0412	uc002qob.3	O43296		ENST00000263095.6:c.1614C>T	19.37:g.57724079C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K8Y9|Q9P1V0	Silent	SNP	ENST00000263095.6	37	CCDS33127.1																																																																																				0.463	ZNF264-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465080.1			T	57724079	C	T	57724079	2	4	668	1	0	0	0	0	0	0	0	1	17816	668	24	2		2	ZNF264	19	57724079	Silent	SNP	C	TCGA-KN-8432-01A-11D-2310-10	2439055	57724079	1404904	116	42789										
SLA2	84174	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr20	35260999	35260999	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tggcaccgagcttactcaccTctcctggtctggctctcccg	9	17	4	0			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr20:35260999T>A	ENST00000262866.4	-	5	803	c.381A>T	c.(379-381)agA>agT	p.R127S	SLA2_ENST00000360672.2_Splice_Site_p.R127S	NM_032214.3|NM_175077.2	NP_115590.1|NP_778252.1	Q9H6Q3	SLAP2_HUMAN	Src-like-adaptor 2	127	SH2. {ECO:0000255|PROSITE- ProRule:PRU00191}.				antigen receptor-mediated signaling pathway (GO:0050851)|B cell mediated immunity (GO:0019724)|intracellular receptor signaling pathway (GO:0030522)|negative regulation of B cell activation (GO:0050869)|negative regulation of calcium-mediated signaling (GO:0050849)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of signal transduction (GO:0009967)|regulation of immune response (GO:0050776)|T cell activation (GO:0042110)	cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|endosome membrane (GO:0010008)|late endosome (GO:0005770)|plasma membrane (GO:0005886)	protein N-terminus binding (GO:0047485)|SH3/SH2 adaptor activity (GO:0005070)			endometrium(1)|lung(2)|skin(2)	5	Breast(12;0.114)	Myeloproliferative disorder(115;0.00878)				CTTACTCACCTCTCCTGGTCT	0.597																																					Ovarian(59;720 1165 26994 46188 51693)											0													64	59	61					20																	35260999		2203	4300	6503	SO:0001630	splice_region_variant	84174			AF326353	CCDS13282.1, CCDS13283.1	20q11.23	2013-02-14			ENSG00000101082	ENSG00000101082		"SH2 domain containing"	17329	protein-coding gene	gene with protein product		606577		C20orf156		11696592	Standard	NM_032214		Approved	FLJ21992, SLAP-2	uc002xfv.3	Q9H6Q3	OTTHUMG00000032393	ENST00000262866.4:c.382+1A>T	20.37:g.35260999T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K648|E1P5U1|E1P5U2|Q5TH27|Q5TH28|Q8WY18|Q96QI4|Q9H135	Missense_Mutation	SNP	ENST00000262866.4	37	CCDS13282.1	.	.	.	.	.	.	.	.	.	.	T	13.41	2.227592	0.39399	.	.	ENSG00000101082	ENST00000262866;ENST00000360672	D;D	0.88277	-2.36;-2.36	4.53	4.53	0.55603	SH2 motif (5);	0.378993	0.26948	N	0.021691	D	0.82733	0.5101	N	0.17248	0.465	0.37013	D	0.895848	B;B	0.32382	0.368;0.167	B;B	0.42386	0.386;0.138	D	0.83450	0.0048	10	0.52906	T	0.07	-13.4373	7.4364	0.27158	0.1929:0.0:0.0:0.8071	.	127;127	Q9H6Q3;Q9H6Q3-2	SLAP2_HUMAN;.	S	127	ENSP00000262866:R127S;ENSP00000353890:R127S	ENSP00000262866:R127S	R	-	3	2	SLA2	34694413	1.000000	0.71417	1.000000	0.80357	0.695000	0.40330	4.214000	0.58527	1.898000	0.54952	0.459000	0.35465	AGA		0.597	SLA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079037.2	NM_175077	Missense_Mutation	A	35260999	T	A	35260999	5	1	668	1	0	0	0	0	0	0	1	0	14377	1565	54	5	420	5	SLA2	20	35260999	Splice_Site	SNP	T	TCGA-KN-8432-01A-11D-2310-10		35260999	27764521	117	42790										
DHX35	60625	broad.mit.edu	37	chr20	37621034	37621034	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tgaagcccacgagaggacctTgtacactgacattgccattg	10	11	0	3	rs200532343		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr20:37621034T>G	ENST00000252011.3	+	7	581	c.548T>G	c.(547-549)tTg>tGg	p.L183W	DHX35_ENST00000373323.4_Missense_Mutation_p.L152W|DHX35_ENST00000373325.2_Missense_Mutation_p.L183W	NM_021931.3	NP_068750.2	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	183	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				mRNA splicing, via spliceosome (GO:0000398)	catalytic step 2 spliceosome (GO:0071013)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|nucleic acid binding (GO:0003676)			breast(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(6)|lung(13)|ovary(1)|skin(2)|stomach(1)|urinary_tract(2)	40		Myeloproliferative disorder(115;0.00878)				GAGAGGACCTTGTACACTGAC	0.413																																																0													229	204	213					20																	37621034		2203	4300	6503	SO:0001583	missense	60625			AK026412	CCDS13310.1, CCDS54463.1	20q11.22-q12	2003-06-13	2003-06-13	2003-06-13	ENSG00000101452	ENSG00000101452		"DEAH-boxes"	15861	protein-coding gene	gene with protein product			"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 35"	C20orf15, DDX35			Standard	NM_001190809		Approved	FLJ22759, KAIA0875	uc002xjh.3	Q9H5Z1	OTTHUMG00000032463	ENST00000252011.3:c.548T>G	20.37:g.37621034T>G	ENSP00000252011:p.Leu183Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A2RTX3|B4E0J0|F5GXM6|Q5THR0|Q9H4H7|Q9H6T6	Missense_Mutation	SNP	ENST00000252011.3	37	CCDS13310.1	.	.	.	.	.	.	.	.	.	.	T	26.1	4.700696	0.88924	.	.	ENSG00000101452	ENST00000373325;ENST00000252011;ENST00000373323;ENST00000441485	T;T;T;T	0.08546	3.08;3.08;3.08;3.08	5.72	5.72	0.89469	DEAD-like helicase (2);DNA/RNA helicase, DEAD/DEAH box type, N-terminal (1);	0.000000	0.85682	D	0.000000	T	0.42381	0.1200	H	0.95151	3.63	0.58432	D	0.999993	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.96	T	0.59273	-0.7485	10	0.87932	D	0	.	15.6818	0.77376	0.0:0.0:0.0:1.0	.	152;183	F5GXM6;Q9H5Z1	.;DHX35_HUMAN	W	183;183;152;148	ENSP00000362422:L183W;ENSP00000252011:L183W;ENSP00000362420:L152W;ENSP00000414630:L148W	ENSP00000252011:L183W	L	+	2	0	DHX35	37054448	1.000000	0.71417	1.000000	0.80357	0.927000	0.56198	6.825000	0.75293	2.174000	0.68829	0.533000	0.62120	TTG		0.413	DHX35-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079212.2	NM_021931		G	37621034	T	G	37621034	3	3	668	1	0	0	0	0	1	0	0	0	4510	1821	63	5	574	5	DHX35	20	37621034	Missense_Mutation	SNP	T	TCGA-KN-8432-01A-11D-2310-10	2360035	37621034	25404486	118	42791										
SULF2	55959	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr20	46313215	46313215	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ccgacatgagggtctgcaagCgcttccgctggagcatgttg	14	11	1	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr20:46313215C>T	ENST00000359930.4	-	6	1699	c.848G>A	c.(847-849)cGc>cAc	p.R283H	CTD-2653D5.1_ENST00000526566.2_RNA|SULF2_ENST00000361612.4_Missense_Mutation_p.R283H|SULF2_ENST00000484875.1_Missense_Mutation_p.R283H|SULF2_ENST00000467815.1_Missense_Mutation_p.R283H	NM_018837.3	NP_061325.1	Q8IWU5	SULF2_HUMAN	sulfatase 2	283					bone development (GO:0060348)|cartilage development (GO:0051216)|chondrocyte development (GO:0002063)|embryonic skeletal system development (GO:0048706)|esophagus smooth muscle contraction (GO:0014846)|glial cell-derived neurotrophic factor receptor signaling pathway (GO:0035860)|glomerular basement membrane development (GO:0032836)|glomerular filtration (GO:0003094)|heparan sulfate proteoglycan metabolic process (GO:0030201)|innervation (GO:0060384)|kidney development (GO:0001822)|negative regulation of fibroblast growth factor receptor signaling pathway (GO:0040037)|positive regulation of Wnt signaling pathway (GO:0030177)|positive regulation vascular endothelial growth factor production (GO:0010575)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	arylsulfatase activity (GO:0004065)|calcium ion binding (GO:0005509)|N-acetylglucosamine-6-sulfatase activity (GO:0008449)			breast(2)|endometrium(4)|kidney(1)|large_intestine(7)|lung(22)|ovary(4)|pancreas(1)|prostate(5)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	54						GGTCTGCAAGCGCTTCCGCTG	0.627																																																0													122	91	102					20																	46313215		2203	4300	6503	SO:0001583	missense	55959			AY101176	CCDS13408.1, CCDS13409.1, CCDS13409.2	20q13.12-q13.13	2008-05-14			ENSG00000196562	ENSG00000196562			20392	protein-coding gene	gene with protein product		610013				12368295	Standard	NM_018837		Approved	KIAA1247, HSULF-2, SULF-2	uc002xto.3	Q8IWU5	OTTHUMG00000032675	ENST00000359930.4:c.848G>A	20.37:g.46313215C>T	ENSP00000353007:p.Arg283His	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5U6|Q5JYE1|Q6UX86|Q96SG2|Q9H1H0|Q9UJR3|Q9ULH3	Missense_Mutation	SNP	ENST00000359930.4	37	CCDS13408.1	.	.	.	.	.	.	.	.	.	.	c	35	5.558879	0.96514	.	.	ENSG00000196562	ENST00000359930;ENST00000484875;ENST00000361612;ENST00000467815	D;D;D;D	0.98684	-5.07;-5.07;-5.07;-5.07	4.76	4.76	0.60689	Alkaline phosphatase-like, alpha/beta/alpha (1);Sulfatase (1);Alkaline-phosphatase-like, core domain (1);	0.050148	0.85682	D	0.000000	D	0.99387	0.9784	H	0.94847	3.59	0.80722	D	1	D;D	0.89917	0.999;1.0	D;D	0.78314	0.927;0.991	D	0.98567	1.0644	10	0.87932	D	0	-23.6	18.0184	0.89248	0.0:1.0:0.0:0.0	.	283;283	Q8IWU5-2;Q8IWU5	.;SULF2_HUMAN	H	283	ENSP00000353007:R283H;ENSP00000418290:R283H;ENSP00000354662:R283H;ENSP00000418442:R283H	ENSP00000353007:R283H	R	-	2	0	SULF2	45746622	1.000000	0.71417	1.000000	0.80357	0.965000	0.64279	7.600000	0.82769	2.489000	0.83994	0.537000	0.68136	CGC		0.627	SULF2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079606.1	NM_018837		T	46313215	C	T	46313215	3	4	668	1	0	0	0	0	1	0	0	0	15383	768	27	1	1828	1	SULF2	20	46313215	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	8692181	46313215	16712305	119	42792										
KRTAP10-4	386672	hgsc.bcm.edu;mdanderson.org	37	chr21	45993747	45993747	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	actgcccagagagctgctgcGagcccccctgctgcgccccc	11	20	0	1			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr21:45993747G>A	ENST00000400374.3	+	1	142	c.112G>A	c.(112-114)Gag>Aag	p.E38K	TSPEAR_ENST00000323084.4_Intron|TSPEAR_ENST00000397916.1_5'Flank	NM_198687.1	NP_941960.1	P60372	KR104_HUMAN	keratin associated protein 10-4	38	36 X 5 AA repeats of C-C-X(3).					keratin filament (GO:0045095)				NS(1)|endometrium(4)|kidney(1)|large_intestine(1)|lung(9)|pancreas(1)|prostate(1)	18						GAGCTGCTGCGAGCCCCCCTG	0.697																																																0													38	42	41					21																	45993747		1969	4113	6082	SO:0001583	missense	386672			AB076351	CCDS42957.1	21q22.3	2006-03-13	2004-07-12	2004-07-14	ENSG00000215454	ENSG00000215454		"Keratin associated proteins"	20521	protein-coding gene	gene with protein product			"keratin associated protein 18-4"	KRTAP18-4			Standard	NM_198687		Approved	KRTAP18.4, KAP10.4	uc002zfk.1	P60372	OTTHUMG00000057641	ENST00000400374.3:c.112G>A	21.37:g.45993747G>A	ENSP00000383225:p.Glu38Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q08AS0	Missense_Mutation	SNP	ENST00000400374.3	37	CCDS42957.1	.	.	.	.	.	.	.	.	.	.	N	16.62	3.175003	0.57692	.	.	ENSG00000215454	ENST00000400374;ENST00000334871	T	0.14766	2.48	4.69	3.8	0.43715	.	.	.	.	.	T	0.28466	0.0704	M	0.76170	2.325	0.24203	N	0.995509	D	0.76494	0.999	P	0.57911	0.829	T	0.08994	-1.0695	9	0.54805	T	0.06	.	6.9169	0.24365	0.0961:0.1791:0.7249:0.0	.	38	P60372	KR104_HUMAN	K	38;27	ENSP00000383225:E38K	ENSP00000333987:E27K	E	+	1	0	KRTAP10-4	44818175	0.116000	0.22171	0.987000	0.45799	0.411000	0.31082	1.362000	0.34148	1.080000	0.41073	-0.458000	0.05436	GAG		0.697	KRTAP10-4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128045.1	NM_198687		A	45993747	G	A	45993747	3	1	668	1	0	0	0	0	1	0	0	0	8518	1059	37	1	114	1	KRTAP10-4	21	45993747	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10		45993747	2136148	120	42793										
KRTAP10-6	386674	mdanderson.org	37	chr21	46011324	46011324	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gcaggcagggcgggagcacaTggggcggcagaggagggaaa	22	7	0	1	rs1785472		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr21:46011324T>C	ENST00000400368.1	-	1	1062	c.1042A>G	c.(1042-1044)Atg>Gtg	p.M348V	TSPEAR_ENST00000323084.4_Intron	NM_198688.2	NP_941961.2	P60371	KR106_HUMAN	keratin associated protein 10-6	348						keratin filament (GO:0045095)		p.M348V(1)		endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|lung(6)|prostate(3)|skin(1)|stomach(1)|urinary_tract(1)	23						CGGGAGCACATGGGGCGGCAG	0.682																																																1	Substitution - Missense(1)	prostate(1)											47	59	55					21																	46011324		2197	4300	6497	SO:0001583	missense	386674			AB076353	CCDS42959.1	21q22.3	2006-03-13	2004-07-12	2004-07-14	ENSG00000188155	ENSG00000188155		"Keratin associated proteins"	20523	protein-coding gene	gene with protein product			"keratin associated protein 18-6"	KRTAP18-6			Standard	NM_198688		Approved	KRTAP18.6, KAP18.6, KAP10.6	uc002zfm.3	P60371	OTTHUMG00000057634	ENST00000400368.1:c.1042A>G	21.37:g.46011324T>C	ENSP00000383219:p.Met348Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000400368.1	37	CCDS42959.1	.	.	.	.	.	.	.	.	.	.	c	0.001	-3.992851	0.00002	.	.	ENSG00000188155	ENST00000400368	T	0.00686	5.85	2.84	-5.55	0.02536	.	.	.	.	.	T	0.00210	0.0006	N	0.00230	-1.795	0.09310	N	1	B	0.14805	0.011	B	0.01281	0.0	T	0.38672	-0.9650	9	0.02654	T	1	.	1.9179	0.03301	0.1134:0.3558:0.2249:0.306	.	348	P60371	KR106_HUMAN	V	348	ENSP00000383219:M348V	ENSP00000383219:M348V	M	-	1	0	KRTAP10-6	44835752	0.000000	0.05858	0.002000	0.10522	0.006000	0.05464	-4.157000	0.00283	-1.772000	0.01292	-2.665000	0.00146	ATG		0.682	KRTAP10-6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128037.1	NM_198688		C	46011324	T	C	46011324	3	2	668	1	0	0	0	0	1	0	0	0	8520	1464	51	3	59	3	KRTAP10-6	21	46011324	Missense_Mutation	SNP	T	TCGA-KN-8432-01A-11D-2310-10	17577	46011324	2118571	121	42794										
KRTAP10-12	386685	broad.mit.edu	37	chr21	46117243	46117243	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gctgtgagcccccctgctgcGccccggccccctgcctgagc	12	21	0	2	rs199900483		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr21:46117243G>A	ENST00000400365.3	+	1	157	c.127G>A	c.(127-129)Gcc>Acc	p.A43T	TSPEAR_ENST00000323084.4_Intron	NM_198699.1	NP_941972.1	P60413	KR10C_HUMAN	keratin associated protein 10-12	43	19 X 5 AA repeats of C-C-X(3).					keratin filament (GO:0045095)				large_intestine(1)|lung(8)	9						CCCCTGCTGCGCCCCGGCCCC	0.677																																																0								G	,THR/ALA	0,4172		0,0,2086	44	52	49		,127	0.5	0.7	21		49	2,8452		0,2,4225	no	intron,missense	TSPEAR,KRTAP10-12	NM_144991.2,NM_198699.1	,58	0,2,6311	AA,AG,GG		0.0237,0.0,0.0158	,probably-damaging	,43/246	46117243	2,12624	2086	4227	6313	SO:0001583	missense	386685			AB076364	CCDS42967.1	21q22.3	2006-03-13	2004-07-12	2004-07-14	ENSG00000189169	ENSG00000189169		"Keratin associated proteins"	20533	protein-coding gene	gene with protein product			"keratin associated protein 18-12"	KRTAP18-12			Standard	NM_198699		Approved	KRTAP18.12, KAP10.12	uc002zfw.1	P60413	OTTHUMG00000057629	ENST00000400365.3:c.127G>A	21.37:g.46117243G>A	ENSP00000383216:p.Ala43Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPA3	Missense_Mutation	SNP	ENST00000400365.3	37	CCDS42967.1	.	.	.	.	.	.	.	.	.	.	N	7.053	0.564762	0.13498	0.0	2.37E-4	ENSG00000189169	ENST00000400365	T	0.04654	3.58	3.61	0.506	0.16961	.	.	.	.	.	T	0.03305	0.0096	N	0.20986	0.625	0.22446	N	0.999096	B	0.09022	0.002	B	0.04013	0.001	T	0.43861	-0.9365	9	0.39692	T	0.17	.	4.6012	0.12354	0.216:0.3464:0.4376:0.0	.	43	P60413	KR10C_HUMAN	T	43	ENSP00000383216:A43T	ENSP00000383216:A43T	A	+	1	0	KRTAP10-12	44941671	.	.	0.700000	0.30305	0.237000	0.25408	.	.	-0.159000	0.11021	-0.736000	0.03550	GCC		0.677	KRTAP10-12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128032.1	NM_198699		A	46117243	G	A	46117243	3	1	668	1	0	0	0	0	1	0	0	0	8515	1087	38	1	129	1	KRTAP10-12	21	46117243	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10	105919	46117243	2012652	122	42795										
PHF5A	84844	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr22	41863526	41863526	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	tcctccacagatcacacagcGcccctggtaagatccatagt	7	15	1	2			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr22:41863526G>A	ENST00000216252.3	-	3	240	c.169C>T	c.(169-171)Cgc>Tgc	p.R57C	ACO2_ENST00000216254.4_5'Flank|ACO2_ENST00000396512.3_5'Flank|PHF5A_ENST00000491254.1_5'UTR	NM_032758.3	NP_116147.1	Q7RTV0	PHF5A_HUMAN	PHD finger protein 5A	57					gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|positive regulation of transcription, DNA-templated (GO:0045893)|RNA splicing (GO:0008380)|transcription, DNA-templated (GO:0006351)	nuclear matrix (GO:0016363)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|U12-type spliceosomal complex (GO:0005689)|U2 snRNP (GO:0005686)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.R57S(1)		central_nervous_system(1)|large_intestine(2)|lung(1)	4						ATCACACAGCGCCCCTGGTAA	0.507																																					Ovarian(15;130 571 1826 2981 46141)											1	Substitution - Missense(1)	central_nervous_system(1)											104	85	91					22																	41863526		2203	4300	6503	SO:0001583	missense	84844			BC007321	CCDS14016.1	22q13.2	2014-02-14			ENSG00000100410	ENSG00000100410		"Zinc fingers, PHD-type"	18000	protein-coding gene	gene with protein product	"splicing factor 3b, subunit 7"					12054543, 12234937, 18076038	Standard	NM_032758		Approved	MGC1346, SF3b14b, INI, bK223H9.2, Rds3, SAP14b, SF3B7	uc003bab.3	Q7RTV0	OTTHUMG00000150966	ENST00000216252.3:c.169C>T	22.37:g.41863526G>A	ENSP00000216252:p.Arg57Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UH06	Missense_Mutation	SNP	ENST00000216252.3	37	CCDS14016.1	.	.	.	.	.	.	.	.	.	.	G	26.1	4.704285	0.88924	.	.	ENSG00000100410	ENST00000216252	.	.	.	5.54	5.54	0.83059	.	0.000000	0.85682	D	0.000000	T	0.79707	0.4492	M	0.89658	3.05	0.80722	D	1	B	0.27229	0.172	B	0.31245	0.126	T	0.79035	-0.1968	9	0.51188	T	0.08	-18.9427	19.8379	0.96666	0.0:0.0:1.0:0.0	.	57	Q7RTV0	PHF5A_HUMAN	C	57	.	ENSP00000216252:R57C	R	-	1	0	PHF5A	40193472	1.000000	0.71417	0.998000	0.56505	0.993000	0.82548	9.547000	0.98100	2.765000	0.95021	0.655000	0.94253	CGC		0.507	PHF5A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320686.1	NM_032758		A	41863526	G	A	41863526	3	1	668	1	0	0	0	0	1	0	0	0	11844	1087	38	1	171	1	PHF5A	22	41863526	Missense_Mutation	SNP	G	TCGA-KN-8432-01A-11D-2310-10		41863526	9441040	123	42796										
ODF3B	440836	hgsc.bcm.edu	37	chr22	50970068	50970068	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ggagtaggcgggggcgccgtCggtgccgcgcacggtcatgc	20	12	1	0	rs141953471	byFrequency	TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chr22:50970068C>T	ENST00000428989.2	-	2	243	c.244G>A	c.(244-246)Gac>Aac	p.D82N	ODF3B_ENST00000401779.1_Missense_Mutation_p.R58Q|TYMP_ENST00000252029.3_5'Flank|ODF3B_ENST00000329363.4_Missense_Mutation_p.D82N|TYMP_ENST00000395681.1_5'Flank|TYMP_ENST00000395678.3_5'Flank|ODF3B_ENST00000405135.1_Missense_Mutation_p.D82N|ODF3B_ENST00000403326.1_Intron|TYMP_ENST00000395680.1_5'Flank			A8MYP8	ODF3B_HUMAN	outer dense fiber of sperm tails 3B	82										lung(2)	2						GGGGCGCCGTCGGTGCCGCGC	0.761													C|||	91	0.0181709	0.0159	0.0144	5008	,	,		9314	0.0		0.0487	False		,,,				2504	0.0112															0								C	ASN/ASP	68,3178		1,66,1556	3	5	5		244	3.1	0	22	dbSNP_134	5	281,6899		5,271,3314	no	missense	ODF3B	NM_001014440.3	23	6,337,4870	TT,TC,CC		3.9136,2.0949,3.3474	possibly-damaging	82/254	50970068	349,10077	1623	3590	5213	SO:0001583	missense	440836				CCDS43039.1	22q13.33	2008-10-24			ENSG00000177989	ENSG00000177989			34388	protein-coding gene	gene with protein product							Standard	NM_001014440		Approved		uc003bmh.2	A8MYP8	OTTHUMG00000150334	ENST00000428989.2:c.244G>A	22.37:g.50970068C>T	ENSP00000390712:p.Asp82Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A0PK18	Missense_Mutation	SNP	ENST00000428989.2	37	CCDS43039.1	58|58	0.026556776556776556|0.026556776556776556	15|15	0.03048780487804878|0.03048780487804878	8|8	0.022099447513812154|0.022099447513812154	0|0	0.0|0.0	35|35	0.04617414248021108|0.04617414248021108	C|C	13.50|13.50	2.254753|2.254753	0.39896|0.39896	0.020949|0.020949	0.039136|0.039136	ENSG00000177989|ENSG00000177989	ENST00000329363;ENST00000405135;ENST00000428989|ENST00000401779;ENST00000438960	T;T;T|.	0.34472|.	1.39;1.36;1.39|.	4.1|4.1	3.06|3.06	0.35304|0.35304	.|.	.|.	.|.	.|.	.|.	T|T	0.09379|0.09379	0.0231|0.0231	M|M	0.75615|0.75615	2.305|2.305	0.09310|0.09310	N|N	1|1	P|P	0.44090|0.46020	0.826|0.871	B|B	0.37047|0.39258	0.24|0.295	T|T	0.06588|0.06588	-1.0818|-1.0818	9|8	0.34782|0.56958	T|D	0.22|0.05	-5.2376|-5.2376	9.2168|9.2168	0.37353|0.37353	0.2168:0.7832:0.0:0.0|0.2168:0.7832:0.0:0.0	.|.	82|58	A8MYP8|B5MD02	ODF3B_HUMAN|.	N|Q	82|58;48	ENSP00000382804:D82N;ENSP00000384012:D82N;ENSP00000390712:D82N|.	ENSP00000382804:D82N|ENSP00000384310:R58Q	D|R	-|-	1|2	0|0	ODF3B|ODF3B	49316934|49316934	0.945000|0.945000	0.32115|0.32115	0.004000|0.004000	0.12327|0.12327	0.192000|0.192000	0.23643|0.23643	2.862000|2.862000	0.48388|0.48388	1.033000|1.033000	0.39918|0.39918	0.462000|0.462000	0.41574|0.41574	GAC|CGA		0.761	ODF3B-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317626.2			T	50970068	C	T	50970068	3	4	668	1	0	0	0	0	1	0	0	0	10837	884	31	1	537	1	ODF3B	22	50970068	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	9106542	50970068	334498	124	42797										
EIF2S3	1968	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	24075766	24075766	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ttagatttataagcttgatgAcccaagttgccctcggccag	9	10	0	3			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chrX:24075766A>G	ENST00000253039.4	+	4	531	c.278A>G	c.(277-279)gAc>gGc	p.D93G		NM_001415.3	NP_001406.1	P41091	IF2G_HUMAN	eukaryotic translation initiation factor 2, subunit 3 gamma, 52kDa	93	tr-type G. {ECO:0000255|PROSITE- ProRule:PRU01059}.				cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|GTP catabolic process (GO:0006184)|translation (GO:0006412)|translational initiation (GO:0006413)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|translation factor activity, nucleic acid binding (GO:0008135)|translation initiation factor activity (GO:0003743)			breast(1)|cervix(1)|endometrium(4)|large_intestine(1)|lung(4)|ovary(1)	12						AAGCTTGATGACCCAAGTTGC	0.383																																																0													64	65	65					X																	24075766		2203	4300	6503	SO:0001583	missense	1968			L19161	CCDS14210.1	Xp22.2-p22.1	2008-07-31	2002-08-29		ENSG00000130741	ENSG00000130741			3267	protein-coding gene	gene with protein product	"eukaryotic translation initiation factor 2G"	300161	"eukaryotic translation initiation factor 2, subunit 3 (gamma, 52kD)"	EIF2G		8106381, 9736774	Standard	NM_001415		Approved	EIF2gamma, EIF2	uc004dbc.3	P41091	OTTHUMG00000021262	ENST00000253039.4:c.278A>G	X.37:g.24075766A>G	ENSP00000253039:p.Asp93Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B5BTZ4	Missense_Mutation	SNP	ENST00000253039.4	37	CCDS14210.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	16.25|16.25	3.071171|3.071171	0.55646|0.55646	.|.	.|.	ENSG00000130741|ENSG00000130741	ENST00000253039|ENST00000423068	T|.	0.64803|.	-0.12|.	5.03|5.03	5.03|5.03	0.67393|0.67393	Protein synthesis factor, GTP-binding (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|.	0.74898|.	0.3777|.	M|M	0.78916|0.78916	2.43|2.43	0.80722|0.80722	D|D	1|1	B|.	0.06786|.	0.001|.	B|.	0.10450|.	0.005|.	T|.	0.76498|.	-0.2937|.	10|.	0.54805|.	T|.	0.06|.	.|.	14.0831|14.0831	0.64937|0.64937	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	93|.	P41091|.	IF2G_HUMAN|.	G|W	93|92	ENSP00000253039:D93G|.	ENSP00000253039:D93G|.	D|X	+|+	2|3	0|0	EIF2S3|EIF2S3	23985687|23985687	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.991000|0.991000	0.79684|0.79684	8.806000|8.806000	0.91930|0.91930	1.771000|1.771000	0.52183|0.52183	0.417000|0.417000	0.27973|0.27973	GAC|TGA		0.383	EIF2S3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056079.1	NM_001415		G	24075766	A	G	24075766	3	3	668	1	0	0	0	0	1	0	0	0	5013	275	10	3	292	3	EIF2S3	23	24075766	Missense_Mutation	SNP	A	TCGA-KN-8432-01A-11D-2310-10		24075766	131194794	125	42798										
FAM47A	158724	bcgsc.ca	37	chrX	34148877	34148877	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ccgacgagtcttgggaggctCcgagcggagactggacgtcc	16	12	1	1	rs5973088		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chrX:34148877C>G	ENST00000346193.3	-	1	1570	c.1519G>C	c.(1519-1521)Gag>Cag	p.E507Q		NM_203408.3	NP_981953.2	Q5JRC9	FA47A_HUMAN	family with sequence similarity 47, member A	507			Missing. {ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:15489334}.					p.E507Q(1)		NS(1)|biliary_tract(1)|breast(2)|central_nervous_system(1)|endometrium(9)|kidney(5)|large_intestine(17)|lung(44)|ovary(5)|prostate(2)|skin(4)|upper_aerodigestive_tract(4)|urinary_tract(2)	97						TTGGGAGGCTCCGAGCGGAGA	0.647																																																1	Substitution - Missense(1)	kidney(1)											29	29	29					X																	34148877		2181	4247	6428	SO:0001583	missense	158724			BC026171	CCDS43926.1	Xp21.1	2004-08-09			ENSG00000185448	ENSG00000185448			29962	protein-coding gene	gene with protein product	"similar to hypothetical protein FLJ35782"					12477932	Standard	NM_203408		Approved	MGC27003	uc004ddg.3	Q5JRC9	OTTHUMG00000021339	ENST00000346193.3:c.1519G>C	X.37:g.34148877C>G	ENSP00000345029:p.Glu507Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8I9|Q8TAA0	Missense_Mutation	SNP	ENST00000346193.3	37	CCDS43926.1	6	0.003616636528028933	2	0.0040650406504065045	3	0.008287292817679558	0	0.0	2	0.002638522427440633	c	9.299	1.052687	0.19907	.	.	ENSG00000185448	ENST00000346193	T	0.14391	2.51	0.226	0.226	0.15353	.	.	.	.	.	T	0.05227	0.0139	L	0.27053	0.805	0.09310	N	1	B	0.24483	0.104	B	0.16722	0.016	T	0.41466	-0.9507	8	0.17832	T	0.49	.	.	.	.	rs5973088	507	Q5JRC9	FA47A_HUMAN	Q	507	ENSP00000345029:E507Q	ENSP00000345029:E507Q	E	-	1	0	FAM47A	34058798	0.053000	0.20554	0.000000	0.03702	0.001000	0.01503	1.713000	0.37951	0.283000	0.22279	0.287000	0.19450	GAG		0.647	FAM47A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056205.1	NM_203408		G	34148877	C	G	34148877	3	3	668	1	0	0	0	0	1	0	0	0	5576	864	30	4	860	4	FAM47A	23	34148877	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	10073111	34148877	121121683	126	42799										
FAM47C	442444	broad.mit.edu	37	chrX	37028121	37028121	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	gagagtagcgtatctcatctCcgcccagagcctcctgagac	10	14	2	3			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chrX:37028121C>T	ENST00000358047.3	+	1	1690	c.1638C>T	c.(1636-1638)ctC>ctT	p.L546L		NM_001013736.2	NP_001013758.1	Q5HY64	FA47C_HUMAN	family with sequence similarity 47, member C	546										breast(4)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(15)|lung(63)|ovary(6)|pancreas(1)|prostate(6)|skin(8)|upper_aerodigestive_tract(4)|urinary_tract(1)	120						TATCTCATCTCCGCCCAGAGC	0.607																																																0													70	74	72					X																	37028121		2202	4300	6502	SO:0001819	synonymous_variant	442444			AK125992	CCDS35227.1	Xp21.1	2006-07-04			ENSG00000198173	ENSG00000198173			25301	protein-coding gene	gene with protein product							Standard	NM_001013736		Approved		uc004ddl.2	Q5HY64	OTTHUMG00000024025	ENST00000358047.3:c.1638C>T	X.37:g.37028121C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZU46	Silent	SNP	ENST00000358047.3	37	CCDS35227.1																																																																																				0.607	FAM47C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060508.1	NM_001013736		T	37028121	C	T	37028121	2	4	668	1	0	0	0	0	0	0	0	1	5578	842	30	2		2	FAM47C	23	37028121	Silent	SNP	C	TCGA-KN-8432-01A-11D-2310-10	2879244	37028121	118242439	127	42800										
MAGED2	10916	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chrX	54837700	54837700	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	caggcaaatgatttggtgaaGtaccttttggctaaagacca	10	7	0	3			TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chrX:54837700G>A	ENST00000375068.1	+	5	1097	c.864G>A	c.(862-864)aaG>aaA	p.K288K	MAGED2_ENST00000375060.1_Silent_p.K203K|MAGED2_ENST00000375062.4_Silent_p.K203K|MAGED2_ENST00000396224.1_Silent_p.K288K|MAGED2_ENST00000375053.2_Silent_p.K288K|MAGED2_ENST00000218439.4_Silent_p.K288K|MAGED2_ENST00000375058.1_Silent_p.K288K|MAGED2_ENST00000347546.4_Silent_p.K270K			Q9UNF1	MAGD2_HUMAN	melanoma antigen family D, 2	288	MAGE. {ECO:0000255|PROSITE- ProRule:PRU00127}.					membrane (GO:0016020)				breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(8)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	26						ATTTGGTGAAGTACCTTTTGG	0.478																																																0													131	115	121					X																	54837700		2203	4300	6503	SO:0001819	synonymous_variant	10916			AF128527	CCDS14362.1	Xp11.2	2008-08-01			ENSG00000102316	ENSG00000102316			16353	protein-coding gene	gene with protein product	"hepatocellular carcinoma associated protein", "breast cancer associated gene 1", "melanoma-associated antigen D2", "hepatocellular carcinoma-associated protein HCA10"	300470					Standard	NM_014599		Approved	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386	uc004dtk.1	Q9UNF1	OTTHUMG00000021638	ENST00000375068.1:c.864G>A	X.37:g.54837700G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NMX0|O76058|Q5BJF3|Q8NAL6|Q9H218|Q9P0U9|Q9UM52	Silent	SNP	ENST00000375068.1	37	CCDS14362.1																																																																																				0.478	MAGED2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000056821.2	NM_014599		A	54837700	G	A	54837700	2	1	668	1	0	0	0	0	0	0	0	1	9191	1020	36	2		2	MAGED2	23	54837700	Silent	SNP	G	TCGA-KN-8432-01A-11D-2310-10	17809579	54837700	100432860	128	42801										
RBMX	27316	mdanderson.org	37	chrX	135960230	135960230	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0793650793650794	10	1	1.07294617563739	2.74674220963173	0.762983947119924	0.66992140985949	1	0	ggcttgttccaccttgatggCttttccatctaatgactaaa	7	10	1	2	rs199717308		TCGA-KN-8432-01A-11D-2310-10	TCGA-KN-8432-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	85ed2434-da94-4333-90ca-6ca4691cbdd3	7d556f90-8997-4e2f-9f30-23814aa3c222	g.chrX:135960230C>T	ENST00000320676.7	-	4	386	c.232G>A	c.(232-234)Gcc>Acc	p.A78T	RBMX_ENST00000565438.1_5'UTR|RBMX_ENST00000562646.1_Missense_Mutation_p.A78T|RBMX_ENST00000570135.1_Intron|SNORD61_ENST00000384252.1_RNA|RBMX_ENST00000431446.3_Intron	NM_002139.3	NP_002130.2	P38159	RBMX_HUMAN	RNA binding motif protein, X-linked	78	RRM. {ECO:0000255|PROSITE- ProRule:PRU00176}.				cellular response to interleukin-1 (GO:0071347)|gene expression (GO:0010467)|membrane protein ectodomain proteolysis (GO:0006509)|mRNA splicing, via spliceosome (GO:0000398)|negative regulation of mRNA splicing, via spliceosome (GO:0048025)|osteoblast differentiation (GO:0001649)|positive regulation of mRNA splicing, via spliceosome (GO:0048026)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein homooligomerization (GO:0051260)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|RNA splicing (GO:0008380)|transcription from RNA polymerase II promoter (GO:0006366)	catalytic step 2 spliceosome (GO:0071013)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nuclear euchromatin (GO:0005719)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)|supraspliceosomal complex (GO:0044530)	chromatin binding (GO:0003682)|core promoter binding (GO:0001047)|mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)	p.A78T(1)		NS(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|large_intestine(2)|lung(12)|ovary(2)|pancreas(1)|prostate(2)|urinary_tract(1)	33	Acute lymphoblastic leukemia(192;0.000127)					ACCTTGATGGCTTTTCCATCT	0.398																																																1	Substitution - Missense(1)	prostate(1)											30	27	28					X																	135960230		2203	4300	6503	SO:0001583	missense	27316				CCDS14661.1, CCDS55510.1	Xq26	2013-05-23	2003-09-12		ENSG00000147274	ENSG00000147274		"RNA binding motif (RRM) containing"	9910	protein-coding gene	gene with protein product	"heterogeneous nuclear ribonucleoprotein G"	300199	"RNA binding motif protein, X chromosome"			10391206, 10391207	Standard	NM_002139		Approved	RNMX, hnRNP-G, HNRNPG	uc004fae.2	P38159	OTTHUMG00000022517	ENST00000320676.7:c.232G>A	X.37:g.135960230C>T	ENSP00000359645:p.Ala78Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3U4|D3DWH0|E9PG86|Q5JQ67|Q8N8Y7|Q969R3	Missense_Mutation	SNP	ENST00000320676.7	37	CCDS14661.1	.	.	.	.	.	.	.	.	.	.	.	11.06	1.528254	0.27299	.	.	ENSG00000147274	ENST00000320676;ENST00000449161	T	0.15139	2.45	5.15	4.19	0.49359	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.364756	0.24165	U	0.040949	T	0.06781	0.0173	N	0.01168	-0.975	0.80722	D	1	B;B	0.11235	0.001;0.004	B;B	0.14023	0.01;0.01	T	0.28170	-1.0052	10	0.35671	T	0.21	.	13.8269	0.63357	0.1641:0.8359:0.0:0.0	.	78;65	P38159;Q8N8Y7	HNRPG_HUMAN;.	T	78;65	ENSP00000359645:A78T	ENSP00000359645:A78T	A	-	1	0	RBMX	135787896	1.000000	0.71417	1.000000	0.80357	0.810000	0.45777	3.150000	0.50662	2.132000	0.65825	0.504000	0.49776	GCC		0.398	RBMX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058507.1	NM_002139		T	135960230	C	T	135960230	3	4	668	1	0	0	0	0	1	0	0	0	13164	797	28	2	1022	2	RBMX	23	135960230	Missense_Mutation	SNP	C	TCGA-KN-8432-01A-11D-2310-10	81122530	135960230	19310330	129	42802										
RER1	11079	mdanderson.org	37	chr1	2333768	2333768	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gctcttctgtatcacgatgaAgaggcaaatcaaggtaaagc	10	8	4	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr1:2333768A>G	ENST00000605895.1	+	6	621	c.488A>G	c.(487-489)aAg>aGg	p.K163R	RER1_ENST00000378513.3_3'UTR|RER1_ENST00000378512.1_3'UTR|RER1_ENST00000488353.1_Missense_Mutation_p.K163R	NM_007033.4	NP_008964.3	O15258	RER1_HUMAN	retention in endoplasmic reticulum sorting receptor 1	163				HAATKGILVAMVCTFFDAFNVPVFWPILVMYFIMLFCITMK RQIKHMIKYRYIPFTHGKRRYRGKEDAGKAFAS -> DASV CGDGRCSCKAGGGRQCPVLAADAALTFSPHLKACGYQGHPC GYGLYFLRRFQRPGVLADSGDVLHHALLYHDEEANQAHD (in Ref. 2; AAC72940). {ECO:0000305}.	positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)|skeletal muscle acetylcholine-gated channel clustering (GO:0071340)	cell surface (GO:0009986)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|Golgi apparatus (GO:0005794)|integral component of Golgi membrane (GO:0030173)				endometrium(3)|kidney(1)	4	all_cancers(77;0.000247)|all_epithelial(69;9.96e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;5.35e-20)|all_lung(118;2.78e-08)|Lung NSC(185;2.69e-06)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;2.28e-37)|OV - Ovarian serous cystadenocarcinoma(86;8.29e-23)|GBM - Glioblastoma multiforme(42;4.71e-08)|Colorectal(212;4.73e-05)|COAD - Colon adenocarcinoma(227;0.00021)|Kidney(185;0.00116)|BRCA - Breast invasive adenocarcinoma(365;0.00459)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0182)|Lung(427;0.204)		ATCACGATGAAGAGGCAAATC	0.557																																																0													114	117	116					1																	2333768		2096	4224	6320	SO:0001583	missense	11079			AF157324	CCDS41232.1	1p36	2013-10-18	2013-10-18		ENSG00000157916	ENSG00000157916			30309	protein-coding gene	gene with protein product			"RER1 retention in endoplasmic reticulum 1 homolog (S. cerevisiae)"			9309388, 17668005	Standard	NM_007033		Approved		uc001aje.2	O15258	OTTHUMG00000001403	ENST00000605895.1:c.488A>G	1.37:g.2333768A>G	ENSP00000475168:p.Lys163Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O95322	Missense_Mutation	SNP	ENST00000605895.1	37	CCDS41232.1	.	.	.	.	.	.	.	.	.	.	A	13.12	2.142674	0.37825	.	.	ENSG00000157916	ENST00000306256;ENST00000434662	.	.	.	5.21	5.21	0.72293	.	0.000000	0.85682	D	0.000000	T	0.47358	0.1441	L	0.33668	1.02	0.80722	D	1	B	0.33857	0.429	B	0.39531	0.302	T	0.37731	-0.9693	9	0.06757	T	0.87	.	14.2383	0.65941	1.0:0.0:0.0:0.0	.	163	O15258	RER1_HUMAN	R	163	.	ENSP00000302088:K163R	K	+	2	0	RER1	2323628	1.000000	0.71417	1.000000	0.80357	0.813000	0.45954	8.127000	0.89593	1.979000	0.57680	0.383000	0.25322	AAG		0.557	RER1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004061.2			G	2333768	A	G	2333768	3	3	669	1	0	0	0	0	1	0	0	0	13243	72	3	3	506	3	RER1	1	2333768	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10		2333768	246916853	1	42803										
KDM1A	23028	mdanderson.org	37	chr1	23408744	23408744	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgtggtgtctcgttggcgtgCtgatccctgggctcggggct	17	10	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr1:23408744C>T	ENST00000356634.3	+	18	2407	c.2258C>T	c.(2257-2259)gCt>gTt	p.A753V	RP1-184J9.2_ENST00000427154.1_RNA|KDM1A_ENST00000542151.1_Missense_Mutation_p.A777V|KDM1A_ENST00000400181.4_Missense_Mutation_p.A777V	NM_015013.3	NP_055828.2	O60341	KDM1A_HUMAN	lysine (K)-specific demethylase 1A	753	Demethylase activity.				blood coagulation (GO:0007596)|cell proliferation (GO:0008283)|granulocyte differentiation (GO:0030851)|histone H3-K4 demethylation (GO:0034720)|histone H3-K9 demethylation (GO:0033169)|in utero embryonic development (GO:0001701)|muscle cell development (GO:0055001)|negative regulation of DNA binding (GO:0043392)|negative regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043518)|negative regulation of histone H3-K4 methylation (GO:0051572)|negative regulation of histone H3-K9 methylation (GO:0051573)|negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:1902166)|negative regulation of protein binding (GO:0032091)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|pituitary gland development (GO:0021983)|positive regulation of erythrocyte differentiation (GO:0045648)|positive regulation of hormone biosynthetic process (GO:0046886)|positive regulation of megakaryocyte differentiation (GO:0045654)|positive regulation of neural precursor cell proliferation (GO:2000179)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of stem cell proliferation (GO:2000648)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein demethylation (GO:0006482)|regulation of primitive erythrocyte differentiation (GO:0010725)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	androgen receptor binding (GO:0050681)|chromatin binding (GO:0003682)|demethylase activity (GO:0032451)|enzyme binding (GO:0019899)|flavin adenine dinucleotide binding (GO:0050660)|histone demethylase activity (GO:0032452)|histone demethylase activity (H3-dimethyl-K4 specific) (GO:0034648)|histone demethylase activity (H3-K4 specific) (GO:0032453)|histone demethylase activity (H3-K9 specific) (GO:0032454)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|MRF binding (GO:0043426)|oxidoreductase activity (GO:0016491)|p53 binding (GO:0002039)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|central_nervous_system(2)|endometrium(3)|large_intestine(5)|lung(8)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	23						CGTTGGCGTGCTGATCCCTGG	0.473																																																0													103	91	95					1																	23408744		2203	4300	6503	SO:0001583	missense	23028			AL031428	CCDS30627.1, CCDS53278.1	1p36.12	2011-07-01	2009-09-29	2009-09-29	ENSG00000004487	ENSG00000004487		"Chromatin-modifying enzymes / K-demethylases"	29079	protein-coding gene	gene with protein product		609132	"amine oxidase (flavin containing) domain 2", "lysine (K)-specific demethylase 1"	AOF2, KDM1		9628581, 12493763	Standard	NM_015013		Approved	KIAA0601, BHC110, LSD1	uc001bgj.2	O60341	OTTHUMG00000003220	ENST00000356634.3:c.2258C>T	1.37:g.23408744C>T	ENSP00000349049:p.Ala753Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8MWP9|Q5TH94|Q5TH95|Q86VT7|Q8IXK4|Q8NDP6|Q8TAZ3|Q96AW4	Missense_Mutation	SNP	ENST00000356634.3	37	CCDS30627.1	.	.	.	.	.	.	.	.	.	.	C	35	5.451613	0.96205	.	.	ENSG00000004487	ENST00000356634;ENST00000400181;ENST00000542151	T;T;T	0.10382	2.88;2.88;2.88	5.93	5.01	0.66863	Amine oxidase (1);	0.000000	0.85682	D	0.000000	T	0.24044	0.0582	L	0.53561	1.675	0.80722	D	1	D;D	0.71674	0.998;0.997	P;P	0.59012	0.787;0.85	T	0.00054	-1.2182	10	0.59425	D	0.04	-18.7936	14.6427	0.68737	0.0:0.9295:0.0:0.0705	.	777;753	O60341-2;O60341	.;KDM1A_HUMAN	V	753;777;777	ENSP00000349049:A753V;ENSP00000383042:A777V;ENSP00000439072:A777V	ENSP00000349049:A753V	A	+	2	0	KDM1A	23281331	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	7.818000	0.86416	2.826000	0.97356	0.655000	0.94253	GCT		0.473	KDM1A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000008880.3	NM_015013		T	23408744	C	T	23408744	3	4	669	1	0	0	0	0	1	0	0	0	8129	797	28	2	2408	2	KDM1A	1	23408744	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	21074976	23408744	225841877	2	42804										
CNR2	1269	mdanderson.org	37	chr1	24201162	24201162	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cctcacacacttcttccagtGagccaggcagtgatgggcag	11	13	2	2	rs2229579	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr1:24201162G>A	ENST00000374472.4	-	2	1107	c.946C>T	c.(946-948)Cac>Tac	p.H316Y	CNR2_ENST00000536471.1_Missense_Mutation_p.H316Y	NM_001841.2	NP_001832.1	P34972	CNR2_HUMAN	cannabinoid receptor 2 (macrophage)	316			H -> Y (in dbSNP:rs2229579). {ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:18286196, ECO:0000269|Ref.5}.		G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|immune response (GO:0006955)|inflammatory response (GO:0006954)|negative regulation of action potential (GO:0045759)|negative regulation of inflammatory response (GO:0050728)|negative regulation of mast cell activation (GO:0033004)|negative regulation of nitric-oxide synthase activity (GO:0051001)|negative regulation of synaptic transmission, GABAergic (GO:0032229)|response to amphetamine (GO:0001975)|response to lipopolysaccharide (GO:0032496)|sensory perception of pain (GO:0019233)	dendrite (GO:0030425)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)|integral component of plasma membrane (GO:0005887)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	cannabinoid receptor activity (GO:0004949)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|lung(9)|pancreas(1)|skin(2)|stomach(6)|upper_aerodigestive_tract(2)	26		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)	Dronabinol(DB00470)|Nabilone(DB00486)	TTCTTCCAGTGAGCCAGGCAG	0.552													G|||	538	0.107428	0.0045	0.1081	5008	,	,		21093	0.2143		0.0885	False		,,,				2504	0.1554															0								G	TYR/HIS	105,4301	80.9+/-119.3	2,101,2100	93	95	94		946	0.7	0	1	dbSNP_98	94	859,7741	197.3+/-242.0	34,791,3475	yes	missense	CNR2	NM_001841.2	83	36,892,5575	AA,AG,GG		9.9884,2.3831,7.412	benign	316/361	24201162	964,12042	2203	4300	6503	SO:0001583	missense	1269			X74328	CCDS245.1	1p	2012-08-08			ENSG00000188822	ENSG00000188822		"GPCR / Class A : Cannabinoid receptors"	2160	protein-coding gene	gene with protein product		605051					Standard	NM_001841		Approved	CB2	uc001bif.3	P34972	OTTHUMG00000013892	ENST00000374472.4:c.946C>T	1.37:g.24201162G>A	ENSP00000363596:p.His316Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	C6ES44|Q4VBK8|Q5JRH7|Q6B0G7|Q6NSY0	Missense_Mutation	SNP	ENST00000374472.4	37	CCDS245.1	219	0.10027472527472528	1	0.0020325203252032522	30	0.08287292817679558	119	0.20804195804195805	69	0.09102902374670185	G	0.505	-0.868974	0.02570	0.023831	0.099884	ENSG00000188822	ENST00000374472;ENST00000536471	T;T	0.36878	1.23;1.23	5.21	0.728	0.18260	.	1.823760	0.02519	N	0.092394	T	0.00012	0.0000	N	0.14661	0.345	0.80722	P	0.0	B	0.30870	0.298	B	0.24974	0.057	T	0.11397	-1.0589	9	0.12430	T	0.62	.	4.3273	0.11046	0.0722:0.2569:0.4207:0.2501	rs2229579;rs3820021;rs52824290;rs2229579	316	P34972	CNR2_HUMAN	Y	316	ENSP00000363596:H316Y;ENSP00000442830:H316Y	ENSP00000363596:H316Y	H	-	1	0	CNR2	24073749	0.000000	0.05858	0.006000	0.13384	0.092000	0.18411	0.023000	0.13533	0.151000	0.19162	0.563000	0.77884	CAC		0.552	CNR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000038949.1	NM_001841		A	24201162	G	A	24201162	3	1	669	1	0	0	0	0	1	0	0	0	3634	1290	45	2	140	2	CNR2	1	24201162	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	792418	24201162	225049459	3	42805										
NASP	4678	mdanderson.org	37	chr1	46073372	46073372	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aaaggaggtcaggagaagcaGggagaggtaattgtgagcat	17	3	1	3	rs202027114		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr1:46073372G>C	ENST00000350030.3	+	6	876	c.789G>C	c.(787-789)caG>caC	p.Q263H	NASP_ENST00000372052.4_Intron|NASP_ENST00000402363.3_Missense_Mutation_p.Q265H|NASP_ENST00000351223.3_Intron|NASP_ENST00000537798.1_Missense_Mutation_p.Q199H	NM_002482.3	NP_002473.2	P49321	NASP_HUMAN	nuclear autoantigenic sperm protein (histone-binding)	263	Glu-rich (acidic).				blastocyst development (GO:0001824)|cell cycle (GO:0007049)|cell proliferation (GO:0008283)|DNA replication (GO:0006260)|DNA replication-dependent nucleosome assembly (GO:0006335)|DNA replication-independent nucleosome assembly (GO:0006336)|histone exchange (GO:0043486)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|protein complex (GO:0043234)	Hsp90 protein binding (GO:0051879)			breast(1)|cervix(1)|endometrium(1)|large_intestine(2)|lung(6)|ovary(1)|pancreas(1)|prostate(3)|skin(1)	17	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.211)					AGGAGAAGCAGGGAGAGGTAA	0.478																																																0													44	47	46					1																	46073372		2203	4300	6503	SO:0001583	missense	4678			M97856	CCDS524.1, CCDS525.1, CCDS55597.1	1p34.1	2013-01-10			ENSG00000132780	ENSG00000132780		"Tetratricopeptide (TTC) repeat domain containing"	7644	protein-coding gene	gene with protein product		603185				1426632	Standard	NM_002482		Approved	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999	uc001coi.2	P49321	OTTHUMG00000007826	ENST00000350030.3:c.789G>C	1.37:g.46073372G>C	ENSP00000255120:p.Gln263His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6H2|B4DQP3|D3DQ07|F5H3J2|Q53GW5|Q5T622|Q5T625|Q96A69|Q9BTW2	Missense_Mutation	SNP	ENST00000350030.3	37	CCDS524.1	.	.	.	.	.	.	.	.	.	.	G	11.36	1.615555	0.28801	.	.	ENSG00000132780	ENST00000537798;ENST00000402363;ENST00000341288;ENST00000350030;ENST00000470768	D;D;D;D	0.94650	-3.48;-3.48;-3.48;-3.48	5.37	5.37	0.77165	.	0.433338	0.26122	N	0.026214	D	0.92113	0.7500	N	0.17082	0.46	0.32940	D	0.518256	D;D;D;D;D	0.69078	0.994;0.996;0.997;0.99;0.994	P;D;D;P;P	0.64321	0.861;0.924;0.924;0.73;0.861	D	0.90293	0.4324	9	.	.	.	-5.1147	6.1073	0.20081	0.113:0.0:0.6989:0.188	.	199;263;163;263;265	F5H3J2;Q53H03;B4DS57;P49321;P49321-3	.;.;.;NASP_HUMAN;.	H	199;265;163;263;226	ENSP00000438871:Q199H;ENSP00000384529:Q265H;ENSP00000255120:Q263H;ENSP00000436924:Q226H	.	Q	+	3	2	NASP	45845959	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	2.932000	0.48940	2.902000	0.99343	0.650000	0.86243	CAG		0.478	NASP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000021533.2	NM_002482		C	46073372	G	C	46073372	3	2	669	1	0	0	0	0	1	0	0	0	10179	991	35	4	888	4	NASP	1	46073372	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	21872210	46073372	203177249	4	42806										
ZZZ3	26009	mdanderson.org	37	chr1	78097667	78097667	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gtccaatattgagtcttgccTctgagggtggtttacttact	10	8	2	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr1:78097667T>C	ENST00000370801.3	-	5	1848	c.1373A>G	c.(1372-1374)gAg>gGg	p.E458G	ZZZ3_ENST00000476275.1_5'UTR|ZZZ3_ENST00000370798.1_Intron	NM_015534.4	NP_056349.1	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	458					chromatin organization (GO:0006325)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	Ada2/Gcn5/Ada3 transcription activator complex (GO:0005671)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			breast(2)|endometrium(2)|kidney(2)|large_intestine(8)|lung(17)|ovary(4)|prostate(1)|stomach(1)|urinary_tract(2)	39						GAGTCTTGCCTCTGAGGGTGG	0.388																																																0													177	163	168					1																	78097667		2203	4300	6503	SO:0001583	missense	26009			AL080063	CCDS677.1	1p31.1	2012-08-13			ENSG00000036549	ENSG00000036549		"Zinc fingers, ZZ-type"	24523	protein-coding gene	gene with protein product	"ATAC component 1 homolog (Drosophila)"					16428443, 21304275	Standard	NM_015534		Approved	DKFZP564I052, ATAC1	uc001dhq.3	Q8IYH5	OTTHUMG00000009652	ENST00000370801.3:c.1373A>G	1.37:g.78097667T>C	ENSP00000359837:p.Glu458Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B7WPC6|Q6N004|Q6N070|Q8IYP0|Q8IYR1|Q8TEK4|Q9Y4U0	Missense_Mutation	SNP	ENST00000370801.3	37	CCDS677.1	.	.	.	.	.	.	.	.	.	.	T	12.74	2.029389	0.35797	.	.	ENSG00000036549	ENST00000370801	.	.	.	5.74	5.74	0.90152	.	0.136480	0.56097	D	0.000039	T	0.70159	0.3192	L	0.56769	1.78	0.80722	D	1	D;D;D	0.89917	1.0;0.999;0.999	D;D;D	0.76575	0.988;0.922;0.964	T	0.69903	-0.5019	8	.	.	.	.	16.3545	0.83230	0.0:0.0:0.0:1.0	.	458;458;458	Q8IYH5-4;Q8IYH5;Q8IYH5-2	.;ZZZ3_HUMAN;.	G	458	.	.	E	-	2	0	ZZZ3	77870255	1.000000	0.71417	1.000000	0.80357	0.793000	0.44817	6.785000	0.75089	2.326000	0.78906	0.533000	0.62120	GAG		0.388	ZZZ3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026615.1	NM_015534		C	78097667	T	C	78097667	3	2	669	1	0	0	0	0	1	0	0	0	18268	1551	54	3	1382	3	ZZZ3	1	78097667	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	32024295	78097667	171152954	5	42807										
USP33	23032	mdanderson.org	37	chr1	78177501	78177501	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gcctcaatttggcaagtatgAcaaatgtacagatggttgac	10	7	1	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr1:78177501A>G	ENST00000370793.1	-	22	2776	c.2430T>C	c.(2428-2430)tgT>tgC	p.C810C	USP33_ENST00000370794.3_Silent_p.C779C|USP33_ENST00000370792.3_Silent_p.C802C|USP33_ENST00000357428.1_Silent_p.C810C	NM_015017.4	NP_055832.3	Q8TEY7	UBP33_HUMAN	ubiquitin specific peptidase 33	810	DUSP 1. {ECO:0000255|PROSITE- ProRule:PRU00613}.				axon guidance (GO:0007411)|cell migration (GO:0016477)|centrosome duplication (GO:0051298)|endocytosis (GO:0006897)|protein deubiquitination (GO:0016579)|protein K48-linked deubiquitination (GO:0071108)|protein K63-linked deubiquitination (GO:0070536)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|ubiquitin-dependent protein catabolic process (GO:0006511)	cell body (GO:0044297)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|VCB complex (GO:0030891)	cysteine-type endopeptidase activity (GO:0004197)|G-protein coupled receptor binding (GO:0001664)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|endometrium(4)|kidney(4)|large_intestine(10)|lung(19)|ovary(1)|prostate(2)|urinary_tract(1)	44						GGCAAGTATGACAAATGTACA	0.318																																					Melanoma(152;72 1870 11110 26780 42647)											0													39	42	41					1																	78177501		2203	4299	6502	SO:0001819	synonymous_variant	23032			AF383173	CCDS678.1, CCDS679.1, CCDS680.1	1p31	2008-02-05	2005-08-08		ENSG00000077254	ENSG00000077254		"Ubiquitin-specific peptidases"	20059	protein-coding gene	gene with protein product		615146	"ubiquitin specific protease 33"			12838346	Standard	NM_015017		Approved	KIAA1097, VDU1	uc001dht.4	Q8TEY7	OTTHUMG00000009651	ENST00000370793.1:c.2430T>C	1.37:g.78177501A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TEY6|Q96AV6|Q9H9F0|Q9UPQ5	Silent	SNP	ENST00000370793.1	37	CCDS678.1	.	.	.	.	.	.	.	.	.	.	A	9.652	1.141738	0.21205	.	.	ENSG00000077254	ENST00000481579	.	.	.	5.37	1.67	0.24075	.	.	.	.	.	T	0.43299	0.1241	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.33007	-0.9885	4	.	.	.	.	8.8392	0.35131	0.6413:0.0:0.3587:0.0	.	.	.	.	A	415	.	.	V	-	2	0	USP33	77950089	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	2.248000	0.43160	0.392000	0.25172	0.533000	0.62120	GTC		0.318	USP33-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000026923.2	NM_015017		G	78177501	A	G	78177501	2	3	669	1	0	0	0	0	0	0	0	1	17076	273	10	3		3	USP33	1	78177501	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	79834	78177501	171073120	6	42808										
CELF3	11189	mdanderson.org	37	chr1	151678746	151678746	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgctgctgctgctgctgctgCtgttgaggtggtggtggggg	20	7	0	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr1:151678746C>T	ENST00000290583.4	-	10	1873	c.1080G>A	c.(1078-1080)caG>caA	p.Q360Q	CELF3_ENST00000290585.4_Silent_p.Q310Q|CELF3_ENST00000392706.3_Silent_p.Q155Q|RP11-98D18.1_ENST00000457548.1_RNA|CELF3_ENST00000470688.1_5'UTR	NM_001172648.1|NM_007185.4	NP_001166119.1|NP_009116.3	Q5SZQ8	CELF3_HUMAN	CUGBP, Elav-like family member 3	360	Gln-rich.				mRNA splicing, via spliceosome (GO:0000398)|positive regulation of mRNA splicing, via spliceosome (GO:0048026)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|RNA splicing (GO:0008380)|sperm motility (GO:0030317)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|RNA binding (GO:0003723)			central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(5)|lung(6)|ovary(1)|prostate(1)	21						gctgctgctgctgttgAGGTG	0.652																																																0													19	21	20					1																	151678746		2199	4294	6493	SO:0001819	synonymous_variant	11189			U80759	CCDS1002.1, CCDS53367.1	1q21	2013-02-12	2010-02-19	2010-02-19	ENSG00000159409	ENSG00000159409		"Trinucleotide (CAG) repeat containing", "RNA binding motif (RRM) containing"	11967	protein-coding gene	gene with protein product	"expanded repeat domain, CAG/CTG 4", "CAG repeat domain", "CUG-BP and ETR-3 like factor 3"	612678	"trinucleotide repeat containing 4"	TNRC4		9225980	Standard	XM_005244859		Approved	CAGH4, BRUNOL1, ERDA4, MGC57297	uc001eys.2	Q5SZQ8	OTTHUMG00000013064	ENST00000290583.4:c.1080G>A	1.37:g.151678746C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKK6|O15414|Q499Y6|Q5SZQ7|Q6NVK0|Q8IZ98|Q9BZC2|Q9HB30	Silent	SNP	ENST00000290583.4	37	CCDS1002.1	.	.	.	.	.	.	.	.	.	.	.	8.446	0.851874	0.17034	.	.	ENSG00000159409	ENST00000420342	.	.	.	4.18	3.18	0.36537	.	.	.	.	.	T	0.45994	0.1370	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.41910	-0.9482	4	.	.	.	-1.649	8.7523	0.34622	0.0:0.876:0.0:0.124	.	.	.	.	N	361	.	.	S	-	2	0	CELF3	149945370	.	.	1.000000	0.80357	0.943000	0.58893	.	.	2.183000	0.69458	0.655000	0.94253	AGC		0.652	CELF3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000036663.2	NM_007185		T	151678746	C	T	151678746	2	4	669	1	0	0	0	0	0	0	0	1	3219	796	28	2		2	CELF3	1	151678746	Silent	SNP	C	TCGA-KN-8433-01A-11D-2310-10	73501245	151678746	97571875	7	42809										
FLG2	388698	mdanderson.org	37	chr1	152325171	152325171	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctagtggtatctcctgtctgTccatgagtagttccatgtct	9	10	3	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr1:152325171T>C	ENST00000388718.5	-	3	5163	c.5091A>G	c.(5089-5091)ggA>ggG	p.G1697G	FLG-AS1_ENST00000392688.2_RNA|FLG-AS1_ENST00000445097.1_RNA	NM_001014342.2	NP_001014364.1	Q5D862	FILA2_HUMAN	filaggrin family member 2	1697					establishment of skin barrier (GO:0061436)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|structural molecule activity (GO:0005198)			NS(2)|breast(7)|cervix(3)|endometrium(11)|kidney(9)|large_intestine(24)|liver(1)|lung(85)|ovary(12)|pancreas(1)|prostate(6)|skin(17)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(5)	188	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTCCTGTCTGTCCATGAGTAG	0.493																																																0													413	360	378					1																	152325171		2203	4300	6503	SO:0001819	synonymous_variant	388698			AY827490	CCDS30861.1	1q21.3	2013-01-10			ENSG00000143520	ENSG00000143520		"EF-hand domain containing"	33276	protein-coding gene	gene with protein product						12477932	Standard	NM_001014342		Approved	IFPS	uc001ezw.4	Q5D862	OTTHUMG00000012245	ENST00000388718.5:c.5091A>G	1.37:g.152325171T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H4U1	Silent	SNP	ENST00000388718.5	37	CCDS30861.1																																																																																				0.493	FLG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034018.5	NM_001014342		C	152325171	T	C	152325171	2	2	669	1	0	0	0	0	0	0	0	1	5930	1654	58	3		3	FLG2	1	152325171	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	646425	152325171	96925450	8	42810										
ATP8B2	57198	mdanderson.org	37	chr1	154315311	154315311	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tctccttcaatcctctggctGacaagaagttcttattttgg	7	10	4	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr1:154315311G>A	ENST00000368489.3	+	15	1426	c.1426G>A	c.(1426-1428)Gac>Aac	p.D476N		NM_020452.3	NP_065185.1	P98198	AT8B2_HUMAN	ATPase, aminophospholipid transporter, class I, type 8B, member 2	462					ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)		IL6R/ATP8B2(2)	breast(2)|endometrium(4)|kidney(3)|large_intestine(7)|lung(25)|ovary(3)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	51	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TCCTCTGGCTGACAAGAAGTT	0.542																																																0													92	89	90					1																	154315311		2203	4300	6503	SO:0001583	missense	57198			AB032963	CCDS1066.1, CCDS41405.1	1q21.3	2012-03-09	2012-03-09		ENSG00000143515	ENSG00000143515		"ATPases / P-type"	13534	protein-coding gene	gene with protein product		605867	"ATPase, class I, type 8B, member 2"			10574461, 11015572	Standard	NM_020452		Approved	ATPID, KIAA1137	uc001fex.3	P98198	OTTHUMG00000035979	ENST00000368489.3:c.1426G>A	1.37:g.154315311G>A	ENSP00000357475:p.Asp476Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3P4|Q6NT69|Q7Z486|Q96I43|Q96NQ7	Missense_Mutation	SNP	ENST00000368489.3	37	CCDS1066.1	.	.	.	.	.	.	.	.	.	.	G	26.4	4.733878	0.89482	.	.	ENSG00000143515	ENST00000368489	T	0.61859	0.07	5.39	5.39	0.77823	.	0.000000	0.85682	D	0.000000	T	0.67107	0.2858	M	0.62266	1.93	0.80722	D	1	D	0.59767	0.986	D	0.63283	0.913	T	0.65780	-0.6085	10	0.49607	T	0.09	.	18.3169	0.90224	0.0:0.0:1.0:0.0	.	476	P98198-3	.	N	476	ENSP00000357475:D476N	ENSP00000357475:D476N	D	+	1	0	ATP8B2	152581935	1.000000	0.71417	0.997000	0.53966	0.990000	0.78478	7.697000	0.84279	2.808000	0.96608	0.655000	0.94253	GAC		0.542	ATP8B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087658.2	NM_020452		A	154315311	G	A	154315311	3	1	669	1	0	0	0	0	1	0	0	0	1195	1290	45	2	1614	2	ATP8B2	1	154315311	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	1990140	154315311	94935310	9	42811										
SELL	6402	mdanderson.org	37	chr1	169673838	169673838	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gaagctgaagtttcccaaagGgtgagtacagtccatggtac	12	8	0	2	rs2229569	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr1:169673838G>A	ENST00000236147.4	-	5	836	c.676C>T	c.(676-678)Cct>Tct	p.P226S	SELL_ENST00000463108.1_5'UTR|C1orf112_ENST00000498289.1_Intron	NM_000655.4	NP_000646.2	P14151	LYAM1_HUMAN	selectin L	213	Sushi 1. {ECO:0000255|PROSITE- ProRule:PRU00302}.				blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|leukocyte migration (GO:0050900)|regulation of immune response (GO:0050776)|response to ATP (GO:0033198)	external side of plasma membrane (GO:0009897)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)|glycosphingolipid binding (GO:0043208)|heparin binding (GO:0008201)|protease binding (GO:0002020)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|kidney(2)|large_intestine(3)|lung(5)|urinary_tract(1)	15	all_hematologic(923;0.208)					TTTCCCAAAGGGTGAGTACAG	0.478													G|||	1222	0.24401	0.27	0.2752	5008	,	,		19408	0.254		0.175	False		,,,				2504	0.2474															0								G	SER/PRO	809,2909		85,639,1135	47	47	47		676	5.3	0.9	1	dbSNP_98	47	1076,7044		73,930,3057	yes	missense	SELL	NM_000655.4	74	158,1569,4192	AA,AG,GG		13.2512,21.759,15.9233	probably-damaging	226/386	169673838	1885,9953	1859	4060	5919	SO:0001583	missense	6402			M25280	CCDS53427.1	1q23-q25	2008-07-31	2008-07-31		ENSG00000188404	ENSG00000188404		"CD molecules"	10720	protein-coding gene	gene with protein product		153240	"lymphocyte adhesion molecule 1"	LYAM1, LNHR		2664786, 1375831	Standard	NR_029467		Approved	LSEL, LAM1, LAM-1, hLHRc, Leu-8, Lyam-1, PLNHR, CD62L	uc001ggk.3	P14151	OTTHUMG00000034809	ENST00000236147.4:c.676C>T	1.37:g.169673838G>A	ENSP00000236147:p.Pro226Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6Q8|P15023|Q9UJ43	Missense_Mutation	SNP	ENST00000236147.4	37	CCDS53427.1	523	0.23946886446886448	139	0.28252032520325204	91	0.2513812154696133	163	0.28496503496503495	130	0.17150395778364116	G	18.76	3.692950	0.68271	0.21759	0.132512	ENSG00000188404	ENST00000236147	T	0.48201	0.82	5.31	5.31	0.75309	Complement control module (2);Sushi/SCR/CCP (3);	0.117810	0.38326	N	0.001734	T	0.56717	0.2004	M	0.63843	1.955	0.23533	P	0.99747012	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.61033	-0.7144	9	0.56958	D	0.05	-9.9883	12.5565	0.56257	0.0:0.1674:0.8325:0.0	rs2229569;rs4987310;rs52812496;rs58249723;rs4987310	226;213	Q8WW79;P14151	.;LYAM1_HUMAN	S	226	ENSP00000236147:P226S	ENSP00000236147:P226S	P	-	1	0	SELL	167940462	0.994000	0.37717	0.872000	0.34217	0.870000	0.49936	2.131000	0.42074	2.631000	0.89168	0.655000	0.94253	CCT		0.478	SELL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084233.1	NM_000655		A	169673838	G	A	169673838	3	1	669	1	0	0	0	0	1	0	0	0	14029	1232	43	2	501	2	SELL	1	169673838	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	15358527	169673838	79576783	10	42812										
KIAA1614	57710	broad.mit.edu	37	chr1	180910361	180910362	+	Frame_Shift_Ins	INS	-	-	C													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	acagtgtggagcagttgcagINScccgccccgcctggcctgac							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr1:180910361_180910362insC	ENST00000367588.4	+	7	3154_3155	c.3099_3100insC	c.(3100-3102)cccfs	p.P1034fs	KIAA1614_ENST00000367587.1_Frame_Shift_Ins_p.P655fs|KIAA1614_ENST00000461346.1_3'UTR|RP11-46A10.5_ENST00000358073.2_RNA	NM_020950.1	NP_066001.1	Q5VZ46	K1614_HUMAN	KIAA1614	1034	Ser-rich.									NS(1)|endometrium(5)|kidney(2)|large_intestine(2)|lung(12)|ovary(5)|pancreas(1)|prostate(1)|skin(3)|urinary_tract(1)	33						AGCAGTTGCAGCCCGCCCCGCC	0.658																																																0																																										SO:0001589	frameshift_variant	57710			AB046834	CCDS41442.1	1q25.3	2008-02-05			ENSG00000135835	ENSG00000135835			29327	protein-coding gene	gene with protein product							Standard	NM_020950		Approved		uc001gok.2	Q5VZ46	OTTHUMG00000035183	ENST00000367588.4:c.3102dupC	1.37:g.180910364_180910364dupC	ENSP00000356560:p.Pro1034fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VZ45|Q9HCF8	Frame_Shift_Ins	INS	ENST00000367588.4	37	CCDS41442.1																																																																																				0.658	KIAA1614-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000085151.1	XM_046531		C	180910362	-	C	180910361	7	5	669	1	0	1	1	0	0	0	0	0	8255	962	34	0	3125	0	KIAA1614	1	180910361	Frame_Shift_Ins	INS	-	TCGA-KN-8433-01A-11D-2310-10	11236523	180910361	68340260	11	42813										
KCNT2	343450	mdanderson.org	37	chr1	196227480	196227480	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gccttttctgctcagtcttcGggcccactgcatgctttttc	8	14	3	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr1:196227480G>T	ENST00000294725.9	-	26	3970	c.3055C>A	c.(3055-3057)Cga>Aga	p.R1019R	KCNT2_ENST00000367431.4_Silent_p.R953R|KCNT2_ENST00000451324.2_3'UTR|KCNT2_ENST00000498426.1_5'UTR|KCNT2_ENST00000367433.5_Silent_p.R995R|KCNT2_ENST00000609185.1_Silent_p.R952R			Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	1019					potassium ion transmembrane transport (GO:0071805)	voltage-gated potassium channel complex (GO:0008076)	ATP binding (GO:0005524)|calcium-activated potassium channel activity (GO:0015269)|voltage-gated potassium channel activity (GO:0005249)			NS(1)|breast(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(16)|lung(43)|ovary(5)|pancreas(1)|prostate(1)|skin(11)|stomach(2)|upper_aerodigestive_tract(1)	97						CTCAGTCTTCGGGCCCACTGC	0.517																																																0													152	131	138					1																	196227480		2203	4300	6503	SO:0001819	synonymous_variant	343450			BX647852, AY359444, AK127807	CCDS1384.1, CCDS72994.1, CCDS72995.1	1q31.3	2012-07-05			ENSG00000162687	ENSG00000162687		"Potassium channels", "Voltage-gated ion channels / Potassium channels, calcium-activated"	18866	protein-coding gene	gene with protein product	"sodium and chloride activated ATP sensitive potassium channel"	610044				16382103	Standard	NM_198503		Approved	KCa4.2, SLICK, SLO2.1	uc001gtd.1	Q6UVM3	OTTHUMG00000035611	ENST00000294725.9:c.3055C>A	1.37:g.196227480G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q3SY59|Q5VTN1|Q6ZMT3	Silent	SNP	ENST00000294725.9	37	CCDS1384.1																																																																																				0.517	KCNT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086418.2	NM_198503		T	196227480	G	T	196227480	2	4	669	1	0	0	0	0	0	0	0	1	8099	1124	39	4		4	KCNT2	1	196227480	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	15317119	196227480	53023141	12	42814										
SLC45A3	85414	mdanderson.org	37	chr1	205628616	205628616	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctcacccaccaccacacgtaCggagacatcacaggcagagg	9	16	2	2	rs137949511	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr1:205628616C>T	ENST00000367145.3	-	5	1703	c.1408G>A	c.(1408-1410)Gta>Ata	p.V470I	SLC45A3_ENST00000460934.1_5'UTR	NM_033102.2	NP_149093.1	Q96JT2	S45A3_HUMAN	solute carrier family 45, member 3	470					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)			SLC45A3/BRAF(2)|SLC45A3/ELK4(18)|SLC45A3/ETV1(3)|SLC45A3/ETV5_ENST00000306376(2)|SLC45A3/ERG(50)	cervix(1)|endometrium(1)|kidney(1)|large_intestine(2)|liver(1)|lung(7)|ovary(3)|prostate(5)	21	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0194)			ACCACACGTACGGAGACATCA	0.677			T	"ETV1, ETV5, ELK4, ERG"	prostate						OREG0014161	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	C|||	21	0.00419329	0.0	0.0043	5008	,	,		18353	0.0		0.0119	False		,,,				2504	0.0061						Dom	yes		1	1q32	85414	"solute carrier family 45, member 3"		E	0								C	ILE/VAL	8,4396	14.3+/-33.2	0,8,2194	38	38	38		1408	-1.4	0.4	1	dbSNP_134	38	78,8520	44.5+/-102.8	0,78,4221	yes	missense	SLC45A3	NM_033102.2	29	0,86,6415	TT,TC,CC		0.9072,0.1817,0.6614	benign	470/554	205628616	86,12916	2202	4299	6501	SO:0001583	missense	85414			AF109301	CCDS1458.1	1q32.1	2013-05-22	2005-10-04	2005-10-04	ENSG00000158715	ENSG00000158715		"Solute carriers"	8642	protein-coding gene	gene with protein product		605097	"prostate cancer associated protein 6", "prostate cancer associated protein 2", "prostate cancer associated protein 8"	PCANAP6, PCANAP2, PCANAP8		10613842, 11245466	Standard	XM_005245556		Approved	IPCA-6, prostein, IPCA-2, IPCA-8	uc001hda.1	Q96JT2	OTTHUMG00000037223	ENST00000367145.3:c.1408G>A	1.37:g.205628616C>T	ENSP00000356113:p.Val470Ile	Somatic	2153	WXS	Illumina HiSeq	Phase_I	A8K2U9	Missense_Mutation	SNP	ENST00000367145.3	37	CCDS1458.1	8	0.003663003663003663	0	0.0	1	0.0027624309392265192	0	0.0	7	0.009234828496042216	C	2.983	-0.209897	0.06140	0.001817	0.009072	ENSG00000158715	ENST00000367145	T	0.44482	0.92	5.48	-1.36	0.09085	.	0.387498	0.26341	N	0.024935	T	0.13072	0.0317	N	0.14661	0.345	0.09310	N	1	B	0.22211	0.066	B	0.13407	0.009	T	0.20538	-1.0272	10	0.14656	T	0.56	-17.1135	7.4464	0.27213	0.0:0.4405:0.1634:0.3962	.	470	Q96JT2	S45A3_HUMAN	I	470	ENSP00000356113:V470I	ENSP00000356113:V470I	V	-	1	0	SLC45A3	203895239	0.023000	0.18921	0.369000	0.25952	0.167000	0.22549	-0.027000	0.12371	-0.144000	0.11314	-0.339000	0.08088	GTA		0.677	SLC45A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090619.1	NM_033102		T	205628616	C	T	205628616	3	4	669	1	0	0	0	0	1	0	0	0	14655	536	19	1	257	1	SLC45A3	1	205628616	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	9401136	205628616	43622005	13	42815										
IKBKE	9641	mdanderson.org	37	chr1	206650108	206650108	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	atctctggagcattggagtgAccttgtaccatgcagccact	10	11	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr1:206650108A>T	ENST00000367120.3	+	7	1001	c.628A>T	c.(628-630)Acc>Tcc	p.T210S	IKBKE_ENST00000537984.1_Missense_Mutation_p.T125S	NM_001193322.1|NM_014002.3	NP_001180251.1|NP_054721.1	Q14164	IKKE_HUMAN	inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase epsilon	210	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				immune response (GO:0006955)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of type I interferon production (GO:0032480)|NIK/NF-kappaB signaling (GO:0038061)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|protein phosphorylation (GO:0006468)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor signaling pathway (GO:0002224)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome membrane (GO:0010008)|nucleus (GO:0005634)|PML body (GO:0016605)	ATP binding (GO:0005524)|IkappaB kinase activity (GO:0008384)|NF-kappaB-inducing kinase activity (GO:0004704)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(6)|lung(13)|ovary(3)|skin(2)	32	Breast(84;0.137)					CATTGGAGTGACCTTGTACCA	0.597																																																0													111	92	99					1																	206650108		2203	4300	6503	SO:0001583	missense	9641			AB016590	CCDS30996.1, CCDS53464.1, CCDS73019.1	1q31	2014-05-06			ENSG00000143466				14552	protein-coding gene	gene with protein product		605048				10421793, 10882136	Standard	NM_001193321		Approved	IKKE, IKK-i, KIAA0151	uc001hdz.2	Q14164	OTTHUMG00000184613	ENST00000367120.3:c.628A>T	1.37:g.206650108A>T	ENSP00000356087:p.Thr210Ser	Somatic		WXS	Illumina HiSeq	Phase_I	D3DT78|Q3B754|Q3KR43|Q5JTS6	Missense_Mutation	SNP	ENST00000367120.3	37	CCDS30996.1	.	.	.	.	.	.	.	.	.	.	A	29.2	4.986030	0.93044	.	.	ENSG00000143466	ENST00000367120;ENST00000537984	T;T	0.46819	0.86;1.71	5.13	5.13	0.70059	Serine/threonine-protein kinase-like domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.69351	0.3101	M	0.82923	2.615	0.53688	D	0.999976	P;D	0.63880	0.911;0.993	P;D	0.64595	0.605;0.927	T	0.75218	-0.3395	10	0.72032	D	0.01	3.0E-4	14.9434	0.71012	1.0:0.0:0.0:0.0	.	125;210	Q3B754;Q14164	.;IKKE_HUMAN	S	210;125	ENSP00000356087:T210S;ENSP00000444529:T125S	ENSP00000356087:T210S	T	+	1	0	IKBKE	204716731	1.000000	0.71417	1.000000	0.80357	0.938000	0.57974	8.942000	0.92970	1.928000	0.55862	0.454000	0.30748	ACC		0.597	IKBKE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000088484.1			T	206650108	A	T	206650108	3	4	669	1	0	0	0	0	1	0	0	0	7619	275	10	5	646	5	IKBKE	1	206650108	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	1021492	206650108	42600513	14	42816										
GALNT14	79623	mdanderson.org	37	chr2	31189098	31189098	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggtcctgagcagcgtggagcGggcctcgttgtggaaggtga	19	8	0	2	rs376894318		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr2:31189098G>A	ENST00000349752.5	-	3	1009	c.370C>T	c.(370-372)Cgc>Tgc	p.R124C	GALNT14_ENST00000324589.5_Missense_Mutation_p.R129C|GALNT14_ENST00000356174.3_Intron|GALNT14_ENST00000420311.2_Missense_Mutation_p.R89C|GALNT14_ENST00000406653.1_Missense_Mutation_p.R104C	NM_024572.3	NP_078848.2	Q96FL9	GLT14_HUMAN	polypeptide N-acetylgalactosaminyltransferase 14	124	Catalytic subdomain A.				cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			cervix(1)|endometrium(3)|large_intestine(10)|liver(1)|lung(21)|ovary(1)|skin(3)|upper_aerodigestive_tract(3)	43	Acute lymphoblastic leukemia(172;0.155)					AGCGTGGAGCGGGCCTCGTTG	0.592																																																0									CYS/ARG	0,4406		0,0,2203	249	195	213		370	2.7	1	2		213	1,8599	1.2+/-3.3	0,1,4299	no	missense	GALNT14	NM_024572.2	180	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	124/553	31189098	1,13005	2203	4300	6503	SO:0001583	missense	79623			AB078144	CCDS1773.2, CCDS58705.1, CCDS58706.1	2p23.2	2014-03-13	2014-03-13		ENSG00000158089	ENSG00000158089	2.4.1.41	"Glycosyltransferase family 2 domain containing"	22946	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 14"	608225	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 14 (GalNAc-T14)"			12507512	Standard	NM_024572		Approved	GalNac-T10, FLJ12691, GalNac-T14	uc002rns.3	Q96FL9	OTTHUMG00000074077	ENST00000349752.5:c.370C>T	2.37:g.31189098G>A	ENSP00000288988:p.Arg124Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KV89|Q4ZG75|Q53SU1|Q53TJ0|Q8IVI4|Q9BRH1|Q9H827|Q9H9J8	Missense_Mutation	SNP	ENST00000349752.5	37	CCDS1773.2	.	.	.	.	.	.	.	.	.	.	g	18.67	3.673428	0.67928	0.0	1.16E-4	ENSG00000158089	ENST00000349752;ENST00000324589;ENST00000406653;ENST00000420311	T;T;T;T	0.59364	0.27;0.27;0.27;0.27	4.85	2.73	0.32206	Glycosyl transferase, family 2 (1);	0.108216	0.56097	D	0.000027	T	0.76364	0.3977	M	0.89353	3.025	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.97110	1.0;1.0;1.0;1.0;1.0	T	0.77213	-0.2670	10	0.38643	T	0.18	.	11.246	0.48998	0.0:0.0:0.5947:0.4053	.	89;89;129;124;104	F5H263;B7Z5C5;Q96FL9-3;Q96FL9;B3KV89	.;.;.;GLT14_HUMAN;.	C	124;129;104;89	ENSP00000288988:R124C;ENSP00000314500:R129C;ENSP00000385435:R104C;ENSP00000415514:R89C	ENSP00000314500:R129C	R	-	1	0	GALNT14	31042602	1.000000	0.71417	0.999000	0.59377	0.867000	0.49689	1.856000	0.39389	0.990000	0.38787	0.480000	0.44947	CGC		0.592	GALNT14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157264.1	NM_024572		A	31189098	G	A	31189098	3	1	669	1	0	0	0	0	1	0	0	0	6219	1116	39	1	1340	1	GALNT14	2	31189098	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10		31189098	212010275	15	42817										
GCC2	9648	mdanderson.org	37	chr2	109088337	109088337	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gaaagagttagaagaaatacAgtcagaaaaagaggccctgc	11	6	1	5	rs139623765		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr2:109088337A>G	ENST00000309863.6	+	6	3266	c.2552A>G	c.(2551-2553)cAg>cGg	p.Q851R		NM_181453.3	NP_852118	Q8IWJ2	GCC2_HUMAN	GRIP and coiled-coil domain containing 2	851					Golgi ribbon formation (GO:0090161)|late endosome to Golgi transport (GO:0034499)|microtubule anchoring (GO:0034453)|microtubule organizing center organization (GO:0031023)|protein localization to Golgi apparatus (GO:0034067)|protein targeting to Golgi (GO:0000042)|protein targeting to lysosome (GO:0006622)|recycling endosome to Golgi transport (GO:0071955)|regulation of protein exit from endoplasmic reticulum (GO:0070861)|retrograde transport, endosome to Golgi (GO:0042147)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|nucleus (GO:0005634)|trans-Golgi network (GO:0005802)	identical protein binding (GO:0042802)			breast(8)|central_nervous_system(1)|endometrium(2)|kidney(5)|large_intestine(10)|lung(19)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	54						GAAGAAATACAGTCAGAAAAA	0.343																																																0													40	44	43					2																	109088337		2199	4298	6497	SO:0001583	missense	9648			BC020645	CCDS33268.1	2q12.3	2008-02-05	2004-03-05		ENSG00000135968	ENSG00000135968			23218	protein-coding gene	gene with protein product		612711	"GRIP and coiled-coil domain-containing 2"			12446665	Standard	NM_181453		Approved	GCC185, KIAA0336	uc002tec.3	Q8IWJ2	OTTHUMG00000153214	ENST00000309863.6:c.2552A>G	2.37:g.109088337A>G	ENSP00000307939:p.Gln851Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8X8|O15045|Q4ZG46|Q8TDH3|Q9H2G8	Missense_Mutation	SNP	ENST00000309863.6	37	CCDS33268.1	.	.	.	.	.	.	.	.	.	.	A	11.51	1.661259	0.29515	.	.	ENSG00000135968	ENST00000309863;ENST00000409896;ENST00000393318	T	0.31510	1.49	5.45	0.302	0.15786	.	0.974151	0.08386	N	0.953701	T	0.12603	0.0306	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.32481	-0.9905	10	0.18710	T	0.47	.	2.6103	0.04889	0.2759:0.0724:0.1179:0.5338	.	851	Q8IWJ2	GCC2_HUMAN	R	851;814;595	ENSP00000307939:Q851R	ENSP00000307939:Q851R	Q	+	2	0	GCC2	108454769	0.341000	0.24801	0.003000	0.11579	0.953000	0.61014	1.325000	0.33724	-0.102000	0.12197	0.528000	0.53228	CAG		0.343	GCC2-014	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358516.3	NM_014635		G	109088337	A	G	109088337	3	3	669	1	0	0	0	0	1	0	0	0	6293	188	7	3	2574	3	GCC2	2	109088337	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	77899239	109088337	134111036	16	42818										
POTEE	445582	mdanderson.org	37	chr2	131981279	131981279	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	caaaaagaggacagctctgaTaaaggtatgcagtagccaac	10	8	1	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr2:131981279T>C	ENST00000356920.5	+	2	726	c.632T>C	c.(631-633)aTa>aCa	p.I211T	PLEKHB2_ENST00000404460.1_Intron|PLEKHB2_ENST00000303908.3_Intron|POTEE_ENST00000358087.5_Missense_Mutation_p.I211T	NM_001083538.1	NP_001077007.1	Q6S8J3	POTEE_HUMAN	POTE ankyrin domain family, member E	211					retina homeostasis (GO:0001895)|substantia nigra development (GO:0021762)	blood microparticle (GO:0072562)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)		p.T208fs*21(1)|p.?(1)									ACAGCTCTGATAAAGGTATGC	0.388																																																2	Unknown(1)|Deletion - Frameshift(1)	prostate(2)											4	5	5					2																	131981279		1352	3035	4387	SO:0001583	missense	445582			AY462868	CCDS46414.1	2q21.1	2014-04-10	2008-11-26	2008-11-26	ENSG00000188219	ENSG00000188219		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33895	protein-coding gene	gene with protein product	"cancer/testis antigen family 104, member 2"	608914	"ANKRD26-like family C, member 1A"	A26C1A			Standard	NM_001083538		Approved	POTE2, POTE-2, A26C1, POTE2gamma, CT104.2	uc002tsn.2	Q6S8J3	OTTHUMG00000186974	ENST00000356920.5:c.632T>C	2.37:g.131981279T>C	ENSP00000439189:p.Ile211Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6S8J4|Q6S8J5|Q6S8J8	Missense_Mutation	SNP	ENST00000356920.5	37	CCDS46414.1	.	.	.	.	.	.	.	.	.	.	.	2.085	-0.409789	0.04799	.	.	ENSG00000188219	ENST00000356920;ENST00000358087	T;T	0.64991	-0.13;1.56	1.16	-0.171	0.13331	Ankyrin repeat-containing domain (4);	1.226600	0.05905	N	0.630695	T	0.40815	0.1132	N	0.20445	0.575	0.21064	N	0.999798	B	0.17465	0.022	B	0.14023	0.01	T	0.14868	-1.0457	10	0.12766	T	0.61	.	4.0041	0.09593	0.0:0.2359:0.0:0.7641	.	211	Q6S8J3	POTEE_HUMAN	T	211	ENSP00000439189:I211T;ENSP00000443049:I211T	ENSP00000439189:I211T	I	+	2	0	AC131180.1	131697749	1.000000	0.71417	0.006000	0.13384	0.023000	0.10783	1.399000	0.34566	-0.227000	0.09884	-1.288000	0.01363	ATA		0.388	POTEE-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001083538		C	131981279	T	C	131981279	3	2	669	1	0	0	0	0	1	0	0	0	12271	1406	49	3	638	3	POTEE	2	131981279	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	22892942	131981279	111218094	17	42819										
CSRNP3	80034	broad.mit.edu;mdanderson.org	37	chr2	166532972	166532972	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aaaaacgaagagctctgctgCgtgcctctggagtgaaaaag	12	8	2	2	rs150240455		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr2:166532972C>T	ENST00000342316.4	+	4	831	c.559C>T	c.(559-561)Cgt>Tgt	p.R187C	CSRNP3_ENST00000314499.7_Missense_Mutation_p.R187C|CSRNP3_ENST00000409420.1_Missense_Mutation_p.R219C	NM_024969.3	NP_079245.2	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	187					apoptotic process (GO:0006915)|negative regulation of phosphatase activity (GO:0010923)|positive regulation of apoptotic process (GO:0043065)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	nucleus (GO:0005634)	RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|cervix(1)|endometrium(1)|large_intestine(9)|lung(15)|ovary(3)|skin(2)	33						AGCTCTGCTGCGTGCCTCTGG	0.493																																																0													155	158	157					2																	166532972		2203	4300	6503	SO:0001583	missense	80034			AB063300	CCDS2225.1	2q24.3	2012-04-17	2009-01-07	2009-01-07	ENSG00000178662	ENSG00000178662		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	30729	protein-coding gene	gene with protein product	"TGF beta induced apotosis protein 2", "protein phosphatase 1, regulatory subunit 73"		"family with sequence similarity 130, member A2"	FAM130A2		17726538	Standard	NM_024969		Approved	FLJ32093, TAIP-2, PPP1R73	uc002udg.3	Q8WYN3	OTTHUMG00000132145	ENST00000342316.4:c.559C>T	2.37:g.166532972C>T	ENSP00000344042:p.Arg187Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPR4|Q53SG0|Q6ZTX3|Q9HAF9	Missense_Mutation	SNP	ENST00000342316.4	37	CCDS2225.1	.	.	.	.	.	.	.	.	.	.	C	25.2	4.618124	0.87359	.	.	ENSG00000178662	ENST00000421875;ENST00000431452;ENST00000314499;ENST00000342316;ENST00000409420	T;T;T;T	0.18657	2.2;2.2;2.2;2.2	5.77	3.92	0.45320	.	0.137201	0.50627	D	0.000118	T	0.48696	0.1514	M	0.80982	2.52	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.55341	-0.8156	10	0.87932	D	0	-8.8202	14.7122	0.69241	0.2369:0.7631:0.0:0.0	.	187	Q8WYN3	CSRN3_HUMAN	C	187;194;187;187;219	ENSP00000412081:R187C;ENSP00000318258:R187C;ENSP00000344042:R187C;ENSP00000387195:R219C	ENSP00000318258:R187C	R	+	1	0	CSRNP3	166241218	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	3.209000	0.51122	0.847000	0.35167	0.655000	0.94253	CGT		0.493	CSRNP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255191.2	NM_024969		T	166532972	C	T	166532972	3	4	669	1	0	0	0	0	1	0	0	0	3967	768	27	1	569	1	CSRNP3	2	166532972	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	34551693	166532972	76666401	18	42820										
STAT4	6775	mdanderson.org	37	chr2	191937868	191937868	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cactttgtgctccacattccTctgtctttctgaaactgaag	6	12	3	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr2:191937868T>C	ENST00000392320.2	-	5	735	c.421A>G	c.(421-423)Agg>Ggg	p.R141G	STAT4_ENST00000358470.4_Missense_Mutation_p.R141G	NM_003151.3	NP_003142.1	Q14765	STAT4_HUMAN	signal transducer and activator of transcription 4	141					cell proliferation (GO:0008283)|cytokine-mediated signaling pathway (GO:0019221)|JAK-STAT cascade (GO:0007259)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein phosphorylation (GO:0006468)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)			breast(4)|endometrium(1)|kidney(2)|large_intestine(6)|lung(19)|ovary(1)|pancreas(1)|prostate(3)|skin(4)|upper_aerodigestive_tract(1)	42			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)			TCCACATTCCTCTGTCTTTCT	0.383																																																0													144	153	150					2																	191937868		2203	4300	6503	SO:0001583	missense	6775				CCDS2310.1	2q32.2-q32.3	2013-02-14			ENSG00000138378	ENSG00000138378		"SH2 domain containing"	11365	protein-coding gene	gene with protein product		600558				8007943, 8700208	Standard	NM_003151		Approved		uc002usn.2	Q14765	OTTHUMG00000132700	ENST00000392320.2:c.421A>G	2.37:g.191937868T>C	ENSP00000376134:p.Arg141Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q96NZ6	Missense_Mutation	SNP	ENST00000392320.2	37	CCDS2310.1	.	.	.	.	.	.	.	.	.	.	T	20.3	3.967615	0.74131	.	.	ENSG00000138378	ENST00000358470;ENST00000392320	T;T	0.59772	0.24;0.24	5.92	3.43	0.39272	STAT transcription factor, all-alpha (2);STAT transcription factor, coiled coil (1);	0.115942	0.56097	D	0.000033	T	0.58793	0.2147	L	0.53249	1.67	0.80722	D	1	P;P	0.49185	0.92;0.92	P;P	0.47603	0.551;0.551	T	0.60697	-0.7212	10	0.72032	D	0.01	-5.4751	12.9112	0.58181	0.0:0.0:0.2551:0.7449	.	141;141	B4DV04;Q14765	.;STAT4_HUMAN	G	141	ENSP00000351255:R141G;ENSP00000376134:R141G	ENSP00000351255:R141G	R	-	1	2	STAT4	191646113	1.000000	0.71417	0.996000	0.52242	0.985000	0.73830	3.428000	0.52792	0.423000	0.26033	0.455000	0.32223	AGG		0.383	STAT4-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335586.1	NM_003151		C	191937868	T	C	191937868	3	2	669	1	0	0	0	0	1	0	0	0	15279	1550	54	3	1905	3	STAT4	2	191937868	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	25404896	191937868	51261505	19	42821										
STRADB	55437	mdanderson.org	37	chr2	202343187	202343187	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cagtcaggtgtagactctggGattggagaaagtgtgcttgt	15	5	2	2	rs200083822		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr2:202343187G>A	ENST00000194530.3	+	10	1298	c.933G>A	c.(931-933)ggG>ggA	p.G311G	STRADB_ENST00000392249.2_Silent_p.G311G	NM_001206864.1|NM_018571.5	NP_001193793.1|NP_061041.2	Q9C0K7	STRAB_HUMAN	STE20-related kinase adaptor beta	311	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of protein kinase activity (GO:0032147)|cell cycle arrest (GO:0007050)|cell morphogenesis (GO:0000902)|insulin receptor signaling pathway (GO:0008286)|JNK cascade (GO:0007254)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|protein export from nucleus (GO:0006611)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	ATP binding (GO:0005524)|transferase activity, transferring phosphorus-containing groups (GO:0016772)			breast(1)|large_intestine(2)|lung(5)|prostate(1)|skin(3)|stomach(1)	13						TAGACTCTGGGATTGGAGAAA	0.423																																																0													76	72	73					2																	202343187		2203	4300	6503	SO:0001819	synonymous_variant	55437			AB038950	CCDS2348.1, CCDS56161.1	2q33.1	2010-09-30	2008-09-15	2008-09-15	ENSG00000082146	ENSG00000082146			13205	protein-coding gene	gene with protein product		607333	"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 2"	ALS2CR2		11161814, 14511394	Standard	NM_018571		Approved	CALS-21, PAPK, ILPIPA, ILPIP	uc002uyd.4	Q9C0K7	OTTHUMG00000132831	ENST00000194530.3:c.933G>A	2.37:g.202343187G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKY7|Q9P1L0	Silent	SNP	ENST00000194530.3	37	CCDS2348.1																																																																																				0.423	STRADB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256297.1	NM_018571		A	202343187	G	A	202343187	2	1	669	1	0	0	0	0	0	0	0	1	15337	1161	41	2		2	STRADB	2	202343187	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	10405319	202343187	40856186	20	42822										
CYP20A1	57404	mdanderson.org	37	chr2	204154552	204154552	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgactccagtttctgcccagCttcaagatattgaaggaaaa	8	9	2	3	rs1048013	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr2:204154552C>T	ENST00000356079.4	+	10	1159	c.1036C>T	c.(1036-1038)Ctt>Ttt	p.L346F	CYP20A1_ENST00000429815.2_Missense_Mutation_p.L354F|CYP20A1_ENST00000461371.1_3'UTR	NM_177538.2	NP_803882.1	Q6UW02	CP20A_HUMAN	cytochrome P450, family 20, subfamily A, polypeptide 1	346			L -> F (in dbSNP:rs1048013). {ECO:0000269|PubMed:15489334, ECO:0000269|Ref.1}.			integral component of membrane (GO:0016021)|membrane (GO:0016020)	heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen (GO:0016705)			cervix(1)|large_intestine(2)|lung(6)|ovary(1)|skin(1)	11						TTCTGCCCAGCTTCAAGATAT	0.318													C|||	2003	0.39996	0.149	0.4438	5008	,	,		13211	0.3194		0.5606	False		,,,				2504	0.6258															0								C	PHE/LEU	979,3427	364.1+/-316.8	108,763,1332	61	58	59		1036	5.6	1	2	dbSNP_86	59	4837,3763	614.1+/-396.2	1365,2107,828	yes	missense	CYP20A1	NM_177538.2	22	1473,2870,2160	TT,TC,CC		43.7558,22.2197,44.7178	benign	346/463	204154552	5816,7190	2203	4300	6503	SO:0001583	missense	57404			AK021770	CCDS2357.1	2q33	2008-02-05			ENSG00000119004	ENSG00000119004		"Cytochrome P450s"	20576	protein-coding gene	gene with protein product							Standard	NM_177538		Approved	CYP-M	uc002uzv.4	Q6UW02	OTTHUMG00000132854	ENST00000356079.4:c.1036C>T	2.37:g.204154552C>T	ENSP00000348380:p.Leu346Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZG61|Q8N4Q8|Q8WWA9|Q9HC04	Missense_Mutation	SNP	ENST00000356079.4	37	CCDS2357.1	835	0.3823260073260073	84	0.17073170731707318	183	0.505524861878453	158	0.2762237762237762	410	0.5408970976253298	C	14.49	2.549672	0.45383	0.222197	0.562442	ENSG00000119004	ENST00000356079;ENST00000421618;ENST00000429815	T;T	0.70164	-0.46;-0.46	5.6	5.6	0.85130	.	0.060804	0.64402	D	0.000004	T	0.00012	0.0000	L	0.54323	1.7	0.20873	P	0.999831543	B;B	0.12013	0.003;0.005	B;B	0.18871	0.015;0.023	T	0.44997	-0.9291	9	0.12766	T	0.61	-8.4726	19.6715	0.95914	0.0:1.0:0.0:0.0	rs1048013;rs3188004;rs17415875;rs17858536;rs17859053;rs52814168;rs58200424;rs1048013	354;346	E9PHG5;Q6UW02	.;CP20A_HUMAN	F	346;319;354	ENSP00000348380:L346F;ENSP00000407860:L354F	ENSP00000348380:L346F	L	+	1	0	CYP20A1	203862797	1.000000	0.71417	1.000000	0.80357	0.971000	0.66376	4.719000	0.61937	2.667000	0.90743	0.580000	0.79431	CTT		0.318	CYP20A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256328.3	NM_020674		T	204154552	C	T	204154552	3	4	669	1	0	0	0	0	1	0	0	0	4154	797	28	2	1074	2	CYP20A1	2	204154552	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	1811365	204154552	39044821	21	42823										
NDUFS1	4719	mdanderson.org	37	chr2	206994915	206994915	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggagggttcttccgaattgcTtccaccccaggcttatagcc	10	13	1	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr2:206994915T>C	ENST00000233190.6	-	15	1871	c.1605A>G	c.(1603-1605)gaA>gaG	p.E535E	NDUFS1_ENST00000457011.1_Silent_p.E419E|NDUFS1_ENST00000423725.1_Silent_p.E478E|NDUFS1_ENST00000440274.1_Silent_p.E499E|NDUFS1_ENST00000449699.1_Silent_p.E535E|NDUFS1_ENST00000432169.1_Silent_p.E424E|NDUFS1_ENST00000455934.2_Silent_p.E549E	NM_005006.6	NP_004997.4	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1, 75kDa (NADH-coenzyme Q reductase)	535					apoptotic mitochondrial changes (GO:0008637)|ATP metabolic process (GO:0046034)|cellular metabolic process (GO:0044237)|cellular respiration (GO:0045333)|mitochondrial electron transport, NADH to ubiquinone (GO:0006120)|reactive oxygen species metabolic process (GO:0072593)|regulation of mitochondrial membrane potential (GO:0051881)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)	mitochondrial inner membrane (GO:0005743)|mitochondrial intermembrane space (GO:0005758)|mitochondrial respiratory chain complex I (GO:0005747)	2 iron, 2 sulfur cluster binding (GO:0051537)|4 iron, 4 sulfur cluster binding (GO:0051539)|electron carrier activity (GO:0009055)|metal ion binding (GO:0046872)|NADH dehydrogenase (ubiquinone) activity (GO:0008137)			breast(1)|central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(7)|lung(15)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	38						TCCGAATTGCTTCCACCCCAG	0.433																																																0													82	77	78					2																	206994915		2203	4300	6503	SO:0001819	synonymous_variant	4719				CCDS2366.1, CCDS56162.1, CCDS56163.1, CCDS56164.1, CCDS56165.1	2q33-q34	2011-07-04	2002-08-29		ENSG00000023228	ENSG00000023228	1.6.5.3	"Mitochondrial respiratory chain complex / Complex I"	7707	protein-coding gene	gene with protein product	"complex I 75kDa subunit", "NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial"	157655	"NADH dehydrogenase (ubiquinone) Fe-S protein 1 (75kD) (NADH-coenzyme Q reductase)"			1935949	Standard	NM_005006		Approved	CI-75k	uc010ziq.2	P28331	OTTHUMG00000132892	ENST00000233190.6:c.1605A>G	2.37:g.206994915T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DIN9|B4DJA0|B4DPG1|B4DUC1|E7ENF3|Q53TR8|Q8N1C4|Q8TCC9	Silent	SNP	ENST00000233190.6	37	CCDS2366.1																																																																																				0.433	NDUFS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256391.4	NM_005006		C	206994915	T	C	206994915	2	2	669	1	0	0	0	0	0	0	0	1	10298	1606	56	3		3	NDUFS1	2	206994915	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	2840363	206994915	36204458	22	42824										
STK16	8576	bcgsc.ca	37	chr2	220111919	220111919	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aaatcctttggctgctgctgGggatctgcagaggccttgag	14	9	1	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr2:220111919G>T	ENST00000409638.3	+	4	563	c.391G>T	c.(391-393)Ggg>Tgg	p.G131W	STK16_ENST00000409743.1_Missense_Mutation_p.G131W|GLB1L_ENST00000295759.7_5'Flank|GLB1L_ENST00000392089.2_5'Flank|STK16_ENST00000396738.2_Missense_Mutation_p.G131W|STK16_ENST00000409260.1_Missense_Mutation_p.G176W|STK16_ENST00000486813.1_3'UTR|STK16_ENST00000409516.3_Intron|GLB1L_ENST00000356283.3_5'Flank	NM_001008910.2	NP_001008910.1	O75716	STK16_HUMAN	serine/threonine kinase 16	131	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cellular response to transforming growth factor beta stimulus (GO:0071560)|protein autophosphorylation (GO:0046777)	Golgi-associated vesicle (GO:0005798)|membrane (GO:0016020)	ATP binding (GO:0005524)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein serine/threonine kinase activity (GO:0004674)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			skin(1)	1		Renal(207;0.0474)		Epithelial(149;1.2e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCTGCTGCTGGGGATCTGCAG	0.552																																					Pancreas(34;887 922 17165 36961 39622)											0													74	75	75					2																	220111919		1941	4146	6087	SO:0001583	missense	8576			AF060798	CCDS42822.1	2q35	2010-04-16			ENSG00000115661	ENSG00000115661			11394	protein-coding gene	gene with protein product		604719				9712705	Standard	NM_001008910		Approved	PKL12, MPSK	uc002vko.2	O75716	OTTHUMG00000154520	ENST00000409638.3:c.391G>T	2.37:g.220111919G>T	ENSP00000386928:p.Gly131Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9H9|Q5U0F8|Q96KI2|Q9BUH4|Q9UEN3|Q9UP78	Missense_Mutation	SNP	ENST00000409638.3	37	CCDS42822.1	.	.	.	.	.	.	.	.	.	.	G	19.25	3.791769	0.70452	.	.	ENSG00000115661	ENST00000409638;ENST00000396738;ENST00000409260;ENST00000409743	T;T;T;T	0.75050	1.97;1.97;-0.9;1.97	5.69	4.82	0.62117	Serine/threonine-protein kinase-like domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	D	0.88373	0.6419	M	0.90595	3.13	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	0.997;0.996;0.998;1.0	D	0.90803	0.4695	10	0.87932	D	0	-5.5489	14.9395	0.70983	0.0688:0.0:0.9312:0.0	.	131;131;176;131	B4DXY6;B8ZZI5;B8ZZN3;O75716	.;.;.;STK16_HUMAN	W	131;131;176;131	ENSP00000386928:G131W;ENSP00000379964:G131W;ENSP00000387156:G176W;ENSP00000386553:G131W	ENSP00000379964:G131W	G	+	1	0	STK16	219820163	1.000000	0.71417	0.998000	0.56505	0.955000	0.61496	7.688000	0.84153	1.401000	0.46761	0.655000	0.94253	GGG		0.552	STK16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335679.1			T	220111919	G	T	220111919	3	4	669	1	0	0	0	0	1	0	0	0	15301	1232	43	4	401	4	STK16	2	220111919	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	13117004	220111919	23087454	23	42825										
UGT1A9	54600	mdanderson.org	37	chr2	234581157	234581157	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctctttcctatgtccccagaAttctcttagggttctcagat	6	12	3	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr2:234581157A>C	ENST00000354728.4	+	1	659	c.577A>C	c.(577-579)Att>Ctt	p.I193L	UGT1A1_ENST00000373450.4_Intron|UGT1A1_ENST00000609637.1_Missense_Mutation_p.I193L|UGT1A10_ENST00000344644.5_Intron|UGT1A10_ENST00000373445.1_Intron			O60656	UD19_HUMAN	UDP glucuronosyltransferase 1 family, polypeptide A9	193					cellular glucuronidation (GO:0052695)|cellular lipid metabolic process (GO:0044255)|drug metabolic process (GO:0017144)|flavone metabolic process (GO:0051552)|flavonoid glucuronidation (GO:0052696)|metabolic process (GO:0008152)|negative regulation of catalytic activity (GO:0043086)|negative regulation of cellular glucuronidation (GO:2001030)|negative regulation of fatty acid metabolic process (GO:0045922)|retinoic acid metabolic process (GO:0042573)|small molecule metabolic process (GO:0044281)|xenobiotic glucuronidation (GO:0052697)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	enzyme binding (GO:0019899)|enzyme inhibitor activity (GO:0004857)|glucuronosyltransferase activity (GO:0015020)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|retinoic acid binding (GO:0001972)			breast(2)|endometrium(3)|kidney(3)|large_intestine(9)|lung(14)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)	37		Breast(86;0.000766)|all_lung(227;0.00269)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0331)|Lung NSC(271;0.0459)|Lung SC(224;0.128)		Epithelial(121;1.26e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000436)|Lung(119;0.00347)|LUSC - Lung squamous cell carcinoma(224;0.00757)	Acetaminophen(DB00316)|Buprenorphine(DB00921)|Canagliflozin(DB08907)|Dabigatran etexilate(DB06695)|Dapagliflozin(DB06292)|Entacapone(DB00494)|Etodolac(DB00749)|Ezogabine(DB04953)|Flurbiprofen(DB00712)|Haloperidol(DB00502)|Human Serum Albumin(DB00062)|Hydromorphone(DB00327)|Ibuprofen(DB01050)|Indomethacin(DB00328)|Irinotecan(DB00762)|Ketobemidone(DB06738)|Lumiracoxib(DB01283)|Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|Nateglinide(DB00731)|Niflumic Acid(DB04552)|Oxazepam(DB00842)|Propofol(DB00818)|Regorafenib(DB08896)|Sorafenib(DB00398)|Sulfamethoxazole(DB01015)|Tapentadol(DB06204)|Valproic Acid(DB00313)|Zileuton(DB00744)	TGTCCCCAGAATTCTCTTAGG	0.468																																																0													156	165	162					2																	234581157		2203	4297	6500	SO:0001583	missense	54600			AF056188	CCDS2505.1	2q37	2010-03-05	2005-07-20		ENSG00000241119	ENSG00000241119		"UDP glucuronosyltransferases"	12541	other	complex locus constituent		606434	"UDP glycosyltransferase 1 family, polypeptide A9"			9295054, 1910331	Standard	NM_021027		Approved	HLUGP4, LUGP4, UGT1AI		O60656	OTTHUMG00000059124	ENST00000354728.4:c.577A>C	2.37:g.234581157A>C	ENSP00000346768:p.Ile193Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B8K285|P36509|Q9HAX0	Missense_Mutation	SNP	ENST00000354728.4	37	CCDS2505.1	.	.	.	.	.	.	.	.	.	.	A	0.010	-1.771680	0.00645	.	.	ENSG00000241119	ENST00000354728	T	0.59224	0.28	3.41	-6.83	0.01693	.	.	.	.	.	T	0.22936	0.0554	N	0.02960	-0.455	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.001	T	0.13629	-1.0502	9	0.13470	T	0.59	.	5.5972	0.17333	0.4182:0.4051:0.0932:0.0834	.	193;193	Q5DSZ5;O60656	.;UD19_HUMAN	L	193	ENSP00000346768:I193L	ENSP00000346768:I193L	I	+	1	0	UGT1A9	234245896	0.000000	0.05858	0.000000	0.03702	0.073000	0.16967	-10.910000	0.00005	-3.181000	0.00222	-0.690000	0.03725	ATT		0.468	UGT1A9-001	KNOWN	basic|appris_principal|readthrough_transcript|CCDS	protein_coding	protein_coding	OTTHUMT00000130995.1	NM_021027		C	234581157	A	C	234581157	3	2	669	1	0	0	0	0	1	0	0	0	16964	101	4	5	579	5	UGT1A9	2	234581157	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	14469238	234581157	8618216	24	42826										
SCN11A	11280	mdanderson.org	37	chr3	38912235	38912235	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	catccagcccttaaatgttgCctgcaacaaaagcagaaaaa	6	11	0	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr3:38912235C>T	ENST00000302328.3	-	22	3958	c.3760G>A	c.(3760-3762)Gca>Aca	p.A1254T	SCN11A_ENST00000444237.2_Splice_Site_p.A1254T|SCN11A_ENST00000450244.1_Splice_Site_p.A1254T|SCN11A_ENST00000456224.3_Splice_Site_p.A1216T	NM_014139.2	NP_054858.2	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha subunit	1254					cell death (GO:0008219)|membrane depolarization during action potential (GO:0086010)|neuronal action potential (GO:0019228)|regulation of sensory perception of pain (GO:0051930)|response to drug (GO:0042493)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	C-fiber (GO:0044299)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)	p.A1254S(1)		NS(3)|biliary_tract(1)|breast(4)|cervix(2)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(29)|lung(29)|ovary(3)|pancreas(2)|prostate(12)|skin(14)|upper_aerodigestive_tract(5)|urinary_tract(3)	119				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)|Valproic Acid(DB00313)|Zonisamide(DB00909)	TTAAATGTTGCCTGCAACAAA	0.418																																																1	Substitution - Missense(1)	lung(1)											92	83	86					3																	38912235		2203	4300	6503	SO:0001630	splice_region_variant	11280			AF126739	CCDS33737.1	3p22.2	2012-02-26	2007-01-23		ENSG00000168356	ENSG00000168356		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10583	protein-coding gene	gene with protein product		604385	"sodium channel, voltage-gated, type XI, alpha polypeptide", "sodium channel, voltage-gated, type XII, alpha"	SCN12A		10444332, 16382098	Standard	NM_014139		Approved	Nav1.9, NaN, SNS-2	uc021wvy.1	Q9UI33	OTTHUMG00000048246	ENST00000302328.3:c.3760-1G>A	3.37:g.38912235C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NN05|C9JD48|C9JR31|Q68K15|Q8NDX3|Q9UHE0|Q9UHM0	Missense_Mutation	SNP	ENST00000302328.3	37	CCDS33737.1	.	.	.	.	.	.	.	.	.	.	C	30	5.056134	0.93793	.	.	ENSG00000168356	ENST00000302328;ENST00000450244;ENST00000456224;ENST00000444237	D;D;D;D	0.98602	-5.02;-5.02;-5.02;-5.02	4.55	4.55	0.56014	Ion transport (1);	0.000000	0.85682	D	0.000000	D	0.98927	0.9636	M	0.83312	2.635	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.99835	1.1057	10	0.87932	D	0	.	17.2484	0.87034	0.0:1.0:0.0:0.0	.	1254	Q9UI33	SCNBA_HUMAN	T	1254;1254;1216;1254	ENSP00000307599:A1254T;ENSP00000400945:A1254T;ENSP00000416757:A1216T;ENSP00000408028:A1254T	ENSP00000307599:A1254T	A	-	1	0	SCN11A	38887239	1.000000	0.71417	1.000000	0.80357	0.925000	0.55904	5.915000	0.69973	2.219000	0.72066	0.491000	0.48974	GCA		0.418	SCN11A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109746.4	NM_014139	Missense_Mutation	T	38912235	C	T	38912235	5	4	669	1	0	0	0	0	0	0	1	0	13926	753	26	2	1635	2	SCN11A	3	38912235	Splice_Site	SNP	C	TCGA-KN-8433-01A-11D-2310-10		38912235	159110195	25	42827										
ZNF445	353274	mdanderson.org	37	chr3	44492834	44492834	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ccagccaggaagtcacgtgcTtctatttcatagggaggctc	11	11	3	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr3:44492834T>C	ENST00000396077.2	-	4	917	c.570A>G	c.(568-570)gaA>gaG	p.E190E	ZNF445_ENST00000425708.2_Silent_p.E190E	NM_181489.5	NP_852466.1	P59923	ZN445_HUMAN	zinc finger protein 445	190					transcription, DNA-templated (GO:0006351)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(5)|kidney(3)|large_intestine(8)|lung(8)|ovary(2)|pancreas(1)|skin(3)	31				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		AGTCACGTGCTTCTATTTCAT	0.552																																																0													131	134	133					3																	44492834		2203	4300	6503	SO:0001819	synonymous_variant	353274			AY262260	CCDS2713.1	3p21.32	2013-01-09	2003-10-07		ENSG00000185219	ENSG00000185219		"Zinc fingers, C2H2-type", "-", "-", "-"	21018	protein-coding gene	gene with protein product			"zinc finger protein 168"	ZNF168		7814019	Standard	NM_181489		Approved	ZKSCAN15, ZSCAN47	uc003cnf.2	P59923	OTTHUMG00000133042	ENST00000396077.2:c.570A>G	3.37:g.44492834T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q3MJD1	Silent	SNP	ENST00000396077.2	37	CCDS2713.1																																																																																				0.552	ZNF445-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256647.2	NM_181489		C	44492834	T	C	44492834	2	2	669	1	0	0	0	0	0	0	0	1	17930	1606	56	3		3	ZNF445	3	44492834	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	5580599	44492834	153529596	26	42828										
NBEAL2	23218	mdanderson.org	37	chr3	47042507	47042507	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	acagcaaacctctgaggaagAgttgtgcaatctgctcacca	9	11	3	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr3:47042507A>G	ENST00000450053.3	+	28	4501	c.4322A>G	c.(4321-4323)gAg>gGg	p.E1441G	NBEAL2_ENST00000383740.2_5'UTR|NBEAL2_ENST00000292309.5_Missense_Mutation_p.E1257G	NM_015175.2	NP_055990.1	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	1441					blood coagulation (GO:0007596)|megakaryocyte development (GO:0035855)|platelet alpha granule organization (GO:0070889)|platelet formation (GO:0030220)	endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)				NS(1)|breast(1)|central_nervous_system(3)|cervix(2)|endometrium(8)|kidney(5)|large_intestine(9)|lung(9)|ovary(4)|pancreas(1)|prostate(3)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	51		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)		TCTGAGGAAGAGTTGTGCAAT	0.627																																																0													76	89	85					3																	47042507		2118	4226	6344	SO:0001583	missense	23218			AB011112	CCDS46817.1	3p21.31	2014-09-17			ENSG00000160796	ENSG00000160796		"WD repeat domain containing"	31928	protein-coding gene	gene with protein product		614169					Standard	NM_015175		Approved	KIAA0540	uc003cqp.3	Q6ZNJ1	OTTHUMG00000156497	ENST00000450053.3:c.4322A>G	3.37:g.47042507A>G	ENSP00000415034:p.Glu1441Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O60288|Q6P994|Q6UX91|Q8NAC9	Missense_Mutation	SNP	ENST00000450053.3	37	CCDS46817.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	25.7|25.7	4.660380|4.660380	0.88154|0.88154	.|.	.|.	ENSG00000160796|ENSG00000160796	ENST00000292309;ENST00000450053|ENST00000416683	T;T|.	0.60672|.	0.22;0.17|.	5.44|5.44	5.44|5.44	0.79542|0.79542	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.72415|0.72415	0.3457|0.3457	M|M	0.69823|0.69823	2.125|2.125	0.80722|0.80722	D|D	1|1	D|.	0.76494|.	0.999|.	D|.	0.70935|.	0.971|.	T|T	0.72593|0.72593	-0.4246|-0.4246	10|5	0.87932|.	D|.	0|.	.|.	13.502|13.502	0.61462|0.61462	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	1441|.	Q6ZNJ1|.	NBEL2_HUMAN|.	G|G	1257;1441|729	ENSP00000292309:E1257G;ENSP00000415034:E1441G|.	ENSP00000292309:E1257G|.	E|S	+|+	2|1	0|0	NBEAL2|NBEAL2	47017511|47017511	1.000000|1.000000	0.71417|0.71417	0.993000|0.993000	0.49108|0.49108	0.980000|0.980000	0.70556|0.70556	9.064000|9.064000	0.93933|0.93933	2.288000|2.288000	0.76882|0.76882	0.533000|0.533000	0.62120|0.62120	GAG|AGT		0.627	NBEAL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344363.3	XM_291064		G	47042507	A	G	47042507	3	3	669	1	0	0	0	0	1	0	0	0	10196	304	11	3	4432	3	NBEAL2	3	47042507	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	2549673	47042507	150979923	27	42829										
COL7A1	1294	hgsc.bcm.edu;ucsc.edu	37	chr3	48602898	48602898	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	acagcatggagctgggagccGgcagtgtctgcagcataact	14	10	1	0	rs116591500	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr3:48602898G>A	ENST00000328333.8	-	115	8579	c.8472C>T	c.(8470-8472)gcC>gcT	p.A2824A	UCN2_ENST00000273610.3_5'Flank|COL7A1_ENST00000470076.1_5'Flank|COL7A1_ENST00000454817.1_Silent_p.A2792A	NM_000094.3	NP_000085.1	Q02388	CO7A1_HUMAN	collagen, type VII, alpha 1	2824	Nonhelical region (NC2).				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|endodermal cell differentiation (GO:0035987)|epidermis development (GO:0008544)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	basement membrane (GO:0005604)|collagen type VII trimer (GO:0005590)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular space (GO:0005615)	serine-type endopeptidase inhibitor activity (GO:0004867)			NS(3)|breast(8)|central_nervous_system(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(18)|lung(57)|ovary(7)|prostate(5)|skin(9)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(5)	137				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GCTGGGAGCCGGCAGTGTCTG	0.652													G|||	13	0.00259585	0.0098	0.0	5008	,	,		17924	0.0		0.0	False		,,,				2504	0.0															0								G		35,4371	38.4+/-70.7	0,35,2168	32	37	35		8472	-6.8	0	3	dbSNP_132	35	0,8600		0,0,4300	no	coding-synonymous	COL7A1	NM_000094.3		0,35,6468	AA,AG,GG		0.0,0.7944,0.2691		2824/2945	48602898	35,12971	2203	4300	6503	SO:0001819	synonymous_variant	1294			L02870	CCDS2773.1	3p21.1	2014-09-17	2008-08-01		ENSG00000114270	ENSG00000114270		"Collagens", "Fibronectin type III domain containing"	2214	protein-coding gene	gene with protein product	"collagen VII, alpha-1 polypeptide", "LC collagen"	120120	"epidermolysis bullosa, dystrophic, dominant and recessive"	EBDCT, EBD1, EBR1		1871109	Standard	NM_000094		Approved		uc003ctz.2	Q02388	OTTHUMG00000133541	ENST00000328333.8:c.8472C>T	3.37:g.48602898G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q14054|Q16507	Silent	SNP	ENST00000328333.8	37	CCDS2773.1																																																																																				0.652	COL7A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257519.1	NM_000094		A	48602898	G	A	48602898	2	1	669	1	0	0	0	0	0	0	0	1	3706	1103	39	1		1	COL7A1	3	48602898	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	1560391	48602898	149419532	28	42830										
CHDH	55349	mdanderson.org	37	chr3	53856589	53856589	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctcaaatagcaccctgctcaCaagcgtctcggcctcggcct	8	17	3	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr3:53856589C>T	ENST00000315251.6	-	4	1221	c.784G>A	c.(784-786)Gtg>Atg	p.V262M		NM_018397.4	NP_060867.2	Q8NE62	CHDH_HUMAN	choline dehydrogenase	262					glycine betaine biosynthetic process from choline (GO:0019285)	mitochondrial inner membrane (GO:0005743)	choline dehydrogenase activity (GO:0008812)|flavin adenine dinucleotide binding (GO:0050660)			NS(1)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(4)|ovary(2)|prostate(1)	17		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)	ACCCTGCTCACAAGCGTCTCG	0.632																																																0													113	91	99					3																	53856589		2203	4300	6503	SO:0001583	missense	55349			AJ272267	CCDS2873.1	3p21	2004-11-24			ENSG00000016391	ENSG00000016391	1.1.99.1		24288	protein-coding gene	gene with protein product							Standard	NM_018397		Approved		uc003dgz.3	Q8NE62	OTTHUMG00000158281	ENST00000315251.6:c.784G>A	3.37:g.53856589C>T	ENSP00000319851:p.Val262Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NY17	Missense_Mutation	SNP	ENST00000315251.6	37	CCDS2873.1	.	.	.	.	.	.	.	.	.	.	C	18.46	3.629633	0.67015	.	.	ENSG00000016391	ENST00000315251	T	0.78126	-1.15	5.65	5.65	0.86999	Glucose-methanol-choline oxidoreductase, N-terminal (1);	0.271361	0.37348	N	0.002126	D	0.90967	0.7160	M	0.93978	3.48	0.43852	D	0.996441	D	0.53619	0.961	P	0.62813	0.907	D	0.92356	0.5893	10	0.87932	D	0	-27.6343	19.5069	0.95121	0.0:1.0:0.0:0.0	.	262	Q8NE62	CHDH_HUMAN	M	262	ENSP00000319851:V262M	ENSP00000319851:V262M	V	-	1	0	CHDH	53831629	0.979000	0.34478	0.126000	0.21872	0.538000	0.34931	2.244000	0.43124	2.941000	0.99782	0.655000	0.94253	GTG		0.632	CHDH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350567.2	NM_018397		T	53856589	C	T	53856589	3	4	669	1	0	0	0	0	1	0	0	0	3335	478	17	2	1024	2	CHDH	3	53856589	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	5253691	53856589	144165841	29	42831										
EPHA3	2042	mdanderson.org	37	chr3	89498483	89498483	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttgttctctgggaggtgatgTcttatggagagagaccatac	13	6	2	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr3:89498483T>C	ENST00000336596.2	+	14	2680	c.2455T>C	c.(2455-2457)Tct>Cct	p.S819P	EPHA3_ENST00000494014.1_Missense_Mutation_p.S819P	NM_005233.5	NP_005224.2	P29320	EPHA3_HUMAN	EPH receptor A3	819	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cell adhesion (GO:0007155)|cell migration (GO:0016477)|cellular response to retinoic acid (GO:0071300)|ephrin receptor signaling pathway (GO:0048013)|fasciculation of motor neuron axon (GO:0097156)|fasciculation of sensory neuron axon (GO:0097155)|positive regulation of neuron projection development (GO:0010976)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of epithelial to mesenchymal transition (GO:0010717)|regulation of focal adhesion assembly (GO:0051893)|regulation of microtubule cytoskeleton organization (GO:0070507)|regulation of Rho GTPase activity (GO:0032319)	early endosome (GO:0005769)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)	ATP binding (GO:0005524)|GPI-linked ephrin receptor activity (GO:0005004)			NS(1)|breast(4)|central_nervous_system(4)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(26)|liver(3)|lung(67)|ovary(7)|pancreas(1)|prostate(4)|skin(8)|stomach(1)|upper_aerodigestive_tract(5)	139	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)		GGAGGTGATGTCTTATGGAGA	0.458										TSP Lung(6;0.00050)																																						0													267	243	251					3																	89498483		2203	4300	6503	SO:0001583	missense	2042			M83941	CCDS2922.1, CCDS46875.1	3p11.2	2013-02-11	2004-10-28		ENSG00000044524	ENSG00000044524	2.7.10.1	"EPH receptors", "Sterile alpha motif (SAM) domain containing", "Fibronectin type III domain containing"	3387	protein-coding gene	gene with protein product		179611	"EphA3"	ETK, ETK1, TYRO4		1737782, 1311845	Standard	NM_005233		Approved	HEK, HEK4	uc003dqy.3	P29320	OTTHUMG00000159040	ENST00000336596.2:c.2455T>C	3.37:g.89498483T>C	ENSP00000337451:p.Ser819Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H2V3|Q9H2V4	Missense_Mutation	SNP	ENST00000336596.2	37	CCDS2922.1	.	.	.	.	.	.	.	.	.	.	T	25.7	4.664232	0.88251	.	.	ENSG00000044524	ENST00000336596;ENST00000494014	T;T	0.64085	-0.08;-0.08	5.34	5.34	0.76211	Serine-threonine/tyrosine-protein kinase (2);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.81564	0.4849	M	0.87328	2.875	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	D	0.84556	0.0647	9	.	.	.	.	15.3454	0.74334	0.0:0.0:0.0:1.0	.	819	P29320	EPHA3_HUMAN	P	819	ENSP00000337451:S819P;ENSP00000419190:S819P	.	S	+	1	0	EPHA3	89581173	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.993000	0.88291	2.030000	0.59900	0.533000	0.62120	TCT		0.458	EPHA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352995.1	NM_005233		C	89498483	T	C	89498483	3	2	669	1	0	0	0	0	1	0	0	0	5170	1667	58	3	2535	3	EPHA3	3	89498483	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	35641894	89498483	108523947	30	42832										
OR5H6	79295	mdanderson.org	37	chr3	97983656	97983656	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cttcatgctttaatccatgaAgctttttcattcagattaac	4	9	3	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr3:97983656A>G	ENST00000383696.2	+	1	569	c.528A>G	c.(526-528)gaA>gaG	p.E176E	RP11-325B23.2_ENST00000508616.1_lincRNA	NM_001005479.1	NP_001005479.1	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H, member 6 (gene/pseudogene)	176						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			cervix(2)|endometrium(1)|large_intestine(4)|lung(20)|ovary(1)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	34						TAATCCATGAAGCTTTTTCAT	0.338																																																0													84	85	85					3																	97983656		2203	4297	6500	SO:0001819	synonymous_variant	79295			BK004374	CCDS33800.1	3q12.1	2013-10-10	2013-10-10		ENSG00000230301	ENSG00000230301		"GPCR / Class A : Olfactory receptors"	14767	protein-coding gene	gene with protein product			"olfactory receptor, family 5, subfamily H, member 6"				Standard	NM_001005479		Approved		uc003dsi.1	Q8NGV6	OTTHUMG00000160078	ENST00000383696.2:c.528A>G	3.37:g.97983656A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF88	Silent	SNP	ENST00000383696.2	37	CCDS33800.1																																																																																				0.338	OR5H6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359111.2			G	97983656	A	G	97983656	2	3	669	1	0	0	0	0	0	0	0	1	11170	69	3	3		3	OR5H6	3	97983656	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	8485173	97983656	100038774	31	42833										
NIT2	56954	mdanderson.org	37	chr3	100073671	100073671	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	caatcgtgtattcagacataGgtaagattttcctgggcatg	10	7	1	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr3:100073671G>A	ENST00000394140.4	+	9	830	c.739G>A	c.(739-741)Gac>Aac	p.D247N		NM_020202.4	NP_064587.1	Q9NQR4	NIT2_HUMAN	nitrilase family, member 2	247	CN hydrolase. {ECO:0000255|PROSITE- ProRule:PRU00054}.				asparagine metabolic process (GO:0006528)|glutamine metabolic process (GO:0006541)|oxaloacetate metabolic process (GO:0006107)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	omega-amidase activity (GO:0050152)			breast(1)|endometrium(1)|kidney(4)|large_intestine(3)|lung(4)|ovary(1)|prostate(2)|skin(1)	17						TTCAGACATAGGTAAGATTTT	0.483																																																0													160	151	154					3																	100073671		2203	4300	6503	SO:0001630	splice_region_variant	56954			AF284574	CCDS33806.1	3q12.3	2004-07-12			ENSG00000114021	ENSG00000114021			29878	protein-coding gene	gene with protein product						10959838	Standard	NM_020202		Approved		uc003dtv.3	Q9NQR4	OTTHUMG00000159066	ENST00000394140.4:c.739+1G>A	3.37:g.100073671G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9A3|D3DN47|Q8WUF0	Missense_Mutation	SNP	ENST00000394140.4	37	CCDS33806.1	.	.	.	.	.	.	.	.	.	.	G	21.1	4.102526	0.76983	.	.	ENSG00000114021	ENST00000394140	T	0.76316	-1.01	5.63	5.63	0.86233	Nitrilase/cyanide hydratase and apolipoprotein N-acyltransferase (3);	0.000000	0.85682	D	0.000000	T	0.74612	0.3739	L	0.58810	1.83	0.80722	D	1	P	0.39903	0.694	B	0.34452	0.183	T	0.75196	-0.3403	10	0.38643	T	0.18	-17.7733	19.2824	0.94057	0.0:0.0:1.0:0.0	.	247	Q9NQR4	NIT2_HUMAN	N	247	ENSP00000377696:D247N	ENSP00000377696:D247N	D	+	1	0	NIT2	101556361	1.000000	0.71417	1.000000	0.80357	0.890000	0.51754	8.499000	0.90494	2.664000	0.90586	0.591000	0.81541	GAC		0.483	NIT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353142.2	NM_020202	Missense_Mutation	A	100073671	G	A	100073671	5	1	669	1	0	0	0	0	0	0	1	0	10441	1014	35	2	773	2	NIT2	3	100073671	Splice_Site	SNP	G	TCGA-KN-8433-01A-11D-2310-10	2090015	100073671	97948759	32	42834										
HCLS1	3059	hgsc.bcm.edu	37	chr3	121351315	121351315	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tcaggctcgggctcaggctcGggctcaggctcaggctctgc	15	14	5	0	rs150627065|rs372720825|rs80289672	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr3:121351315G>A	ENST00000314583.3	-	12	1195	c.1104C>T	c.(1102-1104)ccC>ccT	p.P368P	HCLS1_ENST00000473883.1_5'UTR|HCLS1_ENST00000428394.2_Silent_p.P331P	NM_005335.4	NP_005326	P14317	HCLS1_HUMAN	hematopoietic cell-specific Lyn substrate 1	368					actin filament polymerization (GO:0030041)|cellular response to cytokine stimulus (GO:0071345)|erythrocyte differentiation (GO:0030218)|intracellular signal transduction (GO:0035556)|negative regulation of leukocyte apoptotic process (GO:2000107)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of actin cytoskeleton reorganization (GO:2000251)|positive regulation of cell proliferation (GO:0008284)|positive regulation of granulocyte differentiation (GO:0030854)|positive regulation of macrophage differentiation (GO:0045651)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of transcription factor import into nucleus (GO:0042993)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tyrosine phosphorylation of STAT protein (GO:0042531)|regulation of actin filament polymerization (GO:0030833)|regulation of transcription, DNA-templated (GO:0006355)|response to hormone (GO:0009725)	cytoplasm (GO:0005737)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	protein kinase binding (GO:0019901)|RNA polymerase II transcription factor binding (GO:0001085)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(13)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	35				GBM - Glioblastoma multiforme(114;0.0912)		gctcaggctcgggctcaggct	0.607																																																0			GRCh37	CI045897	HCLS1	I	rs80289672						145	140	142					3																	121351315		2203	4300	6503	SO:0001819	synonymous_variant	3059				CCDS3003.1	3q13	2007-08-03			ENSG00000180353	ENSG00000180353			4844	protein-coding gene	gene with protein product	"cortactin-like"	601306				8978766, 15710041	Standard	NM_001292041		Approved	HS1, CTTNL	uc003eeh.4	P14317	OTTHUMG00000159409	ENST00000314583.3:c.1104C>T	3.37:g.121351315G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DQ69|Q53Y93|Q6IBK9|Q9UDK0	Silent	SNP	ENST00000314583.3	37	CCDS3003.1																																																																																				0.607	HCLS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355144.1	NM_005335		A	121351315	G	A	121351315	2	1	669	1	0	0	0	0	0	0	0	1	7002	1103	39	1		1	HCLS1	3	121351315	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	21277644	121351315	76671115	33	42835										
IGSF10	285313	mdanderson.org	37	chr3	151165120	151165120	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gaatgttgattggttgtgccTtgtatttggcttgacatggt	13	4	0	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr3:151165120T>C	ENST00000282466.3	-	4	2648	c.2649A>G	c.(2647-2649)caA>caG	p.Q883Q		NM_001178145.1|NM_001178146.1|NM_178822.4	NP_001171616.1|NP_001171617.1|NP_849144.2	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10	883					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)	extracellular region (GO:0005576)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(24)|liver(4)|lung(43)|ovary(8)|prostate(4)|skin(9)|stomach(1)|urinary_tract(3)	116			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TGGTTGTGCCTTGTATTTGGC	0.423																																																0													357	356	356					3																	151165120		2203	4300	6503	SO:0001819	synonymous_variant	285313			AY273815	CCDS3160.1	3q25.1	2013-01-11			ENSG00000152580	ENSG00000152580		"Immunoglobulin superfamily / I-set domain containing"	26384	protein-coding gene	gene with protein product						12477932	Standard	NM_178822		Approved	FLJ25972, CMF608	uc011bod.2	Q6WRI0	OTTHUMG00000159856	ENST00000282466.3:c.2649A>G	3.37:g.151165120T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q86YJ9|Q8N772|Q8NA84	Silent	SNP	ENST00000282466.3	37	CCDS3160.1																																																																																				0.423	IGSF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357782.1	NM_178822		C	151165120	T	C	151165120	2	2	669	1	0	0	0	0	0	0	0	1	7604	1606	56	3		3	IGSF10	3	151165120	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	29813805	151165120	46857310	34	42836										
NMD3	51068	mdanderson.org	37	chr3	160945096	160945096	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aatccagggaacttcttgctTtgtgcttgaaaaaaatcaaa	7	7	2	1	rs138466882		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr3:160945096T>C	ENST00000460469.1	+	3	696	c.241T>C	c.(241-243)Ttg>Ctg	p.L81L	NMD3_ENST00000351193.2_Silent_p.L81L|NMD3_ENST00000478160.1_3'UTR|NMD3_ENST00000472947.1_Silent_p.L81L			Q96D46	NMD3_HUMAN	NMD3 ribosome export adaptor	81					protein transport (GO:0015031)|ribosomal large subunit export from nucleus (GO:0000055)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)	poly(A) RNA binding (GO:0044822)|protein binding, bridging (GO:0030674)|ribosomal large subunit binding (GO:0043023)			cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(7)|lung(10)|ovary(1)|skin(1)|urinary_tract(2)	25			Lung(72;0.00111)|LUSC - Lung squamous cell carcinoma(72;0.00156)			ACTTCTTGCTTTGTGCTTGAA	0.353																																																0								T		1,4405	2.1+/-5.4	0,1,2202	121	117	118		241	5.6	1	3	dbSNP_134	118	0,8600		0,0,4300	no	coding-synonymous	NMD3	NM_015938.3		0,1,6502	CC,CT,TT		0.0,0.0227,0.0077		81/504	160945096	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	51068			BC013317	CCDS3194.1	3q26.1	2013-08-06	2013-08-06		ENSG00000169251	ENSG00000169251			24250	protein-coding gene	gene with protein product		611021	"NMD3 homolog (S. cerevisiae)"			10810093, 23782956, 12773398	Standard	NM_015938		Approved	CGI-07	uc003feb.1	Q96D46	OTTHUMG00000159063	ENST00000460469.1:c.241T>C	3.37:g.160945096T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DNM7|Q9Y2Z6	Silent	SNP	ENST00000460469.1	37	CCDS3194.1																																																																																				0.353	NMD3-005	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353114.1	NM_015938		C	160945096	T	C	160945096	2	2	669	1	0	0	0	0	0	0	0	1	10495	1838	64	3		3	NMD3	3	160945096	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	9779976	160945096	37077334	35	42837										
WDR49	151790	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	167245753	167245753	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	catgaggttggaatgatcttAtcagagttggggccttggtg	15	5	2	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr3:167245753A>T	ENST00000308378.3	-	11	1708	c.1403T>A	c.(1402-1404)aTa>aAa	p.I468K	WDR49_ENST00000479765.1_Intron|WDR49_ENST00000476376.1_Missense_Mutation_p.I293K|WDR49_ENST00000453925.2_Intron	NM_178824.3	NP_849146.1	Q8IV35	WDR49_HUMAN	WD repeat domain 49	468										breast(1)|endometrium(1)|kidney(1)|large_intestine(8)|lung(28)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	50						GAATGATCTTATCAGAGTTGG	0.398																																																0													164	153	157					3																	167245753		2203	4300	6503	SO:0001583	missense	151790			AK097556	CCDS3201.1	3q26.1	2013-01-11			ENSG00000174776	ENSG00000174776		"WD repeat domain containing"	26587	protein-coding gene	gene with protein product						12477932	Standard	NM_178824		Approved	FLJ33620	uc003fev.1	Q8IV35	OTTHUMG00000158290	ENST00000308378.3:c.1403T>A	3.37:g.167245753A>T	ENSP00000311343:p.Ile468Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N297	Missense_Mutation	SNP	ENST00000308378.3	37	CCDS3201.1	.	.	.	.	.	.	.	.	.	.	A	11.91	1.779596	0.31502	.	.	ENSG00000174776	ENST00000308378;ENST00000476376	T;T	0.37915	1.43;1.17	5.47	5.47	0.80525	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);	0.916062	0.09445	N	0.801255	T	0.34571	0.0902	L	0.47716	1.5	0.58432	D	0.999999	B	0.30068	0.267	B	0.24701	0.055	T	0.05599	-1.0875	10	0.39692	T	0.17	.	13.08	0.59109	1.0:0.0:0.0:0.0	.	468	Q8IV35	WDR49_HUMAN	K	468;293	ENSP00000311343:I468K;ENSP00000420508:I293K	ENSP00000311343:I468K	I	-	2	0	WDR49	168728447	0.941000	0.31946	0.005000	0.12908	0.018000	0.09664	4.671000	0.61590	2.083000	0.62718	0.445000	0.29226	ATA		0.398	WDR49-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000350592.3	NM_178824		T	167245753	A	T	167245753	3	4	669	1	0	0	0	0	1	0	0	0	17314	449	16	5	710	5	WDR49	3	167245753	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	6300657	167245753	30776677	36	42838										
ALG3	10195	broad.mit.edu;mdanderson.org	37	chr3	183960376	183960376	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ccagagctgcagcaggatgaCggcatggcatatgtgcaggg	16	9	0	2	rs375976807		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr3:183960376C>T	ENST00000397676.3	-	9	1273	c.1243G>A	c.(1243-1245)Gtc>Atc	p.V415I	ALG3_ENST00000445626.2_Missense_Mutation_p.V367I|EIF2B5_ENST00000444495.1_Intron|ALG3_ENST00000463495.1_5'Flank|MIR1224_ENST00000408193.1_RNA|ALG3_ENST00000418734.2_Missense_Mutation_p.V359I|ALG3_ENST00000455059.1_Missense_Mutation_p.V375I	NM_005787.5	NP_005778.1	Q92685	ALG3_HUMAN	ALG3, alpha-1,3- mannosyltransferase	415					cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|mannosylation (GO:0097502)|post-translational protein modification (GO:0043687)|protein glycosylation (GO:0006486)|protein N-linked glycosylation via asparagine (GO:0018279)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	alpha-1,3-mannosyltransferase activity (GO:0000033)|dol-P-Man:Man(5)GlcNAc(2)-PP-Dol alpha-1,3-mannosyltransferase activity (GO:0052925)			kidney(1)|large_intestine(1)|lung(6)|upper_aerodigestive_tract(1)	9	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AGCAGGATGACGGCATGGCAT	0.592																																																0								C	ILE/VAL,ILE/VAL	0,4082		0,0,2041	63	68	66		1099,1243	4.6	0.9	3		66	1,8435		0,1,4217	no	missense,missense	ALG3	NM_001006941.2,NM_005787.5	29,29	0,1,6258	TT,TC,CC		0.0119,0.0,0.0080	benign,benign	367/391,415/439	183960376	1,12517	2041	4218	6259	SO:0001583	missense	10195			BC002839	CCDS46967.1, CCDS46968.1	3q27.3	2013-02-26	2013-02-26		ENSG00000214160	ENSG00000214160	2.4.1.258	"Dolichyl D-mannosyl phosphate dependent mannosyltransferases"	23056	protein-coding gene	gene with protein product	"carbohydrate deficient glycoprotein syndrome type IV", "dol-P-Man:Man(5)GlcNAc(2)-PP-Dol alpha-1,3-mannosyltransferase", "dol-P-Man dependent alpha-1,3- mannosyltransferase"	608750	"asparagine-linked glycosylation 3 homolog (yeast, alpha-1,3-mannosyltransferase)", "asparagine-linked glycosylation 3, alpha-1,3- mannosyltransferase homolog (S. cerevisiae)"			1058125	Standard	NM_005787		Approved	NOT56L, Not56, CDGS4, D16Ertd36e	uc003fne.2	Q92685	OTTHUMG00000156823	ENST00000397676.3:c.1243G>A	3.37:g.183960376C>T	ENSP00000380793:p.Val415Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8JZZ6|Q9BT71	Missense_Mutation	SNP	ENST00000397676.3	37	CCDS46968.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	4.826|4.826	0.153562|0.153562	0.09185|0.09185	0.0|0.0	1.19E-4|1.19E-4	ENSG00000214160|ENSG00000214160	ENST00000446569|ENST00000418734;ENST00000397676;ENST00000445626;ENST00000455059	.|D;D;D;D	.|0.87029	.|-1.63;-2.2;-2.03;-2.04	5.5|5.5	4.63|4.63	0.57726|0.57726	.|.	.|0.318671	.|0.29225	.|N	.|0.012761	T|T	0.73567|0.73567	0.3603|0.3603	N|N	0.19112|0.19112	0.55|0.55	0.32933|0.32933	D|D	0.517347|0.517347	.|B;B;B;B	.|0.12013	.|0.004;0.005;0.0;0.001	.|B;B;B;B	.|0.04013	.|0.001;0.001;0.001;0.001	T|T	0.66044|0.66044	-0.6021|-0.6021	5|10	.|0.05721	.|T	.|0.95	-15.9802|-15.9802	10.001|10.001	0.41929|0.41929	0.0:0.774:0.148:0.078|0.0:0.774:0.148:0.078	.|.	.|367;359;375;415	.|A8JZZ6;B4DS50;C9J7S5;Q92685	.|.;.;.;ALG3_HUMAN	H|I	318|359;415;367;375	.|ENSP00000402976:V359I;ENSP00000380793:V415I;ENSP00000402744:V367I;ENSP00000397613:V375I	.|ENSP00000380793:V415I	R|V	-|-	2|1	0|0	ALG3|ALG3	185443070|185443070	0.285000|0.285000	0.24296|0.24296	0.944000|0.944000	0.38274|0.38274	0.699000|0.699000	0.40488|0.40488	0.758000|0.758000	0.26447|0.26447	1.323000|1.323000	0.45263|0.45263	0.462000|0.462000	0.41574|0.41574	CGT|GTC		0.592	ALG3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346033.1	NM_005787		T	183960376	C	T	183960376	3	4	669	1	0	0	0	0	1	0	0	0	520	536	19	1	77	1	ALG3	3	183960376	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	16714623	183960376	14062054	37	42839										
AFAP1	60312	mdanderson.org	37	chr4	7770723	7770723	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gttttccagggtccggtgccGgaacactggagacttaacgg	14	10	0	1	rs2285761	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr4:7770723G>T	ENST00000360265.4	-	15	2248	c.2014C>A	c.(2014-2016)Cgg>Agg	p.R672R	AFAP1-AS1_ENST00000608442.1_RNA|AFAP1_ENST00000382543.3_Silent_p.R756R|AFAP1_ENST00000513842.1_5'UTR|AFAP1_ENST00000358461.2_Silent_p.R672R|AFAP1_ENST00000420658.1_Silent_p.R756R			Q8N556	AFAP1_HUMAN	actin filament associated protein 1	672						cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|focal adhesion (GO:0005925)				NS(1)|autonomic_ganglia(1)|breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(14)|skin(4)|stomach(2)	32						GTCCGGTGCCGGAACACTGGA	0.557													T|||	1854	0.370208	0.264	0.3372	5008	,	,		16548	0.6567		0.1849	False		,,,				2504	0.4325															0								T	,	1053,3353	708.6+/-407.6	127,799,1277	75	90	85		2266,2014	1	0.1	4	dbSNP_100	85	1652,6948	736.1+/-407.0	175,1302,2823	no	coding-synonymous,coding-synonymous	AFAP1	NM_001134647.1,NM_198595.2	,	302,2101,4100	TT,TG,GG		19.2093,23.8992,20.7981	,	756/815,672/731	7770723	2705,10301	2203	4300	6503	SO:0001819	synonymous_variant	60312			AB209676	CCDS3397.1, CCDS47010.1	4p16	2014-02-12	2007-02-07		ENSG00000196526	ENSG00000196526		"Pleckstrin homology (PH) domain containing"	24017	protein-coding gene	gene with protein product		608252				14755689, 11641786, 11607843	Standard	NM_198595		Approved	AFAP-110, AFAP	uc011bwk.1	Q8N556	OTTHUMG00000125515	ENST00000360265.4:c.2014C>A	4.37:g.7770723G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K442|B4DMU2|E9PDT7|Q59EY5|Q9HBY1	Silent	SNP	ENST00000360265.4	37	CCDS3397.1																																																																																				0.557	AFAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000246842.2	NM_021638		T	7770723	G	T	7770723	2	4	669	1	0	0	0	0	0	0	0	1	353	1115	39	4		4	AFAP1	4	7770723	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10		7770723	183383553	38	42840										
PPARGC1A	10891	mdanderson.org	37	chr4	23814445	23814445	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tcatactctctgcgatattcTtccctcttcagcctctcgtg	5	15	6	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr4:23814445T>C	ENST00000264867.2	-	10	2063	c.1944A>G	c.(1942-1944)gaA>gaG	p.E648E	PPARGC1A_ENST00000509702.1_5'UTR	NM_013261.3	NP_037393.1	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor gamma, coactivator 1 alpha	648	Mediates interaction with RNF34. {ECO:0000269|PubMed:22064484}.				androgen metabolic process (GO:0008209)|androgen receptor signaling pathway (GO:0030521)|brown fat cell differentiation (GO:0050873)|cellular glucose homeostasis (GO:0001678)|cellular respiration (GO:0045333)|cellular response to fatty acid (GO:0071398)|cellular response to hypoxia (GO:0071456)|cellular response to nitrite (GO:0071250)|cellular response to oxidative stress (GO:0034599)|cellular response to thyroid hormone stimulus (GO:0097067)|cellular response to tumor necrosis factor (GO:0071356)|circadian regulation of gene expression (GO:0032922)|digestion (GO:0007586)|fatty acid oxidation (GO:0019395)|flavone metabolic process (GO:0051552)|galactose metabolic process (GO:0006012)|gluconeogenesis (GO:0006094)|mitochondrion organization (GO:0007005)|mRNA processing (GO:0006397)|negative regulation of glycolytic process (GO:0045820)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of neuron death (GO:1901215)|negative regulation of receptor activity (GO:2000272)|positive regulation of ATP biosynthetic process (GO:2001171)|positive regulation of cellular respiration (GO:1901857)|positive regulation of energy homeostasis (GO:2000507)|positive regulation of fatty acid oxidation (GO:0046321)|positive regulation of gluconeogenesis (GO:0045722)|positive regulation of histone acetylation (GO:0035066)|positive regulation of mitochondrial DNA metabolic process (GO:1901860)|positive regulation of mitochondrion organization (GO:0010822)|positive regulation of muscle tissue development (GO:1901863)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of smooth muscle cell proliferation (GO:0048661)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein stabilization (GO:0050821)|regulation of circadian rhythm (GO:0042752)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)|regulation of transcription, DNA-templated (GO:0006355)|respiratory electron transport chain (GO:0022904)|response to cold (GO:0009409)|response to epinephrine (GO:0071871)|response to leucine (GO:0043201)|response to muscle activity (GO:0014850)|response to norepinephrine (GO:0071873)|response to starvation (GO:0042594)|response to statin (GO:0036273)|RNA splicing (GO:0008380)|temperature homeostasis (GO:0001659)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cytosol (GO:0005829)|DNA-directed RNA polymerase II, core complex (GO:0005665)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|chromatin DNA binding (GO:0031490)|DNA binding (GO:0003677)|ligand-dependent nuclear receptor binding (GO:0016922)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|nucleotide binding (GO:0000166)|RNA binding (GO:0003723)|RNA polymerase II transcription cofactor activity (GO:0001104)|sequence-specific DNA binding (GO:0043565)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|ubiquitin protein ligase binding (GO:0031625)	p.E648D(1)		central_nervous_system(1)|endometrium(7)|kidney(3)|large_intestine(7)|liver(1)|lung(24)|ovary(3)|skin(5)	51		Breast(46;0.0503)				TGCGATATTCTTCCCTCTTCA	0.463																																					Esophageal Squamous(29;694 744 13796 34866 44181)											1	Substitution - Missense(1)	lung(1)											192	178	183					4																	23814445		2203	4300	6503	SO:0001819	synonymous_variant	10891			AF106698	CCDS3429.1	4p15.1	2013-02-12	2006-10-17	2004-02-04	ENSG00000109819	ENSG00000109819		"RNA binding motif (RRM) containing"	9237	protein-coding gene	gene with protein product		604517	"peroxisome proliferative activated receptor, gamma, coactivator 1", "peroxisome proliferative activated receptor, gamma, coactivator 1, alpha"	PPARGC1		10585775	Standard	NM_013261		Approved	PGC1, PGC1A	uc003gqs.3	Q9UBK2	OTTHUMG00000097747	ENST00000264867.2:c.1944A>G	4.37:g.23814445T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z406|G8DM16|I3RTT5|I3RTT6|I3RTT7|I3RTT8|I3RTT9|Q3LIG1|Q4W5M7|Q9UN32	Silent	SNP	ENST00000264867.2	37	CCDS3429.1																																																																																				0.463	PPARGC1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214976.1	NM_013261		C	23814445	T	C	23814445	2	2	669	1	0	0	0	0	0	0	0	1	12307	1606	56	3		3	PPARGC1A	4	23814445	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	16043722	23814445	167339831	39	42841										
SEC31A	22872	mdanderson.org	37	chr4	83774804	83774804	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	acattccctgcacaaatataGcagagacatgcttgagtctg	8	10	1	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr4:83774804G>A	ENST00000395310.2	-	18	2255	c.2073C>T	c.(2071-2073)tgC>tgT	p.C691C	SEC31A_ENST00000264405.5_Silent_p.C424C|SEC31A_ENST00000509142.1_Silent_p.C691C|SEC31A_ENST00000355196.2_Silent_p.C691C|SEC31A_ENST00000443462.2_Silent_p.C686C|SEC31A_ENST00000505472.1_Silent_p.C691C|SEC31A_ENST00000311785.7_Silent_p.C691C|SEC31A_ENST00000513858.1_Silent_p.C652C|SEC31A_ENST00000448323.1_Silent_p.C691C|SEC31A_ENST00000500777.2_Silent_p.C652C|SEC31A_ENST00000505984.1_Silent_p.C652C|SEC31A_ENST00000432794.1_Silent_p.C691C|SEC31A_ENST00000348405.4_Silent_p.C652C|SEC31A_ENST00000326950.5_Silent_p.C652C|SEC31A_ENST00000508502.1_Silent_p.C691C|SEC31A_ENST00000508479.1_Silent_p.C691C	NM_001077207.2|NM_001077208.2|NM_014933.3	NP_001070675.1|NP_001070676.1|NP_055748.2	O94979	SC31A_HUMAN	SEC31 homolog A (S. cerevisiae)	691					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular protein metabolic process (GO:0044267)|COPII vesicle coating (GO:0048208)|endoplasmic reticulum unfolded protein response (GO:0030968)|ER to Golgi vesicle-mediated transport (GO:0006888)|membrane organization (GO:0061024)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)|protein transport (GO:0015031)|response to calcium ion (GO:0051592)	COPII vesicle coat (GO:0030127)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum exit site (GO:0070971)|endoplasmic reticulum membrane (GO:0005789)|ER to Golgi transport vesicle (GO:0030134)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|intracellular membrane-bounded organelle (GO:0043231)|perinuclear region of cytoplasm (GO:0048471)|vesicle coat (GO:0030120)	calcium-dependent protein binding (GO:0048306)		SEC31A/ALK(3)|SEC31A/JAK2(4)	breast(1)	1		Hepatocellular(203;0.114)				CACAAATATAGCAGAGACATG	0.393																																																0													115	112	113					4																	83774804		2203	4300	6503	SO:0001819	synonymous_variant	22872			AB018358	CCDS3596.1, CCDS3597.1, CCDS43244.1, CCDS47088.1, CCDS54773.1, CCDS75155.1, CCDS75156.1	4q21.3	2013-01-10	2006-10-05	2006-09-07	ENSG00000138674	ENSG00000138674		"WD repeat domain containing"	17052	protein-coding gene	gene with protein product		610257	"SEC31-like 1 (S. cerevisiae)", "Sec31 homolog A (S. cerevisiae)"	SEC31L1		10048485, 10788476	Standard	NM_001077206		Approved	KIAA0905, ABP125, ABP130	uc003hnh.3	O94979	OTTHUMG00000130297	ENST00000395310.2:c.2073C>T	4.37:g.83774804G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DIW6|B7ZKZ7|B7ZL00|H7C2W3|Q17RR5|Q5H9P6|Q5XG74|Q659G7|Q6ZU90|Q7LCX9|Q86TJ0|Q8IZH4|Q9P048|Q9P0A6|Q9UM05|Q9UM06	Silent	SNP	ENST00000395310.2	37	CCDS3596.1																																																																																				0.393	SEC31A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252640.1	NM_016211		A	83774804	G	A	83774804	2	1	669	1	0	0	0	0	0	0	0	1	14011	963	34	2		2	SEC31A	4	83774804	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	59960359	83774804	107379472	40	42842										
DMP1	1758	mdanderson.org	37	chr4	88584283	88584283	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gaggaaagccattctgaggaAgacgacagtgactctcaaga	12	8	2	4			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr4:88584283A>G	ENST00000339673.6	+	6	1452	c.1353A>G	c.(1351-1353)gaA>gaG	p.E451E	RP11-742B18.1_ENST00000507894.1_RNA|RP11-742B18.1_ENST00000506480.1_RNA|DMP1_ENST00000282479.7_Silent_p.E435E|RP11-742B18.1_ENST00000506814.1_RNA	NM_004407.3	NP_004398.1	Q13316	DMP1_HUMAN	dentin matrix acidic phosphoprotein 1	451					biomineral tissue development (GO:0031214)|extracellular matrix organization (GO:0030198)|ossification (GO:0001503)|positive regulation of cell-substrate adhesion (GO:0010811)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|intracellular membrane-bounded organelle (GO:0043231)|nucleolus (GO:0005730)|nucleus (GO:0005634)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|extracellular matrix binding (GO:0050840)|integrin binding (GO:0005178)			breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(14)|ovary(1)|pancreas(3)|prostate(1)|skin(1)|stomach(1)	32		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.227)		OV - Ovarian serous cystadenocarcinoma(123;0.000516)		ATTCTGAGGAAGACGACAGTG	0.537																																																0													85	76	79					4																	88584283		2203	4300	6503	SO:0001819	synonymous_variant	1758			U34037	CCDS3623.1, CCDS43249.1	4q21	2008-08-29	2008-08-29		ENSG00000152592	ENSG00000152592			2932	protein-coding gene	gene with protein product		600980	"dentin matrix acidic phosphoprotein"			8586437, 9177774	Standard	NM_001079911		Approved		uc003hqv.3	Q13316	OTTHUMG00000130598	ENST00000339673.6:c.1353A>G	4.37:g.88584283A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A1L4L3|O43265	Silent	SNP	ENST00000339673.6	37	CCDS3623.1																																																																																				0.537	DMP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253047.1			G	88584283	A	G	88584283	2	3	669	1	0	0	0	0	0	0	0	1	4585	69	3	3		3	DMP1	4	88584283	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	4809479	88584283	102569993	41	42843										
HERC6	55008	mdanderson.org	37	chr4	89363472	89363472	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gtcctgaaactttcagtgaaAgagatcacccaacatcaata	6	10	3	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr4:89363472A>G	ENST00000264346.7	+	23	2988	c.2929A>G	c.(2929-2931)Aga>Gga	p.R977G	HERC6_ENST00000380265.5_Missense_Mutation_p.R941G	NM_017912.3	NP_060382.3	Q8IVU3	HERC6_HUMAN	HECT and RLD domain containing E3 ubiquitin protein ligase family member 6	977	HECT. {ECO:0000255|PROSITE- ProRule:PRU00104}.				hematopoietic progenitor cell differentiation (GO:0002244)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|ovary(1)	11		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		TTTCAGTGAAAGAGATCACCC	0.388																																																0													85	81	82					4																	89363472		1914	4133	6047	SO:0001583	missense	55008			AF336798	CCDS47098.1, CCDS54777.1	4q22	2012-02-23	2012-02-23		ENSG00000138642	ENSG00000138642			26072	protein-coding gene	gene with protein product		609249	"hect domain and RLD 6"				Standard	NM_001165136		Approved	FLJ20637	uc011cdi.2	Q8IVU3	OTTHUMG00000160983	ENST00000264346.7:c.2929A>G	4.37:g.89363472A>G	ENSP00000264346:p.Arg977Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DIY5|Q5GC90|Q5GRH3|Q5HYM6|Q5JPB6|Q6PIF4|Q8NAN3|Q9NWS4	Missense_Mutation	SNP	ENST00000264346.7	37	CCDS47098.1	.	.	.	.	.	.	.	.	.	.	A	7.415	0.635509	0.14322	.	.	ENSG00000138642	ENST00000380265;ENST00000264346	T;T	0.40225	1.04;1.04	4.69	-0.658	0.11428	HECT (4);	2.080580	0.01635	N	0.023721	T	0.30166	0.0756	N	0.20401	0.57	0.39313	D	0.9651	B;B	0.30146	0.228;0.27	B;B	0.28385	0.053;0.089	T	0.07252	-1.0782	10	0.38643	T	0.18	.	9.0489	0.36363	0.5716:0.0:0.4284:0.0	.	941;977	Q8IVU3-2;Q8IVU3	.;HERC6_HUMAN	G	941;977	ENSP00000369617:R941G;ENSP00000264346:R977G	ENSP00000264346:R977G	R	+	1	2	HERC6	89582495	0.026000	0.19158	0.187000	0.23214	0.651000	0.38670	0.056000	0.14256	0.032000	0.15435	0.482000	0.46254	AGA		0.388	HERC6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000363259.2			G	89363472	A	G	89363472	3	3	669	1	0	0	0	0	1	0	0	0	7069	64	3	3	2816	3	HERC6	4	89363472	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	779189	89363472	101790804	42	42844										
NHEDC1	150159	mdanderson.org	37	chr4	103826769	103826769	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tagatatgtggttaaaattcGaacacataatgccaaactta	6	6	0	1	rs200075071		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr4:103826769G>A	ENST00000296422.7	-	11	1375	c.1234C>T	c.(1234-1236)Cga>Tga	p.R412*	SLC9B1_ENST00000394789.3_Nonsense_Mutation_p.R412*|SLC9B1_ENST00000512651.2_Intron	NM_139173.3	NP_631912	Q4ZJI4	SL9B1_HUMAN	solute carrier family 9, subfamily B (NHA1, cation proton antiporter 1), member 1	412					ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	solute:proton antiporter activity (GO:0015299)										GTTAAAATTCGAACACATAAT	0.343																																																0													46	48	48					4																	103826769		2200	4294	6494	SO:0001587	stop_gained	150159			AF447585	CCDS34041.1, CCDS47119.1	4q24	2013-05-22	2012-03-22	2011-07-26	ENSG00000164037	ENSG00000164037		"Solute carriers"	24244	protein-coding gene	gene with protein product		611527	"Na+/H+ exchanger domain containing 1", "solute carrier family 9, subfamily B (cation proton antiporter 2), member 1"	NHEDC1		16850186	Standard	NM_139173		Approved	NHA1	uc003hww.3	Q4ZJI4	OTTHUMG00000161114	ENST00000296422.7:c.1234C>T	4.37:g.103826769G>A	ENSP00000296422:p.Arg412*	Somatic		WXS	Illumina HiSeq	Phase_I	A1KXV1|B9EH04|C9JBP7|Q49A30|Q8NCV2|Q8WVZ0	Nonsense_Mutation	SNP	ENST00000296422.7	37	CCDS34041.1	.	.	.	.	.	.	.	.	.	.	G	22.6	4.313112	0.81358	.	.	ENSG00000164037	ENST00000394789;ENST00000296422	.	.	.	3.47	2.61	0.31194	.	0.000000	0.64402	D	0.000002	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-27.7024	9.543	0.39264	0.0:0.0:0.62:0.38	.	.	.	.	X	412	.	ENSP00000296422:R412X	R	-	1	2	SLC9B1	104046218	0.997000	0.39634	0.506000	0.27664	0.716000	0.41182	2.574000	0.46016	0.760000	0.33108	0.484000	0.47621	CGA		0.343	SLC9B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363841.1	NM_139173		A	103826769	G	A	103826769	4	1	669	1	0	0	0	0	0	1	0	0	10407	1066	37	1	421	1	NHEDC1	4	103826769	Nonsense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	14463297	103826769	87327507	43	42845										
NHEDC1	150159	mdanderson.org	37	chr4	103870560	103870560	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctaagattgaccaggtcataCaccatatcacaaacagtata	5	10	2	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr4:103870560C>T	ENST00000296422.7	-	4	377	c.236G>A	c.(235-237)tGt>tAt	p.C79Y	SLC9B1_ENST00000394789.3_Missense_Mutation_p.C79Y	NM_139173.3	NP_631912	Q4ZJI4	SL9B1_HUMAN	solute carrier family 9, subfamily B (NHA1, cation proton antiporter 1), member 1	79					ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	solute:proton antiporter activity (GO:0015299)										CCAGGTCATACACCATATCAC	0.328																																																0													52	52	52					4																	103870560		2173	4291	6464	SO:0001583	missense	150159			AF447585	CCDS34041.1, CCDS47119.1	4q24	2013-05-22	2012-03-22	2011-07-26	ENSG00000164037	ENSG00000164037		"Solute carriers"	24244	protein-coding gene	gene with protein product		611527	"Na+/H+ exchanger domain containing 1", "solute carrier family 9, subfamily B (cation proton antiporter 2), member 1"	NHEDC1		16850186	Standard	NM_139173		Approved	NHA1	uc003hww.3	Q4ZJI4	OTTHUMG00000161114	ENST00000296422.7:c.236G>A	4.37:g.103870560C>T	ENSP00000296422:p.Cys79Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A1KXV1|B9EH04|C9JBP7|Q49A30|Q8NCV2|Q8WVZ0	Missense_Mutation	SNP	ENST00000296422.7	37	CCDS34041.1	.	.	.	.	.	.	.	.	.	.	C	12.97	2.096865	0.37048	.	.	ENSG00000164037	ENST00000394789;ENST00000296422;ENST00000452285	T;T	0.18338	2.22;2.24	3.71	1.9	0.25705	.	0.621647	0.13757	N	0.364841	T	0.28995	0.0720	M	0.61703	1.905	0.25139	N	0.990519	P;P	0.44627	0.839;0.806	P;P	0.53760	0.734;0.536	T	0.07731	-1.0757	10	0.72032	D	0.01	-2.2718	8.5852	0.33653	0.1443:0.3519:0.5038:0.0	.	79;79	Q4ZJI4;Q4ZJI4-3	SL9B1_HUMAN;.	Y	79	ENSP00000378269:C79Y;ENSP00000296422:C79Y	ENSP00000296422:C79Y	C	-	2	0	SLC9B1	104090009	0.820000	0.29190	0.417000	0.26559	0.034000	0.12701	0.289000	0.18957	0.328000	0.23435	0.555000	0.69702	TGT		0.328	SLC9B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363841.1	NM_139173		T	103870560	C	T	103870560	3	4	669	1	0	0	0	0	1	0	0	0	10407	478	17	2	1447	2	NHEDC1	4	103870560	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	43791	103870560	87283716	44	42846										
FBXW7	55294	mdanderson.org	37	chr4	153332484	153332484	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttttgtatagaatggggaggAgagttggtgaacgggcaggt	18	2	0	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr4:153332484A>G	ENST00000281708.4	-	2	1701	c.472T>C	c.(472-474)Tcc>Ccc	p.S158P	FBXW7_ENST00000603548.1_Missense_Mutation_p.S158P|FBXW7_ENST00000603841.1_Missense_Mutation_p.S158P|FBXW7_ENST00000604872.1_Missense_Mutation_p.S158P	NM_033632.3	NP_361014.1	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7, E3 ubiquitin protein ligase	158					cellular response to DNA damage stimulus (GO:0006974)|cellular response to UV (GO:0034644)|lipid homeostasis (GO:0055088)|lung development (GO:0030324)|negative regulation of DNA endoreduplication (GO:0032876)|negative regulation of hepatocyte proliferation (GO:2000346)|negative regulation of Notch signaling pathway (GO:0045746)|negative regulation of SREBP signaling pathway (GO:2000639)|negative regulation of triglyceride biosynthetic process (GO:0010868)|Notch signaling pathway (GO:0007219)|positive regulation of epidermal growth factor-activated receptor activity (GO:0045741)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway (GO:1903378)|positive regulation of proteasomal protein catabolic process (GO:1901800)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of ubiquitin-protein transferase activity (GO:0051443)|protein stabilization (GO:0050821)|protein ubiquitination (GO:0016567)|regulation of cell cycle G1/S phase transition (GO:1902806)|regulation of lipid storage (GO:0010883)|regulation of protein localization (GO:0032880)|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146)|sister chromatid cohesion (GO:0007062)|vasculature development (GO:0001944)|vasculogenesis (GO:0001570)|viral process (GO:0016032)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|Parkin-FBXW7-Cul1 ubiquitin ligase complex (GO:1990452)|protein complex (GO:0043234)|SCF ubiquitin ligase complex (GO:0019005)	cyclin binding (GO:0030332)|identical protein binding (GO:0042802)|protein binding, bridging (GO:0030674)|sequence-specific DNA binding transcription factor activity (GO:0003700)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activator activity (GO:0097027)			NS(1)|biliary_tract(8)|bone(1)|breast(5)|central_nervous_system(6)|cervix(2)|endometrium(36)|haematopoietic_and_lymphoid_tissue(159)|kidney(6)|large_intestine(155)|lung(31)|ovary(10)|pancreas(3)|prostate(2)|skin(6)|stomach(16)|upper_aerodigestive_tract(9)|urinary_tract(6)	462	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				AATGGGGAGGAGAGTTGGTGA	0.348			"Mis, N, D, F"		"colorectal, endometrial, T-ALL"																																		Rec	yes		4	4q31.3	55294	"F-box and WD-40 domain protein 7 (archipelago homolog, Drosophila)"		"E, L"	0													173	139	151					4																	153332484		2203	4300	6503	SO:0001583	missense	55294			AF411971	CCDS3777.1, CCDS3778.1, CCDS34078.1, CCDS64082.1	4q31.23	2013-01-09	2012-02-23					"F-boxes / WD-40 domains", "WD repeat domain containing"	16712	protein-coding gene	gene with protein product	"archipelago homolog (Drosophila)"	606278	"F-box and WD-40 domain protein 7 (archipelago homolog, Drosophila)", "F-box and WD repeat domain containing 7"			10531037, 11425854	Standard	NM_018315		Approved	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6	uc003ims.3	Q969H0		ENST00000281708.4:c.472T>C	4.37:g.153332484A>G	ENSP00000281708:p.Ser158Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLP9|Q68DR0|Q96A16|Q96LE0|Q96RI2|Q9NUX6	Missense_Mutation	SNP	ENST00000281708.4	37	CCDS3777.1	.	.	.	.	.	.	.	.	.	.	A	12.31	1.900813	0.33535	.	.	ENSG00000109670	ENST00000281708	T	0.56941	0.43	5.54	5.54	0.83059	.	1.610430	0.02973	N	0.144619	T	0.47173	0.1431	N	0.19112	0.55	0.80722	D	1	B	0.34214	0.442	B	0.31869	0.137	T	0.10520	-1.0626	10	0.56958	D	0.05	-3.3189	15.6888	0.77434	1.0:0.0:0.0:0.0	.	158	Q969H0	FBXW7_HUMAN	P	158	ENSP00000281708:S158P	ENSP00000281708:S158P	S	-	1	0	FBXW7	153551934	1.000000	0.71417	1.000000	0.80357	0.966000	0.64601	4.572000	0.60886	2.114000	0.64651	0.528000	0.53228	TCC		0.348	FBXW7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000469956.1			G	153332484	A	G	153332484	3	3	669	1	0	0	0	0	1	0	0	0	5776	304	11	3	2111	3	FBXW7	4	153332484	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	49461924	153332484	37821792	45	42847										
FHDC1	85462	broad.mit.edu	37	chr4	153896828	153896829	+	Frame_Shift_Ins	INS	-	-	G													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ccgactccagacccagaggcINSggggacccggaggaaggcgg					rs372925250		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr4:153896828_153896829insG	ENST00000511601.1	+	12	2573_2574	c.2385_2386insG	c.(2386-2388)gggfs	p.G796fs	FHDC1_ENST00000260008.3_Frame_Shift_Ins_p.G796fs			Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	796									ARFIP1/FHDC1(2)	NS(2)|breast(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(7)|liver(2)|lung(14)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	43	all_hematologic(180;0.093)					GACCCAGAGGCGGGGACCCGGA	0.614																																																0																																										SO:0001589	frameshift_variant	85462			AB051514	CCDS34081.1	4q31.3	2014-02-12	2007-11-29		ENSG00000137460	ENSG00000137460			29363	protein-coding gene	gene with protein product						15138637	Standard	NM_033393		Approved	KIAA1727	uc003inf.2	Q9C0D6	OTTHUMG00000161452	ENST00000511601.1:c.2389dupG	4.37:g.153896832_153896832dupG	ENSP00000427567:p.Gly796fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000511601.1	37	CCDS34081.1																																																																																				0.614	FHDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364981.2	NM_033393		G	153896829	-	G	153896828	7	5	669	1	0	1	1	0	0	0	0	0	5883	755	27	0	2427	0	FHDC1	4	153896828	Frame_Shift_Ins	INS	-	TCGA-KN-8433-01A-11D-2310-10	564344	153896828	37257448	46	42848										
GRIA2	2891	mdanderson.org	37	chr4	158257800	158257800	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggagtttgaagatggaagagAaacacaaagtagtgaatcaa	12	3	1	4			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr4:158257800A>G	ENST00000264426.9	+	11	2024	c.1745A>G	c.(1744-1746)gAa>gGa	p.E582G	GRIA2_ENST00000296526.7_Missense_Mutation_p.E582G|GRIA2_ENST00000393815.2_Missense_Mutation_p.E535G|GRIA2_ENST00000449365.1_Missense_Mutation_p.E535G|GRIA2_ENST00000507898.1_Missense_Mutation_p.E535G	NM_001083619.1	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2	582					ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex (GO:0032281)|cell junction (GO:0030054)|dendrite (GO:0030425)|endocytic vesicle membrane (GO:0030666)|endoplasmic reticulum (GO:0005783)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|synaptic vesicle (GO:0008021)	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:0004971)|extracellular-glutamate-gated ion channel activity (GO:0005234)|ionotropic glutamate receptor activity (GO:0004970)			NS(1)|breast(2)|central_nervous_system(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(16)|liver(2)|lung(32)|ovary(3)|prostate(3)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	79	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	Amobarbital(DB01351)|Aprobarbital(DB01352)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Heptabarbital(DB01354)|Hexobarbital(DB01355)|Methylphenobarbital(DB00849)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Primidone(DB00794)|Quinidine barbiturate(DB01346)|Secobarbital(DB00418)|Talbutal(DB00306)|Thiopental(DB00599)	GATGGAAGAGAAACACAAAGT	0.423																																																0													151	147	148					4																	158257800		2203	4300	6503	SO:0001583	missense	2891				CCDS3797.1, CCDS43274.1, CCDS43275.1	4q32.1	2012-08-29			ENSG00000120251	ENSG00000120251		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4572	protein-coding gene	gene with protein product		138247		GLUR2		1311100	Standard	NM_001083619		Approved	GluA2, GLURB	uc003ipl.4	P42262	OTTHUMG00000133836	ENST00000264426.9:c.1745A>G	4.37:g.158257800A>G	ENSP00000264426:p.Glu582Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MT92|I6L997|Q96FP6	Missense_Mutation	SNP	ENST00000264426.9	37	CCDS43274.1	.	.	.	.	.	.	.	.	.	.	A	14.19	2.460118	0.43736	.	.	ENSG00000120251	ENST00000507898;ENST00000393815;ENST00000296526;ENST00000264426;ENST00000449365	T;T;T;T;T	0.54479	0.57;0.57;0.57;0.57;0.57	5.66	5.66	0.87406	Ionotropic glutamate receptor (2);	0.292159	0.34362	N	0.004035	T	0.42426	0.1202	N	0.25789	0.76	0.53688	D	0.999979	B;B;B	0.31193	0.312;0.141;0.094	B;B;B	0.28305	0.072;0.088;0.072	T	0.41520	-0.9504	10	0.62326	D	0.03	.	16.1819	0.81915	1.0:0.0:0.0:0.0	.	582;582;535	P42262;P42262-2;A8MT92	GRIA2_HUMAN;.;.	G	535;535;582;582;535	ENSP00000426845:E535G;ENSP00000377403:E535G;ENSP00000296526:E582G;ENSP00000264426:E582G;ENSP00000389837:E535G	ENSP00000264426:E582G	E	+	2	0	GRIA2	158477250	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.928000	0.70088	2.279000	0.76181	0.533000	0.62120	GAA		0.423	GRIA2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000258367.2			G	158257800	A	G	158257800	3	3	669	1	0	0	0	0	1	0	0	0	6775	246	9	3	1787	3	GRIA2	4	158257800	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	4360972	158257800	32896476	47	42849										
CPE	1363	mdanderson.org	37	chr4	166385729	166385729	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ccagatggctttgagaaggcAgcgtctcaggtgagtgccag	15	9	1	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr4:166385729A>G	ENST00000402744.4	+	2	775	c.495A>G	c.(493-495)gcA>gcG	p.A165A		NM_001873.2	NP_001864.1	P16870	CBPE_HUMAN	carboxypeptidase E	165					cardiac left ventricle morphogenesis (GO:0003214)|cellular protein metabolic process (GO:0044267)|cellular protein modification process (GO:0006464)|insulin processing (GO:0030070)|metabolic process (GO:0008152)|neuropeptide signaling pathway (GO:0007218)|protein localization to membrane (GO:0072657)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|secretory granule membrane (GO:0030667)	carboxypeptidase activity (GO:0004180)|cell adhesion molecule binding (GO:0050839)|metallocarboxypeptidase activity (GO:0004181)|neurexin family protein binding (GO:0042043)|zinc ion binding (GO:0008270)			endometrium(2)|large_intestine(10)|lung(9)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	26	all_hematologic(180;0.221)	Prostate(90;0.0962)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.137)	"""Insulin(DB00071)|Insulin Regular(DB00030)"	TTGAGAAGGCAGCGTCTCAGG	0.473											OREG0016390	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													111	96	101					4																	166385729		2203	4300	6503	SO:0001819	synonymous_variant	1363			X51405	CCDS3810.1	4q32.3	2012-02-10			ENSG00000109472	ENSG00000109472	3.4.17.10		2303	protein-coding gene	gene with protein product	"carboxypeptidase H", "enkephalin convertase", "insulin granule-associated carboxypeptidase", "cobalt-stimulated chromaffin granule carboxypeptidase"	114855				2334405	Standard	NM_001873		Approved		uc003irg.4	P16870	OTTHUMG00000150252	ENST00000402744.4:c.495A>G	4.37:g.166385729A>G		Somatic	1854	WXS	Illumina HiSeq	Phase_I	A8K4N1|B3KR42|B4DFN4|D3DP33|Q9UIU9	Silent	SNP	ENST00000402744.4	37	CCDS3810.1																																																																																				0.473	CPE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317094.2	NM_001873		G	166385729	A	G	166385729	2	3	669	1	0	0	0	0	0	0	0	1	3801	175	7	3		3	CPE	4	166385729	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	8127929	166385729	24768547	48	42850										
DDX60L	91351	mdanderson.org	37	chr4	169374381	169374381	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gaaaagccacacagaggcaaCgcagtctgcagaaatcttcc	9	12	2	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr4:169374381C>T	ENST00000511577.1	-	8	1137	c.890G>A	c.(889-891)cGt>cAt	p.R297H	DDX60L_ENST00000505890.1_Missense_Mutation_p.R297H|DDX60L_ENST00000260184.7_Missense_Mutation_p.R297H			Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	297							ATP binding (GO:0005524)|helicase activity (GO:0004386)|RNA binding (GO:0003723)	p.R297L(1)		breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(7)|lung(23)|ovary(2)|prostate(1)|skin(1)|stomach(1)	43		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		ACAGAGGCAACGCAGTCTGCA	0.458																																																1	Substitution - Missense(1)	lung(1)											88	92	90					4																	169374381		2003	4176	6179	SO:0001583	missense	91351			AK092461	CCDS47161.1	4q32.3	2008-01-08				ENSG00000181381			26429	protein-coding gene	gene with protein product							Standard	XM_005263341		Approved	FLJ31033	uc003irq.4	Q5H9U9		ENST00000511577.1:c.890G>A	4.37:g.169374381C>T	ENSP00000422423:p.Arg297His	Somatic		WXS	Illumina HiSeq	Phase_I	Q96ND6	Missense_Mutation	SNP	ENST00000511577.1	37		.	.	.	.	.	.	.	.	.	.	C	2.777	-0.254392	0.05829	.	.	ENSG00000181381	ENST00000260184;ENST00000511577;ENST00000505890;ENST00000505863	T;T;T;T	0.15718	2.4;2.4;2.4;3.06	3.3	-1.09	0.09904	.	0.782659	0.10119	N	0.713632	T	0.04452	0.0122	N	0.01009	-1.055	0.09310	N	1	B;B;B	0.09022	0.001;0.002;0.001	B;B;B	0.01281	0.0;0.0;0.0	T	0.44360	-0.9333	10	0.14656	T	0.56	.	6.5863	0.22622	0.0:0.3112:0.0:0.6888	.	297;297;297	E9PAP8;D6R906;Q5H9U9	.;.;DDX6L_HUMAN	H	297;297;297;25	ENSP00000260184:R297H;ENSP00000422423:R297H;ENSP00000422202:R297H;ENSP00000421026:R25H	ENSP00000260184:R297H	R	-	2	0	DDX60L	169610956	0.015000	0.18098	0.001000	0.08648	0.759000	0.43091	0.485000	0.22324	-0.458000	0.07023	-0.444000	0.05651	CGT		0.458	DDX60L-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000364839.1	NM_001012967		T	169374381	C	T	169374381	3	4	669	1	0	0	0	0	1	0	0	0	4381	536	19	1	4354	1	DDX60L	4	169374381	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	2988652	169374381	21779895	49	42851										
C4orf27	54969	mdanderson.org	37	chr4	170678993	170678993	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggcagtacctgcggcccctcTccgccgggcctgcgcttccc	12	20	1	0	rs11540095	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr4:170678993T>C	ENST00000393381.2	-	1	111	c.36A>G	c.(34-36)ggA>ggG	p.G12G		NM_017867.2	NP_060337.2	Q9NWY4	CD027_HUMAN	chromosome 4 open reading frame 27	12						nucleus (GO:0005634)				NS(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(4)|ovary(1)|pancreas(1)	12		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.018)|LUSC - Lung squamous cell carcinoma(193;0.116)		GCGGCCCCTCTCCGCCGGGCC	0.692													C|||	3893	0.777356	0.6899	0.7954	5008	,	,		12693	0.881		0.7843	False		,,,				2504	0.7689															0								C		2972,1212		1062,848,182	5	6	6		36	1.7	0.7	4	dbSNP_120	6	6667,1561		2735,1197,182	no	coding-synonymous	C4orf27	NM_017867.2		3797,2045,364	CC,CT,TT		18.9718,28.9675,22.3413		12/347	170678993	9639,2773	2092	4114	6206	SO:0001819	synonymous_variant	54969			BC010367	CCDS3813.1	4q33	2011-01-25			ENSG00000056050	ENSG00000056050			26051	protein-coding gene	gene with protein product						11230166	Standard	NM_017867		Approved	FLJ20534	uc003isl.4	Q9NWY4	OTTHUMG00000160960	ENST00000393381.2:c.36A>G	4.37:g.170678993T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000393381.2	37	CCDS3813.1																																																																																				0.692	C4orf27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363140.1	NM_017867		C	170678993	T	C	170678993	2	2	669	1	0	0	0	0	0	0	0	1	2260	1538	54	3		3	C4orf27	4	170678993	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	1304612	170678993	20475283	50	42852										
FRG1	2483	mdanderson.org	37	chr4	190883028	190883028	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cttaaaataagtaaagaagaCagtaaaattcttaaaaaggc	6	4	1	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr4:190883028C>T	ENST00000226798.4	+	8	903	c.681C>T	c.(679-681)gaC>gaT	p.D227D		NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1	227					mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		GTAAAGAAGACAGTAAAATTC	0.323																																																0													77	95	89					4																	190883028		2158	4226	6384	SO:0001819	synonymous_variant	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.681C>T	4.37:g.190883028C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Silent	SNP	ENST00000226798.4	37	CCDS34121.1																																																																																				0.323	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477		T	190883028	C	T	190883028	2	4	669	1	0	0	0	0	0	0	0	1	6053	477	17	2		2	FRG1	4	190883028	Silent	SNP	C	TCGA-KN-8433-01A-11D-2310-10	20204035	190883028	271248	51	42853										
FRG1	2483	mdanderson.org	37	chr4	190883051	190883051	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	taaaattcttaaaaaggctcGgaaagatggatttttgcatg	9	4	1	1	rs1803593		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr4:190883051G>A	ENST00000226798.4	+	8	926	c.704G>A	c.(703-705)cGg>cAg	p.R235Q		NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1	235					mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		AAAAAGGCTCGGAAAGATGGA	0.328																																																0													81	99	93					4																	190883051		2158	4213	6371	SO:0001583	missense	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.704G>A	4.37:g.190883051G>A	ENSP00000226798:p.Arg235Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Missense_Mutation	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	.	15.68	2.904307	0.52333	.	.	ENSG00000109536	ENST00000226798	T	0.34472	1.36	4.07	3.23	0.37069	.	0.049801	0.85682	D	0.000000	T	0.27967	0.0689	.	.	.	0.58432	D	0.999998	B	0.30439	0.279	B	0.28385	0.089	T	0.07404	-1.0774	9	0.48119	T	0.1	1.7828	10.172	0.42915	0.1019:0.0:0.8981:0.0	rs1803593;rs3202757;rs17435102	235	Q14331	FRG1_HUMAN	Q	235	ENSP00000226798:R235Q	ENSP00000226798:R235Q	R	+	2	0	FRG1	191120045	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	7.403000	0.79983	0.849000	0.35215	-0.359000	0.07587	CGG		0.328	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477		A	190883051	G	A	190883051	3	1	669	1	0	0	0	0	1	0	0	0	6053	1116	39	1	734	1	FRG1	4	190883051	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	23	190883051	271225	52	42854										
PRDM9	56979	mdanderson.org	37	chr5	23527721	23527721	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gggagtgtgggcggggctttCgcaataagtcacacctcctc	14	11	1	0	rs201643800		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr5:23527721C>A	ENST00000296682.3	+	11	2706	c.2524C>A	c.(2524-2526)Cgc>Agc	p.R842S		NM_020227.2	NP_064612.2	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	842					meiotic gene conversion (GO:0006311)|positive regulation of meiosis I (GO:0060903)|positive regulation of reciprocal meiotic recombination (GO:0010845)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)	histone methyltransferase activity (H3-K4 specific) (GO:0042800)|metal ion binding (GO:0046872)|recombination hotspot binding (GO:0010844)|sequence-specific DNA binding (GO:0043565)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(15)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(27)|lung(87)|ovary(6)|pancreas(2)|prostate(4)|skin(10)|upper_aerodigestive_tract(11)	172						GCGGGGCTTTCGCAATAAGTC	0.587										HNSCC(3;0.000094)																																						0													64	74	71					5																	23527721		2182	4295	6477	SO:0001583	missense	56979			AF275816	CCDS43307.1	5p14.2	2014-06-03			ENSG00000164256	ENSG00000164256		"-", "Zinc fingers, C2H2-type"	13994	protein-coding gene	gene with protein product	"PR-domain containing protein 9"	609760	"minisatellite binding protein 3, 115kDa", "minisatellite binding protein 3 (115kD)"	MSBP3		10668202, 2062643, 24634223	Standard	NM_020227		Approved	PFM6, ZNF899	uc003jgo.3	Q9NQV7	OTTHUMG00000161918	ENST00000296682.3:c.2524C>A	5.37:g.23527721C>A	ENSP00000296682:p.Arg842Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DX22|Q27Q50	Missense_Mutation	SNP	ENST00000296682.3	37	CCDS43307.1	.	.	.	.	.	.	.	.	.	.	A	0.001	-3.150552	0.00029	.	.	ENSG00000164256	ENST00000296682	T	0.07567	3.18	2.67	1.45	0.22620	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.01940	0.0061	N	0.01438	-0.865	0.09310	N	1	B	0.09022	0.002	B	0.10450	0.005	T	0.44483	-0.9325	9	0.02654	T	1	0.1175	0.5976	0.00739	0.4516:0.2128:0.1287:0.207	.	842	Q9NQV7	PRDM9_HUMAN	S	842	ENSP00000296682:R842S	ENSP00000296682:R842S	R	+	1	0	PRDM9	23563478	0.000000	0.05858	0.005000	0.12908	0.001000	0.01503	-0.822000	0.04448	0.037000	0.15575	-0.566000	0.04163	CGC		0.587	PRDM9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366375.1	NM_020227		A	23527721	C	A	23527721	3	1	669	1	0	0	0	0	1	0	0	0	12473	884	31	4	2562	4	PRDM9	5	23527721	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10		23527721	157387539	53	42855										
RAI14	26064	mdanderson.org	37	chr5	34824215	34824215	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aaaataagcaatcttaaggaAcaccttgcaagcaaggaagt	8	7	1	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr5:34824215A>G	ENST00000265109.3	+	15	2555	c.2268A>G	c.(2266-2268)gaA>gaG	p.E756E	RAI14_ENST00000503673.1_Silent_p.E756E|RAI14_ENST00000428746.2_Silent_p.E756E|RAI14_ENST00000506376.1_Silent_p.E748E|RAI14_ENST00000512629.1_Silent_p.E727E|RAI14_ENST00000397449.1_Silent_p.E749E|RAI14_ENST00000515799.1_Silent_p.E759E	NM_001145522.1|NM_015577.2	NP_001138994.1|NP_056392.2	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14	756						actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|nucleus (GO:0005634)				breast(2)|central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(19)|lung(22)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	56	all_lung(31;0.000191)					ATCTTAAGGAACACCTTGCAA	0.423																																																0													80	77	78					5																	34824215		2203	4300	6503	SO:0001819	synonymous_variant	26064			AB037755	CCDS34142.1, CCDS54837.1, CCDS54838.1, CCDS54839.1	5p13.3-p13.2	2013-01-10			ENSG00000039560	ENSG00000039560		"Ankyrin repeat domain containing"	14873	protein-coding gene	gene with protein product	"novel retinal pigment epithelial"	606586				11042181	Standard	NM_015577		Approved	NORPEG, KIAA1334, RAI13, DKFZp564G013	uc011coj.2	Q9P0K7	OTTHUMG00000162019	ENST00000265109.3:c.2268A>G	5.37:g.34824215A>G		Somatic		WXS	Illumina HiSeq	Phase_I	E9PED3|Q6V1W9|Q7Z5I4|Q7Z733|Q9P2L2|Q9Y3T5	Silent	SNP	ENST00000265109.3	37	CCDS34142.1																																																																																				0.423	RAI14-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366786.1	NM_015577		G	34824215	A	G	34824215	2	3	669	1	0	0	0	0	0	0	0	1	13021	40	2	3		3	RAI14	5	34824215	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	11296494	34824215	146091045	54	42856										
HCN1	348980	broad.mit.edu;hgsc.bcm.edu	37	chr5	45262024	45262025	+	Stop_Codon_Ins	INS	-	-	A													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tttgacaatcagcagggatcINSataaatttgaagcaaatcgt							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr5:45262024_45262025insA	ENST00000303230.4	-	0	2728_2729					NM_021072.3	NP_066550.2	O60741	HCN1_HUMAN	hyperpolarization activated cyclic nucleotide-gated potassium channel 1						apical protein localization (GO:0045176)|cellular response to cAMP (GO:0071320)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|regulation of membrane potential (GO:0042391)|retinal cone cell development (GO:0046549)|sodium ion transmembrane transport (GO:0035725)|synaptic transmission (GO:0007268)	axon (GO:0030424)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cAMP binding (GO:0030552)|intracellular cAMP activated cation channel activity (GO:0005222)|potassium channel activity (GO:0005267)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated sodium channel activity (GO:0005248)			NS(3)|breast(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(21)|liver(1)|lung(98)|ovary(1)|prostate(7)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(5)	156						CAGCAGGGATCATAAATTTGAA	0.431																																																0																																										SO:0001567	stop_retained_variant	348980			AF064876	CCDS3952.1	5p12	2011-07-05			ENSG00000164588	ENSG00000164588		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	4845	protein-coding gene	gene with protein product		602780		BCNG1		9405696, 9630217, 16382102	Standard	NM_021072		Approved	BCNG-1, HAC-2	uc003jok.3	O60741	OTTHUMG00000131155	ENST00000303230.4:c.2672dupT	5.37:g.45262025_45262025dupA	ENSP00000307342:p.*891Leuext*35	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	INS	ENST00000303230.4	37	CCDS3952.1																																																																																				0.431	HCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253847.1	NM_021072		A	45262025	-	A	45262024	7	5	669	1	0	1	1	0	0	0	0	0	7003	837	29	0	4	0	HCN1	5	45262024	Stop_Codon_Ins	INS	-	TCGA-KN-8433-01A-11D-2310-10	10437809	45262024	135653236	55	42857	414	3								
HCN1	348980	bcgsc.ca	37	chr5	45262025	45262026	+	Stop_Codon_Ins	INS	-	-	A													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttgacaatcagcagggatcaINStaaatttgaagcaaatcgtg							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr5:45262025_45262026insA	ENST00000303230.4	-	0	2727_2728					NM_021072.3	NP_066550.2	O60741	HCN1_HUMAN	hyperpolarization activated cyclic nucleotide-gated potassium channel 1						apical protein localization (GO:0045176)|cellular response to cAMP (GO:0071320)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|regulation of membrane potential (GO:0042391)|retinal cone cell development (GO:0046549)|sodium ion transmembrane transport (GO:0035725)|synaptic transmission (GO:0007268)	axon (GO:0030424)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cAMP binding (GO:0030552)|intracellular cAMP activated cation channel activity (GO:0005222)|potassium channel activity (GO:0005267)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated sodium channel activity (GO:0005248)			NS(3)|breast(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(21)|liver(1)|lung(98)|ovary(1)|prostate(7)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(5)	156						AGCAGGGATCATAAATTTGAAG	0.431																																																0																																										SO:0001567	stop_retained_variant	348980			AF064876	CCDS3952.1	5p12	2011-07-05			ENSG00000164588	ENSG00000164588		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	4845	protein-coding gene	gene with protein product		602780		BCNG1		9405696, 9630217, 16382102	Standard	NM_021072		Approved	BCNG-1, HAC-2	uc003jok.3	O60741	OTTHUMG00000131155	ENST00000303230.4:c.2670dupT	5.37:g.45262025_45262025dupA	ENSP00000307342:p.*891Leuext*35	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	INS	ENST00000303230.4	37	CCDS3952.1																																																																																				0.431	HCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253847.1	NM_021072		A	45262026	-	A	45262025	7	5	669	1	0	1	1	0	0	0	0	0	7003	230	8	0	5	0	HCN1	5	45262025	Stop_Codon_Ins	INS	-	TCGA-KN-8433-01A-11D-2310-10	1	45262025	135653235	56	42858	414	3								
HCN1	348980	hgsc.bcm.edu;bcgsc.ca	37	chr5	45262026	45262026	+	Missense_Mutation	SNP	T	T	A													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttgacaatcagcagggatcaTaaatttgaagcaaatcgtgg							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr5:45262026T>A	ENST00000303230.4	-	8	2727	c.2670A>T	c.(2668-2670)ttA>ttT	p.L890F		NM_021072.3	NP_066550.2	O60741	HCN1_HUMAN	hyperpolarization activated cyclic nucleotide-gated potassium channel 1	890					apical protein localization (GO:0045176)|cellular response to cAMP (GO:0071320)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|regulation of membrane potential (GO:0042391)|retinal cone cell development (GO:0046549)|sodium ion transmembrane transport (GO:0035725)|synaptic transmission (GO:0007268)	axon (GO:0030424)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cAMP binding (GO:0030552)|intracellular cAMP activated cation channel activity (GO:0005222)|potassium channel activity (GO:0005267)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated sodium channel activity (GO:0005248)			NS(3)|breast(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(21)|liver(1)|lung(98)|ovary(1)|prostate(7)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(5)	156						GCAGGGATCATAAATTTGAAG	0.433																																																0													86	101	96					5																	45262026		2202	4300	6502	SO:0001583	missense	348980			AF064876	CCDS3952.1	5p12	2011-07-05			ENSG00000164588	ENSG00000164588		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	4845	protein-coding gene	gene with protein product		602780		BCNG1		9405696, 9630217, 16382102	Standard	NM_021072		Approved	BCNG-1, HAC-2	uc003jok.3	O60741	OTTHUMG00000131155	ENST00000303230.4:c.2670A>T	5.37:g.45262026T>A	ENSP00000307342:p.Leu890Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000303230.4	37	CCDS3952.1	.	.	.	.	.	.	.	.	.	.	T	16.33	3.093047	0.56075	.	.	ENSG00000164588	ENST00000303230	D	0.98550	-4.99	5.01	5.01	0.66863	.	0.000000	0.49305	D	0.000146	D	0.97439	0.9162	L	0.29908	0.895	0.41621	D	0.988966	D	0.64830	0.994	P	0.58077	0.832	D	0.98805	1.0741	10	0.87932	D	0	.	15.0368	0.71754	0.0:0.0:0.0:1.0	.	890	O60741	HCN1_HUMAN	F	890	ENSP00000307342:L890F	ENSP00000307342:L890F	L	-	3	2	HCN1	45297783	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.629000	0.54266	2.013000	0.59113	0.529000	0.55759	TTA		0.433	HCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253847.1	NM_021072		A	45262026	T	A	45262026	3	1	669	1	0	0	0	0	1	0	0	0	7003	1403	49	5	6	5	HCN1	5	45262026	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	1	45262026	135653234	57	42859	414	3								
BDP1	55814	mdanderson.org	37	chr5	70800538	70800538	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aaaatgattcttttcaaaatGtgcagccagatgagcccaag	8	8	2	3	rs3761967	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr5:70800538G>A	ENST00000358731.4	+	16	2595	c.2332G>A	c.(2332-2334)Gtg>Atg	p.V778M	BDP1_ENST00000380675.2_5'UTR	NM_018429.2	NP_060899.2	A6H8Y1	BDP1_HUMAN	B double prime 1, subunit of RNA polymerase III transcription initiation factor IIIB	778			V -> M (in dbSNP:rs3761967).		gene expression (GO:0010467)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase III promoter (GO:0006383)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			NS(2)|breast(3)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(13)|lung(34)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	72		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		TTTTCAAAATGTGCAGCCAGA	0.328													G|||	2167	0.432708	0.385	0.3444	5008	,	,		16468	0.379		0.4911	False		,,,				2504	0.5552															0								G	MET/VAL	1365,2307		257,851,728	93	85	87		2332	-3.4	0	5	dbSNP_107	87	3941,4237		979,1983,1127	yes	missense	BDP1	NM_018429.2	21	1236,2834,1855	AA,AG,GG		48.1903,37.1732,44.7764	benign	778/2625	70800538	5306,6544	1836	4089	5925	SO:0001583	missense	55814			AF298151	CCDS43328.1	5q12-q13	2008-02-05	2001-11-29	2001-11-30	ENSG00000145734	ENSG00000145734			13652	protein-coding gene	gene with protein product		607012	"TATA box binding protein (TBP)-associated factor, RNA polymerase III, GTF3B subunit 1"	TFNR, TAF3B1		11214970, 11040218	Standard	NM_018429		Approved	TFIIIB150, TFC5, TFIIIB90, KIAA1689, HSA238520, KIAA1241	uc003kbp.1	A6H8Y1	OTTHUMG00000162506	ENST00000358731.4:c.2332G>A	5.37:g.70800538G>A	ENSP00000351575:p.Val778Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DS6|Q68DY5|Q6MZL9|Q6PIM7|Q86W98|Q96LR8|Q9C0H4|Q9H197|Q9H1A1|Q9HAW1|Q9HAW2|Q9HCY0|Q9ULH9	Missense_Mutation	SNP	ENST00000358731.4	37	CCDS43328.1	911	0.41712454212454214	185	0.37601626016260165	126	0.34806629834254144	223	0.38986013986013984	377	0.4973614775725594	G	1.874	-0.459559	0.04508	0.371732	0.481903	ENSG00000145734	ENST00000358731;ENST00000437938;ENST00000451951;ENST00000444711	T	0.13538	2.58	4.48	-3.44	0.04796	.	2.140630	0.01851	N	0.035904	T	0.00012	0.0000	L	0.44542	1.39	0.58432	P	1.999999999946489E-6	B;P;B	0.39022	0.426;0.655;0.065	B;B;B	0.36719	0.14;0.231;0.052	T	0.41945	-0.9480	9	0.40728	T	0.16	.	1.3101	0.02096	0.4538:0.1427:0.2419:0.1615	rs3761967;rs56560745;rs59612064;rs3761967	778;778;778	A6H8Y1;A6H8Y1-2;A6H8Y1-4	BDP1_HUMAN;.;.	M	778;778;358;778	ENSP00000351575:V778M	ENSP00000351575:V778M	V	+	1	0	BDP1	70836294	0.000000	0.05858	0.000000	0.03702	0.007000	0.05969	-0.015000	0.12634	-0.485000	0.06754	-0.802000	0.03209	GTG		0.328	BDP1-016	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000374681.2	NM_018429		A	70800538	G	A	70800538	3	1	669	1	0	0	0	0	1	0	0	0	1395	1377	48	2	2394	2	BDP1	5	70800538	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	25538512	70800538	110114722	58	42860										
ZNF366	167465	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	71756876	71756876	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cttaatgggttcctgcttgaCgggcttgcccccaaagtgtt	11	11	0	1	rs74552129	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr5:71756876C>T	ENST00000318442.5	-	2	938	c.448G>A	c.(448-450)Gtc>Atc	p.V150I		NM_152625.1	NP_689838.1	Q8N895	ZN366_HUMAN	zinc finger protein 366	150					negative regulation of intracellular estrogen receptor signaling pathway (GO:0033147)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|response to estrogen (GO:0043627)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|estrogen receptor binding (GO:0030331)|metal ion binding (GO:0046872)|transcription corepressor activity (GO:0003714)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(9)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)	35		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		TCCTGCTTGACGGGCTTGCCC	0.637													C|||	66	0.0131789	0.0477	0.0043	5008	,	,		16704	0.0		0.0	False		,,,				2504	0.0															0								C	ILE/VAL	162,4244	109.9+/-148.2	5,152,2046	103	114	110		448	1.6	0.2	5	dbSNP_131	110	0,8600		0,0,4300	yes	missense	ZNF366	NM_152625.1	29	5,152,6346	TT,TC,CC		0.0,3.6768,1.2456	benign	150/745	71756876	162,12844	2203	4300	6503	SO:0001583	missense	167465			AK097115	CCDS4015.1	5q13.1	2013-01-08			ENSG00000178175	ENSG00000178175		"Zinc fingers, C2H2-type"	18316	protein-coding gene	gene with protein product		610159					Standard	NM_152625		Approved	FLJ39796	uc003kce.1	Q8N895	OTTHUMG00000100965	ENST00000318442.5:c.448G>A	5.37:g.71756876C>T	ENSP00000313158:p.Val150Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q5HYI9|Q7RTV4	Missense_Mutation	SNP	ENST00000318442.5	37	CCDS4015.1	24	0.01098901098901099	22	0.044715447154471545	2	0.0055248618784530384	0	0.0	0	0.0	C	0.202	-1.043765	0.01997	0.036768	0.0	ENSG00000178175	ENST00000318442	T	0.32753	1.44	5.82	1.64	0.23874	.	0.389793	0.24703	N	0.036298	T	0.02888	0.0086	N	0.11201	0.11	0.23585	N	0.997353	B	0.10296	0.003	B	0.06405	0.002	T	0.21280	-1.0250	10	0.23302	T	0.38	-26.4553	7.2969	0.26397	0.0:0.4013:0.0:0.5987	.	150	Q8N895	ZN366_HUMAN	I	150	ENSP00000313158:V150I	ENSP00000313158:V150I	V	-	1	0	ZNF366	71792632	0.922000	0.31269	0.192000	0.23308	0.174000	0.22865	1.345000	0.33953	0.304000	0.22809	0.561000	0.74099	GTC		0.637	ZNF366-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000218574.3			T	71756876	C	T	71756876	3	4	669	1	0	0	0	0	1	0	0	0	17882	536	19	1	1802	1	ZNF366	5	71756876	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	956338	71756876	109158384	59	42861										
PCDHB10	56126	mdanderson.org	37	chr5	140572820	140572820	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctctactgtacgcatcgttgTcttggacgtcaatgacaatg	9	10	3	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr5:140572820T>C	ENST00000239446.4	+	1	879	c.695T>C	c.(694-696)gTc>gCc	p.V232A		NM_018930.3	NP_061753.1	Q9UN67	PCDBA_HUMAN	protocadherin beta 10	232	Cadherin 2. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(14)|lung(30)|ovary(4)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	76			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCATCGTTGTCTTGGACGTC	0.552																																																0													75	78	77					5																	140572820		2203	4300	6503	SO:0001583	missense	56126			AF152489	CCDS4252.1	5q31.3	2010-06-15			ENSG00000120324	ENSG00000120324		"Cadherins / Protocadherins : Clustered"	8681	other	protocadherin		606336				10380929	Standard	NM_018930		Approved		uc003lix.3	Q9UN67	OTTHUMG00000129626	ENST00000239446.4:c.695T>C	5.37:g.140572820T>C	ENSP00000239446:p.Val232Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q96T99	Missense_Mutation	SNP	ENST00000239446.4	37	CCDS4252.1	.	.	.	.	.	.	.	.	.	.	T	13.41	2.229226	0.39399	.	.	ENSG00000120324	ENST00000239446	T	0.68181	-0.31	3.41	3.41	0.39046	Cadherin (4);Cadherin conserved site (1);Cadherin-like (1);	.	.	.	.	D	0.87010	0.6071	H	0.98612	4.28	0.37600	D	0.920501	D	0.61697	0.99	D	0.65573	0.936	D	0.92125	0.5707	9	0.87932	D	0	.	12.0382	0.53438	0.0:0.0:0.0:1.0	.	232	Q9UN67	PCDBA_HUMAN	A	232	ENSP00000239446:V232A	ENSP00000239446:V232A	V	+	2	0	PCDHB10	140553004	1.000000	0.71417	0.004000	0.12327	0.178000	0.23041	6.028000	0.70889	1.572000	0.49736	0.454000	0.30748	GTC		0.552	PCDHB10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251821.1	NM_018930		C	140572820	T	C	140572820	3	2	669	1	0	0	0	0	1	0	0	0	11542	1667	58	3	697	3	PCDHB10	5	140572820	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	68815944	140572820	40342440	60	42862										
ATXN1	6310	mdanderson.org	37	chr6	16327918	16327918	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgctgctgctgatgctgatgCtgctgctgctgctgctgctg	14	11	0	2	rs28555263	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr6:16327918C>A	ENST00000244769.4	-	8	1560	c.624G>T	c.(622-624)caG>caT	p.Q208H	ATXN1_ENST00000436367.1_Missense_Mutation_p.Q208H	NM_000332.3	NP_000323.2	P54253	ATX1_HUMAN	ataxin 1	208	Poly-Gln.				adult locomotory behavior (GO:0008344)|cell death (GO:0008219)|negative regulation of insulin-like growth factor receptor signaling pathway (GO:0043569)|negative regulation of phosphorylation (GO:0042326)|negative regulation of transcription, DNA-templated (GO:0045892)|nuclear export (GO:0051168)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|RNA processing (GO:0006396)|transcription, DNA-templated (GO:0006351)|visual learning (GO:0008542)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nuclear inclusion body (GO:0042405)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|identical protein binding (GO:0042802)|poly(G) binding (GO:0034046)|poly(U) RNA binding (GO:0008266)|protein C-terminus binding (GO:0008022)|protein self-association (GO:0043621)			NS(1)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(2)|kidney(3)|large_intestine(11)|lung(12)|prostate(2)|skin(7)|upper_aerodigestive_tract(2)	44	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				gatgctgatgctgctgctgct	0.662													C|||	649	0.129593	0.1437	0.1153	5008	,	,		12912	0.2044		0.0318	False		,,,				2504	0.1442															0													5	8	7					6																	16327918		1579	3505	5084	SO:0001583	missense	6310			X79204	CCDS34342.1	6p23	2014-09-17	2004-08-12	2004-08-13	ENSG00000124788	ENSG00000124788		"Ataxins"	10548	protein-coding gene	gene with protein product		601556	"spinocerebellar ataxia 1 (olivopontocerebellar ataxia 1, autosomal dominant, ataxin 1)"	SCA1		1582256	Standard	NM_000332		Approved	D6S504E, ATX1	uc010jpi.3	P54253	OTTHUMG00000014303	ENST00000244769.4:c.624G>T	6.37:g.16327918C>A	ENSP00000244769:p.Gln208His	Somatic		WXS	Illumina HiSeq	Phase_I	Q17S02|Q9UJG2|Q9Y4J1	Missense_Mutation	SNP	ENST00000244769.4	37	CCDS34342.1	.	.	.	.	.	.	.	.	.	.	C	5.901	0.350402	0.11182	.	.	ENSG00000124788	ENST00000244769;ENST00000450222;ENST00000436367	T;T	0.56103	0.48;0.48	0.0465	0.0465	0.14256	.	.	.	.	.	T	0.09158	0.0226	N	0.08118	0	0.09310	N	1	P	0.39520	0.676	B	0.36030	0.216	T	0.18493	-1.0335	8	0.13108	T	0.6	.	.	.	.	rs28555263	208	P54253	ATX1_HUMAN	H	208	ENSP00000244769:Q208H;ENSP00000416360:Q208H	ENSP00000244769:Q208H	Q	-	3	2	ATXN1	16435897	0.129000	0.22400	0.018000	0.16275	0.062000	0.15995	1.183000	0.32041	0.132000	0.18615	0.134000	0.15878	CAG		0.662	ATXN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039943.3	NM_000332		A	16327918	C	A	16327918	3	1	669	1	0	0	0	0	1	0	0	0	1209	796	28	4	1831	4	ATXN1	6	16327918	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10		16327918	154787149	61	42863										
KIAA0319	9856	mdanderson.org	37	chr6	24588884	24588884	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggtggactcagagggggctgCgctagtgggaggtgttggga	22	5	1	1	rs4504469	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr6:24588884C>T	ENST00000378214.3	-	4	1455	c.931G>A	c.(931-933)Gca>Aca	p.A311T	KIAA0319_ENST00000537886.1_Missense_Mutation_p.A311T|KIAA0319_ENST00000535378.1_Missense_Mutation_p.A302T|KIAA0319_ENST00000430948.2_Missense_Mutation_p.A266T|KIAA0319_ENST00000543707.1_Missense_Mutation_p.A311T	NM_001168375.1|NM_014809.3	NP_001161847.1|NP_055624.2	Q5VV43	K0319_HUMAN	KIAA0319	311			A -> T (may be associated with susceptibility to dyslexia; dbSNP:rs4504469). {ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:15717286}.		negative regulation of dendrite development (GO:2000171)|neuron migration (GO:0001764)	early endosome (GO:0005769)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(3)|endometrium(6)|kidney(3)|large_intestine(11)|lung(19)|ovary(1)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)	53						GAGGGGGCTGCGCTAGTGGGA	0.537													C|||	1031	0.205871	0.0371	0.2248	5008	,	,		16182	0.1121		0.4225	False		,,,				2504	0.2945															0			GRCh37	CM057333	KIAA0319	M	rs4504469	C	THR/ALA,THR/ALA,THR/ALA,THR/ALA,THR/ALA	423,3983	205.5+/-227.4	18,387,1798	153	134	140	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	904,931,796,931,931	-4.6	0	6	dbSNP_111	140	3471,5129	509.3+/-377.2	721,2029,1550	yes	missense,missense,missense,missense,missense	KIAA0319	NM_001168374.1,NM_001168375.1,NM_001168376.1,NM_001168377.1,NM_014809.3	58,58,58,58,58	739,2416,3348	TT,TC,CC		40.3605,9.6005,29.94	benign,benign,benign,benign,benign	302/1064,311/1073,266/1028,311/1012,311/1073	24588884	3894,9112	2203	4300	6503	SO:0001583	missense	9856			AB002317	CCDS34348.1, CCDS54969.1, CCDS54970.1, CCDS54971.1, CCDS75409.1	6p22.3	2013-12-13			ENSG00000137261	ENSG00000137261			21580	protein-coding gene	gene with protein product	"neuronal migration"	609269				9205841, 15514892	Standard	NM_014809		Approved	NMIG	uc003neh.1	Q5VV43	OTTHUMG00000014358	ENST00000378214.3:c.931G>A	6.37:g.24588884C>T	ENSP00000367459:p.Ala311Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A7MD37|B2RTU7|B4DHA7|B4DK75|B7ZML3|F5H123|Q9UJC8|Q9Y4G7	Missense_Mutation	SNP	ENST00000378214.3	37	CCDS34348.1	508	0.2326007326007326	20	0.04065040650406504	80	0.22099447513812154	71	0.12412587412587413	337	0.4445910290237467	C	3.297	-0.143640	0.06627	0.096005	0.403605	ENSG00000137261	ENST00000537886;ENST00000535378;ENST00000430948;ENST00000378214;ENST00000543707	T;T;T;T;T	0.06608	3.28;3.28;3.29;3.29;3.29	4.15	-4.6	0.03390	Fibronectin, type III (1);	0.966085	0.08434	N	0.946419	T	0.00440	0.0014	N	0.00500	-1.43	0.80722	P	0.0	B;B;B	0.09022	0.001;0.002;0.001	B;B;B	0.06405	0.001;0.002;0.001	T	0.47394	-0.9121	9	0.13470	T	0.59	0.5859	7.8238	0.29303	0.0:0.5077:0.1377:0.3546	rs4504469;rs52835077;rs4504469	311;302;311	F5H123;Q5VV43-2;Q5VV43	.;.;K0319_HUMAN	T	311;302;266;311;311	ENSP00000439700:A311T;ENSP00000442403:A302T;ENSP00000401086:A266T;ENSP00000367459:A311T;ENSP00000437656:A311T	ENSP00000367459:A311T	A	-	1	0	KIAA0319	24696863	0.000000	0.05858	0.000000	0.03702	0.043000	0.13939	-1.525000	0.02231	-1.160000	0.02804	-0.483000	0.04790	GCA		0.537	KIAA0319-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040009.1	NM_014809		T	24588884	C	T	24588884	3	4	669	1	0	0	0	0	1	0	0	0	8175	768	27	1	2359	1	KIAA0319	6	24588884	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	8260966	24588884	146526183	62	42864										
SLC17A4	10050	mdanderson.org	37	chr6	25776845	25776845	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgggatcctgtctgccttgcCgtttgttgttggatgtatct	12	8	2	0	rs368361659		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr6:25776845C>T	ENST00000377905.4	+	9	1129	c.1010C>T	c.(1009-1011)cCg>cTg	p.P337L	SLC17A4_ENST00000439485.2_Missense_Mutation_p.P107L|SLC17A4_ENST00000397076.2_Missense_Mutation_p.P107L	NM_005495.2	NP_005486.1	Q9Y2C5	S17A4_HUMAN	solute carrier family 17, member 4	337					phosphate ion transmembrane transport (GO:0035435)|phosphate-containing compound metabolic process (GO:0006796)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	sodium:phosphate symporter activity (GO:0005436)	p.P337R(1)|p.P337Q(1)		breast(4)|endometrium(1)|kidney(4)|large_intestine(3)|lung(21)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	39						TCTGCCTTGCCGTTTGTTGTT	0.507																																																2	Substitution - Missense(2)	upper_aerodigestive_tract(1)|lung(1)						C	LEU/PRO	0,4406		0,0,2203	281	264	270		1010	3.8	0.6	6		270	1,8599	1.2+/-3.3	0,1,4299	no	missense	SLC17A4	NM_005495.2	98	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	337/498	25776845	1,13005	2203	4300	6503	SO:0001583	missense	10050			AB020527	CCDS4564.1, CCDS75411.1	6p22.2	2013-07-18	2013-07-18		ENSG00000146039	ENSG00000146039		"Solute carriers"	10932	protein-coding gene	gene with protein product		604216	"solute carrier family 17 (sodium phosphate), member 4"			10319585	Standard	NM_005495		Approved	KIAA2138	uc003nfe.3	Q9Y2C5	OTTHUMG00000014410	ENST00000377905.4:c.1010C>T	6.37:g.25776845C>T	ENSP00000367137:p.Pro337Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DDV9|E7EPE8|E7EU17|Q32MB7|Q32MB8	Missense_Mutation	SNP	ENST00000377905.4	37	CCDS4564.1	.	.	.	.	.	.	.	.	.	.	C	19.90	3.912191	0.72983	0.0	1.16E-4	ENSG00000146039	ENST00000377905;ENST00000439485;ENST00000397076	T;T;T	0.57907	0.41;0.44;0.37	5.63	3.75	0.43078	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.405156	0.21226	N	0.078063	T	0.64103	0.2568	M	0.89658	3.05	0.54753	D	0.999988	P;D;D	0.71674	0.895;0.998;0.973	B;P;D	0.63113	0.299;0.867;0.911	T	0.69243	-0.5196	10	0.66056	D	0.02	.	8.5883	0.33670	0.0:0.8318:0.0:0.1682	.	107;107;337	E7EPE8;E7EU17;Q9Y2C5	.;.;S17A4_HUMAN	L	337;107;107	ENSP00000367137:P337L;ENSP00000391345:P107L;ENSP00000380266:P107L	ENSP00000367137:P337L	P	+	2	0	SLC17A4	25884824	0.985000	0.35326	0.579000	0.28588	0.949000	0.60115	2.671000	0.46842	0.761000	0.33130	0.655000	0.94253	CCG		0.507	SLC17A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040068.1			T	25776845	C	T	25776845	3	4	669	1	0	0	0	0	1	0	0	0	14432	652	23	1	1040	1	SLC17A4	6	25776845	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	1187961	25776845	145338222	63	42865										
ZNF323	64288	mdanderson.org;bcgsc.ca	37	chr6	28294148	28294148	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgtgtatcctctgatgctgaAcaaggcatgagctgaggagg	14	7	1	4			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr6:28294148A>G	ENST00000414429.1	-	8	1919	c.1016T>C	c.(1015-1017)gTt>gCt	p.V339A	ZSCAN31_ENST00000344279.6_Missense_Mutation_p.V339A|ZSCAN31_ENST00000439158.1_Missense_Mutation_p.V339A|ZSCAN31_ENST00000396838.2_Missense_Mutation_p.V339A|ZSCAN31_ENST00000446474.1_Missense_Mutation_p.V180A|ZSCAN31_ENST00000481934.1_5'UTR			Q96LW9	ZSC31_HUMAN	zinc finger and SCAN domain containing 31	339					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)										CTGATGCTGAACAAGGCATGA	0.507																																																0													204	187	193					6																	28294148		2203	4300	6503	SO:0001583	missense	64288				CCDS4649.1, CCDS59001.1	6p	2013-01-09	2013-01-08	2013-01-08	ENSG00000235109	ENSG00000235109		"-", "Zinc fingers, C2H2-type"	14097	protein-coding gene	gene with protein product		610794	"zinc finger protein 310 pseudogene", "zinc finger protein 323"	ZNF310P, ZNF323			Standard	NM_001135216		Approved		uc003nla.3	Q96LW9	OTTHUMG00000014518	ENST00000414429.1:c.1016T>C	6.37:g.28294148A>G	ENSP00000390076:p.Val339Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P178|Q8WWS5	Missense_Mutation	SNP	ENST00000414429.1	37	CCDS4649.1	.	.	.	.	.	.	.	.	.	.	A	12.27	1.888102	0.33348	.	.	ENSG00000235109	ENST00000396838;ENST00000439158;ENST00000414429;ENST00000446474;ENST00000344279;ENST00000435857	T;T;T;T;T;T	0.07021	3.27;3.27;3.27;3.27;3.27;3.23	5.06	2.58	0.30949	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.01627	0.0052	N	0.13299	0.325	0.09310	N	1	B	0.13594	0.008	B	0.28849	0.095	T	0.48317	-0.9046	9	0.40728	T	0.16	.	4.9539	0.14029	0.6774:0.1578:0.1649:0.0	.	339	Q96LW9	ZN323_HUMAN	A	339;339;339;180;339;180	ENSP00000380050:V339A;ENSP00000413705:V339A;ENSP00000390076:V339A;ENSP00000402937:V180A;ENSP00000345339:V339A;ENSP00000391235:V180A	ENSP00000345339:V339A	V	-	2	0	ZNF323	28402127	0.000000	0.05858	0.088000	0.20740	0.868000	0.49771	-0.372000	0.07504	0.314000	0.23086	0.528000	0.53228	GTT		0.507	ZSCAN31-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346804.1	NM_030899		G	28294148	A	G	28294148	3	3	669	1	0	0	0	0	1	0	0	0	17855	43	2	3	208	3	ZNF323	6	28294148	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	2517303	28294148	142820919	64	42866										
HLA-C	3107	mdanderson.org	37	chr6	31238942	31238942	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aggctctcagctgctccgccGcacgggccgcctccaacttg	11	18	1	0	rs2308590	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr6:31238942G>A	ENST00000376228.5	-	3	541	c.527C>T	c.(526-528)gCg>gTg	p.A176V	HLA-C_ENST00000383329.3_Missense_Mutation_p.A176V	NM_002117.5	NP_002108.4	Q95604	1C17_HUMAN	major histocompatibility complex, class I, C	176	Alpha-2.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(4)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)	17						CTGCTCCGCCGCACGGGCCGC	0.677													g|||	1486	0.296725	0.3631	0.3098	5008	,	,		10558	0.244		0.2763	False		,,,				2504	0.273															0													35	23	27					6																	31238942		2189	4271	6460	SO:0001583	missense	3107			M11886	CCDS34393.1	6p21.3	2014-01-30			ENSG00000204525	ENSG00000204525		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4933	protein-coding gene	gene with protein product		142840	"psoriasis susceptibility 1"	HLA-JY3, D6S204, PSORS1		3863816, 16642438	Standard	NM_001243042		Approved		uc003nsy.3	P04222	OTTHUMG00000031154	ENST00000376228.5:c.527C>T	6.37:g.31238942G>A	ENSP00000365402:p.Ala176Val	Somatic		WXS	Illumina HiSeq	Phase_I	O02864|O02958|Q29643|Q9MY30	Missense_Mutation	SNP	ENST00000376228.5	37	CCDS34393.1	1225	0.5608974358974359	287	0.5833333333333334	201	0.5552486187845304	344	0.6013986013986014	393	0.5184696569920845	.	0.893	-0.724867	0.03158	.	.	ENSG00000204525	ENST00000376228;ENST00000383329;ENST00000396254;ENST00000539307	T;T	0.00009	9.46;9.46	2.81	-5.62	0.02481	MHC class I, alpha chain, alpha1/alpha2 (1);MHC classes I/II-like antigen recognition protein (1);MHC class I-like antigen recognition (1);	75.637500	0.00166	N	0.000000	T	0.00012	0.0000	N	0.00044	-2.455	0.09310	N	1	B;B;B;B	0.06786	0.001;0.0;0.001;0.0	B;B;B;B	0.10450	0.005;0.003;0.005;0.003	T	0.50110	-0.8866	10	0.25106	T	0.35	.	2.3839	0.04361	0.2515:0.0841:0.3977:0.2666	rs2308590;rs9264656;rs17839940	176;176;176;176	A2AEA4;A6H578;A2AEA2;P10321	.;.;.;1C07_HUMAN	V	176;176;176;213	ENSP00000365402:A176V;ENSP00000372819:A176V	ENSP00000365402:A176V	A	-	2	0	HLA-C	31346921	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-15.955000	0.00000	-4.565000	0.00042	-3.123000	0.00061	GCG		0.677	HLA-C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076281.3	NM_002117		A	31238942	G	A	31238942	3	1	669	1	0	0	0	0	1	0	0	0	7204	1087	38	1	597	1	HLA-C	6	31238942	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	2944794	31238942	139876125	65	42867			1	111		3	3	602	N	G_CG_C	1.098398e-05
HLA-C	3107	mdanderson.org	37	chr6	31239518	31239518	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggcgcccgcggctcccctctCggactcgcggcgtcgctgtc	14	19	1	0	rs1050420	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr6:31239518C>T	ENST00000376228.5	-	2	215	c.201G>A	c.(199-201)ccG>ccA	p.P67P	HLA-C_ENST00000383329.3_Silent_p.P67P	NM_002117.5	NP_002108.4	Q95604	1C17_HUMAN	major histocompatibility complex, class I, C	67	Alpha-1.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(4)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)	17						GCTCCCCTCTCGGACTCGCGG	0.701													t|||	2230	0.445288	0.5363	0.513	5008	,	,		12078	0.2808		0.4314	False		,,,				2504	0.4581															0								T		1449,1571		354,741,415	38	40	39		201	-0.2	0	6	dbSNP_86	39	2233,3179		465,1303,938	no	coding-synonymous	HLA-C	NM_002117.5		819,2044,1353	TT,TC,CC		41.2602,47.9801,43.667		67/367	31239518	3682,4750	1510	2706	4216	SO:0001819	synonymous_variant	3107			M11886	CCDS34393.1	6p21.3	2014-01-30			ENSG00000204525	ENSG00000204525		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4933	protein-coding gene	gene with protein product		142840	"psoriasis susceptibility 1"	HLA-JY3, D6S204, PSORS1		3863816, 16642438	Standard	NM_001243042		Approved		uc003nsy.3	P04222	OTTHUMG00000031154	ENST00000376228.5:c.201G>A	6.37:g.31239518C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O02864|O02958|Q29643|Q9MY30	Silent	SNP	ENST00000376228.5	37	CCDS34393.1	910	0.4166666666666667	245	0.49796747967479676	195	0.5386740331491713	155	0.270979020979021	315	0.4155672823218997	-	6.921	0.539543	0.13250	0.479801	0.412602	ENSG00000204525	ENST00000415537	.	.	.	2.81	-0.177	0.13307	.	.	.	.	.	T	0.11793	0.0287	.	.	.	0.51233	P	8.699999999994823E-5	.	.	.	.	.	.	T	0.24476	-1.0159	3	.	.	.	.	3.289	0.06942	0.0:0.5067:0.2214:0.2719	rs1050420;rs2308551;rs3173347;rs16868214;rs17849592	.	.	.	K	67	.	.	E	-	1	0	HLA-C	31347497	0.000000	0.05858	0.001000	0.08648	0.023000	0.10783	-0.011000	0.12721	-0.051000	0.13334	-0.679000	0.03777	GAG		0.701	HLA-C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076281.3	NM_002117		T	31239518	C	T	31239518	2	4	669	1	0	0	0	0	0	0	0	1	7204	871	31	1		1	HLA-C	6	31239518	Silent	SNP	C	TCGA-KN-8433-01A-11D-2310-10	576	31239518	139875549	66	42868			1	111		3	3	602	N	G_CG_C	1.098398e-05
HLA-C	3107	mdanderson.org	37	chr6	31239543	31239544	+	Missense_Mutation	DNP	CG	CG	TT													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tcgcggcgtcgctgtcgaacCgcacgaactgcgtgtcgtcc					rs1050428|rs281860356	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	CG	CG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr6:31239543_31239544CG>TT	ENST00000376228.5	-	2	189_190	c.175_176CG>AA	c.(175-177)CGg>AAg	p.R59K	HLA-C_ENST00000383329.3_Missense_Mutation_p.R59K	NM_002117.5	NP_002108.4	Q95604	1C17_HUMAN	major histocompatibility complex, class I, C	59	Alpha-1.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(4)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)	17						GCTGTCGAACCGCACGAACTGC	0.678																																																0																																										SO:0001583	missense	3107			M11886	CCDS34393.1	6p21.3	2014-01-30			ENSG00000204525	ENSG00000204525		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4933	protein-coding gene	gene with protein product		142840	"psoriasis susceptibility 1"	HLA-JY3, D6S204, PSORS1		3863816, 16642438	Standard	NM_001243042		Approved		uc003nsy.3	P04222	OTTHUMG00000031154	ENST00000376228.5:c.175_176delinsTT	6.37:g.31239543_31239544delinsTT	ENSP00000365402:p.Arg59Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O02864|O02958|Q29643|Q9MY30	Silent	DNP	ENST00000376228.5	37	CCDS34393.1																																																																																				0.678	HLA-C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076281.3	NM_002117		TT	31239544	CG	TT	31239543	3	4	669	1	0	0	0	0	1	0	0	0	7204	652	23	1	952	1	HLA-C	6	31239543	Missense_Mutation	DNP	CG	TCGA-KN-8433-01A-11D-2310-10	25	31239543	139875524	67	42869			1	111		3	3	602	N	G_CG_C	1.098398e-05
RUNX2	860	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	45405707	45405707	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	agagtttcaccttgaccataAccgtcttcacaaatcctccc	4	15	3	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr6:45405707A>G	ENST00000371438.1	+	4	962	c.604A>G	c.(604-606)Acc>Gcc	p.T202A	RUNX2_ENST00000352853.5_Missense_Mutation_p.T270A|RUNX2_ENST00000359524.5_Missense_Mutation_p.T188A|RUNX2_ENST00000465038.2_Missense_Mutation_p.T202A|RUNX2_ENST00000576263.1_Missense_Mutation_p.T202A|RUNX2_ENST00000371436.6_Missense_Mutation_p.T202A|RUNX2_ENST00000541979.1_Missense_Mutation_p.T270A|RUNX2_ENST00000371432.3_Missense_Mutation_p.T188A	NM_001024630.3	NP_001019801.3	Q13950	RUNX2_HUMAN	runt-related transcription factor 2	202	Runt. {ECO:0000255|PROSITE- ProRule:PRU00399}.				BMP signaling pathway (GO:0030509)|cell maturation (GO:0048469)|cellular response to BMP stimulus (GO:0071773)|chondrocyte development (GO:0002063)|embryonic cranial skeleton morphogenesis (GO:0048701)|embryonic forelimb morphogenesis (GO:0035115)|endochondral ossification (GO:0001958)|gene expression (GO:0010467)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription, DNA-templated (GO:0045892)|odontogenesis of dentin-containing tooth (GO:0042475)|ossification (GO:0001503)|osteoblast development (GO:0002076)|osteoblast differentiation (GO:0001649)|osteoblast fate commitment (GO:0002051)|positive regulation of cell proliferation (GO:0008284)|positive regulation of chondrocyte differentiation (GO:0032332)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus (GO:1901522)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of fibroblast growth factor receptor signaling pathway (GO:0040036)|regulation of odontogenesis of dentin-containing tooth (GO:0042487)|stem cell differentiation (GO:0048863)|T cell differentiation (GO:0030217)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|endometrium(2)|kidney(1)|large_intestine(5)|liver(1)|lung(18)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	34						CTTGACCATAACCGTCTTCAC	0.398																																																0			GRCh37	CD053603	RUNX2	D							182	187	185					6																	45405707		2203	4300	6503	SO:0001583	missense	860			AF001450	CCDS43467.1, CCDS43468.1, CCDS43467.2, CCDS43468.2	6p21	2010-08-20			ENSG00000124813	ENSG00000124813			10472	protein-coding gene	gene with protein product		600211		CCD, CBFA1, CCD1		7835892	Standard	NM_001024630		Approved	AML3, PEBP2A1, PEBP2aA1	uc011dvx.2	Q13950	OTTHUMG00000014774	ENST00000371438.1:c.604A>G	6.37:g.45405707A>G	ENSP00000360493:p.Thr202Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O14614|O14615|O95181	Missense_Mutation	SNP	ENST00000371438.1	37	CCDS43467.2	.	.	.	.	.	.	.	.	.	.	A	20.6	4.022536	0.75275	.	.	ENSG00000124813	ENST00000465038;ENST00000352853;ENST00000541979;ENST00000371438;ENST00000371436;ENST00000359524;ENST00000371432	D;D;D;D;D;D;D	0.99436	-5.9;-5.9;-5.9;-5.9;-5.9;-5.9;-5.9	5.4	5.4	0.78164	Acute myeloid leukemia 1 (AML 1)/Runt (2);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.000000	0.85682	D	0.000000	D	0.99548	0.9838	M	0.87758	2.905	0.80722	D	1	D;D;P	0.64830	0.992;0.994;0.693	D;D;P	0.85130	0.993;0.997;0.662	D	0.98173	1.0453	10	0.87932	D	0	-7.2818	15.7246	0.77743	1.0:0.0:0.0:0.0	.	270;202;188	F6RGB9;Q13950;Q13950-2	.;RUNX2_HUMAN;.	A	202;270;270;202;202;188;188	ENSP00000420707:T202A;ENSP00000319087:T270A;ENSP00000446290:T270A;ENSP00000360493:T202A;ENSP00000360491:T202A;ENSP00000352514:T188A;ENSP00000360486:T188A	ENSP00000319087:T270A	T	+	1	0	RUNX2	45513685	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	9.283000	0.95860	2.161000	0.67846	0.482000	0.46254	ACC		0.398	RUNX2-003	KNOWN	not_organism_supported|upstream_ATG|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040755.2	NM_004348		G	45405707	A	G	45405707	3	3	669	1	0	0	0	0	1	0	0	0	13761	43	2	3	634	3	RUNX2	6	45405707	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	14166164	45405707	125709360	68	42870										
ENPP5	59084	mdanderson.org	37	chr6	46133228	46133228	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgtaatgccacctttctggaAcgtcttcttttttgtaaaca	6	9	3	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr6:46133228A>G	ENST00000371383.2	-	4	1162	c.902T>C	c.(901-903)gTt>gCt	p.V301A	ENPP5_ENST00000492313.1_5'UTR|ENPP5_ENST00000230565.3_Missense_Mutation_p.V301A					ectonucleotide pyrophosphatase/phosphodiesterase 5 (putative)											endometrium(3)|kidney(1)|large_intestine(3)|lung(4)|upper_aerodigestive_tract(1)	12						CCTTTCTGGAACGTCTTCTTT	0.398																																																0													234	199	211					6																	46133228		2203	4300	6503	SO:0001583	missense	59084			AL035701	CCDS4915.1	6p21.1-p11.2	2010-06-24	2010-06-24		ENSG00000112796	ENSG00000112796			13717	protein-coding gene	gene with protein product						11027689	Standard	XM_005249259		Approved		uc003oxz.1	Q9UJA9	OTTHUMG00000014781	ENST00000371383.2:c.902T>C	6.37:g.46133228A>G	ENSP00000360436:p.Val301Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000371383.2	37	CCDS4915.1	.	.	.	.	.	.	.	.	.	.	A	15.29	2.790630	0.50102	.	.	ENSG00000112796	ENST00000371383;ENST00000230565	T;T	0.72615	-0.67;-0.67	5.64	5.64	0.86602	Alkaline-phosphatase-like, core domain (1);	0.166514	0.51477	D	0.000088	T	0.57651	0.2068	M	0.73430	2.235	0.23391	N	0.99777	B;B	0.29955	0.263;0.123	B;B	0.29440	0.102;0.102	T	0.60094	-0.7330	10	0.87932	D	0	-9.7515	12.4049	0.55434	0.8743:0.0:0.0:0.1257	.	301;301	A8K9X7;Q9UJA9	.;ENPP5_HUMAN	A	301	ENSP00000360436:V301A;ENSP00000230565:V301A	ENSP00000230565:V301A	V	-	2	0	ENPP5	46241187	1.000000	0.71417	1.000000	0.80357	0.594000	0.36715	8.334000	0.90028	2.272000	0.75746	0.460000	0.39030	GTT		0.398	ENPP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040779.2			G	46133228	A	G	46133228	3	3	669	1	0	0	0	0	1	0	0	0	5135	43	2	3	539	3	ENPP5	6	46133228	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	727521	46133228	124981839	69	42871										
RIMS1	22999	ucsc.edu;mdanderson.org	37	chr6	72974700	72974700	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	atcttgttaggcactataaaAcattacctcccaagatgcct	5	11	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr6:72974700A>G	ENST00000521978.1	+	20	3139	c.3139A>G	c.(3139-3141)Aca>Gca	p.T1047A	RIMS1_ENST00000517960.1_Intron|RIMS1_ENST00000520567.1_Intron|RIMS1_ENST00000425662.2_Intron|RIMS1_ENST00000522291.1_Intron|RIMS1_ENST00000264839.7_Missense_Mutation_p.T1047A|RIMS1_ENST00000518273.1_Intron|RIMS1_ENST00000517827.1_Intron|RIMS1_ENST00000401910.3_Intron|RIMS1_ENST00000523963.1_Intron|RIMS1_ENST00000538414.1_Intron|RIMS1_ENST00000491071.2_Intron|RIMS1_ENST00000348717.5_Intron	NM_014989.5	NP_055804.2	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1047					calcium ion-dependent exocytosis (GO:0017156)|calcium ion-dependent exocytosis of neurotransmitter (GO:0048791)|glutamate secretion (GO:0014047)|intracellular protein transport (GO:0006886)|membrane fusion (GO:0061025)|neurotransmitter secretion (GO:0007269)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of gene expression (GO:0010628)|positive regulation of inhibitory postsynaptic membrane potential (GO:0097151)|protein complex assembly (GO:0006461)|regulated secretory pathway (GO:0045055)|regulation of catalytic activity (GO:0050790)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of neurotransmitter secretion (GO:0046928)|response to stimulus (GO:0050896)|secretion (GO:0046903)|synaptic transmission (GO:0007268)|synaptic vesicle exocytosis (GO:0016079)|visual perception (GO:0007601)	cell junction (GO:0030054)|plasma membrane (GO:0005886)|presynaptic active zone (GO:0048786)|presynaptic membrane (GO:0042734)	metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|Rab GTPase binding (GO:0017137)|small GTPase regulator activity (GO:0005083)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(25)|liver(4)|lung(35)|ovary(9)|pancreas(3)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	102		all_epithelial(107;0.179)|all_hematologic(105;0.212)				GCACTATAAAACATTACCTCC	0.363																																																0													55	51	53					6																	72974700		1846	4089	5935	SO:0001583	missense	22999			AB002338	CCDS47449.1, CCDS55029.1, CCDS55030.1, CCDS55031.1, CCDS55032.1, CCDS55033.1	6q12-q13	2008-10-16	2002-06-12	2002-06-14	ENSG00000079841	ENSG00000079841			17282	protein-coding gene	gene with protein product	"Rab3-interacting molecule"	606629	"RAB3 interacting protein 2"	RAB3IP2, CORD7		9205841, 11438518	Standard	NM_001168407		Approved	RIM, KIAA0340, RIM1	uc003pga.4	Q86UR5	OTTHUMG00000015009	ENST00000521978.1:c.3139A>G	6.37:g.72974700A>G	ENSP00000428417:p.Thr1047Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A7MBN6|B7Z2M0|B7Z2Q9|B7Z3S3|B7Z6S2|E7EX08|E9PCB7|E9PCZ1|E9PF48|E9PHF5|E9PHR1|O15048|Q5JY21|Q5JY25|Q5SZK1|Q8TDY9|Q8TDZ5|Q9HBA1|Q9HBA2|Q9HBA3|Q9HBA4|Q9HBA5|Q9HBA6	Missense_Mutation	SNP	ENST00000521978.1	37	CCDS47449.1	.	.	.	.	.	.	.	.	.	.	A	14.87	2.665269	0.47677	.	.	ENSG00000079841	ENST00000350827;ENST00000264839;ENST00000521978	T;T	0.13901	2.6;2.55	5.76	5.76	0.90799	.	0.140657	0.31507	N	0.007539	T	0.02418	0.0074	N	0.08118	0	0.80722	D	1	B	0.26902	0.163	B	0.23852	0.049	T	0.21211	-1.0252	10	0.06236	T	0.91	-7.5353	16.0796	0.80995	1.0:0.0:0.0:0.0	.	1047	Q86UR5	RIMS1_HUMAN	A	1047	ENSP00000264839:T1047A;ENSP00000428417:T1047A	ENSP00000264839:T1047A	T	+	1	0	RIMS1	73031421	1.000000	0.71417	1.000000	0.80357	0.935000	0.57460	4.575000	0.60908	2.199000	0.70637	0.477000	0.44152	ACA		0.363	RIMS1-011	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374968.1			G	72974700	A	G	72974700	3	3	669	1	0	0	0	0	1	0	0	0	13380	43	2	3	3380	3	RIMS1	6	72974700	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	26841472	72974700	98140367	70	42872										
HSF2	3298	mdanderson.org	37	chr6	122743949	122743949	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tcagagtggagagcagaatgAaccagccagagaatccctaa	11	9	1	5			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr6:122743949A>G	ENST00000368455.4	+	9	1109	c.917A>G	c.(916-918)gAa>gGa	p.E306G	HSF2_ENST00000452194.1_Missense_Mutation_p.E306G	NM_004506.3	NP_004497.1	Q03933	HSF2_HUMAN	heat shock transcription factor 2	306					positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|response to stress (GO:0006950)|spermatogenesis (GO:0007283)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	RNA polymerase II intronic transcription regulatory region sequence-specific DNA binding (GO:0001162)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)			large_intestine(4)|lung(6)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	16				OV - Ovarian serous cystadenocarcinoma(136;0.00371)|all cancers(137;0.0299)|GBM - Glioblastoma multiforme(226;0.0586)		GAGCAGAATGAACCAGCCAGA	0.468																																																0													108	94	99					6																	122743949		2203	4300	6503	SO:0001583	missense	3298			M65217	CCDS5124.1, CCDS47470.1	6q22	2008-08-29			ENSG00000025156	ENSG00000025156			5225	protein-coding gene	gene with protein product		140581				1871106	Standard	NM_004506		Approved		uc003pyu.2	Q03933	OTTHUMG00000016216	ENST00000368455.4:c.917A>G	6.37:g.122743949A>G	ENSP00000357440:p.Glu306Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DGJ4|Q0VAH9|Q2M1K4|Q9H445	Missense_Mutation	SNP	ENST00000368455.4	37	CCDS5124.1	.	.	.	.	.	.	.	.	.	.	A	12.65	2.002753	0.35320	.	.	ENSG00000025156	ENST00000368455;ENST00000452194	.	.	.	4.98	3.82	0.43975	Vertebrate heat shock transcription factor (1);	0.563006	0.18859	N	0.129191	T	0.33000	0.0848	L	0.47716	1.5	0.38855	D	0.956352	B;B	0.27068	0.167;0.109	B;B	0.30943	0.085;0.122	T	0.15521	-1.0434	9	0.33940	T	0.23	-6.8951	9.5176	0.39115	0.9198:0.0:0.0802:0.0	.	306;306	Q03933-2;Q03933	.;HSF2_HUMAN	G	306	.	ENSP00000357440:E306G	E	+	2	0	HSF2	122785648	0.998000	0.40836	0.967000	0.41034	0.855000	0.48748	2.539000	0.45718	1.031000	0.39867	0.533000	0.62120	GAA		0.468	HSF2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043520.1	NM_004506		G	122743949	A	G	122743949	3	3	669	1	0	0	0	0	1	0	0	0	7403	246	9	3	951	3	HSF2	6	122743949	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	49769249	122743949	48371118	71	42873										
LPA	4018	mdanderson.org	37	chr6	160952770	160952770	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctcccgtccaattaattattTctcatcattccctcaatcca	1	15	3	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr6:160952770T>C	ENST00000316300.5	-	39	6158	c.6114A>G	c.(6112-6114)agA>agG	p.R2038R	LPA_ENST00000447678.1_Silent_p.R2038R			P08519	APOA_HUMAN	lipoprotein, Lp(a)	4546	Kringle 18. {ECO:0000255|PROSITE- ProRule:PRU00121}.				blood circulation (GO:0008015)|lipid metabolic process (GO:0006629)|lipid transport (GO:0006869)|lipoprotein metabolic process (GO:0042157)|negative regulation of endopeptidase activity (GO:0010951)|receptor-mediated endocytosis (GO:0006898)|small molecule metabolic process (GO:0044281)	extracellular region (GO:0005576)|plasma lipoprotein particle (GO:0034358)	apolipoprotein binding (GO:0034185)|endopeptidase inhibitor activity (GO:0004866)|fibronectin binding (GO:0001968)|heparin binding (GO:0008201)|serine-type endopeptidase activity (GO:0004252)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(16)|lung(54)|ovary(4)|pancreas(1)|prostate(2)|skin(10)|stomach(1)|urinary_tract(1)	107		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)	ATTAATTATTTCTCATCATTC	0.438																																																0													144	132	136					6																	160952770		2203	4300	6503	SO:0001819	synonymous_variant	4018			X06290	CCDS43523.1	6q25-q26	2012-10-02			ENSG00000198670	ENSG00000198670			6667	protein-coding gene	gene with protein product		152200		LP		3670400	Standard	NM_005577		Approved		uc003qtl.3	P08519	OTTHUMG00000015956	ENST00000316300.5:c.6114A>G	6.37:g.160952770T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VTD7|Q9UD88	Silent	SNP	ENST00000316300.5	37	CCDS43523.1																																																																																				0.438	LPA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042957.1	NM_005577		C	160952770	T	C	160952770	2	2	669	1	0	0	0	0	0	0	0	1	8910	1780	62	3		3	LPA	6	160952770	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	38208821	160952770	10162297	72	42874										
UNC93A	54346	mdanderson.org	37	chr6	167728774	167728774	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cattgccttcgggtacagcaTgtttttgtgcgtgcacgtca	11	10	1	0	rs663606|rs71545154	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr6:167728774T>C	ENST00000230256.3	+	8	1383	c.1208T>C	c.(1207-1209)aTg>aCg	p.M403T	UNC93A_ENST00000366829.2_Missense_Mutation_p.M361T	NM_018974.3	NP_061847.2	Q86WB7	UN93A_HUMAN	unc-93 homolog A (C. elegans)	403			M -> I (in dbSNP:rs9459921).|M -> T (in dbSNP:rs663606). {ECO:0000269|PubMed:12381271}.			integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(2)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(7)|lung(20)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	40		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		GGGTACAGCATGTTTTTGTGC	0.577													C|||	3911	0.78095	0.9599	0.5865	5008	,	,		16443	0.8085		0.6252	False		,,,				2504	0.8088															0													85	139	121					6																	167728774		2203	4293	6496	SO:0001583	missense	54346			AJ508812	CCDS5300.1, CCDS47515.1	6q27	2014-05-16	2001-11-28		ENSG00000112494	ENSG00000112494			12570	protein-coding gene	gene with protein product		607995	"unc93 (C.elegans) homolog A"			12381271	Standard	NM_001143947		Approved	dJ366N23.2, dJ366N23.1	uc003qvq.3	Q86WB7	OTTHUMG00000016021	ENST00000230256.3:c.1208T>C	6.37:g.167728774T>C	ENSP00000230256:p.Met403Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRP5|Q4QQJ4|Q5JZD6	Missense_Mutation	SNP	ENST00000230256.3	37	CCDS5300.1	1388	0.6355311355311355	393	0.7987804878048781	189	0.5220994475138122	411	0.7185314685314685	395	0.521108179419525	C	0	-2.720806	0.00092	.	.	ENSG00000112494	ENST00000230256;ENST00000366829	T;T	0.79940	-1.32;-1.32	3.86	2.97	0.34412	Major facilitator superfamily domain, general substrate transporter (1);	0.177325	0.48286	N	0.000189	T	0.13756	0.0333	N	0.00026	-2.67	0.80722	P	0.0	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.12167	-1.0558	9	0.08837	T	0.75	-2.8542	9.2044	0.37280	0.0:0.814:0.0:0.186	rs663606;rs7759897;rs58365775	361;403	Q4QQJ4;Q86WB7	.;UN93A_HUMAN	T	403;361	ENSP00000230256:M403T;ENSP00000355794:M361T	ENSP00000230256:M403T	M	+	2	0	UNC93A	167648764	0.266000	0.24112	0.055000	0.19348	0.010000	0.07245	0.526000	0.22971	0.255000	0.21593	-0.355000	0.07637	ATG		0.577	UNC93A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043125.2	NM_018974		C	167728774	T	C	167728774	3	2	669	1	0	0	0	0	1	0	0	0	17008	1464	51	3	1238	3	UNC93A	6	167728774	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	6776004	167728774	3386293	73	42875										
MICALL2	79778	mdanderson.org	37	chr7	1498910	1498910	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgcagatattcacgtcgcggTagccctcgcactgctgccgg	12	14	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr7:1498910T>C	ENST00000297508.7	-	1	228	c.53A>G	c.(52-54)tAc>tGc	p.Y18C	MICALL2_ENST00000405088.4_Missense_Mutation_p.Y18C|AC102953.4_ENST00000445345.1_RNA	NM_182924.3	NP_891554.1	Q8IY33	MILK2_HUMAN	MICAL-like 2	18	CH. {ECO:0000255|PROSITE- ProRule:PRU00044}.|Forms an intramolecular interaction with the C-terminal coiled coil domain keeping the protein in a closed conformation. {ECO:0000250}.				actin cytoskeleton reorganization (GO:0031532)|actin filament polymerization (GO:0030041)|endocytic recycling (GO:0032456)|neuron projection development (GO:0031175)|substrate adhesion-dependent cell spreading (GO:0034446)|tight junction assembly (GO:0070830)	cell-cell junction (GO:0005911)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)|recycling endosome (GO:0055037)|stress fiber (GO:0001725)|tight junction (GO:0005923)	actin filament binding (GO:0051015)|filamin binding (GO:0031005)|zinc ion binding (GO:0008270)			breast(3)|central_nervous_system(1)|endometrium(1)|kidney(2)|lung(8)|ovary(2)|skin(2)	19		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;6.01e-15)		CACGTCGCGGTAGCCCTCGCA	0.692																																																0													62	54	57					7																	1498910		2198	4300	6498	SO:0001583	missense	79778			BC037988	CCDS5324.1	7p22.3	2006-11-24			ENSG00000164877	ENSG00000164877			29672	protein-coding gene	gene with protein product	"junctional Rab13-binding protein"					12110185, 16525024	Standard	NM_182924		Approved	MGC46023, FLJ23471, MICAL-L2, JRAB	uc003skj.4	Q8IY33	OTTHUMG00000119021	ENST00000297508.7:c.53A>G	7.37:g.1498910T>C	ENSP00000297508:p.Tyr18Cys	Somatic		WXS	Illumina HiSeq	Phase_I	D3YTD2|Q7RTP4|Q7Z655|Q8TEQ4|Q9H5F9	Missense_Mutation	SNP	ENST00000297508.7	37	CCDS5324.1	.	.	.	.	.	.	.	.	.	.	T	26.2	4.712639	0.89112	.	.	ENSG00000164877	ENST00000405088;ENST00000297508	T;D	0.95377	0.47;-3.69	3.76	3.76	0.43208	Calponin homology domain (5);	.	.	.	.	D	0.98651	0.9548	H	0.99357	4.53	0.36009	D	0.837893	D	0.89917	1.0	D	0.97110	1.0	D	0.99947	1.1482	9	0.87932	D	0	.	12.1034	0.53798	0.0:0.0:0.0:1.0	.	18	Q8IY33	MILK2_HUMAN	C	18	ENSP00000385928:Y18C;ENSP00000297508:Y18C	ENSP00000297508:Y18C	Y	-	2	0	MICALL2	1465436	1.000000	0.71417	1.000000	0.80357	0.922000	0.55478	5.802000	0.69122	1.339000	0.45563	0.260000	0.18958	TAC		0.692	MICALL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239223.2	NM_182924		C	1498910	T	C	1498910	3	2	669	1	0	0	0	0	1	0	0	0	9581	1638	57	3	2729	3	MICALL2	7	1498910	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10		1498910	157639753	74	42876										
STK31	56164	mdanderson.org	37	chr7	23792342	23792342	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	attctttgtttcagcaagagAaggcagctgctgtggatttg	12	6	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr7:23792342A>G	ENST00000355870.3	+	9	1143	c.1024A>G	c.(1024-1026)Aag>Gag	p.K342E	STK31_ENST00000428484.1_Missense_Mutation_p.K319E|STK31_ENST00000433467.2_Missense_Mutation_p.K342E|STK31_ENST00000405627.3_3'UTR|STK31_ENST00000354639.3_Missense_Mutation_p.K319E	NM_031414.4	NP_113602.2	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31	342						acrosomal vesicle (GO:0001669)	ATP binding (GO:0005524)|hydrolase activity, acting on ester bonds (GO:0016788)|nucleic acid binding (GO:0003676)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(12)|lung(31)|ovary(2)|prostate(1)|skin(7)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	67						TCAGCAAGAGAAGGCAGCTGC	0.378																																																0													90	87	88					7																	23792342		2203	4300	6503	SO:0001583	missense	56164			AF285599	CCDS5386.1, CCDS43556.1, CCDS59049.1	7p15.3	2014-04-23			ENSG00000196335	ENSG00000196335		"Tudor domain containing"	11407	protein-coding gene	gene with protein product		605790				11279525	Standard	NM_031414		Approved	TDRD8, SgK396	uc003sws.5	Q9BXU1	OTTHUMG00000023053	ENST00000355870.3:c.1024A>G	7.37:g.23792342A>G	ENSP00000348132:p.Lys342Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ06|B7WPP5|C9J4F9|Q6PCD3|Q9BXH8	Missense_Mutation	SNP	ENST00000355870.3	37	CCDS5386.1	.	.	.	.	.	.	.	.	.	.	A	17.45	3.392194	0.62066	.	.	ENSG00000196335	ENST00000355870;ENST00000433467;ENST00000354639;ENST00000428484	T;T;T;T	0.20598	2.06;2.06;2.06;2.06	4.94	4.94	0.65067	.	0.119862	0.56097	D	0.000027	T	0.42653	0.1212	M	0.66939	2.045	0.39708	D	0.971297	D;D	0.89917	1.0;1.0	D;D	0.80764	0.994;0.994	T	0.43972	-0.9358	10	0.87932	D	0	-18.8545	11.259	0.49071	1.0:0.0:0.0:0.0	.	342;342	B4DZ06;Q9BXU1	.;STK31_HUMAN	E	342;342;319;319	ENSP00000348132:K342E;ENSP00000411852:K342E;ENSP00000346660:K319E;ENSP00000406146:K319E	ENSP00000346660:K319E	K	+	1	0	STK31	23758867	1.000000	0.71417	1.000000	0.80357	0.604000	0.37047	4.759000	0.62227	1.983000	0.57843	0.482000	0.46254	AAG		0.378	STK31-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214036.2	NM_031414		G	23792342	A	G	23792342	3	3	669	1	0	0	0	0	1	0	0	0	15308	247	9	3	1058	3	STK31	7	23792342	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	22293432	23792342	135346321	75	42877										
ABCA13	154664	mdanderson.org	37	chr7	48314279	48314279	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gtcatgcgtacccttaagaaGgcagacatagaccttttagt	9	9	1	3	rs6955212	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr7:48314279G>A	ENST00000435803.1	+	17	5040	c.5016G>A	c.(5014-5016)aaG>aaA	p.K1672K		NM_152701.3	NP_689914.2	Q86UQ4	ABCAD_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 13	1672					transport (GO:0006810)	integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)			breast(13)|central_nervous_system(8)|endometrium(25)|haematopoietic_and_lymphoid_tissue(4)|kidney(20)|large_intestine(51)|lung(100)|ovary(5)|pancreas(2)|prostate(22)|skin(10)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(4)	270						CCCTTAAGAAGGCAGACATAG	0.393													G|||	968	0.193291	0.1498	0.2709	5008	,	,		22975	0.2153		0.1322	False		,,,				2504	0.2372															0								G		585,3223		48,489,1367	153	145	148		5016	2.3	0.3	7	dbSNP_116	148	1164,7050		92,980,3035	no	coding-synonymous	ABCA13	NM_152701.3		140,1469,4402	AA,AG,GG		14.1709,15.3624,14.5483		1672/5059	48314279	1749,10273	1904	4107	6011	SO:0001819	synonymous_variant	154664			AY204751	CCDS47584.1	7p12.3	2012-03-14			ENSG00000179869	ENSG00000179869		"ATP binding cassette transporters / subfamily A"	14638	protein-coding gene	gene with protein product		607807				12697998	Standard	NM_152701		Approved	FLJ33876, FLJ33951	uc003toq.2	Q86UQ4	OTTHUMG00000155840	ENST00000435803.1:c.5016G>A	7.37:g.48314279G>A		Somatic		WXS	Illumina HiSeq	Phase_I	K9LC76|K9LC79|K9LCX7|K9LDK8|K9LDY4|Q6ZTT7|Q86WI2|Q8N248	Silent	SNP	ENST00000435803.1	37	CCDS47584.1																																																																																				0.393	ABCA13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341964.2	NM_152701		A	48314279	G	A	48314279	2	1	669	1	0	0	0	0	0	0	0	1	31	991	35	2		2	ABCA13	7	48314279	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	24521937	48314279	110824384	76	42878										
BAZ1B	9031	mdanderson.org	37	chr7	72891458	72891458	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tcaacacagcaagccgttccTtccacaactctgcagacatc	5	16	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr7:72891458T>C	ENST00000339594.4	-	7	2671	c.2333A>G	c.(2332-2334)aAg>aGg	p.K778R	BAZ1B_ENST00000404251.1_Missense_Mutation_p.K778R	NM_032408.3	NP_115784.1	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	778					cellular response to DNA damage stimulus (GO:0006974)|chromatin assembly or disassembly (GO:0006333)|chromatin-mediated maintenance of transcription (GO:0048096)|double-strand break repair (GO:0006302)|heart morphogenesis (GO:0003007)|histone phosphorylation (GO:0016572)|peptidyl-tyrosine phosphorylation (GO:0018108)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	condensed chromosome (GO:0000793)|nucleus (GO:0005634)|pericentric heterochromatin (GO:0005721)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|histone kinase activity (GO:0035173)|lysine-acetylated histone binding (GO:0070577)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein tyrosine kinase activity (GO:0004713)|vitamin D receptor activator activity (GO:0071884)|zinc ion binding (GO:0008270)			NS(1)|breast(5)|cervix(1)|endometrium(5)|kidney(5)|large_intestine(12)|lung(20)|ovary(5)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	61		Lung NSC(55;0.0659)|all_lung(88;0.152)				AAGCCGTTCCTTCCACAACTC	0.438																																					Esophageal Squamous(112;1167 1561 21085 43672 48228)											0													80	72	75					7																	72891458		2203	4300	6503	SO:0001583	missense	9031			AF084479	CCDS5549.1	7q11.23	2013-01-28			ENSG00000009954	ENSG00000009954		"Zinc fingers, PHD-type"	961	protein-coding gene	gene with protein product	"Williams-Beuren syndrome chromosome region 9", "Williams-Beuren syndrome chromosome region 10", "transcription factor WSTF"	605681		WBSCR9, WBSCR10		9858827, 9828126	Standard	NM_032408		Approved	WSTF	uc003tyc.3	Q9UIG0	OTTHUMG00000023847	ENST00000339594.4:c.2333A>G	7.37:g.72891458T>C	ENSP00000342434:p.Lys778Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGK3|D3DXE9|O95039|O95247|O95277|Q6P1K4|Q86UJ6	Missense_Mutation	SNP	ENST00000339594.4	37	CCDS5549.1	.	.	.	.	.	.	.	.	.	.	T	19.75	3.885335	0.72410	.	.	ENSG00000009954	ENST00000339594;ENST00000404251	T;T	0.64085	-0.08;-0.08	5.79	5.79	0.91817	.	0.000000	0.85682	D	0.000000	T	0.73179	0.3554	L	0.52759	1.655	0.53688	D	0.999978	D	0.69078	0.997	D	0.75020	0.985	T	0.70490	-0.4857	10	0.30854	T	0.27	-32.4356	15.3014	0.73955	0.0:0.0:0.0:1.0	.	778	Q9UIG0	BAZ1B_HUMAN	R	778	ENSP00000342434:K778R;ENSP00000385442:K778R	ENSP00000342434:K778R	K	-	2	0	BAZ1B	72529394	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.866000	0.69590	2.219000	0.72066	0.459000	0.35465	AAG		0.438	BAZ1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252123.4	NM_032408		C	72891458	T	C	72891458	3	2	669	1	0	0	0	0	1	0	0	0	1330	1609	56	3	2170	3	BAZ1B	7	72891458	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	24577179	72891458	86247205	77	42879										
BAZ1B	9031	mdanderson.org	37	chr7	72892254	72892254	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tcgcaattcttctgggagacGagctctatcttcactagaga	9	10	5	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr7:72892254G>A	ENST00000339594.4	-	7	1875	c.1537C>T	c.(1537-1539)Cgt>Tgt	p.R513C	BAZ1B_ENST00000404251.1_Missense_Mutation_p.R513C	NM_032408.3	NP_115784.1	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	513	Lys-rich.				cellular response to DNA damage stimulus (GO:0006974)|chromatin assembly or disassembly (GO:0006333)|chromatin-mediated maintenance of transcription (GO:0048096)|double-strand break repair (GO:0006302)|heart morphogenesis (GO:0003007)|histone phosphorylation (GO:0016572)|peptidyl-tyrosine phosphorylation (GO:0018108)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	condensed chromosome (GO:0000793)|nucleus (GO:0005634)|pericentric heterochromatin (GO:0005721)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|histone kinase activity (GO:0035173)|lysine-acetylated histone binding (GO:0070577)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein tyrosine kinase activity (GO:0004713)|vitamin D receptor activator activity (GO:0071884)|zinc ion binding (GO:0008270)			NS(1)|breast(5)|cervix(1)|endometrium(5)|kidney(5)|large_intestine(12)|lung(20)|ovary(5)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	61		Lung NSC(55;0.0659)|all_lung(88;0.152)				TCTGGGAGACGAGCTCTATCT	0.438																																					Esophageal Squamous(112;1167 1561 21085 43672 48228)											0													101	104	103					7																	72892254		2203	4300	6503	SO:0001583	missense	9031			AF084479	CCDS5549.1	7q11.23	2013-01-28			ENSG00000009954	ENSG00000009954		"Zinc fingers, PHD-type"	961	protein-coding gene	gene with protein product	"Williams-Beuren syndrome chromosome region 9", "Williams-Beuren syndrome chromosome region 10", "transcription factor WSTF"	605681		WBSCR9, WBSCR10		9858827, 9828126	Standard	NM_032408		Approved	WSTF	uc003tyc.3	Q9UIG0	OTTHUMG00000023847	ENST00000339594.4:c.1537C>T	7.37:g.72892254G>A	ENSP00000342434:p.Arg513Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGK3|D3DXE9|O95039|O95247|O95277|Q6P1K4|Q86UJ6	Missense_Mutation	SNP	ENST00000339594.4	37	CCDS5549.1	.	.	.	.	.	.	.	.	.	.	G	18.28	3.589356	0.66105	.	.	ENSG00000009954	ENST00000339594;ENST00000404251	T;T	0.58358	0.34;0.34	5.51	5.51	0.81932	.	0.000000	0.85682	D	0.000000	T	0.61961	0.2389	L	0.32530	0.975	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.63849	-0.6544	10	0.66056	D	0.02	-16.7136	13.388	0.60807	0.0:0.0:0.8428:0.1572	.	513	Q9UIG0	BAZ1B_HUMAN	C	513	ENSP00000342434:R513C;ENSP00000385442:R513C	ENSP00000342434:R513C	R	-	1	0	BAZ1B	72530190	1.000000	0.71417	0.955000	0.39395	0.999000	0.98932	5.906000	0.69900	2.593000	0.87608	0.655000	0.94253	CGT		0.438	BAZ1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252123.4	NM_032408		A	72892254	G	A	72892254	3	1	669	1	0	0	0	0	1	0	0	0	1330	1058	37	1	2966	1	BAZ1B	7	72892254	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	796	72892254	86246409	78	42880										
CLDN3	1365	broad.mit.edu;mdanderson.org	37	chr7	73184305	73184305	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gacacgcgccacatgggcaaCgcgcagcacacgatggtgcc	13	15	0	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr7:73184305C>T	ENST00000395145.2	-	1	295	c.75G>A	c.(73-75)gcG>gcA	p.A25A		NM_001306.3	NP_001297.1	O15551	CLD3_HUMAN	claudin 3	25					calcium-independent cell-cell adhesion (GO:0016338)|response to hypoxia (GO:0001666)|signal transduction (GO:0007165)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|lateral plasma membrane (GO:0016328)|tight junction (GO:0005923)	structural molecule activity (GO:0005198)|transmembrane signaling receptor activity (GO:0004888)			kidney(1)|lung(1)	2		Lung NSC(55;0.159)				ACATGGGCAACGCGCAGCACA	0.672																																																0													45	38	40					7																	73184305		2203	4299	6502	SO:0001819	synonymous_variant	1365			AF007189	CCDS5559.1	7q11	2008-07-18			ENSG00000165215	ENSG00000165215		"Claudins"	2045	protein-coding gene	gene with protein product	"Clostridium perfringens enterotoxin receptor 2", "ventral prostate.1-like protein", "claudin-3", "CPE-receptor 2"	602910		C7orf1, CPETR2		9441748, 9892664	Standard	NM_001306		Approved	RVP1, CPE-R2, HRVP1	uc003tzg.4	O15551	OTTHUMG00000023424	ENST00000395145.2:c.75G>A	7.37:g.73184305C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000395145.2	37	CCDS5559.1																																																																																				0.672	CLDN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252310.1	NM_001306		T	73184305	C	T	73184305	2	4	669	1	0	0	0	0	0	0	0	1	3488	523	19	1		1	CLDN3	7	73184305	Silent	SNP	C	TCGA-KN-8433-01A-11D-2310-10	292051	73184305	85954358	79	42881										
C7orf63	79846	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	89937126	89937126	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gagctggctaataaatcatgGgaagatttcttggctagaac	11	6	2	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr7:89937126G>T	ENST00000389297.4	+	21	2759	c.2508G>T	c.(2506-2508)tgG>tgT	p.W836C	C7orf63_ENST00000316089.8_Missense_Mutation_p.W790C|C7orf63_ENST00000497910.1_Missense_Mutation_p.W818C	NM_001039706.2|NM_001160138.1	NP_001034795.2|NP_001153610.1	A5D8W1	CG063_HUMAN		836										breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(12)|lung(14)|ovary(1)|prostate(3)	37						ATAAATCATGGGAAGATTTCT	0.328																																																0													65	64	65					7																	89937126		1840	4099	5939	SO:0001583	missense	79846																														ENST00000389297.4:c.2508G>T	7.37:g.89937126G>T	ENSP00000373948:p.Trp836Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A3KMP9|B4DYW6|B4DZP7|B9EIM7|Q6V705|Q8IY89|Q9H7C2	Missense_Mutation	SNP	ENST00000389297.4	37	CCDS43613.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	18.29|18.29	3.590328|3.590328	0.66105|0.66105	.|.	.|.	ENSG00000105792|ENSG00000105792	ENST00000412839;ENST00000445156|ENST00000389297;ENST00000316089;ENST00000497910;ENST00000449577	.|T;T;T;T	.|0.25912	.|2.37;2.32;2.37;1.77	5.17|5.17	5.17|5.17	0.71159|0.71159	.|.	.|0.000000	.|0.85682	.|D	.|0.000000	.|T	.|0.54255	.|0.1847	M|M	0.77103|0.77103	2.36|2.36	0.80722|0.80722	D|D	1|1	.|D;D	.|0.89917	.|0.999;1.0	.|D;D	.|0.91635	.|0.989;0.999	.|T	.|0.59643	.|-0.7416	.|10	.|0.87932	.|D	.|0	-4.9045|-4.9045	17.6621|17.6621	0.88195|0.88195	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|818;836	.|A5D8W1-5;A5D8W1	.|.;CG063_HUMAN	X|C	65;23|836;790;818;373	.|ENSP00000373948:W836C;ENSP00000321753:W790C;ENSP00000419549:W818C;ENSP00000391571:W373C	.|ENSP00000321753:W790C	G|W	+|+	1|3	0|0	C7orf63|C7orf63	89775062|89775062	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.938000|0.938000	0.57974|0.57974	7.025000|7.025000	0.76449|0.76449	2.407000|2.407000	0.81776|0.81776	0.650000|0.650000	0.86243|0.86243	GGA|TGG		0.328	C7orf63-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000139891.4			T	89937126	G	T	89937126	3	4	669	1	0	0	0	0	1	0	0	0	2411	1241	43	4	2590	4	C7orf63	7	89937126	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	16752821	89937126	69201537	80	42882										
CCDC132	55610	mdanderson.org	37	chr7	92905518	92905518	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	atgcacttcacccaagccatTcacaacaccgtgtttcaagt	5	14	3	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr7:92905518T>C	ENST00000305866.5	+	12	971	c.843T>C	c.(841-843)atT>atC	p.I281I	CCDC132_ENST00000535481.1_Intron|CCDC132_ENST00000541136.1_Silent_p.I92I|CCDC132_ENST00000317751.6_Silent_p.I12I|CCDC132_ENST00000251739.5_Silent_p.I281I|CCDC132_ENST00000544910.1_Silent_p.I251I	NM_017667.3	NP_060137.2	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132	281						extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)				endometrium(1)|large_intestine(2)|lung(5)	8	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			CCCAAGCCATTCACAACACCG	0.353																																																0													210	186	194					7																	92905518		2203	4300	6503	SO:0001819	synonymous_variant	55610			AL833112, AK055965, AL832393	CCDS5630.1, CCDS43617.1, CCDS59065.1	7q21.3	2007-07-23			ENSG00000004766	ENSG00000004766			25956	protein-coding gene	gene with protein product						11347906	Standard	NM_024553		Approved	KIAA1861, FLJ20097, DKFZp313I2429	uc003umo.4	Q96JG6	OTTHUMG00000131733	ENST00000305866.5:c.843T>C	7.37:g.92905518T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KX22|D1MQ00|F5H5U7|Q75N07|Q8WVK3|Q9H5C6	Silent	SNP	ENST00000305866.5	37	CCDS43617.1	.	.	.	.	.	.	.	.	.	.	T	10.68	1.418400	0.25552	.	.	ENSG00000004766	ENST00000458707	.	.	.	5.3	1.2	0.21068	.	.	.	.	.	T	0.55577	0.1929	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.48139	-0.9061	4	.	.	.	-23.125	8.3177	0.32111	0.0:0.4108:0.0:0.5892	.	.	.	.	S	68	.	.	F	+	2	0	CCDC132	92743454	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	1.819000	0.39022	0.398000	0.25338	-0.297000	0.09499	TTC		0.353	CCDC132-019	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341687.1	NM_017667		C	92905518	T	C	92905518	2	2	669	1	0	0	0	0	0	0	0	1	2769	1771	62	3		3	CCDC132	7	92905518	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	2968392	92905518	66233145	81	42883										
SLC25A13	10165	mdanderson.org	37	chr7	95813628	95813628	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gccttcatagcgtagcacttTcttaaaacagtcaaagctgt	7	10	3	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr7:95813628T>C	ENST00000265631.5	-	11	1274	c.1138A>G	c.(1138-1140)Aaa>Gaa	p.K380E	SLC25A13_ENST00000542654.1_Missense_Mutation_p.K272E|SLC25A13_ENST00000416240.2_Missense_Mutation_p.K381E			Q9UJS0	CMC2_HUMAN	solute carrier family 25 (aspartate/glutamate carrier), member 13	380					aspartate transport (GO:0015810)|ATP biosynthetic process (GO:0006754)|carbohydrate metabolic process (GO:0005975)|cellular respiration (GO:0045333)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|L-glutamate transport (GO:0015813)|malate-aspartate shuttle (GO:0043490)|response to calcium ion (GO:0051592)|small molecule metabolic process (GO:0044281)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	calcium ion binding (GO:0005509)|L-aspartate transmembrane transporter activity (GO:0015183)|L-glutamate transmembrane transporter activity (GO:0005313)|transporter activity (GO:0005215)			breast(4)|central_nervous_system(3)|endometrium(4)|kidney(2)|large_intestine(8)|liver(2)|lung(14)|prostate(1)|skin(4)	42	all_cancers(62;7.75e-08)|all_epithelial(64;1.16e-07)		STAD - Stomach adenocarcinoma(171;0.194)		L-Aspartic Acid(DB00128)	CGTAGCACTTTCTTAAAACAG	0.393																																																0													103	98	100					7																	95813628		2203	4300	6503	SO:0001583	missense	10165			AF118838	CCDS5645.1, CCDS55130.1	7q21.3	2013-05-22	2012-03-29		ENSG00000004864	ENSG00000004864		"Solute carriers", "EF-hand domain containing"	10983	protein-coding gene	gene with protein product	"mitochondrial aspartate glutamate carrier 2"	603859	"solute carrier family 25, member 13 (citrin)"	CTLN2		10369257	Standard	NM_014251		Approved	CITRIN, ARALAR2	uc003uog.4	Q9UJS0	OTTHUMG00000023074	ENST00000265631.5:c.1138A>G	7.37:g.95813628T>C	ENSP00000265631:p.Lys380Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O14566|O14575|Q546F9|Q9NZW1|Q9UNI7	Missense_Mutation	SNP	ENST00000265631.5	37	CCDS5645.1	.	.	.	.	.	.	.	.	.	.	T	28.7	4.945440	0.92593	.	.	ENSG00000004864	ENST00000265631;ENST00000416240;ENST00000542654	T;T;T	0.79845	-1.31;-1.31;-1.31	4.86	4.86	0.63082	Mitochondrial carrier domain (2);	0.110120	0.64402	D	0.000016	D	0.86543	0.5958	L	0.49778	1.585	0.80722	D	1	D;D;D	0.76494	0.999;0.999;0.999	D;D;D	0.79108	0.987;0.992;0.992	D	0.88017	0.2766	10	0.87932	D	0	-16.5103	14.9278	0.70893	0.0:0.0:0.0:1.0	.	272;381;380	F5GX33;Q546F9;Q9UJS0	.;.;CMC2_HUMAN	E	380;381;272	ENSP00000265631:K380E;ENSP00000400101:K381E;ENSP00000440484:K272E	ENSP00000265631:K380E	K	-	1	0	SLC25A13	95651564	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	7.868000	0.87116	2.172000	0.68678	0.533000	0.62120	AAA		0.393	SLC25A13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059395.2	NM_014251		C	95813628	T	C	95813628	3	2	669	1	0	0	0	0	1	0	0	0	14488	1792	62	3	921	3	SLC25A13	7	95813628	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	2908110	95813628	63325035	82	42884										
STAG3	10734	mdanderson.org	37	chr7	99783860	99783860	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gctggatagctacaagcaagAccaggatgcaggatttctgg	13	8	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr7:99783860A>G	ENST00000426455.1	+	5	781	c.374A>G	c.(373-375)gAc>gGc	p.D125G	STAG3_ENST00000317296.5_Missense_Mutation_p.D125G|STAG3_ENST00000394018.2_Intron	NM_001282716.1	NP_001269645.1	Q9UJ98	STAG3_HUMAN	stromal antigen 3	125					chromosome segregation (GO:0007059)|synaptonemal complex assembly (GO:0007130)	chromosome, centromeric region (GO:0000775)|extracellular space (GO:0005615)|lateral element (GO:0000800)|male germ cell nucleus (GO:0001673)|meiotic cohesin complex (GO:0030893)|nuclear meiotic cohesin complex (GO:0034991)|nucleolus (GO:0005730)|nucleus (GO:0005634)|synaptonemal complex (GO:0000795)|transverse filament (GO:0000802)				breast(1)|central_nervous_system(2)|endometrium(6)|kidney(3)|large_intestine(11)|lung(30)|ovary(5)|prostate(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)	66	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TACAAGCAAGACCAGGATGCA	0.408																																																0													197	197	197					7																	99783860		2203	4300	6503	SO:0001583	missense	10734			AJ007798	CCDS34703.1, CCDS64730.1, CCDS75642.1	7q22	2008-02-01			ENSG00000066923	ENSG00000066923			11356	protein-coding gene	gene with protein product		608489				10698974	Standard	XM_005250116		Approved		uc003utx.1	Q9UJ98	OTTHUMG00000155183	ENST00000426455.1:c.374A>G	7.37:g.99783860A>G	ENSP00000400359:p.Asp125Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8Z1|B4DZ10|D6W5U8|H7BYK9|Q8NDP3	Missense_Mutation	SNP	ENST00000426455.1	37	CCDS34703.1	.	.	.	.	.	.	.	.	.	.	.	19.08	3.757822	0.69648	.	.	ENSG00000066923	ENST00000426455;ENST00000416412;ENST00000339784;ENST00000317296	T;T	0.29397	1.57;1.57	5.65	5.65	0.86999	.	0.242716	0.28766	N	0.014204	T	0.44435	0.1293	M	0.84219	2.685	0.42783	D	0.993871	B	0.26809	0.16	B	0.35114	0.196	T	0.48647	-0.9017	10	0.72032	D	0.01	-8.7402	13.8254	0.63348	1.0:0.0:0.0:0.0	.	125	Q9UJ98	STAG3_HUMAN	G	125	ENSP00000400359:D125G;ENSP00000319318:D125G	ENSP00000319318:D125G	D	+	2	0	STAG3	99621796	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.284000	0.78650	2.149000	0.67028	0.454000	0.30748	GAC		0.408	STAG3-004	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000338734.2	NM_012447		G	99783860	A	G	99783860	3	3	669	1	0	0	0	0	1	0	0	0	15256	275	10	3	388	3	STAG3	7	99783860	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	3970232	99783860	59354803	83	42885										
UBN2	254048	mdanderson.org	37	chr7	138960858	138960858	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tccagaatgctttttaaggaAagccggagtgttcataatca	9	7	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr7:138960858A>G	ENST00000473989.3	+	12	1989	c.1989A>G	c.(1987-1989)gaA>gaG	p.E663E	UBN2_ENST00000288561.8_Silent_p.E580E	NM_173569.3	NP_775840.3	Q6ZU65	UBN2_HUMAN	ubinuclein 2	663						extracellular space (GO:0005615)|nucleus (GO:0005634)				NS(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(5)|large_intestine(7)|lung(16)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	42						TTTTTAAGGAAAGCCGGAGTG	0.279																																																0													84	78	80					7																	138960858		1810	4069	5879	SO:0001819	synonymous_variant	254048			AK098644	CCDS43655.1, CCDS43655.2	7q34	2008-12-08			ENSG00000157741	ENSG00000157741			21931	protein-coding gene	gene with protein product		613841				19029251	Standard	NM_173569		Approved	FLJ25778, KIAA2030	uc011kqr.2	Q6ZU65	OTTHUMG00000157623	ENST00000473989.3:c.1989A>G	7.37:g.138960858A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A4D1S2|Q2YDY4|Q6P1K0|Q86XN9|Q8N7D1	Silent	SNP	ENST00000473989.3	37	CCDS43655.2	.	.	.	.	.	.	.	.	.	.	A	9.378	1.072307	0.20147	.	.	ENSG00000157741	ENST00000483726	.	.	.	5.77	5.77	0.91146	.	.	.	.	.	T	0.62938	0.2469	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.62324	-0.6878	4	.	.	.	-19.1931	10.4303	0.44403	0.9274:0.0:0.0726:0.0	.	.	.	.	R	432	.	.	K	+	2	0	UBN2	138611398	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	1.712000	0.37940	2.196000	0.70406	0.528000	0.53228	AAA		0.279	UBN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349272.3	NM_173569		G	138960858	A	G	138960858	2	3	669	1	0	0	0	0	0	0	0	1	16905	11	1	3		3	UBN2	7	138960858	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	39176998	138960858	20177805	84	42886										
TAS2R4	50832	mdanderson.org	37	chr7	141478814	141478814	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	atatcagtgagggcatcttgTctttagtggtttctttggtc	11	6	4	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr7:141478814T>C	ENST00000247881.2	+	1	573	c.526T>C	c.(526-528)Tct>Cct	p.S176P	SSBP1_ENST00000465582.1_Intron	NM_016944.1	NP_058640.1	Q9NYW5	TA2R4_HUMAN	taste receptor, type 2, member 4	176					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)|respiratory gaseous exchange (GO:0007585)|sensory perception of taste (GO:0050909)|signal transduction (GO:0007165)	cilium (GO:0005929)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)|taste receptor activity (GO:0008527)			endometrium(1)|large_intestine(4)|lung(2)	7	Melanoma(164;0.0171)			BRCA - Breast invasive adenocarcinoma(188;0.196)		GGGCATCTTGTCTTTAGTGGT	0.418																																																0													255	250	252					7																	141478814		2203	4300	6503	SO:0001583	missense	50832			AF227131	CCDS5868.1	7q31.3-q32	2012-08-22			ENSG00000127364	ENSG00000127364		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	14911	protein-coding gene	gene with protein product		604869				10761934, 10761935	Standard	NM_016944		Approved	T2R4	uc003vwq.1	Q9NYW5	OTTHUMG00000157634	ENST00000247881.2:c.526T>C	7.37:g.141478814T>C	ENSP00000247881:p.Ser176Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q645W5|Q75MV8	Missense_Mutation	SNP	ENST00000247881.2	37	CCDS5868.1	.	.	.	.	.	.	.	.	.	.	t	4.845	0.157147	0.09236	.	.	ENSG00000127364	ENST00000247881	T	0.37584	1.19	5.31	-2.53	0.06326	.	0.838765	0.10689	N	0.645469	T	0.31544	0.0800	M	0.64997	1.995	0.09310	N	1	B	0.18013	0.025	B	0.28139	0.086	T	0.45056	-0.9287	10	0.62326	D	0.03	.	4.0257	0.09687	0.2579:0.3855:0.0:0.3567	.	176	Q9NYW5	TA2R4_HUMAN	P	176	ENSP00000247881:S176P	ENSP00000247881:S176P	S	+	1	0	TAS2R4	141125283	0.000000	0.05858	0.000000	0.03702	0.037000	0.13140	-0.350000	0.07721	-0.263000	0.09378	-0.282000	0.10007	TCT		0.418	TAS2R4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349285.1			C	141478814	T	C	141478814	3	2	669	1	0	0	0	0	1	0	0	0	15589	1667	58	3	528	3	TAS2R4	7	141478814	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	2517956	141478814	17659849	85	42887										
PRSS1	5644	mdanderson.org	37	chr7	142458526	142458526	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctgtggtggctccctcatcaAcgaacagtgggtggtatcag	13	10	3	0	rs144422014		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr7:142458526A>G	ENST00000311737.7	+	2	167	c.161A>G	c.(160-162)aAc>aGc	p.N54S	PRSS1_ENST00000486171.1_Missense_Mutation_p.N54S	NM_002769.4	NP_002760.1	P07477	TRY1_HUMAN	protease, serine, 1 (trypsin 1)	54	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.		N -> S (in PCTT; associated with Ile-29; the double mutant shows increased autocatalytic activation which is solely due to the Ile-29 mutation). {ECO:0000269|PubMed:15776435}.		cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	metal ion binding (GO:0046872)|serine-type endopeptidase activity (GO:0004252)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(24)|prostate(2)	38	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)		Aprotinin(DB06692)	TCCCTCATCAACGAACAGTGG	0.572																																																0													88	91	90					7																	142458526		2203	4300	6503	SO:0001583	missense	5644			M22612	CCDS5872.1	7q34	2012-10-02			ENSG00000204983	ENSG00000204983	3.4.21.4	"Serine peptidases / Serine peptidases"	9475	protein-coding gene	gene with protein product		276000		TRY1			Standard	NM_002769		Approved		uc003wak.2	P07477	OTTHUMG00000158923	ENST00000311737.7:c.161A>G	7.37:g.142458526A>G	ENSP00000308720:p.Asn54Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A1A509|A6NJ71|B2R5I5|Q5NV57|Q7M4N3|Q7M4N4|Q92955|Q9HAN4|Q9HAN5|Q9HAN6|Q9HAN7	Missense_Mutation	SNP	ENST00000311737.7	37	CCDS5872.1	.	.	.	.	.	.	.	.	.	.	A	0.009	-1.848646	0.00563	.	.	ENSG00000204983	ENST00000486171;ENST00000311737;ENST00000529243;ENST00000492062	D;D;T	0.91577	-2.87;-2.87;-1.25	3.49	-6.32	0.01995	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	0.304664	0.39083	N	0.001478	T	0.62938	0.2469	N	0.00765	-1.205	0.09310	A	6.371e-07	B	0.02656	0.0	B	0.04013	0.001	T	0.62258	-0.6892	9	0.16896	T	0.51	.	6.9591	0.24587	0.4768:0.1255:0.3977:0.0	.	54	P07477	TRY1_HUMAN	S	54;54;54;4	ENSP00000417854:N54S;ENSP00000308720:N54S;ENSP00000419912:N4S	ENSP00000308720:N54S	N	+	2	0	PRSS1	142138100	0.000000	0.05858	0.248000	0.24265	0.005000	0.04900	-1.543000	0.02194	-1.143000	0.02866	-0.874000	0.02982	AAC		0.572	PRSS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352538.2			G	142458526	A	G	142458526	3	3	669	1	0	0	0	0	1	0	0	0	12624	43	2	3	167	3	PRSS1	7	142458526	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	979712	142458526	16680137	86	42888										
OR2A2	442361	mdanderson.org	37	chr7	143806681	143806681	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctctgccacaagagcatggaAggcaaccagacatggatcac	10	12	2	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr7:143806681A>G	ENST00000408979.2	+	1	75	c.6A>G	c.(4-6)gaA>gaG	p.E2E		NM_001005480.2	NP_001005480.2	Q6IF42	OR2A2_HUMAN	olfactory receptor, family 2, subfamily A, member 2	2						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(1)|kidney(1)|large_intestine(2)|lung(13)|prostate(1)|skin(4)	22	Melanoma(164;0.0783)					AGAGCATGGAAGGCAACCAGA	0.502																																																0													103	100	101					7																	143806681		2004	4187	6191	SO:0001819	synonymous_variant	442361				CCDS43671.1	7q35	2013-09-20		2004-03-10	ENSG00000221989	ENSG00000221989		"GPCR / Class A : Olfactory receptors"	8230	protein-coding gene	gene with protein product				OR2A2P, OR2A17P			Standard	NM_001005480		Approved	OST008	uc011ktz.2	Q6IF42	OTTHUMG00000158001	ENST00000408979.2:c.6A>G	7.37:g.143806681A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RN85|Q8NGT6	Silent	SNP	ENST00000408979.2	37	CCDS43671.1																																																																																				0.502	OR2A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349978.1			G	143806681	A	G	143806681	2	3	669	1	0	0	0	0	0	0	0	1	10984	69	3	3		3	OR2A2	7	143806681	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	1348155	143806681	15331982	87	42889										
CNOT7	29883	mdanderson.org	37	chr8	17088229	17088229	+	Nonstop_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aataaaaggactatttcatgTcatgactgcttgttggcttc	8	7	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr8:17088229T>C	ENST00000361272.4	-	7	1156	c.858A>G	c.(856-858)tgA>tgG	p.*286W		NM_013354.5	NP_037486.2	Q9UIV1	CNOT7_HUMAN	CCR4-NOT transcription complex, subunit 7	0					carbohydrate metabolic process (GO:0005975)|cytoplasmic mRNA processing body assembly (GO:0033962)|deadenylation-dependent decapping of nuclear-transcribed mRNA (GO:0000290)|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay (GO:0043928)|gene expression (GO:0010467)|gene silencing by miRNA (GO:0035195)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|negative regulation of cell proliferation (GO:0008285)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of cell proliferation (GO:0008284)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of translation (GO:0006417)|RNA metabolic process (GO:0016070)|RNA phosphodiester bond hydrolysis, exonucleolytic (GO:0090503)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)	CCR4-NOT complex (GO:0030014)|cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)	3'-5'-exoribonuclease activity (GO:0000175)|exoribonuclease activity (GO:0004532)|metal ion binding (GO:0046872)|poly(A)-specific ribonuclease activity (GO:0004535)|RNA binding (GO:0003723)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)			central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(6)	11				Colorectal(111;0.0523)|COAD - Colon adenocarcinoma(73;0.209)		CTATTTCATGTCATGACTGCT	0.398																																																0													109	102	104					8																	17088229		2203	4300	6503	SO:0001578	stop_lost	29883			L46722	CCDS6000.2, CCDS55202.1	8p22-p21.3	2008-08-07			ENSG00000198791	ENSG00000198791			14101	protein-coding gene	gene with protein product	"BTG1 binding factor 1"	604913		CAF1		10637334, 1538749, 17264152	Standard	XM_005273481		Approved		uc003wxg.1	Q9UIV1	OTTHUMG00000096971	ENST00000361272.4:c.858A>G	8.37:g.17088229T>C	ENSP00000355279:p.*286Cysext*57	Somatic		WXS	Illumina HiSeq	Phase_I	A8MZM5|B3KMP1|B3KN35|D3DSP6|G3V108|Q7Z530	Missense_Mutation	SNP	ENST00000361272.4	37	CCDS6000.2	.	.	.	.	.	.	.	.	.	.	T	14.89	2.670954	0.47781	.	.	ENSG00000198791	ENST00000361272	.	.	.	5.0	5.0	0.66597	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.4096	0.74908	0.0:0.0:0.0:1.0	.	.	.	.	W	286	.	.	X	-	3	0	CNOT7	17132600	1.000000	0.71417	1.000000	0.80357	0.972000	0.66771	7.694000	0.84235	2.180000	0.69256	0.533000	0.62120	TGA		0.398	CNOT7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214038.1	NM_013354		C	17088229	T	C	17088229	4	2	669	1	0	0	0	0	0	0	0	0	3626	1680	58	3	3	3	CNOT7	8	17088229	Nonstop_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10		17088229	129275793	88	42890										
ST18	9705	mdanderson.org	37	chr8	53025806	53025806	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttgatactttccagtagagcTttgcattccggggaatagtc	10	8	0	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr8:53025806T>C	ENST00000276480.7	-	26	3779	c.3096A>G	c.(3094-3096)aaA>aaG	p.K1032K		NM_014682.2	NP_055497.1	O60284	ST18_HUMAN	suppression of tumorigenicity 18, zinc finger	1032					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(14)|lung(38)|ovary(4)|prostate(2)|skin(11)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	85		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				CCAGTAGAGCTTTGCATTCCG	0.453																																																0													173	150	158					8																	53025806		2203	4300	6503	SO:0001819	synonymous_variant	9705			AB011107	CCDS6149.1	8q11.23	2014-03-24	2014-03-24	2002-12-13	ENSG00000147488	ENSG00000147488		"Zinc fingers, C2HC-type containing"	18695	protein-coding gene	gene with protein product	"neural zinc finger transcription factor 3"		"zinc finger protein 387", "suppression of tumorigenicity 18 (breast carcinoma) (zinc finger protein)"	ZNF387		15489893	Standard	NM_014682		Approved	KIAA0535, ZC2HC10, NZF3	uc003xra.2	O60284	OTTHUMG00000164233	ENST00000276480.7:c.3096A>G	8.37:g.53025806T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q17RY1	Silent	SNP	ENST00000276480.7	37	CCDS6149.1																																																																																				0.453	ST18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377867.1			C	53025806	T	C	53025806	2	2	669	1	0	0	0	0	0	0	0	1	15224	1606	56	3		3	ST18	8	53025806	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	35937577	53025806	93338216	89	42891										
WWP1	11059	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	87410805	87410805	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctttcttgttgttcagtagaAatacaggaaaatggtgatgc	10	5	2	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr8:87410805A>C	ENST00000517970.1	+	7	784	c.477A>C	c.(475-477)gaA>gaC	p.E159D	WWP1_ENST00000349423.2_Intron|WWP1_ENST00000265428.4_Missense_Mutation_p.E159D|WWP1_ENST00000341922.2_Intron	NM_007013.3	NP_008944.1	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase 1	159					central nervous system development (GO:0007417)|ion transmembrane transport (GO:0034220)|negative regulation of transcription, DNA-templated (GO:0045892)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|signal transduction (GO:0007165)|transmembrane transport (GO:0055085)|viral entry into host cell (GO:0046718)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ubiquitin ligase complex (GO:0000151)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			endometrium(3)|kidney(2)|large_intestine(9)|liver(4)|lung(10)|prostate(2)|urinary_tract(1)	31						GTTCAGTAGAAATACAGGAAA	0.333																																																0													96	97	97					8																	87410805		2203	4300	6503	SO:0001583	missense	11059			AY043361	CCDS6242.1	8q21.3	2013-07-22			ENSG00000123124	ENSG00000123124			17004	protein-coding gene	gene with protein product		602307				9169421, 9647693	Standard	NM_007013		Approved	AIP5, DKFZP434D2111	uc003ydt.3	Q9H0M0	OTTHUMG00000163690	ENST00000517970.1:c.477A>C	8.37:g.87410805A>C	ENSP00000427793:p.Glu159Asp	Somatic		WXS	Illumina HiSeq	Phase_I	O00307|Q5YLC1|Q96BP4	Missense_Mutation	SNP	ENST00000517970.1	37	CCDS6242.1	.	.	.	.	.	.	.	.	.	.	A	13.08	2.129792	0.37630	.	.	ENSG00000123124	ENST00000517970;ENST00000265428	T;T	0.45276	0.9;0.9	5.3	5.3	0.74995	.	0.714266	0.13795	N	0.362248	T	0.37598	0.1009	L	0.44542	1.39	0.80722	D	1	B	0.13594	0.008	B	0.17433	0.018	T	0.13335	-1.0513	10	0.17369	T	0.5	.	15.5221	0.75874	1.0:0.0:0.0:0.0	.	159	Q9H0M0	WWP1_HUMAN	D	159	ENSP00000427793:E159D;ENSP00000265428:E159D	ENSP00000265428:E159D	E	+	3	2	WWP1	87479921	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	6.689000	0.74562	2.127000	0.65507	0.477000	0.44152	GAA		0.333	WWP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374755.1	NM_007013		C	87410805	A	C	87410805	3	2	669	1	0	0	0	0	1	0	0	0	17427	11	1	5	495	5	WWP1	8	87410805	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	34384999	87410805	58953217	90	42892										
CYP11B1	1584	mdanderson.org	37	chr8	143958291	143958291	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	agccgctctccaaaaagagcCaagttgctggctgcggggag	14	11	1	1	rs61751154		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr8:143958291C>T	ENST00000292427.4	-	4	638	c.606G>A	c.(604-606)ttG>ttA	p.L202L	CYP11B1_ENST00000377675.3_Silent_p.L273L|CYP11B1_ENST00000517471.1_Silent_p.L202L	NM_000497.3	NP_000488.3	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B, polypeptide 1	202					aldosterone biosynthetic process (GO:0032342)|C21-steroid hormone biosynthetic process (GO:0006700)|cellular response to hormone stimulus (GO:0032870)|cellular response to potassium ion (GO:0035865)|cortisol biosynthetic process (GO:0034651)|glucocorticoid biosynthetic process (GO:0006704)|glucose homeostasis (GO:0042593)|immune response (GO:0006955)|mineralocorticoid biosynthetic process (GO:0006705)|regulation of blood pressure (GO:0008217)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|sterol metabolic process (GO:0016125)|xenobiotic metabolic process (GO:0006805)	mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	heme binding (GO:0020037)|iron ion binding (GO:0005506)|steroid 11-beta-monooxygenase activity (GO:0004507)			central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(10)|lung(36)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)	67	all_cancers(97;4.74e-11)|all_epithelial(106;2.06e-08)|Lung NSC(106;0.000228)|all_lung(105;0.000633)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)				Cimetidine(DB00501)|Clotrimazole(DB00257)|Etomidate(DB00292)|Fluconazole(DB00196)|Hydrocortisone(DB00741)|Ketoconazole(DB01026)|Metoclopramide(DB01233)|Metyrapone(DB01011)|Miconazole(DB01110)|Mitotane(DB00648)|Phenytoin(DB00252)|Spironolactone(DB00421)	CAAAAAGAGCCAAGTTGCTGG	0.642									Familial Hyperaldosteronism type I				.|||	1	0.000199681	0.0008	0.0	5008	,	,		19690	0.0		0.0	False		,,,				2504	0.0															0													37	38	38					8																	143958291		2203	4300	6503	SO:0001819	synonymous_variant	1584	Familial Cancer Database	Dexamethasone Sensitive Aldosteronism, FH-I	D16153	CCDS6392.1, CCDS34953.1	8q21-q22	2013-06-19	2003-01-14		ENSG00000160882	ENSG00000160882	1.14.15.4	"Cytochrome P450s"	2591	protein-coding gene	gene with protein product	"steroid 11-beta-monooxygenase"	610613	"cytochrome P450, subfamily XIB (steroid 11-beta-hydroxylase), polypeptide 1"	CYP11B		1303253	Standard	XM_005250807		Approved	P450C11, FHI, CPN1	uc003yxi.3	P15538	OTTHUMG00000164637	ENST00000292427.4:c.606G>A	8.37:g.143958291C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14095|Q4VAQ8|Q4VAQ9|Q9UML2	Silent	SNP	ENST00000292427.4	37	CCDS6392.1																																																																																				0.642	CYP11B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379475.2			T	143958291	C	T	143958291	2	4	669	1	0	0	0	0	0	0	0	1	4147	593	21	2		2	CYP11B1	8	143958291	Silent	SNP	C	TCGA-KN-8433-01A-11D-2310-10	56547486	143958291	2405731	91	42893										
SCRIB	23513	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr8	144890886	144890886	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctcctctacctcctcctcctGaggactaccctcttcctcct	3	21	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr8:144890886G>A	ENST00000320476.3	-	15	2014	c.2008C>T	c.(2008-2010)Cag>Tag	p.Q670*	SCRIB_ENST00000356994.2_Nonsense_Mutation_p.Q670*|SCRIB_ENST00000377533.3_Nonsense_Mutation_p.Q589*	NM_015356.4	NP_056171	Q14160	SCRIB_HUMAN	scribbled planar cell polarity protein	670	Glu-rich.|Sufficient for targeting to adherens junction and to inhibit cell proliferation.				activation of Rac GTPase activity (GO:0032863)|apoptotic process involved in morphogenesis (GO:0060561)|astrocyte cell migration (GO:0043615)|asymmetric protein localization (GO:0008105)|auditory receptor cell stereocilium organization (GO:0060088)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|cochlear nucleus development (GO:0021747)|establishment of apical/basal cell polarity (GO:0035089)|mammary gland duct morphogenesis (GO:0060603)|negative regulation of mitotic cell cycle (GO:0045930)|neural tube closure (GO:0001843)|positive chemotaxis (GO:0050918)|positive regulation of apoptotic process (GO:0043065)|positive regulation of receptor recycling (GO:0001921)|protein localization to adherens junction (GO:0071896)|single organismal cell-cell adhesion (GO:0016337)|synaptic vesicle endocytosis (GO:0048488)|synaptic vesicle targeting (GO:0016080)|viral process (GO:0016032)|wound healing (GO:0042060)	basolateral plasma membrane (GO:0016323)|cell projection (GO:0042995)|cell-cell adherens junction (GO:0005913)|cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|myelin sheath abaxonal region (GO:0035748)|plasma membrane (GO:0005886)|Scrib-APC-beta-catenin complex (GO:0034750)				NS(1)|autonomic_ganglia(1)|central_nervous_system(2)|endometrium(3)|kidney(3)|large_intestine(3)|lung(20)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	42	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)			tcctcctcctgaggactaccc	0.667																																					Pancreas(51;966 1133 10533 14576 29674)											0													89	84	86					8																	144890886		2203	4300	6503	SO:0001587	stop_gained	23513			AY062238	CCDS6411.1, CCDS6412.1	8q24.3	2013-03-05	2013-03-05		ENSG00000180900	ENSG00000180900			30377	protein-coding gene	gene with protein product		607733	"scribbled homolog (Drosophila)"			11027293, 14681682	Standard	NM_182706		Approved	KIAA0147, SCRB1, Vartul	uc003yzo.1	Q14160	OTTHUMG00000165154	ENST00000320476.3:c.2008C>T	8.37:g.144890886G>A	ENSP00000322938:p.Gln670*	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P496|Q7Z5D1|Q8WWV8|Q96C69|Q96GG1	Nonsense_Mutation	SNP	ENST00000320476.3	37	CCDS6411.1	.	.	.	.	.	.	.	.	.	.	g	36	5.722268	0.96839	.	.	ENSG00000180900	ENST00000356994;ENST00000320476;ENST00000377533;ENST00000377539	.	.	.	1.38	-0.764	0.11027	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.07325	T	0.83	.	5.1013	0.14760	0.0:0.2124:0.5761:0.2115	.	.	.	.	X	670;670;589;39	.	ENSP00000322938:Q670X	Q	-	1	0	SCRIB	144962874	0.000000	0.05858	0.085000	0.20634	0.044000	0.14063	-0.134000	0.10436	0.194000	0.20326	0.197000	0.17608	CAG		0.667	SCRIB-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000382215.1	NM_015356		A	144890886	G	A	144890886	4	1	669	1	0	0	0	0	0	1	0	0	13950	1299	45	2	3051	2	SCRIB	8	144890886	Nonsense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	932595	144890886	1473136	92	42894										
FOXD4	2298	broad.mit.edu	37	chr9	117662	117663	+	Frame_Shift_Ins	INS	-	-	G													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gttcagcgagaggttgtggcINSggatgctgttctgccaggcg							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr9:117662_117663insG	ENST00000382500.2	-	1	754_755	c.457_458insC	c.(457-459)cgcfs	p.R153fs		NM_207305.4	NP_997188.2	Q12950	FOXD4_HUMAN	forkhead box D4	153					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding, bending (GO:0008301)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(5)|large_intestine(2)|lung(3)|prostate(1)|skin(3)	14	all_lung(41;0.218)	all_cancers(5;0.0395)|Acute lymphoblastic leukemia(5;1.91e-07)|all_hematologic(5;1.95e-06)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GAGGTTGTGGCGGATGCTGTTC	0.658																																																0																																										SO:0001589	frameshift_variant	2298			U13223	CCDS34975.1	9p24.3	2014-09-17			ENSG00000170122	ENSG00000170122		"Forkhead boxes"	3805	protein-coding gene	gene with protein product		601092		FKHL9		7957066, 8825632, 12234674	Standard	NM_207305		Approved	FREAC5, FOXD4a	uc003zfz.4	Q12950	OTTHUMG00000021015	ENST00000382500.2:c.458dupC	9.37:g.117664_117664dupG	ENSP00000371940:p.Arg153fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN05|B9EGL7|Q5VVK1|Q8WXT6	Frame_Shift_Ins	INS	ENST00000382500.2	37	CCDS34975.1																																																																																				0.658	FOXD4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055433.1	NM_207305		G	117663	-	G	117662	7	5	669	1	0	1	1	0	0	0	0	0	6006	768	27	0	865	0	FOXD4	9	117662	Frame_Shift_Ins	INS	-	TCGA-KN-8433-01A-11D-2310-10		117662	141095769	93	42895										
AQP7	364	mdanderson.org	37	chr9	33385690	33385690	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	agcaatgaaggtgaagatgcGggggggcaggtcccgggacg	20	7	0	3	rs139024279		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr9:33385690G>T	ENST00000537089.1	-	6	742	c.424C>A	c.(424-426)Cgc>Agc	p.R142S	AQP7_ENST00000377425.4_Missense_Mutation_p.R177S|AQP7_ENST00000541274.1_Missense_Mutation_p.P102Q|AQP7_ENST00000539936.1_Missense_Mutation_p.R234S			O14520	AQP7_HUMAN	aquaporin 7	234					excretion (GO:0007588)|generation of precursor metabolites and energy (GO:0006091)|glycerol transport (GO:0015793)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	glycerol channel activity (GO:0015254)|water channel activity (GO:0015250)	p.R234fs*35(1)		NS(1)|large_intestine(1)|lung(7)|ovary(1)|prostate(4)|skin(2)|stomach(1)	17			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.191)		GTGAAGATGCGGGGGGGCAGG	0.577																																																1	Insertion - Frameshift(1)	lung(1)											74	81	78					9																	33385690		2203	4300	6503	SO:0001583	missense	364			AB006190	CCDS6541.1	9p13	2008-02-05			ENSG00000165269	ENSG00000165269		"Ion channels / Aquaporins"	640	protein-coding gene	gene with protein product		602974		AQP7L		9252401	Standard	NM_001170		Approved	AQP9, AQPap	uc003zst.3	O14520	OTTHUMG00000019773	ENST00000537089.1:c.424C>A	9.37:g.33385690G>T	ENSP00000441619:p.Arg142Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q08E94|Q5T5L9|Q8NHM3	Missense_Mutation	SNP	ENST00000537089.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	g|g	14.50|14.50	2.553881|2.553881	0.45487|0.45487	.|.	.|.	ENSG00000165269|ENSG00000165269	ENST00000541274|ENST00000537089;ENST00000379507;ENST00000447660;ENST00000297988;ENST00000377425;ENST00000439678;ENST00000379506;ENST00000539936;ENST00000379503	T|T;T;T;T;T;T;T;T;T	0.57273|0.13196	0.41|2.61;2.61;2.61;2.61;2.61;2.61;2.61;2.61;2.61	5.04|5.04	4.07|4.07	0.47477|0.47477	.|Aquaporin-like (2);	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.49474|0.49474	0.1559|0.1559	H|H	0.97315|0.97315	3.98|3.98	0.58432|0.58432	D|D	0.999997|0.999997	P|D;P;P;P	0.39216|0.55800	0.664|0.973;0.872;0.525;0.795	B|D;D;P;P	0.36289|0.67900	0.221|0.954;0.923;0.814;0.878	T|T	0.64550|0.64550	-0.6381|-0.6381	9|10	0.87932|0.66056	D|D	0|0.02	-16.683|-16.683	12.4686|12.4686	0.55773|0.55773	0.0:0.0:0.8227:0.1772|0.0:0.0:0.8227:0.1772	.|.	102|233;234;177;234	B7Z7F6|Q5T5M0;B7Z4U2;Q6P5T0;O14520	.|.;.;.;AQP7_HUMAN	Q|S	102|142;233;102;234;177;142;233;234;170	ENSP00000438860:P102Q|ENSP00000441619:R142S;ENSP00000368821:R233S;ENSP00000412868:R102S;ENSP00000297988:R234S;ENSP00000396111:R177S;ENSP00000410138:R142S;ENSP00000368820:R233S;ENSP00000439534:R234S;ENSP00000368817:R170S	ENSP00000438860:P102Q|ENSP00000297988:R234S	P|R	-|-	2|1	0|0	AQP7|AQP7	33375690|33375690	0.731000|0.731000	0.28111|0.28111	0.404000|0.404000	0.26397|0.26397	0.223000|0.223000	0.24884|0.24884	1.249000|1.249000	0.32839|0.32839	2.621000|2.621000	0.88768|0.88768	0.550000|0.550000	0.68814|0.68814	CCG|CGC		0.577	AQP7-202	KNOWN	basic	protein_coding	protein_coding		NM_001170		T	33385690	G	T	33385690	3	4	669	1	0	0	0	0	1	0	0	0	831	1116	39	4	336	4	AQP7	9	33385690	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	33268028	33385690	107827741	94	42896			2	112		5	3	504	N	G_C	7.695331e-06
AQP7	364	mdanderson.org	37	chr9	33386144	33386144	+	Silent	SNP	G	G	A													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gcaaaaatgccagctgtagcGacgggaccggtcaccatcag					rs76209395	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr9:33386144G>A	ENST00000537089.1	-	5	498	c.180C>T	c.(178-180)gtC>gtT	p.V60V	AQP7_ENST00000377425.4_Silent_p.V95V|AQP7_ENST00000541274.1_Intron|AQP7_ENST00000539936.1_Silent_p.V152V			O14520	AQP7_HUMAN	aquaporin 7	152					excretion (GO:0007588)|generation of precursor metabolites and energy (GO:0006091)|glycerol transport (GO:0015793)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	glycerol channel activity (GO:0015254)|water channel activity (GO:0015250)			NS(1)|large_intestine(1)|lung(7)|ovary(1)|prostate(4)|skin(2)|stomach(1)	17			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.191)		CAGCTGTAGCGACGGGACCGG	0.582																																																0													86	80	82					9																	33386144		2203	4300	6503	SO:0001819	synonymous_variant	364			AB006190	CCDS6541.1	9p13	2008-02-05			ENSG00000165269	ENSG00000165269		"Ion channels / Aquaporins"	640	protein-coding gene	gene with protein product		602974		AQP7L		9252401	Standard	NM_001170		Approved	AQP9, AQPap	uc003zst.3	O14520	OTTHUMG00000019773	ENST00000537089.1:c.180C>T	9.37:g.33386144G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q08E94|Q5T5L9|Q8NHM3	Silent	SNP	ENST00000537089.1	37																																																																																					0.582	AQP7-202	KNOWN	basic	protein_coding	protein_coding		NM_001170		A	33386144	G	A	33386144	2	1	669	1	0	0	0	0	0	0	0	1	831	1045	37	1		1	AQP7	9	33386144	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	454	33386144	107827287	95	42897	415	3	2	112		5	3	504	N	G_C	7.695331e-06
AQP7	364	mdanderson.org	37	chr9	33386146	33386146	+	Missense_Mutation	SNP	C	C	A													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aaaaatgccagctgtagcgaCgggaccggtcaccatcagct					rs76608797		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr9:33386146C>A	ENST00000537089.1	-	5	496	c.178G>T	c.(178-180)Gtc>Ttc	p.V60F	AQP7_ENST00000377425.4_Missense_Mutation_p.V95F|AQP7_ENST00000541274.1_Intron|AQP7_ENST00000539936.1_Missense_Mutation_p.V152F			O14520	AQP7_HUMAN	aquaporin 7	152					excretion (GO:0007588)|generation of precursor metabolites and energy (GO:0006091)|glycerol transport (GO:0015793)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	glycerol channel activity (GO:0015254)|water channel activity (GO:0015250)			NS(1)|large_intestine(1)|lung(7)|ovary(1)|prostate(4)|skin(2)|stomach(1)	17			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.191)		GCTGTAGCGACGGGACCGGTC	0.582																																																0													86	80	82					9																	33386146		2203	4300	6503	SO:0001583	missense	364			AB006190	CCDS6541.1	9p13	2008-02-05			ENSG00000165269	ENSG00000165269		"Ion channels / Aquaporins"	640	protein-coding gene	gene with protein product		602974		AQP7L		9252401	Standard	NM_001170		Approved	AQP9, AQPap	uc003zst.3	O14520	OTTHUMG00000019773	ENST00000537089.1:c.178G>T	9.37:g.33386146C>A	ENSP00000441619:p.Val60Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q08E94|Q5T5L9|Q8NHM3	Missense_Mutation	SNP	ENST00000537089.1	37		.	.	.	.	.	.	.	.	.	.	-	9.634	1.137210	0.21123	.	.	ENSG00000165269	ENST00000537089;ENST00000379507;ENST00000447660;ENST00000297988;ENST00000377425;ENST00000439678;ENST00000379506;ENST00000539936;ENST00000379503	D;D;D;D;D;D;D;D;D	0.85861	-2.04;-2.04;-2.04;-2.04;-2.04;-2.04;-2.04;-2.04;-2.04	3.98	-1.55	0.08558	Aquaporin-like (2);	1.211120	0.05677	N	0.589625	T	0.69233	0.3088	N	0.16166	0.38	0.09310	N	1	B;B;B;B	0.09022	0.002;0.0;0.0;0.0	B;B;B;B	0.13407	0.003;0.002;0.009;0.002	T	0.52223	-0.8604	10	0.17369	T	0.5	2.1417	4.6196	0.12444	0.0:0.225:0.4403:0.3347	.	151;152;95;152	Q5T5M0;B7Z4U2;Q6P5T0;O14520	.;.;.;AQP7_HUMAN	F	60;151;20;152;95;60;151;152;88	ENSP00000441619:V60F;ENSP00000368821:V151F;ENSP00000412868:V20F;ENSP00000297988:V152F;ENSP00000396111:V95F;ENSP00000410138:V60F;ENSP00000368820:V151F;ENSP00000439534:V152F;ENSP00000368817:V88F	ENSP00000297988:V152F	V	-	1	0	AQP7	33376146	0.000000	0.05858	0.001000	0.08648	0.055000	0.15305	0.006000	0.13152	-0.272000	0.09259	-0.320000	0.08662	GTC		0.582	AQP7-202	KNOWN	basic	protein_coding	protein_coding		NM_001170		A	33386146	C	A	33386146	3	1	669	1	0	0	0	0	1	0	0	0	831	536	19	4	586	4	AQP7	9	33386146	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	2	33386146	107827285	96	42898	415	3	2	112		5	3	504	N	G_C	7.695331e-06
AQP7	364	mdanderson.org	37	chr9	33386152	33386152	+	Missense_Mutation	SNP	C	C	A													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gccagctgtagcgacgggacCggtcaccatcagctgtccac					rs144445015	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr9:33386152C>A	ENST00000537089.1	-	5	490	c.172G>T	c.(172-174)Ggt>Tgt	p.G58C	AQP7_ENST00000377425.4_Missense_Mutation_p.G93C|AQP7_ENST00000541274.1_Intron|AQP7_ENST00000539936.1_Missense_Mutation_p.G150C			O14520	AQP7_HUMAN	aquaporin 7	150					excretion (GO:0007588)|generation of precursor metabolites and energy (GO:0006091)|glycerol transport (GO:0015793)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	glycerol channel activity (GO:0015254)|water channel activity (GO:0015250)			NS(1)|large_intestine(1)|lung(7)|ovary(1)|prostate(4)|skin(2)|stomach(1)	17			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.191)		GCGACGGGACCGGTCACCATC	0.577													-|||	2	0.000399361	0.0	0.0	5008	,	,		18166	0.002		0.0	False		,,,				2504	0.0															0													86	80	82					9																	33386152		2203	4300	6503	SO:0001583	missense	364			AB006190	CCDS6541.1	9p13	2008-02-05			ENSG00000165269	ENSG00000165269		"Ion channels / Aquaporins"	640	protein-coding gene	gene with protein product		602974		AQP7L		9252401	Standard	NM_001170		Approved	AQP9, AQPap	uc003zst.3	O14520	OTTHUMG00000019773	ENST00000537089.1:c.172G>T	9.37:g.33386152C>A	ENSP00000441619:p.Gly58Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q08E94|Q5T5L9|Q8NHM3	Missense_Mutation	SNP	ENST00000537089.1	37		.	.	.	.	.	.	.	.	.	.	-	25.7	4.668622	0.88348	.	.	ENSG00000165269	ENST00000537089;ENST00000379507;ENST00000447660;ENST00000297988;ENST00000377425;ENST00000439678;ENST00000379506;ENST00000539936;ENST00000379503	T;T;T;T;T;T;T;T;T	0.13307	2.6;2.6;2.6;2.6;2.6;2.6;2.6;2.6;2.6	3.98	3.98	0.46160	Aquaporin-like (2);	0.096735	0.64402	D	0.000001	T	0.45498	0.1345	M	0.93678	3.445	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	1.0;0.999;1.0;0.998	T	0.56727	-0.7931	10	0.87932	D	0	-10.2624	11.903	0.52694	0.0:1.0:0.0:0.0	.	149;150;93;150	Q5T5M0;B7Z4U2;Q6P5T0;O14520	.;.;.;AQP7_HUMAN	C	58;149;18;150;93;58;149;150;86	ENSP00000441619:G58C;ENSP00000368821:G149C;ENSP00000412868:G18C;ENSP00000297988:G150C;ENSP00000396111:G93C;ENSP00000410138:G58C;ENSP00000368820:G149C;ENSP00000439534:G150C;ENSP00000368817:G86C	ENSP00000297988:G150C	G	-	1	0	AQP7	33376152	1.000000	0.71417	0.138000	0.22173	0.379000	0.30106	6.942000	0.75928	2.507000	0.84556	0.645000	0.84053	GGT		0.577	AQP7-202	KNOWN	basic	protein_coding	protein_coding		NM_001170		A	33386152	C	A	33386152	3	1	669	1	0	0	0	0	1	0	0	0	831	652	23	4	592	4	AQP7	9	33386152	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	6	33386152	107827279	97	42899	415	3	2	112		5	3	504	N	G_C	7.695331e-06
AQP7	364	mdanderson.org	37	chr9	33386193	33386193	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ccgaaaagtggagaatggccGctgcggagacacagactgtc	14	10	0	3	rs199840488		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr9:33386193G>A	ENST00000537089.1	-	5	449	c.131C>T	c.(130-132)aCg>aTg	p.T44M	AQP7_ENST00000377425.4_Splice_Site_p.T79M|AQP7_ENST00000541274.1_Intron|AQP7_ENST00000539936.1_Splice_Site_p.T136M			O14520	AQP7_HUMAN	aquaporin 7	136					excretion (GO:0007588)|generation of precursor metabolites and energy (GO:0006091)|glycerol transport (GO:0015793)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	glycerol channel activity (GO:0015254)|water channel activity (GO:0015250)			NS(1)|large_intestine(1)|lung(7)|ovary(1)|prostate(4)|skin(2)|stomach(1)	17			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.191)		GAGAATGGCCGCTGCGGAGAC	0.567																																																0													71	70	70					9																	33386193		2203	4300	6503	SO:0001630	splice_region_variant	364			AB006190	CCDS6541.1	9p13	2008-02-05			ENSG00000165269	ENSG00000165269		"Ion channels / Aquaporins"	640	protein-coding gene	gene with protein product		602974		AQP7L		9252401	Standard	NM_001170		Approved	AQP9, AQPap	uc003zst.3	O14520	OTTHUMG00000019773	ENST00000537089.1:c.131-1C>T	9.37:g.33386193G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q08E94|Q5T5L9|Q8NHM3	Missense_Mutation	SNP	ENST00000537089.1	37		.	.	.	.	.	.	.	.	.	.	-	17.06	3.291580	0.59976	.	.	ENSG00000165269	ENST00000537089;ENST00000379507;ENST00000447660;ENST00000297988;ENST00000377425;ENST00000439678;ENST00000379506;ENST00000539936;ENST00000379503	T;T;T;T;T;T;T;T;T	0.11821	2.74;2.74;2.74;2.74;2.74;2.74;2.74;2.74;2.74	3.98	-7.38	0.01407	Aquaporin-like (2);	2.946990	0.01163	N	0.006685	T	0.09158	0.0226	L	0.43923	1.385	0.09310	N	1	B;B;B;P	0.35780	0.174;0.16;0.174;0.52	B;B;B;B	0.26202	0.008;0.067;0.046;0.011	T	0.20174	-1.0283	10	0.87932	D	0	.	3.8747	0.09051	0.0816:0.336:0.1506:0.4317	.	135;136;79;136	Q5T5M0;B7Z4U2;Q6P5T0;O14520	.;.;.;AQP7_HUMAN	M	44;135;4;136;79;44;135;136;72	ENSP00000441619:T44M;ENSP00000368821:T135M;ENSP00000412868:T4M;ENSP00000297988:T136M;ENSP00000396111:T79M;ENSP00000410138:T44M;ENSP00000368820:T135M;ENSP00000439534:T136M;ENSP00000368817:T72M	ENSP00000297988:T136M	T	-	2	0	AQP7	33376193	0.000000	0.05858	0.002000	0.10522	0.883000	0.51084	-0.324000	0.07986	-1.638000	0.01529	0.645000	0.84053	ACG		0.567	AQP7-202	KNOWN	basic	protein_coding	protein_coding		NM_001170	Missense_Mutation	A	33386193	G	A	33386193	5	1	669	1	0	0	0	0	0	0	1	0	831	1101	38	1	633	1	AQP7	9	33386193	Splice_Site	SNP	G	TCGA-KN-8433-01A-11D-2310-10	41	33386193	107827238	98	42900			2	112		5	3	504	N	G_C	7.695331e-06
PRSS3	5646	mdanderson.org	37	chr9	33796672	33796673	+	Missense_Mutation	DNP	TG	TG	CA													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tttgacgatgatgacaagatTgttgggggctacacctgtga					rs77765166|rs76740888		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr9:33796672_33796673TG>CA	ENST00000361005.5	+	2	243_244	c.243_244TG>CA	c.(241-246)atTGtt>atCAtt	p.V82I	PRSS3_ENST00000342836.4_Missense_Mutation_p.V39I|PRSS3_ENST00000429677.3_Missense_Mutation_p.V18I|RP11-133O22.6_ENST00000454429.2_RNA|PRSS3_ENST00000379405.3_Missense_Mutation_p.V25I	NM_007343.3	NP_031369	P35030	TRY3_HUMAN	protease, serine, 3	82	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|endothelial cell migration (GO:0043542)|innate immune response (GO:0045087)|proteolysis (GO:0006508)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)|zymogen activation (GO:0031638)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			large_intestine(3)|lung(4)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	13			LUSC - Lung squamous cell carcinoma(29;0.0176)			ATGACAAGATTGTTGGGGGCTA	0.554																																																0																																										SO:0001583	missense	5646				CCDS6545.1, CCDS47958.1, CCDS56570.1, CCDS56571.1	9p13	2010-05-07	2008-03-11		ENSG00000010438	ENSG00000010438	3.4.21.4	"Serine peptidases / Serine peptidases"	9486	protein-coding gene	gene with protein product	"mesotrypsin"	613578	"protease, serine, 4 (trypsin 4, brain)", "protease, serine, 3 (mesotrypsin)"	PRSS4		2326201, 8294000	Standard	NM_002771		Approved	TRY3, TRY4	uc003ztj.4	P35030	OTTHUMG00000019798	Exception_encountered	9.37:g.33796672_33796673delinsCA	ENSP00000354280:p.Val82Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8CED1|A8CED3|A9Z1Y4|E7ES07|F8W7P3|P15951|Q15665|Q5VXV0|Q6ISJ4|Q9UQV3	Missense_Mutation	DNP	ENST00000361005.5	37	CCDS47958.1																																																																																				0.554	PRSS3-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000052121.1	NM_002771		CA	33796673	TG	CA	33796672	3	2	669	1	0	0	0	0	1	0	0	0	12632	1800	63	3	293	3	PRSS3	9	33796672	Missense_Mutation	DNP	TG	TCGA-KN-8433-01A-11D-2310-10	410479	33796672	107416759	99	42901										
ALDH1B1	219	mdanderson.org;bcgsc.ca	37	chr9	38396065	38396065	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gcggggccggctgctgaaccGcctggcagacctagtggagc	17	13	0	2	rs2073478	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr9:38396065G>T	ENST00000377698.3	+	2	473	c.320G>T	c.(319-321)cGc>cTc	p.R107L		NM_000692.4	NP_000683.3	P30837	AL1B1_HUMAN	aldehyde dehydrogenase 1 family, member B1	107			L -> R (in allele ALDHA1B1*3; dbSNP:rs2073478). {ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:15164053, ECO:0000269|PubMed:8244338}.		carbohydrate metabolic process (GO:0005975)|ethanol catabolic process (GO:0006068)	intracellular membrane-bounded organelle (GO:0043231)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	aldehyde dehydrogenase (NAD) activity (GO:0004029)			NS(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(11)|prostate(1)|skin(1)|stomach(2)|urinary_tract(2)	32				GBM - Glioblastoma multiforme(29;0.043)|Lung(182;0.115)		CTGCTGAACCGCCTGGCAGAC	0.627													G|||	1978	0.394968	0.2572	0.3646	5008	,	,		17971	0.3036		0.6093	False		,,,				2504	0.4765															0								G	LEU/ARG	1354,3052	450.6+/-349.4	214,926,1063	80	89	86		320	2.8	1	9	dbSNP_96	86	5192,3408	639.3+/-399.4	1574,2044,682	yes	missense	ALDH1B1	NM_000692.4	102	1788,2970,1745	TT,TG,GG		39.6279,30.7308,49.6694	benign	107/518	38396065	6546,6460	2203	4300	6503	SO:0001583	missense	219			M63967	CCDS6615.1	9p13	2008-02-05			ENSG00000137124	ENSG00000137124	1.2.1.3	"Aldehyde dehydrogenases"	407	protein-coding gene	gene with protein product		100670		ALDH5		2061311	Standard	NM_000692		Approved	ALDHX	uc004aay.3	P30837	OTTHUMG00000019938	ENST00000377698.3:c.320G>T	9.37:g.38396065G>T	ENSP00000366927:p.Arg107Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8F0|Q8WX76|Q9BV45	Missense_Mutation	SNP	ENST00000377698.3	37	CCDS6615.1	917	0.4198717948717949	140	0.2845528455284553	156	0.430939226519337	167	0.291958041958042	454	0.5989445910290238	G	17.79	3.476510	0.63737	0.307308	0.603721	ENSG00000137124	ENST00000377698	T	0.78246	-1.16	5.61	2.79	0.32731	.	0.182441	0.37761	N	0.001953	T	0.00012	0.0000	.	.	.	0.23563	P	0.99740854	.	.	.	.	.	.	T	0.48758	-0.9007	6	0.72032	D	0.01	.	7.7413	0.28843	0.1173:0.0:0.7444:0.1383	rs2073478;rs17844915;rs17857639;rs56596067;rs60107705;rs2073478	.	.	.	L	107	ENSP00000366927:R107L	ENSP00000366927:R107L	R	+	2	0	ALDH1B1	38386065	0.493000	0.26035	0.990000	0.47175	0.995000	0.86356	2.228000	0.42981	0.332000	0.23536	0.655000	0.94253	CGC		0.627	ALDH1B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052492.1			T	38396065	G	T	38396065	3	4	669	1	0	0	0	0	1	0	0	0	493	1087	38	4	322	4	ALDH1B1	9	38396065	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	4599393	38396065	102817366	100	42902										
CNTNAP3	79937	mdanderson.org	37	chr9	39140621	39140621	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gtgcttgtgggcttcacaagActgctcgtagagagctgtag	14	8	1	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr9:39140621A>G	ENST00000297668.6	-	12	1844	c.1771T>C	c.(1771-1773)Tct>Cct	p.S591P	CNTNAP3_ENST00000358144.2_Missense_Mutation_p.S503P|CNTNAP3_ENST00000323947.7_Missense_Mutation_p.S498P|CNTNAP3_ENST00000377659.1_Missense_Mutation_p.S591P|CNTNAP3_ENST00000377656.2_Missense_Mutation_p.S591P	NM_033655.3	NP_387504.2	Q9BZ76	CNTP3_HUMAN	contactin associated protein-like 3	591	Fibrinogen C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00739}.				cell adhesion (GO:0007155)|cell recognition (GO:0008037)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(1)|endometrium(3)|kidney(2)|large_intestine(5)|liver(2)|lung(8)|ovary(1)|upper_aerodigestive_tract(2)	24				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		GCTTCACAAGACTGCTCGTAG	0.463																																																0													28	32	31					9																	39140621		2202	4299	6501	SO:0001583	missense	79937			AF333769	CCDS6616.1	9q12	2008-02-05			ENSG00000106714	ENSG00000106714			13834	protein-coding gene	gene with protein product	"cell recognition molecule CASPR3 (FLJ14195, KIAA1714)"	610517				12093160	Standard	NM_033655		Approved	CASPR3, KIAA1714, FLJ14195, CNTNAP3A	uc004abi.3	Q9BZ76	OTTHUMG00000019954	ENST00000297668.6:c.1771T>C	9.37:g.39140621A>G	ENSP00000297668:p.Ser591Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B1AMA0|Q9C0E9	Missense_Mutation	SNP	ENST00000297668.6	37	CCDS6616.1	.	.	.	.	.	.	.	.	.	.	A	12.90	2.076280	0.36662	.	.	ENSG00000106714	ENST00000297668;ENST00000377656;ENST00000358144;ENST00000323947;ENST00000377659	T;T;T;T;T	0.35048	1.33;1.33;1.33;1.33;1.33	2.85	2.85	0.33270	Fibrinogen, alpha/beta/gamma chain, C-terminal globular (5);Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1 (1);	.	.	.	.	T	0.65037	0.2653	M	0.92604	3.325	0.35856	D	0.827122	D;D;D;D;D	0.89917	0.999;1.0;0.999;1.0;0.999	D;D;D;D;D	0.91635	0.98;0.997;0.991;0.999;0.995	T	0.76429	-0.2962	9	0.66056	D	0.02	.	10.1498	0.42786	1.0:0.0:0.0:0.0	.	498;591;591;591;591	E2QRH2;Q96NU0;Q9BZ76-2;A6NC89;Q9BZ76	.;CNT3B_HUMAN;.;.;CNTP3_HUMAN	P	591;591;503;498;591	ENSP00000297668:S591P;ENSP00000366884:S591P;ENSP00000350863:S503P;ENSP00000320728:S498P;ENSP00000366887:S591P	ENSP00000297668:S591P	S	-	1	0	CNTNAP3	39130621	1.000000	0.71417	0.576000	0.28549	0.024000	0.10985	7.878000	0.87231	1.304000	0.44892	0.361000	0.22055	TCT		0.463	CNTNAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052511.1	NM_033655		G	39140621	A	G	39140621	3	3	669	1	0	0	0	0	1	0	0	0	3650	275	10	3	2147	3	CNTNAP3	9	39140621	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	744556	39140621	102072810	101	42903										
C5	727	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr9	123783821	123783821	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ccgtcactccagatgggagaTtaagcacaaaggaagctact	10	10	1	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr9:123783821T>C	ENST00000223642.1	-	11	1297	c.1268A>G	c.(1267-1269)aAt>aGt	p.N423S		NM_001735.2	NP_001726.2	P01031	CO5_HUMAN	complement component 5	423					activation of MAPK activity (GO:0000187)|cell chemotaxis (GO:0060326)|cell surface receptor signaling pathway (GO:0007166)|cellular calcium ion homeostasis (GO:0006874)|chemotaxis (GO:0006935)|complement activation (GO:0006956)|complement activation, alternative pathway (GO:0006957)|complement activation, classical pathway (GO:0006958)|cytolysis (GO:0019835)|G-protein coupled receptor signaling pathway (GO:0007186)|glucose homeostasis (GO:0042593)|in utero embryonic development (GO:0001701)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|leukocyte migration involved in inflammatory response (GO:0002523)|negative regulation of dopamine secretion (GO:0033602)|negative regulation of macrophage chemotaxis (GO:0010760)|negative regulation of norepinephrine secretion (GO:0010700)|positive regulation of angiogenesis (GO:0045766)|positive regulation of chemokine secretion (GO:0090197)|positive regulation of chemotaxis (GO:0050921)|positive regulation vascular endothelial growth factor production (GO:0010575)|regulation of complement activation (GO:0030449)|response to stress (GO:0006950)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane attack complex (GO:0005579)	chemokine activity (GO:0008009)|endopeptidase inhibitor activity (GO:0004866)|receptor binding (GO:0005102)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(7)|kidney(2)|large_intestine(14)|lung(5)|ovary(2)|prostate(4)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	46				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)|Intravenous Immunoglobulin(DB00028)	AGATGGGAGATTAAGCACAAA	0.418																																																0													172	140	151					9																	123783821		2203	4300	6503	SO:0001583	missense	727			M57729	CCDS6826.1	9q33-q34	2014-09-17			ENSG00000106804	ENSG00000106804		"Complement system", "Endogenous ligands"	1331	protein-coding gene	gene with protein product	"prepro-C5", "C5a anaphylatoxin"	120900					Standard	NM_001735		Approved	CPAMD4, C5a, C5b	uc004bkv.3	P01031	OTTHUMG00000020579	ENST00000223642.1:c.1268A>G	9.37:g.123783821T>C	ENSP00000223642:p.Asn423Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q14CJ0|Q27I61	Missense_Mutation	SNP	ENST00000223642.1	37	CCDS6826.1	.	.	.	.	.	.	.	.	.	.	T	22.9	4.353403	0.82243	.	.	ENSG00000106804	ENST00000223642;ENST00000430906	T	0.36340	1.26	5.97	5.97	0.96955	.	0.041242	0.85682	D	0.000000	T	0.67154	0.2863	M	0.89715	3.055	0.47183	D	0.999349	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.994	T	0.71866	-0.4463	10	0.44086	T	0.13	.	15.642	0.77012	0.0:0.0:0.0:1.0	.	494;423	Q59GS8;P01031	.;CO5_HUMAN	S	423;494	ENSP00000223642:N423S	ENSP00000223642:N423S	N	-	2	0	C5	122823642	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	5.307000	0.65762	2.288000	0.76882	0.533000	0.62120	AAT		0.418	C5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053844.1	NM_001735		C	123783821	T	C	123783821	3	2	669	1	0	0	0	0	1	0	0	0	2282	1493	52	3	3886	3	C5	9	123783821	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	84643200	123783821	17429610	102	42904										
SFTPA1	653509	mdanderson.org	37	chr10	81371398	81371398	+	Intron	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gaggccatgccaggtgccagGtgatgctgggaattttcccg	15	10	0	1	rs3997773	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr10:81371398G>A	ENST00000398636.3	+	3	115				SFTPA1_ENST00000372313.5_Intron|SFTPA1_ENST00000428376.2_Intron|SFTPA1_ENST00000372308.3_Splice_Site|SFTPA1_ENST00000419470.2_Splice_Site	NM_001164644.1|NM_001164646.1|NM_005411.4	NP_001158116.1|NP_001158118.1|NP_005402.3	Q8IWL2	SFTA1_HUMAN	surfactant protein A1						lipid transport (GO:0006869)|respiratory gaseous exchange (GO:0007585)	collagen trimer (GO:0005581)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	carbohydrate binding (GO:0030246)|lipid transporter activity (GO:0005319)			endometrium(1)|lung(8)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	12	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			CAGGTGCCAGGTGATGCTGGG	0.642													g|||	11	0.00219649	0.0053	0.0043	5008	,	,		17545	0.0		0.0	False		,,,				2504	0.001															0													28	34	32					10																	81371398		692	1591	2283	SO:0001627	intron_variant	653509			BC026229	CCDS44444.1, CCDS44445.1, CCDS44444.2	10q22.3	2012-11-02	2008-08-26			ENSG00000122852		"Collectins"	10798	protein-coding gene	gene with protein product	"surfactant, pulmonary-associated protein A1A"	178630	"surfactant, pulmonary-associated protein A1"	SFTP1			Standard	NM_001093770		Approved	SP-A, SP-A1, COLEC4	uc009xry.3	Q8IWL2		ENST00000398636.3:c.-23-161G>A	10.37:g.81371398G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K3T8|B7ZW50|E3VLD8|E3VLD9|E3VLE0|E3VLE1|G5E9J3|P07714|Q14DV4|Q5RIR5|Q5RIR7|Q6PIT0|Q8TC19	Splice_Site	SNP	ENST00000398636.3	37	CCDS44445.1	95	0.043498168498168496	15	0.03048780487804878	10	0.027624309392265192	22	0.038461538461538464	48	0.0633245382585752	g	5.406	0.260129	0.10239	.	.	ENSG00000122852	ENST00000419470	.	.	.	2.71	0.308	0.15815	.	.	.	.	.	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	4.9149	0.13840	0.7088:0.0:0.2912:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	SFTPA1	81041404	0.001000	0.12720	0.002000	0.10522	0.161000	0.22273	0.952000	0.29149	0.022000	0.15160	-0.832000	0.03076	.		0.642	SFTPA1-203	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_005411		A	81371398	G	A	81371398	1	1	669	0	1	0	0	0	0	0	0	0	14202	1275	44	2		2	SFTPA1	10	81371398	Intron	SNP	G	TCGA-KN-8433-01A-11D-2310-10		81371398	54163349	103	42905										
FAM35A	54537	mdanderson.org	37	chr10	88911273	88911273	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttatatctgaaggatgaaaaAcagcacaaaaatcttgaaaa	6	5	2	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr10:88911273A>G	ENST00000298784.1	+	3	276	c.162A>G	c.(160-162)aaA>aaG	p.K54K	RN7SL733P_ENST00000582253.1_RNA|FAM35A_ENST00000298786.4_Silent_p.K54K	NM_019054.2	NP_061927.2	Q86V20	FA35A_HUMAN	family with sequence similarity 35, member A	54										endometrium(2)|kidney(2)|large_intestine(5)|lung(1)|ovary(2)|prostate(2)|skin(2)	16						AGGATGAAAAACAGCACAAAA	0.348																																					Ovarian(175;703 2004 25460 32514 43441)											0													36	38	37					10																	88911273		2202	4297	6499	SO:0001819	synonymous_variant	54537			BC051863	CCDS7383.1	10q23.2	2010-06-02			ENSG00000122376	ENSG00000122376			28773	protein-coding gene	gene with protein product						8619474, 9110174	Standard	NM_019054		Approved	MGC5560, bA163M19.1, FAM35A1	uc001kei.4	Q86V20	OTTHUMG00000018669	ENST00000298784.1:c.162A>G	10.37:g.88911273A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O95885|Q9H991	Silent	SNP	ENST00000298784.1	37	CCDS7383.1																																																																																				0.348	FAM35A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049196.2	NM_019054		G	88911273	A	G	88911273	2	3	669	1	0	0	0	0	0	0	0	1	5560	40	2	3		3	FAM35A	10	88911273	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	7539875	88911273	46623474	104	42906										
CHUK	1147	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr10	101969426	101969426	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgtctctgaaagaagttcttGagaaccagtatttattccag	8	7	2	3	rs34838525		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr10:101969426G>A	ENST00000370397.7	-	10	1140	c.1054C>T	c.(1054-1056)Caa>Taa	p.Q352*		NM_001278.3	NP_001269.3	O15111	IKKA_HUMAN	conserved helix-loop-helix ubiquitous kinase	352					anatomical structure morphogenesis (GO:0009653)|cellular response to tumor necrosis factor (GO:0071356)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|I-kappaB phosphorylation (GO:0007252)|immune response (GO:0006955)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|lactation (GO:0007595)|mammary gland alveolus development (GO:0060749)|mammary gland epithelial cell proliferation (GO:0033598)|morphogenesis of an epithelial sheet (GO:0002011)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|neurotrophin TRK receptor signaling pathway (GO:0048011)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|odontogenesis of dentin-containing tooth (GO:0042475)|osteoclast differentiation (GO:0030316)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of type I interferon production (GO:0032481)|protein phosphorylation (GO:0006468)|response to amino acid (GO:0043200)|response to drug (GO:0042493)|response to hydroperoxide (GO:0033194)|response to lipopolysaccharide (GO:0032496)|response to toxic substance (GO:0009636)|response to virus (GO:0009615)|Rho protein signal transduction (GO:0007266)|skeletal muscle contraction (GO:0003009)|striated muscle cell differentiation (GO:0051146)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	CD40 receptor complex (GO:0035631)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|IkappaB kinase complex (GO:0008385)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	ATP binding (GO:0005524)|IkappaB kinase activity (GO:0008384)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|protein kinase activity (GO:0004672)|scaffold protein binding (GO:0097110)			breast(1)|central_nervous_system(2)|endometrium(2)|large_intestine(9)|lung(8)|ovary(2)|prostate(1)|skin(1)|stomach(1)	27		Colorectal(252;0.117)		Epithelial(162;2.05e-10)|all cancers(201;1.91e-08)	Acetylcysteine(DB06151)|Aminosalicylic Acid(DB00233)|Mesalazine(DB00244)|Sulfasalazine(DB00795)	AGAAGTTCTTGAGAACCAGTA	0.373																																					Ovarian(159;52 1904 10536 35305 37148)											0													69	70	69					10																	101969426		2203	4300	6503	SO:0001587	stop_gained	1147			AF009225	CCDS7488.1	10q24-q25	2008-08-01			ENSG00000213341	ENSG00000213341			1974	protein-coding gene	gene with protein product		600664		TCF16		7558004, 16902410	Standard	XR_246062		Approved	IKK1, IKK-alpha, IkBKA, NFKBIKA, IKKA	uc001kqp.3	O15111	OTTHUMG00000018899	ENST00000370397.7:c.1054C>T	10.37:g.101969426G>A	ENSP00000359424:p.Gln352*	Somatic		WXS	Illumina HiSeq	Phase_I	O14666|Q13132|Q5W0I4|Q92467	Nonsense_Mutation	SNP	ENST00000370397.7	37	CCDS7488.1	.	.	.	.	.	.	.	.	.	.	G	37	6.269173	0.97431	.	.	ENSG00000213341	ENST00000370397	.	.	.	5.93	5.93	0.95920	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	-12.278	17.8404	0.88713	0.0:0.0:1.0:0.0	.	.	.	.	X	352	.	ENSP00000359424:Q352X	Q	-	1	0	CHUK	101959416	1.000000	0.71417	1.000000	0.80357	0.889000	0.51656	9.869000	0.99810	2.798000	0.96311	0.655000	0.94253	CAA		0.373	CHUK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049836.1	NM_001278		A	101969426	G	A	101969426	4	1	669	1	0	0	0	0	0	1	0	0	3418	1299	45	2	1231	2	CHUK	10	101969426	Nonsense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	13058153	101969426	33565321	105	42907										
SLK	9748	hgsc.bcm.edu	37	chr10	105762029	105762030	+	Frame_Shift_Ins	INS	-	-	A													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tattttggagtctgtctcagINSaaaaaacagaacgtagtaac							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr10:105762029_105762030insA	ENST00000369755.3	+	9	1638_1639	c.1093_1094insA	c.(1093-1095)gaafs	p.E365fs	SLK_ENST00000335753.4_Frame_Shift_Ins_p.E365fs	NM_014720.2	NP_055535.2	Q9H2G2	SLK_HUMAN	STE20-like kinase	365	Glu-rich.				apoptotic process (GO:0006915)|protein autophosphorylation (GO:0046777)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|protein homodimerization activity (GO:0042803)|protein serine/threonine kinase activity (GO:0004674)			kidney(1)|lung(1)|ovary(2)|skin(2)|stomach(2)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		GTCTGTCTCAGAAAAAACAGAA	0.386																																					NSCLC(111;540 1651 1927 4474 17706)											0																																										SO:0001589	frameshift_variant	9748				CCDS7553.1	10q25.1	2010-06-25	2010-06-25		ENSG00000065613	ENSG00000065613			11088	protein-coding gene	gene with protein product			"SNF1 (sucrose nonfermenting, yeast, homolog)-like kinase, SNF1 sucrose nonfermenting like kinase (yeast)", "STE20-like kinase (yeast)"			3526554	Standard	NM_014720		Approved	STK2, se20-9, KIAA0204	uc001kxo.1	Q9H2G2	OTTHUMG00000018999	ENST00000369755.3:c.1099dupA	10.37:g.105762035_105762035dupA	ENSP00000358770:p.Glu365fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRA0|D3DRA1|O00211|Q6P1Z4|Q86WU7|Q86WW1|Q92603|Q9NQL0|Q9NQL1	Frame_Shift_Ins	INS	ENST00000369755.3	37	CCDS7553.1																																																																																				0.386	SLK-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050188.1	NM_014720		A	105762030	-	A	105762029	7	5	669	1	0	1	1	0	0	0	0	0	14761	943	33	0	1127	0	SLK	10	105762029	Frame_Shift_Ins	INS	-	TCGA-KN-8433-01A-11D-2310-10	3792603	105762029	29772718	106	42908	416	2								
SLK	9748	bcgsc.ca	37	chr10	105762030	105762031	+	Frame_Shift_Ins	INS	-	-	A													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	attttggagtctgtctcagaINSaaaaacagaacgtagtaact							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr10:105762030_105762031insA	ENST00000369755.3	+	9	1639_1640	c.1094_1095insA	c.(1093-1098)gaaaaafs	p.EK365fs	SLK_ENST00000335753.4_Frame_Shift_Ins_p.EK365fs	NM_014720.2	NP_055535.2	Q9H2G2	SLK_HUMAN	STE20-like kinase	365	Glu-rich.				apoptotic process (GO:0006915)|protein autophosphorylation (GO:0046777)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|protein homodimerization activity (GO:0042803)|protein serine/threonine kinase activity (GO:0004674)			kidney(1)|lung(1)|ovary(2)|skin(2)|stomach(2)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		TCTGTCTCAGAAAAAACAGAAC	0.386																																					NSCLC(111;540 1651 1927 4474 17706)											0																																										SO:0001589	frameshift_variant	9748				CCDS7553.1	10q25.1	2010-06-25	2010-06-25		ENSG00000065613	ENSG00000065613			11088	protein-coding gene	gene with protein product			"SNF1 (sucrose nonfermenting, yeast, homolog)-like kinase, SNF1 sucrose nonfermenting like kinase (yeast)", "STE20-like kinase (yeast)"			3526554	Standard	NM_014720		Approved	STK2, se20-9, KIAA0204	uc001kxo.1	Q9H2G2	OTTHUMG00000018999	ENST00000369755.3:c.1099dupA	10.37:g.105762035_105762035dupA	ENSP00000358770:p.Glu365fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRA0|D3DRA1|O00211|Q6P1Z4|Q86WU7|Q86WW1|Q92603|Q9NQL0|Q9NQL1	Frame_Shift_Ins	INS	ENST00000369755.3	37	CCDS7553.1																																																																																				0.386	SLK-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050188.1	NM_014720		A	105762031	-	A	105762030	7	5	669	1	0	1	1	0	0	0	0	0	14761	246	9	0	1128	0	SLK	10	105762030	Frame_Shift_Ins	INS	-	TCGA-KN-8433-01A-11D-2310-10	1	105762030	29772717	107	42909	416	2								
MUC6	4588	mdanderson.org	37	chr11	1016243	1016243	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gacactgatgcagtcgtgggAtgagtggacaatgaggagtg	17	5	0	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:1016243A>G	ENST00000421673.2	-	31	6608	c.6558T>C	c.(6556-6558)caT>caC	p.H2186H		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	2186	Ser-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		CAGTCGTGGGATGAGTGGACA	0.547																																																0													34	37	36					11																	1016243		2144	4233	6377	SO:0001819	synonymous_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.6558T>C	11.37:g.1016243A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Silent	SNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.547	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		G	1016243	A	G	1016243	2	3	669	1	0	0	0	0	0	0	0	1	9987	330	12	3		3	MUC6	11	1016243	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10		1016243	133990273	108	42910			3	113		6	6	2098	N	T_G_AC_A	9.685436e-12
MUC6	4588	mdanderson.org	37	chr11	1016604	1016605	+	Missense_Mutation	DNP	AC	AC	GG													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggctggtcccactggtggtcActgtcattggtggggctgtg					rs147913342|rs148590913		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:1016604_1016605AC>GG	ENST00000421673.2	-	31	6246_6247	c.6196_6197GT>CC	c.(6196-6198)GTg>CCg	p.V2066P		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	2066	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		ACTGGTGGTCACTGTCATTGGT	0.579																																																0																																										SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.6196_6197delinsGG	11.37:g.1016604_1016605delinsGG	ENSP00000406861:p.Val2066Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	DNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.579	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		GG	1016605	AC	GG	1016604	3	3	669	1	0	0	0	0	1	0	0	0	9987	159	6	3	1134	3	MUC6	11	1016604	Missense_Mutation	DNP	AC	TCGA-KN-8433-01A-11D-2310-10	361	1016604	133989912	109	42911			3	113		6	6	2098	N	T_G_AC_A	9.685436e-12
MUC6	4588	mdanderson.org	37	chr11	1016770	1016770	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	caccaaggaggtggagaaagGtggaacgtgagtgggaagtg	19	4	0	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:1016770G>A	ENST00000421673.2	-	31	6081	c.6031C>T	c.(6031-6033)Cct>Tct	p.P2011S		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	2011	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)	p.P2011S(1)		breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GTGGAGAAAGGTGGAACGTGA	0.532																																																1	Substitution - Missense(1)	skin(1)																																								SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.6031C>T	11.37:g.1016770G>A	ENSP00000406861:p.Pro2011Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	0.013	-1.638370	0.00799	.	.	ENSG00000184956	ENST00000421673	T	0.17370	2.28	2.4	-4.79	0.03200	.	.	.	.	.	T	0.06735	0.0172	N	0.21194	0.64	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.39014	-0.9634	9	0.07990	T	0.79	.	1.1636	0.01810	0.3722:0.1007:0.2914:0.2356	.	2011	Q6W4X9	MUC6_HUMAN	S	2011	ENSP00000406861:P2011S	ENSP00000406861:P2011S	P	-	1	0	MUC6	1006770	0.000000	0.05858	0.000000	0.03702	0.006000	0.05464	-2.781000	0.00773	-2.945000	0.00295	-0.671000	0.03813	CCT		0.532	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1016770	G	A	1016770	3	1	669	1	0	0	0	0	1	0	0	0	9987	1261	44	2	1300	2	MUC6	11	1016770	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	166	1016770	133989746	110	42912			3	113		6	6	2098	N	T_G_AC_A	9.685436e-12
MUC6	4588	mdanderson.org	37	chr11	1017088	1017088	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cgtgctaaatgagcttggggAttggctggtcccactggtgg	16	8	0	1	rs74990443		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:1017088A>C	ENST00000421673.2	-	31	5763	c.5713T>G	c.(5713-5715)Tcc>Gcc	p.S1905A		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1905	Approximate repeats.|Thr-rich.			SP -> AA (in Ref. 5; AAA35866). {ECO:0000305}.	cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GAGCTTGGGGATTGGCTGGTC	0.547																																																0													644	677	666					11																	1017088		2200	4281	6481	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5713T>G	11.37:g.1017088A>C	ENSP00000406861:p.Ser1905Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	a	0.028	-1.355862	0.01245	.	.	ENSG00000184956	ENST00000421673	T	0.18174	2.23	3.01	-6.01	0.02199	.	.	.	.	.	T	0.02533	0.0077	N	0.00268	-1.735	0.09310	N	1	B	0.22851	0.076	B	0.30251	0.113	T	0.22487	-1.0215	9	0.07644	T	0.81	.	1.0607	0.01600	0.4226:0.139:0.111:0.3274	.	1905	Q6W4X9	MUC6_HUMAN	A	1905	ENSP00000406861:S1905A	ENSP00000406861:S1905A	S	-	1	0	MUC6	1007088	0.000000	0.05858	0.000000	0.03702	0.005000	0.04900	-3.715000	0.00385	-2.137000	0.00809	-0.672000	0.03802	TCC		0.547	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		C	1017088	A	C	1017088	3	2	669	1	0	0	0	0	1	0	0	0	9987	333	12	5	1618	5	MUC6	11	1017088	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	318	1017088	133989428	111	42913			3	113		6	6	2098	N	T_G_AC_A	9.685436e-12
MUC6	4588	mdanderson.org	37	chr11	1017226	1017226	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	agtggccatctgtgtgtgggTagggatgatgaccgtgtgag	18	5	1	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:1017226T>G	ENST00000421673.2	-	31	5625	c.5575A>C	c.(5575-5577)Acc>Ccc	p.T1859P		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1859	Approximate repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		TGTGTGTGGGTAGGGATGATG	0.562																																																0													303	303	303					11																	1017226		2191	4282	6473	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5575A>C	11.37:g.1017226T>G	ENSP00000406861:p.Thr1859Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	T	12.56	1.975777	0.34848	.	.	ENSG00000184956	ENST00000421673	T	0.28255	1.62	2.55	2.55	0.30701	.	.	.	.	.	T	0.49253	0.1546	M	0.69358	2.11	0.23602	N	0.997314	D	0.89917	1.0	D	0.85130	0.997	T	0.18681	-1.0329	9	0.41790	T	0.15	.	8.9081	0.35537	0.0:0.0:0.0:1.0	.	1859	Q6W4X9	MUC6_HUMAN	P	1859	ENSP00000406861:T1859P	ENSP00000406861:T1859P	T	-	1	0	MUC6	1007226	0.044000	0.20184	0.026000	0.17262	0.023000	0.10783	-1.754000	0.01816	1.436000	0.47453	0.260000	0.18958	ACC		0.562	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		G	1017226	T	G	1017226	3	3	669	1	0	0	0	0	1	0	0	0	9987	1638	57	5	1756	5	MUC6	11	1017226	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	138	1017226	133989290	112	42914			3	113		6	6	2098	N	T_G_AC_A	9.685436e-12
MUC6	4588	mdanderson.org	37	chr11	1018340	1018340	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cctgtggccttgagcgttgtTggtggaggaatggtacctgt	16	7	0	1	rs77556339		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:1018340T>C	ENST00000421673.2	-	31	4511	c.4461A>G	c.(4459-4461)ccA>ccG	p.P1487P		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1487	Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		TGAGCGTTGTTGGTGGAGGAA	0.572																																																0													270	276	274					11																	1018340		2185	4270	6455	SO:0001819	synonymous_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4461A>G	11.37:g.1018340T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Silent	SNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.572	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		C	1018340	T	C	1018340	2	2	669	1	0	0	0	0	0	0	0	1	9987	1799	63	3		3	MUC6	11	1018340	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	1114	1018340	133988176	113	42915			3	113		6	6	2098	N	T_G_AC_A	9.685436e-12
OR51B6	390058	mdanderson.org	37	chr11	5373489	5373489	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctgcatcctggtcttctatgTcactgtagtttgtctgacat	8	10	4	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:5373489T>C	ENST00000380219.1	+	1	752	c.752T>C	c.(751-753)gTc>gCc	p.V251A	HBE1_ENST00000380237.1_Intron|AC104389.28_ENST00000415970.1_RNA|HBG2_ENST00000380259.2_Intron|HBG2_ENST00000380252.1_Intron	NM_001004750.1	NP_001004750.1	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B, member 6	251					detection of chemical stimulus involved in sensory perception of smell (GO:0050911)|sensory perception of smell (GO:0007608)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			central_nervous_system(1)|endometrium(3)|large_intestine(3)|lung(10)|ovary(1)|skin(2)|urinary_tract(1)	21		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)		GTCTTCTATGTCACTGTAGTT	0.443																																																0													243	214	224					11																	5373489		2201	4297	6498	SO:0001583	missense	390058				CCDS31379.1	11p15.4	2012-08-09			ENSG00000176239	ENSG00000176239		"GPCR / Class A : Olfactory receptors"	19600	protein-coding gene	gene with protein product							Standard	NM_001004750		Approved		uc010qzb.2	Q9H340	OTTHUMG00000066669	ENST00000380219.1:c.752T>C	11.37:g.5373489T>C	ENSP00000369568:p.Val251Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000380219.1	37	CCDS31379.1	.	.	.	.	.	.	.	.	.	.	T	13.69	2.312400	0.40895	.	.	ENSG00000176239	ENST00000537299;ENST00000380219	T	0.38240	1.15	4.89	3.76	0.43208	GPCR, rhodopsin-like superfamily (1);	0.423027	0.19753	N	0.106855	T	0.42720	0.1215	M	0.73217	2.22	0.25539	N	0.987191	B	0.34349	0.45	B	0.41917	0.37	T	0.41805	-0.9488	10	0.72032	D	0.01	.	8.6465	0.34009	0.0:0.0915:0.0:0.9085	.	251	Q9H340	O51B6_HUMAN	A	250;251	ENSP00000369568:V251A	ENSP00000369568:V251A	V	+	2	0	OR51B6	5330065	0.001000	0.12720	0.761000	0.31378	0.953000	0.61014	1.201000	0.32259	0.883000	0.36040	0.455000	0.32223	GTC		0.443	OR51B6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000142960.1	NM_001004750		C	5373489	T	C	5373489	3	2	669	1	0	0	0	0	1	0	0	0	11099	1667	58	3	754	3	OR51B6	11	5373489	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	4355149	5373489	129633027	114	42916										
RRP8	23378	mdanderson.org	37	chr11	6623149	6623149	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgtttctggcatttcctcttTcttttctcatcttcagcaga	5	11	6	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:6623149T>C	ENST00000254605.6	-	2	513	c.396A>G	c.(394-396)agA>agG	p.R132R	RRP8_ENST00000534343.1_Intron|ILK_ENST00000528995.1_5'Flank|ILK_ENST00000420936.2_5'Flank|RP11-732A19.8_ENST00000527191.1_RNA|ILK_ENST00000396751.2_5'Flank|ILK_ENST00000299421.4_5'Flank|ILK_ENST00000537806.1_5'Flank	NM_015324.3	NP_056139.1	O43159	RRP8_HUMAN	ribosomal RNA processing 8, methyltransferase, homolog (yeast)	132					cellular response to glucose starvation (GO:0042149)|chromatin modification (GO:0016568)|chromatin silencing at rDNA (GO:0000183)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|positive regulation of cell cycle arrest (GO:0071158)|regulation of transcription by glucose (GO:0046015)|rRNA processing (GO:0006364)|transcription, DNA-templated (GO:0006351)	chromatin silencing complex (GO:0005677)|cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|rDNA heterochromatin (GO:0033553)	methylated histone binding (GO:0035064)|poly(A) RNA binding (GO:0044822)|S-adenosylmethionine-dependent methyltransferase activity (GO:0008757)			endometrium(1)|kidney(1)|large_intestine(3)|lung(5)|ovary(1)|prostate(2)	13						ATTTCCTCTTTCTTTTCTCAT	0.463																																																0													165	149	155					11																	6623149		2201	4296	6497	SO:0001819	synonymous_variant	23378			AB007869	CCDS31411.1	11p15.4	2009-02-23	2009-02-23	2009-02-23	ENSG00000132275	ENSG00000132275			29030	protein-coding gene	gene with protein product	RRP8 methyltransferase homolog (S. cerevisiae)	615818	"KIAA0409"	KIAA0409		9455477	Standard	NM_015324		Approved		uc001med.3	O43159		ENST00000254605.6:c.396A>G	11.37:g.6623149T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q7KZ78|Q9BVM6	Silent	SNP	ENST00000254605.6	37	CCDS31411.1																																																																																				0.463	RRP8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384505.1	NM_015324		C	6623149	T	C	6623149	2	2	669	1	0	0	0	0	0	0	0	1	13703	1780	62	3		3	RRP8	11	6623149	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	1249660	6623149	128383367	115	42917										
OR2AG2	338755	mdanderson.org	37	chr11	6789972	6789972	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gggagtgacaacagatgtgaAcaggaggtccatgagagaga	16	5	0	5			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:6789972A>G	ENST00000338569.2	-	1	314	c.217T>C	c.(217-219)Ttc>Ctc	p.F73L		NM_001004490.1	NP_001004490.1	A6NM03	O2AG2_HUMAN	olfactory receptor, family 2, subfamily AG, member 2	73						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(2)|lung(13)|ovary(1)|skin(5)|stomach(1)|urinary_tract(1)	28		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		ACAGATGTGAACAGGAGGTCC	0.557																																																0													139	127	131					11																	6789972		2201	4293	6494	SO:0001583	missense	338755			AB065539	CCDS31413.1	11p15.4	2012-08-09		2004-03-10	ENSG00000188124	ENSG00000188124		"GPCR / Class A : Olfactory receptors"	15143	protein-coding gene	gene with protein product				OR2AG2P			Standard	NM_001004490		Approved		uc001meq.1	A6NM03	OTTHUMG00000165868	ENST00000338569.2:c.217T>C	11.37:g.6789972A>G	ENSP00000342697:p.Phe73Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000338569.2	37	CCDS31413.1	.	.	.	.	.	.	.	.	.	.	A	6.014	0.370903	0.11409	.	.	ENSG00000188124	ENST00000338569	T	0.14022	2.54	4.15	1.83	0.25207	GPCR, rhodopsin-like superfamily (1);	0.000000	0.51477	D	0.000087	T	0.07413	0.0187	L	0.31420	0.93	0.09310	N	1	B	0.06786	0.001	B	0.10450	0.005	T	0.42258	-0.9462	10	0.06625	T	0.88	.	7.0855	0.25255	0.8036:0.0:0.1964:0.0	.	73	A6NM03	O2AG2_HUMAN	L	73	ENSP00000342697:F73L	ENSP00000342697:F73L	F	-	1	0	OR2AG2	6746548	0.117000	0.22190	0.399000	0.26333	0.994000	0.84299	4.445000	0.60007	0.400000	0.25396	0.459000	0.35465	TTC		0.557	OR2AG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386775.1	NM_001004490		G	6789972	A	G	6789972	3	3	669	1	0	0	0	0	1	0	0	0	10992	43	2	3	737	3	OR2AG2	11	6789972	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	166823	6789972	128216544	116	42918										
OR10A2	341276	mdanderson.org	37	chr11	6891395	6891395	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	actggctgctgcctcctggtTcccaggctttcctgtagcta	10	14	0	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:6891395T>C	ENST00000307322.4	+	1	472	c.410T>C	c.(409-411)tTc>tCc	p.F137S		NM_001004460.1	NP_001004460.1	Q9H208	O10A2_HUMAN	olfactory receptor, family 10, subfamily A, member 2	137						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(3)|large_intestine(4)|lung(12)|urinary_tract(1)	24		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.89e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		GCCTCCTGGTTCCCAGGCTTT	0.532																																																0													141	134	136					11																	6891395		2201	4296	6497	SO:0001583	missense	341276			BK004293	CCDS31415.1	11p15.4	2012-08-09		2004-03-10	ENSG00000170790	ENSG00000170790		"GPCR / Class A : Olfactory receptors"	8161	protein-coding gene	gene with protein product				OR10A2P			Standard	NM_001004460		Approved	OST363	uc001meu.1	Q9H208	OTTHUMG00000165739	ENST00000307322.4:c.410T>C	11.37:g.6891395T>C	ENSP00000303862:p.Phe137Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNL9|Q6IFG9	Missense_Mutation	SNP	ENST00000307322.4	37	CCDS31415.1	.	.	.	.	.	.	.	.	.	.	t	13.19	2.162079	0.38217	.	.	ENSG00000170790	ENST00000307322	T	0.37584	1.19	3.99	2.86	0.33363	GPCR, rhodopsin-like superfamily (1);	0.110904	0.41001	D	0.000966	T	0.23410	0.0566	N	0.12663	0.25	0.33175	D	0.548826	B	0.26809	0.16	B	0.37239	0.244	T	0.27123	-1.0083	10	0.48119	T	0.1	.	7.5596	0.27843	0.0:0.1055:0.0:0.8945	.	137	Q9H208	O10A2_HUMAN	S	137	ENSP00000303862:F137S	ENSP00000303862:F137S	F	+	2	0	OR10A2	6847971	0.020000	0.18652	0.999000	0.59377	0.789000	0.44602	1.461000	0.35255	0.705000	0.31890	0.529000	0.55759	TTC		0.532	OR10A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385984.1	NM_001004460		C	6891395	T	C	6891395	3	2	669	1	0	0	0	0	1	0	0	0	10897	1783	62	3	412	3	OR10A2	11	6891395	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	101423	6891395	128115121	117	42919										
SBF2	81846	mdanderson.org	37	chr11	9809226	9809226	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aggtccacggttaccctttcCcacagctgctgccacttctc	7	17	1	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:9809226C>T	ENST00000256190.8	-	36	5129	c.4992G>A	c.(4990-4992)tgG>tgA	p.W1664*	SBF2-AS1_ENST00000498905.2_RNA|SBF2-AS1_ENST00000534671.1_RNA|SBF2-AS1_ENST00000526617.1_RNA|SBF2-AS1_ENST00000525636.1_RNA|SBF2-AS1_ENST00000499953.2_RNA	NM_030962.3	NP_112224.1	Q86WG5	MTMRD_HUMAN	SET binding factor 2	1664	Interaction with MTMR2.				cell death (GO:0008219)|myelination (GO:0042552)|positive regulation of Rab GTPase activity (GO:0032851)|protein tetramerization (GO:0051262)	membrane (GO:0016020)|vacuolar membrane (GO:0005774)	phosphatase activity (GO:0016791)|phosphatase regulator activity (GO:0019208)|phosphatidylinositol binding (GO:0035091)|Rab guanyl-nucleotide exchange factor activity (GO:0017112)			breast(4)|endometrium(8)|kidney(2)|large_intestine(8)|lung(16)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	48				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		TTACCCTTTCCCACAGCTGCT	0.443																																																0													125	116	119					11																	9809226		2201	4294	6495	SO:0001587	stop_gained	81846			AB051553	CCDS31427.1	11p15.3	2014-09-17	2004-11-12	2004-11-12	ENSG00000133812	ENSG00000133812		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins", "DENN/MADD domain containing", "Pleckstrin homology (PH) domain containing"	2135	protein-coding gene	gene with protein product	"myotubularin related 13"	607697	"Charcot-Marie-Tooth neuropathy 4B2 (autosomal recessive, with myelin outfolding)", "DENN/MADD domain containing 7B"	CMT4B2		10644431	Standard	NM_030962		Approved	KIAA1766, MTMR13, DENND7B	uc001mib.2	Q86WG5	OTTHUMG00000165890	ENST00000256190.8:c.4992G>A	11.37:g.9809226C>T	ENSP00000256190:p.Trp1664*	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MJF0|Q68DQ3|Q6P459|Q6PJD1|Q7Z325|Q7Z621|Q86VE2|Q96FE2|Q9C097	Nonsense_Mutation	SNP	ENST00000256190.8	37	CCDS31427.1	.	.	.	.	.	.	.	.	.	.	C	47	13.366877	0.99737	.	.	ENSG00000133812	ENST00000256190;ENST00000532095	.	.	.	6.17	6.17	0.99709	.	0.142478	0.56097	D	0.000023	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	20.8794	0.99867	0.0:1.0:0.0:0.0	.	.	.	.	X	1664;52	.	ENSP00000256190:W1664X	W	-	3	0	SBF2	9765802	1.000000	0.71417	1.000000	0.80357	0.969000	0.65631	7.435000	0.80391	2.941000	0.99782	0.655000	0.94253	TGG		0.443	SBF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386911.2	NM_030962		T	9809226	C	T	9809226	4	4	669	1	0	0	0	0	0	1	0	0	13872	624	22	2	577	2	SBF2	11	9809226	Nonsense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	2917831	9809226	125197290	118	42920										
EIF4G2	1982	mdanderson.org	37	chr11	10823662	10823662	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gtgggaggcatgatgtgtccCccatggccattgaagagttg	15	8	0	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:10823662C>T	ENST00000526148.1	-	13	1743	c.1233G>A	c.(1231-1233)ggG>ggA	p.G411G	EIF4G2_ENST00000525681.1_Silent_p.G411G|EIF4G2_ENST00000339995.5_Silent_p.G411G|EIF4G2_ENST00000525995.1_5'Flank|SNORD97_ENST00000459187.1_RNA|RP11-685M7.5_ENST00000532365.1_RNA|EIF4G2_ENST00000396525.2_Silent_p.G411G	NM_001172705.1	NP_001166176			eukaryotic translation initiation factor 4 gamma, 2											NS(1)|breast(2)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(7)|lung(14)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(6)	43				all cancers(16;2.8e-07)|Epithelial(150;4.18e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		TGATGTGTCCCCCATGGCCAT	0.448																																																0													139	122	128					11																	10823662		2201	4294	6495	SO:0001819	synonymous_variant	1982			U73824	CCDS31428.1, CCDS41618.1	11p15	2005-09-29			ENSG00000110321	ENSG00000110321			3297	protein-coding gene	gene with protein product		602325				9030685, 9032289	Standard	NM_001042559		Approved	DAP5, NAT1, p97	uc001mjc.3	P78344	OTTHUMG00000165823	ENST00000526148.1:c.1233G>A	11.37:g.10823662C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000526148.1	37	CCDS31428.1																																																																																				0.448	EIF4G2-006	KNOWN	alternative_5_UTR|non_ATG_start|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000386603.1	NM_001418		T	10823662	C	T	10823662	2	4	669	1	0	0	0	0	0	0	0	1	5039	610	22	2		2	EIF4G2	11	10823662	Silent	SNP	C	TCGA-KN-8433-01A-11D-2310-10	1014436	10823662	124182854	119	42921										
MYBPC3	4607	mdanderson.org	37	chr11	47364266	47364266	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	accggtatttgaaggtctccTcccgggtcagctccaccccg	10	16	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:47364266T>C	ENST00000545968.1	-	17	1541	c.1487A>G	c.(1486-1488)gAg>gGg	p.E496G	MYBPC3_ENST00000256993.4_Missense_Mutation_p.E495G|MYBPC3_ENST00000399249.2_Missense_Mutation_p.E496G	NM_000256.3	NP_000247.2	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	496	Ig-like C2-type 3.				cardiac muscle contraction (GO:0060048)|cell adhesion (GO:0007155)|heart morphogenesis (GO:0003007)|muscle filament sliding (GO:0030049)|myosin filament assembly (GO:0031034)|positive regulation of ATPase activity (GO:0032781)|regulation of heart rate (GO:0002027)|regulation of muscle filament sliding (GO:0032971)|regulation of striated muscle contraction (GO:0006942)|sarcomere organization (GO:0045214)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)	A band (GO:0031672)|C zone (GO:0014705)|cytosol (GO:0005829)|sarcomere (GO:0030017)|striated muscle myosin thick filament (GO:0005863)	ATPase activator activity (GO:0001671)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|myosin binding (GO:0017022)|myosin heavy chain binding (GO:0032036)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			breast(2)|central_nervous_system(2)|endometrium(9)|kidney(1)|large_intestine(4)|lung(16)|ovary(3)|prostate(3)|urinary_tract(2)	42				Lung(87;0.176)		GAAGGTCTCCTCCCGGGTCAG	0.627																																																0													157	158	158					11																	47364266		2142	4252	6394	SO:0001583	missense	4607			X84075	CCDS53621.1	11p11.2	2014-09-17	2001-11-28			ENSG00000134571		"Myosin binding proteins", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	7551	protein-coding gene	gene with protein product		600958	"myosin-binding protein C, cardiac"	CMH4		7744002, 8358441	Standard	NM_000256		Approved	MYBP-C, FHC	uc021qis.1	Q14896		ENST00000545968.1:c.1487A>G	11.37:g.47364266T>C	ENSP00000442795:p.Glu496Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A5PL00|Q16410|Q6R2F7|Q9UE27|Q9UM53	Missense_Mutation	SNP	ENST00000545968.1	37	CCDS53621.1	.	.	.	.	.	.	.	.	.	.	T	13.76	2.333648	0.41297	.	.	ENSG00000134571	ENST00000545968;ENST00000399249;ENST00000256993	T;T;T	0.67345	-0.26;-0.26;-0.26	4.63	4.63	0.57726	Immunoglobulin subtype (1);Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.45054	0.1323	N	0.05199	-0.095	0.49213	D	0.999763	B	0.18310	0.027	B	0.26969	0.075	T	0.36841	-0.9731	9	0.11485	T	0.65	.	14.1729	0.65522	0.0:0.0:0.0:1.0	.	495	Q14896	MYPC3_HUMAN	G	496;496;495	ENSP00000442795:E496G;ENSP00000382193:E496G;ENSP00000256993:E495G	ENSP00000256993:E495G	E	-	2	0	MYBPC3	47320842	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.440000	0.80464	1.938000	0.56188	0.379000	0.24179	GAG		0.627	MYBPC3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000392271.3			C	47364266	T	C	47364266	3	2	669	1	0	0	0	0	1	0	0	0	10020	1551	54	3	2409	3	MYBPC3	11	47364266	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	36540604	47364266	87642250	120	42922										
OR5L1	219437	mdanderson.org	37	chr11	55579068	55579068	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggagtcacgttgttagccaaCctgggcatgattgcactgat	12	9	1	2	rs575553149		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:55579068C>T	ENST00000333973.2	+	1	215	c.126C>T	c.(124-126)aaC>aaT	p.N42N		NM_001004738.1	NP_001004738.1	Q8NGL2	OR5L1_HUMAN	olfactory receptor, family 5, subfamily L, member 1	42						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|breast(2)|central_nervous_system(2)|endometrium(2)|kidney(3)|large_intestine(4)|liver(4)|lung(36)|ovary(2)|pancreas(1)|prostate(5)|skin(9)|stomach(4)|upper_aerodigestive_tract(3)	78		all_epithelial(135;0.208)				TGTTAGCCAACCTGGGCATGA	0.498																																																0													325	285	299					11																	55579068		2200	4296	6496	SO:0001819	synonymous_variant	219437			AB065780	CCDS31509.1	11q11	2012-08-09			ENSG00000186117	ENSG00000186117		"GPCR / Class A : Olfactory receptors"	8350	protein-coding gene	gene with protein product							Standard	NM_001004738		Approved	OST262	uc001nhw.1	Q8NGL2	OTTHUMG00000166810	ENST00000333973.2:c.126C>T	11.37:g.55579068C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RNK6|Q6IFD0	Silent	SNP	ENST00000333973.2	37	CCDS31509.1																																																																																				0.498	OR5L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391514.1	NM_001004738		T	55579068	C	T	55579068	2	4	669	1	0	0	0	0	0	0	0	1	11177	506	18	2		2	OR5L1	11	55579068	Silent	SNP	C	TCGA-KN-8433-01A-11D-2310-10	8214802	55579068	79427448	121	42923										
OR8J3	81168	mdanderson.org	37	chr11	55905070	55905070	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgagggtgatgatgcccaggTtccctgccatggtcagcaca	13	11	1	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:55905070T>C	ENST00000301529.1	-	1	124	c.125A>G	c.(124-126)aAc>aGc	p.N42S		NM_001004064.1	NP_001004064.1	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J, member 3	42						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(1)|lung(38)|pancreas(1)|prostate(1)|skin(2)|stomach(3)|upper_aerodigestive_tract(1)	59	Esophageal squamous(21;0.00693)					GATGCCCAGGTTCCCTGCCAT	0.488																																																0													140	135	137					11																	55905070		2201	4296	6497	SO:0001583	missense	81168				CCDS31520.1	11q12.2	2012-08-09			ENSG00000167822	ENSG00000167822		"GPCR / Class A : Olfactory receptors"	15312	protein-coding gene	gene with protein product							Standard	NM_001004064		Approved		uc010riz.2	Q8NGG0	OTTHUMG00000166834	ENST00000301529.1:c.125A>G	11.37:g.55905070T>C	ENSP00000301529:p.Asn42Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFB6|Q96RC2	Missense_Mutation	SNP	ENST00000301529.1	37	CCDS31520.1	.	.	.	.	.	.	.	.	.	.	T	14.95	2.688331	0.48097	.	.	ENSG00000167822	ENST00000301529	T	0.75477	-0.94	3.26	3.26	0.37387	GPCR, rhodopsin-like superfamily (1);	0.000000	0.64402	D	0.000002	D	0.88603	0.6481	H	0.94385	3.53	0.22435	N	0.999106	D	0.76494	0.999	D	0.87578	0.998	T	0.81086	-0.1092	10	0.87932	D	0	.	11.5522	0.50726	0.0:0.0:0.0:1.0	.	42	Q8NGG0	OR8J3_HUMAN	S	42	ENSP00000301529:N42S	ENSP00000301529:N42S	N	-	2	0	OR8J3	55661646	1.000000	0.71417	0.330000	0.25442	0.569000	0.35902	6.569000	0.73992	1.268000	0.44264	0.240000	0.17902	AAC		0.488	OR8J3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391542.1	NM_001004064		C	55905070	T	C	55905070	3	2	669	1	0	0	0	0	1	0	0	0	11249	1725	60	3	824	3	OR8J3	11	55905070	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	326002	55905070	79101446	122	42924										
GPR44	11251	mdanderson.org	37	chr11	60621139	60621139	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gtgttgctgtggctctggagAcggctcatctgctccaggat	14	10	3	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:60621139A>G	ENST00000332539.4	-	2	168	c.57T>C	c.(55-57)cgT>cgC	p.R19R	RP11-804A23.4_ENST00000538705.1_RNA	NM_004778.2	NP_004769.2	Q9Y5Y4	PD2R2_HUMAN	prostaglandin D2 receptor 2	19					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|calcium-mediated signaling (GO:0019722)|chemotaxis (GO:0006935)|G-protein coupled receptor signaling pathway (GO:0007186)|immune response (GO:0006955)|positive regulation of G-protein coupled receptor protein signaling pathway (GO:0045745)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|prostaglandin D receptor activity (GO:0004956)|prostaglandin F receptor activity (GO:0004958)|prostaglandin J receptor activity (GO:0001785)									Indomethacin(DB00328)|Sulindac(DB00605)	GGCTCTGGAGACGGCTCATCT	0.642																																																0													50	39	43					11																	60621139		2185	4271	6456	SO:0001819	synonymous_variant	11251			AF118265	CCDS7994.1	11q12-q13.3	2012-08-08	2011-11-11	2011-11-11		ENSG00000183134		"CD molecules", "GPCR / Class A : Prostanoid receptors"	4502	protein-coding gene	gene with protein product	"chemoattractant receptor homologous molecule expressed on T helper type 2 cells"	604837	"G protein-coupled receptor 44"	GPR44		10036181	Standard	NM_004778		Approved	CRTH2, CD294, DP2	uc001nqc.2	Q9Y5Y4		ENST00000332539.4:c.57T>C	11.37:g.60621139A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O94765|Q4QRI6	Silent	SNP	ENST00000332539.4	37	CCDS7994.1																																																																																				0.642	PTGDR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396328.1	NM_004778		G	60621139	A	G	60621139	2	3	669	1	0	0	0	0	0	0	0	1	6702	262	10	3		3	GPR44	11	60621139	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	4716069	60621139	74385377	123	42925										
AHNAK	79026	mdanderson.org	37	chr11	62293548	62293548	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gtccacatctggaccttctcCtttgaagccaggcatgctga	9	13	2	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:62293548C>T	ENST00000378024.4	-	5	8615	c.8341G>A	c.(8341-8343)Gga>Aga	p.G2781R	AHNAK_ENST00000257247.7_Intron|AHNAK_ENST00000530124.1_Intron	NM_001620.1	NP_001611.1	Q09666	AHNK_HUMAN	AHNAK nucleoprotein	2781					protein oligomerization (GO:0051259)|regulation of RNA splicing (GO:0043484)|regulation of voltage-gated calcium channel activity (GO:1901385)	actin cytoskeleton (GO:0015629)|cell-cell contact zone (GO:0044291)|costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|vesicle (GO:0031982)	poly(A) RNA binding (GO:0044822)|S100 protein binding (GO:0044548)|structural molecule activity conferring elasticity (GO:0097493)	p.G2781*(1)		NS(3)|autonomic_ganglia(1)|breast(10)|central_nervous_system(5)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(33)|large_intestine(40)|liver(1)|lung(108)|ovary(13)|pancreas(4)|prostate(5)|skin(16)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(6)	268		Melanoma(852;0.155)				GGACCTTCTCCTTTGAAGCCA	0.498																																																1	Substitution - Nonsense(1)	prostate(1)											211	209	210					11																	62293548		2202	4299	6501	SO:0001583	missense	79026			M80899	CCDS31584.1, CCDS44625.1	11q12-q13	2008-02-05	2007-03-30		ENSG00000124942	ENSG00000124942			347	protein-coding gene	gene with protein product	"desmoyokin"	103390	"AHNAK nucleoprotein (desmoyokin)"			7987395, 12153988	Standard	NM_024060		Approved	MGC5395	uc001ntl.3	Q09666	OTTHUMG00000167558	ENST00000378024.4:c.8341G>A	11.37:g.62293548C>T	ENSP00000367263:p.Gly2781Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A1A586	Missense_Mutation	SNP	ENST00000378024.4	37	CCDS31584.1	.	.	.	.	.	.	.	.	.	.	-	17.18	3.322801	0.60634	.	.	ENSG00000124942	ENST00000378024	T	0.05447	3.44	4.05	4.05	0.47172	.	.	.	.	.	T	0.22704	0.0548	M	0.92833	3.35	0.25107	N	0.990747	P	0.48503	0.911	P	0.50082	0.63	T	0.35076	-0.9803	9	0.19147	T	0.46	.	16.2211	0.82258	0.0:1.0:0.0:0.0	.	2781	Q09666	AHNK_HUMAN	R	2781	ENSP00000367263:G2781R	ENSP00000367263:G2781R	G	-	1	0	AHNAK	62050124	0.080000	0.21391	0.985000	0.45067	0.687000	0.40016	0.757000	0.26433	1.964000	0.57103	0.298000	0.19748	GGA		0.498	AHNAK-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395572.1	NM_024060		T	62293548	C	T	62293548	3	4	669	1	0	0	0	0	1	0	0	0	414	690	24	2	9451	2	AHNAK	11	62293548	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	1672409	62293548	72712968	124	42926										
ZNHIT2	741	mdanderson.org	37	chr11	64884065	64884065	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	agtctagggccaggggtgtgAgggccgcctcattttcgttg	16	9	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:64884065A>G	ENST00000310597.4	-	1	1105	c.1061T>C	c.(1060-1062)cTc>cCc	p.L354P	AP003068.12_ENST00000527789.1_RNA	NM_014205.2	NP_055020.1	Q9UHR6	ZNHI2_HUMAN	zinc finger, HIT-type containing 2	354							metal ion binding (GO:0046872)			breast(1)|endometrium(1)|large_intestine(2)|lung(1)|urinary_tract(1)	6						CAGGGGTGTGAGGGCCGCCTC	0.637																																																0													42	43	43					11																	64884065		2201	4297	6498	SO:0001583	missense	741				CCDS8094.1	11q13	2012-08-08	2010-09-15	2004-07-14	ENSG00000174276	ENSG00000174276		"Zinc fingers, HIT-type"	1177	protein-coding gene	gene with protein product		604575	"chromosome 11 open reading frame 5", "zinc finger, HIT domain containing 2"	C11orf5			Standard	NM_014205		Approved	FON	uc001ocw.3	Q9UHR6	OTTHUMG00000165604	ENST00000310597.4:c.1061T>C	11.37:g.64884065A>G	ENSP00000308548:p.Leu354Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q3SY14|Q8IUV0	Missense_Mutation	SNP	ENST00000310597.4	37	CCDS8094.1	.	.	.	.	.	.	.	.	.	.	A	18.34	3.603235	0.66445	.	.	ENSG00000174276	ENST00000310597	T	0.36520	1.25	4.79	4.79	0.61399	.	0.199408	0.31809	U	0.007023	T	0.47838	0.1467	L	0.32530	0.975	0.80722	D	1	D	0.76494	0.999	D	0.85130	0.997	T	0.50048	-0.8873	10	0.87932	D	0	-18.6649	12.3124	0.54935	1.0:0.0:0.0:0.0	.	354	Q9UHR6	ZNHI2_HUMAN	P	354	ENSP00000308548:L354P	ENSP00000308548:L354P	L	-	2	0	ZNHIT2	64640641	0.893000	0.30496	0.934000	0.37439	0.758000	0.43043	4.025000	0.57225	2.008000	0.58898	0.459000	0.35465	CTC		0.637	ZNHIT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385260.1	NM_014205		G	64884065	A	G	64884065	3	3	669	1	0	0	0	0	1	0	0	0	18219	304	11	3	154	3	ZNHIT2	11	64884065	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	2590517	64884065	70122451	125	42927										
DYNC2H1	79659	mdanderson.org	37	chr11	103090674	103090674	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	agcaaaaaacagaacttgaaAgactgaagcacagaatagca	8	7	0	5			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:103090674A>G	ENST00000375735.2	+	56	9007	c.8863A>G	c.(8863-8865)Aga>Gga	p.R2955G	DYNC2H1_ENST00000334267.7_Intron|DYNC2H1_ENST00000398093.3_Missense_Mutation_p.R2955G	NM_001080463.1|NM_001377.2	NP_001073932.1|NP_001368.2	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	2955	Stalk. {ECO:0000250}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|asymmetric protein localization (GO:0008105)|cilium assembly (GO:0042384)|determination of left/right symmetry (GO:0007368)|dorsal/ventral pattern formation (GO:0009953)|embryonic limb morphogenesis (GO:0030326)|forebrain development (GO:0030900)|Golgi organization (GO:0007030)|intraciliary retrograde transport (GO:0035721)|positive regulation of smoothened signaling pathway (GO:0045880)|protein processing (GO:0016485)|spinal cord motor neuron differentiation (GO:0021522)	apical part of cell (GO:0045177)|axoneme (GO:0005930)|cytosol (GO:0005829)|dynein complex (GO:0030286)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|motile primary cilium (GO:0031512)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)|motor activity (GO:0003774)			NS(1)|endometrium(4)|kidney(5)|large_intestine(9)|lung(9)|ovary(1)|prostate(2)|upper_aerodigestive_tract(2)	33		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		AGAACTTGAAAGACTGAAGCA	0.264																																																0													43	41	41					11																	103090674		1787	4046	5833	SO:0001583	missense	79659			AB082528	CCDS44717.1, CCDS53701.1	11q21-q22.1	2011-06-02	2005-11-24	2005-11-24	ENSG00000187240	ENSG00000187240		"Cytoplasmic dyneins"	2962	protein-coding gene	gene with protein product		603297	"dynein, cytoplasmic, heavy polypeptide 2"	DNCH2		9763680, 9373155	Standard	NM_001080463		Approved	hdhc11, DHC2, DHC1b, DYH1B	uc001phn.1	Q8NCM8	OTTHUMG00000165941	ENST00000375735.2:c.8863A>G	11.37:g.103090674A>G	ENSP00000364887:p.Arg2955Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O00432|Q16693|Q3C1U8|Q4AC93|Q6ZMX7|Q6ZUM6|Q7Z363|Q8N977|Q92815|Q9HAE4	Missense_Mutation	SNP	ENST00000375735.2	37	CCDS53701.1	.	.	.	.	.	.	.	.	.	.	A	11.11	1.542244	0.27563	.	.	ENSG00000187240	ENST00000375735;ENST00000398093	T;T	0.74209	-0.82;-0.82	5.87	5.87	0.94306	Dynein heavy chain, coiled coil stalk (1);	0.460130	0.19925	U	0.102996	T	0.54447	0.1859	N	0.08118	0	0.35390	D	0.790719	B;B	0.02656	0.0;0.0	B;B	0.08055	0.003;0.002	T	0.59101	-0.7517	10	0.31617	T	0.26	.	11.2231	0.48866	0.8628:0.0:0.0:0.1372	.	2955;2955	Q8NCM8;Q8NCM8-2	DYHC2_HUMAN;.	G	2955	ENSP00000364887:R2955G;ENSP00000381167:R2955G	ENSP00000364887:R2955G	R	+	1	2	DYNC2H1	102595884	1.000000	0.71417	0.998000	0.56505	0.757000	0.42996	4.123000	0.57917	2.371000	0.80710	0.533000	0.62120	AGA		0.264	DYNC2H1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387196.1	XM_370652		G	103090674	A	G	103090674	3	3	669	1	0	0	0	0	1	0	0	0	4848	64	3	3	9085	3	DYNC2H1	11	103090674	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	38206609	103090674	31915842	126	42928										
FAM55A	120400	mdanderson.org	37	chr11	114392857	114392857	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	atagtgaatataaccatggaAgtctccaaacctctctgtct	6	10	3	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr11:114392857A>G	ENST00000424269.1	-	5	1476	c.1477T>C	c.(1477-1479)Ttc>Ctc	p.F493L	NXPE1_ENST00000251921.2_Missense_Mutation_p.F351L|NXPE1_ENST00000536271.1_Missense_Mutation_p.F209L			Q8N323	NXPE1_HUMAN	neurexophilin and PC-esterase domain family, member 1	493						extracellular region (GO:0005576)											TAACCATGGAAGTCTCCAAAC	0.418																																																0													190	184	186					11																	114392857		2201	4296	6497	SO:0001583	missense	120400			BC029049	CCDS8372.1	11q23.2	2012-06-14	2012-06-11	2012-06-11	ENSG00000095110	ENSG00000095110			28527	protein-coding gene	gene with protein product			"family with sequence similarity 55, member A"	FAM55A		12477932	Standard	NM_152315		Approved	MGC34290	uc001ppa.3	Q8N323	OTTHUMG00000168284	ENST00000424269.1:c.1477T>C	11.37:g.114392857A>G	ENSP00000411690:p.Phe493Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ13	Missense_Mutation	SNP	ENST00000424269.1	37		.	.	.	.	.	.	.	.	.	.	A	22.9	4.351641	0.82132	.	.	ENSG00000095110	ENST00000536271;ENST00000251921;ENST00000424269	T;T;T	0.27104	1.69;1.69;1.69	4.64	3.49	0.39957	.	0.000000	0.64402	D	0.000001	T	0.53706	0.1813	M	0.89534	3.04	0.33601	D	0.602277	D	0.71674	0.998	D	0.70935	0.971	T	0.69702	-0.5074	10	0.56958	D	0.05	.	10.2768	0.43515	0.8519:0.0:0.0:0.1481	.	493	Q8N323	FA55A_HUMAN	L	209;351;493	ENSP00000445200:F209L;ENSP00000251921:F351L;ENSP00000411690:F493L	ENSP00000251921:F351L	F	-	1	0	FAM55A	113898067	1.000000	0.71417	0.995000	0.50966	0.961000	0.63080	1.386000	0.34419	0.854000	0.35336	0.528000	0.53228	TTC		0.418	NXPE1-201	KNOWN	basic	protein_coding	protein_coding		NM_152315		G	114392857	A	G	114392857	3	3	669	1	0	0	0	0	1	0	0	0	5591	72	3	3	170	3	FAM55A	11	114392857	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	11302183	114392857	20613659	127	42929										
TAPBPL	55080	broad.mit.edu;mdanderson.org	37	chr12	6567817	6567817	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cattctttctccagcttcccCtaaagtacgactgagcttgg	7	13	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr12:6567817C>T	ENST00000266556.7	+	5	1076	c.911C>T	c.(910-912)cCt>cTt	p.P304L	TAPBPL_ENST00000544021.1_Silent_p.P185P|TAPBPL_ENST00000545700.1_3'UTR	NM_018009.4	NP_060479.3	Q9BX59	TPSNR_HUMAN	TAP binding protein-like	304	Ig-like C1-type.				negative regulation of antigen processing and presentation of peptide antigen via MHC class I (GO:0002590)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	protein complex binding (GO:0032403)			endometrium(2)|large_intestine(1)|skin(2)|upper_aerodigestive_tract(1)	6						CCAGCTTCCCCTAAAGTACGA	0.517																																																0													119	111	114					12																	6567817		2203	4300	6503	SO:0001583	missense	55080			AK001005	CCDS8546.1	12p13.31	2013-01-11						"Immunoglobulin superfamily / C1-set domain containing"	30683	protein-coding gene	gene with protein product		607081				11920573	Standard	NM_018009		Approved	TAPBP-R, FLJ10143, TAPBPR	uc001qog.4	Q9BX59		ENST00000266556.7:c.911C>T	12.37:g.6567817C>T	ENSP00000266556:p.Pro304Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NWB8	Missense_Mutation	SNP	ENST00000266556.7	37	CCDS8546.1	.	.	.	.	.	.	.	.	.	.	C	17.73	3.461576	0.63513	.	.	ENSG00000139192	ENST00000266556	T	0.58358	0.34	5.05	5.05	0.67936	Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	T	0.73938	0.3651	M	0.83953	2.67	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.78099	-0.2336	10	0.87932	D	0	-27.2797	14.2963	0.66316	0.0:1.0:0.0:0.0	.	304	Q9BX59	TPSNR_HUMAN	L	304	ENSP00000266556:P304L	ENSP00000266556:P304L	P	+	2	0	TAPBPL	6438078	0.893000	0.30496	0.994000	0.49952	0.314000	0.28054	2.808000	0.47963	2.521000	0.84997	0.650000	0.86243	CCT		0.517	TAPBPL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399263.1	NM_018009		T	6567817	C	T	6567817	3	4	669	1	0	0	0	0	1	0	0	0	15565	681	24	2	929	2	TAPBPL	12	6567817	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10		6567817	127284078	128	42930										
ATN1	1822	mdanderson.org	37	chr12	7045912	7045912	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cagcagcagcagcagcagcaGcagcagcagcagcagcagca	13	14	0	0	rs144280633	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr12:7045912G>A	ENST00000356654.4	+	5	1719	c.1482G>A	c.(1480-1482)caG>caA	p.Q494Q	ATN1_ENST00000396684.2_Silent_p.Q494Q	NM_001007026.1	NP_001007027.1	P54259	ATN1_HUMAN	atrophin 1	494	Poly-Gln.				cell migration (GO:0016477)|central nervous system development (GO:0007417)|maintenance of cell polarity (GO:0030011)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron apoptotic process (GO:0051402)|toxin metabolic process (GO:0009404)|transcription, DNA-templated (GO:0006351)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)	protein domain specific binding (GO:0019904)|transcription corepressor activity (GO:0003714)			breast(5)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(15)|ovary(2)|pancreas(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	40						agcagcagcagcagcagcagc	0.642																																																0													39	49	46					12																	7045912		2183	4256	6439	SO:0001819	synonymous_variant	1822			U23851	CCDS31734.1	12p	2007-08-01	2005-03-15	2005-03-17		ENSG00000111676			3033	protein-coding gene	gene with protein product		607462	"dentatorubral-pallidoluysian atrophy (atrophin-1)"	D12S755E, DRPLA		8136826	Standard	NM_001940		Approved	B37	uc001qrw.1	P54259		ENST00000356654.4:c.1482G>A	12.37:g.7045912G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q99495|Q99621|Q9UEK7	Silent	SNP	ENST00000356654.4	37	CCDS31734.1																																																																																				0.642	ATN1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401948.2	NM_001940		A	7045912	G	A	7045912	2	1	669	1	0	0	0	0	0	0	0	1	1111	962	34	2		2	ATN1	12	7045912	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	478095	7045912	126805983	129	42931										
PRB2	653247	mdanderson.org	37	chr12	11546764	11546764	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gaggtttgttgcctccttgtGggggtggtccttgtggcttt	16	7	0	0	rs201994479	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr12:11546764G>T	ENST00000389362.4	-	3	283	c.248C>A	c.(247-249)cCa>cAa	p.P83Q	PRB1_ENST00000546254.1_Intron|PRB2_ENST00000545829.1_5'Flank	NM_006248.3	NP_006239.3	P02812	PRB2_HUMAN	proline-rich protein BstNI subfamily 2	83	15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-P-Q-G-[GD]-[NKS]-[KSQ]- [PRS]-[QRS] [GPS]-[PSAR]-[PSR].					extracellular region (GO:0005576)				NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(14)|pancreas(1)|prostate(5)|skin(4)|stomach(2)|urinary_tract(1)	37		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			GCCTCCTTGTGGGGGTGGTCC	0.617													G|||	2	0.000399361	0.0015	0.0	5008	,	,		18324	0.0		0.0	False		,,,				2504	0.0															0													126	144	138					12																	11546764		2136	4201	6337	SO:0001583	missense	653247			K03208	CCDS41757.2	12p13.2	2012-10-02			ENSG00000121335	ENSG00000121335			9338	protein-coding gene	gene with protein product		168810				8554050	Standard	NM_006248		Approved	PRPPRB1, Ps, cP7	uc010shk.1	P02812	OTTHUMG00000156975	ENST00000389362.4:c.248C>A	12.37:g.11546764G>T	ENSP00000374013:p.Pro83Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O00599|P02811|P04281	Missense_Mutation	SNP	ENST00000389362.4	37	CCDS41757.2	.	.	.	.	.	.	.	.	.	.	.	5.566	0.289209	0.10513	.	.	ENSG00000121335	ENST00000389362	T	0.05081	3.5	1.52	-3.05	0.05396	.	.	.	.	.	T	0.04182	0.0116	L	0.58810	1.83	0.24408	N	0.994672	P	0.39094	0.659	B	0.24394	0.053	T	0.28427	-1.0044	9	0.24483	T	0.36	.	3.2388	0.06773	0.1674:0.0:0.4493:0.3833	.	83	P02812	PRB2_HUMAN	Q	83	ENSP00000374013:P83Q	ENSP00000374013:P83Q	P	-	2	0	PRB2	11438031	0.077000	0.21312	0.033000	0.17914	0.073000	0.16967	-0.297000	0.08276	-1.559000	0.01688	-1.417000	0.01113	CCA		0.617	PRB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346925.2	NM_006248		T	11546764	G	T	11546764	3	4	669	1	0	0	0	0	1	0	0	0	12453	1348	47	4	1006	4	PRB2	12	11546764	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	4500852	11546764	122305131	130	42932										
WBP11	51729	mdanderson.org	37	chr12	14940061	14940061	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	atcatccttagtttgtactgAgacaggaacagaaggaccag	10	8	1	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr12:14940061A>G	ENST00000261167.2	-	12	2097	c.1864T>C	c.(1864-1866)Tca>Cca	p.S622P		NM_016312.2	NP_057396.1	Q9Y2W2	WBP11_HUMAN	WW domain binding protein 11	622					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)|rRNA processing (GO:0006364)	cytoplasm (GO:0005737)|nuclear speck (GO:0016607)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|protein phosphatase type 1 regulator activity (GO:0008599)|single-stranded DNA binding (GO:0003697)|WW domain binding (GO:0050699)			endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(16)|ovary(1)|prostate(1)	30						GTTTGTACTGAGACAGGAACA	0.468																																																0													61	60	60					12																	14940061		2203	4298	6501	SO:0001583	missense	51729			AB029309	CCDS8666.1	12p12.3	2014-06-13			ENSG00000084463	ENSG00000084463			16461	protein-coding gene	gene with protein product	"splicing factor, PQBP1 and PP1 interacting", "protein phosphatase 1, regulatory subunit 165"					10593949	Standard	NM_016312		Approved	NPWBP, SIPP1, PPP1R165	uc001rci.3	Q9Y2W2	OTTHUMG00000168737	ENST00000261167.2:c.1864T>C	12.37:g.14940061A>G	ENSP00000261167:p.Ser622Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q96AY8	Missense_Mutation	SNP	ENST00000261167.2	37	CCDS8666.1	.	.	.	.	.	.	.	.	.	.	A	11.77	1.737614	0.30774	.	.	ENSG00000084463	ENST00000261167;ENST00000537574	.	.	.	5.1	3.95	0.45737	.	0.357152	0.25478	N	0.030384	T	0.39545	0.1082	L	0.38838	1.175	0.32352	N	0.558285	B	0.30824	0.296	B	0.38156	0.266	T	0.51108	-0.8747	9	0.52906	T	0.07	-15.5057	6.5889	0.22636	0.8174:0.0:0.1826:0.0	.	622	Q9Y2W2	WBP11_HUMAN	P	622;588	.	ENSP00000261167:S622P	S	-	1	0	WBP11	14831328	0.999000	0.42202	0.863000	0.33907	0.986000	0.74619	2.169000	0.42434	0.971000	0.38288	-0.290000	0.09829	TCA		0.468	WBP11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400850.1	NM_016312		G	14940061	A	G	14940061	3	3	669	1	0	0	0	0	1	0	0	0	17270	304	11	3	65	3	WBP11	12	14940061	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	3393297	14940061	118911834	131	42933										
KLHDC5	57542	mdanderson.org	37	chr12	27934040	27934040	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aactacctcttcatagtgggCgggtacaggatcactagcca	10	11	3	0	rs538490560		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr12:27934040C>T	ENST00000381271.2	+	1	1088	c.777C>T	c.(775-777)ggC>ggT	p.G259G	RP11-860B13.1_ENST00000545904.1_RNA	NM_020782.1	NP_065833.1	Q9P2K6	KLH42_HUMAN	kelch-like family member 42	259					mitotic nuclear division (GO:0007067)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein polyubiquitination (GO:0000209)|regulation of microtubule-based process (GO:0032886)	Cul3-RING ubiquitin ligase complex (GO:0031463)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)											TCATAGTGGGCGGGTACAGGA	0.582																																																0													71	60	63					12																	27934040		2203	4300	6503	SO:0001819	synonymous_variant	57542			AB037761	CCDS31763.1	12p11.22	2013-04-24	2013-02-22	2013-01-30	ENSG00000087448	ENSG00000087448		"Kelch-like"	29252	protein-coding gene	gene with protein product			"kelch domain containing 5"	KLHDC5		19261606	Standard	NM_020782		Approved	KIAA1340, Ctb9	uc001rij.3	Q9P2K6	OTTHUMG00000169217	ENST00000381271.2:c.777C>T	12.37:g.27934040C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2VPK1|Q8N334	Silent	SNP	ENST00000381271.2	37	CCDS31763.1	.	.	.	.	.	.	.	.	.	.	C	10.74	1.435082	0.25813	.	.	ENSG00000087448	ENST00000543254	.	.	.	4.73	-0.46	0.12175	.	.	.	.	.	T	0.40322	0.1112	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.24941	-1.0146	4	.	.	.	.	1.426	0.02323	0.2391:0.4129:0.1105:0.2374	.	.	.	.	W	81	.	.	R	+	1	2	KLHDC5	27825307	0.030000	0.19436	0.998000	0.56505	0.995000	0.86356	-0.824000	0.04438	0.065000	0.16485	0.586000	0.80456	CGG		0.582	KLHL42-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402904.1	NM_020782		T	27934040	C	T	27934040	2	4	669	1	0	0	0	0	0	0	0	1	8366	755	27	1		1	KLHDC5	12	27934040	Silent	SNP	C	TCGA-KN-8433-01A-11D-2310-10	12993979	27934040	105917855	132	42934										
TMEM117	84216	mdanderson.org	37	chr12	44338122	44338122	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tctcacatatacaacacgatTcttctaatggatgggaacat	6	9	3	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr12:44338122T>C	ENST00000266534.3	+	3	514	c.387T>C	c.(385-387)atT>atC	p.I129I	TMEM117_ENST00000551577.1_Silent_p.I129I|TMEM117_ENST00000536799.1_Missense_Mutation_p.S59P	NM_032256.1	NP_115632.1	Q9H0C3	TM117_HUMAN	transmembrane protein 117	129						endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)				breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(14)|urinary_tract(1)	23	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.124)		ACAACACGATTCTTCTAATGG	0.363																																																0													220	204	209					12																	44338122		2203	4300	6503	SO:0001819	synonymous_variant	84216			BC060798	CCDS8745.1, CCDS73462.1	12q12	2006-02-03				ENSG00000139173			25308	protein-coding gene	gene with protein product						11230166	Standard	NM_001286211		Approved	DKFZp434K2435	uc001rod.3	Q9H0C3	OTTHUMG00000169427	ENST00000266534.3:c.387T>C	12.37:g.44338122T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000266534.3	37	CCDS8745.1	.	.	.	.	.	.	.	.	.	.	T	14.60	2.583223	0.46006	.	.	ENSG00000139173	ENST00000536799	.	.	.	5.51	4.38	0.52667	.	.	.	.	.	T	0.31949	0.0813	.	.	.	0.25650	N	0.986101	B	0.02656	0.0	B	0.01281	0.0	T	0.27872	-1.0061	7	0.87932	D	0	-9.6711	6.1317	0.20209	0.0:0.2452:0.0:0.7548	.	59	F5H3Q2	.	P	59	.	ENSP00000445243:S59P	S	+	1	0	TMEM117	42624389	1.000000	0.71417	1.000000	0.80357	0.544000	0.35116	1.286000	0.33273	1.041000	0.40125	0.482000	0.46254	TCT		0.363	TMEM117-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403969.1	NM_032256		C	44338122	T	C	44338122	2	2	669	1	0	0	0	0	0	0	0	1	16043	1771	62	3		3	TMEM117	12	44338122	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	16404082	44338122	89513773	133	42935										
ENDOU	8909	mdanderson.org	37	chr12	48104619	48104619	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctatgtaggctgtggcgatgTacttcttgccattcccatag	10	10	1	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr12:48104619T>C	ENST00000422538.3	-	10	1321	c.1199A>G	c.(1198-1200)tAc>tGc	p.Y400C	ENDOU_ENST00000542202.1_Silent_p.V118V|RP1-197B17.3_ENST00000547799.1_lincRNA|ENDOU_ENST00000229003.3_Missense_Mutation_p.Y359C|ENDOU_ENST00000545824.2_Missense_Mutation_p.Y337C	NM_001172439.1	NP_001165910.1	P21128	ENDOU_HUMAN	endonuclease, polyU-specific	400					female pregnancy (GO:0007565)|immune response (GO:0006955)|proteolysis (GO:0006508)|RNA phosphodiester bond hydrolysis, endonucleolytic (GO:0090502)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|plasma membrane (GO:0005886)	endoribonuclease activity (GO:0004521)|growth factor activity (GO:0008083)|manganese ion binding (GO:0030145)|polysaccharide binding (GO:0030247)|RNA binding (GO:0003723)|scavenger receptor activity (GO:0005044)|serine-type peptidase activity (GO:0008236)			autonomic_ganglia(1)|endometrium(2)|large_intestine(4)|lung(2)|ovary(3)|pancreas(1)|stomach(1)	14						TGTGGCGATGTACTTCTTGCC	0.517																																																0													225	186	199					12																	48104619		2203	4300	6503	SO:0001583	missense	8909			M32402	CCDS8754.1, CCDS53784.1, CCDS53785.1	12q13.1	2011-08-31			ENSG00000111405	ENSG00000111405		"Serine peptidases / Serine peptidases"	14369	protein-coding gene	gene with protein product		606720				2350438, 1710108, 15755742, 18936097	Standard	NM_006025		Approved	PP11, P11, PRSS26	uc001rpu.2	P21128	OTTHUMG00000169670	ENST00000422538.3:c.1199A>G	12.37:g.48104619T>C	ENSP00000397679:p.Tyr400Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBJ3|B3KQS7|B7Z6E1|Q2NKJ4	Missense_Mutation	SNP	ENST00000422538.3	37	CCDS53785.1	.	.	.	.	.	.	.	.	.	.	T	18.83	3.708021	0.68615	.	.	ENSG00000111405	ENST00000229003;ENST00000422538;ENST00000545824	T;T	0.32988	1.43;1.45	6.06	3.53	0.40419	.	0.161948	0.56097	D	0.000033	T	0.44307	0.1287	L	0.49571	1.57	0.80722	D	1	D;D;D	0.89917	1.0;0.998;1.0	D;D;D	0.80764	0.987;0.959;0.994	T	0.22661	-1.0210	10	0.40728	T	0.16	-26.5326	8.6899	0.34260	0.4249:0.0:0.0:0.5751	.	337;400;359	P21128-3;P21128;P21128-2	.;ENDOU_HUMAN;.	C	359;400;337	ENSP00000229003:Y359C;ENSP00000397679:Y400C	ENSP00000229003:Y359C	Y	-	2	0	ENDOU	46390886	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	1.116000	0.31221	1.074000	0.40909	0.533000	0.62120	TAC		0.517	ENDOU-002	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000405352.1	NM_006025.2		C	48104619	T	C	48104619	3	2	669	1	0	0	0	0	1	0	0	0	5118	1638	57	3	37	3	ENDOU	12	48104619	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	3766497	48104619	85747276	134	42936										
ARF3	377	broad.mit.edu	37	chr12	49332755	49332756	+	Frame_Shift_Ins	INS	-	-	C													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cttgtttttgagctgattggINSccagccagtccaggccttcg							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr12:49332755_49332756insC	ENST00000256682.4	-	5	854_855	c.520_521insG	c.(520-522)gccfs	p.A174fs	RP11-302B13.5_ENST00000398092.4_Intron|ARF3_ENST00000447318.2_Frame_Shift_Ins_p.A137fs|ARF3_ENST00000541967.1_5'Flank|ARF3_ENST00000541959.1_Frame_Shift_Ins_p.A174fs|AC073610.5_ENST00000537495.1_Frame_Shift_Ins_p.A49fs	NM_001659.2	NP_001650.1	P61204	ARF3_HUMAN	ADP-ribosylation factor 3	174					GTP catabolic process (GO:0006184)|phosphatidylinositol biosynthetic process (GO:0006661)|phospholipid metabolic process (GO:0006644)|protein transport (GO:0015031)|small GTPase mediated signal transduction (GO:0007264)|small molecule metabolic process (GO:0044281)|vesicle-mediated transport (GO:0016192)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			endometrium(1)|lung(2)|skin(1)	4						GAGCTGATTGGCCAGCCAGTCC	0.584																																					Pancreas(189;1862 2134 4419 30933 49364)											0																																										SO:0001589	frameshift_variant	377			M74491	CCDS8774.1	12q13.12	2013-01-22			ENSG00000134287	ENSG00000134287		"ADP-ribosylation factors"	654	protein-coding gene	gene with protein product	"small GTP binding protein"	103190				8661066	Standard	NM_001659		Approved		uc001rsr.2	P61204	OTTHUMG00000168080	ENST00000256682.4:c.521dupG	12.37:g.49332757_49332757dupC	ENSP00000256682:p.Ala174fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6G8|B7ZB63|P16587	Frame_Shift_Ins	INS	ENST00000256682.4	37	CCDS8774.1																																																																																				0.584	ARF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258242.2	NM_001659		C	49332756	-	C	49332755	7	5	669	1	0	1	1	0	0	0	0	0	845	1203	42	0	28	0	ARF3	12	49332755	Frame_Shift_Ins	INS	-	TCGA-KN-8433-01A-11D-2310-10	1228136	49332755	84519140	135	42937										
KRT80	144501	mdanderson.org	37	chr12	52574312	52574312	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctcacctgctcatagatggtTttcatcaactccacgaagct	6	13	4	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr12:52574312T>C	ENST00000394815.2	-	4	748	c.651A>G	c.(649-651)aaA>aaG	p.K217K	KRT80_ENST00000313234.5_Silent_p.K217K	NM_182507.2	NP_872313.2	Q6KB66	K2C80_HUMAN	keratin 80	217	Coil 1B.|Rod.					cytoplasm (GO:0005737)|intermediate filament (GO:0005882)|keratin filament (GO:0045095)	structural molecule activity (GO:0005198)			endometrium(2)|large_intestine(2)|lung(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.108)		CATAGATGGTTTTCATCAACT	0.542																																					GBM(178;2309 2916 15678 35873)											0													156	159	158					12																	52574312		2203	4300	6503	SO:0001819	synonymous_variant	144501			BX537567	CCDS8821.2, CCDS41784.1	12q13.13	2013-01-16			ENSG00000167767	ENSG00000167767		"-", "Intermediate filaments type II, keratins (basic)"	27056	protein-coding gene	gene with protein product		611161				16831889	Standard	NM_001081492		Approved	KB20	uc001rzx.3	Q6KB66	OTTHUMG00000150193	ENST00000394815.2:c.651A>G	12.37:g.52574312T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6P1A5|Q7Z3Q0	Silent	SNP	ENST00000394815.2	37	CCDS8821.2																																																																																				0.542	KRT80-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000316757.1	NM_182507		C	52574312	T	C	52574312	2	2	669	1	0	0	0	0	0	0	0	1	8501	1838	64	3		3	KRT80	12	52574312	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	3241557	52574312	81277583	136	42938										
KRT81	3887	mdanderson.org	37	chr12	52681460	52681460	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gatctcctccttggtgcggcGcagggtctccccgtgcctga	13	15	2	1	rs4761786	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr12:52681460G>A	ENST00000327741.5	-	6	1014	c.946C>T	c.(946-948)Cgc>Tgc	p.R316C	KRT86_ENST00000544024.1_Intron|KRT86_ENST00000423955.2_Intron	NM_002281.3	NP_002272.2	Q14533	KRT81_HUMAN	keratin 81	316	Coil 2.|Rod.		R -> C (in dbSNP:rs4761786).			extracellular space (GO:0005615)|keratin filament (GO:0045095)	structural molecule activity (GO:0005198)			breast(2)|endometrium(3)|large_intestine(3)|lung(6)|prostate(1)|stomach(1)	16				BRCA - Breast invasive adenocarcinoma(357;0.189)		TTGGTGCGGCGCAGGGTCTCC	0.592													.|||	26	0.00519169	0.0	0.0043	5008	,	,		19481	0.0		0.0209	False		,,,				2504	0.002															0								G	CYS/ARG	7,4399	11.4+/-27.6	0,7,2196	89	75	80		946	3.8	1	12	dbSNP_111	80	72,8520	43.1+/-100.9	1,70,4225	no	missense	KRT81	NM_002281.3	180	1,77,6421	AA,AG,GG		0.838,0.1589,0.6078	probably-damaging	316/506	52681460	79,12919	2203	4296	6499	SO:0001583	missense	3887			X81420	CCDS31805.1	12q13	2013-01-16	2006-07-17	2006-07-17	ENSG00000205426	ENSG00000205426		"-", "Intermediate filaments type II, keratins (basic)"	6458	protein-coding gene	gene with protein product	"hard keratin type II 1"	602153	"keratin, hair, basic, 1"	KRTHB1		7556444, 16831889	Standard	NM_002281		Approved	Hb-1	uc001sab.3	Q14533	OTTHUMG00000167574	ENST00000327741.5:c.946C>T	12.37:g.52681460G>A	ENSP00000369349:p.Arg316Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q14846|Q16274|Q17R48|Q8WU52|Q9BR74	Missense_Mutation	SNP	ENST00000327741.5	37	CCDS31805.1	19	0.0086996336996337	0	0.0	1	0.0027624309392265192	0	0.0	18	0.023746701846965697	G	17.75	3.466900	0.63625	0.001589	0.00838	ENSG00000205426	ENST00000327741;ENST00000389388	D	0.90197	-2.63	4.7	3.79	0.43588	Filament (1);	0.000000	0.44688	U	0.000421	D	0.92404	0.7589	M	0.91663	3.23	0.46279	D	0.998961	D	0.89917	1.0	D	0.79108	0.992	D	0.92586	0.6079	10	0.66056	D	0.02	.	13.1775	0.59635	0.0794:0.0:0.9206:0.0	rs4761786	316	Q14533	KRT81_HUMAN	C	316	ENSP00000369349:R316C	ENSP00000369349:R316C	R	-	1	0	KRT81	50967727	0.001000	0.12720	1.000000	0.80357	0.997000	0.91878	0.975000	0.29449	2.139000	0.66308	0.561000	0.74099	CGC		0.592	KRT81-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395128.2	NM_002281		A	52681460	G	A	52681460	3	1	669	1	0	0	0	0	1	0	0	0	8502	1087	38	1	587	1	KRT81	12	52681460	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	107148	52681460	81170435	137	42939										
GRIP1	23426	mdanderson.org	37	chr12	66786508	66786508	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	agtctctcctgccatctgtaAcaaatggatggcttcactca	7	12	4	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr12:66786508A>G	ENST00000398016.3	-	17	2130	c.2062T>C	c.(2062-2064)Tta>Cta	p.L688L	GRIP1_ENST00000286445.7_Silent_p.L740L|GRIP1_ENST00000542021.1_5'Flank|GRIP1_ENST00000359742.4_Silent_p.L740L	NM_021150.3	NP_066973.2	Q96DT0	LEG12_HUMAN	glutamate receptor interacting protein 1	0					intrinsic apoptotic signaling pathway (GO:0097193)	nucleus (GO:0005634)	lactose binding (GO:0030395)			NS(3)|breast(2)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(10)|lung(19)|ovary(2)|prostate(2)|skin(1)	50			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		GCCATCTGTAACAAATGGATG	0.438																																																0													164	152	156					12																	66786508		1882	4113	5995	SO:0001819	synonymous_variant	23426			AJ133439	CCDS41807.1	12q13.13	2008-05-02			ENSG00000155974	ENSG00000155974			18708	protein-coding gene	gene with protein product		604597				10197531	Standard	NM_021150		Approved		uc001stk.3	Q9Y3R0	OTTHUMG00000169019	ENST00000398016.3:c.2062T>C	12.37:g.66786508A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9N2|G5E970|Q96DS9|Q96PR9|Q9H258|Q9H259|Q9NZ02	Silent	SNP	ENST00000398016.3	37	CCDS41807.1																																																																																				0.438	GRIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401975.2			G	66786508	A	G	66786508	2	3	669	1	0	0	0	0	0	0	0	1	6794	40	2	3		3	GRIP1	12	66786508	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	14105048	66786508	67065387	138	42940										
THAP2	83591	ucsc.edu	37	chr12	72067994	72067994	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttttttaaggtttcctttggAtcctaaaagaagaaaagaat	7	4	0	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr12:72067994A>T	ENST00000308086.2	+	2	1584	c.83A>T	c.(82-84)gAt>gTt	p.D28V	RP11-293I14.2_ENST00000548802.1_Missense_Mutation_p.D4V	NM_031435.3	NP_113623.1	Q9H0W7	THAP2_HUMAN	THAP domain containing, apoptosis associated protein 2	28						nucleolus (GO:0005730)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|kidney(1)|large_intestine(3)|lung(3)|ovary(1)|skin(1)	10						TTTCCTTTGGATCCTAAAAGA	0.343																																																0													51	53	52					12																	72067994		2203	4300	6503	SO:0001583	missense	83591			BC008358	CCDS9001.1	12q21.1	2013-01-25				ENSG00000173451		"THAP (C2CH-type zinc finger) domain containing"	20854	protein-coding gene	gene with protein product		612531				12575992	Standard	NM_031435		Approved	DKFZP564I0422	uc001swq.3	Q9H0W7	OTTHUMG00000169556	ENST00000308086.2:c.83A>T	12.37:g.72067994A>T	ENSP00000310796:p.Asp28Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8P3	Missense_Mutation	SNP	ENST00000308086.2	37	CCDS9001.1	.	.	.	.	.	.	.	.	.	.	A	20.8	4.044273	0.75732	.	.	ENSG00000173451	ENST00000308086	D	0.97161	-4.27	5.62	5.62	0.85841	Zinc finger, C2CH-type (4);	0.077148	0.50627	D	0.000112	D	0.97639	0.9226	L	0.58428	1.81	0.80722	D	1	D	0.63046	0.992	D	0.65443	0.935	D	0.98304	1.0520	10	0.87932	D	0	.	13.7768	0.63059	1.0:0.0:0.0:0.0	.	28	Q9H0W7	THAP2_HUMAN	V	28	ENSP00000310796:D28V	ENSP00000310796:D28V	D	+	2	0	THAP2	70354261	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	3.224000	0.51238	2.151000	0.67156	0.482000	0.46254	GAT		0.343	THAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404796.1	NM_031435		T	72067994	A	T	72067994	3	4	669	1	0	0	0	0	1	0	0	0	15856	333	12	5	89	5	THAP2	12	72067994	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	5281486	72067994	61783901	139	42941										
ACSS3	79611	mdanderson.org	37	chr12	81503481	81503481	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cctataaagaagttctggagCaggtaatatcataaacttta	7	6	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr12:81503481C>T	ENST00000548058.1	+	2	1364	c.454C>T	c.(454-456)Cag>Tag	p.Q152*	ACSS3_ENST00000261206.3_Nonsense_Mutation_p.Q151*|RP11-543H12.1_ENST00000547123.1_RNA			Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	152						mitochondrion (GO:0005739)	acetate-CoA ligase activity (GO:0003987)|ATP binding (GO:0005524)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(5)|kidney(2)|large_intestine(7)|liver(3)|lung(20)|ovary(1)|skin(4)|upper_aerodigestive_tract(2)	51						AGTTCTGGAGCAGGTAATATC	0.303																																																0													65	66	66					12																	81503481		2202	4300	6502	SO:0001587	stop_gained	79611				CCDS9022.1	12q21.31	2014-08-08			ENSG00000111058	ENSG00000111058		"Acyl-CoA synthetase family"	24723	protein-coding gene	gene with protein product		614356				17762044	Standard	NM_024560		Approved	FLJ21963	uc001szl.1	Q9H6R3	OTTHUMG00000170179	ENST00000548058.1:c.454C>T	12.37:g.81503481C>T	ENSP00000449535:p.Gln152*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC66	Nonsense_Mutation	SNP	ENST00000548058.1	37	CCDS9022.1	.	.	.	.	.	.	.	.	.	.	C	38	7.006905	0.97998	.	.	ENSG00000111058	ENST00000549175;ENST00000548058;ENST00000261206	.	.	.	6.07	6.07	0.98685	.	0.051372	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.45353	T	0.12	-20.5427	19.4308	0.94765	0.0:1.0:0.0:0.0	.	.	.	.	X	44;152;151	.	ENSP00000261206:Q151X	Q	+	1	0	ACSS3	80027612	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	2.879000	0.48522	2.885000	0.99019	0.655000	0.94253	CAG		0.303	ACSS3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000407794.1	NM_024560		T	81503481	C	T	81503481	4	4	669	1	0	0	0	0	0	1	0	0	190	711	25	2	460	2	ACSS3	12	81503481	Nonsense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	9435487	81503481	52348414	140	42942										
PLXNC1	10154	mdanderson.org	37	chr12	94676121	94676121	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aacttctggacatcgacagtTcctccgtgattcttgaagat	8	10	2	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr12:94676121T>C	ENST00000258526.4	+	23	4072	c.3823T>C	c.(3823-3825)Tcc>Ccc	p.S1275P	PLXNC1_ENST00000545312.1_Missense_Mutation_p.S14P|PLXNC1_ENST00000547057.1_Missense_Mutation_p.S322P|RP11-1105G2.3_ENST00000551941.1_5'Flank|RP11-1105G2.3_ENST00000547927.1_Intron	NM_005761.2	NP_005752.1	O60486	PLXC1_HUMAN	plexin C1	1275					axon guidance (GO:0007411)|cell adhesion (GO:0007155)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)|intracellular (GO:0005622)|membrane (GO:0016020)|plasma membrane (GO:0005886)	receptor activity (GO:0004872)|receptor binding (GO:0005102)			breast(2)|central_nervous_system(1)|cervix(2)|endometrium(4)|kidney(4)|large_intestine(12)|lung(30)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	64						CATCGACAGTTCCTCCGTGAT	0.438																																																0													141	131	134					12																	94676121		2203	4300	6503	SO:0001583	missense	10154			AF030339	CCDS9049.1	12q23	2009-04-17				ENSG00000136040		"CD molecules", "Plexins"	9106	protein-coding gene	gene with protein product		604259					Standard	NR_037687		Approved	VESPR, CD232	uc001tdc.3	O60486	OTTHUMG00000170235	ENST00000258526.4:c.3823T>C	12.37:g.94676121T>C	ENSP00000258526:p.Ser1275Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q59H25	Missense_Mutation	SNP	ENST00000258526.4	37	CCDS9049.1	.	.	.	.	.	.	.	.	.	.	T	20.3	3.973270	0.74246	.	.	ENSG00000136040	ENST00000258526;ENST00000547057;ENST00000545312	T;T;T	0.11930	2.73;2.73;2.73	5.92	5.92	0.95590	Plexin, cytoplasmic RasGAP domain (1);Rho GTPase activation protein (1);	0.103828	0.64402	D	0.000005	T	0.28566	0.0707	L	0.42245	1.32	0.43330	D	0.995366	D;D	0.76494	0.982;0.999	P;D	0.66847	0.584;0.947	T	0.00607	-1.1647	10	0.41790	T	0.15	.	14.9345	0.70944	0.0:0.0:0.0:1.0	.	322;1275	B4DHQ7;O60486	.;PLXC1_HUMAN	P	1275;322;14	ENSP00000258526:S1275P;ENSP00000446720:S322P;ENSP00000439225:S14P	ENSP00000258526:S1275P	S	+	1	0	PLXNC1	93200252	0.992000	0.36948	0.780000	0.31762	0.778000	0.44026	3.528000	0.53524	2.270000	0.75569	0.459000	0.35465	TCC		0.438	PLXNC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408126.2			C	94676121	T	C	94676121	3	2	669	1	0	0	0	0	1	0	0	0	12133	1783	62	3	3913	3	PLXNC1	12	94676121	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	13172640	94676121	39175774	141	42943										
TMEM132B	114795	broad.mit.edu;mdanderson.org	37	chr12	126138173	126138173	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gtgacacctttagacatttaCgatcctaaggattattctgt	7	8	1	2	rs368152539		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr12:126138173C>T	ENST00000299308.3	+	9	2162	c.2154C>T	c.(2152-2154)taC>taT	p.Y718Y	TMEM132B_ENST00000535886.1_Silent_p.Y230Y	NM_052907.2	NP_443139.2	Q14DG7	T132B_HUMAN	transmembrane protein 132B	718						integral component of membrane (GO:0016021)				NS(1)|breast(9)|central_nervous_system(1)|cervix(1)|endometrium(7)|kidney(2)|large_intestine(11)|liver(1)|lung(45)|ovary(5)|pancreas(1)|prostate(4)|skin(15)|upper_aerodigestive_tract(3)|urinary_tract(1)	107	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)		TAGACATTTACGATCCTAAGG	0.403																																																0								C		0,3812		0,0,1906	120	115	117		2154	-5.7	0.3	12		117	2,8228		0,2,4113	no	coding-synonymous	TMEM132B	NM_052907.2		0,2,6019	TT,TC,CC		0.0243,0.0,0.0166		718/1079	126138173	2,12040	1906	4115	6021	SO:0001819	synonymous_variant	114795			AB067493	CCDS41859.1, CCDS66501.1	12q24.31	2006-03-02							29397	protein-coding gene	gene with protein product						11572484	Standard	NM_001286219		Approved	KIAA1906, KIAA1786	uc001uhe.1	Q14DG7		ENST00000299308.3:c.2154C>T	12.37:g.126138173C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2RRG8|Q8NA73|Q96JN9|Q96PY1	Silent	SNP	ENST00000299308.3	37	CCDS41859.1																																																																																				0.403	TMEM132B-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000400043.1	NM_052907		T	126138173	C	T	126138173	2	4	669	1	0	0	0	0	0	0	0	1	16058	547	19	1		1	TMEM132B	12	126138173	Silent	SNP	C	TCGA-KN-8433-01A-11D-2310-10	31462052	126138173	7713722	142	42944										
TPTE2	93492	mdanderson.org	37	chr13	20056686	20056686	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cttggaaagtcgttctaacaTactttagccaccaaaaaaaa	5	9	1	0	rs201542496		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr13:20056686T>C	ENST00000400230.2	-	4	165	c.121A>G	c.(121-123)Atg>Gtg	p.M41V	TPTE2_ENST00000457266.2_Splice_Site_p.M41V|TPTE2_ENST00000390680.2_Intron|TPTE2_ENST00000255310.6_Intron|TPTE2_ENST00000382978.1_Splice_Site_p.M41V|TPTE2_ENST00000382977.4_Splice_Site_p.M41V|TPTE2_ENST00000400103.2_Splice_Site_p.M41V|TPTE2_ENST00000382975.4_Splice_Site_p.M41V			Q6XPS3	TPTE2_HUMAN	transmembrane phosphoinositide 3-phosphatase and tensin homolog 2	41					phosphatidylinositol biosynthetic process (GO:0006661)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum (GO:0005783)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	ion channel activity (GO:0005216)|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity (GO:0016314)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)			NS(2)|breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|large_intestine(8)|lung(21)|pancreas(1)|prostate(8)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	65		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)		CGTTCTAACATACTTTAGCCA	0.313																																																0													47	46	47					13																	20056686		2202	4298	6500	SO:0001630	splice_region_variant	93492			AJ421032	CCDS9285.1, CCDS45013.1, CCDS45014.1	13q12.11	2012-12-10			ENSG00000132958	ENSG00000132958		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs"	17299	protein-coding gene	gene with protein product		606791				11716755, 12717346, 15057823	Standard	NM_130785		Approved	TPIP	uc001umd.3	Q6XPS3	OTTHUMG00000016493	ENST00000400230.2:c.120-1A>G	13.37:g.20056686T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A1A4X0|A1A4X1|A8MX64|B1AQ16|B4DWZ2|Q5VUH2|Q8WWL4|Q8WWL5	Missense_Mutation	SNP	ENST00000400230.2	37	CCDS45014.1	.	.	.	.	.	.	.	.	.	.	T	0	-2.805163	0.00075	.	.	ENSG00000132958	ENST00000382978;ENST00000400103;ENST00000400230;ENST00000382977;ENST00000382975;ENST00000457266;ENST00000343548	D;D;D;D;D;D	0.94376	-3.41;-3.33;-3.28;-3.28;-3.41;-3.33	2.06	0.838	0.18902	.	0.589765	0.15086	U	0.281346	D	0.83399	0.5246	N	0.19112	0.55	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.68424	-0.5412	9	.	.	.	0.2742	3.9369	0.09310	0.0:0.1886:0.0:0.8114	.	41;41	A8MX64;Q6XPS3	.;TPTE2_HUMAN	V	41	ENSP00000372438:M41V;ENSP00000382974:M41V;ENSP00000383089:M41V;ENSP00000372437:M41V;ENSP00000372435:M41V;ENSP00000442218:M41V	.	M	-	1	0	TPTE2	18954686	0.001000	0.12720	0.000000	0.03702	0.001000	0.01503	-0.105000	0.10907	0.235000	0.21160	0.383000	0.25322	ATG		0.313	TPTE2-205	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_199254	Missense_Mutation	C	20056686	T	C	20056686	5	2	669	1	0	0	0	0	0	0	1	0	16443	1420	49	3	1515	3	TPTE2	13	20056686	Splice_Site	SNP	T	TCGA-KN-8433-01A-11D-2310-10		20056686	95113192	143	42945										
FGF9	2254	mdanderson.org	37	chr13	22275358	22275358	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	acccaagagtgtgtattcagAgaacagttcgaagaaaactg	10	7	1	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr13:22275358A>G	ENST00000382353.5	+	3	941	c.411A>G	c.(409-411)agA>agG	p.R137R	FGF9_ENST00000478546.1_3'UTR	NM_002010.2	NP_002001.1	P31371	FGF9_HUMAN	fibroblast growth factor 9	137					angiogenesis (GO:0001525)|cell-cell signaling (GO:0007267)|chondrocyte differentiation (GO:0002062)|embryonic digestive tract development (GO:0048566)|embryonic limb morphogenesis (GO:0030326)|embryonic skeletal system development (GO:0048706)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|inner ear morphogenesis (GO:0042472)|insulin receptor signaling pathway (GO:0008286)|lung-associated mesenchyme development (GO:0060484)|male gonad development (GO:0008584)|male sex determination (GO:0030238)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of Wnt signaling pathway (GO:0030178)|neurotrophin TRK receptor signaling pathway (GO:0048011)|osteoblast differentiation (GO:0001649)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cardiac muscle cell proliferation (GO:0060045)|positive regulation of cell division (GO:0051781)|positive regulation of cell proliferation (GO:0008284)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of gene expression (GO:0010628)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of smoothened signaling pathway (GO:0045880)|positive regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030949)|protein import into nucleus (GO:0006606)|regulation of timing of cell differentiation (GO:0048505)|signal transduction (GO:0007165)|substantia nigra development (GO:0021762)	basement membrane (GO:0005604)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	growth factor activity (GO:0008083)|heparin binding (GO:0008201)			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(2)|skin(2)	9		all_cancers(29;1.23e-20)|all_epithelial(30;9.83e-19)|all_lung(29;9.64e-17)|Lung SC(185;0.0262)|Breast(139;0.106)		all cancers(112;3.92e-05)|Epithelial(112;0.000166)|OV - Ovarian serous cystadenocarcinoma(117;0.00314)|Lung(94;0.163)		GTGTATTCAGAGAACAGTTCG	0.383																																					Melanoma(195;1939 2127 12623 13963 52730)											0													66	60	62					13																	22275358		2203	4300	6503	SO:0001819	synonymous_variant	2254			D14838	CCDS9298.1	13q11-q12	2014-01-30	2013-06-18		ENSG00000102678	ENSG00000102678		"Endogenous ligands"	3687	protein-coding gene	gene with protein product	"glia-activating factor"	600921	"fibroblast growth factor 9 (glia-activating factor)"			8321227	Standard	NM_002010		Approved		uc001uog.2	P31371	OTTHUMG00000017412	ENST00000382353.5:c.411A>G	13.37:g.22275358A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K427|Q3SY32	Silent	SNP	ENST00000382353.5	37	CCDS9298.1																																																																																				0.383	FGF9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046002.2			G	22275358	A	G	22275358	2	3	669	1	0	0	0	0	0	0	0	1	5866	301	11	3		3	FGF9	13	22275358	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	2218672	22275358	92894520	144	42946										
PABPC3	5042	mdanderson.org	37	chr13	25671967	25671967	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggaaactttgactgcctccaGgttggcatctgcccctcctc	9	15	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr13:25671967G>T	ENST00000281589.3	+	1	1668	c.1631G>T	c.(1630-1632)aGg>aTg	p.R544M		NM_030979.2	NP_112241.2	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	544	PABC. {ECO:0000255|PROSITE- ProRule:PRU00641}.				mRNA metabolic process (GO:0016071)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)			breast(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(21)|ovary(4)|pancreas(1)|skin(3)	47		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)		ACTGCCTCCAGGTTGGCATCT	0.473																																																0													103	96	98					13																	25671967		2203	4300	6503	SO:0001583	missense	5042			AF132026	CCDS9311.1	13q12-q13	2013-02-12	2001-11-28		ENSG00000151846	ENSG00000151846		"RNA binding motif (RRM) containing"	8556	protein-coding gene	gene with protein product	"testis PABP"	604680	"poly(A)-binding protein, cytoplasmic 3"	PABPL3		8432538, 10543404	Standard	NM_030979		Approved	PABP3, tPABP	uc001upy.3	Q9H361	OTTHUMG00000016601	ENST00000281589.3:c.1631G>T	13.37:g.25671967G>T	ENSP00000281589:p.Arg544Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHV0|Q9H086	Missense_Mutation	SNP	ENST00000281589.3	37	CCDS9311.1	.	.	.	.	.	.	.	.	.	.	G	0.001	-3.144124	0.00029	.	.	ENSG00000151846	ENST00000281589	T	0.39229	1.09	0.875	-0.617	0.11579	Polyadenylate-binding protein/Hyperplastic disc protein (4);	0.097289	0.41823	N	0.000817	T	0.04724	0.0128	N	0.00020	-2.765	0.22489	N	0.99906	B	0.02656	0.0	B	0.01281	0.0	T	0.44742	-0.9308	10	0.02654	T	1	.	5.0095	0.14304	0.0:0.0:0.3097:0.6903	.	544	Q9H361	PABP3_HUMAN	M	544	ENSP00000281589:R544M	ENSP00000281589:R544M	R	+	2	0	PABPC3	24569967	1.000000	0.71417	0.879000	0.34478	0.018000	0.09664	3.843000	0.55865	-0.179000	0.10654	-0.875000	0.02981	AGG		0.473	PABPC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044220.2	NM_030979		T	25671967	G	T	25671967	3	4	669	1	0	0	0	0	1	0	0	0	11372	1000	35	4	1633	4	PABPC3	13	25671967	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	3396609	25671967	89497911	145	42947										
OR4N2	390429	mdanderson.org	37	chr14	20296208	20296208	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tggtggagcttctgatggtcTtcaacagtggcctgatgaca	13	8	3	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr14:20296208T>C	ENST00000315947.1	+	1	601	c.601T>C	c.(601-603)Ttc>Ctc	p.F201L	OR4N2_ENST00000568211.1_3'UTR	NM_001004723.1	NP_001004723.1	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N, member 2	201						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|liver(1)|lung(32)|ovary(2)|prostate(1)|skin(2)|stomach(2)	52	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCTGATGGTCTTCAACAGTGG	0.507																																																0													145	144	144					14																	20296208		2203	4300	6503	SO:0001583	missense	390429				CCDS32022.1	14q11.2	2013-09-23				ENSG00000176294		"GPCR / Class A : Olfactory receptors"	14742	protein-coding gene	gene with protein product							Standard	NM_001004723		Approved		uc010tkv.2	Q8NGD1		ENST00000315947.1:c.601T>C	14.37:g.20296208T>C	ENSP00000319601:p.Phe201Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEY9|Q6IFA2	Missense_Mutation	SNP	ENST00000315947.1	37	CCDS32022.1	.	.	.	.	.	.	.	.	.	.	.	13.47	2.246339	0.39697	.	.	ENSG00000176294	ENST00000315947	T	0.00123	8.7	4.52	3.28	0.37604	GPCR, rhodopsin-like superfamily (1);	0.125811	0.36703	N	0.002455	T	0.00073	0.0002	N	0.04148	-0.265	0.09310	N	1	B	0.10296	0.003	B	0.15052	0.012	T	0.39820	-0.9595	10	0.66056	D	0.02	-25.8079	3.5346	0.07789	0.1948:0.1049:0.0:0.7003	.	201	Q8NGD1	OR4N2_HUMAN	L	201	ENSP00000319601:F201L	ENSP00000319601:F201L	F	+	1	0	OR4N2	19366048	0.000000	0.05858	1.000000	0.80357	0.976000	0.68499	0.181000	0.16880	2.008000	0.58898	0.477000	0.44152	TTC		0.507	OR4N2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409821.2			C	20296208	T	C	20296208	3	2	669	1	0	0	0	0	1	0	0	0	11084	1609	56	3	603	3	OR4N2	14	20296208	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10		20296208	87053332	146	42948										
SLC7A7	9056	mdanderson.org	37	chr14	23243680	23243680	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttaatgagctggaagatgtcTtccacgcacaagtagatcaa	9	8	2	3	rs139619724	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr14:23243680T>C	ENST00000397532.3	-	8	1653	c.1128A>G	c.(1126-1128)gaA>gaG	p.E376E	SLC7A7_ENST00000285850.7_Silent_p.E376E|SLC7A7_ENST00000554517.1_Silent_p.E110E|SLC7A7_ENST00000397528.4_Silent_p.E376E|SLC7A7_ENST00000397529.2_Silent_p.E376E|SLC7A7_ENST00000554061.1_5'UTR|SLC7A7_ENST00000555702.1_Silent_p.E376E			Q9UM01	YLAT1_HUMAN	solute carrier family 7 (amino acid transporter light chain, y+L system), member 7	376					amino acid transport (GO:0006865)|blood coagulation (GO:0007596)|cellular amino acid metabolic process (GO:0006520)|ion transport (GO:0006811)|leukocyte migration (GO:0050900)|protein complex assembly (GO:0006461)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	amino acid transmembrane transporter activity (GO:0015171)			breast(2)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(3)|lung(8)|ovary(1)|skin(2)	20	all_cancers(95;8.44e-05)			GBM - Glioblastoma multiforme(265;0.00741)		GGAAGATGTCTTCCACGCACA	0.473																																																0													213	201	205					14																	23243680		2203	4300	6503	SO:0001819	synonymous_variant	9056			AF092032	CCDS9574.1	14q11.2	2014-09-17	2011-07-12		ENSG00000155465	ENSG00000155465		"Solute carriers"	11065	protein-coding gene	gene with protein product		603593		LPI		9829974	Standard	NM_001126106		Approved	y+LAT-1	uc001wgs.4	Q9UM01	OTTHUMG00000028692	ENST00000397532.3:c.1128A>G	14.37:g.23243680T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RAU0|D3DS26|O95984|Q53XC1|Q86U07|Q9P2V5	Silent	SNP	ENST00000397532.3	37	CCDS9574.1																																																																																				0.473	SLC7A7-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071636.3			C	23243680	T	C	23243680	2	2	669	1	0	0	0	0	0	0	0	1	14716	1606	56	3		3	SLC7A7	14	23243680	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	2947472	23243680	84105860	147	42949										
ACIN1	22985	ucsc.edu	37	chr14	23548787	23548787	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgcttgatgctgaacgagaaCgtgaacgtgaccttgatctg	12	8	1	6	rs55838227|rs34870944|rs61741619	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr14:23548787C>T	ENST00000262710.1	-	6	2258	c.1931G>A	c.(1930-1932)cGt>cAt	p.R644H	ACIN1_ENST00000605057.1_Missense_Mutation_p.R586H|ACIN1_ENST00000555352.1_5'Flank|ACIN1_ENST00000457657.1_Missense_Mutation_p.R604H|ACIN1_ENST00000555053.1_Missense_Mutation_p.R644H	NM_001164814.1|NM_014977.3	NP_001158286.1|NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	644	Ser-rich.				apoptotic chromosome condensation (GO:0030263)|apoptotic process (GO:0006915)|ATP catabolic process (GO:0006200)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|erythrocyte differentiation (GO:0030218)|mRNA processing (GO:0006397)|negative regulation of mRNA splicing, via spliceosome (GO:0048025)|positive regulation of apoptotic process (GO:0043065)|positive regulation of monocyte differentiation (GO:0045657)|RNA splicing (GO:0008380)	ASAP complex (GO:0061574)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATPase activity (GO:0016887)|enzyme binding (GO:0019899)|nucleic acid binding (GO:0003676)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)	p.S643_R644insHS(1)		breast(1)|endometrium(6)|kidney(4)|large_intestine(9)|lung(10)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	37	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		TGAACGAGAACGTGAACGTGA	0.488																																																1	Insertion - In frame(1)	upper_aerodigestive_tract(1)											255	224	235					14																	23548787		2203	4300	6503	SO:0001583	missense	22985			AB014570	CCDS9587.1, CCDS53887.1, CCDS53888.1, CCDS53889.1, CCDS55905.1	14q11.2	2008-11-25	2004-03-31	2004-04-01	ENSG00000100813	ENSG00000100813			17066	protein-coding gene	gene with protein product	"functional spliceosome-associated protein 152"	604562	"apoptotic chromatin condensation inducer in the nucleus"	ACINUS		9734811, 10490026	Standard	NM_014977		Approved	KIAA0670, fSAP152	uc001wit.4	Q9UKV3	OTTHUMG00000028716	ENST00000262710.1:c.1931G>A	14.37:g.23548787C>T	ENSP00000262710:p.Arg644His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTT4|D3DS45|O75158|Q9UG91|Q9UKV1|Q9UKV2	Missense_Mutation	SNP	ENST00000262710.1	37	CCDS9587.1	.	.	.	.	.	.	.	.	.	.	C	20.9	4.061864	0.76187	.	.	ENSG00000100813	ENST00000262710;ENST00000457657;ENST00000555053	T;T;T	0.30448	2.29;1.53;2.29	5.46	5.46	0.80206	.	0.000000	0.41001	D	0.000979	T	0.42720	0.1215	L	0.27053	0.805	0.36352	D	0.86012	D;D;D	0.89917	1.0;0.999;0.999	D;D;D	0.79784	0.993;0.984;0.984	T	0.50808	-0.8784	10	0.59425	D	0.04	-1.7144	14.8141	0.70017	0.0:1.0:0.0:0.0	.	644;644;604	G3V3M7;Q9UKV3;E7EQT4	.;ACINU_HUMAN;.	H	644;604;644	ENSP00000262710:R644H;ENSP00000405677:R604H;ENSP00000451328:R644H	ENSP00000262710:R644H	R	-	2	0	ACIN1	22618627	0.999000	0.42202	1.000000	0.80357	0.906000	0.53458	1.398000	0.34554	2.556000	0.86216	0.655000	0.94253	CGT		0.488	ACIN1-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000071707.3	NM_014977		T	23548787	C	T	23548787	3	4	669	1	0	0	0	0	1	0	0	0	142	536	19	1	2297	1	ACIN1	14	23548787	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	305107	23548787	83800753	148	42950										
C14orf126	112487	mdanderson.org	37	chr14	31926584	31926584	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cgcccgggcctgaggaatccGgctaccctcagccatggctt	12	16	1	1	rs17097904	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr14:31926584G>A	ENST00000310850.4	-	1	132	c.16C>T	c.(16-18)Cgg>Tgg	p.R6W	RP11-176H8.1_ENST00000547378.1_Missense_Mutation_p.R6W|DTD2_ENST00000356180.4_Missense_Mutation_p.R6W	NM_080664.2	NP_542395.1	Q96FN9	DTD2_HUMAN	D-tyrosyl-tRNA deacylase 2 (putative)	6			R -> W (in dbSNP:rs17097904).		D-amino acid catabolic process (GO:0019478)	cytoplasm (GO:0005737)	hydrolase activity, acting on ester bonds (GO:0016788)	p.R6W(1)									TGAGGAATCCGGCTACCCTCA	0.697																																																1	Substitution - Missense(1)	skin(1)											12	12	12					14																	31926584		2183	4278	6461	SO:0001583	missense	112487			BC010618	CCDS9643.1	14q12	2012-09-25	2012-09-25	2012-09-25	ENSG00000129480	ENSG00000129480			20277	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 126"	C14orf126			Standard	NM_080664		Approved	MGC9912	uc001wrj.3	Q96FN9	OTTHUMG00000140205	ENST00000310850.4:c.16C>T	14.37:g.31926584G>A	ENSP00000312224:p.Arg6Trp	Somatic		WXS	Illumina HiSeq	Phase_I	D3DS87	Missense_Mutation	SNP	ENST00000310850.4	37	CCDS9643.1	.	.	.	.	.	.	.	.	.	.	G	19.08	3.758136	0.69763	.	.	ENSG00000203546;ENSG00000129480;ENSG00000129480	ENST00000547378;ENST00000310850;ENST00000356180	T;T;T	0.55052	0.54;0.71;0.71	4.84	2.97	0.34412	D-Tyr tRNAtyr deacylase-like domain (1);	0.302778	0.30901	N	0.008651	T	0.52419	0.1733	M	0.69823	2.125	0.36855	D	0.888115	D	0.67145	0.996	B	0.43623	0.425	T	0.65220	-0.6221	10	0.87932	D	0	.	11.9711	0.53063	0.0:0.0:0.5428:0.4572	rs17097904	6	Q96FN9	DTD2_HUMAN	W	6	ENSP00000447056:R6W;ENSP00000312224:R6W;ENSP00000348503:R6W	ENSP00000312224:R6W	R	-	1	2	C14orf126;RP11-176H8.1	30996335	0.001000	0.12720	0.005000	0.12908	0.004000	0.04260	0.080000	0.14802	0.618000	0.30179	0.561000	0.74099	CGG		0.697	DTD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276614.2	NM_080664		A	31926584	G	A	31926584	3	1	669	1	0	0	0	0	1	0	0	0	1745	1115	39	1	502	1	C14orf126	14	31926584	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	8377797	31926584	75422956	149	42951										
LRFN5	145581	mdanderson.org	37	chr14	42356084	42356084	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	acctgactctatccaggaatAcaataagttttattacacct	4	10	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr14:42356084A>G	ENST00000298119.4	+	3	1445	c.256A>G	c.(256-258)Aca>Gca	p.T86A	LRFN5_ENST00000554120.1_Missense_Mutation_p.T86A|LRFN5_ENST00000554171.1_Missense_Mutation_p.T86A	NM_152447.3	NP_689660.2	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III domain containing 5	86						integral component of membrane (GO:0016021)				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)		ATCCAGGAATACAATAAGTTT	0.363										HNSCC(30;0.082)																																						0													54	54	54					14																	42356084		2203	4300	6503	SO:0001583	missense	145581			AK055365	CCDS9678.1	14q21.1	2013-02-11	2004-02-02	2004-02-04	ENSG00000165379	ENSG00000165379		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	20360	protein-coding gene	gene with protein product	"fibronectin type III, immunoglobulin and leucine rich repeat domains 8"	612811	"chromosome 14 open reading frame 146"	C14orf146		16828986	Standard	NM_152447		Approved	FIGLER8, SALM5	uc001wvm.3	Q96NI6	OTTHUMG00000140261	ENST00000298119.4:c.256A>G	14.37:g.42356084A>G	ENSP00000298119:p.Thr86Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B3KU78|Q86XL2	Missense_Mutation	SNP	ENST00000298119.4	37	CCDS9678.1	.	.	.	.	.	.	.	.	.	.	A	16.14	3.037406	0.54896	.	.	ENSG00000165379	ENST00000298119;ENST00000554120;ENST00000554171	D;D;D	0.91740	-2.9;-2.9;-2.9	5.56	5.56	0.83823	.	0.000000	0.64402	D	0.000018	D	0.87168	0.6110	N	0.03608	-0.345	0.58432	D	0.999995	B;P	0.47302	0.225;0.893	B;P	0.53689	0.169;0.732	D	0.87967	0.2734	10	0.33141	T	0.24	.	13.6661	0.62396	1.0:0.0:0.0:0.0	.	86;86	G3V364;Q96NI6	.;LRFN5_HUMAN	A	86	ENSP00000298119:T86A;ENSP00000451897:T86A;ENSP00000451067:T86A	ENSP00000298119:T86A	T	+	1	0	LRFN5	41425834	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.339000	0.96797	2.098000	0.63641	0.528000	0.53228	ACA		0.363	LRFN5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276786.1	NM_152447		G	42356084	A	G	42356084	3	3	669	1	0	0	0	0	1	0	0	0	8948	391	14	3	258	3	LRFN5	14	42356084	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	10429500	42356084	64993456	150	42952										
SOS2	6655	mdanderson.org	37	chr14	50597336	50597336	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cactgttgattccagctcagTttcagcaatccgactaaagc	7	12	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr14:50597336T>C	ENST00000216373.5	-	20	3494	c.3220A>G	c.(3220-3222)Act>Gct	p.T1074A	SOS2_ENST00000543680.1_Missense_Mutation_p.T1041A	NM_006939.2	NP_008870.2	Q07890	SOS2_HUMAN	son of sevenless homolog 2 (Drosophila)	1074					apoptotic signaling pathway (GO:0097190)|axon guidance (GO:0007411)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of small GTPase mediated signal transduction (GO:0051057)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	DNA binding (GO:0003677)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(13)|lung(16)|ovary(2)|skin(1)	39	all_epithelial(31;0.000822)|Breast(41;0.0065)					TCCAGCTCAGTTTCAGCAATC	0.438																																																0													198	170	180					14																	50597336		2203	4300	6503	SO:0001583	missense	6655			L13858	CCDS9697.1	14q21	2013-01-10	2001-12-04		ENSG00000100485	ENSG00000100485		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	11188	protein-coding gene	gene with protein product		601247	"son of sevenless (Drosophilia) homolog 2"			8276400	Standard	NM_006939		Approved		uc001wxs.4	Q07890	OTTHUMG00000140292	ENST00000216373.5:c.3220A>G	14.37:g.50597336T>C	ENSP00000216373:p.Thr1074Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKT6|D3DSB4|Q15503|Q17RN1	Missense_Mutation	SNP	ENST00000216373.5	37	CCDS9697.1	.	.	.	.	.	.	.	.	.	.	T	11.81	1.749831	0.30955	.	.	ENSG00000100485	ENST00000216373;ENST00000543680	T;T	0.78364	-1.17;-1.04	5.62	3.28	0.37604	.	0.205916	0.52532	N	0.000080	T	0.52141	0.1716	N	0.14661	0.345	0.36905	D	0.890584	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.001	T	0.38735	-0.9647	10	0.12103	T	0.63	.	2.0393	0.03546	0.2436:0.3181:0.0:0.4383	.	1041;1074	B7ZKT6;Q07890	.;SOS2_HUMAN	A	1074;1041	ENSP00000216373:T1074A;ENSP00000445328:T1041A	ENSP00000216373:T1074A	T	-	1	0	SOS2	49667086	1.000000	0.71417	0.999000	0.59377	0.980000	0.70556	1.618000	0.36954	0.974000	0.38366	0.397000	0.26171	ACT		0.438	SOS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276878.2			C	50597336	T	C	50597336	3	2	669	1	0	0	0	0	1	0	0	0	14950	1725	60	3	794	3	SOS2	14	50597336	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	8241252	50597336	56752204	151	42953										
PSMC6	5706	mdanderson.org	37	chr14	53178163	53178163	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggtggatccactggtttataAcatgtctcatgaggaccctg	11	9	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr14:53178163A>G	ENST00000606149.1	+	6	378	c.362A>G	c.(361-363)aAc>aGc	p.N121S	PSMC6_ENST00000445930.2_Missense_Mutation_p.N135S	NM_002806.3	NP_002797.3	P62333	PRS10_HUMAN	proteasome (prosome, macropain) 26S subunit, ATPase, 6	121					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|ATP catabolic process (GO:0006200)|cellular nitrogen compound metabolic process (GO:0034641)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|negative regulation of apoptotic process (GO:0043066)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|ubiquitin-dependent protein catabolic process (GO:0006511)|viral process (GO:0016032)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|proteasome accessory complex (GO:0022624)|proteasome complex (GO:0000502)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|protein binding, bridging (GO:0030674)			breast(2)|endometrium(3)|kidney(2)|large_intestine(4)|lung(6)|prostate(1)|stomach(1)	19	Breast(41;0.176)					CTGGTTTATAACATGTCTCAT	0.393																																																0													144	147	146					14																	53178163		2203	4300	6503	SO:0001583	missense	5706				CCDS9710.2	14q22.1	2010-04-21			ENSG00000100519	ENSG00000100519		"Proteasome (prosome, macropain) subunits", "ATPases / AAA-type"	9553	protein-coding gene	gene with protein product		602708				8674546, 9473509	Standard	NM_002806		Approved	p42	uc010tqx.2	P62333	OTTHUMG00000152333	ENST00000606149.1:c.362A>G	14.37:g.53178163A>G	ENSP00000475721:p.Asn121Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2R975|P49719|Q6IBU3|Q92524	Missense_Mutation	SNP	ENST00000606149.1	37		.	.	.	.	.	.	.	.	.	.	A	18.00	3.525329	0.64747	.	.	ENSG00000100519	ENST00000445930	D	0.93604	-3.25	4.84	4.84	0.62591	.	0.270730	0.45867	D	0.000331	D	0.91432	0.7296	M	0.73962	2.25	0.80722	D	1	B;B	0.17852	0.001;0.024	B;B	0.16722	0.007;0.016	D	0.87424	0.2384	10	0.07990	T	0.79	.	14.7652	0.69634	1.0:0.0:0.0:0.0	.	121;101	P62333;B4DR91	PRS10_HUMAN;.	S	135	ENSP00000401802:N135S	ENSP00000401802:N135S	N	+	2	0	PSMC6	52247913	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	8.847000	0.92166	1.960000	0.56953	0.529000	0.55759	AAC		0.393	PSMC6-018	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000470741.1	NM_002806		G	53178163	A	G	53178163	3	3	669	1	0	0	0	0	1	0	0	0	12701	43	2	3	426	3	PSMC6	14	53178163	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	2580827	53178163	54171377	152	42954										
DAAM1	23002	mdanderson.org	37	chr14	59830429	59830429	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ataagtttgtgtctgttgtcAgccagttcatcacagtagcc	9	9	4	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr14:59830429A>G	ENST00000395125.1	+	23	2808	c.2785A>G	c.(2785-2787)Agc>Ggc	p.S929G	DAAM1_ENST00000553966.1_3'UTR|DAAM1_ENST00000360909.3_Missense_Mutation_p.S919G|DAAM1_ENST00000351081.1_Missense_Mutation_p.S929G	NM_014992.2	NP_055807.1	Q9Y4D1	DAAM1_HUMAN	dishevelled associated activator of morphogenesis 1	929	FH2. {ECO:0000255|PROSITE- ProRule:PRU00774}.				actin cytoskeleton organization (GO:0030036)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|plasma membrane (GO:0005886)|stress fiber (GO:0001725)	identical protein binding (GO:0042802)			breast(3)|cervix(3)|endometrium(5)|kidney(5)|large_intestine(4)|lung(7)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(4)|urinary_tract(1)	37				OV - Ovarian serous cystadenocarcinoma(108;0.165)		GTCTGTTGTCAGCCAGTTCAT	0.463																																																0													132	119	123					14																	59830429		2203	4300	6503	SO:0001583	missense	23002			AB014566	CCDS9737.1, CCDS58323.1	14q22.3	2008-08-11			ENSG00000100592	ENSG00000100592			18142	protein-coding gene	gene with protein product		606626				11779461, 18162551	Standard	NM_014992		Approved	KIAA0666	uc031qou.1	Q9Y4D1	OTTHUMG00000140326	ENST00000395125.1:c.2785A>G	14.37:g.59830429A>G	ENSP00000378557:p.Ser929Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q86U34|Q8N1Z8|Q8TB39	Missense_Mutation	SNP	ENST00000395125.1	37	CCDS9737.1	.	.	.	.	.	.	.	.	.	.	A	21.5	4.152407	0.78001	.	.	ENSG00000100592	ENST00000360909;ENST00000351081;ENST00000395125	T;T;T	0.19105	2.17;2.17;2.17	5.8	5.8	0.92144	Actin-binding FH2/DRF autoregulatory (1);Actin-binding FH2 (3);	0.000000	0.85682	D	0.000000	T	0.25419	0.0618	L	0.48986	1.54	0.80722	D	1	B;B	0.27594	0.177;0.182	B;B	0.35510	0.047;0.204	T	0.04268	-1.0964	10	0.20046	T	0.44	.	16.1606	0.81704	1.0:0.0:0.0:0.0	.	919;929	Q9Y4D1-2;Q9Y4D1	.;DAAM1_HUMAN	G	919;929;929	ENSP00000354162:S919G;ENSP00000247170:S929G;ENSP00000378557:S929G	ENSP00000247170:S929G	S	+	1	0	DAAM1	58900182	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.339000	0.96797	2.227000	0.72691	0.460000	0.39030	AGC		0.463	DAAM1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000276942.2	NM_014992		G	59830429	A	G	59830429	3	3	669	1	0	0	0	0	1	0	0	0	4217	188	7	3	2875	3	DAAM1	14	59830429	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	6652266	59830429	47519111	153	42955										
STON2	85439	mdanderson.org	37	chr14	81744579	81744579	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	catcctggtagatgacaatgAgggaatctctttggcttttg	11	7	1	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr14:81744579A>G	ENST00000267540.2	-	4	1276	c.1076T>C	c.(1075-1077)cTc>cCc	p.L359P	STON2_ENST00000556280.1_5'Flank|STON2_ENST00000555447.1_Missense_Mutation_p.L359P	NM_033104.3	NP_149095.2	Q8WXE9	STON2_HUMAN	stonin 2	359					hematopoietic progenitor cell differentiation (GO:0002244)|intracellular protein transport (GO:0006886)|regulation of endocytosis (GO:0030100)|synaptic vesicle endocytosis (GO:0048488)	cell junction (GO:0030054)|clathrin adaptor complex (GO:0030131)|clathrin-coated vesicle (GO:0030136)|cytoplasm (GO:0005737)|neuron projection (GO:0043005)|nucleolus (GO:0005730)|synaptic vesicle (GO:0008021)				breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(13)|pancreas(2)|prostate(1)|skin(5)	34				BRCA - Breast invasive adenocarcinoma(234;0.0348)		GATGACAATGAGGGAATCTCT	0.453																																																0													115	119	118					14																	81744579		2203	4300	6503	SO:0001583	missense	85439			AB208948	CCDS9875.1, CCDS58332.1	14q31.1	2007-08-01				ENSG00000140022			30652	protein-coding gene	gene with protein product	"stoned B homolog 2 (Drosophila)"	608467				11381094, 11454741	Standard	NM_033104		Approved	STNB2, STN2	uc001xvk.2	Q8WXE9		ENST00000267540.2:c.1076T>C	14.37:g.81744579A>G	ENSP00000267540:p.Leu359Pro	Somatic		WXS	Illumina HiSeq	Phase_I	G3V2T7|Q17R24|Q59H11|Q6NT47|Q96RI7|Q96RU6	Missense_Mutation	SNP	ENST00000267540.2	37	CCDS9875.1	.	.	.	.	.	.	.	.	.	.	A	14.46	2.543448	0.45280	.	.	ENSG00000140022	ENST00000555447;ENST00000546306;ENST00000267540	T;T	0.14640	2.49;2.49	6.17	6.17	0.99709	.	0.247806	0.36815	N	0.002383	T	0.31104	0.0786	L	0.57536	1.79	0.58432	D	0.999996	D;D	0.76494	0.998;0.999	D;D	0.68943	0.915;0.961	T	0.01762	-1.1279	10	0.59425	D	0.04	-25.5864	11.0511	0.47889	0.9315:0.0:0.0685:0.0	.	359;359	Q8WXE9;G3V2T7	STON2_HUMAN;.	P	359;371;359	ENSP00000450857:L359P;ENSP00000267540:L359P	ENSP00000267540:L359P	L	-	2	0	STON2	80814332	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	5.298000	0.65710	2.371000	0.80710	0.533000	0.62120	CTC		0.453	STON2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000413317.1	NM_033104		G	81744579	A	G	81744579	3	3	669	1	0	0	0	0	1	0	0	0	15330	304	11	3	1647	3	STON2	14	81744579	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	21914150	81744579	25604961	154	42956										
TRIP11	9321	mdanderson.org	37	chr14	92470021	92470021	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aaaagttcgttttcatttacTttgttagtgaaattttcatt	5	4	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr14:92470021T>C	ENST00000267622.4	-	11	4672	c.4299A>G	c.(4297-4299)aaA>aaG	p.K1433K		NM_004239.3	NP_004230.2	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	1433					protein targeting to Golgi (GO:0000042)|regulation of RNA biosynthetic process (GO:2001141)|transcription from RNA polymerase II promoter (GO:0006366)|ventricular septum development (GO:0003281)	acrosomal membrane (GO:0002080)|cis-Golgi network (GO:0005801)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)			breast(3)|central_nervous_system(2)|endometrium(1)|kidney(8)|large_intestine(12)|lung(17)|ovary(7)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	58				COAD - Colon adenocarcinoma(157;0.223)		TTTCATTTACTTTGTTAGTGA	0.323			T	PDGFRB	AML																																Ovarian(84;609 1888 9852 42686)		Dom	yes		14	14q31-q32	9321	thyroid hormone receptor interactor 11		L	0													101	99	99					14																	92470021		2202	4298	6500	SO:0001819	synonymous_variant	9321			L40380	CCDS9899.1	14q31-q32	2008-05-02				ENSG00000100815			12305	protein-coding gene	gene with protein product		604505				7776974, 9373237	Standard	NM_004239		Approved	CEV14, Trip230, GMAP-210	uc001xzy.3	Q15643		ENST00000267622.4:c.4299A>G	14.37:g.92470021T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RUT2|O14689|O15154|O95949	Silent	SNP	ENST00000267622.4	37	CCDS9899.1	.	.	.	.	.	.	.	.	.	.	T	2.653	-0.281497	0.05642	.	.	ENSG00000100815	ENST00000554357	.	.	.	5.39	-1.36	0.09085	.	.	.	.	.	T	0.58278	0.2111	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.53697	-0.8402	4	.	.	.	.	11.8569	0.52441	0.0:0.1665:0.0:0.8335	.	.	.	.	G	1149	.	.	S	-	1	0	TRIP11	91539774	0.994000	0.37717	0.056000	0.19401	0.516000	0.34256	0.221000	0.17680	-0.510000	0.06523	0.379000	0.24179	AGT		0.323	TRIP11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411823.1			C	92470021	T	C	92470021	2	2	669	1	0	0	0	0	0	0	0	1	16567	1606	56	3		3	TRIP11	14	92470021	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	10725442	92470021	14879519	155	42957										
KIAA1409	57578	mdanderson.org	37	chr14	94160698	94160698	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cagatggtagaaatggtgtgTctccatgtgattagtttaat	11	4	1	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr14:94160698T>C	ENST00000393151.2	+	48	7605	c.7605T>C	c.(7603-7605)tgT>tgC	p.C2535C	UNC79_ENST00000555664.1_Silent_p.C2496C|UNC79_ENST00000553484.1_Silent_p.C2557C|UNC79_ENST00000256339.4_Silent_p.C2358C			Q9P2D8	UNC79_HUMAN	unc-79 homolog (C. elegans)	2535					behavioral response to ethanol (GO:0048149)|ion transmembrane transport (GO:0034220)|multicellular organism growth (GO:0035264)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(3)|cervix(2)|endometrium(10)|kidney(7)|large_intestine(18)|liver(1)|lung(64)|ovary(1)|prostate(5)|skin(3)|urinary_tract(4)	118						AAATGGTGTGTCTCCATGTGA	0.373																																																0													179	167	171					14																	94160698		2203	4300	6503	SO:0001819	synonymous_variant	57578			AB037830	CCDS9911.2	14q32.13	2011-08-18	2011-08-18	2011-08-18	ENSG00000133958	ENSG00000133958			19966	protein-coding gene	gene with protein product			"KIAA1409"	KIAA1409		20714347, 21040849	Standard	NM_020818		Approved		uc001ybs.1	Q9P2D8	OTTHUMG00000029783	ENST00000393151.2:c.7605T>C	14.37:g.94160698T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B5MDL6|Q6ZUT7	Silent	SNP	ENST00000393151.2	37																																																																																					0.373	UNC79-006	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000412766.1	XM_028395		C	94160698	T	C	94160698	2	2	669	1	0	0	0	0	0	0	0	1	8237	1673	58	3		3	KIAA1409	14	94160698	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	1690677	94160698	13188842	156	42958										
DICER1	23405	mdanderson.org	37	chr14	95557673	95557673	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggaacttcaatatcctcttcTttctcttcatcctcctcaga	3	14	6	1	rs201134588		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr14:95557673T>C	ENST00000526495.1	-	27	5685	c.5394A>G	c.(5392-5394)aaA>aaG	p.K1798K	DICER1_ENST00000541352.1_Intron|DICER1_ENST00000343455.3_Silent_p.K1798K|DICER1_ENST00000393063.1_Silent_p.K1798K|DICER1_ENST00000527414.1_Silent_p.K1798K|DICER1_ENST00000556045.1_Silent_p.K696K|DICER1_ENST00000527416.2_5'Flank			Q9UPY3	DICER_HUMAN	dicer 1, ribonuclease type III	1798	RNase III 2. {ECO:0000255|PROSITE- ProRule:PRU00177}.				angiogenesis (GO:0001525)|branching morphogenesis of an epithelial tube (GO:0048754)|cardiac muscle cell development (GO:0055013)|cerebral cortex development (GO:0021987)|defense response to virus (GO:0051607)|embryonic hindlimb morphogenesis (GO:0035116)|gene expression (GO:0010467)|hair follicle cell proliferation (GO:0071335)|hair follicle morphogenesis (GO:0031069)|inner ear receptor cell development (GO:0060119)|intestinal epithelial cell development (GO:0060576)|lung development (GO:0030324)|mRNA stabilization (GO:0048255)|multicellular organism growth (GO:0035264)|negative regulation of Schwann cell proliferation (GO:0010626)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nerve development (GO:0021675)|neuron projection morphogenesis (GO:0048812)|olfactory bulb interneuron differentiation (GO:0021889)|peripheral nervous system myelin formation (GO:0032290)|positive regulation of gene expression (GO:0010628)|positive regulation of miRNA metabolic process (GO:2000630)|positive regulation of myelination (GO:0031643)|positive regulation of Schwann cell differentiation (GO:0014040)|post-embryonic development (GO:0009791)|pre-miRNA processing (GO:0031054)|production of miRNAs involved in gene silencing by miRNA (GO:0035196)|production of siRNA involved in RNA interference (GO:0030422)|regulation of cell cycle (GO:0051726)|regulation of enamel mineralization (GO:0070173)|regulation of neuron differentiation (GO:0045664)|regulation of oligodendrocyte differentiation (GO:0048713)|regulation of viral genome replication (GO:0045069)|reproductive structure development (GO:0048608)|RNA phosphodiester bond hydrolysis (GO:0090501)|RNA phosphodiester bond hydrolysis, endonucleolytic (GO:0090502)|spinal cord motor neuron differentiation (GO:0021522)|spindle assembly (GO:0051225)|spleen development (GO:0048536)|stem cell maintenance (GO:0019827)|targeting of mRNA for destruction involved in RNA interference (GO:0030423)|zygote asymmetric cell division (GO:0010070)	axon (GO:0030424)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|growth cone (GO:0030426)|RISC complex (GO:0016442)	ATP binding (GO:0005524)|double-stranded RNA binding (GO:0003725)|helicase activity (GO:0004386)|metal ion binding (GO:0046872)|miRNA binding (GO:0035198)|ribonuclease III activity (GO:0004525)			NS(1)|autonomic_ganglia(1)|biliary_tract(1)|breast(1)|central_nervous_system(1)|endometrium(13)|kidney(3)|large_intestine(10)|lung(33)|ovary(1)|pancreas(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(3)	75		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		TATCCTCTTCTTTCTCTTCAT	0.448			"Mis F, N"		"sex cord-stromal tumour, TGCT, embryonal rhadomyosarcoma"	pleuropulmonary blastoma			Familial Multinodular Goiter ;DICER 1 syndrome																													yes	Rec	yes	Familial Pleuropulmonary Blastoma	14	14q32.13	23405	"dicer 1, ribonuclease type III "		"E, M, O"	0													188	194	192					14																	95557673		2203	4300	6503	SO:0001819	synonymous_variant	23405	Familial Cancer Database	Adolescent Multinodular Goiter, incl. Multinodular Euthyroid Goiter & Non-Medullary Thyroid Cancer;incl. Pleuropulmonary Blastoma, Familial ; Cystic Nephroma, Familial	AB028449	CCDS9931.1, CCDS55941.1	14q32.13	2014-09-17	2008-02-20		ENSG00000100697	ENSG00000100697			17098	protein-coding gene	gene with protein product	"dicer 1, double-stranded RNA-specific endoribonuclease"	606241	"Dicer1, Dcr-1 homolog (Drosophila)", "multinodular goitre 1"	MNG1		10051563, 10786632, 21205968	Standard	NM_177438		Approved	Dicer, KIAA0928, K12H4.8-LIKE, HERNA	uc001ydw.2	Q9UPY3	OTTHUMG00000166134	ENST00000526495.1:c.5394A>G	14.37:g.95557673T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A7E2D3|B3KRG4|E0AD28|O95943|Q9UQ02	Silent	SNP	ENST00000526495.1	37	CCDS9931.1																																																																																				0.448	DICER1-004	KNOWN	alternative_5_UTR|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000387997.1			C	95557673	T	C	95557673	2	2	669	1	0	0	0	0	0	0	0	1	4523	1606	56	3		3	DICER1	14	95557673	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	1396975	95557673	11791867	157	42959										
PPP2R5C	5527	mdanderson.org	37	chr14	102252425	102252425	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgctaaaataaaagtaccagTctctcagcccatagtgaaga	7	9	2	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr14:102252425T>C	ENST00000328724.5	+	3	173	c.164T>C	c.(163-165)gTc>gCc	p.V55A	PPP2R5C_ENST00000554442.1_Missense_Mutation_p.V55A|PPP2R5C_ENST00000556068.1_3'UTR|PPP2R5C_ENST00000422945.2_Intron	NM_001161726.1	NP_001155198.1	Q13362	2A5G_HUMAN	protein phosphatase 2, regulatory subunit B', gamma	0					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|negative regulation of cell proliferation (GO:0008285)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|regulation of catalytic activity (GO:0050790)|signal transduction (GO:0007165)	chromosome, centromeric region (GO:0000775)|nucleus (GO:0005634)|protein phosphatase type 2A complex (GO:0000159)	protein phosphatase type 2A regulator activity (GO:0008601)			breast(2)|endometrium(2)|kidney(1)|large_intestine(3)|lung(6)|ovary(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	20						AAAGTACCAGTCTCTCAGCCC	0.363																																																0													38	33	34					14																	102252425		1558	3569	5127	SO:0001583	missense	5527			L42375	CCDS9964.1, CCDS9965.1, CCDS45163.1, CCDS53911.1, CCDS53912.1	14q32.31	2010-06-18	2010-04-14		ENSG00000078304	ENSG00000078304		"Serine/threonine phosphatases / Protein phosphatase 2, regulatory subunits"	9311	protein-coding gene	gene with protein product		601645	"protein phosphatase 2, regulatory subunit B (B56), gamma isoform", "protein phosphatase 2, regulatory subunit B', gamma isoform"			7592815	Standard	NM_002719		Approved	B56G, PR61G	uc001ykk.3	Q13362		ENST00000328724.5:c.164T>C	14.37:g.102252425T>C	ENSP00000329009:p.Val55Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYJ8|B5BUA5|F5GWP3|Q14391|Q15060|Q15174|Q6ZN33	Missense_Mutation	SNP	ENST00000328724.5	37	CCDS53911.1	.	.	.	.	.	.	.	.	.	.	T	7.738	0.700743	0.15172	.	.	ENSG00000078304	ENST00000554442;ENST00000328724	T	0.40476	1.03	5.25	-6.75	0.01738	.	2.481240	0.01619	N	0.022907	T	0.25754	0.0627	.	.	.	0.09310	N	1	B;B	0.10296	0.0;0.003	B;B	0.06405	0.001;0.002	T	0.47484	-0.9114	9	0.06891	T	0.86	7.2615	20.3963	0.98984	0.0:0.8656:0.0:0.1344	.	55;55	Q6ZN33;G3V292	.;.	A	55	ENSP00000329009:V55A	ENSP00000329009:V55A	V	+	2	0	PPP2R5C	101322178	0.000000	0.05858	0.000000	0.03702	0.870000	0.49936	-0.663000	0.05299	-1.772000	0.01292	0.459000	0.35465	GTC		0.363	PPP2R5C-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000414362.1	NM_002719		C	102252425	T	C	102252425	3	2	669	1	0	0	0	0	1	0	0	0	12404	1667	58	3	174	3	PPP2R5C	14	102252425	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	6694752	102252425	5097115	158	42960										
TECPR2	9895	mdanderson.org;bcgsc.ca	37	chr14	102910140	102910140	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cagcttctgtccggaaggcgAgcagtggaagtgtgacattg	15	8	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr14:102910140A>G	ENST00000359520.7	+	12	3135	c.2909A>G	c.(2908-2910)gAg>gGg	p.E970G	TECPR2_ENST00000558678.1_Missense_Mutation_p.E970G	NM_014844.3	NP_055659.2	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	970					autophagy (GO:0006914)|cell death (GO:0008219)					breast(1)|central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(7)|lung(21)|ovary(2)|prostate(3)|skin(4)|stomach(1)|urinary_tract(1)	50						CCGGAAGGCGAGCAGTGGAAG	0.592																																																0													77	65	69					14																	102910140		2203	4300	6503	SO:0001583	missense	9895			AB019441	CCDS32162.1, CCDS58337.1	14q32.33	2009-02-27	2009-02-27	2009-02-27		ENSG00000196663			19957	protein-coding gene	gene with protein product		615000	"KIAA0329"	KIAA0329		9205841	Standard	NM_014844		Approved		uc001ylw.2	O15040		ENST00000359520.7:c.2909A>G	14.37:g.102910140A>G	ENSP00000352510:p.Glu970Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKY3|A6NFY9|A7E2X3|H0YMM9|Q9UEG6	Missense_Mutation	SNP	ENST00000359520.7	37	CCDS32162.1	.	.	.	.	.	.	.	.	.	.	A	33	5.289755	0.95546	.	.	ENSG00000196663	ENST00000359520	T	0.80304	-1.36	5.61	5.61	0.85477	.	0.106561	0.64402	D	0.000007	D	0.82926	0.5143	N	0.19112	0.55	0.58432	D	0.999995	D;D;D	0.89917	0.998;1.0;1.0	D;D;D	0.81914	0.962;0.994;0.995	D	0.85590	0.1245	10	0.66056	D	0.02	.	16.1025	0.81194	1.0:0.0:0.0:0.0	.	153;970;970	B4DSD3;A5PKY3;O15040	.;.;TCPR2_HUMAN	G	970	ENSP00000352510:E970G	ENSP00000352510:E970G	E	+	2	0	TECPR2	101979893	1.000000	0.71417	1.000000	0.80357	0.956000	0.61745	9.287000	0.95975	2.254000	0.74563	0.533000	0.62120	GAG		0.592	TECPR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415056.2	NM_014844		G	102910140	A	G	102910140	3	3	669	1	0	0	0	0	1	0	0	0	15756	304	11	3	2951	3	TECPR2	14	102910140	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	657715	102910140	4439400	159	42961										
AHNAK2	113146	mdanderson.org	37	chr14	105418149	105418149	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aggtcagcggaagggggctgAatgctgaggtcagtggtctt	18	6	3	2	rs147978925	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr14:105418149A>T	ENST00000333244.5	-	7	3758	c.3639T>A	c.(3637-3639)atT>atA	p.I1213I	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1213						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			AAGGGGGCTGAATGCTGAGGT	0.647													.|||	1170	0.233626	0.0696	0.2882	5008	,	,		15080	0.0635		0.4583	False		,,,				2504	0.3609															0													99	72	81					14																	105418149		1918	3766	5684	SO:0001819	synonymous_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.3639T>A	14.37:g.105418149A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Silent	SNP	ENST00000333244.5	37	CCDS45177.1																																																																																				0.647	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		T	105418149	A	T	105418149	2	4	669	1	0	0	0	0	0	0	0	1	415	242	9	5		5	AHNAK2	14	105418149	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	2508009	105418149	1931391	160	42962										
ARHGAP11A	9824	broad.mit.edu	37	chr15	32908429	32908430	+	Frame_Shift_Ins	INS	-	-	G													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggaatgtgggatcagaggctINSggtgaggttggccctgttgc							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr15:32908429_32908430insG	ENST00000361627.3	+	1	739_740	c.17_18insG	c.(16-21)ctggtgfs	p.V7fs	RP11-1000B6.5_ENST00000500941.2_lincRNA|ARHGAP11A_ENST00000563330.1_3'UTR|ARHGAP11A_ENST00000567348.1_Frame_Shift_Ins_p.V7fs|ARHGAP11A_ENST00000565905.1_Intron|AC123768.4_ENST00000576873.1_lincRNA|ARHGAP11A_ENST00000543522.1_Intron|ARHGAP11A_ENST00000563864.1_Frame_Shift_Ins_p.V7fs	NM_014783.3	NP_055598.1	Q6P4F7	RHGBA_HUMAN	Rho GTPase activating protein 11A	7					regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	GTPase activator activity (GO:0005096)			breast(2)|endometrium(2)|kidney(1)|large_intestine(8)|lung(11)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	31		all_lung(180;1.3e-11)		all cancers(64;3.34e-21)|Epithelial(43;2.64e-15)|GBM - Glioblastoma multiforme(186;5.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.00112)|Lung(196;0.227)		GATCAGAGGCTGGTGAGGTTGG	0.554																																					Colon(45;757 1134 30003 36652)											0																																										SO:0001589	frameshift_variant	9824			D87717	CCDS10028.1, CCDS58349.1, CCDS66730.1	15q13.3	2006-09-19			ENSG00000198826	ENSG00000198826		"Rho GTPase activating proteins"	15783	protein-coding gene	gene with protein product	"GAP (1-12)"	610589				11829490	Standard	NM_199357		Approved	KIAA0013	uc001zgy.1	Q6P4F7	OTTHUMG00000129289	ENST00000361627.3:c.19dupG	15.37:g.32908431_32908431dupG	ENSP00000355090:p.Val7fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZN9|Q6PI96|Q9Y3S6	Frame_Shift_Ins	INS	ENST00000361627.3	37	CCDS10028.1																																																																																				0.554	ARHGAP11A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251417.1	NM_014783		G	32908430	-	G	32908429	7	5	669	1	0	1	1	0	0	0	0	0	863	1580	55	0	19	0	ARHGAP11A	15	32908429	Frame_Shift_Ins	INS	-	TCGA-KN-8433-01A-11D-2310-10		32908429	69622963	161	42963										
CASC5	57082	mdanderson.org	37	chr15	40913801	40913801	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ccaaatgtctctcaaatatgAgagaggagaaaaatttgcta	8	6	2	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr15:40913801A>G	ENST00000346991.5	+	11	1807	c.1417A>G	c.(1417-1419)Aga>Gga	p.R473G	CASC5_ENST00000527044.1_3'UTR|CASC5_ENST00000399668.2_Missense_Mutation_p.R447G			Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5	473	Interaction with BUB1 and BUB1B.				acrosome assembly (GO:0001675)|attachment of spindle microtubules to kinetochore (GO:0008608)|CENP-A containing nucleosome assembly (GO:0034080)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of phosphatase activity (GO:0010923)|nucleosome assembly (GO:0006334)|protein localization to kinetochore (GO:0034501)|spindle assembly checkpoint (GO:0071173)	acrosomal vesicle (GO:0001669)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|kinetochore (GO:0000776)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				NS(1)|breast(7)|central_nervous_system(1)|endometrium(6)|kidney(4)|large_intestine(13)|lung(16)|skin(3)|stomach(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	57		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		CTCAAATATGAGAGAGGAGAA	0.328																																																0													67	65	65					15																	40913801		1822	4080	5902	SO:0001583	missense	57082			AF173994	CCDS42023.1, CCDS42024.1	15q14	2013-07-03			ENSG00000137812	ENSG00000137812		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	24054	protein-coding gene	gene with protein product	"cancer/testis antigen 29", "kinetochore null 1 homolog (C. elegans)", "blinkin, bub-linking kinetochore protein", "protein phosphatase 1, regulatory subunit 55"	609173				10980622, 10780384, 18045986	Standard	NM_170589		Approved	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7	uc010bbt.1	Q8NG31	OTTHUMG00000166532	ENST00000346991.5:c.1417A>G	15.37:g.40913801A>G	ENSP00000335463:p.Arg473Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHE1|Q8WXA6|Q9HCK2|Q9NR92	Missense_Mutation	SNP	ENST00000346991.5	37	CCDS42023.1	.	.	.	.	.	.	.	.	.	.	A	11.97	1.796563	0.31777	.	.	ENSG00000137812	ENST00000346991;ENST00000260369;ENST00000399668	T;T	0.05139	3.49;3.49	5.94	2.3	0.28687	.	1.023320	0.07757	N	0.949536	T	0.06096	0.0158	L	0.35723	1.085	0.09310	N	1	B;B;B	0.15473	0.004;0.004;0.013	B;B;B	0.09377	0.004;0.004;0.004	T	0.41034	-0.9531	10	0.40728	T	0.16	.	5.4785	0.16710	0.5262:0.2673:0.2064:0.0	.	447;473;447	Q8NG31-2;Q8NG31;Q8NG31-4	.;CASC5_HUMAN;.	G	473;447;447	ENSP00000335463:R473G;ENSP00000382576:R447G	ENSP00000260369:R447G	R	+	1	2	CASC5	38701093	0.001000	0.12720	0.969000	0.41365	0.966000	0.64601	0.013000	0.13310	0.490000	0.27771	0.455000	0.32223	AGA		0.328	CASC5-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000390224.2	NM_144508		G	40913801	A	G	40913801	3	3	669	1	0	0	0	0	1	0	0	0	2665	296	11	3	1455	3	CASC5	15	40913801	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	8005372	40913801	61617591	162	42964										
CKMT1B	1159	broad.mit.edu	37	chr15	43890418	43890419	+	Frame_Shift_Ins	INS	-	-	G													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	acttatccaagaacgtggctINSgggagttcatgtggaatgag							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr15:43890418_43890419insG	ENST00000441322.1	+	7	1264_1265	c.904_905insG	c.(904-906)tggfs	p.W302fs	CKMT1B_ENST00000300283.6_Frame_Shift_Ins_p.W302fs			P12532	KCRU_HUMAN	creatine kinase, mitochondrial 1B	302	Phosphagen kinase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00843}.				cellular nitrogen compound metabolic process (GO:0034641)|creatine metabolic process (GO:0006600)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|creatine kinase activity (GO:0004111)			large_intestine(1)|lung(3)|skin(1)	5		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;3.56e-07)	Creatine(DB00148)	AGAACGTGGCTGGGAGTTCATG	0.49																																																0																																										SO:0001589	frameshift_variant	1159			AK094322, J04469	CCDS10097.1	15q15	2005-04-15		2005-04-15	ENSG00000237289	ENSG00000237289	2.7.3.2		1995	protein-coding gene	gene with protein product		123290	"creatine kinase, mitochondrial 1 (ubiquitous)"	CKMT, CKMT1			Standard	XM_005254150		Approved	UMTCK	uc001zsc.3	P12532	OTTHUMG00000059900	ENST00000441322.1:c.907dupG	15.37:g.43890421_43890421dupG	ENSP00000413255:p.Trp302fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DIT8|B7ZA09|Q0VAM3|Q32NF6|Q53FC4	Frame_Shift_Ins	INS	ENST00000441322.1	37	CCDS10097.1																																																																																				0.49	CKMT1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000133147.2	NM_020990		G	43890419	-	G	43890418	7	5	669	1	0	1	1	0	0	0	0	0	3452	1580	55	0	930	0	CKMT1B	15	43890418	Frame_Shift_Ins	INS	-	TCGA-KN-8433-01A-11D-2310-10	2976617	43890418	58640974	163	42965										
CATSPER2	117155	mdanderson.org	37	chr15	43928380	43928380	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ataccaatgatccaaggtgaAgagaatgaacactgttacca	8	8	0	4			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr15:43928380A>G	ENST00000321596.5	-	8	1079	c.880T>C	c.(880-882)Ttc>Ctc	p.F294L	STRC_ENST00000541030.1_Intron|CATSPER2_ENST00000381761.1_Missense_Mutation_p.F300L|CATSPER2_ENST00000396879.1_Missense_Mutation_p.F294L|RNU6-610P_ENST00000384264.1_RNA|CATSPER2_ENST00000355438.2_Missense_Mutation_p.F294L|CATSPER2_ENST00000354127.4_Missense_Mutation_p.F294L			Q96P56	CTSR2_HUMAN	cation channel, sperm associated 2	294					calcium ion import (GO:0070509)|cell differentiation (GO:0030154)|membrane depolarization during action potential (GO:0086010)|multicellular organism reproduction (GO:0032504)|multicellular organismal development (GO:0007275)|single fertilization (GO:0007338)|sperm motility (GO:0030317)|sperm-egg recognition (GO:0035036)|spermatogenesis (GO:0007283)	CatSper complex (GO:0036128)|motile cilium (GO:0031514)|plasma membrane (GO:0005886)	calcium activated cation channel activity (GO:0005227)|voltage-gated calcium channel activity (GO:0005245)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(1)|large_intestine(3)|lung(8)|ovary(1)|prostate(1)|skin(1)|urinary_tract(2)	22		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)		TCCAAGGTGAAGAGAATGAAC	0.443																																																0													39	41	40					15																	43928380		2199	4292	6491	SO:0001583	missense	117155			AF411817	CCDS10099.1, CCDS32216.1, CCDS73714.1	15q15.3	2011-07-05			ENSG00000166762	ENSG00000166762		"Voltage-gated ion channels / Cation channels, sperm associated"	18810	protein-coding gene	gene with protein product		607249				11675491, 16382101	Standard	NM_172095		Approved		uc001zsh.3	Q96P56	OTTHUMG00000059902	ENST00000321596.5:c.880T>C	15.37:g.43928380A>G	ENSP00000321463:p.Phe294Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHT9|Q96P54|Q96P55	Missense_Mutation	SNP	ENST00000321596.5	37	CCDS10099.1	.	.	.	.	.	.	.	.	.	.	A	21.0	4.089780	0.76756	.	.	ENSG00000166762	ENST00000396879;ENST00000299989;ENST00000381761;ENST00000321596;ENST00000354127;ENST00000355438	D;D;D;D;D	0.97994	-4.65;-4.65;-4.65;-4.65;-4.65	4.81	4.81	0.61882	Ion transport (1);	0.192500	0.36519	N	0.002541	D	0.96494	0.8856	N	0.25286	0.73	0.41527	D	0.98843	D;D	0.54397	0.957;0.966	P;P	0.62560	0.845;0.904	D	0.95517	0.8591	10	0.36615	T	0.2	.	10.6643	0.45721	1.0:0.0:0.0:0.0	.	300;294	F8W9H2;Q96P56	.;CTSR2_HUMAN	L	294;294;300;294;294;294	ENSP00000380088:F294L;ENSP00000371180:F300L;ENSP00000321463:F294L;ENSP00000339137:F294L;ENSP00000347613:F294L	ENSP00000299989:F294L	F	-	1	0	CATSPER2	41715672	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	5.345000	0.65987	2.013000	0.59113	0.533000	0.62120	TTC		0.443	CATSPER2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000133151.2	NM_054020		G	43928380	A	G	43928380	3	3	669	1	0	0	0	0	1	0	0	0	2690	72	3	3	736	3	CATSPER2	15	43928380	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	37962	43928380	58603012	164	42966										
SLC12A1	6557	bcgsc.ca	37	chr15	48512846	48512846	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgcagaatgtggcagtcaccCcaagttcagctgacagagtt	11	10	2	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr15:48512846C>A	ENST00000558405.1	+	2	450	c.436C>A	c.(436-438)Cca>Aca	p.P146T	SLC12A1_ENST00000561031.1_Missense_Mutation_p.P146T|SLC12A1_ENST00000330289.6_Missense_Mutation_p.P146T|SLC12A1_ENST00000396577.3_Missense_Mutation_p.P146T|SLC12A1_ENST00000380993.3_Missense_Mutation_p.P146T			Q13621	S12A1_HUMAN	solute carrier family 12 (sodium/potassium/chloride transporter), member 1	146					cell death (GO:0008219)|chemical homeostasis (GO:0048878)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|excretion (GO:0007588)|ion transmembrane transport (GO:0034220)|ion transport (GO:0006811)|kidney development (GO:0001822)|potassium ion transport (GO:0006813)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)|transport (GO:0006810)	apical plasma membrane (GO:0016324)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	sodium:potassium:chloride symporter activity (GO:0008511)			NS(2)|breast(3)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(14)|lung(30)|ovary(1)|prostate(2)|skin(1)	59		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Potassium Chloride(DB00761)|Quinethazone(DB01325)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	GGCAGTCACCCCAAGTTCAGC	0.398																																																0													100	90	93					15																	48512846		2198	4297	6495	SO:0001583	missense	6557				CCDS10129.2, CCDS53940.1	15q15-q21	2013-07-18	2013-07-18		ENSG00000074803	ENSG00000074803		"Solute carriers"	10910	protein-coding gene	gene with protein product		600839				8640224	Standard	NM_000338		Approved	NKCC2	uc010bem.3	Q13621	OTTHUMG00000131495	ENST00000558405.1:c.436C>A	15.37:g.48512846C>A	ENSP00000453409:p.Pro146Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8JYA2|E9PDW4	Missense_Mutation	SNP	ENST00000558405.1	37	CCDS10129.2	.	.	.	.	.	.	.	.	.	.	C	5.880	0.346511	0.11126	.	.	ENSG00000074803	ENST00000380993;ENST00000396577;ENST00000330289	D;D;D	0.96522	-4.04;-4.04;-4.04	6.17	6.17	0.99709	Amino acid permease, N-terminal (1);	0.322058	0.37809	N	0.001923	D	0.92335	0.7568	L	0.36672	1.1	0.23657	N	0.997188	B;B	0.17038	0.02;0.001	B;B	0.17433	0.018;0.004	T	0.79902	-0.1607	10	0.21014	T	0.42	.	10.289	0.43584	0.1452:0.7849:0.0:0.07	.	146;146	Q8IUN5;Q13621	.;S12A1_HUMAN	T	146	ENSP00000370381:P146T;ENSP00000379822:P146T;ENSP00000331550:P146T	ENSP00000331550:P146T	P	+	1	0	SLC12A1	46300138	0.894000	0.30519	0.292000	0.24919	0.238000	0.25445	2.190000	0.42630	2.941000	0.99782	0.655000	0.94253	CCA		0.398	SLC12A1-006	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000417131.1			A	48512846	C	A	48512846	3	1	669	1	0	0	0	0	1	0	0	0	14395	623	22	4	442	4	SLC12A1	15	48512846	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	4584466	48512846	54018546	165	42967										
LACTB	114294	mdanderson.org	37	chr15	63419154	63419154	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aagtctcaccatggttgctcTtgccaaattgtgggaagcag	11	9	2	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr15:63419154T>C	ENST00000261893.4	+	3	593	c.521T>C	c.(520-522)cTt>cCt	p.L174P	RPS27L_ENST00000559763.1_Intron|LACTB_ENST00000413507.2_Missense_Mutation_p.L174P	NM_032857.3	NP_116246.2	P83111	LACTB_HUMAN	lactamase, beta	174						cytoplasm (GO:0005737)|mitochondrion (GO:0005739)	hydrolase activity (GO:0016787)			NS(1)|breast(1)|kidney(1)|large_intestine(3)|lung(3)|prostate(1)|skin(1)|stomach(1)	12						ATGGTTGCTCTTGCCAAATTG	0.413																																					Melanoma(85;443 1381 6215 27308 35583)											0													115	99	104					15																	63419154		2203	4300	6503	SO:0001583	missense	114294			AK027808	CCDS10182.1, CCDS45275.1	15q22.1	2012-11-14	2001-12-12	2001-12-14	ENSG00000103642	ENSG00000103642		"Mitochondrial ribosomal proteins / large subunits"	16468	protein-coding gene	gene with protein product		608440	"mitochondrial ribosomal protein L56"	MRPL56		11707067	Standard	NM_032857		Approved	FLJ14902	uc002alw.3	P83111	OTTHUMG00000132807	ENST00000261893.4:c.521T>C	15.37:g.63419154T>C	ENSP00000261893:p.Leu174Pro	Somatic		WXS	Illumina HiSeq	Phase_I	P83096	Missense_Mutation	SNP	ENST00000261893.4	37	CCDS10182.1	.	.	.	.	.	.	.	.	.	.	T	17.88	3.496750	0.64186	.	.	ENSG00000103642	ENST00000261893;ENST00000413507	T;T	0.52526	0.66;0.66	5.58	5.58	0.84498	Beta-lactamase/transpeptidase-like (2);Beta-lactamase-related (1);	0.425264	0.26828	N	0.022291	T	0.67739	0.2925	M	0.76002	2.32	0.80722	D	1	D	0.63880	0.993	D	0.67725	0.953	T	0.71932	-0.4443	10	0.87932	D	0	-4.3201	14.9367	0.70960	0.0:0.0:0.0:1.0	.	174	P83111	LACTB_HUMAN	P	174	ENSP00000261893:L174P;ENSP00000392956:L174P	ENSP00000261893:L174P	L	+	2	0	LACTB	61206207	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	4.845000	0.62853	2.126000	0.65437	0.460000	0.39030	CTT		0.413	LACTB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256224.1	NM_032857		C	63419154	T	C	63419154	3	2	669	1	0	0	0	0	1	0	0	0	8604	1609	56	3	531	3	LACTB	15	63419154	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	14906308	63419154	39112238	166	42968										
HERC1	8925	broad.mit.edu	37	chr15	64017642	64017643	+	Frame_Shift_Ins	INS	-	-	A													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	caattgttctttctagatccINSacaagccatacccaggactg							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr15:64017642_64017643insA	ENST00000443617.2	-	18	3503_3504	c.3416_3417insT	c.(3415-3417)gtgfs	p.V1139fs		NM_003922.3	NP_003913.3	Q15751	HERC1_HUMAN	HECT and RLD domain containing E3 ubiquitin protein ligase family member 1	1139					cerebellar Purkinje cell differentiation (GO:0021702)|negative regulation of autophagy (GO:0010507)|neuromuscular process controlling balance (GO:0050885)|neuron projection development (GO:0031175)|positive regulation of GTPase activity (GO:0043547)|transport (GO:0006810)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			NS(3)|breast(9)|central_nervous_system(4)|endometrium(23)|haematopoietic_and_lymphoid_tissue(1)|kidney(12)|large_intestine(22)|liver(1)|lung(36)|ovary(7)|prostate(4)|skin(3)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	132						TTTCTAGATCCACAAGCCATAC	0.485																																																0																																										SO:0001589	frameshift_variant	8925			U50078	CCDS45277.1	15q22	2013-01-10	2012-02-23			ENSG00000103657		"WD repeat domain containing"	4867	protein-coding gene	gene with protein product		605109	"hect (homologous to the E6-AP (UBE3A) carboxyl terminus) domain and RCC1 (CHC1)-like domain (RLD) 1"			8861955, 9233772	Standard	NM_003922		Approved	p532, p619	uc002amp.3	Q15751		ENST00000443617.2:c.3417dupT	15.37:g.64017643_64017643dupA	ENSP00000390158:p.Val1139fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IW65	Frame_Shift_Ins	INS	ENST00000443617.2	37	CCDS45277.1																																																																																				0.485	HERC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418523.1	NM_003922		A	64017643	-	A	64017642	7	5	669	1	0	1	1	0	0	0	0	0	7064	581	21	0	11412	0	HERC1	15	64017642	Frame_Shift_Ins	INS	-	TCGA-KN-8433-01A-11D-2310-10	598488	64017642	38513750	167	42969										
BBS4	585	mdanderson.org	37	chr15	73009145	73009145	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tttgggaaaacataaagctgCcattgaagtatataatgaag	9	4	0	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr15:73009145C>T	ENST00000268057.4	+	6	400	c.359C>T	c.(358-360)gCc>gTc	p.A120V	BBS4_ENST00000539603.1_Missense_Mutation_p.A108V|BBS4_ENST00000542334.1_5'UTR|BBS4_ENST00000564239.1_3'UTR|BBS4_ENST00000395205.2_Missense_Mutation_p.A128V	NM_033028.4	NP_149017.2	Q96RK4	BBS4_HUMAN	Bardet-Biedl syndrome 4	120	Interaction with PCM1.				adult behavior (GO:0030534)|brain morphogenesis (GO:0048854)|centrosome organization (GO:0051297)|cerebral cortex development (GO:0021987)|cilium assembly (GO:0042384)|cilium morphogenesis (GO:0060271)|convergent extension involved in gastrulation (GO:0060027)|dendrite development (GO:0016358)|fat cell differentiation (GO:0045444)|heart looping (GO:0001947)|hippocampus development (GO:0021766)|intracellular transport (GO:0046907)|maintenance of protein location in nucleus (GO:0051457)|melanosome transport (GO:0032402)|metabolic process (GO:0008152)|microtubule anchoring at centrosome (GO:0034454)|microtubule cytoskeleton organization (GO:0000226)|mitotic cytokinesis (GO:0000281)|negative regulation of appetite by leptin-mediated signaling pathway (GO:0038108)|negative regulation of gene expression (GO:0010629)|negative regulation of systemic arterial blood pressure (GO:0003085)|neural tube closure (GO:0001843)|nonmotile primary cilium assembly (GO:0035058)|photoreceptor cell maintenance (GO:0045494)|pigment granule aggregation in cell center (GO:0051877)|positive regulation of cilium assembly (GO:0045724)|positive regulation of multicellular organism growth (GO:0040018)|protein localization to centrosome (GO:0071539)|protein localization to organelle (GO:0033365)|protein transport (GO:0015031)|regulation of cilium beat frequency involved in ciliary motility (GO:0060296)|regulation of cytokinesis (GO:0032465)|regulation of lipid metabolic process (GO:0019216)|retina homeostasis (GO:0001895)|retinal rod cell development (GO:0046548)|sensory perception of smell (GO:0007608)|sensory processing (GO:0050893)|spermatid development (GO:0007286)|striatum development (GO:0021756)|visual perception (GO:0007601)	BBSome (GO:0034464)|centriolar satellite (GO:0034451)|centriole (GO:0005814)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|ciliary membrane (GO:0060170)|cilium (GO:0005929)|motile cilium (GO:0031514)|nonmotile primary cilium (GO:0031513)|pericentriolar material (GO:0000242)	alpha-tubulin binding (GO:0043014)|beta-tubulin binding (GO:0048487)|dynactin binding (GO:0034452)|microtubule motor activity (GO:0003777)|RNA polymerase II repressing transcription factor binding (GO:0001103)			autonomic_ganglia(1)|biliary_tract(1)|breast(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(7)|prostate(2)|urinary_tract(1)	19						CATAAAGCTGCCATTGAAGTA	0.313									Bardet-Biedl syndrome																																							0													30	32	31					15																	73009145		2195	4295	6490	SO:0001583	missense	585	Familial Cancer Database	BBS, Bardet-Biedl syndrome, type 1-12: BBS1-12,Laurence-Moon-Biedl syndrome	AF090947	CCDS10246.1, CCDS58377.1	15q22.3-q23	2013-01-10			ENSG00000140463	ENSG00000140463		"Tetratricopeptide (TTC) repeat domain containing"	969	protein-coding gene	gene with protein product		600374				7711739, 11381270	Standard	NM_033028		Approved		uc002avb.3	Q96RK4	OTTHUMG00000133510	ENST00000268057.4:c.359C>T	15.37:g.73009145C>T	ENSP00000268057:p.Ala120Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4E178|Q53DZ5|Q8NHU9|Q96H45	Missense_Mutation	SNP	ENST00000268057.4	37	CCDS10246.1	.	.	.	.	.	.	.	.	.	.	C	32	5.137580	0.94517	.	.	ENSG00000140463	ENST00000268057;ENST00000539603;ENST00000395205	D;D;D	0.89343	-2.5;-2.5;-2.5	5.19	5.19	0.71726	Tetratricopeptide-like helical (1);Tetratricopeptide repeat-containing (1);	0.000000	0.85682	D	0.000000	D	0.94225	0.8146	M	0.74467	2.265	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.995;0.993;0.998	D	0.94821	0.7987	10	0.87932	D	0	-9.8994	17.4905	0.87702	0.0:1.0:0.0:0.0	.	108;128;120	F5H7I8;Q96RK4-2;Q96RK4	.;.;BBS4_HUMAN	V	120;108;128	ENSP00000268057:A120V;ENSP00000442492:A108V;ENSP00000378631:A128V	ENSP00000268057:A120V	A	+	2	0	BBS4	70796198	1.000000	0.71417	0.968000	0.41197	0.961000	0.63080	7.040000	0.76551	2.420000	0.82092	0.591000	0.81541	GCC		0.313	BBS4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257473.2	NM_033028		T	73009145	C	T	73009145	3	4	669	1	0	0	0	0	1	0	0	0	1339	739	26	2	381	2	BBS4	15	73009145	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	8991503	73009145	29522247	168	42970										
ST20	400410	mdanderson.org	37	chr15	80191332	80191332	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	agtcagaaaaattaggccggTttcacaatatggagtgtcct	10	7	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr15:80191332T>C	ENST00000478497.1	-	3	860	c.181A>G	c.(181-183)Acc>Gcc	p.T61A	ST20-MTHFS_ENST00000494999.1_Intron|ST20_ENST00000562759.1_Missense_Mutation_p.T61A|MTHFS_ENST00000258874.3_5'Flank|ST20-MTHFS_ENST00000479961.1_Intron|MTHFS_ENST00000559722.1_5'Flank|ST20_ENST00000485386.1_Missense_Mutation_p.T61A	NM_001100879.1	NP_001094349.1	Q9HBF5	ST20_HUMAN	suppressor of tumorigenicity 20	61					extrinsic apoptotic signaling pathway in absence of ligand (GO:0097192)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|negative regulation of apoptotic process (GO:0043066)|negative regulation of intrinsic apoptotic signaling pathway (GO:2001243)	mitochondrial outer membrane (GO:0005741)	protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)			kidney(1)|large_intestine(1)|lung(1)|urinary_tract(1)	4						ATTAGGCCGGTTTCACAATAT	0.383																																																0													117	116	116					15																	80191332		2202	4300	6502	SO:0001583	missense	400410			AF249277	CCDS42067.1	15q25.1	2007-07-16				ENSG00000180953			33520	protein-coding gene	gene with protein product							Standard	NM_001100879		Approved	HCCS-1		Q9HBF5		ENST00000478497.1:c.181A>G	15.37:g.80191332T>C	ENSP00000453502:p.Thr61Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000478497.1	37	CCDS42067.1	.	.	.	.	.	.	.	.	.	.	T	12.63	1.997085	0.35226	.	.	ENSG00000180953	ENST00000322484;ENST00000417278	.	.	.	2.09	2.09	0.27110	.	.	.	.	.	T	0.22513	0.0543	.	.	.	0.09310	N	1	P	0.35714	0.517	B	0.27500	0.08	T	0.16335	-1.0406	7	0.87932	D	0	.	6.0481	0.19772	0.0:0.0:0.0:1.0	.	61	Q9HBF5	ST20_HUMAN	A	61	.	ENSP00000319125:T61A	T	-	1	0	ST20	77978387	0.726000	0.28059	0.068000	0.19968	0.711000	0.40976	1.510000	0.35790	0.966000	0.38159	0.172000	0.16884	ACC		0.383	ST20-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416728.2			C	80191332	T	C	80191332	3	2	669	1	0	0	0	0	1	0	0	0	15225	1725	60	3	62	3	ST20	15	80191332	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	7182187	80191332	22340060	169	42971										
CHSY1	22856	mdanderson.org	37	chr15	101717680	101717680	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cacatctcagccagctgctgGgtggacccataggtcgatgc	12	13	1	0	rs8024370	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr15:101717680G>T	ENST00000254190.3	-	3	2797	c.2322C>A	c.(2320-2322)acC>acA	p.T774T	CHSY1_ENST00000543813.1_5'UTR	NM_014918.4	NP_055733.2	Q86X52	CHSS1_HUMAN	chondroitin sulfate synthase 1	774					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|glycosaminoglycan metabolic process (GO:0030203)|negative regulation of ossification (GO:0030279)|response to nutrient levels (GO:0031667)|small molecule metabolic process (GO:0044281)	extracellular region (GO:0005576)|Golgi cisterna membrane (GO:0032580)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity (GO:0047238)|metal ion binding (GO:0046872)|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity (GO:0050510)			central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(10)|lung(5)|skin(1)	24	Lung NSC(78;0.00217)|all_lung(78;0.00271)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CCAGCTGCTGGGTGGACCCAT	0.478													T|||	3805	0.759784	0.8994	0.6412	5008	,	,		18386	0.8958		0.5557	False		,,,				2504	0.7249															0								T		3803,603	262.2+/-264.8	1657,489,57	87	81	83		2322	-9.2	0.7	15	dbSNP_116	83	4843,3757	534.2+/-382.6	1356,2131,813	no	coding-synonymous	CHSY1	NM_014918.4		3013,2620,870	TT,TG,GG		43.686,13.6859,33.523		774/803	101717680	8646,4360	2203	4300	6503	SO:0001819	synonymous_variant	22856			AB023207	CCDS10390.1	15q26.3	2013-02-19	2008-01-24	2008-01-24	ENSG00000131873	ENSG00000131873	2.4.1.175, 2.4.1.226	"Beta 3-glycosyltransferases", "Beta 4-glycosyltransferases"	17198	protein-coding gene	gene with protein product		608183	"carbohydrate (chondroitin) synthase 1"			11514575	Standard	NM_014918		Approved	KIAA0990, CSS1	uc021sxt.1	Q86X52	OTTHUMG00000149873	ENST00000254190.3:c.2322C>A	15.37:g.101717680G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UX38|Q7LFU5|Q9Y2J5	Silent	SNP	ENST00000254190.3	37	CCDS10390.1																																																																																				0.478	CHSY1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313624.1	NM_014918		T	101717680	G	T	101717680	2	4	669	1	0	0	0	0	0	0	0	1	3414	1219	43	4		4	CHSY1	15	101717680	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	21526348	101717680	813712	170	42972										
VPS35	55737	mdanderson.org	37	chr16	46702912	46702912	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ccaaaggtggcagtgtgaagCgaatccgctgatttccacca	11	11	0	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr16:46702912C>T	ENST00000299138.7	-	13	1635	c.1577G>A	c.(1576-1578)cGc>cAc	p.R526H		NM_018206.4	NP_060676.2	Q96QK1	VPS35_HUMAN	vacuolar protein sorting 35 homolog (S. cerevisiae)	526				R -> G (in Ref. 5; BAA91790). {ECO:0000305}.	cell death (GO:0008219)|protein transport (GO:0015031)|retrograde transport, endosome to Golgi (GO:0042147)	cytosol (GO:0005829)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|lysosomal membrane (GO:0005765)|retromer complex (GO:0030904)				breast(2)|endometrium(2)|kidney(2)|large_intestine(3)|lung(11)|pancreas(1)|prostate(1)|urinary_tract(1)	23		all_cancers(37;7.65e-05)|all_epithelial(9;0.000154)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				CAGTGTGAAGCGAATCCGCTG	0.363																																																0													89	98	95					16																	46702912		2203	4300	6503	SO:0001583	missense	55737			AF175265	CCDS10721.1	16q12	2012-06-27	2006-12-19		ENSG00000069329	ENSG00000069329		"Parkinson disease"	13487	protein-coding gene	gene with protein product		601501	"vacuolar protein sorting 35 (yeast homolog)", "vacuolar protein sorting 35 (yeast)"			11112353, 21763482	Standard	NM_018206		Approved	FLJ10752, MEM3, PARK17	uc002eef.4	Q96QK1	OTTHUMG00000132542	ENST00000299138.7:c.1577G>A	16.37:g.46702912C>T	ENSP00000299138:p.Arg526His	Somatic		WXS	Illumina HiSeq	Phase_I	Q561W2|Q9H016|Q9H096|Q9H4P3|Q9H8J0|Q9NRS7|Q9NVG2|Q9NX80|Q9NZK2	Missense_Mutation	SNP	ENST00000299138.7	37	CCDS10721.1	.	.	.	.	.	.	.	.	.	.	.	35	5.579135	0.96565	.	.	ENSG00000069329	ENST00000299138;ENST00000541330	T	0.45668	0.89	5.54	5.54	0.83059	.	0.000000	0.85682	D	0.000000	T	0.59500	0.2198	M	0.83603	2.65	0.80722	D	1	D;D	0.63046	0.987;0.992	P;P	0.50490	0.642;0.476	T	0.63681	-0.6582	10	0.44086	T	0.13	-10.298	19.5023	0.95100	0.0:1.0:0.0:0.0	.	526;391	Q96QK1;F5GYF5	VPS35_HUMAN;.	H	526;391	ENSP00000299138:R526H	ENSP00000299138:R526H	R	-	2	0	VPS35	45260413	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	7.786000	0.85741	2.605000	0.88082	0.591000	0.81541	CGC		0.363	VPS35-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255742.3			T	46702912	C	T	46702912	3	4	669	1	0	0	0	0	1	0	0	0	17215	768	27	1	833	1	VPS35	16	46702912	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10		46702912	43651841	171	42973										
SETD6	79918	mdanderson.org	37	chr16	58549932	58549932	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gcgtgcaggccggagagctgTtgttcgtggtgccgcgggcc	19	11	0	1	rs4784046	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr16:58549932T>C	ENST00000219315.4	+	2	315	c.265T>C	c.(265-267)Ttg>Ctg	p.L89L	SETD6_ENST00000418480.1_3'UTR|SETD6_ENST00000394266.4_Silent_p.L65L|SETD6_ENST00000310682.2_Silent_p.L65L			Q8TBK2	SETD6_HUMAN	SET domain containing 6	89	SET. {ECO:0000255|PROSITE- ProRule:PRU00190}.				negative regulation of NF-kappaB transcription factor activity (GO:0032088)|peptidyl-lysine monomethylation (GO:0018026)|regulation of inflammatory response (GO:0050727)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	NF-kappaB binding (GO:0051059)|protein-lysine N-methyltransferase activity (GO:0016279)			endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)|skin(1)	7						CGGAGAGCTGTTGTTCGTGGT	0.746													C|||	3856	0.769968	0.8041	0.7104	5008	,	,		7610	0.9544		0.5626	False		,,,				2504	0.7894															0								C	,	3001,969		1210,581,194	4	6	5		265,193	5.3	1	16	dbSNP_111	5	4379,3507		1344,1691,908	no	coding-synonymous,coding-synonymous	SETD6	NM_001160305.1,NM_024860.2	,	2554,2272,1102	CC,CT,TT		44.4712,24.4081,37.753	,	89/474,65/450	58549932	7380,4476	1985	3943	5928	SO:0001819	synonymous_variant	79918			AK024801	CCDS10798.1, CCDS54013.1	16q21	2008-02-05			ENSG00000103037	ENSG00000103037			26116	protein-coding gene	gene with protein product						12477932	Standard	NM_024860		Approved	FLJ21148	uc002ens.3	Q8TBK2	OTTHUMG00000150276	ENST00000219315.4:c.265T>C	16.37:g.58549932T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K380|B5ME38|Q9H787	Silent	SNP	ENST00000219315.4	37	CCDS54013.1																																																																																				0.746	SETD6-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000317274.2	NM_024860		C	58549932	T	C	58549932	2	2	669	1	0	0	0	0	0	0	0	1	14148	1722	60	3		3	SETD6	16	58549932	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	11847020	58549932	31804821	172	42974										
LCAT	3931	mdanderson.org	37	chr16	67974190	67974190	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctgcagccacatgtaccagcCttcctcaaagtgcaggtctg	9	14	2	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr16:67974190C>T	ENST00000264005.5	-	6	969	c.940G>A	c.(940-942)Ggc>Agc	p.G314S		NM_000229.1	NP_000220.1	P04180	LCAT_HUMAN	lecithin-cholesterol acyltransferase	314					cholesterol esterification (GO:0034435)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|cholesterol transport (GO:0030301)|high-density lipoprotein particle remodeling (GO:0034375)|lipoprotein biosynthetic process (GO:0042158)|lipoprotein metabolic process (GO:0042157)|phosphatidylcholine biosynthetic process (GO:0006656)|phospholipid metabolic process (GO:0006644)|regulation of high-density lipoprotein particle assembly (GO:0090107)|reverse cholesterol transport (GO:0043691)|small molecule metabolic process (GO:0044281)|very-low-density lipoprotein particle remodeling (GO:0034372)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|high-density lipoprotein particle (GO:0034364)	apolipoprotein A-I binding (GO:0034186)|phosphatidylcholine-sterol O-acyltransferase activity (GO:0004607)			cervix(4)|endometrium(4)|large_intestine(1)|lung(6)|ovary(1)	16		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00418)|Epithelial(162;0.0183)|all cancers(182;0.12)		ATGTACCAGCCTTCCTCAAAG	0.587																																																0													104	90	95					16																	67974190		2198	4300	6498	SO:0001583	missense	3931				CCDS10854.1	16q22.1	2012-10-02			ENSG00000213398	ENSG00000213398	2.3.1.43		6522	protein-coding gene	gene with protein product		606967					Standard	NM_000229		Approved		uc002euy.1	P04180	OTTHUMG00000137551	ENST00000264005.5:c.940G>A	16.37:g.67974190C>T	ENSP00000264005:p.Gly314Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q53XQ3	Missense_Mutation	SNP	ENST00000264005.5	37	CCDS10854.1	.	.	.	.	.	.	.	.	.	.	C	34	5.408259	0.96051	.	.	ENSG00000213398	ENST00000264005	D	0.95788	-3.81	5.88	5.88	0.94601	.	0.000000	0.64402	U	0.000001	D	0.98570	0.9522	H	0.96015	3.755	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.99421	1.0933	10	0.87932	D	0	-25.9727	17.7309	0.88377	0.0:1.0:0.0:0.0	.	314	P04180	LCAT_HUMAN	S	314	ENSP00000264005:G314S	ENSP00000264005:G314S	G	-	1	0	LCAT	66531691	1.000000	0.71417	0.999000	0.59377	0.996000	0.88848	4.823000	0.62694	2.788000	0.95919	0.555000	0.69702	GGC		0.587	LCAT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268885.3			T	67974190	C	T	67974190	3	4	669	1	0	0	0	0	1	0	0	0	8665	681	24	2	386	2	LCAT	16	67974190	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	9424258	67974190	22380563	173	42975										
ATMIN	23300	broad.mit.edu	37	chr16	81078086	81078087	+	Frame_Shift_Ins	INS	-	-	G													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aacttagcaccatgaccaccINSgagccagtcttggagtcact					rs140077063		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr16:81078086_81078087insG	ENST00000299575.4	+	4	2007_2008	c.1983_1984insG	c.(1984-1986)gagfs	p.E662fs	ATMIN_ENST00000564241.1_Frame_Shift_Ins_p.E506fs|ATMIN_ENST00000566488.1_Frame_Shift_Ins_p.E506fs|ATMIN_ENST00000539819.1_3'UTR	NM_015251.2	NP_056066.2	O43313	ATMIN_HUMAN	ATM interactor	662					cellular response to DNA damage stimulus (GO:0006974)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	dynein binding (GO:0045502)|metal ion binding (GO:0046872)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(9)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	20						CCATGACCACCGAGCCAGTCTT	0.47																																																0																																										SO:0001589	frameshift_variant	23300			BC002701	CCDS32494.1, CCDS73917.1	16q23.2	2013-01-07			ENSG00000166454	ENSG00000166454		"Zinc fingers, C2H2-type"	29034	protein-coding gene	gene with protein product	"ATM/ATR-Substrate Chk2-Interacting Zn++-finger protein", "ATM INteracting protein"	614693				15933716, 17525732, 19001856	Standard	XM_005255866		Approved	ASCIZ, KIAA0431, ZNF822	uc002ffz.1	O43313	OTTHUMG00000176469	ENST00000299575.4:c.1984dupG	16.37:g.81078087_81078087dupG	ENSP00000299575:p.Glu662fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4H8|Q68DC9	Frame_Shift_Ins	INS	ENST00000299575.4	37	CCDS32494.1																																																																																				0.47	ATMIN-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000432140.1	NM_015251		G	81078087	-	G	81078086	7	5	669	1	0	1	1	0	0	0	0	0	1110	639	23	0	1997	0	ATMIN	16	81078086	Frame_Shift_Ins	INS	-	TCGA-KN-8433-01A-11D-2310-10	13103896	81078086	9276667	174	42976										
ZZEF1	23140	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	3917706	3917706	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgtgtcggtcttgctggaagTcactgctgctggacatggct	14	9	2	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr17:3917706T>A	ENST00000381638.2	-	50	8373	c.8249A>T	c.(8248-8250)gAc>gTc	p.D2750V		NM_015113.3	NP_055928.3	O43149	ZZEF1_HUMAN	zinc finger, ZZ-type with EF-hand domain 1	2750							calcium ion binding (GO:0005509)|zinc ion binding (GO:0008270)			central_nervous_system(1)|cervix(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(17)|lung(19)|ovary(3)|pancreas(1)|prostate(3)|skin(8)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(3)	84						TTGCTGGAAGTCACTGCTGCT	0.473																																																0													148	131	137					17																	3917706		2203	4300	6503	SO:0001583	missense	23140			BC035319	CCDS11043.1	17p13.3	2013-01-10	2004-11-03		ENSG00000074755	ENSG00000074755		"Zinc fingers, ZZ-type", "EF-hand domain containing"	29027	protein-coding gene	gene with protein product			"zinc finger, ZZ-type with EF hand domain 1"			9455477	Standard	XM_005256560		Approved	KIAA0399, ZZZ4, FLJ10821	uc002fxe.3	O43149	OTTHUMG00000090741	ENST00000381638.2:c.8249A>T	17.37:g.3917706T>A	ENSP00000371051:p.Asp2750Val	Somatic		WXS	Illumina HiSeq	Phase_I	A7MBM5|Q6NXG0|Q6ZRA1|Q6ZSF4|Q9NVB9	Missense_Mutation	SNP	ENST00000381638.2	37	CCDS11043.1	.	.	.	.	.	.	.	.	.	.	T	25.2	4.617960	0.87359	.	.	ENSG00000074755	ENST00000381638	T	0.23950	1.88	5.17	5.17	0.71159	.	0.099894	0.64402	D	0.000002	T	0.40909	0.1136	L	0.32530	0.975	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.31138	-0.9954	10	0.72032	D	0.01	-20.0268	15.1875	0.73016	0.0:0.0:0.0:1.0	.	2750	O43149	ZZEF1_HUMAN	V	2750	ENSP00000371051:D2750V	ENSP00000371051:D2750V	D	-	2	0	ZZEF1	3864455	1.000000	0.71417	1.000000	0.80357	0.908000	0.53690	7.504000	0.81646	2.183000	0.69458	0.533000	0.62120	GAC		0.473	ZZEF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207480.1	NM_015113		A	3917706	T	A	3917706	3	1	669	1	0	0	0	0	1	0	0	0	18267	1667	58	5	660	5	ZZEF1	17	3917706	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10		3917706	77277504	175	42977										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	7579699	7579699	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cagcccaacccttgtccttaCcagaacgttgttttcaggaa	7	13	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr17:7579699C>A	ENST00000269305.4	-	3	286		c.e3+1		TP53_ENST00000574684.1_5'Flank|TP53_ENST00000445888.2_Splice_Site|TP53_ENST00000359597.4_Splice_Site|TP53_ENST00000455263.2_Splice_Site|TP53_ENST00000420246.2_Splice_Site|TP53_ENST00000413465.2_Splice_Site	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53						apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.?(11)|p.0?(8)|p.S33fs*10(1)|p.P13fs*18(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	CTTGTCCTTACCAGAACGTTG	0.597		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	21	Unknown(11)|Whole gene deletion(8)|Insertion - Frameshift(1)|Deletion - Frameshift(1)	liver(8)|bone(4)|central_nervous_system(2)|ovary(2)|upper_aerodigestive_tract(1)|stomach(1)|soft_tissue(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)											41	42	42					17																	7579699		2202	4298	6500	SO:0001630	splice_region_variant	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.96+1G>T	17.37:g.7579699C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Splice_Site	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	C	22.5	4.297523	0.81025	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000514944;ENST00000508793;ENST00000503591	.	.	.	3.87	3.87	0.44632	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	11.6079	0.51043	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	TP53	7520424	1.000000	0.71417	1.000000	0.80357	0.961000	0.63080	1.928000	0.40104	2.466000	0.83321	0.561000	0.74099	.		0.597	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546	Intron	A	7579699	C	A	7579699	5	1	669	1	0	0	0	0	0	0	1	0	16393	521	18	4	1209	4	TP53	17	7579699	Splice_Site	SNP	C	TCGA-KN-8433-01A-11D-2310-10	3661993	7579699	73615511	176	42978										
TBC1D26	353149	mdanderson.org	37	chr17	15642054	15642054	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggtcatgaaggagaagggcaAgaggtcctccagaatcatcc	13	9	2	4			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr17:15642054A>G	ENST00000437605.2	+	8	657	c.407A>G	c.(406-408)aAg>aGg	p.K136R	AC005324.6_ENST00000433873.1_RNA|AC005324.6_ENST00000580194.1_RNA|ZNF286A_ENST00000413242.2_3'UTR|TBC1D26_ENST00000579428.1_Missense_Mutation_p.K136R|AC005324.6_ENST00000434017.1_RNA	NM_178571.4	NP_848666	Q86UD7	TBC26_HUMAN	TBC1 domain family, member 26	136	Rab-GAP TBC. {ECO:0000255|PROSITE- ProRule:PRU00163}.						Rab GTPase activator activity (GO:0005097)			endometrium(1)|large_intestine(1)|lung(4)|skin(1)	7				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(1115;0.0222)|BRCA - Breast invasive adenocarcinoma(8;0.078)		GAGAAGGGCAAGAGGTCCTCC	0.522																																																0													118	116	117					17																	15642054		2201	4295	6496	SO:0001583	missense	353149				CCDS42265.1	17p11.2	2008-11-04			ENSG00000214946	ENSG00000214946			28745	protein-coding gene	gene with protein product						11347906	Standard	NM_178571		Approved	MGC51025	uc010cov.3	Q86UD7	OTTHUMG00000059071	ENST00000437605.2:c.407A>G	17.37:g.15642054A>G	ENSP00000410111:p.Lys136Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K929|Q4G172	Missense_Mutation	SNP	ENST00000437605.2	37	CCDS42265.1	.	.	.	.	.	.	.	.	.	.	a	0.124	-1.122408	0.01785	.	.	ENSG00000214946	ENST00000437605	T	0.33216	1.42	1.44	-1.49	0.08718	Rab-GAP/TBC domain (4);	0.556946	0.16549	N	0.209565	T	0.33265	0.0857	L	0.46614	1.455	0.09310	N	1	D;D	0.89917	1.0;1.0	D;D	0.78314	0.988;0.991	T	0.35525	-0.9785	10	0.07030	T	0.85	.	4.0277	0.09695	0.5255:0.0:0.4745:0.0	.	136;136	Q86UD7;Q86UD7-2	TBC26_HUMAN;.	R	136	ENSP00000410111:K136R	ENSP00000410111:K136R	K	+	2	0	TBC1D26	15582779	0.056000	0.20664	0.002000	0.10522	0.010000	0.07245	0.671000	0.25172	-0.101000	0.12219	-0.526000	0.04340	AAG		0.522	TBC1D26-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_178571		G	15642054	A	G	15642054	3	3	669	1	0	0	0	0	1	0	0	0	15628	72	3	3	429	3	TBC1D26	17	15642054	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	8062355	15642054	65553156	177	42979										
CCDC144NL	339184	mdanderson.org	37	chr17	20769996	20769996	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggcgactcctccttctcctcCttcagcctggcttggagcag	10	16	2	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr17:20769996C>A	ENST00000327925.5	-	3	555	c.436G>T	c.(436-438)Gga>Tga	p.G146*	RP11-344E13.3_ENST00000577537.1_RNA|RP11-344E13.3_ENST00000582324.1_RNA|RP11-344E13.3_ENST00000439794.2_RNA|RP11-344E13.3_ENST00000417232.2_RNA|RP11-344E13.3_ENST00000583962.1_RNA|RP11-344E13.3_ENST00000577860.1_RNA|CCDC144NL_ENST00000539484.1_5'UTR	NM_001004306.1	NP_001004306.1	Q6NUI1	C144L_HUMAN	coiled-coil domain containing 144 family, N-terminal like	146										large_intestine(3)|lung(3)|skin(1)	7						ccttctcctccttcagcctgg	0.572																																																0													43	29	34					17																	20769996		2112	4035	6147	SO:0001587	stop_gained	339184				CCDS32591.1	17p11.2	2009-01-15			ENSG00000205212	ENSG00000205212			33735	protein-coding gene	gene with protein product							Standard	NM_001004306		Approved	MGC87631	uc002gyf.3	Q6NUI1	OTTHUMG00000132271	ENST00000327925.5:c.436G>T	17.37:g.20769996C>A	ENSP00000328054:p.Gly146*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000327925.5	37	CCDS32591.1	.	.	.	.	.	.	.	.	.	.	c	9.837	1.189859	0.21954	.	.	ENSG00000205212	ENST00000327925	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.49607	T	0.09	.	.	.	.	.	.	.	.	X	146	.	ENSP00000328054:G146X	G	-	1	0	CCDC144NL	20710588	0.077000	0.21312	0.046000	0.18839	0.046000	0.14306	0.076000	0.14712	0.088000	0.17205	0.089000	0.15464	GGA		0.572	CCDC144NL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255361.2	NM_001004306		A	20769996	C	A	20769996	4	1	669	1	0	0	0	0	0	1	0	0	2781	690	24	4	237	4	CCDC144NL	17	20769996	Nonsense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	5127942	20769996	60425214	178	42980										
KRTAP4-8	728224	mdanderson.org	37	chr17	39254124	39254124	+	Silent	SNP	C	C	G													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tggggcttgcagcagctggaCacacagcagctggggcgaca							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr17:39254124C>G	ENST00000333822.4	-	1	269	c.213G>C	c.(211-213)gtG>gtC	p.V71V		NM_031960.2	NP_114166.1	Q9BYQ9	KRA48_HUMAN	keratin associated protein 4-8	71	25 X 5 AA repeats of C-C-[IKRQVHEC]- [SPRT]-[STCVQPR].				aging (GO:0007568)|hair cycle (GO:0042633)	keratin filament (GO:0045095)				endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(1)|prostate(1)	11						AGCAGCTGGACACACAGCAGC	0.667																																																0													5	8	7					17																	39254124		620	1442	2062	SO:0001819	synonymous_variant	728224			AJ406940	CCDS45674.1	17q21.2	2013-06-25			ENSG00000204880	ENSG00000204880		"Keratin associated proteins"	17230	protein-coding gene	gene with protein product						11279113	Standard	NM_031960		Approved	KAP4.8	uc010wfo.2	Q9BYQ9	OTTHUMG00000133580	ENST00000333822.4:c.213G>C	17.37:g.39254124C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8MSH3	Silent	SNP	ENST00000333822.4	37	CCDS45674.1																																																																																				0.667	KRTAP4-8-001	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257684.1	NM_031960		G	39254124	C	G	39254124	2	3	669	1	0	0	0	0	0	0	0	1	8563	465	17	4		4	KRTAP4-8	17	39254124	Silent	SNP	C	TCGA-KN-8433-01A-11D-2310-10	18484128	39254124	41941086	179	42981	417	2								
KRTAP4-8	728224	mdanderson.org	37	chr17	39254127	39254127	+	Silent	SNP	A	A	G													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggcttgcagcagctggacacAcagcagctggggcgacagca							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr17:39254127A>G	ENST00000333822.4	-	1	266	c.210T>C	c.(208-210)tgT>tgC	p.C70C		NM_031960.2	NP_114166.1	Q9BYQ9	KRA48_HUMAN	keratin associated protein 4-8	70	25 X 5 AA repeats of C-C-[IKRQVHEC]- [SPRT]-[STCVQPR].				aging (GO:0007568)|hair cycle (GO:0042633)	keratin filament (GO:0045095)				endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(1)|prostate(1)	11						AGCTGGACACACAGCAGCTGG	0.667																																																0													5	8	7					17																	39254127		619	1439	2058	SO:0001819	synonymous_variant	728224			AJ406940	CCDS45674.1	17q21.2	2013-06-25			ENSG00000204880	ENSG00000204880		"Keratin associated proteins"	17230	protein-coding gene	gene with protein product						11279113	Standard	NM_031960		Approved	KAP4.8	uc010wfo.2	Q9BYQ9	OTTHUMG00000133580	ENST00000333822.4:c.210T>C	17.37:g.39254127A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8MSH3	Silent	SNP	ENST00000333822.4	37	CCDS45674.1																																																																																				0.667	KRTAP4-8-001	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257684.1	NM_031960		G	39254127	A	G	39254127	2	3	669	1	0	0	0	0	0	0	0	1	8563	157	6	3		3	KRTAP4-8	17	39254127	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	3	39254127	41941083	180	42982	417	2								
ITGB4	3691	mdanderson.org	37	chr17	73752787	73752787	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttcctctactgcccccaggcTccgccttcactttgagcact	6	18	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr17:73752787T>C	ENST00000200181.3	+	37	5087	c.4900T>C	c.(4900-4902)Tcc>Ccc	p.S1634P	ITGB4_ENST00000449880.2_Missense_Mutation_p.S1617P|ITGB4_ENST00000450894.3_Missense_Mutation_p.S1564P|ITGB4_ENST00000339591.3_Missense_Mutation_p.S1617P|GALK1_ENST00000225614.2_Intron|ITGB4_ENST00000579662.1_Missense_Mutation_p.S1564P	NM_000213.3	NP_000204.3	P16144	ITB4_HUMAN	integrin, beta 4	1634					amelogenesis (GO:0097186)|autophagy (GO:0006914)|cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|cell motility (GO:0048870)|cell-matrix adhesion (GO:0007160)|digestive tract development (GO:0048565)|extracellular matrix organization (GO:0030198)|filopodium assembly (GO:0046847)|hemidesmosome assembly (GO:0031581)|integrin-mediated signaling pathway (GO:0007229)|mesodermal cell differentiation (GO:0048333)|nail development (GO:0035878)|renal system development (GO:0072001)|response to wounding (GO:0009611)|skin development (GO:0043588)	basal plasma membrane (GO:0009925)|basement membrane (GO:0005604)|cell leading edge (GO:0031252)|cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|hemidesmosome (GO:0030056)|integrin complex (GO:0008305)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	G-protein coupled receptor binding (GO:0001664)|receptor activity (GO:0004872)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|liver(1)|lung(25)|skin(1)|urinary_tract(1)	43	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCCCCCAGGCTCCGCCTTCAC	0.682																																																0													55	55	55					17																	73752787		2203	4298	6501	SO:0001583	missense	3691				CCDS11727.1, CCDS32736.1, CCDS58599.1	17q25.1	2013-09-19			ENSG00000132470	ENSG00000132470		"CD molecules", "Integrins", "Fibronectin type III domain containing"	6158	protein-coding gene	gene with protein product		147557				2070796	Standard	XM_005257309		Approved	CD104	uc002jpg.3	P16144	OTTHUMG00000179814	ENST00000200181.3:c.4900T>C	17.37:g.73752787T>C	ENSP00000200181:p.Ser1634Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVL6|O14690|O14691|O15339|O15340|O15341|Q0VF97|Q9UIQ4	Missense_Mutation	SNP	ENST00000200181.3	37	CCDS11727.1	.	.	.	.	.	.	.	.	.	.	T	13.11	2.140134	0.37825	.	.	ENSG00000132470	ENST00000200181;ENST00000339591;ENST00000449880	T;T;T	0.54071	0.59;0.59;0.59	5.04	5.04	0.67666	Fibronectin, type III (1);	0.000000	0.85682	D	0.000000	T	0.67316	0.2880	L	0.51422	1.61	0.80722	D	1	P;D;P	0.89917	0.709;1.0;0.905	P;D;P	0.85130	0.802;0.997;0.628	T	0.70788	-0.4777	10	0.87932	D	0	.	15.0763	0.72080	0.0:0.0:0.0:1.0	.	1617;1564;1634	P16144-3;A0AVL6;P16144	.;.;ITB4_HUMAN	P	1634;1617;1617	ENSP00000200181:S1634P;ENSP00000344079:S1617P;ENSP00000400217:S1617P	ENSP00000200181:S1634P	S	+	1	0	ITGB4	71264382	1.000000	0.71417	0.937000	0.37676	0.496000	0.33645	4.247000	0.58750	2.036000	0.60181	0.379000	0.24179	TCC		0.682	ITGB4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000448334.1			C	73752787	T	C	73752787	3	2	669	1	0	0	0	0	1	0	0	0	7904	1551	54	3	5205	3	ITGB4	17	73752787	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	34498660	73752787	7442423	181	42983										
DNAH17	8632	mdanderson.org	37	chr17	76547619	76547619	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gctctgccccttgcttacctTcatagcctgggaaattcctt	7	14	2	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr17:76547619T>C	ENST00000585328.1	-	16	2513	c.2389A>G	c.(2389-2391)Aag>Gag	p.K797E	DNAH17_ENST00000389840.5_Missense_Mutation_p.K797E	NM_173628.3	NP_775899.3	Q9UFH2	DYH17_HUMAN	dynein, axonemal, heavy chain 17	797	Stem. {ECO:0000250}.				cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(2)|breast(7)|central_nervous_system(5)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(13)|large_intestine(8)|lung(37)|ovary(8)|prostate(7)|skin(4)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(3)	116			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			TTGCTTACCTTCATAGCCTGG	0.512																																																0													138	108	118					17																	76547619		2203	4300	6503	SO:0001583	missense	8632			AJ000522		17q25.3	2012-04-19	2006-09-04		ENSG00000187775	ENSG00000187775		"Axonemal dyneins"	2946	protein-coding gene	gene with protein product		610063	"dynein, axonemal, heavy polypeptide 17", "dynein, axonemal, heavy chain like 1", "dynein, axonemal, heavy like 1"	DNAHL1		9545504	Standard	NM_173628		Approved	DNEL2, FLJ40457	uc010dhp.2	Q9UFH2		ENST00000585328.1:c.2389A>G	17.37:g.76547619T>C	ENSP00000465516:p.Lys797Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O00431|O15206|Q2M2Y1|Q6ZRQ2|Q8N7Q7	Missense_Mutation	SNP	ENST00000585328.1	37		.	.	.	.	.	.	.	.	.	.	T	0.323	-0.960564	0.02267	.	.	ENSG00000187775	ENST00000300671;ENST00000389840	T	0.22134	1.97	4.6	-0.881	0.10607	.	.	.	.	.	T	0.13157	0.0319	L	0.37850	1.14	0.22719	N	0.998812	B	0.02656	0.0	B	0.08055	0.003	T	0.39396	-0.9616	9	0.13470	T	0.59	.	7.3558	0.26719	0.0:0.1738:0.5542:0.272	.	499	Q9UFH2-4	.	E	797	ENSP00000374490:K797E	ENSP00000300671:K797E	K	-	1	0	DNAH17	74059214	1.000000	0.71417	0.993000	0.49108	0.030000	0.12068	0.364000	0.20325	-0.062000	0.13088	-0.689000	0.03729	AAG		0.512	DNAH17-001	PUTATIVE	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000318962.2	NM_173628		C	76547619	T	C	76547619	3	2	669	1	0	0	0	0	1	0	0	0	4603	1792	62	3	11263	3	DNAH17	17	76547619	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	2794832	76547619	4647591	182	42984										
KCTD1	284252	hgsc.bcm.edu	37	chr18	24127106	24127106	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cccagcttggtgccaatgccCgcgatgctgttgagcgtggc	14	13	0	1	rs554790375		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr18:24127106C>T	ENST00000408011.3	-	1	545				KCTD1_ENST00000317932.7_Intron|KCTD1_ENST00000417602.1_Silent_p.A465A|KCTD1_ENST00000579973.1_Intron|KCTD1_ENST00000580059.1_5'Flank	NM_001136205.2	NP_001129677.1	Q719H9	KCTD1_HUMAN	potassium channel tetramerization domain containing 1						negative regulation of transcription, DNA-templated (GO:0045892)|protein homooligomerization (GO:0051260)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)			endometrium(2)|large_intestine(3)|lung(3)|ovary(1)|prostate(3)	12	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)			TGCCAATGCCCGCGATGCTGT	0.682																																																0													20	23	22					18																	24127106		692	1591	2283	SO:0001627	intron_variant	284252			AF542549	CCDS11888.1	18q11.2	2013-09-20	2013-06-20		ENSG00000134504	ENSG00000134504			18249	protein-coding gene	gene with protein product		613420	"potassium channel tetramerisation domain containing 1"	C18orf5			Standard	NM_001142730		Approved		uc010xbj.3	Q719H9	OTTHUMG00000131947	ENST00000408011.3:c.14+1748G>A	18.37:g.24127106C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1F5	Silent	SNP	ENST00000408011.3	37	CCDS11888.1																																																																																				0.682	KCTD1-003	KNOWN	alternative_5_UTR|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000446265.1	XM_209091		T	24127106	C	T	24127106	1	4	669	0	1	0	0	0	0	0	0	0	8103	639	23	1		1	KCTD1	18	24127106	Intron	SNP	C	TCGA-KN-8433-01A-11D-2310-10		24127106	53950142	183	42985										
HCN2	610	mdanderson.org	37	chr19	605093	605093	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	acctatgacctggccagcgcGgtgatgaggatctgcaatct	12	11	2	3	rs55839339	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:605093G>A	ENST00000251287.2	+	3	1142	c.1089G>A	c.(1087-1089)gcG>gcA	p.A363A		NM_001194.3	NP_001185.3	Q9UL51	HCN2_HUMAN	hyperpolarization activated cyclic nucleotide-gated potassium channel 2	363					cell-cell signaling (GO:0007267)|cellular response to cAMP (GO:0071320)|cellular response to cGMP (GO:0071321)|potassium ion transmembrane transport (GO:0071805)|regulation of membrane potential (GO:0042391)|sodium ion transmembrane transport (GO:0035725)|synaptic transmission (GO:0007268)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	cAMP binding (GO:0030552)|identical protein binding (GO:0042802)|intracellular cAMP activated cation channel activity (GO:0005222)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated sodium channel activity (GO:0005248)			endometrium(5)|lung(4)	9		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)		TGGCCAGCGCGGTGATGAGGA	0.642													g|||	35	0.00698882	0.003	0.0159	5008	,	,		9413	0.002		0.0139	False		,,,				2504	0.0041				Melanoma(145;1175 2427 8056 36306)											0								G		34,4372		0,34,2169	89	73	79		1089	-6.8	0.8	19	dbSNP_129	79	170,8424		3,164,4130	no	coding-synonymous	HCN2	NM_001194.3		3,198,6299	AA,AG,GG		1.9781,0.7717,1.5692		363/890	605093	204,12796	2203	4297	6500	SO:0001819	synonymous_variant	610			AF064877	CCDS12035.1	19p13	2011-07-05				ENSG00000099822		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	4846	protein-coding gene	gene with protein product		602781		BCNG2		9405696, 9630217, 16382102	Standard	NM_001194		Approved	BCNG-2, HAC-1	uc002lpe.3	Q9UL51		ENST00000251287.2:c.1089G>A	19.37:g.605093G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60742|O60743|O75267|Q9UBS2	Silent	SNP	ENST00000251287.2	37	CCDS12035.1																																																																																				0.642	HCN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452100.1	NM_001194		A	605093	G	A	605093	2	1	669	1	0	0	0	0	0	0	0	1	7004	1103	39	1		1	HCN2	19	605093	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10		605093	58523890	184	42986										
PLIN4	729359	mdanderson.org	37	chr19	4512514	4512514	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gactttgtagtgtccaggccGccctggacggcccctttggc	13	14	0	0	rs7259625	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:4512514G>C	ENST00000301286.3	-	3	1415	c.1416C>G	c.(1414-1416)ggC>ggG	p.G472G		NM_001080400.1	NP_001073869.1	Q96Q06	PLIN4_HUMAN	perilipin 4	472	27 X 33 AA approximate tandem repeat.					cytoplasm (GO:0005737)|lipid particle (GO:0005811)|plasma membrane (GO:0005886)				NS(2)|breast(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(14)|ovary(1)|skin(2)|soft_tissue(1)|stomach(2)	41						TGTCCAGGCCGCCCTGGACGG	0.602													G|||	1797	0.358826	0.6657	0.2305	5008	,	,		22698	0.1032		0.33	False		,,,				2504	0.3282															0								C		2301,1611		711,879,366	102	114	110		1416	-10.5	0	19	dbSNP_116	110	2661,5623		420,1821,1901	no	coding-synonymous	PLIN4	NM_001080400.1		1131,2700,2267	CC,CG,GG		32.1222,41.181,40.6855		472/1358	4512514	4962,7234	1956	4142	6098	SO:0001819	synonymous_variant	729359			AB067468	CCDS45927.1	19p13.3	2009-10-06	2009-08-12	2009-08-12	ENSG00000167676	ENSG00000167676		"Perilipins"	29393	protein-coding gene	gene with protein product		613247	"KIAA1881"	KIAA1881		11572484, 19638644	Standard	NM_001080400		Approved	S3-12	uc002mar.1	Q96Q06	OTTHUMG00000167571	ENST00000301286.3:c.1416C>G	19.37:g.4512514G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NEI2	Silent	SNP	ENST00000301286.3	37	CCDS45927.1																																																																																				0.602	PLIN4-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395095.1	XM_170901		C	4512514	G	C	4512514	2	2	669	1	0	0	0	0	0	0	0	1	12099	1074	38	4		4	PLIN4	19	4512514	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	3907421	4512514	54616469	185	42987										
MUC16	94025	mdanderson.org	37	chr19	9002597	9002597	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ccagtacagccgctctctgtCcagtccagggcttttggggt	12	13	1	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:9002597C>T	ENST00000397910.4	-	51	40422	c.40219G>A	c.(40219-40221)Gac>Aac	p.D13407N	MUC16_ENST00000380951.5_Missense_Mutation_p.D48N	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13409	SEA 9. {ECO:0000255|PROSITE- ProRule:PRU00188}.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						CGCTCTCTGTCCAGTCCAGGG	0.592																																																0																																										SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.40219G>A	19.37:g.9002597C>T	ENSP00000381008:p.Asp13407Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	11.51|11.51	1.659878|1.659878	0.29515|0.29515	.|.	.|.	ENSG00000181143|ENSG00000181143	ENST00000397910;ENST00000380951|ENST00000542240	T;T|.	0.45668|.	0.89;0.89|.	2.75|2.75	-0.839|-0.839	0.10759|0.10759	SEA (1);|.	.|.	.|.	.|.	.|.	T|.	0.43344|.	0.1243|.	L|L	0.52759|0.52759	1.655|1.655	.|.	.|.	.|.	B;D|.	0.60575|.	0.007;0.988|.	B;D|.	0.75020|.	0.014;0.985|.	T|.	0.51236|.	-0.8731|.	8|.	0.54805|.	T|.	0.06|.	-11.8857|-11.8857	6.8102|6.8102	0.23801|0.23801	0.0:0.8029:0.0:0.1971|0.0:0.8029:0.0:0.1971	.|.	21052;13407|.	Q8WXI7;B5ME49|.	MUC16_HUMAN;.|.	N|X	13407;48|246	ENSP00000381008:D13407N;ENSP00000370338:D48N|.	ENSP00000370338:D48N|.	D|W	-|-	1|3	0|0	MUC16|MUC16	8863597|8863597	0.045000|0.045000	0.20229|0.20229	0.003000|0.003000	0.11579|0.11579	0.000000|0.000000	0.00434|0.00434	1.258000|1.258000	0.32944|0.32944	-0.029000|-0.029000	0.13827|0.13827	-3.921000|-3.921000	0.00016|0.00016	GAC|TGG		0.592	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		T	9002597	C	T	9002597	3	4	669	1	0	0	0	0	1	0	0	0	9980	855	30	2	3440	2	MUC16	19	9002597	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	4490083	9002597	50126386	186	42988										
MUC16	94025	mdanderson.org	37	chr19	9012816	9012816	+	Silent	SNP	G	G	A													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gtggtgttgaacttcctggaGcctgggtgatgcatgtcctc							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:9012816G>A	ENST00000397910.4	-	34	38831	c.38628C>T	c.(38626-38628)ggC>ggT	p.G12876G		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	12878	SEA 6. {ECO:0000255|PROSITE- ProRule:PRU00188}.			Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						ACTTCCTGGAGCCTGGGTGAT	0.597																																																0													205	175	185					19																	9012816		2019	4181	6200	SO:0001819	synonymous_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.38628C>T	19.37:g.9012816G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Silent	SNP	ENST00000397910.4	37	CCDS54212.1																																																																																				0.597	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		A	9012816	G	A	9012816	2	1	669	1	0	0	0	0	0	0	0	1	9980	958	34	2		2	MUC16	19	9012816	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	10219	9012816	50116167	187	42989	418	2								
MUC16	94025	mdanderson.org	37	chr19	9012819	9012819	+	Silent	SNP	T	T	A													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gtgttgaacttcctggagccTgggtgatgcatgtcctcctc					rs4992694	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:9012819T>A	ENST00000397910.4	-	34	38828	c.38625A>T	c.(38623-38625)ccA>ccT	p.P12875P		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	12877	SEA 6. {ECO:0000255|PROSITE- ProRule:PRU00188}.			Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TCCTGGAGCCTGGGTGATGCA	0.597																																																0																																										SO:0001819	synonymous_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.38625A>T	19.37:g.9012819T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Silent	SNP	ENST00000397910.4	37	CCDS54212.1																																																																																				0.597	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		A	9012819	T	A	9012819	2	1	669	1	0	0	0	0	0	0	0	1	9980	1567	55	5		5	MUC16	19	9012819	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	3	9012819	50116164	188	42990	418	2								
PRDX2	7001	mdanderson.org	37	chr19	12911040	12911040	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cacgccgtaatcctcagacaAgcgtctggtcacgtcagcaa	9	14	4	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:12911040A>G	ENST00000301522.2	-	4	459	c.331T>C	c.(331-333)Ttg>Ctg	p.L111L	PRDX2_ENST00000334482.5_Silent_p.L111L|CTD-2659N19.10_ENST00000585496.1_RNA	NM_005809.4	NP_005800.3	P32119	PRDX2_HUMAN	peroxiredoxin 2	111	Thioredoxin. {ECO:0000255|PROSITE- ProRule:PRU00691}.				cellular response to oxidative stress (GO:0034599)|hydrogen peroxide catabolic process (GO:0042744)|negative regulation of apoptotic process (GO:0043066)|negative regulation of neuron apoptotic process (GO:0043524)|regulation of apoptotic process (GO:0042981)|removal of superoxide radicals (GO:0019430)|response to oxidative stress (GO:0006979)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	antioxidant activity (GO:0016209)|thioredoxin peroxidase activity (GO:0008379)			endometrium(1)|large_intestine(1)|lung(1)|prostate(1)	4						TCCTCAGACAAGCGTCTGGTC	0.622																																																0													71	74	73					19																	12911040		2203	4300	6503	SO:0001819	synonymous_variant	7001				CCDS12281.1	19p13.2	2008-07-17			ENSG00000167815	ENSG00000167815			9353	protein-coding gene	gene with protein product	"thioredoxin-dependent peroxide reductase 1", "thiol-specific antioxidant 1", "natural killer-enhancing factor B", "thioredoxin peroxidase 1", "torin"	600538		TDPX1		7607688	Standard	NM_005809		Approved	PRP, NKEFB, TSA, PRXII, PRX2, MGC4104	uc002mvd.4	P32119	OTTHUMG00000134285	ENST00000301522.2:c.331T>C	19.37:g.12911040A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0C0|P31945|P32118|P35701|Q6FHG4|Q92763|Q9UC23	Missense_Mutation	SNP	ENST00000301522.2	37	CCDS12281.1																																																																																				0.622	PRDX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258950.2	NM_005809		G	12911040	A	G	12911040	2	3	669	1	0	0	0	0	0	0	0	1	12475	69	3	3		3	PRDX2	19	12911040	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	3898221	12911040	46217943	189	42991										
RNASEH2A	10535	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	12917591	12917591	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttgcgtcctgggcgtcgatgAggcgggcaggggccccgtgc	19	12	0	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:12917591A>T	ENST00000221486.4	+	1	198	c.104A>T	c.(103-105)gAg>gTg	p.E35V		NM_006397.2	NP_006388.2	O75792	RNH2A_HUMAN	ribonuclease H2, subunit A	35					DNA replication (GO:0006260)|mismatch repair (GO:0006298)|RNA catabolic process (GO:0006401)|RNA phosphodiester bond hydrolysis (GO:0090501)|RNA phosphodiester bond hydrolysis, endonucleolytic (GO:0090502)	nucleus (GO:0005634)|ribonuclease H2 complex (GO:0032299)	metal ion binding (GO:0046872)|ribonuclease activity (GO:0004540)|RNA binding (GO:0003723)|RNA-DNA hybrid ribonuclease activity (GO:0004523)			breast(3)|central_nervous_system(1)|endometrium(2)|large_intestine(3)|lung(3)|skin(1)|urinary_tract(1)	14						GGCGTCGATGAGGCGGGCAGG	0.692																																																0													13	11	12					19																	12917591		2188	4285	6473	SO:0001583	missense	10535			Z97029	CCDS12282.1	19p13.13	2014-09-17	2006-08-17			ENSG00000104889	3.1.26.-		18518	protein-coding gene	gene with protein product		606034	"ribonuclease H2, large subunit", "Aicardi-Goutieres syndrome 4"			9789007, 16845400	Standard	NM_006397		Approved	RNASEHI, RNHIA, RNHL, AGS4	uc002mvg.1	O75792		ENST00000221486.4:c.104A>T	19.37:g.12917591A>T	ENSP00000221486:p.Glu35Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCY1|Q96F11	Missense_Mutation	SNP	ENST00000221486.4	37	CCDS12282.1	.	.	.	.	.	.	.	.	.	.	A	24.4	4.532462	0.85812	.	.	ENSG00000104889	ENST00000221486	D	0.98987	-5.3	4.44	4.44	0.53790	Ribonuclease HII/HIII domain (1);Ribonuclease H-like (1);	0.050459	0.85682	D	0.000000	D	0.99579	0.9848	H	0.98918	4.37	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.97679	1.0171	10	0.87932	D	0	-23.2914	12.8014	0.57588	1.0:0.0:0.0:0.0	.	35	O75792	RNH2A_HUMAN	V	35	ENSP00000221486:E35V	ENSP00000221486:E35V	E	+	2	0	RNASEH2A	12778591	1.000000	0.71417	0.996000	0.52242	0.463000	0.32649	8.022000	0.88759	1.860000	0.53959	0.374000	0.22700	GAG		0.692	RNASEH2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451507.1	NM_006397		T	12917591	A	T	12917591	3	4	669	1	0	0	0	0	1	0	0	0	13425	304	11	5	106	5	RNASEH2A	19	12917591	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	6551	12917591	46211392	190	42992										
CACNA1A	773	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	13397774	13397774	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	acagggaccccggagccctgGttctctctgaggaaggcaag	14	12	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:13397774G>T	ENST00000360228.5	-	20	3095	c.3096C>A	c.(3094-3096)aaC>aaA	p.N1032K	CACNA1A_ENST00000573710.2_Missense_Mutation_p.N1033K	NM_000068.3|NM_001127222.1|NM_001174080.1|NM_023035.2	NP_000059.3|NP_001120694.1|NP_001167551.1|NP_075461.2	O00555	CAC1A_HUMAN	calcium channel, voltage-dependent, P/Q type, alpha 1A subunit	1033					adult walking behavior (GO:0007628)|behavioral response to pain (GO:0048266)|calcium ion import (GO:0070509)|calcium ion-dependent exocytosis (GO:0017156)|calcium ion-dependent exocytosis of neurotransmitter (GO:0048791)|cell death (GO:0008219)|cell growth (GO:0016049)|cellular chloride ion homeostasis (GO:0030644)|cerebellar molecular layer development (GO:0021679)|cerebellar Purkinje cell differentiation (GO:0021702)|cerebellum maturation (GO:0021590)|dendrite morphogenesis (GO:0048813)|energy reserve metabolic process (GO:0006112)|gamma-aminobutyric acid secretion (GO:0014051)|gamma-aminobutyric acid signaling pathway (GO:0007214)|glucose metabolic process (GO:0006006)|hormone metabolic process (GO:0042445)|membrane depolarization (GO:0051899)|membrane depolarization during action potential (GO:0086010)|musculoskeletal movement, spinal reflex action (GO:0050883)|negative regulation of hormone biosynthetic process (GO:0032353)|negative regulation of neuron apoptotic process (GO:0043524)|neuromuscular process controlling balance (GO:0050885)|neuromuscular synaptic transmission (GO:0007274)|neurotransmitter metabolic process (GO:0042133)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|receptor clustering (GO:0043113)|regulation of acetylcholine secretion, neurotransmission (GO:0014056)|regulation of axonogenesis (GO:0050770)|regulation of calcium ion-dependent exocytosis (GO:0017158)|regulation of insulin secretion (GO:0050796)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|spinal cord motor neuron differentiation (GO:0021522)|sulfur amino acid metabolic process (GO:0000096)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transmission of nerve impulse (GO:0019226)|vestibular nucleus development (GO:0021750)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|syntaxin binding (GO:0019905)|voltage-gated calcium channel activity (GO:0005245)			breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(25)|prostate(2)|urinary_tract(1)	42			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Loperamide(DB00836)|Pregabalin(DB00230)|Spironolactone(DB00421)|Verapamil(DB00661)	CGGAGCCCTGGTTCTCTCTGA	0.537																																																0													14	15	15					19																	13397774		1592	3671	5263	SO:0001583	missense	773			U79666	CCDS45998.1, CCDS45999.1	19p13	2014-09-17			ENSG00000141837	ENSG00000141837		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1388	protein-coding gene	gene with protein product		601011		CACNL1A4, SCA6, MHP1, MHP		8825650, 16382099, 23827678	Standard	NM_000068		Approved	Cav2.1, EA2, APCA, HPCA, FHM	uc010xne.2	O00555	OTTHUMG00000044590	ENST00000360228.5:c.3096C>A	19.37:g.13397774G>T	ENSP00000353362:p.Asn1032Lys	Somatic		WXS	Illumina HiSeq	Phase_I	J3KP41|P78510|P78511|Q16290|Q92690|Q99790|Q99791|Q99792|Q99793|Q9NS88|Q9UDC4	Missense_Mutation	SNP	ENST00000360228.5	37	CCDS45998.1	.	.	.	.	.	.	.	.	.	.	G	9.683	1.149864	0.21371	.	.	ENSG00000141837	ENST00000360228;ENST00000418012;ENST00000357018;ENST00000325084	D	0.95447	-3.71	5.19	4.14	0.48551	.	1.040750	0.07642	N	0.930452	D	0.90889	0.7137	L	0.36672	1.1	0.34120	D	0.664068	B;B;B	0.23249	0.051;0.082;0.02	B;B;B	0.18561	0.016;0.022;0.018	T	0.81982	-0.0683	10	0.06236	T	0.91	.	10.3832	0.44123	0.1566:0.0:0.8434:0.0	.	1033;1036;1032	O00555;E9PD31;Q9NS88	CAC1A_HUMAN;.;.	K	1032;1036;1033;1033	ENSP00000353362:N1032K	ENSP00000317661:N1033K	N	-	3	2	CACNA1A	13258774	1.000000	0.71417	0.997000	0.53966	0.653000	0.38743	2.899000	0.48679	2.427000	0.82271	0.555000	0.69702	AAC		0.537	CACNA1A-001	KNOWN	non_canonical_U12|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000104062.2	NM_000068		T	13397774	G	T	13397774	3	4	669	1	0	0	0	0	1	0	0	0	2540	1252	44	4	4638	4	CACNA1A	19	13397774	Missense_Mutation	SNP	G	TCGA-KN-8433-01A-11D-2310-10	480183	13397774	45731209	191	42993										
C19orf44	84167	mdanderson.org	37	chr19	16611835	16611835	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggagtggacccaggcttgccTcatgtagaccgcccaccact	11	15	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:16611835T>C	ENST00000221671.3	+	2	388	c.232T>C	c.(232-234)Tca>Cca	p.S78P	CTD-3222D19.2_ENST00000409035.1_Intron|C19orf44_ENST00000594035.1_Missense_Mutation_p.S78P	NM_032207.2	NP_115583.1	Q9H6X5	CS044_HUMAN	chromosome 19 open reading frame 44	78										endometrium(1)|large_intestine(5)|lung(5)|ovary(1)|skin(1)|stomach(1)|urinary_tract(2)	16						CAGGCTTGCCTCATGTAGACC	0.532																																																0													109	122	117					19																	16611835		2203	4300	6503	SO:0001583	missense	84167			AK025395	CCDS12345.1, CCDS74306.1	19p13.11	2011-11-24			ENSG00000105072	ENSG00000105072			26141	protein-coding gene	gene with protein product						12477932	Standard	NM_032207		Approved	FLJ21742	uc002neh.1	Q9H6X5		ENST00000221671.3:c.232T>C	19.37:g.16611835T>C	ENSP00000221671:p.Ser78Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N6Y7	Missense_Mutation	SNP	ENST00000221671.3	37	CCDS12345.1	.	.	.	.	.	.	.	.	.	.	T	12.81	2.048238	0.36181	.	.	ENSG00000105072	ENST00000221671	.	.	.	3.84	1.66	0.24008	.	0.547731	0.16747	N	0.201199	T	0.53334	0.1790	M	0.65975	2.015	0.09310	N	1	D;D	0.76494	0.999;0.999	D;D	0.72075	0.976;0.976	T	0.40757	-0.9546	9	0.49607	T	0.09	-0.1297	3.1182	0.06382	0.3702:0.1088:0.0:0.521	.	78;78	Q9H6X5;Q9H6X5-2	CS044_HUMAN;.	P	78	.	ENSP00000221671:S78P	S	+	1	0	C19orf44	16472835	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	0.200000	0.17257	-0.008000	0.14320	-0.250000	0.11733	TCA		0.532	C19orf44-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000461218.1	NM_032207		C	16611835	T	C	16611835	3	2	669	1	0	0	0	0	1	0	0	0	1929	1551	54	3	234	3	C19orf44	19	16611835	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	3214061	16611835	42517148	192	42994										
MYO9B	4650	hgsc.bcm.edu	37	chr19	17294679	17294680	+	Splice_Site	INS	-	-	A													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aagcagatcattccaaaggtINSaaaaaaaaaaacacaccccg							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:17294679_17294680insA	ENST00000594824.1	+	16	2520		c.e16+2		MYO9B_ENST00000397274.2_Splice_Site|MYO9B_ENST00000595618.1_Splice_Site			Q13459	MYO9B_HUMAN	myosin IXB						actin filament-based movement (GO:0030048)|establishment of cell polarity (GO:0030010)|lamellipodium morphogenesis (GO:0072673)|macrophage chemotaxis (GO:0048246)|monocyte chemotaxis (GO:0002548)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	actin cytoskeleton (GO:0015629)|cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|filamentous actin (GO:0031941)|filopodium tip (GO:0032433)|lamellipodium (GO:0030027)|membrane (GO:0016020)|myosin complex (GO:0016459)|perinuclear region of cytoplasm (GO:0048471)|ruffle (GO:0001726)	actin binding (GO:0003779)|actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|calmodulin binding (GO:0005516)|microfilament motor activity (GO:0000146)|Rho GTPase activator activity (GO:0005100)|zinc ion binding (GO:0008270)	p.?(2)		breast(3)|endometrium(9)|kidney(2)|large_intestine(1)|lung(19)|soft_tissue(1)|urinary_tract(4)	39						ATTCCAAAGGTAAAAAAAAAAA	0.411																																																2	Unknown(2)	soft_tissue(2)																																								SO:0001630	splice_region_variant	4650				CCDS46010.1	19p13.1	2011-09-27				ENSG00000099331		"Myosins / Myosin superfamily : Class IX"	7609	protein-coding gene	gene with protein product		602129		CELIAC4		9226381	Standard	NM_004145		Approved		uc010eak.3	Q13459		ENST00000594824.1:c.2373+2->A	19.37:g.17294690_17294690dupA		Somatic		WXS	Illumina HiSeq	Phase_I	O75314|Q9NUJ2|Q9UHN0	Splice_Site	INS	ENST00000594824.1	37																																																																																					0.411	MYO9B-002	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000463236.1		Intron	A	17294680	-	A	17294679	8	5	669	1	0	1	1	0	0	0	1	0	10092	1652	57	0	2433	0	MYO9B	19	17294679	Splice_Site	INS	-	TCGA-KN-8433-01A-11D-2310-10	682844	17294679	41834304	193	42995										
ZNF493	284443	mdanderson.org	37	chr19	21606001	21606001	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	acaaaacatactggaaagaaAcctttcaaatgtaaaaaatg	5	6	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:21606001A>G	ENST00000355504.4	+	2	422	c.156A>G	c.(154-156)aaA>aaG	p.K52K	ZNF493_ENST00000392288.2_Silent_p.K180K|CTD-2561J22.3_ENST00000600810.1_Intron	NM_175910.6	NP_787106.4	Q6ZR52	ZN493_HUMAN	zinc finger protein 493	52					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(2)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(10)|ovary(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	30						CTGGAAAGAAACCTTTCAAAT	0.294																																																0													43	48	46					19																	21606001		2199	4290	6489	SO:0001819	synonymous_variant	284443			AK093823, BC006408, BC022394	CCDS12412.1, CCDS42536.1, CCDS12411.1	19p12	2013-01-08			ENSG00000196268	ENSG00000196268		"Zinc fingers, C2H2-type", "-"	23708	protein-coding gene	gene with protein product							Standard	NM_001076678		Approved	FLJ36504	uc002npw.3	Q6ZR52	OTTHUMG00000141297	ENST00000355504.4:c.156A>G	19.37:g.21606001A>G		Somatic		WXS	Illumina HiSeq	Phase_I	G5E974|Q59GM3|Q6ZSF6|Q8N1Z6|Q8N965|Q9BR99	Silent	SNP	ENST00000355504.4	37	CCDS12412.1																																																																																				0.294	ZNF493-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000280563.1	NM_175910		G	21606001	A	G	21606001	2	3	669	1	0	0	0	0	0	0	0	1	17956	40	2	3		3	ZNF493	19	21606001	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	4311322	21606001	37522982	194	42996										
ZNF208	7757	mdanderson.org	37	chr19	22155691	22155691	+	Silent	SNP	A	A	G													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttgtagggtttctctccagtAtgaattctcttatgttccat							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:22155691A>G	ENST00000397126.4	-	4	2293	c.2145T>C	c.(2143-2145)caT>caC	p.H715H	ZNF208_ENST00000601773.1_Intron|ZNF208_ENST00000599916.1_Intron	NM_007153.3	NP_009084.2	O43345	ZN208_HUMAN	zinc finger protein 208	715					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(18)|liver(1)|lung(71)|ovary(6)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	113		all_lung(12;0.0961)|Lung NSC(12;0.103)				TCTCTCCAGTATGAATTCTCT	0.373																																																0													35	37	37					19																	22155691		1993	4170	6163	SO:0001819	synonymous_variant	7757			BC038199	CCDS54240.1	19p12	2013-01-08				ENSG00000160321		"Zinc fingers, C2H2-type", "-"	12999	protein-coding gene	gene with protein product	"zinc finger protein 95"	603977				9724325	Standard	NM_007153		Approved	PMIDP, ZNF95	uc021urr.1	O43345		ENST00000397126.4:c.2145T>C	19.37:g.22155691A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000397126.4	37	CCDS54240.1																																																																																				0.373	ZNF208-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464302.1	NM_007153		G	22155691	A	G	22155691	2	3	669	1	0	0	0	0	0	0	0	1	17778	446	16	3		3	ZNF208	19	22155691	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	549690	22155691	36973292	195	42997	419	2								
ZNF208	7757	mdanderson.org	37	chr19	22155696	22155696	+	Missense_Mutation	SNP	T	T	C													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gggtttctctccagtatgaaTtctcttatgttccataaggt					rs201427226		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:22155696T>C	ENST00000397126.4	-	4	2288	c.2140A>G	c.(2140-2142)Att>Gtt	p.I714V	ZNF208_ENST00000601773.1_Intron|ZNF208_ENST00000599916.1_Intron	NM_007153.3	NP_009084.2	O43345	ZN208_HUMAN	zinc finger protein 208	714					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(18)|liver(1)|lung(71)|ovary(6)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	113		all_lung(12;0.0961)|Lung NSC(12;0.103)				CCAGTATGAATTCTCTTATGT	0.363																																																0													34	36	35					19																	22155696		1994	4182	6176	SO:0001583	missense	7757			BC038199	CCDS54240.1	19p12	2013-01-08				ENSG00000160321		"Zinc fingers, C2H2-type", "-"	12999	protein-coding gene	gene with protein product	"zinc finger protein 95"	603977				9724325	Standard	NM_007153		Approved	PMIDP, ZNF95	uc021urr.1	O43345		ENST00000397126.4:c.2140A>G	19.37:g.22155696T>C	ENSP00000380315:p.Ile714Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000397126.4	37	CCDS54240.1	.	.	.	.	.	.	.	.	.	.	T	10.16	1.273186	0.23221	.	.	ENSG00000160321	ENST00000397126;ENST00000428290	T	0.00986	5.47	1.9	-0.727	0.11166	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.02119	0.0066	.	.	.	0.22001	N	0.999425	D	0.67145	0.996	D	0.63877	0.919	T	0.45673	-0.9245	8	0.36615	T	0.2	.	2.6811	0.05094	0.3914:0.1391:0.0:0.4695	.	614	O43345	ZN208_HUMAN	V	714;614	ENSP00000380315:I714V	ENSP00000380315:I714V	I	-	1	0	ZNF208	21947536	0.000000	0.05858	0.002000	0.10522	0.258000	0.26162	0.170000	0.16663	-0.730000	0.04869	0.232000	0.17820	ATT		0.363	ZNF208-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464302.1	NM_007153		C	22155696	T	C	22155696	3	2	669	1	0	0	0	0	1	0	0	0	17778	1493	52	3	1706	3	ZNF208	19	22155696	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	5	22155696	36973287	196	42998	419	2								
ZNF208	7757	mdanderson.org	37	chr19	22155715	22155715	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	attctcttatgttccataagGtttgaggaccagttgaaagc	9	7	1	2	rs201994264		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:22155715G>A	ENST00000397126.4	-	4	2269	c.2121C>T	c.(2119-2121)aaC>aaT	p.N707N	ZNF208_ENST00000601773.1_Intron|ZNF208_ENST00000599916.1_Intron	NM_007153.3	NP_009084.2	O43345	ZN208_HUMAN	zinc finger protein 208	707					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(18)|liver(1)|lung(71)|ovary(6)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	113		all_lung(12;0.0961)|Lung NSC(12;0.103)				GTTCCATAAGGTTTGAGGACC	0.363																																																0													34	35	35					19																	22155715		1989	4185	6174	SO:0001819	synonymous_variant	7757			BC038199	CCDS54240.1	19p12	2013-01-08				ENSG00000160321		"Zinc fingers, C2H2-type", "-"	12999	protein-coding gene	gene with protein product	"zinc finger protein 95"	603977				9724325	Standard	NM_007153		Approved	PMIDP, ZNF95	uc021urr.1	O43345		ENST00000397126.4:c.2121C>T	19.37:g.22155715G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000397126.4	37	CCDS54240.1																																																																																				0.363	ZNF208-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464302.1	NM_007153		A	22155715	G	A	22155715	2	1	669	1	0	0	0	0	0	0	0	1	17778	1252	44	2		2	ZNF208	19	22155715	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	19	22155715	36973268	197	42999										
ZNF676	163223	mdanderson.org	37	chr19	22363172	22363172	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttgccacattcttcacatttGtagggtttctctccagcatg	7	11	3	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:22363172G>A	ENST00000397121.2	-	3	1664	c.1347C>T	c.(1345-1347)taC>taT	p.Y449Y		NM_001001411.2	NP_001001411.2	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	449					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(49)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	67		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				CTTCACATTTGTAGGGTTTCT	0.438																																																0																																										SO:0001819	synonymous_variant	163223			AK097798	CCDS42539.1	19p12	2013-01-08				ENSG00000196109		"Zinc fingers, C2H2-type"	20429	protein-coding gene	gene with protein product							Standard	NM_001001411		Approved		uc002nqs.1	Q8N7Q3		ENST00000397121.2:c.1347C>T	19.37:g.22363172G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MVX5	Silent	SNP	ENST00000397121.2	37	CCDS42539.1																																																																																				0.438	ZNF676-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464392.1	NM_001001411		A	22363172	G	A	22363172	2	1	669	1	0	0	0	0	0	0	0	1	18095	1372	48	2		2	ZNF676	19	22363172	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	207457	22363172	36765811	198	43000										
ZNF536	9745	mdanderson.org	37	chr19	30936335	30936335	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctcgagtataacctgcagggTcctgggaacatgaaggagaa	13	8	0	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:30936335T>C	ENST00000355537.3	+	2	2013	c.1866T>C	c.(1864-1866)ggT>ggC	p.G622G		NM_014717.1	NP_055532.1	O15090	ZN536_HUMAN	zinc finger protein 536	622					negative regulation of neuron differentiation (GO:0045665)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|retinoic acid-responsive element binding (GO:0044323)			NS(3)|breast(6)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(22)|lung(119)|ovary(7)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(3)	182	Esophageal squamous(110;0.0834)					ACCTGCAGGGTCCTGGGAACA	0.592																																																0													95	106	102					19																	30936335		2203	4300	6503	SO:0001819	synonymous_variant	9745				CCDS32984.1	19q13.11	2013-01-08				ENSG00000198597		"Zinc fingers, C2H2-type"	29025	protein-coding gene	gene with protein product						9205841	Standard	XM_005259445		Approved	KIAA0390	uc002nsu.1	O15090		ENST00000355537.3:c.1866T>C	19.37:g.30936335T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2RU18	Silent	SNP	ENST00000355537.3	37	CCDS32984.1																																																																																				0.592	ZNF536-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459667.2	NM_014717		C	30936335	T	C	30936335	2	2	669	1	0	0	0	0	0	0	0	1	17986	1654	58	3		3	ZNF536	19	30936335	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	8573163	30936335	28192648	199	43001										
KIAA0355	9710	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr19	34818401	34818401	+	Nonsense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttcaacaactcttttgttctCaaagtgcagcaattcctgag	6	10	3	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:34818401C>T	ENST00000299505.6	+	4	1654	c.781C>T	c.(781-783)Caa>Taa	p.Q261*		NM_014686.3	NP_055501.2	O15063	K0355_HUMAN	KIAA0355	261										breast(1)|endometrium(7)|kidney(1)|large_intestine(4)|lung(15)|ovary(2)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	41	Esophageal squamous(110;0.162)					CTTTTGTTCTCAAAGTGCAGC	0.403																																																0													107	116	113					19																	34818401		2203	4300	6503	SO:0001587	stop_gained	9710				CCDS12436.1	19q13.12	2012-11-29			ENSG00000166398	ENSG00000166398			29016	protein-coding gene	gene with protein product						9205841	Standard	NM_014686		Approved		uc002nvd.4	O15063	OTTHUMG00000180505	ENST00000299505.6:c.781C>T	19.37:g.34818401C>T	ENSP00000299505:p.Gln261*	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3W4	Nonsense_Mutation	SNP	ENST00000299505.6	37	CCDS12436.1	.	.	.	.	.	.	.	.	.	.	C	44	11.257385	0.99537	.	.	ENSG00000166398	ENST00000299505	.	.	.	5.46	5.46	0.80206	.	0.120985	0.64402	D	0.000020	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	-23.9959	19.3067	0.94165	0.0:1.0:0.0:0.0	.	.	.	.	X	261	.	ENSP00000299505:Q261X	Q	+	1	0	KIAA0355	39510241	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.775000	0.68915	2.580000	0.87095	0.544000	0.68410	CAA		0.403	KIAA0355-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451678.4	NM_014686		T	34818401	C	T	34818401	4	4	669	1	0	0	0	0	0	1	0	0	8177	827	29	2	791	2	KIAA0355	19	34818401	Nonsense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	3882066	34818401	24310582	200	43002										
COX7A1	1346	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr19	36642385	36642385	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gcccagacacagcgtcattgTcactcggtacaggatgttgt	11	11	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:36642385T>C	ENST00000292907.3	-	3	627	c.166A>G	c.(166-168)Aca>Gca	p.T56A	COX7A1_ENST00000437291.2_5'UTR	NM_001864.2	NP_001855.1	P24310	CX7A1_HUMAN	cytochrome c oxidase subunit VIIa polypeptide 1 (muscle)	56					generation of precursor metabolites and energy (GO:0006091)|hydrogen ion transmembrane transport (GO:1902600)	integral component of membrane (GO:0016021)|mitochondrial respiratory chain (GO:0005746)|mitochondrion (GO:0005739)	cytochrome-c oxidase activity (GO:0004129)			endometrium(2)|large_intestine(1)	3	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			AGCGTCATTGTCACTCGGTAC	0.622																																																0													190	145	160					19																	36642385		2203	4300	6503	SO:0001583	missense	1346			BC002757	CCDS12490.1	19q13.1	2011-07-04			ENSG00000161281	ENSG00000161281	1.9.3.1	"Mitochondrial respiratory chain complex / Complex IV"	2287	protein-coding gene	gene with protein product		123995		COX7A		1327965, 2550906	Standard	NM_001864		Approved	COX7AH	uc002odm.1	P24310	OTTHUMG00000048144	ENST00000292907.3:c.166A>G	19.37:g.36642385T>C	ENSP00000292907:p.Thr56Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000292907.3	37	CCDS12490.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	t|t	19.91|19.91	3.914076|3.914076	0.72983|0.72983	.|.	.|.	ENSG00000161281|ENSG00000161281	ENST00000292907|ENST00000437291	T|.	0.62941|.	-0.01|.	5.22|5.22	5.22|5.22	0.72569|0.72569	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|.	0.41581|.	0.1165|.	.|.	.|.	.|.	0.28372|0.28372	N|N	0.919952|0.919952	D|.	0.76494|.	0.999|.	D|.	0.85130|.	0.997|.	T|.	0.33574|.	-0.9863|.	9|.	0.66056|.	D|.	0.02|.	-15.061|-15.061	11.4831|11.4831	0.50337|0.50337	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	56|.	P24310|.	CX7A1_HUMAN|.	A|W	56|85	ENSP00000292907:T56A|.	ENSP00000292907:T56A|.	T|X	-|-	1|3	0|0	COX7A1|COX7A1	41334225|41334225	0.998000|0.998000	0.40836|0.40836	0.422000|0.422000	0.26621|0.26621	0.003000|0.003000	0.03518|0.03518	3.916000|3.916000	0.56416|0.56416	1.962000|1.962000	0.57031|0.57031	0.520000|0.520000	0.50463|0.50463	ACA|TGA		0.622	COX7A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109545.2	NM_001864		C	36642385	T	C	36642385	3	2	669	1	0	0	0	0	1	0	0	0	3781	1667	58	3	81	3	COX7A1	19	36642385	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	1823984	36642385	22486598	201	43003										
SNRPA	6626	mdanderson.org	37	chr19	41269564	41269564	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	agaccaacgagctcatgctgTccatgcttttcaatcagtaa	7	11	3	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:41269564T>C	ENST00000243563.3	+	5	1223	c.673T>C	c.(673-675)Tcc>Ccc	p.S225P		NM_004596.4	NP_004587.1	P09012	SNRPA_HUMAN	small nuclear ribonucleoprotein polypeptide A	225	RRM 2. {ECO:0000255|PROSITE- ProRule:PRU00176}.				gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)|U1 snRNP (GO:0005685)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|snRNA binding (GO:0017069)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|ovary(1)|prostate(1)|skin(2)	10			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			GCTCATGCTGTCCATGCTTTT	0.567																																																0													179	155	163					19																	41269564		2203	4300	6503	SO:0001583	missense	6626			X06347	CCDS12565.1	19q13.1	2013-02-12				ENSG00000077312		"RNA binding motif (RRM) containing"	11151	protein-coding gene	gene with protein product		182285				1701111	Standard	NM_004596		Approved	U1A, U1-A, Mud1	uc002ooz.3	P09012		ENST00000243563.3:c.673T>C	19.37:g.41269564T>C	ENSP00000243563:p.Ser225Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000243563.3	37	CCDS12565.1	.	.	.	.	.	.	.	.	.	.	T	27.1	4.798304	0.90538	.	.	ENSG00000077312	ENST00000243563;ENST00000545469	T	0.17054	2.3	5.73	5.73	0.89815	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.120404	0.56097	D	0.000023	T	0.50667	0.1629	M	0.91972	3.26	0.80722	D	1	D	0.69078	0.997	D	0.79108	0.992	T	0.60959	-0.7159	10	0.59425	D	0.04	-28.1748	15.0072	0.71522	0.0:0.0:0.0:1.0	.	225	P09012	SNRPA_HUMAN	P	225;146	ENSP00000243563:S225P	ENSP00000243563:S225P	S	+	1	0	SNRPA	45961404	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.644000	0.67902	2.184000	0.69523	0.482000	0.46254	TCC		0.567	SNRPA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463118.2	NM_004596		C	41269564	T	C	41269564	3	2	669	1	0	0	0	0	1	0	0	0	14872	1667	58	3	691	3	SNRPA	19	41269564	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	4627179	41269564	17859419	202	43004										
PVRL2	5819	mdanderson.org	37	chr19	45391603	45391603	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tctgattcctaccagggcaaAggctttgtcatgtcccgggc	11	12	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:45391603A>G	ENST00000252483.5	+	9	1584	c.1584A>G	c.(1582-1584)aaA>aaG	p.K528K	TOMM40_ENST00000592434.1_5'Flank|CTB-129P6.4_ENST00000585408.1_RNA|TOMM40_ENST00000252487.5_5'Flank|TOMM40_ENST00000426677.2_5'Flank|TOMM40_ENST00000405636.2_5'Flank	NM_001042724.1	NP_001036189.1	Q92692	PVRL2_HUMAN	poliovirus receptor-related 2 (herpesvirus entry mediator B)	528					acrosome assembly (GO:0001675)|adherens junction organization (GO:0034332)|adhesion of symbiont to host (GO:0044406)|cell junction assembly (GO:0034329)|cell part morphogenesis (GO:0032990)|cell-cell junction organization (GO:0045216)|cilium organization (GO:0044782)|coreceptor-mediated virion attachment to host cell (GO:0046814)|cytoskeleton organization (GO:0007010)|establishment of mitochondrion localization (GO:0051654)|fertilization (GO:0009566)|fusion of virus membrane with host plasma membrane (GO:0019064)|homophilic cell adhesion (GO:0007156)|positive regulation of immunoglobulin mediated immune response (GO:0002891)|positive regulation of mast cell activation (GO:0033005)|positive regulation of natural killer cell mediated cytotoxicity (GO:0045954)|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target (GO:0002860)|regulation of immune response (GO:0050776)|signal transduction (GO:0007165)|sperm mitochondrion organization (GO:0030382)|spermatid development (GO:0007286)|spermatid nucleus differentiation (GO:0007289)|susceptibility to natural killer cell mediated cytotoxicity (GO:0042271)|susceptibility to T cell mediated cytotoxicity (GO:0060370)	cell surface (GO:0009986)|cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|zonula adherens (GO:0005915)	cell adhesion molecule binding (GO:0050839)|coreceptor activity (GO:0015026)|identical protein binding (GO:0042802)|protein homodimerization activity (GO:0042803)|virus receptor activity (GO:0001618)			breast(1)|endometrium(1)|large_intestine(6)|lung(5)	13	Lung NSC(12;0.00195)|all_lung(12;0.00522)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0143)		ACCAGGGCAAAGGCTTTGTCA	0.532																																																0													90	85	87					19																	45391603		1982	4161	6143	SO:0001819	synonymous_variant	5819			X80038	CCDS12645.1, CCDS42576.1	19q13.32	2013-01-29			ENSG00000130202	ENSG00000130202		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9707	protein-coding gene	gene with protein product		600798		HVEB		7622062, 10196354	Standard	NM_001042724		Approved	PVRR2, PRR2, CD112	uc002ozw.1	Q92692	OTTHUMG00000180839	ENST00000252483.5:c.1584A>G	19.37:g.45391603A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5L5|O75455|Q6IBI6|Q96J29	Silent	SNP	ENST00000252483.5	37	CCDS42576.1																																																																																				0.532	PVRL2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000453231.1	NM_002856		G	45391603	A	G	45391603	2	3	669	1	0	0	0	0	0	0	0	1	12853	69	3	3		3	PVRL2	19	45391603	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	4122039	45391603	13737380	203	43005										
LILRB3	11025	mdanderson.org	37	chr19	54725992	54725992	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	agggctgagagggtgggtttGctgtaggctcctaggagaga	19	5	0	2	rs148339740	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:54725992G>A	ENST00000391750.1	-	5	502	c.366C>T	c.(364-366)agC>agT	p.S122S	LILRB3_ENST00000469273.1_5'Flank|LILRA6_ENST00000270464.5_Intron|LILRB3_ENST00000407860.2_Silent_p.S122S|LILRA6_ENST00000440558.2_Intron|LILRA6_ENST00000419410.2_Intron|LILRA6_ENST00000391735.3_Intron|LILRB3_ENST00000245620.9_Silent_p.S122S|LILRB3_ENST00000346401.6_Silent_p.S122S|LILRB3_ENST00000424807.1_Silent_p.S122S|CTB-83J4.1_ENST00000601161.1_lincRNA			O75022	LIRB3_HUMAN	leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3	122	Ig-like C2-type 2.		S -> N (in dbSNP:rs3826750). {ECO:0000269|PubMed:9278324}.		cell surface receptor signaling pathway (GO:0007166)|defense response (GO:0006952)|immune system process (GO:0002376)|negative regulation of osteoclast differentiation (GO:0045671)	integral component of plasma membrane (GO:0005887)	receptor activity (GO:0004872)|transmembrane signaling receptor activity (GO:0004888)			endometrium(3)|kidney(13)|large_intestine(1)|lung(6)|ovary(2)|prostate(5)|skin(2)|stomach(1)|urinary_tract(1)	34	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)		GGGTGGGTTTGCTGTAGGCTC	0.592													.|||	959	0.191494	0.1029	0.1744	5008	,	,		13407	0.1071		0.2495	False		,,,				2504	0.3507															0													62	40	48					19																	54725992		2132	3919	6051	SO:0001819	synonymous_variant	11025			U91928	CCDS33105.1, CCDS46175.1	19q13.4	2013-01-11			ENSG00000204577	ENSG00000204577		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6607	protein-coding gene	gene with protein product		604820				9278324, 9382880	Standard	NM_006864		Approved	LIR-3, HL9, ILT5, LIR3, CD85a	uc002qee.1	O75022	OTTHUMG00000066626	ENST00000391750.1:c.366C>T	19.37:g.54725992G>A		Somatic		WXS	Illumina HiSeq	Phase_I	C9J1P3|C9JIP1|O15471|Q86U49	Silent	SNP	ENST00000391750.1	37	CCDS33105.1																																																																																				0.592	LILRB3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000142844.5	NM_006864		A	54725992	G	A	54725992	2	1	669	1	0	0	0	0	0	0	0	1	8799	1310	46	2		2	LILRB3	19	54725992	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	9334389	54725992	4402991	204	43006										
LILRB2	10288	mdanderson.org	37	chr19	54778570	54778570	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	agggtggcgtagatgctgggCtcagctggaggttccctttc	16	9	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:54778570C>T	ENST00000391749.4	-	14	2035	c.1764G>A	c.(1762-1764)gaG>gaA	p.E588E	LILRB2_ENST00000391748.1_Silent_p.E587E|LILRB2_ENST00000391746.1_3'UTR|LILRB2_ENST00000434421.1_Silent_p.E472E|LILRB2_ENST00000314446.5_Silent_p.E587E	NM_001278406.1	NP_001265335.1	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 2	588					cell surface receptor signaling pathway (GO:0007166)|cell-cell signaling (GO:0007267)|cellular defense response (GO:0006968)|cellular response to lipopolysaccharide (GO:0071222)|Fc receptor mediated inhibitory signaling pathway (GO:0002774)|heterotypic cell-cell adhesion (GO:0034113)|immune response (GO:0006955)|immune response-inhibiting cell surface receptor signaling pathway (GO:0002767)|negative regulation of antigen processing and presentation (GO:0002578)|negative regulation of calcium ion transport (GO:0051926)|negative regulation of T cell proliferation (GO:0042130)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of regulatory T cell differentiation (GO:0045591)|positive regulation of T cell proliferation (GO:0042102)|positive regulation of T cell tolerance induction (GO:0002666)|regulation of dendritic cell differentiation (GO:2001198)|regulation of immune response (GO:0050776)|signal transduction (GO:0007165)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	cell adhesion molecule binding (GO:0050839)|inhibitory MHC class I receptor activity (GO:0032396)|MHC class I protein binding (GO:0042288)|MHC class Ib protein binding (GO:0023029)|protein phosphatase 1 binding (GO:0008157)|receptor activity (GO:0004872)			breast(2)|endometrium(3)|kidney(1)|large_intestine(4)|lung(30)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	44	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		AGATGCTGGGCTCAGCTGGAG	0.617																																																0													132	114	120					19																	54778570		2203	4300	6503	SO:0001819	synonymous_variant	10288			AF000574	CCDS12886.1, CCDS42612.1, CCDS62791.1, CCDS62792.1	19q13.4	2013-01-11			ENSG00000131042	ENSG00000131042		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6606	protein-coding gene	gene with protein product		604815				9151699, 9079806	Standard	XM_006722966		Approved	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10	uc002qfb.3	Q8N423	OTTHUMG00000064896	ENST00000391749.4:c.1764G>A	19.37:g.54778570C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MU67|C9JF29|O75017|Q8NHJ7|Q8NHJ8	Silent	SNP	ENST00000391749.4	37	CCDS12886.1																																																																																				0.617	LILRB2-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000139510.1			T	54778570	C	T	54778570	2	4	669	1	0	0	0	0	0	0	0	1	8798	796	28	2		2	LILRB2	19	54778570	Silent	SNP	C	TCGA-KN-8433-01A-11D-2310-10	52578	54778570	4350413	205	43007										
LILRB1	10859	mdanderson.org	37	chr19	55148076	55148076	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gacacaaaggacagacaggcGgaagaggacaggcagatgga	16	7	0	3	rs62133433	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:55148076G>A	ENST00000396331.1	+	15	2136	c.1779G>A	c.(1777-1779)gcG>gcA	p.A593A	LILRB1_ENST00000418536.2_Silent_p.A577A|LILRB1_ENST00000396317.1_Silent_p.A577A|LILRB1_ENST00000462628.1_3'UTR|LILRB1_ENST00000434867.2_Silent_p.A593A|AC009892.10_ENST00000456337.1_Intron|LILRB1_ENST00000396321.2_Silent_p.A593A|LILRB1_ENST00000324602.7_Silent_p.A595A|LILRB1_ENST00000427581.2_Silent_p.A644A|LILRB1_ENST00000448689.1_3'UTR|LILRB1_ENST00000396315.1_Silent_p.A595A|LILRB1_ENST00000396332.4_Silent_p.A594A|LILRB1_ENST00000396327.3_Silent_p.A594A	NM_006669.3	NP_006660.3	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 1	593					cellular response to lipopolysaccharide (GO:0071222)|defense response to virus (GO:0051607)|dendritic cell differentiation (GO:0097028)|Fc receptor mediated inhibitory signaling pathway (GO:0002774)|immune response-inhibiting cell surface receptor signaling pathway (GO:0002767)|interferon-gamma production (GO:0032609)|interferon-gamma secretion (GO:0072643)|negative regulation of alpha-beta T cell activation (GO:0046636)|negative regulation of calcium ion transport (GO:0051926)|negative regulation of CD8-positive, alpha-beta T cell activation (GO:2001186)|negative regulation of cell cycle (GO:0045786)|negative regulation of cytokine secretion involved in immune response (GO:0002740)|negative regulation of dendritic cell apoptotic process (GO:2000669)|negative regulation of dendritic cell differentiation (GO:2001199)|negative regulation of endocytosis (GO:0045806)|negative regulation of interferon-beta secretion (GO:0035548)|negative regulation of interferon-gamma biosynthetic process (GO:0045077)|negative regulation of interferon-gamma production (GO:0032689)|negative regulation of interleukin-10 secretion (GO:2001180)|negative regulation of interleukin-12 secretion (GO:2001183)|negative regulation of mononuclear cell proliferation (GO:0032945)|negative regulation of natural killer cell mediated cytotoxicity (GO:0045953)|negative regulation of osteoclast development (GO:2001205)|negative regulation of serotonin secretion (GO:0014063)|negative regulation of T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell (GO:2001189)|negative regulation of T cell mediated cytotoxicity (GO:0001915)|negative regulation of T cell proliferation (GO:0042130)|negative regulation of transforming growth factor-beta secretion (GO:2001202)|negative regulation of tumor necrosis factor biosynthetic process (GO:0042536)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cytolysis (GO:0045919)|positive regulation of defense response to virus by host (GO:0002230)|positive regulation of gamma-delta T cell activation involved in immune response (GO:2001193)|positive regulation of gene expression (GO:0010628)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|receptor internalization (GO:0031623)|regulation of immune response (GO:0050776)|response to virus (GO:0009615)|signal transduction (GO:0007165)|T cell proliferation involved in immune response (GO:0002309)	cytoplasm (GO:0005737)|external side of plasma membrane (GO:0009897)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	HLA-A specific inhibitory MHC class I receptor activity (GO:0030107)|HLA-B specific inhibitory MHC class I receptor activity (GO:0030109)|MHC class I protein binding (GO:0042288)|MHC class I receptor activity (GO:0032393)|protein homodimerization activity (GO:0042803)|protein phosphatase 1 binding (GO:0008157)|SH2 domain binding (GO:0042169)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(13)|lung(38)|ovary(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	74				GBM - Glioblastoma multiforme(193;0.0188)		ACAGACAGGCGGAAGAGGACA	0.602										HNSCC(37;0.09)																																						0								G	,,,	84,4312	22.3+/-47.3	7,70,2121	98	83	88		1785,1782,1782,1779	-2.6	0	19	dbSNP_129	88	77,8511	6.4+/-24.3	3,71,4220	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	LILRB1	NM_001081637.1,NM_001081638.1,NM_001081639.1,NM_006669.3	,,,	10,141,6341	AA,AG,GG		0.8966,1.9108,1.24	,,,	595/653,594/652,594/652,593/651	55148076	161,12823	2198	4294	6492	SO:0001819	synonymous_variant	10859			AF009220	CCDS42614.1, CCDS42615.1, CCDS42616.1, CCDS42617.1, CCDS62803.1	19q13.4	2013-01-11						"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6605	protein-coding gene	gene with protein product		604811				9285411, 9382880	Standard	XM_006726246		Approved	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j	uc002qgm.3	Q8NHL6		ENST00000396331.1:c.1779G>A	19.37:g.55148076G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2IXV4|A8MXT0|O75024|O75025|Q8NHJ9|Q8NHK0	Silent	SNP	ENST00000396331.1	37	CCDS42617.1																																																																																				0.602	LILRB1-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000140796.4			A	55148076	G	A	55148076	2	1	669	1	0	0	0	0	0	0	0	1	8797	1103	39	1		1	LILRB1	19	55148076	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	369506	55148076	3980907	206	43008										
LILRB4	11006	mdanderson.org	37	chr19	55179145	55179145	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gccaaggtgaaacactccagAcctaggagagaaatggcctc	11	11	0	3	rs61738946	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:55179145A>T	ENST00000391736.1	+	13	1416	c.1101A>T	c.(1099-1101)agA>agT	p.R367S	LILRB4_ENST00000430952.2_Missense_Mutation_p.R366S|LILRB4_ENST00000391733.3_Missense_Mutation_p.R368S|LILRB4_ENST00000270452.2_Missense_Mutation_p.R367S|LILRB4_ENST00000391734.3_Intron	NM_001278426.2|NM_001278428.2|NM_001278429.2|NM_001278430.2	NP_001265355.1|NP_001265357.1|NP_001265358.1|NP_001265359.1	Q8NHJ6	LIRB4_HUMAN	leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 4	367					immune system process (GO:0002376)|negative regulation of osteoclast differentiation (GO:0045671)|signal transduction (GO:0007165)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	antigen binding (GO:0003823)|receptor activity (GO:0004872)			breast(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(20)|ovary(3)|skin(1)|stomach(2)|upper_aerodigestive_tract(3)	39				GBM - Glioblastoma multiforme(193;0.035)		AACACTCCAGACCTAGGAGAG	0.567																																																0													116	118	117					19																	55179145		2203	4300	6503	SO:0001583	missense	11006			U82979	CCDS12902.1, CCDS42618.1	19q13.4	2013-01-11				ENSG00000186818		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6608	protein-coding gene	gene with protein product		604821				9151699, 9079806	Standard	XM_005277050		Approved	LIR-5, ILT3, HM18, LIR5, CD85k	uc002qgp.3	Q8NHJ6		ENST00000391736.1:c.1101A>T	19.37:g.55179145A>T	ENSP00000375616:p.Arg367Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8MVL8|O15468|O75021|Q6FGQ9|Q8N1C7|Q8NHL5	Missense_Mutation	SNP	ENST00000391736.1	37	CCDS12902.1	23	0.010531135531135532	16	0.032520325203252036	2	0.0055248618784530384	0	0.0	5	0.006596306068601583	A	6.892	0.534167	0.13188	.	.	ENSG00000186818	ENST00000391736;ENST00000270452;ENST00000430952;ENST00000391733;ENST00000434286	T;T;T;T;T	0.00505	6.93;6.93;7.0;6.94;6.93	1.73	1.73	0.24493	.	.	.	.	.	T	0.00144	0.0004	L	0.41710	1.295	0.09310	N	1	B;B;B;B	0.23490	0.002;0.086;0.086;0.043	B;B;B;B	0.12837	0.0;0.008;0.008;0.007	T	0.40627	-0.9553	9	0.27785	T	0.31	.	5.5252	0.16955	1.0:0.0:0.0:0.0	rs61738946	366;368;366;367	C9JST2;Q8NHJ6-3;Q8NHJ6-2;Q8NHJ6	.;.;.;LIRB4_HUMAN	S	367;367;366;368;366	ENSP00000375616:R367S;ENSP00000270452:R367S;ENSP00000408995:R366S;ENSP00000375613:R368S;ENSP00000401962:R366S	ENSP00000270452:R367S	R	+	3	2	LILRB4	59870957	0.002000	0.14202	0.018000	0.16275	0.021000	0.10359	0.274000	0.18680	1.054000	0.40438	0.459000	0.35465	AGA		0.567	LILRB4-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000141127.3			T	55179145	A	T	55179145	3	4	669	1	0	0	0	0	1	0	0	0	8800	272	10	5	1143	5	LILRB4	19	55179145	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	31069	55179145	3949838	207	43009										
ZSCAN5A	79149	mdanderson.org	37	chr19	56734014	56734014	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cagtcctgggttctcttcccTgttttccttcagatccttct	6	14	3	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:56734014T>C	ENST00000587340.1	-	6	1380	c.685A>G	c.(685-687)Agg>Ggg	p.R229G	ZSCAN5A_ENST00000592355.1_Missense_Mutation_p.R229G|ZSCAN5A_ENST00000391713.1_Missense_Mutation_p.R229G|ZSCAN5A_ENST00000254165.3_Missense_Mutation_p.R112G|ZSCAN5A_ENST00000587492.1_Missense_Mutation_p.R83G			Q9BUG6	ZSA5A_HUMAN	zinc finger and SCAN domain containing 5A	229					regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)			autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(5)|liver(1)|lung(12)|ovary(1)|skin(6)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	37						TTCTCTTCCCTGTTTTCCTTC	0.507																																																0													210	180	190					19																	56734014		2203	4300	6503	SO:0001583	missense	79149			AK098700	CCDS12941.1	19q13.43	2013-01-08	2008-06-10	2008-06-10	ENSG00000131848	ENSG00000131848		"-", "Zinc fingers, C2H2-type"	23710	protein-coding gene	gene with protein product			"zinc finger protein 495", "zinc finger and SCAN domain containing 5"	ZNF495, ZSCAN5			Standard	NM_024303		Approved	MGC4161	uc002qmq.3	Q9BUG6		ENST00000587340.1:c.685A>G	19.37:g.56734014T>C	ENSP00000467631:p.Arg229Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DX98|Q49A73|Q53F04|Q8N7B3	Missense_Mutation	SNP	ENST00000587340.1	37	CCDS12941.1	.	.	.	.	.	.	.	.	.	.	T	7.264	0.605783	0.14002	.	.	ENSG00000131848	ENST00000391713;ENST00000254165	T;T	0.06608	3.28;3.28	2.27	-3.83	0.04269	.	.	.	.	.	T	0.06554	0.0168	M	0.69823	2.125	0.09310	N	1	B;B	0.27229	0.172;0.104	B;B	0.25140	0.058;0.058	T	0.39860	-0.9593	9	0.72032	D	0.01	.	0.4792	0.00545	0.1989:0.3173:0.2012:0.2827	.	112;229	B4DX98;Q9BUG6	.;ZSA5A_HUMAN	G	229;112	ENSP00000375593:R229G;ENSP00000254165:R112G	ENSP00000254165:R112G	R	-	1	2	ZSCAN5A	61425826	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.540000	0.06106	-1.082000	0.03101	-0.366000	0.07423	AGG		0.507	ZSCAN5A-004	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000458110.1	NM_024303		C	56734014	T	C	56734014	3	2	669	1	0	0	0	0	1	0	0	0	18250	1579	55	3	813	3	ZSCAN5A	19	56734014	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	1554869	56734014	2394969	208	43010										
ZNF17	7565	mdanderson.org	37	chr19	57931172	57931172	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cacctggctgagcatgacggAacacaccccaagcgtacagc	10	15	0	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr19:57931172A>G	ENST00000601808.1	+	3	525	c.312A>G	c.(310-312)ggA>ggG	p.G104G	ZNF17_ENST00000307658.7_Silent_p.G106G|AC004076.7_ENST00000597410.1_Intron|AC003002.6_ENST00000596400.1_Silent_p.G116G|ZNF17_ENST00000595206.1_3'UTR	NM_006959.2	NP_008890.2	P17021	ZNF17_HUMAN	zinc finger protein 17	104					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(3)|lung(6)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	16		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0234)|GBM - Glioblastoma multiforme(193;0.000426)|Lung(386;0.176)		AGCATGACGGAACACACCCCA	0.507																																					Melanoma(149;1637 1853 29914 42869 44988)											0													132	129	130					19																	57931172		2203	4300	6503	SO:0001819	synonymous_variant	7565			X52341	CCDS42636.1	19q13.43	2013-01-08	2006-05-10			ENSG00000186272		"Zinc fingers, C2H2-type", "-"	12958	protein-coding gene	gene with protein product			"zinc finger protein 17 (HPF3, KOX 10)"			2115127, 2014798	Standard	NM_006959		Approved	HPF3, KOX10, KIAA1947, FLJ40864, FLJ46058, FLJ46615	uc002qoo.1	P17021		ENST00000601808.1:c.312A>G	19.37:g.57931172A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KXU2|B3KY20|Q8N7M1|Q8N893|Q8TF54	Silent	SNP	ENST00000601808.1	37	CCDS42636.1																																																																																				0.507	ZNF17-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000466384.1	NM_006959		G	57931172	A	G	57931172	2	3	669	1	0	0	0	0	0	0	0	1	17755	233	9	3		3	ZNF17	19	57931172	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	1197158	57931172	1197811	209	43011										
POFUT1	23509	mdanderson.org	37	chr20	30804433	30804433	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aaggaaacccctttggcccaTtctgggatcagtttcatgtg	10	10	3	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr20:30804433T>C	ENST00000375749.3	+	4	513	c.451T>C	c.(451-453)Ttc>Ctc	p.F151L	POFUT1_ENST00000486717.1_3'UTR|POFUT1_ENST00000375730.3_Missense_Mutation_p.F151L|POFUT1_ENST00000539210.1_Intron	NM_015352.1	NP_056167.1	Q9H488	OFUT1_HUMAN	protein O-fucosyltransferase 1	151					angiogenesis (GO:0001525)|embryo development (GO:0009790)|fucose metabolic process (GO:0006004)|heart development (GO:0007507)|nervous system development (GO:0007399)|Notch signaling pathway (GO:0007219)|O-glycan processing (GO:0016266)|protein O-linked fucosylation (GO:0036066)|protein O-linked glycosylation (GO:0006493)|regulation of transcription, DNA-templated (GO:0006355)|somitogenesis (GO:0001756)	endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)	fucosyltransferase activity (GO:0008417)|peptide-O-fucosyltransferase activity (GO:0046922)			breast(1)|endometrium(1)|large_intestine(1)|lung(2)|urinary_tract(1)	6			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CTTTGGCCCATTCTGGGATCA	0.507																																																0													117	112	114					20																	30804433		2203	4300	6503	SO:0001583	missense	23509			AF375884	CCDS13198.1, CCDS13199.1	20q11	2013-03-06			ENSG00000101346	ENSG00000101346	2.4.1.221	"Fucosyltransferases"	14988	protein-coding gene	gene with protein product	"peptide-O-fucosyltransferase", "GDP-fucose protein O-fucosyltransferase 1"	607491				9023546, 9525914	Standard	NM_015352		Approved	O-FUT, O-Fuc-T, KIAA0180, FUT12	uc002wxp.3	Q9H488	OTTHUMG00000133268	ENST00000375749.3:c.451T>C	20.37:g.30804433T>C	ENSP00000364902:p.Phe151Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4R8|E1P5M4|Q14685|Q5W185|Q9BW76	Missense_Mutation	SNP	ENST00000375749.3	37	CCDS13198.1	.	.	.	.	.	.	.	.	.	.	T	33	5.197325	0.94960	.	.	ENSG00000101346	ENST00000375749;ENST00000375730	T;T	0.31510	1.49;1.49	5.83	5.83	0.93111	.	0.000000	0.85682	D	0.000000	T	0.65112	0.2660	M	0.90870	3.155	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.85130	0.997;0.996	T	0.73975	-0.3813	10	0.87932	D	0	.	16.2041	0.82108	0.0:0.0:0.0:1.0	.	151;151	Q9H488;Q9H488-2	OFUT1_HUMAN;.	L	151	ENSP00000364902:F151L;ENSP00000364882:F151L	ENSP00000364882:F151L	F	+	1	0	POFUT1	30268094	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.444000	0.80532	2.219000	0.72066	0.533000	0.62120	TTC		0.507	POFUT1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078613.1	NM_015352		C	30804433	T	C	30804433	3	2	669	1	0	0	0	0	1	0	0	0	12190	1493	52	3	465	3	POFUT1	20	30804433	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10		30804433	32221087	210	43012										
SLA2	84174	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr20	35262937	35262937	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ccgagtctcagcgacagctcGgccgggccacctgccgggaa	14	16	1	0	rs374910927		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr20:35262937G>A	ENST00000262866.4	-	3	569	c.147C>T	c.(145-147)gcC>gcT	p.A49A	SLA2_ENST00000360672.2_Silent_p.A49A	NM_032214.3|NM_175077.2	NP_115590.1|NP_778252.1	Q9H6Q3	SLAP2_HUMAN	Src-like-adaptor 2	49	SH3. {ECO:0000255|PROSITE- ProRule:PRU00192}.				antigen receptor-mediated signaling pathway (GO:0050851)|B cell mediated immunity (GO:0019724)|intracellular receptor signaling pathway (GO:0030522)|negative regulation of B cell activation (GO:0050869)|negative regulation of calcium-mediated signaling (GO:0050849)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of signal transduction (GO:0009967)|regulation of immune response (GO:0050776)|T cell activation (GO:0042110)	cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|endosome membrane (GO:0010008)|late endosome (GO:0005770)|plasma membrane (GO:0005886)	protein N-terminus binding (GO:0047485)|SH3/SH2 adaptor activity (GO:0005070)			endometrium(1)|lung(2)|skin(2)	5	Breast(12;0.114)	Myeloproliferative disorder(115;0.00878)				GCGACAGCTCGGCCGGGCCAC	0.577																																					Ovarian(59;720 1165 26994 46188 51693)											0								G	,	0,4406		0,0,2203	46	43	44		147,147	-2.4	0.1	20		44	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous,coding-synonymous	SLA2	NM_032214.2,NM_175077.1	,	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	,	49/262,49/211	35262937	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	84174			AF326353	CCDS13282.1, CCDS13283.1	20q11.23	2013-02-14			ENSG00000101082	ENSG00000101082		"SH2 domain containing"	17329	protein-coding gene	gene with protein product		606577		C20orf156		11696592	Standard	NM_032214		Approved	FLJ21992, SLAP-2	uc002xfv.3	Q9H6Q3	OTTHUMG00000032393	ENST00000262866.4:c.147C>T	20.37:g.35262937G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K648|E1P5U1|E1P5U2|Q5TH27|Q5TH28|Q8WY18|Q96QI4|Q9H135	Silent	SNP	ENST00000262866.4	37	CCDS13282.1																																																																																				0.577	SLA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079037.2	NM_175077		A	35262937	G	A	35262937	2	1	669	1	0	0	0	0	0	0	0	1	14377	1103	39	1		1	SLA2	20	35262937	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	4458504	35262937	27762583	211	43013										
ZNF334	55713	mdanderson.org	37	chr20	45131515	45131515	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aatctttctgttttctttgcTtttctttgcaacaattactt	3	8	4	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr20:45131515T>C	ENST00000347606.4	-	5	645	c.463A>G	c.(463-465)Agc>Ggc	p.S155G	ZNF334_ENST00000593880.1_Missense_Mutation_p.S178G|ZNF334_ENST00000457685.2_Missense_Mutation_p.S117G	NM_018102.4	NP_060572.3	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334	155					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(2)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(8)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	32		Myeloproliferative disorder(115;0.0122)				TTTTCTTTGCTTTTCTTTGCA	0.353																																																0													116	103	107					20																	45131515		2202	4300	6502	SO:0001583	missense	55713			AK001331	CCDS33480.1, CCDS74736.1	20q13.12	2013-09-20			ENSG00000198185	ENSG00000198185		"Zinc fingers, C2H2-type", "-"	15806	protein-coding gene	gene with protein product							Standard	NM_018102		Approved	bA179N14.1	uc002xsc.4	Q9HCZ1	OTTHUMG00000032654	ENST00000347606.4:c.463A>G	20.37:g.45131515T>C	ENSP00000255129:p.Ser155Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6U2|Q9NVW4	Missense_Mutation	SNP	ENST00000347606.4	37	CCDS33480.1	.	.	.	.	.	.	.	.	.	.	T	13.26	2.184182	0.38609	.	.	ENSG00000198185	ENST00000457685;ENST00000347606	T;T	0.08896	3.27;3.04	2.96	2.96	0.34315	.	.	.	.	.	T	0.07458	0.0188	L	0.39467	1.215	0.22127	N	0.99934	B;B;B	0.20887	0.049;0.027;0.049	B;B;B	0.22386	0.027;0.027;0.039	T	0.28681	-1.0036	9	0.34782	T	0.22	.	6.2248	0.20701	0.0:0.0:0.2596:0.7404	.	117;155;178	B3KQ93;Q9HCZ1;Q8N3P8	.;ZN334_HUMAN;.	G	117;155	ENSP00000402582:S117G;ENSP00000255129:S155G	ENSP00000255129:S155G	S	-	1	0	ZNF334	44564922	0.149000	0.22717	0.692000	0.30179	0.677000	0.39632	0.787000	0.26858	1.360000	0.45960	0.260000	0.18958	AGC		0.353	ZNF334-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079575.1			C	45131515	T	C	45131515	3	2	669	1	0	0	0	0	1	0	0	0	17863	1609	56	3	1583	3	ZNF334	20	45131515	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	9868578	45131515	17894005	212	43014										
PFDN4	5203	mdanderson.org	37	chr20	52830988	52830988	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gagctgaaggaagaaatagaAgtaaaaaaggtattgaaaat	11	1	0	4			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr20:52830988A>G	ENST00000371419.2	+	2	377	c.123A>G	c.(121-123)gaA>gaG	p.E41E	PFDN4_ENST00000487129.1_3'UTR	NM_002623.3	NP_002614.2	Q9NQP4	PFD4_HUMAN	prefoldin subunit 4	41					'de novo' posttranslational protein folding (GO:0051084)|cellular protein metabolic process (GO:0044267)|protein folding (GO:0006457)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|prefoldin complex (GO:0016272)	chaperone binding (GO:0051087)			endometrium(1)|kidney(2)	3	Lung NSC(4;1.08e-05)|all_lung(4;2.7e-05)		Colorectal(105;0.124)|STAD - Stomach adenocarcinoma(23;0.206)			AAGAAATAGAAGTAAAAAAGG	0.284																																																0													20	19	20					20																	52830988		2202	4291	6493	SO:0001819	synonymous_variant	5203			U41816	CCDS13445.1	20q13.2	2008-07-02	2006-02-24		ENSG00000101132	ENSG00000101132			8868	protein-coding gene	gene with protein product		604898	"prefoldin 4"			9630229, 8744932	Standard	NM_002623		Approved	PFD4, C-1, C1	uc002xwx.3	Q9NQP4	OTTHUMG00000032775	ENST00000371419.2:c.123A>G	20.37:g.52830988A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TD11|Q92779	Silent	SNP	ENST00000371419.2	37	CCDS13445.1																																																																																				0.284	PFDN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079771.2	NM_002623		G	52830988	A	G	52830988	2	3	669	1	0	0	0	0	0	0	0	1	11764	69	3	3		3	PFDN4	20	52830988	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	7699473	52830988	10194532	213	43015										
UCKL1	54963	broad.mit.edu	37	chr20	62576011	62576011	+	Frame_Shift_Del	DEL	T	T	-													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cctcgatgtcccggccgcgcTcactgatgtcccggcgcagc							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr20:62576011delT	ENST00000354216.6	-	6	773	c.731delA	c.(730-732)gagfs	p.E244fs	UCKL1_ENST00000369892.3_Frame_Shift_Del_p.E244fs|UCKL1_ENST00000369908.5_Frame_Shift_Del_p.E229fs|UCKL1_ENST00000492660.1_5'Flank|MIR647_ENST00000384823.1_RNA|UCKL1_ENST00000358711.3_Frame_Shift_Del_p.E244fs	NM_017859.3	NP_060329.2	Q9NWZ5	UCKL1_HUMAN	uridine-cytidine kinase 1-like 1	244					CTP salvage (GO:0044211)|UMP salvage (GO:0044206)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|uridine kinase activity (GO:0004849)			endometrium(3)|large_intestine(1)|lung(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	8	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CCGGCCGCGCTCACTGATGTC	0.602																																																0													123	79	94					20																	62576011		2199	4298	6497	SO:0001589	frameshift_variant	54963			AK000524	CCDS13547.1, CCDS54479.1	20q13.33	2012-09-20	2004-07-13	2004-07-13	ENSG00000198276	ENSG00000198276			15938	protein-coding gene	gene with protein product		610866	"uridine kinase-like 1"	URKL1			Standard	NM_017859		Approved	FLJ20517	uc010gkn.3	Q9NWZ5	OTTHUMG00000033003	ENST00000354216.6:c.731delA	20.37:g.62576011delT	ENSP00000346155:p.Glu244fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8N2|Q5JWV0|Q70AQ5|Q8N524|Q9H3Z2	Frame_Shift_Del	DEL	ENST00000354216.6	37	CCDS13547.1																																																																																				0.602	UCKL1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000080236.1	NM_017859		-	62576011	T	-	62576011	7	5	669	1	0	1	0	1	0	0	0	0	16937	1551	54	0	955	0	UCKL1	20	62576011	Frame_Shift_Del	DEL	T	TCGA-KN-8433-01A-11D-2310-10	9745023	62576011	449509	214	43016										
NRIP1	8204	mdanderson.org	37	chr21	16338989	16338989	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tttttctacattttcttcatTcttatggccaagtagcaatt	4	8	4	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr21:16338989T>C	ENST00000400202.1	-	3	2237	c.1525A>G	c.(1525-1527)Aat>Gat	p.N509D	NRIP1_ENST00000400199.1_Missense_Mutation_p.N509D|AF127577.10_ENST00000446301.1_RNA|NRIP1_ENST00000318948.4_Missense_Mutation_p.N509D			P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	509	Repression domain 2.				androgen receptor signaling pathway (GO:0030521)|lipid storage (GO:0019915)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|ovarian follicle rupture (GO:0001543)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	cell junction (GO:0030054)|histone deacetylase complex (GO:0000118)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|estrogen receptor binding (GO:0030331)|glucocorticoid receptor binding (GO:0035259)|nuclear hormone receptor binding (GO:0035257)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)			cervix(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(6)|lung(13)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(4)	39				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)		TTTTCTTCATTCTTATGGCCA	0.368																																																0													196	189	191					21																	16338989		2203	4300	6503	SO:0001583	missense	8204			X84373	CCDS13568.1	21q11.2	2008-07-31			ENSG00000180530	ENSG00000180530			8001	protein-coding gene	gene with protein product	"receptor interacting protein 140", "nuclear factor RIP140"	602490				7641693, 9521594	Standard	NM_003489		Approved	RIP140	uc002yjx.2	P48552	OTTHUMG00000074323	ENST00000400202.1:c.1525A>G	21.37:g.16338989T>C	ENSP00000383063:p.Asn509Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IWE8	Missense_Mutation	SNP	ENST00000400202.1	37	CCDS13568.1	.	.	.	.	.	.	.	.	.	.	T	13.14	2.149415	0.37923	.	.	ENSG00000180530	ENST00000400199;ENST00000400202;ENST00000318948	T;T;T	0.18810	2.19;2.19;2.19	5.68	4.49	0.54785	.	0.381500	0.28203	N	0.016205	T	0.13927	0.0337	L	0.34521	1.04	0.30218	N	0.797058	P	0.39480	0.675	B	0.39258	0.295	T	0.05115	-1.0905	10	0.15066	T	0.55	-1.9487	7.4965	0.27492	0.0:0.0713:0.1435:0.7852	.	509	P48552	NRIP1_HUMAN	D	509	ENSP00000383060:N509D;ENSP00000383063:N509D;ENSP00000327213:N509D	ENSP00000327213:N509D	N	-	1	0	NRIP1	15260860	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	4.773000	0.62331	2.170000	0.68504	0.528000	0.53228	AAT		0.368	NRIP1-002	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157926.1	NM_003489		C	16338989	T	C	16338989	3	2	669	1	0	0	0	0	1	0	0	0	10659	1783	62	3	1955	3	NRIP1	21	16338989	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10		16338989	31790906	215	43017										
TMPRSS15	5651	mdanderson.org	37	chr21	19726118	19726118	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttcatcagattctataagaaAggtggcagtaacttggttgg	11	5	3	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr21:19726118A>G	ENST00000284885.3	-	9	976	c.943T>C	c.(943-945)Ttt>Ctt	p.F315L		NM_002772.2	NP_002763	P98073	ENTK_HUMAN	transmembrane protease, serine 15	315	CUB 1. {ECO:0000255|PROSITE- ProRule:PRU00059}.					brush border (GO:0005903)|integral component of membrane (GO:0016021)	scavenger receptor activity (GO:0005044)|serine-type endopeptidase activity (GO:0004252)			NS(1)|breast(2)|cervix(1)|endometrium(4)|kidney(7)|large_intestine(19)|lung(36)|ovary(6)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)	85						TCTATAAGAAAGGTGGCAGTA	0.294																																																0													68	73	71					21																	19726118		2203	4289	6492	SO:0001583	missense	5651				CCDS13571.1	21q21	2010-12-09	2010-04-21	2010-04-21	ENSG00000154646	ENSG00000154646		"Serine peptidases / Transmembrane"	9490	protein-coding gene	gene with protein product	"proenterokinase", "enteropeptidase"	606635	"protease, serine, 7 (enterokinase)"	PRSS7		8052624	Standard	NM_002772		Approved	ENTK, MGC133046	uc002ykw.3	P98073	OTTHUMG00000074518	ENST00000284885.3:c.943T>C	21.37:g.19726118A>G	ENSP00000284885:p.Phe315Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKL7	Missense_Mutation	SNP	ENST00000284885.3	37	CCDS13571.1	.	.	.	.	.	.	.	.	.	.	A	22.0	4.226273	0.79576	.	.	ENSG00000154646	ENST00000284885	T	0.33654	1.4	4.46	4.46	0.54185	CUB (5);	0.000000	0.64402	D	0.000001	T	0.45597	0.1350	L	0.55103	1.725	0.47341	D	0.999396	P	0.52692	0.955	P	0.54060	0.741	T	0.36359	-0.9751	9	.	.	.	.	12.7079	0.57073	1.0:0.0:0.0:0.0	.	315	P98073	ENTK_HUMAN	L	315	ENSP00000284885:F315L	.	F	-	1	0	TMPRSS15	18647989	1.000000	0.71417	0.999000	0.59377	0.970000	0.65996	5.657000	0.67996	1.878000	0.54408	0.454000	0.30748	TTT		0.294	TMPRSS15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000158231.2	NM_002772		G	19726118	A	G	19726118	3	3	669	1	0	0	0	0	1	0	0	0	16258	72	3	3	2184	3	TMPRSS15	21	19726118	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	3387129	19726118	28403777	216	43018										
SON	6651	mdanderson.org	37	chr21	34924913	34924913	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ctgctgatcgttcaatgatgTctatggctgctgattcttac	9	9	3	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr21:34924913T>C	ENST00000356577.4	+	3	3851	c.3376T>C	c.(3376-3378)Tct>Cct	p.S1126P	SON_ENST00000381679.4_Missense_Mutation_p.S1126P|SON_ENST00000381692.2_Intron|SON_ENST00000290239.6_Missense_Mutation_p.S1126P|SON_ENST00000300278.4_Missense_Mutation_p.S1126P	NM_138927.1	NP_620305	P18583	SON_HUMAN	SON DNA binding protein	1126	14 X 6 AA repeats of [ED]-R-S-M-M-S.				cytokinesis (GO:0000910)|microtubule cytoskeleton organization (GO:0000226)|mRNA processing (GO:0006397)|negative regulation of apoptotic process (GO:0043066)|regulation of cell cycle (GO:0051726)|regulation of RNA splicing (GO:0043484)|RNA splicing (GO:0008380)	nuclear speck (GO:0016607)|nucleus (GO:0005634)	DNA binding (GO:0003677)|nucleic acid binding (GO:0003676)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			breast(3)|central_nervous_system(2)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(13)|lung(25)|ovary(4)|prostate(2)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	72						TTCAATGATGTCTATGGCTGC	0.473																																																0													205	167	180					21																	34924913		2203	4300	6503	SO:0001583	missense	6651			AF380181	CCDS13629.1, CCDS13631.1, CCDS74784.1	21q22.1-q22.2	2013-01-28			ENSG00000159140	ENSG00000159140		"G patch domain containing"	11183	protein-coding gene	gene with protein product	"NRE-binding protein", "negative regulatory element-binding protein", "Bax antagonist selected in Saccharomyces 1"	182465		C21orf50		8318737, 21551269	Standard	NM_032195		Approved	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914	uc002yse.1	P18583	OTTHUMG00000065806	ENST00000356577.4:c.3376T>C	21.37:g.34924913T>C	ENSP00000348984:p.Ser1126Pro	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSF5|D3DSF6|E7ETE8|E7EU67|E7EVW3|E9PFQ2|O14487|O95981|Q14120|Q6PKE0|Q9H7B1|Q9P070|Q9P072|Q9UKP9|Q9UPY0	Missense_Mutation	SNP	ENST00000356577.4	37	CCDS13629.1	.	.	.	.	.	.	.	.	.	.	T	15.56	2.869029	0.51588	.	.	ENSG00000159140	ENST00000356577;ENST00000290239;ENST00000300278;ENST00000381679	T;T;T;T	0.19669	2.29;2.28;2.26;2.13	5.79	5.79	0.91817	.	0.000000	0.50627	D	0.000115	T	0.40595	0.1123	L	0.54323	1.7	0.38795	D	0.955079	D;D;D;D;D	0.89917	1.0;0.999;1.0;1.0;1.0	D;D;D;D;D	0.85130	0.997;0.993;0.997;0.997;0.997	T	0.26087	-1.0113	10	0.45353	T	0.12	.	12.5272	0.56093	0.0:0.0:0.0:1.0	.	1126;1126;807;1126;1126	P18583-10;P18583;P18583-2;P18583-3;P18583-6	.;SON_HUMAN;.;.;.	P	1126	ENSP00000348984:S1126P;ENSP00000290239:S1126P;ENSP00000300278:S1126P;ENSP00000371095:S1126P	ENSP00000290239:S1126P	S	+	1	0	SON	33846783	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.046000	0.57376	2.207000	0.71202	0.533000	0.62120	TCT		0.473	SON-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000140978.2	NM_138927		C	34924913	T	C	34924913	3	2	669	1	0	0	0	0	1	0	0	0	14939	1667	58	3	3386	3	SON	21	34924913	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	15198795	34924913	13204982	217	43019										
ZNF295	49854	mdanderson.org	37	chr21	43411206	43411206	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggcctgtggggctgtcaggcTccagaggctggatcttgggc	18	10	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr21:43411206T>C	ENST00000310826.5	-	3	3182	c.2999A>G	c.(2998-3000)gAg>gGg	p.E1000G	ZBTB21_ENST00000398505.3_Missense_Mutation_p.E799G|ZBTB21_ENST00000465968.1_5'Flank|ZBTB21_ENST00000398499.1_Missense_Mutation_p.E1000G|ZBTB21_ENST00000398511.3_Missense_Mutation_p.E1000G	NM_001098402.1	NP_001091872.1	Q9ULJ3	ZBT21_HUMAN	zinc finger and BTB domain containing 21	1000					negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|methyl-CpG binding (GO:0008327)										GCTGTCAGGCTCCAGAGGCTG	0.572																																																0													78	86	83					21																	43411206		2203	4300	6503	SO:0001583	missense	49854			AB033053	CCDS13678.1, CCDS42934.1	21q22.3	2013-01-09	2013-01-09	2013-01-09	ENSG00000173276	ENSG00000173276		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	13083	protein-coding gene	gene with protein product			"zinc finger protein 295"	ZNF295			Standard	NM_020727		Approved	KIAA1227	uc002yzy.4	Q9ULJ3	OTTHUMG00000086789	ENST00000310826.5:c.2999A>G	21.37:g.43411206T>C	ENSP00000308759:p.Glu1000Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5R2W1|Q5R2W2|Q6P4R0	Missense_Mutation	SNP	ENST00000310826.5	37	CCDS13678.1	.	.	.	.	.	.	.	.	.	.	T	16.76	3.212603	0.58452	.	.	ENSG00000173276	ENST00000398505;ENST00000310826;ENST00000398499;ENST00000398511	T;T;T;T	0.08370	3.42;3.1;3.1;3.1	5.5	5.5	0.81552	.	0.531808	0.18360	N	0.143585	T	0.06188	0.0160	N	0.19112	0.55	0.58432	D	0.999996	B;P	0.35328	0.112;0.495	B;B	0.28465	0.02;0.09	T	0.49707	-0.8911	10	0.25106	T	0.35	-19.2238	15.6171	0.76775	0.0:0.0:0.0:1.0	.	799;1000	Q9ULJ3-2;Q9ULJ3	.;ZN295_HUMAN	G	799;1000;1000;1000	ENSP00000381517:E799G;ENSP00000308759:E1000G;ENSP00000381512:E1000G;ENSP00000381523:E1000G	ENSP00000308759:E1000G	E	-	2	0	ZNF295	42284275	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	2.552000	0.45828	2.096000	0.63516	0.533000	0.62120	GAG		0.572	ZBTB21-005	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195308.1	NM_020727		C	43411206	T	C	43411206	3	2	669	1	0	0	0	0	1	0	0	0	17839	1551	54	3	205	3	ZNF295	21	43411206	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	8486293	43411206	4718689	218	43020										
RFPL1	5988	mdanderson.org	37	chr22	29837976	29837976	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gtctatacattcaggagtgtCtctgctgaggagccactgca	11	10	3	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr22:29837976C>A	ENST00000354373.2	+	2	1028	c.819C>A	c.(817-819)gtC>gtA	p.V273V	RFPL1S_ENST00000539579.1_RNA|RFPL1S_ENST00000461286.3_RNA	NM_021026.2	NP_066306.2	O75677	RFPL1_HUMAN	ret finger protein-like 1	273	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.						zinc ion binding (GO:0008270)	p.V273V(2)		endometrium(3)|large_intestine(1)|lung(6)|prostate(2)|skin(2)|stomach(1)|urinary_tract(1)	16						TCAGGAGTGTCTCTGCTGAGG	0.468																																																2	Substitution - coding silent(2)	lung(1)|endometrium(1)											116	96	103					22																	29837976		2203	4300	6503	SO:0001819	synonymous_variant	5988			AJ010228	CCDS13857.2	22q12	2006-04-25			ENSG00000128250	ENSG00000128250		"RING-type (C3HC4) zinc fingers"	9977	protein-coding gene	gene with protein product		605968				10508838	Standard	NM_021026		Approved	RNF78	uc003afn.3	O75677	OTTHUMG00000150516	ENST00000354373.2:c.819C>A	22.37:g.29837976C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IC06|Q9UJ97	Silent	SNP	ENST00000354373.2	37	CCDS13857.2																																																																																				0.468	RFPL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318719.1	NM_021026		A	29837976	C	A	29837976	2	1	669	1	0	0	0	0	0	0	0	1	13266	900	32	4		4	RFPL1	22	29837976	Silent	SNP	C	TCGA-KN-8433-01A-11D-2310-10		29837976	21466590	219	43021										
SGSM3	27352	mdanderson.org	37	chr22	40802191	40802191	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttctacgagggctcccgggtGctgttccagctcacgctggg	14	13	2	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr22:40802191G>T	ENST00000248929.9	+	9	1113	c.924G>T	c.(922-924)gtG>gtT	p.V308V	SGSM3_ENST00000454798.2_Silent_p.V241V	NM_015705.4	NP_056520.2			small G protein signaling modulator 3											cervix(1)|endometrium(4)|large_intestine(1)|lung(4)|ovary(2)|prostate(1)|skin(6)	19						GCTCCCGGGTGCTGTTCCAGC	0.627																																																0													73	64	67					22																	40802191		2203	4300	6503	SO:0001819	synonymous_variant	27352			AL022238	CCDS14002.1	22q13.1-q13.2	2013-07-09	2007-08-14	2007-08-14	ENSG00000100359	ENSG00000100359		"Small G protein signaling modulators"	25228	protein-coding gene	gene with protein product	"RUN and SH3 containing 3"	610440	"RUN and TBC1 domain containing 3"	RUTBC3		11214971, 17509819	Standard	XM_005261572		Approved	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5	uc003ayu.1	Q96HU1	OTTHUMG00000151141	ENST00000248929.9:c.924G>T	22.37:g.40802191G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000248929.9	37	CCDS14002.1																																																																																				0.627	SGSM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321504.2	NM_015705		T	40802191	G	T	40802191	2	4	669	1	0	0	0	0	0	0	0	1	14237	1306	46	4		4	SGSM3	22	40802191	Silent	SNP	G	TCGA-KN-8433-01A-11D-2310-10	10964215	40802191	10502375	220	43022										
CYP2D6	1565	mdanderson.org	37	chr22	42525176	42525176	+	Missense_Mutation	SNP	C	C	A													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ccacgcgggcccatagcgcgCcaggaacacccctgggggtg					rs1135823	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr22:42525176C>A	ENST00000360608.5	-	3	478	c.364G>T	c.(364-366)Gcg>Tcg	p.A122S	NDUFA6-AS1_ENST00000416037.2_RNA|NDUFA6-AS1_ENST00000439129.1_RNA|CYP2D6_ENST00000389970.3_Missense_Mutation_p.A122S|CYP2D6_ENST00000359033.4_Intron|NDUFA6-AS1_ENST00000608491.1_RNA|NDUFA6-AS1_ENST00000608288.1_RNA	NM_000106.5	NP_000097	P10635	CP2D6_HUMAN	cytochrome P450, family 2, subfamily D, polypeptide 6	122					alkaloid catabolic process (GO:0009822)|alkaloid metabolic process (GO:0009820)|coumarin metabolic process (GO:0009804)|drug catabolic process (GO:0042737)|drug metabolic process (GO:0017144)|heterocycle metabolic process (GO:0046483)|isoquinoline alkaloid metabolic process (GO:0033076)|monoterpenoid metabolic process (GO:0016098)|negative regulation of binding (GO:0051100)|negative regulation of cellular organofluorine metabolic process (GO:0090350)|oxidation-reduction process (GO:0055114)|oxidative demethylation (GO:0070989)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|mitochondrion (GO:0005739)	aromatase activity (GO:0070330)|drug binding (GO:0008144)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity (GO:0016491)			NS(1)|breast(2)|endometrium(1)|large_intestine(2)|lung(4)|prostate(7)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	21					Abiraterone(DB05812)|Acebutolol(DB01193)|Acetaminophen(DB00316)|Ajmaline(DB01426)|Almotriptan(DB00918)|Alogliptin(DB06203)|Alprenolol(DB00866)|Aminophenazone(DB01424)|Amiodarone(DB01118)|Amitriptyline(DB00321)|Amlodipine(DB00381)|Amodiaquine(DB00613)|Amoxapine(DB00543)|Amphetamine(DB00182)|Amprenavir(DB00701)|Amsacrine(DB00276)|Antipyrine(DB01435)|Aprindine(DB01429)|Arformoterol(DB01274)|Aripiprazole(DB01238)|Artemether(DB06697)|Asenapine(DB06216)|Astemizole(DB00637)|Atomoxetine(DB00289)|Atorvastatin(DB01076)|Azelastine(DB00972)|Benzatropine(DB00245)|Benzyl alcohol(DB06770)|Bepridil(DB01244)|Betaxolol(DB00195)|Bicalutamide(DB01128)|Biperiden(DB00810)|Bisoprolol(DB00612)|Bortezomib(DB00188)|Brompheniramine(DB00835)|Bupivacaine(DB00297)|Buprenorphine(DB00921)|Bupropion(DB01156)|Buspirone(DB00490)|Caffeine(DB00201)|Captopril(DB01197)|Carbinoxamine(DB00748)|Carteolol(DB00521)|Carvedilol(DB01136)|Celecoxib(DB00482)|Cephalexin(DB00567)|Cevimeline(DB00185)|Chlordiazepoxide(DB00475)|Chloroquine(DB00608)|Chlorphenamine(DB01114)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cholecalciferol(DB00169)|Ciclesonide(DB01410)|Cilostazol(DB01166)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Cinnarizine(DB00568)|Cisapride(DB00604)|Citalopram(DB00215)|Clemastine(DB00283)|Clevidipine(DB04920)|Clomipramine(DB01242)|Clonidine(DB00575)|Clotrimazole(DB00257)|Clozapine(DB00363)|Cocaine(DB00907)|Codeine(DB00318)|Cyclobenzaprine(DB00924)|Cyclophosphamide(DB00531)|Cyclosporine(DB00091)|Dapagliflozin(DB06292)|Darifenacin(DB00496)|Debrisoquin(DB04840)|Delavirdine(DB00705)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexamethasone(DB01234)|Dexfenfluramine(DB01191)|Dexmedetomidine(DB00633)|Dexmethylphenidate(DB06701)|Dextroamphetamine(DB01576)|Dextromethorphan(DB00514)|Dextropropoxyphene(DB00647)|Dihydrocodeine(DB01551)|Diltiazem(DB00343)|Dimethyl sulfoxide(DB01093)|Diphenhydramine(DB01075)|Dolasetron(DB00757)|Domperidone(DB01184)|Donepezil(DB00843)|Dopamine(DB00988)|Doxazosin(DB00590)|Doxepin(DB01142)|Doxorubicin(DB00997)|Dronedarone(DB04855)|Duloxetine(DB00476)|Efavirenz(DB00625)|Eletriptan(DB00216)|Encainide(DB01228)|Enzalutamide(DB08899)|Epinastine(DB00751)|Erlotinib(DB00530)|Escitalopram(DB01175)|Ethylmorphine(DB01466)|Etoricoxib(DB01628)|Felodipine(DB01023)|Fesoterodine(DB06702)|Fexofenadine(DB00950)|Fingolimod(DB08868)|Flecainide(DB01195)|Flunarizine(DB04841)|Fluoxetine(DB00472)|Fluphenazine(DB00623)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Galantamine(DB00674)|Gefitinib(DB00317)|Glutethimide(DB01437)|Granisetron(DB00889)|Halofantrine(DB01218)|Haloperidol(DB00502)|Halothane(DB01159)|Histamine Phosphate(DB00667)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Hydroxychloroquine(DB01611)|Hydroxyurea(DB01005)|Hydroxyzine(DB00557)|Idarubicin(DB01177)|Iloperidone(DB04946)|Imatinib(DB00619)|Imipramine(DB00458)|Indinavir(DB00224)|Ipratropium bromide(DB00332)|Irbesartan(DB01029)|Isoniazid(DB00951)|Itraconazole(DB01167)|Ketoconazole(DB01026)|L-DOPA(DB01235)|Labetalol(DB00598)|Lansoprazole(DB00448)|Lercanidipine(DB00528)|Levomilnacipran(DB08918)|Lidocaine(DB00281)|Lisuride(DB00589)|Lomustine(DB01206)|Loperamide(DB00836)|Lopinavir(DB01601)|Loratadine(DB00455)|Lorcaserin(DB04871)|Lovastatin(DB00227)|Lumefantrine(DB06708)|Maprotiline(DB00934)|Mefloquine(DB00358)|Mepyramine(DB06691)|Mequitazine(DB01071)|Mesoridazine(DB00933)|Methadone(DB00333)|Methamphetamine(DB01577)|Methazolamide(DB00703)|Methimazole(DB00763)|Methotrimeprazine(DB01403)|Methoxyflurane(DB01028)|Methylnaltrexone(DB06800)|Methylphenidate(DB00422)|Methyprylon(DB01107)|Metoclopramide(DB01233)|Metoprolol(DB00264)|Mexiletine(DB00379)|Mianserin(DB06148)|Miconazole(DB01110)|Midodrine(DB00211)|Mifepristone(DB00834)|Minaprine(DB00805)|Mirabegron(DB08893)|Mirtazapine(DB00370)|Moclobemide(DB01171)|Morphine(DB00295)|Nateglinide(DB00731)|Nebivolol(DB04861)|Nefazodone(DB01149)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Niacin(DB00627)|Nicardipine(DB00622)|Nicergoline(DB00699)|Nicotine(DB00184)|Nifedipine(DB01115)|Nilotinib(DB04868)|Nitrofural(DB00336)|Nortriptyline(DB00540)|Olanzapine(DB00334)|Omeprazole(DB00338)|Ondansetron(DB00904)|Oxamniquine(DB01096)|Oxprenolol(DB01580)|Oxybutynin(DB01062)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Paliperidone(DB01267)|Palonosetron(DB00377)|Paroxetine(DB00715)|Pazopanib(DB06589)|Pentamidine(DB00738)|Pergolide(DB01186)|Perhexiline(DB01074)|Perphenazine(DB00850)|Pethidine(DB00454)|Phenformin(DB00914)|Phentermine(DB00191)|Pimozide(DB01100)|Pindolol(DB00960)|Pioglitazone(DB01132)|Piperazine(DB00592)|Pipotiazine(DB01621)|Ponatinib(DB08901)|Pravastatin(DB00175)|Praziquantel(DB01058)|Primaquine(DB01087)|Procainamide(DB01035)|Prochlorperazine(DB00433)|Progesterone(DB00396)|Proguanil(DB01131)|Promethazine(DB01069)|Propafenone(DB01182)|Propofol(DB00818)|Propranolol(DB00571)|Protriptyline(DB00344)|Pseudoephedrine(DB00852)|Pyrimethamine(DB00205)|Quetiapine(DB01224)|Quinidine(DB00908)|Quinine(DB00468)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ranolazine(DB00243)|Reboxetine(DB00234)|Remoxipride(DB00409)|Rifapentine(DB01201)|Risperidone(DB00734)|Ritonavir(DB00503)|Rivastigmine(DB00989)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Rosiglitazone(DB00412)|Rotigotine(DB05271)|Saquinavir(DB01232)|Selegiline(DB01037)|Sertindole(DB06144)|Sertraline(DB01104)|Sildenafil(DB00203)|Simvastatin(DB00641)|Sorafenib(DB00398)|Sulfanilamide(DB00259)|Sulfaphenazole(DB06729)|Tamoxifen(DB00675)|Tamsulosin(DB00706)|Tapentadol(DB06204)|Telithromycin(DB00976)|Temsirolimus(DB06287)|Terbinafine(DB00857)|Tetrabenazine(DB04844)|Theophylline(DB00277)|Thioridazine(DB00679)|Thiothixene(DB01623)|Ticlopidine(DB00208)|Timolol(DB00373)|Tiotropium(DB01409)|Tipranavir(DB00932)|Tolterodine(DB01036)|Trabectedin(DB05109)|Tramadol(DB00193)|Tranylcypromine(DB00752)|Trazodone(DB00656)|Trimipramine(DB00726)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Trospium(DB00209)|Vemurafenib(DB08881)|Venlafaxine(DB00285)|Verapamil(DB00661)|Vilazodone(DB06684)|Vinblastine(DB00570)|Vinorelbine(DB00361)|Yohimbine(DB01392)|Zafirlukast(DB00549)|Zalcitabine(DB00943)|Ziprasidone(DB00246)|Zolpidem(DB00425)	CCATAGCGCGCCAGGAACACC	0.672													C|||	2	0.000399361	0.0	0.0	5008	,	,		17374	0.0		0.001	False		,,,				2504	0.001															0								C	SER/ALA,	1,4049		0,1,2024	20	24	23		364,	4	0	22	dbSNP_86	23	1,8325		0,1,4162	no	missense,intron	CYP2D6	NM_000106.4,NM_001025161.1	99,	0,2,6186	AA,AC,CC		0.012,0.0247,0.0162	benign,	122/498,	42525176	2,12374	2025	4163	6188	SO:0001583	missense	1565			M20403	CCDS33657.1, CCDS46721.1	22q13.1	2014-09-17	2003-01-14		ENSG00000100197	ENSG00000100197		"Cytochrome P450s"	2625	protein-coding gene	gene with protein product		124030	"cytochrome P450, subfamily IID (debrisoquine, sparteine, etc., -metabolizing), polypeptide 6", "cytochrome P450, family 2, subfamily D, polypeptide 7 pseudogene 2", "cytochrome P450, subfamily II (debrisoquine, sparteine, etc., -metabolising), polypeptide 7 pseudogene 2", "cytochrome P450, family 2, subfamily D, polypeptide 8 pseudogene 2", "cytochrome P450, subfamily IID (debrisoquine, sparteine, etc., -metabolising), polypeptide 8 pseudogene 2"	CYP2DL1, CYP2D7P2, CYP2D7BP, CYP2D8P2, CYP2D7AP		8449513	Standard	NM_000106		Approved	CPD6, P450-DB1, CYP2D, P450C2D	uc003bce.3	P10635	OTTHUMG00000150918	ENST00000360608.5:c.364G>T	22.37:g.42525176C>A	ENSP00000353820:p.Ala122Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q16752|Q2XND6|Q2XND7|Q2XNE0|Q6B012|Q6NXU8	Missense_Mutation	SNP	ENST00000360608.5	37	CCDS46721.1	.	.	.	.	.	.	.	.	.	.	c	11.04	1.521346	0.27211	2.47E-4	1.2E-4	ENSG00000100197	ENST00000360608;ENST00000389970;ENST00000413640	T;T	0.68765	-0.35;-0.35	3.99	3.99	0.46301	.	0.310469	0.26331	N	0.024999	T	0.65004	0.2650	N	0.24115	0.695	0.09310	N	1	B	0.25743	0.133	P	0.48654	0.585	T	0.56086	-0.8037	10	0.10636	T	0.68	.	14.3635	0.66789	0.0:1.0:0.0:0.0	rs1135823;rs17362183	122	Q6NWU0	.	S	122;122;71	ENSP00000353820:A122S;ENSP00000374620:A122S	ENSP00000353820:A122S	A	-	1	0	CYP2D6	40855120	0.438000	0.25602	0.029000	0.17559	0.042000	0.13812	2.317000	0.43770	2.157000	0.67596	0.305000	0.20034	GCG		0.672	CYP2D6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000320525.1			A	42525176	C	A	42525176	3	1	669	1	0	0	0	0	1	0	0	0	4171	739	26	4	1157	4	CYP2D6	22	42525176	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	1722985	42525176	8779390	221	43023	420	2								
CYP2D6	1565	mdanderson.org	37	chr22	42525182	42525182	+	Missense_Mutation	SNP	A	A	T													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gggcccatagcgcgccaggaAcacccctgggggtgggacgg					rs1135822		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr22:42525182A>T	ENST00000360608.5	-	3	472	c.358T>A	c.(358-360)Ttc>Atc	p.F120I	NDUFA6-AS1_ENST00000416037.2_RNA|NDUFA6-AS1_ENST00000439129.1_RNA|CYP2D6_ENST00000389970.3_Missense_Mutation_p.F120I|CYP2D6_ENST00000359033.4_Intron|NDUFA6-AS1_ENST00000608491.1_RNA|NDUFA6-AS1_ENST00000608288.1_RNA	NM_000106.5	NP_000097	P10635	CP2D6_HUMAN	cytochrome P450, family 2, subfamily D, polypeptide 6	120			F -> I (in dbSNP:rs1135822). {ECO:0000269|PubMed:15469410}.		alkaloid catabolic process (GO:0009822)|alkaloid metabolic process (GO:0009820)|coumarin metabolic process (GO:0009804)|drug catabolic process (GO:0042737)|drug metabolic process (GO:0017144)|heterocycle metabolic process (GO:0046483)|isoquinoline alkaloid metabolic process (GO:0033076)|monoterpenoid metabolic process (GO:0016098)|negative regulation of binding (GO:0051100)|negative regulation of cellular organofluorine metabolic process (GO:0090350)|oxidation-reduction process (GO:0055114)|oxidative demethylation (GO:0070989)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|mitochondrion (GO:0005739)	aromatase activity (GO:0070330)|drug binding (GO:0008144)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity (GO:0016491)			NS(1)|breast(2)|endometrium(1)|large_intestine(2)|lung(4)|prostate(7)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	21					Abiraterone(DB05812)|Acebutolol(DB01193)|Acetaminophen(DB00316)|Ajmaline(DB01426)|Almotriptan(DB00918)|Alogliptin(DB06203)|Alprenolol(DB00866)|Aminophenazone(DB01424)|Amiodarone(DB01118)|Amitriptyline(DB00321)|Amlodipine(DB00381)|Amodiaquine(DB00613)|Amoxapine(DB00543)|Amphetamine(DB00182)|Amprenavir(DB00701)|Amsacrine(DB00276)|Antipyrine(DB01435)|Aprindine(DB01429)|Arformoterol(DB01274)|Aripiprazole(DB01238)|Artemether(DB06697)|Asenapine(DB06216)|Astemizole(DB00637)|Atomoxetine(DB00289)|Atorvastatin(DB01076)|Azelastine(DB00972)|Benzatropine(DB00245)|Benzyl alcohol(DB06770)|Bepridil(DB01244)|Betaxolol(DB00195)|Bicalutamide(DB01128)|Biperiden(DB00810)|Bisoprolol(DB00612)|Bortezomib(DB00188)|Brompheniramine(DB00835)|Bupivacaine(DB00297)|Buprenorphine(DB00921)|Bupropion(DB01156)|Buspirone(DB00490)|Caffeine(DB00201)|Captopril(DB01197)|Carbinoxamine(DB00748)|Carteolol(DB00521)|Carvedilol(DB01136)|Celecoxib(DB00482)|Cephalexin(DB00567)|Cevimeline(DB00185)|Chlordiazepoxide(DB00475)|Chloroquine(DB00608)|Chlorphenamine(DB01114)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cholecalciferol(DB00169)|Ciclesonide(DB01410)|Cilostazol(DB01166)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Cinnarizine(DB00568)|Cisapride(DB00604)|Citalopram(DB00215)|Clemastine(DB00283)|Clevidipine(DB04920)|Clomipramine(DB01242)|Clonidine(DB00575)|Clotrimazole(DB00257)|Clozapine(DB00363)|Cocaine(DB00907)|Codeine(DB00318)|Cyclobenzaprine(DB00924)|Cyclophosphamide(DB00531)|Cyclosporine(DB00091)|Dapagliflozin(DB06292)|Darifenacin(DB00496)|Debrisoquin(DB04840)|Delavirdine(DB00705)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexamethasone(DB01234)|Dexfenfluramine(DB01191)|Dexmedetomidine(DB00633)|Dexmethylphenidate(DB06701)|Dextroamphetamine(DB01576)|Dextromethorphan(DB00514)|Dextropropoxyphene(DB00647)|Dihydrocodeine(DB01551)|Diltiazem(DB00343)|Dimethyl sulfoxide(DB01093)|Diphenhydramine(DB01075)|Dolasetron(DB00757)|Domperidone(DB01184)|Donepezil(DB00843)|Dopamine(DB00988)|Doxazosin(DB00590)|Doxepin(DB01142)|Doxorubicin(DB00997)|Dronedarone(DB04855)|Duloxetine(DB00476)|Efavirenz(DB00625)|Eletriptan(DB00216)|Encainide(DB01228)|Enzalutamide(DB08899)|Epinastine(DB00751)|Erlotinib(DB00530)|Escitalopram(DB01175)|Ethylmorphine(DB01466)|Etoricoxib(DB01628)|Felodipine(DB01023)|Fesoterodine(DB06702)|Fexofenadine(DB00950)|Fingolimod(DB08868)|Flecainide(DB01195)|Flunarizine(DB04841)|Fluoxetine(DB00472)|Fluphenazine(DB00623)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Galantamine(DB00674)|Gefitinib(DB00317)|Glutethimide(DB01437)|Granisetron(DB00889)|Halofantrine(DB01218)|Haloperidol(DB00502)|Halothane(DB01159)|Histamine Phosphate(DB00667)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Hydroxychloroquine(DB01611)|Hydroxyurea(DB01005)|Hydroxyzine(DB00557)|Idarubicin(DB01177)|Iloperidone(DB04946)|Imatinib(DB00619)|Imipramine(DB00458)|Indinavir(DB00224)|Ipratropium bromide(DB00332)|Irbesartan(DB01029)|Isoniazid(DB00951)|Itraconazole(DB01167)|Ketoconazole(DB01026)|L-DOPA(DB01235)|Labetalol(DB00598)|Lansoprazole(DB00448)|Lercanidipine(DB00528)|Levomilnacipran(DB08918)|Lidocaine(DB00281)|Lisuride(DB00589)|Lomustine(DB01206)|Loperamide(DB00836)|Lopinavir(DB01601)|Loratadine(DB00455)|Lorcaserin(DB04871)|Lovastatin(DB00227)|Lumefantrine(DB06708)|Maprotiline(DB00934)|Mefloquine(DB00358)|Mepyramine(DB06691)|Mequitazine(DB01071)|Mesoridazine(DB00933)|Methadone(DB00333)|Methamphetamine(DB01577)|Methazolamide(DB00703)|Methimazole(DB00763)|Methotrimeprazine(DB01403)|Methoxyflurane(DB01028)|Methylnaltrexone(DB06800)|Methylphenidate(DB00422)|Methyprylon(DB01107)|Metoclopramide(DB01233)|Metoprolol(DB00264)|Mexiletine(DB00379)|Mianserin(DB06148)|Miconazole(DB01110)|Midodrine(DB00211)|Mifepristone(DB00834)|Minaprine(DB00805)|Mirabegron(DB08893)|Mirtazapine(DB00370)|Moclobemide(DB01171)|Morphine(DB00295)|Nateglinide(DB00731)|Nebivolol(DB04861)|Nefazodone(DB01149)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Niacin(DB00627)|Nicardipine(DB00622)|Nicergoline(DB00699)|Nicotine(DB00184)|Nifedipine(DB01115)|Nilotinib(DB04868)|Nitrofural(DB00336)|Nortriptyline(DB00540)|Olanzapine(DB00334)|Omeprazole(DB00338)|Ondansetron(DB00904)|Oxamniquine(DB01096)|Oxprenolol(DB01580)|Oxybutynin(DB01062)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Paliperidone(DB01267)|Palonosetron(DB00377)|Paroxetine(DB00715)|Pazopanib(DB06589)|Pentamidine(DB00738)|Pergolide(DB01186)|Perhexiline(DB01074)|Perphenazine(DB00850)|Pethidine(DB00454)|Phenformin(DB00914)|Phentermine(DB00191)|Pimozide(DB01100)|Pindolol(DB00960)|Pioglitazone(DB01132)|Piperazine(DB00592)|Pipotiazine(DB01621)|Ponatinib(DB08901)|Pravastatin(DB00175)|Praziquantel(DB01058)|Primaquine(DB01087)|Procainamide(DB01035)|Prochlorperazine(DB00433)|Progesterone(DB00396)|Proguanil(DB01131)|Promethazine(DB01069)|Propafenone(DB01182)|Propofol(DB00818)|Propranolol(DB00571)|Protriptyline(DB00344)|Pseudoephedrine(DB00852)|Pyrimethamine(DB00205)|Quetiapine(DB01224)|Quinidine(DB00908)|Quinine(DB00468)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ranolazine(DB00243)|Reboxetine(DB00234)|Remoxipride(DB00409)|Rifapentine(DB01201)|Risperidone(DB00734)|Ritonavir(DB00503)|Rivastigmine(DB00989)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Rosiglitazone(DB00412)|Rotigotine(DB05271)|Saquinavir(DB01232)|Selegiline(DB01037)|Sertindole(DB06144)|Sertraline(DB01104)|Sildenafil(DB00203)|Simvastatin(DB00641)|Sorafenib(DB00398)|Sulfanilamide(DB00259)|Sulfaphenazole(DB06729)|Tamoxifen(DB00675)|Tamsulosin(DB00706)|Tapentadol(DB06204)|Telithromycin(DB00976)|Temsirolimus(DB06287)|Terbinafine(DB00857)|Tetrabenazine(DB04844)|Theophylline(DB00277)|Thioridazine(DB00679)|Thiothixene(DB01623)|Ticlopidine(DB00208)|Timolol(DB00373)|Tiotropium(DB01409)|Tipranavir(DB00932)|Tolterodine(DB01036)|Trabectedin(DB05109)|Tramadol(DB00193)|Tranylcypromine(DB00752)|Trazodone(DB00656)|Trimipramine(DB00726)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Trospium(DB00209)|Vemurafenib(DB08881)|Venlafaxine(DB00285)|Verapamil(DB00661)|Vilazodone(DB06684)|Vinblastine(DB00570)|Vinorelbine(DB00361)|Yohimbine(DB01392)|Zafirlukast(DB00549)|Zalcitabine(DB00943)|Ziprasidone(DB00246)|Zolpidem(DB00425)	CGCGCCAGGAACACCCCTGGG	0.677																																																0								T	ILE/PHE,	2,4056		0,2,2027	20	24	23		358,	-8	0	22	dbSNP_86	23	1,8335		0,1,4167	yes	missense,intron	CYP2D6	NM_000106.4,NM_001025161.1	21,	0,3,6194	TT,TA,AA		0.012,0.0493,0.0242	benign,	120/498,	42525182	3,12391	2029	4168	6197	SO:0001583	missense	1565			M20403	CCDS33657.1, CCDS46721.1	22q13.1	2014-09-17	2003-01-14		ENSG00000100197	ENSG00000100197		"Cytochrome P450s"	2625	protein-coding gene	gene with protein product		124030	"cytochrome P450, subfamily IID (debrisoquine, sparteine, etc., -metabolizing), polypeptide 6", "cytochrome P450, family 2, subfamily D, polypeptide 7 pseudogene 2", "cytochrome P450, subfamily II (debrisoquine, sparteine, etc., -metabolising), polypeptide 7 pseudogene 2", "cytochrome P450, family 2, subfamily D, polypeptide 8 pseudogene 2", "cytochrome P450, subfamily IID (debrisoquine, sparteine, etc., -metabolising), polypeptide 8 pseudogene 2"	CYP2DL1, CYP2D7P2, CYP2D7BP, CYP2D8P2, CYP2D7AP		8449513	Standard	NM_000106		Approved	CPD6, P450-DB1, CYP2D, P450C2D	uc003bce.3	P10635	OTTHUMG00000150918	ENST00000360608.5:c.358T>A	22.37:g.42525182A>T	ENSP00000353820:p.Phe120Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q16752|Q2XND6|Q2XND7|Q2XNE0|Q6B012|Q6NXU8	Missense_Mutation	SNP	ENST00000360608.5	37	CCDS46721.1	.	.	.	.	.	.	.	.	.	.	t	0.353	-0.944029	0.02322	4.93E-4	1.2E-4	ENSG00000100197	ENST00000360608;ENST00000389970;ENST00000413640	T;T	0.67865	-0.29;-0.29	3.99	-7.98	0.01135	.	2.701080	0.01780	N	0.031683	T	0.29126	0.0724	N	0.01751	-0.74	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.41752	-0.9491	10	0.05436	T	0.98	.	4.0552	0.09813	0.1994:0.466:0.0957:0.2389	rs1135822;rs17362176;rs28371707	120	Q6NWU0	.	I	120;120;69	ENSP00000353820:F120I;ENSP00000374620:F120I	ENSP00000353820:F120I	F	-	1	0	CYP2D6	40855126	0.000000	0.05858	0.000000	0.03702	0.019000	0.09904	-5.990000	0.00086	-2.458000	0.00538	-0.867000	0.03001	TTC		0.677	CYP2D6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000320525.1			T	42525182	A	T	42525182	3	4	669	1	0	0	0	0	1	0	0	0	4171	43	2	5	1163	5	CYP2D6	22	42525182	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	6	42525182	8779384	222	43024	420	2								
RRP7A	27341	mdanderson.org	37	chr22	42910784	42910784	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tctgcgtagtcactgatccaCtctgaggaaaagggagccag	12	10	3	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chr22:42910784C>T	ENST00000323013.6	-	5	477	c.462G>A	c.(460-462)aaG>aaA	p.K154K	SERHL_ENST00000359906.2_RNA	NM_015703.4	NP_056518.2	Q9Y3A4	RRP7A_HUMAN	ribosomal RNA processing 7 homolog A (S. cerevisiae)	154							nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)	p.K154K(1)		central_nervous_system(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|liver(2)|lung(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	10						CACTGATCCACTCTGAGGAAA	0.602																																																1	Substitution - coding silent(1)	prostate(1)											46	50	49					22																	42910784		2189	4299	6488	SO:0001630	splice_region_variant	27341			BC035992	CCDS14036.1	22q13.2	2008-08-08			ENSG00000189306	ENSG00000189306			24286	protein-coding gene	gene with protein product						10810093, 12087473	Standard	NM_015703		Approved	CGI-96	uc003bcq.3	Q9Y3A4	OTTHUMG00000150891	ENST00000323013.6:c.461-1G>A	22.37:g.42910784C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4FTX2|B2RBG4|Q0VAD0|Q5JZ94|Q6P4B5|Q8IVR9|Q8IVY0|Q8N5Q3|Q8NEY6|Q9Y3H5	Silent	SNP	ENST00000323013.6	37	CCDS14036.1																																																																																				0.602	RRP7A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320451.1	NM_015703	Silent	T	42910784	C	T	42910784	5	4	669	1	0	0	0	0	0	0	1	0	13702	579	20	2	392	2	RRP7A	22	42910784	Splice_Site	SNP	C	TCGA-KN-8433-01A-11D-2310-10	385602	42910784	8393782	223	43025										
NLGN4X	57502	mdanderson.org	37	chrX	5810997	5810997	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tgtttggcgtcataagtgggAtgtcatctggcgaccggcgc	15	9	3	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:5810997A>G	ENST00000381095.3	-	6	2939	c.2312T>C	c.(2311-2313)aTc>aCc	p.I771T	NLGN4X_ENST00000381092.1_Missense_Mutation_p.I771T|NLGN4X_ENST00000538097.1_Missense_Mutation_p.I771T|NLGN4X_ENST00000275857.6_Missense_Mutation_p.I771T|NLGN4X_ENST00000381093.2_Missense_Mutation_p.I791T	NM_001282145.1|NM_001282146.1|NM_181332.1	NP_001269074.1|NP_001269075.1|NP_851849.1	Q8N0W4	NLGNX_HUMAN	neuroligin 4, X-linked	771					adult behavior (GO:0030534)|brainstem development (GO:0003360)|cell-cell junction organization (GO:0045216)|cerebellum development (GO:0021549)|learning (GO:0007612)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|neuron cell-cell adhesion (GO:0007158)|neuron differentiation (GO:0030182)|organ growth (GO:0035265)|presynaptic membrane assembly (GO:0097105)|social behavior (GO:0035176)|synapse organization (GO:0050808)|vocalization behavior (GO:0071625)	cell junction (GO:0030054)|cell surface (GO:0009986)|dendrite (GO:0030425)|excitatory synapse (GO:0060076)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|synapse (GO:0045202)	cell adhesion molecule binding (GO:0050839)|chloride ion binding (GO:0031404)|neurexin family protein binding (GO:0042043)|protein homodimerization activity (GO:0042803)|receptor activity (GO:0004872)			breast(1)|cervix(2)|endometrium(4)|large_intestine(21)|lung(39)|ovary(4)|prostate(2)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)	81						CATAAGTGGGATGTCATCTGG	0.552																																																0													289	236	254					X																	5810997		2203	4300	6503	SO:0001583	missense	57502			AB033086	CCDS14126.1	Xp22.33	2008-02-05	2004-05-21	2004-05-26	ENSG00000146938	ENSG00000146938			14287	protein-coding gene	gene with protein product		300427	"neuroligin 4"	NLGN4		10574462	Standard	XM_005274564		Approved	KIAA1260, NLGN, HLNX	uc004crr.3	Q8N0W4	OTTHUMG00000021093	ENST00000381095.3:c.2312T>C	X.37:g.5810997A>G	ENSP00000370485:p.Ile771Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UX10|Q9ULG0	Missense_Mutation	SNP	ENST00000381095.3	37	CCDS14126.1	.	.	.	.	.	.	.	.	.	.	A	10.52	1.373663	0.24857	.	.	ENSG00000146938	ENST00000381095;ENST00000381093;ENST00000275857;ENST00000381092;ENST00000538097	T;T;T;T;T	0.16457	2.34;2.34;2.34;2.34;2.34	3.82	3.82	0.43975	.	0.737822	0.11161	N	0.593064	T	0.24122	0.0584	L	0.59436	1.845	0.50039	D	0.999846	P;P;P	0.44429	0.566;0.566;0.835	B;B;P	0.44673	0.196;0.206;0.457	T	0.02676	-1.1125	10	0.66056	D	0.02	.	11.2516	0.49028	1.0:0.0:0.0:0.0	.	828;771;791	A6NMU8;Q8N0W4;Q8N0W4-2	.;NLGNX_HUMAN;.	T	771;791;771;771;771	ENSP00000370485:I771T;ENSP00000370483:I791T;ENSP00000275857:I771T;ENSP00000370482:I771T;ENSP00000439203:I771T	ENSP00000275857:I771T	I	-	2	0	NLGN4X	5820997	1.000000	0.71417	0.637000	0.29366	0.043000	0.13939	7.992000	0.88273	1.222000	0.43521	0.417000	0.27973	ATC		0.552	NLGN4X-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000055673.1	NM_020742		G	5810997	A	G	5810997	3	3	669	1	0	0	0	0	1	0	0	0	10471	333	12	3	142	3	NLGN4X	23	5810997	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10		5810997	149459563	224	43026										
TLR7	51284	mdanderson.org	37	chrX	12905178	12905178	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tctgattttcagcatctttcTttcctcaaatgcctgaatct	4	11	6	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:12905178T>C	ENST00000380659.3	+	3	1690	c.1551T>C	c.(1549-1551)tcT>tcC	p.S517S		NM_016562.3	NP_057646.1	Q9NYK1	TLR7_HUMAN	toll-like receptor 7	517					cellular response to mechanical stimulus (GO:0071260)|defense response to virus (GO:0051607)|I-kappaB phosphorylation (GO:0007252)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|microglial cell activation involved in immune response (GO:0002282)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|pathogen-associated molecular pattern dependent induction by symbiont of host innate immune response (GO:0052033)|positive regulation of chemokine production (GO:0032722)|positive regulation of inflammatory response (GO:0050729)|positive regulation of interferon-alpha biosynthetic process (GO:0045356)|positive regulation of interferon-beta biosynthetic process (GO:0045359)|positive regulation of interferon-gamma biosynthetic process (GO:0045078)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of interleukin-8 biosynthetic process (GO:0045416)|positive regulation of interleukin-8 production (GO:0032757)|positive regulation of NF-kappaB import into nucleus (GO:0042346)|toll-like receptor 7 signaling pathway (GO:0034154)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)	cytoplasm (GO:0005737)|early phagosome (GO:0032009)|endolysosome membrane (GO:0036020)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|endosome (GO:0005768)|endosome membrane (GO:0010008)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	double-stranded RNA binding (GO:0003725)|drug binding (GO:0008144)|single-stranded RNA binding (GO:0003727)|siRNA binding (GO:0035197)|transmembrane signaling receptor activity (GO:0004888)			NS(1)|breast(4)|endometrium(5)|kidney(1)|large_intestine(8)|lung(18)|ovary(2)|pancreas(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	44					Hydroxychloroquine(DB01611)|Imiquimod(DB00724)	AGCATCTTTCTTTCCTCAAAT	0.378																																																0													123	131	128					X																	12905178		2203	4300	6503	SO:0001819	synonymous_variant	51284			AF240467	CCDS14151.1	Xp22.3	2008-02-05			ENSG00000196664	ENSG00000196664			15631	protein-coding gene	gene with protein product		300365				11022119	Standard	NM_016562		Approved		uc004cvc.3	Q9NYK1	OTTHUMG00000021137	ENST00000380659.3:c.1551T>C	X.37:g.12905178T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D1CS69|Q9NR98	Silent	SNP	ENST00000380659.3	37	CCDS14151.1																																																																																				0.378	TLR7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055769.1	NM_016562		C	12905178	T	C	12905178	2	2	669	1	0	0	0	0	0	0	0	1	15968	1596	56	3		3	TLR7	23	12905178	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	7094181	12905178	142365382	225	43027										
FAM9C	171484	mdanderson.org	37	chrX	13061295	13061295	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	atcctctttccccatgctcaTcagttacatctccctccttt	2	17	4	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:13061295T>C	ENST00000333995.3	-	3	264	c.134A>G	c.(133-135)gAt>gGt	p.D45G	FAM9C_ENST00000542843.1_Missense_Mutation_p.D45G|FAM9C_ENST00000380625.3_Missense_Mutation_p.D45G			Q8IZT9	FAM9C_HUMAN	family with sequence similarity 9, member C	45						nucleus (GO:0005634)				NS(1)|central_nervous_system(1)|kidney(1)|large_intestine(1)|upper_aerodigestive_tract(1)	5						CCCATGCTCATCAGTTACATC	0.398																																																0													208	159	176					X																	13061295		2203	4300	6503	SO:0001583	missense	171484				CCDS35203.1	Xp22.32	2013-03-14			ENSG00000187268	ENSG00000187268			18405	protein-coding gene	gene with protein product	"testis expressed 39C"	300479					Standard	NM_174901		Approved	TEX39C	uc004cvh.2	Q8IZT9	OTTHUMG00000021143	ENST00000333995.3:c.134A>G	X.37:g.13061295T>C	ENSP00000334430:p.Asp45Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9G7|Q5HYJ6	Missense_Mutation	SNP	ENST00000333995.3	37	CCDS35203.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	10.05|10.05	1.243495|1.243495	0.22796|0.22796	.|.	.|.	ENSG00000187268|ENSG00000187268	ENST00000542843;ENST00000380625;ENST00000333995|ENST00000438997	T;T;T|.	0.23754|.	1.89;1.89;1.89|.	0.118|0.118	0.118|0.118	0.14667|0.14667	.|.	.|.	.|.	.|.	.|.	T|T	0.22627|0.22627	0.0546|0.0546	N|N	0.24115|0.24115	0.695|0.695	0.09310|0.09310	N|N	1|1	D|.	0.57571|.	0.98|.	P|.	0.57009|.	0.811|.	T|T	0.27226|0.27226	-1.0080|-1.0080	8|4	0.72032|.	D|.	0.01|.	.|.	.|.	.|.	.|.	.|.	45|.	Q8IZT9|.	FAM9C_HUMAN|.	G|V	45|5	ENSP00000439185:D45G;ENSP00000369999:D45G;ENSP00000334430:D45G|.	ENSP00000334430:D45G|.	D|M	-|-	2|1	0|0	FAM9C|FAM9C	12971216|12971216	0.139000|0.139000	0.22563|0.22563	0.026000|0.026000	0.17262|0.17262	0.033000|0.033000	0.12548|0.12548	0.935000|0.935000	0.28924|0.28924	0.153000|0.153000	0.19213|0.19213	0.151000|0.151000	0.16131|0.16131	GAT|ATG		0.398	FAM9C-003	KNOWN	alternative_3_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000316476.1	NM_174901		C	13061295	T	C	13061295	3	2	669	1	0	0	0	0	1	0	0	0	5668	1435	50	3	386	3	FAM9C	23	13061295	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	156117	13061295	142209265	226	43028										
MBTPS2	51360	broad.mit.edu	37	chrX	21896681	21896681	+	Frame_Shift_Del	DEL	A	A	-													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gcagaaccaataaagactgtAaaaaaagctcaagttcaagt							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:21896681delA	ENST00000379484.5	+	9	1231	c.1132delA	c.(1132-1134)aaafs	p.K379fs		NM_015884.3	NP_056968.1	O43462	MBTP2_HUMAN	membrane-bound transcription factor peptidase, site 2	379	Cys-rich.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|cholesterol metabolic process (GO:0008203)|endoplasmic reticulum unfolded protein response (GO:0030968)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	metal ion binding (GO:0046872)|metalloendopeptidase activity (GO:0004222)	p.S380fs*28(1)		breast(2)|endometrium(3)|large_intestine(3)|lung(13)|ovary(1)|skin(2)	24						TAAAGACTGTAAAAAAAGCTC	0.328																																																1	Insertion - Frameshift(1)	lung(1)											106	106	106					X																	21896681		2203	4300	6503	SO:0001589	frameshift_variant	51360			AF019612	CCDS14201.1	Xp22.12-p22.11	2014-02-03	2005-08-17		ENSG00000012174	ENSG00000012174			15455	protein-coding gene	gene with protein product		300294	"membrane-bound transcription factor protease, site 2", "keratosis follicularis spinulosa decalvans"	KFSD		9847074, 9659902, 20672378	Standard	NM_015884		Approved	S2P	uc004dae.3	O43462	OTTHUMG00000021237	ENST00000379484.5:c.1132delA	X.37:g.21896681delA	ENSP00000368798:p.Lys379fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UM70|Q9UMD3	Frame_Shift_Del	DEL	ENST00000379484.5	37	CCDS14201.1																																																																																				0.328	MBTPS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056026.1			-	21896681	A	-	21896681	7	5	669	1	0	1	0	1	0	0	0	0	9369	363	13	0	1166	0	MBTPS2	23	21896681	Frame_Shift_Del	DEL	A	TCGA-KN-8433-01A-11D-2310-10	8835386	21896681	133373879	227	43029										
CXorf22	170063	mdanderson.org	37	chrX	35974129	35974129	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gacaggcacaggacttcctgTtttactacagtttgatccag	9	10	0	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:35974129T>C	ENST00000297866.5	+	8	1292	c.1226T>C	c.(1225-1227)gTt>gCt	p.V409A		NM_152632.3	NP_689845.2	Q6ZTR5	CX022_HUMAN	chromosome X open reading frame 22	409										breast(2)|central_nervous_system(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(9)|lung(18)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(3)	44						GGACTTCCTGTTTTACTACAG	0.368																																																0													95	90	91					X																	35974129		2202	4300	6502	SO:0001583	missense	170063			BC027936	CCDS14237.2	Xp21.1	2014-08-07			ENSG00000165164	ENSG00000165164			28546	protein-coding gene	gene with protein product						12477932	Standard	NM_152632		Approved	MGC34831	uc004ddj.3	Q6ZTR5	OTTHUMG00000021350	ENST00000297866.5:c.1226T>C	X.37:g.35974129T>C	ENSP00000297866:p.Val409Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JRM8|Q8N6X8	Missense_Mutation	SNP	ENST00000297866.5	37	CCDS14237.2	.	.	.	.	.	.	.	.	.	.	T	14.21	2.466133	0.43839	.	.	ENSG00000165164	ENST00000297866	T	0.63417	-0.04	5.25	5.25	0.73442	.	0.000000	0.85682	D	0.000000	T	0.74831	0.3768	M	0.75264	2.295	0.35691	D	0.814869	D	0.76494	0.999	D	0.67382	0.951	T	0.77590	-0.2531	10	0.16420	T	0.52	-44.5563	13.5093	0.61502	0.0:0.0:0.0:1.0	.	409	Q6ZTR5	CX022_HUMAN	A	409	ENSP00000297866:V409A	ENSP00000297866:V409A	V	+	2	0	CXorf22	35884050	1.000000	0.71417	0.845000	0.33349	0.008000	0.06430	5.632000	0.67819	1.854000	0.53819	0.486000	0.48141	GTT		0.368	CXorf22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056216.2	NM_152632		C	35974129	T	C	35974129	3	2	669	1	0	0	0	0	1	0	0	0	4104	1725	60	3	1256	3	CXorf22	23	35974129	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	14077448	35974129	119296431	228	43030										
SYTL5	94122	broad.mit.edu	37	chrX	37932872	37932873	+	Frame_Shift_Ins	INS	-	-	C													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	agtacagagccaagagcaaaINScccgccaggatgcagaaaag							TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:37932872_37932873insC	ENST00000357972.5	+	5	1021_1022	c.475_476insC	c.(475-477)accfs	p.T159fs	SYTL5_ENST00000297875.2_Frame_Shift_Ins_p.T159fs|SYTL5_ENST00000456733.2_Frame_Shift_Ins_p.T159fs|TM4SF2_ENST00000465127.1_Intron			Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5	159					exocytosis (GO:0006887)|intracellular protein transport (GO:0006886)	membrane (GO:0016020)	metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(9)|lung(23)|prostate(1)|skin(2)|urinary_tract(1)	44						CCAAGAGCAAACCCGCCAGGAT	0.446																																																0																																										SO:0001589	frameshift_variant	94122				CCDS14244.1, CCDS55399.1	Xp21.1	2008-02-05			ENSG00000147041	ENSG00000147041			15589	protein-coding gene	gene with protein product	"exophilin 9"						Standard	NM_138780		Approved		uc004ddx.3	Q8TDW5	OTTHUMG00000033176	ENST00000357972.5:c.478dupC	X.37:g.37932875_37932875dupC	ENSP00000350657:p.Thr159fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRF2	Frame_Shift_Ins	INS	ENST00000357972.5	37	CCDS14244.1																																																																																				0.446	SYTL5-201	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000080883.1	NM_138780		C	37932873	-	C	37932872	7	5	669	1	0	1	1	0	0	0	0	0	15498	43	2	0	489	0	SYTL5	23	37932872	Frame_Shift_Ins	INS	-	TCGA-KN-8433-01A-11D-2310-10	1958743	37932872	117337688	229	43031										
SLC9A7	84679	mdanderson.org	37	chrX	46529082	46529082	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	attgctccaaaaaagagacaAtctgtgtagtaaaatttatc	6	6	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:46529082A>G	ENST00000328306.4	-	5	778	c.753T>C	c.(751-753)gaT>gaC	p.D251D		NM_001257291.1|NM_032591.2	NP_001244220.1|NP_115980.1	Q96T83	SL9A7_HUMAN	solute carrier family 9, subfamily A (NHE7, cation proton antiporter 7), member 7	251					ion transport (GO:0006811)|potassium ion transmembrane transport (GO:0071805)|regulation of pH (GO:0006885)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|recycling endosome membrane (GO:0055038)|trans-Golgi network (GO:0005802)	potassium:proton antiporter activity (GO:0015386)|protein homodimerization activity (GO:0042803)|sodium:proton antiporter activity (GO:0015385)			breast(2)|cervix(2)|endometrium(3)|kidney(1)|large_intestine(6)|lung(3)|ovary(2)|prostate(1)|skin(1)	21						AAAAGAGACAATCTGTGTAGT	0.338																																					Pancreas(118;454 1696 1930 13865 39976)											0													97	84	89					X																	46529082		2203	4300	6503	SO:0001819	synonymous_variant	84679			AF298591	CCDS14269.1, CCDS75967.1	Xp11.3	2013-05-22	2012-03-22		ENSG00000065923	ENSG00000065923		"Solute carriers"	17123	protein-coding gene	gene with protein product		300368	"solute carrier family 9 (sodium/hydrogen exchanger), isoform 7", "solute carrier family 9 (sodium/hydrogen exchanger), member 7"			11279194	Standard	NM_001257291		Approved	NHE7	uc004dgv.2	Q96T83	OTTHUMG00000021428	ENST00000328306.4:c.753T>C	X.37:g.46529082A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O75827|Q5JXP9	Silent	SNP	ENST00000328306.4	37	CCDS14269.1																																																																																				0.338	SLC9A7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056370.1	NM_032591		G	46529082	A	G	46529082	2	3	669	1	0	0	0	0	0	0	0	1	14732	98	4	3		3	SLC9A7	23	46529082	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	8596210	46529082	108741478	230	43032										
ZNF81	347344	mdanderson.org	37	chrX	47774692	47774692	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	taaaagcaatgcagcaaagaAcctggataaaactattgggc	9	7	0	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:47774692A>G	ENST00000376954.1	+	6	1015	c.647A>G	c.(646-648)aAc>aGc	p.N216S	ZNF81_ENST00000338637.7_Missense_Mutation_p.N216S			P51508	ZNF81_HUMAN	zinc finger protein 81	216					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|large_intestine(1)|lung(1)|skin(1)	4		all_lung(315;0.0973)				GCAGCAAAGAACCTGGATAAA	0.348																																																0													63	61	61					X																	47774692		1844	4081	5925	SO:0001583	missense	347344			AK126949	CCDS43933.1	Xp11.23	2013-01-08	2006-05-12		ENSG00000197779	ENSG00000197779		"Zinc fingers, C2H2-type", "-"	13156	protein-coding gene	gene with protein product		314998	"zinc finger protein 81 (HFZ20)", "mental retardation, X-linked 45"	MRX45		8507979, 15121780	Standard	NM_007137		Approved	HFZ20	uc022bvq.1	P51508	OTTHUMG00000021462	ENST00000376954.1:c.647A>G	X.37:g.47774692A>G	ENSP00000366153:p.Asn216Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6RX22|Q96QH6	Missense_Mutation	SNP	ENST00000376954.1	37	CCDS43933.1	.	.	.	.	.	.	.	.	.	.	A	9.121	1.008947	0.19199	.	.	ENSG00000197779	ENST00000376954;ENST00000338637	T;T	0.05382	3.45;3.45	3.95	-0.0534	0.13818	.	0.149824	0.31370	N	0.007772	T	0.03871	0.0109	L	0.31752	0.955	0.22017	N	0.999417	B	0.15141	0.012	B	0.11329	0.006	T	0.36237	-0.9756	10	0.72032	D	0.01	.	1.2929	0.02064	0.3318:0.371:0.1138:0.1835	.	216	P51508	ZNF81_HUMAN	S	216	ENSP00000366153:N216S;ENSP00000341151:N216S	ENSP00000341151:N216S	N	+	2	0	ZNF81	47659636	0.000000	0.05858	0.005000	0.12908	0.380000	0.30137	0.093000	0.15086	-0.098000	0.12285	0.441000	0.28932	AAC		0.348	ZNF81-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056455.2	NM_007137		G	47774692	A	G	47774692	3	3	669	1	0	0	0	0	1	0	0	0	18186	43	2	3	661	3	ZNF81	23	47774692	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	1245610	47774692	107495868	231	43033										
ZNF81	347344	mdanderson.org	37	chrX	47774819	47774819	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggaaaagtcctcagcctcaaAcactcactcagtcaaaatgt	6	12	5	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:47774819A>G	ENST00000376954.1	+	6	1142	c.774A>G	c.(772-774)aaA>aaG	p.K258K	ZNF81_ENST00000338637.7_Silent_p.K258K			P51508	ZNF81_HUMAN	zinc finger protein 81	258					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|large_intestine(1)|lung(1)|skin(1)	4		all_lung(315;0.0973)				TCAGCCTCAAACACTCACTCA	0.398																																																0													58	54	55					X																	47774819		1934	4113	6047	SO:0001819	synonymous_variant	347344			AK126949	CCDS43933.1	Xp11.23	2013-01-08	2006-05-12		ENSG00000197779	ENSG00000197779		"Zinc fingers, C2H2-type", "-"	13156	protein-coding gene	gene with protein product		314998	"zinc finger protein 81 (HFZ20)", "mental retardation, X-linked 45"	MRX45		8507979, 15121780	Standard	NM_007137		Approved	HFZ20	uc022bvq.1	P51508	OTTHUMG00000021462	ENST00000376954.1:c.774A>G	X.37:g.47774819A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6RX22|Q96QH6	Silent	SNP	ENST00000376954.1	37	CCDS43933.1																																																																																				0.398	ZNF81-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056455.2	NM_007137		G	47774819	A	G	47774819	2	3	669	1	0	0	0	0	0	0	0	1	18186	40	2	3		3	ZNF81	23	47774819	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	127	47774819	107495741	232	43034										
GPR173	54328	mdanderson.org	37	chrX	53106925	53106925	+	Nonstop_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gaaccctactgtgtcatgtgAagcaggctggtaggcagaca	13	9	1	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:53106925A>G	ENST00000332582.4	+	2	1613	c.1122A>G	c.(1120-1122)tgA>tgG	p.*374W		NM_018969.5	NP_061842.1	Q9NS66	GP173_HUMAN	G protein-coupled receptor 173	0					negative regulation of neuron migration (GO:2001223)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|gonadotropin-releasing hormone receptor activity (GO:0004968)			breast(1)|cervix(1)|endometrium(1)|large_intestine(3)|lung(6)|ovary(2)|prostate(1)|skin(1)	16						GTGTCATGTGAAGCAGGCTGG	0.612																																																0													19	19	19					X																	53106925		2195	4282	6477	SO:0001578	stop_lost	54328			AB040801	CCDS14349.1	Xp11	2012-08-21	2006-02-15		ENSG00000184194	ENSG00000184194		"GPCR / Class A : Orphans"	18186	protein-coding gene	gene with protein product		300253	"G-protein coupled receptor 173", "G protein coupled receptor 173"			10833454	Standard	NM_018969		Approved	SREB3	uc004dru.3	Q9NS66	OTTHUMG00000021596	ENST00000332582.4:c.1122A>G	X.37:g.53106925A>G	ENSP00000331600:p.*374Trpext*16	Somatic		WXS	Illumina HiSeq	Phase_I	B1B0A5	Missense_Mutation	SNP	ENST00000332582.4	37	CCDS14349.1	.	.	.	.	.	.	.	.	.	.	A	13.75	2.329990	0.41297	.	.	ENSG00000184194	ENST00000332582	.	.	.	5.4	5.4	0.78164	.	.	.	.	.	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	12.3254	0.55007	1.0:0.0:0.0:0.0	.	.	.	.	W	374	.	.	X	+	3	0	GPR173	53123650	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	7.519000	0.81809	1.815000	0.52974	0.425000	0.28330	TGA		0.612	GPR173-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056717.2	NM_018969		G	53106925	A	G	53106925	4	3	669	1	0	0	0	0	0	0	0	0	6678	259	9	3	1124	3	GPR173	23	53106925	Nonstop_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	5332106	53106925	102163635	233	43035										
HSD17B10	3028	mdanderson.org	37	chrX	53458523	53458523	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttctctgggaggctggtcagCagtggggtgccaaacagacc	15	10	2	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:53458523C>T	ENST00000168216.6	-	6	642	c.615G>A	c.(613-615)ctG>ctA	p.L205L	RP3-339A18.6_ENST00000418049.1_RNA|HSD17B10_ENST00000375304.5_Silent_p.L196L|HSD17B10_ENST00000375298.4_Missense_Mutation_p.C169Y|HSD17B10_ENST00000495986.1_5'Flank	NM_001037811.2|NM_004493.2	NP_001032900.1|NP_004484.1	Q99714	HCD2_HUMAN	hydroxysteroid (17-beta) dehydrogenase 10	205					branched-chain amino acid catabolic process (GO:0009083)|cellular nitrogen compound metabolic process (GO:0034641)|lipid metabolic process (GO:0006629)|small molecule metabolic process (GO:0044281)|tRNA processing (GO:0008033)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	3-hydroxy-2-methylbutyryl-CoA dehydrogenase activity (GO:0047015)|3-hydroxyacyl-CoA dehydrogenase activity (GO:0003857)|cholate 7-alpha-dehydrogenase activity (GO:0008709)|poly(A) RNA binding (GO:0044822)|testosterone dehydrogenase [NAD(P)] activity (GO:0030283)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(1)|skin(1)	8						GGCTGGTCAGCAGTGGGGTGC	0.512																																																0													55	39	44					X																	53458523		2203	4297	6500	SO:0001819	synonymous_variant	3028			U96132	CCDS14354.1, CCDS35300.1	Xp11.2	2014-09-17	2006-11-22	2006-11-22	ENSG00000072506	ENSG00000072506	1.1.1.35	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 1"	4800	protein-coding gene	gene with protein product	"type 10 17b-HSD", "type 10 17beta-hydroxysteroid dehydrogenase", "AB-binding alcohol dehydrogenase", "short chain dehydrogenase/reductase family 5C, member 1", "mitochondrial RNase P subunit 2"	300256	"hydroxyacyl-Coenzyme A dehydrogenase, type II, hydroxyacyl-Coenzyme A dehydrogenase, type II", "mental retardation, X-linked, syndromic 10"	HADH2, MRXS10		9338779, 16899120, 19027726, 18984158, 17236142	Standard	NM_004493		Approved	ERAB, MHBD, 17b-HSD10, ABAD, SDR5C1, MRPP2, CAMR	uc004dsl.1	Q99714	OTTHUMG00000021612	ENST00000168216.6:c.615G>A	X.37:g.53458523C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5H927|Q6IBS9|Q8TCV9|Q96HD5	Silent	SNP	ENST00000168216.6	37	CCDS14354.1	.	.	.	.	.	.	.	.	.	.	C	11.61	1.689585	0.29962	.	.	ENSG00000072506	ENST00000375298	T	0.80033	-1.33	5.88	5.0	0.66597	.	.	.	.	.	D	0.84401	0.5464	.	.	.	0.25606	N	0.986548	.	.	.	.	.	.	T	0.78748	-0.2083	6	0.87932	D	0	.	15.438	0.75162	0.0:0.8253:0.1747:0.0	.	.	.	.	Y	169	ENSP00000364447:C169Y	ENSP00000364447:C169Y	C	-	2	0	HSD17B10	53475248	0.993000	0.37304	0.998000	0.56505	0.850000	0.48378	0.317000	0.19487	2.489000	0.83994	0.600000	0.82982	TGC		0.512	HSD17B10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056750.1	NM_004493		T	53458523	C	T	53458523	2	4	669	1	0	0	0	0	0	0	0	1	7386	697	25	2		2	HSD17B10	23	53458523	Silent	SNP	C	TCGA-KN-8433-01A-11D-2310-10	351598	53458523	101812037	234	43036										
TRO	7216	mdanderson.org	37	chrX	54955088	54955088	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gcagtaccgcgaggcagtggAgatggaagtccaagctgcag	16	9	0	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:54955088A>G	ENST00000173898.7	+	12	2043	c.1931A>G	c.(1930-1932)gAg>gGg	p.E644G	TRO_ENST00000375041.2_Missense_Mutation_p.E247G|TRO_ENST00000319167.8_Missense_Mutation_p.E644G|TRO_ENST00000399736.1_Missense_Mutation_p.E247G|TRO_ENST00000375022.4_Missense_Mutation_p.E644G|SNORA11_ENST00000408823.1_RNA|TRO_ENST00000420798.2_Missense_Mutation_p.E175G	NM_001039705.2	NP_001034794.1	Q12816	TROP_HUMAN	trophinin	644					embryo implantation (GO:0007566)|homophilic cell adhesion (GO:0007156)|negative regulation of cell growth (GO:0030308)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(1)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(19)|ovary(2)|skin(2)|urinary_tract(1)	37						GAGGCAGTGGAGATGGAAGTC	0.542																																																0													45	51	49					X																	54955088		2132	4239	6371	SO:0001583	missense	7216			U04811	CCDS43958.1, CCDS43959.1, CCDS59527.1, CCDS59528.1, CCDS59529.1	Xp11.22-p11.21	2008-02-05			ENSG00000067445	ENSG00000067445			12326	protein-coding gene	gene with protein product		300132				9533028, 11454705	Standard	NM_001039705		Approved	MAGE-D3, KIAA1114, MAGED3	uc004dtq.4	Q12816	OTTHUMG00000021640	ENST00000173898.7:c.1931A>G	X.37:g.54955088A>G	ENSP00000173898:p.Glu644Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B1AKE9|B1AKF1|F5GY27|Q96SX2|Q9NU89|Q9UPN8	Missense_Mutation	SNP	ENST00000173898.7	37	CCDS43959.1	.	.	.	.	.	.	.	.	.	.	A	13.22	2.172525	0.38315	.	.	ENSG00000067445	ENST00000173898;ENST00000319167;ENST00000375022;ENST00000399736;ENST00000319179;ENST00000420798;ENST00000375041	T;T;T;T;T;T	0.08546	3.8;3.57;3.57;3.43;3.08;3.44	2.99	2.99	0.34606	.	.	.	.	.	T	0.16896	0.0406	L	0.46157	1.445	0.36622	D	0.875822	B;D;D;B	0.71674	0.259;0.998;0.998;0.259	B;D;D;B	0.75484	0.047;0.968;0.986;0.143	T	0.10222	-1.0639	9	0.72032	D	0.01	.	4.2402	0.10645	0.8402:0.0:0.1597:0.0	.	247;247;644;644	B1AKE9;B1AKF1;Q96SX2;Q12816	.;.;.;TROP_HUMAN	G	644;644;644;247;247;175;247	ENSP00000173898:E644G;ENSP00000318278:E644G;ENSP00000364162:E644G;ENSP00000382641:E247G;ENSP00000405126:E175G;ENSP00000364181:E247G	ENSP00000173898:E644G	E	+	2	0	TRO	54971813	1.000000	0.71417	1.000000	0.80357	0.848000	0.48234	4.303000	0.59098	1.422000	0.47177	0.441000	0.28932	GAG		0.542	TRO-008	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000056837.3	NM_016157		G	54955088	A	G	54955088	3	3	669	1	0	0	0	0	1	0	0	0	16586	304	11	3	1973	3	TRO	23	54955088	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	1496565	54955088	100315472	235	43037										
ZXDB	158586	mdanderson.org	37	chrX	57620759	57620759	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	caccaaccaaagcggagtggAacgtacatcctgactctgac	9	13	1	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:57620759A>G	ENST00000374888.1	+	1	2491	c.2278A>G	c.(2278-2280)Aac>Gac	p.N760D		NM_007157.3	NP_009088.1	P98169	ZXDB_HUMAN	zinc finger, X-linked, duplicated B	760			N -> S (in dbSNP:rs1057340).		regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)			NS(1)|central_nervous_system(2)|endometrium(5)|kidney(1)|large_intestine(1)|lung(7)|ovary(2)|prostate(2)|skin(6)	27						AGCGGAGTGGAACGTACATCC	0.483																																																0													172	131	145					X																	57620759		2203	4300	6503	SO:0001583	missense	158586			L14788	CCDS35313.1	Xp11.1	2013-01-08			ENSG00000198455	ENSG00000198455		"Zinc fingers, C2H2-type"	13199	protein-coding gene	gene with protein product		300236				8268913	Standard	NM_007157		Approved	ZNF905	uc004dvd.3	P98169	OTTHUMG00000021685	ENST00000374888.1:c.2278A>G	X.37:g.57620759A>G	ENSP00000364023:p.Asn760Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K151|Q9UBB3	Missense_Mutation	SNP	ENST00000374888.1	37	CCDS35313.1	.	.	.	.	.	.	.	.	.	.	.	0.009	-1.853565	0.00558	.	.	ENSG00000198455	ENST00000374888	T	0.09350	2.99	3.91	1.57	0.23409	.	0.492036	0.23457	N	0.047972	T	0.04227	0.0117	N	0.16166	0.38	0.09310	N	0.999999	B	0.02656	0.0	B	0.06405	0.002	T	0.44726	-0.9309	10	0.02654	T	1	.	6.0158	0.19603	0.7572:0.0:0.2428:0.0	.	760	P98169	ZXDB_HUMAN	D	760	ENSP00000364023:N760D	ENSP00000364023:N760D	N	+	1	0	ZXDB	57637484	0.543000	0.26434	0.166000	0.22797	0.698000	0.40448	1.055000	0.30467	0.527000	0.28560	0.430000	0.28490	AAC		0.483	ZXDB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056922.1	NM_007157		G	57620759	A	G	57620759	3	3	669	1	0	0	0	0	1	0	0	0	18263	246	9	3	2280	3	ZXDB	23	57620759	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	2665671	57620759	97649801	236	43038										
GDPD2	54857	mdanderson.org	37	chrX	69645623	69645623	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	cctcccacagattcctcttcCgccgctggggacactggatg	10	16	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:69645623C>T	ENST00000374382.3	+	4	471	c.220C>T	c.(220-222)Cgc>Tgc	p.R74C	GDPD2_ENST00000453994.2_Missense_Mutation_p.R74C|GDPD2_ENST00000538649.1_5'UTR|GDPD2_ENST00000536730.1_5'UTR	NM_017711.3	NP_060181.2	Q9HCC8	GDPD2_HUMAN	glycerophosphodiester phosphodiesterase domain containing 2	74					glycerol metabolic process (GO:0006071)|lipid metabolic process (GO:0006629)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	glycerophosphodiester phosphodiesterase activity (GO:0008889)|glycerophosphoinositol inositolphosphodiesterase activity (GO:0047394)|metal ion binding (GO:0046872)			NS(1)|breast(1)|cervix(1)|endometrium(6)|large_intestine(8)|lung(3)|ovary(2)	22	Renal(35;0.156)					ATTCCTCTTCCGCCGCTGGGG	0.607																																																0													120	104	109					X																	69645623		2203	4300	6503	SO:0001583	missense	54857			AK000214	CCDS14402.1, CCDS55437.1, CCDS55438.1	Xq13.1	2011-01-25			ENSG00000130055	ENSG00000130055			25974	protein-coding gene	gene with protein product	"osteoblast differentiation promoting factor"					12975309	Standard	NM_017711		Approved	OBDPF, FLJ20207, GDE3	uc011mpk.2	Q9HCC8	OTTHUMG00000021776	ENST00000374382.3:c.220C>T	X.37:g.69645623C>T	ENSP00000363503:p.Arg74Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRH4|B4DVC9|Q9NXJ6	Missense_Mutation	SNP	ENST00000374382.3	37	CCDS14402.1	.	.	.	.	.	.	.	.	.	.	C	14.22	2.469382	0.43839	.	.	ENSG00000130055	ENST00000453994;ENST00000374382	T;T	0.29917	1.55;1.55	5.19	4.32	0.51571	.	1.069260	0.07122	N	0.844137	T	0.29716	0.0742	L	0.44542	1.39	0.18873	N	0.999981	D;P	0.60575	0.988;0.946	B;B	0.41299	0.353;0.333	T	0.17289	-1.0374	9	.	.	.	-0.4479	11.4917	0.50385	0.3236:0.6764:0.0:0.0	.	74;74	B4DVC9;Q9HCC8	.;GDPD2_HUMAN	C	74	ENSP00000414019:R74C;ENSP00000363503:R74C	.	R	+	1	0	GDPD2	69562348	0.135000	0.22499	0.242000	0.24170	0.624000	0.37722	0.680000	0.25306	1.149000	0.42402	0.594000	0.82650	CGC		0.607	GDPD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057070.1	NM_017711		T	69645623	C	T	69645623	3	4	669	1	0	0	0	0	1	0	0	0	6331	652	23	1	230	1	GDPD2	23	69645623	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	12024864	69645623	85624937	237	43039										
SLC7A3	84889	mdanderson.org	37	chrX	70147758	70147758	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tcaggctgaagctggtagtaAggcatcatcagggtgagtgc	15	7	3	2			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:70147758A>G	ENST00000374299.3	-	6	1077	c.933T>C	c.(931-933)ccT>ccC	p.P311P	SLC7A3_ENST00000298085.4_Silent_p.P311P			Q8WY07	CTR3_HUMAN	solute carrier family 7 (cationic amino acid transporter, y+ system), member 3	311					amino acid transport (GO:0006865)|ion transport (GO:0006811)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	arginine transmembrane transporter activity (GO:0015181)|L-lysine transmembrane transporter activity (GO:0015189)			breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|liver(1)|lung(9)|ovary(1)|urinary_tract(1)	31	Renal(35;0.156)				L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	GCTGGTAGTAAGGCATCATCA	0.532																																																0													118	93	101					X																	70147758		2203	4300	6503	SO:0001819	synonymous_variant	84889			AF320612	CCDS14404.1	Xq12	2013-05-22			ENSG00000165349	ENSG00000165349		"Solute carriers"	11061	protein-coding gene	gene with protein product		300443				11591158	Standard	NM_001048164		Approved	CAT-3, ATRC3, FLJ14541	uc004dyn.3	Q8WY07	OTTHUMG00000021780	ENST00000374299.3:c.933T>C	X.37:g.70147758A>G		Somatic		WXS	Illumina HiSeq	Phase_I	D3DVU7|Q5JQR2|Q8N185|Q8NCA7|Q96SZ7	Silent	SNP	ENST00000374299.3	37	CCDS14404.1																																																																																				0.532	SLC7A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057080.1	NM_032803		G	70147758	A	G	70147758	2	3	669	1	0	0	0	0	0	0	0	1	14711	59	3	3		3	SLC7A3	23	70147758	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	502135	70147758	85122802	238	43040										
HDX	139324	mdanderson.org	37	chrX	83616516	83616516	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tttaattcagttgccacagcTtcaattttctctctacaaac	3	11	4	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:83616516T>C	ENST00000297977.5	-	5	1521	c.1410A>G	c.(1408-1410)gaA>gaG	p.E470E	HDX_ENST00000373177.2_Silent_p.E470E|HDX_ENST00000506585.2_Silent_p.E412E	NM_001177479.1|NM_144657.4	NP_001170950.1|NP_653258.2	Q7Z353	HDX_HUMAN	highly divergent homeobox	470						nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|endometrium(6)|kidney(2)|large_intestine(12)|liver(1)|lung(19)|ovary(1)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	48						TTGCCACAGCTTCAATTTTCT	0.413																																					Pancreas(53;231 1169 36156 43751 51139)											0													73	60	65					X																	83616516		2203	4300	6503	SO:0001819	synonymous_variant	139324			BX538112	CCDS35342.1, CCDS55456.1	Xq21.1	2012-03-09	2007-07-13	2007-07-13	ENSG00000165259	ENSG00000165259		"Homeoboxes / POU class"	26411	protein-coding gene	gene with protein product			"chromosome X open reading frame 43"	CXorf43			Standard	NM_144657		Approved	FLJ30678	uc004eek.2	Q7Z353	OTTHUMG00000021926	ENST00000297977.5:c.1410A>G	X.37:g.83616516T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1Y5|B7ZL18|Q5JZB4|Q96NK7	Silent	SNP	ENST00000297977.5	37	CCDS35342.1																																																																																				0.413	HDX-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057379.2	NM_144657		C	83616516	T	C	83616516	2	2	669	1	0	0	0	0	0	0	0	1	7033	1606	56	3		3	HDX	23	83616516	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	13468758	83616516	71654044	239	43041										
HNRNPH2	3188	mdanderson.org	37	chrX	100668187	100668187	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gggagggatgggcttatccaAccagtctagttatggaggtc	15	7	1	0			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:100668187A>G	ENST00000316594.5	+	2	1289	c.1211A>G	c.(1210-1212)aAc>aGc	p.N404S		NM_001032393.2|NM_001199973.1|NM_001199974.1|NM_019597.4	NP_001027565.1|NP_001186902.1|NP_001186903.1|NP_062543.1	P55795	HNRH2_HUMAN	heterogeneous nuclear ribonucleoprotein H2 (H')	404	2 X 16 AA Gly-rich approximate repeats.				gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)	membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			breast(3)|large_intestine(2)|lung(6)|skin(1)	12						GGCTTATCCAACCAGTCTAGT	0.488																																																0													202	191	195					X																	100668187		2203	4300	6503	SO:0001583	missense	3188			U01923	CCDS14485.1	Xq22	2013-02-12		2008-04-18	ENSG00000126945	ENSG00000126945		"RNA binding motif (RRM) containing"	5042	protein-coding gene	gene with protein product		300610		HNRPH2		7499401	Standard	NM_019597		Approved	hnRNPH', FTP3, HNRPH'	uc004ehn.3	P55795	OTTHUMG00000022029	ENST00000316594.5:c.1211A>G	X.37:g.100668187A>G	ENSP00000361927:p.Asn404Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A1L400|Q9HHA7	Missense_Mutation	SNP	ENST00000316594.5	37	CCDS14485.1	.	.	.	.	.	.	.	.	.	.	A	3.428	-0.116753	0.06838	.	.	ENSG00000126945	ENST00000457902;ENST00000316594	T	0.09817	2.94	4.62	4.62	0.57501	.	0.549745	0.18226	N	0.147723	T	0.06096	0.0158	N	0.22421	0.69	0.38861	D	0.956481	P	0.41673	0.759	B	0.36378	0.223	T	0.41980	-0.9478	10	0.23891	T	0.37	-6.5213	6.0861	0.19968	0.8865:0.0:0.1135:0.0	.	404	P55795	HNRH2_HUMAN	S	359;404	ENSP00000361927:N404S	ENSP00000361927:N404S	N	+	2	0	HNRNPH2	100554843	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	3.845000	0.55880	1.825000	0.53177	0.417000	0.27973	AAC		0.488	HNRNPH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057556.1	NM_019597		G	100668187	A	G	100668187	3	3	669	1	0	0	0	0	1	0	0	0	7274	43	2	3	1213	3	HNRNPH2	23	100668187	Missense_Mutation	SNP	A	TCGA-KN-8433-01A-11D-2310-10	17051671	100668187	54602373	240	43042										
TCEAL2	140597	mdanderson.org	37	chrX	101382406	101382406	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aaagaaatttacaggaccccTtctatcctaggggtccaagg	9	10	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:101382406T>C	ENST00000372780.1	+	3	823	c.604T>C	c.(604-606)Ttc>Ctc	p.F202L	TCEAL2_ENST00000329035.2_Missense_Mutation_p.F202L	NM_080390.3	NP_525129.1	Q9H3H9	TCAL2_HUMAN	transcription elongation factor A (SII)-like 2	202					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)				NS(1)|biliary_tract(1)|breast(1)|kidney(1)|large_intestine(1)|lung(5)|ovary(1)	11						ACAGGACCCCTTCTATCCTAG	0.483																																																0													85	90	88					X																	101382406		2200	4288	6488	SO:0001583	missense	140597			AF325115	CCDS14496.1	Xq22.1-q22.3	2014-03-21			ENSG00000184905	ENSG00000184905			29818	protein-coding gene	gene with protein product						16221301	Standard	NM_080390		Approved	my048, MY0876G05, WEX1	uc004eip.3	Q9H3H9	OTTHUMG00000022048	ENST00000372780.1:c.604T>C	X.37:g.101382406T>C	ENSP00000361866:p.Phe202Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5C7	Missense_Mutation	SNP	ENST00000372780.1	37	CCDS14496.1	.	.	.	.	.	.	.	.	.	.	T	19.80	3.894753	0.72639	.	.	ENSG00000184905	ENST00000372780;ENST00000329035	T;T	0.08458	3.09;3.09	3.32	3.32	0.38043	.	0.148040	0.31772	N	0.007093	T	0.08802	0.0218	L	0.52011	1.625	0.09310	N	1	B	0.28291	0.206	B	0.32724	0.151	T	0.19712	-1.0297	10	0.33141	T	0.24	.	7.3385	0.26623	0.0:0.0:0.0:1.0	.	202	Q9H3H9	TCAL2_HUMAN	L	202	ENSP00000361866:F202L;ENSP00000332359:F202L	ENSP00000332359:F202L	F	+	1	0	TCEAL2	101269062	0.009000	0.17119	0.004000	0.12327	0.920000	0.55202	2.184000	0.42575	1.544000	0.49359	0.481000	0.45027	TTC		0.483	TCEAL2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057605.1	NM_080390		C	101382406	T	C	101382406	3	2	669	1	0	0	0	0	1	0	0	0	15683	1609	56	3	606	3	TCEAL2	23	101382406	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	714219	101382406	53888154	241	43043										
KLHL13	90293	mdanderson.org	37	chrX	117053557	117053557	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	aactggcagcttccagcgtgTcttgaaggttgtccatatta	10	9	1	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:117053557T>C	ENST00000262820.3	-	4	1406	c.497A>G	c.(496-498)gAc>gGc	p.D166G	KLHL13_ENST00000545703.1_Missense_Mutation_p.D124G|KLHL13_ENST00000371878.1_Missense_Mutation_p.D115G|KLHL13_ENST00000541812.1_Missense_Mutation_p.D150G|KLHL13_ENST00000371882.1_Missense_Mutation_p.D115G|KLHL13_ENST00000540167.1_Missense_Mutation_p.D150G|KLHL13_ENST00000371876.1_Missense_Mutation_p.D115G|KLHL13_ENST00000539496.1_Missense_Mutation_p.D169G|KLHL13_ENST00000469946.1_Missense_Mutation_p.D115G	NM_033495.3	NP_277030.2	Q9P2N7	KLH13_HUMAN	kelch-like family member 13	166					cytokinesis (GO:0000910)|mitotic nuclear division (GO:0007067)|protein ubiquitination (GO:0016567)	Cul3-RING ubiquitin ligase complex (GO:0031463)				NS(1)|breast(3)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(6)|lung(9)|prostate(2)|skin(3)|stomach(1)|urinary_tract(1)	34						TTCCAGCGTGTCTTGAAGGTT	0.368																																																0													75	80	78					X																	117053557		2203	4300	6503	SO:0001583	missense	90293			AB037730	CCDS14571.1, CCDS55479.1, CCDS55480.1, CCDS55481.1	Xq23-q24	2013-01-30	2013-01-30	2004-02-18	ENSG00000003096	ENSG00000003096		"Kelch-like", "BTB/POZ domain containing"	22931	protein-coding gene	gene with protein product		300655	"BTB and kelch domain containing 2, KIAA1309", "kelch-like 13 (Drosophila)"	BKLHD2, KIAA1309		10718198	Standard	NM_033495		Approved	FLJ10262	uc011mtp.2	Q9P2N7	OTTHUMG00000022252	ENST00000262820.3:c.497A>G	X.37:g.117053557T>C	ENSP00000262820:p.Asp166Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KV78|B3KWM7|B7Z3S9|B7Z5P2|B7Z802|D3DWH6|Q6P2E3|Q96QI7|Q9UDN9	Missense_Mutation	SNP	ENST00000262820.3	37	CCDS14571.1	.	.	.	.	.	.	.	.	.	.	T	15.78	2.934356	0.52866	.	.	ENSG00000003096	ENST00000371882;ENST00000371876;ENST00000371878;ENST00000447671;ENST00000541812;ENST00000540167;ENST00000539496;ENST00000262820;ENST00000545703;ENST00000469946	T;T;T;T;T;T;T;T;T;T	0.70869	-0.52;-0.52;-0.52;-0.52;-0.52;-0.52;-0.52;-0.52;-0.52;-0.52	5.07	5.07	0.68467	BTB/POZ-like (1);BTB/POZ (1);BTB/POZ fold (2);	0.000000	0.85682	D	0.000000	T	0.76709	0.4025	L	0.58583	1.82	0.80722	D	1	P;D;P;P	0.58620	0.86;0.983;0.875;0.885	B;P;P;P	0.57101	0.43;0.813;0.614;0.665	T	0.75136	-0.3424	10	0.30854	T	0.27	.	13.9563	0.64150	0.0:0.0:0.0:1.0	.	150;169;160;166	Q9P2N7-3;Q9P2N7-5;Q9P2N7-4;Q9P2N7	.;.;.;KLH13_HUMAN	G	115;115;115;115;150;150;169;166;124;115	ENSP00000360949:D115G;ENSP00000360943:D115G;ENSP00000360945:D115G;ENSP00000412640:D115G;ENSP00000444450:D150G;ENSP00000441029:D150G;ENSP00000443191:D169G;ENSP00000262820:D166G;ENSP00000440707:D124G;ENSP00000419803:D115G	ENSP00000262820:D166G	D	-	2	0	KLHL13	116937585	1.000000	0.71417	1.000000	0.80357	0.047000	0.14425	7.868000	0.87116	1.870000	0.54199	0.412000	0.27726	GAC		0.368	KLHL13-201	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_033495		C	117053557	T	C	117053557	3	2	669	1	0	0	0	0	1	0	0	0	8376	1667	58	3	1486	3	KLHL13	23	117053557	Missense_Mutation	SNP	T	TCGA-KN-8433-01A-11D-2310-10	15671151	117053557	38217003	242	43044										
GLUD2	2747	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	120182071	120182071	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gtgtgcagtggttgatgtgcCgtttgggggtgctaaagctg	18	5	0	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:120182071C>T	ENST00000328078.1	+	1	610	c.533C>T	c.(532-534)cCg>cTg	p.P178L		NM_012084.3	NP_036216.2	P49448	DHE4_HUMAN	glutamate dehydrogenase 2	178					glutamate biosynthetic process (GO:0006537)|glutamate catabolic process (GO:0006538)|glutamate metabolic process (GO:0006536)|oxidation-reduction process (GO:0055114)	mitochondrion (GO:0005739)	ADP binding (GO:0043531)|glutamate dehydrogenase (NAD+) activity (GO:0004352)|glutamate dehydrogenase [NAD(P)+] activity (GO:0004353)|GTP binding (GO:0005525)|leucine binding (GO:0070728)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(9)|lung(15)|ovary(1)|pancreas(1)|urinary_tract(1)	38						GTTGATGTGCCGTTTGGGGGT	0.453																																																0													118	91	100					X																	120182071		2203	4300	6503	SO:0001583	missense	2747			U08997	CCDS14603.1	Xq24-q25	2008-02-05	2003-02-24	2003-02-28	ENSG00000182890	ENSG00000182890			4336	protein-coding gene	gene with protein product		300144	"glutamate dehydrogenase pseudogene 1"	GLUDP1		8207021, 9109504	Standard	NM_012084		Approved		uc004eto.3	P49448	OTTHUMG00000022320	ENST00000328078.1:c.533C>T	X.37:g.120182071C>T	ENSP00000327589:p.Pro178Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8G0|Q9UDQ4	Missense_Mutation	SNP	ENST00000328078.1	37	CCDS14603.1	.	.	.	.	.	.	.	.	.	.	C	8.558	0.877132	0.17395	.	.	ENSG00000182890	ENST00000328078	D	0.97688	-4.49	1.62	0.69	0.18039	Glutamate/phenylalanine/leucine/valine dehydrogenase, dimerisation domain (1);	0.000000	0.85682	D	0.000000	D	0.98940	0.9640	H	0.98769	4.325	0.80722	D	1	D	0.89917	1.0	D	0.75484	0.986	D	0.96735	0.9542	10	0.87932	D	0	.	4.7803	0.13199	0.3626:0.6374:0.0:0.0	.	178	P49448	DHE4_HUMAN	L	178	ENSP00000327589:P178L	ENSP00000327589:P178L	P	+	2	0	GLUD2	120009752	0.986000	0.35501	0.370000	0.25965	0.080000	0.17528	1.818000	0.39012	0.175000	0.19841	0.472000	0.43445	CCG		0.453	GLUD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058133.1	NM_012084		T	120182071	C	T	120182071	3	4	669	1	0	0	0	0	1	0	0	0	6484	652	23	1	535	1	GLUD2	23	120182071	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	3128514	120182071	35088489	243	43045										
GPR112	139378	mdanderson.org	37	chrX	135494443	135494443	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ggattcttcatttttgtgttTcactgtgtgatgaaggagag	12	4	3	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:135494443T>C	ENST00000394143.1	+	24	9246	c.8955T>C	c.(8953-8955)ttT>ttC	p.F2985F	GPR112_ENST00000287534.4_Intron|GPR112_ENST00000394141.1_Silent_p.F2780F|GPR112_ENST00000370652.1_Silent_p.F2985F|GPR112_ENST00000412101.1_Silent_p.F2780F	NM_153834.3	NP_722576.3	Q8IZF6	GP112_HUMAN	G protein-coupled receptor 112	2985					G-protein coupled receptor signaling pathway (GO:0007186)|neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			NS(2)|breast(13)|central_nervous_system(2)|cervix(3)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(33)|lung(97)|ovary(5)|pancreas(2)|prostate(4)|skin(10)|upper_aerodigestive_tract(1)|urinary_tract(2)	199	Acute lymphoblastic leukemia(192;0.000127)					TTTTTGTGTTTCACTGTGTGA	0.473																																																0													226	165	186					X																	135494443		2203	4300	6503	SO:0001819	synonymous_variant	139378			AY140954	CCDS35409.1	Xq26.3	2014-08-08			ENSG00000156920	ENSG00000156920		"-", "GPCR / Class B : Orphans"	18992	protein-coding gene	gene with protein product						12435584	Standard	XM_005262367		Approved	RP1-299I16, PGR17	uc004ezu.1	Q8IZF6	OTTHUMG00000022508	ENST00000394143.1:c.8955T>C	X.37:g.135494443T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2A2J1|A2A2J2|Q5EGP2|Q86SM6	Silent	SNP	ENST00000394143.1	37	CCDS35409.1																																																																																				0.473	GPR112-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000286639.1			C	135494443	T	C	135494443	2	2	669	1	0	0	0	0	0	0	0	1	6636	1780	62	3		3	GPR112	23	135494443	Silent	SNP	T	TCGA-KN-8433-01A-11D-2310-10	15312372	135494443	19776117	244	43046										
MCF2	4168	mdanderson.org	37	chrX	138695406	138695406	+	Intron	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	agtttacatgcttgaaagaaAgagtatccaactcccactgc	7	10	0	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:138695406A>G	ENST00000370576.4	-	10	1573				MCF2_ENST00000536274.1_Intron|MCF2_ENST00000520602.1_Intron|MCF2_ENST00000370578.4_Intron|MCF2_ENST00000414978.1_Intron|MCF2_ENST00000338585.6_Silent_p.S460S|MCF2_ENST00000519895.1_Silent_p.S520S|MCF2_ENST00000370573.4_Intron|MCF2_ENST00000483690.1_5'UTR	NM_001171879.1|NM_005369.4	NP_001165350.1|NP_005360.3	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence						apoptotic signaling pathway (GO:0097190)|dendrite development (GO:0016358)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(2)|cervix(2)|endometrium(4)|kidney(2)|large_intestine(15)|lung(34)|pancreas(1)|pleura(1)|prostate(1)	62	Acute lymphoblastic leukemia(192;0.000127)					CTTGAAAGAAAGAGTATCCAA	0.308																																																0																																										SO:0001627	intron_variant	4168				CCDS14667.1, CCDS48175.1, CCDS55514.1, CCDS55515.1, CCDS55516.1, CCDS55517.1	Xq26.3-q27.1	2012-07-24			ENSG00000101977	ENSG00000101977		"Rho guanine nucleotide exchange factors"	6940	protein-coding gene	gene with protein product	"Oncogene MCF2 (oncogene DBL)"	311030				2577874, 1611909	Standard	NM_001099855		Approved	DBL, ARHGEF21	uc011mwo.1	P10911	OTTHUMG00000022537	ENST00000370576.4:c.1363+1633T>C	X.37:g.138695406A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3Y5|B7Z869|B7ZAV1|E9PH77|F5H091|P14919|Q5JYJ2|Q5JYJ3|Q5JYJ4|Q8IUF3|Q8IUF4|Q9UJB3	Silent	SNP	ENST00000370576.4	37	CCDS14667.1																																																																																				0.308	MCF2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000058560.1	NM_005369		G	138695406	A	G	138695406	1	3	669	0	1	0	0	0	0	0	0	0	9385	59	3	3		3	MCF2	23	138695406	Intron	SNP	A	TCGA-KN-8433-01A-11D-2310-10	3200963	138695406	16575154	245	43047										
MAGEC1	9947	mdanderson.org	37	chrX	140993912	140993912	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gattcctgtgagcccctcctCctcctccactttactgagtc	6	17	0	2	rs12558365	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:140993912C>T	ENST00000285879.4	+	4	1008	c.722C>T	c.(721-723)tCc>tTc	p.S241F	MAGEC1_ENST00000406005.2_Intron	NM_005462.4	NP_005453.2	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	241										breast(3)|central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(22)|lung(60)|ovary(1)|pancreas(1)|prostate(1)|skin(7)|stomach(5)|upper_aerodigestive_tract(7)|urinary_tract(1)	127	Acute lymphoblastic leukemia(192;6.56e-05)					AGCCCCTCCTCCTCCTCCACT	0.483										HNSCC(15;0.026)																																						0													76	66	69					X																	140993912		2192	4219	6411	SO:0001583	missense	9947			AF064589	CCDS35417.1	Xq26	2009-03-18			ENSG00000155495	ENSG00000155495			6812	protein-coding gene	gene with protein product	"cancer/testis antigen family 7, member 1"	300223				9485030, 9618514	Standard	NM_005462		Approved	MAGE-C1, CT7, MGC39366, CT7.1	uc004fbt.3	O60732	OTTHUMG00000022569	ENST00000285879.4:c.722C>T	X.37:g.140993912C>T	ENSP00000285879:p.Ser241Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A0PK03|O75451|Q8TCV4	Missense_Mutation	SNP	ENST00000285879.4	37	CCDS35417.1	318	0.19168173598553345	100	0.21008403361344538	65	0.19345238095238096	62	0.11272727272727273	94	0.12668463611859837	t	0.551	-0.849407	0.02651	.	.	ENSG00000155495	ENST00000285879;ENST00000370511;ENST00000370510	T;T	0.13420	4.3;2.59	.	.	.	.	.	.	.	.	T	0.00012	0.0000	N	0.08118	0	0.09310	P	0.99999999595708	B	0.06786	0.001	B	0.01281	0.0	T	0.45011	-0.9290	7	0.08179	T	0.78	.	2.6694	0.05063	0.0:0.5025:0.0:0.4974	.	241	O60732	MAGC1_HUMAN	F	241;43;42	ENSP00000285879:S241F;ENSP00000359542:S43F	ENSP00000285879:S241F	S	+	2	0	MAGEC1	140821578	0.000000	0.05858	0.116000	0.21606	0.116000	0.19942	-2.548000	0.00930	0.054000	0.16065	0.054000	0.15206	TCC		0.483	MAGEC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058604.1	NM_005462		T	140993912	C	T	140993912	3	4	669	1	0	0	0	0	1	0	0	0	9187	855	30	2	728	2	MAGEC1	23	140993912	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	2298506	140993912	14276648	246	43048										
MAGEC1	9947	mdanderson.org	37	chrX	140994381	140994381	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	agttcccctgagagaactcaCagtacttttgagggttttcc	9	10	1	3	rs76145360		TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:140994381C>G	ENST00000285879.4	+	4	1477	c.1191C>G	c.(1189-1191)caC>caG	p.H397Q	MAGEC1_ENST00000406005.2_Intron	NM_005462.4	NP_005453.2	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	397								p.H397Q(1)		breast(3)|central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(22)|lung(60)|ovary(1)|pancreas(1)|prostate(1)|skin(7)|stomach(5)|upper_aerodigestive_tract(7)|urinary_tract(1)	127	Acute lymphoblastic leukemia(192;6.56e-05)					AGAGAACTCACAGTACTTTTG	0.483										HNSCC(15;0.026)																																						1	Substitution - Missense(1)	pancreas(1)											109	121	117					X																	140994381		2203	4296	6499	SO:0001583	missense	9947			AF064589	CCDS35417.1	Xq26	2009-03-18			ENSG00000155495	ENSG00000155495			6812	protein-coding gene	gene with protein product	"cancer/testis antigen family 7, member 1"	300223				9485030, 9618514	Standard	NM_005462		Approved	MAGE-C1, CT7, MGC39366, CT7.1	uc004fbt.3	O60732	OTTHUMG00000022569	ENST00000285879.4:c.1191C>G	X.37:g.140994381C>G	ENSP00000285879:p.His397Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A0PK03|O75451|Q8TCV4	Missense_Mutation	SNP	ENST00000285879.4	37	CCDS35417.1	.	.	.	.	.	.	.	.	.	.	g	0.003	-2.420945	0.00188	.	.	ENSG00000155495	ENST00000285879	T	0.02085	4.46	.	.	.	.	.	.	.	.	T	0.00875	0.0029	N	0.08118	0	0.09310	N	1	B	0.06786	0.001	B	0.01281	0.0	T	0.44143	-0.9347	8	0.09590	T	0.72	.	2.1541	0.03808	0.2516:0.2493:0.0:0.4992	.	397	O60732	MAGC1_HUMAN	Q	397	ENSP00000285879:H397Q	ENSP00000285879:H397Q	H	+	3	2	MAGEC1	140822047	0.000000	0.05858	0.001000	0.08648	0.001000	0.01503	-4.426000	0.00236	-3.737000	0.00113	-3.811000	0.00019	CAC		0.483	MAGEC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058604.1	NM_005462		G	140994381	C	G	140994381	3	3	669	1	0	0	0	0	1	0	0	0	9187	477	17	4	1197	4	MAGEC1	23	140994381	Missense_Mutation	SNP	C	TCGA-KN-8433-01A-11D-2310-10	469	140994381	14276179	247	43049										
SLITRK4	139065	mdanderson.org	37	chrX	142716870	142716870	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	tctatagtttgtggaatgaaAgcttctgtgctcagtccatc	9	8	3	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:142716870A>G	ENST00000381779.4	-	2	2280	c.2055T>C	c.(2053-2055)gcT>gcC	p.A685A	SLITRK4_ENST00000338017.4_Silent_p.A685A|SLITRK4_ENST00000356928.1_Silent_p.A685A	NM_001184749.2|NM_001184750.1|NM_173078.4	NP_001171678.1|NP_001171679.1|NP_775101.1	Q8IW52	SLIK4_HUMAN	SLIT and NTRK-like family, member 4	685						integral component of membrane (GO:0016021)				autonomic_ganglia(1)|breast(1)|endometrium(6)|kidney(2)|large_intestine(11)|lung(27)|ovary(2)|pancreas(2)|prostate(4)|skin(2)|upper_aerodigestive_tract(2)	60	Acute lymphoblastic leukemia(192;6.56e-05)					GTGGAATGAAAGCTTCTGTGC	0.468																																																0													120	120	120					X																	142716870		2203	4300	6503	SO:0001819	synonymous_variant	139065			BC040986	CCDS14679.1	Xq27.3	2004-06-23			ENSG00000179542	ENSG00000179542			23502	protein-coding gene	gene with protein product		300562				14557068	Standard	NM_001184749		Approved	DKFZp547M2010	uc004fby.3	Q8IW52	OTTHUMG00000022580	ENST00000381779.4:c.2055T>C	X.37:g.142716870A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JXG3|Q8TCM8|Q96DL3	Silent	SNP	ENST00000381779.4	37	CCDS14679.1																																																																																				0.468	SLITRK4-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058617.1	NM_173078		G	142716870	A	G	142716870	2	3	669	1	0	0	0	0	0	0	0	1	14758	59	3	3		3	SLITRK4	23	142716870	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	1722489	142716870	12553690	248	43050										
PRRG3	79057	broad.mit.edu	37	chrX	150869347	150869348	+	Frame_Shift_Del	DEL	CT	CT	-													0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gcaccctctacctccctgagCtctctctctccagactgtcc					rs149812906	byFrequency	TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:150869347_150869348delCT	ENST00000370353.3	+	4	928_929	c.538_539delCT	c.(538-540)ctcfs	p.L180fs	PRRG3_ENST00000538575.1_Frame_Shift_Del_p.L180fs			Q9BZD7	TMG3_HUMAN	proline rich Gla (G-carboxyglutamic acid) 3 (transmembrane)	180						extracellular region (GO:0005576)|integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(6)|ovary(3)|prostate(2)|skin(3)	24	Acute lymphoblastic leukemia(192;6.56e-05)					CCTCCCTGAGCTCTCTCTCTCC	0.663																																																0																																										SO:0001589	frameshift_variant	79057			AK074574	CCDS14699.1	Xq28	2008-02-05			ENSG00000130032	ENSG00000130032			30798	protein-coding gene	gene with protein product		300685				11171957	Standard	NM_024082		Approved	TMG3	uc022cgt.1	Q9BZD7	OTTHUMG00000024170	ENST00000370353.3:c.538_539delCT	X.37:g.150869355_150869356delCT	ENSP00000359378:p.Leu180fs	Somatic		WXS	Illumina HiSeq	Phase_I	A1A523|A1A575|Q8N2N6	Frame_Shift_Del	DEL	ENST00000370353.3	37	CCDS14699.1																																																																																				0.663	PRRG3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060880.1	NM_024082		-	150869348	CT	-	150869347	7	5	669	1	0	1	0	1	0	0	0	0	12617	797	28	0	548	0	PRRG3	23	150869347	Frame_Shift_Del	DEL	CT	TCGA-KN-8433-01A-11D-2310-10	8152477	150869347	4401213	249	43051										
FLNA	2316	mdanderson.org	37	chrX	153578045	153578045	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	ttggccttgaaggggctgccCccaatgtggtaggggccgcc	16	12	0	1			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:153578045C>T	ENST00000369850.3	-	46	7760	c.7524G>A	c.(7522-7524)ggG>ggA	p.G2508G	FLNA_ENST00000344736.4_Silent_p.G2468G|FLNA_ENST00000369856.3_Silent_p.G641G|FLNA_ENST00000360319.4_Silent_p.G2500G|FLNA_ENST00000422373.1_Silent_p.G2500G|FLNA_ENST00000498491.1_5'UTR	NM_001110556.1	NP_001104026.1	P21333	FLNA_HUMAN	filamin A, alpha	2508					actin crosslink formation (GO:0051764)|actin cytoskeleton reorganization (GO:0031532)|adenylate cyclase-inhibiting dopamine receptor signaling pathway (GO:0007195)|blood coagulation (GO:0007596)|cell junction assembly (GO:0034329)|cilium assembly (GO:0042384)|cytoplasmic sequestering of protein (GO:0051220)|early endosome to late endosome transport (GO:0045022)|epithelial to mesenchymal transition (GO:0001837)|establishment of protein localization (GO:0045184)|mRNA transcription from RNA polymerase II promoter (GO:0042789)|negative regulation of protein catabolic process (GO:0042177)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|platelet activation (GO:0030168)|platelet aggregation (GO:0070527)|platelet degranulation (GO:0002576)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of transcription factor import into nucleus (GO:0042993)|protein localization to cell surface (GO:0034394)|protein stabilization (GO:0050821)|receptor clustering (GO:0043113)|spindle assembly involved in mitosis (GO:0090307)	actin cytoskeleton (GO:0015629)|actin filament (GO:0005884)|apical dendrite (GO:0097440)|cortical cytoskeleton (GO:0030863)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendritic shaft (GO:0043198)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|Myb complex (GO:0031523)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)	actin filament binding (GO:0051015)|Fc-gamma receptor I complex binding (GO:0034988)|glycoprotein binding (GO:0001948)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)|Rac GTPase binding (GO:0048365)|Ral GTPase binding (GO:0017160)|Rho GTPase binding (GO:0017048)|signal transducer activity (GO:0004871)|small GTPase binding (GO:0031267)|transcription factor binding (GO:0008134)			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)					AGGGGCTGCCCCCAATGTGGT	0.627																																																0													26	30	29					X																	153578045		1989	4143	6132	SO:0001819	synonymous_variant	2316			X70082	CCDS44021.1, CCDS48194.1	Xq28	2009-07-23	2009-07-23		ENSG00000196924	ENSG00000196924			3754	protein-coding gene	gene with protein product	"actin binding protein 280"	300017	"filamin A, alpha (actin binding protein 280)"	FLN1, FLN, OPD2, OPD1		8406501, 12612583	Standard	NM_001456		Approved	ABP-280	uc004fkk.2	P21333	OTTHUMG00000022712	ENST00000369850.3:c.7524G>A	X.37:g.153578045C>T		Somatic		WXS	Illumina HiSeq	Phase_I	E9KL45|Q5HY53|Q5HY55|Q8NF52	Silent	SNP	ENST00000369850.3	37	CCDS48194.1																																																																																				0.627	FLNA-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058942.3			T	153578045	C	T	153578045	2	4	669	1	0	0	0	0	0	0	0	1	5940	610	22	2		2	FLNA	23	153578045	Silent	SNP	C	TCGA-KN-8433-01A-11D-2310-10	2708698	153578045	1692515	250	43052										
F8	2157	mdanderson.org	37	chrX	154132764	154132764	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0206611570247934	5	1	0.45550761214687	0	0.475603536212173	0.0151515151515152	0.591750841750844	0	gtgttagtgtggcagaccagAaggggtccaatcaggcctga	15	8	1	3			TCGA-KN-8433-01A-11D-2310-10	TCGA-KN-8433-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b6e97d6b-3b11-4cee-a4a9-2b59d6e88a3d	f16bdd65-b3fd-46c9-b27f-ad59ee5a9916	g.chrX:154132764A>G	ENST00000360256.4	-	17	5822	c.5622T>C	c.(5620-5622)ctT>ctC	p.L1874L		NM_000132.3	NP_000123.1	P00451	FA8_HUMAN	coagulation factor VIII, procoagulant component	1874	F5/8 type A 3.|Plastocyanin-like 5.				acute-phase response (GO:0006953)|blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|cell adhesion (GO:0007155)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|plasma membrane (GO:0005886)|platelet alpha granule lumen (GO:0031093)	copper ion binding (GO:0005507)|oxidoreductase activity (GO:0016491)|serine-type endopeptidase activity (GO:0004252)			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(3)|kidney(6)|large_intestine(27)|liver(1)|lung(47)|ovary(5)|pancreas(3)|prostate(1)|skin(5)|upper_aerodigestive_tract(5)|urinary_tract(2)	120	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	GGCAGACCAGAAGGGGTCCAA	0.463																																																0													161	135	144					X																	154132764		2203	4300	6503	SO:0001819	synonymous_variant	2157			M90707	CCDS35457.1, CCDS44026.1	Xq28	2014-09-17	2008-07-29		ENSG00000185010	ENSG00000185010			3546	protein-coding gene	gene with protein product	"Factor VIIIF8B", "hemophilia A"	300841		F8C		6438528, 3935400	Standard	NM_000132		Approved	FVIII, DXS1253E, HEMA	uc004fmt.3	P00451	OTTHUMG00000022688	ENST00000360256.4:c.5622T>C	X.37:g.154132764A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q14286|Q5HY69	Silent	SNP	ENST00000360256.4	37	CCDS35457.1																																																																																				0.463	F8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058869.4			G	154132764	A	G	154132764	2	3	669	1	0	0	0	0	0	0	0	1	5352	233	9	3		3	F8	23	154132764	Silent	SNP	A	TCGA-KN-8433-01A-11D-2310-10	554719	154132764	1137796	251	43053										
PEX10	5192	ucsc.edu	37	chr1	2341848	2341848	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	caaagtaggccacatctgagAgcagctcaacctccttcctc	7	15	2	1			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr1:2341848A>G	ENST00000447513.2	-	2	223	c.155T>C	c.(154-156)cTc>cCc	p.L52P	PEX10_ENST00000507596.1_Missense_Mutation_p.L52P|PEX10_ENST00000515760.1_5'Flank|PEX10_ENST00000288774.3_Missense_Mutation_p.L52P	NM_002617.3	NP_002608.1	O60683	PEX10_HUMAN	peroxisomal biogenesis factor 10	52					peroxisome organization (GO:0007031)|protein import into peroxisome matrix (GO:0016558)	integral component of peroxisomal membrane (GO:0005779)|intracellular (GO:0005622)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	protein C-terminus binding (GO:0008022)|zinc ion binding (GO:0008270)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|lung(3)|skin(2)	7	all_cancers(77;0.000247)|all_epithelial(69;9.96e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;5.35e-20)|all_lung(118;2.78e-08)|Lung NSC(185;2.69e-06)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;1.1e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.02e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;3.94e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00102)|BRCA - Breast invasive adenocarcinoma(365;0.00435)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0169)|Lung(427;0.199)		CACATCTGAGAGCAGCTCAAC	0.592																																					GBM(12;9 508 1649 13619)											0													115	96	103					1																	2341848		2203	4300	6503	SO:0001583	missense	5192			AF060502	CCDS41.1, CCDS44045.1	1p36.32	2013-01-09	2008-08-26		ENSG00000157911	ENSG00000157911		"RING-type (C3HC4) zinc fingers"	8851	protein-coding gene	gene with protein product		602859	"peroxisome biogenesis factor 10"			9683594	Standard	NM_002617		Approved	RNF69	uc001ajg.3	O60683	OTTHUMG00000001637	ENST00000447513.2:c.155T>C	1.37:g.2341848A>G	ENSP00000407922:p.Leu52Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWD8|Q5T095|Q9BW90	Missense_Mutation	SNP	ENST00000447513.2	37	CCDS44045.1	.	.	.	.	.	.	.	.	.	.	A	18.80	3.700056	0.68501	.	.	ENSG00000157911	ENST00000288774;ENST00000447513;ENST00000507596	D;D;D	0.86366	-2.11;-2.11;-2.11	4.73	4.73	0.59995	Pex, N-terminal (1);	0.222000	0.39615	N	0.001309	D	0.93575	0.7949	M	0.88377	2.95	0.80722	D	1	D;P	0.71674	0.998;0.938	D;P	0.66716	0.946;0.876	D	0.94192	0.7442	10	0.54805	T	0.06	-0.1355	13.4134	0.60956	1.0:0.0:0.0:0.0	.	52;52	O60683;O60683-2	PEX10_HUMAN;.	P	52	ENSP00000288774:L52P;ENSP00000407922:L52P;ENSP00000424291:L52P	ENSP00000288774:L52P	L	-	2	0	PEX10	2331708	1.000000	0.71417	0.943000	0.38184	0.962000	0.63368	8.505000	0.90515	1.768000	0.52137	0.379000	0.24179	CTC		0.592	PEX10-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000367454.1	NM_153818		G	2341848	A	G	2341848	3	3	670	1	0	0	0	0	1	0	0	0	11743	304	11	3	905	3	PEX10	1	2341848	Missense_Mutation	SNP	A	TCGA-KN-8434-01A-11D-2310-10		2341848	246908773	1	43054										
GSTM5	2949	mdanderson.org	37	chr1	110256127	110256127	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	tgccctacttgattgatgggGctcacaagatcacccagagc	10	12	2	4	rs17854972	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr1:110256127G>A	ENST00000256593.3	+	4	257	c.199G>A	c.(199-201)Gct>Act	p.A67T	GSTM5_ENST00000369813.1_Missense_Mutation_p.A26T|GSTM5_ENST00000369812.5_Missense_Mutation_p.A86T	NM_000851.3	NP_000842.2	P46439	GSTM5_HUMAN	glutathione S-transferase mu 5	67	GST N-terminal.		A -> T (in dbSNP:rs17854972). {ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:15489334}.		glutathione derivative biosynthetic process (GO:1901687)|glutathione metabolic process (GO:0006749)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)	glutathione transferase activity (GO:0004364)			NS(1)|central_nervous_system(6)|large_intestine(1)|lung(7)|ovary(1)|prostate(1)|skin(2)|urinary_tract(2)	21		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Colorectal(144;0.0131)|all cancers(265;0.0252)|Epithelial(280;0.0265)|Lung(183;0.0425)|COAD - Colon adenocarcinoma(174;0.0474)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	GATTGATGGGGCTCACAAGAT	0.592													G|||	201	0.0401358	0.0129	0.0548	5008	,	,		18809	0.0		0.0964	False		,,,				2504	0.0501															0								G	THR/ALA	113,4293	86.8+/-125.4	2,109,2092	298	231	254		199	-8.7	0	1	dbSNP_123	254	958,7642	209.0+/-250.3	54,850,3396	no	missense	GSTM5	NM_000851.3	58	56,959,5488	AA,AG,GG		11.1395,2.5647,8.2347	benign	67/219	110256127	1071,11935	2203	4300	6503	SO:0001583	missense	2949			L02321	CCDS811.1	1p13.3	2012-06-21	2008-11-26		ENSG00000134201	ENSG00000134201	2.5.1.18	"Glutathione S-transferases / Soluble"	4637	protein-coding gene	gene with protein product		138385	"glutathione S-transferase M5"			8473333	Standard	NM_000851		Approved		uc001dyn.3	P46439	OTTHUMG00000011644	ENST00000256593.3:c.199G>A	1.37:g.110256127G>A	ENSP00000256593:p.Ala67Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0V8|Q6PD78	Missense_Mutation	SNP	ENST00000256593.3	37	CCDS811.1	108	0.04945054945054945	7	0.014227642276422764	24	0.06629834254143646	0	0.0	77	0.10158311345646438	G	2.990	-0.208371	0.06180	0.025647	0.111395	ENSG00000134201	ENST00000256593;ENST00000369813;ENST00000369812	T;T;T	0.41758	0.99;3.33;0.99	4.33	-8.66	0.00866	Glutathione S-transferase, N-terminal (2);Thioredoxin-like fold (2);	0.314056	0.27080	N	0.021026	T	0.03434	0.0099	N	0.03608	-0.345	0.09310	N	1	B;B	0.12630	0.006;0.0	B;B	0.12156	0.007;0.0	T	0.15492	-1.0435	10	0.37606	T	0.19	.	2.4536	0.04524	0.3627:0.2675:0.2738:0.096	rs17854972	26;67	Q5T8Q9;P46439	.;GSTM5_HUMAN	T	67;26;86	ENSP00000256593:A67T;ENSP00000358828:A26T;ENSP00000358827:A86T	ENSP00000256593:A67T	A	+	1	0	GSTM5	110057650	0.000000	0.05858	0.000000	0.03702	0.008000	0.06430	-0.869000	0.04232	-2.436000	0.00553	-2.830000	0.00107	GCT		0.592	GSTM5-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000032200.1	NM_000851		A	110256127	G	A	110256127	3	1	670	1	0	0	0	0	1	0	0	0	6848	1203	42	2	213	2	GSTM5	1	110256127	Missense_Mutation	SNP	G	TCGA-KN-8434-01A-11D-2310-10	107914279	110256127	138994494	2	43055										
ADORA3	140	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	112029261	112029261	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gccttgcagcttctggttttGttgcctgataggtctgaatc	11	9	2	2			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr1:112029261G>T	ENST00000369716.4	-	4	952	c.819C>A	c.(817-819)aaC>aaA	p.N273K	ADORA3_ENST00000369717.4_Missense_Mutation_p.N192K	NM_020683.6	NP_065734.5	P33765	AA3R_HUMAN	adenosine A3 receptor	0					activation of adenylate cyclase activity (GO:0007190)|histamine secretion by mast cell (GO:0002553)|inflammatory response (GO:0006954)|positive regulation of calcium-mediated signaling (GO:0050850)|positive regulation of inflammatory response (GO:0050729)|positive regulation of leukocyte migration (GO:0002687)|positive regulation of mast cell degranulation (GO:0043306)|positive regulation of mucus secretion (GO:0070257)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|regulation of heart contraction (GO:0008016)|response to wounding (GO:0009611)|signal transduction (GO:0007165)	integral component of plasma membrane (GO:0005887)|mast cell granule (GO:0042629)|plasma membrane (GO:0005886)	G-protein coupled adenosine receptor activity (GO:0001609)			NS(1)|breast(2)|endometrium(1)|large_intestine(2)|lung(3)|ovary(2)|skin(1)	12		all_cancers(81;1.63e-06)|all_epithelial(167;5.01e-06)|all_lung(203;8.02e-05)|Lung NSC(277;0.000156)		all cancers(265;0.0185)|Colorectal(144;0.0186)|Lung(183;0.0238)|COAD - Colon adenocarcinoma(174;0.0644)|Epithelial(280;0.0872)|LUSC - Lung squamous cell carcinoma(189;0.134)	Adenosine(DB00640)|Aminophylline(DB01223)|Enprofylline(DB00824)	TTCTGGTTTTGTTGCCTGATA	0.557																																																0													99	91	94					1																	112029261		2203	4300	6503	SO:0001583	missense	140			BC029831	CCDS838.1, CCDS839.1, CCDS41369.1	1p13.2	2014-09-17			ENSG00000121933	ENSG00000121933		"GPCR / Class A : Adenosine receptors", "Immunoglobulin superfamily / V-set domain containing"	268	protein-coding gene	gene with protein product		600445				7607699	Standard	NM_020683		Approved	AD026	uc001ebf.3	P33765	OTTHUMG00000011957	ENST00000369716.4:c.819C>A	1.37:g.112029261G>T	ENSP00000358730:p.Asn273Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3P4|Q6UWU0|Q9BYZ1	Missense_Mutation	SNP	ENST00000369716.4	37	CCDS838.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	10.98|10.98	1.505141|1.505141	0.26949|0.26949	.|.	.|.	ENSG00000121933|ENSG00000121933	ENST00000369717;ENST00000369716;ENST00000355437;ENST00000443498|ENST00000414219;ENST00000442484	T;T|.	0.54071|.	2.41;0.59|.	4.61|4.61	-1.37|-1.37	0.09056|0.09056	.|.	0.361223|.	0.23975|.	N|.	0.042737|.	T|T	0.11024|0.11024	0.0269|0.0269	L|L	0.42245|0.42245	1.32|1.32	0.09310|0.09310	N|N	1|1	B;B|.	0.24368|.	0.102;0.017|.	B;B|.	0.21151|.	0.033;0.009|.	T|T	0.33497|0.33497	-0.9866|-0.9866	10|5	0.72032|.	D|.	0.01|.	-9.9979|-9.9979	1.6911|1.6911	0.02852|0.02852	0.1896:0.3201:0.3425:0.1478|0.1896:0.3201:0.3425:0.1478	.|.	192;273|.	Q5QNY7;P33765-2|.	.;.|.	K|K	192;273;104;98|133;86	ENSP00000358731:N192K;ENSP00000358730:N273K|.	ENSP00000347612:N104K|.	N|T	-|-	3|2	2|0	ADORA3|ADORA3	111830784|111830784	0.003000|0.003000	0.15002|0.15002	0.004000|0.004000	0.12327|0.12327	0.381000|0.381000	0.30169|0.30169	0.086000|0.086000	0.14935|0.14935	-0.084000|-0.084000	0.12595|0.12595	0.561000|0.561000	0.74099|0.74099	AAC|ACA		0.557	ADORA3-007	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000157679.1	NM_000677, NM_020683		T	112029261	G	T	112029261	3	4	670	1	0	0	0	0	1	0	0	0	329	1368	48	4	236	4	ADORA3	1	112029261	Missense_Mutation	SNP	G	TCGA-KN-8434-01A-11D-2310-10	1773134	112029261	137221360	3	43056										
ZNF238	10472	ucsc.edu;bcgsc.ca	37	chr1	244218131	244218131	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gatgatgaccccagagagcgAgcgtgtccaggtggagggag	18	8	0	3			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr1:244218131A>G	ENST00000358704.4	+	2	1204	c.1055A>G	c.(1054-1056)gAg>gGg	p.E352G		NM_001278196.1|NM_006352.4|NM_205768.2	NP_001265125.1|NP_006343.2|NP_991331.1	Q99592	ZBT18_HUMAN	zinc finger and BTB domain containing 18	343	Interaction with DNMT3A.				cerebellum development (GO:0021549)|cerebral cortex development (GO:0021987)|hippocampus development (GO:0021766)|homeostasis of number of cells (GO:0048872)|in utero embryonic development (GO:0001701)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neuron development (GO:0048666)|regulation of cell division (GO:0051302)|skeletal muscle tissue development (GO:0007519)|transcription, DNA-templated (GO:0006351)	intercellular bridge (GO:0045171)|microtubule cytoskeleton (GO:0015630)|nuclear chromosome (GO:0000228)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)										CCAGAGAGCGAGCGTGTCCAG	0.632																																																0													73	65	68					1																	244218131		2203	4300	6503	SO:0001583	missense	10472			U38896	CCDS1622.1	1q44	2013-09-19	2013-01-09	2013-01-09	ENSG00000179456	ENSG00000179456		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	13030	protein-coding gene	gene with protein product		608433	"zinc finger protein 238"	ZNF238		9568537, 9013868	Standard	NM_205768		Approved	C2H2-171, TAZ-1, RP58	uc031psv.1	Q99592	OTTHUMG00000040013	ENST00000358704.4:c.1055A>G	1.37:g.244218131A>G	ENSP00000351539:p.Glu352Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5U3|Q13397|Q5VU40|Q8N463|Q9UD99	Missense_Mutation	SNP	ENST00000358704.4	37	CCDS1622.1	.	.	.	.	.	.	.	.	.	.	A	13.17	2.158698	0.38119	.	.	ENSG00000179456	ENST00000366538;ENST00000358704	T	0.14391	2.51	5.73	5.73	0.89815	.	0.053977	0.64402	D	0.000001	T	0.10380	0.0254	N	0.24115	0.695	0.80722	D	1	B;P	0.34934	0.345;0.476	B;B	0.36186	0.109;0.219	T	0.12091	-1.0561	10	0.07990	T	0.79	.	16.0181	0.80457	1.0:0.0:0.0:0.0	.	343;352	Q99592;Q99592-2	ZN238_HUMAN;.	G	352	ENSP00000351539:E352G	ENSP00000351539:E352G	E	+	2	0	ZNF238	242284754	1.000000	0.71417	0.997000	0.53966	0.956000	0.61745	7.508000	0.81686	2.195000	0.70347	0.528000	0.53228	GAG		0.632	ZBTB18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096513.2	NM_205768		G	244218131	A	G	244218131	3	3	670	1	0	0	0	0	1	0	0	0	17802	304	11	3	1061	3	ZNF238	1	244218131	Missense_Mutation	SNP	A	TCGA-KN-8434-01A-11D-2310-10	132188870	244218131	5032490	4	43057										
BIRC6	57448	mdanderson.org	37	chr2	32641045	32641045	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ttgagagagaaaaaacgtctGacatttctactcttggacac	8	8	3	3			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr2:32641045G>A	ENST00000421745.2	+	10	2820	c.2686G>A	c.(2686-2688)Gac>Aac	p.D896N		NM_016252.3	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat containing 6	896					apoptotic process (GO:0006915)|labyrinthine layer development (GO:0060711)|mitotic nuclear division (GO:0007067)|negative regulation of apoptotic process (GO:0043066)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|positive regulation of cell proliferation (GO:0008284)|protein phosphorylation (GO:0006468)|protein ubiquitination (GO:0016567)|regulation of cell proliferation (GO:0042127)|regulation of cytokinesis (GO:0032465)|spongiotrophoblast layer development (GO:0060712)	endosome (GO:0005768)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)|midbody (GO:0030496)|spindle pole (GO:0000922)|trans-Golgi network (GO:0005802)	acid-amino acid ligase activity (GO:0016881)|cysteine-type endopeptidase inhibitor activity (GO:0004869)|ubiquitin-protein transferase activity (GO:0004842)			NS(4)|breast(8)|central_nervous_system(3)|endometrium(21)|haematopoietic_and_lymphoid_tissue(1)|kidney(15)|large_intestine(31)|lung(65)|ovary(7)|pancreas(1)|prostate(5)|skin(5)|stomach(1)|urinary_tract(5)	172	Acute lymphoblastic leukemia(172;0.155)					AAAAACGTCTGACATTTCTAC	0.403																																					Pancreas(94;175 1509 16028 18060 45422)											0													70	72	71					2																	32641045		2203	4300	6503	SO:0001583	missense	57448			AF265555	CCDS33175.2	2p22.3	2011-01-25	2011-01-25		ENSG00000115760	ENSG00000115760		"Baculoviral IAP repeat containing", "Ubiquitin-conjugating enzymes E2"	13516	protein-coding gene	gene with protein product	"apollon"	605638	"baculoviral IAP repeat-containing 6"			10544019	Standard	NM_016252		Approved	BRUCE	uc010ezu.3	Q9NR09	OTTHUMG00000150528	ENST00000421745.2:c.2686G>A	2.37:g.32641045G>A	ENSP00000393596:p.Asp896Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q9ULD1	Missense_Mutation	SNP	ENST00000421745.2	37	CCDS33175.2	.	.	.	.	.	.	.	.	.	.	G	14.32	2.498920	0.44455	.	.	ENSG00000115760	ENST00000421745	T	0.63417	-0.04	5.76	4.83	0.62350	.	0.115184	0.56097	D	0.000021	T	0.51601	0.1684	L	0.29908	0.895	0.42755	D	0.99378	B	0.23058	0.079	B	0.18263	0.021	T	0.51076	-0.8751	10	0.49607	T	0.09	.	16.2927	0.82758	0.0:0.1322:0.8678:0.0	.	896	Q9NR09	BIRC6_HUMAN	N	896	ENSP00000393596:D896N	ENSP00000393596:D896N	D	+	1	0	BIRC6	32494549	1.000000	0.71417	0.996000	0.52242	0.866000	0.49608	4.791000	0.62460	2.726000	0.93360	0.655000	0.94253	GAC		0.403	BIRC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318769.3	NM_016252		A	32641045	G	A	32641045	3	1	670	1	0	0	0	0	1	0	0	0	1438	1290	45	2	2724	2	BIRC6	2	32641045	Missense_Mutation	SNP	G	TCGA-KN-8434-01A-11D-2310-10		32641045	210558328	5	43058										
TBC1D5	9779	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr3	17413592	17413592	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	atatatctgtggtgcaatttCtagtctgttcaagtgcatgt	9	6	4	0			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr3:17413592C>T	ENST00000253692.7	-	13	2634	c.970G>A	c.(970-972)Gaa>Aaa	p.E324K	TBC1D5_ENST00000446818.2_Missense_Mutation_p.E324K|TBC1D5_ENST00000414318.2_Intron|TBC1D5_ENST00000429924.2_Missense_Mutation_p.E276K|TBC1D5_ENST00000429383.4_Missense_Mutation_p.E324K	NM_014744.2	NP_055559.1	Q92609	TBCD5_HUMAN	TBC1 domain family, member 5	324	Rab-GAP TBC. {ECO:0000255|PROSITE- ProRule:PRU00163}.					retromer complex (GO:0030904)	Rab GTPase activator activity (GO:0005097)			NS(1)|breast(1)|endometrium(1)|kidney(3)|large_intestine(7)|lung(14)|ovary(2)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	36						GGTGCAATTTCTAGTCTGTTC	0.373																																																0													134	130	132					3																	17413592		2203	4300	6503	SO:0001583	missense	9779			D86965	CCDS33714.1, CCDS46770.1	3p24.3	2013-07-09			ENSG00000131374	ENSG00000131374			19166	protein-coding gene	gene with protein product		615740				19531583	Standard	NM_014744		Approved	KIAA0210	uc003cbe.3	Q92609	OTTHUMG00000155488	ENST00000253692.7:c.970G>A	3.37:g.17413592C>T	ENSP00000253692:p.Glu324Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NP25|C9JP52	Missense_Mutation	SNP	ENST00000253692.7	37	CCDS33714.1	.	.	.	.	.	.	.	.	.	.	C	27.2	4.811923	0.90707	.	.	ENSG00000131374	ENST00000253692;ENST00000429383;ENST00000446818;ENST00000429924	T;T;T;T	0.22539	1.95;1.95;1.95;1.95	5.79	5.79	0.91817	Rab-GAP/TBC domain (4);	0.000000	0.85682	D	0.000000	T	0.35480	0.0933	N	0.26092	0.79	0.80722	D	1	B;D;D	0.56521	0.096;0.974;0.976	B;P;D	0.67900	0.262;0.906;0.954	T	0.02625	-1.1132	10	0.44086	T	0.13	-15.2812	20.0332	0.97547	0.0:1.0:0.0:0.0	.	276;324;324	C9J3F6;C9JP52;Q92609	.;.;TBCD5_HUMAN	K	324;324;324;276	ENSP00000253692:E324K;ENSP00000398127:E324K;ENSP00000402935:E324K;ENSP00000411925:E276K	ENSP00000253692:E324K	E	-	1	0	TBC1D5	17388596	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.786000	0.85741	2.749000	0.94314	0.491000	0.48974	GAA		0.373	TBC1D5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340301.3	NM_014744		T	17413592	C	T	17413592	3	4	670	1	0	0	0	0	1	0	0	0	15635	922	32	2	1527	2	TBC1D5	3	17413592	Missense_Mutation	SNP	C	TCGA-KN-8434-01A-11D-2310-10		17413592	180608838	6	43059										
SLC26A6	65010	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr3	48669762	48669762	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gtctcattgatcatggagtcGttcaaggcctgcggggccag	14	10	3	1	rs146756914	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr3:48669762G>A	ENST00000395550.2	-	5	548	c.501C>T	c.(499-501)aaC>aaT	p.N167N	SLC26A6_ENST00000358747.6_Silent_p.N146N|SLC26A6_ENST00000455886.2_Intron|SLC26A6_ENST00000383733.3_Silent_p.N167N|SLC26A6_ENST00000420764.2_Silent_p.N167N|SLC26A6_ENST00000337000.8_Intron|SLC26A6_ENST00000482282.1_5'UTR			Q9BXS9	S26A6_HUMAN	solute carrier family 26 (anion exchanger), member 6	167					angiotensin-activated signaling pathway (GO:0038166)|anion transport (GO:0006820)|bicarbonate transport (GO:0015701)|cellular response to cAMP (GO:0071320)|cellular response to fructose stimulus (GO:0071332)|cellular response to interferon-gamma (GO:0071346)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|epithelial fluid transport (GO:0042045)|formate transport (GO:0015724)|intestinal absorption (GO:0050892)|intracellular pH elevation (GO:0051454)|ion transport (GO:0006811)|mannitol transport (GO:0015797)|oxalate transport (GO:0019532)|oxalic acid secretion (GO:0046724)|positive regulation of dipeptide transmembrane transport (GO:2001150)|protein kinase C signaling (GO:0070528)|regulation of intracellular pH (GO:0051453)|sperm capacitation (GO:0048240)|sulfate transmembrane transport (GO:1902358)|sulfate transport (GO:0008272)|transepithelial chloride transport (GO:0030321)|transepithelial transport (GO:0070633)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|brush border membrane (GO:0031526)|chloride channel complex (GO:0034707)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|membrane-bounded vesicle (GO:0031988)|plasma membrane (GO:0005886)|sperm midpiece (GO:0097225)|vesicle membrane (GO:0012506)	anion:anion antiporter activity (GO:0015301)|bicarbonate transmembrane transporter activity (GO:0015106)|chloride channel activity (GO:0005254)|chloride transmembrane transporter activity (GO:0015108)|efflux transmembrane transporter activity (GO:0015562)|formate efflux transmembrane transporter activity (GO:0015660)|formate transmembrane transporter activity (GO:0015499)|formate uptake transmembrane transporter activity (GO:0015659)|oxalate transmembrane transporter activity (GO:0019531)|PDZ domain binding (GO:0030165)|secondary active sulfate transmembrane transporter activity (GO:0008271)|sulfate transmembrane transporter activity (GO:0015116)		SLC26A6/PRKAR2A(2)	NS(1)|breast(1)|cervix(1)|endometrium(3)|large_intestine(1)|lung(11)|ovary(1)	19				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00609)		TCATGGAGTCGTTCAAGGCCT	0.592													G|||	6	0.00119808	0.0045	0.0	5008	,	,		20479	0.0		0.0	False		,,,				2504	0.0				NSCLC(13;369 479 28271 30152 44026)											0								G	,,,	1,4289		0,1,2144	56	62	60		438,501,501,501	-0.4	0	3	dbSNP_134	60	0,8476		0,0,4238	yes	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	SLC26A6	NM_001040454.1,NM_022911.2,NM_134263.2,NM_134426.2	,,,	0,1,6382	AA,AG,GG		0.0,0.0233,0.0078	,,,	146/739,167/760,167/759,167/741	48669762	1,12765	2145	4238	6383	SO:0001819	synonymous_variant	65010			AF279265	CCDS43087.1, CCDS46824.1, CCDS46825.1, CCDS46826.1, CCDS63627.1, CCDS63628.1	3p21.31	2013-08-05	2013-07-18		ENSG00000225697	ENSG00000225697		"Solute carriers"	14472	protein-coding gene	gene with protein product	"pendrin-like protein 1", "pendrin L1", "sulfate anion transporter", "anion transporter 1"	610068	"solute carrier family 26, member 6"			11087667, 11247665	Standard	NM_022911		Approved	DKFZp586E1422		Q9BXS9	OTTHUMG00000186381	ENST00000395550.2:c.501C>T	3.37:g.48669762G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DMZ1|Q548A7|Q96Q90|Q9NQU1	Silent	SNP	ENST00000395550.2	37	CCDS43087.1																																																																																				0.592	SLC26A6-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000345040.1	NM_022911		A	48669762	G	A	48669762	2	1	670	1	0	0	0	0	0	0	0	1	14534	1136	40	1		1	SLC26A6	3	48669762	Silent	SNP	G	TCGA-KN-8434-01A-11D-2310-10	31256170	48669762	149352668	7	43060										
SPCS1	28972	mdanderson.org	37	chr3	52740182	52740182	+	5'UTR	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	acgcgcagtgccagaccttaCccctcacggtccttaagtct	8	16	2	1	rs6617	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr3:52740182C>G	ENST00000602728.1	+	0	89				GLT8D1_ENST00000478968.2_5'Flank|GLT8D1_ENST00000407584.3_5'Flank|SPCS1_ENST00000233025.7_Missense_Mutation_p.P41A|GLT8D1_ENST00000266014.5_5'Flank|GLT8D1_ENST00000394783.3_5'Flank|SPCS1_ENST00000423431.1_Intron|GLT8D1_ENST00000491606.1_5'Flank			Q9Y6A9	SPCS1_HUMAN	signal peptidase complex subunit 1 homolog (S. cerevisiae)						cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|proteolysis (GO:0006508)|regulation of insulin secretion (GO:0050796)|signal peptide processing (GO:0006465)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)	endoplasmic reticulum membrane (GO:0005789)|integral component of endoplasmic reticulum membrane (GO:0030176)|signal peptidase complex (GO:0005787)	peptidase activity (GO:0008233)			kidney(2)|large_intestine(1)|lung(1)|ovary(1)|prostate(1)	6				BRCA - Breast invasive adenocarcinoma(193;6.51e-05)|Kidney(197;0.000583)|KIRC - Kidney renal clear cell carcinoma(197;0.000751)|OV - Ovarian serous cystadenocarcinoma(275;0.0469)		CCAGACCTTACCCCTCACGGT	0.697													G|||	2230	0.445288	0.5575	0.5144	5008	,	,		13167	0.4286		0.4304	False		,,,				2504	0.2771															0													10	15	14					3																	52740182		687	1590	2277	SO:0001623	5_prime_UTR_variant	28972			AF092138	CCDS33769.2	3p21.31	2005-01-05			ENSG00000114902	ENSG00000114902			23401	protein-coding gene	gene with protein product		610358				8632014	Standard	NM_014041		Approved	SPC12, HSPC033, YJR010C-A, SPC1	uc011bei.2	Q9Y6A9	OTTHUMG00000154930	ENST00000602728.1:c.-81C>G	3.37:g.52740182C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KNF8|Q9BVW1	Missense_Mutation	SNP	ENST00000602728.1	37		1074	0.49175824175824173	273	0.5548780487804879	192	0.5303867403314917	280	0.48951048951048953	329	0.4340369393139842	G	1.062	-0.672572	0.03403	.	.	ENSG00000114902	ENST00000233025	.	.	.	3.96	-4.39	0.03611	.	.	.	.	.	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.41716	-0.9493	7	0.02654	T	1	.	3.0659	0.06214	0.2759:0.4525:0.1602:0.1114	rs6617;rs1139798;rs3184127;rs17548630;rs6617	41	Q9Y6A9	SPCS1_HUMAN	A	41	.	ENSP00000233025:P41A	P	+	1	0	SPCS1	52715222	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.407000	0.02488	-1.177000	0.02744	-0.127000	0.14921	CCC		0.697	SPCS1-006	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000467759.1	NM_014041		G	52740182	C	G	52740182	1	3	670	0	1	0	0	0	0	0	0	0	15035	507	18	4		4	SPCS1	3	52740182	5'UTR	SNP	C	TCGA-KN-8434-01A-11D-2310-10	4070420	52740182	145282248	8	43061										
MASP1	5648	broad.mit.edu	37	chr3	186978580	186978581	+	Frame_Shift_Ins	INS	-	-	G													0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	tagccgaagcggcaggagcaINSgtagtagccgccaatgtagt							TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr3:186978580_186978581insG	ENST00000337774.5	-	4	884_885	c.495_496insC	c.(493-498)tactgcfs	p.C166fs	MASP1_ENST00000495249.1_Intron|MASP1_ENST00000296280.6_Frame_Shift_Ins_p.C166fs|MASP1_ENST00000169293.6_Frame_Shift_Ins_p.C166fs|MASP1_ENST00000392470.2_Frame_Shift_Ins_p.C140fs|MASP1_ENST00000392472.2_Frame_Shift_Ins_p.C53fs	NM_001879.5	NP_001870.3	P48740	MASP1_HUMAN	mannan-binding lectin serine peptidase 1 (C4/C2 activating component of Ra-reactive factor)	166	EGF-like; calcium-binding.|Homodimerization. {ECO:0000250}.|Interaction with FCN2.|Interaction with MBL2.				complement activation (GO:0006956)|complement activation, lectin pathway (GO:0001867)|innate immune response (GO:0045087)|negative regulation of complement activation (GO:0045916)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	calcium ion binding (GO:0005509)|calcium-dependent protein binding (GO:0048306)|peptidase activity (GO:0008233)|protein homodimerization activity (GO:0042803)|serine-type endopeptidase activity (GO:0004252)			NS(1)|breast(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(12)|liver(2)|lung(27)|ovary(2)|pancreas(1)|prostate(3)|urinary_tract(1)	60	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		CGGCAGGAGCAGTAGTAGCCGC	0.554																																																0																																										SO:0001589	frameshift_variant	5648			D28593	CCDS33907.1, CCDS33908.1, CCDS33909.1	3q27-q28	2014-09-17	2005-08-17		ENSG00000127241	ENSG00000127241		"Serine peptidases / Serine peptidases"	6901	protein-coding gene	gene with protein product		600521	"mannan-binding lectin serine protease 1 (C4/C2 activating component of Ra-reactive factor)"	CRARF, PRSS5		8018603, 8240317	Standard	NR_033519		Approved	MASP	uc003fri.3	P48740	OTTHUMG00000156461	ENST00000337774.5:c.496dupC	3.37:g.186978581_186978581dupG	ENSP00000336792:p.Cys166fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K542|A8K6M1|B4E2L7|O95570|Q68D21|Q8IUV8|Q96RS4|Q9UF09	Frame_Shift_Ins	INS	ENST00000337774.5	37	CCDS33907.1																																																																																				0.554	MASP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344262.1	NM_001879		G	186978581	-	G	186978580	7	5	670	1	0	1	1	0	0	0	0	0	9329	188	7	0	2600	0	MASP1	3	186978580	Frame_Shift_Ins	INS	-	TCGA-KN-8434-01A-11D-2310-10	134238398	186978580	11043850	9	43062										
SENP5	205564	broad.mit.edu;hgsc.bcm.edu	37	chr3	196613140	196613142	+	In_Frame_Del	DEL	CTC	CTC	-													0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ggaccagtcatcctgttcttCtcctaagtgggagtgtacag							TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr3:196613140_196613142delCTC	ENST00000323460.5	+	2	1337_1339	c.1088_1090delCTC	c.(1087-1092)tctcct>tct	p.P364del	SENP5_ENST00000419026.1_Intron|SENP5_ENST00000445299.2_In_Frame_Del_p.P364del	NM_152699.4	NP_689912.2	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5	364					cell cycle (GO:0007049)|cell division (GO:0051301)|cellular protein metabolic process (GO:0044267)|post-translational protein modification (GO:0043687)|protein sumoylation (GO:0016925)	intracellular membrane-bounded organelle (GO:0043231)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	cysteine-type peptidase activity (GO:0008234)			NS(1)|breast(2)|endometrium(2)|kidney(3)|large_intestine(9)|lung(14)|skin(1)	32	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		TCCTGTTCTTCTCCTAAGTGGGA	0.453																																					Ovarian(47;891 1095 11174 13858 51271)											0																																										SO:0001651	inframe_deletion	205564			BC030705	CCDS3322.1	3q29	2005-08-17	2005-08-17		ENSG00000119231	ENSG00000119231			28407	protein-coding gene	gene with protein product		612845	"SUMO1/sentrin specific protease 5"			12477932	Standard	NM_152699		Approved	MGC27076	uc003fwz.4	Q96HI0	OTTHUMG00000155527	ENST00000323460.5:c.1088_1090delCTC	3.37:g.196613140_196613142delCTC	ENSP00000327197:p.Pro364del	Somatic		WXS	Illumina HiSeq	Phase_I	B4DY82|Q96SA5	In_Frame_Del	DEL	ENST00000323460.5	37	CCDS3322.1																																																																																				0.453	SENP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340524.1	NM_152699		-	196613142	CTC	-	196613140	7	5	670	1	0	1	0	1	0	0	0	0	14062	913	32	0	1090	0	SENP5	3	196613140	In_Frame_Del	DEL	CTC	TCGA-KN-8434-01A-11D-2310-10	9634560	196613140	1409290	10	43063	421	2								
SENP5	205564	bcgsc.ca	37	chr3	196613141	196613143	+	In_Frame_Del	DEL	CTC	CTC	-													0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gaccagtcatcctgttcttcTcctaagtgggagtgtacaga							TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr3:196613141_196613143delCTC	ENST00000323460.5	+	2	1338_1340	c.1089_1091delCTC	c.(1087-1092)tcctct>tct	p.363_364SS>S	SENP5_ENST00000419026.1_Intron|SENP5_ENST00000445299.2_In_Frame_Del_p.363_364SS>S	NM_152699.4	NP_689912.2	Q96HI0	SENP5_HUMAN	SUMO1/sentrin specific peptidase 5	363					cell cycle (GO:0007049)|cell division (GO:0051301)|cellular protein metabolic process (GO:0044267)|post-translational protein modification (GO:0043687)|protein sumoylation (GO:0016925)	intracellular membrane-bounded organelle (GO:0043231)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	cysteine-type peptidase activity (GO:0008234)			NS(1)|breast(2)|endometrium(2)|kidney(3)|large_intestine(9)|lung(14)|skin(1)	32	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;3.14e-24)|all cancers(36;2.1e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.03e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.004)		CCTGTTCTTCTCCTAAGTGGGAG	0.453																																					Ovarian(47;891 1095 11174 13858 51271)											0																																										SO:0001651	inframe_deletion	205564			BC030705	CCDS3322.1	3q29	2005-08-17	2005-08-17		ENSG00000119231	ENSG00000119231			28407	protein-coding gene	gene with protein product		612845	"SUMO1/sentrin specific protease 5"			12477932	Standard	NM_152699		Approved	MGC27076	uc003fwz.4	Q96HI0	OTTHUMG00000155527	ENST00000323460.5:c.1089_1091delCTC	3.37:g.196613141_196613143delCTC	ENSP00000327197:p.Ser363del	Somatic		WXS	Illumina HiSeq	Phase_I	B4DY82|Q96SA5	In_Frame_Del	DEL	ENST00000323460.5	37	CCDS3322.1																																																																																				0.453	SENP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340524.1	NM_152699		-	196613143	CTC	-	196613141	7	5	670	1	0	1	0	1	0	0	0	0	14062	1538	54	0	1091	0	SENP5	3	196613141	In_Frame_Del	DEL	CTC	TCGA-KN-8434-01A-11D-2310-10	1	196613141	1409289	11	43064	421	2								
NAP1L5	266812	mdanderson.org	37	chr4	89618837	89618837	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ccttccgccattacctcctcTgccgctgcctccgccgctgc	7	22	1	0	rs710834	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr4:89618837T>C	ENST00000323061.5	-	1	549	c.69A>G	c.(67-69)gcA>gcG	p.A23A	HERC3_ENST00000543130.1_Intron|HERC3_ENST00000264345.3_Intron|HERC3_ENST00000402738.1_Intron	NM_153757.2	NP_715638.1	Q96NT1	NP1L5_HUMAN	nucleosome assembly protein 1-like 5	23	Poly-Ala.				nucleosome assembly (GO:0006334)	nucleus (GO:0005634)				endometrium(2)|lung(3)|skin(1)|upper_aerodigestive_tract(1)	7				OV - Ovarian serous cystadenocarcinoma(123;0.000181)		ttacctcctctgccgctgcct	0.682													C|||	2787	0.55651	0.7292	0.3588	5008	,	,		11493	0.5516		0.3678	False		,,,				2504	0.6626															0								C	,	2661,1617		892,877,370	13	17	16		,69	-1.3	0	4	dbSNP_86	16	2912,5504		568,1776,1864	no	intron,coding-synonymous	HERC3,NAP1L5	NM_014606.1,NM_153757.2	,	1460,2653,2234	CC,CT,TT		34.6008,37.798,43.9026	,	,23/183	89618837	5573,7121	2139	4208	6347	SO:0001819	synonymous_variant	266812			NM_153757	CCDS3632.1	4q21-q22	2006-04-12			ENSG00000177432	ENSG00000177432			19968	protein-coding gene	gene with protein product		612203				12383514	Standard	NM_153757		Approved	DRLM	uc003hrx.3	Q96NT1	OTTHUMG00000130950	ENST00000323061.5:c.69A>G	4.37:g.89618837T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000323061.5	37	CCDS3632.1																																																																																				0.682	NAP1L5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253551.1	NM_153757		C	89618837	T	C	89618837	2	2	670	1	0	0	0	0	0	0	0	1	10167	1567	55	3		3	NAP1L5	4	89618837	Silent	SNP	T	TCGA-KN-8434-01A-11D-2310-10		89618837	101535439	12	43065										
DDX60	55601	broad.mit.edu	37	chr4	169196590	169196590	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ccatgtattgcagttggaacCgagctggcccaatgccaact	10	12	0	0	rs574811561		TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr4:169196590C>T	ENST00000393743.3	-	16	2501	c.2210G>A	c.(2209-2211)cGg>cAg	p.R737Q		NM_017631.5	NP_060101.3	Q8IY21	DDX60_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60	737					defense response to virus (GO:0051607)|innate immune response (GO:0045087)|positive regulation of MDA-5 signaling pathway (GO:1900245)|positive regulation of RIG-I signaling pathway (GO:1900246)|response to virus (GO:0009615)	cytoplasm (GO:0005737)|intermediate filament cytoskeleton (GO:0045111)	ATP binding (GO:0005524)|double-stranded DNA binding (GO:0003690)|double-stranded RNA binding (GO:0003725)|helicase activity (GO:0004386)|single-stranded RNA binding (GO:0003727)	p.R737Q(2)		breast(1)|central_nervous_system(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(15)|liver(1)|lung(21)|ovary(1)|pancreas(2)|prostate(1)|skin(4)|urinary_tract(4)	63		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0485)		CAGTTGGAACCGAGCTGGCCC	0.393													C|||	1	0.000199681	0.0008	0.0	5008	,	,		15607	0.0		0.0	False		,,,				2504	0.0															2	Substitution - Missense(2)	endometrium(2)											101	98	99					4																	169196590		2203	4300	6503	SO:0001583	missense	55601			AK001649	CCDS34097.1	4q32.3	2010-02-17			ENSG00000137628	ENSG00000137628			25942	protein-coding gene	gene with protein product		613974				12477932	Standard	NM_017631		Approved	FLJ20035	uc003irp.3	Q8IY21	OTTHUMG00000161350	ENST00000393743.3:c.2210G>A	4.37:g.169196590C>T	ENSP00000377344:p.Arg737Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PK35|Q9NVE3	Missense_Mutation	SNP	ENST00000393743.3	37	CCDS34097.1	.	.	.	.	.	.	.	.	.	.	C	18.88	3.717358	0.68844	.	.	ENSG00000137628	ENST00000393743	T	0.18174	2.23	5.37	3.65	0.41850	.	0.102711	0.43110	N	0.000614	T	0.28665	0.0710	L	0.32530	0.975	0.29601	N	0.847719	D	0.89917	1.0	D	0.87578	0.998	T	0.06303	-1.0834	10	0.40728	T	0.16	.	12.3977	0.55395	0.0:0.8661:0.0:0.1339	.	737	Q8IY21	DDX60_HUMAN	Q	737	ENSP00000377344:R737Q	ENSP00000377344:R737Q	R	-	2	0	DDX60	169433165	0.980000	0.34600	0.431000	0.26735	0.718000	0.41266	2.491000	0.45303	0.748000	0.32831	0.563000	0.77884	CGG		0.393	DDX60-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364622.1	NM_017631		T	169196590	C	T	169196590	3	4	670	1	0	0	0	0	1	0	0	0	4380	652	23	1	3020	1	DDX60	4	169196590	Missense_Mutation	SNP	C	TCGA-KN-8434-01A-11D-2310-10	79577753	169196590	21957686	13	43066										
ODZ3	55714	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr4	183594221	183594221	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	cggagaacttgatattggccGaagagcaattcaagagattc	11	7	1	4	rs544403548		TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr4:183594221G>A	ENST00000511685.1	+	7	1298	c.1175G>A	c.(1174-1176)cGa>cAa	p.R392Q	TENM3_ENST00000406950.2_Missense_Mutation_p.R392Q			Q9P273	TEN3_HUMAN	teneurin transmembrane protein 3	392					camera-type eye morphogenesis (GO:0048593)|homophilic cell adhesion (GO:0007156)|positive regulation of neuron projection development (GO:0010976)|self proteolysis (GO:0097264)|signal transduction (GO:0007165)	cell projection (GO:0042995)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)										GATATTGGCCGAAGAGCAATT	0.388													G|||	1	0.000199681	0.0	0.0	5008	,	,		15262	0.001		0.0	False		,,,				2504	0.0															0													42	40	40					4																	183594221		1809	4078	5887	SO:0001583	missense	55714			AF195420	CCDS47165.1	4q35	2012-10-02	2012-10-02	2012-10-02	ENSG00000218336	ENSG00000218336			29944	protein-coding gene	gene with protein product		610083	"odz, odd Oz/ten-m homolog 3 (Drosophila)"	ODZ3		10331952, 10625539	Standard	NM_001080477		Approved	Ten-M3, KIAA1455	uc003ivd.1	Q9P273	OTTHUMG00000160682	ENST00000511685.1:c.1175G>A	4.37:g.183594221G>A	ENSP00000424226:p.Arg392Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q5XUL9|Q96SY2|Q9NV77|Q9NVW1|Q9NZJ2	Missense_Mutation	SNP	ENST00000511685.1	37	CCDS47165.1	.	.	.	.	.	.	.	.	.	.	G	15.39	2.819612	0.50633	.	.	ENSG00000218336	ENST00000511685;ENST00000406950	T;T	0.19806	2.12;2.12	5.04	5.04	0.67666	.	.	.	.	.	T	0.11067	0.0270	N	0.20574	0.59	0.47214	D	0.999354	P	0.43352	0.804	B	0.25614	0.062	T	0.21793	-1.0235	9	0.12103	T	0.63	.	19.0138	0.92886	0.0:0.0:1.0:0.0	.	392	Q9P273	TEN3_HUMAN	Q	392	ENSP00000424226:R392Q;ENSP00000385276:R392Q	ENSP00000385276:R392Q	R	+	2	0	ODZ3	183831215	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.250000	0.78287	2.789000	0.95967	0.650000	0.86243	CGA		0.388	TENM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361734.1			A	183594221	G	A	183594221	3	1	670	1	0	0	0	0	1	0	0	0	10843	1058	37	1	1197	1	ODZ3	4	183594221	Missense_Mutation	SNP	G	TCGA-KN-8434-01A-11D-2310-10	14397631	183594221	7560055	14	43067										
SPINK5	11005	broad.mit.edu	37	chr5	147499644	147499644	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ctcgagaaagtgaccctgtcCggggtccagatggcaagaca	13	11	0	4			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr5:147499644C>T	ENST00000256084.7	+	25	2428	c.2386C>T	c.(2386-2388)Cgg>Tgg	p.R796W	SPINK5_ENST00000398454.1_Missense_Mutation_p.R796W|SPINK5_ENST00000359874.3_Missense_Mutation_p.R796W	NM_006846.3	NP_006837.2	Q9NQ38	ISK5_HUMAN	serine peptidase inhibitor, Kazal type 5	796	Kazal-like 12. {ECO:0000255|PROSITE- ProRule:PRU00798}.				anagen (GO:0042640)|epidermal cell differentiation (GO:0009913)|epithelial cell differentiation (GO:0030855)|extracellular matrix organization (GO:0030198)|hair cell differentiation (GO:0035315)|negative regulation of angiogenesis (GO:0016525)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of immune response (GO:0050777)|negative regulation of proteolysis (GO:0045861)|negative regulation of serine-type peptidase activity (GO:1902572)|regulation of cell adhesion (GO:0030155)|regulation of T cell differentiation (GO:0045580)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|epidermal lamellar body (GO:0097209)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|perinuclear region of cytoplasm (GO:0048471)	serine-type endopeptidase inhibitor activity (GO:0004867)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(11)|lung(16)|ovary(4)|prostate(1)|skin(5)|stomach(8)|upper_aerodigestive_tract(2)	64			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGACCCTGTCCGGGGTCCAGA	0.388																																																0													88	78	81					5																	147499644		1850	4100	5950	SO:0001583	missense	11005			AJ228139	CCDS43382.1, CCDS47300.1, CCDS47301.1	5q31-q32	2014-09-17	2005-08-17		ENSG00000133710	ENSG00000133710		"Serine peptidase inhibitors, Kazal type"	15464	protein-coding gene	gene with protein product	"lymphoepithelial Kazal-type-related inhibitor"	605010	"serine protease inhibitor, Kazal type 5"			10419450	Standard	NM_001127698		Approved	VAKTI, LEKTI, LETKI, NETS, NS, FLJ21544, FLJ97536, FLJ97596, FLJ99794, DKFZp686K19184	uc003loy.2	Q9NQ38	OTTHUMG00000134305	ENST00000256084.7:c.2386C>T	5.37:g.147499644C>T	ENSP00000256084:p.Arg796Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8MYE8|B7WPB7|D6REN5|O75770|Q3LX95|Q3LX96|Q3LX97|Q96PP2|Q96PP3	Missense_Mutation	SNP	ENST00000256084.7	37	CCDS43382.1	.	.	.	.	.	.	.	.	.	.	C	19.77	3.889670	0.72524	.	.	ENSG00000133710	ENST00000398454;ENST00000359874;ENST00000508733;ENST00000256084	T;T;T;T	0.04706	3.57;3.57;3.57;3.57	5.56	4.67	0.58626	Proteinase inhibitor I1, Kazal (1);Protease inhibitor, Kazal-type (1);	0.155191	0.30473	N	0.009556	T	0.20455	0.0492	M	0.77616	2.38	0.30017	N	0.814676	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	0.998;1.0;1.0;1.0	T	0.03483	-1.1032	10	0.62326	D	0.03	-6.0089	12.0016	0.53235	0.1729:0.8271:0.0:0.0	.	777;796;796;796	B4DWS3;Q9NQ38-3;Q9NQ38;Q9NQ38-2	.;.;ISK5_HUMAN;.	W	796;796;777;796	ENSP00000381472:R796W;ENSP00000352936:R796W;ENSP00000421519:R777W;ENSP00000256084:R796W	ENSP00000256084:R796W	R	+	1	2	SPINK5	147479837	0.002000	0.14202	0.943000	0.38184	0.986000	0.74619	0.698000	0.25571	1.455000	0.47813	0.557000	0.71058	CGG		0.388	SPINK5-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000259215.2	NM_001127698		T	147499644	C	T	147499644	3	4	670	1	0	0	0	0	1	0	0	0	15074	643	23	1	2484	1	SPINK5	5	147499644	Missense_Mutation	SNP	C	TCGA-KN-8434-01A-11D-2310-10		147499644	33415616	15	43068										
GABRA1	2554	ucsc.edu	37	chr5	161324123	161324123	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ctttctttctacagccaaagAaagtaaaggatcctcttatt	5	9	3	1			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr5:161324123A>G	ENST00000428797.2	+	11	1421	c.1066A>G	c.(1066-1068)Aaa>Gaa	p.K356E	GABRA1_ENST00000437025.2_Missense_Mutation_p.K356E|GABRA1_ENST00000393943.4_Missense_Mutation_p.K356E|GABRA1_ENST00000420560.1_Missense_Mutation_p.K356E|GABRA1_ENST00000444819.1_Missense_Mutation_p.K356E|GABRA1_ENST00000023897.6_Missense_Mutation_p.K356E	NM_001127643.1	NP_001121115.1	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha 1	356					gamma-aminobutyric acid signaling pathway (GO:0007214)|ion transmembrane transport (GO:0034220)|synaptic transmission (GO:0007268)|synaptic transmission, GABAergic (GO:0051932)|transmembrane transport (GO:0055085)|transport (GO:0006810)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	chloride channel activity (GO:0005254)|drug binding (GO:0008144)|extracellular ligand-gated ion channel activity (GO:0005230)|GABA-A receptor activity (GO:0004890)			NS(1)|endometrium(2)|kidney(3)|large_intestine(4)|liver(1)|lung(22)|ovary(2)|pancreas(2)|prostate(1)|skin(3)|urinary_tract(1)	42	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Acamprosate(DB00659)|Adinazolam(DB00546)|Alprazolam(DB00404)|Amobarbital(DB01351)|Amoxapine(DB00543)|Aprobarbital(DB01352)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Cinolazepam(DB01594)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Clotiazepam(DB01559)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Fludiazepam(DB01567)|Flumazenil(DB01205)|Flurazepam(DB00690)|Ginkgo biloba(DB01381)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Heptabarbital(DB01354)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Ketazolam(DB01587)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Quinidine barbiturate(DB01346)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Triazolam(DB00897)|Zaleplon(DB00962)|Zolpidem(DB00425)|Zopiclone(DB01198)	ACAGCCAAAGAAAGTAAAGGA	0.433																																																0													79	91	87					5																	161324123		2203	4300	6503	SO:0001583	missense	2554				CCDS4357.1	5q34	2012-06-22			ENSG00000022355	ENSG00000022355		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4075	protein-coding gene	gene with protein product	"GABA(A) receptor, alpha 1"	137160				1330891	Standard	NM_000806		Approved	EJM5	uc003lyx.4	P14867	OTTHUMG00000163586	ENST00000428797.2:c.1066A>G	5.37:g.161324123A>G	ENSP00000393097:p.Lys356Glu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQK6|Q8N629	Missense_Mutation	SNP	ENST00000428797.2	37	CCDS4357.1	.	.	.	.	.	.	.	.	.	.	A	17.15	3.316873	0.60524	.	.	ENSG00000022355	ENST00000023897;ENST00000428797;ENST00000393943;ENST00000437025;ENST00000420560;ENST00000444819	D;D;D;D;D;D	0.81908	-1.55;-1.55;-1.55;-1.55;-1.55;-1.55	5.32	5.32	0.75619	Neurotransmitter-gated ion-channel transmembrane domain (1);	0.000000	0.85682	D	0.000000	T	0.81922	0.4925	L	0.42744	1.35	0.80722	D	1	P	0.40000	0.698	P	0.46510	0.519	T	0.78981	-0.1989	10	0.22706	T	0.39	.	15.5691	0.76320	1.0:0.0:0.0:0.0	.	356	P14867	GBRA1_HUMAN	E	356	ENSP00000023897:K356E;ENSP00000393097:K356E;ENSP00000377517:K356E;ENSP00000415441:K356E;ENSP00000408041:K356E;ENSP00000414232:K356E	ENSP00000023897:K356E	K	+	1	0	GABRA1	161256701	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	8.850000	0.92190	2.134000	0.65973	0.460000	0.39030	AAA		0.433	GABRA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252702.2	NM_000806.5		G	161324123	A	G	161324123	3	3	670	1	0	0	0	0	1	0	0	0	6167	247	9	3	1100	3	GABRA1	5	161324123	Missense_Mutation	SNP	A	TCGA-KN-8434-01A-11D-2310-10	13824479	161324123	19591137	16	43069										
FOXI1	2299	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr5	169533097	169533097	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	agggcgtgcccagccctcagCggccctccttcgaggggggc	16	16	1	0			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr5:169533097C>T	ENST00000306268.6	+	1	197	c.136C>T	c.(136-138)Cgg>Tgg	p.R46W	FOXI1_ENST00000449804.2_Missense_Mutation_p.R46W			Q12951	FOXI1_HUMAN	forkhead box I1	46	Pro-rich.				embryo development (GO:0009790)|inner ear morphogenesis (GO:0042472)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding, bending (GO:0008301)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)	p.R46W(1)		breast(3)|central_nervous_system(3)|endometrium(1)|kidney(1)|large_intestine(7)|lung(16)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	35	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)			CAGCCCTCAGCGGCCCTCCTT	0.687									Pendred syndrome																																							1	Substitution - Missense(1)	lung(1)											20	22	21					5																	169533097		2201	4298	6499	SO:0001583	missense	2299	Familial Cancer Database	Goiter-Deafness syndrome	BC029778	CCDS4372.1, CCDS47337.1	5q34	2008-02-05			ENSG00000168269	ENSG00000168269		"Forkhead boxes"	3815	protein-coding gene	gene with protein product		601093		FKHL10		7957066, 8825632	Standard	NM_144769		Approved	FREAC6	uc003mai.4	Q12951	OTTHUMG00000130436	ENST00000306268.6:c.136C>T	5.37:g.169533097C>T	ENSP00000304286:p.Arg46Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q14518|Q66SR7|Q8N6L8	Missense_Mutation	SNP	ENST00000306268.6	37	CCDS4372.1	.	.	.	.	.	.	.	.	.	.	C	17.84	3.488446	0.64074	.	.	ENSG00000168269	ENST00000306268;ENST00000449804	D;D	0.94897	-3.47;-3.55	4.5	3.63	0.41609	.	0.068553	0.64402	D	0.000010	D	0.96892	0.8985	M	0.83384	2.64	0.49299	D	0.999779	D;D	0.89917	1.0;1.0	D;D	0.85130	0.997;0.992	D	0.96308	0.9226	10	0.49607	T	0.09	.	12.5348	0.56137	0.3021:0.6979:0.0:0.0	.	46;46	Q12951-2;Q12951	.;FOXI1_HUMAN	W	46	ENSP00000304286:R46W;ENSP00000415483:R46W	ENSP00000304286:R46W	R	+	1	2	FOXI1	169465675	1.000000	0.71417	1.000000	0.80357	0.936000	0.57629	1.119000	0.31258	0.882000	0.36016	-0.448000	0.05591	CGG		0.687	FOXI1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252827.2	NM_144769, NM_012188		T	169533097	C	T	169533097	3	4	670	1	0	0	0	0	1	0	0	0	6016	759	27	1	138	1	FOXI1	5	169533097	Missense_Mutation	SNP	C	TCGA-KN-8434-01A-11D-2310-10	8208974	169533097	11382163	17	43070										
DST	667	hgsc.bcm.edu	37	chr6	56335065	56335065	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	caactgcgctcatctccaagCgactggttggaaactctaaa	8	12	3	0			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr6:56335065C>T	ENST00000361203.3	-	91	21384	c.21377G>A	c.(21376-21378)cGc>cAc	p.R7126H	DST_ENST00000312431.6_3'UTR|DST_ENST00000421834.2_Missense_Mutation_p.R5122H|DST_ENST00000370769.4_Missense_Mutation_p.R7237H|DST_ENST00000370788.2_Missense_Mutation_p.R5040H|DST_ENST00000370754.5_Missense_Mutation_p.R7415H|DST_ENST00000446842.2_Missense_Mutation_p.R6911H|DST_ENST00000244364.6_Missense_Mutation_p.R4823H			Q03001	DYST_HUMAN	dystonin	7235					axonogenesis (GO:0007409)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cell motility (GO:0048870)|cytoplasmic microtubule organization (GO:0031122)|cytoskeleton organization (GO:0007010)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)|integrin-mediated signaling pathway (GO:0007229)|intermediate filament cytoskeleton organization (GO:0045104)|maintenance of cell polarity (GO:0030011)|microtubule cytoskeleton organization (GO:0000226)|regulation of microtubule polymerization or depolymerization (GO:0031110)|response to wounding (GO:0009611)|retrograde axon cargo transport (GO:0008090)	actin cytoskeleton (GO:0015629)|axon (GO:0030424)|basal plasma membrane (GO:0009925)|basement membrane (GO:0005604)|cell leading edge (GO:0031252)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|integral component of membrane (GO:0016021)|intermediate filament (GO:0005882)|intermediate filament cytoskeleton (GO:0045111)|microtubule cytoskeleton (GO:0015630)|microtubule plus-end (GO:0035371)|neurofilament cytoskeleton (GO:0060053)|nucleus (GO:0005634)|Z disc (GO:0030018)	calcium ion binding (GO:0005509)|integrin binding (GO:0005178)|microtubule plus-end binding (GO:0051010)|protein C-terminus binding (GO:0008022)|protein homodimerization activity (GO:0042803)			NS(1)|breast(5)|central_nervous_system(8)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(22)|lung(43)|ovary(7)|prostate(1)|skin(4)|upper_aerodigestive_tract(3)	105	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			CATCTCCAAGCGACTGGTTGG	0.388																																																0													53	48	49					6																	56335065		1867	4109	5976	SO:0001583	missense	667			M22942, M69225	CCDS4959.1, CCDS47443.1, CCDS75474.1	6p12.1	2013-01-10	2004-06-25	2004-07-01	ENSG00000151914	ENSG00000151914		"EF-hand domain containing"	1090	protein-coding gene	gene with protein product		113810	"bullous pemphigoid antigen 1, 230/240kDa"	BPAG1		2461961, 2276744	Standard	NM_001144770		Approved	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2	uc021zba.2	Q03001	OTTHUMG00000014913	ENST00000361203.3:c.21377G>A	6.37:g.56335065C>T	ENSP00000354508:p.Arg7126His	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3H1|O94833|Q12825|Q13266|Q13267|Q13775|Q5TBT0|Q5TBT2|Q5TF23|Q5TF24|Q8N1T8|Q8N8J3|Q8WXK8|Q8WXK9|Q96AK9|Q96DQ5|Q96J76|Q96QT5|Q9H555|Q9UGD7|Q9UGD8|Q9UN10	Missense_Mutation	SNP	ENST00000361203.3	37		.	.	.	.	.	.	.	.	.	.	C	19.34	3.809386	0.70797	.	.	ENSG00000151914	ENST00000244364;ENST00000370754;ENST00000370769;ENST00000421834;ENST00000446842;ENST00000370788;ENST00000361203	T;T;T;T;T;T;T	0.72505	-0.66;-0.66;-0.66;-0.66;-0.66;-0.66;-0.66	5.26	5.26	0.73747	EF-hand-like domain (1);	0.000000	0.46758	D	0.000265	T	0.79370	0.4434	L	0.53249	1.67	0.33897	D	0.638007	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.97110	0.998;1.0;0.999;0.984;0.983	T	0.80603	-0.1309	9	0.72032	D	0.01	.	19.2223	0.93803	0.0:1.0:0.0:0.0	.	5122;7237;7415;7235;4823	Q5TBT1;E7ERU2;E9PEB9;Q03001;Q03001-8	.;.;.;DYST_HUMAN;.	H	4823;7415;7237;5122;6911;5040;7126	ENSP00000244364:R4823H;ENSP00000359790:R7415H;ENSP00000359805:R7237H;ENSP00000400883:R5122H;ENSP00000393645:R6911H;ENSP00000359824:R5040H;ENSP00000354508:R7126H	ENSP00000244364:R4823H	R	-	2	0	DST	56443024	1.000000	0.71417	0.996000	0.52242	0.995000	0.86356	7.750000	0.85110	2.620000	0.88729	0.655000	0.94253	CGC		0.388	DST-004	NOVEL	not_organism_supported|basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000041021.3	NM_001723		T	56335065	C	T	56335065	3	4	670	1	0	0	0	0	1	0	0	0	4785	768	27	1	1079	1	DST	6	56335065	Missense_Mutation	SNP	C	TCGA-KN-8434-01A-11D-2310-10		56335065	114780002	18	43071										
HINT3	135114	ucsc.edu	37	chr6	126288134	126288134	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	aactgcagaactctaaggaaAgatcaagtagaactgggtaa	10	6	2	3			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr6:126288134A>G	ENST00000229633.5	+	2	500	c.303A>G	c.(301-303)aaA>aaG	p.K101K		NM_138571.4	NP_612638.3	Q9NQE9	HINT3_HUMAN	histidine triad nucleotide binding protein 3	101	HIT. {ECO:0000255|PROSITE- ProRule:PRU00464}.					cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)	hydrolase activity (GO:0016787)|nucleotide binding (GO:0000166)			endometrium(1)|large_intestine(1)|lung(1)|stomach(1)	4				UCEC - Uterine corpus endometrioid carcinoma (4;0.153)|GBM - Glioblastoma multiforme(226;0.0321)		CTCTAAGGAAAGATCAAGTAG	0.363																																																0													129	120	123					6																	126288134		2203	4300	6503	SO:0001819	synonymous_variant	135114			AK057688	CCDS5133.1	6q22.33	2007-12-04			ENSG00000111911	ENSG00000111911			18468	protein-coding gene	gene with protein product		609998				11805111	Standard	NM_138571		Approved	FLJ33126	uc003qal.4	Q9NQE9	OTTHUMG00000015514	ENST00000229633.5:c.303A>G	6.37:g.126288134A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KQ91|Q8N0Y9	Silent	SNP	ENST00000229633.5	37	CCDS5133.1																																																																																				0.363	HINT3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042090.1	NM_138571		G	126288134	A	G	126288134	2	3	670	1	0	0	0	0	0	0	0	1	7120	69	3	3		3	HINT3	6	126288134	Silent	SNP	A	TCGA-KN-8434-01A-11D-2310-10	69953069	126288134	44826933	19	43072										
RAET1G	353091	mdanderson.org	37	chr6	150240697	150240697	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	tctgaaacttacccttgggtAtgtaattctccagctgaatg	8	9	2	2	rs571396556	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr6:150240697A>G	ENST00000367360.2	-	2	408	c.341T>C	c.(340-342)aTa>aCa	p.I114T	RAET1G_ENST00000479265.1_Missense_Mutation_p.I114T|RP11-244K5.8_ENST00000606915.1_RNA|RAET1E-AS1_ENST00000605899.1_RNA|RAET1E-AS1_ENST00000446954.2_RNA	NM_001001788.2	NP_001001788.2			retinoic acid early transcript 1G											NS(1)|endometrium(2)|kidney(3)|large_intestine(2)|lung(4)|urinary_tract(1)	13		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.73e-12)		ACCCTTGGGTATGTAATTCTC	0.448													N|||	2	0.000399361	0.0	0.0	5008	,	,		23706	0.0		0.0	False		,,,				2504	0.002															0													235	228	231					6																	150240697		2203	4300	6503	SO:0001583	missense	353091			AY172579	CCDS43514.1	6q24.1-25.1	2009-04-29	2004-11-22		ENSG00000203722	ENSG00000203722			16795	protein-coding gene	gene with protein product		609244	"retinoic acid early transcript 1G pseudogene"			11827464, 15240696	Standard	NM_001001788		Approved	ULBP5	uc010kii.1	Q6H3X3	OTTHUMG00000015802	ENST00000367360.2:c.341T>C	6.37:g.150240697A>G	ENSP00000356329:p.Ile114Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000367360.2	37	CCDS43514.1	.	.	.	.	.	.	.	.	.	.	A	0.003	-2.500490	0.00157	.	.	ENSG00000203722	ENST00000367360;ENST00000479265	T;T	0.00662	5.93;5.93	2.4	-2.21	0.06973	MHC class I, alpha chain, alpha1/alpha2 (1);MHC classes I/II-like antigen recognition protein (1);MHC class I-like antigen recognition (1);	.	.	.	.	T	0.00109	0.0003	N	0.05574	-0.02	0.09310	N	1	B	0.11235	0.004	B	0.15052	0.012	T	0.28902	-1.0029	9	0.13470	T	0.59	.	0.432	0.00472	0.2687:0.1947:0.3388:0.1979	.	114	Q6H3X3	RET1G_HUMAN	T	114	ENSP00000356329:I114T;ENSP00000417503:I114T	ENSP00000356329:I114T	I	-	2	0	RAET1G	150282390	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-1.381000	0.02549	-0.582000	0.05929	-0.343000	0.07986	ATA		0.448	RAET1G-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042668.2			G	150240697	A	G	150240697	3	3	670	1	0	0	0	0	1	0	0	0	13013	449	16	3	679	3	RAET1G	6	150240697	Missense_Mutation	SNP	A	TCGA-KN-8434-01A-11D-2310-10	23952563	150240697	20874370	20	43073										
AUTS2	26053	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr7	70231281	70231281	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	acgccgttcccccacgccatCccacccaccgccatcatgcc	5	24	1	0	rs374492620		TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr7:70231281C>T	ENST00000342771.4	+	9	1971	c.1650C>T	c.(1648-1650)atC>atT	p.I550I	AUTS2_ENST00000406775.2_Silent_p.I550I	NM_015570.2	NP_056385.1	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2	550										breast(2)|central_nervous_system(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(14)|ovary(4)|prostate(2)|skin(4)|urinary_tract(1)	50		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)		CCCACGCCATCCCACCCACCG	0.612																																																0								C	,	0,4406		0,0,2203	247	225	233		1650,1650	3.8	1	7		233	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous,coding-synonymous	AUTS2	NM_001127231.1,NM_015570.2	,	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	,	550/1236,550/1260	70231281	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	26053			AF326917	CCDS5539.1, CCDS47601.1, CCDS47602.1	7q11.22	2014-01-06			ENSG00000158321	ENSG00000158321			14262	protein-coding gene	gene with protein product		607270				12160723	Standard	XM_005250257		Approved	KIAA0442, FBRSL2	uc003tvw.4	Q8WXX7	OTTHUMG00000023865	ENST00000342771.4:c.1650C>T	7.37:g.70231281C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4D1Y9|L7QET3|L7QF75|Q5D049|Q6PJU5|Q9Y4F2	Silent	SNP	ENST00000342771.4	37	CCDS5539.1	.	.	.	.	.	.	.	.	.	.	C	10.49	1.364219	0.24684	0.0	1.16E-4	ENSG00000158321	ENST00000443672	.	.	.	5.56	3.76	0.43208	.	.	.	.	.	T	0.61924	0.2386	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.57843	-0.7741	4	.	.	.	-15.7907	11.2114	0.48802	0.0:0.8031:0.1282:0.0686	.	.	.	.	F	92	.	.	S	+	2	0	AUTS2	69869217	1.000000	0.71417	0.995000	0.50966	0.992000	0.81027	4.034000	0.57289	0.715000	0.32103	0.561000	0.74099	TCC		0.612	AUTS2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251971.2			T	70231281	C	T	70231281	2	4	670	1	0	0	0	0	0	0	0	1	1225	845	30	2		2	AUTS2	7	70231281	Silent	SNP	C	TCGA-KN-8434-01A-11D-2310-10		70231281	88907382	21	43074										
PCLO	27445	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	82544701	82544701	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ttgaataggtgaaaattttgAcattttagggtcaattagtg	10	2	1	3			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr7:82544701A>T	ENST00000333891.9	-	7	12938	c.12601T>A	c.(12601-12603)Tca>Aca	p.S4201T	PCLO_ENST00000423517.2_Missense_Mutation_p.S4201T|PCLO_ENST00000437081.1_Missense_Mutation_p.S921T	NM_033026.5	NP_149015.2			piccolo presynaptic cytomatrix protein											breast(3)|central_nervous_system(3)|cervix(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(3)|kidney(19)|large_intestine(35)|lung(145)|ovary(7)|prostate(4)|upper_aerodigestive_tract(14)|urinary_tract(2)	259						GAAAATTTTGACATTTTAGGG	0.378																																																0													74	65	68					7																	82544701		1857	4093	5950	SO:0001583	missense	27445			AB011131	CCDS47630.1, CCDS47631.1	7q11.23-q21.3	2013-01-07	2013-01-07		ENSG00000186472	ENSG00000186472			13406	protein-coding gene	gene with protein product	"aczonin"	604918	"piccolo (presynaptic cytomatrix protein)"			8900486, 9628581	Standard	NM_014510		Approved	KIAA0559, DKFZp779G1236, ACZ	uc003uhx.2	Q9Y6V0	OTTHUMG00000154853	ENST00000333891.9:c.12601T>A	7.37:g.82544701A>T	ENSP00000334319:p.Ser4201Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000333891.9	37	CCDS47630.1	.	.	.	.	.	.	.	.	.	.	A	8.038	0.763172	0.15914	.	.	ENSG00000186472	ENST00000333891;ENST00000423517;ENST00000437081	T;T	0.27557	1.66;1.67	5.79	5.79	0.91817	.	.	.	.	.	T	0.24431	0.0592	L	0.31926	0.97	0.29450	N	0.8585	B;B;B	0.24258	0.003;0.1;0.1	B;B;B	0.23574	0.004;0.047;0.047	T	0.15809	-1.0424	9	0.87932	D	0	.	7.9552	0.30038	0.7289:0.1302:0.0:0.1408	.	4132;4201;4201	Q9Y6V0;Q9Y6V0-5;Q9Y6V0-6	PCLO_HUMAN;.;.	T	4201;4201;921	ENSP00000334319:S4201T;ENSP00000388393:S4201T	ENSP00000334319:S4201T	S	-	1	0	PCLO	82382637	0.475000	0.25894	1.000000	0.80357	0.991000	0.79684	1.033000	0.30191	2.216000	0.71823	0.377000	0.23210	TCA		0.378	PCLO-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337368.5	NM_014510		T	82544701	A	T	82544701	3	4	670	1	0	0	0	0	1	0	0	0	11590	275	10	5	2920	5	PCLO	7	82544701	Missense_Mutation	SNP	A	TCGA-KN-8434-01A-11D-2310-10	12313420	82544701	76593962	22	43075										
SLC26A5	375611	bcgsc.ca	37	chr7	103038430	103038430	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	tgtatgattctttcaagttaAacccagctgaaatgccagtt	7	8	2	2			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr7:103038430A>G	ENST00000306312.3	-	9	1181	c.920T>C	c.(919-921)tTt>tCt	p.F307S	SLC26A5_ENST00000393727.1_Missense_Mutation_p.F307S|SLC26A5_ENST00000356767.4_Missense_Mutation_p.F307S|SLC26A5_ENST00000393730.1_Missense_Mutation_p.F307S|SLC26A5_ENST00000393729.1_Missense_Mutation_p.F270S|SLC26A5_ENST00000354356.4_5'UTR|SLC26A5_ENST00000432958.2_Missense_Mutation_p.F307S|SLC26A5_ENST00000339444.6_Missense_Mutation_p.F307S|SLC26A5_ENST00000393735.2_Missense_Mutation_p.F307S|SLC26A5_ENST00000393723.1_Missense_Mutation_p.F307S	NM_198999.2	NP_945350.1	P58743	S26A5_HUMAN	solute carrier family 26 (anion exchanger), member 5	307					regulation of cell shape (GO:0008360)|regulation of membrane potential (GO:0042391)|sensory perception of sound (GO:0007605)	basolateral plasma membrane (GO:0016323)|integral component of membrane (GO:0016021)|lateral plasma membrane (GO:0016328)	secondary active sulfate transmembrane transporter activity (GO:0008271)			endometrium(5)|kidney(2)|large_intestine(9)|lung(15)|ovary(1)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(5)	43						TTTCAAGTTAAACCCAGCTGA	0.373																																																0													152	135	141					7																	103038430		2203	4300	6503	SO:0001583	missense	375611			AC005064	CCDS5733.1, CCDS43630.1, CCDS55150.1, CCDS5732.1, CCDS43629.1	7q22	2013-07-18	2013-07-18	2005-09-13	ENSG00000170615	ENSG00000170615		"Solute carriers"	9359	protein-coding gene	gene with protein product	"deafness, neurosensory, autosomal recessive, 61"	604943	"prestin (motor protein)"	PRES		10821263	Standard	NM_206883		Approved	DFNB61	uc003vbz.3	P58743	OTTHUMG00000149911	ENST00000306312.3:c.920T>C	7.37:g.103038430A>G	ENSP00000304783:p.Phe307Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q496J2|Q7Z7F3|Q86UF8|Q86UF9|Q86UG0	Missense_Mutation	SNP	ENST00000306312.3	37	CCDS5733.1	.	.	.	.	.	.	.	.	.	.	A	15.27	2.785153	0.49997	.	.	ENSG00000170615	ENST00000339444;ENST00000356767;ENST00000393735;ENST00000306312;ENST00000393730;ENST00000432958;ENST00000393729;ENST00000393727;ENST00000393723	D;D;D;D;D;D;D;D;D	0.93426	-3.22;-3.22;-3.22;-3.22;-3.22;-3.22;-3.22;-3.22;-3.22	5.87	4.72	0.59763	Sulphate transporter (1);	0.303544	0.37715	N	0.001965	D	0.89451	0.6719	L	0.31371	0.925	0.80722	D	1	B;P;B;P;P	0.47106	0.063;0.85;0.101;0.813;0.89	B;P;B;B;B	0.45276	0.145;0.475;0.089;0.262;0.262	D	0.87374	0.2352	10	0.34782	T	0.22	.	11.8608	0.52465	0.9312:0.0:0.0688:0.0	.	307;307;307;307;307	P58743;Q496J2;P58743-4;P58743-3;P58743-2	S26A5_HUMAN;.;.;.;.	S	307;307;307;307;307;307;270;307;307	ENSP00000342396:F307S;ENSP00000349210:F307S;ENSP00000377336:F307S;ENSP00000304783:F307S;ENSP00000377331:F307S;ENSP00000389733:F307S;ENSP00000377330:F270S;ENSP00000377328:F307S;ENSP00000377324:F307S	ENSP00000304783:F307S	F	-	2	0	SLC26A5	102825666	1.000000	0.71417	0.999000	0.59377	0.843000	0.47879	7.257000	0.78362	1.156000	0.42514	-0.256000	0.11100	TTT		0.373	SLC26A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313860.1	NM_198999		G	103038430	A	G	103038430	3	3	670	1	0	0	0	0	1	0	0	0	14533	14	1	3	1403	3	SLC26A5	7	103038430	Missense_Mutation	SNP	A	TCGA-KN-8434-01A-11D-2310-10	20493729	103038430	56100233	23	43076										
ZYX	7791	hgsc.bcm.edu	37	chr7	143078856	143078856	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ggccgggtgggcgagattccCccgccgcccccggaaggtat	16	15	0	1	rs371579974		TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr7:143078856C>T	ENST00000322764.5	+	2	537	c.192C>T	c.(190-192)ccC>ccT	p.P64P	ZYX_ENST00000392910.2_5'Flank|ZYX_ENST00000449423.2_Silent_p.P8P|AC093673.5_ENST00000429630.1_RNA	NM_001010972.1|NM_003461.4	NP_001010972.1|NP_003452.1	Q15942	ZYX_HUMAN	zyxin	64	Pro-rich.				cell adhesion (GO:0007155)|cell-cell signaling (GO:0007267)|cell-matrix adhesion (GO:0007160)|integrin-mediated signaling pathway (GO:0007229)|regulation of inflammatory response (GO:0050727)|signal transduction (GO:0007165)|stress fiber assembly (GO:0043149)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	cell-cell adherens junction (GO:0005913)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|stress fiber (GO:0001725)	poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			breast(1)|endometrium(5)|kidney(1)|large_intestine(1)|lung(8)|pancreas(1)	17	Melanoma(164;0.205)					GCGAGATTCCCCCGCCGCCCC	0.706																																																0								C	,	0,3432		0,0,1716	3	4	3		192,192	0.4	1	7		3	4,7292		0,4,3644	no	coding-synonymous,coding-synonymous	ZYX	NM_001010972.1,NM_003461.4	,	0,4,5360	TT,TC,CC		0.0548,0.0,0.0373	,	64/573,64/573	143078856	4,10724	1716	3648	5364	SO:0001819	synonymous_variant	7791			X95735	CCDS5883.1	7q32	2010-02-26			ENSG00000159840	ENSG00000159840			13200	protein-coding gene	gene with protein product		602002				8917469, 8940160	Standard	XM_005250052		Approved		uc003wcx.3	Q15942	OTTHUMG00000023822	ENST00000322764.5:c.192C>T	7.37:g.143078856C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4D2G6|Q6I9S4	Silent	SNP	ENST00000322764.5	37	CCDS5883.1																																																																																				0.706	ZYX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000156296.2	NM_003461		T	143078856	C	T	143078856	2	4	670	1	0	0	0	0	0	0	0	1	18266	610	22	2		2	ZYX	7	143078856	Silent	SNP	C	TCGA-KN-8434-01A-11D-2310-10	40040426	143078856	16059807	24	43077										
C9orf131	138724	hgsc.bcm.edu;ucsc.edu	37	chr9	35044753	35044753	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gaacttgtgtggagaaatgtGcaacaaagagaagttcccca	11	7	0	2			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr9:35044753G>A	ENST00000312292.5	+	2	2174	c.2127G>A	c.(2125-2127)gtG>gtA	p.V709V	C9orf131_ENST00000354479.5_Silent_p.V636V|FLJ00273_ENST00000595331.1_5'Flank|C9orf131_ENST00000421362.2_Silent_p.V661V	NM_001040410.1|NM_203299.2	NP_001035500.1|NP_976044.2	Q5VYM1	CI131_HUMAN	chromosome 9 open reading frame 131	709										cervix(1)|endometrium(3)|kidney(1)|large_intestine(6)|lung(23)|prostate(2)|skin(2)|stomach(1)	39	all_epithelial(49;0.22)		LUSC - Lung squamous cell carcinoma(32;0.00117)|Lung(28;0.00309)			GGAGAAATGTGCAACAAAGAG	0.552																																																0													62	60	61					9																	35044753		2203	4300	6503	SO:0001819	synonymous_variant	138724			BC045643	CCDS6572.2, CCDS47961.1, CCDS47962.1	9p13.3	2008-02-05			ENSG00000174038	ENSG00000174038			31418	protein-coding gene	gene with protein product							Standard	NM_001287391		Approved	MGC41945	uc003zvw.3	Q5VYM1	OTTHUMG00000019853	ENST00000312292.5:c.2127G>A	9.37:g.35044753G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NLE6|E9PB26|Q86XC6|Q9UF74	Silent	SNP	ENST00000312292.5	37	CCDS6572.2																																																																																				0.552	C9orf131-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000052283.5	NM_203299		A	35044753	G	A	35044753	2	1	670	1	0	0	0	0	0	0	0	1	2459	1306	46	2		2	C9orf131	9	35044753	Silent	SNP	G	TCGA-KN-8434-01A-11D-2310-10		35044753	106168678	25	43078										
PRUNE2	158471	broad.mit.edu	37	chr9	79320843	79320843	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	cactgaggtgcttctcagtcTcttgctttgcttcagaatcg	9	11	3	2			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr9:79320843T>C	ENST00000376718.3	-	8	6470	c.6347A>G	c.(6346-6348)gAg>gGg	p.E2116G	PRUNE2_ENST00000428286.1_Missense_Mutation_p.E1757G	NM_015225.2	NP_056040.2	Q8WUY3	PRUN2_HUMAN	prune homolog 2 (Drosophila)	2116					apoptotic process (GO:0006915)	cytoplasm (GO:0005737)	metal ion binding (GO:0046872)|pyrophosphatase activity (GO:0016462)			endometrium(1)|kidney(4)|large_intestine(3)|lung(7)|prostate(1)	16						CTTCTCAGTCTCTTGCTTTGC	0.483																																																0													175	161	165					9																	79320843		1568	3582	5150	SO:0001583	missense	158471			BC019095	CCDS47982.1	9q21.32	2013-04-29	2006-11-24	2006-11-24	ENSG00000106772	ENSG00000106772			25209	protein-coding gene	gene with protein product	"olfaxin"	610691	"chromosome 9 open reading frame 65", "KIAA0367"	C9orf65, KIAA0367		16288218	Standard	NM_015225		Approved	BMCC1, BNIPXL, A214N16.3, bA214N16.3	uc010mpk.3	Q8WUY3	OTTHUMG00000020047	ENST00000376718.3:c.6347A>G	9.37:g.79320843T>C	ENSP00000365908:p.Glu2116Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KYC4|B4DQH8|O15073|Q58A63|Q5JUB6|Q5T304|Q5T476|Q6T2V6|Q6T2V7|Q8N665	Missense_Mutation	SNP	ENST00000376718.3	37	CCDS47982.1	.	.	.	.	.	.	.	.	.	.	T	7.829	0.719415	0.15372	.	.	ENSG00000106772	ENST00000376718;ENST00000428286;ENST00000422033	T;T	0.50813	0.73;0.73	6.03	4.86	0.63082	.	0.622455	0.15290	N	0.270184	T	0.47021	0.1423	L	0.59436	1.845	0.25993	N	0.982217	B	0.21821	0.061	B	0.23275	0.045	T	0.45116	-0.9283	10	0.66056	D	0.02	-1.7704	12.6433	0.56721	0.0:0.0:0.4297:0.5703	.	2116	Q8WUY3	PRUN2_HUMAN	G	2116;1757;2115	ENSP00000365908:E2116G;ENSP00000397425:E1757G	ENSP00000365908:E2116G	E	-	2	0	PRUNE2	78510663	0.957000	0.32711	0.389000	0.26208	0.007000	0.05969	2.009000	0.40903	1.047000	0.40274	0.533000	0.62120	GAG		0.483	PRUNE2-003	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052730.2	NM_138818		C	79320843	T	C	79320843	3	2	670	1	0	0	0	0	1	0	0	0	12651	1551	54	3	2967	3	PRUNE2	9	79320843	Missense_Mutation	SNP	T	TCGA-KN-8434-01A-11D-2310-10	44276090	79320843	61892588	26	43079										
TMEFF1	8577	mdanderson.org	37	chr9	103235853	103235853	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gccgcagccgctgaggcgccGctccggctgcctgccgcgcc	15	20	0	1	rs77849433	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr9:103235853G>T	ENST00000374879.4	+	1	459	c.27G>T	c.(25-27)ccG>ccT	p.P9P	TMEFF1_ENST00000334943.6_Intron|MSANTD3-TMEFF1_ENST00000502978.1_Intron	NM_003692.4	NP_003683.2	Q8IYR6	TEFF1_HUMAN	transmembrane protein with EGF-like and two follistatin-like domains 1	9					multicellular organismal development (GO:0007275)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(1)|kidney(1)|large_intestine(7)|lung(9)|stomach(1)	19		Acute lymphoblastic leukemia(62;0.0452)				CTGAGGCGCCGCTCCGGCTGC	0.751													G|||	400	0.0798722	0.0877	0.1138	5008	,	,		7642	0.001		0.1292	False		,,,				2504	0.0757															0								G	,	360,3810		24,312,1749	5	6	5		,27	3.1	1	9	dbSNP_131	5	1088,7026		89,910,3058	no	intron,coding-synonymous	TMEFF1,C9orf30-TMEFF1	NM_001198812.1,NM_003692.4	,	113,1222,4807	TT,TG,GG		13.4089,8.6331,11.7877	,	,9/381	103235853	1448,10836	2085	4057	6142	SO:0001819	synonymous_variant	8577			U19878	CCDS6750.1	9q31	2010-05-04			ENSG00000241697	ENSG00000241697			11866	protein-coding gene	gene with protein product	"tomoregulin-1", "cancer/testis antigen family 120, member 1"	603421		C9orf2		9730596	Standard	NM_003692		Approved	H7365, CT120.1		Q8IYR6	OTTHUMG00000020367	ENST00000374879.4:c.27G>T	9.37:g.103235853G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q13086|Q8N3T8	Silent	SNP	ENST00000374879.4	37	CCDS6750.1																																																																																				0.751	TMEFF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053418.1	NM_003692		T	103235853	G	T	103235853	2	4	670	1	0	0	0	0	0	0	0	1	16025	1074	38	4		4	TMEFF1	9	103235853	Silent	SNP	G	TCGA-KN-8434-01A-11D-2310-10	23915010	103235853	37977578	27	43080										
TBC1D13	54662	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	131565713	131565713	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gcccctctactacacctttgCcaccgaccccaatagtgagt	6	17	1	1			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr9:131565713C>T	ENST00000372648.5	+	8	878	c.728C>T	c.(727-729)gCc>gTc	p.A243V	TBC1D13_ENST00000223865.8_Intron|TBC1D13_ENST00000466056.1_3'UTR|TBC1D13_ENST00000539497.1_Missense_Mutation_p.A62V	NM_018201.3	NP_060671.3	Q9NVG8	TBC13_HUMAN	TBC1 domain family, member 13	243	Rab-GAP TBC. {ECO:0000255|PROSITE- ProRule:PRU00163}.						Rab GTPase activator activity (GO:0005097)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)	6						TACACCTTTGCCACCGACCCC	0.567																																																0													95	77	83					9																	131565713		2203	4300	6503	SO:0001583	missense	54662			AK001605	CCDS6911.1, CCDS69677.1	9q34.13	2013-07-09			ENSG00000107021	ENSG00000107021			25571	protein-coding gene	gene with protein product						22762500	Standard	XM_005252060		Approved	FLJ10743	uc010myj.3	Q9NVG8	OTTHUMG00000020760	ENST00000372648.5:c.728C>T	9.37:g.131565713C>T	ENSP00000361731:p.Ala243Val	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2E7|B3KW04|B9EGJ8|Q5T270|Q5T271	Missense_Mutation	SNP	ENST00000372648.5	37	CCDS6911.1	.	.	.	.	.	.	.	.	.	.	C	34	5.348749	0.95807	.	.	ENSG00000107021	ENST00000372648;ENST00000539497	T;T	0.11821	2.74;2.74	5.66	5.66	0.87406	Rab-GAP/TBC domain (4);	0.112447	0.64402	N	0.000012	T	0.39886	0.1095	M	0.78049	2.395	0.80722	D	1	D	0.71674	0.998	D	0.65573	0.936	T	0.13764	-1.0497	10	0.59425	D	0.04	-24.402	18.7486	0.91804	0.0:1.0:0.0:0.0	.	243	Q9NVG8	TBC13_HUMAN	V	243;62	ENSP00000361731:A243V;ENSP00000437751:A62V	ENSP00000361731:A243V	A	+	2	0	TBC1D13	130605534	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	5.870000	0.69620	2.675000	0.91044	0.655000	0.94253	GCC		0.567	TBC1D13-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054496.1	NM_018201		T	131565713	C	T	131565713	3	4	670	1	0	0	0	0	1	0	0	0	15614	739	26	2	758	2	TBC1D13	9	131565713	Missense_Mutation	SNP	C	TCGA-KN-8434-01A-11D-2310-10	28329860	131565713	9647718	28	43081										
VENTX	27287	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	135051543	135051543	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	caggcctgccgacttctcccTggggagcctccctggcccag	12	18	1	0	rs2240892	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr10:135051543T>C	ENST00000325980.9	+	1	636	c.125T>C	c.(124-126)cTg>cCg	p.L42P		NM_014468.3	NP_055283.1	O95231	VENTX_HUMAN	VENT homeobox	42			L -> P (in dbSNP:rs2240892). {ECO:0000269|PubMed:15489334}.		multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)			NS(1)|endometrium(1)|large_intestine(1)|lung(9)|soft_tissue(1)|upper_aerodigestive_tract(1)	14		all_cancers(35;4.15e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;7.8e-06)|Epithelial(32;9.31e-06)|all cancers(32;1.19e-05)		GACTTCTCCCTGGGGAGCCTC	0.716													T|||	1221	0.24381	0.2943	0.1859	5008	,	,		12549	0.376		0.1123	False		,,,				2504	0.2157															0								T	PRO/LEU	737,3379		49,639,1370	5	7	6		125	-2.4	0	10	dbSNP_98	6	776,7542		42,692,3425	no	missense	VENTX	NM_014468.2	98	91,1331,4795	CC,CT,TT		9.3292,17.9057,12.1682	benign	42/259	135051543	1513,10921	2058	4159	6217	SO:0001583	missense	27287			AF068006	CCDS7675.1	10q26.3	2011-06-20	2011-06-01	2005-09-27	ENSG00000151650	ENSG00000151650		"Homeoboxes / ANTP class : NKL subclass"	13639	protein-coding gene	gene with protein product		607158	"VENT-like homeobox 2", "VENT homeobox homolog (Xenopus laevis)"	VENTX2		10790436	Standard	NM_014468		Approved	HPX42B	uc010quy.1	O95231	OTTHUMG00000019307	ENST00000325980.9:c.125T>C	10.37:g.135051543T>C	ENSP00000357556:p.Leu42Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q32MZ3	Missense_Mutation	SNP	ENST00000325980.9	37	CCDS7675.1	489	0.2239010989010989	143	0.29065040650406504	71	0.19613259668508287	190	0.3321678321678322	85	0.11213720316622691	T	2.856	-0.237276	0.05944	0.179057	0.093292	ENSG00000151650	ENST00000325980	T	0.43294	0.95	1.78	-2.36	0.06663	.	1.462090	0.04704	N	0.416452	T	0.00012	0.0000	N	0.03608	-0.345	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.32079	-0.9920	9	0.33940	T	0.23	.	0.8221	0.01113	0.1484:0.1943:0.2644:0.393	rs2240892;rs60200993;rs2240892	42	O95231	VENTX_HUMAN	P	42	ENSP00000357556:L42P	ENSP00000357556:L42P	L	+	2	0	VENTX	134901533	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.183000	0.09712	-0.933000	0.03737	-1.572000	0.00871	CTG		0.716	VENTX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051116.4	NM_014468		C	135051543	T	C	135051543	3	2	670	1	0	0	0	0	1	0	0	0	17165	1580	55	3	127	3	VENTX	10	135051543	Missense_Mutation	SNP	T	TCGA-KN-8434-01A-11D-2310-10		135051543	483204	29	43082										
MUC6	4588	broad.mit.edu	37	chr11	1018714	1018714	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ggtgcttgctggggttggacGtgggcctgtcgtctgggtgg	21	7	1	0	rs371302246		TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr11:1018714G>A	ENST00000421673.2	-	31	4137	c.4087C>T	c.(4087-4089)Cgt>Tgt	p.R1363C		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1363	Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GGGGTTGGACGTGGGCCTGTC	0.542																																																0									CYS/ARG	0,4370		0,0,2185	191	207	201		4087	1.4	0	11		201	1,8557		0,1,4278	no	missense	MUC6	NM_005961.2	180	0,1,6463	AA,AG,GG		0.0117,0.0,0.0077	probably-damaging	1363/2440	1018714	1,12927	2185	4279	6464	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4087C>T	11.37:g.1018714G>A	ENSP00000406861:p.Arg1363Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	g	8.824	0.938199	0.18206	0.0	1.17E-4	ENSG00000184956	ENST00000421673	T	0.20069	2.1	1.39	1.39	0.22231	.	.	.	.	.	T	0.06554	0.0168	N	0.08118	0	0.09310	N	1	P	0.43477	0.808	B	0.20955	0.032	T	0.21109	-1.0255	9	0.52906	T	0.07	.	4.8411	0.13491	0.0:0.0:0.639:0.361	.	1363	Q6W4X9	MUC6_HUMAN	C	1363	ENSP00000406861:R1363C	ENSP00000406861:R1363C	R	-	1	0	MUC6	1008714	0.000000	0.05858	0.006000	0.13384	0.187000	0.23431	-3.997000	0.00317	1.103000	0.41568	0.298000	0.19748	CGT		0.542	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1018714	G	A	1018714	3	1	670	1	0	0	0	0	1	0	0	0	9987	1145	40	1	3244	1	MUC6	11	1018714	Missense_Mutation	SNP	G	TCGA-KN-8434-01A-11D-2310-10		1018714	133987802	30	43083										
MRGPRE	116534	mdanderson.org	37	chr11	3249552	3249552	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gaagaactgggtgcaggcgcCgctgagcagcaggtgcagca	17	10	0	2	rs4391795	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr11:3249552C>T	ENST00000389832.5	-	2	784	c.478G>A	c.(478-480)Ggc>Agc	p.G160S	MRGPRE_ENST00000436689.2_Missense_Mutation_p.G159S|AC109309.4_ENST00000418995.2_RNA			Q86SM8	MRGRE_HUMAN	MAS-related GPR, member E	160			G -> S (in dbSNP:rs4391795).			integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|liver(1)|lung(6)|ovary(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	19		Medulloblastoma(188;0.00106)|all_epithelial(84;0.00111)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00529)|LUSC - Lung squamous cell carcinoma(625;0.19)		GTGCAGGCGCCGCTGAGCAGC	0.692													C|||	1467	0.292931	0.0953	0.2392	5008	,	,		13177	0.378		0.4523	False		,,,				2504	0.3466															0								C	SER/GLY	481,3647		34,413,1617	5	9	8		475	0.8	0	11	dbSNP_111	8	3172,5086		621,1930,1578	yes	missense	MRGPRE	NM_001039165.2	56	655,2343,3195	TT,TC,CC		38.4112,11.6521,29.493	probably-damaging	159/312	3249552	3653,8733	2064	4129	6193	SO:0001583	missense	116534			AY255572	CCDS41603.1, CCDS41603.2	11p15.5	2012-08-21	2004-03-25		ENSG00000184350	ENSG00000184350		"GPCR / Class A : Orphans"	30694	protein-coding gene	gene with protein product		607232	"G protein-coupled receptor 167"	GPR167		11551509	Standard	NM_001039165		Approved	mrgE	uc001lxq.5	Q86SM8	OTTHUMG00000011708	ENST00000389832.5:c.478G>A	11.37:g.3249552C>T	ENSP00000374482:p.Gly160Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M1V7	Missense_Mutation	SNP	ENST00000389832.5	37		712	0.326007326007326	37	0.07520325203252033	100	0.27624309392265195	229	0.40034965034965037	346	0.45646437994722955	c	7.476	0.647610	0.14516	0.116521	0.384112	ENSG00000184350	ENST00000436689;ENST00000389832	.	.	.	3.75	0.817	0.18773	GPCR, rhodopsin-like superfamily (1);	0.506640	0.14301	U	0.328254	T	0.00012	0.0000	L	0.39397	1.21	0.80722	P	0.0	D	0.61080	0.989	P	0.55455	0.776	T	0.44697	-0.9311	8	0.24483	T	0.36	-11.0184	5.6296	0.17504	0.0:0.6298:0.0:0.3702	rs4391795;rs4990224	159	Q86SM8	MRGRE_HUMAN	S	160;159	.	ENSP00000374482:G159S	G	-	1	0	MRGPRE	3206128	0.000000	0.05858	0.001000	0.08648	0.014000	0.08584	0.733000	0.26087	-0.017000	0.14103	-0.229000	0.12294	GGC		0.692	MRGPRE-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000032346.5	XM_171536		T	3249552	C	T	3249552	3	4	670	1	0	0	0	0	1	0	0	0	9771	652	23	1	464	1	MRGPRE	11	3249552	Missense_Mutation	SNP	C	TCGA-KN-8434-01A-11D-2310-10	2230838	3249552	131756964	31	43084										
CDC42BPG	55561	hgsc.bcm.edu;ucsc.edu	37	chr11	64600192	64600192	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	aacacgcgctgccagccccgCcggacacctgagggccgcgg	14	18	0	1			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr11:64600192C>A	ENST00000342711.5	-	26	2888	c.2889G>T	c.(2887-2889)cgG>cgT	p.R963R	CDC42BPG_ENST00000491280.1_5'Flank	NM_017525.2	NP_059995.2			CDC42 binding protein kinase gamma (DMPK-like)											central_nervous_system(1)|lung(3)	4						GCCAGCCCCGCCGGACACCTG	0.711																																																0													17	21	20					11																	64600192		2196	4291	6487	SO:0001819	synonymous_variant	55561			AY648038	CCDS31601.1	11q13	2013-01-10			ENSG00000171219	ENSG00000171219		"Pleckstrin homology (PH) domain containing"	29829	protein-coding gene	gene with protein product		613991				9341881, 15194684	Standard	NM_017525		Approved	HSMDPKIN, MRCKgamma, DMPK2, kappa-200	uc001obs.4	Q6DT37	OTTHUMG00000045365	ENST00000342711.5:c.2889G>T	11.37:g.64600192C>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000342711.5	37	CCDS31601.1																																																																																				0.711	CDC42BPG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000105352.4	XM_290516		A	64600192	C	A	64600192	2	1	670	1	0	0	0	0	0	0	0	1	3076	726	26	4		4	CDC42BPG	11	64600192	Silent	SNP	C	TCGA-KN-8434-01A-11D-2310-10	61350640	64600192	70406324	32	43085										
SIPA1	6494	hgsc.bcm.edu	37	chr11	65414344	65414344	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gtgccctgcctgctgggcatCtcggccgaggctctggtgct	15	14	2	0	rs201341786		TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr11:65414344C>G	ENST00000394224.3	+	8	2135	c.1839C>G	c.(1837-1839)atC>atG	p.I613M	SIPA1_ENST00000527525.1_Intron|SIPA1_ENST00000394227.3_Intron|MIR4489_ENST00000578869.1_RNA|SIPA1_ENST00000534313.1_Missense_Mutation_p.I613M	NM_153253.29	NP_694985.29	Q96FS4	SIPA1_HUMAN	signal-induced proliferation-associated 1	613					cell proliferation (GO:0008283)|cellular response to water deprivation (GO:0042631)|cytoskeleton organization (GO:0007010)|intracellular signal transduction (GO:0035556)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell cycle (GO:0045786)|negative regulation of cell growth (GO:0030308)|positive regulation of GTPase activity (GO:0043547)|positive regulation of Rap GTPase activity (GO:0032854)|signal transduction (GO:0007165)	cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)|protein complex (GO:0043234)|transport vesicle (GO:0030133)	GTPase activator activity (GO:0005096)|Rap GTPase activator activity (GO:0046582)			cervix(1)|endometrium(2)|large_intestine(2)|lung(3)|prostate(1)|urinary_tract(1)	10						TGCTGGGCATCTCGGCCGAGG	0.746																																																0								C	MET/ILE,MET/ILE	0,3598		0,0,1799	6	7	6		1839,1839	1.5	1	11		6	17,6795		0,17,3389	no	missense,missense	SIPA1	NM_006747.3,NM_153253.29	10,10	0,17,5188	GG,GC,CC		0.2496,0.0,0.1633	benign,benign	613/1043,613/1043	65414344	17,10393	1799	3406	5205	SO:0001583	missense	6494			AH006363, BC010492, BM677738	CCDS8108.1	11q13.3	2008-09-12	2008-09-12		ENSG00000213445	ENSG00000213445			10885	protein-coding gene	gene with protein product		602180				9027487	Standard	NM_006747		Approved	SPA1	uc001ofb.2	Q96FS4	OTTHUMG00000166541	ENST00000394224.3:c.1839C>G	11.37:g.65414344C>G	ENSP00000377771:p.Ile613Met	Somatic		WXS	Illumina HiSeq	Phase_I	O14518|O60484|O60618|Q2YD83	Missense_Mutation	SNP	ENST00000394224.3	37	CCDS8108.1	.	.	.	.	.	.	.	.	.	.	C	14.19	2.462676	0.43736	0.0	0.002496	ENSG00000213445	ENST00000534313;ENST00000394224	T;T	0.51574	0.7;0.7	3.42	1.52	0.23074	.	0.271361	0.23764	U	0.044793	T	0.39332	0.1074	L	0.49571	1.57	0.80722	D	1	B	0.32968	0.392	B	0.34991	0.193	T	0.26052	-1.0114	10	0.87932	D	0	-15.0648	7.2625	0.26212	0.0:0.7707:0.0:0.2293	.	613	Q96FS4	SIPA1_HUMAN	M	613	ENSP00000436269:I613M;ENSP00000377771:I613M	ENSP00000377771:I613M	I	+	3	3	SIPA1	65170920	0.989000	0.36119	0.990000	0.47175	0.919000	0.55068	0.278000	0.18753	0.280000	0.22209	0.297000	0.19635	ATC		0.746	SIPA1-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390356.1	NM_006747		G	65414344	C	G	65414344	3	3	670	1	0	0	0	0	1	0	0	0	14341	903	32	4	1865	4	SIPA1	11	65414344	Missense_Mutation	SNP	C	TCGA-KN-8434-01A-11D-2310-10	814152	65414344	69592172	33	43086										
RIN1	9610	mdanderson.org	37	chr11	66102088	66102088	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ccctgcagctcctggggctcGggcccagcccgcacctgggt	14	18	0	0	rs3814740	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr11:66102088G>A	ENST00000311320.4	-	6	1308	c.1182C>T	c.(1180-1182)ccC>ccT	p.P394P	RIN1_ENST00000530056.1_Silent_p.P289P|RP11-867G23.12_ENST00000526655.1_RNA|RIN1_ENST00000424433.2_Silent_p.P289P|RIN1_ENST00000524804.1_5'Flank	NM_004292.2	NP_004283.2	Q13671	RIN1_HUMAN	Ras and Rab interactor 1	394	Ras and 14-3-3 protein binding region.			AGPE -> DGQR (in Ref. 1, 2 and 3). {ECO:0000305}.	associative learning (GO:0008306)|endocytosis (GO:0006897)|memory (GO:0007613)|negative regulation of synaptic plasticity (GO:0031914)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|dendrite (GO:0030425)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	GTPase activator activity (GO:0005096)			breast(1)|central_nervous_system(3)|haematopoietic_and_lymphoid_tissue(1)|lung(8)|ovary(1)	14						CCTGGGGCTCGGGCCCAGCCC	0.721													G|||	740	0.147764	0.3026	0.0836	5008	,	,		11802	0.1399		0.0885	False		,,,				2504	0.0532															0								G		1109,3245		154,801,1222	10	11	11		1182	-8.5	0	11	dbSNP_107	11	652,7874		43,566,3654	no	coding-synonymous	RIN1	NM_004292.2		197,1367,4876	AA,AG,GG		7.6472,25.4708,13.6724		394/784	66102088	1761,11119	2177	4263	6440	SO:0001819	synonymous_variant	9610			L36463	CCDS31614.1	11q13.2	2005-09-18				ENSG00000174791			18749	protein-coding gene	gene with protein product		605965				9144171, 1849280	Standard	NM_004292		Approved		uc001ohn.1	Q13671		ENST00000311320.4:c.1182C>T	11.37:g.66102088G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O15010|Q00427|Q96CC8	Silent	SNP	ENST00000311320.4	37	CCDS31614.1																																																																																				0.721	RIN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392980.2	NM_004292		A	66102088	G	A	66102088	2	1	670	1	0	0	0	0	0	0	0	1	13384	1103	39	1		1	RIN1	11	66102088	Silent	SNP	G	TCGA-KN-8434-01A-11D-2310-10	687744	66102088	68904428	34	43087										
ABCG4	64137	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr11	119024755	119024755	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ggttataagacccttctcaaGtgcctctcaggtaaattctg	8	10	3	1			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr11:119024755G>A	ENST00000449422.2	+	3	446	c.258G>A	c.(256-258)aaG>aaA	p.K86K	ABCG4_ENST00000531739.1_Silent_p.K86K|ABCG4_ENST00000307417.3_Silent_p.K86K	NM_001142505.1	NP_001135977.1	Q9H172	ABCG4_HUMAN	ATP-binding cassette, sub-family G (WHITE), member 4	86	ABC transporter. {ECO:0000255|PROSITE- ProRule:PRU00434}.				cholesterol efflux (GO:0033344)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|cholesterol transporter activity (GO:0017127)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(6)|lung(28)|ovary(2)|prostate(1)|skin(1)	44	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)		CCCTTCTCAAGTGCCTCTCAG	0.522																																																0													105	113	110					11																	119024755		2200	4295	6495	SO:0001819	synonymous_variant	64137			AJ300465	CCDS8415.1	11q23	2012-03-14			ENSG00000172350	ENSG00000172350		"ATP binding cassette transporters / subfamily G"	13884	protein-coding gene	gene with protein product	"putative ABC transporter", "ATP-binding cassette, subfamily G, member 4"	607784				11435397	Standard	NM_022169		Approved	WHITE2	uc001pvs.3	Q9H172	OTTHUMG00000166169	ENST00000449422.2:c.258G>A	11.37:g.119024755G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1B5|Q8WWH0|Q8WWH1|Q8WWH2	Silent	SNP	ENST00000449422.2	37	CCDS8415.1																																																																																				0.522	ABCG4-002	PUTATIVE	alternative_5_UTR|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000388215.1	NM_022169		A	119024755	G	A	119024755	2	1	670	1	0	0	0	0	0	0	0	1	70	1020	36	2		2	ABCG4	11	119024755	Silent	SNP	G	TCGA-KN-8434-01A-11D-2310-10	52922667	119024755	15981761	35	43088										
TAS2R43	259289	mdanderson.org	37	chr12	11244603	11244603	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	agttcttacttctacactatTaaaagctggattcaacacag	5	9	3	0	rs200999522	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr12:11244603T>A	ENST00000531678.1	-	1	309	c.226A>T	c.(226-228)Aat>Tat	p.N76Y	TAS2R14_ENST00000381852.4_Intron|PRR4_ENST00000536668.1_Intron	NM_176884.2	NP_795365.2	P59537	T2R43_HUMAN	taste receptor, type 2, member 43	76					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)|G-protein coupled receptor signaling pathway (GO:0007186)	integral component of membrane (GO:0016021)|motile cilium (GO:0031514)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)|taste receptor activity (GO:0008527)			endometrium(1)|ovary(1)|prostate(2)|urinary_tract(1)	5			OV - Ovarian serous cystadenocarcinoma(49;0.0344)	BRCA - Breast invasive adenocarcinoma(232;0.196)		TCTACACTATTAAAAGCTGGA	0.398																																																0													50	43	46					12																	11244603		1915	3971	5886	SO:0001583	missense	259289			AF494237	CCDS53749.1	12p13.2	2012-08-22				ENSG00000255374		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	18875	protein-coding gene	gene with protein product		612668				12379855	Standard	NM_176884		Approved	T2R52	uc001qzq.1	P59537		ENST00000531678.1:c.226A>T	12.37:g.11244603T>A	ENSP00000431719:p.Asn76Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	P59546|Q645X4	Missense_Mutation	SNP	ENST00000531678.1	37	CCDS53749.1	.	.	.	.	.	.	.	.	.	.	-	0	-2.676482	0.00102	.	.	ENSG00000255374	ENST00000531678	T	0.35789	1.29	1.97	-3.32	0.04973	.	.	.	.	.	T	0.03136	0.0092	N	0.00007	-3.165	0.80722	P	0.0	B	0.02656	0.0	B	0.04013	0.001	T	0.34976	-0.9807	8	0.02654	T	1	.	2.2701	0.04088	0.4334:0.0:0.3302:0.2364	.	76	P59537	T2R43_HUMAN	Y	76	ENSP00000431719:N76Y	ENSP00000431719:N76Y	N	-	1	0	TAS2R43	11135870	0.000000	0.05858	0.000000	0.03702	0.011000	0.07611	-0.204000	0.09425	-0.948000	0.03668	-1.812000	0.00611	AAT		0.398	TAS2R43-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383561.1	NM_176884		A	11244603	T	A	11244603	3	1	670	1	0	0	0	0	1	0	0	0	15593	1754	61	5	707	5	TAS2R43	12	11244603	Missense_Mutation	SNP	T	TCGA-KN-8434-01A-11D-2310-10		11244603	122607292	36	43089										
PPP1R1A	5502	hgsc.bcm.edu	37	chr12	54982196	54982196	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ccctgctccgcacctgctccGccgcctcggggtcaaggtgc	12	19	1	0			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr12:54982196G>A	ENST00000257905.8	-	1	247	c.77C>T	c.(76-78)gCg>gTg	p.A26V	PPP1R1A_ENST00000547431.1_Missense_Mutation_p.A26V	NM_006741.3	NP_006732	Q13522	PPR1A_HUMAN	protein phosphatase 1, regulatory (inhibitor) subunit 1A	26					glycogen metabolic process (GO:0005977)|negative regulation of catalytic activity (GO:0043086)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)	protein serine/threonine phosphatase inhibitor activity (GO:0004865)			lung(2)	2						CACCTGCTCCGCCGCCTCGGG	0.721																																																0													5	7	6					12																	54982196		1704	3661	5365	SO:0001583	missense	5502			U48707	CCDS44912.1	12q13.2	2012-04-17			ENSG00000135447	ENSG00000135447	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	9286	protein-coding gene	gene with protein product		613246				8611507	Standard	NM_006741		Approved		uc001sgg.2	Q13522	OTTHUMG00000169934	ENST00000257905.8:c.77C>T	12.37:g.54982196G>A	ENSP00000257905:p.Ala26Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IB01|Q8TBJ2|Q8WWV2	Missense_Mutation	SNP	ENST00000257905.8	37	CCDS44912.1	.	.	.	.	.	.	.	.	.	.	g	21.8	4.206739	0.79127	.	.	ENSG00000135447	ENST00000379690;ENST00000257905	T	0.29142	1.58	3.73	2.73	0.32206	.	0.174694	0.33772	N	0.004572	T	0.28400	0.0702	L	0.38531	1.155	0.25462	N	0.987909	P	0.51791	0.948	P	0.50934	0.654	T	0.05435	-1.0885	10	0.25751	T	0.34	.	8.5449	0.33415	0.0:0.2389:0.7611:0.0	.	26	Q13522	PPR1A_HUMAN	V	26	ENSP00000257905:A26V	ENSP00000257905:A26V	A	-	2	0	PPP1R1A	53268463	0.944000	0.32072	1.000000	0.80357	0.980000	0.70556	3.933000	0.56545	1.817000	0.53016	0.306000	0.20318	GCG		0.721	PPP1R1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406604.1	NM_006741		A	54982196	G	A	54982196	3	1	670	1	0	0	0	0	1	0	0	0	12377	1087	38	1	466	1	PPP1R1A	12	54982196	Missense_Mutation	SNP	G	TCGA-KN-8434-01A-11D-2310-10	43737593	54982196	78869699	37	43090										
PABPC3	5042	mdanderson.org	37	chr13	25670851	25670851	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	tcgcaaagtatttgttggacAatttaagtctcgtaaagaac	8	6	1	1	rs75475407	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr13:25670851A>G	ENST00000281589.3	+	1	552	c.515A>G	c.(514-516)cAa>cGa	p.Q172R		NM_030979.2	NP_112241.2	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	172	RRM 2. {ECO:0000255|PROSITE- ProRule:PRU00176}.				mRNA metabolic process (GO:0016071)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)			breast(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(21)|ovary(4)|pancreas(1)|skin(3)	47		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)		TTTGTTGGACAATTTAAGTCT	0.393													g|||	253	0.0505192	0.0719	0.0576	5008	,	,		22064	0.0268		0.0318	False		,,,				2504	0.0603															0													110	104	106					13																	25670851		2203	4300	6503	SO:0001583	missense	5042			AF132026	CCDS9311.1	13q12-q13	2013-02-12	2001-11-28		ENSG00000151846	ENSG00000151846		"RNA binding motif (RRM) containing"	8556	protein-coding gene	gene with protein product	"testis PABP"	604680	"poly(A)-binding protein, cytoplasmic 3"	PABPL3		8432538, 10543404	Standard	NM_030979		Approved	PABP3, tPABP	uc001upy.3	Q9H361	OTTHUMG00000016601	ENST00000281589.3:c.515A>G	13.37:g.25670851A>G	ENSP00000281589:p.Gln172Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHV0|Q9H086	Missense_Mutation	SNP	ENST00000281589.3	37	CCDS9311.1	.	.	.	.	.	.	.	.	.	.	A	0.065	-1.215282	0.01542	.	.	ENSG00000151846	ENST00000281589	T	0.75704	-0.96	0.828	-0.101	0.13618	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (1);	0.358703	0.18389	N	0.142734	T	0.42877	0.1222	N	0.10664	0.02	0.21841	N	0.99951	B	0.02656	0.0	B	0.01281	0.0	T	0.34079	-0.9843	10	0.02654	T	1	.	5.2926	0.15735	0.2365:0.0:0.7635:0.0	.	172	Q9H361	PABP3_HUMAN	R	172	ENSP00000281589:Q172R	ENSP00000281589:Q172R	Q	+	2	0	PABPC3	24568851	1.000000	0.71417	0.921000	0.36526	0.168000	0.22595	4.799000	0.62517	-0.074000	0.12820	-0.769000	0.03391	CAA		0.393	PABPC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044220.2	NM_030979		G	25670851	A	G	25670851	3	3	670	1	0	0	0	0	1	0	0	0	11372	130	5	3	517	3	PABPC3	13	25670851	Missense_Mutation	SNP	A	TCGA-KN-8434-01A-11D-2310-10		25670851	89499027	38	43091										
CLN5	1203	mdanderson.org	37	chr13	77566090	77566090	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gggcgcggggaggtgtcatgCgccggaacctgcgcttgggg	21	10	1	0	rs77416795	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr13:77566090C>T	ENST00000377453.3	+	1	1296	c.4C>T	c.(4-6)Cgc>Tgc	p.R2C		NM_006493.2	NP_006484.1	O75503	CLN5_HUMAN	ceroid-lipofuscinosis, neuronal 5	0					brain development (GO:0007420)|cell death (GO:0008219)|glycosylation (GO:0070085)|lysosomal lumen acidification (GO:0007042)|neurogenesis (GO:0022008)|neuron maturation (GO:0042551)|protein catabolic process (GO:0030163)|signal peptide processing (GO:0006465)|visual perception (GO:0007601)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|perinuclear region of cytoplasm (GO:0048471)|vacuolar lumen (GO:0005775)	mannose binding (GO:0005537)			breast(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(7)|ovary(1)|urinary_tract(1)	16		Acute lymphoblastic leukemia(28;0.205)		GBM - Glioblastoma multiforme(99;0.0503)		AGGTGTCATGCGCCGGAACCT	0.706													C|||	698	0.139377	0.1293	0.2608	5008	,	,		12735	0.1071		0.0994	False		,,,				2504	0.1411															0								C	CYS/ARG	400,3146		17,366,1390	3	4	3		4	2.1	0	13	dbSNP_131	3	731,6513		40,651,2931	yes	missense	CLN5	NM_006493.2	180	57,1017,4321	TT,TC,CC		10.0911,11.2803,10.4819		2/408	77566090	1131,9659	1773	3622	5395	SO:0001583	missense	1203				CCDS9456.1	13q21.2-q32	2014-09-17			ENSG00000102805	ENSG00000102805			2076	protein-coding gene	gene with protein product		608102				7942847, 8661106	Standard	NM_006493		Approved		uc001vkc.3	O75503	OTTHUMG00000017100	ENST00000377453.3:c.4C>T	13.37:g.77566090C>T	ENSP00000366673:p.Arg2Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQK7	Missense_Mutation	SNP	ENST00000377453.3	37	CCDS9456.1	275	0.1259157509157509	67	0.13617886178861788	74	0.20441988950276244	58	0.10139860139860139	76	0.10026385224274406	C	14.02	2.409456	0.42715	0.112803	0.100911	ENSG00000102805	ENST00000377453	T	0.35605	1.3	3.0	2.13	0.27403	.	.	.	.	.	T	0.00039	0.0001	.	.	.	0.80722	P	0.0	.	.	.	.	.	.	T	0.13845	-1.0494	5	0.87932	D	0	.	3.9634	0.09421	0.2315:0.6377:0.0:0.1308	.	.	.	.	C	2	ENSP00000366673:R2C	ENSP00000366673:R2C	R	+	1	0	CLN5	76464091	0.002000	0.14202	0.006000	0.13384	0.017000	0.09413	0.035000	0.13797	0.794000	0.33899	0.462000	0.41574	CGC		0.706	CLN5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045318.1	NM_006493		T	77566090	C	T	77566090	3	4	670	1	0	0	0	0	1	0	0	0	3546	768	27	1	6	1	CLN5	13	77566090	Missense_Mutation	SNP	C	TCGA-KN-8434-01A-11D-2310-10	51895239	77566090	37603788	39	43092										
DOCK9	23348	broad.mit.edu	37	chr13	99476685	99476685	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	acatcctgcatccccacgtcTtccatcatggaggcctcctc	6	18	2	0			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr13:99476685T>C	ENST00000376460.1	-	46	5177	c.5097A>G	c.(5095-5097)gaA>gaG	p.E1699E	DOCK9_ENST00000448493.2_3'UTR|DOCK9_ENST00000339416.2_Silent_p.E1700E	NM_001130048.1|NM_015296.2	NP_001123520.1|NP_056111.1	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9	1700	DHR-2.				blood coagulation (GO:0007596)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(3)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(12)|lung(18)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	59	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					TCCCCACGTCTTCCATCATGG	0.542																																																0													166	162	163					13																	99476685		2025	4165	6190	SO:0001819	synonymous_variant	23348			AF527605	CCDS45062.1	13q32.3	2013-01-10			ENSG00000088387	ENSG00000088387		"Pleckstrin homology (PH) domain containing"	14132	protein-coding gene	gene with protein product	"zizimin1"	607325				12172552, 12432077	Standard	NM_015296		Approved	KIAA1058, ZIZ1	uc001vnt.2	Q9BZ29	OTTHUMG00000017260	ENST00000376460.1:c.5097A>G	13.37:g.99476685T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KX25|E9PFM9|Q5JUD4|Q5JUD6|Q5T2Q1|Q5TAN8|Q9BZ25|Q9BZ26|Q9BZ27|Q9BZ28|Q9UPU4	Silent	SNP	ENST00000376460.1	37	CCDS45062.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	10.19|10.19	1.281689|1.281689	0.23392|0.23392	.|.	.|.	ENSG00000088387|ENSG00000088387	ENST00000419908|ENST00000400228	.|.	.|.	.|.	5.43|5.43	3.0|3.0	0.34707|0.34707	.|.	.|.	.|.	.|.	.|.	T|T	0.58264|0.58264	0.2110|0.2110	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	T|T	0.50996|0.50996	-0.8761|-0.8761	4|4	.|.	.|.	.|.	.|.	8.8472|8.8472	0.35177|0.35177	0.0:0.2321:0.0:0.7679|0.0:0.2321:0.0:0.7679	.|.	.|.	.|.	.|.	R|G	117|264	.|.	.|.	K|R	-|-	2|1	0|2	DOCK9|DOCK9	98274686|98274686	1.000000|1.000000	0.71417|0.71417	0.999000|0.999000	0.59377|0.59377	0.997000|0.997000	0.91878|0.91878	1.521000|1.521000	0.35910|0.35910	0.371000|0.371000	0.24564|0.24564	0.533000|0.533000	0.62120|0.62120	AAG|AGA		0.542	DOCK9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045566.1	NM_015296		C	99476685	T	C	99476685	2	2	670	1	0	0	0	0	0	0	0	1	4696	1606	56	3		3	DOCK9	13	99476685	Silent	SNP	T	TCGA-KN-8434-01A-11D-2310-10	21910595	99476685	15693193	40	43093										
KCNH5	27133	broad.mit.edu	37	chr14	63316516	63316516	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ggtatcggttggtgttggcaTacatttgctggaaaattgtt	13	4	0	0			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr14:63316516T>C	ENST00000322893.7	-	8	1692	c.1424A>G	c.(1423-1425)tAt>tGt	p.Y475C	KCNH5_ENST00000420622.2_Missense_Mutation_p.Y475C|KCNH5_ENST00000394968.1_Missense_Mutation_p.Y417C	NM_139318.3	NP_647479.2	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H (eag-related), member 5	475					potassium ion transmembrane transport (GO:0071805)|regulation of G2/M transition of mitotic cell cycle (GO:0010389)|regulation of membrane potential (GO:0042391)|synaptic transmission (GO:0007268)	cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|plasma membrane (GO:0005886)	phosphorelay sensor kinase activity (GO:0000155)|voltage-gated potassium channel activity (GO:0005249)			NS(1)|biliary_tract(1)|breast(3)|central_nervous_system(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(22)|lung(33)|ovary(5)|prostate(2)|skin(17)|upper_aerodigestive_tract(4)|urinary_tract(2)	99				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		GGTGTTGGCATACATTTGCTG	0.358																																																0													145	127	133					14																	63316516		2203	4299	6502	SO:0001583	missense	27133			U69185	CCDS9756.1, CCDS45122.1	14q23.1	2012-07-05			ENSG00000140015	ENSG00000140015		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6254	protein-coding gene	gene with protein product		605716				9738473, 16382104	Standard	NM_139318		Approved	Kv10.2, H-EAG2, eag2	uc001xfx.3	Q8NCM2	OTTHUMG00000029041	ENST00000322893.7:c.1424A>G	14.37:g.63316516T>C	ENSP00000321427:p.Tyr475Cys	Somatic		WXS	Illumina HiSeq	Phase_I	C9JP98	Missense_Mutation	SNP	ENST00000322893.7	37	CCDS9756.1	.	.	.	.	.	.	.	.	.	.	T	21.3	4.135686	0.77662	.	.	ENSG00000140015	ENST00000322893;ENST00000420622;ENST00000394968	D;D;D	0.99080	-5.4;-5.18;-5.2	5.36	5.36	0.76844	Cyclic nucleotide-binding-like (1);	0.000000	0.85682	D	0.000000	D	0.99293	0.9753	M	0.87971	2.92	0.80722	D	1	D;D;D	0.89917	0.999;0.999;1.0	D;D;D	0.74674	0.967;0.959;0.984	D	0.99075	1.0835	10	0.87932	D	0	.	14.8119	0.70003	0.0:0.0:0.0:1.0	.	417;475;475	Q8NCM2-3;Q8NCM2-2;Q8NCM2	.;.;KCNH5_HUMAN	C	475;475;417	ENSP00000321427:Y475C;ENSP00000395439:Y475C;ENSP00000378419:Y417C	ENSP00000321427:Y475C	Y	-	2	0	KCNH5	62386269	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.997000	0.88414	2.147000	0.66899	0.528000	0.53228	TAT		0.358	KCNH5-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411747.1	NM_139318		C	63316516	T	C	63316516	3	2	670	1	0	0	0	0	1	0	0	0	8042	1406	49	3	1592	3	KCNH5	14	63316516	Missense_Mutation	SNP	T	TCGA-KN-8434-01A-11D-2310-10		63316516	44033024	41	43094										
MESDC1	59274	mdanderson.org	37	chr15	81294774	81294774	+	Silent	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gctgacctgctgctgctgtcGagcgaggcgcggcccgtgct	16	14	0	1	rs11541231	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr15:81294774G>C	ENST00000267984.2	+	1	1480	c.162G>C	c.(160-162)tcG>tcC	p.S54S		NM_022566.2	NP_072088.1	Q9H1K6	MESD1_HUMAN	mesoderm development candidate 1	54										endometrium(1)|lung(2)	3						TGCTGCTGTCGAGCGAGGCGC	0.701													G|||	137	0.0273562	0.003	0.0951	5008	,	,		9514	0.0		0.0457	False		,,,				2504	0.0215															0								G		48,3752		2,44,1854	11	9	10		162	-8.7	0.9	15	dbSNP_120	10	281,7351		5,271,3540	no	coding-synonymous	MESDC1	NM_022566.2		7,315,5394	CC,CG,GG		3.6819,1.2632,2.8779		54/363	81294774	329,11103	1900	3816	5716	SO:0001819	synonymous_variant	59274			AY007810	CCDS10316.1	15q13	2008-07-18			ENSG00000140406	ENSG00000140406			13519	protein-coding gene	gene with protein product		615466				11247670	Standard	NM_022566		Approved	MGC99595	uc002bfz.3	Q9H1K6	OTTHUMG00000144185	ENST00000267984.2:c.162G>C	15.37:g.81294774G>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000267984.2	37	CCDS10316.1																																																																																				0.701	MESDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000291390.1	NM_022566		C	81294774	G	C	81294774	2	2	670	1	0	0	0	0	0	0	0	1	9487	1045	37	4		4	MESDC1	15	81294774	Silent	SNP	G	TCGA-KN-8434-01A-11D-2310-10		81294774	21236618	42	43095										
PKD1	5310	hgsc.bcm.edu	37	chr16	2139968	2139968	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	tggttgagtcggtcaaactgGgtgagcagggcctcgaacac	15	9	1	2			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr16:2139968G>A	ENST00000262304.4	-	46	12880	c.12672C>T	c.(12670-12672)acC>acT	p.T4224T	MIR1225_ENST00000408729.1_RNA|RP11-304L19.1_ENST00000570072.1_RNA|PKD1_ENST00000423118.1_Silent_p.T4223T	NM_001009944.2	NP_001009944	P98161	PKD1_HUMAN	polycystic kidney disease 1 (autosomal dominant)	4224					anatomical structure morphogenesis (GO:0009653)|branching morphogenesis of an epithelial tube (GO:0048754)|calcium ion transmembrane transport (GO:0070588)|calcium-independent cell-matrix adhesion (GO:0007161)|cartilage condensation (GO:0001502)|cartilage development (GO:0051216)|cation transmembrane transport (GO:0098655)|cell cycle arrest (GO:0007050)|cell-matrix adhesion (GO:0007160)|cytoplasmic sequestering of transcription factor (GO:0042994)|detection of mechanical stimulus (GO:0050982)|digestive tract development (GO:0048565)|embryonic placenta development (GO:0001892)|genitalia development (GO:0048806)|heart development (GO:0007507)|homophilic cell adhesion (GO:0007156)|in utero embryonic development (GO:0001701)|JAK-STAT cascade (GO:0007259)|kidney development (GO:0001822)|liver development (GO:0001889)|lung epithelium development (GO:0060428)|mesonephric duct development (GO:0072177)|mesonephric tubule development (GO:0072164)|metanephric ascending thin limb development (GO:0072218)|metanephric collecting duct development (GO:0072205)|metanephric distal tubule morphogenesis (GO:0072287)|metanephric proximal tubule development (GO:0072237)|neural tube development (GO:0021915)|neuropeptide signaling pathway (GO:0007218)|nitrogen compound metabolic process (GO:0006807)|peptidyl-serine phosphorylation (GO:0018105)|placenta blood vessel development (GO:0060674)|positive regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031659)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of protein binding (GO:0032092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein export from nucleus (GO:0006611)|regulation of mitotic spindle organization (GO:0060236)|regulation of proteasomal protein catabolic process (GO:0061136)|response to fluid shear stress (GO:0034405)|skin development (GO:0043588)|spinal cord development (GO:0021510)	basolateral plasma membrane (GO:0016323)|cilium (GO:0005929)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|lateral plasma membrane (GO:0016328)|motile primary cilium (GO:0031512)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|polycystin complex (GO:0002133)	calcium channel activity (GO:0005262)|carbohydrate binding (GO:0030246)|cation channel activity (GO:0005261)|ion channel binding (GO:0044325)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(7)|kidney(6)|lung(34)|prostate(4)|skin(10)|upper_aerodigestive_tract(3)|urinary_tract(3)	72						GGTCAAACTGGGTGAGCAGGG	0.687																																																0													32	31	31					16																	2139968		2193	4293	6486	SO:0001819	synonymous_variant	5310			L33243	CCDS32369.1, CCDS45385.1	16p13.3	2014-01-28			ENSG00000008710	ENSG00000008710		"Voltage-gated ion channels / Transient receptor potential cation channels"	9008	protein-coding gene	gene with protein product	"polycystin 1", "transient receptor potential cation channel, subfamily P, member 1"	601313					Standard	NM_001009944		Approved	PBP, Pc-1, TRPP1	uc002cos.1	P98161	OTTHUMG00000155795	ENST00000262304.4:c.12672C>T	16.37:g.2139968G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q15140|Q15141	Silent	SNP	ENST00000262304.4	37	CCDS32369.1																																																																																				0.687	PKD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000341688.1			A	2139968	G	A	2139968	2	1	670	1	0	0	0	0	0	0	0	1	11970	1219	43	2		2	PKD1	16	2139968	Silent	SNP	G	TCGA-KN-8434-01A-11D-2310-10		2139968	88214785	43	43096										
NTN3	4917	bcgsc.ca	37	chr16	2523296	2523296	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	tatccctggacccactgaggAcagcagccctgtgcagcccc	10	17	0	1			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr16:2523296A>G	ENST00000293973.1	+	4	1498	c.1295A>G	c.(1294-1296)gAc>gGc	p.D432G	TBC1D24_ENST00000567020.1_5'Flank|TBC1D24_ENST00000293970.5_5'Flank	NM_006181.2	NP_006172.1	O00634	NET3_HUMAN	netrin 3	432					axon guidance (GO:0007411)|muscle cell differentiation (GO:0042692)|positive regulation of muscle cell differentiation (GO:0051149)	Golgi apparatus (GO:0005794)|proteinaceous extracellular matrix (GO:0005578)				breast(1)|central_nervous_system(2)|lung(3)|prostate(1)	7						CCCACTGAGGACAGCAGCCCT	0.647																																																0													92	109	103					16																	2523296		2198	4298	6496	SO:0001583	missense	4917			U86759	CCDS10469.1	16p13.3	2013-03-01	2008-10-29	2008-10-29	ENSG00000162068	ENSG00000162068		"Netrins"	8030	protein-coding gene	gene with protein product	"Netrin-3"	602349	"netrin 2 (chicken)-like", "netrin 2-like (chicken)"	NTN2L		9143507, 10366627	Standard	NM_006181		Approved		uc002cqj.3	O00634	OTTHUMG00000128867	ENST00000293973.1:c.1295A>G	16.37:g.2523296A>G	ENSP00000293973:p.Asp432Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000293973.1	37	CCDS10469.1	.	.	.	.	.	.	.	.	.	.	A	2.177	-0.388519	0.04932	.	.	ENSG00000162068	ENST00000293973	T	0.35789	1.29	3.8	1.25	0.21368	.	0.345781	0.25154	N	0.032739	T	0.13243	0.0321	N	0.08118	0	0.09310	N	1	B	0.16166	0.016	B	0.14023	0.01	T	0.10200	-1.0640	10	0.21540	T	0.41	.	2.0831	0.03640	0.4809:0.0:0.2595:0.2596	.	432	O00634	NET3_HUMAN	G	432	ENSP00000293973:D432G	ENSP00000293973:D432G	D	+	2	0	NTN3	2463297	0.712000	0.27916	0.956000	0.39512	0.886000	0.51366	1.231000	0.32624	1.372000	0.46190	0.260000	0.18958	GAC		0.647	NTN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250812.1	NM_006181		G	2523296	A	G	2523296	3	3	670	1	0	0	0	0	1	0	0	0	10708	275	10	3	1309	3	NTN3	16	2523296	Missense_Mutation	SNP	A	TCGA-KN-8434-01A-11D-2310-10	383328	2523296	87831457	44	43097										
XYLT1	64131	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	17235168	17235168	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gatccgccgatctcccaggcGccacatgtgagcgtcgcact	11	16	1	1			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr16:17235168G>A	ENST00000261381.6	-	7	1513	c.1429C>T	c.(1429-1431)Cgc>Tgc	p.R477C	CTD-2576D5.4_ENST00000567344.1_RNA	NM_022166.3	NP_071449.1	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	477					cellular response to heat (GO:0034605)|chondroitin sulfate biosynthetic process (GO:0030206)|glycosaminoglycan biosynthetic process (GO:0006024)|heparan sulfate proteoglycan biosynthetic process (GO:0015012)	endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	acetylglucosaminyltransferase activity (GO:0008375)|protein xylosyltransferase activity (GO:0030158)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(9)|kidney(2)|large_intestine(7)|lung(35)|ovary(4)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	67						TCTCCCAGGCGCCACATGTGA	0.597																																																0													74	75	75					16																	17235168		2197	4300	6497	SO:0001583	missense	64131			AJ277441	CCDS10569.1	16p12	2013-02-25			ENSG00000103489	ENSG00000103489	2.4.2.26	"Glucosaminyl (N-acetyl) transferase and xylosyltransferase family"	15516	protein-coding gene	gene with protein product	"protein xylosyltransferase 1"	608124				11099377	Standard	NM_022166		Approved	XT-I, PXYLT1	uc002dfa.3	Q86Y38	OTTHUMG00000129975	ENST00000261381.6:c.1429C>T	16.37:g.17235168G>A	ENSP00000261381:p.Arg477Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H1B6	Missense_Mutation	SNP	ENST00000261381.6	37	CCDS10569.1	.	.	.	.	.	.	.	.	.	.	G	25.8	4.676602	0.88445	.	.	ENSG00000103489	ENST00000261381	T	0.06608	3.28	5.92	5.92	0.95590	.	0.000000	0.85682	D	0.000000	T	0.33847	0.0877	M	0.88241	2.94	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.11324	-1.0592	10	0.87932	D	0	-41.8453	19.2966	0.94124	0.0:0.0:1.0:0.0	.	477	Q86Y38	XYLT1_HUMAN	C	477	ENSP00000261381:R477C	ENSP00000261381:R477C	R	-	1	0	XYLT1	17142669	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	5.392000	0.66272	2.797000	0.96272	0.555000	0.69702	CGC		0.597	XYLT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252241.2	NM_022166		A	17235168	G	A	17235168	3	1	670	1	0	0	0	0	1	0	0	0	17475	1087	38	1	1474	1	XYLT1	16	17235168	Missense_Mutation	SNP	G	TCGA-KN-8434-01A-11D-2310-10	14711872	17235168	73119585	45	43098										
ARMC5	79798	broad.mit.edu	37	chr16	31471187	31471189	+	In_Frame_Del	DEL	GTC	GTC	-													0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ggccccgccccctccgctgtGtcgtcgtctagtcctacgcc					rs199693319|rs184376263|rs538649451	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	GTC	GTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr16:31471187_31471189delGTC	ENST00000563544.1	+	2	888_890	c.342_344delGTC	c.(340-345)gtgtcg>gtg	p.S118del	ARMC5_ENST00000538189.1_In_Frame_Del_p.S150del|ARMC5_ENST00000408912.3_In_Frame_Del_p.S213del|RP11-452L6.5_ENST00000564629.1_RNA|ARMC5_ENST00000412665.2_5'Flank|ARMC5_ENST00000457010.2_In_Frame_Del_p.S118del|ARMC5_ENST00000268314.4_In_Frame_Del_p.S118del			Q96C12	ARMC5_HUMAN	armadillo repeat containing 5	118										central_nervous_system(1)|endometrium(4)|large_intestine(3)|liver(2)|lung(12)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	28						ccTCCGCTGTGTCGTCGTCTAGT	0.734														2	0.000399361	0.0	0.0	5008	,	,		10839	0.001		0.0	False		,,,				2504	0.001															0									,	2,3402		1,0,1701					,	-4.4	0			11	12,7356		5,2,3677	no	coding,coding	ARMC5	NM_024742.2,NM_001105247.1	,	6,2,5378	A1A1,A1R,RR		0.1629,0.0588,0.13	,	,		14,10758				SO:0001651	inframe_deletion	79798			AY217348	CCDS42155.1, CCDS45472.1, CCDS73874.1	16p11	2013-02-14			ENSG00000140691	ENSG00000140691		"Armadillo repeat containing"	25781	protein-coding gene	gene with protein product		615549					Standard	NM_024742		Approved	FLJ13063	uc002ecc.3	Q96C12	OTTHUMG00000176618	ENST00000563544.1:c.342_344delGTC	16.37:g.31471193_31471195delGTC	ENSP00000456877:p.Ser118del	Somatic		WXS	Illumina HiSeq	Phase_I	Q86WM9|Q9H7P8|Q9H925	In_Frame_Del	DEL	ENST00000563544.1	37	CCDS45472.1																																																																																				0.734	ARMC5-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000432847.1	NM_024742		-	31471189	GTC	-	31471187	7	5	670	1	0	1	0	1	0	0	0	0	954	1364	48	0	344	0	ARMC5	16	31471187	In_Frame_Del	DEL	GTC	TCGA-KN-8434-01A-11D-2310-10	14236019	31471187	58883566	46	43099										
POLR2A	5430	broad.mit.edu	37	chr17	7404959	7404959	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	atgcccgagacaagactggcTcctctgctcagaaatccctg	9	14	2	3			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr17:7404959T>C	ENST00000322644.6	+	14	2659	c.2260T>C	c.(2260-2262)Tcc>Ccc	p.S754P		NM_000937.4	NP_000928	P24928	RPB1_HUMAN	polymerase (RNA) II (DNA directed) polypeptide A, 220kDa	754					7-methylguanosine mRNA capping (GO:0006370)|DNA repair (GO:0006281)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|nucleotide-excision repair (GO:0006289)|positive regulation of viral transcription (GO:0050434)|regulation of transcription, DNA-templated (GO:0006355)|RNA splicing (GO:0008380)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription-coupled nucleotide-excision repair (GO:0006283)|viral process (GO:0016032)	DNA-directed RNA polymerase II, core complex (GO:0005665)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|RNA-directed RNA polymerase activity (GO:0003968)|ubiquitin protein ligase binding (GO:0031625)			breast(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(8)|lung(17)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	50		Prostate(122;0.173)				CAAGACTGGCTCCTCTGCTCA	0.502																																																0													83	78	80					17																	7404959		2203	4300	6503	SO:0001583	missense	5430					17p13.1	2013-01-21	2002-08-29		ENSG00000181222	ENSG00000181222	2.7.7.6	"RNA polymerase subunits"	9187	protein-coding gene	gene with protein product	"DNA-directed RNA polymerase II largest subunit, RNA polymerase II 220 kd subunit", "RNA polymerase II subunit B1"	180660	"polymerase (RNA) II (DNA directed) polypeptide A (220kD)"	POLR2			Standard	NM_000937		Approved	POLRA, RPB1	uc002ghf.4	P24928	OTTHUMG00000177594	ENST00000322644.6:c.2260T>C	17.37:g.7404959T>C	ENSP00000314949:p.Ser754Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NN93|B9EH88|Q6NX41	Missense_Mutation	SNP	ENST00000322644.6	37	CCDS32548.1	.	.	.	.	.	.	.	.	.	.	T	25.2	4.613984	0.87359	.	.	ENSG00000181222	ENST00000535204;ENST00000322644	T	0.66815	-0.23	6.07	6.07	0.98685	RNA polymerase Rpb1, domain 4 (1);	0.000000	0.85682	D	0.000000	T	0.73853	0.3640	M	0.62723	1.935	0.80722	D	1	P	0.42039	0.769	P	0.49451	0.611	T	0.76468	-0.2948	10	0.87932	D	0	-16.3469	15.6114	0.76721	0.0:0.0:0.0:1.0	.	754	P24928	RPB1_HUMAN	P	710;754	ENSP00000314949:S754P	ENSP00000314949:S754P	S	+	1	0	SLC35G6	7345683	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.861000	0.87004	2.326000	0.78906	0.533000	0.62120	TCC		0.502	POLR2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437967.1	NM_000937		C	7404959	T	C	7404959	3	2	670	1	0	0	0	0	1	0	0	0	12221	1551	54	3	2314	3	POLR2A	17	7404959	Missense_Mutation	SNP	T	TCGA-KN-8434-01A-11D-2310-10		7404959	73790251	47	43100										
FXR2	9513	bcgsc.ca	37	chr17	7506235	7506235	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gaataaactcaccagaatgaAgagctcactgtttgtgatgt	9	7	2	4			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr17:7506235A>G	ENST00000250113.7	-	6	869	c.535T>C	c.(535-537)Ttc>Ctc	p.F179L		NM_004860.3	NP_004851.2	P51116	FXR2_HUMAN	fragile X mental retardation, autosomal homolog 2	179						cytoplasm (GO:0005737)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	identical protein binding (GO:0042802)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)	p.?(1)		NS(1)|breast(2)|endometrium(6)|kidney(1)|large_intestine(7)|lung(8)|prostate(1)	26				READ - Rectum adenocarcinoma(115;0.17)		ACCAGAATGAAGAGCTCACTG	0.393																																																1	Unknown(1)	haematopoietic_and_lymphoid_tissue(1)											101	97	98					17																	7506235		1855	4101	5956	SO:0001583	missense	9513			U31501	CCDS45604.1	17p13.3	2014-09-17				ENSG00000129245			4024	protein-coding gene	gene with protein product		605339		FMR1L2		7489725, 9259278	Standard	NM_004860		Approved		uc002gia.2	P51116		ENST00000250113.7:c.535T>C	17.37:g.7506235A>G	ENSP00000250113:p.Phe179Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9M2|D3DTQ1|Q86V09|Q8WUM2	Missense_Mutation	SNP	ENST00000250113.7	37	CCDS45604.1	.	.	.	.	.	.	.	.	.	.	A	11.35	1.611895	0.28712	.	.	ENSG00000129245	ENST00000250113	T	0.32515	1.45	6.03	6.03	0.97812	.	0.104089	0.64402	D	0.000003	T	0.11965	0.0291	N	0.01576	-0.805	0.32738	N	0.508139	B;B	0.10296	0.003;0.003	B;B	0.12837	0.008;0.003	T	0.13282	-1.0515	10	0.30078	T	0.28	0.1318	9.7513	0.40477	0.8461:0.0:0.0:0.1539	.	179;179	Q86V09;P51116	.;FXR2_HUMAN	L	179	ENSP00000250113:F179L	ENSP00000250113:F179L	F	-	1	0	FXR2	7446960	0.997000	0.39634	1.000000	0.80357	0.760000	0.43138	1.591000	0.36665	2.308000	0.77769	0.533000	0.62120	TTC		0.393	FXR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441084.1			G	7506235	A	G	7506235	3	3	670	1	0	0	0	0	1	0	0	0	6123	72	3	3	1434	3	FXR2	17	7506235	Missense_Mutation	SNP	A	TCGA-KN-8434-01A-11D-2310-10	101276	7506235	73688975	48	43101										
SHBG	6462	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	7534020	7534020	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	cctcctcctcctttgaggttCgaacctgggacccagaggga	11	14	0	2			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr17:7534020C>T	ENST00000380450.4	+	3	257	c.226C>T	c.(226-228)Cga>Tga	p.R76*	SAT2_ENST00000269298.5_5'Flank|SHBG_ENST00000576728.1_Nonsense_Mutation_p.R18*|SHBG_ENST00000572182.1_Nonsense_Mutation_p.R18*|SHBG_ENST00000575903.1_Nonsense_Mutation_p.R76*|SHBG_ENST00000572262.1_Nonsense_Mutation_p.R18*|SHBG_ENST00000575314.1_Nonsense_Mutation_p.R18*|SHBG_ENST00000574539.1_Nonsense_Mutation_p.R18*|SHBG_ENST00000570547.1_Nonsense_Mutation_p.R18*|SHBG_ENST00000416273.3_Nonsense_Mutation_p.R76*|SHBG_ENST00000576478.1_Nonsense_Mutation_p.R18*|SAT2_ENST00000380466.2_5'Flank|SHBG_ENST00000441599.2_Nonsense_Mutation_p.R76*|SHBG_ENST00000340624.5_Nonsense_Mutation_p.R18*|SAT2_ENST00000573566.1_5'Flank	NM_001040.3	NP_001031.2	P04278	SHBG_HUMAN	sex hormone-binding globulin	76	Laminin G-like 1. {ECO:0000255|PROSITE- ProRule:PRU00122}.				primary spermatocyte growth (GO:0007285)	extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	androgen binding (GO:0005497)	p.?(1)		cervix(1)|endometrium(2)|large_intestine(4)|lung(2)|skin(1)	10		all_cancers(10;0.0867)		READ - Rectum adenocarcinoma(115;0.168)	Danazol(DB01406)|Drostanolone(DB00858)|Estradiol(DB00783)|Estropipate(DB04574)|Fluoxymesterone(DB01185)|Hydrocortisone(DB00741)|Methyltestosterone(DB06710)|Mitotane(DB00648)|Norethindrone(DB00717)|Spironolactone(DB00421)|Testosterone(DB00624)|transdermal testosterone gel(DB05275)	CTTTGAGGTTCGAACCTGGGA	0.502																																																1	Unknown(1)	haematopoietic_and_lymphoid_tissue(1)											65	62	63					17																	7534020		2203	4300	6503	SO:0001587	stop_gained	6462				CCDS11117.1, CCDS54082.1, CCDS54083.1, CCDS58513.1, CCDS73961.1, CCDS73962.1	17p13.1	2013-09-19			ENSG00000129214	ENSG00000129214			10839	protein-coding gene	gene with protein product	"androgen binding protein"	182205				2587256	Standard	NM_001146279		Approved	ABP, TEBG, MGC126834, MGC138391	uc002gie.2	P04278	OTTHUMG00000108153	ENST00000380450.4:c.226C>T	17.37:g.7534020C>T	ENSP00000369816:p.Arg76*	Somatic		WXS	Illumina HiSeq	Phase_I	B0FWH4|E9PGW1|F5H5Z8|I3L1N7|P14689|Q16616|Q3MIL0|Q6ISD2	Nonsense_Mutation	SNP	ENST00000380450.4	37	CCDS11117.1	.	.	.	.	.	.	.	.	.	.	C	26.6	4.755742	0.89843	.	.	ENSG00000129214	ENST00000340624;ENST00000441599;ENST00000416273;ENST00000441313;ENST00000452698;ENST00000380450	.	.	.	5.04	2.98	0.34508	.	0.392041	0.26112	N	0.026270	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-0.5936	8.3525	0.32310	0.0:0.755:0.1569:0.0881	.	.	.	.	X	18;76;76;76;76;76	.	ENSP00000345675:R18X	R	+	1	2	SHBG	7474745	0.795000	0.28851	0.009000	0.14445	0.979000	0.70002	2.218000	0.42889	0.493000	0.27837	0.561000	0.74099	CGA		0.502	SHBG-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000226957.2	NM_001040		T	7534020	C	T	7534020	4	4	670	1	0	0	0	0	0	1	0	0	14282	876	31	1	236	1	SHBG	17	7534020	Nonsense_Mutation	SNP	C	TCGA-KN-8434-01A-11D-2310-10	27785	7534020	73661190	49	43102										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	7578507	7578507	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	tcaacccacagctgcacaggGcaggtcttggccagttggca	12	13	2	0			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr17:7578507G>C	ENST00000269305.4	-	5	612	c.423C>G	c.(421-423)tgC>tgG	p.C141W	TP53_ENST00000574684.1_5'Flank|TP53_ENST00000445888.2_Missense_Mutation_p.C141W|TP53_ENST00000420246.2_Missense_Mutation_p.C141W|TP53_ENST00000413465.2_Missense_Mutation_p.C141W|TP53_ENST00000359597.4_Missense_Mutation_p.C141W|TP53_ENST00000455263.2_Missense_Mutation_p.C141W	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	141	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with FBXO42.|Required for interaction with ZNF385A.		C -> A (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|C -> F (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in LFS; germline mutation and in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.C141W(13)|p.C141*(11)|p.0?(8)|p.A138_P142delAKTCP(4)|p.C141C(4)|p.N131fs*27(2)|p.P142fs*7(1)|p.L137_W146del10(1)|p.C141A(1)|p.C9W(1)|p.A6_P10delAKTCP(1)|p.K139fs*4(1)|p.A45_P49delAKTCP(1)|p.T140fs*28(1)|p.A138_V143delAKTCPV(1)|p.C141fs*5(1)|p.P142del(1)|p.C48W(1)|p.C141_P142insXX(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	GCTGCACAGGGCAGGTCTTGG	0.577		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	55	Substitution - Missense(16)|Substitution - Nonsense(11)|Deletion - In frame(9)|Whole gene deletion(8)|Deletion - Frameshift(5)|Substitution - coding silent(4)|Insertion - Frameshift(1)|Insertion - In frame(1)	ovary(13)|lung(9)|breast(6)|oesophagus(5)|large_intestine(4)|bone(4)|stomach(3)|central_nervous_system(3)|upper_aerodigestive_tract(2)|haematopoietic_and_lymphoid_tissue(2)|liver(2)|kidney(1)|urinary_tract(1)											57	56	56					17																	7578507		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.423C>G	17.37:g.7578507G>C	ENSP00000269305:p.Cys141Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	G	12.43	1.936103	0.34189	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944;ENST00000414315;ENST00000508793	D;D;D;D;D;D;D;D;D	0.99824	-6.96;-6.96;-6.96;-6.96;-6.96;-6.96;-6.96;-6.96;-6.96	5.48	2.07	0.26955	p53, DNA-binding domain (1);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.046412	0.85682	D	0.000000	D	0.99775	0.9907	M	0.90309	3.105	0.80722	D	1	D;D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D;D	0.97110	1.0;1.0;0.998;1.0;1.0;1.0;1.0	D	0.98853	1.0759	10	0.87932	D	0	-26.1094	8.3736	0.32430	0.2952:0.0:0.7048:0.0	.	102;141;141;48;141;141;141	B4E095;P04637-2;P04637-3;E9PFT5;P04637;Q1MSW8;E7EQX7	.;.;.;.;P53_HUMAN;.;.	W	141;141;141;141;141;141;130;48;9;48;9;141	ENSP00000410739:C141W;ENSP00000352610:C141W;ENSP00000269305:C141W;ENSP00000398846:C141W;ENSP00000391127:C141W;ENSP00000391478:C141W;ENSP00000425104:C9W;ENSP00000423862:C48W;ENSP00000424104:C141W	ENSP00000269305:C141W	C	-	3	2	TP53	7519232	1.000000	0.71417	0.987000	0.45799	0.022000	0.10575	1.115000	0.31209	0.236000	0.21180	0.655000	0.94253	TGC		0.577	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		C	7578507	G	C	7578507	3	2	670	1	0	0	0	0	1	0	0	0	16393	1195	42	4	875	4	TP53	17	7578507	Missense_Mutation	SNP	G	TCGA-KN-8434-01A-11D-2310-10	44487	7578507	73616703	50	43103										
DNAH9	1770	ucsc.edu	37	chr17	11865498	11865498	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	atgacgaagaagaacagagaAgagtttaggagtcctcctcg	12	7	0	5			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr17:11865498A>G	ENST00000262442.4	+	68	13226	c.13158A>G	c.(13156-13158)gaA>gaG	p.E4386E	DNAH9_ENST00000396001.2_3'UTR|DNAH9_ENST00000608377.1_Silent_p.E698E|RP11-1096G20.5_ENST00000580270.1_RNA|DNAH9_ENST00000454412.2_Silent_p.E4310E	NM_001372.3	NP_001363.2	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9	4386					cell projection organization (GO:0030030)|cellular component movement (GO:0006928)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|spermatogenesis (GO:0007283)	axoneme (GO:0005930)|cytoskeleton (GO:0005856)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)|motor activity (GO:0003774)			NS(2)|autonomic_ganglia(1)|breast(15)|central_nervous_system(5)|endometrium(17)|haematopoietic_and_lymphoid_tissue(6)|kidney(17)|large_intestine(49)|liver(2)|lung(123)|ovary(6)|pancreas(1)|prostate(6)|skin(21)|stomach(2)|upper_aerodigestive_tract(13)|urinary_tract(4)	290		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)		AGAACAGAGAAGAGTTTAGGA	0.542																																																0													76	77	77					17																	11865498		2203	4300	6503	SO:0001819	synonymous_variant	1770			U61740	CCDS11160.1, CCDS11161.1	17p12	2009-05-07	2006-09-04		ENSG00000007174	ENSG00000007174		"Axonemal dyneins"	2953	protein-coding gene	gene with protein product		603330	"dynein, axonemal, heavy polypeptide 17-like", "dynein, axonemal, heavy polypeptide 9"	DNAH17L		8812413, 11247663	Standard	NM_001372		Approved	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9	uc002gne.3	Q9NYC9	OTTHUMG00000130383	ENST00000262442.4:c.13158A>G	17.37:g.11865498A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A2VCQ8|O15064|O95494|Q9NQ28	Silent	SNP	ENST00000262442.4	37	CCDS11160.1																																																																																				0.542	DNAH9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252756.2	NM_001372		G	11865498	A	G	11865498	2	3	670	1	0	0	0	0	0	0	0	1	4610	69	3	3		3	DNAH9	17	11865498	Silent	SNP	A	TCGA-KN-8434-01A-11D-2310-10	4286991	11865498	69329712	51	43104										
NLE1	54475	mdanderson.org	37	chr17	33469279	33469279	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ccatccacgcacacccaccgGcactgctgccgccatcctgc	7	22	0	0	rs1471615	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr17:33469279G>C	ENST00000442241.4	-	1	55	c.16C>G	c.(16-18)Ccg>Gcg	p.P6A	NLE1_ENST00000586869.1_5'UTR|NLE1_ENST00000360831.5_Missense_Mutation_p.P6A|NLE1_ENST00000593176.1_5'Flank	NM_001014445.1|NM_018096.3	NP_001014445.1|NP_060566.2	Q9NVX2	NLE1_HUMAN	notchless homolog 1 (Drosophila)	6			P -> A (in dbSNP:rs1471615). {ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:19413330, ECO:0000269|PubMed:22223895, ECO:0000269|PubMed:22814378, ECO:0000269|Ref.5}.		hematopoietic stem cell homeostasis (GO:0061484)|inner cell mass cell differentiation (GO:0001826)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway (GO:2001268)|negative regulation of mitotic cell cycle (GO:0045930)|Notch signaling pathway (GO:0007219)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|ribosomal large subunit biogenesis (GO:0042273)	nucleolus (GO:0005730)|nucleus (GO:0005634)				NS(1)|breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(4)|ovary(1)|prostate(2)	22		Ovarian(249;0.17)				ACACCCACCGGCACTGCTGCC	0.756													C|||	4975	0.993411	0.9985	0.9957	5008	,	,		10691	1.0		0.9742	False		,,,				2504	0.998															0								C	,ALA/PRO	3575,19		1778,19,0	3	4	4		,16	3.4	0	17	dbSNP_88	4	7070,124		3473,124,0	no	utr-5,missense	NLE1	NM_001014445.1,NM_018096.3	,27	5251,143,0	CC,CG,GG		1.7237,0.5287,1.3255	,benign	,6/486	33469279	10645,143	1797	3597	5394	SO:0001583	missense	54475				CCDS11291.1, CCDS45647.1	17q12	2013-01-10		2005-08-09	ENSG00000073536	ENSG00000073536		"WD repeat domain containing"	19889	protein-coding gene	gene with protein product	"Notchless gene homolog, (Drosophila)"						Standard	XM_005257989		Approved	FLJ10458	uc002hiy.1	Q9NVX2	OTTHUMG00000132928	ENST00000442241.4:c.16C>G	17.37:g.33469279G>C	ENSP00000413572:p.Pro6Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O60868|Q59GJ8|Q9BU54	Missense_Mutation	SNP	ENST00000442241.4	37	CCDS11291.1	2147	0.983058608058608	488	0.991869918699187	357	0.9861878453038674	572	1.0	730	0.9630606860158312	C	12.94	2.088081	0.36855	0.994713	0.982763	ENSG00000073536	ENST00000442241;ENST00000537697	T	0.55588	0.51	4.34	3.37	0.38596	.	.	.	.	.	T	0.00012	0.0000	N	0.11560	0.145	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.34153	-0.9840	8	0.18710	T	0.47	15.9119	5.5414	0.17039	0.0:0.6863:0.2052:0.1085	rs1471615;rs52800602;rs59359892;rs1471615	6	Q9NVX2	NLE1_HUMAN	A	6	ENSP00000413572:P6A	ENSP00000413572:P6A	P	-	1	0	NLE1	30493392	0.001000	0.12720	0.010000	0.14722	0.119000	0.20118	0.511000	0.22739	1.193000	0.43086	-0.187000	0.12897	CCG		0.756	NLE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256441.2	NM_018096		C	33469279	G	C	33469279	3	2	670	1	0	0	0	0	1	0	0	0	10467	1203	42	4	1493	4	NLE1	17	33469279	Missense_Mutation	SNP	G	TCGA-KN-8434-01A-11D-2310-10	21603781	33469279	47725931	52	43105										
KRTAP4-11	653240	hgsc.bcm.edu	37	chr17	39274432	39274432	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gggcctgcagcagctggacaCacagcagctggggcgacagt	16	12	0	0			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr17:39274432C>T	ENST00000391413.2	-	1	174	c.136G>A	c.(136-138)Gtg>Atg	p.V46M		NM_033059.3	NP_149048.2	Q9BYQ6	KR411_HUMAN	keratin associated protein 4-11	46	27 X 5 AA repeats of C-C-[GIKRQVHEL]- [SPTR]-[STVQRMC].		Missing (in allele KAP4.14). {ECO:0000269|PubMed:15955084}.			keratin filament (GO:0045095)				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)			CAGCTGGACACACAGCAGCTG	0.677																																																0													14	18	17					17																	39274432		690	1591	2281	SO:0001583	missense	653240			AC025904	CCDS45675.1	17q21.2	2013-06-25			ENSG00000212721	ENSG00000212721		"Keratin associated proteins"	18911	protein-coding gene	gene with protein product			"keratin associated protein 4-14"	KRTAP4-14			Standard	NM_033059		Approved	KAP4.11, KAP4.14	uc002hvz.3	Q9BYQ6	OTTHUMG00000133586	ENST00000391413.2:c.136G>A	17.37:g.39274432C>T	ENSP00000375232:p.Val46Met	Somatic		WXS	Illumina HiSeq	Phase_I	A0AUY2	Missense_Mutation	SNP	ENST00000391413.2	37	CCDS45675.1	.	.	.	.	.	.	.	.	.	.	.	10.56	1.385842	0.25031	.	.	ENSG00000212721	ENST00000391413	T	0.01430	4.9	3.76	-6.69	0.01772	.	0.911881	0.08829	U	0.887602	T	0.03739	0.0106	M	0.84948	2.725	0.09310	N	1	P	0.40266	0.71	P	0.46585	0.521	T	0.02144	-1.1206	10	0.54805	T	0.06	.	8.7851	0.34816	0.0:0.3102:0.5247:0.1651	.	46	Q9BYQ6	KR411_HUMAN	M	46	ENSP00000375232:V46M	ENSP00000375232:V46M	V	-	1	0	KRTAP4-11	36527958	0.000000	0.05858	0.000000	0.03702	0.011000	0.07611	-2.396000	0.01052	-0.895000	0.03920	-1.166000	0.01754	GTG		0.677	KRTAP4-11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257690.1			T	39274432	C	T	39274432	3	4	670	1	0	0	0	0	1	0	0	0	8556	478	17	2	455	2	KRTAP4-11	17	39274432	Missense_Mutation	SNP	C	TCGA-KN-8434-01A-11D-2310-10	5805153	39274432	41920778	53	43106										
LPIN2	9663	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	2937725	2937725	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gcgagtctactttagctgccGgtttggattctgagggcgcc	14	10	2	1	rs146067222		TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr18:2937725G>A	ENST00000261596.4	-	7	1371	c.1133C>T	c.(1132-1134)cCg>cTg	p.P378L		NM_014646.2	NP_055461.1	Q92539	LPIN2_HUMAN	lipin 2	378					cellular lipid metabolic process (GO:0044255)|dephosphorylation (GO:0016311)|fatty acid metabolic process (GO:0006631)|glycerophospholipid biosynthetic process (GO:0046474)|lipid metabolic process (GO:0006629)|phosphatidylcholine biosynthetic process (GO:0006656)|phosphatidylethanolamine biosynthetic process (GO:0006646)|phospholipid metabolic process (GO:0006644)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)|triglyceride biosynthetic process (GO:0019432)	cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|nucleus (GO:0005634)	phosphatidate phosphatase activity (GO:0008195)|transcription coactivator activity (GO:0003713)			autonomic_ganglia(1)|breast(1)|endometrium(2)|large_intestine(4)|lung(16)|ovary(1)|pancreas(1)|prostate(2)|skin(1)	29				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)		TTTAGCTGCCGGTTTGGATTC	0.453													G|||	1	0.000199681	0.0008	0.0	5008	,	,		16946	0.0		0.0	False		,,,				2504	0.0															0								G	LEU/PRO	3,4403	6.2+/-15.9	0,3,2200	59	61	61		1133	5.7	0.9	18	dbSNP_134	61	1,8599	1.2+/-3.3	0,1,4299	yes	missense	LPIN2	NM_014646.2	98	0,4,6499	AA,AG,GG		0.0116,0.0681,0.0308	benign	378/897	2937725	4,13002	2203	4300	6503	SO:0001583	missense	9663			D87436	CCDS11829.1	18p	2014-09-17			ENSG00000101577	ENSG00000101577			14450	protein-coding gene	gene with protein product		605519				11138012, 9039502	Standard	NM_014646		Approved	KIAA0249	uc002klo.3	Q92539	OTTHUMG00000131508	ENST00000261596.4:c.1133C>T	18.37:g.2937725G>A	ENSP00000261596:p.Pro378Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A7MD25|D3DUH3	Missense_Mutation	SNP	ENST00000261596.4	37	CCDS11829.1	.	.	.	.	.	.	.	.	.	.	G	13.11	2.140207	0.37825	6.81E-4	1.16E-4	ENSG00000101577	ENST00000261596	T	0.80304	-1.36	5.74	5.74	0.90152	.	1.049380	0.07337	N	0.880142	D	0.83543	0.5277	M	0.78637	2.42	0.58432	D	0.999999	B	0.14438	0.01	B	0.08055	0.003	T	0.69146	-0.5222	10	0.29301	T	0.29	.	18.1163	0.89556	0.0:0.0:1.0:0.0	.	378	Q92539	LPIN2_HUMAN	L	378	ENSP00000261596:P378L	ENSP00000261596:P378L	P	-	2	0	LPIN2	2927725	1.000000	0.71417	0.910000	0.35882	0.895000	0.52256	4.088000	0.57678	2.715000	0.92844	0.655000	0.94253	CCG		0.453	LPIN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254363.2	NM_014646		A	2937725	G	A	2937725	3	1	670	1	0	0	0	0	1	0	0	0	8926	1116	39	1	1613	1	LPIN2	18	2937725	Missense_Mutation	SNP	G	TCGA-KN-8434-01A-11D-2310-10		2937725	75139523	54	43107										
SBNO2	22904	hgsc.bcm.edu;mdanderson.org	37	chr19	1108866	1108866	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gccatgacggcggcgatgcgGccccacacgcgcagcagcgc	15	17	0	1	rs374174588		TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr19:1108866G>A	ENST00000361757.3	-	31	3765	c.3528C>T	c.(3526-3528)ggC>ggT	p.G1176G	SBNO2_ENST00000587024.1_Silent_p.G1166G|SBNO2_ENST00000438103.2_Silent_p.G1119G	NM_014963.2	NP_055778.2	Q9Y2G9	SBNO2_HUMAN	strawberry notch homolog 2 (Drosophila)	1176					bone mineralization (GO:0030282)|bone trabecula morphogenesis (GO:0061430)|macrophage activation involved in immune response (GO:0002281)|negative regulation of transcription, DNA-templated (GO:0045892)|osteoclast fusion (GO:0072675)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of inflammatory response (GO:0050727)|transcription, DNA-templated (GO:0006351)					NS(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(2)|lung(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	14		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|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)		CGGCGATGCGGCCCCACACGC	0.687																																																0									,	1,3983		0,1,1991	8	9	9		3357,3528	4.3	1	19		9	4,8284		0,4,4140	no	coding-synonymous,coding-synonymous	SBNO2	NM_001100122.1,NM_014963.2	,	0,5,6131	AA,AG,GG		0.0483,0.0251,0.0407	,	1119/1310,1176/1367	1108866	5,12267	1992	4144	6136	SO:0001819	synonymous_variant	22904			AK074102	CCDS45894.1, CCDS45895.1	19p13.3	2008-02-05	2006-10-06	2006-10-06		ENSG00000064932			29158	protein-coding gene	gene with protein product		615729	"KIAA0963"	KIAA0963		10231032	Standard	NM_014963		Approved	FLJ00173, Stno, Sno	uc002lrk.4	Q9Y2G9		ENST00000361757.3:c.3528C>T	19.37:g.1108866G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K8P2|B3KWJ1|O75257|Q3KQX0|Q8TEM0	Silent	SNP	ENST00000361757.3	37	CCDS45894.1																																																																																				0.687	SBNO2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000458065.2	NM_014963		A	1108866	G	A	1108866	2	1	670	1	0	0	0	0	0	0	0	1	13876	1190	42	2		2	SBNO2	19	1108866	Silent	SNP	G	TCGA-KN-8434-01A-11D-2310-10		1108866	58020117	55	43108										
DOT1L	84444	mdanderson.org	37	chr19	2226676	2226676	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	tgaagggcgagggcagccgcGgcaaggaggcaggggagggc	23	8	0	1	rs3815308	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr19:2226676G>A	ENST00000398665.3	+	27	4192	c.4156G>A	c.(4156-4158)Ggc>Agc	p.G1386S		NM_032482.2	NP_115871.1	Q8TEK3	DOT1L_HUMAN	DOT1-like histone H3K79 methyltransferase	1386			G -> S (in dbSNP:rs3815308).		histone lysine methylation (GO:0034968)|regulation of JAK-STAT cascade (GO:0046425)|regulation of transcription regulatory region DNA binding (GO:2000677)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|transcription factor binding (GO:0008134)			NS(1)|breast(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(3)|lung(14)|ovary(2)|pancreas(2)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(9)	42		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)		GGGCAGCCGCGGCAAGGAGGC	0.726													G|||	1130	0.225639	0.0356	0.3069	5008	,	,		10935	0.1825		0.4692	False		,,,				2504	0.2188															0								G	SER/GLY	373,3611		37,299,1656	6	9	8		4156	0.4	0	19	dbSNP_107	8	3524,4624		845,1834,1395	no	missense	DOT1L	NM_032482.2	56	882,2133,3051	AA,AG,GG		43.2499,9.3624,32.1217	benign	1386/1538	2226676	3897,8235	1992	4074	6066	SO:0001583	missense	84444			AF509504	CCDS42460.1	19p13.3	2013-05-21	2013-05-21		ENSG00000104885	ENSG00000104885	2.1.1.43	"Chromatin-modifying enzymes / K-methyltransferases"	24948	protein-coding gene	gene with protein product	"histone methyltransferase DOT1L"	607375	"DOT1-like, histone H3 methyltransferase (S. cerevisiae)"			11347906, 12123582	Standard	NM_032482		Approved	KIAA1814, DOT1, KMT4	uc002lvb.4	Q8TEK3	OTTHUMG00000150431	ENST00000398665.3:c.4156G>A	19.37:g.2226676G>A	ENSP00000381657:p.Gly1386Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O60379|Q96JL1	Missense_Mutation	SNP	ENST00000398665.3	37	CCDS42460.1	602	0.27564102564102566	19	0.03861788617886179	123	0.3397790055248619	113	0.19755244755244755	347	0.4577836411609499	G	0.015	-1.555274	0.00918	0.093624	0.432499	ENSG00000104885	ENST00000398665;ENST00000221482;ENST00000457590	T;T	0.28454	2.06;1.61	4.28	0.43	0.16515	.	0.858235	0.09817	N	0.751980	T	0.00012	0.0000	N	0.19112	0.55	0.80722	P	0.0	B;B	0.24533	0.105;0.012	B;B	0.12837	0.003;0.008	T	0.46303	-0.9201	9	0.87932	D	0	-4.2319	10.6441	0.45610	0.3992:0.0:0.6008:0.0	rs3815308;rs56900395	1386;1386	Q8TEK3;Q8TEK3-2	DOT1L_HUMAN;.	S	1386;1386;266	ENSP00000381657:G1386S;ENSP00000407411:G266S	ENSP00000221482:G1386S	G	+	1	0	DOT1L	2177676	0.363000	0.24989	0.007000	0.13788	0.002000	0.02628	1.858000	0.39408	-0.020000	0.14032	-1.134000	0.01955	GGC		0.726	DOT1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318066.1	NM_032482		A	2226676	G	A	2226676	3	1	670	1	0	0	0	0	1	0	0	0	4711	1116	39	1	4262	1	DOT1L	19	2226676	Missense_Mutation	SNP	G	TCGA-KN-8434-01A-11D-2310-10	1117810	2226676	56902307	56	43109										
RAVER1	125950	mdanderson.org	37	chr19	10431799	10431799	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	cctcggagccccacaggggcGgggggaggagtgagctgggc	21	11	0	1	rs281425	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr19:10431799G>T	ENST00000293677.6	-	8	1530	c.1449C>A	c.(1447-1449)ccC>ccA	p.P483P	CTD-2369P2.12_ENST00000586529.1_5'Flank	NM_133452.2	NP_597709.2	Q8IY67	RAVR1_HUMAN	ribonucleoprotein, PTB-binding 1	466						cytoplasm (GO:0005737)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(3)|large_intestine(1)|lung(8)|ovary(2)|skin(1)|upper_aerodigestive_tract(2)	18			OV - Ovarian serous cystadenocarcinoma(20;1.81e-09)|Epithelial(33;3.65e-06)|all cancers(31;8.35e-06)			CCACAGGGGCGGGGGGAGGAG	0.736													G|||	1073	0.214257	0.3086	0.1801	5008	,	,		12960	0.1012		0.2256	False		,,,				2504	0.2157															0								G		462,2062		41,380,841	2	2	2		1449	-7.2	0.3	19	dbSNP_79	2	1100,4946		110,880,2033	no	coding-synonymous	RAVER1	NM_133452.2		151,1260,2874	TT,TG,GG		18.1938,18.3043,18.2264		483/757	10431799	1562,7008	1262	3023	4285	SO:0001819	synonymous_variant	125950				CCDS45960.1	19p13.2	2013-02-12				ENSG00000161847		"RNA binding motif (RRM) containing"	30296	protein-coding gene	gene with protein product		609950				11853319, 11724819	Standard	NM_133452		Approved	KIAA1978	uc002moa.3	Q8IY67		ENST00000293677.6:c.1449C>A	19.37:g.10431799G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NMU4|Q8IY60|Q8TF24	Silent	SNP	ENST00000293677.6	37	CCDS45960.1																																																																																				0.736	RAVER1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451227.1	NM_133452		T	10431799	G	T	10431799	2	4	670	1	0	0	0	0	0	0	0	1	13107	1103	39	4		4	RAVER1	19	10431799	Silent	SNP	G	TCGA-KN-8434-01A-11D-2310-10	8205123	10431799	48697184	57	43110										
CC2D1A	54862	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	14024412	14024412	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gaccttctgccaccgccccaGcctcatctccaggcttggct	8	19	3	0			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr19:14024412G>C	ENST00000318003.7	+	6	950	c.709G>C	c.(709-711)Gcc>Ccc	p.A237P	CC2D1A_ENST00000589606.1_Missense_Mutation_p.A237P	NM_017721.4	NP_060191.3	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A	237	Pro-rich.				positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|signal transducer activity (GO:0004871)			NS(1)|breast(2)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(12)|prostate(2)|skin(2)	27			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			CACCGCCCCAGCCTCATCTCC	0.672																																																0													21	25	24					19																	14024412		1936	4116	6052	SO:0001583	missense	54862			AF536205	CCDS42512.1	19p13.12	2007-01-08				ENSG00000132024			30237	protein-coding gene	gene with protein product	"mental retardation, nonsyndromic, autosomal recessive, 3"	610055				12761501, 16033914	Standard	NM_017721		Approved	FLJ20241, MRT3	uc002mxo.2	Q6P1N0		ENST00000318003.7:c.709G>C	19.37:g.14024412G>C	ENSP00000313601:p.Ala237Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z435|Q86XV0|Q8NF89|Q9H603|Q9NXI1	Missense_Mutation	SNP	ENST00000318003.7	37	CCDS42512.1	.	.	.	.	.	.	.	.	.	.	G	9.613	1.131834	0.21041	.	.	ENSG00000132024	ENST00000318003;ENST00000254346;ENST00000389233	T	0.21191	2.02	4.58	-1.52	0.08637	.	0.960608	0.08628	N	0.917415	T	0.14056	0.0340	L	0.40543	1.245	0.09310	N	1	P;B	0.40875	0.731;0.001	B;B	0.38616	0.277;0.003	T	0.24870	-1.0148	10	0.23891	T	0.37	-6.2937	4.6872	0.12764	0.3443:0.0:0.5119:0.1438	.	237;237	Q6P1N0-2;Q6P1N0	.;C2D1A_HUMAN	P	237;75;212	ENSP00000313601:A237P	ENSP00000254346:A75P	A	+	1	0	CC2D1A	13885412	0.000000	0.05858	0.000000	0.03702	0.084000	0.17831	-0.237000	0.08990	-0.243000	0.09653	0.462000	0.41574	GCC		0.672	CC2D1A-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000457954.1	NM_017721		C	14024412	G	C	14024412	3	2	670	1	0	0	0	0	1	0	0	0	2728	971	34	4	731	4	CC2D1A	19	14024412	Missense_Mutation	SNP	G	TCGA-KN-8434-01A-11D-2310-10	3592613	14024412	45104571	58	43111										
GLTSCR1	29998	mdanderson.org	37	chr19	48183114	48183114	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gggggtgccacggcggccacActgggcctggcgcccatcca	16	16	0	0	rs2914438	byFrequency	TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr19:48183114A>G	ENST00000396720.3	+	6	881	c.687A>G	c.(685-687)acA>acG	p.T229T	CTD-2571L23.8_ENST00000599924.1_lincRNA	NM_015711.3	NP_056526.3	Q9NZM4	GSCR1_HUMAN	glioma tumor suppressor candidate region gene 1	229										breast(2)|endometrium(1)|kidney(1)|large_intestine(4)|lung(3)|pancreas(3)|prostate(4)|skin(2)	20		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)		CGGCGGCCACACTGGGCCTGG	0.711													G|||	4089	0.816494	0.798	0.7954	5008	,	,		11827	0.9593		0.7227	False		,,,				2504	0.8057															0								G		2219,413		932,355,29	3	4	4		687	-9.6	0	19	dbSNP_101	4	4284,1130		1704,876,127	no	coding-synonymous	GLTSCR1	NM_015711.3		2636,1231,156	GG,GA,AA		20.8718,15.6915,19.1772		229/1561	48183114	6503,1543	1316	2707	4023	SO:0001819	synonymous_variant	29998			AF182077	CCDS46134.1	19q13.3	2012-11-29			ENSG00000063169	ENSG00000063169			4332	protein-coding gene	gene with protein product		605690				10708517	Standard	NM_015711		Approved		uc002phh.4	Q9NZM4		ENST00000396720.3:c.687A>G	19.37:g.48183114A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8MW01	Silent	SNP	ENST00000396720.3	37	CCDS46134.1																																																																																				0.711	GLTSCR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465846.1	NM_015711		G	48183114	A	G	48183114	2	3	670	1	0	0	0	0	0	0	0	1	6481	146	6	3		3	GLTSCR1	19	48183114	Silent	SNP	A	TCGA-KN-8434-01A-11D-2310-10	34158702	48183114	10945869	59	43112										
RBCK1	10616	broad.mit.edu	37	chr20	400073	400074	+	Frame_Shift_Ins	INS	-	-	G													0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ccggggtcccccaggaacccINSggacgggggcagccagatgc					rs377036635		TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr20:400073_400074insG	ENST00000356286.5	+	5	1248_1249	c.543_544insG	c.(544-546)ggafs	p.G182fs	RBCK1_ENST00000353660.3_Frame_Shift_Ins_p.G140fs|RBCK1_ENST00000382181.2_Frame_Shift_Ins_p.D66fs	NM_031229.2	NP_112506.2	Q9BYM8	HOIL1_HUMAN	RanBP-type and C3HC4-type zinc finger containing 1	182	Interaction with IRF3.|Interaction with TAB2.				negative regulation of necroptotic process (GO:0060546)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|positive regulation of apoptotic process (GO:0043065)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB import into nucleus (GO:0042346)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein linear polyubiquitination (GO:0097039)|protein polyubiquitination (GO:0000209)|T cell receptor signaling pathway (GO:0050852)|viral process (GO:0016032)	LUBAC complex (GO:0071797)	ligase activity (GO:0016874)|ubiquitin binding (GO:0043130)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			kidney(1)|lung(4)	5		all_epithelial(17;0.172)|Lung NSC(37;0.191)|Breast(17;0.231)				CCCAGGAACCCGGACGGGGGCA	0.668																																																0																																										SO:0001589	frameshift_variant	10616			U67322	CCDS12998.1, CCDS13000.2	20p13	2014-09-17	2006-06-28	2006-06-28	ENSG00000125826	ENSG00000125826		"RING-type (C3HC4) zinc fingers", "Zinc fingers, RAN-binding domain containing"	15864	protein-coding gene	gene with protein product	"heme-oxidized IRP2 ubiquitin ligase 1"	610924	"chromosome 20 open reading frame 18"	C20orf18			Standard	NM_031229		Approved	RBCK2, XAP4, RNF54, ZRANB4, UBCE7IP3, HOIL1	uc002wdp.4	Q9BYM8	OTTHUMG00000031634	ENST00000356286.5:c.545dupG	20.37:g.400075_400075dupG	ENSP00000348632:p.Gly182fs	Somatic		WXS	Illumina HiSeq	Phase_I	O95623|Q86SL2|Q96BS3|Q9BYM9	Frame_Shift_Ins	INS	ENST00000356286.5	37	CCDS13000.2																																																																																				0.668	RBCK1-010	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077461.3	NM_031229		G	400074	-	G	400073	7	5	670	1	0	1	1	0	0	0	0	0	13120	639	23	0	580	0	RBCK1	20	400073	Frame_Shift_Ins	INS	-	TCGA-KN-8434-01A-11D-2310-10		400073	62625447	60	43113										
RIPK4	54101	ucsc.edu	37	chr21	43187089	43187089	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	tccagtggacatggcgcaccTtgtacacctgcccgaagccg	11	15	0	0			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr21:43187089T>C	ENST00000352483.2	-	1	177	c.113A>G	c.(112-114)aAg>aGg	p.K38R	RIPK4_ENST00000542057.1_5'Flank|RIPK4_ENST00000544709.1_5'Flank|RIPK4_ENST00000332512.3_Missense_Mutation_p.K38R			P57078	RIPK4_HUMAN	receptor-interacting serine-threonine kinase 4	38	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				morphogenesis of an epithelium (GO:0002009)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(13)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	34						ATGGCGCACCTTGTACACCTG	0.726																																																0													34	30	32					21																	43187089		2201	4299	6500	SO:0001583	missense	54101			AJ278016	CCDS13675.1	21q22.3	2013-01-10	2004-07-06	2004-07-06	ENSG00000183421	ENSG00000183421		"Ankyrin repeat domain containing"	496	protein-coding gene	gene with protein product	"protein kinase C-associated kinase", "PKC-delta-interacting protein kinase"	605706	"ankyrin repeat domain 3"	ANKRD3		10830953	Standard	NM_020639		Approved	DIK, ANKK2, RIP4, PKK	uc002yzn.1	P57078	OTTHUMG00000086770	ENST00000352483.2:c.113A>G	21.37:g.43187089T>C	ENSP00000330161:p.Lys38Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q96KH0	Missense_Mutation	SNP	ENST00000352483.2	37		.	.	.	.	.	.	.	.	.	.	T	18.63	3.666244	0.67814	.	.	ENSG00000183421	ENST00000332512;ENST00000352483	T;T	0.70164	-0.46;-0.46	3.5	3.5	0.40072	.	0.000000	0.56097	U	0.000027	T	0.68302	0.2986	N	0.21324	0.655	0.80722	D	1	D	0.71674	0.998	D	0.78314	0.991	T	0.68884	-0.5291	10	0.48119	T	0.1	-27.0112	11.2166	0.48830	0.0:0.0:0.0:1.0	.	38	P57078-2	.	R	38	ENSP00000332454:K38R;ENSP00000330161:K38R	ENSP00000332454:K38R	K	-	2	0	RIPK4	42060158	1.000000	0.71417	1.000000	0.80357	0.904000	0.53231	6.694000	0.74587	1.231000	0.43661	0.254000	0.18369	AAG		0.726	RIPK4-201	KNOWN	basic	protein_coding	protein_coding		NM_020639		C	43187089	T	C	43187089	3	2	670	1	0	0	0	0	1	0	0	0	13396	1609	56	3	2273	3	RIPK4	21	43187089	Missense_Mutation	SNP	T	TCGA-KN-8434-01A-11D-2310-10		43187089	4942806	61	43114										
MN1	4330	broad.mit.edu	37	chr22	28193289	28193289	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ccacggggagggagtttgggCgagccggtcaccaggggact	19	10	1	0			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr22:28193289C>T	ENST00000302326.4	-	1	4197	c.3243G>A	c.(3241-3243)tcG>tcA	p.S1081S		NM_002430.2	NP_002421.3	Q10571	MN1_HUMAN	meningioma (disrupted in balanced translocation) 1	1081					intramembranous ossification (GO:0001957)					NS(1)|breast(2)|central_nervous_system(3)|endometrium(4)|kidney(3)|large_intestine(6)|lung(15)|ovary(3)|prostate(4)|skin(3)|upper_aerodigestive_tract(1)	45						GGAGTTTGGGCGAGCCGGTCA	0.662			T	ETV6	"AML, meningioma"																																		Dom	yes		22	22q13	4330	meningioma (disrupted in balanced translocation) 1		"L, O"	0													20	23	22					22																	28193289		1957	4130	6087	SO:0001819	synonymous_variant	4330			X82209	CCDS42998.1	22q12.1	2010-09-29			ENSG00000169184	ENSG00000169184			7180	protein-coding gene	gene with protein product	"probable tumor suppressor protein MN1"	156100	"meningioma chromosome region"	MGCR		7731706, 12569362	Standard	NM_002430		Approved	MGCR1-PEN, MGCR1	uc003adj.3	Q10571	OTTHUMG00000150975	ENST00000302326.4:c.3243G>A	22.37:g.28193289C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1V9	Silent	SNP	ENST00000302326.4	37	CCDS42998.1																																																																																				0.662	MN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320737.1	NM_002430		T	28193289	C	T	28193289	2	4	670	1	0	0	0	0	0	0	0	1	9680	755	27	1		1	MN1	22	28193289	Silent	SNP	C	TCGA-KN-8434-01A-11D-2310-10		28193289	23111277	62	43115										
RHBDD3	25807	broad.mit.edu	37	chr22	29661514	29661515	+	Frame_Shift_Ins	INS	-	-	C													0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	gggccaggaccaggccggggINSccggcccccaccagccacag							TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chr22:29661514_29661515insC	ENST00000216085.7	-	3	525_526	c.101_102insG	c.(100-102)ggcfs	p.G34fs	EWSR1_ENST00000332035.6_5'Flank|EWSR1_ENST00000397938.2_5'Flank|EWSR1_ENST00000414183.2_5'Flank|EWSR1_ENST00000331029.7_5'Flank|EWSR1_ENST00000406548.1_5'Flank|EWSR1_ENST00000332050.6_5'Flank|EWSR1_ENST00000333395.6_5'Flank	NM_012265.1	NP_036397.1	Q9Y3P4	RHBD3_HUMAN	rhomboid domain containing 3	34					liver development (GO:0001889)|MAPK cascade (GO:0000165)|negative regulation of natural killer cell activation (GO:0032815)|positive regulation of protein catabolic process (GO:0045732)|regulation of acute inflammatory response (GO:0002673)|regulation of protein secretion (GO:0050708)|response to xenobiotic stimulus (GO:0009410)	integral component of membrane (GO:0016021)	serine-type endopeptidase activity (GO:0004252)			lung(1)|ovary(1)	2						CCAGGCCGGGGCCGGCCCCCAC	0.683																																																0																																										SO:0001589	frameshift_variant	25807			AL050346	CCDS13850.1	22q12.2	2006-02-22	2006-02-22	2006-02-22	ENSG00000100263	ENSG00000100263			1308	protein-coding gene	gene with protein product			"chromosome 22 open reading frame 3"	C22orf3		10591208, 15105437	Standard	NM_012265		Approved	PTAG	uc003aeq.1	Q9Y3P4	OTTHUMG00000151032	ENST00000216085.7:c.102dupG	22.37:g.29661516_29661516dupC	ENSP00000216085:p.Gly34fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6I9X3|Q9UGQ7	Frame_Shift_Ins	INS	ENST00000216085.7	37	CCDS13850.1																																																																																				0.683	RHBDD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321085.1	NM_012265		C	29661515	-	C	29661514	7	5	670	1	0	1	1	0	0	0	0	0	13331	1190	42	0	1078	0	RHBDD3	22	29661514	Frame_Shift_Ins	INS	-	TCGA-KN-8434-01A-11D-2310-10	1468225	29661514	21643052	63	43116										
DMD	1756	broad.mit.edu	37	chrX	31645807	31645807	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	tacttgccattgtttcatcaGctcttttactcccttggagt	6	11	3	0			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chrX:31645807G>T	ENST00000357033.4	-	55	8406	c.8200C>A	c.(8200-8202)Ctg>Atg	p.L2734M	DMD_ENST00000343523.2_Missense_Mutation_p.L274M|DMD_ENST00000378677.2_Missense_Mutation_p.L2730M|DMD_ENST00000541735.1_Missense_Mutation_p.L274M|DMD_ENST00000378707.3_Missense_Mutation_p.L274M|DMD_ENST00000359836.1_Missense_Mutation_p.L274M|DMD_ENST00000474231.1_Missense_Mutation_p.L274M	NM_000109.3|NM_004006.2|NM_004011.3|NM_004012.3|NM_004014.2	NP_000100.2|NP_003997|NP_004002.2|NP_004003.1|NP_004005.1	P11532	DMD_HUMAN	dystrophin	2734					cardiac muscle cell action potential (GO:0086001)|cardiac muscle contraction (GO:0060048)|cellular protein complex assembly (GO:0043623)|cellular protein localization (GO:0034613)|extracellular matrix organization (GO:0030198)|motile cilium assembly (GO:0044458)|muscle filament sliding (GO:0030049)|muscle organ development (GO:0007517)|negative regulation of peptidyl-cysteine S-nitrosylation (GO:1902083)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|peptide biosynthetic process (GO:0043043)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of neuron projection development (GO:0010976)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of cellular response to growth factor stimulus (GO:0090287)|regulation of heart rate (GO:0002027)|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0010880)|regulation of ryanodine-sensitive calcium-release channel activity (GO:0060314)|regulation of skeletal muscle contraction (GO:0014819)|regulation of skeletal muscle contraction by regulation of release of sequestered calcium ion (GO:0014809)|regulation of voltage-gated calcium channel activity (GO:1901385)	cell junction (GO:0030054)|cell surface (GO:0009986)|costamere (GO:0043034)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|dystrophin-associated glycoprotein complex (GO:0016010)|filopodium (GO:0030175)|filopodium membrane (GO:0031527)|membrane raft (GO:0045121)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|protein complex (GO:0043234)|sarcolemma (GO:0042383)|syntrophin complex (GO:0016013)	actin binding (GO:0003779)|calcium ion binding (GO:0005509)|dystroglycan binding (GO:0002162)|myosin binding (GO:0017022)|nitric-oxide synthase binding (GO:0050998)|structural constituent of cytoskeleton (GO:0005200)|structural constituent of muscle (GO:0008307)|vinculin binding (GO:0017166)|zinc ion binding (GO:0008270)			NS(2)|breast(3)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(17)|liver(1)|lung(25)|ovary(3)|pancreas(3)|prostate(2)|skin(1)|urinary_tract(2)	77		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)				TGTTTCATCAGCTCTTTTACT	0.448																																																0													102	87	92					X																	31645807		2202	4300	6502	SO:0001583	missense	1756			AF047505	CCDS14231.1, CCDS14232.1, CCDS14233.1, CCDS14234.1, CCDS48091.1, CCDS55394.1, CCDS55395.1, CCDS75965.1	Xp21.2	2014-09-17	2008-08-01		ENSG00000198947	ENSG00000198947			2928	protein-coding gene	gene with protein product	"muscular dystrophy, Duchenne and Becker types"	300377	"dystrophin (muscular dystrophy, Duchenne and Becker types), includes DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272", "mental retardation, X-linked 85"	MRX85		3282674, 3607877, 23900271	Standard	NM_004019		Approved	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272	uc004dda.1	P11532	OTTHUMG00000021336	ENST00000357033.4:c.8200C>A	X.37:g.31645807G>T	ENSP00000354923:p.Leu2734Met	Somatic		WXS	Illumina HiSeq	Phase_I	E9PDN1|Q02295|Q14169|Q14170|Q5JYU0|Q6NSJ9|Q7KZ48|Q8N754|Q9UCW3|Q9UCW4	Missense_Mutation	SNP	ENST00000357033.4	37	CCDS14233.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	16.24|16.24	3.066465|3.066465	0.55539|0.55539	.|.	.|.	ENSG00000198947|ENSG00000198947	ENST00000465285|ENST00000534884;ENST00000378682;ENST00000378684;ENST00000358062;ENST00000378677;ENST00000357033;ENST00000359836;ENST00000343523;ENST00000542849;ENST00000535280;ENST00000378707;ENST00000541735;ENST00000474231	.|T;T;T;T;T;T;T;T	.|0.61392	.|0.11;0.11;0.11;0.11;0.11;0.11;0.11;0.11	5.81|5.81	4.95|4.95	0.65309|0.65309	.|.	.|0.000000	.|0.30547	.|U	.|0.009394	T|T	0.76004|0.76004	0.3927|0.3927	M|M	0.77820|0.77820	2.39|2.39	0.41503|0.41503	D|D	0.988296|0.988296	.|P;P;P;D;D;P;D;D;D;D	.|0.89917	.|0.826;0.946;0.946;1.0;1.0;0.753;0.999;0.999;1.0;1.0	.|B;P;P;D;D;B;D;D;D;D	.|0.91635	.|0.43;0.864;0.864;0.999;0.999;0.406;0.992;0.986;0.999;0.998	T|T	0.76523|0.76523	-0.2928|-0.2928	5|10	.|0.35671	.|T	.|0.21	.|.	16.1681|16.1681	0.81785|0.81785	0.0:0.1296:0.8703:0.0|0.0:0.1296:0.8703:0.0	.|.	.|2726;2734;2730;1393;1390;274;274;274;274;274	.|P11532-4;P11532;E9PDN5;E7EQS7;E7EQS6;F8VX32;E7ESB2;E7EQS5;E7EQR9;F5GZY3	.|.;DMD_HUMAN;.;.;.;.;.;.;.;.	D|M	462|2726;1393;1390;430;2730;2734;274;274;2734;2611;274;274;274	.|ENSP00000350765:L430M;ENSP00000367948:L2730M;ENSP00000354923:L2734M;ENSP00000352894:L274M;ENSP00000340057:L274M;ENSP00000367979:L274M;ENSP00000444119:L274M;ENSP00000417123:L274M	.|ENSP00000340057:L274M	A|L	-|-	2|1	0|2	DMD|DMD	31555728|31555728	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.972000|0.972000	0.66771|0.66771	1.728000|1.728000	0.38105|0.38105	1.220000|1.220000	0.43490|0.43490	0.508000|0.508000	0.49915|0.49915	GCT|CTG		0.448	DMD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056182.2	NM_004006		T	31645807	G	T	31645807	3	4	670	1	0	0	0	0	1	0	0	0	4582	962	34	4	3105	4	DMD	23	31645807	Missense_Mutation	SNP	G	TCGA-KN-8434-01A-11D-2310-10		31645807	123624753	64	43117										
TBC1D25	4943	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chrX	48418349	48418349	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	atggaccatgagggccatgcCtttgtttgcttttgtggcat	12	8	0	1			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chrX:48418349C>A	ENST00000376771.4	+	6	1394	c.1053C>A	c.(1051-1053)gcC>gcA	p.A351A	snoU13_ENST00000459609.1_RNA|TBC1D25_ENST00000537536.1_Silent_p.A97A	NM_002536.2	NP_002527.1	Q3MII6	TBC25_HUMAN	TBC1 domain family, member 25	351	Rab-GAP TBC. {ECO:0000255|PROSITE- ProRule:PRU00163}.				autophagy (GO:0006914)|positive regulation of Rab GTPase activity (GO:0032851)|regulation of autophagic vacuole maturation (GO:1901096)	autophagic vacuole (GO:0005776)|cytoplasmic vesicle (GO:0031410)	Rab GTPase activator activity (GO:0005097)			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						AGGGCCATGCCTTTGTTTGCT	0.582																																																0													48	32	38					X																	48418349		2203	4300	6503	SO:0001819	synonymous_variant	4943			L08240	CCDS35242.1	Xp11.23	2014-01-28	2007-01-12	2007-01-12	ENSG00000068354	ENSG00000068354			8092	protein-coding gene	gene with protein product		311240	"ornithine aminotransferase-like 1"	OATL1		21383079	Standard	NM_002536		Approved		uc004dka.1	Q3MII6	OTTHUMG00000024123	ENST00000376771.4:c.1053C>A	X.37:g.48418349C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q08AN9|Q3MII4|Q8TAR9	Silent	SNP	ENST00000376771.4	37	CCDS35242.1																																																																																				0.582	TBC1D25-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060764.2	NM_002536		A	48418349	C	A	48418349	2	1	670	1	0	0	0	0	0	0	0	1	15627	668	24	4		4	TBC1D25	23	48418349	Silent	SNP	C	TCGA-KN-8434-01A-11D-2310-10	16772542	48418349	106852211	65	43118										
GATA1	2623	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	48652278	48652278	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ctggaaaagggaaaaagaaaCggggctccagtctgggaggc	16	7	1	1			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chrX:48652278C>G	ENST00000376670.3	+	6	1060	c.949C>G	c.(949-951)Cgg>Ggg	p.R317G	GATA1_ENST00000376665.3_Intron	NM_002049.3	NP_002040.1	P15976	GATA1_HUMAN	GATA binding protein 1 (globin transcription factor 1)	317					basophil differentiation (GO:0030221)|blood coagulation (GO:0007596)|cell-cell signaling (GO:0007267)|cellular response to thyroid hormone stimulus (GO:0097067)|dendritic cell differentiation (GO:0097028)|embryonic hemopoiesis (GO:0035162)|eosinophil differentiation (GO:0030222)|eosinophil fate commitment (GO:0035854)|erythrocyte development (GO:0048821)|erythrocyte differentiation (GO:0030218)|in utero embryonic development (GO:0001701)|male gonad development (GO:0008584)|megakaryocyte differentiation (GO:0030219)|negative regulation of apoptotic process (GO:0043066)|negative regulation of bone mineralization (GO:0030502)|negative regulation of cell proliferation (GO:0008285)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription regulatory region DNA binding (GO:2000678)|platelet aggregation (GO:0070527)|platelet formation (GO:0030220)|positive regulation of erythrocyte differentiation (GO:0045648)|positive regulation of osteoblast proliferation (GO:0033690)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of definitive erythrocyte differentiation (GO:0010724)|regulation of glycoprotein biosynthetic process (GO:0010559)|transcription from RNA polymerase II promoter (GO:0006366)|transcriptional activation by promoter-enhancer looping (GO:0071733)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)|transcriptional repressor complex (GO:0017053)	C2H2 zinc finger domain binding (GO:0070742)|chromatin DNA binding (GO:0031490)|DNA binding (GO:0003677)|DNA binding, bending (GO:0008301)|enhancer sequence-specific DNA binding (GO:0001158)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription factor binding (GO:0001085)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region sequence-specific DNA binding (GO:0000976)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(259)|large_intestine(8)|lung(9)|prostate(1)	283						GAAAAAGAAACGGGGCTCCAG	0.602			"Mis, F"		megakaryoblastic leukemia of Downs Syndrome																																Pancreas(9;429 505 11287 29617)		Dom	yes		X	Xp11.23	2623	GATA binding protein 1 (globin transcription factor 1)		L	0													34	31	32					X																	48652278		2203	4300	6503	SO:0001583	missense	2623			X17254	CCDS14305.1	Xp11.23	2014-09-17	2001-11-28		ENSG00000102145	ENSG00000102145		"GATA zinc finger domain containing"	4170	protein-coding gene	gene with protein product	"nuclear factor, erythroid 1"	305371	"GATA-binding protein 1 (globin transcription factor 1)"	GF1		1999341	Standard	NM_002049		Approved	ERYF1, NFE1, GATA-1, NF-E1	uc004dkq.4	P15976	OTTHUMG00000021504	ENST00000376670.3:c.949C>G	X.37:g.48652278C>G	ENSP00000365858:p.Arg317Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q96GB8	Missense_Mutation	SNP	ENST00000376670.3	37	CCDS14305.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	c|c	9.621|9.621	1.133764|1.133764	0.21123|0.21123	.|.	.|.	ENSG00000102145|ENSG00000102145	ENST00000447551|ENST00000376670	.|D	.|0.97620	.|-4.46	3.08|3.08	1.12|1.12	0.20585|0.20585	.|.	.|0.150111	.|0.42420	.|U	.|0.000713	D|D	0.91112|0.91112	0.7202|0.7202	N|N	0.20685|0.20685	0.6|0.6	0.09310|0.09310	N|N	1|1	.|B	.|0.14012	.|0.009	.|B	.|0.12156	.|0.007	T|T	0.82426|0.82426	-0.0463|-0.0463	5|10	.|0.34782	.|T	.|0.22	-2.7506|-2.7506	6.8314|6.8314	0.23913|0.23913	0.5023:0.4977:0.0:0.0|0.5023:0.4977:0.0:0.0	.|.	.|317	.|P15976	.|GATA1_HUMAN	K|G	81|317	.|ENSP00000365858:R317G	.|ENSP00000365858:R317G	N|R	+|+	3|1	2|2	GATA1|GATA1	48537222|48537222	0.956000|0.956000	0.32656|0.32656	0.059000|0.059000	0.19551|0.19551	0.776000|0.776000	0.43924|0.43924	-0.001000|-0.001000	0.12947|0.12947	0.159000|0.159000	0.19401|0.19401	0.365000|0.365000	0.22127|0.22127	AAC|CGG		0.602	GATA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056517.1	NM_002049		G	48652278	C	G	48652278	3	3	670	1	0	0	0	0	1	0	0	0	6260	527	19	4	967	4	GATA1	23	48652278	Missense_Mutation	SNP	C	TCGA-KN-8434-01A-11D-2310-10	233929	48652278	106618282	66	43119										
IGSF1	3547	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	130409464	130409464	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0454545454545455	3	1	0.868452380952381	1.44742063492063	0.723710317460317	1	1	0	ccccttacctgtgactaggaGttccagggtgttgctaggtt	12	10	0	1			TCGA-KN-8434-01A-11D-2310-10	TCGA-KN-8434-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	24f887e1-ce82-40f3-9674-11102bd076c0	2ba9cc49-f11b-48e0-8af9-90bad2c7cc92	g.chrX:130409464G>A	ENST00000361420.3	-	16	3251	c.3172C>T	c.(3172-3174)Ctc>Ttc	p.L1058F	IGSF1_ENST00000370903.3_Missense_Mutation_p.L1063F|IGSF1_ENST00000467244.1_5'Flank|IGSF1_ENST00000370910.1_Missense_Mutation_p.L1049F|IGSF1_ENST00000370904.1_Missense_Mutation_p.L1049F			Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1	1058	Ig-like C2-type 10.				regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	coreceptor activity (GO:0015026)|inhibin binding (GO:0034711)|receptor activity (GO:0004872)			breast(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(15)|liver(1)|lung(37)|ovary(4)|skin(3)|upper_aerodigestive_tract(2)	78						GTGACTAGGAGTTCCAGGGTG	0.493																																																0													142	122	129					X																	130409464		2203	4300	6503	SO:0001583	missense	3547			AF034198	CCDS14629.1, CCDS14630.1, CCDS55490.1, CCDS55491.1	Xq25	2013-01-11			ENSG00000147255	ENSG00000147255		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5948	protein-coding gene	gene with protein product		300137				9521868, 9729118	Standard	NM_001555		Approved	KIAA0364, IGDC1, IGCD1, INHBP, MGC75490, PGSF2	uc004ewe.4	Q8N6C5	OTTHUMG00000022406	ENST00000361420.3:c.3172C>T	X.37:g.130409464G>A	ENSP00000355010:p.Leu1058Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B5MEG2|H9KV64|O15070|Q9NTC8	Missense_Mutation	SNP	ENST00000361420.3	37	CCDS14629.1	.	.	.	.	.	.	.	.	.	.	G	15.95	2.984986	0.53934	.	.	ENSG00000147255	ENST00000370910;ENST00000361420;ENST00000370904;ENST00000370903	T;T;T;T	0.01745	4.66;4.66;4.66;4.66	5.32	5.32	0.75619	Immunoglobulin-like fold (1);	0.107595	0.42172	D	0.000759	T	0.13798	0.0334	M	0.90922	3.16	0.30618	N	0.758828	D;D;D	0.89917	0.999;1.0;0.999	D;D;D	0.87578	0.996;0.998;0.996	T	0.02813	-1.1107	10	0.72032	D	0.01	.	13.7707	0.63023	0.0:0.0:1.0:0.0	.	1049;502;1058	Q8N6C5-2;C9JP68;Q8N6C5	.;.;IGSF1_HUMAN	F	1049;1058;1049;1063	ENSP00000359947:L1049F;ENSP00000355010:L1058F;ENSP00000359941:L1049F;ENSP00000359940:L1063F	ENSP00000355010:L1058F	L	-	1	0	IGSF1	130237145	1.000000	0.71417	1.000000	0.80357	0.690000	0.40134	4.727000	0.61993	2.562000	0.86427	0.600000	0.82982	CTC		0.493	IGSF1-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000058288.1			A	130409464	G	A	130409464	3	1	670	1	0	0	0	0	1	0	0	0	7603	1029	36	2	858	2	IGSF1	23	130409464	Missense_Mutation	SNP	G	TCGA-KN-8434-01A-11D-2310-10	81757186	130409464	24861096	67	43120										
ZBTB48	3104	ucsc.edu;bcgsc.ca	37	chr1	6641321	6641321	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	aagtgcccccaaggcccttaGaggctgaaggtgcccagctg	13	13	0	2			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr1:6641321G>T	ENST00000377674.4	+	2	810	c.652G>T	c.(652-654)Gag>Tag	p.E218*		NM_001278647.1|NM_001278648.1|NM_005341.2	NP_001265576.1|NP_001265577.1|NP_005332.1	P10074	ZBT48_HUMAN	zinc finger and BTB domain containing 48	218					transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|kidney(1)|large_intestine(1)|liver(2)|lung(3)|ovary(1)|skin(1)|urinary_tract(1)	11	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.35e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00109)|STAD - Stomach adenocarcinoma(132;0.017)|READ - Rectum adenocarcinoma(331;0.0642)		AAGGCCCTTAGAGGCTGAAGG	0.572																																					Esophageal Squamous(125;1449 1657 4031 29866 49542)											0													26	28	27					1																	6641321		2203	4298	6501	SO:0001587	stop_gained	3104			BC013573	CCDS84.1	1p36.3	2013-01-08	2006-09-20	2006-09-20	ENSG00000204859	ENSG00000204859		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	4930	protein-coding gene	gene with protein product		165270	"GLI-Kruppel family member HKR3"	HKR3		2850480, 8661141	Standard	NM_001278647		Approved	ZNF855	uc001anx.3	P10074	OTTHUMG00000001438	ENST00000377674.4:c.652G>T	1.37:g.6641321G>T	ENSP00000366902:p.Glu218*	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SY19	Nonsense_Mutation	SNP	ENST00000377674.4	37	CCDS84.1	.	.	.	.	.	.	.	.	.	.	G	24.9	4.586826	0.86851	.	.	ENSG00000204859	ENST00000319084;ENST00000435905;ENST00000377674	.	.	.	5.74	3.54	0.40534	.	0.441142	0.25247	N	0.032043	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.27785	T	0.31	-23.3543	8.1099	0.30909	0.0952:0.1648:0.74:0.0	.	.	.	.	X	218	.	ENSP00000313416:E218X	E	+	1	0	ZBTB48	6563908	0.123000	0.22298	0.922000	0.36590	0.540000	0.34992	0.465000	0.22004	1.423000	0.47198	-0.150000	0.13652	GAG		0.572	ZBTB48-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004193.1	NM_005341		T	6641321	G	T	6641321	4	4	671	1	0	0	0	0	0	1	0	0	17561	943	33	4	654	4	ZBTB48	1	6641321	Nonsense_Mutation	SNP	G	TCGA-KN-8435-01A-11D-2310-10		6641321	242609300	1	43121										
PRAMEF7	441871	mdanderson.org	37	chr1	12980074	12980074	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	gagagttatgacacccagggTgctctctgctgggggagatt	15	8	1	3	rs139206769		TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr1:12980074T>A	ENST00000361079.2	+	4	1349	c.1266T>A	c.(1264-1266)ggT>ggA	p.G422G	RNU6-1072P_ENST00000384703.1_RNA			Q5VXH5	PRAM7_HUMAN	PRAME family member 7	422					negative regulation of apoptotic process (GO:0043066)|negative regulation of cell differentiation (GO:0045596)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)					endometrium(2)|kidney(5)|large_intestine(3)|lung(4)|prostate(2)|upper_aerodigestive_tract(2)	18	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		ACACCCAGGGTGCTCTCTGCT	0.587																																																0													36	39	38					1																	12980074		1261	2762	4023	SO:0001819	synonymous_variant	441871				CCDS30593.1	1p36.21	2013-01-17			ENSG00000204510	ENSG00000204510		"-"	28415	protein-coding gene	gene with protein product							Standard	NM_001012277		Approved			Q5VXH5	OTTHUMG00000001982	ENST00000361079.2:c.1266T>A	1.37:g.12980074T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B9EIP0	Silent	SNP	ENST00000361079.2	37	CCDS30593.1																																																																																				0.587	PRAMEF7-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001012277		A	12980074	T	A	12980074	2	1	671	1	0	0	0	0	0	0	0	1	12449	1683	59	5		5	PRAMEF7	1	12980074	Silent	SNP	T	TCGA-KN-8435-01A-11D-2310-10	6338753	12980074	236270547	2	43122										
MED8	112950	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr1	43852260	43852260	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	agccaccagtcccatcatacCtccactctctgattctcgct	4	18	3	1			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr1:43852260C>T	ENST00000372457.4	-	5	536	c.493G>A	c.(493-495)Ggt>Agt	p.G165S	MED8_ENST00000372455.4_Splice_Site_p.G76S|RP1-92O14.6_ENST00000436713.1_RNA|MED8_ENST00000290663.6_Splice_Site_p.G165S	NM_001001653.2|NM_201542.3	NP_001001653.1|NP_963836.2	Q96G25	MED8_HUMAN	mediator complex subunit 8	165					gene expression (GO:0010467)|protein ubiquitination (GO:0016567)|transcription initiation from RNA polymerase II promoter (GO:0006367)	mediator complex (GO:0016592)|nucleoplasm (GO:0005654)	RNA polymerase II transcription cofactor activity (GO:0001104)			endometrium(2)|large_intestine(3)|lung(3)|upper_aerodigestive_tract(1)	9	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CCCATCATACCTCCACTCTCT	0.423																																																0													178	156	164					1																	43852260		2203	4300	6503	SO:0001630	splice_region_variant	112950			AF521562, BC010543	CCDS486.2, CCDS487.2, CCDS60108.1	1p34.1	2008-02-05	2007-07-30		ENSG00000159479	ENSG00000159479			19971	protein-coding gene	gene with protein product		607956	"mediator of RNA polymerase II transcription, subunit 8 homolog (S. cerevisiae)"			12149480, 9671713	Standard	NM_052877		Approved	MGC17544, MGC19641, ARC32	uc001cje.2	Q96G25	OTTHUMG00000007421	ENST00000372457.4:c.493+1G>A	1.37:g.43852260C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A9IZ91|A9IZ92|Q5JUY8|Q96FQ4	Missense_Mutation	SNP	ENST00000372457.4	37	CCDS487.2	.	.	.	.	.	.	.	.	.	.	C	5.816	0.334799	0.11013	.	.	ENSG00000159479	ENST00000290663;ENST00000372457;ENST00000372455	.	.	.	5.89	4.97	0.65823	.	0.204896	0.50627	D	0.000103	T	0.24392	0.0591	N	0.02539	-0.55	0.47819	D	0.999526	B;B	0.26081	0.022;0.141	B;B	0.22753	0.018;0.041	T	0.11299	-1.0593	8	.	.	.	-13.9899	10.4361	0.44437	0.0:0.7956:0.1352:0.0692	.	165;165	Q96G25;Q96G25-2	MED8_HUMAN;.	S	165;165;76	.	.	G	-	1	0	MED8	43624847	1.000000	0.71417	1.000000	0.80357	0.926000	0.56050	4.270000	0.58896	1.495000	0.48549	0.555000	0.69702	GGT		0.423	MED8-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318959.1	NM_052877	Missense_Mutation	T	43852260	C	T	43852260	5	4	671	1	0	0	0	0	0	0	1	0	9460	695	24	2	432	2	MED8	1	43852260	Splice_Site	SNP	C	TCGA-KN-8435-01A-11D-2310-10	30872186	43852260	205398361	3	43123										
KIAA0467	23334	bcgsc.ca	37	chr1	43908707	43908707	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	gcccagacctcctgatcctgTcacctaccatggacaacagt	7	16	1	2			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr1:43908707T>C	ENST00000562955.1	+	58	8198	c.8198T>C	c.(8197-8199)gTc>gCc	p.V2733A	SZT2_ENST00000372442.1_Missense_Mutation_p.V1891A	NM_015284.3	NP_056099.3	Q5T011	SZT2_HUMAN	seizure threshold 2 homolog (mouse)	2790					central nervous system development (GO:0007417)|corpus callosum morphogenesis (GO:0021540)|embryo development (GO:0009790)|pigmentation (GO:0043473)|post-embryonic development (GO:0009791)|regulation of superoxide dismutase activity (GO:1901668)	extracellular vesicular exosome (GO:0070062)|peroxisome (GO:0005777)				NS(2)|breast(9)|central_nervous_system(1)|endometrium(17)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(19)|lung(39)|ovary(4)|pancreas(3)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	113						CCTGATCCTGTCACCTACCAT	0.592																																																0													58	59	59					1																	43908707		2203	4300	6503	SO:0001583	missense	23334			AB007936	CCDS30694.1, CCDS30694.2	1p34.2	2012-11-19	2011-06-10	2011-06-10	ENSG00000198198	ENSG00000198198			29040	protein-coding gene	gene with protein product	"seizure threshold 2 homolog A (mouse)", "seizure threshold 2 homolog B (mouse)"	615463	"chromosome 1 open reading frame 84", "KIAA0467"	C1orf84, KIAA0467		9455484	Standard	NM_015284		Approved	FLJ10387, SZT2B, RP11-506B15.1, FLJ34502, SZT2A	uc001cjk.3	Q5T011	OTTHUMG00000007423	ENST00000562955.1:c.8198T>C	1.37:g.43908707T>C	ENSP00000457168:p.Val2733Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJK5|A7E2X4|O75055|Q5JUY7|Q5T012|Q5XKC7|Q6ZNI8|Q6ZT24|Q7Z636|Q8NAY9|Q9H5H7|Q9UFQ8	Missense_Mutation	SNP	ENST00000562955.1	37	CCDS30694.2	.	.	.	.	.	.	.	.	.	.	T	18.16	3.562597	0.65538	.	.	ENSG00000198198	ENST00000372442	.	.	.	5.67	5.67	0.87782	.	0.065649	0.64402	D	0.000011	T	0.44074	0.1276	L	0.48642	1.525	0.32201	N	0.577808	P	0.43231	0.801	B	0.39805	0.31	T	0.61412	-0.7068	9	0.72032	D	0.01	.	14.4754	0.67541	0.0:0.0:0.0:1.0	.	2733	Q5T011-5	.	A	1891	.	ENSP00000361519:V1891A	V	+	2	0	SZT2	43681294	1.000000	0.71417	0.997000	0.53966	0.977000	0.68977	7.423000	0.80229	2.169000	0.68431	0.459000	0.35465	GTC		0.592	SZT2-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019517.3	NM_015284		C	43908707	T	C	43908707	3	2	671	1	0	0	0	0	1	0	0	0	8185	1667	58	3	5838	3	KIAA0467	1	43908707	Missense_Mutation	SNP	T	TCGA-KN-8435-01A-11D-2310-10	56447	43908707	205341914	4	43124										
COL11A1	1301	ucsc.edu	37	chr1	103453264	103453264	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ttgggtccttcagggccatcTtcccctcttgggccaatttg	10	13	3	0			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr1:103453264T>C	ENST00000370096.3	-	30	2739	c.2427A>G	c.(2425-2427)gaA>gaG	p.E809E	COL11A1_ENST00000358392.2_Silent_p.E821E|COL11A1_ENST00000353414.4_Silent_p.E770E|COL11A1_ENST00000512756.1_Silent_p.E693E	NM_001854.3	NP_001845.3	P12107	COBA1_HUMAN	collagen, type XI, alpha 1	809	Triple-helical region.				cartilage condensation (GO:0001502)|chondrocyte development (GO:0002063)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|detection of mechanical stimulus involved in sensory perception of sound (GO:0050910)|embryonic skeletal system morphogenesis (GO:0048704)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|inner ear morphogenesis (GO:0042472)|proteoglycan metabolic process (GO:0006029)|sensory perception of sound (GO:0007605)|tendon development (GO:0035989)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)|visual perception (GO:0007601)	collagen type XI trimer (GO:0005592)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	extracellular matrix binding (GO:0050840)|extracellular matrix structural constituent (GO:0005201)|metal ion binding (GO:0046872)|protein binding, bridging (GO:0030674)			NS(3)|biliary_tract(1)|breast(5)|central_nervous_system(2)|cervix(1)|endometrium(17)|kidney(8)|large_intestine(28)|lung(157)|ovary(6)|pancreas(2)|prostate(6)|skin(9)|stomach(1)|upper_aerodigestive_tract(11)|urinary_tract(1)	258		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)		CAGGGCCATCTTCCCCTCTTG	0.453																																																0													89	85	86					1																	103453264		2203	4300	6503	SO:0001819	synonymous_variant	1301			J04177	CCDS778.1, CCDS780.1, CCDS780.2, CCDS53348.1	1p21	2013-01-16			ENSG00000060718	ENSG00000060718		"Collagens"	2186	protein-coding gene	gene with protein product	"collagen XI, alpha-1 polypeptide"	120280		COLL6		3182841	Standard	NM_080630		Approved	STL2, CO11A1	uc001dul.3	P12107	OTTHUMG00000010872	ENST00000370096.3:c.2427A>G	1.37:g.103453264T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B1ASK7|D3DT73|E9PCU0|Q14034|Q149N0|Q9UIT4|Q9UIT5|Q9UIT6	Silent	SNP	ENST00000370096.3	37	CCDS778.1	.	.	.	.	.	.	.	.	.	.	T	5.986	0.365772	0.11352	.	.	ENSG00000060718	ENST00000370090	.	.	.	4.4	0.842	0.18927	.	.	.	.	.	T	0.41213	0.1149	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.30090	-0.9990	5	0.31617	T	0.26	.	8.997	0.36059	0.0:0.2321:0.0:0.7679	.	.	.	.	R	24	.	ENSP00000359108:K24R	K	-	2	0	COL11A1	103225852	1.000000	0.71417	1.000000	0.80357	0.623000	0.37688	1.409000	0.34680	0.303000	0.22785	0.383000	0.25322	AAG		0.453	COL11A1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000029997.1	NM_080630		C	103453264	T	C	103453264	2	2	671	1	0	0	0	0	0	0	0	1	3669	1606	56	3		3	COL11A1	1	103453264	Silent	SNP	T	TCGA-KN-8435-01A-11D-2310-10	59544557	103453264	145797357	5	43125										
RBM15	64783	broad.mit.edu;hgsc.bcm.edu	37	chr1	110882695	110882713	+	Frame_Shift_Del	DEL	GGCGGCCAGAGGACGCGCG	GGCGGCCAGAGGACGCGCG	-													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ggtagcctttgtgaacttccGgcggccagaggacgcgcggg							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	GGCGGCCAGAGGACGCGCG	GGCGGCCAGAGGACGCGCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr1:110882695_110882713delGGCGGCCAGAGGACGCGCG	ENST00000369784.3	+	1	1568_1586	c.668_686delGGCGGCCAGAGGACGCGCG	c.(667-687)cggcggccagaggacgcgcggfs	p.RRPEDAR223fs	RBM15_ENST00000487146.2_Frame_Shift_Del_p.RRPEDAR223fs|RP5-1074L1.1_ENST00000449169.1_RNA|RBM15_ENST00000602849.1_Frame_Shift_Del_p.RRPEDAR223fs	NM_022768.4	NP_073605.4	Q96T37	RBM15_HUMAN	RNA binding motif protein 15	223	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				negative regulation of myeloid cell differentiation (GO:0045638)|patterning of blood vessels (GO:0001569)|placenta blood vessel development (GO:0060674)|positive regulation of transcription of Notch receptor target (GO:0007221)|spleen development (GO:0048536)|ventricular septum morphogenesis (GO:0060412)|viral process (GO:0016032)	membrane (GO:0016020)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			ovary(3)	3		all_cancers(81;2.89e-06)|all_epithelial(167;2.96e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Breast(1374;0.0634)		BRCA - Breast invasive adenocarcinoma(282;0.000224)|Epithelial(280;0.000476)|Kidney(133;0.000539)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|all cancers(265;0.00144)|Lung(183;0.0238)|Colorectal(144;0.103)|LUSC - Lung squamous cell carcinoma(189;0.135)		GTGAACTTCCGGCGGCCAGAGGACGCGCGGGCGGCCAAG	0.594			T	MKL1	acute megakaryocytic leukemia						OREG0013656	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																											Dom	yes		1	1p13	64783	RNA binding motif protein 15		L	0																																										SO:0001589	frameshift_variant	64783			AF368063	CCDS822.1, CCDS59198.1	1p13	2013-02-12			ENSG00000162775	ENSG00000162775		"RNA binding motif (RRM) containing"	14959	protein-coding gene	gene with protein product	"one twenty-two"	606077				11431691, 11344311	Standard	NM_001201545		Approved	OTT, OTT1	uc001dzl.1	Q96T37	OTTHUMG00000011284	ENST00000369784.3:c.668_686delGGCGGCCAGAGGACGCGCG	1.37:g.110882695_110882713delGGCGGCCAGAGGACGCGCG	ENSP00000358799:p.Arg223fs	Somatic	1430	WXS	Illumina HiSeq	Phase_I	A1A693|Q3ZB86|Q4V760|Q5D058|Q5T613|Q86VW9|Q96PE4|Q96SC5|Q96SC6|Q96SC9|Q96SD0|Q96T38|Q9BRA5|Q9H6R8|Q9H9Y0	Frame_Shift_Del	DEL	ENST00000369784.3	37	CCDS822.1																																																																																				0.594	RBM15-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000031114.2	NM_022768		-	110882713	GGCGGCCAGAGGACGCGCG	-	110882695	7	5	671	1	0	1	0	1	0	0	0	0	13129	1116	39	0	670	0	RBM15	1	110882695	Frame_Shift_Del	DEL	GGCGGCCAGAGGACGCGCG	TCGA-KN-8435-01A-11D-2310-10	7429431	110882695	138367926	6	43126	422	2								
RBM15	64783	bcgsc.ca	37	chr1	110882696	110882714	+	Frame_Shift_Del	DEL	GGCGGCCAGAGGACGCGCG	GGCGGCCAGAGGACGCGCG	-													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	gtagcctttgtgaacttccgGcggccagaggacgcgcgggc							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	GGCGGCCAGAGGACGCGCG	GGCGGCCAGAGGACGCGCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr1:110882696_110882714delGGCGGCCAGAGGACGCGCG	ENST00000369784.3	+	1	1569_1587	c.669_687delGGCGGCCAGAGGACGCGCG	c.(667-687)cgggcggccagaggacgcgcgfs	p.RAARGRA223fs	RBM15_ENST00000487146.2_Frame_Shift_Del_p.RAARGRA223fs|RP5-1074L1.1_ENST00000449169.1_RNA|RBM15_ENST00000602849.1_Frame_Shift_Del_p.RAARGRA223fs	NM_022768.4	NP_073605.4	Q96T37	RBM15_HUMAN	RNA binding motif protein 15	223	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				negative regulation of myeloid cell differentiation (GO:0045638)|patterning of blood vessels (GO:0001569)|placenta blood vessel development (GO:0060674)|positive regulation of transcription of Notch receptor target (GO:0007221)|spleen development (GO:0048536)|ventricular septum morphogenesis (GO:0060412)|viral process (GO:0016032)	membrane (GO:0016020)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			ovary(3)	3		all_cancers(81;2.89e-06)|all_epithelial(167;2.96e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Breast(1374;0.0634)		BRCA - Breast invasive adenocarcinoma(282;0.000224)|Epithelial(280;0.000476)|Kidney(133;0.000539)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|all cancers(265;0.00144)|Lung(183;0.0238)|Colorectal(144;0.103)|LUSC - Lung squamous cell carcinoma(189;0.135)		TGAACTTCCGGCGGCCAGAGGACGCGCGGGCGGCCAAGC	0.589			T	MKL1	acute megakaryocytic leukemia						OREG0013656	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																											Dom	yes		1	1p13	64783	RNA binding motif protein 15		L	0																																										SO:0001589	frameshift_variant	64783			AF368063	CCDS822.1, CCDS59198.1	1p13	2013-02-12			ENSG00000162775	ENSG00000162775		"RNA binding motif (RRM) containing"	14959	protein-coding gene	gene with protein product	"one twenty-two"	606077				11431691, 11344311	Standard	NM_001201545		Approved	OTT, OTT1	uc001dzl.1	Q96T37	OTTHUMG00000011284	ENST00000369784.3:c.669_687delGGCGGCCAGAGGACGCGCG	1.37:g.110882696_110882714delGGCGGCCAGAGGACGCGCG	ENSP00000358799:p.Arg223fs	Somatic	1430	WXS	Illumina HiSeq	Phase_I	A1A693|Q3ZB86|Q4V760|Q5D058|Q5T613|Q86VW9|Q96PE4|Q96SC5|Q96SC6|Q96SC9|Q96SD0|Q96T38|Q9BRA5|Q9H6R8|Q9H9Y0	Frame_Shift_Del	DEL	ENST00000369784.3	37	CCDS822.1																																																																																				0.589	RBM15-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000031114.2	NM_022768		-	110882714	GGCGGCCAGAGGACGCGCG	-	110882696	7	5	671	1	0	1	0	1	0	0	0	0	13129	1190	42	0	671	0	RBM15	1	110882696	Frame_Shift_Del	DEL	GGCGGCCAGAGGACGCGCG	TCGA-KN-8435-01A-11D-2310-10	1	110882696	138367925	7	43127	422	2								
FCRLA	84824	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	161677131	161677131	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ctgggtggcccagatgctacTgggtaagtaaaatatttgaa	12	6	0	2			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr1:161677131T>C	ENST00000236938.6	+	1	370	c.128T>C	c.(127-129)cTg>cCg	p.L43P	FCRLA_ENST00000294796.4_Missense_Mutation_p.L26P|FCRLA_ENST00000309691.6_Missense_Mutation_p.L26P|FCRLA_ENST00000540521.1_Missense_Mutation_p.L43P|FCRLA_ENST00000367959.2_Missense_Mutation_p.L43P|FCRLA_ENST00000367949.2_Missense_Mutation_p.L43P|FCRLA_ENST00000367950.1_Missense_Mutation_p.L3P|FCRLA_ENST00000367957.2_Missense_Mutation_p.L43P|FCRLA_ENST00000546024.1_Missense_Mutation_p.L43P|FCRLA_ENST00000367953.3_Missense_Mutation_p.L26P|FCRLA_ENST00000350710.3_Missense_Mutation_p.L43P|FCRLA_ENST00000540926.1_Missense_Mutation_p.L26P|FCRLA_ENST00000349527.4_Missense_Mutation_p.L26P	NM_032738.3	NP_116127.3	Q7L513	FCRLA_HUMAN	Fc receptor-like A	26					cell differentiation (GO:0030154)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)				breast(1)|kidney(12)|large_intestine(4)|lung(13)|prostate(1)|skin(2)|stomach(1)	34	all_cancers(52;2.55e-15)|all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00301)			CAGATGCTACTGGGTAAGTAA	0.507																																																0													95	86	89					1																	161677131		2203	4300	6503	SO:0001583	missense	84824			AF531423	CCDS30926.1, CCDS53415.1, CCDS53416.1, CCDS53417.1, CCDS53418.1, CCDS53419.1, CCDS53420.1	1q23.3	2014-01-28	2006-09-26	2006-09-26	ENSG00000132185	ENSG00000132185		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	18504	protein-coding gene	gene with protein product		606891	"Fc receptor-like and mucin-like 1"	FCRLM1		11754007	Standard	NM_001184866		Approved	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX	uc001gbe.3	Q7L513	OTTHUMG00000034537	ENST00000236938.6:c.128T>C	1.37:g.161677131T>C	ENSP00000236938:p.Leu43Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A0N0M1|A6NC03|A6NL20|F5H720|F8W743|G3V1J2|Q5VXA1|Q5VXA2|Q5VXA3|Q5VXA4|Q5VXB0|Q5VXB1|Q8NEW4|Q8WXH3|Q96PC6|Q96PJ0|Q96PJ1|Q96PJ2|Q96PJ4|Q9BR57	Missense_Mutation	SNP	ENST00000236938.6	37	CCDS30926.1	.	.	.	.	.	.	.	.	.	.	T	10.17	1.277899	0.23307	.	.	ENSG00000132185	ENST00000236938;ENST00000367959;ENST00000546024;ENST00000540521;ENST00000367949;ENST00000350710;ENST00000540926;ENST00000367957;ENST00000349527;ENST00000309691;ENST00000294796;ENST00000367953;ENST00000367950	T;T;T;T;T;T;T;T;T;T;T;T;T	0.56776	5.52;5.31;4.43;4.29;0.61;0.8;5.04;4.3;3.68;4.47;4.31;5.36;0.44	5.08	1.56	0.23342	.	0.398608	0.18668	N	0.134528	T	0.26846	0.0657	L	0.59436	1.845	0.23533	N	0.997473	B;B;B;P;B;B;B	0.40794	0.087;0.087;0.202;0.729;0.033;0.125;0.197	B;B;B;B;B;B;B	0.38880	0.063;0.063;0.12;0.284;0.027;0.028;0.119	T	0.10222	-1.0639	10	0.87932	D	0	.	6.5753	0.22562	0.0:0.2731:0.0:0.7269	.	43;43;43;43;43;43;43	F8W743;A6NL20;F5H720;Q5VXB1;G3V1J2;A6NC03;Q7L513-9	.;.;.;.;.;.;.	P	43;43;43;43;43;43;26;43;26;26;26;26;3	ENSP00000236938:L43P;ENSP00000356936:L43P;ENSP00000439838:L43P;ENSP00000442870:L43P;ENSP00000356926:L43P;ENSP00000344808:L43P;ENSP00000446380:L26P;ENSP00000356934:L43P;ENSP00000294798:L26P;ENSP00000309596:L26P;ENSP00000294796:L26P;ENSP00000356930:L26P;ENSP00000356927:L3P	ENSP00000236938:L43P	L	+	2	0	FCRLA	159943755	0.104000	0.21937	0.070000	0.20053	0.074000	0.17049	0.355000	0.20163	0.167000	0.19631	0.533000	0.62120	CTG		0.507	FCRLA-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000083574.1	NM_032738		C	161677131	T	C	161677131	3	2	671	1	0	0	0	0	1	0	0	0	5807	1580	55	3	130	3	FCRLA	1	161677131	Missense_Mutation	SNP	T	TCGA-KN-8435-01A-11D-2310-10	50794435	161677131	87573490	8	43128										
COL3A1	1281	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr2	189873717	189873717	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	tgcccctggtccttgctgtgGtggtgttggagccgctgcca	15	12	0	0			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr2:189873717G>A	ENST00000304636.3	+	48	3763	c.3593G>A	c.(3592-3594)gGt>gAt	p.G1198D	COL3A1_ENST00000317840.5_Missense_Mutation_p.G895D	NM_000090.3	NP_000081	P02461	CO3A1_HUMAN	collagen, type III, alpha 1	1198	Nonhelical region (C-terminal).				aging (GO:0007568)|axon guidance (GO:0007411)|blood vessel development (GO:0001568)|cell-matrix adhesion (GO:0007160)|cellular response to amino acid stimulus (GO:0071230)|cerebral cortex development (GO:0021987)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|digestive tract development (GO:0048565)|extracellular fibril organization (GO:0043206)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|heart development (GO:0007507)|integrin-mediated signaling pathway (GO:0007229)|negative regulation of immune response (GO:0050777)|negative regulation of neuron migration (GO:2001223)|peptide cross-linking (GO:0018149)|platelet activation (GO:0030168)|positive regulation of Rho protein signal transduction (GO:0035025)|response to cytokine (GO:0034097)|response to mechanical stimulus (GO:0009612)|response to radiation (GO:0009314)|skeletal system development (GO:0001501)|skin development (GO:0043588)|transforming growth factor beta receptor signaling pathway (GO:0007179)|wound healing (GO:0042060)	collagen type III trimer (GO:0005586)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)	extracellular matrix structural constituent (GO:0005201)|integrin binding (GO:0005178)|metal ion binding (GO:0046872)|platelet-derived growth factor binding (GO:0048407)			NS(2)|breast(1)|central_nervous_system(7)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(17)|lung(60)|ovary(4)|pancreas(1)|prostate(5)|skin(10)|upper_aerodigestive_tract(3)|urinary_tract(3)	126			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)	CCTTGCTGTGGTGGTGTTGGA	0.542																																																0													71	79	76					2																	189873717		2203	4300	6503	SO:0001583	missense	1281			X15332	CCDS2297.1	2q32.2	2014-09-17	2008-06-23		ENSG00000168542	ENSG00000168542		"Collagens"	2201	protein-coding gene	gene with protein product		120180	"Ehlers-Danlos syndrome type IV, autosomal dominant"	EDS4A		2780304, 2834369	Standard	NM_000090		Approved		uc002uqj.1	P02461	OTTHUMG00000132648	ENST00000304636.3:c.3593G>A	2.37:g.189873717G>A	ENSP00000304408:p.Gly1198Asp	Somatic		WXS	Illumina HiSeq	Phase_I	D2JYH5|D3DPH4|P78429|Q15112|Q16403|Q53S91|Q541P8|Q6LDB3|Q6LDJ2|Q6LDJ3|Q7KZ56|Q8N6U4|Q9UC88|Q9UC89|Q9UC90|Q9UC91|R4N3C5|V9GZI1	Missense_Mutation	SNP	ENST00000304636.3	37	CCDS2297.1	.	.	.	.	.	.	.	.	.	.	G	15.30	2.793993	0.50102	.	.	ENSG00000168542	ENST00000304636;ENST00000317840	D;D	0.90261	-2.52;-2.64	5.54	4.66	0.58398	.	.	.	.	.	T	0.77624	0.4158	N	0.08118	0	0.37055	D	0.897788	B	0.06786	0.001	B	0.04013	0.001	T	0.70898	-0.4747	9	0.09084	T	0.74	.	9.9195	0.41455	0.0729:0.149:0.7781:0.0	.	1198	P02461	CO3A1_HUMAN	D	1198;895	ENSP00000304408:G1198D;ENSP00000315243:G895D	ENSP00000304408:G1198D	G	+	2	0	COL3A1	189581962	1.000000	0.71417	0.997000	0.53966	0.834000	0.47266	8.061000	0.89467	1.310000	0.45006	0.655000	0.94253	GGT		0.542	COL3A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255899.3	NM_000090		A	189873717	G	A	189873717	3	1	671	1	0	0	0	0	1	0	0	0	3690	1261	44	2	3783	2	COL3A1	2	189873717	Missense_Mutation	SNP	G	TCGA-KN-8435-01A-11D-2310-10		189873717	53325656	9	43129										
CYP20A1	57404	bcgsc.ca	37	chr2	204161576	204161576	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ggttattgaaacaaagtatgAactggtaacatcatcaaggg	10	5	2	2			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr2:204161576A>G	ENST00000356079.4	+	13	1457	c.1334A>G	c.(1333-1335)gAa>gGa	p.E445G	CYP20A1_ENST00000461371.1_3'UTR|CYP20A1_ENST00000429815.2_Missense_Mutation_p.E453G	NM_177538.2	NP_803882.1	Q6UW02	CP20A_HUMAN	cytochrome P450, family 20, subfamily A, polypeptide 1	445						integral component of membrane (GO:0016021)|membrane (GO:0016020)	heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen (GO:0016705)			cervix(1)|large_intestine(2)|lung(6)|ovary(1)|skin(1)	11						ACAAAGTATGAACTGGTAACA	0.348																																																0													107	106	106					2																	204161576		2203	4300	6503	SO:0001583	missense	57404			AK021770	CCDS2357.1	2q33	2008-02-05			ENSG00000119004	ENSG00000119004		"Cytochrome P450s"	20576	protein-coding gene	gene with protein product							Standard	NM_177538		Approved	CYP-M	uc002uzv.4	Q6UW02	OTTHUMG00000132854	ENST00000356079.4:c.1334A>G	2.37:g.204161576A>G	ENSP00000348380:p.Glu445Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZG61|Q8N4Q8|Q8WWA9|Q9HC04	Missense_Mutation	SNP	ENST00000356079.4	37	CCDS2357.1	.	.	.	.	.	.	.	.	.	.	A	19.81	3.896548	0.72639	.	.	ENSG00000119004	ENST00000356079;ENST00000421618;ENST00000429815	T;T	0.70282	-0.47;-0.47	5.63	5.63	0.86233	.	0.052405	0.64402	D	0.000001	T	0.61714	0.2369	L	0.31664	0.95	0.80722	D	1	P;B	0.34977	0.478;0.029	B;B	0.37601	0.254;0.036	T	0.59359	-0.7469	10	0.23302	T	0.38	-18.0972	15.8391	0.78831	1.0:0.0:0.0:0.0	.	453;445	E9PHG5;Q6UW02	.;CP20A_HUMAN	G	445;418;453	ENSP00000348380:E445G;ENSP00000407860:E453G	ENSP00000348380:E445G	E	+	2	0	CYP20A1	203869821	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	8.183000	0.89700	2.134000	0.65973	0.482000	0.46254	GAA		0.348	CYP20A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256328.3	NM_020674		G	204161576	A	G	204161576	3	3	671	1	0	0	0	0	1	0	0	0	4154	246	9	3	1384	3	CYP20A1	2	204161576	Missense_Mutation	SNP	A	TCGA-KN-8435-01A-11D-2310-10	14287859	204161576	39037797	10	43130										
AQP12A	375318	mdanderson.org	37	chr2	241631668	241631668	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	agtctctgcctggcacgctgTtgaagctggcggcacagggg	16	11	1	1	rs4343462	byFrequency	TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr2:241631668T>C	ENST00000337801.4	+	2	370	c.301T>C	c.(301-303)Ttg>Ctg	p.L101L	AC011298.2_ENST00000407635.2_lincRNA|AQP12A_ENST00000429564.1_Silent_p.L113L	NM_198998.2	NP_945349.1	Q8IXF9	AQ12A_HUMAN	aquaporin 12A	101						integral component of membrane (GO:0016021)	transporter activity (GO:0005215)			endometrium(2)|kidney(3)|large_intestine(2)|lung(7)	14		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;2.2e-31)|all cancers(36;1.08e-28)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.52e-06)|Lung(119;0.00163)|LUSC - Lung squamous cell carcinoma(224;0.008)|Colorectal(34;0.0124)|COAD - Colon adenocarcinoma(134;0.0757)		TGGCACGCTGTTGAAGCTGGC	0.682													N|||	46	0.0091853	0.0295	0.0058	5008	,	,		13571	0.002		0.001	False		,,,				2504	0.0															0										55,4087		4,47,2020	26	36	33		301	1.6	0.8	2	dbSNP_111	33	6,8504		0,6,4249	no	coding-synonymous	AQP12A	NM_198998.1		4,53,6269	CC,CT,TT		0.0705,1.3279,0.4821		101/296	241631668	61,12591	2071	4255	6326	SO:0001819	synonymous_variant	375318			AB040748		2q37.3	2013-06-03	2005-05-26	2005-05-26	ENSG00000184945	ENSG00000184945		"Ion channels / Aquaporins"	19941	protein-coding gene	gene with protein product		609789	"aquaporin 12"	AQP12			Standard	NM_198998		Approved		uc002vzu.3	Q8IXF9	OTTHUMG00000183906	ENST00000337801.4:c.301T>C	2.37:g.241631668T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000337801.4	37																																																																																					0.682	AQP12A-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000257185.2	NM_198998		C	241631668	T	C	241631668	2	2	671	1	0	0	0	0	0	0	0	1	824	1722	60	3		3	AQP12A	2	241631668	Silent	SNP	T	TCGA-KN-8435-01A-11D-2310-10	37470092	241631668	1567705	11	43131										
CLASP2	23122	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	33686372	33686372	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	tggcctatttccatccactgAttcttcatcatcgaagcttt	5	12	3	1			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr3:33686372A>T	ENST00000468888.2	-	8	785	c.739T>A	c.(739-741)Tca>Aca	p.S247T	CLASP2_ENST00000539981.1_Missense_Mutation_p.S20T|CLASP2_ENST00000313350.6_Missense_Mutation_p.S20T|CLASP2_ENST00000487200.1_Missense_Mutation_p.S20T|CLASP2_ENST00000461133.3_Missense_Mutation_p.S14T|CLASP2_ENST00000399362.4_Missense_Mutation_p.S247T|CLASP2_ENST00000333778.6_Missense_Mutation_p.S24T|CLASP2_ENST00000480013.1_Missense_Mutation_p.S14T|CLASP2_ENST00000359576.5_Missense_Mutation_p.S247T|CLASP2_ENST00000482896.1_5'UTR|CLASP2_ENST00000307312.7_5'UTR			O75122	CLAP2_HUMAN	cytoplasmic linker associated protein 2	14					axon guidance (GO:0007411)|establishment or maintenance of cell polarity (GO:0007163)|fucosylation (GO:0036065)|microtubule anchoring (GO:0034453)|microtubule nucleation (GO:0007020)|microtubule organizing center organization (GO:0031023)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of microtubule depolymerization (GO:0007026)|regulation of microtubule polymerization or depolymerization (GO:0031110)|regulation of microtubule-based process (GO:0032886)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytoplasmic microtubule (GO:0005881)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|kinetochore (GO:0000776)|kinetochore microtubule (GO:0005828)|membrane (GO:0016020)|microtubule (GO:0005874)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)|trans-Golgi network (GO:0005802)	galactoside 2-alpha-L-fucosyltransferase activity (GO:0008107)|microtubule plus-end binding (GO:0051010)			breast(2)|central_nervous_system(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(19)|ovary(3)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	48						CCATCCACTGATTCTTCATCA	0.403																																																0													84	77	79					3																	33686372		1908	4136	6044	SO:0001583	missense	23122			AB014527		3p24.3	2013-01-18			ENSG00000163539	ENSG00000163539			17078	protein-coding gene	gene with protein product		605853				9734811, 10899121	Standard	NM_015097		Approved	KIAA0627	uc021wvc.1	O75122	OTTHUMG00000156489	ENST00000468888.2:c.739T>A	3.37:g.33686372A>T	ENSP00000419974:p.Ser247Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q7L8F6|Q8N6R6|Q9BQT3|Q9BQT4|Q9H7A3|Q9NSZ2	Missense_Mutation	SNP	ENST00000468888.2	37		.	.	.	.	.	.	.	.	.	.	A	22.9	4.353402	0.82243	.	.	ENSG00000163539	ENST00000468888;ENST00000399362;ENST00000359576;ENST00000539981;ENST00000480013;ENST00000461133;ENST00000313350;ENST00000487200;ENST00000333778;ENST00000485378;ENST00000496954	T;T;T	0.20463	2.07;2.12;2.13	5.83	5.83	0.93111	.	0.260982	0.38164	N	0.001783	T	0.39860	0.1094	L	0.49778	1.585	0.80722	D	1	D;D;D;P	0.69078	0.995;0.995;0.997;0.954	P;P;D;D	0.66351	0.849;0.849;0.928;0.943	T	0.16660	-1.0395	10	0.87932	D	0	-15.3362	14.7605	0.69602	1.0:0.0:0.0:0.0	.	24;20;20;247	E7ENG2;B3KR06;O75122-2;F5H604	.;.;.;.	T	247;247;247;20;14;14;20;20;24;20;14	ENSP00000419974:S247T;ENSP00000382297:S247T;ENSP00000352581:S247T	ENSP00000324364:S20T	S	-	1	0	CLASP2	33661376	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.188000	0.65093	2.222000	0.72286	0.477000	0.44152	TCA		0.403	CLASP2-001	NOVEL	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000344320.4	NM_001207044		T	33686372	A	T	33686372	3	4	671	1	0	0	0	0	1	0	0	0	3457	333	12	5	3905	5	CLASP2	3	33686372	Missense_Mutation	SNP	A	TCGA-KN-8435-01A-11D-2310-10		33686372	164336058	12	43132										
MON1A	84315	broad.mit.edu	37	chr3	49967246	49967246	+	Frame_Shift_Del	DEL	G	G	-													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	gccgccggtgcaggaagataGctttcgccggcctctcgcgg							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr3:49967246delG	ENST00000296473.3	-	1	332	c.74delC	c.(73-75)gctfs	p.A25fs	MON1A_ENST00000483022.1_5'UTR|MON1A_ENST00000455683.2_Frame_Shift_Del_p.A25fs|MON1A_ENST00000417270.1_5'UTR	NM_032355.3	NP_115731.2	Q86VX9	MON1A_HUMAN	MON1 secretory trafficking family member A	0										breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|ovary(2)|prostate(1)	13				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		CAGGAAGATAGCTTTCGCCGG	0.706																																																0													1	3	2					3																	49967246		457	1201	1658	SO:0001589	frameshift_variant	84315			AK074404	CCDS2808.2, CCDS46830.1	3p21.31	2013-08-21	2013-08-21		ENSG00000164077	ENSG00000164077			28207	protein-coding gene	gene with protein product		611464	"MON1 homolog A (yeast)"			12477932	Standard	NM_032355		Approved	MGC13272, SAND1	uc003cxz.3	Q86VX9	OTTHUMG00000156737	ENST00000296473.3:c.74delC	3.37:g.49967246delG	ENSP00000296473:p.Ala25fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDQ1|G5E9N1|Q8NAV7|Q9BRF3	Frame_Shift_Del	DEL	ENST00000296473.3	37	CCDS2808.2																																																																																				0.706	MON1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345534.2	NM_032355		-	49967246	G	-	49967246	7	5	671	1	0	1	0	1	0	0	0	0	9705	971	34	0	1908	0	MON1A	3	49967246	Frame_Shift_Del	DEL	G	TCGA-KN-8435-01A-11D-2310-10	16280874	49967246	148055184	13	43133										
ABHD10	55347	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	111710501	111710501	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	tcaccgaatgagggaaaaagCagacattcaacttcttgttt	8	8	3	2			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr3:111710501C>A	ENST00000273359.3	+	5	881	c.854C>A	c.(853-855)gCa>gAa	p.A285E	ABHD10_ENST00000534857.1_Missense_Mutation_p.A128E	NM_018394.2	NP_060864.1	Q9NUJ1	ABHDA_HUMAN	abhydrolase domain containing 10	285					glucuronoside catabolic process (GO:0019391)	cytosol (GO:0005829)|mitochondrion (GO:0005739)	hydrolase activity, hydrolyzing O-glycosyl compounds (GO:0004553)			large_intestine(2)|lung(7)|skin(1)	10						AGGGAAAAAGCAGACATTCAA	0.388																																																0													110	95	100					3																	111710501		2203	4300	6503	SO:0001583	missense	55347			AL713726	CCDS2963.1, CCDS63718.1	3q13.2	2012-03-26			ENSG00000144827	ENSG00000144827		"Abhydrolase domain containing"	25656	protein-coding gene	gene with protein product						22294686	Standard	NM_018394		Approved	FLJ11342	uc003dyk.5	Q9NUJ1	OTTHUMG00000159280	ENST00000273359.3:c.854C>A	3.37:g.111710501C>A	ENSP00000273359:p.Ala285Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6A8|C9IZX5|D3DN63|Q8TCF9	Missense_Mutation	SNP	ENST00000273359.3	37	CCDS2963.1	.	.	.	.	.	.	.	.	.	.	C	11.17	1.558635	0.27827	.	.	ENSG00000144827	ENST00000534857;ENST00000273359	T;T	0.35605	1.3;1.3	5.83	4.89	0.63831	.	0.162113	0.53938	D	0.000041	T	0.13543	0.0328	N	0.02751	-0.505	0.39385	D	0.966326	B	0.06786	0.001	B	0.10450	0.005	T	0.16394	-1.0404	10	0.02654	T	1	-13.2051	11.1048	0.48197	0.3475:0.6525:0.0:0.0	.	285	Q9NUJ1	ABHDA_HUMAN	E	128;285	ENSP00000442932:A128E;ENSP00000273359:A285E	ENSP00000273359:A285E	A	+	2	0	ABHD10	113193191	1.000000	0.71417	0.965000	0.40720	0.886000	0.51366	4.440000	0.59975	2.771000	0.95319	0.591000	0.81541	GCA		0.388	ABHD10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354326.1	NM_018394		A	111710501	C	A	111710501	3	1	671	1	0	0	0	0	1	0	0	0	74	710	25	4	872	4	ABHD10	3	111710501	Missense_Mutation	SNP	C	TCGA-KN-8435-01A-11D-2310-10	61743255	111710501	86311929	14	43134										
CCRL1	51554	broad.mit.edu	37	chr3	132320028	132320029	+	Frame_Shift_Ins	INS	-	-	G													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	taacattgtcaagttctgccINSgagccatagacatcatctac					rs142433574	byFrequency	TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr3:132320028_132320029insG	ENST00000249887.2	+	2	883_884	c.787_788insG	c.(787-789)cgafs	p.R263fs	ACAD11_ENST00000545291.1_Intron|ACAD11_ENST00000264990.6_Intron|ACAD11_ENST00000355458.3_Intron	NM_016557.2|NM_178445.2	NP_057641.1|NP_848540.1	Q9NPB9	ACKR4_HUMAN	atypical chemokine receptor 4	263					chemokine-mediated signaling pathway (GO:0070098)|chemotaxis (GO:0006935)|G-protein coupled receptor signaling pathway (GO:0007186)|immune response (GO:0006955)	endosome (GO:0005768)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	chemokine receptor activity (GO:0004950)|scavenger receptor activity (GO:0005044)										CAAGTTCTGCCGAGCCATAGAC	0.446																																																0																																										SO:0001589	frameshift_variant	51554			AF110640	CCDS3075.1	3q22	2013-07-17	2013-07-16	2013-07-16	ENSG00000129048	ENSG00000129048		"GPCR / Class A : Chemokine receptors : Atypical"	1611	protein-coding gene	gene with protein product		606065	"chemokine (C-C motif) receptor-like 1"	CCRL1		10767544, 16148	Standard	NM_016557		Approved	CCR11, CCBP2, VSHK1, CCX-CKR, PPR1	uc003eow.3	Q9NPB9	OTTHUMG00000159768	ENST00000249887.2:c.788dupG	3.37:g.132320029_132320029dupG	ENSP00000249887:p.Arg263fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9U7	Frame_Shift_Ins	INS	ENST00000249887.2	37	CCDS3075.1																																																																																				0.446	ACKR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357238.2	NM_016557		G	132320029	-	G	132320028	7	5	671	1	0	1	1	0	0	0	0	0	2951	644	23	0	789	0	CCRL1	3	132320028	Frame_Shift_Ins	INS	-	TCGA-KN-8435-01A-11D-2310-10	20609527	132320028	65702402	15	43135										
C3orf33	285315	bcgsc.ca	37	chr3	155485327	155485327	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	cagaagatagcaaaagagtgCtgaattctcctttccaagaa	8	8	1	5			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr3:155485327C>T	ENST00000340171.2	-	4	552	c.454G>A	c.(454-456)Gca>Aca	p.A152T	C3orf33_ENST00000534941.1_Missense_Mutation_p.A109T			Q6P1S2	CC033_HUMAN	chromosome 3 open reading frame 33	152					negative regulation of ERK1 and ERK2 cascade (GO:0070373)|regulation of sequence-specific DNA binding transcription factor activity (GO:0051090)	extracellular space (GO:0005615)|integral component of membrane (GO:0016021)	hydrolase activity, acting on ester bonds (GO:0016788)|nucleic acid binding (GO:0003676)			breast(1)|kidney(1)|large_intestine(3)|lung(3)	8			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CAAAAGAGTGCTGAATTCTCC	0.358																																																0													138	105	115					3																	155485327		1859	4101	5960	SO:0001583	missense	285315			AF115515	CCDS54659.1	3q25.31	2012-10-31			ENSG00000174928	ENSG00000174928			26434	protein-coding gene	gene with protein product						20680465	Standard	NM_173657		Approved	FLJ31139, AC3-33	uc003fal.1	Q6P1S2	OTTHUMG00000158496	ENST00000340171.2:c.454G>A	3.37:g.155485327C>T	ENSP00000342512:p.Ala152Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1H5|Q86YE6|Q8IXA7|Q96NB5	Missense_Mutation	SNP	ENST00000340171.2	37		.	.	.	.	.	.	.	.	.	.	C	10.84	1.463087	0.26248	.	.	ENSG00000174928	ENST00000534941;ENST00000340171;ENST00000537385	T;T	0.28666	1.6;1.6	5.28	-2.47	0.06442	Staphylococcal nuclease (SNase-like) (1);	0.655301	0.15921	N	0.238120	T	0.14485	0.0350	L	0.28192	0.835	0.09310	N	0.999999	B	0.16603	0.018	B	0.10450	0.005	T	0.24261	-1.0165	10	0.17369	T	0.5	-16.3589	4.5596	0.12154	0.2285:0.434:0.0:0.3375	.	152	Q6P1S2	CC033_HUMAN	T	109;152;152	ENSP00000445446:A109T;ENSP00000342512:A152T	ENSP00000342512:A152T	A	-	1	0	C3orf33	156968021	0.227000	0.23707	0.117000	0.21633	0.976000	0.68499	0.700000	0.25601	-0.242000	0.09667	0.591000	0.81541	GCA		0.358	C3orf33-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000351167.1	NM_173657		T	155485327	C	T	155485327	3	4	671	1	0	0	0	0	1	0	0	0	2225	797	28	2	438	2	C3orf33	3	155485327	Missense_Mutation	SNP	C	TCGA-KN-8435-01A-11D-2310-10	23165299	155485327	42537103	16	43136										
PAK2	5062	mdanderson.org	37	chr3	196530013	196530013	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	tccaacacagtgaagcagaaAtatctgagctttactcctcc	6	12	1	3	rs73205842	byFrequency	TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr3:196530013A>G	ENST00000327134.3	+	4	736	c.414A>G	c.(412-414)aaA>aaG	p.K138K		NM_002577.4	NP_002568.2	Q13177	PAK2_HUMAN	p21 protein (Cdc42/Rac)-activated kinase 2	138					apoptotic process (GO:0006915)|axon guidance (GO:0007411)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in execution phase of apoptosis (GO:2001271)|negative regulation of protein kinase activity (GO:0006469)|peptidyl-serine phosphorylation (GO:0018105)|phosphorylation (GO:0016310)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein tyrosine kinase activity (GO:0061098)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of apoptotic process (GO:0042981)|regulation of defense response to virus by virus (GO:0050690)|regulation of growth (GO:0040008)|signal transduction (GO:0007165)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)|protein tyrosine kinase activator activity (GO:0030296)			breast(1)|cervix(1)|kidney(2)|large_intestine(1)|lung(4)|ovary(1)|prostate(2)	12	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;6.38e-22)|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;0.00405)		TGAAGCAGAAATATCTGAGCT	0.418																																																0													92	84	87					3																	196530013		2203	4300	6503	SO:0001819	synonymous_variant	5062			U24153	CCDS3321.1	3q29	2008-06-17	2008-06-17			ENSG00000180370	2.7.11.1		8591	protein-coding gene	gene with protein product	"S6/H4 kinase"	605022	"p21 (CDKN1A)-activated kinase 2"			7744004, 7618083	Standard	NM_002577		Approved	PAK65, PAKgamma	uc003fwy.4	Q13177		ENST00000327134.3:c.414A>G	3.37:g.196530013A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q13154|Q6ISC3	Silent	SNP	ENST00000327134.3	37	CCDS3321.1																																																																																				0.418	PAK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340548.1	NM_002577		G	196530013	A	G	196530013	2	3	671	1	0	0	0	0	0	0	0	1	11408	98	4	3		3	PAK2	3	196530013	Silent	SNP	A	TCGA-KN-8435-01A-11D-2310-10	41044686	196530013	1492417	17	43137										
NAT8L	339983	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	2065597	2065597	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	tgcggatgtctgtggactcaCgtttccgaggcaagggcatc	14	10	2	0			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr4:2065597C>T	ENST00000423729.2	+	3	652	c.652C>T	c.(652-654)Cgt>Tgt	p.R218C	NAT8L_ENST00000331662.3_Missense_Mutation_p.R50C	NM_178557.3	NP_848652.2	Q8N9F0	NAT8L_HUMAN	N-acetyltransferase 8-like (GCN5-related, putative)	218	N-acetyltransferase. {ECO:0000255|PROSITE-ProRule:PRU00532}.				metabolic process (GO:0008152)|positive regulation of dopamine uptake involved in synaptic transmission (GO:0051586)	cytoplasm (GO:0005737)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|mitochondrial membrane (GO:0031966)	aspartate N-acetyltransferase activity (GO:0017188)			haematopoietic_and_lymphoid_tissue(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(23;0.0315)			TGTGGACTCACGTTTCCGAGG	0.667																																																0													81	61	67					4																	2065597		2202	4300	6502	SO:0001583	missense	339983			AK094797	CCDS3359.1, CCDS3359.2	4p16.3	2011-11-16	2008-09-24		ENSG00000185818	ENSG00000185818			26742	protein-coding gene	gene with protein product		610647	"N-acetyltransferase 8-like"			11397015	Standard	NM_178557		Approved	FLJ37478, Hcml3	uc003geq.2	Q8N9F0	OTTHUMG00000121151	ENST00000423729.2:c.652C>T	4.37:g.2065597C>T	ENSP00000413064:p.Arg218Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000423729.2	37	CCDS3359.2	.	.	.	.	.	.	.	.	.	.	C	19.07	3.755264	0.69648	.	.	ENSG00000185818	ENST00000423729;ENST00000331662	T;T	0.23348	1.91;1.91	5.54	4.61	0.57282	GCN5-related N-acetyltransferase (GNAT) domain (2);Acyl-CoA N-acyltransferase (2);	0.475646	0.21667	U	0.070925	T	0.39989	0.1099	L	0.46157	1.445	0.51767	D	0.999932	D	0.76494	0.999	D	0.65987	0.94	T	0.10543	-1.0625	10	0.62326	D	0.03	-20.8764	10.9382	0.47257	0.3955:0.6045:0.0:0.0	.	218	Q8N9F0	NAT8L_HUMAN	C	218;50	ENSP00000413064:R218C;ENSP00000328464:R50C	ENSP00000328464:R50C	R	+	1	0	NAT8L	2035395	0.977000	0.34250	0.986000	0.45419	0.509000	0.34042	3.848000	0.55903	2.604000	0.88044	0.450000	0.29827	CGT		0.667	NAT8L-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_178557		T	2065597	C	T	2065597	3	4	671	1	0	0	0	0	1	0	0	0	10188	536	19	1	662	1	NAT8L	4	2065597	Missense_Mutation	SNP	C	TCGA-KN-8435-01A-11D-2310-10		2065597	189088679	18	43138										
SMARCA5	8467	hgsc.bcm.edu	37	chr4	144442709	144442710	+	Frame_Shift_Ins	INS	-	-	A													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	aaaccagggcgcccacgaatINSaaaaaaagatgagaagcaga							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr4:144442709_144442710insA	ENST00000283131.3	+	3	842_843	c.380_381insA	c.(379-384)ataaaafs	p.IK127fs		NM_003601.3	NP_003592.3	O60264	SMCA5_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5	127					ATP catabolic process (GO:0006200)|ATP-dependent chromatin remodeling (GO:0043044)|CENP-A containing nucleosome assembly (GO:0034080)|chromatin remodeling (GO:0006338)|chromatin silencing at rDNA (GO:0000183)|DNA-templated transcription, initiation (GO:0006352)|double-strand break repair (GO:0006302)|nucleosome assembly (GO:0006334)|nucleosome positioning (GO:0016584)|regulation of transcription from RNA polymerase II promoter (GO:0006357)	chromatin silencing complex (GO:0005677)|condensed chromosome (GO:0000793)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|NURF complex (GO:0016589)|RSF complex (GO:0031213)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|helicase activity (GO:0004386)		EWSR1/SMARCA5(2)	endometrium(2)|kidney(2)|large_intestine(9)|lung(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	21	all_hematologic(180;0.158)					CGCCCACGAATAAAAAAAGATG	0.381																																																0																																										SO:0001589	frameshift_variant	8467			AB010882	CCDS3761.1	4q31.1-q31.2	2011-04-20			ENSG00000153147	ENSG00000153147			11101	protein-coding gene	gene with protein product		603375				9730600	Standard	NM_003601		Approved	hSNF2H, hISWI, ISWI	uc003ijg.3	O60264	OTTHUMG00000161474	ENST00000283131.3:c.387dupA	4.37:g.144442716_144442716dupA	ENSP00000283131:p.Ile127fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000283131.3	37	CCDS3761.1																																																																																				0.381	SMARCA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365077.3			A	144442710	-	A	144442709	7	5	671	1	0	1	1	0	0	0	0	0	14784	1406	49	0	390	0	SMARCA5	4	144442709	Frame_Shift_Ins	INS	-	TCGA-KN-8435-01A-11D-2310-10	142377112	144442709	46711567	19	43139	423	2								
SMARCA5	8467	bcgsc.ca	37	chr4	144442710	144442711	+	Frame_Shift_Ins	INS	-	-	A													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	aaccagggcgcccacgaataINSaaaaaagatgagaagcagaa							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr4:144442710_144442711insA	ENST00000283131.3	+	3	843_844	c.381_382insA	c.(382-384)aaafs	p.K128fs		NM_003601.3	NP_003592.3	O60264	SMCA5_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5	128					ATP catabolic process (GO:0006200)|ATP-dependent chromatin remodeling (GO:0043044)|CENP-A containing nucleosome assembly (GO:0034080)|chromatin remodeling (GO:0006338)|chromatin silencing at rDNA (GO:0000183)|DNA-templated transcription, initiation (GO:0006352)|double-strand break repair (GO:0006302)|nucleosome assembly (GO:0006334)|nucleosome positioning (GO:0016584)|regulation of transcription from RNA polymerase II promoter (GO:0006357)	chromatin silencing complex (GO:0005677)|condensed chromosome (GO:0000793)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|NURF complex (GO:0016589)|RSF complex (GO:0031213)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|helicase activity (GO:0004386)		EWSR1/SMARCA5(2)	endometrium(2)|kidney(2)|large_intestine(9)|lung(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	21	all_hematologic(180;0.158)					GCCCACGAATAAAAAAAGATGA	0.386																																																0																																										SO:0001589	frameshift_variant	8467			AB010882	CCDS3761.1	4q31.1-q31.2	2011-04-20			ENSG00000153147	ENSG00000153147			11101	protein-coding gene	gene with protein product		603375				9730600	Standard	NM_003601		Approved	hSNF2H, hISWI, ISWI	uc003ijg.3	O60264	OTTHUMG00000161474	ENST00000283131.3:c.387dupA	4.37:g.144442716_144442716dupA	ENSP00000283131:p.Lys128fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000283131.3	37	CCDS3761.1																																																																																				0.386	SMARCA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365077.3			A	144442711	-	A	144442710	7	5	671	1	0	1	1	0	0	0	0	0	14784	352	13	0	391	0	SMARCA5	4	144442710	Frame_Shift_Ins	INS	-	TCGA-KN-8435-01A-11D-2310-10	1	144442710	46711566	20	43140	423	2								
ETFDH	2110	mdanderson.org	37	chr4	159601752	159601752	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ccccgggataaggacaagagAtgggaaggtaagtaataatt	13	5	0	1			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr4:159601752A>G	ENST00000511912.1	+	2	500	c.168A>G	c.(166-168)agA>agG	p.R56R	ETFDH_ENST00000307738.5_Intron	NM_001281738.1|NM_004453.2	NP_001268667.1|NP_004444.2	Q16134	ETFD_HUMAN	electron-transferring-flavoprotein dehydrogenase	56					cellular metabolic process (GO:0044237)|electron transport chain (GO:0022900)|fatty acid beta-oxidation using acyl-CoA dehydrogenase (GO:0033539)|respiratory electron transport chain (GO:0022904)|response to oxidative stress (GO:0006979)|small molecule metabolic process (GO:0044281)	integral component of mitochondrial inner membrane (GO:0031305)|mitochondrial matrix (GO:0005759)|mitochondrial membrane (GO:0031966)	4 iron, 4 sulfur cluster binding (GO:0051539)|electron carrier activity (GO:0009055)|electron-transferring-flavoprotein dehydrogenase activity (GO:0004174)|flavin adenine dinucleotide binding (GO:0050660)|metal ion binding (GO:0046872)|oxidoreductase activity (GO:0016491)|oxidoreductase activity, oxidizing metal ions with flavin as acceptor (GO:0043783)|quinone binding (GO:0048038)|ubiquinone binding (GO:0048039)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(6)|lung(13)|prostate(1)|skin(3)	28	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0172)		AGGACAAGAGATGGGAAGGTA	0.333																																																0													102	97	99					4																	159601752		2203	4298	6501	SO:0001819	synonymous_variant	2110			S69232	CCDS3800.1, CCDS64090.1	4q32-q35	2008-08-26			ENSG00000171503	ENSG00000171503			3483	protein-coding gene	gene with protein product		231675					Standard	NM_004453		Approved	ETFQO	uc003iqb.3	Q16134	OTTHUMG00000161684	ENST00000511912.1:c.168A>G	4.37:g.159601752A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4E3R9|J3KND9|Q7Z347	Silent	SNP	ENST00000511912.1	37	CCDS3800.1	.	.	.	.	.	.	.	.	.	.	A	12.94	2.089012	0.36855	.	.	ENSG00000171503	ENST00000512251	.	.	.	5.54	3.05	0.35203	.	.	.	.	.	T	0.64000	0.2559	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.63296	-0.6669	5	0.87932	D	0	-20.4541	8.1689	0.31243	0.7941:0.1352:0.0707:0.0	.	.	.	.	G	36	.	ENSP00000425661:D36G	D	+	2	0	ETFDH	159821202	1.000000	0.71417	0.998000	0.56505	0.940000	0.58332	3.251000	0.51453	0.456000	0.26937	0.482000	0.46254	GAT		0.333	ETFDH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365718.2			G	159601752	A	G	159601752	2	3	671	1	0	0	0	0	0	0	0	1	5273	330	12	3		3	ETFDH	4	159601752	Silent	SNP	A	TCGA-KN-8435-01A-11D-2310-10	15159042	159601752	31552524	21	43141										
SLC25A46	91137	broad.mit.edu	37	chr5	110097244	110097244	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	attggaaacagttttgcaccGccttcacattcaaggaacac	7	11	2	0			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr5:110097244G>A	ENST00000355943.3	+	8	1145	c.1019G>A	c.(1018-1020)cGc>cAc	p.R340H	SLC25A46_ENST00000447245.2_Missense_Mutation_p.R259H|SLC25A46_ENST00000509442.2_Missense_Mutation_p.R249H|SLC25A46_ENST00000509432.1_Missense_Mutation_p.R127H|SLC25A46_ENST00000504098.1_Missense_Mutation_p.R194H|SLC25A46_ENST00000513807.1_Missense_Mutation_p.R178H|SLC25A46_ENST00000513706.1_3'UTR	NM_138773.1	NP_620128.1	Q96AG3	S2546_HUMAN	solute carrier family 25, member 46	340					transport (GO:0006810)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)				breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(4)|skin(1)	10		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)		GTTTTGCACCGCCTTCACATT	0.393																																																0													255	242	246					5																	110097244		2202	4300	6502	SO:0001583	missense	91137			BC017169	CCDS4100.1	5q22.1	2013-05-22			ENSG00000164209	ENSG00000164209		"Solute carriers"	25198	protein-coding gene	gene with protein product		610826				1651562, 1651563, 16949250	Standard	NM_138773		Approved		uc003koz.3	Q96AG3	OTTHUMG00000128794	ENST00000355943.3:c.1019G>A	5.37:g.110097244G>A	ENSP00000348211:p.Arg340His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2F2|B3KRE6|B4DTA3|D3DSZ6|D6R9W7|Q04197	Missense_Mutation	SNP	ENST00000355943.3	37	CCDS4100.1	.	.	.	.	.	.	.	.	.	.	G	29.2	4.985424	0.93044	.	.	ENSG00000164209	ENST00000513807;ENST00000509442;ENST00000355943;ENST00000514046;ENST00000447245;ENST00000504098;ENST00000509432	D;D;D;D;D;D	0.83992	-1.79;-1.79;-1.79;-1.79;-1.79;-1.79	5.71	5.71	0.89125	Mitochondrial carrier domain (2);	0.044516	0.85682	D	0.000000	D	0.93657	0.7974	M	0.92880	3.355	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.85130	0.993;0.997	D	0.94518	0.7724	10	0.87932	D	0	-9.4977	19.8594	0.96778	0.0:0.0:1.0:0.0	.	249;340	B4DY98;Q96AG3	.;S2546_HUMAN	H	178;249;340;194;259;194;127	ENSP00000421134:R178H;ENSP00000424136:R249H;ENSP00000348211:R340H;ENSP00000399717:R259H;ENSP00000425708:R194H;ENSP00000426604:R127H	ENSP00000348211:R340H	R	+	2	0	SLC25A46	110125143	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.897000	0.92532	2.691000	0.91804	0.650000	0.86243	CGC		0.393	SLC25A46-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250721.5	NM_138773		A	110097244	G	A	110097244	3	1	671	1	0	0	0	0	1	0	0	0	14524	1087	38	1	1049	1	SLC25A46	5	110097244	Missense_Mutation	SNP	G	TCGA-KN-8435-01A-11D-2310-10		110097244	70818016	22	43142										
PCDHA6	56142	mdanderson.org	37	chr5	140208909	140208909	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	tactcgttggtgctggacagTgccctggaccgcgagagcgt	15	11	0	1	rs664837	byFrequency	TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr5:140208909T>C	ENST00000529310.1	+	1	1347	c.1233T>C	c.(1231-1233)agT>agC	p.S411S	PCDHA4_ENST00000530339.1_Intron|PCDHA2_ENST00000526136.1_Intron|PCDHA5_ENST00000529859.1_Intron|PCDHA6_ENST00000527624.1_Silent_p.S411S|PCDHA5_ENST00000529619.1_Intron|PCDHA1_ENST00000394633.3_Intron|PCDHA3_ENST00000522353.2_Intron|PCDHA4_ENST00000512229.2_Intron|PCDHA1_ENST00000504120.2_Intron	NM_018909.2|NM_031848.2|NM_031849.1	NP_061732.1|NP_114036.1|NP_114037.1	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6	411	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(11)|lung(42)|prostate(8)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	89			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCTGGACAGTGCCCTGGACC	0.622													.|||	3	0.000599042	0.0	0.0043	5008	,	,		20184	0.0		0.0	False		,,,				2504	0.0															0													148	146	147					5																	140208909		2203	4300	6503	SO:0001819	synonymous_variant	56142			AF152484	CCDS47281.1, CCDS47282.1	5q31	2010-11-26			ENSG00000081842	ENSG00000081842		"Cadherins / Protocadherins : Clustered"	8672	other	complex locus constituent	"KIAA0345-like 8"	606312		CNRS2		10380929, 10662547	Standard	NM_018909		Approved	CNR2, CRNR2, PCDH-ALPHA6		Q9UN73	OTTHUMG00000163353	ENST00000529310.1:c.1233T>C	5.37:g.140208909T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O75283|Q9NRT8	Silent	SNP	ENST00000529310.1	37	CCDS47281.1																																																																																				0.622	PCDHA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372829.3	NM_018909		C	140208909	T	C	140208909	2	2	671	1	0	0	0	0	0	0	0	1	11535	1693	59	3		3	PCDHA6	5	140208909	Silent	SNP	T	TCGA-KN-8435-01A-11D-2310-10	30111665	140208909	40706351	23	43143										
DOCK2	1794	mdanderson.org	37	chr5	169504743	169504743	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	gacgacaggagagtgggccgTcccaggtctatgctgcgctc	15	12	1	1	rs1045168	byFrequency	TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr5:169504743T>C	ENST00000256935.8	+	48	4976	c.4896T>C	c.(4894-4896)cgT>cgC	p.R1632R	DOCK2_ENST00000540750.1_Silent_p.R693R|DOCK2_ENST00000523351.1_3'UTR|DOCK2_ENST00000520908.1_Silent_p.R1124R	NM_004946.2	NP_004937.1	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1632					actin cytoskeleton organization (GO:0030036)|alpha-beta T cell proliferation (GO:0046633)|chemotaxis (GO:0006935)|establishment of T cell polarity (GO:0001768)|immunological synapse formation (GO:0001771)|macropinocytosis (GO:0044351)|membrane raft polarization (GO:0001766)|myeloid dendritic cell activation involved in immune response (GO:0002277)|negative thymic T cell selection (GO:0045060)|positive regulation of phagocytosis (GO:0050766)|positive thymic T cell selection (GO:0045059)|regulation of defense response to virus by virus (GO:0050690)|small GTPase mediated signal transduction (GO:0007264)|viral process (GO:0016032)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	Rac GTPase activator activity (GO:0030675)|Rac guanyl-nucleotide exchange factor activity (GO:0030676)|T cell receptor binding (GO:0042608)	p.R1632R(1)		NS(2)|breast(5)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(42)|liver(2)|lung(63)|ovary(5)|pancreas(3)|prostate(7)|skin(5)|stomach(2)|upper_aerodigestive_tract(3)	160	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)			GAGTGGGCCGTCCCAGGTCTA	0.577													C|||	1458	0.291134	0.3782	0.2579	5008	,	,		15757	0.1071		0.334	False		,,,				2504	0.3425															1	Substitution - coding silent(1)	stomach(1)						C		1660,2746	658.5+/-400.4	303,1054,846	132	119	124		4896	-5.4	0.9	5	dbSNP_86	124	2650,5950	685.7+/-404.1	414,1822,2064	no	coding-synonymous	DOCK2	NM_004946.2		717,2876,2910	CC,CT,TT		30.814,37.6759,33.1386		1632/1831	169504743	4310,8696	2203	4300	6503	SO:0001819	synonymous_variant	1794			BC016996	CCDS4371.1	5q35.1	2008-02-05			ENSG00000134516	ENSG00000134516			2988	protein-coding gene	gene with protein product		603122	"dedicator of cyto-kinesis 2"				Standard	NM_004946		Approved	KIAA0209	uc003maf.3	Q92608	OTTHUMG00000130437	ENST00000256935.8:c.4896T>C	5.37:g.169504743T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3I0|Q96AK7	Silent	SNP	ENST00000256935.8	37	CCDS4371.1																																																																																				0.577	DOCK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252828.2	NM_004946		C	169504743	T	C	169504743	2	2	671	1	0	0	0	0	0	0	0	1	4689	1654	58	3		3	DOCK2	5	169504743	Silent	SNP	T	TCGA-KN-8435-01A-11D-2310-10	29295834	169504743	11410517	24	43144										
DPCR1	135656	broad.mit.edu	37	chr6	30917845	30917845	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ggccaatgagaacaccacacCatccccagcagagcctacag	8	16	0	2			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr6:30917845C>T	ENST00000462446.1	+	2	1632	c.1604C>T	c.(1603-1605)cCa>cTa	p.P535L	DPCR1_ENST00000304311.2_5'UTR|HCG21_ENST00000419481.1_RNA			Q3MIW9	DPCR1_HUMAN	diffuse panbronchiolitis critical region 1	280						integral component of membrane (GO:0016021)				endometrium(1)|kidney(2)|large_intestine(3)|lung(3)|pancreas(1)	10						AACACCACACCATCCCCAGCA	0.512																																																0													83	92	89					6																	30917845		692	1591	2283	SO:0001583	missense	135656			AB064272	CCDS4692.1, CCDS4692.2	6p21.32	2008-02-05			ENSG00000168631	ENSG00000168631			21666	protein-coding gene	gene with protein product		613928				12185533, 10677310	Standard	NM_080870		Approved	PBLT, bCX105N19.6	uc003nsg.2	Q3MIW9	OTTHUMG00000031104	ENST00000462446.1:c.1604C>T	6.37:g.30917845C>T	ENSP00000417182:p.Pro535Leu	Somatic		WXS	Illumina HiSeq	Phase_I	C9IZC0|Q658M7|Q8WYN2	Missense_Mutation	SNP	ENST00000462446.1	37	CCDS4692.2	.	.	.	.	.	.	.	.	.	.	-	1.979	-0.434705	0.04669	.	.	ENSG00000168631	ENST00000462446	T	0.46451	0.87	2.42	-3.88	0.04205	.	.	.	.	.	T	0.13286	0.0322	M	0.69823	2.125	0.09310	N	0.999999	B	0.18741	0.03	B	0.17979	0.02	T	0.28267	-1.0049	9	0.30078	T	0.28	.	0.5003	0.00578	0.2318:0.1654:0.3276:0.2752	.	535	E9PEI6	.	L	535	ENSP00000417182:P535L	ENSP00000417182:P535L	P	+	2	0	DPCR1	31025824	0.000000	0.05858	0.000000	0.03702	0.031000	0.12232	-0.305000	0.08188	-1.062000	0.03181	0.538000	0.68166	CCA		0.512	DPCR1-001	NOVEL	not_organism_supported|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000076173.3	NM_080870		T	30917845	C	T	30917845	3	4	671	1	0	0	0	0	1	0	0	0	4714	594	21	2	1610	2	DPCR1	6	30917845	Missense_Mutation	SNP	C	TCGA-KN-8435-01A-11D-2310-10		30917845	140197222	25	43145										
CD109	135228	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr6	74520746	74520746	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ggctttaaaggctctgtctgAatttgcagccctaatgaata	9	8	2	2			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr6:74520746A>C	ENST00000287097.5	+	28	3690	c.3578A>C	c.(3577-3579)gAa>gCa	p.E1193A	CD109_ENST00000437994.2_Missense_Mutation_p.E1193A|CD109_ENST00000422508.2_Missense_Mutation_p.E1116A			Q6YHK3	CD109_HUMAN	CD109 molecule	1193					negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|negative regulation of wound healing (GO:0061045)	anchored component of membrane (GO:0031225)|cell surface (GO:0009986)|extracellular space (GO:0005615)|plasma membrane (GO:0005886)	serine-type endopeptidase inhibitor activity (GO:0004867)|transforming growth factor beta binding (GO:0050431)			NS(2)|biliary_tract(1)|breast(1)|endometrium(4)|kidney(2)|large_intestine(18)|liver(2)|lung(26)|ovary(2)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	63						GCTCTGTCTGAATTTGCAGCC	0.398																																																0													115	115	115					6																	74520746		2203	4300	6503	SO:0001583	missense	135228			AF410459	CCDS4982.1, CCDS55038.1, CCDS55039.1	6q14.1	2008-02-05	2006-03-28		ENSG00000156535	ENSG00000156535		"CD molecules"	21685	protein-coding gene	gene with protein product		608859	"CD109 antigen (Gov platelet alloantigens)"			11861284, 11861285	Standard	XM_005248659		Approved	FLJ38569, DKFZp762L1111, CPAMD7	uc003php.3	Q6YHK3	OTTHUMG00000015040	ENST00000287097.5:c.3578A>C	6.37:g.74520746A>C	ENSP00000287097:p.Glu1193Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A5YKK4|B2R948|B3KW25|Q0P6K7|Q5SYA8|Q5XUM7|Q5XUM9|Q6MZI7|Q8N3A7|Q8N915|Q8TDJ2|Q8TDJ3	Missense_Mutation	SNP	ENST00000287097.5	37	CCDS4982.1	.	.	.	.	.	.	.	.	.	.	A	9.542	1.113523	0.20795	.	.	ENSG00000156535	ENST00000437994;ENST00000422508;ENST00000287097	T;T;T	0.39592	1.07;1.07;1.07	5.2	4.04	0.47022	Terpenoid cylases/protein prenyltransferase alpha-alpha toroid (1);A-macroglobulin complement component (1);	0.554792	0.20420	N	0.092694	T	0.11410	0.0278	L	0.31578	0.945	0.26257	N	0.978636	B;B;B	0.32350	0.366;0.125;0.022	B;B;B	0.29785	0.107;0.072;0.098	T	0.05257	-1.0896	10	0.23891	T	0.37	.	6.0642	0.19854	0.5255:0.3335:0.0:0.141	.	1116;1193;1193	Q6YHK3-2;Q6YHK3-4;Q6YHK3	.;.;CD109_HUMAN	A	1193;1116;1193	ENSP00000388062:E1193A;ENSP00000404475:E1116A;ENSP00000287097:E1193A	ENSP00000287097:E1193A	E	+	2	0	CD109	74577467	0.107000	0.21998	1.000000	0.80357	0.963000	0.63663	0.782000	0.26788	2.180000	0.69256	0.533000	0.62120	GAA		0.398	CD109-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000041230.3	NM_133493		C	74520746	A	C	74520746	3	2	671	1	0	0	0	0	1	0	0	0	2965	246	9	5	3688	5	CD109	6	74520746	Missense_Mutation	SNP	A	TCGA-KN-8435-01A-11D-2310-10	43602901	74520746	96594321	26	43146										
RIPPLY2	134701	broad.mit.edu	37	chr6	84567032	84567033	+	Frame_Shift_Ins	INS	-	-	A													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	gctcttctgaaaaattttccINSaattcaagccacaatttcat							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr6:84567032_84567033insA	ENST00000369689.1	+	4	462_463	c.311_312insA	c.(310-315)ccaattfs	p.I105fs	RIPPLY2_ENST00000369687.1_Frame_Shift_Ins_p.I47fs|CYB5R4_ENST00000369679.4_5'Flank|CYB5R4_ENST00000369681.5_5'Flank	NM_001009994.1	NP_001009994.1	Q5TAB7	RIPP2_HUMAN	ripply transcriptional repressor 2	105	Ripply homology domain. {ECO:0000255}.				bone morphogenesis (GO:0060349)|determination of left/right symmetry (GO:0007368)|Notch signaling pathway (GO:0007219)|ossification (GO:0001503)|post-anal tail morphogenesis (GO:0036342)|regulation of gene expression (GO:0010468)|somite rostral/caudal axis specification (GO:0032525)|somitogenesis (GO:0001756)	nucleus (GO:0005634)				large_intestine(2)|lung(4)|urinary_tract(1)	7						AAAAATTTTCCAATTCAAGCCA	0.297																																																0																																										SO:0001589	frameshift_variant	134701			BC130460	CCDS34493.1	6q14.2	2013-07-23	2013-07-23	2008-05-07	ENSG00000203877	ENSG00000203877			21390	protein-coding gene	gene with protein product		609891	"chromosome 6 open reading frame 159", "ripply2 homolog (zebrafish)"	C6orf159			Standard	NM_001009994		Approved	dJ237I15.1	uc003pke.3	Q5TAB7	OTTHUMG00000015117	ENST00000369689.1:c.313dupA	6.37:g.84567034_84567034dupA	ENSP00000358703:p.Ile105fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TAB6	Frame_Shift_Ins	INS	ENST00000369689.1	37	CCDS34493.1																																																																																				0.297	RIPPLY2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041360.1	NM_001009994		A	84567033	-	A	84567032	7	5	671	1	0	1	1	0	0	0	0	0	13398	594	21	0	325	0	RIPPLY2	6	84567032	Frame_Shift_Ins	INS	-	TCGA-KN-8435-01A-11D-2310-10	10046286	84567032	86548035	27	43147										
GJA1	2697	mdanderson.org	37	chr6	121769050	121769050	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	aactagctgctggacatgaaTtacagccactagccattgtg	9	10	0	1			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr6:121769050T>C	ENST00000282561.3	+	2	1214	c.1057T>C	c.(1057-1059)Tta>Cta	p.L353L		NM_000165.3	NP_000156.1	P17302	CXA1_HUMAN	gap junction protein, alpha 1, 43kDa	353					adult heart development (GO:0007512)|apoptotic process (GO:0006915)|ATP transport (GO:0015867)|atrial cardiac muscle cell action potential (GO:0086014)|atrial ventricular junction remodeling (GO:0003294)|blood vessel morphogenesis (GO:0048514)|cell communication by chemical coupling (GO:0010643)|cell communication by electrical coupling (GO:0010644)|cell-cell signaling (GO:0007267)|cellular response to mechanical stimulus (GO:0071260)|chronic inflammatory response (GO:0002544)|embryonic digit morphogenesis (GO:0042733)|endothelium development (GO:0003158)|epithelial cell maturation (GO:0002070)|gap junction assembly (GO:0016264)|heart development (GO:0007507)|heart looping (GO:0001947)|in utero embryonic development (GO:0001701)|ion transmembrane transport (GO:0034220)|lens development in camera-type eye (GO:0002088)|membrane organization (GO:0061024)|milk ejection (GO:0060156)|muscle contraction (GO:0006936)|negative regulation of cardiac muscle cell proliferation (GO:0060044)|negative regulation of gene expression (GO:0010629)|neuron migration (GO:0001764)|neuron projection morphogenesis (GO:0048812)|osteoblast differentiation (GO:0001649)|positive regulation of behavioral fear response (GO:2000987)|positive regulation of cell communication by chemical coupling (GO:0010652)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of gene expression (GO:0010628)|positive regulation of glomerular filtration (GO:0003104)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of striated muscle tissue development (GO:0045844)|positive regulation of vasoconstriction (GO:0045907)|positive regulation of vasodilation (GO:0045909)|protein oligomerization (GO:0051259)|regulation of atrial cardiac muscle cell membrane depolarization (GO:0060371)|regulation of bone mineralization (GO:0030500)|regulation of bone remodeling (GO:0046850)|regulation of calcium ion transport (GO:0051924)|regulation of tight junction assembly (GO:2000810)|regulation of ventricular cardiac muscle cell membrane depolarization (GO:0060373)|regulation of ventricular cardiac muscle cell membrane repolarization (GO:0060307)|response to fluid shear stress (GO:0034405)|response to peptide hormone (GO:0043434)|response to pH (GO:0009268)|signal transduction (GO:0007165)|skeletal muscle tissue regeneration (GO:0043403)|transmembrane transport (GO:0055085)|transport (GO:0006810)|vascular transport (GO:0010232)	apical plasma membrane (GO:0016324)|connexon complex (GO:0005922)|contractile fiber (GO:0043292)|cytosol (GO:0005829)|early endosome (GO:0005769)|endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|fascia adherens (GO:0005916)|focal adhesion (GO:0005925)|gap junction (GO:0005921)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi-associated vesicle membrane (GO:0030660)|integral component of plasma membrane (GO:0005887)|intercalated disc (GO:0014704)|intermediate filament (GO:0005882)|lateral plasma membrane (GO:0016328)|lysosome (GO:0005764)|membrane raft (GO:0045121)|mitochondrial outer membrane (GO:0005741)|multivesicular body (GO:0005771)|plasma membrane (GO:0005886)	gap junction channel activity (GO:0005243)|ion transmembrane transporter activity (GO:0015075)|signal transducer activity (GO:0004871)			autonomic_ganglia(1)|breast(1)|cervix(2)|endometrium(2)|large_intestine(10)|liver(2)|lung(13)|ovary(2)	33				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	TGGACATGAATTACAGCCACT	0.522																																																0													54	60	58					6																	121769050		2199	4298	6497	SO:0001819	synonymous_variant	2697			BC026329	CCDS5123.1	6q22.31	2013-05-10	2007-01-16		ENSG00000152661	ENSG00000152661		"Ion channels / Gap junction proteins (connexins)"	4274	protein-coding gene	gene with protein product	"oculodentodigital dysplasia (syndactyly type III)", "connexin 43"	121014	"gap junction protein, alpha-like", "gap junction protein, alpha 1, 43kDa (connexin 43)"	ODDD, GJAL		10331943, 1646158	Standard	NM_000165		Approved	CX43, ODD, ODOD, SDTY3	uc003pyr.3	P17302	OTTHUMG00000015479	ENST00000282561.3:c.1057T>C	6.37:g.121769050T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R5U9|Q6FHU1|Q9Y5I8	Silent	SNP	ENST00000282561.3	37	CCDS5123.1																																																																																				0.522	GJA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042023.1	NM_000165		C	121769050	T	C	121769050	2	2	671	1	0	0	0	0	0	0	0	1	6407	1490	52	3		3	GJA1	6	121769050	Silent	SNP	T	TCGA-KN-8435-01A-11D-2310-10	37202018	121769050	49346017	28	43148										
KIAA1244	57221	bcgsc.ca	37	chr6	138655499	138655499	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	cacggccgagcaagtgaagaAggtcctttttgaggacgacg	14	9	0	3			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr6:138655499A>G	ENST00000251691.4	+	33	5682	c.5516A>G	c.(5515-5517)aAg>aGg	p.K1839R		NM_020340.4	NP_065073.3			KIAA1244											NS(1)|breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(11)|lung(17)|ovary(2)|skin(2)	44	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		CAAGTGAAGAAGGTCCTTTTT	0.522																																																0													40	38	38					6																	138655499		2203	4300	6503	SO:0001583	missense	57221			AB033070	CCDS5189.2	6q23.3	2012-04-17			ENSG00000112379	ENSG00000112379		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	21213	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 33"		"chromosome 6 open reading frame 92"	C6orf92			Standard	NM_020340		Approved	dJ171N11.1, BIG3, PPP1R33	uc003qhu.3	Q5TH69	OTTHUMG00000015670	ENST00000251691.4:c.5516A>G	6.37:g.138655499A>G	ENSP00000251691:p.Lys1839Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000251691.4	37	CCDS5189.2	.	.	.	.	.	.	.	.	.	.	A	9.628	1.135731	0.21123	.	.	ENSG00000112379	ENST00000251691;ENST00000367706	T	0.19105	2.17	4.99	2.6	0.31112	.	0.644286	0.16619	N	0.206574	T	0.04182	0.0116	N	0.19112	0.55	0.45690	D	0.998602	B	0.02656	0.0	B	0.04013	0.001	T	0.31308	-0.9948	10	0.17832	T	0.49	-23.402	8.9846	0.35986	0.8474:0.0:0.1526:0.0	.	1839	Q5TH69	BIG3_HUMAN	R	1839;4	ENSP00000251691:K1839R	ENSP00000251691:K1839R	K	+	2	0	KIAA1244	138697192	1.000000	0.71417	0.998000	0.56505	0.990000	0.78478	2.452000	0.44961	0.273000	0.22049	0.338000	0.21704	AAG		0.522	KIAA1244-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042425.4	NM_020340		G	138655499	A	G	138655499	3	3	671	1	0	0	0	0	1	0	0	0	8224	72	3	3	5646	3	KIAA1244	6	138655499	Missense_Mutation	SNP	A	TCGA-KN-8435-01A-11D-2310-10	16886449	138655499	32459568	29	43149										
DAGLB	221955	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	6452490	6452490	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	cgcaagattcttctcttcagAtcttccaagttggtcacact	6	12	5	2			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr7:6452490A>T	ENST00000297056.6	-	13	1690	c.1521T>A	c.(1519-1521)gaT>gaA	p.D507E	DAGLB_ENST00000436575.1_Missense_Mutation_p.D466E|DAGLB_ENST00000425398.2_Missense_Mutation_p.D378E|DAGLB_ENST00000428902.2_Missense_Mutation_p.S367T	NM_139179.3	NP_631918.3	Q8NCG7	DGLB_HUMAN	diacylglycerol lipase, beta	507					arachidonic acid metabolic process (GO:0019369)|blood coagulation (GO:0007596)|lipid catabolic process (GO:0016042)|neuroblast proliferation (GO:0007405)|neurotransmitter biosynthetic process (GO:0042136)|platelet activation (GO:0030168)	integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|plasma membrane (GO:0005886)	hydrolase activity (GO:0016787)|metal ion binding (GO:0046872)			breast(3)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(4)|lung(5)|ovary(3)|prostate(1)|urinary_tract(2)	26		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)		TTCTCTTCAGATCTTCCAAGT	0.592																																																0													72	58	62					7																	6452490		2202	4297	6499	SO:0001583	missense	221955			AF450090	CCDS5350.1, CCDS47536.1	7p22.1	2008-03-18			ENSG00000164535	ENSG00000164535	3.1.1.-		28923	protein-coding gene	gene with protein product		614016					Standard	NM_139179		Approved	KCCR13L, DAGLBETA	uc003sqa.3	Q8NCG7	OTTHUMG00000125513	ENST00000297056.6:c.1521T>A	7.37:g.6452490A>T	ENSP00000297056:p.Asp507Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2P3|B3KV90|B4DQU0|Q6PIX3|Q8N2N2|Q8N9S1|Q8TED3|Q8WXE6	Missense_Mutation	SNP	ENST00000297056.6	37	CCDS5350.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	10.54|10.54	1.379977|1.379977	0.24944|0.24944	.|.	.|.	ENSG00000164535|ENSG00000164535	ENST00000297056;ENST00000425398;ENST00000436575|ENST00000428902	T;T;T|.	0.48201|.	0.84;0.82;0.84|.	5.52|5.52	-5.44|-5.44	0.02624|0.02624	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.71178|0.71178	0.3309|0.3309	M|M	0.75447|0.75447	2.3|2.3	0.80722|0.80722	D|D	1|1	D;D;D;D|.	0.89917|.	1.0;1.0;0.999;0.999|.	D;D;D;D|.	0.91635|.	0.994;0.999;0.979;0.997|.	T|T	0.75510|0.75510	-0.3292|-0.3292	10|6	0.14656|0.41790	T|T	0.56|0.15	-6.0701|-6.0701	17.3302|17.3302	0.87261|0.87261	0.3927:0.0:0.6073:0.0|0.3927:0.0:0.6073:0.0	.|.	378;321;507;204|.	B4DQU0;B4DQQ6;Q8NCG7;B3KRA0|.	.;.;DGLB_HUMAN;.|.	E|T	507;378;466|367	ENSP00000297056:D507E;ENSP00000391171:D378E;ENSP00000404785:D466E|.	ENSP00000297056:D507E|ENSP00000416046:S367T	D|S	-|-	3|1	2|0	DAGLB|DAGLB	6419015|6419015	0.039000|0.039000	0.19947|0.19947	0.030000|0.030000	0.17652|0.17652	0.718000|0.718000	0.41266|0.41266	-0.352000|-0.352000	0.07701|0.07701	-0.913000|-0.913000	0.03832|0.03832	-0.250000|-0.250000	0.11733|0.11733	GAT|TCT		0.592	DAGLB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000246840.2	NM_139179		T	6452490	A	T	6452490	3	4	671	1	0	0	0	0	1	0	0	0	4229	330	12	5	509	5	DAGLB	7	6452490	Missense_Mutation	SNP	A	TCGA-KN-8435-01A-11D-2310-10		6452490	152686173	30	43150										
HOXA9	3205	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	27204514	27204514	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	tactgggatcgatggggggcTtgtctccgccgctctcattc	13	12	2	0			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr7:27204514T>C	ENST00000343483.6	-	1	635	c.563A>G	c.(562-564)aAg>aGg	p.K188R	HOXA9_ENST00000497089.1_Intron|HOXA9_ENST00000396345.1_3'UTR|RP1-170O19.20_ENST00000470747.4_Missense_Mutation_p.K28R|RP1-170O19.20_ENST00000465941.1_Intron	NM_152739.3	NP_689952.1	P31269	HXA9_HUMAN	homeobox A9	188					endothelial cell activation (GO:0042118)|multicellular organismal development (GO:0007275)|negative regulation of myeloid cell differentiation (GO:0045638)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	enzyme binding (GO:0019899)|sequence-specific DNA binding (GO:0043565)			central_nervous_system(1)|endometrium(1)|lung(5)|prostate(1)	8						GATGGGGGGCTTGTCTCCGCC	0.582			T	"NUP98, MSI2"	AML*																																		Dom	yes		7	7p15-p14.2	3205	homeo box A9		L	0													49	56	53					7																	27204514		2203	4300	6503	SO:0001583	missense	3205				CCDS5409.1	7p15.2	2011-06-20	2005-12-22		ENSG00000078399	ENSG00000078399		"Homeoboxes / ANTP class : HOXL subclass"	5109	protein-coding gene	gene with protein product		142956	"homeo box A9"	HOX1G, HOX1		1973146, 1358459	Standard	NM_152739		Approved		uc003syt.3	P31269	OTTHUMG00000023220	ENST00000343483.6:c.563A>G	7.37:g.27204514T>C	ENSP00000343619:p.Lys188Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O43369|O43429|Q99820	Missense_Mutation	SNP	ENST00000343483.6	37	CCDS5409.1	.	.	.	.	.	.	.	.	.	.	T	18.19	3.569468	0.65765	.	.	ENSG00000078399;ENSG00000078399;ENSG00000257184	ENST00000343483;ENST00000242050;ENST00000470747	D;D	0.94576	-3.37;-3.46	5.86	5.86	0.93980	Hox9, N-terminal activation domain (1);Homeodomain-like (1);	0.000000	0.64402	D	0.000005	D	0.95582	0.8564	M	0.89534	3.04	0.80722	D	1	B	0.21520	0.057	B	0.26614	0.071	D	0.93911	0.7197	10	0.72032	D	0.01	.	16.2433	0.82426	0.0:0.0:0.0:1.0	.	188	P31269	HXA9_HUMAN	R	188;179;28	ENSP00000343619:K188R;ENSP00000421799:K28R	ENSP00000242050:K179R	K	-	2	0	RP1-170O19.20;HOXA9	27171039	1.000000	0.71417	1.000000	0.80357	0.964000	0.63967	7.283000	0.78640	2.242000	0.73789	0.459000	0.35465	AAG		0.582	HOXA9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358706.2			C	27204514	T	C	27204514	3	2	671	1	0	0	0	0	1	0	0	0	7305	1609	56	3	263	3	HOXA9	7	27204514	Missense_Mutation	SNP	T	TCGA-KN-8435-01A-11D-2310-10	20752024	27204514	131934149	31	43151										
ZHX1	11244	mdanderson.org	37	chr8	124267138	124267138	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	tgaattgtttccttcttgccTcctctacttcctcgggagtc	7	13	2	1			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr8:124267138T>C	ENST00000522655.1	-	3	1589	c.1049A>G	c.(1048-1050)gAg>gGg	p.E350G	ZHX1_ENST00000522595.1_5'Flank|ZHX1_ENST00000297857.2_Missense_Mutation_p.E350G|ZHX1-C8ORF76_ENST00000357082.4_Intron|ZHX1_ENST00000395571.3_Missense_Mutation_p.E350G			Q9UKY1	ZHX1_HUMAN	zinc fingers and homeoboxes 1	350	Required for dimerization.|Required for interaction with NFYA.				cell differentiation (GO:0030154)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|protein heterodimerization activity (GO:0046982)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			breast(3)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(6)|liver(1)|lung(5)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	29	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			CCTTCTTGCCTCCTCTACTTC	0.413																																																0													237	203	215					8																	124267138		2203	4300	6503	SO:0001583	missense	11244			AF106862	CCDS6342.1	8q24.13	2012-03-09	2004-01-23		ENSG00000165156	ENSG00000165156		"Zinc fingers, C2H2-type", "Homeoboxes / ZF class"	12871	protein-coding gene	gene with protein product		604764	"zinc-fingers and homeoboxes 1"			10441475	Standard	NM_001017926		Approved		uc003yqe.3	Q9UKY1	OTTHUMG00000165088	ENST00000522655.1:c.1049A>G	8.37:g.124267138T>C	ENSP00000428821:p.Glu350Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IWD8	Missense_Mutation	SNP	ENST00000522655.1	37	CCDS6342.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	17.66|17.66	3.445777|3.445777	0.63178|0.63178	.|.	.|.	ENSG00000165156|ENSG00000165156	ENST00000297857;ENST00000395571;ENST00000522655|ENST00000520474	T;T;T|.	0.31247|.	1.5;1.5;1.5|.	5.8|5.8	5.8|5.8	0.92144|0.92144	Homeodomain-related (1);Homeodomain-like (1);|.	0.154395|.	0.56097|.	D|.	0.000027|.	T|T	0.73048|0.73048	0.3537|0.3537	.|.	.|.	.|.	0.54753|0.54753	D|D	0.999989|0.999989	P|.	0.50710|.	0.938|.	P|.	0.49140|.	0.601|.	T|T	0.72243|0.72243	-0.4350|-0.4350	9|4	0.87932|.	D|.	0|.	-14.3997|-14.3997	16.1404|16.1404	0.81517|0.81517	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	350|.	Q9UKY1|.	ZHX1_HUMAN|.	G|G	350|35	ENSP00000297857:E350G;ENSP00000378938:E350G;ENSP00000428821:E350G|.	ENSP00000297857:E350G|.	E|R	-|-	2|1	0|2	ZHX1|ZHX1	124336319|124336319	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.929000|0.929000	0.56500|0.56500	6.286000|6.286000	0.72665|0.72665	2.210000|2.210000	0.71456|0.71456	0.454000|0.454000	0.30748|0.30748	GAG|AGG		0.413	ZHX1-003	KNOWN	alternative_5_UTR|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000381759.1			C	124267138	T	C	124267138	3	2	671	1	0	0	0	0	1	0	0	0	17687	1551	54	3	1576	3	ZHX1	8	124267138	Missense_Mutation	SNP	T	TCGA-KN-8435-01A-11D-2310-10		124267138	22096884	32	43152										
CBWD6	644019	broad.mit.edu	37	chr9	69256826	69256827	+	Frame_Shift_Ins	INS	-	-	C													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	gaggcaaccgtttctaagttINSccagccactcttcatagagc							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr9:69256826_69256827insC	ENST00000377457.5	-	3	409_410	c.304_305insG	c.(304-306)gaafs	p.E102fs	CBWD6_ENST00000377441.1_Frame_Shift_Ins_p.E102fs|CBWD6_ENST00000377449.1_Frame_Shift_Ins_p.E66fs|CBWD6_ENST00000382399.4_Frame_Shift_Ins_p.E102fs	NM_001085457.1	NP_001078926.1	Q4V339	CBWD6_HUMAN	COBW domain containing 6	102							ATP binding (GO:0005524)			lung(4)	4						GTTTCTAAGTTCCAGCCACTCT	0.376																																																0																																										SO:0001589	frameshift_variant	644019				CCDS43827.1	9q13	2006-06-30			ENSG00000204790	ENSG00000204790			31978	protein-coding gene	gene with protein product							Standard	NM_001085457		Approved	OTTHUMG00000066820	uc004afj.4	Q4V339	OTTHUMG00000066820	ENST00000377457.5:c.305dupG	9.37:g.69256828_69256828dupC	ENSP00000366677:p.Glu102fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000377457.5	37	CCDS43827.1																																																																																				0.376	CBWD6-001	KNOWN	non_canonical_polymorphism|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000143172.2	XM_928822		C	69256827	-	C	69256826	7	5	671	1	0	1	1	0	0	0	0	0	2718	1783	62	0	934	0	CBWD6	9	69256826	Frame_Shift_Ins	INS	-	TCGA-KN-8435-01A-11D-2310-10		69256826	71956605	33	43153										
WNK2	65268	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr9	95991992	95991992	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ctgtaggaccggaagctcacCaagctggagcggcagcggtt	15	11	1	0			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr9:95991992C>G	ENST00000297954.4	+	2	696	c.696C>G	c.(694-696)acC>acG	p.T232T	WNK2_ENST00000427277.2_5'UTR|WNK2_ENST00000395475.2_Silent_p.T218T|WNK2_ENST00000395477.2_Silent_p.T232T|WNK2_ENST00000356055.3_5'UTR|WNK2_ENST00000349097.3_5'UTR	NM_001282394.1	NP_001269323.1	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	232	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				intracellular signal transduction (GO:0035556)|negative regulation of cell proliferation (GO:0008285)|negative regulation of ERK1 and ERK2 cascade (GO:0070373)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of ion homeostasis (GO:2000021)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|central_nervous_system(1)|endometrium(11)|kidney(4)|large_intestine(5)|lung(17)|ovary(2)|prostate(3)|skin(4)|stomach(3)|upper_aerodigestive_tract(2)	54						GGAAGCTCACCAAGCTGGAGC	0.602																																																0													41	32	35					9																	95991992		2203	4299	6502	SO:0001819	synonymous_variant	65268			AJ242724	CCDS75858.1	9q22.3	2008-02-05	2003-06-23	2005-01-22	ENSG00000165238	ENSG00000165238			14542	protein-coding gene	gene with protein product		606249	"serologically defined colon cancer antigen 43"	SDCCAG43, PRKWNK2		9610721, 11571656	Standard	NM_006648		Approved	NY-CO-43, KIAA1760	uc004atj.3	Q9Y3S1	OTTHUMG00000020247	ENST00000297954.4:c.696C>G	9.37:g.95991992C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VWF1|Q5VWF2|Q8IY36|Q9C0A3|Q9H3P4	Silent	SNP	ENST00000297954.4	37		.	.	.	.	.	.	.	.	.	.	C	8.729	0.916153	0.17907	.	.	ENSG00000165238	ENST00000432730	.	.	.	5.53	3.54	0.40534	.	.	.	.	.	T	0.53222	0.1783	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.49670	-0.8915	4	.	.	.	.	5.3031	0.15790	0.1937:0.6167:0.1065:0.0831	.	.	.	.	R	228	.	.	P	+	2	0	WNK2	95031813	0.199000	0.23386	1.000000	0.80357	0.973000	0.67179	-0.382000	0.07408	1.354000	0.45846	-0.126000	0.14955	CCA		0.602	WNK2-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000317359.1	NM_006648		G	95991992	C	G	95991992	2	3	671	1	0	0	0	0	0	0	0	1	17390	581	21	4		4	WNK2	9	95991992	Silent	SNP	C	TCGA-KN-8435-01A-11D-2310-10	26735166	95991992	45221439	34	43154										
STAM	8027	broad.mit.edu	37	chr10	17756602	17756603	+	In_Frame_Ins	INS	-	-	CCC													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	aggcgccagtatatagtcctINScctcctgccgctactgctgc							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr10:17756602_17756603insCCC	ENST00000377524.3	+	14	1661_1662	c.1446_1447insCCC	c.(1447-1449)cct>CCCcct	p.483_483P>PP	STAM_ENST00000540523.1_In_Frame_Ins_p.372_372P>PP	NM_003473.3	NP_003464.1	Q92783	STAM1_HUMAN	signal transducing adaptor molecule (SH3 domain and ITAM motif) 1	483					endosomal transport (GO:0016197)|epidermal growth factor receptor signaling pathway (GO:0007173)|intracellular protein transport (GO:0006886)|membrane organization (GO:0061024)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|positive regulation of signal transduction (GO:0009967)|signal transduction (GO:0007165)	cytosol (GO:0005829)|endosome (GO:0005768)|membrane (GO:0016020)	SH3/SH2 adaptor activity (GO:0005070)			breast(2)|endometrium(4)|kidney(2)|large_intestine(3)|lung(11)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	26						TATATAGTCCTCCTCCTGCCGC	0.47																																																0																																										SO:0001652	inframe_insertion	8027			U43899	CCDS7122.1	10p14-p13	2009-04-29			ENSG00000136738	ENSG00000136738			11357	protein-coding gene	gene with protein product	"HSE1 homolog (S. cerevisiae)"	601899				8780729	Standard	NM_003473		Approved	STAM1	uc001ipj.2	Q92783	OTTHUMG00000017749	Exception_encountered	10.37:g.17756602_17756603insCCC	ENSP00000366746:p.Pro484dup	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ99|D3DRU5|Q8N6D9	In_Frame_Ins	INS	ENST00000377524.3	37	CCDS7122.1																																																																																				0.47	STAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047039.1	NM_003473		CCC	17756603	-	CCC	17756602	7	5	671	1	0	1	1	0	0	0	0	0	15260	1538	54	0	1500	0	STAM	10	17756602	In_Frame_Ins	INS	-	TCGA-KN-8435-01A-11D-2310-10		17756602	117778145	35	43155										
ANUBL1	93550	broad.mit.edu	37	chr10	46122460	46122460	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ttgaccaatgttggggaggaCccttaacaatcggtggcgag	14	8	0	1			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr10:46122460C>A	ENST00000344646.5	-	7	1026	c.811G>T	c.(811-813)Gtc>Ttc	p.V271F	ZFAND4_ENST00000374371.2_Intron|ZFAND4_ENST00000374370.1_5'UTR|ZFAND4_ENST00000374366.3_Missense_Mutation_p.V197F	NM_001128324.2|NM_174890.2	NP_001121796.1|NP_777550.2	Q86XD8	ZFAN4_HUMAN	zinc finger, AN1-type domain 4	271							zinc ion binding (GO:0008270)										TTGGGGAGGACCCTTAACAAT	0.478																																																0													90	83	85					10																	46122460		2203	4300	6503	SO:0001583	missense	93550			AF311324	CCDS7214.1, CCDS60520.1	10q11.22	2013-01-09	2011-11-10	2011-11-10	ENSG00000172671	ENSG00000172671		"Zinc fingers, AN1-type domain containing"	23504	protein-coding gene	gene with protein product			"AN1, ubiquitin-like, homolog (Xenopus laevis)"	ANUBL1			Standard	XM_005271837		Approved	FLJ40185	uc001jcp.4	Q86XD8	OTTHUMG00000018085	ENST00000344646.5:c.811G>T	10.37:g.46122460C>A	ENSP00000339484:p.Val271Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8V4|B2RAX2|Q5VVY5	Missense_Mutation	SNP	ENST00000344646.5	37	CCDS7214.1	.	.	.	.	.	.	.	.	.	.	C	22.5	4.293016	0.80914	.	.	ENSG00000172671	ENST00000344646;ENST00000374366;ENST00000374370	T;T	0.26373	1.74;1.75	5.47	5.47	0.80525	.	2.576260	0.02078	N	0.052100	T	0.50394	0.1613	L	0.61218	1.895	0.52099	D	0.999947	D	0.63880	0.993	P	0.55871	0.786	T	0.12528	-1.0544	10	0.44086	T	0.13	-35.2232	16.8259	0.85931	0.0:1.0:0.0:0.0	.	271	Q86XD8	ANUB1_HUMAN	F	271;197;153	ENSP00000339484:V271F;ENSP00000363486:V197F	ENSP00000339484:V271F	V	-	1	0	ANUBL1	45442466	1.000000	0.71417	0.997000	0.53966	0.747000	0.42532	3.284000	0.51708	2.574000	0.86865	0.650000	0.86243	GTC		0.478	ZFAND4-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047790.1	NM_174890		A	46122460	C	A	46122460	3	1	671	1	0	0	0	0	1	0	0	0	713	507	18	4	1388	4	ANUBL1	10	46122460	Missense_Mutation	SNP	C	TCGA-KN-8435-01A-11D-2310-10	28365858	46122460	89412287	36	43156										
CHAT	1103	ucsc.edu	37	chr10	50827861	50827861	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	tggtgtctgaggagcagttcAggaagagccaggccattgtg	16	7	2	2			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr10:50827861A>G	ENST00000337653.2	+	3	631	c.478A>G	c.(478-480)Agg>Ggg	p.R160G	CHAT_ENST00000351556.3_Missense_Mutation_p.R42G|CHAT_ENST00000455728.2_Missense_Mutation_p.R42G|CHAT_ENST00000395562.2_Missense_Mutation_p.R78G|CHAT_ENST00000395559.2_Missense_Mutation_p.R42G|CHAT_ENST00000460699.1_3'UTR|CHAT_ENST00000339797.1_Missense_Mutation_p.R42G	NM_001142929.1|NM_020549.4	NP_001136401.1|NP_065574	P28329	CLAT_HUMAN	choline O-acetyltransferase	160					adult walking behavior (GO:0007628)|dendrite development (GO:0016358)|establishment of synaptic specificity at neuromuscular junction (GO:0007529)|glycerophospholipid biosynthetic process (GO:0046474)|muscle organ development (GO:0007517)|neuromuscular synaptic transmission (GO:0007274)|neurotransmitter biosynthetic process (GO:0042136)|neurotransmitter secretion (GO:0007269)|phosphatidylcholine biosynthetic process (GO:0006656)|phospholipid metabolic process (GO:0006644)|rhythmic behavior (GO:0007622)|rhythmic excitation (GO:0043179)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|mitochondrion (GO:0005739)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)	choline O-acetyltransferase activity (GO:0004102)			central_nervous_system(3)|endometrium(2)|kidney(2)|large_intestine(11)|lung(34)|prostate(3)|urinary_tract(1)	56		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)|Nicotine(DB00184)	GGAGCAGTTCAGGAAGAGCCA	0.632																																																0													44	40	41					10																	50827861		2203	4300	6503	SO:0001583	missense	1103			AF305907	CCDS7232.1, CCDS7233.1, CCDS44389.1	10q11.2	2010-05-11	2010-05-11		ENSG00000070748	ENSG00000070748	2.3.1.6		1912	protein-coding gene	gene with protein product		118490	"choline acetyltransferase"			1840566	Standard	NM_020984		Approved		uc001jhz.2	P28329	OTTHUMG00000018198	ENST00000337653.2:c.478A>G	10.37:g.50827861A>G	ENSP00000337103:p.Arg160Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A2BDF4|A2BDF5|Q16488|Q9BQ23|Q9BQ35|Q9BQE1	Missense_Mutation	SNP	ENST00000337653.2	37	CCDS7232.1	.	.	.	.	.	.	.	.	.	.	A	8.218	0.801776	0.16397	.	.	ENSG00000070748	ENST00000339797;ENST00000351556;ENST00000395559;ENST00000337653;ENST00000395562;ENST00000455728	D;D;D;D;D;D	0.89746	-2.56;-2.56;-2.56;-2.56;-2.56;-2.56	5.09	-4.98	0.03019	.	0.478897	0.22326	N	0.061530	D	0.82554	0.5062	L	0.39898	1.24	0.25002	N	0.991467	B;B	0.32409	0.016;0.37	B;B	0.29785	0.036;0.107	T	0.65907	-0.6054	10	0.42905	T	0.14	-7.1764	19.9976	0.97389	0.2201:0.7798:0.0:0.0	.	42;160	F8W8I2;P28329	.;CLAT_HUMAN	G	42;42;42;160;78;42	ENSP00000343486:R42G;ENSP00000345878:R42G;ENSP00000378926:R42G;ENSP00000337103:R160G;ENSP00000378929:R78G;ENSP00000390521:R42G	ENSP00000337103:R160G	R	+	1	2	CHAT	50497867	0.001000	0.12720	0.308000	0.25141	0.027000	0.11550	0.124000	0.15728	-0.730000	0.04869	-0.648000	0.03929	AGG		0.632	CHAT-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000047997.1	NM_020549		G	50827861	A	G	50827861	3	3	671	1	0	0	0	0	1	0	0	0	3315	179	7	3	532	3	CHAT	10	50827861	Missense_Mutation	SNP	A	TCGA-KN-8435-01A-11D-2310-10	4705401	50827861	84706886	37	43157										
JAKMIP3	282973	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	133955457	133955457	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	aggagacggagctgaggttcCggcagctgaccatggagtac	16	9	0	3	rs374251347		TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr10:133955457C>T	ENST00000298622.4	+	10	1645	c.1507C>T	c.(1507-1509)Cgg>Tgg	p.R503W		NM_001105521.2	NP_001098991.1	Q5VZ66	JKIP3_HUMAN	Janus kinase and microtubule interacting protein 3	503						Golgi apparatus (GO:0005794)				breast(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(7)|lung(10)|ovary(2)|prostate(1)|upper_aerodigestive_tract(2)	31		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)		GCTGAGGTTCCGGCAGCTGAC	0.607																																																0								C	TRP/ARG	0,4398		0,0,2199	97	64	75		1507	1.9	1	10		75	1,8587		0,1,4293	no	missense	JAKMIP3	NM_001105521.2	101	0,1,6492	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	503/845	133955457	1,12985	2199	4294	6493	SO:0001583	missense	282973			AL832756	CCDS44494.1	10q26.3	2009-04-23	2009-04-23	2008-01-28	ENSG00000188385	ENSG00000188385			23523	protein-coding gene	gene with protein product	"neuroendocrine long coiled-coil 2"	611198	"chromosome 10 open reading frame 39", "chromosome 10 open reading frame 14"	C10orf39, C10orf14		15277531, 17572408	Standard	NM_001105521		Approved	FLJ37857, NECC2, KIAA4091, bA140A10.5	uc001lkx.4	Q5VZ66	OTTHUMG00000150167	ENST00000298622.4:c.1507C>T	10.37:g.133955457C>T	ENSP00000298622:p.Arg503Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A6PW00|Q69YM6|Q6ZT29	Missense_Mutation	SNP	ENST00000298622.4	37	CCDS44494.1	.	.	.	.	.	.	.	.	.	.	C	23.4	4.407340	0.83230	0.0	1.16E-4	ENSG00000188385	ENST00000298622	T	0.26810	1.71	3.87	1.94	0.25998	.	0.244823	0.33092	N	0.005282	T	0.42720	0.1215	M	0.64404	1.975	0.51012	D	0.999909	D	0.89917	1.0	D	0.91635	0.999	T	0.21793	-1.0235	10	0.72032	D	0.01	-22.0753	8.153	0.31152	0.1571:0.7586:0.0:0.0844	.	503	Q5VZ66	JKIP3_HUMAN	W	503	ENSP00000298622:R503W	ENSP00000298622:R503W	R	+	1	2	JAKMIP3	133805447	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.309000	0.59135	0.405000	0.25532	0.561000	0.74099	CGG		0.607	JAKMIP3-001	KNOWN	NMD_exception|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051049.3	NM_194303		T	133955457	C	T	133955457	3	4	671	1	0	0	0	0	1	0	0	0	7949	643	23	1	1545	1	JAKMIP3	10	133955457	Missense_Mutation	SNP	C	TCGA-KN-8435-01A-11D-2310-10	83127596	133955457	1579290	38	43158										
MUC6	4588	mdanderson.org	37	chr11	1018314	1018314	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ttattggtggggctgtgtggGtggaccctgtggccttgagc	18	7	0	1	rs200089063		TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr11:1018314G>A	ENST00000421673.2	-	31	4537	c.4487C>T	c.(4486-4488)aCc>aTc	p.T1496I		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1496	Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GGCTGTGTGGGTGGACCCTGT	0.572																																																0													279	289	286					11																	1018314		2189	4269	6458	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4487C>T	11.37:g.1018314G>A	ENSP00000406861:p.Thr1496Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	7.706	0.694199	0.15039	.	.	ENSG00000184956	ENST00000421673	T	0.20738	2.05	2.45	2.45	0.29901	.	.	.	.	.	T	0.26159	0.0638	L	0.59436	1.845	0.09310	N	1	D	0.54964	0.969	P	0.47162	0.54	T	0.08617	-1.0713	9	0.37606	T	0.19	.	11.017	0.47696	0.0:0.0:1.0:0.0	.	1496	Q6W4X9	MUC6_HUMAN	I	1496	ENSP00000406861:T1496I	ENSP00000406861:T1496I	T	-	2	0	MUC6	1008314	0.042000	0.20092	0.002000	0.10522	0.024000	0.10985	0.803000	0.27083	1.326000	0.45319	0.313000	0.20887	ACC		0.572	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1018314	G	A	1018314	3	1	671	1	0	0	0	0	1	0	0	0	9987	1261	44	2	2844	2	MUC6	11	1018314	Missense_Mutation	SNP	G	TCGA-KN-8435-01A-11D-2310-10		1018314	133988202	39	43159										
KRTAP5-2	440021	mdanderson.org	37	chr11	1619368	1619368	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	agcccccacagccagagccaCagcccccacggccggagcca	10	21	0	1			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr11:1619368C>T	ENST00000412090.1	-	1	156	c.113G>A	c.(112-114)tGt>tAt	p.C38Y	KRTAP5-AS1_ENST00000532922.1_RNA|KRTAP5-AS1_ENST00000424148.1_RNA|KRTAP5-AS1_ENST00000524947.1_RNA|KRTAP5-AS1_ENST00000534077.1_RNA	NM_001004325.1	NP_001004325.1	Q701N4	KRA52_HUMAN	keratin associated protein 5-2	38						keratin filament (GO:0045095)				large_intestine(1)|lung(2)|skin(1)	4		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)		GCCAGAGCCACAGCCCCCACG	0.687																																																0													31	39	36					11																	1619368		2173	4229	6402	SO:0001583	missense	440021			AB126071	CCDS31331.1	11p15.5	2008-02-05				ENSG00000205867		"Keratin associated proteins"	23597	protein-coding gene	gene with protein product						15144888	Standard	NM_001004325		Approved	KRTAP5.2, KRTAP5-8	uc001ltv.3	Q701N4		ENST00000412090.1:c.113G>A	11.37:g.1619368C>T	ENSP00000400041:p.Cys38Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A9JTZ1	Missense_Mutation	SNP	ENST00000412090.1	37	CCDS31331.1	.	.	.	.	.	.	.	.	.	.	-	11.10	1.540016	0.27563	.	.	ENSG00000205867	ENST00000412090	T	0.01178	5.22	.	.	.	.	.	.	.	.	T	0.01800	0.0057	L	0.46157	1.445	0.21915	N	0.999477	.	.	.	.	.	.	T	0.45585	-0.9251	5	0.87932	D	0	.	.	.	.	.	38	Q701N4	KRA52_HUMAN	Y	38	ENSP00000400041:C38Y	ENSP00000400041:C38Y	C	-	2	0	KRTAP5-2	1575944	0.976000	0.34144	0.670000	0.29842	0.641000	0.38312	3.989000	0.56958	0.000000	0.14550	0.000000	0.15137	TGT		0.687	KRTAP5-2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384775.1	NM_001004325		T	1619368	C	T	1619368	3	4	671	1	0	0	0	0	1	0	0	0	8568	478	17	2	424	2	KRTAP5-2	11	1619368	Missense_Mutation	SNP	C	TCGA-KN-8435-01A-11D-2310-10	601054	1619368	133387148	40	43160										
OR6A2	8590	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr11	6816462	6816462	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	aaaaactttgaccatggagaTgccaaaacctccagcccaag	7	12	0	2			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr11:6816462T>G	ENST00000332601.3	-	1	666	c.478A>C	c.(478-480)Atc>Ctc	p.I160L		NM_003696.2	NP_003687.2	O95222	OR6A2_HUMAN	olfactory receptor, family 6, subfamily A, member 2	160					detection of chemical stimulus involved in sensory perception of smell (GO:0050911)|sensory perception of smell (GO:0007608)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(2)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(4)|pancreas(1)|skin(1)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(2)	29		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		ACCATGGAGATGCCAAAACCT	0.502																																																0													91	89	89					11																	6816462		2201	4296	6497	SO:0001583	missense	8590			AB065822	CCDS7772.1	11p15.4	2012-08-09		2004-03-10	ENSG00000184933	ENSG00000184933		"GPCR / Class A : Olfactory receptors"	15301	protein-coding gene	gene with protein product		608495		OR6A2P, OR6A1			Standard	NM_003696		Approved	OR11-55	uc001mes.1	O95222	OTTHUMG00000165736	ENST00000332601.3:c.478A>C	11.37:g.6816462T>G	ENSP00000330384:p.Ile160Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MJC7|Q6IF35|Q9H206	Missense_Mutation	SNP	ENST00000332601.3	37	CCDS7772.1	.	.	.	.	.	.	.	.	.	.	T	18.05	3.538105	0.65085	.	.	ENSG00000184933	ENST00000332601	T	0.35236	1.32	5.07	2.75	0.32379	GPCR, rhodopsin-like superfamily (1);	0.220980	0.31246	N	0.007994	T	0.28167	0.0695	N	0.21324	0.655	0.27374	N	0.955607	P	0.45569	0.861	P	0.51918	0.684	T	0.11616	-1.0580	10	0.10902	T	0.67	.	6.5696	0.22531	0.0:0.2741:0.0:0.7259	.	160	O95222	OR6A2_HUMAN	L	160	ENSP00000330384:I160L	ENSP00000330384:I160L	I	-	1	0	OR6A2	6773038	0.000000	0.05858	0.973000	0.42090	0.965000	0.64279	-0.619000	0.05572	0.503000	0.28060	0.533000	0.62120	ATC		0.502	OR6A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385981.1	NM_003696		G	6816462	T	G	6816462	3	3	671	1	0	0	0	0	1	0	0	0	11193	1464	51	5	509	5	OR6A2	11	6816462	Missense_Mutation	SNP	T	TCGA-KN-8435-01A-11D-2310-10	5197094	6816462	128190054	41	43161										
OR1S1	219959	broad.mit.edu;mdanderson.org	37	chr11	57982414	57982414	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	gtggctatcagcttggatacGtaccttcatacccccatgta	8	12	2	0	rs386753888|rs111386724	byFrequency	TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr11:57982414G>A	ENST00000309433.6	+	1	198	c.198G>A	c.(196-198)acG>acA	p.T66T		NM_001004458.1	NP_001004458.1	Q8NH92	OR1S1_HUMAN	olfactory receptor, family 1, subfamily S, member 1	66						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.T66T(1)		breast(1)|central_nervous_system(1)|endometrium(24)|kidney(1)|large_intestine(1)|liver(1)|lung(10)|prostate(1)|skin(2)|stomach(3)|urinary_tract(3)	48		Breast(21;0.0589)				GCTTGGATACGTACCTTCATA	0.443													G|||	4	0.000798722	0.0008	0.0	5008	,	,		20373	0.0		0.003	False		,,,				2504	0.0															1	Substitution - coding silent(1)	endometrium(1)						G		2,4400	4.2+/-10.8	0,2,2199	327	300	309		198	-6.9	0	11	dbSNP_132	309	22,8570	16.0+/-53.3	0,22,4274	no	coding-synonymous	OR1S1	NM_001004458.1		0,24,6473	AA,AG,GG		0.2561,0.0454,0.1847		66/326	57982414	24,12970	2201	4296	6497	SO:0001819	synonymous_variant	219959			BK004299	CCDS31546.1	11q12.1	2012-08-09			ENSG00000172774	ENSG00000172774		"GPCR / Class A : Olfactory receptors"	8227	protein-coding gene	gene with protein product							Standard	NM_001004458		Approved	OST034	uc010rkc.2	Q8NH92	OTTHUMG00000167463	ENST00000309433.6:c.198G>A	11.37:g.57982414G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFG3	Silent	SNP	ENST00000309433.6	37	CCDS31546.1																																																																																				0.443	OR1S1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394705.1	NM_001004458		A	57982414	G	A	57982414	2	1	671	1	0	0	0	0	0	0	0	1	10979	1132	40	1		1	OR1S1	11	57982414	Silent	SNP	G	TCGA-KN-8435-01A-11D-2310-10	51165952	57982414	77024102	42	43162										
KRTAP5-10	387273	mdanderson.org	37	chr11	71276876	71276876	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ggctcttgtgggggctccaaAgggggctgtggttcctgtgg	19	8	1	0	rs12788123		TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr11:71276876A>G	ENST00000398531.1	+	1	268	c.243A>G	c.(241-243)aaA>aaG	p.K81K	KRTAP5-10_ENST00000376536.4_Intron	NM_001012710.1	NP_001012728.1	Q6L8G5	KR510_HUMAN	keratin associated protein 5-10	81	7 X 4 AA repeats of C-C-X-P.					keratin filament (GO:0045095)		p.K81K(1)		endometrium(2)|large_intestine(1)|lung(4)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	12						GGGGCTCCAAAGGGGGCTGTG	0.682																																																1	Substitution - coding silent(1)	endometrium(1)											51	72	65					11																	71276876		2140	4257	6397	SO:0001819	synonymous_variant	387273			AB126079	CCDS41684.1	11q13.4	2008-02-05			ENSG00000204572	ENSG00000204572		"Keratin associated proteins"	23605	protein-coding gene	gene with protein product						15144888	Standard	NM_001012710		Approved	KRTAP5.10	uc001oqt.1	Q6L8G5	OTTHUMG00000057585	ENST00000398531.1:c.243A>G	11.37:g.71276876A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B9EHA4	Silent	SNP	ENST00000398531.1	37	CCDS41684.1																																																																																				0.682	KRTAP5-10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000127968.2			G	71276876	A	G	71276876	2	3	671	1	0	0	0	0	0	0	0	1	8566	69	3	3		3	KRTAP5-10	11	71276876	Silent	SNP	A	TCGA-KN-8435-01A-11D-2310-10	13294462	71276876	63729640	43	43163										
ATM	472	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	108126988	108126988	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	gtgttcacgtcttttggtggGtgtccttggctgctactgtt	13	8	2	0			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr11:108126988G>T	ENST00000452508.2	+	15	2360	c.2171G>T	c.(2170-2172)gGt>gTt	p.G724V	ATM_ENST00000278616.4_Missense_Mutation_p.G724V			Q13315	ATM_HUMAN	ATM serine/threonine kinase	724					brain development (GO:0007420)|cell cycle arrest (GO:0007050)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to gamma radiation (GO:0071480)|DNA damage induced protein phosphorylation (GO:0006975)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|heart development (GO:0007507)|histone mRNA catabolic process (GO:0071044)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|lipoprotein catabolic process (GO:0042159)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of B cell proliferation (GO:0030889)|neuron apoptotic process (GO:0051402)|oocyte development (GO:0048599)|peptidyl-serine phosphorylation (GO:0018105)|phosphatidylinositol-3-phosphate biosynthetic process (GO:0036092)|positive regulation of apoptotic process (GO:0043065)|positive regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043517)|positive regulation of neuron apoptotic process (GO:0043525)|pre-B cell allelic exclusion (GO:0002331)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|reciprocal meiotic recombination (GO:0007131)|replicative senescence (GO:0090399)|response to hypoxia (GO:0001666)|response to ionizing radiation (GO:0010212)|signal transduction (GO:0007165)|signal transduction involved in mitotic G2 DNA damage checkpoint (GO:0072434)|somitogenesis (GO:0001756)|telomere maintenance (GO:0000723)	cytoplasmic vesicle (GO:0031410)|nucleoplasm (GO:0005654)|spindle (GO:0005819)	1-phosphatidylinositol-3-kinase activity (GO:0016303)|ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA-dependent protein kinase activity (GO:0004677)|histone serine kinase activity (GO:0035174)|protein complex binding (GO:0032403)|protein dimerization activity (GO:0046983)|protein N-terminus binding (GO:0047485)|protein serine/threonine kinase activity (GO:0004674)			NS(4)|breast(23)|central_nervous_system(11)|endometrium(10)|haematopoietic_and_lymphoid_tissue(227)|kidney(19)|large_intestine(53)|liver(5)|lung(62)|ovary(6)|pancreas(4)|prostate(13)|skin(4)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	448		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)	Caffeine(DB00201)	CTTTTGGTGGGTGTCCTTGGC	0.328			"D, Mis, N, F, S"		T-PLL	"leukemia, lymphoma, medulloblastoma, glioma"		Genes defective in diseases associated with sensitivity to DNA damaging agents	Ataxia Telangiectasia	TSP Lung(14;0.12)																												yes	Rec	yes	Ataxia-telangiectasia	11	11q22.3	472	ataxia telangiectasia mutated		"L, O"	0													101	98	99					11																	108126988		2201	4298	6499	SO:0001583	missense	472	Familial Cancer Database	AT, Louis-Bar syndrome	AB209133	CCDS31669.1	11q22-q23	2014-09-17	2014-06-17		ENSG00000149311	ENSG00000149311			795	protein-coding gene	gene with protein product	"TEL1, telomere maintenance 1, homolog (S. cerevisiae)"	607585	"ataxia telangiectasia mutated (includes complementation groups A, C and D)", "ataxia telangiectasia mutated"	ATA, ATDC, ATC, ATD			Standard	XM_005271561		Approved	TEL1, TELO1	uc001pkb.1	Q13315	OTTHUMG00000166480	ENST00000452508.2:c.2171G>T	11.37:g.108126988G>T	ENSP00000388058:p.Gly724Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNX5|O15429|Q12758|Q16551|Q93007|Q9NP02|Q9UCX7	Missense_Mutation	SNP	ENST00000452508.2	37	CCDS31669.1	.	.	.	.	.	.	.	.	.	.	G	19.88	3.908296	0.72868	.	.	ENSG00000149311	ENST00000527805;ENST00000278616;ENST00000452508	T;T;T	0.77358	-1.09;-1.09;-1.09	5.45	4.54	0.55810	Armadillo-type fold (1);	0.053429	0.85682	D	0.000000	D	0.85643	0.5744	M	0.69823	2.125	0.58432	D	0.999999	D	0.69078	0.997	D	0.64687	0.928	D	0.86131	0.1575	10	0.46703	T	0.11	.	14.6376	0.68702	0.0705:0.0:0.9295:0.0	.	724	Q13315	ATM_HUMAN	V	724	ENSP00000435747:G724V;ENSP00000278616:G724V;ENSP00000388058:G724V	ENSP00000278616:G724V	G	+	2	0	ATM	107632198	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	5.760000	0.68793	1.432000	0.47375	0.557000	0.71058	GGT		0.328	ATM-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389938.1	NM_000051		T	108126988	G	T	108126988	3	4	671	1	0	0	0	0	1	0	0	0	1109	1261	44	4	2221	4	ATM	11	108126988	Missense_Mutation	SNP	G	TCGA-KN-8435-01A-11D-2310-10	36850112	108126988	26879528	44	43164										
SIK2	23235	broad.mit.edu	37	chr11	111594331	111594332	+	Frame_Shift_Ins	INS	-	-	C													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	caagtcagcagctgccccttINSccccgccaggagactccacc							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr11:111594331_111594332insC	ENST00000304987.3	+	15	2432_2433	c.2259_2260insC	c.(2260-2262)cccfs	p.P754fs		NM_015191.1	NP_056006.1	Q9H0K1	SIK2_HUMAN	salt-inducible kinase 2	754					insulin receptor signaling pathway (GO:0008286)|intracellular signal transduction (GO:0035556)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of insulin receptor signaling pathway (GO:0046626)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|central_nervous_system(2)|cervix(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(5)|lung(7)|prostate(3)|skin(1)|upper_aerodigestive_tract(3)	30						AGCTGCCCCTTCCCCGCCAGGA	0.589																																																0																																										SO:0001589	frameshift_variant	23235			AB018324	CCDS8347.1	11q23.1	2008-12-23	2008-12-23	2008-12-23	ENSG00000170145	ENSG00000170145			21680	protein-coding gene	gene with protein product		608973	"SNF1-like kinase 2"	SNF1LK2		15067358	Standard	NM_015191		Approved	KIAA0781, QIK, DKFZp434K1115, LOH11CR1I	uc001plt.3	Q9H0K1	OTTHUMG00000150644	ENST00000304987.3:c.2263dupC	11.37:g.111594335_111594335dupC	ENSP00000305976:p.Pro754fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5B8|B0YJ94|O94878|Q17RV0|Q6AZE2|Q76N03|Q8NCV7|Q96CZ8	Frame_Shift_Ins	INS	ENST00000304987.3	37	CCDS8347.1																																																																																				0.589	SIK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319352.3	NM_015191		C	111594332	-	C	111594331	7	5	671	1	0	1	1	0	0	0	0	0	14331	1770	62	0	2317	0	SIK2	11	111594331	Frame_Shift_Ins	INS	-	TCGA-KN-8435-01A-11D-2310-10	3467343	111594331	23412185	45	43165										
ALG9	79796	mdanderson.org	37	chr11	111657129	111657129	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	acaggtgtgttgctaacctcCacttttcttcctgatttgct	7	11	1	1	rs370840671		TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr11:111657129C>T	ENST00000531154.1	-	15	1808	c.1336G>A	c.(1336-1338)Gga>Aga	p.G446R	ALG9_ENST00000527228.1_5'UTR|ALG9_ENST00000524880.1_3'UTR|ALG9_ENST00000398006.2_Missense_Mutation_p.G439R	NM_024740.2	NP_079016.2	Q9H6U8	ALG9_HUMAN	ALG9, alpha-1,2-mannosyltransferase	610					cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	dol-P-Man:Man(6)GlcNAc(2)-PP-Dol alpha-1,2-mannosyltransferase activity (GO:0052926)|dol-P-Man:Man(8)GlcNAc(2)-PP-Dol alpha-1,2-mannosyltransferase activity (GO:0052918)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(6)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	16		all_cancers(61;2.34e-15)|all_epithelial(67;1.72e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;6.81e-07)|BRCA - Breast invasive adenocarcinoma(274;1.15e-06)|all cancers(92;1.3e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0587)		TGCTAACCTCCACTTTTCTTC	0.468																																																0								C	ARG/GLY,ARG/GLY,ARG/GLY,ARG/GLY	0,3976		0,0,1988	277	272	274		1829,1336,1315,1850	3.9	1	11		274	1,8321		0,1,4160	no	missense,missense,missense,missense	ALG9	NM_001077690.1,NM_001077691.1,NM_001077692.1,NM_024740.2	125,125,125,125	0,1,6148	TT,TC,CC		0.012,0.0,0.0081	possibly-damaging,possibly-damaging,possibly-damaging,possibly-damaging	610/612,446/448,439/441,617/619	111657129	1,12297	1988	4161	6149	SO:0001583	missense	79796				CCDS41714.1, CCDS53709.1, CCDS73379.1, CCDS73380.1	11q23	2013-02-26	2013-02-26	2004-08-26	ENSG00000086848	ENSG00000086848	2.4.1.259, 2.4.1.261	"Dolichyl D-mannosyl phosphate dependent mannosyltransferases"	15672	protein-coding gene	gene with protein product	"dolichyl-P-Man:Man(6)GlcNAc(2)-PP-dolichol alpha-1,2-mannosyltransferase", "dolichyl-P-Man:Man(8)GlcNAc(2)-PP-dolichol alpha-1,2-mannosyltransferase", "dol-P-Man dependent alpha-1,2-mannosyltransferase"	606941	"disrupted in bipolar affective disorder 1", "asparagine-linked glycosylation 9 homolog (yeast, alpha 1,2 mannosyltransferase)", "asparagine-linked glycosylation 9, alpha- 1,2-mannosyltransferase homolog (S. cerevisiae, alpha- 1,2-mannosyltransferase)", "asparagine-linked glycosylation 9, alpha-1,2-mannosyltransferase homolog (S. cerevisiae)"	DIBD1		12030331, 15148656	Standard	NM_024740		Approved		uc021qql.1	Q9H6U8	OTTHUMG00000166819	ENST00000531154.1:c.1336G>A	11.37:g.111657129C>T	ENSP00000435517:p.Gly446Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZMD5|Q7Z4R4|Q96GS7|Q96PB9|Q9H068	Missense_Mutation	SNP	ENST00000531154.1	37	CCDS41714.1	.	.	.	.	.	.	.	.	.	.	C	20.5	4.005992	0.74932	0.0	1.2E-4	ENSG00000086848	ENST00000531154;ENST00000398006;ENST00000428306	T;T	0.14022	2.54;2.54	5.87	3.9	0.45041	.	0.229782	0.45867	N	0.000334	T	0.11367	0.0277	N	0.22421	0.69	0.39048	D	0.960263	P;B	0.48016	0.904;0.005	P;B	0.45829	0.494;0.008	T	0.06110	-1.0845	10	0.72032	D	0.01	-6.6827	8.4076	0.32625	0.1537:0.767:0.0:0.0793	.	617;610	Q9H6U8-3;Q9H6U8	.;ALG9_HUMAN	R	446;439;843	ENSP00000435517:G446R;ENSP00000381090:G439R	ENSP00000381090:G439R	G	-	1	0	ALG9	111162339	0.938000	0.31826	0.987000	0.45799	0.996000	0.88848	2.670000	0.46833	1.633000	0.50488	0.655000	0.94253	GGA		0.468	ALG9-011	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000391485.1	NM_024740		T	111657129	C	T	111657129	3	4	671	1	0	0	0	0	1	0	0	0	524	603	21	2	11	2	ALG9	11	111657129	Missense_Mutation	SNP	C	TCGA-KN-8435-01A-11D-2310-10	62798	111657129	23349387	46	43166										
KCNA6	3742	mdanderson.org	37	chr12	4920387	4920387	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	tcatcctcttctccagtgccGtctacttcgcagaggctgac	8	15	4	2			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr12:4920387G>A	ENST00000280684.3	+	1	2046	c.1180G>A	c.(1180-1182)Gtc>Atc	p.V394I	RP11-234B24.4_ENST00000542988.1_lincRNA|KCNA6_ENST00000433855.1_Missense_Mutation_p.V394I			P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related subfamily, member 6	394					potassium ion transport (GO:0006813)|protein homooligomerization (GO:0051260)|synaptic transmission (GO:0007268)	plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|voltage-gated potassium channel activity (GO:0005249)			NS(1)|breast(3)|endometrium(5)|large_intestine(6)|lung(17)|ovary(3)|pancreas(1)|prostate(1)|skin(7)|upper_aerodigestive_tract(5)	49					Dalfampridine(DB06637)	CTCCAGTGCCGTCTACTTCGC	0.582										HNSCC(72;0.22)																																						0													118	100	106					12																	4920387		2203	4300	6503	SO:0001583	missense	3742			X17622	CCDS8534.1	12p13	2014-06-12						"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6225	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 96"	176257				16382104	Standard	NM_002235		Approved	Kv1.6, HBK2, PPP1R96	uc001qng.3	P17658		ENST00000280684.3:c.1180G>A	12.37:g.4920387G>A	ENSP00000280684:p.Val394Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000280684.3	37	CCDS8534.1	.	.	.	.	.	.	.	.	.	.	G	19.48	3.836332	0.71373	.	.	ENSG00000151079	ENST00000433855;ENST00000280684	D;D	0.97303	-4.33;-4.33	5.18	5.18	0.71444	Ion transport (1);	0.000000	0.85682	D	0.000000	D	0.94555	0.8246	N	0.20304	0.555	0.58432	D	0.999999	P	0.50443	0.935	P	0.46362	0.514	D	0.94785	0.7957	10	0.48119	T	0.1	.	17.8587	0.88775	0.0:0.0:1.0:0.0	.	394	P17658	KCNA6_HUMAN	I	394	ENSP00000408321:V394I;ENSP00000280684:V394I	ENSP00000280684:V394I	V	+	1	0	KCNA6	4790648	1.000000	0.71417	1.000000	0.80357	0.915000	0.54546	9.495000	0.97964	2.688000	0.91661	0.655000	0.94253	GTC		0.582	KCNA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398909.1	NM_002235		A	4920387	G	A	4920387	3	1	671	1	0	0	0	0	1	0	0	0	8014	1145	40	1	1182	1	KCNA6	12	4920387	Missense_Mutation	SNP	G	TCGA-KN-8435-01A-11D-2310-10		4920387	128931508	47	43167										
PRB2	653247	mdanderson.org	37	chr12	11546634	11546634	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ggaggaccttgaggctggttGcctccttgtgggggtggtcc	18	9	0	1			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr12:11546634G>A	ENST00000389362.4	-	3	413	c.378C>T	c.(376-378)ggC>ggT	p.G126G	PRB2_ENST00000545829.1_5'Flank|PRB1_ENST00000546254.1_Intron	NM_006248.3	NP_006239.3	P02812	PRB2_HUMAN	proline-rich protein BstNI subfamily 2	126	15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-P-Q-G-[GD]-[NKS]-[KSQ]- [PRS]-[QRS] [GPS]-[PSAR]-[PSR].					extracellular region (GO:0005576)				NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(14)|pancreas(1)|prostate(5)|skin(4)|stomach(2)|urinary_tract(1)	37		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			GAGGCTGGTTGCCTCCTTGTG	0.607																																																0													301	284	290					12																	11546634		2203	4300	6503	SO:0001819	synonymous_variant	653247			K03208	CCDS41757.2	12p13.2	2012-10-02			ENSG00000121335	ENSG00000121335			9338	protein-coding gene	gene with protein product		168810				8554050	Standard	NM_006248		Approved	PRPPRB1, Ps, cP7	uc010shk.1	P02812	OTTHUMG00000156975	ENST00000389362.4:c.378C>T	12.37:g.11546634G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O00599|P02811|P04281	Silent	SNP	ENST00000389362.4	37	CCDS41757.2																																																																																				0.607	PRB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346925.2	NM_006248		A	11546634	G	A	11546634	2	1	671	1	0	0	0	0	0	0	0	1	12453	1306	46	2		2	PRB2	12	11546634	Silent	SNP	G	TCGA-KN-8435-01A-11D-2310-10	6626247	11546634	122305261	48	43168										
LRRK2	120892	hgsc.bcm.edu	37	chr12	40707951	40707951	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	atgaaaatgagcttcctcacGcagttcactttctaaatgaa	6	9	3	3			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr12:40707951G>A	ENST00000298910.7	+	32	4772	c.4714G>A	c.(4714-4716)Gca>Aca	p.A1572T	LRRK2_ENST00000481256.1_3'UTR	NM_198578.3	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1572					activation of MAPK activity (GO:0000187)|activation of MAPKK activity (GO:0000186)|autophagy (GO:0006914)|cellular protein localization (GO:0034613)|cellular response to dopamine (GO:1903351)|cellular response to manganese ion (GO:0071287)|cellular response to oxidative stress (GO:0034599)|determination of adult lifespan (GO:0008340)|endocytosis (GO:0006897)|exploration behavior (GO:0035640)|GTP catabolic process (GO:0006184)|intracellular distribution of mitochondria (GO:0048312)|intracellular signal transduction (GO:0035556)|locomotory exploration behavior (GO:0035641)|MAPK cascade (GO:0000165)|negative regulation of GTPase activity (GO:0034260)|negative regulation of hydrogen peroxide-induced cell death (GO:1903206)|negative regulation of late endosome to lysosome transport (GO:1902823)|negative regulation of peroxidase activity (GO:2000469)|negative regulation of protein binding (GO:0032091)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of protein processing (GO:0010955)|negative regulation of protein processing involved in protein targeting to mitochondrion (GO:1903217)|negative regulation of protein targeting to mitochondrion (GO:1903215)|negative regulation of thioredoxin peroxidase activity by peptidyl-threonine phosphorylation (GO:1903125)|neuromuscular junction development (GO:0007528)|neuron death (GO:0070997)|neuron projection morphogenesis (GO:0048812)|olfactory bulb development (GO:0021772)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|positive regulation of autophagy (GO:0010508)|positive regulation of dopamine receptor signaling pathway (GO:0060161)|positive regulation of GTPase activity (GO:0043547)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of programmed cell death (GO:0043068)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein autoubiquitination (GO:1902499)|positive regulation of protein binding (GO:0032092)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein ubiquitination (GO:0031398)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|reactive oxygen species metabolic process (GO:0072593)|regulation of branching morphogenesis of a nerve (GO:2000172)|regulation of dendritic spine morphogenesis (GO:0061001)|regulation of dopamine receptor signaling pathway (GO:0060159)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of kidney size (GO:0035564)|regulation of locomotion (GO:0040012)|regulation of membrane potential (GO:0042391)|regulation of mitochondrial depolarization (GO:0051900)|regulation of neuroblast proliferation (GO:1902692)|regulation of neuron death (GO:1901214)|regulation of neuron maturation (GO:0014041)|regulation of protein kinase A signaling (GO:0010738)|regulation of synaptic transmission, glutamatergic (GO:0051966)|regulation of synaptic vesicle exocytosis (GO:2000300)|regulation of synaptic vesicle transport (GO:1902803)|response to oxidative stress (GO:0006979)|small GTPase mediated signal transduction (GO:0007264)|tangential migration from the subventricular zone to the olfactory bulb (GO:0022028)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytoplasmic side of mitochondrial outer membrane (GO:0032473)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|dendrite (GO:0030425)|dendrite cytoplasm (GO:0032839)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|inclusion body (GO:0016234)|lysosome (GO:0005764)|membrane raft (GO:0045121)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrial membrane (GO:0031966)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)|terminal bouton (GO:0043195)|trans-Golgi network (GO:0005802)	actin binding (GO:0003779)|ATP binding (GO:0005524)|clathrin binding (GO:0030276)|glycoprotein binding (GO:0001948)|GTP binding (GO:0005525)|GTP-dependent protein kinase activity (GO:0034211)|GTPase activator activity (GO:0005096)|GTPase activity (GO:0003924)|identical protein binding (GO:0042802)|ion channel binding (GO:0044325)|kinase activity (GO:0016301)|MAP kinase kinase activity (GO:0004708)|peroxidase inhibitor activity (GO:0036479)|protein homodimerization activity (GO:0042803)|protein kinase A binding (GO:0051018)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|Rho GTPase binding (GO:0017048)|SNARE binding (GO:0000149)|syntaxin-1 binding (GO:0017075)|tubulin binding (GO:0015631)	p.A1572T(2)		NS(3)|biliary_tract(1)|breast(6)|central_nervous_system(2)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(23)|large_intestine(31)|lung(55)|ovary(15)|pancreas(2)|prostate(4)|skin(4)|stomach(9)|upper_aerodigestive_tract(7)|urinary_tract(2)	181	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				GCTTCCTCACGCAGTTCACTT	0.338																																																2	Substitution - Missense(2)	ovary(2)											67	57	60					12																	40707951		2203	4299	6502	SO:0001583	missense	120892			AK026776	CCDS31774.1	12q12	2011-07-21			ENSG00000188906	ENSG00000188906		"Parkinson disease"	18618	protein-coding gene	gene with protein product		609007	"Parkinson disease (autosomal dominant) 8"	PARK8		15541308	Standard	NM_198578		Approved	ROCO2, DKFZp434H2111, FLJ45829, RIPK7	uc001rmg.4	Q5S007	OTTHUMG00000059742	ENST00000298910.7:c.4714G>A	12.37:g.40707951G>A	ENSP00000298910:p.Ala1572Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJU2|Q6ZS50|Q8NCX9	Missense_Mutation	SNP	ENST00000298910.7	37	CCDS31774.1	.	.	.	.	.	.	.	.	.	.	G	32	5.146199	0.94603	.	.	ENSG00000188906	ENST00000298910	T	0.79247	-1.25	5.83	5.83	0.93111	.	0.055971	0.64402	D	0.000001	D	0.88614	0.6484	M	0.79123	2.44	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.68943	0.945;0.961	D	0.88885	0.3342	10	0.72032	D	0.01	.	20.1099	0.97909	0.0:0.0:1.0:0.0	.	1572;1572	Q17RV3;Q5S007	.;LRRK2_HUMAN	T	1572	ENSP00000298910:A1572T	ENSP00000298910:A1572T	A	+	1	0	LRRK2	38994218	1.000000	0.71417	0.995000	0.50966	0.818000	0.46254	8.984000	0.93482	2.753000	0.94483	0.585000	0.79938	GCA		0.338	LRRK2-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277179.1	XM_058513		A	40707951	G	A	40707951	3	1	671	1	0	0	0	0	1	0	0	0	9040	1087	38	1	4840	1	LRRK2	12	40707951	Missense_Mutation	SNP	G	TCGA-KN-8435-01A-11D-2310-10	29161317	40707951	93143944	49	43169										
COL2A1	1280	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	48379322	48379322	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	agaggatagacttacagaagGgccaactttgccttgaggac	12	8	0	4			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr12:48379322G>A	ENST00000380518.3	-	26	1893	c.1729C>T	c.(1729-1731)Cct>Tct	p.P577S	COL2A1_ENST00000493991.1_5'UTR|COL2A1_ENST00000337299.6_Missense_Mutation_p.P508S	NM_001844.4|NM_033150.2	NP_001835.3|NP_149162.2	P02458	CO2A1_HUMAN	collagen, type II, alpha 1	577	Triple-helical region.				axon guidance (GO:0007411)|cartilage condensation (GO:0001502)|cartilage development (GO:0051216)|cartilage development involved in endochondral bone morphogenesis (GO:0060351)|cellular response to BMP stimulus (GO:0071773)|central nervous system development (GO:0007417)|chondrocyte differentiation (GO:0002062)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|embryonic skeletal joint morphogenesis (GO:0060272)|endochondral ossification (GO:0001958)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|heart morphogenesis (GO:0003007)|inner ear morphogenesis (GO:0042472)|limb bud formation (GO:0060174)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|notochord development (GO:0030903)|otic vesicle development (GO:0071599)|palate development (GO:0060021)|proteoglycan metabolic process (GO:0006029)|regulation of gene expression (GO:0010468)|sensory perception of sound (GO:0007605)|skeletal system development (GO:0001501)|tissue homeostasis (GO:0001894)|visual perception (GO:0007601)	basement membrane (GO:0005604)|collagen type II trimer (GO:0005585)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)	extracellular matrix structural constituent conferring tensile strength (GO:0030020)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|platelet-derived growth factor binding (GO:0048407)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(9)|lung(25)|ovary(1)|prostate(1)|skin(7)|upper_aerodigestive_tract(2)|urinary_tract(3)	64		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	CTTACAGAAGGGCCAACTTTG	0.597																																																0													116	124	121					12																	48379322		2203	4300	6503	SO:0001583	missense	1280			X16468	CCDS8759.1, CCDS41778.1	12q12-q13.2	2013-11-14	2008-02-04		ENSG00000139219	ENSG00000139219		"Collagens"	2200	protein-coding gene	gene with protein product		120140	"collagen, type II, alpha 1 (primary osteoarthritis, spondyloepiphyseal dysplasia, congenital)", "arthroophthalmopathy, progressive (Stickler syndrome)"	SEDC, AOM		1677770	Standard	NM_033150		Approved	STL1	uc001rqu.3	P02458	OTTHUMG00000149896	ENST00000380518.3:c.1729C>T	12.37:g.48379322G>A	ENSP00000369889:p.Pro577Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGA0|Q12985|Q14009|Q14044|Q14045|Q14046|Q14047|Q14056|Q14058|Q16672|Q1JQ82|Q2V4X7|Q6LBY1|Q6LBY2|Q6LBY3|Q96IT5|Q99227|Q9UE38|Q9UE39|Q9UE40|Q9UE41|Q9UE42|Q9UE43	Missense_Mutation	SNP	ENST00000380518.3	37	CCDS41778.1	.	.	.	.	.	.	.	.	.	.	G	22.4	4.280839	0.80692	.	.	ENSG00000139219	ENST00000380518;ENST00000395281;ENST00000337299	D;D	0.96587	-4.06;-4.06	5.05	5.05	0.67936	.	0.065251	0.64402	D	0.000009	D	0.97558	0.9200	L	0.61387	1.9	0.54753	D	0.999984	D;D	0.59357	0.985;0.975	D;P	0.74674	0.984;0.894	D	0.97810	1.0250	10	0.56958	D	0.05	.	17.3421	0.87299	0.0:0.0:1.0:0.0	.	508;577	P02458-1;P02458	.;CO2A1_HUMAN	S	577;508;508	ENSP00000369889:P577S;ENSP00000338213:P508S	ENSP00000338213:P508S	P	-	1	0	COL2A1	46665589	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	3.508000	0.53378	2.629000	0.89072	0.609000	0.83330	CCT		0.597	COL2A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313810.2	NM_001844		A	48379322	G	A	48379322	3	1	671	1	0	0	0	0	1	0	0	0	3689	1232	43	2	2850	2	COL2A1	12	48379322	Missense_Mutation	SNP	G	TCGA-KN-8435-01A-11D-2310-10	7671371	48379322	85472573	50	43170										
ZCCHC8	55596	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	122958438	122958438	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	gtacctcaggctcatccagcGtctgcttttcagatgttttt	8	11	4	1			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr12:122958438G>A	ENST00000336229.4	-	14	1860	c.1730C>T	c.(1729-1731)aCg>aTg	p.T577M	ZCCHC8_ENST00000543897.1_Missense_Mutation_p.T339M|ZCCHC8_ENST00000538116.1_Missense_Mutation_p.T188M|ZCCHC8_ENST00000536306.1_Missense_Mutation_p.T339M	NM_017612.3	NP_060082.2	Q6NZY4	ZCHC8_HUMAN	zinc finger, CCHC domain containing 8	577					mRNA splicing, via spliceosome (GO:0000398)	catalytic step 2 spliceosome (GO:0071013)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			endometrium(4)|kidney(2)|large_intestine(8)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	23	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.25e-05)|Epithelial(86;0.000113)|BRCA - Breast invasive adenocarcinoma(302;0.202)		CTCATCCAGCGTCTGCTTTTC	0.488																																																0													213	208	210					12																	122958438		1953	4156	6109	SO:0001583	missense	55596			BC017704		12q24.31	2014-04-14				ENSG00000033030		"Zinc fingers, CCHC domain containing"	25265	protein-coding gene	gene with protein product						12477932	Standard	XM_005253581		Approved	DKFZp434E2220	uc001ucn.3	Q6NZY4		ENST00000336229.4:c.1730C>T	12.37:g.122958438G>A	ENSP00000337313:p.Thr577Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q7L2P6|Q8N2K5|Q96SK7|Q9NSS2|Q9NSS3	Missense_Mutation	SNP	ENST00000336229.4	37		.	.	.	.	.	.	.	.	.	.	G	9.946	1.218896	0.22373	.	.	ENSG00000033030	ENST00000536306;ENST00000543897;ENST00000336229;ENST00000538116	T;T;T;T	0.44482	0.93;0.93;0.93;0.92	5.72	-7.32	0.01436	.	2.565100	0.00904	N	0.002393	T	0.18215	0.0437	N	0.08118	0	0.09310	N	1	B	0.12013	0.005	B	0.06405	0.002	T	0.08166	-1.0735	10	0.36615	T	0.2	2.2068	2.1954	0.03909	0.2269:0.1934:0.373:0.2067	.	577	Q6NZY4	ZCHC8_HUMAN	M	339;339;577;188	ENSP00000441423:T339M;ENSP00000438993:T339M;ENSP00000337313:T577M;ENSP00000440028:T188M	ENSP00000337313:T577M	T	-	2	0	ZCCHC8	121524391	0.000000	0.05858	0.000000	0.03702	0.055000	0.15305	-0.623000	0.05546	-1.273000	0.02424	-0.334000	0.08254	ACG		0.488	ZCCHC8-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_017612		A	122958438	G	A	122958438	3	1	671	1	0	0	0	0	1	0	0	0	17606	1145	40	1	397	1	ZCCHC8	12	122958438	Missense_Mutation	SNP	G	TCGA-KN-8435-01A-11D-2310-10	74579116	122958438	10893457	51	43171										
C14orf135	64430	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	60585201	60585201	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	cttttctccattcgtgttggTcatcatagttttttctacac	5	10	4	0			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr14:60585201T>C	ENST00000406854.1	+	7	2287	c.1733T>C	c.(1732-1734)gTc>gCc	p.V578A	PCNXL4_ENST00000404681.2_Missense_Mutation_p.V578A|PCNXL4_ENST00000317623.4_Missense_Mutation_p.V344A|PCNXL4_ENST00000406949.1_Missense_Mutation_p.V344A|PCNXL4_ENST00000535349.1_5'UTR			Q63HM2	PCX4_HUMAN	pecanex-like 4 (Drosophila)	578						integral component of membrane (GO:0016021)											TTCGTGTTGGTCATCATAGTT	0.428																																																0													128	126	126					14																	60585201		2203	4300	6503	SO:0001583	missense	64430			AK022861		14q23.1	2012-07-18	2012-07-18	2012-07-18	ENSG00000126773	ENSG00000126773			20349	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 135"	C14orf135			Standard	NM_022495		Approved		uc001xer.4	Q63HM2	OTTHUMG00000150361	ENST00000406854.1:c.1733T>C	14.37:g.60585201T>C	ENSP00000384801:p.Val578Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8MXM2|Q9BQG8|Q9H9F2	Missense_Mutation	SNP	ENST00000406854.1	37		.	.	.	.	.	.	.	.	.	.	T	4.317	0.058181	0.08339	.	.	ENSG00000126773	ENST00000317623;ENST00000406854;ENST00000406949;ENST00000404681	T;T;T;T	0.20881	2.04;2.06;2.08;2.06	6.0	3.61	0.41365	.	.	.	.	.	T	0.10895	0.0266	N	0.13098	0.295	0.20074	N	0.999932	B;B	0.06786	0.0;0.001	B;B	0.04013	0.001;0.001	T	0.38023	-0.9680	9	0.18276	T	0.48	.	6.4521	0.21910	0.0:0.1295:0.2441:0.6264	.	578;344	Q63HM2;B5MC47	CN135_HUMAN;.	A	344;578;344;578	ENSP00000317396:V344A;ENSP00000384801:V578A;ENSP00000385201:V344A;ENSP00000385713:V578A	ENSP00000317396:V344A	V	+	2	0	C14orf135	59654954	0.089000	0.21612	0.043000	0.18650	0.294000	0.27393	0.458000	0.21892	0.493000	0.27837	-0.263000	0.10527	GTC		0.428	PCNXL4-005	KNOWN	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000317847.1	NM_022495		C	60585201	T	C	60585201	3	2	671	1	0	0	0	0	1	0	0	0	1747	1667	58	3	1049	3	C14orf135	14	60585201	Missense_Mutation	SNP	T	TCGA-KN-8435-01A-11D-2310-10		60585201	46764339	52	43172										
RTL1	388015	broad.mit.edu	37	chr14	101347140	101347141	+	Frame_Shift_Ins	INS	-	-	C													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ccaggcggggatgggcagggINScccgcctgtagatcagggtc							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr14:101347140_101347141insC	ENST00000534062.1	-	1	4043_4044	c.3985_3986insG	c.(3985-3987)gccfs	p.A1329fs	MIR127_ENST00000384876.1_RNA|MIR433_ENST00000384837.1_RNA|MIR431_ENST00000385266.1_RNA	NM_001134888.2	NP_001128360.1	A6NKG5	RTL1_HUMAN	retrotransposon-like 1	1329					multicellular organismal development (GO:0007275)	integral component of membrane (GO:0016021)				breast(1)|endometrium(5)|kidney(4)|large_intestine(1)|lung(5)|pancreas(1)|prostate(2)|skin(2)	21						GATGGGCAGGGCCCGCCTGTAG	0.649																																																0																																										SO:0001589	frameshift_variant	388015				CCDS53910.1	14q32.2	2012-04-18			ENSG00000254656	ENSG00000254656			14665	protein-coding gene	gene with protein product		611896				16155747, 15854907, 12796779	Standard	NM_001134888		Approved	PEG11, MART1, Mar1	uc010txj.1	A6NKG5	OTTHUMG00000167573	ENST00000534062.1:c.3986dupG	14.37:g.101347143_101347143dupC	ENSP00000435342:p.Ala1329fs	Somatic		WXS	Illumina HiSeq	Phase_I	E9PKS8	Frame_Shift_Ins	INS	ENST00000534062.1	37	CCDS53910.1																																																																																				0.649	RTL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395127.1	NM_001134888		C	101347141	-	C	101347140	7	5	671	1	0	1	1	0	0	0	0	0	13737	1203	42	0	94	0	RTL1	14	101347140	Frame_Shift_Ins	INS	-	TCGA-KN-8435-01A-11D-2310-10	40761939	101347140	6002400	53	43173										
EIF5	1983	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	103802243	103802243	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	tgtcagaccagttctatcgcTacaagatgccccgtctgatt	8	12	3	3			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr14:103802243T>C	ENST00000216554.3	+	3	722	c.46T>C	c.(46-48)Tac>Cac	p.Y16H	EIF5_ENST00000558506.1_Missense_Mutation_p.Y16H|SNORA28_ENST00000606769.1_RNA|EIF5_ENST00000560200.1_3'UTR|EIF5_ENST00000392715.2_Missense_Mutation_p.Y16H	NM_001969.4	NP_001960.2	P55010	IF5_HUMAN	eukaryotic translation initiation factor 5	16					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|GTP catabolic process (GO:0006184)|regulation of translational initiation (GO:0006446)|translation (GO:0006412)|translational initiation (GO:0006413)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|plasma membrane (GO:0005886)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|poly(A) RNA binding (GO:0044822)|translation factor activity, nucleic acid binding (GO:0008135)|translation initiation factor activity (GO:0003743)			breast(3)|kidney(2)|large_intestine(3)|lung(5)|pancreas(2)|skin(2)|upper_aerodigestive_tract(1)	18		Melanoma(154;0.155)	Epithelial(46;0.182)			GTTCTATCGCTACAAGATGCC	0.388																																																0													152	142	146					14																	103802243		2203	4300	6503	SO:0001583	missense	1983			U49436	CCDS9980.1	14q32.32	2006-05-11				ENSG00000100664			3299	protein-coding gene	gene with protein product		601710				8663286	Standard	NM_001969		Approved		uc001ymq.4	P55010		ENST00000216554.3:c.46T>C	14.37:g.103802243T>C	ENSP00000216554:p.Tyr16His	Somatic		WXS	Illumina HiSeq	Phase_I	Q53XB3|Q9H5N2|Q9UG48	Missense_Mutation	SNP	ENST00000216554.3	37	CCDS9980.1	.	.	.	.	.	.	.	.	.	.	.	27.2	4.806994	0.90623	.	.	ENSG00000100664	ENST00000216554;ENST00000392715	T;T	0.47528	0.84;0.84	5.79	5.79	0.91817	Translation initiation factor IF2/IF5, N-terminal (1);Translation initiation factor IF2/IF5 (2);	0.000000	0.85682	D	0.000000	T	0.78426	0.4281	H	0.95917	3.74	0.80722	D	1	B	0.29136	0.234	P	0.51297	0.665	T	0.81433	-0.0935	10	0.87932	D	0	.	16.1805	0.81895	0.0:0.0:0.0:1.0	.	16	P55010	IF5_HUMAN	H	16	ENSP00000216554:Y16H;ENSP00000376477:Y16H	ENSP00000216554:Y16H	Y	+	1	0	EIF5	102871996	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.831000	0.86748	2.221000	0.72209	0.529000	0.55759	TAC		0.388	EIF5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415329.2	NM_001969		C	103802243	T	C	103802243	3	2	671	1	0	0	0	0	1	0	0	0	5042	1522	53	3	48	3	EIF5	14	103802243	Missense_Mutation	SNP	T	TCGA-KN-8435-01A-11D-2310-10	2455103	103802243	3547297	54	43174										
SLC28A2	9153	broad.mit.edu	37	chr15	45556950	45556951	+	Frame_Shift_Ins	INS	-	-	G													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	tatactgtatttcagtggctINSgggagagcaggtccaggtat							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr15:45556950_45556951insG	ENST00000347644.3	+	7	751_752	c.686_687insG	c.(685-690)ctgggafs	p.LG229fs	CTD-2651B20.3_ENST00000561404.1_RNA|CTD-2651B20.3_ENST00000560344.1_RNA	NM_004212.3	NP_004203.2	O43868	S28A2_HUMAN	solute carrier family 28 (concentrative nucleoside transporter), member 2	229					nucleobase-containing compound metabolic process (GO:0006139)|purine nucleoside transmembrane transport (GO:0015860)|transmembrane transport (GO:0055085)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	nucleoside binding (GO:0001882)|nucleoside:sodium symporter activity (GO:0005415)|purine nucleoside transmembrane transporter activity (GO:0015211)			NS(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(12)|ovary(4)|skin(1)	26		all_cancers(109;8.53e-07)|all_epithelial(112;1.39e-05)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.77e-16)|GBM - Glioblastoma multiforme(94;2.71e-06)	Mercaptopurine(DB01033)	TTTCAGTGGCTGGGAGAGCAGG	0.446																																					NSCLC(92;493 1501 26361 28917 47116)											0																																										SO:0001589	frameshift_variant	9153			U84392	CCDS10121.1	15q15	2013-07-17	2013-07-17		ENSG00000137860	ENSG00000137860		"Solute carriers"	11002	protein-coding gene	gene with protein product		606208	"solute carrier family 28 (sodium-coupled nucleoside transporter), member 2"			9435697	Standard	NM_004212		Approved	CNT2, SPNT1, HCNT2, HsT17153	uc001zva.2	O43868	OTTHUMG00000131426	ENST00000347644.3:c.689dupG	15.37:g.45556953_45556953dupG	ENSP00000315006:p.Leu229fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7F9|O43239|Q52LZ0	Frame_Shift_Ins	INS	ENST00000347644.3	37	CCDS10121.1																																																																																				0.446	SLC28A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254219.2	NM_004212		G	45556951	-	G	45556950	7	5	671	1	0	1	1	0	0	0	0	0	14545	1580	55	0	708	0	SLC28A2	15	45556950	Frame_Shift_Ins	INS	-	TCGA-KN-8435-01A-11D-2310-10		45556950	56974442	55	43175										
ISLR	3671	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr15	74467546	74467546	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	catctctgactttgcctggaGcgacctgcacaacctcagtg	9	14	2	1			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr15:74467546G>T	ENST00000249842.3	+	2	704	c.347G>T	c.(346-348)aGc>aTc	p.S116I	ISLR_ENST00000395118.1_Missense_Mutation_p.S116I|RP11-665J16.1_ENST00000561647.1_RNA	NM_005545.3	NP_005536.1	O14498	ISLR_HUMAN	immunoglobulin superfamily containing leucine-rich repeat	116					cell adhesion (GO:0007155)	extracellular vesicular exosome (GO:0070062)				central_nervous_system(1)|large_intestine(7)|lung(8)|ovary(1)|prostate(2)|skin(1)	20						TTTGCCTGGAGCGACCTGCAC	0.617																																																0													82	79	80					15																	74467546		2198	4297	6495	SO:0001583	missense	3671			AB003184	CCDS10260.1	15q23-q24	2013-01-11			ENSG00000129009	ENSG00000129009		"Immunoglobulin superfamily / I-set domain containing"	6133	protein-coding gene	gene with protein product		602059				9325048	Standard	NM_005545		Approved	HsT17563	uc002axh.1	O14498	OTTHUMG00000137623	ENST00000249842.3:c.347G>T	15.37:g.74467546G>T	ENSP00000249842:p.Ser116Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000249842.3	37	CCDS10260.1	.	.	.	.	.	.	.	.	.	.	G	14.33	2.504498	0.44558	.	.	ENSG00000129009	ENST00000249842;ENST00000395118	T;T	0.55588	0.51;0.51	4.05	1.59	0.23543	.	0.623254	0.13676	U	0.370522	T	0.51329	0.1668	M	0.72118	2.19	0.26664	N	0.971856	P	0.39601	0.68	B	0.41412	0.356	T	0.43376	-0.9395	10	0.42905	T	0.14	.	8.0656	0.30659	0.1519:0.1641:0.684:0.0	.	116	O14498	ISLR_HUMAN	I	116	ENSP00000249842:S116I;ENSP00000378550:S116I	ENSP00000249842:S116I	S	+	2	0	ISLR	72254599	0.991000	0.36638	1.000000	0.80357	0.984000	0.73092	1.728000	0.38105	0.659000	0.30945	0.313000	0.20887	AGC		0.617	ISLR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269044.1	NM_005545		T	74467546	G	T	74467546	3	4	671	1	0	0	0	0	1	0	0	0	7865	971	34	4	349	4	ISLR	15	74467546	Missense_Mutation	SNP	G	TCGA-KN-8435-01A-11D-2310-10	28910596	74467546	28063846	56	43176										
VASN	114990	broad.mit.edu	37	chr16	4431910	4431910	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ctgctcctggagcttgactaCgccgactttggctgcccagc	11	15	0	1	rs200909451	byFrequency	TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr16:4431910C>T	ENST00000304735.3	+	2	1187	c.1032C>T	c.(1030-1032)taC>taT	p.Y344Y	CORO7_ENST00000251166.4_Intron|CORO7_ENST00000539968.1_Intron|CORO7-PAM16_ENST00000572467.1_Intron|CORO7_ENST00000574025.1_Intron|CORO7_ENST00000423908.2_Intron|CORO7_ENST00000537233.2_Intron	NM_138440.2	NP_612449.2	Q6EMK4	VASN_HUMAN	vasorin	344	LRRCT.				cellular response to hypoxia (GO:0071456)|cellular response to redox state (GO:0071461)|negative regulation of epithelial to mesenchymal transition (GO:0010719)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)	cell surface (GO:0009986)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	transforming growth factor beta binding (GO:0050431)			breast(1)|lung(3)|prostate(1)|skin(1)	6						AGCTTGACTACGCCGACTTTG	0.672													C|||	3	0.000599042	0.0	0.0	5008	,	,		13672	0.002		0.001	False		,,,				2504	0.0															0													19	21	20					16																	4431910		2186	4290	6476	SO:0001819	synonymous_variant	114990			AY358299	CCDS10514.1	16p13.3	2008-02-05	2006-03-30	2006-03-30	ENSG00000168140	ENSG00000168140			18517	protein-coding gene	gene with protein product		608843	"slit-like 2 (Drosophila)"	SLITL2		15247411	Standard	NM_138440		Approved		uc002cwj.1	Q6EMK4	OTTHUMG00000129469	ENST00000304735.3:c.1032C>T	16.37:g.4431910C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXL4|Q6UXL5|Q96CX1	Silent	SNP	ENST00000304735.3	37	CCDS10514.1																																																																																				0.672	VASN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251632.1	NM_138440		T	4431910	C	T	4431910	2	4	671	1	0	0	0	0	0	0	0	1	17139	547	19	1		1	VASN	16	4431910	Silent	SNP	C	TCGA-KN-8435-01A-11D-2310-10		4431910	85922843	57	43177										
CCDC144NL	339184	mdanderson.org	37	chr17	20768816	20768816	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ccctttgctcatgcagatgaCaatactcttgaaaatggtgg	9	9	2	3	rs73298040	byFrequency	TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr17:20768816C>T	ENST00000327925.5	-	4	697	c.578G>A	c.(577-579)tGt>tAt	p.C193Y	CCDC144NL_ENST00000539484.1_5'UTR|RP11-344E13.3_ENST00000577537.1_RNA|RP11-344E13.3_ENST00000439794.2_RNA	NM_001004306.1	NP_001004306.1	Q6NUI1	C144L_HUMAN	coiled-coil domain containing 144 family, N-terminal like	193										large_intestine(3)|lung(3)|skin(1)	7						ATGCAGATGACAATACTCTTG	0.363																																																0													75	69	71					17																	20768816		2203	4300	6503	SO:0001583	missense	339184				CCDS32591.1	17p11.2	2009-01-15			ENSG00000205212	ENSG00000205212			33735	protein-coding gene	gene with protein product							Standard	NM_001004306		Approved	MGC87631	uc002gyf.3	Q6NUI1	OTTHUMG00000132271	ENST00000327925.5:c.578G>A	17.37:g.20768816C>T	ENSP00000328054:p.Cys193Tyr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000327925.5	37	CCDS32591.1	.	.	.	.	.	.	.	.	.	.	c	0.024	-1.390208	0.01185	.	.	ENSG00000205212	ENST00000327925	T	0.18502	2.21	.	.	.	.	.	.	.	.	T	0.11879	0.0289	N	0.08118	0	0.09310	N	1	P	0.42518	0.782	P	0.48738	0.588	T	0.23476	-1.0187	7	0.87932	D	0	.	.	.	.	.	193	Q6NUI1	C144L_HUMAN	Y	193	ENSP00000328054:C193Y	ENSP00000328054:C193Y	C	-	2	0	CCDC144NL	20709408	0.181000	0.23161	0.041000	0.18516	0.041000	0.13682	0.076000	0.14712	0.088000	0.17205	0.089000	0.15464	TGT		0.363	CCDC144NL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255361.2	NM_001004306		T	20768816	C	T	20768816	3	4	671	1	0	0	0	0	1	0	0	0	2781	478	17	2	91	2	CCDC144NL	17	20768816	Missense_Mutation	SNP	C	TCGA-KN-8435-01A-11D-2310-10		20768816	60426394	58	43178										
TMIGD1	388364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	28656457	28656457	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	gttcttcctctctggtgtggTtttgaacagcacatatcaga	9	9	3	2			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr17:28656457T>C	ENST00000328886.4	-	3	245	c.173A>G	c.(172-174)aAc>aGc	p.N58S	TMIGD1_ENST00000538566.2_Missense_Mutation_p.N58S	NM_206832.1	NP_996663.1	Q6UXZ0	TMIG1_HUMAN	transmembrane and immunoglobulin domain containing 1	58	Ig-like C2-type 1.					integral component of membrane (GO:0016021)				breast(1)|kidney(3)|large_intestine(1)|lung(5)|skin(2)	12						TCTGGTGTGGTTTTGAACAGC	0.448																																																0													108	98	102					17																	28656457		2203	4300	6503	SO:0001583	missense	388364			AY358153	CCDS32605.1	17q11.2	2013-01-29	2006-07-05	2006-07-05		ENSG00000182271		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	32431	protein-coding gene	gene with protein product				TMIGD		12975309	Standard	NM_206832		Approved	UNQ9372	uc002hfa.1	Q6UXZ0		ENST00000328886.4:c.173A>G	17.37:g.28656457T>C	ENSP00000332404:p.Asn58Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2K1|Q6ZMC6	Missense_Mutation	SNP	ENST00000328886.4	37	CCDS32605.1	.	.	.	.	.	.	.	.	.	.	T	22.1	4.250385	0.80024	.	.	ENSG00000182271	ENST00000328886;ENST00000538566	T;T	0.13657	2.57;2.57	5.44	5.44	0.79542	Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.195565	0.53938	D	0.000050	T	0.37019	0.0988	M	0.71581	2.175	0.44241	D	0.997081	D;D	0.89917	1.0;0.989	D;P	0.85130	0.997;0.9	T	0.10613	-1.0622	10	0.56958	D	0.05	-21.8761	14.6668	0.68915	0.0:0.0:0.0:1.0	.	58;58	Q6UXZ0-2;Q6UXZ0	.;TMIG1_HUMAN	S	58	ENSP00000332404:N58S;ENSP00000446118:N58S	ENSP00000332404:N58S	N	-	2	0	TMIGD1	25680583	1.000000	0.71417	1.000000	0.80357	0.969000	0.65631	5.190000	0.65104	2.058000	0.61347	0.472000	0.43445	AAC		0.448	TMIGD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447955.1	NM_206832		C	28656457	T	C	28656457	3	2	671	1	0	0	0	0	1	0	0	0	16242	1725	60	3	635	3	TMIGD1	17	28656457	Missense_Mutation	SNP	T	TCGA-KN-8435-01A-11D-2310-10	7887641	28656457	52538753	59	43179										
C17orf98	388381	ucsc.edu	37	chr17	36997606	36997606	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	cccgtccaagataaagccttTctccagtcgcaggcgacact	8	15	1	1			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr17:36997606T>C	ENST00000398575.4	-	1	102	c.37A>G	c.(37-39)Aaa>Gaa	p.K13E		NM_001080465.2	NP_001073934.1	A8MV24	CQ098_HUMAN	chromosome 17 open reading frame 98	13										endometrium(5)|kidney(1)|large_intestine(1)|lung(3)|pancreas(1)|prostate(3)	14						ATAAAGCCTTTCTCCAGTCGC	0.642																																																0													39	42	41					17																	36997606		2036	4204	6240	SO:0001583	missense	388381			AC006449, DY654789	CCDS42310.1	17q12	2014-05-06			ENSG00000214556	ENSG00000275489			34492	protein-coding gene	gene with protein product						16625196	Standard	NM_001080465		Approved	LOC388381	uc002hqv.2	A8MV24	OTTHUMG00000188506	ENST00000398575.4:c.37A>G	17.37:g.36997606T>C	ENSP00000381580:p.Lys13Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000398575.4	37	CCDS42310.1	.	.	.	.	.	.	.	.	.	.	T	25.2	4.614500	0.87359	.	.	ENSG00000214556	ENST00000398575	T	0.48836	0.8	5.38	5.38	0.77491	.	0.000000	0.40469	U	0.001088	T	0.58264	0.2110	L	0.43152	1.355	0.40513	D	0.980755	D	0.71674	0.998	D	0.63488	0.915	T	0.62343	-0.6874	10	0.72032	D	0.01	-21.4557	13.3941	0.60840	0.0:0.0:0.0:1.0	.	13	A8MV24	CQ098_HUMAN	E	13	ENSP00000381580:K13E	ENSP00000381580:K13E	K	-	1	0	C17orf98	34251132	0.998000	0.40836	0.969000	0.41365	0.909000	0.53808	4.928000	0.63447	2.263000	0.75096	0.379000	0.24179	AAA		0.642	C17orf98-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255469.2	NM_001080465		C	36997606	T	C	36997606	3	2	671	1	0	0	0	0	1	0	0	0	1895	1792	62	3	439	3	C17orf98	17	36997606	Missense_Mutation	SNP	T	TCGA-KN-8435-01A-11D-2310-10	8341149	36997606	44197604	60	43180										
KRTAP4-9	100132386	mdanderson.org	37	chr17	39262096	39262096	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	cagcccaactgctgccgcccCagctgcagcatctccagctg	9	19	1	0			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr17:39262096C>T	ENST00000391415.1	+	1	513	c.456C>T	c.(454-456)ccC>ccT	p.P152P		NM_001146041.1	NP_001139513.1	Q9BYQ8	KRA49_HUMAN	keratin associated protein 4-9	152	29 X 5 AA repeats of C-C-[RQVHIEK]- [SPTR]-[VSTQCRNP].				aging (GO:0007568)|hair cycle (GO:0042633)	keratin filament (GO:0045095)				central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(1)|urinary_tract(3)	14						gctgccgccccagctgcagca	0.672																																																0													5	8	7					17																	39262096		674	1562	2236	SO:0001819	synonymous_variant	100132386			AJ406941	CCDS54124.1	17q21.2	2013-06-25			ENSG00000212722	ENSG00000212722		"Keratin associated proteins"	18910	protein-coding gene	gene with protein product							Standard	NM_001146041		Approved	KAP4.9	uc010wfp.2	Q9BYQ8	OTTHUMG00000133584	ENST00000391415.1:c.456C>T	17.37:g.39262096C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000391415.1	37	CCDS54124.1																																																																																				0.672	KRTAP4-9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257688.1	NM_001146041		T	39262096	C	T	39262096	2	4	671	1	0	0	0	0	0	0	0	1	8564	581	21	2		2	KRTAP4-9	17	39262096	Silent	SNP	C	TCGA-KN-8435-01A-11D-2310-10	2264490	39262096	41933114	61	43181										
BRCA1	672	broad.mit.edu;mdanderson.org	37	chr17	41244425	41244425	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	cctacttcattaatattgctTgagctggcttctttaaaaac	5	9	2	1			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr17:41244425T>C	ENST00000357654.3	-	10	3241	c.3123A>G	c.(3121-3123)tcA>tcG	p.S1041S	BRCA1_ENST00000352993.3_Intron|BRCA1_ENST00000471181.2_Silent_p.S1041S|BRCA1_ENST00000491747.2_Intron|BRCA1_ENST00000354071.3_Silent_p.S1041S|BRCA1_ENST00000591849.1_Intron|BRCA1_ENST00000586385.1_Intron|BRCA1_ENST00000309486.4_Silent_p.S745S|BRCA1_ENST00000591534.1_Intron|BRCA1_ENST00000493795.1_Silent_p.S994S|BRCA1_ENST00000346315.3_Silent_p.S1041S|BRCA1_ENST00000468300.1_Intron|BRCA1_ENST00000351666.3_Intron	NM_007294.3	NP_009225.1	P38398	BRCA1_HUMAN	breast cancer 1, early onset	1041					androgen receptor signaling pathway (GO:0030521)|apoptotic process (GO:0006915)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to indole-3-methanol (GO:0071681)|cellular response to tumor necrosis factor (GO:0071356)|chromosome segregation (GO:0007059)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|fatty acid biosynthetic process (GO:0006633)|G2 DNA damage checkpoint (GO:0031572)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|negative regulation of centriole replication (GO:0046600)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|negative regulation of fatty acid biosynthetic process (GO:0045717)|negative regulation of histone H3-K9 methylation (GO:0051573)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of angiogenesis (GO:0045766)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of DNA repair (GO:0045739)|positive regulation of gene expression (GO:0010628)|positive regulation of histone acetylation (GO:0035066)|positive regulation of histone H3-K4 methylation (GO:0051571)|positive regulation of histone H3-K9 acetylation (GO:2000617)|positive regulation of histone H4-K16 acetylation (GO:2000620)|positive regulation of histone H4-K20 methylation (GO:0070512)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation vascular endothelial growth factor production (GO:0010575)|postreplication repair (GO:0006301)|protein autoubiquitination (GO:0051865)|protein K6-linked ubiquitination (GO:0085020)|protein ubiquitination (GO:0016567)|regulation of apoptotic process (GO:0042981)|regulation of cell proliferation (GO:0042127)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription from RNA polymerase III promoter (GO:0006359)|response to estrogen (GO:0043627)|response to ionizing radiation (GO:0010212)	BRCA1-A complex (GO:0070531)|BRCA1-BARD1 complex (GO:0031436)|chromosome (GO:0005694)|cytoplasm (GO:0005737)|gamma-tubulin ring complex (GO:0008274)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|ribonucleoprotein complex (GO:0030529)|ubiquitin ligase complex (GO:0000151)	androgen receptor binding (GO:0050681)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|ligase activity (GO:0016874)|RNA binding (GO:0003723)|transcription coactivator activity (GO:0003713)|transcription regulatory region DNA binding (GO:0044212)|tubulin binding (GO:0015631)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(30)|central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(7)|lung(28)|ovary(36)|skin(2)|stomach(4)|urinary_tract(2)	120		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TAATATTGCTTGAGCTGGCTT	0.363			"D, Mis, N, F, S"		ovarian	"breast, ovarian"		Homologous recombination	Hereditary Breast-Ovarian Cancer, BRCA1 type	TCGA Ovarian(2;0.000030)																												yes	Rec	yes	Hereditary breast/ovarian cancer	17	17q21	672	familial breast/ovarian cancer gene 1		E	0													127	121	123					17																	41244425		2203	4300	6503	SO:0001819	synonymous_variant	672	Familial Cancer Database		U14680	CCDS11453.1, CCDS11454.1, CCDS11455.1, CCDS11456.1, CCDS11459.1, CCDS11455.2, CCDS11456.2, CCDS11459.2, CCDS11454.2	17q21.31	2014-09-17			ENSG00000012048	ENSG00000012048		"RING-type (C3HC4) zinc fingers", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	1100	protein-coding gene	gene with protein product	"BRCA1/BRCA2-containing complex, subunit 1", "protein phosphatase 1, regulatory subunit 53"	113705				1676470	Standard	NM_007300		Approved	RNF53, BRCC1, PPP1R53	uc002ict.3	P38398	OTTHUMG00000157426	ENST00000357654.3:c.3123A>G	17.37:g.41244425T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O15129|Q1RMC1|Q3LRJ0|Q3LRJ6|Q6IN79|Q7KYU9	Silent	SNP	ENST00000357654.3	37	CCDS11453.1																																																																																				0.363	BRCA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348798.2	NM_007294		C	41244425	T	C	41244425	2	2	671	1	0	0	0	0	0	0	0	1	1500	1799	63	3		3	BRCA1	17	41244425	Silent	SNP	T	TCGA-KN-8435-01A-11D-2310-10	1982329	41244425	39950785	62	43182										
CDC27	996	mdanderson.org	37	chr17	45214527	45214527	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ttaccacttaccatgcattaTaatgtctaggattgactctg	6	9	2	1	rs62075618|rs200720095	byFrequency	TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr17:45214527T>C	ENST00000066544.3	-	14	1997	c.1904A>G	c.(1903-1905)tAt>tGt	p.Y635C	CDC27_ENST00000527547.1_Missense_Mutation_p.Y634C|CDC27_ENST00000531206.1_Missense_Mutation_p.Y641C|CDC27_ENST00000446365.2_Missense_Mutation_p.Y574C	NM_001114091.1|NM_001256.3	NP_001107563.1|NP_001247.3	P30260	CDC27_HUMAN	cell division cycle 27	635					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|cell proliferation (GO:0008283)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|mitotic cell cycle (GO:0000278)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K11-linked ubiquitination (GO:0070979)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	anaphase-promoting complex (GO:0005680)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle (GO:0005819)	protein phosphatase binding (GO:0019903)			NS(1)|breast(5)|central_nervous_system(3)|cervix(1)|endometrium(2)|kidney(17)|large_intestine(18)|lung(11)|ovary(5)|pancreas(1)|prostate(19)|skin(5)|upper_aerodigestive_tract(2)	90						CCATGCATTATAATGTCTAGG	0.338																																																0													35	35	35					17																	45214527		2203	4300	6503	SO:0001583	missense	996			U00001	CCDS11509.1, CCDS45720.1, CCDS74090.1	17q21.32	2013-01-17	2013-01-17		ENSG00000004897	ENSG00000004897		"Anaphase promoting complex subunits", "Tetratricopeptide (TTC) repeat domain containing"	1728	protein-coding gene	gene with protein product	"anaphase promoting complex subunit 3"	116946	"cell division cycle 27", "cell division cycle 27 homolog (S. cerevisiae)"	D0S1430E, D17S978E		8234252	Standard	XM_005257892		Approved	APC3, ANAPC3, NUC2	uc002ile.4	P30260	OTTHUMG00000166429	ENST00000066544.3:c.1904A>G	17.37:g.45214527T>C	ENSP00000066544:p.Tyr635Cys	Somatic		WXS	Illumina HiSeq	Phase_I	G3V1C4|Q16349|Q96F35	Missense_Mutation	SNP	ENST00000066544.3	37	CCDS11509.1	.	.	.	.	.	.	.	.	.	.	T	29.4	5.004463	0.93287	.	.	ENSG00000004897	ENST00000066544;ENST00000531206;ENST00000446365;ENST00000527547	T;T;T;T	0.59502	0.26;0.26;0.26;0.26	5.98	5.98	0.97165	Tetratricopeptide-like helical (1);Tetratricopeptide repeat-containing (1);	0.000000	0.85682	D	0.000000	T	0.80798	0.4692	H	0.96943	3.91	0.09310	P	0.999999999633698	D;D;D;D	0.59357	0.985;0.982;0.982;0.969	P;P;P;P	0.56042	0.79;0.753;0.753;0.727	D	0.88807	0.3289	9	0.87932	D	0	-24.5847	14.4087	0.67101	0.0:0.0:0.0:1.0	rs62075618	574;634;641;635	B4DL80;G5EA36;G3V1C4;P30260	.;.;.;CDC27_HUMAN	C	635;641;574;634	ENSP00000066544:Y635C;ENSP00000434614:Y641C;ENSP00000392802:Y574C;ENSP00000437339:Y634C	ENSP00000066544:Y635C	Y	-	2	0	CDC27	42569526	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	6.308000	0.72820	2.293000	0.77203	0.477000	0.44152	TAT		0.338	CDC27-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000389742.2			C	45214527	T	C	45214527	3	2	671	1	0	0	0	0	1	0	0	0	3068	1406	49	3	594	3	CDC27	17	45214527	Missense_Mutation	SNP	T	TCGA-KN-8435-01A-11D-2310-10	3970102	45214527	35980683	63	43183										
MUC16	94025	mdanderson.org	37	chr19	9065113	9065113	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	caaacttggaggtgaactggTttcaggttctgcacttgcgt	12	8	2	1			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr19:9065113T>C	ENST00000397910.4	-	3	22536	c.22333A>G	c.(22333-22335)Acc>Gcc	p.T7445A		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	7447	Ser-rich.|Thr-rich.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						GGTGAACTGGTTTCAGGTTCT	0.493																																																0													161	148	152					19																	9065113		1980	4172	6152	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.22333A>G	19.37:g.9065113T>C	ENSP00000381008:p.Thr7445Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	N	6.007	0.369713	0.11352	.	.	ENSG00000181143	ENST00000397910	T	0.27720	1.65	2.98	0.715	0.18186	.	.	.	.	.	T	0.21186	0.0510	L	0.36672	1.1	.	.	.	P	0.45474	0.859	B	0.41236	0.351	T	0.21965	-1.0230	8	0.87932	D	0	.	3.6452	0.08182	0.2221:0.0:0.2298:0.5481	.	7445	B5ME49	.	A	7445	ENSP00000381008:T7445A	ENSP00000381008:T7445A	T	-	1	0	MUC16	8926113	0.000000	0.05858	0.000000	0.03702	0.013000	0.08279	-0.156000	0.10100	0.060000	0.16281	0.455000	0.32223	ACC		0.493	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		C	9065113	T	C	9065113	3	2	671	1	0	0	0	0	1	0	0	0	9980	1725	60	3	21518	3	MUC16	19	9065113	Missense_Mutation	SNP	T	TCGA-KN-8435-01A-11D-2310-10		9065113	50063870	64	43184										
OR7A5	26659	mdanderson.org	37	chr19	14938184	14938184	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	atgtctttattcctcagactAtagataaaggggttcagcat	8	7	3	2	rs200531878		TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr19:14938184A>G	ENST00000322301.3	-	2	957	c.870T>C	c.(868-870)taT>taC	p.Y290Y	OR7A5_ENST00000601611.1_Intron|OR7A5_ENST00000594432.1_Silent_p.Y290Y			Q15622	OR7A5_HUMAN	olfactory receptor, family 7, subfamily A, member 5	290					detection of chemical stimulus involved in sensory perception of smell (GO:0050911)|sensory perception of smell (GO:0007608)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.Y290Y(2)		breast(1)|central_nervous_system(4)|endometrium(2)|kidney(4)|large_intestine(3)|lung(6)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	26						TCCTCAGACTATAGATAAAGG	0.478																																																2	Substitution - coding silent(2)	kidney(2)											74	72	72					19																	14938184		2203	4300	6503	SO:0001819	synonymous_variant	26659			X64976	CCDS12318.1	19p13.1	2012-08-09	2003-12-09			ENSG00000188269		"GPCR / Class A : Olfactory receptors"	8368	protein-coding gene	gene with protein product			"olfactory receptor, family 7, subfamily A, member 5 pseudogene"				Standard	XM_006722722		Approved	HTPCR2	uc002mzw.3	Q15622		ENST00000322301.3:c.870T>C	19.37:g.14938184A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R682|Q6IFP1|Q96R96	Silent	SNP	ENST00000322301.3	37	CCDS12318.1																																																																																				0.478	OR7A5-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466518.1	NM_017506		G	14938184	A	G	14938184	2	3	671	1	0	0	0	0	0	0	0	1	11223	456	16	3		3	OR7A5	19	14938184	Silent	SNP	A	TCGA-KN-8435-01A-11D-2310-10	5873071	14938184	44190799	65	43185										
OR7A5	26659	mdanderson.org	37	chr19	14938248	14938248	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ctgaggctgttgcacttgagTgtgagttgcgggtggcagca	17	7	0	3	rs112284734	byFrequency	TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr19:14938248T>A	ENST00000322301.3	-	2	893	c.806A>T	c.(805-807)cAc>cTc	p.H269L	OR7A5_ENST00000601611.1_Intron|OR7A5_ENST00000594432.1_Missense_Mutation_p.H269L			Q15622	OR7A5_HUMAN	olfactory receptor, family 7, subfamily A, member 5	269					detection of chemical stimulus involved in sensory perception of smell (GO:0050911)|sensory perception of smell (GO:0007608)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|central_nervous_system(4)|endometrium(2)|kidney(4)|large_intestine(3)|lung(6)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	26						TGCACTTGAGTGTGAGTTGCG	0.483																																																0													94	81	86					19																	14938248		2203	4300	6503	SO:0001583	missense	26659			X64976	CCDS12318.1	19p13.1	2012-08-09	2003-12-09			ENSG00000188269		"GPCR / Class A : Olfactory receptors"	8368	protein-coding gene	gene with protein product			"olfactory receptor, family 7, subfamily A, member 5 pseudogene"				Standard	XM_006722722		Approved	HTPCR2	uc002mzw.3	Q15622		ENST00000322301.3:c.806A>T	19.37:g.14938248T>A	ENSP00000316955:p.His269Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R682|Q6IFP1|Q96R96	Missense_Mutation	SNP	ENST00000322301.3	37	CCDS12318.1	.	.	.	.	.	.	.	.	.	.	t	11.34	1.609869	0.28712	.	.	ENSG00000188269	ENST00000322301	T	0.00069	8.77	3.12	-0.173	0.13322	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.00109	0.0003	N	0.20445	0.575	0.09310	N	1	B	0.23990	0.095	B	0.33254	0.16	T	0.04976	-1.0914	9	0.48119	T	0.1	.	6.5609	0.22485	0.0:0.5426:0.0:0.4574	.	269	Q15622	OR7A5_HUMAN	L	269	ENSP00000316955:H269L	ENSP00000316955:H269L	H	-	2	0	OR7A5	14799248	0.000000	0.05858	0.000000	0.03702	0.320000	0.28249	-0.053000	0.11846	0.050000	0.15949	0.102000	0.15555	CAC		0.483	OR7A5-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466518.1	NM_017506		A	14938248	T	A	14938248	3	1	671	1	0	0	0	0	1	0	0	0	11223	1696	59	5	157	5	OR7A5	19	14938248	Missense_Mutation	SNP	T	TCGA-KN-8435-01A-11D-2310-10	64	14938248	44190735	66	43186										
CPAMD8	27151	broad.mit.edu;ucsc.edu	37	chr19	17036078	17036078	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ggttttctgaagatacttcaAgacaaagacgttgggtgcaa	11	6	2	4			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr19:17036078A>G	ENST00000443236.1	-	26	3647	c.3616T>C	c.(3616-3618)Ttg>Ctg	p.L1206L		NM_015692.2	NP_056507.2	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain containing 8	1159						extracellular space (GO:0005615)|plasma membrane (GO:0005886)	serine-type endopeptidase inhibitor activity (GO:0004867)			breast(11)|central_nervous_system(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(17)|lung(14)|ovary(7)|pancreas(2)|prostate(4)|skin(5)	82						AGATACTTCAAGACAAAGACG	0.542																																																0													95	99	97					19																	17036078		1998	4179	6177	SO:0001819	synonymous_variant	27151			AY101765	CCDS42519.1	19p13.12	2008-02-05			ENSG00000160111	ENSG00000160111			23228	protein-coding gene	gene with protein product		608841				10574462	Standard	NM_015692		Approved	KIAA1283, VIP, K-CAP	uc002nfb.3	Q8IZJ3	OTTHUMG00000133549	ENST00000443236.1:c.3616T>C	19.37:g.17036078A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC09|Q9ULD7	Silent	SNP	ENST00000443236.1	37	CCDS42519.1																																																																																				0.542	CPAMD8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257531.2	NM_015692		G	17036078	A	G	17036078	2	3	671	1	0	0	0	0	0	0	0	1	3797	69	3	3		3	CPAMD8	19	17036078	Silent	SNP	A	TCGA-KN-8435-01A-11D-2310-10	2097830	17036078	42092905	67	43187										
CILP2	148113	broad.mit.edu	37	chr19	19649208	19649208	+	Frame_Shift_Del	DEL	T	T	-													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ctgtgtcgtcgctgcgcaccTggcgggggcccgaggtgagg							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr19:19649208delT	ENST00000291495.5	+	1	135	c.50delT	c.(49-51)ctgfs	p.L17fs	CILP2_ENST00000586018.1_Frame_Shift_Del_p.L17fs	NM_153221.2	NP_694953.2	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	17						extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)				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						GCTGCGCACCTGGCGGGGGCC	0.761																																																0													8	11	10					19																	19649208		2122	4173	6295	SO:0001589	frameshift_variant	148113			AF542080	CCDS12405.1	19p13.11	2013-01-14				ENSG00000160161		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	24213	protein-coding gene	gene with protein product		612419				12477932	Standard	NM_153221		Approved	MGC45771	uc002nmv.4	Q8IUL8		ENST00000291495.5:c.50delT	19.37:g.19649208delT	ENSP00000291495:p.Leu17fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NV88|Q8N4A6|Q8WV21	Frame_Shift_Del	DEL	ENST00000291495.5	37	CCDS12405.1																																																																																				0.761	CILP2-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000459738.3	NM_153221		-	19649208	T	-	19649208	7	5	671	1	0	1	0	1	0	0	0	0	3432	1580	55	0	52	0	CILP2	19	19649208	Frame_Shift_Del	DEL	T	TCGA-KN-8435-01A-11D-2310-10	2613130	19649208	39479775	68	43188										
RELB	5971	broad.mit.edu;bcgsc.ca	37	chr19	45537516	45537516	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	taacagacagctacggcgtgGacaagaagcggaaacggggg	16	8	0	2			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr19:45537516G>C	ENST00000221452.8	+	10	1372	c.1222G>C	c.(1222-1224)Gac>Cac	p.D408H	RELB_ENST00000505236.1_Missense_Mutation_p.D405H|RELB_ENST00000540120.1_Missense_Mutation_p.D408H	NM_006509.3	NP_006500.2	Q01201	RELB_HUMAN	v-rel avian reticuloendotheliosis viral oncogene homolog B	408	RHD. {ECO:0000255|PROSITE- ProRule:PRU00265}.				antigen processing and presentation (GO:0019882)|circadian regulation of gene expression (GO:0032922)|myeloid dendritic cell differentiation (GO:0043011)|NIK/NF-kappaB signaling (GO:0038061)|positive regulation of gene expression (GO:0010628)|T-helper 1 cell differentiation (GO:0045063)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|nucleus (GO:0005634)	core promoter binding (GO:0001047)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			breast(1)|endometrium(1)|kidney(2)|large_intestine(1)|lung(3)|ovary(3)|skin(1)	12		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00986)		CTACGGCGTGGACAAGAAGCG	0.463																																																0													54	57	56					19																	45537516		1940	4138	6078	SO:0001583	missense	5971			M83221	CCDS46110.1	19q13.32	2013-07-09	2013-07-09		ENSG00000104856	ENSG00000104856			9956	protein-coding gene	gene with protein product		604758	"v-rel avian reticuloendotheliosis viral oncogene homolog B (nuclear factor of kappa light polypeptide gene enhancer in B-cells 3)"			1531086	Standard	NM_006509		Approved	REL-B	uc021uvp.1	Q01201	OTTHUMG00000162116	ENST00000221452.8:c.1222G>C	19.37:g.45537516G>C	ENSP00000221452:p.Asp408His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GTX7|Q9UEI7	Missense_Mutation	SNP	ENST00000221452.8	37	CCDS46110.1	.	.	.	.	.	.	.	.	.	.	G	14.41	2.526283	0.44969	.	.	ENSG00000104856	ENST00000221452;ENST00000540120;ENST00000505236	T;T;T	0.44881	0.91;0.91;0.91	5.0	5.0	0.66597	.	0.446106	0.22395	N	0.060623	T	0.24122	0.0584	N	0.14661	0.345	0.40606	D	0.981628	P	0.35272	0.493	B	0.26094	0.066	T	0.10660	-1.0620	10	0.34782	T	0.22	-0.0751	13.6656	0.62393	0.0:0.0:1.0:0.0	.	405	D6R992	.	H	408;408;405	ENSP00000221452:D408H;ENSP00000445542:D408H;ENSP00000423287:D405H	ENSP00000221452:D408H	D	+	1	0	RELB	50229356	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	1.846000	0.39289	2.603000	0.88011	0.563000	0.77884	GAC		0.463	RELB-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000367361.2			C	45537516	G	C	45537516	3	2	671	1	0	0	0	0	1	0	0	0	13230	1174	41	4	1252	4	RELB	19	45537516	Missense_Mutation	SNP	G	TCGA-KN-8435-01A-11D-2310-10	25888308	45537516	13591467	69	43189										
ZNF787	126208	broad.mit.edu	37	chr19	56599998	56599998	+	Frame_Shift_Del	DEL	C	C	-													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ctgaagccgcggccgcagcgCgggcacacgaagggcttgag							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr19:56599998delC	ENST00000270459.3	-	3	661	c.543delG	c.(541-543)ccgfs	p.P181fs		NM_001002836.2	NP_001002836	Q6DD87	ZN787_HUMAN	zinc finger protein 787	181					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(1)|lung(2)|pancreas(1)	5		Colorectal(82;3.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0559)		GGCCGCAGCGCGGGCACACGA	0.731																																																0										17,3769		5,7,1881	4	5	5			3.7	1	19		5	22,7600		5,12,3794	no	frameshift	ZNF787	NM_001002836.2		10,19,5675	A1A1,A1R,RR		0.2886,0.449,0.3419			56599998	39,11369	1997	4032	6029	SO:0001589	frameshift_variant	126208			BC077728, AF000560	CCDS42634.1	19q13.42	2013-01-08				ENSG00000142409		"Zinc fingers, C2H2-type"	26998	protein-coding gene	gene with protein product							Standard	NM_001002836		Approved		uc010eth.1	Q6DD87		ENST00000270459.3:c.543delG	19.37:g.56599998delC	ENSP00000270459:p.Pro181fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00455	Frame_Shift_Del	DEL	ENST00000270459.3	37	CCDS42634.1																																																																																				0.731	ZNF787-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457498.1	NM_001002836		-	56599998	C	-	56599998	7	5	671	1	0	1	0	1	0	0	0	0	18171	755	27	0	612	0	ZNF787	19	56599998	Frame_Shift_Del	DEL	C	TCGA-KN-8435-01A-11D-2310-10	11062482	56599998	2528985	70	43190										
ZNF548	147694	broad.mit.edu	37	chr19	57911165	57911166	+	Frame_Shift_Ins	INS	-	-	TT													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	aatccacagtgaagagaggcINSttgtgtgctccatgaatgtg							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr19:57911165_57911166insTT	ENST00000366197.5	+	3	1760_1761	c.1510_1511insTT	c.(1510-1512)cttfs	p.L504fs	AC004076.7_ENST00000597410.1_Intron|AC003002.6_ENST00000596400.1_Intron|AC003002.6_ENST00000600421.1_Intron|ZNF548_ENST00000336128.7_Frame_Shift_Ins_p.L516fs	NM_152909.3	NP_690873.2	Q8NEK5	ZN548_HUMAN	zinc finger protein 548	504					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(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;0.026)		TGAAGAGAGGCTTGTGTGCTCC	0.416																																																0																																										SO:0001589	frameshift_variant	147694			AK057494	CCDS46209.1, CCDS54324.1	19q13.43	2013-01-08				ENSG00000188785		"Zinc fingers, C2H2-type", "-"	26561	protein-coding gene	gene with protein product						12477932	Standard	NM_152909		Approved	FLJ32932	uc002qon.3	Q8NEK5		ENST00000366197.5:c.1511_1512dupTT	19.37:g.57911166_57911167dupTT	ENSP00000379482:p.Leu504fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q96M05	Frame_Shift_Ins	INS	ENST00000366197.5	37	CCDS46209.1																																																																																				0.416	ZNF548-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000465937.1	NM_152909		TT	57911166	-	TT	57911165	7	5	671	1	0	1	1	0	0	0	0	0	17992	797	28	0	1560	0	ZNF548	19	57911165	Frame_Shift_Ins	INS	-	TCGA-KN-8435-01A-11D-2310-10	1311167	57911165	1217818	71	43191										
ZNF584	201514	mdanderson.org	37	chr19	58921398	58921398	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	agtgggggctccttaatgtgAcccagaagggcctataccgg	14	10	0	2			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr19:58921398A>G	ENST00000306910.4	+	2	632	c.109A>G	c.(109-111)Acc>Gcc	p.T37A	ZNF584_ENST00000593920.1_5'UTR|ZNF584_ENST00000322834.7_Missense_Mutation_p.T29A|ZNF584_ENST00000596921.1_Intron|ZNF584_ENST00000599238.1_5'UTR|ZNF584_ENST00000596281.1_Intron|CTD-2619J13.14_ENST00000593393.1_lincRNA	NM_173548.1	NP_775819.1	Q8IVC4	ZN584_HUMAN	zinc finger protein 584	37	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|kidney(3)|large_intestine(3)|lung(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	14		all_cancers(17;5.3e-17)|all_epithelial(17;3.71e-12)|Lung NSC(17;8.3e-05)|Colorectal(82;0.000147)|all_lung(17;0.000386)|Renal(17;0.00528)|all_neural(62;0.0133)|Ovarian(87;0.156)|Medulloblastoma(540;0.232)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0271)		CCTTAATGTGACCCAGAAGGG	0.537																																																0													178	155	163					19																	58921398		2203	4300	6503	SO:0001583	missense	201514			AK097218	CCDS12979.1	19q13.43	2013-01-08			ENSG00000171574	ENSG00000171574		"Zinc fingers, C2H2-type", "-"	27318	protein-coding gene	gene with protein product							Standard	NM_173548		Approved	FLJ39899	uc002qsp.3	Q8IVC4		ENST00000306910.4:c.109A>G	19.37:g.58921398A>G	ENSP00000306756:p.Thr37Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K203	Missense_Mutation	SNP	ENST00000306910.4	37	CCDS12979.1	.	.	.	.	.	.	.	.	.	.	A	0.472	-0.883756	0.02530	.	.	ENSG00000171574	ENST00000306910;ENST00000322834	T;T	0.01313	5.02;5.02	3.92	-3.28	0.05033	Krueppel-associated box (4);	.	.	.	.	T	0.00524	0.0017	N	0.01761	-0.735	0.09310	N	1	B;B	0.19073	0.033;0.002	B;B	0.18263	0.021;0.007	T	0.46176	-0.9210	9	0.02654	T	1	.	3.6587	0.08230	0.3759:0.0:0.3426:0.2815	.	29;37	F6W0P0;Q8IVC4	.;ZN584_HUMAN	A	37;29	ENSP00000306756:T37A;ENSP00000320731:T29A	ENSP00000306756:T37A	T	+	1	0	ZNF584	63613210	0.000000	0.05858	0.065000	0.19835	0.996000	0.88848	-3.011000	0.00647	-0.263000	0.09378	0.454000	0.30748	ACC		0.537	ZNF584-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467022.1	NM_173548		G	58921398	A	G	58921398	3	3	671	1	0	0	0	0	1	0	0	0	18028	275	10	3	115	3	ZNF584	19	58921398	Missense_Mutation	SNP	A	TCGA-KN-8435-01A-11D-2310-10	1010233	58921398	207585	72	43192										
PCNA	5111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	5099481	5099481	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ccttagtgtaatgatatcttCattgccggcgcattttagta	8	8	2	1			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr20:5099481C>G	ENST00000379160.3	-	3	495	c.253G>C	c.(253-255)Gaa>Caa	p.E85Q	PCNA_ENST00000379143.5_Missense_Mutation_p.E85Q|SNORA26_ENST00000391215.1_RNA	NM_002592.2	NP_002583.1	P12004	PCNA_HUMAN	proliferating cell nuclear antigen	85	Interaction with NUDT15.				base-excision repair (GO:0006284)|cell proliferation (GO:0008283)|DNA repair (GO:0006281)|DNA strand elongation involved in DNA replication (GO:0006271)|epithelial cell differentiation (GO:0030855)|G1/S transition of mitotic cell cycle (GO:0000082)|heart development (GO:0007507)|leading strand elongation (GO:0006272)|mismatch repair (GO:0006298)|mitotic cell cycle (GO:0000278)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair, DNA gap filling (GO:0006297)|positive regulation of deoxyribonuclease activity (GO:0032077)|regulation of DNA replication (GO:0006275)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)|response to cadmium ion (GO:0046686)|response to lipid (GO:0033993)|telomere maintenance (GO:0000723)|telomere maintenance via recombination (GO:0000722)|telomere maintenance via semi-conservative replication (GO:0032201)|transcription-coupled nucleotide-excision repair (GO:0006283)|translesion synthesis (GO:0019985)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|DNA replication factor C complex (GO:0005663)|extracellular vesicular exosome (GO:0070062)|nuclear replication fork (GO:0043596)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PCNA complex (GO:0043626)|PCNA-p21 complex (GO:0070557)	dinucleotide insertion or deletion binding (GO:0032139)|DNA polymerase binding (GO:0070182)|DNA polymerase processivity factor activity (GO:0030337)|identical protein binding (GO:0042802)|MutLalpha complex binding (GO:0032405)|purine-specific mismatch base pair DNA N-glycosylase activity (GO:0000701)|receptor tyrosine kinase binding (GO:0030971)			endometrium(2)|kidney(1)|large_intestine(4)|lung(2)	9						ATGATATCTTCATTGCCGGCG	0.448								DNA polymerases (catalytic subunits)																																								0													210	202	205					20																	5099481		2203	4300	6503	SO:0001583	missense	5111			J04718	CCDS13087.1	20p13-p12.3	2013-09-19			ENSG00000132646	ENSG00000132646			8729	protein-coding gene	gene with protein product		176740				2565339	Standard	NM_002592		Approved		uc002wlp.3	P12004	OTTHUMG00000031798	ENST00000379160.3:c.253G>C	20.37:g.5099481C>G	ENSP00000368458:p.Glu85Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2R897|D3DW02	Missense_Mutation	SNP	ENST00000379160.3	37	CCDS13087.1	.	.	.	.	.	.	.	.	.	.	C	21.9	4.219431	0.79464	.	.	ENSG00000132646	ENST00000379143;ENST00000379160	.	.	.	4.81	4.81	0.61882	Proliferating cell nuclear antigen, PCNA, N-terminal (1);	0.046072	0.85682	D	0.000000	T	0.66356	0.2781	M	0.62723	1.935	0.80722	D	1	P;B	0.38048	0.616;0.162	B;B	0.43194	0.411;0.261	T	0.70927	-0.4739	9	0.62326	D	0.03	-17.6534	16.6123	0.84886	0.0:1.0:0.0:0.0	.	85;85	B4DUA2;P12004	.;PCNA_HUMAN	Q	85	.	ENSP00000368438:E85Q	E	-	1	0	PCNA	5047481	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	7.322000	0.79097	2.471000	0.83476	0.563000	0.77884	GAA		0.448	PCNA-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077852.2			G	5099481	C	G	5099481	3	3	671	1	0	0	0	0	1	0	0	0	11595	835	29	4	552	4	PCNA	20	5099481	Missense_Mutation	SNP	C	TCGA-KN-8435-01A-11D-2310-10		5099481	57926039	73	43193										
NECAB3	63941	broad.mit.edu;hgsc.bcm.edu	37	chr20	32258501	32258501	+	Frame_Shift_Del	DEL	C	C	-													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	catactcactcggtgagatgCccatcaatgccgctgaacag					rs576975573		TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr20:32258501delC	ENST00000246190.6	-	3	307	c.252delG	c.(250-252)gggfs	p.G84fs	NECAB3_ENST00000375238.4_Frame_Shift_Del_p.G84fs	NM_031232.3	NP_112509.3	Q96P71	NECA3_HUMAN	N-terminal EF-hand calcium binding protein 3	84					protein metabolic process (GO:0019538)|protein secretion (GO:0009306)|regulation of amyloid precursor protein biosynthetic process (GO:0042984)	cytoplasm (GO:0005737)|endoplasmic reticulum membrane (GO:0005789)|Golgi cis cisterna (GO:0000137)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)			large_intestine(3)|lung(5)|skin(2)	10						CGGTGAGATGCCCATCAATGC	0.547																																																0													61	65	64					20																	32258501		1980	4161	6141	SO:0001589	frameshift_variant	63941			AB039947	CCDS42866.1, CCDS42867.1	20q11.21	2013-01-10	2007-12-06	2007-12-06	ENSG00000125967	ENSG00000125967		"N-terminal EF-hand calcium binding proteins", "EF-hand domain containing"	15851	protein-coding gene	gene with protein product	"EF-hand calcium binding protein 3"	612478	"amyloid beta (A4) precursor protein-binding, family A, member 2 binding protein"	SYTIP2, APBA2BP		10833507	Standard	NM_031232		Approved	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3	uc002wzn.4	Q96P71	OTTHUMG00000032264	ENST00000246190.6:c.252delG	20.37:g.32258501delC	ENSP00000246190:p.Gly84fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K780|E1P5N2|Q5JWF5|Q5JWF6|Q5JWF7|Q86VV1|Q9H433|Q9H8G8|Q9HBW7|Q9HCQ9	Frame_Shift_Del	DEL	ENST00000246190.6	37	CCDS42866.1																																																																																				0.547	NECAB3-010	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000078724.2			-	32258501	C	-	32258501	7	5	671	1	0	1	0	1	0	0	0	0	10313	726	26	0	978	0	NECAB3	20	32258501	Frame_Shift_Del	DEL	C	TCGA-KN-8435-01A-11D-2310-10	27159020	32258501	30767019	74	43194	424	2								
NECAB3	63941	bcgsc.ca	37	chr20	32258502	32258502	+	Frame_Shift_Del	DEL	C	C	-													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	atactcactcggtgagatgcCcatcaatgccgctgaacagt							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr20:32258502delC	ENST00000246190.6	-	3	306	c.251delG	c.(250-252)gggfs	p.G84fs	NECAB3_ENST00000375238.4_Frame_Shift_Del_p.G84fs	NM_031232.3	NP_112509.3	Q96P71	NECA3_HUMAN	N-terminal EF-hand calcium binding protein 3	84					protein metabolic process (GO:0019538)|protein secretion (GO:0009306)|regulation of amyloid precursor protein biosynthetic process (GO:0042984)	cytoplasm (GO:0005737)|endoplasmic reticulum membrane (GO:0005789)|Golgi cis cisterna (GO:0000137)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)			large_intestine(3)|lung(5)|skin(2)	10						GGTGAGATGCCCATCAATGCC	0.552																																																0													62	66	65					20																	32258502		1979	4159	6138	SO:0001589	frameshift_variant	63941			AB039947	CCDS42866.1, CCDS42867.1	20q11.21	2013-01-10	2007-12-06	2007-12-06	ENSG00000125967	ENSG00000125967		"N-terminal EF-hand calcium binding proteins", "EF-hand domain containing"	15851	protein-coding gene	gene with protein product	"EF-hand calcium binding protein 3"	612478	"amyloid beta (A4) precursor protein-binding, family A, member 2 binding protein"	SYTIP2, APBA2BP		10833507	Standard	NM_031232		Approved	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3	uc002wzn.4	Q96P71	OTTHUMG00000032264	ENST00000246190.6:c.251delG	20.37:g.32258502delC	ENSP00000246190:p.Gly84fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K780|E1P5N2|Q5JWF5|Q5JWF6|Q5JWF7|Q86VV1|Q9H433|Q9H8G8|Q9HBW7|Q9HCQ9	Frame_Shift_Del	DEL	ENST00000246190.6	37	CCDS42866.1																																																																																				0.552	NECAB3-010	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000078724.2			-	32258502	C	-	32258502	7	5	671	1	0	1	0	1	0	0	0	0	10313	623	22	0	979	0	NECAB3	20	32258502	Frame_Shift_Del	DEL	C	TCGA-KN-8435-01A-11D-2310-10	1	32258502	30767018	75	43195	424	2								
GGT7	2686	broad.mit.edu	37	chr20	33447370	33447371	+	Frame_Shift_Ins	INS	-	-	G													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	cgagccaggtagtggcgggcINSggcccgatggcaggaacgtc							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr20:33447370_33447371insG	ENST00000336431.5	-	7	933_934	c.889_890insC	c.(889-891)cgcfs	p.R297fs		NM_178026.2	NP_821158.2	Q9UJ14	GGT7_HUMAN	gamma-glutamyltransferase 7	297					glutathione biosynthetic process (GO:0006750)|glutathione metabolic process (GO:0006749)|leukotriene biosynthetic process (GO:0019370)	anchored component of external side of plasma membrane (GO:0031362)|integral component of membrane (GO:0016021)	gamma-glutamyltransferase activity (GO:0003840)|glutathione hydrolase activity (GO:0036374)	p.R297H(1)		NS(2)|breast(1)|kidney(3)|large_intestine(5)|lung(6)|ovary(1)|skin(2)	20						TAGTGGCGGGCGGCCCGATGGC	0.688																																																1	Substitution - Missense(1)	lung(1)																																								SO:0001589	frameshift_variant	2686			AL049709	CCDS13242.2	20q11.22	2008-11-24	2008-03-10	2008-03-10	ENSG00000131067	ENSG00000131067		"Gamma-glutamyltransferases"	4259	protein-coding gene	gene with protein product		612342	"gamma-glutamyltransferase-like 3"	GGTL5, GGTL3		8104871, 18357469	Standard	NM_178026		Approved	D20S101, dJ18C9.2	uc002xay.3	Q9UJ14	OTTHUMG00000032314	ENST00000336431.5:c.890dupC	20.37:g.33447372_33447372dupG	ENSP00000338964:p.Arg297fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N899|Q8NF66|Q9BYP5|Q9BYP6	Frame_Shift_Ins	INS	ENST00000336431.5	37	CCDS13242.2																																																																																				0.688	GGT7-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000078816.2	NM_178026		G	33447371	-	G	33447370	7	5	671	1	0	1	1	0	0	0	0	0	6371	768	27	0	1134	0	GGT7	20	33447370	Frame_Shift_Ins	INS	-	TCGA-KN-8435-01A-11D-2310-10	1188868	33447370	29578150	76	43196										
MFNG	4242	broad.mit.edu	37	chr22	37875491	37875491	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	gctctcagaagctgcagcagCgcccttgggttcacatagtt	11	12	2	1			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr22:37875491C>T	ENST00000356998.3	-	4	676	c.453G>A	c.(451-453)gcG>gcA	p.A151A	MFNG_ENST00000416983.3_Silent_p.A137A	NM_002405.3	NP_002396.2	O00587	MFNG_HUMAN	MFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	151					pattern specification process (GO:0007389)|positive regulation of Notch signaling pathway (GO:0045747)|positive regulation of protein binding (GO:0032092)	extracellular space (GO:0005615)|integral component of Golgi membrane (GO:0030173)	metal ion binding (GO:0046872)|O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase activity (GO:0033829)			large_intestine(2)|lung(2)|skin(1)	5	Melanoma(58;0.0574)					GCTGCAGCAGCGCCCTTGGGT	0.612																																																0													90	77	81					22																	37875491		2203	4300	6503	SO:0001819	synonymous_variant	4242			BC094814	CCDS13947.1, CCDS54525.1	22q13.1	2013-02-19	2006-11-13		ENSG00000100060	ENSG00000100060	2.4.1.222	"Beta 3-glycosyltransferases"	7038	protein-coding gene	gene with protein product		602577	"manic fringe (Drosophila) homolog", "manic fringe homolog (Drosophila)"			9878264, 9187150	Standard	NM_002405		Approved		uc003ass.2	O00587	OTTHUMG00000150560	ENST00000356998.3:c.453G>A	22.37:g.37875491C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DLT6|O43730|Q504S9	Silent	SNP	ENST00000356998.3	37	CCDS13947.1																																																																																				0.612	MFNG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318902.1	NM_002405		T	37875491	C	T	37875491	2	4	671	1	0	0	0	0	0	0	0	1	9532	755	27	1		1	MFNG	22	37875491	Silent	SNP	C	TCGA-KN-8435-01A-11D-2310-10		37875491	13429075	77	43197										
SYNGR1	9145	broad.mit.edu	37	chr22	39777835	39777836	+	Frame_Shift_Ins	INS	-	-	C													0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	tggagcccactgggccggatINScccgccggtatgggcggcac							TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr22:39777835_39777836insC	ENST00000328933.5	+	4	633_634	c.618_619insC	c.(619-621)cccfs	p.P207fs		NM_004711.4	NP_004702.2	O43759	SNG1_HUMAN	synaptogyrin 1	207					protein targeting (GO:0006605)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of short-term neuronal synaptic plasticity (GO:0048172)	cell junction (GO:0030054)|integral component of membrane (GO:0016021)|synaptic vesicle membrane (GO:0030672)				endometrium(1)|kidney(1)|large_intestine(1)|lung(3)|skin(1)	7	Melanoma(58;0.04)					CTGGGCCGGATCCCGCCGGTAT	0.673																																																0																																										SO:0001589	frameshift_variant	9145			AJ002303	CCDS13989.1, CCDS13990.1, CCDS13991.1	22q13	2008-06-10			ENSG00000100321	ENSG00000100321			11498	protein-coding gene	gene with protein product		603925				9760194, 10595519	Standard	NM_004711		Approved			O43759	OTTHUMG00000030978	ENST00000328933.5:c.621dupC	22.37:g.39777838_39777838dupC	ENSP00000332287:p.Pro207fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NP69|A8K0E2|O43757|O43758|Q53Y02|Q96J56|Q9UGZ4	Frame_Shift_Ins	INS	ENST00000328933.5	37	CCDS13989.1																																																																																				0.673	SYNGR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075866.2	NM_004711		C	39777836	-	C	39777835	7	5	671	1	0	1	1	0	0	0	0	0	15460	1432	50	0	835	0	SYNGR1	22	39777835	Frame_Shift_Ins	INS	-	TCGA-KN-8435-01A-11D-2310-10	1902344	39777835	11526731	78	43198										
BRD1	23774	broad.mit.edu;mdanderson.org	37	chr22	50216913	50216913	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	gccttctgggcacacgtcacAtggaatgctgtgtagcagtt	12	10	2	0			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chr22:50216913A>G	ENST00000216267.8	-	1	1539	c.1053T>C	c.(1051-1053)caT>caC	p.H351H	BRD1_ENST00000404034.1_Silent_p.H351H|BRD1_ENST00000457780.2_Silent_p.H351H|BRD1_ENST00000459821.1_5'UTR|BRD1_ENST00000542442.1_5'UTR|BRD1_ENST00000342989.5_5'Flank|BRD1_ENST00000404760.1_Silent_p.H351H	NM_014577.1	NP_055392.1	O95696	BRD1_HUMAN	bromodomain containing 1	351					histone H3 acetylation (GO:0043966)	MOZ/MORF histone acetyltransferase complex (GO:0070776)|nucleus (GO:0005634)	histone binding (GO:0042393)|zinc ion binding (GO:0008270)			endometrium(6)|kidney(3)|large_intestine(5)|lung(17)|ovary(1)|pancreas(1)|prostate(3)|skin(1)	37		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CACACGTCACATGGAATGCTG	0.562																																																0													135	130	132					22																	50216913		2203	4300	6503	SO:0001819	synonymous_variant	23774			AF005067	CCDS14080.1	22q13.33	2008-07-01	2002-01-14		ENSG00000100425	ENSG00000100425			1102	protein-coding gene	gene with protein product	"BR140-like"	604589	"bromodomain-containing 1"			10591208, 10602503	Standard	NM_014577		Approved	BRL, BRPF2	uc003biv.3	O95696	OTTHUMG00000150288	ENST00000216267.8:c.1053T>C	22.37:g.50216913A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6ZJA4	Silent	SNP	ENST00000216267.8	37	CCDS14080.1																																																																																				0.562	BRD1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317402.1	NM_014577		G	50216913	A	G	50216913	2	3	671	1	0	0	0	0	0	0	0	1	1503	214	8	3		3	BRD1	22	50216913	Silent	SNP	A	TCGA-KN-8435-01A-11D-2310-10	10439078	50216913	1087653	79	43199										
USP11	8237	mdanderson.org	37	chrX	47092432	47092432	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ctgcgttggctgtagaagagAacggacggcgatggcgacgg	18	8	0	2			TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chrX:47092432A>G	ENST00000218348.3	+	1	119	c.119A>G	c.(118-120)gAa>gGa	p.E40G	USP11_ENST00000377107.2_5'UTR	NM_004651.3	NP_004642.2	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	40					protein deubiquitination (GO:0016579)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	cysteine-type endopeptidase activity (GO:0004197)|ubiquitin-specific protease activity (GO:0004843)			breast(2)|central_nervous_system(2)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(9)|lung(14)|ovary(3)|pancreas(1)|stomach(1)	40						TGTAGAAGAGAACGgacggcg	0.637																																																0													24	22	22					X																	47092432		2203	4299	6502	SO:0001583	missense	8237			U44839	CCDS14277.1	Xp11.23	2008-02-05	2005-08-08		ENSG00000102226	ENSG00000102226		"Ubiquitin-specific peptidases"	12609	protein-coding gene	gene with protein product		300050	"ubiquitin specific protease 11"			12838346	Standard	XM_005272674		Approved	UHX1	uc004dhp.3	P51784	OTTHUMG00000021437	ENST00000218348.3:c.119A>G	X.37:g.47092432A>G	ENSP00000218348:p.Glu40Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTX1|Q8IUG6|Q9BWE1	Missense_Mutation	SNP	ENST00000218348.3	37	CCDS14277.1	.	.	.	.	.	.	.	.	.	.	A	2.393	-0.339424	0.05243	.	.	ENSG00000102226	ENST00000218348	T	0.22336	1.96	4.53	0.72	0.18214	.	.	.	.	.	T	0.08088	0.0202	N	0.03608	-0.345	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.36696	-0.9737	9	0.27785	T	0.31	-1.3885	6.0165	0.19605	0.5144:0.0:0.4856:0.0	.	40	P51784	UBP11_HUMAN	G	40	ENSP00000218348:E40G	ENSP00000218348:E40G	E	+	2	0	USP11	46977376	0.008000	0.16893	0.041000	0.18516	0.014000	0.08584	0.710000	0.25748	0.095000	0.17434	-0.502000	0.04539	GAA		0.637	USP11-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_004651		G	47092432	A	G	47092432	3	3	671	1	0	0	0	0	1	0	0	0	17054	246	9	3	121	3	USP11	23	47092432	Missense_Mutation	SNP	A	TCGA-KN-8435-01A-11D-2310-10		47092432	108178128	80	43200										
GPR112	139378	mdanderson.org	37	chrX	135431236	135431236	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	ttaaaacaaccaccaattgcTtttcttctaatactagaaag	3	9	2	1	rs5930932	byFrequency	TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chrX:135431236T>C	ENST00000394143.1	+	6	5662	c.5371T>C	c.(5371-5373)Ttt>Ctt	p.F1791L	GPR112_ENST00000287534.4_Missense_Mutation_p.F1728L|GPR112_ENST00000394141.1_Missense_Mutation_p.F1586L|GPR112_ENST00000370652.1_Missense_Mutation_p.F1791L|GPR112_ENST00000412101.1_Missense_Mutation_p.F1586L	NM_153834.3	NP_722576.3	Q8IZF6	GP112_HUMAN	G protein-coupled receptor 112	1791			F -> L (in dbSNP:rs5930932).		G-protein coupled receptor signaling pathway (GO:0007186)|neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)	p.F1791L(1)		NS(2)|breast(13)|central_nervous_system(2)|cervix(3)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(33)|lung(97)|ovary(5)|pancreas(2)|prostate(4)|skin(10)|upper_aerodigestive_tract(1)|urinary_tract(2)	199	Acute lymphoblastic leukemia(192;0.000127)					CACCAATTGCTTTTCTTCTAA	0.383													c|||	1834	0.485828	0.4569	0.3617	3775	,	,		15609	0.2778		0.3797	False		,,,				2504	0.3241															1	Substitution - Missense(1)	prostate(1)							LEU/PHE	2257,1576		567,784,339,280,232	133	133	133		5371	-1.8	0	X	dbSNP_114	133	3229,3499		567,1181,914,680,958	yes	missense	GPR112	NM_153834.3	22	1134,1965,1253,960,1190	CC,CT,C,TT,T		47.9935,41.1166,48.0542	benign	1791/3081	135431236	5486,5075	2202	4300	6502	SO:0001583	missense	139378			AY140954	CCDS35409.1	Xq26.3	2014-08-08			ENSG00000156920	ENSG00000156920		"-", "GPCR / Class B : Orphans"	18992	protein-coding gene	gene with protein product						12435584	Standard	XM_005262367		Approved	RP1-299I16, PGR17	uc004ezu.1	Q8IZF6	OTTHUMG00000022508	ENST00000394143.1:c.5371T>C	X.37:g.135431236T>C	ENSP00000377699:p.Phe1791Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2J1|A2A2J2|Q5EGP2|Q86SM6	Missense_Mutation	SNP	ENST00000394143.1	37	CCDS35409.1	786	0.47377938517179025	152	0.4175824175824176	84	0.29577464788732394	112	0.24669603524229075	190	0.3242320819112628	c	0.020	-1.432654	0.01108	0.588834	0.479935	ENSG00000156920	ENST00000394143;ENST00000370652;ENST00000412101;ENST00000287534;ENST00000394141	T;T;T;T;T	0.20463	2.11;2.11;2.07;2.25;2.07	3.63	-1.78	0.07957	.	.	.	.	.	T	0.00012	0.0000	N	0.01352	-0.895	0.80722	P	0.0	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.37291	-0.9712	8	0.21014	T	0.42	.	5.3382	0.15969	0.0:0.2802:0.1606:0.5593	rs5930932;rs6635265;rs52832481;rs60264923;rs5930932	1728;1586;1791	Q8IZF6-2;Q8IZF6-3;Q8IZF6	.;.;GP112_HUMAN	L	1791;1791;1586;1728;1586	ENSP00000377699:F1791L;ENSP00000359686:F1791L;ENSP00000416526:F1586L;ENSP00000287534:F1728L;ENSP00000377697:F1586L	ENSP00000287534:F1728L	F	+	1	0	GPR112	135258902	0.000000	0.05858	0.000000	0.03702	0.004000	0.04260	-0.934000	0.03955	-1.013000	0.03383	-1.690000	0.00728	TTT		0.383	GPR112-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000286639.1			C	135431236	T	C	135431236	3	2	671	1	0	0	0	0	1	0	0	0	6636	1609	56	3	5381	3	GPR112	23	135431236	Missense_Mutation	SNP	T	TCGA-KN-8435-01A-11D-2310-10	88338804	135431236	19839324	81	43201										
CXorf1	9142	mdanderson.org	37	chrX	144909347	144909347	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0126582278481013	1	1	0.300498188405797	2.40398550724638	0	1	1	0	tttatctgctcaagcactttCgaccatattttattttagga	5	8	2	0	rs370861051		TCGA-KN-8435-01A-11D-2310-10	TCGA-KN-8435-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	715f59dd-a80f-422d-988c-f73f4b987baf	9cf36c04-1d2a-4e2f-902d-857033d208d3	g.chrX:144909347C>T	ENST00000408967.2	+	1	420	c.152C>T	c.(151-153)tCg>tTg	p.S51L		NM_004709.2	NP_004700.1	O96002	TM257_HUMAN	transmembrane protein 257	51						integral component of membrane (GO:0016021)		p.S51L(1)									CAAGCACTTTCGACCATATTT	0.313																																																1	Substitution - Missense(1)	large_intestine(1)						C	LEU/SER	1,3834		0,1,1631,571	87	86	86		152	-4.7	0	X		86	1,6725		0,1,2426,1872	no	missense	CXorf1	NM_004709.2	145	0,2,4057,2443	TT,TC,CC,C		0.0149,0.0261,0.0189	benign	51/112	144909347	2,10559	2203	4299	6502	SO:0001583	missense	9142			Y08902	CCDS14681.1	Xq27.3	2012-12-03	2012-12-03	2012-12-03	ENSG00000221870	ENSG00000221870			2562	protein-coding gene	gene with protein product		300565	"chromosome X open reading frame 1"	CXorf1		9881668	Standard	NM_004709		Approved		uc004fch.3	O96002	OTTHUMG00000159605	ENST00000408967.2:c.152C>T	X.37:g.144909347C>T	ENSP00000386149:p.Ser51Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q14CW0	Missense_Mutation	SNP	ENST00000408967.2	37	CCDS14681.1	.	.	.	.	.	.	.	.	.	.	C	3.263	-0.150696	0.06585	2.61E-4	1.49E-4	ENSG00000221870	ENST00000408967	T	0.54279	0.58	5.68	-4.68	0.03309	.	.	.	.	.	T	0.21962	0.0529	N	0.08118	0	0.09310	N	1	B	0.32051	0.354	B	0.23150	0.044	T	0.10894	-1.0610	9	0.87932	D	0	.	1.8321	0.03132	0.3277:0.1317:0.3753:0.1653	.	51	O96002	CX001_HUMAN	L	51	ENSP00000386149:S51L	ENSP00000386149:S51L	S	+	2	0	CXorf1	144717039	0.000000	0.05858	0.000000	0.03702	0.074000	0.17049	-0.690000	0.05138	-1.099000	0.03034	0.594000	0.82650	TCG		0.313	TMEM257-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356465.1	NM_004709		T	144909347	C	T	144909347	3	4	671	1	0	0	0	0	1	0	0	0	4102	893	31	1	154	1	CXorf1	23	144909347	Missense_Mutation	SNP	C	TCGA-KN-8435-01A-11D-2310-10	9478111	144909347	10361213	82	43202										
ENO1	2023	broad.mit.edu;mdanderson.org	37	chr1	8922983	8922983	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cttggccaagcgctcagatcGgcaaggggcaccagtcttga	13	12	2	2			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr1:8922983G>A	ENST00000234590.4	-	11	1317	c.1198C>T	c.(1198-1200)Cga>Tga	p.R400*		NM_001428.3	NP_001419.1	P06733	ENOA_HUMAN	enolase 1, (alpha)	400					carbohydrate metabolic process (GO:0005975)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|glycolytic process (GO:0006096)|negative regulation of cell growth (GO:0030308)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|response to virus (GO:0009615)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)|phosphopyruvate hydratase complex (GO:0000015)|plasma membrane (GO:0005886)	DNA binding (GO:0003677)|magnesium ion binding (GO:0000287)|phosphopyruvate hydratase activity (GO:0004634)|poly(A) RNA binding (GO:0044822)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|ovary(2)|stomach(1)|upper_aerodigestive_tract(1)	10	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;2.54e-20)|all_lung(118;2.99e-06)|Lung NSC(185;6.25e-06)|Renal(390;0.000147)|Breast(348;0.00086)|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;2.42e-07)|COAD - Colon adenocarcinoma(227;2.78e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00177)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|READ - Rectum adenocarcinoma(331;0.0642)		CGCTCAGATCGGCAAGGGGCA	0.562											OREG0013068	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																									Esophageal Squamous(21;302 608 19946 22210 33560)											0													69	63	65					1																	8922983		2203	4300	6503	SO:0001587	stop_gained	2023			BC022545	CCDS97.1	1p36.2	2010-03-11			ENSG00000074800	ENSG00000074800	4.2.1.11		3350	protein-coding gene	gene with protein product		172430		ENO1L1, MPB1		9653645, 9691177	Standard	NM_001428		Approved	PPH, MBP-1	uc001apj.2	P06733	OTTHUMG00000001773	ENST00000234590.4:c.1198C>T	1.37:g.8922983G>A	ENSP00000234590:p.Arg400*	Somatic	653	WXS	Illumina HiSeq	Phase_I	B2RD59|P22712|Q16704|Q4TUS4|Q53FT9|Q53HR3|Q658M5|Q6GMP2|Q71V37|Q7Z3V6|Q8WU71|Q96GV1|Q9BT62|Q9UCH6|Q9UM55	Nonsense_Mutation	SNP	ENST00000234590.4	37	CCDS97.1	.	.	.	.	.	.	.	.	.	.	G	38	6.671518	0.97751	.	.	ENSG00000074800	ENST00000234590	.	.	.	5.59	2.45	0.29901	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	9.2527	13.3525	0.60609	0.0:0.0:0.4613:0.5387	.	.	.	.	X	400	.	ENSP00000234590:R400X	R	-	1	2	ENO1	8845570	1.000000	0.71417	0.998000	0.56505	0.991000	0.79684	2.068000	0.41471	0.684000	0.31448	0.561000	0.74099	CGA		0.562	ENO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004945.1	NM_001428		A	8922983	G	A	8922983	4	1	672	1	0	0	0	0	0	1	0	0	5123	1124	39	1	114	1	ENO1	1	8922983	Nonsense_Mutation	SNP	G	TCGA-KN-8436-01A-11D-2310-10		8922983	240327638	1	43203										
PRAMEF2	65122	mdanderson.org	37	chr1	12919552	12919552	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cttactttacccacaggaggTggaaacttcaagtgctggat	10	9	1	0	rs74056159		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr1:12919552T>C	ENST00000240189.2	+	3	379	c.292T>C	c.(292-294)Tgg>Cgg	p.W98R		NM_023014.1	NP_075390.1	O60811	PRAM2_HUMAN	PRAME family member 2	98					negative regulation of apoptotic process (GO:0043066)|negative regulation of cell differentiation (GO:0045596)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)					breast(2)|endometrium(1)|kidney(2)|large_intestine(2)|lung(22)|prostate(6)|skin(3)|upper_aerodigestive_tract(4)	42	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCACAGGAGGTGGAAACTTCA	0.517																																																0													76	93	88					1																	12919552		2189	4294	6483	SO:0001583	missense	65122				CCDS149.1	1p36.21	2013-01-17			ENSG00000120952	ENSG00000120952		"-"	28841	protein-coding gene	gene with protein product							Standard	NM_023014		Approved	FLJ43580	uc001aum.1	O60811	OTTHUMG00000001986	ENST00000240189.2:c.292T>C	1.37:g.12919552T>C	ENSP00000240189:p.Trp98Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000240189.2	37	CCDS149.1	.	.	.	.	.	.	.	.	.	.	T	2.064	-0.414612	0.04766	.	.	ENSG00000120952	ENST00000240189	T	0.16597	2.33	0.842	-1.68	0.08212	.	0.789017	0.12038	N	0.505349	T	0.09642	0.0237	L	0.37697	1.125	0.09310	N	1	B	0.14805	0.011	B	0.18561	0.022	T	0.37934	-0.9684	10	0.22109	T	0.4	.	1.3967	0.02262	0.3312:0.2798:0.0:0.3889	.	98	O60811	PRAM2_HUMAN	R	98	ENSP00000240189:W98R	ENSP00000240189:W98R	W	+	1	0	PRAMEF2	12842139	0.000000	0.05858	0.024000	0.17045	0.040000	0.13550	-0.349000	0.07731	-0.932000	0.03742	0.163000	0.16589	TGG		0.517	PRAMEF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005517.1	NM_023014		C	12919552	T	C	12919552	3	2	672	1	0	0	0	0	1	0	0	0	12445	1696	59	3	298	3	PRAMEF2	1	12919552	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	3996569	12919552	236331069	2	43204										
C1orf177	163747	bcgsc.ca	37	chr1	55279488	55279488	+	Splice_Site	DEL	A	A	-													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ttttctctctttttcttagaAaaaaaagcccagggaactga							TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr1:55279488delA	ENST00000371273.3	+	7	779	c.764delA	c.(763-765)aaa>aa	p.K257fs	C1orf177_ENST00000358193.3_Splice_Site_p.K257fs	NM_001110533.1	NP_001104003	Q3ZCV2	CA177_HUMAN	chromosome 1 open reading frame 177	257										breast(1)|cervix(1)|kidney(1)|large_intestine(6)|lung(6)|prostate(2)	17						TTTTCTTAGAAAAAAAAGCCC	0.418																																																0													49	56	54					1																	55279488		2203	4300	6503	SO:0001630	splice_region_variant	163747			AK097520	CCDS599.1, CCDS44153.1	1p32.3	2012-07-25			ENSG00000162398	ENSG00000162398			26854	protein-coding gene	gene with protein product							Standard	NM_152607		Approved	FLJ40201	uc001cyb.4	Q3ZCV2	OTTHUMG00000009986	ENST00000371273.3:c.763-1A>-	1.37:g.55279488delA		Somatic		WXS	Illumina HiSeq	Phase_I	B7WPL2|Q8N7Y9	Frame_Shift_Del	DEL	ENST00000371273.3	37	CCDS44153.1																																																																																				0.418	C1orf177-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000027674.1	NM_152607	Frame_Shift_Del	-	55279488	A	-	55279488	8	5	672	1	0	1	0	1	0	0	1	0	2019	28	1	0	790	0	C1orf177	1	55279488	Splice_Site	DEL	A	TCGA-KN-8436-01A-11D-2310-10	42359936	55279488	193971133	3	43205										
NBPF10	100132406	mdanderson.org	37	chr1	145368524	145368524	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ttattcgactccgtcaatgtActttgaactacctgactcat	5	11	2	2	rs111770733	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr1:145368524A>T	ENST00000369339.3	+	17	2109	c.1856A>T	c.(1855-1857)tAc>tTc	p.Y619F	NBPF10_ENST00000369338.1_Missense_Mutation_p.Y617F|NBPF10_ENST00000342960.5_Missense_Mutation_p.Y3501F			Q6P3W6	NBPFA_HUMAN	neuroblastoma breakpoint family, member 10	796	NBPF 4. {ECO:0000255|PROSITE- ProRule:PRU00647}.					cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(3)|breast(1)|central_nervous_system(3)|endometrium(12)|kidney(23)|lung(15)|ovary(1)|prostate(7)|skin(6)|urinary_tract(2)	73	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		CCGTCAATGTACTTTGAACTA	0.448													.|||	31	0.0061901	0.0159	0.0	5008	,	,		51851	0.001		0.002	False		,,,				2504	0.0072															0																																										SO:0001583	missense	100132406			BC021111		1q21.1	2013-01-17			ENSG00000163386	ENSG00000271425		"neuroblastoma breakpoint family"	31992	protein-coding gene	gene with protein product		614000				16079250	Standard	NM_001039703		Approved	AG1		Q6P3W6	OTTHUMG00000013757	ENST00000369339.3:c.1856A>T	1.37:g.145368524A>T	ENSP00000358345:p.Tyr619Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q5RHC0|Q9NWN6	Missense_Mutation	SNP	ENST00000369339.3	37		.	.	.	.	.	.	.	.	.	.	.	0.426	-0.905953	0.02453	.	.	ENSG00000163386	ENST00000369339;ENST00000369338;ENST00000342960	T;T	0.07327	3.2;3.2	0.732	-1.46	0.08800	.	.	.	.	.	T	0.02571	0.0078	M	0.70595	2.14	0.09310	N	1	B	0.14805	0.011	B	0.24006	0.05	T	0.45848	-0.9233	9	0.34782	T	0.22	.	1.3992	0.02267	0.3771:0.0:0.2897:0.3332	.	565	Q4VC10	.	F	621;617;3501	ENSP00000358344:Y617F;ENSP00000345684:Y3501F	ENSP00000345684:Y3501F	Y	+	2	0	NBPF10	144079881	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-1.188000	0.03064	-1.054000	0.03214	0.316000	0.21350	TAC		0.448	NBPF10-001	KNOWN	not_best_in_genome_evidence|basic	protein_coding	protein_coding	OTTHUMT00000038550.3	NM_001039703		T	145368524	A	T	145368524	3	4	672	1	0	0	0	0	1	0	0	0	10200	391	14	5	10836	5	NBPF10	1	145368524	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	90089036	145368524	103882097	4	43206										
DPM3	54344	broad.mit.edu	37	chr1	155112594	155112594	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gacaccagcaagtaggcgggCagtggccacaggacttcctg	14	12	0	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr1:155112594C>A	ENST00000341298.3	-	2	258	c.123G>T	c.(121-123)ctG>ctT	p.L41L	DPM3_ENST00000368399.1_Silent_p.L71L|DPM3_ENST00000368400.4_Silent_p.L41L			Q9P2X0	DPM3_HUMAN	dolichyl-phosphate mannosyltransferase polypeptide 3	41					C-terminal protein lipidation (GO:0006501)|carbohydrate metabolic process (GO:0005975)|cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|GPI anchor biosynthetic process (GO:0006506)|post-translational protein modification (GO:0043687)|protein C-linked glycosylation via 2'-alpha-mannosyl-L-tryptophan (GO:0018406)|protein mannosylation (GO:0035268)|protein N-linked glycosylation via asparagine (GO:0018279)|protein O-linked mannosylation (GO:0035269)|regulation of protein stability (GO:0031647)	dolichol-phosphate-mannose synthase complex (GO:0033185)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of endoplasmic reticulum membrane (GO:0030176)|mannosyltransferase complex (GO:0031501)|membrane (GO:0016020)				endometrium(2)	2	all_epithelial(22;4.71e-30)|all_lung(78;3.15e-27)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;2.28e-10)|all cancers(21;6.16e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000395)|LUSC - Lung squamous cell carcinoma(543;0.193)			AGTAGGCGGGCAGTGGCCACA	0.662																																																0													32	33	33					1																	155112594		2202	4299	6501	SO:0001819	synonymous_variant	54344			AB028128	CCDS1094.1, CCDS1095.1	1q22	2013-02-26			ENSG00000179085	ENSG00000179085			3007	protein-coding gene	gene with protein product	"DPM synthase complex subunit"	605951				10835346	Standard	NM_018973		Approved	MGC34275, MGC125904, MGC125905	uc001fhm.3	Q9P2X0	OTTHUMG00000035335	ENST00000341298.3:c.123G>T	1.37:g.155112594C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SR62|Q5SR63|Q9BXN4|Q9BXN5	Silent	SNP	ENST00000341298.3	37	CCDS1095.1																																																																																				0.662	DPM3-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085519.1	NM_153741		A	155112594	C	A	155112594	2	1	672	1	0	0	0	0	0	0	0	1	4728	697	25	4		4	DPM3	1	155112594	Silent	SNP	C	TCGA-KN-8436-01A-11D-2310-10	9744070	155112594	94138027	5	43207										
USH2A	7399	broad.mit.edu;bcgsc.ca	37	chr1	215953292	215953292	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cgtttgatttctcagggacaCtccagctcagatgcagagcc	10	12	2	3			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr1:215953292C>T	ENST00000307340.3	-	55	11218	c.10832G>A	c.(10831-10833)aGt>aAt	p.S3611N	USH2A_ENST00000366943.2_Missense_Mutation_p.S3611N	NM_206933.2	NP_996816	O75445	USH2A_HUMAN	Usher syndrome 2A (autosomal recessive, mild)	3611	Fibronectin type-III 21. {ECO:0000255|PROSITE-ProRule:PRU00316}.				hair cell differentiation (GO:0035315)|inner ear receptor cell differentiation (GO:0060113)|maintenance of organ identity (GO:0048496)|photoreceptor cell maintenance (GO:0045494)|response to stimulus (GO:0050896)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	apical plasma membrane (GO:0016324)|basement membrane (GO:0005604)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|stereocilia ankle link complex (GO:0002142)|stereocilium bundle (GO:0032421)|stereocilium membrane (GO:0060171)	collagen binding (GO:0005518)|myosin binding (GO:0017022)			NS(7)|breast(20)|central_nervous_system(3)|cervix(2)|endometrium(32)|haematopoietic_and_lymphoid_tissue(4)|kidney(13)|large_intestine(71)|liver(2)|lung(282)|ovary(25)|pancreas(2)|prostate(12)|skin(22)|stomach(7)|upper_aerodigestive_tract(20)|urinary_tract(3)	527				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CTCAGGGACACTCCAGCTCAG	0.532										HNSCC(13;0.011)																																						0													166	131	143					1																	215953292		2203	4300	6503	SO:0001583	missense	7399			AF055580	CCDS1516.1, CCDS31025.1	1q41	2013-02-11			ENSG00000042781	ENSG00000042781		"Fibronectin type III domain containing"	12601	protein-coding gene	gene with protein product	"usherin"	608400		USH2		9624053, 10729113	Standard	NM_007123		Approved	RP39	uc001hku.1	O75445	OTTHUMG00000037079	ENST00000307340.3:c.10832G>A	1.37:g.215953292C>T	ENSP00000305941:p.Ser3611Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VVM9|Q6S362|Q9NS27	Missense_Mutation	SNP	ENST00000307340.3	37	CCDS31025.1	.	.	.	.	.	.	.	.	.	.	C	4.798	0.148453	0.09134	.	.	ENSG00000042781	ENST00000307340;ENST00000366943	T;T	0.58652	0.32;0.32	5.74	1.39	0.22231	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.568938	0.15713	N	0.248327	T	0.45438	0.1342	M	0.64676	1.99	0.09310	N	1	B	0.11235	0.004	B	0.12156	0.007	T	0.29336	-1.0015	10	0.20519	T	0.43	.	2.4629	0.04546	0.1103:0.3484:0.3191:0.2222	.	3611	O75445	USH2A_HUMAN	N	3611	ENSP00000305941:S3611N;ENSP00000355910:S3611N	ENSP00000305941:S3611N	S	-	2	0	USH2A	214019915	0.000000	0.05858	0.151000	0.22473	0.960000	0.62799	-1.142000	0.03203	0.229000	0.21039	0.650000	0.86243	AGT		0.532	USH2A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128138.1	NM_007123		T	215953292	C	T	215953292	3	4	672	1	0	0	0	0	1	0	0	0	17048	565	20	2	4848	2	USH2A	1	215953292	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	60840698	215953292	33297329	6	43208										
UGGT1	56886	broad.mit.edu;mdanderson.org	37	chr2	128945096	128945096	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cccggagtggcaggactacgAccaagagatcaaacagctac	11	12	1	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr2:128945096A>G	ENST00000259253.6	+	40	4597	c.4550A>G	c.(4549-4551)gAc>gGc	p.D1517G	UGGT1_ENST00000375990.3_Missense_Mutation_p.D1493G|UGGT1_ENST00000465836.1_3'UTR	NM_020120.3	NP_064505.1	Q9NYU2	UGGG1_HUMAN	UDP-glucose glycoprotein glucosyltransferase 1	1517	Glucosyltransferase. {ECO:0000250}.				'de novo' posttranslational protein folding (GO:0051084)|cellular protein metabolic process (GO:0044267)|post-translational protein modification (GO:0043687)|protein folding (GO:0006457)|protein N-linked glycosylation via asparagine (GO:0018279)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extracellular vesicular exosome (GO:0070062)	UDP-glucose:glycoprotein glucosyltransferase activity (GO:0003980)|unfolded protein binding (GO:0051082)			NS(1)|breast(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(14)|lung(20)|ovary(1)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	63						CAGGACTACGACCAAGAGATC	0.478																																																0													55	52	53					2																	128945096		2203	4300	6503	SO:0001583	missense	56886			AF227905	CCDS2154.1	2q14.3	2009-07-23	2009-07-23	2009-07-23	ENSG00000136731	ENSG00000136731			15663	protein-coding gene	gene with protein product		605897	"UDP-glucose ceramide glucosyltransferase-like 1"	UGCGL1		10694380	Standard	NM_020120		Approved	HUGT1	uc002tps.3	Q9NYU2	OTTHUMG00000131570	ENST00000259253.6:c.4550A>G	2.37:g.128945096A>G	ENSP00000259253:p.Asp1517Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q53QP2|Q53SL3|Q8IW30|Q9H8I4	Missense_Mutation	SNP	ENST00000259253.6	37	CCDS2154.1	.	.	.	.	.	.	.	.	.	.	A	31	5.090764	0.94149	.	.	ENSG00000136731	ENST00000375990;ENST00000259253	T;T	0.22134	1.97;1.97	5.65	5.65	0.86999	.	0.000000	0.85682	D	0.000000	T	0.62134	0.2403	H	0.96720	3.87	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.76096	-0.3084	9	.	.	.	.	16.0399	0.80667	1.0:0.0:0.0:0.0	.	1517	Q9NYU2	UGGG1_HUMAN	G	1493;1517	ENSP00000365158:D1493G;ENSP00000259253:D1517G	.	D	+	2	0	UGGT1	128661566	1.000000	0.71417	0.902000	0.35471	0.969000	0.65631	8.669000	0.91163	2.371000	0.80710	0.533000	0.62120	GAC		0.478	UGGT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254435.2	NM_020120		G	128945096	A	G	128945096	3	3	672	1	0	0	0	0	1	0	0	0	16953	275	10	3	4708	3	UGGT1	2	128945096	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10		128945096	114254277	7	43209										
BBS5	129880	bcgsc.ca	37	chr2	170343593	170343593	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ttttaggtagactcttggtaAcaaatttaagaattctctgg	8	5	2	2			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr2:170343593A>G	ENST00000295240.3	+	3	533	c.157A>G	c.(157-159)Aca>Gca	p.T53A	RP11-724O16.1_ENST00000513963.1_Missense_Mutation_p.T53A|BBS5_ENST00000554017.1_Missense_Mutation_p.T53A|BBS5_ENST00000392663.2_Missense_Mutation_p.T53A	NM_152384.2	NP_689597.1	Q8N3I7	BBS5_HUMAN	Bardet-Biedl syndrome 5	53					cilium assembly (GO:0042384)|heart looping (GO:0001947)|melanosome transport (GO:0032402)|motile cilium assembly (GO:0044458)|protein transport (GO:0015031)|response to stimulus (GO:0050896)|visual perception (GO:0007601)	BBSome (GO:0034464)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|intracellular (GO:0005622)|plasma membrane (GO:0005886)	phosphatidylinositol-3-phosphate binding (GO:0032266)|RNA polymerase II repressing transcription factor binding (GO:0001103)			endometrium(1)|large_intestine(1)|lung(3)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	9						ACTCTTGGTAACAAATTTAAG	0.343									Bardet-Biedl syndrome																																							0													175	182	180					2																	170343593		2203	4300	6503	SO:0001583	missense	129880	Familial Cancer Database	BBS, Bardet-Biedl syndrome, type 1-12: BBS1-12,Laurence-Moon-Biedl syndrome	AY604003	CCDS2233.1	2q31	2011-08-02			ENSG00000163093	ENSG00000163093			970	protein-coding gene	gene with protein product		603650				9888993, 10053027	Standard	NM_152384		Approved	DKFZp762I194		Q8N3I7	OTTHUMG00000132207	ENST00000295240.3:c.157A>G	2.37:g.170343593A>G	ENSP00000295240:p.Thr53Ala	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPC3|Q6PKN0	Missense_Mutation	SNP	ENST00000295240.3	37	CCDS2233.1	.	.	.	.	.	.	.	.	.	.	A	26.4	4.734544	0.89482	.	.	ENSG00000163093;ENSG00000163093;ENSG00000163093;ENSG00000251569	ENST00000295240;ENST00000554017;ENST00000392663;ENST00000513963	T;T;T;T	0.80566	-1.39;-1.39;-1.39;-1.39	5.55	5.55	0.83447	.	0.000000	0.85682	D	0.000000	D	0.91147	0.7212	M	0.88570	2.965	0.80722	D	1	D;D;D	0.89917	0.999;1.0;1.0	D;D;D	0.87578	0.985;0.996;0.998	D	0.92831	0.6280	10	0.87932	D	0	-16.5329	15.6945	0.77484	1.0:0.0:0.0:0.0	.	53;53;53	E9PBE3;Q8N3I7-2;Q8N3I7	.;.;BBS5_HUMAN	A	53	ENSP00000295240:T53A;ENSP00000452313:T53A;ENSP00000376431:T53A;ENSP00000424363:T53A	ENSP00000295240:T53A	T	+	1	0	BBS5;RP11-724O16.1	170051839	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	9.012000	0.93624	2.094000	0.63399	0.533000	0.62120	ACA		0.343	BBS5-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000255265.2	NM_152384		G	170343593	A	G	170343593	3	3	672	1	0	0	0	0	1	0	0	0	1340	43	2	3	167	3	BBS5	2	170343593	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	41398497	170343593	72855780	8	43210										
GLS	2744	broad.mit.edu	37	chr2	191765397	191765397	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tgatgagttatatgaaagtgCtaaaaagcagtctggaggaa	12	3	1	3			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr2:191765397C>T	ENST00000320717.3	+	4	971	c.713C>T	c.(712-714)gCt>gTt	p.A238V	GLS_ENST00000338435.4_Missense_Mutation_p.A238V	NM_014905.4	NP_055720.3	O94925	GLSK_HUMAN	glutaminase	238					cellular amino acid biosynthetic process (GO:0008652)|cellular nitrogen compound metabolic process (GO:0034641)|glutamate biosynthetic process (GO:0006537)|glutamate secretion (GO:0014047)|glutamine catabolic process (GO:0006543)|neurotransmitter secretion (GO:0007269)|protein homotetramerization (GO:0051289)|regulation of respiratory gaseous exchange by neurological system process (GO:0002087)|small molecule metabolic process (GO:0044281)|suckling behavior (GO:0001967)|synaptic transmission (GO:0007268)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	glutaminase activity (GO:0004359)			breast(1)|cervix(1)|endometrium(1)|kidney(1)|lung(9)|ovary(1)|skin(1)|urinary_tract(1)	16			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamine(DB00130)	TATGAAAGTGCTAAAAAGCAG	0.328																																																0													120	115	117					2																	191765397		2203	4299	6502	SO:0001583	missense	2744			AB020645	CCDS2308.1, CCDS58744.1	2q32-q34	2013-01-10			ENSG00000115419	ENSG00000115419	3.5.1.2	"Ankyrin repeat domain containing"	4331	protein-coding gene	gene with protein product		138280				10048485	Standard	NM_014905		Approved	KIAA0838, GLS1	uc002usf.3	O94925	OTTHUMG00000132701	ENST00000320717.3:c.713C>T	2.37:g.191765397C>T	ENSP00000317379:p.Ala238Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UL05|Q9UL06|Q9UL07|Q9UN40	Missense_Mutation	SNP	ENST00000320717.3	37	CCDS2308.1	.	.	.	.	.	.	.	.	.	.	C	15.22	2.768840	0.49680	.	.	ENSG00000115419	ENST00000320717;ENST00000338435	T;T	0.42131	0.98;0.98	5.49	5.49	0.81192	Beta-lactamase/transpeptidase-like (1);	0.058328	0.64402	D	0.000002	T	0.38558	0.1045	L	0.42245	1.32	0.80722	D	1	B;B	0.17268	0.003;0.021	B;B	0.16722	0.002;0.016	T	0.17107	-1.0380	10	0.16420	T	0.52	-15.4944	19.736	0.96205	0.0:1.0:0.0:0.0	.	238;238	O94925;O94925-3	GLSK_HUMAN;.	V	238	ENSP00000317379:A238V;ENSP00000340689:A238V	ENSP00000317379:A238V	A	+	2	0	GLS	191473642	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.824000	0.62701	2.732000	0.93576	0.557000	0.71058	GCT		0.328	GLS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255999.2			T	191765397	C	T	191765397	3	4	672	1	0	0	0	0	1	0	0	0	6470	797	28	2	727	2	GLS	2	191765397	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	21421804	191765397	51433976	9	43211										
GAL3ST2	64090	broad.mit.edu	37	chr2	242743069	242743070	+	Frame_Shift_Del	DEL	CA	CA	-													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ggctggtgctcatcgccgagCacctggacgagtccctggtg							TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr2:242743069_242743070delCA	ENST00000192314.6	+	4	816_817	c.685_686delCA	c.(685-687)cacfs	p.H229fs	AC114730.5_ENST00000437438.1_RNA	NM_022134.2	NP_071417.2	Q9H3Q3	G3ST2_HUMAN	galactose-3-O-sulfotransferase 2	229	Arg-rich.				biosynthetic process (GO:0009058)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	galactosylceramide sulfotransferase activity (GO:0001733)|sulfotransferase activity (GO:0008146)			endometrium(1)|kidney(1)|large_intestine(1)|lung(9)|prostate(1)|skin(1)	14		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		CATCGCCGAGCACCTGGACGAG	0.733																																																0																																										SO:0001589	frameshift_variant	64090			AB040610	CCDS33427.1	2q37.2	2014-05-19			ENSG00000154252	ENSG00000154252		"Sulfotransferases, membrane-bound"	24869	protein-coding gene	gene with protein product		608237				11029462	Standard	NM_022134		Approved	GP3ST	uc002wcj.1	Q9H3Q3	OTTHUMG00000151473	ENST00000192314.6:c.685_686delCA	2.37:g.242743069_242743070delCA	ENSP00000192314:p.His229fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RK0|Q57Z52	Frame_Shift_Del	DEL	ENST00000192314.6	37	CCDS33427.1																																																																																				0.733	GAL3ST2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322792.1	NM_022134		-	242743070	CA	-	242743069	7	5	672	1	0	1	0	1	0	0	0	0	6205	710	25	0	699	0	GAL3ST2	2	242743069	Frame_Shift_Del	DEL	CA	TCGA-KN-8436-01A-11D-2310-10	50977672	242743069	456304	10	43212										
IL5RA	3568	mdanderson.org	37	chr3	3144422	3144422	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ttaacattcctttgctcttgAtcaggatttggtttccattg	7	8	2	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr3:3144422A>G	ENST00000446632.2	-	4	739	c.165T>C	c.(163-165)gaT>gaC	p.D55D	IL5RA_ENST00000456302.1_Silent_p.D55D|IL5RA_ENST00000418488.2_Silent_p.D55D|IL5RA_ENST00000430514.2_Silent_p.D55D|IL5RA_ENST00000438560.1_Silent_p.D55D|IL5RA_ENST00000383846.1_Silent_p.D55D|IL5RA_ENST00000445864.2_Silent_p.D55D|IL5RA_ENST00000256452.3_Silent_p.D55D|SNORA43_ENST00000517240.1_RNA|IL5RA_ENST00000311981.8_Silent_p.D55D	NM_175726.3	NP_783853.1	Q01344	IL5RA_HUMAN	interleukin 5 receptor, alpha	55	Fibronectin type-III 1. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell proliferation (GO:0008283)|inflammatory response to antigenic stimulus (GO:0002437)|interleukin-5-mediated signaling pathway (GO:0038043)|regulation of interleukin-5 production (GO:0032674)|signal transduction (GO:0007165)	extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	interleukin-5 receptor activity (GO:0004914)			cervix(1)|endometrium(2)|large_intestine(7)|lung(9)|ovary(1)|prostate(2)|skin(2)	24				Epithelial(13;0.00278)|all cancers(10;0.00809)|OV - Ovarian serous cystadenocarcinoma(96;0.00944)		TTTGCTCTTGATCAGGATTTG	0.333																																					GBM(169;430 2801 24955 28528)											0													96	94	95					3																	3144422		2203	4300	6503	SO:0001819	synonymous_variant	3568			M96652	CCDS2559.1, CCDS2560.1, CCDS46739.1, CCDS58813.1	3p26-p24	2008-01-11			ENSG00000091181	ENSG00000091181		"Interleukins and interleukin receptors", "CD molecules"	6017	protein-coding gene	gene with protein product		147851		IL5R		1732409	Standard	NM_175727		Approved	CDw125, CD125	uc010hbs.3	Q01344	OTTHUMG00000090245	ENST00000446632.2:c.165T>C	3.37:g.3144422A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3IU77|B4E2G0|Q14633|Q15469|Q6ISX9	Silent	SNP	ENST00000446632.2	37	CCDS2559.1																																																																																				0.333	IL5RA-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000337537.2			G	3144422	A	G	3144422	2	3	672	1	0	0	0	0	0	0	0	1	7707	330	12	3		3	IL5RA	3	3144422	Silent	SNP	A	TCGA-KN-8436-01A-11D-2310-10		3144422	194878008	11	43213										
ITPR1	3708	mdanderson.org	37	chr3	4856848	4856848	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ttgacacttttgctgacctgAggagtgagaagcagaagaag	13	6	0	6			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr3:4856848A>G	ENST00000443694.2	+	56	7768	c.7768A>G	c.(7768-7770)Agg>Ggg	p.R2590G	AC018816.3_ENST00000449914.1_Intron|ITPR1_ENST00000357086.4_Missense_Mutation_p.R2557G|ITPR1_ENST00000463980.1_3'UTR|ITPR1_ENST00000456211.2_Missense_Mutation_p.R2542G|AC018816.3_ENST00000489771.1_Intron|ITPR1_ENST00000302640.8_Missense_Mutation_p.R2590G|ITPR1_ENST00000423119.2_Missense_Mutation_p.R2557G|ITPR1_ENST00000544951.1_Missense_Mutation_p.R568G|AC018816.3_ENST00000441894.1_Intron|ITPR1_ENST00000354582.6_Missense_Mutation_p.R2590G			Q14643	ITPR1_HUMAN	inositol 1,4,5-trisphosphate receptor, type 1	2605					activation of phospholipase C activity (GO:0007202)|blood coagulation (GO:0007596)|calcium ion transport (GO:0006816)|endoplasmic reticulum calcium ion homeostasis (GO:0032469)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|inositol phosphate-mediated signaling (GO:0048016)|intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress (GO:0070059)|negative regulation of calcium-mediated signaling (GO:0050849)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet activation (GO:0030168)|post-embryonic development (GO:0009791)|regulation of insulin secretion (GO:0050796)|release of sequestered calcium ion into cytosol (GO:0051209)|response to hypoxia (GO:0001666)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|voluntary musculoskeletal movement (GO:0050882)	calcineurin complex (GO:0005955)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nuclear inner membrane (GO:0005637)|nucleolus (GO:0005730)|platelet dense granule membrane (GO:0031088)|platelet dense tubular network (GO:0031094)|platelet dense tubular network membrane (GO:0031095)|postsynaptic density (GO:0014069)|sarcoplasmic reticulum (GO:0016529)	calcium channel inhibitor activity (GO:0019855)|calcium ion transmembrane transporter activity (GO:0015085)|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0005220)|intracellular ligand-gated calcium channel activity (GO:0005218)|phosphatidylinositol binding (GO:0035091)			NS(1)|autonomic_ganglia(1)|breast(10)|endometrium(15)|kidney(6)|large_intestine(27)|liver(1)|lung(27)|ovary(6)|pancreas(1)|prostate(4)|skin(5)|urinary_tract(2)	106				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)	Caffeine(DB00201)	TGCTGACCTGAGGAGTGAGAA	0.468																																																0													129	127	128					3																	4856848		2137	4272	6409	SO:0001583	missense	3708			D26070	CCDS46740.1, CCDS46740.2, CCDS54550.1, CCDS54551.1	3p26.1	2014-06-12	2011-04-28			ENSG00000150995		"Ion channels / Inositol triphosphate receptors"	6180	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 94"	147265	"spinocerebellar ataxia 15", "spinocerebellar ataxia 16", "spinocerebellar ataxia 29"	SCA15, SCA16, SCA29		7945203, 7500840, 17590087, 17932120, 22986007	Standard	NM_001099952		Approved	Insp3r1, IP3R1, ACV, PPP1R94	uc003bqc.3	Q14643		ENST00000443694.2:c.7768A>G	3.37:g.4856848A>G	ENSP00000401671:p.Arg2590Gly	Somatic		WXS	Illumina HiSeq	Phase_I	E7EPX7|E9PDE9|Q14660|Q99897	Missense_Mutation	SNP	ENST00000443694.2	37	CCDS54551.1	.	.	.	.	.	.	.	.	.	.	A	23.3	4.395866	0.83011	.	.	ENSG00000150995	ENST00000356617;ENST00000302640;ENST00000354582;ENST00000423119;ENST00000426160;ENST00000357086;ENST00000456211;ENST00000544951;ENST00000443694	D;D;D;D;D;D;D	0.99329	-4.26;-4.28;-4.27;-4.27;-4.25;-5.75;-4.26	4.84	3.66	0.41972	.	0.000000	0.85682	D	0.000000	D	0.99569	0.9845	H	0.96889	3.9	0.58432	D	0.999998	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;0.997;1.0	D	0.98406	1.0570	10	0.87932	D	0	.	11.591	0.50945	0.8503:0.1497:0.0:0.0	.	568;2605;2557	B7ZMI3;Q14643;G5E9P1	.;ITPR1_HUMAN;.	G	2605;2590;2590;2557;1051;2557;2542;568;2590	ENSP00000306253:R2590G;ENSP00000346595:R2590G;ENSP00000405934:R2557G;ENSP00000349597:R2557G;ENSP00000397885:R2542G;ENSP00000440564:R568G;ENSP00000401671:R2590G	ENSP00000306253:R2590G	R	+	1	2	ITPR1	4831848	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	6.213000	0.72194	0.666000	0.31087	0.383000	0.25322	AGG		0.468	ITPR1-004	KNOWN	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000337982.3	NM_002222		G	4856848	A	G	4856848	3	3	672	1	0	0	0	0	1	0	0	0	7927	295	11	3	8039	3	ITPR1	3	4856848	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	1712426	4856848	193165582	12	43214										
UBP1	7342	mdanderson.org	37	chr3	33454243	33454243	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gaagtctgtctcctgggcgaTtccacttccatccttcaagt	8	13	3	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr3:33454243T>C	ENST00000283629.3	-	4	948	c.419A>G	c.(418-420)aAt>aGt	p.N140S	UBP1_ENST00000447368.2_Missense_Mutation_p.N140S|UBP1_ENST00000283628.5_Missense_Mutation_p.N140S|RNU7-110P_ENST00000516891.1_RNA	NM_001128161.1|NM_014517.4	NP_001121633.1|NP_055332.3	Q9NZI7	UBIP1_HUMAN	upstream binding protein 1 (LBP-1a)	140					angiogenesis (GO:0001525)|negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)|viral genome replication (GO:0019079)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			breast(2)|kidney(4)|large_intestine(6)|lung(6)|ovary(2)|prostate(1)|urinary_tract(2)	23						TCCTGGGCGATTCCACTTCCA	0.438																																																0													275	238	251					3																	33454243		2203	4300	6503	SO:0001583	missense	7342			AF198487	CCDS2659.1, CCDS46788.1	3p22.3	2004-03-02			ENSG00000153560	ENSG00000153560			12507	protein-coding gene	gene with protein product		609784				8114710	Standard	NM_014517		Approved	LBP-1a	uc010hga.3	Q9NZI7	OTTHUMG00000130749	ENST00000283629.3:c.419A>G	3.37:g.33454243T>C	ENSP00000283629:p.Asn140Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q68CT0|Q86Y57|Q9H8V0|Q9UD76|Q9UD78	Missense_Mutation	SNP	ENST00000283629.3	37	CCDS2659.1	.	.	.	.	.	.	.	.	.	.	T	11.62	1.694091	0.30052	.	.	ENSG00000153560	ENST00000283629;ENST00000447368;ENST00000283628;ENST00000456378	T;T;T;T	0.16743	2.32;2.32;2.32;2.32	6.17	3.8	0.43715	CP2 transcription factor (1);	0.043738	0.85682	D	0.000000	T	0.07188	0.0182	N	0.11673	0.155	0.53688	D	0.999978	B;B	0.27971	0.196;0.001	B;B	0.23419	0.046;0.016	T	0.14839	-1.0458	10	0.02654	T	1	-24.3373	10.7985	0.46474	0.0:0.1286:0.0:0.8714	.	140;140	Q9NZI7-4;Q9NZI7	.;UBIP1_HUMAN	S	140	ENSP00000283629:N140S;ENSP00000395558:N140S;ENSP00000283628:N140S;ENSP00000401614:N140S	ENSP00000283628:N140S	N	-	2	0	UBP1	33429247	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	6.292000	0.72725	1.163000	0.42636	0.533000	0.62120	AAT		0.438	UBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253249.2	NM_014517		C	33454243	T	C	33454243	3	2	672	1	0	0	0	0	1	0	0	0	16907	1493	52	3	1255	3	UBP1	3	33454243	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	28597395	33454243	164568187	13	43215										
CDCP1	64866	mdanderson.org	37	chr3	45136963	45136963	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cgagattctagacacacgaaAcagccagggacaaacttgcg	10	11	1	2			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr3:45136963A>G	ENST00000296129.1	-	5	1256	c.1122T>C	c.(1120-1122)tgT>tgC	p.C374C		NM_022842.3	NP_073753.3	Q9H5V8	CDCP1_HUMAN	CUB domain containing protein 1	374						extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(12)|ovary(1)|skin(4)|urinary_tract(1)	29				BRCA - Breast invasive adenocarcinoma(193;0.00928)|KIRC - Kidney renal clear cell carcinoma(197;0.0519)|Kidney(197;0.0651)		GACACACGAAACAGCCAGGGA	0.502																																																0													146	129	135					3																	45136963		2203	4300	6503	SO:0001819	synonymous_variant	64866			AF468010	CCDS2727.1, CCDS46812.1	3p21.3	2006-03-28			ENSG00000163814	ENSG00000163814		"CD molecules"	24357	protein-coding gene	gene with protein product		611735				11466621	Standard	NM_022842		Approved	CD318, SIMA135	uc003com.3	Q9H5V8	OTTHUMG00000133090	ENST00000296129.1:c.1122T>C	3.37:g.45136963A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q49UB4|Q6NT71|Q6U9Y2|Q8WU91|Q96QU7|Q9H676|Q9H8C2	Silent	SNP	ENST00000296129.1	37	CCDS2727.1																																																																																				0.502	CDCP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256748.3	NM_022842		G	45136963	A	G	45136963	2	3	672	1	0	0	0	0	0	0	0	1	3095	41	2	3		3	CDCP1	3	45136963	Silent	SNP	A	TCGA-KN-8436-01A-11D-2310-10	11682720	45136963	152885467	14	43216										
CELSR3	1951	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	48681698	48681698	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ccctgtggagcaggatgtgcGggcagcgaggagaaacatgg	18	8	0	1	rs373490754		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr3:48681698G>A	ENST00000164024.4	-	27	8396	c.8116C>T	c.(8116-8118)Cgc>Tgc	p.R2706C	MIR4793_ENST00000577502.1_RNA|CELSR3_ENST00000544264.1_Missense_Mutation_p.R2711C	NM_001407.2	NP_001398.2	Q9NYQ7	CELR3_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 3	2706					axonal fasciculation (GO:0007413)|cilium assembly (GO:0042384)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|regulation of protein localization (GO:0032880)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(1)|biliary_tract(1)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(23)|ovary(9)|prostate(6)|skin(7)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(5)	83				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CAGGATGTGCGGGCAGCGAGG	0.622													g|||	1	0.000199681	0.0	0.0	5008	,	,		18242	0.0		0.0	False		,,,				2504	0.001															0									CYS/ARG	0,4406		0,0,2203	63	59	60		8116	4.2	1	3		60	1,8595	1.2+/-3.3	0,1,4297	no	missense	CELSR3	NM_001407.2	180	0,1,6500	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	2706/3313	48681698	1,13001	2203	4298	6501	SO:0001583	missense	1951			AF231023	CCDS2775.1	3p21.31	2014-08-08	2013-02-18		ENSG00000008300	ENSG00000008300		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	3230	protein-coding gene	gene with protein product	"flamingo homolog 1 (Drosophila)"	604264	"cadherin EGF LAG seven-pass G-type receptor 3, flamingo (Drosophila) homolog"	EGFL1		9693030	Standard	NM_001407		Approved	MEGF2, HFMI1, FMI1, CDHF11	uc003cuf.1	Q9NYQ7	OTTHUMG00000133544	ENST00000164024.4:c.8116C>T	3.37:g.48681698G>A	ENSP00000164024:p.Arg2706Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O75092	Missense_Mutation	SNP	ENST00000164024.4	37	CCDS2775.1	.	.	.	.	.	.	.	.	.	.	g	25.2	4.612736	0.87258	0.0	1.16E-4	ENSG00000008300	ENST00000164024;ENST00000544264	T;T	0.44482	0.92;0.92	5.13	4.16	0.48862	GPCR, family 2-like (1);	.	.	.	.	T	0.61048	0.2316	M	0.83692	2.655	0.41257	D	0.986755	D;D	0.65815	0.99;0.995	P;P	0.61070	0.883;0.745	T	0.67011	-0.5778	9	0.87932	D	0	.	10.4662	0.44609	0.0:0.0:0.5547:0.4453	.	2706;2803	Q9NYQ7;Q5Y190	CELR3_HUMAN;.	C	2706;2711	ENSP00000164024:R2706C;ENSP00000445694:R2711C	ENSP00000164024:R2706C	R	-	1	0	CELSR3	48656702	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	4.969000	0.63735	2.382000	0.81193	0.556000	0.70494	CGC		0.622	CELSR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257523.1	NM_001407		A	48681698	G	A	48681698	3	1	672	1	0	0	0	0	1	0	0	0	3225	1116	39	1	1858	1	CELSR3	3	48681698	Missense_Mutation	SNP	G	TCGA-KN-8436-01A-11D-2310-10	3544735	48681698	149340732	15	43217										
IFT80	57560	mdanderson.org	37	chr3	160095234	160095234	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ttacctgtaactaatgctgtTccttcataattccatcttcc	3	12	2	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr3:160095234T>C	ENST00000326448.7	-	4	786	c.354A>G	c.(352-354)ggA>ggG	p.G118G	IFT80_ENST00000483465.1_5'UTR|RP11-432B6.3_ENST00000483754.1_Intron|IFT80_ENST00000496589.1_5'UTR|IFT80_ENST00000477495.1_5'UTR	NM_020800.2	NP_065851.1	Q9P2H3	IFT80_HUMAN	intraflagellar transport 80	118					bone morphogenesis (GO:0060349)|chondrocyte differentiation (GO:0002062)|cilium assembly (GO:0042384)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of non-canonical Wnt signaling pathway (GO:2000051)|osteoblast differentiation (GO:0001649)|positive regulation of smoothened signaling pathway (GO:0045880)|smoothened signaling pathway (GO:0007224)	centrosome (GO:0005813)|cilium (GO:0005929)|cytoplasm (GO:0005737)|intraciliary transport particle B (GO:0030992)				NS(1)|breast(1)|endometrium(4)|kidney(4)|large_intestine(12)|lung(10)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	36			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			CTAATGCTGTTCCTTCATAAT	0.313																																																0													118	110	113					3																	160095234		2202	4300	6502	SO:0001819	synonymous_variant	57560			AB037795	CCDS3188.1, CCDS54668.1	3q25.33	2014-07-03	2014-07-03	2005-11-02	ENSG00000068885	ENSG00000068885		"Intraflagellar transport homologs", "WD repeat domain containing"	29262	protein-coding gene	gene with protein product		611177	"WD repeat domain 56", "intraflagellar transport 80 homolog (Chlamydomonas)"	WDR56		10718198	Standard	NM_020800		Approved	KIAA1374	uc021xgq.1	Q9P2H3	OTTHUMG00000158953	ENST00000326448.7:c.354A>G	3.37:g.160095234T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4E0K1|C9J8I0|Q3MJC4|Q86YF4|Q9UIX1	Silent	SNP	ENST00000326448.7	37	CCDS3188.1																																																																																				0.313	IFT80-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352651.2	NM_020800		C	160095234	T	C	160095234	2	2	672	1	0	0	0	0	0	0	0	1	7571	1770	62	3		3	IFT80	3	160095234	Silent	SNP	T	TCGA-KN-8436-01A-11D-2310-10	111413536	160095234	37927196	16	43218										
NAALADL2	254827	mdanderson.org	37	chr3	175042057	175042057	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tgaatcctagccatgataccTtcatggtgtcactgaatcca	7	11	2	3			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr3:175042057T>C	ENST00000454872.1	+	5	1161	c.1033T>C	c.(1033-1035)Ttc>Ctc	p.F345L	NAALADL2_ENST00000473253.1_3'UTR	NM_207015.2	NP_996898.2	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase-like 2	345						integral component of membrane (GO:0016021)				central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(5)|lung(20)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)	49	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)		CCATGATACCTTCATGGTGTC	0.423																																																0													189	185	186					3																	175042057		1905	4118	6023	SO:0001583	missense	254827				CCDS46960.1	3q26.3	2011-08-16			ENSG00000177694	ENSG00000177694			23219	protein-coding gene	gene with protein product	"glutamate carboxypeptidase II-type non-peptidase homologue"	608806				15168106	Standard	NM_207015		Approved		uc003fir.3	Q58DX5	OTTHUMG00000157120	ENST00000454872.1:c.1033T>C	3.37:g.175042057T>C	ENSP00000404705:p.Phe345Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q658X9|Q6H9J8|Q6H9J9|Q6PG38	Missense_Mutation	SNP	ENST00000454872.1	37	CCDS46960.1	.	.	.	.	.	.	.	.	.	.	T	18.68	3.676734	0.67928	.	.	ENSG00000177694	ENST00000454872	T	0.39787	1.06	5.58	5.58	0.84498	.	0.081678	0.52532	D	0.000076	T	0.54532	0.1864	L	0.49126	1.545	0.34876	D	0.744096	D	0.69078	0.997	D	0.75020	0.985	T	0.57923	-0.7727	10	0.11794	T	0.64	-15.9193	14.3279	0.66532	0.0:0.0:0.0:1.0	.	345	Q58DX5	NADL2_HUMAN	L	345	ENSP00000404705:F345L	ENSP00000404705:F345L	F	+	1	0	NAALADL2	176524751	1.000000	0.71417	0.896000	0.35187	0.956000	0.61745	5.751000	0.68720	2.122000	0.65172	0.460000	0.39030	TTC		0.423	NAALADL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347390.2	NM_207015		C	175042057	T	C	175042057	3	2	672	1	0	0	0	0	1	0	0	0	10137	1609	56	3	1051	3	NAALADL2	3	175042057	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	14946823	175042057	22980373	17	43219										
MFN1	55669	mdanderson.org	37	chr3	179085853	179085853	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ttgctgaaggatttcatgcaAgattacaggaatttcagaat	9	5	2	3			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr3:179085853A>G	ENST00000471841.1	+	9	1063	c.937A>G	c.(937-939)Aga>Gga	p.R313G	MFN1_ENST00000280653.7_Missense_Mutation_p.R313G|MFN1_ENST00000263969.5_Missense_Mutation_p.R313G	NM_033540.2	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	313	Dynamin-type G.				mitochondrial fusion (GO:0008053)	integral component of membrane (GO:0016021)|mitochondrial outer membrane (GO:0005741)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(14)|ovary(3)|prostate(1)|urinary_tract(1)	31	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)			ATTTCATGCAAGATTACAGGA	0.348																																																0													75	76	75					3																	179085853		2203	4299	6502	SO:0001583	missense	55669			AF054986	CCDS3228.1	3q26.32	2006-12-13			ENSG00000171109	ENSG00000171109			18262	protein-coding gene	gene with protein product		608506				8358434, 11181170	Standard	NM_033540		Approved	FLJ20693	uc003fjs.3	Q8IWA4	OTTHUMG00000157385	ENST00000471841.1:c.937A>G	3.37:g.179085853A>G	ENSP00000420617:p.Arg313Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAR1|D3DNR6|O15323|O60639|Q9BZB5|Q9NWQ2	Missense_Mutation	SNP	ENST00000471841.1	37	CCDS3228.1	.	.	.	.	.	.	.	.	.	.	A	15.61	2.885753	0.51908	.	.	ENSG00000171109	ENST00000471841;ENST00000280653;ENST00000539169;ENST00000263969;ENST00000474903	D;D;D;D	0.95518	-3.73;-3.73;-3.73;-3.71	5.34	4.14	0.48551	.	0.042672	0.85682	D	0.000000	D	0.97623	0.9221	M	0.87547	2.89	0.80722	D	1	D;D;D	0.89917	1.0;0.997;0.995	D;P;P	0.83275	0.996;0.827;0.765	D	0.97606	1.0126	10	0.72032	D	0.01	-7.2796	11.8202	0.52235	0.7228:0.2772:0.0:0.0	.	313;341;313	Q8IWA4-3;Q4AEJ4;Q8IWA4	.;.;MFN1_HUMAN	G	313;313;313;313;176	ENSP00000420617:R313G;ENSP00000280653:R313G;ENSP00000263969:R313G;ENSP00000419926:R176G	ENSP00000263969:R313G	R	+	1	2	MFN1	180568547	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	2.269000	0.43346	0.914000	0.36822	0.528000	0.53228	AGA		0.348	MFN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348654.2	NM_017927		G	179085853	A	G	179085853	3	3	672	1	0	0	0	0	1	0	0	0	9530	64	3	3	967	3	MFN1	3	179085853	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	4043796	179085853	18936577	18	43220										
ATP13A3	79572	broad.mit.edu;mdanderson.org	37	chr3	194158061	194158061	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tgtttcaggtttacagagacCggcaatggcctcgggcgctc	13	11	1	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr3:194158061C>T	ENST00000439040.1	-	19	2769	c.1978G>A	c.(1978-1980)Ggt>Agt	p.G660S	ATP13A3_ENST00000256031.4_Missense_Mutation_p.G660S			Q9H7F0	AT133_HUMAN	ATPase type 13A3	660						integral component of membrane (GO:0016021)|membrane (GO:0016020)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|metal ion binding (GO:0046872)			NS(2)|endometrium(3)|kidney(3)|large_intestine(2)|lung(10)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	24	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)		TTACAGAGACCGGCAATGGCC	0.443																																																0													119	119	119					3																	194158061		1849	4091	5940	SO:0001583	missense	79572			AJ306929	CCDS43187.1	3q29	2010-04-20			ENSG00000133657	ENSG00000133657		"ATPases / P-type"	24113	protein-coding gene	gene with protein product	"ATPase family homolog up regulated in senescence cells"	610232				11867234	Standard	NM_024524		Approved	AFURS1	uc003fty.4	Q9H7F0	OTTHUMG00000156034	ENST00000439040.1:c.1978G>A	3.37:g.194158061C>T	ENSP00000416508:p.Gly660Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC11|Q96KS1	Missense_Mutation	SNP	ENST00000439040.1	37	CCDS43187.1	.	.	.	.	.	.	.	.	.	.	C	5.577	0.291253	0.10567	.	.	ENSG00000133657	ENST00000439040;ENST00000256031;ENST00000310773	T;T	0.69685	-0.42;-0.42	6.08	1.04	0.20106	ATPase, cation-transporting, domain N (1);HAD-like domain (1);ATPase, P-type, cytoplasmic domain N (1);	0.149212	0.85682	N	0.000000	T	0.28599	0.0708	N	0.01076	-1.035	0.24675	N	0.993396	B	0.02656	0.0	B	0.04013	0.001	T	0.36163	-0.9759	10	0.02654	T	1	0.4724	10.721	0.46040	0.0:0.2926:0.0:0.7074	.	660	Q9H7F0	AT133_HUMAN	S	660;660;398	ENSP00000416508:G660S;ENSP00000256031:G660S	ENSP00000256031:G660S	G	-	1	0	ATP13A3	195639350	0.992000	0.36948	0.992000	0.48379	0.799000	0.45148	0.520000	0.22878	0.187000	0.20147	-0.294000	0.09567	GGT		0.443	ATP13A3-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342799.2	NM_024524		T	194158061	C	T	194158061	3	4	672	1	0	0	0	0	1	0	0	0	1125	652	23	1	1762	1	ATP13A3	3	194158061	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	15072208	194158061	3864369	19	43221										
PAK2	5062	mdanderson.org	37	chr3	196530022	196530022	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gtgaagcagaaatatctgagCtttactcctcctggtaagag	10	8	1	4	rs115224945	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr3:196530022C>T	ENST00000327134.3	+	4	745	c.423C>T	c.(421-423)agC>agT	p.S141S		NM_002577.4	NP_002568.2	Q13177	PAK2_HUMAN	p21 protein (Cdc42/Rac)-activated kinase 2	141					apoptotic process (GO:0006915)|axon guidance (GO:0007411)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in execution phase of apoptosis (GO:2001271)|negative regulation of protein kinase activity (GO:0006469)|peptidyl-serine phosphorylation (GO:0018105)|phosphorylation (GO:0016310)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein tyrosine kinase activity (GO:0061098)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of apoptotic process (GO:0042981)|regulation of defense response to virus by virus (GO:0050690)|regulation of growth (GO:0040008)|signal transduction (GO:0007165)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)|protein tyrosine kinase activator activity (GO:0030296)			breast(1)|cervix(1)|kidney(2)|large_intestine(1)|lung(4)|ovary(1)|prostate(2)	12	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.07e-23)|all cancers(36;6.38e-22)|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;0.00405)		AATATCTGAGCTTTACTCCTC	0.418																																																0													85	79	81					3																	196530022		2203	4300	6503	SO:0001819	synonymous_variant	5062			U24153	CCDS3321.1	3q29	2008-06-17	2008-06-17			ENSG00000180370	2.7.11.1		8591	protein-coding gene	gene with protein product	"S6/H4 kinase"	605022	"p21 (CDKN1A)-activated kinase 2"			7744004, 7618083	Standard	NM_002577		Approved	PAK65, PAKgamma	uc003fwy.4	Q13177		ENST00000327134.3:c.423C>T	3.37:g.196530022C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q13154|Q6ISC3	Silent	SNP	ENST00000327134.3	37	CCDS3321.1																																																																																				0.418	PAK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340548.1	NM_002577		T	196530022	C	T	196530022	2	4	672	1	0	0	0	0	0	0	0	1	11408	796	28	2		2	PAK2	3	196530022	Silent	SNP	C	TCGA-KN-8436-01A-11D-2310-10	2371961	196530022	1492408	20	43222										
ZNF141	7700	mdanderson.org	37	chr4	367169	367169	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	agaaaccctacaaatgtgaaGaatgtggcaaagcctttaat	8	7	0	3	rs145966198		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:367169G>A	ENST00000240499.7	+	4	1092	c.943G>A	c.(943-945)Gaa>Aaa	p.E315K	ZNF141_ENST00000512994.1_Intron|ZNF141_ENST00000505939.1_Intron	NM_003441.2	NP_003432.1	Q15928	ZN141_HUMAN	zinc finger protein 141	315					anatomical structure morphogenesis (GO:0009653)|limb morphogenesis (GO:0035108)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|kidney(3)|large_intestine(5)|lung(8)|upper_aerodigestive_tract(1)	18						CAAATGTGAAGAATGTGGCAA	0.388																																																0																																										SO:0001583	missense	7700			L15309	CCDS33931.1	4p16.3	2013-01-08	2006-06-13			ENSG00000131127		"Zinc fingers, C2H2-type", "-"	12926	protein-coding gene	gene with protein product		194648	"zinc finger protein 141 (clone pHZ-44)"	D4S90		8268908	Standard	NM_003441		Approved	pHZ-44	uc003gaa.2	Q15928		ENST00000240499.7:c.943G>A	4.37:g.367169G>A	ENSP00000240499:p.Glu315Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6DK07	Missense_Mutation	SNP	ENST00000240499.7	37	CCDS33931.1	.	.	.	.	.	.	.	.	.	.	G	13.74	2.327325	0.41197	.	.	ENSG00000131127	ENST00000240499	T	0.07327	3.2	1.24	1.24	0.21308	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.13030	0.0316	L	0.42487	1.325	0.80722	P	0.0	P	0.39624	0.681	P	0.51833	0.681	T	0.18871	-1.0323	7	.	.	.	.	7.8922	0.29684	0.0:0.0:1.0:0.0	.	315	Q15928	ZN141_HUMAN	K	315	ENSP00000240499:E315K	.	E	+	1	0	ZNF141	357169	0.000000	0.05858	0.076000	0.20297	0.968000	0.65278	-0.068000	0.11561	0.591000	0.29711	0.313000	0.20887	GAA		0.388	ZNF141-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357710.1	NM_003441		A	367169	G	A	367169	3	1	672	1	0	0	0	0	1	0	0	0	17742	943	33	2	957	2	ZNF141	4	367169	Missense_Mutation	SNP	G	TCGA-KN-8436-01A-11D-2310-10		367169	190787107	21	43223										
ZNF141	7700	mdanderson.org	37	chr4	367199	367199	+	Missense_Mutation	SNP	A	A	T													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	aagcctttaataggtccacaAcccttactaaacataagaga					rs114931928		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:367199A>T	ENST00000240499.7	+	4	1122	c.973A>T	c.(973-975)Acc>Tcc	p.T325S	ZNF141_ENST00000512994.1_Intron|ZNF141_ENST00000505939.1_Intron	NM_003441.2	NP_003432.1	Q15928	ZN141_HUMAN	zinc finger protein 141	325					anatomical structure morphogenesis (GO:0009653)|limb morphogenesis (GO:0035108)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|kidney(3)|large_intestine(5)|lung(8)|upper_aerodigestive_tract(1)	18						TAGGTCCACAACCCTTACTAA	0.383																																																0													56	62	60					4																	367199		2197	4296	6493	SO:0001583	missense	7700			L15309	CCDS33931.1	4p16.3	2013-01-08	2006-06-13			ENSG00000131127		"Zinc fingers, C2H2-type", "-"	12926	protein-coding gene	gene with protein product		194648	"zinc finger protein 141 (clone pHZ-44)"	D4S90		8268908	Standard	NM_003441		Approved	pHZ-44	uc003gaa.2	Q15928		ENST00000240499.7:c.973A>T	4.37:g.367199A>T	ENSP00000240499:p.Thr325Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6DK07	Missense_Mutation	SNP	ENST00000240499.7	37	CCDS33931.1	.	.	.	.	.	.	.	.	.	.	A	3.741	-0.053524	0.07362	.	.	ENSG00000131127	ENST00000240499	T	0.07216	3.21	1.24	-0.0286	0.13921	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.03220	0.0094	N	0.04636	-0.2	0.09310	N	1	B	0.19200	0.034	B	0.22152	0.038	T	0.47995	-0.9073	8	.	.	.	.	4.1736	0.10341	0.7434:0.0:0.2566:0.0	.	325	Q15928	ZN141_HUMAN	S	325	ENSP00000240499:T325S	.	T	+	1	0	ZNF141	357199	0.000000	0.05858	0.216000	0.23742	0.983000	0.72400	-6.049000	0.00083	0.495000	0.27882	0.260000	0.18958	ACC		0.383	ZNF141-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357710.1	NM_003441		T	367199	A	T	367199	3	4	672	1	0	0	0	0	1	0	0	0	17742	43	2	5	987	5	ZNF141	4	367199	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	30	367199	190787077	22	43224	425	3								
ZNF141	7700	mdanderson.org	37	chr4	367201	367201	+	Silent	SNP	C	C	A													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gcctttaataggtccacaacCcttactaaacataagagaat					rs111394409		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:367201C>A	ENST00000240499.7	+	4	1124	c.975C>A	c.(973-975)acC>acA	p.T325T	ZNF141_ENST00000512994.1_Intron|ZNF141_ENST00000505939.1_Intron	NM_003441.2	NP_003432.1	Q15928	ZN141_HUMAN	zinc finger protein 141	325					anatomical structure morphogenesis (GO:0009653)|limb morphogenesis (GO:0035108)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|kidney(3)|large_intestine(5)|lung(8)|upper_aerodigestive_tract(1)	18						GGTCCACAACCCTTACTAAAC	0.383																																																0													56	61	59					4																	367201		2198	4296	6494	SO:0001819	synonymous_variant	7700			L15309	CCDS33931.1	4p16.3	2013-01-08	2006-06-13			ENSG00000131127		"Zinc fingers, C2H2-type", "-"	12926	protein-coding gene	gene with protein product		194648	"zinc finger protein 141 (clone pHZ-44)"	D4S90		8268908	Standard	NM_003441		Approved	pHZ-44	uc003gaa.2	Q15928		ENST00000240499.7:c.975C>A	4.37:g.367201C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6DK07	Silent	SNP	ENST00000240499.7	37	CCDS33931.1																																																																																				0.383	ZNF141-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357710.1	NM_003441		A	367201	C	A	367201	2	1	672	1	0	0	0	0	0	0	0	1	17742	610	22	4		4	ZNF141	4	367201	Silent	SNP	C	TCGA-KN-8436-01A-11D-2310-10	2	367201	190787075	23	43225	425	3								
ZNF141	7700	mdanderson.org	37	chr4	367206	367206	+	Missense_Mutation	SNP	C	C	G													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	taataggtccacaacccttaCtaaacataagagaattcata					rs113884485		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:367206C>G	ENST00000240499.7	+	4	1129	c.980C>G	c.(979-981)aCt>aGt	p.T327S	ZNF141_ENST00000512994.1_Intron|ZNF141_ENST00000505939.1_Intron	NM_003441.2	NP_003432.1	Q15928	ZN141_HUMAN	zinc finger protein 141	327					anatomical structure morphogenesis (GO:0009653)|limb morphogenesis (GO:0035108)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|kidney(3)|large_intestine(5)|lung(8)|upper_aerodigestive_tract(1)	18						ACAACCCTTACTAAACATAAG	0.378																																																0													53	58	56					4																	367206		2200	4295	6495	SO:0001583	missense	7700			L15309	CCDS33931.1	4p16.3	2013-01-08	2006-06-13			ENSG00000131127		"Zinc fingers, C2H2-type", "-"	12926	protein-coding gene	gene with protein product		194648	"zinc finger protein 141 (clone pHZ-44)"	D4S90		8268908	Standard	NM_003441		Approved	pHZ-44	uc003gaa.2	Q15928		ENST00000240499.7:c.980C>G	4.37:g.367206C>G	ENSP00000240499:p.Thr327Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6DK07	Missense_Mutation	SNP	ENST00000240499.7	37	CCDS33931.1	.	.	.	.	.	.	.	.	.	.	C	10.85	1.468247	0.26335	.	.	ENSG00000131127	ENST00000240499	T	0.35973	1.28	1.24	0.227	0.15359	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.14700	0.0355	N	0.10733	0.035	0.09310	N	1	B	0.14012	0.009	B	0.15870	0.014	T	0.27502	-1.0072	8	.	.	.	.	3.3488	0.07145	0.0:0.4599:0.0:0.5401	.	327	Q15928	ZN141_HUMAN	S	327	ENSP00000240499:T327S	.	T	+	2	0	ZNF141	357206	0.000000	0.05858	0.576000	0.28549	0.982000	0.71751	-2.477000	0.00985	0.591000	0.29711	0.313000	0.20887	ACT		0.378	ZNF141-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357710.1	NM_003441		G	367206	C	G	367206	3	3	672	1	0	0	0	0	1	0	0	0	17742	565	20	4	994	4	ZNF141	4	367206	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	5	367206	190787070	24	43226	425	3								
UGT2B4	7363	mdanderson.org	37	chr4	70360910	70360910	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cttcatgtcaaatatttggaAccaaaattcaaaataaagca	4	7	3	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:70360910A>G	ENST00000305107.6	-	1	716	c.670T>C	c.(670-672)Ttc>Ctc	p.F224L	UGT2B4_ENST00000512583.1_Missense_Mutation_p.F224L|UGT2B4_ENST00000381096.3_Missense_Mutation_p.F88L|UGT2B4_ENST00000506580.1_Intron	NM_021139.2	NP_066962.2	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2 family, polypeptide B4	224					cellular glucuronidation (GO:0052695)|estrogen catabolic process (GO:0006711)|metabolic process (GO:0008152)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	glucuronosyltransferase activity (GO:0015020)			autonomic_ganglia(1)|breast(1)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(29)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	47					Canagliflozin(DB08907)|Codeine(DB00318)|Dapagliflozin(DB06292)|Flurbiprofen(DB00712)|Ibuprofen(DB01050)|Morphine(DB00295)	AATATTTGGAACCAAAATTCA	0.338																																																0													62	62	62					4																	70360910		2188	4298	6486	SO:0001583	missense	7363			BC026264	CCDS43234.1, CCDS75137.1	4q13	2008-02-05	2005-07-20			ENSG00000156096		"UDP glucuronosyltransferases"	12553	protein-coding gene	gene with protein product		600067	"UDP glycosyltransferase 2 family, polypeptide B4"			3109396, 7835904	Standard	NM_021139		Approved	UGT2B11	uc003hek.4	P06133		ENST00000305107.6:c.670T>C	4.37:g.70360910A>G	ENSP00000305221:p.Phe224Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NCP7|B4DT75|G5E9X8|O60731|O60867|O75614|P36538|Q1HBF9|Q6QQX7	Missense_Mutation	SNP	ENST00000305107.6	37	CCDS43234.1	.	.	.	.	.	.	.	.	.	.	A	8.544	0.874021	0.17395	.	.	ENSG00000156096	ENST00000512583;ENST00000305107;ENST00000381096	T;T;T	0.60548	0.18;0.18;0.18	2.4	1.23	0.21249	.	0.314649	0.25329	U	0.031448	T	0.55721	0.1938	M	0.66378	2.025	0.09310	N	1	B;B;B	0.25272	0.057;0.002;0.122	B;B;B	0.39152	0.057;0.041;0.292	T	0.51787	-0.8661	10	0.42905	T	0.14	.	5.3485	0.16022	0.837:0.0:0.163:0.0	.	88;224;224	A6NCP7;G5E9X8;P06133	.;.;UD2B4_HUMAN	L	224;224;88	ENSP00000421290:F224L;ENSP00000305221:F224L;ENSP00000370486:F88L	ENSP00000305221:F224L	F	-	1	0	UGT2B4	70395499	0.000000	0.05858	0.061000	0.19648	0.011000	0.07611	0.099000	0.15210	1.101000	0.41535	0.248000	0.18094	TTC		0.338	UGT2B4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365526.1	NM_021139		G	70360910	A	G	70360910	3	3	672	1	0	0	0	0	1	0	0	0	16973	43	2	3	940	3	UGT2B4	4	70360910	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	69993704	70360910	120793366	25	43227										
C4orf40	401137	mdanderson.org	37	chr4	71021777	71021777	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tttctttattttagagacggTtccccttcattggtgaggta	9	7	2	2			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:71021777T>C	ENST00000344526.5	+	2	247	c.58T>C	c.(58-60)Ttc>Ctc	p.F20L	C4orf40_ENST00000502294.1_Missense_Mutation_p.F20L|C4orf40_ENST00000502441.2_3'UTR	NM_214711.3	NP_999876.2	Q6MZM9	PRR27_HUMAN		20						extracellular vesicular exosome (GO:0070062)				breast(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	12						TTAGAGACGGTTCCCCTTCAT	0.264																																																0													38	40	39					4																	71021777		2197	4280	6477	SO:0001583	missense	401137																														ENST00000344526.5:c.58T>C	4.37:g.71021777T>C	ENSP00000343172:p.Phe20Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8MXP0|Q6MZR6	Missense_Mutation	SNP	ENST00000344526.5	37	CCDS3535.1	.	.	.	.	.	.	.	.	.	.	T	11.91	1.779120	0.31502	.	.	ENSG00000187533	ENST00000502294;ENST00000344526	T;T	0.38560	1.13;1.13	3.32	0.843	0.18935	.	.	.	.	.	T	0.23727	0.0574	N	0.19112	0.55	0.09310	N	1	B	0.19817	0.039	B	0.14578	0.011	T	0.18053	-1.0349	9	0.33940	T	0.23	-0.0543	5.1565	0.15038	0.0:0.2532:0.0:0.7468	.	20	Q6MZM9	CD040_HUMAN	L	20	ENSP00000426249:F20L;ENSP00000343172:F20L	ENSP00000343172:F20L	F	+	1	0	C4orf40	71056366	0.009000	0.17119	0.000000	0.03702	0.007000	0.05969	0.718000	0.25866	0.190000	0.20209	0.491000	0.48974	TTC		0.264	C4orf40-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251558.1			C	71021777	T	C	71021777	3	2	672	1	0	0	0	0	1	0	0	0	2271	1725	60	3	64	3	C4orf40	4	71021777	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	660867	71021777	120132499	26	43228										
CDKL2	8999	mdanderson.org	37	chr4	76532490	76532490	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	atccaaaatcgcatagcttgAcaacgccagactgggagact	9	11	0	3			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:76532490A>G	ENST00000429927.2	-	4	1122	c.419T>C	c.(418-420)gTc>gCc	p.V140A	CDKL2_ENST00000307465.4_Missense_Mutation_p.V140A	NM_003948.3	NP_003939.1	Q92772	CDKL2_HUMAN	cyclin-dependent kinase-like 2 (CDC2-related kinase)	140	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				sex differentiation (GO:0007548)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|cyclin-dependent protein serine/threonine kinase activity (GO:0004693)|protein kinase activity (GO:0004672)			breast(3)|endometrium(1)|large_intestine(4)|lung(6)|ovary(2)|prostate(2)|skin(2)|stomach(2)	22			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			GCATAGCTTGACAACGCCAGA	0.418																																																0													89	82	84					4																	76532490		2203	4300	6503	SO:0001583	missense	8999			U35146	CCDS3570.1	4q21.21	2011-11-04			ENSG00000138769	ENSG00000138769		"Cyclin-dependent kinases"	1782	protein-coding gene	gene with protein product		603442				9000130	Standard	NM_003948		Approved	P56, KKIAMRE	uc003hiq.3	Q92772	OTTHUMG00000130103	ENST00000429927.2:c.419T>C	4.37:g.76532490A>G	ENSP00000412365:p.Val140Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2R695	Missense_Mutation	SNP	ENST00000429927.2	37	CCDS3570.1	.	.	.	.	.	.	.	.	.	.	a	22.9	4.344614	0.82022	.	.	ENSG00000138769	ENST00000429927;ENST00000307465	T;T	0.49139	0.79;0.79	4.72	4.72	0.59763	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	.	.	.	.	T	0.41050	0.1142	N	0.21583	0.68	0.44123	D	0.996901	P;B	0.40931	0.733;0.277	P;B	0.44597	0.454;0.166	T	0.44967	-0.9293	9	0.72032	D	0.01	-4.7673	13.6112	0.62080	1.0:0.0:0.0:0.0	.	140;140	B4DH08;Q92772	.;CDKL2_HUMAN	A	140	ENSP00000412365:V140A;ENSP00000306340:V140A	ENSP00000306340:V140A	V	-	2	0	CDKL2	76751514	1.000000	0.71417	0.884000	0.34674	0.981000	0.71138	5.041000	0.64196	2.105000	0.64084	0.520000	0.50463	GTC		0.418	CDKL2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000252409.2	NM_003948		G	76532490	A	G	76532490	3	3	672	1	0	0	0	0	1	0	0	0	3156	275	10	3	1094	3	CDKL2	4	76532490	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	5510713	76532490	114621786	27	43229										
CNOT6L	246175	mdanderson.org	37	chr4	78641756	78641756	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ggccccaggacaccaagcacGttcatatgagtcttggaata	10	11	2	1	rs537970000		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:78641756G>A	ENST00000504123.1	-	12	1627	c.1497C>T	c.(1495-1497)aaC>aaT	p.N499N	CNOT6L_ENST00000264903.4_Silent_p.N499N			Q96LI5	CNO6L_HUMAN	CCR4-NOT transcription complex, subunit 6-like	499	Nuclease domain.				gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA destabilization (GO:0061157)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cytoplasmic mRNA processing body assembly (GO:0010606)|regulation of transcription, DNA-templated (GO:0006355)|regulation of translation (GO:0006417)|RNA metabolic process (GO:0016070)|transcription, DNA-templated (GO:0006351)	CCR4-NOT complex (GO:0030014)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|poly(A)-specific ribonuclease activity (GO:0004535)			kidney(1)|large_intestine(1)|lung(6)|urinary_tract(1)	9						CACCAAGCACGTTCATATGAG	0.428													G|||	1	0.000199681	0.0	0.0014	5008	,	,		20508	0.0		0.0	False		,,,				2504	0.0															0													147	142	144					4																	78641756		1919	4131	6050	SO:0001819	synonymous_variant	246175			AL133112	CCDS68731.1	4q13.3	2014-06-17				ENSG00000138767			18042	protein-coding gene	gene with protein product							Standard	NM_144571		Approved	DKFZp434K098, Ccr4b	uc003hks.3	Q96LI5		ENST00000504123.1:c.1497C>T	4.37:g.78641756G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UF92	Silent	SNP	ENST00000504123.1	37																																																																																					0.428	CNOT6L-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000362515.1			A	78641756	G	A	78641756	2	1	672	1	0	0	0	0	0	0	0	1	3625	1136	40	1		1	CNOT6L	4	78641756	Silent	SNP	G	TCGA-KN-8436-01A-11D-2310-10	2109266	78641756	112512520	28	43230										
DSPP	1834	bcgsc.ca	37	chr4	88537027	88537027	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gacagcagtgatagcagtgaCagcagtgacagcagcgacag	14	9	0	3			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:88537027C>A	ENST00000282478.7	+	4	3246	c.3213C>A	c.(3211-3213)gaC>gaA	p.D1071E	DSPP_ENST00000399271.1_Missense_Mutation_p.D1071E|RP11-742B18.1_ENST00000506480.1_RNA			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	1071	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		atagcagtgacagcagtgaca	0.542																																																0													56	66	63					4																	88537027		1577	2848	4425	SO:0001583	missense	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.3213C>A	4.37:g.88537027C>A	ENSP00000282478:p.Asp1071Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	Missense_Mutation	SNP	ENST00000282478.7	37	CCDS43248.1	.	.	.	.	.	.	.	.	.	.	c	2.636	-0.285341	0.05605	.	.	ENSG00000152591	ENST00000399271;ENST00000282478	D;D	0.88124	-2.34;-2.34	1.15	-2.31	0.06765	.	.	.	.	.	T	0.69196	0.3084	L	0.38175	1.15	0.09310	N	1	P	0.46952	0.887	B	0.36766	0.232	T	0.66364	-0.5942	9	0.02654	T	1	.	2.058	0.03586	0.2533:0.3578:0.0:0.3889	.	1071	Q9NZW4	DSPP_HUMAN	E	1071	ENSP00000382213:D1071E;ENSP00000282478:D1071E	ENSP00000282478:D1071E	D	+	3	2	DSPP	88756051	0.029000	0.19370	0.018000	0.16275	0.040000	0.13550	-0.117000	0.10708	-0.986000	0.03498	0.282000	0.19409	GAC		0.542	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		A	88537027	C	A	88537027	3	1	672	1	0	0	0	0	1	0	0	0	4784	477	17	4	3227	4	DSPP	4	88537027	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	9895271	88537027	102617249	29	43231										
DSPP	1834	mdanderson.org	37	chr4	88537081	88537081	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gaaagcagtgatagcagtgaCagcagcaatagcagtgacag	13	7	0	3	rs367717407|rs370267258	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:88537081C>T	ENST00000282478.7	+	4	3300	c.3267C>T	c.(3265-3267)gaC>gaT	p.D1089D	DSPP_ENST00000399271.1_Silent_p.D1089D|RP11-742B18.1_ENST00000506480.1_RNA			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	1089	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		atagcagtgacagcagcaata	0.537													c|||	838	0.167332	0.2292	0.2133	5008	,	,		14171	0.1131		0.1461	False		,,,				2504	0.1288															0								C		1383,707		577,229,239	19	24	22		3267	0.6	0	4		22	2123,1867		754,615,626	no	coding-synonymous	DSPP	NM_014208.3		1331,844,865	TT,TC,CC		46.792,33.8278,42.3355		1089/1302	88537081	3506,2574	1045	1995	3040	SO:0001819	synonymous_variant	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.3267C>T	4.37:g.88537081C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	Silent	SNP	ENST00000282478.7	37	CCDS43248.1																																																																																				0.537	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		T	88537081	C	T	88537081	2	4	672	1	0	0	0	0	0	0	0	1	4784	477	17	2		2	DSPP	4	88537081	Silent	SNP	C	TCGA-KN-8436-01A-11D-2310-10	54	88537081	102617195	30	43232										
EIF4E	1977	mdanderson.org	37	chr4	99806181	99806181	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cacatacatcatcactgtagTcatcaaaagattctccaata	3	11	5	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:99806181T>C	ENST00000450253.2	-	6	1955	c.431A>G	c.(430-432)gAc>gGc	p.D144G	EIF4E_ENST00000280892.6_Missense_Mutation_p.D164G|EIF4E_ENST00000504432.1_Missense_Mutation_p.D172G|EIF4E_ENST00000505992.1_Missense_Mutation_p.D175G	NM_001968.3	NP_001959.1	P06730	IF4E_HUMAN	eukaryotic translation initiation factor 4E	144					cellular protein metabolic process (GO:0044267)|cytokine-mediated signaling pathway (GO:0019221)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|insulin receptor signaling pathway (GO:0008286)|lung development (GO:0030324)|mRNA export from nucleus (GO:0006406)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of mitotic cell cycle (GO:0045931)|regulation of translation (GO:0006417)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)|viral process (GO:0016032)	chromatoid body (GO:0033391)|cytoplasm (GO:0005737)|cytoplasmic mRNA processing body (GO:0000932)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|eukaryotic translation initiation factor 4F complex (GO:0016281)|extracellular vesicular exosome (GO:0070062)|mRNA cap binding complex (GO:0005845)|RISC complex (GO:0016442)	poly(A) RNA binding (GO:0044822)|RNA cap binding (GO:0000339)|translation initiation factor activity (GO:0003743)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(6)|prostate(1)|skin(1)	13				OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)|LUSC - Lung squamous cell carcinoma(721;0.00227)		ATCACTGTAGTCATCAAAAGA	0.338																																																0													56	51	53					4																	99806181		2203	4298	6501	SO:0001583	missense	1977			M15353	CCDS34031.1, CCDS47109.1, CCDS54779.1	4q21-q25	2008-02-05			ENSG00000151247	ENSG00000151247			3287	protein-coding gene	gene with protein product		133440		EIF4EL1, EIF4F		9330633, 1916814	Standard	NM_001968		Approved	EIF4E1	uc011cea.1	P06730	OTTHUMG00000161090	ENST00000450253.2:c.431A>G	4.37:g.99806181T>C	ENSP00000389624:p.Asp144Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6V1|D6RCQ6|Q96E95	Missense_Mutation	SNP	ENST00000450253.2	37	CCDS34031.1	.	.	.	.	.	.	.	.	.	.	T	17.79	3.475597	0.63737	.	.	ENSG00000151247	ENST00000450253;ENST00000280892;ENST00000504432;ENST00000505992	T;T;T;T	0.44083	0.93;0.93;0.93;1.59	5.05	5.05	0.67936	Translation Initiation factor eIF- 4e-like  domain (2);	0.046398	0.85682	D	0.000000	T	0.49440	0.1557	M	0.74881	2.28	0.80722	D	1	B;B;B	0.16603	0.018;0.005;0.003	B;B;B	0.30782	0.085;0.12;0.085	T	0.52208	-0.8606	10	0.59425	D	0.04	-11.665	14.8686	0.70437	0.0:0.0:0.0:1.0	.	175;164;144	P06730-2;B7Z6V1;P06730	.;.;IF4E_HUMAN	G	144;164;172;175	ENSP00000389624:D144G;ENSP00000280892:D164G;ENSP00000423977:D172G;ENSP00000425561:D175G	ENSP00000280892:D164G	D	-	2	0	EIF4E	100025204	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.850000	0.86915	1.910000	0.55303	0.451000	0.29950	GAC		0.338	EIF4E-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000363739.1	NM_001968		C	99806181	T	C	99806181	3	2	672	1	0	0	0	0	1	0	0	0	5030	1667	58	3	230	3	EIF4E	4	99806181	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	11269100	99806181	91348095	31	43233										
ENPEP	2028	mdanderson.org	37	chr4	111430851	111430851	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tggcactggtgccatggagaActggggactcatcacgtaca	13	10	2	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:111430851A>G	ENST00000265162.5	+	5	1424	c.1082A>G	c.(1081-1083)aAc>aGc	p.N361S	RP11-380D23.1_ENST00000503998.1_RNA	NM_001977.3	NP_001968.3	Q07075	AMPE_HUMAN	glutamyl aminopeptidase (aminopeptidase A)	361	Substrate binding. {ECO:0000250}.				angiogenesis (GO:0001525)|angiotensin catabolic process in blood (GO:0002005)|angiotensin maturation (GO:0002003)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|cell-cell signaling (GO:0007267)|cellular protein metabolic process (GO:0044267)|glomerulus development (GO:0032835)|regulation of systemic arterial blood pressure by renin-angiotensin (GO:0003081)	apical part of cell (GO:0045177)|apical plasma membrane (GO:0016324)|brush border (GO:0005903)|cytoplasmic vesicle (GO:0031410)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|plasma membrane (GO:0005886)	aminopeptidase activity (GO:0004177)|metalloaminopeptidase activity (GO:0070006)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|kidney(1)|large_intestine(12)|lung(22)|ovary(1)|prostate(3)|skin(8)|upper_aerodigestive_tract(2)|urinary_tract(1)	54		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)		GCCATGGAGAACTGGGGACTC	0.438																																																0													150	143	145					4																	111430851		2203	4300	6503	SO:0001583	missense	2028			L12468	CCDS3691.1	4q25	2008-02-05			ENSG00000138792	ENSG00000138792	3.4.11.7	"CD molecules"	3355	protein-coding gene	gene with protein product		138297				9268642	Standard	NM_001977		Approved	gp160, CD249	uc003iab.4	Q07075	OTTHUMG00000132546	ENST00000265162.5:c.1082A>G	4.37:g.111430851A>G	ENSP00000265162:p.Asn361Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q504U2	Missense_Mutation	SNP	ENST00000265162.5	37	CCDS3691.1	.	.	.	.	.	.	.	.	.	.	A	15.21	2.766774	0.49574	.	.	ENSG00000138792	ENST00000265162	T	0.07908	3.15	5.76	4.56	0.56223	Peptidase M1, membrane alanine aminopeptidase, N-terminal (2);	0.076730	0.85682	D	0.000000	T	0.41994	0.1183	H	0.96861	3.895	0.80722	D	1	D	0.89917	1.0	D	0.81914	0.995	T	0.59473	-0.7448	10	0.87932	D	0	.	13.0524	0.58962	0.8655:0.1345:0.0:0.0	.	361	Q07075	AMPE_HUMAN	S	361	ENSP00000265162:N361S	ENSP00000265162:N361S	N	+	2	0	ENPEP	111650300	1.000000	0.71417	1.000000	0.80357	0.059000	0.15707	9.291000	0.96070	0.979000	0.38497	-0.316000	0.08728	AAC		0.438	ENPEP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255747.2			G	111430851	A	G	111430851	3	3	672	1	0	0	0	0	1	0	0	0	5130	43	2	3	1100	3	ENPEP	4	111430851	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	11624670	111430851	79723425	32	43234										
ABCE1	6059	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	146044440	146044440	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gggcaaacctgctgatgtctAtttaattgatgaaccatctg	9	8	2	3			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:146044440A>G	ENST00000296577.4	+	15	1963	c.1448A>G	c.(1447-1449)tAt>tGt	p.Y483C	OTUD4_ENST00000455611.2_Intron|ABCE1_ENST00000502803.1_3'UTR	NM_001040876.1|NM_002940.2	NP_001035809.1|NP_002931.2	P61221	ABCE1_HUMAN	ATP-binding cassette, sub-family E (OABP), member 1	483	ABC transporter 2. {ECO:0000255|PROSITE- ProRule:PRU00434}.				negative regulation of catalytic activity (GO:0043086)|response to virus (GO:0009615)|RNA catabolic process (GO:0006401)|viral process (GO:0016032)	cytoplasm (GO:0005737)|membrane (GO:0016020)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|iron-sulfur cluster binding (GO:0051536)|ribonuclease inhibitor activity (GO:0008428)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|lung(5)|prostate(2)|skin(3)	18	all_hematologic(180;0.151)					GCTGATGTCTATTTAATTGAT	0.423																																																0													84	85	85					4																	146044440		2203	4300	6503	SO:0001583	missense	6059			X74987	CCDS34071.1	4q31	2012-03-14			ENSG00000164163	ENSG00000164163		"ATP binding cassette transporters / subfamily E"	69	protein-coding gene	gene with protein product		601213		RNASEL1, RNASELI, RNS4I		7539425	Standard	NM_002940		Approved	RLI, OABP	uc003ijy.3	P61221	OTTHUMG00000161478	ENST00000296577.4:c.1448A>G	4.37:g.146044440A>G	ENSP00000296577:p.Tyr483Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O88793|Q13181|Q13864|Q6NR76|Q96AL0|Q96B10|Q99K66	Missense_Mutation	SNP	ENST00000296577.4	37	CCDS34071.1	.	.	.	.	.	.	.	.	.	.	A	21.3	4.133266	0.77662	.	.	ENSG00000164163	ENST00000296577	D	0.91686	-2.89	5.69	4.49	0.54785	ATPase, AAA+ type, core (1);ABC transporter-like (2);	0.000000	0.85682	D	0.000000	D	0.96194	0.8759	M	0.86502	2.82	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.96356	0.9262	10	0.87932	D	0	.	13.1877	0.59691	0.8667:0.1333:0.0:0.0	.	483	P61221	ABCE1_HUMAN	C	483	ENSP00000296577:Y483C	ENSP00000296577:Y483C	Y	+	2	0	ABCE1	146263890	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	9.339000	0.96797	1.068000	0.40764	-0.313000	0.08912	TAT		0.423	ABCE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365104.1	NM_002940		G	146044440	A	G	146044440	3	3	672	1	0	0	0	0	1	0	0	0	64	449	16	3	1502	3	ABCE1	4	146044440	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	34613589	146044440	45109836	33	43235										
FHDC1	85462	mdanderson.org	37	chr4	153897154	153897154	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	agagaacgagagcatgcgcaAggtcatgcccatcaccaagt	11	11	2	2			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:153897154A>G	ENST00000511601.1	+	12	2899	c.2711A>G	c.(2710-2712)aAg>aGg	p.K904R	FHDC1_ENST00000260008.3_Missense_Mutation_p.K904R			Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	904									ARFIP1/FHDC1(2)	NS(2)|breast(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(7)|liver(2)|lung(14)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	43	all_hematologic(180;0.093)					AGCATGCGCAAGGTCATGCCC	0.687																																																0													29	32	31					4																	153897154		2202	4299	6501	SO:0001583	missense	85462			AB051514	CCDS34081.1	4q31.3	2014-02-12	2007-11-29		ENSG00000137460	ENSG00000137460			29363	protein-coding gene	gene with protein product						15138637	Standard	NM_033393		Approved	KIAA1727	uc003inf.2	Q9C0D6	OTTHUMG00000161452	ENST00000511601.1:c.2711A>G	4.37:g.153897154A>G	ENSP00000427567:p.Lys904Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000511601.1	37	CCDS34081.1	.	.	.	.	.	.	.	.	.	.	A	19.63	3.864262	0.71949	.	.	ENSG00000137460	ENST00000511601;ENST00000260008	T;T	0.61859	0.07;0.07	4.98	4.98	0.66077	.	0.724112	0.13319	N	0.396836	T	0.65801	0.2726	L	0.34521	1.04	0.58432	D	0.999996	D	0.89917	1.0	D	0.83275	0.996	T	0.57069	-0.7874	10	0.20519	T	0.43	.	14.6664	0.68910	1.0:0.0:0.0:0.0	.	904	Q9C0D6	FHDC1_HUMAN	R	904	ENSP00000427567:K904R;ENSP00000260008:K904R	ENSP00000260008:K904R	K	+	2	0	FHDC1	154116604	1.000000	0.71417	1.000000	0.80357	0.316000	0.28119	8.665000	0.91144	1.873000	0.54277	0.379000	0.24179	AAG		0.687	FHDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364981.2	NM_033393		G	153897154	A	G	153897154	3	3	672	1	0	0	0	0	1	0	0	0	5883	72	3	3	2753	3	FHDC1	4	153897154	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	7852714	153897154	37257122	34	43236										
TLR3	7098	mdanderson.org	37	chr4	187004362	187004362	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cattccagcctcttcgtaacTtgaccattctggatctaagc	6	13	3	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:187004362T>C	ENST00000296795.3	+	4	1626	c.1522T>C	c.(1522-1524)Ttg>Ctg	p.L508L	TLR3_ENST00000504367.1_Silent_p.L231L	NM_003265.2	NP_003256.1	O15455	TLR3_HUMAN	toll-like receptor 3	508					activation of NF-kappaB-inducing kinase activity (GO:0007250)|cellular response to drug (GO:0035690)|cellular response to exogenous dsRNA (GO:0071360)|cellular response to interferon-beta (GO:0035458)|cellular response to interferon-gamma (GO:0071346)|cellular response to mechanical stimulus (GO:0071260)|defense response to bacterium (GO:0042742)|defense response to virus (GO:0051607)|detection of virus (GO:0009597)|extrinsic apoptotic signaling pathway (GO:0097191)|hyperosmotic response (GO:0006972)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|I-kappaB phosphorylation (GO:0007252)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|male gonad development (GO:0008584)|microglial cell activation involved in immune response (GO:0002282)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|necroptotic signaling pathway (GO:0097527)|negative regulation of osteoclast differentiation (GO:0045671)|pathogen-associated molecular pattern dependent induction by symbiont of host innate immune response (GO:0052033)|positive regulation of apoptotic process (GO:0043065)|positive regulation of chemokine biosynthetic process (GO:0045080)|positive regulation of chemokine production (GO:0032722)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of inflammatory response (GO:0050729)|positive regulation of interferon-alpha biosynthetic process (GO:0045356)|positive regulation of interferon-beta biosynthetic process (GO:0045359)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of interferon-gamma biosynthetic process (GO:0045078)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of interleukin-8 production (GO:0032757)|positive regulation of JNK cascade (GO:0046330)|positive regulation of NF-kappaB import into nucleus (GO:0042346)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of toll-like receptor signaling pathway (GO:0034123)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor production (GO:0032760)|positive regulation of type III interferon production (GO:0034346)|response to exogenous dsRNA (GO:0043330)|signal transduction (GO:0007165)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor signaling pathway (GO:0002224)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|endolysosome membrane (GO:0036020)|endoplasmic reticulum membrane (GO:0005789)|endosome membrane (GO:0010008)|Golgi membrane (GO:0000139)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)	double-stranded RNA binding (GO:0003725)|receptor activity (GO:0004872)|transmembrane signaling receptor activity (GO:0004888)			breast(1)|endometrium(5)|large_intestine(8)|lung(8)|ovary(2)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	29		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.47e-11)|BRCA - Breast invasive adenocarcinoma(30;1.14e-05)|GBM - Glioblastoma multiforme(59;0.000107)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.16)		TCTTCGTAACTTGACCATTCT	0.448																																																0													102	105	104					4																	187004362		2203	4300	6503	SO:0001819	synonymous_variant	7098			U88879	CCDS3846.1	4q35	2014-09-17				ENSG00000164342		"CD molecules"	11849	protein-coding gene	gene with protein product		603029				9435236	Standard	NM_003265		Approved	CD283	uc003iyq.3	O15455		ENST00000296795.3:c.1522T>C	4.37:g.187004362T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RAI7|B7Z7K0|E6Y0F0|E6Y0F1|E9PGH4|Q4VAL2|Q504W0	Silent	SNP	ENST00000296795.3	37	CCDS3846.1																																																																																				0.448	TLR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360313.4			C	187004362	T	C	187004362	2	2	672	1	0	0	0	0	0	0	0	1	15964	1606	56	3		3	TLR3	4	187004362	Silent	SNP	T	TCGA-KN-8436-01A-11D-2310-10	33107208	187004362	4149914	35	43237										
FAT1	2195	broad.mit.edu;hgsc.bcm.edu	37	chr4	187584589	187584589	+	Frame_Shift_Del	DEL	G	G	-													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tctttaggagaattttccatGatttctgggtaataaacagg							TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:187584589delG	ENST00000441802.2	-	3	3653	c.3444delC	c.(3442-3444)atcfs	p.I1148fs		NM_005245.3	NP_005236.2	Q14517	FAT1_HUMAN	FAT atypical cadherin 1	1148	Cadherin 10. {ECO:0000255|PROSITE- ProRule:PRU00043}.				actin filament organization (GO:0007015)|anatomical structure morphogenesis (GO:0009653)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|cell-cell signaling (GO:0007267)|establishment or maintenance of cell polarity (GO:0007163)|homophilic cell adhesion (GO:0007156)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(38)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(33)|lung(88)|ovary(13)|pancreas(2)|prostate(16)|skin(2)|upper_aerodigestive_tract(11)|urinary_tract(4)	228						AATTTTCCATGATTTCTGGGT	0.413										HNSCC(5;0.00058)																											Colon(197;1040 2055 4143 4984 49344)											0													176	169	171					4																	187584589		1895	4121	6016	SO:0001589	frameshift_variant	2195			X87241	CCDS47177.1	4q35.2	2013-05-31	2013-05-31	2008-10-30	ENSG00000083857	ENSG00000083857		"Cadherins / Cadherin-related"	3595	protein-coding gene	gene with protein product	"cadherin-related family member 8"	600976	"FAT tumor suppressor (Drosophila) homolog", "FAT tumor suppressor homolog 1 (Drosophila)"	FAT		8586420	Standard	XM_005262834		Approved	CDHF7, CDHR8	uc003izf.3	Q14517	OTTHUMG00000160320	ENST00000441802.2:c.3444delC	4.37:g.187584589delG	ENSP00000406229:p.Ile1148fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000441802.2	37	CCDS47177.1																																																																																				0.413	FAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360209.3	NM_005245		-	187584589	G	-	187584589	7	5	672	1	0	1	0	1	0	0	0	0	5696	1280	45	0	10422	0	FAT1	4	187584589	Frame_Shift_Del	DEL	G	TCGA-KN-8436-01A-11D-2310-10	580227	187584589	3569687	36	43238	426	2								
FAT1	2195	bcgsc.ca	37	chr4	187584590	187584590	+	Frame_Shift_Del	DEL	G	G	-													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ctttaggagaattttccatgAtttctgggtaataaacaggc							TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr4:187584590delG	ENST00000441802.2	-	3	3652	c.3443delC	c.(3442-3444)accfs	p.T1148fs		NM_005245.3	NP_005236.2	Q14517	FAT1_HUMAN	FAT atypical cadherin 1	1148	Cadherin 10. {ECO:0000255|PROSITE- ProRule:PRU00043}.				actin filament organization (GO:0007015)|anatomical structure morphogenesis (GO:0009653)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|cell-cell signaling (GO:0007267)|establishment or maintenance of cell polarity (GO:0007163)|homophilic cell adhesion (GO:0007156)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(38)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(33)|lung(88)|ovary(13)|pancreas(2)|prostate(16)|skin(2)|upper_aerodigestive_tract(11)|urinary_tract(4)	228						ATTTTCCATGATTTCTGGGTA	0.418										HNSCC(5;0.00058)																											Colon(197;1040 2055 4143 4984 49344)											0													178	170	173					4																	187584590		1897	4121	6018	SO:0001589	frameshift_variant	2195			X87241	CCDS47177.1	4q35.2	2013-05-31	2013-05-31	2008-10-30	ENSG00000083857	ENSG00000083857		"Cadherins / Cadherin-related"	3595	protein-coding gene	gene with protein product	"cadherin-related family member 8"	600976	"FAT tumor suppressor (Drosophila) homolog", "FAT tumor suppressor homolog 1 (Drosophila)"	FAT		8586420	Standard	XM_005262834		Approved	CDHF7, CDHR8	uc003izf.3	Q14517	OTTHUMG00000160320	ENST00000441802.2:c.3443delC	4.37:g.187584590delG	ENSP00000406229:p.Thr1148fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000441802.2	37	CCDS47177.1																																																																																				0.418	FAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360209.3	NM_005245		-	187584590	G	-	187584590	7	5	672	1	0	1	0	1	0	0	0	0	5696	333	12	0	10423	0	FAT1	4	187584590	Frame_Shift_Del	DEL	G	TCGA-KN-8436-01A-11D-2310-10	1	187584590	3569686	37	43239	426	2								
NKD2	85409	broad.mit.edu	37	chr5	1038447	1038461	+	In_Frame_Del	DEL	CACCACCACCACCAC	CACCACCACCACCAC	-													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	agcaccaccaccaccacgagCaccaccaccaccaccaccac					rs3840989|rs143388141		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	CACCACCACCACCAC	CACCACCACCACCAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr5:1038447_1038461delCACCACCACCACCAC	ENST00000296849.5	+	10	1544_1558	c.1315_1329delCACCACCACCACCAC	c.(1315-1329)caccaccaccaccacdel	p.HHHHH439del	NKD2_ENST00000382730.2_In_Frame_Del_p.PPPPP79del|NKD2_ENST00000274150.4_3'UTR	NM_033120.3	NP_149111.1	Q969F2	NKD2_HUMAN	naked cuticle homolog 2 (Drosophila)	439	His-rich.				exocytosis (GO:0006887)|Golgi vesicle fusion to target membrane (GO:0048210)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein processing (GO:0010954)|protein targeting to plasma membrane (GO:0072661)|Wnt signaling pathway (GO:0016055)	basolateral plasma membrane (GO:0016323)|cell periphery (GO:0071944)|cytoplasmic vesicle (GO:0031410)	calcium ion binding (GO:0005509)|growth factor binding (GO:0019838)|ubiquitin protein ligase binding (GO:0031625)			breast(1)|central_nervous_system(3)|large_intestine(1)|lung(8)|pancreas(1)	14	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;3.28e-09)		Epithelial(17;0.00093)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00417)|Lung(60;0.165)			ccaccacgagcaccaccaccaccaccaccaccacc	0.688																																																0																																										SO:0001651	inframe_deletion	85409			AF358137	CCDS3859.1, CCDS59486.1	5p15.3	2013-01-10			ENSG00000145506	ENSG00000145506		"EF-hand domain containing"	17046	protein-coding gene	gene with protein product	"naked cuticle-2", "Dvl-binding protein NKD2"	607852				11356022, 11604995	Standard	NM_033120		Approved	Naked2	uc003jbt.2	Q969F2	OTTHUMG00000090348	ENST00000296849.5:c.1315_1329delCACCACCACCACCAC	5.37:g.1038447_1038461delCACCACCACCACCAC	ENSP00000296849:p.His439_His443del	Somatic		WXS	Illumina HiSeq	Phase_I	Q96EK8|Q9BSN0	In_Frame_Del	DEL	ENST00000296849.5	37	CCDS3859.1																																																																																				0.688	NKD2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000206720.2	NM_033120		-	1038461	CACCACCACCACCAC	-	1038447	7	5	672	1	0	1	0	1	0	0	0	0	10449	710	25	0	1353	0	NKD2	5	1038447	In_Frame_Del	DEL	CACCACCACCACCAC	TCGA-KN-8436-01A-11D-2310-10		1038447	179876813	38	43240										
SLC6A19	340024	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	1214087	1214087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ggtcacggagctggcccagcCggacacctggctggacgcgg	17	14	1	0	rs148139045		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr5:1214087C>T	ENST00000304460.10	+	6	850	c.794C>T	c.(793-795)cCg>cTg	p.P265L		NM_001003841.2	NP_001003841.1	Q695T7	S6A19_HUMAN	solute carrier family 6 (neutral amino acid transporter), member 19	265					amino acid transport (GO:0006865)|ion transport (GO:0006811)|response to nutrient (GO:0007584)|transmembrane transport (GO:0055085)	brush border membrane (GO:0031526)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	neurotransmitter:sodium symporter activity (GO:0005328)|neutral amino acid transmembrane transporter activity (GO:0015175)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|lung(25)|prostate(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	44	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)			CTGGCCCAGCCGGACACCTGG	0.657													C|||	1	0.000199681	0.0	0.0	5008	,	,		17246	0.0		0.001	False		,,,				2504	0.0															0								C	LEU/PRO	0,4406		0,0,2203	75	78	77		794	5	0.9	5	dbSNP_134	77	1,8599	1.2+/-3.3	0,1,4299	no	missense	SLC6A19	NM_001003841.2	98	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	265/635	1214087	1,13005	2203	4300	6503	SO:0001583	missense	340024			AK096054	CCDS34130.1	5p15	2013-07-19			ENSG00000174358	ENSG00000174358		"Solute carriers"	27960	protein-coding gene	gene with protein product	"Hartnup disease"	608893					Standard	NM_001003841		Approved		uc003jbw.4	Q695T7	OTTHUMG00000161636	ENST00000304460.10:c.794C>T	5.37:g.1214087C>T	ENSP00000305302:p.Pro265Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K446	Missense_Mutation	SNP	ENST00000304460.10	37	CCDS34130.1	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	C	19.61	3.860605	0.71834	0.0	1.16E-4	ENSG00000174358	ENST00000304460	T	0.77358	-1.09	4.96	4.96	0.65561	.	0.099721	0.64402	D	0.000001	D	0.83538	0.5276	M	0.74881	2.28	0.80722	D	1	D	0.56968	0.978	P	0.51453	0.67	D	0.86435	0.1763	10	0.72032	D	0.01	.	17.1671	0.86819	0.0:1.0:0.0:0.0	.	265	Q695T7	S6A19_HUMAN	L	265	ENSP00000305302:P265L	ENSP00000305302:P265L	P	+	2	0	SLC6A19	1267087	0.939000	0.31865	0.923000	0.36655	0.629000	0.37895	1.987000	0.40687	2.296000	0.77279	0.491000	0.48974	CCG		0.657	SLC6A19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365557.1	XM_291120		T	1214087	C	T	1214087	3	4	672	1	0	0	0	0	1	0	0	0	14695	652	23	1	816	1	SLC6A19	5	1214087	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	175640	1214087	179701173	39	43241										
SLC1A3	6507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	36680556	36680556	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gaacaatggcgtggacaagcGcgtcaccagattcgtgctcc	12	12	1	1	rs115702388	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr5:36680556G>A	ENST00000265113.4	+	8	1630	c.1154G>A	c.(1153-1155)cGc>cAc	p.R385H	SLC1A3_ENST00000381918.3_Missense_Mutation_p.R385H|CTD-2353F22.1_ENST00000510740.1_RNA	NM_004172.4	NP_004163.3	P43003	EAA1_HUMAN	solute carrier family 1 (glial high affinity glutamate transporter), member 3	385					auditory behavior (GO:0031223)|cell morphogenesis involved in neuron differentiation (GO:0048667)|cranial nerve development (GO:0021545)|D-aspartate import (GO:0070779)|gamma-aminobutyric acid biosynthetic process (GO:0009449)|glutamate biosynthetic process (GO:0006537)|ion transport (GO:0006811)|L-glutamate import (GO:0051938)|neuromuscular process controlling balance (GO:0050885)|neurotransmitter uptake (GO:0001504)|positive regulation of synaptic transmission (GO:0050806)|response to antibiotic (GO:0046677)|response to drug (GO:0042493)|response to light stimulus (GO:0009416)|response to wounding (GO:0009611)|sensory perception of sound (GO:0007605)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	cell projection (GO:0042995)|cell surface (GO:0009986)|fibril (GO:0043205)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	glutamate binding (GO:0016595)|high-affinity glutamate transmembrane transporter activity (GO:0005314)|L-glutamate transmembrane transporter activity (GO:0005313)|sodium:dicarboxylate symporter activity (GO:0017153)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(8)|liver(1)|lung(23)|skin(1)	41	all_lung(31;0.000245)		Epithelial(62;0.0444)|Lung(74;0.111)|all cancers(62;0.128)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GTGGACAAGCGCGTCACCAGA	0.522													G|||	5	0.000998403	0.0038	0.0	5008	,	,		20116	0.0		0.0	False		,,,				2504	0.0															0								G	HIS/ARG,HIS/ARG	11,4395	17.9+/-39.9	0,11,2192	108	91	97		1154,1154	5.8	0.9	5	dbSNP_132	97	1,8599	1.2+/-3.3	0,1,4299	yes	missense,missense	SLC1A3	NM_001166695.1,NM_004172.4	29,29	0,12,6491	AA,AG,GG		0.0116,0.2497,0.0923	probably-damaging,probably-damaging	385/498,385/543	36680556	12,12994	2203	4300	6503	SO:0001583	missense	6507				CCDS3919.1, CCDS54844.1	5p13	2013-05-22			ENSG00000079215	ENSG00000079215		"Solute carriers"	10941	protein-coding gene	gene with protein product	"glutamate transporter variant EAAT1ex9skip"	600111				7521911, 7698014	Standard	NM_004172		Approved	EAAT1, GLAST, EA6	uc003jkj.4	P43003	OTTHUMG00000090793	ENST00000265113.4:c.1154G>A	5.37:g.36680556G>A	ENSP00000265113:p.Arg385His	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5T3|Q4JCQ8	Missense_Mutation	SNP	ENST00000265113.4	37	CCDS3919.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	G	32	5.152219	0.94645	0.002497	1.16E-4	ENSG00000079215	ENST00000265113;ENST00000427100;ENST00000381918	T;T	0.59772	0.24;0.24	5.8	5.8	0.92144	.	0.000000	0.85682	D	0.000000	T	0.77538	0.4145	M	0.75884	2.315	0.58432	D	0.999999	P;D	0.71674	0.903;0.998	B;D	0.80764	0.33;0.994	T	0.77485	-0.2570	10	0.56958	D	0.05	-10.6026	20.0609	0.97674	0.0:0.0:1.0:0.0	.	385;385	Q4JCQ8;P43003	.;EAA1_HUMAN	H	385;333;385	ENSP00000265113:R385H;ENSP00000371343:R385H	ENSP00000265113:R385H	R	+	2	0	SLC1A3	36716313	1.000000	0.71417	0.868000	0.34077	0.657000	0.38888	8.054000	0.89451	2.755000	0.94549	0.655000	0.94253	CGC		0.522	SLC1A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207579.2	NM_004172		A	36680556	G	A	36680556	3	1	672	1	0	0	0	0	1	0	0	0	14446	1087	38	1	1197	1	SLC1A3	5	36680556	Missense_Mutation	SNP	G	TCGA-KN-8436-01A-11D-2310-10	35466469	36680556	144234704	40	43242										
GCNT4	51301	mdanderson.org	37	chr5	74325354	74325354	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tcatggcaactttgaaggtaTcaggtgccttacgatcataa	9	8	3	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr5:74325354T>C	ENST00000322348.4	-	1	1370	c.509A>G	c.(508-510)gAt>gGt	p.D170G		NM_016591.2	NP_057675.1	Q9P109	GCNT4_HUMAN	glucosaminyl (N-acetyl) transferase 4, core 2	170					carbohydrate metabolic process (GO:0005975)|cellular protein metabolic process (GO:0044267)|homeostasis of number of cells (GO:0048872)|inter-male aggressive behavior (GO:0002121)|kidney morphogenesis (GO:0060993)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein O-linked glycosylation (GO:0006493)|thyroid hormone metabolic process (GO:0042403)|tissue morphogenesis (GO:0048729)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity (GO:0003829)|N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity (GO:0008109)			NS(1)|breast(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(3)|ovary(2)|skin(1)|stomach(2)	19		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;8.44e-57)		TTTGAAGGTATCAGGTGCCTT	0.388																																																0													150	147	148					5																	74325354		2203	4300	6503	SO:0001583	missense	51301			AF132035	CCDS4026.1	5q12	2013-02-25	2010-03-16		ENSG00000176928	ENSG00000176928	2.4.1.102	"Glucosaminyl (N-acetyl) transferase and xylosyltransferase family"	17973	protein-coding gene	gene with protein product	"core 2 beta-1,6-N-acetylglucosaminyltransferase 3", "beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase 4"		"glucosaminyl (N-acetyl) transferase 4, core 2 (beta-1,6-N-acetylglucosaminyltransferase)"			10753916	Standard	NM_016591		Approved	C2GNT3	uc003kdn.3	Q9P109	OTTHUMG00000131272	ENST00000322348.4:c.509A>G	5.37:g.74325354T>C	ENSP00000317027:p.Asp170Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000322348.4	37	CCDS4026.1	.	.	.	.	.	.	.	.	.	.	.	8.629	0.893283	0.17613	.	.	ENSG00000176928	ENST00000322348	T	0.10860	2.83	6.17	2.19	0.27852	.	1.026770	0.07657	N	0.932996	T	0.10551	0.0258	L	0.55990	1.75	0.09310	N	1	B	0.26602	0.154	B	0.27380	0.079	T	0.42189	-0.9466	10	0.25751	T	0.34	-3.0761	2.6203	0.04914	0.2341:0.0635:0.2431:0.4593	.	170	Q9P109	GCNT4_HUMAN	G	170	ENSP00000317027:D170G	ENSP00000317027:D170G	D	-	2	0	GCNT4	74361110	0.000000	0.05858	0.001000	0.08648	0.750000	0.42670	0.726000	0.25984	0.511000	0.28236	0.533000	0.62120	GAT		0.388	GCNT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254040.1	NM_016591		C	74325354	T	C	74325354	3	2	672	1	0	0	0	0	1	0	0	0	6310	1435	50	3	856	3	GCNT4	5	74325354	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	37644798	74325354	106589906	41	43243										
RAPGEF6	51735	bcgsc.ca	37	chr5	130788798	130788798	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tagcagaagtcattcgaacaActtggcggatttccttggaa	10	8	1	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr5:130788798A>G	ENST00000509018.1	-	21	3354	c.3149T>C	c.(3148-3150)gTt>gCt	p.V1050A	RAPGEF6_ENST00000308008.6_Missense_Mutation_p.V1050A|CTC-432M15.3_ENST00000514667.1_Missense_Mutation_p.V1100A|RAPGEF6_ENST00000296859.6_Missense_Mutation_p.V1050A|RAPGEF6_ENST00000507093.1_Missense_Mutation_p.V1050A|RAPGEF6_ENST00000512052.1_Missense_Mutation_p.V765A|RAPGEF6_ENST00000307984.5_Missense_Mutation_p.V1055A	NM_001164386.1|NM_016340.5	NP_001157858.1|NP_057424.3	Q8TEU7	RPGF6_HUMAN	Rap guanine nucleotide exchange factor (GEF) 6	1050	Ras-GEF. {ECO:0000255|PROSITE- ProRule:PRU00168}.				positive regulation of GTPase activity (GO:0043547)|Ras protein signal transduction (GO:0007265)|regulation of GTPase activity (GO:0043087)|regulation of small GTPase mediated signal transduction (GO:0051056)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	GTP-dependent protein binding (GO:0030742)|guanyl-nucleotide exchange factor activity (GO:0005085)|Ras GTPase binding (GO:0017016)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(7)|lung(10)|ovary(3)|skin(1)|stomach(1)	31			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		CATTCGAACAACTTGGCGGAT	0.358																																					Melanoma(168;435 1955 13113 13877 23213)											0													107	107	107					5																	130788798		2203	4300	6503	SO:0001583	missense	51735			AF117947	CCDS34225.1, CCDS54897.1, CCDS54898.1, CCDS54899.1, CCDS54900.1	5q31.1	2008-02-05	2004-03-01	2004-03-02	ENSG00000158987	ENSG00000158987			20655	protein-coding gene	gene with protein product		610499	"PDZ domain containing guanine nucleotide exchange factor (GEF) 2"	PDZGEF2		11524421, 12095257	Standard	NM_016340		Approved	RA-GEF-2, PDZ-GEF2	uc010jdi.2	Q8TEU7	OTTHUMG00000162683	ENST00000509018.1:c.3149T>C	5.37:g.130788798A>G	ENSP00000421684:p.Val1050Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A3KN82|A5PLL6|B7ZML2|E9PDV7|Q8NI21|Q8TEU6|Q96PC1	Missense_Mutation	SNP	ENST00000509018.1	37	CCDS34225.1	.	.	.	.	.	.	.	.	.	.	A	24.1	4.494322	0.85069	.	.	ENSG00000158987;ENSG00000158987;ENSG00000158987;ENSG00000158987;ENSG00000158987;ENSG00000158987;ENSG00000158987;ENSG00000217128	ENST00000509018;ENST00000307984;ENST00000507093;ENST00000296859;ENST00000358714;ENST00000512052;ENST00000308008;ENST00000514667	T;T;T;T;T;T;T	0.31769	1.48;1.48;1.48;1.48;1.48;1.48;1.48	4.94	4.94	0.65067	Guanine-nucleotide dissociation stimulator CDC25 (3);Ras guanine nucleotide exchange factor, domain (1);	0.118660	0.56097	D	0.000032	T	0.42359	0.1199	M	0.62088	1.915	0.80722	D	1	P;B;P;B;P;P;B	0.48089	0.788;0.03;0.855;0.357;0.905;0.865;0.392	B;B;P;B;B;P;B	0.49561	0.289;0.038;0.615;0.142;0.405;0.61;0.201	T	0.44742	-0.9308	10	0.87932	D	0	.	14.8925	0.70620	1.0:0.0:0.0:0.0	.	1050;1050;1050;765;1100;1055;1050	A3KN82;B7ZML2;Q8TEU7-2;D6RE77;E9PCH4;Q8TEU7-3;Q8TEU7	.;.;.;.;.;.;RPGF6_HUMAN	A	1050;1055;1050;1050;1055;765;1050;1100	ENSP00000421684:V1050A;ENSP00000309298:V1055A;ENSP00000426081:V1050A;ENSP00000296859:V1050A;ENSP00000426910:V765A;ENSP00000311419:V1050A;ENSP00000426948:V1100A	ENSP00000426948:V1100A	V	-	2	0	RAPGEF6;FNIP1	130816697	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.335000	0.96500	1.991000	0.58162	0.383000	0.25322	GTT		0.358	RAPGEF6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000370059.1	NM_016340		G	130788798	A	G	130788798	3	3	672	1	0	0	0	0	1	0	0	0	13061	43	2	3	2151	3	RAPGEF6	5	130788798	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	56463444	130788798	50126462	42	43244										
FNIP1	96459	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	131008278	131008278	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gtgaaatgttctctacatttTgcccaaggagtggatgactg	11	7	1	2			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr5:131008278T>A	ENST00000510461.1	-	14	1954	c.1859A>T	c.(1858-1860)cAa>cTa	p.Q620L	CTC-432M15.3_ENST00000514667.1_Intron|FNIP1_ENST00000307954.8_Missense_Mutation_p.Q575L|FNIP1_ENST00000307968.7_Missense_Mutation_p.Q592L	NM_133372.2	NP_588613	Q8TF40	FNIP1_HUMAN	folliculin interacting protein 1	620					cellular response to starvation (GO:0009267)|immature B cell differentiation (GO:0002327)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of TOR signaling (GO:0032007)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of B cell apoptotic process (GO:0002904)|positive regulation of GTPase activity (GO:0043547)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of protein phosphorylation (GO:0001934)|regulation of pro-B cell differentiation (GO:2000973)|regulation of protein phosphorylation (GO:0001932)|TOR signaling (GO:0031929)	cytoplasm (GO:0005737)	guanyl-nucleotide exchange factor activity (GO:0005085)			NS(1)|breast(1)|endometrium(5)|kidney(3)|large_intestine(4)|lung(11)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	34		all_cancers(142;0.00347)|Lung NSC(810;0.106)|all_lung(232;0.123)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0665)		CTCTACATTTTGCCCAAGGAG	0.373																																																0													128	132	130					5																	131008278		2203	4300	6503	SO:0001583	missense	96459			DQ145719	CCDS34226.1, CCDS34227.1	5q23.3	2014-01-28				ENSG00000217128			29418	protein-coding gene	gene with protein product		610594				11853319, 17028174	Standard	NM_001008738		Approved	KIAA1961		Q8TF40		ENST00000510461.1:c.1859A>T	5.37:g.131008278T>A	ENSP00000421985:p.Gln620Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D6RJH5|Q86T47|Q9BUT0	Missense_Mutation	SNP	ENST00000510461.1	37	CCDS34227.1	.	.	.	.	.	.	.	.	.	.	T	12.59	1.983243	0.35036	.	.	ENSG00000217128	ENST00000307968;ENST00000307954;ENST00000544351;ENST00000510461	T;T;T	0.14144	2.53;2.53;2.53	5.97	4.75	0.60458	.	.	.	.	.	T	0.11665	0.0284	L	0.34521	1.04	0.80722	D	1	B;P;B	0.38504	0.277;0.634;0.022	B;B;B	0.35971	0.206;0.215;0.014	T	0.06716	-1.0811	9	0.49607	T	0.09	-1.3887	12.9473	0.58379	0.0:0.0:0.1349:0.8651	.	620;592;620	A8K8V8;Q8TF40-3;Q8TF40	.;.;FNIP1_HUMAN	L	592;575;372;620	ENSP00000309266:Q592L;ENSP00000310453:Q575L;ENSP00000421985:Q620L	ENSP00000310453:Q575L	Q	-	2	0	FNIP1	131036177	1.000000	0.71417	1.000000	0.80357	0.881000	0.50899	2.247000	0.43151	2.288000	0.76882	0.533000	0.62120	CAA		0.373	FNIP1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370077.1	NM_133372		A	131008278	T	A	131008278	3	1	672	1	0	0	0	0	1	0	0	0	5982	1812	63	5	1661	5	FNIP1	5	131008278	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	219480	131008278	49906982	43	43245										
RNF145	153830	bcgsc.ca	37	chr5	158630640	158630640	+	5'UTR	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	agccatgttgttttttttttTctttttttttttcttggaga	6	4	2	1	rs368977591		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr5:158630640T>C	ENST00000424310.2	-	0	345				RNF145_ENST00000520638.1_Missense_Mutation_p.K10E|RNF145_ENST00000521606.2_Missense_Mutation_p.K13E|RNF145_ENST00000519865.1_5'UTR|RNF145_ENST00000274542.2_Missense_Mutation_p.K24E|RNF145_ENST00000518802.1_Missense_Mutation_p.K26E	NM_001199383.1	NP_001186312.1	Q96MT1	RN145_HUMAN	ring finger protein 145							integral component of membrane (GO:0016021)	zinc ion binding (GO:0008270)			endometrium(7)|kidney(2)|large_intestine(5)|lung(9)|ovary(3)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	30	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			tttttttttttcttttttttt	0.368																																																0													33	36	35					5																	158630640		2203	4300	6503	SO:0001623	5_prime_UTR_variant	153830			BC042684	CCDS4344.1, CCDS56390.1, CCDS56391.1, CCDS56392.1, CCDS56393.1	5q33.3	2013-01-09			ENSG00000145860	ENSG00000145860		"RING-type (C3HC4) zinc fingers"	20853	protein-coding gene	gene with protein product							Standard	NM_001199380		Approved	FLJ31951	uc003lxo.2	Q96MT1	OTTHUMG00000130306	ENST00000424310.2:c.-15A>G	5.37:g.158630640T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z903|B7Z949|E7EVI7|Q8IVP7	Missense_Mutation	SNP	ENST00000424310.2	37	CCDS56390.1	.	.	.	.	.	.	.	.	.	.	T	0.006	-2.071233	0.00379	.	.	ENSG00000145860	ENST00000274542;ENST00000521606;ENST00000413445;ENST00000518802;ENST00000520638	T;T;T;T;T	0.77489	-1.09;-1.07;-1.07;-1.1;-1.06	1.66	0.33	0.15929	.	4.233800	0.00610	N	0.000418	T	0.52581	0.1743	N	0.08118	0	0.09310	N	0.999996	P;P;P;P;P	0.42584	0.784;0.544;0.544;0.544;0.673	B;B;B;B;B	0.28638	0.092;0.032;0.032;0.032;0.071	T	0.53711	-0.8400	10	0.41790	T	0.15	18.6048	3.7362	0.08511	0.0:0.2254:0.0:0.7746	.	12;13;10;26;24	E7EW26;B7Z949;B7Z903;E7EVI7;Q96MT1-2	.;.;.;.;.	E	24;12;13;26;10	ENSP00000274542:K24E;ENSP00000430753:K12E;ENSP00000445115:K13E;ENSP00000430955:K26E;ENSP00000429071:K10E	ENSP00000274542:K24E	K	-	1	0	RNF145	158563218	0.030000	0.19436	0.002000	0.10522	0.002000	0.02628	0.517000	0.22832	-0.074000	0.12820	-1.322000	0.01289	AAA		0.368	RNF145-002	PUTATIVE	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374048.1	NM_144726		C	158630640	T	C	158630640	1	2	672	0	1	0	0	0	0	0	0	0	13460	1792	62	3		3	RNF145	5	158630640	5'UTR	SNP	T	TCGA-KN-8436-01A-11D-2310-10	27622362	158630640	22284620	44	43246										
HLA-B	3106	mdanderson.org	37	chr6	31323116	31323116	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	catctcagggtgaggggcttCggcagcccctcatgctgtac	13	13	2	1	rs1131446	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr6:31323116C>T	ENST00000412585.2	-	4	901	c.873G>A	c.(871-873)ccG>ccA	p.P291P		NM_005514.6	NP_005505.2	P30486	1B48_HUMAN	major histocompatibility complex, class I, B	291	Alpha-3.|Ig-like C1-type.				antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|immune response (GO:0006955)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|viral process (GO:0016032)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|MHC class I protein complex (GO:0042612)	peptide antigen binding (GO:0042605)			endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(4)|lung(4)|prostate(1)|upper_aerodigestive_tract(2)	27						TGAGGGGCTTCGGCAGCCCCT	0.577									Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of				C|||	485	0.096845	0.0749	0.0922	5008	,	,		21693	0.0754		0.1074	False		,,,				2504	0.1411															0													60	57	58					6																	31323116		2203	4300	6503	SO:0001819	synonymous_variant	3106	Familial Cancer Database	;Lichen Sclerosis, Familial	M15470	CCDS34394.1	6p21.3	2013-01-11			ENSG00000234745	ENSG00000234745		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4932	protein-coding gene	gene with protein product		142830	"ankylosing spondylitis"	AS		3459708	Standard	NM_005514		Approved		uc011imz.2	P01889	OTTHUMG00000031153	ENST00000412585.2:c.873G>A	6.37:g.31323116C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q29764	Silent	SNP	ENST00000412585.2	37	CCDS34394.1																																																																																				0.577	HLA-B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076280.4	NM_005514		T	31323116	C	T	31323116	2	4	672	1	0	0	0	0	0	0	0	1	7203	871	31	1		1	HLA-B	6	31323116	Silent	SNP	C	TCGA-KN-8436-01A-11D-2310-10		31323116	139791951	45	43247										
HLA-DRB5	3127	mdanderson.org	37	chr6	32487169	32487169	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cattccactgtgagagggctCgtcacgcttgggtgctccac	12	13	1	1	rs143127183	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr6:32487169C>T	ENST00000374975.3	-	3	692	c.630G>A	c.(628-630)acG>acA	p.T210T		NM_002125.3	NP_002116.2			major histocompatibility complex, class II, DR beta 5											NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|pancreas(1)|prostate(1)|stomach(2)	10						TGAGAGGGCTCGTCACGCTTG	0.493													C|||	233	0.0465256	0.059	0.0389	5008	,	,		12789	0.0685		0.0368	False		,,,				2504	0.0225															0													73	83	80					6																	32487169		1886	3734	5620	SO:0001819	synonymous_variant	3127				CCDS4751.1	6p21.3	2013-01-11			ENSG00000198502	ENSG00000198502		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4953	protein-coding gene	gene with protein product		604776					Standard	NM_002125		Approved		uc003obj.3	Q30154	OTTHUMG00000031027	ENST00000374975.3:c.630G>A	6.37:g.32487169C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000374975.3	37	CCDS4751.1																																																																																				0.493	HLA-DRB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076022.2	NM_002125		T	32487169	C	T	32487169	2	4	672	1	0	0	0	0	0	0	0	1	7216	871	31	1		1	HLA-DRB5	6	32487169	Silent	SNP	C	TCGA-KN-8436-01A-11D-2310-10	1164053	32487169	138627898	46	43248			1	114		5	4	2685	N	T_C_A	2.309802e-07
HLA-DRB5	3127	mdanderson.org	37	chr6	32487214	32487214	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	caggtgtaaacctctccactTcgaggaactgtttccagcat	8	12	1	0	rs557324709|rs144016913|rs41544512	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr6:32487214T>C	ENST00000374975.3	-	3	647	c.585A>G	c.(583-585)cgA>cgG	p.R195R		NM_002125.3	NP_002116.2			major histocompatibility complex, class II, DR beta 5											NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|pancreas(1)|prostate(1)|stomach(2)	10						CCTCTCCACTTCGAGGAACTG	0.532													t|||	3842	0.767173	0.795	0.8847	5008	,	,		12516	0.7242		0.8171	False		,,,				2504	0.6391															0								C		2567,1093		1247,73,510	57	63	61		585	1.8	0.2	6	dbSNP_134	61	5042,2194		2446,150,1022	no	coding-synonymous	HLA-DRB5	NM_002125.3		3693,223,1532	CC,CT,TT		30.3206,29.8634,30.167		195/267	32487214	7609,3287	1830	3618	5448	SO:0001819	synonymous_variant	3127				CCDS4751.1	6p21.3	2013-01-11			ENSG00000198502	ENSG00000198502		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4953	protein-coding gene	gene with protein product		604776					Standard	NM_002125		Approved		uc003obj.3	Q30154	OTTHUMG00000031027	ENST00000374975.3:c.585A>G	6.37:g.32487214T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000374975.3	37	CCDS4751.1																																																																																				0.532	HLA-DRB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076022.2	NM_002125		C	32487214	T	C	32487214	2	2	672	1	0	0	0	0	0	0	0	1	7216	1770	62	3		3	HLA-DRB5	6	32487214	Silent	SNP	T	TCGA-KN-8436-01A-11D-2310-10	45	32487214	138627853	47	43249			1	114		5	4	2685	N	T_C_A	2.309802e-07
HLA-DRB5	3127	mdanderson.org	37	chr6	32487265	32487265	+	Missense_Mutation	SNP	C	C	G													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tggaaggtccagtctccattCtgaatcaggcctgtggacac					rs139485758	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr6:32487265C>G	ENST00000374975.3	-	3	596	c.534G>C	c.(532-534)caG>caC	p.Q178H		NM_002125.3	NP_002116.2			major histocompatibility complex, class II, DR beta 5									p.Q178H(1)		NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|pancreas(1)|prostate(1)|stomach(2)	10						AGTCTCCATTCTGAATCAGGC	0.552													C|||	836	0.166933	0.2224	0.1326	5008	,	,		15097	0.1667		0.1531	False		,,,				2504	0.1309															1	Substitution - Missense(1)	NS(1)											61	68	65					6																	32487265		1933	3889	5822	SO:0001583	missense	3127				CCDS4751.1	6p21.3	2013-01-11			ENSG00000198502	ENSG00000198502		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4953	protein-coding gene	gene with protein product		604776					Standard	NM_002125		Approved		uc003obj.3	Q30154	OTTHUMG00000031027	ENST00000374975.3:c.534G>C	6.37:g.32487265C>G	ENSP00000364114:p.Gln178His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000374975.3	37	CCDS4751.1	.	.	.	.	.	.	.	.	.	.	.	2.451	-0.326294	0.05350	.	.	ENSG00000198502	ENST00000374975	T	0.14391	2.51	4.6	-9.19	0.00685	Immunoglobulin-like (1);Immunoglobulin C1-set (2);Immunoglobulin-like fold (1);	1.115120	0.06656	N	0.763651	T	0.02193	0.0068	L	0.35487	1.065	0.80722	P	0.0	B;B	0.19445	0.036;0.003	B;B	0.33690	0.168;0.014	T	0.35871	-0.9771	9	0.35671	T	0.21	.	1.7649	0.03000	0.2235:0.402:0.1926:0.1818	.	105;178	Q29973;Q30154	.;DRB5_HUMAN	H	178	ENSP00000364114:Q178H	ENSP00000364114:Q178H	Q	-	3	2	HLA-DRB5	32595243	0.000000	0.05858	0.000000	0.03702	0.495000	0.33615	-4.437000	0.00234	-3.808000	0.00104	-0.273000	0.10243	CAG		0.552	HLA-DRB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076022.2	NM_002125		G	32487265	C	G	32487265	3	3	672	1	0	0	0	0	1	0	0	0	7216	912	32	4	282	4	HLA-DRB5	6	32487265	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	51	32487265	138627802	48	43250	427	2	1	114		5	4	2685	N	T_C_A	2.309802e-07
HLA-DRB5	3127	mdanderson.org	37	chr6	32487268	32487268	+	Silent	SNP	A	A	G													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	aaggtccagtctccattctgAatcaggcctgtggacaccac					rs75732937	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr6:32487268A>G	ENST00000374975.3	-	3	593	c.531T>C	c.(529-531)atT>atC	p.I177I		NM_002125.3	NP_002116.2			major histocompatibility complex, class II, DR beta 5											NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|pancreas(1)|prostate(1)|stomach(2)	10						CTCCATTCTGAATCAGGCCTG	0.547													a|||	1034	0.20647	0.2784	0.1513	5008	,	,		14313	0.2331		0.162	False		,,,				2504	0.1667															0								G		2642,1214		1289,64,575	61	67	65		531	1.6	0.4	6	dbSNP_131	65	5362,2452		2595,172,1140	no	coding-synonymous	HLA-DRB5	NM_002125.3		3884,236,1715	GG,GA,AA		31.3796,31.4834,31.4139		177/267	32487268	8004,3666	1928	3907	5835	SO:0001819	synonymous_variant	3127				CCDS4751.1	6p21.3	2013-01-11			ENSG00000198502	ENSG00000198502		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4953	protein-coding gene	gene with protein product		604776					Standard	NM_002125		Approved		uc003obj.3	Q30154	OTTHUMG00000031027	ENST00000374975.3:c.531T>C	6.37:g.32487268A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000374975.3	37	CCDS4751.1																																																																																				0.547	HLA-DRB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076022.2	NM_002125		G	32487268	A	G	32487268	2	3	672	1	0	0	0	0	0	0	0	1	7216	242	9	3		3	HLA-DRB5	6	32487268	Silent	SNP	A	TCGA-KN-8436-01A-11D-2310-10	3	32487268	138627799	49	43251	427	2	1	114		5	4	2685	N	T_C_A	2.309802e-07
HLA-DRB5	3127	bcgsc.ca	37	chr6	32489853	32489853	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cacgtcgctgtcgaagcgcaAgtcctcctcttggttataga	10	12	1	1	rs78961241	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr6:32489853A>C	ENST00000374975.3	-	2	261	c.199T>G	c.(199-201)Ttg>Gtg	p.L67V		NM_002125.3	NP_002116.2			major histocompatibility complex, class II, DR beta 5											NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|pancreas(1)|prostate(1)|stomach(2)	10						TCGAAGCGCAAGTCCTCCTCT	0.577																																																0								C	VAL/LEU	2586,1204		1234,118,543	36	33	34		199	1.9	0	6	dbSNP_131	34	4829,2467		2224,381,1043	yes	missense	HLA-DRB5	NM_002125.3	32	3458,499,1586	CC,CA,AA		33.813,31.7678,33.1138	benign	67/267	32489853	7415,3671	1895	3648	5543	SO:0001583	missense	3127				CCDS4751.1	6p21.3	2013-01-11			ENSG00000198502	ENSG00000198502		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4953	protein-coding gene	gene with protein product		604776					Standard	NM_002125		Approved		uc003obj.3	Q30154	OTTHUMG00000031027	ENST00000374975.3:c.199T>G	6.37:g.32489853A>C	ENSP00000364114:p.Leu67Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000374975.3	37	CCDS4751.1	1631	0.7467948717948718	319	0.6483739837398373	310	0.856353591160221	456	0.7972027972027972	546	0.7203166226912929	.	0.616	-0.823178	0.02755	0.682322	0.66187	ENSG00000198502	ENST00000374975	T	0.00291	8.27	4.81	1.93	0.25924	MHC class II, alpha/beta chain, N-terminal (1);MHC class II, beta chain, N-terminal (2);MHC classes I/II-like antigen recognition protein (1);	1.770390	0.03508	N	0.219068	T	0.00012	0.0000	N	0.01096	-1.015	0.80722	P	0.0	B	0.02656	0.0	B	0.04013	0.001	T	0.10520	-1.0626	9	0.02654	T	1	.	4.8505	0.13535	0.1413:0.505:0.2738:0.08	rs1059580;rs1064668;rs2308797;rs3200314;rs3205648	67	Q30154	DRB5_HUMAN	V	67	ENSP00000364114:L67V	ENSP00000364114:L67V	L	-	1	2	HLA-DRB5	32597831	0.000000	0.05858	0.000000	0.03702	0.077000	0.17291	-1.699000	0.01906	-0.141000	0.11374	-0.464000	0.05259	TTG		0.577	HLA-DRB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076022.2	NM_002125		C	32489853	A	C	32489853	3	2	672	1	0	0	0	0	1	0	0	0	7216	69	3	5	621	5	HLA-DRB5	6	32489853	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	2585	32489853	138625214	50	43252			1	114		5	4	2685	N	T_C_A	2.309802e-07
HLA-DRB1	3123	bcgsc.ca	37	chr6	32551999	32551999	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ggctgttccagtactcagcgTcaggccgccccagctccgtc	11	17	2	0	rs17885129	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr6:32551999T>C	ENST00000360004.5	-	2	362	c.257A>G	c.(256-258)gAc>gGc	p.D86G		NM_002124.3	NP_002115.2	Q30167	2B1A_HUMAN	major histocompatibility complex, class II, DR beta 1	86	Beta-1.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|late endosome membrane (GO:0031902)|lysosomal membrane (GO:0005765)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)				large_intestine(3)|lung(2)|ovary(1)|prostate(1)|skin(2)|stomach(1)	10						GTACTCAGCGTCAGGCCGCCC	0.627										Multiple Myeloma(14;0.17)																																						0													38	41	40					6																	32551999		2192	4284	6476	SO:0001583	missense	3123			AJ297583	CCDS47409.1	6p21.3	2013-01-11			ENSG00000196126	ENSG00000196126		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4948	protein-coding gene	gene with protein product		142857		HLA-DR1B			Standard	NM_001243965		Approved		uc011eri.2	P01911	OTTHUMG00000031196	ENST00000360004.5:c.257A>G	6.37:g.32551999T>C	ENSP00000353099:p.Asp86Gly	Somatic		WXS	Illumina HiSeq	Phase_I	P01914|Q9MYF5	Missense_Mutation	SNP	ENST00000360004.5	37	CCDS47409.1	.	.	.	.	.	.	.	.	.	.	.	11.82	1.752417	0.31046	.	.	ENSG00000196126	ENST00000360004	T	0.00269	8.37	3.52	-7.04	0.01578	MHC class II, alpha/beta chain, N-terminal (1);MHC class II, beta chain, N-terminal (3);MHC classes I/II-like antigen recognition protein (1);	11.458300	0.00979	N	0.003354	T	0.00109	0.0003	M	0.93763	3.455	0.09310	N	1	B	0.19935	0.04	B	0.31245	0.126	T	0.41106	-0.9527	10	0.72032	D	0.01	.	2.7835	0.05367	0.4374:0.0858:0.3314:0.1454	rs17885129;rs28724093;rs34095932	86	P01911	2B1F_HUMAN	G	86	ENSP00000353099:D86G	ENSP00000353099:D86G	D	-	2	0	HLA-DRB1	32659977	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-4.520000	0.00221	-1.648000	0.01510	-0.554000	0.04202	GAC		0.627	HLA-DRB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076393.3	NM_002124		C	32551999	T	C	32551999	3	2	672	1	0	0	0	0	1	0	0	0	7215	1667	58	3	563	3	HLA-DRB1	6	32551999	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	62146	32551999	138563068	51	43253										
HLA-DRB1	3123	mdanderson.org	37	chr6	32552123	32552123	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ctccgtcccattgaagaaatGacactccctcttaggctgcc	7	15	1	3	rs17879702	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr6:32552123G>A	ENST00000360004.5	-	2	238	c.133C>T	c.(133-135)Cat>Tat	p.H45Y		NM_002124.3	NP_002115.2	Q30167	2B1A_HUMAN	major histocompatibility complex, class II, DR beta 1	45	Beta-1.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|late endosome membrane (GO:0031902)|lysosomal membrane (GO:0005765)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)				large_intestine(3)|lung(2)|ovary(1)|prostate(1)|skin(2)|stomach(1)	10						TTGAAGAAATGACACTCCCTC	0.607										Multiple Myeloma(14;0.17)			G|||	483	0.0964457	0.0877	0.0893	5008	,	,		6110	0.1518		0.0666	False		,,,				2504	0.0869															0								G	TYR/HIS	269,3975		10,249,1863	17	17	17		133	0.5	0.9	6	dbSNP_124	17	223,8099		6,211,3944	yes	missense	HLA-DRB1	NM_002124.3	83	16,460,5807	AA,AG,GG		2.6796,6.3384,3.9153		45/267	32552123	492,12074	2122	4161	6283	SO:0001583	missense	3123			AJ297583	CCDS47409.1	6p21.3	2013-01-11			ENSG00000196126	ENSG00000196126		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4948	protein-coding gene	gene with protein product		142857		HLA-DR1B			Standard	NM_001243965		Approved		uc011eri.2	P01911	OTTHUMG00000031196	ENST00000360004.5:c.133C>T	6.37:g.32552123G>A	ENSP00000353099:p.His45Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	P01914|Q9MYF5	Missense_Mutation	SNP	ENST00000360004.5	37	CCDS47409.1	229	0.10485347985347986	47	0.09552845528455285	36	0.09944751381215469	90	0.15734265734265734	56	0.07387862796833773	.	10.85	1.465736	0.26335	0.063384	0.026796	ENSG00000196126	ENST00000360004	T	0.00305	8.18	3.52	0.466	0.16716	MHC class II, alpha/beta chain, N-terminal (1);MHC class II, beta chain, N-terminal (2);MHC classes I/II-like antigen recognition protein (1);	0.903373	0.09722	N	0.764256	T	0.00178	0.0005	L	0.45698	1.435	0.38322	P	0.05645	D	0.89917	1.0	D	0.91635	0.999	T	0.48198	-0.9056	9	0.56958	D	0.05	.	3.2704	0.06879	0.3419:0.2092:0.4489:0.0	rs17879702	45	P01911	2B1F_HUMAN	Y	45	ENSP00000353099:H45Y	ENSP00000353099:H45Y	H	-	1	0	HLA-DRB1	32660101	0.055000	0.20627	0.860000	0.33809	0.020000	0.10135	-0.022000	0.12480	0.246000	0.21394	0.453000	0.30009	CAT		0.607	HLA-DRB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076393.3	NM_002124		A	32552123	G	A	32552123	3	1	672	1	0	0	0	0	1	0	0	0	7215	1290	45	2	687	2	HLA-DRB1	6	32552123	Missense_Mutation	SNP	G	TCGA-KN-8436-01A-11D-2310-10	124	32552123	138562944	52	43254										
HLA-DQA1	3117	bcgsc.ca	37	chr6	32609299	32609299	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	caaaacacaacttgaacatcAtgattaaacgctacaactct	3	11	2	2	rs199556640|rs371894400|rs1064944	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr6:32609299A>C	ENST00000343139.5	+	2	397	c.295A>C	c.(295-297)Atg>Ctg	p.M99L	HLA-DQA1_ENST00000374949.2_Missense_Mutation_p.M99L|HLA-DQA1_ENST00000395363.1_Missense_Mutation_p.M99L	NM_002122.3	NP_002113.2	P01909	DQA1_HUMAN	major histocompatibility complex, class II, DQ alpha 1	98	Alpha-1.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|immune response (GO:0006955)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|endosome (GO:0005768)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)	MHC class II receptor activity (GO:0032395)|peptide antigen binding (GO:0042605)			NS(1)|lung(3)|skin(1)|upper_aerodigestive_tract(1)	6						CTTGAACATCATGATTAAACG	0.478																																																0								C	LEU/MET	392,3666		82,228,1719	95	82	86		295	-7.9	0	6	dbSNP_86	86	635,6861		87,461,3200	yes	missense	HLA-DQA1	NM_002122.3	15	169,689,4919	CC,CA,AA		8.4712,9.6599,8.8887	benign	99/256	32609299	1027,10527	2029	3748	5777	SO:0001583	missense	3117				CCDS4752.1	6p21.3	2013-01-11			ENSG00000196735	ENSG00000196735		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4942	protein-coding gene	gene with protein product		146880		HLA-DQA			Standard	NM_002122		Approved	CELIAC1	uc003obr.3	P01909	OTTHUMG00000031106	ENST00000343139.5:c.295A>C	6.37:g.32609299A>C	ENSP00000339398:p.Met99Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O19630|O19706|P01907|P01908|P04225|P04226|P05536|P79553|Q06751|Q29876|Q29994|Q2Q6Y6|Q2Q6Y7|Q2Q6Y8|Q2WCM3|Q30064|Q30067|Q30068|Q30070|Q30071|Q30072|Q30073|Q30086|Q30101|Q5Y7D5|Q5Y7F5|Q6ICU6|Q6PR46|Q6QDB1|Q860W2|Q860W4|Q9BD37|Q9TPM3|Q9UM31	Missense_Mutation	SNP	ENST00000343139.5	37	CCDS4752.1	.	.	.	.	.	.	.	.	.	.	.	0	-2.630061	0.00115	0.096599	0.084712	ENSG00000196735	ENST00000343139;ENST00000395364;ENST00000395363;ENST00000496318;ENST00000374949	T;T;T;T	0.00628	6.11;6.11;6.11;6.11	3.97	-7.95	0.01148	.	1.376450	0.04709	N	0.417235	T	0.00039	0.0001	N	0.01352	-0.895	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.0	T	0.42292	-0.9460	10	0.02654	T	1	.	0.8881	0.01249	0.3982:0.2011:0.1237:0.2771	rs1064944;rs1064945;rs1142336;rs3188083;rs3205995;rs12722087;rs17405576;rs17415903;rs28383452	105;99	Q59F33;G4XQK2	.;.	L	99	ENSP00000339398:M99L;ENSP00000378767:M99L;ENSP00000437302:M99L;ENSP00000364087:M99L	ENSP00000339398:M99L	M	+	1	0	HLA-DQA1	32717277	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-13.284000	0.00001	-6.444000	0.00004	-0.922000	0.02736	ATG		0.478	HLA-DQA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076176.3	NM_002122		C	32609299	A	C	32609299	3	2	672	1	0	0	0	0	1	0	0	0	7211	217	8	5	301	5	HLA-DQA1	6	32609299	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	57176	32609299	138505768	53	43255			2	115	119446	2	2	14	A		5.417096e-05
HLA-DQA1	3117	bcgsc.ca	37	chr6	32609312	32609312	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gaacatcatgattaaacgctAcaactctaccgctgctacca	5	13	2	1	rs1129808	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr6:32609312A>C	ENST00000343139.5	+	2	410	c.308A>C	c.(307-309)tAc>tCc	p.Y103S	HLA-DQA1_ENST00000374949.2_Missense_Mutation_p.Y103S|HLA-DQA1_ENST00000395363.1_Missense_Mutation_p.Y103S	NM_002122.3	NP_002113.2	P01909	DQA1_HUMAN	major histocompatibility complex, class II, DQ alpha 1	102	Alpha-1.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|immune response (GO:0006955)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|endosome (GO:0005768)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)	MHC class II receptor activity (GO:0032395)|peptide antigen binding (GO:0042605)			NS(1)|lung(3)|skin(1)|upper_aerodigestive_tract(1)	6						ATTAAACGCTACAACTCTACC	0.468													.|||	2180	0.435304	0.3873	0.6153	5008	,	,		11385	0.4147		0.501	False		,,,				2504	0.3262															0								C	SER/TYR	808,3428		291,226,1601	83	69	74		308	3.1	0.2	6	dbSNP_86	74	1870,6184		638,594,2795	yes	missense	HLA-DQA1	NM_002122.3	144	929,820,4396	CC,CA,AA		23.2183,19.0746,21.7901	benign	103/256	32609312	2678,9612	2118	4027	6145	SO:0001583	missense	3117				CCDS4752.1	6p21.3	2013-01-11			ENSG00000196735	ENSG00000196735		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4942	protein-coding gene	gene with protein product		146880		HLA-DQA			Standard	NM_002122		Approved	CELIAC1	uc003obr.3	P01909	OTTHUMG00000031106	ENST00000343139.5:c.308A>C	6.37:g.32609312A>C	ENSP00000339398:p.Tyr103Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O19630|O19706|P01907|P01908|P04225|P04226|P05536|P79553|Q06751|Q29876|Q29994|Q2Q6Y6|Q2Q6Y7|Q2Q6Y8|Q2WCM3|Q30064|Q30067|Q30068|Q30070|Q30071|Q30072|Q30073|Q30086|Q30101|Q5Y7D5|Q5Y7F5|Q6ICU6|Q6PR46|Q6QDB1|Q860W2|Q860W4|Q9BD37|Q9TPM3|Q9UM31	Missense_Mutation	SNP	ENST00000343139.5	37	CCDS4752.1	998|998	0.45695970695970695|0.45695970695970695	166|166	0.33739837398373984|0.33739837398373984	207|207	0.5718232044198895|0.5718232044198895	275|275	0.4807692307692308|0.4807692307692308	350|350	0.46174142480211083|0.46174142480211083	.|.	0.041|0.041	-1.285527|-1.285527	0.01387|0.01387	0.190746|0.190746	0.232183|0.232183	ENSG00000196735|ENSG00000196735	ENST00000486548|ENST00000343139;ENST00000395364;ENST00000395363;ENST00000496318;ENST00000374949	.|T;T;T;T	.|0.00644	.|6.01;6.01;6.01;6.01	3.97|3.97	3.11|3.11	0.35812|0.35812	.|.	.|0.418357	.|0.24189	.|N	.|0.040724	T|T	0.00073|0.00073	0.0002|0.0002	N|N	0.00092|0.00092	-2.175|-2.175	0.35002|0.35002	P|P	0.24390500000000004|0.24390500000000004	.|B;B	.|0.15141	.|0.012;0.0	.|B;B	.|0.22880	.|0.042;0.003	T|T	0.13255|0.13255	-1.0516|-1.0516	4|9	.|0.02654	.|T	.|1	.|.	12.6013|12.6013	0.56499|0.56499	0.1821:0.8179:0.0:0.0|0.1821:0.8179:0.0:0.0	rs1129808;rs1142337;rs3188091;rs3205997;rs9272711;rs12722088;rs17415910;rs36218703|rs1129808;rs1142337;rs3188091;rs3205997;rs9272711;rs12722088;rs17415910;rs36218703	.|109;103	.|Q59F33;G4XQK2	.|.;.	P|S	76|103	.|ENSP00000339398:Y103S;ENSP00000378767:Y103S;ENSP00000437302:Y103S;ENSP00000364087:Y103S	.|ENSP00000339398:Y103S	T|Y	+|+	1|2	0|0	HLA-DQA1|HLA-DQA1	32717290|32717290	0.051000|0.051000	0.20477|0.20477	0.243000|0.243000	0.24186|0.24186	0.024000|0.024000	0.10985|0.10985	-0.092000|-0.092000	0.11129|0.11129	0.478000|0.478000	0.27488|0.27488	-0.922000|-0.922000	0.02736|0.02736	ACA|TAC		0.468	HLA-DQA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076176.3	NM_002122		C	32609312	A	C	32609312	3	2	672	1	0	0	0	0	1	0	0	0	7211	391	14	5	314	5	HLA-DQA1	6	32609312	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	13	32609312	138505755	54	43256			2	115	119446	2	2	14	A		5.417096e-05
PEX6	5190	ucsc.edu	37	chr6	42933101	42933101	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gctcggcaaggagctgagacAccaccctggagagaagggag	16	10	0	2			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr6:42933101A>G	ENST00000304611.8	-	14	2546	c.2477T>C	c.(2476-2478)gTg>gCg	p.V826A	PEX6_ENST00000244546.4_3'UTR	NM_000287.3	NP_000278.3	Q13608	PEX6_HUMAN	peroxisomal biogenesis factor 6	826					ATP catabolic process (GO:0006200)|peroxisome organization (GO:0007031)|protein import into peroxisome matrix, translocation (GO:0016561)|protein stabilization (GO:0050821)|protein targeting to peroxisome (GO:0006625)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled (GO:0042623)|protein C-terminus binding (GO:0008022)|protein complex binding (GO:0032403)			NS(1)|breast(1)|endometrium(2)|large_intestine(2)|lung(5)|ovary(1)|prostate(3)	15			all cancers(41;0.00235)|Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.0562)			GAGCTGAGACACCACCCTGGA	0.577																																																0													94	80	85					6																	42933101		2203	4300	6503	SO:0001583	missense	5190			U56602	CCDS4877.1	6p22-p11	2010-04-21			ENSG00000124587	ENSG00000124587		"ATPases / AAA-type"	8859	protein-coding gene	gene with protein product		601498				8670792	Standard	NM_000287		Approved	PXAAA1, PAF-2	uc003otf.3	Q13608	OTTHUMG00000014713	ENST00000304611.8:c.2477T>C	6.37:g.42933101A>G	ENSP00000303511:p.Val826Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T8W1|Q8WYQ0|Q8WYQ1|Q8WYQ2|Q99476	Missense_Mutation	SNP	ENST00000304611.8	37	CCDS4877.1	.	.	.	.	.	.	.	.	.	.	A	26.2	4.710784	0.89112	.	.	ENSG00000124587	ENST00000304611	D	0.93763	-3.28	5.84	5.84	0.93424	ATPase, AAA-type, core (1);ATPase, AAA+ type, core (1);	0.000000	0.85682	D	0.000000	D	0.95351	0.8491	M	0.64997	1.995	0.80722	D	1	D	0.76494	0.999	D	0.79784	0.993	D	0.95948	0.8952	10	0.72032	D	0.01	-20.2207	15.9056	0.79427	1.0:0.0:0.0:0.0	.	826	Q13608	PEX6_HUMAN	A	826	ENSP00000303511:V826A	ENSP00000303511:V826A	V	-	2	0	PEX6	43041079	1.000000	0.71417	1.000000	0.80357	0.903000	0.53119	9.090000	0.94144	2.233000	0.73108	0.454000	0.30748	GTG		0.577	PEX6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040569.1	NM_000287		G	42933101	A	G	42933101	3	3	672	1	0	0	0	0	1	0	0	0	11757	159	6	3	481	3	PEX6	6	42933101	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	10323789	42933101	128181966	55	43257										
CAPN11	11131	ucsc.edu	37	chr6	44140054	44140054	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tccaggggactgctggctgcTggctgccatcggctccctta	13	14	0	0	rs397947482|rs57288791|rs111320370	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr6:44140054T>C	ENST00000398776.1	+	5	463	c.425T>C	c.(424-426)cTg>cCg	p.L142P	CAPN11_ENST00000542245.1_Missense_Mutation_p.L142P	NM_007058.3	NP_008989.2	Q9UMQ6	CAN11_HUMAN	calpain 11	142	Calpain catalytic. {ECO:0000255|PROSITE- ProRule:PRU00239}.				proteolysis (GO:0006508)	acrosomal vesicle (GO:0001669)|cytoplasm (GO:0005737)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)|peptidase activity (GO:0008233)			breast(3)|endometrium(5)|kidney(1)|large_intestine(5)|lung(17)|ovary(1)|pancreas(1)|prostate(2)|stomach(1)	36	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)			TGCTGGCTGCTGGCTGCCATC	0.582											OREG0017466	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													12	15	14					6																	44140054		1959	4096	6055	SO:0001583	missense	11131			AJ242832	CCDS47436.1	6p12	2013-01-10			ENSG00000137225	ENSG00000137225		"EF-hand domain containing"	1478	protein-coding gene	gene with protein product		604822				10409436	Standard	NM_007058		Approved		uc003owt.1	Q9UMQ6	OTTHUMG00000014758	ENST00000398776.1:c.425T>C	6.37:g.44140054T>C	ENSP00000381758:p.Leu142Pro	Somatic	921	WXS	Illumina HiSeq	Phase_I	B2RA64|Q5T3G1|Q8N4R5	Missense_Mutation	SNP	ENST00000398776.1	37	CCDS47436.1	.	.	.	.	.	.	.	.	.	.	T	22.9	4.354124	0.82243	.	.	ENSG00000137225	ENST00000398776;ENST00000542245;ENST00000532171	D;D;D	0.93019	-3.15;-3.15;-3.15	4.05	4.05	0.47172	Peptidase C2, calpain, catalytic domain (3);	0.000000	0.38605	N	0.001632	D	0.98353	0.9453	H	0.99887	4.895	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.98507	1.0617	10	0.87932	D	0	.	13.2146	0.59851	0.0:0.0:0.0:1.0	.	142	Q9UMQ6	CAN11_HUMAN	P	142;142;172	ENSP00000381758:L142P;ENSP00000441078:L142P;ENSP00000432420:L172P	ENSP00000381758:L142P	L	+	2	0	CAPN11	44248032	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.650000	0.83521	2.062000	0.61559	0.533000	0.62120	CTG		0.582	CAPN11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040714.3			C	44140054	T	C	44140054	3	2	672	1	0	0	0	0	1	0	0	0	2626	1580	55	3	443	3	CAPN11	6	44140054	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	1206953	44140054	126975013	56	43258										
CRISP1	167	mdanderson.org	37	chr6	49825056	49825056	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	accctcacatactttcatggAcaacataggcagtaagcaag	7	11	2	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr6:49825056A>G	ENST00000335847.4	-	2	159	c.58T>C	c.(58-60)Tcc>Ccc	p.S20P	CRISP1_ENST00000329411.5_Missense_Mutation_p.S20P|CRISP1_ENST00000507853.1_Missense_Mutation_p.S20P|CRISP1_ENST00000536021.1_Missense_Mutation_p.S20P|CRISP1_ENST00000505118.1_Missense_Mutation_p.S20P|CRISP1_ENST00000355791.2_Missense_Mutation_p.S20P	NM_001131.2	NP_001122.2	P54107	CRIS1_HUMAN	cysteine-rich secretory protein 1	20					binding of sperm to zona pellucida (GO:0007339)|fusion of sperm to egg plasma membrane (GO:0007342)|regulation of acrosome reaction (GO:0060046)	extracellular space (GO:0005615)|nucleus (GO:0005634)	calcium channel regulator activity (GO:0005246)			endometrium(1)|kidney(2)|large_intestine(6)|lung(15)|skin(2)|upper_aerodigestive_tract(1)	27	Lung NSC(77;0.0358)					ACTTTCATGGACAACATAGGC	0.333																																																0													90	82	85					6																	49825056		2203	4300	6503	SO:0001583	missense	167			D38451	CCDS4931.1, CCDS4932.1	6p21.2-p21.1	2008-02-05	2003-09-03	2003-09-05	ENSG00000124812	ENSG00000124812			304	protein-coding gene	gene with protein product		601193	"acidic epididymal glycoprotein-like 1"	AEGL1		8838800	Standard	NM_001131		Approved	CRISP-1, ARP, HUMARP, HSCRISP1D, HSCRISP1G	uc003ozw.2	P54107	OTTHUMG00000014827	ENST00000335847.4:c.58T>C	6.37:g.49825056A>G	ENSP00000338276:p.Ser20Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B5BU98|O00698|Q13248|Q14082|Q96SF6	Missense_Mutation	SNP	ENST00000335847.4	37	CCDS4931.1	.	.	.	.	.	.	.	.	.	.	A	1.910	-0.450893	0.04572	.	.	ENSG00000124812	ENST00000507853;ENST00000335847;ENST00000355791;ENST00000329411;ENST00000505118;ENST00000536021	T;T;T;T;T;T	0.09255	3.0;3.0;3.0;3.0;3.0;3.0	4.22	-1.85	0.07784	CAP domain (2);	1.552690	0.03792	N	0.263113	T	0.01254	0.0041	N	0.04787	-0.16	0.09310	N	1	B;B	0.22851	0.076;0.046	B;B	0.23716	0.048;0.021	T	0.44467	-0.9326	9	.	.	.	.	4.321	0.11016	0.1521:0.163:0.0:0.6849	.	20;20	P54107-2;P54107	.;CRIS1_HUMAN	P	20	ENSP00000425020:S20P;ENSP00000338276:S20P;ENSP00000348044:S20P;ENSP00000331317:S20P;ENSP00000427589:S20P;ENSP00000441798:S20P	.	S	-	1	0	CRISP1	49933015	0.000000	0.05858	0.000000	0.03702	0.011000	0.07611	-0.139000	0.10358	-0.291000	0.09012	-0.168000	0.13345	TCC		0.333	CRISP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040875.2	NM_001131		G	49825056	A	G	49825056	3	3	672	1	0	0	0	0	1	0	0	0	3881	275	10	3	719	3	CRISP1	6	49825056	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	5685002	49825056	121290011	57	43259										
TAX1BP1	8887	mdanderson.org	37	chr7	27839640	27839640	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cttgcaaaaatggagctgaaAtggaaagaacaagtgaaaat	10	4	0	3			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr7:27839640A>G	ENST00000396319.2	+	13	1783	c.1695A>G	c.(1693-1695)aaA>aaG	p.K565K	TAX1BP1_ENST00000433216.2_Silent_p.K408K|TAX1BP1_ENST00000543117.1_Silent_p.K565K|TAX1BP1_ENST00000265393.6_Silent_p.K565K|TAX1BP1_ENST00000409980.1_Silent_p.K565K	NM_006024.6	NP_006015.4	Q86VP1	TAXB1_HUMAN	Tax1 (human T-cell leukemia virus type I) binding protein 1	565					apoptotic process (GO:0006915)|innate immune response (GO:0045087)|negative regulation of apoptotic process (GO:0043066)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of type I interferon production (GO:0032480)	cytosol (GO:0005829)	kinase binding (GO:0019900)			breast(1)|endometrium(5)|kidney(3)|large_intestine(10)|lung(8)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	31			GBM - Glioblastoma multiforme(3;0.0823)			TGGAGCTGAAATGGAAAGAAC	0.289																																																0													92	88	89					7																	27839640		2203	4297	6500	SO:0001819	synonymous_variant	8887			U33821	CCDS5415.1, CCDS43561.1, CCDS56471.1	7p15	2010-08-05			ENSG00000106052	ENSG00000106052			11575	protein-coding gene	gene with protein product		605326				10435631	Standard	NM_006024		Approved	TXBP151, CALCOCO3	uc003szl.3	Q86VP1	OTTHUMG00000023377	ENST00000396319.2:c.1695A>G	7.37:g.27839640A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DKU7|E7ENV2|O60398|O95770|Q13311|Q9BQG5|Q9UI88	Silent	SNP	ENST00000396319.2	37	CCDS5415.1																																																																																				0.289	TAX1BP1-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000214142.1	NM_006024		G	27839640	A	G	27839640	2	3	672	1	0	0	0	0	0	0	0	1	15606	98	4	3		3	TAX1BP1	7	27839640	Silent	SNP	A	TCGA-KN-8436-01A-11D-2310-10		27839640	131299023	58	43260										
PHTF2	57157	mdanderson.org	37	chr7	77569448	77569448	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ttccgactttctcaagctacAgacttggaacaactcacagc	6	13	2	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr7:77569448A>G	ENST00000248550.7	+	13	1645	c.1569A>G	c.(1567-1569)acA>acG	p.T523T	PHTF2_ENST00000422959.2_Silent_p.T489T|PHTF2_ENST00000307305.8_Silent_p.T485T|PHTF2_ENST00000424760.1_Silent_p.T485T|PHTF2_ENST00000416283.2_Silent_p.T489T|PHTF2_ENST00000275575.7_Silent_p.T485T			Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	523					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)	DNA binding (GO:0003677)			endometrium(2)|kidney(3)|large_intestine(3)|lung(9)|ovary(1)|prostate(1)	19						CTCAAGCTACAGACTTGGAAC	0.368																																																0													110	101	104					7																	77569448		1860	4104	5964	SO:0001819	synonymous_variant	57157			AL136883	CCDS47621.1, CCDS47622.1, CCDS47623.1, CCDS47624.1	7q11.23-q21	2008-02-01			ENSG00000006576	ENSG00000006576			13411	protein-coding gene	gene with protein product						10729229	Standard	NM_020432		Approved	DKFZp434D166	uc003ugq.4	Q8N3S3	OTTHUMG00000155557	ENST00000248550.7:c.1569A>G	7.37:g.77569448A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0JP04|A0JP05|A4D1C2|E9PEE3|G5E9H7|Q6NW35|Q8TBW4|Q9H099	Silent	SNP	ENST00000248550.7	37																																																																																					0.368	PHTF2-006	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000340638.2	NM_020432		G	77569448	A	G	77569448	2	3	672	1	0	0	0	0	0	0	0	1	11870	175	7	3		3	PHTF2	7	77569448	Silent	SNP	A	TCGA-KN-8436-01A-11D-2310-10	49729808	77569448	81569215	59	43261										
PCLO	27445	broad.mit.edu;mdanderson.org	37	chr7	82579610	82579610	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tttaaaacttcggggatcatCtgtcatattttctcccatgt	6	9	4	0	rs202185916		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr7:82579610C>T	ENST00000333891.9	-	6	10631	c.10294G>A	c.(10294-10296)Gat>Aat	p.D3432N	PCLO_ENST00000437081.1_Missense_Mutation_p.D152N|PCLO_ENST00000423517.2_Missense_Mutation_p.D3432N	NM_033026.5	NP_149015.2			piccolo presynaptic cytomatrix protein											breast(3)|central_nervous_system(3)|cervix(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(3)|kidney(19)|large_intestine(35)|lung(145)|ovary(7)|prostate(4)|upper_aerodigestive_tract(14)|urinary_tract(2)	259						CGGGGATCATCTGTCATATTT	0.418													C|||	1	0.000199681	0.0	0.0	5008	,	,		21775	0.0		0.001	False		,,,				2504	0.0															0								C	ASN/ASP,ASN/ASP	0,3786		0,0,1893	124	114	117		10294,10294	5.9	1	7		117	4,8234		0,4,4115	yes	missense,missense	PCLO	NM_014510.2,NM_033026.5	23,23	0,4,6008	TT,TC,CC		0.0486,0.0,0.0333	possibly-damaging,possibly-damaging	3432/4936,3432/5143	82579610	4,12020	1893	4119	6012	SO:0001583	missense	27445			AB011131	CCDS47630.1, CCDS47631.1	7q11.23-q21.3	2013-01-07	2013-01-07		ENSG00000186472	ENSG00000186472			13406	protein-coding gene	gene with protein product	"aczonin"	604918	"piccolo (presynaptic cytomatrix protein)"			8900486, 9628581	Standard	NM_014510		Approved	KIAA0559, DKFZp779G1236, ACZ	uc003uhx.2	Q9Y6V0	OTTHUMG00000154853	ENST00000333891.9:c.10294G>A	7.37:g.82579610C>T	ENSP00000334319:p.Asp3432Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000333891.9	37	CCDS47630.1	0	0.0	0	0.0	0	0.0	0	0.0	0	0.0	C	13.27	2.187005	0.38609	0.0	4.86E-4	ENSG00000186472	ENST00000431819;ENST00000333891;ENST00000423517;ENST00000437081	T;T;T	0.35048	2.4;2.4;1.33	5.95	5.95	0.96441	.	.	.	.	.	T	0.42017	0.1184	L	0.36672	1.1	0.36920	D	0.891354	B;P;P	0.46142	0.023;0.873;0.873	B;P;P	0.47346	0.023;0.544;0.544	T	0.44452	-0.9327	9	0.87932	D	0	.	20.3854	0.98941	0.0:1.0:0.0:0.0	.	3363;3432;3432	Q9Y6V0;Q9Y6V0-5;Q9Y6V0-6	PCLO_HUMAN;.;.	N	3363;3432;3432;152	ENSP00000334319:D3432N;ENSP00000388393:D3432N;ENSP00000393760:D152N	ENSP00000334319:D3432N	D	-	1	0	PCLO	82417546	0.997000	0.39634	0.997000	0.53966	0.742000	0.42306	4.382000	0.59594	2.825000	0.97269	0.655000	0.94253	GAT		0.418	PCLO-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337368.5	NM_014510		T	82579610	C	T	82579610	3	4	672	1	0	0	0	0	1	0	0	0	11590	913	32	2	5231	2	PCLO	7	82579610	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	5010162	82579610	76559053	60	43262										
ADAM22	53616	mdanderson.org	37	chr7	87607668	87607668	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tagttgactcatgttgaccaAgcaagcttccaggttgatgc	10	9	1	3			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr7:87607668A>G	ENST00000265727.7	+	3	343	c.264A>G	c.(262-264)caA>caG	p.Q88Q	ADAM22_ENST00000315984.7_Silent_p.Q88Q|ADAM22_ENST00000398201.4_Silent_p.Q88Q|ADAM22_ENST00000398209.3_Silent_p.Q88Q|ADAM22_ENST00000439864.1_Silent_p.Q88Q|ADAM22_ENST00000398204.4_Silent_p.Q88Q			Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22	88					adult locomotory behavior (GO:0008344)|cell adhesion (GO:0007155)|central nervous system development (GO:0007417)|myelination in peripheral nervous system (GO:0022011)|negative regulation of cell adhesion (GO:0007162)	integral component of membrane (GO:0016021)	integrin binding (GO:0005178)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			endometrium(7)|kidney(4)|large_intestine(7)|liver(2)|lung(20)|ovary(6)|prostate(4)|skin(3)	53	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			ATGTTGACCAAGCAAGCTTCC	0.348																																																0													198	175	182					7																	87607668		1890	4112	6002	SO:0001819	synonymous_variant	53616			AB009671	CCDS43608.1, CCDS43609.1, CCDS43610.1, CCDS47637.1	7q21	2008-07-18	2005-08-18		ENSG00000008277	ENSG00000008277		"ADAM metallopeptidase domain containing"	201	protein-coding gene	gene with protein product	"metalloproteinase-like, disintegrin-like, and cysteine-rich protein 2"	603709	"a disintegrin and metalloproteinase domain 22"			9693107, 10524237	Standard	NM_021723		Approved	MDC2	uc003ujn.3	Q9P0K1	OTTHUMG00000137417	ENST00000265727.7:c.264A>G	7.37:g.87607668A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O75075|O75076|Q9P0K2|Q9UIA1|Q9UKK2	Silent	SNP	ENST00000265727.7	37	CCDS47637.1																																																																																				0.348	ADAM22-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000268370.2	NM_021723		G	87607668	A	G	87607668	2	3	672	1	0	0	0	0	0	0	0	1	244	69	3	3		3	ADAM22	7	87607668	Silent	SNP	A	TCGA-KN-8436-01A-11D-2310-10	5028058	87607668	71530995	61	43263										
DOCK4	9732	mdanderson.org;bcgsc.ca	37	chr7	111580241	111580241	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gctaagaactgcacagccaaAgggtcgtcggtactggacac	12	11	0	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr7:111580241A>G	ENST00000437633.1	-	11	1157	c.901T>C	c.(901-903)Ttt>Ctt	p.F301L	DOCK4_ENST00000428084.1_Missense_Mutation_p.F301L|DOCK4_ENST00000476846.1_5'UTR	NM_014705.3	NP_055520.3	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	301					cell chemotaxis (GO:0060326)|positive regulation of Rac GTPase activity (GO:0032855)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)|stereocilium (GO:0032420)|stereocilium bundle (GO:0032421)	guanyl-nucleotide exchange factor activity (GO:0005085)|PDZ domain binding (GO:0030165)|Rac GTPase activator activity (GO:0030675)|Rac GTPase binding (GO:0048365)|receptor tyrosine kinase binding (GO:0030971)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(4)|large_intestine(13)|lung(31)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(4)	72		Acute lymphoblastic leukemia(1;0.0441)				GCACAGCCAAAGGGTCGTCGG	0.448																																																0													181	187	185					7																	111580241		1968	4144	6112	SO:0001583	missense	9732				CCDS47688.1	7q31.1	2007-08-07			ENSG00000128512	ENSG00000128512			19192	protein-coding gene	gene with protein product		607679				12432077, 12628187	Standard	XM_006716188		Approved	FLJ34238, KIAA0716	uc003vfx.3	Q8N1I0	OTTHUMG00000155077	ENST00000437633.1:c.901T>C	7.37:g.111580241A>G	ENSP00000404179:p.Phe301Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O14584|O94824|Q8NB45	Missense_Mutation	SNP	ENST00000437633.1	37	CCDS47688.1	.	.	.	.	.	.	.	.	.	.	A	17.93	3.509593	0.64522	.	.	ENSG00000128512	ENST00000352877;ENST00000428084;ENST00000437633;ENST00000342288;ENST00000544250	T;T	0.03831	3.79;3.79	6.06	4.89	0.63831	.	0.095096	0.85682	D	0.000000	T	0.08935	0.0221	M	0.62723	1.935	0.80722	D	1	B;B;B	0.28552	0.049;0.049;0.215	B;B;B	0.32465	0.024;0.016;0.146	T	0.03641	-1.1017	10	0.52906	T	0.07	.	13.4862	0.61366	0.8694:0.1306:0.0:0.0	.	301;301;301	A4D0S8;Q149N5;Q8N1I0	.;.;DOCK4_HUMAN	L	289;301;301;289;300	ENSP00000410746:F301L;ENSP00000404179:F301L	ENSP00000345432:F289L	F	-	1	0	DOCK4	111367477	1.000000	0.71417	0.996000	0.52242	0.992000	0.81027	6.873000	0.75541	1.091000	0.41335	0.533000	0.62120	TTT		0.448	DOCK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338369.4	NM_014705		G	111580241	A	G	111580241	3	3	672	1	0	0	0	0	1	0	0	0	4691	72	3	3	5167	3	DOCK4	7	111580241	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	23972573	111580241	47558422	62	43264										
FLNC	2318	bcgsc.ca	37	chr7	128477551	128477551	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ccaagctcaaacctggtgccCctgttcgatccaagcagctg	9	15	1	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr7:128477551C>T	ENST00000325888.8	+	4	1060	c.799C>T	c.(799-801)Cct>Tct	p.P267S	FLNC_ENST00000346177.6_Missense_Mutation_p.P267S	NM_001458.4	NP_001449.3	Q14315	FLNC_HUMAN	filamin C, gamma	267					cell junction assembly (GO:0034329)	costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcoplasm (GO:0016528)	ankyrin binding (GO:0030506)|cytoskeletal protein binding (GO:0008092)			biliary_tract(1)|breast(7)|central_nervous_system(1)|cervix(1)|endometrium(19)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(19)|lung(59)|ovary(2)|pancreas(2)|prostate(1)|skin(6)|upper_aerodigestive_tract(2)	128						ACCTGGTGCCCCTGTTCGATC	0.592																																																0													132	143	139					7																	128477551		2172	4295	6467	SO:0001583	missense	2318			AB208865	CCDS43644.1, CCDS47705.1	7q32-q35	2014-09-17	2009-07-23		ENSG00000128591	ENSG00000128591			3756	protein-coding gene	gene with protein product	"actin binding protein 280"	102565	"filamin C, gamma (actin binding protein 280)"	FLN2		7689010, 8088838	Standard	NM_001458		Approved	ABP-280, ABPL	uc003vnz.4	Q14315	OTTHUMG00000023627	ENST00000325888.8:c.799C>T	7.37:g.128477551C>T	ENSP00000327145:p.Pro267Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2ZZ88|O95303|Q07985|Q9NS12|Q9NYE5|Q9UMR8|Q9Y503	Missense_Mutation	SNP	ENST00000325888.8	37	CCDS43644.1	.	.	.	.	.	.	.	.	.	.	C	21.7	4.187648	0.78789	.	.	ENSG00000128591	ENST00000325888;ENST00000346177	D;D	0.87491	-2.26;-2.24	5.19	5.19	0.71726	.	0.000000	0.85682	D	0.000000	D	0.89287	0.6672	M	0.84082	2.675	0.58432	D	0.999999	P;P	0.42827	0.477;0.791	B;B	0.41374	0.107;0.355	D	0.91376	0.5123	10	0.87932	D	0	.	17.7208	0.88350	0.0:1.0:0.0:0.0	.	267;267	Q14315-2;Q14315	.;FLNC_HUMAN	S	267	ENSP00000327145:P267S;ENSP00000344002:P267S	ENSP00000327145:P267S	P	+	1	0	FLNC	128264787	1.000000	0.71417	1.000000	0.80357	0.908000	0.53690	7.818000	0.86416	2.431000	0.82371	0.655000	0.94253	CCT		0.592	FLNC-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059948.3			T	128477551	C	T	128477551	3	4	672	1	0	0	0	0	1	0	0	0	5942	623	22	2	813	2	FLNC	7	128477551	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	16897310	128477551	30661112	63	43265										
ARHGEF5	7984	mdanderson.org	37	chr7	144070326	144070326	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	aacaatgtccagagtatgcgAcggacagaggaactaatcta	10	8	1	2	rs201695853	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr7:144070326A>G	ENST00000056217.5	+	10	4263	c.4089A>G	c.(4087-4089)cgA>cgG	p.R1363R	ARHGEF5_ENST00000471847.2_Silent_p.R285R	NM_005435.3	NP_005426.2	Q12774	ARHG5_HUMAN	Rho guanine nucleotide exchange factor (GEF) 5	1363					actin cytoskeleton organization (GO:0030036)|intracellular signal transduction (GO:0035556)|myeloid dendritic cell chemotaxis (GO:0002408)|positive regulation of podosome assembly (GO:0071803)|regulation of Rho GTPase activity (GO:0032319)		GTP binding (GO:0005525)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(1)|endometrium(6)|kidney(8)|large_intestine(9)|liver(1)|lung(8)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	40	Melanoma(164;0.14)					AGAGTATGCGACGGACAGAGG	0.512													A|||	3	0.000599042	0.0	0.0043	5008	,	,		19709	0.0		0.0	False		,,,				2504	0.0															0													127	118	121					7																	144070326		2055	4072	6127	SO:0001819	synonymous_variant	7984			U02082	CCDS34771.1	7q35	2012-09-20			ENSG00000050327	ENSG00000050327		"Rho guanine nucleotide exchange factors"	13209	protein-coding gene	gene with protein product	"transforming immortalized mammary oncogene", "guanine nucleotide regulatory protein TIM"	600888				8134109, 7656213	Standard	NM_005435		Approved	TIM, TIM1, GEF5, P60	uc003wel.3	Q12774	OTTHUMG00000158004	ENST00000056217.5:c.4089A>G	7.37:g.144070326A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NNJ2|Q6ZML7	Silent	SNP	ENST00000056217.5	37	CCDS34771.1	.	.	.	.	.	.	.	.	.	.	A	2.328	-0.354109	0.05173	.	.	ENSG00000050327	ENST00000474817	.	.	.	4.54	-9.07	0.00724	.	.	.	.	.	T	0.42921	0.1224	.	.	.	0.53005	D	0.999967	.	.	.	.	.	.	T	0.49925	-0.8887	4	.	.	.	-9.5765	5.4746	0.16688	0.146:0.309:0.4434:0.1015	.	.	.	.	G	617	.	.	D	+	2	0	ARHGEF5	143701259	0.047000	0.20315	0.213000	0.23690	0.278000	0.26855	-0.764000	0.04735	-2.655000	0.00422	-1.106000	0.02097	GAC		0.512	ARHGEF5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349981.1	NM_005435		G	144070326	A	G	144070326	2	3	672	1	0	0	0	0	0	0	0	1	909	262	10	3		3	ARHGEF5	7	144070326	Silent	SNP	A	TCGA-KN-8436-01A-11D-2310-10	15592775	144070326	15068337	64	43266										
DCAF13	25879	mdanderson.org	37	chr8	104442840	104442840	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	attgttatacttgtttttagAcatttctcttgggaagttgt	8	4	1	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr8:104442840A>G	ENST00000297579.5	+	6	1358	c.1081A>G	c.(1081-1083)Aca>Gca	p.T361A	DCAF13_ENST00000521999.1_3'UTR	NM_015420.6	NP_056235.4	Q9NV06	DCA13_HUMAN	DDB1 and CUL4 associated factor 13	209					protein ubiquitination (GO:0016567)|rRNA processing (GO:0006364)	Cul4-RING E3 ubiquitin ligase complex (GO:0080008)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	poly(A) RNA binding (GO:0044822)			NS(1)|breast(1)|kidney(2)|large_intestine(8)|lung(8)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	25						TTGTTTTTAGACATTTCTCTT	0.363																																																0													226	218	221					8																	104442840		2203	4300	6503	SO:0001630	splice_region_variant	25879			AK074725	CCDS34934.1	8q22.3	2013-01-09	2009-07-17	2009-07-17	ENSG00000164934	ENSG00000164934		"WD repeat domain containing", "DDB1 and CUL4 associated factors"	24535	protein-coding gene	gene with protein product			"WD repeats and SOF1 domain containing"	WDSOF1		11042152	Standard	NM_015420		Approved	DKFZP564O0463, Gm83, HSPC064	uc003yln.3	Q9NV06	OTTHUMG00000164888	ENST00000297579.5:c.1081-1A>G	8.37:g.104442840A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q3MII9|Q8NCH8|Q8TC51|Q96JY7|Q9NZX3	Missense_Mutation	SNP	ENST00000297579.5	37	CCDS34934.1	.	.	.	.	.	.	.	.	.	.	A	16.43	3.120313	0.56613	.	.	ENSG00000164934	ENST00000297579	T	0.01347	4.99	5.25	5.25	0.73442	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.03871	0.0109	M	0.77712	2.385	0.80722	D	1	B	0.27117	0.168	B	0.34489	0.184	T	0.42396	-0.9454	9	.	.	.	-18.7305	15.1592	0.72767	1.0:0.0:0.0:0.0	.	209	Q9NV06	DCA13_HUMAN	A	361	ENSP00000297579:T361A	.	T	+	1	0	DCAF13	104512016	1.000000	0.71417	1.000000	0.80357	0.688000	0.40055	6.490000	0.73645	1.996000	0.58369	0.455000	0.32223	ACA		0.363	DCAF13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380797.2	NM_015420	Missense_Mutation	G	104442840	A	G	104442840	5	3	672	1	0	0	0	0	0	0	1	0	4268	289	10	3	1103	3	DCAF13	8	104442840	Splice_Site	SNP	A	TCGA-KN-8436-01A-11D-2310-10		104442840	41921182	65	43267										
GRIN3A	116443	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	104432589	104432589	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ttcgccccttgggagtcaaaCcaaatggactcttccattca	7	13	3	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr9:104432589C>A	ENST00000361820.3	-	3	2705	c.2105G>T	c.(2104-2106)gGt>gTt	p.G702V		NM_133445.2	NP_597702.2	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic, N-methyl-D-aspartate 3A	702					calcium ion transport (GO:0006816)|dendrite development (GO:0016358)|ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|prepulse inhibition (GO:0060134)|response to ethanol (GO:0045471)|rhythmic process (GO:0048511)|synaptic transmission, glutamatergic (GO:0035249)	cell junction (GO:0030054)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|N-methyl-D-aspartate selective glutamate receptor complex (GO:0017146)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|postsynaptic membrane (GO:0045211)|synapse (GO:0045202)	calcium channel activity (GO:0005262)|extracellular-glutamate-gated ion channel activity (GO:0005234)|glycine binding (GO:0016594)|identical protein binding (GO:0042802)|N-methyl-D-aspartate selective glutamate receptor activity (GO:0004972)|neurotransmitter binding (GO:0042165)|protein phosphatase 2A binding (GO:0051721)			breast(2)|central_nervous_system(2)|endometrium(4)|kidney(3)|large_intestine(12)|lung(44)|ovary(4)|pancreas(1)|skin(7)|upper_aerodigestive_tract(1)	80		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Acetylcysteine(DB06151)|Amantadine(DB00915)|Atomoxetine(DB00289)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Gabapentin(DB00996)|Halothane(DB01159)|Ketamine(DB01221)|Ketobemidone(DB06738)|Memantine(DB01043)|Methadone(DB00333)|Milnacipran(DB04896)|Orphenadrine(DB01173)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Procaine(DB00721)|Secobarbital(DB00418)|Tramadol(DB00193)	GGGAGTCAAACCAAATGGACT	0.473																																																0													130	136	134					9																	104432589		2203	4300	6503	SO:0001583	missense	116443				CCDS6758.1	9q31.1	2012-08-29			ENSG00000198785	ENSG00000198785		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	16767	protein-coding gene	gene with protein product		606650					Standard	NM_133445		Approved	GluN3A	uc004bbp.2	Q8TCU5	OTTHUMG00000020387	ENST00000361820.3:c.2105G>T	9.37:g.104432589C>A	ENSP00000355155:p.Gly702Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3DLF9|Q5VTR3|Q8TF29|Q8WXI6	Missense_Mutation	SNP	ENST00000361820.3	37	CCDS6758.1	.	.	.	.	.	.	.	.	.	.	C	19.11	3.764413	0.69878	.	.	ENSG00000198785	ENST00000361820	T	0.53640	0.61	5.39	5.39	0.77823	Extracellular solute-binding protein, family 3 (1);Ionotropic glutamate receptor (2);	0.000000	0.85682	D	0.000000	T	0.76169	0.3950	M	0.89534	3.04	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.80999	-0.1131	10	0.87932	D	0	.	19.5908	0.95509	0.0:1.0:0.0:0.0	.	702	Q8TCU5	NMD3A_HUMAN	V	702	ENSP00000355155:G702V	ENSP00000355155:G702V	G	-	2	0	GRIN3A	103472410	1.000000	0.71417	1.000000	0.80357	0.755000	0.42902	7.773000	0.85462	2.714000	0.92807	0.580000	0.79431	GGT		0.473	GRIN3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053453.1			A	104432589	C	A	104432589	3	1	672	1	0	0	0	0	1	0	0	0	6790	507	18	4	1270	4	GRIN3A	9	104432589	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10		104432589	36780842	66	43268										
EPB41L4B	54566	mdanderson.org	37	chr9	112015799	112015799	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gctggttcttcgtaacctggAgccatgtgtagcttgatatt	11	8	1	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr9:112015799A>G	ENST00000374566.3	-	12	1718	c.1201T>C	c.(1201-1203)Tcc>Ccc	p.S401P	EPB41L4B_ENST00000374557.4_Missense_Mutation_p.S401P	NM_019114.3	NP_061987.3	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	401					actomyosin structure organization (GO:0031032)	apical part of cell (GO:0045177)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extrinsic component of membrane (GO:0019898)	structural constituent of cytoskeleton (GO:0005200)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(6)|lung(14)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	39						CGTAACCTGGAGCCATGTGTA	0.408																																																0													154	160	158					9																	112015799		1894	4125	6019	SO:0001583	missense	54566			AB032179	CCDS43859.1, CCDS43860.1	9q22.1-q22.3	2008-02-05			ENSG00000095203	ENSG00000095203			19818	protein-coding gene	gene with protein product		610340				10783258	Standard	NM_018424		Approved	EHM2	uc004bdz.1	Q9H329	OTTHUMG00000020470	ENST00000374566.3:c.1201T>C	9.37:g.112015799A>G	ENSP00000363694:p.Ser401Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T4G5|Q5T4G6|Q9H328|Q9P2V3	Missense_Mutation	SNP	ENST00000374566.3	37	CCDS43859.1	.	.	.	.	.	.	.	.	.	.	A	14.04	2.416937	0.42918	.	.	ENSG00000095203	ENST00000262536;ENST00000374566;ENST00000374557;ENST00000311609	D;D	0.88741	-2.42;-2.42	5.26	-3.23	0.05109	FERM adjacent (FA) (1);	0.623793	0.13393	N	0.391269	D	0.84511	0.5488	L	0.45581	1.43	0.23787	N	0.996842	B;P	0.34562	0.307;0.457	B;B	0.41412	0.132;0.356	T	0.76713	-0.2858	10	0.66056	D	0.02	.	7.251	0.26150	0.5718:0.2369:0.0:0.1913	.	401;401	Q9H329-2;Q9H329	.;E41LB_HUMAN	P	86;401;401;323	ENSP00000363694:S401P;ENSP00000363685:S401P	ENSP00000262536:S86P	S	-	1	0	EPB41L4B	111055620	0.042000	0.20092	0.079000	0.20413	0.971000	0.66376	0.089000	0.15002	-0.902000	0.03886	-1.508000	0.00951	TCC		0.408	EPB41L4B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000053592.1	NM_018424		G	112015799	A	G	112015799	3	3	672	1	0	0	0	0	1	0	0	0	5158	304	11	3	1713	3	EPB41L4B	9	112015799	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	7583210	112015799	29197632	67	43269										
C9orf152	401546	mdanderson.org	37	chr9	112963527	112963527	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	agatcccacaagcttgccccTatgatgtacttgatgactgg	9	11	0	4			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr9:112963527T>C	ENST00000400613.4	-	2	1030	c.421A>G	c.(421-423)Agg>Ggg	p.R141G	C9orf152_ENST00000473442.1_Intron	NM_001012993.2	NP_001013011.2	Q5JTZ5	CI152_HUMAN	chromosome 9 open reading frame 152	141										NS(1)|endometrium(1)|large_intestine(1)|lung(1)|skin(1)|stomach(1)	6						AGCTTGCCCCTATGATGTACT	0.537																																																0													184	169	174					9																	112963527		2203	4300	6503	SO:0001583	missense	401546			BX648620	CCDS35102.2	9q31.3	2012-04-03			ENSG00000188959	ENSG00000188959			31455	protein-coding gene	gene with protein product							Standard	NM_001012993		Approved	bA470J20.2	uc011lwk.2	Q5JTZ5	OTTHUMG00000020478	ENST00000400613.4:c.421A>G	9.37:g.112963527T>C	ENSP00000383456:p.Arg141Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MWT6	Missense_Mutation	SNP	ENST00000400613.4	37	CCDS35102.2	.	.	.	.	.	.	.	.	.	.	T	10.77	1.444469	0.25987	.	.	ENSG00000188959	ENST00000400613	.	.	.	4.53	0.742	0.18341	.	0.457912	0.20100	N	0.099247	T	0.15609	0.0376	N	0.08118	0	0.09310	N	1	B	0.25169	0.119	B	0.24155	0.051	T	0.13388	-1.0511	9	0.54805	T	0.06	-7.2526	4.2112	0.10512	0.0:0.184:0.3508:0.4652	.	141	Q5JTZ5	CI152_HUMAN	G	141	.	ENSP00000383456:R141G	R	-	1	2	C9orf152	112003348	0.006000	0.16342	0.000000	0.03702	0.003000	0.03518	0.794000	0.26958	0.112000	0.17975	-0.250000	0.11733	AGG		0.537	C9orf152-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053602.2	NM_001012993		C	112963527	T	C	112963527	3	2	672	1	0	0	0	0	1	0	0	0	2465	1521	53	3	302	3	C9orf152	9	112963527	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	947728	112963527	28249904	68	43270										
DNM1	1759	bcgsc.ca	37	chr9	130984588	130984588	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	caagaacttccgccctgatgAcccagctcgcaagaccaagg	9	15	0	4			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr9:130984588A>G	ENST00000372923.3	+	7	1054	c.962A>G	c.(961-963)gAc>gGc	p.D321G	DNM1_ENST00000341179.7_Missense_Mutation_p.D321G|DNM1_ENST00000486160.1_Missense_Mutation_p.D321G|DNM1_ENST00000475805.1_Missense_Mutation_p.D321G|DNM1_ENST00000393594.3_Missense_Mutation_p.D321G	NM_004408.2	NP_004399.2	Q05193	DYN1_HUMAN	dynamin 1	321					endocytosis (GO:0006897)|endosome organization (GO:0007032)|GTP catabolic process (GO:0006184)|receptor internalization (GO:0031623)|receptor-mediated endocytosis (GO:0006898)	extracellular vesicular exosome (GO:0070062)|membrane coat (GO:0030117)|microtubule (GO:0005874)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|identical protein binding (GO:0042802)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(15)|lung(6)|ovary(2)|urinary_tract(2)	32						CGCCCTGATGACCCAGCTCGC	0.622																																					GBM(113;146 1575 2722 28670 29921)											0													69	66	67					9																	130984588		2203	4300	6503	SO:0001583	missense	1759			L07807	CCDS6895.1, CCDS43882.1, CCDS75911.1, CCDS75912.1	9q34	2013-01-10			ENSG00000106976	ENSG00000106976		"Pleckstrin homology (PH) domain containing"	2972	protein-coding gene	gene with protein product		602377		DNM		2144893, 9143509	Standard	XM_005251763		Approved		uc022bob.1	Q05193	OTTHUMG00000020733	ENST00000372923.3:c.962A>G	9.37:g.130984588A>G	ENSP00000362014:p.Asp321Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLM6|Q5SYX0|Q5SYX2|Q6P3T6|Q86VD2	Missense_Mutation	SNP	ENST00000372923.3	37	CCDS6895.1	.	.	.	.	.	.	.	.	.	.	A	22.5	4.293179	0.80914	.	.	ENSG00000106976	ENST00000475805;ENST00000341179;ENST00000372923;ENST00000393589;ENST00000393594;ENST00000486160	T;T;T;T;T	0.75477	-0.94;-0.94;-0.94;-0.94;-0.94	5.93	5.93	0.95920	Dynamin central domain (1);	0.000000	0.85682	D	0.000000	D	0.83885	0.5351	M	0.64080	1.96	0.80722	D	1	D;D;D	0.76494	0.999;0.999;0.999	D;D;D	0.85130	0.997;0.997;0.997	T	0.81473	-0.0917	10	0.27082	T	0.32	-4.3692	16.3817	0.83467	1.0:0.0:0.0:0.0	.	321;321;321	Q05193;Q05193-3;Q05193-2	DYN1_HUMAN;.;.	G	321;321;321;316;321;321	ENSP00000419225:D321G;ENSP00000345680:D321G;ENSP00000362014:D321G;ENSP00000377219:D321G;ENSP00000420045:D321G	ENSP00000345680:D321G	D	+	2	0	DNM1	130024409	1.000000	0.71417	1.000000	0.80357	0.916000	0.54674	9.339000	0.96797	2.276000	0.75962	0.454000	0.30748	GAC		0.622	DNM1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000054367.1	NM_004408		G	130984588	A	G	130984588	3	3	672	1	0	0	0	0	1	0	0	0	4672	275	10	3	988	3	DNM1	9	130984588	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	18021061	130984588	10228843	69	43271										
KCNT1	57582	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr9	138641963	138641963	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gggtccaggtggagttctacGtcaacgagaacaccttcaag	12	10	3	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr9:138641963G>A	ENST00000263604.3	+	3	217	c.217G>A	c.(217-219)Gtc>Atc	p.V73I	KCNT1_ENST00000298480.5_Missense_Mutation_p.V92I|KCNT1_ENST00000371757.2_Missense_Mutation_p.V92I|KCNT1_ENST00000488444.2_Missense_Mutation_p.V73I|KCNT1_ENST00000486577.2_Missense_Mutation_p.V53I|KCNT1_ENST00000490355.2_Missense_Mutation_p.V73I|KCNT1_ENST00000491806.2_Missense_Mutation_p.V59I|KCNT1_ENST00000487664.1_Missense_Mutation_p.V44I			Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	73					potassium ion transmembrane transport (GO:0071805)	voltage-gated potassium channel complex (GO:0008076)	calcium-activated potassium channel activity (GO:0015269)|voltage-gated potassium channel activity (GO:0005249)			breast(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(18)|ovary(1)|pancreas(3)|prostate(5)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	50		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		GGAGTTCTACGTCAACGAGAA	0.607																																																0													82	68	73					9																	138641963		2203	4300	6503	SO:0001583	missense	57582			AB037843	CCDS35175.1, CCDS35175.2, CCDS65188.1	9q34.3	2012-07-05			ENSG00000107147	ENSG00000107147		"Potassium channels", "Voltage-gated ion channels / Potassium channels, calcium-activated"	18865	protein-coding gene	gene with protein product		608167				10718198, 16382103	Standard	NM_020822		Approved	KCa4.1, KIAA1422	uc011mdq.2	Q5JUK3	OTTHUMG00000020917	ENST00000263604.3:c.217G>A	9.37:g.138641963G>A	ENSP00000263604:p.Val73Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXF7|B7ZVY4|B9EGP2|G5E9V0|Q9P2C5	Missense_Mutation	SNP	ENST00000263604.3	37		.	.	.	.	.	.	.	.	.	.	g	22.2	4.255822	0.80135	.	.	ENSG00000107147	ENST00000487664;ENST00000298480;ENST00000371757;ENST00000473941;ENST00000486577;ENST00000491806;ENST00000488444;ENST00000490355;ENST00000263604	T;T;T;T;T	0.50548	1.75;1.66;1.66;0.74;1.72	4.18	4.18	0.49190	.	0.000000	0.64402	D	0.000002	T	0.59622	0.2207	M	0.72353	2.195	0.80722	D	1	D;D	0.58268	0.97;0.982	P;P	0.53006	0.522;0.715	T	0.66630	-0.5875	10	0.59425	D	0.04	-9.5267	15.8483	0.78907	0.0:0.0:1.0:0.0	.	92;44	B9EGP2;G5E9V0	.;.	I	44;92;92;39;53;59;73;73;73	ENSP00000417851:V44I;ENSP00000298480:V92I;ENSP00000360822:V92I;ENSP00000420764:V39I;ENSP00000263604:V73I	ENSP00000263604:V73I	V	+	1	0	KCNT1	137781784	1.000000	0.71417	0.951000	0.38953	0.904000	0.53231	9.449000	0.97603	2.053000	0.61076	0.561000	0.74099	GTC		0.607	KCNT1-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_020822		A	138641963	G	A	138641963	3	1	672	1	0	0	0	0	1	0	0	0	8098	1145	40	1	284	1	KCNT1	9	138641963	Missense_Mutation	SNP	G	TCGA-KN-8436-01A-11D-2310-10	7657375	138641963	2571468	70	43272										
TUBB8	347688	mdanderson.org	37	chr10	94011	94011	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tccatcagctccgcgccttcGgtgtagtgtcccttggccca	10	16	1	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr10:94011G>T	ENST00000309812.4	-	4	383	c.321C>A	c.(319-321)acC>acA	p.T107T	TUBB8_ENST00000332708.5_Missense_Mutation_p.P71Q|TUBB8_ENST00000413237.3_5'UTR|TUBB8_ENST00000447903.2_Silent_p.T35T	NM_177987.2	NP_817124.1	Q3ZCM7	TBB8_HUMAN	tubulin, beta 8 class VIII	107					microtubule-based process (GO:0007017)|protein polymerization (GO:0051258)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|cervix(1)|endometrium(4)|large_intestine(5)|lung(12)|ovary(2)|prostate(3)|skin(3)|stomach(1)	32		all_cancers(4;0.00131)|all_lung(4;0.000777)|Lung NSC(4;0.0043)|all_epithelial(10;0.0154)|Colorectal(49;0.235)		Epithelial(11;0.00341)|all cancers(11;0.00922)|OV - Ovarian serous cystadenocarcinoma(14;0.0508)|Lung(33;0.132)		CCGCGCCTTCGGTGTAGTGTC	0.597																																					Pancreas(192;2041 3010 9013 18103)											0													75	63	67					10																	94011		2203	4300	6503	SO:0001819	synonymous_variant	347688			AF355127	CCDS7051.1	10p15.3	2014-05-06			ENSG00000173876			"Tubulins"	20773	protein-coding gene	gene with protein product	"class VIII beta-tubulin"						Standard	NM_177987		Approved	bA631M21.2	uc001ifi.2	Q3ZCM7	OTTHUMG00000174803	ENST00000309812.4:c.321C>A	10.37:g.94011G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SQX9|Q8WZ78	Silent	SNP	ENST00000309812.4	37	CCDS7051.1	.	.	.	.	.	.	.	.	.	.	T	2.327	-0.354190	0.05173	.	.	ENSG00000173876	ENST00000309812;ENST00000332708	.	.	.	.	.	.	.	.	.	.	.	T	0.54983	0.1892	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.56920	-0.7899	4	0.87932	D	0	.	4.0636	0.09849	0.0:1.0E-4:0.3593:0.6406	.	.	.	.	Q	115;71	.	ENSP00000311042:P115Q	P	-	2	0	RP11-631M21.2	84011	0.004000	0.15560	0.255000	0.24374	0.259000	0.26198	-3.168000	0.00574	-2.119000	0.00827	-2.245000	0.00285	CCG		0.597	TUBB8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467795.1	NM_177987		T	94011	G	T	94011	2	4	672	1	0	0	0	0	0	0	0	1	16773	1103	39	4		4	TUBB8	10	94011	Silent	SNP	G	TCGA-KN-8436-01A-11D-2310-10		94011	135440736	71	43273										
HNRNPF	3185	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr10	43882268	43882268	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ttcaagaagagttctatataTctgtgctgcatattggccct	8	8	3	2			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr10:43882268T>A	ENST00000544000.1	-	4	1472	c.1065A>T	c.(1063-1065)agA>agT	p.R355S	HNRNPF_ENST00000337970.3_Missense_Mutation_p.R355S|HNRNPF_ENST00000498176.1_5'Flank|HNRNPF_ENST00000443950.2_Missense_Mutation_p.R355S|HNRNPF_ENST00000357065.4_Missense_Mutation_p.R355S|HNRNPF_ENST00000356053.3_Missense_Mutation_p.R355S	NM_001098207.1	NP_001091677.1	P52597	HNRPF_HUMAN	heterogeneous nuclear ribonucleoprotein F	355	Interaction with RNA.|RRM 3. {ECO:0000255|PROSITE- ProRule:PRU00176}.				gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|regulation of RNA splicing (GO:0043484)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|single-stranded RNA binding (GO:0003727)			breast(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(10)|prostate(1)|urinary_tract(1)	19						GTTCTATATATCTGTGCTGCA	0.517																																																0													111	113	112					10																	43882268		2203	4300	6503	SO:0001583	missense	3185				CCDS7204.1	10q11.21	2013-02-12		2008-04-18	ENSG00000169813	ENSG00000169813		"RNA binding motif (RRM) containing"	5039	protein-coding gene	gene with protein product		601037		HNRPF		7499401	Standard	NM_001098208		Approved		uc001jas.2	P52597	OTTHUMG00000018029	ENST00000544000.1:c.1065A>T	10.37:g.43882268T>A	ENSP00000438061:p.Arg355Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KM84|Q5T0N2|Q96AU2	Missense_Mutation	SNP	ENST00000544000.1	37	CCDS7204.1	.	.	.	.	.	.	.	.	.	.	T	13.88	2.368200	0.42003	.	.	ENSG00000169813	ENST00000544000;ENST00000443950;ENST00000356053;ENST00000357065;ENST00000337970;ENST00000540544	T;T;T;T;T	0.11930	2.73;2.73;2.73;2.73;2.73	4.38	3.22	0.36961	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.000000	0.85682	D	0.000000	T	0.31796	0.0808	M	0.76838	2.35	0.58432	D	0.999999	P	0.44380	0.834	P	0.58520	0.84	T	0.02942	-1.1091	10	0.62326	D	0.03	-30.795	9.5933	0.39559	0.0:0.0:0.1767:0.8233	.	355	P52597	HNRPF_HUMAN	S	355;355;355;355;355;278	ENSP00000438061:R355S;ENSP00000400433:R355S;ENSP00000348345:R355S;ENSP00000349573:R355S;ENSP00000338477:R355S	ENSP00000338477:R355S	R	-	3	2	HNRNPF	43202274	1.000000	0.71417	1.000000	0.80357	0.951000	0.60555	0.986000	0.29590	0.979000	0.38497	0.533000	0.62120	AGA		0.517	HNRNPF-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047705.2			A	43882268	T	A	43882268	3	1	672	1	0	0	0	0	1	0	0	0	7272	1432	50	5	186	5	HNRNPF	10	43882268	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	43788257	43882268	91652479	72	43274										
ANK3	288	mdanderson.org	37	chr10	61815749	61815749	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tttgcttcaaatttgccagcTtctcctttgagatatgaggt	8	8	2	2			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr10:61815749T>C	ENST00000280772.2	-	42	12923	c.12732A>G	c.(12730-12732)gaA>gaG	p.E4244E	ANK3_ENST00000355288.2_Silent_p.E868E|ANK3_ENST00000503366.1_Silent_p.E1735E|ANK3_ENST00000373827.2_Silent_p.E1728E|RP11-388P9.2_ENST00000414383.1_RNA	NM_020987.3	NP_066267.2	Q12955	ANK3_HUMAN	ankyrin 3, node of Ranvier (ankyrin G)	4244					axon guidance (GO:0007411)|axonogenesis (GO:0007409)|cytoskeletal anchoring at plasma membrane (GO:0007016)|establishment of protein localization (GO:0045184)|Golgi to plasma membrane protein transport (GO:0043001)|maintenance of protein location in plasma membrane (GO:0072660)|membrane assembly (GO:0071709)|mitotic cytokinesis (GO:0000281)|neuromuscular junction development (GO:0007528)|neuronal action potential (GO:0019228)|plasma membrane organization (GO:0007009)|positive regulation of cell communication by electrical coupling (GO:0010650)|positive regulation of gene expression (GO:0010628)|positive regulation of homotypic cell-cell adhesion (GO:0034112)|positive regulation of membrane depolarization during cardiac muscle cell action potential (GO:1900827)|positive regulation of membrane potential (GO:0045838)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|positive regulation of sodium ion transport (GO:0010765)|protein localization to plasma membrane (GO:0072659)|protein targeting to plasma membrane (GO:0072661)|regulation of potassium ion transport (GO:0043266)|signal transduction (GO:0007165)	axon initial segment (GO:0043194)|basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|costamere (GO:0043034)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|intercalated disc (GO:0014704)|lateral plasma membrane (GO:0016328)|lysosome (GO:0005764)|neuromuscular junction (GO:0031594)|node of Ranvier (GO:0033268)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|sarcoplasmic reticulum (GO:0016529)|spectrin-associated cytoskeleton (GO:0014731)|T-tubule (GO:0030315)|Z disc (GO:0030018)	cadherin binding (GO:0045296)|cytoskeletal protein binding (GO:0008092)|ion channel binding (GO:0044325)|protein binding, bridging (GO:0030674)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)			NS(4)|breast(7)|central_nervous_system(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(5)|kidney(14)|large_intestine(30)|liver(2)|lung(59)|ovary(8)|pancreas(2)|prostate(5)|skin(26)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(7)	196						ATTTGCCAGCTTCTCCTTTGA	0.383																																																0													87	86	86					10																	61815749		2203	4300	6503	SO:0001819	synonymous_variant	288			U13616	CCDS7258.1, CCDS7259.1, CCDS55711.1, CCDS55712.1	10q21	2013-01-10			ENSG00000151150	ENSG00000151150		"Ankyrin repeat domain containing"	494	protein-coding gene	gene with protein product	"ankyrin-3, node of Ranvier", "ankyrin-G"	600465				7665168	Standard	NM_020987		Approved		uc001jky.3	Q12955	OTTHUMG00000018288	ENST00000280772.2:c.12732A>G	10.37:g.61815749T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B1AQT2|B4DIL1|E9PE32|Q13484|Q5CZH9|Q5VXD5|Q7Z3G4|Q9H0P5	Silent	SNP	ENST00000280772.2	37	CCDS7258.1																																																																																				0.383	ANK3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048201.4	NM_020987		C	61815749	T	C	61815749	2	2	672	1	0	0	0	0	0	0	0	1	622	1606	56	3		3	ANK3	10	61815749	Silent	SNP	T	TCGA-KN-8436-01A-11D-2310-10	17933481	61815749	73718998	73	43275										
NDST2	8509	broad.mit.edu	37	chr10	75563396	75563397	+	Frame_Shift_Ins	INS	-	-	G													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gatgatcttggctcgtggcaINSggagggcagccccccgccgt							TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr10:75563396_75563397insG	ENST00000309979.6	-	11	2633_2634	c.2077_2078insC	c.(2077-2079)ctgfs	p.L693fs	RP11-574K11.31_ENST00000603027.1_Frame_Shift_Ins_p.L693fs|ZSWIM8-AS1_ENST00000456638.2_RNA|NDST2_ENST00000299641.4_Frame_Shift_Ins_p.L570fs			P52849	NDST2_HUMAN	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 2	693	Heparan sulfate N-sulfotransferase 2.				carbohydrate metabolic process (GO:0005975)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan metabolic process (GO:0030203)|heparan sulfate proteoglycan biosynthetic process (GO:0015012)|heparin biosynthetic process (GO:0030210)|small molecule metabolic process (GO:0044281)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	[heparan sulfate]-glucosamine N-sulfotransferase activity (GO:0015016)|hydrolase activity (GO:0016787)			cervix(1)|endometrium(4)|kidney(1)|large_intestine(7)|lung(11)|ovary(2)|prostate(2)|skin(1)|urinary_tract(1)	30	Prostate(51;0.0112)					GGCTCGTGGCAGGAGGGCAGCC	0.535																																																0																																										SO:0001589	frameshift_variant	8509			U36601	CCDS7335.1	10q22	2007-03-14			ENSG00000166507	ENSG00000166507		"Sulfotransferases, membrane-bound"	7681	protein-coding gene	gene with protein product		603268				9601056	Standard	NM_003635		Approved	NST2, HSST2	uc001jvk.2	P52849	OTTHUMG00000018489	ENST00000309979.6:c.2078dupC	10.37:g.75563398_75563398dupG	ENSP00000310657:p.Leu693fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q2TB32|Q59H89	Frame_Shift_Ins	INS	ENST00000309979.6	37	CCDS7335.1																																																																																				0.535	NDST2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048710.1	NM_003635		G	75563397	-	G	75563396	7	5	672	1	0	1	1	0	0	0	0	0	10263	188	7	0	593	0	NDST2	10	75563396	Frame_Shift_Ins	INS	-	TCGA-KN-8436-01A-11D-2310-10	13747647	75563396	59971351	74	43276										
VTI1A	143187	mdanderson.org	37	chr10	114224340	114224340	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tttggaagtccgagagatacCaccccaaagtcgagggatgt	12	9	0	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr10:114224340C>T	ENST00000393077.2	+	3	304	c.188C>T	c.(187-189)cCa>cTa	p.P63L	VTI1A_ENST00000432306.1_Missense_Mutation_p.P63L	NM_145206.2	NP_660207.2	Q96AJ9	VTI1A_HUMAN	vesicle transport through interaction with t-SNAREs 1A	63					intracellular protein transport (GO:0006886)|retrograde transport, endosome to Golgi (GO:0042147)	clathrin-coated vesicle (GO:0030136)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|neuron projection terminus (GO:0044306)|neuronal cell body (GO:0043025)|perinuclear region of cytoplasm (GO:0048471)|SNARE complex (GO:0031201)|synaptic vesicle (GO:0008021)	SNAP receptor activity (GO:0005484)		VTI1A/TCF7L2(8)	breast(1)|large_intestine(1)|lung(2)|ovary(1)|skin(1)	6		Colorectal(252;0.0314)|Breast(234;0.183)		Epithelial(162;0.0126)|all cancers(201;0.0487)		CGAGAGATACCACCCCAAAGT	0.383			T	TCF7L2	colorectal																																		Dom	yes		10	10q25.2	143187	vesicle transport through interaction with t-SNAREs homolog 1A		E	0													117	108	111					10																	114224340		2203	4300	6503	SO:0001583	missense	143187			BC017052	CCDS7575.2	10q25.2	2012-12-10	2012-12-10		ENSG00000151532	ENSG00000151532			17792	protein-coding gene	gene with protein product		614316	"vesicle transport through interaction with t-SNAREs homolog 1A (yeast)"			9446565	Standard	NM_145206		Approved	MVti1, Vti1a, Vti1-rp2	uc001kzz.3	Q96AJ9	OTTHUMG00000019063	ENST00000393077.2:c.188C>T	10.37:g.114224340C>T	ENSP00000376792:p.Pro63Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A2A307|B4E137|Q5W0D7	Missense_Mutation	SNP	ENST00000393077.2	37	CCDS7575.2	.	.	.	.	.	.	.	.	.	.	C	27.5	4.839934	0.91117	.	.	ENSG00000151532	ENST00000393077;ENST00000432306	.	.	.	5.62	5.62	0.85841	t-SNARE (1);Vesicle transport v-SNARE, N-terminal (1);	0.000000	0.85682	D	0.000000	T	0.79661	0.4484	M	0.78456	2.415	0.80722	D	1	P;D	0.59767	0.899;0.986	P;D	0.64144	0.834;0.922	T	0.81154	-0.1062	9	0.66056	D	0.02	-30.1432	19.6486	0.95791	0.0:1.0:0.0:0.0	.	63;63	Q5W0D7;Q96AJ9	.;VTI1A_HUMAN	L	63	.	ENSP00000376792:P63L	P	+	2	0	VTI1A	114214330	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.141000	0.77330	2.646000	0.89796	0.591000	0.81541	CCA		0.383	VTI1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050397.2			T	114224340	C	T	114224340	3	4	672	1	0	0	0	0	1	0	0	0	17247	594	21	2	198	2	VTI1A	10	114224340	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	38660944	114224340	21310407	75	43277										
MUC6	4588	mdanderson.org	37	chr11	1016738	1016738	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gtagtgatgatgactgtgtgAgtacttggagtcaccaagga	14	5	1	4			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr11:1016738A>T	ENST00000421673.2	-	31	6113	c.6063T>A	c.(6061-6063)acT>acA	p.T2021T		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	2021	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		TGACTGTGTGAGTACTTGGAG	0.552																																																0													703	637	659					11																	1016738		2202	4294	6496	SO:0001819	synonymous_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.6063T>A	11.37:g.1016738A>T		Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Silent	SNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.552	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		T	1016738	A	T	1016738	2	4	672	1	0	0	0	0	0	0	0	1	9987	291	11	5		5	MUC6	11	1016738	Silent	SNP	A	TCGA-KN-8436-01A-11D-2310-10		1016738	133989778	76	43278			3	116		3	3	730	N	G_A	4.598539e-06
MUC6	4588	bcgsc.ca	37	chr11	1016809	1016809	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tgtggtctgagggtgtgatgGggttggataggtagtggtgg	22	1	1	2			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr11:1016809G>T	ENST00000421673.2	-	31	6042	c.5992C>A	c.(5992-5994)Cca>Aca	p.P1998T		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1998	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GGGTGTGATGGGGTTGGATAG	0.537																																																0													1427	1415	1419					11																	1016809		2203	4298	6501	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5992C>A	11.37:g.1016809G>T	ENSP00000406861:p.Pro1998Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	8.115	0.779667	0.16120	.	.	ENSG00000184956	ENST00000421673	T	0.16743	2.32	2.76	-1.01	0.10169	.	.	.	.	.	T	0.13372	0.0324	M	0.62723	1.935	0.09310	N	1	B	0.14438	0.01	B	0.06405	0.002	T	0.43798	-0.9369	9	0.08381	T	0.77	.	6.0025	0.19529	0.0:0.1776:0.4618:0.3606	.	1998	Q6W4X9	MUC6_HUMAN	T	1998	ENSP00000406861:P1998T	ENSP00000406861:P1998T	P	-	1	0	MUC6	1006809	0.000000	0.05858	0.002000	0.10522	0.025000	0.11179	-0.427000	0.06999	0.033000	0.15463	-0.864000	0.03007	CCA		0.537	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		T	1016809	G	T	1016809	3	4	672	1	0	0	0	0	1	0	0	0	9987	1232	43	4	1339	4	MUC6	11	1016809	Missense_Mutation	SNP	G	TCGA-KN-8436-01A-11D-2310-10	71	1016809	133989707	77	43279			3	116		3	3	730	N	G_A	4.598539e-06
MUC6	4588	mdanderson.org	37	chr11	1017467	1017467	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gtgtgggccacaggggttctGgtgcctgtactggtgtggtt	18	7	1	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr11:1017467G>T	ENST00000421673.2	-	31	5384	c.5334C>A	c.(5332-5334)acC>acA	p.T1778T		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1778	Approximate repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		CAGGGGTTCTGGTGCCTGTAC	0.582																																																0													485	485	485					11																	1017467		2202	4293	6495	SO:0001819	synonymous_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5334C>A	11.37:g.1017467G>T		Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Silent	SNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.582	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		T	1017467	G	T	1017467	2	4	672	1	0	0	0	0	0	0	0	1	9987	1335	47	4		4	MUC6	11	1017467	Silent	SNP	G	TCGA-KN-8436-01A-11D-2310-10	658	1017467	133989049	78	43280			3	116		3	3	730	N	G_A	4.598539e-06
CTSF	8722	broad.mit.edu;mdanderson.org	37	chr11	66335107	66335107	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	agcagcacgtgtcttccgagCtcatccaggacttggaagct	11	12	2	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr11:66335107C>T	ENST00000310325.5	-	3	448	c.339G>A	c.(337-339)gaG>gaA	p.E113E	CTSF_ENST00000533168.1_5'UTR	NM_003793.3	NP_003784.2	Q9UBX1	CATF_HUMAN	cathepsin F	113					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cell death (GO:0008219)|proteolysis (GO:0006508)	extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)|lysosome (GO:0005764)|vesicle (GO:0031982)	cysteine-type endopeptidase activity (GO:0004197)			endometrium(1)|large_intestine(7)|lung(8)|ovary(1)|stomach(1)|upper_aerodigestive_tract(1)	19						GTCTTCCGAGCTCATCCAGGA	0.612																																																0													69	71	71					11																	66335107		2200	4295	6495	SO:0001819	synonymous_variant	8722			AF071749	CCDS8144.1	11q13.2	2012-02-29			ENSG00000174080	ENSG00000174080		"Cathepsins"	2531	protein-coding gene	gene with protein product		603539				9822672, 10318784	Standard	NM_003793		Approved	CATSF, CLN13	uc001oip.3	Q9UBX1	OTTHUMG00000167090	ENST00000310325.5:c.339G>A	11.37:g.66335107C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R964|O95240|Q9NSU4|Q9UKQ5	Silent	SNP	ENST00000310325.5	37	CCDS8144.1																																																																																				0.612	CTSF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393047.1	NM_003793		T	66335107	C	T	66335107	2	4	672	1	0	0	0	0	0	0	0	1	4036	796	28	2		2	CTSF	11	66335107	Silent	SNP	C	TCGA-KN-8436-01A-11D-2310-10	65317640	66335107	68671409	79	43281										
RAD52	5893	mdanderson.org	37	chr12	1023070	1023070	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tctctgctacctgttgtgcgTtggtcagcgctataagtttg	11	9	2	0	rs373361304		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr12:1023070T>C	ENST00000358495.3	-	11	1323	c.1185A>G	c.(1183-1185)caA>caG	p.Q395Q	RAD52_ENST00000535376.1_5'UTR|RAD52_ENST00000430095.2_Silent_p.Q395Q|RAD52_ENST00000539046.1_Silent_p.Q318Q	NM_134424.2	NP_602296.2	P43351	RAD52_HUMAN	RAD52 homolog (S. cerevisiae)	395					DNA recombinase assembly (GO:0000730)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|identical protein binding (GO:0042802)			central_nervous_system(1)|endometrium(2)|large_intestine(5)|liver(1)|lung(7)|upper_aerodigestive_tract(1)|urinary_tract(2)	19	all_cancers(10;0.0119)|all_epithelial(11;0.0171)|all_lung(10;0.0521)|Ovarian(42;0.0816)|Lung NSC(10;0.0987)		OV - Ovarian serous cystadenocarcinoma(31;0.00123)|BRCA - Breast invasive adenocarcinoma(9;0.0323)			CTGTTGTGCGTTGGTCAGCGC	0.448								Homologous recombination																																								0								T		1,3895		0,1,1947	162	143	149		1185	-0.1	0	12		149	0,8312		0,0,4156	no	coding-synonymous	RAD52	NM_134424.2		0,1,6103	CC,CT,TT		0.0,0.0257,0.0082		395/419	1023070	1,12207	1948	4156	6104	SO:0001819	synonymous_variant	5893				CCDS8507.2	12p13-p12.2	2008-08-05	2001-11-28		ENSG00000002016	ENSG00000002016			9824	protein-coding gene	gene with protein product		600392	"RAD52 (S. cerevisiae) homolog"			7774919, 18313388	Standard	XM_005253721		Approved		uc001qis.1	P43351	OTTHUMG00000090361	ENST00000358495.3:c.1185A>G	12.37:g.1023070T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q13205|Q9Y5T7|Q9Y5T8|Q9Y5T9	Silent	SNP	ENST00000358495.3	37	CCDS8507.2																																																																																				0.448	RAD52-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206733.2	NM_134424		C	1023070	T	C	1023070	2	2	672	1	0	0	0	0	0	0	0	1	13004	1722	60	3		3	RAD52	12	1023070	Silent	SNP	T	TCGA-KN-8436-01A-11D-2310-10		1023070	132828825	80	43282										
TAS2R43	259289	mdanderson.org	37	chr12	11244591	11244591	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	attataagcagtagttcttaCttctacactattaaaagctg	5	7	2	0	rs73064968	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr12:11244591C>A	ENST00000531678.1	-	1	321	c.238G>T	c.(238-240)Gta>Tta	p.V80L	PRR4_ENST00000536668.1_Intron|TAS2R14_ENST00000381852.4_Intron	NM_176884.2	NP_795365.2	P59537	T2R43_HUMAN	taste receptor, type 2, member 43	80					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)|G-protein coupled receptor signaling pathway (GO:0007186)	integral component of membrane (GO:0016021)|motile cilium (GO:0031514)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)|taste receptor activity (GO:0008527)			endometrium(1)|ovary(1)|prostate(2)|urinary_tract(1)	5			OV - Ovarian serous cystadenocarcinoma(49;0.0344)	BRCA - Breast invasive adenocarcinoma(232;0.196)		GTAGTTCTTACTTCTACACTA	0.388																																																0													51	44	46					12																	11244591		1913	3938	5851	SO:0001583	missense	259289			AF494237	CCDS53749.1	12p13.2	2012-08-22				ENSG00000255374		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	18875	protein-coding gene	gene with protein product		612668				12379855	Standard	NM_176884		Approved	T2R52	uc001qzq.1	P59537		ENST00000531678.1:c.238G>T	12.37:g.11244591C>A	ENSP00000431719:p.Val80Leu	Somatic		WXS	Illumina HiSeq	Phase_I	P59546|Q645X4	Missense_Mutation	SNP	ENST00000531678.1	37	CCDS53749.1	.	.	.	.	.	.	.	.	.	.	-	1.743	-0.491269	0.04322	.	.	ENSG00000255374	ENST00000531678	T	0.33654	1.4	1.97	-0.554	0.11811	.	.	.	.	.	T	0.21962	0.0529	L	0.35542	1.07	0.80722	P	0.0	B	0.12630	0.006	B	0.17722	0.019	T	0.24941	-1.0146	8	0.27082	T	0.32	.	3.9175	0.09230	0.272:0.4604:0.2677:0.0	.	80	P59537	T2R43_HUMAN	L	80	ENSP00000431719:V80L	ENSP00000431719:V80L	V	-	1	0	TAS2R43	11135858	0.000000	0.05858	0.001000	0.08648	0.014000	0.08584	-0.905000	0.04075	-0.319000	0.08652	0.184000	0.17185	GTA		0.388	TAS2R43-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383561.1	NM_176884		A	11244591	C	A	11244591	3	1	672	1	0	0	0	0	1	0	0	0	15593	565	20	4	695	4	TAS2R43	12	11244591	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	10221521	11244591	122607304	81	43283										
GPRC5A	9052	mdanderson.org	37	chr12	13061805	13061805	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gttccttcacgggctggaagAgacatggggcccacatctac	12	12	2	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr12:13061805A>G	ENST00000014914.5	+	2	1512	c.622A>G	c.(622-624)Aga>Gga	p.R208G	GPRC5A_ENST00000542056.1_Intron	NM_003979.3	NP_003970.1	Q8NFJ5	RAI3_HUMAN	G protein-coupled receptor, class C, group 5, member A	208					signal transduction (GO:0007165)	cytoplasmic vesicle (GO:0031410)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|intracellular membrane-bounded organelle (GO:0043231)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			breast(2)|endometrium(3)|kidney(1)|large_intestine(4)|lung(6)|ovary(1)|upper_aerodigestive_tract(1)	18		Prostate(47;0.141)		BRCA - Breast invasive adenocarcinoma(232;0.0708)	Tretinoin(DB00755)	GGGCTGGAAGAGACATGGGGC	0.562																																																0													227	202	210					12																	13061805		2203	4300	6503	SO:0001583	missense	9052			AF095448	CCDS8657.1	12p13-p12.3	2014-01-30	2014-01-30	2005-05-03		ENSG00000013588		"GPCR / Class C : Orphans"	9836	protein-coding gene	gene with protein product		604138	"retinoic acid induced 3", "G protein-coupled receptor, family C, group 5, member A"	RAI3, GPCR5A		9857033	Standard	NM_003979		Approved	RAIG1	uc001rba.3	Q8NFJ5		ENST00000014914.5:c.622A>G	12.37:g.13061805A>G	ENSP00000014914:p.Arg208Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KV45|O95357	Missense_Mutation	SNP	ENST00000014914.5	37	CCDS8657.1	.	.	.	.	.	.	.	.	.	.	A	18.32	3.597318	0.66332	.	.	ENSG00000013588	ENST00000014914;ENST00000534831	D;D	0.88586	-2.4;-2.4	5.42	4.31	0.51392	GPCR, family 3, C-terminal (1);	0.130764	0.50627	D	0.000102	D	0.91496	0.7315	M	0.72894	2.215	0.46437	D	0.999044	D;D	0.54772	0.968;0.968	P;P	0.55303	0.773;0.628	D	0.91580	0.5278	10	0.48119	T	0.1	-20.2389	13.38	0.60762	0.8393:0.1607:0.0:0.0	.	208;208	Q8NFJ5;A8K556	RAI3_HUMAN;.	G	208	ENSP00000014914:R208G;ENSP00000441627:R208G	ENSP00000014914:R208G	R	+	1	2	GPRC5A	12953072	1.000000	0.71417	0.998000	0.56505	0.526000	0.34562	2.719000	0.47244	2.079000	0.62486	0.454000	0.30748	AGA		0.562	GPRC5A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400682.1			G	13061805	A	G	13061805	3	3	672	1	0	0	0	0	1	0	0	0	6731	296	11	3	624	3	GPRC5A	12	13061805	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	1817214	13061805	120790090	82	43284										
RECQL	5965	broad.mit.edu	37	chr12	21623272	21623272	+	Frame_Shift_Del	DEL	C	C	-													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tcagaatgacaagtttgagaCgattcagcctacaaaaaaaa							TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr12:21623272delC	ENST00000444129.2	-	15	2274	c.1806delG	c.(1804-1806)tcgfs	p.S603fs	PYROXD1_ENST00000538582.1_3'UTR|RECQL_ENST00000421138.2_Frame_Shift_Del_p.S603fs|PYROXD1_ENST00000240651.9_3'UTR	NM_002907.3|NM_032941.2	NP_002898.2|NP_116559.1	P46063	RECQ1_HUMAN	RecQ helicase-like	603					DNA duplex unwinding (GO:0032508)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|DNA strand renaturation (GO:0000733)	membrane (GO:0016020)|nucleus (GO:0005634)	annealing helicase activity (GO:0036310)|ATP binding (GO:0005524)|ATP-dependent 3'-5' DNA helicase activity (GO:0043140)|ATP-dependent DNA helicase activity (GO:0004003)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)			endometrium(2)|kidney(1)|large_intestine(4)|lung(5)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	17						AAGTTTGAGACGATTCAGCCT	0.333								Other identified genes with known or suspected DNA repair function																																								0													16	15	15					12																	21623272		2171	4280	6451	SO:0001589	frameshift_variant	5965			D37984	CCDS31756.1	12p12.1	2014-03-07	2014-03-07	2014-03-07	ENSG00000004700	ENSG00000004700			9948	protein-coding gene	gene with protein product	"DNA helicase Q1-like"	600537	"RecQ protein-like (DNA helicase Q1-like)"			7527136, 7961977	Standard	NM_002907		Approved	RecQ1, RecQL1	uc001rex.3	P46063	OTTHUMG00000169131	ENST00000444129.2:c.1806delG	12.37:g.21623272delC	ENSP00000416739:p.Ser603fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6G2	Frame_Shift_Del	DEL	ENST00000444129.2	37	CCDS31756.1																																																																																				0.333	RECQL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402371.1	NM_002907		-	21623272	C	-	21623272	7	5	672	1	0	1	0	1	0	0	0	0	13214	523	19	0	147	0	RECQL	12	21623272	Frame_Shift_Del	DEL	C	TCGA-KN-8436-01A-11D-2310-10	8561467	21623272	112228623	83	43285										
DENND5B	160518	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	31540710	31540710	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	caatggaatccactgtgggaGcaggcgatccctacagaccc	11	13	0	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr12:31540710G>A	ENST00000389082.5	-	21	3916	c.3652C>T	c.(3652-3654)Ctc>Ttc	p.L1218F	DENND5B_ENST00000306833.6_Missense_Mutation_p.L1253F|DENND5B_ENST00000536562.1_Missense_Mutation_p.L1253F	NM_144973.3	NP_659410.3	Q6ZUT9	DEN5B_HUMAN	DENN/MADD domain containing 5B	1218	RUN 2. {ECO:0000255|PROSITE- ProRule:PRU00178}.				positive regulation of Rab GTPase activity (GO:0032851)	integral component of membrane (GO:0016021)|membrane (GO:0016020)	Rab guanyl-nucleotide exchange factor activity (GO:0017112)			NS(2)|central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(8)|lung(17)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	38						CACTGTGGGAGCAGGCGATCC	0.517																																																0													74	71	72					12																	31540710		2034	4187	6221	SO:0001583	missense	160518			AF086301	CCDS44857.1	12p11.21	2012-10-03			ENSG00000170456	ENSG00000170456		"DENN/MADD domain containing"	28338	protein-coding gene	gene with protein product						12477932	Standard	NM_144973		Approved	MGC24039	uc001rki.1	Q6ZUT9	OTTHUMG00000169034	ENST00000389082.5:c.3652C>T	12.37:g.31540710G>A	ENSP00000373734:p.Leu1218Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B5ME75|Q59FW8|Q68CZ7|Q6NUJ0|Q7Z3F9|Q8N973|Q8WUC8	Missense_Mutation	SNP	ENST00000389082.5	37	CCDS44857.1	.	.	.	.	.	.	.	.	.	.	G	21.4	4.147927	0.78001	.	.	ENSG00000170456	ENST00000389082;ENST00000306833;ENST00000536562	T;T;T	0.68025	-0.3;-0.3;-0.3	5.29	5.29	0.74685	RUN (3);	0.000000	0.64402	D	0.000005	D	0.83408	0.5248	M	0.80183	2.485	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.85166	0.0995	10	0.87932	D	0	-37.8866	19.1165	0.93343	0.0:0.0:1.0:0.0	.	1218;1253	Q6ZUT9;G3V1S3	DEN5B_HUMAN;.	F	1218;1253;1253	ENSP00000373734:L1218F;ENSP00000306482:L1253F;ENSP00000444889:L1253F	ENSP00000306482:L1253F	L	-	1	0	DENND5B	31431977	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.173000	0.65010	2.761000	0.94854	0.655000	0.94253	CTC		0.517	DENND5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402040.1	NM_144973		A	31540710	G	A	31540710	3	1	672	1	0	0	0	0	1	0	0	0	4439	971	34	2	176	2	DENND5B	12	31540710	Missense_Mutation	SNP	G	TCGA-KN-8436-01A-11D-2310-10	9917438	31540710	102311185	84	43286										
C12orf35	55196	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr12	32136955	32136955	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	attcaggaggatatttacccTcaggaaatagatgcatccag	9	8	2	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr12:32136955T>A	ENST00000312561.4	+	4	3480	c.3066T>A	c.(3064-3066)ccT>ccA	p.P1022P	KIAA1551_ENST00000535596.1_Intron	NM_018169.3	NP_060639	Q9HCM1	K1551_HUMAN	KIAA1551	1022																	ATATTTACCCTCAGGAAATAG	0.433																																																0													72	68	69					12																	32136955		2203	4299	6502	SO:0001819	synonymous_variant	55196			AK001514	CCDS8725.2	12p11.21	2012-08-14	2012-08-14	2012-08-14	ENSG00000174718	ENSG00000174718			25559	protein-coding gene	gene with protein product			"chromosome 12 open reading frame 35"	C12orf35		10997877	Standard	NM_018169		Approved	FLJ20696, FLJ10652	uc001rks.3	Q9HCM1	OTTHUMG00000128501	ENST00000312561.4:c.3066T>A	12.37:g.32136955T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RTU5|Q4KN17|Q9NVL6|Q9NWP9	Silent	SNP	ENST00000312561.4	37	CCDS8725.2																																																																																				0.433	KIAA1551-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250307.2	NM_018169		A	32136955	T	A	32136955	2	1	672	1	0	0	0	0	0	0	0	1	1684	1538	54	5		5	C12orf35	12	32136955	Silent	SNP	T	TCGA-KN-8436-01A-11D-2310-10	596245	32136955	101714940	85	43287										
KRT6C	286887	mdanderson.org	37	chr12	52867105	52867105	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gtcaggagactctggttgacGgtgacctcttggatgcctcc	13	11	3	3	rs1053684		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr12:52867105G>A	ENST00000252250.6	-	1	464	c.417C>T	c.(415-417)acC>acT	p.T139T		NM_173086.4	NP_775109.2	P48668	K2C6C_HUMAN	keratin 6C	139	Head.				intermediate filament cytoskeleton organization (GO:0045104)	extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)|keratin filament (GO:0045095)	structural molecule activity (GO:0005198)			cervix(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(6)|ovary(3)|prostate(2)|skin(2)	23				BRCA - Breast invasive adenocarcinoma(357;0.0828)		TCTGGTTGACGGTGACCTCTT	0.637																																																0													51	34	41					12																	52867105		2149	3730	5879	SO:0001819	synonymous_variant	286887			L42611	CCDS8829.1	12q13.13	2013-01-16	2006-07-17	2006-07-17	ENSG00000170465	ENSG00000170465		"-", "Intermediate filaments type II, keratins (basic)"	20406	protein-coding gene	gene with protein product		612315	"keratin 6E"	KRT6E		7543104, 16831889	Standard	NM_173086		Approved		uc001sal.4	P48668	OTTHUMG00000169596	ENST00000252250.6:c.417C>T	12.37:g.52867105G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A1L4L5|P48666|Q2TAZ9|Q7RTN9	Silent	SNP	ENST00000252250.6	37	CCDS8829.1																																																																																				0.637	KRT6C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404976.1	NM_173086		A	52867105	G	A	52867105	2	1	672	1	0	0	0	0	0	0	0	1	8489	1103	39	1		1	KRT6C	12	52867105	Silent	SNP	G	TCGA-KN-8436-01A-11D-2310-10	20730150	52867105	80984790	86	43288										
KRT6A	3853	mdanderson.org	37	chr12	52886556	52886556	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gtcaggagactctggttgacGgtgacctcttggatgcctcc	13	11	3	3	rs1707768		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr12:52886556G>A	ENST00000330722.6	-	1	485	c.417C>T	c.(415-417)acC>acT	p.T139T		NM_005554.3	NP_005545.1	P02538	K2C6A_HUMAN	keratin 6A	139	Head.				cell differentiation (GO:0030154)|positive regulation of cell proliferation (GO:0008284)	extracellular vesicular exosome (GO:0070062)|keratin filament (GO:0045095)|membrane (GO:0016020)|nucleus (GO:0005634)	structural constituent of cytoskeleton (GO:0005200)			breast(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|liver(1)|lung(14)|ovary(4)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	39				BRCA - Breast invasive adenocarcinoma(357;0.189)		TCTGGTTGACGGTGACCTCTT	0.622																																																0													109	105	106					12																	52886556		2203	4300	6503	SO:0001819	synonymous_variant	3853			BC014152, L42593, L42610	CCDS41786.1	12q13.13	2013-01-16			ENSG00000205420	ENSG00000205420		"-", "Intermediate filaments type II, keratins (basic)"	6443	protein-coding gene	gene with protein product		148041	"keratin 6C", "keratin 6D"	KRT6C, KRT6D		1713141, 16831889	Standard	NM_005554		Approved	CK6C, K6C, CK6D, K6D	uc001sam.3	P02538	OTTHUMG00000169597	ENST00000330722.6:c.417C>T	12.37:g.52886556G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4QPC1|P48667|Q08AR4|Q6NT67|Q96CL4	Silent	SNP	ENST00000330722.6	37	CCDS41786.1																																																																																				0.622	KRT6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404978.2	NM_005554		A	52886556	G	A	52886556	2	1	672	1	0	0	0	0	0	0	0	1	8487	1103	39	1		1	KRT6A	12	52886556	Silent	SNP	G	TCGA-KN-8436-01A-11D-2310-10	19451	52886556	80965339	87	43289										
KRT76	51350	mdanderson.org	37	chr12	53165930	53165930	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tgctcctctgggcaatctccTcatactgggcgcggacctcg	11	15	3	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr12:53165930T>C	ENST00000332411.2	-	5	1138	c.1085A>G	c.(1084-1086)gAg>gGg	p.E362G		NM_015848.4	NP_056932.2	Q01546	K22O_HUMAN	keratin 76	362	Coil 2.|Rod.				cytoskeleton organization (GO:0007010)	extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)|keratin filament (GO:0045095)|nucleus (GO:0005634)	structural molecule activity (GO:0005198)			breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(10)|prostate(1)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	27						GGCAATCTCCTCATACTGGGC	0.567																																																0													93	81	85					12																	53165930		2203	4300	6503	SO:0001583	missense	51350			M99063	CCDS8838.1	12q13.13	2013-06-25			ENSG00000185069	ENSG00000185069		"-", "Intermediate filaments type II, keratins (basic)"	24430	protein-coding gene	gene with protein product						1282112, 16831889	Standard	NM_015848		Approved	HUMCYT2A, KRT2B, KRT2P	uc001sax.3	Q01546	OTTHUMG00000169797	ENST00000332411.2:c.1085A>G	12.37:g.53165930T>C	ENSP00000330101:p.Glu362Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRR3|Q7Z795	Missense_Mutation	SNP	ENST00000332411.2	37	CCDS8838.1	.	.	.	.	.	.	.	.	.	.	T	17.38	3.375478	0.61735	.	.	ENSG00000185069	ENST00000332411	D	0.93133	-3.17	4.42	4.42	0.53409	Filament (1);	0.000000	0.44688	D	0.000427	D	0.97736	0.9257	H	0.97186	3.955	0.53005	D	0.99996	D	0.89917	1.0	D	0.79108	0.992	D	0.99004	1.0812	10	0.87932	D	0	.	14.3579	0.66750	0.0:0.0:0.0:1.0	.	362	Q01546	K22O_HUMAN	G	362	ENSP00000330101:E362G	ENSP00000330101:E362G	E	-	2	0	KRT76	51452197	1.000000	0.71417	0.969000	0.41365	0.186000	0.23388	8.037000	0.88933	1.942000	0.56320	0.379000	0.24179	GAG		0.567	KRT76-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405928.1	NM_015848		C	53165930	T	C	53165930	3	2	672	1	0	0	0	0	1	0	0	0	8496	1551	54	3	851	3	KRT76	12	53165930	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	279374	53165930	80685965	88	43290										
C12orf64	283310	hgsc.bcm.edu;ucsc.edu	37	chr12	80655788	80655788	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gaaggtacaccacaacttcaCgcaaatgcgtggagagtttc	10	10	1	1	rs150597873		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr12:80655788C>T	ENST00000547103.1	+	18	1908	c.1902C>T	c.(1900-1902)caC>caT	p.H634H	OTOGL_ENST00000458043.2_Silent_p.H634H			Q3ZCN5	OTOGL_HUMAN	otogelin-like	634	VWFD 2. {ECO:0000255|PROSITE- ProRule:PRU00580}.				L-arabinose metabolic process (GO:0046373)	extracellular region (GO:0005576)	alpha-L-arabinofuranosidase activity (GO:0046556)			breast(1)|endometrium(3)|kidney(2)|large_intestine(2)|lung(14)|prostate(1)	23						CACAACTTCACGCAAATGCGT	0.413													C|||	1	0.000199681	0.0	0.0	5008	,	,		15144	0.0		0.0	False		,,,				2504	0.001															0													137	138	138					12																	80655788		1932	4131	6063	SO:0001819	synonymous_variant	283310			AK096852		12q21.31	2011-02-11	2011-02-11	2011-02-11	ENSG00000165899	ENSG00000165899			26901	protein-coding gene	gene with protein product		614925	"chromosome 12 open reading frame 64"	C12orf64			Standard	NM_173591		Approved	FLJ90579	uc001szd.3	Q3ZCN5	OTTHUMG00000150509	ENST00000547103.1:c.1902C>T	12.37:g.80655788C>T		Somatic		WXS	Illumina HiSeq	Phase_I	F8W0C3|Q495U8|Q8N8G5|Q8NC28	Silent	SNP	ENST00000547103.1	37																																																																																					0.413	OTOGL-001	NOVEL	not_organism_supported|basic	protein_coding	protein_coding	OTTHUMT00000407438.1	NM_173591		T	80655788	C	T	80655788	2	4	672	1	0	0	0	0	0	0	0	1	1709	535	19	1		1	C12orf64	12	80655788	Silent	SNP	C	TCGA-KN-8436-01A-11D-2310-10	27489858	80655788	53196107	89	43291										
ACSS3	79611	broad.mit.edu;mdanderson.org	37	chr12	81503375	81503375	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cttaacatttgttacaatgcCgttgatcgtcatattgaaaa	6	7	1	2			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr12:81503375C>T	ENST00000548058.1	+	2	1258	c.348C>T	c.(346-348)gcC>gcT	p.A116A	ACSS3_ENST00000261206.3_Silent_p.A115A|RP11-543H12.1_ENST00000547123.1_RNA			Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	116						mitochondrion (GO:0005739)	acetate-CoA ligase activity (GO:0003987)|ATP binding (GO:0005524)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(5)|kidney(2)|large_intestine(7)|liver(3)|lung(20)|ovary(1)|skin(4)|upper_aerodigestive_tract(2)	51						GTTACAATGCCGTTGATCGTC	0.328																																																0													107	105	105					12																	81503375		2203	4299	6502	SO:0001819	synonymous_variant	79611				CCDS9022.1	12q21.31	2014-08-08			ENSG00000111058	ENSG00000111058		"Acyl-CoA synthetase family"	24723	protein-coding gene	gene with protein product		614356				17762044	Standard	NM_024560		Approved	FLJ21963	uc001szl.1	Q9H6R3	OTTHUMG00000170179	ENST00000548058.1:c.348C>T	12.37:g.81503375C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC66	Silent	SNP	ENST00000548058.1	37	CCDS9022.1																																																																																				0.328	ACSS3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000407794.1	NM_024560		T	81503375	C	T	81503375	2	4	672	1	0	0	0	0	0	0	0	1	190	639	23	1		1	ACSS3	12	81503375	Silent	SNP	C	TCGA-KN-8436-01A-11D-2310-10	847587	81503375	52348520	90	43292										
HVCN1	84329	broad.mit.edu	37	chr12	111099110	111099112	+	In_Frame_Del	DEL	CTC	CTC	-													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	actggtgtgggtggtggctgCtcctcctcctcctcctcctc							TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr12:111099110_111099112delCTC	ENST00000356742.5	-	3	916_918	c.163_165delGAG	c.(163-165)gagdel	p.E55del	HVCN1_ENST00000242607.8_In_Frame_Del_p.E55del|HVCN1_ENST00000439744.2_In_Frame_Del_p.E35del|HVCN1_ENST00000548312.1_In_Frame_Del_p.E55del			Q96D96	HVCN1_HUMAN	hydrogen voltage-gated channel 1	55	Poly-Glu.				cellular response to pH (GO:0071467)|cellular response to zinc ion (GO:0071294)|multicellular organism reproduction (GO:0032504)|proton transport (GO:0015992)|response to pH (GO:0009268)|response to zinc ion (GO:0010043)|single fertilization (GO:0007338)|sperm-egg recognition (GO:0035036)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	voltage-gated cation channel activity (GO:0022843)|voltage-gated proton channel activity (GO:0030171)			NS(1)|breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(5)|lung(6)|prostate(1)|skin(1)	19						GTGGTGGCTGctcctcctcctcc	0.606																																																0																																										SO:0001651	inframe_deletion	84329			BC007277	CCDS31900.1, CCDS58278.1	12q24.11	2011-12-09	2006-03-24	2006-03-24	ENSG00000122986	ENSG00000122986		"Voltage-gated ion channels / Hydrogen voltage-gated channel"	28240	protein-coding gene	gene with protein product	"voltage sensor domain-only protein"	611227				20961760, 16556803, 18356202, 22020278	Standard	NM_032369		Approved	MGC15619, Hv1, VSOP	uc001trs.2	Q96D96		ENST00000356742.5:c.163_165delGAG	12.37:g.111099119_111099121delCTC	ENSP00000349181:p.Glu55del	Somatic		WXS	Illumina HiSeq	Phase_I	A8MQ37|B4DEB3|F8WCH5|Q6UW11|Q96IS5	In_Frame_Del	DEL	ENST00000356742.5	37	CCDS31900.1																																																																																				0.606	HVCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404653.1	NM_032369		-	111099112	CTC	-	111099110	7	5	672	1	0	1	0	1	0	0	0	0	7469	796	28	0	676	0	HVCN1	12	111099110	In_Frame_Del	DEL	CTC	TCGA-KN-8436-01A-11D-2310-10	29595735	111099110	22752785	91	43293										
CCDC64	92558	mdanderson.org	37	chr12	120530940	120530940	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	catcgctgaaggcaaacgacTcttctcattcttcaggaaaa	7	11	4	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr12:120530940T>C	ENST00000397558.2	+	9	1697	c.1697T>C	c.(1696-1698)cTc>cCc	p.L566P	CCDC64_ENST00000257583.4_Missense_Mutation_p.L263P|CCDC64_ENST00000546857.1_3'UTR|CCDC64_ENST00000446727.2_Missense_Mutation_p.L237P	NM_207311.2	NP_997194.2	Q6ZP65	BICR1_HUMAN	coiled-coil domain containing 64	566					Golgi to secretory granule transport (GO:0055107)|neuron projection development (GO:0031175)	centrosome (GO:0005813)|cytoplasm (GO:0005737)	dynactin binding (GO:0034452)|Rab GTPase binding (GO:0017137)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|liver(2)|lung(4)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	22	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GGCAAACGACTCTTCTCATTC	0.612																																																0													27	32	30					12																	120530940		2008	4157	6165	SO:0001583	missense	92558			U88834, AK129960	CCDS41845.1	12q24.23	2006-01-24				ENSG00000135127			28095	protein-coding gene	gene with protein product							Standard	NM_207311		Approved	FLJ26450	uc001txl.1	Q6ZP65	OTTHUMG00000169311	ENST00000397558.2:c.1697T>C	12.37:g.120530940T>C	ENSP00000380690:p.Leu566Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUC8|B4DWL0|B5MDJ0|O95000	Missense_Mutation	SNP	ENST00000397558.2	37	CCDS41845.1	.	.	.	.	.	.	.	.	.	.	T	21.8	4.199926	0.79015	.	.	ENSG00000135127	ENST00000397558;ENST00000446727;ENST00000548673;ENST00000257583	T;T	0.62364	0.61;0.03	4.9	4.9	0.64082	.	1.075700	0.07390	U	0.888905	T	0.76371	0.3978	L	0.50333	1.59	0.80722	D	1	D;D;D	0.71674	0.993;0.998;0.998	P;D;D	0.69142	0.858;0.962;0.914	T	0.67887	-0.5554	10	0.72032	D	0.01	-0.4316	14.6842	0.69037	0.0:0.0:0.0:1.0	.	263;237;566	B4DWL0;B4DNE7;Q6ZP65	.;.;BICR1_HUMAN	P	566;237;284;263	ENSP00000380690:L566P;ENSP00000399658:L237P	ENSP00000257583:L263P	L	+	2	0	CCDC64	119015323	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	5.852000	0.69488	2.054000	0.61138	0.459000	0.35465	CTC		0.612	CCDC64-001	NOVEL	not_organism_supported|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000403390.2	NM_207311		C	120530940	T	C	120530940	3	2	672	1	0	0	0	0	1	0	0	0	2837	1551	54	3	1731	3	CCDC64	12	120530940	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	9431830	120530940	13320955	92	43294										
ZMYM2	7750	mdanderson.org	37	chr13	20579236	20579236	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	atataactacaatgaaaggaAccattgttgctcaagtggat	8	6	1	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr13:20579236A>G	ENST00000382874.2	+	6	1346	c.1156A>G	c.(1156-1158)Acc>Gcc	p.T386A	ZMYM2_ENST00000382869.3_Missense_Mutation_p.T386A|ZMYM2_ENST00000382871.2_Missense_Mutation_p.T386A|ZMYM2_ENST00000382881.3_Missense_Mutation_p.T299A|ZMYM2_ENST00000382883.3_5'Flank	NM_001190964.1	NP_001177893.1	Q9UBW7	ZMYM2_HUMAN	zinc finger, MYM-type 2	386					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytosol (GO:0005829)|PML body (GO:0016605)	ubiquitin conjugating enzyme binding (GO:0031624)|zinc ion binding (GO:0008270)			large_intestine(3)|lung(3)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	10		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		AATGAAAGGAACCATTGTTGC	0.313																																																0													89	87	88					13																	20579236		1813	4065	5878	SO:0001583	missense	7750			AF012126	CCDS45016.1	13q11-q12	2013-01-08	2006-07-13	2006-07-13	ENSG00000121741	ENSG00000121741		"Zinc fingers, MYM type"	12989	protein-coding gene	gene with protein product		602221	"zinc finger protein 198"	ZNF198		9499416, 9425908	Standard	XM_005266517		Approved	RAMP, FIM, MYM	uc001ums.3	Q9UBW7	OTTHUMG00000016507	ENST00000382874.2:c.1156A>G	13.37:g.20579236A>G	ENSP00000372327:p.Thr386Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDG0|A6NI02|O43212|O43434|O60898|Q5W0Q4|Q5W0T3|Q63HP0|Q8NE39|Q9H0V5|Q9H538|Q9UEU2	Missense_Mutation	SNP	ENST00000382874.2	37	CCDS45016.1	.	.	.	.	.	.	.	.	.	.	A	20.7	4.030264	0.75504	.	.	ENSG00000121741	ENST00000382869;ENST00000456228;ENST00000382881;ENST00000382874;ENST00000382871	T;T;T;T	0.18338	2.22;2.23;2.22;2.22	5.15	5.15	0.70609	TRASH (1);Zinc finger, MYM-type (1);	0.000000	0.85682	D	0.000000	T	0.22820	0.0551	L	0.34521	1.04	0.80722	D	1	P;B	0.41498	0.752;0.423	P;B	0.51866	0.682;0.076	T	0.03231	-1.1058	10	0.17832	T	0.49	6.0766	14.9966	0.71436	1.0:0.0:0.0:0.0	.	386;299	Q9UBW7;Q9UBW7-2	ZMYM2_HUMAN;.	A	386;386;299;386;386	ENSP00000372322:T386A;ENSP00000372334:T299A;ENSP00000372327:T386A;ENSP00000372324:T386A	ENSP00000372322:T386A	T	+	1	0	ZMYM2	19477236	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	8.850000	0.92190	1.928000	0.55862	0.482000	0.46254	ACC		0.313	ZMYM2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044051.2	NM_003453		G	20579236	A	G	20579236	3	3	672	1	0	0	0	0	1	0	0	0	17712	43	2	3	1166	3	ZMYM2	13	20579236	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10		20579236	94590642	93	43295										
PABPC3	5042	mdanderson.org	37	chr13	25671925	25671925	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	acaagttacaatgcaacagcTtgctgttcatgtacaaggtc	8	9	1	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr13:25671925T>C	ENST00000281589.3	+	1	1626	c.1589T>C	c.(1588-1590)cTt>cCt	p.L530P		NM_030979.2	NP_112241.2	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	530					mRNA metabolic process (GO:0016071)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)			breast(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(21)|ovary(4)|pancreas(1)|skin(3)	47		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)		ATGCAACAGCTTGCTGTTCAT	0.498																																																0													95	87	90					13																	25671925		2203	4300	6503	SO:0001583	missense	5042			AF132026	CCDS9311.1	13q12-q13	2013-02-12	2001-11-28		ENSG00000151846	ENSG00000151846		"RNA binding motif (RRM) containing"	8556	protein-coding gene	gene with protein product	"testis PABP"	604680	"poly(A)-binding protein, cytoplasmic 3"	PABPL3		8432538, 10543404	Standard	NM_030979		Approved	PABP3, tPABP	uc001upy.3	Q9H361	OTTHUMG00000016601	ENST00000281589.3:c.1589T>C	13.37:g.25671925T>C	ENSP00000281589:p.Leu530Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHV0|Q9H086	Missense_Mutation	SNP	ENST00000281589.3	37	CCDS9311.1	.	.	.	.	.	.	.	.	.	.	C	0.004	-2.288930	0.00248	.	.	ENSG00000151846	ENST00000281589	T	0.38077	1.16	0.875	0.875	0.19130	Polyadenylate-binding protein/Hyperplastic disc protein (1);	0.135210	0.32190	N	0.006446	T	0.05181	0.0138	N	0.00095	-2.16	0.31136	N	0.707216	B	0.02656	0.0	B	0.01281	0.0	T	0.37220	-0.9715	10	0.02654	T	1	.	5.2647	0.15593	0.0:0.7663:0.0:0.2337	.	530	Q9H361	PABP3_HUMAN	P	530	ENSP00000281589:L530P	ENSP00000281589:L530P	L	+	2	0	PABPC3	24569925	1.000000	0.71417	0.979000	0.43373	0.086000	0.17979	2.056000	0.41355	-0.049000	0.13379	-0.642000	0.03964	CTT		0.498	PABPC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044220.2	NM_030979		C	25671925	T	C	25671925	3	2	672	1	0	0	0	0	1	0	0	0	11372	1609	56	3	1591	3	PABPC3	13	25671925	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	5092689	25671925	89497953	94	43296										
ALG11	440138	mdanderson.org;bcgsc.ca	37	chr13	52586578	52586578	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gcggccggcgaaaggagctgGtgcctgtgcaagttgttgag	18	8	0	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr13:52586578G>T	ENST00000521508.1	+	1	29	c.24G>T	c.(22-24)tgG>tgT	p.W8C	ATP7B_ENST00000400366.3_5'Flank|ATP7B_ENST00000448424.2_5'Flank|ALG11_ENST00000523764.1_Missense_Mutation_p.W8C|ATP7B_ENST00000344297.5_5'Flank|ATP7B_ENST00000400370.3_5'Flank|ATP7B_ENST00000418097.2_5'Flank|ATP7B_ENST00000242839.4_5'Flank	NM_001004127.2	NP_001004127.2	Q2TAA5	ALG11_HUMAN	ALG11, alpha-1,2-mannosyltransferase	8					cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	GDP-Man:Man3GlcNAc2-PP-Dol alpha-1,2-mannosyltransferase activity (GO:0004377)			endometrium(1)|large_intestine(6)|lung(4)|ovary(2)	13		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;2.44e-08)		AAAGGAGCTGGTGCCTGTGCA	0.562																																																0													88	82	84					13																	52586578		2203	4300	6503	SO:0001583	missense	440138			AK025456	CCDS31977.1	13q14.3	2013-02-22	2013-02-22		ENSG00000253710	ENSG00000253710	2.4.1.131	"Glycosyltransferase group 1 domain containing"	32456	protein-coding gene	gene with protein product	"GDP-Man:Man(3)GlcNAc(2)-PP-dolichol alpha-1,2-mannosyltransferase"	613666	"asparagine-linked glycosylation 11 homolog (S. cerevisiae, alpha-1,2-mannosyltransferase)", "asparagine-linked glycosylation 11, alpha-1,2-mannosyltransferase homolog (yeast)"			20080937	Standard	NM_001004127		Approved	KIAA0266		Q2TAA5	OTTHUMG00000016959	ENST00000521508.1:c.24G>T	13.37:g.52586578G>T	ENSP00000430236:p.Trp8Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A5PLP3|B4DKW9|Q5TAN9|Q6DKI6|Q96FI7	Missense_Mutation	SNP	ENST00000521508.1	37	CCDS31977.1	.	.	.	.	.	.	.	.	.	.	G	6.786	0.513952	0.12944	.	.	ENSG00000253710	ENST00000523764;ENST00000521508	T;T	0.76316	0.67;-1.01	5.1	5.1	0.69264	.	0.645519	0.13472	U	0.385360	T	0.73969	0.3655	L	0.44542	1.39	0.41399	D	0.987666	P	0.51653	0.947	B	0.43360	0.417	T	0.76849	-0.2807	10	0.72032	D	0.01	.	14.2046	0.65725	0.0:0.0:1.0:0.0	.	8	Q2TAA5	ALG11_HUMAN	C	8	ENSP00000429497:W8C;ENSP00000430236:W8C	ENSP00000430236:W8C	W	+	3	0	ALG11	51484579	0.967000	0.33354	0.839000	0.33178	0.006000	0.05464	2.613000	0.46351	2.818000	0.97014	0.591000	0.81541	TGG		0.562	ALG11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045050.1	NM_001004127		T	52586578	G	T	52586578	3	4	672	1	0	0	0	0	1	0	0	0	513	1270	44	4	26	4	ALG11	13	52586578	Missense_Mutation	SNP	G	TCGA-KN-8436-01A-11D-2310-10	26914653	52586578	62583300	95	43297										
TGM1	7051	mdanderson.org	37	chr14	24730943	24730943	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gcgatcagaggattcataggTccgggacaggaggaggagca	17	7	2	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr14:24730943T>C	ENST00000206765.6	-	3	589	c.466A>G	c.(466-468)Acc>Gcc	p.T156A	TGM1_ENST00000544573.1_Intron	NM_000359.2	NP_000350.1	P22735	TGM1_HUMAN	transglutaminase 1	156					cell envelope organization (GO:0043163)|cellular protein modification process (GO:0006464)|keratinization (GO:0031424)|keratinocyte differentiation (GO:0030216)|organ morphogenesis (GO:0009887)|peptide cross-linking (GO:0018149)	cell-cell adherens junction (GO:0005913)|cornified envelope (GO:0001533)|extracellular vesicular exosome (GO:0070062)|intrinsic component of membrane (GO:0031224)	metal ion binding (GO:0046872)|protein-glutamine gamma-glutamyltransferase activity (GO:0003810)			breast(1)|central_nervous_system(3)|endometrium(3)|kidney(1)|large_intestine(5)|lung(7)|ovary(2)|prostate(2)	24				GBM - Glioblastoma multiforme(265;0.0186)	L-Glutamine(DB00130)	GATTCATAGGTCCGGGACAGG	0.587																																																0													130	115	120					14																	24730943		2203	4300	6503	SO:0001583	missense	7051			D90287	CCDS9622.1	14q11.2	2013-05-02	2013-05-02		ENSG00000092295	ENSG00000092295	2.3.2.13	"Transglutaminases"	11777	protein-coding gene	gene with protein product	"K polypeptide epidermal type I, protein-glutamine-gamma-glutamyltransferase"	190195	"transglutaminase 1 (K polypeptide epidermal type I, protein-glutamine-gamma-glutamyltransferase)"	ICR2		11390390	Standard	NM_000359		Approved	TGASE, TGK, LI, LI1	uc001wod.3	P22735	OTTHUMG00000029329	ENST00000206765.6:c.466A>G	14.37:g.24730943T>C	ENSP00000206765:p.Thr156Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4DWR7|Q197M4	Missense_Mutation	SNP	ENST00000206765.6	37	CCDS9622.1	.	.	.	.	.	.	.	.	.	.	T	10.20	1.285567	0.23478	.	.	ENSG00000092295	ENST00000206765	D	0.85484	-1.99	5.09	-0.61	0.11604	Immunoglobulin E-set (1);Transglutaminase, N-terminal (1);Immunoglobulin-like fold (1);	0.496526	0.22150	N	0.063938	T	0.54581	0.1867	N	0.00661	-1.28	0.48185	D	0.999601	B	0.02656	0.0	B	0.01281	0.0	T	0.20571	-1.0271	10	0.33940	T	0.23	-0.5356	6.6344	0.22875	0.0767:0.467:0.3411:0.1152	.	156	P22735	TGM1_HUMAN	A	156	ENSP00000206765:T156A	ENSP00000206765:T156A	T	-	1	0	TGM1	23800783	0.944000	0.32072	0.008000	0.14137	0.592000	0.36648	1.180000	0.32005	-0.465000	0.06953	-0.648000	0.03929	ACC		0.587	TGM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000073160.6	NM_000359		C	24730943	T	C	24730943	3	2	672	1	0	0	0	0	1	0	0	0	15841	1667	58	3	2039	3	TGM1	14	24730943	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10		24730943	82618597	96	43298										
NIN	51199	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr14	51196406	51196406	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	aaatcccaagcatgaggggaCgggctaggcgtcgcagtgga	16	9	0	1	rs145555295		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr14:51196406C>T	ENST00000382041.3	-	29	6103	c.5913G>A	c.(5911-5913)ccG>ccA	p.P1971P	NIN_ENST00000530997.2_Silent_p.P1971P|NIN_ENST00000245441.5_Silent_p.P1971P|NIN_ENST00000382043.4_Silent_p.P1258P|NIN_ENST00000453196.1_Silent_p.P1971P|NIN_ENST00000389868.3_3'UTR|NIN_ENST00000324330.9_3'UTR	NM_016350.4|NM_182946.1	NP_057434.4|NP_891991	Q8N4C6	NIN_HUMAN	ninein (GSK3B interacting protein)	1971					centrosome localization (GO:0051642)|centrosome-templated microtubule nucleation (GO:0090222)|microtubule anchoring at centrosome (GO:0034454)	centriole (GO:0005814)|centrosome (GO:0005813)|microtubule (GO:0005874)|nucleolus (GO:0005730)|spindle pole (GO:0000922)	calcium ion binding (GO:0005509)|GTP binding (GO:0005525)			breast(4)|central_nervous_system(1)|cervix(2)|endometrium(10)|kidney(5)|large_intestine(13)|lung(16)|ovary(1)|pancreas(1)|prostate(5)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(5)	71	all_epithelial(31;0.00244)|Breast(41;0.127)					CATGAGGGGACGGGCTAGGCG	0.597			T	PDGFRB	MPD								C|||	1	0.000199681	0.0	0.0014	5008	,	,		14363	0.0		0.0	False		,,,				2504	0.0						Dom	yes		14	14q24	51199	ninein (GSK3B interacting protein)		L	0								C	,,,	0,4406		0,0,2203	69	58	62		3774,5913,5913,5913	-10.5	0	14	dbSNP_134	62	5,8595	4.3+/-15.6	0,5,4295	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	NIN	NM_016350.4,NM_020921.3,NM_182944.2,NM_182946.1	,,,	0,5,6498	TT,TC,CC		0.0581,0.0,0.0384	,,,	1258/1378,1971/2134,1971/2047,1971/2091	51196406	5,13001	2203	4300	6503	SO:0001819	synonymous_variant	51199			AF212162	CCDS32078.1, CCDS32079.1, CCDS32078.2	14q21-q22	2013-01-10			ENSG00000100503	ENSG00000100503		"EF-hand domain containing"	14906	protein-coding gene	gene with protein product		608684				11004522, 11162463	Standard	NM_020921		Approved		uc001wyi.3	Q8N4C6	OTTHUMG00000029569	ENST00000382041.3:c.5913G>A	14.37:g.51196406C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NDB8|B7WPA3|C9JSB6|C9JSG2|C9JXL2|Q5BKU3|Q6P0P6|Q9BWU6|Q9C012|Q9C013|Q9C014|Q9H5I6|Q9HAT7|Q9HBY5|Q9HCK7|Q9UH61	Silent	SNP	ENST00000382041.3	37	CCDS32079.1	1	4.578754578754579E-4	0	0.0	1	0.0027624309392265192	0	0.0	0	0.0	C	0.070	-1.205154	0.01568	0.0	5.81E-4	ENSG00000100503	ENST00000530997;ENST00000389869;ENST00000530853	.	.	.	5.23	-10.5	0.00291	.	.	.	.	.	T	0.20577	0.0495	.	.	.	0.26831	N	0.968587	.	.	.	.	.	.	T	0.08764	-1.0706	4	.	.	.	-13.8346	5.2917	0.15731	0.1504:0.4781:0.1573:0.2142	.	.	.	.	I	1462	.	.	V	-	1	0	NIN	50266156	0.000000	0.05858	0.016000	0.15963	0.049000	0.14656	-3.635000	0.00408	-3.021000	0.00269	-1.801000	0.00618	GTC		0.597	NIN-016	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000395207.2	NM_182946		T	51196406	C	T	51196406	2	4	672	1	0	0	0	0	0	0	0	1	10424	523	19	1		1	NIN	14	51196406	Silent	SNP	C	TCGA-KN-8436-01A-11D-2310-10	26465463	51196406	56153134	97	43299										
TECPR2	9895	mdanderson.org	37	chr14	102881076	102881076	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tactctgcaaagaagtctgcTcttttacactgaagaaaagt	7	8	3	3			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr14:102881076T>C	ENST00000359520.7	+	5	810	c.584T>C	c.(583-585)cTc>cCc	p.L195P	TECPR2_ENST00000558678.1_Missense_Mutation_p.L195P|TECPR2_ENST00000561228.1_3'UTR	NM_014844.3	NP_055659.2	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	195					autophagy (GO:0006914)|cell death (GO:0008219)					breast(1)|central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(7)|lung(21)|ovary(2)|prostate(3)|skin(4)|stomach(1)|urinary_tract(1)	50						AGAAGTCTGCTCTTTTACACT	0.458																																																0													150	141	144					14																	102881076		2203	4300	6503	SO:0001583	missense	9895			AB019441	CCDS32162.1, CCDS58337.1	14q32.33	2009-02-27	2009-02-27	2009-02-27		ENSG00000196663			19957	protein-coding gene	gene with protein product		615000	"KIAA0329"	KIAA0329		9205841	Standard	NM_014844		Approved		uc001ylw.2	O15040		ENST00000359520.7:c.584T>C	14.37:g.102881076T>C	ENSP00000352510:p.Leu195Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKY3|A6NFY9|A7E2X3|H0YMM9|Q9UEG6	Missense_Mutation	SNP	ENST00000359520.7	37	CCDS32162.1	.	.	.	.	.	.	.	.	.	.	T	21.2	4.117267	0.77323	.	.	ENSG00000196663	ENST00000359520;ENST00000380088	T	0.01397	4.94	4.89	4.89	0.63831	WD40 repeat-like-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.09423	0.0232	M	0.82823	2.61	0.80722	D	1	D;D;D	0.89917	0.999;1.0;1.0	D;D;D	0.91635	0.997;0.991;0.999	T	0.00695	-1.1606	10	0.87932	D	0	.	14.5137	0.67804	0.0:0.0:0.0:1.0	.	195;195;195	B4DK51;A5PKY3;O15040	.;.;TCPR2_HUMAN	P	195	ENSP00000352510:L195P	ENSP00000352510:L195P	L	+	2	0	TECPR2	101950829	1.000000	0.71417	0.959000	0.39883	0.925000	0.55904	7.602000	0.82796	1.825000	0.53177	0.459000	0.35465	CTC		0.458	TECPR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415056.2	NM_014844		C	102881076	T	C	102881076	3	2	672	1	0	0	0	0	1	0	0	0	15756	1551	54	3	598	3	TECPR2	14	102881076	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	51684670	102881076	4468464	98	43300										
MYO5C	55930	mdanderson.org	37	chr15	52510728	52510728	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cttctcaccctgttttccaaAgtgagccgggatgcttcctg	9	13	1	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr15:52510728A>G	ENST00000261839.7	-	32	4103	c.3942T>C	c.(3940-3942)acT>acC	p.T1314T		NM_018728.3	NP_061198.2	Q9NQX4	MYO5C_HUMAN	myosin VC	1314						extracellular vesicular exosome (GO:0070062)|myosin complex (GO:0016459)	ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(8)|kidney(7)|large_intestine(15)|lung(12)|ovary(7)|prostate(3)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	66				all cancers(107;0.0137)		TGTTTTCCAAAGTGAGCCGGG	0.443																																																0													78	74	75					15																	52510728		1902	4118	6020	SO:0001819	synonymous_variant	55930			AF272390	CCDS42036.1	15q21	2011-09-27				ENSG00000128833		"Myosins / Myosin superfamily : Class V"	7604	protein-coding gene	gene with protein product	"myosin 5C"	610022				11870218	Standard	NM_018728		Approved	MGC74969	uc010bff.3	Q9NQX4		ENST00000261839.7:c.3942T>C	15.37:g.52510728A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6P1W8	Silent	SNP	ENST00000261839.7	37	CCDS42036.1																																																																																				0.443	MYO5C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419562.1	NM_018728		G	52510728	A	G	52510728	2	3	672	1	0	0	0	0	0	0	0	1	10087	59	3	3		3	MYO5C	15	52510728	Silent	SNP	A	TCGA-KN-8436-01A-11D-2310-10		52510728	50020664	99	43301										
UNC13C	440279	broad.mit.edu	37	chr15	54527276	54527276	+	Frame_Shift_Del	DEL	A	A	-													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	agcatgccggatcttcgcagAaaaaaaactttgcctattgt							TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr15:54527276delA	ENST00000260323.11	+	4	3120	c.3120delA	c.(3118-3120)agafs	p.R1040fs	UNC13C_ENST00000545554.1_Frame_Shift_Del_p.R1040fs|UNC13C_ENST00000537900.1_Frame_Shift_Del_p.R1040fs	NM_001080534.1	NP_001074003.1	Q8NB66	UN13C_HUMAN	unc-13 homolog C (C. elegans)	1040					exocytosis (GO:0006887)|intracellular signal transduction (GO:0035556)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|plasma membrane (GO:0005886)|presynaptic active zone (GO:0048786)	diacylglycerol binding (GO:0019992)|metal ion binding (GO:0046872)			breast(3)|endometrium(5)|kidney(5)|large_intestine(20)|lung(70)|ovary(6)|pancreas(2)|prostate(2)|upper_aerodigestive_tract(4)|urinary_tract(4)	121				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		ATCTTCGCAGAAAAAAAACTT	0.368																																																0													142	133	136					15																	54527276		1849	4096	5945	SO:0001589	frameshift_variant	440279			AK091491	CCDS45264.1	15q21.3	2012-10-02			ENSG00000137766	ENSG00000137766			23149	protein-coding gene	gene with protein product		614568					Standard	NM_001080534		Approved	Munc13-3, DKFZp547H074	uc021smr.1	Q8NB66	OTTHUMG00000172542	ENST00000260323.11:c.3120delA	15.37:g.54527276delA	ENSP00000260323:p.Arg1040fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q0P613|Q8ND48|Q96NP3	Frame_Shift_Del	DEL	ENST00000260323.11	37	CCDS45264.1																																																																																				0.368	UNC13C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000419028.3	NM_173166		-	54527276	A	-	54527276	7	5	672	1	0	1	0	1	0	0	0	0	16998	243	9	0	3134	0	UNC13C	15	54527276	Frame_Shift_Del	DEL	A	TCGA-KN-8436-01A-11D-2310-10	2016548	54527276	48004116	100	43302										
AQP9	366	mdanderson.org	37	chr15	58458901	58458901	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tgtggctgtgttgcccaagcTattctcagtcgaggacgttt	12	9	1	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr15:58458901T>C	ENST00000219919.4	+	2	511	c.141T>C	c.(139-141)gcT>gcC	p.A47A	AQP9_ENST00000536493.1_Silent_p.A47A|ALDH1A2_ENST00000558231.1_Intron|AQP9_ENST00000558772.1_5'UTR	NM_020980.3	NP_066190.2	O43315	AQP9_HUMAN	aquaporin 9	47					amine transport (GO:0015837)|canalicular bile acid transport (GO:0015722)|carboxylic acid transport (GO:0046942)|cellular response to cAMP (GO:0071320)|excretion (GO:0007588)|glycerol transport (GO:0015793)|immune response (GO:0006955)|metabolic process (GO:0008152)|polyol transport (GO:0015791)|purine nucleobase transport (GO:0006863)|pyrimidine nucleobase transport (GO:0015855)|pyrimidine-containing compound transmembrane transport (GO:0072531)|response to mercury ion (GO:0046689)|response to organic substance (GO:0010033)|response to osmotic stress (GO:0006970)|transmembrane transport (GO:0055085)|transport (GO:0006810)|water homeostasis (GO:0030104)|water transport (GO:0006833)	basolateral plasma membrane (GO:0016323)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|intracellular membrane-bounded organelle (GO:0043231)|plasma membrane (GO:0005886)	amine transmembrane transporter activity (GO:0005275)|carboxylic acid transmembrane transporter activity (GO:0046943)|glycerol channel activity (GO:0015254)|polyol transmembrane transporter activity (GO:0015166)|porin activity (GO:0015288)|purine nucleobase transmembrane transporter activity (GO:0005345)|pyrimidine nucleobase transmembrane transporter activity (GO:0005350)|water channel activity (GO:0015250)|water transmembrane transporter activity (GO:0005372)			endometrium(1)|kidney(1)|large_intestine(7)|lung(10)|ovary(1)|prostate(1)	21				GBM - Glioblastoma multiforme(80;0.16)		TTGCCCAAGCTATTCTCAGTC	0.473																																																0													254	226	236					15																	58458901		2192	4292	6484	SO:0001819	synonymous_variant	366			AF016495	CCDS10165.1	15q	2005-09-20			ENSG00000103569	ENSG00000103569		"Ion channels / Aquaporins"	643	protein-coding gene	gene with protein product		602914					Standard	NM_020980		Approved	SSC1, HsT17287	uc002aez.2	O43315	OTTHUMG00000132631	ENST00000219919.4:c.141T>C	15.37:g.58458901T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NP32	Silent	SNP	ENST00000219919.4	37	CCDS10165.1																																																																																				0.473	AQP9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255878.2	NM_020980		C	58458901	T	C	58458901	2	2	672	1	0	0	0	0	0	0	0	1	833	1509	53	3		3	AQP9	15	58458901	Silent	SNP	T	TCGA-KN-8436-01A-11D-2310-10	3931625	58458901	44072491	101	43303										
ERCC4	2072	broad.mit.edu	37	chr16	14041910	14041911	+	Frame_Shift_Ins	INS	-	-	A													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ttgaggagctgaaacaaagcINSaagccacagcctgatgcggc							TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr16:14041910_14041911insA	ENST00000311895.7	+	11	2466_2467	c.2457_2458insA	c.(2458-2460)aagfs	p.K820fs		NM_005236.2	NP_005227.1	Q92889	XPF_HUMAN	excision repair cross-complementation group 4	820					DNA catabolic process, endonucleolytic (GO:0000737)|DNA repair (GO:0006281)|double-strand break repair via homologous recombination (GO:0000724)|negative regulation of telomere maintenance (GO:0032205)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair involved in interstrand cross-link repair (GO:1901255)|nucleotide-excision repair, DNA damage removal (GO:0000718)|nucleotide-excision repair, DNA incision (GO:0033683)|nucleotide-excision repair, DNA incision, 3'-to lesion (GO:0006295)|nucleotide-excision repair, DNA incision, 5'-to lesion (GO:0006296)|resolution of meiotic recombination intermediates (GO:0000712)|response to UV (GO:0009411)|telomere maintenance (GO:0000723)|telomere maintenance via telomere shortening (GO:0010834)|transcription-coupled nucleotide-excision repair (GO:0006283)|UV protection (GO:0009650)	chromosome, telomeric region (GO:0000781)|nuclear chromosome, telomeric region (GO:0000784)|nucleoplasm (GO:0005654)|nucleotide-excision repair complex (GO:0000109)|nucleotide-excision repair factor 1 complex (GO:0000110)|nucleus (GO:0005634)|transcription factor TFIID complex (GO:0005669)	damaged DNA binding (GO:0003684)|endodeoxyribonuclease activity (GO:0004520)|protein C-terminus binding (GO:0008022)|protein N-terminus binding (GO:0047485)|single-stranded DNA binding (GO:0003697)|single-stranded DNA endodeoxyribonuclease activity (GO:0000014)			NS(1)|breast(1)|endometrium(7)|kidney(3)|large_intestine(5)|lung(12)|ovary(4)|pancreas(1)|prostate(1)|skin(3)	38						TGAAACAAAGCAAGCCACAGCC	0.515			"Mis, N, F"			"skin basal cell, skin squamous cell, melanoma"		Nucleotide excision repair (NER)	Xeroderma Pigmentosum																													yes	Rec		Xeroderma pigmentosum (F)	16	16p13.3-p13.13	2072	"excision repair cross-complementing rodent repair deficiency, complementation group 4"		E	0																																										SO:0001589	frameshift_variant	2072	Familial Cancer Database	incl. XPA, XPB, XPC, XPD, XPE, XPF, XPG, XP Variant, XPV	L76568	CCDS32390.1	16p13.3	2014-09-17	2014-03-07		ENSG00000175595	ENSG00000175595			3436	protein-coding gene	gene with protein product	"xeroderma pigmentosum, complementation group F"	133520	"excision repair cross-complementing rodent repair deficiency, complementation group 4"	XPF		9579555, 8887684	Standard	NM_005236		Approved	RAD1, FANCQ	uc002dce.2	Q92889	OTTHUMG00000048194	ENST00000311895.7:c.2459dupA	16.37:g.14041912_14041912dupA	ENSP00000310520:p.Lys820fs	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKV6|A8K111|O00140|Q8TD83	Frame_Shift_Ins	INS	ENST00000311895.7	37	CCDS32390.1																																																																																				0.515	ERCC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109634.2	NM_005236		A	14041911	-	A	14041910	7	5	672	1	0	1	1	0	0	0	0	0	5217	709	25	0	2499	0	ERCC4	16	14041910	Frame_Shift_Ins	INS	-	TCGA-KN-8436-01A-11D-2310-10		14041910	76312843	102	43304										
ABCC6	368	broad.mit.edu	37	chr16	16278826	16278827	+	Frame_Shift_Ins	INS	-	-	G													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gttctgtacctgtggaggcaINSgggagggctttcctgggacc							TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr16:16278826_16278827insG	ENST00000205557.7	-	15	1961_1962	c.1932_1933insC	c.(1930-1935)ccctgcfs	p.C645fs	ABCC6_ENST00000574094.1_5'UTR	NM_001171.5	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 6	645	ABC transporter 1. {ECO:0000255|PROSITE- ProRule:PRU00434}.				response to drug (GO:0042493)|transmembrane transport (GO:0055085)|transport (GO:0006810)|visual perception (GO:0007601)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|transporter activity (GO:0005215)			NS(1)|breast(1)|central_nervous_system(2)|cervix(2)|endometrium(6)|kidney(3)|large_intestine(10)|lung(10)|ovary(1)|skin(6)|urinary_tract(1)	43				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)	Cisplatin(DB00515)|Dactinomycin(DB00970)|Daunorubicin(DB00694)|Doxorubicin(DB00997)|Etoposide(DB00773)|Indomethacin(DB00328)|Probenecid(DB01032)|Sulfinpyrazone(DB01138)|Teniposide(DB00444)|Vinblastine(DB00570)	CTGTGGAGGCAGGGAGGGCTTT	0.579																																																0																																										SO:0001589	frameshift_variant	368			AF076622	CCDS10568.1, CCDS58430.1	16p13.11	2013-01-08			ENSG00000091262	ENSG00000091262		"ATP binding cassette transporters / subfamily C"	57	protein-coding gene	gene with protein product		603234	"pseudoxanthoma elasticum"	ARA, PXE		9721217, 11439001	Standard	NM_001079528		Approved	MRP6, EST349056, MLP1, URG7	uc002den.4	O95255	OTTHUMG00000129967	ENST00000205557.7:c.1933dupC	16.37:g.16278829_16278829dupG	ENSP00000205557:p.Cys645fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRN8|A8KIG6|A8Y988|E7ESW8|P78420|Q8TCY8|Q9UMZ7	Frame_Shift_Ins	INS	ENST00000205557.7	37	CCDS10568.1																																																																																				0.579	ABCC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252232.2			G	16278827	-	G	16278826	7	5	672	1	0	1	1	0	0	0	0	0	57	188	7	0	2646	0	ABCC6	16	16278826	Frame_Shift_Ins	INS	-	TCGA-KN-8436-01A-11D-2310-10	2236916	16278826	74075927	103	43305										
HSD11B2	3291	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr16	67470735	67470735	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ggcctggggctcatgtacttCatccactactacctgcctga	9	14	2	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr16:67470735C>A	ENST00000326152.5	+	5	1179	c.1047C>A	c.(1045-1047)ttC>ttA	p.F349L	ATP6V0D1_ENST00000567694.1_5'Flank	NM_000196.3	NP_000187.3	P80365	DHI2_HUMAN	hydroxysteroid (11-beta) dehydrogenase 2	349					female pregnancy (GO:0007565)|glucocorticoid biosynthetic process (GO:0006704)|regulation of blood volume by renal aldosterone (GO:0002017)|response to drug (GO:0042493)|response to food (GO:0032094)|response to glucocorticoid (GO:0051384)|response to hypoxia (GO:0001666)|response to insulin (GO:0032868)	endoplasmic reticulum (GO:0005783)	11-beta-hydroxysteroid dehydrogenase [NAD(P)] activity (GO:0003845)|NAD binding (GO:0051287)|steroid binding (GO:0005496)			breast(1)|endometrium(1)|liver(2)|lung(3)|upper_aerodigestive_tract(1)	8		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0401)|Epithelial(162;0.0891)		TCATGTACTTCATCCACTACT	0.647																																																0													69	76	73					16																	67470735		2198	4299	6497	SO:0001583	missense	3291			U14631	CCDS10837.1	16q22	2011-09-14			ENSG00000176387	ENSG00000176387	1.1.1.-	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 2"	5209	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 9C, member 3"	614232				7859916, 8611140, 19027726	Standard	NM_000196		Approved	SDR9C3	uc002etd.3	P80365	OTTHUMG00000137507	ENST00000326152.5:c.1047C>A	16.37:g.67470735C>A	ENSP00000316786:p.Phe349Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A7LB28|C5HTY7|Q13194|Q6P2G9|Q8N439|Q96QN8|Q9UC50|Q9UC51|Q9UCW5|Q9UCW6|Q9UCW7|Q9UCW8	Missense_Mutation	SNP	ENST00000326152.5	37	CCDS10837.1	.	.	.	.	.	.	.	.	.	.	C	16.37	3.103821	0.56291	.	.	ENSG00000176387	ENST00000326152	D	0.89270	-2.49	4.78	3.82	0.43975	NAD(P)-binding domain (1);	0.049609	0.85682	D	0.000000	T	0.78272	0.4257	N	0.25992	0.78	0.53688	D	0.999975	B	0.28378	0.209	B	0.25987	0.065	T	0.70506	-0.4853	10	0.02654	T	1	.	11.7105	0.51623	0.0:0.9121:0.0:0.0879	.	349	P80365	DHI2_HUMAN	L	349	ENSP00000316786:F349L	ENSP00000316786:F349L	F	+	3	2	HSD11B2	66028236	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	2.517000	0.45529	0.995000	0.38917	0.563000	0.77884	TTC		0.647	HSD11B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268826.3	NM_000196		A	67470735	C	A	67470735	3	1	672	1	0	0	0	0	1	0	0	0	7384	825	29	4	1065	4	HSD11B2	16	67470735	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	51191909	67470735	22884018	104	43306										
AMAC1L3	643664	mdanderson.org	37	chr17	7385751	7385751	+	Missense_Mutation	SNP	G	G	A													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ccgtcctcaccctctgccttGagagccagggtctcagtggc					rs200897540		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr17:7385751G>A	ENST00000412468.2	+	2	563	c.448G>A	c.(448-450)Gag>Aag	p.E150K	ZBTB4_ENST00000311403.4_Intron|ZBTB4_ENST00000380599.4_5'Flank|POLR2A_ENST00000322644.6_5'Flank|POLR2A_ENST00000572844.1_5'Flank	NM_001102614.1	NP_001096084.1	P0C7Q6	S35G6_HUMAN	solute carrier family 35, member G6	150	EamA 1.					integral component of membrane (GO:0016021)											CCTCTGCCTTGAGAGCCAGGG	0.592																																																0													188	178	182					17																	7385751		2203	4300	6503	SO:0001583	missense	643664				CCDS45603.1	17p13.1	2013-05-22	2011-08-03	2011-08-03		ENSG00000259224		"Solute carriers"	31351	protein-coding gene	gene with protein product			"transmembrane protein 21B", "acyl-malonyl condensing enzyme 1-like 3"	TMEM21B, AMAC1L3			Standard	NM_001102614		Approved		uc010cmj.1	P0C7Q6		ENST00000412468.2:c.448G>A	17.37:g.7385751G>A	ENSP00000396523:p.Glu150Lys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000412468.2	37	CCDS45603.1	.	.	.	.	.	.	.	.	.	.	G	14.05	2.420492	0.42918	.	.	ENSG00000181222	ENST00000412468	T	0.49432	0.78	4.33	3.36	0.38483	.	.	.	.	.	T	0.32941	0.0846	N	0.24115	0.695	0.29805	N	0.832132	B	0.10296	0.003	B	0.13407	0.009	T	0.23904	-1.0175	9	0.37606	T	0.19	-2.7213	9.5491	0.39299	0.1018:0.0:0.8982:0.0	.	150	P0C7Q6	S35G6_HUMAN	K	150	ENSP00000396523:E150K	ENSP00000396523:E150K	E	+	1	0	SLC35G6	7326475	1.000000	0.71417	0.998000	0.56505	0.940000	0.58332	2.253000	0.43205	0.961000	0.38030	0.563000	0.77884	GAG		0.592	SLC35G6-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001102614		A	7385751	G	A	7385751	3	1	672	1	0	0	0	0	1	0	0	0	561	1291	45	2	454	2	AMAC1L3	17	7385751	Missense_Mutation	SNP	G	TCGA-KN-8436-01A-11D-2310-10		7385751	73809459	105	43307	428	2								
AMAC1L3	643664	mdanderson.org	37	chr17	7385761	7385761	+	Missense_Mutation	SNP	G	G	T													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cctctgccttgagagccaggGtctcagtggctacgactggt							TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr17:7385761G>T	ENST00000412468.2	+	2	573	c.458G>T	c.(457-459)gGt>gTt	p.G153V	ZBTB4_ENST00000311403.4_Intron|ZBTB4_ENST00000380599.4_5'Flank|POLR2A_ENST00000322644.6_5'Flank|POLR2A_ENST00000572844.1_5'Flank	NM_001102614.1	NP_001096084.1	P0C7Q6	S35G6_HUMAN	solute carrier family 35, member G6	153	EamA 1.					integral component of membrane (GO:0016021)											GAGAGCCAGGGTCTCAGTGGC	0.597																																																0													189	180	183					17																	7385761		2203	4300	6503	SO:0001583	missense	643664				CCDS45603.1	17p13.1	2013-05-22	2011-08-03	2011-08-03		ENSG00000259224		"Solute carriers"	31351	protein-coding gene	gene with protein product			"transmembrane protein 21B", "acyl-malonyl condensing enzyme 1-like 3"	TMEM21B, AMAC1L3			Standard	NM_001102614		Approved		uc010cmj.1	P0C7Q6		ENST00000412468.2:c.458G>T	17.37:g.7385761G>T	ENSP00000396523:p.Gly153Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000412468.2	37	CCDS45603.1	.	.	.	.	.	.	.	.	.	.	G	11.25	1.582392	0.28180	.	.	ENSG00000181222	ENST00000412468	T	0.50001	0.76	3.93	2.94	0.34122	.	.	.	.	.	T	0.31358	0.0794	N	0.24115	0.695	0.50467	D	0.999875	B	0.06786	0.001	B	0.08055	0.003	T	0.07328	-1.0778	9	0.33141	T	0.24	0.2674	9.8084	0.40808	0.1041:0.0:0.8959:0.0	.	153	P0C7Q6	S35G6_HUMAN	V	153	ENSP00000396523:G153V	ENSP00000396523:G153V	G	+	2	0	SLC35G6	7326485	0.948000	0.32251	1.000000	0.80357	0.984000	0.73092	1.064000	0.30579	0.949000	0.37715	0.563000	0.77884	GGT		0.597	SLC35G6-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001102614		T	7385761	G	T	7385761	3	4	672	1	0	0	0	0	1	0	0	0	561	1261	44	4	464	4	AMAC1L3	17	7385761	Missense_Mutation	SNP	G	TCGA-KN-8436-01A-11D-2310-10	10	7385761	73809449	106	43308	428	2								
TP53	7157	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	7574015	7574015	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cagctctcggaacatctcgaAgcgctcacgcccacggatct	9	16	4	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr17:7574015A>T	ENST00000269305.4	-	10	1201	c.1012T>A	c.(1012-1014)Ttc>Atc	p.F338I	TP53_ENST00000420246.2_3'UTR|TP53_ENST00000359597.4_Intron|TP53_ENST00000413465.2_Intron|TP53_ENST00000455263.2_3'UTR|TP53_ENST00000445888.2_Missense_Mutation_p.F338I	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	338	Interaction with CARM1.|Interaction with HIPK1. {ECO:0000250}.|Interaction with HIPK2.|Oligomerization.		F -> I (in a sporadic cancer; somatic mutation).|F -> L (in a sporadic cancer; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.0?(8)|p.F338fs*9(2)|p.F338I(1)|p.I332fs*5(1)|p.?(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	AACATCTCGAAGCGCTCACGC	0.532		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	13	Whole gene deletion(8)|Insertion - Frameshift(2)|Substitution - Missense(1)|Unknown(1)|Deletion - Frameshift(1)	bone(4)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|upper_aerodigestive_tract(1)|large_intestine(1)|stomach(1)|breast(1)|ovary(1)											58	45	50					17																	7574015		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.1012T>A	17.37:g.7574015A>T	ENSP00000269305:p.Phe338Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	A	19.99	3.929207	0.73327	.	.	ENSG00000141510	ENST00000269305;ENST00000445888;ENST00000396473	D;D	0.94687	-3.49;-3.49	5.43	5.43	0.79202	p53, tetramerisation domain (3);	0.327214	0.33144	N	0.005234	D	0.96297	0.8792	M	0.77820	2.39	0.45390	D	0.998373	D	0.53885	0.963	P	0.57776	0.827	D	0.96673	0.9498	10	0.87932	D	0	-11.118	13.43	0.61049	1.0:0.0:0.0:0.0	.	338	P04637	P53_HUMAN	I	338;338;327	ENSP00000269305:F338I;ENSP00000391478:F338I	ENSP00000269305:F338I	F	-	1	0	TP53	7514740	0.934000	0.31675	0.010000	0.14722	0.295000	0.27426	7.690000	0.84178	2.061000	0.61500	0.459000	0.35465	TTC		0.532	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		T	7574015	A	T	7574015	3	4	672	1	0	0	0	0	1	0	0	0	16393	72	3	5	177	5	TP53	17	7574015	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	188254	7574015	73621195	107	43309										
DHX58	79132	bcgsc.ca	37	chr17	40263795	40263795	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ccacagtctctaggtgccgcTtggccacataagcagccgcc	10	16	1	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr17:40263795T>C	ENST00000251642.3	-	3	338	c.116A>G	c.(115-117)aAg>aGg	p.K39R		NM_024119.2	NP_077024.2	Q96C10	DHX58_HUMAN	DEXH (Asp-Glu-X-His) box polypeptide 58	39	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				defense response to virus (GO:0051607)|innate immune response (GO:0045087)|negative regulation of innate immune response (GO:0045824)|negative regulation of MDA-5 signaling pathway (GO:0039534)|negative regulation of RIG-I signaling pathway (GO:0039536)|negative regulation of type I interferon production (GO:0032480)|positive regulation of MDA-5 signaling pathway (GO:1900245)|positive regulation of RIG-I signaling pathway (GO:1900246)|positive regulation of type I interferon production (GO:0032481)|regulation of innate immune response (GO:0045088)|response to virus (GO:0009615)|viral process (GO:0016032)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|double-stranded RNA binding (GO:0003725)|helicase activity (GO:0004386)|single-stranded RNA binding (GO:0003727)|zinc ion binding (GO:0008270)			breast(2)|endometrium(3)|large_intestine(3)|lung(3)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	16		all_cancers(22;9.73e-07)|all_epithelial(22;3.58e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TAGGTGCCGCTTGGCCACATA	0.597																																																0													122	111	115					17																	40263795		2203	4300	6503	SO:0001583	missense	79132			BC014949	CCDS11416.1	17q21.2	2008-02-05			ENSG00000108771	ENSG00000108771			29517	protein-coding gene	gene with protein product	"RNA helicase LGP2"	608588				11735219	Standard	NM_024119		Approved	LGP2, D11LGP2	uc002hyw.3	Q96C10	OTTHUMG00000133493	ENST00000251642.3:c.116A>G	17.37:g.40263795T>C	ENSP00000251642:p.Lys39Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q9HAM6	Missense_Mutation	SNP	ENST00000251642.3	37	CCDS11416.1	.	.	.	.	.	.	.	.	.	.	T	10.92	1.485758	0.26686	.	.	ENSG00000108771	ENST00000251642;ENST00000423748;ENST00000413196;ENST00000430773	T;T;T	0.35048	1.98;1.33;1.33	4.99	3.91	0.45181	DEAD-like helicase (2);Helicase/UvrB domain (1);	0.108247	0.64402	D	0.000009	T	0.19366	0.0465	N	0.21240	0.645	0.32355	N	0.557916	B;B	0.14012	0.009;0.004	B;B	0.20955	0.032;0.014	T	0.16394	-1.0404	10	0.16896	T	0.51	-7.3343	3.4805	0.07601	0.1649:0.1754:0.0:0.6598	.	39;39	B7Z455;Q96C10	.;DHX58_HUMAN	R	39	ENSP00000251642:K39R;ENSP00000416389:K39R;ENSP00000404639:K39R	ENSP00000251642:K39R	K	-	2	0	DHX58	37517321	0.895000	0.30542	1.000000	0.80357	0.390000	0.30446	0.434000	0.21494	0.931000	0.37242	-0.624000	0.04008	AAG		0.597	DHX58-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257396.1	NM_024119		C	40263795	T	C	40263795	3	2	672	1	0	0	0	0	1	0	0	0	4516	1609	56	3	1968	3	DHX58	17	40263795	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	32689780	40263795	40931415	108	43310										
SMCHD1	23347	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr18	2703826	2703826	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tccttctaaaaagcaaggtcCctgggcaacatatgcagcaa	8	11	1	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr18:2703826C>A	ENST00000320876.6	+	13	2122	c.1784C>A	c.(1783-1785)cCc>cAc	p.P595H	SMCHD1_ENST00000261598.8_Missense_Mutation_p.P595H|RP11-703M24.5_ENST00000583546.1_RNA	NM_015295.2	NP_056110.2	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible hinge domain containing 1	595					chromosome organization (GO:0051276)|inactivation of X chromosome by DNA methylation (GO:0060821)	Barr body (GO:0001740)	ATP binding (GO:0005524)			NS(3)|breast(3)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(16)|lung(15)|pancreas(1)	45						AAGCAAGGTCCCTGGGCAACA	0.348																																																0													75	74	74					18																	2703826		1832	4101	5933	SO:0001583	missense	23347			AB014550	CCDS45822.1	18p11.32	2010-05-12			ENSG00000101596	ENSG00000101596			29090	protein-coding gene	gene with protein product		614982				9734811	Standard	NM_015295		Approved	KIAA0650	uc002klm.4	A6NHR9		ENST00000320876.6:c.1784C>A	18.37:g.2703826C>A	ENSP00000326603:p.Pro595His	Somatic		WXS	Illumina HiSeq	Phase_I	O75141|Q6AHX6|Q6ZTQ8|Q9H6Q2|Q9UG39	Missense_Mutation	SNP	ENST00000320876.6	37	CCDS45822.1	.	.	.	.	.	.	.	.	.	.	C	12.40	1.926320	0.34002	.	.	ENSG00000101596	ENST00000320876;ENST00000261598	T;T	0.26373	1.74;1.75	5.82	5.82	0.92795	.	0.000000	0.85682	D	0.000000	T	0.50171	0.1600	L	0.55481	1.735	0.53005	D	0.999967	D	0.89917	1.0	D	0.87578	0.998	T	0.44283	-0.9338	10	0.87932	D	0	-4.9546	20.1086	0.97902	0.0:1.0:0.0:0.0	.	595	A6NHR9	SMHD1_HUMAN	H	595	ENSP00000326603:P595H;ENSP00000261598:P595H	ENSP00000261598:P595H	P	+	2	0	SMCHD1	2693826	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	6.925000	0.75829	2.756000	0.94617	0.563000	0.77884	CCC		0.348	SMCHD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441082.2			A	2703826	C	A	2703826	3	1	672	1	0	0	0	0	1	0	0	0	14801	623	22	4	1834	4	SMCHD1	18	2703826	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10		2703826	75373422	109	43311										
GNG7	2788	broad.mit.edu	37	chr19	2515020	2515020	+	Nonstop_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gagaacatatgagaacacagTtataaaataatacaaggttt	7	4	0	2			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr19:2515020T>A	ENST00000382159.3	-	5	404	c.207A>T	c.(205-207)taA>taT	p.*69Y		NM_052847.2	NP_443079.1	O60262	GBG7_HUMAN	guanine nucleotide binding protein (G protein), gamma 7	0					behavioral fear response (GO:0001662)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|G-protein coupled receptor signaling pathway (GO:0007186)|locomotory behavior (GO:0007626)|receptor guanylyl cyclase signaling pathway (GO:0007168)|regulation of adenylate cyclase activity (GO:0045761)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)	extracellular vesicular exosome (GO:0070062)|heterotrimeric G-protein complex (GO:0005834)|plasma membrane (GO:0005886)	signal transducer activity (GO:0004871)			central_nervous_system(2)|large_intestine(1)	3		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)		GAGAACACAGTTATAAAATAA	0.478																																																0													59	64	62					19																	2515020		2203	4300	6503	SO:0001578	stop_lost	2788			AB010414	CCDS12091.1	19p13.3	2010-02-17			ENSG00000176533	ENSG00000176533			4410	protein-coding gene	gene with protein product		604430				9600093	Standard	NM_052847		Approved	FLJ00058	uc002lwd.2	O60262		ENST00000382159.3:c.207A>T	19.37:g.2515020T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R496	Missense_Mutation	SNP	ENST00000382159.3	37	CCDS12091.1	.	.	.	.	.	.	.	.	.	.	T	13.46	2.243295	0.39697	.	.	ENSG00000176533	ENST00000382159	.	.	.	4.16	3.03	0.35002	.	.	.	.	.	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	7.7023	0.28630	0.0:0.7966:0.0:0.2034	.	.	.	.	Y	69	.	.	X	-	3	2	GNG7	2466020	1.000000	0.71417	0.330000	0.25442	0.591000	0.36615	2.069000	0.41481	0.836000	0.34901	-0.337000	0.08149	TAA		0.478	GNG7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451345.1	NM_052847		A	2515020	T	A	2515020	4	1	672	1	0	0	0	0	0	0	0	0	6538	1732	60	5	3	5	GNG7	19	2515020	Nonstop_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10		2515020	56613963	110	43312										
PIP5K1C	23396	mdanderson.org	37	chr19	3656451	3656451	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	aggaactcggcctccttgtgCatgacggtcttgatgatgaa	12	9	1	4			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr19:3656451C>T	ENST00000335312.3	-	6	661	c.573G>A	c.(571-573)atG>atA	p.M191I	PIP5K1C_ENST00000539785.1_Missense_Mutation_p.M191I|PIP5K1C_ENST00000537021.1_Missense_Mutation_p.M191I|PIP5K1C_ENST00000587482.1_5'UTR|PIP5K1C_ENST00000589578.1_Missense_Mutation_p.M191I	NM_001195733.1|NM_012398.2	NP_001182662.1|NP_036530.1	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type I, gamma	191	PIPK. {ECO:0000255|PROSITE- ProRule:PRU00781}.				actin cytoskeleton organization (GO:0030036)|adherens junction assembly (GO:0034333)|axon guidance (GO:0007411)|clathrin-mediated endocytosis (GO:0072583)|cytoskeletal anchoring at plasma membrane (GO:0007016)|neutrophil chemotaxis (GO:0030593)|phagocytosis (GO:0006909)|phosphatidylinositol biosynthetic process (GO:0006661)|phospholipid metabolic process (GO:0006644)|platelet aggregation (GO:0070527)|single organismal cell-cell adhesion (GO:0016337)|small molecule metabolic process (GO:0044281)|synaptic vesicle endocytosis (GO:0048488)|synaptic vesicle exocytosis (GO:0016079)	cytosol (GO:0005829)|focal adhesion (GO:0005925)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|uropod (GO:0001931)	1-phosphatidylinositol-4-phosphate 5-kinase activity (GO:0016308)|ATP binding (GO:0005524)			large_intestine(3)|ovary(1)|skin(3)|stomach(2)	9		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.95e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0026)|STAD - Stomach adenocarcinoma(1328;0.183)		CCTCCTTGTGCATGACGGTCT	0.632																																					Esophageal Squamous(135;99 1744 12852 27186 39851)											0													80	81	81					19																	3656451		2203	4300	6503	SO:0001583	missense	23396			AB011161	CCDS32872.1, CCDS56074.1, CCDS74257.1	19p13.3	2012-10-02			ENSG00000186111	ENSG00000186111			8996	protein-coding gene	gene with protein product		606102				9535851	Standard	NM_001195733		Approved	PIP5Kgamma, KIAA0589, LCCS3	uc002lyj.2	O60331	OTTHUMG00000180870	ENST00000335312.3:c.573G>A	19.37:g.3656451C>T	ENSP00000335333:p.Met191Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z9E7|C6GIJ7|C6GIJ8|Q7LE07	Missense_Mutation	SNP	ENST00000335312.3	37	CCDS32872.1	.	.	.	.	.	.	.	.	.	.	C	18.23	3.577761	0.65878	.	.	ENSG00000186111	ENST00000335312;ENST00000539785;ENST00000537021	T;T;T	0.35236	1.32;1.32;1.32	4.22	4.22	0.49857	Phosphatidylinositol-4-phosphate 5-kinase, core (2);Phosphatidylinositol-4-phosphate 5-kinase, core, subgroup (1);	0.000000	0.85682	D	0.000000	T	0.33265	0.0857	L	0.43152	1.355	0.54753	D	0.999988	B;B	0.24882	0.113;0.079	B;B	0.19391	0.025;0.017	T	0.29305	-1.0016	10	0.87932	D	0	-34.5769	15.9238	0.79597	0.0:1.0:0.0:0.0	.	191;191	O60331-3;O60331	.;PI51C_HUMAN	I	191	ENSP00000335333:M191I;ENSP00000445992:M191I;ENSP00000444779:M191I	ENSP00000335333:M191I	M	-	3	0	PIP5K1C	3607451	1.000000	0.71417	1.000000	0.80357	0.771000	0.43674	7.568000	0.82369	2.067000	0.61834	0.561000	0.74099	ATG		0.632	PIP5K1C-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000453432.2	NM_012398		T	3656451	C	T	3656451	3	4	672	1	0	0	0	0	1	0	0	0	11948	710	25	2	1485	2	PIP5K1C	19	3656451	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	1141431	3656451	55472532	111	43313										
FUT3	2525	mdanderson.org	37	chr19	5843822	5843822	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tacctggattcctgctgcagTttccagcaggccttgcagaa	10	12	0	1	rs199931170	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr19:5843822T>C	ENST00000303225.6	-	3	1663	c.1029A>G	c.(1027-1029)aaA>aaG	p.K343K	FUT3_ENST00000593144.1_5'Flank|FUT3_ENST00000589918.1_Silent_p.K343K|FUT3_ENST00000589620.1_Silent_p.K343K|FUT3_ENST00000458379.2_Silent_p.K343K	NM_000149.3	NP_000140	P21217	FUT3_HUMAN	fucosyltransferase 3 (galactoside 3(4)-L-fucosyltransferase, Lewis blood group)	343					cell-cell recognition (GO:0009988)|fucosylation (GO:0036065)|macromolecule glycosylation (GO:0043413)|oligosaccharide biosynthetic process (GO:0009312)|protein glycosylation (GO:0006486)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity (GO:0017060)|alpha-(1->3)-fucosyltransferase activity (GO:0046920)|fucosyltransferase activity (GO:0008417)			breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(5)|upper_aerodigestive_tract(1)	14						CCTGCTGCAGTTTCCAGCAGG	0.632																																					Esophageal Squamous(82;745 1728 24593 44831)											0													61	65	64					19																	5843822		2203	4300	6503	SO:0001819	synonymous_variant	2525				CCDS12153.1	19p13.3	2014-07-19	2006-01-12		ENSG00000171124	ENSG00000171124	2.4.1.65	"CD molecules", "Blood group antigens", "Fucosyltransferases"	4014	protein-coding gene	gene with protein product		111100	"fucosyltransferase 3 (galactoside 3(4)-L-fucosyltransferase, Lewis blood group included)"	LE		1977660, 1740457	Standard	NM_000149		Approved	CD174	uc002mdk.2	P21217	OTTHUMG00000180614	ENST00000303225.6:c.1029A>G	19.37:g.5843822T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B5U7U9|B5U7V0|Q32NE7|Q99448|Q99449	Silent	SNP	ENST00000303225.6	37	CCDS12153.1																																																																																				0.632	FUT3-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452204.1	NM_000149		C	5843822	T	C	5843822	2	2	672	1	0	0	0	0	0	0	0	1	6112	1722	60	3		3	FUT3	19	5843822	Silent	SNP	T	TCGA-KN-8436-01A-11D-2310-10	2187371	5843822	53285161	112	43314										
MUC16	94025	broad.mit.edu	37	chr19	9054266	9054267	+	Frame_Shift_Ins	INS	-	-	G													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	caggcgaagtggatgtctgaINSgggcctttgactggtcttat							TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr19:9054266_9054267insG	ENST00000397910.4	-	4	31558_31559	c.31355_31356insC	c.(31354-31356)cctfs	p.P10452fs		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	10454	Thr-rich.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TGGATGTCTGAGGGCCTTTGAC	0.47																																																0																																										SO:0001589	frameshift_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.31356dupC	19.37:g.9054269_9054269dupG	ENSP00000381008:p.Pro10452fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Frame_Shift_Ins	INS	ENST00000397910.4	37	CCDS54212.1																																																																																				0.47	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		G	9054267	-	G	9054266	7	5	672	1	0	1	1	0	0	0	0	0	9980	291	11	0	12491	0	MUC16	19	9054266	Frame_Shift_Ins	INS	-	TCGA-KN-8436-01A-11D-2310-10	3210444	9054266	50074717	113	43315										
FBXW9	84261	ucsc.edu	37	chr19	12807079	12807079	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ggtcgcggagcgcgtggcacAcccgcgacaggacgtggagc	18	13	0	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr19:12807079A>G	ENST00000380339.3	-	1	353	c.317T>C	c.(316-318)gTg>gCg	p.V106A	FBXW9_ENST00000393261.3_Missense_Mutation_p.V106A|FBXW9_ENST00000587955.1_Missense_Mutation_p.V106A|FBXW9_ENST00000544494.1_5'UTR			Q5XUX1	FBXW9_HUMAN	F-box and WD repeat domain containing 9	106	F-box. {ECO:0000255|PROSITE- ProRule:PRU00080}.				SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146)					cervix(1)|lung(4)|ovary(1)|prostate(1)	7						CGCGTGGCACACCCGCGACAG	0.697																																																0													10	14	13					19																	12807079		1984	4113	6097	SO:0001583	missense	84261			BC004290	CCDS12278.2	19p13.2	2013-01-09	2007-02-08		ENSG00000132004	ENSG00000132004		"F-boxes / WD-40 domains", "WD repeat domain containing"	28136	protein-coding gene	gene with protein product		609074	"F-box and WD-40 domain protein 9"			12477932	Standard	NM_032301		Approved	MGC10870, Fbw9	uc002mum.1	Q5XUX1	OTTHUMG00000150152	ENST00000380339.3:c.317T>C	19.37:g.12807079A>G	ENSP00000369696:p.Val106Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVP7|Q9BT89	Missense_Mutation	SNP	ENST00000380339.3	37		.	.	.	.	.	.	.	.	.	.	A	33	5.231393	0.95207	.	.	ENSG00000132004	ENST00000393261;ENST00000380339	T;T	0.72394	-0.65;-0.65	5.24	5.24	0.73138	.	0.000000	0.64402	D	0.000010	T	0.81044	0.4741	M	0.68952	2.095	0.80722	D	1	D;D	0.69078	0.997;0.994	D;P	0.69654	0.965;0.888	T	0.82388	-0.0482	10	0.56958	D	0.05	-28.5893	12.6408	0.56709	1.0:0.0:0.0:0.0	.	106;106	Q5XUX1-2;Q5XUX1-3	.;.	A	106	ENSP00000376945:V106A;ENSP00000369696:V106A	ENSP00000369696:V106A	V	-	2	0	FBXW9	12668079	1.000000	0.71417	1.000000	0.80357	0.943000	0.58893	5.956000	0.70315	1.984000	0.57885	0.459000	0.35465	GTG		0.697	FBXW9-201	KNOWN	basic	protein_coding	protein_coding		NM_032301		G	12807079	A	G	12807079	3	3	672	1	0	0	0	0	1	0	0	0	5778	159	6	3	1099	3	FBXW9	19	12807079	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	3752813	12807079	46321904	114	43316										
RHPN2	85415	mdanderson.org	37	chr19	33493830	33493830	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tgtgcaagcatcattttgacGagcacgctgagcatggcagg	13	9	1	2	rs74453945	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr19:33493830G>A	ENST00000254260.3	-	8	872	c.837C>T	c.(835-837)ctC>ctT	p.L279L	RHPN2_ENST00000400226.4_Silent_p.L128L	NM_033103.4	NP_149094.3	Q8IUC4	RHPN2_HUMAN	rhophilin, Rho GTPase binding protein 2	279	BRO1. {ECO:0000255|PROSITE- ProRule:PRU00526}.				signal transduction (GO:0007165)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)				NS(1)|breast(3)|central_nervous_system(5)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(7)|ovary(1)|prostate(3)|skin(3)|urinary_tract(1)	44	Esophageal squamous(110;0.137)					TCATTTTGACGAGCACGCTGA	0.463																																																0													55	50	52					19																	33493830		2203	4300	6503	SO:0001819	synonymous_variant	85415			AF268032	CCDS12427.1	19q13.12	2008-02-05				ENSG00000131941			19974	protein-coding gene	gene with protein product						12221077	Standard	NM_033103		Approved		uc002nuf.3	Q8IUC4		ENST00000254260.3:c.837C>T	19.37:g.33493830G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RCG8|B3KUY8|B4DUS7|Q8N3T7|Q8N9D6|Q8NE33|Q96RU1	Silent	SNP	ENST00000254260.3	37	CCDS12427.1																																																																																				0.463	RHPN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450828.2	NM_033103		A	33493830	G	A	33493830	2	1	672	1	0	0	0	0	0	0	0	1	13364	1045	37	1		1	RHPN2	19	33493830	Silent	SNP	G	TCGA-KN-8436-01A-11D-2310-10	20686751	33493830	25635153	115	43317										
TMEM147	10430	ucsc.edu;bcgsc.ca	37	chr19	36036858	36036858	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cctctttgtccaactctgcaAggtgagggccaccgggaagc	12	13	2	1			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr19:36036858A>G	ENST00000222284.5	+	2	291	c.146A>G	c.(145-147)aAg>aGg	p.K49R	AD000090.2_ENST00000590717.1_RNA|AD000090.2_ENST00000589137.1_RNA|TMEM147_ENST00000392204.2_5'UTR|AD000090.2_ENST00000590125.1_RNA|AD000090.2_ENST00000588286.1_RNA|AD000090.2_ENST00000444728.1_RNA|TMEM147_ENST00000392205.1_Splice_Site_p.K49R	NM_032635.3	NP_116024.1	Q9BVK8	TM147_HUMAN	transmembrane protein 147	49						endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)				endometrium(1)|large_intestine(2)|lung(2)|prostate(1)	6	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)			CAACTCTGCAAGGTGAGGGCC	0.682																																																0													47	41	43					19																	36036858		2203	4300	6503	SO:0001630	splice_region_variant	10430			BC001118	CCDS12466.1, CCDS56091.1	19q13.12	2010-08-13			ENSG00000105677	ENSG00000105677			30414	protein-coding gene	gene with protein product		613585				20538592	Standard	NM_032635		Approved	NIFIE14, MGC1936	uc002oaj.2	Q9BVK8	OTTHUMG00000048105	ENST00000222284.5:c.147+1A>G	19.37:g.36036858A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8MWW0|O75790	Missense_Mutation	SNP	ENST00000222284.5	37	CCDS12466.1	.	.	.	.	.	.	.	.	.	.	A	15.36	2.809674	0.50421	.	.	ENSG00000105677	ENST00000222284;ENST00000392205	T;T	0.64085	-0.08;-0.08	4.98	2.88	0.33553	.	0.109198	0.64402	D	0.000009	T	0.71787	0.3381	M	0.83692	2.655	0.58432	D	0.999998	D	0.61697	0.99	P	0.58266	0.836	T	0.69347	-0.5169	10	0.54805	T	0.06	.	5.0146	0.14330	0.6976:0.206:0.0964:0.0	.	49	Q9BVK8	TM147_HUMAN	R	49	ENSP00000222284:K49R;ENSP00000376041:K49R	ENSP00000222284:K49R	K	+	2	0	TMEM147	40728698	1.000000	0.71417	0.999000	0.59377	0.000000	0.00434	7.959000	0.87885	0.385000	0.24970	-1.046000	0.02355	AAG		0.682	TMEM147-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109469.2	NM_032635	Missense_Mutation	G	36036858	A	G	36036858	5	3	672	1	0	0	0	0	0	0	1	0	16073	86	3	3	152	3	TMEM147	19	36036858	Splice_Site	SNP	A	TCGA-KN-8436-01A-11D-2310-10	2543028	36036858	23092125	116	43318										
HRC	3270	mdanderson.org	37	chr19	49657916	49657916	+	Silent	SNP	T	T	C													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tcctcctcctcctcctcctcTtctccttcatcatcttcccc					rs7409255		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr19:49657916T>C	ENST00000252825.4	-	1	765	c.579A>G	c.(577-579)gaA>gaG	p.E193E	HRC_ENST00000595625.1_Silent_p.E193E	NM_002152.2	NP_002143.1	P23327	SRCH_HUMAN	histidine rich calcium binding protein	193	4 X tandem repeats, acidic.|6 X approximate tandem repeats.|Glu-rich (acidic).				cytosolic calcium ion homeostasis (GO:0051480)|muscle contraction (GO:0006936)|positive regulation of heart contraction (GO:0045823)|positive regulation of heart rate (GO:0010460)|positive regulation of relaxation of cardiac muscle (GO:1901899)|regulation of calcium ion transmembrane transport (GO:1903169)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of cell communication by electrical coupling involved in cardiac conduction (GO:1901844)|regulation of heart rate (GO:0002027)|regulation of peptidyl-serine phosphorylation (GO:0033135)|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0010880)|regulation of ryanodine-sensitive calcium-release channel activity (GO:0060314)	sarcoplasmic reticulum lumen (GO:0033018)|sarcoplasmic reticulum membrane (GO:0033017)|Z disc (GO:0030018)	ATPase binding (GO:0051117)|calcium ion binding (GO:0005509)|ion channel binding (GO:0044325)			endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(10)|lung(10)|ovary(1)|prostate(3)|urinary_tract(2)	34		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.01e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.00019)|GBM - Glioblastoma multiforme(486;0.00279)|Epithelial(262;0.00622)		cctcctcctcttcTCCTTCAT	0.557																																					Melanoma(37;75 1097 24567 25669 30645)											0													119	95	103					19																	49657916		2203	4300	6503	SO:0001819	synonymous_variant	3270				CCDS12759.1	19q13.3	2008-07-16	2001-11-28			ENSG00000130528			5178	protein-coding gene	gene with protein product		142705	"histidine-rich calcium-binding protein"			2037293	Standard	XR_243928		Approved	MGC133236	uc002pmv.3	P23327		ENST00000252825.4:c.579A>G	19.37:g.49657916T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q504Y6	Silent	SNP	ENST00000252825.4	37	CCDS12759.1																																																																																				0.557	HRC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465649.1	NM_002152		C	49657916	T	C	49657916	2	2	672	1	0	0	0	0	0	0	0	1	7359	1606	56	3		3	HRC	19	49657916	Silent	SNP	T	TCGA-KN-8436-01A-11D-2310-10	13621058	49657916	9471067	117	43319	429	2								
HRC	3270	mdanderson.org	37	chr19	49657920	49657920	+	Missense_Mutation	SNP	C	C	T													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cctcctcctcctcctcttctCcttcatcatcttccccatca					rs200730671		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr19:49657920C>T	ENST00000252825.4	-	1	761	c.575G>A	c.(574-576)gGa>gAa	p.G192E	HRC_ENST00000595625.1_Missense_Mutation_p.G192E	NM_002152.2	NP_002143.1	P23327	SRCH_HUMAN	histidine rich calcium binding protein	192	4 X tandem repeats, acidic.|6 X approximate tandem repeats.				cytosolic calcium ion homeostasis (GO:0051480)|muscle contraction (GO:0006936)|positive regulation of heart contraction (GO:0045823)|positive regulation of heart rate (GO:0010460)|positive regulation of relaxation of cardiac muscle (GO:1901899)|regulation of calcium ion transmembrane transport (GO:1903169)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of cell communication by electrical coupling involved in cardiac conduction (GO:1901844)|regulation of heart rate (GO:0002027)|regulation of peptidyl-serine phosphorylation (GO:0033135)|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0010880)|regulation of ryanodine-sensitive calcium-release channel activity (GO:0060314)	sarcoplasmic reticulum lumen (GO:0033018)|sarcoplasmic reticulum membrane (GO:0033017)|Z disc (GO:0030018)	ATPase binding (GO:0051117)|calcium ion binding (GO:0005509)|ion channel binding (GO:0044325)			endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(10)|lung(10)|ovary(1)|prostate(3)|urinary_tract(2)	34		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.01e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.00019)|GBM - Glioblastoma multiforme(486;0.00279)|Epithelial(262;0.00622)		ctcctcttcTCCTTCATCATC	0.562																																					Melanoma(37;75 1097 24567 25669 30645)											0													124	98	107					19																	49657920		2203	4300	6503	SO:0001583	missense	3270				CCDS12759.1	19q13.3	2008-07-16	2001-11-28			ENSG00000130528			5178	protein-coding gene	gene with protein product		142705	"histidine-rich calcium-binding protein"			2037293	Standard	XR_243928		Approved	MGC133236	uc002pmv.3	P23327		ENST00000252825.4:c.575G>A	19.37:g.49657920C>T	ENSP00000252825:p.Gly192Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q504Y6	Missense_Mutation	SNP	ENST00000252825.4	37	CCDS12759.1	.	.	.	.	.	.	.	.	.	.	c	0.009	-1.835792	0.00579	.	.	ENSG00000130528	ENST00000252825;ENST00000434964	T	0.05717	3.4	2.59	-1.01	0.10169	.	.	.	.	.	T	0.02156	0.0067	N	0.03608	-0.345	0.09310	N	1	B	0.09022	0.002	B	0.08055	0.003	T	0.46289	-0.9202	9	0.02654	T	1	4.5523	7.8184	0.29274	0.0:0.7009:0.0:0.2991	.	192	P23327	SRCH_HUMAN	E	192;162	ENSP00000252825:G192E	ENSP00000252825:G192E	G	-	2	0	HRC	54349732	0.005000	0.15991	0.001000	0.08648	0.082000	0.17680	-0.740000	0.04861	-0.145000	0.11294	-0.389000	0.06534	GGA		0.562	HRC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465649.1	NM_002152		T	49657920	C	T	49657920	3	4	672	1	0	0	0	0	1	0	0	0	7359	855	30	2	1548	2	HRC	19	49657920	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	4	49657920	9471063	118	43320	429	2								
PTPRH	5794	mdanderson.org	37	chr19	55716805	55716805	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	atccacggtgatgttagtgtGtgctgtgcttcgagtccctg	13	9	0	1	rs200319382		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr19:55716805G>A	ENST00000376350.3	-	4	530	c.508C>T	c.(508-510)Cac>Tac	p.H170Y	PTPRH_ENST00000263434.5_Intron|PTPRH_ENST00000588559.1_5'UTR	NM_002842.3	NP_002833.3	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	170	Fibronectin type-III 2. {ECO:0000255|PROSITE-ProRule:PRU00316}.				apoptotic process (GO:0006915)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)	transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			breast(2)|central_nervous_system(3)|endometrium(4)|kidney(3)|large_intestine(8)|lung(27)|ovary(2)|prostate(5)|skin(10)|upper_aerodigestive_tract(1)|urinary_tract(2)	67		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)		ATGTTAGTGTGTGCTGTGCTT	0.567													t|||	1	0.000199681	0.0	0.0	5008	,	,		19765	0.001		0.0	False		,,,				2504	0.0															0													162	144	150					19																	55716805		2203	4299	6502	SO:0001583	missense	5794				CCDS33110.1, CCDS54321.1	19q13.4	2013-02-11				ENSG00000080031		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Fibronectin type III domain containing"	9672	protein-coding gene	gene with protein product		602510				8294459	Standard	XM_006723312		Approved	SAP-1	uc002qjq.3	Q9HD43		ENST00000376350.3:c.508C>T	19.37:g.55716805G>A	ENSP00000365528:p.His170Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	C9JCH2|Q15426|Q2NKN9|Q2NKP0	Missense_Mutation	SNP	ENST00000376350.3	37	CCDS33110.1	.	.	.	.	.	.	.	.	.	.	t	14.77	2.635065	0.47049	.	.	ENSG00000080031	ENST00000376350	T	0.57436	0.4	3.93	-1.55	0.08558	Fibronectin, type III (4);Immunoglobulin-like fold (1);	3.173960	0.01664	N	0.025272	T	0.37046	0.0989	N	0.14661	0.345	0.09310	N	1	B	0.31519	0.327	B	0.35607	0.206	T	0.21759	-1.0236	10	0.51188	T	0.08	.	4.2695	0.10780	0.0:0.3384:0.3199:0.3416	.	170	Q9HD43	PTPRH_HUMAN	Y	170	ENSP00000365528:H170Y	ENSP00000365528:H170Y	H	-	1	0	PTPRH	60408617	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-2.994000	0.00656	-0.644000	0.05465	-2.191000	0.00312	CAC		0.567	PTPRH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452649.1			A	55716805	G	A	55716805	3	1	672	1	0	0	0	0	1	0	0	0	12816	1377	48	2	2907	2	PTPRH	19	55716805	Missense_Mutation	SNP	G	TCGA-KN-8436-01A-11D-2310-10	6058885	55716805	3412178	119	43321										
PEG3	5178	ucsc.edu;mdanderson.org	37	chr19	57328023	57328023	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cacgttcacgttcacgttcaTgttcacgctcattatctttg	6	12	6	0	rs79960989	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr19:57328023T>C	ENST00000326441.9	-	10	2150	c.1787A>G	c.(1786-1788)cAt>cGt	p.H596R	PEG3_ENST00000593695.1_Missense_Mutation_p.H470R|ZIM2_ENST00000221722.5_Intron|ZIM2_ENST00000593711.1_Intron|ZIM2_ENST00000391708.3_Intron|ZIM2_ENST00000599935.1_Intron|PEG3_ENST00000423103.2_Missense_Mutation_p.H596R|ZIM2_ENST00000601070.1_Intron|PEG3_ENST00000598410.1_Missense_Mutation_p.H472R	NM_006210.2	NP_006201.1	Q9GZU2	PEG3_HUMAN	paternally expressed 3	596					apoptotic process (GO:0006915)|genetic imprinting (GO:0071514)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)			NS(1)|biliary_tract(4)|breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(27)|lung(84)|ovary(8)|pancreas(5)|prostate(6)|skin(8)|stomach(2)|upper_aerodigestive_tract(6)	170		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		ttcacgttcatgttcacgctc	0.458													T|||	60	0.0119808	0.0424	0.0043	5008	,	,		21623	0.001		0.0	False		,,,				2504	0.0															0								T	ARG/HIS,ARG/HIS,ARG/HIS,ARG/HIS,,,ARG/HIS,	134,4272	96.2+/-134.9	2,130,2071	107	83	91		1787,1409,1787,1415,,,1787,	-0.9	0	19	dbSNP_131	91	0,8600		0,0,4300	yes	missense,missense,missense,missense,intron,intron,missense,intron	PEG3,ZIM2	NM_001146184.1,NM_001146185.1,NM_001146186.1,NM_001146187.1,NM_001146326.1,NM_001146327.1,NM_006210.2,NM_015363.4	29,29,29,29,,,29,	2,130,6371	CC,CT,TT		0.0,3.0413,1.0303	benign,benign,benign,benign,,,benign,	596/1589,470/1463,596/1589,472/1465,,,596/1589,	57328023	134,12872	2203	4300	6503	SO:0001583	missense	5178			AB006625	CCDS12948.1, CCDS58684.1, CCDS58685.1	19q13.4	2013-01-09				ENSG00000198300		"Zinc fingers, C2H2-type", "-", "-", "-"	8826	protein-coding gene	gene with protein product		601483				9149948	Standard	NM_006210		Approved	ZKSCAN22, KIAA0287, ZNF904, ZSCAN24	uc010etr.2	Q9GZU2		ENST00000326441.9:c.1787A>G	19.37:g.57328023T>C	ENSP00000326581:p.His596Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2B8|B4DIM4|C9JP50|P78418|Q5H9P9|Q7Z7H7|Q8TF75|Q9GZY2	Missense_Mutation	SNP	ENST00000326441.9	37	CCDS12948.1	17	0.007783882783882784	16	0.032520325203252036	1	0.0027624309392265192	0	0.0	0	0.0	T	0.007	-2.013031	0.00422	0.030413	0.0	ENSG00000198300	ENST00000326441;ENST00000423103	T;T	0.03004	4.08;4.08	1.69	-0.871	0.10642	.	.	.	.	.	T	0.00300	0.0009	N	0.00308	-1.67	.	.	.	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.45702	-0.9243	8	0.02654	T	1	.	3.022	0.06078	0.0:0.5185:0.2895:0.192	.	472;596;531	A7E2B8;Q9GZU2;Q96Q96	.;PEG3_HUMAN;.	R	596	ENSP00000326581:H596R;ENSP00000403051:H596R	ENSP00000326581:H596R	H	-	2	0	ZIM2	62019835	0.000000	0.05858	0.002000	0.10522	0.108000	0.19459	-0.752000	0.04797	-0.083000	0.12618	-0.317000	0.08691	CAT		0.458	PEG3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416099.2			C	57328023	T	C	57328023	3	2	672	1	0	0	0	0	1	0	0	0	11727	1464	51	3	2983	3	PEG3	19	57328023	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	1611218	57328023	1800960	120	43322										
SIRPB1	10326	mdanderson.org	37	chr20	1585454	1585454	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ctgcaaggtgacgtgggccaCctcgcagatgacttgagagt	14	10	0	4			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr20:1585454C>T	ENST00000381605.4	-	1	141				SIRPB1_ENST00000568365.1_Missense_Mutation_p.V229M|SIRPB1_ENST00000279477.7_Missense_Mutation_p.V229M|RP4-576H24.4_ENST00000564763.1_Intron|SIRPB1_ENST00000381603.3_Intron|SIRPB1_ENST00000381596.1_5'Flank	NM_006065.3	NP_006056.2	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1						cell surface receptor signaling pathway (GO:0007166)|innate immune response (GO:0045087)|signal transduction (GO:0007165)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)				central_nervous_system(2)|kidney(2)|large_intestine(4)|lung(16)|ovary(1)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)	31						ACGTGGGCCACCTCGCAGATG	0.617																																																0													27	27	27					20																	1585454		178	712	890	SO:0001627	intron_variant	10326			Y10376	CCDS13019.1, CCDS42850.1, CCDS46571.1	20p13	2013-01-11			ENSG00000101307	ENSG00000101307		"Signal-regulatory proteins", "CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C1-set domain containing"	15928	protein-coding gene	gene with protein product		603889				9062191, 16339511	Standard	NM_001083910		Approved	SIRP-BETA-1, CD172b	uc010gai.3	O00241	OTTHUMG00000031676	ENST00000381605.4:c.76+15060G>A	20.37:g.1585454C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NLM2|B2R8V0|Q5TFQ9|Q5TFR0|Q8TB12|Q9H1U5|Q9Y4V0	Missense_Mutation	SNP	ENST00000381605.4	37	CCDS13019.1	.	.	.	.	.	.	.	.	.	.	.	17.10	3.303595	0.60305	.	.	ENSG00000101307	ENST00000279477	T	0.13538	2.58	2.24	2.24	0.28232	Immunoglobulin-like (1);Immunoglobulin C1-set (2);Immunoglobulin-like fold (1);	.	.	.	.	T	0.42314	0.1197	H	0.96518	3.835	0.80722	D	1	D	0.67145	0.996	P	0.62382	0.901	T	0.51156	-0.8741	9	0.66056	D	0.02	.	7.9259	0.29874	0.0:1.0:0.0:0.0	.	229	Q5TFQ8	SIRBL_HUMAN	M	229	ENSP00000279477:V229M	ENSP00000279477:V229M	V	-	1	0	SIRPB1	1533454	0.730000	0.28100	0.997000	0.53966	0.345000	0.29048	0.345000	0.19979	1.232000	0.43678	0.195000	0.17529	GTG		0.617	SIRPB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000077555.2	NM_006065		T	1585454	C	T	1585454	1	4	672	0	1	0	0	0	0	0	0	0	14346	507	18	2		2	SIRPB1	20	1585454	Intron	SNP	C	TCGA-KN-8436-01A-11D-2310-10		1585454	61440066	121	43323										
JAG1	182	mdanderson.org	37	chr20	10621581	10621581	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	atcccgtatatcttcagcagActggaaaaacaattgtcaga	7	9	3	2			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr20:10621581A>G	ENST00000254958.5	-	25	3564	c.3049T>C	c.(3049-3051)Tct>Cct	p.S1017P	JAG1_ENST00000423891.2_Splice_Site_p.S858P	NM_000214.2	NP_000205.1	P78504	JAG1_HUMAN	jagged 1	1017					angiogenesis (GO:0001525)|aorta morphogenesis (GO:0035909)|auditory receptor cell differentiation (GO:0042491)|blood vessel remodeling (GO:0001974)|cardiac neural crest cell development involved in outflow tract morphogenesis (GO:0061309)|cardiac right ventricle morphogenesis (GO:0003215)|cardiac septum morphogenesis (GO:0060411)|cell fate determination (GO:0001709)|ciliary body morphogenesis (GO:0061073)|distal tubule development (GO:0072017)|endocardial cushion cell development (GO:0061444)|endothelial cell differentiation (GO:0045446)|hemopoiesis (GO:0030097)|keratinocyte differentiation (GO:0030216)|loop of Henle development (GO:0072070)|morphogenesis of an epithelial sheet (GO:0002011)|myoblast differentiation (GO:0045445)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of stem cell differentiation (GO:2000737)|nervous system development (GO:0007399)|neuronal stem cell maintenance (GO:0097150)|Notch receptor processing (GO:0007220)|Notch signaling involved in heart development (GO:0061314)|Notch signaling pathway (GO:0007219)|positive regulation of myeloid cell differentiation (GO:0045639)|positive regulation of Notch signaling pathway (GO:0045747)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|pulmonary artery morphogenesis (GO:0061156)|pulmonary valve morphogenesis (GO:0003184)|regulation of cell migration (GO:0030334)|regulation of cell proliferation (GO:0042127)|response to muramyl dipeptide (GO:0032495)|T cell mediated immunity (GO:0002456)	apical part of cell (GO:0045177)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|growth factor activity (GO:0008083)|Notch binding (GO:0005112)|structural molecule activity (GO:0005198)			biliary_tract(1)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(10)|lung(14)|ovary(2)|pancreas(1)|urinary_tract(1)	44						TCTTCAGCAGACTGGAAAAAC	0.408									Alagille Syndrome																																							0													92	83	86					20																	10621581		2203	4300	6503	SO:0001630	splice_region_variant	182	Familial Cancer Database	ALGS1, ALGS2.Alagille-Watson syndrome	U61276	CCDS13112.1	20p12.1-p11.23	2011-05-12	2010-06-24		ENSG00000101384	ENSG00000101384		"CD molecules"	6188	protein-coding gene	gene with protein product		601920	"Alagille syndrome"	AGS, JAGL1		7697721, 9207788	Standard	NM_000214		Approved	AHD, AWS, HJ1, CD339	uc002wnw.2	P78504	OTTHUMG00000031872	ENST00000254958.5:c.3049-1T>C	20.37:g.10621581A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0AV43|B4DYR1|E9PCF9|O14902|O15122|Q15816	Missense_Mutation	SNP	ENST00000254958.5	37	CCDS13112.1	.	.	.	.	.	.	.	.	.	.	A	18.01	3.527328	0.64860	.	.	ENSG00000101384	ENST00000254958;ENST00000423891	D;D	0.87256	-2.22;-2.23	5.83	5.83	0.93111	.	0.000000	0.85682	D	0.000000	T	0.77280	0.4107	N	0.08118	0	0.80722	D	1	B	0.09022	0.002	B	0.08055	0.003	T	0.73129	-0.4080	10	0.62326	D	0.03	.	16.2009	0.82078	1.0:0.0:0.0:0.0	.	1017	P78504	JAG1_HUMAN	P	1017;858	ENSP00000254958:S1017P;ENSP00000389519:S858P	ENSP00000254958:S1017P	S	-	1	0	JAG1	10569581	1.000000	0.71417	1.000000	0.80357	0.893000	0.52053	6.915000	0.75770	2.235000	0.73313	0.533000	0.62120	TCT		0.408	JAG1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_000214	Missense_Mutation	G	10621581	A	G	10621581	5	3	672	1	0	0	0	0	0	0	1	0	7941	289	10	3	615	3	JAG1	20	10621581	Splice_Site	SNP	A	TCGA-KN-8436-01A-11D-2310-10	9036127	10621581	52403939	122	43324										
BAGE	85319	hgsc.bcm.edu;mdanderson.org	37	chr21	11097574	11097574	+	RNA	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gccatcttcaggctccaaccTccagctcaccacaggggact	8	17	3	0	rs55673353	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr21:11097574T>A	ENST00000470054.1	-	0	295							Q86Y30	BAGE2_HUMAN	B melanoma antigen family, member 2							extracellular region (GO:0005576)								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)		ggctccaacctccagctcacc	0.542																																																0													57	74	68					21																	11097574		1412	2555	3967			574			AF218570		21p	2009-03-13			ENSG00000187172	ENSG00000187172			15723	protein-coding gene	gene with protein product	"cancer/testis antigen family 2, member 2"					12461691	Standard	NM_182482		Approved	CT2.2		Q86Y30	OTTHUMG00000074128		21.37:g.11097574T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K925|Q08ER0	Missense_Mutation	SNP	ENST00000470054.1	37																																																																																					0.542	BAGE2-001	KNOWN	basic	processed_transcript	pseudogene	OTTHUMT00000157417.3	NM_182482		A	11097574	T	A	11097574	1	1	672	0	1	0	0	0	0	0	0	0	1291	1550	54	5		5	BAGE	21	11097574	RNA	SNP	T	TCGA-KN-8436-01A-11D-2310-10		11097574	37032321	123	43325										
ERG	2078	mdanderson.org	37	chr21	39817391	39817391	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gaccctggctgggggttgagAcagccaatcctgctgaggga	16	10	0	2			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr21:39817391A>G	ENST00000417133.2	-	4	378	c.193T>C	c.(193-195)Tct>Cct	p.S65P	ERG_ENST00000398905.1_Missense_Mutation_p.S58P|ERG_ENST00000442448.1_Missense_Mutation_p.S65P|ERG_ENST00000398919.2_Missense_Mutation_p.S65P|ERG_ENST00000398911.1_Missense_Mutation_p.S65P|ERG_ENST00000398910.1_Missense_Mutation_p.S65P|ERG_ENST00000398897.1_Intron|ERG_ENST00000398907.1_Missense_Mutation_p.S58P|ERG_ENST00000288319.7_Missense_Mutation_p.S58P|ERG_ENST00000429727.2_Missense_Mutation_p.S58P|ERG_ENST00000453032.2_Intron	NM_001136154.1|NM_001243432.1	NP_001129626.1|NP_001230361.1	Q12809	KCNH2_HUMAN	v-ets avian erythroblastosis virus E26 oncogene homolog	0	PAS. {ECO:0000255|PROSITE- ProRule:PRU00140}.		T -> P (in LQT2; dbSNP:rs28933095). {ECO:0000269|PubMed:12354768, ECO:0000269|PubMed:15840476}.		cardiac muscle contraction (GO:0060048)|cellular response to drug (GO:0035690)|membrane depolarization during action potential (GO:0086010)|membrane repolarization during action potential (GO:0086011)|membrane repolarization during cardiac muscle cell action potential (GO:0086013)|negative regulation of potassium ion export (GO:1902303)|negative regulation of potassium ion transmembrane transport (GO:1901380)|positive regulation of potassium ion transmembrane transport (GO:1901381)|potassium ion export (GO:0071435)|potassium ion homeostasis (GO:0055075)|potassium ion transmembrane transport (GO:0071805)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of heart rate by hormone (GO:0003064)|regulation of membrane potential (GO:0042391)|regulation of membrane repolarization (GO:0060306)|regulation of potassium ion transmembrane transport (GO:1901379)|regulation of ventricular cardiac muscle cell membrane repolarization (GO:0060307)|synaptic transmission (GO:0007268)|ventricular cardiac muscle cell action potential (GO:0086005)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|nuclear envelope (GO:0005635)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|identical protein binding (GO:0042802)|inward rectifier potassium channel activity (GO:0005242)|phosphorelay sensor kinase activity (GO:0000155)|protein homodimerization activity (GO:0042803)|ubiquitin protein ligase binding (GO:0031625)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated potassium channel activity involved in ventricular cardiac muscle cell action potential repolarization (GO:1902282)		EWSR1/ERG(178)|NDRG1/ERG(5)|TMPRSS2/ERG(3582)|FUS/ERG(167)|SLC45A3/ERG(50)	lung(2)|ovary(1)|skin(1)	4		Prostate(19;3.6e-06)			Alfuzosin(DB00346)|Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Chlorpromazine(DB00477)|Cisapride(DB00604)|Dofetilide(DB00204)|Doxazosin(DB00590)|Doxepin(DB01142)|Dronedarone(DB04855)|Halofantrine(DB01218)|Ibutilide(DB00308)|Imipramine(DB00458)|Miconazole(DB01110)|Pimozide(DB01100)|Prazosin(DB00457)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terazosin(DB01162)|Thioridazine(DB00679)|Verapamil(DB00661)	GGGGGTTGAGACAGCCAATCC	0.567			T	"EWSR1, TMPRSS2, ELF4, FUS, HERPUD1, NDRG1"	"Ewing sarcoma, prostate, AML"																																Esophageal Squamous(130;336 1700 3010 3083 40589)		Dom	yes		21	21q22.3	2078	v-ets erythroblastosis virus E26 oncogene like (avian)		"M, E, L"	0													99	82	88					21																	39817391		2203	4300	6503	SO:0001583	missense	2078				CCDS13657.1, CCDS13658.1, CCDS46648.1, CCDS46649.1, CCDS58789.1	21q22.3	2013-07-09	2013-07-09		ENSG00000157554	ENSG00000157554			3446	protein-coding gene	gene with protein product	"v-ets avian erythroblastosis virus E26 oncogene related", "transcriptional regulator ERG (transforming protein ERG)", "v-ets erythroblastosis virus E26 oncogene like", "TMPRSS2-ERG prostate cancer specific"	165080	"v-ets avian erythroblastosis virus E26 oncogene related"			3274086	Standard	NM_001136154		Approved	erg-3, p55	uc002yxa.3	P11308	OTTHUMG00000090767	ENST00000417133.2:c.193T>C	21.37:g.39817391A>G	ENSP00000414150:p.Ser65Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A5H1P7|C4PFH9|D3DX04|O75418|O75680|Q708S9|Q9BT72|Q9BUT7|Q9H3P0	Missense_Mutation	SNP	ENST00000417133.2	37	CCDS46648.1	.	.	.	.	.	.	.	.	.	.	A	13.07	2.128379	0.37533	.	.	ENSG00000157554	ENST00000398905;ENST00000398907;ENST00000288319;ENST00000398911;ENST00000417133;ENST00000398910;ENST00000442448;ENST00000398919;ENST00000429727	T;T;T;T;T;T;T;T	0.15256	2.46;2.44;2.46;2.45;2.46;2.45;2.45;2.46	5.77	3.1	0.35709	.	0.355623	0.28828	N	0.014019	T	0.11281	0.0275	N	0.19112	0.55	0.41687	D	0.989328	B;B;B;B;B	0.11235	0.001;0.0;0.004;0.001;0.0	B;B;B;B;B	0.17098	0.006;0.001;0.017;0.003;0.0	T	0.09751	-1.0660	10	0.39692	T	0.17	.	10.8199	0.46599	0.851:0.0:0.149:0.0	.	58;65;65;65;58	B4E3C5;P11308;P11308-6;P11308-1;P11308-4	.;ERG_HUMAN;.;.;.	P	58;58;58;65;65;65;65;65;58	ENSP00000381877:S58P;ENSP00000381879:S58P;ENSP00000288319:S58P;ENSP00000381882:S65P;ENSP00000414150:S65P;ENSP00000381881:S65P;ENSP00000394694:S65P;ENSP00000381891:S65P	ENSP00000288319:S58P	S	-	1	0	ERG	38739261	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.432000	0.59922	1.011000	0.39340	0.533000	0.62120	TCT		0.567	ERG-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000207532.2	NM_182918		G	39817391	A	G	39817391	3	3	672	1	0	0	0	0	1	0	0	0	5224	275	10	3	1303	3	ERG	21	39817391	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	28719817	39817391	8312504	124	43326										
KRTAP10-10	353333	ucsc.edu	37	chr21	46057634	46057634	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tgctgtgtgcctgtctgctgTgtgcccgtctgctgcgtgcc	14	13	2	0	rs61029972	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr21:46057634T>C	ENST00000380095.1	+	1	362	c.300T>C	c.(298-300)tgT>tgC	p.C100C	TSPEAR_ENST00000323084.4_Intron	NM_181688.1	NP_859016.1	P60014	KR10A_HUMAN	keratin associated protein 10-10	100	15 X 5 AA repeats of C-C-X(3).					keratin filament (GO:0045095)				NS(1)|endometrium(2)|kidney(1)|lung(6)|prostate(1)|skin(2)	13						ctgtctgctgtgtgcccgtct	0.632													C|||	539	0.107628	0.2383	0.0591	5008	,	,		18755	0.0109		0.0557	False		,,,				2504	0.1186															0													126	121	123					21																	46057634		2203	4298	6501	SO:0001819	synonymous_variant	353333			AJ566387	CCDS33585.1	21q22.3	2006-03-13			ENSG00000221859	ENSG00000221859		"Keratin associated proteins"	22972	protein-coding gene	gene with protein product							Standard	NM_181688		Approved	KAP10.10, KAP18.10, KRTAP18-10	uc002zfq.3	P60014	OTTHUMG00000057631	ENST00000380095.1:c.300T>C	21.37:g.46057634T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000380095.1	37	CCDS33585.1																																																																																				0.632	KRTAP10-10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128034.1	NM_181688		C	46057634	T	C	46057634	2	2	672	1	0	0	0	0	0	0	0	1	8513	1702	59	3		3	KRTAP10-10	21	46057634	Silent	SNP	T	TCGA-KN-8436-01A-11D-2310-10	6240243	46057634	2072261	125	43327										
AIFM3	150209	ucsc.edu	37	chr22	21334338	21334338	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ggtgatcgccgtggccagcaTgaactacgatcccattgtgt	12	11	0	2			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr22:21334338T>C	ENST00000399167.2	+	19	1922	c.1682T>C	c.(1681-1683)aTg>aCg	p.M561T	AIFM3_ENST00000465606.1_3'UTR|LZTR1_ENST00000479606.1_3'UTR|LZTR1_ENST00000215739.8_5'Flank|LZTR1_ENST00000389355.3_5'Flank|AIFM3_ENST00000440238.2_Missense_Mutation_p.M561T|AIFM3_ENST00000399163.2_Missense_Mutation_p.M561T|XXbac-B135H6.18_ENST00000610278.1_lincRNA|AIFM3_ENST00000333607.6_Missense_Mutation_p.M561T|AIFM3_ENST00000335375.5_Missense_Mutation_p.M549T|AIFM3_ENST00000405089.1_Missense_Mutation_p.M567T	NM_144704.2	NP_653305.1	Q96NN9	AIFM3_HUMAN	apoptosis-inducing factor, mitochondrion-associated, 3	561					cell redox homeostasis (GO:0045454)|execution phase of apoptosis (GO:0097194)	endoplasmic reticulum (GO:0005783)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	2 iron, 2 sulfur cluster binding (GO:0051537)|flavin adenine dinucleotide binding (GO:0050660)|metal ion binding (GO:0046872)|oxidoreductase activity (GO:0016491)			breast(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(5)|ovary(3)|prostate(1)|skin(2)|urinary_tract(1)	21	all_cancers(11;3.71e-26)|all_epithelial(7;1.59e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0367)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			GTGGCCAGCATGAACTACGAT	0.617																																																0													71	57	61					22																	21334338		2203	4300	6503	SO:0001583	missense	150209			AK094844	CCDS13786.1, CCDS33605.1, CCDS54503.1	22q11.21	2007-05-03			ENSG00000183773	ENSG00000183773			26398	protein-coding gene	gene with protein product						15764604	Standard	NM_144704		Approved	AIFL, FLJ30473		Q96NN9	OTTHUMG00000150804	ENST00000399167.2:c.1682T>C	22.37:g.21334338T>C	ENSP00000382120:p.Met561Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B7WP37|D3DX37|D3DX38|Q6ZT44|Q8N1V3|Q8N5E0	Missense_Mutation	SNP	ENST00000399167.2	37	CCDS13786.1	.	.	.	.	.	.	.	.	.	.	T	22.7	4.329743	0.81690	.	.	ENSG00000183773;ENSG00000183773;ENSG00000183773;ENSG00000183773;ENSG00000183773;ENSG00000183773;ENSG00000099949	ENST00000399167;ENST00000399163;ENST00000405089;ENST00000335375;ENST00000440238;ENST00000333607;ENST00000539817	T;T;T;T;T;T	0.42513	0.97;0.97;0.97;0.97;0.97;0.97	4.87	4.87	0.63330	FAD/NAD-linked reductase, dimerisation (1);Pyridine nucleotide-disulphide oxidoreductase, dimerisation (1);	0.000000	0.85682	D	0.000000	T	0.62417	0.2426	M	0.84511	2.7	0.80722	D	1	D;P;P;P;P;P	0.65815	0.995;0.814;0.865;0.93;0.93;0.885	P;P;B;P;P;B	0.58721	0.844;0.774;0.306;0.62;0.62;0.416	T	0.69250	-0.5194	10	0.66056	D	0.02	-4.5669	12.4825	0.55852	0.0:0.0:0.0:1.0	.	549;1;549;567;561;561	B7Z9S7;F5GXU8;B7Z376;Q96NN9-2;Q96NN9-3;Q96NN9	.;.;.;.;.;AIFM3_HUMAN	T	561;561;567;549;561;561;1	ENSP00000382120:M561T;ENSP00000382116:M561T;ENSP00000385800:M567T;ENSP00000335369:M549T;ENSP00000390798:M561T;ENSP00000327671:M561T	ENSP00000327671:M561T	M	+	2	0	AIFM3;LZTR1	19664338	1.000000	0.71417	1.000000	0.80357	0.956000	0.61745	6.993000	0.76245	2.047000	0.60756	0.533000	0.62120	ATG		0.617	AIFM3-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000320150.1	NM_144704		C	21334338	T	C	21334338	3	2	672	1	0	0	0	0	1	0	0	0	428	1464	51	3	1770	3	AIFM3	22	21334338	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10		21334338	29970228	126	43328										
FAM118A	55007	mdanderson.org	37	chr22	45723920	45723920	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cagaacaagcccatggagtcCctggacttgaaggacaagac	11	11	0	3	rs111386114		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chr22:45723920C>T	ENST00000216214.3	+	5	1332	c.498C>T	c.(496-498)tcC>tcT	p.S166S	FAM118A_ENST00000441876.2_Silent_p.S166S|FAM118A_ENST00000405548.3_5'Flank|FAM118A_ENST00000405673.1_Silent_p.S166S	NM_001104595.1	NP_001098065.1	Q9NWS6	F118A_HUMAN	family with sequence similarity 118, member A	166						integral component of membrane (GO:0016021)				endometrium(2)|kidney(2)|large_intestine(2)|lung(3)|stomach(1)|upper_aerodigestive_tract(1)	11		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		CCATGGAGTCCCTGGACTTGA	0.617																																																0													11	10	10					22																	45723920		2198	4293	6491	SO:0001819	synonymous_variant	55007			BC013696	CCDS14065.1	22q13.3	2006-04-26	2006-04-26	2006-04-26	ENSG00000100376	ENSG00000100376			1313	protein-coding gene	gene with protein product			"chromosome 22 open reading frame 8"	C22orf8		12477932	Standard	NM_001104595		Approved	FLJ20635, bK268H5.C22.4	uc003bga.4	Q9NWS6	OTTHUMG00000151338	ENST00000216214.3:c.498C>T	22.37:g.45723920C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KWG4|B4DY02|Q5TII5|Q96CY3	Silent	SNP	ENST00000216214.3	37	CCDS14065.1																																																																																				0.617	FAM118A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322260.1	NM_017911		T	45723920	C	T	45723920	2	4	672	1	0	0	0	0	0	0	0	1	5415	610	22	2		2	FAM118A	22	45723920	Silent	SNP	C	TCGA-KN-8436-01A-11D-2310-10	24389582	45723920	5580646	127	43329										
FAM9C	171484	mdanderson.org	37	chrX	13058890	13058890	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	atcatacctttttagttgtgTtgttctcaaaacatttttaa	4	6	2	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chrX:13058890T>C	ENST00000333995.3	-	5	446	c.316A>G	c.(316-318)Aca>Gca	p.T106A	FAM9C_ENST00000542843.1_3'UTR|FAM9C_ENST00000380625.3_Missense_Mutation_p.T106A			Q8IZT9	FAM9C_HUMAN	family with sequence similarity 9, member C	106						nucleus (GO:0005634)				NS(1)|central_nervous_system(1)|kidney(1)|large_intestine(1)|upper_aerodigestive_tract(1)	5						TTTAGTTGTGTTGTTCTCAAA	0.299																																																0													104	81	89					X																	13058890		2202	4294	6496	SO:0001583	missense	171484				CCDS35203.1	Xp22.32	2013-03-14			ENSG00000187268	ENSG00000187268			18405	protein-coding gene	gene with protein product	"testis expressed 39C"	300479					Standard	NM_174901		Approved	TEX39C	uc004cvh.2	Q8IZT9	OTTHUMG00000021143	ENST00000333995.3:c.316A>G	X.37:g.13058890T>C	ENSP00000334430:p.Thr106Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9G7|Q5HYJ6	Missense_Mutation	SNP	ENST00000333995.3	37	CCDS35203.1	.	.	.	.	.	.	.	.	.	.	T	0.011	-1.694937	0.00731	.	.	ENSG00000187268	ENST00000380625;ENST00000333995	T;T	0.21191	2.02;2.02	0.588	0.588	0.17445	.	.	.	.	.	T	0.09379	0.0231	N	0.08118	0	0.09310	N	1	B	0.10296	0.003	B	0.06405	0.002	T	0.33317	-0.9873	8	0.30854	T	0.27	.	.	.	.	.	106	Q8IZT9	FAM9C_HUMAN	A	106	ENSP00000369999:T106A;ENSP00000334430:T106A	ENSP00000334430:T106A	T	-	1	0	FAM9C	12968811	0.997000	0.39634	0.001000	0.08648	0.033000	0.12548	0.391000	0.20784	0.436000	0.26393	0.150000	0.16122	ACA		0.299	FAM9C-003	KNOWN	alternative_3_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000316476.1	NM_174901		C	13058890	T	C	13058890	3	2	672	1	0	0	0	0	1	0	0	0	5668	1725	60	3	196	3	FAM9C	23	13058890	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10		13058890	142211670	128	43330										
SSX7	280658	mdanderson.org	37	chrX	52681937	52681937	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tacctagtttagtcatggccTcatactttctcttcatatac	4	11	4	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chrX:52681937T>C	ENST00000298181.5	-	3	325	c.167A>G	c.(166-168)gAg>gGg	p.E56G		NM_173358.2	NP_775494.1	Q7RTT5	SSX7_HUMAN	synovial sarcoma, X breakpoint 7	56	KRAB-related. {ECO:0000255|PROSITE- ProRule:PRU00120}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleic acid binding (GO:0003676)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(11)|skin(1)	16	Ovarian(276;0.236)					AGTCATGGCCTCATACTTTCT	0.408																																																0													141	110	120					X																	52681937		2203	4299	6502	SO:0001583	missense	280658			BK000687	CCDS14343.1	Xp11.23	2011-02-10			ENSG00000187754	ENSG00000187754			19653	protein-coding gene	gene with protein product		300542				12216073	Standard	NM_173358		Approved		uc004dqx.1	Q7RTT5	OTTHUMG00000021572	ENST00000298181.5:c.167A>G	X.37:g.52681937T>C	ENSP00000298181:p.Glu56Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000298181.5	37	CCDS14343.1	.	.	.	.	.	.	.	.	.	.	N	2.360	-0.346762	0.05208	.	.	ENSG00000187754	ENST00000298181	T	0.00808	5.67	0.56	-1.12	0.09808	Krueppel-associated box (2);Krueppel-associated box-related (1);	1.212960	0.06009	N	0.649154	T	0.00967	0.0032	L	0.35288	1.05	0.09310	N	1	B	0.16802	0.019	B	0.21151	0.033	T	0.48603	-0.9021	9	0.46703	T	0.11	.	.	.	.	.	56	Q7RTT5	SSX7_HUMAN	G	56	ENSP00000298181:E56G	ENSP00000298181:E56G	E	-	2	0	SSX7	52698662	0.131000	0.22433	0.000000	0.03702	0.011000	0.07611	0.641000	0.24720	-0.722000	0.04922	0.146000	0.16034	GAG		0.408	SSX7-001	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056671.1	NM_173358		C	52681937	T	C	52681937	3	2	672	1	0	0	0	0	1	0	0	0	15221	1551	54	3	419	3	SSX7	23	52681937	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	39623047	52681937	102588623	129	43331										
RGAG4	340526	mdanderson.org	37	chrX	71350156	71350156	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ctccttcctcctcattcttgTtccttatctcctcctcctcc	1	20	3	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chrX:71350156T>C	ENST00000545866.1	-	1	1602	c.1235A>G	c.(1234-1236)aAc>aGc	p.N412S	RGAG4_ENST00000609883.1_Missense_Mutation_p.N412S|NHSL2_ENST00000540800.1_Intron	NM_001024455.3	NP_001019626.1	Q5HYW3	RGAG4_HUMAN	retrotransposon gag domain containing 4	412										cervix(2)|endometrium(2)|kidney(3)|large_intestine(5)|lung(8)|ovary(3)|skin(1)	24	Renal(35;0.156)					CTCATTCTTGTTCCTTATctc	0.488																																																0													181	166	171					X																	71350156		2112	4196	6308	SO:0001583	missense	340526			AB082532	CCDS55446.1	Xq13.1	2008-02-05			ENSG00000242732	ENSG00000242732			29430	protein-coding gene	gene with protein product						12056414, 15716091, 16093683	Standard	NM_001024455		Approved	KIAA2001, Mar5, Mart5	uc004eaj.2	Q5HYW3	OTTHUMG00000021808	ENST00000545866.1:c.1235A>G	X.37:g.71350156T>C	ENSP00000441366:p.Asn412Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2W7|Q8NCM4|Q9NPX1	Missense_Mutation	SNP	ENST00000545866.1	37	CCDS55446.1	.	.	.	.	.	.	.	.	.	.	T	9.642	1.139364	0.21205	.	.	ENSG00000242732	ENST00000545866;ENST00000479991	T;T	0.13307	2.6;2.6	4.24	-5.78	0.02362	.	.	.	.	.	T	0.04543	0.0124	N	0.08118	0	0.09310	N	1	B	0.11235	0.004	B	0.08055	0.003	T	0.40421	-0.9564	8	.	.	.	.	3.4147	0.07372	0.1281:0.4348:0.1242:0.3129	.	412	Q5HYW3	RGAG4_HUMAN	S	412	ENSP00000441366:N412S;ENSP00000418667:N412S	.	N	-	2	0	RGAG4	71266881	0.001000	0.12720	0.000000	0.03702	0.010000	0.07245	1.051000	0.30417	-1.520000	0.01773	-0.438000	0.05819	AAC		0.488	RGAG4-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057171.1	NM_001024455		C	71350156	T	C	71350156	3	2	672	1	0	0	0	0	1	0	0	0	13288	1725	60	3	478	3	RGAG4	23	71350156	Missense_Mutation	SNP	T	TCGA-KN-8436-01A-11D-2310-10	18668219	71350156	83920404	130	43332										
LPAR4	2846	mdanderson.org	37	chrX	78010586	78010586	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	gcatgaaaatgagaagtgagActgctatttttatcaccaat	8	6	1	3			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chrX:78010586A>G	ENST00000435339.3	+	2	606	c.220A>G	c.(220-222)Act>Gct	p.T74A		NM_005296.2	NP_005287.1	Q99677	LPAR4_HUMAN	lysophosphatidic acid receptor 4	74					G-protein coupled receptor signaling pathway (GO:0007186)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|lipid binding (GO:0008289)			breast(3)|endometrium(3)|kidney(4)|large_intestine(4)|lung(16)|ovary(4)|pancreas(1)|skin(1)|upper_aerodigestive_tract(2)	38						GAGAAGTGAGACTGCTATTTT	0.393																																																0													237	194	209					X																	78010586		2203	4300	6503	SO:0001583	missense	2846			U90322	CCDS14441.1	Xq21.1	2012-08-08	2008-04-11	2008-04-11	ENSG00000147145	ENSG00000147145		"GPCR / Class A : Lysophospholipid receptors : Lysophosphatidic acid"	4478	protein-coding gene	gene with protein product		300086	"G protein-coupled receptor 23"	GPR23			Standard	NM_005296		Approved	P2Y9, P2Y5-LIKE, P2RY9, LPA4	uc010nme.3	Q99677	OTTHUMG00000021895	ENST00000435339.3:c.220A>G	X.37:g.78010586A>G	ENSP00000408205:p.Thr74Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAC7|O15132|Q502U9|Q6NSP5	Missense_Mutation	SNP	ENST00000435339.3	37	CCDS14441.1	.	.	.	.	.	.	.	.	.	.	A	14.50	2.554702	0.45487	.	.	ENSG00000147145	ENST00000435339;ENST00000373301	T;T	0.39787	1.06;1.06	3.97	3.97	0.46021	GPCR, rhodopsin-like superfamily (1);	0.000000	0.85682	D	0.000000	T	0.54532	0.1864	L	0.58583	1.82	0.46499	D	0.999075	D	0.89917	1.0	D	0.97110	1.0	T	0.50915	-0.8771	10	0.14252	T	0.57	.	11.0205	0.47715	1.0:0.0:0.0:0.0	.	74	Q99677	LPAR4_HUMAN	A	74	ENSP00000408205:T74A;ENSP00000362398:T74A	ENSP00000362398:T74A	T	+	1	0	LPAR4	77897242	1.000000	0.71417	0.980000	0.43619	0.985000	0.73830	8.627000	0.90974	1.471000	0.48121	0.345000	0.21793	ACT		0.393	LPAR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057322.2	NM_005296		G	78010586	A	G	78010586	3	3	672	1	0	0	0	0	1	0	0	0	8914	275	10	3	222	3	LPAR4	23	78010586	Missense_Mutation	SNP	A	TCGA-KN-8436-01A-11D-2310-10	6660430	78010586	77259974	131	43333										
GPR50	9248	hgsc.bcm.edu	37	chrX	150349560	150349560	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	caccagccaccctaaacccaCcactggccacatcaagccag	5	20	1	0	rs377556761|rs199797606|rs68058591		TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chrX:150349560C>T	ENST00000218316.3	+	2	1574	c.1505C>T	c.(1504-1506)aCc>aTc	p.T502I	AF003625.3_ENST00000602313.1_lincRNA	NM_004224.3	NP_004215.2	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	502	Pro-rich.		Missing (lower fasting circulating triglyceride levels). {ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:8647286, ECO:0000269|Ref.2}.		cell-cell signaling (GO:0007267)|G-protein coupled receptor signaling pathway (GO:0007186)	integral component of plasma membrane (GO:0005887)	G-protein coupled receptor activity (GO:0004930)|identical protein binding (GO:0042802)|melatonin receptor activity (GO:0008502)	p.T502_H505delTTGH(1)		breast(4)|central_nervous_system(1)|endometrium(8)|kidney(1)|large_intestine(6)|lung(14)|ovary(1)|pancreas(1)|prostate(1)|stomach(1)	38	Acute lymphoblastic leukemia(192;6.56e-05)					CCTAAACCCACCACTGGCCAC	0.612																																																1	Deletion - In frame(1)	ovary(1)											68	80	76					X																	150349560		1957	3997	5954	SO:0001583	missense	9248			U52219	CCDS44012.1	Xq28	2012-08-21			ENSG00000102195	ENSG00000102195		"GPCR / Class A : Orphans"	4506	protein-coding gene	gene with protein product		300207				9933574, 18400093	Standard	NM_004224		Approved	H9, Mel1c	uc010ntg.2	Q13585	OTTHUMG00000024166	ENST00000218316.3:c.1505C>T	X.37:g.150349560C>T	ENSP00000218316:p.Thr502Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VGG3|Q3ZAR0	Missense_Mutation	SNP	ENST00000218316.3	37	CCDS44012.1	458	0.2760699216395419	91	0.21875	100	0.3184713375796178	85	0.15625	133	0.19674556213017752	C	4.117	0.019984	0.08006	.	.	ENSG00000102195	ENST00000218316	T	0.72282	-0.64	3.47	1.66	0.24008	.	0.547897	0.19336	N	0.116768	T	0.00012	0.0000	N	0.19112	0.55	0.09310	N	1	B	0.12013	0.005	B	0.06405	0.002	T	0.12682	-1.0538	10	0.87932	D	0	-1.8077	2.4216	0.04449	0.2395:0.4806:0.0:0.2799	.	502	Q13585	MTR1L_HUMAN	I	502	ENSP00000218316:T502I	ENSP00000218316:T502I	T	+	2	0	GPR50	150100218	0.000000	0.05858	0.003000	0.11579	0.049000	0.14656	-0.093000	0.11111	0.311000	0.23014	0.529000	0.55759	ACC		0.612	GPR50-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060874.1	NM_004224		T	150349560	C	T	150349560	3	4	672	1	0	0	0	0	1	0	0	0	6704	507	18	2	1511	2	GPR50	23	150349560	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	72338974	150349560	4921000	132	43334										
GABRE	2564	mdanderson.org	37	chrX	151123190	151123190	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tacctacaagttaaggcaaaCaagccagtagagcacattga	8	9	0	2	rs1061417	byFrequency	TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chrX:151123190C>A	ENST00000370328.3	-	9	1557	c.1504G>T	c.(1504-1506)Gtt>Ttt	p.V502F	GABRE_ENST00000370325.1_3'UTR|GABRE_ENST00000483564.1_5'UTR|AF274855.1_ENST00000582865.1_RNA	NM_004961.3	NP_004952.2	P78334	GBRE_HUMAN	gamma-aminobutyric acid (GABA) A receptor, epsilon	502				V -> F (in Ref. 2; CAA70903). {ECO:0000305}.	gamma-aminobutyric acid signaling pathway (GO:0007214)|transport (GO:0006810)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|integral component of plasma membrane (GO:0005887)|postsynaptic membrane (GO:0045211)	chloride channel activity (GO:0005254)|extracellular ligand-gated ion channel activity (GO:0005230)|GABA-A receptor activity (GO:0004890)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(9)|ovary(2)|skin(1)	27	Acute lymphoblastic leukemia(192;6.56e-05)				Acamprosate(DB00659)|Adinazolam(DB00546)|Alprazolam(DB00404)|Amoxapine(DB00543)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Chlordiazepoxide(DB00475)|Cinolazepam(DB01594)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Clotiazepam(DB01559)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Fludiazepam(DB01567)|Flumazenil(DB01205)|Flurazepam(DB00690)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Isoflurane(DB00753)|Ketazolam(DB01587)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Topiramate(DB00273)|Triazolam(DB00897)	TTAAGGCAAACAAGCCAGTAG	0.547																																																0													23	23	23					X																	151123190		2203	4297	6500	SO:0001583	missense	2564			Y09765	CCDS14703.1	Xq28	2012-06-22			ENSG00000102287	ENSG00000102287		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4085	protein-coding gene	gene with protein product	"GABA(A) receptor, epsilon"	300093				9039914, 9084408	Standard	NM_004961		Approved		uc004ffi.3	P78334	OTTHUMG00000024176	ENST00000370328.3:c.1504G>T	X.37:g.151123190C>A	ENSP00000359353:p.Val502Phe	Somatic		WXS	Illumina HiSeq	Phase_I	E7ET93|O15345|O15346|Q6PCD2|Q99520	Missense_Mutation	SNP	ENST00000370328.3	37	CCDS14703.1	.	.	.	.	.	.	.	.	.	.	C	14.41	2.526136	0.44969	.	.	ENSG00000102287	ENST00000370328	D	0.81996	-1.56	5.34	2.5	0.30297	Neurotransmitter-gated ion-channel transmembrane domain (1);	0.344162	0.20485	N	0.091418	T	0.68805	0.3041	N	0.16743	0.435	0.23101	N	0.998298	P	0.50272	0.933	P	0.48030	0.564	T	0.58645	-0.7600	10	0.18710	T	0.47	.	2.8551	0.05570	0.1845:0.5352:0.1754:0.1049	rs1061417;rs1061417	502	P78334	GBRE_HUMAN	F	502	ENSP00000359353:V502F	ENSP00000359353:V502F	V	-	1	0	GABRE	150873846	0.003000	0.15002	0.979000	0.43373	0.739000	0.42172	0.123000	0.15708	0.077000	0.16863	0.600000	0.82982	GTT		0.547	GABRE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060903.1	NM_004961, NM_021990, NM_021984		A	151123190	C	A	151123190	3	1	672	1	0	0	0	0	1	0	0	0	6177	478	17	4	20	4	GABRE	23	151123190	Missense_Mutation	SNP	C	TCGA-KN-8436-01A-11D-2310-10	773630	151123190	4147370	133	43335										
ABCD1	215	mdanderson.org	37	chrX	153008788	153008788	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	cctgctctccatcacccaccGgccctccctgtggtaggtgc	9	19	2	0			TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chrX:153008788G>A	ENST00000218104.3	+	9	2378	c.1979G>A	c.(1978-1980)cGg>cAg	p.R660Q	U52111.14_ENST00000434284.1_RNA	NM_000033.3	NP_000024.2	P33897	ABCD1_HUMAN	ATP-binding cassette, sub-family D (ALD), member 1	660	ABC transporter. {ECO:0000255|PROSITE- ProRule:PRU00434}.		R -> P (in ALD; CALD-type). {ECO:0000269|PubMed:11438993}.|R -> Q (in ALD). {ECO:0000269|PubMed:21889498}.|R -> W (in ALD; CALD, ALMD and AS-types).		alpha-linolenic acid metabolic process (GO:0036109)|ATP catabolic process (GO:0006200)|cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation (GO:0006635)|fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)|linoleic acid metabolic process (GO:0043651)|long-chain fatty acid catabolic process (GO:0042758)|peroxisomal long-chain fatty acid import (GO:0015910)|peroxisomal membrane transport (GO:0015919)|peroxisome organization (GO:0007031)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|unsaturated fatty acid metabolic process (GO:0033559)|very long-chain fatty acid catabolic process (GO:0042760)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|integral component of peroxisomal membrane (GO:0005779)|membrane (GO:0016020)|mitochondrion (GO:0005739)|perinuclear region of cytoplasm (GO:0048471)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|peroxisomal fatty-acyl-CoA transporter activity (GO:0005325)|protein homodimerization activity (GO:0042803)|transporter activity (GO:0005215)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(6)|urinary_tract(2)	18	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ATCACCCACCGGCCCTCCCTG	0.692																																																0			GRCh37	CM012042	ABCD1	M							19	16	17					X																	153008788		2189	4274	6463	SO:0001583	missense	215			Z21876	CCDS14728.1	Xq28	2012-03-14			ENSG00000101986	ENSG00000101986		"ATP binding cassette transporters / subfamily D"	61	protein-coding gene	gene with protein product		300371		ALD		8441467, 6795626	Standard	NM_000033		Approved	AMN, ALDP, adrenoleukodystrophy	uc004fif.2	P33897	OTTHUMG00000024215	ENST00000218104.3:c.1979G>A	X.37:g.153008788G>A	ENSP00000218104:p.Arg660Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GTZ2	Missense_Mutation	SNP	ENST00000218104.3	37	CCDS14728.1	.	.	.	.	.	.	.	.	.	.	G	27.5	4.839976	0.91117	.	.	ENSG00000101986	ENST00000218104	D	0.99855	-7.2	4.69	4.69	0.59074	ATPase, AAA+ type, core (1);ABC transporter-like (1);	0.000000	0.64402	D	0.000017	D	0.99862	0.9935	M	0.86864	2.845	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.96260	0.9190	10	0.87932	D	0	-33.9595	15.8397	0.78835	0.0:0.0:1.0:0.0	.	660	P33897	ABCD1_HUMAN	Q	660	ENSP00000218104:R660Q	ENSP00000218104:R660Q	R	+	2	0	ABCD1	152661982	1.000000	0.71417	0.994000	0.49952	0.613000	0.37349	9.349000	0.97066	2.073000	0.62155	0.523000	0.50628	CGG		0.692	ABCD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000061041.1	NM_000033		A	153008788	G	A	153008788	3	1	672	1	0	0	0	0	1	0	0	0	60	1116	39	1	2013	1	ABCD1	23	153008788	Missense_Mutation	SNP	G	TCGA-KN-8436-01A-11D-2310-10	1885598	153008788	2261772	134	43336										
ATP6AP1	537	broad.mit.edu;hgsc.bcm.edu	37	chrX	153662709	153662745	+	Frame_Shift_Del	DEL	CCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	CCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	-													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	ttctctgtggcgtacaaggaCcagtgggaggacctgactcc							TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	CCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	CCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chrX:153662709_153662745delCCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	ENST00000369762.2	+	7	901_937	c.840_876delCCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	c.(838-876)gaccagtgggaggacctgactcccctcacctttggggtgfs	p.DQWEDLTPLTFGV280fs	GDI1_ENST00000447750.2_5'Flank	NM_001183.4	NP_001174.2	Q15904	VAS1_HUMAN	ATPase, H+ transporting, lysosomal accessory protein 1	280					ATP hydrolysis coupled proton transport (GO:0015991)|establishment of organelle localization (GO:0051656)|pH reduction (GO:0045851)|positive regulation of bone resorption (GO:0045780)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of exocytosis (GO:0045921)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of osteoclast development (GO:2001206)|proton transport (GO:0015992)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|proton-transporting two-sector ATPase complex (GO:0016469)|proton-transporting V-type ATPase, V1 domain (GO:0033180)|vacuole (GO:0005773)	ATP binding (GO:0005524)|proton-transporting ATP synthase activity, rotational mechanism (GO:0046933)|proton-transporting ATPase activity, rotational mechanism (GO:0046961)|Rab GTPase binding (GO:0017137)|transporter activity (GO:0005215)	p.L288R(1)		breast(1)|endometrium(2)|large_intestine(2)|lung(4)|ovary(5)	14	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)					CGTACAAGGACCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTGCAGGAACTCA	0.57																																																1	Substitution - Missense(1)	ovary(1)																																								SO:0001589	frameshift_variant	537			D16469	CCDS35451.1	Xq28	2010-03-10	2003-08-28	2003-08-29	ENSG00000071553	ENSG00000071553			868	protein-coding gene	gene with protein product		300197	"ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"	ATP6S1, ATP6IP1		8733135, 8281148	Standard	NM_001183		Approved	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2	uc004flf.1	Q15904	OTTHUMG00000033291	ENST00000369762.2:c.840_876delCCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	X.37:g.153662709_153662745delCCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	ENSP00000358777:p.Asp280fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6ZKI4|Q8NBT4|Q9H0C7	Frame_Shift_Del	DEL	ENST00000369762.2	37	CCDS35451.1																																																																																				0.57	ATP6AP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000081639.4	NM_001183		-	153662745	CCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	-	153662709	7	5	672	1	0	1	0	1	0	0	0	0	1165	506	18	0	866	0	ATP6AP1	23	153662709	Frame_Shift_Del	DEL	CCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	TCGA-KN-8436-01A-11D-2310-10	653921	153662709	1607851	135	43337	430	2								
ATP6AP1	537	bcgsc.ca	37	chrX	153662710	153662746	+	Frame_Shift_Del	DEL	CCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	CCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	-													0.0232558139534884	3	1	0.662596153846154	NA	0.662596153846154	0.142857142857143	1	0	tctctgtggcgtacaaggacCagtgggaggacctgactccc							TCGA-KN-8436-01A-11D-2310-10	TCGA-KN-8436-11A-01D-2311-10	CCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	CCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	f150a5ed-a759-488c-8e9f-ef78b544382a	eebc909a-ec85-460b-8c31-fa959090bf28	g.chrX:153662710_153662746delCCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	ENST00000369762.2	+	7	902_938	c.841_877delCCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	c.(841-879)ccagtgggaggacctgactcccctcacctttggggtgagfs	p.PVGGPDSPHLWGE281fs	GDI1_ENST00000447750.2_5'Flank	NM_001183.4	NP_001174.2	Q15904	VAS1_HUMAN	ATPase, H+ transporting, lysosomal accessory protein 1	281					ATP hydrolysis coupled proton transport (GO:0015991)|establishment of organelle localization (GO:0051656)|pH reduction (GO:0045851)|positive regulation of bone resorption (GO:0045780)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of exocytosis (GO:0045921)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of osteoclast development (GO:2001206)|proton transport (GO:0015992)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|proton-transporting two-sector ATPase complex (GO:0016469)|proton-transporting V-type ATPase, V1 domain (GO:0033180)|vacuole (GO:0005773)	ATP binding (GO:0005524)|proton-transporting ATP synthase activity, rotational mechanism (GO:0046933)|proton-transporting ATPase activity, rotational mechanism (GO:0046961)|Rab GTPase binding (GO:0017137)|transporter activity (GO:0005215)	p.L288R(1)		breast(1)|endometrium(2)|large_intestine(2)|lung(4)|ovary(5)	14	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)					GTACAAGGACCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTGCAGGAACTCAA	0.574																																																1	Substitution - Missense(1)	ovary(1)																																								SO:0001589	frameshift_variant	537			D16469	CCDS35451.1	Xq28	2010-03-10	2003-08-28	2003-08-29	ENSG00000071553	ENSG00000071553			868	protein-coding gene	gene with protein product		300197	"ATPase, H+ transporting, lysosomal (vacuolar proton pump), subunit 1"	ATP6S1, ATP6IP1		8733135, 8281148	Standard	NM_001183		Approved	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2	uc004flf.1	Q15904	OTTHUMG00000033291	ENST00000369762.2:c.841_877delCCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	X.37:g.153662710_153662746delCCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	ENSP00000358777:p.Pro281fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6ZKI4|Q8NBT4|Q9H0C7	Frame_Shift_Del	DEL	ENST00000369762.2	37	CCDS35451.1																																																																																				0.574	ATP6AP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000081639.4	NM_001183		-	153662746	CCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	-	153662710	7	5	672	1	0	1	0	1	0	0	0	0	1165	595	21	0	867	0	ATP6AP1	23	153662710	Frame_Shift_Del	DEL	CCAGTGGGAGGACCTGACTCCCCTCACCTTTGGGGTG	TCGA-KN-8436-01A-11D-2310-10	1	153662710	1607850	136	43338	430	2								
MTOR	2475	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	11174395	11174395	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgtccatcagcctccagttcAgcaaggggtcatagacaaag	10	11	3	1			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr1:11174395A>C	ENST00000361445.4	-	53	7356	c.7280T>G	c.(7279-7281)cTg>cGg	p.L2427R	MTOR_ENST00000376838.1_Missense_Mutation_p.L632R	NM_004958.3	NP_004949.1	P42345	MTOR_HUMAN	mechanistic target of rapamycin (serine/threonine kinase)	2427	PI3K/PI4K. {ECO:0000255|PROSITE- ProRule:PRU00269}.				cell growth (GO:0016049)|cellular response to hypoxia (GO:0071456)|cellular response to nutrient levels (GO:0031669)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|germ cell development (GO:0007281)|growth (GO:0040007)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|negative regulation of autophagy (GO:0010507)|negative regulation of cell size (GO:0045792)|negative regulation of macroautophagy (GO:0016242)|negative regulation of NFAT protein import into nucleus (GO:0051534)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|phosphatidylinositol-mediated signaling (GO:0048015)|phosphorylation (GO:0016310)|positive regulation of actin filament polymerization (GO:0030838)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of gene expression (GO:0010628)|positive regulation of lamellipodium assembly (GO:0010592)|positive regulation of lipid biosynthetic process (GO:0046889)|positive regulation of myotube differentiation (GO:0010831)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of stress fiber assembly (GO:0051496)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|positive regulation of translation (GO:0045727)|protein autophosphorylation (GO:0046777)|protein catabolic process (GO:0030163)|protein phosphorylation (GO:0006468)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of carbohydrate utilization (GO:0043610)|regulation of fatty acid beta-oxidation (GO:0031998)|regulation of glycogen biosynthetic process (GO:0005979)|regulation of protein kinase activity (GO:0045859)|regulation of Rac GTPase activity (GO:0032314)|regulation of response to food (GO:0032095)|response to amino acid (GO:0043200)|response to nutrient (GO:0007584)|response to stress (GO:0006950)|ruffle organization (GO:0031529)|signal transduction (GO:0007165)|T cell costimulation (GO:0031295)|TOR signaling (GO:0031929)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endomembrane system (GO:0012505)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|membrane (GO:0016020)|mitochondrial outer membrane (GO:0005741)|phosphatidylinositol 3-kinase complex (GO:0005942)|PML body (GO:0016605)|TORC1 complex (GO:0031931)|TORC2 complex (GO:0031932)	ATP binding (GO:0005524)|drug binding (GO:0008144)|kinase activity (GO:0016301)|phosphoprotein binding (GO:0051219)|protein serine/threonine kinase activity (GO:0004674)|ribosome binding (GO:0043022)|RNA polymerase III type 1 promoter DNA binding (GO:0001030)|RNA polymerase III type 2 promoter DNA binding (GO:0001031)|RNA polymerase III type 3 promoter DNA binding (GO:0001032)|TFIIIC-class transcription factor binding (GO:0001156)			breast(5)|central_nervous_system(7)|endometrium(20)|kidney(34)|large_intestine(21)|lung(43)|ovary(9)|prostate(3)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	149					Everolimus(DB01590)|Pimecrolimus(DB00337)|Sirolimus(DB00877)|Temsirolimus(DB06287)	CCTCCAGTTCAGCAAGGGGTC	0.537																																																0													135	115	122					1																	11174395		2203	4300	6503	SO:0001583	missense	2475			L34075	CCDS127.1	1p36	2014-09-17	2009-05-29	2009-05-29	ENSG00000198793	ENSG00000198793			3942	protein-coding gene	gene with protein product	"FK506 binding protein 12-rapamycin associated protein 2", "rapamycin target protein", "FKBP12-rapamycin complex-associated protein 1", "FKBP-rapamycin associated protein", "rapamycin associated protein FRAP2", "dJ576K7.1 (FK506 binding protein 12-rapamycin associated protein 1)", "rapamycin and FKBP12 target 1", "mammalian target of rapamycin"	601231	"FK506 binding protein 12-rapamycin associated protein 1"	FRAP, FRAP2, FRAP1		8008069, 8660990	Standard	NM_004958		Approved	RAFT1, RAPT1, FLJ44809	uc001asd.3	P42345	OTTHUMG00000002001	ENST00000361445.4:c.7280T>G	1.37:g.11174395A>C	ENSP00000354558:p.Leu2427Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q4LE76|Q5TER1|Q6LE87|Q96QG3|Q9Y4I3	Missense_Mutation	SNP	ENST00000361445.4	37	CCDS127.1	.	.	.	.	.	.	.	.	.	.	A	26.6	4.750738	0.89753	.	.	ENSG00000198793	ENST00000361445;ENST00000376838;ENST00000455339	T;T;T	0.80033	-1.33;-1.33;-1.33	5.89	5.89	0.94794	Protein kinase-like domain (1);Phosphatidylinositol 3-/4-kinase, catalytic (4);	0.000000	0.85682	D	0.000000	D	0.91730	0.7385	M	0.92026	3.265	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.93392	0.6752	10	0.87932	D	0	-16.8498	15.497	0.75662	1.0:0.0:0.0:0.0	.	2427	P42345	MTOR_HUMAN	R	2427;632;83	ENSP00000354558:L2427R;ENSP00000366034:L632R;ENSP00000398745:L83R	ENSP00000354558:L2427R	L	-	2	0	MTOR	11096982	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	8.923000	0.92808	2.254000	0.74563	0.533000	0.62120	CTG		0.537	MTOR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005558.1	NM_004958		C	11174395	A	C	11174395	3	2	673	1	0	0	0	0	1	0	0	0	9961	188	7	5	393	5	MTOR	1	11174395	Missense_Mutation	SNP	A	TCGA-KN-8437-01A-11D-2310-10		11174395	238076226	1	43339										
PRDM2	7799	broad.mit.edu	37	chr1	14107869	14107869	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gttgggaatatctttgtgtgTtctgtttgtaaaaaagaatt	10	2	2	1			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr1:14107869T>C	ENST00000235372.7	+	8	4435	c.3579T>C	c.(3577-3579)tgT>tgC	p.C1193C	PRDM2_ENST00000343137.4_Silent_p.C992C|PRDM2_ENST00000503842.1_Intron|PRDM2_ENST00000505823.1_Intron|PRDM2_ENST00000413440.1_Silent_p.C992C|PRDM2_ENST00000376048.5_Intron|PRDM2_ENST00000311066.5_Silent_p.C1193C	NM_012231.4	NP_036363.2	Q13029	PRDM2_HUMAN	PR domain containing 2, with ZNF domain	1193					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(16)|lung(20)|ovary(3)|prostate(3)|skin(1)|urinary_tract(2)	55	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		TCTTTGTGTGTTCTGTTTGTA	0.413																																																0													97	95	95					1																	14107869		2203	4300	6503	SO:0001819	synonymous_variant	7799			U17838	CCDS150.1, CCDS151.1, CCDS30603.1, CCDS44061.1	1p36	2011-07-01			ENSG00000116731	ENSG00000116731		"Chromatin-modifying enzymes / K-methyltransferases"	9347	protein-coding gene	gene with protein product	"retinoblastoma protein-binding zinc finger protein", "retinoblastoma protein-interacting zinc finger protein", "MTE-binding protein", "zinc-finger DNA-binding protein", "GATA-3 binding protein G3B"	601196				7538672	Standard	NM_012231		Approved	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1	uc001avi.3	Q13029	OTTHUMG00000007917	ENST00000235372.7:c.3579T>C	1.37:g.14107869T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B1AJZ4|B5MC68|Q13149|Q14550|Q5THJ1|Q5VUL9	Silent	SNP	ENST00000235372.7	37	CCDS150.1																																																																																				0.413	PRDM2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000021792.2	NM_012231		C	14107869	T	C	14107869	2	2	673	1	0	0	0	0	0	0	0	1	12468	1731	60	3		3	PRDM2	1	14107869	Silent	SNP	T	TCGA-KN-8437-01A-11D-2310-10	2933474	14107869	235142752	2	43340										
TAS1R2	80834	broad.mit.edu	37	chr1	19166380	19166380	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctctttgcccatgtaggcgaAgctgaaacccaccactgaga	9	13	1	2			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr1:19166380A>G	ENST00000375371.3	-	6	2254	c.2233T>C	c.(2233-2235)Ttc>Ctc	p.F745L		NM_152232.2	NP_689418.2	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2	745					detection of chemical stimulus involved in sensory perception of sweet taste (GO:0001582)|G-protein coupled receptor signaling pathway (GO:0007186)|positive regulation of cytokinesis (GO:0032467)|sensory perception of sweet taste (GO:0050916)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	protein heterodimerization activity (GO:0046982)|taste receptor activity (GO:0008527)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|kidney(4)|large_intestine(10)|lung(14)|ovary(1)|pancreas(3)|prostate(1)|skin(3)|stomach(1)	45		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;3.56e-05)|Kidney(64;0.000177)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	Aspartame(DB00168)	ATGTAGGCGAAGCTGAAACCC	0.542																																																0													133	118	123					1																	19166380		2203	4300	6503	SO:0001583	missense	80834				CCDS187.1	1p36.13	2012-08-22	2003-03-07		ENSG00000179002	ENSG00000179002		"Taste receptors / Type 1", "GPCR / Unclassified : Taste receptors"	14905	protein-coding gene	gene with protein product		606226	"G protein-coupled receptor 71"	GPR71			Standard	NM_152232		Approved	T1R2, TR2	uc001bba.1	Q8TE23	OTTHUMG00000002442	ENST00000375371.3:c.2233T>C	1.37:g.19166380A>G	ENSP00000364520:p.Phe745Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TZ19	Missense_Mutation	SNP	ENST00000375371.3	37	CCDS187.1	.	.	.	.	.	.	.	.	.	.	A	14.97	2.693428	0.48202	.	.	ENSG00000179002	ENST00000375371	D	0.85484	-1.99	5.07	5.07	0.68467	GPCR, family 3, C-terminal (2);	0.000000	0.50627	D	0.000110	D	0.89203	0.6648	M	0.77313	2.365	0.43857	D	0.996458	D	0.89917	1.0	D	0.91635	0.999	D	0.87051	0.2147	10	0.05525	T	0.97	.	9.1243	0.36805	0.8157:0.1843:0.0:0.0	.	745	Q8TE23	TS1R2_HUMAN	L	745	ENSP00000364520:F745L	ENSP00000364520:F745L	F	-	1	0	TAS1R2	19038967	0.990000	0.36364	0.981000	0.43875	0.166000	0.22503	3.097000	0.50251	1.916000	0.55485	0.533000	0.62120	TTC		0.542	TAS1R2-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000006953.1			G	19166380	A	G	19166380	3	3	673	1	0	0	0	0	1	0	0	0	15575	72	3	3	290	3	TAS1R2	1	19166380	Missense_Mutation	SNP	A	TCGA-KN-8437-01A-11D-2310-10	5058511	19166380	230084241	3	43341										
LCK	3932	broad.mit.edu	37	chr1	32741193	32741193	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gttcttcaagaacctgagccGcaaggacgcggagcggcagc	14	12	2	2			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr1:32741193G>A	ENST00000336890.5	+	6	539	c.401G>A	c.(400-402)cGc>cAc	p.R134H	LCK_ENST00000333070.4_Missense_Mutation_p.R134H|LCK_ENST00000373564.3_Missense_Mutation_p.R192H	NM_005356.3	NP_005347.3	P06239	LCK_HUMAN	LCK proto-oncogene, Src family tyrosine kinase	134	SH2. {ECO:0000255|PROSITE- ProRule:PRU00191}.				activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|aging (GO:0007568)|B cell receptor signaling pathway (GO:0050853)|blood coagulation (GO:0007596)|cellular zinc ion homeostasis (GO:0006882)|dephosphorylation (GO:0016311)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|hemopoiesis (GO:0030097)|innate immune response (GO:0045087)|leukocyte migration (GO:0050900)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|platelet activation (GO:0030168)|positive regulation of gamma-delta T cell differentiation (GO:0045588)|positive regulation of gene expression (GO:0010628)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of T cell activation (GO:0050870)|positive regulation of T cell receptor signaling pathway (GO:0050862)|positive regulation of tyrosine phosphorylation of Stat5 protein (GO:0042523)|positive regulation of uterine smooth muscle contraction (GO:0070474)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of defense response to virus by virus (GO:0050690)|regulation of lymphocyte activation (GO:0051249)|release of sequestered calcium ion into cytosol (GO:0051209)|response to drug (GO:0042493)|response to hydrogen peroxide (GO:0042542)|response to mechanical stimulus (GO:0009612)|response to zinc ion (GO:0010043)|T cell costimulation (GO:0031295)|T cell differentiation (GO:0030217)|T cell receptor signaling pathway (GO:0050852)|viral process (GO:0016032)	cell-cell junction (GO:0005911)|cytosol (GO:0005829)|endocytic vesicle (GO:0030139)|extracellular vesicular exosome (GO:0070062)|immunological synapse (GO:0001772)|membrane raft (GO:0045121)|pericentriolar material (GO:0000242)|plasma membrane (GO:0005886)	antigen binding (GO:0003823)|ATP binding (GO:0005524)|ATPase binding (GO:0051117)|CD4 receptor binding (GO:0042609)|CD8 receptor binding (GO:0042610)|glycoprotein binding (GO:0001948)|identical protein binding (GO:0042802)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|phosphatidylinositol 3-kinase binding (GO:0043548)|protein C-terminus binding (GO:0008022)|protein kinase binding (GO:0019901)|protein phosphatase binding (GO:0019903)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine kinase activity (GO:0004713)|SH2 domain binding (GO:0042169)			breast(2)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(5)|kidney(1)|large_intestine(5)|lung(15)|ovary(2)|skin(2)|urinary_tract(1)	37		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)			Dasatinib(DB01254)|Ponatinib(DB08901)	AACCTGAGCCGCAAGGACGCG	0.682			T	TRB@	T-ALL																																		Dom	yes		1	1p35-p34.3	3932	lymphocyte-specific protein tyrosine kinase		L	0													7	9	8					1																	32741193		2164	4254	6418	SO:0001583	missense	3932			M36881	CCDS359.1	1p34.3	2014-09-17	2014-06-25		ENSG00000182866	ENSG00000182866	2.7.10.1	"SH2 domain containing"	6524	protein-coding gene	gene with protein product		153390	"lymphocyte-specific protein tyrosine kinase"			2787474	Standard	XM_005270862		Approved		uc001buy.3	P06239	OTTHUMG00000007463	ENST00000336890.5:c.401G>A	1.37:g.32741193G>A	ENSP00000337825:p.Arg134His	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPP8|P07100|Q12850|Q13152|Q5TDH8|Q5TDH9|Q7RTZ3|Q96DW4|Q9NYT8	Missense_Mutation	SNP	ENST00000336890.5	37	CCDS359.1	.	.	.	.	.	.	.	.	.	.	g	35	5.545253	0.96488	.	.	ENSG00000182866	ENST00000336890;ENST00000482949;ENST00000495610;ENST00000373562;ENST00000373557;ENST00000333070;ENST00000436824;ENST00000373564	D;T;D;T;D;D;D	0.93019	-3.15;-0.17;-3.15;-0.18;-3.15;-3.15;-3.15	5.12	5.12	0.69794	SH2 motif (5);	0.195954	0.33161	N	0.005219	D	0.98419	0.9474	H	0.99464	4.58	0.80722	D	1	D;D;D;D	0.89917	1.0;0.999;1.0;1.0	D;D;D;D	0.97110	1.0;0.988;0.98;1.0	D	0.99737	1.1014	10	0.87932	D	0	.	17.7565	0.88450	0.0:0.0:1.0:0.0	.	178;192;134;134	E7EN21;Q573B4;P06239-3;P06239	.;.;.;LCK_HUMAN	H	134;192;134;134;178;134;178;192	ENSP00000337825:R134H;ENSP00000431517:R192H;ENSP00000435605:R134H;ENSP00000362663:R134H;ENSP00000362658:R178H;ENSP00000328213:R134H;ENSP00000362665:R192H	ENSP00000328213:R134H	R	+	2	0	LCK	32513780	1.000000	0.71417	1.000000	0.80357	0.860000	0.49131	9.765000	0.98953	2.571000	0.86741	0.505000	0.49811	CGC		0.682	LCK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019616.4	NM_005356		A	32741193	G	A	32741193	3	1	673	1	0	0	0	0	1	0	0	0	8683	1087	38	1	419	1	LCK	1	32741193	Missense_Mutation	SNP	G	TCGA-KN-8437-01A-11D-2310-10	13574813	32741193	216509428	4	43342										
NOTCH2	4853	broad.mit.edu	37	chr1	120539779	120539780	+	Frame_Shift_Ins	INS	-	-	G													0	0	1	0	0	0	1	1	0	gaaccaggcaggttgaggcaINSggtgccaccatgctggcagt							TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr1:120539779_120539780insG	ENST00000256646.2	-	4	810_811	c.591_592insC	c.(589-594)acctgcfs	p.C198fs	NOTCH2_ENST00000602566.1_Frame_Shift_Ins_p.C159fs	NM_024408.3	NP_077719.2	Q04721	NOTC2_HUMAN	notch 2	198	EGF-like 5; calcium-binding. {ECO:0000255|PROSITE-ProRule:PRU00076}.				apoptotic process (GO:0006915)|atrial septum morphogenesis (GO:0060413)|bone remodeling (GO:0046849)|cell cycle arrest (GO:0007050)|cell fate determination (GO:0001709)|cell growth (GO:0016049)|ciliary body morphogenesis (GO:0061073)|determination of left/right symmetry (GO:0007368)|embryonic limb morphogenesis (GO:0030326)|gene expression (GO:0010467)|hemopoiesis (GO:0030097)|humoral immune response (GO:0006959)|in utero embryonic development (GO:0001701)|inflammatory response to antigenic stimulus (GO:0002437)|interleukin-4 secretion (GO:0072602)|intracellular receptor signaling pathway (GO:0030522)|morphogenesis of an epithelial sheet (GO:0002011)|multicellular organismal development (GO:0007275)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nervous system development (GO:0007399)|Notch receptor processing (GO:0007220)|Notch signaling involved in heart development (GO:0061314)|Notch signaling pathway (GO:0007219)|organ morphogenesis (GO:0009887)|placenta blood vessel development (GO:0060674)|positive regulation of apoptotic process (GO:0043065)|positive regulation of BMP signaling pathway (GO:0030513)|positive regulation of cell proliferation (GO:0008284)|positive regulation of Ras protein signal transduction (GO:0046579)|pulmonary valve morphogenesis (GO:0003184)|regulation of transcription, DNA-templated (GO:0006355)|stem cell maintenance (GO:0019827)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cell surface (GO:0009986)|cilium (GO:0005929)|endoplasmic reticulum membrane (GO:0005789)|extracellular region (GO:0005576)|Golgi membrane (GO:0000139)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)|ligand-activated RNA polymerase II transcription factor binding transcription factor activity (GO:0038049)|receptor activity (GO:0004872)			breast(4)|central_nervous_system(6)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(9)|kidney(9)|large_intestine(19)|liver(1)|lung(57)|ovary(4)|pancreas(1)|prostate(7)|skin(24)|stomach(2)|upper_aerodigestive_tract(5)|urinary_tract(1)	158	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)		AGGTTGAGGCAGGTGCCACCAT	0.559			"N, F, Mis"		"marginal zone lymphoma, DLBCL"				Alagille Syndrome																														Dom	yes		1	1p13-p11	4853	Notch homolog 2		L	0																																										SO:0001589	frameshift_variant	4853	Familial Cancer Database	ALGS1, ALGS2.Alagille-Watson syndrome	AF315356	CCDS908.1	1p13-p11	2013-01-10	2010-06-24		ENSG00000134250	ENSG00000134250		"Ankyrin repeat domain containing"	7882	protein-coding gene	gene with protein product		600275	"Notch (Drosophila) homolog 2", "Notch homolog 2 (Drosophila)"			7698746	Standard	NM_001200001		Approved		uc001eik.3	Q04721	OTTHUMG00000012177	ENST00000256646.2:c.592dupC	1.37:g.120539781_120539781dupG	ENSP00000256646:p.Cys198fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3X7|Q99734|Q9H240	Frame_Shift_Ins	INS	ENST00000256646.2	37	CCDS908.1																																																																																				0.559	NOTCH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033679.1	NM_024408		G	120539780	-	G	120539779	7	5	673	1	0	1	1	0	0	0	0	0	10555	188	7	0	6947	0	NOTCH2	1	120539779	Frame_Shift_Ins	INS	-	TCGA-KN-8437-01A-11D-2310-10	87798586	120539779	128710842	5	43343										
INTS3	65123	ucsc.edu	37	chr1	153735835	153735835	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	agtactccagctacagaaggGgaggtgggtacagaccttgt	14	8	0	2			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr1:153735835G>T	ENST00000318967.2	+	16	2331	c.1763G>T	c.(1762-1764)gGg>gTg	p.G588V	INTS3_ENST00000435409.2_Missense_Mutation_p.G588V|INTS3_ENST00000456435.1_Missense_Mutation_p.G382V|INTS3_ENST00000476843.1_3'UTR|INTS3_ENST00000512605.1_Missense_Mutation_p.G382V	NM_023015.3	NP_075391.3	Q68E01	INT3_HUMAN	integrator complex subunit 3	589					cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|mitotic cell cycle checkpoint (GO:0007093)|response to ionizing radiation (GO:0010212)|snRNA processing (GO:0016180)	integrator complex (GO:0032039)|nucleus (GO:0005634)|SOSS complex (GO:0070876)				breast(1)|cervix(4)|endometrium(10)|kidney(1)|large_intestine(6)|lung(9)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	38	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)			CTACAGAAGGGGAGGTGGGTA	0.527																																																0													110	106	107					1																	153735835		2203	4300	6503	SO:0001583	missense	65123			BX640950	CCDS1052.1	1q21.3	2012-03-16	2006-03-15	2006-03-15	ENSG00000143624	ENSG00000143624			26153	protein-coding gene	gene with protein product	"sensor of single-strand DNA complex subunit A"	611347	"chromosome 1 open reading frame 60"	C1orf60		16239144	Standard	NM_023015		Approved	FLJ21919, INT3, SOSS-A	uc001fct.3	Q68E01	OTTHUMG00000037089	ENST00000318967.2:c.1763G>T	1.37:g.153735835G>T	ENSP00000318641:p.Gly588Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1W0|B4DQC8|B4E3U9|D3DV57|Q4G0E5|Q5VUQ5|Q5VUQ6|Q5VUR0|Q5VUR1|Q68DJ1|Q69YR5|Q6AI57|Q6DKG7|Q6MZQ4|Q6MZZ9|Q8NC46|Q8TB23|Q9H6S9	Missense_Mutation	SNP	ENST00000318967.2	37	CCDS1052.1	.	.	.	.	.	.	.	.	.	.	G	11.44	1.638801	0.29157	.	.	ENSG00000143624	ENST00000318967;ENST00000456435;ENST00000435409;ENST00000512605	.	.	.	5.06	4.15	0.48705	.	0.135836	0.48767	D	0.000171	T	0.19087	0.0458	N	0.14661	0.345	0.58432	D	0.999999	B;B;B	0.26809	0.16;0.047;0.032	B;B;B	0.33799	0.17;0.017;0.037	T	0.06881	-1.0802	9	0.31617	T	0.26	.	7.6135	0.28144	0.1861:0.0:0.8139:0.0	.	382;589;588	Q68E01-3;Q68E01;Q68E01-2	.;INT3_HUMAN;.	V	588;382;588;382	.	ENSP00000318641:G588V	G	+	2	0	INTS3	152002459	1.000000	0.71417	0.958000	0.39756	0.847000	0.48162	4.681000	0.61663	1.361000	0.45981	0.561000	0.74099	GGG		0.527	INTS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090045.2	NM_023015		T	153735835	G	T	153735835	3	4	673	1	0	0	0	0	1	0	0	0	7786	1232	43	4	1825	4	INTS3	1	153735835	Missense_Mutation	SNP	G	TCGA-KN-8437-01A-11D-2310-10	33196056	153735835	95514786	6	43344										
C2orf56	55471	broad.mit.edu	37	chr2	37473258	37473258	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gtgttatcatcgaggaacttTctcaacgcattgcattaact	7	9	2	0			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr2:37473258T>C	ENST00000002125.4	+	8	896	c.856T>C	c.(856-858)Tct>Cct	p.S286P	NDUFAF7_ENST00000483999.1_3'UTR|NDUFAF7_ENST00000336237.6_Missense_Mutation_p.S188P	NM_144736.4	NP_653337.1	Q7L592	NDUF7_HUMAN	NADH dehydrogenase (ubiquinone) complex I, assembly factor 7	286					methylation (GO:0032259)|mitochondrial respiratory chain complex I assembly (GO:0032981)	extracellular space (GO:0005615)|mitochondrion (GO:0005739)	enzyme binding (GO:0019899)|methyltransferase activity (GO:0008168)										CGAGGAACTTTCTCAACGCAT	0.413																																																0													210	167	181					2																	37473258		2203	4300	6503	SO:0001583	missense	55471				CCDS1788.1, CCDS42673.1	2p22.2	2012-10-12	2012-10-12	2012-10-12	ENSG00000003509	ENSG00000003509		"Mitochondrial respiratory chain complex assembly factors"	28816	protein-coding gene	gene with protein product	"mitochondrial dysfunction protein A homolog"	615898	"chromosome 2 open reading frame 56"	C2orf56			Standard	NM_144736		Approved	PRO1853, MidA	uc002rqa.4	Q7L592	OTTHUMG00000128468	ENST00000002125.4:c.856T>C	2.37:g.37473258T>C	ENSP00000002125:p.Ser286Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z399|Q9P1G3	Missense_Mutation	SNP	ENST00000002125.4	37	CCDS1788.1	.	.	.	.	.	.	.	.	.	.	T	21.0	4.082869	0.76642	.	.	ENSG00000003509	ENST00000002125;ENST00000336237;ENST00000431821;ENST00000439218	T;T;T;T	0.77877	-1.13;-1.13;-1.13;-1.13	5.67	4.5	0.54988	.	0.102077	0.64402	D	0.000004	D	0.87704	0.6244	M	0.83774	2.66	0.43263	D	0.995204	P;D;D;P	0.69078	0.933;0.997;0.997;0.933	P;D;D;P	0.70227	0.756;0.968;0.947;0.824	D	0.88629	0.3168	10	0.87932	D	0	-13.3875	12.8745	0.57982	0.0:0.0:0.5259:0.474	.	259;215;188;286	E7EUC2;B4DQY3;Q7L592-2;Q7L592	.;.;.;MIDA_HUMAN	P	286;188;207;244	ENSP00000002125:S286P;ENSP00000337431:S188P;ENSP00000399207:S207P;ENSP00000394436:S244P	ENSP00000002125:S286P	S	+	1	0	C2orf56	37326762	1.000000	0.71417	0.975000	0.42487	0.654000	0.38779	1.544000	0.36158	0.911000	0.36747	0.533000	0.62120	TCT		0.413	NDUFAF7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250267.1	NM_144736		C	37473258	T	C	37473258	3	2	673	1	0	0	0	0	1	0	0	0	2179	1783	62	3	886	3	C2orf56	2	37473258	Missense_Mutation	SNP	T	TCGA-KN-8437-01A-11D-2310-10		37473258	205726115	7	43345										
CCDC74A	90557	broad.mit.edu	37	chr2	132290264	132290265	+	Frame_Shift_Ins	INS	-	-	C													0	0	1	0	0	0	1	1	0	cacaccccccaatgatcctgINSccccttcccctgcgaaagcc							TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr2:132290264_132290265insC	ENST00000295171.6	+	5	924_925	c.786_787insC	c.(787-789)cccfs	p.P263fs	CCDC74A_ENST00000467992.2_3'UTR|CCDC74A_ENST00000409856.3_Frame_Shift_Ins_p.P197fs	NM_001258304.1|NM_001258305.1|NM_138770.2	NP_001245233.1|NP_001245234.1|NP_620125.1	Q96AQ1	CC74A_HUMAN	coiled-coil domain containing 74A	263										endometrium(4)|large_intestine(3)|lung(9)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	19						CAATGATCCTGCCCCTTCCCCT	0.624																																																0																																										SO:0001589	frameshift_variant	90557				CCDS2167.1, CCDS58732.1, CCDS74578.1	2q21.1	2008-02-05		2006-02-16	ENSG00000163040	ENSG00000163040			25197	protein-coding gene	gene with protein product						12477932	Standard	NM_138770		Approved	FLJ40345	uc002ttb.4	Q96AQ1	OTTHUMG00000131667	ENST00000295171.6:c.790dupC	2.37:g.132290268_132290268dupC	ENSP00000295171:p.Pro263fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P4I5	Frame_Shift_Ins	INS	ENST00000295171.6	37	CCDS2167.1																																																																																				0.624	CCDC74A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000254570.2	NM_138770		C	132290265	-	C	132290264	7	5	673	1	0	1	1	0	0	0	0	0	2849	1306	46	0	804	0	CCDC74A	2	132290264	Frame_Shift_Ins	INS	-	TCGA-KN-8437-01A-11D-2310-10	94817006	132290264	110909109	8	43346										
DNAJC13	23317	ucsc.edu	37	chr3	132193881	132193881	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	agagcatttaatattgacagAgaacttggaagtgcaaatgt	10	4	0	3			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr3:132193881A>G	ENST00000260818.6	+	22	2645	c.2397A>G	c.(2395-2397)agA>agG	p.R799R		NM_015268.3	NP_056083.3	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	799					osteoblast differentiation (GO:0001649)	extracellular vesicular exosome (GO:0070062)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)				breast(4)|endometrium(2)|kidney(2)|large_intestine(5)|lung(15)|ovary(1)|pancreas(2)|prostate(2)|urinary_tract(1)	34						ATATTGACAGAGAACTTGGAA	0.343																																																0													114	123	120					3																	132193881		2203	4300	6503	SO:0001819	synonymous_variant	23317			AB014578	CCDS33857.1	3q22.1	2011-09-02			ENSG00000138246	ENSG00000138246		"Heat shock proteins / DNAJ (HSP40)"	30343	protein-coding gene	gene with protein product		614334				12438707	Standard	NM_015268		Approved	RME8, KIAA0678	uc003eor.3	O75165	OTTHUMG00000159674	ENST00000260818.6:c.2397A>G	3.37:g.132193881A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q3L0T1|Q6PI82|Q6UJ77|Q6ZSW1|Q6ZUT5|Q86XG3|Q96DC1|Q9BWK9	Silent	SNP	ENST00000260818.6	37	CCDS33857.1																																																																																				0.343	DNAJC13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356807.2	NM_015268		G	132193881	A	G	132193881	2	3	673	1	0	0	0	0	0	0	0	1	4634	301	11	3		3	DNAJC13	3	132193881	Silent	SNP	A	TCGA-KN-8437-01A-11D-2310-10		132193881	65828549	9	43347										
CLRN1	7401	broad.mit.edu	37	chr3	150659389	150659389	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctgaaatgaagctcaaaaggTacagccctaggggaccatgc	11	10	1	2			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr3:150659389T>A	ENST00000327047.1	-	2	703	c.413A>T	c.(412-414)tAc>tTc	p.Y138F	RP11-166N6.3_ENST00000569170.1_Missense_Mutation_p.T48S|RP11-166N6.2_ENST00000469268.1_RNA|CLRN1_ENST00000295911.2_Missense_Mutation_p.Y62F|CLRN1_ENST00000328863.4_Missense_Mutation_p.Y138F|CLRN1-AS1_ENST00000476886.1_RNA	NM_174878.2	NP_777367.1	P58418	CLRN1_HUMAN	clarin 1	138					actin filament organization (GO:0007015)|auditory receptor cell stereocilium organization (GO:0060088)|cell motility (GO:0048870)|equilibrioception (GO:0050957)|photoreceptor cell maintenance (GO:0045494)|positive regulation of lamellipodium assembly (GO:0010592)|response to stimulus (GO:0050896)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	integral component of membrane (GO:0016021)|lamellipodium (GO:0030027)|microvillus (GO:0005902)|plasma membrane (GO:0005886)				autonomic_ganglia(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(7)|skin(2)	14			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			GCTCAAAAGGTACAGCCCTAG	0.388																																																0													79	80	79					3																	150659389		2203	4300	6503	SO:0001583	missense	7401			AF388366	CCDS3153.1, CCDS35492.1, CCDS56285.1	3q25.1	2014-09-17	2006-11-23	2006-11-23	ENSG00000163646	ENSG00000163646			12605	protein-coding gene	gene with protein product		606397	"Usher syndrome 3A"	USH3, USH3A, RP61		7711740, 8975700	Standard	NM_052995		Approved		uc021xfr.1	P58418	OTTHUMG00000140368	ENST00000327047.1:c.413A>T	3.37:g.150659389T>A	ENSP00000322280:p.Tyr138Phe	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNJ3|E1ACU9|Q8N6A9	Missense_Mutation	SNP	ENST00000327047.1	37	CCDS3153.1	.	.	.	.	.	.	.	.	.	.	T	17.40	3.381113	0.61845	.	.	ENSG00000163646	ENST00000295911;ENST00000327047;ENST00000328863;ENST00000468836;ENST00000485607	D;D;D;D;D	0.81996	-1.56;-1.56;-1.56;-1.56;-1.56	5.1	5.1	0.69264	.	0.000000	0.85682	D	0.000000	D	0.89767	0.6810	M	0.65975	2.015	0.80722	D	1	D;D	0.89917	1.0;0.998	D;D	0.87578	0.998;0.994	D	0.90338	0.4357	10	0.54805	T	0.06	-18.5149	15.1742	0.72899	0.0:0.0:0.0:1.0	.	138;62	P58418;P58418-1	CLRN1_HUMAN;.	F	62;138;138;62;26	ENSP00000295911:Y62F;ENSP00000322280:Y138F;ENSP00000329158:Y138F;ENSP00000419892:Y62F;ENSP00000419244:Y26F	ENSP00000295911:Y62F	Y	-	2	0	CLRN1	152142079	1.000000	0.71417	0.998000	0.56505	0.992000	0.81027	6.852000	0.75430	2.041000	0.60428	0.533000	0.62120	TAC		0.388	CLRN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277060.1			A	150659389	T	A	150659389	3	1	673	1	0	0	0	0	1	0	0	0	3559	1638	57	5	318	5	CLRN1	3	150659389	Missense_Mutation	SNP	T	TCGA-KN-8437-01A-11D-2310-10	18465508	150659389	47363041	10	43348										
G3BP2	9908	ucsc.edu	37	chr4	76573848	76573848	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cttggtcctctaggaggaaaAccaggtcgttctctaggtcg	12	10	2	0			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr4:76573848A>G	ENST00000359707.4	-	9	1688	c.903T>C	c.(901-903)ggT>ggC	p.G301G	G3BP2_ENST00000395719.3_Silent_p.G301G|G3BP2_ENST00000357854.3_Silent_p.G268G	NM_203505.2	NP_987101.1	Q9UN86	G3BP2_HUMAN	GTPase activating protein (SH3 domain) binding protein 2	301					cytoplasmic sequestering of NF-kappaB (GO:0007253)|mRNA transport (GO:0051028)|Ras protein signal transduction (GO:0007265)	cytoplasm (GO:0005737)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|receptor signaling complex scaffold activity (GO:0030159)			breast(3)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(6)|upper_aerodigestive_tract(3)|urinary_tract(2)	27			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			TAGGAGGAAAACCAGGTCGTT	0.403																																																0													93	84	87					4																	76573848		2203	4300	6503	SO:0001819	synonymous_variant	9908			AB014560	CCDS3571.1, CCDS3572.1	4q21.1	2013-02-12	2006-11-01		ENSG00000138757	ENSG00000138757		"RNA binding motif (RRM) containing"	30291	protein-coding gene	gene with protein product	"Ras-GTPase activating protein SH3 domain-binding protein 2"					9734811, 9575347	Standard	NM_203504		Approved	KIAA0660	uc003his.3	Q9UN86	OTTHUMG00000130097	ENST00000359707.4:c.903T>C	4.37:g.76573848A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6X1|O60606|O75149|Q9UPA1	Silent	SNP	ENST00000359707.4	37	CCDS3571.1																																																																																				0.403	G3BP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252399.2	NM_012297		G	76573848	A	G	76573848	2	3	673	1	0	0	0	0	0	0	0	1	6149	30	2	3		3	G3BP2	4	76573848	Silent	SNP	A	TCGA-KN-8437-01A-11D-2310-10		76573848	114580428	11	43349										
C5orf42	65250	ucsc.edu;mdanderson.org	37	chr5	37221454	37221454	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tctttattttcttttacaggTagttgggaccatctcaggat	8	7	3	0			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr5:37221454T>A	ENST00000508244.1	-	14	2811	c.2718A>T	c.(2716-2718)ctA>ctT	p.L906L	C5orf42_ENST00000425232.2_Silent_p.L906L|C5orf42_ENST00000274258.7_5'UTR			Q9H799	CE042_HUMAN	chromosome 5 open reading frame 42	906						integral component of membrane (GO:0016021)				breast(5)|endometrium(3)|kidney(8)|large_intestine(24)|lung(28)|ovary(4)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	79	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			CTTTTACAGGTAGTTGGGACC	0.363																																																0													119	93	101					5																	37221454		692	1591	2283	SO:0001819	synonymous_variant	65250				CCDS34146.1, CCDS34146.2	5p13.2	2014-01-28			ENSG00000197603	ENSG00000197603			25801	protein-coding gene	gene with protein product		614571				22264561	Standard	NM_023073		Approved	FLJ13231, JBTS17	uc011cpa.1	Q9H799	OTTHUMG00000160492	ENST00000508244.1:c.2718A>T	5.37:g.37221454T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MUB7|B7ZLV7|Q4G174|Q6DK46|Q8N8L4|Q9H5T1|Q9H8T9	Silent	SNP	ENST00000508244.1	37	CCDS34146.2																																																																																				0.363	C5orf42-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360806.1	NM_023073		A	37221454	T	A	37221454	2	1	673	1	0	0	0	0	0	0	0	1	2303	1625	57	5		5	C5orf42	5	37221454	Silent	SNP	T	TCGA-KN-8437-01A-11D-2310-10		37221454	143693806	12	43350										
PAIP2	51247	ucsc.edu	37	chr5	138700258	138700258	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ttattataaatctagatagaAgaggagttatgggaagaaga	11	1	1	5			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr5:138700258A>G	ENST00000394795.2	+	3	1135	c.144A>G	c.(142-144)gaA>gaG	p.E48E	PAIP2_ENST00000510080.1_Silent_p.E48E|CTB-43P18.1_ENST00000503553.3_RNA|PAIP2_ENST00000511706.1_Intron|PAIP2_ENST00000265192.4_Silent_p.E48E|PAIP2_ENST00000511381.1_3'UTR			Q9BPZ3	PAIP2_HUMAN	poly(A) binding protein interacting protein 2	48	Glu-rich.|PABPC1-interacting motif-1 (PAM1).				memory (GO:0007613)|negative regulation of translational initiation (GO:0045947)|regulation of long-term synaptic potentiation (GO:1900271)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)	mRNA binding (GO:0003729)|translation repressor activity (GO:0030371)			kidney(1)|large_intestine(2)|lung(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TCTAGATAGAAGAGGAGTTAT	0.353																																																0													57	58	57					5																	138700258		2203	4300	6503	SO:0001819	synonymous_variant	51247			AF151052	CCDS4211.1	5q32	2008-02-05			ENSG00000120727	ENSG00000120727			17970	protein-coding gene	gene with protein product		605604				11172725, 16804161	Standard	NM_016480		Approved	PAIP2A	uc003led.3	Q9BPZ3	OTTHUMG00000129227	ENST00000394795.2:c.144A>G	5.37:g.138700258A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBI1|D3DQC6|Q49A06|Q9H0Y5|Q9P0Q8	Silent	SNP	ENST00000394795.2	37	CCDS4211.1																																																																																				0.353	PAIP2-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373002.1	NM_016480		G	138700258	A	G	138700258	2	3	673	1	0	0	0	0	0	0	0	1	11404	69	3	3		3	PAIP2	5	138700258	Silent	SNP	A	TCGA-KN-8437-01A-11D-2310-10	101478804	138700258	42215002	13	43351										
PRSS35	167681	broad.mit.edu	37	chr6	84233685	84233685	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cactgtgttcatgatggaaaGgactatgtcaaagggagtaa	12	5	2	1			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr6:84233685G>A	ENST00000369700.3	+	2	702	c.525G>A	c.(523-525)aaG>aaA	p.K175K	PRSS35_ENST00000536636.1_Silent_p.K175K	NM_153362.2	NP_699193.2	Q8N3Z0	PRS35_HUMAN	protease, serine, 35	175	Peptidase S1.					extracellular region (GO:0005576)|mitochondrion (GO:0005739)	serine-type endopeptidase activity (GO:0004252)	p.K175N(1)		breast(2)|endometrium(2)|large_intestine(12)|lung(11)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	32		all_cancers(76;0.000113)|Acute lymphoblastic leukemia(125;1.09e-08)|all_hematologic(105;3.12e-05)|all_epithelial(107;0.0575)		BRCA - Breast invasive adenocarcinoma(397;0.0768)		ATGATGGAAAGGACTATGTCA	0.478																																																1	Substitution - Missense(1)	large_intestine(1)											100	104	103					6																	84233685		2203	4300	6503	SO:0001819	synonymous_variant	167681			BC037170	CCDS4999.1	6q14.2	2010-05-12	2004-07-09	2004-07-09	ENSG00000146250	ENSG00000146250		"Serine peptidases / Serine peptidases"	21387	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 158"	C6orf158			Standard	NM_153362		Approved	MGC46520, dJ223E3.1	uc003pjz.3	Q8N3Z0	OTTHUMG00000015113	ENST00000369700.3:c.525G>A	6.37:g.84233685G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7B3|Q9BQP6	Silent	SNP	ENST00000369700.3	37	CCDS4999.1																																																																																				0.478	PRSS35-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041352.1	NM_153362		A	84233685	G	A	84233685	2	1	673	1	0	0	0	0	0	0	0	1	12634	991	35	2		2	PRSS35	6	84233685	Silent	SNP	G	TCGA-KN-8437-01A-11D-2310-10		84233685	86881382	14	43352										
IGF2R	3482	broad.mit.edu	37	chr6	160485473	160485473	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	acttatgaaaatggcttgttAaaaatgaacttcacgggggg	11	5	1	2			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr6:160485473A>T	ENST00000356956.1	+	28	4075	c.3927A>T	c.(3925-3927)ttA>ttT	p.L1309F		NM_000876.2	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor	1309					insulin-like growth factor receptor signaling pathway (GO:0048009)|liver development (GO:0001889)|organ regeneration (GO:0031100)|positive regulation of apoptotic process (GO:0043065)|post-embryonic development (GO:0009791)|receptor-mediated endocytosis (GO:0006898)|response to retinoic acid (GO:0032526)|signal transduction (GO:0007165)|spermatogenesis (GO:0007283)	cell surface (GO:0009986)|clathrin coat (GO:0030118)|endocytic vesicle (GO:0030139)|endosome (GO:0005768)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|lysosome (GO:0005764)|membrane (GO:0016020)|nuclear envelope lumen (GO:0005641)|perinuclear region of cytoplasm (GO:0048471)|trans-Golgi network transport vesicle (GO:0030140)	G-protein coupled receptor activity (GO:0004930)|glycoprotein binding (GO:0001948)|identical protein binding (GO:0042802)|insulin-like growth factor-activated receptor activity (GO:0005010)|mannose binding (GO:0005537)|phosphoprotein binding (GO:0051219)|receptor activity (GO:0004872)|retinoic acid binding (GO:0001972)|transporter activity (GO:0005215)			breast(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(27)|lung(31)|ovary(3)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	95		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)	Mecasermin(DB01277)	ATGGCTTGTTAAAAATGAACT	0.483																																																0													111	122	118					6																	160485473		2203	4300	6503	SO:0001583	missense	3482			J03528	CCDS5273.1	6q25.3	2014-09-16			ENSG00000197081	ENSG00000197081		"CD molecules"	5467	protein-coding gene	gene with protein product	"cation-independent mannose-6 phosphate receptor"	147280					Standard	NM_000876		Approved	CD222, MPRI, MPR1, CIMPR, M6P-R	uc003qta.3	P11717	OTTHUMG00000015945	ENST00000356956.1:c.3927A>T	6.37:g.160485473A>T	ENSP00000349437:p.Leu1309Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z7G9|Q96PT5	Missense_Mutation	SNP	ENST00000356956.1	37	CCDS5273.1	.	.	.	.	.	.	.	.	.	.	A	15.47	2.841715	0.51057	.	.	ENSG00000197081	ENST00000356956	T	0.05199	3.48	5.48	2.02	0.26589	Mannose-6-phosphate receptor, binding (1);	0.132235	0.47455	D	0.000222	T	0.08582	0.0213	M	0.86028	2.79	0.44234	D	0.997074	D	0.58268	0.982	P	0.60473	0.875	T	0.11372	-1.0590	10	0.41790	T	0.15	-19.3313	0.1485	0.00090	0.2717:0.1596:0.2555:0.3131	.	1309	P11717	MPRI_HUMAN	F	1309	ENSP00000349437:L1309F	ENSP00000349437:L1309F	L	+	3	2	IGF2R	160405463	0.998000	0.40836	0.943000	0.38184	0.408000	0.30992	0.535000	0.23114	0.516000	0.28340	0.533000	0.62120	TTA		0.483	IGF2R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042931.1	NM_000876		T	160485473	A	T	160485473	3	4	673	1	0	0	0	0	1	0	0	0	7583	359	13	5	4037	5	IGF2R	6	160485473	Missense_Mutation	SNP	A	TCGA-KN-8437-01A-11D-2310-10	76251788	160485473	10629594	15	43353										
KIAA0415	9907	mdanderson.org	37	chr7	4825307	4825307	+	Missense_Mutation	SNP	T	T	A													0	0	1	0	0	0	1	1	0	gcccctcgcccacttcttccTgagccacggtgagcccaggg					rs11772411	byFrequency	TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr7:4825307T>A	ENST00000348624.4	+	9	1218	c.1124T>A	c.(1123-1125)cTg>cAg	p.L375Q	AP5Z1_ENST00000401897.1_Missense_Mutation_p.L375Q|MIR4656_ENST00000579503.1_RNA	NM_014855.2	NP_055670.1	O43299	AP5Z1_HUMAN	adaptor-related protein complex 5, zeta 1 subunit	375					cell death (GO:0008219)|double-strand break repair via homologous recombination (GO:0000724)|endosomal transport (GO:0016197)|protein transport (GO:0015031)	AP-5 adaptor complex (GO:0044599)|AP-type membrane coat adaptor complex (GO:0030119)|cytoplasm (GO:0005737)|nucleus (GO:0005634)											CACTTCTTCCTGAGCCACGGT	0.592													T|||	359	0.0716853	0.0091	0.0317	5008	,	,		13424	0.0506		0.0676	False		,,,				2504	0.2106															0								T	GLN/LEU	72,4098		0,72,2013	6	7	6		1124	5.6	0.9	7	dbSNP_120	6	528,7844		17,494,3675	no	missense	KIAA0415	NM_014855.2	113	17,566,5688	AA,AT,TT		6.3067,1.7266,4.7839	probably-damaging	375/808	4825307	600,11942	2085	4186	6271	SO:0001583	missense	9907			AB007875	CCDS47528.1	7p22.1	2012-03-20	2012-03-20	2012-03-20	ENSG00000242802	ENSG00000242802			22197	protein-coding gene	gene with protein product		613653	"KIAA0415"	KIAA0415		20613862, 22022230	Standard	NM_014855		Approved	SPG48, zeta	uc003sne.3	O43299	OTTHUMG00000151754	ENST00000348624.4:c.1124T>A	7.37:g.4825307T>A	ENSP00000297562:p.Leu375Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3X2|Q96H80	Missense_Mutation	SNP	ENST00000348624.4	37	CCDS47528.1	98	0.04487179487179487	7	0.014227642276422764	15	0.04143646408839779	30	0.05244755244755245	46	0.06068601583113457	t	16.98	3.271083	0.59540	0.017266	0.063067	ENSG00000242802	ENST00000348624;ENST00000401897	T;T	0.63417	-0.01;-0.04	5.62	5.62	0.85841	.	0.000000	0.64402	D	0.000002	T	0.36496	0.0969	M	0.83483	2.645	0.58432	D	0.999999	D	0.89917	1.0	D	0.91635	0.999	T	0.69457	-0.5140	10	0.87932	D	0	.	13.5539	0.61749	0.0:0.0:0.0:1.0	rs11772411	375	O43299	K0415_HUMAN	Q	375	ENSP00000297562:L375Q;ENSP00000384980:L375Q	ENSP00000297562:L375Q	L	+	2	0	KIAA0415	4791833	1.000000	0.71417	0.879000	0.34478	0.057000	0.15508	7.654000	0.83653	2.141000	0.66446	0.454000	0.30748	CTG		0.592	AP5Z1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323771.1			A	4825307	T	A	4825307	3	1	673	1	0	0	0	0	1	0	0	0	8182	1580	55	5	1158	5	KIAA0415	7	4825307	Missense_Mutation	SNP	T	TCGA-KN-8437-01A-11D-2310-10		4825307	154313356	16	43354	431	2								
KIAA0415	9907	mdanderson.org	37	chr7	4825314	4825314	+	Splice_Site	SNP	C	C	T													0	0	1	0	0	0	1	1	0	gcccacttcttcctgagccaCggtgagcccagggtggggtg					rs11768079	byFrequency	TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr7:4825314C>T	ENST00000348624.4	+	9	1225	c.1131C>T	c.(1129-1131)caC>caT	p.H377H	AP5Z1_ENST00000401897.1_Splice_Site_p.H377H|MIR4656_ENST00000579503.1_RNA	NM_014855.2	NP_055670.1	O43299	AP5Z1_HUMAN	adaptor-related protein complex 5, zeta 1 subunit	377					cell death (GO:0008219)|double-strand break repair via homologous recombination (GO:0000724)|endosomal transport (GO:0016197)|protein transport (GO:0015031)	AP-5 adaptor complex (GO:0044599)|AP-type membrane coat adaptor complex (GO:0030119)|cytoplasm (GO:0005737)|nucleus (GO:0005634)											TCCTGAGCCACGGTGAGCCCA	0.582													C|||	359	0.0716853	0.0091	0.0317	5008	,	,		13363	0.0506		0.0676	False		,,,				2504	0.2106															0								C		75,4103		0,75,2014	6	6	6		1131	-0.4	0.9	7	dbSNP_120	6	532,7858		19,494,3682	yes	coding-synonymous-near-splice	KIAA0415	NM_014855.2		19,569,5696	TT,TC,CC		6.3409,1.7951,4.8297		377/808	4825314	607,11961	2089	4195	6284	SO:0001630	splice_region_variant	9907			AB007875	CCDS47528.1	7p22.1	2012-03-20	2012-03-20	2012-03-20	ENSG00000242802	ENSG00000242802			22197	protein-coding gene	gene with protein product		613653	"KIAA0415"	KIAA0415		20613862, 22022230	Standard	NM_014855		Approved	SPG48, zeta	uc003sne.3	O43299	OTTHUMG00000151754	ENST00000348624.4:c.1132+1C>T	7.37:g.4825314C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3X2|Q96H80	Silent	SNP	ENST00000348624.4	37	CCDS47528.1																																																																																				0.582	AP5Z1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323771.1		Silent	T	4825314	C	T	4825314	5	4	673	1	0	0	0	0	0	0	1	0	8182	550	19	1	1165	1	KIAA0415	7	4825314	Splice_Site	SNP	C	TCGA-KN-8437-01A-11D-2310-10	7	4825314	154313349	17	43355	431	2								
SPDYE6	0	broad.mit.edu	37	chr7	101988975	101988976	+	IGR	DEL	TG	TG	-													0	0	1	0	0	0	1	1	0	tatgcgagagcggttcttccTggccctcgggttcatggaat							TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr7:101988975_101988976delTG								Y_RNA (11593 upstream) : PRKRIP1 (15367 downstream)																							CGGTTCTTCCTGGCCCTCGGGT	0.545																																																0																																										SO:0001628	intergenic_variant	729597																															7.37:g.101988975_101988976delTG		Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL		37																																																																																				0	0.545									-	101988976	TG	-	101988975	6	5	673	0	1	1	0	1	0	0	0	0	15045	1579	55	0		0	SPDYE6	7	101988975	IGR	DEL	TG	TCGA-KN-8437-01A-11D-2310-10	97163661	101988975	57149688	18	43356										
CCNE2	9134	hgsc.bcm.edu	37	chr8	95897417	95897417	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	gattgttacaggacaaagttCccattttaaagcctattaaa	6	7	0	0	rs549362026		TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr8:95897417C>T	ENST00000520509.1	-	9	961	c.709G>A	c.(709-711)Gaa>Aaa	p.E237K	CCNE2_ENST00000308108.4_Missense_Mutation_p.E237K|CCNE2_ENST00000396133.3_Missense_Mutation_p.E237K|RP11-347C18.5_ENST00000605911.1_RNA|CCNE2_ENST00000523476.1_5'Flank			O96020	CCNE2_HUMAN	cyclin E2	237					cell cycle checkpoint (GO:0000075)|cell division (GO:0051301)|DNA replication initiation (GO:0006270)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)	cyclin-dependent protein serine/threonine kinase regulator activity (GO:0016538)			cervix(1)|endometrium(2)|large_intestine(3)|lung(4)|prostate(1)	11	Breast(36;8.75e-07)					GGACAAAGTTCCCATTTTAAA	0.358													C|||	1	0.000199681	0.0	0.0014	5008	,	,		18526	0.0		0.0	False		,,,				2504	0.0															0													70	74	73					8																	95897417		2203	4297	6500	SO:0001583	missense	9134			AF091433	CCDS6264.1	8q22.1	2005-10-18			ENSG00000175305	ENSG00000175305			1590	protein-coding gene	gene with protein product		603775				9840927, 9840943	Standard	NM_057749		Approved	CYCE2	uc003yhc.3	O96020	OTTHUMG00000164696	ENST00000520509.1:c.709G>A	8.37:g.95897417C>T	ENSP00000429089:p.Glu237Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O95439	Missense_Mutation	SNP	ENST00000520509.1	37	CCDS6264.1	.	.	.	.	.	.	.	.	.	.	C	16.63	3.175750	0.57692	.	.	ENSG00000175305	ENST00000520509;ENST00000308108;ENST00000542725;ENST00000396133	T;T;T	0.11063	2.81;2.81;2.81	5.58	4.68	0.58851	Cyclin, N-terminal (1);Cyclin-like (2);	0.134136	0.64402	D	0.000002	T	0.15609	0.0376	L	0.39397	1.21	0.58432	D	0.999991	B;P	0.50528	0.425;0.936	B;P	0.50082	0.159;0.63	T	0.04413	-1.0953	10	0.22109	T	0.4	.	16.0982	0.81144	0.0:0.8658:0.1342:0.0	.	237;237	Q8WUE3;O96020	.;CCNE2_HUMAN	K	237;237;129;237	ENSP00000429089:E237K;ENSP00000309181:E237K;ENSP00000379437:E237K	ENSP00000309181:E237K	E	-	1	0	CCNE2	95966593	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	2.803000	0.47924	1.289000	0.44618	0.650000	0.86243	GAA		0.358	CCNE2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379808.1	NM_057749, NM_004702		T	95897417	C	T	95897417	3	4	673	1	0	0	0	0	1	0	0	0	2923	864	30	2	521	2	CCNE2	8	95897417	Missense_Mutation	SNP	C	TCGA-KN-8437-01A-11D-2310-10		95897417	50466605	19	43357										
CBWD6	644019	broad.mit.edu	37	chr9	69256826	69256827	+	Frame_Shift_Ins	INS	-	-	C													0	0	1	0	0	0	1	1	0	gaggcaaccgtttctaagttINSccagccactcttcatagagc							TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr9:69256826_69256827insC	ENST00000377457.5	-	3	409_410	c.304_305insG	c.(304-306)gaafs	p.E102fs	CBWD6_ENST00000377449.1_Frame_Shift_Ins_p.E66fs|CBWD6_ENST00000382399.4_Frame_Shift_Ins_p.E102fs|CBWD6_ENST00000377441.1_Frame_Shift_Ins_p.E102fs	NM_001085457.1	NP_001078926.1	Q4V339	CBWD6_HUMAN	COBW domain containing 6	102							ATP binding (GO:0005524)			lung(4)	4						GTTTCTAAGTTCCAGCCACTCT	0.376																																																0																																										SO:0001589	frameshift_variant	644019				CCDS43827.1	9q13	2006-06-30			ENSG00000204790	ENSG00000204790			31978	protein-coding gene	gene with protein product							Standard	NM_001085457		Approved	OTTHUMG00000066820	uc004afj.4	Q4V339	OTTHUMG00000066820	ENST00000377457.5:c.305dupG	9.37:g.69256828_69256828dupC	ENSP00000366677:p.Glu102fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000377457.5	37	CCDS43827.1																																																																																				0.376	CBWD6-001	KNOWN	non_canonical_polymorphism|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000143172.2	XM_928822		C	69256827	-	C	69256826	7	5	673	1	0	1	1	0	0	0	0	0	2718	1783	62	0	934	0	CBWD6	9	69256826	Frame_Shift_Ins	INS	-	TCGA-KN-8437-01A-11D-2310-10		69256826	71956605	20	43358										
KIAA1274	27143	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr10	72293731	72293731	+	Silent	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0	0	1	0	0	0	1	1	0	cacgggcctcccccagccctCgtcttcagctgccagatggg	11	18	2	1			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr10:72293731C>G	ENST00000263563.6	+	8	1192	c.924C>G	c.(922-924)ctC>ctG	p.L308L		NM_014431.2	NP_055246.2	Q9ULE6	PALD_HUMAN	phosphatase domain containing, paladin 1	308						cytosol (GO:0005829)											CCCCAGCCCTCGTCTTCAGCT	0.657																																																0													36	33	34					10																	72293731		2203	4300	6503	SO:0001819	synonymous_variant	27143			AB033100	CCDS31215.1	10q22.2	2012-07-17	2012-07-17	2012-07-17	ENSG00000107719	ENSG00000107719			23530	protein-coding gene	gene with protein product		614656	"paladin", "KIAA1274"	PALD, KIAA1274			Standard	NM_014431		Approved		uc001jrd.4	Q9ULE6	OTTHUMG00000018411	ENST00000263563.6:c.924C>G	10.37:g.72293731C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RMS1|B9EGC6|Q5JTK7|Q5JTK8	Silent	SNP	ENST00000263563.6	37	CCDS31215.1																																																																																				0.657	PALD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048515.2	NM_014431		G	72293731	C	G	72293731	2	3	673	1	0	0	0	0	0	0	0	1	8227	871	31	4		4	KIAA1274	10	72293731	Silent	SNP	C	TCGA-KN-8437-01A-11D-2310-10		72293731	63241016	21	43359										
DDIT4	54541	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr10	74034518	74034518	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tcagtgaccctgaggatgaaCacttgtgtgccaacctgatg	11	10	1	4			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr10:74034518C>A	ENST00000307365.3	+	3	472	c.271C>A	c.(271-273)Cac>Aac	p.H91N	RP11-442H21.2_ENST00000491934.2_RNA	NM_019058.2	NP_061931.1	Q9NX09	DDIT4_HUMAN	DNA-damage-inducible transcript 4	91					brain development (GO:0007420)|cell proliferation (GO:0008283)|defense response to virus (GO:0051607)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|negative regulation of glycolytic process (GO:0045820)|negative regulation of intracellular signal transduction (GO:1902532)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|negative regulation of peptidyl-threonine phosphorylation (GO:0010801)|negative regulation of TOR signaling (GO:0032007)|neuron differentiation (GO:0030182)|neuron migration (GO:0001764)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of neuron death (GO:1901216)|protein complex disassembly (GO:0043241)|reactive oxygen species metabolic process (GO:0072593)|response to hypoxia (GO:0001666)	cytoplasm (GO:0005737)|intracellular (GO:0005622)|mitochondrion (GO:0005739)				cervix(1)|endometrium(2)|lung(5)|pancreas(1)|prostate(2)|urinary_tract(1)	12						TGAGGATGAACACTTGTGTGC	0.617											OREG0020262	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													124	124	124					10																	74034518		2203	4300	6503	SO:0001583	missense	54541			AK000507	CCDS7315.1	10q22.1	2008-05-14			ENSG00000168209	ENSG00000168209			24944	protein-coding gene	gene with protein product	"HIF-1 responsive RTP801"	607729				11884613	Standard	NM_019058		Approved	RTP801, FLJ20500, REDD-1, REDD1, Dig2	uc001jsx.1	Q9NX09	OTTHUMG00000018435	ENST00000307365.3:c.271C>A	10.37:g.74034518C>A	ENSP00000307305:p.His91Asn	Somatic	1149	WXS	Illumina HiSeq	Phase_I	Q9H0S3	Missense_Mutation	SNP	ENST00000307365.3	37	CCDS7315.1	.	.	.	.	.	.	.	.	.	.	C	12.28	1.890774	0.33348	.	.	ENSG00000168209	ENST00000307365	T	0.41400	1.0	5.08	5.08	0.68730	.	0.414258	0.28790	N	0.014133	T	0.27731	0.0682	N	0.14661	0.345	0.33043	D	0.531739	B	0.26744	0.158	B	0.24394	0.053	T	0.20174	-1.0283	10	0.15066	T	0.55	-20.3523	18.1098	0.89532	0.0:1.0:0.0:0.0	.	91	Q9NX09	DDIT4_HUMAN	N	91	ENSP00000307305:H91N	ENSP00000307305:H91N	H	+	1	0	DDIT4	73704524	1.000000	0.71417	1.000000	0.80357	0.895000	0.52256	3.432000	0.52824	2.359000	0.80004	0.561000	0.74099	CAC		0.617	DDIT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048577.1	NM_019058		A	74034518	C	A	74034518	3	1	673	1	0	0	0	0	1	0	0	0	4333	478	17	4	277	4	DDIT4	10	74034518	Missense_Mutation	SNP	C	TCGA-KN-8437-01A-11D-2310-10	1740787	74034518	61500229	22	43360										
OTUB1	55611	bcgsc.ca	37	chr11	63756163	63756163	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tctggtgtcagagcggctggAgctctcggtcctatacaagg	14	10	3	1			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr11:63756163A>G	ENST00000538426.1	+	3	202	c.158A>G	c.(157-159)gAg>gGg	p.E53G	OTUB1_ENST00000543004.1_Missense_Mutation_p.E62G|OTUB1_ENST00000422031.2_Missense_Mutation_p.E90G|OTUB1_ENST00000428192.2_Missense_Mutation_p.E53G|OTUB1_ENST00000536443.1_3'UTR|OTUB1_ENST00000541478.1_Intron|OTUB1_ENST00000535715.1_Missense_Mutation_p.E53G|OTUB1_ENST00000543988.1_Missense_Mutation_p.E23G	NM_017670.2	NP_060140.2	Q96FW1	OTUB1_HUMAN	OTU deubiquitinase, ubiquitin aldehyde binding 1	53					cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|immune system process (GO:0002376)|negative regulation of double-strand break repair (GO:2000780)|negative regulation of histone H2A K63-linked ubiquitination (GO:1901315)|protein K48-linked deubiquitination (GO:0071108)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	NEDD8-specific protease activity (GO:0019784)|omega peptidase activity (GO:0008242)|ubiquitin binding (GO:0043130)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-specific protease activity (GO:0004843)			breast(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(1)	6						GAGCGGCTGGAGCTCTCGGTC	0.562																																																0													110	111	111					11																	63756163		2201	4297	6498	SO:0001583	missense	55611			AY177200	CCDS8055.1	11q13.1	2014-02-24	2014-02-24			ENSG00000167770		"OTU domain containing"	23077	protein-coding gene	gene with protein product		608337	"OTU domain, ubiquitin aldehyde binding 1"			12704427, 19383985	Standard	NM_017670		Approved	FLJ20113, FLJ40710	uc001nyf.1	Q96FW1		ENST00000538426.1:c.158A>G	11.37:g.63756163A>G	ENSP00000444357:p.Glu53Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q32Q78|Q96II3|Q9NXQ4|Q9P0B8	Missense_Mutation	SNP	ENST00000538426.1	37	CCDS8055.1	.	.	.	.	.	.	.	.	.	.	A	18.28	3.589609	0.66105	.	.	ENSG00000167770	ENST00000535715;ENST00000428192;ENST00000422031;ENST00000538426;ENST00000543004;ENST00000543988	T;T;T;T;T;T	0.45668	0.89;0.89;0.89;0.89;0.89;0.89	5.49	4.35	0.52113	.	.	.	.	.	T	0.37433	0.1003	L	0.58669	1.825	0.40960	D	0.984618	P;P	0.38473	0.633;0.633	B;B	0.35971	0.215;0.162	T	0.29212	-1.0019	9	0.54805	T	0.06	.	9.2666	0.37645	0.916:0.0:0.084:0.0	.	90;53	B4DPD5;Q96FW1	.;OTUB1_HUMAN	G	53;53;90;53;62;23	ENSP00000440211:E53G;ENSP00000402551:E53G;ENSP00000416973:E90G;ENSP00000444357:E53G;ENSP00000437453:E62G;ENSP00000441328:E23G	ENSP00000416973:E90G	E	+	2	0	OTUB1	63512739	1.000000	0.71417	0.993000	0.49108	0.983000	0.72400	6.254000	0.72460	1.024000	0.39682	0.482000	0.46254	GAG		0.562	OTUB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396277.1	NM_017670		G	63756163	A	G	63756163	3	3	673	1	0	0	0	0	1	0	0	0	11318	304	11	3	168	3	OTUB1	11	63756163	Missense_Mutation	SNP	A	TCGA-KN-8437-01A-11D-2310-10		63756163	71250353	23	43361										
SHANK2	22941	broad.mit.edu	37	chr11	70824380	70824381	+	In_Frame_Ins	INS	-	-	TTT													0	0	1	0	0	0	1	1	0	tgtttctcatcgagactggcINSttgtttatacacccgcttct							TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr11:70824380_70824381insTTT	ENST00000338508.4	-	3	440_441	c.441_442insAAA	c.(439-444)caagcc>caaAAAgcc	p.147_148QA>QKA				Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	0	SH3. {ECO:0000255|PROSITE- ProRule:PRU00192}.				adult behavior (GO:0030534)|learning (GO:0007612)|long term synaptic depression (GO:0060292)|long-term synaptic potentiation (GO:0060291)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|vocalization behavior (GO:0071625)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|cell junction (GO:0030054)|ciliary membrane (GO:0060170)|cytoplasm (GO:0005737)|dendritic spine (GO:0043197)|growth cone (GO:0030426)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|photoreceptor inner segment (GO:0001917)|photoreceptor outer segment (GO:0001750)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)	GKAP/Homer scaffold activity (GO:0030160)|ionotropic glutamate receptor binding (GO:0035255)			NS(2)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(4)|lung(30)|ovary(3)|pancreas(2)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	62			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			TCGAGACTGGCTTGTTTATACA	0.465																																																0																																										SO:0001652	inframe_insertion	22941			AF141901		11q13.2	2013-01-10			ENSG00000162105	ENSG00000162105		"Sterile alpha motif (SAM) domain containing", "Ankyrin repeat domain containing"	14295	protein-coding gene	gene with protein product		603290	"cortactin binding protein 1"	CORTBP1		10506216	Standard	XM_005277930		Approved	CTTNBP1, ProSAP1, SHANK, SPANK-3	uc001oqc.3	Q9UPX8	OTTHUMG00000154615	ENST00000338508.4:c.441_442insAAA	11.37:g.70824380_70824381insTTT	ENSP00000345193:p.Gln147_Ala148insLys	Somatic		WXS	Illumina HiSeq	Phase_I	C0SPG8|C0SPG9|Q3Y8G9|Q52LK2|Q9UKP1	In_Frame_Ins	INS	ENST00000338508.4	37																																																																																					0.465	SHANK2-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_012309		TTT	70824381	-	TTT	70824380	7	5	673	1	0	1	1	0	0	0	0	0	14278	797	28	0	5085	0	SHANK2	11	70824380	In_Frame_Ins	INS	-	TCGA-KN-8437-01A-11D-2310-10	7068217	70824380	64182136	24	43362										
ROBO3	64221	broad.mit.edu	37	chr11	124739923	124739924	+	Frame_Shift_Ins	INS	-	-	G													0	0	1	0	0	0	1	1	0	tgcgtagcctccaacatggcINSgggagaacgggagagtgcgg					rs115272137	byFrequency	TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr11:124739923_124739924insG	ENST00000397801.1	+	4	917_918	c.725_726insG	c.(724-729)gcgggafs	p.AG242fs	ROBO3_ENST00000538940.1_Frame_Shift_Ins_p.AG220fs	NM_022370.3	NP_071765.2	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3 (Drosophila)	242	Ig-like C2-type 2.				axon guidance (GO:0007411)|axon midline choice point recognition (GO:0016199)|neuron migration (GO:0001764)	axon (GO:0030424)|integral component of membrane (GO:0016021)				breast(2)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(17)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	35	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		TCCAACATGGCGGGAGAACGGG	0.525																																																0																																										SO:0001589	frameshift_variant	64221			AK024697	CCDS44755.1	11q24	2013-02-11	2001-11-28		ENSG00000154134	ENSG00000154134		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	13433	protein-coding gene	gene with protein product		608630	"roundabout (axon guidance receptor, Drosophila) homolog 3", "horizontal gaze palsy with progressive scoliosis"	HGPPS		15105459	Standard	NM_022370		Approved	RBIG1, FLJ21044, HGPS	uc001qbc.3	Q96MS0	OTTHUMG00000165934	ENST00000397801.1:c.728dupG	11.37:g.124739926_124739926dupG	ENSP00000380903:p.Ala242fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000397801.1	37	CCDS44755.1																																																																																				0.525	ROBO3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387091.1	XM_370663		G	124739924	-	G	124739923	7	5	673	1	0	1	1	0	0	0	0	0	13528	768	27	0	739	0	ROBO3	11	124739923	Frame_Shift_Ins	INS	-	TCGA-KN-8437-01A-11D-2310-10	53915543	124739923	10266593	25	43363										
DPPA3	359787	broad.mit.edu	37	chr12	7869647	7869648	+	Frame_Shift_Ins	INS	-	-	A													0	0	1	0	0	0	1	1	0	gaatgctagaatagggaatcINSaagacaccaagccacttcag							TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr12:7869647_7869648insA	ENST00000345088.2	+	4	571_572	c.454_455insA	c.(454-456)caafs	p.Q152fs		NM_199286.2	NP_954980.1	Q6W0C5	DPPA3_HUMAN	developmental pluripotency associated 3	152					chromatin modification (GO:0016568)|embryonic cleavage (GO:0040016)|negative regulation of DNA demethylation (GO:1901536)|protection of DNA demethylation of female pronucleus (GO:0044726)|regulation of genetic imprinting (GO:2000653)	cytoplasm (GO:0005737)|female pronucleus (GO:0001939)|nucleus (GO:0005634)	methylated histone binding (GO:0035064)			endometrium(1)|kidney(1)|large_intestine(1)|lung(3)|skin(2)	8				Kidney(36;0.0887)		AATAGGGAATCAAGACACCAAG	0.376																																																0																																										SO:0001589	frameshift_variant	359787			AY317075	CCDS8582.1	12p13.31	2012-10-02			ENSG00000187569	ENSG00000187569			19199	protein-coding gene	gene with protein product		608408					Standard	NM_199286		Approved	Stella	uc001qtf.3	Q6W0C5	OTTHUMG00000168434	ENST00000345088.2:c.456dupA	12.37:g.7869649_7869649dupA	ENSP00000339250:p.Gln152fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q0P5U3|Q6JZS6	Frame_Shift_Ins	INS	ENST00000345088.2	37	CCDS8582.1																																																																																				0.376	DPPA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399718.1	NM_199286		A	7869648	-	A	7869647	7	5	673	1	0	1	1	0	0	0	0	0	4737	827	29	0	468	0	DPPA3	12	7869647	Frame_Shift_Ins	INS	-	TCGA-KN-8437-01A-11D-2310-10		7869647	125982248	26	43364										
RPAP3	79657	broad.mit.edu	37	chr12	48095315	48095315	+	Frame_Shift_Del	DEL	T	T	-													0	0	1	0	0	0	1	1	0	ttttgtgttttcctctctggTttttttggaagactctttag							TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr12:48095315delT	ENST00000005386.3	-	3	341	c.226delA	c.(226-228)accfs	p.T76fs	RPAP3_ENST00000432584.3_5'UTR|RPAP3_ENST00000380650.4_Frame_Shift_Del_p.T76fs	NM_024604.2	NP_078880.2	Q9H6T3	RPAP3_HUMAN	RNA polymerase II associated protein 3	76										endometrium(2)|large_intestine(4)|liver(1)|lung(6)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	16	Lung SC(27;0.192)					TCCTCTCTGGTTTTTTTGGAA	0.323																																																0													181	172	175					12																	48095315		2202	4299	6501	SO:0001589	frameshift_variant	79657			AK025561	CCDS8753.1, CCDS53782.1, CCDS53783.1	12q13.11	2013-01-10				ENSG00000005175		"Tetratricopeptide (TTC) repeat domain containing"	26151	protein-coding gene	gene with protein product		611477				17643375	Standard	NM_024604		Approved	FLJ21908, spag	uc001rpr.3	Q9H6T3	OTTHUMG00000169668	ENST00000005386.3:c.226delA	12.37:g.48095315delT	ENSP00000005386:p.Thr76fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRW9|Q6PHR5	Frame_Shift_Del	DEL	ENST00000005386.3	37	CCDS8753.1																																																																																				0.323	RPAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405340.1	NM_024604		-	48095315	T	-	48095315	7	5	673	1	0	1	0	1	0	0	0	0	13556	1725	60	0	1831	0	RPAP3	12	48095315	Frame_Shift_Del	DEL	T	TCGA-KN-8437-01A-11D-2310-10	40225668	48095315	85756580	27	43365										
AHNAK2	113146	mdanderson.org	37	chr14	105410382	105410382	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ttgaacttgggcattttgaaTttgctgtctttggcagtcac	10	7	2	2	rs201817721	byFrequency	TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr14:105410382T>C	ENST00000333244.5	-	7	11525	c.11406A>G	c.(11404-11406)aaA>aaG	p.K3802K	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3802						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			GCATTTTGAATTTGCTGTCTT	0.587													.|||	118	0.0235623	0.0401	0.0058	5008	,	,		20893	0.0268		0.0	False		,,,				2504	0.0348															0													252	250	250					14																	105410382		1990	4160	6150	SO:0001819	synonymous_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.11406A>G	14.37:g.105410382T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Silent	SNP	ENST00000333244.5	37	CCDS45177.1																																																																																				0.587	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		C	105410382	T	C	105410382	2	2	673	1	0	0	0	0	0	0	0	1	415	1490	52	3		3	AHNAK2	14	105410382	Silent	SNP	T	TCGA-KN-8437-01A-11D-2310-10		105410382	1939158	28	43366										
LCTL	197021	ucsc.edu	37	chr15	66840924	66840924	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	acgatctccgtaaccatttgCatgtgacttagcaagggctc	9	11	1	1			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr15:66840924C>T	ENST00000341509.5	-	13	1739	c.1608G>A	c.(1606-1608)atG>atA	p.M536I	LCTL_ENST00000537670.1_Missense_Mutation_p.M363I|ZWILCH_ENST00000446801.2_3'UTR|ZWILCH_ENST00000307897.5_3'UTR	NM_207338.2	NP_997221.2	Q6UWM7	LCTL_HUMAN	lactase-like	536					carbohydrate metabolic process (GO:0005975)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	hydrolase activity, hydrolyzing O-glycosyl compounds (GO:0004553)			NS(1)|breast(1)|endometrium(4)|kidney(1)|large_intestine(6)|lung(10)|ovary(2)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	32						TAACCATTTGCATGTGACTTA	0.458																																																0													124	114	117					15																	66840924		2201	4299	6500	SO:0001583	missense	197021			AY358729	CCDS10220.1, CCDS61678.1	15q21.3	2008-02-05			ENSG00000188501	ENSG00000188501			15583	protein-coding gene	gene with protein product	"klotho gamma", "KL lactase phlorizin hydrolase"					12084582	Standard	NM_207338		Approved	KLPH, FLJ33279, KLG	uc002aqc.3	Q6UWM7	OTTHUMG00000133207	ENST00000341509.5:c.1608G>A	15.37:g.66840924C>T	ENSP00000343490:p.Met536Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQY0	Missense_Mutation	SNP	ENST00000341509.5	37	CCDS10220.1	.	.	.	.	.	.	.	.	.	.	C	11.65	1.701984	0.30232	.	.	ENSG00000188501	ENST00000537670;ENST00000341509	T;T	0.30182	1.74;1.54	5.6	4.67	0.58626	.	0.082404	0.85682	N	0.000000	T	0.24851	0.0603	L	0.29908	0.895	0.58432	D	0.999997	B;B	0.12630	0.002;0.006	B;B	0.08055	0.003;0.003	T	0.02269	-1.1185	10	0.37606	T;T	0.19;0.19	-24.6251	15.4825	0.75539	0.0:0.8609:0.1391:0.0	.	363;536	B3KQY0;Q6UWM7	.;LCTL_HUMAN	I	363;536	ENSP00000445419:M363I;ENSP00000343490:M536I	ENSP00000343490:M536I;ENSP00000343490:M536I	M	-	3	0	LCTL	64627978	1.000000	0.71417	0.995000	0.50966	0.095000	0.18619	7.016000	0.76393	1.337000	0.45525	0.655000	0.94253	ATG		0.458	LCTL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256921.2	NM_207338		T	66840924	C	T	66840924	3	4	673	1	0	0	0	0	1	0	0	0	8701	710	25	2	99	2	LCTL	15	66840924	Missense_Mutation	SNP	C	TCGA-KN-8437-01A-11D-2310-10		66840924	35690468	29	43367										
TLE3	7090	broad.mit.edu	37	chr15	70386891	70386892	+	Frame_Shift_Ins	INS	-	-	A													0	0	1	0	0	0	1	1	0	tgcttgtgcatttcaatgttINScaagccataggacatctcat							TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr15:70386891_70386892insA	ENST00000558939.1	-	4	1590_1591	c.213_214insT	c.(211-216)ttgaacfs	p.N72fs	TLE3_ENST00000317509.8_Frame_Shift_Ins_p.N72fs|TLE3_ENST00000440567.3_Frame_Shift_Ins_p.N65fs|TLE3_ENST00000558379.1_Frame_Shift_Ins_p.N72fs|TLE3_ENST00000560589.1_Frame_Shift_Ins_p.N16fs|TLE3_ENST00000558201.1_Frame_Shift_Ins_p.N78fs|TLE3_ENST00000442299.2_Frame_Shift_Ins_p.N72fs|TLE3_ENST00000559929.1_Frame_Shift_Ins_p.N72fs|TLE3_ENST00000559574.1_5'Flank|TLE3_ENST00000559191.1_Intron|TLE3_ENST00000559048.1_Frame_Shift_Ins_p.N78fs|TLE3_ENST00000557997.1_Frame_Shift_Ins_p.N72fs|TLE3_ENST00000560939.1_Frame_Shift_Ins_p.N78fs|TLE3_ENST00000539550.1_Frame_Shift_Ins_p.N6fs|TLE3_ENST00000557907.1_Frame_Shift_Ins_p.N72fs|TLE3_ENST00000451782.2_Frame_Shift_Ins_p.N72fs	NM_001282979.1|NM_001282980.1|NM_001282981.1	NP_001269908.1|NP_001269909.1|NP_001269910.1	Q04726	TLE3_HUMAN	transducin-like enhancer of split 3	72	Gln-rich.				Notch signaling pathway (GO:0007219)|organ morphogenesis (GO:0009887)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)|Wnt signaling pathway (GO:0016055)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)				breast(1)|endometrium(4)|kidney(2)|large_intestine(4)|lung(16)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	31						ATTTCAATGTTCAAGCCATAGG	0.287																																																0																																										SO:0001589	frameshift_variant	7090			M99438	CCDS45293.1, CCDS45294.1, CCDS58375.1, CCDS61689.1, CCDS61691.1, CCDS61692.1, CCDS73747.1	15q22	2014-03-07	2014-03-07			ENSG00000140332		"WD repeat domain containing"	11839	protein-coding gene	gene with protein product		600190	"transducin-like enhancer of split 3, homolog of Drosophila E(sp1)", "transducin-like enhancer of split 3 (E(sp1) homolog, Drosophila)"			8365415	Standard	XM_005254623		Approved	ESG, ESG3, KIAA1547, HsT18976, GRG3	uc002asm.2	Q04726		ENST00000558939.1:c.213_214insT	15.37:g.70386891_70386892insA	ENSP00000452871:p.Asn72fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DPT0|E9PD64|F8W964|Q6PI57|Q8IVV6|Q8WVR2|Q9HCM5	Nonsense_Mutation	INS	ENST00000558939.1	37	CCDS45293.1																																																																																				0.287	TLE3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000416913.1	NM_005078		A	70386892	-	A	70386891	7	5	673	1	0	1	1	0	0	0	0	0	15952	1783	62	0	2172	0	TLE3	15	70386891	Frame_Shift_Ins	INS	-	TCGA-KN-8437-01A-11D-2310-10	3545967	70386891	32144501	30	43368										
CLUAP1	23059	hgsc.bcm.edu	37	chr16	3586166	3586166	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gacatggaagatgatgatgaCgaggatgacgatttggaaga	15	3	0	6	rs377189683		TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr16:3586166C>T	ENST00000576634.1	+	12	1281	c.1137C>T	c.(1135-1137)gaC>gaT	p.D379D	NLRC3_ENST00000419350.2_RNA|CLUAP1_ENST00000572600.1_Silent_p.D213D|CLUAP1_ENST00000445795.2_Silent_p.D157D|NLRC3_ENST00000359128.5_RNA|CLUAP1_ENST00000571025.1_3'UTR|NLRC3_ENST00000301749.7_RNA|CLUAP1_ENST00000417763.2_Silent_p.D213D|NLRC3_ENST00000448023.2_RNA|CLUAP1_ENST00000341633.5_Silent_p.D398D	NM_015041.2	NP_055856.1	Q96AJ1	CLUA1_HUMAN	clusterin associated protein 1	379	Asp-rich.				cilium assembly (GO:0042384)	centrosome (GO:0005813)|cilium (GO:0005929)|intracellular membrane-bounded organelle (GO:0043231)|intraciliary transport particle B (GO:0030992)|nucleus (GO:0005634)		p.D379D(1)		breast(2)|endometrium(1)|kidney(1)|large_intestine(7)|lung(1)|ovary(1)|pancreas(1)|urinary_tract(2)	16						ATGATGATGACGAGGATGACG	0.483																																																1	Substitution - coding silent(1)	large_intestine(1)											125	111	116					16																	3586166		2197	4300	6497	SO:0001819	synonymous_variant	23059			BC017070	CCDS32381.1, CCDS45398.1	16p13.3	2014-07-18				ENSG00000103351		"Intraflagellar transport homologs"	19009	protein-coding gene	gene with protein product	"flagellar associated protein 22, qilin-like protein, homolog (Chlamydomonas)", "cilia and flagella associated protein 22"					15480429, 9734811, 19253336	Standard	NM_015041		Approved	FLJ13297, KIAA0643, FAP22, CFAP22	uc002cvk.2	Q96AJ1		ENST00000576634.1:c.1137C>T	16.37:g.3586166C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O75138|Q65ZA3|Q9H8R4|Q9H8T1	Silent	SNP	ENST00000576634.1	37	CCDS32381.1																																																																																				0.483	CLUAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437883.2	NM_024793		T	3586166	C	T	3586166	2	4	673	1	0	0	0	0	0	0	0	1	3571	535	19	1		1	CLUAP1	16	3586166	Silent	SNP	C	TCGA-KN-8437-01A-11D-2310-10		3586166	86768587	31	43369										
OTOA	146183	broad.mit.edu	37	chr16	21698797	21698797	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gagccttgcagagccctggcGtgaaccgcagcctgtttctc	12	14	1	2			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr16:21698797G>A	ENST00000286149.4	+	7	464	c.463G>A	c.(463-465)Gtg>Atg	p.V155M	OTOA_ENST00000388956.4_Missense_Mutation_p.V76M|OTOA_ENST00000388958.3_Missense_Mutation_p.V155M			Q7RTW8	OTOAN_HUMAN	otoancorin	155					cell-matrix adhesion (GO:0007160)|sensory perception of sound (GO:0007605)|transmission of nerve impulse (GO:0019226)	anchored component of membrane (GO:0031225)|apical plasma membrane (GO:0016324)|proteinaceous extracellular matrix (GO:0005578)				breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(9)|liver(2)|lung(23)|ovary(1)|prostate(1)|skin(5)|stomach(1)	46				GBM - Glioblastoma multiforme(48;0.0414)		GAGCCCTGGCGTGAACCGCAG	0.542																																																0													125	116	119					16																	21698797		2199	4300	6499	SO:0001583	missense	146183			AK057335	CCDS10600.2, CCDS32403.1, CCDS53994.1	16p12.2	2009-08-18	2002-07-05		ENSG00000155719	ENSG00000155719			16378	protein-coding gene	gene with protein product	"cancer/testis antigen 108"	607038	"deafness, autosomal recessive 22"	DFNB22		11972037, 19088187	Standard	NM_170664		Approved	CT108	uc002djh.3	Q7RTW8	OTTHUMG00000090721	ENST00000286149.4:c.463G>A	16.37:g.21698797G>A	ENSP00000286149:p.Val155Met	Somatic		WXS	Illumina HiSeq	Phase_I	A1L3A8|A2VDI0|B3KWU3|E9PF51|Q8NA86|Q96M76	Missense_Mutation	SNP	ENST00000286149.4	37		.	.	.	.	.	.	.	.	.	.	G	17.69	3.452811	0.63290	.	.	ENSG00000155719	ENST00000388958;ENST00000286149;ENST00000388956	T;T;T	0.15487	2.42;2.42;2.42	4.91	3.95	0.45737	.	0.258322	0.30492	N	0.009503	T	0.32734	0.0839	L	0.56769	1.78	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.64237	0.923;0.923	T	0.02668	-1.1126	10	0.54805	T	0.06	-15.1079	10.6677	0.45741	0.0939:0.0:0.9061:0.0	.	76;155	B3KWU3;E9PF51	.;.	M	155;155;76	ENSP00000373610:V155M;ENSP00000286149:V155M;ENSP00000373608:V76M	ENSP00000286149:V155M	V	+	1	0	OTOA	21606298	0.987000	0.35691	0.836000	0.33094	0.996000	0.88848	1.928000	0.40104	1.054000	0.40438	0.650000	0.86243	GTG		0.542	OTOA-003	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000430021.1			A	21698797	G	A	21698797	3	1	673	1	0	0	0	0	1	0	0	0	11309	1145	40	1	523	1	OTOA	16	21698797	Missense_Mutation	SNP	G	TCGA-KN-8437-01A-11D-2310-10	18112631	21698797	68655956	32	43370										
ZNF668	79759	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr16	31073370	31073370	+	Silent	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0	0	1	0	0	0	1	1	0	cgctggtggcgacggaagctCgaggggtcggagaacatgcg	19	9	0	1			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr16:31073370C>G	ENST00000538906.1	-	3	1663	c.879G>C	c.(877-879)tcG>tcC	p.S293S	ZNF668_ENST00000539836.3_Silent_p.S316S|ZNF668_ENST00000564456.1_5'Flank|ZNF668_ENST00000300849.4_Silent_p.S293S|ZNF668_ENST00000394983.2_Silent_p.S293S|ZNF668_ENST00000417110.2_Silent_p.L186L|ZNF668_ENST00000535577.1_Silent_p.S293S|ZNF668_ENST00000426488.2_Silent_p.S316S	NM_001172668.1	NP_001166139	Q96K58	ZN668_HUMAN	zinc finger protein 668	293					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(6)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(3)|lung(9)|ovary(1)|prostate(1)|urinary_tract(1)	27						GACGGAAGCTCGAGGGGTCGG	0.677																																					Colon(181;1111 1980 5060 10512 25785)											0													37	36	36					16																	31073370		2197	4298	6495	SO:0001819	synonymous_variant	79759				CCDS10701.1, CCDS54003.1	16p11.2	2013-01-08			ENSG00000167394	ENSG00000167394		"Zinc fingers, C2H2-type"	25821	protein-coding gene	gene with protein product						12477932	Standard	NM_024706		Approved	FLJ13479	uc021tgt.1	Q96K58	OTTHUMG00000047357	ENST00000538906.1:c.879G>C	16.37:g.31073370C>G		Somatic		WXS	Illumina HiSeq	Phase_I	C9JHH8|F5H7E7|Q59EV1|Q8N669|Q9H8L4	Silent	SNP	ENST00000538906.1	37	CCDS10701.1																																																																																				0.677	ZNF668-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000108516.2	NM_024706		G	31073370	C	G	31073370	2	3	673	1	0	0	0	0	0	0	0	1	18087	871	31	4		4	ZNF668	16	31073370	Silent	SNP	C	TCGA-KN-8437-01A-11D-2310-10	9374573	31073370	59281383	33	43371										
SLC2A4	6517	broad.mit.edu	37	chr17	7186903	7186903	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gggccctctccgtggccatcTtttccgtgggcggcatgatt	13	13	2	1			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr17:7186903T>C	ENST00000317370.8	+	3	530	c.262T>C	c.(262-264)Ttt>Ctt	p.F88L	RP1-4G17.2_ENST00000576271.1_RNA|SLC2A4_ENST00000424875.2_Missense_Mutation_p.F78L|SLC2A4_ENST00000571308.1_Missense_Mutation_p.F88L	NM_001042.2	NP_001033.1	P14672	GTR4_HUMAN	solute carrier family 2 (facilitated glucose transporter), member 4	88					amylopectin biosynthetic process (GO:0010021)|brown fat cell differentiation (GO:0050873)|carbohydrate metabolic process (GO:0005975)|cellular response to insulin stimulus (GO:0032869)|cellular response to osmotic stress (GO:0071470)|glucose homeostasis (GO:0042593)|glucose import (GO:0046323)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|membrane organization (GO:0061024)|response to ethanol (GO:0045471)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)	clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|endomembrane system (GO:0012505)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|insulin-responsive compartment (GO:0032593)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|multivesicular body (GO:0005771)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|trans-Golgi network transport vesicle (GO:0030140)|vesicle membrane (GO:0012506)	D-glucose transmembrane transporter activity (GO:0055056)|glucose transmembrane transporter activity (GO:0005355)			breast(1)|endometrium(3)|large_intestine(7)|lung(2)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	17						CGTGGCCATCTTTTCCGTGGG	0.622																																																0													106	105	105					17																	7186903		2203	4300	6503	SO:0001583	missense	6517			M20747	CCDS11097.1	17p13	2013-05-22			ENSG00000181856	ENSG00000181856		"Solute carriers"	11009	protein-coding gene	gene with protein product		138190		GLUT4			Standard	NM_001042		Approved		uc002gfp.3	P14672	OTTHUMG00000102181	ENST00000317370.8:c.262T>C	17.37:g.7186903T>C	ENSP00000320935:p.Phe88Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q05BQ3|Q14CX2	Missense_Mutation	SNP	ENST00000317370.8	37	CCDS11097.1	.	.	.	.	.	.	.	.	.	.	T	24.3	4.519126	0.85495	.	.	ENSG00000181856	ENST00000317370;ENST00000424875	T;T	0.74526	0.12;-0.85	5.31	5.31	0.75309	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.000000	0.85682	D	0.000000	D	0.82305	0.5008	L	0.53729	1.69	0.58432	D	0.999999	D;D	0.76494	0.999;0.998	D;P	0.75020	0.985;0.88	D	0.83584	0.0119	10	0.62326	D	0.03	.	13.256	0.60079	0.0:0.0:0.0:1.0	.	88;78	P14672;F5H081	GTR4_HUMAN;.	L	88;78	ENSP00000320935:F88L;ENSP00000396887:F78L	ENSP00000320935:F88L	F	+	1	0	SLC2A4	7127627	1.000000	0.71417	1.000000	0.80357	0.860000	0.49131	7.525000	0.81892	2.234000	0.73211	0.459000	0.35465	TTT		0.622	SLC2A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000220031.3			C	7186903	T	C	7186903	3	2	673	1	0	0	0	0	1	0	0	0	14559	1609	56	3	272	3	SLC2A4	17	7186903	Missense_Mutation	SNP	T	TCGA-KN-8437-01A-11D-2310-10		7186903	74008307	34	43372										
STXBP4	252983	broad.mit.edu	37	chr17	53077156	53077156	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctgaaatactaatcccaaagAcctcatccactcccaaaaca	2	15	1	2			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr17:53077156A>G	ENST00000376352.2	+	6	658	c.451A>G	c.(451-453)Acc>Gcc	p.T151A	STXBP4_ENST00000299341.4_Missense_Mutation_p.T76A|STXBP4_ENST00000398391.2_Missense_Mutation_p.T76A|STXBP4_ENST00000405898.1_Missense_Mutation_p.T151A|STXBP4_ENST00000434978.2_Missense_Mutation_p.T151A	NM_178509.5	NP_848604.3	Q6ZWJ1	STXB4_HUMAN	syntaxin binding protein 4	151					cellular response to DNA damage stimulus (GO:0006974)|glucose transport (GO:0015758)|insulin receptor signaling pathway (GO:0008286)|positive regulation of cell cycle G1/S phase transition (GO:1902808)|positive regulation of keratinocyte proliferation (GO:0010838)|protein stabilization (GO:0050821)|protein targeting (GO:0006605)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|intermediate filament cytoskeleton (GO:0045111)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(8)|lung(4)|ovary(1)|upper_aerodigestive_tract(2)	19						AATCCCAAAGACCTCATCCAC	0.353																																																0													84	81	82					17																	53077156		2203	4300	6503	SO:0001583	missense	252983			BC041485	CCDS11584.2	17q22	2008-02-05			ENSG00000166263	ENSG00000166263			19694	protein-coding gene	gene with protein product		610415				12855681	Standard	XM_005257187		Approved	Synip, MGC50337	uc002iuf.1	Q6ZWJ1	OTTHUMG00000074043	ENST00000376352.2:c.451A>G	17.37:g.53077156A>G	ENSP00000365530:p.Thr151Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVZ5	Missense_Mutation	SNP	ENST00000376352.2	37	CCDS11584.2	.	.	.	.	.	.	.	.	.	.	A	13.50	2.256374	0.39896	.	.	ENSG00000166263	ENST00000376352;ENST00000299341;ENST00000405898;ENST00000434978;ENST00000398391	T;T;T;T;T	0.29655	1.56;1.56;1.56;1.56;1.56	5.35	3.15	0.36227	.	0.702796	0.14653	N	0.306480	T	0.33498	0.0865	M	0.70595	2.14	0.27885	N	0.939557	B;P;B	0.40230	0.329;0.708;0.323	B;B;B	0.43274	0.113;0.414;0.114	T	0.14504	-1.0470	10	0.27082	T	0.32	-0.0072	6.5428	0.22390	0.8135:0.0:0.1865:0.0	.	151;76;151	E7EPP7;Q6ZWJ1-2;Q6ZWJ1	.;.;STXB4_HUMAN	A	151;76;151;151;76	ENSP00000365530:T151A;ENSP00000299341:T76A;ENSP00000385944:T151A;ENSP00000391087:T151A;ENSP00000381427:T76A	ENSP00000299341:T76A	T	+	1	0	STXBP4	50432155	1.000000	0.71417	0.942000	0.38095	0.995000	0.86356	2.090000	0.41682	0.489000	0.27749	0.533000	0.62120	ACC		0.353	STXBP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157184.1	NM_178509		G	53077156	A	G	53077156	3	3	673	1	0	0	0	0	1	0	0	0	15367	275	10	3	465	3	STXBP4	17	53077156	Missense_Mutation	SNP	A	TCGA-KN-8437-01A-11D-2310-10	45890253	53077156	28118054	35	43373										
MFSD11	79157	hgsc.bcm.edu	37	chr17	74765928	74765928	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cttattggactttctggcatTttcatcggcattggagaaat	9	7	2	1			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr17:74765928T>C	ENST00000588460.1	+	10	2891	c.849T>C	c.(847-849)atT>atC	p.I283I	MFSD11_ENST00000590514.1_Silent_p.I283I|MFSD11_ENST00000355954.3_Silent_p.I231I|MFSD11_ENST00000336509.4_Silent_p.I283I|MFSD11_ENST00000593181.1_Silent_p.I231I|MFSD11_ENST00000586622.1_Silent_p.I283I	NM_001242534.1	NP_001229463.1	O43934	MFS11_HUMAN	major facilitator superfamily domain containing 11	283						integral component of membrane (GO:0016021)				endometrium(1)|kidney(2)|large_intestine(3)|lung(7)|ovary(2)|prostate(1)|skin(1)	17						TTTCTGGCATTTTCATCGGCA	0.318																																																0													142	151	148					17																	74765928		2203	4300	6503	SO:0001819	synonymous_variant	79157			BC002753	CCDS11750.1, CCDS56045.1	17q25.1	2012-03-09			ENSG00000092931	ENSG00000092931			25458	protein-coding gene	gene with protein product						9358160	Standard	NM_001242532		Approved	FLJ22196, FLJ20226	uc002jte.3	O43934		ENST00000588460.1:c.849T>C	17.37:g.74765928T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O43442|Q9NXI5	Silent	SNP	ENST00000588460.1	37	CCDS11750.1																																																																																				0.318	MFSD11-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451516.1	NM_024311		C	74765928	T	C	74765928	2	2	673	1	0	0	0	0	0	0	0	1	9536	1829	64	3		3	MFSD11	17	74765928	Silent	SNP	T	TCGA-KN-8437-01A-11D-2310-10	21688772	74765928	6429282	36	43374										
EIF4A3	9775	bcgsc.ca	37	chr17	78109803	78109803	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	agagctggacgatttcctacCgttcatcggcatctcatcaa	8	12	3	1			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr17:78109803C>T	ENST00000269349.3	-	11	1440	c.1219G>A	c.(1219-1221)Gtt>Att	p.V407I		NM_014740.3	NP_055555.1	P38919	IF4A3_HUMAN	eukaryotic translation initiation factor 4A3	407	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				ATP catabolic process (GO:0006200)|cytokine-mediated signaling pathway (GO:0019221)|embryonic cranial skeleton morphogenesis (GO:0048701)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|mRNA splicing, via spliceosome (GO:0000398)|mRNA transport (GO:0051028)|negative regulation of translation (GO:0017148)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of translation (GO:0045727)|RNA metabolic process (GO:0016070)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|exon-exon junction complex (GO:0035145)|membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent RNA helicase activity (GO:0004004)|mRNA binding (GO:0003729)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	10	all_neural(118;0.117)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.139)			GATTTCCTACCGTTCATCGGC	0.428																																																0													114	107	110					17																	78109803		2203	4300	6503	SO:0001630	splice_region_variant	9775			BC004386	CCDS11767.1	17q25.3	2010-02-10	2010-02-10	2006-11-27		ENSG00000141543		"DEAD-boxes"	18683	protein-coding gene	gene with protein product		608546	"DEAD (Asp-Glu-Ala-Asp) box polypeptide 48", "eukaryotic translation initiation factor 4A, isoform 3"	DDX48		10623621, 14730019	Standard	NM_014740		Approved	KIAA0111, EIF4AIII	uc002jxs.3	P38919		ENST00000269349.3:c.1219+1G>A	17.37:g.78109803C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q15033|Q6IBQ2|Q96A18	Missense_Mutation	SNP	ENST00000269349.3	37	CCDS11767.1	.	.	.	.	.	.	.	.	.	.	C	12.76	2.034577	0.35893	.	.	ENSG00000141543	ENST00000269349	T	0.27104	1.69	3.64	3.64	0.41730	Helicase, C-terminal (1);	0.000000	0.85682	D	0.000000	T	0.09069	0.0224	N	0.01482	-0.84	0.80722	D	1	B	0.02656	0.0	B	0.04013	0.001	T	0.16660	-1.0395	9	.	.	.	.	12.8311	0.57746	0.0:1.0:0.0:0.0	.	407	P38919	IF4A3_HUMAN	I	407	ENSP00000269349:V407I	.	V	-	1	0	EIF4A3	75724398	1.000000	0.71417	0.972000	0.41901	0.469000	0.32828	7.212000	0.77941	1.878000	0.54408	0.484000	0.47621	GTT		0.428	EIF4A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437446.1	NM_014740	Missense_Mutation	T	78109803	C	T	78109803	5	4	673	1	0	0	0	0	0	0	1	0	5028	666	23	1	24	1	EIF4A3	17	78109803	Splice_Site	SNP	C	TCGA-KN-8437-01A-11D-2310-10	3343875	78109803	3085407	37	43375										
ZNF521	25925	broad.mit.edu;hgsc.bcm.edu	37	chr18	22930911	22930911	+	5'UTR	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gcttgcttgcggcgagacatCctaaaagcaaacagctgaag	11	10	0	2			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr18:22930911C>A	ENST00000361524.3	-	0	148				ZNF521_ENST00000538137.2_5'UTR|ZNF521_ENST00000584787.1_Intron|ZNF521_ENST00000579111.1_5'UTR	NM_015461.2	NP_056276.1	Q96K83	ZN521_HUMAN	zinc finger protein 521						cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|protein domain specific binding (GO:0019904)			NS(1)|breast(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(21)|lung(97)|ovary(5)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	149	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					GGCGAGACATCCTAAAAGCAA	0.607			T	PAX5	ALL																																		Dom	yes		18	18q11.2	25925	zinc finger protein 521		L	0													53	53	53					18																	22930911		2149	4207	6356	SO:0001623	5_prime_UTR_variant	25925			AK027354	CCDS32806.1	18q11.2	2013-01-08				ENSG00000198795		"Zinc fingers, C2H2-type"	24605	protein-coding gene	gene with protein product	"early hematopoietic zinc finger"	610974				11984006, 14630787	Standard	NM_015461		Approved	EHZF, Evi3	uc002kvk.2	Q96K83		ENST00000361524.3:c.-1G>T	18.37:g.22930911C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A3QVP7|B0YJB7|Q8IXI0|Q8TES6|Q9C065|Q9HAL5|Q9UFK4	Splice_Site	SNP	ENST00000361524.3	37	CCDS32806.1																																																																																				0.607	ZNF521-001	KNOWN	overlapping_uORF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000446781.2	NM_015461		A	22930911	C	A	22930911	1	1	673	0	1	0	0	0	0	0	0	0	17977	869	30	4		4	ZNF521	18	22930911	5'UTR	SNP	C	TCGA-KN-8437-01A-11D-2310-10		22930911	55146337	38	43376										
BRD4	23476	mdanderson.org	37	chr19	15350594	15350594	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	ttctcctccttcaccaccacGaggggctggggctggaccac	11	16	2	0	rs11669901	byFrequency	TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr19:15350594G>A	ENST00000263377.2	-	16	3542	c.3321C>T	c.(3319-3321)ctC>ctT	p.L1107L		NM_058243.2	NP_490597.1	O60885	BRD4_HUMAN	bromodomain containing 4	1107	C-terminal (CTD) region.				cellular response to DNA damage stimulus (GO:0006974)|chromatin remodeling (GO:0006338)|chromosome segregation (GO:0007059)|histone H3-K14 acetylation (GO:0044154)|histone H4-K12 acetylation (GO:0043983)|inner cell mass cell proliferation (GO:0001833)|negative regulation of DNA damage checkpoint (GO:2000002)|positive regulation of DNA binding (GO:0043388)|positive regulation of G2/M transition of mitotic cell cycle (GO:0010971)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of transcription elongation from RNA polymerase II promoter (GO:0032968)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein phosphorylation (GO:0006468)|regulation of inflammatory response (GO:0050727)|regulation of phosphorylation of RNA polymerase II C-terminal domain (GO:1901407)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	chromosome (GO:0005694)|condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|positive transcription elongation factor complex b (GO:0008024)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|lysine-acetylated histone binding (GO:0070577)|p53 binding (GO:0002039)			breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|lung(7)|ovary(2)|urinary_tract(1)	21			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			TCACCACCACGAGGGGCTGGG	0.701			T	C15orf55	lethal midline carcinoma of young people								G|||	661	0.131989	0.1362	0.1009	5008	,	,		14853	0.0615		0.1879	False		,,,				2504	0.1636						Dom	yes		19	19p13.1	23476	bromodomain containing 4		E	0								G		600,3806	255.8+/-260.9	51,498,1654	40	45	43		3321	2	1	19	dbSNP_120	43	1498,7102	279.3+/-293.9	133,1232,2935	no	coding-synonymous	BRD4	NM_058243.2		184,1730,4589	AA,AG,GG		17.4186,13.6178,16.131		1107/1363	15350594	2098,10908	2203	4300	6503	SO:0001819	synonymous_variant	23476			Y12059	CCDS12328.1, CCDS46004.1	19p13.12	2013-09-20	2002-01-14		ENSG00000141867	ENSG00000141867			13575	protein-coding gene	gene with protein product	"chromosome-associated protein"	608749	"bromodomain-containing 4"			10938129	Standard	NM_058243		Approved	HUNKI, MCAP, CAP, HUNK1	uc002nar.3	O60885	OTTHUMG00000183252	ENST00000263377.2:c.3321C>T	19.37:g.15350594G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60433|Q4G0X8|Q86YS8|Q96PD3	Silent	SNP	ENST00000263377.2	37	CCDS12328.1																																																																																				0.701	BRD4-001	KNOWN	overlapping_uORF|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000465800.3	NM_058243		A	15350594	G	A	15350594	2	1	673	1	0	0	0	0	0	0	0	1	1506	1045	37	1		1	BRD4	19	15350594	Silent	SNP	G	TCGA-KN-8437-01A-11D-2310-10		15350594	43778389	39	43377										
ZNF345	25850	hgsc.bcm.edu	37	chr19	37368304	37368304	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ttttgaatcagcccttattcGgcatcacagaattcacacag	6	11	3	2	rs199871319		TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr19:37368304G>T	ENST00000529555.1	+	2	1360	c.572G>T	c.(571-573)cGg>cTg	p.R191L	ZNF345_ENST00000420450.1_Missense_Mutation_p.R191L|ZNF345_ENST00000526123.1_Intron|ZNF345_ENST00000589046.1_Missense_Mutation_p.R191L|ZNF345_ENST00000432005.2_Intron			Q14585	ZN345_HUMAN	zinc finger protein 345	191					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of transcription from RNA polymerase III promoter (GO:0006359)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)|transcription from RNA polymerase III promoter (GO:0006383)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(1)|kidney(1)|large_intestine(13)|lung(5)|ovary(2)|prostate(1)	24	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GCCCTTATTCGGCATCACAGA	0.428																																																0													66	63	64					19																	37368304		2203	4300	6503	SO:0001583	missense	25850			X78933	CCDS12497.1	19q13.12	2013-01-08			ENSG00000251247	ENSG00000251247		"Zinc fingers, C2H2-type"	16367	protein-coding gene	gene with protein product						7865130	Standard	NM_003419		Approved	HZF10	uc002oey.4	Q14585	OTTHUMG00000048162	ENST00000529555.1:c.572G>T	19.37:g.37368304G>T	ENSP00000431202:p.Arg191Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000529555.1	37	CCDS12497.1	.	.	.	.	.	.	.	.	.	.	G	7.717	0.696334	0.15106	.	.	ENSG00000251247	ENST00000420450;ENST00000529555	T;T	0.34667	1.35;1.35	3.86	0.409	0.16382	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.21921	0.0528	L	0.33624	1.015	0.09310	N	1	B	0.27679	0.185	B	0.22880	0.042	T	0.19224	-1.0312	8	.	.	.	.	5.1742	0.15126	0.2137:0.1775:0.6088:0.0	.	191	Q14585	ZN345_HUMAN	L	191	ENSP00000431216:R191L;ENSP00000431202:R191L	.	R	+	2	0	ZNF345	42060144	0.000000	0.05858	0.997000	0.53966	0.969000	0.65631	-2.856000	0.00729	0.361000	0.24292	0.561000	0.74099	CGG		0.428	ZNF345-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388258.1			T	37368304	G	T	37368304	3	4	673	1	0	0	0	0	1	0	0	0	17871	1116	39	4	574	4	ZNF345	19	37368304	Missense_Mutation	SNP	G	TCGA-KN-8437-01A-11D-2310-10	22017710	37368304	21760679	40	43378										
PSG6	5675	mdanderson.org	37	chr19	43411778	43411778	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ggatgccaccatatcggtccCgtatttcacattgatagggt	10	10	1	1	rs151146504	byFrequency	TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr19:43411778C>T	ENST00000292125.2	-	4	979	c.935G>A	c.(934-936)cGg>cAg	p.R312Q	PSG6_ENST00000187910.2_Missense_Mutation_p.R312Q|PSG6_ENST00000402603.4_Intron	NM_002782.4	NP_002773.1	Q00889	PSG6_HUMAN	pregnancy specific beta-1-glycoprotein 6	312	Ig-like C2-type 2.				female pregnancy (GO:0007565)	extracellular region (GO:0005576)				central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(3)|lung(19)|ovary(1)|prostate(2)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)	44		Prostate(69;0.00899)				ATATCGGTCCCGTATTTCACA	0.502													.|||	6	0.00119808	0.0	0.0029	5008	,	,		21760	0.0		0.004	False		,,,				2504	0.0															0													158	144	149					19																	43411778		2202	4295	6497	SO:0001583	missense	5675				CCDS12613.1, CCDS33038.1	19q13.2	2013-01-29			ENSG00000170848	ENSG00000170848		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9523	protein-coding gene	gene with protein product		176395				1690992	Standard	NM_002782		Approved			Q00889	OTTHUMG00000151127	ENST00000292125.2:c.935G>A	19.37:g.43411778C>T	ENSP00000292125:p.Arg312Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O75244|Q15224|Q15235|Q549K1	Missense_Mutation	SNP	ENST00000292125.2	37	CCDS12613.1	.	.	.	.	.	.	.	.	.	.	N	4.566	0.105064	0.08731	.	.	ENSG00000170848	ENST00000187910;ENST00000292125	T;T	0.12672	2.66;2.66	1.42	0.312	0.15837	Immunoglobulin subtype (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.03871	0.0109	N	0.01618	-0.8	0.09310	N	1	D;B	0.54772	0.968;0.09	B;B	0.41236	0.351;0.045	T	0.22730	-1.0208	9	0.37606	T	0.19	.	3.255	0.06828	0.0:0.7031:0.0:0.2969	.	312;312	Q00889;Q00889-2	PSG6_HUMAN;.	Q	312	ENSP00000187910:R312Q;ENSP00000292125:R312Q	ENSP00000187910:R312Q	R	-	2	0	PSG6	48103618	0.000000	0.05858	0.007000	0.13788	0.019000	0.09904	-0.820000	0.04457	0.792000	0.33850	0.134000	0.15878	CGG		0.502	PSG6-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000321436.1	NM_002782		T	43411778	C	T	43411778	3	4	673	1	0	0	0	0	1	0	0	0	12669	652	23	1	423	1	PSG6	19	43411778	Missense_Mutation	SNP	C	TCGA-KN-8437-01A-11D-2310-10	6043474	43411778	15717205	41	43379										
CBR1	873	broad.mit.edu	37	chr21	37443310	37443310	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgaaaacaaatttctttggtAcccgagatgtgtgcacagaa	9	7	1	3			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr21:37443310A>G	ENST00000290349.6	+	2	527	c.352A>G	c.(352-354)Acc>Gcc	p.T118A	CBR1_ENST00000439427.2_Missense_Mutation_p.T118A|SETD4_ENST00000399201.1_Intron|CBR1_ENST00000399191.3_Missense_Mutation_p.T118A|CBR1_ENST00000466328.2_3'UTR|CBR1_ENST00000530908.1_Missense_Mutation_p.T118A|AP000688.14_ENST00000535199.1_RNA	NM_001757.2	NP_001748.1	P16152	CBR1_HUMAN	carbonyl reductase 1	118					arachidonic acid metabolic process (GO:0019369)|cyclooxygenase pathway (GO:0019371)|drug metabolic process (GO:0017144)|epithelial cell differentiation (GO:0030855)|oxidation-reduction process (GO:0055114)|small molecule metabolic process (GO:0044281)|vitamin K metabolic process (GO:0042373)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|vesicle (GO:0031982)	15-hydroxyprostaglandin dehydrogenase (NADP+) activity (GO:0047021)|carbonyl reductase (NADPH) activity (GO:0004090)|oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor (GO:0016655)|prostaglandin-E2 9-reductase activity (GO:0050221)			endometrium(2)|kidney(3)	5					Doxorubicin(DB00997)|Haloperidol(DB00502)|Lubiprostone(DB01046)|Tetrabenazine(DB04844)	TTTCTTTGGTACCCGAGATGT	0.433																																																0													114	102	106					21																	37443310		2203	4300	6503	SO:0001583	missense	873				CCDS13641.1, CCDS68202.1	21q22.1	2011-09-14			ENSG00000159228	ENSG00000159228	1.1.1.184	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 1"	1548	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 21C, member 1"	114830		CBR		8432528, 19027726	Standard	NM_001757		Approved	SDR21C1	uc002yvb.1	P16152	OTTHUMG00000086618	ENST00000290349.6:c.352A>G	21.37:g.37443310A>G	ENSP00000290349:p.Thr118Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBZ7|B4DFK7|Q3LHW8	Missense_Mutation	SNP	ENST00000290349.6	37	CCDS13641.1	.	.	.	.	.	.	.	.	.	.	A	15.14	2.745192	0.49151	.	.	ENSG00000159228	ENST00000530908;ENST00000290349;ENST00000439427;ENST00000399191	D;D;D;D	0.85258	-1.96;-1.96;-1.96;-1.96	5.76	5.76	0.90799	NAD(P)-binding domain (1);	0.000000	0.85682	D	0.000000	T	0.80407	0.4617	L	0.33668	1.02	0.80722	D	1	P;B;B	0.38300	0.626;0.408;0.285	B;B;B	0.38156	0.266;0.256;0.198	T	0.81189	-0.1046	10	0.48119	T	0.1	-18.8594	16.0766	0.80971	1.0:0.0:0.0:0.0	.	118;118;118	B4DFK7;E9PQ63;P16152	.;.;CBR1_HUMAN	A	118	ENSP00000434613:T118A;ENSP00000290349:T118A;ENSP00000395132:T118A;ENSP00000382143:T118A	ENSP00000290349:T118A	T	+	1	0	CBR1	36365180	1.000000	0.71417	0.764000	0.31436	0.176000	0.22953	5.420000	0.66441	2.202000	0.70862	0.533000	0.62120	ACC		0.433	CBR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000194633.2			G	37443310	A	G	37443310	3	3	673	1	0	0	0	0	1	0	0	0	2710	391	14	3	358	3	CBR1	21	37443310	Missense_Mutation	SNP	A	TCGA-KN-8437-01A-11D-2310-10		37443310	10686585	42	43380										
PRODH	8214	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr22	18900771	18900771	+	IGR	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctgccgctcccgatgggtgcCcttcatgaggctgctgttct	12	14	2	1			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr22:18900771C>T	ENST00000331444.6	+	0	1214				PRODH_ENST00000357068.6_Missense_Mutation_p.G574S|PRODH_ENST00000334029.2_Missense_Mutation_p.G466S|PRODH_ENST00000420436.1_Missense_Mutation_p.G466S	NM_005675.4	NP_005666.2	Q14129	DGCR6_HUMAN	DiGeorge syndrome critical region gene 6						cell adhesion (GO:0007155)|organ morphogenesis (GO:0009887)	nucleus (GO:0005634)|proteinaceous extracellular matrix (GO:0005578)				central_nervous_system(1)|cervix(1)|upper_aerodigestive_tract(1)	3						CGATGGGTGCCCTTCATGAGG	0.662																																																0													23	21	22					22																	18900771		2183	4257	6440	SO:0001628	intergenic_variant	5625			X96484	CCDS13753.1	22q11.21	2008-06-12			ENSG00000183628	ENSG00000183628			2846	protein-coding gene	gene with protein product		601279				8733130	Standard	NM_005675		Approved		uc002zoh.4	Q14129	OTTHUMG00000150162		22.37:g.18900771C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RCH5|D3DX15|G5E9J8|Q9BY28	Missense_Mutation	SNP	ENST00000331444.6	37	CCDS13753.1	.	.	.	.	.	.	.	.	.	.	N	25.4	4.638432	0.87760	.	.	ENSG00000100033	ENST00000357068;ENST00000313755	T	0.30981	1.51	4.43	4.43	0.53597	Proline dehydrogenase (1);	0.000000	0.85682	D	0.000000	T	0.54334	0.1852	M	0.73372	2.23	0.54753	D	0.999981	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	T	0.58797	-0.7573	10	0.62326	D	0.03	-26.3236	14.911	0.70758	0.0:1.0:0.0:0.0	.	490;574;466	O43272-1;O43272;E7EQL6	.;PROD_HUMAN;.	S	574;219	ENSP00000349577:G574S	ENSP00000318329:G219S	G	-	1	0	PRODH	17280771	1.000000	0.71417	0.996000	0.52242	0.484000	0.33280	1.102000	0.31050	2.196000	0.70406	0.505000	0.49811	GGC		0.662	DGCR6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316631.2	NM_005675		T	18900771	C	T	18900771	1	4	673	0	1	0	0	0	0	0	0	0	12558	623	22	2		2	PRODH	22	18900771	IGR	SNP	C	TCGA-KN-8437-01A-11D-2310-10		18900771	32403795	43	43381										
MKL1	57591	mdanderson.org	37	chr22	40814636	40814636	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	atgtggttggtggctggggcCgccaggctggggttgaatgg	21	6	0	1	rs4821944	byFrequency	TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chr22:40814636C>T	ENST00000355630.3	-	12	2396	c.1806G>A	c.(1804-1806)gcG>gcA	p.A602A	MKL1_ENST00000402042.1_Silent_p.A552A|MKL1_ENST00000407029.1_Silent_p.A602A|MKL1_ENST00000396617.3_Silent_p.A602A	NM_020831.3	NP_065882.1	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia (translocation) 1	602	Pro-rich.				negative regulation of apoptotic signaling pathway (GO:2001234)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription via serum response element binding (GO:0010735)|smooth muscle cell differentiation (GO:0051145)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	actin binding (GO:0003779)|actin monomer binding (GO:0003785)|leucine zipper domain binding (GO:0043522)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription regulatory region sequence-specific DNA binding (GO:0000976)			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(3)|lung(13)|ovary(4)|skin(1)|stomach(1)|urinary_tract(1)	30						TGGCTGGGGCCGCCAGGCTGG	0.701			T	RBM15	acute megakaryocytic leukemia								C|||	983	0.196286	0.1324	0.1988	5008	,	,		10064	0.0099		0.3052	False		,,,				2504	0.3609						Dom	yes		22	22q13	57591	megakaryoblastic leukemia (translocation) 1		L	0								C		645,3593		64,517,1538	7	10	9		1806	-9.1	0	22	dbSNP_111	9	2472,5952		376,1720,2116	no	coding-synonymous	MKL1	NM_020831.3		440,2237,3654	TT,TC,CC		29.3447,15.2194,24.617		602/932	40814636	3117,9545	2119	4212	6331	SO:0001819	synonymous_variant	57591			AB037859	CCDS14003.1, CCDS74865.1, CCDS74866.1	22q13	2008-06-12			ENSG00000196588	ENSG00000196588			14334	protein-coding gene	gene with protein product	"megakaryocytic acute leukemia", "myocardin-related transcription factor A", "basic, SAP and coiled-coil domain"	606078				11431691, 12019265, 14970199	Standard	XM_005261692		Approved	KIAA1438, MAL, MRTF-A, BSAC	uc003ayw.1	Q969V6	OTTHUMG00000151146	ENST00000355630.3:c.1806G>A	22.37:g.40814636C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TCL1|Q96SC5|Q96SC6|Q9P2B0	Silent	SNP	ENST00000355630.3	37	CCDS14003.1																																																																																				0.701	MKL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321522.1	NM_020831		T	40814636	C	T	40814636	2	4	673	1	0	0	0	0	0	0	0	1	9608	639	23	1		1	MKL1	22	40814636	Silent	SNP	C	TCGA-KN-8437-01A-11D-2310-10	21913865	40814636	10489930	44	43382										
ATRX	546	broad.mit.edu	37	chrX	76763910	76763911	+	Frame_Shift_Ins	INS	-	-	C													0	0	1	0	0	0	1	1	0	gtaatggtggtggctgcataINSccaccagccactggctgata							TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chrX:76763910_76763911insC	ENST00000373344.5	-	35	7611_7612	c.7397_7398insG	c.(7396-7398)ggtfs	p.G2466fs	ATRX_ENST00000395603.3_Frame_Shift_Ins_p.G2428fs|ATRX_ENST00000480283.1_5'UTR	NM_000489.3	NP_000480.3	P46100	ATRX_HUMAN	alpha thalassemia/mental retardation syndrome X-linked	2466					ATP catabolic process (GO:0006200)|cellular response to hydroxyurea (GO:0072711)|chromatin remodeling (GO:0006338)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA duplex unwinding (GO:0032508)|DNA methylation (GO:0006306)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|DNA replication-independent nucleosome assembly (GO:0006336)|forebrain development (GO:0030900)|negative regulation of telomeric RNA transcription from RNA pol II promoter (GO:1901581)|nucleosome assembly (GO:0006334)|positive regulation of nuclear cell cycle DNA replication (GO:0010571)|positive regulation of telomere maintenance (GO:0032206)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|replication fork processing (GO:0031297)|seminiferous tubule development (GO:0072520)|Sertoli cell development (GO:0060009)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|nuclear heterochromatin (GO:0005720)|nucleolus (GO:0005730)|nucleus (GO:0005634)|SWI/SNF superfamily-type complex (GO:0070603)|telomeric heterochromatin (GO:0031933)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|chromo shadow domain binding (GO:0070087)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)|DNA translocase activity (GO:0015616)|helicase activity (GO:0004386)|histone binding (GO:0042393)|methylated histone binding (GO:0035064)|zinc ion binding (GO:0008270)			bone(1)|breast(6)|central_nervous_system(31)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(15)|kidney(14)|large_intestine(1)|liver(1)|lung(40)|ovary(2)|pancreas(13)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	145						GTGGCTGCATACCACCAGCCAC	0.465			"Mis, F, N"		"Pancreatic neuroendocrine tumors, paediatric GBM"		ATR-X (alpha thalassemia/mental retardation) syndrome																																Rec	yes		X	Xq21.1	546	alpha thalassemia/mental retardation syndrome X-linked	yes	E	0																																										SO:0001589	frameshift_variant	546			U72937	CCDS14434.1, CCDS14435.1	Xq21.1	2014-06-17	2010-06-24		ENSG00000085224	ENSG00000085224			886	protein-coding gene	gene with protein product	"RAD54 homolog (S. cerevisiae)"	300032	"alpha thalassemia/mental retardation syndrome X-linked (RAD54 (S. cerevisiae) homolog)", "Juberg-Marsidi syndrome"	RAD54, JMS		7874112, 1415255, 8503439, 8630485	Standard	NM_000489		Approved	XH2, XNP	uc004ecp.4	P46100	OTTHUMG00000022686	ENST00000373344.5:c.7398dupG	X.37:g.76763912_76763912dupC	ENSP00000362441:p.Gly2466fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTE2|P51068|Q15886|Q59FB5|Q59H31|Q5H9A2|Q5JWI4|Q7Z2J1|Q9H0Z1|Q9NTS3	Frame_Shift_Ins	INS	ENST00000373344.5	37	CCDS14434.1																																																																																				0.465	ATRX-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058860.2	NM_000489		C	76763911	-	C	76763910	7	5	673	1	0	1	1	0	0	0	0	0	1208	378	14	0	84	0	ATRX	23	76763910	Frame_Shift_Ins	INS	-	TCGA-KN-8437-01A-11D-2310-10		76763910	78506650	45	43383										
TCEAL5	340543	mdanderson.org	37	chrX	102529084	102529084	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tcactgctcagatgcctttcTtgtaagtcctcctgagagtc	8	12	3	2			TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chrX:102529084T>C	ENST00000372680.1	-	3	702	c.408A>G	c.(406-408)caA>caG	p.Q136Q		NM_001012979.2	NP_001012997.1	Q5H9L2	TCAL5_HUMAN	transcription elongation factor A (SII)-like 5	136					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)		p.Q136Q(2)		breast(1)|endometrium(1)|kidney(2)|large_intestine(1)|lung(5)|skin(1)	11						GATGCCTTTCTTGTAAGTCCT	0.498																																																2	Substitution - coding silent(2)	kidney(1)|endometrium(1)											203	174	184					X																	102529084		2203	4300	6503	SO:0001819	synonymous_variant	340543				CCDS35356.1	Xq22.2	2014-03-21			ENSG00000204065	ENSG00000204065			22282	protein-coding gene	gene with protein product						16221301	Standard	NM_001012979		Approved	WEX4	uc004ejz.2	Q5H9L2	OTTHUMG00000022092	ENST00000372680.1:c.408A>G	X.37:g.102529084T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2RUJ4	Silent	SNP	ENST00000372680.1	37	CCDS35356.1																																																																																				0.498	TCEAL5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057696.1	XM_291334		C	102529084	T	C	102529084	2	2	673	1	0	0	0	0	0	0	0	1	15686	1606	56	3		3	TCEAL5	23	102529084	Silent	SNP	T	TCGA-KN-8437-01A-11D-2310-10	25765174	102529084	52741476	46	43384										
RAB40A	142684	broad.mit.edu	37	chrX	102755467	102755468	+	Frame_Shift_Ins	INS	-	-	C													0	0	1	0	0	0	1	1	0	tatggtacaaaatcttccctINSgccccgacgtatcccagagc							TCGA-KN-8437-01A-11D-2310-10	TCGA-KN-8437-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	345a06d6-fa5c-4674-a847-88a6b537cf3c	a1283c7d-6305-46d3-b518-47cb8b37ba18	g.chrX:102755467_102755468insC	ENST00000372633.1	-	1	2335_2336	c.217_218insG	c.(217-219)cagfs	p.Q73fs	LL0XNC01-250H12.3_ENST00000445990.1_RNA|RAB40A_ENST00000304236.1_Frame_Shift_Ins_p.Q73fs			Q8WXH6	RB40A_HUMAN	RAB40A, member RAS oncogene family	73					protein transport (GO:0015031)|protein ubiquitination (GO:0016567)|small GTPase mediated signal transduction (GO:0007264)	plasma membrane (GO:0005886)	GTP binding (GO:0005525)			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|skin(1)	12						AAATCTTCCCTGCCCCGACGTA	0.564																																																0																																										SO:0001589	frameshift_variant	142684			AF132748	CCDS35357.1	Xq22.1	2009-08-25			ENSG00000172476	ENSG00000172476		"RAB, member RAS oncogene"	18283	protein-coding gene	gene with protein product						11697911	Standard	NM_080879		Approved	RAR2A, Rar-2	uc004ekk.3	Q8WXH6	OTTHUMG00000022100	ENST00000372633.1:c.217_218insG	X.37:g.102755467_102755468insC	ENSP00000361716:p.Gln73fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00407|Q17RQ5|Q6DK06|Q8TF06	Frame_Shift_Ins	INS	ENST00000372633.1	37	CCDS35357.1																																																																																				0.564	RAB40A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057714.1			C	102755468	-	C	102755467	7	5	673	1	0	1	1	0	0	0	0	0	12952	1580	55	0	619	0	RAB40A	23	102755467	Frame_Shift_Ins	INS	-	TCGA-KN-8437-01A-11D-2310-10	226383	102755467	52515093	47	43385										
PRDM2	7799	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	14105033	14105033	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ccctgcccctgcctgggagcCacagccagaaccagacgagc	11	18	0	2			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr1:14105033C>T	ENST00000235372.7	+	8	1599	c.743C>T	c.(742-744)cCa>cTa	p.P248L	PRDM2_ENST00000413440.1_Missense_Mutation_p.P47L|PRDM2_ENST00000343137.4_Missense_Mutation_p.P47L|PRDM2_ENST00000505823.1_Intron|PRDM2_ENST00000311066.5_Missense_Mutation_p.P248L|PRDM2_ENST00000376048.5_Intron|PRDM2_ENST00000503842.1_Intron	NM_012231.4	NP_036363.2	Q13029	PRDM2_HUMAN	PR domain containing 2, with ZNF domain	248					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(16)|lung(20)|ovary(3)|prostate(3)|skin(1)|urinary_tract(2)	55	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		GCCTGGGAGCCACAGCCAGAA	0.592																																																0													53	58	56					1																	14105033		2202	4300	6502	SO:0001583	missense	7799			U17838	CCDS150.1, CCDS151.1, CCDS30603.1, CCDS44061.1	1p36	2011-07-01			ENSG00000116731	ENSG00000116731		"Chromatin-modifying enzymes / K-methyltransferases"	9347	protein-coding gene	gene with protein product	"retinoblastoma protein-binding zinc finger protein", "retinoblastoma protein-interacting zinc finger protein", "MTE-binding protein", "zinc-finger DNA-binding protein", "GATA-3 binding protein G3B"	601196				7538672	Standard	NM_012231		Approved	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1	uc001avi.3	Q13029	OTTHUMG00000007917	ENST00000235372.7:c.743C>T	1.37:g.14105033C>T	ENSP00000235372:p.Pro248Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B1AJZ4|B5MC68|Q13149|Q14550|Q5THJ1|Q5VUL9	Missense_Mutation	SNP	ENST00000235372.7	37	CCDS150.1	.	.	.	.	.	.	.	.	.	.	C	7.476	0.647689	0.14516	.	.	ENSG00000116731	ENST00000235372;ENST00000311066;ENST00000400800;ENST00000413440;ENST00000343137;ENST00000407521	T;T;T;T	0.01572	4.88;4.77;4.76;4.76	5.66	2.67	0.31697	.	0.702533	0.14676	N	0.305019	T	0.02156	0.0067	L	0.40543	1.245	0.25767	N	0.984882	B;B;B	0.19817	0.0;0.023;0.039	B;B;B	0.23716	0.002;0.021;0.048	T	0.41070	-0.9529	10	0.59425	D	0.04	.	7.4233	0.27083	0.0:0.6362:0.0:0.3638	.	106;248;248	Q5THJ0;Q13029;Q13029-2	.;PRDM2_HUMAN;.	L	248;248;248;47;47;47	ENSP00000235372:P248L;ENSP00000312352:P248L;ENSP00000411103:P47L;ENSP00000341621:P47L	ENSP00000235372:P248L	P	+	2	0	PRDM2	13977620	0.058000	0.20735	0.043000	0.18650	0.063000	0.16089	0.460000	0.21924	0.283000	0.22279	-0.378000	0.06908	CCA		0.592	PRDM2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000021792.2	NM_012231		T	14105033	C	T	14105033	3	4	674	1	0	0	0	0	1	0	0	0	12468	594	21	2	769	2	PRDM2	1	14105033	Missense_Mutation	SNP	C	TCGA-KO-8403-01A-11D-2310-10		14105033	235145588	1	43386										
KIF17	57576	ucsc.edu	37	chr1	20998493	20998493	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	tccagaagccgttatcttcgTcccagcaggactcacgcaga	9	14	2	2			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr1:20998493T>C	ENST00000247986.2	-	12	2970	c.2660A>G	c.(2659-2661)gAc>gGc	p.D887G	KIF17_ENST00000400463.3_Missense_Mutation_p.D887G|KIF17_ENST00000375044.1_Missense_Mutation_p.D787G|KIF17_ENST00000490034.1_5'UTR			Q9P2E2	KIF17_HUMAN	kinesin family member 17	887					ATP catabolic process (GO:0006200)|cell projection organization (GO:0030030)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|neurogenesis (GO:0022008)|protein complex localization (GO:0031503)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|intraciliary transport particle B (GO:0030992)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|plus-end-directed microtubule motor activity (GO:0008574)			NS(2)|endometrium(3)|kidney(3)|large_intestine(9)|liver(1)|lung(23)|ovary(4)|pancreas(1)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	50		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)		GTTATCTTCGTCCCAGCAGGA	0.582																																																0													123	112	116					1																	20998493		2203	4300	6503	SO:0001583	missense	57576			AB037826	CCDS213.1, CCDS44079.1, CCDS72722.1	1p36.13	2012-08-01			ENSG00000117245	ENSG00000117245		"Kinesins"	19167	protein-coding gene	gene with protein product	"kinesin-like protein KIF17", "KIF3-related motor protein", "KIF17 variant protein"	605037				10846156	Standard	XR_241202		Approved	KIAA1405, KIF3X, KIF17B, OSM-3, KLP-2	uc001bdr.4	Q9P2E2	OTTHUMG00000002863	ENST00000247986.2:c.2660A>G	1.37:g.20998493T>C	ENSP00000247986:p.Asp887Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3Q7|A2A3Q8|O95077|Q53YS6|Q5VWA9|Q6GSA8|Q8N411	Missense_Mutation	SNP	ENST00000247986.2	37	CCDS213.1	.	.	.	.	.	.	.	.	.	.	T	27.8	4.863900	0.91511	.	.	ENSG00000117245	ENST00000375044;ENST00000400463;ENST00000247986;ENST00000321188	T;T;T	0.75821	-0.97;-0.78;-0.79	5.64	5.64	0.86602	.	0.000000	0.33515	U	0.004839	D	0.85261	0.5656	M	0.70595	2.14	0.45883	D	0.998733	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.996;0.999;0.996	D	0.86601	0.1866	10	0.66056	D	0.02	.	15.3326	0.74226	0.0:0.0:0.0:1.0	.	887;887;887	B0I1R5;Q9P2E2-3;Q9P2E2	.;.;KIF17_HUMAN	G	787;887;887;268	ENSP00000364184:D787G;ENSP00000383311:D887G;ENSP00000247986:D887G	ENSP00000247986:D887G	D	-	2	0	KIF17	20871080	1.000000	0.71417	0.996000	0.52242	0.973000	0.67179	7.278000	0.78587	2.279000	0.76181	0.459000	0.35465	GAC		0.582	KIF17-009	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000276995.1	NM_020816		C	20998493	T	C	20998493	3	2	674	1	0	0	0	0	1	0	0	0	8286	1667	58	3	445	3	KIF17	1	20998493	Missense_Mutation	SNP	T	TCGA-KO-8403-01A-11D-2310-10	6893460	20998493	228252128	2	43387										
CSMD2	114784	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	34043016	34043016	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	gccaaagtggatggagccccCgggctgggtgctggtctggc	18	11	1	0	rs374084658		TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr1:34043016C>T	ENST00000373381.4	-	49	7632	c.7456G>A	c.(7456-7458)Ggg>Agg	p.G2486R		NM_001281956.1|NM_052896.3	NP_001268885.1|NP_443128.2	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2488	Sushi 14. {ECO:0000255|PROSITE- ProRule:PRU00302}.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(5)|breast(5)|central_nervous_system(3)|cervix(2)|endometrium(20)|haematopoietic_and_lymphoid_tissue(4)|kidney(9)|large_intestine(43)|lung(114)|ovary(8)|pancreas(1)|prostate(6)|skin(20)|upper_aerodigestive_tract(5)|urinary_tract(1)	246		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				ATGGAGCCCCCGGGCTGGGTG	0.642													C|||	1	0.000199681	0.0008	0.0	5008	,	,		15976	0.0		0.0	False		,,,				2504	0.0															0								C	ARG/GLY	0,4406		0,0,2203	49	53	51		7462	5.4	1	1		51	1,8599	1.2+/-3.3	0,1,4299	no	missense	CSMD2	NM_052896.3	125	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	2488/3488	34043016	1,13005	2203	4300	6503	SO:0001583	missense	114784			AY210418	CCDS380.1, CCDS60082.1	1p34.3	2014-01-28			ENSG00000121904	ENSG00000121904			19290	protein-coding gene	gene with protein product		608398				11472063, 11572484	Standard	NM_001281956		Approved	KIAA1884	uc001bxn.1	Q7Z408	OTTHUMG00000011135	ENST00000373381.4:c.7456G>A	1.37:g.34043016C>T	ENSP00000362479:p.Gly2486Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B1AM50|E7EUA6|Q53TY4|Q5VT59|Q8N963|Q96Q03|Q9H4V7|Q9H4V8|Q9H4V9|Q9H4W0|Q9H4W1|Q9H4W2|Q9H4W3|Q9H4W4|Q9HCY5|Q9HCY6|Q9HCY7	Missense_Mutation	SNP	ENST00000373381.4	37		.	.	.	.	.	.	.	.	.	.	C	33	5.242722	0.95272	0.0	1.16E-4	ENSG00000121904	ENST00000373381	T	0.71698	-0.59	5.45	5.45	0.79879	Complement control module (2);Sushi/SCR/CCP (3);	0.123617	0.53938	D	0.000044	D	0.86167	0.5868	M	0.84511	2.7	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.87679	0.2546	10	0.62326	D	0.03	.	18.2782	0.90089	0.0:1.0:0.0:0.0	.	2488;2486	Q7Z408;E7EUA6	CSMD2_HUMAN;.	R	2486	ENSP00000362479:G2486R	ENSP00000241312:G2488R	G	-	1	0	CSMD2	33815603	1.000000	0.71417	0.989000	0.46669	0.989000	0.77384	7.757000	0.85209	2.569000	0.86673	0.563000	0.77884	GGG		0.642	CSMD2-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_052896		T	34043016	C	T	34043016	3	4	674	1	0	0	0	0	1	0	0	0	3947	652	23	1	3081	1	CSMD2	1	34043016	Missense_Mutation	SNP	C	TCGA-KO-8403-01A-11D-2310-10	13044523	34043016	215207605	3	43388										
GPATCH4	54865	hgsc.bcm.edu	37	chr1	156565504	156565504	+	Frame_Shift_Del	DEL	T	T	-													0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	tctgcctccttttctttttcTtttttttggggggcttgctc							TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr1:156565504delT	ENST00000438976.2	-	8	659	c.629delA	c.(628-630)aagfs	p.K213fs	GPATCH4_ENST00000368232.4_Frame_Shift_Del_p.K208fs|GPATCH4_ENST00000497287.1_5'UTR			Q5T3I0	GPTC4_HUMAN	G patch domain containing 4	208							poly(A) RNA binding (GO:0044822)			autonomic_ganglia(1)|breast(2)|kidney(1)|large_intestine(1)|lung(5)|ovary(1)|prostate(2)|skin(3)|stomach(1)	17	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TTTCTTTTTCTTTTTTTTGGG	0.537																																																0													90	89	90					1																	156565504		2203	4300	6503	SO:0001589	frameshift_variant	54865			BC056904	CCDS1146.1, CCDS44245.1	1q22	2013-01-28		2006-12-13	ENSG00000160818	ENSG00000160818		"G patch domain containing"	25982	protein-coding gene	gene with protein product				GPATC4		12477932	Standard	NM_015590		Approved	FLJ20249, DKFZP434F1735	uc001fpl.3	Q5T3I0	OTTHUMG00000033203	ENST00000438976.2:c.629delA	1.37:g.156565504delT	ENSP00000396441:p.Lys213fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T3I1|Q6ZUE7|Q8IWG8|Q9NXH4	Frame_Shift_Del	DEL	ENST00000438976.2	37	CCDS44245.1																																																																																				0.537	GPATCH4-015	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000386947.1	NM_017725		-	156565504	T	-	156565504	7	5	674	1	0	1	0	1	0	0	0	0	6600	1609	56	0	502	0	GPATCH4	1	156565504	Frame_Shift_Del	DEL	T	TCGA-KO-8403-01A-11D-2310-10	122522488	156565504	92685117	4	43389										
BAT2L2	23215	broad.mit.edu	37	chr1	171560737	171560737	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ttttttaaggcaaagcagagAgcagaggttcttcagtccac	10	8	2	2			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr1:171560737A>G	ENST00000338920.4	+	34	8442	c.8205A>G	c.(8203-8205)agA>agG	p.R2735R	PRRC2C_ENST00000367742.3_Silent_p.R2737R|PRRC2C_ENST00000392078.3_Silent_p.R2816R|PRRC2C_ENST00000426496.2_Silent_p.R2670R	NM_015172.3	NP_055987.2	Q9Y520	PRC2C_HUMAN	proline-rich coiled-coil 2C	2814					hematopoietic progenitor cell differentiation (GO:0002244)	membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)										CAAAGCAGAGAGCAGAGGTTC	0.418																																																0													81	76	78					1																	171560737		1919	4135	6054	SO:0001819	synonymous_variant	23215			AL096857	CCDS1296.2	1q24.3	2012-07-18	2010-12-09	2010-12-09	ENSG00000117523	ENSG00000117523			24903	protein-coding gene	gene with protein product			"BAT2 domain containing 1", "HLA-B associated transcript 2-like 2"	BAT2D1, BAT2L2		10470851, 12443540	Standard	NM_015172		Approved	KIAA1096, XTP2	uc010pmg.2	Q9Y520	OTTHUMG00000034665	ENST00000338920.4:c.8205A>G	1.37:g.171560737A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q05DM8|Q49A39|Q6PD54|Q9H2N2|Q9HA05|Q9NSM8|Q9NXL3|Q9UF29|Q9UPQ6	Silent	SNP	ENST00000338920.4	37	CCDS1296.2	.	.	.	.	.	.	.	.	.	.	A	5.980	0.364720	0.11296	.	.	ENSG00000117523	ENST00000495585	.	.	.	5.93	5.93	0.95920	.	.	.	.	.	T	0.66317	0.2777	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.66180	-0.5988	4	.	.	.	.	16.3871	0.83514	1.0:0.0:0.0:0.0	.	.	.	.	G	1218	.	.	E	+	2	0	PRRC2C	169827360	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.978000	0.56881	2.270000	0.75569	0.482000	0.46254	GAG		0.418	PRRC2C-010	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000314826.4	NM_015172		G	171560737	A	G	171560737	2	3	674	1	0	0	0	0	0	0	0	1	1321	301	11	3		3	BAT2L2	1	171560737	Silent	SNP	A	TCGA-KO-8403-01A-11D-2310-10	14995233	171560737	77689884	5	43390										
OR2L2	26246	mdanderson.org	37	chr1	248202412	248202412	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	gttttctacaccatcctcacCccaatgctcaaccccatcat	2	18	4	0			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr1:248202412C>T	ENST00000366479.2	+	1	939	c.843C>T	c.(841-843)acC>acT	p.T281T	OR2L13_ENST00000366478.2_Intron	NM_001004686.2	NP_001004686.1	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L, member 2	281						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(28)|ovary(1)|skin(4)|urinary_tract(1)	42	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)			CCATCCTCACCCCAATGCTCA	0.468																																																0													98	93	95					1																	248202412		2203	4300	6503	SO:0001819	synonymous_variant	26246			X64978	CCDS31103.1	1q44	2012-08-09			ENSG00000203663	ENSG00000203663		"GPCR / Class A : Olfactory receptors"	8266	protein-coding gene	gene with protein product				OR2L4P, OR2L12		1370859	Standard	NM_001004686		Approved	HTPCRH07, HSHTPCRH07	uc001idw.3	Q8NH16	OTTHUMG00000040214	ENST00000366479.2:c.843C>T	1.37:g.248202412C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3T5	Silent	SNP	ENST00000366479.2	37	CCDS31103.1																																																																																				0.468	OR2L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096871.1	NM_001004686		T	248202412	C	T	248202412	2	4	674	1	0	0	0	0	0	0	0	1	11014	610	22	2		2	OR2L2	1	248202412	Silent	SNP	C	TCGA-KO-8403-01A-11D-2310-10	76641675	248202412	1048209	6	43391										
SCN1A	6323	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	166900204	166900204	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	catcagtagctggcttatctAttatcacctctggcagaagc	8	11	4	1			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr2:166900204A>T	ENST00000303395.4	-	11	2017	c.2018T>A	c.(2017-2019)aTa>aAa	p.I673K	AC010127.3_ENST00000595647.1_RNA|AC010127.3_ENST00000595268.1_RNA|SCN1A_ENST00000409050.1_Intron|AC010127.3_ENST00000599041.1_RNA|SCN1A_ENST00000423058.2_Missense_Mutation_p.I673K|SCN1A_ENST00000375405.3_Intron			P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha subunit	673					adult walking behavior (GO:0007628)|membrane depolarization during action potential (GO:0086010)|neuromuscular process controlling posture (GO:0050884)|neuronal action potential (GO:0019228)|neuronal action potential propagation (GO:0019227)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	axon initial segment (GO:0043194)|intercalated disc (GO:0014704)|neuronal cell body (GO:0043025)|node of Ranvier (GO:0033268)|plasma membrane (GO:0005886)|T-tubule (GO:0030315)|voltage-gated sodium channel complex (GO:0001518)|Z disc (GO:0030018)	voltage-gated sodium channel activity (GO:0005248)			NS(4)|breast(5)|endometrium(16)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(33)|lung(87)|ovary(7)|pancreas(1)|prostate(9)|skin(23)|upper_aerodigestive_tract(2)|urinary_tract(1)	200					Dronedarone(DB04855)|Nitrazepam(DB01595)|Permethrin(DB04930)|Phenacemide(DB01121)|Phenazopyridine(DB01438)|Phenytoin(DB00252)|Topiramate(DB00273)|Valproic Acid(DB00313)|Zonisamide(DB00909)	TGGCTTATCTATTATCACCTC	0.473																																																0													72	67	69					2																	166900204		2203	4300	6503	SO:0001583	missense	6323			AB093548	CCDS33316.1, CCDS54413.1, CCDS54414.1	2q24.3	2014-09-17	2007-01-23		ENSG00000144285	ENSG00000144285		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10585	protein-coding gene	gene with protein product		182389	"febrile convulsions 3"	SCN1, FEB3		8062593, 16382098, 11823106	Standard	NM_006920		Approved	Nav1.1, GEFSP2, HBSCI, NAC1, SMEI	uc021vsb.1	P35498	OTTHUMG00000044173	ENST00000303395.4:c.2018T>A	2.37:g.166900204A>T	ENSP00000303540:p.Ile673Lys	Somatic		WXS	Illumina HiSeq	Phase_I	E9PG49|Q16172|Q585T7|Q8IUJ6|Q96LA3|Q9C008	Missense_Mutation	SNP	ENST00000303395.4	37	CCDS54413.1	.	.	.	.	.	.	.	.	.	.	A	14.10	2.434635	0.43224	.	.	ENSG00000144285	ENST00000423058;ENST00000303395	D;D	0.90620	-2.7;-2.7	4.9	4.9	0.64082	Domain of unknown function DUF3451 (1);	0.000000	0.64402	D	0.000010	D	0.85191	0.5640	L	0.34521	1.04	0.45066	D	0.998084	P	0.42357	0.777	B	0.43052	0.406	T	0.83092	-0.0132	10	0.06365	T	0.9	.	14.8259	0.70113	1.0:0.0:0.0:0.0	.	673	P35498	SCN1A_HUMAN	K	673	ENSP00000407030:I673K;ENSP00000303540:I673K	ENSP00000303540:I673K	I	-	2	0	SCN1A	166608450	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.285000	0.78660	1.962000	0.57031	0.459000	0.35465	ATA		0.473	SCN1A-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000102661.1	NM_006920		T	166900204	A	T	166900204	3	4	674	1	0	0	0	0	1	0	0	0	13927	449	16	5	4075	5	SCN1A	2	166900204	Missense_Mutation	SNP	A	TCGA-KO-8403-01A-11D-2310-10		166900204	76299169	7	43392										
GPR155	151556	ucsc.edu	37	chr2	175346286	175346286	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	aaaatagggaatagtccagcTttgctaaatcgactatcagg	9	7	1	0			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr2:175346286T>C	ENST00000392552.2	-	2	637	c.399A>G	c.(397-399)aaA>aaG	p.K133K	GPR155_ENST00000392551.2_Silent_p.K133K|GPR155_ENST00000295500.4_Silent_p.K133K	NM_001267051.1|NM_152529.6	NP_001253980.1|NP_689742.4	Q7Z3F1	GP155_HUMAN	G protein-coupled receptor 155	133					cognition (GO:0050890)|intracellular signal transduction (GO:0035556)|transmembrane transport (GO:0055085)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				breast(2)|endometrium(5)|kidney(1)|large_intestine(4)|lung(8)|ovary(1)|prostate(1)|stomach(2)|urinary_tract(2)	26						ATAGTCCAGCTTTGCTAAATC	0.323																																																0													151	163	159					2																	175346286		2203	4299	6502	SO:0001819	synonymous_variant	151556			AY255528	CCDS2259.1, CCDS74605.1	2q31.1	2012-04-10			ENSG00000163328	ENSG00000163328			22951	protein-coding gene	gene with protein product						12679517	Standard	NM_001033045		Approved	DEPDC3, DEP.7, FLJ31819, PGR22	uc002uiu.4	Q7Z3F1	OTTHUMG00000132336	ENST00000392552.2:c.399A>G	2.37:g.175346286T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RCI2|D3DPE2|Q4G0Y6|Q53SJ3|Q53TA8|Q69YG8|Q86SP9|Q8N261|Q8N639|Q8N8K3|Q96MV6	Silent	SNP	ENST00000392552.2	37	CCDS2259.1																																																																																				0.323	GPR155-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255455.1	NM_152529		C	175346286	T	C	175346286	2	2	674	1	0	0	0	0	0	0	0	1	6667	1606	56	3		3	GPR155	2	175346286	Silent	SNP	T	TCGA-KO-8403-01A-11D-2310-10	8446082	175346286	67853087	8	43393										
ATG7	10533	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	11340174	11340174	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	taataggcaagaaataatggCggcagctacgggggatcctg	14	7	0	1			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr3:11340174C>T	ENST00000354449.3	+	2	30	c.5C>T	c.(4-6)gCg>gTg	p.A2V	ATG7_ENST00000446450.2_Missense_Mutation_p.A2V|ATG7_ENST00000354956.5_Missense_Mutation_p.A2V|ATG7_ENST00000469654.2_3'UTR	NM_006395.2	NP_006386.1	O95352	ATG7_HUMAN	autophagy related 7	2					adult walking behavior (GO:0007628)|C-terminal protein lipidation (GO:0006501)|cardiac muscle cell development (GO:0055013)|cellular amino acid metabolic process (GO:0006520)|cellular protein modification process (GO:0006464)|cellular response to hyperoxia (GO:0071455)|cellular response to nitrogen starvation (GO:0006995)|cellular response to starvation (GO:0009267)|central nervous system neuron axonogenesis (GO:0021955)|cerebellar Purkinje cell layer development (GO:0021680)|cerebral cortex development (GO:0021987)|late nucleophagy (GO:0044805)|liver development (GO:0001889)|membrane fusion (GO:0061025)|mitochondrion degradation (GO:0000422)|mitochondrion organization (GO:0007005)|negative regulation of apoptotic process (GO:0043066)|negative stranded viral RNA replication (GO:0039689)|neurological system process (GO:0050877)|piecemeal microautophagy of nucleus (GO:0034727)|positive regulation of apoptotic process (GO:0043065)|positive regulation of autophagy (GO:0010508)|positive regulation of macroautophagy (GO:0016239)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of protein modification process (GO:0031401)|post-embryonic development (GO:0009791)|protein catabolic process (GO:0030163)|protein lipidation (GO:0006497)|protein modification by small protein conjugation (GO:0032446)|protein transport (GO:0015031)|pyramidal neuron development (GO:0021860)|regulation of protein ubiquitination (GO:0031396)	axoneme (GO:0005930)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|pre-autophagosomal structure (GO:0000407)	Atg12 activating enzyme activity (GO:0019778)|Atg8 activating enzyme (GO:0019779)|protein homodimerization activity (GO:0042803)|transcription factor binding (GO:0008134)|ubiquitin activating enzyme activity (GO:0004839)			central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(4)|lung(14)|prostate(1)|skin(2)|urinary_tract(1)	34						GAAATAATGGCGGCAGCTACG	0.408																																																0													105	115	111					3																	11340174		2203	4300	6503	SO:0001583	missense	10533			AF094516	CCDS2605.1, CCDS46752.1, CCDS46753.1	3p25.3-p25.2	2014-02-18	2012-06-06	2005-09-11	ENSG00000197548	ENSG00000197548		"Ubiquitin-like modifier activating enzymes"	16935	protein-coding gene	gene with protein product	"ubiquitin-activating enzyme E1-like protein"	608760	"APG7 autophagy 7-like (S. cerevisiae)", "ATG7 autophagy related 7 homolog (S. cerevisiae)"	APG7L		10233149	Standard	NM_006395		Approved	GSA7, DKFZp434N0735	uc003bwc.3	O95352	OTTHUMG00000129740	ENST00000354449.3:c.5C>T	3.37:g.11340174C>T	ENSP00000346437:p.Ala2Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4E170|E9PB95|Q7L8L0|Q9BWP2|Q9UFH4	Missense_Mutation	SNP	ENST00000354449.3	37	CCDS2605.1	.	.	.	.	.	.	.	.	.	.	C	18.67	3.672825	0.67928	.	.	ENSG00000197548	ENST00000451513;ENST00000435760;ENST00000451830;ENST00000444619;ENST00000446450;ENST00000354956;ENST00000354449;ENST00000419112;ENST00000423116	T;T;T;T;T;T;T;T;T	0.45668	0.89;0.89;0.89;0.89;0.89;0.89;0.89;0.89;0.89	6.17	5.3	0.74995	.	0.370287	0.27109	N	0.020900	T	0.24774	0.0601	N	0.14661	0.345	0.33124	D	0.54224	B;P;P	0.43352	0.396;0.804;0.704	B;B;B	0.34242	0.086;0.178;0.086	T	0.42949	-0.9421	10	0.72032	D	0.01	-4.5055	12.4727	0.55795	0.0:0.9231:0.0:0.0769	.	2;2;2	E9PB95;O95352-2;O95352	.;.;ATG7_HUMAN	V	2	ENSP00000415223:A2V;ENSP00000390547:A2V;ENSP00000411880:A2V;ENSP00000389996:A2V;ENSP00000412580:A2V;ENSP00000347042:A2V;ENSP00000346437:A2V;ENSP00000408303:A2V;ENSP00000416644:A2V	ENSP00000346437:A2V	A	+	2	0	ATG7	11315174	0.990000	0.36364	0.964000	0.40570	0.065000	0.16274	2.914000	0.48797	1.627000	0.50400	0.655000	0.94253	GCG		0.408	ATG7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251951.3	NM_006395		T	11340174	C	T	11340174	3	4	674	1	0	0	0	0	1	0	0	0	1101	768	27	1	7	1	ATG7	3	11340174	Missense_Mutation	SNP	C	TCGA-KO-8403-01A-11D-2310-10		11340174	186682256	9	43394										
NDUFAF3	25915	broad.mit.edu	37	chr3	49059954	49059954	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	cctgcgctctgctcccgcacTcggtggtgcagtggaacgtg	14	14	1	0			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr3:49059954T>C	ENST00000326925.6	+	2	1387	c.253T>C	c.(253-255)Tcg>Ccg	p.S85P	NDUFAF3_ENST00000326912.4_Missense_Mutation_p.S28P|DALRD3_ENST00000440857.1_5'Flank|MIR425_ENST00000362162.1_RNA|NDUFAF3_ENST00000395458.2_Missense_Mutation_p.S28P|DALRD3_ENST00000313778.5_5'Flank|MIR191_ENST00000384873.1_RNA|NDUFAF3_ENST00000451378.2_Missense_Mutation_p.S28P|DALRD3_ENST00000496568.1_5'Flank	NM_199069.1	NP_951032.1	Q9BU61	NDUF3_HUMAN	NADH dehydrogenase (ubiquinone) complex I, assembly factor 3	85					mitochondrial respiratory chain complex I assembly (GO:0032981)	mitochondrial inner membrane (GO:0005743)|nucleus (GO:0005634)				haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|lung(4)	8						GCTCCCGCACTCGGTGGTGCA	0.622																																																0													24	23	24					3																	49059954		2203	4300	6503	SO:0001583	missense	25915				CCDS2784.1, CCDS2785.1	3p21.31	2012-10-12	2012-05-08	2009-03-18	ENSG00000178057	ENSG00000178057		"Mitochondrial respiratory chain complex assembly factors"	29918	protein-coding gene	gene with protein product		612911	"chromosome 3 open reading frame 60", "NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 3"	C3orf60		12653254, 9349717	Standard	NM_199069		Approved	MGC10527, DKFZP564J0123, E3-3, 2P1	uc003cvq.3	Q9BU61	OTTHUMG00000156773	ENST00000326925.6:c.253T>C	3.37:g.49059954T>C	ENSP00000323076:p.Ser85Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000326925.6	37	CCDS2784.1	.	.	.	.	.	.	.	.	.	.	T	15.91	2.971238	0.53614	.	.	ENSG00000178057	ENST00000326912;ENST00000326925;ENST00000395458;ENST00000451378	T;T;T;T	0.77877	-1.13;-1.13;-1.13;-1.13	5.37	2.83	0.33086	.	0.113452	0.64402	D	0.000016	T	0.81564	0.4849	M	0.78049	2.395	0.35697	D	0.815333	P	0.45240	0.854	P	0.54026	0.74	T	0.81280	-0.1004	10	0.46703	T	0.11	-13.547	5.6228	0.17467	0.3845:0.0:0.2401:0.3755	.	85	Q9BU61	NDUF3_HUMAN	P	28;85;28;28	ENSP00000323003:S28P;ENSP00000323076:S85P;ENSP00000378843:S28P;ENSP00000402465:S28P	ENSP00000323003:S28P	S	+	1	0	NDUFAF3	49034958	0.993000	0.37304	0.465000	0.27155	0.082000	0.17680	2.759000	0.47573	0.282000	0.22254	0.482000	0.46254	TCG		0.622	NDUFAF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345683.2	NM_199069		C	49059954	T	C	49059954	3	2	674	1	0	0	0	0	1	0	0	0	10283	1551	54	3	259	3	NDUFAF3	3	49059954	Missense_Mutation	SNP	T	TCGA-KO-8403-01A-11D-2310-10	37719780	49059954	148962476	10	43395										
DNAH12	201625	broad.mit.edu	37	chr3	57431084	57431084	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ttcaaaaatccgtaagagtaGagggagatttctgctataag	10	5	2	3			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr3:57431084G>T	ENST00000351747.2	-	28	4353	c.4173C>A	c.(4171-4173)ctC>ctA	p.L1391L		NM_178504.4	NP_848599.3	Q6ZR08	DYH12_HUMAN	dynein, axonemal, heavy chain 12	1391	AAA 1. {ECO:0000250}.				microtubule-based movement (GO:0007018)	cilium (GO:0005929)|cytoplasm (GO:0005737)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			breast(3)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(4)|lung(7)|pancreas(1)|prostate(1)|skin(1)	25						CGTAAGAGTAGAGGGAGATTT	0.363																																																0													55	50	51					3																	57431084		692	1591	2283	SO:0001819	synonymous_variant	201625			U53532, AK126276	CCDS33771.1	3p21.1	2009-02-04	2006-09-04		ENSG00000174844	ENSG00000174844		"Axonemal dyneins"	2943	protein-coding gene	gene with protein product		603340	"dynein, axonemal, heavy polypeptide 12", "dynein heavy chain domain 2", "dynein heavy domain 2", "dynein, axonemal, heavy chain 12-like", "dynein, axonemal, heavy chain 7-like"	DNHD2, DNAH12L, DNAH7L		8812413, 8666668	Standard	NM_198564		Approved	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290	uc003dit.2	Q6ZR08	OTTHUMG00000158598	ENST00000351747.2:c.4173C>A	3.37:g.57431084G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NGI2|Q6ZTR8|Q8N7R9|Q8WXK2|Q92816	Silent	SNP	ENST00000351747.2	37																																																																																					0.363	DNAH12-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_178504		T	57431084	G	T	57431084	2	4	674	1	0	0	0	0	0	0	0	1	4602	929	33	4		4	DNAH12	3	57431084	Silent	SNP	G	TCGA-KO-8403-01A-11D-2310-10	8371130	57431084	140591346	11	43396										
SIAH2	6478	bcgsc.ca	37	chr3	150460253	150460253	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	atgactgcatcatcacccagTcgacagcccctggcaagtta	8	14	2	1			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr3:150460253T>C	ENST00000312960.3	-	2	1177	c.650A>G	c.(649-651)gAc>gGc	p.D217G		NM_005067.5	NP_005058.3	O43255	SIAH2_HUMAN	siah E3 ubiquitin protein ligase 2	217	SBD.				axon guidance (GO:0007411)|cell cycle (GO:0007049)|cellular protein catabolic process (GO:0044257)|negative regulation of apoptotic process (GO:0043066)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|regulation of protein ubiquitination (GO:0031396)|regulation of RNA biosynthetic process (GO:2001141)|small GTPase mediated signal transduction (GO:0007264)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|early endosome (GO:0005769)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)	ligase activity (GO:0016874)|transcription corepressor activity (GO:0003714)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)	p.D217G(1)		endometrium(2)|kidney(2)|large_intestine(6)|lung(4)|ovary(1)|pancreas(1)	16			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			CATCACCCAGTCGACAGCCCC	0.507																																																1	Substitution - Missense(1)	lung(1)											113	104	107					3																	150460253		2203	4300	6503	SO:0001583	missense	6478			U76248	CCDS3152.1	3q25	2012-02-23	2012-02-23		ENSG00000181788	ENSG00000181788	6.3.2.1		10858	protein-coding gene	gene with protein product		602213	"seven in absentia (Drosophila) homolog 2", "seven in absentia homolog 2 (Drosophila)"			9334332	Standard	NM_005067		Approved		uc003eyi.3	O43255	OTTHUMG00000159847	ENST00000312960.3:c.650A>G	3.37:g.150460253T>C	ENSP00000322457:p.Asp217Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O43270	Missense_Mutation	SNP	ENST00000312960.3	37	CCDS3152.1	.	.	.	.	.	.	.	.	.	.	T	28.8	4.947371	0.92593	.	.	ENSG00000181788	ENST00000312960	T	0.25912	1.77	5.67	5.67	0.87782	TRAF-type (1);Seven-in-absentia protein, TRAF-like domain (1);TRAF-like (1);	0.000000	0.85682	D	0.000000	T	0.55657	0.1934	M	0.90759	3.145	0.80722	D	1	P	0.43287	0.802	P	0.57846	0.828	T	0.59150	-0.7508	10	0.36615	T	0.2	.	15.9206	0.79562	0.0:0.0:0.0:1.0	.	217	O43255	SIAH2_HUMAN	G	217	ENSP00000322457:D217G	ENSP00000322457:D217G	D	-	2	0	SIAH2	151942943	1.000000	0.71417	0.994000	0.49952	0.922000	0.55478	8.024000	0.88770	2.148000	0.66965	0.482000	0.46254	GAC		0.507	SIAH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357697.1	NM_005067		C	150460253	T	C	150460253	3	2	674	1	0	0	0	0	1	0	0	0	14313	1667	58	3	328	3	SIAH2	3	150460253	Missense_Mutation	SNP	T	TCGA-KO-8403-01A-11D-2310-10	93029169	150460253	47562177	12	43397										
FAM13A	10144	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr4	89668864	89668864	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ccaatgtggcttcaacactgGgctttattgctttatccacc	7	12	1	0			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr4:89668864G>T	ENST00000264344.5	-	18	2507	c.2300C>A	c.(2299-2301)cCc>cAc	p.P767H	FAM13A_ENST00000508369.1_Missense_Mutation_p.P441H|FAM13A_ENST00000503556.1_Missense_Mutation_p.P427H|FAM13A_ENST00000513837.1_Missense_Mutation_p.P413H|FAM13A_ENST00000395002.2_Missense_Mutation_p.P441H|FAM13A_ENST00000511976.1_Missense_Mutation_p.P353H	NM_014883.3	NP_055698.2	O94988	FA13A_HUMAN	family with sequence similarity 13, member A	767					regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	GTPase activator activity (GO:0005096)			NS(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(11)|liver(1)|lung(22)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	55						TTCAACACTGGGCTTTATTGC	0.493																																																0													156	177	170					4																	89668864		2203	4300	6503	SO:0001583	missense	10144			AB020721	CCDS34029.1, CCDS43251.1, CCDS58911.1, CCDS58912.1, CCDS58913.1	4q22.1	2011-09-07	2009-01-20	2009-01-20	ENSG00000138640	ENSG00000138640		"Rho GTPase activating proteins"	19367	protein-coding gene	gene with protein product		613299	"family with sequence similarity 13, member A1"	FAM13A1			Standard	NM_014883		Approved	KIAA0914, ARHGAP48	uc003hse.2	O94988	OTTHUMG00000161006	ENST00000264344.5:c.2300C>A	4.37:g.89668864G>T	ENSP00000264344:p.Pro767His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DLC1|Q24JP0|Q5PR21|Q8NBA3	Missense_Mutation	SNP	ENST00000264344.5	37	CCDS34029.1	.	.	.	.	.	.	.	.	.	.	G	14.50	2.553406	0.45487	.	.	ENSG00000138640	ENST00000395002;ENST00000264344;ENST00000503556;ENST00000511976;ENST00000508369;ENST00000513837	T;T;T;T;T;T	0.57107	0.42;1.73;1.04;1.1;1.04;1.05	5.26	4.43	0.53597	.	0.055321	0.64402	D	0.000001	T	0.70605	0.3243	M	0.71581	2.175	0.80722	D	1	D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D	0.91635	0.997;0.999;0.998;0.999;0.996;0.997	T	0.74858	-0.3521	10	0.87932	D	0	.	13.9499	0.64111	0.0724:0.0:0.9276:0.0	.	413;353;767;441;427;441	O94988-6;E9PGM7;O94988;O94988-3;O94988-5;O94988-1	.;.;FA13A_HUMAN;.;.;.	H	441;767;427;353;441;413	ENSP00000378450:P441H;ENSP00000264344:P767H;ENSP00000427189:P427H;ENSP00000421914:P353H;ENSP00000421562:P441H;ENSP00000423252:P413H	ENSP00000264344:P767H	P	-	2	0	FAM13A	89887887	1.000000	0.71417	0.212000	0.23672	0.022000	0.10575	7.660000	0.83776	1.457000	0.47850	0.655000	0.94253	CCC		0.493	FAM13A-022	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363371.1			T	89668864	G	T	89668864	3	4	674	1	0	0	0	0	1	0	0	0	5456	1232	43	4	799	4	FAM13A	4	89668864	Missense_Mutation	SNP	G	TCGA-KO-8403-01A-11D-2310-10		89668864	101485412	13	43398										
TRPC3	7222	mdanderson.org	37	chr4	122872719	122872719	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	cccccgttgacgcccctccaGccccggcggcggcgctgcgg	14	21	0	1	rs1396082	byFrequency	TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr4:122872719G>A	ENST00000379645.3	-	1	190	c.117C>T	c.(115-117)ggC>ggT	p.G39G		NM_001130698.1	NP_001124170.1	Q13507	TRPC3_HUMAN	transient receptor potential cation channel, subfamily C, member 3	0					axon guidance (GO:0007411)|blood coagulation (GO:0007596)|calcium ion transmembrane transport (GO:0070588)|calcium ion transport (GO:0006816)|ion transmembrane transport (GO:0034220)|phototransduction (GO:0007602)|platelet activation (GO:0030168)|positive regulation of calcium ion transport into cytosol (GO:0010524)|positive regulation of cardiac muscle hypertrophy in response to stress (GO:1903244)|response to ATP (GO:0033198)|response to calcium ion (GO:0051592)|transmembrane transport (GO:0055085)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium channel activity (GO:0005262)|inositol 1,4,5 trisphosphate binding (GO:0070679)|store-operated calcium channel activity (GO:0015279)			NS(1)|breast(5)|central_nervous_system(3)|cervix(1)|endometrium(9)|kidney(1)|large_intestine(12)|lung(13)|ovary(2)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	51						CGCCCCTCCAGCCCCGGCGGC	0.751													G|||	1898	0.378994	0.093	0.4193	5008	,	,		7272	0.5179		0.5318	False		,,,				2504	0.4366															0													3	4	4					4																	122872719		586	1410	1996	SO:0001819	synonymous_variant	7222			Y13758	CCDS3725.1, CCDS47130.1	4q27	2011-12-14			ENSG00000138741	ENSG00000138741		"Voltage-gated ion channels / Transient receptor potential cation channels"	12335	protein-coding gene	gene with protein product		602345				8646775, 16382100	Standard	NM_003305		Approved		uc003ieg.2	Q13507	OTTHUMG00000133069	ENST00000379645.3:c.117C>T	4.37:g.122872719G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A7VJS1|E9PCJ9|O00593|Q15660|Q52M35|Q5G1L5	Silent	SNP	ENST00000379645.3	37	CCDS47130.1																																																																																				0.751	TRPC3-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000364252.1	NM_003305		A	122872719	G	A	122872719	2	1	674	1	0	0	0	0	0	0	0	1	16591	958	34	2		2	TRPC3	4	122872719	Silent	SNP	G	TCGA-KO-8403-01A-11D-2310-10	33203855	122872719	68281557	14	43399										
PCDHB3	56132	broad.mit.edu	37	chr5	140480872	140480872	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	gaactcagcttaacgctcacCgcgctggacggcggctctcc	11	16	3	0	rs148121148		TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr5:140480872C>T	ENST00000231130.2	+	1	639	c.639C>T	c.(637-639)acC>acT	p.T213T	AC005754.7_ENST00000607216.1_RNA	NM_018937.2	NP_061760.1	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3	213	Cadherin 2. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			NS(2)|breast(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(19)|lung(24)|ovary(1)|pancreas(1)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	72			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TAACGCTCACCGCGCTGGACG	0.562																																																0								C		1,4405	2.1+/-5.4	0,1,2202	51	51	51		639	-10.2	0	5	dbSNP_134	51	0,8600		0,0,4300	no	coding-synonymous	PCDHB3	NM_018937.2		0,1,6502	TT,TC,CC		0.0,0.0227,0.0077		213/797	140480872	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	56132			AF152496	CCDS4245.1	5q31	2010-01-26			ENSG00000113205	ENSG00000113205		"Cadherins / Protocadherins : Clustered"	8688	other	protocadherin		606329				10380929	Standard	NM_018937		Approved	PCDH-BETA3	uc003lio.3	Q9Y5E6	OTTHUMG00000129622	ENST00000231130.2:c.639C>T	5.37:g.140480872C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R8P2	Silent	SNP	ENST00000231130.2	37	CCDS4245.1																																																																																				0.562	PCDHB3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251817.2	NM_018937		T	140480872	C	T	140480872	2	4	674	1	0	0	0	0	0	0	0	1	11550	639	23	1		1	PCDHB3	5	140480872	Silent	SNP	C	TCGA-KO-8403-01A-11D-2310-10		140480872	40434388	15	43400										
DIAPH1	1729	bcgsc.ca	37	chr5	140953097	140953097	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ccggagctgcacctctggctTataaagctttttgggggtta	12	9	1	0			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr5:140953097T>C	ENST00000398557.4	-	16	2460	c.2320A>G	c.(2320-2322)Aag>Gag	p.K774E	DIAPH1_ENST00000398566.3_Missense_Mutation_p.K765E|DIAPH1_ENST00000389054.3_Missense_Mutation_p.K774E|DIAPH1_ENST00000398562.2_Missense_Mutation_p.K753E|DIAPH1_ENST00000389057.5_Missense_Mutation_p.K765E|DIAPH1_ENST00000520569.1_Missense_Mutation_p.K720E|DIAPH1_ENST00000518047.1_Missense_Mutation_p.K765E|DIAPH1_ENST00000253811.6_Missense_Mutation_p.K774E	NM_005219.4	NP_005210.3	O60610	DIAP1_HUMAN	diaphanous-related formin 1	774	FH2. {ECO:0000255|PROSITE- ProRule:PRU00774}.				actin filament polymerization (GO:0030041)|cellular response to histamine (GO:0071420)|cytoskeleton organization (GO:0007010)|positive regulation of cell migration (GO:0030335)|protein localization to microtubule (GO:0035372)|regulation of cell shape (GO:0008360)|regulation of microtubule-based process (GO:0032886)|regulation of release of sequestered calcium ion into cytosol (GO:0051279)|sensory perception of sound (GO:0007605)	cytoplasm (GO:0005737)|mitotic spindle (GO:0072686)|ruffle membrane (GO:0032587)	ion channel binding (GO:0044325)|poly(A) RNA binding (GO:0044822)|receptor binding (GO:0005102)			breast(1)|endometrium(2)|kidney(2)|large_intestine(1)|lung(12)|pancreas(1)|skin(2)|stomach(2)	23			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCTCTGGCTTATAAAGCTTT	0.458																																																0													62	68	66					5																	140953097		1831	4085	5916	SO:0001583	missense	1729			BC007411		5q31	2013-05-24	2013-05-24		ENSG00000131504	ENSG00000131504			2876	protein-coding gene	gene with protein product		602121	"diaphanous (Drosophila, homolog) 1", "diaphanous homolog 1 (Drosophila)"	DFNA1		9360932, 1350680	Standard	NM_005219		Approved	hDIA1, LFHL1	uc003llb.4	O60610	OTTHUMG00000149893	ENST00000398557.4:c.2320A>G	5.37:g.140953097T>C	ENSP00000381565:p.Lys774Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF18|B7ZKW2|E9PEZ2|Q17RN4|Q59FH8|Q9UC76	Missense_Mutation	SNP	ENST00000398557.4	37	CCDS43374.1	.	.	.	.	.	.	.	.	.	.	T	16.83	3.231990	0.58777	.	.	ENSG00000131504	ENST00000389054;ENST00000520569;ENST00000398562;ENST00000389057;ENST00000398566;ENST00000398557;ENST00000253811;ENST00000518047;ENST00000546094	T;T;T;T;T;T;T;T	0.17854	2.25;2.25;2.25;2.25;2.25;2.25;2.25;2.25	5.18	3.94	0.45596	Actin-binding FH2/DRF autoregulatory (1);Actin-binding FH2 (3);	0.408429	0.22997	N	0.053126	T	0.29256	0.0728	M	0.64170	1.965	0.46437	D	0.999046	D;D;D	0.56968	0.965;0.978;0.978	P;P;P	0.55615	0.711;0.78;0.78	T	0.01661	-1.1301	10	0.40728	T	0.16	.	10.8348	0.46681	0.0:0.0:0.1582:0.8418	.	720;765;774	E7ERW8;E9PEZ2;O60610	.;.;DIAP1_HUMAN	E	774;720;753;765;765;774;774;765;213	ENSP00000373706:K774E;ENSP00000429282:K720E;ENSP00000381570:K753E;ENSP00000373709:K765E;ENSP00000381572:K765E;ENSP00000381565:K774E;ENSP00000253811:K774E;ENSP00000428268:K765E	ENSP00000253811:K774E	K	-	1	0	DIAPH1	140933281	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.680000	0.68168	1.958000	0.56883	0.482000	0.46254	AAG		0.458	DIAPH1-203	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding		NM_005219		C	140953097	T	C	140953097	3	2	674	1	0	0	0	0	1	0	0	0	4520	1763	61	3	1550	3	DIAPH1	5	140953097	Missense_Mutation	SNP	T	TCGA-KO-8403-01A-11D-2310-10	472225	140953097	39962163	16	43401										
MXD3	83463	mdanderson.org	37	chr5	176734855	176734855	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	gcccgcagccgctcccgctcGgccgcccctgccagcccccg	11	25	0	0	rs4568379	byFrequency	TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr5:176734855G>C	ENST00000439742.2	-	5	910	c.432C>G	c.(430-432)gcC>gcG	p.A144A	MXD3_ENST00000427908.2_Silent_p.A144A|MXD3_ENST00000513063.1_Silent_p.A144A|MXD3_ENST00000423571.2_Silent_p.A144A	NM_031300.3	NP_112590.1	Q9BW11	MAD3_HUMAN	MAX dimerization protein 3	144					negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)					all_cancers(89;2.49e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	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)			GCTCCCGCTCGGCCGCCCCTG	0.697													G|||	1039	0.207468	0.3555	0.1686	5008	,	,		11663	0.0258		0.2276	False		,,,				2504	0.2014															0								G	,	1112,2786		174,764,1011	8	10	10		432,432	-8.5	0	5	dbSNP_111	10	1622,6156		180,1262,2447	no	coding-synonymous,coding-synonymous	MXD3	NM_001142935.1,NM_031300.3	,	354,2026,3458	CC,CG,GG		20.8537,28.5274,23.4156	,	144/194,144/207	176734855	2734,8942	1949	3889	5838	SO:0001819	synonymous_variant	83463			BC000745	CCDS4416.1, CCDS47347.1	5q35.3	2013-03-20			ENSG00000213347	ENSG00000213347		"MAX dimerization proteins", "Basic helix-loop-helix proteins"	14008	protein-coding gene	gene with protein product		609450					Standard	NM_031300		Approved	MAD3, bHLHc13	uc003mgb.2	Q9BW11	OTTHUMG00000130854	ENST00000439742.2:c.432C>G	5.37:g.176734855G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4E0J1|Q53HK1|Q7Z4Y0|Q8NDJ7|Q96ME3	Silent	SNP	ENST00000439742.2	37	CCDS4416.1																																																																																				0.697	MXD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253427.1			C	176734855	G	C	176734855	2	2	674	1	0	0	0	0	0	0	0	1	10007	1103	39	4		4	MXD3	5	176734855	Silent	SNP	G	TCGA-KO-8403-01A-11D-2310-10	35781758	176734855	4180405	17	43402										
BTNL8	79908	broad.mit.edu;bcgsc.ca	37	chr5	180377222	180377222	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	gtatttcacattaaatccccGttttatcagcgtcttcccca	4	13	3	0			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr5:180377222G>A	ENST00000340184.4	+	8	1387	c.1181G>A	c.(1180-1182)cGt>cAt	p.R394H	BTNL8_ENST00000533815.2_Missense_Mutation_p.R210H|BTNL8_ENST00000511704.1_Missense_Mutation_p.R278H|BTNL8_ENST00000505126.1_Missense_Mutation_p.R187H|BTNL8_ENST00000400707.3_Missense_Mutation_p.R269H|BTNL8_ENST00000508408.1_3'UTR|BTNL8_ENST00000231229.4_3'UTR	NM_001040462.2	NP_001035552.1	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8	394	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.				immune system process (GO:0002376)	integral component of membrane (GO:0016021)				breast(1)|endometrium(4)|kidney(2)|large_intestine(4)|lung(12)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	28	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)			TTAAATCCCCGTTTTATCAGC	0.478																																																0													136	120	125					5																	180377222		1976	3815	5791	SO:0001583	missense	79908			AK025111	CCDS4459.1, CCDS43413.1, CCDS54956.1, CCDS54957.1, CCDS54958.1, CCDS54959.1	5q35.3	2014-01-14			ENSG00000113303	ENSG00000113303		"Immunoglobulin superfamily / V-set domain containing", "Butyrophilins"	26131	protein-coding gene	gene with protein product		615606				12975309	Standard	NM_024850		Approved	FLJ21458, BTN9.2	uc003mmp.3	Q6UX41	OTTHUMG00000130932	ENST00000340184.4:c.1181G>A	5.37:g.180377222G>A	ENSP00000342197:p.Arg394His	Somatic		WXS	Illumina HiSeq	Phase_I	A4QMZ8|A6NEX6|B7Z409|B7Z5B1|E9PEF6|E9PG07|F2Z2B2|F8W712|Q9H730	Missense_Mutation	SNP	ENST00000340184.4	37	CCDS43413.1	.	.	.	.	.	.	.	.	.	.	G	0.008	-1.862774	0.00552	.	.	ENSG00000113303	ENST00000340184;ENST00000400707;ENST00000511704;ENST00000505126;ENST00000533815	T;T;T;T;T	0.69806	-0.43;-0.43;-0.43;-0.43;-0.43	1.85	0.484	0.16825	Concanavalin A-like lectin/glucanase (1);SPla/RYanodine receptor subgroup (1);B30.2/SPRY domain (1);SPla/RYanodine receptor SPRY (1);	.	.	.	.	T	0.50103	0.1596	L	0.46741	1.465	0.09310	N	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.32534	-0.9903	9	0.09084	T	0.74	.	4.9321	0.13923	0.8194:0.0:0.1806:0.0	.	269;278;394	E9PG07;E9PEF6;Q6UX41	.;.;BTNL8_HUMAN	H	394;269;278;187;210	ENSP00000342197:R394H;ENSP00000383543:R269H;ENSP00000425207:R278H;ENSP00000427441:R187H;ENSP00000435098:R210H	ENSP00000342197:R394H	R	+	2	0	BTNL8	180309828	0.000000	0.05858	0.003000	0.11579	0.007000	0.05969	-0.081000	0.11321	0.020000	0.15106	-0.634000	0.03986	CGT		0.478	BTNL8-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000368440.1	NM_024850		A	180377222	G	A	180377222	3	1	674	1	0	0	0	0	1	0	0	0	1569	1145	40	1	1367	1	BTNL8	5	180377222	Missense_Mutation	SNP	G	TCGA-KO-8403-01A-11D-2310-10	3642367	180377222	538038	18	43403										
GLP1R	2740	ucsc.edu	37	chr6	39033549	39033549	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	tctggctgcagaaggacaacTccagcctgccctggagggac	13	13	1	1			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr6:39033549T>C	ENST00000373256.4	+	4	389	c.346T>C	c.(346-348)Tcc>Ccc	p.S116P		NM_002062.3	NP_002053.3	P43220	GLP1R_HUMAN	glucagon-like peptide 1 receptor	116					activation of adenylate cyclase activity (GO:0007190)|cAMP-mediated signaling (GO:0019933)|energy reserve metabolic process (GO:0006112)|learning or memory (GO:0007611)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|regulation of heart contraction (GO:0008016)|regulation of insulin secretion (GO:0050796)|response to stress (GO:0006950)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	glucagon receptor activity (GO:0004967)|transmembrane signaling receptor activity (GO:0004888)			breast(5)|endometrium(3)|kidney(1)|large_intestine(8)|lung(9)|pancreas(1)|prostate(1)|skin(1)|stomach(2)	31					Exenatide(DB01276)|Glucagon recombinant(DB00040)|Liraglutide(DB06655)	GAAGGACAACTCCAGCCTGCC	0.652																																																0													44	40	41					6																	39033549		2201	4299	6500	SO:0001583	missense	2740				CCDS4839.1	6p21	2012-08-10			ENSG00000112164	ENSG00000112164		"GPCR / Class B : Glucagon receptors"	4324	protein-coding gene	gene with protein product		138032					Standard	NM_002062		Approved		uc003ooj.4	P43220	OTTHUMG00000014638	ENST00000373256.4:c.346T>C	6.37:g.39033549T>C	ENSP00000362353:p.Ser116Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M229|Q99669	Missense_Mutation	SNP	ENST00000373256.4	37	CCDS4839.1	.	.	.	.	.	.	.	.	.	.	T	16.24	3.067526	0.55539	.	.	ENSG00000112164	ENST00000373256	T	0.53423	0.62	4.86	3.62	0.41486	GPCR, family 2, extracellular hormone receptor domain (3);	0.212975	0.33534	N	0.004804	T	0.34629	0.0904	L	0.57536	1.79	0.40686	D	0.982358	P	0.44344	0.833	P	0.46144	0.505	T	0.18903	-1.0322	10	0.40728	T	0.16	.	9.333	0.38034	0.0:0.0:0.1803:0.8197	.	116	P43220	GLP1R_HUMAN	P	116	ENSP00000362353:S116P	ENSP00000362353:S116P	S	+	1	0	GLP1R	39141527	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	2.890000	0.48609	1.841000	0.53522	0.374000	0.22700	TCC		0.652	GLP1R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040443.1			C	39033549	T	C	39033549	3	2	674	1	0	0	0	0	1	0	0	0	6459	1551	54	3	360	3	GLP1R	6	39033549	Missense_Mutation	SNP	T	TCGA-KO-8403-01A-11D-2310-10		39033549	132081518	19	43404										
MANEA	79694	mdanderson.org	37	chr6	96054262	96054262	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	agcaacttatgcattagatcGccagctgcctgtttcttaat	7	10	1	1	rs75510775	byFrequency	TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr6:96054262G>A	ENST00000358812.4	+	5	1504	c.1370G>A	c.(1369-1371)cGc>cAc	p.R457H		NM_024641.3	NP_078917.2	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	457	Catalytic. {ECO:0000305}.				cellular protein metabolic process (GO:0044267)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)	Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	glycoprotein endo-alpha-1,2-mannosidase activity (GO:0004569)			breast(2)|endometrium(3)|kidney(2)|liver(2)|lung(13)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	26		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)		GCATTAGATCGCCAGCTGCCT	0.348													A|||	171	0.0341454	0.0643	0.0375	5008	,	,		14821	0.0		0.0517	False		,,,				2504	0.0082															0								A	HIS/ARG	282,4124	791.0+/-415.1	8,266,1929	44	45	44		1370	4.2	0.1	6	dbSNP_131	44	410,8188	797.4+/-407.4	8,394,3897	yes	missense	MANEA	NM_024641.3	29	16,660,5826	AA,AG,GG		4.7686,6.4004,5.3214	benign	457/463	96054262	692,12312	2203	4299	6502	SO:0001583	missense	79694			AK022900	CCDS5032.1	6q16.2	2008-02-05			ENSG00000172469	ENSG00000172469			21072	protein-coding gene	gene with protein product		612327					Standard	NM_024641		Approved	FLJ12838, mandaselin	uc003poo.2	Q5SRI9	OTTHUMG00000016296	ENST00000358812.4:c.1370G>A	6.37:g.96054262G>A	ENSP00000351669:p.Arg457His	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8M6|Q5SRJ0|Q6MZV0|Q70JE9|Q7Z3V7|Q8WWX5|Q9H9D2	Missense_Mutation	SNP	ENST00000358812.4	37	CCDS5032.1	81	0.03708791208791209	31	0.06300813008130081	16	0.04419889502762431	0	0.0	34	0.044854881266490766	A	0.124	-1.122266	0.01785	0.064004	0.047686	ENSG00000172469	ENST00000358812	.	.	.	5.36	4.19	0.49359	.	0.587085	0.16595	N	0.207606	T	0.05868	0.0153	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.35748	-0.9776	9	0.30854	T	0.27	-1.1404	5.6151	0.17426	0.7418:0.1717:0.0866:0.0	.	457	Q5SRI9	MANEA_HUMAN	H	457	.	ENSP00000351669:R457H	R	+	2	0	MANEA	96160983	0.001000	0.12720	0.092000	0.20876	0.063000	0.16089	1.056000	0.30480	0.475000	0.27415	-0.254000	0.11334	CGC		0.348	MANEA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043644.1	NM_024641		A	96054262	G	A	96054262	3	1	674	1	0	0	0	0	1	0	0	0	9228	1087	38	1	1384	1	MANEA	6	96054262	Missense_Mutation	SNP	G	TCGA-KO-8403-01A-11D-2310-10	57020713	96054262	75060805	20	43405										
SERINC1	57515	broad.mit.edu	37	chr6	122768108	122768108	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	atgtagattcatcacttgttAgagtcagtttattaacctga	7	6	3	3			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr6:122768108A>G	ENST00000339697.4	-	9	1121	c.1037T>C	c.(1036-1038)cTa>cCa	p.L346P		NM_020755.2	NP_065806.1	Q9NRX5	SERC1_HUMAN	serine incorporator 1	346					L-serine transport (GO:0015825)|phosphatidylserine metabolic process (GO:0006658)|phospholipid biosynthetic process (GO:0008654)|positive regulation of transferase activity (GO:0051347)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	L-serine transmembrane transporter activity (GO:0015194)			endometrium(2)|kidney(2)|large_intestine(4)|liver(1)|lung(2)|ovary(1)|skin(1)	13				GBM - Glioblastoma multiforme(226;0.126)		ATCACTTGTTAGAGTCAGTTT	0.368																																																0													104	97	99					6																	122768108		2203	4300	6503	SO:0001583	missense	57515			AF087902	CCDS5125.1	6q22.32	2006-02-09	2005-10-14	2005-10-14	ENSG00000111897	ENSG00000111897			13464	protein-coding gene	gene with protein product		614548	"tumor differentially expressed 2"	TDE2		10637174	Standard	NM_020755		Approved	TMS-2, TDE1L, KIAA1253	uc003pyy.1	Q9NRX5	OTTHUMG00000015487	ENST00000339697.4:c.1037T>C	6.37:g.122768108A>G	ENSP00000342962:p.Leu346Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B3KY69|E1P565|O75655|Q7Z2F5|Q8TAG1|Q9NTH8|Q9ULG7	Missense_Mutation	SNP	ENST00000339697.4	37	CCDS5125.1	.	.	.	.	.	.	.	.	.	.	A	16.45	3.126057	0.56721	.	.	ENSG00000111897	ENST00000339697;ENST00000368454	T;T	0.19250	2.16;2.16	5.4	5.4	0.78164	.	0.000000	0.85682	D	0.000000	T	0.35941	0.0949	M	0.81802	2.56	0.80722	D	1	D	0.60575	0.988	D	0.68943	0.961	T	0.17077	-1.0381	10	0.24483	T	0.36	-9.7399	15.4194	0.75000	1.0:0.0:0.0:0.0	.	346	Q9NRX5	SERC1_HUMAN	P	346	ENSP00000342962:L346P;ENSP00000357439:L346P	ENSP00000342962:L346P	L	-	2	0	SERINC1	122809807	1.000000	0.71417	0.962000	0.40283	0.891000	0.51852	7.436000	0.80404	2.048000	0.60808	0.528000	0.53228	CTA		0.368	SERINC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042031.2	NM_020755		G	122768108	A	G	122768108	3	3	674	1	0	0	0	0	1	0	0	0	14092	420	15	3	332	3	SERINC1	6	122768108	Missense_Mutation	SNP	A	TCGA-KO-8403-01A-11D-2310-10	26713846	122768108	48346959	21	43406										
WIPF3	644150	broad.mit.edu	37	chr7	29924145	29924146	+	Frame_Shift_Ins	INS	-	-	C													0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	aggccggtgcgcaggccttgINScccgccccgcctgcccctcc					rs572323909		TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr7:29924145_29924146insC	ENST00000409290.1	+	4	1035_1036	c.1035_1036insC	c.(1036-1038)cccfs	p.P346fs	WIPF3_ENST00000242140.5_Frame_Shift_Ins_p.P346fs|WIPF3_ENST00000409123.1_Frame_Shift_Ins_p.P346fs	NM_001080529.2	NP_001073998.2	A6NGB9	WIPF3_HUMAN	WAS/WASL interacting protein family, member 3	346					cell differentiation (GO:0030154)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	cytosol (GO:0005829)				breast(2)|large_intestine(3)|lung(6)|ovary(1)	12						CGCAGGCCTTGCCCGCCCCGCC	0.673																																																0																																										SO:0001589	frameshift_variant	644150			AK094250	CCDS56472.1	7p15.1	2006-10-12			ENSG00000122574	ENSG00000122574			22004	protein-coding gene	gene with protein product		612432					Standard	NM_001080529		Approved	CR16, FLJ36931	uc022aaz.1	A6NGB9	OTTHUMG00000152761	ENST00000409290.1:c.1038dupC	7.37:g.29924148_29924148dupC	ENSP00000386878:p.Pro346fs	Somatic		WXS	Illumina HiSeq	Phase_I	B8ZZV2	Frame_Shift_Ins	INS	ENST00000409290.1	37	CCDS56472.1																																																																																				0.673	WIPF3-002	NOVEL	basic|appris_candidate_longest|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000327705.1			C	29924146	-	C	29924145	7	5	674	1	0	1	1	0	0	0	0	0	17381	1310	46	0	1049	0	WIPF3	7	29924145	Frame_Shift_Ins	INS	-	TCGA-KO-8403-01A-11D-2310-10		29924145	129214518	22	43407										
SLC39A4	55630	mdanderson.org	37	chr8	145641564	145641564	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ggcttccccgagggcctgttTccctttcaagtccaacaacg	9	15	1	0	rs2280839	byFrequency	TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr8:145641564T>G	ENST00000276833.5	-	1	332	c.29A>C	c.(28-30)gAa>gCa	p.E10A	SLC39A4_ENST00000301305.3_Intron|SLC39A4_ENST00000531013.1_5'Flank	NM_001280557.1|NM_017767.2	NP_001267486.1|NP_060237	Q6P5W5	S39A4_HUMAN	solute carrier family 39 (zinc transporter), member 4	0					cellular response to zinc ion starvation (GO:0034224)|cellular zinc ion homeostasis (GO:0006882)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|cytoplasmic membrane-bounded vesicle (GO:0016023)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	zinc ion transmembrane transporter activity (GO:0005385)			endometrium(1)|kidney(1)|large_intestine(1)|lung(5)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	14	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;1.12e-40)|all cancers(56;8.17e-36)|BRCA - Breast invasive adenocarcinoma(115;0.0407)|Colorectal(110;0.055)			AGGGCCTGTTTCCCTTTCAAG	0.662													T|||	2174	0.434105	0.4561	0.4135	5008	,	,		15139	0.38		0.5268	False		,,,				2504	0.3793															0								T	ALA/GLU,	1914,2120		462,990,565	27	34	32		29,	-3.1	0	8	dbSNP_100	32	4429,3911		1205,2019,946	yes	missense,intron	SLC39A4	NM_017767.2,NM_130849.2	107,	1667,3009,1511	GG,GT,TT		46.8945,47.4467,48.7393	,	10/623,	145641564	6343,6031	2017	4170	6187	SO:0001583	missense	55630			AK025537	CCDS6424.1, CCDS43782.1	8q24.3	2013-05-22			ENSG00000147804	ENSG00000147804		"Solute carriers"	17129	protein-coding gene	gene with protein product		607059	"acrodermatitis enteropathica, zinc-deficiency type"	AEZ		12801924, 12659941, 14709598	Standard	NM_017767		Approved	ZIP4, AWMS2	uc003zcq.3	Q6P5W5		ENST00000276833.5:c.29A>C	8.37:g.145641564T>G	ENSP00000276833:p.Glu10Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q7L5S5|Q9H6T8|Q9NXC4	Missense_Mutation	SNP	ENST00000276833.5	37	CCDS43782.1	1061	0.4858058608058608	242	0.491869918699187	166	0.4585635359116022	238	0.4160839160839161	415	0.5474934036939314	T	13.03	2.114534	0.37339	0.474467	0.531055	ENSG00000147804	ENST00000276833	T	0.61627	0.09	3.0	-3.1	0.05315	.	.	.	.	.	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	B	0.02656	0.0	B	0.04013	0.001	T	0.45396	-0.9264	8	0.87932	D	0	.	5.3	0.15773	0.0:0.5884:0.1949:0.2167	rs2280839;rs61327800;rs2280839	10	A6NDY5	.	A	10	ENSP00000276833:E10A	ENSP00000276833:E10A	E	-	2	0	SLC39A4	145612372	0.000000	0.05858	0.000000	0.03702	0.051000	0.14879	-0.695000	0.05109	-0.557000	0.06126	0.254000	0.18369	GAA		0.662	SLC39A4-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000382687.2			G	145641564	T	G	145641564	3	3	674	1	0	0	0	0	1	0	0	0	14633	1783	62	5	1883	5	SLC39A4	8	145641564	Missense_Mutation	SNP	T	TCGA-KO-8403-01A-11D-2310-10		145641564	722458	23	43408										
ISCA1	81689	hgsc.bcm.edu;ucsc.edu	37	chr9	88897335	88897335	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ggctgcagcttcctcttgctCacagcccggacagttgcccg	11	16	2	0			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr9:88897335C>A	ENST00000375991.4	-	1	109	c.39G>T	c.(37-39)gtG>gtT	p.V13V	ISCA1_ENST00000311534.6_5'Flank|ISCA1_ENST00000326094.4_Silent_p.V13V|ISCA1_ENST00000452279.2_Silent_p.V60V	NM_030940.3	NP_112202.2	Q9BUE6	ISCA1_HUMAN	iron-sulfur cluster assembly 1	13					iron-sulfur cluster assembly (GO:0016226)	mitochondrion (GO:0005739)	iron-sulfur cluster binding (GO:0051536)|metal ion binding (GO:0046872)|structural molecule activity (GO:0005198)			endometrium(2)|large_intestine(1)|lung(4)|pancreas(1)	8				OV - Ovarian serous cystadenocarcinoma(323;5.4e-34)|Lung(182;0.0375)		TCCTCTTGCTCACAGCCCGGA	0.706																																																0													7	7	7					9																	88897335		2128	4176	6304	SO:0001819	synonymous_variant	81689			AF038186	CCDS35056.1	9q22.1	2013-08-06	2013-08-06	2007-01-18	ENSG00000135070	ENSG00000135070			28660	protein-coding gene	gene with protein product		611006	"HESB like domain containing 2", "iron-sulfur cluster assembly 1 homolog (S. cerevisiae)"	HBLD2		15262227, 22323289	Standard	NM_030940		Approved	MGC4276, ISA1, hIscA	uc004aop.3	Q9BUE6	OTTHUMG00000020135	ENST00000375991.4:c.39G>T	9.37:g.88897335C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KP34|B4DJI5|Q8ND75|Q9BZR2	Silent	SNP	ENST00000375991.4	37	CCDS35056.1																																																																																				0.706	ISCA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052914.1	NM_030940		A	88897335	C	A	88897335	2	1	674	1	0	0	0	0	0	0	0	1	7856	813	29	4		4	ISCA1	9	88897335	Silent	SNP	C	TCGA-KO-8403-01A-11D-2310-10		88897335	52316096	24	43409										
SIRT3	23410	broad.mit.edu;hgsc.bcm.edu	37	chr11	216703	216706	+	Frame_Shift_Del	DEL	TGTC	TGTC	-													0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ggggcagccatcatcctattTgtctggtccatcaagctgga							TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	TGTC	TGTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr11:216703_216706delTGTC	ENST00000382743.4	-	7	1294_1297	c.1192_1195delGACA	c.(1192-1197)gacaaafs	p.DK398fs	SIRT3_ENST00000524564.1_Frame_Shift_Del_p.DK352fs|SIRT3_ENST00000525319.1_Frame_Shift_Del_p.DK317fs|SIRT3_ENST00000529382.1_Frame_Shift_Del_p.DK256fs|SIRT3_ENST00000532956.1_Frame_Shift_Del_p.DK344fs	NM_001017524.2|NM_012239.5	NP_001017524.1|NP_036371.1	Q9NTG7	SIR3_HUMAN	sirtuin 3	398					aerobic respiration (GO:0009060)|peptidyl-lysine deacetylation (GO:0034983)|protein ADP-ribosylation (GO:0006471)|protein deacetylation (GO:0006476)	membrane (GO:0016020)|mitochondrion (GO:0005739)	NAD+ ADP-ribosyltransferase activity (GO:0003950)|NAD+ binding (GO:0070403)|NAD-dependent histone deacetylase activity (H3-K14 specific) (GO:0032041)|zinc ion binding (GO:0008270)			endometrium(1)|lung(5)|urinary_tract(1)	7		all_cancers(49;1.58e-09)|all_epithelial(84;2.71e-06)|Breast(177;0.000162)|Ovarian(85;0.000626)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;3.66e-27)|Epithelial(43;2.02e-26)|OV - Ovarian serous cystadenocarcinoma(40;2.9e-21)|BRCA - Breast invasive adenocarcinoma(625;3.88e-05)|Lung(200;0.111)|LUSC - Lung squamous cell carcinoma(625;0.129)		TCATCCTATTTGTCTGGTCCATCA	0.49																																																0																																										SO:0001589	frameshift_variant	23410			AF083108	CCDS7691.1, CCDS53590.1	11p15.5	2010-06-25	2010-06-25		ENSG00000142082	ENSG00000142082			14931	protein-coding gene	gene with protein product		604481	"sirtuin (silent mating type information regulation 2, S.cerevisiae, homolog) 3", "sirtuin (silent mating type information regulation 2 homolog) 3 (S. cerevisiae)"			10381378, 18215119	Standard	NM_012239		Approved	SIR2L3	uc001lok.4	Q9NTG7	OTTHUMG00000119074	ENST00000382743.4:c.1192_1195delGACA	11.37:g.216703_216706delTGTC	ENSP00000372191:p.Asp398fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z5U6|Q9Y6E8	Frame_Shift_Del	DEL	ENST00000382743.4	37	CCDS7691.1																																																																																				0.49	SIRT3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239288.3			-	216706	TGTC	-	216703	7	5	674	1	0	1	0	1	0	0	0	0	14352	1821	63	0	8	0	SIRT3	11	216703	Frame_Shift_Del	DEL	TGTC	TCGA-KO-8403-01A-11D-2310-10		216703	134789813	25	43410	432	2								
SIRT3	23410	bcgsc.ca	37	chr11	216704	216707	+	Frame_Shift_Del	DEL	TGTC	TGTC	-													0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	gggcagccatcatcctatttGtctggtccatcaagctggaa							TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	TGTC	TGTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr11:216704_216707delTGTC	ENST00000382743.4	-	7	1293_1296	c.1191_1194delGACA	c.(1189-1194)ccgacafs	p.PT397fs	SIRT3_ENST00000524564.1_Frame_Shift_Del_p.PT351fs|SIRT3_ENST00000525319.1_Frame_Shift_Del_p.PT316fs|SIRT3_ENST00000529382.1_Frame_Shift_Del_p.PT255fs|SIRT3_ENST00000532956.1_Frame_Shift_Del_p.PT343fs	NM_001017524.2|NM_012239.5	NP_001017524.1|NP_036371.1	Q9NTG7	SIR3_HUMAN	sirtuin 3	397					aerobic respiration (GO:0009060)|peptidyl-lysine deacetylation (GO:0034983)|protein ADP-ribosylation (GO:0006471)|protein deacetylation (GO:0006476)	membrane (GO:0016020)|mitochondrion (GO:0005739)	NAD+ ADP-ribosyltransferase activity (GO:0003950)|NAD+ binding (GO:0070403)|NAD-dependent histone deacetylase activity (H3-K14 specific) (GO:0032041)|zinc ion binding (GO:0008270)			endometrium(1)|lung(5)|urinary_tract(1)	7		all_cancers(49;1.58e-09)|all_epithelial(84;2.71e-06)|Breast(177;0.000162)|Ovarian(85;0.000626)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.0538)|all_lung(207;0.0713)		all cancers(45;3.66e-27)|Epithelial(43;2.02e-26)|OV - Ovarian serous cystadenocarcinoma(40;2.9e-21)|BRCA - Breast invasive adenocarcinoma(625;3.88e-05)|Lung(200;0.111)|LUSC - Lung squamous cell carcinoma(625;0.129)		CATCCTATTTGTCTGGTCCATCAA	0.49																																																0																																										SO:0001589	frameshift_variant	23410			AF083108	CCDS7691.1, CCDS53590.1	11p15.5	2010-06-25	2010-06-25		ENSG00000142082	ENSG00000142082			14931	protein-coding gene	gene with protein product		604481	"sirtuin (silent mating type information regulation 2, S.cerevisiae, homolog) 3", "sirtuin (silent mating type information regulation 2 homolog) 3 (S. cerevisiae)"			10381378, 18215119	Standard	NM_012239		Approved	SIR2L3	uc001lok.4	Q9NTG7	OTTHUMG00000119074	ENST00000382743.4:c.1191_1194delGACA	11.37:g.216704_216707delTGTC	ENSP00000372191:p.Pro397fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z5U6|Q9Y6E8	Frame_Shift_Del	DEL	ENST00000382743.4	37	CCDS7691.1																																																																																				0.49	SIRT3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239288.3			-	216707	TGTC	-	216704	7	5	674	1	0	1	0	1	0	0	0	0	14352	1368	48	0	9	0	SIRT3	11	216704	Frame_Shift_Del	DEL	TGTC	TCGA-KO-8403-01A-11D-2310-10	1	216704	134789812	26	43411	432	2								
MUC6	4588	mdanderson.org	37	chr11	1018459	1018459	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	caaggaggtggagaaaggtgGaacgtgagtgggaagtgtgg	21	2	0	2	rs199760270		TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr11:1018459G>T	ENST00000421673.2	-	31	4392	c.4342C>A	c.(4342-4344)Cca>Aca	p.P1448T		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1448	Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GAGAAAGGTGGAACGTGAGTG	0.562																																																0													301	305	304					11																	1018459		2193	4286	6479	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4342C>A	11.37:g.1018459G>T	ENSP00000406861:p.Pro1448Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	6.967	0.548385	0.13312	.	.	ENSG00000184956	ENST00000421673	T	0.28069	1.63	2.52	0.443	0.16587	.	.	.	.	.	T	0.26376	0.0644	M	0.64404	1.975	0.09310	N	1	P	0.37330	0.59	B	0.34138	0.176	T	0.15037	-1.0451	9	0.56958	D	0.05	.	5.5406	0.17036	0.132:0.2038:0.6642:0.0	.	1448	Q6W4X9	MUC6_HUMAN	T	1448	ENSP00000406861:P1448T	ENSP00000406861:P1448T	P	-	1	0	MUC6	1008459	0.009000	0.17119	0.001000	0.08648	0.009000	0.06853	0.061000	0.14366	-0.023000	0.13963	0.306000	0.20318	CCA		0.562	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		T	1018459	G	T	1018459	3	4	674	1	0	0	0	0	1	0	0	0	9987	1174	41	4	2989	4	MUC6	11	1018459	Missense_Mutation	SNP	G	TCGA-KO-8403-01A-11D-2310-10	801755	1018459	133988057	27	43412			1	117		2	2	15	N	G_A	2.62298e-05
MUC6	4588	mdanderson.org	37	chr11	1018473	1018473	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	aaggtggaacgtgagtgggaAgtgtggtctcagggtgtgat	19	3	1	2	rs112923701		TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr11:1018473A>T	ENST00000421673.2	-	31	4378	c.4328T>A	c.(4327-4329)cTt>cAt	p.L1443H		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1443	Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GTGAGTGGGAAGTGTGGTCTC	0.572																																																0													284	287	286					11																	1018473		2187	4280	6467	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4328T>A	11.37:g.1018473A>T	ENSP00000406861:p.Leu1443His	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	A	2.872	-0.233789	0.05983	.	.	ENSG00000184956	ENST00000421673	T	0.25414	1.8	1.86	-0.708	0.11241	.	.	.	.	.	T	0.30603	0.0770	L	0.61218	1.895	0.09310	N	1	D	0.63880	0.993	P	0.52881	0.712	T	0.15752	-1.0426	9	0.56958	D	0.05	.	2.8343	0.05509	0.4089:0.2608:0.3303:0.0	.	1443	Q6W4X9	MUC6_HUMAN	H	1443	ENSP00000406861:L1443H	ENSP00000406861:L1443H	L	-	2	0	MUC6	1008473	0.000000	0.05858	0.000000	0.03702	0.025000	0.11179	-1.485000	0.02314	-0.173000	0.10761	0.254000	0.18369	CTT		0.572	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		T	1018473	A	T	1018473	3	4	674	1	0	0	0	0	1	0	0	0	9987	72	3	5	3003	5	MUC6	11	1018473	Missense_Mutation	SNP	A	TCGA-KO-8403-01A-11D-2310-10	14	1018473	133988043	28	43413			1	117		2	2	15	N	G_A	2.62298e-05
MUC2	4583	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	1075670	1075670	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	gagggcagaacccgaaaccaCggccacaacgtctgcagcac	11	15	1	1			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr11:1075670C>T	ENST00000441003.2	+	2	123	c.96C>T	c.(94-96)caC>caT	p.H32H	MUC2_ENST00000359061.5_Silent_p.H32H	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	32					cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	CCCGAAACCACGGCCACAACG	0.652																																																0													30	35	33					11																	1075670		2136	4231	6367	SO:0001819	synonymous_variant	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.96C>T	11.37:g.1075670C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Silent	SNP	ENST00000441003.2	37																																																																																					0.652	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		T	1075670	C	T	1075670	2	4	674	1	0	0	0	0	0	0	0	1	9982	535	19	1		1	MUC2	11	1075670	Silent	SNP	C	TCGA-KO-8403-01A-11D-2310-10	57197	1075670	133930846	29	43414										
ZDHHC13	54503	broad.mit.edu	37	chr11	19170858	19170858	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	aacacatgcctattatagcaTatctcatctcaaagggacag	6	10	2	0			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr11:19170858T>C	ENST00000446113.2	+	5	620	c.499T>C	c.(499-501)Tat>Cat	p.Y167H	ZDHHC13_ENST00000399351.3_Missense_Mutation_p.Y37H|ZDHHC13_ENST00000532812.1_3'UTR	NM_019028.2	NP_061901.2	Q8IUH4	ZDH13_HUMAN	zinc finger, DHHC-type containing 13	167					metabolic process (GO:0008152)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|signal transduction (GO:0007165)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi-associated vesicle membrane (GO:0030660)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)	magnesium ion transmembrane transporter activity (GO:0015095)|palmitoyltransferase activity (GO:0016409)|protein-cysteine S-palmitoyltransferase activity (GO:0019706)|signal transducer activity (GO:0004871)|zinc ion binding (GO:0008270)			NS(1)|kidney(1)|lung(2)|skin(1)|upper_aerodigestive_tract(1)	6						TATTATAGCATATCTCATCTC	0.408																																																0													77	67	70					11																	19170858		1880	4111	5991	SO:0001583	missense	54503			AB024495	CCDS44550.1, CCDS44551.1	11p15.1	2013-01-10			ENSG00000177054	ENSG00000177054		"Zinc fingers, DHHC-type", "Ankyrin repeat domain containing"	18413	protein-coding gene	gene with protein product		612815				18794299	Standard	NM_001001483		Approved	FLJ10852, FLJ10941, HIP14L	uc001mpi.3	Q8IUH4	OTTHUMG00000166099	ENST00000446113.2:c.499T>C	11.37:g.19170858T>C	ENSP00000400113:p.Tyr167His	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z2D3|Q86VK2|Q9NV30|Q9NV99	Missense_Mutation	SNP	ENST00000446113.2	37	CCDS44550.1	.	.	.	.	.	.	.	.	.	.	T	24.9	4.582144	0.86748	.	.	ENSG00000177054	ENST00000446113;ENST00000399351	T;T	0.66460	-0.21;-0.18	5.79	5.79	0.91817	Ankyrin repeat-containing domain (3);	0.000000	0.85682	D	0.000000	T	0.79673	0.4486	M	0.64260	1.97	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.79356	-0.1837	9	.	.	.	-11.0759	15.7882	0.78326	0.0:0.0:0.0:1.0	.	167	Q8IUH4	ZDH13_HUMAN	H	167;37	ENSP00000400113:Y167H;ENSP00000382288:Y37H	.	Y	+	1	0	ZDHHC13	19127434	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	7.698000	0.84413	2.205000	0.71048	0.455000	0.32223	TAT		0.408	ZDHHC13-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387821.1	NM_019028		C	19170858	T	C	19170858	3	2	674	1	0	0	0	0	1	0	0	0	17615	1406	49	3	517	3	ZDHHC13	11	19170858	Missense_Mutation	SNP	T	TCGA-KO-8403-01A-11D-2310-10	18095188	19170858	115835658	30	43415										
DSCAML1	57453	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	117307845	117307845	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ccttgcgactcactgccatcGtagtccagggtggcgaactg	12	13	1	0			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr11:117307845G>A	ENST00000321322.6	-	26	4894	c.4893C>T	c.(4891-4893)taC>taT	p.Y1631Y	DSCAML1_ENST00000527706.1_Silent_p.Y1361Y	NM_020693.2	NP_065744.2	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1571					axonogenesis (GO:0007409)|brain development (GO:0007420)|cell fate determination (GO:0001709)|central nervous system development (GO:0007417)|dendrite self-avoidance (GO:0070593)|dorsal/ventral pattern formation (GO:0009953)|embryonic skeletal system morphogenesis (GO:0048704)|homophilic cell adhesion (GO:0007156)|negative regulation of cell adhesion (GO:0007162)	cell surface (GO:0009986)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	protein homodimerization activity (GO:0042803)			breast(3)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|large_intestine(24)|lung(49)|ovary(6)|pancreas(1)|prostate(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	110	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)		CACTGCCATCGTAGTCCAGGG	0.592																																																0													69	64	66					11																	117307845		2201	4296	6497	SO:0001819	synonymous_variant	57453				CCDS8384.1	11q22.2-q22.3	2013-02-11			ENSG00000177103	ENSG00000177103		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	14656	protein-coding gene	gene with protein product		611782				11453658	Standard	NM_020693		Approved	KIAA1132	uc001prh.1	Q8TD84	OTTHUMG00000167071	ENST00000321322.6:c.4893C>T	11.37:g.117307845G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q76MU9|Q8IZY3|Q8IZY4|Q8WXU7|Q9ULT7	Silent	SNP	ENST00000321322.6	37	CCDS8384.1																																																																																				0.592	DSCAML1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392907.2	NM_020693		A	117307845	G	A	117307845	2	1	674	1	0	0	0	0	0	0	0	1	4771	1140	40	1		1	DSCAML1	11	117307845	Silent	SNP	G	TCGA-KO-8403-01A-11D-2310-10	98136987	117307845	17698671	31	43416										
CHD4	1108	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	6702730	6702730	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	tttcaaactcccgctcccagTtgatgatggtagaaagaggg	11	9	1	4			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr12:6702730T>C	ENST00000357008.2	-	16	2529	c.2366A>G	c.(2365-2367)aAc>aGc	p.N789S	CHD4_ENST00000544040.1_Missense_Mutation_p.N782S|CHD4_ENST00000544484.1_Missense_Mutation_p.N786S|CHD4_ENST00000309577.6_Missense_Mutation_p.N789S	NM_001273.2	NP_001264.2	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	789	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				ATP-dependent chromatin remodeling (GO:0043044)|DNA duplex unwinding (GO:0032508)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|spindle assembly (GO:0051225)|transcription, DNA-templated (GO:0006351)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|NuRD complex (GO:0016581)|protein complex (GO:0043234)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA binding (GO:0003677)|RNA polymerase II repressing transcription factor binding (GO:0001103)|zinc ion binding (GO:0008270)			central_nervous_system(2)	2						CCGCTCCCAGTTGATGATGGT	0.532																																					Colon(32;586 792 4568 16848 45314)											0													98	95	96					12																	6702730		2203	4300	6503	SO:0001583	missense	1108			X86691	CCDS8552.1	12p13	2013-01-28				ENSG00000111642		"Zinc fingers, PHD-type"	1919	protein-coding gene	gene with protein product		603277				7575689, 8843877	Standard	XM_006718958		Approved	Mi-2b, Mi2-BETA	uc001qpo.3	Q14839		ENST00000357008.2:c.2366A>G	12.37:g.6702730T>C	ENSP00000349508:p.Asn789Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IXZ5	Missense_Mutation	SNP	ENST00000357008.2	37	CCDS8552.1	.	.	.	.	.	.	.	.	.	.	T	23.1	4.374532	0.82573	.	.	ENSG00000111642	ENST00000544484;ENST00000544040;ENST00000309577;ENST00000357008;ENST00000537464	D;D;D;D	0.93953	-3.32;-3.32;-3.32;-3.32	4.8	4.8	0.61643	DEAD-like helicase (2);SNF2-related (1);	0.000000	0.85682	D	0.000000	D	0.97173	0.9076	M	0.91196	3.185	0.80722	D	1	D;D;D	0.76494	0.999;0.974;0.996	D;P;D	0.77557	0.99;0.897;0.98	D	0.98107	1.0418	10	0.87932	D	0	-0.1448	14.5214	0.67853	0.0:0.0:0.0:1.0	.	789;789;782	Q14839-2;Q14839;F5GWX5	.;CHD4_HUMAN;.	S	786;782;789;789;763	ENSP00000440392:N786S;ENSP00000440542:N782S;ENSP00000312419:N789S;ENSP00000349508:N789S	ENSP00000312419:N789S	N	-	2	0	CHD4	6572991	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.841000	0.86834	2.017000	0.59298	0.482000	0.46254	AAC		0.532	CHD4-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001273		C	6702730	T	C	6702730	3	2	674	1	0	0	0	0	1	0	0	0	3329	1725	60	3	3472	3	CHD4	12	6702730	Missense_Mutation	SNP	T	TCGA-KO-8403-01A-11D-2310-10		6702730	127149165	32	43417										
DPPA3	359787	broad.mit.edu	37	chr12	7868798	7868798	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	tttttttcccatgaagcatgAaagaagaccaacaaacaagg	7	8	0	4			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr12:7868798A>G	ENST00000345088.2	+	3	449	c.332A>G	c.(331-333)gAa>gGa	p.E111G		NM_199286.2	NP_954980.1	Q6W0C5	DPPA3_HUMAN	developmental pluripotency associated 3	111					chromatin modification (GO:0016568)|embryonic cleavage (GO:0040016)|negative regulation of DNA demethylation (GO:1901536)|protection of DNA demethylation of female pronucleus (GO:0044726)|regulation of genetic imprinting (GO:2000653)	cytoplasm (GO:0005737)|female pronucleus (GO:0001939)|nucleus (GO:0005634)	methylated histone binding (GO:0035064)			endometrium(1)|kidney(1)|large_intestine(1)|lung(3)|skin(2)	8				Kidney(36;0.0887)		ATGAAGCATGAAAGAAGACCA	0.294																																																0													47	53	51					12																	7868798		2203	4300	6503	SO:0001583	missense	359787			AY317075	CCDS8582.1	12p13.31	2012-10-02			ENSG00000187569	ENSG00000187569			19199	protein-coding gene	gene with protein product		608408					Standard	NM_199286		Approved	Stella	uc001qtf.3	Q6W0C5	OTTHUMG00000168434	ENST00000345088.2:c.332A>G	12.37:g.7868798A>G	ENSP00000339250:p.Glu111Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q0P5U3|Q6JZS6	Missense_Mutation	SNP	ENST00000345088.2	37	CCDS8582.1	.	.	.	.	.	.	.	.	.	.	A	5.779	0.327999	0.10956	.	.	ENSG00000187569	ENST00000345088	T	0.47177	0.85	2.12	-0.41	0.12374	.	.	.	.	.	T	0.22551	0.0544	N	0.08118	0	0.09310	N	1	B	0.30889	0.299	B	0.30029	0.11	T	0.18241	-1.0343	9	0.72032	D	0.01	-3.4822	2.5685	0.04789	0.5393:0.2872:0.1735:0.0	.	111	Q6W0C5	DPPA3_HUMAN	G	111	ENSP00000339250:E111G	ENSP00000339250:E111G	E	+	2	0	DPPA3	7760065	0.001000	0.12720	0.001000	0.08648	0.002000	0.02628	0.090000	0.15025	-0.092000	0.12417	-0.782000	0.03352	GAA		0.294	DPPA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399718.1	NM_199286		G	7868798	A	G	7868798	3	3	674	1	0	0	0	0	1	0	0	0	4737	246	9	3	342	3	DPPA3	12	7868798	Missense_Mutation	SNP	A	TCGA-KO-8403-01A-11D-2310-10	1166068	7868798	125983097	33	43418										
HNF1A	6927	broad.mit.edu	37	chr12	121426736	121426736	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ccactggcctcaaccagtccCacctgtcccaacacctcaac	4	21	2	0			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr12:121426736C>T	ENST00000257555.6	+	2	653	c.427C>T	c.(427-429)Cac>Tac	p.H143Y	HNF1A_ENST00000402929.1_Missense_Mutation_p.H143Y|HNF1A_ENST00000538626.1_Intron|HNF1A_ENST00000543427.1_Missense_Mutation_p.H26Y|HNF1A_ENST00000541395.1_Missense_Mutation_p.H143Y|HNF1A_ENST00000544413.1_Missense_Mutation_p.H143Y|HNF1A_ENST00000400024.2_Missense_Mutation_p.H143Y			P20823	HNF1A_HUMAN	HNF1 homeobox A	143	Interaction with DNA.		H -> Y (in MODY3; expected to interfere with DNA binding). {ECO:0000269|PubMed:10102714, ECO:0000269|PubMed:9075819}.		glucose homeostasis (GO:0042593)|glucose import (GO:0046323)|insulin secretion (GO:0030073)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription initiation from RNA polymerase II promoter (GO:0060261)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|renal glucose absorption (GO:0035623)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|protein complex (GO:0043234)	DNA binding (GO:0003677)|protein dimerization activity (GO:0046983)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(3)|central_nervous_system(2)|cervix(1)|endometrium(8)|large_intestine(19)|liver(175)|lung(9)|ovary(2)|prostate(1)|urinary_tract(1)	221	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CAACCAGTCCCACCTGTCCCA	0.632									Hepatic Adenoma, Familial Clustering of																																							0			GRCh37	CD083323|CM971449	HNF1A	D|M							167	124	139					12																	121426736		2203	4300	6503	SO:0001583	missense	6927	Familial Cancer Database	incl. Maturity-Onset Diabetes of the Young type 3, MODY3	M57732	CCDS9209.1	12q24.31	2014-09-17	2007-08-24	2007-08-24	ENSG00000135100	ENSG00000135100		"Homeoboxes / HNF class"	11621	protein-coding gene	gene with protein product		142410	"transcription factor 1, hepatic; LF-B1, hepatic nuclear factor (HNF1), albumin proximal factor"	MODY3, TCF1		1535333, 7795649	Standard	NM_000545		Approved	HNF1, LFB1	uc001tzg.3	P20823	OTTHUMG00000151015	ENST00000257555.6:c.427C>T	12.37:g.121426736C>T	ENSP00000257555:p.His143Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A5Z2R8|E0YMJ5|E0YMK0|E0YMK1|E2I9R4|E2I9R5|F5H5U3|Q2M3H2|Q99861	Missense_Mutation	SNP	ENST00000257555.6	37	CCDS9209.1	.	.	.	.	.	.	.	.	.	.	C	25.0	4.597685	0.87055	.	.	ENSG00000135100	ENST00000257555;ENST00000535125;ENST00000543536;ENST00000544680;ENST00000537424;ENST00000543027;ENST00000543427;ENST00000545458;ENST00000541395;ENST00000340577;ENST00000344370;ENST00000544413	D;D;D;D	0.99369	-5.78;-5.78;-5.78;-5.78	5.08	5.08	0.68730	Hepatocyte nuclear factor 1, N-terminal (1);Lambda repressor-like, DNA-binding (2);	0.000000	0.85682	D	0.000000	D	0.99137	0.9702	L	0.51422	1.61	0.80722	D	1	D;D;D;D	0.89917	1.0;0.997;1.0;1.0	D;D;D;D	0.97110	1.0;0.987;0.999;0.999	D	0.99892	1.1137	10	0.87932	D	0	-14.2594	17.4482	0.87584	0.0:1.0:0.0:0.0	.	143;143;143;143	F5H0K0;P20823;E7EUQ4;E7EMR0	.;HNF1A_HUMAN;.;.	Y	143;143;143;143;143;143;26;143;143;143;143;143	ENSP00000257555:H143Y;ENSP00000439721:H26Y;ENSP00000443112:H143Y;ENSP00000438804:H143Y	ENSP00000257555:H143Y	H	+	1	0	HNF1A	119911119	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.429000	0.80309	2.348000	0.79779	0.530000	0.56133	CAC		0.632	HNF1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320957.5	NM_000545		T	121426736	C	T	121426736	3	4	674	1	0	0	0	0	1	0	0	0	7258	594	21	2	433	2	HNF1A	12	121426736	Missense_Mutation	SNP	C	TCGA-KO-8403-01A-11D-2310-10	113557938	121426736	12425159	34	43419										
KNTC1	9735	broad.mit.edu	37	chr12	123075242	123075242	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	tgtgtttgaaaatctctggaAgctcatagataaagcatggc	10	6	2	2			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr12:123075242A>G	ENST00000333479.7	+	41	4265	c.4088A>G	c.(4087-4089)aAg>aGg	p.K1363R	KNTC1_ENST00000450485.2_Intron	NM_014708.4	NP_055523.1	P50748	KNTC1_HUMAN	kinetochore associated 1	1363					mitotic cell cycle (GO:0000278)|mitotic cell cycle checkpoint (GO:0007093)|mitotic nuclear division (GO:0007067)|protein complex assembly (GO:0006461)|regulation of exit from mitosis (GO:0007096)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinetochore (GO:0000776)|kinetochore microtubule (GO:0005828)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|spindle pole (GO:0000922)				breast(1)|central_nervous_system(1)|cervix(2)|endometrium(12)|kidney(8)|large_intestine(12)|lung(20)|ovary(7)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(4)	72	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		AATCTCTGGAAGCTCATAGAT	0.403																																																0													163	152	156					12																	123075242		1859	4090	5949	SO:0001583	missense	9735				CCDS45002.1	12q24.31	2013-01-17			ENSG00000184445	ENSG00000184445			17255	protein-coding gene	gene with protein product	"rough deal homolog (Drosophila)"	607363				11146660, 11590237	Standard	NM_014708		Approved	KIAA0166, ROD	uc001ucv.3	P50748	OTTHUMG00000168861	ENST00000333479.7:c.4088A>G	12.37:g.123075242A>G	ENSP00000328236:p.Lys1363Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2C4|B3KSG2	Missense_Mutation	SNP	ENST00000333479.7	37	CCDS45002.1	.	.	.	.	.	.	.	.	.	.	A	16.77	3.216136	0.58452	.	.	ENSG00000184445	ENST00000333479	T	0.13778	2.56	5.6	5.6	0.85130	.	0.437138	0.28577	N	0.014851	T	0.14227	0.0344	L	0.56769	1.78	0.80722	D	1	B	0.33583	0.418	B	0.29942	0.109	T	0.05131	-1.0904	10	0.26408	T	0.33	-12.7695	11.7177	0.51663	0.9289:0.0:0.0711:0.0	.	1363	P50748	KNTC1_HUMAN	R	1363	ENSP00000328236:K1363R	ENSP00000328236:K1363R	K	+	2	0	KNTC1	121641195	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.660000	0.68018	2.140000	0.66376	0.477000	0.44152	AAG		0.403	KNTC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396110.2			G	123075242	A	G	123075242	3	3	674	1	0	0	0	0	1	0	0	0	8435	72	3	3	4246	3	KNTC1	12	123075242	Missense_Mutation	SNP	A	TCGA-KO-8403-01A-11D-2310-10	1648506	123075242	10776653	35	43420										
POTEM	641455	broad.mit.edu	37	chr14	20019957	20019957	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ctgagtgtcttcatagcagaGtcgtcgtggtctccagaagt	12	9	3	3	rs28578761		TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr14:20019957G>A	ENST00000551509.1	-	1	315	c.264C>T	c.(262-264)gaC>gaT	p.D88D		NM_001145442.1	NP_001138914.1	A6NI47	POTEM_HUMAN	POTE ankyrin domain family, member M	88								p.D88D(2)		endometrium(4)|kidney(1)|lung(4)	9						TCATAGCAGAGTCGTCGTGGT	0.627																																																2	Substitution - coding silent(2)	kidney(2)											8	15	13					14																	20019957		319	1136	1455	SO:0001819	synonymous_variant	641455				CCDS73609.1	14q11.2	2013-01-10			ENSG00000187537	ENSG00000187537		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	37096	protein-coding gene	gene with protein product	"prostate-specific P704P"					16364570	Standard	NM_001145442		Approved	POTE14beta, P704P, ACT	uc001vwc.3	A6NI47		ENST00000551509.1:c.264C>T	14.37:g.20019957G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000551509.1	37	CCDS45076.1																																																																																				0.627	POTEM-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409490.3	NM_001145442		A	20019957	G	A	20019957	2	1	674	1	0	0	0	0	0	0	0	1	12275	1020	36	2		2	POTEM	14	20019957	Silent	SNP	G	TCGA-KO-8403-01A-11D-2310-10		20019957	87329583	36	43421										
SIX4	51804	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	61186805	61186805	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	agtagaccccagtatgtcagTcatggatataccattgctca	8	10	3	1			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr14:61186805T>A	ENST00000216513.4	-	2	1281	c.1222A>T	c.(1222-1224)Act>Tct	p.T408S		NM_017420.4	NP_059116.3	Q9UIU6	SIX4_HUMAN	SIX homeobox 4	408					anatomical structure morphogenesis (GO:0009653)|embryonic cranial skeleton morphogenesis (GO:0048701)|generation of neurons (GO:0048699)|inner ear morphogenesis (GO:0042472)|metanephric mesenchyme development (GO:0072075)|myoblast migration (GO:0051451)|negative regulation of neuron apoptotic process (GO:0043524)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of ureteric bud formation (GO:0072107)|regulation of branch elongation involved in ureteric bud branching (GO:0072095)|regulation of protein localization (GO:0032880)|regulation of synaptic growth at neuromuscular junction (GO:0008582)|skeletal muscle tissue development (GO:0007519)|thymus development (GO:0048538)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(5)|endometrium(1)|large_intestine(11)|liver(1)|lung(7)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	28				OV - Ovarian serous cystadenocarcinoma(108;0.0275)		AGTATGTCAGTCATGGATATA	0.463																																																0													133	108	116					14																	61186805		2203	4300	6503	SO:0001583	missense	51804			AB024687	CCDS9749.2	14q23.1	2012-10-02	2007-07-13		ENSG00000100625	ENSG00000100625		"Homeoboxes / SINE class"	10890	protein-coding gene	gene with protein product		606342	"sine oculis homeobox (Drosophila) homolog 4", "sine oculis homeobox homolog 4 (Drosophila)"			10512683, 10640827	Standard	NM_017420		Approved	AREC3	uc001xfc.3	Q9UIU6	OTTHUMG00000028996	ENST00000216513.4:c.1222A>T	14.37:g.61186805T>A	ENSP00000216513:p.Thr408Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q4QQH5|Q4V764	Missense_Mutation	SNP	ENST00000216513.4	37	CCDS9749.2	.	.	.	.	.	.	.	.	.	.	T	15.65	2.897604	0.52121	.	.	ENSG00000100625	ENST00000216513;ENST00000554079;ENST00000556952	D;T	0.90620	-2.7;0.82	5.72	4.59	0.56863	.	0.202408	0.42053	N	0.000764	T	0.80969	0.4726	N	0.19112	0.55	0.20975	N	0.999816	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.0	T	0.65076	-0.6256	10	0.23302	T	0.38	.	8.4514	0.32873	0.0:0.1448:0.0:0.8552	.	400;408	G3V2N2;Q9UIU6	.;SIX4_HUMAN	S	408;81;400	ENSP00000216513:T408S;ENSP00000451537:T81S	ENSP00000216513:T408S	T	-	1	0	SIX4	60256558	0.985000	0.35326	1.000000	0.80357	0.997000	0.91878	1.638000	0.37165	2.194000	0.70268	0.533000	0.62120	ACT		0.463	SIX4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000072397.2			A	61186805	T	A	61186805	3	1	674	1	0	0	0	0	1	0	0	0	14362	1667	58	5	1131	5	SIX4	14	61186805	Missense_Mutation	SNP	T	TCGA-KO-8403-01A-11D-2310-10	41166848	61186805	46162735	37	43422										
FAM98B	283742	broad.mit.edu	37	chr15	38776624	38776626	+	IGR	DEL	AGA	AGA	-													0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	gtggtgggggtgggggtgggAgaggtggctgggggggtgga							TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr15:38776624_38776626delAGA	ENST00000491535.1	+	0	3111				FAM98B_ENST00000397609.2_In_Frame_Del_p.R356del	NM_001042429.1	NP_001035894.1	Q52LJ0	FA98B_HUMAN	family with sequence similarity 98, member B							cytoplasm (GO:0005737)|nucleus (GO:0005634)|tRNA-splicing ligase complex (GO:0072669)	poly(A) RNA binding (GO:0044822)			endometrium(2)|large_intestine(3)|lung(1)|ovary(1)|skin(1)	8		all_cancers(109;3.11e-17)|all_epithelial(112;2.64e-15)|Lung NSC(122;2.11e-11)|all_lung(180;5.61e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;9e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0209)		tgggggtgggagaggtggctggg	0.68																																																0																																										SO:0001628	intergenic_variant	283742				CCDS10047.2	15q14	2006-11-29		2005-11-20	ENSG00000171262	ENSG00000171262			26773	protein-coding gene	gene with protein product						12477932	Standard	NM_173611		Approved	FLJ38426	uc001zkc.3	Q52LJ0	OTTHUMG00000129831		15.37:g.38776624_38776626delAGA		Somatic		WXS	Illumina HiSeq	Phase_I	A8MUW5|Q8N935	In_Frame_Del	DEL	ENST00000491535.1	37	CCDS42015.1																																																																																				0.68	FAM98B-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000252071.2	NM_173611		-	38776626	AGA	-	38776624	6	5	674	0	1	1	0	1	0	0	0	0	5664	296	11	0		0	FAM98B	15	38776624	IGR	DEL	AGA	TCGA-KO-8403-01A-11D-2310-10		38776624	63754768	38	43423										
SPTBN5	51332	mdanderson.org	37	chr15	42159290	42159290	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ggtcccgcacccgggggcgcCggagcgtcttcagccgctca	15	17	3	0	rs2290553	byFrequency	TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr15:42159290C>T	ENST00000320955.6	-	36	6574	c.6347G>A	c.(6346-6348)cGg>cAg	p.R2116Q	MIR4310_ENST00000582950.1_RNA	NM_016642.2	NP_057726.4	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	2116					actin cytoskeleton organization (GO:0030036)|actin filament capping (GO:0051693)|axon guidance (GO:0007411)|Golgi organization (GO:0007030)|lysosomal transport (GO:0007041)|protein homooligomerization (GO:0051260)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|photoreceptor connecting cilium (GO:0032391)|photoreceptor disc membrane (GO:0097381)|spectrin (GO:0008091)	actin binding (GO:0003779)|dynactin binding (GO:0034452)|dynein intermediate chain binding (GO:0045505)|kinesin binding (GO:0019894)|myosin tail binding (GO:0032029)|protein self-association (GO:0043621)|spectrin binding (GO:0030507)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(6)|lung(18)|ovary(5)|prostate(8)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	62		all_cancers(109;1.84e-17)|all_epithelial(112;1.12e-15)|Lung NSC(122;7.6e-10)|all_lung(180;4.15e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		all cancers(2;4.33e-34)|Epithelial(2;1.72e-25)|OV - Ovarian serous cystadenocarcinoma(18;8.32e-20)|GBM - Glioblastoma multiforme(94;4.69e-07)|Colorectal(2;0.00104)|COAD - Colon adenocarcinoma(120;0.0405)|READ - Rectum adenocarcinoma(92;0.0908)		CCGGGGGCGCCGGAGCGTCTT	0.736													c|||	711	0.141973	0.034	0.1671	5008	,	,		14161	0.0446		0.2833	False		,,,				2504	0.2249															0								C	GLN/ARG	191,3125		13,165,1480	3	4	4		6242	-4.3	0	15	dbSNP_100	4	1708,5692		230,1248,2222	no	missense	SPTBN5	NM_016642.2	43	243,1413,3702	TT,TC,CC		23.0811,5.76,17.7212	possibly-damaging	2081/3640	42159290	1899,8817	1658	3700	5358	SO:0001583	missense	51332			AF233523	CCDS61599.1	15q21	2010-08-17			ENSG00000137877	ENSG00000137877			15680	protein-coding gene	gene with protein product	"beta V spectrin"	605916				10764729	Standard	NM_016642		Approved	HUSPECV, BSPECV, HUBSPECV	uc001zos.4	Q9NRC6		ENST00000320955.6:c.6347G>A	15.37:g.42159290C>T	ENSP00000317790:p.Arg2116Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000320955.6	37		308	0.14102564102564102	20	0.04065040650406504	61	0.1685082872928177	19	0.033216783216783216	208	0.27440633245382584	.	9.097	1.003238	0.19121	0.0576	0.230811	ENSG00000137877	ENST00000320955	T	0.47177	0.85	4.61	-4.26	0.03755	.	1.848070	0.02996	N	0.147432	T	0.00012	0.0000	N	0.25647	0.755	0.80722	P	0.0	B	0.25743	0.133	B	0.17098	0.017	T	0.09292	-1.0681	9	0.14252	T	0.57	.	6.4787	0.22051	0.0:0.4092:0.1605:0.4303	rs2290553;rs17736981	2116	Q9NRC6	SPTN5_HUMAN	Q	2116	ENSP00000317790:R2116Q	ENSP00000317790:R2116Q	R	-	2	0	SPTBN5	39946582	0.000000	0.05858	0.000000	0.03702	0.114000	0.19823	-0.487000	0.06505	-0.666000	0.05310	-0.389000	0.06534	CGG		0.736	SPTBN5-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000420237.1	NM_016642		T	42159290	C	T	42159290	3	4	674	1	0	0	0	0	1	0	0	0	15134	652	23	1	4809	1	SPTBN5	15	42159290	Missense_Mutation	SNP	C	TCGA-KO-8403-01A-11D-2310-10	3382666	42159290	60372102	39	43424										
MTFMT	123263	hgsc.bcm.edu	37	chr15	65321780	65321780	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ccgcagcgcctcgcgggcgaActggtccgtgccgaagaaga	15	14	0	2	rs188718836	byFrequency	TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr15:65321780A>T	ENST00000220058.4	-	1	185	c.172T>A	c.(172-174)Ttc>Atc	p.F58I	MTFMT_ENST00000561025.1_5'Flank	NM_139242.3	NP_640335.2	Q96DP5	FMT_HUMAN	mitochondrial methionyl-tRNA formyltransferase	58						mitochondrion (GO:0005739)	methionyl-tRNA formyltransferase activity (GO:0004479)			endometrium(1)|large_intestine(3)|lung(3)|ovary(3)	10					Tetrahydrofolic acid(DB00116)	TCGCGGGCGAACTGGTCCGTG	0.761													A|||	27	0.00539137	0.0008	0.0058	5008	,	,		9222	0.0		0.0119	False		,,,				2504	0.0102															0								A	ILE/PHE	5,2325		0,5,1160	2	3	2		172	3.6	0.5	15		2	49,5611		0,49,2781	yes	missense	MTFMT	NM_139242.3	21	0,54,3941	TT,TA,AA		0.8657,0.2146,0.6758	probably-damaging	58/390	65321780	54,7936	1165	2830	3995	SO:0001583	missense	123263			AK055688	CCDS45280.1	15q22.31	2006-11-29		2005-08-09		ENSG00000103707			29666	protein-coding gene	gene with protein product		611766				9614118	Standard	NM_139242		Approved	FMT1	uc002aof.4	Q96DP5		ENST00000220058.4:c.172T>A	15.37:g.65321780A>T	ENSP00000220058:p.Phe58Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z734	Missense_Mutation	SNP	ENST00000220058.4	37	CCDS45280.1	10	0.004578754578754579	0	0.0	2	0.0055248618784530384	0	0.0	8	0.010554089709762533	A	20.5	3.997572	0.74818	0.002146	0.008657	ENSG00000103707	ENST00000220058;ENST00000543678	T;T	0.77877	-1.13;-1.13	4.83	3.62	0.41486	Formyl transferase, N-terminal (2);	0.049940	0.85682	D	0.000000	T	0.78629	0.4313	M	0.66378	2.025	0.42564	D	0.993154	D	0.57899	0.981	D	0.63033	0.91	T	0.82299	-0.0526	10	0.87932	D	0	-19.2998	8.2755	0.31871	0.8231:0.0:0.0:0.1769	.	58	Q96DP5	FMT_HUMAN	I	58	ENSP00000220058:F58I;ENSP00000443754:F58I	ENSP00000220058:F58I	F	-	1	0	MTFMT	63108833	0.988000	0.35896	0.512000	0.27736	0.150000	0.21749	3.146000	0.50631	1.802000	0.52723	0.528000	0.53228	TTC		0.761	MTFMT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418155.1	NM_139242		T	65321780	A	T	65321780	3	4	674	1	0	0	0	0	1	0	0	0	9931	43	2	5	1033	5	MTFMT	15	65321780	Missense_Mutation	SNP	A	TCGA-KO-8403-01A-11D-2310-10	23162490	65321780	37209612	40	43425										
IL4R	3566	hgsc.bcm.edu	37	chr16	27374117	27374117	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	cgacccagagtccagacaacCtgacttgcacagagacgccc	9	16	0	4			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr16:27374117C>T	ENST00000395762.2	+	11	1703	c.1444C>T	c.(1444-1446)Ctg>Ttg	p.L482L	IL4R_ENST00000543915.2_Silent_p.L482L|IL4R_ENST00000380922.3_Silent_p.L467L|IL4R_ENST00000170630.2_Silent_p.L482L	NM_000418.3	NP_000409.1	P24394	IL4RA_HUMAN	interleukin 4 receptor	482	Required for IRS1 activation and IL4- induced cell growth.				defense response to protozoan (GO:0042832)|immune response (GO:0006955)|interleukin-4-mediated signaling pathway (GO:0035771)|intracellular signal transduction (GO:0035556)|negative regulation of T-helper 1 cell differentiation (GO:0045626)|ovulation (GO:0030728)|positive regulation of chemokine secretion (GO:0090197)|positive regulation of macrophage activation (GO:0043032)|positive regulation of T-helper 2 cell differentiation (GO:0045630)|production of molecular mediator involved in inflammatory response (GO:0002532)|regulation of cell proliferation (GO:0042127)|response to estrogen (GO:0043627)|signal transduction (GO:0007165)	extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)	interleukin-4 receptor activity (GO:0004913)|receptor signaling protein activity (GO:0005057)			breast(3)|endometrium(2)|kidney(2)|large_intestine(2)|lung(15)|ovary(2)|prostate(2)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)	33						TCCAGACAACCTGACTTGCAC	0.647																																																0													85	88	87					16																	27374117		2197	4300	6497	SO:0001819	synonymous_variant	3566			X52425	CCDS10629.1, CCDS58441.1	16p12.1-p11.2	2008-05-14			ENSG00000077238	ENSG00000077238		"Interleukins and interleukin receptors", "CD molecules"	6015	protein-coding gene	gene with protein product		147781				1679753	Standard	NM_000418		Approved	CD124	uc010bxy.4	P24394	OTTHUMG00000097015	ENST00000395762.2:c.1444C>T	16.37:g.27374117C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4E076|B9EKU8|H3BSY5|Q96P01|Q9H181|Q9H182|Q9H183|Q9H184|Q9H185|Q9H186|Q9H187|Q9H188	Silent	SNP	ENST00000395762.2	37	CCDS10629.1																																																																																				0.647	IL4R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214104.4			T	27374117	C	T	27374117	2	4	674	1	0	0	0	0	0	0	0	1	7705	680	24	2		2	IL4R	16	27374117	Silent	SNP	C	TCGA-KO-8403-01A-11D-2310-10		27374117	62980636	41	43426										
CLEC18B	497190	mdanderson.org	37	chr16	74452114	74452114	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ccacttgcagggtgcgccacAggccggacgccaggctcggg	16	15	0	0			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr16:74452114A>G	ENST00000339953.5	-	3	420	c.299T>C	c.(298-300)cTg>cCg	p.L100P		NM_001011880.2	NP_001011880.2	Q6UXF7	CL18B_HUMAN	C-type lectin domain family 18, member B	100	SCP.					extracellular region (GO:0005576)	carbohydrate binding (GO:0030246)			endometrium(3)|kidney(9)|large_intestine(3)|lung(7)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	27						GGTGCGCCACAGGCCGGACGC	0.657																																																0													17	19	18					16																	74452114		2004	4114	6118	SO:0001583	missense	497190			AY358373	CCDS32484.1	16q22.3	2010-04-27	2009-03-10	2009-03-10		ENSG00000140839		"C-type lectin domain containing"	33849	protein-coding gene	gene with protein product							Standard	NM_001011880		Approved		uc002fct.3	Q6UXF7		ENST00000339953.5:c.299T>C	16.37:g.74452114A>G	ENSP00000341051:p.Leu100Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DF90	Missense_Mutation	SNP	ENST00000339953.5	37	CCDS32484.1	.	.	.	.	.	.	.	.	.	.	N	3.509	-0.100105	0.07010	.	.	ENSG00000140839	ENST00000429489;ENST00000339953;ENST00000268492	T	0.07444	3.19	3.27	-0.271	0.12922	CAP domain (3);	0.580703	0.17352	N	0.177375	T	0.02418	0.0074	N	0.04090	-0.28	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.0	T	0.42120	-0.9470	10	0.14252	T	0.57	.	0.6793	0.00872	0.2475:0.184:0.3812:0.1874	.	100;100	C9JSV1;Q6UXF7	.;CL18B_HUMAN	P	100	ENSP00000341051:L100P	ENSP00000268492:L100P	L	-	2	0	CLEC18B	73009615	0.000000	0.05858	0.000000	0.03702	0.009000	0.06853	-0.068000	0.11561	0.104000	0.17725	-1.160000	0.01791	CTG		0.657	CLEC18B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000434697.1	NM_001011880		G	74452114	A	G	74452114	3	3	674	1	0	0	0	0	1	0	0	0	3505	188	7	3	1112	3	CLEC18B	16	74452114	Missense_Mutation	SNP	A	TCGA-KO-8403-01A-11D-2310-10	47077997	74452114	15902639	42	43427										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	7577139	7577139	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	acgcacctcaaagctgttccGtcccagtagattaccactac	6	15	1	1	rs55832599		TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr17:7577139G>A	ENST00000269305.4	-	8	988	c.799C>T	c.(799-801)Cgg>Tgg	p.R267W	TP53_ENST00000574684.1_5'Flank|TP53_ENST00000455263.2_Missense_Mutation_p.R267W|TP53_ENST00000420246.2_Missense_Mutation_p.R267W|TP53_ENST00000413465.2_Intron|TP53_ENST00000445888.2_Missense_Mutation_p.R267W|TP53_ENST00000359597.4_Missense_Mutation_p.R267W	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	267	Interaction with AXIN1. {ECO:0000250}.|Interaction with E4F1.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with ZNF385A.		R -> G (in sporadic cancers; somatic mutation).|R -> H (in a sporadic cancer; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> W (in sporadic cancers; somatic mutation; dbSNP:rs55832599). {ECO:0000269|PubMed:16959974}.		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.R267W(25)|p.0?(8)|p.?(3)|p.G262_F270delGNLLGRNSF(2)|p.G266_E271delGRNSFE(2)|p.G262_S269delGNLLGRNS(2)|p.G266fs*4(1)|p.L265_K305del41(1)|p.E258fs*71(1)|p.R267G(1)|p.R267R(1)|p.L265_R267delLGR(1)|p.G266_N268delGRN(1)|p.G262fs*2(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	AAGCTGTTCCGTCCCAGTAGA	0.522		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	50	Substitution - Missense(26)|Deletion - In frame(9)|Whole gene deletion(8)|Unknown(3)|Deletion - Frameshift(3)|Substitution - coding silent(1)	large_intestine(9)|central_nervous_system(9)|lung(5)|haematopoietic_and_lymphoid_tissue(4)|bone(4)|stomach(3)|liver(3)|upper_aerodigestive_tract(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thymus(1)|breast(1)|skin(1)|eye(1)|prostate(1)											51	45	47					17																	7577139		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.799C>T	17.37:g.7577139G>A	ENSP00000269305:p.Arg267Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	G	22.6	4.307537	0.81247	.	.	ENSG00000141510	ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000509690	D;D;D;D;D;D	0.99869	-7.34;-7.34;-7.34;-7.34;-7.34;-7.34	5.13	4.15	0.48705	p53, DNA-binding domain (1);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.058834	0.64402	D	0.000001	D	0.99862	0.9935	M	0.90759	3.145	0.58432	D	0.999999	D;D;D;P	0.89917	0.974;1.0;0.979;0.876	P;D;P;P	0.91635	0.703;0.999;0.868;0.728	D	0.96589	0.9436	10	0.87932	D	0	-8.7531	12.741	0.57253	0.0:0.0:0.8346:0.1654	rs55832599	267;267;267;267	P04637-2;P04637-3;P04637;Q1MSW8	.;.;P53_HUMAN;.	W	267;267;267;267;267;256;135	ENSP00000352610:R267W;ENSP00000269305:R267W;ENSP00000398846:R267W;ENSP00000391127:R267W;ENSP00000391478:R267W;ENSP00000425104:R135W	ENSP00000269305:R267W	R	-	1	2	TP53	7517864	0.998000	0.40836	0.876000	0.34364	0.812000	0.45895	2.565000	0.45939	1.360000	0.45960	0.462000	0.41574	CGG		0.522	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		A	7577139	G	A	7577139	3	1	674	1	0	0	0	0	1	0	0	0	16393	1144	40	1	487	1	TP53	17	7577139	Missense_Mutation	SNP	G	TCGA-KO-8403-01A-11D-2310-10		7577139	73618071	43	43428										
TP53	7157	broad.mit.edu	37	chr17	7577532	7577532	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	gtgtgatgatggtgaggatgGgcctccggttcatgccgccc	16	10	1	3			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr17:7577532G>A	ENST00000269305.4	-	7	938	c.749C>T	c.(748-750)cCc>cTc	p.P250L	TP53_ENST00000574684.1_5'Flank|TP53_ENST00000455263.2_Missense_Mutation_p.P250L|TP53_ENST00000420246.2_Missense_Mutation_p.P250L|TP53_ENST00000413465.2_Missense_Mutation_p.P250L|TP53_ENST00000445888.2_Missense_Mutation_p.P250L|TP53_ENST00000359597.4_Missense_Mutation_p.P250L	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	250	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with ZNF385A.		P -> A (in sporadic cancers; somatic mutation).|P -> F (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|P -> H (in sporadic cancers; somatic mutation).|P -> L (in sporadic cancers; somatic mutation).|P -> N (in sporadic cancers; somatic mutation; requires 2 nucleotide substitutions).|P -> Q (in sporadic cancers; somatic mutation).|P -> S (in sporadic cancers; somatic mutation).|P -> T (in sporadic cancers; somatic mutation).|RP -> SA (in a sporadic cancer; somatic mutation).|RP -> SS (in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.P250L(45)|p.0?(8)|p.?(5)|p.P250H(4)|p.P250F(3)|p.P250N(2)|p.M246_P250delMNRRP(2)|p.P250_L252delPIL(2)|p.P250Q(2)|p.R248_P250delRRP(1)|p.P250_T253delPILT(1)|p.N247_P250delNRRP(1)|p.R249_P250delRP(1)|p.R249_T256delRPILTIIT(1)|p.I251fs*94(1)|p.R249_I251delRPI(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	GGTGAGGATGGGCCTCCGGTT	0.577		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	80	Substitution - Missense(56)|Deletion - In frame(10)|Whole gene deletion(8)|Unknown(5)|Deletion - Frameshift(1)	large_intestine(14)|lung(10)|breast(10)|upper_aerodigestive_tract(5)|biliary_tract(5)|skin(5)|ovary(5)|stomach(4)|central_nervous_system(4)|haematopoietic_and_lymphoid_tissue(4)|bone(4)|oesophagus(3)|liver(2)|urinary_tract(1)|eye(1)|peritoneum(1)|pancreas(1)|thyroid(1)	GRCh37	CM973401	TP53	M							154	112	126					17																	7577532		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.749C>T	17.37:g.7577532G>A	ENSP00000269305:p.Pro250Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	G	24.2	4.504438	0.85176	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000509690	D;D;D;D;D;D;D	0.99885	-7.5;-7.5;-7.5;-7.5;-7.5;-7.5;-7.5	4.62	4.62	0.57501	p53, DNA-binding domain (1);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.000000	0.85682	D	0.000000	D	0.99898	0.9951	M	0.91406	3.205	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.97110	0.997;0.996;0.998;0.998;1.0	D	0.96045	0.9027	10	0.87932	D	0	-1.5308	15.3618	0.74483	0.0:0.0:1.0:0.0	.	250;250;250;250;250	P04637-2;P04637-3;P04637;Q1MSW8;E7EQX7	.;.;P53_HUMAN;.;.	L	250;250;250;250;250;250;239;118	ENSP00000410739:P250L;ENSP00000352610:P250L;ENSP00000269305:P250L;ENSP00000398846:P250L;ENSP00000391127:P250L;ENSP00000391478:P250L;ENSP00000425104:P118L	ENSP00000269305:P250L	P	-	2	0	TP53	7518257	1.000000	0.71417	1.000000	0.80357	0.724000	0.41520	9.601000	0.98297	2.564000	0.86499	0.462000	0.41574	CCC		0.577	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		A	7577532	G	A	7577532	3	1	674	1	0	0	0	0	1	0	0	0	16393	1232	43	2	541	2	TP53	17	7577532	Missense_Mutation	SNP	G	TCGA-KO-8403-01A-11D-2310-10	393	7577532	73617678	44	43429										
ARL16	339231	mdanderson.org	37	chr17	79650828	79650828	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ccgtagctcggcgccgcggcTcaaggcccgcccaccggcca	13	20	1	0	rs8066889	byFrequency	TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr17:79650828T>G	ENST00000397498.4	-	1	126	c.28A>C	c.(28-30)Agc>Cgc	p.S10R	HGS_ENST00000329138.4_5'Flank|ARL16_ENST00000574938.1_5'Flank|ARL16_ENST00000573392.1_5'Flank|ARL16_ENST00000576135.1_5'Flank|ARL16_ENST00000570561.1_5'Flank	NM_001040025.1	NP_001035114.1	Q0P5N6	ARL16_HUMAN	ADP-ribosylation factor-like 16	10			S -> R (in dbSNP:rs8066889).		small GTPase mediated signal transduction (GO:0007264)	intracellular (GO:0005622)	GTP binding (GO:0005525)			central_nervous_system(1)|endometrium(1)|lung(4)|skin(1)	7	all_neural(118;0.0878)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			GCGCCGCGGCTCAAGGCCCGC	0.632													G|||	1243	0.248203	0.3578	0.1556	5008	,	,		12437	0.2292		0.2604	False		,,,				2504	0.1728															0								G	ARG/SER	1280,2528		237,806,861	14	17	16		28	0.8	0	17	dbSNP_116	16	1807,6371		212,1383,2494	yes	missense	ARL16	NM_001040025.1	110	449,2189,3355	GG,GT,TT		22.0959,33.6134,25.755	benign	10/198	79650828	3087,8899	1904	4089	5993	SO:0001583	missense	339231				CCDS45813.1	17q25.3	2014-05-09				ENSG00000214087		"ADP-ribosylation factors-like", "ADP-ribosylation factors"	27902	protein-coding gene	gene with protein product						12477932	Standard	NM_001040025		Approved		uc002kbf.3	Q0P5N6		ENST00000397498.4:c.28A>C	17.37:g.79650828T>G	ENSP00000380635:p.Ser10Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000397498.4	37	CCDS45813.1	573	0.2623626373626374	193	0.39227642276422764	62	0.1712707182320442	135	0.23601398601398602	183	0.24142480211081793	G	10.73	1.431804	0.25813	0.336134	0.220959	ENSG00000214087	ENST00000397498	T	0.70749	-0.51	4.35	0.805	0.18703	.	0.727362	0.09205	U	0.834153	T	0.00012	0.0000	L	0.34521	1.04	0.51012	P	9.199999999998099E-5	B	0.02656	0.0	B	0.01281	0.0	T	0.26224	-1.0109	9	0.72032	D	0.01	.	8.4458	0.32841	0.0:0.133:0.4606:0.4064	rs8066889;rs59418595;rs8066889	10	Q0P5N6	ARL16_HUMAN	R	10	ENSP00000380635:S10R	ENSP00000380635:S10R	S	-	1	0	ARL16	77261233	0.004000	0.15560	0.003000	0.11579	0.002000	0.02628	0.878000	0.28126	0.263000	0.21812	-0.121000	0.15023	AGC		0.632	ARL16-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440514.1	XM_290777		G	79650828	T	G	79650828	3	3	674	1	0	0	0	0	1	0	0	0	932	1551	54	5	585	5	ARL16	17	79650828	Missense_Mutation	SNP	T	TCGA-KO-8403-01A-11D-2310-10	72073296	79650828	1544382	45	43430										
TCEB3B	51224	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	44561017	44561017	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	gccctggcagcctggacacaGcagaggcccgccctgagccg	14	17	0	2			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr18:44561017G>T	ENST00000332567.4	-	1	971	c.619C>A	c.(619-621)Ctg>Atg	p.L207M	KATNAL2_ENST00000245121.5_Intron|KATNAL2_ENST00000592005.1_Intron|KATNAL2_ENST00000356157.7_Intron	NM_016427.2	NP_057511.2	Q8IYF1	ELOA2_HUMAN	transcription elongation factor B polypeptide 3B (elongin A2)	207					regulation of DNA-templated transcription, elongation (GO:0032784)|transcription from RNA polymerase II promoter (GO:0006366)	integral component of membrane (GO:0016021)|nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|cervix(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(15)|lung(24)|ovary(2)|pancreas(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	58						CCTGGACACAGCAGAGGCCCG	0.687																																																0													25	28	27					18																	44561017		2203	4298	6501	SO:0001583	missense	51224			BC036022	CCDS11932.1	18q21.1	2009-08-04			ENSG00000206181	ENSG00000206181			30771	protein-coding gene	gene with protein product	"transcription elongation factor (SIII) elongin A2", "elongin A2"	609522				7660129, 8244996	Standard	NM_016427		Approved	HsT832, TCEB3L	uc002lcr.1	Q8IYF1	OTTHUMG00000132649	ENST00000332567.4:c.619C>A	18.37:g.44561017G>T	ENSP00000331302:p.Leu207Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q9P2V9	Missense_Mutation	SNP	ENST00000332567.4	37	CCDS11932.1	.	.	.	.	.	.	.	.	.	.	G	9.489	1.100122	0.20552	.	.	ENSG00000206181	ENST00000332567	T	0.07908	3.15	2.09	-2.03	0.07365	.	2.719630	0.01724	N	0.028476	T	0.17195	0.0413	L	0.47716	1.5	0.09310	N	1	D	0.67145	0.996	D	0.64877	0.93	T	0.18999	-1.0319	10	0.36615	T	0.2	6.0E-4	3.4497	0.07494	0.1594:0.0:0.286:0.5546	.	207	Q8IYF1	ELOA2_HUMAN	M	207	ENSP00000331302:L207M	ENSP00000331302:L207M	L	-	1	2	TCEB3B	42815015	0.002000	0.14202	0.000000	0.03702	0.003000	0.03518	1.247000	0.32815	-0.515000	0.06479	-0.521000	0.04368	CTG		0.687	TCEB3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255900.1	NM_016427		T	44561017	G	T	44561017	3	4	674	1	0	0	0	0	1	0	0	0	15694	962	34	4	1646	4	TCEB3B	18	44561017	Missense_Mutation	SNP	G	TCGA-KO-8403-01A-11D-2310-10		44561017	33516231	46	43431										
MUC16	94025	mdanderson.org	37	chr19	9012840	9012840	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	gggtgatgcatgtcctcctcGtactgcaggttggtgatggt	15	8	0	2	rs4992692		TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr19:9012840G>A	ENST00000397910.4	-	34	38807	c.38604C>T	c.(38602-38604)taC>taT	p.Y12868Y		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	12870	SEA 6. {ECO:0000255|PROSITE- ProRule:PRU00188}.			Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TGTCCTCCTCGTACTGCAGGT	0.582																																																0													248	208	221					19																	9012840		2025	4191	6216	SO:0001819	synonymous_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.38604C>T	19.37:g.9012840G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Silent	SNP	ENST00000397910.4	37	CCDS54212.1																																																																																				0.582	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		A	9012840	G	A	9012840	2	1	674	1	0	0	0	0	0	0	0	1	9980	1140	40	1		1	MUC16	19	9012840	Silent	SNP	G	TCGA-KO-8403-01A-11D-2310-10		9012840	50116143	47	43432										
ZNF846	162993	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	9869291	9869291	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ttgtaaaaactatgaggaaaGttctttcttaaggcttttcc	7	6	2	1			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr19:9869291G>C	ENST00000397902.2	-	6	875	c.462C>G	c.(460-462)aaC>aaG	p.N154K	ZNF846_ENST00000588267.1_Missense_Mutation_p.N25K|ZNF846_ENST00000586293.1_3'UTR|ZNF846_ENST00000592859.1_Missense_Mutation_p.N25K	NM_001077624.1	NP_001071092.1	Q147U1	ZN846_HUMAN	zinc finger protein 846	154					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(7)|lung(8)|ovary(1)|upper_aerodigestive_tract(1)	22						TATGAGGAAAGTTCTTTCTTA	0.368																																																0													114	108	110					19																	9869291		1817	4087	5904	SO:0001583	missense	162993			AK097652	CCDS42496.1	19p13.2	2013-01-08			ENSG00000196605	ENSG00000196605		"Zinc fingers, C2H2-type", "-"	27260	protein-coding gene	gene with protein product							Standard	NM_001077624		Approved		uc002mmb.1	Q147U1		ENST00000397902.2:c.462C>G	19.37:g.9869291G>C	ENSP00000380999:p.Asn154Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0H1|B3KUP1	Missense_Mutation	SNP	ENST00000397902.2	37	CCDS42496.1	.	.	.	.	.	.	.	.	.	.	.	0.854	-0.737634	0.03111	.	.	ENSG00000196605	ENST00000397902	T	0.05447	3.44	1.78	-0.534	0.11883	.	.	.	.	.	T	0.02494	0.0076	N	0.05177	-0.1	0.09310	N	1	B	0.18310	0.027	B	0.09377	0.004	T	0.47861	-0.9084	8	.	.	.	.	3.8225	0.08841	0.1567:0.0:0.6063:0.237	.	154	Q147U1	ZN846_HUMAN	K	154	ENSP00000380999:N154K	.	N	-	3	2	ZNF846	9730291	0.000000	0.05858	0.012000	0.15200	0.126000	0.20510	-3.089000	0.00610	-0.052000	0.13311	0.558000	0.71614	AAC		0.368	ZNF846-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450253.1	NM_001077624		C	9869291	G	C	9869291	3	2	674	1	0	0	0	0	1	0	0	0	18204	1020	36	4	1143	4	ZNF846	19	9869291	Missense_Mutation	SNP	G	TCGA-KO-8403-01A-11D-2310-10	856451	9869291	49259692	48	43433										
HRC	3270	broad.mit.edu;hgsc.bcm.edu	37	chr19	49656872	49656872	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	tcttcttcctcctcctcctcCtccttgtcttcctcttcttc	1	20	5	0			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr19:49656872C>T	ENST00000252825.4	-	1	1809	c.1623G>A	c.(1621-1623)gaG>gaA	p.E541E	HRC_ENST00000595625.1_Silent_p.E541E	NM_002152.2	NP_002143.1	P23327	SRCH_HUMAN	histidine rich calcium binding protein	541					cytosolic calcium ion homeostasis (GO:0051480)|muscle contraction (GO:0006936)|positive regulation of heart contraction (GO:0045823)|positive regulation of heart rate (GO:0010460)|positive regulation of relaxation of cardiac muscle (GO:1901899)|regulation of calcium ion transmembrane transport (GO:1903169)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of cell communication by electrical coupling involved in cardiac conduction (GO:1901844)|regulation of heart rate (GO:0002027)|regulation of peptidyl-serine phosphorylation (GO:0033135)|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0010880)|regulation of ryanodine-sensitive calcium-release channel activity (GO:0060314)	sarcoplasmic reticulum lumen (GO:0033018)|sarcoplasmic reticulum membrane (GO:0033017)|Z disc (GO:0030018)	ATPase binding (GO:0051117)|calcium ion binding (GO:0005509)|ion channel binding (GO:0044325)			endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(10)|lung(10)|ovary(1)|prostate(3)|urinary_tract(2)	34		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.01e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.00019)|GBM - Glioblastoma multiforme(486;0.00279)|Epithelial(262;0.00622)		cctcctcctcctccttgtctt	0.612																																					Melanoma(37;75 1097 24567 25669 30645)											0													57	31	40					19																	49656872		2203	4300	6503	SO:0001819	synonymous_variant	3270				CCDS12759.1	19q13.3	2008-07-16	2001-11-28			ENSG00000130528			5178	protein-coding gene	gene with protein product		142705	"histidine-rich calcium-binding protein"			2037293	Standard	XR_243928		Approved	MGC133236	uc002pmv.3	P23327		ENST00000252825.4:c.1623G>A	19.37:g.49656872C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q504Y6	Silent	SNP	ENST00000252825.4	37	CCDS12759.1																																																																																				0.612	HRC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465649.1	NM_002152		T	49656872	C	T	49656872	2	4	674	1	0	0	0	0	0	0	0	1	7359	680	24	2		2	HRC	19	49656872	Silent	SNP	C	TCGA-KO-8403-01A-11D-2310-10	39787581	49656872	9472111	49	43434										
PTOV1	53635	broad.mit.edu	37	chr19	50360994	50360996	+	In_Frame_Del	DEL	CAA	CAA	-													0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	tcaggcccagtccagatcgtCaacaacaagtttctggcatg							TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	CAA	CAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr19:50360994_50360996delCAA	ENST00000601675.1	+	7	863_865	c.759_761delCAA	c.(757-762)gtcaac>gtc	p.N255del	PTOV1_ENST00000601638.1_In_Frame_Del_p.N223del|AC018766.5_ENST00000601893.1_RNA|AC018766.5_ENST00000599259.1_RNA|AC018766.4_ENST00000596624.1_RNA|PTOV1_ENST00000598325.1_3'UTR|PTOV1_ENST00000600603.1_In_Frame_Del_p.N223del|PTOV1_ENST00000599732.1_In_Frame_Del_p.N255del|AC018766.6_ENST00000601211.1_RNA|PTOV1_ENST00000221557.9_In_Frame_Del_p.N223del|PTOV1_ENST00000391842.1_In_Frame_Del_p.N255del|AC018766.5_ENST00000593654.1_RNA			Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	255	Interaction with FLOT1.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				endometrium(5)|kidney(3)|large_intestine(2)|lung(5)|ovary(1)	16		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0116)|OV - Ovarian serous cystadenocarcinoma(262;0.0132)		TCCAGATCGTCAACAACAAGTTT	0.616																																																0										2,4262		1,0,2131						4	1			92	2,8252		0,2,4125	no	coding	PTOV1	NM_017432.3		1,2,6256	A1A1,A1R,RR		0.0242,0.0469,0.032				4,12514				SO:0001651	inframe_deletion	53635			AF238381	CCDS12782.1	19q13.33	2014-08-28	2008-09-12		ENSG00000104960	ENSG00000104960			9632	protein-coding gene	gene with protein product		610195				12598323, 15713644	Standard	XM_005258998		Approved		uc002pqf.1	Q86YD1	OTTHUMG00000183162	ENST00000601675.1:c.759_761delCAA	19.37:g.50361000_50361002delCAA	ENSP00000472816:p.Asn255del	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXX7|Q96BU3|Q9HBN4|Q9NYL1	In_Frame_Del	DEL	ENST00000601675.1	37	CCDS12782.1																																																																																				0.616	PTOV1-007	KNOWN	alternative_3_UTR|NMD_exception|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465347.1	NM_017432		-	50360996	CAA	-	50360994	7	5	674	1	0	1	0	1	0	0	0	0	12780	813	29	0	785	0	PTOV1	19	50360994	In_Frame_Del	DEL	CAA	TCGA-KO-8403-01A-11D-2310-10	704122	50360994	8767989	50	43435										
SIGLEC10	89790	mdanderson.org	37	chr19	51919235	51919235	+	Missense_Mutation	SNP	T	T	C													0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	agcgccctgaatccccagccTtcaccccgggcagctccagc					rs201089294	byFrequency	TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr19:51919235T>C	ENST00000339313.5	-	5	1057	c.941A>G	c.(940-942)aAg>aGg	p.K314R	SIGLEC10_ENST00000525998.1_Intron|SIGLEC10_ENST00000442846.3_Intron|CTD-2616J11.2_ENST00000526996.1_RNA|SIGLEC10_ENST00000356298.5_Missense_Mutation_p.K314R|SIGLEC10_ENST00000432469.2_Missense_Mutation_p.K231R|SIGLEC10_ENST00000441969.3_Missense_Mutation_p.K256R|CTD-2616J11.2_ENST00000532688.1_RNA|SIGLEC10_ENST00000439889.2_Missense_Mutation_p.K256R|SIGLEC10_ENST00000436984.2_Missense_Mutation_p.K266R|SIGLEC10_ENST00000353836.5_Missense_Mutation_p.K314R|CTD-2616J11.3_ENST00000532473.1_RNA			Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10	314	Ig-like C2-type 2.				cell adhesion (GO:0007155)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(10)|lung(27)|ovary(1)|prostate(1)|skin(5)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	58		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		ATCCCCAGCCTTCACCCCGGG	0.672													t|||	19	0.00379393	0.0015	0.0058	5008	,	,		16797	0.0		0.0089	False		,,,				2504	0.0041															0													39	44	42					19																	51919235		2203	4300	6503	SO:0001583	missense	89790			AF310233	CCDS12832.1, CCDS54301.1, CCDS54302.1, CCDS54303.1, CCDS54304.1, CCDS54305.1	19q13.3	2013-01-29			ENSG00000142512	ENSG00000142512		"Sialic acid binding Ig-like lectins", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	15620	protein-coding gene	gene with protein product	"sialic acid binding Ig-like lectin 10 Ig-like lectin 7", "siglec-like gene 2"	606091				11284738	Standard	NM_033130		Approved	SIGLEC-10, SLG2, PRO940, MGC126774	uc002pwo.3	Q96LC7	OTTHUMG00000165521	ENST00000339313.5:c.941A>G	19.37:g.51919235T>C	ENSP00000345243:p.Lys314Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1I5|A8K3C7|C9JJ33|C9JM10|F8W917|Q3MIR5|Q6UXI8|Q96G54|Q96LC8	Missense_Mutation	SNP	ENST00000339313.5	37	CCDS12832.1	.	.	.	.	.	.	.	.	.	.	.	9.301	1.052988	0.19907	.	.	ENSG00000142512	ENST00000353836;ENST00000432469;ENST00000356298;ENST00000441969;ENST00000439889;ENST00000436984;ENST00000339313;ENST00000529627	T;T;T;T;T;T;T;T	0.68331	-0.32;-0.32;-0.32;-0.32;-0.32;-0.32;-0.32;-0.32	4.37	-1.6	0.08426	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	1.681650	0.03351	N	0.196151	T	0.58337	0.2115	L	0.37507	1.11	0.09310	N	1	B;P;P;B;B;B	0.36125	0.213;0.538;0.482;0.178;0.218;0.395	B;P;B;B;B;B	0.44921	0.346;0.464;0.333;0.234;0.25;0.208	T	0.39418	-0.9615	10	0.27082	T	0.32	.	0.8962	0.01264	0.1846:0.1837:0.3756:0.2561	.	266;314;314;256;256;314	C9JM10;B7ZL04;Q96LC7-2;Q96LC7-6;Q96LC7-3;Q96LC7	.;.;.;.;.;SIG10_HUMAN	R	314;231;314;256;256;266;314;128	ENSP00000342389:K314R;ENSP00000396742:K231R;ENSP00000348646:K314R;ENSP00000408387:K256R;ENSP00000389132:K256R;ENSP00000414324:K266R;ENSP00000345243:K314R;ENSP00000435281:K128R	ENSP00000345243:K314R	K	-	2	0	SIGLEC10	56611047	0.000000	0.05858	0.000000	0.03702	0.080000	0.17528	-0.007000	0.12810	-0.440000	0.07211	0.260000	0.18958	AAG		0.672	SIGLEC10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000384620.2	NM_033130		C	51919235	T	C	51919235	3	2	674	1	0	0	0	0	1	0	0	0	14319	1609	56	3	1180	3	SIGLEC10	19	51919235	Missense_Mutation	SNP	T	TCGA-KO-8403-01A-11D-2310-10	1558241	51919235	7209748	51	43436	433	2								
SIGLEC10	89790	mdanderson.org	37	chr19	51919243	51919243	+	Silent	SNP	G	G	A													0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	gaatccccagccttcaccccGggcagctccagccccagggg					rs199660336	byFrequency	TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr19:51919243G>A	ENST00000339313.5	-	5	1049	c.933C>T	c.(931-933)ccC>ccT	p.P311P	SIGLEC10_ENST00000525998.1_Intron|SIGLEC10_ENST00000442846.3_Intron|CTD-2616J11.2_ENST00000526996.1_RNA|SIGLEC10_ENST00000356298.5_Silent_p.P311P|SIGLEC10_ENST00000432469.2_Silent_p.P228P|SIGLEC10_ENST00000441969.3_Silent_p.P253P|CTD-2616J11.2_ENST00000532688.1_RNA|SIGLEC10_ENST00000439889.2_Silent_p.P253P|SIGLEC10_ENST00000436984.2_Silent_p.P263P|SIGLEC10_ENST00000353836.5_Silent_p.P311P|CTD-2616J11.3_ENST00000532473.1_RNA			Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10	311	Ig-like C2-type 2.				cell adhesion (GO:0007155)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(10)|lung(27)|ovary(1)|prostate(1)|skin(5)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	58		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		CCTTCACCCCGGGCAGCTCCA	0.667																																																0													34	39	37					19																	51919243		2203	4300	6503	SO:0001819	synonymous_variant	89790			AF310233	CCDS12832.1, CCDS54301.1, CCDS54302.1, CCDS54303.1, CCDS54304.1, CCDS54305.1	19q13.3	2013-01-29			ENSG00000142512	ENSG00000142512		"Sialic acid binding Ig-like lectins", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	15620	protein-coding gene	gene with protein product	"sialic acid binding Ig-like lectin 10 Ig-like lectin 7", "siglec-like gene 2"	606091				11284738	Standard	NM_033130		Approved	SIGLEC-10, SLG2, PRO940, MGC126774	uc002pwo.3	Q96LC7	OTTHUMG00000165521	ENST00000339313.5:c.933C>T	19.37:g.51919243G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1I5|A8K3C7|C9JJ33|C9JM10|F8W917|Q3MIR5|Q6UXI8|Q96G54|Q96LC8	Silent	SNP	ENST00000339313.5	37	CCDS12832.1																																																																																				0.667	SIGLEC10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000384620.2	NM_033130		A	51919243	G	A	51919243	2	1	674	1	0	0	0	0	0	0	0	1	14319	1103	39	1		1	SIGLEC10	19	51919243	Silent	SNP	G	TCGA-KO-8403-01A-11D-2310-10	8	51919243	7209740	52	43437	433	2								
ZNF468	90333	ucsc.edu	37	chr19	53352380	53352380	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	taattctccagcatcacgtcCctgtataaagtcctctgagc	6	13	3	1	rs568961044	byFrequency	TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr19:53352380C>T	ENST00000595646.1	-	3	222	c.102G>A	c.(100-102)agG>agA	p.R34R	ZNF468_ENST00000396409.4_5'UTR|ZNF28_ENST00000594602.1_Intron|ZNF468_ENST00000243639.4_Silent_p.R34R|ZNF468_ENST00000390651.4_5'UTR			Q5VIY5	ZN468_HUMAN	zinc finger protein 468	34	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(3)|kidney(2)|large_intestine(5)|lung(5)|ovary(2)|skin(1)|stomach(3)|urinary_tract(1)	23				GBM - Glioblastoma multiforme(134;0.0358)		GCATCACGTCCCTGTATAAAG	0.473													-|||	6	0.00119808	0.0008	0.0	5008	,	,		18410	0.001		0.004	False		,,,				2504	0.0															0													147	149	148					19																	53352380		2203	4300	6503	SO:0001819	synonymous_variant	90333			AK023558	CCDS33094.1, CCDS62781.1	19q13.41	2013-01-08				ENSG00000204604		"Zinc fingers, C2H2-type", "-"	33105	protein-coding gene	gene with protein product						16144304	Standard	NM_001277120		Approved		uc002qaf.3	Q5VIY5		ENST00000595646.1:c.102G>A	19.37:g.53352380C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MV20|Q5CZB8|Q5VIY4|Q68DI7	Silent	SNP	ENST00000595646.1	37	CCDS33094.1																																																																																				0.473	ZNF468-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463098.1	NM_001008801		T	53352380	C	T	53352380	2	4	674	1	0	0	0	0	0	0	0	1	17940	622	22	2		2	ZNF468	19	53352380	Silent	SNP	C	TCGA-KO-8403-01A-11D-2310-10	1433137	53352380	5776603	53	43438										
ZNF419	79744	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	58004570	58004570	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	gggaaagcctttggtcagaaAtatttacttgttcagcacca	9	8	2	1			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr19:58004570A>C	ENST00000221735.7	+	5	831	c.645A>C	c.(643-645)aaA>aaC	p.K215N	ZNF419_ENST00000347466.6_Missense_Mutation_p.K183N|AC003005.4_ENST00000601674.1_Intron|ZNF419_ENST00000415379.2_Missense_Mutation_p.K169N|ZNF419_ENST00000424930.2_Missense_Mutation_p.K216N|ZNF419_ENST00000426954.2_Missense_Mutation_p.K203N|ZNF419_ENST00000354197.4_Missense_Mutation_p.K203N|ZNF419_ENST00000442920.2_Missense_Mutation_p.K202N			Q96HQ0	ZN419_HUMAN	zinc finger protein 419	215					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(8)|lung(10)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	26		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Breast(46;0.0848)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0252)|Lung(386;0.171)		TTGGTCAGAAATATTTACTTG	0.413																																																0													64	67	66					19																	58004570		2201	4300	6501	SO:0001583	missense	79744			AK026886	CCDS42637.1, CCDS46211.1, CCDS54325.1, CCDS54326.1, CCDS54327.1, CCDS54328.1	19q13.43	2013-01-08	2006-12-15	2006-12-15	ENSG00000105136	ENSG00000105136		"Zinc fingers, C2H2-type", "-"	20648	protein-coding gene	gene with protein product			"zinc finger protein 419A"	ZNF419A			Standard	NM_001098492		Approved		uc010ety.1	Q96HQ0	OTTHUMG00000037073	ENST00000221735.7:c.645A>C	19.37:g.58004570A>C	ENSP00000221735:p.Lys215Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B4DXU7|B4E348|B7ZA41|E9PCP4|E9PED0|E9PET3|E9PFX9|Q9H5P0	Missense_Mutation	SNP	ENST00000221735.7	37	CCDS54326.1	.	.	.	.	.	.	.	.	.	.	A	7.539	0.660263	0.14645	.	.	ENSG00000105136	ENST00000284020;ENST00000424930;ENST00000426954;ENST00000354197;ENST00000442920;ENST00000517598;ENST00000347466;ENST00000415379;ENST00000221735	T;T;T;T;T;T;T	0.54071	0.59;0.59;0.59;0.59;0.59;0.59;0.59	2.36	0.144	0.14824	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.27967	0.0689	N	0.20328	0.56	0.09310	N	1	B;B;B;B;B;B;B	0.15930	0.001;0.006;0.015;0.006;0.002;0.012;0.002	B;B;B;B;B;B;B	0.15484	0.003;0.009;0.013;0.009;0.002;0.013;0.002	T	0.24977	-1.0145	9	0.06757	T	0.87	.	4.4449	0.11593	0.5962:0.1799:0.2239:0.0	.	169;169;202;203;216;183;215	E9PFX9;B4DXU7;E9PCP4;E9PET3;E9PED0;Q96HQ0-2;Q96HQ0	.;.;.;.;.;.;ZN419_HUMAN	N	218;216;203;203;202;216;183;169;215	ENSP00000388864:K216N;ENSP00000390916:K203N;ENSP00000346136:K203N;ENSP00000414709:K202N;ENSP00000299860:K183N;ENSP00000392129:K169N;ENSP00000221735:K215N	ENSP00000221735:K215N	K	+	3	2	ZNF419	62696382	0.000000	0.05858	0.000000	0.03702	0.182000	0.23217	-4.071000	0.00301	-0.233000	0.09797	-1.203000	0.01651	AAA		0.413	ZNF419-006	KNOWN	NAGNAG_splice_site|non_canonical_polymorphism|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000378506.1	NM_024691		C	58004570	A	C	58004570	3	2	674	1	0	0	0	0	1	0	0	0	17908	98	4	5	666	5	ZNF419	19	58004570	Missense_Mutation	SNP	A	TCGA-KO-8403-01A-11D-2310-10	4652190	58004570	1124413	54	43439										
ZNF497	162968	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	58868487	58868487	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ggatgagctgcgagtgcgcgCggaaggccttgccgcactcc	16	13	0	1			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr19:58868487C>T	ENST00000311044.3	-	3	703	c.515G>A	c.(514-516)cGc>cAc	p.R172H	A1BG-AS1_ENST00000594950.1_RNA|A1BG-AS1_ENST00000600379.1_RNA|A1BG-AS1_ENST00000593960.1_RNA|ZNF497_ENST00000425453.3_Missense_Mutation_p.R172H|A1BG-AS1_ENST00000593374.1_RNA|CTD-2619J13.9_ENST00000599952.1_RNA|A1BG-AS1_ENST00000600686.1_RNA|A1BG-AS1_ENST00000595302.1_RNA|CTD-2619J13.8_ENST00000599109.1_RNA	NM_198458.2	NP_940860.2	Q6ZNH5	ZN497_HUMAN	zinc finger protein 497	172					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(2)|lung(3)|skin(2)	7		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0278)		CGAGTGCGCGCGGAAGGCCTT	0.677																																																0													31	26	28					19																	58868487		2203	4299	6502	SO:0001583	missense	162968			AK126727	CCDS12977.1	19q13.43	2013-01-08			ENSG00000174586	ENSG00000174586		"Zinc fingers, C2H2-type"	23714	protein-coding gene	gene with protein product							Standard	NM_198458		Approved	FLJ44773	uc002qsi.2	Q6ZNH5		ENST00000311044.3:c.515G>A	19.37:g.58868487C>T	ENSP00000311183:p.Arg172His	Somatic		WXS	Illumina HiSeq	Phase_I	Q05AG8|Q0VF48|Q6ZTD2|Q9UIA8	Missense_Mutation	SNP	ENST00000311044.3	37	CCDS12977.1	.	.	.	.	.	.	.	.	.	.	C	14.66	2.600356	0.46423	.	.	ENSG00000174586	ENST00000311044;ENST00000425453;ENST00000391697	T;T	0.36157	1.27;1.27	0.813	0.813	0.18749	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.29524	0.0736	L	0.58925	1.835	0.23120	N	0.998262	B	0.30482	0.281	B	0.30179	0.112	T	0.31943	-0.9925	9	0.52906	T	0.07	.	3.0719	0.06234	0.0:0.6841:0.0:0.3159	.	172	Q6ZNH5	ZN497_HUMAN	H	172;172;17	ENSP00000311183:R172H;ENSP00000402815:R172H	ENSP00000311183:R172H	R	-	2	0	ZNF497	63560299	0.000000	0.05858	0.066000	0.19879	0.379000	0.30106	-3.047000	0.00630	0.715000	0.32103	0.205000	0.17691	CGC		0.677	ZNF497-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466942.2	NM_198458		T	58868487	C	T	58868487	3	4	674	1	0	0	0	0	1	0	0	0	17958	768	27	1	985	1	ZNF497	19	58868487	Missense_Mutation	SNP	C	TCGA-KO-8403-01A-11D-2310-10	863917	58868487	260496	55	43440										
SIRPB1	10326	broad.mit.edu	37	chr20	1558987	1558987	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	gcccacgctgtactcaccgcGcacagacagctcagtgcctg	10	17	2	1	rs368470461		TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr20:1558987G>A	ENST00000381605.4	-	2	494	c.430C>T	c.(430-432)Cgc>Tgc	p.R144C	SIRPB1_ENST00000262929.5_Missense_Mutation_p.R143C|RP4-576H24.4_ENST00000564763.1_Missense_Mutation_p.R144C|SIRPB1_ENST00000381603.3_Missense_Mutation_p.R144C	NM_006065.3	NP_006056.2	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1	144					cell surface receptor signaling pathway (GO:0007166)|innate immune response (GO:0045087)|signal transduction (GO:0007165)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)				central_nervous_system(2)|kidney(2)|large_intestine(4)|lung(16)|ovary(1)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)	31						TACTCACCGCGCACAGACAGC	0.552																																																0								G	CYS/ARG,CYS/ARG	0,4392		0,0,2196	122	108	113		430,430	-0.3	0	20		113	1,8469		0,1,4234	no	missense,missense	SIRPB1	NM_001083910.2,NM_006065.3	180,180	0,1,6430	AA,AG,GG		0.0118,0.0,0.0078	possibly-damaging,possibly-damaging	144/182,144/399	1558987	1,12861	2196	4235	6431	SO:0001583	missense	10326			Y10376	CCDS13019.1, CCDS42850.1, CCDS46571.1	20p13	2013-01-11			ENSG00000101307	ENSG00000101307		"Signal-regulatory proteins", "CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C1-set domain containing"	15928	protein-coding gene	gene with protein product		603889				9062191, 16339511	Standard	NM_001083910		Approved	SIRP-BETA-1, CD172b	uc010gai.3	O00241	OTTHUMG00000031676	ENST00000381605.4:c.430C>T	20.37:g.1558987G>A	ENSP00000371018:p.Arg144Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLM2|B2R8V0|Q5TFQ9|Q5TFR0|Q8TB12|Q9H1U5|Q9Y4V0	Missense_Mutation	SNP	ENST00000381605.4	37	CCDS13019.1	.	.	.	.	.	.	.	.	.	.	.	11.45	1.642351	0.29246	0.0	1.18E-4	ENSG00000101307	ENST00000381605;ENST00000381603;ENST00000262929	T;T;T	0.02323	4.34;4.34;4.34	2.36	-0.31	0.12765	Immunoglobulin subtype (1);Immunoglobulin-like fold (1);	1.021760	0.07769	N	0.951360	T	0.06872	0.0175	L	0.49350	1.555	0.09310	N	1	D;D	0.71674	0.998;0.991	P;P	0.56960	0.624;0.81	T	0.40117	-0.9580	10	0.35671	T	0.21	.	6.6051	0.22721	0.0:0.0:0.5263:0.4737	.	144;144	O00241;O00241-2	SIRB1_HUMAN;.	C	144;144;143	ENSP00000371018:R144C;ENSP00000371016:R144C;ENSP00000262929:R143C	ENSP00000262929:R143C	R	-	1	0	SIRPB1	1506987	0.079000	0.21365	0.031000	0.17742	0.058000	0.15608	-0.025000	0.12413	-0.218000	0.10018	-0.521000	0.04368	CGC		0.552	SIRPB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000077555.2	NM_006065		A	1558987	G	A	1558987	3	1	674	1	0	0	0	0	1	0	0	0	14346	1087	38	1	782	1	SIRPB1	20	1558987	Missense_Mutation	SNP	G	TCGA-KO-8403-01A-11D-2310-10		1558987	61466533	56	43441										
SYCP2	10388	bcgsc.ca	37	chr20	58461850	58461850	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	gatttggcttatcaaggattCtgctacattggtaaattctt	8	6	3	0			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr20:58461850C>T	ENST00000357552.3	-	25	2629	c.2404G>A	c.(2404-2406)Gaa>Aaa	p.E802K	SYCP2_ENST00000371001.2_Missense_Mutation_p.E802K			Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	802					female meiotic division (GO:0007143)|fertilization (GO:0009566)|male genitalia morphogenesis (GO:0048808)|male meiosis (GO:0007140)|negative regulation of apoptotic process (GO:0043066)|synaptonemal complex assembly (GO:0007130)	lateral element (GO:0000800)|nucleus (GO:0005634)|synaptonemal complex (GO:0000795)	DNA binding (GO:0003677)			NS(4)|breast(2)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(14)|lung(12)|ovary(4)|prostate(1)|skin(2)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	53	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			ATCAAGGATTCTGCTACATTG	0.279																																																0													101	94	96					20																	58461850		2200	4292	6492	SO:0001583	missense	10388			Y08982	CCDS13482.1	20q13.33	2007-07-02			ENSG00000196074	ENSG00000196074			11490	protein-coding gene	gene with protein product		604105				10341103, 9592139	Standard	NM_014258		Approved	SCP2	uc002yaz.3	Q9BX26	OTTHUMG00000032872	ENST00000357552.3:c.2404G>A	20.37:g.58461850C>T	ENSP00000350162:p.Glu802Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A2RUE5|O75763|Q5JX11|Q9NTX8|Q9UG27	Missense_Mutation	SNP	ENST00000357552.3	37	CCDS13482.1	.	.	.	.	.	.	.	.	.	.	C	10.73	1.431596	0.25813	.	.	ENSG00000196074	ENST00000371001;ENST00000357552;ENST00000446834	T;T;T	0.19394	2.42;2.42;2.15	5.53	4.56	0.56223	.	0.467879	0.21706	N	0.070351	T	0.25680	0.0625	L	0.52364	1.645	0.28960	N	0.889902	P	0.44139	0.827	B	0.44044	0.439	T	0.09228	-1.0684	10	0.72032	D	0.01	-13.1563	13.4061	0.60913	0.0:0.8418:0.1581:0.0	.	802	Q9BX26	SYCP2_HUMAN	K	802	ENSP00000360040:E802K;ENSP00000350162:E802K;ENSP00000402456:E802K	ENSP00000350162:E802K	E	-	1	0	SYCP2	57895245	1.000000	0.71417	1.000000	0.80357	0.173000	0.22820	1.924000	0.40065	1.292000	0.44672	0.591000	0.81541	GAA		0.279	SYCP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079930.3	NM_014258		T	58461850	C	T	58461850	3	4	674	1	0	0	0	0	1	0	0	0	15444	922	32	2	2272	2	SYCP2	20	58461850	Missense_Mutation	SNP	C	TCGA-KO-8403-01A-11D-2310-10	56902863	58461850	4563670	57	43442										
YDJC	150223	hgsc.bcm.edu	37	chr22	21982830	21982830	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	ccatcctgggcaagctgggcCcgcagcgtgggcgcggtgag	18	13	0	1			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr22:21982830C>T	ENST00000292778.6	-	5	898	c.849G>A	c.(847-849)cgG>cgA	p.R283R	YDJC_ENST00000398873.3_3'UTR	NM_001017964.1	NP_001017964.1	A8MPS7	YDJC_HUMAN	YdjC homolog (bacterial)	283					carbohydrate metabolic process (GO:0005975)		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds (GO:0016810)					Colorectal(54;0.105)					CAAGCTGGGCCCGCAGCGTGG	0.692																																																0													35	35	35					22																	21982830		2203	4300	6503	SO:0001819	synonymous_variant	150223				CCDS33613.1	22q11.21	2008-02-26			ENSG00000161179	ENSG00000161179			27158	protein-coding gene	gene with protein product						18177738	Standard	XM_005261347		Approved		uc002zvb.2	A8MPS7	OTTHUMG00000150822	ENST00000292778.6:c.849G>A	22.37:g.21982830C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2YDT4|Q4V9R7	Silent	SNP	ENST00000292778.6	37	CCDS33613.1																																																																																				0.692	YDJC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320213.1			T	21982830	C	T	21982830	2	4	674	1	0	0	0	0	0	0	0	1	17483	610	22	2		2	YDJC	22	21982830	Silent	SNP	C	TCGA-KO-8403-01A-11D-2310-10		21982830	29321736	58	43443										
C22orf28	51493	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr22	32797733	32797733	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	actggaaacgtgtgctcttaCttggcattcattgggatgac	11	8	2	1			TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr22:32797733C>A	ENST00000216038.5	-	5	596		c.e5+1		RTCB_ENST00000451746.2_Intron|RTCB_ENST00000476619.1_Splice_Site	NM_014306.4	NP_055121.1			RNA 2',3'-cyclic phosphate and 5'-OH ligase																		TGTGCTCTTACTTGGCATTCA	0.473																																																0													196	146	163					22																	32797733		2203	4300	6503	SO:0001630	splice_region_variant	51493			BC016707	CCDS13905.1	22q12.3	2013-05-22	2013-05-22	2013-05-22	ENSG00000100220	ENSG00000100220	6.5.1.3		26935	protein-coding gene	gene with protein product	"focal adhesion-associated protein"	613901	"chromosome 22 open reading frame 28"	C22orf28		11042152, 21209330, 21311021	Standard	NM_014306		Approved	HSPC117, FAAP		Q9Y3I0	OTTHUMG00000030300	ENST00000216038.5:c.497+1G>T	22.37:g.32797733C>A		Somatic		WXS	Illumina HiSeq	Phase_I		Splice_Site	SNP	ENST00000216038.5	37	CCDS13905.1	.	.	.	.	.	.	.	.	.	.	C	25.8	4.676466	0.88445	.	.	ENSG00000100220	ENST00000216038	.	.	.	5.63	5.63	0.86233	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	20.0344	0.97551	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	C22orf28	31127733	1.000000	0.71417	1.000000	0.80357	0.962000	0.63368	7.763000	0.85283	2.803000	0.96430	0.650000	0.86243	.		0.473	RTCB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075188.3	NM_014306	Intron	A	32797733	C	A	32797733	5	1	674	1	0	0	0	0	0	0	1	0	2142	579	20	4	1051	4	C22orf28	22	32797733	Splice_Site	SNP	C	TCGA-KO-8403-01A-11D-2310-10	10814903	32797733	18506833	59	43444										
TRIOBP	11078	mdanderson.org	37	chr22	38120429	38120429	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0172413793103448	1	1	0.348029197080292	0	0.378292605522057	1	1	0	cccaatagagccacacgagaTaaccccagaacatcctgtgc	7	15	0	3	rs6000868	byFrequency	TCGA-KO-8403-01A-11D-2310-10	TCGA-KO-8403-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	1072ce9e-3d2b-46e5-bd68-8029383f351b	3fe26d59-6847-4eed-a8d0-6bd2c5ea355b	g.chr22:38120429T>C	ENST00000406386.3	+	7	2121	c.1866T>C	c.(1864-1866)gaT>gaC	p.D622D		NM_001039141.2	NP_001034230.1	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein	622					actin modification (GO:0030047)|barbed-end actin filament capping (GO:0051016)|mitotic nuclear division (GO:0007067)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|nucleus (GO:0005634)	actin filament binding (GO:0051015)|GTP-Rho binding (GO:0017049)|myosin II binding (GO:0045159)|ubiquitin protein ligase binding (GO:0031625)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(3)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	12	Melanoma(58;0.0574)					CCACACGAGATAACCCCAGAA	0.587																																																0													124	138	134					22																	38120429		1941	4148	6089	SO:0001819	synonymous_variant	11078			AB051449	CCDS33644.1, CCDS43015.1, CCDS43016.1	22q13.1	2014-06-03			ENSG00000100106	ENSG00000100106		"Pleckstrin homology (PH) domain containing"	17009	protein-coding gene	gene with protein product		609761		DFNB28		11148140, 16385457, 16385458	Standard	NM_001039141		Approved	HRIHFB2122, KIAA1662, Tara, TAP68	uc003atr.3	Q9H2D6	OTTHUMG00000150657	ENST00000406386.3:c.1866T>C	22.37:g.38120429T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B1AHD4|B1AHD7|F2Z2W0|F8W6V6|O94797|Q2PZW8|Q2Q3Z9|Q2Q400|Q5R3M6|Q96DW1|Q9BT77|Q9BTL7|Q9BY98|Q9Y3L4	Silent	SNP	ENST00000406386.3	37	CCDS43015.1																																																																																				0.587	TRIOBP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000319439.2			C	38120429	T	C	38120429	2	2	674	1	0	0	0	0	0	0	0	1	16565	1403	49	3		3	TRIOBP	22	38120429	Silent	SNP	T	TCGA-KO-8403-01A-11D-2310-10	5322696	38120429	13184137	60	43445										
SCNN1D	6339	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	1223338	1223338	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ggacgaggtgcaccggctcgGgagcccctacggccactgca	15	15	0	0			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr1:1223338G>A	ENST00000338555.2	+	9	2235	c.1091G>A	c.(1090-1092)gGg>gAg	p.G364E	SCNN1D_ENST00000379116.5_Missense_Mutation_p.G528E|SCNN1D_ENST00000325425.8_Missense_Mutation_p.G430E|SCNN1D_ENST00000400928.3_Missense_Mutation_p.G364E			P51172	SCNND_HUMAN	sodium channel, non-voltage-gated 1, delta subunit	364					ion transmembrane transport (GO:0034220)|response to stimulus (GO:0050896)|sensory perception of taste (GO:0050909)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)	actin cytoskeleton (GO:0015629)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ligand-gated sodium channel activity (GO:0015280)			lung(6)|skin(1)	7	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)		Epithelial(90;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;2.46e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.199)	Amiloride(DB00594)|Triamterene(DB00384)	CACCGGCTCGGGAGCCCCTAC	0.706																																																0													6	8	8					1																	1223338		2002	3976	5978	SO:0001583	missense	6339			U38254	CCDS44037.1, CCDS44037.2	1p36.3-p36.2	2012-02-28	2012-02-28		ENSG00000162572	ENSG00000162572		"Ion channels / Sodium channel, nonvoltage-gated", "Sodium channels"	10601	protein-coding gene	gene with protein product		601328	"sodium channel, nonvoltage-gated 1, delta", "sodium channel, non-voltage-gated 1, delta"			8661065	Standard	NM_001130413		Approved	ENaCdelta, dNaCh	uc001adt.1	P51172	OTTHUMG00000002081	ENST00000338555.2:c.1091G>A	1.37:g.1223338G>A	ENSP00000339504:p.Gly364Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1X6|B1PS44|Q08AQ3|Q09HT0|Q5T7L3|Q8NA24	Missense_Mutation	SNP	ENST00000338555.2	37		.	.	.	.	.	.	.	.	.	.	G	14.55	2.568255	0.45798	.	.	ENSG00000162572	ENST00000379110;ENST00000379116;ENST00000338555;ENST00000325425;ENST00000400928	T;T;T;T	0.61627	0.09;0.09;0.09;0.09	3.48	3.48	0.39840	.	0.000000	0.56097	U	0.000028	T	0.73385	0.3580	M	0.72118	2.19	0.29554	N	0.85113	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.996;0.976	T	0.71676	-0.4521	10	0.59425	D	0.04	.	14.3265	0.66523	0.0:0.0:1.0:0.0	.	186;364;528	B1AMF2;P51172;A6NNF7	.;SCNND_HUMAN;.	E	395;528;364;430;364	ENSP00000368411:G528E;ENSP00000339504:G364E;ENSP00000321594:G430E;ENSP00000383717:G364E	ENSP00000321594:G430E	G	+	2	0	SCNN1D	1213201	0.004000	0.15560	0.112000	0.21494	0.079000	0.17450	0.739000	0.26173	1.676000	0.50930	0.313000	0.20887	GGG		0.706	SCNN1D-001	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000005802.2	NM_002978		A	1223338	G	A	1223338	3	1	675	1	0	0	0	0	1	0	0	0	13942	1232	43	2	1323	2	SCNN1D	1	1223338	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10		1223338	248027283	1	43446										
ATAD3C	219293	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr1	1389871	1389871	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gtgcttgaggcgctgcggcaCcccatccaggtagcggcgca	15	14	0	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr1:1389871C>T	ENST00000378785.2	+	4	1364	c.369C>T	c.(367-369)caC>caT	p.H123H		NM_001039211.2	NP_001034300.2	Q5T2N8	ATD3C_HUMAN	ATPase family, AAA domain containing 3C	123							ATP binding (GO:0005524)			autonomic_ganglia(1)|endometrium(1)|kidney(1)|lung(4)	7	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)		CGCTGCGGCACCCCATCCAGG	0.667																																																0													20	33	29					1																	1389871		692	1591	2283	SO:0001819	synonymous_variant	219293			AK091918	CCDS44039.1	1p36.33	2010-04-21		2007-02-08	ENSG00000215915	ENSG00000215915		"ATPases / AAA-type"	32151	protein-coding gene	gene with protein product							Standard	NM_001039211		Approved	FLJ34599	uc001aft.2	Q5T2N8	OTTHUMG00000000531	ENST00000378785.2:c.369C>T	1.37:g.1389871C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N1Z5	Silent	SNP	ENST00000378785.2	37	CCDS44039.1																																																																																				0.667	ATAD3C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000001279.3	NM_001039211		T	1389871	C	T	1389871	2	4	675	1	0	0	0	0	0	0	0	1	1075	506	18	2		2	ATAD3C	1	1389871	Silent	SNP	C	TCGA-KO-8404-01A-11D-2310-10	166533	1389871	247860750	2	43447										
KIAA0562	9731	ucsc.edu	37	chr1	3753225	3753225	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aatgcttacgaatagctggaAgaggccgctcatcgtagggc	13	9	1	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr1:3753225A>G	ENST00000378230.3	-	10	1475	c.1151T>C	c.(1150-1152)cTt>cCt	p.L384P	CEP104_ENST00000460038.1_Intron	NM_014704.3	NP_055519.1	O60308	CE104_HUMAN	centrosomal protein 104kDa	384						centriole (GO:0005814)	glutamate binding (GO:0016595)|glycine binding (GO:0016594)|thienylcyclohexylpiperidine binding (GO:0016596)			breast(2)|cervix(1)|endometrium(9)|kidney(1)|large_intestine(14)|lung(8)|prostate(1)|skin(3)	39						AATAGCTGGAAGAGGCCGCTC	0.562																																																0													72	67	69					1																	3753225		2203	4300	6503	SO:0001583	missense	9731			AB011134	CCDS30571.1	1p36.32	2014-02-20	2011-05-06	2011-05-06	ENSG00000116198	ENSG00000116198			24866	protein-coding gene	gene with protein product	"glycine, glutamate, thienylcyclohexylpiperidine binding protein"		"KIAA0562"	KIAA0562		7488117, 21399614	Standard	NM_014704		Approved	GlyBP, RP1-286D6.4	uc001aky.2	O60308	OTTHUMG00000003507	ENST00000378230.3:c.1151T>C	1.37:g.3753225A>G	ENSP00000367476:p.Leu384Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JSQ3|Q5SR24|Q5SR25|Q6PKF5|Q86W32|Q86X14	Missense_Mutation	SNP	ENST00000378230.3	37	CCDS30571.1	.	.	.	.	.	.	.	.	.	.	A	25.5	4.648087	0.87958	.	.	ENSG00000116198	ENST00000378230;ENST00000443466	T;T	0.59502	1.22;0.26	5.68	5.68	0.88126	.	0.000000	0.64402	D	0.000001	T	0.76793	0.4037	M	0.80616	2.505	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.998;0.999	T	0.78198	-0.2297	10	0.45353	T	0.12	.	15.1098	0.72346	1.0:0.0:0.0:0.0	.	384;384	O60308-3;O60308	.;CE104_HUMAN	P	384;78	ENSP00000367476:L384P;ENSP00000411927:L78P	ENSP00000367476:L384P	L	-	2	0	CEP104	3743085	1.000000	0.71417	0.078000	0.20375	0.323000	0.28346	8.353000	0.90077	2.154000	0.67381	0.528000	0.53228	CTT		0.562	CEP104-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000009747.3	NM_014704		G	3753225	A	G	3753225	3	3	675	1	0	0	0	0	1	0	0	0	8191	72	3	3	1678	3	KIAA0562	1	3753225	Missense_Mutation	SNP	A	TCGA-KO-8404-01A-11D-2310-10	2363354	3753225	245497396	3	43448										
DFFA	1676	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	10527276	10527276	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ctcctctgataggaggatgaTgctggacagatcttctttca	10	9	4	3			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr1:10527276T>C	ENST00000377038.3	-	3	479	c.412A>G	c.(412-414)Atc>Gtc	p.I138V	DFFA_ENST00000377036.2_Missense_Mutation_p.I138V	NM_004401.2	NP_004392.1	O00273	DFFA_HUMAN	DNA fragmentation factor, 45kDa, alpha polypeptide	138					apoptotic DNA fragmentation (GO:0006309)|apoptotic process (GO:0006915)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|negative regulation of apoptotic DNA fragmentation (GO:1902511)|negative regulation of execution phase of apoptosis (GO:1900118)|positive regulation of apoptotic process (GO:0043065)|thymocyte apoptotic process (GO:0070242)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				large_intestine(3)|lung(2)	5	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.19e-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;0.0228)|Colorectal(212;3.25e-07)|COAD - Colon adenocarcinoma(227;7.25e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000296)|Kidney(185;0.00074)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0487)		AGGAGGATGATGCTGGACAGA	0.532																																																0													175	164	168					1																	10527276		2203	4300	6503	SO:0001583	missense	1676			AF087573	CCDS118.1, CCDS119.1	1p36.3-p36.2	2008-07-18	2002-08-29		ENSG00000160049	ENSG00000160049			2772	protein-coding gene	gene with protein product	"DNA fragmentation factor, 45 kD, alpha subunit"	601882	"DNA fragmentation factor, 45 kD, alpha polypeptide"			9605855, 9108473	Standard	NM_004401		Approved	DFF-45, DFF45, ICAD, DFF1	uc001arj.3	O00273	OTTHUMG00000001909	ENST00000377038.3:c.412A>G	1.37:g.10527276T>C	ENSP00000366237:p.Ile138Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6G5|Q5T6G6|Q96I97|Q9Y6C6	Missense_Mutation	SNP	ENST00000377038.3	37	CCDS118.1	.	.	.	.	.	.	.	.	.	.	T	10.02	1.235073	0.22626	.	.	ENSG00000160049	ENST00000377038;ENST00000377036	.	.	.	5.68	4.54	0.55810	DNA fragmentation factor 45kDa, C-terminal (2);	0.000000	0.85682	D	0.000000	T	0.66366	0.2782	M	0.70275	2.135	0.49213	D	0.99976	P;D	0.53745	0.828;0.962	B;P	0.53450	0.333;0.726	T	0.65092	-0.6252	9	0.33940	T	0.23	-14.4087	12.6113	0.56552	0.0:0.0:0.1389:0.8611	.	138;138	O00273-2;O00273	.;DFFA_HUMAN	V	138	.	ENSP00000366235:I138V	I	-	1	0	DFFA	10449863	1.000000	0.71417	1.000000	0.80357	0.119000	0.20118	3.677000	0.54619	0.967000	0.38186	-0.321000	0.08615	ATC		0.532	DFFA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005418.1	NM_004401		C	10527276	T	C	10527276	3	2	675	1	0	0	0	0	1	0	0	0	4454	1464	51	3	623	3	DFFA	1	10527276	Missense_Mutation	SNP	T	TCGA-KO-8404-01A-11D-2310-10	6774051	10527276	238723345	4	43449										
PPT1	5538	broad.mit.edu	37	chr1	40562824	40562825	+	Frame_Shift_Ins	INS	-	-	G													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ccaacggcagcggcgccggcINSgggtccagatgctgcagcgc							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr1:40562824_40562825insG	ENST00000433473.3	-	1	550_551	c.86_87insC	c.(85-87)ccgfs	p.P29fs	PPT1_ENST00000449045.2_Frame_Shift_Ins_p.P29fs	NM_000310.3	NP_000301.1	P50897	PPT1_HUMAN	palmitoyl-protein thioesterase 1	29					adult locomotory behavior (GO:0008344)|associative learning (GO:0008306)|brain development (GO:0007420)|cell death (GO:0008219)|cellular protein catabolic process (GO:0044257)|cofactor metabolic process (GO:0051186)|cofactor transport (GO:0051181)|grooming behavior (GO:0007625)|lipid catabolic process (GO:0016042)|lysosomal lumen acidification (GO:0007042)|membrane raft organization (GO:0031579)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of neuron apoptotic process (GO:0043524)|nervous system development (GO:0007399)|neuron development (GO:0048666)|neurotransmitter secretion (GO:0007269)|pinocytosis (GO:0006907)|positive regulation of pinocytosis (GO:0048549)|positive regulation of receptor-mediated endocytosis (GO:0048260)|protein catabolic process (GO:0030163)|protein depalmitoylation (GO:0002084)|protein transport (GO:0015031)|receptor-mediated endocytosis (GO:0006898)|regulation of phospholipase A2 activity (GO:0032429)|regulation of synapse structure and activity (GO:0050803)|sphingolipid catabolic process (GO:0030149)|visual perception (GO:0007601)	axon (GO:0030424)|cytosol (GO:0005829)|dendrite (GO:0030425)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|lysosome (GO:0005764)|membrane (GO:0016020)|membrane raft (GO:0045121)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|synaptic vesicle (GO:0008021)	palmitoyl-(protein) hydrolase activity (GO:0008474)|palmitoyl-CoA hydrolase activity (GO:0016290)			endometrium(5)|large_intestine(1)|lung(3)|ovary(1)|stomach(1)	11	Lung NSC(20;3.43e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1e-18)|Epithelial(16;3.6e-17)|all cancers(16;1.1e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GCGGCGCCGGCGGGTCCAGATG	0.609																																																0																																										SO:0001589	frameshift_variant	5538			U44772	CCDS447.1, CCDS44119.1	1p32	2014-09-17	2008-07-31		ENSG00000131238	ENSG00000131238	3.1.2.22		9325	protein-coding gene	gene with protein product	"ceroid-lipofuscinosis, neuronal 1, infantile"	600722		PPT		7637805, 8325646	Standard	NM_000310		Approved	CLN1, INCL	uc001cfb.2	P50897	OTTHUMG00000004495	ENST00000433473.3:c.87dupC	1.37:g.40562827_40562827dupG	ENSP00000394863:p.Pro29fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DY24|Q6FGQ4	Frame_Shift_Ins	INS	ENST00000433473.3	37	CCDS447.1																																																																																				0.609	PPT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000013126.2	NM_000310		G	40562825	-	G	40562824	7	5	675	1	0	1	1	0	0	0	0	0	12421	755	27	0	869	0	PPT1	1	40562824	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	30035548	40562824	208687797	5	43450										
SGIP1	84251	mdanderson.org;bcgsc.ca	37	chr1	67154849	67154849	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aggtgcatcatcccctgctcGaccagccactcctttggttc	8	16	1	0	rs542858072	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr1:67154849G>A	ENST00000371037.4	+	16	1411	c.1334G>A	c.(1333-1335)cGa>cAa	p.R445Q	SGIP1_ENST00000371036.3_Missense_Mutation_p.R245Q|SGIP1_ENST00000371035.3_Missense_Mutation_p.R235Q|SGIP1_ENST00000371039.1_Missense_Mutation_p.R246Q|SGIP1_ENST00000237247.6_Missense_Mutation_p.R476Q	NM_032291.2	NP_115667.2	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting protein 1	445	Pro-rich.				endocytosis (GO:0006897)|membrane tubulation (GO:0097320)|positive regulation of energy homeostasis (GO:2000507)|positive regulation of feeding behavior (GO:2000253)|positive regulation of receptor-mediated endocytosis (GO:0048260)|response to dietary excess (GO:0002021)	AP-2 adaptor complex (GO:0030122)|clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	microtubule binding (GO:0008017)|phospholipid binding (GO:0005543)|SH3 domain binding (GO:0017124)			breast(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(6)|lung(43)|ovary(4)|pancreas(1)|prostate(1)|skin(3)|stomach(1)	71						TCCCCTGCTCGACCAGCCACT	0.542																																																0													212	215	214					1																	67154849		2203	4300	6503	SO:0001583	missense	84251			AL136561	CCDS30744.1	1p31.3	2008-02-05			ENSG00000118473	ENSG00000118473			25412	protein-coding gene	gene with protein product		611540				11230166	Standard	NM_032291		Approved	DKFZp761D221	uc001dcr.3	Q9BQI5	OTTHUMG00000009161	ENST00000371037.4:c.1334G>A	1.37:g.67154849G>A	ENSP00000360076:p.Arg445Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NL81|A6NLD1|Q4LE32|Q5VYE2|Q5VYE3|Q5VYE4|Q68D76|Q6MZY6|Q8IWC2	Missense_Mutation	SNP	ENST00000371037.4	37	CCDS30744.1	.	.	.	.	.	.	.	.	.	.	G	26.3	4.727703	0.89390	.	.	ENSG00000118473	ENST00000237247;ENST00000371039;ENST00000371035;ENST00000371038;ENST00000407289;ENST00000371036;ENST00000371037	T;T;T;T;T	0.03272	3.99;3.99;3.99;3.99;3.99	6.17	6.17	0.99709	.	0.125931	0.56097	D	0.000029	T	0.11707	0.0285	M	0.70275	2.135	0.54753	D	0.999989	D;D;D;D	0.76494	0.999;0.994;0.994;0.999	D;D;D;D	0.72625	0.978;0.921;0.921;0.978	T	0.05937	-1.0855	10	0.30078	T	0.28	-10.234	19.6509	0.95805	0.0:0.0:1.0:0.0	.	475;45;235;445	A6NEV3;B3KR01;B7Z5H8;Q9BQI5	.;.;.;SGIP1_HUMAN	Q	476;246;235;475;448;245;445	ENSP00000237247:R476Q;ENSP00000360078:R246Q;ENSP00000360074:R235Q;ENSP00000360075:R245Q;ENSP00000360076:R445Q	ENSP00000237247:R476Q	R	+	2	0	SGIP1	66927437	1.000000	0.71417	1.000000	0.80357	0.353000	0.29299	8.648000	0.91062	2.941000	0.99782	0.655000	0.94253	CGA		0.542	SGIP1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000025395.4	NM_032291		A	67154849	G	A	67154849	3	1	675	1	0	0	0	0	1	0	0	0	14219	1058	37	1	1396	1	SGIP1	1	67154849	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	26592025	67154849	182095772	6	43451										
ST6GALNAC5	81849	broad.mit.edu	37	chr1	77334277	77334279	+	In_Frame_Del	DEL	GCA	GCA	-													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ggccagaaggagcggcccccGcagcagcagcagcagcagca					rs113832855|rs373434974		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	GCA	GCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr1:77334277_77334279delGCA	ENST00000477717.1	+	2	346_348	c.111_113delGCA	c.(109-114)ccgcag>ccg	p.Q49del	ST6GALNAC5_ENST00000496845.1_3'UTR	NM_030965.1	NP_112227.1	Q9BVH7	SIA7E_HUMAN	ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 5	49	Poly-Gln.				glycosphingolipid biosynthetic process (GO:0006688)|oligosaccharide biosynthetic process (GO:0009312)|protein glycosylation (GO:0006486)|sialylation (GO:0097503)	integral component of Golgi membrane (GO:0030173)	alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity (GO:0001665)|sialyltransferase activity (GO:0008373)			endometrium(2)|kidney(1)|large_intestine(6)|lung(5)|pancreas(2)|skin(1)|upper_aerodigestive_tract(1)	18						AGCGGCCCCCgcagcagcagcag	0.7																																																0										633,280,2837		87,67,392,25,163,1141						-1.1	1		dbSNP_132	16	606,89,6499		39,5,523,5,74,2951	no	codingComplex	ST6GALNAC5	NM_030965.1		126,72,915,30,237,4092	A1A1,A1A2,A1R,A2A2,A2R,RR		9.6608,24.3467,14.693				1239,369,9336				SO:0001651	inframe_deletion	81849				CCDS673.1	1p31.1	2013-03-01	2005-02-07	2005-02-07	ENSG00000117069	ENSG00000117069		"Sialyltransferases"	19342	protein-coding gene	gene with protein product		610134	"sialyltransferase 7 ((alpha-N-acetylneuraminyl-2,3-beta-galactosyl-1,3)-N-acetyl galactosaminide alpha-2,6-sialyltransferase) E"	SIAT7E		10521438, 10601645	Standard	NM_030965		Approved	MGC3184, ST6GalNAcV	uc001dhi.3	Q9BVH7	OTTHUMG00000009687	ENST00000477717.1:c.111_113delGCA	1.37:g.77334286_77334288delGCA	ENSP00000417583:p.Gln49del	Somatic		WXS	Illumina HiSeq	Phase_I	B1AK82	In_Frame_Del	DEL	ENST00000477717.1	37	CCDS673.1																																																																																				0.7	ST6GALNAC5-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026692.2	NM_030965		-	77334279	GCA	-	77334277	7	5	675	1	0	1	0	1	0	0	0	0	15239	1074	38	0	117	0	ST6GALNAC5	1	77334277	In_Frame_Del	DEL	GCA	TCGA-KO-8404-01A-11D-2310-10	10179428	77334277	171916344	7	43452										
ARHGAP29	9411	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	94639723	94639723	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gtggtttataaaatgttgtcCaatgttgaggctgcagtgtt	12	4	0	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr1:94639723C>T	ENST00000260526.6	-	23	3670	c.3488G>A	c.(3487-3489)tGg>tAg	p.W1163*	ARHGAP29_ENST00000482481.1_5'Flank	NM_004815.3	NP_004806.3	Q52LW3	RHG29_HUMAN	Rho GTPase activating protein 29	1163					positive regulation of Rho GTPase activity (GO:0032321)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	metal ion binding (GO:0046872)|PDZ domain binding (GO:0030165)|Rho GTPase activator activity (GO:0005100)			NS(1)|breast(5)|endometrium(6)|kidney(2)|large_intestine(9)|lung(19)|ovary(1)|skin(8)|upper_aerodigestive_tract(1)|urinary_tract(2)	54		all_lung(203;0.000732)|Lung NSC(277;0.00328)		all cancers(265;0.0187)|Epithelial(280;0.159)		AAATGTTGTCCAATGTTGAGG	0.532																																																0													92	80	84					1																	94639723		2203	4300	6503	SO:0001587	stop_gained	9411				CCDS748.1	1p22.1	2011-06-29			ENSG00000137962	ENSG00000137962		"Rho GTPase activating proteins"	30207	protein-coding gene	gene with protein product		610496				9305890	Standard	NM_004815		Approved	PARG1	uc001dqj.4	Q52LW3	OTTHUMG00000010643	ENST00000260526.6:c.3488G>A	1.37:g.94639723C>T	ENSP00000260526:p.Trp1163*	Somatic		WXS	Illumina HiSeq	Phase_I	O15463|Q59H86|Q5VYZ0|Q6NVX2|Q8TBI6	Nonsense_Mutation	SNP	ENST00000260526.6	37	CCDS748.1	.	.	.	.	.	.	.	.	.	.	C	43	10.147914	0.99346	.	.	ENSG00000137962	ENST00000260526	.	.	.	5.49	5.49	0.81192	.	0.000000	0.36002	N	0.002860	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-3.1193	19.3644	0.94456	0.0:1.0:0.0:0.0	.	.	.	.	X	1163	.	ENSP00000260526:W1163X	W	-	2	0	ARHGAP29	94412311	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	6.573000	0.74009	2.596000	0.87737	0.591000	0.81541	TGG		0.532	ARHGAP29-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029376.2	NM_004815		T	94639723	C	T	94639723	4	4	675	1	0	0	0	0	0	1	0	0	878	595	21	2	301	2	ARHGAP29	1	94639723	Nonsense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	17305446	94639723	154610898	8	43453										
IGSF3	3321	mdanderson.org	37	chr1	117158748	117158748	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ctcccaaagtattgcttatcAgtgctgggtgtgtggcattc	11	9	1	0	rs199696016		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr1:117158748A>G	ENST00000369486.3	-	3	1140	c.375T>C	c.(373-375)acT>acC	p.T125T	IGSF3_ENST00000318837.6_Silent_p.T125T|IGSF3_ENST00000369483.1_Silent_p.T125T	NM_001007237.1	NP_001007238.1	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3	125	Ig-like C2-type 1.				lacrimal gland development (GO:0032808)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)		p.T125T(2)		NS(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|liver(1)|lung(31)|ovary(4)|prostate(1)|skin(4)|upper_aerodigestive_tract(2)	62	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		ATTGCTTATCAGTGCTGGGTG	0.498																																																2	Substitution - coding silent(2)	endometrium(2)											62	56	58					1																	117158748		2203	4300	6503	SO:0001819	synonymous_variant	3321			AF031174	CCDS30813.1, CCDS30814.1	1p13	2013-01-29			ENSG00000143061	ENSG00000143061		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5950	protein-coding gene	gene with protein product		603491				9790749	Standard	NM_001007237		Approved	V8, EWI-3, MGC117164	uc031pnr.1	O75054	OTTHUMG00000022751	ENST00000369486.3:c.375T>C	1.37:g.117158748A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NJZ6|A6NMC7	Silent	SNP	ENST00000369486.3	37	CCDS30813.1																																																																																				0.498	IGSF3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000059040.1	NM_001542		G	117158748	A	G	117158748	2	3	675	1	0	0	0	0	0	0	0	1	7608	175	7	3		3	IGSF3	1	117158748	Silent	SNP	A	TCGA-KO-8404-01A-11D-2310-10	22519025	117158748	132091873	9	43454										
NBPF10	100132406	mdanderson.org	37	chr1	145302775	145302775	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tccaggccctcctcactccgTatgagccggacaagtcccag	9	17	1	1	rs376014420		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr1:145302775T>G	ENST00000369339.3	+	5	653	c.400T>G	c.(400-402)Tat>Gat	p.Y134D	NBPF10_ENST00000369338.1_Missense_Mutation_p.Y134D|RP11-458D21.5_ENST00000468030.1_3'UTR|NBPF10_ENST00000342960.5_Missense_Mutation_p.Y405D			Q6P3W6	NBPFA_HUMAN	neuroblastoma breakpoint family, member 10	405						cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(3)|breast(1)|central_nervous_system(3)|endometrium(12)|kidney(23)|lung(15)|ovary(1)|prostate(7)|skin(6)|urinary_tract(2)	73	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		CCTCACTCCGTATGAGCCGGA	0.577																																																0																																										SO:0001583	missense	100132406			BC021111		1q21.1	2013-01-17			ENSG00000163386	ENSG00000271425		"neuroblastoma breakpoint family"	31992	protein-coding gene	gene with protein product		614000				16079250	Standard	NM_001039703		Approved	AG1		Q6P3W6	OTTHUMG00000013757	ENST00000369339.3:c.400T>G	1.37:g.145302775T>G	ENSP00000358345:p.Tyr134Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5RHC0|Q9NWN6	Missense_Mutation	SNP	ENST00000369339.3	37		.	.	.	.	.	.	.	.	.	.	.	0	-2.664813	0.00107	.	.	ENSG00000163386	ENST00000448873;ENST00000369338;ENST00000369334;ENST00000342960	T;T	0.46063	0.88;4.33	0.712	-0.91	0.10511	.	.	.	.	.	T	0.03390	0.0098	.	.	.	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.33189	-0.9878	7	0.02654	T	1	.	.	.	.	.	134	A8MQ30	.	D	330;134;134;405	ENSP00000358344:Y134D;ENSP00000345684:Y405D	ENSP00000345684:Y405D	Y	+	1	0	NBPF10	144014132	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.464000	0.06688	-1.158000	0.02811	-1.371000	0.01190	TAT		0.577	NBPF10-001	KNOWN	not_best_in_genome_evidence|basic	protein_coding	protein_coding	OTTHUMT00000038550.3	NM_001039703		G	145302775	T	G	145302775	3	3	675	1	0	0	0	0	1	0	0	0	10200	1638	57	5	1243	5	NBPF10	1	145302775	Missense_Mutation	SNP	T	TCGA-KO-8404-01A-11D-2310-10	28144027	145302775	103947846	10	43455										
APH1A	51107	broad.mit.edu;mdanderson.org	37	chr1	150240152	150240152	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gatggagatgggtgatcttcCgtcctcactcagcgatgcta	12	10	3	2			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr1:150240152C>T	ENST00000369109.3	-	3	510	c.322G>A	c.(322-324)Gga>Aga	p.G108R	APH1A_ENST00000414276.2_Intron|C1orf54_ENST00000369102.1_5'Flank|APH1A_ENST00000461320.1_5'UTR|APH1A_ENST00000360244.4_Missense_Mutation_p.G108R	NM_001077628.2	NP_001071096.1	Q96BI3	APH1A_HUMAN	APH1A gamma secretase subunit	108					amyloid precursor protein catabolic process (GO:0042987)|apoptotic signaling pathway (GO:0097190)|membrane protein ectodomain proteolysis (GO:0006509)|membrane protein intracellular domain proteolysis (GO:0031293)|metanephros development (GO:0001656)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch receptor processing (GO:0007220)|Notch signaling pathway (GO:0007219)|positive regulation of apoptotic process (GO:0043065)|positive regulation of catalytic activity (GO:0043085)|protein processing (GO:0016485)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	endopeptidase activity (GO:0004175)			breast(1)|lung(4)|ovary(1)|skin(1)|urinary_tract(2)	9	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			GGTGATCTTCCGTCCTCACTC	0.592																																																0													43	48	46					1																	150240152		1978	4159	6137	SO:0001583	missense	51107			AF151835	CCDS41390.1, CCDS41391.1, CCDS58025.1	1q21.2	2013-05-01	2013-05-01		ENSG00000117362	ENSG00000117362			29509	protein-coding gene	gene with protein product		607629	"anterior pharynx defective 1 homolog A (C. elegans)"			10810093, 12110170	Standard	NM_001077628		Approved	APH-1A, CGI-78	uc001ety.2	Q96BI3	OTTHUMG00000012545	ENST00000369109.3:c.322G>A	1.37:g.150240152C>T	ENSP00000358105:p.Gly108Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DQK0|Q5TB22|Q5TB23|Q969R6|Q9BVG0|Q9Y386	Missense_Mutation	SNP	ENST00000369109.3	37	CCDS41390.1	.	.	.	.	.	.	.	.	.	.	C	16.39	3.109966	0.56398	.	.	ENSG00000117362	ENST00000369109;ENST00000360244;ENST00000236017	T;T;T	0.42513	0.97;0.97;0.97	4.98	4.98	0.66077	.	0.066696	0.64402	D	0.000012	T	0.43634	0.1256	L	0.59436	1.845	0.80722	D	1	D;P;P;D	0.71674	0.998;0.873;0.896;0.994	P;B;P;P	0.59056	0.851;0.386;0.52;0.826	T	0.15636	-1.0430	10	0.18276	T	0.48	-2.8055	15.7897	0.78345	0.0:1.0:0.0:0.0	.	51;108;108;108	B4DUG7;Q96BI3-2;Q5TB22;Q96BI3	.;.;.;APH1A_HUMAN	R	108;108;51	ENSP00000358105:G108R;ENSP00000353380:G108R;ENSP00000236017:G51R	ENSP00000236017:G51R	G	-	1	0	APH1A	148506776	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.320000	0.79064	2.583000	0.87209	0.491000	0.48974	GGA		0.592	APH1A-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000035048.1	NM_016022		T	150240152	C	T	150240152	3	4	675	1	0	0	0	0	1	0	0	0	771	661	23	1	506	1	APH1A	1	150240152	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	4937377	150240152	99010469	11	43456										
HRNR	388697	mdanderson.org	37	chr1	152192163	152192163	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	agagccctgttggccatagcGagaagactgacttgagccag	13	10	0	5	rs61814943		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr1:152192163G>T	ENST00000368801.2	-	3	2017	c.1942C>A	c.(1942-1944)Cgc>Agc	p.R648S	FLG-AS1_ENST00000593011.1_RNA|FLG-AS1_ENST00000420707.1_RNA	NM_001009931.1	NP_001009931.1	Q86YZ3	HORN_HUMAN	hornerin	648					establishment of skin barrier (GO:0061436)|hematopoietic progenitor cell differentiation (GO:0002244)|keratinization (GO:0031424)	cornified envelope (GO:0001533)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)			autonomic_ganglia(1)|breast(6)|central_nervous_system(2)|cervix(2)|endometrium(22)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(19)|liver(1)|lung(84)|ovary(5)|prostate(6)|skin(12)|stomach(9)|upper_aerodigestive_tract(5)|urinary_tract(6)	192	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGGCCATAGCGAGAAGACTGA	0.577																																																0													210	213	212					1																	152192163		2203	4300	6503	SO:0001583	missense	388697			AB104446	CCDS30859.1	1q21.3	2013-01-10			ENSG00000197915	ENSG00000197915		"EF-hand domain containing"	20846	protein-coding gene	gene with protein product	"filaggrin family member 3"						Standard	NM_001009931		Approved	S100a18, S100A16, FLG3	uc001ezt.2	Q86YZ3	OTTHUMG00000012243	ENST00000368801.2:c.1942C>A	1.37:g.152192163G>T	ENSP00000357791:p.Arg648Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5DT20|Q5U1F4	Missense_Mutation	SNP	ENST00000368801.2	37	CCDS30859.1	.	.	.	.	.	.	.	.	.	.	-	8.020	0.759338	0.15846	.	.	ENSG00000197915	ENST00000368801	T	0.03717	3.83	3.86	-7.73	0.01245	.	.	.	.	.	T	0.00271	0.0008	N	0.01352	-0.895	0.09310	N	1	B	0.10296	0.003	B	0.04013	0.001	T	0.48163	-0.9059	9	0.02654	T	1	.	7.1181	0.25429	0.0:0.4064:0.3856:0.2081	rs61814943	648	Q86YZ3	HORN_HUMAN	S	648	ENSP00000357791:R648S	ENSP00000357791:R648S	R	-	1	0	HRNR	150458787	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-3.911000	0.00336	-1.297000	0.02351	-0.866000	0.03004	CGC		0.577	HRNR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034016.1	XM_373868		T	152192163	G	T	152192163	3	4	675	1	0	0	0	0	1	0	0	0	7366	1058	37	4	6614	4	HRNR	1	152192163	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	1952011	152192163	97058458	12	43457										
DNM3	26052	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr1	172037991	172037991	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cccagactctgcgaggaaacGgaaaggattgttgctaacca	11	10	1	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr1:172037991G>A	ENST00000355305.5	+	11	1525	c.1368G>A	c.(1366-1368)acG>acA	p.T456T	DNM3_ENST00000367731.1_Silent_p.T456T|DNM3_ENST00000520906.1_Silent_p.T456T|DNM3_ENST00000367733.2_Silent_p.T456T|DNM3_ENST00000358155.4_Silent_p.T456T			Q9UQ16	DYN3_HUMAN	dynamin 3	456					endocytosis (GO:0006897)|filopodium assembly (GO:0046847)|GTP catabolic process (GO:0006184)|synapse assembly (GO:0007416)	dendritic spine (GO:0043197)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|mitochondrion (GO:0005739)|perinuclear region of cytoplasm (GO:0048471)|postsynaptic density (GO:0014069)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			NS(1)|breast(3)|endometrium(1)|kidney(1)|large_intestine(9)|lung(16)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	37						GCGAGGAAACGGAAAGGATTG	0.468																																																0													47	43	44					1																	172037991		1883	4101	5984	SO:0001819	synonymous_variant	26052			AL136712	CCDS44276.1, CCDS60356.1	1q24.1	2013-01-10			ENSG00000197959	ENSG00000197959		"Pleckstrin homology (PH) domain containing"	29125	protein-coding gene	gene with protein product	"Dyna III"	611445				10048485	Standard	NM_015569		Approved	KIAA0820	uc001gie.4	Q9UQ16	OTTHUMG00000034913	ENST00000355305.5:c.1368G>A	1.37:g.172037991G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1Y1|O14982|O95555|Q1MTM8|Q5W129|Q6P2G1|Q9H0P3|Q9H548|Q9NQ68|Q9NQN6	Silent	SNP	ENST00000355305.5	37																																																																																					0.468	DNM3-003	NOVEL	not_organism_supported|basic	protein_coding	protein_coding	OTTHUMT00000084531.1	NM_015569		A	172037991	G	A	172037991	2	1	675	1	0	0	0	0	0	0	0	1	4675	1103	39	1		1	DNM3	1	172037991	Silent	SNP	G	TCGA-KO-8404-01A-11D-2310-10	19845828	172037991	77212630	13	43458										
C1orf25	81627	broad.mit.edu	37	chr1	185119607	185119608	+	Frame_Shift_Ins	INS	-	-	A													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ttttccttagggcacaatggINSacaagcctgtctgttgcctt							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr1:185119607_185119608insA	ENST00000367506.5	-	3	631_632	c.363_364insT	c.(361-366)tgtccafs	p.P122fs	TRMT1L_ENST00000367504.3_5'UTR	NM_001202423.1|NM_030934.4	NP_001189352.1|NP_112196.3	Q7Z2T5	TRM1L_HUMAN	tRNA methyltransferase 1 homolog (S. cerevisiae)-like	122					adult locomotory behavior (GO:0008344)		metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|tRNA (guanine-N2-)-methyltransferase activity (GO:0004809)|tRNA binding (GO:0000049)			NS(1)|breast(1)|endometrium(3)|kidney(2)|large_intestine(2)|lung(8)|ovary(1)|pancreas(1)|skin(1)|urinary_tract(1)	21						GGGCACAATGGACAAGCCTGTC	0.376																																																0																																										SO:0001589	frameshift_variant	81627			AF288399	CCDS1366.1	1q25.2	2012-06-29	2012-06-29	2011-01-24	ENSG00000121486	ENSG00000121486			16782	protein-coding gene	gene with protein product	"TRM1-like"	611673	"chromosome 1 open reading frame 25", "TRM1 tRNA methyltransferase 1-like"	C1orf25		11318611, 17198746	Standard	NM_030934		Approved		uc001grf.4	Q7Z2T5	OTTHUMG00000035389	ENST00000367506.5:c.364dupT	1.37:g.185119608_185119608dupA	ENSP00000356476:p.Pro122fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TEN0|Q6ZMX0|Q8IWH5|Q8NC68|Q9BZQ1	Frame_Shift_Ins	INS	ENST00000367506.5	37	CCDS1366.1																																																																																				0.376	TRMT1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085787.1	NM_030934		A	185119608	-	A	185119607	7	5	675	1	0	1	1	0	0	0	0	0	2036	1174	41	0	1889	0	C1orf25	1	185119607	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	13081616	185119607	64131014	14	43459										
ABCG8	64241	broad.mit.edu	37	chr2	44102406	44102407	+	Frame_Shift_Ins	INS	-	-	G													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cacttcctgctggtgtggctINSggtggtcttctgttgcagga							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr2:44102406_44102407insG	ENST00000272286.2	+	11	1700_1701	c.1610_1611insG	c.(1609-1614)ctggtgfs	p.V538fs		NM_022437.2	NP_071882.1	Q9H221	ABCG8_HUMAN	ATP-binding cassette, sub-family G (WHITE), member 8	538	ABC transmembrane type-2.				ATP catabolic process (GO:0006200)|cholesterol efflux (GO:0033344)|cholesterol homeostasis (GO:0042632)|excretion (GO:0007588)|intestinal cholesterol absorption (GO:0030299)|negative regulation of intestinal cholesterol absorption (GO:0045796)|negative regulation of intestinal phytosterol absorption (GO:0010949)|phospholipid transport (GO:0015914)|response to drug (GO:0042493)|response to nutrient (GO:0007584)|small molecule metabolic process (GO:0044281)|sterol transport (GO:0015918)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|protein heterodimerization activity (GO:0046982)|sterol transporter activity (GO:0015248)			NS(1)|breast(2)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(5)|lung(21)|ovary(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	45		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)			Ezetimibe(DB00973)	CTGGTGTGGCTGGTGGTCTTCT	0.609																																																0																																										SO:0001589	frameshift_variant	64241			AF320294	CCDS1815.1	2p21	2012-03-14	2008-07-31		ENSG00000143921	ENSG00000143921		"ATP binding cassette transporters / subfamily G"	13887	protein-coding gene	gene with protein product	"gallbladder disease 4", "sterolin 2"	605460	"ATP-binding cassette, sub-family G (WHITE), member 8 (sterolin 2)"			11099417, 17626266	Standard	NM_022437		Approved	GBD4	uc002rtq.3	Q9H221	OTTHUMG00000128756	ENST00000272286.2:c.1612dupG	2.37:g.44102408_44102408dupG	ENSP00000272286:p.Val538fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q53QN8	Frame_Shift_Ins	INS	ENST00000272286.2	37	CCDS1815.1																																																																																				0.609	ABCG8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250671.1	NM_022437		G	44102407	-	G	44102406	7	5	675	1	0	1	1	0	0	0	0	0	72	1580	55	0	1652	0	ABCG8	2	44102406	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10		44102406	199096967	15	43460										
LRPPRC	10128	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	44139675	44139675	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	acaatgttttgctcttttgcAttcaggaaaatatcatatgc	6	7	3	0			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr2:44139675A>T	ENST00000260665.7	-	30	3228	c.3171T>A	c.(3169-3171)aaT>aaA	p.N1057K		NM_133259.3	NP_573566.2	P42704	LPPRC_HUMAN	leucine-rich pentatricopeptide repeat containing	1057					mitochondrion transport along microtubule (GO:0047497)|mRNA transport (GO:0051028)|negative regulation of mitochondrial RNA catabolic process (GO:0000961)|regulation of mitochondrial translation (GO:0070129)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	condensed nuclear chromosome (GO:0000794)|cytoskeleton (GO:0005856)|membrane (GO:0016020)|microtubule (GO:0005874)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|ribonucleoprotein complex (GO:0030529)	beta-tubulin binding (GO:0048487)|microtubule binding (GO:0008017)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|single-stranded DNA binding (GO:0003697)			breast(3)|endometrium(3)|kidney(5)|large_intestine(9)|lung(15)|ovary(2)|prostate(2)|skin(2)	41		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				GCTCTTTTGCATTCAGGAAAA	0.323																																																0													92	87	89					2																	44139675		2201	4297	6498	SO:0001583	missense	10128			M92439	CCDS33189.1	2p21	2012-02-24	2012-02-24		ENSG00000138095	ENSG00000138095			15714	protein-coding gene	gene with protein product		607544	"Leigh syndrome, French-Canadian type (cytochrome oxidase deficiency)"	LSFC		8012652, 8619474, 22045337	Standard	NM_133259		Approved	GP130, LRP130	uc002rtr.2	P42704	OTTHUMG00000152782	ENST00000260665.7:c.3171T>A	2.37:g.44139675A>T	ENSP00000260665:p.Asn1057Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJE3|A8K1V1|Q53PC0|Q53QN7|Q6ZUD8|Q7Z7A6|Q96D84	Missense_Mutation	SNP	ENST00000260665.7	37	CCDS33189.1	.	.	.	.	.	.	.	.	.	.	A	0.088	-1.172635	0.01646	.	.	ENSG00000138095	ENST00000465633;ENST00000260665	T	0.51325	0.71	5.78	3.09	0.35607	.	0.569792	0.20057	N	0.100168	T	0.11153	0.0272	N	0.00197	-1.87	0.80722	D	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.04495	-1.0947	10	0.15952	T	0.53	-6.7877	5.055	0.14527	0.2744:0.1053:0.0:0.6202	.	957;1057	F5H4J6;P42704	.;LPPRC_HUMAN	K	957;1057	ENSP00000260665:N1057K	ENSP00000260665:N1057K	N	-	3	2	LRPPRC	43993179	0.984000	0.35163	0.998000	0.56505	0.366000	0.29705	0.007000	0.13174	1.012000	0.39366	-0.275000	0.10095	AAT		0.323	LRPPRC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327823.1	NM_133259		T	44139675	A	T	44139675	3	4	675	1	0	0	0	0	1	0	0	0	8972	214	8	5	1049	5	LRPPRC	2	44139675	Missense_Mutation	SNP	A	TCGA-KO-8404-01A-11D-2310-10	37269	44139675	199059698	16	43461										
ANKRD36B	0	broad.mit.edu	37	chr2	98129746	98129746	+	IGR	DEL	G	G	-													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ctatcctatattgctcttctGttattcttaacttttcccta							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr2:98129746delG								AC159540.1 (38697 upstream) : ANKRD36B (34281 downstream)																							TTGCTCTTCTGTTATTCTTAA	0.333																																																0													62	71	68					2																	98129746		1811	4072	5883	SO:0001628	intergenic_variant	57730																															2.37:g.98129746delG		Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL		37																																																																																				0	0.333									-	98129746	G	-	98129746	6	5	675	0	1	1	0	1	0	0	0	0	666	1377	48	0		0	ANKRD36B	2	98129746	IGR	DEL	G	TCGA-KO-8404-01A-11D-2310-10	53990071	98129746	145069627	17	43462										
IL1RL1	9173	broad.mit.edu	37	chr2	102959759	102959760	+	Frame_Shift_Ins	INS	-	-	G													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gggctggcttgtctagacatINSggttttaagaatagctgacg							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr2:102959759_102959760insG	ENST00000233954.1	+	8	1125_1126	c.854_855insG	c.(853-858)atggttfs	p.V286fs	IL1RL1_ENST00000404917.2_Frame_Shift_Ins_p.V169fs|IL1RL1_ENST00000409584.1_Frame_Shift_Ins_p.V272fs|IL1RL1_ENST00000311734.2_Frame_Shift_Ins_p.V286fs	NM_016232.4	NP_057316.3	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1	286	Ig-like C2-type 3.				immune response (GO:0006955)|intracellular signal transduction (GO:0035556)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of interferon-gamma production (GO:0032689)|negative regulation of T-helper 1 type immune response (GO:0002826)|positive regulation of chemokine secretion (GO:0090197)|positive regulation of inflammatory response (GO:0050729)|positive regulation of interleukin-5 production (GO:0032754)|positive regulation of macrophage activation (GO:0043032)|signal transduction (GO:0007165)	external side of plasma membrane (GO:0009897)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)	cytokine receptor activity (GO:0004896)|interleukin-1 receptor activity (GO:0004908)|interleukin-33 receptor activity (GO:0002114)|receptor signaling protein activity (GO:0005057)			NS(1)|central_nervous_system(1)|kidney(1)|large_intestine(3)|lung(5)|ovary(1)|skin(3)|urinary_tract(1)	16						TGTCTAGACATGGTTTTAAGAA	0.455																																																0																																										SO:0001589	frameshift_variant	9173			D12764	CCDS2057.1, CCDS2058.1, CCDS74548.1	2q12	2013-01-29			ENSG00000115602	ENSG00000115602		"Interleukins and interleukin receptors", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5998	protein-coding gene	gene with protein product	"homolog of mouse growth stimulation-expressed"	601203				1482686, 10191101, 16286016	Standard	NM_016232		Approved	ST2, FIT-1, ST2L, ST2V, DER4, T1, IL33R	uc002tbu.1	Q01638	OTTHUMG00000130782	ENST00000233954.1:c.856dupG	2.37:g.102959761_102959761dupG	ENSP00000233954:p.Val286fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6B3|B4E0I3|Q53TU7|Q8NEJ3|Q9ULV7|Q9UQ44	Frame_Shift_Ins	INS	ENST00000233954.1	37	CCDS2057.1																																																																																				0.455	IL1RL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253296.1	NM_016232		G	102959760	-	G	102959759	7	5	675	1	0	1	1	0	0	0	0	0	7670	1464	51	0	880	0	IL1RL1	2	102959759	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	4830013	102959759	140239614	18	43463										
RGPD4	285190	broad.mit.edu	37	chr2	108487353	108487354	+	Frame_Shift_Ins	INS	-	-	A													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ccgtggtgtgatttttggccINSaaacaagtagcacttttaca							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr2:108487353_108487354insA	ENST00000408999.3	+	20	2970_2971	c.2893_2894insA	c.(2893-2895)caafs	p.Q965fs	RGPD4_ENST00000354986.4_Frame_Shift_Ins_p.Q965fs	NM_182588.2	NP_872394.2	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	965					protein targeting to Golgi (GO:0000042)					breast(1)|endometrium(7)|kidney(4)|lung(23)|pancreas(1)|prostate(1)|skin(3)|urinary_tract(3)	43						GATTTTTGGCCAAACAAGTAGC	0.401																																																0																																										SO:0001589	frameshift_variant	285190			BX537861	CCDS46381.1	2q12.3	2013-01-10			ENSG00000196862	ENSG00000196862		"Tetratricopeptide (TTC) repeat domain containing"	32417	protein-coding gene	gene with protein product		612707				15710750, 15815621	Standard	NM_182588		Approved	RGP4, DKFZp686P0288	uc010ywk.2	Q7Z3J3	OTTHUMG00000153208	ENST00000408999.3:c.2896dupA	2.37:g.108487356_108487356dupA	ENSP00000386810:p.Gln965fs	Somatic		WXS	Illumina HiSeq	Phase_I	B9A029	Frame_Shift_Ins	INS	ENST00000408999.3	37	CCDS46381.1																																																																																				0.401	RGPD4-001	NOVEL	not_best_in_genome_evidence|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000330096.2	XM_496581		A	108487354	-	A	108487353	7	5	675	1	0	1	1	0	0	0	0	0	13301	595	21	0	2971	0	RGPD4	2	108487353	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	5527594	108487353	134712020	19	43464										
AOX1	316	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr2	201462175	201462175	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gttctctgtatggtgctgccGtcaccacagtagaaggcata	11	10	2	1	rs200659056		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr2:201462175G>A	ENST00000374700.2	+	4	497	c.256G>A	c.(256-258)Gtc>Atc	p.V86I		NM_001159.3	NP_001150.3	Q06278	AOXA_HUMAN	aldehyde oxidase 1	86	2Fe-2S ferredoxin-type. {ECO:0000255|PROSITE-ProRule:PRU00465}.				inflammatory response (GO:0006954)|reactive oxygen species metabolic process (GO:0072593)|small molecule metabolic process (GO:0044281)|vitamin B6 metabolic process (GO:0042816)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	2 iron, 2 sulfur cluster binding (GO:0051537)|aldehyde oxidase activity (GO:0004031)|electron carrier activity (GO:0009055)|flavin adenine dinucleotide binding (GO:0050660)|iron ion binding (GO:0005506)|molybdopterin cofactor binding (GO:0043546)|NAD binding (GO:0051287)|UDP-N-acetylmuramate dehydrogenase activity (GO:0008762)|xanthine dehydrogenase activity (GO:0004854)			breast(5)|endometrium(3)|kidney(4)|large_intestine(13)|lung(38)|ovary(5)|pancreas(1)|prostate(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(3)	81					Allopurinol(DB00437)|Aminocaproic Acid(DB00513)|Brimonidine(DB00484)|Famciclovir(DB00426)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|Pyrazinamide(DB00339)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	TGGTGCTGCCGTCACCACAGT	0.458																																																0													142	120	128					2																	201462175		2203	4300	6503	SO:0001583	missense	316			AF017060	CCDS33360.1	2q33	2008-05-20			ENSG00000138356	ENSG00000138356			553	protein-coding gene	gene with protein product		602841				7570184	Standard	NM_001159		Approved	AO, AOH1	uc002uvx.3	Q06278	OTTHUMG00000154536	ENST00000374700.2:c.256G>A	2.37:g.201462175G>A	ENSP00000363832:p.Val86Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O14765|Q53RR8|Q53TV3|Q9BYF0|Q9UPG6	Missense_Mutation	SNP	ENST00000374700.2	37	CCDS33360.1	.	.	.	.	.	.	.	.	.	.	G	14.36	2.512980	0.44660	.	.	ENSG00000138356	ENST00000374700;ENST00000454629	T;T	0.56941	1.71;0.43	5.29	3.5	0.40072	Beta-grasp fold, ferredoxin-type (1);Ferredoxin (2);	0.186311	0.46145	N	0.000308	T	0.39517	0.1081	L	0.33293	1	0.58432	D	0.999999	P	0.36990	0.577	B	0.34242	0.178	T	0.26608	-1.0098	10	0.49607	T	0.09	-43.0883	11.3803	0.49752	0.1469:0.0:0.8531:0.0	.	86	Q06278	ADO_HUMAN	I	86;61	ENSP00000363832:V86I;ENSP00000392485:V61I	ENSP00000363832:V86I	V	+	1	0	AOX1	201170420	1.000000	0.71417	0.724000	0.30704	0.801000	0.45260	3.200000	0.51051	0.801000	0.34066	0.655000	0.94253	GTC		0.458	AOX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335844.1	NM_001159		A	201462175	G	A	201462175	3	1	675	1	0	0	0	0	1	0	0	0	729	1145	40	1	270	1	AOX1	2	201462175	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	92974822	201462175	41737198	20	43465										
STRADB	55437	mdanderson.org	37	chr2	202344886	202344886	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cctgatgaaaaagactcataCtgggaattctagggctgcca	10	9	2	3	rs146098224		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr2:202344886C>T	ENST00000194530.3	+	12	1610	c.1245C>T	c.(1243-1245)taC>taT	p.Y415Y	STRADB_ENST00000392249.2_3'UTR	NM_001206864.1|NM_018571.5	NP_001193793.1|NP_061041.2	Q9C0K7	STRAB_HUMAN	STE20-related kinase adaptor beta	415					activation of protein kinase activity (GO:0032147)|cell cycle arrest (GO:0007050)|cell morphogenesis (GO:0000902)|insulin receptor signaling pathway (GO:0008286)|JNK cascade (GO:0007254)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|protein export from nucleus (GO:0006611)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	ATP binding (GO:0005524)|transferase activity, transferring phosphorus-containing groups (GO:0016772)			breast(1)|large_intestine(2)|lung(5)|prostate(1)|skin(3)|stomach(1)	13						AAGACTCATACTGGGAATTCT	0.393																																																0													134	136	135					2																	202344886		2203	4300	6503	SO:0001819	synonymous_variant	55437			AB038950	CCDS2348.1, CCDS56161.1	2q33.1	2010-09-30	2008-09-15	2008-09-15	ENSG00000082146	ENSG00000082146			13205	protein-coding gene	gene with protein product		607333	"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 2"	ALS2CR2		11161814, 14511394	Standard	NM_018571		Approved	CALS-21, PAPK, ILPIPA, ILPIP	uc002uyd.4	Q9C0K7	OTTHUMG00000132831	ENST00000194530.3:c.1245C>T	2.37:g.202344886C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKY7|Q9P1L0	Silent	SNP	ENST00000194530.3	37	CCDS2348.1																																																																																				0.393	STRADB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256297.1	NM_018571		T	202344886	C	T	202344886	2	4	675	1	0	0	0	0	0	0	0	1	15337	576	20	2		2	STRADB	2	202344886	Silent	SNP	C	TCGA-KO-8404-01A-11D-2310-10	882711	202344886	40854487	21	43466										
PRKAG3	53632	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	219695480	219695480	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tggcctcaccttccccctgaCctggtggctccccttcctcc	7	21	1	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr2:219695480C>A	ENST00000529249.1	-	3	533	c.218G>T	c.(217-219)gGt>gTt	p.G73V	PRKAG3_ENST00000545803.1_Splice_Site|PRKAG3_ENST00000392098.3_Missense_Mutation_p.G73V|PRKAG3_ENST00000439262.2_Missense_Mutation_p.G48V			Q9UGI9	AAKG3_HUMAN	protein kinase, AMP-activated, gamma 3 non-catalytic subunit	73					cell cycle arrest (GO:0007050)|fatty acid biosynthetic process (GO:0006633)|glucose transport (GO:0015758)|glycogen biosynthetic process (GO:0005978)|insulin receptor signaling pathway (GO:0008286)|intracellular signal transduction (GO:0035556)|membrane organization (GO:0061024)|protein phosphorylation (GO:0006468)	AMP-activated protein kinase complex (GO:0031588)|cytosol (GO:0005829)|extracellular space (GO:0005615)	AMP-activated protein kinase activity (GO:0004679)|ATP binding (GO:0005524)|protein kinase binding (GO:0019901)			large_intestine(7)|lung(10)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	20		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)	Acetylsalicylic acid(DB00945)	TTCCCCCTGACCTGGTGGCTC	0.617																																																0													137	114	122					2																	219695480		2203	4300	6503	SO:0001583	missense	53632			AF214519	CCDS2424.1	2q35	2012-09-20			ENSG00000115592	ENSG00000115592			9387	protein-coding gene	gene with protein product		604976				10818001	Standard	NM_017431		Approved		uc002vjb.1	Q9UGI9	OTTHUMG00000133078	ENST00000529249.1:c.218G>T	2.37:g.219695480C>A	ENSP00000436068:p.Gly73Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q4QQG8|Q4V779|Q9NRL1	Missense_Mutation	SNP	ENST00000529249.1	37	CCDS2424.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	1.727|1.727	-0.495088|-0.495088	0.04322|0.04322	.|.	.|.	ENSG00000115592|ENSG00000115592	ENST00000430489|ENST00000439262;ENST00000529249;ENST00000392098	.|D;D;T	.|0.82167	.|-1.57;-1.58;0.22	4.78|4.78	-0.676|-0.676	0.11361|0.11361	.|.	.|0.335926	.|0.25222	.|N	.|0.032231	.|T	.|0.72630	.|0.3484	L|L	0.32530|0.32530	0.975|0.975	0.19300|0.19300	N|N	0.99998|0.99998	.|P;P	.|0.51351	.|0.944;0.908	.|P;B	.|0.49140	.|0.601;0.397	.|T	.|0.65001	.|-0.6274	.|10	.|0.72032	.|D	.|0.01	.|-4.8259	0.6602|0.6602	0.00841|0.00841	0.1784:0.358:0.1546:0.3091|0.1784:0.358:0.1546:0.3091	.|.	.|48;73	.|Q9UGI9-2;Q9UGI9	.|.;AAKG3_HUMAN	.|V	-1|48;73;73	.|ENSP00000397133:G48V;ENSP00000436068:G73V;ENSP00000375947:G73V	.|ENSP00000233944:G73V	.|G	-|-	.|2	.|0	PRKAG3|PRKAG3	219403724|219403724	0.000000|0.000000	0.05858|0.05858	0.002000|0.002000	0.10522|0.10522	0.165000|0.165000	0.22458|0.22458	-0.625000|-0.625000	0.05534|0.05534	0.116000|0.116000	0.18110|0.18110	0.655000|0.655000	0.94253|0.94253	.|GGT		0.617	PRKAG3-006	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385992.1			A	219695480	C	A	219695480	3	1	675	1	0	0	0	0	1	0	0	0	12512	507	18	4	1295	4	PRKAG3	2	219695480	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	17350594	219695480	23503893	22	43467										
ABHD14A	25864	broad.mit.edu	37	chr3	52014930	52014930	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ggcagctccgccacctgcccAaccactctgtggtgaagcta	10	16	1	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr3:52014930A>C	ENST00000273596.3	+	5	780	c.712A>C	c.(712-714)Aac>Cac	p.N238H	ABHD14B_ENST00000483233.1_Intron|ACY1_ENST00000404366.2_5'Flank|ACY1_ENST00000476351.1_5'Flank|ACY1_ENST00000458031.2_Intron|ACY1_ENST00000494103.1_5'Flank|ABHD14A-ACY1_ENST00000463937.1_Intron|ABHD14A_ENST00000491470.1_Silent_p.P120P|ACY1_ENST00000476854.1_5'Flank	NM_015407.4	NP_056222.2	Q9BUJ0	ABHEA_HUMAN	abhydrolase domain containing 14A	238						cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	hydrolase activity (GO:0016787)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|stomach(1)	6				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CCACCTGCCCAACCACTCTGT	0.592																																																0													113	91	98					3																	52014930		2203	4300	6503	SO:0001583	missense	25864			AY358201	CCDS2843.1	3p21.1	2011-02-14			ENSG00000248487	ENSG00000248487		"Abhydrolase domain containing"	24538	protein-coding gene	gene with protein product							Standard	NM_015407		Approved	DKFZP564O243, DORZ1	uc003dco.3	Q9BUJ0	OTTHUMG00000157818	ENST00000273596.3:c.712A>C	3.37:g.52014930A>C	ENSP00000273596:p.Asn238His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXU8|Q9Y3T7	Missense_Mutation	SNP	ENST00000273596.3	37	CCDS2843.1	.	.	.	.	.	.	.	.	.	.	A	19.80	3.893898	0.72639	.	.	ENSG00000248487	ENST00000273596;ENST00000360889;ENST00000452452	T	0.23348	1.91	5.41	5.41	0.78517	.	0.057047	0.64402	D	0.000003	T	0.29620	0.0739	L	0.58354	1.805	0.80722	D	1	P	0.37708	0.606	B	0.38880	0.284	T	0.07635	-1.0762	10	0.59425	D	0.04	-24.6514	13.6867	0.62520	1.0:0.0:0.0:0.0	.	238	Q9BUJ0	ABHEA_HUMAN	H	238;196;172	ENSP00000273596:N238H	ENSP00000273596:N238H	N	+	1	0	ABHD14A	51989970	0.354000	0.24912	1.000000	0.80357	0.965000	0.64279	0.818000	0.27295	2.056000	0.61249	0.379000	0.24179	AAC		0.592	ABHD14A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349689.1	NM_015407		C	52014930	A	C	52014930	3	2	675	1	0	0	0	0	1	0	0	0	79	130	5	5	730	5	ABHD14A	3	52014930	Missense_Mutation	SNP	A	TCGA-KO-8404-01A-11D-2310-10		52014930	146007500	23	43468										
SLC15A2	6565	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr3	121659851	121659851	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gagaccaagaagacaaaactCtgatgactccctagattctg	8	10	2	6			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr3:121659851C>A	ENST00000489711.1	+	22	2575	c.2187C>A	c.(2185-2187)ctC>ctA	p.L729L	SLC15A2_ENST00000295605.2_Silent_p.L698L	NM_021082.3	NP_066568.3	Q16348	S15A2_HUMAN	solute carrier family 15 (oligopeptide transporter), member 2	729					drug transport (GO:0015893)|ion transport (GO:0006811)|protein transport (GO:0015031)|proton transport (GO:0015992)|transmembrane transport (GO:0055085)|transport (GO:0006810)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	antibiotic transporter activity (GO:0042895)|dipeptide transporter activity (GO:0042936)|high-affinity oligopeptide transporter activity (GO:0015334)|peptide:proton symporter activity (GO:0015333)			NS(1)|endometrium(1)|kidney(4)|large_intestine(5)|lung(17)|skin(6)|upper_aerodigestive_tract(2)	36				GBM - Glioblastoma multiforme(114;0.0967)	Aminolevulinic acid(DB00855)|Amoxicillin(DB01060)|Ampicillin(DB00415)|Azidocillin(DB08795)|Benazepril(DB00542)|Benzylpenicillin(DB01053)|Cefaclor(DB00833)|Cefadroxil(DB01140)|Cefalotin(DB00456)|Cefdinir(DB00535)|Cefepime(DB01413)|Cefixime(DB00671)|Cefmetazole(DB00274)|Cefotaxime(DB00493)|Cefradine(DB01333)|Ceftazidime(DB00438)|Ceftibuten(DB01415)|Ceftriaxone(DB01212)|Cefuroxime(DB01112)|Cephalexin(DB00567)|Chlorpropamide(DB00672)|Cilazapril(DB01340)|Cloxacillin(DB01147)|Cyclacillin(DB01000)|Dicloxacillin(DB00485)|Fosinopril(DB00492)|Glyburide(DB01016)|Moexipril(DB00691)|Nateglinide(DB00731)|Oxacillin(DB00713)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Spirapril(DB01348)|Tolbutamide(DB01124)|Trandolapril(DB00519)|Tranexamic Acid(DB00302)|Valaciclovir(DB00577)|Valganciclovir(DB01610)	AGACAAAACTCTGATGACTCC	0.443																																																0													80	77	78					3																	121659851		2203	4300	6503	SO:0001819	synonymous_variant	6565			BC044572	CCDS3007.1, CCDS54631.1	3q21.1	2013-07-18	2013-07-18		ENSG00000163406	ENSG00000163406		"Solute carriers"	10921	protein-coding gene	gene with protein product		602339	"solute carrier family 15 (H+/peptide transporter), member 2"			7756356	Standard	NM_021082		Approved	PEPT2	uc003eep.2	Q16348	OTTHUMG00000159423	ENST00000489711.1:c.2187C>A	3.37:g.121659851C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1A5|B4E2A7	Silent	SNP	ENST00000489711.1	37	CCDS3007.1																																																																																				0.443	SLC15A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355239.1	NM_021082		A	121659851	C	A	121659851	2	1	675	1	0	0	0	0	0	0	0	1	14412	900	32	4		4	SLC15A2	3	121659851	Silent	SNP	C	TCGA-KO-8404-01A-11D-2310-10	69644921	121659851	76362579	24	43469										
FAM162A	26355	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	122123174	122123174	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gatcctcatatggtcaggtcGcttcaaaaaggaagatgaaa	10	7	3	2	rs149572114		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr3:122123174G>A	ENST00000477892.1	+	3	311	c.227G>A	c.(226-228)cGc>cAc	p.R76H	FAM162A_ENST00000469967.1_Missense_Mutation_p.R76H|FAM162A_ENST00000232125.5_Missense_Mutation_p.R66H	NM_014367.3	NP_055182.3	Q96A26	F162A_HUMAN	family with sequence similarity 162, member A	76	Required for proapoptotic activity.				activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|cellular response to hypoxia (GO:0071456)|neuron apoptotic process (GO:0051402)|positive regulation of apoptotic process (GO:0043065)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|transformed cell apoptotic process (GO:0006927)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)|nucleus (GO:0005634)				breast(1)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)	6						TGGTCAGGTCGCTTCAAAAAG	0.398													G|||	1	0.000199681	0.0	0.0	5008	,	,		18620	0.0		0.001	False		,,,				2504	0.0															0													89	86	87					3																	122123174		1900	4119	6019	SO:0001583	missense	26355			AF191020	CCDS43139.1	3q21.1	2008-06-05	2008-06-05	2008-06-05	ENSG00000114023	ENSG00000114023			17865	protein-coding gene	gene with protein product		608017	"chromosome 3 open reading frame 28"	C3orf28		11085516	Standard	NM_014367		Approved	E2IG5	uc003eez.3	Q96A26	OTTHUMG00000159494	ENST00000477892.1:c.227G>A	3.37:g.122123174G>A	ENSP00000419088:p.Arg76His	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NRN6|Q9UJX8	Missense_Mutation	SNP	ENST00000477892.1	37	CCDS43139.1	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	G	15.95	2.985201	0.53934	.	.	ENSG00000114023	ENST00000232125;ENST00000477892;ENST00000469967	T;T;T	0.39056	1.1;1.1;1.1	5.65	3.86	0.44501	.	0.347429	0.31601	N	0.007366	T	0.41305	0.1153	M	0.79805	2.47	0.29219	N	0.874058	P;P	0.49635	0.926;0.908	B;B	0.39935	0.314;0.146	T	0.51679	-0.8675	10	0.54805	T	0.06	.	7.2289	0.26030	0.0839:0.0:0.7487:0.1674	.	76;76	E9PH05;Q96A26	.;F162A_HUMAN	H	66;76;76	ENSP00000232125:R66H;ENSP00000419088:R76H;ENSP00000419491:R76H	ENSP00000232125:R66H	R	+	2	0	FAM162A	123605864	1.000000	0.71417	0.999000	0.59377	0.980000	0.70556	4.337000	0.59310	0.937000	0.37394	-0.140000	0.14226	CGC		0.398	FAM162A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355766.1	NM_014367		A	122123174	G	A	122123174	3	1	675	1	0	0	0	0	1	0	0	0	5478	1087	38	1	237	1	FAM162A	3	122123174	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	463323	122123174	75899256	25	43470										
HEG1	57493	mdanderson.org	37	chr3	124732419	124732419	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ggaggccctgaagaagaagaAgaggaggaggaggaagagga	20	3	0	6	rs202026679|rs540539937|rs376430192		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr3:124732419A>G	ENST00000311127.4	-	6	2071	c.2004T>C	c.(2002-2004)tcT>tcC	p.S668S	HEG1_ENST00000477536.1_5'UTR	NM_020733.1	NP_065784.1	Q9ULI3	HEG1_HUMAN	heart development protein with EGF-like domains 1	668	Ser-rich.				cardiac atrium morphogenesis (GO:0003209)|cell-cell junction assembly (GO:0007043)|endothelial cell morphogenesis (GO:0001886)|in utero embryonic development (GO:0001701)|lung development (GO:0030324)|lymph circulation (GO:0003017)|lymph vessel development (GO:0001945)|multicellular organism growth (GO:0035264)|pericardium development (GO:0060039)|post-embryonic development (GO:0009791)|regulation of body fluid levels (GO:0050878)|vasculogenesis (GO:0001570)|venous blood vessel morphogenesis (GO:0048845)|ventricular septum development (GO:0003281)	cell-cell junction (GO:0005911)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(7)|lung(24)|ovary(2)|urinary_tract(4)	47						aagaagaagaagaggaggagg	0.488																																																0													51	56	55					3																	124732419		2137	4243	6380	SO:0001819	synonymous_variant	57493			AK074987	CCDS46898.1	3q21.2	2013-03-08	2013-03-08		ENSG00000173706	ENSG00000173706			29227	protein-coding gene	gene with protein product	"heart of glass"	614182	"HEG homolog 1 (zebrafish)"			10574462, 19151727, 23007647	Standard	NM_020733		Approved	KIAA1237, HEG	uc003ehs.4	Q9ULI3	OTTHUMG00000159486	ENST00000311127.4:c.2004T>C	3.37:g.124732419A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6NX66|Q8NC40|Q9BSV0	Silent	SNP	ENST00000311127.4	37	CCDS46898.1																																																																																				0.488	HEG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355732.2	XM_087386		G	124732419	A	G	124732419	2	3	675	1	0	0	0	0	0	0	0	1	7051	59	3	3		3	HEG1	3	124732419	Silent	SNP	A	TCGA-KO-8404-01A-11D-2310-10	2609245	124732419	73290011	26	43471										
KLF15	28999	broad.mit.edu	37	chr3	126070866	126070867	+	Frame_Shift_Ins	INS	-	-	G													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ggcccatgaggagaccggcaINSgggccaggccccaggggtcc							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr3:126070866_126070867insG	ENST00000296233.3	-	2	1129_1130	c.899_900insC	c.(898-900)cctfs	p.P300fs	KLF15_ENST00000509675.1_5'Flank	NM_014079.3	NP_054798.1	Q9UIH9	KLF15_HUMAN	Kruppel-like factor 15	300					cardiac muscle hypertrophy in response to stress (GO:0014898)|cellular response to peptide (GO:1901653)|glial cell differentiation (GO:0010001)|glomerular visceral epithelial cell differentiation (GO:0072112)|glucose transport (GO:0015758)|negative regulation of peptidyl-lysine acetylation (GO:2000757)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|transcription regulatory region DNA binding (GO:0044212)			endometrium(1)|lung(7)|ovary(2)|skin(2)	12				GBM - Glioblastoma multiforme(114;0.147)		GGAGACCGGCAGGGCCAGGCCC	0.584																																																0																																										SO:0001589	frameshift_variant	28999			AB029254	CCDS3036.1	3q21.3	2013-01-08			ENSG00000163884	ENSG00000163884		"Kruppel-like transcription factors", "Zinc fingers, C2H2-type"	14536	protein-coding gene	gene with protein product	"kidney-enriched Kruppel-like factor"	606465				10982849	Standard	NM_014079		Approved	KKLF	uc011bkk.1	Q9UIH9	OTTHUMG00000162689	ENST00000296233.3:c.900dupC	3.37:g.126070869_126070869dupG	ENSP00000296233:p.Pro300fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000296233.3	37	CCDS3036.1																																																																																				0.584	KLF15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370096.1	NM_014079		G	126070867	-	G	126070866	7	5	675	1	0	1	1	0	0	0	0	0	8350	175	7	0	358	0	KLF15	3	126070866	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	1338447	126070866	71951564	27	43472										
COL6A5	256076	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	130098678	130098678	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tgatgctgcgctgaaccttcGactggaggatgtaaacgtgt	13	8	0	2	rs532783006	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr3:130098678G>C	ENST00000432398.2	+	4	1579	c.1085G>C	c.(1084-1086)cGa>cCa	p.R362P	COL6A5_ENST00000265379.6_Missense_Mutation_p.R362P	NM_153264.5	NP_694996.5	A8TX70	CO6A5_HUMAN	collagen, type VI, alpha 5	362	Nonhelical region.|VWFA 2. {ECO:0000255|PROSITE- ProRule:PRU00219}.				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)				endometrium(6)|kidney(4)|large_intestine(8)|lung(19)|pancreas(2)|prostate(3)|stomach(1)|urinary_tract(1)	44						CTGAACCTTCGACTGGAGGAT	0.483																																																0													140	115	122					3																	130098678		692	1591	2283	SO:0001583	missense	256076			AK093199		3q21.3	2013-01-16	2010-05-24	2010-05-24	ENSG00000172752	ENSG00000172752		"Collagens"	26674	protein-coding gene	gene with protein product	"von Willebrand factor A domain containing 4"	611916	"collagen, type XXIX, alpha 1"	COL29A1		17850181	Standard	NM_153264		Approved	FLJ35880, VWA4	uc010htk.2	A8TX70	OTTHUMG00000159712	ENST00000432398.2:c.1085G>C	3.37:g.130098678G>C	ENSP00000390895:p.Arg362Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A9J6L2|A9J6L4|A9J6L6|A9J6L7|A9J6M0|A9J6M1|A9J6M2|B5MEA7|Q6ZW26|Q8NA36	Missense_Mutation	SNP	ENST00000432398.2	37		.	.	.	.	.	.	.	.	.	.	G	7.854	0.724578	0.15439	.	.	ENSG00000172752	ENST00000432398;ENST00000265379	T;T	0.81247	-1.47;-1.47	5.34	3.33	0.38152	.	.	.	.	.	D	0.91168	0.7218	M	0.90650	3.135	0.09310	N	1	D	0.89917	1.0	D	0.87578	0.998	D	0.83855	0.0265	9	0.72032	D	0.01	.	14.8051	0.69948	0.0:0.0:0.7277:0.2723	.	362	A8TX70-2	.	P	362	ENSP00000390895:R362P;ENSP00000265379:R362P	ENSP00000265379:R362P	R	+	2	0	COL6A5	131581368	0.988000	0.35896	0.063000	0.19743	0.048000	0.14542	4.397000	0.59690	1.242000	0.43836	0.455000	0.32223	CGA		0.483	COL6A5-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_153264		C	130098678	G	C	130098678	3	2	675	1	0	0	0	0	1	0	0	0	3704	1058	37	4	1095	4	COL6A5	3	130098678	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	4027812	130098678	67923752	28	43473										
WWTR1	25937	broad.mit.edu;bcgsc.ca	37	chr3	149245708	149245708	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gttgacagcagcctgaactgGggcaagagtctcagcttcca	12	11	1	3			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr3:149245708G>A	ENST00000465804.1	-	6	1076	c.820C>T	c.(820-822)Cca>Tca	p.P274S	RNU6-1098P_ENST00000516772.1_RNA|WWTR1_ENST00000467467.1_Missense_Mutation_p.P274S|WWTR1_ENST00000360632.3_Missense_Mutation_p.P274S	NM_001168278.1	NP_001161750.1	Q9GZV5	WWTR1_HUMAN	WW domain containing transcription regulator 1	274					cilium morphogenesis (GO:0060271)|gene expression (GO:0010467)|glomerulus development (GO:0032835)|hippo signaling (GO:0035329)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of catenin import into nucleus (GO:0035414)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|osteoblast differentiation (GO:0001649)|positive regulation of cell proliferation (GO:0008284)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072307)|regulation of SMAD protein import into nucleus (GO:0060390)|regulation of transcription, DNA-templated (GO:0006355)|stem cell division (GO:0017145)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)			breast(5)|cervix(1)|endometrium(2)|large_intestine(2)|lung(10)|ovary(1)|prostate(1)|skin(1)	23			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			GCCTGAACTGGGGCAAGAGTC	0.498			T	CAMTA1	epitheliod hemangioendothelioma																																		Dom	yes		3	3q23-q24	607392	WW domain containing transcription regulator 1		M	0													128	130	130					3																	149245708		2203	4300	6503	SO:0001583	missense	25937			AK022036	CCDS3144.1	3q23-q24	2004-12-03			ENSG00000018408	ENSG00000018408			24042	protein-coding gene	gene with protein product		607392				11118213, 15096513	Standard	NM_015472		Approved	TAZ, DKFZp586I1419	uc021xfm.1	Q9GZV5	OTTHUMG00000159614	ENST00000465804.1:c.820C>T	3.37:g.149245708G>A	ENSP00000419465:p.Pro274Ser	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNH7|Q8N3P2|Q9Y3W6	Missense_Mutation	SNP	ENST00000465804.1	37	CCDS3144.1	.	.	.	.	.	.	.	.	.	.	G	9.472	1.095889	0.20552	.	.	ENSG00000018408	ENST00000465804;ENST00000360632;ENST00000467467;ENST00000472417	T;T;T	0.39997	1.05;1.05;1.05	5.09	-5.53	0.02552	.	1.354690	0.04316	N	0.349895	T	0.18045	0.0433	N	0.10874	0.06	0.18873	N	0.999985	B	0.02656	0.0	B	0.01281	0.0	T	0.13629	-1.0502	10	0.14252	T	0.57	-0.4524	3.9669	0.09436	0.1546:0.2195:0.4838:0.1421	.	274	Q9GZV5	WWTR1_HUMAN	S	274;274;274;132	ENSP00000419465:P274S;ENSP00000353847:P274S;ENSP00000419234:P274S	ENSP00000353847:P274S	P	-	1	0	WWTR1	150728398	0.729000	0.28090	0.187000	0.23214	0.947000	0.59692	-0.308000	0.08156	-0.491000	0.06697	0.644000	0.83932	CCA		0.498	WWTR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356498.1	NM_015472		A	149245708	G	A	149245708	3	1	675	1	0	0	0	0	1	0	0	0	17429	1232	43	2	394	2	WWTR1	3	149245708	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	19147030	149245708	48776722	29	43474										
HTR3E	285242	broad.mit.edu;mdanderson.org	37	chr3	183824286	183824287	+	Missense_Mutation	DNP	GC	GC	TG													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gaggtatcagcagggcagatGccgggccctgcggaggcaga							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr3:183824286_183824287GC>TG	ENST00000415389.2	+	9	1642_1643	c.1176_1177GC>TG	c.(1174-1179)atGCcg>atTGcg	p.392_393MP>IA	HTR3E_ENST00000425359.2_Missense_Mutation_p.377_378MP>IA|HTR3E_ENST00000335304.2_Missense_Mutation_p.407_408MP>IA|HTR3E-AS1_ENST00000431427.1_RNA|HTR3E_ENST00000440596.2_Missense_Mutation_p.418_419MP>IA|HTR3E_ENST00000436361.2_Missense_Mutation_p.392_393MP>IA	NM_001256613.1|NM_198313.2	NP_001243542.1|NP_938055.1	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine (serotonin) receptor 3E, ionotropic	392					ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	extracellular ligand-gated ion channel activity (GO:0005230)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(8)|lung(20)|ovary(1)|skin(2)|upper_aerodigestive_tract(2)	40	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)		Ergoloid mesylate(DB01049)	CAGGGCAGATGCCGGGCCCTGC	0.609																																					Melanoma(7;227 727 6634 44770)											0																																										SO:0001583	missense	285242			AY159813	CCDS3251.1, CCDS58868.1, CCDS58869.1, CCDS58870.1, CCDS58871.1	3q27	2012-05-22	2012-02-03		ENSG00000186038	ENSG00000186038		"5-HT (serotonin) receptors", "Ligand-gated ion channels / 5-HT (serotonin) receptors, ionotropic"	24005	protein-coding gene	gene with protein product		610123	"5-hydroxytryptamine (serotonin) receptor 3, family member E"			12801637, 15157181	Standard	NM_001256613		Approved		uc010hxr.3	A5X5Y0	OTTHUMG00000156857	Exception_encountered	3.37:g.183824286_183824287delinsTG	ENSP00000401444:p.M392_P393delinsIA	Somatic		WXS	Illumina HiSeq	Phase_I	A8IKD7|E9PGF1|Q495G1|Q495G3|Q6V706|Q6V707|Q7Z6B2	Missense_Mutation	DNP	ENST00000415389.2	37	CCDS58868.1																																																																																				0.609	HTR3E-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000346284.1	NM_182589		TG	183824287	GC	TG	183824286	3	4	675	1	0	0	0	0	1	0	0	0	7455	1319	46	4	1251	4	HTR3E	3	183824286	Missense_Mutation	DNP	GC	TCGA-KO-8404-01A-11D-2310-10	34578578	183824286	14198144	30	43475										
TMEM175	84286	bcgsc.ca	37	chr4	951677	951677	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cggcagcctcgtggccgcccTgagtgcgaccgggccgcgct	16	17	0	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr4:951677T>A	ENST00000264771.4	+	11	1093	c.908T>A	c.(907-909)cTg>cAg	p.L303Q	TMEM175_ENST00000515740.1_Missense_Mutation_p.L187Q|TMEM175_ENST00000508204.1_Missense_Mutation_p.L221Q	NM_032326.2	NP_115702.1	Q9BSA9	TM175_HUMAN	transmembrane protein 175	303						integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)				NS(1)|endometrium(1)|large_intestine(2)|lung(6)|pancreas(1)|upper_aerodigestive_tract(3)	14			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			GTGGCCGCCCTGAGTGCGACC	0.622																																																0													49	53	52					4																	951677		2203	4300	6503	SO:0001583	missense	84286			BC005158	CCDS3341.1, CCDS75087.1, CCDS75088.1	4p16.3	2008-02-05			ENSG00000127419	ENSG00000127419			28709	protein-coding gene	gene with protein product						12477932	Standard	XM_005272301		Approved	MGC4618	uc003gbq.3	Q9BSA9	OTTHUMG00000118996	ENST00000264771.4:c.908T>A	4.37:g.951677T>A	ENSP00000264771:p.Leu303Gln	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVN4|Q8ND13	Missense_Mutation	SNP	ENST00000264771.4	37	CCDS3341.1	.	.	.	.	.	.	.	.	.	.	T	14.61	2.587414	0.46110	.	.	ENSG00000127419	ENST00000264771;ENST00000515740;ENST00000508204;ENST00000510493	T;T;T;T	0.63096	-0.02;-0.02;-0.02;-0.02	4.82	4.82	0.62117	.	0.087962	0.47455	D	0.000234	D	0.82724	0.5099	H	0.95574	3.69	0.49483	D	0.999792	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.85480	0.1178	10	0.87932	D	0	-18.6448	7.9391	0.29948	0.1832:0.0:0.0:0.8168	.	221;303	D3DVN5;Q9BSA9	.;TM175_HUMAN	Q	303;187;221;221	ENSP00000264771:L303Q;ENSP00000427039:L187Q;ENSP00000423669:L221Q;ENSP00000424208:L221Q	ENSP00000264771:L303Q	L	+	2	0	TMEM175	941677	1.000000	0.71417	0.942000	0.38095	0.010000	0.07245	5.515000	0.67049	1.804000	0.52760	0.402000	0.26972	CTG		0.622	TMEM175-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239193.2	NM_032326		A	951677	T	A	951677	3	1	675	1	0	0	0	0	1	0	0	0	16103	1580	55	5	946	5	TMEM175	4	951677	Missense_Mutation	SNP	T	TCGA-KO-8404-01A-11D-2310-10		951677	190202599	31	43476										
OTOP1	133060	mdanderson.org	37	chr4	4190576	4190577	+	Missense_Mutation	DNP	CG	CG	GC													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gggaggcagctgcgtgcattCgatagaaaatagaaaaaggc					rs200368405|rs199742451		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	CG	CG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr4:4190576_4190577CG>GC	ENST00000296358.4	-	6	1816_1817	c.1792_1793CG>GC	c.(1792-1794)CGa>GCa	p.R598A		NM_177998.1	NP_819056.1	Q7RTM1	OTOP1_HUMAN	otopetrin 1	598					biomineral tissue development (GO:0031214)|detection of gravity (GO:0009590)|inner ear morphogenesis (GO:0042472)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)				NS(1)|breast(1)|central_nervous_system(2)|endometrium(1)|kidney(2)|large_intestine(3)|liver(4)|lung(14)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	34				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TGCGTGCATTCGATAGAAAATA	0.46																																																0																																										SO:0001583	missense	133060			BK000653	CCDS3372.1	4p16.2	2008-02-05			ENSG00000163982	ENSG00000163982			19656	protein-coding gene	gene with protein product		607806				12651873	Standard	NM_177998		Approved		uc003ghp.1	Q7RTM1	OTTHUMG00000090301	ENST00000296358.4:c.1792_1793delinsGC	4.37:g.4190576_4190577delinsGC	ENSP00000296358:p.Arg598Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A1L476	Missense_Mutation	DNP	ENST00000296358.4	37	CCDS3372.1																																																																																				0.46	OTOP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206661.2	NM_177998		GC	4190577	CG	GC	4190576	3	3	675	1	0	0	0	0	1	0	0	0	11312	884	31	4	49	4	OTOP1	4	4190576	Missense_Mutation	DNP	CG	TCGA-KO-8404-01A-11D-2310-10	3238899	4190576	186963700	32	43477										
NCAPG	64151	broad.mit.edu	37	chr4	17844972	17844973	+	Frame_Shift_Ins	INS	-	-	A													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gaaatgaagatgagactaccINSaagacgagccaaaaccgcag					rs75077775		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr4:17844972_17844973insA	ENST00000251496.2	+	21	3148_3149	c.2972_2973insA	c.(2971-2976)ccaagafs	p.R992fs	LCORL_ENST00000326877.4_3'UTR	NM_022346.4	NP_071741.2	Q9BPX3	CND3_HUMAN	non-SMC condensin I complex, subunit G	992					mitotic cell cycle (GO:0000278)|mitotic chromosome condensation (GO:0007076)	actin cytoskeleton (GO:0015629)|centrosome (GO:0005813)|condensin complex (GO:0000796)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)				breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(11)|lung(10)|prostate(1)|upper_aerodigestive_tract(1)	27				STAD - Stomach adenocarcinoma(129;0.18)		ATGAGACTACCAAGACGAGCCA	0.366																																																0																																										SO:0001589	frameshift_variant	64151			AF331796	CCDS3424.1	4p15.32	2014-01-15			ENSG00000109805	ENSG00000109805			24304	protein-coding gene	gene with protein product	"chromosome condensation protein G"	606280				10910072, 11136719	Standard	NM_022346		Approved	FLJ12450, hCAP-G, CAP-G, YCG1	uc003gpp.4	Q9BPX3	OTTHUMG00000128539	ENST00000251496.2:c.2974dupA	4.37:g.17844974_17844974dupA	ENSP00000251496:p.Arg992fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MJE0|Q96SV9|Q9BUR3|Q9BVY1|Q9H914|Q9H9Z6|Q9HBI9	Frame_Shift_Ins	INS	ENST00000251496.2	37	CCDS3424.1																																																																																				0.366	NCAPG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250375.1	NM_022346		A	17844973	-	A	17844972	7	5	675	1	0	1	1	0	0	0	0	0	10214	594	21	0	3054	0	NCAPG	4	17844972	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	13654396	17844972	173309304	33	43478										
UGT2A3	79799	broad.mit.edu;mdanderson.org	37	chr4	69795705	69795705	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gctgatcgcaggtgcttggcTcctttgtggcgcatgacaaa	13	10	0	2			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr4:69795705T>G	ENST00000251566.4	-	6	1440	c.1410A>C	c.(1408-1410)ggA>ggC	p.G470G	UGT2A3_ENST00000420231.2_Silent_p.G181G	NM_024743.3	NP_079019.3	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family, polypeptide A3	470					cellular glucuronidation (GO:0052695)	integral component of membrane (GO:0016021)	glucuronosyltransferase activity (GO:0015020)			NS(1)|breast(1)|central_nervous_system(1)|kidney(5)|large_intestine(7)|lung(16)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	36						GGTGCTTGGCTCCTTTGTGGC	0.488																																																0													91	91	91					4																	69795705		2203	4300	6503	SO:0001819	synonymous_variant	79799				CCDS3525.1	4q13.2	2010-12-14			ENSG00000135220	ENSG00000135220		"UDP glucuronosyltransferases"	28528	protein-coding gene	gene with protein product							Standard	NM_024743		Approved	FLJ21934	uc003hef.2	Q6UWM9	OTTHUMG00000129408	ENST00000251566.4:c.1410A>C	4.37:g.69795705T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H6S4	Silent	SNP	ENST00000251566.4	37	CCDS3525.1																																																																																				0.488	UGT2A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251564.1	NM_024743		G	69795705	T	G	69795705	2	3	675	1	0	0	0	0	0	0	0	1	16967	1538	54	5		5	UGT2A3	4	69795705	Silent	SNP	T	TCGA-KO-8404-01A-11D-2310-10	51950733	69795705	121358571	34	43479										
FAM190A	401145	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	91229575	91229575	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tgtccacagttcctctccttCcagcactaactcaagctcag	5	16	3	0			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr4:91229575C>T	ENST00000509176.1	+	2	428	c.140C>T	c.(139-141)tCc>tTc	p.S47F	CCSER1_ENST00000333691.8_Missense_Mutation_p.S47F|CCSER1_ENST00000432775.2_Missense_Mutation_p.S47F	NM_001145065.1	NP_001138537.1	Q9C0I3	CCSE1_HUMAN	coiled-coil serine-rich protein 1	47	Ser-rich.																TCCTCTCCTTCCAGCACTAAC	0.453																																																0													120	112	115					4																	91229575		1987	4176	6163	SO:0001583	missense	401145				CCDS47099.1, CCDS47100.1	4q22.1	2012-12-03	2012-12-03	2012-12-03	ENSG00000184305	ENSG00000184305			29349	protein-coding gene	gene with protein product			"family with sequence similarity 190, member A"	FAM190A		11214970	Standard	NM_001145065		Approved	KIAA1680	uc003hsv.4	Q9C0I3	OTTHUMG00000160950	ENST00000509176.1:c.140C>T	4.37:g.91229575C>T	ENSP00000425040:p.Ser47Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5M0|Q86V57	Missense_Mutation	SNP	ENST00000509176.1	37	CCDS47099.1	.	.	.	.	.	.	.	.	.	.	C	22.9	4.344682	0.82022	.	.	ENSG00000184305	ENST00000509176;ENST00000432775;ENST00000333691;ENST00000458365	T;T;T	0.62364	0.48;0.03;0.48	5.18	5.18	0.71444	.	0.000000	0.85682	D	0.000000	T	0.75591	0.3870	L	0.48642	1.525	0.48762	D	0.999704	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.999	T	0.77013	-0.2745	10	0.87932	D	0	-12.7559	19.5936	0.95526	0.0:1.0:0.0:0.0	.	47;47;47	Q9C0I3-2;Q9C0I3;E7EUW0	.;F190A_HUMAN;.	F	47	ENSP00000425040:S47F;ENSP00000389283:S47F;ENSP00000329482:S47F	ENSP00000329482:S47F	S	+	2	0	FAM190A	91448598	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.221000	0.78016	2.793000	0.96121	0.655000	0.94253	TCC		0.453	CCSER1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363109.3	NM_001145065		T	91229575	C	T	91229575	3	4	675	1	0	0	0	0	1	0	0	0	5525	855	30	2	142	2	FAM190A	4	91229575	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	21433870	91229575	99924701	35	43480										
TTC29	83894	mdanderson.org;bcgsc.ca	37	chr4	147795877	147795877	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tttccacccaccttctttggCtatttcagaagcttttatta	4	11	2	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr4:147795877C>T	ENST00000325106.4	-	7	1016	c.790G>A	c.(790-792)Gcc>Acc	p.A264T	TTC29_ENST00000513335.1_Missense_Mutation_p.A290T|TTC29_ENST00000398886.4_Missense_Mutation_p.A290T	NM_031956.2	NP_114162.2	Q8NA56	TTC29_HUMAN	tetratricopeptide repeat domain 29	264										breast(2)|cervix(2)|endometrium(3)|kidney(4)|large_intestine(6)|lung(5)|ovary(1)|pancreas(1)|prostate(1)|skin(1)	26	all_hematologic(180;0.151)					CCTTCTTTGGCTATTTCAGAA	0.378																																																0													87	76	79					4																	147795877		1811	4081	5892	SO:0001583	missense	83894			AF345910	CCDS47141.1, CCDS75200.1	4q31.23	2013-01-11				ENSG00000137473		"Tetratricopeptide (TTC) repeat domain containing"	29936	protein-coding gene	gene with protein product						12477932	Standard	NM_031956		Approved	NYD-SP14	uc003ikw.4	Q8NA56		ENST00000325106.4:c.790G>A	4.37:g.147795877C>T	ENSP00000316740:p.Ala264Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A4GU95|Q9BXB6	Missense_Mutation	SNP	ENST00000325106.4	37	CCDS47141.1	.	.	.	.	.	.	.	.	.	.	C	20.5	3.998966	0.74818	.	.	ENSG00000137473	ENST00000513335;ENST00000398886;ENST00000325106;ENST00000398883;ENST00000504425	T;T;T;T	0.76839	-1.05;-1.05;-1.05;-1.05	5.91	5.07	0.68467	Tetratricopeptide-like helical (1);Tetratricopeptide repeat-containing (1);	0.000000	0.85682	D	0.000000	D	0.88362	0.6416	M	0.84326	2.69	0.44373	D	0.997274	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.997;0.998;0.997	D	0.88848	0.3317	10	0.45353	T	0.12	-6.6357	15.049	0.71850	0.0:0.9324:0.0:0.0676	.	264;290;264	E7EQ14;G5E9Z5;Q8NA56	.;.;TTC29_HUMAN	T	290;290;264;264;264	ENSP00000423505:A290T;ENSP00000381861:A290T;ENSP00000316740:A264T;ENSP00000425778:A264T	ENSP00000316740:A264T	A	-	1	0	TTC29	148015327	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	4.085000	0.57657	1.509000	0.48786	-0.136000	0.14681	GCC		0.378	TTC29-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_031956		T	147795877	C	T	147795877	3	4	675	1	0	0	0	0	1	0	0	0	16708	797	28	2	665	2	TTC29	4	147795877	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	56566302	147795877	43358399	36	43481										
PAPD7	11044	mdanderson.org	37	chr5	6753008	6753008	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	caggtttactatacctccacCgaccctaggggttgctcctg	9	14	0	0	rs374089909		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr5:6753008C>T	ENST00000230859.6	+	12	1421	c.1292C>T	c.(1291-1293)cCg>cTg	p.P431L		NM_001171805.1|NM_001171806.1|NM_006999.4	NP_001165276.1|NP_001165277.1|NP_008930.1	Q5XG87	PAPD7_HUMAN	PAP associated domain containing 7	661	PAP-associated.				double-strand break repair (GO:0006302)|mitotic chromosome condensation (GO:0007076)|response to drug (GO:0042493)|sister chromatid cohesion (GO:0007062)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA-directed DNA polymerase activity (GO:0003887)|metal ion binding (GO:0046872)|polynucleotide adenylyltransferase activity (GO:0004652)|SMC family protein binding (GO:0043221)			cervix(1)|endometrium(2)|large_intestine(8)|lung(10)|ovary(2)|pancreas(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	27						ATACCTCCACCGACCCTAGGG	0.527																																					NSCLC(7;212 333 5667 23379 46547)											0													99	93	95					5																	6753008		2203	4300	6503	SO:0001583	missense	11044			AF089896	CCDS3871.1	5p15	2010-11-18	2010-01-19	2010-01-19	ENSG00000112941	ENSG00000112941			16705	protein-coding gene	gene with protein product	"topoisomerase-related function protein 4-1", "polymerase (DNA-directed) sigma", "DNA polymerase kappa", "TUTase5"	605198	"polymerase (DNA directed) sigma"	POLS		10066793, 10926539	Standard	NM_006999		Approved	POLK, TRF4, LAK-1, TRF4-1	uc003jdx.1	Q5XG87	OTTHUMG00000090457	ENST00000230859.6:c.1292C>T	5.37:g.6753008C>T	ENSP00000230859:p.Pro431Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1E2|M1JCE6|O43289|Q17RZ1|Q9Y6C1	Missense_Mutation	SNP	ENST00000230859.6	37	CCDS3871.1	.	.	.	.	.	.	.	.	.	.	C	15.10	2.733383	0.48939	.	.	ENSG00000112941	ENST00000230859	T	0.29142	1.58	5.35	5.35	0.76521	.	0.402161	0.28589	N	0.014820	T	0.26122	0.0637	L	0.47716	1.5	0.41628	D	0.989006	B;B	0.22146	0.065;0.065	B;B	0.06405	0.002;0.002	T	0.04400	-1.0954	10	0.27785	T	0.31	-12.8162	11.6914	0.51519	0.1764:0.8236:0.0:0.0	.	431;431	B7ZLL4;Q5XG87	.;PAPD7_HUMAN	L	431	ENSP00000230859:P431L	ENSP00000230859:P431L	P	+	2	0	PAPD7	6806008	0.164000	0.22935	0.594000	0.28785	0.998000	0.95712	1.669000	0.37492	2.510000	0.84645	0.655000	0.94253	CCG		0.527	PAPD7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206904.1	NM_006999		T	6753008	C	T	6753008	3	4	675	1	0	0	0	0	1	0	0	0	11433	652	23	1	1334	1	PAPD7	5	6753008	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10		6753008	174162252	37	43482										
OCLN	100506658	broad.mit.edu	37	chr5	68840857	68840857	+	Frame_Shift_Del	DEL	A	A	-													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cctgcaaagggaagagcaggAaggtcaaagagaacagagca							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr5:68840857delA	ENST00000355237.2	+	6	1600	c.1164delA	c.(1162-1164)ggafs	p.G388fs	OCLN_ENST00000542132.1_Frame_Shift_Del_p.G66fs|OCLN_ENST00000514370.1_3'UTR|OCLN_ENST00000538151.1_Frame_Shift_Del_p.G137fs|OCLN_ENST00000396442.2_Frame_Shift_Del_p.G388fs|OCLN_ENST00000380766.2_Frame_Shift_Del_p.G334fs	NM_002538.3	NP_002529.1	Q16625	OCLN_HUMAN	occludin	388					apoptotic process (GO:0006915)|cell-cell junction organization (GO:0045216)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|protein complex assembly (GO:0006461)|S-adenosylhomocysteine metabolic process (GO:0046498)|S-adenosylmethionine metabolic process (GO:0046500)|tight junction assembly (GO:0070830)	apical plasma membrane (GO:0016324)|apicolateral plasma membrane (GO:0016327)|cell junction (GO:0030054)|cell-cell junction (GO:0005911)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|endocytic vesicle (GO:0030139)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	protein domain specific binding (GO:0019904)|structural molecule activity (GO:0005198)|thiopurine S-methyltransferase activity (GO:0008119)			endometrium(2)|large_intestine(1)|liver(1)|prostate(1)|skin(1)	6		Lung NSC(167;4.15e-05)|Prostate(74;0.00996)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;3.04e-60)|Epithelial(20;7.09e-58)|all cancers(19;1.13e-53)|Lung(70;0.0174)		GAAGAGCAGGAAGGTCAAAGA	0.512																																																0													56	51	53					5																	68840857		1747	3481	5228	SO:0001589	frameshift_variant	100506658			U49184	CCDS4006.1, CCDS54864.1	5q13.1	2014-06-13			ENSG00000197822	ENSG00000197822			8104	protein-coding gene	gene with protein product	"tight junction protein occludin TM4 minus", "phosphatase 1, regulatory subunit 115"	602876				8601611	Standard	NM_002538		Approved	PPP1R115	uc003jwu.3	Q16625	OTTHUMG00000099356	ENST00000355237.2:c.1164delA	5.37:g.68840857delA	ENSP00000347379:p.Gly388fs	Somatic		WXS	Illumina HiSeq	Phase_I	B5BU70|D2DU64|D2DU65|D2IGC0|D2IGC1|E2CYV9|Q5U1V4|Q8N6K1	Frame_Shift_Del	DEL	ENST00000355237.2	37	CCDS4006.1																																																																																				0.512	OCLN-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216794.1	NM_002538		-	68840857	A	-	68840857	7	5	675	1	0	1	0	1	0	0	0	0	10827	233	9	0	1182	0	OCLN	5	68840857	Frame_Shift_Del	DEL	A	TCGA-KO-8404-01A-11D-2310-10	62087849	68840857	112074403	38	43483										
CAMK4	814	broad.mit.edu	37	chr5	110560256	110560257	+	Frame_Shift_Ins	INS	-	-	G													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ccagtgcggccccggggaccINSgcgagcctcgtcccggatta							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr5:110560256_110560257insG	ENST00000282356.4	+	1	473_474	c.75_76insG	c.(76-78)gcgfs	p.A26fs	CAMK4_ENST00000512453.1_Frame_Shift_Ins_p.A26fs	NM_001744.4	NP_001735.1	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	26					activation of phospholipase C activity (GO:0007202)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|long-term memory (GO:0007616)|myeloid dendritic cell differentiation (GO:0043011)|neuron-neuron synaptic transmission (GO:0007270)|neurotrophin TRK receptor signaling pathway (GO:0048011)|nucleocytoplasmic transport (GO:0006913)|positive regulation of protein export from nucleus (GO:0046827)|positive regulation of transcription, DNA-templated (GO:0045893)|protein phosphorylation (GO:0006468)|regulation of osteoclast differentiation (GO:0045670)|regulation of T cell differentiation in thymus (GO:0033081)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|calmodulin-dependent protein kinase activity (GO:0004683)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(13)|ovary(3)|prostate(2)|skin(1)|urinary_tract(1)	30		all_cancers(142;1.49e-05)|all_epithelial(76;1.82e-07)|Prostate(80;0.00964)|all_lung(232;0.0181)|Lung NSC(167;0.0298)|Ovarian(225;0.0446)|Colorectal(57;0.0478)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;3.79e-08)|Epithelial(69;5.29e-08)|all cancers(49;1.1e-05)|COAD - Colon adenocarcinoma(37;0.109)		CCCCGGGGACCGCGAGCCTCGT	0.673																																																0																																										SO:0001589	frameshift_variant	814			D30742	CCDS4103.1	5q22.1	2012-09-20			ENSG00000152495	ENSG00000152495	2.7.11.17		1464	protein-coding gene	gene with protein product	"brain Ca++-calmodulin-dependent protein kinase type IV", "calcium/calmodulin-dependent protein kinase type IV catalytic chain", "CAM kinase IV", "CAM kinase- GR"	114080				2536634	Standard	NM_001744		Approved	CaMK-GR	uc003kpf.3	Q16566	OTTHUMG00000128792	ENST00000282356.4:c.76dupG	5.37:g.110560257_110560257dupG	ENSP00000282356:p.Ala26fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSZ7	Frame_Shift_Ins	INS	ENST00000282356.4	37	CCDS4103.1																																																																																				0.673	CAMK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250719.2	NM_001744		G	110560257	-	G	110560256	7	5	675	1	0	1	1	0	0	0	0	0	2607	639	23	0	77	0	CAMK4	5	110560256	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	41719399	110560256	70355004	39	43484										
SEMA6A	57556	broad.mit.edu	37	chr5	115782974	115782975	+	Frame_Shift_Ins	INS	-	-	G													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	accacgctggggatgtggctINSgggggaggcccgcaggggca							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr5:115782974_115782975insG	ENST00000343348.6	-	19	3214_3215	c.2427_2428insC	c.(2425-2430)cccagcfs	p.S810fs	SEMA6A_ENST00000510263.1_Frame_Shift_Ins_p.S810fs|CTB-118N6.3_ENST00000508424.1_RNA|SEMA6A_ENST00000513137.1_Frame_Shift_Ins_p.S237fs|SEMA6A_ENST00000503865.1_Frame_Shift_Ins_p.S189fs|CTB-118N6.3_ENST00000510682.1_RNA|CTB-118N6.3_ENST00000514214.1_RNA|CTB-118N6.3_ENST00000508640.1_RNA|CTB-118N6.3_ENST00000512128.1_RNA|SEMA6A_ENST00000257414.8_Frame_Shift_Ins_p.S827fs|SEMA6A_ENST00000282394.6_Frame_Shift_Ins_p.S287fs	NM_020796.3	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A	810	Pro-rich.				apoptotic process (GO:0006915)|axon guidance (GO:0007411)|cell surface receptor signaling pathway (GO:0007166)|centrosome localization (GO:0051642)|cytoskeleton organization (GO:0007010)|nervous system development (GO:0007399)|neuron migration (GO:0001764)|organ morphogenesis (GO:0009887)|positive regulation of neuron migration (GO:2001224)|semaphorin-plexin signaling pathway (GO:0071526)	axon (GO:0030424)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)	transmembrane signaling receptor activity (GO:0004888)			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(15)|ovary(2)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	31		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)		GGGATGTGGCTGGGGGAGGCCC	0.639																																																0																																										SO:0001589	frameshift_variant	57556			AB037789	CCDS47256.1, CCDS75288.1	5q23.1	2014-07-29			ENSG00000092421			"Semaphorins"	10738	protein-coding gene	gene with protein product	"sema VIa"	605885		SEMAQ		9204478, 10993894	Standard	XM_006714663		Approved	KIAA1368, SEMA6A1, SEMA, HT018	uc010jck.3	Q9H2E6	OTTHUMG00000162987	ENST00000343348.6:c.2428dupC	5.37:g.115782979_115782979dupG	ENSP00000345512:p.Ser810fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9P2H9	Frame_Shift_Ins	INS	ENST00000343348.6	37	CCDS47256.1																																																																																				0.639	SEMA6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371270.1	NM_020796		G	115782975	-	G	115782974	7	5	675	1	0	1	1	0	0	0	0	0	14052	1580	55	0	668	0	SEMA6A	5	115782974	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	5222718	115782974	65132286	40	43485										
PCDHB10	56126	mdanderson.org	37	chr5	140573473	140573473	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	acgtcaatgacaacgcccccGccttcacccaaacctcctac	4	20	2	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr5:140573473G>A	ENST00000239446.4	+	1	1532	c.1348G>A	c.(1348-1350)Gcc>Acc	p.A450T		NM_018930.3	NP_061753.1	Q9UN67	PCDBA_HUMAN	protocadherin beta 10	450	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(14)|lung(30)|ovary(4)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	76			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAACGCCCCCGCCTTCACCCA	0.592																																																0													54	55	55					5																	140573473		2203	4291	6494	SO:0001583	missense	56126			AF152489	CCDS4252.1	5q31.3	2010-06-15			ENSG00000120324	ENSG00000120324		"Cadherins / Protocadherins : Clustered"	8681	other	protocadherin		606336				10380929	Standard	NM_018930		Approved		uc003lix.3	Q9UN67	OTTHUMG00000129626	ENST00000239446.4:c.1348G>A	5.37:g.140573473G>A	ENSP00000239446:p.Ala450Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q96T99	Missense_Mutation	SNP	ENST00000239446.4	37	CCDS4252.1	.	.	.	.	.	.	.	.	.	.	g	3.869	-0.028342	0.07589	.	.	ENSG00000120324	ENST00000239446	T	0.01767	4.65	3.22	-0.906	0.10524	Cadherin (3);Cadherin-like (1);	.	.	.	.	T	0.01320	0.0043	N	0.20845	0.615	0.09310	N	1	B	0.15473	0.013	B	0.12156	0.007	T	0.48514	-0.9029	9	0.18710	T	0.47	.	7.9509	0.30014	0.4614:0.0:0.5386:0.0	.	450	Q9UN67	PCDBA_HUMAN	T	450	ENSP00000239446:A450T	ENSP00000239446:A450T	A	+	1	0	PCDHB10	140553657	0.000000	0.05858	0.767000	0.31495	0.527000	0.34593	-0.266000	0.08631	-0.351000	0.08249	-0.274000	0.10170	GCC		0.592	PCDHB10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251821.1	NM_018930		A	140573473	G	A	140573473	3	1	675	1	0	0	0	0	1	0	0	0	11542	1087	38	1	1350	1	PCDHB10	5	140573473	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	24790499	140573473	40341787	41	43486										
GLRA1	2741	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	151202298	151202298	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tccagtagaacatgttgaaaAtgaggaaggccatggggaag	14	5	0	3			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr5:151202298A>C	ENST00000455880.2	-	9	1596	c.1310T>G	c.(1309-1311)aTt>aGt	p.I437S	GLRA1_ENST00000274576.4_Missense_Mutation_p.I429S|GLRA1_ENST00000545569.1_Missense_Mutation_p.I346S			P23415	GLRA1_HUMAN	glycine receptor, alpha 1	437					acrosome reaction (GO:0007340)|action potential (GO:0001508)|adult walking behavior (GO:0007628)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|ion transmembrane transport (GO:0034220)|ion transport (GO:0006811)|muscle contraction (GO:0006936)|negative regulation of transmission of nerve impulse (GO:0051970)|neuromuscular process controlling posture (GO:0050884)|neuropeptide signaling pathway (GO:0007218)|positive regulation of acrosome reaction (GO:2000344)|regulation of inhibitory postsynaptic membrane potential (GO:0060080)|regulation of membrane potential (GO:0042391)|regulation of respiratory gaseous exchange by neurological system process (GO:0002087)|righting reflex (GO:0060013)|startle response (GO:0001964)|synaptic transmission, glycinergic (GO:0060012)|transmembrane transport (GO:0055085)|visual perception (GO:0007601)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|external side of plasma membrane (GO:0009897)|inhibitory synapse (GO:0060077)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|intracellular membrane-bounded organelle (GO:0043231)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	extracellular-glycine-gated chloride channel activity (GO:0016934)|glycine binding (GO:0016594)|taurine binding (GO:0030977)|transmitter-gated ion channel activity (GO:0022824)			breast(1)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(6)|ovary(1)|prostate(1)|skin(3)|urinary_tract(1)	23		all_hematologic(541;0.0341)|Medulloblastoma(196;0.0912)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Ethanol(DB00898)|Ginkgo biloba(DB01381)|Glycine(DB00145)|Halothane(DB01159)|Isoflurane(DB00753)|Lindane(DB00431)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CATGTTGAAAATGAGGAAGGC	0.512																																																0													109	114	112					5																	151202298		2203	4300	6503	SO:0001583	missense	2741				CCDS4320.1, CCDS54942.1	5q33.1	2012-02-07	2008-01-24		ENSG00000145888	ENSG00000145888		"Ligand-gated ion channels / Glycine receptors"	4326	protein-coding gene	gene with protein product	"startle disease/hyperekplexia", "stiff person syndrome"	138491	"glycine receptor, alpha 1 (startle disease/hyperekplexia)"	STHE		1355335, 8298642	Standard	NM_000171		Approved		uc003lut.3	P23415	OTTHUMG00000130121	ENST00000455880.2:c.1310T>G	5.37:g.151202298A>C	ENSP00000411593:p.Ile437Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6T3|Q14C77|Q6DJV9	Missense_Mutation	SNP	ENST00000455880.2	37	CCDS54942.1	.	.	.	.	.	.	.	.	.	.	A	19.94	3.920068	0.73098	.	.	ENSG00000145888	ENST00000274576;ENST00000455880;ENST00000545569	D;D;D	0.86366	-2.11;-2.11;-2.11	5.03	5.03	0.67393	Neurotransmitter-gated ion-channel transmembrane domain (2);	0.000000	0.85682	D	0.000000	D	0.91310	0.7260	M	0.62088	1.915	0.58432	D	0.999999	D;D;P	0.57899	0.981;0.981;0.75	P;P;P	0.62382	0.901;0.901;0.697	D	0.92146	0.5724	10	0.66056	D	0.02	.	14.7566	0.69569	1.0:0.0:0.0:0.0	.	437;346;429	P23415;Q14C71;P23415-2	GLRA1_HUMAN;.;.	S	429;437;346	ENSP00000274576:I429S;ENSP00000411593:I437S;ENSP00000445913:I346S	ENSP00000274576:I429S	I	-	2	0	GLRA1	151182491	1.000000	0.71417	1.000000	0.80357	0.954000	0.61252	9.068000	0.93961	1.871000	0.54225	0.460000	0.39030	ATT		0.512	GLRA1-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000373959.1			C	151202298	A	C	151202298	3	2	675	1	0	0	0	0	1	0	0	0	6461	101	4	5	67	5	GLRA1	5	151202298	Missense_Mutation	SNP	A	TCGA-KO-8404-01A-11D-2310-10	10628825	151202298	29712962	42	43487										
OR2B2	81697	bcgsc.ca	37	chr6	27879484	27879484	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tcacgggtattagaaggaatAgcacactgatgaagaatagt	11	5	1	4			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr6:27879484A>G	ENST00000303324.2	-	1	690	c.614T>C	c.(613-615)cTa>cCa	p.L205P		NM_033057.2	NP_149046.2	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B, member 2	205						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			cervix(1)|endometrium(4)|large_intestine(5)|lung(10)|prostate(1)|urinary_tract(1)	22						TAGAAGGAATAGCACACTGAT	0.428																																																0													119	109	112					6																	27879484		2203	4300	6503	SO:0001583	missense	81697			Z98744	CCDS4641.1	6p22.3-p21.3	2014-02-19	2002-02-28		ENSG00000168131	ENSG00000168131		"GPCR / Class A : Olfactory receptors"	13966	protein-coding gene	gene with protein product			"olfactory receptor, family 2, subfamily B, member 9"	OR2B9			Standard	NM_033057		Approved	hs6M1-10, OR6-1, OR2B2Q	uc011dkw.2	Q9GZK3	OTTHUMG00000014495	ENST00000303324.2:c.614T>C	6.37:g.27879484A>G	ENSP00000304419:p.Leu205Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNH2|Q9GZL2|Q9Y299	Missense_Mutation	SNP	ENST00000303324.2	37	CCDS4641.1	.	.	.	.	.	.	.	.	.	.	A	10.11	1.260357	0.23051	.	.	ENSG00000168131	ENST00000303324	T	0.44881	0.91	4.32	3.15	0.36227	GPCR, rhodopsin-like superfamily (1);	0.255751	0.19627	N	0.109774	T	0.38026	0.1025	L	0.55017	1.72	0.25548	N	0.987118	D	0.69078	0.997	D	0.68483	0.958	T	0.15492	-1.0435	10	0.62326	D	0.03	.	6.1028	0.20057	0.7868:0.0:0.2132:0.0	.	205	Q9GZK3	OR2B2_HUMAN	P	205	ENSP00000304419:L205P	ENSP00000304419:L205P	L	-	2	0	OR2B2	27987463	0.015000	0.18098	0.674000	0.29902	0.056000	0.15407	2.805000	0.47939	0.757000	0.33036	0.460000	0.39030	CTA		0.428	OR2B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040163.1			G	27879484	A	G	27879484	3	3	675	1	0	0	0	0	1	0	0	0	10996	420	15	3	463	3	OR2B2	6	27879484	Missense_Mutation	SNP	A	TCGA-KO-8404-01A-11D-2310-10		27879484	143235583	43	43488										
SCAND3	114821	hgsc.bcm.edu;ucsc.edu	37	chr6	28542931	28542931	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ctaaatgcactttcacatggAgtctgttgcatgcttctgtg	9	9	3	0			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr6:28542931A>T	ENST00000452236.2	-	3	2168	c.1551T>A	c.(1549-1551)acT>acA	p.T517T	SCAND3_ENST00000530247.1_5'Flank	NM_052923.1	NP_443155.1														NS(3)|autonomic_ganglia(1)|breast(5)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(14)|liver(1)|lung(29)|ovary(2)|prostate(1)|skin(6)|upper_aerodigestive_tract(3)	71						TTTCACATGGAGTCTGTTGCA	0.423																																																0													134	131	132					6																	28542931		2203	4300	6503	SO:0001819	synonymous_variant	114821																														ENST00000452236.2:c.1551T>A	6.37:g.28542931A>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000452236.2	37	CCDS34355.1																																																																																				0.423	SCAND3-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000043551.3			T	28542931	A	T	28542931	2	4	675	1	0	0	0	0	0	0	0	1	13889	291	11	5		5	SCAND3	6	28542931	Silent	SNP	A	TCGA-KO-8404-01A-11D-2310-10	663447	28542931	142572136	44	43489										
CCHCR1	54535	broad.mit.edu;hgsc.bcm.edu	37	chr6	31122478	31122478	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gcagcgaggtctcccgcaggAgccggacctcctcctccagc	12	18	1	0			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr6:31122478A>G	ENST00000376266.5	-	4	451	c.329T>C	c.(328-330)cTc>cCc	p.L110P	CCHCR1_ENST00000396268.3_Missense_Mutation_p.L199P|CCHCR1_ENST00000396263.2_Missense_Mutation_p.L110P|CCHCR1_ENST00000451521.2_Missense_Mutation_p.L163P|CCHCR1_ENST00000480060.1_Intron	NM_019052.3	NP_061925.2	Q8TD31	CCHCR_HUMAN	coiled-coil alpha-helical rod protein 1	110					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|protein export from nucleus (GO:0006611)	centriole (GO:0005814)|cytoplasm (GO:0005737)|nucleus (GO:0005634)				breast(1)|endometrium(1)|kidney(3)|large_intestine(4)|lung(13)|skin(1)	23						CTCCCGCAGGAGCCGGACCTC	0.687																																																0													37	44	41					6																	31122478		1507	2709	4216	SO:0001583	missense	54535			AF216493	CCDS4695.1, CCDS43445.1, CCDS47397.1	6p21.3	2007-08-01	2005-02-15	2005-02-16	ENSG00000204536	ENSG00000204536			13930	protein-coding gene	gene with protein product		605310	"chromosome 6 open reading frame 18"	C6orf18		10888604, 10545595	Standard	NM_019052		Approved	HCR	uc003nsp.4	Q8TD31	OTTHUMG00000031112	ENST00000376266.5:c.329T>C	6.37:g.31122478A>G	ENSP00000365442:p.Leu110Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A2ABH6|E9PE84|Q2TB67|Q5SQ82|Q5STE9|Q9NRK8|Q9NWY9|Q9NXJ4|Q9NXK3|Q9Y6W1|Q9Y6W2	Missense_Mutation	SNP	ENST00000376266.5	37	CCDS4695.1	.	.	.	.	.	.	.	.	.	.	A	11.52	1.664623	0.29604	.	.	ENSG00000204536	ENST00000396268;ENST00000376266;ENST00000396263;ENST00000440185;ENST00000451521;ENST00000448141;ENST00000508683;ENST00000448162;ENST00000513222;ENST00000503420;ENST00000515274;ENST00000507751;ENST00000455279;ENST00000412245;ENST00000503934;ENST00000426967;ENST00000502557;ENST00000507829	T;T;T;T;T;T;T;T;T;T;T;T;T;T;T	0.03772	3.81;3.81;3.81;3.81;3.81;3.81;3.81;3.81;3.81;3.81;3.81;3.81;3.81;3.81;3.81	4.8	-6.7	0.01766	.	1.580850	0.03945	N	0.287466	T	0.01627	0.0052	N	0.22421	0.69	0.09310	N	0.999998	P;P;P;P;P	0.48407	0.583;0.523;0.523;0.91;0.666	B;B;B;P;B	0.48089	0.378;0.305;0.305;0.566;0.261	T	0.25257	-1.0137	10	0.27082	T	0.32	0.1774	10.2498	0.43362	0.2359:0.14:0.6242:0.0	.	110;110;110;163;199	B4DIA2;A8K081;Q8TD31;E9PE84;Q8TD31-2	.;.;CCHCR_HUMAN;.;.	P	199;110;110;110;163;74;74;110;84;74;110;110;110;136;110;208;110;110	ENSP00000379566:L199P;ENSP00000365442:L110P;ENSP00000379561:L110P;ENSP00000401039:L163P;ENSP00000414323:L74P;ENSP00000421393:L74P;ENSP00000390027:L110P;ENSP00000425682:L84P;ENSP00000421992:L74P;ENSP00000420941:L110P;ENSP00000398715:L110P;ENSP00000425595:L110P;ENSP00000402432:L208P;ENSP00000425377:L110P;ENSP00000420911:L110P	ENSP00000365442:L110P	L	-	2	0	CCHCR1	31230457	0.000000	0.05858	0.027000	0.17364	0.413000	0.31143	-0.838000	0.04372	-1.150000	0.02840	-0.312000	0.09012	CTC		0.687	CCHCR1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000076190.5	NM_019052		G	31122478	A	G	31122478	3	3	675	1	0	0	0	0	1	0	0	0	2879	304	11	3	2079	3	CCHCR1	6	31122478	Missense_Mutation	SNP	A	TCGA-KO-8404-01A-11D-2310-10	2579547	31122478	139992589	45	43490										
HLA-DRB5	3127	mdanderson.org	37	chr6	32487390	32487390	+	Missense_Mutation	SNP	T	T	G													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gaggttgtggtgctgcagggTctgggtccttgcaggataca					rs77180119	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr6:32487390T>G	ENST00000374975.3	-	3	471	c.409A>C	c.(409-411)Acc>Ccc	p.T137P		NM_002125.3	NP_002116.2			major histocompatibility complex, class II, DR beta 5											NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|pancreas(1)|prostate(1)|stomach(2)	10						TGCTGCAGGGTCTGGGTCCTT	0.517													G|||	3551	0.709065	0.736	0.8357	5008	,	,		6170	0.6498		0.7823	False		,,,				2504	0.5685															0								G	PRO/THR	2269,1289		1096,77,606	38	41	40		409	1.7	1	6	dbSNP_131	40	5238,2644		2530,178,1233	no	missense	HLA-DRB5	NM_002125.3	38	3626,255,1839	GG,GT,TT		33.5448,36.2282,34.3794	benign	137/267	32487390	7507,3933	1779	3941	5720	SO:0001583	missense	3127				CCDS4751.1	6p21.3	2013-01-11			ENSG00000198502	ENSG00000198502		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4953	protein-coding gene	gene with protein product		604776					Standard	NM_002125		Approved		uc003obj.3	Q30154	OTTHUMG00000031027	ENST00000374975.3:c.409A>C	6.37:g.32487390T>G	ENSP00000364114:p.Thr137Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000374975.3	37	CCDS4751.1	1531	0.701007326007326	316	0.6422764227642277	279	0.7707182320441989	384	0.6713286713286714	552	0.7282321899736148	.	0.033	-1.320251	0.01320	0.637718	0.664552	ENSG00000198502	ENST00000374975	T	0.02890	4.12	4.69	1.73	0.24493	Immunoglobulin-like (1);Immunoglobulin C1-set (1);Immunoglobulin-like fold (1);	0.662393	0.15664	N	0.250756	T	0.00241	0.0007	N	0.00360	-1.595	0.80722	P	0.0	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.38178	-0.9673	9	0.02654	T	1	.	7.637	0.28272	0.0:0.2436:0.342:0.4144	.	64;137	Q29973;Q30154	.;DRB5_HUMAN	P	137	ENSP00000364114:T137P	ENSP00000364114:T137P	T	-	1	0	HLA-DRB5	32595368	0.029000	0.19370	0.970000	0.41538	0.617000	0.37484	0.078000	0.14761	0.323000	0.23307	-0.947000	0.02670	ACC		0.517	HLA-DRB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076022.2	NM_002125		G	32487390	T	G	32487390	3	3	675	1	0	0	0	0	1	0	0	0	7216	1667	58	5	407	5	HLA-DRB5	6	32487390	Missense_Mutation	SNP	T	TCGA-KO-8404-01A-11D-2310-10	1364912	32487390	138627677	46	43491	434	2								
HLA-DRB5	3127	mdanderson.org	37	chr6	32487398	32487398	+	Missense_Mutation	SNP	C	C	T													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ggtgctgcagggtctgggtcCttgcaggatacacagtcacc					rs115198947	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr6:32487398C>T	ENST00000374975.3	-	3	463	c.401G>A	c.(400-402)aGg>aAg	p.R134K		NM_002125.3	NP_002116.2			major histocompatibility complex, class II, DR beta 5											NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|pancreas(1)|prostate(1)|stomach(2)	10						GGTCTGGGTCCTTGCAGGATA	0.507													T|||	3551	0.709065	0.736	0.8357	5008	,	,		5924	0.6498		0.7833	False		,,,				2504	0.5675															0								T	LYS/ARG	2211,1295		1063,85,605	37	40	39		401	2.3	0.1	6	dbSNP_132	39	5153,2663		2482,189,1237	no	missense	HLA-DRB5	NM_002125.3	26	3545,274,1842	TT,TC,CC		34.0711,36.9367,34.9585	benign	134/267	32487398	7364,3958	1753	3908	5661	SO:0001583	missense	3127				CCDS4751.1	6p21.3	2013-01-11			ENSG00000198502	ENSG00000198502		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4953	protein-coding gene	gene with protein product		604776					Standard	NM_002125		Approved		uc003obj.3	Q30154	OTTHUMG00000031027	ENST00000374975.3:c.401G>A	6.37:g.32487398C>T	ENSP00000364114:p.Arg134Lys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000374975.3	37	CCDS4751.1	1518	0.695054945054945	313	0.6361788617886179	278	0.7679558011049724	379	0.6625874125874126	548	0.7229551451187335	.	0.317	-0.964494	0.02249	0.630633	0.659289	ENSG00000198502	ENST00000374975	T	0.02552	4.25	4.69	2.31	0.28768	Immunoglobulin-like (1);Immunoglobulin C1-set (1);Immunoglobulin-like fold (1);	0.538580	0.21625	N	0.071572	T	0.00271	0.0008	N	0.00690	-1.25	0.58432	P	1.0000000000287557E-6	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.40175	-0.9577	9	0.02654	T	1	.	7.5532	0.27808	0.0:0.2637:0.0:0.7363	.	61;134	Q29973;Q30154	.;DRB5_HUMAN	K	134	ENSP00000364114:R134K	ENSP00000364114:R134K	R	-	2	0	HLA-DRB5	32595376	0.152000	0.22762	0.066000	0.19879	0.555000	0.35460	0.188000	0.17018	0.099000	0.17552	-0.369000	0.07265	AGG		0.507	HLA-DRB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076022.2	NM_002125		T	32487398	C	T	32487398	3	4	675	1	0	0	0	0	1	0	0	0	7216	681	24	2	415	2	HLA-DRB5	6	32487398	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	8	32487398	138627669	47	43492	434	2								
HLA-DRB5	3127	mdanderson.org	37	chr6	32497970	32497970	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tcactgtcagctttgccatgTaggaacctccagggagcttc	10	12	2	0	rs201644181		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr6:32497970T>C	ENST00000374975.3	-	1	94	c.32A>G	c.(31-33)tAc>tGc	p.Y11C		NM_002125.3	NP_002116.2			major histocompatibility complex, class II, DR beta 5											NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|pancreas(1)|prostate(1)|stomach(2)	10						CTTTGCCATGTAGGAACCTCC	0.567																																																0													56	64	61					6																	32497970		2172	4263	6435	SO:0001583	missense	3127				CCDS4751.1	6p21.3	2013-01-11			ENSG00000198502	ENSG00000198502		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4953	protein-coding gene	gene with protein product		604776					Standard	NM_002125		Approved		uc003obj.3	Q30154	OTTHUMG00000031027	ENST00000374975.3:c.32A>G	6.37:g.32497970T>C	ENSP00000364114:p.Tyr11Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000374975.3	37	CCDS4751.1	.	.	.	.	.	.	.	.	.	.	.	0.007	-2.014668	0.00422	.	.	ENSG00000198502	ENST00000374975	T	0.00256	8.42	4.54	0.796	0.18648	MHC classes I/II-like antigen recognition protein (1);	.	.	.	.	T	0.00012	0.0000	N	0.00419	-1.52	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.27191	-1.0081	9	0.02654	T	1	.	9.3114	0.37908	0.0:0.755:0.0:0.245	.	11	Q30154	DRB5_HUMAN	C	11	ENSP00000364114:Y11C	ENSP00000364114:Y11C	Y	-	2	0	HLA-DRB5	32605948	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	0.070000	0.14573	-0.038000	0.13624	-2.830000	0.00107	TAC		0.567	HLA-DRB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076022.2	NM_002125		C	32497970	T	C	32497970	3	2	675	1	0	0	0	0	1	0	0	0	7216	1638	57	3	792	3	HLA-DRB5	6	32497970	Missense_Mutation	SNP	T	TCGA-KO-8404-01A-11D-2310-10	10572	32497970	138617097	48	43493										
SYNGAP1	8831	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	33405554	33405554	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ctgcctggatgacatgctgtAtgcacgcaccacctccaagc	9	15	0	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr6:33405554A>C	ENST00000418600.2	+	8	973	c.872A>C	c.(871-873)tAt>tCt	p.Y291S	MIR5004_ENST00000579078.1_RNA|SYNGAP1_ENST00000293748.5_Missense_Mutation_p.Y291S|SYNGAP1_ENST00000428982.2_Missense_Mutation_p.Y232S|SYNGAP1_ENST00000496374.1_3'UTR	NM_006772.2	NP_006763.2	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	291	C2.				dendrite development (GO:0016358)|negative regulation of axonogenesis (GO:0050771)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of Ras protein signal transduction (GO:0046580)|pattern specification process (GO:0007389)|positive regulation of Ras GTPase activity (GO:0032320)|Ras protein signal transduction (GO:0007265)|receptor clustering (GO:0043113)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of MAPK cascade (GO:0043408)|regulation of synapse structure and activity (GO:0050803)|regulation of synaptic plasticity (GO:0048167)|visual learning (GO:0008542)	cytoplasm (GO:0005737)|dendritic shaft (GO:0043198)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)	Rab GTPase activator activity (GO:0005097)|Ras GTPase activator activity (GO:0005099)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(9)|lung(15)|ovary(7)|pancreas(1)|stomach(1)|urinary_tract(1)	43						GACATGCTGTATGCACGCACC	0.617																																																0													84	86	85					6																	33405554		2203	4300	6503	SO:0001583	missense	8831			AB067525	CCDS34434.2	6p21.3	2010-06-25	2010-06-25		ENSG00000197283	ENSG00000197283			11497	protein-coding gene	gene with protein product		603384	"synaptic Ras GTPase activating protein 1 homolog (rat)"			9581761, 18323856	Standard	NM_006772		Approved	SYNGAP, RASA5, KIAA1938	uc011dri.2	Q96PV0	OTTHUMG00000031096	ENST00000418600.2:c.872A>C	6.37:g.33405554A>C	ENSP00000403636:p.Tyr291Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A2AB17|A2BEL6|A2BEL7|A8MQC4|Q8TCS2|Q9UGE2	Missense_Mutation	SNP	ENST00000418600.2	37	CCDS34434.2	.	.	.	.	.	.	.	.	.	.	A	20.6	4.013696	0.75161	.	.	ENSG00000197283	ENST00000293748;ENST00000418600;ENST00000449372;ENST00000428982	T;T;T	0.38077	1.16;1.16;1.16	4.79	4.79	0.61399	C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);	0.142516	0.48767	D	0.000170	T	0.56108	0.1963	M	0.86343	2.81	0.80722	D	1	D;D;D;P	0.89917	1.0;1.0;1.0;0.88	D;D;D;P	0.87578	0.998;0.996;0.996;0.758	T	0.65364	-0.6186	10	0.87932	D	0	.	12.3329	0.55049	1.0:0.0:0.0:0.0	.	291;291;291;291	Q96PV0;Q96PV0-2;Q96PV0-4;B7ZCA0	SYGP1_HUMAN;.;.;.	S	291;291;291;232	ENSP00000293748:Y291S;ENSP00000403636:Y291S;ENSP00000412475:Y232S	ENSP00000293748:Y291S	Y	+	2	0	SYNGAP1	33513532	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.320000	0.79064	2.009000	0.58944	0.533000	0.62120	TAT		0.617	SYNGAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076151.4	XM_166407		C	33405554	A	C	33405554	3	2	675	1	0	0	0	0	1	0	0	0	15459	449	16	5	902	5	SYNGAP1	6	33405554	Missense_Mutation	SNP	A	TCGA-KO-8404-01A-11D-2310-10	907584	33405554	137709513	49	43494										
COL19A1	1310	broad.mit.edu;mdanderson.org	37	chr6	70873233	70873233	+	Splice_Site	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aacttagttttgtgttttacAgggcttaatgggaagaactg	11	4	0	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr6:70873233A>T	ENST00000322773.4	+	36	2448		c.e36-1		COL19A1_ENST00000393344.1_Splice_Site	NM_001858.4	NP_001849.2	Q14993	COJA1_HUMAN	collagen, type XIX, alpha 1						cell adhesion (GO:0007155)|cell differentiation (GO:0030154)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|single organismal cell-cell adhesion (GO:0016337)|skeletal muscle tissue development (GO:0007519)|skeletal system development (GO:0001501)	collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	extracellular matrix structural constituent (GO:0005201)|protein binding, bridging (GO:0030674)			breast(4)|central_nervous_system(3)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(5)|kidney(4)|large_intestine(8)|lung(54)|ovary(3)|prostate(2)|skin(10)|upper_aerodigestive_tract(4)|urinary_tract(2)	109						TGTGTTTTACAGGGCTTAATG	0.403																																																0													86	75	79					6																	70873233		2203	4300	6503	SO:0001630	splice_region_variant	1310				CCDS4970.1	6q12-q13	2013-01-16			ENSG00000082293	ENSG00000082293		"Collagens"	2196	protein-coding gene	gene with protein product		120165				7916703, 9143499	Standard	NM_001858		Approved		uc003pfc.1	Q14993	OTTHUMG00000014987	ENST00000322773.4:c.2347-1A>T	6.37:g.70873233A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q00559|Q05850|Q12885|Q13676|Q14DH1|Q5JUF0|Q5T424|Q9H572|Q9NPZ2|Q9NQP2	Splice_Site	SNP	ENST00000322773.4	37	CCDS4970.1	.	.	.	.	.	.	.	.	.	.	A	16.89	3.247720	0.59103	.	.	ENSG00000082293	ENST00000322773;ENST00000393344	.	.	.	6.06	6.06	0.98353	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.6154	0.84909	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	COL19A1	70929954	1.000000	0.71417	1.000000	0.80357	0.527000	0.34593	6.509000	0.73725	2.315000	0.78130	0.533000	0.62120	.		0.403	COL19A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041127.1		Intron	T	70873233	A	T	70873233	5	4	675	1	0	0	0	0	0	0	1	0	3678	202	7	5	2483	5	COL19A1	6	70873233	Splice_Site	SNP	A	TCGA-KO-8404-01A-11D-2310-10	37467679	70873233	100241834	50	43495										
TRIM50	135892	mdanderson.org	37	chr7	72734197	72734197	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gcgatgagctcatccaccttTttctgctcctgcttcagctc	7	15	3	1	rs3108461		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr7:72734197T>C	ENST00000333149.2	-	3	644	c.444A>G	c.(442-444)aaA>aaG	p.K148K	TRIM50_ENST00000453152.1_Silent_p.K148K|TRIM50_ENST00000493498.1_5'Flank	NM_178125.2	NP_835226.2	Q86XT4	TRI50_HUMAN	tripartite motif containing 50	148						cytoplasm (GO:0005737)	ligase activity (GO:0016874)|zinc ion binding (GO:0008270)			endometrium(3)|kidney(1)|large_intestine(2)|lung(11)|ovary(1)|skin(2)	20						CATCCACCTTTTTCTGCTCCT	0.612																																																0																																										SO:0001819	synonymous_variant	135892			AY081948	CCDS34654.1	7q11.23	2013-01-09	2011-01-25	2006-03-31	ENSG00000146755	ENSG00000146755		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	19017	protein-coding gene	gene with protein product		612548	"tripartite motif-containing 50A", "tripartite motif-containing 50"	TRIM50A			Standard	NM_001281450		Approved	FLJ32804	uc003txy.1	Q86XT4	OTTHUMG00000156805	ENST00000333149.2:c.444A>G	7.37:g.72734197T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q86XT3	Silent	SNP	ENST00000333149.2	37	CCDS34654.1																																																																																				0.612	TRIM50-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345925.1	NM_178125		C	72734197	T	C	72734197	2	2	675	1	0	0	0	0	0	0	0	1	16538	1838	64	3		3	TRIM50	7	72734197	Silent	SNP	T	TCGA-KO-8404-01A-11D-2310-10		72734197	86404466	51	43496										
NCF1	653361	mdanderson.org	37	chr7	74197914	74197914	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aagcgaggctggatcccagcGtccttcctcgagcccctgga	12	15	0	0			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr7:74197914G>A	ENST00000289473.4	+	7	691	c.621G>A	c.(619-621)gcG>gcA	p.A207A	NCF1_ENST00000443956.3_3'UTR	NM_000265.4	NP_000256.4	P14598	NCF1_HUMAN	neutrophil cytosolic factor 1	207	SH3 1. {ECO:0000255|PROSITE- ProRule:PRU00192}.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|cell proliferation (GO:0008283)|cellular defense response (GO:0006968)|hydrogen peroxide biosynthetic process (GO:0050665)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|interaction with host (GO:0051701)|leukotriene metabolic process (GO:0006691)|negative regulation of smooth muscle contraction (GO:0045986)|neutrophil mediated killing of fungus (GO:0070947)|neutrophil mediated killing of gram-positive bacterium (GO:0070946)|oxidation-reduction process (GO:0055114)|phagosome maturation (GO:0090382)|protein targeting to membrane (GO:0006612)|respiratory burst (GO:0045730)|respiratory burst involved in defense response (GO:0002679)|response to yeast (GO:0001878)|superoxide anion generation (GO:0042554)|superoxide metabolic process (GO:0006801)	cytosol (GO:0005829)|dendrite (GO:0030425)|extrinsic component of membrane (GO:0019898)|Golgi apparatus (GO:0005794)|NADPH oxidase complex (GO:0043020)|neuronal cell body (GO:0043025)|phagolysosome (GO:0032010)|rough endoplasmic reticulum (GO:0005791)	electron carrier activity (GO:0009055)|phosphatidylinositol binding (GO:0035091)|phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)|SH3 domain binding (GO:0017124)|superoxide-generating NADPH oxidase activity (GO:0016175)			breast(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(2)|skin(3)	10					Dextromethorphan(DB00514)	GGATCCCAGCGTCCTTCCTCG	0.637																																																0													72	63	66					7																	74197914		2202	4298	6500	SO:0001819	synonymous_variant	653361			M25665	CCDS34657.1	7q11.23	2014-09-17	2008-07-31		ENSG00000158517	ENSG00000158517			7660	protein-coding gene	gene with protein product	"NADPH oxidase organizer 2", "chronic granulomatous disease, autosomal 1"	608512	"neutrophil cytosolic factor 1 (47kD, chronic granulomatous disease, autosomal 1)"				Standard	NM_000265		Approved	p47phox, NOXO2, NCF1A, SH3PXD1A	uc022aft.1	P14598	OTTHUMG00000149965	ENST00000289473.4:c.621G>A	7.37:g.74197914G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NEH2|A8K7S9|O43842|Q2PP07|Q53FR5|Q9BU90|Q9BXI7|Q9BXI8|Q9UDV9|Q9UMU2	Silent	SNP	ENST00000289473.4	37	CCDS34657.1																																																																																				0.637	NCF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000314560.1	NM_000265		A	74197914	G	A	74197914	2	1	675	1	0	0	0	0	0	0	0	1	10223	1132	40	1		1	NCF1	7	74197914	Silent	SNP	G	TCGA-KO-8404-01A-11D-2310-10	1463717	74197914	84940749	52	43497										
FGL2	10875	broad.mit.edu;mdanderson.org	37	chr7	76828642	76828642	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aagattcagcttctccaggcGaccatgaagtacattgatct	8	10	3	3			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr7:76828642G>A	ENST00000248598.5	-	1	501	c.469C>T	c.(469-471)Cgc>Tgc	p.R157C	CCDC146_ENST00000431197.1_Intron|CCDC146_ENST00000285871.4_Intron|RP11-467H10.2_ENST00000459742.1_RNA	NM_006682.2	NP_006673.1	Q14314	FGL2_HUMAN	fibrinogen-like 2	157						extracellular vesicular exosome (GO:0070062)|fibrinogen complex (GO:0005577)				breast(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|lung(3)|prostate(1)|skin(2)	13						TTCTCCAGGCGACCATGAAGT	0.383																																																0													119	111	114					7																	76828642		2203	4300	6503	SO:0001583	missense	10875			Z36531	CCDS5591.1	7q11.23	2013-02-06			ENSG00000127951	ENSG00000127951		"Fibrinogen C domain containing"	3696	protein-coding gene	gene with protein product		605351				7642106	Standard	NM_006682		Approved	pT49, T49	uc003ugb.3	Q14314	OTTHUMG00000130681	ENST00000248598.5:c.469C>T	7.37:g.76828642G>A	ENSP00000248598:p.Arg157Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000248598.5	37	CCDS5591.1	.	.	.	.	.	.	.	.	.	.	G	19.45	3.829255	0.71258	.	.	ENSG00000127951	ENST00000248598	T	0.59772	0.24	6.17	6.17	0.99709	.	0.045951	0.85682	D	0.000000	T	0.74809	0.3765	M	0.68952	2.095	0.80722	D	1	D	0.89917	1.0	D	0.63192	0.912	T	0.74244	-0.3728	10	0.66056	D	0.02	.	20.4745	0.99168	0.0:0.0:1.0:0.0	.	157	Q14314	FGL2_HUMAN	C	157	ENSP00000248598:R157C	ENSP00000248598:R157C	R	-	1	0	FGL2	76666578	0.998000	0.40836	0.955000	0.39395	0.552000	0.35366	3.946000	0.56644	2.941000	0.99782	0.655000	0.94253	CGC		0.383	FGL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253176.1	NM_006682		A	76828642	G	A	76828642	3	1	675	1	0	0	0	0	1	0	0	0	5880	1058	37	1	858	1	FGL2	7	76828642	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	2630728	76828642	82310021	53	43498										
LMTK2	22853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	97820153	97820153	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	agagagagacacaaaactccCgaagccccagctggagcagc	11	13	0	2			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr7:97820153C>T	ENST00000297293.5	+	10	1405	c.1112C>T	c.(1111-1113)cCg>cTg	p.P371L		NM_014916.3	NP_055731.2	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2	371	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				early endosome to late endosome transport (GO:0045022)|endocytic recycling (GO:0032456)|negative regulation of catalytic activity (GO:0043086)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|receptor recycling (GO:0001881)|transferrin transport (GO:0033572)	early endosome (GO:0005769)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)|recycling endosome (GO:0055037)	ATP binding (GO:0005524)|myosin VI binding (GO:0070853)|protein phosphatase inhibitor activity (GO:0004864)|protein serine/threonine kinase activity (GO:0004674)			NS(2)|breast(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(13)|lung(25)|ovary(1)|pancreas(2)|skin(2)|stomach(3)	59	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					ACAAAACTCCCGAAGCCCCAG	0.488																																																0													164	180	175					7																	97820153		2203	4300	6503	SO:0001583	missense	22853			AB029002	CCDS5654.1	7q22.1	2014-06-12			ENSG00000164715	ENSG00000164715			17880	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 100"	610989				15005709	Standard	NM_014916		Approved	KIAA1079, KPI2, KPI-2, cprk, LMR2, BREK, AATYK2, PPP1R100	uc003upd.2	Q8IWU2	OTTHUMG00000154256	ENST00000297293.5:c.1112C>T	7.37:g.97820153C>T	ENSP00000297293:p.Pro371Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A4D272|Q75MG7|Q9UPS3	Missense_Mutation	SNP	ENST00000297293.5	37	CCDS5654.1	.	.	.	.	.	.	.	.	.	.	C	11.24	1.579409	0.28180	.	.	ENSG00000164715	ENST00000297293	T	0.65364	-0.15	5.42	4.53	0.55603	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.291823	0.41823	D	0.000810	T	0.57257	0.2041	M	0.69248	2.105	0.45621	D	0.998552	B	0.17268	0.021	B	0.20767	0.031	T	0.54248	-0.8322	10	0.32370	T	0.25	.	9.522	0.39140	0.0:0.853:0.0:0.147	.	371	Q8IWU2	LMTK2_HUMAN	L	371	ENSP00000297293:P371L	ENSP00000297293:P371L	P	+	2	0	LMTK2	97658089	0.992000	0.36948	0.954000	0.39281	0.458000	0.32498	2.730000	0.47335	2.711000	0.92665	0.655000	0.94253	CCG		0.488	LMTK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000334560.1	NM_014916		T	97820153	C	T	97820153	3	4	675	1	0	0	0	0	1	0	0	0	8866	652	23	1	1150	1	LMTK2	7	97820153	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	20991511	97820153	61318510	54	43499										
SMO	6608	broad.mit.edu	37	chr7	128846110	128846111	+	Frame_Shift_Ins	INS	-	-	C													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	acttccttcaaagccctgggINScaccacctaccagcctctct							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr7:128846110_128846111insC	ENST00000249373.3	+	5	1320_1321	c.1040_1041insC	c.(1039-1044)ggcaccfs	p.T348fs		NM_005631.4	NP_005622.1	Q99835	SMO_HUMAN	smoothened, frizzled class receptor	348					adenohypophysis development (GO:0021984)|anterior/posterior pattern specification (GO:0009952)|atrial septum morphogenesis (GO:0060413)|axon extension involved in axon guidance (GO:0048846)|canonical Wnt signaling pathway (GO:0060070)|cardioblast differentiation (GO:0010002)|cell fate specification (GO:0001708)|cellular response to cholesterol (GO:0071397)|central nervous system neuron differentiation (GO:0021953)|cerebellar cortex morphogenesis (GO:0021696)|ciliary receptor clustering involved in smoothened signaling pathway (GO:0060830)|detection of cell density by contact stimulus involved in contact inhibition (GO:0060248)|determination of left/right asymmetry in lateral mesoderm (GO:0003140)|determination of left/right symmetry (GO:0007368)|dorsal/ventral neural tube patterning (GO:0021904)|embryonic camera-type eye development (GO:0031076)|embryonic digestive tract morphogenesis (GO:0048557)|embryonic neurocranium morphogenesis (GO:0048702)|embryonic viscerocranium morphogenesis (GO:0048703)|epithelial-mesenchymal cell signaling (GO:0060684)|exocrine pancreas development (GO:0031017)|facial nerve development (GO:0021561)|floor plate formation (GO:0021508)|forebrain morphogenesis (GO:0048853)|gonad development (GO:0008406)|hair follicle morphogenesis (GO:0031069)|heart looping (GO:0001947)|heart morphogenesis (GO:0003007)|in utero embryonic development (GO:0001701)|mammary gland epithelial cell differentiation (GO:0060644)|mesenchymal to epithelial transition involved in metanephric renal vesicle formation (GO:0072285)|midgut development (GO:0007494)|multicellular organism growth (GO:0035264)|muscle cell fate commitment (GO:0042693)|myoblast migration (GO:0051451)|negative regulation of apoptotic process (GO:0043066)|negative regulation of DNA binding (GO:0043392)|negative regulation of epithelial cell differentiation (GO:0030857)|negative regulation of gene expression (GO:0010629)|negative regulation of hair follicle development (GO:0051799)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neural crest cell migration (GO:0001755)|neuron fate commitment (GO:0048663)|neuron projection regeneration (GO:0031102)|odontogenesis of dentin-containing tooth (GO:0042475)|osteoblast differentiation (GO:0001649)|otolith morphogenesis (GO:0032474)|pancreas morphogenesis (GO:0061113)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of gene expression (GO:0010628)|positive regulation of hh target transcription factor activity (GO:0007228)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of neuroblast proliferation (GO:0002052)|positive regulation of protein import into nucleus (GO:0042307)|positive regulation of smoothened signaling pathway (GO:0045880)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein localization to nucleus (GO:0034504)|protein stabilization (GO:0050821)|regulation of heart morphogenesis (GO:2000826)|regulation of stem cell maintenance (GO:2000036)|renal system development (GO:0072001)|semicircular canal morphogenesis (GO:0048752)|skeletal muscle fiber development (GO:0048741)|smoothened signaling pathway (GO:0007224)|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation (GO:0021938)|smoothened signaling pathway involved in ventral spinal cord patterning (GO:0021910)|somite development (GO:0061053)|spermatogenesis (GO:0007283)|thalamus development (GO:0021794)|type B pancreatic cell development (GO:0003323)|vasculogenesis (GO:0001570)|ventral midline determination (GO:0007371)	ciliary membrane (GO:0060170)|cilium (GO:0005929)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|primary cilium (GO:0072372)	drug binding (GO:0008144)|G-protein coupled receptor activity (GO:0004930)|patched binding (GO:0005113)|PDZ domain binding (GO:0030165)|Wnt-activated receptor activity (GO:0042813)|Wnt-protein binding (GO:0017147)			biliary_tract(1)|central_nervous_system(5)|endometrium(1)|kidney(4)|large_intestine(14)|liver(1)|lung(11)|pancreas(2)|prostate(1)|skin(20)|upper_aerodigestive_tract(3)|urinary_tract(1)	64					Fluocinonide(DB01047)|Vismodegib(DB08828)	AAAGCCCTGGGCACCACCTACC	0.569			Mis		skin basal cell																																		Dom	yes		7	7q31-q32	6608	smoothened homolog (Drosophila)		E	0																																										SO:0001589	frameshift_variant	6608			U84401	CCDS5811.1	7q32.1	2014-01-29	2014-01-29	2003-01-17	ENSG00000128602	ENSG00000128602		"GPCR / Class F : Frizzled receptors"	11119	protein-coding gene	gene with protein product	"frizzled family member 11"	601500	"smoothened (Drosophila) homolog", "smoothened homolog (Drosophila)", "smoothened, seven transmembrane spanning receptor", "smoothened, frizzled family receptor"	SMOH		9628830	Standard	NM_005631		Approved	FZD11	uc003vor.3	Q99835	OTTHUMG00000158421	ENST00000249373.3:c.1041dupC	7.37:g.128846111_128846111dupC	ENSP00000249373:p.Thr348fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1K5	Frame_Shift_Ins	INS	ENST00000249373.3	37	CCDS5811.1																																																																																				0.569	SMO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350986.1	NM_005631		C	128846111	-	C	128846110	7	5	675	1	0	1	1	0	0	0	0	0	14813	1203	42	0	1058	0	SMO	7	128846110	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	31025957	128846110	30292553	55	43500										
SHH	6469	broad.mit.edu	37	chr7	155604741	155604742	+	Frame_Shift_Ins	INS	-	-	C													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ttcccgaaccccctgcccggINStccgcacgccagtcccgagc							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr7:155604741_155604742insC	ENST00000297261.2	-	1	225_226	c.75_76insG	c.(73-78)ggaccgfs	p.P26fs		NM_000193.2	NP_000184.1	Q15465	SHH_HUMAN	sonic hedgehog	26			P -> L (in HPE3). {ECO:0000269|PubMed:19603532}.		androgen metabolic process (GO:0008209)|apoptotic signaling pathway (GO:0097190)|artery development (GO:0060840)|axon guidance (GO:0007411)|Bergmann glial cell differentiation (GO:0060020)|blood coagulation (GO:0007596)|branching involved in salivary gland morphogenesis (GO:0060445)|branching involved in ureteric bud morphogenesis (GO:0001658)|branching morphogenesis of an epithelial tube (GO:0048754)|bud outgrowth involved in lung branching (GO:0060447)|camera-type eye development (GO:0043010)|canonical Wnt signaling pathway (GO:0060070)|CD4-positive or CD8-positive, alpha-beta T cell lineage commitment (GO:0043369)|cell development (GO:0048468)|cell fate specification (GO:0001708)|cell-cell signaling (GO:0007267)|cellular response to lithium ion (GO:0071285)|central nervous system development (GO:0007417)|cerebellar granule cell precursor proliferation (GO:0021930)|determination of left/right asymmetry in lateral mesoderm (GO:0003140)|dorsal/ventral neural tube patterning (GO:0021904)|dorsal/ventral pattern formation (GO:0009953)|ectoderm development (GO:0007398)|embryo development (GO:0009790)|embryonic digestive tract morphogenesis (GO:0048557)|embryonic digit morphogenesis (GO:0042733)|embryonic foregut morphogenesis (GO:0048617)|embryonic forelimb morphogenesis (GO:0035115)|embryonic hindlimb morphogenesis (GO:0035116)|embryonic limb morphogenesis (GO:0030326)|embryonic pattern specification (GO:0009880)|embryonic skeletal system development (GO:0048706)|endocytosis (GO:0006897)|epithelial cell proliferation involved in salivary gland morphogenesis (GO:0060664)|epithelial-mesenchymal signaling involved in prostate gland development (GO:0060738)|establishment of cell polarity (GO:0030010)|forebrain development (GO:0030900)|formation of anatomical boundary (GO:0048859)|hair follicle morphogenesis (GO:0031069)|heart development (GO:0007507)|heart looping (GO:0001947)|hindbrain development (GO:0030902)|hindgut morphogenesis (GO:0007442)|inner ear development (GO:0048839)|intein-mediated protein splicing (GO:0016539)|intermediate filament organization (GO:0045109)|left lung development (GO:0060459)|limb bud formation (GO:0060174)|lung development (GO:0030324)|lung epithelium development (GO:0060428)|lung lobe morphogenesis (GO:0060463)|lung-associated mesenchyme development (GO:0060484)|lymphoid progenitor cell differentiation (GO:0002320)|male genitalia development (GO:0030539)|mesenchymal cell proliferation involved in lung development (GO:0060916)|mesenchymal smoothened signaling pathway involved in prostate gland development (GO:0060783)|metanephric mesenchymal cell proliferation involved in metanephros development (GO:0072136)|metanephros development (GO:0001656)|midbrain development (GO:0030901)|multicellular structure septum development (GO:0080125)|myoblast differentiation (GO:0045445)|myotube differentiation (GO:0014902)|negative regulation of alpha-beta T cell differentiation (GO:0046639)|negative regulation of apoptotic process (GO:0043066)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cell differentiation (GO:0045596)|negative regulation of cell migration (GO:0030336)|negative regulation of cholesterol efflux (GO:0090370)|negative regulation of kidney smooth muscle cell differentiation (GO:2000357)|negative regulation of mesenchymal cell apoptotic process (GO:2001054)|negative regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032435)|negative regulation of T cell proliferation (GO:0042130)|negative regulation of transcription elongation from RNA polymerase II promoter (GO:0034244)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of ureter smooth muscle cell differentiation (GO:2000062)|negative thymic T cell selection (GO:0045060)|neural crest cell migration (GO:0001755)|neuroblast proliferation (GO:0007405)|neuron fate commitment (GO:0048663)|odontogenesis of dentin-containing tooth (GO:0042475)|oligodendrocyte development (GO:0014003)|organ formation (GO:0048645)|osteoblast development (GO:0002076)|palate development (GO:0060021)|pancreas development (GO:0031016)|pattern specification process (GO:0007389)|patterning of blood vessels (GO:0001569)|polarity specification of anterior/posterior axis (GO:0009949)|positive regulation of alpha-beta T cell differentiation (GO:0046638)|positive regulation of cell division (GO:0051781)|positive regulation of cell proliferation (GO:0008284)|positive regulation of epithelial cell proliferation involved in prostate gland development (GO:0060769)|positive regulation of hh target transcription factor activity (GO:0007228)|positive regulation of immature T cell proliferation in thymus (GO:0033092)|positive regulation of kidney smooth muscle cell differentiation (GO:2000358)|positive regulation of mesenchymal cell proliferation involved in ureter development (GO:2000729)|positive regulation of neuroblast proliferation (GO:0002052)|positive regulation of oligodendrocyte differentiation (GO:0048714)|positive regulation of protein import into nucleus (GO:0042307)|positive regulation of sclerotome development (GO:0061189)|positive regulation of skeletal muscle cell proliferation (GO:0014858)|positive regulation of skeletal muscle tissue development (GO:0048643)|positive regulation of smoothened signaling pathway (GO:0045880)|positive regulation of striated muscle cell differentiation (GO:0051155)|positive regulation of T cell differentiation in thymus (GO:0033089)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of ureter smooth muscle cell differentiation (GO:2000063)|positive regulation of Wnt signaling pathway (GO:0030177)|positive thymic T cell selection (GO:0045059)|primary prostatic bud elongation (GO:0060516)|prostate epithelial cord elongation (GO:0060523)|prostate gland development (GO:0030850)|protein localization to nucleus (GO:0034504)|regulation of cell proliferation (GO:0042127)|regulation of mesenchymal cell proliferation involved in prostate gland development (GO:0060782)|regulation of nodal signaling pathway involved in determination of lateral mesoderm left/right asymmetry (GO:1900175)|regulation of odontogenesis (GO:0042481)|regulation of prostatic bud formation (GO:0060685)|regulation of protein localization to nucleus (GO:1900180)|regulation of proteolysis (GO:0030162)|renal system development (GO:0072001)|right lung development (GO:0060458)|salivary gland cavitation (GO:0060662)|smoothened signaling pathway (GO:0007224)|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation (GO:0021938)|somite development (GO:0061053)|spinal cord dorsal/ventral patterning (GO:0021513)|spinal cord motor neuron differentiation (GO:0021522)|stem cell development (GO:0048864)|striated muscle tissue development (GO:0014706)|T cell differentiation in thymus (GO:0033077)|telencephalon regionalization (GO:0021978)|thalamus development (GO:0021794)|thymus development (GO:0048538)|thyroid gland development (GO:0030878)|trachea morphogenesis (GO:0060439)|vasculogenesis (GO:0001570)|ventral midline development (GO:0007418)	cell surface (GO:0009986)|extracellular matrix (GO:0031012)|extracellular space (GO:0005615)|membrane raft (GO:0045121)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|glycosaminoglycan binding (GO:0005539)|laminin-1 binding (GO:0043237)|morphogen activity (GO:0016015)|patched binding (GO:0005113)|peptidase activity (GO:0008233)|zinc ion binding (GO:0008270)			central_nervous_system(3)|kidney(1)|large_intestine(1)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	14	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)		CCCCTGCCCGGTCCGCACGCCA	0.609																																																0																																										SO:0001589	frameshift_variant	6469				CCDS5942.1	7q36	2010-06-25	2010-06-25		ENSG00000164690	ENSG00000164690			10848	protein-coding gene	gene with protein product		600725	"sonic hedgehog (Drosophila) homolog", "sonic hedgehog homolog (Drosophila)"	HPE3, HLP3		7590746	Standard	NM_000193		Approved	HHG1, SMMCI, TPT, TPTPS, MCOPCB5	uc003wmk.1	Q15465	OTTHUMG00000151349	ENST00000297261.2:c.75_76insG	7.37:g.155604741_155604742insC	ENSP00000297261:p.Pro26fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4D247|Q75MC9	Frame_Shift_Ins	INS	ENST00000297261.2	37	CCDS5942.1																																																																																				0.609	SHH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322327.1	NM_000193		C	155604742	-	C	155604741	7	5	675	1	0	1	1	0	0	0	0	0	14292	1261	44	0	1324	0	SHH	7	155604741	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	26758631	155604741	3533922	56	43501										
UBE3C	9690	mdanderson.org	37	chr7	157041098	157041099	+	Missense_Mutation	DNP	GC	GC	TT													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tgctggtggagctgccctttGcaggcttctttctttccaag							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr7:157041098_157041099GC>TT	ENST00000348165.5	+	19	2878_2879	c.2518_2519GC>TT	c.(2518-2520)GCa>TTa	p.A840L		NM_014671.2	NP_055486.2	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	840	HECT. {ECO:0000255|PROSITE- ProRule:PRU00104}.				protein polyubiquitination (GO:0000209)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|intracellular (GO:0005622)|nucleus (GO:0005634)|proteasome complex (GO:0000502)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			central_nervous_system(2)|endometrium(3)|kidney(16)|large_intestine(13)|lung(25)|ovary(2)|prostate(1)|urinary_tract(1)	63		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)		GCTGCCCTTTGCAGGCTTCTTT	0.475																																																0																																										SO:0001583	missense	9690			AK127280	CCDS34789.1	7q36.3	2004-05-04			ENSG00000009335	ENSG00000009335			16803	protein-coding gene	gene with protein product		614454				7584026, 11278995	Standard	NM_014671		Approved	KIAA0010, KIAA10	uc010lqs.3	Q15386	OTTHUMG00000157239	Exception_encountered	7.37:g.157041098_157041099delinsTT	ENSP00000309198:p.Ala840Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A4D235|A6NCP3|Q8TC15|Q96CR4|Q9UDU3	Missense_Mutation	DNP	ENST00000348165.5	37	CCDS34789.1																																																																																				0.475	UBE3C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348108.1	NM_014671		TT	157041099	GC	TT	157041098	3	4	675	1	0	0	0	0	1	0	0	0	16893	1319	46	4	2592	4	UBE3C	7	157041098	Missense_Mutation	DNP	GC	TCGA-KO-8404-01A-11D-2310-10	1436357	157041098	2097565	57	43502	435	2								
UBE3C	9690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr7	157041099	157041099	+	Missense_Mutation	SNP	C	C	T													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gctggtggagctgccctttgCaggcttctttctttccaagt							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr7:157041099C>T	ENST00000348165.5	+	19	2879	c.2519C>T	c.(2518-2520)gCa>gTa	p.A840V		NM_014671.2	NP_055486.2	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	840	HECT. {ECO:0000255|PROSITE- ProRule:PRU00104}.				protein polyubiquitination (GO:0000209)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|intracellular (GO:0005622)|nucleus (GO:0005634)|proteasome complex (GO:0000502)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			central_nervous_system(2)|endometrium(3)|kidney(16)|large_intestine(13)|lung(25)|ovary(2)|prostate(1)|urinary_tract(1)	63		all_hematologic(28;0.0185)|all_epithelial(9;0.0664)	OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)		CTGCCCTTTGCAGGCTTCTTT	0.478																																																0													94	96	95					7																	157041099		2203	4300	6503	SO:0001583	missense	9690			AK127280	CCDS34789.1	7q36.3	2004-05-04			ENSG00000009335	ENSG00000009335			16803	protein-coding gene	gene with protein product		614454				7584026, 11278995	Standard	NM_014671		Approved	KIAA0010, KIAA10	uc010lqs.3	Q15386	OTTHUMG00000157239	ENST00000348165.5:c.2519C>T	7.37:g.157041099C>T	ENSP00000309198:p.Ala840Val	Somatic		WXS	Illumina HiSeq	Phase_I	A4D235|A6NCP3|Q8TC15|Q96CR4|Q9UDU3	Missense_Mutation	SNP	ENST00000348165.5	37	CCDS34789.1	.	.	.	.	.	.	.	.	.	.	C	25.8	4.675491	0.88445	.	.	ENSG00000009335	ENST00000348165	T	0.58797	0.31	5.74	5.74	0.90152	HECT (4);	0.095457	0.64402	D	0.000001	T	0.77532	0.4144	M	0.76433	2.335	0.80722	D	1	D;D	0.65815	0.995;0.995	D;D	0.73708	0.981;0.981	T	0.78899	-0.2022	10	0.87932	D	0	.	19.9123	0.97029	0.0:1.0:0.0:0.0	.	840;693	Q15386;B4DHJ9	UBE3C_HUMAN;.	V	840	ENSP00000309198:A840V	ENSP00000309198:A840V	A	+	2	0	UBE3C	156733860	1.000000	0.71417	0.650000	0.29550	0.169000	0.22640	7.534000	0.82004	2.702000	0.92279	0.655000	0.94253	GCA		0.478	UBE3C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348108.1	NM_014671		T	157041099	C	T	157041099	3	4	675	1	0	0	0	0	1	0	0	0	16893	710	25	2	2593	2	UBE3C	7	157041099	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	1	157041099	2097564	58	43503	435	2								
CSMD1	64478	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	2836315	2836315	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	acaaagcctggatcagaacaGttcaccactagaaaataaaa	6	9	2	2			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr8:2836315G>T	ENST00000520002.1	-	56	8943	c.8388C>A	c.(8386-8388)aaC>aaA	p.N2796K	CSMD1_ENST00000537824.1_Missense_Mutation_p.N2795K|CSMD1_ENST00000602723.1_Missense_Mutation_p.N2738K|CSMD1_ENST00000400186.3_Missense_Mutation_p.N2738K|CSMD1_ENST00000542608.1_Missense_Mutation_p.N2737K|CSMD1_ENST00000602557.1_Missense_Mutation_p.N2796K			Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1	2796	Sushi 20. {ECO:0000255|PROSITE- ProRule:PRU00302}.					integral component of membrane (GO:0016021)				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)		GATCAGAACAGTTCACCACTA	0.383																																																0													54	49	50					8																	2836315		1863	4090	5953	SO:0001583	missense	64478					8p23.2	2012-04-17			ENSG00000183117	ENSG00000183117		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	14026	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 24"	608397					Standard	NM_033225		Approved	KIAA1890, PPP1R24	uc022aqr.1	Q96PZ7	OTTHUMG00000163605	ENST00000520002.1:c.8388C>A	8.37:g.2836315G>T	ENSP00000430733:p.Asn2796Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q0H0J5|Q96QU9|Q96RM4	Missense_Mutation	SNP	ENST00000520002.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	16.50|16.50	3.141734|3.141734	0.57044|0.57044	.|.	.|.	ENSG00000183117|ENSG00000183117	ENST00000335551|ENST00000400186;ENST00000520002;ENST00000318252;ENST00000537824;ENST00000542608	.|T;T;T;T	.|0.22945	.|1.93;1.93;1.93;1.93	5.17|5.17	5.17|5.17	0.71159|0.71159	.|Complement control module (2);Sushi/SCR/CCP (1);	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.37293|0.37293	0.0998|0.0998	L|L	0.37697|0.37697	1.125|1.125	0.80722|0.80722	D|D	1|1	.|P;P;D	.|0.76494	.|0.702;0.901;0.999	.|B;P;D	.|0.87578	.|0.182;0.573;0.998	T|T	0.06534|0.06534	-1.0821|-1.0821	5|10	.|0.42905	.|T	.|0.14	.|.	9.4393|9.4393	0.38659|0.38659	0.158:0.0:0.842:0.0|0.158:0.0:0.842:0.0	.|.	.|2796;2796;2737	.|E5RIG2;Q96PZ7;F5H2I8	.|.;CSMD1_HUMAN;.	M|K	2213|2738;2796;2657;2795;2737	.|ENSP00000383047:N2738K;ENSP00000430733:N2796K;ENSP00000441462:N2795K;ENSP00000446243:N2737K	.|ENSP00000320445:N2657K	L|N	-|-	1|3	2|2	CSMD1|CSMD1	2823722|2823722	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.544000|0.544000	0.35116|0.35116	5.212000|5.212000	0.65225|0.65225	2.400000|2.400000	0.81607|0.81607	0.563000|0.563000	0.77884|0.77884	CTG|AAC		0.383	CSMD1-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000374500.2	NM_033225		T	2836315	G	T	2836315	3	4	675	1	0	0	0	0	1	0	0	0	3946	1020	36	4	2373	4	CSMD1	8	2836315	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10		2836315	143527707	59	43504										
PABPC1	26986	mdanderson.org	37	chr8	101719138	101719138	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cacgctgtgttgacatgactCgtggaacctgtgaagaagct	12	9	0	4	rs79940439		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr8:101719138C>T	ENST00000318607.5	-	10	2552	c.1424G>A	c.(1423-1425)cGa>cAa	p.R475Q	AP001205.1_ENST00000579868.1_RNA|PABPC1_ENST00000522387.1_Missense_Mutation_p.R443Q|PABPC1_ENST00000519596.1_Intron|PABPC1_ENST00000519004.1_Missense_Mutation_p.R430Q	NM_002568.3	NP_002559.2	P11940	PABP1_HUMAN	poly(A) binding protein, cytoplasmic 1	475					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|mRNA metabolic process (GO:0016071)|mRNA polyadenylation (GO:0006378)|mRNA splicing, via spliceosome (GO:0000398)|mRNA stabilization (GO:0048255)|negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:2000623)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|nuclear-transcribed mRNA poly(A) tail shortening (GO:0000289)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|positive regulation of translation (GO:0045727)|RNA metabolic process (GO:0016070)|translation (GO:0006412)|translational initiation (GO:0006413)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytoplasmic stress granule (GO:0010494)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)|poly(U) RNA binding (GO:0008266)|protein C-terminus binding (GO:0008022)|translation activator activity (GO:0008494)			breast(2)|endometrium(4)|kidney(15)|large_intestine(4)|lung(13)|prostate(1)|skin(1)	40	all_cancers(14;6.8e-05)|all_epithelial(15;3.16e-07)|Lung NSC(17;0.000453)|all_lung(17;0.00125)		Epithelial(11;6.37e-11)|all cancers(13;1.11e-08)|OV - Ovarian serous cystadenocarcinoma(57;3.91e-05)|STAD - Stomach adenocarcinoma(118;0.206)			TGACATGACTCGTGGAACCTG	0.398																																																0													79	75	76					8																	101719138		2203	4300	6503	SO:0001583	missense	26986			Y00345	CCDS6289.1	8q22.2-q23	2013-02-12	2004-04-20		ENSG00000070756	ENSG00000070756		"RNA binding motif (RRM) containing"	8554	protein-coding gene	gene with protein product		604679	"poly(A)-binding protein, cytoplasmic 2"	PAB1, PABPC2		2885805	Standard	XM_005250861		Approved	PABP1, PABPL1	uc003yjs.1	P11940	OTTHUMG00000164779	ENST00000318607.5:c.1424G>A	8.37:g.101719138C>T	ENSP00000313007:p.Arg475Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q15097|Q93004	Missense_Mutation	SNP	ENST00000318607.5	37	CCDS6289.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	25.8|25.8	4.676811|4.676811	0.88445|0.88445	.|.	.|.	ENSG00000070756|ENSG00000070756	ENST00000520868;ENST00000517403|ENST00000318607;ENST00000519004;ENST00000522387;ENST00000522658	.|T;T;T;T	.|0.45276	.|1.71;1.67;2.73;0.9	5.63|5.63	5.63|5.63	0.86233|0.86233	.|.	.|0.128720	.|0.35378	.|N	.|0.003252	T|T	0.33904|0.33904	0.0879|0.0879	L|L	0.28504|0.28504	0.86|0.86	0.80722|0.80722	D|D	1|1	.|B;B;B	.|0.18968	.|0.032;0.001;0.001	.|B;B;B	.|0.09377	.|0.004;0.001;0.0	T|T	0.10474|0.10474	-1.0628|-1.0628	5|10	.|0.15952	.|T	.|0.53	.|.	20.0338|20.0338	0.97549|0.97549	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|443;475;475	.|E7ERJ7;B3KT93;P11940	.|.;.;PABP1_HUMAN	K|Q	8;128|475;430;443;22	.|ENSP00000313007:R475Q;ENSP00000429594:R430Q;ENSP00000429395:R443Q;ENSP00000428840:R22Q	.|ENSP00000313007:R475Q	E|R	-|-	1|2	0|0	PABPC1|PABPC1	101788314|101788314	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.999000|0.999000	0.98932|0.98932	7.212000|7.212000	0.77941|0.77941	2.816000|2.816000	0.96949|0.96949	0.650000|0.650000	0.86243|0.86243	GAG|CGA		0.398	PABPC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380217.1	NM_002568		T	101719138	C	T	101719138	3	4	675	1	0	0	0	0	1	0	0	0	11370	884	31	1	506	1	PABPC1	8	101719138	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	98882823	101719138	44644884	60	43505										
TG	7038	broad.mit.edu	37	chr8	133913781	133913782	+	Frame_Shift_Ins	INS	-	-	C													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gggacgcgcgtgaccgggggINSccagcccgcctgtgagagta							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr8:133913781_133913782insC	ENST00000220616.4	+	16	3657_3658	c.3617_3618insC	c.(3616-3621)ggccagfs	p.Q1207fs	TG_ENST00000377869.1_Frame_Shift_Ins_p.Q1207fs	NM_003235.4	NP_003226.4	P01266	THYG_HUMAN	thyroglobulin	1207	Thyroglobulin type-1 10. {ECO:0000255|PROSITE-ProRule:PRU00500}.				hormone biosynthetic process (GO:0042446)|iodide transport (GO:0015705)|regulation of myelination (GO:0031641)|signal transduction (GO:0007165)|thyroid gland development (GO:0030878)|thyroid hormone generation (GO:0006590)	extracellular region (GO:0005576)|extracellular space (GO:0005615)				NS(1)|breast(11)|central_nervous_system(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(34)|liver(2)|lung(59)|ovary(9)|pancreas(2)|prostate(6)|skin(7)|stomach(4)|upper_aerodigestive_tract(4)|urinary_tract(8)	168	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GTGACCGGGGGCCAGCCCGCCT	0.619																																																0																																										SO:0001589	frameshift_variant	7038			AU141420	CCDS34944.1	8q24	2012-10-02			ENSG00000042832	ENSG00000042832			11764	protein-coding gene	gene with protein product		188450					Standard	NM_003235		Approved	TGN, AITD3	uc003ytw.3	P01266	OTTHUMG00000164649	ENST00000220616.4:c.3619dupC	8.37:g.133913783_133913783dupC	ENSP00000220616:p.Gln1207fs	Somatic		WXS	Illumina HiSeq	Phase_I	O15274|O43899|Q15593|Q15948|Q9NYR1|Q9NYR2|Q9UMZ0|Q9UNY3	Frame_Shift_Ins	INS	ENST00000220616.4	37	CCDS34944.1																																																																																				0.619	TG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379606.1	NM_003235		C	133913782	-	C	133913781	7	5	675	1	0	1	1	0	0	0	0	0	15825	1203	42	0	3679	0	TG	8	133913781	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	32194643	133913781	12450241	61	43506										
GLDC	2731	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr9	6536228	6536228	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aggccaggacatggtaggggCgtgaaatcctgcaaagggag	17	7	0	1	rs146939116		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr9:6536228C>T	ENST00000321612.6	-	23	2824	c.2674G>A	c.(2674-2676)Gcc>Acc	p.A892T		NM_000170.2	NP_000161.2	P23378	GCSP_HUMAN	glycine dehydrogenase (decarboxylating)	892					glycine catabolic process (GO:0006546)	mitochondrion (GO:0005739)	electron carrier activity (GO:0009055)|glycine dehydrogenase (decarboxylating) activity (GO:0004375)|lyase activity (GO:0016829)|pyridoxal phosphate binding (GO:0030170)			cervix(1)|endometrium(2)|large_intestine(5)|lung(23)|ovary(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	37		Acute lymphoblastic leukemia(23;0.161)		GBM - Glioblastoma multiforme(50;0.0421)|Lung(218;0.134)	Glycine(DB00145)	ATGGTAGGGGCGTGAAATCCT	0.527																																																0								C	THR/ALA	0,4406		0,0,2203	34	29	31		2674	5.2	1	9	dbSNP_134	31	1,8599	1.2+/-3.3	0,1,4299	no	missense	GLDC	NM_000170.2	58	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	892/1021	6536228	1,13005	2203	4300	6503	SO:0001583	missense	2731			D90239	CCDS34987.1	9p22	2014-09-17	2006-05-22		ENSG00000178445	ENSG00000178445	1.4.4.2		4313	protein-coding gene	gene with protein product	"glycine cleavage system protein P", "glycine decarboxylase"	238300	"glycine dehydrogenase (decarboxylating; glycine decarboxylase, glycine cleavage system protein P)"			1993704, 1996985	Standard	NM_000170		Approved	GCSP, NKH	uc003zkc.3	P23378	OTTHUMG00000019524	ENST00000321612.6:c.2674G>A	9.37:g.6536228C>T	ENSP00000370737:p.Ala892Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M2F8	Missense_Mutation	SNP	ENST00000321612.6	37	CCDS34987.1	.	.	.	.	.	.	.	.	.	.	C	34	5.360114	0.95877	0.0	1.16E-4	ENSG00000178445	ENST00000321612	D	0.98178	-4.77	5.21	5.21	0.72293	Pyridoxal phosphate-dependent transferase, major domain (1);	0.000000	0.85682	D	0.000000	D	0.99336	0.9767	H	0.98199	4.17	0.80722	D	1	D	0.76494	0.999	P	0.60949	0.881	D	0.98633	1.0672	10	0.87932	D	0	-17.3811	19.1172	0.93346	0.0:1.0:0.0:0.0	.	892	P23378	GCSP_HUMAN	T	892	ENSP00000370737:A892T	ENSP00000370737:A892T	A	-	1	0	GLDC	6526228	1.000000	0.71417	0.998000	0.56505	0.924000	0.55760	7.388000	0.79795	2.587000	0.87381	0.305000	0.20034	GCC		0.527	GLDC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051674.2	NM_000170		T	6536228	C	T	6536228	3	4	675	1	0	0	0	0	1	0	0	0	6440	768	27	1	400	1	GLDC	9	6536228	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10		6536228	134677203	62	43507										
ADAMTSL1	92949	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr9	18706839	18706839	+	Nonsense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aggtgctcctgtctttctctCagtccgtggctgacctgcct	10	14	3	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr9:18706839C>T	ENST00000380548.4	+	14	2008	c.1669C>T	c.(1669-1671)Cag>Tag	p.Q557*	ADAMTSL1_ENST00000276935.6_Nonsense_Mutation_p.Q557*	NM_001040272.5	NP_001035362.3	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1	557	TSP type-1 4. {ECO:0000255|PROSITE- ProRule:PRU00210}.					proteinaceous extracellular matrix (GO:0005578)	metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|liver(2)|lung(17)|ovary(3)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	42				GBM - Glioblastoma multiforme(50;1.29e-17)		GTCTTTCTCTCAGTCCGTGGC	0.602																																																0													52	42	46					9																	18706839		2203	4300	6503	SO:0001587	stop_gained	92949			AF176313	CCDS6485.1, CCDS47954.1	9p21.3	2013-01-11			ENSG00000178031	ENSG00000178031		"Immunoglobulin superfamily / I-set domain containing"	14632	protein-coding gene	gene with protein product	"punctin"	609198	"chromosome 9 open reading frame 94"	C9orf94		9628581, 11805097	Standard	NM_001040272		Approved	ADAMTSR1, FLJ35283	uc003zne.4	Q8N6G6	OTTHUMG00000019604	ENST00000380548.4:c.1669C>T	9.37:g.18706839C>T	ENSP00000369921:p.Gln557*	Somatic		WXS	Illumina HiSeq	Phase_I	A6PVN1|A8K7E1|Q496M6|Q496M8|Q5T708|Q5VZT8|Q8NAI9|Q96RW4|Q9BXY3	Nonsense_Mutation	SNP	ENST00000380548.4	37	CCDS47954.1	.	.	.	.	.	.	.	.	.	.	C	44	11.226218	0.99534	.	.	ENSG00000178031	ENST00000380548;ENST00000276935	.	.	.	5.78	5.78	0.91487	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.44086	T	0.13	.	20.0139	0.97470	0.0:1.0:0.0:0.0	.	.	.	.	X	557	.	ENSP00000276935:Q557X	Q	+	1	0	ADAMTSL1	18696839	1.000000	0.71417	0.997000	0.53966	0.995000	0.86356	7.739000	0.84976	2.724000	0.93272	0.563000	0.77884	CAG		0.602	ADAMTSL1-012	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401206.1			T	18706839	C	T	18706839	4	4	675	1	0	0	0	0	0	1	0	0	274	827	29	2	1727	2	ADAMTSL1	9	18706839	Nonsense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	12170611	18706839	122506592	63	43508										
MUSK	4593	broad.mit.edu	37	chr9	113459692	113459692	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	caggacagtatcgatgtgtgGcaaaaaacagcctcgggaca	12	9	0	0			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr9:113459692G>A	ENST00000374448.4	+	5	708	c.574G>A	c.(574-576)Gca>Aca	p.A192T	MUSK_ENST00000374440.3_Missense_Mutation_p.A74T|MUSK_ENST00000189978.5_Missense_Mutation_p.A192T|MUSK_ENST00000374439.1_Missense_Mutation_p.A74T|MUSK_ENST00000416899.2_Missense_Mutation_p.A192T	NM_001166281.1|NM_005592.3	NP_001159753.1|NP_005583.1	O15146	MUSK_HUMAN	muscle, skeletal, receptor tyrosine kinase	192	Ig-like 2.				cell differentiation (GO:0030154)|extracellular matrix organization (GO:0030198)|memory (GO:0007613)|multicellular organismal development (GO:0007275)|neuromuscular junction development (GO:0007528)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of gene expression (GO:0010628)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of protein geranylgeranylation (GO:2000541)|positive regulation of protein phosphorylation (GO:0001934)|protein autophosphorylation (GO:0046777)|regulation of synaptic growth at neuromuscular junction (GO:0008582)|regulation of transcription, DNA-templated (GO:0006355)|skeletal muscle acetylcholine-gated channel clustering (GO:0071340)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cell junction (GO:0030054)|integral component of plasma membrane (GO:0005887)|neuromuscular junction (GO:0031594)|postsynaptic membrane (GO:0045211)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|protein tyrosine kinase activity (GO:0004713)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(3)|large_intestine(7)|lung(23)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)	49						TCGATGTGTGGCAAAAAACAG	0.483																																																0													138	139	138					9																	113459692		1948	4152	6100	SO:0001583	missense	4593			AF006464	CCDS48005.1, CCDS75874.1	9q31.3-q32	2013-01-29			ENSG00000030304	ENSG00000030304		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	7525	protein-coding gene	gene with protein product		601296				7546737	Standard	NM_005592		Approved		uc022blv.1	O15146	OTTHUMG00000020485	ENST00000374448.4:c.574G>A	9.37:g.113459692G>A	ENSP00000363571:p.Ala192Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q32MJ8|Q32MJ9|Q5VZW7|Q5VZW8	Missense_Mutation	SNP	ENST00000374448.4	37	CCDS48005.1	.	.	.	.	.	.	.	.	.	.	G	32	5.177234	0.94846	.	.	ENSG00000030304	ENST00000189978;ENST00000374448;ENST00000543335;ENST00000374447;ENST00000545907;ENST00000374440;ENST00000416899;ENST00000374439	T;T;T	0.76448	-1.02;-1.02;-1.02	5.88	5.88	0.94601	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	D	0.90693	0.7080	M	0.90082	3.085	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.995	D	0.91853	0.5493	10	0.87932	D	0	.	18.8079	0.92045	0.0:0.0:1.0:0.0	.	192;192	O15146;F5H6T2	MUSK_HUMAN;.	T	192;192;192;192;192;74;192;74	ENSP00000363571:A192T;ENSP00000363563:A74T;ENSP00000363562:A74T	ENSP00000189978:A192T	A	+	1	0	MUSK	112499513	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	5.991000	0.70602	2.774000	0.95407	0.655000	0.94253	GCA		0.483	MUSK-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding				A	113459692	G	A	113459692	3	1	675	1	0	0	0	0	1	0	0	0	9996	1203	42	2	592	2	MUSK	9	113459692	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	94752853	113459692	27753739	64	43509										
STAM	8027	broad.mit.edu	37	chr10	17756602	17756603	+	Frame_Shift_Ins	INS	-	-	C													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aggcgccagtatatagtcctINScctcctgccgctactgctgc							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr10:17756602_17756603insC	ENST00000377524.3	+	14	1661_1662	c.1446_1447insC	c.(1447-1449)cctfs	p.P483fs	STAM_ENST00000540523.1_Frame_Shift_Ins_p.P372fs	NM_003473.3	NP_003464.1	Q92783	STAM1_HUMAN	signal transducing adaptor molecule (SH3 domain and ITAM motif) 1	483					endosomal transport (GO:0016197)|epidermal growth factor receptor signaling pathway (GO:0007173)|intracellular protein transport (GO:0006886)|membrane organization (GO:0061024)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|positive regulation of signal transduction (GO:0009967)|signal transduction (GO:0007165)	cytosol (GO:0005829)|endosome (GO:0005768)|membrane (GO:0016020)	SH3/SH2 adaptor activity (GO:0005070)			breast(2)|endometrium(4)|kidney(2)|large_intestine(3)|lung(11)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	26						TATATAGTCCTCCTCCTGCCGC	0.47																																																0																																										SO:0001589	frameshift_variant	8027			U43899	CCDS7122.1	10p14-p13	2009-04-29			ENSG00000136738	ENSG00000136738			11357	protein-coding gene	gene with protein product	"HSE1 homolog (S. cerevisiae)"	601899				8780729	Standard	NM_003473		Approved	STAM1	uc001ipj.2	Q92783	OTTHUMG00000017749	ENST00000377524.3:c.1448dupC	10.37:g.17756604_17756604dupC	ENSP00000366746:p.Pro483fs	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ99|D3DRU5|Q8N6D9	Frame_Shift_Ins	INS	ENST00000377524.3	37	CCDS7122.1																																																																																				0.47	STAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047039.1	NM_003473		C	17756603	-	C	17756602	7	5	675	1	0	1	1	0	0	0	0	0	15260	1538	54	0	1500	0	STAM	10	17756602	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10		17756602	117778145	65	43510										
MYO3A	53904	mdanderson.org	37	chr10	26286159	26286159	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aataacattctattgaccacGgaaggtggagtgaaactagt	10	6	1	2	rs12257119	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr10:26286159G>T	ENST00000265944.5	+	6	646	c.480G>T	c.(478-480)acG>acT	p.T160T	MYO3A_ENST00000376301.1_Silent_p.T160T|MYO3A_ENST00000543632.1_Silent_p.T160T|MYO3A_ENST00000376302.1_Silent_p.T160T	NM_017433.4	NP_059129.3	Q8NEV4	MYO3A_HUMAN	myosin IIIA	160	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				ATP catabolic process (GO:0006200)|inner ear development (GO:0048839)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|positive regulation of filopodium assembly (GO:0051491)|protein autophosphorylation (GO:0046777)|response to stimulus (GO:0050896)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	cytoplasm (GO:0005737)|filamentous actin (GO:0031941)|filopodium (GO:0030175)|filopodium tip (GO:0032433)|myosin complex (GO:0016459)|photoreceptor inner segment (GO:0001917)|stereocilium bundle tip (GO:0032426)	actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|calmodulin binding (GO:0005516)|microfilament motor activity (GO:0000146)|plus-end directed microfilament motor activity (GO:0060002)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			NS(2)|breast(9)|central_nervous_system(3)|endometrium(9)|kidney(10)|large_intestine(28)|liver(1)|lung(46)|ovary(11)|pancreas(1)|prostate(6)|skin(11)|stomach(6)|upper_aerodigestive_tract(1)|urinary_tract(2)	146						TATTGACCACGGAAGGTGGAG	0.318													T|||	458	0.0914537	0.2526	0.0548	5008	,	,		20309	0.004		0.0626	False		,,,				2504	0.0194															0								T		956,3450	734.1+/-410.5	95,766,1342	84	77	79		480	-4.3	0.7	10	dbSNP_120	79	469,8123	795.6+/-407.5	17,435,3844	no	coding-synonymous	MYO3A	NM_017433.4		112,1201,5186	TT,TG,GG		5.4586,21.6977,10.9632		160/1617	26286159	1425,11573	2203	4296	6499	SO:0001819	synonymous_variant	53904			AF229172	CCDS7148.1	10p11.1	2011-09-27	2004-05-19		ENSG00000095777	ENSG00000095777		"Myosins / Myosin superfamily : Class III"	7601	protein-coding gene	gene with protein product		606808	"deafness, autosomal recessive 30"	DFNB30		10936054	Standard	NM_017433		Approved		uc001isn.2	Q8NEV4	OTTHUMG00000017837	ENST00000265944.5:c.480G>T	10.37:g.26286159G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0X2|Q5VZ28|Q8WX17|Q9NYS8	Silent	SNP	ENST00000265944.5	37	CCDS7148.1																																																																																				0.318	MYO3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047259.1	NM_017433		T	26286159	G	T	26286159	2	4	675	1	0	0	0	0	0	0	0	1	10083	1103	39	4		4	MYO3A	10	26286159	Silent	SNP	G	TCGA-KO-8404-01A-11D-2310-10	8529557	26286159	109248588	66	43511										
MUC6	4588	mdanderson.org	37	chr11	1016645	1016645	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tgggtggaccctgtggccttGagcgttgttggtggaggaac	18	7	0	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:1016645G>C	ENST00000421673.2	-	31	6206	c.6156C>G	c.(6154-6156)ctC>ctG	p.L2052L		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	2052	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		CTGTGGCCTTGAGCGTTGTTG	0.562																																																0													466	446	453					11																	1016645		2199	4293	6492	SO:0001819	synonymous_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.6156C>G	11.37:g.1016645G>C		Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Silent	SNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.562	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		C	1016645	G	C	1016645	2	2	675	1	0	0	0	0	0	0	0	1	9987	1277	45	4		4	MUC6	11	1016645	Silent	SNP	G	TCGA-KO-8404-01A-11D-2310-10		1016645	133989871	67	43512										
MUC6	4588	mdanderson.org	37	chr11	1017200	1017200	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gttggcattgagtggatggaGgcagaagtggccatctgtgt	17	5	1	2			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:1017200G>C	ENST00000421673.2	-	31	5651	c.5601C>G	c.(5599-5601)gcC>gcG	p.A1867A		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1867	Approximate repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		AGTGGATGGAGGCAGAAGTGG	0.572																																																0													424	405	411					11																	1017200		2199	4285	6484	SO:0001819	synonymous_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5601C>G	11.37:g.1017200G>C		Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Silent	SNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.572	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		C	1017200	G	C	1017200	2	2	675	1	0	0	0	0	0	0	0	1	9987	987	35	4		4	MUC6	11	1017200	Silent	SNP	G	TCGA-KO-8404-01A-11D-2310-10	555	1017200	133989316	68	43513										
KRTAP5-1	387264	mdanderson.org	37	chr11	1605979	1605979	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ttggagcccccacaagaaccAcaggcccccttggagcaccc	9	18	0	1	rs59646474		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:1605979A>G	ENST00000382171.2	-	1	534	c.501T>C	c.(499-501)tgT>tgC	p.C167C	KRTAP5-AS1_ENST00000532922.1_RNA|KRTAP5-AS1_ENST00000534077.1_RNA|KRTAP5-AS1_ENST00000424148.1_RNA|KRTAP5-AS1_ENST00000524947.1_RNA	NM_001005922.1	NP_001005922.1	Q6L8H4	KRA51_HUMAN	keratin associated protein 5-1	167	8 X 4 AA repeats of C-C-X-P.					keratin filament (GO:0045095)				endometrium(3)|kidney(1)|lung(9)|skin(2)|upper_aerodigestive_tract(1)	16		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)		CACAAGAACCACAGGCCCCCT	0.657																																																0													59	74	69					11																	1605979		2202	4299	6501	SO:0001819	synonymous_variant	387264			AB126070	CCDS31330.1	11p15.5	2008-02-05			ENSG00000205869	ENSG00000205869		"Keratin associated proteins"	23596	protein-coding gene	gene with protein product		148022	"keratin, cuticle, ultrahigh sulphur 1-like"	KRN1L		15144888	Standard	NM_001005922		Approved	KRTAP5.1	uc001ltu.1	Q6L8H4	OTTHUMG00000057557	ENST00000382171.2:c.501T>C	11.37:g.1605979A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000382171.2	37	CCDS31330.1																																																																																				0.657	KRTAP5-1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000127922.1	NM_001005922		G	1605979	A	G	1605979	2	3	675	1	0	0	0	0	0	0	0	1	8565	157	6	3		3	KRTAP5-1	11	1605979	Silent	SNP	A	TCGA-KO-8404-01A-11D-2310-10	588779	1605979	133400537	69	43514										
OR51M1	390059	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	5410780	5410780	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ctttatgtacatggttgccaTctcaggcaattgtttcattc	7	9	2	0			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:5410780T>A	ENST00000328611.3	+	1	174	c.152T>A	c.(151-153)aTc>aAc	p.I51N	AC104389.28_ENST00000415970.1_RNA|HBG2_ENST00000380252.1_Intron|HBG2_ENST00000380259.2_Intron|HBE1_ENST00000380237.1_Intron	NM_001004756.2	NP_001004756.2	Q9H341	O51M1_HUMAN	olfactory receptor, family 51, subfamily M, member 1	51					detection of chemical stimulus involved in sensory perception of smell (GO:0050911)|sensory perception of smell (GO:0007608)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(3)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(16)|upper_aerodigestive_tract(1)	30		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)		ATGGTTGCCATCTCAGGCAAT	0.448																																																0													172	159	163					11																	5410780		1966	4154	6120	SO:0001583	missense	390059			BK004382	CCDS53596.1	11p15.4	2012-08-09			ENSG00000184698	ENSG00000184698		"GPCR / Class A : Olfactory receptors"	14847	protein-coding gene	gene with protein product							Standard	NM_001004756		Approved		uc010qzc.2	Q9H341	OTTHUMG00000066680	ENST00000328611.3:c.152T>A	11.37:g.5410780T>A	ENSP00000333196:p.Ile51Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF80	Missense_Mutation	SNP	ENST00000328611.3	37	CCDS53596.1	.	.	.	.	.	.	.	.	.	.	T	13.98	2.397591	0.42512	.	.	ENSG00000184698	ENST00000328611	T	0.00500	6.96	5.01	5.01	0.66863	.	0.000000	0.34411	U	0.003981	T	0.02342	0.0072	M	0.93062	3.375	0.31105	N	0.710601	D	0.64830	0.994	D	0.64042	0.921	T	0.00888	-1.1526	10	0.87932	D	0	.	13.6825	0.62493	0.0:0.0:0.0:1.0	.	40	Q9H341	O51M1_HUMAN	N	51	ENSP00000333196:I51N	ENSP00000333196:I51N	I	+	2	0	OR51M1	5367356	0.827000	0.29292	0.824000	0.32777	0.016000	0.09150	5.564000	0.67359	2.101000	0.63845	0.528000	0.53228	ATC		0.448	OR51M1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000142981.1	NM_001004756		A	5410780	T	A	5410780	3	1	675	1	0	0	0	0	1	0	0	0	11110	1435	50	5	154	5	OR51M1	11	5410780	Missense_Mutation	SNP	T	TCGA-KO-8404-01A-11D-2310-10	3804801	5410780	129595736	70	43515										
OR56A1	120796	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	6048328	6048328	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	agccacaaattggtagattcTgttaagggtgaaattatcac	9	6	2	2			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:6048328T>C	ENST00000316650.5	-	1	643	c.607A>G	c.(607-609)Aga>Gga	p.R203G		NM_001001917.2	NP_001001917.2	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A, member 1	203						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(6)|lung(22)|ovary(2)	33		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)		TGGTAGATTCTGTTAAGGGTG	0.448																																																0													66	65	65					11																	6048328		2201	4296	6497	SO:0001583	missense	120796			AB065821	CCDS31405.1	11p15.4	2012-08-09			ENSG00000180934	ENSG00000180934		"GPCR / Class A : Olfactory receptors"	14781	protein-coding gene	gene with protein product							Standard	NM_001001917		Approved		uc010qzw.2	Q8NGH5	OTTHUMG00000165377	ENST00000316650.5:c.607A>G	11.37:g.6048328T>C	ENSP00000321246:p.Arg203Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNI2|Q6IFL0	Missense_Mutation	SNP	ENST00000316650.5	37	CCDS31405.1	.	.	.	.	.	.	.	.	.	.	T	4.164	0.028925	0.08054	.	.	ENSG00000180934	ENST00000316650	T	0.00115	8.71	4.27	-1.51	0.08664	GPCR, rhodopsin-like superfamily (1);	0.169443	0.27961	N	0.017146	T	0.00210	0.0006	M	0.71036	2.16	0.09310	N	1	P	0.38250	0.624	P	0.48488	0.579	T	0.41662	-0.9496	10	0.33940	T	0.23	.	1.4257	0.02322	0.256:0.0839:0.2613:0.3987	.	203	Q8NGH5	O56A1_HUMAN	G	203	ENSP00000321246:R203G	ENSP00000321246:R203G	R	-	1	2	OR56A1	6004904	0.000000	0.05858	0.095000	0.20976	0.003000	0.03518	-0.319000	0.08039	-0.042000	0.13535	-0.336000	0.08194	AGA		0.448	OR56A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383757.1	NM_001001917		C	6048328	T	C	6048328	3	2	675	1	0	0	0	0	1	0	0	0	11140	1588	55	3	353	3	OR56A1	11	6048328	Missense_Mutation	SNP	T	TCGA-KO-8404-01A-11D-2310-10	637548	6048328	128958188	71	43516										
OR2D3	120775	ucsc.edu	37	chr11	6942589	6942589	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tgtatgacacagataattgtCtttcttctggttgggtgtac	10	6	3	2	rs59264610|rs202205015	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:6942589C>T	ENST00000317834.3	+	1	385	c.357C>T	c.(355-357)gtC>gtT	p.V119V		NM_001004684.1	NP_001004684.1	Q8NGH3	OR2D3_HUMAN	olfactory receptor, family 2, subfamily D, member 3	119						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(2)|large_intestine(7)|lung(12)|prostate(3)|skin(1)|stomach(1)	27		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		AGATAATTGTCTTTCTTCTGG	0.448																																																0													137	143	141					11																	6942589		2191	4289	6480	SO:0001819	synonymous_variant	120775			BK004294	CCDS31417.1	11p15.4	2012-08-09			ENSG00000178358	ENSG00000178358		"GPCR / Class A : Olfactory receptors"	15146	protein-coding gene	gene with protein product							Standard	NM_001004684		Approved		uc010rav.2	Q8NGH3	OTTHUMG00000165742	ENST00000317834.3:c.357C>T	11.37:g.6942589C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RP06|Q6IFG8|Q96R51	Silent	SNP	ENST00000317834.3	37	CCDS31417.1																																																																																				0.448	OR2D3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385987.1	NM_001004684		T	6942589	C	T	6942589	2	4	675	1	0	0	0	0	0	0	0	1	11002	900	32	2		2	OR2D3	11	6942589	Silent	SNP	C	TCGA-KO-8404-01A-11D-2310-10	894261	6942589	128063927	72	43517										
PTPN5	84867	broad.mit.edu;mdanderson.org	37	chr11	18755149	18755149	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aactcagagggtcgtcagggTctggtgaggtcagacacact	14	9	4	3			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:18755149T>C	ENST00000358540.2	-	10	1464	c.1034A>G	c.(1033-1035)gAc>gGc	p.D345G	RP11-1081L13.4_ENST00000527285.1_RNA|PTPN5_ENST00000396167.2_Missense_Mutation_p.D313G|PTPN5_ENST00000396170.1_Missense_Mutation_p.D313G|PTPN5_ENST00000396171.4_Missense_Mutation_p.D345G|PTPN5_ENST00000477854.1_Missense_Mutation_p.D149G|PTPN5_ENST00000396168.1_Missense_Mutation_p.D321G|PTPN5_ENST00000396166.3_5'Flank	NM_006906.1	NP_008837.1	P54829	PTN5_HUMAN	protein tyrosine phosphatase, non-receptor type 5 (striatum-enriched)	345	Tyrosine-protein phosphatase. {ECO:0000255|PROSITE-ProRule:PRU00160}.				peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	phosphotyrosine binding (GO:0001784)|protein tyrosine phosphatase activity (GO:0004725)			breast(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(13)|ovary(2)|prostate(1)|skin(4)	27						GTCGTCAGGGTCTGGTGAGGT	0.592																																																0													183	169	174					11																	18755149		2199	4293	6492	SO:0001583	missense	84867			BC064807	CCDS7845.1, CCDS41626.1, CCDS60746.1	11p15.1	2011-06-09			ENSG00000110786	ENSG00000110786		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Non-receptor"	9657	protein-coding gene	gene with protein product		176879				1714595	Standard	NM_001278236		Approved	STEP, PTPSTEP	uc001mpc.4	P54829	OTTHUMG00000134304	ENST00000358540.2:c.1034A>G	11.37:g.18755149T>C	ENSP00000351342:p.Asp345Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXG7|B7Z386|B7ZAF5|D3DQY7|Q6P1Z2|Q8N2A1|Q8NDP8	Missense_Mutation	SNP	ENST00000358540.2	37	CCDS7845.1	.	.	.	.	.	.	.	.	.	.	T	21.7	4.187674	0.78789	.	.	ENSG00000110786	ENST00000477854;ENST00000358540;ENST00000396170;ENST00000396171;ENST00000396167;ENST00000396168	D;D;D;D;D;D	0.82803	-1.65;-1.65;-1.65;-1.65;-1.65;-1.65	5.67	5.67	0.87782	Protein-tyrosine phosphatase, receptor/non-receptor type (3);	0.058671	0.64402	D	0.000003	T	0.79604	0.4474	N	0.17345	0.48	0.53688	D	0.999974	B;P	0.49961	0.012;0.93	B;P	0.51101	0.035;0.659	T	0.81395	-0.0952	10	0.45353	T	0.12	.	15.9204	0.79562	0.0:0.0:0.0:1.0	.	345;313	P54829;B3KXG7	PTN5_HUMAN;.	G	149;345;313;345;313;321	ENSP00000435056:D149G;ENSP00000351342:D345G;ENSP00000379473:D313G;ENSP00000379474:D345G;ENSP00000379470:D313G;ENSP00000379471:D321G	ENSP00000351342:D345G	D	-	2	0	PTPN5	18711725	1.000000	0.71417	0.996000	0.52242	0.996000	0.88848	2.457000	0.45005	2.164000	0.68074	0.533000	0.62120	GAC		0.592	PTPN5-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000259196.2	NM_001039970		C	18755149	T	C	18755149	3	2	675	1	0	0	0	0	1	0	0	0	12804	1667	58	3	687	3	PTPN5	11	18755149	Missense_Mutation	SNP	T	TCGA-KO-8404-01A-11D-2310-10	11812560	18755149	116251367	73	43518										
DGKZ	8525	broad.mit.edu	37	chr11	46398729	46398730	+	Frame_Shift_Del	DEL	CT	CT	-													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cctcccaacccccacttcccCtctccccacctcaccctgct							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:46398729_46398730delCT	ENST00000454345.1	+	26	2998_2999	c.2873_2874delCT	c.(2872-2874)cctfs	p.P958fs	DGKZ_ENST00000532868.2_Frame_Shift_Del_p.P774fs|DGKZ_ENST00000421244.2_Frame_Shift_Del_p.P770fs|DGKZ_ENST00000456247.2_Frame_Shift_Del_p.P769fs|MIR4688_ENST00000577966.1_RNA|DGKZ_ENST00000543978.1_Frame_Shift_Del_p.P122fs|DGKZ_ENST00000318201.8_Frame_Shift_Del_p.P747fs|DGKZ_ENST00000527911.1_Frame_Shift_Del_p.P770fs|DGKZ_ENST00000395574.3_Frame_Shift_Del_p.P736fs|DGKZ_ENST00000528615.1_Frame_Shift_Del_p.P548fs|DGKZ_ENST00000343674.6_Frame_Shift_Del_p.P786fs	NM_001105540.1	NP_001099010.1	Q13574	DGKZ_HUMAN	diacylglycerol kinase, zeta	958					blood coagulation (GO:0007596)|cell migration (GO:0016477)|intracellular signal transduction (GO:0035556)|lipid phosphorylation (GO:0046834)|mitotic G1 DNA damage checkpoint (GO:0031571)|negative regulation of mitotic cell cycle (GO:0045930)|negative regulation of Ras protein signal transduction (GO:0046580)|phosphorylation (GO:0016310)|platelet activation (GO:0030168)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)	cytoplasm (GO:0005737)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|diacylglycerol kinase activity (GO:0004143)|enzyme inhibitor activity (GO:0004857)|lipid kinase activity (GO:0001727)|metal ion binding (GO:0046872)|NAD+ kinase activity (GO:0003951)|protein C-terminus binding (GO:0008022)			central_nervous_system(2)|endometrium(1)|kidney(2)|large_intestine(5)|lung(12)|pancreas(1)|prostate(1)|skin(1)	25				GBM - Glioblastoma multiforme(35;0.0259)|Lung(87;0.141)		CCCACTTCCCCTCTCCCCACCT	0.624																																																0																																										SO:0001589	frameshift_variant	8525			U51477	CCDS7918.1, CCDS41640.1, CCDS44579.1, CCDS44580.1, CCDS55757.1, CCDS55758.1, CCDS55759.1, CCDS44579.2	11p11.2	2010-11-24	2010-11-24		ENSG00000149091	ENSG00000149091	2.7.1.107		2857	protein-coding gene	gene with protein product		601441	"diacylglycerol kinase, zeta 104kDa"			8626588	Standard	NM_003646		Approved	DAGK5, hDGKzeta, DGK-ZETA, DAGK6	uc001ncn.1	Q13574	OTTHUMG00000166437	ENST00000454345.1:c.2873_2874delCT	11.37:g.46398731_46398732delCT	ENSP00000412178:p.Pro958fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2M9|B7Z6M3|E9PPW4|F6UCU9|G3V0F6|J3KNJ6|O00542|Q6ZVG7|Q8IVW9	Frame_Shift_Del	DEL	ENST00000454345.1	37	CCDS41640.1																																																																																				0.624	DGKZ-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000389772.1	NM_001105540		-	46398730	CT	-	46398729	7	5	675	1	0	1	0	1	0	0	0	0	4476	681	24	0	3418	0	DGKZ	11	46398729	Frame_Shift_Del	DEL	CT	TCGA-KO-8404-01A-11D-2310-10	27643580	46398729	88607787	74	43519										
OR1S2	219958	mdanderson.org	37	chr11	57970967	57970967	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ctgatgatgcagacataggaGaagaagatgagtacaaaggg	14	4	0	7	rs138762515		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:57970967G>A	ENST00000302592.6	-	1	686	c.687C>T	c.(685-687)ttC>ttT	p.F229F		NM_001004459.1	NP_001004459.1	Q8NGQ3	OR1S2_HUMAN	olfactory receptor, family 1, subfamily S, member 2	229						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.F229F(1)		endometrium(11)|kidney(1)|large_intestine(4)|lung(23)|ovary(2)|skin(2)|stomach(2)|urinary_tract(1)	46		Breast(21;0.0589)				AGACATAGGAGAAGAAGATGA	0.438																																																1	Substitution - coding silent(1)	kidney(1)											154	129	138					11																	57970967		2201	4296	6497	SO:0001819	synonymous_variant	219958			BK004297	CCDS31545.1	11q12.1	2012-08-09			ENSG00000197887	ENSG00000197887		"GPCR / Class A : Olfactory receptors"	15141	protein-coding gene	gene with protein product							Standard	NM_001004459		Approved		uc010rkb.2	Q8NGQ3	OTTHUMG00000167541	ENST00000302592.6:c.687C>T	11.37:g.57970967G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFG5|Q96R85	Silent	SNP	ENST00000302592.6	37	CCDS31545.1																																																																																				0.438	OR1S2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394703.2	NM_001004459		A	57970967	G	A	57970967	2	1	675	1	0	0	0	0	0	0	0	1	10980	933	33	2		2	OR1S2	11	57970967	Silent	SNP	G	TCGA-KO-8404-01A-11D-2310-10	11572238	57970967	77035549	75	43520										
OR1S1	219959	broad.mit.edu;mdanderson.org	37	chr11	57982580	57982580	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	acttttctattgtgtttgtcGtcattgacaatttgctcttg	7	7	3	1	rs147498041		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:57982580G>A	ENST00000309433.6	+	1	364	c.364G>A	c.(364-366)Gtc>Atc	p.V122I		NM_001004458.1	NP_001004458.1	Q8NH92	OR1S1_HUMAN	olfactory receptor, family 1, subfamily S, member 1	122						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|central_nervous_system(1)|endometrium(24)|kidney(1)|large_intestine(1)|liver(1)|lung(10)|prostate(1)|skin(2)|stomach(3)|urinary_tract(3)	48		Breast(21;0.0589)				TGTGTTTGTCGTCATTGACAA	0.453													G|||	1	0.000199681	0.0	0.0	5008	,	,		22244	0.0		0.0	False		,,,				2504	0.001															0								G	ILE/VAL	1,4401	2.1+/-5.4	0,1,2200	182	171	175		364	3.5	0.3	11	dbSNP_134	175	2,8590	2.2+/-6.3	0,2,4294	no	missense	OR1S1	NM_001004458.1	29	0,3,6494	AA,AG,GG		0.0233,0.0227,0.0231	possibly-damaging	122/326	57982580	3,12991	2201	4296	6497	SO:0001583	missense	219959			BK004299	CCDS31546.1	11q12.1	2012-08-09			ENSG00000172774	ENSG00000172774		"GPCR / Class A : Olfactory receptors"	8227	protein-coding gene	gene with protein product							Standard	NM_001004458		Approved	OST034	uc010rkc.2	Q8NH92	OTTHUMG00000167463	ENST00000309433.6:c.364G>A	11.37:g.57982580G>A	ENSP00000311688:p.Val122Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFG3	Missense_Mutation	SNP	ENST00000309433.6	37	CCDS31546.1	.	.	.	.	.	.	.	.	.	.	G	0.524	-0.860938	0.02610	2.27E-4	2.33E-4	ENSG00000172774	ENST00000309433	T	0.03004	4.08	3.45	3.45	0.39498	GPCR, rhodopsin-like superfamily (1);	0.546164	0.15053	N	0.283208	T	0.02418	0.0074	N	0.10916	0.065	0.09310	N	1	B	0.10296	0.003	B	0.08055	0.003	T	0.45440	-0.9261	10	0.22109	T	0.4	.	11.1634	0.48528	0.0:0.0:0.8158:0.1842	.	122	Q8NH92	OR1S1_HUMAN	I	122	ENSP00000311688:V122I	ENSP00000311688:V122I	V	+	1	0	OR1S1	57739156	0.000000	0.05858	0.349000	0.25694	0.286000	0.27126	-0.525000	0.06214	1.770000	0.52166	0.479000	0.44913	GTC		0.453	OR1S1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394705.1	NM_001004458		A	57982580	G	A	57982580	3	1	675	1	0	0	0	0	1	0	0	0	10979	1145	40	1	366	1	OR1S1	11	57982580	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	11613	57982580	77023936	76	43521										
FRMD8	83786	broad.mit.edu	37	chr11	65161559	65161560	+	Frame_Shift_Ins	INS	-	-	G													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cgtgttcttcccaaagcggcINSgggagctccaggtgaggcag							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:65161559_65161560insG	ENST00000317568.5	+	5	566_567	c.403_404insG	c.(403-405)cggfs	p.R135fs	FRMD8_ENST00000416776.2_Frame_Shift_Ins_p.R101fs|FRMD8_ENST00000355991.5_Frame_Shift_Ins_p.R79fs	NM_031904.3	NP_114110.1	Q9BZ67	FRMD8_HUMAN	FERM domain containing 8	135	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.					cytoskeleton (GO:0005856)				NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(1)|lung(9)|pancreas(1)|urinary_tract(1)	17						CCCAAAGCGGCGGGAGCTCCAG	0.658																																																0																																										SO:0001589	frameshift_variant	83786			AK074850	CCDS8102.1, CCDS73320.1	11q13.1	2007-08-14			ENSG00000126391	ENSG00000126391			25462	protein-coding gene	gene with protein product						12477932	Standard	NM_031904		Approved	FLJ90369, FKSG44	uc001odu.4	Q9BZ67	OTTHUMG00000166275	ENST00000317568.5:c.406dupG	11.37:g.65161562_65161562dupG	ENSP00000319726:p.Arg135fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2P1|Q86V56|Q8NCB5	Frame_Shift_Ins	INS	ENST00000317568.5	37	CCDS8102.1																																																																																				0.658	FRMD8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388833.1	NM_031904		G	65161560	-	G	65161559	7	5	675	1	0	1	1	0	0	0	0	0	6063	759	27	0	417	0	FRMD8	11	65161559	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	7178979	65161559	69844957	77	43522										
CATSPER1	117144	broad.mit.edu	37	chr11	65792709	65792709	+	Frame_Shift_Del	DEL	A	A	-													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tggagatatcctgggtatggActtttttggacatctgggtg							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:65792709delA	ENST00000312106.5	-	1	1279	c.1142delT	c.(1141-1143)gtcfs	p.V381fs		NM_053054.3	NP_444282.3	Q8NEC5	CTSR1_HUMAN	cation channel, sperm associated 1	381					calcium ion import (GO:0070509)|cell differentiation (GO:0030154)|fusion of sperm to egg plasma membrane (GO:0007342)|membrane depolarization during action potential (GO:0086010)|multicellular organism reproduction (GO:0032504)|multicellular organismal development (GO:0007275)|regulation of calcium ion transport (GO:0051924)|regulation of cilium beat frequency involved in ciliary motility (GO:0060296)|single fertilization (GO:0007338)|sperm motility (GO:0030317)|sperm-egg recognition (GO:0035036)|spermatogenesis (GO:0007283)	CatSper complex (GO:0036128)|motile cilium (GO:0031514)|plasma membrane (GO:0005886)	calcium activated cation channel activity (GO:0005227)|voltage-gated calcium channel activity (GO:0005245)			breast(3)|central_nervous_system(1)|endometrium(9)|kidney(3)|large_intestine(6)|liver(3)|lung(12)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	44						CTGGGTATGGACTTTTTTGGA	0.537																																																0													134	117	123					11																	65792709		2201	4296	6497	SO:0001589	frameshift_variant	117144			AF407333	CCDS8127.1	11q12.1	2011-07-05			ENSG00000175294	ENSG00000175294		"Voltage-gated ion channels / Cation channels, sperm associated"	17116	protein-coding gene	gene with protein product		606389				11675491, 11595941, 16382101	Standard	NM_053054		Approved	CATSPER	uc001ogt.3	Q8NEC5	OTTHUMG00000166668	ENST00000312106.5:c.1142delT	11.37:g.65792709delA	ENSP00000309052:p.Val381fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q96P76	Frame_Shift_Del	DEL	ENST00000312106.5	37	CCDS8127.1																																																																																				0.537	CATSPER1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391055.1	NM_053054		-	65792709	A	-	65792709	7	5	675	1	0	1	0	1	0	0	0	0	2689	275	10	0	1248	0	CATSPER1	11	65792709	Frame_Shift_Del	DEL	A	TCGA-KO-8404-01A-11D-2310-10	631150	65792709	69213807	78	43523										
C11orf80	79703	broad.mit.edu;hgsc.bcm.edu	37	chr11	66555695	66555696	+	Frame_Shift_Ins	INS	-	-	A													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cttcagaggaaggcagctatINStctcaggatatgacaggggt							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:66555695_66555696insA	ENST00000360962.4	+	5	595_596	c.588_589insA	c.(589-591)tctfs	p.S197fs	C11orf80_ENST00000525449.2_Frame_Shift_Ins_p.S42fs|C11orf80_ENST00000527368.1_3'UTR|C11orf80_ENST00000346672.4_Frame_Shift_Ins_p.S42fs|C11orf80_ENST00000527634.1_Intron|C11orf80_ENST00000532565.2_5'UTR|C11orf80_ENST00000540737.1_Frame_Shift_Ins_p.S31fs	NM_024650.3	NP_078926.3	Q8N6T0	CK080_HUMAN	chromosome 11 open reading frame 80	197										autonomic_ganglia(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(4)|ovary(1)|skin(1)|urinary_tract(1)	14						AAGGCAGCTATTCTCAGGATAT	0.401																																																0																																										SO:0001589	frameshift_variant	79703					11q13.2	2012-05-30			ENSG00000173715	ENSG00000173715			26197	protein-coding gene	gene with protein product						18160775	Standard	NM_024650		Approved	FLJ22531	uc021qmd.1	Q8N6T0	OTTHUMG00000167164	Exception_encountered	11.37:g.66555695_66555696insA	ENSP00000354227:p.Ser197fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H677	Frame_Shift_Ins	INS	ENST00000360962.4	37	CCDS53664.1																																																																																				0.401	C11orf80-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_024650		A	66555696	-	A	66555695	7	5	675	1	0	1	1	0	0	0	0	0	1666	1500	52	0	606	0	C11orf80	11	66555695	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	762986	66555695	68450821	79	43524	436	2								
C11orf80	79703	bcgsc.ca	37	chr11	66555696	66555697	+	Frame_Shift_Ins	INS	-	-	A													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ttcagaggaaggcagctattINSctcaggatatgacaggggta							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:66555696_66555697insA	ENST00000360962.4	+	5	596_597	c.589_590insA	c.(589-591)tctfs	p.S197fs	C11orf80_ENST00000525449.2_Frame_Shift_Ins_p.S42fs|C11orf80_ENST00000527368.1_3'UTR|C11orf80_ENST00000346672.4_Frame_Shift_Ins_p.S42fs|C11orf80_ENST00000527634.1_Intron|C11orf80_ENST00000532565.2_5'UTR|C11orf80_ENST00000540737.1_Frame_Shift_Ins_p.S31fs	NM_024650.3	NP_078926.3	Q8N6T0	CK080_HUMAN	chromosome 11 open reading frame 80	197										autonomic_ganglia(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(4)|ovary(1)|skin(1)|urinary_tract(1)	14						AGGCAGCTATTCTCAGGATATG	0.396																																																0																																										SO:0001589	frameshift_variant	79703					11q13.2	2012-05-30			ENSG00000173715	ENSG00000173715			26197	protein-coding gene	gene with protein product						18160775	Standard	NM_024650		Approved	FLJ22531	uc021qmd.1	Q8N6T0	OTTHUMG00000167164	Exception_encountered	11.37:g.66555696_66555697insA	ENSP00000354227:p.Ser197fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H677	Frame_Shift_Ins	INS	ENST00000360962.4	37	CCDS53664.1																																																																																				0.396	C11orf80-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_024650		A	66555697	-	A	66555696	7	5	675	1	0	1	1	0	0	0	0	0	1666	1783	62	0	607	0	C11orf80	11	66555696	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	1	66555696	68450820	80	43525	436	2								
KRTAP5-7	440050	mdanderson.org	37	chr11	71238645	71238645	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ccagtgcagctgctataagcCctgctgctgctcctcaggct	10	15	1	0	rs201904441	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:71238645C>A	ENST00000398536.4	+	1	333	c.299C>A	c.(298-300)cCc>cAc	p.P100H		NM_001012503.1	NP_001012521.1	Q6L8G8	KRA57_HUMAN	keratin associated protein 5-7	100	7 X 4 AA repeats of C-C-X-P.					keratin filament (GO:0045095)				breast(1)|endometrium(1)|kidney(3)|lung(6)|ovary(1)	12						tgctataagccctgctgctgc	0.632													c|||	3	0.000599042	0.0023	0.0	5008	,	,		14152	0.0		0.0	False		,,,				2504	0.0															0													69	88	82					11																	71238645		2199	4292	6491	SO:0001583	missense	440050			AB126076	CCDS41682.1	11q13.4	2008-02-05			ENSG00000244411	ENSG00000244411		"Keratin associated proteins"	23602	protein-coding gene	gene with protein product						15144888	Standard	NM_001012503		Approved	KRTAP5.7, KRTAP5-3	uc001oqq.1	Q6L8G8	OTTHUMG00000057570	ENST00000398536.4:c.299C>A	11.37:g.71238645C>A	ENSP00000417330:p.Pro100His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNM3|Q701N5	Missense_Mutation	SNP	ENST00000398536.4	37	CCDS41682.1	.	.	.	.	.	.	.	.	.	.	N	8.998	0.979405	0.18812	.	.	ENSG00000244411	ENST00000398536	T	0.01397	4.94	1.34	1.34	0.21922	.	.	.	.	.	T	0.04137	0.0115	M	0.91510	3.215	0.21579	N	0.999634	D	0.65815	0.995	P	0.46758	0.526	T	0.32534	-0.9903	9	0.51188	T	0.08	.	3.7081	0.08408	0.0:0.7549:0.0:0.2451	.	100	Q6L8G8	KRA57_HUMAN	H	100	ENSP00000417330:P100H	ENSP00000417330:P100H	P	+	2	0	KRTAP5-7	70916293	0.012000	0.17670	0.672000	0.29872	0.043000	0.13939	-0.334000	0.07883	1.080000	0.41073	0.281000	0.19383	CCC		0.632	KRTAP5-7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000127953.1			A	71238645	C	A	71238645	3	1	675	1	0	0	0	0	1	0	0	0	8573	623	22	4	301	4	KRTAP5-7	11	71238645	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	4682949	71238645	63767871	81	43526										
KRTAP5-7	440050	mdanderson.org	37	chr11	71238685	71238685	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tgtgggtcatcctgctgccaGtccagctgctgtaagccctg	12	13	1	0	rs568152352	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:71238685G>A	ENST00000398536.4	+	1	373	c.339G>A	c.(337-339)caG>caA	p.Q113Q		NM_001012503.1	NP_001012521.1	Q6L8G8	KRA57_HUMAN	keratin associated protein 5-7	113	7 X 4 AA repeats of C-C-X-P.					keratin filament (GO:0045095)				breast(1)|endometrium(1)|kidney(3)|lung(6)|ovary(1)	12						cctgctgccagtccagctgct	0.617													g|||	3	0.000599042	0.0023	0.0	5008	,	,		19208	0.0		0.0	False		,,,				2504	0.0															0																																										SO:0001819	synonymous_variant	440050			AB126076	CCDS41682.1	11q13.4	2008-02-05			ENSG00000244411	ENSG00000244411		"Keratin associated proteins"	23602	protein-coding gene	gene with protein product						15144888	Standard	NM_001012503		Approved	KRTAP5.7, KRTAP5-3	uc001oqq.1	Q6L8G8	OTTHUMG00000057570	ENST00000398536.4:c.339G>A	11.37:g.71238685G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RNM3|Q701N5	Silent	SNP	ENST00000398536.4	37	CCDS41682.1																																																																																				0.617	KRTAP5-7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000127953.1			A	71238685	G	A	71238685	2	1	675	1	0	0	0	0	0	0	0	1	8573	1020	36	2		2	KRTAP5-7	11	71238685	Silent	SNP	G	TCGA-KO-8404-01A-11D-2310-10	40	71238685	63767831	82	43527										
OR8B2	26595	mdanderson.org	37	chr11	124252982	124252982	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gagataatattcttttttgaCacaaagttcattagcatttt	5	5	2	2	rs71491825		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr11:124252982C>T	ENST00000375013.2	-	1	276	c.258G>A	c.(256-258)gtG>gtA	p.V86V		NM_001005468.1	NP_001005468.1	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B, member 2	86						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(13)|ovary(1)	23		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)		TCTTTTTTGACACAAAGTTCA	0.383													c|||	1	0.000199681	0.0	0.0	5008	,	,		23366	0.0		0.001	False		,,,				2504	0.0															0													138	133	135					11																	124252982		2201	4299	6500	SO:0001819	synonymous_variant	26595			AB065826	CCDS31708.1	11q24.1	2012-08-09			ENSG00000204293	ENSG00000204293		"GPCR / Class A : Olfactory receptors"	8471	protein-coding gene	gene with protein product							Standard	XM_005271500		Approved		uc010sai.2	Q96RD0	OTTHUMG00000165982	ENST00000375013.2:c.258G>A	11.37:g.124252982C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NGH2	Silent	SNP	ENST00000375013.2	37	CCDS31708.1																																																																																				0.383	OR8B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387290.1	NM_001005468		T	124252982	C	T	124252982	2	4	675	1	0	0	0	0	0	0	0	1	11234	465	17	2		2	OR8B2	11	124252982	Silent	SNP	C	TCGA-KO-8404-01A-11D-2310-10	53014297	124252982	10753534	83	43528										
NANOG	79923	mdanderson.org	37	chr12	7947571	7947571	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gccagtgacttggaggctgcCttggaagctgctggggaagg	18	8	0	1	rs4012937		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr12:7947571C>T	ENST00000229307.4	+	4	1017	c.798C>T	c.(796-798)gcC>gcT	p.A266A	NANOG_ENST00000526286.1_Silent_p.A250A	NM_024865.2	NP_079141.2	Q9H9S0	NANOG_HUMAN	Nanog homeobox	266	Sufficient for strong transactivation activity. {ECO:0000250}.				cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|embryo development (GO:0009790)|embryonic pattern specification (GO:0009880)|endodermal cell fate specification (GO:0001714)|gonad development (GO:0008406)|mesodermal cell fate commitment (GO:0001710)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of cell fate commitment (GO:0010454)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of cell proliferation (GO:0008284)|positive regulation of mitotic cell cycle (GO:0045931)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of cell differentiation (GO:0045595)|regulation of gene expression (GO:0010468)|regulation of transcription, DNA-templated (GO:0006355)|response to retinoic acid (GO:0032526)|somatic stem cell maintenance (GO:0035019)|stem cell division (GO:0017145)|transcription, DNA-templated (GO:0006351)	nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|enhancer sequence-specific DNA binding (GO:0001158)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			endometrium(1)|kidney(1)|large_intestine(1)|lung(6)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	14				Kidney(36;0.0872)		TGGAGGCTGCCTTGGAAGCTG	0.473																																																0													6	7	7					12																	7947571		907	2018	2925	SO:0001819	synonymous_variant	79923			AB093576	CCDS31736.1, CCDS73436.1	12p13.31	2011-06-20			ENSG00000111704	ENSG00000111704		"Homeoboxes / ANTP class : NKL subclass"	20857	protein-coding gene	gene with protein product		607937				12787505, 12787504	Standard	XM_005253484		Approved	FLJ12581, FLJ40451	uc009zfy.1	Q9H9S0		ENST00000229307.4:c.798C>T	12.37:g.7947571C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DUU4|Q2TTG0|Q6JZS5	Silent	SNP	ENST00000229307.4	37	CCDS31736.1																																																																																				0.473	NANOG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387480.2	NM_024865		T	7947571	C	T	7947571	2	4	675	1	0	0	0	0	0	0	0	1	10157	668	24	2		2	NANOG	12	7947571	Silent	SNP	C	TCGA-KO-8404-01A-11D-2310-10		7947571	125904324	84	43529										
TAS2R10	50839	broad.mit.edu;mdanderson.org	37	chr12	10978222	10978222	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	catgagcttctgtgttggagTctctcaatcctgtcacattc	8	11	4	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr12:10978222T>C	ENST00000240619.2	-	1	735	c.647A>G	c.(646-648)gAc>gGc	p.D216G		NM_023921.1	NP_076410.1	Q9NYW0	T2R10_HUMAN	taste receptor, type 2, member 10	216					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)|taste receptor activity (GO:0008527)			breast(1)|central_nervous_system(1)|large_intestine(7)|lung(5)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	17						TGTGTTGGAGTCTCTCAATCC	0.348																																																0													110	107	108					12																	10978222		2203	4300	6503	SO:0001583	missense	50839			AF227136	CCDS8634.1	12p13	2012-08-22			ENSG00000121318	ENSG00000121318		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	14918	protein-coding gene	gene with protein product		604791				10761934, 10766242	Standard	NM_023921		Approved	T2R10, TRB2	uc001qyy.1	Q9NYW0	OTTHUMG00000168508	ENST00000240619.2:c.647A>G	12.37:g.10978222T>C	ENSP00000240619:p.Asp216Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MIM9|Q6NTD9	Missense_Mutation	SNP	ENST00000240619.2	37	CCDS8634.1	.	.	.	.	.	.	.	.	.	.	T	16.60	3.167375	0.57476	.	.	ENSG00000121318	ENST00000240619	T	0.37411	1.2	4.81	4.81	0.61882	.	0.445268	0.21042	N	0.081146	T	0.69061	0.3069	H	0.94264	3.515	0.21719	N	0.999578	D	0.76494	0.999	D	0.83275	0.996	T	0.67193	-0.5732	10	0.87932	D	0	.	12.5979	0.56481	0.0:0.0:0.0:1.0	.	216	Q9NYW0	T2R10_HUMAN	G	216	ENSP00000240619:D216G	ENSP00000240619:D216G	D	-	2	0	TAS2R10	10869489	0.010000	0.17322	0.049000	0.19019	0.012000	0.07955	1.853000	0.39358	1.930000	0.55929	0.477000	0.44152	GAC		0.348	TAS2R10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399934.1			C	10978222	T	C	10978222	3	2	675	1	0	0	0	0	1	0	0	0	15578	1667	58	3	280	3	TAS2R10	12	10978222	Missense_Mutation	SNP	T	TCGA-KO-8404-01A-11D-2310-10	3030651	10978222	122873673	85	43530										
TAS2R30	259293	mdanderson.org	37	chr12	11286164	11286164	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aggaggtcacagtttgcaaaGcttttatgtggaccttggtg	13	6	1	0	rs200661425		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr12:11286164G>A	ENST00000539585.1	-	1	1079	c.680C>T	c.(679-681)gCt>gTt	p.A227V	TAS2R14_ENST00000381852.4_Intron|PRR4_ENST00000536668.1_Intron	NM_001097643.1	NP_001091112.1	P59541	T2R30_HUMAN	taste receptor, type 2, member 30	227					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)	p.A227V(2)		autonomic_ganglia(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(4)|skin(1)	13						AGTTTGCAAAGCTTTTATGTG	0.418																																																2	Substitution - Missense(2)	autonomic_ganglia(1)|skin(1)											198	208	205					12																	11286164		2203	4300	6503	SO:0001583	missense	259293			AX097746, AF494233	CCDS53750.1	12p13.2	2012-08-22				ENSG00000256188		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19112	protein-coding gene	gene with protein product		613963	"taste receptor, type 2, member 47"	TAS2R47			Standard	NM_001097643		Approved	T2R30	uc009zhs.1	P59541		ENST00000539585.1:c.680C>T	12.37:g.11286164G>A	ENSP00000444736:p.Ala227Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q645X7	Missense_Mutation	SNP	ENST00000539585.1	37	CCDS53750.1	.	.	.	.	.	.	.	.	.	.	-	13.13	2.144355	0.37825	.	.	ENSG00000256188	ENST00000539585	T	0.01422	4.91	2.6	2.6	0.31112	.	.	.	.	.	T	0.03651	0.0104	M	0.70595	2.14	0.09310	N	1	P	0.40250	0.709	P	0.46975	0.533	T	0.27938	-1.0059	9	0.46703	T	0.11	.	8.7017	0.34329	0.0:0.0:1.0:0.0	.	227	P59541	T2R30_HUMAN	V	227	ENSP00000444736:A227V	ENSP00000444736:A227V	A	-	2	0	TAS2R30	11177431	0.677000	0.27577	0.024000	0.17045	0.426000	0.31534	2.697000	0.47060	1.454000	0.47793	0.313000	0.20887	GCT		0.418	TAS2R30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400238.1	NM_001097643		A	11286164	G	A	11286164	3	1	675	1	0	0	0	0	1	0	0	0	15585	971	34	2	283	2	TAS2R30	12	11286164	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	307942	11286164	122565731	86	43531										
C12orf77	196415	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr12	25147251	25147251	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ttatatgaaaattgtcatagCatgatgtaggctgatttaaa	8	3	1	3			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr12:25147251C>T	ENST00000549828.1	-	4	622	c.418G>A	c.(418-420)Gct>Act	p.A140T		NM_001101339.1	NP_001094809.1	C9JDV5	CL097_HUMAN	chromosome 12 open reading frame 77	140										endometrium(1)|kidney(1)|large_intestine(1)|lung(3)|prostate(1)	7						ATTGTCATAGCATGATGTAGG	0.363																																																0													76	67	69					12																	25147251		1815	4071	5886	SO:0001583	missense	196415			BC046192	CCDS44846.1	12p12.1	2009-09-30			ENSG00000226397	ENSG00000226397			27282	protein-coding gene	gene with protein product						12477932	Standard	NM_001101339		Approved		uc001rgf.3	C9JDV5	OTTHUMG00000170185	ENST00000549828.1:c.418G>A	12.37:g.25147251C>T	ENSP00000447146:p.Ala140Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000549828.1	37	CCDS44846.1	.	.	.	.	.	.	.	.	.	.	C	1.748	-0.489875	0.04322	.	.	ENSG00000226397	ENST00000549828	T	0.55052	0.54	0.225	0.225	0.15325	.	.	.	.	.	T	0.39627	0.1085	N	0.08118	0	0.09310	N	1	P	0.46395	0.877	P	0.51866	0.682	T	0.29579	-1.0007	8	0.87932	D	0	.	.	.	.	.	140	C9JDV5	CL097_HUMAN	T	140	ENSP00000447146:A140T	ENSP00000447146:A140T	A	-	1	0	C12orf77	25038518	0.002000	0.14202	0.017000	0.16124	0.026000	0.11368	0.265000	0.18515	0.300000	0.22699	0.305000	0.20034	GCT		0.363	C12orf77-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407827.1	NM_001101339		T	25147251	C	T	25147251	3	4	675	1	0	0	0	0	1	0	0	0	1718	710	25	2	23	2	C12orf77	12	25147251	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	13861087	25147251	108704644	87	43532										
DDX11	1663	mdanderson.org	37	chr12	31242981	31242981	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tggcccttgggaaggaggccCgggcctgtccctattacggg	16	12	0	0	rs3892690		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr12:31242981C>A	ENST00000407793.2	+	9	1293	c.1042C>A	c.(1042-1044)Cgg>Agg	p.R348R	DDX11_ENST00000251758.5_3'UTR|DDX11_ENST00000542838.1_Silent_p.R348R|DDX11_ENST00000228264.6_Silent_p.R322R|DDX11_ENST00000350437.4_Silent_p.R348R|DDX11_ENST00000545668.1_Silent_p.R348R	NM_030653.3|NM_152438.1	NP_085911.2|NP_689651.1	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11	348	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|ATP catabolic process (GO:0006200)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|sister chromatid cohesion (GO:0007062)|viral process (GO:0016032)	midbody (GO:0030496)|nuclear chromatin (GO:0000790)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle pole (GO:0000922)	4 iron, 4 sulfur cluster binding (GO:0051539)|ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA-dependent ATPase activity (GO:0008094)|double-stranded DNA binding (GO:0003690)|helicase activity (GO:0004386)|metal ion binding (GO:0046872)|RNA binding (GO:0003723)|single-stranded DNA binding (GO:0003697)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(11)|large_intestine(5)|lung(23)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	57	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					GAAGGAGGCCCGGGCCTGTCC	0.647										Multiple Myeloma(12;0.14)																																						0													1	2	2					12																	31242981		1322	2876	4198	SO:0001819	synonymous_variant	1663			U75969	CCDS8721.1, CCDS41767.1, CCDS44856.1, CCDS58224.1	12p11.21	2012-02-23	2012-02-23		ENSG00000013573	ENSG00000013573		"DEAD-boxes"	2736	protein-coding gene	gene with protein product	"CHL1-like helicase homolog (S. cerevisiae)"	601150	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11 (S.cerevisiae CHL1-like helicase)", "DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11"				Standard	NM_030653		Approved	CHLR1, KRG2, CHL1, ChlR1, WABS	uc001rjv.2	Q96FC9	OTTHUMG00000168435	ENST00000407793.2:c.1042C>A	12.37:g.31242981C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q13333|Q86VQ4|Q86W62|Q92498|Q92770|Q92998|Q92999	Silent	SNP	ENST00000407793.2	37	CCDS44856.1																																																																																				0.647	DDX11-202	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000399728.1	NM_030653		A	31242981	C	A	31242981	2	1	675	1	0	0	0	0	0	0	0	1	4345	643	23	4		4	DDX11	12	31242981	Silent	SNP	C	TCGA-KO-8404-01A-11D-2310-10	6095730	31242981	102608914	88	43533										
FMNL3	91010	broad.mit.edu	37	chr12	50042932	50042932	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cttccggtcagtggacttggTatccagcagctaggagaggg	15	9	1	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr12:50042932T>C	ENST00000293590.5	-	21	2628	c.2395A>G	c.(2395-2397)Acc>Gcc	p.T799A	FMNL3_ENST00000335154.5_Missense_Mutation_p.T799A|FMNL3_ENST00000352151.5_Missense_Mutation_p.T748A|FMNL3_ENST00000550488.1_Missense_Mutation_p.T799A			Q8IVF7	FMNL3_HUMAN	formin-like 3	799	FH2. {ECO:0000255|PROSITE- ProRule:PRU00774}.				actin cytoskeleton organization (GO:0030036)|cell migration (GO:0016477)|cytoskeleton organization (GO:0007010)|regulation of cell shape (GO:0008360)	cytoplasm (GO:0005737)	GTPase activating protein binding (GO:0032794)			breast(4)|endometrium(7)|kidney(2)|large_intestine(6)|lung(11)|ovary(2)|pancreas(2)|prostate(2)|skin(2)|stomach(1)	39						GTGGACTTGGTATCCAGCAGC	0.572																																																0													124	134	131					12																	50042932		2105	4233	6338	SO:0001583	missense	91010			AK128195	CCDS41780.1, CCDS44874.1	12q13.12	2006-04-10							23698	protein-coding gene	gene with protein product						12684686	Standard	NM_198900		Approved	DKFZp762B245, MGC45819, WBP3	uc001ruv.1	Q8IVF7	OTTHUMG00000169651	ENST00000293590.5:c.2395A>G	12.37:g.50042932T>C	ENSP00000293590:p.Thr799Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B0JZA7|Q6ZRJ1	Missense_Mutation	SNP	ENST00000293590.5	37		.	.	.	.	.	.	.	.	.	.	T	24.4	4.531648	0.85706	.	.	ENSG00000161791	ENST00000335154;ENST00000550488;ENST00000352151;ENST00000293590	T;T;T;T	0.21361	2.01;2.01;2.01;2.01	5.44	5.44	0.79542	Actin-binding FH2/DRF autoregulatory (1);Actin-binding FH2 (3);	0.000000	0.85682	D	0.000000	T	0.50820	0.1638	M	0.85859	2.78	0.80722	D	1	D;D;D	0.69078	0.995;0.99;0.997	D;D;D	0.79108	0.941;0.98;0.992	T	0.57370	-0.7823	10	0.62326	D	0.03	.	14.7946	0.69868	0.0:0.0:0.0:1.0	.	748;799;799	Q8IVF7-2;Q8IVF7-3;Q8IVF7	.;.;FMNL3_HUMAN	A	799;799;748;799	ENSP00000335655:T799A;ENSP00000447479:T799A;ENSP00000344311:T748A;ENSP00000293590:T799A	ENSP00000293590:T799A	T	-	1	0	FMNL3	48329199	1.000000	0.71417	1.000000	0.80357	0.954000	0.61252	7.934000	0.87649	2.199000	0.70637	0.533000	0.62120	ACC		0.572	FMNL3-201	KNOWN	basic	protein_coding	protein_coding		NM_175736		C	50042932	T	C	50042932	3	2	675	1	0	0	0	0	1	0	0	0	5960	1638	57	3	712	3	FMNL3	12	50042932	Missense_Mutation	SNP	T	TCGA-KO-8404-01A-11D-2310-10	18799951	50042932	83808963	89	43534										
KRT3	3850	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	53189775	53189775	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ggagaccacagcagagcggcCggagaaaccctggctcccgc	14	15	0	3			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr12:53189775C>T	ENST00000417996.2	-	1	126	c.52G>A	c.(52-54)Ggc>Agc	p.G18S	KRT3_ENST00000309505.3_Missense_Mutation_p.G18S	NM_057088.2	NP_476429.2	P12035	K2C3_HUMAN	keratin 3	18	Gly-rich.|Head.				epithelial cell differentiation (GO:0030855)|intermediate filament cytoskeleton organization (GO:0045104)	extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)|keratin filament (GO:0045095)	structural molecule activity (GO:0005198)			NS(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(8)|prostate(2)|skin(1)	23						GCAGAGCGGCCGGAGAAACCC	0.622																																																0													26	33	31					12																	53189775		2202	4299	6501	SO:0001583	missense	3850				CCDS44895.1	12q13.13	2013-01-16			ENSG00000186442	ENSG00000186442		"-", "Intermediate filaments type II, keratins (basic)"	6440	protein-coding gene	gene with protein product	"keratin, type II cytoskeletal 3", "cytokeratin 3"	148043				7510223, 16831889	Standard	NM_057088		Approved	CK3, K3	uc001say.3	P12035	OTTHUMG00000169799	ENST00000417996.2:c.52G>A	12.37:g.53189775C>T	ENSP00000413479:p.Gly18Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NIS2|Q701L8	Missense_Mutation	SNP	ENST00000417996.2	37	CCDS44895.1	.	.	.	.	.	.	.	.	.	.	C	12.45	1.942917	0.34283	.	.	ENSG00000186442	ENST00000417996;ENST00000309505	T;T	0.80566	-1.39;-1.39	5.17	3.3	0.37823	.	0.000000	0.47852	D	0.000216	T	0.58935	0.2157	L	0.31526	0.94	0.25853	N	0.983919	P	0.42375	0.778	B	0.26864	0.074	T	0.51196	-0.8736	10	0.22109	T	0.4	.	6.36	0.21422	0.392:0.5193:0.0:0.0886	.	18	P12035	K2C3_HUMAN	S	18	ENSP00000413479:G18S;ENSP00000312206:G18S	ENSP00000312206:G18S	G	-	1	0	KRT3	51476042	0.001000	0.12720	0.323000	0.25347	0.947000	0.59692	0.061000	0.14366	0.651000	0.30788	0.561000	0.74099	GGC		0.622	KRT3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000405930.1	NM_057088		T	53189775	C	T	53189775	3	4	675	1	0	0	0	0	1	0	0	0	8473	652	23	1	1870	1	KRT3	12	53189775	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	3146843	53189775	80662120	90	43535										
NAB2	4665	mdanderson.org	37	chr12	57485373	57485373	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cctggggcaggggacccccgGatctggccaggccggagcac	17	15	1	0			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr12:57485373G>T	ENST00000300131.3	+	2	927	c.549G>T	c.(547-549)cgG>cgT	p.R183R	NAB2_ENST00000357680.4_Silent_p.R183R|NAB2_ENST00000342556.6_Silent_p.R183R|NAB2_ENST00000554718.1_3'UTR	NM_005967.3	NP_005958.1	Q15742	NAB2_HUMAN	NGFI-A binding protein 2 (EGR1 binding protein 2)	183					cell proliferation (GO:0008283)|endochondral ossification (GO:0001958)|myelination (GO:0042552)|negative regulation of transcription from RNA polymerase III promoter (GO:0016480)|nervous system development (GO:0007399)|regulation of epidermis development (GO:0045682)|Schwann cell differentiation (GO:0014037)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	transcription corepressor activity (GO:0003714)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(5)|ovary(1)|prostate(2)|stomach(1)|upper_aerodigestive_tract(1)	20						GGGACCCCCGGATCTGGCCAG	0.667																																																0													24	27	26					12																	57485373		2202	4299	6501	SO:0001819	synonymous_variant	4665			BC065931	CCDS8930.1	12q13.3	2008-05-14				ENSG00000166886			7627	protein-coding gene	gene with protein product		602381				8668170, 8649813	Standard	XM_005268894		Approved	MADER	uc001smz.3	Q15742		ENST00000300131.3:c.549G>T	12.37:g.57485373G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RAK3|O76006|Q14797	Silent	SNP	ENST00000300131.3	37	CCDS8930.1																																																																																				0.667	NAB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412222.1	NM_005967		T	57485373	G	T	57485373	2	4	675	1	0	0	0	0	0	0	0	1	10139	1161	41	4		4	NAB2	12	57485373	Silent	SNP	G	TCGA-KO-8404-01A-11D-2310-10	4295598	57485373	76366522	91	43536										
OSBPL8	114882	broad.mit.edu	37	chr12	76763581	76763582	+	Frame_Shift_Ins	INS	-	-	C													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ggtctttggcatttatggctINScgagttacccgttgccagag					rs571718491		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr12:76763581_76763582insC	ENST00000261183.3	-	20	2554_2555	c.2075_2076insG	c.(2074-2076)cgafs	p.R692fs	OSBPL8_ENST00000393250.4_Frame_Shift_Ins_p.R650fs|OSBPL8_ENST00000393249.2_Frame_Shift_Ins_p.R650fs	NM_020841.4	NP_065892.1	Q9BZF1	OSBL8_HUMAN	oxysterol binding protein-like 8	692					fat cell differentiation (GO:0045444)|lipid transport (GO:0006869)|negative regulation of cell migration (GO:0030336)|negative regulation of sequestering of triglyceride (GO:0010891)|positive regulation of insulin receptor signaling pathway (GO:0046628)|positive regulation of protein kinase B signaling (GO:0051897)|protein localization to nuclear pore (GO:0090204)	membrane (GO:0016020)|nuclear membrane (GO:0031965)	cholesterol binding (GO:0015485)			breast(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(14)|ovary(2)	28						CATTTATGGCTCGAGTTACCCG	0.366																																																0																																										SO:0001589	frameshift_variant	114882			AF392452	CCDS31862.1, CCDS41814.1	12q14	2013-01-10				ENSG00000091039		"Oxysterol binding proteins", "Pleckstrin homology (PH) domain containing"	16396	protein-coding gene	gene with protein product		606736				1735225, 17991739	Standard	NM_020841		Approved	OSBP10, ORP8, MST120, MSTP120	uc001sye.1	Q9BZF1		ENST00000261183.3:c.2076dupG	12.37:g.76763582_76763582dupC	ENSP00000261183:p.Arg692fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1T2|E9PE66|E9PE68|Q52LQ3|Q68D75|Q8WXP8|Q9P277	Frame_Shift_Ins	INS	ENST00000261183.3	37	CCDS31862.1																																																																																				0.366	OSBPL8-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000406357.1	NM_020841		C	76763582	-	C	76763581	7	5	675	1	0	1	1	0	0	0	0	0	11290	1538	54	0	613	0	OSBPL8	12	76763581	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	19278208	76763581	57088314	92	43537										
PPP1CC	5501	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	111160464	111160464	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cagttggtcgcataattcgcCgaatctgctccatagattga	9	10	1	2			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr12:111160464C>T	ENST00000335007.5	-	5	750	c.560G>A	c.(559-561)cGg>cAg	p.R187Q	PPP1CC_ENST00000551676.1_Missense_Mutation_p.R187Q|PPP1CC_ENST00000550991.1_Missense_Mutation_p.R187Q|PPP1CC_ENST00000546933.1_Missense_Mutation_p.R196Q|PPP1CC_ENST00000340766.5_Missense_Mutation_p.R187Q	NM_002710.3	NP_002701.1	P36873	PP1G_HUMAN	protein phosphatase 1, catalytic subunit, gamma isozyme	187					cell division (GO:0051301)|circadian regulation of gene expression (GO:0032922)|entrainment of circadian clock by photoperiod (GO:0043153)|glycogen metabolic process (GO:0005977)|mitotic cell cycle (GO:0000278)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron differentiation (GO:0030182)|protein dephosphorylation (GO:0006470)|regulation of circadian rhythm (GO:0042752)|small molecule metabolic process (GO:0044281)|transforming growth factor beta receptor signaling pathway (GO:0007179)|triglyceride catabolic process (GO:0019433)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|focal adhesion (GO:0005925)|kinetochore (GO:0000776)|mitochondrion (GO:0005739)|MLL5-L complex (GO:0070688)|nucleolus (GO:0005730)|nucleus (GO:0005634)|protein complex (GO:0043234)|PTW/PP1 phosphatase complex (GO:0072357)	metal ion binding (GO:0046872)|phosphatase activity (GO:0016791)|phosphoprotein phosphatase activity (GO:0004721)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein serine/threonine phosphatase activity (GO:0004722)			central_nervous_system(1)|large_intestine(2)|lung(3)	6						CATAATTCGCCGAATCTGCTC	0.393																																																0													78	74	76					12																	111160464		2203	4300	6503	SO:0001583	missense	5501				CCDS9150.1, CCDS58279.1	12q24.1-q24.2	2013-01-17	2010-03-05		ENSG00000186298	ENSG00000186298	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatase, catalytic subunits"	9283	protein-coding gene	gene with protein product		176914	"protein phosphatase 1, catalytic subunit, gamma isoform"				Standard	NM_002710		Approved	PP1C, PP1gamma	uc021rdx.1	P36873	OTTHUMG00000169531	ENST00000335007.5:c.560G>A	12.37:g.111160464C>T	ENSP00000335084:p.Arg187Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000335007.5	37	CCDS9150.1	.	.	.	.	.	.	.	.	.	.	C	18.17	3.563884	0.65651	.	.	ENSG00000186298	ENST00000335007;ENST00000340766;ENST00000550261;ENST00000551582;ENST00000553024;ENST00000546933;ENST00000550991;ENST00000551676	T;T;T;T;T	0.06371	3.31;3.31;3.31;3.31;3.31	5.79	2.98	0.34508	Serine/threonine-specific protein phosphatase/bis(5-nucleosyl)-tetraphosphatase (2);Metallophosphoesterase domain (1);	0.045683	0.85682	D	0.000000	T	0.08758	0.0217	M	0.66439	2.03	0.49798	D	0.999826	B	0.23490	0.086	B	0.16722	0.016	T	0.06625	-1.0816	10	0.62326	D	0.03	-0.2296	9.7321	0.40368	0.0:0.7557:0.1166:0.1277	.	187	P36873	PP1G_HUMAN	Q	187;187;46;5;5;196;187;187	ENSP00000335084:R187Q;ENSP00000341779:R187Q;ENSP00000447122:R196Q;ENSP00000448981:R187Q;ENSP00000448437:R187Q	ENSP00000335084:R187Q	R	-	2	0	PPP1CC	109644847	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.960000	0.70348	0.461000	0.27071	0.655000	0.94253	CGG		0.393	PPP1CC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404659.1			T	111160464	C	T	111160464	3	4	675	1	0	0	0	0	1	0	0	0	12361	652	23	1	423	1	PPP1CC	12	111160464	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	34396883	111160464	22691431	93	43538										
UBC	7316	mdanderson.org	37	chr12	125397895	125397895	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cggagcaccaggtgcagggtAgactctttctggatgttgta	14	8	2	1	rs199930220	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr12:125397895A>G	ENST00000538617.1	-	3	739	c.423T>C	c.(421-423)tcT>tcC	p.S141S	UBC_ENST00000536769.1_Silent_p.S141S|MIR5188_ENST00000583467.1_RNA|UBC_ENST00000546120.1_Intron|UBC_ENST00000339647.5_Silent_p.S141S|UBC_ENST00000536661.1_5'Flank			P0CG48	UBC_HUMAN	ubiquitin C	521	Ubiquitin-like 2. {ECO:0000255|PROSITE- ProRule:PRU00214}.				activation of MAPK activity (GO:0000187)|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|carbohydrate metabolic process (GO:0005975)|cellular response to hypoxia (GO:0071456)|cytokine-mediated signaling pathway (GO:0019221)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA repair (GO:0006281)|endosomal transport (GO:0016197)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|G1/S transition of mitotic cell cycle (GO:0000082)|G2/M transition of mitotic cell cycle (GO:0000086)|gene expression (GO:0010467)|glucose metabolic process (GO:0006006)|glycogen biosynthetic process (GO:0005978)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|innate immune response (GO:0045087)|intracellular transport of virus (GO:0075733)|ion transmembrane transport (GO:0034220)|JNK cascade (GO:0007254)|membrane organization (GO:0061024)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic process (GO:0043066)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|negative regulation of type I interferon production (GO:0032480)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch receptor processing (GO:0007220)|Notch signaling pathway (GO:0007219)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of apoptotic process (GO:0043065)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of type I interferon production (GO:0032481)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of type I interferon production (GO:0032479)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|stress-activated MAPK cascade (GO:0051403)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|transmembrane transport (GO:0055085)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral protein processing (GO:0019082)|virion assembly (GO:0019068)	cytosol (GO:0005829)|endocytic vesicle membrane (GO:0030666)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|plasma membrane (GO:0005886)	poly(A) RNA binding (GO:0044822)|protease binding (GO:0002020)			breast(3)|endometrium(4)|kidney(4)|large_intestine(2)|lung(13)|ovary(3)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	36	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.17e-05)|Epithelial(86;0.000207)|all cancers(50;0.00308)		GGTGCAGGGTAGACTCTTTCT	0.557													-|||	173	0.0345447	0.0439	0.013	5008	,	,		27341	0.002		0.0298	False		,,,				2504	0.0757															0													96	92	93					12																	125397895		2203	4290	6493	SO:0001819	synonymous_variant	7316				CCDS9260.1	12q24.3	2008-09-08			ENSG00000150991	ENSG00000150991			12468	protein-coding gene	gene with protein product	"polyubiquitin-C"	191340				1315303, 11872750	Standard	NM_021009		Approved		uc001ugs.4	P0CG48		ENST00000538617.1:c.423T>C	12.37:g.125397895A>G		Somatic		WXS	Illumina HiSeq	Phase_I	P02248|P02249|P02250|P62988|Q29120|Q6LBL4|Q6LDU5|Q8WYN8|Q91887|Q91888|Q9BWD6|Q9BX98|Q9UEF2|Q9UEG1|Q9UEK8|Q9UPK7	Silent	SNP	ENST00000538617.1	37																																																																																					0.557	UBC-003	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000400179.1	NM_021009		G	125397895	A	G	125397895	2	3	675	1	0	0	0	0	0	0	0	1	16854	407	15	3		3	UBC	12	125397895	Silent	SNP	A	TCGA-KO-8404-01A-11D-2310-10	14237431	125397895	8454000	94	43539										
PABPC3	5042	mdanderson.org	37	chr13	25670877	25670877	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	agtctcgtaaagaacgagaaGctgaacttggagctagggca	13	7	1	3	rs112107735	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr13:25670877G>A	ENST00000281589.3	+	1	578	c.541G>A	c.(541-543)Gct>Act	p.A181T		NM_030979.2	NP_112241.2	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	181					mRNA metabolic process (GO:0016071)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)			breast(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(21)|ovary(4)|pancreas(1)|skin(3)	47		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)		AGAACGAGAAGCTGAACTTGG	0.403													g|||	36	0.0071885	0.0151	0.0043	5008	,	,		22319	0.002		0.003	False		,,,				2504	0.0082															0													101	95	97					13																	25670877		2203	4300	6503	SO:0001583	missense	5042			AF132026	CCDS9311.1	13q12-q13	2013-02-12	2001-11-28		ENSG00000151846	ENSG00000151846		"RNA binding motif (RRM) containing"	8556	protein-coding gene	gene with protein product	"testis PABP"	604680	"poly(A)-binding protein, cytoplasmic 3"	PABPL3		8432538, 10543404	Standard	NM_030979		Approved	PABP3, tPABP	uc001upy.3	Q9H361	OTTHUMG00000016601	ENST00000281589.3:c.541G>A	13.37:g.25670877G>A	ENSP00000281589:p.Ala181Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHV0|Q9H086	Missense_Mutation	SNP	ENST00000281589.3	37	CCDS9311.1	.	.	.	.	.	.	.	.	.	.	G	16.47	3.133453	0.56828	.	.	ENSG00000151846	ENST00000281589	D	0.85629	-2.01	0.828	0.828	0.18841	Nucleotide-binding, alpha-beta plait (1);	0.000000	0.46758	U	0.000272	T	0.80341	0.4605	M	0.69463	2.115	0.43275	D	0.995232	P	0.38335	0.627	B	0.37550	0.253	T	0.76849	-0.2807	10	0.51188	T	0.08	.	7.4633	0.27308	1.0E-4:0.0:0.9999:0.0	.	181	Q9H361	PABP3_HUMAN	T	181	ENSP00000281589:A181T	ENSP00000281589:A181T	A	+	1	0	PABPC3	24568877	1.000000	0.71417	0.873000	0.34254	0.379000	0.30106	4.761000	0.62243	0.748000	0.32831	0.305000	0.20034	GCT		0.403	PABPC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044220.2	NM_030979		A	25670877	G	A	25670877	3	1	675	1	0	0	0	0	1	0	0	0	11372	971	34	2	543	2	PABPC3	13	25670877	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10		25670877	89499001	95	43540										
PABPC3	5042	mdanderson.org	37	chr13	25671786	25671786	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ctaacacatcaacacagacaGtgggtccacgtcctgcagct	8	14	1	1	rs113301206	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr13:25671786G>A	ENST00000281589.3	+	1	1487	c.1450G>A	c.(1450-1452)Gtg>Atg	p.V484M		NM_030979.2	NP_112241.2	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	484					mRNA metabolic process (GO:0016071)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)			breast(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(21)|ovary(4)|pancreas(1)|skin(3)	47		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)		AACACAGACAGTGGGTCCACG	0.537													g|||	617	0.123203	0.1876	0.1081	5008	,	,		22365	0.0655		0.0666	False		,,,				2504	0.1646															0													64	58	60					13																	25671786		2203	4300	6503	SO:0001583	missense	5042			AF132026	CCDS9311.1	13q12-q13	2013-02-12	2001-11-28		ENSG00000151846	ENSG00000151846		"RNA binding motif (RRM) containing"	8556	protein-coding gene	gene with protein product	"testis PABP"	604680	"poly(A)-binding protein, cytoplasmic 3"	PABPL3		8432538, 10543404	Standard	NM_030979		Approved	PABP3, tPABP	uc001upy.3	Q9H361	OTTHUMG00000016601	ENST00000281589.3:c.1450G>A	13.37:g.25671786G>A	ENSP00000281589:p.Val484Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHV0|Q9H086	Missense_Mutation	SNP	ENST00000281589.3	37	CCDS9311.1	.	.	.	.	.	.	.	.	.	.	G	4.651	0.121106	0.08881	.	.	ENSG00000151846	ENST00000281589	T	0.26957	1.7	0.875	-0.771	0.11002	.	0.098881	0.40908	N	0.000987	T	0.04363	0.0120	N	0.00197	-1.87	0.23421	N	0.997711	B	0.02656	0.0	B	0.09377	0.004	T	0.38243	-0.9670	10	0.30854	T	0.27	.	4.3022	0.10930	0.7031:0.0:0.2969:0.0	.	484	Q9H361	PABP3_HUMAN	M	484	ENSP00000281589:V484M	ENSP00000281589:V484M	V	+	1	0	PABPC3	24569786	0.402000	0.25311	0.468000	0.27192	0.114000	0.19823	0.521000	0.22893	-0.307000	0.08804	0.313000	0.20887	GTG		0.537	PABPC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044220.2	NM_030979		A	25671786	G	A	25671786	3	1	675	1	0	0	0	0	1	0	0	0	11372	1029	36	2	1452	2	PABPC3	13	25671786	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	909	25671786	89498092	96	43541										
RB1	5925	broad.mit.edu;hgsc.bcm.edu	37	chr13	49039350	49039359	+	Frame_Shift_Del	DEL	TTGTCACCAA	TTGTCACCAA	-													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ttttgctctagccccctaccTtgtcaccaatacctcacatt							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	TTGTCACCAA	TTGTCACCAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr13:49039350_49039359delTTGTCACCAA	ENST00000267163.4	+	23	2473_2482	c.2335_2344delTTGTCACCAA	c.(2335-2346)ttgtcaccaatafs	p.LSPI779fs		NM_000321.2	NP_000312.2	P06400	RB_HUMAN	retinoblastoma 1	779	Domain C; mediates interaction with E4F1.|Interaction with LIMD1.				androgen receptor signaling pathway (GO:0030521)|cell cycle arrest (GO:0007050)|cell cycle checkpoint (GO:0000075)|cell morphogenesis involved in neuron differentiation (GO:0048667)|chromatin remodeling (GO:0006338)|digestive tract development (GO:0048565)|enucleate erythrocyte differentiation (GO:0043353)|G1/S transition of mitotic cell cycle (GO:0000082)|glial cell apoptotic process (GO:0034349)|hepatocyte apoptotic process (GO:0097284)|maintenance of mitotic sister chromatid cohesion (GO:0034088)|mitotic cell cycle (GO:0000278)|mitotic cell cycle checkpoint (GO:0007093)|myoblast differentiation (GO:0045445)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription from RNA polymerase II promoter during mitosis (GO:0007070)|negative regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0071930)|negative regulation of transcription, DNA-templated (GO:0045892)|neuron apoptotic process (GO:0051402)|neuron maturation (GO:0042551)|neuron projection development (GO:0031175)|positive regulation of macrophage differentiation (GO:0045651)|positive regulation of mitotic metaphase/anaphase transition (GO:0045842)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein localization to chromosome, centromeric region (GO:0071459)|Ras protein signal transduction (GO:0007265)|regulation of centromere complex assembly (GO:0090230)|regulation of cohesin localization to chromatin (GO:0071922)|regulation of lipid kinase activity (GO:0043550)|regulation of mitotic cell cycle (GO:0007346)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)|sister chromatid biorientation (GO:0031134)|skeletal muscle cell differentiation (GO:0035914)|striated muscle cell differentiation (GO:0051146)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	chromatin (GO:0000785)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|Rb-E2F complex (GO:0035189)|spindle (GO:0005819)|SWI/SNF complex (GO:0016514)	androgen receptor binding (GO:0050681)|core promoter binding (GO:0001047)|DNA binding (GO:0003677)|identical protein binding (GO:0042802)|kinase binding (GO:0019900)|phosphoprotein binding (GO:0051219)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|ubiquitin protein ligase binding (GO:0031625)	p.0?(15)|p.?(11)		NS(3)|adrenal_gland(1)|bone(22)|breast(30)|central_nervous_system(48)|cervix(3)|endometrium(14)|eye(95)|gastrointestinal_tract_(site_indeterminate)(1)|haematopoietic_and_lymphoid_tissue(20)|kidney(3)|large_intestine(10)|liver(3)|lung(153)|oesophagus(1)|ovary(13)|pancreas(5)|pituitary(1)|prostate(14)|salivary_gland(2)|skin(9)|soft_tissue(9)|stomach(4)|upper_aerodigestive_tract(1)|urinary_tract(31)	496		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(DB00071)|Insulin Regular(DB00030)"	GCCCCCTACCTTGTCACCAATACCTCACAT	0.381		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)																												yes	Rec	yes	Familial retinoblastoma	13	13q14	5925	retinoblastoma gene		"L, E, M, O"	26	Whole gene deletion(15)|Unknown(11)	bone(11)|haematopoietic_and_lymphoid_tissue(4)|breast(4)|adrenal_gland(1)|eye(1)|soft_tissue(1)|endometrium(1)|urinary_tract(1)|lung(1)|liver(1)																																								SO:0001589	frameshift_variant	5925	Familial Cancer Database		M15400	CCDS31973.1	13q14.2	2014-09-17	2008-07-31		ENSG00000139687	ENSG00000139687		"Endogenous ligands"	9884	protein-coding gene	gene with protein product	"prepro-retinoblastoma-associated protein", "protein phosphatase 1, regulatory subunit 130"	614041	"osteosarcoma"	OSRC		1857421, 15057823	Standard	NM_000321		Approved	RB, PPP1R130	uc001vcb.3	P06400	OTTHUMG00000016900	ENST00000267163.4:c.2335_2344delTTGTCACCAA	13.37:g.49039350_49039359delTTGTCACCAA	ENSP00000267163:p.Leu779fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5E3|P78499|Q5VW46|Q8IZL4	Frame_Shift_Del	DEL	ENST00000267163.4	37	CCDS31973.1																																																																																				0.381	RB1-002	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000044884.1			-	49039359	TTGTCACCAA	-	49039350	7	5	675	1	0	1	0	1	0	0	0	0	13111	1606	56	0	2425	0	RB1	13	49039350	Frame_Shift_Del	DEL	TTGTCACCAA	TCGA-KO-8404-01A-11D-2310-10	23367564	49039350	66130528	97	43542	437	2								
RB1	5925	bcgsc.ca	37	chr13	49039351	49039360	+	Frame_Shift_Del	DEL	TTGTCACCAA	TTGTCACCAA	-													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tttgctctagccccctacctTgtcaccaatacctcacattc							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	TTGTCACCAA	TTGTCACCAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr13:49039351_49039360delTTGTCACCAA	ENST00000267163.4	+	23	2474_2483	c.2336_2345delTTGTCACCAA	c.(2335-2346)tttgtcaccaaafs	p.FVTK779fs		NM_000321.2	NP_000312.2	P06400	RB_HUMAN	retinoblastoma 1	779	Domain C; mediates interaction with E4F1.|Interaction with LIMD1.				androgen receptor signaling pathway (GO:0030521)|cell cycle arrest (GO:0007050)|cell cycle checkpoint (GO:0000075)|cell morphogenesis involved in neuron differentiation (GO:0048667)|chromatin remodeling (GO:0006338)|digestive tract development (GO:0048565)|enucleate erythrocyte differentiation (GO:0043353)|G1/S transition of mitotic cell cycle (GO:0000082)|glial cell apoptotic process (GO:0034349)|hepatocyte apoptotic process (GO:0097284)|maintenance of mitotic sister chromatid cohesion (GO:0034088)|mitotic cell cycle (GO:0000278)|mitotic cell cycle checkpoint (GO:0007093)|myoblast differentiation (GO:0045445)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription from RNA polymerase II promoter during mitosis (GO:0007070)|negative regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0071930)|negative regulation of transcription, DNA-templated (GO:0045892)|neuron apoptotic process (GO:0051402)|neuron maturation (GO:0042551)|neuron projection development (GO:0031175)|positive regulation of macrophage differentiation (GO:0045651)|positive regulation of mitotic metaphase/anaphase transition (GO:0045842)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein localization to chromosome, centromeric region (GO:0071459)|Ras protein signal transduction (GO:0007265)|regulation of centromere complex assembly (GO:0090230)|regulation of cohesin localization to chromatin (GO:0071922)|regulation of lipid kinase activity (GO:0043550)|regulation of mitotic cell cycle (GO:0007346)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)|sister chromatid biorientation (GO:0031134)|skeletal muscle cell differentiation (GO:0035914)|striated muscle cell differentiation (GO:0051146)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	chromatin (GO:0000785)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|Rb-E2F complex (GO:0035189)|spindle (GO:0005819)|SWI/SNF complex (GO:0016514)	androgen receptor binding (GO:0050681)|core promoter binding (GO:0001047)|DNA binding (GO:0003677)|identical protein binding (GO:0042802)|kinase binding (GO:0019900)|phosphoprotein binding (GO:0051219)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|ubiquitin protein ligase binding (GO:0031625)	p.0?(15)|p.?(11)		NS(3)|adrenal_gland(1)|bone(22)|breast(30)|central_nervous_system(48)|cervix(3)|endometrium(14)|eye(95)|gastrointestinal_tract_(site_indeterminate)(1)|haematopoietic_and_lymphoid_tissue(20)|kidney(3)|large_intestine(10)|liver(3)|lung(153)|oesophagus(1)|ovary(13)|pancreas(5)|pituitary(1)|prostate(14)|salivary_gland(2)|skin(9)|soft_tissue(9)|stomach(4)|upper_aerodigestive_tract(1)|urinary_tract(31)	496		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(DB00071)|Insulin Regular(DB00030)"	CCCCCTACCTTGTCACCAATACCTCACATT	0.381		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)																												yes	Rec	yes	Familial retinoblastoma	13	13q14	5925	retinoblastoma gene		"L, E, M, O"	26	Whole gene deletion(15)|Unknown(11)	bone(11)|haematopoietic_and_lymphoid_tissue(4)|breast(4)|adrenal_gland(1)|eye(1)|soft_tissue(1)|endometrium(1)|urinary_tract(1)|lung(1)|liver(1)																																								SO:0001589	frameshift_variant	5925	Familial Cancer Database		M15400	CCDS31973.1	13q14.2	2014-09-17	2008-07-31		ENSG00000139687	ENSG00000139687		"Endogenous ligands"	9884	protein-coding gene	gene with protein product	"prepro-retinoblastoma-associated protein", "protein phosphatase 1, regulatory subunit 130"	614041	"osteosarcoma"	OSRC		1857421, 15057823	Standard	NM_000321		Approved	RB, PPP1R130	uc001vcb.3	P06400	OTTHUMG00000016900	ENST00000267163.4:c.2336_2345delTTGTCACCAA	13.37:g.49039351_49039360delTTGTCACCAA	ENSP00000267163:p.Phe779fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5E3|P78499|Q5VW46|Q8IZL4	Frame_Shift_Del	DEL	ENST00000267163.4	37	CCDS31973.1																																																																																				0.381	RB1-002	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000044884.1			-	49039360	TTGTCACCAA	-	49039351	7	5	675	1	0	1	0	1	0	0	0	0	13111	1821	63	0	2426	0	RB1	13	49039351	Frame_Shift_Del	DEL	TTGTCACCAA	TCGA-KO-8404-01A-11D-2310-10	1	49039351	66130527	98	43543	437	2								
HOMEZ	57594	mdanderson.org	37	chr14	23744844	23744844	+	Silent	SNP	C	C	T													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tcttcctcctcctcctcctcCtcttcctcatcatcttctgg							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr14:23744844C>T	ENST00000357460.5	-	2	1757	c.1593G>A	c.(1591-1593)gaG>gaA	p.E531E	HOMEZ_ENST00000431326.2_Silent_p.E533E|HOMEZ_ENST00000561013.1_Silent_p.E533E	NM_020834.2	NP_065885.2	Q8IX15	HOMEZ_HUMAN	homeobox and leucine zipper encoding	531	Glu-rich.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)			endometrium(5)|lung(7)	12	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		cctcctcctcctcttcctcat	0.493																																																0													37	36	36					14																	23744844		2196	4286	6482	SO:0001819	synonymous_variant	57594			AB037864	CCDS45085.1	14q11.2	2011-06-20	2007-02-15	2007-02-15		ENSG00000215271		"Homeoboxes / ZF class"	20164	protein-coding gene	gene with protein product		608119	"KIAA1443"	KIAA1443		12925734	Standard	NM_020834		Approved		uc001wja.2	Q8IX15		ENST00000357460.5:c.1593G>A	14.37:g.23744844C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A1L445|B4DZ80|F8WCA3|Q6P049|Q86XB6|Q9P2A5	Silent	SNP	ENST00000357460.5	37	CCDS45085.1																																																																																				0.493	HOMEZ-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000416939.2	NM_020834		T	23744844	C	T	23744844	2	4	675	1	0	0	0	0	0	0	0	1	7288	680	24	2		2	HOMEZ	14	23744844	Silent	SNP	C	TCGA-KO-8404-01A-11D-2310-10		23744844	83604696	99	43544	438	2								
HOMEZ	57594	mdanderson.org	37	chr14	23744847	23744847	+	Silent	SNP	T	T	C													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tcctcctcctcctcctcctcTtcctcatcatcttctggcag							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr14:23744847T>C	ENST00000357460.5	-	2	1754	c.1590A>G	c.(1588-1590)gaA>gaG	p.E530E	HOMEZ_ENST00000431326.2_Silent_p.E532E|HOMEZ_ENST00000561013.1_Silent_p.E532E	NM_020834.2	NP_065885.2	Q8IX15	HOMEZ_HUMAN	homeobox and leucine zipper encoding	530	Glu-rich.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)			endometrium(5)|lung(7)	12	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		cctcctcctcttcctcatcat	0.488																																																0													37	36	36					14																	23744847		2196	4291	6487	SO:0001819	synonymous_variant	57594			AB037864	CCDS45085.1	14q11.2	2011-06-20	2007-02-15	2007-02-15		ENSG00000215271		"Homeoboxes / ZF class"	20164	protein-coding gene	gene with protein product		608119	"KIAA1443"	KIAA1443		12925734	Standard	NM_020834		Approved		uc001wja.2	Q8IX15		ENST00000357460.5:c.1590A>G	14.37:g.23744847T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A1L445|B4DZ80|F8WCA3|Q6P049|Q86XB6|Q9P2A5	Silent	SNP	ENST00000357460.5	37	CCDS45085.1																																																																																				0.488	HOMEZ-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000416939.2	NM_020834		C	23744847	T	C	23744847	2	2	675	1	0	0	0	0	0	0	0	1	7288	1606	56	3		3	HOMEZ	14	23744847	Silent	SNP	T	TCGA-KO-8404-01A-11D-2310-10	3	23744847	83604693	100	43545	438	2								
KLHDC2	23588	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	50244621	50244621	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ggaaagaattgattgccaagGaattcctccatcatcaaagg	9	8	2	2			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr14:50244621G>A	ENST00000298307.5	+	4	1277	c.416G>A	c.(415-417)gGa>gAa	p.G139E	KLHDC2_ENST00000554589.1_Missense_Mutation_p.G139E|KLHDC2_ENST00000553538.1_3'UTR|KLHDC2_ENST00000557247.1_Missense_Mutation_p.G139E	NM_014315.2	NP_055130.1	Q9Y2U9	KLDC2_HUMAN	kelch domain containing 2	139						nucleus (GO:0005634)				endometrium(3)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	16	all_epithelial(31;0.000959)|Breast(41;0.0117)					GATTGCCAAGGAATTCCTCCA	0.388																																																0													128	121	123					14																	50244621		2203	4300	6503	SO:0001583	missense	23588			AK001771	CCDS9693.1	14q21.3	2003-01-15			ENSG00000165516	ENSG00000165516			20231	protein-coding gene	gene with protein product		611280				11384994	Standard	NM_014315		Approved	HCLP-1, LCP	uc001wwx.3	Q9Y2U9	OTTHUMG00000140288	ENST00000298307.5:c.416G>A	14.37:g.50244621G>A	ENSP00000298307:p.Gly139Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPF9|Q6IAF0|Q86TY9	Missense_Mutation	SNP	ENST00000298307.5	37	CCDS9693.1	.	.	.	.	.	.	.	.	.	.	G	32	5.166146	0.94768	.	.	ENSG00000165516	ENST00000298307;ENST00000554589;ENST00000557247	T;T;T	0.68765	-0.35;-0.35;-0.35	5.74	5.74	0.90152	Kelch-type beta propeller (1);	0.000000	0.85682	D	0.000000	D	0.83524	0.5273	M	0.79805	2.47	0.80722	D	1	D;D;D	0.89917	0.999;1.0;1.0	D;D;D	0.97110	0.977;1.0;0.998	D	0.85024	0.0913	10	0.87932	D	0	-18.9077	18.9112	0.92485	0.0:0.0:1.0:0.0	.	139;139;139	G3V2H2;G3V3U8;Q9Y2U9	.;.;KLDC2_HUMAN	E	139	ENSP00000298307:G139E;ENSP00000451439:G139E;ENSP00000450658:G139E	ENSP00000298307:G139E	G	+	2	0	KLHDC2	49314371	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.055000	0.93873	2.717000	0.92951	0.655000	0.94253	GGA		0.388	KLHDC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276869.1			A	50244621	G	A	50244621	3	1	675	1	0	0	0	0	1	0	0	0	8363	1174	41	2	430	2	KLHDC2	14	50244621	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	26499774	50244621	57104919	101	43546										
ADAM21	8747	mdanderson.org	37	chr14	70924613	70924613	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gtgcttgttttgggggctttCgaggagtattaaaaataagt	13	3	0	0	rs138262361	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr14:70924613C>T	ENST00000603540.1	+	2	655	c.397C>T	c.(397-399)Cga>Tga	p.R133*	RP11-486O13.4_ENST00000556646.1_lincRNA|ADAM21_ENST00000267499.3_Nonsense_Mutation_p.R133*	NM_003813.3	NP_003804.2	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21	133					binding of sperm to zona pellucida (GO:0007339)|multicellular organism reproduction (GO:0032504)|single fertilization (GO:0007338)	axon (GO:0030424)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(10)|lung(10)|pancreas(1)|prostate(1)|skin(2)|stomach(1)	31				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		TGGGGGCTTTCGAGGAGTATT	0.448																																																0													74	86	82					14																	70924613		2202	4300	6502	SO:0001587	stop_gained	8747			AF029900	CCDS9804.1	14q24.1	2008-09-05	2005-08-18		ENSG00000139985	ENSG00000139985		"ADAM metallopeptidase domain containing"	200	protein-coding gene	gene with protein product		603713	"a disintegrin and metalloproteinase domain 21"			9469942	Standard	NM_003813		Approved	ADAM31	uc001xmd.3	Q9UKJ8		ENST00000603540.1:c.397C>T	14.37:g.70924613C>T	ENSP00000474385:p.Arg133*	Somatic		WXS	Illumina HiSeq	Phase_I	O43507|Q2VPC6|Q32MR0	Nonsense_Mutation	SNP	ENST00000603540.1	37	CCDS9804.1	.	.	.	.	.	.	.	.	.	.	C	9.227	1.034843	0.19590	.	.	ENSG00000139985	ENST00000267499	.	.	.	3.76	3.76	0.43208	.	0.682149	0.11938	U	0.515009	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.07813	T	0.8	.	12.162	0.54109	0.1717:0.8283:0.0:0.0	.	.	.	.	X	133	.	ENSP00000267499:R133X	R	+	1	2	ADAM21	69994366	0.003000	0.15002	0.322000	0.25334	0.071000	0.16799	1.122000	0.31295	2.090000	0.63153	0.557000	0.71058	CGA		0.448	ADAM21-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413008.3			T	70924613	C	T	70924613	4	4	675	1	0	0	0	0	0	1	0	0	243	876	31	1	399	1	ADAM21	14	70924613	Nonsense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	20679992	70924613	36424927	102	43547										
AHNAK2	113146	mdanderson.org	37	chr14	105416323	105416323	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tgaacttgggcattttgaacTtgctgtctttggcagtcaca	10	8	2	2	rs11847209	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr14:105416323T>C	ENST00000333244.5	-	7	5584	c.5465A>G	c.(5464-5466)aAg>aGg	p.K1822R	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1822						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			CATTTTGAACTTGCTGTCTTT	0.617																																																0													178	215	203					14																	105416323		1930	4091	6021	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.5465A>G	14.37:g.105416323T>C	ENSP00000353114:p.Lys1822Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	33	0.01510989010989011	10	0.02032520325203252	6	0.016574585635359115	9	0.015734265734265736	8	0.010554089709762533	t	20.2	3.943625	0.73672	.	.	ENSG00000185567	ENST00000333244	T	0.00882	5.58	4.52	4.52	0.55395	.	.	.	.	.	T	0.02533	0.0077	H	0.94808	3.585	0.24253	N	0.995314	D	0.56521	0.976	P	0.56398	0.797	T	0.18745	-1.0327	9	0.44086	T	0.13	-26.778	9.1058	0.36696	0.0:0.0891:0.0:0.9109	rs11847209	1822	Q8IVF2	AHNK2_HUMAN	R	1822	ENSP00000353114:K1822R	ENSP00000353114:K1822R	K	-	2	0	AHNAK2	104487368	0.990000	0.36364	1.000000	0.80357	0.760000	0.43138	3.218000	0.51192	1.695000	0.51148	0.374000	0.22700	AAG		0.617	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		C	105416323	T	C	105416323	3	2	675	1	0	0	0	0	1	0	0	0	415	1609	56	3	11926	3	AHNAK2	14	105416323	Missense_Mutation	SNP	T	TCGA-KO-8404-01A-11D-2310-10	34491710	105416323	1933217	103	43548										
CHRFAM7A	89832	broad.mit.edu	37	chr15	30659650	30659651	+	Frame_Shift_Ins	INS	-	-	G													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	atcttgcccccgtcggggtcINSgtggtggtggtactgcagca					rs371263130|rs368423557		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr15:30659650_30659651insG	ENST00000299847.2	-	9	1143_1144	c.690_691insC	c.(688-693)cacgacfs	p.D231fs	CHRFAM7A_ENST00000397827.3_Frame_Shift_Ins_p.D140fs|CHRFAM7A_ENST00000401522.3_Frame_Shift_Ins_p.D140fs	NM_139320.1	NP_647536.1	Q494W8	CRFM7_HUMAN	CHRNA7 (cholinergic receptor, nicotinic, alpha 7, exons 5-10) and FAM7A (family with sequence similarity 7A, exons A-E) fusion	231						integral component of membrane (GO:0016021)	extracellular ligand-gated ion channel activity (GO:0005230)			large_intestine(3)|lung(1)|skin(2)	6		all_lung(180;3.42e-11)|Breast(32;0.000153)		all cancers(64;1.9e-15)|Epithelial(43;3.59e-12)|GBM - Glioblastoma multiforme(186;9e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)|Lung(196;0.153)		CCGTCGGGGTCGTGGTGGTGGT	0.599																																																0																																										SO:0001589	frameshift_variant	89832			AF029838	CCDS32184.1, CCDS42008.1	15q13.2	2013-04-24	2006-02-01		ENSG00000166664	ENSG00000166664			15781	protein-coding gene	gene with protein product		609756				11829490	Standard	NM_139320		Approved	D-10, CHRNA7-DR1	uc001zdt.1	Q494W8	OTTHUMG00000175645	ENST00000299847.2:c.691dupC	15.37:g.30659651_30659651dupG	ENSP00000299847:p.Asp231fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAB9	Frame_Shift_Ins	INS	ENST00000299847.2	37	CCDS32184.1																																																																																				0.599	CHRFAM7A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000430700.1	NM_148911		G	30659651	-	G	30659650	7	5	675	1	0	1	1	0	0	0	0	0	3377	884	31	0	555	0	CHRFAM7A	15	30659650	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10		30659650	71871742	104	43549										
ITGA11	22801	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr15	68624721	68624721	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ttgcctcgctcacggccctcGttgaagtacatgggtgcgcc	12	14	1	1	rs373616131		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr15:68624721G>A	ENST00000315757.7	-	13	1607	c.1521C>T	c.(1519-1521)aaC>aaT	p.N507N	ITGA11_ENST00000423218.2_Silent_p.N507N	NM_001004439.1	NP_001004439.1	Q9UKX5	ITA11_HUMAN	integrin, alpha 11	507					cell adhesion (GO:0007155)|cell adhesion mediated by integrin (GO:0033627)|cell-matrix adhesion (GO:0007160)|collagen-activated signaling pathway (GO:0038065)|extracellular matrix organization (GO:0030198)|integrin-mediated signaling pathway (GO:0007229)|muscle organ development (GO:0007517)|osteoblast differentiation (GO:0001649)|substrate-dependent cell migration (GO:0006929)	focal adhesion (GO:0005925)|integrin alpha11-beta1 complex (GO:0034681)|integrin complex (GO:0008305)|membrane (GO:0016020)|plasma membrane (GO:0005886)	collagen binding (GO:0005518)|collagen binding involved in cell-matrix adhesion (GO:0098639)|collagen receptor activity (GO:0038064)|metal ion binding (GO:0046872)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(7)|kidney(6)|large_intestine(6)|lung(22)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	52						CACGGCCCTCGTTGAAGTACA	0.597																																																0								G		0,4252		0,0,2126	38	40	39		1521	1	1	15		39	1,8453		0,1,4226	no	coding-synonymous	ITGA11	NM_001004439.1		0,1,6352	AA,AG,GG		0.0118,0.0,0.0079		507/1189	68624721	1,12705	2126	4227	6353	SO:0001819	synonymous_variant	22801			AF109681	CCDS45291.1	15q22.3-q23	2010-03-23				ENSG00000137809		"Integrins"	6136	protein-coding gene	gene with protein product		604789				10486209	Standard	NM_001004439		Approved	HsT18964	uc002ari.3	Q9UKX5		ENST00000315757.7:c.1521C>T	15.37:g.68624721G>A		Somatic		WXS	Illumina HiSeq	Phase_I	J3KQM2|Q8WYI8|Q9UKQ1	Silent	SNP	ENST00000315757.7	37	CCDS45291.1																																																																																				0.597	ITGA11-201	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding		NM_012211		A	68624721	G	A	68624721	2	1	675	1	0	0	0	0	0	0	0	1	7881	1136	40	1		1	ITGA11	15	68624721	Silent	SNP	G	TCGA-KO-8404-01A-11D-2310-10	37965071	68624721	33906671	105	43550										
CACNA1H	8912	ucsc.edu	37	chr16	1250559	1250559	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aacatcggctacgcctggatTgccatcttccaggtgggcgg	13	12	1	0	rs8044363	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr16:1250559T>C	ENST00000348261.5	+	7	1355	c.1107T>C	c.(1105-1107)atT>atC	p.I369I	CACNA1H_ENST00000565831.1_Silent_p.I369I|CACNA1H_ENST00000358590.4_Silent_p.I369I	NM_021098.2	NP_066921.2	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type, alpha 1H subunit	369					aldosterone biosynthetic process (GO:0032342)|axon guidance (GO:0007411)|calcium ion import (GO:0070509)|cellular response to hormone stimulus (GO:0032870)|cellular response to potassium ion (GO:0035865)|cortisol biosynthetic process (GO:0034651)|membrane depolarization during action potential (GO:0086010)|muscle contraction (GO:0006936)|muscle organ development (GO:0007517)|myoblast fusion (GO:0007520)|positive regulation of acrosome reaction (GO:2000344)|regulation of heart contraction (GO:0008016)|regulation of membrane potential (GO:0042391)|transport (GO:0006810)	caveola (GO:0005901)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|voltage-gated calcium channel complex (GO:0005891)	low voltage-gated calcium channel activity (GO:0008332)|metal ion binding (GO:0046872)|scaffold protein binding (GO:0097110)			breast(4)|endometrium(5)|kidney(2)|lung(23)	34		Hepatocellular(780;0.00369)			Amiodarone(DB01118)|Bepridil(DB01244)|Cinnarizine(DB00568)|Felodipine(DB01023)|Flunarizine(DB04841)|Isradipine(DB00270)|Nifedipine(DB01115)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Zonisamide(DB00909)	ACGCCTGGATTGCCATCTTCC	0.657													t|||	1666	0.332668	0.4902	0.3026	5008	,	,		14574	0.1022		0.4095	False		,,,				2504	0.2996															0			GRCh37	CM071580	CACNA1H	M	rs8044363	C	,	1908,2232		449,1010,611	47	51	49		1107,1107	-6.3	0.9	16	dbSNP_116	49	3581,4807		808,1965,1421	no	coding-synonymous,coding-synonymous	CACNA1H	NM_001005407.1,NM_021098.2	,	1257,2975,2032	CC,CT,TT		42.6919,46.087,43.8139	,	369/2348,369/2354	1250559	5489,7039	2070	4194	6264	SO:0001819	synonymous_variant	8912			AL031703	CCDS45375.1, CCDS45376.1	16p13.3	2012-03-07	2007-02-16					"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1395	protein-coding gene	gene with protein product		607904				9670923, 16382099	Standard	NM_021098		Approved	Cav3.2	uc002cks.3	O95180		ENST00000348261.5:c.1107T>C	16.37:g.1250559T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B5ME00|F8WFD1|O95802|Q8WWI6|Q96QI6|Q96RZ9|Q9NYY4|Q9NYY5	Silent	SNP	ENST00000348261.5	37	CCDS45375.1																																																																																				0.657	CACNA1H-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000421601.1	NM_001005407		C	1250559	T	C	1250559	2	2	675	1	0	0	0	0	0	0	0	1	2547	1800	63	3		3	CACNA1H	16	1250559	Silent	SNP	T	TCGA-KO-8404-01A-11D-2310-10		1250559	89104194	106	43551										
C16orf59	80178	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr16	2512477	2512477	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ggcggaggcggggcgcctgcGgaaggcctgctcgctgctga	20	12	0	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr16:2512477G>A	ENST00000361837.4	+	7	877	c.812G>A	c.(811-813)cGg>cAg	p.R271Q	C16orf59_ENST00000569496.1_Missense_Mutation_p.R271Q|C16orf59_ENST00000563531.1_Missense_Mutation_p.R271Q|RP11-715J22.4_ENST00000566085.1_lincRNA|RP11-715J22.2_ENST00000563775.1_RNA|C16orf59_ENST00000483320.1_Missense_Mutation_p.R104Q	NM_025108.2	NP_079384.2	Q7L2K0	CP059_HUMAN	chromosome 16 open reading frame 59	271										lung(1)|skin(1)|urinary_tract(1)	3		Ovarian(90;0.17)				GGGCGCCTGCGGAAGGCCTGC	0.662																																																0													20	25	23					16																	2512477		2069	4199	6268	SO:0001583	missense	80178			AK023971	CCDS10468.2	16p13.3	2008-10-30			ENSG00000162062	ENSG00000162062			25849	protein-coding gene	gene with protein product						12477932	Standard	XM_006720955		Approved	FLJ13909	uc002cqh.3	Q7L2K0	OTTHUMG00000128859	ENST00000361837.4:c.812G>A	16.37:g.2512477G>A	ENSP00000355022:p.Arg271Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DXD7|Q96H61|Q9H872	Missense_Mutation	SNP	ENST00000361837.4	37	CCDS10468.2	.	.	.	.	.	.	.	.	.	.	G	8.289	0.817204	0.16607	.	.	ENSG00000162062	ENST00000361837	T	0.39592	1.07	4.52	-7.58	0.01313	.	1.914720	0.02825	N	0.126017	T	0.21347	0.0514	N	0.04508	-0.205	0.09310	N	1	B;B;B;B	0.20887	0.049;0.002;0.002;0.002	B;B;B;B	0.09377	0.004;0.001;0.001;0.001	T	0.13255	-1.0516	10	0.25751	T	0.34	-0.2455	14.8491	0.70284	0.7674:0.0:0.2326:0.0	.	104;271;104;104	Q7L2K0-3;Q7L2K0;D3DU95;Q7L2K0-2	.;CP059_HUMAN;.;.	Q	271	ENSP00000355022:R271Q	ENSP00000355022:R271Q	R	+	2	0	C16orf59	2452478	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.265000	0.08644	-1.645000	0.01515	-0.302000	0.09304	CGG		0.662	C16orf59-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250802.3	NM_025108		A	2512477	G	A	2512477	3	1	675	1	0	0	0	0	1	0	0	0	1825	1116	39	1	838	1	C16orf59	16	2512477	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	1261918	2512477	87842276	107	43552										
ADCY9	115	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr16	4029168	4029168	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tgggagtagacggccagtgcGggaagcgacaccaggatggc	18	9	0	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr16:4029168G>A	ENST00000294016.3	-	8	3166	c.2628C>T	c.(2626-2628)ccC>ccT	p.P876P		NM_001116.3	NP_001107.2	O60503	ADCY9_HUMAN	adenylate cyclase 9	876					activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|neurotrophin TRK receptor signaling pathway (GO:0048011)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	axon (GO:0030424)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	adenylate cyclase activity (GO:0004016)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)			breast(4)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(3)|large_intestine(11)|lung(9)|ovary(5)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	47						CGGCCAGTGCGGGAAGCGACA	0.582																																																0													128	121	124					16																	4029168		2197	4300	6497	SO:0001819	synonymous_variant	115			AF036927	CCDS32382.1	16p13.3	2013-02-04				ENSG00000162104	4.6.1.1	"Adenylate cyclases"	240	protein-coding gene	gene with protein product		603302				9628827	Standard	NM_001116		Approved	AC9	uc002cvx.3	O60503		ENST00000294016.3:c.2628C>T	16.37:g.4029168G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A7E2V5|A7E2X2|D3DUD1|O60273|Q4ZHT9|Q4ZIR5|Q9BWT4|Q9UGP2	Silent	SNP	ENST00000294016.3	37	CCDS32382.1																																																																																				0.582	ADCY9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438076.1			A	4029168	G	A	4029168	2	1	675	1	0	0	0	0	0	0	0	1	301	1103	39	1		1	ADCY9	16	4029168	Silent	SNP	G	TCGA-KO-8404-01A-11D-2310-10	1516691	4029168	86325585	108	43553										
ACSM2A	123876	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr16	20497990	20497990	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gaagatgtccggaaaagcccGtgcgcagtgagacatctaag	13	9	1	2			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr16:20497990G>A	ENST00000573854.1	+	14	1838	c.1724G>A	c.(1723-1725)cGt>cAt	p.R575H	ACSM2A_ENST00000396104.2_Missense_Mutation_p.R575H|AC137056.1_ENST00000593357.1_5'Flank|ACSM2A_ENST00000536134.1_Missense_Mutation_p.R347H|ACSM2A_ENST00000417235.2_Missense_Mutation_p.R496H|ACSM2A_ENST00000219054.6_Missense_Mutation_p.R575H|ACSM2A_ENST00000575690.1_Missense_Mutation_p.R575H	NM_001010845.2	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member 2A	575					fatty acid metabolic process (GO:0006631)|glucose homeostasis (GO:0042593)|medium-chain fatty-acyl-CoA metabolic process (GO:0036112)|triglyceride homeostasis (GO:0070328)	mitochondrion (GO:0005739)	ATP binding (GO:0005524)|butyrate-CoA ligase activity (GO:0047760)|metal ion binding (GO:0046872)			breast(2)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(3)|lung(34)|ovary(1)|skin(6)|stomach(1)	51						GGAAAAGCCCGTGCGCAGTGA	0.463																																																0													187	176	180					16																	20497990		2203	4300	6503	SO:0001583	missense	123876			AK091878, AK096039	CCDS32401.1	16p12.3	2014-08-08	2007-06-20	2007-06-20	ENSG00000183747	ENSG00000183747		"Acyl-CoA synthetase family"	32017	protein-coding gene	gene with protein product		614358	"acyl-CoA synthetase medium-chain family member 2"	ACSM2			Standard	NM_001010845		Approved	A-923A4.1, MGC150530	uc010bwe.3	Q08AH3	OTTHUMG00000177401	ENST00000573854.1:c.1724G>A	16.37:g.20497990G>A	ENSP00000459451:p.Arg575His	Somatic		WXS	Illumina HiSeq	Phase_I	B3KTT9|O75202	Missense_Mutation	SNP	ENST00000573854.1	37	CCDS32401.1	.	.	.	.	.	.	.	.	.	.	G	9.595	1.127180	0.20959	.	.	ENSG00000183747	ENST00000417235;ENST00000219054;ENST00000536134;ENST00000396104	T;T;T;T	0.48836	0.8;0.82;1.34;0.82	2.88	-4.8	0.03190	.	.	.	.	.	T	0.25382	0.0617	N	0.08118	0	0.09310	N	1	B	0.13145	0.007	B	0.06405	0.002	T	0.16276	-1.0408	9	0.49607	T	0.09	-0.2477	12.1986	0.54311	0.8314:0.0:0.1686:0.0	.	575	Q08AH3	ACS2A_HUMAN	H	496;575;347;575	ENSP00000392169:R496H;ENSP00000219054:R575H;ENSP00000445082:R347H;ENSP00000379411:R575H	ENSP00000219054:R575H	R	+	2	0	ACSM2A	20405491	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-1.368000	0.02580	-1.196000	0.02676	-0.667000	0.03836	CGT		0.463	ACSM2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000436764.1	NM_001010845		A	20497990	G	A	20497990	3	1	675	1	0	0	0	0	1	0	0	0	183	1145	40	1	1774	1	ACSM2A	16	20497990	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	16468822	20497990	69856763	109	43554										
CYLD	1540	broad.mit.edu;mdanderson.org	37	chr16	50825539	50825539	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aaaaaaatgagaaagttggcGttcccacaattcagcagttg	9	7	1	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr16:50825539G>A	ENST00000427738.3	+	14	2384	c.2179G>A	c.(2179-2181)Gtt>Att	p.V727I	CYLD_ENST00000569418.1_Missense_Mutation_p.V724I|CYLD_ENST00000564326.1_Missense_Mutation_p.V724I|CYLD_ENST00000540145.1_Missense_Mutation_p.V727I|RP11-327F22.4_ENST00000575917.1_RNA|RP11-327F22.4_ENST00000564510.1_RNA|CYLD_ENST00000566206.1_Missense_Mutation_p.V724I|CYLD_ENST00000311559.9_Missense_Mutation_p.V727I|CYLD_ENST00000398568.2_Missense_Mutation_p.V724I|CYLD_ENST00000568704.2_Missense_Mutation_p.V542I			Q9NQC7	CYLD_HUMAN	cylindromatosis (turban tumor syndrome)	727	USP.				cell cycle (GO:0007049)|innate immune response (GO:0045087)|necroptotic process (GO:0070266)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of NF-kappaB import into nucleus (GO:0042347)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of type I interferon production (GO:0032480)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|protein K63-linked deubiquitination (GO:0070536)|regulation of intrinsic apoptotic signaling pathway (GO:2001242)|regulation of microtubule cytoskeleton organization (GO:0070507)|regulation of mitotic cell cycle (GO:0007346)|ubiquitin-dependent protein catabolic process (GO:0006511)|Wnt signaling pathway (GO:0016055)	centrosome (GO:0005813)|cytosol (GO:0005829)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)|microtubule (GO:0005874)|nucleus (GO:0005634)	Lys63-specific deubiquitinase activity (GO:0061578)|proline-rich region binding (GO:0070064)|protein kinase binding (GO:0019901)|ubiquitin-specific protease activity (GO:0004843)|zinc ion binding (GO:0008270)			central_nervous_system(4)|endometrium(1)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(9)|lung(17)|pancreas(1)|skin(22)|upper_aerodigestive_tract(1)	62		all_cancers(37;0.0156)				GAAAGTTGGCGTTCCCACAAT	0.343			"Mis, N, F, S"		cylindroma	cylindroma			Multiple Trichoepithelioma, Familial;Familial Cylindromatosis																													yes	Rec	yes	Familial cylindromatosis	16	16q12-q13	1540	familial cylindromatosis gene		E	0													100	95	97					16																	50825539		1821	4072	5893	SO:0001583	missense	1540	Familial Cancer Database	;FADC, Turban Tumor syndrome, Epithelioma Adenoides Cysticum of Brooke, Hereditary Multiple Benign Cystic Epithelioma, Dermal Eccrine Cylindromatosis, Brooke-Spiegler s.	AB020656	CCDS42164.1, CCDS45482.1	16q12-q13	2014-09-17							2584	protein-coding gene	gene with protein product	"ubiquitin specific peptidase like 2"	605018		CYLD1		7493027	Standard	NM_015247		Approved	KIAA0849, USPL2	uc002egq.1	Q9NQC7		ENST00000427738.3:c.2179G>A	16.37:g.50825539G>A	ENSP00000392025:p.Val727Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O94934|Q7L3N6|Q96EH0|Q9NZX9	Missense_Mutation	SNP	ENST00000427738.3	37	CCDS45482.1	.	.	.	.	.	.	.	.	.	.	G	17.42	3.384758	0.61956	.	.	ENSG00000083799	ENST00000540145;ENST00000311559;ENST00000427738;ENST00000398568	T;T;T	0.73152	-0.72;-0.72;-0.72	5.43	5.43	0.79202	.	0.000000	0.85682	D	0.000000	T	0.65069	0.2656	L	0.59436	1.845	0.80722	D	1	B;B	0.28470	0.213;0.178	B;B	0.23018	0.043;0.017	T	0.63242	-0.6681	10	0.38643	T	0.18	-24.6854	12.6285	0.56644	0.0756:0.0:0.9244:0.0	.	724;724	A8KAB0;Q9NQC7-2	.;.	I	727;727;724;724	ENSP00000445447:V727I;ENSP00000308928:V727I;ENSP00000381574:V724I	ENSP00000308928:V727I	V	+	1	0	CYLD	49383040	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.476000	0.97823	2.562000	0.86427	0.650000	0.86243	GTT		0.343	CYLD-010	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000422998.2			A	50825539	G	A	50825539	3	1	675	1	0	0	0	0	1	0	0	0	4145	1145	40	1	2229	1	CYLD	16	50825539	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	30327549	50825539	39529214	110	43555										
MLYCD	23417	broad.mit.edu;hgsc.bcm.edu	37	chr16	83941751	83941752	+	Frame_Shift_Ins	INS	-	-	A													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gctgaggctgtgcatcctgtINSaaaaaactggatggacatga							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr16:83941751_83941752insA	ENST00000262430.4	+	3	681_682	c.662_663insA	c.(661-666)gtaaaafs	p.VK221fs	RP11-505K9.4_ENST00000566309.1_5'Flank|RP11-505K9.4_ENST00000561562.1_3'UTR	NM_012213.2	NP_036345.2	O95822	DCMC_HUMAN	malonyl-CoA decarboxylase	221	Catalytic domain.				acetyl-CoA biosynthetic process (GO:0006085)|cellular lipid metabolic process (GO:0044255)|fatty acid biosynthetic process (GO:0006633)|malonyl-CoA catabolic process (GO:2001294)|positive regulation of fatty acid oxidation (GO:0046321)|regulation of glucose metabolic process (GO:0010906)|response to ischemia (GO:0002931)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|peroxisomal matrix (GO:0005782)|peroxisome (GO:0005777)	malonyl-CoA decarboxylase activity (GO:0050080)|receptor binding (GO:0005102)			NS(1)|biliary_tract(1)|breast(1)|kidney(2)|large_intestine(1)|lung(5)|upper_aerodigestive_tract(1)	12						GTGCATCCTGTAAAAAACTGGA	0.5																																																0																																										SO:0001589	frameshift_variant	23417			AF153679	CCDS42206.1	16q24	2009-02-04				ENSG00000103150			7150	protein-coding gene	gene with protein product		606761				10455107, 9869665	Standard	NM_012213		Approved	MCD, hMCD	uc002fgz.3	O95822		ENST00000262430.4:c.668dupA	16.37:g.83941757_83941757dupA	ENSP00000262430:p.Val221fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UNU5|Q9Y3F2	Frame_Shift_Ins	INS	ENST00000262430.4	37	CCDS42206.1																																																																																				0.5	MLYCD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000433009.1	NM_012213		A	83941752	-	A	83941751	7	5	675	1	0	1	1	0	0	0	0	0	9645	1638	57	0	672	0	MLYCD	16	83941751	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	33116212	83941751	6413002	111	43556	439	2								
MLYCD	23417	bcgsc.ca	37	chr16	83941752	83941753	+	Frame_Shift_Ins	INS	-	-	A													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ctgaggctgtgcatcctgtaINSaaaaactggatggacatgaa							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr16:83941752_83941753insA	ENST00000262430.4	+	3	682_683	c.663_664insA	c.(664-666)aaafs	p.K222fs	RP11-505K9.4_ENST00000566309.1_5'Flank|RP11-505K9.4_ENST00000561562.1_3'UTR	NM_012213.2	NP_036345.2	O95822	DCMC_HUMAN	malonyl-CoA decarboxylase	222	Catalytic domain.				acetyl-CoA biosynthetic process (GO:0006085)|cellular lipid metabolic process (GO:0044255)|fatty acid biosynthetic process (GO:0006633)|malonyl-CoA catabolic process (GO:2001294)|positive regulation of fatty acid oxidation (GO:0046321)|regulation of glucose metabolic process (GO:0010906)|response to ischemia (GO:0002931)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|peroxisomal matrix (GO:0005782)|peroxisome (GO:0005777)	malonyl-CoA decarboxylase activity (GO:0050080)|receptor binding (GO:0005102)			NS(1)|biliary_tract(1)|breast(1)|kidney(2)|large_intestine(1)|lung(5)|upper_aerodigestive_tract(1)	12						TGCATCCTGTAAAAAACTGGAT	0.5																																																0																																										SO:0001589	frameshift_variant	23417			AF153679	CCDS42206.1	16q24	2009-02-04				ENSG00000103150			7150	protein-coding gene	gene with protein product		606761				10455107, 9869665	Standard	NM_012213		Approved	MCD, hMCD	uc002fgz.3	O95822		ENST00000262430.4:c.668dupA	16.37:g.83941757_83941757dupA	ENSP00000262430:p.Lys222fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UNU5|Q9Y3F2	Frame_Shift_Ins	INS	ENST00000262430.4	37	CCDS42206.1																																																																																				0.5	MLYCD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000433009.1	NM_012213		A	83941753	-	A	83941752	7	5	675	1	0	1	1	0	0	0	0	0	9645	349	13	0	673	0	MLYCD	16	83941752	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	1	83941752	6413001	112	43557	439	2								
ZNF232	7775	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	5012951	5012951	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ggagatgcctgaagcgttggCggaagatctcttgactggta	15	7	1	4	rs550026345		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr17:5012951C>T	ENST00000250076.3	-	3	890	c.236G>A	c.(235-237)cGc>cAc	p.R79H	ZNF232_ENST00000416429.2_Missense_Mutation_p.R52H|ZNF232_ENST00000575898.1_Missense_Mutation_p.R79H|AC012146.7_ENST00000571138.1_RNA|ZNF232_ENST00000575538.1_Intron|AC012146.7_ENST00000413077.1_RNA	NM_014519.2	NP_055334.2	Q9UNY5	ZN232_HUMAN	zinc finger protein 232	52	SCAN box. {ECO:0000255|PROSITE- ProRule:PRU00187}.				transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			kidney(1)|large_intestine(2)|liver(1)|lung(4)|ovary(1)|prostate(2)	11						GAAGCGTTGGCGGAAGATCTC	0.542													C|||	1	0.000199681	0.0	0.0	5008	,	,		19148	0.0		0.0	False		,,,				2504	0.001															0													167	136	146					17																	5012951		2203	4300	6503	SO:0001583	missense	7775			AF080169	CCDS11068.1	17p13.2	2013-01-09			ENSG00000167840	ENSG00000167840		"-", "Zinc fingers, C2H2-type"	13026	protein-coding gene	gene with protein product						11311944	Standard	NM_014519		Approved	ZSCAN11	uc002gat.3	Q9UNY5	OTTHUMG00000099450	ENST00000250076.3:c.236G>A	17.37:g.5012951C>T	ENSP00000250076:p.Arg79His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000250076.3	37	CCDS11068.1	.	.	.	.	.	.	.	.	.	.	C	14.57	2.575421	0.45902	.	.	ENSG00000167840	ENST00000250076;ENST00000416429	T;T	0.07444	3.19;3.19	3.0	-0.0854	0.13686	Retrovirus capsid, C-terminal (1);Transcription regulator SCAN (3);	0.257236	0.20735	N	0.086644	T	0.17704	0.0425	M	0.73430	2.235	0.23254	N	0.998034	P;D;B;B	0.60160	0.903;0.987;0.12;0.098	P;P;B;B	0.58820	0.545;0.846;0.018;0.015	T	0.04307	-1.0961	10	0.59425	D	0.04	.	5.2561	0.15548	0.0:0.5949:0.0:0.4051	.	79;52;52;52	B4DNA7;B4DP49;Q9UNY5;Q9UNY5-2	.;.;ZN232_HUMAN;.	H	79;52	ENSP00000250076:R79H;ENSP00000416430:R52H	ENSP00000250076:R79H	R	-	2	0	ZNF232	4953675	0.004000	0.15560	0.932000	0.37286	0.973000	0.67179	0.096000	0.15147	0.022000	0.15160	0.561000	0.74099	CGC		0.542	ZNF232-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216915.1	NM_014519		T	5012951	C	T	5012951	3	4	675	1	0	0	0	0	1	0	0	0	17797	768	27	1	1110	1	ZNF232	17	5012951	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10		5012951	76182259	113	43558										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	7577609	7577609	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gtggtacagtcagagccaacCtaggagataacacaggccca	11	11	1	2			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr17:7577609C>T	ENST00000269305.4	-	7	862		c.e7-1		TP53_ENST00000455263.2_Splice_Site|TP53_ENST00000420246.2_Splice_Site|TP53_ENST00000445888.2_Splice_Site|TP53_ENST00000413465.2_Splice_Site|TP53_ENST00000359597.4_Splice_Site|TP53_ENST00000574684.1_Splice_Site	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53						apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.?(33)|p.0?(8)|p.V225fs*24(1)|p.E224_V225insXX(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	CAGAGCCAACCTAGGAGATAA	0.527		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	43	Unknown(33)|Whole gene deletion(8)|Insertion - In frame(1)|Insertion - Frameshift(1)	biliary_tract(9)|lung(9)|central_nervous_system(4)|bone(4)|liver(4)|upper_aerodigestive_tract(3)|breast(3)|oesophagus(2)|ovary(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)	GRCh37	CS011061	TP53	S							89	75	80					17																	7577609		2203	4300	6503	SO:0001630	splice_region_variant	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.673-1G>A	17.37:g.7577609C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Splice_Site	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	C	19.34	3.808655	0.70797	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944	.	.	.	3.35	3.35	0.38373	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	12.965	0.58480	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	TP53	7518334	1.000000	0.71417	0.321000	0.25320	0.603000	0.37013	7.494000	0.81503	2.158000	0.67659	0.462000	0.41574	.		0.527	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546	Intron	T	7577609	C	T	7577609	5	4	675	1	0	0	0	0	0	0	1	0	16393	695	24	2	618	2	TP53	17	7577609	Splice_Site	SNP	C	TCGA-KO-8404-01A-11D-2310-10	2564658	7577609	73617601	114	43559										
RAI1	10743	broad.mit.edu	37	chr17	17700804	17700805	+	Frame_Shift_Ins	INS	-	-	C													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cccagcccccggagggcaggINSccctgccagccccagacaag					rs148698066		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr17:17700804_17700805insC	ENST00000353383.1	+	3	5011_5012	c.4542_4543insC	c.(4543-4545)cccfs	p.P1515fs	RAI1_ENST00000261641.6_Frame_Shift_Ins_p.P1515fs	NM_030665.3	NP_109590.3	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	1515					circadian regulation of gene expression (GO:0032922)|negative regulation of multicellular organism growth (GO:0040015)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	enhancer binding (GO:0035326)|zinc ion binding (GO:0008270)	p.P1515S(1)|p.P1515F(1)		breast(1)|central_nervous_system(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(14)|ovary(1)|prostate(1)|skin(5)|urinary_tract(7)	48				READ - Rectum adenocarcinoma(1115;0.0276)		CGGAGGGCAGGCCCTGCCAGCC	0.649																																																2	Substitution - Missense(2)	skin(2)																																								SO:0001589	frameshift_variant	10743			AJ230819	CCDS11188.1	17p11.2	2011-02-08			ENSG00000108557	ENSG00000108557			9834	protein-coding gene	gene with protein product		607642	"Smith-Magenis syndrome chromosome region"	SMCR		10036180	Standard	NM_030665		Approved	DKFZP434A139, SMS, KIAA1820, MGC12824	uc002grm.3	Q7Z5J4	OTTHUMG00000059314	ENST00000353383.1:c.4545dupC	17.37:g.17700807_17700807dupC	ENSP00000323074:p.Pro1515fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3B4|Q8ND08|Q8WU64|Q96JK5|Q9H1C1|Q9H1C2|Q9UF69	Frame_Shift_Ins	INS	ENST00000353383.1	37	CCDS11188.1																																																																																				0.649	RAI1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131775.1	NM_030665		C	17700805	-	C	17700804	7	5	675	1	0	1	1	0	0	0	0	0	13020	1194	42	0	4544	0	RAI1	17	17700804	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	10123195	17700804	63494406	115	43560										
LGALS9C	654346	broad.mit.edu	37	chr17	18387252	18387252	+	Frame_Shift_Del	DEL	G	G	-													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gatttcagatcactgtcaatGgggccgttctcagctgcagt							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr17:18387252delG	ENST00000328114.6	+	2	184	c.103delG	c.(103-105)gggfs	p.G35fs	LGALS9C_ENST00000584941.1_Frame_Shift_Del_p.G35fs|LGALS9C_ENST00000581545.1_Frame_Shift_Del_p.G35fs|LGALS9C_ENST00000412421.2_Intron|LGALS9C_ENST00000583322.1_Frame_Shift_Del_p.G35fs|LGALS9C_ENST00000578983.1_3'UTR	NM_001040078.2	NP_001035167.2	Q6DKI2	LEG9C_HUMAN	lectin, galactoside-binding, soluble, 9C	35	Galectin 1. {ECO:0000255|PROSITE- ProRule:PRU00639}.						carbohydrate binding (GO:0030246)			NS(1)|large_intestine(1)|lung(2)|ovary(1)|prostate(2)	7						CACTGTCAATGGGGCCGTTCT	0.567																																																0													160	109	127					17																	18387252		2132	3739	5871	SO:0001589	frameshift_variant	654346				CCDS32587.1	17p11.2	2011-08-04			ENSG00000171916	ENSG00000171916		"Lectins, galactoside-binding"	33874	protein-coding gene	gene with protein product							Standard	NM_001040078		Approved		uc002gtw.3	Q6DKI2	OTTHUMG00000059251	ENST00000328114.6:c.103delG	17.37:g.18387252delG	ENSP00000329932:p.Gly35fs	Somatic		WXS	Illumina HiSeq	Phase_I	B0AZM7	Frame_Shift_Del	DEL	ENST00000328114.6	37	CCDS32587.1																																																																																				0.567	LGALS9C-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000131456.2	NM_001040078		-	18387252	G	-	18387252	7	5	675	1	0	1	0	1	0	0	0	0	8757	1348	47	0	109	0	LGALS9C	17	18387252	Frame_Shift_Del	DEL	G	TCGA-KO-8404-01A-11D-2310-10	686448	18387252	62807958	116	43561										
KRTAP4-8	728224	mdanderson.org	37	chr17	39254149	39254149	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	agcagctggggcgacagcagGtgggctggcagcacacagac	17	11	0	1	rs201246375		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr17:39254149G>C	ENST00000333822.4	-	1	244	c.188C>G	c.(187-189)aCc>aGc	p.T63S		NM_031960.2	NP_114166.1	Q9BYQ9	KRA48_HUMAN	keratin associated protein 4-8	63	25 X 5 AA repeats of C-C-[IKRQVHEC]- [SPRT]-[STCVQPR].				aging (GO:0007568)|hair cycle (GO:0042633)	keratin filament (GO:0045095)				endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(1)|prostate(1)	11						GCGACAGCAGGTGGGCTGGCA	0.652																																																0													7	10	9					17																	39254149		651	1515	2166	SO:0001583	missense	728224			AJ406940	CCDS45674.1	17q21.2	2013-06-25			ENSG00000204880	ENSG00000204880		"Keratin associated proteins"	17230	protein-coding gene	gene with protein product						11279113	Standard	NM_031960		Approved	KAP4.8	uc010wfo.2	Q9BYQ9	OTTHUMG00000133580	ENST00000333822.4:c.188C>G	17.37:g.39254149G>C	ENSP00000328444:p.Thr63Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8MSH3	Missense_Mutation	SNP	ENST00000333822.4	37	CCDS45674.1	.	.	.	.	.	.	.	.	.	.	.	3.249	-0.153662	0.06585	.	.	ENSG00000204880	ENST00000333822;ENST00000332991	T	0.01215	5.16	3.11	-1.04	0.10068	.	1.573260	0.03861	N	0.273912	T	0.00724	0.0024	N	0.10809	0.05	0.09310	N	1	B	0.11235	0.004	B	0.10450	0.005	T	0.43637	-0.9379	10	0.05721	T	0.95	.	4.7356	0.12986	0.2319:0.434:0.3341:0.0	.	63	Q9BYQ9	KRA48_HUMAN	S	63	ENSP00000328444:T63S	ENSP00000414561:T63S	T	-	2	0	KRTAP4-8	36507675	0.000000	0.05858	0.109000	0.21407	0.234000	0.25298	-2.396000	0.01052	-0.528000	0.06366	0.449000	0.29647	ACC		0.652	KRTAP4-8-001	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257684.1	NM_031960		C	39254149	G	C	39254149	3	2	675	1	0	0	0	0	1	0	0	0	8563	1261	44	4	373	4	KRTAP4-8	17	39254149	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	20866897	39254149	41941061	117	43562										
CDC27	996	mdanderson.org	37	chr17	45234325	45234325	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tggtcctcctaataaacttcGaccagtttttggtttatttt	6	8	0	0			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr17:45234325G>A	ENST00000066544.3	-	7	889	c.796C>T	c.(796-798)Cga>Tga	p.R266*	CDC27_ENST00000446365.2_Nonsense_Mutation_p.R205*|CDC27_ENST00000531206.1_Nonsense_Mutation_p.R266*|CDC27_ENST00000527547.1_Nonsense_Mutation_p.R266*|CDC27_ENST00000528748.1_5'Flank	NM_001114091.1|NM_001256.3	NP_001107563.1|NP_001247.3	P30260	CDC27_HUMAN	cell division cycle 27	266					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|cell proliferation (GO:0008283)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|mitotic cell cycle (GO:0000278)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K11-linked ubiquitination (GO:0070979)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	anaphase-promoting complex (GO:0005680)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle (GO:0005819)	protein phosphatase binding (GO:0019903)			NS(1)|breast(5)|central_nervous_system(3)|cervix(1)|endometrium(2)|kidney(17)|large_intestine(18)|lung(11)|ovary(5)|pancreas(1)|prostate(19)|skin(5)|upper_aerodigestive_tract(2)	90						AATAAACTTCGACCAGTTTTT	0.363																																																0													60	65	63					17																	45234325		2200	4295	6495	SO:0001587	stop_gained	996			U00001	CCDS11509.1, CCDS45720.1, CCDS74090.1	17q21.32	2013-01-17	2013-01-17		ENSG00000004897	ENSG00000004897		"Anaphase promoting complex subunits", "Tetratricopeptide (TTC) repeat domain containing"	1728	protein-coding gene	gene with protein product	"anaphase promoting complex subunit 3"	116946	"cell division cycle 27", "cell division cycle 27 homolog (S. cerevisiae)"	D0S1430E, D17S978E		8234252	Standard	XM_005257892		Approved	APC3, ANAPC3, NUC2	uc002ile.4	P30260	OTTHUMG00000166429	ENST00000066544.3:c.796C>T	17.37:g.45234325G>A	ENSP00000066544:p.Arg266*	Somatic		WXS	Illumina HiSeq	Phase_I	G3V1C4|Q16349|Q96F35	Nonsense_Mutation	SNP	ENST00000066544.3	37	CCDS11509.1	.	.	.	.	.	.	.	.	.	.	G	21.2	4.117088	0.77323	.	.	ENSG00000004897	ENST00000066544;ENST00000531206;ENST00000446365;ENST00000527547;ENST00000526866	.	.	.	5.64	4.66	0.58398	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-17.5002	13.5956	0.61987	0.0:0.0:0.8433:0.1567	.	.	.	.	X	266;266;205;266;266	.	ENSP00000066544:R266X	R	-	1	2	CDC27	42589324	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	6.123000	0.71614	1.354000	0.45846	0.460000	0.39030	CGA		0.363	CDC27-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000389742.2			A	45234325	G	A	45234325	4	1	675	1	0	0	0	0	0	1	0	0	3068	1066	37	1	1748	1	CDC27	17	45234325	Nonsense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	5980176	45234325	35960885	118	43563										
CDC27	996	mdanderson.org	37	chr17	45234625	45234625	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ctggggtgtttccgtaagaaCtgtctcaggctgtctgtgag	14	8	2	2			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr17:45234625C>T	ENST00000066544.3	-	6	694	c.601G>A	c.(601-603)Gtt>Att	p.V201I	CDC27_ENST00000446365.2_Missense_Mutation_p.V140I|CDC27_ENST00000531206.1_Missense_Mutation_p.V201I|CDC27_ENST00000527547.1_Missense_Mutation_p.V201I|CDC27_ENST00000528748.1_5'UTR	NM_001114091.1|NM_001256.3	NP_001107563.1|NP_001247.3	P30260	CDC27_HUMAN	cell division cycle 27	201					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|cell proliferation (GO:0008283)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|mitotic cell cycle (GO:0000278)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K11-linked ubiquitination (GO:0070979)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	anaphase-promoting complex (GO:0005680)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle (GO:0005819)	protein phosphatase binding (GO:0019903)	p.V201I(2)		NS(1)|breast(5)|central_nervous_system(3)|cervix(1)|endometrium(2)|kidney(17)|large_intestine(18)|lung(11)|ovary(5)|pancreas(1)|prostate(19)|skin(5)|upper_aerodigestive_tract(2)	90						TCCGTAAGAACTGTCTCAGGC	0.338																																																2	Substitution - Missense(2)	kidney(2)											58	59	59					17																	45234625		2203	4300	6503	SO:0001583	missense	996			U00001	CCDS11509.1, CCDS45720.1, CCDS74090.1	17q21.32	2013-01-17	2013-01-17		ENSG00000004897	ENSG00000004897		"Anaphase promoting complex subunits", "Tetratricopeptide (TTC) repeat domain containing"	1728	protein-coding gene	gene with protein product	"anaphase promoting complex subunit 3"	116946	"cell division cycle 27", "cell division cycle 27 homolog (S. cerevisiae)"	D0S1430E, D17S978E		8234252	Standard	XM_005257892		Approved	APC3, ANAPC3, NUC2	uc002ile.4	P30260	OTTHUMG00000166429	ENST00000066544.3:c.601G>A	17.37:g.45234625C>T	ENSP00000066544:p.Val201Ile	Somatic		WXS	Illumina HiSeq	Phase_I	G3V1C4|Q16349|Q96F35	Missense_Mutation	SNP	ENST00000066544.3	37	CCDS11509.1	.	.	.	.	.	.	.	.	.	.	C	13.19	2.164668	0.38217	.	.	ENSG00000004897	ENST00000066544;ENST00000531206;ENST00000446365;ENST00000527547;ENST00000526866	T;T;T;T;T	0.67171	-0.25;-0.23;0.02;-0.25;0.85	5.11	5.11	0.69529	.	0.065071	0.64402	D	0.000010	T	0.52805	0.1757	N	0.24115	0.695	0.53688	D	0.999973	B;B;B;B	0.22211	0.031;0.053;0.066;0.031	B;B;B;B	0.20577	0.024;0.022;0.03;0.01	T	0.47923	-0.9079	10	0.22109	T	0.4	-10.941	16.0383	0.80645	0.0:1.0:0.0:0.0	.	140;201;201;201	B4DL80;G5EA36;G3V1C4;P30260	.;.;.;CDC27_HUMAN	I	201;201;140;201;201	ENSP00000066544:V201I;ENSP00000434614:V201I;ENSP00000392802:V140I;ENSP00000437339:V201I;ENSP00000432105:V201I	ENSP00000066544:V201I	V	-	1	0	CDC27	42589624	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	6.951000	0.75983	2.391000	0.81399	0.557000	0.71058	GTT		0.338	CDC27-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000389742.2			T	45234625	C	T	45234625	3	4	675	1	0	0	0	0	1	0	0	0	3068	565	20	2	1947	2	CDC27	17	45234625	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	300	45234625	35960585	119	43564										
SDK2	54549	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr17	71375627	71375627	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tcctgcggggggctggagggCccctcacccacagcgttgta	15	14	1	0			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr17:71375627C>A	ENST00000392650.3	-	35	4824	c.4824G>T	c.(4822-4824)ggG>ggT	p.G1608G	SDK2_ENST00000388726.3_Silent_p.G1589G	NM_001144952.1	NP_001138424.1	Q58EX2	SDK2_HUMAN	sidekick cell adhesion molecule 2	1608	Fibronectin type-III 10. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell adhesion (GO:0007155)	integral component of membrane (GO:0016021)				breast(4)|central_nervous_system(2)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(15)|lung(31)|ovary(3)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	86						GGCTGGAGGGCCCCTCACCCA	0.662																																																0													56	48	51					17																	71375627		2203	4299	6502	SO:0001819	synonymous_variant	54549			AB040947	CCDS45769.1	17q21.31	2013-02-11	2011-12-09		ENSG00000069188	ENSG00000069188		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	19308	protein-coding gene	gene with protein product		607217	"sidekick homolog 2 (chicken)"			12230981, 15213259	Standard	NM_001144952		Approved	FLJ10832, KIAA1514	uc010dfm.3	Q58EX2	OTTHUMG00000152726	ENST00000392650.3:c.4824G>T	17.37:g.71375627C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NMR8|C9JA57|Q86VY3|Q9NTD2|Q9NVB3|Q9P214	Silent	SNP	ENST00000392650.3	37	CCDS45769.1																																																																																				0.662	SDK2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327598.2	NM_019064		A	71375627	C	A	71375627	2	1	675	1	0	0	0	0	0	0	0	1	13982	726	26	4		4	SDK2	17	71375627	Silent	SNP	C	TCGA-KO-8404-01A-11D-2310-10	26141002	71375627	9819583	120	43565										
NPTX1	4884	broad.mit.edu	37	chr17	78449424	78449425	+	Frame_Shift_Ins	INS	-	-	G													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ctcctccagggtgttcacccINSgggacagcacctgcctctcc							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr17:78449424_78449425insG	ENST00000306773.4	-	2	695_696	c.538_539insC	c.(538-540)cggfs	p.R180fs	NPTX1_ENST00000575212.1_5'UTR	NM_002522.3	NP_002513.2	Q15818	NPTX1_HUMAN	neuronal pentraxin I	180					axonogenesis involved in innervation (GO:0060385)|cellular response to glucose stimulus (GO:0071333)|cellular response to potassium ion (GO:0035865)|central nervous system development (GO:0007417)|mitochondrial fragmentation involved in apoptotic process (GO:0043653)|mitochondrial transport (GO:0006839)|synaptic transmission (GO:0007268)|transport (GO:0006810)	cytoplasmic vesicle (GO:0031410)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)			kidney(1)|large_intestine(2)|liver(1)|lung(4)|prostate(2)|upper_aerodigestive_tract(1)	11	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0487)			GGTGTTCACCCGGGACAGCACC	0.639																																																0																																										SO:0001589	frameshift_variant	4884			U61849	CCDS32762.1	17q25.3	2008-05-14				ENSG00000171246			7952	protein-coding gene	gene with protein product		602367				8884281	Standard	NM_002522		Approved		uc002jyp.1	Q15818		ENST00000306773.4:c.539dupC	17.37:g.78449427_78449427dupG	ENSP00000307549:p.Arg180fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXH3|Q5FWE6	Frame_Shift_Ins	INS	ENST00000306773.4	37	CCDS32762.1																																																																																				0.639	NPTX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438051.1			G	78449425	-	G	78449424	7	5	675	1	0	1	1	0	0	0	0	0	10609	652	23	0	775	0	NPTX1	17	78449424	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	7073797	78449424	2745786	121	43566										
MADCAM1	8174	mdanderson.org	37	chr19	501714	501714	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gcctcccgacaccacctcccCggagtctcccgacaccacct	6	23	1	0	rs78071082	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr19:501714C>A	ENST00000215637.3	+	4	759	c.713C>A	c.(712-714)cCg>cAg	p.P238Q	MADCAM1_ENST00000382683.4_Intron|MADCAM1_ENST00000587541.1_Missense_Mutation_p.P19Q|AC005775.2_ENST00000592413.1_RNA|MADCAM1_ENST00000346144.4_Intron	NM_130760.2	NP_570116.2	Q13477	MADCA_HUMAN	mucosal vascular addressin cell adhesion molecule 1	238	5.5 X 8 AA tandem repeats of [PS]-P-D-T- T-S-[QP]-E.|Mucin-like.				aging (GO:0007568)|cell adhesion (GO:0007155)|cell-matrix adhesion (GO:0007160)|embryo development (GO:0009790)|extracellular matrix organization (GO:0030198)|heterotypic cell-cell adhesion (GO:0034113)|immune response (GO:0006955)|integrin-mediated signaling pathway (GO:0007229)|keratinocyte differentiation (GO:0030216)|leukocyte tethering or rolling (GO:0050901)|positive regulation of leukocyte migration (GO:0002687)|receptor clustering (GO:0043113)|regulation of immune response (GO:0050776)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	integrin binding involved in cell-matrix adhesion (GO:0098640)			central_nervous_system(1)|endometrium(1)|kidney(1)|lung(4)|prostate(1)|skin(2)	10		all_cancers(10;4.25e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACCACCTCCCCGGAGTCTCCC	0.667																																																0													27	42	37					19																	501714		2202	4299	6501	SO:0001583	missense	8174			U43628	CCDS12028.1, CCDS12029.1	19p13.3	2013-01-11			ENSG00000099866	ENSG00000099866		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6765	protein-coding gene	gene with protein product	"mucosal addressin cell adhesion molecule-1"	102670				9162097, 8609404	Standard	NM_130762		Approved	MACAM1	uc002los.3	Q13477	OTTHUMG00000180548	ENST00000215637.3:c.713C>A	19.37:g.501714C>A	ENSP00000215637:p.Pro238Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKV4|B2RPL9|O60222|O75867|Q5UGI7	Missense_Mutation	SNP	ENST00000215637.3	37	CCDS12028.1	.	.	.	.	.	.	.	.	.	.	c	9.846	1.192318	0.21954	.	.	ENSG00000099866	ENST00000537731;ENST00000542525;ENST00000543297;ENST00000215637	T	0.11495	2.77	3.69	-3.39	0.04868	.	.	.	.	.	T	0.05181	0.0138	N	0.24115	0.695	0.09310	N	1	P	0.45078	0.85	B	0.40134	0.32	T	0.23084	-1.0198	9	0.34782	T	0.22	.	1.1525	0.01789	0.1428:0.3186:0.2805:0.2581	.	238	Q13477	MADCA_HUMAN	Q	262;254;246;238	ENSP00000215637:P238Q	ENSP00000215637:P238Q	P	+	2	0	MADCAM1	452714	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.794000	0.04584	-0.567000	0.06046	-0.145000	0.13849	CCG		0.667	MADCAM1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451884.1	NM_130760		A	501714	C	A	501714	3	1	675	1	0	0	0	0	1	0	0	0	9158	652	23	4	727	4	MADCAM1	19	501714	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10		501714	58627269	122	43567										
C3	718	broad.mit.edu	37	chr19	6679165	6679166	+	Frame_Shift_Ins	INS	-	-	C													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tcctggctcacaggccttgtINSccagccgttcttccagggtg							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr19:6679165_6679166insC	ENST00000245907.6	-	38	4692_4693	c.4600_4601insG	c.(4600-4602)gacfs	p.D1534fs	C3_ENST00000599668.1_5'UTR	NM_000064.2	NP_000055.2	P01024	CO3_HUMAN	complement component 3	1534	NTR. {ECO:0000255|PROSITE- ProRule:PRU00295}.				complement activation (GO:0006956)|complement activation, alternative pathway (GO:0006957)|complement activation, classical pathway (GO:0006958)|fatty acid metabolic process (GO:0006631)|G-protein coupled receptor signaling pathway (GO:0007186)|immune response (GO:0006955)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|positive regulation of activation of membrane attack complex (GO:0001970)|positive regulation of angiogenesis (GO:0045766)|positive regulation of apoptotic cell clearance (GO:2000427)|positive regulation of G-protein coupled receptor protein signaling pathway (GO:0045745)|positive regulation of glucose transport (GO:0010828)|positive regulation of lipid storage (GO:0010884)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of type IIa hypersensitivity (GO:0001798)|positive regulation vascular endothelial growth factor production (GO:0010575)|regulation of complement activation (GO:0030449)|regulation of immune response (GO:0050776)|regulation of triglyceride biosynthetic process (GO:0010866)|signal transduction (GO:0007165)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	C5L2 anaphylatoxin chemotactic receptor binding (GO:0031715)|endopeptidase inhibitor activity (GO:0004866)|receptor binding (GO:0005102)			breast(5)|endometrium(7)|kidney(6)|large_intestine(18)|liver(1)|lung(18)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|upper_aerodigestive_tract(3)	72				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)	Intravenous Immunoglobulin(DB00028)	ACAGGCCTTGTCCAGCCGTTCT	0.55																																																0																																										SO:0001589	frameshift_variant	718			J04763	CCDS32883.1	19p13.3-p13.2	2014-09-17			ENSG00000125730	ENSG00000125730	3.4.21.43	"Complement system", "Endogenous ligands"	1318	protein-coding gene	gene with protein product	"C3a anaphylatoxin", "complement component C3a", "complement component C3b", "prepro-C3"	120700					Standard	NM_000064		Approved	CPAMD1, ARMD9, C3a, C3b	uc002mfm.3	P01024	OTTHUMG00000150335	ENST00000245907.6:c.4601dupG	19.37:g.6679167_6679167dupC	ENSP00000245907:p.Asp1534fs	Somatic		WXS	Illumina HiSeq	Phase_I	A7E236	Frame_Shift_Ins	INS	ENST00000245907.6	37	CCDS32883.1																																																																																				0.55	C3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317636.2	NM_000064		C	6679166	-	C	6679165	7	5	675	1	0	1	1	0	0	0	0	0	2206	1667	58	0	406	0	C3	19	6679165	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	6177451	6679165	52449818	123	43568										
PODNL1	79883	broad.mit.edu	37	chr19	14044085	14044087	+	In_Frame_Del	DEL	CCC	CCC	-													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ccggcgggcagccctgagctCcccagctggttgtgctgcag							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	CCC	CCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr19:14044085_14044087delCCC	ENST00000339560.5	-	8	1243_1245	c.970_972delGGG	c.(970-972)gggdel	p.G324del	PODNL1_ENST00000538517.2_In_Frame_Del_p.G233del|PODNL1_ENST00000254320.3_In_Frame_Del_p.G242del|PODNL1_ENST00000538371.2_In_Frame_Del_p.G322del	NM_024825.3	NP_079101.3	Q6PEZ8	PONL1_HUMAN	podocan-like 1	324	Leu-rich.					proteinaceous extracellular matrix (GO:0005578)				central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(2)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(19;5.26e-23)			GCCCTGAGCTCCCCAGCTGGTTG	0.714																																																0									,,	8,3936		1,6,1965					,,	-9.3	0			6	17,7683		8,1,3841	no	coding,coding,coding	PODNL1	NM_024825.3,NM_001146255.1,NM_001146254.1	,,	9,7,5806	A1A1,A1R,RR		0.2208,0.2028,0.2147	,,	,,		25,11619				SO:0001651	inframe_deletion	79883			AK027100	CCDS12300.1, CCDS54225.1, CCDS54226.1	19p13.12	2008-02-05							26275	protein-coding gene	gene with protein product						12477932	Standard	NM_024825		Approved	FLJ23447, SLRR5B	uc010xnj.2	Q6PEZ8		ENST00000339560.5:c.970_972delGGG	19.37:g.14044085_14044087delCCC	ENSP00000345175:p.Gly324del	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z564|Q9H5G9	In_Frame_Del	DEL	ENST00000339560.5	37	CCDS12300.1																																																																																				0.714	PODNL1-003	KNOWN	overlapping_uORF|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000457967.1	NM_024825		-	14044087	CCC	-	14044085	7	5	675	1	0	1	0	1	0	0	0	0	12186	842	30	0	570	0	PODNL1	19	14044085	In_Frame_Del	DEL	CCC	TCGA-KO-8404-01A-11D-2310-10	7364920	14044085	45084898	124	43569										
GTPBP3	84705	mdanderson.org	37	chr19	17448961	17448961	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cacgccctccgaattctcacAgcaccccgagacctgcccct	6	21	1	1	rs1864112	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr19:17448961A>C	ENST00000324894.8	+	2	266	c.198A>C	c.(196-198)acA>acC	p.T66T	GTPBP3_ENST00000358792.7_Silent_p.T66T|GTPBP3_ENST00000600625.1_Silent_p.T66T|GTPBP3_ENST00000598038.1_3'UTR|GTPBP3_ENST00000361619.5_Silent_p.T88T	NM_032620.3|NM_133644.3	NP_116009.2|NP_598399.2	Q969Y2	GTPB3_HUMAN	GTP binding protein 3 (mitochondrial)	66					tRNA modification (GO:0006400)	mitochondrion (GO:0005739)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			breast(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(7)|skin(2)|upper_aerodigestive_tract(1)	18						GAATTCTCACAGCACCCCGAG	0.711													G|||	3123	0.623602	0.8669	0.4885	5008	,	,		13513	0.2956		0.7217	False		,,,				2504	0.6278															0								G	,,,	3732,640		1602,528,56	12	15	14		198,264,198,198	-3.6	0.6	19	dbSNP_92	14	6056,2504		2166,1724,390	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	GTPBP3	NM_001128855.2,NM_001195422.1,NM_032620.3,NM_133644.3	,,,	3768,2252,446	CC,CA,AA		29.2523,14.6386,24.3118	,,,	66/472,88/515,66/493,66/525	17448961	9788,3144	2186	4280	6466	SO:0001819	synonymous_variant	84705			AF360742	CCDS32950.1, CCDS32951.1, CCDS56088.1, CCDS59364.1	19p13.2	2008-02-05				ENSG00000130299			14880	protein-coding gene	gene with protein product		608536				1290633	Standard	NM_001128855		Approved	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700	uc010xpo.2	Q969Y2		ENST00000324894.8:c.198A>C	19.37:g.17448961A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NFH1|A6NIG5|A6NKR4|A8K7B4|B7Z4V8|Q8TCY6|Q8WUW9|Q969G4|Q9BX61	Silent	SNP	ENST00000324894.8	37	CCDS32951.1																																																																																				0.711	GTPBP3-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463624.1	NM_032620		C	17448961	A	C	17448961	2	2	675	1	0	0	0	0	0	0	0	1	6888	175	7	5		5	GTPBP3	19	17448961	Silent	SNP	A	TCGA-KO-8404-01A-11D-2310-10	3404876	17448961	41680022	125	43570										
RPL18A	6142	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr19	17972198	17972198	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tctttgcgcctaatcatgtcGtcgccaagtcccgcttctgg	9	14	3	0			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr19:17972198G>A	ENST00000222247.5	+	2	196	c.115G>A	c.(115-117)Gtc>Atc	p.V39I	RPL18A_ENST00000600147.1_Missense_Mutation_p.V39I|SNORA68_ENST00000384437.1_RNA|RPL18A_ENST00000599870.1_Missense_Mutation_p.V10I|RPL18A_ENST00000599898.1_Intron	NM_000980.3	NP_000971.1	Q02543	RL18A_HUMAN	ribosomal protein L18a	39					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|structural constituent of ribosome (GO:0003735)			NS(1)|endometrium(1)|kidney(1)|large_intestine(1)|upper_aerodigestive_tract(1)	5						TAATCATGTCGTCGCCAAGTC	0.552																																																0													40	39	39					19																	17972198		2202	4279	6481	SO:0001583	missense	6142			AB007175	CCDS12367.1	19p13.11	2011-04-06			ENSG00000105640	ENSG00000105640		"L ribosomal proteins"	10311	protein-coding gene	gene with protein product	"60S ribosomal protein L18a", "ribosomal protein L18a-like protein"	604178				9582194	Standard	NM_000980		Approved	L18A	uc002nhp.3	Q02543		ENST00000222247.5:c.115G>A	19.37:g.17972198G>A	ENSP00000222247:p.Val39Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000222247.5	37	CCDS12367.1	.	.	.	.	.	.	.	.	.	.	G	12.15	1.851096	0.32699	.	.	ENSG00000105640	ENST00000420197;ENST00000222247	.	.	.	4.11	4.11	0.48088	Ribosomal protein L18a/LX (1);	0.000000	0.64402	U	0.000001	T	0.50000	0.1590	L	0.51422	1.61	0.80722	D	1	B	0.31519	0.327	B	0.27380	0.079	T	0.52801	-0.8527	9	0.38643	T	0.18	.	14.229	0.65879	0.0:0.0:1.0:0.0	.	39	Q02543	RL18A_HUMAN	I	39	.	ENSP00000222247:V39I	V	+	1	0	RPL18A	17833198	1.000000	0.71417	0.139000	0.22197	0.018000	0.09664	9.533000	0.98059	2.019000	0.59389	0.563000	0.77884	GTC		0.552	RPL18A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466679.1	NM_000980		A	17972198	G	A	17972198	3	1	675	1	0	0	0	0	1	0	0	0	13578	1145	40	1	121	1	RPL18A	19	17972198	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	523237	17972198	41156785	126	43571										
LRRC25	126364	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	18507174	18507174	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gcagcccagggtttgttcagCtcccggcttctggccactcg	12	15	2	0			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr19:18507174C>T	ENST00000339007.3	-	1	1253	c.600G>A	c.(598-600)gaG>gaA	p.E200E	LRRC25_ENST00000595840.1_Silent_p.E200E	NM_145256.2	NP_660299.2	Q8N386	LRC25_HUMAN	leucine rich repeat containing 25	200						integral component of membrane (GO:0016021)				endometrium(1)|large_intestine(3)|lung(3)|skin(1)	8						GTTTGTTCAGCTCCCGGCTTC	0.677																																																0													22	25	24					19																	18507174		2202	4300	6502	SO:0001819	synonymous_variant	126364			AK095435	CCDS12377.1	19p13.11	2013-09-20			ENSG00000175489	ENSG00000175489			29806	protein-coding gene	gene with protein product		607518				12384430	Standard	NM_145256		Approved	MAPA, FLJ38116	uc002niw.3	Q8N386	OTTHUMG00000183361	ENST00000339007.3:c.600G>A	19.37:g.18507174C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IQ00|Q8N9A5	Silent	SNP	ENST00000339007.3	37	CCDS12377.1																																																																																				0.677	LRRC25-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466342.1	NM_145256		T	18507174	C	T	18507174	2	4	675	1	0	0	0	0	0	0	0	1	8987	796	28	2		2	LRRC25	19	18507174	Silent	SNP	C	TCGA-KO-8404-01A-11D-2310-10	534976	18507174	40621809	127	43572										
ZNF626	199777	mdanderson.org	37	chr19	20807270	20807270	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tctccagtatgaattttcttAtgtgtagtaaggttagagga	10	4	2	2	rs547337333	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr19:20807270A>G	ENST00000601440.1	-	4	1559	c.1413T>C	c.(1411-1413)caT>caC	p.H471H	CTC-513N18.7_ENST00000595094.1_lincRNA	NM_001076675.2	NP_001070143.1	Q68DY1	ZN626_HUMAN	zinc finger protein 626	471					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(1)|lung(3)|skin(1)	6						GAATTTTCTTATGTGTAGTAA	0.388													a|||	3193	0.63758	0.3517	0.7767	5008	,	,		9279	0.7411		0.8082	False		,,,				2504	0.6431															0													37	18	24					19																	20807270		1869	3648	5517	SO:0001819	synonymous_variant	199777			BC007116	CCDS32976.1, CCDS42535.1	19p13.11	2013-01-08				ENSG00000188171		"Zinc fingers, C2H2-type", "-"	30461	protein-coding gene	gene with protein product						12477932	Standard	NM_145297		Approved		uc002npb.1	Q68DY1		ENST00000601440.1:c.1413T>C	19.37:g.20807270A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N8T4|Q96QM1	Silent	SNP	ENST00000601440.1	37	CCDS42535.1																																																																																				0.388	ZNF626-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447845.2	NM_145297		G	20807270	A	G	20807270	2	3	675	1	0	0	0	0	0	0	0	1	18062	446	16	3		3	ZNF626	19	20807270	Silent	SNP	A	TCGA-KO-8404-01A-11D-2310-10	2300096	20807270	38321713	128	43573										
UQCRFS1	7386	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr19	29698692	29698692	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tctagatcatgctgtgggtcCctcaactgtgataattcaac	8	10	4	2			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr19:29698692C>G	ENST00000304863.4	-	2	1010	c.588G>C	c.(586-588)agG>agC	p.R196S		NM_006003.2	NP_005994.2	P47985	UCRI_HUMAN	ubiquinol-cytochrome c reductase, Rieske iron-sulfur polypeptide 1	196	Rieske. {ECO:0000255|PROSITE- ProRule:PRU00628}.				cellular metabolic process (GO:0044237)|respiratory electron transport chain (GO:0022904)|response to antibiotic (GO:0046677)|response to drug (GO:0042493)|response to hormone (GO:0009725)|small molecule metabolic process (GO:0044281)	mitochondrial inner membrane (GO:0005743)|mitochondrial respiratory chain complex III (GO:0005750)|mitochondrion (GO:0005739)	2 iron, 2 sulfur cluster binding (GO:0051537)|metal ion binding (GO:0046872)|ubiquinol-cytochrome-c reductase activity (GO:0008121)			endometrium(4)|kidney(2)|large_intestine(2)|lung(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	14	Breast(6;0.0545)|Esophageal squamous(110;0.239)		Lung(7;0.092)			GCTGTGGGTCCCTCAACTGTG	0.458																																																0													103	111	108					19																	29698692		2203	4300	6503	SO:0001583	missense	7386			BC010035	CCDS12415.1	19q12	2011-07-04			ENSG00000169021	ENSG00000169021	1.10.2.2	"Mitochondrial respiratory chain complex / Complex III"	12587	protein-coding gene	gene with protein product	"cytochrome b-c1 complex subunit 5"	191327				8088805	Standard	NM_006003		Approved	RIS1, RIP1, UQCR5, RISP	uc002nsd.2	P47985		ENST00000304863.4:c.588G>C	19.37:g.29698692C>G	ENSP00000306397:p.Arg196Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K519|Q6NVX5|Q9UPH2	Missense_Mutation	SNP	ENST00000304863.4	37	CCDS12415.1	.	.	.	.	.	.	.	.	.	.	C	13.24	2.178721	0.38511	.	.	ENSG00000169021	ENST00000304863	T	0.50813	0.73	5.42	3.17	0.36434	Ubiquinol-cytochrome c reductase, iron-sulphur subunit (1);Rieske [2Fe-2S] iron-sulphur domain (4);	0.000000	0.85682	D	0.000000	T	0.68787	0.3039	M	0.87038	2.855	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.72740	-0.4202	10	0.87932	D	0	.	9.3534	0.38151	0.0:0.7315:0.0:0.2685	.	196	P47985	UCRI_HUMAN	S	196	ENSP00000306397:R196S	ENSP00000306397:R196S	R	-	3	2	UQCRFS1	34390532	0.930000	0.31532	1.000000	0.80357	0.347000	0.29111	0.025000	0.13577	1.292000	0.44672	0.462000	0.41574	AGG		0.458	UQCRFS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458563.1	NM_006003		G	29698692	C	G	29698692	3	3	675	1	0	0	0	0	1	0	0	0	17033	622	22	4	240	4	UQCRFS1	19	29698692	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	8891422	29698692	29430291	129	43574										
CYP2F1	1572	mdanderson.org	37	chr19	41633809	41633809	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tcctgccacccctgcagggcGccgtctgtgcctgggagagt	14	15	1	1	rs139951793	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr19:41633809G>A	ENST00000331105.2	+	10	1370	c.1298G>A	c.(1297-1299)cGc>cAc	p.R433H		NM_000774.3	NP_000765.2	P24903	CP2F1_HUMAN	cytochrome P450, family 2, subfamily F, polypeptide 1	433					naphthalene metabolic process (GO:0018931)|response to toxic substance (GO:0009636)|small molecule metabolic process (GO:0044281)|trichloroethylene metabolic process (GO:0018979)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)|intracellular membrane-bounded organelle (GO:0043231)	aromatase activity (GO:0070330)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen (GO:0016712)|oxygen binding (GO:0019825)			central_nervous_system(2)|endometrium(4)|kidney(2)|large_intestine(4)|liver(2)|lung(11)|ovary(2)|skin(2)	29						CCTGCAGGGCGCCGTCTGTGC	0.612																																																0													14	16	15					19																	41633809		2197	4288	6485	SO:0001583	missense	1572			J02906	CCDS12572.1	19q13.1-q13.2	2008-02-05	2003-01-14		ENSG00000197446	ENSG00000197446		"Cytochrome P450s"	2632	protein-coding gene	gene with protein product		124070	"cytochrome P450, subfamily IIF, polypeptide 1"	CYP2F			Standard	NM_000774		Approved		uc002opu.1	P24903	OTTHUMG00000167412	ENST00000331105.2:c.1298G>A	19.37:g.41633809G>A	ENSP00000333534:p.Arg433His	Somatic		WXS	Illumina HiSeq	Phase_I	A7KAU6|A7KAU7|A7KAU8|A7KAU9|A7KAV0|Q32MN5|Q8WWJ2	Missense_Mutation	SNP	ENST00000331105.2	37	CCDS12572.1	.	.	.	.	.	.	.	.	.	.	g	12.45	1.941510	0.34283	.	.	ENSG00000197446	ENST00000331105	T	0.70631	-0.5	3.1	2.05	0.26809	Cytochrome P450, conserved site (1);	0.176601	0.41194	U	0.000921	T	0.56202	0.1969	L	0.58510	1.815	0.09310	N	1	P	0.40515	0.719	B	0.29862	0.108	T	0.55661	-0.8106	10	0.87932	D	0	.	5.1896	0.15203	0.2785:0.0:0.7215:0.0	.	433	P24903	CP2F1_HUMAN	H	433	ENSP00000333534:R433H	ENSP00000333534:R433H	R	+	2	0	CYP2F1	46325649	0.000000	0.05858	0.010000	0.14722	0.328000	0.28507	0.452000	0.21795	0.529000	0.28599	0.089000	0.15464	CGC		0.612	CYP2F1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394527.2			A	41633809	G	A	41633809	3	1	675	1	0	0	0	0	1	0	0	0	4173	1087	38	1	1332	1	CYP2F1	19	41633809	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	11935117	41633809	17495174	130	43575										
ZNF285	26974	mdanderson.org	37	chr19	44891043	44891043	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cacacacattgcatttgtatGgtttctcccctgtgtggact	8	11	1	0	rs77661661		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr19:44891043G>T	ENST00000330997.4	-	4	1428	c.1364C>A	c.(1363-1365)cCa>cAa	p.P455Q	ZNF285_ENST00000591679.1_Missense_Mutation_p.P462Q|ZNF285_ENST00000544719.2_Missense_Mutation_p.P455Q|CTC-512J12.6_ENST00000588212.1_Intron	NM_152354.3	NP_689567.3	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	455					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)	p.P455Q(1)		breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(15)|ovary(2)|prostate(5)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(2)	44						GCATTTGTATGGTTTCTCCCC	0.448																																																1	Substitution - Missense(1)	skin(1)																																								SO:0001583	missense	26974			AK055309	CCDS12638.1, CCDS74389.1	19q13.32	2013-01-08	2010-04-14	2010-04-14		ENSG00000267508		"Zinc fingers, C2H2-type", "-"	13079	protein-coding gene	gene with protein product			"zinc finger protein 285A"	ZNF285A			Standard	XM_005258734		Approved			Q96NJ3	OTTHUMG00000178848	ENST00000330997.4:c.1364C>A	19.37:g.44891043G>T	ENSP00000333595:p.Pro455Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RJ3|Q6B0A8|Q6ISR5	Missense_Mutation	SNP	ENST00000330997.4	37	CCDS12638.1	.	.	.	.	.	.	.	.	.	.	G	16.80	3.224441	0.58668	.	.	ENSG00000062370	ENST00000544719;ENST00000330997	T	0.17213	2.29	3.36	3.36	0.38483	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.41834	0.1176	M	0.75447	2.3	0.30665	N	0.754012	D;B	0.89917	1.0;0.012	D;B	0.83275	0.996;0.04	T	0.45323	-0.9269	9	0.62326	D	0.03	.	13.918	0.63914	0.0:0.0:1.0:0.0	.	479;455	B7ZLR9;Q96NJ3	.;ZN285_HUMAN	Q	478;455	ENSP00000333595:P455Q	ENSP00000333595:P455Q	P	-	2	0	ZNF285	49582883	1.000000	0.71417	0.862000	0.33874	0.982000	0.71751	5.120000	0.64685	1.598000	0.50083	0.298000	0.19748	CCA		0.448	ZNF285-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443600.1	NM_152354		T	44891043	G	T	44891043	3	4	675	1	0	0	0	0	1	0	0	0	17834	1348	47	4	412	4	ZNF285	19	44891043	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	3257234	44891043	14237940	131	43576										
LMTK3	114783	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	49001439	49001439	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	cctccttgggggtgtcagctCcccattctccagcactttct	8	16	3	0			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr19:49001439C>A	ENST00000600059.1	-	11	3114	c.2887G>T	c.(2887-2889)Gag>Tag	p.E963*	LMTK3_ENST00000270238.3_Nonsense_Mutation_p.E992*			Q96Q04	LMTK3_HUMAN	lemur tyrosine kinase 3	963	Pro-rich.				negative regulation of phosphatase activity (GO:0010923)	integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(3)|central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(9)|prostate(1)	16		all_lung(116;0.000147)|Lung NSC(112;0.000251)|all_epithelial(76;0.000326)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000114)|all cancers(93;0.000141)|Epithelial(262;0.00854)|GBM - Glioblastoma multiforme(486;0.0231)		GGTGTCAGCTCCCCATTCTCC	0.652																																																0													90	95	93					19																	49001439		1891	4117	6008	SO:0001587	stop_gained	114783			AB067470	CCDS46136.1	19q13.33	2014-06-12				ENSG00000142235			19295	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 101"						Standard	NM_001080434		Approved	KIAA1883, LMR3, TYKLM3, PPP1R101	uc002pjk.3	Q96Q04		ENST00000600059.1:c.2887G>T	19.37:g.49001439C>A	ENSP00000472020:p.Glu963*	Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0U1	Nonsense_Mutation	SNP	ENST00000600059.1	37		.	.	.	.	.	.	.	.	.	.	C	29.8	5.037567	0.93630	.	.	ENSG00000142235	ENST00000270238	.	.	.	3.86	3.86	0.44501	.	0.218940	0.27631	U	0.018507	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.51188	T	0.08	.	11.7016	0.51575	0.0:1.0:0.0:0.0	.	.	.	.	X	992	.	ENSP00000270238:E992X	E	-	1	0	LMTK3	53693251	1.000000	0.71417	0.999000	0.59377	0.024000	0.10985	3.012000	0.49575	1.900000	0.55004	0.449000	0.29647	GAG		0.652	LMTK3-002	KNOWN	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000466137.1	NM_052895		A	49001439	C	A	49001439	4	1	675	1	0	0	0	0	0	1	0	0	8867	864	30	4	1515	4	LMTK3	19	49001439	Nonsense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10	4110396	49001439	10127544	132	43577										
C19orf41	126123	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	50662801	50662801	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tgaattccttgatcacattcGccctgagggtcaccagctct	8	13	3	3			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr19:50662801G>A	ENST00000293405.3	-	3	344	c.344C>T	c.(343-345)gCg>gTg	p.A115V		NM_152358.2	NP_689571.2	Q6UXV1	IZUM2_HUMAN	IZUMO family member 2	115						integral component of membrane (GO:0016021)				cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|prostate(1)	7						GATCACATTCGCCCTGAGGGT	0.493																																																0													73	72	72					19																	50662801		1873	4106	5979	SO:0001583	missense	126123			AY358196	CCDS12792.2	19q13.33	2014-02-17	2010-07-29	2010-07-29	ENSG00000161652	ENSG00000161652		"-"	28518	protein-coding gene	gene with protein product			"chromosome 19 open reading frame 41"	C19orf41		19658160, 22957301	Standard	XM_006723007		Approved	MGC33947, SCRL	uc002prp.1	Q6UXV1	OTTHUMG00000074063	ENST00000293405.3:c.344C>T	19.37:g.50662801G>A	ENSP00000293405:p.Ala115Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5GRG3|Q5GRG4|Q6ZNM5|Q8NHR8	Missense_Mutation	SNP	ENST00000293405.3	37	CCDS12792.2	.	.	.	.	.	.	.	.	.	.	G	11.26	1.585669	0.28268	.	.	ENSG00000161652	ENST00000293405;ENST00000377000	T	0.23348	1.91	4.37	-5.46	0.02608	.	1.836250	0.02694	N	0.111039	T	0.10294	0.0252	N	0.14661	0.345	0.09310	N	1	P	0.45672	0.864	B	0.32624	0.149	T	0.23797	-1.0178	10	0.62326	D	0.03	.	2.4691	0.04560	0.1237:0.3936:0.234:0.2488	.	115	Q6UXV1	IZUM2_HUMAN	V	115	ENSP00000293405:A115V	ENSP00000293405:A115V	A	-	2	0	IZUMO2	55354613	0.000000	0.05858	0.000000	0.03702	0.072000	0.16883	-0.260000	0.08708	-1.189000	0.02702	-0.314000	0.08810	GCG		0.493	IZUMO2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157232.1	NM_152358		A	50662801	G	A	50662801	3	1	675	1	0	0	0	0	1	0	0	0	1926	1087	38	1	341	1	C19orf41	19	50662801	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	1661362	50662801	8466182	133	43578										
ZNF468	90333	mdanderson.org	37	chr19	53352380	53352380	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	taattctccagcatcacgtcCctgtataaagtcctctgagc	6	13	3	1	rs568961044	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr19:53352380C>T	ENST00000595646.1	-	3	222	c.102G>A	c.(100-102)agG>agA	p.R34R	ZNF468_ENST00000243639.4_Silent_p.R34R|ZNF468_ENST00000390651.4_5'UTR|ZNF28_ENST00000594602.1_Intron|ZNF468_ENST00000396409.4_5'UTR			Q5VIY5	ZN468_HUMAN	zinc finger protein 468	34	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|endometrium(3)|kidney(2)|large_intestine(5)|lung(5)|ovary(2)|skin(1)|stomach(3)|urinary_tract(1)	23				GBM - Glioblastoma multiforme(134;0.0358)		GCATCACGTCCCTGTATAAAG	0.473													-|||	6	0.00119808	0.0008	0.0	5008	,	,		18410	0.001		0.004	False		,,,				2504	0.0															0													147	149	148					19																	53352380		2203	4300	6503	SO:0001819	synonymous_variant	90333			AK023558	CCDS33094.1, CCDS62781.1	19q13.41	2013-01-08				ENSG00000204604		"Zinc fingers, C2H2-type", "-"	33105	protein-coding gene	gene with protein product						16144304	Standard	NM_001277120		Approved		uc002qaf.3	Q5VIY5		ENST00000595646.1:c.102G>A	19.37:g.53352380C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MV20|Q5CZB8|Q5VIY4|Q68DI7	Silent	SNP	ENST00000595646.1	37	CCDS33094.1																																																																																				0.473	ZNF468-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463098.1	NM_001008801		T	53352380	C	T	53352380	2	4	675	1	0	0	0	0	0	0	0	1	17940	622	22	2		2	ZNF468	19	53352380	Silent	SNP	C	TCGA-KO-8404-01A-11D-2310-10	2689579	53352380	5776603	134	43579										
KIR2DL1	3811	mdanderson.org	37	chr19	55286795	55286795	+	Intron	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gtcaacggaacattccaggcTgactttcctctgggccctgc	10	14	2	1	rs12982263	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr19:55286795T>C	ENST00000538269.1	+	2	61				KIR2DL3_ENST00000434419.2_Intron|KIR2DL1_ENST00000291633.7_Silent_p.A183A|KIR3DL1_ENST00000541392.1_Intron|CTB-61M7.1_ENST00000400864.3_RNA|KIR3DL1_ENST00000402254.2_Intron|KIR2DL4_ENST00000396284.2_Intron|KIR2DL1_ENST00000336077.6_Silent_p.A183A			P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three domains, long cytoplasmic tail, 1						immune response (GO:0006955)|regulation of immune response (GO:0050776)|signal transduction (GO:0007165)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	HLA-B specific inhibitory MHC class I receptor activity (GO:0030109)			breast(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	11				GBM - Glioblastoma multiforme(193;0.0192)		CATTCCAGGCTGACTTTCCTC	0.582													.|||	869	0.173522	0.2201	0.147	5008	,	,		14338	0.0556		0.1362	False		,,,				2504	0.2894															0								T		409,3801		116,177,1812	126	140	135		549	-2.2	0	19	dbSNP_121	135	403,7953		122,159,3897	no	coding-synonymous	KIR2DL1	NM_014218.2		238,336,5709	CC,CT,TT		4.8229,9.715,6.4619		183/349	55286795	812,11754	2105	4178	6283	SO:0001627	intron_variant	3802			L41269	CCDS42621.1	19q13.4	2014-05-22			ENSG00000167633	ENSG00000167633		"Killer cell immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6338	protein-coding gene	gene with protein product		604946		KIR		7716543, 7749980	Standard	NM_013289		Approved	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158E1, CD158e2		P43629	OTTHUMG00000065933	ENST00000538269.1:c.35-42194T>C	19.37:g.55286795T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O43473|Q14946|Q16541	Silent	SNP	ENST00000538269.1	37																																																																																					0.582	KIR3DL1-202	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_013289		C	55286795	T	C	55286795	1	2	675	0	1	0	0	0	0	0	0	0	8323	1567	55	3		3	KIR2DL1	19	55286795	Intron	SNP	T	TCGA-KO-8404-01A-11D-2310-10	1934415	55286795	3842188	135	43580										
SLC27A5	10998	broad.mit.edu	37	chr19	59022739	59022740	+	Frame_Shift_Ins	INS	-	-	C													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tgttgggcagcccagcttggINSccagccccagccacatacac							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr19:59022739_59022740insC	ENST00000263093.2	-	1	692_693	c.583_584insG	c.(583-585)gccfs	p.A195fs	SLC27A5_ENST00000601355.1_Intron	NM_012254.2	NP_036386.1	Q9Y2P5	S27A5_HUMAN	solute carrier family 27 (fatty acid transporter), member 5	195					bile acid and bile salt transport (GO:0015721)|bile acid biosynthetic process (GO:0006699)|bile acid metabolic process (GO:0008206)|ketone body biosynthetic process (GO:0046951)|plasma membrane long-chain fatty acid transport (GO:0015911)|small molecule metabolic process (GO:0044281)|triglyceride mobilization (GO:0006642)|very long-chain fatty acid metabolic process (GO:0000038)	basal plasma membrane (GO:0009925)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of endoplasmic reticulum membrane (GO:0030176)|protein complex (GO:0043234)	ATP binding (GO:0005524)|cholate-CoA ligase activity (GO:0047747)|fatty acid transporter activity (GO:0015245)|very long-chain fatty acid-CoA ligase activity (GO:0031957)			central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(7)|ovary(1)|skin(1)|urinary_tract(1)	19		all_cancers(17;4.4e-22)|all_epithelial(17;2.15e-16)|Lung NSC(17;1.24e-06)|all_lung(17;5.41e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Ovarian(87;0.0443)|Breast(46;0.0928)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0168)|Lung(386;0.181)		GCCCAGCTTGGCCAGCCCCAGC	0.688																																																0																																										SO:0001589	frameshift_variant	10998			AF064255	CCDS12983.1	19q13.43	2013-07-15			ENSG00000083807	ENSG00000083807		"Acyl-CoA synthetase family", "Solute carriers"	10999	protein-coding gene	gene with protein product	"fatty-acid-Coenzyme A ligase, very long-chain 3"	603314				10479480, 10749848	Standard	NM_012254		Approved	FATP5, VLACSR, VLCS-H2, VLCSH2, FACVL3, FLJ22987, ACSVL6, ACSB	uc002qtc.2	Q9Y2P5	OTTHUMG00000183543	ENST00000263093.2:c.584dupG	19.37:g.59022741_59022741dupC	ENSP00000263093:p.Ala195fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVP6|B4DPQ1	Frame_Shift_Ins	INS	ENST00000263093.2	37	CCDS12983.1																																																																																				0.688	SLC27A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467060.1	NM_012254		C	59022740	-	C	59022739	7	5	675	1	0	1	1	0	0	0	0	0	14542	1203	42	0	1528	0	SLC27A5	19	59022739	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	3735944	59022739	106244	136	43581										
FAM83C	128876	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	33874426	33874426	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tgctgtgacccagggtcagcCgtttctcatccctgaccagg	11	14	2	2			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr20:33874426C>T	ENST00000374408.3	-	4	2252	c.2156G>A	c.(2155-2157)cGg>cAg	p.R719Q	FAM83C-AS1_ENST00000429167.1_RNA|EIF6_ENST00000374436.3_5'Flank|EIF6_ENST00000374450.3_5'Flank|EIF6_ENST00000374443.3_5'Flank|EIF6_ENST00000462894.1_5'Flank	NM_178468.5	NP_848563.1	Q9BQN1	FA83C_HUMAN	family with sequence similarity 83, member C	719										central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(6)|lung(19)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	40			BRCA - Breast invasive adenocarcinoma(18;0.00252)			CAGGGTCAGCCGTTTCTCATC	0.557																																																0													104	96	99					20																	33874426		2203	4300	6503	SO:0001583	missense	128876			AL121753	CCDS13251.1	20q11.22	2011-04-01	2006-03-23	2006-03-23	ENSG00000125998	ENSG00000125998			16121	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 128"	C20orf128			Standard	NM_178468		Approved	dJ614O4.7	uc021wck.1	Q9BQN1	OTTHUMG00000032332	ENST00000374408.3:c.2156G>A	20.37:g.33874426C>T	ENSP00000363529:p.Arg719Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q14D67|Q5JWN6|Q8N276	Missense_Mutation	SNP	ENST00000374408.3	37	CCDS13251.1	.	.	.	.	.	.	.	.	.	.	C	23.2	4.387130	0.82902	.	.	ENSG00000125998	ENST00000374408	T	0.22539	1.95	4.93	4.93	0.64822	.	0.000000	0.64402	D	0.000006	T	0.40956	0.1138	M	0.67700	2.07	0.39146	D	0.962147	D	0.76494	0.999	P	0.59115	0.852	T	0.42732	-0.9434	10	0.87932	D	0	-2.9794	15.6748	0.77307	0.0:1.0:0.0:0.0	.	719	Q9BQN1	FA83C_HUMAN	Q	719	ENSP00000363529:R719Q	ENSP00000363529:R719Q	R	-	2	0	FAM83C	33337840	1.000000	0.71417	1.000000	0.80357	0.739000	0.42172	3.439000	0.52878	2.472000	0.83506	0.462000	0.41574	CGG		0.557	FAM83C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078854.3			T	33874426	C	T	33874426	3	4	675	1	0	0	0	0	1	0	0	0	5642	652	23	1	91	1	FAM83C	20	33874426	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10		33874426	29151094	137	43582										
LPIN3	64900	broad.mit.edu	37	chr20	39984606	39984608	+	In_Frame_Del	DEL	TTG	TTG	-													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tgatcctggagatcccctccTtgccaccctccactccaccc							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr20:39984606_39984608delTTG	ENST00000373257.3	+	14	1826_1828	c.1735_1737delTTG	c.(1735-1737)ttgdel	p.L579del		NM_022896.1	NP_075047.1	Q9BQK8	LPIN3_HUMAN	lipin 3	579					fatty acid metabolic process (GO:0006631)|glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylcholine biosynthetic process (GO:0006656)|phosphatidylethanolamine biosynthetic process (GO:0006646)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum membrane (GO:0005789)|nucleus (GO:0005634)	phosphatidate phosphatase activity (GO:0008195)			breast(2)|central_nervous_system(1)|cervix(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|liver(2)|lung(7)|ovary(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	31		Myeloproliferative disorder(115;0.000739)				GATCCCCTCCTTGccaccctcca	0.586																																																0																																										SO:0001651	inframe_deletion	64900			AL132654	CCDS33469.1	20q11.2-q12	2006-04-04	2002-05-23		ENSG00000132793	ENSG00000132793			14451	protein-coding gene	gene with protein product		605520	"lipin 3-like"	LIPN3L		11138012	Standard	XM_005260515		Approved	SMP2	uc002xjx.3	Q9BQK8	OTTHUMG00000033056	ENST00000373257.3:c.1735_1737delTTG	20.37:g.39984606_39984608delTTG	ENSP00000362354:p.Leu579del	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTT5|Q5TDB9|Q9NPY8|Q9UJE5	In_Frame_Del	DEL	ENST00000373257.3	37	CCDS33469.1																																																																																				0.586	LPIN3-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080393.1	NM_022896		-	39984608	TTG	-	39984606	7	5	675	1	0	1	0	1	0	0	0	0	8927	1606	56	0	1785	0	LPIN3	20	39984606	In_Frame_Del	DEL	TTG	TCGA-KO-8404-01A-11D-2310-10	6110180	39984606	23040914	138	43583										
CTCFL	140690	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr20	56087702	56087702	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aacctcttctcattcttatgAgttttctggtgctgaatgag	8	8	4	3			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr20:56087702A>G	ENST00000608263.1	-	7	2098	c.1437T>C	c.(1435-1437)acT>acC	p.T479T	CTCFL_ENST00000502686.2_Silent_p.T217T|CTCFL_ENST00000371196.2_Silent_p.T479T|CTCFL_ENST00000432255.2_Intron|CTCFL_ENST00000608440.1_Silent_p.T479T|CTCFL_ENST00000429804.3_Silent_p.T429T|CTCFL_ENST00000608858.1_5'Flank|CTCFL_ENST00000243914.3_Silent_p.T479T|CTCFL_ENST00000423479.3_Silent_p.T479T|CTCFL_ENST00000539382.1_Silent_p.T274T|CTCFL_ENST00000608903.1_Silent_p.T217T|CTCFL_ENST00000608425.1_Silent_p.T479T|CTCFL_ENST00000609232.1_Silent_p.T479T|CTCFL_ENST00000422869.2_Silent_p.T479T|CTCFL_ENST00000433949.3_Silent_p.T274T	NM_001269041.1	NP_001255970.1	Q8NI51	CTCFL_HUMAN	CCCTC-binding factor (zinc finger protein)-like	479					cell cycle (GO:0007049)|DNA methylation involved in gamete generation (GO:0043046)|histone methylation (GO:0016571)|positive regulation of gene expression (GO:0010628)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of gene expression by genetic imprinting (GO:0006349)|regulation of histone H3-K4 methylation (GO:0051569)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone binding (GO:0042393)|metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding (GO:0043565)|transcription regulatory region DNA binding (GO:0044212)			NS(1)|breast(1)|cervix(2)|endometrium(6)|kidney(4)|large_intestine(9)|lung(28)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	58	Lung NSC(12;0.00132)|all_lung(29;0.00433)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;3.95e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.09e-07)			CATTCTTATGAGTTTTCTGGT	0.453																																																0													114	96	102					20																	56087702		2203	4300	6503	SO:0001819	synonymous_variant	140690				CCDS13459.1, CCDS58776.1, CCDS58777.1, CCDS58778.1, CCDS58779.1, CCDS58780.1, CCDS58781.1, CCDS58782.1, CCDS68161.1, CCDS68162.1, CCDS68163.1, CCDS68164.1	20q13.31	2013-01-08			ENSG00000124092	ENSG00000124092		"Zinc fingers, C2H2-type"	16234	protein-coding gene	gene with protein product	"cancer/testis antigen 27"	607022					Standard	NM_001269040		Approved	dJ579F20.2, BORIS, CT27	uc010giw.1	Q8NI51	OTTHUMG00000032829	ENST00000608263.1:c.1437T>C	20.37:g.56087702A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0S6W1|A1L4C6|A6XGL8|A6XGM2|A6XGM3|A6XGM8|A6XGN0|A6XGN1|A6XGN2|A6XGN3|A6XGN4|E7EQ27|E7EUE3|E9PBA9|Q5JUG4|Q9BZ30|Q9NQJ3	Silent	SNP	ENST00000608263.1	37	CCDS13459.1																																																																																				0.453	CTCFL-019	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000472040.1	NM_080618		G	56087702	A	G	56087702	2	3	675	1	0	0	0	0	0	0	0	1	4003	291	11	3		3	CTCFL	20	56087702	Silent	SNP	A	TCGA-KO-8404-01A-11D-2310-10	16103096	56087702	6937818	139	43584										
KCNQ2	3785	broad.mit.edu	37	chr20	62076054	62076055	+	Frame_Shift_Ins	INS	-	-	C													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	agcccagcagcttccaggtgINScctccccgccggtccatgcg							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr20:62076054_62076055insC	ENST00000359125.2	-	4	821_822	c.647_648insG	c.(646-648)ggcfs	p.G216fs	KCNQ2_ENST00000354587.3_Frame_Shift_Ins_p.G216fs|KCNQ2_ENST00000357249.2_Frame_Shift_Ins_p.G216fs|KCNQ2_ENST00000370224.1_Frame_Shift_Ins_p.G216fs|KCNQ2_ENST00000344425.5_Frame_Shift_Ins_p.G216fs|KCNQ2_ENST00000344462.4_Frame_Shift_Ins_p.G216fs|KCNQ2_ENST00000359689.1_Frame_Shift_Ins_p.G216fs|KCNQ2_ENST00000360480.3_Frame_Shift_Ins_p.G216fs	NM_172107.2	NP_742105.1	O43526	KCNQ2_HUMAN	potassium voltage-gated channel, KQT-like subfamily, member 2	216					axon guidance (GO:0007411)|nervous system development (GO:0007399)|potassium ion transport (GO:0006813)|synaptic transmission (GO:0007268)|transmission of nerve impulse (GO:0019226)	axon initial segment (GO:0043194)|node of Ranvier (GO:0033268)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	ankyrin binding (GO:0030506)|delayed rectifier potassium channel activity (GO:0005251)|potassium channel activity (GO:0005267)|voltage-gated potassium channel activity (GO:0005249)			biliary_tract(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(4)|liver(1)|lung(30)|ovary(2)|prostate(4)|skin(3)|upper_aerodigestive_tract(1)	65	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)|Diclofenac(DB00586)|Ezogabine(DB04953)|Meclofenamic acid(DB00939)	GCTTCCAGGTGCCTCCCCGCCG	0.688																																																0																																										SO:0001589	frameshift_variant	3785			AF033348	CCDS13518.1, CCDS13519.1, CCDS13520.1, CCDS13521.1, CCDS46629.1	20q13.33	2012-07-05			ENSG00000075043	ENSG00000075043		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6296	protein-coding gene	gene with protein product		602235		EBN, EBN1		9425895, 16382104	Standard	NM_172107		Approved	Kv7.2, ENB1, BFNC, KCNA11, HNSPC	uc002yex.3	O43526	OTTHUMG00000033049	ENST00000359125.2:c.648dupG	20.37:g.62076056_62076056dupC	ENSP00000352035:p.Gly216fs	Somatic		WXS	Illumina HiSeq	Phase_I	O43796|O75580|O95845|Q4VXP4|Q4VXR6|Q5VYT8|Q96J59|Q99454	Frame_Shift_Ins	INS	ENST00000359125.2	37	CCDS13520.1																																																																																				0.688	KCNQ2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000080353.1	NM_172109		C	62076055	-	C	62076054	7	5	675	1	0	1	1	0	0	0	0	0	8090	1306	46	0	2090	0	KCNQ2	20	62076054	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	5988352	62076054	949466	140	43585										
OR11H1	81061	mdanderson.org	37	chr22	16449605	16449605	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tgggagtgtgaagtcgccggTcacaccacaggacaaaagca	13	10	1	1			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr22:16449605T>C	ENST00000252835.4	-	1	200	c.200A>G	c.(199-201)gAc>gGc	p.D67G		NM_001005239.1	NP_001005239.1	Q8NG94	O11H1_HUMAN	olfactory receptor, family 11, subfamily H, member 1	67						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			central_nervous_system(1)|endometrium(2)|large_intestine(3)|lung(4)|skin(1)	11	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.208)		Kidney(3;0.00216)|KIRC - Kidney renal clear cell carcinoma(3;0.00244)|Lung(27;0.0724)|COAD - Colon adenocarcinoma(3;0.211)		AAGTCGCCGGTCACACCACAG	0.433																																																0																																										SO:0001583	missense	81061			AP000535, AF399611	CCDS74807.1	22q11.1	2012-08-09			ENSG00000130538	ENSG00000130538		"GPCR / Class A : Olfactory receptors"	15404	protein-coding gene	gene with protein product						12213199	Standard	NM_001005239		Approved	OR22-1	uc011agd.2	Q8NG94	OTTHUMG00000030069	ENST00000252835.4:c.200A>G	22.37:g.16449605T>C	ENSP00000252835:p.Asp67Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEX0|Q96R32	Missense_Mutation	SNP	ENST00000252835.4	37	CCDS33594.1	.	.	.	.	.	.	.	.	.	.	t	3.067	-0.192032	0.06299	.	.	ENSG00000130538	ENST00000252835	T	0.02890	4.12	2.19	1.07	0.20283	GPCR, rhodopsin-like superfamily (1);	0.155040	0.28653	N	0.014586	T	0.07413	0.0187	M	0.92833	3.35	0.09310	N	1	B	0.28584	0.216	B	0.32342	0.144	T	0.13469	-1.0508	10	0.87932	D	0	.	6.1983	0.20561	0.0:0.1525:0.0:0.8475	.	67	Q8NG94	O11H1_HUMAN	G	67	ENSP00000252835:D67G	ENSP00000252835:D67G	D	-	2	0	OR11H1	14829605	0.001000	0.12720	0.588000	0.28705	0.057000	0.15508	0.807000	0.27140	0.043000	0.15746	-1.786000	0.00637	GAC		0.433	OR11H1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000074923.2	NM_001005239		C	16449605	T	C	16449605	3	2	675	1	0	0	0	0	1	0	0	0	10933	1667	58	3	782	3	OR11H1	22	16449605	Missense_Mutation	SNP	T	TCGA-KO-8404-01A-11D-2310-10		16449605	34854961	141	43586										
RIMBP3	85376	broad.mit.edu	37	chr22	20458628	20458629	+	Frame_Shift_Ins	INS	-	-	G													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	ggaatctgctccacgaagttINSggagggcaccagcccccgcc							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr22:20458628_20458629insG	ENST00000426804.1	-	1	3157_3158	c.2673_2674insC	c.(2671-2676)tccaacfs	p.N892fs	RN7SKP131_ENST00000363006.1_RNA	NM_015672.1	NP_056487.1	Q9UFD9	RIM3A_HUMAN	RIMS binding protein 3	892	SH3 1. {ECO:0000255|PROSITE- ProRule:PRU00192}.									breast(2)|central_nervous_system(1)|cervix(1)|endometrium(2)|large_intestine(3)|lung(1)|prostate(1)|skin(1)|urinary_tract(1)	13	Colorectal(54;0.0993)|Melanoma(16;0.165)		LUSC - Lung squamous cell carcinoma(15;0.0405)|Lung(15;0.224)			TCCACGAAGTTGGAGGGCACCA	0.604																																																0																																										SO:0001589	frameshift_variant	85376			AB051453	CCDS46665.1	22q11.21	2014-05-06			ENSG00000196622	ENSG00000275793			29344	protein-coding gene	gene with protein product		612699				11258795, 17855024	Standard	NM_015672		Approved	KIAA1666, RIMBP3.1, RIMBP3A	uc002zsd.4	Q9UFD9	OTTHUMG00000188355	ENST00000426804.1:c.2674dupC	22.37:g.20458630_20458630dupG	ENSP00000391564:p.Asn892fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYP7|Q9BY94|Q9UFQ5	Frame_Shift_Ins	INS	ENST00000426804.1	37	CCDS46665.1																																																																																				0.604	RIMBP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318945.2	NM_015672		G	20458629	-	G	20458628	7	5	675	1	0	1	1	0	0	0	0	0	13377	1812	63	0	2249	0	RIMBP3	22	20458628	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	4009023	20458628	30845938	142	43587										
KDELR3	11015	hgsc.bcm.edu	37	chr22	38877304	38877304	+	Frame_Shift_Del	DEL	A	A	-													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	agactggagaggctgagaccAtaactactcactacctgttc					rs144678116	byFrequency	TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr22:38877304delA	ENST00000216014.4	+	4	611	c.439delA	c.(439-441)atafs	p.I147fs	KDELR3_ENST00000409006.3_Frame_Shift_Del_p.I147fs|KDELR3_ENST00000471268.1_3'UTR	NM_006855.2	NP_006846.1	O43731	ERD23_HUMAN	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 3	147					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|protein retention in ER lumen (GO:0006621)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	ER retention sequence binding (GO:0046923)			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(5)|ovary(2)|prostate(1)	13	Melanoma(58;0.0286)					GGCTGAGACCATAACTACTCA	0.493																																					Ovarian(11;103 529 24120 28493 32980)											0													152	145	147					22																	38877304		2203	4300	6503	SO:0001589	frameshift_variant	11015			AL035081	CCDS13972.1, CCDS46705.1	22q13	2008-05-02			ENSG00000100196	ENSG00000100196			6306	protein-coding gene	gene with protein product							Standard	NM_006855		Approved		uc003avu.3	O43731	OTTHUMG00000153520	ENST00000216014.4:c.439delA	22.37:g.38877304delA	ENSP00000216014:p.Ile147fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7T7|B8ZZ26|O95557|Q4V750|Q4V767|Q53FP4|Q53GK1	Frame_Shift_Del	DEL	ENST00000216014.4	37	CCDS13972.1																																																																																				0.493	KDELR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331474.1			-	38877304	A	-	38877304	7	5	675	1	0	1	0	1	0	0	0	0	8128	217	8	0	453	0	KDELR3	22	38877304	Frame_Shift_Del	DEL	A	TCGA-KO-8404-01A-11D-2310-10	18418676	38877304	12427262	143	43588	440	2								
KDELR3	11015	bcgsc.ca	37	chr22	38877305	38877305	+	Frame_Shift_Del	DEL	A	A	-													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	gactggagaggctgagaccaTaactactcactacctgttct							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chr22:38877305delA	ENST00000216014.4	+	4	612	c.440delA	c.(439-441)aaafs	p.K147fs	KDELR3_ENST00000409006.3_Frame_Shift_Del_p.K147fs|KDELR3_ENST00000471268.1_3'UTR	NM_006855.2	NP_006846.1	O43731	ERD23_HUMAN	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 3	147					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|protein retention in ER lumen (GO:0006621)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	ER retention sequence binding (GO:0046923)			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(5)|ovary(2)|prostate(1)	13	Melanoma(58;0.0286)					GCTGAGACCATAACTACTCAC	0.488																																					Ovarian(11;103 529 24120 28493 32980)											0													152	145	147					22																	38877305		2203	4300	6503	SO:0001589	frameshift_variant	11015			AL035081	CCDS13972.1, CCDS46705.1	22q13	2008-05-02			ENSG00000100196	ENSG00000100196			6306	protein-coding gene	gene with protein product							Standard	NM_006855		Approved		uc003avu.3	O43731	OTTHUMG00000153520	ENST00000216014.4:c.440delA	22.37:g.38877305delA	ENSP00000216014:p.Lys147fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7T7|B8ZZ26|O95557|Q4V750|Q4V767|Q53FP4|Q53GK1	Frame_Shift_Del	DEL	ENST00000216014.4	37	CCDS13972.1																																																																																				0.488	KDELR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331474.1			-	38877305	A	-	38877305	7	5	675	1	0	1	0	1	0	0	0	0	8128	1406	49	0	454	0	KDELR3	22	38877305	Frame_Shift_Del	DEL	A	TCGA-KO-8404-01A-11D-2310-10	1	38877305	12427261	144	43589	440	2								
RPS6KA3	6197	broad.mit.edu	37	chrX	20187576	20187576	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	acgaagaagaatttcaatttCttctgttgggtctctcttgc	8	8	5	2			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chrX:20187576C>T	ENST00000379565.3	-	16	1594	c.1387G>A	c.(1387-1389)Gaa>Aaa	p.E463K	RPS6KA3_ENST00000540702.1_Missense_Mutation_p.E434K|RPS6KA3_ENST00000479809.1_5'UTR|RPS6KA3_ENST00000379548.4_Missense_Mutation_p.E433K|RPS6KA3_ENST00000544447.1_Missense_Mutation_p.E435K	NM_004586.2	NP_004577.1	P51812	KS6A3_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide 3	463	Protein kinase 2. {ECO:0000255|PROSITE- ProRule:PRU00159}.				axon guidance (GO:0007411)|cell cycle (GO:0007049)|central nervous system development (GO:0007417)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of cell differentiation (GO:0045597)|positive regulation of cell growth (GO:0030307)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of DNA-templated transcription in response to stress (GO:0043620)|regulation of translation in response to stress (GO:0043555)|response to lipopolysaccharide (GO:0032496)|signal transduction (GO:0007165)|skeletal system development (GO:0001501)|stress-activated MAPK cascade (GO:0051403)|synaptic transmission (GO:0007268)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|cysteine-type endopeptidase inhibitor activity involved in apoptotic process (GO:0043027)|magnesium ion binding (GO:0000287)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)	p.E462fs(1)		breast(4)|central_nervous_system(4)|endometrium(3)|kidney(2)|large_intestine(5)|liver(14)|lung(7)|ovary(1)|stomach(1)	41					Acetylsalicylic acid(DB00945)	ATTTCAATTTCTTCTGTTGGG	0.299																																																1	Complex(1)	breast(1)											164	159	161					X																	20187576		2203	4300	6503	SO:0001583	missense	6197			U08316	CCDS14197.1	Xp22.2-p22.1	2013-06-03	2002-08-29		ENSG00000177189	ENSG00000177189			10432	protein-coding gene	gene with protein product		300075	"ribosomal protein S6 kinase, 90kD, polypeptide 3", "mental retardation, X-linked 19", "Coffin-Lowry syndrome"	MRX19, CLS		8141249, 11896450, 16879200	Standard	XM_005274573		Approved	RSK, RSK2, HU-3	uc004czu.3	P51812	OTTHUMG00000021231	ENST00000379565.3:c.1387G>A	X.37:g.20187576C>T	ENSP00000368884:p.Glu463Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9V4|Q4VAP3|Q59H26|Q5JPK8|Q7Z3Z7	Missense_Mutation	SNP	ENST00000379565.3	37	CCDS14197.1	.	.	.	.	.	.	.	.	.	.	C	34	5.345157	0.95807	.	.	ENSG00000177189	ENST00000379565;ENST00000544447;ENST00000379548;ENST00000540702	T;T;T;T	0.73469	-0.75;-0.75;-0.75;-0.75	5.41	5.41	0.78517	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	D	0.87346	0.6154	M	0.81239	2.535	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	0.997;0.994;1.0;0.998	D	0.88934	0.3375	10	0.87932	D	0	.	18.526	0.90973	0.0:1.0:0.0:0.0	.	434;433;435;463	B4DG22;F5GYC4;B7ZB17;P51812	.;.;.;KS6A3_HUMAN	K	463;435;433;434	ENSP00000368884:E463K;ENSP00000440220:E435K;ENSP00000368865:E433K;ENSP00000444837:E434K	ENSP00000368865:E433K	E	-	1	0	RPS6KA3	20097497	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.715000	0.84713	2.404000	0.81709	0.600000	0.82982	GAA		0.299	RPS6KA3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000056011.3	NM_004586		T	20187576	C	T	20187576	3	4	675	1	0	0	0	0	1	0	0	0	13665	922	32	2	863	2	RPS6KA3	23	20187576	Missense_Mutation	SNP	C	TCGA-KO-8404-01A-11D-2310-10		20187576	135082984	145	43590										
FAM47B	170062	broad.mit.edu	37	chrX	34961067	34961068	+	Frame_Shift_Ins	INS	-	-	C													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aagcacaggcgcctgaggttINScccgcctgtggacacccaga							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chrX:34961067_34961068insC	ENST00000329357.5	+	1	155_156	c.119_120insC	c.(118-123)ttcccgfs	p.FP40fs		NM_152631.2	NP_689844.2	Q8NA70	FA47B_HUMAN	family with sequence similarity 47, member B	40										breast(3)|central_nervous_system(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(13)|lung(28)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)	71						CGCCTGAGGTTCCCGCCTGTGG	0.594																																																0																																										SO:0001589	frameshift_variant	170062			BC035026	CCDS14236.1	Xp21.1	2004-08-09			ENSG00000189132	ENSG00000189132			26659	protein-coding gene	gene with protein product						14702039	Standard	NM_152631		Approved	FLJ35782	uc004ddi.2	Q8NA70	OTTHUMG00000021345	ENST00000329357.5:c.122dupC	X.37:g.34961070_34961070dupC	ENSP00000328307:p.Phe40fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JQN5|Q6PIG3	Frame_Shift_Ins	INS	ENST00000329357.5	37	CCDS14236.1																																																																																				0.594	FAM47B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056211.1	NM_152631		C	34961068	-	C	34961067	7	5	675	1	0	1	1	0	0	0	0	0	5577	1783	62	0	121	0	FAM47B	23	34961067	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	14773491	34961067	120309493	146	43591										
HUWE1	10075	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	53586462	53586462	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	aaggctgctgctcagctgaaGgatgtcagcagcagctgagg	15	9	2	2			TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chrX:53586462G>T	ENST00000342160.3	-	56	8225	c.7768C>A	c.(7768-7770)Ctt>Att	p.L2590I	MIRLET7F2_ENST00000385277.1_RNA|HUWE1_ENST00000262854.6_Missense_Mutation_p.L2590I			Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1, E3 ubiquitin protein ligase	2590					base-excision repair (GO:0006284)|cell differentiation (GO:0030154)|histone ubiquitination (GO:0016574)|protein monoubiquitination (GO:0006513)|protein polyubiquitination (GO:0000209)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	DNA binding (GO:0003677)|ligase activity (GO:0016874)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)			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						CTCAGCTGAAGGATGTCAGCA	0.572																																																0													34	29	31					X																	53586462		2203	4300	6503	SO:0001583	missense	10075			AB071605	CCDS35301.1	Xp11.22	2014-06-09	2012-02-23		ENSG00000086758	ENSG00000086758			30892	protein-coding gene	gene with protein product		300697	"HECT, UBA and WWE domain containing 1"			9205841, 10998601	Standard	NM_031407		Approved	Ib772, KIAA0312, UREB1	uc004dsp.4	Q7Z6Z7	OTTHUMG00000021617	ENST00000342160.3:c.7768C>A	X.37:g.53586462G>T	ENSP00000340648:p.Leu2590Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O15029|Q4G2Z2|Q5H961|Q6P4D0|Q8NG67|Q9BUI0|Q9HCJ4|Q9NSL6|Q9P0A9	Missense_Mutation	SNP	ENST00000342160.3	37	CCDS35301.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	19.28|19.28	3.797601|3.797601	0.70567|0.70567	.|.	.|.	ENSG00000086758|ENSG00000086758	ENST00000342160;ENST00000262854|ENST00000427052	T;T|.	0.53206|.	0.63;0.63|.	6.08|6.08	6.08|6.08	0.98989|0.98989	.|.	0.000000|.	0.64402|.	D|.	0.000002|.	T|T	0.54367|0.54367	0.1854|0.1854	L|L	0.34521|0.34521	1.04|1.04	0.46478|0.46478	D|D	0.999064|0.999064	P;D|.	0.56035|.	0.956;0.974|.	D;D|.	0.70487|.	0.931;0.969|.	T|T	0.51108|0.51108	-0.8747|-0.8747	10|5	0.52906|.	T|.	0.07|.	.|.	11.6932|11.6932	0.51527|0.51527	0.0833:0.0:0.9167:0.0|0.0833:0.0:0.9167:0.0	.|.	2590;2590|.	Q7Z6Z7;Q7Z6Z7-2|.	HUWE1_HUMAN;.|.	I|H	2590|1623	ENSP00000340648:L2590I;ENSP00000262854:L2590I|.	ENSP00000262854:L2590I|.	L|P	-|-	1|2	0|0	HUWE1|HUWE1	53603187|53603187	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	3.776000|3.776000	0.55356|0.55356	2.580000|2.580000	0.87095|0.87095	0.600000|0.600000	0.82982|0.82982	CTT|CCT		0.572	HUWE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056766.1	XM_497119		T	53586462	G	T	53586462	3	4	675	1	0	0	0	0	1	0	0	0	7468	1000	35	4	5468	4	HUWE1	23	53586462	Missense_Mutation	SNP	G	TCGA-KO-8404-01A-11D-2310-10	18625395	53586462	101684098	147	43592										
RAB40A	142684	broad.mit.edu	37	chrX	102755468	102755469	+	Frame_Shift_Ins	INS	-	-	C													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	atggtacaaaatcttccctgINSccccgacgtatcccagagct							TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chrX:102755468_102755469insC	ENST00000372633.1	-	1	2334_2335	c.216_217insG	c.(214-219)gggcagfs	p.Q73fs	LL0XNC01-250H12.3_ENST00000445990.1_RNA|RAB40A_ENST00000304236.1_Frame_Shift_Ins_p.Q73fs			Q8WXH6	RB40A_HUMAN	RAB40A, member RAS oncogene family	73					protein transport (GO:0015031)|protein ubiquitination (GO:0016567)|small GTPase mediated signal transduction (GO:0007264)	plasma membrane (GO:0005886)	GTP binding (GO:0005525)			breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|skin(1)	12						AATCTTCCCTGCCCCGACGTAT	0.569																																																0																																										SO:0001589	frameshift_variant	142684			AF132748	CCDS35357.1	Xq22.1	2009-08-25			ENSG00000172476	ENSG00000172476		"RAB, member RAS oncogene"	18283	protein-coding gene	gene with protein product						11697911	Standard	NM_080879		Approved	RAR2A, Rar-2	uc004ekk.3	Q8WXH6	OTTHUMG00000022100	ENST00000372633.1:c.217dupG	X.37:g.102755472_102755472dupC	ENSP00000361716:p.Gln73fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00407|Q17RQ5|Q6DK06|Q8TF06	Frame_Shift_Ins	INS	ENST00000372633.1	37	CCDS35357.1																																																																																				0.569	RAB40A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057714.1			C	102755469	-	C	102755468	7	5	675	1	0	1	1	0	0	0	0	0	12952	1328	46	0	620	0	RAB40A	23	102755468	Frame_Shift_Ins	INS	-	TCGA-KO-8404-01A-11D-2310-10	49169006	102755468	52515092	148	43593										
USP26	83844	broad.mit.edu	37	chrX	132161205	132161205	+	Frame_Shift_Del	DEL	A	A	-													0.0352112676056338	5	1	0.682017543859649	1.52771929824561	0.599105607155143	0.242424242424242	1	0	tctatattataggtatctttAaaaaaaagtagccgtgccaa					rs61758857		TCGA-KO-8404-01A-11D-2310-10	TCGA-KO-8404-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	af8dd8cc-ebaa-432c-bcd8-2d792de62be1	d957b0fd-8a5b-410b-b85b-0b8985321ab0	g.chrX:132161205delA	ENST00000511190.1	-	6	1513	c.1044delT	c.(1042-1044)tttfs	p.F348fs	USP26_ENST00000370832.1_Frame_Shift_Del_p.F348fs|USP26_ENST00000406273.1_Frame_Shift_Del_p.F348fs	NM_031907.1	NP_114113.1	Q9BXU7	UBP26_HUMAN	ubiquitin specific peptidase 26	348	USP.				protein deubiquitination (GO:0016579)|ubiquitin-dependent protein catabolic process (GO:0006511)	nucleus (GO:0005634)	cysteine-type peptidase activity (GO:0008234)|ubiquitinyl hydrolase activity (GO:0036459)	p.F348fs*7(1)		breast(3)|central_nervous_system(3)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(11)|liver(2)|lung(18)|ovary(1)|prostate(2)|skin(7)|upper_aerodigestive_tract(3)|urinary_tract(3)	60	Acute lymphoblastic leukemia(192;0.000127)					AGGTATCTTTAAAAAAAAGTA	0.388																																					NSCLC(104;342 1621 36940 47097 52632)											1	Deletion - Frameshift(1)	large_intestine(1)	GRCh37	CM077651	USP26	M	rs61758857						35	37	36					X																	132161205		2198	4295	6493	SO:0001589	frameshift_variant	83844			AF285593	CCDS14635.1	Xq26.2	2012-07-13	2005-08-08		ENSG00000134588	ENSG00000134588	3.4.19.12	"Ubiquitin-specific peptidases"	13485	protein-coding gene	gene with protein product		300309	"ubiquitin specific protease 26"			12838346	Standard	NM_031907		Approved		uc011mvf.2	Q9BXU7	OTTHUMG00000022429	ENST00000511190.1:c.1044delT	X.37:g.132161205delA	ENSP00000423390:p.Phe348fs	Somatic		WXS	Illumina HiSeq	Phase_I	B9WRT6|Q5H9H4	Frame_Shift_Del	DEL	ENST00000511190.1	37	CCDS14635.1																																																																																				0.388	USP26-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359441.1	NM_031907		-	132161205	A	-	132161205	7	5	675	1	0	1	0	1	0	0	0	0	17069	359	13	0	1700	0	USP26	23	132161205	Frame_Shift_Del	DEL	A	TCGA-KO-8404-01A-11D-2310-10	29405737	132161205	23109355	149	43594										
ENO1	2023	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	8923329	8923329	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ccccacaaccaggtcagcgaTgaaggtatcttcagtctccc	8	15	4	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr1:8923329T>A	ENST00000234590.4	-	10	1260	c.1141A>T	c.(1141-1143)Atc>Ttc	p.I381F		NM_001428.3	NP_001419.1	P06733	ENOA_HUMAN	enolase 1, (alpha)	381					carbohydrate metabolic process (GO:0005975)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|glycolytic process (GO:0006096)|negative regulation of cell growth (GO:0030308)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|response to virus (GO:0009615)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)|phosphopyruvate hydratase complex (GO:0000015)|plasma membrane (GO:0005886)	DNA binding (GO:0003677)|magnesium ion binding (GO:0000287)|phosphopyruvate hydratase activity (GO:0004634)|poly(A) RNA binding (GO:0044822)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|ovary(2)|stomach(1)|upper_aerodigestive_tract(1)	10	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;2.54e-20)|all_lung(118;2.99e-06)|Lung NSC(185;6.25e-06)|Renal(390;0.000147)|Breast(348;0.00086)|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;2.42e-07)|COAD - Colon adenocarcinoma(227;2.78e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00177)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|READ - Rectum adenocarcinoma(331;0.0642)		AGGTCAGCGATGAAGGTATCT	0.557											OREG0013068	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																									Esophageal Squamous(21;302 608 19946 22210 33560)											0													131	121	124					1																	8923329		2203	4300	6503	SO:0001583	missense	2023			BC022545	CCDS97.1	1p36.2	2010-03-11			ENSG00000074800	ENSG00000074800	4.2.1.11		3350	protein-coding gene	gene with protein product		172430		ENO1L1, MPB1		9653645, 9691177	Standard	NM_001428		Approved	PPH, MBP-1	uc001apj.2	P06733	OTTHUMG00000001773	ENST00000234590.4:c.1141A>T	1.37:g.8923329T>A	ENSP00000234590:p.Ile381Phe	Somatic	653	WXS	Illumina HiSeq	Phase_I	B2RD59|P22712|Q16704|Q4TUS4|Q53FT9|Q53HR3|Q658M5|Q6GMP2|Q71V37|Q7Z3V6|Q8WU71|Q96GV1|Q9BT62|Q9UCH6|Q9UM55	Missense_Mutation	SNP	ENST00000234590.4	37	CCDS97.1	.	.	.	.	.	.	.	.	.	.	T	22.5	4.297227	0.81025	.	.	ENSG00000074800	ENST00000234590	T	0.61742	0.08	5.46	5.46	0.80206	Enolase, C-terminal (1);	0.048343	0.85682	D	0.000000	D	0.83275	0.5219	H	0.96489	3.83	0.58432	D	0.999999	P;D;D;D;D;D	0.89917	0.614;0.999;1.0;1.0;1.0;1.0	P;D;D;D;D;D	0.85130	0.523;0.995;0.996;0.997;0.991;0.997	D	0.88684	0.3204	10	0.87932	D	0	-27.4565	14.716	0.69269	0.0:0.0:0.0:1.0	.	82;285;219;131;288;381	A4QMW8;E2DRY6;Q9BT62;Q96GV1;P06733-2;P06733	.;.;.;.;.;ENOA_HUMAN	F	381	ENSP00000234590:I381F	ENSP00000234590:I381F	I	-	1	0	ENO1	8845916	1.000000	0.71417	0.992000	0.48379	0.526000	0.34562	7.917000	0.87498	2.090000	0.63153	0.459000	0.35465	ATC		0.557	ENO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004945.1	NM_001428		A	8923329	T	A	8923329	3	1	676	1	0	0	0	0	1	0	0	0	5123	1464	51	5	175	5	ENO1	1	8923329	Missense_Mutation	SNP	T	TCGA-KO-8405-01A-11D-2310-10		8923329	240327292	1	43595										
TMEM201	199953	ucsc.edu	37	chr1	9673104	9673104	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	gagcttggccgccaacgcccTgttcacctcggtgtttctgt	11	14	2	0			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr1:9673104T>C	ENST00000340381.6	+	11	1973	c.1964T>C	c.(1963-1965)cTg>cCg	p.L655P	TMEM201_ENST00000377376.4_Missense_Mutation_p.L631P	NM_001130924.2	NP_001124396.2	Q5SNT2	TM201_HUMAN	transmembrane protein 201	655					fibroblast migration (GO:0010761)|nuclear migration (GO:0007097)	integral component of membrane (GO:0016021)|nuclear membrane (GO:0031965)				lung(3)|upper_aerodigestive_tract(1)	4	all_lung(157;0.222)	all_epithelial(116;2.09e-14)|Renal(390;0.000469)|all_lung(118;0.000521)|Lung NSC(185;0.000744)|Colorectal(325;0.0062)|Breast(348;0.0157)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.5e-08)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|STAD - Stomach adenocarcinoma(132;0.00345)|READ - Rectum adenocarcinoma(331;0.0419)		GCCAACGCCCTGTTCACCTCG	0.652																																																0													86	95	92					1																	9673104		692	1591	2283	SO:0001583	missense	199953				CCDS30579.1, CCDS44055.1, CCDS44055.2	1p36.22	2009-11-06			ENSG00000188807	ENSG00000188807			33719	protein-coding gene	gene with protein product							Standard	NM_001130924		Approved	RP13-15M17.2, NET5	uc021ofy.1	Q5SNT2	OTTHUMG00000057457	ENST00000340381.6:c.1964T>C	1.37:g.9673104T>C	ENSP00000344503:p.Leu655Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B9EH90|Q5SNT3	Missense_Mutation	SNP	ENST00000340381.6	37	CCDS44055.2	.	.	.	.	.	.	.	.	.	.	T	16.28	3.078081	0.55753	.	.	ENSG00000188807	ENST00000377376;ENST00000340381	.	.	.	5.27	5.27	0.74061	.	0.190024	0.34268	N	0.004108	T	0.46639	0.1403	L	0.32530	0.975	0.53005	D	0.99996	P	0.52842	0.956	P	0.44732	0.459	T	0.52756	-0.8533	9	0.87932	D	0	-26.1062	13.7563	0.62940	0.0:0.0:0.0:1.0	.	631	E9PBR6	.	P	631;655	.	ENSP00000344503:L655P	L	+	2	0	TMEM201	9595691	0.982000	0.34865	0.964000	0.40570	0.276000	0.26787	3.196000	0.51020	2.000000	0.58554	0.374000	0.22700	CTG		0.652	TMEM201-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000127672.1	NM_001010866		C	9673104	T	C	9673104	3	2	676	1	0	0	0	0	1	0	0	0	16138	1580	55	3	2025	3	TMEM201	1	9673104	Missense_Mutation	SNP	T	TCGA-KO-8405-01A-11D-2310-10	749775	9673104	239577517	2	43596										
FAM131C	348487	broad.mit.edu;mdanderson.org	37	chr1	16386095	16386095	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	gtgatggcaaactgctcggcGacccctgggggaacagcgag	16	11	0	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr1:16386095G>A	ENST00000375662.4	-	6	639	c.456C>T	c.(454-456)gtC>gtT	p.V152V	FAM131C_ENST00000494078.1_5'UTR	NM_182623.2	NP_872429.2	Q96AQ9	F131C_HUMAN	family with sequence similarity 131, member C	152										large_intestine(2)|lung(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	8		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;8.32e-08)|COAD - Colon adenocarcinoma(227;5.56e-06)|BRCA - Breast invasive adenocarcinoma(304;9.12e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00656)|READ - Rectum adenocarcinoma(331;0.0649)		ACTGCTCGGCGACCCCTGGGG	0.672																																																0													15	15	15					1																	16386095		1788	4014	5802	SO:0001819	synonymous_variant	348487				CCDS41270.1	1p36.13	2008-02-05	2007-03-20	2007-03-20	ENSG00000185519	ENSG00000185519			26717	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 117"	C1orf117		12477932	Standard	NM_182623		Approved	FLJ36766	uc001axz.4	Q96AQ9	OTTHUMG00000009525	ENST00000375662.4:c.456C>T	1.37:g.16386095G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T5Q5|Q8N3X3|Q8N9P9	Silent	SNP	ENST00000375662.4	37	CCDS41270.1																																																																																				0.672	FAM131C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026319.1	NM_182623		A	16386095	G	A	16386095	2	1	676	1	0	0	0	0	0	0	0	1	5445	1045	37	1		1	FAM131C	1	16386095	Silent	SNP	G	TCGA-KO-8405-01A-11D-2310-10	6712991	16386095	232864526	3	43597										
NPHS2	7827	mdanderson.org	37	chr1	179544941	179544941	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ccctcttgttctccttgtgcGgagtcctgccgcctcgcccg	10	18	2	0	rs74315344	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr1:179544941G>A	ENST00000367615.4	-	1	127	c.59C>T	c.(58-60)cCg>cTg	p.P20L	RNU5F-2P_ENST00000516066.1_RNA|NPHS2_ENST00000367616.4_Missense_Mutation_p.P20L	NM_014625.2	NP_055440.1	Q9NP85	PODO_HUMAN	nephrosis 2, idiopathic, steroid-resistant (podocin)	20			P -> L (in dbSNP:rs74315344). {ECO:0000269|PubMed:10742096}.		actin cytoskeleton reorganization (GO:0031532)|excretion (GO:0007588)|metanephric glomerular visceral epithelial cell development (GO:0072249)	cell-cell junction (GO:0005911)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|slit diaphragm (GO:0036057)				NS(1)|endometrium(1)|large_intestine(3)|lung(10)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)	20						CTCCTTGTGCGGAGTCCTGCC	0.761													G|||	16	0.00319489	0.0061	0.0014	5008	,	,		9986	0.001		0.0	False		,,,				2504	0.0061															0			GRCh37	CM000579	NPHS2	M	rs74315344	G	LEU/PRO	16,3402		0,16,1693	3	4	3	http://www.ncbi.nlm.nih.gov/sites/varvu?gene	59	2.8	0	1	dbSNP_131	3	14,7402		0,14,3694	yes	missense	NPHS2	NM_014625.2	98	0,30,5387	AA,AG,GG		0.1888,0.4681,0.2769	benign	20/384	179544941	30,10804	1709	3708	5417	SO:0001583	missense	7827			AJ279254	CCDS1331.1, CCDS72988.1	1q25-q31	2014-06-27			ENSG00000116218	ENSG00000116218			13394	protein-coding gene	gene with protein product		604766				8589695, 10742096	Standard	XM_005245483		Approved	SRN1, PDCN	uc001gmq.4	Q9NP85	OTTHUMG00000035252	ENST00000367615.4:c.59C>T	1.37:g.179544941G>A	ENSP00000356587:p.Pro20Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B1AM32|B1AM33|Q8N6Q5	Missense_Mutation	SNP	ENST00000367615.4	37	CCDS1331.1	3	0.0013736263736263737	1	0.0020325203252032522	1	0.0027624309392265192	1	0.0017482517482517483	0	0.0	G	13.54	2.268734	0.40095	0.004681	0.001888	ENSG00000116218	ENST00000367615;ENST00000367616	D;D	0.99656	-6.31;-6.31	3.85	2.83	0.33086	.	1.497510	0.04248	U	0.338137	D	0.97854	0.9295	N	0.24115	0.695	0.09310	A	2.44025e-07	B;B	0.30193	0.272;0.098	B;B	0.19666	0.026;0.012	D	0.99312	1.0904	9	0.56958	D	0.05	-0.5397	8.0545	0.30598	0.0:0.0:0.7583:0.2417	.	20;20	Q9NP85-2;Q9NP85	.;PODO_HUMAN	L	20	ENSP00000356587:P20L;ENSP00000356588:P20L	ENSP00000356587:P20L	P	-	2	0	NPHS2	177811564	0.011000	0.17503	0.002000	0.10522	0.051000	0.14879	1.779000	0.38624	1.857000	0.53885	0.313000	0.20887	CCG		0.761	NPHS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085283.1			A	179544941	G	A	179544941	3	1	676	1	0	0	0	0	1	0	0	0	10590	1116	39	1	1124	1	NPHS2	1	179544941	Missense_Mutation	SNP	G	TCGA-KO-8405-01A-11D-2310-10	163158846	179544941	69705680	4	43598										
CHIT1	1118	bcgsc.ca	37	chr1	203186950	203186950	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	agtcatctaagtccagtgccCagaccatggccccgcccagt	9	16	2	1	rs201320385|rs3831317|rs150192398	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr1:203186950C>T	ENST00000367229.1	-	10	1107	c.1073G>A	c.(1072-1074)tGg>tAg	p.W358*	CHIT1_ENST00000535569.1_Nonsense_Mutation_p.W349*|CHIT1_ENST00000255427.3_Nonsense_Mutation_p.W339*|CHIT1_ENST00000484834.1_5'UTR	NM_001270509.1|NM_003465.2	NP_001257438.1|NP_003456.1	Q13231	CHIT1_HUMAN	chitinase 1 (chitotriosidase)	358					chitin catabolic process (GO:0006032)|immune response (GO:0006955)|polysaccharide catabolic process (GO:0000272)|response to bacterium (GO:0009617)	extracellular space (GO:0005615)|lysosome (GO:0005764)	chitin binding (GO:0008061)|chitinase activity (GO:0004568)|endochitinase activity (GO:0008843)			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(13)|ovary(1)|stomach(2)	27						GTCCAGTGCCCAGACCATGGC	0.632																																																0													60	52	54					1																	203186950		2203	4300	6503	SO:0001587	stop_gained	1118			U29615	CCDS1436.1, CCDS58057.1	1q32.1	2013-06-06			ENSG00000133063	ENSG00000133063			1936	protein-coding gene	gene with protein product		600031				9748235, 9492324	Standard	NM_003465		Approved	CHIT, CHI3	uc001gzn.2	Q13231	OTTHUMG00000042126	ENST00000367229.1:c.1073G>A	1.37:g.203186950C>T	ENSP00000356198:p.Trp358*	Somatic		WXS	Illumina HiSeq	Phase_I	B3KNW6|J3KN09|Q0VGG5|Q0VGG6|Q3ZAR1|Q6ISC2|Q9H3V8|Q9UDJ8	Nonsense_Mutation	SNP	ENST00000367229.1	37	CCDS1436.1	.	.	.	.	.	.	.	.	.	.	C	19.93	3.918897	0.73098	.	.	ENSG00000133063	ENST00000367229;ENST00000255427;ENST00000535569	.	.	.	4.57	4.57	0.56435	.	0.000000	0.42053	D	0.000776	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-8.7042	15.2284	0.73369	0.0:1.0:0.0:0.0	.	.	.	.	X	358;339;349	.	ENSP00000255427:W339X	W	-	2	0	CHIT1	201453573	1.000000	0.71417	0.432000	0.26747	0.080000	0.17528	6.938000	0.75904	2.238000	0.73509	0.563000	0.77884	TGG		0.632	CHIT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000100275.2	NM_003465		T	203186950	C	T	203186950	4	4	676	1	0	0	0	0	0	1	0	0	3348	595	21	2	335	2	CHIT1	1	203186950	Nonsense_Mutation	SNP	C	TCGA-KO-8405-01A-11D-2310-10	23642009	203186950	46063671	5	43599										
SRGAP2	647135	broad.mit.edu	37	chr1	206516357	206516357	+	IGR	DEL	A	A	-													0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	aggactcaggaagactctttAaaaaggtacagagatatttc							TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr1:206516357delA								CTSE (184253 upstream) : SRGAP2-AS1 (35861 downstream)																							AAGACTCTTTAAAAAGGTACA	0.408																																																0													42	38	39					1																	206516357		1863	4095	5958	SO:0001628	intergenic_variant	23380																															1.37:g.206516357delA		Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL		37																																																																																				0	0.408									-	206516357	A	-	206516357	6	5	676	0	1	1	0	1	0	0	0	0	15158	369	13	0		0	SRGAP2	1	206516357	IGR	DEL	A	TCGA-KO-8405-01A-11D-2310-10	3329407	206516357	42734264	6	43600										
OR2T33	391195	mdanderson.org	37	chr1	248436807	248436807	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	gcactctccaccacccagtgTggggaggaagaagatctgca	12	12	2	2	rs377005013		TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr1:248436807T>A	ENST00000318021.2	-	1	331	c.310A>T	c.(310-312)Aca>Tca	p.T104S		NM_001004695.1	NP_001004695.1	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T, member 33	104						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(2)|breast(1)|endometrium(6)|kidney(1)|large_intestine(10)|lung(41)|ovary(1)|prostate(1)|skin(4)	67	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)			CCACCCAGTGTGGGGAGGAAG	0.587																																																0								T	SER/THR	0,4404		0,0,2202	41	42	42		310	1.4	0	1		42	3,8573		0,3,4285	no	missense	OR2T33	NM_001004695.1	58	0,3,6487	AA,AT,TT		0.035,0.0,0.0231	benign	104/321	248436807	3,12977	2202	4288	6490	SO:0001583	missense	391195				CCDS31109.1	1q44	2012-08-09			ENSG00000177212	ENSG00000177212		"GPCR / Class A : Olfactory receptors"	31255	protein-coding gene	gene with protein product							Standard	NM_001004695		Approved		uc010pzi.2	Q8NG76	OTTHUMG00000040458	ENST00000318021.2:c.310A>T	1.37:g.248436807T>A	ENSP00000324687:p.Thr104Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNN0	Missense_Mutation	SNP	ENST00000318021.2	37	CCDS31109.1	.	.	.	.	.	.	.	.	.	.	-	0.015	-1.560487	0.00910	0.0	3.5E-4	ENSG00000177212	ENST00000318021	T	0.00453	7.33	2.7	1.36	0.22044	GPCR, rhodopsin-like superfamily (1);	0.000000	0.36303	U	0.002677	T	0.00144	0.0004	N	0.10972	0.075	0.09310	N	1	P	0.35307	0.494	B	0.31191	0.125	T	0.34825	-0.9813	10	0.23891	T	0.37	.	3.7146	0.08433	0.5145:0.1202:0.0:0.3652	.	104	Q8NG76	O2T33_HUMAN	S	104	ENSP00000324687:T104S	ENSP00000324687:T104S	T	-	1	0	OR2T33	246503430	0.000000	0.05858	0.009000	0.14445	0.003000	0.03518	-1.540000	0.02200	0.124000	0.18369	0.404000	0.27445	ACA		0.587	OR2T33-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097354.1	NM_001004695		A	248436807	T	A	248436807	3	1	676	1	0	0	0	0	1	0	0	0	11031	1696	59	5	655	5	OR2T33	1	248436807	Missense_Mutation	SNP	T	TCGA-KO-8405-01A-11D-2310-10	41920450	248436807	813814	7	43601										
MBOAT2	129642	broad.mit.edu	37	chr2	9013240	9013240	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	tatttacatgttacttacctAgcgtccatgcaaaatagtat	5	8	0	0			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr2:9013240A>G	ENST00000305997.3	-	8	1079	c.881T>C	c.(880-882)cTa>cCa	p.L294P	MBOAT2_ENST00000486484.1_5'UTR	NM_138799.2	NP_620154.2	Q6ZWT7	MBOA2_HUMAN	membrane bound O-acyltransferase domain containing 2	294					glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylcholine acyl-chain remodeling (GO:0036151)|phosphatidylethanolamine acyl-chain remodeling (GO:0036152)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	1-acylglycerol-3-phosphate O-acyltransferase activity (GO:0003841)		MBOAT2/PRKCE(2)	endometrium(2)|kidney(1)|large_intestine(9)|lung(2)|skin(1)	15	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TTACTTACCTAGCGTCCATGC	0.413																																					Ovarian(194;1699 3813 22401)											0													82	78	79					2																	9013240		2203	4300	6503	SO:0001583	missense	129642			BC016005	CCDS1660.1	2p25	2008-02-05	2006-06-29	2006-06-29	ENSG00000143797	ENSG00000143797			25193	protein-coding gene	gene with protein product		611949	"O-acyltransferase (membrane bound) domain containing 2"	OACT2			Standard	NM_138799		Approved	FLJ14415, FLJ90298	uc002qzg.1	Q6ZWT7	OTTHUMG00000090363	ENST00000305997.3:c.881T>C	2.37:g.9013240A>G	ENSP00000302177:p.Leu294Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A9EDR2|Q8NCE7|Q96KY4	Missense_Mutation	SNP	ENST00000305997.3	37	CCDS1660.1	.	.	.	.	.	.	.	.	.	.	A	20.8	4.046540	0.75846	.	.	ENSG00000143797	ENST00000305997	T	0.74421	-0.84	5.07	5.07	0.68467	.	0.139671	0.46442	D	0.000286	D	0.88239	0.6383	M	0.90198	3.095	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.78314	0.991;0.988	D	0.90823	0.4710	10	0.87932	D	0	-7.5219	14.8342	0.70169	1.0:0.0:0.0:0.0	.	294;294	B7Z3I3;Q6ZWT7	.;MBOA2_HUMAN	P	294	ENSP00000302177:L294P	ENSP00000302177:L294P	L	-	2	0	MBOAT2	8930691	1.000000	0.71417	0.964000	0.40570	0.796000	0.44982	8.954000	0.93051	1.902000	0.55061	0.377000	0.23210	CTA		0.413	MBOAT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206735.1	NM_138799		G	9013240	A	G	9013240	3	3	676	1	0	0	0	0	1	0	0	0	9364	420	15	3	705	3	MBOAT2	2	9013240	Missense_Mutation	SNP	A	TCGA-KO-8405-01A-11D-2310-10		9013240	234186133	8	43602										
NPAS2	4862	broad.mit.edu	37	chr2	101607324	101607324	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	cggaagtcagcaggacgggaCggcaagtcaagtacgtggac	16	9	2	0	rs141762291		TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr2:101607324C>T	ENST00000335681.5	+	19	2386	c.2101C>T	c.(2101-2103)Cgg>Tgg	p.R701W	NPAS2_ENST00000542504.1_Missense_Mutation_p.R766W|AC016738.4_ENST00000452364.1_RNA	NM_002518.3	NP_002509.2	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2	701					cellular lipid metabolic process (GO:0044255)|cellular response to DNA damage stimulus (GO:0006974)|central nervous system development (GO:0007417)|circadian regulation of gene expression (GO:0032922)|circadian sleep/wake cycle (GO:0042745)|locomotor rhythm (GO:0045475)|negative regulation of cell death (GO:0060548)|positive regulation of DNA repair (GO:0045739)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of response to DNA damage stimulus (GO:2001020)|response to redox state (GO:0051775)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	cytosol (GO:0005829)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	core promoter binding (GO:0001047)|DNA binding (GO:0003677)|Hsp90 protein binding (GO:0051879)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)			cervix(1)|endometrium(3)|large_intestine(7)|lung(9)|ovary(3)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29						CAGGACGGGACGGCAAGTCAA	0.652																																																0								C	TRP/ARG	2,4404	4.2+/-10.8	0,2,2201	69	62	64		2101	3.7	1	2	dbSNP_134	64	1,8599		0,1,4299	no	missense	NPAS2	NM_002518.3	101	0,3,6500	TT,TC,CC		0.0116,0.0454,0.0231	probably-damaging	701/825	101607324	3,13003	2203	4300	6503	SO:0001583	missense	4862			U77970	CCDS2048.1	2q11.2	2013-05-21			ENSG00000170485	ENSG00000170485		"Basic helix-loop-helix proteins"	7895	protein-coding gene	gene with protein product		603347				9012850, 9079689	Standard	NM_002518		Approved	MOP4, PASD4, bHLHe9	uc002tap.1	Q99743	OTTHUMG00000130675	ENST00000335681.5:c.2101C>T	2.37:g.101607324C>T	ENSP00000338283:p.Arg701Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZFV9|Q53SQ3|Q86V96|Q99629	Missense_Mutation	SNP	ENST00000335681.5	37	CCDS2048.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	16.88|16.88	3.245069|3.245069	0.59103|0.59103	4.54E-4|4.54E-4	1.16E-4|1.16E-4	ENSG00000170485|ENSG00000170485	ENST00000335681;ENST00000542504|ENST00000433408	T;T|.	0.05382|.	3.47;3.45|.	4.63|4.63	3.74|3.74	0.42951|0.42951	.|.	.|.	.|.	.|.	.|.	T|T	0.56529|0.56529	0.1991|0.1991	L|L	0.51422|0.51422	1.61|1.61	0.38431|0.38431	D|D	0.946433|0.946433	D;D|.	0.69078|.	0.997;0.992|.	P;B|.	0.49953|.	0.627;0.332|.	T|T	0.57081|0.57081	-0.7872|-0.7872	9|5	0.87932|.	D|.	0|.	.|.	7.2525|7.2525	0.26158|0.26158	0.0:0.745:0.0:0.255|0.0:0.745:0.0:0.255	.|.	766;701|.	F5H027;Q99743|.	.;NPAS2_HUMAN|.	W|M	701;766|199	ENSP00000338283:R701W;ENSP00000438428:R766W|.	ENSP00000338283:R701W|.	R|T	+|+	1|2	2|0	NPAS2|NPAS2	100973756|100973756	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.988000|0.988000	0.76386|0.76386	1.394000|1.394000	0.34509|0.34509	2.279000|2.279000	0.76181|0.76181	0.462000|0.462000	0.41574|0.41574	CGG|ACG		0.652	NPAS2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000253168.3			T	101607324	C	T	101607324	3	4	676	1	0	0	0	0	1	0	0	0	10570	527	19	1	2171	1	NPAS2	2	101607324	Missense_Mutation	SNP	C	TCGA-KO-8405-01A-11D-2310-10	92594084	101607324	141592049	9	43603										
CBWD2	150472	broad.mit.edu	37	chr2	114201378	114201379	+	Frame_Shift_Ins	INS	-	-	G													0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	aatccttagctgtcagccaaINSggtggagagctctatgaaga							TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr2:114201378_114201379insG	ENST00000259199.4	+	3	454_455	c.276_277insG	c.(277-279)ggtfs	p.G93fs	CBWD2_ENST00000416503.2_Frame_Shift_Ins_p.G93fs|CBWD2_ENST00000433343.2_Frame_Shift_Ins_p.G57fs	NM_172003.3	NP_742000.1	Q8IUF1	CBWD2_HUMAN	COBW domain containing 2	93							ATP binding (GO:0005524)			endometrium(1)|lung(1)	2						CTGTCAGCCAAGGTGGAGAGCT	0.421																																																0																																										SO:0001589	frameshift_variant	150472			AF452722	CCDS2116.1	2q14.1	2005-08-22			ENSG00000136682	ENSG00000136682			17907	protein-coding gene	gene with protein product		611079				12421752, 15233989	Standard	NM_172003		Approved		uc002tju.3	Q8IUF1	OTTHUMG00000131360	ENST00000259199.4:c.278dupG	2.37:g.114201380_114201380dupG	ENSP00000259199:p.Gly93fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAN3	Frame_Shift_Ins	INS	ENST00000259199.4	37	CCDS2116.1																																																																																				0.421	CBWD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254149.3	NM_172003		G	114201379	-	G	114201378	7	5	676	1	0	1	1	0	0	0	0	0	2715	69	3	0	286	0	CBWD2	2	114201378	Frame_Shift_Ins	INS	-	TCGA-KO-8405-01A-11D-2310-10	12594054	114201378	128997995	10	43604										
HS6ST1	9394	mdanderson.org	37	chr2	129025928	129025928	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	aagaggtccttggcgtagtcGtacagctgcatgtccaggtc	13	10	0	1	rs200330310	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr2:129025928G>A	ENST00000259241.6	-	2	1057	c.1044C>T	c.(1042-1044)taC>taT	p.Y348Y		NM_004807.2	NP_004798.3	O60243	H6ST1_HUMAN	heparan sulfate 6-O-sulfotransferase 1	348					angiogenesis (GO:0001525)|carbohydrate metabolic process (GO:0005975)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan metabolic process (GO:0030203)|heparan sulfate proteoglycan biosynthetic process, enzymatic modification (GO:0015015)|labyrinthine layer blood vessel development (GO:0060716)|lung alveolus development (GO:0048286)|neuron development (GO:0048666)|small molecule metabolic process (GO:0044281)	Golgi membrane (GO:0000139)|integral component of plasma membrane (GO:0005887)	heparan sulfate 6-O-sulfotransferase activity (GO:0017095)|sulfotransferase activity (GO:0008146)			endometrium(3)|liver(1)|lung(7)|pancreas(1)|prostate(2)|skin(1)	15	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.117)		TGGCGTAGTCGTACAGCTGCA	0.642																																																0													76	81	79					2																	129025928		2180	4286	6466	SO:0001819	synonymous_variant	9394			AB006179	CCDS42748.1	2q21	2010-03-19		2002-08-23	ENSG00000136720	ENSG00000136720		"Sulfotransferases, membrane-bound"	5201	protein-coding gene	gene with protein product		604846		HS6ST		9535912	Standard	NM_004807		Approved		uc002tpt.4	O60243	OTTHUMG00000153542	ENST00000259241.6:c.1044C>T	2.37:g.129025928G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DEP2|B4DJ29|Q53SL2|Q9BVI1	Silent	SNP	ENST00000259241.6	37	CCDS42748.1																																																																																				0.642	HS6ST1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331572.1	NM_004807		A	129025928	G	A	129025928	2	1	676	1	0	0	0	0	0	0	0	1	7377	1140	40	1		1	HS6ST1	2	129025928	Silent	SNP	G	TCGA-KO-8405-01A-11D-2310-10	14824550	129025928	114173445	11	43605										
ADAM23	8745	broad.mit.edu;bcgsc.ca	37	chr2	207459582	207459582	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	aaattcaagccctaaatatgAgcagctgtccactcgattcc	6	12	1	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr2:207459582A>G	ENST00000264377.3	+	23	2528	c.2200A>G	c.(2200-2202)Agc>Ggc	p.S734G	ADAM23_ENST00000374415.3_Missense_Mutation_p.S734G|ADAM23_ENST00000374416.1_Missense_Mutation_p.S734G	NM_003812.2	NP_003803.1	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23	734	EGF-like. {ECO:0000255|PROSITE- ProRule:PRU00076}.				cell adhesion (GO:0007155)|central nervous system development (GO:0007417)	extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)	integrin binding (GO:0005178)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(2)|breast(1)|endometrium(6)|kidney(3)|large_intestine(5)|liver(2)|lung(22)|ovary(2)|prostate(3)|skin(3)|stomach(1)|urinary_tract(1)	51				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		CCTAAATATGAGCAGCTGTCC	0.483																																					Melanoma(194;1127 2130 19620 24042 27855)											0													183	167	172					2																	207459582		2203	4300	6503	SO:0001583	missense	8745			AB009672	CCDS2369.1	2q33	2008-06-12	2005-08-18		ENSG00000114948	ENSG00000114948		"ADAM metallopeptidase domain containing"	202	protein-coding gene	gene with protein product		603710	"a disintegrin and metalloproteinase domain 23"			9693107	Standard	NM_003812		Approved	MDC3	uc002vbq.4	O75077	OTTHUMG00000132919	ENST00000264377.3:c.2200A>G	2.37:g.207459582A>G	ENSP00000264377:p.Ser734Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU59	Missense_Mutation	SNP	ENST00000264377.3	37	CCDS2369.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	22.1|22.1	4.249450|4.249450	0.80024|0.80024	.|.	.|.	ENSG00000114948|ENSG00000114948	ENST00000264377;ENST00000374416;ENST00000431817;ENST00000374415|ENST00000444281	T;T;T|.	0.02067|.	4.48;4.47;4.47|.	5.91|5.91	5.91|5.91	0.95273|0.95273	Epidermal growth factor-like, type 3 (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|.	0.76335|.	0.3973|.	M|M	0.78456|0.78456	2.415|2.415	0.58432|0.58432	D|D	0.999997|0.999997	D|.	0.89917|.	1.0|.	D|.	0.66497|.	0.944|.	T|.	0.77067|.	-0.2725|.	10|.	0.52906|.	T|.	0.07|.	.|.	15.528|15.528	0.75928|0.75928	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	734|.	O75077|.	ADA23_HUMAN|.	G|W	734;734;628;734|8	ENSP00000264377:S734G;ENSP00000363537:S734G;ENSP00000363536:S734G|.	ENSP00000264377:S734G|.	S|X	+|+	1|3	0|0	ADAM23|ADAM23	207167827|207167827	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.935000|0.935000	0.57460|0.57460	7.327000|7.327000	0.79147|0.79147	2.263000|2.263000	0.75096|0.75096	0.528000|0.528000	0.53228|0.53228	AGC|TGA		0.483	ADAM23-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256431.2	NM_003812		G	207459582	A	G	207459582	3	3	676	1	0	0	0	0	1	0	0	0	245	304	11	3	2290	3	ADAM23	2	207459582	Missense_Mutation	SNP	A	TCGA-KO-8405-01A-11D-2310-10	78433654	207459582	35739791	12	43606										
CCR2	729230	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr3	46399846	46399846	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	gaattcttcggcctgagtaaCtgtgaaagcaccagtcaact	9	10	2	2			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr3:46399846C>A	ENST00000400888.2	+	1	867	c.828C>A	c.(826-828)aaC>aaA	p.N276K	CCR2_ENST00000292301.4_Missense_Mutation_p.N276K|CCR2_ENST00000465202.1_3'UTR|CCR2_ENST00000445132.2_Missense_Mutation_p.N276K			P41597	CCR2_HUMAN	chemokine (C-C motif) receptor 2	276					blood vessel remodeling (GO:0001974)|cellular calcium ion homeostasis (GO:0006874)|cellular defense response (GO:0006968)|cellular homeostasis (GO:0019725)|chemokine-mediated signaling pathway (GO:0070098)|chemotaxis (GO:0006935)|cytokine-mediated signaling pathway (GO:0019221)|dendritic cell chemotaxis (GO:0002407)|immune response (GO:0006955)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|JAK-STAT cascade (GO:0007259)|negative regulation of adenylate cyclase activity (GO:0007194)|negative regulation of angiogenesis (GO:0016525)|negative regulation of eosinophil degranulation (GO:0043310)|negative regulation of type 2 immune response (GO:0002829)|positive regulation of alpha-beta T cell proliferation (GO:0046641)|positive regulation of astrocyte chemotaxis (GO:2000464)|positive regulation of CD8-positive, alpha-beta T cell extravasation (GO:2000451)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of hematopoietic stem cell migration (GO:2000473)|positive regulation of immune complex clearance by monocytes and macrophages (GO:0090265)|positive regulation of inflammatory response (GO:0050729)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interleukin-2 production (GO:0032743)|positive regulation of monocyte chemotaxis (GO:0090026)|positive regulation of monocyte extravasation (GO:2000439)|positive regulation of T cell activation (GO:0050870)|positive regulation of T cell chemotaxis (GO:0010820)|positive regulation of T-helper 1 type immune response (GO:0002827)|positive regulation of tumor necrosis factor biosynthetic process (GO:0042535)|regulation of vascular endothelial growth factor production (GO:0010574)|response to wounding (GO:0009611)|T-helper 17 cell chemotaxis (GO:0035705)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|neuronal cell body (GO:0043025)|perikaryon (GO:0043204)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	C-C chemokine receptor activity (GO:0016493)|CCR2 chemokine receptor binding (GO:0031727)|chemokine receptor activity (GO:0004950)|protein homodimerization activity (GO:0042803)			breast(3)|endometrium(1)|large_intestine(1)|liver(2)|lung(7)	14				BRCA - Breast invasive adenocarcinoma(193;0.00114)|KIRC - Kidney renal clear cell carcinoma(197;0.0174)|Kidney(197;0.0206)		GCCTGAGTAACTGTGAAAGCA	0.473																																																0													160	146	150					3																	46399846		1568	3582	5150	SO:0001583	missense	729230				CCDS43078.1, CCDS46813.1	3p21	2012-08-08			ENSG00000121807	ENSG00000121807		"GPCR / Class A : Chemokine receptors : C-C motif", "CD molecules"	1603	protein-coding gene	gene with protein product		601267		CMKBR2		8146186	Standard	NM_001123041		Approved	CC-CKR-2, CKR2, MCP-1-R, CD192, FLJ78302	uc003cpn.4	P41597	OTTHUMG00000156466	ENST00000400888.2:c.828C>A	3.37:g.46399846C>A	ENSP00000383681:p.Asn276Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVQ3|B2RMT0|Q4VBL2	Missense_Mutation	SNP	ENST00000400888.2	37	CCDS43078.1	.	.	.	.	.	.	.	.	.	.	C	12.33	1.906713	0.33628	.	.	ENSG00000121807	ENST00000445132;ENST00000292301;ENST00000400888	T;T;T	0.69306	2.06;-0.39;-0.39	4.95	3.08	0.35506	GPCR, rhodopsin-like superfamily (1);	0.402277	0.25383	N	0.031073	T	0.71221	0.3314	M	0.77820	2.39	0.22401	N	0.999136	B;P	0.38420	0.21;0.63	P;B	0.46208	0.507;0.41	T	0.65307	-0.6200	10	0.66056	D	0.02	.	9.0876	0.36590	0.0:0.6655:0.0:0.3345	.	276;276	P41597;Q4VBL2	CCR2_HUMAN;.	K	276	ENSP00000399285:N276K;ENSP00000292301:N276K;ENSP00000383681:N276K	ENSP00000292301:N276K	N	+	3	2	CCR2	46374850	0.000000	0.05858	0.333000	0.25482	0.497000	0.33675	-0.329000	0.07935	1.197000	0.43143	0.585000	0.79938	AAC		0.473	CCR2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000344292.1	NM_000647		A	46399846	C	A	46399846	3	1	676	1	0	0	0	0	1	0	0	0	2943	564	20	4	830	4	CCR2	3	46399846	Missense_Mutation	SNP	C	TCGA-KO-8405-01A-11D-2310-10		46399846	151622584	13	43607										
OTOP1	133060	ucsc.edu	37	chr4	4228424	4228425	+	Missense_Mutation	DNP	TT	TT	CC													0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ctgctcagcatctcggccagTttctgtgggacgctggcgcg					rs78657691		TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr4:4228424_4228425TT>CC	ENST00000296358.4	-	1	191_192	c.167_168AA>GG	c.(166-168)aAA>aGG	p.K56R		NM_177998.1	NP_819056.1	Q7RTM1	OTOP1_HUMAN	otopetrin 1	56					biomineral tissue development (GO:0031214)|detection of gravity (GO:0009590)|inner ear morphogenesis (GO:0042472)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)				NS(1)|breast(1)|central_nervous_system(2)|endometrium(1)|kidney(2)|large_intestine(3)|liver(4)|lung(14)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	34				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TCTCGGCCAGTTTCTGTGGGAC	0.738																																																0																																										SO:0001583	missense	133060			BK000653	CCDS3372.1	4p16.2	2008-02-05			ENSG00000163982	ENSG00000163982			19656	protein-coding gene	gene with protein product		607806				12651873	Standard	NM_177998		Approved		uc003ghp.1	Q7RTM1	OTTHUMG00000090301	ENST00000296358.4:c.167_168delinsCC	4.37:g.4228424_4228425delinsCC	ENSP00000296358:p.Lys56Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A1L476	Missense_Mutation	DNP	ENST00000296358.4	37	CCDS3372.1																																																																																				0.738	OTOP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206661.2	NM_177998		CC	4228425	TT	CC	4228424	3	2	676	1	0	0	0	0	1	0	0	0	11312	1722	60	3	1694	3	OTOP1	4	4228424	Missense_Mutation	DNP	TT	TCGA-KO-8405-01A-11D-2310-10		4228424	186925852	14	43608										
FBXW7	55294	hgsc.bcm.edu	37	chr4	153247276	153247276	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	taacaaccctcctgccatcaTattgaacacagcggactgct	6	14	1	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr4:153247276T>C	ENST00000281708.4	-	10	2755	c.1526A>G	c.(1525-1527)tAt>tGt	p.Y509C	FBXW7_ENST00000393956.3_Missense_Mutation_p.Y333C|FBXW7_ENST00000263981.5_Missense_Mutation_p.Y429C|FBXW7_ENST00000603548.1_Missense_Mutation_p.Y509C|FBXW7_ENST00000603841.1_Missense_Mutation_p.Y509C|FBXW7_ENST00000296555.5_Missense_Mutation_p.Y391C	NM_033632.3	NP_361014.1	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7, E3 ubiquitin protein ligase	509					cellular response to DNA damage stimulus (GO:0006974)|cellular response to UV (GO:0034644)|lipid homeostasis (GO:0055088)|lung development (GO:0030324)|negative regulation of DNA endoreduplication (GO:0032876)|negative regulation of hepatocyte proliferation (GO:2000346)|negative regulation of Notch signaling pathway (GO:0045746)|negative regulation of SREBP signaling pathway (GO:2000639)|negative regulation of triglyceride biosynthetic process (GO:0010868)|Notch signaling pathway (GO:0007219)|positive regulation of epidermal growth factor-activated receptor activity (GO:0045741)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway (GO:1903378)|positive regulation of proteasomal protein catabolic process (GO:1901800)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of ubiquitin-protein transferase activity (GO:0051443)|protein stabilization (GO:0050821)|protein ubiquitination (GO:0016567)|regulation of cell cycle G1/S phase transition (GO:1902806)|regulation of lipid storage (GO:0010883)|regulation of protein localization (GO:0032880)|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146)|sister chromatid cohesion (GO:0007062)|vasculature development (GO:0001944)|vasculogenesis (GO:0001570)|viral process (GO:0016032)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|Parkin-FBXW7-Cul1 ubiquitin ligase complex (GO:1990452)|protein complex (GO:0043234)|SCF ubiquitin ligase complex (GO:0019005)	cyclin binding (GO:0030332)|identical protein binding (GO:0042802)|protein binding, bridging (GO:0030674)|sequence-specific DNA binding transcription factor activity (GO:0003700)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activator activity (GO:0097027)	p.Y429F(1)|p.Y509F(1)|p.?(1)		NS(1)|biliary_tract(8)|bone(1)|breast(5)|central_nervous_system(6)|cervix(2)|endometrium(36)|haematopoietic_and_lymphoid_tissue(159)|kidney(6)|large_intestine(155)|lung(31)|ovary(10)|pancreas(3)|prostate(2)|skin(6)|stomach(16)|upper_aerodigestive_tract(9)|urinary_tract(6)	462	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				CCTGCCATCATATTGAACACA	0.468			"Mis, N, D, F"		"colorectal, endometrial, T-ALL"																																		Rec	yes		4	4q31.3	55294	"F-box and WD-40 domain protein 7 (archipelago homolog, Drosophila)"		"E, L"	3	Substitution - Missense(2)|Unknown(1)	lung(2)|haematopoietic_and_lymphoid_tissue(1)											171	164	167					4																	153247276		2203	4300	6503	SO:0001583	missense	55294			AF411971	CCDS3777.1, CCDS3778.1, CCDS34078.1, CCDS64082.1	4q31.23	2013-01-09	2012-02-23					"F-boxes / WD-40 domains", "WD repeat domain containing"	16712	protein-coding gene	gene with protein product	"archipelago homolog (Drosophila)"	606278	"F-box and WD-40 domain protein 7 (archipelago homolog, Drosophila)", "F-box and WD repeat domain containing 7"			10531037, 11425854	Standard	NM_018315		Approved	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6	uc003ims.3	Q969H0		ENST00000281708.4:c.1526A>G	4.37:g.153247276T>C	ENSP00000281708:p.Tyr509Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLP9|Q68DR0|Q96A16|Q96LE0|Q96RI2|Q9NUX6	Missense_Mutation	SNP	ENST00000281708.4	37	CCDS3777.1	.	.	.	.	.	.	.	.	.	.	T	20.5	4.002642	0.74932	.	.	ENSG00000109670	ENST00000281708;ENST00000296555;ENST00000263981;ENST00000393956	T;T;T;T	0.60040	0.22;0.22;0.22;0.22	5.72	5.72	0.89469	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.054216	0.85682	D	0.000000	T	0.73946	0.3652	M	0.64170	1.965	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.87578	0.994;0.998;0.996;0.996	T	0.75377	-0.3339	10	0.56958	D	0.05	-21.1615	16.2962	0.82776	0.0:0.0:0.0:1.0	.	333;509;391;429	B7Z2C8;Q969H0;Q969H0-4;Q969H0-2	.;FBXW7_HUMAN;.;.	C	509;391;429;333	ENSP00000281708:Y509C;ENSP00000296555:Y391C;ENSP00000263981:Y429C;ENSP00000377528:Y333C	ENSP00000263981:Y429C	Y	-	2	0	FBXW7	153466726	1.000000	0.71417	1.000000	0.80357	0.955000	0.61496	7.965000	0.87945	2.304000	0.77564	0.528000	0.53228	TAT		0.468	FBXW7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000469956.1			C	153247276	T	C	153247276	3	2	676	1	0	0	0	0	1	0	0	0	5776	1406	49	3	609	3	FBXW7	4	153247276	Missense_Mutation	SNP	T	TCGA-KO-8405-01A-11D-2310-10	149018852	153247276	37907000	15	43609										
PTCD2	79810	ucsc.edu	37	chr5	71638808	71638808	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	gaatgagatggcaaaagctgTgtccattttttctcaaatca	8	7	2	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr5:71638808T>C	ENST00000380639.5	+	8	789	c.773T>C	c.(772-774)gTg>gCg	p.V258A	PTCD2_ENST00000460837.2_3'UTR|PTCD2_ENST00000543322.1_3'UTR|PTCD2_ENST00000536805.1_Missense_Mutation_p.V86A|PTCD2_ENST00000503868.1_Missense_Mutation_p.V149A	NM_024754.3	NP_079030.3	Q8WV60	PTCD2_HUMAN	pentatricopeptide repeat domain 2	258					kidney development (GO:0001822)|liver development (GO:0001889)|mitochondrion organization (GO:0007005)|mRNA processing (GO:0006397)|muscle fiber development (GO:0048747)|regulation of mRNA processing (GO:0050684)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)	mitochondrion (GO:0005739)	poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(6)|lung(1)|skin(1)	11		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)		GCAAAAGCTGTGTCCATTTTT	0.318																																																0													81	77	78					5																	71638808		2203	4297	6500	SO:0001583	missense	79810			BC018720	CCDS4014.2, CCDS68891.1, CCDS68892.1, CCDS75258.1	5q13.2	2008-02-05			ENSG00000049883	ENSG00000049883			25734	protein-coding gene	gene with protein product		615484				12477932	Standard	XM_005248601		Approved	FLJ12598	uc003kcb.3	Q8WV60	OTTHUMG00000100953	ENST00000380639.5:c.773T>C	5.37:g.71638808T>C	ENSP00000370013:p.Val258Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z5D0|B7Z8L7|E9PFV7|Q6IA65|Q9H9R0	Missense_Mutation	SNP	ENST00000380639.5	37	CCDS4014.2	.	.	.	.	.	.	.	.	.	.	T	0.453	-0.893057	0.02491	.	.	ENSG00000049883	ENST00000380639;ENST00000503868;ENST00000510676;ENST00000536805	T;T;T;T	0.42900	0.96;0.96;0.96;0.96	5.47	-5.28	0.02755	.	1.923100	0.02223	N	0.064192	T	0.32010	0.0815	L	0.44542	1.39	0.09310	N	1	B;B;B	0.06786	0.001;0.0;0.0	B;B;B	0.04013	0.001;0.0;0.0	T	0.15983	-1.0418	10	0.17832	T	0.49	.	8.9156	0.35579	0.0:0.5064:0.1812:0.3123	.	149;86;258	E9PFV7;B7Z8L7;Q8WV60	.;.;PTCD2_HUMAN	A	258;149;87;86	ENSP00000370013:V258A;ENSP00000427349:V149A;ENSP00000426295:V87A;ENSP00000444772:V86A	ENSP00000308948:V258A	V	+	2	0	PTCD2	71674564	0.000000	0.05858	0.000000	0.03702	0.049000	0.14656	-0.552000	0.06020	-0.792000	0.04480	-0.334000	0.08254	GTG		0.318	PTCD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000218562.6	NM_024754		C	71638808	T	C	71638808	3	2	676	1	0	0	0	0	1	0	0	0	12738	1696	59	3	803	3	PTCD2	5	71638808	Missense_Mutation	SNP	T	TCGA-KO-8405-01A-11D-2310-10		71638808	109276452	16	43610										
TIMD4	91937	broad.mit.edu	37	chr5	156378731	156378733	+	In_Frame_Del	DEL	GGT	GGT	-													0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ggggttgttgtcatttgtcgGgtggtggtggggcttgttgt							TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	GGT	GGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr5:156378731_156378733delGGT	ENST00000274532.2	-	3	525_527	c.469_471delACC	c.(469-471)accdel	p.T157del	TIMD4_ENST00000407087.3_In_Frame_Del_p.T157del	NM_138379.2	NP_612388.2	Q96H15	TIMD4_HUMAN	T-cell immunoglobulin and mucin domain containing 4	157	Thr-rich.					integral component of membrane (GO:0016021)				NS(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(23)|ovary(2)|skin(2)	37	Renal(175;0.00488)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TCATTTGTCGGGTGGTGGTGGGG	0.527																																																0																																										SO:0001651	inframe_deletion	91937			BC008988	CCDS4332.1, CCDS54943.1	5q33.3	2013-01-11			ENSG00000145850	ENSG00000145850		"Immunoglobulin superfamily / V-set domain containing"	25132	protein-coding gene	gene with protein product		610096				12477932	Standard	NM_001146726		Approved		uc003lwh.2	Q96H15	OTTHUMG00000130244	ENST00000274532.2:c.469_471delACC	5.37:g.156378737_156378739delGGT	ENSP00000274532:p.Thr157del	Somatic		WXS	Illumina HiSeq	Phase_I	B5MCL9	In_Frame_Del	DEL	ENST00000274532.2	37	CCDS4332.1																																																																																				0.527	TIMD4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252568.1	NM_138379		-	156378733	GGT	-	156378731	7	5	676	1	0	1	0	1	0	0	0	0	15915	1219	43	0	693	0	TIMD4	5	156378731	In_Frame_Del	DEL	GGT	TCGA-KO-8405-01A-11D-2310-10	84739923	156378731	24536529	17	43611										
NRSN1	140767	ucsc.edu	37	chr6	24146152	24146152	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	tttgtccagggttcaaaatgTccagcctctactggcaacct	8	12	2	0			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr6:24146152T>C	ENST00000378491.4	+	4	867	c.566T>C	c.(565-567)gTc>gCc	p.V189A		NM_080723.4	NP_542454.3			neurensin 1											breast(1)|endometrium(2)|large_intestine(2)|lung(15)|skin(1)|upper_aerodigestive_tract(1)	22						GTTCAAAATGTCCAGCCTCTA	0.488																																																0													59	66	64					6																	24146152		2203	4300	6503	SO:0001583	missense	140767			AF418980	CCDS4549.1	6p22.1	2008-02-05	2006-07-04	2006-07-04	ENSG00000152954	ENSG00000152954			17881	protein-coding gene	gene with protein product			"vesicular membrane protein p24"	VMP		12463420	Standard	NM_080723		Approved	p24	uc010jpq.1	Q8IZ57	OTTHUMG00000016406	ENST00000378491.4:c.566T>C	6.37:g.24146152T>C	ENSP00000367752:p.Val189Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000378491.4	37	CCDS4549.1	.	.	.	.	.	.	.	.	.	.	T	18.53	3.644350	0.67244	.	.	ENSG00000152954	ENST00000378491	T	0.22743	1.94	5.35	5.35	0.76521	.	0.116292	0.64402	D	0.000016	T	0.14657	0.0354	M	0.66939	2.045	0.80722	D	1	P	0.40534	0.72	B	0.35278	0.199	T	0.03555	-1.1025	10	0.87932	D	0	-15.1381	15.351	0.74384	0.0:0.0:0.0:1.0	.	189	Q8IZ57	NRSN1_HUMAN	A	189	ENSP00000367752:V189A	ENSP00000367752:V189A	V	+	2	0	NRSN1	24254131	1.000000	0.71417	0.998000	0.56505	0.921000	0.55340	7.451000	0.80668	2.027000	0.59764	0.528000	0.53228	GTC		0.488	NRSN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043866.1	NM_080723		C	24146152	T	C	24146152	3	2	676	1	0	0	0	0	1	0	0	0	10669	1667	58	3	572	3	NRSN1	6	24146152	Missense_Mutation	SNP	T	TCGA-KO-8405-01A-11D-2310-10		24146152	146968915	18	43612										
HLA-A	3105	mdanderson.org	37	chr6	29910801	29910801	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ctactacaaccagagcgaggCcggtgagtgaccccggccgg	14	14	0	3	rs1136692	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr6:29910801C>A	ENST00000396634.1	+	4	682	c.341C>A	c.(340-342)gCc>gAc	p.A114D	HLA-A_ENST00000376802.2_Missense_Mutation_p.A114D|HLA-A_ENST00000376806.5_Missense_Mutation_p.A114D|HLA-A_ENST00000376809.5_Missense_Mutation_p.A114D			P16189	1A31_HUMAN	major histocompatibility complex, class I, A	114	Alpha-1.		A -> D (in allele A*31:03).		antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	beta-2-microglobulin binding (GO:0030881)|peptide antigen binding (GO:0042605)|TAP binding (GO:0046977)			central_nervous_system(2)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	30						CAGAGCGAGGCCGGTGAGTGA	0.682									Osteosarcoma, Familial Clustering of;Naso-/Oropharyngeal/Laryngeal Cancer, Familial Clustering of;Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of	Multiple Myeloma(9;0.094)			a|||	1484	0.296326	0.2413	0.1744	5008	,	,		10398	0.3929		0.2475	False		,,,				2504	0.408															0								A	ASP/ALA	802,3598		84,634,1482	40	43	42		341	-6.5	0	6	dbSNP_131	42	2513,6069		461,1591,2239	no	missense	HLA-A	NM_002116.7	126	545,2225,3721	AA,AC,CC		29.2822,18.2273,25.5354	benign	114/366	29910801	3315,9667	2200	4291	6491	SO:0001583	missense	3105	Familial Cancer Database	Familial Osteogenic Sarcoma;incl.: Familial Head and Neck Cancer; ;Lichen Sclerosis, Familial	D32129	CCDS34373.1	6p21.3	2013-01-11			ENSG00000206503	ENSG00000206503		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4931	protein-coding gene	gene with protein product		142800				8838351	Standard	NM_001242758		Approved		uc003nol.3	P01891	OTTHUMG00000130501	ENST00000396634.1:c.341C>A	6.37:g.29910801C>A	ENSP00000379873:p.Ala114Asp	Somatic		WXS	Illumina HiSeq	Phase_I	O62924|O98009|O98137|Q8MHM1|Q9TPQ3|Q9TQ24|Q9UQU6|Q9UQU7	Missense_Mutation	SNP	ENST00000396634.1	37	CCDS34373.1	514	0.23534798534798534	95	0.19308943089430894	51	0.1408839779005525	175	0.30594405594405594	193	0.2546174142480211	.	7.188	0.590993	0.13812	0.182273	0.292822	ENSG00000206503	ENST00000396634;ENST00000376806;ENST00000376809;ENST00000355767;ENST00000376802	T;T;T;T	0.00009	9.49;9.49;9.49;9.49	3.57	-6.48	0.01896	MHC class I, alpha chain, alpha1/alpha2 (2);MHC classes I/II-like antigen recognition protein (2);MHC class I-like antigen recognition (2);	.	.	.	.	T	0.00039	0.0001	M	0.73319	2.225	0.80722	P	0.0	B;B;B;B	0.02656	0.0;0.0;0.0;0.0	B;B;B;B	0.06405	0.002;0.0;0.0;0.0	T	0.14783	-1.0460	8	0.37606	T	0.19	.	7.6397	0.28286	0.3552:0.3375:0.3073:0.0	rs1136692;rs2231013;rs2308561;rs3177886;rs3179185;rs12721825;rs17433758;rs41557214	114;114;114;114	Q5SRN7;P16188;Q5SRN5;P04439	.;1A30_HUMAN;.;1A03_HUMAN	D	114	ENSP00000379873:A114D;ENSP00000366002:A114D;ENSP00000366005:A114D;ENSP00000365998:A114D	ENSP00000348012:A114D	A	+	2	0	HLA-A	30018780	0.000000	0.05858	0.002000	0.10522	0.012000	0.07955	-1.881000	0.01626	-1.395000	0.02074	-4.609000	0.00004	GCC		0.682	HLA-A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252909.1	NM_002116		A	29910801	C	A	29910801	3	1	676	1	0	0	0	0	1	0	0	0	7202	739	26	4	347	4	HLA-A	6	29910801	Missense_Mutation	SNP	C	TCGA-KO-8405-01A-11D-2310-10	5764649	29910801	141204266	19	43613										
RNF39	80352	mdanderson.org	37	chr6	30043171	30043171	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ggacacggcaggccgcagcaGggacaggcggtgggggaagc	21	10	0	0	rs9261304	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr6:30043171G>C	ENST00000244360.6	-	1	493	c.396C>G	c.(394-396)ccC>ccG	p.P132P	RNF39_ENST00000376751.3_Silent_p.P132P	NM_025236.3	NP_079512.2	Q9H2S5	RNF39_HUMAN	ring finger protein 39	132						cytoplasm (GO:0005737)	zinc ion binding (GO:0008270)										GGCCGCAGCAGGGACAGGCGG	0.721													g|||	207	0.0413339	0.0499	0.0403	5008	,	,		11706	0.0357		0.0507	False		,,,				2504	0.0266				NSCLC(8;188 360 1520 20207 31481)											0								G	,	120,3262		0,120,1571	4	5	4		396,396	0.7	0.9	6	dbSNP_118	4	303,6971		5,293,3339	no	coding-synonymous,coding-synonymous	RNF39	NM_025236.3,NM_170769.2	,	5,413,4910	CC,CG,GG		4.1655,3.5482,3.9696	,	132/421,132/355	30043171	423,10233	1691	3637	5328	SO:0001819	synonymous_variant	80352			AF238315	CCDS4673.1, CCDS4674.1	6p21.3	2013-01-09			ENSG00000204618	ENSG00000204618		"RING-type (C3HC4) zinc fingers"	18064	protein-coding gene	gene with protein product		607524				11130983, 11716498	Standard	NM_170769		Approved	HZFw1, LIRF	uc003npe.3	Q9H2S5	OTTHUMG00000031288	ENST00000244360.6:c.396C>G	6.37:g.30043171G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2BEK3|A6NCD6|B0S858|Q5SPM8|Q5SPM9|Q5SPN0|Q5SRJ9|Q5SRK1|Q5SS29|Q9H2S3|Q9H2S4	Silent	SNP	ENST00000244360.6	37	CCDS4673.1																																																																																				0.721	RNF39-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000076625.3	NM_170769		C	30043171	G	C	30043171	2	2	676	1	0	0	0	0	0	0	0	1	13504	987	35	4		4	RNF39	6	30043171	Silent	SNP	G	TCGA-KO-8405-01A-11D-2310-10	132370	30043171	141071896	20	43614										
HLA-B	3106	mdanderson.org	37	chr6	31324595	31324595	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	tgctctatccacggcgcccgCggctcctctctcggactcgc	10	19	2	0	rs1050543|rs281864598	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr6:31324595C>G	ENST00000412585.2	-	2	241	c.213G>C	c.(211-213)ccG>ccC	p.P71P		NM_005514.6	NP_005505.2	P30486	1B48_HUMAN	major histocompatibility complex, class I, B	71	Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|immune response (GO:0006955)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|viral process (GO:0016032)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|MHC class I protein complex (GO:0042612)	peptide antigen binding (GO:0042605)			endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(4)|lung(4)|prostate(1)|upper_aerodigestive_tract(2)	27						ACGGCGCCCGCGGCTCCTCTC	0.672									Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of				.|||	2476	0.494409	0.4902	0.4539	5008	,	,		8006	0.5417		0.3718	False		,,,				2504	0.6063															0								C		1038,3194		276,486,1354	35	35	35		213	0.2	0.6	6	dbSNP_134	35	1583,6613		422,739,2937	no	coding-synonymous	HLA-B	NM_005514.6		698,1225,4291	GG,GC,CC		19.3143,24.5274,21.0895		71/363	31324595	2621,9807	2116	4098	6214	SO:0001819	synonymous_variant	3106	Familial Cancer Database	;Lichen Sclerosis, Familial	M15470	CCDS34394.1	6p21.3	2013-01-11			ENSG00000234745	ENSG00000234745		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4932	protein-coding gene	gene with protein product		142830	"ankylosing spondylitis"	AS		3459708	Standard	NM_005514		Approved		uc011imz.2	P01889	OTTHUMG00000031153	ENST00000412585.2:c.213G>C	6.37:g.31324595C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q29764	Silent	SNP	ENST00000412585.2	37	CCDS34394.1																																																																																				0.672	HLA-B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076280.4	NM_005514		G	31324595	C	G	31324595	2	3	676	1	0	0	0	0	0	0	0	1	7203	755	27	4		4	HLA-B	6	31324595	Silent	SNP	C	TCGA-KO-8405-01A-11D-2310-10	1281424	31324595	139790472	21	43615										
HSP90AB1	3326	mdanderson.org	37	chr6	44221262	44221262	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	agtggcagcagaggaacccaAtgctgcagttcctgatgaga	13	9	0	3	rs201760495	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr6:44221262A>G	ENST00000371554.1	+	12	2316	c.2102A>G	c.(2101-2103)aAt>aGt	p.N701S	SLC35B2_ENST00000495706.1_5'Flank|MIR4647_ENST00000583964.1_RNA|HSP90AB1_ENST00000371646.5_Missense_Mutation_p.N701S|HSP90AB1_ENST00000353801.3_Missense_Mutation_p.N701S			P08238	HS90B_HUMAN	heat shock protein 90kDa alpha (cytosolic), class B member 1	701					axon guidance (GO:0007411)|cellular response to interleukin-4 (GO:0071353)|cellular response to organic cyclic compound (GO:0071407)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032435)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|placenta development (GO:0001890)|positive regulation of cell size (GO:0045793)|positive regulation of nitric oxide biosynthetic process (GO:0045429)|positive regulation of protein binding (GO:0032092)|positive regulation of protein import into nucleus, translocation (GO:0033160)|positive regulation of protein serine/threonine kinase activity (GO:0071902)|protein folding (GO:0006457)|regulation of interferon-gamma-mediated signaling pathway (GO:0060334)|regulation of type I interferon-mediated signaling pathway (GO:0060338)|response to salt stress (GO:0009651)|response to unfolded protein (GO:0006986)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|brush border membrane (GO:0031526)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|inclusion body (GO:0016234)|membrane (GO:0016020)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|CTP binding (GO:0002135)|dATP binding (GO:0032564)|double-stranded RNA binding (GO:0003725)|GTP binding (GO:0005525)|MHC class II protein complex binding (GO:0023026)|nitric-oxide synthase regulator activity (GO:0030235)|poly(A) RNA binding (GO:0044822)|TPR domain binding (GO:0030911)|UTP binding (GO:0002134)			NS(1)|breast(1)|endometrium(6)|kidney(2)|large_intestine(5)|lung(12)|prostate(2)|skin(2)|urinary_tract(2)	33	all_cancers(18;1.7e-05)|all_lung(25;0.00747)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			GAGGAACCCAATGCTGCAGTT	0.453											OREG0017471	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													75	76	76					6																	44221262		2203	4300	6503	SO:0001583	missense	3326			AF275719	CCDS4909.1	6p12	2011-09-02	2006-02-24	2006-02-24	ENSG00000096384	ENSG00000096384		"Heat shock proteins / HSPC"	5258	protein-coding gene	gene with protein product		140572	"heat shock 90kD protein 1, beta", "heat shock 90kDa protein 1, beta"	HSPC2, HSPCB		2768249, 16269234	Standard	NM_001271969		Approved		uc031sor.1	P08238	OTTHUMG00000014761	ENST00000371554.1:c.2102A>G	6.37:g.44221262A>G	ENSP00000360609:p.Asn701Ser	Somatic	922	WXS	Illumina HiSeq	Phase_I	B2R5P0|Q5T9W7|Q9NQW0|Q9NTK6	Missense_Mutation	SNP	ENST00000371554.1	37	CCDS4909.1	.	.	.	.	.	.	.	.	.	.	G	3.876	-0.026861	0.07589	.	.	ENSG00000096384	ENST00000371646;ENST00000353801;ENST00000371554	T;T;T	0.08807	3.05;3.05;3.05	3.91	3.91	0.45181	.	0.272984	0.27901	N	0.017393	T	0.00580	0.0019	N	0.01109	-1.01	0.09310	N	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.08055	0.003;0.001;0.001	T	0.47749	-0.9093	10	0.02654	T	1	-8.621	7.7636	0.28968	0.0881:0.2939:0.618:0.0	.	663;691;701	B4DMA2;B4DGL0;P08238	.;.;HS90B_HUMAN	S	701	ENSP00000360709:N701S;ENSP00000325875:N701S;ENSP00000360609:N701S	ENSP00000325875:N701S	N	+	2	0	HSP90AB1	44329240	1.000000	0.71417	1.000000	0.80357	0.877000	0.50540	2.913000	0.48790	1.010000	0.39314	-0.166000	0.13349	AAT		0.453	HSP90AB1-005	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040730.1	NM_007355		G	44221262	A	G	44221262	3	3	676	1	0	0	0	0	1	0	0	0	7409	101	4	3	2144	3	HSP90AB1	6	44221262	Missense_Mutation	SNP	A	TCGA-KO-8405-01A-11D-2310-10	12896667	44221262	126893805	22	43616										
ROS1	6098	bcgsc.ca	37	chr6	117718246	117718246	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	cagtgtcgggacttgagctcTcaatattcctaatcaaaggt	9	9	2	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr6:117718246T>C	ENST00000368508.3	-	7	809	c.611A>G	c.(610-612)gAg>gGg	p.E204G	ROS1_ENST00000368507.3_Missense_Mutation_p.E213G|GOPC_ENST00000467125.1_Intron	NM_002944.2	NP_002935.2	P08922	ROS1_HUMAN	ROS proto-oncogene 1 , receptor tyrosine kinase	204	Fibronectin type-III 2. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell differentiation (GO:0030154)|cell growth (GO:0016049)|cell proliferation (GO:0008283)|columnar/cuboidal epithelial cell development (GO:0002066)|negative regulation of gene expression (GO:0010629)|peptidyl-tyrosine phosphorylation (GO:0018108)|protein phosphorylation (GO:0006468)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of phosphate transport (GO:0010966)|regulation of TOR signaling (GO:0032006)|spermatogenesis (GO:0007283)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|protein phosphatase binding (GO:0019903)|protein tyrosine kinase activity (GO:0004713)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)		TPM3_ENST00000368530/ROS1(4)|LRIG3/ROS1(2)|CD74_ENST00000009530/ROS1(32)|SLC34A2/ROS1(14)|EZR/ROS1(4)|GOPC/ROS1(14)|SDC4/ROS1(7)	NS(2)|breast(7)|central_nervous_system(5)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(28)|lung(56)|ovary(8)|prostate(5)|skin(19)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(3)	162		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)		ACTTGAGCTCTCAATATTCCT	0.403			T	"GOPC, SDC4, SLC34A2, EZR, LRIG3"	"glioblastoma, NSCLC"																																		Dom	yes		6	6q22	6098	v-ros UR2 sarcoma virus oncogene homolog 1 (avian)		"O, E"	0													90	90	90					6																	117718246		2203	4300	6503	SO:0001583	missense	6098			M13599	CCDS5116.1	6q21-q22	2014-06-26	2014-06-26		ENSG00000047936	ENSG00000047936		"Fibronectin type III domain containing"	10261	protein-coding gene	gene with protein product		165020	"v-ros avian UR2 sarcoma virus oncogene homolog 1", "v-ros UR2 sarcoma virus oncogene homolog 1 (avian)", "c-ros oncogene 1 , receptor tyrosine kinase"			1611909	Standard	NM_002944		Approved	MCF3, ROS, c-ros-1	uc003pxp.1	P08922	OTTHUMG00000016188	ENST00000368508.3:c.611A>G	6.37:g.117718246T>C	ENSP00000357494:p.Glu204Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q15368|Q5TDB5	Missense_Mutation	SNP	ENST00000368508.3	37	CCDS5116.1	.	.	.	.	.	.	.	.	.	.	T	14.63	2.592321	0.46214	.	.	ENSG00000047936	ENST00000368508;ENST00000368507	T;T	0.58506	0.33;0.33	5.54	4.37	0.52481	.	0.341658	0.26808	N	0.022397	T	0.29850	0.0746	L	0.47716	1.5	0.24776	N	0.992846	P	0.34934	0.476	B	0.34873	0.191	T	0.06844	-1.0804	10	0.35671	T	0.21	.	7.8253	0.29311	0.0:0.1551:0.0:0.8449	.	204	P08922	ROS1_HUMAN	G	204;213	ENSP00000357494:E204G;ENSP00000357493:E213G	ENSP00000357493:E213G	E	-	2	0	ROS1	117824939	0.652000	0.27349	0.837000	0.33122	0.996000	0.88848	2.332000	0.43903	2.229000	0.72834	0.528000	0.53228	GAG		0.403	ROS1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000043464.1			C	117718246	T	C	117718246	3	2	676	1	0	0	0	0	1	0	0	0	13544	1551	54	3	6580	3	ROS1	6	117718246	Missense_Mutation	SNP	T	TCGA-KO-8405-01A-11D-2310-10	73496984	117718246	53396821	23	43617										
C7orf50	84310	ucsc.edu;bcgsc.ca	37	chr7	1049662	1049662	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ggccacaaggcctgcctcccGcagacgctgcctctcctctt	9	19	2	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr7:1049662G>A	ENST00000397098.3	-	3	1173	c.247C>T	c.(247-249)Cgg>Tgg	p.R83W	C7orf50_ENST00000357429.6_Missense_Mutation_p.R83W|C7orf50_ENST00000397100.2_Missense_Mutation_p.R83W|C7orf50_ENST00000488073.1_5'UTR			Q9BRJ6	CG050_HUMAN	chromosome 7 open reading frame 50	83							poly(A) RNA binding (GO:0044822)			kidney(1)|large_intestine(1)|lung(3)|ovary(1)	6		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0216)|OV - Ovarian serous cystadenocarcinoma(56;1.3e-15)		CCTGCCTCCCGCAGACGCTGC	0.682																																																0													56	49	51					7																	1049662		2198	4298	6496	SO:0001583	missense	84310			BC006224	CCDS5320.1	7p22.3	2011-11-25			ENSG00000146540	ENSG00000146540			22421	protein-coding gene	gene with protein product							Standard	NM_032350		Approved	MGC11257, YCR016W	uc011jvu.1	Q9BRJ6	OTTHUMG00000151477	ENST00000397098.3:c.247C>T	7.37:g.1049662G>A	ENSP00000380286:p.Arg83Trp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000397098.3	37	CCDS5320.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	g|g	10.32|10.32	1.316882|1.316882	0.23908|0.23908	.|.	.|.	ENSG00000146540|ENSG00000146540	ENST00000412051|ENST00000397100;ENST00000397098;ENST00000357429;ENST00000444428;ENST00000491163	.|.	.|.	.|.	3.65|3.65	0.353|0.353	0.16058|0.16058	.|.	.|0.075435	.|0.50627	.|D	.|0.000114	T|T	0.47619|0.47619	0.1455|0.1455	L|L	0.50333|0.50333	1.59|1.59	0.09310|0.09310	N|N	1|1	.|D	.|0.76494	.|0.999	.|P	.|0.60473	.|0.875	T|T	0.31779|0.31779	-0.9931|-0.9931	5|9	.|0.66056	.|D	.|0.02	-10.5968|-10.5968	7.3918|7.3918	0.26913|0.26913	0.0:0.1567:0.524:0.3193|0.0:0.1567:0.524:0.3193	.|.	.|83	.|Q9BRJ6	.|CG050_HUMAN	V|W	67|83;83;83;51;83	.|.	.|ENSP00000350011:R83W	A|R	-|-	2|1	0|2	C7orf50|C7orf50	1016188|1016188	0.000000|0.000000	0.05858|0.05858	0.076000|0.076000	0.20297|0.20297	0.104000|0.104000	0.19210|0.19210	-0.583000|-0.583000	0.05807|0.05807	0.297000|0.297000	0.22615|0.22615	0.457000|0.457000	0.33378|0.33378	GCG|CGG		0.682	C7orf50-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322817.3	NM_032350		A	1049662	G	A	1049662	3	1	676	1	0	0	0	0	1	0	0	0	2401	1086	38	1	349	1	C7orf50	7	1049662	Missense_Mutation	SNP	G	TCGA-KO-8405-01A-11D-2310-10		1049662	158089001	24	43618										
VPS37D	155382	ucsc.edu	37	chr7	73085354	73085354	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	cccggcccaggagcagatggAgcagctgctgctcggggagc	17	13	0	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr7:73085354A>G	ENST00000324941.4	+	4	538	c.404A>G	c.(403-405)gAg>gGg	p.E135G	VPS37D_ENST00000451519.1_Missense_Mutation_p.E50G	NM_001077621.1	NP_001071089.1			vacuolar protein sorting 37 homolog D (S. cerevisiae)											central_nervous_system(1)|ovary(1)	2		Lung NSC(55;0.0908)|all_lung(88;0.198)				GAGCAGATGGAGCAGCTGCTG	0.687																																																0													27	30	29					7																	73085354		2041	4162	6203	SO:0001583	missense	155382			AY081952	CCDS43596.1	7q11.23	2007-07-27	2006-04-04	2005-08-18	ENSG00000176428	ENSG00000176428			18287	protein-coding gene	gene with protein product		610039	"Williams Beuren syndrome chromosome region 24", "vacuolar protein sorting 37D (yeast)"	WBSCR24		15218037	Standard	NM_001077621		Approved	MGC35352	uc003tyr.3	Q86XT2	OTTHUMG00000157227	ENST00000324941.4:c.404A>G	7.37:g.73085354A>G	ENSP00000320416:p.Glu135Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000324941.4	37	CCDS43596.1	.	.	.	.	.	.	.	.	.	.	A	15.80	2.940897	0.52972	.	.	ENSG00000176428	ENST00000324941;ENST00000451519	T;T	0.80738	-1.41;-1.41	4.18	4.18	0.49190	Modifier of rudimentary, Modr (2);	0.084599	0.44285	D	0.000467	D	0.86661	0.5986	M	0.67397	2.05	0.45227	D	0.998237	D	0.76494	0.999	D	0.79108	0.992	D	0.87301	0.2305	10	0.87932	D	0	.	9.5294	0.39185	1.0:0.0:0.0:0.0	.	135	Q86XT2	VP37D_HUMAN	G	135;50	ENSP00000320416:E135G;ENSP00000413337:E50G	ENSP00000320416:E135G	E	+	2	0	VPS37D	72723290	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.238000	0.43070	1.743000	0.51761	0.459000	0.35465	GAG		0.687	VPS37D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348064.1	NM_152560		G	73085354	A	G	73085354	3	3	676	1	0	0	0	0	1	0	0	0	17220	304	11	3	418	3	VPS37D	7	73085354	Missense_Mutation	SNP	A	TCGA-KO-8405-01A-11D-2310-10	72035692	73085354	86053309	25	43619										
PRSS3	5646	mdanderson.org	37	chr9	33796734	33796734	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ggtgtccctgaattctggctCccacttctgcggtggctccc	11	15	2	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr9:33796734C>A	ENST00000361005.5	+	2	305	c.305C>A	c.(304-306)tCc>tAc	p.S102Y	PRSS3_ENST00000342836.4_Missense_Mutation_p.S59Y|PRSS3_ENST00000379405.3_Missense_Mutation_p.S45Y|RP11-133O22.6_ENST00000454429.2_RNA|PRSS3_ENST00000429677.3_Missense_Mutation_p.S38Y	NM_007343.3	NP_031369	P35030	TRY3_HUMAN	protease, serine, 3	102	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|endothelial cell migration (GO:0043542)|innate immune response (GO:0045087)|proteolysis (GO:0006508)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)|zymogen activation (GO:0031638)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			large_intestine(3)|lung(4)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	13			LUSC - Lung squamous cell carcinoma(29;0.0176)			AATTCTGGCTCCCACTTCTGC	0.557																																																0													137	141	140					9																	33796734		2203	4300	6503	SO:0001583	missense	5646				CCDS6545.1, CCDS47958.1, CCDS56570.1, CCDS56571.1	9p13	2010-05-07	2008-03-11		ENSG00000010438	ENSG00000010438	3.4.21.4	"Serine peptidases / Serine peptidases"	9486	protein-coding gene	gene with protein product	"mesotrypsin"	613578	"protease, serine, 4 (trypsin 4, brain)", "protease, serine, 3 (mesotrypsin)"	PRSS4		2326201, 8294000	Standard	NM_002771		Approved	TRY3, TRY4	uc003ztj.4	P35030	OTTHUMG00000019798	ENST00000361005.5:c.305C>A	9.37:g.33796734C>A	ENSP00000354280:p.Ser102Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A8CED1|A8CED3|A9Z1Y4|E7ES07|F8W7P3|P15951|Q15665|Q5VXV0|Q6ISJ4|Q9UQV3	Missense_Mutation	SNP	ENST00000361005.5	37	CCDS47958.1	.	.	.	.	.	.	.	.	.	.	C	0.004	-2.285213	0.00251	.	.	ENSG00000010438	ENST00000361005;ENST00000457896;ENST00000342836;ENST00000429677;ENST00000379405	D;D;D;D;D	0.89939	-2.59;-2.59;-2.59;-2.59;-2.59	3.21	2.03	0.26663	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	0.242652	0.43416	N	0.000563	T	0.79364	0.4433	L	0.42008	1.315	0.21579	N	0.999634	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.04013	0.0;0.001;0.0	T	0.58612	-0.7606	10	0.02654	T	1	.	7.8678	0.29547	0.7856:0.2143:0.0:0.0	.	45;102;59	P35030-3;P35030;P35030-4	.;TRY3_HUMAN;.	Y	102;57;59;38;45	ENSP00000354280:S102Y;ENSP00000401249:S57Y;ENSP00000340889:S59Y;ENSP00000401828:S38Y;ENSP00000368715:S45Y	ENSP00000340889:S59Y	S	+	2	0	PRSS3	33786734	1.000000	0.71417	0.925000	0.36789	0.028000	0.11728	4.228000	0.58619	0.284000	0.22305	-0.886000	0.02939	TCC		0.557	PRSS3-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000052121.1	NM_002771		A	33796734	C	A	33796734	3	1	676	1	0	0	0	0	1	0	0	0	12632	855	30	4	355	4	PRSS3	9	33796734	Missense_Mutation	SNP	C	TCGA-KO-8405-01A-11D-2310-10		33796734	107416697	26	43620										
C9orf79	286234	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	90500243	90500243	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ccgtcccccagagctcccctCtacacaaccaggtgctgcct	7	20	1	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr9:90500243C>G	ENST00000325643.5	+	4	907	c.841C>G	c.(841-843)Cta>Gta	p.L281V		NM_178828.4	NP_849150.3	Q6ZUB1	S31E1_HUMAN	SPATA31 subfamily E, member 1	281	Pro-rich.				cell differentiation (GO:0030154)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)											GAGCTCCCCTCTACACAACCA	0.652																																																0													42	45	44					9																	90500243		2203	4300	6503	SO:0001583	missense	286234			AK093185	CCDS6676.1	9q22.1-q22.2	2012-10-12	2012-10-12	2012-10-12	ENSG00000177992	ENSG00000177992			26672	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 79", "family with sequence similarity 75, member E1"	C9orf79, FAM75E1			Standard	NM_178828		Approved	FLJ35866	uc004app.4	Q6ZUB1	OTTHUMG00000020157	ENST00000325643.5:c.841C>G	9.37:g.90500243C>G	ENSP00000322640:p.Leu281Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPB1|Q5SQC9|Q8NA41|Q8ND27	Missense_Mutation	SNP	ENST00000325643.5	37	CCDS6676.1	.	.	.	.	.	.	.	.	.	.	.	7.466	0.645757	0.14451	.	.	ENSG00000177992	ENST00000325643	T	0.03524	3.9	1.89	-0.762	0.11034	.	0.834804	0.09796	N	0.754810	T	0.02888	0.0086	L	0.39898	1.24	0.09310	N	1	P	0.43094	0.799	B	0.36378	0.223	T	0.45818	-0.9235	10	0.13108	T	0.6	.	8.1474	0.31119	0.0:0.3695:0.6305:0.0	.	281	Q6ZUB1	CI079_HUMAN	V	281	ENSP00000322640:L281V	ENSP00000322640:L281V	L	+	1	2	C9orf79	89690063	0.001000	0.12720	0.000000	0.03702	0.010000	0.07245	0.117000	0.15583	-0.158000	0.11040	0.455000	0.32223	CTA		0.652	SPATA31E1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052954.2	NM_178828		G	90500243	C	G	90500243	3	3	676	1	0	0	0	0	1	0	0	0	2499	912	32	4	855	4	C9orf79	9	90500243	Missense_Mutation	SNP	C	TCGA-KO-8405-01A-11D-2310-10	56703509	90500243	50713188	27	43621										
SARDH	1757	broad.mit.edu;bcgsc.ca	37	chr9	136550314	136550314	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	acgtggccagctggaacctaCcaggtgccctgcggctctca	12	15	1	0			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr9:136550314C>A	ENST00000371872.4	-	17	2421		c.e17+1		SARDH_ENST00000371868.1_Splice_Site|SARDH_ENST00000422262.2_Splice_Site|SARDH_ENST00000439388.1_Splice_Site	NM_007101.3	NP_009032.2	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase						glycine catabolic process (GO:0006546)	mitochondrion (GO:0005739)	aminomethyltransferase activity (GO:0004047)|sarcosine dehydrogenase activity (GO:0008480)			central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(12)|lung(13)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(3)	44				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		CTGGAACCTACCAGGTGCCCT	0.662																																																0													86	65	72					9																	136550314		2203	4300	6503	SO:0001630	splice_region_variant	1757				CCDS6978.1	9q33-q34	2008-02-05			ENSG00000123453	ENSG00000123453	1.5.99.2		10536	protein-coding gene	gene with protein product		604455		DMGDHL1		10444331	Standard	NM_007101		Approved	SDH	uc004cep.4	Q9UL12	OTTHUMG00000020879	ENST00000371872.4:c.2163+1G>T	9.37:g.136550314C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RMR5|B4DPI2|B7ZLT6|Q5SYV0|Q9Y280|Q9Y2Y3	Splice_Site	SNP	ENST00000371872.4	37	CCDS6978.1	.	.	.	.	.	.	.	.	.	.	C	18.66	3.671051	0.67814	.	.	ENSG00000123453	ENST00000371872;ENST00000371868;ENST00000439388;ENST00000422262	.	.	.	4.27	4.27	0.50696	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.2821	0.82697	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	SARDH	135540135	1.000000	0.71417	1.000000	0.80357	0.709000	0.40893	6.689000	0.74562	1.922000	0.55676	0.462000	0.41574	.		0.662	SARDH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054931.1		Intron	A	136550314	C	A	136550314	5	1	676	1	0	0	0	0	0	0	1	0	13854	521	18	4	612	4	SARDH	9	136550314	Splice_Site	SNP	C	TCGA-KO-8405-01A-11D-2310-10	46050071	136550314	4663117	28	43622										
MAN1B1	11253	broad.mit.edu	37	chr9	139990718	139990719	+	Frame_Shift_Ins	INS	-	-	C													0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	gacacatccagcggggaccaINScctcacctgcagattagacc							TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr9:139990718_139990719insC	ENST00000371589.4	+	4	568_569	c.495_496insC	c.(496-498)cctfs	p.P166fs	SNORD62_ENST00000362541.1_RNA|MAN1B1_ENST00000474902.1_5'UTR	NM_016219.4	NP_057303.2	Q9UKM7	MA1B1_HUMAN	mannosidase, alpha, class 1B, member 1	166					cellular protein metabolic process (GO:0044267)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|oligosaccharide metabolic process (GO:0009311)|post-translational protein modification (GO:0043687)|protein folding (GO:0006457)|protein N-linked glycosylation (GO:0006487)|protein N-linked glycosylation via asparagine (GO:0018279)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum quality control compartment (GO:0044322)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|vesicle (GO:0031982)	calcium ion binding (GO:0005509)|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity (GO:0004571)			autonomic_ganglia(1)|central_nervous_system(2)|kidney(1)|large_intestine(2)|liver(2)|lung(4)|ovary(2)	14	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;3.08e-05)|Epithelial(140;0.000513)		AGCGGGGACCACCTCACCTGCA	0.574																																																0																																										SO:0001589	frameshift_variant	11253			AF145732	CCDS7029.1	9q34.3	2014-05-27			ENSG00000177239	ENSG00000177239			6823	protein-coding gene	gene with protein product	"endoplasmic reticulum alpha-mannosidase 1", "alpha 1,2-mannosidase", "endoplasmic reticulum mannosyl-oligosaccharide 1,2-alpha-mannosidase 1", "ER alpha 1,2-mannosidase", "Man9GlcNAc2-specific processing alpha-mannosidase"	604346				10409699, 10521544	Standard	NM_016219		Approved	MANA-ER, MRT15	uc004cld.3	Q9UKM7	OTTHUMG00000020978	ENST00000371589.4:c.497dupC	9.37:g.139990720_139990720dupC	ENSP00000360645:p.Pro166fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VSG3|Q9BRS9|Q9Y5K7	Frame_Shift_Ins	INS	ENST00000371589.4	37	CCDS7029.1																																																																																				0.574	MAN1B1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055294.2	NM_016219		C	139990719	-	C	139990718	7	5	676	1	0	1	1	0	0	0	0	0	9219	146	6	0	509	0	MAN1B1	9	139990718	Frame_Shift_Ins	INS	-	TCGA-KO-8405-01A-11D-2310-10	3440404	139990718	1222713	29	43623										
IDE	3416	broad.mit.edu	37	chr10	94223677	94223677	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ttccactctgctttctaggtAgtgaggtggcttttctgact	10	9	3	2			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr10:94223677A>G	ENST00000265986.6	-	21	2628	c.2572T>C	c.(2572-2574)Tac>Cac	p.Y858H	IDE_ENST00000496903.1_5'UTR|IDE_ENST00000371581.5_Missense_Mutation_p.Y303H	NM_004969.3	NP_004960.2	P14735	IDE_HUMAN	insulin-degrading enzyme	858					beta-amyloid metabolic process (GO:0050435)|bradykinin catabolic process (GO:0010815)|determination of adult lifespan (GO:0008340)|hormone catabolic process (GO:0042447)|insulin catabolic process (GO:1901143)|insulin metabolic process (GO:1901142)|insulin receptor signaling pathway (GO:0008286)|negative regulation of proteolysis (GO:0045861)|positive regulation of protein oligomerization (GO:0032461)|protein heterooligomerization (GO:0051291)|protein homooligomerization (GO:0051260)|protein homotetramerization (GO:0051289)|proteolysis (GO:0006508)|proteolysis involved in cellular protein catabolic process (GO:0051603)|ubiquitin homeostasis (GO:0010992)|viral process (GO:0016032)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|cytosolic proteasome complex (GO:0031597)|extracellular space (GO:0005615)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|peroxisomal matrix (GO:0005782)|peroxisome (GO:0005777)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|beta-amyloid binding (GO:0001540)|beta-endorphin binding (GO:0031626)|glycoprotein binding (GO:0001948)|insulin binding (GO:0043559)|metalloendopeptidase activity (GO:0004222)|peptide binding (GO:0042277)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)|ubiquitin binding (GO:0043130)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(10)|liver(1)|lung(10)|ovary(2)|urinary_tract(2)	33					"""Insulin(DB00071)|Bacitracin(DB00626)|Insulin Regular(DB00030)"	CTTTCTAGGTAGTGAGGTGGC	0.453																																																0													245	243	244					10																	94223677		2203	4300	6503	SO:0001583	missense	3416			M21188	CCDS7421.1, CCDS53554.1	10q23-q25	2007-03-27			ENSG00000119912	ENSG00000119912			5381	protein-coding gene	gene with protein product	"insulysin"	146680				2293021	Standard	NM_004969		Approved		uc001kia.3	P14735	OTTHUMG00000018759	ENST00000265986.6:c.2572T>C	10.37:g.94223677A>G	ENSP00000265986:p.Tyr858His	Somatic		WXS	Illumina HiSeq	Phase_I	B2R721|B7ZAU2|D3DR35|Q5T5N2	Missense_Mutation	SNP	ENST00000265986.6	37	CCDS7421.1	.	.	.	.	.	.	.	.	.	.	A	22.5	4.304590	0.81136	.	.	ENSG00000119912	ENST00000265986;ENST00000371581	T;T	0.34275	1.39;1.37	5.61	4.48	0.54585	Peptidase M16, C-terminal (1);Metalloenzyme, LuxS/M16 peptidase-like, metal-binding (1);	0.000000	0.85682	D	0.000000	T	0.48786	0.1519	L	0.58428	1.81	0.80722	D	1	P;P	0.42993	0.55;0.797	P;P	0.56612	0.567;0.802	T	0.33979	-0.9847	10	0.25751	T	0.34	-10.3367	11.7351	0.51761	0.9308:0.0:0.0692:0.0	.	858;303	P14735;B3KSB8	IDE_HUMAN;.	H	858;303	ENSP00000265986:Y858H;ENSP00000360637:Y303H	ENSP00000265986:Y858H	Y	-	1	0	IDE	94213657	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	9.002000	0.93572	1.065000	0.40693	-0.256000	0.11100	TAC		0.453	IDE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049393.1	NM_004969		G	94223677	A	G	94223677	3	3	676	1	0	0	0	0	1	0	0	0	7500	420	15	3	507	3	IDE	10	94223677	Missense_Mutation	SNP	A	TCGA-KO-8405-01A-11D-2310-10		94223677	41311070	30	43624										
MUC5B	727897	broad.mit.edu	37	chr11	1263525	1263526	+	Frame_Shift_Ins	INS	-	-	G													0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	caacctcaggggttgcaggcINSggggacatggaaacttttga					rs369279116		TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr11:1263525_1263526insG	ENST00000529681.1	+	31	5473_5474	c.5415_5416insG	c.(5416-5418)gggfs	p.G1806fs	MUC5B_ENST00000447027.1_Frame_Shift_Ins_p.G1809fs|RP11-532E4.2_ENST00000532061.2_RNA	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	1806	7 X Cys-rich subdomain repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		GGGTTGCAGGCGGGGACATGGA	0.579																																																0																																										SO:0001589	frameshift_variant	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.5419dupG	11.37:g.1263529_1263529dupG	ENSP00000436812:p.Gly1806fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Frame_Shift_Ins	INS	ENST00000529681.1	37	CCDS44515.2																																																																																				0.579	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		G	1263526	-	G	1263525	7	5	676	1	0	1	1	0	0	0	0	0	9986	755	27	0	5546	0	MUC5B	11	1263525	Frame_Shift_Ins	INS	-	TCGA-KO-8405-01A-11D-2310-10		1263525	133742991	31	43625										
OR4A5	81318	mdanderson.org	37	chr11	51412022	51412022	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	tcaaatagtgcagtggcttaCagatggccacatagcgatca	10	9	2	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr11:51412022C>G	ENST00000319760.6	-	1	426	c.374G>C	c.(373-375)tGt>tCt	p.C125S		NM_001005272.3	NP_001005272.3	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A, member 5	125						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(8)|lung(28)|ovary(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	49		all_lung(304;0.236)				CAGTGGCTTACAGATGGCCAC	0.473																																																0													73	69	70					11																	51412022		2201	4294	6495	SO:0001583	missense	81318			AB065506	CCDS73289.1	11p11.12	2012-08-09			ENSG00000221840	ENSG00000221840		"GPCR / Class A : Olfactory receptors"	15162	protein-coding gene	gene with protein product							Standard	NM_001005272		Approved		uc001nhi.2	Q8NH83	OTTHUMG00000166764	ENST00000319760.6:c.374G>C	11.37:g.51412022C>G	ENSP00000367664:p.Cys125Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF84	Missense_Mutation	SNP	ENST00000319760.6	37	CCDS31497.1	.	.	.	.	.	.	.	.	.	.	.	10.99	1.507356	0.27036	.	.	ENSG00000221840	ENST00000319760	T	0.33438	1.41	1.93	1.93	0.25924	GPCR, rhodopsin-like superfamily (1);	0.000000	0.51477	D	0.000083	T	0.40067	0.1102	M	0.89030	3	0.37900	D	0.931019	B	0.26195	0.144	B	0.30572	0.117	T	0.54970	-0.8213	10	0.72032	D	0.01	.	9.9079	0.41388	0.0:1.0:0.0:0.0	.	125	Q8NH83	OR4A5_HUMAN	S	125	ENSP00000367664:C125S	ENSP00000367664:C125S	C	-	2	0	OR4A5	51268598	1.000000	0.71417	1.000000	0.80357	0.443000	0.32047	4.721000	0.61951	1.394000	0.46624	0.162000	0.16502	TGT		0.473	OR4A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391399.1	NM_001005272		G	51412022	C	G	51412022	3	3	676	1	0	0	0	0	1	0	0	0	11050	478	17	4	577	4	OR4A5	11	51412022	Missense_Mutation	SNP	C	TCGA-KO-8405-01A-11D-2310-10	50148497	51412022	83594494	32	43626										
OR4A16	81327	mdanderson.org	37	chr11	55111086	55111086	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	tttgaacatcatgaatcgacTggtttgcatccttctgttgg	9	8	2	2	rs78354885	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr11:55111086T>A	ENST00000314721.2	+	1	460	c.410T>A	c.(409-411)cTg>cAg	p.L137Q		NM_001005274.1	NP_001005274.1	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A, member 16	137						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(28)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	51						ATGAATCGACTGGTTTGCATC	0.468																																																0													179	162	168					11																	55111086		2201	4296	6497	SO:0001583	missense	81327			AB065519	CCDS31499.1	11q11	2012-08-09			ENSG00000181961	ENSG00000181961		"GPCR / Class A : Olfactory receptors"	15153	protein-coding gene	gene with protein product							Standard	NM_001005274		Approved	OR4A16Q	uc010rie.2	Q8NH70	OTTHUMG00000166710	ENST00000314721.2:c.410T>A	11.37:g.55111086T>A	ENSP00000325128:p.Leu137Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFL3	Missense_Mutation	SNP	ENST00000314721.2	37	CCDS31499.1	.	.	.	.	.	.	.	.	.	.	a	0.003	-2.541719	0.00142	.	.	ENSG00000181961	ENST00000314721	T	0.37058	1.22	2.69	-1.28	0.09318	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.12732	0.0309	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.08055	0.003	T	0.29701	-1.0003	9	0.07325	T	0.83	.	2.94	0.05826	0.5713:0.0:0.2415:0.1872	.	137	Q8NH70	O4A16_HUMAN	Q	137	ENSP00000325128:L137Q	ENSP00000325128:L137Q	L	+	2	0	OR4A16	54867662	0.000000	0.05858	0.000000	0.03702	0.005000	0.04900	-2.859000	0.00727	-0.456000	0.07043	-2.168000	0.00324	CTG		0.468	OR4A16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391160.1	NM_001005274		A	55111086	T	A	55111086	3	1	676	1	0	0	0	0	1	0	0	0	11048	1580	55	5	412	5	OR4A16	11	55111086	Missense_Mutation	SNP	T	TCGA-KO-8405-01A-11D-2310-10	3699064	55111086	79895430	33	43627										
OR1S2	219958	mdanderson.org	37	chr11	57970980	57970980	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	cataggagaagaagatgagtAcaaaggggaagatgataact	13	3	0	6	rs34249289|rs11229277	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr11:57970980A>G	ENST00000302592.6	-	1	673	c.674T>C	c.(673-675)gTa>gCa	p.V225A		NM_001004459.1	NP_001004459.1	Q8NGQ3	OR1S2_HUMAN	olfactory receptor, family 1, subfamily S, member 2	225			V -> A (in dbSNP:rs11229277).|V -> I (in dbSNP:rs11229278).			integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(11)|kidney(1)|large_intestine(4)|lung(23)|ovary(2)|skin(2)|stomach(2)|urinary_tract(1)	46		Breast(21;0.0589)				GAAGATGAGTACAAAGGGGAA	0.458													a|||	423	0.0844649	0.0257	0.1138	5008	,	,		23120	0.0536		0.1083	False		,,,				2504	0.1503															0													164	137	146					11																	57970980		2201	4296	6497	SO:0001583	missense	219958			BK004297	CCDS31545.1	11q12.1	2012-08-09			ENSG00000197887	ENSG00000197887		"GPCR / Class A : Olfactory receptors"	15141	protein-coding gene	gene with protein product							Standard	NM_001004459		Approved		uc010rkb.2	Q8NGQ3	OTTHUMG00000167541	ENST00000302592.6:c.674T>C	11.37:g.57970980A>G	ENSP00000305469:p.Val225Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFG5|Q96R85	Missense_Mutation	SNP	ENST00000302592.6	37	CCDS31545.1	109	0.04990842490842491	13	0.026422764227642278	27	0.07458563535911603	19	0.033216783216783216	50	0.06596306068601583	a	5.168	0.216627	0.09810	.	.	ENSG00000197887	ENST00000302592	T	0.38240	1.15	4.75	-0.698	0.11280	GPCR, rhodopsin-like superfamily (1);	0.471664	0.17897	N	0.158338	T	0.01029	0.0034	N	0.17674	0.51	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.30238	-0.9985	9	0.02654	T	1	.	5.3927	0.16253	0.337:0.3756:0.2875:0.0	rs11229277;rs52800241;rs11229277	225	Q8NGQ3	OR1S2_HUMAN	A	225	ENSP00000305469:V225A	ENSP00000305469:V225A	V	-	2	0	OR1S2	57727556	0.000000	0.05858	0.260000	0.24451	0.836000	0.47400	0.422000	0.21296	0.053000	0.16036	-0.866000	0.03004	GTA		0.458	OR1S2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394703.2	NM_001004459		G	57970980	A	G	57970980	3	3	676	1	0	0	0	0	1	0	0	0	10980	391	14	3	306	3	OR1S2	11	57970980	Missense_Mutation	SNP	A	TCGA-KO-8405-01A-11D-2310-10	2859894	57970980	77035536	34	43628										
ATG2A	23130	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr11	64664287	64664287	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ggcagctggttcttgcggatGtcctgcagccactcgttgag	14	11	1	1	rs180755321		TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr11:64664287G>A	ENST00000377264.3	-	38	5317	c.5205C>T	c.(5203-5205)gaC>gaT	p.D1735D	ATG2A_ENST00000421419.2_Silent_p.D1737D	NM_015104.2	NP_055919.2	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	1735					autophagic vacuole assembly (GO:0000045)|cellular response to nitrogen starvation (GO:0006995)|mitochondrion degradation (GO:0000422)|nucleophagy (GO:0044804)	extrinsic component of membrane (GO:0019898)|lipid particle (GO:0005811)|pre-autophagosomal structure (GO:0000407)				breast(3)|central_nervous_system(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(19)|ovary(3)|prostate(5)|skin(1)|stomach(1)|urinary_tract(3)	55						TCTTGCGGATGTCCTGCAGCC	0.637											OREG0004026	type=REGULATORY REGION|Gene=BC027481|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	G|||	1	0.000199681	0.0	0.0	5008	,	,		17180	0.001		0.0	False		,,,				2504	0.0															0													53	53	53					11																	64664287		2201	4297	6498	SO:0001819	synonymous_variant	23130				CCDS31602.1	11q13.1	2014-02-12	2012-06-06		ENSG00000110046	ENSG00000110046			29028	protein-coding gene	gene with protein product			"ATG2 autophagy related 2 homolog A (S. cerevisiae)"			21887408	Standard	NM_015104		Approved	KIAA0404	uc001obx.3	Q2TAZ0	OTTHUMG00000066831	ENST00000377264.3:c.5205C>T	11.37:g.64664287G>A		Somatic	1078	WXS	Illumina HiSeq	Phase_I	O43154|Q14DM2|Q6ZTV2|Q7Z6K8|Q8IVY5|Q8TAI8|Q96HH7	Silent	SNP	ENST00000377264.3	37	CCDS31602.1	2	9.157509157509158E-4	0	0.0	0	0.0	2	0.0034965034965034965	0	0.0	G	8.328	0.825936	0.16749	.	.	ENSG00000110046	ENST00000418259	.	.	.	4.05	-0.377	0.12501	.	.	.	.	.	T	0.53916	0.1826	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.44651	-0.9314	4	.	.	.	.	7.9988	0.30284	0.4059:0.0:0.5941:0.0	.	.	.	.	Y	1539	.	.	H	-	1	0	ATG2A	64420863	0.997000	0.39634	0.997000	0.53966	0.848000	0.48234	0.323000	0.19593	-0.146000	0.11274	-0.367000	0.07326	CAT		0.637	ATG2A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000143224.1	NM_015104		A	64664287	G	A	64664287	2	1	676	1	0	0	0	0	0	0	0	1	1093	1368	48	2		2	ATG2A	11	64664287	Silent	SNP	G	TCGA-KO-8405-01A-11D-2310-10	6693307	64664287	70342229	35	43629										
FOLR2	2350	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr11	71932013	71932013	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	actttaactgggaccactgcGgcaagatggagcccgcctgc	12	13	0	1	rs74853303	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr11:71932013G>A	ENST00000298223.6	+	3	437	c.250G>A	c.(250-252)Ggc>Agc	p.G84S	FOLR2_ENST00000449475.2_Missense_Mutation_p.G101S|FOLR2_ENST00000454954.2_Missense_Mutation_p.G43S	NM_000803.4|NM_001113534.1|NM_001113535.1|NM_001113536.1	NP_000794.3|NP_001107006.1|NP_001107007.1|NP_001107008.1	P14207	FOLR2_HUMAN	folate receptor 2 (fetal)	84					folic acid transport (GO:0015884)	anchored component of external side of plasma membrane (GO:0031362)|extracellular region (GO:0005576)|membrane (GO:0016020)	folic acid binding (GO:0005542)|folic acid transporter activity (GO:0008517)			breast(3)|large_intestine(3)|ovary(1)|skin(1)	8					Folic Acid(DB00158)	GGACCACTGCGGCAAGATGGA	0.602													G|||	26	0.00519169	0.0182	0.0029	5008	,	,		12907	0.0		0.0	False		,,,				2504	0.0															0								G	SER/GLY,SER/GLY,SER/GLY,SER/GLY	57,4343	57.4+/-93.9	0,57,2143	40	41	41		250,250,250,250	0.6	0	11	dbSNP_131	41	0,8586		0,0,4293	yes	missense,missense,missense,missense	FOLR2	NM_000803.4,NM_001113534.1,NM_001113535.1,NM_001113536.1	56,56,56,56	0,57,6436	AA,AG,GG		0.0,1.2955,0.4389	benign,benign,benign,benign	84/256,84/256,84/256,84/256	71932013	57,12929	2200	4293	6493	SO:0001583	missense	2350			AK222539	CCDS8212.1	11q13.3-q14.1	2010-04-08			ENSG00000165457	ENSG00000165457			3793	protein-coding gene	gene with protein product		136425				1133088, 7698003	Standard	NM_000803		Approved		uc009ytf.3	P14207	OTTHUMG00000150394	ENST00000298223.6:c.250G>A	11.37:g.71932013G>A	ENSP00000298223:p.Gly84Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q05CA5|Q6GTE8	Missense_Mutation	SNP	ENST00000298223.6	37	CCDS8212.1	19	0.0086996336996337	18	0.036585365853658534	1	0.0027624309392265192	0	0.0	0	0.0	g	13.67	2.307800	0.40795	0.012955	0.0	ENSG00000165457	ENST00000449475;ENST00000298223;ENST00000413873;ENST00000454954;ENST00000541003;ENST00000539412;ENST00000536778;ENST00000535625;ENST00000321324;ENST00000538353	T;T;T;T;T;T;T;T;T	0.78924	-1.22;-1.22;-1.22;-1.22;-1.22;-1.22;-1.22;-1.22;-1.22	4.52	0.548	0.17208	Folate receptor-like (1);	0.130041	0.51477	N	0.000089	T	0.57533	0.2060	M	0.82517	2.595	0.41806	D	0.989941	D	0.63880	0.993	P	0.55391	0.775	T	0.72194	-0.4364	10	0.54805	T	0.06	.	8.3882	0.32512	0.3371:0.0:0.6629:0.0	.	84	P14207	FOLR2_HUMAN	S	101;84;101;43;130;95;99;84;97;84	ENSP00000405638:G101S;ENSP00000298223:G84S;ENSP00000414094:G43S;ENSP00000443307:G130S;ENSP00000441547:G95S;ENSP00000438568:G99S;ENSP00000444794:G84S;ENSP00000321957:G97S;ENSP00000440337:G84S	ENSP00000298223:G84S	G	+	1	0	FOLR2	71609661	0.998000	0.40836	0.018000	0.16275	0.154000	0.21943	2.691000	0.47010	-0.058000	0.13177	0.455000	0.32223	GGC		0.602	FOLR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317923.2	NM_000803		A	71932013	G	A	71932013	3	1	676	1	0	0	0	0	1	0	0	0	5989	1116	39	1	256	1	FOLR2	11	71932013	Missense_Mutation	SNP	G	TCGA-KO-8405-01A-11D-2310-10	7267726	71932013	63074503	36	43630										
CSDA	8531	mdanderson.org	37	chr12	10875488	10875488	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	gtcttcgctgccggcggcggTggctaaagaggcggcggccg	19	12	1	1	rs1126501	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr12:10875488T>C	ENST00000228251.4	-	1	423	c.223A>G	c.(223-225)Acc>Gcc	p.T75A	YBX3_ENST00000279550.7_Missense_Mutation_p.T75A	NM_003651.4	NP_003642.3	P16989	YBOX3_HUMAN	Y box binding protein 3	75			T -> A (in dbSNP:rs1126501). {ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:2977358, ECO:0000269|PubMed:7628487}.		3'-UTR-mediated mRNA stabilization (GO:0070935)|cellular hyperosmotic response (GO:0071474)|cellular response to tumor necrosis factor (GO:0071356)|fertilization (GO:0009566)|in utero embryonic development (GO:0001701)|male gonad development (GO:0008584)|negative regulation of apoptotic process (GO:0043066)|negative regulation of intrinsic apoptotic signaling pathway in response to osmotic stress (GO:1902219)|negative regulation of necroptotic process (GO:0060546)|negative regulation of skeletal muscle tissue development (GO:0048642)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of cytoplasmic translation (GO:2000767)|positive regulation of organ growth (GO:0046622)|response to cold (GO:0009409)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|polysome (GO:0005844)|tight junction (GO:0005923)	double-stranded DNA binding (GO:0003690)|mRNA 3'-UTR binding (GO:0003730)|poly(A) RNA binding (GO:0044822)|Rho GTPase binding (GO:0017048)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001227)|sequence-specific DNA binding transcription factor activity (GO:0003700)|single-stranded DNA binding (GO:0003697)|transcription corepressor activity (GO:0003714)										Ccggcggcggtggctaaagag	0.776													T|||	1419	0.283347	0.1445	0.2824	5008	,	,		8539	0.5069		0.1779	False		,,,				2504	0.3497															0								T	ALA/THR,ALA/THR	475,3499		27,421,1539	5	5	5		223,223	-2.8	0.2	12	dbSNP_86	5	980,6780		49,882,2949	yes	missense,missense	CSDA	NM_003651.4,NM_001145426.1	58,58	76,1303,4488	CC,CT,TT		12.6289,11.9527,12.3999	benign,benign	75/373,75/304	10875488	1455,10279	1987	3880	5867	SO:0001583	missense	8531			L29064	CCDS8630.1, CCDS44831.1	12p13.1	2013-03-13	2013-03-13	2013-03-13	ENSG00000060138	ENSG00000060138			2428	protein-coding gene	gene with protein product	"cold-shock domain containing A1"	603437	"cold shock domain protein A"	CSDA		2977358, 8710501	Standard	NM_003651		Approved	dbpA, ZONAB, CSDA1	uc001qyt.3	P16989	OTTHUMG00000168409	ENST00000228251.4:c.223A>G	12.37:g.10875488T>C	ENSP00000228251:p.Thr75Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBW6|Q14121|Q969N6|Q96B76	Missense_Mutation	SNP	ENST00000228251.4	37	CCDS8630.1	603	0.2760989010989011	81	0.16463414634146342	114	0.3149171270718232	280	0.48951048951048953	128	0.16886543535620052	T	3.109	-0.183165	0.06340	0.119527	0.126289	ENSG00000060138	ENST00000279550;ENST00000228251	T;T	0.20881	2.04;2.09	1.88	-2.83	0.05769	.	0.173369	0.26439	N	0.024375	T	0.00012	0.0000	N	0.01705	-0.755	0.51767	P	6.700000000003925E-5	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.32877	-0.9890	9	0.08179	T	0.78	.	3.6567	0.08223	0.0:0.1732:0.4872:0.3397	rs1126501;rs3181559;rs11538063;rs17850397;rs17851939;rs17856315	75;75	P16989-2;P16989	.;DBPA_HUMAN	A	75	ENSP00000279550:T75A;ENSP00000228251:T75A	ENSP00000228251:T75A	T	-	1	0	CSDA	10766755	0.976000	0.34144	0.193000	0.23327	0.876000	0.50452	-0.117000	0.10708	-0.712000	0.04988	0.260000	0.18958	ACC		0.776	YBX3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000399628.1	NM_003651		C	10875488	T	C	10875488	3	2	676	1	0	0	0	0	1	0	0	0	3929	1696	59	3	931	3	CSDA	12	10875488	Missense_Mutation	SNP	T	TCGA-KO-8405-01A-11D-2310-10		10875488	122976407	37	43631										
HOXC9	3225	mdanderson.org	37	chr12	54394497	54394497	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	aagcacaaagaggagaaggcCgacctggaccccagtaagtt	12	10	0	2	rs2241820	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr12:54394497C>T	ENST00000303450.4	+	1	595	c.525C>T	c.(523-525)gcC>gcT	p.A175A	HOXC9_ENST00000504557.1_Intron|HOXC-AS1_ENST00000505700.1_RNA|HOXC-AS1_ENST00000512427.1_RNA|RP11-834C11.12_ENST00000513209.1_Intron|HOXC9_ENST00000508190.1_Silent_p.A175A	NM_006897.1	NP_008828.1	P31274	HXC9_HUMAN	homeobox C9	175					anterior/posterior pattern specification (GO:0009952)|embryonic skeletal system morphogenesis (GO:0048704)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)			large_intestine(3)|liver(1)|lung(5)|ovary(1)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)	14						AGGAGAAGGCCGACCTGGACC	0.692													C|||	2895	0.578075	0.4667	0.5346	5008	,	,		12030	0.7609		0.6014	False		,,,				2504	0.547															0								C		1809,1381		539,731,325	6	7	7		525	1.1	1	12	dbSNP_98	7	4221,2551		1360,1501,525	no	coding-synonymous	HOXC9	NM_006897.1		1899,2232,850	TT,TC,CC		37.6698,43.2915,39.47		175/261	54394497	6030,3932	1595	3386	4981	SO:0001819	synonymous_variant	3225				CCDS8869.1	12q13.13	2011-06-20	2005-12-22			ENSG00000180806		"Homeoboxes / ANTP class : HOXL subclass"	5130	protein-coding gene	gene with protein product		142971	"homeo box C9"	HOX3, HOX3B		1973146	Standard	NM_006897		Approved		uc001seq.3	P31274		ENST00000303450.4:c.525C>T	12.37:g.54394497C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RCN7|Q9H1I0	Silent	SNP	ENST00000303450.4	37	CCDS8869.1																																																																																				0.692	HOXC9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358958.1			T	54394497	C	T	54394497	2	4	676	1	0	0	0	0	0	0	0	1	7324	639	23	1		1	HOXC9	12	54394497	Silent	SNP	C	TCGA-KO-8405-01A-11D-2310-10	43519009	54394497	79457398	38	43632										
GALNT4	8693	bcgsc.ca	37	chr12	89918149	89918149	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	cttcttataaagcggtcgagAcaaatcctccgtatttttct	6	10	2	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr12:89918149A>G	ENST00000529983.2	-	1	434	c.178T>C	c.(178-180)Tct>Cct	p.S60P	RP11-734K2.4_ENST00000605233.1_RNA|POC1B_ENST00000313546.3_Intron|POC1B_ENST00000393179.4_Intron|POC1B_ENST00000549504.1_Intron|GALNT4_ENST00000413530.1_Intron|POC1B_ENST00000549035.1_Intron|POC1B_ENST00000541909.1_Intron|POC1B-GALNT4_ENST00000548729.1_Missense_Mutation_p.S57P|POC1B-GALNT4_ENST00000547474.1_Intron	NM_003774.4	NP_003765.2	Q8N4A0	GALT4_HUMAN	polypeptide N-acetylgalactosaminyltransferase 4	60					carbohydrate metabolic process (GO:0005975)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			endometrium(4)|kidney(2)|lung(5)|prostate(2)|upper_aerodigestive_tract(1)	14						AGCGGTCGAGACAAATCCTCC	0.562											OREG0022018	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													65	69	68					12																	89918149		1846	4092	5938	SO:0001583	missense	100528030			Y08564	CCDS53817.1	12q21.33	2014-03-13	2014-03-13		ENSG00000257594	ENSG00000257594	2.4.1.41	"Glycosyltransferase family 2 domain containing"	4126	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 4"	603565	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 4 (GalNAc-T4)"			9804815	Standard	NM_003774		Approved	GalNAc-T4	uc001tbd.3	Q8N4A0	OTTHUMG00000166292	ENST00000529983.2:c.178T>C	12.37:g.89918149A>G	ENSP00000436604:p.Ser60Pro	Somatic	1271	WXS	Illumina HiSeq	Phase_I	B2R775|B4DMX6|O00208	Missense_Mutation	SNP	ENST00000529983.2	37	CCDS53817.1	.	.	.	.	.	.	.	.	.	.	A	9.270	1.045405	0.19748	.	.	ENSG00000259075;ENSG00000257594	ENST00000548729;ENST00000529983	T;T	0.53857	0.6;0.6	5.77	4.57	0.56435	.	.	.	.	.	T	0.42200	0.1192	L	0.29908	0.895	0.29763	N	0.835364	P;P	0.41265	0.744;0.682	B;B	0.40825	0.341;0.116	T	0.33240	-0.9876	9	0.30854	T	0.27	.	11.7429	0.51803	0.7536:0.2464:0.0:0.0	.	57;60	F8VUJ3;Q8N4A0	.;GALT4_HUMAN	P	57;60	ENSP00000447852:S57P;ENSP00000436604:S60P	ENSP00000436604:S60P	S	-	1	0	GALNT4;RP11-1109F11.4	88442280	1.000000	0.71417	0.984000	0.44739	0.055000	0.15305	1.247000	0.32815	2.198000	0.70561	0.533000	0.62120	TCT		0.562	GALNT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388973.2	NM_003774		G	89918149	A	G	89918149	3	3	676	1	0	0	0	0	1	0	0	0	6222	275	10	3	1562	3	GALNT4	12	89918149	Missense_Mutation	SNP	A	TCGA-KO-8405-01A-11D-2310-10	35523652	89918149	43933746	39	43633										
ZFP106	64397	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	42720229	42720229	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	cactaacctttatgttgaagGtgaccacagtgccatttgcc	8	11	0	2			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr15:42720229G>A	ENST00000263805.4	-	12	5242	c.4916C>T	c.(4915-4917)aCc>aTc	p.T1639I	ZNF106_ENST00000565380.1_Missense_Mutation_p.T867I|RNU6-188P_ENST00000364207.1_RNA|ZNF106_ENST00000565611.1_Missense_Mutation_p.T824I	NM_001284306.1|NM_001284307.1|NM_022473.1	NP_001271235.1|NP_001271236.1|NP_071918.1	Q9H2Y7	ZN106_HUMAN	zinc finger protein 106	1639					insulin receptor signaling pathway (GO:0008286)	cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)										TATGTTGAAGGTGACCACAGT	0.512																																																0													171	138	150					15																	42720229		2203	4299	6502	SO:0001583	missense	64397			AF205632	CCDS32208.1, CCDS61602.1, CCDS61603.1	15q15.1	2012-11-27	2012-11-27		ENSG00000103994	ENSG00000103994		"Zinc fingers, C2H2-type"	12886	protein-coding gene	gene with protein product	"SH3-domain binding protein 3"		"zinc finger protein 106 homolog (mouse)"	ZFP106			Standard	XM_005254591		Approved	ZNF474, SH3BP3	uc001zpw.3	Q9H2Y7	OTTHUMG00000173244	ENST00000263805.4:c.4916C>T	15.37:g.42720229G>A	ENSP00000263805:p.Thr1639Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZ40|E9PE29|Q6NSD9|Q6PEK1|Q86T43|Q86T45|Q86T50|Q86T58|Q86TA9|Q96M37|Q9H7B8	Missense_Mutation	SNP	ENST00000263805.4	37	CCDS32208.1	.	.	.	.	.	.	.	.	.	.	G	19.22	3.785110	0.70222	.	.	ENSG00000103994	ENST00000263805;ENST00000434903	T	0.14266	2.52	5.26	5.26	0.73747	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.101382	0.64402	D	0.000002	T	0.25419	0.0618	L	0.29908	0.895	0.80722	D	1	D;D;D	0.63880	0.993;0.993;0.993	P;P;P	0.62435	0.881;0.902;0.881	T	0.00577	-1.1662	10	0.42905	T	0.14	-9.4294	19.1213	0.93365	0.0:0.0:1.0:0.0	.	867;1639;867	E9PE29;Q9H2Y7;B4DZ40	.;ZF106_HUMAN;.	I	1639;867	ENSP00000263805:T1639I	ENSP00000263805:T1639I	T	-	2	0	ZFP106	40507521	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	5.960000	0.70348	2.753000	0.94483	0.650000	0.86243	ACC		0.512	ZNF106-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000422587.1	NM_022473		A	42720229	G	A	42720229	3	1	676	1	0	0	0	0	1	0	0	0	17649	1261	44	2	767	2	ZFP106	15	42720229	Missense_Mutation	SNP	G	TCGA-KO-8405-01A-11D-2310-10		42720229	59811163	40	43634										
WDR90	197335	mdanderson.org	37	chr16	705360	705360	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ctggcggctgcgtggcggggTgctgcgttcctgccccgtgg	19	13	0	0	rs3803697	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr16:705360T>C	ENST00000293879.4	+	15	1610	c.1610T>C	c.(1609-1611)gTg>gCg	p.V537A	WDR90_ENST00000549091.1_Missense_Mutation_p.V537A|LA16c-349E10.1_ENST00000573609.1_RNA			Q96KV7	WDR90_HUMAN	WD repeat domain 90	537			V -> A (in dbSNP:rs3803697). {ECO:0000269|PubMed:15489334}.							endometrium(4)|kidney(3)|large_intestine(2)|lung(22)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	37		Hepatocellular(780;0.0218)				CGTGGCGGGGTGCTGCGTTCC	0.706													C|||	3489	0.696685	0.8744	0.5965	5008	,	,		15360	0.9841		0.3757	False		,,,				2504	0.5613															0								C	ALA/VAL	3355,989		1322,711,139	17	29	25		1610	-9.3	0	16	dbSNP_107	25	3028,5518		558,1912,1803	yes	missense	WDR90	NM_145294.4	64	1880,2623,1942	CC,CT,TT		35.4318,22.767,49.519	benign	537/1749	705360	6383,6507	2172	4273	6445	SO:0001583	missense	197335			AB067511	CCDS42092.1	16p13.3	2013-01-09			ENSG00000161996	ENSG00000161996		"WD repeat domain containing"	26960	protein-coding gene	gene with protein product			"chromosome 16 open reading frame 17", "chromosome 16 open reading frame 15", "chromosome 16 open reading frame 16", "chromosome 16 open reading frame 19", "chromosome 16 open reading frame 18"	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18		11572484, 11157797	Standard	XM_005255160		Approved	FLJ36483, KIAA1924	uc002cii.1	Q96KV7	OTTHUMG00000048040	ENST00000293879.4:c.1610T>C	16.37:g.705360T>C	ENSP00000293879:p.Val537Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VA87|Q0VA88|Q6P048|Q6ZMS1|Q6ZTH1|Q8N202|Q8N221|Q8NBB8|Q96PW4|Q96S18	Missense_Mutation	SNP	ENST00000293879.4	37	CCDS42092.1	1465	0.6707875457875457	417	0.8475609756097561	197	0.5441988950276243	562	0.9825174825174825	289	0.3812664907651715	C	0.015	-1.540982	0.00934	0.77233	0.354318	ENSG00000161996	ENST00000549091;ENST00000293879	T;T	0.26067	1.8;1.76	4.67	-9.34	0.00636	WD40/YVTN repeat-like-containing domain (1);Quinonprotein alcohol dehydrogenase-like (1);	1.118960	0.07045	N	0.830877	T	0.00012	0.0000	L	0.29908	0.895	0.80722	P	0.0	B;B;B;B	0.06786	0.0;0.0;0.0;0.001	B;B;B;B	0.04013	0.0;0.0;0.0;0.001	T	0.23261	-1.0193	9	0.07813	T	0.8	.	1.8074	0.03084	0.3135:0.1797:0.0853:0.4215	rs3803697	537;537;538;537	F8VUX9;Q96KV7;C9JMK1;Q96KV7-3	.;WDR90_HUMAN;.;.	A	537	ENSP00000448122:V537A;ENSP00000293879:V537A	ENSP00000293879:V537A	V	+	2	0	WDR90	645361	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.586000	0.05787	-3.437000	0.00163	-2.865000	0.00100	GTG		0.706	WDR90-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000404335.1	NM_145294		C	705360	T	C	705360	3	2	676	1	0	0	0	0	1	0	0	0	17349	1696	59	3	1668	3	WDR90	16	705360	Missense_Mutation	SNP	T	TCGA-KO-8405-01A-11D-2310-10		705360	89649393	41	43635										
ZNF205	7755	broad.mit.edu	37	chr16	3169758	3169759	+	Frame_Shift_Ins	INS	-	-	C													0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ggcgagaagccctacacctgINSccccgcctgccggaagagct							TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr16:3169758_3169759insC	ENST00000382192.3	+	7	1302_1303	c.1097_1098insC	c.(1096-1101)tgccccfs	p.CP366fs	RP11-473M20.14_ENST00000576490.1_RNA|ZNF205_ENST00000219091.4_Frame_Shift_Ins_p.CP366fs|RP11-473M20.14_ENST00000575139.1_RNA	NM_001278158.1|NM_003456.2	NP_001265087.1|NP_003447.2	O95201	ZN205_HUMAN	zinc finger protein 205	366					negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of hydrogen peroxide biosynthetic process (GO:0010729)|positive regulation of mitochondrial outer membrane permeabilization involved in apoptotic signaling pathway (GO:1901030)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(5)|lung(6)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	20						CCCTACACCTGCCCCGCCTGCC	0.653																																																0																																										SO:0001589	frameshift_variant	7755			AF060865	CCDS10494.2	16p13.3	2013-01-08			ENSG00000122386	ENSG00000122386		"Zinc fingers, C2H2-type", "-"	12996	protein-coding gene	gene with protein product		603436		ZNF210		9787081	Standard	NM_003456		Approved	Zfp13	uc002cub.3	O95201	OTTHUMG00000148676	ENST00000382192.3:c.1101dupC	16.37:g.3169762_3169762dupC	ENSP00000371627:p.Cys366fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8MZK0|D3DUB4|Q9BU95	Frame_Shift_Ins	INS	ENST00000382192.3	37	CCDS10494.2																																																																																				0.653	ZNF205-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000309057.1	NM_003456		C	3169759	-	C	3169758	7	5	676	1	0	1	1	0	0	0	0	0	17776	1319	46	0	1119	0	ZNF205	16	3169758	Frame_Shift_Ins	INS	-	TCGA-KO-8405-01A-11D-2310-10	2464398	3169758	87184995	42	43636										
CREBBP	1387	broad.mit.edu	37	chr16	3817815	3817815	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	acttctactttcacttcaggTttcttttcatccacttccat	2	13	5	0			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr16:3817815T>C	ENST00000262367.5	-	16	3965	c.3156A>G	c.(3154-3156)aaA>aaG	p.K1052K	CREBBP_ENST00000382070.3_Silent_p.K1014K	NM_004380.2	NP_004371.2	Q92793	CBP_HUMAN	CREB binding protein	1052					cellular lipid metabolic process (GO:0044255)|cellular response to hypoxia (GO:0071456)|chromatin organization (GO:0006325)|embryonic digit morphogenesis (GO:0042733)|gene expression (GO:0010467)|germ-line stem cell maintenance (GO:0030718)|histone acetylation (GO:0016573)|homeostatic process (GO:0042592)|innate immune response (GO:0045087)|N-terminal peptidyl-lysine acetylation (GO:0018076)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of type I interferon production (GO:0032481)|protein complex assembly (GO:0006461)|regulation of smoothened signaling pathway (GO:0008589)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of transcription, DNA-templated (GO:0006355)|response to hypoxia (GO:0001666)|rhythmic process (GO:0048511)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	condensed chromosome outer kinetochore (GO:0000940)|cytoplasm (GO:0005737)|histone acetyltransferase complex (GO:0000123)|nuclear body (GO:0016604)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	acetyltransferase activity (GO:0016407)|chromatin binding (GO:0003682)|core promoter proximal region sequence-specific DNA binding (GO:0000987)|histone acetyltransferase activity (GO:0004402)|MRF binding (GO:0043426)|p53 binding (GO:0002039)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II transcription coactivator activity (GO:0001105)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			NS(1)|breast(5)|central_nervous_system(4)|cervix(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(125)|kidney(5)|large_intestine(32)|lung(43)|ovary(18)|pancreas(2)|prostate(6)|skin(9)|soft_tissue(1)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(21)	295		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TCACTTCAGGTTTCTTTTCAT	0.443			"T, N, F, Mis, O"	"MLL, MORF, RUNXBP2"	"ALL, AML, DLBCL, B-NHL "		Rubinstein-Taybi syndrome																																Dom/Rec	yes		16	16p13.3	1387	CREB binding protein (CBP)	yes	L	0													254	226	235					16																	3817815		2197	4300	6497	SO:0001819	synonymous_variant	1387			U85962	CCDS10509.1, CCDS45399.1	16p13.3	2011-07-01	2008-08-01		ENSG00000005339	ENSG00000005339		"Chromatin-modifying enzymes / K-acetyltransferases"	2348	protein-coding gene	gene with protein product		600140	"Rubinstein-Taybi syndrome"	RSTS		8413673	Standard	NM_001079846		Approved	RTS, CBP, KAT3A	uc002cvv.3	Q92793	OTTHUMG00000129431	ENST00000262367.5:c.3156A>G	16.37:g.3817815T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DUC9|O00147|Q16376|Q4LE28	Silent	SNP	ENST00000262367.5	37	CCDS10509.1																																																																																				0.443	CREBBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251591.2	NM_004380		C	3817815	T	C	3817815	2	2	676	1	0	0	0	0	0	0	0	1	3863	1722	60	3		3	CREBBP	16	3817815	Silent	SNP	T	TCGA-KO-8405-01A-11D-2310-10	648057	3817815	86536938	43	43637										
NOB1	28987	bcgsc.ca	37	chr16	69783533	69783533	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	aatcgatgagctcaccttaaCctttaaaaaaacaaaaaaca	3	9	1	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr16:69783533C>T	ENST00000268802.5	-	4	357	c.328G>A	c.(328-330)Gtt>Att	p.V110I		NM_014062.1	NP_054781.1	Q9ULX3	NOB1_HUMAN	NIN1/RPN12 binding protein 1 homolog (S. cerevisiae)	110					visual perception (GO:0007601)	nucleus (GO:0005634)	metal ion binding (GO:0046872)			breast(2)|cervix(1)|endometrium(1)|large_intestine(1)|lung(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11						CTCACCTTAACCTTTAAAAAA	0.413																																																0													62	59	60					16																	69783533		2198	4300	6498	SO:0001630	splice_region_variant	28987			AB026125	CCDS10884.1	16q22.1	2008-02-05	2006-04-20	2006-04-20	ENSG00000141101	ENSG00000141101			29540	protein-coding gene	gene with protein product	"nin one binding protein"	613586	"PSMD8 binding protein 1"	PSMD8BP1		16172919	Standard	NM_014062		Approved	NOB1P, ART-4, MST158	uc002exs.4	Q9ULX3	OTTHUMG00000137576	ENST00000268802.5:c.328-1G>A	16.37:g.69783533C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q7L6B7|Q7M4M4|Q7Z4B5|Q9NWB0	Missense_Mutation	SNP	ENST00000268802.5	37	CCDS10884.1	.	.	.	.	.	.	.	.	.	.	C	11.13	1.549058	0.27652	.	.	ENSG00000141101	ENST00000268802	T	0.31247	1.5	4.61	4.61	0.57282	.	0.241768	0.41500	D	0.000871	T	0.22859	0.0552	N	0.25201	0.72	0.58432	D	0.999999	B	0.13594	0.008	B	0.17098	0.017	T	0.04495	-1.0947	9	.	.	.	.	17.5775	0.87955	0.0:1.0:0.0:0.0	.	110	Q9ULX3	NOB1_HUMAN	I	110	ENSP00000268802:V110I	.	V	-	1	0	NOB1	68341034	1.000000	0.71417	0.997000	0.53966	0.262000	0.26303	2.682000	0.46934	2.555000	0.86185	0.555000	0.69702	GTT		0.413	NOB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268958.2	NM_014062	Missense_Mutation	T	69783533	C	T	69783533	5	4	676	1	0	0	0	0	0	0	1	0	10518	521	18	2	934	2	NOB1	16	69783533	Splice_Site	SNP	C	TCGA-KO-8405-01A-11D-2310-10	65965718	69783533	20571220	44	43638										
ODF4	146852	hgsc.bcm.edu;bcgsc.ca	37	chr17	8249105	8249105	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	aatctccaagggcacagacgAtcacagacacccccatcacc	6	17	3	2			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr17:8249105A>G	ENST00000328248.2	+	3	897	c.709A>G	c.(709-711)Atc>Gtc	p.I237V	ODF4_ENST00000584943.1_Missense_Mutation_p.I122V	NM_153007.4	NP_694552.2	Q2M2E3	ODFP4_HUMAN	outer dense fiber of sperm tails 4	237					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)|motile cilium (GO:0031514)|outer dense fiber (GO:0001520)				endometrium(2)|large_intestine(3)|lung(1)|ovary(1)|stomach(1)	8						GGCACAGACGATCACAGACAC	0.522																																																0													95	93	94					17																	8249105		2203	4300	6503	SO:0001583	missense	146852			AB081120	CCDS11140.1	17p13	2010-09-27			ENSG00000184650	ENSG00000184650			19056	protein-coding gene	gene with protein product	"cancer/testis antigen 136"	610097					Standard	NM_153007		Approved	OPPO1, CT136	uc002gle.1	Q2M2E3	OTTHUMG00000108190	ENST00000328248.2:c.709A>G	17.37:g.8249105A>G	ENSP00000331086:p.Ile237Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8J021	Missense_Mutation	SNP	ENST00000328248.2	37	CCDS11140.1	.	.	.	.	.	.	.	.	.	.	A	5.538	0.284119	0.10513	.	.	ENSG00000184650	ENST00000328248	T	0.22945	1.93	3.42	-5.82	0.02333	.	2.102490	0.02578	N	0.098545	T	0.07818	0.0196	N	0.04508	-0.205	0.09310	N	1	B	0.10296	0.003	B	0.04013	0.001	T	0.20273	-1.0280	10	0.06891	T	0.86	-1.5999	0.3507	0.00348	0.3221:0.1411:0.2745:0.2624	.	237	Q2M2E3	ODFP4_HUMAN	V	237	ENSP00000331086:I237V	ENSP00000331086:I237V	I	+	1	0	ODF4	8189830	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.834000	0.04391	-1.193000	0.02688	-0.371000	0.07208	ATC		0.522	ODF4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000226996.1			G	8249105	A	G	8249105	3	3	676	1	0	0	0	0	1	0	0	0	10840	333	12	3	719	3	ODF4	17	8249105	Missense_Mutation	SNP	A	TCGA-KO-8405-01A-11D-2310-10		8249105	72946105	45	43639										
PLEKHM1	9842	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr17	43523003	43523003	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ggctgggcccggatctgtgtCagaaacttcagggcctgcct	14	12	3	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr17:43523003C>G	ENST00000430334.3	-	9	2803	c.2670G>C	c.(2668-2670)ctG>ctC	p.L890L	PLEKHM1_ENST00000580404.1_5'UTR|PLEKHM1_ENST00000421073.2_Silent_p.L801L	NM_014798.2	NP_055613.1	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M (with RUN domain) member 1	890					intracellular signal transduction (GO:0035556)	cytoplasm (GO:0005737)	metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(6)|large_intestine(1)|lung(10)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	26	Renal(3;0.0405)					GGATCTGTGTCAGAAACTTCA	0.602																																																0													64	60	61					17																	43523003		2201	4300	6501	SO:0001819	synonymous_variant	9842			X85792	CCDS32671.1	17q21.31	2013-01-11				ENSG00000225190		"Pleckstrin homology (PH) domain containing"	29017	protein-coding gene	gene with protein product		611466				9205841, 12820725	Standard	NM_014798		Approved	KIAA0356	uc002ija.3	Q9Y4G2		ENST00000430334.3:c.2670G>C	17.37:g.43523003C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6P2R5|Q8TEL9|Q9NPP5|Q9NYA0	Silent	SNP	ENST00000430334.3	37	CCDS32671.1																																																																																				0.602	PLEKHM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444659.1	NM_014798		G	43523003	C	G	43523003	2	3	676	1	0	0	0	0	0	0	0	1	12087	813	29	4		4	PLEKHM1	17	43523003	Silent	SNP	C	TCGA-KO-8405-01A-11D-2310-10	35273898	43523003	37672207	46	43640										
EPN3	55040	mdanderson.org	37	chr17	48619290	48619290	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	cagatgcgcaccggctcgccGgcgctgggcctggcaggcgg	18	15	0	1	rs112657244	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr17:48619290G>A	ENST00000268933.3	+	10	2250	c.1671G>A	c.(1669-1671)ccG>ccA	p.P557P	EPN3_ENST00000537145.1_Silent_p.P585P|EPN3_ENST00000541226.1_3'UTR	NM_017957.2	NP_060427.2	Q9H201	EPN3_HUMAN	epsin 3	557	3 X 3 AA repeats of N-P-F.					clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|extracellular vesicular exosome (GO:0070062)|extrinsic component of plasma membrane (GO:0019897)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	lipid binding (GO:0008289)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(3)|lung(1)|ovary(1)|prostate(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	14	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;2.88e-09)			CCGGCTCGCCGGCGCTGGGCC	0.726													G|||	195	0.0389377	0.0038	0.0418	5008	,	,		9711	0.0188		0.0984	False		,,,				2504	0.044															0								G		91,4245		4,83,2081	9	12	11		1671	-9.4	0	17	dbSNP_132	11	770,7712		27,716,3498	no	coding-synonymous	EPN3	NM_017957.2		31,799,5579	AA,AG,GG		9.078,2.0987,6.7171		557/633	48619290	861,11957	2168	4241	6409	SO:0001819	synonymous_variant	55040			AF324241	CCDS11570.1	17q21.33	2008-07-18				ENSG00000049283			18235	protein-coding gene	gene with protein product		607264				10951261, 11359770	Standard	NM_017957		Approved	FLJ20778, MGC129899	uc002ira.4	Q9H201		ENST00000268933.3:c.1671G>A	17.37:g.48619290G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6J3|A8KAB2|Q9BVN6|Q9NWK2	Silent	SNP	ENST00000268933.3	37	CCDS11570.1																																																																																				0.726	EPN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367573.1	NM_017957		A	48619290	G	A	48619290	2	1	676	1	0	0	0	0	0	0	0	1	5189	1103	39	1		1	EPN3	17	48619290	Silent	SNP	G	TCGA-KO-8405-01A-11D-2310-10	5096287	48619290	32575920	47	43641										
SSTR2	6752	hgsc.bcm.edu	37	chr17	71166135	71166135	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	acccctcaccatcatctgtcTttgctacctgttcattatca	3	15	6	0			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr17:71166135T>C	ENST00000357585.2	+	2	1046	c.677T>C	c.(676-678)cTt>cCt	p.L226P	SSTR2_ENST00000315332.2_Missense_Mutation_p.L226P|RP11-143K11.5_ENST00000580671.1_RNA	NM_001050.2	NP_001041.1	P30874	SSR2_HUMAN	somatostatin receptor 2	226					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cell-cell signaling (GO:0007267)|cellular response to estradiol stimulus (GO:0071392)|cellular response to glucocorticoid stimulus (GO:0071385)|cerebellum development (GO:0021549)|digestion (GO:0007586)|forebrain development (GO:0030900)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|negative regulation of cell proliferation (GO:0008285)|peristalsis (GO:0030432)|regulation of muscle contraction (GO:0006937)|response to nutrient (GO:0007584)|response to starvation (GO:0042594)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	PDZ domain binding (GO:0030165)|somatostatin receptor activity (GO:0004994)			endometrium(2)|large_intestine(5)|lung(2)|prostate(2)	11			LUSC - Lung squamous cell carcinoma(166;0.197)		Octreotide(DB00104)|Pasireotide(DB06663)|Vapreotide(DB04894)	ATCATCTGTCTTTGCTACCTG	0.502																																																0													129	120	123					17																	71166135		2203	4300	6503	SO:0001583	missense	6752				CCDS11691.1	17q24	2012-08-08				ENSG00000180616		"GPCR / Class A : Somatostatin receptors"	11331	protein-coding gene	gene with protein product		182452				8449518	Standard	NM_001050		Approved		uc002jje.3	P30874		ENST00000357585.2:c.677T>C	17.37:g.71166135T>C	ENSP00000350198:p.Leu226Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3Y0|B2R9P7|Q4VBP0|Q96GE0|Q96TF2|Q9BWH1	Missense_Mutation	SNP	ENST00000357585.2	37	CCDS11691.1	.	.	.	.	.	.	.	.	.	.	T	18.60	3.659722	0.67586	.	.	ENSG00000180616	ENST00000357585;ENST00000315332	T;T	0.39787	1.06;1.06	5.64	5.64	0.86602	GPCR, rhodopsin-like superfamily (1);	0.063672	0.64402	D	0.000004	T	0.66626	0.2808	M	0.80183	2.485	0.80722	D	1	D	0.69078	0.997	D	0.73380	0.98	T	0.71833	-0.4473	10	0.87932	D	0	.	15.5193	0.75854	0.0:0.0:0.0:1.0	.	226	P30874	SSR2_HUMAN	P	226	ENSP00000350198:L226P;ENSP00000326616:L226P	ENSP00000326616:L226P	L	+	2	0	SSTR2	68677730	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.036000	0.88901	2.147000	0.66899	0.533000	0.62120	CTT		0.502	SSTR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441633.1			C	71166135	T	C	71166135	3	2	676	1	0	0	0	0	1	0	0	0	15210	1609	56	3	679	3	SSTR2	17	71166135	Missense_Mutation	SNP	T	TCGA-KO-8405-01A-11D-2310-10	22546845	71166135	10029075	48	43642										
PRKCSH	5589	hgsc.bcm.edu;mdanderson.org	37	chr19	11558367	11558367	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	gaggaggaggaggaggaggaGgaggaagaagaggctgaaga	23	1	0	4			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr19:11558367G>A	ENST00000589838.1	+	10	963	c.963G>A	c.(961-963)gaG>gaA	p.E321E	PRKCSH_ENST00000412601.1_Silent_p.E321E|PRKCSH_ENST00000252455.2_Silent_p.E321E|PRKCSH_ENST00000591462.1_Silent_p.E321E|PRKCSH_ENST00000592741.1_Silent_p.E321E|PRKCSH_ENST00000587327.1_Silent_p.E321E			P14314	GLU2B_HUMAN	protein kinase C substrate 80K-H	321	Glu-rich (acidic).				cellular protein metabolic process (GO:0044267)|in utero embryonic development (GO:0001701)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|liver development (GO:0001889)|N-glycan processing (GO:0006491)|negative regulation of neuron projection development (GO:0010977)|nitrogen compound metabolic process (GO:0006807)|post-translational protein modification (GO:0043687)|protein folding (GO:0006457)|protein heterooligomerization (GO:0051291)|protein N-linked glycosylation via asparagine (GO:0018279)|renal system development (GO:0072001)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum lumen (GO:0005788)|intracellular (GO:0005622)	calcium ion binding (GO:0005509)|ion channel binding (GO:0044325)|phosphoprotein binding (GO:0051219)|protein kinase C binding (GO:0005080)|RNA binding (GO:0003723)	p.E321_E322delEE(1)		breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(7)|ovary(2)|pancreas(1)|prostate(3)	19						aggaggaggaggaggaagaag	0.632																																																1	Deletion - In frame(1)	central_nervous_system(1)											28	28	28					19																	11558367		2200	4298	6498	SO:0001819	synonymous_variant	5589				CCDS32911.1, CCDS45977.1, CCDS74286.1	19p13.2	2014-01-30			ENSG00000130175	ENSG00000130175	2.7.11.1	"EF-hand domain containing"	9411	protein-coding gene	gene with protein product		177060	"polycystic liver disease"	G19P1, PCLD, PLD1		12529853	Standard	NM_002743		Approved		uc002mrt.3	P14314	OTTHUMG00000182029	ENST00000589838.1:c.963G>A	19.37:g.11558367G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K318|Q96BU9|Q96D06|Q9P0W9	Silent	SNP	ENST00000589838.1	37	CCDS32911.1																																																																																				0.632	PRKCSH-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000458817.1			A	11558367	G	A	11558367	2	1	676	1	0	0	0	0	0	0	0	1	12526	991	35	2		2	PRKCSH	19	11558367	Silent	SNP	G	TCGA-KO-8405-01A-11D-2310-10		11558367	47570616	49	43643										
ZNF793	390927	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	38028153	38028153	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	tcactgtgagaaagctttcaCccagaacccggcacttatgt	8	12	2	2			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr19:38028153C>G	ENST00000587143.1	+	6	828	c.593C>G	c.(592-594)aCc>aGc	p.T198S	ZNF793_ENST00000445217.1_Missense_Mutation_p.T198S|ZNF793_ENST00000542455.1_Missense_Mutation_p.T198S|ZNF793_ENST00000588578.1_3'UTR|ZNF793_ENST00000589319.1_Intron			Q6ZN11	ZN793_HUMAN	zinc finger protein 793	198					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			kidney(2)|lung(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AAAGCTTTCACCCAGAACCCG	0.463																																					Melanoma(44;400 1431 1499 19093)											0													34	34	34					19																	38028153		1869	4106	5975	SO:0001583	missense	390927			AK131417	CCDS46062.1	19q13.12	2013-01-08				ENSG00000188227		"Zinc fingers, C2H2-type", "-"	33115	protein-coding gene	gene with protein product							Standard	NM_001013659		Approved		uc010efm.3	Q6ZN11		ENST00000587143.1:c.593C>G	19.37:g.38028153C>G	ENSP00000468605:p.Thr198Ser	Somatic		WXS	Illumina HiSeq	Phase_I	E9PGN4|Q7Z3Q9	Missense_Mutation	SNP	ENST00000587143.1	37	CCDS46062.1	.	.	.	.	.	.	.	.	.	.	C	0.003	-2.516748	0.00151	.	.	ENSG00000188227	ENST00000542455;ENST00000418827;ENST00000445217;ENST00000322299	T;T	0.14391	2.51;2.51	4.02	2.94	0.34122	.	0.307194	0.23762	N	0.044815	T	0.03959	0.0111	N	0.02111	-0.68	0.20975	N	0.999816	B	0.02656	0.0	B	0.01281	0.0	T	0.42749	-0.9433	10	0.02654	T	1	.	9.5982	0.39587	0.0:0.2693:0.7307:0.0	.	198	E9PGN4	.	S	198;198;198;197	ENSP00000444355:T198S;ENSP00000396402:T198S	ENSP00000318811:T197S	T	+	2	0	ZNF793	42719993	0.000000	0.05858	0.266000	0.24541	0.069000	0.16628	-1.377000	0.02558	0.981000	0.38548	-0.228000	0.12330	ACC		0.463	ZNF793-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458621.1	NM_001013659		G	38028153	C	G	38028153	3	3	676	1	0	0	0	0	1	0	0	0	18177	507	18	4	607	4	ZNF793	19	38028153	Missense_Mutation	SNP	C	TCGA-KO-8405-01A-11D-2310-10	26469786	38028153	21100830	50	43644										
CNTD2	79935	broad.mit.edu	37	chr19	40730638	40730639	+	Frame_Shift_Ins	INS	-	-	C													0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	agatacctacgtgcacctggINSaccagccagtctaccaccag					rs199816045		TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr19:40730638_40730639insC	ENST00000430325.2	-	2	395_396	c.347_348insG	c.(346-348)gtcfs	p.V116fs	CNTD2_ENST00000433940.1_Intron|CNTD2_ENST00000513948.1_Frame_Shift_Ins_p.V10fs	NM_024877.3	NP_079153.2	Q9H8S5	CNTD2_HUMAN	cyclin N-terminal domain containing 2	116	Cyclin N-terminal.				regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)					lung(1)|prostate(1)	2						CGTGCACCTGGACCAGCCAGTC	0.698																																																0																																										SO:0001589	frameshift_variant	79935			AK023327	CCDS12551.1, CCDS12551.2	19q13.2	2014-07-03				ENSG00000105219			25805	protein-coding gene	gene with protein product	"cyclin P"					11237006	Standard	NM_024877		Approved	FLJ13265, CCNP	uc010xvi.2	Q9H8S5		ENST00000430325.2:c.347_348insG	19.37:g.40730638_40730639insC	ENSP00000396755:p.Val116fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DX65	Frame_Shift_Ins	INS	ENST00000430325.2	37	CCDS12551.2																																																																																				0.698	CNTD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360785.1	NM_024877		C	40730639	-	C	40730638	7	5	676	1	0	1	1	0	0	0	0	0	3638	1161	41	0	591	0	CNTD2	19	40730638	Frame_Shift_Ins	INS	-	TCGA-KO-8405-01A-11D-2310-10	2702485	40730638	18398345	51	43645										
ZNF233	353355	broad.mit.edu	37	chr19	44778459	44778459	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	gaagggctttagtcagagttCgcatctccaagaccatcagc	10	11	3	2	rs200116301		TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr19:44778459C>T	ENST00000391958.2	+	5	1773	c.1646C>T	c.(1645-1647)tCg>tTg	p.S549L	ZNF233_ENST00000592581.1_3'UTR|ZNF233_ENST00000334152.1_Missense_Mutation_p.S531L|ZNF235_ENST00000589799.1_Intron	NM_181756.2	NP_861421.2	A6NK53	ZN233_HUMAN	zinc finger protein 233	549					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(4)|skin(3)|urinary_tract(1)	20		Prostate(69;0.0435)|all_neural(266;0.226)				AGTCAGAGTTCGCATCTCCAA	0.468													C|||	1	0.000199681	0.0	0.0	5008	,	,		22501	0.0		0.001	False		,,,				2504	0.0															0								C	LEU/SER,LEU/SER	1,4405	2.1+/-5.4	0,1,2202	103	93	96		1646,1646	1.6	0	19		96	0,8600		0,0,4300	no	missense,missense	ZNF233	NM_181756.2,NM_001207005.1	145,145	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	benign,benign	549/671,549/671	44778459	1,13005	2203	4300	6503	SO:0001583	missense	353355			AY166792	CCDS33047.1	19q13.31	2013-01-08				ENSG00000159915		"Zinc fingers, C2H2-type", "-"	30946	protein-coding gene	gene with protein product						12743021	Standard	NM_001207005		Approved	FLJ38032	uc021uvi.1	A6NK53		ENST00000391958.2:c.1646C>T	19.37:g.44778459C>T	ENSP00000375820:p.Ser549Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN78|B2RN79|Q86WL8	Missense_Mutation	SNP	ENST00000391958.2	37	CCDS33047.1	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	C	14.72	2.619655	0.46736	2.27E-4	0.0	ENSG00000159915	ENST00000334152;ENST00000391958;ENST00000280305	T;T	0.07444	3.19;3.19	3.87	1.56	0.23342	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.11067	0.0270	M	0.77313	2.365	0.09310	N	1	B	0.34181	0.44	B	0.20955	0.032	T	0.09122	-1.0689	9	0.87932	D	0	-2.1334	10.7398	0.46147	0.4941:0.5059:0.0:0.0	.	549	A6NK53	ZN233_HUMAN	L	531;549;444	ENSP00000334957:S531L;ENSP00000375820:S549L	ENSP00000280305:S444L	S	+	2	0	ZNF233	49470299	0.000000	0.05858	0.001000	0.08648	0.841000	0.47740	0.427000	0.21379	0.194000	0.20326	0.609000	0.83330	TCG		0.468	ZNF233-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000460737.1	NM_181756		T	44778459	C	T	44778459	3	4	676	1	0	0	0	0	1	0	0	0	17798	893	31	1	1660	1	ZNF233	19	44778459	Missense_Mutation	SNP	C	TCGA-KO-8405-01A-11D-2310-10	4047821	44778459	14350524	52	43646										
LILRB3	11025	mdanderson.org	37	chr19	54724407	54724407	+	Missense_Mutation	SNP	C	C	T													0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	agcgccctcacctgagaccaCgagctccaggggctcactgg					rs1132608	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr19:54724407C>T	ENST00000391750.1	-	7	1385	c.1249G>A	c.(1249-1251)Gtg>Atg	p.V417M	LILRB3_ENST00000245620.9_Missense_Mutation_p.V417M|LILRA6_ENST00000270464.5_Missense_Mutation_p.V417M|LILRA6_ENST00000440558.2_Missense_Mutation_p.V417M|LILRB3_ENST00000469273.1_5'UTR|LILRB3_ENST00000346401.6_Missense_Mutation_p.V417M|LILRB3_ENST00000407860.2_Missense_Mutation_p.V417M|LILRA6_ENST00000419410.2_Intron|LILRB3_ENST00000424807.1_Missense_Mutation_p.V417M|LILRA6_ENST00000391735.3_Intron			O75022	LIRB3_HUMAN	leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3	417	Ig-like C2-type 4.			V -> M (in Ref. 1; AAB68668). {ECO:0000305}.	cell surface receptor signaling pathway (GO:0007166)|defense response (GO:0006952)|immune system process (GO:0002376)|negative regulation of osteoclast differentiation (GO:0045671)	integral component of plasma membrane (GO:0005887)	receptor activity (GO:0004872)|transmembrane signaling receptor activity (GO:0004888)			endometrium(3)|kidney(13)|large_intestine(1)|lung(6)|ovary(2)|prostate(5)|skin(2)|stomach(1)|urinary_tract(1)	34	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)		CCTGAGACCACGAGCTCCAGG	0.662													.|||	1775	0.354433	0.1573	0.3213	5008	,	,		7150	0.3919		0.4056	False		,,,				2504	0.5532															0													22	12	16					19																	54724407		2016	2580	4596	SO:0001583	missense	11025			U91928	CCDS33105.1, CCDS46175.1	19q13.4	2013-01-11			ENSG00000204577	ENSG00000204577		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6607	protein-coding gene	gene with protein product		604820				9278324, 9382880	Standard	NM_006864		Approved	LIR-3, HL9, ILT5, LIR3, CD85a	uc002qee.1	O75022	OTTHUMG00000066626	ENST00000391750.1:c.1249G>A	19.37:g.54724407C>T	ENSP00000375630:p.Val417Met	Somatic		WXS	Illumina HiSeq	Phase_I	C9J1P3|C9JIP1|O15471|Q86U49	Missense_Mutation	SNP	ENST00000391750.1	37	CCDS33105.1	1066	0.4880952380952381	88	0.17886178861788618	202	0.5580110497237569	349	0.6101398601398601	427	0.5633245382585752	T	5.640	0.302776	0.10678	.	.	ENSG00000204577;ENSG00000204577;ENSG00000204577;ENSG00000204577;ENSG00000204577;ENSG00000244482;ENSG00000244482	ENST00000391750;ENST00000424807;ENST00000346401;ENST00000245620;ENST00000407860;ENST00000440558;ENST00000270464	T;T;T;T;T;T;T	0.00848	5.62;5.62;5.62;5.62;5.62;5.62;5.62	2.88	-5.77	0.02369	Immunoglobulin subtype (1);Immunoglobulin-like fold (1);	4.499180	0.01074	N	0.004874	T	0.00012	0.0000	L	0.53671	1.685	0.80722	P	0.0	B;B;B;P;P;B	0.51147	0.134;0.21;0.362;0.942;0.496;0.426	B;B;B;B;B;B	0.43680	0.063;0.058;0.177;0.427;0.081;0.086	T	0.41088	-0.9528	9	0.33940	T	0.23	.	6.447	0.21882	0.0:0.2001:0.3624:0.4374	rs1132608;rs2261471;rs58860234	417;417;417;417;417;417	B5MCX0;F8WCY4;F8W6G6;O75022-2;O75022;O75022-3	.;.;.;.;LIRB3_HUMAN;.	M	417	ENSP00000375630:V417M;ENSP00000412771:V417M;ENSP00000345184:V417M;ENSP00000245620:V417M;ENSP00000384274:V417M;ENSP00000390120:V417M;ENSP00000270464:V417M	ENSP00000270464:V417M	V	-	1	0	LILRB3;LILRA6	59416219	0.000000	0.05858	0.000000	0.03702	0.004000	0.04260	-4.372000	0.00244	-2.411000	0.00571	-2.477000	0.00200	GTG		0.662	LILRB3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000142844.5	NM_006864		T	54724407	C	T	54724407	3	4	676	1	0	0	0	0	1	0	0	0	8799	536	19	1	681	1	LILRB3	19	54724407	Missense_Mutation	SNP	C	TCGA-KO-8405-01A-11D-2310-10	9945948	54724407	4404576	53	43647	441	2								
LILRB3	11025	mdanderson.org	37	chr19	54724411	54724411	+	Silent	SNP	C	C	T													0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ccctcacctgagaccacgagCtccaggggctcactggggtg					rs1132607	byFrequency	TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr19:54724411C>T	ENST00000391750.1	-	7	1381	c.1245G>A	c.(1243-1245)gaG>gaA	p.E415E	LILRB3_ENST00000245620.9_Silent_p.E415E|LILRA6_ENST00000270464.5_Silent_p.E415E|LILRA6_ENST00000440558.2_Silent_p.E415E|LILRB3_ENST00000469273.1_5'UTR|LILRB3_ENST00000346401.6_Silent_p.E415E|LILRB3_ENST00000407860.2_Silent_p.E415E|LILRA6_ENST00000419410.2_Intron|LILRB3_ENST00000424807.1_Silent_p.E415E|LILRA6_ENST00000391735.3_Intron			O75022	LIRB3_HUMAN	leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3	415	Ig-like C2-type 4.				cell surface receptor signaling pathway (GO:0007166)|defense response (GO:0006952)|immune system process (GO:0002376)|negative regulation of osteoclast differentiation (GO:0045671)	integral component of plasma membrane (GO:0005887)	receptor activity (GO:0004872)|transmembrane signaling receptor activity (GO:0004888)			endometrium(3)|kidney(13)|large_intestine(1)|lung(6)|ovary(2)|prostate(5)|skin(2)|stomach(1)|urinary_tract(1)	34	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)		AGACCACGAGCTCCAGGGGCT	0.657													.|||	1334	0.266374	0.1536	0.2536	5008	,	,		6892	0.378		0.3091	False		,,,				2504	0.2689															0													21	13	17					19																	54724411		1977	2343	4320	SO:0001819	synonymous_variant	11025			U91928	CCDS33105.1, CCDS46175.1	19q13.4	2013-01-11			ENSG00000204577	ENSG00000204577		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6607	protein-coding gene	gene with protein product		604820				9278324, 9382880	Standard	NM_006864		Approved	LIR-3, HL9, ILT5, LIR3, CD85a	uc002qee.1	O75022	OTTHUMG00000066626	ENST00000391750.1:c.1245G>A	19.37:g.54724411C>T		Somatic		WXS	Illumina HiSeq	Phase_I	C9J1P3|C9JIP1|O15471|Q86U49	Silent	SNP	ENST00000391750.1	37	CCDS33105.1																																																																																				0.657	LILRB3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000142844.5	NM_006864		T	54724411	C	T	54724411	2	4	676	1	0	0	0	0	0	0	0	1	8799	796	28	2		2	LILRB3	19	54724411	Silent	SNP	C	TCGA-KO-8405-01A-11D-2310-10	4	54724411	4404572	54	43648	441	2								
MAP1LC3A	84557	broad.mit.edu	37	chr20	33147203	33147203	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	gctgcccgtcctggacaagaCcaagtttttggtcccggacc	11	14	0	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chr20:33147203C>T	ENST00000360668.3	+	3	910	c.149C>T	c.(148-150)aCc>aTc	p.T50I	MAP1LC3A_ENST00000397709.1_Missense_Mutation_p.T50I|MAP1LC3A_ENST00000374837.3_Missense_Mutation_p.T54I|MAP1LC3A_ENST00000476428.1_3'UTR			Q9H492	MLP3A_HUMAN	microtubule-associated protein 1 light chain 3 alpha	50					autophagic vacuole assembly (GO:0000045)|mitochondrion degradation (GO:0000422)	autophagic vacuole (GO:0005776)|autophagic vacuole membrane (GO:0000421)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|late endosome (GO:0005770)|microtubule (GO:0005874)|organelle membrane (GO:0031090)	phosphatidylethanolamine binding (GO:0008429)|phospholipid binding (GO:0005543)			cervix(1)|kidney(1)|large_intestine(1)|upper_aerodigestive_tract(2)	5						CTGGACAAGACCAAGTTTTTG	0.652																																																0													44	45	44					20																	33147203		2201	4296	6497	SO:0001583	missense	84557				CCDS13237.1, CCDS13238.1	20q11.22	2014-02-12			ENSG00000101460	ENSG00000101460			6838	protein-coding gene	gene with protein product		601242				8833088, 17580304	Standard	NM_032514		Approved	MAP1BLC3, MAP1ALC3, LC3, LC3A, ATG8E	uc002xaq.2	Q9H492	OTTHUMG00000032306	ENST00000360668.3:c.149C>T	20.37:g.33147203C>T	ENSP00000353886:p.Thr50Ile	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5P4|E1P5P5|Q9BXW5	Missense_Mutation	SNP	ENST00000360668.3	37	CCDS13238.1	.	.	.	.	.	.	.	.	.	.	C	20.8	4.051111	0.75960	.	.	ENSG00000101460	ENST00000374837;ENST00000360668;ENST00000397709	T;T;T	0.44083	0.93;0.93;0.93	5.08	5.08	0.68730	.	0.000000	0.85682	D	0.000000	T	0.63768	0.2539	M	0.70595	2.14	0.80722	D	1	B;D	0.69078	0.06;0.997	B;D	0.65987	0.116;0.94	T	0.67681	-0.5608	10	0.66056	D	0.02	-1.7041	18.0581	0.89369	0.0:1.0:0.0:0.0	.	50;54	Q9H492;Q9H492-2	MLP3A_HUMAN;.	I	54;50;50	ENSP00000363970:T54I;ENSP00000353886:T50I;ENSP00000380821:T50I	ENSP00000353886:T50I	T	+	2	0	MAP1LC3A	32610864	1.000000	0.71417	1.000000	0.80357	0.951000	0.60555	6.013000	0.70776	2.357000	0.79964	0.313000	0.20887	ACC		0.652	MAP1LC3A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078801.2	NM_181509		T	33147203	C	T	33147203	3	4	676	1	0	0	0	0	1	0	0	0	9237	507	18	2	215	2	MAP1LC3A	20	33147203	Missense_Mutation	SNP	C	TCGA-KO-8405-01A-11D-2310-10		33147203	29878317	55	43649										
CXorf23	256643	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	19983778	19983778	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	cctctccacgtctttaggtcTttttgatgtgtgtccatatt	7	10	3	1			TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chrX:19983778T>A	ENST00000379682.4	-	3	691	c.658A>T	c.(658-660)Aga>Tga	p.R220*	CXorf23_ENST00000379687.3_Nonsense_Mutation_p.R220*|CXorf23_ENST00000356980.3_Nonsense_Mutation_p.R220*			A2AJT9	CX023_HUMAN	chromosome X open reading frame 23	220						mitochondrion (GO:0005739)				endometrium(2)|large_intestine(1)|lung(6)|skin(1)|urinary_tract(1)	11						TCTTTAGGTCTTTTTGATGTG	0.453																																																0													170	149	156					X																	19983778		1907	4124	6031	SO:0001587	stop_gained	256643			AL833278	CCDS14194.2	Xp22.13	2012-11-27			ENSG00000173681	ENSG00000173681			27413	protein-coding gene	gene with protein product						14702039	Standard	NM_198279		Approved		uc004czp.3	A2AJT9	OTTHUMG00000021226	ENST00000379682.4:c.658A>T	X.37:g.19983778T>A	ENSP00000369004:p.Arg220*	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4E8|Q5VSM7|Q5VSN1|Q6ZS60|Q8N1W7	Nonsense_Mutation	SNP	ENST00000379682.4	37		.	.	.	.	.	.	.	.	.	.	T	38	7.199527	0.98129	.	.	ENSG00000173681	ENST00000379687;ENST00000379682;ENST00000356980;ENST00000539038	.	.	.	5.78	5.78	0.91487	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.0846	0.72142	0.0:0.0:0.0:1.0	.	.	.	.	X	220;220;220;108	.	.	R	-	1	2	CXorf23	19893699	1.000000	0.71417	0.948000	0.38648	0.984000	0.73092	5.464000	0.66719	1.945000	0.56424	0.446000	0.29264	AGA		0.453	CXorf23-006	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000055991.2	NM_198279		A	19983778	T	A	19983778	4	1	676	1	0	0	0	0	0	1	0	0	4105	1617	56	5	1426	5	CXorf23	23	19983778	Nonsense_Mutation	SNP	T	TCGA-KO-8405-01A-11D-2310-10		19983778	135286782	56	43650										
RLIM	51132	mdanderson.org	37	chrX	73811737	73811737	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ctaggactggaactggaactTgaactggaactggaactcga	12	8	0	1	rs113198776		TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chrX:73811737T>A	ENST00000332687.6	-	4	1631	c.1413A>T	c.(1411-1413)tcA>tcT	p.S471S	RLIM_ENST00000349225.2_Silent_p.S471S	NM_016120.3	NP_057204.2	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	471	Poly-Ser.|Ser-rich.				negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|protein ubiquitination (GO:0016567)|random inactivation of X chromosome (GO:0060816)|transcription, DNA-templated (GO:0006351)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	ligase activity (GO:0016874)|transcription corepressor activity (GO:0003714)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(14)|ovary(2)|prostate(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	30						aactggaacttgaactggaac	0.478																																					Esophageal Squamous(169;1899 1923 14997 18818 32118)											0													38	38	38					X																	73811737		2203	4300	6503	SO:0001819	synonymous_variant	51132			AF155109	CCDS14427.1	Xq13-q21	2013-01-09	2009-02-17	2009-02-17	ENSG00000131263	ENSG00000131263		"RING-type (C3HC4) zinc fingers"	13429	protein-coding gene	gene with protein product	"ring zinc finger protein NY-REN-43antigen", "LIM domain interacting ring finger protein"	300379	"ring finger protein 12"	RNF12		10508479	Standard	NM_016120		Approved	NY-REN-43, MGC15161	uc004ebw.3	Q9NVW2	OTTHUMG00000021859	ENST00000332687.6:c.1413A>T	X.37:g.73811737T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBQ1|D3DTE0|Q96D38|Q9Y598	Silent	SNP	ENST00000332687.6	37	CCDS14427.1																																																																																				0.478	RLIM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057268.1	NM_016120		A	73811737	T	A	73811737	2	1	676	1	0	0	0	0	0	0	0	1	13403	1799	63	5		5	RLIM	23	73811737	Silent	SNP	T	TCGA-KO-8405-01A-11D-2310-10	53827959	73811737	81458823	57	43651										
MAGEC1	9947	mdanderson.org	37	chrX	140994010	140994010	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0350877192982456	2	1	0.760839160839161	2.78974358974359	0	0.333333333333333	1	0	ctctccagattcctgtgagcCcctccttctcctccacttta	4	18	2	2	rs146798989		TCGA-KO-8405-01A-11D-2310-10	TCGA-KO-8405-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	6400c324-2c94-477d-acb9-669d4ea46f1e	43634c4d-e2ed-4b39-bac2-474388af50e5	g.chrX:140994010C>T	ENST00000285879.4	+	4	1106	c.820C>T	c.(820-822)Ccc>Tcc	p.P274S	MAGEC1_ENST00000406005.2_Intron	NM_005462.4	NP_005453.2	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	274				P -> R (in Ref. 1 and 2). {ECO:0000305}.						breast(3)|central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(22)|lung(60)|ovary(1)|pancreas(1)|prostate(1)|skin(7)|stomach(5)|upper_aerodigestive_tract(7)|urinary_tract(1)	127	Acute lymphoblastic leukemia(192;6.56e-05)					TCCTGTGAGCCCCTCCTTCTC	0.483										HNSCC(15;0.026)			-|||	3	0.000794702	0.0015	0.0	3775	,	,		12386	0.0		0.0	False		,,,				2504	0.001															0													88	74	79					X																	140994010		2131	3945	6076	SO:0001583	missense	9947			AF064589	CCDS35417.1	Xq26	2009-03-18			ENSG00000155495	ENSG00000155495			6812	protein-coding gene	gene with protein product	"cancer/testis antigen family 7, member 1"	300223				9485030, 9618514	Standard	NM_005462		Approved	MAGE-C1, CT7, MGC39366, CT7.1	uc004fbt.3	O60732	OTTHUMG00000022569	ENST00000285879.4:c.820C>T	X.37:g.140994010C>T	ENSP00000285879:p.Pro274Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A0PK03|O75451|Q8TCV4	Missense_Mutation	SNP	ENST00000285879.4	37	CCDS35417.1	80	0.04822182037371911	22	0.045081967213114756	24	0.06741573033707865	15	0.026501766784452298	26	0.03430079155672823	t	0.006	-2.096041	0.00364	.	.	ENSG00000155495	ENST00000285879;ENST00000370511;ENST00000370510	T;T	0.10573	4.35;2.86	.	.	.	.	.	.	.	.	T	0.00241	0.0007	N	0.08118	0	0.09310	N	1	P	0.36222	0.544	B	0.23150	0.044	T	0.34850	-0.9812	7	0.06757	T	0.87	.	.	.	.	rs57859161	274	O60732	MAGC1_HUMAN	S	274;76;75	ENSP00000285879:P274S;ENSP00000359542:P76S	ENSP00000285879:P274S	P	+	1	0	MAGEC1	140821676	0.000000	0.05858	0.006000	0.13384	0.006000	0.05464	-4.502000	0.00224	-1.665000	0.01477	-1.695000	0.00724	CCC		0.483	MAGEC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058604.1	NM_005462		T	140994010	C	T	140994010	3	4	676	1	0	0	0	0	1	0	0	0	9187	623	22	2	826	2	MAGEC1	23	140994010	Missense_Mutation	SNP	C	TCGA-KO-8405-01A-11D-2310-10	67182273	140994010	14276550	58	43652										
NUDC	10726	hgsc.bcm.edu	37	chr1	27268032	27268033	+	In_Frame_Ins	INS	-	-	GGG													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ccggcaggaggccgagcggcINSgggagaaggcggagcgggcg					rs374895246		TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr1:27268032_27268033insGGG	ENST00000321265.5	+	3	367_368	c.244_245insGGG	c.(244-246)cgg>cGGGgg	p.82_83insG		NM_006600.3	NP_006591.1	Q9Y266	NUDC_HUMAN	nudC nuclear distribution protein	82					cell proliferation (GO:0008283)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|multicellular organismal development (GO:0007275)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|microtubule (GO:0005874)|nucleoplasm (GO:0005654)				cervix(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|ovary(1)	8				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;6.1e-51)|OV - Ovarian serous cystadenocarcinoma(117;2.87e-29)|Colorectal(126;5.74e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000281)|STAD - Stomach adenocarcinoma(196;0.000604)|KIRC - Kidney renal clear cell carcinoma(1967;0.000739)|READ - Rectum adenocarcinoma(331;0.0421)		GGCCGAGCGGCGGGAGAAGGCG	0.614																																																0																																										SO:0001652	inframe_insertion	10726				CCDS292.1	1p35-p34	2013-08-06	2013-08-06		ENSG00000090273	ENSG00000090273			8045	protein-coding gene	gene with protein product		610325	"nuclear distribution gene C homolog (A. nidulans)", "nuclear distribution C homolog (A. nidulans)"				Standard	NM_006600		Approved	NudC	uc001bng.2	Q9Y266	OTTHUMG00000004226	ENST00000321265.5:c.245_247dupGGG	1.37:g.27268033_27268035dupGGG	ENSP00000319664:p.Arg82_Glu83insGly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5QP31|Q5QP35|Q9H0N2|Q9Y2B6	In_Frame_Ins	INS	ENST00000321265.5	37	CCDS292.1																																																																																				0.614	NUDC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012172.2			GGG	27268033	-	GGG	27268032	7	5	677	1	0	1	1	0	0	0	0	0	10728	759	27	0	254	0	NUDC	1	27268032	In_Frame_Ins	INS	-	TCGA-KO-8406-01A-11D-2310-10		27268032	221982589	1	43653										
TOE1	114034	broad.mit.edu	37	chr1	45808598	45808598	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ctatccttccagcatgagggAccatattgattaccgctgct	8	12	0	2			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr1:45808598A>G	ENST00000372090.5	+	7	1419	c.836A>G	c.(835-837)gAc>gGc	p.D279G	MUTYH_ENST00000528013.2_5'Flank|TESK2_ENST00000486676.1_5'Flank|MUTYH_ENST00000488731.2_5'Flank|MUTYH_ENST00000372100.5_5'Flank|MUTYH_ENST00000456914.2_5'Flank|MUTYH_ENST00000372104.1_5'Flank|MUTYH_ENST00000354383.6_5'Flank|MUTYH_ENST00000531105.1_5'Flank|MUTYH_ENST00000448481.1_5'Flank|MUTYH_ENST00000372115.3_5'Flank|MUTYH_ENST00000528332.2_5'Flank|MUTYH_ENST00000529984.1_5'Flank|MUTYH_ENST00000372110.3_5'Flank|MUTYH_ENST00000372098.3_5'Flank|TOE1_ENST00000495703.1_3'UTR|MUTYH_ENST00000355498.2_5'Flank|TOE1_ENST00000539779.1_Missense_Mutation_p.D199G|MUTYH_ENST00000450313.1_5'Flank	NM_025077.3	NP_079353.3	Q96GM8	TOE1_HUMAN	target of EGR1, member 1 (nuclear)	279						nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(3)|skin(1)	11	Acute lymphoblastic leukemia(166;0.155)					AGCATGAGGGACCATATTGAT	0.572																																																0													71	76	74					1																	45808598		2203	4300	6503	SO:0001583	missense	114034				CCDS521.1	1p33	2011-02-03			ENSG00000132773	ENSG00000132773			15954	protein-coding gene	gene with protein product		613931				12562764	Standard	NM_025077		Approved		uc009vxq.3	Q96GM8	OTTHUMG00000007678	ENST00000372090.5:c.836A>G	1.37:g.45808598A>G	ENSP00000361162:p.Asp279Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DEM6|Q6IA35|Q8IWN5|Q9H846	Missense_Mutation	SNP	ENST00000372090.5	37	CCDS521.1	.	.	.	.	.	.	.	.	.	.	A	7.504	0.653290	0.14580	.	.	ENSG00000132773	ENST00000372090;ENST00000539779	T;T	0.30714	1.52;1.53	5.61	2.55	0.30701	Ribonuclease H-like (1);	1.049460	0.07309	N	0.875532	T	0.17408	0.0418	N	0.04959	-0.14	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.08055	0.003;0.002	T	0.29792	-1.0000	10	0.21014	T	0.42	0.2034	12.4584	0.55718	0.1157:0.508:0.3763:0.0	.	199;279	B4DEM6;Q96GM8	.;TOE1_HUMAN	G	279;199	ENSP00000361162:D279G;ENSP00000438900:D199G	ENSP00000361162:D279G	D	+	2	0	TOE1	45581185	0.000000	0.05858	0.739000	0.30968	0.953000	0.61014	-0.037000	0.12164	0.341000	0.23771	-0.168000	0.13345	GAC		0.572	TOE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000020517.1	NM_025077		G	45808598	A	G	45808598	3	3	677	1	0	0	0	0	1	0	0	0	16361	275	10	3	862	3	TOE1	1	45808598	Missense_Mutation	SNP	A	TCGA-KO-8406-01A-11D-2310-10	18540566	45808598	203442023	2	43654										
XCL1	6375	broad.mit.edu	37	chr1	168550330	168550330	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	taaaagtctgtgctgatccaCaagccacatgggtgagagac	11	9	1	3			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr1:168550330C>A	ENST00000367818.3	+	3	382	c.217C>A	c.(217-219)Caa>Aaa	p.Q73K		NM_002995.2	NP_002986.1	P47992	XCL1_HUMAN	chemokine (C motif) ligand 1	73					cell-cell signaling (GO:0007267)|cellular response to interleukin-4 (GO:0071353)|cellular response to transforming growth factor beta stimulus (GO:0071560)|immune response (GO:0006955)|mature natural killer cell chemotaxis (GO:0035782)|negative regulation of CD4-positive, alpha-beta T cell proliferation (GO:2000562)|negative regulation of interferon-gamma production (GO:0032689)|negative regulation of interleukin-2 production (GO:0032703)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of T cell cytokine production (GO:0002725)|negative regulation of T-helper 1 cell activation (GO:2000518)|negative regulation of T-helper 1 type immune response (GO:0002826)|negative regulation of transcription, DNA-templated (GO:0045892)|neutrophil chemotaxis (GO:0030593)|positive regulation of B cell chemotaxis (GO:2000538)|positive regulation of CD4-positive, alpha-beta T cell proliferation (GO:2000563)|positive regulation of CD8-positive, alpha-beta T cell proliferation (GO:2000566)|positive regulation of granzyme A production (GO:2000513)|positive regulation of granzyme B production (GO:0071663)|positive regulation of immunoglobulin production in mucosal tissue (GO:2000558)|positive regulation of interleukin-10 production (GO:0032733)|positive regulation of leukocyte chemotaxis (GO:0002690)|positive regulation of natural killer cell chemotaxis (GO:2000503)|positive regulation of neutrophil chemotaxis (GO:0090023)|positive regulation of release of sequestered calcium ion into cytosol (GO:0051281)|positive regulation of T cell chemotaxis (GO:0010820)|positive regulation of T cell cytokine production (GO:0002726)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|positive regulation of T-helper 1 cell cytokine production (GO:2000556)|positive regulation of T-helper 2 cell cytokine production (GO:2000553)|positive regulation of thymocyte migration (GO:2000412)|positive regulation of transforming growth factor beta production (GO:0071636)|regulation of inflammatory response (GO:0050727)|release of sequestered calcium ion into cytosol (GO:0051209)|response to virus (GO:0009615)|signal transduction (GO:0007165)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	chemokine activity (GO:0008009)|chemokine receptor binding (GO:0042379)|protein homodimerization activity (GO:0042803)			kidney(2)|lung(7)|upper_aerodigestive_tract(1)	10	all_hematologic(923;0.208)					TGCTGATCCACAAGCCACATG	0.483																																																0													196	180	185					1																	168550330		2203	4300	6503	SO:0001583	missense	6375			D43768	CCDS1274.1	1q24.2	2014-01-30	2002-08-22	2002-08-23	ENSG00000143184	ENSG00000143184		"Endogenous ligands"	10645	protein-coding gene	gene with protein product		600250	"small inducible cytokine subfamily C, member 1 (lymphotactin)"	LTN, SCYC1		7602097, 7875320	Standard	NM_002995		Approved	LPTN, ATAC, SCM-1a, SCM-1, lymphotactin	uc001gfo.2	P47992	OTTHUMG00000034548	ENST00000367818.3:c.217C>A	1.37:g.168550330C>A	ENSP00000356792:p.Gln73Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q52MA8	Missense_Mutation	SNP	ENST00000367818.3	37	CCDS1274.1	.	.	.	.	.	.	.	.	.	.	C	7.368	0.626277	0.14257	.	.	ENSG00000143184	ENST00000367818	T	0.03951	3.75	4.83	-9.64	0.00541	Chemokine interleukin-8-like domain (3);	1.098330	0.06925	N	0.810057	T	0.00784	0.0026	N	0.12853	0.265	0.25698	N	0.985611	B	0.17268	0.021	B	0.15052	0.012	T	0.47341	-0.9125	9	0.06099	T	0.92	0.2196	19.3302	0.94283	0.0965:0.1385:0.765:0.0	.	73	P47992	XCL1_HUMAN	K	73	ENSP00000356792:Q73K	ENSP00000356792:Q73K	Q	+	1	0	XCL1	166816954	0.000000	0.05858	0.000000	0.03702	0.723000	0.41478	-1.260000	0.02858	-1.502000	0.01814	0.655000	0.94253	CAA		0.483	XCL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083612.1	NM_002995		A	168550330	C	A	168550330	3	1	677	1	0	0	0	0	1	0	0	0	17435	479	17	4	227	4	XCL1	1	168550330	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10	122741732	168550330	80700291	3	43655										
C1orf106	55765	mdanderson.org	37	chr1	200880978	200880978	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	cgcctggcgagtgggagctgCgccgcgcagccccgggccct	17	17	0	0	rs296520	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr1:200880978C>T	ENST00000367342.4	+	9	1812	c.1612C>T	c.(1612-1614)Cgc>Tgc	p.R538C	C1orf106_ENST00000413687.2_Missense_Mutation_p.R453C	NM_018265.3	NP_060735.3	Q3KP66	CA106_HUMAN	chromosome 1 open reading frame 106	538			R -> C (in dbSNP:rs296520). {ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:15489334}.							endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(6)|ovary(1)|prostate(2)|skin(3)|stomach(1)|urinary_tract(2)	21						GTGGGAGCTGCGCCGCGCAGC	0.736													T|||	3966	0.791933	0.6089	0.8213	5008	,	,		12017	0.997		0.7256	False		,,,				2504	0.8753															0								T	CYS/ARG,CYS/ARG	2547,1503		890,767,368	5	7	6		1357,1612	0.8	0	1	dbSNP_79	6	5587,2355		2124,1339,508	no	missense,missense	C1orf106	NM_001142569.2,NM_018265.3	180,180	3014,2106,876	TT,TC,CC		29.6525,37.1111,32.1714	benign,benign	453/579,538/664	200880978	8134,3858	2025	3971	5996	SO:0001583	missense	55765			AK001763	CCDS44292.1	1q32.1	2011-02-15			ENSG00000163362	ENSG00000163362			25599	protein-coding gene	gene with protein product						14702039	Standard	NM_018265		Approved	FLJ10901	uc001gvo.4	Q3KP66	OTTHUMG00000035789	ENST00000367342.4:c.1612C>T	1.37:g.200880978C>T	ENSP00000356311:p.Arg538Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B4E1K9|E9PFY0|Q9NV65|Q9NVI0	Missense_Mutation	SNP	ENST00000367342.4	37		1677	0.7678571428571429	261	0.5304878048780488	285	0.787292817679558	569	0.9947552447552448	562	0.741424802110818	T	0.366	-0.936884	0.02340	0.628889	0.703475	ENSG00000163362	ENST00000367342;ENST00000413687	T;T	0.28454	1.61;1.61	3.39	0.759	0.18438	.	0.912041	0.09365	N	0.812206	T	0.00012	0.0000	N	0.01576	-0.805	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.16188	-1.0411	9	0.29301	T	0.29	-23.0614	3.796	0.08740	0.0:0.2241:0.1856:0.5903	rs296520;rs7519373;rs56757010	538	Q3KP66	CA106_HUMAN	C	538;453	ENSP00000356311:R538C;ENSP00000392105:R453C	ENSP00000356311:R538C	R	+	1	0	C1orf106	199147601	0.004000	0.15560	0.002000	0.10522	0.007000	0.05969	-0.731000	0.04909	-0.124000	0.11724	-0.381000	0.06696	CGC		0.736	C1orf106-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000087057.2	NM_018265		T	200880978	C	T	200880978	3	4	677	1	0	0	0	0	1	0	0	0	1982	768	27	1	1646	1	C1orf106	1	200880978	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10	32330648	200880978	48369643	4	43656										
CD55	1604	bcgsc.ca	37	chr1	207510059	207510059	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	aaaatctctaacttccaaggTcccaccaacagttcagaaac	4	13	2	1			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr1:207510059T>C	ENST00000367064.3	+	7	1133	c.875T>C	c.(874-876)gTc>gCc	p.V292A	CD55_ENST00000367067.4_3'UTR|CD55_ENST00000391920.4_Missense_Mutation_p.V292A|CD55_ENST00000367065.5_Missense_Mutation_p.V292A|CD55_ENST00000367062.4_Missense_Mutation_p.V292A|CD55_ENST00000391921.4_Missense_Mutation_p.V228A|CD55_ENST00000314754.8_Missense_Mutation_p.V292A|CD55_ENST00000367063.2_Missense_Mutation_p.V292A|CD55_ENST00000465534.1_3'UTR	NM_000574.3	NP_000565.1	P08174	DAF_HUMAN	CD55 molecule, decay accelerating factor for complement (Cromer blood group)	292	Ser/Thr-rich.				CD4-positive, alpha-beta T cell cytokine production (GO:0035743)|complement activation, classical pathway (GO:0006958)|innate immune response (GO:0045087)|maternal process involved in parturition (GO:0060137)|negative regulation of complement activation (GO:0045916)|positive regulation of CD4-positive, alpha-beta T cell activation (GO:2000516)|positive regulation of CD4-positive, alpha-beta T cell proliferation (GO:2000563)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|regulation of complement activation (GO:0030449)|regulation of lipopolysaccharide-mediated signaling pathway (GO:0031664)|respiratory burst (GO:0045730)|response to peptide hormone (GO:0043434)|response to virus (GO:0009615)|spermatogenesis (GO:0007283)	anchored component of membrane (GO:0031225)|apical plasma membrane (GO:0016324)|cell surface (GO:0009986)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)	enzyme inhibitor activity (GO:0004857)|lipid binding (GO:0008289)|virus receptor activity (GO:0001618)			breast(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(4)|ovary(1)|prostate(1)|urinary_tract(1)	16					Chloramphenicol(DB00446)	ACTTCCAAGGTCCCACCAACA	0.408																																																0													164	157	159					1																	207510059		2203	4300	6503	SO:0001583	missense	1604			BC001288	CCDS31006.1, CCDS44307.1, CCDS73022.1	1q32	2014-09-17	2006-03-28	2006-02-23	ENSG00000196352	ENSG00000196352		"CD molecules", "Blood group antigens"	2665	protein-coding gene	gene with protein product		125240	"decay accelerating factor for complement (CD55, Cromer blood group system)"	DAF			Standard	XM_005273077		Approved	CR, TC, CROM	uc001hfr.4	P08174	OTTHUMG00000036255	ENST00000367064.3:c.875T>C	1.37:g.207510059T>C	ENSP00000356031:p.Val292Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B1AP14|D3DT83|D3DT84|E7ER69|P09679|P78361|Q14UF2|Q14UF3|Q14UF4|Q14UF5|Q14UF6	Missense_Mutation	SNP	ENST00000367064.3	37	CCDS31006.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	1.626|1.626	-0.520334|-0.520334	0.04171|0.04171	.|.	.|.	ENSG00000196352|ENSG00000196352	ENST00000343420|ENST00000367064;ENST00000367063;ENST00000391921;ENST00000536840;ENST00000314754;ENST00000367065;ENST00000391920;ENST00000367062	.|T;T;T;T;T;T;T	.|0.36157	.|1.32;1.52;1.71;1.44;1.41;1.27;1.3	4.39|4.39	-2.22|-2.22	0.06952|0.06952	.|.	.|2.417300	.|0.01718	.|N	.|0.028155	T|T	0.21674|0.21674	0.0522|0.0522	N|N	0.02296|0.02296	-0.605|-0.605	0.09310|0.09310	N|N	0.999995|0.999995	.|B;P;B;B;B;B	.|0.40970	.|0.005;0.734;0.0;0.001;0.0;0.001	.|B;P;B;B;B;B	.|0.51550	.|0.003;0.673;0.001;0.006;0.001;0.003	T|T	0.17440|0.17440	-1.0369|-1.0369	5|10	.|0.08599	.|T	.|0.76	.|.	4.9011|4.9011	0.13775|0.13775	0.0:0.3138:0.1619:0.5243|0.0:0.3138:0.1619:0.5243	.|.	.|292;228;292;292;292;292	.|Q14UF6;B1AP15;Q14UF4;P08174-2;P08174;B1AP13	.|.;.;.;.;DAF_HUMAN;.	P|A	302|292;292;228;228;292;292;292;292	.|ENSP00000356031:V292A;ENSP00000356030:V292A;ENSP00000375788:V228A;ENSP00000316333:V292A;ENSP00000356032:V292A;ENSP00000375787:V292A;ENSP00000356029:V292A	.|ENSP00000316333:V292A	S|V	+|+	1|2	0|0	CD55|CD55	205576682|205576682	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.015000|0.015000	0.08874|0.08874	-3.047000|-3.047000	0.00630|0.00630	-0.436000|-0.436000	0.07254|0.07254	-0.381000|-0.381000	0.06696|0.06696	TCC|GTC		0.408	CD55-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000088208.2	NM_000574		C	207510059	T	C	207510059	3	2	677	1	0	0	0	0	1	0	0	0	3026	1667	58	3	901	3	CD55	1	207510059	Missense_Mutation	SNP	T	TCGA-KO-8406-01A-11D-2310-10	6629081	207510059	41740562	5	43657										
MTHFD2	10797	hgsc.bcm.edu;bcgsc.ca	37	chr2	74438938	74438938	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	attgatgtgggaataaatagAgttcacgatcctgtaactgc	10	6	1	2			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr2:74438938A>T	ENST00000394053.2	+	7	914	c.834A>T	c.(832-834)agA>agT	p.R278S	MTHFD2_ENST00000409804.1_Missense_Mutation_p.R150S|RP11-287D1.3_ENST00000451608.2_3'UTR|MTHFD2_ENST00000394050.3_Missense_Mutation_p.R114S|MTHFD2_ENST00000409601.1_Intron|MTHFD2_ENST00000264090.4_Missense_Mutation_p.R176S	NM_006636.3	NP_006627.2	P13995	MTDC_HUMAN	methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2, methenyltetrahydrofolate cyclohydrolase	278					folic acid-containing compound biosynthetic process (GO:0009396)|one-carbon metabolic process (GO:0006730)|tetrahydrofolate metabolic process (GO:0046653)	extracellular space (GO:0005615)|mitochondrion (GO:0005739)	magnesium ion binding (GO:0000287)|methenyltetrahydrofolate cyclohydrolase activity (GO:0004477)|methylenetetrahydrofolate dehydrogenase (NAD+) activity (GO:0004487)|methylenetetrahydrofolate dehydrogenase (NADP+) activity (GO:0004488)|phosphate ion binding (GO:0042301)			endometrium(1)|kidney(1)|large_intestine(1)|lung(3)	6					Tetrahydrofolic acid(DB00116)	GAATAAATAGAGTTCACGATC	0.353																																																0													81	76	78					2																	74438938		1889	4102	5991	SO:0001583	missense	10797			X16396	CCDS1935.2	2p13.1	2008-05-02			ENSG00000065911	ENSG00000065911			7434	protein-coding gene	gene with protein product		604887				2587219, 8218174	Standard	NR_027405		Approved		uc002skk.3	P13995	OTTHUMG00000129814	ENST00000394053.2:c.834A>T	2.37:g.74438938A>T	ENSP00000377617:p.Arg278Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q53G90|Q53GV5|Q53S36|Q7Z650	Missense_Mutation	SNP	ENST00000394053.2	37	CCDS1935.2	.	.	.	.	.	.	.	.	.	.	A	18.03	3.531909	0.64972	.	.	ENSG00000065911	ENST00000394053;ENST00000409804;ENST00000264090;ENST00000394050	T;T;T;T	0.60040	0.22;0.22;0.22;0.22	5.54	4.41	0.53225	Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain (1);NAD(P)-binding domain (1);	0.000000	0.85682	D	0.000000	T	0.69557	0.3124	M	0.78285	2.405	0.58432	D	0.999996	D	0.76494	0.999	D	0.70716	0.97	T	0.72663	-0.4225	10	0.72032	D	0.01	.	3.472	0.07570	0.6287:0.2366:0.1347:0.0	.	278	P13995	MTDC_HUMAN	S	278;150;176;114	ENSP00000377617:R278S;ENSP00000386536:R150S;ENSP00000264090:R176S;ENSP00000377614:R114S	ENSP00000264090:R176S	R	+	3	2	MTHFD2	74292446	0.990000	0.36364	0.988000	0.46212	0.819000	0.46315	0.550000	0.23345	2.096000	0.63516	0.529000	0.55759	AGA		0.353	MTHFD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252045.2			T	74438938	A	T	74438938	3	4	677	1	0	0	0	0	1	0	0	0	9936	301	11	5	860	5	MTHFD2	2	74438938	Missense_Mutation	SNP	A	TCGA-KO-8406-01A-11D-2310-10		74438938	168760435	6	43658										
ATF2	1386	ucsc.edu	37	chr2	175986170	175986170	+	Splice_Site	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	attaataaaagcatatactaAccagccacaatgacactgtc	4	10	0	1			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr2:175986170A>C	ENST00000264110.2	-	5	498		c.e5+1		ATF2_ENST00000409437.1_Splice_Site|ATF2_ENST00000426833.3_Splice_Site|ATF2_ENST00000409499.1_Intron|ATF2_ENST00000409635.1_Intron|ATF2_ENST00000409833.1_Splice_Site|ATF2_ENST00000538946.1_Splice_Site|ATF2_ENST00000487334.2_Splice_Site|ATF2_ENST00000345739.5_Intron|ATF2_ENST00000392544.1_Splice_Site|ATF2_ENST00000392543.2_Intron	NM_001256090.1|NM_001256091.1|NM_001880.3	NP_001243019.1|NP_001243020.1|NP_001871.2	P15336	ATF2_HUMAN	activating transcription factor 2						adipose tissue development (GO:0060612)|cellular response to DNA damage stimulus (GO:0006974)|chromatin organization (GO:0006325)|fat cell differentiation (GO:0045444)|histone acetylation (GO:0016573)|innate immune response (GO:0045087)|intra-S DNA damage checkpoint (GO:0031573)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|outflow tract morphogenesis (GO:0003151)|positive regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902110)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transforming growth factor beta2 production (GO:0032915)|regulation of sequence-specific DNA binding transcription factor activity (GO:0051090)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|response to osmotic stress (GO:0006970)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transcription from RNA polymerase II promoter (GO:0006366)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|mitochondrial outer membrane (GO:0005741)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|site of double-strand break (GO:0035861)	cAMP response element binding (GO:0035497)|cAMP response element binding protein binding (GO:0008140)|chromatin binding (GO:0003682)|histone acetyltransferase activity (GO:0004402)|metal ion binding (GO:0046872)|protein kinase binding (GO:0019901)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription factor binding transcription factor activity (GO:0001076)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)			breast(2)|endometrium(3)|kidney(2)|large_intestine(2)|lung(6)|pancreas(1)|skin(1)	17			OV - Ovarian serous cystadenocarcinoma(117;0.125)		Pseudoephedrine(DB00852)	GCATATACTAACCAGCCACAA	0.353																																					Pancreas(17;87 705 4534 15538 30988)											0													84	81	82					2																	175986170		2203	4299	6502	SO:0001630	splice_region_variant	1386			X15875	CCDS2262.1, CCDS58737.1, CCDS58738.1, CCDS58739.1	2q32	2013-01-10			ENSG00000115966	ENSG00000115966		"basic leucine zipper proteins"	784	protein-coding gene	gene with protein product		123811	"cAMP responsive element binding protein 2"	CREB2		1833307, 1838349	Standard	NM_001880		Approved	TREB7, CRE-BP1, HB16	uc002ujl.4	P15336	OTTHUMG00000132424	ENST00000264110.2:c.199+1T>G	2.37:g.175986170A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A1L3Z2|A4D7U4|A4D7U5|A4D7V1|D3DPE9|G8JLM5|Q13000|Q3B7B7|Q4ZFU9|Q53RY2|Q8TAR1|Q96JT8	Splice_Site	SNP	ENST00000264110.2	37	CCDS2262.1	.	.	.	.	.	.	.	.	.	.	A	22.2	4.262883	0.80358	.	.	ENSG00000115966	ENST00000264110;ENST00000409437;ENST00000435004;ENST00000392544;ENST00000426833;ENST00000538946;ENST00000487334;ENST00000409833	.	.	.	5.48	5.48	0.80851	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.5615	0.76253	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	ATF2	175694416	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.320000	0.96346	2.073000	0.62155	0.482000	0.46254	.		0.353	ATF2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000255562.1	NM_001880	Intron	C	175986170	A	C	175986170	5	2	677	1	0	0	0	0	0	0	1	0	1080	57	2	5	1356	5	ATF2	2	175986170	Splice_Site	SNP	A	TCGA-KO-8406-01A-11D-2310-10	101547232	175986170	67213203	7	43659										
COL6A3	1293	mdanderson.org;bcgsc.ca	37	chr2	238269781	238269781	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tacgggtccaccctcatcacCaggatagcctcggtagccgt	10	15	2	0	rs397515332		TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr2:238269781C>T	ENST00000295550.4	-	16	6645	c.6193G>A	c.(6193-6195)Ggt>Agt	p.G2065S	COL6A3_ENST00000346358.4_Missense_Mutation_p.G1865S|COL6A3_ENST00000347401.3_Missense_Mutation_p.G1864S|COL6A3_ENST00000409809.1_Missense_Mutation_p.G1859S|COL6A3_ENST00000353578.4_Missense_Mutation_p.G1859S|COL6A3_ENST00000472056.1_Missense_Mutation_p.G1458S	NM_004369.3	NP_004360.2	P12111	CO6A3_HUMAN	collagen, type VI, alpha 3	2065	Collagen-like 1.|Triple-helical region.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|muscle organ development (GO:0007517)|response to glucose (GO:0009749)	collagen type VI trimer (GO:0005589)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)|sarcolemma (GO:0042383)|vesicle (GO:0031982)	serine-type endopeptidase inhibitor activity (GO:0004867)			breast(6)|central_nervous_system(7)|cervix(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(13)|large_intestine(64)|lung(62)|ovary(14)|pancreas(2)|prostate(11)|skin(14)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(4)	217		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)		CCCTCATCACCAGGATAGCCT	0.448																																																0													88	87	87					2																	238269781		2203	4300	6503	SO:0001583	missense	1293			X52022	CCDS33409.1, CCDS33410.1, CCDS33411.1, CCDS33412.1, CCDS33410.2, CCDS33411.2, CCDS54439.1	2q37	2014-09-17			ENSG00000163359	ENSG00000163359		"Collagens"	2213	protein-coding gene	gene with protein product		120250				1339440, 11992252	Standard	NM_004369		Approved		uc002vwl.2	P12111	OTTHUMG00000150020	ENST00000295550.4:c.6193G>A	2.37:g.238269781C>T	ENSP00000295550:p.Gly2065Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8MT30|B4E3U5|B7ZMJ7|E9PFQ6|E9PGQ9|Q16501|Q53QF4|Q53QF6	Missense_Mutation	SNP	ENST00000295550.4	37	CCDS33412.1	.	.	.	.	.	.	.	.	.	.	C	14.18	2.457244	0.43634	.	.	ENSG00000163359	ENST00000295550;ENST00000347401;ENST00000353578;ENST00000472056;ENST00000409809;ENST00000346358	D;D;D;D;D;D	0.99527	-5.12;-6.09;-6.09;-6.09;-6.09;-6.09	5.22	5.22	0.72569	.	0.000000	0.52532	D	0.000069	D	0.99718	0.9891	H	0.96015	3.755	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.97373	0.9977	10	0.66056	D	0.02	.	18.8129	0.92065	0.0:1.0:0.0:0.0	.	1458;1859;2065	E9PFQ6;P12111-2;P12111	.;.;CO6A3_HUMAN	S	2065;1864;1859;1458;1859;1865	ENSP00000295550:G2065S;ENSP00000315609:G1864S;ENSP00000315873:G1859S;ENSP00000418285:G1458S;ENSP00000386844:G1859S;ENSP00000295546:G1865S	ENSP00000295550:G2065S	G	-	1	0	COL6A3	237934520	1.000000	0.71417	0.389000	0.26208	0.491000	0.33493	7.291000	0.78721	2.437000	0.82529	0.655000	0.94253	GGT		0.448	COL6A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000315790.2	NM_004369		T	238269781	C	T	238269781	3	4	677	1	0	0	0	0	1	0	0	0	3703	594	21	2	3456	2	COL6A3	2	238269781	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10	62283611	238269781	4929592	8	43660										
KIAA2018	205717	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	113375013	113375013	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tattcctctgatgttctgagAgtgacctctggctcccaatg	9	11	3	3			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr3:113375013A>T	ENST00000478658.1	-	5	5533	c.5516T>A	c.(5515-5517)cTc>cAc	p.L1839H	KIAA2018_ENST00000491165.1_Intron|KIAA2018_ENST00000316407.4_Missense_Mutation_p.L1839H			Q68DE3	K2018_HUMAN	KIAA2018	1839						membrane (GO:0016020)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|DNA binding (GO:0003677)|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity (GO:0004571)			NS(1)|breast(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(13)|liver(1)|lung(30)|ovary(8)|skin(5)|upper_aerodigestive_tract(4)|urinary_tract(2)	80						ATGTTCTGAGAGTGACCTCTG	0.443																																																0													97	95	96					3																	113375013		1979	4175	6154	SO:0001583	missense	205717			AB095938	CCDS43133.1	3q13.2	2014-01-02			ENSG00000176542	ENSG00000176542			30494	protein-coding gene	gene with protein product							Standard	XM_005247208		Approved		uc003eam.3	Q68DE3	OTTHUMG00000159322	ENST00000478658.1:c.5516T>A	3.37:g.113375013A>T	ENSP00000420721:p.Leu1839His	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z3L9|Q8IVF3|Q9H8T4	Missense_Mutation	SNP	ENST00000478658.1	37	CCDS43133.1	.	.	.	.	.	.	.	.	.	.	A	17.16	3.318679	0.60524	.	.	ENSG00000176542	ENST00000316407;ENST00000478658	T;T	0.19532	2.14;2.14	5.91	5.91	0.95273	.	0.222346	0.31922	N	0.006858	T	0.27900	0.0687	N	0.14661	0.345	0.38952	D	0.958378	D	0.71674	0.998	P	0.60173	0.87	T	0.20974	-1.0259	10	0.87932	D	0	-8.4007	16.3453	0.83126	1.0:0.0:0.0:0.0	.	1839	Q68DE3	K2018_HUMAN	H	1839	ENSP00000320794:L1839H;ENSP00000420721:L1839H	ENSP00000320794:L1839H	L	-	2	0	KIAA2018	114857703	.	.	1.000000	0.80357	0.996000	0.88848	.	.	2.261000	0.74972	0.533000	0.62120	CTC		0.443	KIAA2018-003	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000354591.1	NM_001009899		T	113375013	A	T	113375013	3	4	677	1	0	0	0	0	1	0	0	0	8275	304	11	5	1225	5	KIAA2018	3	113375013	Missense_Mutation	SNP	A	TCGA-KO-8406-01A-11D-2310-10		113375013	84647417	9	43661										
CCDC37	348807	broad.mit.edu	37	chr3	126142182	126142183	+	Frame_Shift_Ins	INS	-	-	C													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	cgcaggtcgaactctcccatINScccccccacgcaggaggaca							TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr3:126142182_126142183insC	ENST00000352312.1	+	12	1196_1197	c.1097_1098insC	c.(1096-1101)atccccfs	p.IP366fs	CCDC37_ENST00000393425.1_Frame_Shift_Ins_p.IP367fs|CCDC37_ENST00000505024.1_Frame_Shift_Ins_p.IP367fs	NM_182628.2	NP_872434.2	Q494V2	CCD37_HUMAN	coiled-coil domain containing 37	366								p.T369fs*36(1)		NS(1)|autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(8)|lung(5)|ovary(1)|skin(3)	23				GBM - Glioblastoma multiforme(114;0.166)		AACTCTCCCATCCCCCCCACGC	0.653																																																1	Deletion - Frameshift(1)	large_intestine(1)																																								SO:0001589	frameshift_variant	348807			AK097402	CCDS3037.1	3q21.2	2014-07-31			ENSG00000163885	ENSG00000163885			26842	protein-coding gene	gene with protein product						23569216	Standard	NM_182628		Approved	FLJ40083, MIA1	uc003eiu.1	Q494V2	OTTHUMG00000162691	ENST00000352312.1:c.1104dupC	3.37:g.126142189_126142189dupC	ENSP00000344749:p.Ile366fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNA8|Q494V1|Q494V4|Q8N838	Frame_Shift_Ins	INS	ENST00000352312.1	37	CCDS3037.1																																																																																				0.653	CCDC37-001	KNOWN	basic|appris_candidate|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000370099.4	NM_182628		C	126142183	-	C	126142182	7	5	677	1	0	1	1	0	0	0	0	0	2811	1435	50	0	1139	0	CCDC37	3	126142182	Frame_Shift_Ins	INS	-	TCGA-KO-8406-01A-11D-2310-10	12767169	126142182	71880248	10	43662										
GFM1	85476	broad.mit.edu	37	chr3	158362472	158362473	+	Frame_Shift_Ins	INS	-	-	C													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ggctctggggcgcggaagggINScccccgcctccctaggctgg							TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr3:158362472_158362473insC	ENST00000486715.1	+	1	406_407	c.49_50insC	c.(49-51)gccfs	p.A17fs	GFM1_ENST00000478576.1_Frame_Shift_Ins_p.A17fs|GFM1_ENST00000264263.5_Frame_Shift_Ins_p.A17fs	NM_024996.5	NP_079272.4			G elongation factor, mitochondrial 1											breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(5)|lung(9)|ovary(3)|urinary_tract(2)	22			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			GCGCGGAAGGGCCCCCGCCTCC	0.649											OREG0015898	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0																																										SO:0001589	frameshift_variant	85476			AF309777	CCDS33885.1	3q25	2008-02-05			ENSG00000168827	ENSG00000168827			13780	protein-coding gene	gene with protein product		606639	"G translation elongation factor, mitochondrial"			11374907, 11735030	Standard	NM_024996		Approved	EFGM, GFM, EGF1	uc003fce.3	Q96RP9	OTTHUMG00000158804	ENST00000486715.1:c.54dupC	3.37:g.158362477_158362477dupC	ENSP00000419038:p.Ala17fs	Somatic	1793	WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000486715.1	37	CCDS33885.1																																																																																				0.649	GFM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352271.1	NM_024996		C	158362473	-	C	158362472	7	5	677	1	0	1	1	0	0	0	0	0	6348	1203	42	0	51	0	GFM1	3	158362472	Frame_Shift_Ins	INS	-	TCGA-KO-8406-01A-11D-2310-10	32220290	158362472	39659958	11	43663										
PPP1R2	5504	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	195256683	195256683	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	cgccaagatgttcatttcatCccacttctgggattttttgc	7	11	3	1			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr3:195256683C>T	ENST00000328432.3	-	2	502	c.142G>A	c.(142-144)Gat>Aat	p.D48N		NM_006241.4	NP_006232.1	P41236	IPP2_HUMAN	protein phosphatase 1, regulatory (inhibitor) subunit 2	48	Required for binding PPP1CC. {ECO:0000250}.				generation of precursor metabolites and energy (GO:0006091)|glycogen metabolic process (GO:0005977)|negative regulation of catalytic activity (GO:0043086)|regulation of phosphoprotein phosphatase activity (GO:0043666)|regulation of signal transduction (GO:0009966)		protein serine/threonine phosphatase inhibitor activity (GO:0004865)			endometrium(2)|kidney(1)|large_intestine(1)|urinary_tract(2)	6	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)		Epithelial(36;2.64e-22)|all cancers(36;2.69e-20)|OV - Ovarian serous cystadenocarcinoma(49;3.52e-19)|Lung(62;0.000104)|LUSC - Lung squamous cell carcinoma(58;0.000128)	GBM - Glioblastoma multiforme(46;9.55e-05)		TTCATTTCATCCCACTTCTGG	0.333																																																0													99	88	92					3																	195256683		2203	4300	6503	SO:0001583	missense	5504			U68111	CCDS3309.1	3q29	2012-04-17			ENSG00000184203	ENSG00000184203	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	9288	protein-coding gene	gene with protein product		601792				9126490, 8119416	Standard	XM_006713682		Approved	IPP2	uc003fup.3	P41236	OTTHUMG00000155887	ENST00000328432.3:c.142G>A	3.37:g.195256683C>T	ENSP00000328178:p.Asp48Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000328432.3	37	CCDS3309.1	.	.	.	.	.	.	.	.	.	.	C	33	5.269708	0.95429	.	.	ENSG00000184203	ENST00000328432;ENST00000438848	.	.	.	6.06	6.06	0.98353	.	0.000000	0.85682	D	0.000000	D	0.83644	0.5299	M	0.86097	2.795	0.80722	D	1	D;D	0.76494	0.988;0.999	P;D	0.69654	0.836;0.965	D	0.84595	0.0669	9	0.59425	D	0.04	.	18.1336	0.89610	0.0:1.0:0.0:0.0	.	48;48	E7EMN6;P41236	.;IPP2_HUMAN	N	48	.	ENSP00000328178:D48N	D	-	1	0	PPP1R2	196737972	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.183000	0.77697	2.880000	0.98712	0.650000	0.86243	GAT		0.333	PPP1R2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342133.1	NM_006241		T	195256683	C	T	195256683	3	4	677	1	0	0	0	0	1	0	0	0	12380	855	30	2	495	2	PPP1R2	3	195256683	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10	36894211	195256683	2765747	12	43664										
ZNF732	654254	mdanderson.org	37	chr4	289864	289864	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tccaacatcacatctctataCaaattctgctgggcagggtc	7	12	3	0			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr4:289864C>T	ENST00000419098.1	-	2	94	c.84G>A	c.(82-84)ttG>ttA	p.L28L		NM_001137608.1	NP_001131080.1	B4DXR9	ZN732_HUMAN	zinc finger protein 732	28	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|lung(2)	3						CATCTCTATACAAATTCTGCT	0.408																																																0													32	32	32					4																	289864		692	1591	2283	SO:0001819	synonymous_variant	654254			AK302099	CCDS46990.1	4p16.3	2014-02-12	2009-07-22		ENSG00000186777	ENSG00000186777		"Zinc fingers, C2H2-type", "-"	37138	protein-coding gene	gene with protein product							Standard	NM_001137608		Approved	FLJ59067	uc011buu.1	B4DXR9	OTTHUMG00000159883	ENST00000419098.1:c.84G>A	4.37:g.289864C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000419098.1	37	CCDS46990.1																																																																																				0.408	ZNF732-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000357937.2	NM_001137608		T	289864	C	T	289864	2	4	677	1	0	0	0	0	0	0	0	1	18135	477	17	2		2	ZNF732	4	289864	Silent	SNP	C	TCGA-KO-8406-01A-11D-2310-10		289864	190864412	13	43665			1	118		5	3	65	N	G_C	1.214961e-08
ZNF732	654254	mdanderson.org	37	chr4	289878	289878	+	Missense_Mutation	SNP	C	C	A													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tctatacaaattctgctgggCagggtccaggcatttccact							TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr4:289878C>A	ENST00000419098.1	-	2	80	c.70G>T	c.(70-72)Gcc>Tcc	p.A24S		NM_001137608.1	NP_001131080.1	B4DXR9	ZN732_HUMAN	zinc finger protein 732	24	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|lung(2)	3						TTCTGCTGGGCAGGGTCCAGG	0.418																																																0													33	32	32					4																	289878		692	1590	2282	SO:0001583	missense	654254			AK302099	CCDS46990.1	4p16.3	2014-02-12	2009-07-22		ENSG00000186777	ENSG00000186777		"Zinc fingers, C2H2-type", "-"	37138	protein-coding gene	gene with protein product							Standard	NM_001137608		Approved	FLJ59067	uc011buu.1	B4DXR9	OTTHUMG00000159883	ENST00000419098.1:c.70G>T	4.37:g.289878C>A	ENSP00000415774:p.Ala24Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000419098.1	37	CCDS46990.1	.	.	.	.	.	.	.	.	.	.	C	3.894	-0.023332	0.07634	.	.	ENSG00000186777	ENST00000419098	T	0.02258	4.37	1.22	-2.43	0.06522	Krueppel-associated box (4);	.	.	.	.	T	0.03263	0.0095	M	0.65677	2.01	0.09310	N	1	B	0.32350	0.366	B	0.37692	0.256	T	0.36939	-0.9727	9	0.42905	T	0.14	.	2.9027	0.05711	0.0:0.4666:0.2847:0.2487	.	24	B4DXR9	ZN732_HUMAN	S	24	ENSP00000415774:A24S	ENSP00000415774:A24S	A	-	1	0	ZNF732	279878	0.000000	0.05858	0.085000	0.20634	0.087000	0.18053	-1.157000	0.03157	-0.694000	0.05113	-0.680000	0.03767	GCC		0.418	ZNF732-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000357937.2	NM_001137608		A	289878	C	A	289878	3	1	677	1	0	0	0	0	1	0	0	0	18135	710	25	4	1699	4	ZNF732	4	289878	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10	14	289878	190864398	14	43666	442	3	1	118		5	3	65	N	G_C	1.214961e-08
ZNF732	654254	mdanderson.org	37	chr4	289881	289881	+	Missense_Mutation	SNP	G	G	T													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	atacaaattctgctgggcagGgtccaggcatttccactctt							TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr4:289881G>T	ENST00000419098.1	-	2	77	c.67C>A	c.(67-69)Cct>Act	p.P23T		NM_001137608.1	NP_001131080.1	B4DXR9	ZN732_HUMAN	zinc finger protein 732	23	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|lung(2)	3						TGCTGGGCAGGGTCCAGGCAT	0.413																																																0													35	33	34					4																	289881		692	1590	2282	SO:0001583	missense	654254			AK302099	CCDS46990.1	4p16.3	2014-02-12	2009-07-22		ENSG00000186777	ENSG00000186777		"Zinc fingers, C2H2-type", "-"	37138	protein-coding gene	gene with protein product							Standard	NM_001137608		Approved	FLJ59067	uc011buu.1	B4DXR9	OTTHUMG00000159883	ENST00000419098.1:c.67C>A	4.37:g.289881G>T	ENSP00000415774:p.Pro23Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000419098.1	37	CCDS46990.1	.	.	.	.	.	.	.	.	.	.	G	0.004	-2.337467	0.00224	.	.	ENSG00000186777	ENST00000419098	T	0.02472	4.28	1.22	1.22	0.21188	Krueppel-associated box (4);	.	.	.	.	T	0.02888	0.0086	L	0.56340	1.77	0.09310	N	1	B	0.09022	0.002	B	0.12837	0.008	T	0.49771	-0.8904	9	0.08599	T	0.76	.	5.3307	0.15930	0.0:0.0:1.0:0.0	.	23	B4DXR9	ZN732_HUMAN	T	23	ENSP00000415774:P23T	ENSP00000415774:P23T	P	-	1	0	ZNF732	279881	0.000000	0.05858	0.122000	0.21767	0.125000	0.20455	-0.620000	0.05565	0.300000	0.22699	0.305000	0.20034	CCT		0.413	ZNF732-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000357937.2	NM_001137608		T	289881	G	T	289881	3	4	677	1	0	0	0	0	1	0	0	0	18135	1232	43	4	1702	4	ZNF732	4	289881	Missense_Mutation	SNP	G	TCGA-KO-8406-01A-11D-2310-10	3	289881	190864395	15	43667	442	3	1	118		5	3	65	N	G_C	1.214961e-08
ZNF732	654254	mdanderson.org	37	chr4	289888	289888	+	Silent	SNP	G	G	A													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ttctgctgggcagggtccagGcatttccactcttctggaga							TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr4:289888G>A	ENST00000419098.1	-	2	70	c.60C>T	c.(58-60)tgC>tgT	p.C20C		NM_001137608.1	NP_001131080.1	B4DXR9	ZN732_HUMAN	zinc finger protein 732	20	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|lung(2)	3						CAGGGTCCAGGCATTTCCACT	0.403																																																0													35	33	34					4																	289888		692	1590	2282	SO:0001819	synonymous_variant	654254			AK302099	CCDS46990.1	4p16.3	2014-02-12	2009-07-22		ENSG00000186777	ENSG00000186777		"Zinc fingers, C2H2-type", "-"	37138	protein-coding gene	gene with protein product							Standard	NM_001137608		Approved	FLJ59067	uc011buu.1	B4DXR9	OTTHUMG00000159883	ENST00000419098.1:c.60C>T	4.37:g.289888G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000419098.1	37	CCDS46990.1																																																																																				0.403	ZNF732-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000357937.2	NM_001137608		A	289888	G	A	289888	2	1	677	1	0	0	0	0	0	0	0	1	18135	1195	42	2		2	ZNF732	4	289888	Silent	SNP	G	TCGA-KO-8406-01A-11D-2310-10	7	289888	190864388	16	43668	442	3	1	118		5	3	65	N	G_C	1.214961e-08
ZNF732	654254	mdanderson.org	37	chr4	289928	289928	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	agaattctatggccacatccCtgaatgttaagagttcctga	8	9	1	4			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr4:289928C>T	ENST00000419098.1	-	2	30	c.20G>A	c.(19-21)aGg>aAg	p.R7K		NM_001137608.1	NP_001131080.1	B4DXR9	ZN732_HUMAN	zinc finger protein 732	7	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|lung(2)	3						GGCCACATCCCTGAATGTTAA	0.403																																																0													30	27	28					4																	289928		692	1591	2283	SO:0001583	missense	654254			AK302099	CCDS46990.1	4p16.3	2014-02-12	2009-07-22		ENSG00000186777	ENSG00000186777		"Zinc fingers, C2H2-type", "-"	37138	protein-coding gene	gene with protein product							Standard	NM_001137608		Approved	FLJ59067	uc011buu.1	B4DXR9	OTTHUMG00000159883	ENST00000419098.1:c.20G>A	4.37:g.289928C>T	ENSP00000415774:p.Arg7Lys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000419098.1	37	CCDS46990.1	.	.	.	.	.	.	.	.	.	.	C	14.65	2.600030	0.46318	.	.	ENSG00000186777	ENST00000419098	T	0.01369	4.97	1.22	0.0332	0.14179	Krueppel-associated box (4);	.	.	.	.	T	0.00998	0.0033	N	0.17723	0.515	0.09310	N	1	P	0.34615	0.459	B	0.35114	0.196	T	0.49021	-0.8982	9	0.19590	T	0.45	.	3.811	0.08796	0.0:0.6812:0.0:0.3188	.	7	B4DXR9	ZN732_HUMAN	K	7	ENSP00000415774:R7K	ENSP00000415774:R7K	R	-	2	0	ZNF732	279928	0.652000	0.27349	0.849000	0.33467	0.849000	0.48306	-1.168000	0.03123	0.300000	0.22699	0.305000	0.20034	AGG		0.403	ZNF732-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000357937.2	NM_001137608		T	289928	C	T	289928	3	4	677	1	0	0	0	0	1	0	0	0	18135	681	24	2	1749	2	ZNF732	4	289928	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10	40	289928	190864348	17	43669			1	118		5	3	65	N	G_C	1.214961e-08
HNRPDL	9987	broad.mit.edu	37	chr4	83350758	83350759	+	Frame_Shift_Ins	INS	-	-	C													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	cggcggccgcggccgccaatINSgggagaggctgcgggaggct							TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr4:83350758_83350759insC	ENST00000295470.5	-	1	260_261	c.85_86insG	c.(85-87)catfs	p.H29fs	ENOPH1_ENST00000273920.3_5'Flank|HNRNPDL_ENST00000349655.4_5'Flank|ENOPH1_ENST00000509635.1_5'Flank|HNRNPDL_ENST00000502762.1_Frame_Shift_Ins_p.H29fs|HNRNPDL_ENST00000602300.1_5'Flank|HNRNPDL_ENST00000514511.1_5'Flank	NM_001207000.1|NM_031372.3	NP_001193929.1|NP_112740.1	O14979	HNRDL_HUMAN	heterogeneous nuclear ribonucleoprotein D-like	29					regulation of gene expression (GO:0010468)|regulation of transcription, DNA-templated (GO:0006355)|RNA processing (GO:0006396)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)	DNA binding (GO:0003677)|double-stranded DNA binding (GO:0003690)|nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)|poly(G) binding (GO:0034046)|single-stranded DNA binding (GO:0003697)										cggccgccAATGGGAGAGGCTG	0.757																																																0																																										SO:0001589	frameshift_variant	9987			D89092	CCDS3593.1, CCDS75153.1	4q21.22	2013-06-12		2013-06-12	ENSG00000152795	ENSG00000152795		"RNA binding motif (RRM) containing"	5037	protein-coding gene	gene with protein product		607137		HNRPDL		10072754, 9524220	Standard	NM_001207000		Approved	JKTBP, laAUF1	uc003hmr.3	O14979	OTTHUMG00000130299	ENST00000295470.5:c.85_86insG	4.37:g.83350758_83350759insC	ENSP00000295470:p.His29fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6SPF2|Q7KZ74|Q7KZ75|Q96IM0|Q96S43	Frame_Shift_Ins	INS	ENST00000295470.5	37	CCDS3593.1																																																																																				0.757	HNRNPDL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252644.1	NM_005463		C	83350759	-	C	83350758	7	5	677	1	0	1	1	0	0	0	0	0	7283	1464	51	0	1204	0	HNRPDL	4	83350758	Frame_Shift_Ins	INS	-	TCGA-KO-8406-01A-11D-2310-10	83060830	83350758	107803518	18	43670	443	2								
HNRPDL	9987	broad.mit.edu	37	chr4	83350764	83350764	+	Frame_Shift_Del	DEL	A	A	-													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	gccgcggccgccaatgggagAggctgcgggaggctaaagta							TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr4:83350764delA	ENST00000295470.5	-	1	255	c.80delT	c.(79-81)ctcfs	p.L27fs	ENOPH1_ENST00000273920.3_5'Flank|HNRNPDL_ENST00000349655.4_5'Flank|ENOPH1_ENST00000509635.1_5'Flank|HNRNPDL_ENST00000502762.1_Frame_Shift_Del_p.L27fs|HNRNPDL_ENST00000602300.1_5'Flank|HNRNPDL_ENST00000514511.1_5'Flank	NM_001207000.1|NM_031372.3	NP_001193929.1|NP_112740.1	O14979	HNRDL_HUMAN	heterogeneous nuclear ribonucleoprotein D-like	27					regulation of gene expression (GO:0010468)|regulation of transcription, DNA-templated (GO:0006355)|RNA processing (GO:0006396)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)	DNA binding (GO:0003677)|double-stranded DNA binding (GO:0003690)|nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)|poly(A) RNA binding (GO:0044822)|poly(G) binding (GO:0034046)|single-stranded DNA binding (GO:0003697)										ccAATGGGAGAGGCTGCGGGA	0.756																																																0													4	7	6					4																	83350764		1544	3554	5098	SO:0001589	frameshift_variant	9987			D89092	CCDS3593.1, CCDS75153.1	4q21.22	2013-06-12		2013-06-12	ENSG00000152795	ENSG00000152795		"RNA binding motif (RRM) containing"	5037	protein-coding gene	gene with protein product		607137		HNRPDL		10072754, 9524220	Standard	NM_001207000		Approved	JKTBP, laAUF1	uc003hmr.3	O14979	OTTHUMG00000130299	ENST00000295470.5:c.80delT	4.37:g.83350764delA	ENSP00000295470:p.Leu27fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6SPF2|Q7KZ74|Q7KZ75|Q96IM0|Q96S43	Frame_Shift_Del	DEL	ENST00000295470.5	37	CCDS3593.1																																																																																				0.756	HNRNPDL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252644.1	NM_005463		-	83350764	A	-	83350764	7	5	677	1	0	1	0	1	0	0	0	0	7283	304	11	0	1210	0	HNRPDL	4	83350764	Frame_Shift_Del	DEL	A	TCGA-KO-8406-01A-11D-2310-10	6	83350764	107803512	19	43671	443	2								
NAA15	80155	mdanderson.org	37	chr4	140272727	140272727	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	gcaagggttgcccaccagtcTtcaatactttaagatcatta	7	10	3	1			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr4:140272727T>C	ENST00000296543.5	+	9	1299	c.976T>C	c.(976-978)Ttc>Ctc	p.F326L	NAA15_ENST00000398947.1_Missense_Mutation_p.F326L|NAA15_ENST00000480277.2_3'UTR	NM_057175.3	NP_476516.1	Q9BXJ9	NAA15_HUMAN	N(alpha)-acetyltransferase 15, NatA auxiliary subunit	326					angiogenesis (GO:0001525)|cell differentiation (GO:0030154)|N-terminal protein amino acid acetylation (GO:0006474)|negative regulation of apoptotic process (GO:0043066)|positive regulation of transcription, DNA-templated (GO:0045893)|protein stabilization (GO:0050821)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|membrane (GO:0016020)|NatA complex (GO:0031415)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	N-acetyltransferase activity (GO:0008080)|poly(A) RNA binding (GO:0044822)|ribosome binding (GO:0043022)			NS(1)|endometrium(3)|large_intestine(7)|liver(2)|lung(8)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	29						CCCACCAGTCTTCAATACTTT	0.328																																																0													103	102	102					4																	140272727		1811	4082	5893	SO:0001583	missense	80155			AY039242	CCDS43270.1	4q31.1	2010-01-14	2010-01-14	2010-01-14	ENSG00000164134	ENSG00000164134		"N(alpha)-acetyltransferase subunits"	30782	protein-coding gene	gene with protein product		608000	"NMDA receptor regulated 1"	NARG1		12140756, 11478804, 19660095	Standard	XM_005263236		Approved	TBDN100, NATH, FLJ13340	uc003ihu.1	Q9BXJ9	OTTHUMG00000137363	ENST00000296543.5:c.976T>C	4.37:g.140272727T>C	ENSP00000296543:p.Phe326Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNY6|Q52LG9|Q8IWH4|Q8NEV2|Q9H8P6	Missense_Mutation	SNP	ENST00000296543.5	37	CCDS43270.1	.	.	.	.	.	.	.	.	.	.	T	35	5.482153	0.96307	.	.	ENSG00000164134	ENST00000296543;ENST00000544077;ENST00000398947	T;T	0.58358	0.34;0.34	5.93	5.93	0.95920	.	0.000000	0.85682	D	0.000000	T	0.80132	0.4567	M	0.93939	3.475	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	D	0.85343	0.1097	10	0.72032	D	0.01	-9.7091	16.3786	0.83431	0.0:0.0:0.0:1.0	.	326	Q9BXJ9	NAA15_HUMAN	L	326;200;326	ENSP00000296543:F326L;ENSP00000381920:F326L	ENSP00000296543:F326L	F	+	1	0	NAA15	140492177	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.606000	0.82863	2.269000	0.75478	0.454000	0.30748	TTC		0.328	NAA15-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000267839.2	NM_057175		C	140272727	T	C	140272727	3	2	677	1	0	0	0	0	1	0	0	0	10125	1609	56	3	1010	3	NAA15	4	140272727	Missense_Mutation	SNP	T	TCGA-KO-8406-01A-11D-2310-10	56921963	140272727	50881549	20	43672										
HAPLN1	1404	broad.mit.edu	37	chr5	82940353	82940354	+	Frame_Shift_Ins	INS	-	-	C													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ccggcattgcaccagtccagINScccgccccgccaggcgtcgt							TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr5:82940353_82940354insC	ENST00000274341.4	-	4	1453_1454	c.603_604insG	c.(601-606)gggctgfs	p.L202fs		NM_001884.3	NP_001875.1	P10915	HPLN1_HUMAN	hyaluronan and proteoglycan link protein 1	202	Link 1. {ECO:0000255|PROSITE- ProRule:PRU00323}.				cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)	extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	hyaluronic acid binding (GO:0005540)			breast(1)|endometrium(1)|kidney(1)|large_intestine(12)|liver(1)|lung(15)|ovary(1)|prostate(1)|skin(1)	34		Lung NSC(167;0.0484)|all_lung(232;0.0522)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;7.82e-42)|Epithelial(54;5.88e-35)|all cancers(79;1.14e-29)	Hyaluronan(DB08818)	CACCAGTCCAGCCCGCCCCGCC	0.619																																																0																																										SO:0001589	frameshift_variant	1404				CCDS4061.1	5q14.3	2013-01-11	2004-03-16	2004-03-17	ENSG00000145681	ENSG00000145681		"Immunoglobulin superfamily / V-set domain containing"	2380	protein-coding gene	gene with protein product	"Cartilage link protein", "hyaluronan and proteoglycan link protein 1"	115435	"cartilage linking protein 1"	CRTL1		2286376, 2320422	Standard	NM_001884		Approved		uc003kin.3	P10915	OTTHUMG00000119045	ENST00000274341.4:c.604dupG	5.37:g.82940356_82940356dupC	ENSP00000274341:p.Leu202fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9A9	Frame_Shift_Ins	INS	ENST00000274341.4	37	CCDS4061.1																																																																																				0.619	HAPLN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239256.2	NM_001884		C	82940354	-	C	82940353	7	5	677	1	0	1	1	0	0	0	0	0	6961	962	34	0	468	0	HAPLN1	5	82940353	Frame_Shift_Ins	INS	-	TCGA-KO-8406-01A-11D-2310-10		82940353	97974907	21	43673										
LECT2	3950	broad.mit.edu	37	chr5	135283165	135283165	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tatacttaattggcttaatgTagaacattttgacacaaaaa	5	5	0	2			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr5:135283165T>C	ENST00000274507.1	-	4	511	c.311A>G	c.(310-312)tAc>tGc	p.Y104C	LECT2_ENST00000512872.1_Missense_Mutation_p.Y32C|FBXL21_ENST00000467490.1_RNA|LECT2_ENST00000471827.1_Intron|LECT2_ENST00000522943.1_Intron	NM_002302.2	NP_002293.2	O14960	LECT2_HUMAN	leukocyte cell-derived chemotaxin 2	104					chemotaxis (GO:0006935)|negative regulation of Wnt signaling pathway (GO:0030178)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)	identical protein binding (GO:0042802)			large_intestine(1)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TGGCTTAATGTAGAACATTTT	0.308																																																0													86	79	81					5																	135283165		2203	4300	6503	SO:0001583	missense	3950			AB007546	CCDS4190.1	5q31.1	2008-05-15			ENSG00000145826	ENSG00000145826			6550	protein-coding gene	gene with protein product		602882				9545637	Standard	NM_002302		Approved	chm-II, chm2	uc003lbe.1	O14960	OTTHUMG00000129146	ENST00000274507.1:c.311A>G	5.37:g.135283165T>C	ENSP00000274507:p.Tyr104Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RA90|O14565|Q52M49	Missense_Mutation	SNP	ENST00000274507.1	37	CCDS4190.1	.	.	.	.	.	.	.	.	.	.	T	11.93	1.784221	0.31593	.	.	ENSG00000145826	ENST00000274507;ENST00000512872	T;T	0.42513	0.97;2.95	5.52	5.52	0.82312	Peptidase M23 (1);	0.207483	0.43919	D	0.000501	T	0.30510	0.0767	L	0.33245	0.995	0.80722	D	1	B	0.11235	0.004	B	0.09377	0.004	T	0.13045	-1.0524	10	0.48119	T	0.1	-4.7712	7.7505	0.28894	0.0:0.0965:0.0:0.9035	.	104	O14960	LECT2_HUMAN	C	104;32	ENSP00000274507:Y104C;ENSP00000427012:Y32C	ENSP00000274507:Y104C	Y	-	2	0	LECT2	135311064	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	3.555000	0.53727	2.099000	0.63709	0.533000	0.62120	TAC		0.308	LECT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251209.1	NM_002302		C	135283165	T	C	135283165	3	2	677	1	0	0	0	0	1	0	0	0	8720	1638	57	3	148	3	LECT2	5	135283165	Missense_Mutation	SNP	T	TCGA-KO-8406-01A-11D-2310-10	52342812	135283165	45632095	22	43674										
MDN1	23195	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr6	90353740	90353740	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tgttctatgggtggtcagagGctgtcaccaactcaaaccac	10	11	4	1			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr6:90353740G>T	ENST00000369393.3	-	102	16890	c.16775C>A	c.(16774-16776)gCc>gAc	p.A5592D	MDN1_ENST00000428876.1_Missense_Mutation_p.A5592D			Q9NU22	MDN1_HUMAN	MDN1, midasin homolog (yeast)	5592					ATP catabolic process (GO:0006200)|protein complex assembly (GO:0006461)	cytoplasm (GO:0005737)|intermediate filament cytoskeleton (GO:0045111)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|unfolded protein binding (GO:0051082)			NS(1)|breast(13)|central_nervous_system(2)|cervix(3)|endometrium(22)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(52)|liver(1)|lung(83)|ovary(10)|pancreas(1)|prostate(10)|skin(6)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	218		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)		GTGGTCAGAGGCTGTCACCAA	0.473																																																0													116	102	106					6																	90353740		2203	4300	6503	SO:0001583	missense	23195			AF503925	CCDS5024.1	6q15	2014-01-28			ENSG00000112159	ENSG00000112159			18302	protein-coding gene	gene with protein product						9205841, 12102729	Standard	XM_005248699		Approved	KIAA0301	uc003pnn.1	Q9NU22	OTTHUMG00000015213	ENST00000369393.3:c.16775C>A	6.37:g.90353740G>T	ENSP00000358400:p.Ala5592Asp	Somatic		WXS	Illumina HiSeq	Phase_I	O15019|Q5T794	Missense_Mutation	SNP	ENST00000369393.3	37	CCDS5024.1	.	.	.	.	.	.	.	.	.	.	G	17.54	3.415218	0.62511	.	.	ENSG00000112159	ENST00000369393;ENST00000428876	T;T	0.03413	3.94;3.94	5.83	5.83	0.93111	.	0.000000	0.85682	D	0.000000	T	0.08714	0.0216	L	0.42245	1.32	0.58432	D	0.999999	D	0.71674	0.998	D	0.64687	0.928	T	0.10590	-1.0623	10	0.72032	D	0.01	.	20.119	0.97953	0.0:0.0:1.0:0.0	.	5592	Q9NU22	MDN1_HUMAN	D	5592	ENSP00000358400:A5592D;ENSP00000413970:A5592D	ENSP00000358400:A5592D	A	-	2	0	MDN1	90410461	1.000000	0.71417	0.998000	0.56505	0.891000	0.51852	7.355000	0.79434	2.763000	0.94921	0.555000	0.69702	GCC		0.473	MDN1-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041514.2			T	90353740	G	T	90353740	3	4	677	1	0	0	0	0	1	0	0	0	9422	1203	42	4	19	4	MDN1	6	90353740	Missense_Mutation	SNP	G	TCGA-KO-8406-01A-11D-2310-10		90353740	80761327	23	43675										
ECT2L	345930	broad.mit.edu	37	chr6	139164271	139164271	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	gctgctgctacttatgggacGctgaatgaacccaaaacaga	10	10	0	3			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr6:139164271G>A	ENST00000423192.1	+	5	659	c.498G>A	c.(496-498)acG>acA	p.T166T	ECT2L_ENST00000367682.2_Silent_p.T166T|ECT2L_ENST00000541398.1_Silent_p.T97T			Q008S8	ECT2L_HUMAN	epithelial cell transforming 2 like	166							Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(7)|lung(12)|skin(1)|upper_aerodigestive_tract(1)	30						CTTATGGGACGCTGAATGAAC	0.453			"N, Splice, Mis"		ETP ALL																																		Rec	yes		6	6q24.1	345930	epithelial cell transforming sequence 2 oncogene-like		L	0													124	124	124					6																	139164271		1945	4154	6099	SO:0001819	synonymous_variant	345930				CCDS43508.1	6q24.1	2014-03-11	2014-03-11		ENSG00000203734	ENSG00000203734		"Rho guanine nucleotide exchange factors", "F-boxes /  "other""	21118	protein-coding gene	gene with protein product	"lung specific F-box and DH domain containing protein", "F-box protein 49"		"chromosome 6 open reading frame 91", "epithelial cell transforming sequence 2 oncogene-like"	C6orf91			Standard	NM_001077706		Approved	ARHGEF32, FBXO49, LFDH	uc021zfx.1	Q008S8	OTTHUMG00000015679	ENST00000423192.1:c.498G>A	6.37:g.139164271G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RUV6|Q5JWK2|Q5JWK3|Q5JWK4	Silent	SNP	ENST00000423192.1	37	CCDS43508.1																																																																																				0.453	ECT2L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042441.3	NM_001077706		A	139164271	G	A	139164271	2	1	677	1	0	0	0	0	0	0	0	1	4904	1074	38	1		1	ECT2L	6	139164271	Silent	SNP	G	TCGA-KO-8406-01A-11D-2310-10	48810531	139164271	31950796	24	43676										
NCF1	653361	mdanderson.org	37	chr7	74193718	74193718	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tcccgctgtccccacctcctCgacttcttcaaggtgcgccc	7	20	2	0	rs17356100	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr7:74193718C>T	ENST00000289473.4	+	4	415	c.345C>T	c.(343-345)ctC>ctT	p.L115L	NCF1_ENST00000443956.3_3'UTR	NM_000265.4	NP_000256.4	P14598	NCF1_HUMAN	neutrophil cytosolic factor 1	115	PX. {ECO:0000255|PROSITE- ProRule:PRU00147}.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|cell proliferation (GO:0008283)|cellular defense response (GO:0006968)|hydrogen peroxide biosynthetic process (GO:0050665)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|interaction with host (GO:0051701)|leukotriene metabolic process (GO:0006691)|negative regulation of smooth muscle contraction (GO:0045986)|neutrophil mediated killing of fungus (GO:0070947)|neutrophil mediated killing of gram-positive bacterium (GO:0070946)|oxidation-reduction process (GO:0055114)|phagosome maturation (GO:0090382)|protein targeting to membrane (GO:0006612)|respiratory burst (GO:0045730)|respiratory burst involved in defense response (GO:0002679)|response to yeast (GO:0001878)|superoxide anion generation (GO:0042554)|superoxide metabolic process (GO:0006801)	cytosol (GO:0005829)|dendrite (GO:0030425)|extrinsic component of membrane (GO:0019898)|Golgi apparatus (GO:0005794)|NADPH oxidase complex (GO:0043020)|neuronal cell body (GO:0043025)|phagolysosome (GO:0032010)|rough endoplasmic reticulum (GO:0005791)	electron carrier activity (GO:0009055)|phosphatidylinositol binding (GO:0035091)|phosphatidylinositol-3,4-bisphosphate binding (GO:0043325)|SH3 domain binding (GO:0017124)|superoxide-generating NADPH oxidase activity (GO:0016175)	p.L115L(1)		breast(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(2)|skin(3)	10					Dextromethorphan(DB00514)	CCCACCTCCTCGACTTCTTCA	0.637																																																1	Substitution - coding silent(1)	endometrium(1)																																								SO:0001819	synonymous_variant	653361			M25665	CCDS34657.1	7q11.23	2014-09-17	2008-07-31		ENSG00000158517	ENSG00000158517			7660	protein-coding gene	gene with protein product	"NADPH oxidase organizer 2", "chronic granulomatous disease, autosomal 1"	608512	"neutrophil cytosolic factor 1 (47kD, chronic granulomatous disease, autosomal 1)"				Standard	NM_000265		Approved	p47phox, NOXO2, NCF1A, SH3PXD1A	uc022aft.1	P14598	OTTHUMG00000149965	ENST00000289473.4:c.345C>T	7.37:g.74193718C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NEH2|A8K7S9|O43842|Q2PP07|Q53FR5|Q9BU90|Q9BXI7|Q9BXI8|Q9UDV9|Q9UMU2	Silent	SNP	ENST00000289473.4	37	CCDS34657.1																																																																																				0.637	NCF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000314560.1	NM_000265		T	74193718	C	T	74193718	2	4	677	1	0	0	0	0	0	0	0	1	10223	871	31	1		1	NCF1	7	74193718	Silent	SNP	C	TCGA-KO-8406-01A-11D-2310-10		74193718	84944945	25	43677										
TRRAP	8295	broad.mit.edu	37	chr7	98522828	98522828	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tgatcaaatgcttcctggtgGccatgatgagcctggaggac	13	9	1	3			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr7:98522828G>T	ENST00000359863.4	+	22	3126	c.2917G>T	c.(2917-2919)Gcc>Tcc	p.A973S	TRRAP_ENST00000446306.3_Missense_Mutation_p.A972S|TRRAP_ENST00000355540.3_Missense_Mutation_p.A973S	NM_001244580.1	NP_001231509.1	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated protein	973					chromatin organization (GO:0006325)|histone acetylation (GO:0016573)|histone deubiquitination (GO:0016578)|histone H2A acetylation (GO:0043968)|histone H4 acetylation (GO:0043967)|mitotic cell cycle checkpoint (GO:0007093)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	NuA4 histone acetyltransferase complex (GO:0035267)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PCAF complex (GO:0000125)|STAGA complex (GO:0030914)|Swr1 complex (GO:0000812)|transcription factor TFTC complex (GO:0033276)	phosphotransferase activity, alcohol group as acceptor (GO:0016773)|transcription coactivator activity (GO:0003713)|transcription cofactor activity (GO:0003712)	p.A973S(2)		NS(3)|breast(1)|central_nervous_system(10)|endometrium(16)|kidney(7)|large_intestine(36)|liver(1)|lung(54)|ovary(10)|pancreas(1)|prostate(8)|skin(16)|stomach(5)|upper_aerodigestive_tract(6)|urinary_tract(2)	176	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CTTCCTGGTGGCCATGATGAG	0.562																																																2	Substitution - Missense(2)	endometrium(2)											173	138	149					7																	98522828		2203	4300	6503	SO:0001583	missense	8295			AF076974	CCDS5659.1, CCDS59066.1	7q21.2-q22.1	2010-06-22			ENSG00000196367	ENSG00000196367			12347	protein-coding gene	gene with protein product		603015				9708738, 9885574	Standard	NM_003496		Approved	TR-AP, PAF400, Tra1	uc003upp.3	Q9Y4A5	OTTHUMG00000150403	ENST00000359863.4:c.2917G>T	7.37:g.98522828G>T	ENSP00000352925:p.Ala973Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A4D265|O75218|Q9Y631|Q9Y6H4	Missense_Mutation	SNP	ENST00000359863.4	37	CCDS59066.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	22.1|22.1	4.250101|4.250101	0.80024|0.80024	.|.	.|.	ENSG00000196367|ENSG00000196367	ENST00000359863;ENST00000355540;ENST00000446306|ENST00000456197	T;T|.	0.02812|.	4.15;4.15|.	6.17|6.17	6.17|6.17	0.99709|0.99709	Armadillo-like helical (1);Armadillo-type fold (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.53578|0.53578	0.1805|0.1805	N|N	0.16066|0.16066	0.365|0.365	0.80722|0.80722	D|D	1|1	P;B;P|.	0.46784|.	0.884;0.297;0.461|.	B;B;B|.	0.43155|.	0.41;0.077;0.134|.	T|T	0.44143|0.44143	-0.9347|-0.9347	10|5	0.10377|.	T|.	0.69|.	.|.	20.8794|20.8794	0.99867|0.99867	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	973;687;973|.	Q9Y4A5-2;Q59FH1;Q9Y4A5|.	.;.;TRRAP_HUMAN|.	S|C	973;973;971|687	ENSP00000352925:A973S;ENSP00000347733:A973S|.	ENSP00000347733:A973S|.	A|W	+|+	1|3	0|0	TRRAP|TRRAP	98360764|98360764	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.988000|0.988000	0.76386|0.76386	9.728000|9.728000	0.98792|0.98792	2.941000|2.941000	0.99782|0.99782	0.655000|0.655000	0.94253|0.94253	GCC|TGG		0.562	TRRAP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000317978.1	NM_003496		T	98522828	G	T	98522828	3	4	677	1	0	0	0	0	1	0	0	0	16613	1203	42	4	2999	4	TRRAP	7	98522828	Missense_Mutation	SNP	G	TCGA-KO-8406-01A-11D-2310-10	24329110	98522828	60615835	26	43678										
ATP6V0E2	155066	mdanderson.org	37	chr7	149571095	149571095	+	5'UTR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	cgctgcccggctggggacccGcgcacctgcagcgcccgctg	15	19	0	0	rs79377053	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr7:149571095G>A	ENST00000464662.1	+	0	14				ATP6V0E2_ENST00000456496.2_Missense_Mutation_p.A30T|ATP6V0E2-AS1_ENST00000461019.1_RNA|ATP6V0E2_ENST00000425642.2_5'Flank|ATP6V0E2-AS1_ENST00000488315.1_RNA|ATP6V0E2_ENST00000606024.1_5'UTR|ATP6V0E2_ENST00000479613.1_5'UTR|ATP6V0E2-AS1_ENST00000464939.1_RNA|ATP6V0E2_ENST00000421974.2_Missense_Mutation_p.A30T			Q8NHE4	VA0E2_HUMAN	ATPase, H+ transporting V0 subunit e2						ATP hydrolysis coupled proton transport (GO:0015991)|cell growth (GO:0016049)|cellular iron ion homeostasis (GO:0006879)|insulin receptor signaling pathway (GO:0008286)|interaction with host (GO:0051701)|phagosome maturation (GO:0090382)|transferrin transport (GO:0033572)|transmembrane transport (GO:0055085)|vacuolar acidification (GO:0007035)	endosome membrane (GO:0010008)|integral component of membrane (GO:0016021)|phagocytic vesicle membrane (GO:0030670)|proton-transporting V-type ATPase, V0 domain (GO:0033179)	ATPase activity, coupled to transmembrane movement of ions (GO:0042625)|hydrogen ion transmembrane transporter activity (GO:0015078)			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00256)			CTGGGGACCCGCGCACCTGCA	0.716													G|||	682	0.136182	0.3994	0.049	5008	,	,		12396	0.0526		0.0368	False		,,,				2504	0.0307															0								G	THR/ALA,THR/ALA	991,2511		116,759,876	4	6	5		88,88	1.7	0	7	dbSNP_132	5	266,6746		7,252,3247	no	missense,missense	ATP6V0E2	NM_001100592.1,NM_145230.2	58,58	123,1011,4123	AA,AG,GG		3.7935,28.2981,11.9555	probably-damaging,probably-damaging	30/214,30/131	149571095	1257,9257	1751	3506	5257	SO:0001623	5_prime_UTR_variant	155066			AK057700	CCDS47742.1, CCDS55181.1	7q36.1	2010-04-21	2006-10-12	2006-10-12	ENSG00000171130	ENSG00000171130		"ATPases / V-type"	21723	protein-coding gene	gene with protein product		611019	"chromosome 7 open reading frame 32", "ATPase, H+ transporting V0 subunit E isoform 2-like (rat)"	C7orf32, ATP6V0E2L			Standard	XM_005249958		Approved		uc003wgs.3	Q8NHE4	OTTHUMG00000158094	ENST00000464662.1:c.-60G>A	7.37:g.149571095G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2T863|A2T8L7|B5MDP5|J3KQW7|Q6MZW1|Q75L47|Q7Z4R7|Q8N7I8	Missense_Mutation	SNP	ENST00000464662.1	37		283	0.1295787545787546	188	0.3821138211382114	21	0.058011049723756904	42	0.07342657342657342	32	0.04221635883905013	G	14.56	2.570645	0.45798	0.282981	0.037935	ENSG00000171130	ENST00000421974;ENST00000456496	.	.	.	2.57	1.67	0.24075	.	.	.	.	.	T	0.00012	0.0000	N	0.08118	0	0.43550	P	0.004141999999999979	P	0.40638	0.725	B	0.27608	0.081	T	0.43988	-0.9357	7	0.87932	D	0	.	7.3999	0.26958	0.0:0.2709:0.7291:0.0	.	30	E9PAS2	.	T	30	.	ENSP00000411672:A30T	A	+	1	0	ATP6V0E2	149202028	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	0.103000	0.15292	0.651000	0.30788	0.563000	0.77884	GCG		0.716	ATP6V0E2-007	KNOWN	alternative_3_UTR|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000350177.2	NM_145230		A	149571095	G	A	149571095	1	1	677	0	1	0	0	0	0	0	0	0	1176	1087	38	1		1	ATP6V0E2	7	149571095	5'UTR	SNP	G	TCGA-KO-8406-01A-11D-2310-10	51048267	149571095	9567568	27	43679										
MLL3	58508	mdanderson.org	37	chr7	151945291	151945291	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tcacacaaccctcaattgtaGgagtcatttcagagtccatc	6	12	4	1			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr7:151945291G>A	ENST00000262189.6	-	14	2446	c.2228C>T	c.(2227-2229)cCt>cTt	p.P743L	KMT2C_ENST00000355193.2_Missense_Mutation_p.P743L	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	743					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)										CTCAATTGTAGGAGTCATTTC	0.378																																																0													79	77	77					7																	151945291		2203	4298	6501	SO:0001583	missense	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.2228C>T	7.37:g.151945291G>A	ENSP00000262189:p.Pro743Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Missense_Mutation	SNP	ENST00000262189.6	37	CCDS5931.1	.	.	.	.	.	.	.	.	.	.	G	9.088	1.001012	0.19121	.	.	ENSG00000055609	ENST00000262189;ENST00000355193	D;D	0.82984	-1.66;-1.67	5.53	3.69	0.42338	.	0.700771	0.12290	N	0.482124	T	0.67850	0.2937	N	0.12746	0.255	0.27555	N	0.950388	B	0.09022	0.002	B	0.06405	0.002	T	0.55673	-0.8104	10	0.25106	T	0.35	.	9.9948	0.41893	0.1645:0.0:0.8355:0.0	.	743	Q8NEZ4	MLL3_HUMAN	L	743	ENSP00000262189:P743L;ENSP00000347325:P743L	ENSP00000262189:P743L	P	-	2	0	MLL3	151576224	0.956000	0.32656	0.898000	0.35279	0.657000	0.38888	3.175000	0.50855	1.304000	0.44892	0.650000	0.86243	CCT		0.378	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			A	151945291	G	A	151945291	3	1	677	1	0	0	0	0	1	0	0	0	9629	1000	35	2	12691	2	MLL3	7	151945291	Missense_Mutation	SNP	G	TCGA-KO-8406-01A-11D-2310-10	2374196	151945291	7193372	28	43680										
EGR3	1960	broad.mit.edu	37	chr8	22548132	22548132	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	gtcgctgcgcgcaaacttgcGcccgcagaactcgcaggcaa	12	15	0	1			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr8:22548132G>T	ENST00000317216.2	-	2	1375	c.1018C>A	c.(1018-1020)Cgc>Agc	p.R340S	EGR3_ENST00000519492.1_3'UTR|RP11-459E5.1_ENST00000523627.1_RNA|EGR3_ENST00000522910.1_Missense_Mutation_p.R302S|EGR3_ENST00000524088.1_5'UTR	NM_001199881.1|NM_004430.2	NP_001186810.1|NP_004421.2	Q06889	EGR3_HUMAN	early growth response 3	340					cell migration involved in sprouting angiogenesis (GO:0002042)|cellular response to cAMP (GO:0071320)|cellular response to fibroblast growth factor stimulus (GO:0044344)|cellular response to gonadotropin stimulus (GO:0071371)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|circadian rhythm (GO:0007623)|endothelial cell chemotaxis (GO:0035767)|muscle organ development (GO:0007517)|negative regulation of apoptotic process (GO:0043066)|neuromuscular synaptic transmission (GO:0007274)|peripheral nervous system development (GO:0007422)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of T cell differentiation in thymus (GO:0033089)|regulation of gamma-delta T cell differentiation (GO:0045586)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(1)|large_intestine(2)|lung(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	10		Prostate(55;0.0421)|Breast(100;0.102)		Colorectal(74;0.0145)|BRCA - Breast invasive adenocarcinoma(99;0.053)|COAD - Colon adenocarcinoma(73;0.0608)		GCAAACTTGCGCCCGCAGAAC	0.632																																																0													62	56	58					8																	22548132		2203	4300	6503	SO:0001583	missense	1960			X63741	CCDS6033.1, CCDS56528.1	8p23-p21	2013-01-08			ENSG00000179388	ENSG00000179388		"Zinc fingers, C2H2-type"	3240	protein-coding gene	gene with protein product	"zinc finger protein pilot"	602419				1906159, 11909874	Standard	NM_004430		Approved	PILOT	uc003xcm.1	Q06889	OTTHUMG00000097825	ENST00000317216.2:c.1018C>A	8.37:g.22548132G>T	ENSP00000318057:p.Arg340Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8U9|B4DHJ5|E7EW38|Q2M3W2	Missense_Mutation	SNP	ENST00000317216.2	37	CCDS6033.1	.	.	.	.	.	.	.	.	.	.	G	22.6	4.317109	0.81469	.	.	ENSG00000179388	ENST00000317216;ENST00000522910;ENST00000435199	T;T	0.18960	2.18;2.18	5.62	5.62	0.85841	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.055456	0.64402	D	0.000001	T	0.40886	0.1135	L	0.42581	1.335	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.91635	0.994;0.999	T	0.13308	-1.0514	10	0.87932	D	0	-25.3596	17.1549	0.86788	0.0:0.0:1.0:0.0	.	302;340	E7EW38;Q06889	.;EGR3_HUMAN	S	340;302;181	ENSP00000318057:R340S;ENSP00000430310:R302S	ENSP00000318057:R340S	R	-	1	0	EGR3	22604077	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	2.832000	0.48152	2.643000	0.89663	0.655000	0.94253	CGC		0.632	EGR3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000215098.1	NM_004430		T	22548132	G	T	22548132	3	4	677	1	0	0	0	0	1	0	0	0	4975	1087	38	4	149	4	EGR3	8	22548132	Missense_Mutation	SNP	G	TCGA-KO-8406-01A-11D-2310-10		22548132	123815890	29	43681										
PLEC	5339	mdanderson.org	37	chr8	144997656	144997656	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tgctccgcctgtgcccgccgCgccgcctcttgctcggcctc	11	21	1	0	rs7016416	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr8:144997656C>T	ENST00000322810.4	-	31	7021	c.6852G>A	c.(6850-6852)gcG>gcA	p.A2284A	PLEC_ENST00000354589.3_Silent_p.A2147A|PLEC_ENST00000345136.3_Silent_p.A2147A|PLEC_ENST00000527096.1_Silent_p.A2170A|PLEC_ENST00000436759.2_Silent_p.A2174A|PLEC_ENST00000354958.2_Silent_p.A2125A|PLEC_ENST00000357649.2_Silent_p.A2151A|PLEC_ENST00000398774.2_Silent_p.A2115A|PLEC_ENST00000356346.3_Silent_p.A2133A	NM_201380.2	NP_958782.1	Q15149	PLEC_HUMAN	plectin	2284	Central fibrous rod domain.				apoptotic process (GO:0006915)|cell junction assembly (GO:0034329)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)	costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|intermediate filament cytoskeleton (GO:0045111)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcoplasm (GO:0016528)	ankyrin binding (GO:0030506)|poly(A) RNA binding (GO:0044822)|structural constituent of muscle (GO:0008307)			NS(1)|breast(3)|central_nervous_system(4)|cervix(7)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(8)|lung(57)|ovary(4)|pancreas(2)|prostate(11)|skin(9)|stomach(2)|upper_aerodigestive_tract(10)	137						GTGCCCGCCGCGCCGCCTCTT	0.692													C|||	1153	0.230232	0.028	0.2954	5008	,	,		12031	0.1429		0.4245	False		,,,				2504	0.3476															0								C	,,,,,,,	329,3527		26,277,1625	8	11	10		6522,6399,6375,6852,6345,6441,6453,6441	-7.4	0	8	dbSNP_116	10	3097,4915		616,1865,1525	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	PLEC	NM_000445.3,NM_201378.2,NM_201379.1,NM_201380.2,NM_201381.1,NM_201382.2,NM_201383.1,NM_201384.1	,,,,,,,	642,2142,3150	TT,TC,CC		38.6545,8.5322,28.8675	,,,,,,,	2174/4575,2133/4534,2125/4526,2284/4685,2115/4516,2147/4548,2151/4552,2147/4548	144997656	3426,8442	1928	4006	5934	SO:0001819	synonymous_variant	5339			U53204	CCDS43769.1, CCDS43770.1, CCDS43771.1, CCDS43772.1, CCDS43773.1, CCDS43774.1, CCDS43775.1, CCDS47936.1	8q24	2010-02-04	2010-02-04	2010-02-04	ENSG00000178209	ENSG00000178209			9069	protein-coding gene	gene with protein product		601282	"plectin 1, intermediate filament binding protein, 500kD", "epidermolysis bullosa simplex 1 (Ogna)", "plectin 1, intermediate filament binding protein 500kDa"	EBS1, PLEC1		8633055, 8696340	Standard	XM_005250976		Approved	PCN, PLTN	uc003zaf.1	Q15149	OTTHUMG00000165291	ENST00000322810.4:c.6852G>A	8.37:g.144997656C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q15148|Q16640|Q6S376|Q6S377|Q6S378|Q6S379|Q6S380|Q6S381|Q6S382|Q6S383	Silent	SNP	ENST00000322810.4	37	CCDS43772.1																																																																																				0.692	PLEC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383281.1	NM_000445		T	144997656	C	T	144997656	2	4	677	1	0	0	0	0	0	0	0	1	12059	755	27	1		1	PLEC	8	144997656	Silent	SNP	C	TCGA-KO-8406-01A-11D-2310-10	122449524	144997656	1366366	30	43682										
FOXD4	2298	broad.mit.edu	37	chr9	117398	117400	+	In_Frame_Del	DEL	GGC	GGC	-													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tggggtaggcccccgggactGgctgcggcggggcaggggcc							TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	GGC	GGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr9:117398_117400delGGC	ENST00000382500.2	-	1	1017_1019	c.720_722delGCC	c.(718-723)cagcca>caa	p.P241del		NM_207305.4	NP_997188.2	Q12950	FOXD4_HUMAN	forkhead box D4	241	Pro-rich.				transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding, bending (GO:0008301)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(5)|large_intestine(2)|lung(3)|prostate(1)|skin(3)	14	all_lung(41;0.218)	all_cancers(5;0.0395)|Acute lymphoblastic leukemia(5;1.91e-07)|all_hematologic(5;1.95e-06)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		CCCCGGGACTGGCTGCGGCGGGG	0.734																																																0																																										SO:0001651	inframe_deletion	2298			U13223	CCDS34975.1	9p24.3	2014-09-17			ENSG00000170122	ENSG00000170122		"Forkhead boxes"	3805	protein-coding gene	gene with protein product		601092		FKHL9		7957066, 8825632, 12234674	Standard	NM_207305		Approved	FREAC5, FOXD4a	uc003zfz.4	Q12950	OTTHUMG00000021015	ENST00000382500.2:c.720_722delGCC	9.37:g.117398_117400delGGC	ENSP00000371940:p.Pro241del	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN05|B9EGL7|Q5VVK1|Q8WXT6	In_Frame_Del	DEL	ENST00000382500.2	37	CCDS34975.1																																																																																				0.734	FOXD4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055433.1	NM_207305		-	117400	GGC	-	117398	7	5	677	1	0	1	0	1	0	0	0	0	6006	1348	47	0	601	0	FOXD4	9	117398	In_Frame_Del	DEL	GGC	TCGA-KO-8406-01A-11D-2310-10		117398	141096033	31	43683										
MED27	9442	mdanderson.org	37	chr9	134735980	134735980	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ttcggaaatccctccatgtcGggggaaggccgtcctgcaga	13	12	0	1	rs557626461	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr9:134735980G>A	ENST00000292035.5	-	8	944	c.881C>T	c.(880-882)cCg>cTg	p.P294L	MED27_ENST00000357028.2_Missense_Mutation_p.P258L	NM_004269.3	NP_004260.2	Q6P2C8	MED27_HUMAN	mediator complex subunit 27	294					gene expression (GO:0010467)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|stem cell maintenance (GO:0019827)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cytoplasm (GO:0005737)|mediator complex (GO:0016592)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	transcription coactivator activity (GO:0003713)	p.P294L(4)|p.P294fs*>18(1)		breast(1)|endometrium(4)|kidney(3)|large_intestine(3)|lung(5)|skin(1)|urinary_tract(1)	18		Myeloproliferative disorder(178;0.206)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000193)		CCTCCATGTCGGGGGAAGGCC	0.597													G|||	40	0.00798722	0.003	0.0072	5008	,	,		18345	0.0		0.0169	False		,,,				2504	0.0143				Colon(41;784 923 6932 42329 52483)											5	Substitution - Missense(4)|Deletion - Frameshift(1)	endometrium(2)|kidney(2)|large_intestine(1)											30	29	29					9																	134735980		2203	4300	6503	SO:0001583	missense	9442			AF104252	CCDS6945.1, CCDS59153.1, CCDS69689.1	9q34.13	2008-02-05	2007-07-30	2007-07-30	ENSG00000160563	ENSG00000160563			2377	protein-coding gene	gene with protein product		605044	"cofactor required for Sp1 transcriptional activation, subunit 8, 34kDa"	CRSP8		9989412	Standard	NM_004269		Approved	TRAP37, CRSP34	uc004cbe.2	Q6P2C8	OTTHUMG00000020833	ENST00000292035.5:c.881C>T	9.37:g.134735980G>A	ENSP00000292035:p.Pro294Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O95401|Q4F964|Q5VTA4|Q5VTA5|Q9BU57|Q9NYR4|V9GYV9	Missense_Mutation	SNP	ENST00000292035.5	37	CCDS6945.1	.	.	.	.	.	.	.	.	.	.	G	31	5.095595	0.94197	.	.	ENSG00000160563	ENST00000292035;ENST00000357028;ENST00000372184	.	.	.	5.3	5.3	0.74995	.	0.000000	0.85682	D	0.000000	D	0.84014	0.5379	M	0.87180	2.865	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.992;1.0	D	0.86894	0.2050	9	0.87932	D	0	-0.1478	16.105	0.81213	0.0:0.0:1.0:0.0	.	258;294	Q6P2C8-2;Q6P2C8	.;MED27_HUMAN	L	294;220;258	.	ENSP00000292035:P294L	P	-	2	0	MED27	133725801	1.000000	0.71417	0.949000	0.38748	0.987000	0.75469	7.762000	0.85270	2.472000	0.83506	0.655000	0.94253	CCG		0.597	MED27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054770.2	NM_004269		A	134735980	G	A	134735980	3	1	677	1	0	0	0	0	1	0	0	0	9452	1116	39	1	58	1	MED27	9	134735980	Missense_Mutation	SNP	G	TCGA-KO-8406-01A-11D-2310-10	134618582	134735980	6477451	32	43684										
LCN1	3933	broad.mit.edu	37	chr9	138415126	138415127	+	Frame_Shift_Ins	INS	-	-	G													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ccgtcctggagaaaactgacINSgagccgggaaaatacacggc					rs146192526		TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr9:138415126_138415127insG	ENST00000263598.2	+	3	330_331	c.270_271insG	c.(271-273)gagfs	p.E91fs	LCN1_ENST00000371781.3_Frame_Shift_Ins_p.E91fs	NM_001252617.1|NM_001252618.1|NM_001252619.1|NM_002297.3	NP_001239546.1|NP_001239547.1|NP_001239548.1|NP_002288.1	P31025	LCN1_HUMAN	lipocalin 1	91					negative regulation of endopeptidase activity (GO:0010951)|proteolysis (GO:0006508)|response to stimulus (GO:0050896)|retina homeostasis (GO:0001895)|sensory perception of taste (GO:0050909)|transport (GO:0006810)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	cysteine-type endopeptidase inhibitor activity (GO:0004869)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(5)	13		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.54e-08)|Epithelial(140;5.25e-08)|all cancers(34;9.27e-07)|READ - Rectum adenocarcinoma(205;0.155)		AGAAAACTGACGAGCCGGGAAA	0.644																																																0																																										SO:0001589	frameshift_variant	3933				CCDS6991.1	9q34	2011-11-14	2011-11-01		ENSG00000160349	ENSG00000160349		"Lipocalins"	6525	protein-coding gene	gene with protein product	"Von Ebner gland protein", "tear lipocalin", "lipocalin 1-like 2", "tear prealbumin"	151675	"lipocalin 1 (protein migrating faster than albumin, tear prealbumin)", "lipocalin 1 (tear prealbumin)"			8276406	Standard	NM_002297		Approved	VEGP, TP, PMFA, MGC71975, TLC	uc022bpk.1	P31025	OTTHUMG00000020908	ENST00000263598.2:c.271dupG	9.37:g.138415127_138415127dupG	ENSP00000263598:p.Glu91fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T8A1	Frame_Shift_Ins	INS	ENST00000263598.2	37	CCDS6991.1																																																																																				0.644	LCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054992.1	NM_002297		G	138415127	-	G	138415126	7	5	677	1	0	1	1	0	0	0	0	0	8687	535	19	0	280	0	LCN1	9	138415126	Frame_Shift_Ins	INS	-	TCGA-KO-8406-01A-11D-2310-10	3679146	138415126	2798305	33	43685										
KCNT1	57582	hgsc.bcm.edu	37	chr9	138678160	138678160	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	gccacacgggcggcggtgacCccgcagagcacccactgcta	13	17	0	2	rs200642629	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr9:138678160C>T	ENST00000263604.3	+	28	3217	c.3217C>T	c.(3217-3219)Ccc>Tcc	p.P1073S	KCNT1_ENST00000298480.5_Missense_Mutation_p.P1099S|KCNT1_ENST00000488444.2_Missense_Mutation_p.P1078S|KCNT1_ENST00000486577.2_Missense_Mutation_p.P1056S|KCNT1_ENST00000490355.2_Missense_Mutation_p.P1077S|KCNT1_ENST00000371757.2_Missense_Mutation_p.P1099S|KCNT1_ENST00000491806.2_Missense_Mutation_p.P1064S|KCNT1_ENST00000487664.1_Missense_Mutation_p.P1054S			Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	1073					potassium ion transmembrane transport (GO:0071805)	voltage-gated potassium channel complex (GO:0008076)	calcium-activated potassium channel activity (GO:0015269)|voltage-gated potassium channel activity (GO:0005249)			breast(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(18)|ovary(1)|pancreas(3)|prostate(5)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	50		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		CGGCGGTGACCCCGCAGAGCA	0.751													c|||	12	0.00239617	0.0008	0.0043	5008	,	,		9758	0.0		0.005	False		,,,				2504	0.0031															0									SER/PRO	5,3799		0,5,1897	5	8	7		3295	2.8	0	9		7	43,7487		0,43,3722	no	missense	KCNT1	NM_020822.2	74	0,48,5619	TT,TC,CC		0.571,0.1314,0.4235	benign	1099/1236	138678160	48,11286	1902	3765	5667	SO:0001583	missense	57582			AB037843	CCDS35175.1, CCDS35175.2, CCDS65188.1	9q34.3	2012-07-05			ENSG00000107147	ENSG00000107147		"Potassium channels", "Voltage-gated ion channels / Potassium channels, calcium-activated"	18865	protein-coding gene	gene with protein product		608167				10718198, 16382103	Standard	NM_020822		Approved	KCa4.1, KIAA1422	uc011mdq.2	Q5JUK3	OTTHUMG00000020917	ENST00000263604.3:c.3217C>T	9.37:g.138678160C>T	ENSP00000263604:p.Pro1073Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXF7|B7ZVY4|B9EGP2|G5E9V0|Q9P2C5	Missense_Mutation	SNP	ENST00000263604.3	37		.	.	.	.	.	.	.	.	.	.	C	2.688	-0.273722	0.05679	0.001314	0.00571	ENSG00000107147	ENST00000487664;ENST00000298480;ENST00000371757;ENST00000486577;ENST00000491806;ENST00000488444;ENST00000490355;ENST00000263604	T;T;T;T	0.20200	2.12;2.12;2.11;2.09	4.75	2.83	0.33086	.	0.398942	0.25397	U	0.030971	T	0.07052	0.0179	N	0.14661	0.345	0.34754	D	0.732071	B;B;B	0.11235	0.001;0.0;0.004	B;B;B	0.16289	0.004;0.001;0.015	T	0.27226	-1.0080	10	0.08837	T	0.75	-1.9472	9.2418	0.37500	0.1443:0.7787:0.0:0.077	.	1066;1099;1054	C9JYL2;B9EGP2;G5E9V0	.;.;.	S	1054;1099;1099;1058;1066;1080;1078;1073	ENSP00000417851:P1054S;ENSP00000298480:P1099S;ENSP00000360822:P1099S;ENSP00000263604:P1073S	ENSP00000263604:P1073S	P	+	1	0	KCNT1	137817981	1.000000	0.71417	0.024000	0.17045	0.003000	0.03518	4.140000	0.58031	0.393000	0.25203	0.586000	0.80456	CCC		0.751	KCNT1-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_020822		T	138678160	C	T	138678160	3	4	677	1	0	0	0	0	1	0	0	0	8098	623	22	2	3409	2	KCNT1	9	138678160	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10	263034	138678160	2535271	34	43686										
CARD9	64170	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr9	139262146	139262146	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ccctccacggccagtagctgCgcctcacactggaacacctg	9	18	1	0	rs574560841	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr9:139262146C>T	ENST00000371732.5	-	8	1377	c.1212G>A	c.(1210-1212)gcG>gcA	p.A404A	CARD9_ENST00000460290.1_5'Flank|CARD9_ENST00000371734.3_Silent_p.A404A	NM_052813.4	NP_434700.2	Q9H257	CARD9_HUMAN	caspase recruitment domain family, member 9	404					defense response to Gram-positive bacterium (GO:0050830)|defense response to virus (GO:0051607)|innate immune response (GO:0045087)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of JNK cascade (GO:0046330)|positive regulation of stress-activated MAPK cascade (GO:0032874)|positive regulation of tumor necrosis factor production (GO:0032760)|regulation of apoptotic process (GO:0042981)|regulation of interleukin-2 biosynthetic process (GO:0045076)|regulation of interleukin-6 biosynthetic process (GO:0045408)|regulation of tumor necrosis factor biosynthetic process (GO:0042534)|response to drug (GO:0042493)|response to exogenous dsRNA (GO:0043330)|response to fungus (GO:0009620)|response to muramyl dipeptide (GO:0032495)|response to peptidoglycan (GO:0032494)	cytoplasm (GO:0005737)	CARD domain binding (GO:0050700)|protein homodimerization activity (GO:0042803)			endometrium(2)|kidney(2)|large_intestine(3)|lung(3)|pancreas(1)|prostate(3)|skin(1)	15		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;4.58e-06)|Epithelial(140;5.65e-06)		CCAGTAGCTGCGCCTCACACT	0.726													C|||	2	0.000399361	0.0	0.0014	5008	,	,		16164	0.0		0.001	False		,,,				2504	0.0															0													33	29	30					9																	139262146		2185	4291	6476	SO:0001819	synonymous_variant	64170			AF311287	CCDS6997.1, CCDS48057.1	9q34	2014-09-17			ENSG00000187796	ENSG00000187796			16391	protein-coding gene	gene with protein product		607212				11053425	Standard	NM_052813		Approved		uc004chg.3	Q9H257	OTTHUMG00000020925	ENST00000371732.5:c.1212G>A	9.37:g.139262146C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SXM5|Q5SXM6|Q9H854	Silent	SNP	ENST00000371732.5	37	CCDS6997.1																																																																																				0.726	CARD9-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055053.1	NM_052813		T	139262146	C	T	139262146	2	4	677	1	0	0	0	0	0	0	0	1	2654	755	27	1		1	CARD9	9	139262146	Silent	SNP	C	TCGA-KO-8406-01A-11D-2310-10	583986	139262146	1951285	35	43687										
MUC2	4583	mdanderson.org	37	chr11	1092860	1092860	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	cggcacacagaccccaacaaCgacacccatcaccaccacca	4	21	1	1			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr11:1092860C>T	ENST00000441003.2	+	30	4706	c.4679C>T	c.(4678-4680)aCg>aTg	p.T1560M	MUC2_ENST00000333592.6_5'Flank|MUC2_ENST00000359061.5_Missense_Mutation_p.T1561M|MUC2_ENST00000361558.6_Intron	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	ACCCCAACAACGACACCCATC	0.627																																																0													126	161	149					11																	1092860		1924	3596	5520	SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4679C>T	11.37:g.1092860C>T	ENSP00000415183:p.Thr1560Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	c	3.171	-0.170008	0.06461	.	.	ENSG00000198788	ENST00000441003;ENST00000359061	T;T	0.15718	2.4;2.8	1.61	0.458	0.16670	.	7739.210000	0.00465	U	0.000107	T	0.11623	0.0283	.	.	.	0.09310	N	1	D	0.60160	0.987	B	0.34489	0.184	T	0.37731	-0.9693	9	0.46703	T	0.11	.	7.5682	0.27892	0.2572:0.7428:0.0:0.0	.	1560	E7EUV1	.	M	1560;1561	ENSP00000415183:T1560M;ENSP00000351956:T1561M	ENSP00000351956:T1561M	T	+	2	0	MUC2	1082860	0.000000	0.05858	0.000000	0.03702	0.019000	0.09904	0.339000	0.19875	-0.001000	0.14495	0.109000	0.15622	ACG		0.627	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		T	1092860	C	T	1092860	3	4	677	1	0	0	0	0	1	0	0	0	9982	536	19	1	4797	1	MUC2	11	1092860	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10		1092860	133913656	36	43688			2	119		3	3	495	N	T_C	7.333477e-07
MUC2	4583	mdanderson.org	37	chr11	1092928	1092928	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ccggcacacagaccccaacaTcgacacccatcaccaccacc	4	22	1	1	rs12791677		TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr11:1092928T>A	ENST00000441003.2	+	30	4774	c.4747T>A	c.(4747-4749)Tcg>Acg	p.S1583T	MUC2_ENST00000333592.6_5'Flank|MUC2_ENST00000359061.5_Missense_Mutation_p.S1584T|MUC2_ENST00000361558.6_Intron	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	gaccccaacatcgacacccat	0.632																																																0																																										SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4747T>A	11.37:g.1092928T>A	ENSP00000415183:p.Ser1583Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	T	0.629	-0.817927	0.02776	.	.	ENSG00000198788	ENST00000441003;ENST00000359061	T;T	0.12255	2.7;3.41	1.75	-3.51	0.04696	.	3.022220	0.02729	N	0.114829	T	0.06005	0.0156	.	.	.	0.09310	N	1	B	0.06786	0.001	B	0.01281	0.0	T	0.29119	-1.0022	9	0.12766	T	0.61	.	0.5592	0.00676	0.2873:0.3401:0.1565:0.2162	.	1583	E7EUV1	.	T	1583;1584	ENSP00000415183:S1583T;ENSP00000351956:S1584T	ENSP00000351956:S1584T	S	+	1	0	MUC2	1082928	0.000000	0.05858	0.000000	0.03702	0.029000	0.11900	-3.679000	0.00395	-2.640000	0.00429	-1.550000	0.00899	TCG		0.632	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		A	1092928	T	A	1092928	3	1	677	1	0	0	0	0	1	0	0	0	9982	1435	50	5	4865	5	MUC2	11	1092928	Missense_Mutation	SNP	T	TCGA-KO-8406-01A-11D-2310-10	68	1092928	133913588	37	43689			2	119		3	3	495	N	T_C	7.333477e-07
MUC2	4583	mdanderson.org	37	chr11	1093354	1093354	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ccccaaccccgacacccatcTccaccaccactacggtgacc	4	23	1	1	rs56290335	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr11:1093354T>A	ENST00000441003.2	+	30	5200	c.5173T>A	c.(5173-5175)Tcc>Acc	p.S1725T	MUC2_ENST00000333592.6_Missense_Mutation_p.S13T|MUC2_ENST00000359061.5_Missense_Mutation_p.S1692T|MUC2_ENST00000361558.6_Intron	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)		p.S1725T(1)|p.S1692T(1)		NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	gacacccatctccaccaccac	0.647																																																2	Substitution - Missense(2)	stomach(2)											207	244	231					11																	1093354		1965	3771	5736	SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.5173T>A	11.37:g.1093354T>A	ENSP00000415183:p.Ser1725Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	A	0.005	-2.130853	0.00338	.	.	ENSG00000198788	ENST00000441003;ENST00000359061;ENST00000333592	T;T;T	0.05580	3.56;3.42;3.71	1.49	-2.99	0.05497	.	0.209755	0.18974	U	0.126050	T	0.02156	0.0067	.	.	.	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.40232	-0.9574	9	0.07813	T	0.8	.	3.3544	0.07164	0.3578:0.2012:0.0:0.441	rs56290335;rs61051760	1725	E7EUV1	.	T	1725;1692;13	ENSP00000415183:S1725T;ENSP00000351956:S1692T;ENSP00000331373:S13T	ENSP00000331373:S13T	S	+	1	0	MUC2	1083354	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.518000	0.06267	-2.490000	0.00517	-1.234000	0.01563	TCC		0.647	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		A	1093354	T	A	1093354	3	1	677	1	0	0	0	0	1	0	0	0	9982	1551	54	5	5291	5	MUC2	11	1093354	Missense_Mutation	SNP	T	TCGA-KO-8406-01A-11D-2310-10	426	1093354	133913162	38	43690			2	119		3	3	495	N	T_C	7.333477e-07
FOLH1	2346	bcgsc.ca	37	chr11	49204779	49204779	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	caacagcctctgcaattccaCgcctataagcatattctgaa	5	13	2	1	rs116795343	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr11:49204779C>T	ENST00000256999.2	-	7	1102	c.842G>A	c.(841-843)cGt>cAt	p.R281H	FOLH1_ENST00000533034.1_Missense_Mutation_p.R266H|FOLH1_ENST00000343844.4_De_novo_Start_OutOfFrame|FOLH1_ENST00000356696.3_Missense_Mutation_p.R281H|FOLH1_ENST00000340334.7_Missense_Mutation_p.R266H	NM_004476.1	NP_004467.1	Q04609	FOLH1_HUMAN	folate hydrolase (prostate-specific membrane antigen) 1	281	NAALADase.				folic acid-containing compound metabolic process (GO:0006760)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	carboxypeptidase activity (GO:0004180)|dipeptidase activity (GO:0016805)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)|peptidase activity (GO:0008233)	p.R281L(1)		NS(2)|breast(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(7)|lung(34)|ovary(1)|skin(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	60					Capromab(DB00089)	TGCAATTCCACGCCTATAAGC	0.348																																																1	Substitution - Missense(1)	lung(1)											72	73	73					11																	49204779		2201	4298	6499	SO:0001583	missense	2346			M99487	CCDS7946.1, CCDS31493.1, CCDS53626.1, CCDS53627.1, CCDS53628.1	11p11.2	2011-07-22			ENSG00000086205	ENSG00000086205	3.4.17.21		3788	protein-coding gene	gene with protein product	"glutamate carboxylase II", "glutamate carboxypeptidase II"	600934		FOLH		9838072	Standard	NM_001193472		Approved	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII	uc001ngy.3	Q04609	OTTHUMG00000166625	ENST00000256999.2:c.842G>A	11.37:g.49204779C>T	ENSP00000256999:p.Arg281His	Somatic		WXS	Illumina HiSeq	Phase_I	A4UU12|A9CB79|B7Z312|B7Z343|D3DQS5|E9PDX8|O43748|Q16305|Q541A4|Q8TAY3|Q9NP15|Q9NYE2|Q9P1P8	Missense_Mutation	SNP	ENST00000256999.2	37	CCDS7946.1	.	.	.	.	.	.	.	.	.	.	C	2.929	-0.221410	0.06061	.	.	ENSG00000086205	ENST00000256999;ENST00000356696;ENST00000340334;ENST00000533034;ENST00000389724	T;T;T;T	0.43294	0.95;0.95;0.95;0.95	2.76	-1.12	0.09808	.	0.978445	0.08346	N	0.960084	T	0.21427	0.0516	N	0.14661	0.345	0.80722	D	1	B;B;B;B	0.06786	0.001;0.001;0.0;0.0	B;B;B;B	0.06405	0.001;0.0;0.002;0.0	T	0.23655	-1.0182	10	0.14656	T	0.56	.	6.6038	0.22714	0.0:0.3193:0.0:0.6807	.	266;266;281;281	Q04609-9;Q04609-7;Q04609-8;Q04609	.;.;.;FOLH1_HUMAN	H	281;281;266;266;281	ENSP00000256999:R281H;ENSP00000349129:R281H;ENSP00000344131:R266H;ENSP00000431463:R266H	ENSP00000256999:R281H	R	-	2	0	FOLH1	49161355	0.002000	0.14202	0.792000	0.32020	0.272000	0.26649	-0.922000	0.04004	-0.085000	0.12573	0.194000	0.17425	CGT		0.348	FOLH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390896.1	NM_004476		T	49204779	C	T	49204779	3	4	677	1	0	0	0	0	1	0	0	0	5986	536	19	1	1462	1	FOLH1	11	49204779	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10	48111425	49204779	85801737	39	43691										
OR5M9	390162	mdanderson.org	37	chr11	56230790	56230790	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	agtgatcatgtaaaccgctaGgaacaccacaaaaaagagaa	8	8	1	2			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr11:56230790G>T	ENST00000279791.1	-	1	87	c.88C>A	c.(88-90)Cta>Ata	p.L30I		NM_001004743.1	NP_001004743.1	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M, member 9	30						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(17)|ovary(1)|prostate(1)|skin(4)|urinary_tract(2)	36	Esophageal squamous(21;0.00448)					TAAACCGCTAGGAACACCACA	0.433																																																0													52	51	51					11																	56230790		2201	4296	6497	SO:0001583	missense	390162			AB065747	CCDS31531.1	11q11	2012-08-09			ENSG00000150269	ENSG00000150269		"GPCR / Class A : Olfactory receptors"	15294	protein-coding gene	gene with protein product							Standard	NM_001004743		Approved		uc010rjj.2	Q8NGP3	OTTHUMG00000166874	ENST00000279791.1:c.88C>A	11.37:g.56230790G>T	ENSP00000279791:p.Leu30Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEW5|Q96RB9	Missense_Mutation	SNP	ENST00000279791.1	37	CCDS31531.1	.	.	.	.	.	.	.	.	.	.	G	12.10	1.837227	0.32513	.	.	ENSG00000150269	ENST00000279791	T	0.01854	4.6	4.82	0.603	0.17541	.	0.000000	0.35615	N	0.003085	T	0.10895	0.0266	M	0.88906	2.99	0.27153	N	0.961363	D	0.76494	0.999	D	0.87578	0.998	T	0.03166	-1.1065	10	0.72032	D	0.01	-4.7656	5.3013	0.15780	0.2686:0.0:0.5859:0.1455	.	30	Q8NGP3	OR5M9_HUMAN	I	30	ENSP00000279791:L30I	ENSP00000279791:L30I	L	-	1	2	OR5M9	55987366	0.000000	0.05858	0.485000	0.27403	0.065000	0.16274	-0.600000	0.05693	0.147000	0.19030	-0.272000	0.10252	CTA		0.433	OR5M9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391638.1	NM_001004743		T	56230790	G	T	56230790	3	4	677	1	0	0	0	0	1	0	0	0	11184	991	35	4	846	4	OR5M9	11	56230790	Missense_Mutation	SNP	G	TCGA-KO-8406-01A-11D-2310-10	7026011	56230790	78775726	40	43692										
C11orf9	745	broad.mit.edu	37	chr11	61537797	61537797	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	cgcctggagcatccgcccccAcctccagcccacttgccagg	9	21	0	0			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr11:61537797A>C	ENST00000278836.5	+	5	636	c.540A>C	c.(538-540)ccA>ccC	p.P180P	TMEM258_ENST00000535042.1_Intron|MYRF_ENST00000265460.5_Silent_p.P171P	NM_001127392.1	NP_001120864.1	Q9Y2G1	MRF_HUMAN	myelin regulatory factor	180	Pro-rich.				central nervous system myelin maintenance (GO:0032286)|central nervous system myelination (GO:0022010)|oligodendrocyte development (GO:0014003)|oligodendrocyte differentiation (GO:0048709)|positive regulation of myelination (GO:0031643)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	DNA binding (GO:0003677)|peptidase activity (GO:0008233)|sequence-specific DNA binding transcription factor activity (GO:0003700)										ATCCGCCCCCACCTCCAGCCC	0.692																																																0													10	9	9					11																	61537797		2174	4280	6454	SO:0001819	synonymous_variant	745				CCDS31579.1, CCDS44622.1	11q12-q13.1	2012-12-19	2012-12-19	2012-12-19	ENSG00000124920	ENSG00000124920			1181	protein-coding gene	gene with protein product	"myelin gene regulatory factor"	608329	"chromosome 11 open reading frame 9"	C11orf9		10828591, 12384578	Standard	NM_001127392		Approved	Ndt80, pqn-47, MRF	uc001nsc.1	Q9Y2G1	OTTHUMG00000168161	ENST00000278836.5:c.540A>C	11.37:g.61537797A>C		Somatic		WXS	Illumina HiSeq	Phase_I	O43582|Q9P1Q6	Silent	SNP	ENST00000278836.5	37	CCDS44622.1																																																																																				0.692	MYRF-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000398519.2	NM_013279		C	61537797	A	C	61537797	2	2	677	1	0	0	0	0	0	0	0	1	1673	146	6	5		5	C11orf9	11	61537797	Silent	SNP	A	TCGA-KO-8406-01A-11D-2310-10	5307007	61537797	73468719	41	43693										
SLC22A11	55867	hgsc.bcm.edu;mdanderson.org	37	chr11	64326666	64326666	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	agccagtccatcttcatgtcCgggatcctggtgggctcctt	11	13	2	0	rs145210367		TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr11:64326666C>T	ENST00000301891.4	+	2	827	c.453C>T	c.(451-453)tcC>tcT	p.S151S	SLC22A11_ENST00000490834.1_Intron|SLC22A11_ENST00000377585.3_Silent_p.S151S|SLC22A11_ENST00000377581.3_Silent_p.S151S	NM_018484.2	NP_060954.1	Q9NSA0	S22AB_HUMAN	solute carrier family 22 (organic anion/urate transporter), member 11	151					organic anion transport (GO:0015711)|transmembrane transport (GO:0055085)|urate metabolic process (GO:0046415)	apical plasma membrane (GO:0016324)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	inorganic anion exchanger activity (GO:0005452)|organic anion transmembrane transporter activity (GO:0008514)|sodium-independent organic anion transmembrane transporter activity (GO:0015347)			breast(1)|central_nervous_system(3)|endometrium(3)|kidney(2)|large_intestine(5)|lung(6)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	23					Aminohippurate(DB00345)|Aspartame(DB00168)|Benzylpenicillin(DB01053)|Bumetanide(DB00887)|Cefalotin(DB00456)|Cefamandole(DB01326)|Cefazolin(DB01327)|Cefoperazone(DB01329)|Cefotaxime(DB00493)|Ceftriaxone(DB01212)|Cimetidine(DB00501)|Conjugated Estrogens(DB00286)|Diclofenac(DB00586)|Dinoprost Tromethamine(DB01160)|Dinoprostone(DB00917)|Doxycycline(DB00254)|Estradiol(DB00783)|Furosemide(DB00695)|Ibuprofen(DB01050)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Methotrexate(DB00563)|Minocycline(DB01017)|Novobiocin(DB01051)|Oxytetracycline(DB00595)|Phenylbutazone(DB00812)|Piroxicam(DB00554)|Pravastatin(DB00175)|Probenecid(DB01032)|Salicylic acid(DB00936)|Tetracycline(DB00759)|Zidovudine(DB00495)	TCTTCATGTCCGGGATCCTGG	0.607																																																0								C		0,4402		0,0,2201	136	121	126		453	-4.5	0	11	dbSNP_134	126	1,8593		0,1,4296	no	coding-synonymous	SLC22A11	NM_018484.2		0,1,6497	TT,TC,CC		0.0116,0.0,0.0077		151/551	64326666	1,12995	2201	4297	6498	SO:0001819	synonymous_variant	55867			AB026116	CCDS8074.1	11q13.3	2013-05-22	2008-01-11		ENSG00000168065	ENSG00000168065		"Solute carriers"	18120	protein-coding gene	gene with protein product		607097				10660625, 15576633, 17229912	Standard	NM_018484		Approved	OAT4	uc001oai.3	Q9NSA0	OTTHUMG00000045142	ENST00000301891.4:c.453C>T	11.37:g.64326666C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K426|Q53GR2|Q6ZP72|Q8NBU4	Silent	SNP	ENST00000301891.4	37	CCDS8074.1																																																																																				0.607	SLC22A11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000104886.4	NM_018484		T	64326666	C	T	64326666	2	4	677	1	0	0	0	0	0	0	0	1	14455	639	23	1		1	SLC22A11	11	64326666	Silent	SNP	C	TCGA-KO-8406-01A-11D-2310-10	2788869	64326666	70679850	42	43694										
KLC2	64837	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	66033395	66033395	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	cagtggcaggcggggagaccGccgcagcagccgagacatgg	18	12	0	2			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr11:66033395G>A	ENST00000417856.1	+	13	1757	c.1514G>A	c.(1513-1515)cGc>cAc	p.R505H	KLC2_ENST00000421552.1_Missense_Mutation_p.R428H|KLC2_ENST00000394067.2_Missense_Mutation_p.R505H|RP11-867G23.2_ENST00000533287.1_RNA|RAB1B_ENST00000311481.6_5'Flank|KLC2_ENST00000394078.1_Intron|KLC2_ENST00000394065.2_Missense_Mutation_p.R366H|KLC2_ENST00000316924.5_Missense_Mutation_p.R505H|RP11-867G23.1_ENST00000530805.1_RNA|KLC2_ENST00000394066.2_Missense_Mutation_p.R428H|RAB1B_ENST00000527397.1_5'Flank	NM_001134775.1	NP_001128247.1	Q9H0B6	KLC2_HUMAN	kinesin light chain 2	505					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|axon cargo transport (GO:0008088)|blood coagulation (GO:0007596)|microtubule-based movement (GO:0007018)	ciliary rootlet (GO:0035253)|cytosol (GO:0005829)|kinesin complex (GO:0005871)|kinesin I complex (GO:0016938)|membrane (GO:0016020)|microtubule (GO:0005874)|neuron projection (GO:0043005)|protein complex (GO:0043234)	kinesin binding (GO:0019894)|microtubule motor activity (GO:0003777)			breast(2)|endometrium(1)|kidney(1)|large_intestine(7)|lung(3)|prostate(5)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	24						CGGGGAGACCGCCGCAGCAGC	0.662																																																0													23	29	27					11																	66033395		2182	4278	6460	SO:0001583	missense	64837			AK022449	CCDS8130.1, CCDS44653.1	11q13.1	2013-01-10			ENSG00000174996	ENSG00000174996		"Tetratricopeptide (TTC) repeat domain containing"	20716	protein-coding gene	gene with protein product		611729				9624122	Standard	NM_022822		Approved	FLJ12387	uc001ohb.2	Q9H0B6	OTTHUMG00000133757	ENST00000417856.1:c.1514G>A	11.37:g.66033395G>A	ENSP00000399403:p.Arg505His	Somatic		WXS	Illumina HiSeq	Phase_I	A8MXL7|B2RDY4|Q9H9C8|Q9HA20	Missense_Mutation	SNP	ENST00000417856.1	37	CCDS8130.1	.	.	.	.	.	.	.	.	.	.	G	12.37	1.918644	0.33908	.	.	ENSG00000174996	ENST00000417856;ENST00000394067;ENST00000316924;ENST00000421552;ENST00000394066;ENST00000394065	T;T;T;T;T;D	0.84730	-1.23;-1.23;-1.23;-1.23;-1.23;-1.89	3.71	2.8	0.32819	.	0.000000	0.64402	D	0.000004	T	0.78666	0.4319	M	0.62723	1.935	0.37978	D	0.9335	B;B;B	0.25105	0.0;0.013;0.118	B;B;B	0.20955	0.001;0.001;0.032	T	0.69946	-0.5007	10	0.16420	T	0.52	-7.9387	7.7476	0.28877	0.2114:0.0:0.7886:0.0	.	366;428;505	A8MZ87;A8MXL7;Q9H0B6	.;.;KLC2_HUMAN	H	505;505;505;428;428;366	ENSP00000399403:R505H;ENSP00000377631:R505H;ENSP00000314837:R505H;ENSP00000408484:R428H;ENSP00000377630:R428H;ENSP00000377629:R366H	ENSP00000314837:R505H	R	+	2	0	KLC2	65789971	1.000000	0.71417	1.000000	0.80357	0.643000	0.38383	2.303000	0.43646	0.765000	0.33221	-0.424000	0.05967	CGC		0.662	KLC2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258200.1	NM_022822		A	66033395	G	A	66033395	3	1	677	1	0	0	0	0	1	0	0	0	8341	1087	38	1	1560	1	KLC2	11	66033395	Missense_Mutation	SNP	G	TCGA-KO-8406-01A-11D-2310-10	1706729	66033395	68973121	43	43695										
CDK2AP2	10263	broad.mit.edu	37	chr11	67274865	67274865	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ggcgctccatggcgctcttgCtgccagcataggtaggccgg	15	13	1	0			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr11:67274865C>T	ENST00000301488.3	-	3	832	c.284G>A	c.(283-285)aGc>aAc	p.S95N	PITPNM1_ENST00000436757.2_5'Flank|PITPNM1_ENST00000356404.3_5'Flank|CDK2AP2_ENST00000531506.1_Missense_Mutation_p.S95N	NM_005851.3	NP_005842.1	O75956	CDKA2_HUMAN	cyclin-dependent kinase 2 associated protein 2	95										lung(1)	1						GGCGCTCTTGCTGCCAGCATA	0.597																																																0													63	64	64					11																	67274865		2200	4295	6495	SO:0001583	missense	10263			AF089814	CCDS8169.1	11q13	2010-05-17	2008-11-04		ENSG00000167797	ENSG00000167797			30833	protein-coding gene	gene with protein product	"tumor suppressor deleted in oral cancer related 1"		"CDK2-associated protein 2"			10082655	Standard	NM_005851		Approved	DOC-1R, p14	uc001oma.4	O75956		ENST00000301488.3:c.284G>A	11.37:g.67274865C>T	ENSP00000301488:p.Ser95Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000301488.3	37	CCDS8169.1	.	.	.	.	.	.	.	.	.	.	C	28.8	4.950460	0.92660	.	.	ENSG00000167797	ENST00000301488;ENST00000531506	.	.	.	4.92	4.92	0.64577	.	0.293454	0.46145	D	0.000320	T	0.68933	0.3055	L	0.43923	1.385	0.80722	D	1	D;D	0.76494	0.999;0.991	D;D	0.83275	0.996;0.982	T	0.69091	-0.5237	9	0.49607	T	0.09	-22.2115	15.6517	0.77099	0.0:1.0:0.0:0.0	.	95;95	Q6IAV4;O75956	.;CDKA2_HUMAN	N	95	.	ENSP00000301488:S95N	S	-	2	0	CDK2AP2	67031441	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.239000	0.78182	2.553000	0.86117	0.561000	0.74099	AGC		0.597	CDK2AP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395535.1	NM_005851		T	67274865	C	T	67274865	3	4	677	1	0	0	0	0	1	0	0	0	3141	797	28	2	104	2	CDK2AP2	11	67274865	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10	1241470	67274865	67731651	44	43696										
FZD4	8322	mdanderson.org	37	chr11	86662232	86662232	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ggcttcacccaaccatttccTctcttctctctctttacctt	2	17	4	0			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr11:86662232T>C	ENST00000531380.1	-	2	1871	c.1566A>G	c.(1564-1566)agA>agG	p.R522R	PRSS23_ENST00000533902.2_Intron|PRSS23_ENST00000531521.1_Intron	NM_012193.3	NP_036325.2	Q9ULV1	FZD4_HUMAN	frizzled class receptor 4	522					brain development (GO:0007420)|canonical Wnt signaling pathway (GO:0060070)|cellular response to retinoic acid (GO:0071300)|cerebellum vasculature morphogenesis (GO:0061301)|extracellular matrix-cell signaling (GO:0035426)|locomotion involved in locomotory behavior (GO:0031987)|negative regulation of cell-substrate adhesion (GO:0010812)|neuron differentiation (GO:0030182)|positive regulation of JUN kinase activity (GO:0043507)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription, DNA-templated (GO:0045893)|progesterone secretion (GO:0042701)|regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030947)|retina vasculature morphogenesis in camera-type eye (GO:0061299)|retinal blood vessel morphogenesis (GO:0061304)|sensory perception of sound (GO:0007605)|substrate adhesion-dependent cell spreading (GO:0034446)|vasculogenesis (GO:0001570)|Wnt signaling pathway (GO:0016055)|Wnt signaling pathway, calcium modulating pathway (GO:0007223)	cell projection (GO:0042995)|cell surface (GO:0009986)|cell-cell junction (GO:0005911)|clathrin-coated endocytic vesicle membrane (GO:0030669)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cytokine binding (GO:0019955)|G-protein coupled receptor activity (GO:0004930)|PDZ domain binding (GO:0030165)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|ubiquitin protein ligase binding (GO:0031625)|Wnt-activated receptor activity (GO:0042813)|Wnt-protein binding (GO:0017147)			breast(1)|kidney(1)|large_intestine(3)|lung(9)|prostate(6)|skin(1)	21		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				AACCATTTCCTCTCTTCTCTC	0.468																																																0													138	146	144					11																	86662232		2201	4299	6500	SO:0001819	synonymous_variant	8322			AB032417	CCDS8279.1	11q14-q21	2014-01-29	2014-01-29			ENSG00000174804		"GPCR / Class F : Frizzled receptors", "CD molecules"	4042	protein-coding gene	gene with protein product		604579	"frizzled (Drosophila) homolog 4", "exudative vitreoretinopathy 1", "frizzled homolog 4 (Drosophila)", "frizzled 4, seven transmembrane spanning receptor", "frizzled family receptor 4"	EVR1		10544037, 15024691	Standard	NM_012193		Approved	CD344	uc001pce.3	Q9ULV1		ENST00000531380.1:c.1566A>G	11.37:g.86662232T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K9Q3|Q14C97|Q6S9E4	Silent	SNP	ENST00000531380.1	37	CCDS8279.1																																																																																				0.468	FZD4-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393818.2	NM_012193		C	86662232	T	C	86662232	2	2	677	1	0	0	0	0	0	0	0	1	6139	1548	54	3		3	FZD4	11	86662232	Silent	SNP	T	TCGA-KO-8406-01A-11D-2310-10	19387367	86662232	48344284	45	43697										
SORL1	6653	ucsc.edu	37	chr11	121323057	121323057	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	gaacatggcgacacggagcaGcaggagggagtcgcgactcc	16	11	0	0			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr11:121323057G>T	ENST00000260197.7	+	1	146	c.17G>T	c.(16-18)aGc>aTc	p.S6I	RP11-730K11.1_ENST00000501964.1_RNA|RP11-730K11.1_ENST00000529160.1_RNA	NM_003105.5	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor, L(DLR class) A repeats containing	6					cell death (GO:0008219)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|cholesterol metabolic process (GO:0008203)|lipid transport (GO:0006869)|negative regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process (GO:1902960)|negative regulation of beta-amyloid formation (GO:1902430)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of metalloendopeptidase activity involved in amyloid precursor protein catabolic process (GO:1902963)|negative regulation of neurofibrillary tangle assembly (GO:1902997)|negative regulation of neurogenesis (GO:0050768)|negative regulation of neuron death (GO:1901215)|negative regulation of protein binding (GO:0032091)|negative regulation of protein oligomerization (GO:0032460)|negative regulation of tau-protein kinase activity (GO:1902948)|positive regulation of choline O-acetyltransferase activity (GO:1902771)|positive regulation of early endosome to recycling endosome transport (GO:1902955)|positive regulation of endocytic recycling (GO:2001137)|positive regulation of ER to Golgi vesicle-mediated transport (GO:1902953)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of protein exit from endoplasmic reticulum (GO:0070863)|positive regulation of protein localization to early endosome (GO:1902966)|post-Golgi vesicle-mediated transport (GO:0006892)|protein maturation (GO:0051604)|protein retention in Golgi apparatus (GO:0045053)|protein targeting (GO:0006605)|protein targeting to Golgi (GO:0000042)|protein targeting to lysosome (GO:0006622)|receptor-mediated endocytosis (GO:0006898)|regulation of smooth muscle cell migration (GO:0014910)|signal transduction (GO:0007165)	early endosome (GO:0005769)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|Golgi cisterna (GO:0031985)|integral component of plasma membrane (GO:0005887)|low-density lipoprotein particle (GO:0034362)|membrane (GO:0016020)|multivesicular body (GO:0005771)|neuronal cell body (GO:0043025)|nuclear envelope lumen (GO:0005641)|recycling endosome (GO:0055037)|trans-Golgi network (GO:0005802)	ADP-ribosylation factor binding (GO:0030306)|beta-amyloid binding (GO:0001540)|low-density lipoprotein particle binding (GO:0030169)|transmembrane signaling receptor activity (GO:0004888)			NS(1)|breast(5)|central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(14)|liver(2)|lung(34)|ovary(5)|pancreas(1)|skin(12)|stomach(2)|upper_aerodigestive_tract(2)	91		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)		ACACGGAGCAGCAGGAGGGAG	0.697																																																0													12	11	11					11																	121323057		2182	4277	6459	SO:0001583	missense	6653			Y08110	CCDS8436.1	11q23.2-q24.4	2014-06-05	2011-01-25		ENSG00000137642	ENSG00000137642		"Fibronectin type III domain containing"	11185	protein-coding gene	gene with protein product	"LDLR relative with 11 ligand-binding repeats"	602005	"chromosome 11 open reading frame 32", "sortilin-related receptor, L(DLR class) A repeats-containing"	C11orf32		9157966, 8940146	Standard	NM_003105		Approved	gp250, LR11, LRP9, SorLA, SorLA-1	uc001pxx.3	Q92673	OTTHUMG00000166057	ENST00000260197.7:c.17G>T	11.37:g.121323057G>T	ENSP00000260197:p.Ser6Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNX7|Q92856	Missense_Mutation	SNP	ENST00000260197.7	37	CCDS8436.1	.	.	.	.	.	.	.	.	.	.	G	21.0	4.086607	0.76642	.	.	ENSG00000137642	ENST00000260197	D	0.91686	-2.89	3.8	3.8	0.43715	.	0.313533	0.25148	N	0.032777	D	0.82903	0.5138	N	0.08118	0	0.80722	D	1	P	0.38565	0.637	B	0.38655	0.278	D	0.84642	0.0696	10	0.56958	D	0.05	.	11.0822	0.48066	0.0:0.0:1.0:0.0	.	6	Q92673	SORL_HUMAN	I	6	ENSP00000260197:S6I	ENSP00000260197:S6I	S	+	2	0	SORL1	120828267	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	3.867000	0.56047	1.985000	0.57927	0.442000	0.29010	AGC		0.697	SORL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387626.2	NM_003105		T	121323057	G	T	121323057	3	4	677	1	0	0	0	0	1	0	0	0	14947	971	34	4	19	4	SORL1	11	121323057	Missense_Mutation	SNP	G	TCGA-KO-8406-01A-11D-2310-10	34660825	121323057	13683459	46	43698										
PZP	5858	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr12	9315213	9315213	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ctgaggcacaggtcatagaaCtgaaagtcttttcttgctca	9	9	4	3			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr12:9315213C>A	ENST00000261336.2	-	22	2796	c.2768G>T	c.(2767-2769)aGt>aTt	p.S923I	PZP_ENST00000381997.2_Missense_Mutation_p.S709I|PZP_ENST00000539983.1_5'UTR	NM_002864.2	NP_002855.2	P20742	PZP_HUMAN	pregnancy-zone protein	923					female pregnancy (GO:0007565)|negative regulation of endopeptidase activity (GO:0010951)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	endopeptidase inhibitor activity (GO:0004866)|serine-type endopeptidase inhibitor activity (GO:0004867)			breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(21)|lung(46)|ovary(3)|prostate(2)|skin(6)|stomach(3)|upper_aerodigestive_tract(5)	102						GGTCATAGAACTGAAAGTCTT	0.393																																					Melanoma(125;1402 1695 4685 34487 38571)											0													151	134	140					12																	9315213		2203	4300	6503	SO:0001583	missense	5858			X54380, M24416, X51541	CCDS8600.1	12p13-p12.2	2008-02-01			ENSG00000126838	ENSG00000126838			9750	protein-coding gene	gene with protein product		176420					Standard	NM_002864		Approved	CPAMD6	uc001qvl.3	P20742	OTTHUMG00000154915	ENST00000261336.2:c.2768G>T	12.37:g.9315213C>A	ENSP00000261336:p.Ser923Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A6ND27|Q15273|Q2NKL2|Q7M4N7	Missense_Mutation	SNP	ENST00000261336.2	37	CCDS8600.1	.	.	.	.	.	.	.	.	.	.	C	14.83	2.653628	0.47362	.	.	ENSG00000126838	ENST00000261336;ENST00000381997	T;T	0.38240	2.2;1.15	2.83	1.66	0.24008	.	0.337611	0.23351	U	0.049128	T	0.33556	0.0867	M	0.76838	2.35	0.09310	N	0.999999	B;P	0.37158	0.001;0.585	B;B	0.34652	0.0;0.187	T	0.33650	-0.9860	10	0.87932	D	0	.	4.962	0.14070	0.0:0.467:0.0:0.533	.	709;923	P20742-2;P20742	.;PZP_HUMAN	I	923;709	ENSP00000261336:S923I;ENSP00000371427:S709I	ENSP00000261336:S923I	S	-	2	0	PZP	9206480	0.505000	0.26131	0.129000	0.21949	0.530000	0.34684	-0.084000	0.11268	0.501000	0.28013	-0.483000	0.04790	AGT		0.393	PZP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337624.1	NM_002864		A	9315213	C	A	9315213	3	1	677	1	0	0	0	0	1	0	0	0	12882	565	20	4	1740	4	PZP	12	9315213	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10		9315213	124536682	47	43699										
TAS2R31	259290	mdanderson.org	37	chr12	11183793	11183793	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ggagaccgccagagcagtgaGaatctggtcagcaaaagaga	14	8	2	4			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr12:11183793G>C	ENST00000390675.2	-	1	213	c.142C>G	c.(142-144)Ctc>Gtc	p.L48V	PRR4_ENST00000536668.1_Intron|TAS2R14_ENST00000381852.4_Intron	NM_176885.2	NP_795366.2	P59538	T2R31_HUMAN	taste receptor, type 2, member 31	48					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			kidney(1)|lung(6)	7						AGAGCAGTGAGAATCTGGTCA	0.378																																																0													73	77	76					12																	11183793		1984	4234	6218	SO:0001583	missense	259290			AX097748, AF494228	CCDS53747.1	12p13.2	2012-08-22				ENSG00000256436		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19113	protein-coding gene	gene with protein product		612669	"taste receptor, type 2, member 44"	TAS2R44			Standard	NM_176885		Approved	T2R31, T2R53	uc001qzo.1	P59538		ENST00000390675.2:c.142C>G	12.37:g.11183793G>C	ENSP00000375093:p.Leu48Val	Somatic		WXS	Illumina HiSeq	Phase_I	P59547|Q17R84|Q645X5	Missense_Mutation	SNP	ENST00000390675.2	37	CCDS53747.1	.	.	.	.	.	.	.	.	.	.	G	10.68	1.416943	0.25552	.	.	ENSG00000256436	ENST00000390675	T	0.01484	4.84	2.45	1.45	0.22620	.	.	.	.	.	T	0.07818	0.0196	M	0.94142	3.5	0.09310	N	1	P	0.41450	0.75	P	0.47827	0.558	T	0.05716	-1.0868	9	0.56958	D	0.05	.	6.1115	0.20104	0.0:0.0:0.6975:0.3025	.	48	P59538	T2R31_HUMAN	V	48	ENSP00000375093:L48V	ENSP00000375093:L48V	L	-	1	0	TAS2R31	11075060	0.077000	0.21312	0.006000	0.13384	0.092000	0.18411	0.787000	0.26858	0.299000	0.22661	0.194000	0.17425	CTC		0.378	TAS2R31-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400233.1	NM_176885		C	11183793	G	C	11183793	3	2	677	1	0	0	0	0	1	0	0	0	15586	942	33	4	791	4	TAS2R31	12	11183793	Missense_Mutation	SNP	G	TCGA-KO-8406-01A-11D-2310-10	1868580	11183793	122668102	48	43700			3	120		2	2	17	N	G_A	3.927986e-05
TAS2R31	259290	mdanderson.org	37	chr12	11183809	11183809	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	gtgagaatctggtcagcaaaAgagatcttttgtctcttgac	10	7	4	3			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr12:11183809A>G	ENST00000390675.2	-	1	197	c.126T>C	c.(124-126)tcT>tcC	p.S42S	PRR4_ENST00000536668.1_Intron|TAS2R14_ENST00000381852.4_Intron	NM_176885.2	NP_795366.2	P59538	T2R31_HUMAN	taste receptor, type 2, member 31	42					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			kidney(1)|lung(6)	7						GGTCAGCAAAAGAGATCTTTT	0.388																																																0													68	71	70					12																	11183809		1988	4220	6208	SO:0001819	synonymous_variant	259290			AX097748, AF494228	CCDS53747.1	12p13.2	2012-08-22				ENSG00000256436		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19113	protein-coding gene	gene with protein product		612669	"taste receptor, type 2, member 44"	TAS2R44			Standard	NM_176885		Approved	T2R31, T2R53	uc001qzo.1	P59538		ENST00000390675.2:c.126T>C	12.37:g.11183809A>G		Somatic		WXS	Illumina HiSeq	Phase_I	P59547|Q17R84|Q645X5	Silent	SNP	ENST00000390675.2	37	CCDS53747.1																																																																																				0.388	TAS2R31-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400233.1	NM_176885		G	11183809	A	G	11183809	2	3	677	1	0	0	0	0	0	0	0	1	15586	59	3	3		3	TAS2R31	12	11183809	Silent	SNP	A	TCGA-KO-8406-01A-11D-2310-10	16	11183809	122668086	49	43701			3	120		2	2	17	N	G_A	3.927986e-05
GNS	2799	broad.mit.edu	37	chr12	65152902	65152902	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	cgtcctggtcgtccgtgaggAgcagcaccacgttgggcctc	14	14	0	1			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr12:65152902A>G	ENST00000258145.3	-	1	325	c.155T>C	c.(154-156)cTc>cCc	p.L52P	snoU13_ENST00000458789.1_RNA|GNS_ENST00000543646.1_Missense_Mutation_p.L52P|GNS_ENST00000542058.1_Missense_Mutation_p.L52P|RP11-629N8.3_ENST00000434563.3_RNA	NM_002076.3	NP_002067.1	P15586	GNS_HUMAN	glucosamine (N-acetyl)-6-sulfatase	52					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate catabolic process (GO:0042340)|keratan sulfate metabolic process (GO:0042339)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)	metal ion binding (GO:0046872)|N-acetylglucosamine-6-sulfatase activity (GO:0008449)|sulfuric ester hydrolase activity (GO:0008484)			central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(5)|liver(1)|lung(4)	15	Lung NSC(1;7.25e-14)|all_lung(1;1.25e-12)		LUAD - Lung adenocarcinoma(6;0.115)	GBM - Glioblastoma multiforme(28;0.0435)		GTCCGTGAGGAGCAGCACCAC	0.657																																																0													29	29	29					12																	65152902		2191	4282	6473	SO:0001583	missense	2799				CCDS8970.1	12q14	2010-05-04	2008-08-01		ENSG00000135677	ENSG00000135677	3.1.6.14		4422	protein-coding gene	gene with protein product	"Sanfilippo disease IIID", "N-acetylglucosamine-6-sulfatase"	607664					Standard	NM_002076		Approved		uc001ssg.4	P15586	OTTHUMG00000168819	ENST00000258145.3:c.155T>C	12.37:g.65152902A>G	ENSP00000258145:p.Leu52Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYH8|Q53F05	Missense_Mutation	SNP	ENST00000258145.3	37	CCDS8970.1	.	.	.	.	.	.	.	.	.	.	A	20.4	3.980417	0.74474	.	.	ENSG00000135677	ENST00000258145;ENST00000543646;ENST00000542058	D;D;D	0.97041	-4.22;-4.22;-4.22	4.48	4.48	0.54585	Alkaline phosphatase-like, alpha/beta/alpha (1);Sulfatase (1);Alkaline-phosphatase-like, core domain (1);	0.131881	0.48286	D	0.000184	D	0.97216	0.9090	M	0.64997	1.995	0.54753	D	0.999982	D;D;P	0.55385	0.971;0.971;0.941	P;P;P	0.59761	0.646;0.807;0.863	D	0.96596	0.9441	9	.	.	.	-7.1383	11.5388	0.50655	1.0:0.0:0.0:0.0	.	52;52;52	B4DYH8;F6S8M0;P15586	.;.;GNS_HUMAN	P	52	ENSP00000258145:L52P;ENSP00000438497:L52P;ENSP00000444819:L52P	.	L	-	2	0	GNS	63439169	0.606000	0.26949	0.907000	0.35723	0.877000	0.50540	2.943000	0.49026	2.022000	0.59522	0.397000	0.26171	CTC		0.657	GNS-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000401195.2			G	65152902	A	G	65152902	3	3	677	1	0	0	0	0	1	0	0	0	6557	304	11	3	1559	3	GNS	12	65152902	Missense_Mutation	SNP	A	TCGA-KO-8406-01A-11D-2310-10	53969093	65152902	68698993	50	43702										
DCN	1634	broad.mit.edu	37	chr12	91550949	91550949	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tcaattcctgagctcttcagCggattggtgcccagttctac	9	12	4	1	rs147765043		TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr12:91550949C>T	ENST00000052754.5	-	5	1056	c.555G>A	c.(553-555)ccG>ccA	p.P185P	DCN_ENST00000303320.3_Intron|DCN_ENST00000552962.1_Silent_p.P185P|DCN_ENST00000425043.1_Intron|DCN_ENST00000441303.2_Intron|DCN_ENST00000547568.2_Intron|DCN_ENST00000228329.5_Silent_p.P76P|DCN_ENST00000393155.1_Silent_p.P185P|DCN_ENST00000456569.2_Intron|DCN_ENST00000420120.2_Silent_p.P76P	NM_001920.3	NP_001911.1	P07585	PGS2_HUMAN	decorin	185					aging (GO:0007568)|carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glycosaminoglycan metabolic process (GO:0030203)|kidney development (GO:0001822)|organ morphogenesis (GO:0009887)|peptide cross-linking via chondroitin 4-sulfate glycosaminoglycan (GO:0019800)|placenta development (GO:0001890)|response to lipopolysaccharide (GO:0032496)|response to mechanical stimulus (GO:0009612)|skeletal muscle tissue development (GO:0007519)|small molecule metabolic process (GO:0044281)|wound healing (GO:0042060)	collagen type VI trimer (GO:0005589)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi lumen (GO:0005796)|lysosomal lumen (GO:0043202)|proteinaceous extracellular matrix (GO:0005578)	extracellular matrix binding (GO:0050840)|glycosaminoglycan binding (GO:0005539)|poly(A) RNA binding (GO:0044822)			central_nervous_system(2)|cervix(1)|kidney(2)|large_intestine(4)|liver(1)|lung(8)|ovary(1)|skin(1)	20						AGCTCTTCAGCGGATTGGTGC	0.428																																																0													119	115	116					12																	91550949		2203	4300	6503	SO:0001819	synonymous_variant	1634			AF138300	CCDS9039.1, CCDS9040.1, CCDS9041.1, CCDS9042.1, CCDS44951.1	12q21.33	2014-04-16			ENSG00000011465	ENSG00000011465		"Proteoglycans / Extracellular Matrix : Small leucine-rich repeats"	2705	protein-coding gene	gene with protein product	"decorin proteoglycan"	125255				8432526	Standard	NM_133507		Approved	DSPG2, SLRR1B	uc001tbt.3	P07585	OTTHUMG00000169998	ENST00000052754.5:c.555G>A	12.37:g.91550949C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9P0Z0|Q9P0Z1|Q9Y5N8|Q9Y5N9	Silent	SNP	ENST00000052754.5	37	CCDS9039.1																																																																																				0.428	DCN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406799.3	NM_133507		T	91550949	C	T	91550949	2	4	677	1	0	0	0	0	0	0	0	1	4299	755	27	1		1	DCN	12	91550949	Silent	SNP	C	TCGA-KO-8406-01A-11D-2310-10	26398047	91550949	42300946	51	43703										
TRAFD1	10906	broad.mit.edu	37	chr12	112578793	112578794	+	Frame_Shift_Del	DEL	GA	GA	-													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	actcaccctgaagtttgtggGagagagggggaggaaaagag							TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr12:112578793_112578794delGA	ENST00000257604.5	+	5	1025_1026	c.408_409delGA	c.(406-411)gggagafs	p.R137fs	TRAFD1_ENST00000412615.2_Frame_Shift_Del_p.R137fs	NM_001143906.1	NP_001137378.1	O14545	TRAD1_HUMAN	TRAF-type zinc finger domain containing 1	137					negative regulation of innate immune response (GO:0045824)|response to cytokine (GO:0034097)		metal ion binding (GO:0046872)			kidney(5)|large_intestine(3)|lung(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	17						AAGTTTGTGGGAGAGAGGGGGA	0.48																																																0																																										SO:0001589	frameshift_variant	10906			AB007447	CCDS9160.1	12q24.13	2013-01-25			ENSG00000135148	ENSG00000135148			24808	protein-coding gene	gene with protein product		613197				12477932	Standard	NM_006700		Approved	FLN29	uc001ttp.3	O14545	OTTHUMG00000169640	ENST00000257604.5:c.408_409delGA	12.37:g.112578797_112578798delGA	ENSP00000257604:p.Arg137fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5L6|B4DI89	Frame_Shift_Del	DEL	ENST00000257604.5	37	CCDS9160.1																																																																																				0.48	TRAFD1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405214.1	NM_006700		-	112578794	GA	-	112578793	7	5	677	1	0	1	0	1	0	0	0	0	16459	1161	41	0	422	0	TRAFD1	12	112578793	Frame_Shift_Del	DEL	GA	TCGA-KO-8406-01A-11D-2310-10	21027844	112578793	21273102	52	43704										
RNFT2	84900	mdanderson.org	37	chr12	117187907	117187907	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	caccgccagccccaccaccaTttccaccatggcggccaccg	7	22	0	0	rs111256849	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr12:117187907T>C	ENST00000257575.4	+	4	578	c.345T>C	c.(343-345)caT>caC	p.H115H	RNFT2_ENST00000407967.3_Silent_p.H115H|RNFT2_ENST00000392549.2_Silent_p.H115H|RNFT2_ENST00000319176.7_Silent_p.H115H			Q96EX2	RNFT2_HUMAN	ring finger protein, transmembrane 2	115	His-rich.					integral component of membrane (GO:0016021)	zinc ion binding (GO:0008270)			endometrium(1)|large_intestine(3)|lung(1)|urinary_tract(1)	6	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.034)		CCCACCACCATTTCCACCATG	0.746													C|||	1284	0.25639	0.4826	0.1326	5008	,	,		12011	0.1786		0.166	False		,,,				2504	0.2117															0								C	,	1295,2539		234,827,856	3	4	4		345,345	3.2	1	12	dbSNP_132	4	888,6786		67,754,3016	no	coding-synonymous,coding-synonymous	RNFT2	NM_001109903.1,NM_032814.3	,	301,1581,3872	CC,CT,TT		11.5715,33.7767,18.9694	,	115/445,115/421	117187907	2183,9325	1917	3837	5754	SO:0001819	synonymous_variant	84900			AK027533	CCDS9180.2, CCDS44987.1	12q24.22	2013-01-09	2008-02-26	2008-02-26	ENSG00000135119	ENSG00000135119		"RING-type (C3HC4) zinc fingers"	25905	protein-coding gene	gene with protein product			"transmembrane protein 118"	TMEM118		12477932	Standard	NM_032814		Approved	FLJ14627	uc009zwn.3	Q96EX2	OTTHUMG00000150882	ENST00000257575.4:c.345T>C	12.37:g.117187907T>C		Somatic		WXS	Illumina HiSeq	Phase_I	E9PAM7|Q96SU5	Silent	SNP	ENST00000257575.4	37	CCDS44987.1																																																																																				0.746	RNFT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320417.1	NM_032814		C	117187907	T	C	117187907	2	2	677	1	0	0	0	0	0	0	0	1	13515	1490	52	3		3	RNFT2	12	117187907	Silent	SNP	T	TCGA-KO-8406-01A-11D-2310-10	4609114	117187907	16663988	53	43705										
HNF1A	6927	broad.mit.edu	37	chr12	121437368	121437369	+	Frame_Shift_Ins	INS	-	-	C													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	accaccctccacgtccccagINSccaggaccctgccagcatcc							TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr12:121437368_121437369insC	ENST00000257555.6	+	9	1932_1933	c.1706_1707insC	c.(1705-1710)agccagfs	p.Q570fs	HNF1A_ENST00000541395.1_Frame_Shift_Ins_p.Q601fs|RP11-216P16.2_ENST00000606238.1_RNA|HNF1A_ENST00000544413.1_Frame_Shift_Ins_p.Q577fs			P20823	HNF1A_HUMAN	HNF1 homeobox A	570					glucose homeostasis (GO:0042593)|glucose import (GO:0046323)|insulin secretion (GO:0030073)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription initiation from RNA polymerase II promoter (GO:0060261)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|renal glucose absorption (GO:0035623)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|protein complex (GO:0043234)	DNA binding (GO:0003677)|protein dimerization activity (GO:0046983)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(3)|central_nervous_system(2)|cervix(1)|endometrium(8)|large_intestine(19)|liver(175)|lung(9)|ovary(2)|prostate(1)|urinary_tract(1)	221	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CACGTCCCCAGCCAGGACCCTG	0.688									Hepatic Adenoma, Familial Clustering of																																							0																																										SO:0001589	frameshift_variant	6927	Familial Cancer Database	incl. Maturity-Onset Diabetes of the Young type 3, MODY3	M57732	CCDS9209.1	12q24.31	2014-09-17	2007-08-24	2007-08-24	ENSG00000135100	ENSG00000135100		"Homeoboxes / HNF class"	11621	protein-coding gene	gene with protein product		142410	"transcription factor 1, hepatic; LF-B1, hepatic nuclear factor (HNF1), albumin proximal factor"	MODY3, TCF1		1535333, 7795649	Standard	NM_000545		Approved	HNF1, LFB1	uc001tzg.3	P20823	OTTHUMG00000151015	ENST00000257555.6:c.1708dupC	12.37:g.121437370_121437370dupC	ENSP00000257555:p.Gln570fs	Somatic		WXS	Illumina HiSeq	Phase_I	A5Z2R8|E0YMJ5|E0YMK0|E0YMK1|E2I9R4|E2I9R5|F5H5U3|Q2M3H2|Q99861	Frame_Shift_Ins	INS	ENST00000257555.6	37	CCDS9209.1																																																																																				0.688	HNF1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320957.5	NM_000545		C	121437369	-	C	121437368	7	5	677	1	0	1	1	0	0	0	0	0	7258	971	34	0	1740	0	HNF1A	12	121437368	Frame_Shift_Ins	INS	-	TCGA-KO-8406-01A-11D-2310-10	4249461	121437368	12414527	54	43706										
PSPC1	55269	mdanderson.org	37	chr13	20279800	20279800	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	aataatgtttatgatacattAccactgctccattatctggc	5	9	1	1	rs199978034		TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr13:20279800A>G	ENST00000338910.4	-	8	1546		c.e8+1			NM_001042414.2	NP_001035879.1	Q8WXF1	PSPC1_HUMAN	paraspeckle component 1						negative regulation of transcription, DNA-templated (GO:0045892)|regulation of circadian rhythm (GO:0042752)|rhythmic process (GO:0048511)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)|paraspeckles (GO:0042382)	core promoter binding (GO:0001047)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(1)|large_intestine(4)|lung(10)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	23		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		ATGATACATTACCACTGCTCC	0.403																																																0													18	20	19					13																	20279800		1778	4021	5799	SO:0001630	splice_region_variant	55269			AK001817	CCDS41870.1	13q11	2013-02-12			ENSG00000121390	ENSG00000121390		"RNA binding motif (RRM) containing"	20320	protein-coding gene	gene with protein product		612408				11790299	Standard	NM_001042414		Approved	PSP1, FLJ10955	uc021rgx.1	Q8WXF1	OTTHUMG00000016502	ENST00000338910.4:c.1386+1T>C	13.37:g.20279800A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JTQ3|Q8NCZ9|Q8WXE8|Q9NV36	Splice_Site	SNP	ENST00000338910.4	37	CCDS41870.1	.	.	.	.	.	.	.	.	.	.	A	19.67	3.870370	0.72065	.	.	ENSG00000121390	ENST00000338910;ENST00000422828	.	.	.	5.08	5.08	0.68730	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.1232	0.72460	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	PSPC1	19177800	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	8.069000	0.89491	2.044000	0.60594	0.402000	0.26972	.		0.403	PSPC1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044037.2		Intron	G	20279800	A	G	20279800	5	3	677	1	0	0	0	0	0	0	1	0	12726	405	14	3	191	3	PSPC1	13	20279800	Splice_Site	SNP	A	TCGA-KO-8406-01A-11D-2310-10		20279800	94890078	55	43707										
IPO5	3843	mdanderson.org	37	chr13	98670796	98670796	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tatgcatctttgatgatgtcAtagaacactgtagtccagcc	8	9	2	3			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr13:98670796A>T	ENST00000490680.1	+	23	2739	c.2674A>T	c.(2674-2676)Ata>Tta	p.I892L	IPO5_ENST00000261574.5_Missense_Mutation_p.I910L|IPO5_ENST00000539640.1_Missense_Mutation_p.I767L			O00410	IPO5_HUMAN	importin 5	892					cellular response to amino acid stimulus (GO:0071230)|negative regulation of catalytic activity (GO:0043086)|NLS-bearing protein import into nucleus (GO:0006607)|positive regulation of protein import into nucleus (GO:0042307)|ribosomal protein import into nucleus (GO:0006610)|viral process (GO:0016032)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nuclear membrane (GO:0031965)|nuclear pore (GO:0005643)|nucleus (GO:0005634)	GTPase inhibitor activity (GO:0005095)|poly(A) RNA binding (GO:0044822)|protein transporter activity (GO:0008565)|Ran GTPase binding (GO:0008536)			breast(2)|endometrium(2)|large_intestine(8)|lung(8)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	27						TGATGATGTCATAGAACACTG	0.403																																																0													156	145	149					13																	98670796		2203	4300	6503	SO:0001583	missense	3843			U72761	CCDS31999.1	13q32.2	2012-05-02	2008-04-15	2008-04-15	ENSG00000065150	ENSG00000065150		"Importins"	6402	protein-coding gene	gene with protein product		602008	"karyopherin (importin) beta 3", "RAN binding protein 5"	KPNB3, RANBP5		9114010, 9271386, 17005651	Standard	NM_002271		Approved	IMB3, MGC2068, Pse1	uc001vne.3	O00410	OTTHUMG00000017244	ENST00000490680.1:c.2674A>T	13.37:g.98670796A>T	ENSP00000418393:p.Ile892Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZA0|O15257|Q5T578|Q86XC7	Missense_Mutation	SNP	ENST00000490680.1	37		.	.	.	.	.	.	.	.	.	.	A	16.62	3.172782	0.57584	.	.	ENSG00000065150	ENST00000261574;ENST00000357602;ENST00000490680;ENST00000539640	T;T;T;T	0.68181	-0.31;-0.31;-0.31;-0.31	5.71	4.49	0.54785	.	0.138033	0.64402	D	0.000005	T	0.53206	0.1782	N	0.24115	0.695	0.44562	D	0.997528	B	0.17852	0.024	B	0.28916	0.096	T	0.45175	-0.9279	10	0.33940	T	0.23	-3.1146	10.5895	0.45302	0.8648:0.0:0.1352:0.0	.	910	O00410-3	.	L	910;892;892;767	ENSP00000261574:I910L;ENSP00000350219:I892L;ENSP00000418393:I892L;ENSP00000445126:I767L	ENSP00000261574:I910L	I	+	1	0	IPO5	97468797	1.000000	0.71417	0.992000	0.48379	0.995000	0.86356	1.739000	0.38217	0.954000	0.37851	0.528000	0.53228	ATA		0.403	IPO5-006	NOVEL	alternative_5_UTR|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000354655.1	NM_002271		T	98670796	A	T	98670796	3	4	677	1	0	0	0	0	1	0	0	0	7803	217	8	5	2822	5	IPO5	13	98670796	Missense_Mutation	SNP	A	TCGA-KO-8406-01A-11D-2310-10	78390996	98670796	16499082	56	43708										
C14orf4	64207	mdanderson.org	37	chr14	77493794	77493794	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tgctgctgctgctgctgctgTtgctgctgctgctgctgctg	14	12	0	0	rs377151545|rs28718623|rs71125518	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr14:77493794T>C	ENST00000238647.3	-	1	1240	c.342A>G	c.(340-342)caA>caG	p.Q114Q		NM_024496.3	NP_078772.1	Q9H1B7	I2BPL_HUMAN	interferon regulatory factor 2 binding protein-like	114	Poly-Gln.				development of secondary female sexual characteristics (GO:0046543)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	extracellular space (GO:0005615)|nucleus (GO:0005634)	metal ion binding (GO:0046872)			endometrium(2)|kidney(1)|lung(3)|ovary(1)|prostate(1)|skin(1)|urinary_tract(2)	11						gctgctgctgttgctgctgct	0.697													T|||	1146	0.228834	0.1649	0.1758	5008	,	,		5976	0.2659		0.2614	False		,,,				2504	0.2812															0								-		160,2330		6,148,1091	2	2	2		342	0.6	0	14	dbSNP_125	2	324,4012		7,310,1851	no	coding-synonymous	IRF2BPL	NM_024496.2		13,458,2942	CC,CT,TT		7.4723,6.4257,7.0905		114/797	77493794	484,6342	1245	2168	3413	SO:0001819	synonymous_variant	64207			AJ277365	CCDS9854.1	14q24.3	2011-02-23	2011-02-23	2011-02-23	ENSG00000119669	ENSG00000119669			14282	protein-coding gene	gene with protein product	"enhanced at puberty 1"	611720	"chromosome 14 open reading frame 4"	C14orf4		11095982, 17627301	Standard	NM_024496		Approved	EAP1, KIAA1865	uc001xsy.4	Q9H1B7		ENST00000238647.3:c.342A>G	14.37:g.77493794T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NDQ2|Q96JG2|Q9H3I7	Silent	SNP	ENST00000238647.3	37	CCDS9854.1																																																																																				0.697	IRF2BPL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414298.1	NM_024496		C	77493794	T	C	77493794	2	2	677	1	0	0	0	0	0	0	0	1	1775	1722	60	3		3	C14orf4	14	77493794	Silent	SNP	T	TCGA-KO-8406-01A-11D-2310-10		77493794	29855746	57	43709										
C14orf153	84334	mdanderson.org	37	chr14	104029449	104029449	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ggcgccgagcgcagggatacGgcgcccagcggggtaagcag	19	12	0	0	rs2274267	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr14:104029449G>A	ENST00000409074.2	+	1	151	c.150G>A	c.(148-150)acG>acA	p.T50T	BAG5_ENST00000337322.4_5'Flank|APOPT1_ENST00000247618.4_Silent_p.T37T|RP11-73M18.2_ENST00000472726.2_Silent_p.T50T|APOPT1_ENST00000556253.2_Silent_p.T37T|BAG5_ENST00000299204.4_5'Flank|RP11-894P9.2_ENST00000556332.1_RNA|BAG5_ENST00000445922.2_5'Flank	NM_032374.3	NP_115750.2	Q96IL0	APOP1_HUMAN	apoptogenic 1, mitochondrial	50					intrinsic apoptotic signaling pathway (GO:0097193)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of smooth muscle cell apoptotic process (GO:0034393)	mitochondrion (GO:0005739)											GCAGGGATACGGCGCCCAGCG	0.716													G|||	1108	0.221246	0.1074	0.3343	5008	,	,		12360	0.3512		0.2624	False		,,,				2504	0.1186															0								G		557,3355		49,459,1448	4	6	5		150	-0.9	0.2	14	dbSNP_100	5	2012,5966		304,1404,2281	no	coding-synonymous	APOPT1	NM_032374.3		353,1863,3729	AA,AG,GG		25.2194,14.2382,21.6064		50/207	104029449	2569,9321	1956	3989	5945	SO:0001819	synonymous_variant	84334			BC007412	CCDS9983.2	14q32.33	2012-06-28	2012-06-28	2011-09-07	ENSG00000256053	ENSG00000256053			20492	protein-coding gene	gene with protein product	"apoptogenic protein 1"		"chromosome 14 open reading frame 153", "apoptogenic 1"	C14orf153		16782708, 18977203	Standard	NM_032374		Approved	MGC2562, APOP-1		Q96IL0	OTTHUMG00000153929	ENST00000409074.2:c.150G>A	14.37:g.104029449G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q53G28	Silent	SNP	ENST00000409074.2	37	CCDS9983.2	553	0.2532051282051282	49	0.09959349593495935	118	0.3259668508287293	189	0.3304195804195804	197	0.2598944591029024	G	6.245	0.413378	0.11812	0.142382	0.252194	ENSG00000256053	ENST00000440963	.	.	.	3.37	-0.865	0.10662	.	.	.	.	.	T	0.00012	0.0000	.	.	.	0.53005	P	3.2999999999949736E-5	.	.	.	.	.	.	T	0.40213	-0.9575	4	0.09843	T	0.71	.	0.9102	0.01293	0.2249:0.1788:0.4131:0.1831	rs2274267;rs17095256;rs28362582	.	.	.	S	50	.	ENSP00000388067:G50S	G	+	1	0	C14orf153	103099202	0.296000	0.24398	0.214000	0.23707	0.083000	0.17756	-0.397000	0.07269	-0.499000	0.06623	-0.140000	0.14226	GGC		0.716	APOPT1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000333060.2	NM_032374		A	104029449	G	A	104029449	2	1	677	1	0	0	0	0	0	0	0	1	1755	1103	39	1		1	C14orf153	14	104029449	Silent	SNP	G	TCGA-KO-8406-01A-11D-2310-10	26535655	104029449	3320091	58	43710										
EPB42	2038	broad.mit.edu	37	chr15	43501531	43501531	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	catacacaggtcggcctcggCcggtgagccactgccgcagg	14	15	0	1			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr15:43501531C>A	ENST00000441366.2	-	6	998	c.773G>T	c.(772-774)gGc>gTc	p.G258V	EPB42_ENST00000563128.1_5'Flank|EPB42_ENST00000540029.1_Missense_Mutation_p.G180V|EPB42_ENST00000300215.3_Missense_Mutation_p.G288V	NM_000119.2|NM_001114134.1	NP_000110.2|NP_001107606.1	P16452	EPB42_HUMAN	erythrocyte membrane protein band 4.2	258					cell morphogenesis (GO:0000902)|erythrocyte maturation (GO:0043249)|hemoglobin metabolic process (GO:0020027)|iron ion homeostasis (GO:0055072)|peptide cross-linking (GO:0018149)|regulation of cell shape (GO:0008360)|spleen development (GO:0048536)	cortical cytoskeleton (GO:0030863)|cytoskeleton (GO:0005856)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|protein-glutamine gamma-glutamyltransferase activity (GO:0003810)|structural constituent of cytoskeleton (GO:0005200)			endometrium(3)|large_intestine(6)|lung(6)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	20		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.7e-07)		TCGGCCTCGGCCGGTGAGCCA	0.677																																																0													46	44	45					15																	43501531		2203	4299	6502	SO:0001583	missense	2038			M60298	CCDS10093.1, CCDS45249.1	15q15-q21	2013-05-02			ENSG00000166947	ENSG00000166947		"Transglutaminases"	3381	protein-coding gene	gene with protein product	"Erythrocyte surface protein band 4.2"	177070				1284644	Standard	NM_000119		Approved	PA, MGC116735, MGC116737	uc001zrb.4	P16452	OTTHUMG00000130701	ENST00000441366.2:c.773G>T	15.37:g.43501531C>A	ENSP00000396616:p.Gly258Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q4KKX0|Q4VB97	Missense_Mutation	SNP	ENST00000441366.2	37	CCDS45249.1	.	.	.	.	.	.	.	.	.	.	C	11.06	1.528930	0.27387	.	.	ENSG00000166947	ENST00000300215;ENST00000540029;ENST00000441366;ENST00000397027	T;T;T	0.52295	0.67;0.67;0.67	4.69	4.69	0.59074	Transglutaminase-like (1);	0.481828	0.23587	N	0.046600	T	0.62925	0.2468	M	0.78049	2.395	0.22511	N	0.999034	D;D;D;D	0.89917	1.0;0.998;0.997;0.998	D;D;P;D	0.77004	0.989;0.926;0.878;0.926	T	0.54840	-0.8233	10	0.17369	T	0.5	-22.3396	8.9578	0.35829	0.0:0.9008:0.0:0.0992	.	180;258;288;258	F5H563;B7Z4C3;P16452-2;P16452	.;.;.;EPB42_HUMAN	V	288;180;258;258	ENSP00000300215:G288V;ENSP00000444699:G180V;ENSP00000396616:G258V	ENSP00000300215:G288V	G	-	2	0	EPB42	41288823	0.000000	0.05858	0.896000	0.35187	0.071000	0.16799	0.094000	0.15107	2.568000	0.86640	0.655000	0.94253	GGC		0.677	EPB42-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000432219.1	NM_000119		A	43501531	C	A	43501531	3	1	677	1	0	0	0	0	1	0	0	0	5160	739	26	4	1334	4	EPB42	15	43501531	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10		43501531	59029861	59	43711										
C16orf54	283897	hgsc.bcm.edu	37	chr16	29755786	29755787	+	Frame_Shift_Ins	INS	-	-	G													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	cagctcaccaggcctgtggcINSggggggcctcccctcccagg					rs551608693		TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr16:29755786_29755787insG	ENST00000329410.3	-	2	581_582	c.486_487insC	c.(484-489)cccgccfs	p.A163fs	AC009133.17_ENST00000565600.1_RNA	NM_175900.3	NP_787096.2	Q6UWD8	CP054_HUMAN	chromosome 16 open reading frame 54	163						integral component of membrane (GO:0016021)				breast(1)|central_nervous_system(1)|lung(2)|prostate(1)|urinary_tract(1)	6						AGGCCTGTGGCGGGGGGCCTCC	0.718																																																0																																										SO:0001589	frameshift_variant	283897			AK093000	CCDS10652.1	16p11.2	2012-10-10		2005-08-09	ENSG00000185905	ENSG00000185905			26649	protein-coding gene	gene with protein product						12975309	Standard	NM_175900		Approved	FLJ35681	uc002dtp.2	Q6UWD8	OTTHUMG00000132116	ENST00000329410.3:c.487dupC	16.37:g.29755792_29755792dupG	ENSP00000327506:p.Ala163fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJR6|Q8NAB0	Frame_Shift_Ins	INS	ENST00000329410.3	37	CCDS10652.1																																																																																				0.718	C16orf54-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255158.1	NM_175900		G	29755787	-	G	29755786	7	5	677	1	0	1	1	0	0	0	0	0	1821	768	27	0	191	0	C16orf54	16	29755786	Frame_Shift_Ins	INS	-	TCGA-KO-8406-01A-11D-2310-10		29755786	60598967	60	43712										
CNGB1	1258	broad.mit.edu	37	chr16	57984389	57984389	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tgggcatcctcccagggcggTtcaacctcctctaggacaag	11	14	2	0			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr16:57984389T>C	ENST00000251102.8	-	13	990	c.930A>G	c.(928-930)gaA>gaG	p.E310E	CNGB1_ENST00000564448.1_Silent_p.E304E	NM_001297.4	NP_001288.3	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1	310					cation transport (GO:0006812)|cytosolic calcium ion homeostasis (GO:0051480)|detection of light stimulus involved in visual perception (GO:0050908)|phototransduction, visible light (GO:0007603)|potassium ion transmembrane transport (GO:0071805)|protein heterotetramerization (GO:0051290)|regulation of membrane potential (GO:0042391)|regulation of rhodopsin mediated signaling pathway (GO:0022400)|retina homeostasis (GO:0001895)|rhodopsin mediated signaling pathway (GO:0016056)|sensory perception of smell (GO:0007608)|transport (GO:0006810)|visual perception (GO:0007601)	integral component of plasma membrane (GO:0005887)|intracellular cyclic nucleotide activated cation channel complex (GO:0017071)|plasma membrane (GO:0005886)|terminal bouton (GO:0043195)|transmembrane transporter complex (GO:1902495)	cAMP binding (GO:0030552)|cGMP binding (GO:0030553)|intracellular cAMP activated cation channel activity (GO:0005222)|intracellular cGMP activated cation channel activity (GO:0005223)|ligand-gated ion channel activity (GO:0015276)|voltage-gated potassium channel activity (GO:0005249)			breast(7)|cervix(2)|endometrium(4)|kidney(2)|large_intestine(11)|liver(1)|lung(12)|ovary(1)|pancreas(1)|prostate(2)|skin(5)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	54						CCCAGGGCGGTTCAACCTCCT	0.552																																					Colon(156;1293 1853 16336 28962 38659)											0													92	94	94					16																	57984389		2015	4176	6191	SO:0001819	synonymous_variant	1258			AF042498	CCDS42169.1, CCDS45495.1, CCDS67042.1	16q13	2013-02-14			ENSG00000070729	ENSG00000070729		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	2151	protein-coding gene	gene with protein product	"glutamic acid-rich protein"	600724		CNCG2, CNCG3L		8766832, 7590744, 16382102	Standard	NM_001297		Approved	RCNC2, RCNCb, GARP, GAR1, CNGB1B, RP45	uc002emt.2	Q14028	OTTHUMG00000154810	ENST00000251102.8:c.930A>G	16.37:g.57984389T>C		Somatic		WXS	Illumina HiSeq	Phase_I	H3BN09|O43636|Q13059|Q14029|Q9UMG2	Silent	SNP	ENST00000251102.8	37	CCDS42169.1																																																																																				0.552	CNGB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000337167.2	NM_001297		C	57984389	T	C	57984389	2	2	677	1	0	0	0	0	0	0	0	1	3602	1722	60	3		3	CNGB1	16	57984389	Silent	SNP	T	TCGA-KO-8406-01A-11D-2310-10	28228603	57984389	32370364	61	43713										
AP2B1	163	broad.mit.edu	37	chr17	34009754	34009754	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ctcctctggccatccatacaCcactgatgccaaaccagagc	6	17	1	2			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr17:34009754C>T	ENST00000262325.7	+	17	2876	c.2323C>T	c.(2323-2325)Cca>Tca	p.P775S	AP2B1_ENST00000538556.1_Missense_Mutation_p.P718S|AP2B1_ENST00000312678.8_Missense_Mutation_p.P789S|AP2B1_ENST00000592545.1_Missense_Mutation_p.P751S|AP2B1_ENST00000589344.1_Missense_Mutation_p.P789S|AP2B1_ENST00000545922.2_3'UTR|CTC-507E2.1_ENST00000588135.1_RNA|AP2B1_ENST00000537622.2_Missense_Mutation_p.P789S	NM_001282.2	NP_001273.1	P63010	AP2B1_HUMAN	adaptor-related protein complex 2, beta 1 subunit	775					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|axon guidance (GO:0007411)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|intracellular protein transport (GO:0006886)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of defense response to virus by virus (GO:0050690)|synaptic transmission (GO:0007268)|viral process (GO:0016032)	clathrin adaptor complex (GO:0030131)|clathrin-coated endocytic vesicle membrane (GO:0030669)|coated pit (GO:0005905)|cytosol (GO:0005829)|endocytic vesicle membrane (GO:0030666)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|plasma membrane (GO:0005886)	clathrin binding (GO:0030276)|protein transporter activity (GO:0008565)			NS(1)|breast(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(6)|ovary(3)|pancreas(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	28		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		CATCCATACACCACTGATGCC	0.483																																																0													113	92	99					17																	34009754		2203	4300	6503	SO:0001583	missense	163			M34175	CCDS32621.1, CCDS32622.1	17q11.2-q12	2010-06-18			ENSG00000006125	ENSG00000006125			563	protein-coding gene	gene with protein product		601025		ADTB2, CLAPB1		8262066, 8595912	Standard	XM_005257937		Approved		uc002hjq.3	P63010		ENST00000262325.7:c.2323C>T	17.37:g.34009754C>T	ENSP00000262325:p.Pro775Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJP3|P21851|Q7Z451|Q96J19	Missense_Mutation	SNP	ENST00000262325.7	37	CCDS32622.1	.	.	.	.	.	.	.	.	.	.	C	20.7	4.039723	0.75732	.	.	ENSG00000006125	ENST00000262325;ENST00000312678;ENST00000538556;ENST00000537622;ENST00000545922	T;T;T;T	0.43688	0.94;0.94;0.94;0.94	5.45	5.45	0.79879	Coatomer/clathrin adaptor appendage, Ig-like subdomain (1);Clathrin adaptor, alpha/beta/gamma-adaptin, appendage, Ig-like subdomain (2);Clathrin adaptor, beta-adaptin, appendage, Ig-like subdomain (1);	0.000000	0.85682	D	0.000000	T	0.69305	0.3096	M	0.85859	2.78	0.80722	D	1	D;P;B;P	0.76494	0.999;0.819;0.363;0.67	D;P;B;B	0.75484	0.986;0.593;0.275;0.179	T	0.72663	-0.4225	10	0.52906	T	0.07	-7.6667	18.2747	0.90078	0.0:1.0:0.0:0.0	.	526;751;775;789	F5GYG9;B4DWG4;P63010;P63010-2	.;.;AP2B1_HUMAN;.	S	775;789;718;789;526	ENSP00000262325:P775S;ENSP00000314414:P789S;ENSP00000440563:P718S;ENSP00000437413:P789S	ENSP00000262325:P775S	P	+	1	0	AP2B1	31033867	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.662000	0.83803	2.571000	0.86741	0.650000	0.86243	CCA		0.483	AP2B1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000448969.1			T	34009754	C	T	34009754	3	4	677	1	0	0	0	0	1	0	0	0	741	507	18	2	2431	2	AP2B1	17	34009754	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10		34009754	47185456	62	43714										
KRT40	125115	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	39140079	39140079	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tagggcaacaggacacagacCttttgttggagatcttcaat	10	8	2	2			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr17:39140079C>A	ENST00000398486.2	-	3	607	c.447G>T	c.(445-447)aaG>aaT	p.K149N	KRT40_ENST00000377755.4_Splice_Site_p.K149N	NM_182497.3	NP_872303.2	Q6A162	K1C40_HUMAN	keratin 40	149	Coil 1B.|Rod.					intermediate filament (GO:0005882)	structural molecule activity (GO:0005198)			endometrium(1)|large_intestine(2)|lung(4)|prostate(1)|upper_aerodigestive_tract(1)	9		Breast(137;0.00043)				GGACACAGACCTTTTGTTGGA	0.453																																																0													156	146	149					17																	39140079		2083	4229	6312	SO:0001630	splice_region_variant	125115			AK093919	CCDS42320.1	17q21.2	2013-01-16			ENSG00000204889	ENSG00000204889		"-", "Intermediate filaments type I, keratins (acidic)"	26707	protein-coding gene	gene with protein product						16831889	Standard	NM_182497		Approved	FLJ36600, KA36	uc010cxh.1	Q6A162	OTTHUMG00000133596	ENST00000398486.2:c.447+1G>T	17.37:g.39140079C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFU5	Missense_Mutation	SNP	ENST00000398486.2	37	CCDS42320.1	.	.	.	.	.	.	.	.	.	.	C	15.87	2.960620	0.53400	.	.	ENSG00000204889	ENST00000377755;ENST00000398486	D;D	0.89270	-2.49;-2.49	4.77	4.77	0.60923	Filament (1);	0.000000	0.35349	N	0.003279	D	0.95357	0.8493	M	0.91090	3.175	0.44508	D	0.997452	D	0.89917	1.0	D	0.80764	0.994	D	0.95890	0.8906	9	.	.	.	.	15.4557	0.75311	0.0:1.0:0.0:0.0	.	149	Q6A162	K1C40_HUMAN	N	149	ENSP00000366984:K149N;ENSP00000381500:K149N	.	K	-	3	2	KRT40	36393605	1.000000	0.71417	1.000000	0.80357	0.280000	0.26924	5.511000	0.67024	2.634000	0.89283	0.591000	0.81541	AAG		0.453	KRT40-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257701.3	NM_182497	Missense_Mutation	A	39140079	C	A	39140079	5	1	677	1	0	0	0	0	0	0	1	0	8485	695	24	4	876	4	KRT40	17	39140079	Splice_Site	SNP	C	TCGA-KO-8406-01A-11D-2310-10	5130325	39140079	42055131	63	43715										
MAPT	4137	broad.mit.edu	37	chr17	44096020	44096020	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	agtaaaatctgagaagcttgActtcaaggacagagtccagt	10	7	2	3			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr17:44096020A>G	ENST00000571987.1	+	12	1985	c.1985A>G	c.(1984-1986)gAc>gGc	p.D662G	MAPT_ENST00000446361.3_Missense_Mutation_p.D287G|MAPT_ENST00000262410.5_Missense_Mutation_p.D662G|MAPT_ENST00000535772.1_Missense_Mutation_p.D314G|MAPT_ENST00000340799.5_Missense_Mutation_p.D316G|MAPT_ENST00000431008.3_Missense_Mutation_p.D314G|MAPT_ENST00000415613.2_Missense_Mutation_p.D680G|MAPT_ENST00000344290.5_Missense_Mutation_p.D680G|MAPT_ENST00000420682.2_Missense_Mutation_p.D316G|MAPT_ENST00000570299.1_3'UTR|MAPT_ENST00000574436.1_Missense_Mutation_p.D345G|MAPT_ENST00000576518.1_Missense_Mutation_p.D245G|MAPT_ENST00000347967.5_Missense_Mutation_p.D220G|MAPT_ENST00000334239.8_Missense_Mutation_p.D256G|MAPT_ENST00000351559.5_Missense_Mutation_p.D345G			P10636	TAU_HUMAN	microtubule-associated protein tau	662					adult walking behavior (GO:0007628)|apoptotic process (GO:0006915)|axon cargo transport (GO:0008088)|axon extension (GO:0048675)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|generation of neurons (GO:0048699)|microtubule cytoskeleton organization (GO:0000226)|mitochondrion transport along microtubule (GO:0047497)|negative regulation of intracellular transport (GO:0032387)|neuron migration (GO:0001764)|positive regulation of axon extension (GO:0045773)|positive regulation of microtubule polymerization (GO:0031116)|regulation of autophagy (GO:0010506)|regulation of microtubule polymerization (GO:0031113)|regulation of microtubule-based movement (GO:0060632)	axon (GO:0030424)|axoneme (GO:0005930)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytosol (GO:0005829)|growth cone (GO:0030426)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|nuclear periphery (GO:0034399)|plasma membrane (GO:0005886)|tubulin complex (GO:0045298)	apolipoprotein binding (GO:0034185)|enzyme binding (GO:0019899)|lipoprotein particle binding (GO:0071813)|microtubule binding (GO:0008017)|SH3 domain binding (GO:0017124)|structural constituent of cytoskeleton (GO:0005200)			breast(1)|endometrium(4)|kidney(1)|large_intestine(9)|lung(14)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	38		Melanoma(429;0.216)			Docetaxel(DB01248)|Paclitaxel(DB01229)	GAGAAGCTTGACTTCAAGGAC	0.488																																																0													205	195	198					17																	44096020		2203	4300	6503	SO:0001583	missense	4137			J03778	CCDS11499.1, CCDS11500.1, CCDS11501.1, CCDS11502.1, CCDS45715.1, CCDS45716.1, CCDS56033.1	17q21	2014-09-17			ENSG00000186868	ENSG00000186868			6893	protein-coding gene	gene with protein product	"G protein beta1/gamma2 subunit-interacting factor 1", "microtubule-associated protein tau, isoform 4", "protein phosphatase 1, regulatory subunit 103"	157140		DDPAC, MAPTL		7936241, 3131773	Standard	NM_001123067		Approved	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549, PPP1R103	uc010dau.3	P10636	OTTHUMG00000168833	ENST00000571987.1:c.1985A>G	17.37:g.44096020A>G	ENSP00000458742:p.Asp662Gly	Somatic		WXS	Illumina HiSeq	Phase_I	P18518|Q14799|Q15549|Q15550|Q15551|Q1RMF6|Q53YB1|Q5CZI7|Q5XWF0|Q6QT54|Q9UDJ3|Q9UMH0|Q9UQ96	Missense_Mutation	SNP	ENST00000571987.1	37	CCDS11501.1	.	.	.	.	.	.	.	.	.	.	A	23.1	4.380372	0.82682	.	.	ENSG00000186868	ENST00000344290;ENST00000262410;ENST00000351559;ENST00000340799;ENST00000535772;ENST00000347967;ENST00000354326;ENST00000446361;ENST00000334239;ENST00000420682;ENST00000415613;ENST00000431008	D;D;D;D;D;D;D;D;D	0.98550	-4.99;-4.99;-4.99;-4.99;-4.99;-4.99;-4.99;-4.99;-4.99	5.02	5.02	0.67125	.	0.000000	0.44902	D	0.000415	D	0.98760	0.9583	M	0.82630	2.6	0.80722	D	1	B;P;P;P;B;D;D	0.63880	0.243;0.856;0.591;0.591;0.321;0.993;0.976	B;B;B;B;B;P;D	0.65874	0.366;0.341;0.312;0.406;0.281;0.879;0.939	D	0.99686	1.1000	10	0.87932	D	0	-24.0164	13.8617	0.63564	1.0:0.0:0.0:0.0	.	680;316;263;256;287;345;662	P10636-9;P10636-7;F8WAB2;P10636-2;P10636-6;P10636-8;P10636	.;.;.;.;.;.;TAU_HUMAN	G	680;662;345;316;314;220;263;256;287;316;680;168	ENSP00000340820:D680G;ENSP00000262410:D662G;ENSP00000303214:D345G;ENSP00000340438:D316G;ENSP00000443028:D314G;ENSP00000302706:D220G;ENSP00000408975:D256G;ENSP00000413056:D316G;ENSP00000410838:D680G	ENSP00000262410:D662G	D	+	2	0	MAPT	41451867	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.339000	0.96797	2.013000	0.59113	0.459000	0.35465	GAC		0.488	MAPT-008	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000440133.1	NM_016835		G	44096020	A	G	44096020	3	3	677	1	0	0	0	0	1	0	0	0	9304	275	10	3	2089	3	MAPT	17	44096020	Missense_Mutation	SNP	A	TCGA-KO-8406-01A-11D-2310-10	4955941	44096020	37099190	64	43716										
PDCD2L	84306	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	34895578	34895578	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ctctgcccaccgtggctgcgCccaggcccgtgtgtcagcgc	13	18	2	0			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr19:34895578C>T	ENST00000246535.3	+	2	180	c.133C>T	c.(133-135)Ccc>Tcc	p.P45S	PDCD2L_ENST00000587065.2_5'Flank|RP11-618P17.4_ENST00000606020.1_Missense_Mutation_p.P40S	NM_032346.1	NP_115722.1	Q9BRP1	PDD2L_HUMAN	programmed cell death 2-like	45					cell cycle (GO:0007049)	cytoplasm (GO:0005737)|membrane (GO:0016020)				breast(2)|kidney(1)|large_intestine(4)|lung(1)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			CGTGGCTGCGCCCAGGCCCGT	0.692																																																0													22	23	23					19																	34895578		2199	4292	6491	SO:0001583	missense	84306			BC006146	CCDS12438.1	19q13.11	2008-02-05				ENSG00000126249			28194	protein-coding gene	gene with protein product		615661				16311922	Standard	NM_032346		Approved	MGC13096	uc002nvj.3	Q9BRP1		ENST00000246535.3:c.133C>T	19.37:g.34895578C>T	ENSP00000246535:p.Pro45Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000246535.3	37	CCDS12438.1	.	.	.	.	.	.	.	.	.	.	C	15.99	2.996698	0.54147	.	.	ENSG00000126249	ENST00000246535	.	.	.	4.41	3.34	0.38264	.	0.264241	0.37393	N	0.002104	T	0.33381	0.0861	L	0.58969	1.84	0.09310	N	1	P	0.35272	0.493	B	0.29785	0.107	T	0.25222	-1.0138	9	0.46703	T	0.11	-16.4667	7.2931	0.26376	0.1937:0.6187:0.1876:0.0	.	45	Q9BRP1	PDD2L_HUMAN	S	45	.	ENSP00000246535:P45S	P	+	1	0	PDCD2L	39587418	0.000000	0.05858	0.032000	0.17829	0.849000	0.48306	0.577000	0.23758	1.007000	0.39238	0.313000	0.20887	CCC		0.692	PDCD2L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459251.3	NM_032346		T	34895578	C	T	34895578	3	4	677	1	0	0	0	0	1	0	0	0	11627	739	26	2	139	2	PDCD2L	19	34895578	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10		34895578	24233405	65	43717										
MYH14	79784	mdanderson.org	37	chr19	50713655	50713655	+	Silent	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	accatgtcggtgcccgggcgGaaggcgccccccaggccggg	17	16	0	0	rs8106196	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr19:50713655G>C	ENST00000596571.1	+	1	33	c.33G>C	c.(31-33)cgG>cgC	p.R11R	MYH14_ENST00000601313.1_Silent_p.R11R|MYH14_ENST00000262269.8_Silent_p.R11R|MYH14_ENST00000440075.2_Silent_p.R11R|MYH14_ENST00000425460.1_Silent_p.R11R|MYH14_ENST00000376970.2_Silent_p.R11R|MYH14_ENST00000598205.1_Silent_p.R11R			Q7Z406	MYH14_HUMAN	myosin, heavy chain 14, non-muscle	11					actin filament-based movement (GO:0030048)|actomyosin structure organization (GO:0031032)|ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|mitochondrion morphogenesis (GO:0070584)|neuronal action potential (GO:0019228)|regulation of cell shape (GO:0008360)|sensory perception of sound (GO:0007605)|skeletal muscle atrophy (GO:0014732)|skeletal muscle contraction (GO:0003009)|skeletal muscle tissue development (GO:0007519)|vocalization behavior (GO:0071625)	actomyosin (GO:0042641)|axon (GO:0030424)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|growth cone (GO:0030426)|membrane (GO:0016020)|myosin II complex (GO:0016460)|myosin II filament (GO:0097513)|stress fiber (GO:0001725)	actin-dependent ATPase activity (GO:0030898)|ATP binding (GO:0005524)|microfilament motor activity (GO:0000146)			central_nervous_system(1)|cervix(2)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(10)|ovary(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	46		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		TGCCCGGGCGGAAGGCGCCCC	0.751													G|||	155	0.0309505	0.0651	0.0303	5008	,	,		8792	0.0		0.0338	False		,,,				2504	0.0143															0								G	,,	124,2870		1,122,1374	4	5	4		33,33,33	2	1	19	dbSNP_116	4	171,6701		2,167,3267	no	coding-synonymous,coding-synonymous,coding-synonymous	MYH14	NM_001077186.1,NM_001145809.1,NM_024729.3	,,	3,289,4641	CC,CG,GG		2.4884,4.1416,2.9901	,,	11/2004,11/2037,11/1996	50713655	295,9571	1497	3436	4933	SO:0001819	synonymous_variant	79784			AY165122	CCDS46151.1, CCDS54295.1, CCDS59411.1	19q13.33	2011-09-27	2009-11-19			ENSG00000105357		"Myosins / Myosin superfamily : Class II"	23212	protein-coding gene	gene with protein product		608568	"myosin, heavy polypeptide 14", "myosin, heavy chain 14"	DFNA4		12909352, 15015131, 17940200	Standard	NM_024729		Approved	FLJ13881, KIAA2034, MHC16, MYH17	uc010enu.1	Q7Z406		ENST00000596571.1:c.33G>C	19.37:g.50713655G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B0I1S2|C3TTN4|Q5CZ75|Q6XYE4|Q76B62|Q8WV23|Q96I22|Q9BT27|Q9BW35|Q9H882	Silent	SNP	ENST00000596571.1	37	CCDS59411.1																																																																																				0.751	MYH14-008	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000464710.2	NM_024729		C	50713655	G	C	50713655	2	2	677	1	0	0	0	0	0	0	0	1	10040	1161	41	4		4	MYH14	19	50713655	Silent	SNP	G	TCGA-KO-8406-01A-11D-2310-10	15818077	50713655	8415328	66	43718										
SPIB	6689	broad.mit.edu	37	chr19	50931537	50931537	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	gcgagatccgcaaggtcaagCgcaagctcacctaccagttc	10	14	2	1			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr19:50931537C>A	ENST00000595883.1	+	6	758	c.733C>A	c.(733-735)Cgc>Agc	p.R245S	CTD-2545M3.6_ENST00000599632.1_Missense_Mutation_p.A379E|SPIB_ENST00000439922.2_Missense_Mutation_p.R154S|SPIB_ENST00000596074.1_3'UTR|SPIB_ENST00000270632.7_3'UTR	NM_001243999.1|NM_001244000.1|NM_003121.4	NP_001230928.1|NP_001230929.1|NP_003112.2	Q01892	SPIB_HUMAN	Spi-B transcription factor (Spi-1/PU.1 related)	245					cell differentiation (GO:0030154)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(8)	14		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		CAAGGTCAAGCGCAAGCTCAC	0.682																																																0													24	18	20					19																	50931537		2120	4121	6241	SO:0001583	missense	6689				CCDS33080.1, CCDS58674.1, CCDS59412.1	19q13.3-q13.4	2008-07-22				ENSG00000269404			11242	protein-coding gene	gene with protein product		606802				1406622	Standard	NM_003121		Approved	SPI-B	uc002psd.3	Q01892		ENST00000595883.1:c.733C>A	19.37:g.50931537C>A	ENSP00000471921:p.Arg245Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9C9|B4DUG6|Q15359	Missense_Mutation	SNP	ENST00000595883.1	37	CCDS33080.1	.	.	.	.	.	.	.	.	.	.	.	25.3	4.625445	0.87560	.	.	ENSG00000142539	ENST00000270632;ENST00000439922	T	0.23552	1.9	4.61	3.49	0.39957	Winged helix-turn-helix transcription repressor DNA-binding (1);Ets (4);	0.176247	0.26560	N	0.023682	T	0.35068	0.0919	L	0.39633	1.23	0.41749	D	0.989658	D;D	0.61697	0.99;0.99	P;P	0.61800	0.859;0.894	T	0.11372	-1.0590	10	0.87932	D	0	-0.074	10.1039	0.42521	0.3729:0.6271:0.0:0.0	.	154;245	B4DUG6;Q01892	.;SPIB_HUMAN	S	245;154	ENSP00000391877:R154S	ENSP00000270632:R245S	R	+	1	0	SPIB	55623349	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.306000	0.65756	2.267000	0.75376	0.561000	0.74099	CGC		0.682	SPIB-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000464744.1	NM_003121		A	50931537	C	A	50931537	3	1	677	1	0	0	0	0	1	0	0	0	15062	768	27	4	755	4	SPIB	19	50931537	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10	217882	50931537	8197446	67	43719										
GP6	51206	mdanderson.org	37	chr19	55525596	55525596	+	3'UTR	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	attctcccacctcagcccccTgagttgctgggagtataggg	11	13	2	1	rs1654412	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr19:55525596T>C	ENST00000417454.1	-	0	1740				CTC-550B14.7_ENST00000593060.1_RNA|GP6_ENST00000310373.3_Missense_Mutation_p.R573G|GP6_ENST00000333884.2_3'UTR|CTC-550B14.7_ENST00000586845.1_RNA	NM_016363.4	NP_057447	Q9HCN6	GPVI_HUMAN	glycoprotein VI (platelet)						blood coagulation (GO:0007596)|enzyme linked receptor protein signaling pathway (GO:0007167)|leukocyte migration (GO:0050900)|platelet activation (GO:0030168)	cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|tetraspanin-enriched microdomain (GO:0097197)	collagen binding (GO:0005518)|receptor activity (GO:0004872)|transmembrane signaling receptor activity (GO:0004888)			NS(2)|central_nervous_system(1)|endometrium(2)|large_intestine(3)|lung(6)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	19			BRCA - Breast invasive adenocarcinoma(297;0.156)	GBM - Glioblastoma multiforme(193;0.0515)		ctcagccccctgagttgctgg	0.522													T|||	3589	0.716653	0.5	0.8228	5008	,	,		16885	0.8075		0.8459	False		,,,				2504	0.7076															0								T	GLY/ARG,	2026,1786		560,906,440	10	9	9		1717,	-0.5	0	19	dbSNP_89	9	6725,1383		2826,1073,155	no	missense,utr-3	GP6	NM_001083899.1,NM_016363.4	125,	3386,1979,595	CC,CT,TT		17.0572,46.852,26.5856	possibly-damaging,	573/621,	55525596	8751,3169	1906	4054	5960	SO:0001624	3_prime_UTR_variant	51206			AB035073	CCDS42626.1, CCDS46184.1, CCDS58678.1	19q13.4	2013-01-29			ENSG00000088053	ENSG00000088053		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	14388	protein-coding gene	gene with protein product		605546				11027634	Standard	NM_001083899		Approved	GPVI	uc002qil.3	Q9HCN6	OTTHUMG00000159709	ENST00000417454.1:c.*693A>G	19.37:g.55525596T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9HCN7|Q9UIF2	Missense_Mutation	SNP	ENST00000417454.1	37	CCDS46184.1	1670	0.7646520146520146	264	0.5365853658536586	305	0.8425414364640884	467	0.8164335664335665	634	0.8364116094986808	T	6.398	0.441597	0.12164	0.53148	0.829428	ENSG00000088053	ENST00000310373	T	0.37915	1.17	0.235	-0.47	0.12131	.	.	.	.	.	T	0.00012	0.0000	.	.	.	0.80722	P	0.0	P	0.37500	0.597	B	0.39119	0.291	T	0.44817	-0.9303	6	0.02654	T	1	.	.	.	.	rs1654412	573	Q9HCN6-3	.	G	573	ENSP00000308782:R573G	ENSP00000308782:R573G	R	-	1	2	GP6	60217408	0.009000	0.17119	0.009000	0.14445	0.009000	0.06853	-0.829000	0.04415	-0.912000	0.03837	-0.940000	0.02684	AGG		0.522	GP6-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000357006.1			C	55525596	T	C	55525596	1	2	677	0	1	0	0	0	0	0	0	0	6591	1579	55	3		3	GP6	19	55525596	3'UTR	SNP	T	TCGA-KO-8406-01A-11D-2310-10	4594059	55525596	3603387	68	43720										
SIRPB1	10326	mdanderson.org	37	chr20	1559300	1559300	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	gctgcaactgatacggacttTtcaggctgaatcacctgtag	10	10	2	2	rs202017659	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr20:1559300T>G	ENST00000381605.4	-	2	181	c.117A>C	c.(115-117)gaA>gaC	p.E39D	SIRPB1_ENST00000381603.3_Missense_Mutation_p.E39D|SIRPB1_ENST00000262929.5_Missense_Mutation_p.E38D|RP4-576H24.4_ENST00000564763.1_Missense_Mutation_p.E39D	NM_006065.3	NP_006056.2	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1	39	Ig-like V-type.				cell surface receptor signaling pathway (GO:0007166)|innate immune response (GO:0045087)|signal transduction (GO:0007165)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)				central_nervous_system(2)|kidney(2)|large_intestine(4)|lung(16)|ovary(1)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)	31						ATACGGACTTTTCAGGCTGAA	0.532													t|||	53	0.0105831	0.0061	0.0101	5008	,	,		16142	0.0089		0.0119	False		,,,				2504	0.0174															0													87	81	83					20																	1559300		2198	4243	6441	SO:0001583	missense	10326			Y10376	CCDS13019.1, CCDS42850.1, CCDS46571.1	20p13	2013-01-11			ENSG00000101307	ENSG00000101307		"Signal-regulatory proteins", "CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C1-set domain containing"	15928	protein-coding gene	gene with protein product		603889				9062191, 16339511	Standard	NM_001083910		Approved	SIRP-BETA-1, CD172b	uc010gai.3	O00241	OTTHUMG00000031676	ENST00000381605.4:c.117A>C	20.37:g.1559300T>G	ENSP00000371018:p.Glu39Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLM2|B2R8V0|Q5TFQ9|Q5TFR0|Q8TB12|Q9H1U5|Q9Y4V0	Missense_Mutation	SNP	ENST00000381605.4	37	CCDS13019.1	.	.	.	.	.	.	.	.	.	.	.	4.035	0.003997	0.07866	.	.	ENSG00000101307	ENST00000381605;ENST00000381603;ENST00000262929	T;T;T	0.65732	-0.17;-0.17;-0.17	2.36	-4.72	0.03269	Immunoglobulin subtype (1);Immunoglobulin V-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.862007	0.10312	N	0.689832	T	0.43277	0.1240	L	0.27053	0.805	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.12837	0.008;0.005	T	0.17167	-1.0378	10	0.23302	T	0.38	.	9.5019	0.39022	0.0:0.3277:0.5576:0.1147	.	39;39	O00241;O00241-2	SIRB1_HUMAN;.	D	39;39;38	ENSP00000371018:E39D;ENSP00000371016:E39D;ENSP00000262929:E38D	ENSP00000262929:E38D	E	-	3	2	SIRPB1	1507300	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-1.343000	0.02642	-4.273000	0.00060	-4.604000	0.00004	GAA		0.532	SIRPB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000077555.2	NM_006065		G	1559300	T	G	1559300	3	3	677	1	0	0	0	0	1	0	0	0	14346	1838	64	5	1095	5	SIRPB1	20	1559300	Missense_Mutation	SNP	T	TCGA-KO-8406-01A-11D-2310-10		1559300	61466220	69	43721										
DSTN	11034	mdanderson.org	37	chr20	17581509	17581509	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ttttttgtctcagtgcagacAaaaagtgcatcattgtagaa	8	6	2	2			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr20:17581509A>G	ENST00000246069.7	+	2	476	c.130A>G	c.(130-132)Aaa>Gaa	p.K44E	DSTN_ENST00000474024.1_Missense_Mutation_p.K27E	NM_006870.3	NP_006861.1	P60981	DEST_HUMAN	destrin (actin depolymerizing factor)	44	ADF-H. {ECO:0000255|PROSITE- ProRule:PRU00599}.				actin filament depolymerization (GO:0030042)|actin filament severing (GO:0051014)|actin polymerization or depolymerization (GO:0008154)|cellular component movement (GO:0006928)|positive regulation of actin filament depolymerization (GO:0030836)	actin cytoskeleton (GO:0015629)|cortical actin cytoskeleton (GO:0030864)|extracellular vesicular exosome (GO:0070062)				endometrium(1)|large_intestine(5)|lung(8)|skin(1)	15						CAGTGCAGACAAAAAGTGCAT	0.383																																																0													118	111	113					20																	17581509		2203	4300	6503	SO:0001583	missense	11034			S65738	CCDS13127.1, CCDS46580.1	20p12.1	2010-08-20			ENSG00000125868	ENSG00000125868			15750	protein-coding gene	gene with protein product		609114				8399167, 2156828	Standard	NM_006870		Approved	ADF, ACTDP	uc002wpr.3	P60981	OTTHUMG00000031947	ENST00000246069.7:c.130A>G	20.37:g.17581509A>G	ENSP00000246069:p.Lys44Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6N2|B4DYA6|P18282|Q5W166|Q6IAW2	Missense_Mutation	SNP	ENST00000246069.7	37	CCDS13127.1	.	.	.	.	.	.	.	.	.	.	A	14.47	2.543878	0.45280	.	.	ENSG00000125868	ENST00000246069;ENST00000543261	T;T	0.38077	1.16;1.16	5.65	5.65	0.86999	Actin-binding, cofilin/tropomyosin type (3);	0.178567	0.52532	D	0.000069	T	0.31295	0.0792	L	0.31294	0.92	0.53005	D	0.999965	B	0.17852	0.024	B	0.25506	0.061	T	0.06625	-1.0816	10	0.49607	T	0.09	-19.5102	15.0613	0.71955	1.0:0.0:0.0:0.0	.	44	P60981	DEST_HUMAN	E	44;27	ENSP00000246069:K44E;ENSP00000444808:K27E	ENSP00000246069:K44E	K	+	1	0	DSTN	17529509	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	4.053000	0.57427	2.166000	0.68216	0.460000	0.39030	AAA		0.383	DSTN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078131.6	NM_001011546		G	17581509	A	G	17581509	3	3	677	1	0	0	0	0	1	0	0	0	4786	131	5	3	136	3	DSTN	20	17581509	Missense_Mutation	SNP	A	TCGA-KO-8406-01A-11D-2310-10	16022209	17581509	45444011	70	43722										
PRIC285	85441	broad.mit.edu	37	chr20	62200278	62200278	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	cctctgcgtacagtgctcccGgaggcgcgaagagcatgttc	13	13	1	1	rs199977542	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr20:62200278G>A	ENST00000467148.1	-	5	1232	c.1163C>T	c.(1162-1164)cCg>cTg	p.P388L	HELZ2_ENST00000479540.1_5'Flank|HELZ2_ENST00000427522.2_5'Flank	NM_001037335.2	NP_001032412.2	Q9BYK8	HELZ2_HUMAN	helicase with zinc finger 2, transcriptional coactivator	388					cellular lipid metabolic process (GO:0044255)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	membrane (GO:0016020)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)										CAGTGCTCCCGGAGGCGCGAA	0.677													G|||	2	0.000399361	0.0	0.0	5008	,	,		17049	0.001		0.0	False		,,,				2504	0.001															0													47	47	47					20																	62200278		2180	4275	6455	SO:0001583	missense	85441			AB201715	CCDS13527.1, CCDS33508.1	20q13.33	2012-09-26			ENSG00000130589	ENSG00000130589			30021	protein-coding gene	gene with protein product	"peroxisomal proliferator activated receptor A interacting complex 285", "PPARG-DBD-interacting protein 1"	611265				11214970, 12189208, 16239304	Standard	NM_001037335		Approved	PDIP1, PRIC285, KIAA1769	uc002yfm.2	Q9BYK8	OTTHUMG00000032969	ENST00000467148.1:c.1163C>T	20.37:g.62200278G>A	ENSP00000417401:p.Pro388Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q3C2G2|Q4VXQ1|Q8TEF3|Q96ND3|Q9C094	Missense_Mutation	SNP	ENST00000467148.1	37	CCDS33508.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	G	8.935	0.964382	0.18583	.	.	ENSG00000130589	ENST00000467148	T	0.79352	-1.26	4.8	2.77	0.32553	.	0.952674	0.08784	N	0.894294	T	0.74884	0.3775	L	0.50333	1.59	0.09310	N	1	D	0.56035	0.974	B	0.42798	0.398	T	0.62229	-0.6898	10	0.59425	D	0.04	-10.8048	12.8997	0.58119	0.0:0.0:0.4381:0.5619	.	388	Q9BYK8	PR285_HUMAN	L	388	ENSP00000417401:P388L	ENSP00000417401:P388L	P	-	2	0	RP4-697K14.7	61670722	0.003000	0.15002	0.006000	0.13384	0.062000	0.15995	1.126000	0.31344	0.424000	0.26061	0.462000	0.41574	CCG		0.677	HELZ2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354127.1	NM_001037335		A	62200278	G	A	62200278	3	1	677	1	0	0	0	0	1	0	0	0	12495	1116	39	1	6869	1	PRIC285	20	62200278	Missense_Mutation	SNP	G	TCGA-KO-8406-01A-11D-2310-10	44618769	62200278	825242	71	43723										
PRPF6	57473	broad.mit.edu	37	chr20	62648170	62648170	+	Intron	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	gattgaggaggaagatcggaAgcatacctggatggaggatg	17	4	0	2			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr20:62648170A>G	ENST00000450537.1	-	1	56				ZNF512B_ENST00000217130.3_Intron|PRPF6_ENST00000535781.1_Missense_Mutation_p.K540R			Q96KM6	Z512B_HUMAN	zinc finger protein 512B						regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|cervix(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(3)|lung(16)|ovary(1)|prostate(4)|skin(1)	33	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					GAAGATCGGAAGCATACCTGG	0.547																																																0													186	153	165					20																	62648170		2203	4300	6503	SO:0001627	intron_variant	24148			AB033022	CCDS13548.1	20q13.33	2011-02-09			ENSG00000196700	ENSG00000196700			29212	protein-coding gene	gene with protein product						10574462	Standard	NM_020713		Approved	GM632, MGC149845, MGC149846	uc002yhl.2	Q96KM6	OTTHUMG00000033008	ENST00000450537.1:c.4+31887T>C	20.37:g.62648170A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q08AK9|Q9ULM4	Missense_Mutation	SNP	ENST00000450537.1	37	CCDS13548.1	.	.	.	.	.	.	.	.	.	.	A	18.45	3.627152	0.66901	.	.	ENSG00000101161	ENST00000266079;ENST00000535781	T;T	0.34472	1.36;1.36	6.16	5.03	0.67393	Tetratricopeptide repeat-containing (1);	0.000000	0.85682	D	0.000000	T	0.40015	0.1100	L	0.55213	1.73	0.80722	D	1	P;B	0.40534	0.72;0.074	B;B	0.44224	0.444;0.063	T	0.19418	-1.0306	10	0.39692	T	0.17	.	13.7549	0.62930	0.8724:0.1276:0.0:0.0	.	540;540	O94906-2;O94906	.;PRP6_HUMAN	R	540	ENSP00000266079:K540R;ENSP00000446216:K540R	ENSP00000266079:K540R	K	+	2	0	PRPF6	62118614	1.000000	0.71417	1.000000	0.80357	0.891000	0.51852	7.123000	0.77176	2.367000	0.80283	0.528000	0.53228	AAG		0.547	ZNF512B-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080246.1	NM_020713		G	62648170	A	G	62648170	1	3	677	0	1	0	0	0	0	0	0	0	12584	72	3	3		3	PRPF6	20	62648170	Intron	SNP	A	TCGA-KO-8406-01A-11D-2310-10	447892	62648170	377350	72	43724										
FTCD	10841	mdanderson.org	37	chr21	47558473	47558473	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	caccgggccagttcctgcagGgccggccacagcgaggccac	14	17	0	0	rs1047179	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr21:47558473G>C	ENST00000291670.5	-	12	1435	c.1392C>G	c.(1390-1392)gcC>gcG	p.A464A	FTCD_ENST00000359679.2_Silent_p.A464A|FTCD_ENST00000355384.2_Missense_Mutation_p.P450A|FTCD_ENST00000498355.2_5'UTR|FTCD_ENST00000397746.3_Silent_p.A464A|FTCD_ENST00000397748.1_Silent_p.A464A|FTCD_ENST00000397743.1_Missense_Mutation_p.P450A	NM_006657.2	NP_006648.1	O95954	FTCD_HUMAN	formimidoyltransferase cyclodeaminase	464	Cyclodeaminase/cyclohydrolase. {ECO:0000250}.				cellular nitrogen compound metabolic process (GO:0034641)|cytoskeleton organization (GO:0007010)|folic acid-containing compound metabolic process (GO:0006760)|histidine catabolic process (GO:0006548)|histidine catabolic process to glutamate and formamide (GO:0019556)|histidine catabolic process to glutamate and formate (GO:0019557)|small molecule metabolic process (GO:0044281)|tetrahydrofolate interconversion (GO:0035999)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)	folic acid binding (GO:0005542)|formimidoyltetrahydrofolate cyclodeaminase activity (GO:0030412)|glutamate formimidoyltransferase activity (GO:0030409)			endometrium(1)|large_intestine(2)|lung(9)|pancreas(1)|prostate(3)|skin(3)	19	Breast(49;0.214)			Colorectal(79;0.235)	Tetrahydrofolic acid(DB00116)	GTTCCTGCAGGGCCGGCCACA	0.711													C|||	2409	0.48103	0.5287	0.6599	5008	,	,		12121	0.4296		0.4771	False		,,,				2504	0.3466															0								C	,	2117,2151		576,965,593	6	9	8		1392,1392	-6.6	0	21	dbSNP_86	8	3866,4560		989,1888,1336	no	coding-synonymous,coding-synonymous	FTCD	NM_006657.2,NM_206965.1	,	1565,2853,1929	CC,CG,GG		45.8818,49.6017,47.1325	,	464/542,464/542	47558473	5983,6711	2134	4213	6347	SO:0001819	synonymous_variant	10841			U91541	CCDS13731.1	21q22.3	2013-06-10	2013-06-10		ENSG00000160282	ENSG00000160282	2.1.2.5, 4.3.1.4		3974	protein-coding gene	gene with protein product		606806	"formiminotransferase cyclodeaminase"			10029623, 10773664	Standard	NM_006657		Approved		uc002zif.3	O95954	OTTHUMG00000090488	ENST00000291670.5:c.1392C>G	21.37:g.47558473G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B9EGD0|Q86V03|Q9HCT4|Q9HCT5|Q9HCT6|Q9UHJ2	Silent	SNP	ENST00000291670.5	37	CCDS13731.1	1071|1071	0.49038461538461536|0.49038461538461536	259|259	0.5264227642276422|0.5264227642276422	228|228	0.6298342541436464|0.6298342541436464	226|226	0.3951048951048951|0.3951048951048951	358|358	0.47229551451187335|0.47229551451187335	C|C	0|0	-2.731311|-2.731311	0.00089|0.00089	0.496017|0.496017	0.458818|0.458818	ENSG00000160282|ENSG00000160282	ENST00000355384;ENST00000397743|ENST00000446405	D;D|.	0.83673|.	-1.75;-1.75|.	4.23|4.23	-6.55|-6.55	0.01854|0.01854	.|.	.|.	.|.	.|.	.|.	T|T	0.00012|0.00012	0.0000|0.0000	.|.	.|.	.|.	0.80722|0.80722	P|P	0.0|0.0	B|.	0.02656|.	0.0|.	B|.	0.01281|.	0.0|.	T|T	0.41963|0.41963	-0.9479|-0.9479	6|3	.|.	.|.	.|.	.|.	3.3951|3.3951	0.07303|0.07303	0.1569:0.1253:0.1552:0.5626|0.1569:0.1253:0.1552:0.5626	rs1047179;rs3187204;rs17411992;rs57145963|rs1047179;rs3187204;rs17411992;rs57145963	450|.	B7WPK3|.	.|.	A|R	450|5	ENSP00000347545:P450A;ENSP00000380851:P450A|.	.|.	P|P	-|-	1|2	0|0	FTCD|FTCD	46382901|46382901	0.000000|0.000000	0.05858|0.05858	0.020000|0.020000	0.16555|0.16555	0.003000|0.003000	0.03518|0.03518	-2.827000|-2.827000	0.00746|0.00746	-1.536000|-1.536000	0.01738|0.01738	-2.002000|-2.002000	0.00443|0.00443	CCT|CCC		0.711	FTCD-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206962.1	NM_006657		C	47558473	G	C	47558473	2	2	677	1	0	0	0	0	0	0	0	1	6088	1219	43	4		4	FTCD	21	47558473	Silent	SNP	G	TCGA-KO-8406-01A-11D-2310-10		47558473	571422	73	43725										
GGTLC2	91227	mdanderson.org	37	chr22	22988911	22988911	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	aagcccgagttctacacgccGgttgatgggggcactgctca	13	12	2	1	rs9612135	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr22:22988911G>A	ENST00000480559.1	+	1	96	c.96G>A	c.(94-96)ccG>ccA	p.P32P	POM121L1P_ENST00000402027.1_RNA|GGTLC2_ENST00000448514.1_Silent_p.P32P	NM_199127.2	NP_954578.2	Q14390	GGTL2_HUMAN	gamma-glutamyltransferase light chain 2	32					glutathione metabolic process (GO:0006749)|leukotriene biosynthetic process (GO:0019370)	anchored component of external side of plasma membrane (GO:0031362)|extracellular vesicular exosome (GO:0070062)	gamma-glutamyltransferase activity (GO:0003840)	p.P32P(1)		endometrium(2)|large_intestine(1)|lung(1)|ovary(1)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)	11	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.3e-31)|Acute lymphoblastic leukemia(6;5.54e-23)		READ - Rectum adenocarcinoma(21;0.145)		TCTACACGCCGGTTGATGGGG	0.617													.|||	1847	0.36881	0.1505	0.6124	5008	,	,		7239	0.5109		0.4056	False		,,,				2504	0.3067															1	Substitution - coding silent(1)	prostate(1)											32	17	22					22																	22988911		2173	3963	6136	SO:0001819	synonymous_variant	91227			X98922	CCDS13802.2	22q11.21	2008-03-25	2008-03-10	2008-03-10	ENSG00000100121	ENSG00000100121		"Gamma-glutamyltransferases"	18596	protein-coding gene	gene with protein product		612339	"gamma-glutamyltransferase-like 4"	GGTL4		9074928, 18357469	Standard	NM_199127		Approved		uc010gtt.2	Q14390	OTTHUMG00000151177	ENST00000480559.1:c.96G>A	22.37:g.22988911G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A1A516|A2VCM9|Q5NV76|Q6ISH0	Silent	SNP	ENST00000480559.1	37	CCDS13802.2																																																																																				0.617	GGTLC2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000321662.1	NM_199127		A	22988911	G	A	22988911	2	1	677	1	0	0	0	0	0	0	0	1	6373	1103	39	1		1	GGTLC2	22	22988911	Silent	SNP	G	TCGA-KO-8406-01A-11D-2310-10		22988911	28315655	74	43726										
SGSM1	129049	broad.mit.edu	37	chr22	25294500	25294500	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	ctgccaacgaggtgtcccctGtgtcttccagcggcgtcacc	11	16	2	0			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr22:25294500G>T	ENST00000400359.4	+	20	2756	c.2749G>T	c.(2749-2751)Gtg>Ttg	p.V917L	SNORD56_ENST00000362913.1_RNA|SGSM1_ENST00000400358.4_Missense_Mutation_p.V862L	NM_001039948.2|NM_133454.2	NP_001035037.1|NP_597711.1	Q2NKQ1	SGSM1_HUMAN	small G protein signaling modulator 1	917	Rab-GAP TBC. {ECO:0000255|PROSITE- ProRule:PRU00163}.					Golgi apparatus (GO:0005794)	Rab GTPase activator activity (GO:0005097)			NS(2)|breast(1)|central_nervous_system(2)|endometrium(5)|kidney(2)|large_intestine(14)|lung(10)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	41						GGTGTCCCCTGTGTCTTCCAG	0.562																																																0													68	73	71					22																	25294500		2042	4189	6231	SO:0001583	missense	129049			AB075821	CCDS46674.1, CCDS46675.1, CCDS74834.1	22q11.23	2013-07-09	2007-08-14	2007-08-14	ENSG00000167037	ENSG00000167037		"Small G protein signaling modulators"	29410	protein-coding gene	gene with protein product		611417	"RUN and TBC1 domain containing 2"	RUTBC2		11853319, 17509819, 22637480	Standard	NM_133454		Approved	KIAA1941	uc003abg.2	Q2NKQ1	OTTHUMG00000150837	ENST00000400359.4:c.2749G>T	22.37:g.25294500G>T	ENSP00000383212:p.Val917Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A5LGW1|A8MUT4|B0QYW0|B0QYW1|B5MEG1|B9A6J4|Q5TFL3|Q8TF60	Missense_Mutation	SNP	ENST00000400359.4	37	CCDS46674.1	.	.	.	.	.	.	.	.	.	.	G	13.96	2.393481	0.42410	.	.	ENSG00000167037	ENST00000403206;ENST00000400358;ENST00000400359	T;T	0.06849	3.26;3.25	5.09	5.09	0.68999	Rab-GAP/TBC domain (3);	0.531595	0.17307	U	0.179010	T	0.08403	0.0209	L	0.27053	0.805	0.33206	D	0.552802	B;B;B;B	0.33637	0.42;0.21;0.095;0.304	B;B;B;B	0.37239	0.244;0.212;0.077;0.111	T	0.23547	-1.0185	10	0.23891	T	0.37	-29.1052	15.091	0.72195	0.0:0.142:0.858:0.0	.	862;917;934;917	Q2NKQ1-4;C9J7S8;Q2NKQ1-3;Q2NKQ1	.;.;.;SGSM1_HUMAN	L	917;862;917	ENSP00000383211:V862L;ENSP00000383212:V917L	ENSP00000383211:V862L	V	+	1	0	SGSM1	23624500	1.000000	0.71417	0.994000	0.49952	0.645000	0.38454	4.280000	0.58959	2.541000	0.85698	0.591000	0.81541	GTG		0.562	SGSM1-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000320282.1	XM_059318		T	25294500	G	T	25294500	3	4	677	1	0	0	0	0	1	0	0	0	14235	1377	48	4	2827	4	SGSM1	22	25294500	Missense_Mutation	SNP	G	TCGA-KO-8406-01A-11D-2310-10	2305589	25294500	26010066	75	43727										
C22orf33	339669	mdanderson.org	37	chr22	37387257	37387257	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tggatttgctgttttctccaTatttctcttccagtgctttc	6	10	2	0	rs9610624	byFrequency	TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr22:37387257T>C	ENST00000405091.2	-	7	1057	c.806A>G	c.(805-807)tAt>tGt	p.Y269C	TEX33_ENST00000402860.3_Missense_Mutation_p.Y184C|TEX33_ENST00000381821.1_Missense_Mutation_p.Y269C			O43247	TEX33_HUMAN	testis expressed 33	269																	GTTTTCTCCATATTTCTCTTC	0.438													T|||	585	0.116813	0.1369	0.1801	5008	,	,		21699	0.0813		0.0885	False		,,,				2504	0.1104															0								T	CYS/TYR,CYS/TYR	661,3745	281.6+/-276.1	52,557,1594	181	174	176		806,551	0.9	0.1	22	dbSNP_119	176	671,7929	168.4+/-220.0	28,615,3657	yes	missense,missense	C22orf33	NM_001163857.1,NM_178552.3	194,194	80,1172,5251	CC,CT,TT		7.8023,15.0023,10.2414	probably-damaging,probably-damaging	269/281,184/196	37387257	1332,11674	2203	4300	6503	SO:0001583	missense	339669			BC042635	CCDS13937.1, CCDS54524.1	22q12.3	2013-10-11	2012-02-16	2012-02-16	ENSG00000185264	ENSG00000185264			28568	protein-coding gene	gene with protein product			"chromosome 22 open reading frame 33"	C22orf33		22332119	Standard	NM_178552		Approved	MGC35206, EAN57	uc003aqf.3	O43247	OTTHUMG00000150531	ENST00000405091.2:c.806A>G	22.37:g.37387257T>C	ENSP00000386118:p.Tyr269Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B1AH46|Q6ICF2|Q8IVQ2|Q9Y4V8	Missense_Mutation	SNP	ENST00000405091.2	37	CCDS54524.1	229|229	0.10485347985347986|0.10485347985347986	68|68	0.13821138211382114|0.13821138211382114	56|56	0.15469613259668508|0.15469613259668508	39|39	0.06818181818181818|0.06818181818181818	66|66	0.0870712401055409|0.0870712401055409	T|T	10.31|10.31	1.315712|1.315712	0.23908|0.23908	0.150023|0.150023	0.078023|0.078023	ENSG00000185264|ENSG00000185264	ENST00000442538|ENST00000402860;ENST00000405091;ENST00000381821	.|.	.|.	.|.	4.43|4.43	0.878|0.878	0.19150|0.19150	.|.	.|1.510860	.|0.04364	.|N	.|0.357914	T|T	0.00210|0.00210	0.0006|0.0006	L|L	0.27053|0.27053	0.805|0.805	0.49798|0.49798	P|P	1.7800000000001148E-4|1.7800000000001148E-4	.|D	.|0.61697	.|0.99	.|P	.|0.50192	.|0.634	T|T	0.08371|0.08371	-1.0725|-1.0725	4|8	.|0.59425	.|D	.|0.04	2.9586|2.9586	8.6414|8.6414	0.33978|0.33978	0.7144:0.0:0.0:0.2856|0.7144:0.0:0.0:0.2856	rs9610624;rs52812150;rs58780254;rs9610624|rs9610624;rs52812150;rs58780254;rs9610624	.|269	.|O43247	.|EAN57_HUMAN	M|C	127|184;269;269	.|.	.|ENSP00000371243:Y269C	I|Y	-|-	3|2	3|0	C22orf33|C22orf33	35717203|35717203	0.022000|0.022000	0.18835|0.18835	0.062000|0.062000	0.19696|0.19696	0.175000|0.175000	0.22909|0.22909	0.127000|0.127000	0.15790|0.15790	-0.141000|-0.141000	0.11374|0.11374	0.460000|0.460000	0.39030|0.39030	ATA|TAT		0.438	TEX33-003	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318778.2	NM_178552		C	37387257	T	C	37387257	3	2	677	1	0	0	0	0	1	0	0	0	2147	1406	49	3	40	3	C22orf33	22	37387257	Missense_Mutation	SNP	T	TCGA-KO-8406-01A-11D-2310-10	12092757	37387257	13917309	76	43728										
TUBGCP6	85378	ucsc.edu	37	chr22	50666367	50666367	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	gccaagtttcttgaagagaaAaccaatggtgaggaggctca	12	7	2	3			TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chr22:50666367A>G	ENST00000248846.5	-	5	1485	c.1381T>C	c.(1381-1383)Ttt>Ctt	p.F461L	TUBGCP6_ENST00000439308.2_Missense_Mutation_p.F461L|TUBGCP6_ENST00000491449.1_5'Flank			Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	461					G2/M transition of mitotic cell cycle (GO:0000086)|microtubule nucleation (GO:0007020)|mitotic cell cycle (GO:0000278)	centrosome (GO:0005813)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|gamma-tubulin ring complex (GO:0008274)|membrane (GO:0016020)|microtubule (GO:0005874)|spindle pole (GO:0000922)	microtubule binding (GO:0008017)			breast(4)|central_nervous_system(2)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(4)|lung(13)|ovary(3)|prostate(2)|skin(2)	45		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)		TTGAAGAGAAAACCAATGGTG	0.622																																																0													50	42	45					22																	50666367		2199	4298	6497	SO:0001583	missense	85378			AB051456	CCDS14087.1	22q13.31-q13.33	2008-07-01			ENSG00000128159	ENSG00000128159			18127	protein-coding gene	gene with protein product	"gamma-tubulin complex component 6"	610053				11694571, 11258795	Standard	XR_244458		Approved	GCP6, KIAA1669, DJ402G11.6	uc003bkb.1	Q96RT7	OTTHUMG00000030150	ENST00000248846.5:c.1381T>C	22.37:g.50666367A>G	ENSP00000248846:p.Phe461Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JZ80|Q6PJ40|Q86YE9|Q9BY91|Q9UGX3|Q9UGX4	Missense_Mutation	SNP	ENST00000248846.5	37	CCDS14087.1	.	.	.	.	.	.	.	.	.	.	A	27.8	4.861449	0.91433	.	.	ENSG00000128159	ENST00000248846;ENST00000439308	T;T	0.06849	3.25;3.25	5.44	5.44	0.79542	.	0.658896	0.16003	N	0.234200	T	0.19685	0.0473	L	0.47716	1.5	0.47308	D	0.999382	D;D	0.67145	0.991;0.996	D;D	0.63033	0.91;0.91	T	0.02966	-1.1088	10	0.20046	T	0.44	.	15.1606	0.72782	1.0:0.0:0.0:0.0	.	461;461	B2RWN4;Q96RT7	.;GCP6_HUMAN	L	461	ENSP00000248846:F461L;ENSP00000397387:F461L	ENSP00000248846:F461L	F	-	1	0	TUBGCP6	49008494	1.000000	0.71417	0.874000	0.34290	0.955000	0.61496	7.402000	0.79972	2.065000	0.61736	0.260000	0.18958	TTT		0.622	TUBGCP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075004.3	NM_020461		G	50666367	A	G	50666367	3	3	677	1	0	0	0	0	1	0	0	0	16782	14	1	3	4162	3	TUBGCP6	22	50666367	Missense_Mutation	SNP	A	TCGA-KO-8406-01A-11D-2310-10	13279110	50666367	638199	77	43729										
VCX3B	425054	mdanderson.org	37	chrX	8434368	8434368	+	Missense_Mutation	SNP	G	G	C													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	aaccactgagtcaggagagcGagatggaagaaccactgagt					rs199956874		TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chrX:8434368G>C	ENST00000381032.1	+	3	992	c.685G>C	c.(685-687)Gag>Cag	p.E229Q	VCX3B_ENST00000444481.1_Missense_Mutation_p.E199Q|VCX3B_ENST00000453306.1_Intron|VCX3B_ENST00000381029.4_Missense_Mutation_p.E197Q|VCX3B_ENST00000440654.2_Intron	NM_001001888.3	NP_001001888.3	Q9H321	VCX3B_HUMAN	variable charge, X-linked 3B	229	14 X 10 AA tandem repeats of L-S-Q-E-S- [EQ]-V-E-E-P.					nucleolus (GO:0005730)|nucleus (GO:0005634)				NS(1)|large_intestine(1)|lung(2)|prostate(1)|skin(3)|urinary_tract(3)	11						TCAGGAGAGCGAGATGGAAGA	0.552																																																0													107	224	188					X																	8434368		1821	4116	5937	SO:0001583	missense	425054				CCDS48077.1, CCDS48077.2	Xp22.31	2009-01-14			ENSG00000205642	ENSG00000205642			31838	protein-coding gene	gene with protein product							Standard	NM_001001888		Approved	VCX-C	uc011mht.2	Q9H321	OTTHUMG00000021106	ENST00000381032.1:c.685G>C	X.37:g.8434368G>C	ENSP00000370420:p.Glu229Gln	Somatic		WXS	Illumina HiSeq	Phase_I	C9JS46|Q4KN12	Missense_Mutation	SNP	ENST00000381032.1	37	CCDS48077.2	.	.	.	.	.	.	.	.	.	.	N	0.117	-1.130626	0.01756	.	.	ENSG00000205642	ENST00000381032;ENST00000444481;ENST00000381029	T;T;T	0.17213	2.29;2.29;2.29	0.601	0.601	0.17529	.	.	.	.	.	T	0.06280	0.0162	N	0.04508	-0.205	0.09310	N	1	B	0.11235	0.004	B	0.01281	0.0	T	0.44360	-0.9333	9	0.11794	T	0.64	.	6.2349	0.20758	0.0:0.3789:0.621:0.0	.	199	Q9H321	VCX3B_HUMAN	Q	229;199;197	ENSP00000370420:E229Q;ENSP00000414780:E199Q;ENSP00000370417:E197Q	ENSP00000370417:E197Q	E	+	1	0	VCX3B	8394368	0.004000	0.15560	0.001000	0.08648	0.006000	0.05464	-1.478000	0.02329	-0.223000	0.09943	-1.002000	0.02502	GAG		0.552	VCX3B-001	NOVEL	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000055691.1			C	8434368	G	C	8434368	3	2	677	1	0	0	0	0	1	0	0	0	17157	1059	37	4	605	4	VCX3B	23	8434368	Missense_Mutation	SNP	G	TCGA-KO-8406-01A-11D-2310-10		8434368	146836192	78	43730	444	2								
VCX3B	425054	mdanderson.org	37	chrX	8434371	8434371	+	Missense_Mutation	SNP	A	A	G													0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	cactgagtcaggagagcgagAtggaagaaccactgagtcag					rs113934664		TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chrX:8434371A>G	ENST00000381032.1	+	3	995	c.688A>G	c.(688-690)Atg>Gtg	p.M230V	VCX3B_ENST00000444481.1_Missense_Mutation_p.M200V|VCX3B_ENST00000453306.1_Intron|VCX3B_ENST00000381029.4_Missense_Mutation_p.M198V|VCX3B_ENST00000440654.2_Intron	NM_001001888.3	NP_001001888.3	Q9H321	VCX3B_HUMAN	variable charge, X-linked 3B	230	14 X 10 AA tandem repeats of L-S-Q-E-S- [EQ]-V-E-E-P.					nucleolus (GO:0005730)|nucleus (GO:0005634)				NS(1)|large_intestine(1)|lung(2)|prostate(1)|skin(3)|urinary_tract(3)	11						GGAGAGCGAGATGGAAGAACC	0.562													-|||	45	0.0119205	0.0257	0.0029	3775	,	,		6024	0.005		0.002	False		,,,				2504	0.002															0													110	235	197					X																	8434371		1822	4119	5941	SO:0001583	missense	425054				CCDS48077.1, CCDS48077.2	Xp22.31	2009-01-14			ENSG00000205642	ENSG00000205642			31838	protein-coding gene	gene with protein product							Standard	NM_001001888		Approved	VCX-C	uc011mht.2	Q9H321	OTTHUMG00000021106	ENST00000381032.1:c.688A>G	X.37:g.8434371A>G	ENSP00000370420:p.Met230Val	Somatic		WXS	Illumina HiSeq	Phase_I	C9JS46|Q4KN12	Missense_Mutation	SNP	ENST00000381032.1	37	CCDS48077.2	.	.	.	.	.	.	.	.	.	.	N	0	-2.811973	0.00073	.	.	ENSG00000205642	ENST00000381032;ENST00000444481;ENST00000381029	T;T;T	0.12361	2.69;2.69;2.69	0.601	-1.2	0.09554	.	.	.	.	.	T	0.06234	0.0161	N	0.14661	0.345	0.09310	N	1	B	0.09022	0.002	B	0.01281	0.0	T	0.37454	-0.9705	9	0.26408	T	0.33	.	3.1275	0.06412	0.4758:0.2846:0.2396:0.0	.	200	Q9H321	VCX3B_HUMAN	V	230;200;198	ENSP00000370420:M230V;ENSP00000414780:M200V;ENSP00000370417:M198V	ENSP00000370417:M198V	M	+	1	0	VCX3B	8394371	0.012000	0.17670	0.003000	0.11579	0.011000	0.07611	-1.907000	0.01589	-1.815000	0.01222	-1.090000	0.02178	ATG		0.562	VCX3B-001	NOVEL	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000055691.1			G	8434371	A	G	8434371	3	3	677	1	0	0	0	0	1	0	0	0	17157	333	12	3	608	3	VCX3B	23	8434371	Missense_Mutation	SNP	A	TCGA-KO-8406-01A-11D-2310-10	3	8434371	146836189	79	43731	444	2								
SMARCA1	6594	broad.mit.edu	37	chrX	128614736	128614736	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0131578947368421	1	1	0.312660393498717	2.91816367265469	0	1	1	0	tttccaggagctcaaataagCgtggtgggaaaaattgaaaa	11	5	1	1	rs375431295		TCGA-KO-8406-01A-11D-2310-10	TCGA-KO-8406-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	c29f6ed6-880d-4f03-977e-1087738e5e60	20a022aa-6b2c-4b4d-9a10-9dad1867a342	g.chrX:128614736C>T	ENST00000371122.4	-	19	2513	c.2384G>A	c.(2383-2385)cGc>cAc	p.R795H	SMARCA1_ENST00000371123.1_Missense_Mutation_p.R783H|SMARCA1_ENST00000371121.3_Missense_Mutation_p.R783H	NM_003069.3	NP_003060.2	P28370	SMCA1_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 1	795					ATP catabolic process (GO:0006200)|ATP-dependent chromatin remodeling (GO:0043044)|brain development (GO:0007420)|chromatin remodeling (GO:0006338)|DNA strand renaturation (GO:0000733)|neuron differentiation (GO:0030182)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of neural precursor cell proliferation (GO:2000177)|transcription, DNA-templated (GO:0006351)	CERF complex (GO:0090537)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|NURF complex (GO:0016589)	annealing helicase activity (GO:0036310)|ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|helicase activity (GO:0004386)			biliary_tract(1)|breast(1)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|liver(1)|lung(13)|ovary(5)|prostate(1)|skin(1)	45						CTCAAATAAGCGTGGTGGGAA	0.323																																																0								C	HIS/ARG,HIS/ARG	0,3835		0,0,1632,571	60	61	61		2384,2348	5.1	1	X		61	1,6727		0,1,2427,1872	no	missense,missense	SMARCA1	NM_003069.3,NM_139035.2	29,29	0,1,4059,2443	TT,TC,CC,C		0.0149,0.0,0.0095	probably-damaging,probably-damaging	795/1055,783/1043	128614736	1,10562	2203	4300	6503	SO:0001583	missense	6594			M88163	CCDS14612.1, CCDS76018.1, CCDS76019.1	Xq25	2008-02-05			ENSG00000102038	ENSG00000102038			11097	protein-coding gene	gene with protein product		300012		SNF2L1, SNF2L		1408766, 14609955	Standard	XM_005262461		Approved	SNF2LB, NURF140, ISWI, SWI	uc004eun.4	P28370	OTTHUMG00000022370	ENST00000371122.4:c.2384G>A	X.37:g.128614736C>T	ENSP00000360163:p.Arg795His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JV41|Q5JV42	Missense_Mutation	SNP	ENST00000371122.4	37	CCDS14612.1	.	.	.	.	.	.	.	.	.	.	C	33	5.234113	0.95207	0.0	1.49E-4	ENSG00000102038	ENST00000371121;ENST00000371123;ENST00000371122;ENST00000450039	D;D;D;D	0.92199	-2.99;-2.99;-2.98;-2.97	5.1	5.1	0.69264	ATPase, nucleosome remodelling ISWI, HAND domain (2);	0.000000	0.64402	D	0.000018	D	0.96750	0.8939	M	0.93375	3.41	0.80722	D	1	D;D;D;D	0.69078	0.997;0.997;0.996;0.997	P;P;P;P	0.60886	0.88;0.88;0.809;0.88	D	0.97940	1.0325	10	0.87932	D	0	-5.865	17.6491	0.88158	0.0:1.0:0.0:0.0	.	774;795;783;795	E9PCY3;B7ZLQ5;P28370-2;P28370	.;.;.;SMCA1_HUMAN	H	783;783;795;774	ENSP00000360162:R783H;ENSP00000360164:R783H;ENSP00000360163:R795H;ENSP00000404275:R774H	ENSP00000360162:R783H	R	-	2	0	SMARCA1	128442417	1.000000	0.71417	0.977000	0.42913	0.978000	0.69477	6.045000	0.71020	2.096000	0.63516	0.529000	0.55759	CGC		0.323	SMARCA1-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058206.1	NM_003069		T	128614736	C	T	128614736	3	4	677	1	0	0	0	0	1	0	0	0	14781	768	27	1	804	1	SMARCA1	23	128614736	Missense_Mutation	SNP	C	TCGA-KO-8406-01A-11D-2310-10	120180365	128614736	26655824	80	43732										
TAS1R3	83756	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr1	1268041	1268041	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	cccgcagtgtgactgcatcaCgctgcagaacgtgagcgcag	13	13	1	3			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr1:1268041C>T	ENST00000339381.5	+	3	1162	c.1130C>T	c.(1129-1131)aCg>aTg	p.T377M		NM_152228.1	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3	377					detection of chemical stimulus involved in sensory perception of sweet taste (GO:0001582)|G-protein coupled receptor signaling pathway (GO:0007186)|sensory perception of sweet taste (GO:0050916)|sensory perception of umami taste (GO:0050917)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	protein heterodimerization activity (GO:0046982)|taste receptor activity (GO:0008527)			kidney(2)|lung(8)|upper_aerodigestive_tract(1)|urinary_tract(1)	12	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;3.01e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.88e-21)|Colorectal(212;0.000157)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00229)|BRCA - Breast invasive adenocarcinoma(365;0.00251)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.034)|Lung(427;0.146)		GACTGCATCACGCTGCAGAAC	0.642																																																0													24	22	23					1																	1268041		2193	4292	6485	SO:0001583	missense	83756			AC026283	CCDS30556.1	1p36	2012-08-22			ENSG00000169962	ENSG00000169962		"Taste receptors / Type 1", "GPCR / Unclassified : Taste receptors"	15661	protein-coding gene	gene with protein product		605865				11319557	Standard	XM_006710939		Approved	T1R3	uc010nyk.2	Q7RTX0	OTTHUMG00000003071	ENST00000339381.5:c.1130C>T	1.37:g.1268041C>T	ENSP00000344411:p.Thr377Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TA49|Q8NGW9	Missense_Mutation	SNP	ENST00000339381.5	37	CCDS30556.1	.	.	.	.	.	.	.	.	.	.	C	5.099	0.203895	0.09704	.	.	ENSG00000169962	ENST00000339381	D	0.81996	-1.56	4.71	2.73	0.32206	Extracellular ligand-binding receptor (1);	3.801630	0.00520	N	0.000181	T	0.74520	0.3727	L	0.34521	1.04	0.09310	N	1	P	0.45212	0.853	B	0.37198	0.243	T	0.64433	-0.6409	10	0.30854	T	0.27	.	7.1638	0.25679	0.0:0.6293:0.1846:0.1861	.	377	Q7RTX0	TS1R3_HUMAN	M	377	ENSP00000344411:T377M	ENSP00000344411:T377M	T	+	2	0	TAS1R3	1257904	0.004000	0.15560	0.002000	0.10522	0.005000	0.04900	0.968000	0.29357	0.948000	0.37687	0.561000	0.74099	ACG		0.642	TAS1R3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008493.1			T	1268041	C	T	1268041	3	4	678	1	0	0	0	0	1	0	0	0	15576	536	19	1	1140	1	TAS1R3	1	1268041	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10		1268041	247982580	1	43733										
ATP13A2	23400	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	17331882	17331882	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ctctcacctctttgtctcttAtttcgataacgagtgtttcg	6	11	3	0			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr1:17331882A>G	ENST00000326735.8	-	3	308	c.275T>C	c.(274-276)aTa>aCa	p.I92T	RP1-37C10.3_ENST00000446261.1_RNA|ATP13A2_ENST00000341676.5_Missense_Mutation_p.I92T|ATP13A2_ENST00000452699.1_Missense_Mutation_p.I92T			Q9NQ11	AT132_HUMAN	ATPase type 13A2	92					cell death (GO:0008219)|cellular response to manganese ion (GO:0071287)	integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(4)|lung(11)|ovary(4)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	32		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		TTTGTCTCTTATTTCGATAAC	0.637																																																0													28	31	30					1																	17331882		2202	4299	6501	SO:0001583	missense	23400			AL354615	CCDS175.1, CCDS44072.1, CCDS44073.1	1p36	2014-09-17			ENSG00000159363	ENSG00000159363		"ATPases / P-type", "Parkinson disease"	30213	protein-coding gene	gene with protein product		610513	"Parkinson disease (autosomal recessive) 9 (Kufor-Rakeb syndrome)"	PARK9		15381061, 16964263	Standard	XM_005245809		Approved	HSA9947, CLN12	uc001baa.2	Q9NQ11	OTTHUMG00000002293	ENST00000326735.8:c.275T>C	1.37:g.17331882A>G	ENSP00000327214:p.Ile92Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O75700|Q5JXY1|Q5JXY2|Q6S9Z9	Missense_Mutation	SNP	ENST00000326735.8	37	CCDS175.1	.	.	.	.	.	.	.	.	.	.	A	6.938	0.542775	0.13250	.	.	ENSG00000159363	ENST00000326735;ENST00000341676;ENST00000452699	D;D;D	0.92545	-2.8;-3.06;-2.79	3.85	-1.4	0.08968	.	0.722701	0.12684	N	0.447692	T	0.79269	0.4417	N	0.16098	0.37	0.25600	N	0.986609	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.14023	0.01;0.001;0.001	T	0.64368	-0.6424	10	0.02654	T	1	-3.0825	8.3771	0.32449	0.654:0.0:0.346:0.0	.	92;92;92	Q5JXY1;Q6S9Z9;Q9NQ11	.;.;AT132_HUMAN	T	92	ENSP00000327214:I92T;ENSP00000341115:I92T;ENSP00000413307:I92T	ENSP00000327214:I92T	I	-	2	0	ATP13A2	17204469	0.994000	0.37717	0.993000	0.49108	0.990000	0.78478	0.255000	0.18333	-0.382000	0.07870	0.402000	0.26972	ATA		0.637	ATP13A2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000006617.1	NM_022089		G	17331882	A	G	17331882	3	3	678	1	0	0	0	0	1	0	0	0	1124	449	16	3	3611	3	ATP13A2	1	17331882	Missense_Mutation	SNP	A	TCGA-KO-8407-01A-11D-2310-10	16063841	17331882	231918739	2	43734										
HIPK1	204851	broad.mit.edu	37	chr1	114483676	114483676	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	tattaaaatcttgaagaaccAcccctcctatgccagacaag	5	12	1	3			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr1:114483676A>C	ENST00000369558.1	+	2	903	c.671A>C	c.(670-672)cAc>cCc	p.H224P	HIPK1_ENST00000426820.2_Missense_Mutation_p.H224P|HIPK1_ENST00000369561.4_Missense_Mutation_p.H224P|HIPK1_ENST00000369559.4_Missense_Mutation_p.H224P|HIPK1_ENST00000369555.2_Missense_Mutation_p.H224P|HIPK1_ENST00000369554.2_Missense_Mutation_p.H224P			Q86Z02	HIPK1_HUMAN	homeodomain interacting protein kinase 1	224	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				anterior/posterior pattern specification (GO:0009952)|definitive hemopoiesis (GO:0060216)|embryonic camera-type eye morphogenesis (GO:0048596)|embryonic retina morphogenesis in camera-type eye (GO:0060059)|endothelial cell apoptotic process (GO:0072577)|extrinsic apoptotic signaling pathway (GO:0097191)|eye development (GO:0001654)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|iris morphogenesis (GO:0061072)|lens induction in camera-type eye (GO:0060235)|neuron differentiation (GO:0030182)|positive regulation of angiogenesis (GO:0045766)|positive regulation of cell proliferation (GO:0008284)|regulation of transcription, DNA-templated (GO:0006355)|regulation of tumor necrosis factor-mediated signaling pathway (GO:0010803)|retina layer formation (GO:0010842)|smoothened signaling pathway (GO:0007224)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|PML body (GO:0016605)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(9)|lung(15)|ovary(4)|prostate(2)	39	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)		TTGAAGAACCACCCCTCCTAT	0.478																																																0													83	85	85					1																	114483676		2203	4300	6503	SO:0001583	missense	204851			AB089957	CCDS867.1, CCDS868.1, CCDS869.1, CCDS41370.1	1p13.1	2008-02-05			ENSG00000163349	ENSG00000163349			19006	protein-coding gene	gene with protein product		608003					Standard	NM_198268		Approved	KIAA0630, Myak, MGC26642, Nbak2, MGC33446, MGC33548	uc001eem.3	Q86Z02	OTTHUMG00000011983	ENST00000369558.1:c.671A>C	1.37:g.114483676A>C	ENSP00000358571:p.His224Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJ34|O75125|Q5SQL2|Q5SQL4|Q5SQL5|Q8IYD7|Q8NDN5|Q8NEB6|Q8TBZ1	Missense_Mutation	SNP	ENST00000369558.1	37	CCDS867.1	.	.	.	.	.	.	.	.	.	.	A	20.4	3.984379	0.74474	.	.	ENSG00000163349	ENST00000426820;ENST00000369559;ENST00000443627;ENST00000369554;ENST00000369555;ENST00000369558;ENST00000369561	T;T;T;T;T;T;T	0.64618	-0.11;-0.11;-0.11;-0.11;-0.11;-0.11;-0.11	5.81	5.81	0.92471	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.64402	D	0.000001	T	0.61602	0.2360	N	0.21448	0.665	0.80722	D	1	D;D	0.69078	0.997;0.988	D;D	0.81914	0.995;0.977	T	0.69756	-0.5059	10	0.87932	D	0	.	16.1738	0.81836	1.0:0.0:0.0:0.0	.	224;224	Q86Z02;Q86Z02-2	HIPK1_HUMAN;.	P	295;224;224;224;224;224;224	ENSP00000407442:H295P;ENSP00000358572:H224P;ENSP00000409673:H224P;ENSP00000358567:H224P;ENSP00000358568:H224P;ENSP00000358571:H224P;ENSP00000358574:H224P	ENSP00000358567:H224P	H	+	2	0	HIPK1	114285199	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	9.249000	0.95470	2.221000	0.72209	0.455000	0.32223	CAC		0.478	HIPK1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000033127.1	NM_198268		C	114483676	A	C	114483676	3	2	678	1	0	0	0	0	1	0	0	0	7123	159	6	5	673	5	HIPK1	1	114483676	Missense_Mutation	SNP	A	TCGA-KO-8407-01A-11D-2310-10	97151794	114483676	134766945	3	43735										
SYT11	23208	bcgsc.ca	37	chr1	155837927	155837927	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	cagcatatacccagagacccTcagcaacaagaagaaaatca	6	12	2	3			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr1:155837927T>C	ENST00000368324.4	+	2	459	c.206T>C	c.(205-207)cTc>cCc	p.L69P	SYT11_ENST00000539162.1_Intron	NM_152280.4	NP_689493.3	Q9BT88	SYT11_HUMAN	synaptotagmin XI	69					negative regulation of neurotransmitter secretion (GO:0046929)	cell junction (GO:0030054)|integral component of plasma membrane (GO:0005887)|synaptic vesicle (GO:0008021)	metal ion binding (GO:0046872)|transporter activity (GO:0005215)			breast(2)|central_nervous_system(1)|endometrium(1)|lung(12)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	20	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;0.000162)			CCAGAGACCCTCAGCAACAAG	0.517																																																0													154	140	145					1																	155837927		2203	4300	6503	SO:0001583	missense	23208			D38522	CCDS1122.1	1q22	2013-01-21			ENSG00000132718	ENSG00000132718		"Synaptotagmins"	19239	protein-coding gene	gene with protein product		608741				11543631	Standard	NM_152280		Approved	KIAA0080, MGC10881, MGC17226, DKFZp781D015	uc001fmg.3	Q9BT88	OTTHUMG00000014105	ENST00000368324.4:c.206T>C	1.37:g.155837927T>C	ENSP00000357307:p.Leu69Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q14998|Q5W0D4|Q68CT5|Q8IXU3|Q96SU2	Missense_Mutation	SNP	ENST00000368324.4	37	CCDS1122.1	.	.	.	.	.	.	.	.	.	.	T	20.6	4.015340	0.75161	.	.	ENSG00000132718	ENST00000368324	T	0.59083	0.29	5.76	5.76	0.90799	.	0.000000	0.85682	D	0.000000	T	0.64853	0.2636	L	0.50333	1.59	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	T	0.67352	-0.5692	10	0.52906	T	0.07	.	15.7349	0.77834	0.0:0.0:0.0:1.0	.	69	Q9BT88	SYT11_HUMAN	P	69	ENSP00000357307:L69P	ENSP00000357307:L69P	L	+	2	0	SYT11	154104551	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	8.013000	0.88655	2.195000	0.70347	0.533000	0.62120	CTC		0.517	SYT11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039597.1	NM_152280		C	155837927	T	C	155837927	3	2	678	1	0	0	0	0	1	0	0	0	15479	1551	54	3	212	3	SYT11	1	155837927	Missense_Mutation	SNP	T	TCGA-KO-8407-01A-11D-2310-10	41354251	155837927	93412694	4	43736										
BCAN	63827	hgsc.bcm.edu	37	chr1	156616757	156616758	+	In_Frame_Ins	INS	-	-	GGGAGG													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gactttcctgtcccggggccINSgggaggcagaggtgctggtg					rs376527030		TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr1:156616757_156616758insGGGAGG	ENST00000329117.5	+	3	592_593	c.256_257insGGGAGG	c.(256-258)cgg>cGGGAGGgg	p.86_87insEG	RP11-284F21.10_ENST00000605886.1_RNA|RP11-284F21.7_ENST00000448869.1_RNA|BCAN_ENST00000361588.5_In_Frame_Ins_p.86_87insEG	NM_021948.4	NP_068767.3	Q96GW7	PGCB_HUMAN	brevican	86	Ig-like V-type.				carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glycosaminoglycan metabolic process (GO:0030203)|hippocampus development (GO:0021766)|small molecule metabolic process (GO:0044281)	anchored component of membrane (GO:0031225)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|lysosomal lumen (GO:0043202)|proteinaceous extracellular matrix (GO:0005578)	carbohydrate binding (GO:0030246)|hyaluronic acid binding (GO:0005540)			cervix(1)|endometrium(6)|kidney(3)|large_intestine(6)|lung(29)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)	55	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTCCCGGGGCCGGGAGGCAGAG	0.708																																																0																																										SO:0001652	inframe_insertion	63827			BC027971	CCDS1149.1, CCDS1150.1	1q31	2013-05-07			ENSG00000132692	ENSG00000132692		"Immunoglobulin superfamily / V-set domain containing", "Proteoglycans / Extracellular Matrix : Hyalectans"	23059	protein-coding gene	gene with protein product	"chondroitin sulfate proteoglycan 7", "brevican proteoglycan"	600347				11054543, 11873941	Standard	NM_021948		Approved	BEHAB, MGC13038, CSPG7	uc001fpp.3	Q96GW7	OTTHUMG00000033322	ENST00000329117.5:c.257_262dupGGGAGG	1.37:g.156616758_156616763dupGGGAGG	ENSP00000331210:p.Arg86_Glu87insGluGly	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVC2|Q5SZ10|Q5T3I5|Q8TBB9|Q9HBK1|Q9HBK4	In_Frame_Ins	INS	ENST00000329117.5	37	CCDS1149.1																																																																																				0.708	BCAN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000081844.2	NM_021948		GGGAGG	156616758	-	GGGAGG	156616757	7	5	678	1	0	1	1	0	0	0	0	0	1345	643	23	0	262	0	BCAN	1	156616757	In_Frame_Ins	INS	-	TCGA-KO-8407-01A-11D-2310-10	778830	156616757	92633864	5	43737										
METTL13	51603	ucsc.edu	37	chr1	171753605	171753605	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gtggacagccccactgtgaaAccatcgcgggacaatcattt	10	12	1	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr1:171753605A>G	ENST00000361735.3	+	2	1145	c.879A>G	c.(877-879)aaA>aaG	p.K293K	METTL13_ENST00000458517.1_Silent_p.K292K|METTL13_ENST00000362019.3_Silent_p.K207K|METTL13_ENST00000367737.5_Intron	NM_015935.4	NP_057019.3	Q8N6R0	MET13_HUMAN	methyltransferase like 13	293							methyltransferase activity (GO:0008168)			breast(3)|cervix(1)|endometrium(4)|kidney(5)|large_intestine(8)|lung(17)|stomach(3)	41						CCACTGTGAAACCATCGCGGG	0.617																																																0													14	15	15					1																	171753605		2191	4267	6458	SO:0001819	synonymous_variant	51603			AF132936	CCDS1299.1, CCDS1300.1, CCDS30936.1	1q24-q25.3	2009-02-23	2009-02-23	2009-02-23	ENSG00000010165	ENSG00000010165			24248	protein-coding gene	gene with protein product			"KIAA0859"	KIAA0859		10810093, 10048485	Standard	NM_001007239		Approved	CGI-01	uc001ghz.3	Q8N6R0	OTTHUMG00000034912	ENST00000361735.3:c.879A>G	1.37:g.171753605A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NFK0|A8K6S5|O94940|Q53EZ6|Q5TGP9|Q5TGQ0|Q8N2P8|Q96J11|Q96SQ0|Q9Y2Z1|Q9Y3M6	Silent	SNP	ENST00000361735.3	37	CCDS1299.1																																																																																				0.617	METTL13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084528.5	NM_014955		G	171753605	A	G	171753605	2	3	678	1	0	0	0	0	0	0	0	1	9504	40	2	3		3	METTL13	1	171753605	Silent	SNP	A	TCGA-KO-8407-01A-11D-2310-10	15136848	171753605	77497016	6	43738										
ATP2B4	493	broad.mit.edu	37	chr1	203693038	203693039	+	Frame_Shift_Ins	INS	-	-	T													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	tggaatttgggggtaaacccINSttcagttgtacaagcctcag							TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr1:203693038_203693039insT	ENST00000357681.5	+	19	4177_4178	c.3054_3055insT	c.(3055-3057)ttcfs	p.F1019fs	ATP2B4_ENST00000391954.2_Intron|ATP2B4_ENST00000341360.2_Frame_Shift_Ins_p.F1019fs|ATP2B4_ENST00000367218.3_Frame_Shift_Ins_p.F1019fs|ATP2B4_ENST00000367219.3_Frame_Shift_Ins_p.F1007fs	NM_001684.4	NP_001675.3	P23634	AT2B4_HUMAN	ATPase, Ca++ transporting, plasma membrane 4	1019					blood coagulation (GO:0007596)|calcium ion homeostasis (GO:0055074)|calcium ion import across plasma membrane (GO:0098703)|calcium ion transmembrane transport (GO:0070588)|cellular calcium ion homeostasis (GO:0006874)|cellular response to epinephrine stimulus (GO:0071872)|ion transmembrane transport (GO:0034220)|negative regulation of adrenergic receptor signaling pathway involved in heart process (GO:1901205)|negative regulation of arginine catabolic process (GO:1900082)|negative regulation of calcineurin-NFAT signaling cascade (GO:0070885)|negative regulation of cardiac muscle hypertrophy in response to stress (GO:1903243)|negative regulation of citrulline biosynthetic process (GO:1903249)|negative regulation of nitric oxide biosynthetic process (GO:0045019)|negative regulation of nitric oxide mediated signal transduction (GO:0010751)|negative regulation of nitric-oxide synthase activity (GO:0051001)|negative regulation of peptidyl-cysteine S-nitrosylation (GO:1902083)|negative regulation of the force of heart contraction (GO:0098736)|positive regulation of cAMP-dependent protein kinase activity (GO:2000481)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|regulation of sodium ion transmembrane transport (GO:1902305)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to hydrostatic pressure (GO:0051599)|transmembrane transport (GO:0055085)	caveola (GO:0005901)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|T-tubule (GO:0030315)|Z disc (GO:0030018)	ATP binding (GO:0005524)|calcium-transporting ATPase activity (GO:0005388)|calmodulin binding (GO:0005516)|metal ion binding (GO:0046872)|nitric-oxide synthase binding (GO:0050998)|protein phosphatase 2B binding (GO:0030346)|scaffold protein binding (GO:0097110)			NS(1)|breast(1)|central_nervous_system(2)|cervix(2)|endometrium(5)|kidney(2)|large_intestine(10)|lung(20)|ovary(2)|prostate(6)|skin(1)|stomach(1)|urinary_tract(3)	56	all_cancers(21;0.071)|all_epithelial(62;0.228)		BRCA - Breast invasive adenocarcinoma(75;0.109)			GGGGTAAACCCTTCAGTTGTAC	0.545																																																0																																										SO:0001589	frameshift_variant	493			M25874	CCDS1440.1, CCDS30977.1	1q32.1	2010-04-20	2005-05-26		ENSG00000058668	ENSG00000058668	3.6.3.8	"ATPases / P-type"	817	protein-coding gene	gene with protein product	"plasma membrane calcium-transporting ATPase 4"	108732	"matrix-remodelling associated 1"	ATP2B2, MXRA1		1674727	Standard	NM_001001396		Approved	PMCA4	uc001gzw.3	P23634	OTTHUMG00000035906	ENST00000357681.5:c.3056dupT	1.37:g.203693040_203693040dupT	ENSP00000350310:p.Phe1019fs	Somatic		WXS	Illumina HiSeq	Phase_I	B1APW5|B1APW6|Q13450|Q13452|Q13455|Q16817|Q7Z3S1	Frame_Shift_Ins	INS	ENST00000357681.5	37	CCDS1440.1																																																																																				0.545	ATP2B4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087462.1	NM_001001396		T	203693039	-	T	203693038	7	5	678	1	0	1	1	0	0	0	0	0	1142	668	24	0	3124	0	ATP2B4	1	203693038	Frame_Shift_Ins	INS	-	TCGA-KO-8407-01A-11D-2310-10	31939433	203693038	45557583	7	43739										
EIF5B	9669	bcgsc.ca	37	chr2	99995848	99995848	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	acaaattggggccaccaatgTtcctcttgaagctattaatg	8	9	1	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr2:99995848T>C	ENST00000289371.6	+	12	2220	c.2018T>C	c.(2017-2019)gTt>gCt	p.V673A		NM_015904.3	NP_056988.3	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	673	tr-type G. {ECO:0000255|PROSITE- ProRule:PRU01059}.				cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|regulation of translational initiation (GO:0006446)|translation (GO:0006412)|translational initiation (GO:0006413)	cytosol (GO:0005829)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|poly(A) RNA binding (GO:0044822)|translation initiation factor activity (GO:0003743)			breast(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(13)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	31						GCCACCAATGTTCCTCTTGAA	0.343																																					Colon(162;2388 2567 2705 3444)											0													104	94	97					2																	99995848		1868	4103	5971	SO:0001583	missense	9669			AF078035	CCDS42721.1	2q11.2	2012-09-20			ENSG00000158417	ENSG00000158417			30793	protein-coding gene	gene with protein product	"translation initiation factor IF2"	606086				10200264, 10432305	Standard	XM_005264075		Approved	IF2, KIAA0741, DKFZp434I036, FLJ10524	uc002tab.3	O60841	OTTHUMG00000153242	ENST00000289371.6:c.2018T>C	2.37:g.99995848T>C	ENSP00000289371:p.Val673Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O95805|Q53RV7|Q53SI8|Q9UF81|Q9UMN7	Missense_Mutation	SNP	ENST00000289371.6	37	CCDS42721.1	.	.	.	.	.	.	.	.	.	.	T	28.7	4.942866	0.92526	.	.	ENSG00000158417	ENST00000289371	T	0.76839	-1.05	5.78	5.78	0.91487	Small GTP-binding protein domain (1);Protein synthesis factor, GTP-binding (1);	.	.	.	.	D	0.89125	0.6626	M	0.86651	2.83	0.80722	D	1	D	0.64830	0.994	D	0.69479	0.964	D	0.90314	0.4339	8	.	.	.	-24.6168	16.1127	0.81273	0.0:0.0:0.0:1.0	.	673	O60841	IF2P_HUMAN	A	673	ENSP00000289371:V673A	.	V	+	2	0	EIF5B	99362280	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	7.717000	0.84732	2.212000	0.71576	0.260000	0.18958	GTT		0.343	EIF5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000330364.2	NM_015904		C	99995848	T	C	99995848	3	2	678	1	0	0	0	0	1	0	0	0	5046	1725	60	3	2064	3	EIF5B	2	99995848	Missense_Mutation	SNP	T	TCGA-KO-8407-01A-11D-2310-10		99995848	143203525	8	43740										
C2orf49	79074	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	105956200	105956200	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	acatgagattaaaaatgagaCtaaaaggtactttttggtgg	10	3	0	2			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr2:105956200C>A	ENST00000258457.2	+	2	489	c.260C>A	c.(259-261)aCt>aAt	p.T87N	RP11-332H14.2_ENST00000610036.1_lincRNA|C2orf49_ENST00000410049.1_Missense_Mutation_p.T87N|C2orf49_ENST00000437250.2_Missense_Mutation_p.T125N			Q9BVC5	ASHWN_HUMAN	chromosome 2 open reading frame 49	87					embryonic morphogenesis (GO:0048598)	tRNA-splicing ligase complex (GO:0072669)				endometrium(1)|kidney(1)|large_intestine(3)|lung(1)	6						AAAAATGAGACTAAAAGGTAC	0.308																																																0													63	66	65					2																	105956200		2203	4300	6503	SO:0001583	missense	79074			BC001310	CCDS2068.1, CCDS74550.1	2q12.2	2009-04-22			ENSG00000135974	ENSG00000135974			28772	protein-coding gene	gene with protein product	"ashwin"					12477932	Standard	NM_001286537		Approved	MGC5509, asw	uc002tcs.1	Q9BVC5	OTTHUMG00000130808	ENST00000258457.2:c.260C>A	2.37:g.105956200C>A	ENSP00000258457:p.Thr87Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXN3|B4E2G9	Missense_Mutation	SNP	ENST00000258457.2	37	CCDS2068.1	.	.	.	.	.	.	.	.	.	.	C	9.774	1.173471	0.21704	.	.	ENSG00000135974	ENST00000258457;ENST00000437250;ENST00000410049	T;T;T	0.47177	0.85;0.85;0.85	5.57	2.6	0.31112	.	0.638126	0.16883	N	0.195629	T	0.24812	0.0602	N	0.22421	0.69	0.09310	N	0.999992	B;B	0.02656	0.0;0.0	B;B	0.04013	0.0;0.001	T	0.07751	-1.0756	10	0.16896	T	0.51	-2.0156	1.54	0.02553	0.2836:0.4246:0.1153:0.1765	.	125;87	B4E2G9;Q9BVC5	.;ASHWN_HUMAN	N	87;125;87	ENSP00000258457:T87N;ENSP00000400208:T125N;ENSP00000386361:T87N	ENSP00000258457:T87N	T	+	2	0	C2orf49	105322632	0.001000	0.12720	0.948000	0.38648	0.996000	0.88848	0.345000	0.19979	1.366000	0.46076	0.585000	0.79938	ACT		0.308	C2orf49-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253353.2	NM_024093		A	105956200	C	A	105956200	3	1	678	1	0	0	0	0	1	0	0	0	2173	565	20	4	266	4	C2orf49	2	105956200	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10	5960352	105956200	137243173	9	43741										
NDUFS1	4719	broad.mit.edu	37	chr2	206988916	206988916	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	cctagtagaagcttcagcatAtggatggttcctctactgcc	9	11	2	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr2:206988916A>G	ENST00000233190.6	-	19	2443	c.2177T>C	c.(2176-2178)aTa>aCa	p.I726T	AC007383.4_ENST00000453039.1_RNA|NDUFS1_ENST00000455934.2_Missense_Mutation_p.I740T|NDUFS1_ENST00000457011.1_Missense_Mutation_p.I610T|NDUFS1_ENST00000440274.1_Missense_Mutation_p.I690T|NDUFS1_ENST00000449699.1_Missense_Mutation_p.I726T|NDUFS1_ENST00000423725.1_Missense_Mutation_p.I669T|NDUFS1_ENST00000432169.1_Missense_Mutation_p.I615T	NM_005006.6	NP_004997.4	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1, 75kDa (NADH-coenzyme Q reductase)	726					apoptotic mitochondrial changes (GO:0008637)|ATP metabolic process (GO:0046034)|cellular metabolic process (GO:0044237)|cellular respiration (GO:0045333)|mitochondrial electron transport, NADH to ubiquinone (GO:0006120)|reactive oxygen species metabolic process (GO:0072593)|regulation of mitochondrial membrane potential (GO:0051881)|respiratory electron transport chain (GO:0022904)|small molecule metabolic process (GO:0044281)	mitochondrial inner membrane (GO:0005743)|mitochondrial intermembrane space (GO:0005758)|mitochondrial respiratory chain complex I (GO:0005747)	2 iron, 2 sulfur cluster binding (GO:0051537)|4 iron, 4 sulfur cluster binding (GO:0051539)|electron carrier activity (GO:0009055)|metal ion binding (GO:0046872)|NADH dehydrogenase (ubiquinone) activity (GO:0008137)			breast(1)|central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(7)|lung(15)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	38						GCTTCAGCATATGGATGGTTC	0.408																																																0													116	97	104					2																	206988916		2203	4300	6503	SO:0001583	missense	4719				CCDS2366.1, CCDS56162.1, CCDS56163.1, CCDS56164.1, CCDS56165.1	2q33-q34	2011-07-04	2002-08-29		ENSG00000023228	ENSG00000023228	1.6.5.3	"Mitochondrial respiratory chain complex / Complex I"	7707	protein-coding gene	gene with protein product	"complex I 75kDa subunit", "NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial"	157655	"NADH dehydrogenase (ubiquinone) Fe-S protein 1 (75kD) (NADH-coenzyme Q reductase)"			1935949	Standard	NM_005006		Approved	CI-75k	uc010ziq.2	P28331	OTTHUMG00000132892	ENST00000233190.6:c.2177T>C	2.37:g.206988916A>G	ENSP00000233190:p.Ile726Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DIN9|B4DJA0|B4DPG1|B4DUC1|E7ENF3|Q53TR8|Q8N1C4|Q8TCC9	Missense_Mutation	SNP	ENST00000233190.6	37	CCDS2366.1	.	.	.	.	.	.	.	.	.	.	A	14.68	2.608040	0.46527	.	.	ENSG00000023228	ENST00000233190;ENST00000423725;ENST00000457011;ENST00000440274;ENST00000455934;ENST00000449699;ENST00000432169	D;D;D;D;D;D;D	0.88431	-2.35;-2.33;-2.23;-2.24;-2.38;-2.35;-2.23	5.26	5.26	0.73747	.	0.137318	0.64402	D	0.000007	D	0.83510	0.5270	L	0.36672	1.1	0.47407	D	0.99941	B;B;B;B	0.25955	0.138;0.049;0.025;0.007	B;B;B;B	0.19666	0.022;0.026;0.013;0.013	T	0.81996	-0.0676	10	0.72032	D	0.01	-10.7223	12.3475	0.55130	0.8595:0.1405:0.0:0.0	.	615;690;740;726	B4DPG1;E7ENF3;B4DJA0;P28331	.;.;.;NDUS1_HUMAN	T	726;669;610;690;740;726;615	ENSP00000233190:I726T;ENSP00000397760:I669T;ENSP00000400976:I610T;ENSP00000409766:I690T;ENSP00000392709:I740T;ENSP00000399912:I726T;ENSP00000409689:I615T	ENSP00000233190:I726T	I	-	2	0	NDUFS1	206697161	1.000000	0.71417	1.000000	0.80357	0.846000	0.48090	5.774000	0.68906	1.988000	0.58038	0.460000	0.39030	ATA		0.408	NDUFS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256391.4	NM_005006		G	206988916	A	G	206988916	3	3	678	1	0	0	0	0	1	0	0	0	10298	449	16	3	10	3	NDUFS1	2	206988916	Missense_Mutation	SNP	A	TCGA-KO-8407-01A-11D-2310-10	101032716	206988916	36210457	10	43742										
KIF1A	547	ucsc.edu	37	chr2	241697840	241697840	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ctccgccggtcaccacgttgTcacagtcctcgatgacactg	9	16	2	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr2:241697840T>C	ENST00000320389.7	-	25	2650	c.2492A>G	c.(2491-2493)gAc>gGc	p.D831G	KIF1A_ENST00000498729.2_Missense_Mutation_p.D840G	NM_004321.6	NP_004312.2	Q12756	KIF1A_HUMAN	kinesin family member 1A	831					anterograde axon cargo transport (GO:0008089)|ATP catabolic process (GO:0006200)|cell death (GO:0008219)|cytoskeleton-dependent intracellular transport (GO:0030705)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|motor activity (GO:0003774)|plus-end-directed microtubule motor activity (GO:0008574)			NS(1)|central_nervous_system(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(8)|lung(25)|ovary(1)|prostate(5)|skin(2)|urinary_tract(1)	66		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)		CACCACGTTGTCACAGTCCTC	0.642																																																0													63	73	70					2																	241697840		2166	4261	6427	SO:0001583	missense	547			AF004425	CCDS46561.1, CCDS58757.1	2q37.2	2014-09-17	2004-01-09	2004-01-14	ENSG00000130294	ENSG00000130294		"Kinesins", "Pleckstrin homology (PH) domain containing"	888	protein-coding gene	gene with protein product		601255	"axonal transport of synaptic vesicles", "chromosome 2 open reading frame 20", "spastic paraplegia 30 (autosomal recessive)"	ATSV, C2orf20, SPG30		7539720, 10323250, 22258533	Standard	NM_001244008		Approved	UNC104	uc010fzk.3	Q12756	OTTHUMG00000151940	ENST00000320389.7:c.2492A>G	2.37:g.241697840T>C	ENSP00000322791:p.Asp831Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1S5|F5H045|O95068|Q13355|Q14752|Q2NKJ6|Q4LE42|Q53T78|Q59GH1|Q63Z40|Q6P1R9|Q7KZ57	Missense_Mutation	SNP	ENST00000320389.7	37	CCDS46561.1	.	.	.	.	.	.	.	.	.	.	T	21.6	4.166941	0.78339	.	.	ENSG00000130294	ENST00000320389;ENST00000498729;ENST00000373308;ENST00000404283	T;T;T	0.78707	-1.2;-1.2;-1.2	5.28	5.28	0.74379	.	0.060427	0.64402	U	0.000005	T	0.71400	0.3335	L	0.36672	1.1	0.80722	D	1	B;P;B	0.40875	0.125;0.731;0.033	B;B;B	0.41946	0.173;0.371;0.077	T	0.70026	-0.4985	10	0.28530	T	0.3	.	14.8408	0.70223	0.0:0.0:0.0:1.0	.	840;840;831	F5H045;Q12756-2;Q12756	.;.;KIF1A_HUMAN	G	831;840;840;840	ENSP00000322791:D831G;ENSP00000438388:D840G;ENSP00000384231:D840G	ENSP00000322791:D831G	D	-	2	0	KIF1A	241346513	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	6.043000	0.71004	1.999000	0.58509	0.482000	0.46254	GAC		0.642	KIF1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324536.3	NM_138483		C	241697840	T	C	241697840	3	2	678	1	0	0	0	0	1	0	0	0	8290	1667	58	3	2672	3	KIF1A	2	241697840	Missense_Mutation	SNP	T	TCGA-KO-8407-01A-11D-2310-10	34708924	241697840	1501533	11	43743										
VILL	50853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	38040486	38040486	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gagtcggccgcgttcaagcaGctcttccggacttggtctga	13	12	3	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr3:38040486G>T	ENST00000283713.6	+	10	1292	c.1026G>T	c.(1024-1026)caG>caT	p.Q342H	VILL_ENST00000383759.2_Missense_Mutation_p.Q342H|VILL_ENST00000465644.1_Missense_Mutation_p.Q60H			O15195	VILL_HUMAN	villin-like	342					actin filament capping (GO:0051693)|cytoskeleton organization (GO:0007010)	actin cytoskeleton (GO:0015629)	structural constituent of cytoskeleton (GO:0005200)			cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(5)|liver(1)|lung(7)|ovary(1)|pancreas(1)|prostate(3)|stomach(3)|urinary_tract(2)	28				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		CGTTCAAGCAGCTCTTCCGGA	0.706																																																0													21	21	21					3																	38040486		2197	4293	6490	SO:0001583	missense	50853				CCDS2670.2	3p21	2004-07-28			ENSG00000136059	ENSG00000136059			30906	protein-coding gene	gene with protein product						9179494	Standard	XM_005265191		Approved		uc003chl.3	O15195	OTTHUMG00000130814	ENST00000283713.6:c.1026G>T	3.37:g.38040486G>T	ENSP00000283713:p.Gln342His	Somatic		WXS	Illumina HiSeq	Phase_I	A8MZP1|Q9BT80|Q9BWH7	Missense_Mutation	SNP	ENST00000283713.6	37	CCDS2670.2	.	.	.	.	.	.	.	.	.	.	G	15.18	2.756925	0.49362	.	.	ENSG00000136059	ENST00000283713;ENST00000383759;ENST00000356246;ENST00000465644	T;T;T	0.31769	1.48;1.48;1.48	3.97	2.07	0.26955	.	0.331612	0.34133	N	0.004226	T	0.45256	0.1333	M	0.82716	2.605	0.32969	D	0.522115	D;P	0.52996	0.957;0.937	P;P	0.55667	0.781;0.533	T	0.56950	-0.7894	10	0.59425	D	0.04	-9.0365	5.5574	0.17123	0.1793:0.0:0.6603:0.1604	.	328;342	O15195-2;O15195	.;VILL_HUMAN	H	342;342;328;60	ENSP00000283713:Q342H;ENSP00000373266:Q342H;ENSP00000422096:Q60H	ENSP00000283713:Q342H	Q	+	3	2	VILL	38015490	1.000000	0.71417	0.997000	0.53966	0.292000	0.27327	0.696000	0.25541	0.407000	0.25591	-0.350000	0.07774	CAG		0.706	VILL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253360.3	NM_015873		T	38040486	G	T	38040486	3	4	678	1	0	0	0	0	1	0	0	0	17177	962	34	4	1060	4	VILL	3	38040486	Missense_Mutation	SNP	G	TCGA-KO-8407-01A-11D-2310-10		38040486	159981944	12	43744										
MYRIP	25924	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	40211564	40211564	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	cagcatcccctggaggctacCgtgctcccgctgccctctgg	11	18	1	0	rs142520074		TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr3:40211564C>T	ENST00000302541.6	+	8	1195	c.853C>T	c.(853-855)Cgt>Tgt	p.R285C	MYRIP_ENST00000425621.1_Missense_Mutation_p.R285C|MYRIP_ENST00000444716.1_Missense_Mutation_p.R285C|MYRIP_ENST00000396217.3_Missense_Mutation_p.R196C|MYRIP_ENST00000539167.1_Missense_Mutation_p.R98C|MYRIP_ENST00000459828.1_3'UTR	NM_001284423.1|NM_001284426.1|NM_015460.2	NP_001271352.1|NP_001271355.1|NP_056275.2	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	285	Myosin-binding.				intracellular protein transport (GO:0006886)|positive regulation of insulin secretion (GO:0032024)	actin cytoskeleton (GO:0015629)|dense core granule (GO:0031045)|exocyst (GO:0000145)|melanosome (GO:0042470)|perinuclear region of cytoplasm (GO:0048471)|photoreceptor outer segment (GO:0001750)|synapse (GO:0045202)	zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(9)|liver(2)|lung(10)|ovary(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	34				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)		TGGAGGCTACCGTGCTCCCGC	0.587																																																0								C	CYS/ARG	0,4406		0,0,2203	82	73	76		853	2.7	0	3	dbSNP_134	76	1,8599	1.2+/-3.3	0,1,4299	no	missense	MYRIP	NM_015460.2	180	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	285/860	40211564	1,13005	2203	4300	6503	SO:0001583	missense	25924			AF396687	CCDS2689.1, CCDS68390.1, CCDS68391.1, CCDS68392.1	3p21.33	2010-08-20			ENSG00000170011	ENSG00000170011		"A-kinase anchor proteins"	19156	protein-coding gene	gene with protein product	"synaptotagmin-like protein homologue lacking C2 domains-c", "rab effector MYRIP", "Slp homologue lacking C2 domains"	611790				11964381, 12221080	Standard	NM_001284425		Approved	DKFZp586F1018, exophilin-8, MyRIP, SLAC2-C, SLAC2C	uc003cka.3	Q8NFW9	OTTHUMG00000131392	ENST00000302541.6:c.853C>T	3.37:g.40211564C>T	ENSP00000301972:p.Arg285Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWM3|B3KWW4|B7Z2H1|B7Z9V3|G3XAI8|Q32M41|Q32M42|Q569F7|Q8IUF5|Q9Y3V4	Missense_Mutation	SNP	ENST00000302541.6	37	CCDS2689.1	.	.	.	.	.	.	.	.	.	.	C	14.04	2.416632	0.42918	0.0	1.16E-4	ENSG00000170011	ENST00000444716;ENST00000302541;ENST00000425621;ENST00000396217;ENST00000539167	T;T;T;T;T	0.29142	1.58;1.58;1.58;1.58;1.58	4.56	2.65	0.31530	Myelin-associated oligodendrocytic basic protein (MOBP) (1);	2.435180	0.01566	N	0.020350	T	0.38612	0.1047	N	0.24115	0.695	0.09310	N	1	D;P;P	0.71674	0.998;0.876;0.938	P;B;P	0.57244	0.816;0.311;0.448	T	0.33854	-0.9852	9	.	.	.	.	9.6442	0.39857	0.3937:0.6063:0.0:0.0	.	196;285;285	Q32M42;G3XAI8;Q8NFW9	.;.;MYRIP_HUMAN	C	285;285;285;196;98	ENSP00000398665:R285C;ENSP00000301972:R285C;ENSP00000389323:R285C;ENSP00000379519:R196C;ENSP00000438297:R98C	.	R	+	1	0	MYRIP	40186568	0.000000	0.05858	0.001000	0.08648	0.001000	0.01503	0.057000	0.14279	0.407000	0.25591	-0.314000	0.08810	CGT		0.587	MYRIP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254181.2	NM_015460		T	40211564	C	T	40211564	3	4	678	1	0	0	0	0	1	0	0	0	10107	652	23	1	879	1	MYRIP	3	40211564	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10	2171078	40211564	157810866	13	43745										
ASTE1	28990	mdanderson.org;bcgsc.ca	37	chr3	130743262	130743262	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ctgggactgttggtattcttCcatggaacagcagagaagtt	12	7	1	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr3:130743262C>T	ENST00000264992.3	-	3	1330	c.889G>A	c.(889-891)Gaa>Aaa	p.E297K	ASTE1_ENST00000514044.1_Missense_Mutation_p.E297K|NEK11_ENST00000510688.1_5'Flank|NEK11_ENST00000356918.4_5'Flank|NEK11_ENST00000511262.1_5'Flank|NEK11_ENST00000510769.1_5'Flank|NEK11_ENST00000429253.2_5'Flank|NEK11_ENST00000383366.4_5'Flank|NEK11_ENST00000412440.2_5'Flank	NM_014065.2	NP_054784.2	Q2TB18	ASTE1_HUMAN	asteroid homolog 1 (Drosophila)	297					DNA repair (GO:0006281)		nuclease activity (GO:0004518)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(6)|ovary(2)|prostate(1)	22						TGGTATTCTTCCATGGAACAG	0.428																																																0													143	139	140					3																	130743262		2203	4300	6503	SO:0001583	missense	28990			AF113539	CCDS3068.1, CCDS75007.1	3q21.3	2005-11-17			ENSG00000034533	ENSG00000034533			25021	protein-coding gene	gene with protein product							Standard	NM_014065		Approved	HT001	uc003env.1	Q2TB18	OTTHUMG00000159644	ENST00000264992.3:c.889G>A	3.37:g.130743262C>T	ENSP00000264992:p.Glu297Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFL9|Q3MIB6|Q8N6G4|Q96JY1|Q9UHX6	Missense_Mutation	SNP	ENST00000264992.3	37	CCDS3068.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	15.02|15.02	2.709772|2.709772	0.48517|0.48517	.|.	.|.	ENSG00000034533|ENSG00000034533	ENST00000514044;ENST00000264992;ENST00000446270|ENST00000505290	.|.	.|.	.|.	5.64|5.64	3.82|3.82	0.43975|0.43975	.|.	0.242923|.	0.48286|.	N|.	0.000197|.	T|.	0.60170|.	0.2248|.	L|L	0.53249|0.53249	1.67|1.67	0.40900|0.40900	D|D	0.984147|0.984147	P;B|.	0.37061|.	0.58;0.426|.	B;B|.	0.37550|.	0.253;0.187|.	T|.	0.57142|.	-0.7862|.	9|.	0.22109|.	T|.	0.4|.	-7.5697|-7.5697	10.9797|10.9797	0.47486|0.47486	0.0:0.7994:0.1301:0.0705|0.0:0.7994:0.1301:0.0705	.|.	297;297|.	D6RG30;Q2TB18|.	.;ASTE1_HUMAN|.	K|X	297|11	.|.	ENSP00000264992:E297K|.	E|W	-|-	1|3	0|0	ASTE1|ASTE1	132225952|132225952	1.000000|1.000000	0.71417|0.71417	0.989000|0.989000	0.46669|0.46669	0.964000|0.964000	0.63967|0.63967	1.683000|1.683000	0.37638|0.37638	0.718000|0.718000	0.32166|0.32166	-0.258000|-0.258000	0.10820|0.10820	GAA|TGG		0.428	ASTE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356659.1	NM_014065		T	130743262	C	T	130743262	3	4	678	1	0	0	0	0	1	0	0	0	1062	864	30	2	1166	2	ASTE1	3	130743262	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10	90531698	130743262	67279168	14	43746										
CCNL1	57018	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	156866283	156866283	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ccttaaggtgaggagaaccaTgattatgatgtcttcgaggg	13	6	1	4			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr3:156866283T>C	ENST00000295926.3	-	11	1446	c.1328A>G	c.(1327-1329)cAt>cGt	p.H443R	CCNL1_ENST00000479052.1_5'Flank|CCNL1_ENST00000461804.1_Intron	NM_020307.2	NP_064703.1	Q9UK58	CCNL1_HUMAN	cyclin L1	443					regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of transcription, DNA-templated (GO:0006355)|RNA processing (GO:0006396)|transcription, DNA-templated (GO:0006351)	nuclear speck (GO:0016607)|nucleus (GO:0005634)				NS(1)|breast(1)|cervix(2)|kidney(1)|large_intestine(3)|lung(8)|skin(1)|stomach(1)	18			LUSC - Lung squamous cell carcinoma(72;0.0295)|Lung(72;0.0308)			AGGAGAACCATGATTATGATG	0.433																																																0													191	192	192					3																	156866283		2203	4300	6503	SO:0001583	missense	57018			AF180920	CCDS3178.1	3q25.31	2008-02-05			ENSG00000163660	ENSG00000163660			20569	protein-coding gene	gene with protein product		613384				11980906	Standard	NM_020307		Approved	ania-6a	uc003fbf.3	Q9UK58	OTTHUMG00000158713	ENST00000295926.3:c.1328A>G	3.37:g.156866283T>C	ENSP00000295926:p.His443Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B3KMY3|Q6NVY9|Q6UWS7|Q8NI48|Q96QT0|Q9NZF3	Missense_Mutation	SNP	ENST00000295926.3	37	CCDS3178.1	.	.	.	.	.	.	.	.	.	.	T	13.52	2.260717	0.39995	.	.	ENSG00000163660	ENST00000295926	T	0.17854	2.25	5.0	5.0	0.66597	.	0.048329	0.85682	D	0.000000	T	0.13243	0.0321	N	0.21373	0.66	0.80722	D	1	P	0.37466	0.596	B	0.37888	0.26	T	0.13980	-1.0489	10	0.23891	T	0.37	-14.4614	15.0209	0.71630	0.0:0.0:0.0:1.0	.	443	Q9UK58	CCNL1_HUMAN	R	443	ENSP00000295926:H443R	ENSP00000295926:H443R	H	-	2	0	CCNL1	158348977	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.079000	0.64431	1.993000	0.58246	0.455000	0.32223	CAT		0.433	CCNL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351859.1	NM_020307		C	156866283	T	C	156866283	3	2	678	1	0	0	0	0	1	0	0	0	2933	1464	51	3	256	3	CCNL1	3	156866283	Missense_Mutation	SNP	T	TCGA-KO-8407-01A-11D-2310-10	26123021	156866283	41156147	15	43747										
DCUN1D4	23142	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr4	52779712	52779712	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	cagggccagttttgttggacGagtttgtggagtggtataaa	15	4	0	0			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr4:52779712G>A	ENST00000334635.5	+	11	1021	c.841G>A	c.(841-843)Gag>Aag	p.E281K	DCUN1D4_ENST00000381441.3_Missense_Mutation_p.E246K|DCUN1D4_ENST00000381437.4_Missense_Mutation_p.E221K|DCUN1D4_ENST00000451288.2_Missense_Mutation_p.E325K	NM_001040402.1	NP_001035492.1	Q92564	DCNL4_HUMAN	DCN1, defective in cullin neddylation 1, domain containing 4	281	DCUN1. {ECO:0000255|PROSITE- ProRule:PRU00574}.					nucleus (GO:0005634)				endometrium(2)|large_intestine(2)|lung(2)|ovary(2)|skin(1)	9			GBM - Glioblastoma multiforme(4;1.93e-11)|LUSC - Lung squamous cell carcinoma(32;0.00654)			TTTGTTGGACGAGTTTGTGGA	0.373																																																0													101	99	100					4																	52779712		2203	4300	6503	SO:0001583	missense	23142			D87466	CCDS3487.2, CCDS33982.1, CCDS75123.1	4q11	2013-06-10	2013-06-10		ENSG00000109184	ENSG00000109184			28998	protein-coding gene	gene with protein product		612977	"DCN1, defective in cullin neddylation 1, domain containing 4 (S. cerevisiae)"			15988528	Standard	XM_005265731		Approved	KIAA0276	uc003gze.3	Q92564	OTTHUMG00000128700	ENST00000334635.5:c.841G>A	4.37:g.52779712G>A	ENSP00000334625:p.Glu281Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DH25|Q7Z3F3|Q7Z6B8	Missense_Mutation	SNP	ENST00000334635.5	37	CCDS33982.1	.	.	.	.	.	.	.	.	.	.	G	29.3	4.992205	0.93167	.	.	ENSG00000109184	ENST00000334635;ENST00000381441;ENST00000381437;ENST00000451288;ENST00000510808	.	.	.	6.02	6.02	0.97574	Domain of unknown function DUF298 (2);	0.000000	0.85682	D	0.000000	D	0.87597	0.6217	H	0.94423	3.535	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.81914	0.99;0.995;0.993	D	0.89852	0.4010	9	0.72032	D	0.01	-18.733	19.5352	0.95251	0.0:0.0:1.0:0.0	.	325;246;281	B4DH25;Q92564-2;Q92564	.;.;DCNL4_HUMAN	K	281;246;221;325;91	.	ENSP00000334625:E281K	E	+	1	0	DCUN1D4	52474469	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.813000	0.99286	2.850000	0.98022	0.650000	0.86243	GAG		0.373	DCUN1D4-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000250599.2	NM_015115		A	52779712	G	A	52779712	3	1	678	1	0	0	0	0	1	0	0	0	4318	1059	37	1	883	1	DCUN1D4	4	52779712	Missense_Mutation	SNP	G	TCGA-KO-8407-01A-11D-2310-10		52779712	138374564	16	43748										
DNAH5	1767	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr5	13708238	13708238	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	aggcttatacgtacttttttCcaccaagcagggattctagc	8	10	1	0			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr5:13708238C>T	ENST00000265104.4	-	76	13436	c.13332G>A	c.(13330-13332)tgG>tgA	p.W4444*		NM_001369.2	NP_001360.1	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	4444					cilium movement (GO:0003341)|lateral ventricle development (GO:0021670)|left/right axis specification (GO:0070986)	axonemal dynein complex (GO:0005858)|axoneme (GO:0005930)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(6)|breast(14)|central_nervous_system(4)|cervix(2)|endometrium(23)|haematopoietic_and_lymphoid_tissue(8)|kidney(11)|large_intestine(85)|liver(1)|lung(129)|ovary(16)|pancreas(2)|prostate(5)|skin(48)|stomach(5)|upper_aerodigestive_tract(11)|urinary_tract(8)	378	Lung NSC(4;0.00476)					GTACTTTTTTCCACCAAGCAG	0.403									Kartagener syndrome																																							0													175	162	166					5																	13708238		2203	4300	6503	SO:0001587	stop_gained	1767	Familial Cancer Database	Ciliary Dyskinesia, Primary (CILD1 - CILD13), Immotile Cilia Syndrome	AJ132090	CCDS3882.1	5p15.2	2008-07-18	2006-09-04		ENSG00000039139	ENSG00000039139		"Axonemal dyneins"	2950	protein-coding gene	gene with protein product	"dynein heavy chain 5"	603335	"dynein, axonemal, heavy polypeptide 5"			9256245, 11788826	Standard	NM_001369		Approved	Dnahc5, HL1, PCD, CILD3, KTGNR	uc003jfd.2	Q8TE73	OTTHUMG00000090533	ENST00000265104.4:c.13332G>A	5.37:g.13708238C>T	ENSP00000265104:p.Trp4444*	Somatic		WXS	Illumina HiSeq	Phase_I	Q92860|Q96L74|Q9H5S7|Q9HCG9	Nonsense_Mutation	SNP	ENST00000265104.4	37	CCDS3882.1	.	.	.	.	.	.	.	.	.	.	C	55	24.226362	0.99959	.	.	ENSG00000039139	ENST00000265104	.	.	.	5.08	5.08	0.68730	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	18.8429	0.92192	0.0:1.0:0.0:0.0	.	.	.	.	X	4444	.	ENSP00000265104:W4444X	W	-	3	0	DNAH5	13761238	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.642000	0.83385	2.521000	0.84997	0.655000	0.94253	TGG		0.403	DNAH5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207057.2	NM_001369		T	13708238	C	T	13708238	4	4	678	1	0	0	0	0	0	1	0	0	4606	856	30	2	558	2	DNAH5	5	13708238	Nonsense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10		13708238	167207022	17	43749										
THBS4	7060	broad.mit.edu	37	chr5	79331430	79331431	+	Frame_Shift_Ins	INS	-	-	C													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gcggtggctagcggcaggcgINScccaggccaccccccagggt							TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr5:79331430_79331431insC	ENST00000350881.2	+	1	260_261	c.70_71insC	c.(70-72)gccfs	p.A24fs	THBS4_ENST00000511733.1_5'Flank	NM_003248.4	NP_003239.2	P35443	TSP4_HUMAN	thrombospondin 4	24					behavioral response to pain (GO:0048266)|endothelial cell-cell adhesion (GO:0071603)|myoblast migration (GO:0051451)|negative regulation of angiogenesis (GO:0016525)|positive regulation of cell division (GO:0051781)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of neutrophil chemotaxis (GO:0090023)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|regulation of tissue remodeling (GO:0034103)|response to endoplasmic reticulum stress (GO:0034976)|response to unfolded protein (GO:0006986)|tissue remodeling (GO:0048771)	basement membrane (GO:0005604)|endoplasmic reticulum (GO:0005783)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|sarcoplasmic reticulum (GO:0016529)	calcium ion binding (GO:0005509)|heparin binding (GO:0008201)|integrin binding (GO:0005178)			breast(1)|endometrium(4)|kidney(2)|large_intestine(9)|lung(14)|ovary(1)|stomach(3)	34		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		AGCGGCAGGCGCCCAGGCCACC	0.738																																																0																																										SO:0001589	frameshift_variant	7060				CCDS4049.1	5q13	2008-05-15			ENSG00000113296	ENSG00000113296			11788	protein-coding gene	gene with protein product		600715				7852353	Standard	NM_003248		Approved		uc021yaw.1	P35443	OTTHUMG00000108173	ENST00000350881.2:c.73dupC	5.37:g.79331433_79331433dupC	ENSP00000339730:p.Ala24fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R909|Q86TG2	Frame_Shift_Ins	INS	ENST00000350881.2	37	CCDS4049.1																																																																																				0.738	THBS4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000226977.1			C	79331431	-	C	79331430	7	5	678	1	0	1	1	0	0	0	0	0	15868	1087	38	0	72	0	THBS4	5	79331430	Frame_Shift_Ins	INS	-	TCGA-KO-8407-01A-11D-2310-10	65623192	79331430	101583830	18	43750										
PCDHA8	56140	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr5	140222358	140222358	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	tctgcgcgagacgcggacgcGcaggagaacgcgctggtgtc	17	12	1	2			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr5:140222358G>A	ENST00000531613.1	+	1	1452	c.1452G>A	c.(1450-1452)gcG>gcA	p.A484A	PCDHA7_ENST00000525929.1_Intron|PCDHA4_ENST00000512229.2_Intron|PCDHA1_ENST00000504120.2_Intron|PCDHA5_ENST00000529859.1_Intron|PCDHA2_ENST00000526136.1_Intron|PCDHA5_ENST00000529619.1_Intron|PCDHA6_ENST00000529310.1_Intron|PCDHA6_ENST00000527624.1_Intron|PCDHA8_ENST00000378123.3_Silent_p.A484A|PCDHA1_ENST00000394633.3_Intron|PCDHA4_ENST00000530339.1_Intron|PCDHA3_ENST00000522353.2_Intron	NM_018911.2	NP_061734.1	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8	484	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			NS(2)|breast(3)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(10)|lung(31)|ovary(2)|prostate(2)|skin(4)|stomach(2)|upper_aerodigestive_tract(6)	78			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGCGGACGCGCAGGAGAACG	0.657																																																0													49	55	53					5																	140222358		2195	4261	6456	SO:0001819	synonymous_variant	56140			AF152486	CCDS54919.1	5q31	2010-11-26				ENSG00000204962		"Cadherins / Protocadherins : Clustered"	8674	other	complex locus constituent	"KIAA0345-like 6"	606314				10380929	Standard	NM_018911		Approved			Q9Y5H6		ENST00000531613.1:c.1452G>A	5.37:g.140222358G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B9EGT7|O75281	Silent	SNP	ENST00000531613.1	37	CCDS54919.1																																																																																				0.657	PCDHA8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372830.2	NM_018911		A	140222358	G	A	140222358	2	1	678	1	0	0	0	0	0	0	0	1	11537	1074	38	1		1	PCDHA8	5	140222358	Silent	SNP	G	TCGA-KO-8407-01A-11D-2310-10	60890928	140222358	40692902	19	43751										
RANBP9	10048	broad.mit.edu	37	chr6	13638047	13638047	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	tgaaattacttacctggtgaAgttattaacttgctgtgatc	8	6	0	3			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr6:13638047A>G	ENST00000011619.3	-	10	1724	c.1666T>C	c.(1666-1668)Ttc>Ctc	p.F556L	RANBP9_ENST00000539980.1_Missense_Mutation_p.F327L	NM_005493.2	NP_005484.2	Q96S59	RANB9_HUMAN	RAN binding protein 9	556					axon guidance (GO:0007411)|microtubule nucleation (GO:0007020)|protein complex assembly (GO:0006461)	cytosol (GO:0005829)|microtubule associated complex (GO:0005875)|nucleus (GO:0005634)	enzyme binding (GO:0019899)|Ran GTPase binding (GO:0008536)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(8)|skin(1)	16	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.223)			TACCTGGTGAAGTTATTAACT	0.313																																																0													192	187	188					6																	13638047		2202	4300	6502	SO:0001583	missense	10048			AB008515	CCDS4529.1	6p23	2010-05-25			ENSG00000010017	ENSG00000010017			13727	protein-coding gene	gene with protein product	"Ran Binding Protein in the Microtubule organizing center"	603854				9817760	Standard	NM_005493		Approved	RanBPM	uc003nbb.3	Q96S59	OTTHUMG00000015642	ENST00000011619.3:c.1666T>C	6.37:g.13638047A>G	ENSP00000011619:p.Phe556Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJA2|B2R8E1|O94764|Q6P3T7|Q7LBR2|Q7Z7F9	Missense_Mutation	SNP	ENST00000011619.3	37	CCDS4529.1	.	.	.	.	.	.	.	.	.	.	A	12.69	2.013244	0.35511	.	.	ENSG00000010017	ENST00000011619;ENST00000539980	T	0.76448	-1.02	5.96	5.96	0.96718	.	0.306271	0.39909	N	0.001223	T	0.58595	0.2133	L	0.33485	1.01	0.46222	D	0.99893	B	0.31125	0.309	B	0.37550	0.253	T	0.60490	-0.7253	10	0.11794	T	0.64	-11.6893	16.4221	0.83766	1.0:0.0:0.0:0.0	.	556	Q96S59	RANB9_HUMAN	L	556;327	ENSP00000011619:F556L	ENSP00000011619:F556L	F	-	1	0	RANBP9	13746026	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	6.778000	0.75043	2.283000	0.76528	0.477000	0.44152	TTC		0.313	RANBP9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042373.1			G	13638047	A	G	13638047	3	3	678	1	0	0	0	0	1	0	0	0	13045	72	3	3	543	3	RANBP9	6	13638047	Missense_Mutation	SNP	A	TCGA-KO-8407-01A-11D-2310-10		13638047	157477020	20	43752										
HLA-C	3107	mdanderson.org	37	chr6	31238866	31238866	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gtacctgcgcgctgcagcgtCtccttcccgttctccaggta	10	16	2	0	rs17413678	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr6:31238866C>G	ENST00000376228.5	-	3	617	c.603G>C	c.(601-603)gaG>gaC	p.E201D	HLA-C_ENST00000383329.3_Missense_Mutation_p.E201D	NM_002117.5	NP_002108.4	Q95604	1C17_HUMAN	major histocompatibility complex, class I, C	201	Alpha-2.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(4)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)	17						GCTGCAGCGTCTCCTTCCCGT	0.657																																																0													53	45	48					6																	31238866		2203	4299	6502	SO:0001583	missense	3107			M11886	CCDS34393.1	6p21.3	2014-01-30			ENSG00000204525	ENSG00000204525		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4933	protein-coding gene	gene with protein product		142840	"psoriasis susceptibility 1"	HLA-JY3, D6S204, PSORS1		3863816, 16642438	Standard	NM_001243042		Approved		uc003nsy.3	P04222	OTTHUMG00000031154	ENST00000376228.5:c.603G>C	6.37:g.31238866C>G	ENSP00000365402:p.Glu201Asp	Somatic		WXS	Illumina HiSeq	Phase_I	O02864|O02958|Q29643|Q9MY30	Missense_Mutation	SNP	ENST00000376228.5	37	CCDS34393.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	8.944|8.944	0.966650|0.966650	0.18659|0.18659	.|.	.|.	ENSG00000204525|ENSG00000204525	ENST00000415537|ENST00000376228;ENST00000383329;ENST00000396254;ENST00000539307	.|T;T	.|0.00824	.|5.65;5.65	2.55|2.55	0.453|0.453	0.16639|0.16639	.|MHC class I, alpha chain, alpha1/alpha2 (1);MHC classes I/II-like antigen recognition protein (1);MHC class I-like antigen recognition (1);	.|1.613380	.|0.04968	.|N	.|0.463348	T|T	0.00109|0.00109	0.0003|0.0003	N|N	0.00058|0.00058	-2.35|-2.35	0.22226|0.22226	N|N	0.999278|0.999278	.|B;B;B;B	.|0.02656	.|0.0;0.0;0.0;0.0	.|B;B;B;B	.|0.06405	.|0.001;0.001;0.002;0.001	T|T	0.48163|0.48163	-0.9059|-0.9059	5|10	.|0.72032	.|D	.|0.01	.|.	10.0479|10.0479	0.42197|0.42197	0.0:0.3625:0.6374:0.0|0.0:0.3625:0.6374:0.0	rs41549320|rs41549320	.|201;201;201;201	.|A2AEA4;A6H578;A2AEA2;P10321	.|.;.;.;1C07_HUMAN	H|D	201|201;201;201;238	.|ENSP00000365402:E201D;ENSP00000372819:E201D	.|ENSP00000365402:E201D	D|E	-|-	1|3	0|2	HLA-C|HLA-C	31346845|31346845	0.000000|0.000000	0.05858|0.05858	0.895000|0.895000	0.35142|0.35142	0.078000|0.078000	0.17371|0.17371	-3.936000|-3.936000	0.00330|0.00330	0.101000|0.101000	0.17610|0.17610	0.305000|0.305000	0.20034|0.20034	GAC|GAG		0.657	HLA-C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076281.3	NM_002117		G	31238866	C	G	31238866	3	3	678	1	0	0	0	0	1	0	0	0	7204	912	32	4	521	4	HLA-C	6	31238866	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10	17600819	31238866	139876201	21	43753										
COL12A1	1303	broad.mit.edu;mdanderson.org	37	chr6	75843574	75843574	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ttactacaagaaataattacCagttcctctggaccacctgc	5	12	1	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr6:75843574C>A	ENST00000322507.8	-	33	5973	c.5664G>T	c.(5662-5664)ctG>ctT	p.L1888L	COL12A1_ENST00000416123.2_Splice_Site_p.L1888L|COL12A1_ENST00000345356.6_Splice_Site_p.L724L|COL12A1_ENST00000483888.2_Splice_Site_p.L1888L	NM_004370.5	NP_004361.3	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1	1888	Fibronectin type-III 14. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|skeletal system development (GO:0001501)	collagen type XII trimer (GO:0005595)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|vesicle (GO:0031982)	extracellular matrix structural constituent conferring tensile strength (GO:0030020)			breast(7)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(5)|kidney(5)|large_intestine(44)|liver(1)|lung(77)|ovary(7)|prostate(3)|skin(4)|stomach(2)|upper_aerodigestive_tract(4)|urinary_tract(2)	169						AAATAATTACCAGTTCCTCTG	0.433																																																0													85	82	83					6																	75843574		1872	4110	5982	SO:0001630	splice_region_variant	1303			U73779	CCDS43481.1, CCDS43482.1	6q12-q13	2013-02-11	2003-07-24		ENSG00000111799	ENSG00000111799		"Proteoglycans / Extracellular Matrix : Collagen proteoglycans", "Collagens", "Fibronectin type III domain containing"	2188	protein-coding gene	gene with protein product	"collagen type XII proteoglycan"	120320	"collagen, type XII, alpha 1-like"	COL12A1L		9143499	Standard	XM_006715334		Approved		uc003phs.3	Q99715	OTTHUMG00000015051	ENST00000322507.8:c.5664+1G>T	6.37:g.75843574C>A		Somatic		WXS	Illumina HiSeq	Phase_I	O43853|Q15955|Q5VYK1|Q5VYK2|Q71UR3|Q99716	Silent	SNP	ENST00000322507.8	37	CCDS43482.1	.	.	.	.	.	.	.	.	.	.	C	14.47	2.545989	0.45383	.	.	ENSG00000111799	ENST00000419671	.	.	.	5.86	5.86	0.93980	.	.	.	.	.	T	0.71970	0.3403	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.68762	-0.5323	4	.	.	.	.	20.1772	0.98182	0.0:1.0:0.0:0.0	.	.	.	.	C	623	.	.	G	-	1	0	COL12A1	75900294	1.000000	0.71417	1.000000	0.80357	0.921000	0.55340	4.629000	0.61290	2.778000	0.95560	0.655000	0.94253	GGT		0.433	COL12A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041249.3	NM_004370	Silent	A	75843574	C	A	75843574	5	1	678	1	0	0	0	0	0	0	1	0	3671	608	21	4	3663	4	COL12A1	6	75843574	Splice_Site	SNP	C	TCGA-KO-8407-01A-11D-2310-10	44604708	75843574	95271493	22	43754										
SYTL3	94120	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr6	159173001	159173001	+	Missense_Mutation	SNP	G	G	A													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gcccgacagatcctcccaggGaaagcgcaagactggagtcc							TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr6:159173001G>A	ENST00000297239.9	+	12	1270	c.1076G>A	c.(1075-1077)gGa>gAa	p.G359E	SYTL3_ENST00000360448.3_Missense_Mutation_p.G291E|SYTL3_ENST00000367081.3_Missense_Mutation_p.G85E			Q4VX76	SYTL3_HUMAN	synaptotagmin-like 3	359	C2 1. {ECO:0000255|PROSITE- ProRule:PRU00041}.				exocytosis (GO:0006887)|intracellular protein transport (GO:0006886)	membrane (GO:0016020)	calcium-dependent phospholipid binding (GO:0005544)			endometrium(2)|kidney(3)|large_intestine(5)|lung(7)|ovary(1)|pancreas(1)|urinary_tract(1)	20		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.54e-17)|BRCA - Breast invasive adenocarcinoma(81;8.24e-06)		TCCTCCCAGGGAAAGCGCAAG	0.552																																																0													80	68	72					6																	159173001		2203	4300	6503	SO:0001583	missense	94120			AK055750	CCDS34563.1, CCDS56458.1	6q25.3	2008-07-04			ENSG00000164674	ENSG00000164674			15587	protein-coding gene	gene with protein product						11773082	Standard	NM_001242384		Approved	SLP3, exophilin-6	uc003qrp.3	Q4VX76	OTTHUMG00000015916	ENST00000297239.9:c.1076G>A	6.37:g.159173001G>A	ENSP00000297239:p.Gly359Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q496J4|Q496J6|Q5U3B9	Missense_Mutation	SNP	ENST00000297239.9	37	CCDS56458.1	.	.	.	.	.	.	.	.	.	.	G	17.84	3.487983	0.64074	.	.	ENSG00000164674	ENST00000360448;ENST00000543689;ENST00000297239;ENST00000367081	T;T;T	0.68331	-0.32;-0.32;-0.32	5.75	4.85	0.62838	C2 membrane targeting protein (1);C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);	0.261183	0.37012	N	0.002293	T	0.71728	0.3374	L	0.55481	1.735	0.21841	N	0.999516	D;D;D	0.76494	0.999;0.999;0.998	D;D;D	0.85130	0.993;0.997;0.994	T	0.65429	-0.6170	10	0.87932	D	0	.	15.2148	0.73258	0.0:0.2629:0.7371:0.0	.	85;359;291	F8W7H4;Q4VX76;Q4VX76-2	.;SYTL3_HUMAN;.	E	291;359;359;85	ENSP00000353631:G291E;ENSP00000297239:G359E;ENSP00000356048:G85E	ENSP00000297239:G359E	G	+	2	0	SYTL3	159092989	1.000000	0.71417	0.170000	0.22879	0.398000	0.30690	4.854000	0.62918	2.716000	0.92895	0.655000	0.94253	GGA		0.552	SYTL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042876.1			A	159173001	G	A	159173001	3	1	678	1	0	0	0	0	1	0	0	0	15496	1174	41	2	902	2	SYTL3	6	159173001	Missense_Mutation	SNP	G	TCGA-KO-8407-01A-11D-2310-10	83329427	159173001	11942066	23	43755	445	2								
SYTL3	94120	hgsc.bcm.edu;ucsc.edu	37	chr6	159173011	159173011	+	Silent	SNP	G	G	A													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	tcctcccagggaaagcgcaaGactggagtccaaaggaacac							TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr6:159173011G>A	ENST00000297239.9	+	12	1280	c.1086G>A	c.(1084-1086)aaG>aaA	p.K362K	SYTL3_ENST00000360448.3_Silent_p.K294K|SYTL3_ENST00000367081.3_Silent_p.K88K			Q4VX76	SYTL3_HUMAN	synaptotagmin-like 3	362	C2 1. {ECO:0000255|PROSITE- ProRule:PRU00041}.				exocytosis (GO:0006887)|intracellular protein transport (GO:0006886)	membrane (GO:0016020)	calcium-dependent phospholipid binding (GO:0005544)			endometrium(2)|kidney(3)|large_intestine(5)|lung(7)|ovary(1)|pancreas(1)|urinary_tract(1)	20		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.54e-17)|BRCA - Breast invasive adenocarcinoma(81;8.24e-06)		GAAAGCGCAAGACTGGAGTCC	0.572																																																0													81	68	72					6																	159173011		2203	4300	6503	SO:0001819	synonymous_variant	94120			AK055750	CCDS34563.1, CCDS56458.1	6q25.3	2008-07-04			ENSG00000164674	ENSG00000164674			15587	protein-coding gene	gene with protein product						11773082	Standard	NM_001242384		Approved	SLP3, exophilin-6	uc003qrp.3	Q4VX76	OTTHUMG00000015916	ENST00000297239.9:c.1086G>A	6.37:g.159173011G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q496J4|Q496J6|Q5U3B9	Silent	SNP	ENST00000297239.9	37	CCDS56458.1																																																																																				0.572	SYTL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042876.1			A	159173011	G	A	159173011	2	1	678	1	0	0	0	0	0	0	0	1	15496	933	33	2		2	SYTL3	6	159173011	Silent	SNP	G	TCGA-KO-8407-01A-11D-2310-10	10	159173011	11942056	24	43756	445	2								
ISPD	729920	broad.mit.edu	37	chr7	16341081	16341081	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	cagccgcatagagatctcgtTtgtaggtcacctaaaggaca	10	10	2	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr7:16341081T>C	ENST00000407010.2	-	5	799	c.800A>G	c.(799-801)aAa>aGa	p.K267R	ISPD_ENST00000399310.3_Missense_Mutation_p.K217R|ISPD_ENST00000479493.1_5'UTR	NM_001101426.3	NP_001094896.1	A4D126	ISPD_HUMAN	isoprenoid synthase domain containing	267					axon guidance (GO:0007411)|isoprenoid biosynthetic process (GO:0008299)|protein O-linked mannosylation (GO:0035269)		nucleotidyltransferase activity (GO:0016779)			endometrium(1)|kidney(1)|large_intestine(3)|lung(3)|ovary(1)	9						GAGATCTCGTTTGTAGGTCAC	0.388										Multiple Myeloma(15;0.18)																																						0													88	80	82					7																	16341081		1856	4101	5957	SO:0001583	missense	729920			AK124805		7p21.2	2010-03-19			ENSG00000214960	ENSG00000214960			37276	protein-coding gene	gene with protein product	"notch1-induced protein", "4-diphosphocytidyl-2C-methyl-D-erythritol synthase homolog (Arabidopsis)"	614631				11181995	Standard	NM_001101417		Approved	hCG_1745121, IspD, Nip	uc010ktx.2	A4D126	OTTHUMG00000152447	ENST00000407010.2:c.800A>G	7.37:g.16341081T>C	ENSP00000385478:p.Lys267Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8MU35|H9KVB2	Missense_Mutation	SNP	ENST00000407010.2	37		.	.	.	.	.	.	.	.	.	.	T	13.82	2.350427	0.41599	.	.	ENSG00000214960	ENST00000407010;ENST00000399310	D;D	0.85484	-1.99;-1.99	5.15	3.97	0.46021	4-diphosphocytidyl-2C-methyl-D-erythritol synthase (1);	0.199344	0.40554	U	0.001079	T	0.72078	0.3416	N	0.12471	0.22	0.40186	D	0.977343	B	0.24618	0.107	B	0.32762	0.152	T	0.66044	-0.6021	10	0.12766	T	0.61	0.0762	11.4619	0.50215	0.0:0.0746:0.0:0.9254	.	267	A4D126	ISPD_HUMAN	R	267;217	ENSP00000385478:K267R;ENSP00000382249:K217R	ENSP00000382249:K217R	K	-	2	0	ISPD	16307606	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.956000	0.49129	2.064000	0.61679	0.533000	0.62120	AAA		0.388	ISPD-001	KNOWN	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000326252.4	NM_001101426		C	16341081	T	C	16341081	3	2	678	1	0	0	0	0	1	0	0	0	7871	1841	64	3	579	3	ISPD	7	16341081	Missense_Mutation	SNP	T	TCGA-KO-8407-01A-11D-2310-10		16341081	142797582	25	43757										
PEX1	5189	bcgsc.ca	37	chr7	92116845	92116845	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	tctcctctttggattttgaaAgctttcatatctgaaaaaag	6	7	4	2			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr7:92116845A>G	ENST00000248633.4	-	24	3873	c.3778T>C	c.(3778-3780)Ttt>Ctt	p.F1260L	AC007566.10_ENST00000441539.1_RNA|AC007566.10_ENST00000427458.1_RNA|PEX1_ENST00000438045.1_Missense_Mutation_p.F938L|PEX1_ENST00000428214.1_Missense_Mutation_p.F1203L	NM_000466.2	NP_000457.1	O43933	PEX1_HUMAN	peroxisomal biogenesis factor 1	1260					ATP catabolic process (GO:0006200)|microtubule-based peroxisome localization (GO:0060152)|peroxisome organization (GO:0007031)|protein import into peroxisome matrix (GO:0016558)|protein targeting to peroxisome (GO:0006625)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	ATP binding (GO:0005524)|ATPase activity, coupled (GO:0042623)|protein C-terminus binding (GO:0008022)|protein complex binding (GO:0032403)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(6)|lung(17)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	41	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)			GGATTTTGAAAGCTTTCATAT	0.269																																																0													64	68	66					7																	92116845		2201	4287	6488	SO:0001583	missense	5189			AF026086	CCDS5627.1, CCDS64710.1	7q21.2	2010-04-21	2008-08-26		ENSG00000127980	ENSG00000127980		"ATPases / AAA-type"	8850	protein-coding gene	gene with protein product		602136	"peroxisome biogenesis factor 1", "Zellweger syndrome 1", "Zellweger syndrome"	ZWS1, ZWS		9398848	Standard	NM_001282677		Approved		uc003uly.3	O43933	OTTHUMG00000023926	ENST00000248633.4:c.3778T>C	7.37:g.92116845A>G	ENSP00000248633:p.Phe1260Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1G3|A8KA90|B4DIM7|E9PE75|Q96S71|Q96S72|Q96S73|Q99994	Missense_Mutation	SNP	ENST00000248633.4	37	CCDS5627.1	.	.	.	.	.	.	.	.	.	.	A	26.8	4.770896	0.90108	.	.	ENSG00000127980	ENST00000438045;ENST00000248633;ENST00000428214	D;D;D	0.98120	-4.38;-4.73;-4.32	5.27	5.27	0.74061	.	0.000000	0.85682	D	0.000000	D	0.98277	0.9429	M	0.66939	2.045	0.80722	D	1	D;D;D	0.89917	1.0;0.997;0.997	D;D;D	0.83275	0.996;0.985;0.985	D	0.99198	1.0872	10	0.87932	D	0	-21.3596	13.566	0.61819	1.0:0.0:0.0:0.0	.	938;1052;1260	E9PE75;B4DER6;O43933	.;.;PEX1_HUMAN	L	938;1260;1203	ENSP00000410438:F938L;ENSP00000248633:F1260L;ENSP00000394413:F1203L	ENSP00000248633:F1260L	F	-	1	0	PEX1	91954781	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	6.853000	0.75435	2.216000	0.71823	0.528000	0.53228	TTT		0.269	PEX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254066.3	NM_000466		G	92116845	A	G	92116845	3	3	678	1	0	0	0	0	1	0	0	0	11742	72	3	3	77	3	PEX1	7	92116845	Missense_Mutation	SNP	A	TCGA-KO-8407-01A-11D-2310-10	75775764	92116845	67021818	26	43758										
ZAN	7455	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr7	100390083	100390083	+	RNA	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	aagagagcaagaggagctgcGttgccaggtcctcagtgggt	16	8	1	2	rs376796357		TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr7:100390083G>A	ENST00000348028.3	+	0	7933				ZAN_ENST00000546292.1_RNA|ZAN_ENST00000443370.1_RNA|ZAN_ENST00000349350.6_RNA|ZAN_ENST00000421100.1_RNA|ZAN_ENST00000546213.1_RNA|ZAN_ENST00000542585.1_RNA|ZAN_ENST00000538115.1_RNA|ZAN_ENST00000449052.1_RNA|ZAN_ENST00000427578.1_RNA			Q9Y493	ZAN_HUMAN	zonadhesin (gene/pseudogene)						binding of sperm to zona pellucida (GO:0007339)|single organismal cell-cell adhesion (GO:0016337)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(2)|breast(3)|central_nervous_system(3)|endometrium(21)|kidney(6)|large_intestine(18)|lung(60)|ovary(4)|pancreas(3)|prostate(5)|skin(8)|stomach(3)|upper_aerodigestive_tract(3)	139	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			GAGGAGCTGCGTTGCCAGGTC	0.667																																																0								G	HIS/ARG,HIS/ARG	1,4205		0,1,2102	43	45	44		7768,7768	3.4	1	7		44	0,8440		0,0,4220	no	missense,missense	ZAN	NM_003386.1,NM_173059.1	29,29	0,1,6322	AA,AG,GG		0.0,0.0238,0.0079	probably-damaging,probably-damaging	2590/2813,2590/2722	100390083	1,12645	2103	4220	6323			7455			U83191		7q22.1	2013-10-10	2013-10-10		ENSG00000146839	ENSG00000146839			12857	protein-coding gene	gene with protein product		602372	"zonadhesin"			9799793, 17033959	Standard	NM_003386		Approved		uc003uwk.3	Q9Y493	OTTHUMG00000157037		7.37:g.100390083G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0FKC8|D6W5W4|O00218|Q96L85|Q96L86|Q96L87|Q96L88|Q96L89|Q96L90|Q9BXN9|Q9BZ83|Q9BZ84|Q9BZ85|Q9BZ86|Q9BZ87|Q9BZ88	Missense_Mutation	SNP	ENST00000348028.3	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	8.156|8.156	0.788519|0.788519	0.16258|0.16258	2.38E-4|2.38E-4	0.0|0.0	ENSG00000146839|ENSG00000146839	ENST00000546292;ENST00000538115;ENST00000542585|ENST00000546213	T;T;T|T	0.76968|0.24350	-1.06;-1.06;-1.06|1.86	3.39|3.39	3.39|3.39	0.38822|0.38822	Uncharacterised domain, cysteine-rich (2);|.	0.253625|.	0.20874|.	N|.	0.084101|.	T|T	0.13200|0.13200	0.0320|0.0320	N|N	0.08118|0.08118	0|0	0.20873|0.20873	N|N	0.999835|0.999835	D;D|B	0.89917|0.30482	1.0;1.0|0.281	D;D|B	0.81914|0.21917	0.992;0.995|0.037	T|T	0.12319|0.12319	-1.0552|-1.0552	10|9	0.62326|0.87932	D|D	0.03|0	.|.	10.585|10.585	0.45278|0.45278	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	2589;2590|1006	F5H0T8;Q9Y493|F5GX59	.;ZAN_HUMAN|.	H|I	2589|1006	ENSP00000445943:R2589H;ENSP00000445091:R2589H;ENSP00000444427:R2589H|ENSP00000441117:V1006I	ENSP00000445091:R2589H|ENSP00000423579:V2590I	R|V	+|+	2|1	0|0	ZAN|ZAN	100228019|100228019	0.670000|0.670000	0.27512|0.27512	0.971000|0.971000	0.41717|0.41717	0.431000|0.431000	0.31685|0.31685	2.708000|2.708000	0.47152|0.47152	2.206000|2.206000	0.71126|0.71126	0.561000|0.561000	0.74099|0.74099	CGT|GTT		0.667	ZAN-006	KNOWN	basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000347214.1	NM_003386		A	100390083	G	A	100390083	1	1	678	0	1	0	0	0	0	0	0	0	17525	1145	40	1		1	ZAN	7	100390083	RNA	SNP	G	TCGA-KO-8407-01A-11D-2310-10	8273238	100390083	58748580	27	43759										
SPAM1	6677	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	123594255	123594255	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	taaaattgggaaaattacttCggccaaatcacttgtggggt	10	6	1	0	rs377689190		TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr7:123594255C>T	ENST00000439500.1	+	4	1244	c.631C>T	c.(631-633)Cgg>Tgg	p.R211W	SPAM1_ENST00000460182.1_Missense_Mutation_p.R211W|SPAM1_ENST00000223028.7_Missense_Mutation_p.R211W|SPAM1_ENST00000402183.2_Missense_Mutation_p.R211W|SPAM1_ENST00000340011.5_Missense_Mutation_p.R211W	NM_001174045.1|NM_001174046.1	NP_001167516.1|NP_001167517.1	P38567	HYALP_HUMAN	sperm adhesion molecule 1 (PH-20 hyaluronidase, zona pellucida binding)	211					binding of sperm to zona pellucida (GO:0007339)|carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|fusion of sperm to egg plasma membrane (GO:0007342)|multicellular organism reproduction (GO:0032504)|single fertilization (GO:0007338)|sperm-egg recognition (GO:0035036)	anchored component of membrane (GO:0031225)|plasma membrane (GO:0005886)	hyalurononglucosaminidase activity (GO:0004415)	p.R211W(2)		breast(1)|cervix(1)|endometrium(3)|kidney(5)|large_intestine(5)|lung(23)|ovary(3)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	46						AAAATTACTTCGGCCAAATCA	0.378																																																2	Substitution - Missense(2)	lung(2)						C	TRP/ARG,TRP/ARG,TRP/ARG,TRP/ARG,TRP/ARG	0,4406		0,0,2203	77	83	81		631,631,631,631,631	-1	0	7		81	1,8597	1.2+/-3.3	0,1,4298	no	missense,missense,missense,missense,missense	SPAM1	NM_001174044.1,NM_001174045.1,NM_001174046.1,NM_003117.4,NM_153189.2	101,101,101,101,101	0,1,6501	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging,probably-damaging,probably-damaging,probably-damaging,probably-damaging	211/510,211/510,211/510,211/512,211/510	123594255	1,13003	2203	4299	6502	SO:0001583	missense	6677			L13781	CCDS5790.1, CCDS5791.1	7q31	2008-05-02			ENSG00000106304	ENSG00000106304			11217	protein-coding gene	gene with protein product		600930				8282124, 8575780	Standard	NM_153189		Approved	HYAL5, PH-20, SPAG15	uc003vle.3	P38567	OTTHUMG00000157284	ENST00000439500.1:c.631C>T	7.37:g.123594255C>T	ENSP00000402123:p.Arg211Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TC30	Missense_Mutation	SNP	ENST00000439500.1	37	CCDS5791.1	.	.	.	.	.	.	.	.	.	.	C	18.35	3.605065	0.66445	0.0	1.16E-4	ENSG00000106304	ENST00000402183;ENST00000460182;ENST00000340011;ENST00000439500;ENST00000223028	T;T;T;T;T	0.44083	0.93;0.93;0.93;0.93;0.93	6.17	-0.96	0.10340	Aldolase-type TIM barrel (1);Glycoside hydrolase, superfamily (1);	0.204215	0.42548	D	0.000688	T	0.74861	0.3772	H	0.96547	3.84	0.21290	N	0.999731	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.77038	-0.2736	9	.	.	.	-26.04	20.5191	0.99215	0.8136:0.1864:0.0:0.0	.	211;211	Q8TC30;P38567	.;HYALP_HUMAN	W	211	ENSP00000386028:R211W;ENSP00000417934:R211W;ENSP00000345849:R211W;ENSP00000402123:R211W;ENSP00000223028:R211W	.	R	+	1	2	SPAM1	123381491	0.007000	0.16637	0.022000	0.16811	0.934000	0.57294	0.147000	0.16202	-0.161000	0.10983	0.655000	0.94253	CGG		0.378	SPAM1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000348309.1			T	123594255	C	T	123594255	3	4	678	1	0	0	0	0	1	0	0	0	14999	875	31	1	633	1	SPAM1	7	123594255	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10	23204172	123594255	35544408	28	43760										
NCAPG2	54892	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	158485614	158485614	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	acacagaagcaagaatcacaGatgtaattgcataaattatt	6	6	1	3			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr7:158485614G>A	ENST00000409423.1	-	5	474	c.302C>T	c.(301-303)tCt>tTt	p.S101F	NCAPG2_ENST00000479022.1_5'Flank|NCAPG2_ENST00000409339.3_Missense_Mutation_p.S101F|NCAPG2_ENST00000449727.2_Missense_Mutation_p.S101F|NCAPG2_ENST00000356309.3_Missense_Mutation_p.S101F	NM_001281932.1	NP_001268861.1	Q86XI2	CNDG2_HUMAN	non-SMC condensin II complex, subunit G2	101					chromosome condensation (GO:0030261)|inner cell mass cell proliferation (GO:0001833)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	methylated histone binding (GO:0035064)			NS(1)|breast(1)|endometrium(5)|kidney(5)|large_intestine(7)|liver(1)|lung(15)|ovary(1)|pancreas(1)|prostate(1)|skin(1)	39	Ovarian(565;0.152)	all_cancers(7;3.44e-11)|all_epithelial(9;3.05e-05)|all_hematologic(28;0.014)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.187)|STAD - Stomach adenocarcinoma(7;0.18)		AAGAATCACAGATGTAATTGC	0.279																																																0													117	113	114					7																	158485614		1813	4066	5879	SO:0001583	missense	54892			BC043404	CCDS43686.1, CCDS64816.1	7q36.3	2006-09-04	2006-09-04	2006-09-04	ENSG00000146918	ENSG00000146918			21904	protein-coding gene	gene with protein product		608532	"leucine zipper protein 5"	LUZP5		14532007	Standard	NM_001281933		Approved	FLJ20311, MTB, CAP-G2, hCAP-G2	uc003wnv.1	Q86XI2	OTTHUMG00000151438	ENST00000409423.1:c.302C>T	7.37:g.158485614G>A	ENSP00000386569:p.Ser101Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A4D228|Q7Z3J9|Q8WUG8|Q9BRX6|Q9H8S2|Q9H9K6	Missense_Mutation	SNP	ENST00000409423.1	37	CCDS43686.1	.	.	.	.	.	.	.	.	.	.	G	4.849	0.157781	0.09236	.	.	ENSG00000146918	ENST00000356309;ENST00000409423;ENST00000409339;ENST00000449727	T;T;T;T	0.32515	1.46;1.46;1.45;1.45	5.41	3.47	0.39725	Armadillo-type fold (1);	0.551643	0.21031	N	0.081352	T	0.22781	0.0550	L	0.44542	1.39	0.25303	N	0.989266	B;B	0.28584	0.216;0.138	B;B	0.26969	0.075;0.012	T	0.14980	-1.0453	10	0.10377	T	0.69	-15.4578	11.8548	0.52431	0.0:0.1316:0.7322:0.1361	.	101;101	Q86XI2-2;Q86XI2	.;CNDG2_HUMAN	F	101	ENSP00000348657:S101F;ENSP00000386569:S101F;ENSP00000387007:S101F;ENSP00000388326:S101F	ENSP00000348657:S101F	S	-	2	0	NCAPG2	158178375	0.998000	0.40836	0.980000	0.43619	0.637000	0.38172	2.751000	0.47508	1.400000	0.46741	0.484000	0.47621	TCT		0.279	NCAPG2-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327111.1	NM_017760		A	158485614	G	A	158485614	3	1	678	1	0	0	0	0	1	0	0	0	10215	942	33	2	3229	2	NCAPG2	7	158485614	Missense_Mutation	SNP	G	TCGA-KO-8407-01A-11D-2310-10	34891359	158485614	653049	29	43761										
GGH	8836	mdanderson.org	37	chr8	63951312	63951312	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gcccagcacgcacagcaggcAgcccggactggccatggcgc	14	17	0	0	rs1800909	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr8:63951312A>G	ENST00000260118.6	-	1	418	c.16T>C	c.(16-18)Tgc>Cgc	p.C6R		NM_003878.2	NP_003869.1	Q92820	GGH_HUMAN	gamma-glutamyl hydrolase (conjugase, folylpolygammaglutamyl hydrolase)	6			C -> R (in dbSNP:rs1800909).		glutamine metabolic process (GO:0006541)|proteolysis (GO:0006508)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to insulin (GO:0032868)|response to zinc ion (GO:0010043)	cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|lysosome (GO:0005764)|nucleus (GO:0005634)	exopeptidase activity (GO:0008238)|gamma-glutamyl-peptidase activity (GO:0034722)|omega peptidase activity (GO:0008242)			breast(1)|kidney(1)|large_intestine(1)|liver(1)|lung(6)|stomach(1)	11	Breast(64;0.0716)	all_cancers(86;0.189)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.131)			Folic Acid(DB00158)|Methotrexate(DB00563)	CACAGCAGGCAGCCCGGACTG	0.716													G|||	1161	0.231829	0.1672	0.2277	5008	,	,		10294	0.2192		0.2793	False		,,,				2504	0.2863															0								G	ARG/CYS	752,3574		76,600,1487	10	10	10		16	1.1	0	8	dbSNP_89	10	2198,6302		290,1618,2342	no	missense	GGH	NM_003878.2	180	366,2218,3829	GG,GA,AA		25.8588,17.3833,23.0002	benign	6/319	63951312	2950,9876	2163	4250	6413	SO:0001583	missense	8836			U55206	CCDS6177.1	8q12.3	2008-02-05			ENSG00000137563	ENSG00000137563	3.4.19.9		4248	protein-coding gene	gene with protein product		601509				8816764, 10570974	Standard	NM_003878		Approved		uc003xuw.3	Q92820	OTTHUMG00000164365	ENST00000260118.6:c.16T>C	8.37:g.63951312A>G	ENSP00000260118:p.Cys6Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000260118.6	37	CCDS6177.1	512	0.23443223443223443	88	0.17886178861788618	83	0.2292817679558011	127	0.22202797202797203	214	0.28232189973614774	G	6.061	0.379536	0.11466	0.173833	0.258588	ENSG00000137563	ENST00000260118	T	0.21191	2.02	4.12	1.06	0.20224	.	1.412970	0.04201	N	0.329979	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.42258	-0.9462	9	0.24483	T	0.36	-3.9473	1.5309	0.02535	0.1969:0.1633:0.4721:0.1677	rs1800909	6	Q92820	GGH_HUMAN	R	6	ENSP00000260118:C6R	ENSP00000260118:C6R	C	-	1	0	GGH	64113866	0.001000	0.12720	0.000000	0.03702	0.003000	0.03518	0.797000	0.26999	-0.133000	0.11537	-0.684000	0.03749	TGC		0.716	GGH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378453.1			G	63951312	A	G	63951312	3	3	678	1	0	0	0	0	1	0	0	0	6364	188	7	3	976	3	GGH	8	63951312	Missense_Mutation	SNP	A	TCGA-KO-8407-01A-11D-2310-10		63951312	82412710	30	43762										
WWP1	11059	broad.mit.edu	37	chr8	87414376	87414376	+	Frame_Shift_Del	DEL	G	G	-													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	tccgtctcaggttgctgccaGacccaaaaatacaccagctc							TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr8:87414376delG	ENST00000517970.1	+	8	975	c.668delG	c.(667-669)agafs	p.R223fs	WWP1_ENST00000265428.4_Frame_Shift_Del_p.R223fs|WWP1_ENST00000341922.2_Intron|WWP1_ENST00000349423.2_Intron	NM_007013.3	NP_008944.1	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase 1	223					central nervous system development (GO:0007417)|ion transmembrane transport (GO:0034220)|negative regulation of transcription, DNA-templated (GO:0045892)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|signal transduction (GO:0007165)|transmembrane transport (GO:0055085)|viral entry into host cell (GO:0046718)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ubiquitin ligase complex (GO:0000151)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			endometrium(3)|kidney(2)|large_intestine(9)|liver(4)|lung(10)|prostate(2)|urinary_tract(1)	31						GTTGCTGCCAGACCCAAAAAT	0.443																																																0													105	89	94					8																	87414376		2203	4300	6503	SO:0001589	frameshift_variant	11059			AY043361	CCDS6242.1	8q21.3	2013-07-22			ENSG00000123124	ENSG00000123124			17004	protein-coding gene	gene with protein product		602307				9169421, 9647693	Standard	NM_007013		Approved	AIP5, DKFZP434D2111	uc003ydt.3	Q9H0M0	OTTHUMG00000163690	ENST00000517970.1:c.668delG	8.37:g.87414376delG	ENSP00000427793:p.Arg223fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00307|Q5YLC1|Q96BP4	Frame_Shift_Del	DEL	ENST00000517970.1	37	CCDS6242.1																																																																																				0.443	WWP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374755.1	NM_007013		-	87414376	G	-	87414376	7	5	678	1	0	1	0	1	0	0	0	0	17427	942	33	0	690	0	WWP1	8	87414376	Frame_Shift_Del	DEL	G	TCGA-KO-8407-01A-11D-2310-10	23463064	87414376	58949646	31	43763										
LRRC6	23639	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr8	133673863	133673863	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	tcagcattccgtctaataagAtcttctgtgactggaagaaa	8	8	4	3			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr8:133673863A>T	ENST00000519595.1	-	2	119	c.21T>A	c.(19-21)gaT>gaA	p.D7E	LRRC6_ENST00000520446.1_5'UTR|LRRC6_ENST00000250173.1_Missense_Mutation_p.D7E|LRRC6_ENST00000518642.1_Missense_Mutation_p.D7E			Q86X45	TILB_HUMAN	leucine rich repeat containing 6	7					cilium movement (GO:0003341)|epithelial cilium movement involved in determination of left/right asymmetry (GO:0060287)|inner dynein arm assembly (GO:0036159)|male gonad development (GO:0008584)|motile cilium assembly (GO:0044458)|outer dynein arm assembly (GO:0036158)|reproductive system development (GO:0061458)|sperm motility (GO:0030317)	cilium (GO:0005929)|cytoplasm (GO:0005737)				breast(2)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(18)|ovary(1)|prostate(1)|urinary_tract(2)	34	Ovarian(258;0.00352)|Esophageal squamous(12;0.00507)|all_neural(3;0.0052)|Medulloblastoma(3;0.0922)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			GTCTAATAAGATCTTCTGTGA	0.348																																																0													60	59	59					8																	133673863		2203	4300	6503	SO:0001583	missense	23639			U60666	CCDS6365.1	8q24	2013-02-22			ENSG00000129295	ENSG00000129295			16725	protein-coding gene	gene with protein product	"leucine rich testes protein"	614930				10775177, 23122586	Standard	NM_012472		Approved	TSLRP, LRTP, CILD19	uc003ytk.4	Q86X45	OTTHUMG00000164646	ENST00000519595.1:c.21T>A	8.37:g.133673863A>T	ENSP00000429791:p.Asp7Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q13648|Q4G183	Missense_Mutation	SNP	ENST00000519595.1	37		.	.	.	.	.	.	.	.	.	.	A	11.10	1.539703	0.27563	.	.	ENSG00000129295	ENST00000519595;ENST00000518642;ENST00000250173;ENST00000395414	T;T;T	0.49720	0.77;0.77;0.77	5.91	-2.39	0.06602	.	0.044642	0.85682	D	0.000000	T	0.15998	0.0385	N	0.04043	-0.29	0.42148	D	0.991545	B	0.15719	0.014	B	0.18561	0.022	T	0.04915	-1.0918	10	0.16896	T	0.51	-25.756	2.1324	0.03754	0.5007:0.1192:0.2651:0.1149	.	7	Q86X45	LRRC6_HUMAN	E	7	ENSP00000429791:D7E;ENSP00000428610:D7E;ENSP00000250173:D7E	ENSP00000250173:D7E	D	-	3	2	LRRC6	133743045	0.048000	0.20356	0.995000	0.50966	0.958000	0.62258	-0.513000	0.06305	-0.077000	0.12752	0.533000	0.62120	GAT		0.348	LRRC6-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000379578.1	NM_012472		T	133673863	A	T	133673863	3	4	678	1	0	0	0	0	1	0	0	0	9023	330	12	5	1423	5	LRRC6	8	133673863	Missense_Mutation	SNP	A	TCGA-KO-8407-01A-11D-2310-10	46259487	133673863	12690159	32	43764										
EIF2C2	27161	broad.mit.edu	37	chr8	141551316	141551316	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gtagaagatgatgcgggtggGcttgaagcgcgtggacttgt	18	5	0	4			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr8:141551316G>T	ENST00000220592.5	-	15	2093	c.1981C>A	c.(1981-1983)Ccc>Acc	p.P661T	AGO2_ENST00000519980.1_Missense_Mutation_p.P661T	NM_012154.3	NP_036286.2	Q9UKV8	AGO2_HUMAN	argonaute RISC catalytic component 2	661	Piwi. {ECO:0000255|HAMAP-Rule:MF_03031}.				epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|innate immune response (GO:0045087)|mRNA cleavage involved in gene silencing by miRNA (GO:0035279)|negative regulation of translation involved in gene silencing by miRNA (GO:0035278)|negative regulation of translational initiation (GO:0045947)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch signaling pathway (GO:0007219)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|post-embryonic development (GO:0009791)|pre-miRNA processing (GO:0031054)|regulation of transcription, DNA-templated (GO:0006355)|RNA phosphodiester bond hydrolysis, endonucleolytic (GO:0090502)|transcription, DNA-templated (GO:0006351)|translation (GO:0006412)|translational initiation (GO:0006413)	cytoplasm (GO:0005737)|cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|membrane (GO:0016020)|micro-ribonucleoprotein complex (GO:0035068)|mRNA cap binding complex (GO:0005845)|nucleus (GO:0005634)|polysome (GO:0005844)|ribonucleoprotein complex (GO:0030529)|RISC complex (GO:0016442)	endoribonuclease activity (GO:0004521)|endoribonuclease activity, cleaving siRNA-paired mRNA (GO:0070551)|metal ion binding (GO:0046872)|miRNA binding (GO:0035198)|mRNA binding (GO:0003729)|poly(A) RNA binding (GO:0044822)|RNA 7-methylguanosine cap binding (GO:0000340)|siRNA binding (GO:0035197)|translation initiation factor activity (GO:0003743)										ATGCGGGTGGGCTTGAAGCGC	0.612																																																0													110	86	94					8																	141551316		2200	4300	6500	SO:0001583	missense	27161			AF121255	CCDS6380.1, CCDS55279.1	8q24.3	2013-02-15	2013-02-15	2013-02-15	ENSG00000123908	ENSG00000123908		"Argonaute/PIWI family"	3263	protein-coding gene	gene with protein product	"argonaute 2"	606229	"eukaryotic translation initiation factor 2C, 2"	EIF2C2		10534406, 12906857	Standard	NM_012154		Approved	hAGO2, Q10	uc003yvn.3	Q9UKV8	OTTHUMG00000164232	ENST00000220592.5:c.1981C>A	8.37:g.141551316G>T	ENSP00000220592:p.Pro661Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TCZ5|Q8WV58|Q96ID1	Missense_Mutation	SNP	ENST00000220592.5	37	CCDS6380.1	.	.	.	.	.	.	.	.	.	.	G	29.2	4.988289	0.93106	.	.	ENSG00000123908	ENST00000220592;ENST00000519980	T;T	0.49432	0.78;0.78	5.36	5.36	0.76844	Stem cell self-renewal protein Piwi (3);Ribonuclease H-like (1);	0.000000	0.85682	D	0.000000	D	0.84079	0.5393	H	0.99675	4.695	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.999;1.0	D	0.91325	0.5085	10	0.72032	D	0.01	-18.2573	19.4371	0.94799	0.0:0.0:1.0:0.0	.	661;661	Q9UKV8-2;Q9UKV8	.;AGO2_HUMAN	T	661	ENSP00000220592:P661T;ENSP00000430176:P661T	ENSP00000220592:P661T	P	-	1	0	EIF2C2	141620498	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.774000	0.98992	2.642000	0.89623	0.650000	0.86243	CCC		0.612	AGO2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377866.4			T	141551316	G	T	141551316	3	4	678	1	0	0	0	0	1	0	0	0	5008	1203	42	4	618	4	EIF2C2	8	141551316	Missense_Mutation	SNP	G	TCGA-KO-8407-01A-11D-2310-10	7877453	141551316	4812706	33	43765										
FAM154A	158297	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr9	18941779	18941779	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	catattctcttcactcgggaCgaactggtcatactggtgga	10	10	3	0			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr9:18941779C>T	ENST00000380534.4	-	3	556	c.277G>A	c.(277-279)Gtc>Atc	p.V93I	FAM154A_ENST00000542071.1_Intron|FAM154A_ENST00000380530.1_Intron	NM_153707.2	NP_714918.2	Q8IYX7	F154A_HUMAN	family with sequence similarity 154, member A	93										breast(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(13)|pancreas(1)|prostate(1)|skin(1)	26				GBM - Glioblastoma multiforme(50;6.53e-16)		TCACTCGGGACGAACTGGTCA	0.502																																																0													180	155	164					9																	18941779		2203	4300	6503	SO:0001583	missense	158297			BC033489	CCDS6487.1, CCDS75819.1, CCDS75820.1	9p22.1	2012-03-23	2008-02-21	2008-02-21	ENSG00000155875	ENSG00000155875			28566	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 138"	C9orf138		12477932	Standard	NM_153707		Approved	MGC35182	uc003zni.2	Q8IYX7	OTTHUMG00000019609	ENST00000380534.4:c.277G>A	9.37:g.18941779C>T	ENSP00000369907:p.Val93Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VY58	Missense_Mutation	SNP	ENST00000380534.4	37	CCDS6487.1	.	.	.	.	.	.	.	.	.	.	c	3.915	-0.019391	0.07634	.	.	ENSG00000155875	ENST00000380534	T	0.16897	2.31	5.83	-7.19	0.01500	.	0.944627	0.08746	N	0.899840	T	0.09423	0.0232	L	0.33245	0.995	0.32505	N	0.538404	B	0.24043	0.096	B	0.21151	0.033	T	0.31696	-0.9934	10	0.37606	T	0.19	-2.363	5.6389	0.17552	0.1061:0.1619:0.1047:0.6273	.	93	Q8IYX7	F154A_HUMAN	I	93	ENSP00000369907:V93I	ENSP00000369907:V93I	V	-	1	0	FAM154A	18931779	0.000000	0.05858	0.004000	0.12327	0.047000	0.14425	-2.446000	0.01010	-0.728000	0.04882	0.550000	0.68814	GTC		0.502	FAM154A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051811.1	NM_153707		T	18941779	C	T	18941779	3	4	678	1	0	0	0	0	1	0	0	0	5467	536	19	1	1155	1	FAM154A	9	18941779	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10		18941779	122271652	34	43766										
MAMDC4	158056	mdanderson.org	37	chr9	139752899	139752899	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gtggctggagccacctggccTggcccggcctgggcggatac	17	14	0	0	rs2275156	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr9:139752899T>G	ENST00000317446.2	+	22	2772	c.2722T>G	c.(2722-2724)Tgg>Ggg	p.W908G	MAMDC4_ENST00000485732.1_3'UTR|MAMDC4_ENST00000445819.1_Missense_Mutation_p.W987G	NM_206920.2	NP_996803.2			MAM domain containing 4											breast(4)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(1)|lung(4)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	19	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		CCACCTGGCCTGGCCCGGCCT	0.692																																																0								T	GLY/TRP	3660,734		1569,522,106	27	35	32		2722	1.3	0.2	9	dbSNP_100	32	6268,2320		2351,1566,377	yes	missense	MAMDC4	NM_206920.2	184	3920,2088,483	GG,GT,TT		27.0144,16.7046,23.5249	possibly-damaging	908/1138	139752899	9928,3054	2197	4294	6491	SO:0001583	missense	158056			AL834531	CCDS7010.1	9q34.3	2013-10-21			ENSG00000177943	ENSG00000177943			24083	protein-coding gene	gene with protein product	"apical early endosomal glycoprotein precursor", "endotubin"					7829488	Standard	NM_206920		Approved	AEGP, DKFZp434M1411	uc004cjs.3	Q6UXC1	OTTHUMG00000020951	ENST00000317446.2:c.2722T>G	9.37:g.139752899T>G	ENSP00000319388:p.Trp908Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000317446.2	37	CCDS7010.1	1541|1541	0.7055860805860806|0.7055860805860806	359|359	0.7296747967479674|0.7296747967479674	199|199	0.5497237569060773|0.5497237569060773	471|471	0.8234265734265734|0.8234265734265734	512|512	0.6754617414248021|0.6754617414248021	.|.	4.918|4.918	0.170594|0.170594	0.09391|0.09391	0.832954|0.832954	0.729856|0.729856	ENSG00000177943|ENSG00000177943	ENST00000413647|ENST00000317446;ENST00000445819	.|T;T	.|0.01725	.|4.67;4.67	5.05|5.05	1.29|1.29	0.21616|0.21616	.|Concanavalin A-like lectin/glucanase (1);MAM domain (3);	.|0.463995	.|0.19512	.|N	.|0.112484	T|T	0.00012|0.00012	0.0000|0.0000	M|M	0.63428|0.63428	1.95|1.95	0.46437|0.46437	P|P	9.510000000000352E-4|9.510000000000352E-4	.|B;P	.|0.40970	.|0.181;0.734	.|B;P	.|0.44696	.|0.287;0.458	T|T	0.23404|0.23404	-1.0189|-1.0189	4|9	.|0.10636	.|T	.|0.68	-9.2031|-9.2031	3.7674|3.7674	0.08627|0.08627	0.1504:0.2498:0.0:0.5998|0.1504:0.2498:0.0:0.5998	rs2275156;rs57694508|rs2275156;rs57694508	.|987;908	.|Q6UXC1;Q6UXC1-2	.|AEGP_HUMAN;.	R|G	972|908;987	.|ENSP00000319388:W908G;ENSP00000411339:W987G	.|ENSP00000319388:W908G	L|W	+|+	2|1	0|0	MAMDC4|MAMDC4	138872720|138872720	0.007000|0.007000	0.16637|0.16637	0.232000|0.232000	0.24009|0.24009	0.941000|0.941000	0.58515|0.58515	0.076000|0.076000	0.14712|0.14712	-0.021000|-0.021000	0.14009|0.14009	0.459000|0.459000	0.35465|0.35465	CTG|TGG		0.692	MAMDC4-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000254642.3	NM_206920		G	139752899	T	G	139752899	3	3	678	1	0	0	0	0	1	0	0	0	9211	1580	55	5	2808	5	MAMDC4	9	139752899	Missense_Mutation	SNP	T	TCGA-KO-8407-01A-11D-2310-10	120811120	139752899	1460532	35	43767										
ENTPD2	954	broad.mit.edu	37	chr9	139946006	139946006	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gctcccaggtagaggggtgtGcccgcgtgtctctctttggg	16	11	2	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr9:139946006G>T	ENST00000355097.2	-	3	389	c.342C>A	c.(340-342)ggC>ggA	p.G114G	ENTPD2_ENST00000312665.5_Silent_p.G114G|RP11-229P13.15_ENST00000439076.1_RNA|ENTPD2_ENST00000460614.1_5'Flank	NM_001246.3|NM_203468.2	NP_001237.1|NP_982293.1	Q9Y5L3	ENTP2_HUMAN	ectonucleoside triphosphate diphosphohydrolase 2	114					G-protein coupled receptor signaling pathway (GO:0007186)|platelet activation (GO:0030168)|purine ribonucleoside diphosphate catabolic process (GO:0009181)	basal lamina (GO:0005605)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|nucleoside-diphosphatase activity (GO:0017110)|nucleoside-triphosphatase activity (GO:0017111)			endometrium(1)|lung(5)|prostate(1)|skin(2)|urinary_tract(3)	12	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		AGAGGGGTGTGCCCGCGTGTC	0.617																																																0													67	64	65					9																	139946006		2202	4299	6501	SO:0001819	synonymous_variant	954			U91510	CCDS7025.1, CCDS7026.1	9q34	2008-07-21			ENSG00000054179	ENSG00000054179			3364	protein-coding gene	gene with protein product	"CD39-like-1", "ecto-ATPase"	602012		CD39L1		9271669	Standard	NM_203468		Approved	NTPDase-2	uc004ckw.2	Q9Y5L3	OTTHUMG00000020953	ENST00000355097.2:c.342C>A	9.37:g.139946006G>T		Somatic		WXS	Illumina HiSeq	Phase_I	O15464|Q5SPY6|Q5SPY7	Silent	SNP	ENST00000355097.2	37	CCDS7026.1																																																																																				0.617	ENTPD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055169.1	NM_203468		T	139946006	G	T	139946006	2	4	678	1	0	0	0	0	0	0	0	1	5141	1306	46	4		4	ENTPD2	9	139946006	Silent	SNP	G	TCGA-KO-8407-01A-11D-2310-10	193107	139946006	1267425	36	43768										
ADD3	120	bcgsc.ca	37	chr10	111890182	111890182	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	tcctaacccatttagtcatcTcacagaaggagaacttgaag	7	10	2	3			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr10:111890182T>C	ENST00000356080.4	+	13	2037	c.1670T>C	c.(1669-1671)cTc>cCc	p.L557P	ADD3_ENST00000360162.3_Missense_Mutation_p.L557P|ADD3_ENST00000277900.8_Missense_Mutation_p.L557P	NM_016824.3	NP_058432.1	Q9UEY8	ADDG_HUMAN	adducin 3 (gamma)	557						cell cortex (GO:0005938)|cell-cell junction (GO:0005911)|condensed nuclear chromosome (GO:0000794)|cytoskeleton (GO:0005856)|membrane (GO:0016020)|plasma membrane (GO:0005886)	structural constituent of cytoskeleton (GO:0005200)			central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(9)|ovary(2)|pancreas(1)|prostate(1)|skin(3)	29		Breast(234;0.052)|Lung NSC(174;0.223)		Epithelial(162;4.15e-05)|all cancers(201;0.000587)|BRCA - Breast invasive adenocarcinoma(275;0.0742)		TTTAGTCATCTCACAGAAGGA	0.383																																																0													156	142	147					10																	111890182		2203	4300	6503	SO:0001583	missense	120			U37122	CCDS7561.1, CCDS7562.1	10q25.2	2005-11-08			ENSG00000148700	ENSG00000148700			245	protein-coding gene	gene with protein product		601568		ADDL		8893809	Standard	XM_005269529		Approved		uc001kyv.3	Q9UEY8	OTTHUMG00000019032	ENST00000356080.4:c.1670T>C	10.37:g.111890182T>C	ENSP00000348381:p.Leu557Pro	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRA8|O43243|Q5VU09|Q92773|Q9UEY7	Missense_Mutation	SNP	ENST00000356080.4	37	CCDS7561.1	.	.	.	.	.	.	.	.	.	.	T	21.2	4.117345	0.77323	.	.	ENSG00000148700	ENST00000360162;ENST00000356080;ENST00000277900	T;T;T	0.20738	2.05;2.05;2.05	5.9	5.9	0.94986	.	0.121775	0.56097	D	0.000032	T	0.48390	0.1497	M	0.73430	2.235	0.80722	D	1	D;D	0.89917	0.997;1.0	D;D	0.79108	0.949;0.992	T	0.50372	-0.8836	10	0.87932	D	0	-4.0791	16.3291	0.83001	0.0:0.0:0.0:1.0	.	557;557	Q9UEY8;Q9UEY8-2	ADDG_HUMAN;.	P	557	ENSP00000353286:L557P;ENSP00000348381:L557P;ENSP00000277900:L557P	ENSP00000277900:L557P	L	+	2	0	ADD3	111880172	1.000000	0.71417	1.000000	0.80357	0.959000	0.62525	4.989000	0.63870	2.257000	0.74773	0.528000	0.53228	CTC		0.383	ADD3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000050289.1	NM_019903		C	111890182	T	C	111890182	3	2	678	1	0	0	0	0	1	0	0	0	306	1551	54	3	1716	3	ADD3	10	111890182	Missense_Mutation	SNP	T	TCGA-KO-8407-01A-11D-2310-10		111890182	23644565	37	43769										
SYT8	90019	mdanderson.org	37	chr11	1858572	1858572	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	cccggcggcccattgcccagCggcaccccctgcggccagcc	12	22	0	0	rs2292474	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr11:1858572C>T	ENST00000381968.3	+	9	1245	c.1117C>T	c.(1117-1119)Cgg>Tgg	p.R373W	TNNI2_ENST00000252898.7_5'Flank|TNNI2_ENST00000381905.3_5'Flank|TNNI2_ENST00000381911.1_5'Flank|SYT8_ENST00000535046.1_3'UTR|SYT8_ENST00000341958.3_Missense_Mutation_p.R359W|TNNI2_ENST00000381906.1_5'Flank	NM_138567.3	NP_612634	Q8NBV8	SYT8_HUMAN	synaptotagmin VIII	373					acrosome reaction (GO:0007340)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)	transporter activity (GO:0005215)			breast(1)|large_intestine(1)|lung(2)|ovary(1)|skin(1)	6		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;0.00136)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		CATTGCCCAGCGGCACCCCCT	0.731													T|||	1928	0.384984	0.1679	0.415	5008	,	,		13483	0.378		0.498	False		,,,				2504	0.5481															0								T	TRP/ARG	906,3442		119,668,1387	12	14	14		1117	2.7	1	11	dbSNP_100	14	4072,4398		1026,2020,1189	no	missense	SYT8	NM_138567.3	101	1145,2688,2576	TT,TC,CC		48.0756,20.8372,38.836	benign	373/402	1858572	4978,7840	2174	4235	6409	SO:0001583	missense	90019			AL137708	CCDS7726.2	11p15.5	2013-01-21			ENSG00000149043	ENSG00000149043		"Synaptotagmins"	19264	protein-coding gene	gene with protein product		607719				7791877	Standard	XM_005253216		Approved	DKFZp434K0322	uc001lue.1	Q8NBV8	OTTHUMG00000009026	ENST00000381968.3:c.1117C>T	11.37:g.1858572C>T	ENSP00000371394:p.Arg373Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFJ4|Q9NSV9	Missense_Mutation	SNP	ENST00000381968.3	37	CCDS7726.2	855|855	0.3914835164835165|0.3914835164835165	84|84	0.17073170731707318|0.17073170731707318	163|163	0.45027624309392267|0.45027624309392267	226|226	0.3951048951048951|0.3951048951048951	382|382	0.503957783641161|0.503957783641161	t|t	1.107|1.107	-0.659353|-0.659353	0.03454|0.03454	0.208372|0.208372	0.480756|0.480756	ENSG00000149043|ENSG00000149043	ENST00000381978|ENST00000381968;ENST00000341958	.|T;T	.|0.03951	.|3.77;3.75	3.85|3.85	2.68|2.68	0.31781|0.31781	.|.	.|.	.|.	.|.	.|.	T|T	0.00012|0.00012	0.0000|0.0000	N|N	0.00005|0.00005	-3.275|-3.275	0.09310|0.09310	P|P	1.0|1.0	.|B;B	.|0.02656	.|0.0;0.0	.|B;B	.|0.01281	.|0.0;0.0	T|T	0.41928|0.41928	-0.9481|-0.9481	4|8	.|0.02654	.|T	.|1	.|.	8.5203|8.5203	0.33270|0.33270	0.0:0.1655:0.0:0.8345|0.0:0.1655:0.0:0.8345	rs2292474|rs2292474	.|373;359	.|Q8NBV8;A6NCR4	.|SYT8_HUMAN;.	V|W	371|373;359	.|ENSP00000371394:R373W;ENSP00000343691:R359W	.|ENSP00000343691:R359W	A|R	+|+	2|1	0|2	SYT8|SYT8	1815148|1815148	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.293000|0.293000	0.27360|0.27360	3.304000|3.304000	0.51866|0.51866	0.174000|0.174000	0.19809|0.19809	-0.665000|-0.665000	0.03846|0.03846	GCG|CGG		0.731	SYT8-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000025013.4			T	1858572	C	T	1858572	3	4	678	1	0	0	0	0	1	0	0	0	15492	759	27	1	1151	1	SYT8	11	1858572	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10		1858572	133147944	38	43770										
SYT9	143425	broad.mit.edu	37	chr11	7439309	7439309	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	atagtctttgatgtccctccCgagaacattgaccaaatcca	6	12	1	3	rs375976845		TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr11:7439309C>T	ENST00000318881.6	+	5	1524	c.1287C>T	c.(1285-1287)ccC>ccT	p.P429P		NM_175733.3	NP_783860.1	Q86SS6	SYT9_HUMAN	synaptotagmin IX	429	C2 2. {ECO:0000255|PROSITE- ProRule:PRU00041}.				positive regulation of calcium ion-dependent exocytosis (GO:0045956)|regulation of insulin secretion (GO:0050796)	cell junction (GO:0030054)|dense core granule (GO:0031045)|integral component of membrane (GO:0016021)|secretory granule membrane (GO:0030667)|synaptic vesicle (GO:0008021)	metal ion binding (GO:0046872)|transporter activity (GO:0005215)	p.P429P(1)		NS(1)|endometrium(2)|large_intestine(9)|lung(17)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	38				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		ATGTCCCTCCCGAGAACATTG	0.473													C|||	1	0.000199681	0.0	0.0014	5008	,	,		23605	0.0		0.0	False		,,,				2504	0.0															1	Substitution - coding silent(1)	lung(1)						C		1,4401	2.1+/-5.4	0,1,2200	175	147	157		1287	-11.7	0.7	11		157	0,8592		0,0,4296	no	coding-synonymous	SYT9	NM_175733.3		0,1,6496	TT,TC,CC		0.0,0.0227,0.0077		429/492	7439309	1,12993	2201	4296	6497	SO:0001819	synonymous_variant	143425			AK055003	CCDS7778.1	11p15.4	2013-01-21			ENSG00000170743	ENSG00000170743		"Synaptotagmins"	19265	protein-coding gene	gene with protein product		613528				11543631	Standard	NM_175733		Approved		uc001mfe.3	Q86SS6	OTTHUMG00000165499	ENST00000318881.6:c.1287C>T	11.37:g.7439309C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000318881.6	37	CCDS7778.1																																																																																				0.473	SYT9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384483.1	NM_175733		T	7439309	C	T	7439309	2	4	678	1	0	0	0	0	0	0	0	1	15493	639	23	1		1	SYT9	11	7439309	Silent	SNP	C	TCGA-KO-8407-01A-11D-2310-10	5580737	7439309	127567207	39	43771										
QSER1	79832	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	32954825	32954825	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ttcccctgacccaaagtcttAtgctgaaagaaagcttgact	7	11	1	4			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr11:32954825A>T	ENST00000399302.2	+	4	1969	c.1634A>T	c.(1633-1635)tAt>tTt	p.Y545F	QSER1_ENST00000527788.1_Missense_Mutation_p.Y306F	NM_001076786.1	NP_001070254.1	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	545										breast(5)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(16)|ovary(4)|prostate(1)|skin(5)|stomach(1)|urinary_tract(1)	48	Breast(20;0.158)					CCAAAGTCTTATGCTGAAAGA	0.413																																																0													108	102	104					11																	32954825		1889	4123	6012	SO:0001583	missense	79832			AL834141	CCDS41631.1	11p13	2014-02-12			ENSG00000060749	ENSG00000060749			26154	protein-coding gene	gene with protein product							Standard	XM_006718323		Approved	FLJ21924	uc001mty.3	Q2KHR3		ENST00000399302.2:c.1634A>T	11.37:g.32954825A>T	ENSP00000382241:p.Tyr545Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZU30|Q6ZUR5	Missense_Mutation	SNP	ENST00000399302.2	37	CCDS41631.1	.	.	.	.	.	.	.	.	.	.	A	12.15	1.851349	0.32699	.	.	ENSG00000060749	ENST00000399302;ENST00000078652;ENST00000527788	T;T	0.24908	2.16;1.83	5.01	5.01	0.66863	.	0.000000	0.64402	D	0.000014	T	0.44932	0.1317	M	0.64997	1.995	0.42017	D	0.990965	D;D;D	0.67145	0.995;0.996;0.993	P;P;P	0.60609	0.852;0.877;0.757	T	0.44967	-0.9293	10	0.59425	D	0.04	.	15.0045	0.71501	1.0:0.0:0.0:0.0	.	306;306;545	C9JJ88;Q2KHR3-2;Q2KHR3	.;.;QSER1_HUMAN	F	545;306;306	ENSP00000382241:Y545F;ENSP00000432766:Y306F	ENSP00000078652:Y306F	Y	+	2	0	QSER1	32911401	1.000000	0.71417	0.958000	0.39756	0.017000	0.09413	5.277000	0.65586	2.019000	0.59389	0.482000	0.46254	TAT		0.413	QSER1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388448.1	NM_024774		T	32954825	A	T	32954825	3	4	678	1	0	0	0	0	1	0	0	0	12895	449	16	5	1640	5	QSER1	11	32954825	Missense_Mutation	SNP	A	TCGA-KO-8407-01A-11D-2310-10	25515516	32954825	102051691	40	43772										
CAPRIN1	4076	broad.mit.edu	37	chr11	34118204	34118204	+	Frame_Shift_Del	DEL	T	T	-													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	atgaatggataccggggcccTgccaatggattcagaggtaa							TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr11:34118204delT	ENST00000341394.4	+	16	2073	c.1884delT	c.(1882-1884)cctfs	p.P628fs	CAPRIN1_ENST00000530820.1_Frame_Shift_Del_p.P628fs|CAPRIN1_ENST00000389645.3_Frame_Shift_Del_p.P628fs|CAPRIN1_ENST00000533657.1_3'UTR|CAPRIN1_ENST00000529307.1_Frame_Shift_Del_p.P547fs|CAPRIN1_ENST00000532820.1_Frame_Shift_Del_p.P628fs	NM_005898.4	NP_005889.3	Q14444	CAPR1_HUMAN	cell cycle associated protein 1	628					negative regulation of translation (GO:0017148)|positive regulation of dendrite morphogenesis (GO:0050775)|positive regulation of dendritic spine morphogenesis (GO:0061003)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic mRNA processing body (GO:0000932)|cytoplasmic stress granule (GO:0010494)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			breast(2)|endometrium(2)|kidney(1)|large_intestine(6)|lung(5)|ovary(1)|prostate(1)	18		Acute lymphoblastic leukemia(5;0.00045)|all_hematologic(20;0.0016)				ACCGGGGCCCTGCCAATGGAT	0.403																																																0													57	63	61					11																	34118204		2202	4298	6500	SO:0001589	frameshift_variant	4076			BC001731	CCDS31453.1, CCDS31454.1	11p13	2010-08-03	2007-03-27	2007-03-27	ENSG00000135387	ENSG00000135387			6743	protein-coding gene	gene with protein product	"cytoplasmic activation/proliferation-associated protein-1"	601178	"membrane component, chromosome 11, surface marker 1", "GPI-anchored membrane protein 1"	M11S1, GPIAP1		7657653, 16177067, 17210633, 14764709, 15471883	Standard	NM_005898		Approved	caprin-1, RNG105	uc001mvh.1	Q14444	OTTHUMG00000166248	ENST00000341394.4:c.1884delT	11.37:g.34118204delT	ENSP00000340329:p.Pro628fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMY7|D3DR06|Q15074|Q6IMN4|Q6IMN7|Q9BV09	Frame_Shift_Del	DEL	ENST00000341394.4	37	CCDS31453.1																																																																																				0.403	CAPRIN1-001	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000388680.2	NM_005898		-	34118204	T	-	34118204	7	5	678	1	0	1	0	1	0	0	0	0	2637	1567	55	0	1942	0	CAPRIN1	11	34118204	Frame_Shift_Del	DEL	T	TCGA-KO-8407-01A-11D-2310-10	1163379	34118204	100888312	41	43773										
OR5A1	219982	mdanderson.org	37	chr11	59211421	59211421	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ctgtttgggacagcccttttCgtgtacttgcgacccagctc	10	13	0	0	rs17591107	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr11:59211421C>T	ENST00000302030.2	+	1	805	c.780C>T	c.(778-780)ttC>ttT	p.F260F		NM_001004728.1	NP_001004728.1	Q8NGJ0	OR5A1_HUMAN	olfactory receptor, family 5, subfamily A, member 1	260						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			central_nervous_system(1)|endometrium(3)|large_intestine(2)|lung(14)|ovary(2)|prostate(2)|skin(3)|stomach(1)	28						CAGCCCTTTTCGTGTACTTGC	0.537													C|||	630	0.125799	0.0242	0.1326	5008	,	,		21088	0.1111		0.2525	False		,,,				2504	0.1431															0								C		251,4151	146.9+/-181.5	10,231,1960	265	215	232		780	6	1	11	dbSNP_123	232	2264,6326	383.3+/-340.7	283,1698,2314	no	coding-synonymous	OR5A1	NM_001004728.1		293,1929,4274	TT,TC,CC		26.3562,5.702,19.3581		260/316	59211421	2515,10477	2201	4295	6496	SO:0001819	synonymous_variant	219982			AB065804	CCDS31561.1	11q12.1	2012-08-09			ENSG00000172320	ENSG00000172320		"GPCR / Class A : Olfactory receptors"	8319	protein-coding gene	gene with protein product				OR5A1P			Standard	NM_001004728		Approved	OST181	uc001nnx.1	Q8NGJ0	OTTHUMG00000167339	ENST00000302030.2:c.780C>T	11.37:g.59211421C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B9EH58|Q6IFF2|Q96RB1	Silent	SNP	ENST00000302030.2	37	CCDS31561.1																																																																																				0.537	OR5A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394233.1	NM_001004728		T	59211421	C	T	59211421	2	4	678	1	0	0	0	0	0	0	0	1	11146	883	31	1		1	OR5A1	11	59211421	Silent	SNP	C	TCGA-KO-8407-01A-11D-2310-10	25093217	59211421	75795095	42	43774										
C11orf9	745	broad.mit.edu	37	chr11	61537812	61537813	+	Frame_Shift_Ins	INS	-	-	C													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ccccacctccagcccacttgINSccaggccccccgccaccccc					rs531308836	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr11:61537812_61537813insC	ENST00000278836.5	+	5	651_652	c.555_556insC	c.(556-558)ccafs	p.P186fs	TMEM258_ENST00000535042.1_Intron|MYRF_ENST00000265460.5_Frame_Shift_Ins_p.P177fs	NM_001127392.1	NP_001120864.1	Q9Y2G1	MRF_HUMAN	myelin regulatory factor	186	Pro-rich.				central nervous system myelin maintenance (GO:0032286)|central nervous system myelination (GO:0022010)|oligodendrocyte development (GO:0014003)|oligodendrocyte differentiation (GO:0048709)|positive regulation of myelination (GO:0031643)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	DNA binding (GO:0003677)|peptidase activity (GO:0008233)|sequence-specific DNA binding transcription factor activity (GO:0003700)										CAGCCCACTTGCCAGGCCCCCC	0.688																																																0																																										SO:0001589	frameshift_variant	745				CCDS31579.1, CCDS44622.1	11q12-q13.1	2012-12-19	2012-12-19	2012-12-19	ENSG00000124920	ENSG00000124920			1181	protein-coding gene	gene with protein product	"myelin gene regulatory factor"	608329	"chromosome 11 open reading frame 9"	C11orf9		10828591, 12384578	Standard	NM_001127392		Approved	Ndt80, pqn-47, MRF	uc001nsc.1	Q9Y2G1	OTTHUMG00000168161	ENST00000278836.5:c.557dupC	11.37:g.61537814_61537814dupC	ENSP00000278836:p.Pro186fs	Somatic		WXS	Illumina HiSeq	Phase_I	O43582|Q9P1Q6	Frame_Shift_Ins	INS	ENST00000278836.5	37	CCDS44622.1																																																																																				0.688	MYRF-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000398519.2	NM_013279		C	61537813	-	C	61537812	7	5	678	1	0	1	1	0	0	0	0	0	1673	1310	46	0	596	0	C11orf9	11	61537812	Frame_Shift_Ins	INS	-	TCGA-KO-8407-01A-11D-2310-10	2326391	61537812	73468704	43	43775										
FRMD8	83786	broad.mit.edu	37	chr11	65172422	65172423	+	Frame_Shift_Ins	INS	-	-	C													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ccaggacagtgcgactggctINScgccctcggaccccagctcc					rs139552682		TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr11:65172422_65172423insC	ENST00000317568.5	+	10	1322_1323	c.1159_1160insC	c.(1159-1161)tcgfs	p.S387fs	FRMD8_ENST00000416776.2_Frame_Shift_Ins_p.S353fs|FRMD8_ENST00000355991.5_Frame_Shift_Ins_p.S331fs	NM_031904.3	NP_114110.1	Q9BZ67	FRMD8_HUMAN	FERM domain containing 8	387						cytoskeleton (GO:0005856)				NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(1)|lung(9)|pancreas(1)|urinary_tract(1)	17						TGCGACTGGCTCGCCCTCGGAC	0.663																																																0																																										SO:0001589	frameshift_variant	83786			AK074850	CCDS8102.1, CCDS73320.1	11q13.1	2007-08-14			ENSG00000126391	ENSG00000126391			25462	protein-coding gene	gene with protein product						12477932	Standard	NM_031904		Approved	FLJ90369, FKSG44	uc001odu.4	Q9BZ67	OTTHUMG00000166275	ENST00000317568.5:c.1160dupC	11.37:g.65172423_65172423dupC	ENSP00000319726:p.Ser387fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2P1|Q86V56|Q8NCB5	Frame_Shift_Ins	INS	ENST00000317568.5	37	CCDS8102.1																																																																																				0.663	FRMD8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388833.1	NM_031904		C	65172423	-	C	65172422	7	5	678	1	0	1	1	0	0	0	0	0	6063	1551	54	0	1193	0	FRMD8	11	65172422	Frame_Shift_Ins	INS	-	TCGA-KO-8407-01A-11D-2310-10	3634610	65172422	69834094	44	43776										
IQSEC3	440073	mdanderson.org	37	chr12	248071	248071	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gccaactgcctgggcgctcaGacggtccaggcccccgcaga	13	17	1	2	rs77474006	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr12:248071G>C	ENST00000538872.1	+	4	1660	c.1542G>C	c.(1540-1542)caG>caC	p.Q514H	RP11-598F7.4_ENST00000508953.2_RNA|IQSEC3_ENST00000382841.2_Missense_Mutation_p.Q211H|IQSEC3_ENST00000326261.4_Missense_Mutation_p.Q514H|RP11-598F7.4_ENST00000505893.2_RNA			Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	514				Q -> H (in Ref. 1; AK091953). {ECO:0000305}.	actin cytoskeleton organization (GO:0030036)|positive regulation of GTPase activity (GO:0043547)|regulation of ARF protein signal transduction (GO:0032012)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|inhibitory synapse (GO:0060077)|postsynaptic membrane (GO:0045211)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)			central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(6)|lung(18)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	35	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		TGGGCGCTCAGACGGTCCAGG	0.711													G|||	285	0.0569089	0.0106	0.1023	5008	,	,		11482	0.0923		0.0487	False		,,,				2504	0.0593															0								G	HIS/GLN,HIS/GLN	89,4315		2,85,2115	28	24	26		633,1542	1.8	0	12	dbSNP_131	26	516,8078		20,476,3801	yes	missense,missense	IQSEC3	NM_015232.1,NM_001170738.1	24,24	22,561,5916	CC,CG,GG		6.0042,2.0209,4.6546	benign,benign	211/760,514/1183	248071	605,12393	2202	4297	6499	SO:0001583	missense	440073			AB029033	CCDS31725.1, CCDS53728.1	12p13.33	2014-03-18			ENSG00000120645	ENSG00000120645			29193	protein-coding gene	gene with protein product		612118				10470851	Standard	NM_001170738		Approved	KIAA1110, MGC30156	uc001qhw.2	Q9UPP2	OTTHUMG00000167975	ENST00000538872.1:c.1542G>C	12.37:g.248071G>C	ENSP00000437554:p.Gln514His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NIF2|A6NKV9|Q8TB43	Missense_Mutation	SNP	ENST00000538872.1	37	CCDS53728.1	114	0.0521978021978022	3	0.006097560975609756	28	0.07734806629834254	46	0.08041958041958042	37	0.048812664907651716	G	16.49	3.137794	0.56936	0.020209	0.060042	ENSG00000120645	ENST00000538872;ENST00000326261;ENST00000382841	T;T;T	0.10288	2.89;2.89;2.9	5.14	1.79	0.24919	.	2.881560	0.00496	N	0.000144	T	0.00815	0.0027	M	0.68952	2.095	0.80722	P	0.0	B;B	0.14805	0.011;0.004	B;B	0.12156	0.005;0.007	T	0.27468	-1.0073	9	0.54805	T	0.06	.	7.7839	0.29080	0.1955:0.1367:0.6678:0.0	.	514;211	Q9UPP2;Q9UPP2-2	IQEC3_HUMAN;.	H	514;514;211	ENSP00000437554:Q514H;ENSP00000315662:Q514H;ENSP00000372292:Q211H	ENSP00000315662:Q514H	Q	+	3	2	IQSEC3	118332	0.024000	0.19004	0.018000	0.16275	0.006000	0.05464	0.502000	0.22594	0.543000	0.28864	0.561000	0.74099	CAG		0.711	IQSEC3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397382.3	XM_495902		C	248071	G	C	248071	3	2	678	1	0	0	0	0	1	0	0	0	7826	933	33	4	1556	4	IQSEC3	12	248071	Missense_Mutation	SNP	G	TCGA-KO-8407-01A-11D-2310-10		248071	133603824	45	43777										
PRB4	5545	mdanderson.org	37	chr12	11461742	11461742	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	tcctccttgtgggggtggtcCttgtggctttcctggaggag	16	9	0	0			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr12:11461742C>T	ENST00000535904.1	-	3	208	c.175G>A	c.(175-177)Gga>Aga	p.G59R	PRB4_ENST00000279575.1_Missense_Mutation_p.G59R|PRB4_ENST00000445719.2_Missense_Mutation_p.G59R			P10163	PRB4_HUMAN	proline-rich protein BstNI subfamily 4	80	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.					extracellular region (GO:0005576)				breast(2)|endometrium(2)|kidney(2)|large_intestine(4)|lung(12)|ovary(1)|skin(4)|upper_aerodigestive_tract(3)	30						GGGGGTGGTCCTTGTGGCTTT	0.627										HNSCC(22;0.051)																																						0													205	222	216					12																	11461742		2201	4293	6494	SO:0001583	missense	5545				CCDS8641.1, CCDS58208.1	12p13.2	2012-10-02			ENSG00000230657	ENSG00000230657			9340	protein-coding gene	gene with protein product		180990					Standard	NM_002723		Approved		uc001qzt.4	P10163	OTTHUMG00000169116	ENST00000535904.1:c.175G>A	12.37:g.11461742C>T	ENSP00000442834:p.Gly59Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A1L439|O00600|P02813|P10161|P10162|P81489	Missense_Mutation	SNP	ENST00000535904.1	37	CCDS8641.1	.	.	.	.	.	.	.	.	.	.	.	1.855	-0.464114	0.04476	.	.	ENSG00000230657	ENST00000279575;ENST00000535904;ENST00000445719	T;T;T	0.04862	3.54;3.54;3.54	0.956	-1.91	0.07641	.	.	.	.	.	T	0.06554	0.0168	M	0.66297	2.02	0.09310	N	1	B	0.12630	0.006	B	0.06405	0.002	T	0.40079	-0.9582	9	0.31617	T	0.26	.	2.5673	0.04786	0.0:0.3453:0.2742:0.3805	.	59	E9PAL0	.	R	59	ENSP00000279575:G59R;ENSP00000442834:G59R;ENSP00000412740:G59R	ENSP00000279575:G59R	G	-	1	0	PRB4	11353009	0.000000	0.05858	0.000000	0.03702	0.018000	0.09664	-2.693000	0.00829	-1.187000	0.02709	0.196000	0.17591	GGA		0.627	PRB4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000402308.1	NM_002723		T	11461742	C	T	11461742	3	4	678	1	0	0	0	0	1	0	0	0	12455	690	24	2	572	2	PRB4	12	11461742	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10	11213671	11461742	122390153	46	43778										
DDX11	1663	mdanderson.org	37	chr12	31242999	31242999	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	cccgggcctgtccctattacGggagccgccttgccatccct	10	18	0	0	rs553935649	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr12:31242999G>A	ENST00000407793.2	+	9	1311	c.1060G>A	c.(1060-1062)Ggg>Agg	p.G354R	DDX11_ENST00000542838.1_Missense_Mutation_p.G354R|DDX11_ENST00000228264.6_Missense_Mutation_p.G328R|DDX11_ENST00000350437.4_Missense_Mutation_p.G354R|DDX11_ENST00000545668.1_Missense_Mutation_p.G354R|DDX11_ENST00000251758.5_3'UTR	NM_030653.3|NM_152438.1	NP_085911.2|NP_689651.1	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11	354	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|ATP catabolic process (GO:0006200)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|sister chromatid cohesion (GO:0007062)|viral process (GO:0016032)	midbody (GO:0030496)|nuclear chromatin (GO:0000790)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle pole (GO:0000922)	4 iron, 4 sulfur cluster binding (GO:0051539)|ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA-dependent ATPase activity (GO:0008094)|double-stranded DNA binding (GO:0003690)|helicase activity (GO:0004386)|metal ion binding (GO:0046872)|RNA binding (GO:0003723)|single-stranded DNA binding (GO:0003697)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(11)|large_intestine(5)|lung(23)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	57	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					TCCCTATTACGGGAGCCGCCT	0.657										Multiple Myeloma(12;0.14)			G|||	521	0.104034	0.0446	0.1412	5008	,	,		17385	0.131		0.1501	False		,,,				2504	0.0828															0													2	2	2					12																	31242999		1402	2986	4388	SO:0001583	missense	1663			U75969	CCDS8721.1, CCDS41767.1, CCDS44856.1, CCDS58224.1	12p11.21	2012-02-23	2012-02-23		ENSG00000013573	ENSG00000013573		"DEAD-boxes"	2736	protein-coding gene	gene with protein product	"CHL1-like helicase homolog (S. cerevisiae)"	601150	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11 (S.cerevisiae CHL1-like helicase)", "DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11"				Standard	NM_030653		Approved	CHLR1, KRG2, CHL1, ChlR1, WABS	uc001rjv.2	Q96FC9	OTTHUMG00000168435	ENST00000407793.2:c.1060G>A	12.37:g.31242999G>A	ENSP00000384703:p.Gly354Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q13333|Q86VQ4|Q86W62|Q92498|Q92770|Q92998|Q92999	Missense_Mutation	SNP	ENST00000407793.2	37	CCDS44856.1	.	.	.	.	.	.	.	.	.	.	G	16.74	3.205774	0.58234	.	.	ENSG00000013573	ENST00000542838;ENST00000407793;ENST00000404673;ENST00000228264;ENST00000545668;ENST00000350437	T;T;T;T;T	0.70749	-0.49;-0.51;-0.49;-0.51;-0.51	3.98	3.98	0.46160	DEAD2 (1);Helicase-like, DEXD box c2 type (1);Helicase, superfamily 1/2, ATP-binding domain, DinG/Rad3-type (1);	0.224870	0.45126	D	0.000399	T	0.80879	0.4708	M	0.74647	2.275	0.80722	D	1	D;D;D;D;D	0.89917	0.999;1.0;1.0;1.0;1.0	D;D;D;D;D	0.77557	0.981;0.957;0.99;0.959;0.973	T	0.81669	-0.0828	10	0.59425	D	0.04	.	8.967	0.35883	0.0:0.0:0.7785:0.2215	.	79;328;354;354;354	Q93000;Q96FC9-3;Q96FC9;Q96FC9-4;Q96FC9-2	.;.;DDX11_HUMAN;.;.	R	354;354;79;328;354;354	ENSP00000443426:G354R;ENSP00000384703:G354R;ENSP00000228264:G328R;ENSP00000440402:G354R;ENSP00000309965:G354R	ENSP00000228264:G328R	G	+	1	0	DDX11	31134266	1.000000	0.71417	0.962000	0.40283	0.851000	0.48451	4.533000	0.60615	2.038000	0.60285	0.505000	0.49811	GGG		0.657	DDX11-202	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000399728.1	NM_030653		A	31242999	G	A	31242999	3	1	678	1	0	0	0	0	1	0	0	0	4345	1116	39	1	1090	1	DDX11	12	31242999	Missense_Mutation	SNP	G	TCGA-KO-8407-01A-11D-2310-10	19781257	31242999	102608896	47	43779										
MLL2	8085	broad.mit.edu	37	chr12	49415604	49415605	+	Frame_Shift_Ins	INS	-	-	G													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ttccaggctccacagtggcaINSggggatcttgtgctgatcgt							TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr12:49415604_49415605insG	ENST00000301067.7	-	54	16571_16572	c.16572_16573insC	c.(16570-16575)ccctgcfs	p.C5525fs	RP11-386G11.5_ENST00000547866.1_RNA|PRKAG1_ENST00000548065.1_5'Flank|RP11-386G11.5_ENST00000552933.1_RNA	NM_003482.3	NP_003473.3	O14686	KMT2D_HUMAN	lysine (K)-specific methyltransferase 2D	5525	Post-SET. {ECO:0000255|PROSITE- ProRule:PRU00155}.				chromatin silencing (GO:0006342)|histone H3-K4 methylation (GO:0051568)|oocyte growth (GO:0001555)|oogenesis (GO:0048477)|positive regulation of cell proliferation (GO:0008284)|positive regulation of intracellular estrogen receptor signaling pathway (GO:0033148)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|response to estrogen (GO:0043627)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)										CCACAGTGGCAGGGGATCTTGT	0.51																																																0																																										SO:0001589	frameshift_variant	8085			AF010403	CCDS44873.1	12q13.12	2013-05-09	2013-05-09	2013-05-09	ENSG00000167548	ENSG00000167548		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	7133	protein-coding gene	gene with protein product		602113	"trinucleotide repeat containing 21", "myeloid/lymphoid or mixed-lineage leukemia 2"	TNRC21, MLL2		9247308	Standard	NM_003482		Approved	ALR, MLL4, CAGL114		O14686	OTTHUMG00000166524	ENST00000301067.7:c.16573dupC	12.37:g.49415608_49415608dupG	ENSP00000301067:p.Cys5525fs	Somatic		WXS	Illumina HiSeq	Phase_I	O14687	Frame_Shift_Ins	INS	ENST00000301067.7	37	CCDS44873.1																																																																																				0.51	KMT2D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390183.2			G	49415605	-	G	49415604	7	5	678	1	0	1	1	0	0	0	0	0	9628	188	7	0	44	0	MLL2	12	49415604	Frame_Shift_Ins	INS	-	TCGA-KO-8407-01A-11D-2310-10	18172605	49415604	84436291	48	43780										
KRT6B	3854	mdanderson.org	37	chr12	52843581	52843581	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	aggaagttgatctcatctgtAagagtgtctgccttggcttg	12	7	3	2	rs382894		TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr12:52843581A>G	ENST00000252252.3	-	4	920	c.873T>C	c.(871-873)ctT>ctC	p.L291L		NM_005555.3	NP_005546.2	P04259	K2C6B_HUMAN	keratin 6B	291	Coil 1B.|Rod.				ectoderm development (GO:0007398)	extracellular vesicular exosome (GO:0070062)|keratin filament (GO:0045095)	structural constituent of cytoskeleton (GO:0005200)	p.L291L(1)		NS(1)|breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(19)|ovary(4)|prostate(2)	40				BRCA - Breast invasive adenocarcinoma(357;0.083)		TCTCATCTGTAAGAGTGTCTG	0.488																																																1	Substitution - coding silent(1)	prostate(1)											186	173	177					12																	52843581		2203	4300	6503	SO:0001819	synonymous_variant	3854			BC034535	CCDS8828.1	12q13.13	2013-01-16	2004-08-11		ENSG00000185479	ENSG00000185479		"-", "Intermediate filaments type II, keratins (basic)"	6444	protein-coding gene	gene with protein product		148042	"keratin-like 1 (a type II keratin sequence)"	KRTL1		1713141, 16831889	Standard	NM_005555		Approved		uc001sak.3	P04259	OTTHUMG00000169593	ENST00000252252.3:c.873T>C	12.37:g.52843581A>G		Somatic		WXS	Illumina HiSeq	Phase_I	P48669	Silent	SNP	ENST00000252252.3	37	CCDS8828.1																																																																																				0.488	KRT6B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404969.1	NM_005555		G	52843581	A	G	52843581	2	3	678	1	0	0	0	0	0	0	0	1	8488	349	13	3		3	KRT6B	12	52843581	Silent	SNP	A	TCGA-KO-8407-01A-11D-2310-10	3427977	52843581	81008314	49	43781										
CEP290	80184	broad.mit.edu	37	chr12	88443060	88443060	+	Frame_Shift_Del	DEL	T	T	-													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	actcccaattgttctgaaagTttttttaccttctcttctaa							TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr12:88443060delT	ENST00000552810.1	-	54	7684	c.7341delA	c.(7339-7341)aaafs	p.K2447fs	CEP290_ENST00000547691.2_Frame_Shift_Del_p.K1507fs|RNA5SP364_ENST00000516938.1_RNA|CEP290_ENST00000309041.7_Frame_Shift_Del_p.K2449fs|C12orf29_ENST00000356891.3_3'UTR|CEP290_ENST00000397838.3_Frame_Shift_Del_p.K1507fs	NM_025114.3	NP_079390.3	O15078	CE290_HUMAN	centrosomal protein 290kDa	2447					cilium assembly (GO:0042384)|cilium morphogenesis (GO:0060271)|establishment or maintenance of cell polarity (GO:0007163)|eye photoreceptor cell development (GO:0042462)|G2/M transition of mitotic cell cycle (GO:0000086)|hindbrain development (GO:0030902)|mitotic cell cycle (GO:0000278)|otic vesicle formation (GO:0030916)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of transcription, DNA-templated (GO:0045893)|pronephros development (GO:0048793)|protein transport (GO:0015031)|regulation of cAMP metabolic process (GO:0030814)|regulation of establishment of protein localization (GO:0070201)|retina development in camera-type eye (GO:0060041)	centriolar satellite (GO:0034451)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)|photoreceptor connecting cilium (GO:0032391)|protein complex (GO:0043234)|TCTN-B9D complex (GO:0036038)				breast(4)|central_nervous_system(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(20)|liver(1)|lung(18)|ovary(5)|pancreas(1)|prostate(2)|stomach(1)|upper_aerodigestive_tract(1)	73						GTTCTGAAAGTTTTTTTACCT	0.308																																																0													80	79	80					12																	88443060		1796	4061	5857	SO:0001589	frameshift_variant	80184			AB002371	CCDS55858.1	12q21.33	2014-09-17				ENSG00000198707			29021	protein-coding gene	gene with protein product	"Joubert syndrome 5", "nephrocystin-6", "cancer/testis antigen 87", "POC3 centriolar protein homolog (Chlamydomonas)", "Meckel syndrome, type 4"	610142				15474516, 16682973, 16632484	Standard	NM_025114		Approved	KIAA0373, FLJ13615, 3H11Ag, rd16, NPHP6, JBTS5, SLSN6, LCA10, MKS4, BBS14, CT87, POC3	uc001tar.3	O15078		ENST00000552810.1:c.7341delA	12.37:g.88443060delT	ENSP00000448012:p.Lys2447fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q1PSK5|Q66GS8|Q9H2G6|Q9H6Q7|Q9H8I0	Frame_Shift_Del	DEL	ENST00000552810.1	37	CCDS55858.1																																																																																				0.308	CEP290-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000406344.1	NM_025114		-	88443060	T	-	88443060	7	5	678	1	0	1	0	1	0	0	0	0	3255	1722	60	0	102	0	CEP290	12	88443060	Frame_Shift_Del	DEL	T	TCGA-KO-8407-01A-11D-2310-10	35599479	88443060	45408835	50	43782										
BRAP	8315	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr12	112082340	112082340	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	tgagctcgttggtgagtttgGccacttttgtgtttagctga	13	6	0	3			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr12:112082340G>A	ENST00000327551.6	-	12	1492	c.1352C>T	c.(1351-1353)gCc>gTc	p.A451V	BRAP_ENST00000419234.4_Missense_Mutation_p.A481V|BRAP_ENST00000539060.1_Missense_Mutation_p.A302V			Q6UWU4	CF089_HUMAN	BRCA1 associated protein	0					epithelial cell proliferation (GO:0050673)|positive regulation of cell cycle (GO:0045787)|wound healing (GO:0042060)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				cervix(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(5)|prostate(2)|skin(1)|stomach(1)|urinary_tract(1)	20						GGTGAGTTTGGCCACTTTTGT	0.458																																					Pancreas(146;846 1904 7830 25130 26065)											0													106	99	102					12																	112082340		2203	4300	6503	SO:0001583	missense	8315			AF035620	CCDS9154.1	12q24.12	2014-09-11			ENSG00000089234	ENSG00000089234		"RING-type (C3HC4) zinc fingers"	1099	protein-coding gene	gene with protein product	"impedes mitogenic signal propagation", "galectin-2-binding protein"	604986				9497340, 19198608	Standard	XM_005253944		Approved	BRAP2, RNF52, IMP	uc001tsn.4	Q7Z569	OTTHUMG00000169600	ENST00000327551.6:c.1352C>T	12.37:g.112082340G>A	ENSP00000330813:p.Ala451Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTT1|F4NAR0|F4NAR1|Q6ZMG5|Q7Z356|Q8IZ35	Missense_Mutation	SNP	ENST00000327551.6	37		.	.	.	.	.	.	.	.	.	.	G	14.69	2.610943	0.46631	.	.	ENSG00000089234	ENST00000419234;ENST00000539060;ENST00000327551;ENST00000547043	T;T;T	0.46819	0.86;0.89;0.88	5.8	5.8	0.92144	.	0.105878	0.64402	D	0.000003	T	0.41604	0.1166	L	0.39397	1.21	0.58432	D	0.999994	B;B	0.06786	0.0;0.001	B;B	0.10450	0.0;0.005	T	0.13442	-1.0509	10	0.30078	T	0.28	-14.4681	16.3021	0.82825	0.0:0.1322:0.8678:0.0	.	302;481	B4DRM1;Q7Z569	.;BRAP_HUMAN	V	481;302;451;263	ENSP00000403524:A481V;ENSP00000441659:A302V;ENSP00000330813:A451V	ENSP00000330813:A451V	A	-	2	0	BRAP	110566723	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	5.532000	0.67154	2.737000	0.93849	0.557000	0.71058	GCC		0.458	BRAP-002	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000404994.2			A	112082340	G	A	112082340	3	1	678	1	0	0	0	0	1	0	0	0	1499	1203	42	2	340	2	BRAP	12	112082340	Missense_Mutation	SNP	G	TCGA-KO-8407-01A-11D-2310-10	23639280	112082340	21769555	51	43783										
WDR66	144406	broad.mit.edu	37	chr12	122361543	122361543	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	taaagaaaacccaaagaggtAgcaagtcaaagctttcctta	7	8	1	2			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr12:122361543A>G	ENST00000288912.4	+	3	1248	c.394A>G	c.(394-396)Agc>Ggc	p.S132G	WDR66_ENST00000397454.2_Missense_Mutation_p.S132G	NM_144668.5	NP_653269.3	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	132							calcium ion binding (GO:0005509)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(11)|liver(2)|lung(13)|ovary(2)|prostate(2)|skin(2)|soft_tissue(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	43	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		CCAAAGAGGTAGCAAGTCAAA	0.363																																					Esophageal Squamous(85;849 1794 49757 52143)											0													72	66	68					12																	122361543		1831	4084	5915	SO:0001583	missense	144406			AL833930	CCDS41853.1, CCDS53840.1	12q24.31	2014-07-31			ENSG00000158023	ENSG00000158023		"WD repeat domain containing"	28506	protein-coding gene	gene with protein product						17967944	Standard	NM_001178003		Approved	MGC33630, CaM-IP4	uc009zxk.3	Q8TBY9	OTTHUMG00000168948	ENST00000288912.4:c.394A>G	12.37:g.122361543A>G	ENSP00000288912:p.Ser132Gly	Somatic		WXS	Illumina HiSeq	Phase_I	C9J1W2|Q8IYA3|Q8N898|Q8NDE7	Missense_Mutation	SNP	ENST00000288912.4	37	CCDS41853.1	.	.	.	.	.	.	.	.	.	.	A	6.574	0.474291	0.12521	.	.	ENSG00000158023	ENST00000288912;ENST00000397454	T;T	0.18338	2.22;2.22	3.04	0.672	0.17935	.	1.271310	0.05890	N	0.628150	T	0.09818	0.0241	N	0.14661	0.345	0.09310	N	1	B	0.06786	0.001	B	0.06405	0.002	T	0.35822	-0.9773	10	0.32370	T	0.25	.	4.7844	0.13219	0.7199:0.0:0.2801:0.0	.	132	Q8TBY9	WDR66_HUMAN	G	132	ENSP00000288912:S132G;ENSP00000380595:S132G	ENSP00000288912:S132G	S	+	1	0	WDR66	120845926	0.000000	0.05858	0.000000	0.03702	0.064000	0.16182	0.276000	0.18716	0.130000	0.18549	0.377000	0.23210	AGC		0.363	WDR66-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401700.1	NM_144668		G	122361543	A	G	122361543	3	3	678	1	0	0	0	0	1	0	0	0	17329	420	15	3	400	3	WDR66	12	122361543	Missense_Mutation	SNP	A	TCGA-KO-8407-01A-11D-2310-10	10279203	122361543	11490352	52	43784										
PABPC3	5042	mdanderson.org	37	chr13	25671742	25671742	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	agcttcttcacaggttccacGagtcatgtcaacgcagcgtg	10	12	4	0	rs140135080	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr13:25671742G>A	ENST00000281589.3	+	1	1443	c.1406G>A	c.(1405-1407)cGa>cAa	p.R469Q		NM_030979.2	NP_112241.2	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	469					mRNA metabolic process (GO:0016071)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)			breast(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(21)|ovary(4)|pancreas(1)|skin(3)	47		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)		CAGGTTCCACGAGTCATGTCA	0.547																																																0													104	96	98					13																	25671742		2203	4300	6503	SO:0001583	missense	5042			AF132026	CCDS9311.1	13q12-q13	2013-02-12	2001-11-28		ENSG00000151846	ENSG00000151846		"RNA binding motif (RRM) containing"	8556	protein-coding gene	gene with protein product	"testis PABP"	604680	"poly(A)-binding protein, cytoplasmic 3"	PABPL3		8432538, 10543404	Standard	NM_030979		Approved	PABP3, tPABP	uc001upy.3	Q9H361	OTTHUMG00000016601	ENST00000281589.3:c.1406G>A	13.37:g.25671742G>A	ENSP00000281589:p.Arg469Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHV0|Q9H086	Missense_Mutation	SNP	ENST00000281589.3	37	CCDS9311.1	.	.	.	.	.	.	.	.	.	.	G	6.381	0.438497	0.12104	.	.	ENSG00000151846	ENST00000281589	T	0.26223	1.75	0.875	-0.195	0.13236	.	0.000000	0.40064	U	0.001189	T	0.13114	0.0318	L	0.35288	1.05	0.42075	D	0.991227	B	0.06786	0.001	B	0.06405	0.002	T	0.20638	-1.0269	10	0.10902	T	0.67	.	5.1429	0.14969	0.252:0.0:0.748:0.0	.	469	Q9H361	PABP3_HUMAN	Q	469	ENSP00000281589:R469Q	ENSP00000281589:R469Q	R	+	2	0	PABPC3	24569742	1.000000	0.71417	0.977000	0.42913	0.138000	0.21146	3.032000	0.49736	-0.094000	0.12374	0.313000	0.20887	CGA		0.547	PABPC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044220.2	NM_030979		A	25671742	G	A	25671742	3	1	678	1	0	0	0	0	1	0	0	0	11372	1058	37	1	1408	1	PABPC3	13	25671742	Missense_Mutation	SNP	G	TCGA-KO-8407-01A-11D-2310-10		25671742	89498136	53	43785			1	121		2	2	18	N	G_C	4.722609e-05
PABPC3	5042	mdanderson.org	37	chr13	25671759	25671759	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	cacgagtcatgtcaacgcagCgtgttgctaacacatcaaca	8	12	3	0	rs115121649	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr13:25671759C>T	ENST00000281589.3	+	1	1460	c.1423C>T	c.(1423-1425)Cgt>Tgt	p.R475C		NM_030979.2	NP_112241.2	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	475					mRNA metabolic process (GO:0016071)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	nucleotide binding (GO:0000166)|poly(A) binding (GO:0008143)			breast(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(21)|ovary(4)|pancreas(1)|skin(3)	47		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)		GTCAACGCAGCGTGTTGCTAA	0.532																																																0													93	84	87					13																	25671759		2203	4300	6503	SO:0001583	missense	5042			AF132026	CCDS9311.1	13q12-q13	2013-02-12	2001-11-28		ENSG00000151846	ENSG00000151846		"RNA binding motif (RRM) containing"	8556	protein-coding gene	gene with protein product	"testis PABP"	604680	"poly(A)-binding protein, cytoplasmic 3"	PABPL3		8432538, 10543404	Standard	NM_030979		Approved	PABP3, tPABP	uc001upy.3	Q9H361	OTTHUMG00000016601	ENST00000281589.3:c.1423C>T	13.37:g.25671759C>T	ENSP00000281589:p.Arg475Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHV0|Q9H086	Missense_Mutation	SNP	ENST00000281589.3	37	CCDS9311.1	.	.	.	.	.	.	.	.	.	.	C	7.042	0.562727	0.13498	.	.	ENSG00000151846	ENST00000281589	T	0.29142	1.58	0.875	-1.75	0.08031	.	0.000000	0.48767	U	0.000176	T	0.32346	0.0826	M	0.86740	2.835	0.52501	D	0.999952	B	0.11235	0.004	B	0.06405	0.002	T	0.03750	-1.1007	10	0.48119	T	0.1	.	6.6426	0.22917	0.0:0.732:0.0:0.268	.	475	Q9H361	PABP3_HUMAN	C	475	ENSP00000281589:R475C	ENSP00000281589:R475C	R	+	1	0	PABPC3	24569759	1.000000	0.71417	0.869000	0.34112	0.045000	0.14185	1.663000	0.37429	-0.898000	0.03906	-1.305000	0.01319	CGT		0.532	PABPC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044220.2	NM_030979		T	25671759	C	T	25671759	3	4	678	1	0	0	0	0	1	0	0	0	11372	768	27	1	1425	1	PABPC3	13	25671759	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10	17	25671759	89498119	54	43786			1	121		2	2	18	N	G_C	4.722609e-05
LECT1	11061	ucsc.edu	37	chr13	53313218	53313218	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ccccgatggccccaaagagcAgcagcacagctcccgaaatg	10	16	0	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr13:53313218A>G	ENST00000377962.3	-	2	239	c.161T>C	c.(160-162)cTg>cCg	p.L54P	LECT1_ENST00000448904.2_Missense_Mutation_p.L54P			O75829	LECT1_HUMAN	leukocyte cell derived chemotaxin 1	54					cartilage development (GO:0051216)|endothelial cell morphogenesis (GO:0001886)|negative regulation of angiogenesis (GO:0016525)|negative regulation of endothelial cell proliferation (GO:0001937)|negative regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030948)|proteoglycan metabolic process (GO:0006029)|skeletal system development (GO:0001501)	integral component of membrane (GO:0016021)|proteinaceous extracellular matrix (GO:0005578)				NS(1)|breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(5)|ovary(2)|skin(1)|urinary_tract(1)	15		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)		CCCAAAGAGCAGCAGCACAGC	0.692																																																0													28	38	35					13																	53313218		2203	4298	6501	SO:0001583	missense	11061			AB006000	CCDS9437.1, CCDS45051.1	13q14.3	2012-10-10			ENSG00000136110	ENSG00000136110		"BRICHOS domain containing"	17005	protein-coding gene	gene with protein product	"BRICHOS domain containing 3"	605147	"multiple myeloma tumor suppressor 1"	MYETS1		9731231, 10103018	Standard	XM_006719760		Approved	CHM-I, CHM1, chondromodulin, BRICD3	uc001vhf.2	O75829	OTTHUMG00000016980	ENST00000377962.3:c.161T>C	13.37:g.53313218A>G	ENSP00000367198:p.Leu54Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TAM4|Q8TAY6|Q9UM18	Missense_Mutation	SNP	ENST00000377962.3	37	CCDS9437.1	.	.	.	.	.	.	.	.	.	.	A	18.37	3.609899	0.66558	.	.	ENSG00000136110	ENST00000448904;ENST00000377962	T;T	0.48836	0.81;0.8	4.55	4.55	0.56014	.	0.000000	0.64402	D	0.000002	T	0.56426	0.1984	L	0.34521	1.04	0.80722	D	1	D;D;D	0.76494	0.999;0.996;0.994	D;D;P	0.68192	0.956;0.939;0.87	T	0.61163	-0.7118	10	0.87932	D	0	.	13.8929	0.63750	1.0:0.0:0.0:0.0	.	90;54;54	Q5TAN5;O75829-2;O75829	.;.;LECT1_HUMAN	P	54	ENSP00000388576:L54P;ENSP00000367198:L54P	ENSP00000367198:L54P	L	-	2	0	LECT1	52211219	1.000000	0.71417	1.000000	0.80357	0.444000	0.32077	8.309000	0.89969	1.670000	0.50864	0.379000	0.24179	CTG		0.692	LECT1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000045110.3			G	53313218	A	G	53313218	3	3	678	1	0	0	0	0	1	0	0	0	8719	188	7	3	867	3	LECT1	13	53313218	Missense_Mutation	SNP	A	TCGA-KO-8407-01A-11D-2310-10	27641459	53313218	61856660	55	43787										
C14orf149	112849	mdanderson.org	37	chr14	59950690	59950690	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ggcacaagcccgaagtccaaAgcgaagcggcccagcgccag	13	15	0	0	rs2296842	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr14:59950690A>C	ENST00000247194.4	-	1	458	c.345T>G	c.(343-345)gcT>gcG	p.A115A	RP11-701B16.2_ENST00000554253.1_RNA|L3HYPDH_ENST00000487285.1_5'Flank|JKAMP_ENST00000425728.2_5'Flank|JKAMP_ENST00000554271.1_5'Flank|JKAMP_ENST00000356057.5_5'Flank|JKAMP_ENST00000261247.9_5'Flank|JKAMP_ENST00000556985.1_5'Flank	NM_144581.1	NP_653182.1	Q96EM0	T3HPD_HUMAN	L-3-hydroxyproline dehydratase (trans-)	115					metabolic process (GO:0008152)		hydro-lyase activity (GO:0016836)|trans-L-3-hydroxyproline dehydratase activity (GO:0050346)									L-Proline(DB00172)	CGAAGTCCAAAGCGAAGCGGC	0.706											OREG0022712	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	A|||	1328	0.265176	0.1861	0.3833	5008	,	,		16051	0.1825		0.2376	False		,,,				2504	0.4018															0								A		853,3413		111,631,1391	10	10	10		345	-9.7	0	14	dbSNP_100	10	1857,6475		235,1387,2544	no	coding-synonymous	C14orf149	NM_144581.1		346,2018,3935	CC,CA,AA		22.2876,19.9953,21.5114		115/355	59950690	2710,9888	2133	4166	6299	SO:0001819	synonymous_variant	112849			AI762327	CCDS9739.1	14q23.1	2012-08-15	2012-08-15	2012-08-15	ENSG00000126790	ENSG00000126790	4.2.1.77		20488	protein-coding gene	gene with protein product	"trans-L-3-hydroxyproline dehydratase"	614811	"chromosome 14 open reading frame 149"	C14orf149		22528483	Standard	NM_144581		Approved	FLJ25436	uc001xee.1	Q96EM0	OTTHUMG00000028941	ENST00000247194.4:c.345T>G	14.37:g.59950690A>C		Somatic	1042	WXS	Illumina HiSeq	Phase_I	Q96LJ5	Silent	SNP	ENST00000247194.4	37	CCDS9739.1																																																																																				0.706	L3HYPDH-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000072254.5	NM_144581		C	59950690	A	C	59950690	2	2	678	1	0	0	0	0	0	0	0	1	1754	59	3	5		5	C14orf149	14	59950690	Silent	SNP	A	TCGA-KO-8407-01A-11D-2310-10		59950690	47398850	56	43788										
ADAM21	8747	mdanderson.org	37	chr14	70924335	70924335	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ctcccagcatttcacttcccCggaagtggtgatccccttga	8	15	1	2	rs199920662	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr14:70924335C>T	ENST00000603540.1	+	2	377	c.119C>T	c.(118-120)cCg>cTg	p.P40L	ADAM21_ENST00000267499.3_Missense_Mutation_p.P40L|RP11-486O13.4_ENST00000556646.1_lincRNA	NM_003813.3	NP_003804.2	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21	40					binding of sperm to zona pellucida (GO:0007339)|multicellular organism reproduction (GO:0032504)|single fertilization (GO:0007338)	axon (GO:0030424)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(10)|lung(10)|pancreas(1)|prostate(1)|skin(2)|stomach(1)	31				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		TTCACTTCCCCGGAAGTGGTG	0.547																																																0													97	102	100					14																	70924335		2203	4300	6503	SO:0001583	missense	8747			AF029900	CCDS9804.1	14q24.1	2008-09-05	2005-08-18		ENSG00000139985	ENSG00000139985		"ADAM metallopeptidase domain containing"	200	protein-coding gene	gene with protein product		603713	"a disintegrin and metalloproteinase domain 21"			9469942	Standard	NM_003813		Approved	ADAM31	uc001xmd.3	Q9UKJ8		ENST00000603540.1:c.119C>T	14.37:g.70924335C>T	ENSP00000474385:p.Pro40Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O43507|Q2VPC6|Q32MR0	Missense_Mutation	SNP	ENST00000603540.1	37	CCDS9804.1	.	.	.	.	.	.	.	.	.	.	C	7.541	0.660648	0.14645	.	.	ENSG00000139985	ENST00000267499	T	0.01051	5.4	3.77	2.87	0.33458	.	0.239499	0.21690	U	0.070593	T	0.01870	0.0059	M	0.79343	2.45	0.29294	N	0.869135	P	0.36412	0.552	B	0.34652	0.187	T	0.20706	-1.0267	10	0.32370	T	0.25	.	7.3425	0.26646	0.0:0.8757:0.0:0.1243	.	40	Q9UKJ8	ADA21_HUMAN	L	40	ENSP00000267499:P40L	ENSP00000267499:P40L	P	+	2	0	ADAM21	69994088	0.007000	0.16637	0.766000	0.31476	0.269000	0.26545	0.312000	0.19397	0.924000	0.37069	0.563000	0.77884	CCG		0.547	ADAM21-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413008.3			T	70924335	C	T	70924335	3	4	678	1	0	0	0	0	1	0	0	0	243	652	23	1	121	1	ADAM21	14	70924335	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10	10973645	70924335	36425205	57	43789										
PRIMA1	145270	mdanderson.org	37	chr14	94245649	94245649	+	Silent	SNP	A	A	G													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	caggacttctggggctcaccAtgcgtcacctgtacacatgg					rs4905087	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr14:94245649A>G	ENST00000393140.1	-	3	204	c.102T>C	c.(100-102)caT>caC	p.H34H	PRIMA1_ENST00000393143.1_Silent_p.H34H|PRIMA1_ENST00000316227.3_Silent_p.H34H	NM_178013.3	NP_821092.1	Q86XR5	PRIMA_HUMAN	proline rich membrane anchor 1	34					establishment of localization in cell (GO:0051649)|neurotransmitter catabolic process (GO:0042135)	cell junction (GO:0030054)|integral component of membrane (GO:0016021)|intrinsic component of plasma membrane (GO:0031226)|synapse (GO:0045202)				endometrium(1)|large_intestine(2)|lung(3)|skin(1)	7		all_cancers(154;0.127)		Epithelial(152;0.138)|COAD - Colon adenocarcinoma(157;0.229)		GGGGCTCACCATGCGTCACCT	0.652													G|||	2933	0.585663	0.6271	0.6239	5008	,	,		9302	0.3155		0.7873	False		,,,				2504	0.5736															0								G		2825,1579		907,1011,284	40	34	36		102	-2	0.3	14	dbSNP_111	36	6650,1944		2582,1486,229	no	coding-synonymous	PRIMA1	NM_178013.3		3489,2497,513	GG,GA,AA		22.6204,35.8538,27.1042		34/154	94245649	9475,3523	2202	4297	6499	SO:0001819	synonymous_variant	145270				CCDS9912.1	14q32.13	2008-08-29			ENSG00000175785	ENSG00000175785			18319	protein-coding gene	gene with protein product	"membrane anchor of acetylcholinesterase"	613851				11804574	Standard	NM_178013		Approved	PRIMA	uc001ybw.1	Q86XR5	OTTHUMG00000141313	ENST00000393140.1:c.102T>C	14.37:g.94245649A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q86XR6	Silent	SNP	ENST00000393140.1	37	CCDS9912.1																																																																																				0.652	PRIMA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280658.1	NM_178013		G	94245649	A	G	94245649	2	3	678	1	0	0	0	0	0	0	0	1	12502	214	8	3		3	PRIMA1	14	94245649	Silent	SNP	A	TCGA-KO-8407-01A-11D-2310-10	23321314	94245649	13103891	58	43790	446	2								
PRIMA1	145270	mdanderson.org	37	chr14	94245652	94245652	+	Silent	SNP	C	C	T													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gacttctggggctcaccatgCgtcacctgtacacatgggca					rs4900195	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr14:94245652C>T	ENST00000393140.1	-	3	201	c.99G>A	c.(97-99)acG>acA	p.T33T	PRIMA1_ENST00000393143.1_Silent_p.T33T|PRIMA1_ENST00000316227.3_Silent_p.T33T	NM_178013.3	NP_821092.1	Q86XR5	PRIMA_HUMAN	proline rich membrane anchor 1	33					establishment of localization in cell (GO:0051649)|neurotransmitter catabolic process (GO:0042135)	cell junction (GO:0030054)|integral component of membrane (GO:0016021)|intrinsic component of plasma membrane (GO:0031226)|synapse (GO:0045202)				endometrium(1)|large_intestine(2)|lung(3)|skin(1)	7		all_cancers(154;0.127)		Epithelial(152;0.138)|COAD - Colon adenocarcinoma(157;0.229)		GCTCACCATGCGTCACCTGTA	0.647													C|||	1818	0.363019	0.3949	0.3573	5008	,	,		9432	0.2302		0.4692	False		,,,				2504	0.3517															0								C		1764,2638		367,1030,804	40	34	36		99	-8.8	0.2	14	dbSNP_111	36	4098,4500		978,2142,1179	no	coding-synonymous	PRIMA1	NM_178013.3		1345,3172,1983	TT,TC,CC		47.6622,40.0727,45.0923		33/154	94245652	5862,7138	2201	4299	6500	SO:0001819	synonymous_variant	145270				CCDS9912.1	14q32.13	2008-08-29			ENSG00000175785	ENSG00000175785			18319	protein-coding gene	gene with protein product	"membrane anchor of acetylcholinesterase"	613851				11804574	Standard	NM_178013		Approved	PRIMA	uc001ybw.1	Q86XR5	OTTHUMG00000141313	ENST00000393140.1:c.99G>A	14.37:g.94245652C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q86XR6	Silent	SNP	ENST00000393140.1	37	CCDS9912.1																																																																																				0.647	PRIMA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280658.1	NM_178013		T	94245652	C	T	94245652	2	4	678	1	0	0	0	0	0	0	0	1	12502	755	27	1		1	PRIMA1	14	94245652	Silent	SNP	C	TCGA-KO-8407-01A-11D-2310-10	3	94245652	13103888	59	43791	446	2								
SPG11	80208	hgsc.bcm.edu;ucsc.edu	37	chr15	44881589	44881589	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	atggcagggatgacagggtgGacctttgtggctgctgtgtt	17	6	0	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr15:44881589G>A	ENST00000261866.7	-	28	4783	c.4767C>T	c.(4765-4767)gtC>gtT	p.V1589V	SPG11_ENST00000558253.1_5'UTR|SPG11_ENST00000427534.2_Silent_p.V1589V|SPG11_ENST00000535302.2_Silent_p.V1589V|SPG11_ENST00000558319.1_Silent_p.V1589V	NM_025137.3	NP_079413.3	Q96JI7	SPTCS_HUMAN	spastic paraplegia 11 (autosomal recessive)	1589					cell death (GO:0008219)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)				autonomic_ganglia(1)|breast(5)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(4)|large_intestine(16)|lung(24)|ovary(5)|prostate(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	72		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)		TGACAGGGTGGACCTTTGTGG	0.458																																																0													94	94	94					15																	44881589		2198	4298	6496	SO:0001819	synonymous_variant	80208				CCDS10112.1, CCDS53939.1	15q13-q15	2007-11-13			ENSG00000104133	ENSG00000104133			11226	protein-coding gene	gene with protein product	"spatacsin"	610844	"KIAA1840"	KIAA1840		10408536, 17322883	Standard	NM_001160227		Approved	FLJ21439	uc001ztx.3	Q96JI7	OTTHUMG00000131199	ENST00000261866.7:c.4767C>T	15.37:g.44881589G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8KAX9|B9EK60|F5H3N6|Q4VC11|Q58G86|Q69YG6|Q6NW01|Q8N270|Q8TBU9|Q9H734	Silent	SNP	ENST00000261866.7	37	CCDS10112.1																																																																																				0.458	SPG11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000253927.1			A	44881589	G	A	44881589	2	1	678	1	0	0	0	0	0	0	0	1	15053	1161	41	2		2	SPG11	15	44881589	Silent	SNP	G	TCGA-KO-8407-01A-11D-2310-10		44881589	57649803	60	43792										
CALML4	91860	broad.mit.edu	37	chr15	68489865	68489866	+	In_Frame_Ins	INS	-	-	CAT													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	cctttcttctccttgtccacINScatcaacatggctagaagaa							TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr15:68489865_68489866insCAT	ENST00000467889.1	-	4	589_590	c.405_406insATG	c.(403-408)atggtg>atgATGgtg	p.135_136insM	CALML4_ENST00000395465.3_Intron|RP11-315D16.2_ENST00000562767.1_In_Frame_Ins_p.61_62insD|CALML4_ENST00000448060.2_In_Frame_Ins_p.88_89insM|CALML4_ENST00000540479.1_In_Frame_Ins_p.59_60insM	NM_033429.2	NP_219501.2	Q96GE6	CALL4_HUMAN	calmodulin-like 4	135	EF-hand 3. {ECO:0000255|PROSITE- ProRule:PRU00448}.						calcium ion binding (GO:0005509)			large_intestine(2)|lung(1)|upper_aerodigestive_tract(1)	4						TCCTTGTCCACCATCAACATGG	0.475																																																0																																										SO:0001652	inframe_insertion	91860			AF308287	CCDS10226.2, CCDS42052.1, CCDS66808.1	15q22.31	2013-01-10			ENSG00000129007	ENSG00000129007		"EF-hand domain containing"	18445	protein-coding gene	gene with protein product							Standard	NM_033429		Approved	MGC4809, NY-BR-20	uc002arb.3	Q96GE6	OTTHUMG00000133287	ENST00000467889.1:c.403_405dupATG	15.37:g.68489866_68489868dupCAT	ENSP00000419081:p.Met135_Met135dup	Somatic		WXS	Illumina HiSeq	Phase_I	B4DL15|F8W6Y4|Q6MZY3|Q6N048|Q9H286	In_Frame_Ins	INS	ENST00000467889.1	37	CCDS10226.2																																																																																				0.475	CALML4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257067.3	NM_033429		CAT	68489866	-	CAT	68489865	7	5	678	1	0	1	1	0	0	0	0	0	2590	507	18	0	192	0	CALML4	15	68489865	In_Frame_Ins	INS	-	TCGA-KO-8407-01A-11D-2310-10	23608276	68489865	34041527	61	43793										
ASB7	140460	broad.mit.edu	37	chr15	101170058	101170058	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gggcagacacaaacttgggtCgcttagaagacggacagact	13	9	0	4			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr15:101170058C>T	ENST00000332783.7	+	5	1413	c.628C>T	c.(628-630)Cgc>Tgc	p.R210C	ASB7_ENST00000558747.1_Intron|ASB7_ENST00000343276.4_Missense_Mutation_p.R210C	NM_198243.2	NP_937886.1	Q9H672	ASB7_HUMAN	ankyrin repeat and SOCS box containing 7	210					intracellular signal transduction (GO:0035556)|protein ubiquitination (GO:0016567)			p.R210C(1)		breast(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(6)|prostate(1)|skin(2)	16	Lung NSC(78;0.00121)|all_lung(78;0.00152)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.00168)|LUSC - Lung squamous cell carcinoma(107;0.0766)|Lung(145;0.103)			AAACTTGGGTCGCTTAGAAGA	0.473																																																1	Substitution - Missense(1)	lung(1)											123	103	109					15																	101170058		2203	4300	6503	SO:0001583	missense	140460				CCDS10387.1, CCDS10388.1	15q26.3	2013-01-10	2011-01-25		ENSG00000183475	ENSG00000183475		"Ankyrin repeat domain containing"	17182	protein-coding gene	gene with protein product		615052	"ankyrin repeat and SOCS box-containing 7"				Standard	NM_024708		Approved		uc002bwk.3	Q9H672	OTTHUMG00000149868	ENST00000332783.7:c.628C>T	15.37:g.101170058C>T	ENSP00000328327:p.Arg210Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1E5|Q6GSJ6|Q7Z4S3	Missense_Mutation	SNP	ENST00000332783.7	37	CCDS10387.1	.	.	.	.	.	.	.	.	.	.	C	24.6	4.548738	0.86127	.	.	ENSG00000183475	ENST00000332783;ENST00000343276	T;T	0.53206	0.63;0.63	5.53	5.53	0.82687	Ankyrin repeat-containing domain (4);	0.000000	0.85682	D	0.000000	T	0.64011	0.2560	L	0.58428	1.81	0.80722	D	1	D;D	0.89917	0.999;1.0	D;D	0.69654	0.965;0.932	T	0.65508	-0.6151	10	0.87932	D	0	-1.3671	14.655	0.68825	0.1454:0.8546:0.0:0.0	.	210;210	Q9H672;Q9H672-2	ASB7_HUMAN;.	C	210	ENSP00000328327:R210C;ENSP00000339819:R210C	ENSP00000328327:R210C	R	+	1	0	ASB7	98987581	0.996000	0.38824	0.999000	0.59377	0.994000	0.84299	3.434000	0.52841	2.755000	0.94549	0.650000	0.86243	CGC		0.473	ASB7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313617.1	NM_024708		T	101170058	C	T	101170058	3	4	678	1	0	0	0	0	1	0	0	0	1028	884	31	1	634	1	ASB7	15	101170058	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10	32680193	101170058	1361334	62	43794										
TPSAB1	7177	mdanderson.org	37	chr16	1291160	1291160	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ggcacctgccccagccccagGccaggccctgcagcgagtgg	14	18	0	0	rs141519544		TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr16:1291160G>T	ENST00000338844.3	+	3	101	c.68G>T	c.(67-69)gGc>gTc	p.G23V	TPSAB1_ENST00000461509.2_Missense_Mutation_p.G30V	NM_003294.3	NP_003285.2	Q15661	TRYB1_HUMAN	tryptase alpha/beta 1	23			G -> V (in allele alpha; dbSNP:rs1141965). {ECO:0000269|PubMed:10898108}.		defense response (GO:0006952)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)	p.G23V(1)		NS(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(4)|skin(1)	10		Hepatocellular(780;0.00369)				CCAGCCCCAGGCCAGGCCCTG	0.711																																																1	Substitution - Missense(1)	haematopoietic_and_lymphoid_tissue(1)											21	23	22					16																	1291160		2193	4291	6484	SO:0001583	missense	7177			M33494	CCDS10431.1	16p13.3	2009-11-13	2004-10-14	2004-10-15	ENSG00000172236	ENSG00000172236			12019	protein-coding gene	gene with protein product	"tryptase alpha II", "tryptase beta I", "tryptase-I", "tryptase-II", "tryptase-III"	191080	"tryptase beta 1"	TPSB1, TPS1, TPS2		2203827, 9920877	Standard	NM_003294		Approved		uc002ckz.3	Q15661	OTTHUMG00000090467	ENST00000338844.3:c.68G>T	16.37:g.1291160G>T	ENSP00000343577:p.Gly23Val	Somatic		WXS	Illumina HiSeq	Phase_I	D2E6R9|D2E6S1|P15157|Q15663|Q6B052|Q9H2Y4|Q9H2Y5|Q9UQI1	Missense_Mutation	SNP	ENST00000338844.3	37	CCDS10431.1	745	0.3411172161172161	111	0.22560975609756098	106	0.292817679558011	262	0.458041958041958	266	0.35092348284960423	G	9.934	1.215703	0.22373	.	.	ENSG00000172236	ENST00000338844;ENST00000461509	D;D	0.86497	-2.13;-2.13	2.84	0.752	0.18398	.	0.709020	0.11654	N	0.542536	T	0.00012	0.0000	N	0.19112	0.55	0.80722	P	0.0	D	0.56287	0.975	P	0.45660	0.489	T	0.17868	-1.0355	9	0.39692	T	0.17	.	4.3463	0.11134	0.1498:0.3033:0.5468:0.0	.	23	Q15661	TRYB1_HUMAN	V	23;30	ENSP00000343577:G23V;ENSP00000418247:G30V	ENSP00000343577:G23V	G	+	2	0	TPSAB1	1231161	0.001000	0.12720	0.035000	0.18076	0.629000	0.37895	0.668000	0.25127	0.237000	0.21200	0.479000	0.44913	GGC		0.711	TPSAB1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000206914.1	NM_003294		T	1291160	G	T	1291160	3	4	678	1	0	0	0	0	1	0	0	0	16435	1203	42	4	74	4	TPSAB1	16	1291160	Missense_Mutation	SNP	G	TCGA-KO-8407-01A-11D-2310-10		1291160	89063593	63	43795			2	122		2	2	23	N	G_C	6.11157e-05
TPSAB1	7177	mdanderson.org	37	chr16	1291182	1291182	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	caggccctgcagcgagtgggCatcgtcgggggtcaggaggc	19	11	1	0	rs112531166		TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr16:1291182C>T	ENST00000338844.3	+	3	123	c.90C>T	c.(88-90)ggC>ggT	p.G30G	TPSAB1_ENST00000461509.2_Silent_p.G37G	NM_003294.3	NP_003285.2	Q15661	TRYB1_HUMAN	tryptase alpha/beta 1	30					defense response (GO:0006952)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			NS(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(4)|skin(1)	10		Hepatocellular(780;0.00369)				AGCGAGTGGGCATCGTCGGGG	0.711																																																0													34	35	35					16																	1291182		2198	4299	6497	SO:0001819	synonymous_variant	7177			M33494	CCDS10431.1	16p13.3	2009-11-13	2004-10-14	2004-10-15	ENSG00000172236	ENSG00000172236			12019	protein-coding gene	gene with protein product	"tryptase alpha II", "tryptase beta I", "tryptase-I", "tryptase-II", "tryptase-III"	191080	"tryptase beta 1"	TPSB1, TPS1, TPS2		2203827, 9920877	Standard	NM_003294		Approved		uc002ckz.3	Q15661	OTTHUMG00000090467	ENST00000338844.3:c.90C>T	16.37:g.1291182C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D2E6R9|D2E6S1|P15157|Q15663|Q6B052|Q9H2Y4|Q9H2Y5|Q9UQI1	Silent	SNP	ENST00000338844.3	37	CCDS10431.1																																																																																				0.711	TPSAB1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000206914.1	NM_003294		T	1291182	C	T	1291182	2	4	678	1	0	0	0	0	0	0	0	1	16435	697	25	2		2	TPSAB1	16	1291182	Silent	SNP	C	TCGA-KO-8407-01A-11D-2310-10	22	1291182	89063571	64	43796			2	122		2	2	23	N	G_C	6.11157e-05
PRSS36	146547	broad.mit.edu	37	chr16	31154780	31154780	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gccaggcccctggccgcgggGccttcccgcactctgagggg	16	17	1	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr16:31154780G>T	ENST00000268281.4	-	8	1041	c.983C>A	c.(982-984)gCc>gAc	p.A328D	PRSS36_ENST00000569305.1_Missense_Mutation_p.A328D|PRSS36_ENST00000418068.2_Missense_Mutation_p.A328D	NM_001258290.1|NM_173502.4	NP_001245219.1|NP_775773.2	Q5K4E3	POLS2_HUMAN	protease, serine, 36	328	Peptidase S1 2. {ECO:0000255|PROSITE- ProRule:PRU00274}.					cytoplasm (GO:0005737)|proteinaceous extracellular matrix (GO:0005578)	serine-type endopeptidase activity (GO:0004252)			kidney(2)|large_intestine(4)|lung(8)|ovary(3)	17						TGGCCGCGGGGCCTTCCCGCA	0.667																																																0													27	33	31					16																	31154780		2197	4300	6497	SO:0001583	missense	146547			AK075142	CCDS32436.1, CCDS58452.1, CCDS58453.1	16p11.2	2014-09-04			ENSG00000178226			"Serine peptidases / Serine peptidases"	26906	protein-coding gene	gene with protein product	"polyserase 2"	610560				15536082	Standard	NM_173502		Approved	FLJ90661	uc002ebd.4	Q5K4E3	OTTHUMG00000176751	ENST00000268281.4:c.983C>A	16.37:g.31154780G>T	ENSP00000268281:p.Ala328Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2P5|B4DW80|B7ZMK8|E7EX56|Q8NBY4	Missense_Mutation	SNP	ENST00000268281.4	37	CCDS32436.1	.	.	.	.	.	.	.	.	.	.	G	8.398	0.841279	0.16891	.	.	ENSG00000178226	ENST00000268281;ENST00000418068	D;D	0.88509	-2.39;-2.39	4.11	3.12	0.35913	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	.	.	.	.	D	0.85318	0.5669	N	0.13327	0.33	0.09310	N	0.999997	D;D;D	0.71674	0.986;0.998;0.998	P;D;D	0.69824	0.823;0.966;0.966	T	0.73145	-0.4075	9	0.02654	T	1	.	9.4339	0.38626	0.0:0.2171:0.7829:0.0	.	328;328;328	E7EX56;B7ZMK8;Q5K4E3	.;.;POLS2_HUMAN	D	328	ENSP00000268281:A328D;ENSP00000407160:A328D	ENSP00000268281:A328D	A	-	2	0	PRSS36	31062281	0.181000	0.23161	0.573000	0.28510	0.893000	0.52053	1.534000	0.36051	0.901000	0.36495	0.491000	0.48974	GCC		0.667	PRSS36-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000433542.1	NM_173502		T	31154780	G	T	31154780	3	4	678	1	0	0	0	0	1	0	0	0	12635	1203	42	4	1616	4	PRSS36	16	31154780	Missense_Mutation	SNP	G	TCGA-KO-8407-01A-11D-2310-10	29863598	31154780	59199973	65	43797										
PIGS	94005	bcgsc.ca	37	chr17	26882056	26882056	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ggcattttggaggcagctggGgctgagcaatcccaaagagc	15	9	0	2			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr17:26882056G>A	ENST00000308360.7	-	11	1580	c.1205C>T	c.(1204-1206)cCc>cTc	p.P402L	UNC119_ENST00000335765.4_5'Flank|UNC119_ENST00000301032.4_5'Flank|PIGS_ENST00000395346.2_Missense_Mutation_p.P394L|PIGS_ENST00000543734.1_Missense_Mutation_p.P341L	NM_033198.3	NP_149975.1	Q96S52	PIGS_HUMAN	phosphatidylinositol glycan anchor biosynthesis, class S	402					attachment of GPI anchor to protein (GO:0016255)|C-terminal protein lipidation (GO:0006501)|cellular protein metabolic process (GO:0044267)|post-translational protein modification (GO:0043687)	endoplasmic reticulum membrane (GO:0005789)|GPI-anchor transamidase complex (GO:0042765)|membrane (GO:0016020)	GPI-anchor transamidase activity (GO:0003923)			breast(3)|endometrium(1)|kidney(1)|large_intestine(2)|lung(7)|upper_aerodigestive_tract(1)|urinary_tract(1)	16	Lung NSC(42;0.00431)					AGGCAGCTGGGGCTGAGCAAT	0.542																																																0													53	48	50					17																	26882056		2203	4300	6503	SO:0001583	missense	94005				CCDS11235.1	17p13.2	2013-02-26	2006-06-28		ENSG00000087111	ENSG00000087111		"Phosphatidylinositol glycan anchor biosynthesis"	14937	protein-coding gene	gene with protein product	"GPI transamidase subunit"	610271	"phosphatidylinositol glycan, class S"				Standard	NM_033198		Approved		uc002hbo.2	Q96S52	OTTHUMG00000132604	ENST00000308360.7:c.1205C>T	17.37:g.26882056G>A	ENSP00000309430:p.Pro402Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UVX6	Missense_Mutation	SNP	ENST00000308360.7	37	CCDS11235.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	13.80|13.80	2.346509|2.346509	0.41599|0.41599	.|.	.|.	ENSG00000087111|ENSG00000087111	ENST00000395346;ENST00000308360;ENST00000543734|ENST00000268758	T;T;T|.	0.40756|.	1.02;1.02;1.02|.	5.42|5.42	5.42|5.42	0.78866|0.78866	.|.	0.247996|0.247996	0.40302|0.40302	N|N	0.001139|0.001139	T|T	0.57344|0.57344	0.2047|0.2047	N|N	0.26042|0.26042	0.785|0.785	0.52099|0.52099	D|D	0.999945|0.999945	B;B|.	0.15930|.	0.015;0.012|.	B;B|.	0.18561|.	0.022;0.013|.	T|T	0.61806|0.61806	-0.6987|-0.6987	10|7	0.21540|0.87932	T|D	0.41|0	-24.0459|-24.0459	14.9809|14.9809	0.71311|0.71311	0.0:0.0:0.8485:0.1515|0.0:0.0:0.8485:0.1515	.|.	402;394|.	Q96S52;Q96S52-2|.	PIGS_HUMAN;.|.	L|S	394;402;341|144	ENSP00000378755:P394L;ENSP00000309430:P402L;ENSP00000438447:P341L|.	ENSP00000309430:P402L|ENSP00000268758:P144S	P|P	-|-	2|1	0|0	PIGS|PIGS	23906183|23906183	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.871000|0.871000	0.50021|0.50021	2.584000|2.584000	0.46102|0.46102	2.538000|2.538000	0.85594|0.85594	0.462000|0.462000	0.41574|0.41574	CCC|CCC		0.542	PIGS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255833.3	NM_033198		A	26882056	G	A	26882056	3	1	678	1	0	0	0	0	1	0	0	0	11905	1232	43	2	470	2	PIGS	17	26882056	Missense_Mutation	SNP	G	TCGA-KO-8407-01A-11D-2310-10		26882056	54313154	66	43798										
MYST2	11143	broad.mit.edu;ucsc.edu	37	chr17	47893250	47893250	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	cttggatcttttccgaagagCacaagcccgggcttcagagg	12	11	2	2			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr17:47893250C>A	ENST00000259021.4	+	8	1218	c.938C>A	c.(937-939)gCa>gAa	p.A313E	KAT7_ENST00000454930.2_Missense_Mutation_p.A174E|KAT7_ENST00000424009.2_Missense_Mutation_p.A283E|KAT7_ENST00000435742.2_Missense_Mutation_p.A127E|KAT7_ENST00000503935.2_Missense_Mutation_p.A157E|KAT7_ENST00000513980.1_3'UTR|KAT7_ENST00000509773.1_Missense_Mutation_p.A203E|KAT7_ENST00000510819.1_Missense_Mutation_p.A144E	NM_007067.4	NP_008998.1	O95251	KAT7_HUMAN	K(lysine) acetyltransferase 7	313					chromatin organization (GO:0006325)|DNA replication (GO:0006260)|histone H3 acetylation (GO:0043966)|histone H4-K12 acetylation (GO:0043983)|histone H4-K5 acetylation (GO:0043981)|histone H4-K8 acetylation (GO:0043982)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|histone acetyltransferase complex (GO:0000123)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	histone acetyltransferase activity (GO:0004402)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)										TTCCGAAGAGCACAAGCCCGG	0.448																																																0													75	75	75					17																	47893250		2203	4300	6503	SO:0001583	missense	11143			AF074606	CCDS11554.1, CCDS56035.1, CCDS56036.1, CCDS56037.1, CCDS56038.1	17q21.32	2013-01-10	2011-07-21	2011-07-21	ENSG00000136504	ENSG00000136504	2.3.1.48	"Chromatin-modifying enzymes / K-acetyltransferases", "Zinc fingers, C2HC-type containing"	17016	protein-coding gene	gene with protein product	"histone acetyltransferase binding to ORC1"	609880	"MYST histone acetyltransferase 2"	MYST2		10438470, 10930412	Standard	NM_001199155		Approved	HBOA, HBO1, ZC2HC7	uc002ipm.3	O95251	OTTHUMG00000161770	ENST00000259021.4:c.938C>A	17.37:g.47893250C>A	ENSP00000259021:p.Ala313Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KN74|B4DF85|B4DFB4|B4DFE0|B4DGY4|E7ER15|G5E9K7	Missense_Mutation	SNP	ENST00000259021.4	37	CCDS11554.1	.	.	.	.	.	.	.	.	.	.	C	34	5.317390	0.95682	.	.	ENSG00000136504	ENST00000259021;ENST00000454930;ENST00000509773;ENST00000510819;ENST00000424009;ENST00000503935;ENST00000435742	.	.	.	5.36	5.36	0.76844	.	0.000000	0.85682	D	0.000000	D	0.84795	0.5551	M	0.87269	2.87	0.80722	D	1	D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D	0.91635	0.997;0.991;0.997;0.998;0.999;0.998	D	0.86860	0.2029	9	0.87932	D	0	-13.841	18.8697	0.92308	0.0:1.0:0.0:0.0	.	276;144;203;174;313;283	B4DGY4;B4DFE0;B4DFB4;E7ER15;O95251;G5E9K7	.;.;.;.;KAT7_HUMAN;.	E	313;174;203;144;283;157;127	.	ENSP00000259021:A313E	A	+	2	0	KAT7	45248249	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.926000	0.75835	2.788000	0.95919	0.650000	0.86243	GCA		0.448	KAT7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366032.1	NM_007067		A	47893250	C	A	47893250	3	1	678	1	0	0	0	0	1	0	0	0	10110	710	25	4	968	4	MYST2	17	47893250	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10	21011194	47893250	33301960	67	43799										
BPTF	2186	broad.mit.edu;hgsc.bcm.edu	37	chr17	65909291	65909291	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ttctcctagaccgacctttgGcatcacttggaggtatgtac	9	11	2	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr17:65909291G>A	ENST00000321892.4	+	13	5730	c.5669G>A	c.(5668-5670)gGc>gAc	p.G1890D	BPTF_ENST00000335221.5_Missense_Mutation_p.G1890D|BPTF_ENST00000424123.3_Missense_Mutation_p.G1751D|BPTF_ENST00000306378.6_Missense_Mutation_p.G1764D			Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1890					anterior/posterior pattern specification (GO:0009952)|ATP catabolic process (GO:0006200)|brain development (GO:0007420)|chromatin remodeling (GO:0006338)|embryonic placenta development (GO:0001892)|endoderm development (GO:0007492)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|microtubule cytoskeleton (GO:0015630)|nucleolus (GO:0005730)|nucleus (GO:0005634)|NURF complex (GO:0016589)	sequence-specific DNA binding (GO:0043565)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(16)|lung(23)|ovary(3)|pancreas(2)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	78	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)			CCGACCTTTGGCATCACTTGG	0.363																																																0													101	112	108					17																	65909291		2115	4264	6379	SO:0001583	missense	2186			AY282495	CCDS11673.1	17q24	2013-01-28	2006-12-01	2006-12-01	ENSG00000171634	ENSG00000171634		"Zinc fingers, PHD-type"	3581	protein-coding gene	gene with protein product		601819	"fetal Alzheimer antigen"	FALZ		8975731, 10662542, 16728976	Standard	NM_182641		Approved	FAC1, NURF301	uc002jgf.3	Q12830	OTTHUMG00000132254	ENST00000321892.4:c.5669G>A	17.37:g.65909291G>A	ENSP00000315454:p.Gly1890Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NX67|Q7Z7D6|Q9UIG2	Missense_Mutation	SNP	ENST00000321892.4	37		.	.	.	.	.	.	.	.	.	.	G	14.70	2.613083	0.46631	.	.	ENSG00000171634	ENST00000306378;ENST00000335221;ENST00000321892	T;T;T	0.61627	0.09;0.09;0.09	5.77	5.77	0.91146	.	.	.	.	.	T	0.63236	0.2494	N	0.12182	0.205	0.80722	D	1	D;D	0.89917	0.998;1.0	D;D	0.83275	0.996;0.993	T	0.66460	-0.5918	9	0.46703	T	0.11	-12.7977	20.3626	0.98863	0.0:0.0:1.0:0.0	.	1764;1890	Q12830-2;Q12830-4	.;.	D	1764;1890;1890	ENSP00000307208:G1764D;ENSP00000334351:G1890D;ENSP00000315454:G1890D	ENSP00000307208:G1764D	G	+	2	0	BPTF	63339753	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.823000	0.86660	2.885000	0.99019	0.655000	0.94253	GGC		0.363	BPTF-201	KNOWN	basic	protein_coding	protein_coding		NM_182641, NM_004459		A	65909291	G	A	65909291	3	1	678	1	0	0	0	0	1	0	0	0	1497	1203	42	2	5719	2	BPTF	17	65909291	Missense_Mutation	SNP	G	TCGA-KO-8407-01A-11D-2310-10	18016041	65909291	15285919	68	43800										
FADS6	283985	mdanderson.org	37	chr17	72889685	72889685	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gtaggttccatgggctccgtGggttccatggactctgtggg	16	9	1	0	rs2683274	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr17:72889685G>A	ENST00000310226.6	-	1	23	c.9C>T	c.(7-9)ccC>ccT	p.P3P		NM_178128.3	NP_835229.2	Q8N9I5	FADS6_HUMAN	fatty acid desaturase 6	9	3 X 6 AA tandem repeat of M-E-P-T-E-P.				fatty acid biosynthetic process (GO:0006633)	integral component of membrane (GO:0016021)	oxidoreductase activity (GO:0016491)			endometrium(3)|kidney(1)|lung(4)	8	all_lung(278;0.172)|Lung NSC(278;0.207)					TGGGCTCCGTGGGTTCCATGG	0.746																																																0																																										SO:0001819	synonymous_variant	283985			AK094411	CCDS54163.1	17q25.1	2014-07-17	2013-01-25			ENSG00000172782		"Fatty acid desaturases"	30459	protein-coding gene	gene with protein product			"fatty acid desaturase domain family, member 6"				Standard	XM_005257224		Approved		uc002jmd.1	Q8N9I5		ENST00000310226.6:c.9C>T	17.37:g.72889685G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q17RQ7|Q6XYE1	Silent	SNP	ENST00000310226.6	37	CCDS54163.1																																																																																				0.746	FADS6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445219.1			A	72889685	G	A	72889685	2	1	678	1	0	0	0	0	0	0	0	1	5372	1335	47	2		2	FADS6	17	72889685	Silent	SNP	G	TCGA-KO-8407-01A-11D-2310-10	6980394	72889685	8305525	69	43801										
SEPT9	10801	broad.mit.edu	37	chr17	75398360	75398361	+	Frame_Shift_Ins	INS	-	-	G													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gtggagctctcgggccccaaINSggcggccgagccggtgtccc							TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr17:75398360_75398361insG	ENST00000427177.1	+	3	422_423	c.296_297insG	c.(295-300)aaggcgfs	p.A100fs	SEPT9_ENST00000585930.1_5'Flank|SEPT9_ENST00000423034.2_Frame_Shift_Ins_p.A93fs|SEPT9_ENST00000329047.8_Frame_Shift_Ins_p.A82fs|SEPT9_ENST00000591198.1_Frame_Shift_Ins_p.A81fs|SEPT9_ENST00000449803.2_5'UTR|SEPT9_ENST00000588690.1_5'UTR|SEPT9_ENST00000427674.2_5'UTR|SEPT9_ENST00000431235.2_5'UTR|SEPT9_ENST00000590294.1_Frame_Shift_Ins_p.A82fs|SEPT9_ENST00000592420.1_5'UTR	NM_001113491.1	NP_001106963.1	Q9UHD8	SEPT9_HUMAN	septin 9	100					cell cycle (GO:0007049)|cell division (GO:0051301)|GTP catabolic process (GO:0006184)|protein heterooligomerization (GO:0051291)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|microtubule (GO:0005874)|perinuclear region of cytoplasm (GO:0048471)|stress fiber (GO:0001725)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			autonomic_ganglia(1)|breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(2)|ovary(1)|pancreas(1)|prostate(2)	16			BRCA - Breast invasive adenocarcinoma(99;0.153)			TCGGGCCCCAAGGCGGCCGAGC	0.688																																																0																																										SO:0001589	frameshift_variant	10801			AB023208	CCDS45790.1, CCDS45791.1, CCDS45792.1, CCDS45793.1, CCDS45794.1, CCDS45795.1, CCDS74166.1	17q25.3	2014-09-17	2005-01-11	2005-01-12	ENSG00000184640	ENSG00000184640		"Septins"	7323	protein-coding gene	gene with protein product	"Ov/Br septin"	604061	"MLL septin-like fusion"	MSF		10339604, 10485469	Standard	NM_006640		Approved	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1	uc002jts.4	Q9UHD8		ENST00000427177.1:c.298dupG	17.37:g.75398362_75398362dupG	ENSP00000391249:p.Ala100fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2V3|B3KPM0|B4DTL9|B4E0N2|B4E274|B7Z654|Q96QF3|Q96QF4|Q96QF5|Q9HA04|Q9UG40|Q9Y5W4	Frame_Shift_Ins	INS	ENST00000427177.1	37	CCDS45790.1																																																																																				0.688	SEPT9-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000436304.2	NM_006640		G	75398361	-	G	75398360	7	5	678	1	0	1	1	0	0	0	0	0	14084	72	3	0	391	0	SEPT9	17	75398360	Frame_Shift_Ins	INS	-	TCGA-KO-8407-01A-11D-2310-10	2508675	75398360	5796850	70	43802										
GPS1	2873	broad.mit.edu	37	chr17	80010268	80010268	+	Intron	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	cagcagtaggtcagacctcgTcctgcccggcacggccgggg	15	15	1	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr17:80010268T>C	ENST00000306823.6	+	1	56				RFNG_ENST00000584838.1_5'Flank|GPS1_ENST00000355130.2_Missense_Mutation_p.V29A|GPS1_ENST00000578552.1_Intron|GPS1_ENST00000392358.2_Missense_Mutation_p.V29A|GPS1_ENST00000320548.4_5'UTR|RFNG_ENST00000429557.3_5'Flank|RFNG_ENST00000310496.4_5'Flank			Q13098	CSN1_HUMAN	G protein pathway suppressor 1						cell cycle (GO:0007049)|cullin deneddylation (GO:0010388)|inactivation of MAPK activity (GO:0000188)|JNK cascade (GO:0007254)	COP9 signalosome (GO:0008180)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	GTPase inhibitor activity (GO:0005095)			breast(1)|central_nervous_system(1)|endometrium(3)|liver(1)|lung(4)|prostate(1)|skin(2)	13	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0211)			TCAGACCTCGTCCTGCCCGGC	0.647																																																0													43	39	40					17																	80010268		2196	4298	6494	SO:0001627	intron_variant	2873				CCDS11800.1, CCDS32774.1	17q25.3	2013-03-14				ENSG00000169727			4549	protein-coding gene	gene with protein product	"COP9 signalosome subunit 1"	601934				9535219	Standard	NM_212492		Approved	COPS1, CSN1	uc002kdl.1	Q13098		ENST00000306823.6:c.33+428T>C	17.37:g.80010268T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NA10|Q9BWL1	Missense_Mutation	SNP	ENST00000306823.6	37	CCDS32774.1	.	.	.	.	.	.	.	.	.	.	T	8.338	0.828139	0.16749	.	.	ENSG00000169727	ENST00000392358;ENST00000320548;ENST00000355130	.	.	.	3.33	2.24	0.28232	.	.	.	.	.	T	0.15219	0.0367	N	0.08118	0	0.20764	N	0.99986	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.28427	-1.0044	8	0.07175	T	0.84	-9.2856	7.3296	0.26575	0.0:0.1963:0.0:0.8037	.	29;29	A8K070;Q13098-7	.;.	A	29;57;29	.	ENSP00000313569:V57A	V	+	2	0	GPS1	77603557	0.113000	0.22115	0.585000	0.28666	0.356000	0.29392	0.467000	0.22035	1.141000	0.42275	0.240000	0.17902	GTC		0.647	GPS1-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000442176.1	NM_212492		C	80010268	T	C	80010268	1	2	678	0	1	0	0	0	0	0	0	0	6739	1667	58	3		3	GPS1	17	80010268	Intron	SNP	T	TCGA-KO-8407-01A-11D-2310-10	4611908	80010268	1184942	71	43803										
POTEC	388468	mdanderson.org	37	chr18	14542888	14542888	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gtcttcataaaggagttgtcAtggtctccagaagtgcccac	10	10	4	1	rs543140115	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr18:14542888A>G	ENST00000358970.5	-	1	257	c.258T>C	c.(256-258)caT>caC	p.H86H	POTEC_ENST00000389891.4_5'UTR	NM_001137671.1	NP_001131143.1	B2RU33	POTEC_HUMAN	POTE ankyrin domain family, member C	86			H -> D (in dbSNP:rs45469098). {ECO:0000269|PubMed:15489334}.							NS(2)|breast(1)|endometrium(9)|kidney(13)|lung(14)|prostate(3)|skin(6)|soft_tissue(1)|urinary_tract(3)	52						AGGAGTTGTCATGGTCTCCAG	0.587													.|||	10	0.00199681	0.0076	0.0	5008	,	,		28860	0.0		0.0	False		,,,				2504	0.0															0													51	57	55					18																	14542888		692	1591	2283	SO:0001819	synonymous_variant	388468			BX649118	CCDS45835.1	18p11.21	2013-01-10	2008-11-26	2008-11-26	ENSG00000183206	ENSG00000183206		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33894	protein-coding gene	gene with protein product	"cancer/testis antigen family 104, member 6"		"ANKRD26-like family B, member 2"	A26B2			Standard	NM_001137671		Approved	POTE18, POTE-18, DKFZp686J0529, CT104.6	uc010dln.3	B2RU33	OTTHUMG00000162963	ENST00000358970.5:c.258T>C	18.37:g.14542888A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000358970.5	37	CCDS45835.1																																																																																				0.587	POTEC-002	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371179.1	XM_496269		G	14542888	A	G	14542888	2	3	678	1	0	0	0	0	0	0	0	1	12269	214	8	3		3	POTEC	18	14542888	Silent	SNP	A	TCGA-KO-8407-01A-11D-2310-10		14542888	63534360	72	43804										
ASXL3	80816	broad.mit.edu	37	chr18	31325884	31325884	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ccgccgccaccgcctcccccTccccctccacccttggcttt	5	26	0	0			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr18:31325884T>C	ENST00000269197.5	+	12	6072	c.6072T>C	c.(6070-6072)ccT>ccC	p.P2024P		NM_030632.1	NP_085135.1	Q9C0F0	ASXL3_HUMAN	additional sex combs like transcriptional regulator 3	2024	Pro-rich.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(3)|endometrium(3)|kidney(3)|large_intestine(6)|lung(22)|ovary(2)|pancreas(1)|skin(2)|urinary_tract(1)	43						cgcctccccctccccctccac	0.602																																																0													10	13	12					18																	31325884		1819	4049	5868	SO:0001819	synonymous_variant	80816			AB051500	CCDS45847.1	18q11	2014-06-17	2014-06-17	2007-02-01		ENSG00000141431			29357	protein-coding gene	gene with protein product		615115	"KIAA1713", "additional sex combs like 3 (Drosophila)"	KIAA1713		11214970	Standard	NM_030632		Approved		uc010dmg.1	Q9C0F0		ENST00000269197.5:c.6072T>C	18.37:g.31325884T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZMX6|Q96MU3|Q9UFC5	Silent	SNP	ENST00000269197.5	37	CCDS45847.1																																																																																				0.602	ASXL3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441865.2			C	31325884	T	C	31325884	2	2	678	1	0	0	0	0	0	0	0	1	1068	1538	54	3		3	ASXL3	18	31325884	Silent	SNP	T	TCGA-KO-8407-01A-11D-2310-10	16782996	31325884	46751364	73	43805										
KIAA1632	57724	broad.mit.edu	37	chr18	43534970	43534970	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ctgtgaagttcttgggggttTctactttagttccaacattg	10	7	2	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr18:43534970T>C	ENST00000282041.5	-	2	432	c.398A>G	c.(397-399)gAa>gGa	p.E133G		NM_020964.2	NP_066015.2	Q9HCE0	EPG5_HUMAN	ectopic P-granules autophagy protein 5 homolog (C. elegans)	133					autophagic vacuole maturation (GO:0097352)|autophagy (GO:0006914)|endocytic recycling (GO:0032456)					NS(1)|breast(9)|central_nervous_system(3)|cervix(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(22)|lung(35)|ovary(2)|pancreas(1)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	95						CTTGGGGGTTTCTACTTTAGT	0.498																																																0													105	100	101					18																	43534970		1883	4105	5988	SO:0001583	missense	57724			AK023817	CCDS11926.2	18q12.3	2011-03-02	2011-03-02	2011-03-02	ENSG00000152223	ENSG00000152223			29331	protein-coding gene	gene with protein product		615068	"KIAA1632"	KIAA1632		10997877, 20550938	Standard	XM_005258323		Approved	hEPG5	uc002lbm.3	Q9HCE0	OTTHUMG00000132626	ENST00000282041.5:c.398A>G	18.37:g.43534970T>C	ENSP00000282041:p.Glu133Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A2BDF3|Q9H8C8	Missense_Mutation	SNP	ENST00000282041.5	37	CCDS11926.2	.	.	.	.	.	.	.	.	.	.	T	12.22	1.873783	0.33069	.	.	ENSG00000152223	ENST00000282041	T	0.13307	2.6	5.76	1.96	0.26148	.	1.429990	0.03915	N	0.282546	T	0.10423	0.0255	N	0.19112	0.55	0.09310	N	1	B;B	0.06786	0.001;0.001	B;B	0.08055	0.003;0.003	T	0.33929	-0.9849	10	0.62326	D	0.03	-0.0288	5.1599	0.15056	0.1319:0.1426:0.0:0.7255	.	133;133	Q9HCE0-2;Q9HCE0	.;EPG5_HUMAN	G	133	ENSP00000282041:E133G	ENSP00000282041:E133G	E	-	2	0	EPG5	41788968	0.478000	0.25917	0.000000	0.03702	0.044000	0.14063	1.758000	0.38410	0.089000	0.17243	0.460000	0.39030	GAA		0.498	EPG5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445081.1	NM_020964		C	43534970	T	C	43534970	3	2	678	1	0	0	0	0	1	0	0	0	8256	1783	62	3	7513	3	KIAA1632	18	43534970	Missense_Mutation	SNP	T	TCGA-KO-8407-01A-11D-2310-10	12209086	43534970	34542278	74	43806										
TMX3	54495	ucsc.edu	37	chr18	66365223	66365223	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	aatacacggtgtctcttctgCatatgttcaaacatttgttg	7	8	3	0			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr18:66365223C>T	ENST00000299608.2	-	7	754	c.438G>A	c.(436-438)atG>atA	p.M146I	TMX3_ENST00000443099.2_Missense_Mutation_p.M119I|TMX3_ENST00000562706.1_Missense_Mutation_p.M146I	NM_019022.3	NP_061895.3	Q96JJ7	TMX3_HUMAN	thioredoxin-related transmembrane protein 3	146					cell redox homeostasis (GO:0045454)|protein folding (GO:0006457)|response to endoplasmic reticulum stress (GO:0034976)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	protein disulfide isomerase activity (GO:0003756)			cervix(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(5)|ovary(1)|skin(1)|urinary_tract(1)	17						GTCTCTTCTGCATATGTTCAA	0.313																																																0													100	91	94					18																	66365223		2203	4300	6503	SO:0001583	missense	54495			BX647846	CCDS32840.1	18q22	2011-10-19	2009-02-23	2009-02-23		ENSG00000166479		"Protein disulfide isomerases"	24718	protein-coding gene	gene with protein product	"protein disulfide isomerase family A, member 13"		"thioredoxin domain containing 10"	TXNDC10		15623505	Standard	NM_019022		Approved	FLJ20793, KIAA1830, PDIA13	uc002lkf.3	Q96JJ7		ENST00000299608.2:c.438G>A	18.37:g.66365223C>T	ENSP00000299608:p.Met146Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B3KV75|Q52LT7|Q8N5J0|Q9NWJ9	Missense_Mutation	SNP	ENST00000299608.2	37	CCDS32840.1	.	.	.	.	.	.	.	.	.	.	C	9.922	1.212389	0.22289	.	.	ENSG00000166479	ENST00000299608;ENST00000544714;ENST00000443099	T;T	0.10668	3.13;2.85	5.33	-0.718	0.11205	.	0.159551	0.56097	D	0.000032	T	0.03739	0.0106	N	0.12746	0.255	0.32577	N	0.529024	B;B;B	0.12013	0.005;0.004;0.001	B;B;B	0.13407	0.009;0.007;0.001	T	0.37150	-0.9718	10	0.14656	T	0.56	.	1.661	0.02792	0.1319:0.3586:0.1288:0.3806	.	119;146;146	B4DIE3;Q96JJ7-2;Q96JJ7	.;.;TMX3_HUMAN	I	146;146;119	ENSP00000299608:M146I;ENSP00000402605:M119I	ENSP00000299608:M146I	M	-	3	0	TMX3	64516203	0.247000	0.23920	0.758000	0.31321	0.957000	0.61999	0.199000	0.17237	-0.385000	0.07833	-0.140000	0.14226	ATG		0.313	TMX3-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000420155.1	NM_019022		T	66365223	C	T	66365223	3	4	678	1	0	0	0	0	1	0	0	0	16280	710	25	2	966	2	TMX3	18	66365223	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10	22830253	66365223	11712025	75	43807										
WDR18	57418	mdanderson.org	37	chr19	984554	984554	+	Silent	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	tacatcagcgcctgggagctCcagcggaaggtgcggcggtg	17	11	1	0	rs4806884	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr19:984554C>G	ENST00000251289.5	+	1	224	c.201C>G	c.(199-201)ctC>ctG	p.L67L	WDR18_ENST00000587001.2_Silent_p.L67L|WDR18_ENST00000591997.1_Intron	NM_024100.3	NP_077005.2	Q9BV38	WDR18_HUMAN	WD repeat domain 18	67					multicellular organismal development (GO:0007275)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				endometrium(1)|kidney(2)|lung(2)|skin(2)	7		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTGGGAGCTCCAGCGGAAGG	0.711													.|||	1837	0.366813	0.3283	0.4092	5008	,	,		11315	0.2768		0.5567	False		,,,				2504	0.2863															0								G		1233,2751		232,769,991	5	7	7		201	-1.1	1	19	dbSNP_111	7	3627,4195		956,1715,1240	no	coding-synonymous	WDR18	NM_024100.3		1188,2484,2231	GG,GC,CC		46.3692,30.9488,41.1655		67/433	984554	4860,6946	1992	3911	5903	SO:0001819	synonymous_variant	57418				CCDS12051.1	19p13.3	2013-01-09				ENSG00000065268		"WD repeat domain containing"	17956	protein-coding gene	gene with protein product	"Involved in Processing ITS2 3 homolog (S. cerevisiae)"					22190735	Standard	NM_024100		Approved	Ipi3	uc002lqm.1	Q9BV38		ENST00000251289.5:c.201C>G	19.37:g.984554C>G		Somatic		WXS	Illumina HiSeq	Phase_I	O60390|Q9BWR2	Silent	SNP	ENST00000251289.5	37	CCDS12051.1																																																																																				0.711	WDR18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458225.2			G	984554	C	G	984554	2	3	678	1	0	0	0	0	0	0	0	1	17290	842	30	4		4	WDR18	19	984554	Silent	SNP	C	TCGA-KO-8407-01A-11D-2310-10		984554	58144429	76	43808										
COL5A3	50509	mdanderson.org;bcgsc.ca	37	chr19	10078060	10078060	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ctgcaggtccagtgtctccaCgggggcccatggacccctgt	13	15	1	0	rs370182126		TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr19:10078060C>T	ENST00000264828.3	-	62	4506	c.4421G>A	c.(4420-4422)cGt>cAt	p.R1474H		NM_015719.3	NP_056534.2	P25940	CO5A3_HUMAN	collagen, type V, alpha 3	1474	Collagen-like 6.|Triple-helical region.				axon guidance (GO:0007411)|cell-matrix adhesion (GO:0007160)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|skin development (GO:0043588)	collagen type V trimer (GO:0005588)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)|heparin binding (GO:0008201)	p.R1474H(1)		NS(2)|breast(3)|central_nervous_system(2)|endometrium(11)|kidney(23)|large_intestine(12)|liver(2)|lung(35)|ovary(8)|prostate(5)|skin(10)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	116			Epithelial(33;7.11e-05)			AGTGTCTCCACGGGGGCCCAT	0.607																																																1	Substitution - Missense(1)	endometrium(1)						C	HIS/ARG	1,4355		0,1,2177	18	17	17		4421	1.8	1	19		17	0,8546		0,0,4273	no	missense	COL5A3	NM_015719.3	29	0,1,6450	TT,TC,CC		0.0,0.023,0.0078	probably-damaging	1474/1746	10078060	1,12901	2178	4273	6451	SO:0001583	missense	50509			AF177941	CCDS12222.1	19p13.2	2013-01-16			ENSG00000080573	ENSG00000080573		"Collagens"	14864	protein-coding gene	gene with protein product		120216				10722718	Standard	NM_015719		Approved		uc002mmq.1	P25940	OTTHUMG00000150019	ENST00000264828.3:c.4421G>A	19.37:g.10078060C>T	ENSP00000264828:p.Arg1474His	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NZQ6	Missense_Mutation	SNP	ENST00000264828.3	37	CCDS12222.1	.	.	.	.	.	.	.	.	.	.	C	9.557	1.117512	0.20877	2.3E-4	0.0	ENSG00000080573	ENST00000264828	D	0.94280	-3.39	4.06	1.79	0.24919	.	0.246732	0.29814	N	0.011122	D	0.93530	0.7935	M	0.81341	2.54	0.28887	N	0.894099	D	0.58970	0.984	P	0.52710	0.707	D	0.88317	0.2960	10	0.62326	D	0.03	.	5.0036	0.14277	0.0:0.7142:0.0:0.2858	.	1474	P25940	CO5A3_HUMAN	H	1474	ENSP00000264828:R1474H	ENSP00000264828:R1474H	R	-	2	0	COL5A3	9939060	0.000000	0.05858	0.957000	0.39632	0.065000	0.16274	-0.496000	0.06436	0.929000	0.37192	0.508000	0.49915	CGT		0.607	COL5A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000315788.1	NM_015719		T	10078060	C	T	10078060	3	4	678	1	0	0	0	0	1	0	0	0	3700	536	19	1	840	1	COL5A3	19	10078060	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10	9093506	10078060	49050923	77	43809										
LILRA1	11024	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr19	55107718	55107718	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	acggtggcctcaggagagaaCgtgaccctgctgtgtcagtc	14	11	2	2			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr19:55107718C>T	ENST00000251372.3	+	7	1205	c.1023C>T	c.(1021-1023)aaC>aaT	p.N341N	LILRA1_ENST00000453777.1_Intron|LILRA1_ENST00000473156.1_3'UTR|LILRB1_ENST00000448689.1_Intron|LILRB1_ENST00000396321.2_Intron|LILRB1_ENST00000418536.2_Intron	NM_006863.2	NP_006854.1	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 1	341	Ig-like C2-type 4.				cell surface receptor signaling pathway (GO:0007166)|defense response (GO:0006952)|immune system process (GO:0002376)|regulation of immune response (GO:0050776)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	antigen binding (GO:0003823)|transmembrane signaling receptor activity (GO:0004888)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(5)|liver(1)|lung(23)|ovary(1)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)	47				GBM - Glioblastoma multiforme(193;0.0348)		CAGGAGAGAACGTGACCCTGC	0.607																																																0													81	78	79					19																	55107718		2203	4300	6503	SO:0001819	synonymous_variant	11024			AF025530	CCDS12901.1, CCDS62802.1	19q13.4	2013-01-11			ENSG00000104974	ENSG00000104974		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6602	protein-coding gene	gene with protein product		604810				9548455	Standard	NM_006863		Approved	LIR-6, CD85i, LIR6	uc002qgh.2	O75019	OTTHUMG00000065701	ENST00000251372.3:c.1023C>T	19.37:g.55107718C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O75018|Q3MJA6	Silent	SNP	ENST00000251372.3	37	CCDS12901.1																																																																																				0.607	LILRA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140807.2	NM_006863		T	55107718	C	T	55107718	2	4	678	1	0	0	0	0	0	0	0	1	8791	535	19	1		1	LILRA1	19	55107718	Silent	SNP	C	TCGA-KO-8407-01A-11D-2310-10	45029658	55107718	4021265	78	43810										
SLC32A1	140679	broad.mit.edu	37	chr20	37356927	37356927	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	tgtcgaggtgctggagaagtCgctcttccaggaaggcagcc	15	10	1	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr20:37356927C>T	ENST00000217420.1	+	2	1486	c.1223C>T	c.(1222-1224)tCg>tTg	p.S408L		NM_080552.2	NP_542119.1	Q9H598	VIAAT_HUMAN	solute carrier family 32 (GABA vesicular transporter), member 1	408					aging (GO:0007568)|ion transport (GO:0006811)|neurotransmitter secretion (GO:0007269)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	cell tip (GO:0051286)|clathrin-sculpted gamma-aminobutyric acid transport vesicle membrane (GO:0061202)|cone cell pedicle (GO:0044316)|dendrite (GO:0030425)|dendrite terminus (GO:0044292)|inhibitory synapse (GO:0060077)|integral component of membrane (GO:0016021)|neuron projection (GO:0043005)|neuron projection terminus (GO:0044306)|plasma membrane (GO:0005886)|synaptic vesicle membrane (GO:0030672)	gamma-aminobutyric acid:proton symporter activity (GO:0015495)|glycine transmembrane transporter activity (GO:0015187)			breast(2)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(11)|lung(16)|urinary_tract(1)	38		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CTGGAGAAGTCGCTCTTCCAG	0.657																																																0													56	57	56					20																	37356927		2203	4300	6503	SO:0001583	missense	140679			AL133519	CCDS13307.1	20q11	2013-05-22			ENSG00000101438	ENSG00000101438		"Solute carriers"	11018	protein-coding gene	gene with protein product			"vesicular inhibitory amino acid transporter"	VIAAT		19843525	Standard	NM_080552		Approved	VGAT, bA122O1.1	uc002xjc.3	Q9H598	OTTHUMG00000032457	ENST00000217420.1:c.1223C>T	20.37:g.37356927C>T	ENSP00000217420:p.Ser408Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N489	Missense_Mutation	SNP	ENST00000217420.1	37	CCDS13307.1	.	.	.	.	.	.	.	.	.	.	C	12.69	2.013250	0.35511	.	.	ENSG00000101438	ENST00000217420	T	0.02121	4.44	4.45	4.45	0.53987	.	0.125962	0.56097	D	0.000035	T	0.01800	0.0057	N	0.16743	0.435	0.58432	D	0.999998	B	0.20459	0.045	B	0.12837	0.008	T	0.51988	-0.8635	10	0.08381	T	0.77	-9.6575	14.9208	0.70835	0.0:1.0:0.0:0.0	.	408	Q9H598	VIAAT_HUMAN	L	408	ENSP00000217420:S408L	ENSP00000217420:S408L	S	+	2	0	SLC32A1	36790341	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	5.968000	0.70413	2.202000	0.70862	0.563000	0.77884	TCG		0.657	SLC32A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079206.1	NM_080552		T	37356927	C	T	37356927	3	4	678	1	0	0	0	0	1	0	0	0	14578	893	31	1	1229	1	SLC32A1	20	37356927	Missense_Mutation	SNP	C	TCGA-KO-8407-01A-11D-2310-10		37356927	25668593	79	43811										
APP	351	broad.mit.edu	37	chr21	27372385	27372386	+	Frame_Shift_Ins	INS	-	-	C													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	tgtcaaagttgttccggttgINSccgccacatccgccgtaaaa					rs141526793		TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr21:27372385_27372386insC	ENST00000346798.3	-	7	1010_1011	c.977_978insG	c.(976-978)ggcfs	p.G326fs	APP_ENST00000440126.3_Frame_Shift_Ins_p.G321fs|APP_ENST00000439274.2_Frame_Shift_Ins_p.G270fs|APP_ENST00000348990.5_Intron|APP_ENST00000358918.3_Frame_Shift_Ins_p.G326fs|APP_ENST00000448388.2_Intron|APP_ENST00000354192.3_Intron|APP_ENST00000359726.3_Intron|APP_ENST00000357903.3_Frame_Shift_Ins_p.G326fs	NM_000484.3	NP_000475.1	P05067	A4_HUMAN	amyloid beta (A4) precursor protein	326	BPTI/Kunitz inhibitor. {ECO:0000255|PROSITE-ProRule:PRU00031}.				adult locomotory behavior (GO:0008344)|axon cargo transport (GO:0008088)|axon midline choice point recognition (GO:0016199)|axonogenesis (GO:0007409)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cellular copper ion homeostasis (GO:0006878)|cholesterol metabolic process (GO:0008203)|collateral sprouting in absence of injury (GO:0048669)|dendrite development (GO:0016358)|endocytosis (GO:0006897)|extracellular matrix organization (GO:0030198)|forebrain development (GO:0030900)|innate immune response (GO:0045087)|ionotropic glutamate receptor signaling pathway (GO:0035235)|locomotory behavior (GO:0007626)|mating behavior (GO:0007617)|mRNA polyadenylation (GO:0006378)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of neuron differentiation (GO:0045665)|neuromuscular process controlling balance (GO:0050885)|neuron apoptotic process (GO:0051402)|neuron projection development (GO:0031175)|neuron remodeling (GO:0016322)|Notch signaling pathway (GO:0007219)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of G2/M transition of mitotic cell cycle (GO:0010971)|positive regulation of mitotic cell cycle (GO:0045931)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein phosphorylation (GO:0006468)|regulation of epidermal growth factor-activated receptor activity (GO:0007176)|regulation of multicellular organism growth (GO:0040014)|regulation of protein binding (GO:0043393)|regulation of synapse structure and activity (GO:0050803)|regulation of translation (GO:0006417)|response to oxidative stress (GO:0006979)|smooth endoplasmic reticulum calcium ion homeostasis (GO:0051563)|suckling behavior (GO:0001967)|synaptic growth at neuromuscular junction (GO:0051124)|visual learning (GO:0008542)	apical part of cell (GO:0045177)|axon (GO:0030424)|cell surface (GO:0009986)|cell-cell junction (GO:0005911)|ciliary rootlet (GO:0035253)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendritic shaft (GO:0043198)|dendritic spine (GO:0043197)|endosome (GO:0005768)|ER to Golgi transport vesicle (GO:0030134)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|intracellular membrane-bounded organelle (GO:0043231)|membrane raft (GO:0045121)|neuromuscular junction (GO:0031594)|nuclear envelope lumen (GO:0005641)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|platelet alpha granule lumen (GO:0031093)|receptor complex (GO:0043235)|spindle midzone (GO:0051233)|synapse (GO:0045202)	acetylcholine receptor binding (GO:0033130)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|heparin binding (GO:0008201)|identical protein binding (GO:0042802)|peptidase activator activity (GO:0016504)|PTB domain binding (GO:0051425)|receptor binding (GO:0005102)|serine-type endopeptidase inhibitor activity (GO:0004867)|transition metal ion binding (GO:0046914)			endometrium(5)|large_intestine(3)|lung(11)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	22		Breast(209;0.00295)				TGTTCCGGTTGCCGCCACATCC	0.574																																																0																																										SO:0001589	frameshift_variant	351			M15533	CCDS13576.1, CCDS13577.1, CCDS33523.1, CCDS46638.1, CCDS46639.1, CCDS56211.1, CCDS56212.1, CCDS56213.1	21q21.2	2014-01-30	2008-07-31		ENSG00000142192	ENSG00000142192		"Endogenous ligands"	620	protein-coding gene	gene with protein product	"peptidase nexin-II"	104760	"Alzheimer disease"	AD1		1679289	Standard	NM_001136130		Approved		uc002ylz.3	P05067	OTTHUMG00000078438	ENST00000346798.3:c.978dupG	21.37:g.27372387_27372387dupC	ENSP00000284981:p.Gly326fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5V1|B4DII8|D3DSD1|D3DSD2|D3DSD3|P09000|P78438|Q13764|Q13778|Q13793|Q16011|Q16014|Q16019|Q16020|Q6GSC0|Q8WZ99|Q9BT38|Q9UC33|Q9UCA9|Q9UCB6|Q9UCC8|Q9UCD1|Q9UQ58	Frame_Shift_Ins	INS	ENST00000346798.3	37	CCDS13576.1																																																																																				0.574	APP-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000171340.1	NM_000484		C	27372386	-	C	27372385	7	5	678	1	0	1	1	0	0	0	0	0	815	1306	46	0	1382	0	APP	21	27372385	Frame_Shift_Ins	INS	-	TCGA-KO-8407-01A-11D-2310-10		27372385	20757510	80	43812										
USP16	10600	broad.mit.edu	37	chr21	30409627	30409627	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	taatggaaatattgaacttgAaaataaaaaattagaaaaag	6	1	0	3			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr21:30409627A>G	ENST00000334352.4	+	7	710	c.479A>G	c.(478-480)gAa>gGa	p.E160G	USP16_ENST00000399976.2_Missense_Mutation_p.E160G|USP16_ENST00000399975.3_Missense_Mutation_p.E159G|USP16_ENST00000535828.1_Intron	NM_001032410.1	NP_001027582.1			ubiquitin specific peptidase 16											breast(1)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(6)|lung(12)|ovary(2)|pancreas(1)|prostate(2)	34						ATTGAACTTGAAAATAAAAAA	0.303																																					Melanoma(92;625 1444 27493 34101 44971)											0													46	53	51					21																	30409627		2201	4299	6500	SO:0001583	missense	10600			AF126736	CCDS13583.1, CCDS42912.1	21q21	2008-04-11	2005-08-08		ENSG00000156256	ENSG00000156256		"Ubiquitin-specific peptidases"	12614	protein-coding gene	gene with protein product		604735	"ubiquitin specific protease 16"			12838346	Standard	NM_006447		Approved	Ubp-M	uc002ymy.3	Q9Y5T5	OTTHUMG00000078802	ENST00000334352.4:c.479A>G	21.37:g.30409627A>G	ENSP00000334808:p.Glu160Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000334352.4	37	CCDS13583.1	.	.	.	.	.	.	.	.	.	.	A	14.61	2.587621	0.46110	.	.	ENSG00000156256	ENST00000399975;ENST00000399976;ENST00000334352	T;T;T	0.07021	3.23;3.24;3.24	5.9	5.9	0.94986	.	0.275088	0.41097	D	0.000948	T	0.05868	0.0153	N	0.14661	0.345	0.80722	D	1	B;B;B	0.12013	0.003;0.002;0.005	B;B;B	0.09377	0.003;0.004;0.002	T	0.42068	-0.9473	10	0.32370	T	0.25	.	12.1736	0.54173	0.9318:0.0:0.0682:0.0	.	145;159;160	Q9Y5T5-3;Q9Y5T5-2;Q9Y5T5	.;.;UBP16_HUMAN	G	159;160;160	ENSP00000382857:E159G;ENSP00000382858:E160G;ENSP00000334808:E160G	ENSP00000334808:E160G	E	+	2	0	USP16	29331498	1.000000	0.71417	1.000000	0.80357	0.918000	0.54935	2.616000	0.46376	2.251000	0.74343	0.528000	0.53228	GAA		0.303	USP16-003	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000171847.1			G	30409627	A	G	30409627	3	3	678	1	0	0	0	0	1	0	0	0	17059	246	9	3	497	3	USP16	21	30409627	Missense_Mutation	SNP	A	TCGA-KO-8407-01A-11D-2310-10	3037242	30409627	17720268	81	43813										
KRTAP10-6	386674	mdanderson.org	37	chr21	46011987	46011987	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	agaatccccacagcagacggAcacacagcacacaggcttgc	9	15	0	2	rs201334923	byFrequency	TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr21:46011987A>G	ENST00000400368.1	-	1	399	c.379T>C	c.(379-381)Tcc>Ccc	p.S127P	TSPEAR_ENST00000323084.4_Intron	NM_198688.2	NP_941961.2	P60371	KR106_HUMAN	keratin associated protein 10-6	127	29 X 5 AA repeats of C-C-X(3).					keratin filament (GO:0045095)				endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|lung(6)|prostate(3)|skin(1)|stomach(1)|urinary_tract(1)	23						CAGCAGACGGACACACAGCAC	0.642													.|||	980	0.195687	0.3873	0.1282	5008	,	,		18410	0.2401		0.0855	False		,,,				2504	0.0521															0								G	,PRO/SER	346,3600		9,328,1636	65	101	89		,379	-1.7	0	21	dbSNP_132	89	122,8214		6,110,4052	no	intron,missense	TSPEAR,KRTAP10-6	NM_144991.2,NM_198688.2	,74	15,438,5688	GG,GA,AA		1.4635,8.7684,3.8105	,benign	,127/366	46011987	468,11814	1973	4168	6141	SO:0001583	missense	386674			AB076353	CCDS42959.1	21q22.3	2006-03-13	2004-07-12	2004-07-14	ENSG00000188155	ENSG00000188155		"Keratin associated proteins"	20523	protein-coding gene	gene with protein product			"keratin associated protein 18-6"	KRTAP18-6			Standard	NM_198688		Approved	KRTAP18.6, KAP18.6, KAP10.6	uc002zfm.3	P60371	OTTHUMG00000057634	ENST00000400368.1:c.379T>C	21.37:g.46011987A>G	ENSP00000383219:p.Ser127Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000400368.1	37	CCDS42959.1	.	.	.	.	.	.	.	.	.	.	g	0.017	-1.506709	0.00992	0.087684	0.014635	ENSG00000188155	ENST00000400368	T	0.01397	4.94	2.44	-1.71	0.08133	.	.	.	.	.	T	0.00039	0.0001	N	0.00793	-1.18	0.80722	P	0.0	B	0.02656	0.0	B	0.04013	0.001	T	0.39522	-0.9610	8	0.02654	T	1	.	2.6267	0.04931	0.3892:0.0:0.2528:0.358	.	127	P60371	KR106_HUMAN	P	127	ENSP00000383219:S127P	ENSP00000383219:S127P	S	-	1	0	KRTAP10-6	44836415	0.000000	0.05858	0.000000	0.03702	0.030000	0.12068	-0.886000	0.04157	-0.713000	0.04981	-1.032000	0.02404	TCC		0.642	KRTAP10-6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128037.1	NM_198688		G	46011987	A	G	46011987	3	3	678	1	0	0	0	0	1	0	0	0	8520	275	10	3	722	3	KRTAP10-6	21	46011987	Missense_Mutation	SNP	A	TCGA-KO-8407-01A-11D-2310-10	15602360	46011987	2117908	82	43814										
MTMR3	8897	mdanderson.org	37	chr22	30419455	30419455	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	cctccttgcagggacactgaCcgtgttgatcaaacgtggtg	12	11	1	2			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr22:30419455C>T	ENST00000401950.2	+	19	3767				CTA-85E5.10_ENST00000453743.2_RNA|CTA-85E5.10_ENST00000429350.1_RNA|MTMR3_ENST00000333027.3_Silent_p.D1108D|MTMR3_ENST00000406629.1_Silent_p.D1108D|MTMR3_ENST00000351488.3_Intron|MTMR3_ENST00000323630.5_Intron	NM_021090.3	NP_066576.1	Q13615	MTMR3_HUMAN	myotubularin related protein 3						peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phospholipid metabolic process (GO:0006644)|protein dephosphorylation (GO:0006470)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extrinsic component of membrane (GO:0019898)|membrane (GO:0016020)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity (GO:0052629)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)			breast(3)|large_intestine(3)|ovary(2)|skin(8)|upper_aerodigestive_tract(1)	17			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			GGGACACTGACCGTGTTGATC	0.498																																																0													217	179	192					22																	30419455		2203	4300	6503	SO:0001627	intron_variant	8897			U58034	CCDS13870.1, CCDS13871.1, CCDS46682.1	22q12.2	2011-06-09			ENSG00000100330	ENSG00000100330		"Zinc fingers, FYVE domain containing", "Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	7451	protein-coding gene	gene with protein product		603558				8640223, 9736772	Standard	NM_153050		Approved	KIAA0371, ZFYVE10, FYVE-DSP1	uc003agv.4	Q13615	OTTHUMG00000151278	ENST00000401950.2:c.3425+769C>T	22.37:g.30419455C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A5PL26|A7MD32|Q9NYN5|Q9NYN6|Q9UDX6|Q9UEG3	Silent	SNP	ENST00000401950.2	37	CCDS13870.1																																																																																				0.498	MTMR3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000322066.1	NM_021090		T	30419455	C	T	30419455	1	4	678	0	1	0	0	0	0	0	0	0	9952	506	18	2		2	MTMR3	22	30419455	Intron	SNP	C	TCGA-KO-8407-01A-11D-2310-10		30419455	20885111	83	43815										
SEC14L3	266629	broad.mit.edu	37	chr22	30857663	30857664	+	Frame_Shift_Ins	INS	-	-	C													0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	acgtacatggacttggggatINSctccccgccatagttaatct							TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr22:30857663_30857664insC	ENST00000215812.4	-	10	879_880	c.789_790insG	c.(787-792)gagatcfs	p.I264fs	SEC14L3_ENST00000402286.1_Frame_Shift_Ins_p.I187fs|SEC14L3_ENST00000415957.2_Frame_Shift_Ins_p.I205fs|SEC14L3_ENST00000403066.1_Frame_Shift_Ins_p.I205fs|SEC14L3_ENST00000539629.1_Frame_Shift_Ins_p.I205fs|SEC14L3_ENST00000401751.1_Frame_Shift_Ins_p.I205fs|SEC14L3_ENST00000540910.1_Frame_Shift_Ins_p.I187fs	NM_174975.4	NP_777635.1	Q9UDX4	S14L3_HUMAN	SEC14-like 3 (S. cerevisiae)	264						extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|intracellular (GO:0005622)	lipid binding (GO:0008289)|transporter activity (GO:0005215)			NS(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(3)|ovary(3)|pancreas(1)|skin(2)|urinary_tract(1)	19					Vitamin E(DB00163)	GACTTGGGGATCTCCCCGCCAT	0.54																																					Esophageal Squamous(108;290 1516 3584 23771 37333)											0																																										SO:0001589	frameshift_variant	266629			AY158086	CCDS13877.1, CCDS58800.1, CCDS58801.1	22q12.2	2013-09-23			ENSG00000100012	ENSG00000100012			18655	protein-coding gene	gene with protein product		612824					Standard	NM_174975		Approved	TAP2	uc003ahy.3	Q9UDX4	OTTHUMG00000151259	ENST00000215812.4:c.790dupG	22.37:g.30857664_30857664dupC	ENSP00000215812:p.Ile264fs	Somatic		WXS	Illumina HiSeq	Phase_I	E7EN74|E9PE57|Q495V8|Q495W0|Q495W1	Frame_Shift_Ins	INS	ENST00000215812.4	37	CCDS13877.1																																																																																				0.54	SEC14L3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321950.4	NM_174975		C	30857664	-	C	30857663	7	5	678	1	0	1	1	0	0	0	0	0	13996	1435	50	0	424	0	SEC14L3	22	30857663	Frame_Shift_Ins	INS	-	TCGA-KO-8407-01A-11D-2310-10	438208	30857663	20446903	84	43816										
RBX1	9978	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr22	41368482	41368482	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	atttactttgtctttcaggtAtgggcactaggaaaagactt	9	6	2	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chr22:41368482A>G	ENST00000216225.8	+	5	357	c.317A>G	c.(316-318)tAt>tGt	p.Y106C		NM_014248.3	NP_055063.1	P62877	RBX1_HUMAN	ring-box 1, E3 ubiquitin protein ligase	106					cellular response to hypoxia (GO:0071456)|DNA repair (GO:0006281)|Notch signaling pathway (GO:0007219)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein monoubiquitination (GO:0006513)|protein neddylation (GO:0045116)|protein ubiquitination (GO:0016567)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146)|viral process (GO:0016032)	Cul2-RING ubiquitin ligase complex (GO:0031462)|Cul3-RING ubiquitin ligase complex (GO:0031463)|Cul4A-RING E3 ubiquitin ligase complex (GO:0031464)|Cul4B-RING E3 ubiquitin ligase complex (GO:0031465)|Cul5-RING ubiquitin ligase complex (GO:0031466)|Cul7-RING ubiquitin ligase complex (GO:0031467)|cullin-RING ubiquitin ligase complex (GO:0031461)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|SCF ubiquitin ligase complex (GO:0019005)|VCB complex (GO:0030891)	NEDD8 ligase activity (GO:0019788)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			large_intestine(1)|lung(3)|skin(1)	5						TCTTTCAGGTATGGGCACTAG	0.328																																																0													208	194	199					22																	41368482		2202	4300	6502	SO:0001583	missense	9978			AF140598	CCDS14009.1	22q13.2	2010-09-17	2010-09-17		ENSG00000100387	ENSG00000100387		"RING-type (C3HC4) zinc fingers"	9928	protein-coding gene	gene with protein product	"regulator of cullins 1"	603814	"ring-box 1"			10213691, 10230407	Standard	NM_014248		Approved	ROC1, RNF75, BA554C12.1	uc003azk.3	P62877	OTTHUMG00000151298	ENST00000216225.8:c.317A>G	22.37:g.41368482A>G	ENSP00000216225:p.Tyr106Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDY1|Q8N6Z8|Q9D1S2|Q9WUK9|Q9Y254	Missense_Mutation	SNP	ENST00000216225.8	37	CCDS14009.1	.	.	.	.	.	.	.	.	.	.	A	13.89	2.373090	0.42105	.	.	ENSG00000100387	ENST00000216225	.	.	.	6.07	6.07	0.98685	.	0.000000	0.85682	D	0.000000	T	0.47563	0.1452	L	0.28115	0.83	0.80722	D	1	B	0.25235	0.121	B	0.29785	0.107	T	0.44967	-0.9293	9	0.48119	T	0.1	.	13.0206	0.58784	1.0:0.0:0.0:0.0	.	106	P62877	RBX1_HUMAN	C	106	.	ENSP00000216225:Y106C	Y	+	2	0	RBX1	39698428	1.000000	0.71417	1.000000	0.80357	0.834000	0.47266	4.464000	0.60134	2.326000	0.78906	0.533000	0.62120	TAT		0.328	RBX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322149.1	NM_014248		G	41368482	A	G	41368482	3	3	678	1	0	0	0	0	1	0	0	0	13178	449	16	3	335	3	RBX1	22	41368482	Missense_Mutation	SNP	A	TCGA-KO-8407-01A-11D-2310-10	10510819	41368482	9936084	85	43817										
CLCN5	1184	bcgsc.ca	37	chrX	49834549	49834549	+	5'UTR	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	tacagaggacaagtcgtacaAtggtggaggaataggttctt	13	5	1	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chrX:49834549A>G	ENST00000307367.2	+	0	260				CLCN5_ENST00000376088.3_Missense_Mutation_p.N60S|CLCN5_ENST00000376091.3_Missense_Mutation_p.N60S|CLCN5_ENST00000376108.3_5'UTR			P51795	CLCN5_HUMAN	chloride channel, voltage-sensitive 5						chloride transmembrane transport (GO:1902476)|endocytosis (GO:0006897)|excretion (GO:0007588)|ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)|transport (GO:0006810)	apical part of cell (GO:0045177)|endosome membrane (GO:0010008)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)	antiporter activity (GO:0015297)|ATP binding (GO:0005524)|chloride channel activity (GO:0005254)|voltage-gated chloride channel activity (GO:0005247)			central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(11)|lung(8)|ovary(2)|skin(1)	30	Ovarian(276;0.236)					AAGTCGTACAATGGTGGAGGA	0.393																																																0													88	69	76					X																	49834549		2203	4300	6503	SO:0001623	5_prime_UTR_variant	1184			X91906	CCDS14328.1, CCDS48115.1, CCDS69763.1	Xp11.23-p11.22	2012-09-26	2012-02-23		ENSG00000171365	ENSG00000171365		"Ion channels / Chloride channels : Voltage-sensitive"	2023	protein-coding gene	gene with protein product	"Dent disease"	300008	"nephrolithiasis 2, X-linked", "nephrolithiasis 1 (X-linked)", "chloride channel 5"	NPHL2, NPHL1		7874126, 8111383, 8099916, 8559248, 9602200	Standard	NM_001272102		Approved	DENTS, XLRH, hClC-K2, hCIC-K2, CLC5, XRN, ClC-5	uc004doq.1	P51795	OTTHUMG00000021514	ENST00000307367.2:c.-32A>G	X.37:g.49834549A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A1L475|B3KPN6|Q5JQD5|Q7RTN8	Missense_Mutation	SNP	ENST00000307367.2	37	CCDS14328.1	.	.	.	.	.	.	.	.	.	.	A	14.51	2.556264	0.45487	.	.	ENSG00000171365	ENST00000376088;ENST00000376091	D;D	0.89617	-2.54;-2.54	5.7	5.7	0.88788	.	.	.	.	.	D	0.82416	0.5032	.	.	.	0.80722	D	1	B	0.28291	0.206	B	0.25291	0.059	T	0.78507	-0.2177	8	0.19590	T	0.45	-23.9209	13.8096	0.63253	1.0:0.0:0.0:0.0	.	60	P51795-2	.	S	60	ENSP00000365256:N60S;ENSP00000365259:N60S	ENSP00000365256:N60S	N	+	2	0	CLCN5	49721289	1.000000	0.71417	1.000000	0.80357	0.927000	0.56198	6.184000	0.72008	1.906000	0.55180	0.412000	0.27726	AAT		0.393	CLCN5-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056544.1			G	49834549	A	G	49834549	1	3	678	0	1	0	0	0	0	0	0	0	3468	101	4	3		3	CLCN5	23	49834549	5'UTR	SNP	A	TCGA-KO-8407-01A-11D-2310-10		49834549	105436011	86	43818										
NHSL2	340527	broad.mit.edu	37	chrX	71360546	71360546	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	ccaagtgtcccgccaccggcGatgacctgcaatcacttggt	10	15	1	1			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chrX:71360546G>A	ENST00000373677.1	+	2	3312	c.2050G>A	c.(2050-2052)Gat>Aat	p.D684N	NHSL2_ENST00000510661.1_Missense_Mutation_p.D819N|NHSL2_ENST00000540800.1_Missense_Mutation_p.D1050N|NHSL2_ENST00000535692.1_Missense_Mutation_p.D684N			Q5HYW2	NHSL2_HUMAN	NHS-like 2	684										NS(1)|breast(3)|endometrium(4)|kidney(2)|large_intestine(10)|lung(7)|stomach(1)	28	Renal(35;0.156)					CGCCACCGGCGATGACCTGCA	0.552																																																0													54	49	51					X																	71360546		2203	4300	6503	SO:0001583	missense	340527					Xq13.1	2009-02-18			ENSG00000204131	ENSG00000204131			33737	protein-coding gene	gene with protein product							Standard	NM_001013627		Approved		uc011mqa.2	Q5HYW2	OTTHUMG00000021807	ENST00000373677.1:c.2050G>A	X.37:g.71360546G>A	ENSP00000362781:p.Asp684Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN94	Missense_Mutation	SNP	ENST00000373677.1	37		.	.	.	.	.	.	.	.	.	.	G	13.38	2.218648	0.39201	.	.	ENSG00000204131	ENST00000540800;ENST00000373677;ENST00000510661;ENST00000535692	T;T;T;T	0.50548	1.51;0.79;0.74;0.79	6.08	2.02	0.26589	.	0.624103	0.15395	N	0.264638	T	0.37705	0.1013	L	0.51422	1.61	0.09310	N	1	B;B;B	0.18741	0.017;0.03;0.007	B;B;B	0.09377	0.004;0.004;0.003	T	0.22906	-1.0203	10	0.30078	T	0.28	0.5596	7.9991	0.30286	0.4905:0.0:0.5095:0.0	.	1050;819;684	F5H593;D6RBM4;Q5HYW2	.;.;NHSL2_HUMAN	N	1050;684;819;684	ENSP00000444617:D1050N;ENSP00000362781:D684N;ENSP00000424079:D819N;ENSP00000444914:D684N	ENSP00000362781:D684N	D	+	1	0	NHSL2	71277271	0.000000	0.05858	0.000000	0.03702	0.012000	0.07955	0.211000	0.17474	-0.054000	0.13266	0.600000	0.82982	GAT		0.552	NHSL2-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000057170.1	NM_001013627		A	71360546	G	A	71360546	3	1	678	1	0	0	0	0	1	0	0	0	10419	1058	37	1	3170	1	NHSL2	23	71360546	Missense_Mutation	SNP	G	TCGA-KO-8407-01A-11D-2310-10	21525997	71360546	83910014	87	43819										
TMEM31	203562	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	102967204	102967204	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0465116279069767	4	1	0.978610460577674	6.42213114754098	0.276220694517892	0.485714285714286	1	0	gaaatgaggttaacagaaaaGagtgagggagaacaacaact	12	4	0	5			TCGA-KO-8407-01A-11D-2310-10	TCGA-KO-8407-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	64f696a6-58b2-40a8-b848-fd775cd52529	60f94151-bbc5-4bea-a081-b0247bdbabb3	g.chrX:102967204G>C	ENST00000319560.6	+	2	209	c.18G>C	c.(16-18)aaG>aaC	p.K6N	GLRA4_ENST00000372617.4_Intron	NM_182541.2	NP_872347.2	Q5JXX7	TMM31_HUMAN	transmembrane protein 31	6						integral component of membrane (GO:0016021)				breast(1)|endometrium(2)|kidney(1)|large_intestine(3)	7						TAACAGAAAAGAGTGAGGGAG	0.413																																																0													137	107	117					X																	102967204		2203	4300	6503	SO:0001583	missense	203562			BC029575	CCDS35359.1	Xq22.2	2008-02-05			ENSG00000179363	ENSG00000179363			28601	protein-coding gene	gene with protein product						12477932	Standard	NM_182541		Approved	MGC39655	uc004elh.3	Q5JXX7	OTTHUMG00000022109	ENST00000319560.6:c.18G>C	X.37:g.102967204G>C	ENSP00000316940:p.Lys6Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHR4	Missense_Mutation	SNP	ENST00000319560.6	37	CCDS35359.1	.	.	.	.	.	.	.	.	.	.	g	6.426	0.446660	0.12223	.	.	ENSG00000179363	ENST00000319560	.	.	.	4.13	1.22	0.21188	.	0.454099	0.16291	N	0.220916	T	0.18341	0.0440	N	0.08118	0	0.09310	N	1	B	0.23735	0.09	B	0.27262	0.078	T	0.20840	-1.0263	9	0.87932	D	0	0.0061	6.6205	0.22800	0.0:0.3729:0.4321:0.195	.	6	Q5JXX7	TMM31_HUMAN	N	6	.	ENSP00000316940:K6N	K	+	3	2	TMEM31	102853860	0.013000	0.17824	0.065000	0.19835	0.467000	0.32768	0.461000	0.21940	0.128000	0.18479	0.525000	0.51046	AAG		0.413	TMEM31-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057741.1	NM_182541		C	102967204	G	C	102967204	3	2	678	1	0	0	0	0	1	0	0	0	16167	933	33	4	20	4	TMEM31	23	102967204	Missense_Mutation	SNP	G	TCGA-KO-8407-01A-11D-2310-10	31606658	102967204	52303356	88	43820										
SKI	6497	bcgsc.ca	37	chr1	2235304	2235304	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	actcctacaagagctttgagAcagccgtggcgcccaacgtg	11	13	0	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr1:2235304A>G	ENST00000378536.4	+	4	1309	c.1237A>G	c.(1237-1239)Aca>Gca	p.T413A		NM_003036.3	NP_003027.1	P12755	SKI_HUMAN	SKI proto-oncogene	413					anterior/posterior axis specification (GO:0009948)|BMP signaling pathway (GO:0030509)|bone morphogenesis (GO:0060349)|camera-type eye development (GO:0043010)|camera-type eye morphogenesis (GO:0048593)|cell motility (GO:0048870)|cell proliferation (GO:0008283)|embryonic limb morphogenesis (GO:0030326)|face morphogenesis (GO:0060325)|gene expression (GO:0010467)|lens morphogenesis in camera-type eye (GO:0002089)|myelination in peripheral nervous system (GO:0022011)|myotube differentiation (GO:0014902)|negative regulation of activin receptor signaling pathway (GO:0032926)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of cell proliferation (GO:0008285)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of Schwann cell proliferation (GO:0010626)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neural tube closure (GO:0001843)|nose morphogenesis (GO:0043585)|olfactory bulb development (GO:0021772)|palate development (GO:0060021)|positive regulation of DNA binding (GO:0043388)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of Wnt signaling pathway (GO:0030177)|protein homotrimerization (GO:0070207)|regulation of apoptotic process (GO:0042981)|retina development in camera-type eye (GO:0060041)|skeletal muscle fiber development (GO:0048741)|SMAD protein signal transduction (GO:0060395)|somatic stem cell maintenance (GO:0035019)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|transcription factor complex (GO:0005667)|transcriptional repressor complex (GO:0017053)	chromatin binding (GO:0003682)|histone deacetylase inhibitor activity (GO:0046811)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)|repressing transcription factor binding (GO:0070491)|SMAD binding (GO:0046332)|transcription corepressor activity (GO:0003714)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)			central_nervous_system(1)|kidney(2)|lung(5)|prostate(1)|stomach(1)	10	all_cancers(77;0.000139)|all_epithelial(69;4.45e-05)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)			Epithelial(90;2.14e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.72e-29)|GBM - Glioblastoma multiforme(42;2.45e-08)|Colorectal(212;5.33e-05)|COAD - Colon adenocarcinoma(227;0.000228)|Kidney(185;0.00268)|BRCA - Breast invasive adenocarcinoma(365;0.00471)|STAD - Stomach adenocarcinoma(132;0.0147)|KIRC - Kidney renal clear cell carcinoma(229;0.0385)|Lung(427;0.207)		GAGCTTTGAGACAGCCGTGGC	0.692																																					Ovarian(177;144 1678 13697 20086 27838 40755)											0													13	17	16					1																	2235304		2148	4218	6366	SO:0001583	missense	6497			X15218	CCDS39.1	1p36.33	2014-06-25	2014-06-25		ENSG00000157933	ENSG00000157933		"SKI transcriptional corepressors"	10896	protein-coding gene	gene with protein product		164780	"v-ski avian sarcoma viral oncogene homolog"			2762147	Standard	NM_003036		Approved		uc001aja.4	P12755	OTTHUMG00000001407	ENST00000378536.4:c.1237A>G	1.37:g.2235304A>G	ENSP00000367797:p.Thr413Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SYT7	Missense_Mutation	SNP	ENST00000378536.4	37	CCDS39.1	.	.	.	.	.	.	.	.	.	.	A	13.87	2.366241	0.41902	.	.	ENSG00000157933	ENST00000378536	D	0.95588	-3.75	4.61	3.48	0.39840	.	0.353173	0.31041	N	0.008379	D	0.90515	0.7028	L	0.34521	1.04	0.21740	N	0.999561	B	0.06786	0.001	B	0.04013	0.001	T	0.80322	-0.1431	10	0.33141	T	0.24	-4.0181	9.436	0.38639	0.9147:0.0:0.0853:0.0	.	413	P12755	SKI_HUMAN	A	413	ENSP00000367797:T413A	ENSP00000367797:T413A	T	+	1	0	SKI	2225164	1.000000	0.71417	0.944000	0.38274	0.918000	0.54935	4.734000	0.62043	0.728000	0.32382	0.459000	0.35465	ACA		0.692	SKI-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004070.1	NM_003036		G	2235304	A	G	2235304	3	3	679	1	0	0	0	0	1	0	0	0	14370	275	10	3	1251	3	SKI	1	2235304	Missense_Mutation	SNP	A	TCGA-KO-8408-01A-11D-2310-10		2235304	247015317	1	43821										
PRDM16	63976	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	3328864	3328864	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gccatcgcatccattgccgaGaagtactttggccccggctt	10	14	0	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr1:3328864G>C	ENST00000270722.5	+	9	2152	c.2103G>C	c.(2101-2103)gaG>gaC	p.E701D	PRDM16_ENST00000378391.2_Missense_Mutation_p.E701D|PRDM16_ENST00000442529.2_Missense_Mutation_p.E701D|PRDM16_ENST00000514189.1_Missense_Mutation_p.E702D|PRDM16_ENST00000378398.3_Missense_Mutation_p.E702D|PRDM16_ENST00000441472.2_Missense_Mutation_p.E701D|PRDM16_ENST00000511072.1_Missense_Mutation_p.E702D|PRDM16_ENST00000512462.1_3'UTR			Q9HAZ2	PRD16_HUMAN	PR domain containing 16	701	Interaction with CTBP1 and CTBP2. {ECO:0000250}.				brown fat cell differentiation (GO:0050873)|negative regulation of granulocyte differentiation (GO:0030853)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neurogenesis (GO:0022008)|palate development (GO:0060021)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cellular respiration (GO:0043457)|somatic stem cell maintenance (GO:0035019)|tongue development (GO:0043586)|transcription, DNA-templated (GO:0006351)|white fat cell differentiation (GO:0050872)	nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)|transcription coactivator activity (GO:0003713)			breast(4)|central_nervous_system(1)|endometrium(5)|kidney(4)|large_intestine(7)|lung(22)|ovary(2)|pancreas(1)|prostate(2)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(3)	59	all_cancers(77;0.00208)|all_epithelial(69;0.000732)|Ovarian(185;0.0634)|Lung NSC(156;0.109)|all_lung(157;0.111)	all_epithelial(116;2.03e-21)|all_lung(118;7.55e-09)|Lung NSC(185;1.28e-06)|Breast(487;0.000792)|Renal(390;0.00137)|Hepatocellular(190;0.00515)|Myeloproliferative disorder(586;0.0267)|Ovarian(437;0.0365)|Lung SC(97;0.114)|Medulloblastoma(700;0.134)		Epithelial(90;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.99e-20)|GBM - Glioblastoma multiforme(42;3.72e-11)|Colorectal(212;0.000425)|BRCA - Breast invasive adenocarcinoma(365;0.000946)|COAD - Colon adenocarcinoma(227;0.000968)|Kidney(185;0.00155)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0175)|Lung(427;0.137)		CCATTGCCGAGAAGTACTTTG	0.627			T	EVI1	"MDS, AML"																																		Dom	yes		1	1p36.23-p33	63976	PR domain containing 16		L	0													63	77	73					1																	3328864		2059	4188	6247	SO:0001583	missense	63976			AF294278	CCDS41236.1, CCDS44048.1, CCDS41236.2, CCDS44048.2	1p36.23-p33	2013-01-08			ENSG00000142611	ENSG00000142611		"Zinc fingers, C2H2-type"	14000	protein-coding gene	gene with protein product	"MDS1/EVI1-like", "PR-domain zinc finger protein 16", "transcription factor MEL1"	605557				11050005	Standard	NM_199454		Approved	MEL1, PFM13, KIAA1675, MGC166915	uc001akf.3	Q9HAZ2	OTTHUMG00000000581	ENST00000270722.5:c.2103G>C	1.37:g.3328864G>C	ENSP00000270722:p.Glu701Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHQ8|B1AJP7|B1AJP8|B1AJP9|B1WB48|Q8WYJ9|Q9C0I8	Missense_Mutation	SNP	ENST00000270722.5	37	CCDS41236.2	.	.	.	.	.	.	.	.	.	.	G	17.26	3.344267	0.61073	.	.	ENSG00000142611	ENST00000511072;ENST00000378398;ENST00000441472;ENST00000442529;ENST00000378391;ENST00000514189;ENST00000270722;ENST00000512462;ENST00000408992;ENST00000509860	T;T;T;T;T;T;T;T;T	0.08896	3.06;3.07;3.08;3.07;3.06;3.1;3.08;3.04;3.04	4.94	4.02	0.46733	.	0.000000	0.51477	U	0.000094	T	0.25121	0.0610	M	0.65975	2.015	0.48341	D	0.999638	D;D;D;D	0.76494	0.997;0.999;0.999;0.998	D;D;D;D	0.79784	0.978;0.993;0.974;0.984	T	0.00875	-1.1531	10	0.40728	T	0.16	.	13.4634	0.61239	0.0765:0.0:0.9235:0.0	.	701;701;701;701	Q9HAZ2;Q9HAZ2-2;F8WEV3;D3YTA5	PRD16_HUMAN;.;.;.	D	702;702;701;701;701;702;701;517;517;510	ENSP00000426975:E702D;ENSP00000367651:E702D;ENSP00000407968:E701D;ENSP00000405253:E701D;ENSP00000367643:E701D;ENSP00000421400:E702D;ENSP00000270722:E701D;ENSP00000422504:E517D;ENSP00000425796:E510D	ENSP00000270722:E701D	E	+	3	2	PRDM16	3318724	1.000000	0.71417	0.999000	0.59377	0.901000	0.52897	2.613000	0.46351	1.214000	0.43395	0.590000	0.80494	GAG		0.627	PRDM16-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000001382.3	NM_022114		C	3328864	G	C	3328864	3	2	679	1	0	0	0	0	1	0	0	0	12467	933	33	4	2137	4	PRDM16	1	3328864	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	1093560	3328864	245921757	2	43822										
UBXN11	91544	mdanderson.org	37	chr1	26608852	26608852	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gggaccgggaccgggactggGgccgggaccgggaccgggac	22	12	0	0	rs61775089		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr1:26608852G>A	ENST00000374222.1	-	16	1965	c.1501C>T	c.(1501-1503)Ccc>Tcc	p.P501S	UBXN11_ENST00000357089.4_Missense_Mutation_p.P468S|UBXN11_ENST00000374217.2_Missense_Mutation_p.P468S|UBXN11_ENST00000314675.7_Missense_Mutation_p.P381S|UBXN11_ENST00000374223.1_Missense_Mutation_p.P258S|UBXN11_ENST00000374221.3_Missense_Mutation_p.P501S			Q5T124	UBX11_HUMAN	UBX domain protein 11	501	3 X 8 AA tandem repeats of P-G-P-G-P-G-P- S.|Pro-rich.		Missing.|P -> S (in dbSNP:rs17838088).			cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)		p.G490_P515delGPGPSPGPGPGPSPGPGPGPSPCPGP(1)		endometrium(3)|kidney(2)|large_intestine(4)|lung(6)|ovary(2)|prostate(3)|upper_aerodigestive_tract(3)	23						ccgggactggggccgggaccg	0.731																																																1	Deletion - In frame(1)	ovary(1)											20	23	22					1																	26608852		1699	3915	5614	SO:0001583	missense	91544			AF521017	CCDS41286.1, CCDS41287.1, CCDS41288.1	1p36.11	2008-07-25	2008-07-25	2008-07-25	ENSG00000158062	ENSG00000158062		"UBX domain containing"	30600	protein-coding gene	gene with protein product	"socius"	609151	"UBX domain containing 5"	UBXD5		11940653	Standard	NM_183008		Approved	SOC, SOCI	uc001blw.3	Q5T124	OTTHUMG00000003382	ENST00000374222.1:c.1501C>T	1.37:g.26608852G>A	ENSP00000363339:p.Pro501Ser	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPK6|Q5T117|Q5T120|Q5T125|Q5T126|Q5T129|Q5T131|Q5T133|Q63HM6|Q71RB3|Q8IY27|Q8N1L6|Q8N9M4|Q8NA18|Q8NFE3|Q8NFE4|Q8NFE6	Missense_Mutation	SNP	ENST00000374222.1	37	CCDS41288.1	600	0.27472527472527475	141	0.2865853658536585	101	0.27900552486187846	95	0.1660839160839161	263	0.3469656992084433	-	8.946	0.967087	0.18659	.	.	ENSG00000158062	ENST00000314675;ENST00000374223;ENST00000357089;ENST00000374221;ENST00000374222;ENST00000374217	T;T;T;T;T;T	0.26957	1.8;1.7;2.08;2.12;2.12;2.08	.	.	.	.	.	.	.	.	T	0.00012	0.0000	N	0.08118	0	0.58432	P	4.000000000004E-6	.	.	.	.	.	.	T	0.44003	-0.9356	4	0.02654	T	1	.	.	.	.	rs61775089	468;463;381;501	Q5T124-2;Q5T124-4;Q5T124-3;Q5T124	.;.;.;UBX11_HUMAN	S	381;258;468;501;501;468	ENSP00000324721:P381S;ENSP00000363340:P258S;ENSP00000349601:P468S;ENSP00000363338:P501S;ENSP00000363339:P501S;ENSP00000363334:P468S	ENSP00000324721:P381S	P	-	1	0	UBXN11	26481439	0.000000	0.05858	0.166000	0.22797	0.173000	0.22820	-0.536000	0.06135	0.000000	0.14550	0.000000	0.15137	CCC		0.731	UBXN11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000009500.1	NM_145345		A	26608852	G	A	26608852	3	1	679	1	0	0	0	0	1	0	0	0	16925	1232	43	2	65	2	UBXN11	1	26608852	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	23279988	26608852	222641769	3	43823										
PLEKHA6	22874	broad.mit.edu	37	chr1	204226633	204226633	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ggagccctggctgggtgagcGgggcacagagtgggagcggg	23	8	0	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr1:204226633G>A	ENST00000272203.3	-	9	1688	c.1372C>T	c.(1372-1374)Cgc>Tgc	p.R458C	PLEKHA6_ENST00000414478.1_Missense_Mutation_p.R478C	NM_014935.4	NP_055750.2	Q9Y2H5	PKHA6_HUMAN	pleckstrin homology domain containing, family A member 6	458										breast(2)|endometrium(6)|kidney(1)|large_intestine(9)|lung(21)|ovary(3)|pancreas(1)|prostate(3)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	53	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			CTGGGTGAGCGGGGCACAGAG	0.667																																																0													20	19	19					1																	204226633		2186	4294	6480	SO:0001583	missense	22874			AB023186	CCDS1444.1	1q32	2013-01-10			ENSG00000143850	ENSG00000143850		"Pleckstrin homology (PH) domain containing"	17053	protein-coding gene	gene with protein product		607771				11001876	Standard	NM_014935		Approved	PEPP3, KIAA0969	uc001hau.4	Q9Y2H5	OTTHUMG00000036057	ENST00000272203.3:c.1372C>T	1.37:g.204226633G>A	ENSP00000272203:p.Arg458Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A7MD51|Q5VTI6	Missense_Mutation	SNP	ENST00000272203.3	37	CCDS1444.1	.	.	.	.	.	.	.	.	.	.	G	22.6	4.307563	0.81247	.	.	ENSG00000143850	ENST00000272203;ENST00000414478	T;T	0.11495	2.77;3.23	5.4	5.4	0.78164	.	0.051985	0.85682	D	0.000000	T	0.32133	0.0819	L	0.57536	1.79	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.83275	0.996;0.988	T	0.00675	-1.1615	10	0.59425	D	0.04	-26.4644	19.1454	0.93463	0.0:0.0:1.0:0.0	.	478;458	Q5VTI5;Q9Y2H5	.;PKHA6_HUMAN	C	458;478	ENSP00000272203:R458C;ENSP00000402046:R478C	ENSP00000272203:R458C	R	-	1	0	PLEKHA6	202493256	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	6.369000	0.73109	2.688000	0.91661	0.655000	0.94253	CGC		0.667	PLEKHA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087889.3	NM_014935		A	204226633	G	A	204226633	3	1	679	1	0	0	0	0	1	0	0	0	12067	1116	39	1	1830	1	PLEKHA6	1	204226633	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	177617781	204226633	45023988	4	43824										
PROX1	5629	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr1	214171243	214171243	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gaccagtctgcctccggcccTgccgctggcggccaccacca	11	20	1	0			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr1:214171243T>A	ENST00000366958.4	+	2	1973	c.1365T>A	c.(1363-1365)ccT>ccA	p.P455P	PROX1_ENST00000435016.1_Silent_p.P455P|PROX1_ENST00000498508.2_Silent_p.P455P|PROX1_ENST00000261454.4_Silent_p.P455P	NM_001270616.1	NP_001257545.1	Q92786	PROX1_HUMAN	prospero homeobox 1	455				PAA -> LV (in Ref. 1; AAC50656). {ECO:0000305}.	aorta smooth muscle tissue morphogenesis (GO:0060414)|atrial cardiac muscle tissue morphogenesis (GO:0055009)|brain development (GO:0007420)|cell fate determination (GO:0001709)|cerebellar granule cell differentiation (GO:0021707)|dentate gyrus development (GO:0021542)|dorsal spinal cord development (GO:0021516)|embryonic retina morphogenesis in camera-type eye (GO:0060059)|endocardium formation (GO:0060214)|hepatocyte cell migration (GO:0002194)|hepatocyte differentiation (GO:0070365)|hepatocyte proliferation (GO:0072574)|kidney development (GO:0001822)|lens development in camera-type eye (GO:0002088)|lens fiber cell morphogenesis (GO:0070309)|liver development (GO:0001889)|lung development (GO:0030324)|lymphangiogenesis (GO:0001946)|lymphatic endothelial cell differentiation (GO:0060836)|negative regulation of bile acid biosynthetic process (GO:0070858)|negative regulation of cell proliferation (GO:0008285)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of viral genome replication (GO:0045071)|neural tube development (GO:0021915)|neuronal stem cell maintenance (GO:0097150)|olfactory placode formation (GO:0030910)|optic placode formation involved in camera-type eye formation (GO:0046619)|otic placode formation (GO:0043049)|pancreas development (GO:0031016)|positive regulation of cell cycle (GO:0045787)|positive regulation of cell cycle checkpoint (GO:1901978)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045737)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of forebrain neuron differentiation (GO:2000979)|positive regulation of heart growth (GO:0060421)|positive regulation of neural precursor cell proliferation (GO:2000179)|positive regulation of sarcomere organization (GO:0060298)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of circadian rhythm (GO:0042752)|regulation of gene expression (GO:0010468)|regulation of transcription involved in lymphatic endothelial cell fate commitment (GO:0060849)|response to nutrient levels (GO:0031667)|retina morphogenesis in camera-type eye (GO:0060042)|skeletal muscle thin filament assembly (GO:0030240)|venous blood vessel morphogenesis (GO:0048845)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)|ventricular cardiac myofibril assembly (GO:0055005)|ventricular septum morphogenesis (GO:0060412)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	core promoter sequence-specific DNA binding (GO:0001046)|DBD domain binding (GO:0050692)|DNA binding (GO:0003677)|LBD domain binding (GO:0050693)|ligand-dependent nuclear receptor binding (GO:0016922)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)|transcription regulatory region DNA binding (GO:0044212)			autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(6)|lung(15)|ovary(3)|prostate(2)|skin(4)	47				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		CCTCCGGCCCTGCCGCTGGCG	0.637																																																0													61	74	69					1																	214171243		2203	4300	6503	SO:0001819	synonymous_variant	5629			U44060	CCDS31021.1	1q41	2011-06-20	2007-06-01		ENSG00000117707	ENSG00000117707		"Homeoboxes / PROS class"	9459	protein-coding gene	gene with protein product		601546	"prospero-related homeobox 1"			8812486	Standard	NM_002763		Approved		uc001hkg.2	Q92786	OTTHUMG00000036946	ENST00000366958.4:c.1365T>A	1.37:g.214171243T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NK29|A8K2B1|Q5SW76|Q8TB91	Silent	SNP	ENST00000366958.4	37	CCDS31021.1																																																																																				0.637	PROX1-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089727.6	NM_002763		A	214171243	T	A	214171243	2	1	679	1	0	0	0	0	0	0	0	1	12570	1567	55	5		5	PROX1	1	214171243	Silent	SNP	T	TCGA-KO-8408-01A-11D-2310-10	9944610	214171243	35079378	5	43825										
SH2D6	284948	broad.mit.edu	37	chr2	85662144	85662144	+	Frame_Shift_Del	DEL	A	A	-													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	agccacctttgcccacccccAccccaccccaccccacccca							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr2:85662144delA	ENST00000340326.2	+	1	227	c.66delA	c.(64-66)ccafs	p.P23fs	SH2D6_ENST00000389938.2_Intron|Y_RNA_ENST00000384478.1_RNA|SH2D6_ENST00000481426.2_Intron	NM_198482.1	NP_940884.1	Q7Z4S9	SH2D6_HUMAN	SH2 domain containing 6	23	Pro-rich.									central_nervous_system(1)|lung(2)	3						Gcccacccccaccccacccca	0.637																																																0													2	3	3					2																	85662144		1587	3412	4999	SO:0001589	frameshift_variant	284948			AF450483	CCDS1976.1	2p11.2	2013-02-14			ENSG00000152292	ENSG00000152292		"SH2 domain containing"	30439	protein-coding gene	gene with protein product						12477932	Standard	NM_198482		Approved	FLJ35993	uc002spq.3	Q7Z4S9	OTTHUMG00000130176	ENST00000340326.2:c.66delA	2.37:g.85662144delA	ENSP00000341867:p.Pro23fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6ND14|Q6R306	Frame_Shift_Del	DEL	ENST00000340326.2	37	CCDS1976.1																																																																																				0.637	SH2D6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252493.2	NM_198482		-	85662144	A	-	85662144	7	5	679	1	0	1	0	1	0	0	0	0	14251	146	6	0	68	0	SH2D6	2	85662144	Frame_Shift_Del	DEL	A	TCGA-KO-8408-01A-11D-2310-10		85662144	157537229	6	43826										
RGPD2	729857	broad.mit.edu	37	chr2	88125234	88125234	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	aggtaccgctccccgtaggcTttgctgcgcctcatcgcacc	10	17	1	0	rs550032815	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr2:88125234T>C	ENST00000398146.3	-	1	237	c.15A>G	c.(13-15)aaA>aaG	p.K5K	RGPD2_ENST00000420840.2_Intron|RGPD2_ENST00000327544.6_5'UTR			P0DJD1	RGPD2_HUMAN	RANBP2-like and GRIP domain containing 2	5					protein targeting to Golgi (GO:0000042)					breast(1)|pancreas(1)	2						CCCCGTAGGCTTTGCTGCGCC	0.667													.|||	4	0.000798722	0.0	0.0	5008	,	,		10105	0.0		0.002	False		,,,				2504	0.002															0													36	56	50					2																	88125234		692	1591	2283	SO:0001819	synonymous_variant	729857				CCDS42710.1, CCDS42710.2	2p11.2	2013-01-10			ENSG00000185304	ENSG00000185304		"Tetratricopeptide (TTC) repeat domain containing"	32415	protein-coding gene	gene with protein product		612705				15710750, 15815621	Standard	NM_001078170		Approved	RGP2, RANBP2L2		P0DJD1	OTTHUMG00000153276	ENST00000398146.3:c.15A>G	2.37:g.88125234T>C		Somatic		WXS	Illumina HiSeq	Phase_I	P0C839|Q68DN6|Q6V1X0	Silent	SNP	ENST00000398146.3	37	CCDS42710.2																																																																																				0.667	RGPD2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000330534.2	NM_001078170		C	88125234	T	C	88125234	2	2	679	1	0	0	0	0	0	0	0	1	13299	1606	56	3		3	RGPD2	2	88125234	Silent	SNP	T	TCGA-KO-8408-01A-11D-2310-10	2463090	88125234	155074139	7	43827										
TEKT4	150483	mdanderson.org	37	chr2	95537622	95537622	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	agcgactgcaggacacgcacAgctggaagtcggagctgcag	15	11	0	0	rs11164112	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr2:95537622A>G	ENST00000295201.4	+	1	435	c.298A>G	c.(298-300)Agc>Ggc	p.S100G	TEKT4_ENST00000427593.2_Missense_Mutation_p.S100G|AC097374.2_ENST00000568768.1_RNA	NM_144705.2	NP_653306.1	Q8WW24	TEKT4_HUMAN	tektin 4	100			S -> G (in dbSNP:rs11164112).		cell projection organization (GO:0030030)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|motile cilium (GO:0031514)|nucleus (GO:0005634)				NS(1)|breast(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(15)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	28						GGACACGCACAGCTGGAAGTC	0.687													.|||	2141	0.427516	0.5166	0.4467	5008	,	,		17318	0.4881		0.3419	False		,,,				2504	0.319															0								G	GLY/SER	2150,2232		542,1066,583	15	14	15		298	-0.6	0.3	2	dbSNP_120	15	3138,5444		576,1986,1729	no	missense	TEKT4	NM_144705.2	56	1118,3052,2312	GG,GA,AA		36.5649,49.0644,40.7899	benign	100/436	95537622	5288,7676	2191	4291	6482	SO:0001583	missense	150483			AK097438	CCDS2005.1	2q11.2	2008-02-05			ENSG00000163060	ENSG00000163060			31012	protein-coding gene	gene with protein product							Standard	XM_005263876		Approved	MGC27019	uc002stw.1	Q8WW24	OTTHUMG00000130396	ENST00000295201.4:c.298A>G	2.37:g.95537622A>G	ENSP00000295201:p.Ser100Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000295201.4	37	CCDS2005.1	891	0.40796703296703296	246	0.5	139	0.3839779005524862	261	0.4562937062937063	245	0.3232189973614776	.	0.056	-1.235674	0.01505	0.490644	0.365649	ENSG00000163060	ENST00000295201;ENST00000427593	T;T	0.02579	4.24;4.24	1.97	-0.615	0.11587	.	0.633849	0.15549	N	0.256532	T	0.00012	0.0000	N	0.01048	-1.04	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.17776	-1.0358	9	0.27082	T	0.32	-5.0599	3.6684	0.08265	0.1555:0.0:0.2897:0.5547	rs11164112	100	Q8WW24	TEKT4_HUMAN	G	100	ENSP00000295201:S100G;ENSP00000407596:S100G	ENSP00000295201:S100G	S	+	1	0	TEKT4	94901349	0.608000	0.26966	0.328000	0.25416	0.040000	0.13550	0.388000	0.20735	-0.228000	0.09869	-1.144000	0.01866	AGC		0.687	TEKT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252777.1	NM_144705		G	95537622	A	G	95537622	3	3	679	1	0	0	0	0	1	0	0	0	15767	188	7	3	300	3	TEKT4	2	95537622	Missense_Mutation	SNP	A	TCGA-KO-8408-01A-11D-2310-10	7412388	95537622	147661751	8	43828										
ZAK	51776	broad.mit.edu	37	chr2	174074493	174074493	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	agcaaatcatttcaatcctgGagtccatgtcaaatgacacg	7	10	3	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr2:174074493G>A	ENST00000375213.3	+	10	859	c.781G>A	c.(781-783)Gag>Aag	p.E261K	MLTK_ENST00000539448.1_Missense_Mutation_p.E261K|MLTK_ENST00000431503.2_Missense_Mutation_p.E160K|MLK7-AS1_ENST00000419609.1_RNA|MLK7-AS1_ENST00000422703.1_RNA|MLK7-AS1_ENST00000423106.2_RNA|MLTK_ENST00000338983.3_Missense_Mutation_p.E261K|MLTK_ENST00000409176.2_Missense_Mutation_p.E261K	NM_016653.2	NP_057737.2	Q9NYL2	MLTK_HUMAN		261	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of JUN kinase activity (GO:0007257)|activation of MAPKK activity (GO:0000186)|cell cycle arrest (GO:0007050)|cell cycle checkpoint (GO:0000075)|cell death (GO:0008219)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cytoskeleton organization (GO:0007010)|DNA damage checkpoint (GO:0000077)|intracellular signal transduction (GO:0035556)|positive regulation of apoptotic process (GO:0043065)|protein phosphorylation (GO:0006468)|response to radiation (GO:0009314)|response to stress (GO:0006950)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|MAP kinase kinase kinase activity (GO:0004709)|poly(A) RNA binding (GO:0044822)|protein serine/threonine kinase activity (GO:0004674)										TTCAATCCTGGAGTCCATGTC	0.453																																																0													113	102	106					2																	174074493		2203	4300	6503	SO:0001583	missense	0																														ENST00000375213.3:c.781G>A	2.37:g.174074493G>A	ENSP00000364361:p.Glu261Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPG2|Q53SX1|Q580W8|Q59GY5|Q86YW8|Q9HCC4|Q9HCC5|Q9HDD2|Q9NYE9	Missense_Mutation	SNP	ENST00000375213.3	37	CCDS42777.1	.	.	.	.	.	.	.	.	.	.	G	35	5.439907	0.96168	.	.	ENSG00000091436	ENST00000539448;ENST00000409176;ENST00000338983;ENST00000431503;ENST00000375213	T;T;T;T;T	0.80566	-0.94;-0.99;-0.94;-1.39;-0.99	5.97	5.97	0.96955	Protein kinase, catalytic domain (1);	0.043215	0.85682	D	0.000000	T	0.80232	0.4585	L	0.31926	0.97	0.80722	D	1	P;P;P;P;P	0.49559	0.877;0.925;0.9;0.877;0.787	B;P;B;B;B	0.49597	0.411;0.616;0.425;0.411;0.359	T	0.76561	-0.2914	10	0.29301	T	0.29	.	20.4135	0.99023	0.0:0.0:1.0:0.0	.	261;261;261;261;261	A8K710;Q9NYL2-2;Q9NYL2;D4Q8H0;Q9NYL2-3	.;.;MLTK_HUMAN;.;.	K	261;261;261;160;261	ENSP00000439414:E261K;ENSP00000387259:E261K;ENSP00000340257:E261K;ENSP00000399787:E160K;ENSP00000364361:E261K	ENSP00000340257:E261K	E	+	1	0	AC013461.1	173782739	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.827000	0.86722	2.835000	0.97688	0.591000	0.81541	GAG		0.453	MLTK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255401.1			A	174074493	G	A	174074493	3	1	679	1	0	0	0	0	1	0	0	0	17524	1175	41	2	815	2	ZAK	2	174074493	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	78536871	174074493	69124880	9	43829										
ALS2CL	259173	broad.mit.edu	37	chr3	46728540	46728541	+	Frame_Shift_Ins	INS	-	-	G													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cacgtgatgggcgagtggctINSggtggagggcctggcccagc							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr3:46728540_46728541insG	ENST00000318962.4	-	5	549_550	c.466_467insC	c.(466-468)cagfs	p.Q156fs	ALS2CL_ENST00000415953.1_Frame_Shift_Ins_p.Q156fs	NM_147129.3	NP_667340.2	Q60I27	AL2CL_HUMAN	ALS2 C-terminal like	156					endosome organization (GO:0007032)|protein localization (GO:0008104)	cytoplasmic membrane-bounded vesicle (GO:0016023)	GTPase activator activity (GO:0005096)|identical protein binding (GO:0042802)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(1)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|liver(1)|lung(7)|skin(3)|stomach(2)	29				BRCA - Breast invasive adenocarcinoma(193;0.000726)|KIRC - Kidney renal clear cell carcinoma(197;0.0171)|Kidney(197;0.0202)		GGCGAGTGGCTGGTGGAGGGCC	0.678																																																0																																										SO:0001589	frameshift_variant	259173			AK074118	CCDS2743.1, CCDS43080.1	3p21.31	2008-01-30			ENSG00000178038	ENSG00000178038			20605	protein-coding gene	gene with protein product		612402				15388334, 8889548, 17239822	Standard	NM_147129		Approved	FLJ36525, RN49018, DKFZp686I0110	uc003cqb.2	Q60I27	OTTHUMG00000128673	ENST00000318962.4:c.467dupC	3.37:g.46728542_46728542dupG	ENSP00000313670:p.Gln156fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q32MA1|Q6AI56|Q6ZNC5|Q6ZNC7|Q6ZTL4|Q86YD2|Q8N9U1|Q8NAL7	Frame_Shift_Ins	INS	ENST00000318962.4	37	CCDS2743.1																																																																																				0.678	ALS2CL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250567.3	NM_147129		G	46728541	-	G	46728540	7	5	679	1	0	1	1	0	0	0	0	0	551	1580	55	0	2482	0	ALS2CL	3	46728540	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10		46728540	151293890	10	43830										
CELSR3	1951	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr3	48694702	48694702	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cacatgttctcaaggcgcacGgtcaggctgttggccagcaa	12	12	2	0			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr3:48694702G>A	ENST00000164024.4	-	2	4108	c.3828C>T	c.(3826-3828)acC>acT	p.T1276T	CELSR3_ENST00000544264.1_Silent_p.T1276T	NM_001407.2	NP_001398.2	Q9NYQ7	CELR3_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 3	1276					axonal fasciculation (GO:0007413)|cilium assembly (GO:0042384)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|regulation of protein localization (GO:0032880)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(1)|biliary_tract(1)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(23)|ovary(9)|prostate(6)|skin(7)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(5)	83				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CAAGGCGCACGGTCAGGCTGT	0.682																																																0													34	30	31					3																	48694702		2201	4299	6500	SO:0001819	synonymous_variant	1951			AF231023	CCDS2775.1	3p21.31	2014-08-08	2013-02-18		ENSG00000008300	ENSG00000008300		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	3230	protein-coding gene	gene with protein product	"flamingo homolog 1 (Drosophila)"	604264	"cadherin EGF LAG seven-pass G-type receptor 3, flamingo (Drosophila) homolog"	EGFL1		9693030	Standard	NM_001407		Approved	MEGF2, HFMI1, FMI1, CDHF11	uc003cuf.1	Q9NYQ7	OTTHUMG00000133544	ENST00000164024.4:c.3828C>T	3.37:g.48694702G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O75092	Silent	SNP	ENST00000164024.4	37	CCDS2775.1																																																																																				0.682	CELSR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257523.1	NM_001407		A	48694702	G	A	48694702	2	1	679	1	0	0	0	0	0	0	0	1	3225	1103	39	1		1	CELSR3	3	48694702	Silent	SNP	G	TCGA-KO-8408-01A-11D-2310-10	1966162	48694702	149327728	11	43831										
WDR6	11180	broad.mit.edu	37	chr3	49049218	49049218	+	Frame_Shift_Del	DEL	T	T	-													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ccttgacttggaggccatggTggctgtgtttggaagcaagg							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr3:49049218delT	ENST00000608424.1	+	2	290	c.251delT	c.(250-252)gtgfs	p.V84fs	WDR6_ENST00000395474.3_Frame_Shift_Del_p.V114fs|WDR6_ENST00000415265.2_Intron|WDR6_ENST00000448293.1_Frame_Shift_Del_p.V33fs|WDR6_ENST00000489684.1_Intron			Q9NNW5	WDR6_HUMAN	WD repeat domain 6	84					cell cycle arrest (GO:0007050)|negative regulation of autophagy (GO:0010507)|negative regulation of cell proliferation (GO:0008285)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	poly(A) RNA binding (GO:0044822)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|large_intestine(1)|liver(1)|lung(9)|ovary(1)|prostate(2)|skin(1)|soft_tissue(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	26				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		GAGGCCATGGTGGCTGTGTTT	0.552																																																0													165	166	166					3																	49049218		2203	4300	6503	SO:0001589	frameshift_variant	11180			AF099100	CCDS2782.2	3p21.31	2013-01-09			ENSG00000178252	ENSG00000178252		"WD repeat domain containing"	12758	protein-coding gene	gene with protein product		606031					Standard	NM_018031		Approved		uc003cvj.2	Q9NNW5	OTTHUMG00000133546	ENST00000608424.1:c.251delT	3.37:g.49049218delT	ENSP00000477389:p.Val84fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DHK2|Q3MIT1|Q9UF63	Frame_Shift_Del	DEL	ENST00000608424.1	37																																																																																					0.552	WDR6-024	NOVEL	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000471652.1			-	49049218	T	-	49049218	7	5	679	1	0	1	0	1	0	0	0	0	17322	1696	59	0	347	0	WDR6	3	49049218	Frame_Shift_Del	DEL	T	TCGA-KO-8408-01A-11D-2310-10	354516	49049218	148973212	12	43832										
CBLB	868	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	105464866	105464866	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ctaagaaattccaattccgcAaaatagagccccaaggctaa	6	11	0	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr3:105464866A>C	ENST00000264122.4	-	6	1061	c.740T>G	c.(739-741)tTg>tGg	p.L247W	CBLB_ENST00000405772.1_Missense_Mutation_p.L247W|CBLB_ENST00000545639.1_3'UTR|CBLB_ENST00000403724.1_Missense_Mutation_p.L247W|CBLB_ENST00000394027.3_Missense_Mutation_p.L269W	NM_170662.3	NP_733762.2	Q13191	CBLB_HUMAN	Cbl proto-oncogene B, E3 ubiquitin protein ligase	247	Cbl-PTB. {ECO:0000255|PROSITE- ProRule:PRU00839}.|SH2-like.				cell surface receptor signaling pathway (GO:0007166)|immune response (GO:0006955)|intracellular signal transduction (GO:0035556)|negative regulation of alpha-beta T cell proliferation (GO:0046642)|negative regulation of T cell receptor signaling pathway (GO:0050860)|NLS-bearing protein import into nucleus (GO:0006607)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of T cell anergy (GO:0002669)|signal transduction (GO:0007165)|T cell activation (GO:0042110)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|ligase activity (GO:0016874)|signal transducer activity (GO:0004871)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(8)|liver(1)|lung(20)|ovary(3)|prostate(1)|skin(3)|stomach(2)|urinary_tract(2)	49						CCAATTCCGCAAAATAGAGCC	0.323			Mis S		AML																																GBM(93;588 1337 9788 29341 43499)		Rec	yes		3	3q13.11	868	Cas-Br-M (murine) ecotropic retroviral transforming sequence b		L	0													76	81	79					3																	105464866		2203	4300	6503	SO:0001583	missense	868			U26710	CCDS2948.1	3q	2013-07-09	2013-07-09		ENSG00000114423	ENSG00000114423		"RING-type (C3HC4) zinc fingers"	1542	protein-coding gene	gene with protein product		604491	"Cas-Br-M (murine) ectropic retroviral transforming sequence b", "Cas-Br-M (murine) ecotropic retroviral transforming sequence b"			7784085	Standard	XM_005247853		Approved	RNF56, Cbl-b	uc003dwc.3	Q13191	OTTHUMG00000150654	ENST00000264122.4:c.740T>G	3.37:g.105464866A>C	ENSP00000264122:p.Leu247Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9S7|B7WNM4|Q13192|Q13193|Q3LIC0|Q63Z43|Q8IVC5	Missense_Mutation	SNP	ENST00000264122.4	37	CCDS2948.1	.	.	.	.	.	.	.	.	.	.	A	24.4	4.524949	0.85600	.	.	ENSG00000114423	ENST00000264122;ENST00000394027;ENST00000403724;ENST00000405772	D;D;D;D	0.92249	-2.9;-2.91;-2.98;-3.0	5.89	5.89	0.94794	Adaptor protein Cbl, PTB domain (1);EF-hand-like domain (1);Adaptor protein Cbl, EF hand-like (1);	0.146062	0.45361	D	0.000364	D	0.96540	0.8871	M	0.86805	2.84	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.97148	0.9829	10	0.87932	D	0	-10.2901	16.2912	0.82752	1.0:0.0:0.0:0.0	.	269;247;247	E7ENW2;Q13191-3;Q13191	.;.;CBLB_HUMAN	W	247;269;247;247	ENSP00000264122:L247W;ENSP00000377595:L269W;ENSP00000384816:L247W;ENSP00000384938:L247W	ENSP00000264122:L247W	L	-	2	0	CBLB	106947556	1.000000	0.71417	0.991000	0.47740	0.948000	0.59901	9.326000	0.96389	2.251000	0.74343	0.482000	0.46254	TTG		0.323	CBLB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319417.2	NM_170662		C	105464866	A	C	105464866	3	2	679	1	0	0	0	0	1	0	0	0	2703	131	5	5	2264	5	CBLB	3	105464866	Missense_Mutation	SNP	A	TCGA-KO-8408-01A-11D-2310-10	56415648	105464866	92557564	13	43833										
KIAA2018	205717	broad.mit.edu	37	chr3	113378994	113378995	+	Frame_Shift_Ins	INS	-	-	G													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ctgagatttaacttgtggctINSgggcaattagtggctgcata					rs377114570		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr3:113378994_113378995insG	ENST00000478658.1	-	5	1551_1552	c.1534_1535insC	c.(1534-1536)cagfs	p.Q512fs	KIAA2018_ENST00000491165.1_Intron|KIAA2018_ENST00000316407.4_Frame_Shift_Ins_p.Q512fs			Q68DE3	K2018_HUMAN	KIAA2018	512						membrane (GO:0016020)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|DNA binding (GO:0003677)|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity (GO:0004571)			NS(1)|breast(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(13)|liver(1)|lung(30)|ovary(8)|skin(5)|upper_aerodigestive_tract(4)|urinary_tract(2)	80						AACTTGTGGCTGGGCAATTAGT	0.441																																																0																																										SO:0001589	frameshift_variant	205717			AB095938	CCDS43133.1	3q13.2	2014-01-02			ENSG00000176542	ENSG00000176542			30494	protein-coding gene	gene with protein product							Standard	XM_005247208		Approved		uc003eam.3	Q68DE3	OTTHUMG00000159322	ENST00000478658.1:c.1535dupC	3.37:g.113378997_113378997dupG	ENSP00000420721:p.Gln512fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z3L9|Q8IVF3|Q9H8T4	Frame_Shift_Ins	INS	ENST00000478658.1	37	CCDS43133.1																																																																																				0.441	KIAA2018-003	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000354591.1	NM_001009899		G	113378995	-	G	113378994	7	5	679	1	0	1	1	0	0	0	0	0	8275	1580	55	0	5206	0	KIAA2018	3	113378994	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	7914128	113378994	84643436	14	43834										
SEC22A	26984	broad.mit.edu	37	chr3	122990419	122990419	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cggaatgtcaaatcttttttGacttttggcttaatctgtct	7	7	4	1	rs190644797		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr3:122990419G>T	ENST00000309934.4	+	6	1670	c.774G>T	c.(772-774)ttG>ttT	p.L258F	SEC22A_ENST00000492595.1_Missense_Mutation_p.L258F|SEC22A_ENST00000481965.2_Nonstop_Mutation_p.*100L	NM_012430.4	NP_036562.2	Q96IW7	SC22A_HUMAN	SEC22 vesicle trafficking protein homolog A (S. cerevisiae)	258					ER to Golgi vesicle-mediated transport (GO:0006888)|protein transport (GO:0015031)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	transporter activity (GO:0005215)			NS(1)|kidney(1)|large_intestine(2)|lung(5)|ovary(1)	10				GBM - Glioblastoma multiforme(114;0.0548)		AATCTTTTTTGACTTTTGGCT	0.378																																																0													90	94	93					3																	122990419		2203	4300	6503	SO:0001583	missense	26984			AF100749	CCDS3021.1	3q21.1	2006-04-25	2006-04-25	2006-04-25	ENSG00000121542	ENSG00000121542			20260	protein-coding gene	gene with protein product		612442	"SEC22 vesicle trafficking protein-like 2 (S. cerevisiae)"	SEC22L2		9094723, 9501016	Standard	NM_012430		Approved		uc003ege.3	Q96IW7	OTTHUMG00000159495	ENST00000309934.4:c.774G>T	3.37:g.122990419G>T	ENSP00000310521:p.Leu258Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE26|Q9Y682	Missense_Mutation	SNP	ENST00000309934.4	37	CCDS3021.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	25.8|25.8	4.674964|4.674964	0.88445|0.88445	.|.	.|.	ENSG00000121542|ENSG00000121542	ENST00000492595;ENST00000473494;ENST00000309934|ENST00000481965	T;T;T|.	0.20200|.	2.09;2.1;2.09|.	5.76|5.76	5.76|5.76	0.90799|0.90799	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|.	0.78298|.	0.4261|.	M|M	0.76574|0.76574	2.34|2.34	0.80722|0.80722	D|D	1|1	D|.	0.71674|.	0.998|.	D|.	0.78314|.	0.991|.	T|.	0.76000|.	-0.3119|.	10|.	0.62326|.	D|.	0.03|.	0.7297|0.7297	20.3431|20.3431	0.98773|0.98773	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	258|.	Q96IW7|.	SC22A_HUMAN|.	F|L	258|100	ENSP00000417972:L258F;ENSP00000420343:L258F;ENSP00000310521:L258F|.	ENSP00000310521:L258F|.	L|X	+|+	3|2	2|2	SEC22A|SEC22A	124473109|124473109	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	7.605000|7.605000	0.82844|0.82844	2.880000|2.880000	0.98712|0.98712	0.650000|0.650000	0.86243|0.86243	TTG|TGA		0.378	SEC22A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355770.2	NM_012430		T	122990419	G	T	122990419	3	4	679	1	0	0	0	0	1	0	0	0	14001	1281	45	4	796	4	SEC22A	3	122990419	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	9611425	122990419	75032011	15	43835										
C3orf58	205428	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	143704589	143704589	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ttgcactctacctcctggacGtcagctttgacaattttgca	7	12	2	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr3:143704589G>T	ENST00000315691.3	+	2	1397	c.862G>T	c.(862-864)Gtc>Ttc	p.V288F	C3orf58_ENST00000495414.1_Missense_Mutation_p.V79F|C3orf58_ENST00000441925.2_Missense_Mutation_p.V50F|C3orf58_ENST00000493396.1_Intron	NM_173552.3	NP_775823.1	Q8NDZ4	DIA1_HUMAN	chromosome 3 open reading frame 58	288					cardiac muscle cell proliferation (GO:0060038)|regulation of phosphatidylinositol 3-kinase signaling (GO:0014066)	COPI vesicle coat (GO:0030126)|extracellular space (GO:0005615)|Golgi membrane (GO:0000139)				breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(6)|ovary(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	21						CCTCCTGGACGTCAGCTTTGA	0.408																																																0													165	149	155					3																	143704589		2203	4300	6503	SO:0001583	missense	205428			AK095161	CCDS3130.1, CCDS46929.1	3q24	2013-12-06			ENSG00000181744	ENSG00000181744			28490	protein-coding gene	gene with protein product	"deleted in autism 1", "hypoxia and Akt induced stem cell factor"	612200				21283809, 23784961, 24269490	Standard	NM_173552		Approved	MGC33365, DIA1, HASF	uc003evo.3	Q8NDZ4	OTTHUMG00000159380	ENST00000315691.3:c.862G>T	3.37:g.143704589G>T	ENSP00000320081:p.Val288Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCF2|B7Z1W3	Missense_Mutation	SNP	ENST00000315691.3	37	CCDS3130.1	.	.	.	.	.	.	.	.	.	.	G	21.1	4.104468	0.77096	.	.	ENSG00000181744	ENST00000315691;ENST00000495414;ENST00000492452;ENST00000441925	T	0.37058	1.22	5.12	5.12	0.69794	.	0.000000	0.85682	D	0.000000	T	0.57460	0.2055	L	0.54323	1.7	0.80722	D	1	P;D	0.71674	0.916;0.998	P;D	0.77004	0.535;0.989	T	0.60616	-0.7228	10	0.87932	D	0	.	18.5536	0.91075	0.0:0.0:1.0:0.0	.	79;288	B7Z1W3;Q8NDZ4	.;CC058_HUMAN	F	288;79;94;50	ENSP00000320081:V288F	ENSP00000320081:V288F	V	+	1	0	C3orf58	145187279	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.476000	0.97823	2.392000	0.81423	0.563000	0.77884	GTC		0.408	C3orf58-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355038.1	NM_173552		T	143704589	G	T	143704589	3	4	679	1	0	0	0	0	1	0	0	0	2238	1145	40	4	902	4	C3orf58	3	143704589	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	20714170	143704589	54317841	16	43836										
GFM1	85476	broad.mit.edu	37	chr3	158362472	158362473	+	Frame_Shift_Ins	INS	-	-	C													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ggctctggggcgcggaagggINScccccgcctccctaggctgg							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr3:158362472_158362473insC	ENST00000486715.1	+	1	406_407	c.49_50insC	c.(49-51)gccfs	p.A17fs	GFM1_ENST00000264263.5_Frame_Shift_Ins_p.A17fs|GFM1_ENST00000478576.1_Frame_Shift_Ins_p.A17fs	NM_024996.5	NP_079272.4			G elongation factor, mitochondrial 1											breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(5)|lung(9)|ovary(3)|urinary_tract(2)	22			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			GCGCGGAAGGGCCCCCGCCTCC	0.649											OREG0015898	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0																																										SO:0001589	frameshift_variant	85476			AF309777	CCDS33885.1	3q25	2008-02-05			ENSG00000168827	ENSG00000168827			13780	protein-coding gene	gene with protein product		606639	"G translation elongation factor, mitochondrial"			11374907, 11735030	Standard	NM_024996		Approved	EFGM, GFM, EGF1	uc003fce.3	Q96RP9	OTTHUMG00000158804	ENST00000486715.1:c.54dupC	3.37:g.158362477_158362477dupC	ENSP00000419038:p.Ala17fs	Somatic	1793	WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000486715.1	37	CCDS33885.1																																																																																				0.649	GFM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352271.1	NM_024996		C	158362473	-	C	158362472	7	5	679	1	0	1	1	0	0	0	0	0	6348	1203	42	0	51	0	GFM1	3	158362472	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	14657883	158362472	39659958	17	43837										
CRIPAK	285464	mdanderson.org	37	chr4	1389148	1389148	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ggggtgcccgcctgctcacaTgtgccgatgtggagtgcccg	16	13	1	0	rs35123539|rs79888804	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr4:1389148T>C	ENST00000324803.4	+	1	3809	c.849T>C	c.(847-849)caT>caC	p.H283H		NM_175918.3	NP_787114.2	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	283					negative regulation of intracellular estrogen receptor signaling pathway (GO:0033147)|negative regulation of protein kinase activity (GO:0006469)|regulation of cytoskeleton organization (GO:0051493)|response to estrogen (GO:0043627)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				NS(3)|breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(11)|ovary(1)|pancreas(2)|prostate(6)|skin(4)|urinary_tract(1)	35			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			CCTGCTCACATGTGCCGATGT	0.682													c|||	53	0.0105831	0.0113	0.0086	5008	,	,		13167	0.006		0.0159	False		,,,				2504	0.0102															0								C		48,4356		1,46,2155	141	138	139		849	-0.2	0	4	dbSNP_131	139	185,8415		4,177,4119	no	coding-synonymous	CRIPAK	NM_175918.3		5,223,6274	CC,CT,TT		2.1512,1.0899,1.7918		283/447	1389148	233,12771	2202	4300	6502	SO:0001819	synonymous_variant	285464			AK096209	CCDS3349.1	4p16.3	2011-02-10	2006-09-04		ENSG00000179979	ENSG00000179979			26619	protein-coding gene	gene with protein product		610203	"cysteine-rich PAK1inhibitor"			16278681	Standard	NM_175918		Approved	FLJ34443	uc003gdf.2	Q8N1N5	OTTHUMG00000121131	ENST00000324803.4:c.849T>C	4.37:g.1389148T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NB03	Silent	SNP	ENST00000324803.4	37	CCDS3349.1																																																																																				0.682	CRIPAK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241607.2	NM_175918		C	1389148	T	C	1389148	2	2	679	1	0	0	0	0	0	0	0	1	3879	1461	51	3		3	CRIPAK	4	1389148	Silent	SNP	T	TCGA-KO-8408-01A-11D-2310-10		1389148	189765128	18	43838										
FBXL5	26234	broad.mit.edu	37	chr4	15627587	15627587	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ccgaagactctggcagcaacCaagccaagaccaactataat	7	13	1	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr4:15627587C>A	ENST00000341285.3	-	9	1262	c.1138G>T	c.(1138-1140)Ggt>Tgt	p.G380C	FBXL5_ENST00000382358.4_Missense_Mutation_p.G254C|FBXL5_ENST00000412094.2_Missense_Mutation_p.G363C	NM_001193534.1|NM_001193535.1|NM_012161.3	NP_001180463.1|NP_001180464.1|NP_036293.1	Q9UKA1	FBXL5_HUMAN	F-box and leucine-rich repeat protein 5	380					iron ion homeostasis (GO:0055072)|protein ubiquitination (GO:0016567)|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146)	perinuclear region of cytoplasm (GO:0048471)|SCF ubiquitin ligase complex (GO:0019005)|ubiquitin ligase complex (GO:0000151)	iron ion binding (GO:0005506)|ubiquitin-protein transferase activity (GO:0004842)			endometrium(2)|large_intestine(3)|lung(5)|ovary(1)|pancreas(1)|prostate(1)	13						TGGCAGCAACCAAGCCAAGAC	0.373																																																0													23	24	23					4																	15627587		2194	4275	6469	SO:0001583	missense	26234			AF174591	CCDS3415.1, CCDS54745.1	4p15.33	2011-06-09			ENSG00000118564	ENSG00000118564		"F-boxes / Leucine-rich repeats"	13602	protein-coding gene	gene with protein product		605655				10531035	Standard	NM_012161		Approved	FBL4, FBL5, FLR1	uc003goc.2	Q9UKA1	OTTHUMG00000097097	ENST00000341285.3:c.1138G>T	4.37:g.15627587C>A	ENSP00000344866:p.Gly380Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8MSK4|B4DIB5|Q4W5A8|Q8NHP3|Q9NXN2|Q9P0I0|Q9P0X5|Q9UJT7|Q9UKC8	Missense_Mutation	SNP	ENST00000341285.3	37	CCDS3415.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	24.0|24.0	4.484659|4.484659	0.84854|0.84854	.|.	.|.	ENSG00000118564|ENSG00000118564	ENST00000341285;ENST00000412094;ENST00000382358|ENST00000513163	T;T;T|.	0.35421|.	1.34;1.34;1.31|.	5.92|5.92	5.92|5.92	0.95590|0.95590	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.74816|0.74816	0.3766|0.3766	M|M	0.62723|0.62723	1.935|1.935	0.80722|0.80722	D|D	1|1	D;D|.	0.89917|.	1.0;1.0|.	D;D|.	0.97110|.	1.0;1.0|.	T|T	0.70691|0.70691	-0.4802|-0.4802	10|5	0.87932|.	D|.	0|.	-19.976|-19.976	20.3116|20.3116	0.98642|0.98642	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	363;380|.	Q9UKA1-2;Q9UKA1|.	.;FBXL5_HUMAN|.	C|L	380;363;254|300	ENSP00000344866:G380C;ENSP00000408679:G363C;ENSP00000371795:G254C|.	ENSP00000344866:G380C|.	G|W	-|-	1|2	0|0	FBXL5|FBXL5	15236685|15236685	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	7.103000|7.103000	0.77014|0.77014	2.793000|2.793000	0.96121|0.96121	0.650000|0.650000	0.86243|0.86243	GGT|TGG		0.373	FBXL5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214235.2			A	15627587	C	A	15627587	3	1	679	1	0	0	0	0	1	0	0	0	5729	594	21	4	949	4	FBXL5	4	15627587	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	14238439	15627587	175526689	19	43839										
FRAS1	80144	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	79301068	79301068	+	Nonsense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	caagaaatggaaaagaggttCagctggacaaggctggccgt	14	7	1	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr4:79301068C>T	ENST00000325942.6	+	27	3921	c.3481C>T	c.(3481-3483)Cag>Tag	p.Q1161*	FRAS1_ENST00000264895.6_Nonsense_Mutation_p.Q1161*	NM_001166133.1	NP_001159605.1	Q86XX4	FRAS1_HUMAN	Fraser extracellular matrix complex subunit 1	1161					cell communication (GO:0007154)|embryonic limb morphogenesis (GO:0030326)|metanephros morphogenesis (GO:0003338)|morphogenesis of an epithelium (GO:0002009)|palate development (GO:0060021)|protein transport (GO:0015031)|skin development (GO:0043588)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|sublamina densa (GO:0061618)	metal ion binding (GO:0046872)			breast(2)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(5)|lung(54)|prostate(7)|skin(2)|urinary_tract(4)	103						AAAAGAGGTTCAGCTGGACAA	0.473																																																0													99	102	101					4																	79301068		1926	4122	6048	SO:0001587	stop_gained	80144			AB040933	CCDS54772.1	4q21.21	2014-06-25	2014-06-25		ENSG00000138759	ENSG00000138759			19185	protein-coding gene	gene with protein product		607830	"Fraser syndrome 1"			12766769, 3118036	Standard	NM_025074		Approved	FLJ22031, FLJ14927, KIAA1500	uc003hlb.2	Q86XX4	OTTHUMG00000160856	ENST00000325942.6:c.3481C>T	4.37:g.79301068C>T	ENSP00000326330:p.Gln1161*	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRR8|Q86UZ4|Q8N3U9|Q8NAU7|Q96JW7|Q9H6N9|Q9P228	Nonsense_Mutation	SNP	ENST00000325942.6	37	CCDS54772.1	.	.	.	.	.	.	.	.	.	.	C	43	9.941586	0.99300	.	.	ENSG00000138759	ENST00000325942;ENST00000264895	.	.	.	5.53	5.53	0.82687	.	0.466636	0.22014	N	0.065839	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	19.4531	0.94876	0.0:1.0:0.0:0.0	.	.	.	.	X	1161	.	ENSP00000264895:Q1161X	Q	+	1	0	FRAS1	79520092	0.952000	0.32445	0.958000	0.39756	0.124000	0.20399	4.549000	0.60726	2.600000	0.87896	0.591000	0.81541	CAG		0.473	FRAS1-001	NOVEL	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000362706.2			T	79301068	C	T	79301068	4	4	679	1	0	0	0	0	0	1	0	0	6049	827	29	2	3587	2	FRAS1	4	79301068	Nonsense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	63673481	79301068	111853208	20	43840										
AGPAT9	84803	broad.mit.edu;mdanderson.org	37	chr4	84465716	84465716	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	caatacgaattgaaaaaggaAccccaaaggagtcgattctt	8	8	1	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr4:84465716A>G	ENST00000395226.2	+	3	387	c.169A>G	c.(169-171)Acc>Gcc	p.T57A	AGPAT9_ENST00000264409.4_Missense_Mutation_p.T57A	NM_001256421.1	NP_001243350.1	Q53EU6	GPAT3_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 9	57					CDP-diacylglycerol biosynthetic process (GO:0016024)|cellular lipid metabolic process (GO:0044255)|glycerophospholipid biosynthetic process (GO:0046474)|phosphatidic acid biosynthetic process (GO:0006654)|phospholipid metabolic process (GO:0006644)|regulation of TOR signaling (GO:0032006)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	1-acylglycerol-3-phosphate O-acyltransferase activity (GO:0003841)|glycerol-3-phosphate O-acyltransferase activity (GO:0004366)			endometrium(1)|kidney(1)|large_intestine(4)|lung(4)|skin(3)	13		Hepatocellular(203;0.114)				TGAAAAAGGAACCCCAAAGGA	0.343																																																0													196	211	206					4																	84465716		2203	4300	6503	SO:0001583	missense	84803			AK055749	CCDS3606.1	4q21.23	2014-02-13	2008-01-29		ENSG00000138678	ENSG00000138678	2.3.1.15	"1-acylglycerol-3-phosphate O-acyltransferases"	28157	protein-coding gene	gene with protein product	"lysophosphatidic acid acyltransferase, theta"	610958	"1-acylglycerol-3-phosphate O-acyltransferase 9 (lysophosphatidic acid acyltransferase, theta)"			12975309	Standard	NM_001256421		Approved	MGC11324, LPAAT-theta, MAG1, HMFN0839	uc003how.4	Q53EU6	OTTHUMG00000130431	ENST00000395226.2:c.169A>G	4.37:g.84465716A>G	ENSP00000378651:p.Thr57Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q68CJ4|Q6GPI6|Q96NA3	Missense_Mutation	SNP	ENST00000395226.2	37	CCDS3606.1	.	.	.	.	.	.	.	.	.	.	A	1.229	-0.624612	0.03636	.	.	ENSG00000138678	ENST00000395226;ENST00000264409	T;T	0.39787	1.06;1.06	5.13	0.858	0.19030	.	0.696409	0.14235	N	0.332468	T	0.09730	0.0239	N	0.00554	-1.385	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.33137	-0.9880	10	0.09338	T	0.73	-1.4317	3.6614	0.08240	0.287:0.0:0.5317:0.1814	.	57	Q53EU6	GPAT3_HUMAN	A	57	ENSP00000378651:T57A;ENSP00000264409:T57A	ENSP00000264409:T57A	T	+	1	0	AGPAT9	84684740	0.784000	0.28713	0.366000	0.25914	0.925000	0.55904	0.849000	0.27723	0.320000	0.23234	-0.358000	0.07595	ACC		0.343	AGPAT9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252821.3	NM_032717		G	84465716	A	G	84465716	3	3	679	1	0	0	0	0	1	0	0	0	392	43	2	3	175	3	AGPAT9	4	84465716	Missense_Mutation	SNP	A	TCGA-KO-8408-01A-11D-2310-10	5164648	84465716	106688560	21	43841										
DSPP	1834	mdanderson.org	37	chr4	88536953	88536953	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gcgatagcagtgacagcagcGatagcagtgacagcagtgac	14	9	0	3	rs200486992		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr4:88536953G>A	ENST00000282478.7	+	4	3172	c.3139G>A	c.(3139-3141)Gat>Aat	p.D1047N	DSPP_ENST00000399271.1_Missense_Mutation_p.D1047N|RP11-742B18.1_ENST00000506480.1_RNA			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	1047	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		tgacagcagcgatagcagtga	0.527																																																0													46	57	53					4																	88536953		1537	2773	4310	SO:0001583	missense	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.3139G>A	4.37:g.88536953G>A	ENSP00000282478:p.Asp1047Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	Missense_Mutation	SNP	ENST00000282478.7	37	CCDS43248.1	.	.	.	.	.	.	.	.	.	.	g	3.566	-0.088574	0.07097	.	.	ENSG00000152591	ENST00000399271;ENST00000282478	D;D	0.88201	-2.35;-2.35	1.51	-1.84	0.07809	.	.	.	.	.	T	0.78355	0.4270	L	0.34521	1.04	0.09310	N	1	B	0.26708	0.157	B	0.08055	0.003	T	0.61637	-0.7022	9	0.38643	T	0.18	.	5.2365	0.15448	0.5606:0.0:0.4394:0.0	.	1047	Q9NZW4	DSPP_HUMAN	N	1047	ENSP00000382213:D1047N;ENSP00000282478:D1047N	ENSP00000282478:D1047N	D	+	1	0	DSPP	88755977	0.032000	0.19561	0.079000	0.20413	0.006000	0.05464	0.451000	0.21779	-0.607000	0.05738	-0.791000	0.03333	GAT		0.527	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		A	88536953	G	A	88536953	3	1	679	1	0	0	0	0	1	0	0	0	4784	1058	37	1	3153	1	DSPP	4	88536953	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	4071237	88536953	102617323	22	43842										
QRFPR	84109	bcgsc.ca	37	chr4	122250742	122250742	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	caaactgcagacaaaacattTtttttgaagttttcattcat	4	7	2	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr4:122250742T>A	ENST00000394427.2	-	6	1434	c.1023A>T	c.(1021-1023)aaA>aaT	p.K341N	QRFPR_ENST00000334383.5_3'UTR|Y_RNA_ENST00000384419.1_RNA	NM_198179.2	NP_937822.2	Q96P65	QRFPR_HUMAN	pyroglutamylated RFamide peptide receptor	341					G-protein coupled receptor signaling pathway (GO:0007186)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|neuropeptide Y receptor activity (GO:0004983)			endometrium(1)|kidney(2)|large_intestine(9)|lung(10)|prostate(2)|skin(3)|stomach(1)	28						ACAAAACATTTTTTTTGAAGT	0.333																																																0													67	67	67					4																	122250742		2202	4300	6502	SO:0001583	missense	84109			AF411117	CCDS3719.1	4q27	2012-08-10	2008-12-18	2008-12-18	ENSG00000186867	ENSG00000186867		"GPCR / Class A : RF amide peptide receptors"	15565	protein-coding gene	gene with protein product		606925	"G protein-coupled receptor 103"	GPR103		11574155	Standard	NM_198179		Approved		uc010inj.1	Q96P65	OTTHUMG00000133036	ENST00000394427.2:c.1023A>T	4.37:g.122250742T>A	ENSP00000377948:p.Lys341Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000394427.2	37	CCDS3719.1	.	.	.	.	.	.	.	.	.	.	T	18.61	3.661452	0.67700	.	.	ENSG00000186867	ENST00000394427	T	0.38240	1.15	5.32	-3.01	0.05463	.	0.000000	0.85682	D	0.000000	T	0.32882	0.0844	L	0.36672	1.1	0.80722	D	1	D	0.53312	0.959	P	0.49887	0.625	T	0.09707	-1.0662	10	0.54805	T	0.06	.	13.2562	0.60081	0.0:0.3128:0.0:0.6872	.	341	Q96P65	QRFPR_HUMAN	N	341	ENSP00000377948:K341N	ENSP00000377948:K341N	K	-	3	2	QRFPR	122470192	0.968000	0.33430	0.756000	0.31282	0.994000	0.84299	0.120000	0.15647	-0.820000	0.04318	0.402000	0.26972	AAA		0.333	QRFPR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256641.2	NM_198179		A	122250742	T	A	122250742	3	1	679	1	0	0	0	0	1	0	0	0	12891	1838	64	5	276	5	QRFPR	4	122250742	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10	33713789	122250742	68903534	23	43843										
FRG1	2483	mdanderson.org	37	chr4	190876210	190876210	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	agaatcgccctgaagtctggCtatggaaaatatcttggtat	10	7	2	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr4:190876210C>G	ENST00000226798.4	+	5	558	c.336C>G	c.(334-336)ggC>ggG	p.G112G	FRG1_ENST00000514482.1_3'UTR	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1	112					mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		TGAAGTCTGGCTATGGAAAAT	0.358																																																0													54	53	53					4																	190876210		2203	4300	6503	SO:0001819	synonymous_variant	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.336C>G	4.37:g.190876210C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Silent	SNP	ENST00000226798.4	37	CCDS34121.1																																																																																				0.358	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477		G	190876210	C	G	190876210	2	3	679	1	0	0	0	0	0	0	0	1	6053	784	28	4		4	FRG1	4	190876210	Silent	SNP	C	TCGA-KO-8408-01A-11D-2310-10	68625468	190876210	278066	24	43844										
RAD17	5884	broad.mit.edu	37	chr5	68695895	68695895	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gtatcgggaaaattgcctggCagcaaaagcactttttcctg	10	9	0	0			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr5:68695895C>T	ENST00000509734.1	+	16	2303	c.1625C>T	c.(1624-1626)gCa>gTa	p.A542V	RAD17_ENST00000361732.2_Missense_Mutation_p.A531V|RAD17_ENST00000354312.3_Missense_Mutation_p.A531V|RAD17_ENST00000345306.6_Missense_Mutation_p.A531V|RAD17_ENST00000380774.3_Missense_Mutation_p.A542V|RAD17_ENST00000305138.4_Missense_Mutation_p.A531V|RAD17_ENST00000504177.1_Intron|RAD17_ENST00000354868.5_Missense_Mutation_p.A531V|RAD17_ENST00000358030.2_Missense_Mutation_p.A366V|RAD17_ENST00000282891.6_Missense_Mutation_p.A445V|RAD17_ENST00000521422.1_Missense_Mutation_p.A366V			O75943	RAD17_HUMAN	RAD17 homolog (S. pombe)	542	Interaction with MCM7.				cellular response to DNA damage stimulus (GO:0006974)|DNA damage checkpoint (GO:0000077)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|DNA replication checkpoint (GO:0000076)|mitotic cell cycle checkpoint (GO:0007093)|negative regulation of DNA replication (GO:0008156)|regulation of phosphorylation (GO:0042325)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)						Lung NSC(167;5.19e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;9.36e-57)|Epithelial(20;1.21e-52)|all cancers(19;3.34e-48)|Lung(70;0.0183)		AATTGCCTGGCAGCAAAAGCA	0.338								Other conserved DNA damage response genes																																								0													57	50	52					5																	68695895		2203	4300	6503	SO:0001583	missense	5884			AF085736	CCDS4003.1, CCDS4004.1, CCDS4005.1, CCDS47226.1	5q13	2010-09-24	2001-11-28		ENSG00000152942	ENSG00000152942			9807	protein-coding gene	gene with protein product		603139	"RAD1 (S. pombe) homolog"			9869296, 9660800	Standard	NM_133343		Approved	Rad24, RAD17Sp, CCYC	uc003jwo.3	O75943	OTTHUMG00000099357	ENST00000509734.1:c.1625C>T	5.37:g.68695895C>T	ENSP00000426191:p.Ala542Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8X2|D3DWA5|O75714|Q7Z3S4|Q9UNK7|Q9UNR7|Q9UNR8|Q9UPF5	Missense_Mutation	SNP	ENST00000509734.1	37	CCDS4003.1	.	.	.	.	.	.	.	.	.	.	C	15.22	2.769929	0.49680	.	.	ENSG00000152942	ENST00000361732;ENST00000509734;ENST00000354868;ENST00000521422;ENST00000354312;ENST00000345306;ENST00000305138;ENST00000282891;ENST00000358030;ENST00000380774;ENST00000513214	T;T;T;T;T;T;T;T;T;T;T	0.26810	1.71;1.71;1.71;1.71;1.71;1.71;1.71;1.71;1.71;1.71;1.71	5.63	5.63	0.86233	.	0.272817	0.41500	D	0.000873	T	0.25382	0.0617	L	0.55103	1.725	0.48341	D	0.999634	P;B;P	0.35872	0.525;0.128;0.469	B;B;B	0.35727	0.209;0.063;0.132	T	0.02167	-1.1202	10	0.27082	T	0.32	-7.0607	12.6173	0.56584	0.0:0.9201:0.0:0.0799	.	542;445;531	O75943;O75943-4;O75943-2	RAD17_HUMAN;.;.	V	531;542;531;366;531;531;531;445;366;542;150	ENSP00000355226:A531V;ENSP00000426191:A542V;ENSP00000346938:A531V;ENSP00000427743:A366V;ENSP00000346271:A531V;ENSP00000311227:A531V;ENSP00000303134:A531V;ENSP00000282891:A445V;ENSP00000350725:A366V;ENSP00000370151:A542V;ENSP00000425005:A150V	ENSP00000282891:A445V	A	+	2	0	RAD17	68731651	1.000000	0.71417	1.000000	0.80357	0.633000	0.38033	5.412000	0.66392	2.673000	0.90976	0.580000	0.79431	GCA		0.338	RAD17-008	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369171.1	NM_133344		T	68695895	C	T	68695895	3	4	679	1	0	0	0	0	1	0	0	0	12992	710	25	2	1692	2	RAD17	5	68695895	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10		68695895	112219365	25	43845										
SPZ1	84654	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	79616249	79616249	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tgcacagaagtttaacaatcTcttaaaagaaattaaagata	5	5	1	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr5:79616249T>G	ENST00000296739.4	+	1	460	c.215T>G	c.(214-216)cTc>cGc	p.L72R		NM_032567.3	NP_115956.3	Q9BXG8	SPZ1_HUMAN	spermatogenic leucine zipper 1	72					transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(2)|kidney(5)|large_intestine(4)|lung(12)|ovary(1)|skin(2)	26		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)		TTTAACAATCTCTTAAAAGAA	0.368																																																0													65	62	63					5																	79616249		1817	4077	5894	SO:0001583	missense	84654				CCDS43336.1	5q14.1	2014-06-13				ENSG00000164299			30721	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 148"					11165476, 12778315, 15226296, 15829580, 15899793	Standard	NM_032567		Approved	NYD-TSP1, FLJ25709, PPP1R148	uc003kgn.3	Q9BXG8		ENST00000296739.4:c.215T>G	5.37:g.79616249T>G	ENSP00000369611:p.Leu72Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RA21|Q8N4P1|Q8N7E9	Missense_Mutation	SNP	ENST00000296739.4	37	CCDS43336.1	.	.	.	.	.	.	.	.	.	.	T	14.33	2.504338	0.44558	.	.	ENSG00000164299	ENST00000511881;ENST00000296739	T;T	0.59638	0.25;0.77	4.33	3.17	0.36434	.	0.380247	0.18580	N	0.137078	T	0.66557	0.2801	L	0.52011	1.625	0.09310	N	1	D	0.76494	0.999	D	0.74023	0.982	T	0.55068	-0.8198	10	0.87932	D	0	-3.0115	8.3567	0.32335	0.0:0.0952:0.0:0.9048	.	72	Q9BXG8	SPZ1_HUMAN	R	72	ENSP00000426530:L72R;ENSP00000369611:L72R	ENSP00000369611:L72R	L	+	2	0	SPZ1	79652005	0.011000	0.17503	0.007000	0.13788	0.035000	0.12851	1.503000	0.35715	0.996000	0.38943	0.460000	0.39030	CTC		0.368	SPZ1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369322.1	NM_032567		G	79616249	T	G	79616249	3	3	679	1	0	0	0	0	1	0	0	0	15139	1551	54	5	217	5	SPZ1	5	79616249	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10	10920354	79616249	101299011	26	43846										
C5orf20	140947	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr5	134782502	134782502	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ggcctcgcagatgcttcactCgaaagattggagttgcagag	13	9	1	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr5:134782502C>T	ENST00000503143.2	-	1	536	c.297G>A	c.(295-297)tcG>tcA	p.S99S	TIFAB_ENST00000537858.1_3'UTR	NM_130848.2	NP_570900.1	Q8TF63	DCNP1_HUMAN		99						nucleus (GO:0005634)				endometrium(1)|lung(1)|prostate(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ATGCTTCACTCGAAAGATTGG	0.592																																																0													66	70	68					5																	134782502		2203	4300	6503	SO:0001819	synonymous_variant	140947																														ENST00000503143.2:c.297G>A	5.37:g.134782502C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000503143.2	37	CCDS4186.1																																																																																				0.592	C5orf20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372531.1			T	134782502	C	T	134782502	2	4	679	1	0	0	0	0	0	0	0	1	2286	871	31	1		1	C5orf20	5	134782502	Silent	SNP	C	TCGA-KO-8408-01A-11D-2310-10	55166253	134782502	46132758	27	43847										
PCDHB16	57717	mdanderson.org	37	chr5	140563708	140563708	+	Missense_Mutation	SNP	G	G	A													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gctggactacgaggccctgcGggagttcgagttccgcgtga					rs17844651	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr5:140563708G>A	ENST00000361016.2	+	1	2729	c.1574G>A	c.(1573-1575)cGg>cAg	p.R525Q		NM_020957.1	NP_066008.1	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16	525	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.		R -> Q (in dbSNP:rs17844651). {ECO:0000269|PubMed:11322959, ECO:0000269|PubMed:15489334}.		calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(1)|endometrium(10)|kidney(3)|large_intestine(14)|lung(29)|ovary(5)|pancreas(2)|prostate(3)|skin(1)|urinary_tract(1)	69			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAGGCCCTGCGGGAGTTCGAG	0.697													A|||	1371	0.273762	0.3132	0.3329	5008	,	,		10877	0.1399		0.3688	False		,,,				2504	0.2188															0													44	45	45					5																	140563708		1753	3407	5160	SO:0001583	missense	57717			AF217757	CCDS4251.1	5q31	2014-04-11			ENSG00000196963			"Cadherins / Protocadherins : Clustered"	14546	other	protocadherin	"cadherin ME1", "protocadherin-3x", "PCDHbeta 16"	606345				11230163, 11322959	Standard	NM_020957		Approved	PCDHB8a, PCDH3X, KIAA1621, PCDH-BETA16, ME1	uc003liv.3	Q9NRJ7	OTTHUMG00000188325	ENST00000361016.2:c.1574G>A	5.37:g.140563708G>A	ENSP00000354293:p.Arg525Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPK5|Q8IYD5|Q96SE9|Q9HCF1	Missense_Mutation	SNP	ENST00000361016.2	37	CCDS4251.1	949	0.43452380952380953	218	0.44308943089430897	192	0.5303867403314917	183	0.31993006993006995	356	0.46965699208443273	N	0.030	-1.338963	0.01287	.	.	ENSG00000196963	ENST00000361016	T	0.01725	4.67	4.26	-5.79	0.02354	Cadherin (5);Cadherin-like (1);	1.323070	0.06171	N	0.677600	T	0.00012	0.0000	N	0.13327	0.33	0.80722	P	0.0	B	0.06786	0.001	B	0.09377	0.004	T	0.45804	-0.9236	9	0.02654	T	1	.	16.9299	0.86188	0.33:0.0:0.67:0.0	rs61743500	525	Q9NRJ7	PCDBG_HUMAN	Q	525	ENSP00000354293:R525Q	ENSP00000354293:R525Q	R	+	2	0	PCDHB16	140543892	0.000000	0.05858	0.001000	0.08648	0.117000	0.20001	-2.446000	0.01010	-1.843000	0.01179	-1.249000	0.01516	CGG		0.697	PCDHB16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251800.1	NM_020957		A	140563708	G	A	140563708	3	1	679	1	0	0	0	0	1	0	0	0	11548	1116	39	1	1576	1	PCDHB16	5	140563708	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	5781206	140563708	40351552	28	43848	447	2	1	123		5	4	10047	N	T_G_AG_A	1.780722e-05
PCDHB16	57717	mdanderson.org	37	chr5	140563711	140563712	+	Missense_Mutation	DNP	AG	AG	CT													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ggactacgaggccctgcgggAgttcgagttccgcgtgagcg					rs17844652|rs17844653	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr5:140563711_140563712AG>CT	ENST00000361016.2	+	1	2732_2733	c.1577_1578AG>CT	c.(1576-1578)gAG>gCT	p.E526A		NM_020957.1	NP_066008.1	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16	526	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.			E -> A (in Ref. 1; AAF81914/AAG10030 and 7; AAH36062). {ECO:0000305}.	calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(1)|endometrium(10)|kidney(3)|large_intestine(14)|lung(29)|ovary(5)|pancreas(2)|prostate(3)|skin(1)|urinary_tract(1)	69			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCCCTGCGGGAGTTCGAGTTCC	0.693																																																0																																										SO:0001583	missense	57717			AF217757	CCDS4251.1	5q31	2014-04-11			ENSG00000196963			"Cadherins / Protocadherins : Clustered"	14546	other	protocadherin	"cadherin ME1", "protocadherin-3x", "PCDHbeta 16"	606345				11230163, 11322959	Standard	NM_020957		Approved	PCDHB8a, PCDH3X, KIAA1621, PCDH-BETA16, ME1	uc003liv.3	Q9NRJ7	OTTHUMG00000188325	Exception_encountered	5.37:g.140563711_140563712delinsCT	ENSP00000354293:p.Glu526Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPK5|Q8IYD5|Q96SE9|Q9HCF1	Missense_Mutation	DNP	ENST00000361016.2	37	CCDS4251.1																																																																																				0.693	PCDHB16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251800.1	NM_020957		CT	140563712	AG	CT	140563711	3	2	679	1	0	0	0	0	1	0	0	0	11548	304	11	5	1579	5	PCDHB16	5	140563711	Missense_Mutation	DNP	AG	TCGA-KO-8408-01A-11D-2310-10	3	140563711	40351549	29	43849	447	2	1	123		5	4	10047	N	T_G_AG_A	1.780722e-05
PCDHB16	57717	mdanderson.org	37	chr5	140563754	140563754	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	acagaccgcggctccccggcTttgagcagcgaggcgctggt	15	14	0	2	rs17844656	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr5:140563754T>G	ENST00000361016.2	+	1	2775	c.1620T>G	c.(1618-1620)gcT>gcG	p.A540A		NM_020957.1	NP_066008.1	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16	540	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(1)|endometrium(10)|kidney(3)|large_intestine(14)|lung(29)|ovary(5)|pancreas(2)|prostate(3)|skin(1)|urinary_tract(1)	69			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTCCCCGGCTTTGAGCAGCG	0.687													T|||	1362	0.271965	0.3366	0.3098	5008	,	,		11233	0.1419		0.3499	False		,,,				2504	0.2117															0								T		456,3166		100,256,1455	21	24	23		1620	2.2	0.8	5	dbSNP_123	23	664,5934		147,370,2782	no	coding-synonymous	PCDHB16	NM_020957.1		247,626,4237	GG,GT,TT		10.0637,12.5897,10.9589		540/777	140563754	1120,9100	1811	3299	5110	SO:0001819	synonymous_variant	57717			AF217757	CCDS4251.1	5q31	2014-04-11			ENSG00000196963			"Cadherins / Protocadherins : Clustered"	14546	other	protocadherin	"cadherin ME1", "protocadherin-3x", "PCDHbeta 16"	606345				11230163, 11322959	Standard	NM_020957		Approved	PCDHB8a, PCDH3X, KIAA1621, PCDH-BETA16, ME1	uc003liv.3	Q9NRJ7	OTTHUMG00000188325	ENST00000361016.2:c.1620T>G	5.37:g.140563754T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KPK5|Q8IYD5|Q96SE9|Q9HCF1	Silent	SNP	ENST00000361016.2	37	CCDS4251.1																																																																																				0.687	PCDHB16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251800.1	NM_020957		G	140563754	T	G	140563754	2	3	679	1	0	0	0	0	0	0	0	1	11548	1596	56	5		5	PCDHB16	5	140563754	Silent	SNP	T	TCGA-KO-8408-01A-11D-2310-10	43	140563754	40351506	30	43850			1	123		5	4	10047	N	T_G_AG_A	1.780722e-05
PCDHB10	56126	mdanderson.org	37	chr5	140573719	140573719	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	aggctttcgagttccgcgtgGgcgccacagaccgcggctcc	14	15	0	1	rs148484995	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr5:140573719G>A	ENST00000239446.4	+	1	1778	c.1594G>A	c.(1594-1596)Ggc>Agc	p.G532S		NM_018930.3	NP_061753.1	Q9UN67	PCDBA_HUMAN	protocadherin beta 10	532	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(14)|lung(30)|ovary(4)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	76			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTTCCGCGTGGGCGCCACAGA	0.692																																																0													64	82	76					5																	140573719		2203	4300	6503	SO:0001583	missense	56126			AF152489	CCDS4252.1	5q31.3	2010-06-15			ENSG00000120324	ENSG00000120324		"Cadherins / Protocadherins : Clustered"	8681	other	protocadherin		606336				10380929	Standard	NM_018930		Approved		uc003lix.3	Q9UN67	OTTHUMG00000129626	ENST00000239446.4:c.1594G>A	5.37:g.140573719G>A	ENSP00000239446:p.Gly532Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q96T99	Missense_Mutation	SNP	ENST00000239446.4	37	CCDS4252.1	121	0.0554029304029304	49	0.09959349593495935	14	0.03867403314917127	4	0.006993006993006993	54	0.0712401055408971	g	13.25	2.180349	0.38511	.	.	ENSG00000120324	ENST00000239446	T	0.01647	4.71	3.53	-1.46	0.08800	Cadherin (5);Cadherin-like (1);	.	.	.	.	T	0.00073	0.0002	N	0.04787	-0.16	0.09310	N	1	P	0.40578	0.722	P	0.50162	0.633	T	0.53781	-0.8390	9	0.34782	T	0.22	.	6.5285	0.22314	0.1851:0.6244:0.1905:0.0	.	532	Q9UN67	PCDBA_HUMAN	S	532	ENSP00000239446:G532S	ENSP00000239446:G532S	G	+	1	0	PCDHB10	140553903	0.000000	0.05858	0.997000	0.53966	0.972000	0.66771	-1.808000	0.01732	-0.175000	0.10725	0.549000	0.68633	GGC		0.692	PCDHB10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251821.1	NM_018930		A	140573719	G	A	140573719	3	1	679	1	0	0	0	0	1	0	0	0	11542	1232	43	2	1596	2	PCDHB10	5	140573719	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	9965	140573719	40341541	31	43851			1	123		5	4	10047	N	T_G_AG_A	1.780722e-05
PCDHB10	56126	mdanderson.org	37	chr5	140573754	140573754	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ggctcccccgcgctgagcagAgaggcgctggtgcgcgtgct	17	14	0	2	rs702386		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr5:140573754A>C	ENST00000239446.4	+	1	1813	c.1629A>C	c.(1627-1629)agA>agC	p.R543S		NM_018930.3	NP_061753.1	Q9UN67	PCDBA_HUMAN	protocadherin beta 10	543	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.			R -> S (in Ref. 2; AAK51616). {ECO:0000305}.	calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(14)|lung(30)|ovary(4)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	76			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCTGAGCAGAGAGGCGCTGG	0.701																																																0													37	53	47					5																	140573754		2191	4291	6482	SO:0001583	missense	56126			AF152489	CCDS4252.1	5q31.3	2010-06-15			ENSG00000120324	ENSG00000120324		"Cadherins / Protocadherins : Clustered"	8681	other	protocadherin		606336				10380929	Standard	NM_018930		Approved		uc003lix.3	Q9UN67	OTTHUMG00000129626	ENST00000239446.4:c.1629A>C	5.37:g.140573754A>C	ENSP00000239446:p.Arg543Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q96T99	Missense_Mutation	SNP	ENST00000239446.4	37	CCDS4252.1	1085	0.4967948717948718	272	0.5528455284552846	171	0.4723756906077348	330	0.5769230769230769	312	0.41160949868073876	a	3.278	-0.147626	0.06627	.	.	ENSG00000120324	ENST00000239446	T	0.46063	0.88	3.53	3.53	0.40419	Cadherin (5);Cadherin-like (1);	.	.	.	.	T	0.00012	0.0000	N	0.00005	-3.295	0.50467	P	1.2299999999998423E-4	B	0.02656	0.0	B	0.01281	0.0	T	0.47636	-0.9102	8	0.02654	T	1	.	7.2252	0.26012	0.1715:0.7353:0.0:0.0932	rs702386;rs17844583	543	Q9UN67	PCDBA_HUMAN	S	543	ENSP00000239446:R543S	ENSP00000239446:R543S	R	+	3	2	PCDHB10	140553938	0.001000	0.12720	1.000000	0.80357	0.970000	0.65996	0.307000	0.19296	0.852000	0.35287	-0.233000	0.12211	AGA		0.701	PCDHB10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251821.1	NM_018930		C	140573754	A	C	140573754	3	2	679	1	0	0	0	0	1	0	0	0	11542	301	11	5	1631	5	PCDHB10	5	140573754	Missense_Mutation	SNP	A	TCGA-KO-8408-01A-11D-2310-10	35	140573754	40341506	32	43852			1	123		5	4	10047	N	T_G_AG_A	1.780722e-05
ARSI	340075	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	149677902	149677902	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ccccaggccacattctcaccCtcgtgcaggtcgaagccgca	9	18	1	0			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr5:149677902C>A	ENST00000328668.7	-	2	1164	c.585G>T	c.(583-585)gaG>gaT	p.E195D		NM_001012301.2	NP_001012301.1	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I	195					cellular protein metabolic process (GO:0044267)|glycosphingolipid metabolic process (GO:0006687)|post-translational protein modification (GO:0043687)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	arylsulfatase activity (GO:0004065)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(11)|ovary(1)|pancreas(1)|skin(1)|urinary_tract(1)	23			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CATTCTCACCCTCGTGCAGGT	0.627																																																0													56	54	55					5																	149677902		2203	4300	6503	SO:0001583	missense	340075			AY875937	CCDS34275.1	5q32	2014-03-03	2006-03-07			ENSG00000183876		"Arylsulfatase family"	32521	protein-coding gene	gene with protein product		610009	"arylsulfatase I"			16174644, 24482476	Standard	NM_001012301		Approved	FLJ16069, SPG66	uc003lrv.2	Q5FYB1		ENST00000328668.7:c.585G>T	5.37:g.149677902C>A	ENSP00000333395:p.Glu195Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A1L3B0|B3KV22|B7XD03	Missense_Mutation	SNP	ENST00000328668.7	37	CCDS34275.1	.	.	.	.	.	.	.	.	.	.	C	0.123	-1.123024	0.01770	.	.	ENSG00000183876	ENST00000328668;ENST00000515301;ENST00000509146	D;D;D	0.96136	-3.92;-3.92;-3.92	4.32	2.52	0.30459	Alkaline phosphatase-like, alpha/beta/alpha (1);Sulfatase (1);Alkaline-phosphatase-like, core domain (1);	0.051777	0.85682	D	0.000000	D	0.85256	0.5655	N	0.11724	0.165	0.37798	D	0.927598	B	0.12013	0.005	B	0.22880	0.042	T	0.75028	-0.3462	10	0.02654	T	1	.	4.4599	0.11661	0.1488:0.5251:0.0:0.3261	.	195	Q5FYB1	ARSI_HUMAN	D	195;52;52	ENSP00000333395:E195D;ENSP00000426879:E52D;ENSP00000420955:E52D	ENSP00000333395:E195D	E	-	3	2	ARSI	149658095	0.049000	0.20398	0.998000	0.56505	0.927000	0.56198	-0.741000	0.04855	0.567000	0.29293	0.561000	0.74099	GAG		0.627	ARSI-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373681.1	NM_001012301		A	149677902	C	A	149677902	3	1	679	1	0	0	0	0	1	0	0	0	994	680	24	4	1128	4	ARSI	5	149677902	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	9104148	149677902	31237358	33	43853										
HLA-A	3105	mdanderson.org	37	chr6	29911240	29911240	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ggcccatgaggcggagcagtTgagagcctacctggatggca	16	10	0	2	rs9260156	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr6:29911240T>A	ENST00000396634.1	+	5	880	c.539T>A	c.(538-540)tTg>tAg	p.L180*	HLA-A_ENST00000376809.5_Nonsense_Mutation_p.L180*|HLA-A_ENST00000376802.2_Nonsense_Mutation_p.L180*|HLA-A_ENST00000376806.5_Nonsense_Mutation_p.L180*			P16189	1A31_HUMAN	major histocompatibility complex, class I, A	180	Alpha-2.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	beta-2-microglobulin binding (GO:0030881)|peptide antigen binding (GO:0042605)|TAP binding (GO:0046977)	p.L180*(1)		central_nervous_system(2)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	30						GCGGAGCAGTTGAGAGCCTAC	0.667									Osteosarcoma, Familial Clustering of;Naso-/Oropharyngeal/Laryngeal Cancer, Familial Clustering of;Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of	Multiple Myeloma(9;0.094)			N|||	1145	0.228634	0.025	0.2017	5008	,	,		12147	0.4732		0.1581	False		,,,				2504	0.3436															1	Substitution - Nonsense(1)	upper_aerodigestive_tract(1)											40	29	33					6																	29911240		1509	2695	4204	SO:0001587	stop_gained	3105	Familial Cancer Database	Familial Osteogenic Sarcoma;incl.: Familial Head and Neck Cancer; ;Lichen Sclerosis, Familial	D32129	CCDS34373.1	6p21.3	2013-01-11			ENSG00000206503	ENSG00000206503		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4931	protein-coding gene	gene with protein product		142800				8838351	Standard	NM_001242758		Approved		uc003nol.3	P01891	OTTHUMG00000130501	ENST00000396634.1:c.539T>A	6.37:g.29911240T>A	ENSP00000379873:p.Leu180*	Somatic		WXS	Illumina HiSeq	Phase_I	O62924|O98009|O98137|Q8MHM1|Q9TPQ3|Q9TQ24|Q9UQU6|Q9UQU7	Nonsense_Mutation	SNP	ENST00000396634.1	37	CCDS34373.1	605|605	0.27701465201465203|0.27701465201465203	57|57	0.11585365853658537|0.11585365853658537	97|97	0.26795580110497236|0.26795580110497236	282|282	0.493006993006993|0.493006993006993	169|169	0.22295514511873352|0.22295514511873352	.|.	25.5|25.5	4.639572|4.639572	0.87760|0.87760	.|.	.|.	ENSG00000206503|ENSG00000206503	ENST00000396634;ENST00000376806;ENST00000376809;ENST00000376802|ENST00000355767	.|.	.|.	.|.	3.78|3.78	-7.56|-7.56	0.01322|0.01322	.|.	4.873430|.	0.01566|.	U|.	0.020372|.	.|.	.|.	.|.	.|.	.|.	.|.	0.09310|0.09310	P|P	0.999999999738598|0.999999999738598	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	6.7832|6.7832	0.23659|0.23659	0.5534:0.0:0.1127:0.3339|0.5534:0.0:0.1127:0.3339	rs9260156;rs11539955;rs16896023;rs41555815|rs9260156;rs11539955;rs16896023;rs41555815	.|.	.|.	.|.	X|R	180|155	.|.	.|.	L|X	+|+	2|1	0|0	HLA-A|HLA-A	30019219|30019219	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.001000|0.001000	0.01503|0.01503	-12.720000|-12.720000	0.00001|0.00001	-3.712000|-3.712000	0.00117|0.00117	-2.599000|-2.599000	0.00162|0.00162	TTG|TGA		0.667	HLA-A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252909.1	NM_002116		A	29911240	T	A	29911240	4	1	679	1	0	0	0	0	0	1	0	0	7202	1821	63	5	549	5	HLA-A	6	29911240	Nonsense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10		29911240	141203827	34	43854										
HLA-B	3106	mdanderson.org	37	chr6	31324208	31324208	+	Missense_Mutation	SNP	G	G	T													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gcagccgtacatgctctggaGggtgtgagaccctggccccg					rs12721829	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr6:31324208G>T	ENST00000412585.2	-	3	383	c.355C>A	c.(355-357)Ctc>Atc	p.L119I		NM_005514.6	NP_005505.2	P30486	1B48_HUMAN	major histocompatibility complex, class I, B	119	Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|immune response (GO:0006955)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|viral process (GO:0016032)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|MHC class I protein complex (GO:0042612)	peptide antigen binding (GO:0042605)			endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(4)|lung(4)|prostate(1)|upper_aerodigestive_tract(2)	27						ATGCTCTGGAGGGTGTGAGAC	0.687									Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of																																							0													13	12	13					6																	31324208		1847	3958	5805	SO:0001583	missense	3106	Familial Cancer Database	;Lichen Sclerosis, Familial	M15470	CCDS34394.1	6p21.3	2013-01-11			ENSG00000234745	ENSG00000234745		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4932	protein-coding gene	gene with protein product		142830	"ankylosing spondylitis"	AS		3459708	Standard	NM_005514		Approved		uc011imz.2	P01889	OTTHUMG00000031153	ENST00000412585.2:c.355C>A	6.37:g.31324208G>T	ENSP00000399168:p.Leu119Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q29764	Missense_Mutation	SNP	ENST00000412585.2	37	CCDS34394.1	552	0.25274725274725274	118	0.23983739837398374	91	0.2513812154696133	125	0.21853146853146854	218	0.287598944591029	N	2.641	-0.284193	0.05605	.	.	ENSG00000234745	ENST00000412585;ENST00000434333	T;T	0.00892	5.57;5.57	3.18	-6.36	0.01969	MHC class I, alpha chain, alpha1/alpha2 (4);MHC classes I/II-like antigen recognition protein (2);MHC class I-like antigen recognition (2);	1978.090000	0.00496	N	0.000156	T	0.00039	0.0001	N	0.00251	-1.775	0.80722	P	0.0	B;B	0.02656	0.0;0.0	B;B	0.17433	0.014;0.018	T	0.48990	-0.8985	9	0.02654	T	1	.	0.6914	0.00892	0.2255:0.1723:0.3005:0.3017	rs12721829;rs17362043;rs17413629	119;119	P30480;P01889	1B42_HUMAN;1B07_HUMAN	I	119;130	ENSP00000399168:L119I;ENSP00000405931:L130I	ENSP00000399168:L119I	L	-	1	0	HLA-B	31432187	0.000000	0.05858	0.001000	0.08648	0.001000	0.01503	-11.162000	0.00004	-4.716000	0.00035	-2.639000	0.00152	CTC		0.687	HLA-B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076280.4	NM_005514		T	31324208	G	T	31324208	3	4	679	1	0	0	0	0	1	0	0	0	7203	1000	35	4	753	4	HLA-B	6	31324208	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	1412968	31324208	139790859	35	43855	448	2								
HLA-B	3106	mdanderson.org	37	chr6	31324210	31324210	+	Missense_Mutation	SNP	G	G	A													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	agccgtacatgctctggaggGtgtgagaccctggccccggc					rs12721827	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr6:31324210G>A	ENST00000412585.2	-	3	381	c.353C>T	c.(352-354)aCc>aTc	p.T118I		NM_005514.6	NP_005505.2	P30486	1B48_HUMAN	major histocompatibility complex, class I, B	118	Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|immune response (GO:0006955)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|viral process (GO:0016032)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|MHC class I protein complex (GO:0042612)	peptide antigen binding (GO:0042605)			endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(4)|lung(4)|prostate(1)|upper_aerodigestive_tract(2)	27						GCTCTGGAGGGTGTGAGACCC	0.687									Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of																																							0													13	12	12					6																	31324210		1874	3989	5863	SO:0001583	missense	3106	Familial Cancer Database	;Lichen Sclerosis, Familial	M15470	CCDS34394.1	6p21.3	2013-01-11			ENSG00000234745	ENSG00000234745		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4932	protein-coding gene	gene with protein product		142830	"ankylosing spondylitis"	AS		3459708	Standard	NM_005514		Approved		uc011imz.2	P01889	OTTHUMG00000031153	ENST00000412585.2:c.353C>T	6.37:g.31324210G>A	ENSP00000399168:p.Thr118Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q29764	Missense_Mutation	SNP	ENST00000412585.2	37	CCDS34394.1	547	0.25045787545787546	118	0.23983739837398374	90	0.24861878453038674	127	0.22202797202797203	212	0.2796833773087071	N	9.818	1.185018	0.21870	.	.	ENSG00000234745	ENST00000412585;ENST00000434333	T;T	0.00012	9.29;9.29	3.15	2.27	0.28462	MHC class I, alpha chain, alpha1/alpha2 (4);MHC classes I/II-like antigen recognition protein (2);MHC class I-like antigen recognition (2);	0.000000	0.37095	U	0.002257	T	0.00073	0.0002	M	0.86268	2.805	0.53005	P	3.399999999997849E-5	B;B	0.20550	0.046;0.011	B;B	0.39119	0.201;0.291	T	0.08827	-1.0703	9	0.52906	T	0.07	.	8.4711	0.32986	0.1204:0.0:0.8796:0.0	rs12721827;rs17416961	118;118	P30480;P01889	1B42_HUMAN;1B07_HUMAN	I	118;129	ENSP00000399168:T118I;ENSP00000405931:T129I	ENSP00000399168:T118I	T	-	2	0	HLA-B	31432189	0.988000	0.35896	0.715000	0.30552	0.003000	0.03518	2.069000	0.41481	0.697000	0.31718	-0.722000	0.03604	ACC		0.687	HLA-B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076280.4	NM_005514		A	31324210	G	A	31324210	3	1	679	1	0	0	0	0	1	0	0	0	7203	1261	44	2	755	2	HLA-B	6	31324210	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	2	31324210	139790857	36	43856	448	2								
HLA-B	3106	broad.mit.edu	37	chr6	31324488	31324489	+	Frame_Shift_Ins	INS	-	-	GG													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ctcgctctggttgtagtagcINScgcgcaggttccgcaggctc					rs554035740|rs375356947|rs3180380|rs41552715	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr6:31324488_31324489insGG	ENST00000412585.2	-	2	347_348	c.319_320insCC	c.(319-321)ggcfs	p.G107fs		NM_005514.6	NP_005505.2	P30486	1B48_HUMAN	major histocompatibility complex, class I, B	107	Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|immune response (GO:0006955)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|viral process (GO:0016032)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|MHC class I protein complex (GO:0042612)	peptide antigen binding (GO:0042605)			endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(4)|lung(4)|prostate(1)|upper_aerodigestive_tract(2)	27						GTTGTAGTAGCCGCGCAGGTTC	0.683									Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of																																							0										902,3226		186,530,1348						2.3	0.1		dbSNP_130	41	1339,6747		223,893,2927	no	frameshift	HLA-B	NM_005514.6		409,1423,4275	A1A1,A1R,RR		16.5595,21.8508,18.3478				2241,9973				SO:0001589	frameshift_variant	3106	Familial Cancer Database	;Lichen Sclerosis, Familial	M15470	CCDS34394.1	6p21.3	2013-01-11			ENSG00000234745	ENSG00000234745		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4932	protein-coding gene	gene with protein product		142830	"ankylosing spondylitis"	AS		3459708	Standard	NM_005514		Approved		uc011imz.2	P01889	OTTHUMG00000031153	ENST00000412585.2:c.319_320insCC	6.37:g.31324488_31324489insGG	ENSP00000399168:p.Gly107fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q29764	Frame_Shift_Ins	INS	ENST00000412585.2	37	CCDS34394.1																																																																																				0.683	HLA-B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076280.4	NM_005514		GG	31324489	-	GG	31324488	7	5	679	1	0	1	1	0	0	0	0	0	7203	739	26	0	792	0	HLA-B	6	31324488	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	278	31324488	139790579	37	43857										
SYNE1	23345	ucsc.edu	37	chr6	152577848	152577848	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	atttatcttgggttggcacgTcccctttgtacagtggcaca	10	10	1	0			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr6:152577848T>C	ENST00000367255.5	-	102	19626	c.19025A>G	c.(19024-19026)gAc>gGc	p.D6342G	SYNE1_ENST00000341594.5_Missense_Mutation_p.D5954G|SYNE1_ENST00000265368.4_Missense_Mutation_p.D6342G|SYNE1_ENST00000423061.1_Missense_Mutation_p.D6271G|SYNE1_ENST00000356820.4_Missense_Mutation_p.D866G|SYNE1_ENST00000448038.1_Missense_Mutation_p.D6271G	NM_182961.3	NP_892006.3	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6342					cell death (GO:0008219)|cytoskeletal anchoring at nuclear membrane (GO:0090286)|establishment of nucleus localization (GO:0040023)|Golgi organization (GO:0007030)|muscle cell differentiation (GO:0042692)|nuclear matrix anchoring at nuclear membrane (GO:0090292)|nucleus organization (GO:0006997)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|postsynaptic membrane (GO:0045211)|sarcomere (GO:0030017)|SUN-KASH complex (GO:0034993)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|lamin binding (GO:0005521)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)			NS(3)|biliary_tract(1)|breast(17)|central_nervous_system(21)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(4)|kidney(16)|large_intestine(138)|liver(1)|lung(190)|ovary(11)|pancreas(5)|prostate(12)|skin(20)|stomach(3)|upper_aerodigestive_tract(33)|urinary_tract(19)	524		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GGTTGGCACGTCCCCTTTGTA	0.473										HNSCC(10;0.0054)																																						0													179	149	159					6																	152577848		2203	4300	6503	SO:0001583	missense	23345			AB018339	CCDS5235.1, CCDS5236.1, CCDS5236.2	6q24.2-q25.3	2014-09-17			ENSG00000131018	ENSG00000131018			17089	protein-coding gene	gene with protein product	"myocyte nuclear envelope protein 1", "nuclear envelope spectrin repeat-1"	608441	"chromosome 6 open reading frame 98"	C6orf98		9872452, 10878022	Standard	NM_182961		Approved	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1	uc003qou.4	Q8NF91	OTTHUMG00000015841	ENST00000367255.5:c.19025A>G	6.37:g.152577848T>C	ENSP00000356224:p.Asp6342Gly	Somatic		WXS	Illumina HiSeq	Phase_I	E7EQI5|O94890|Q5JV19|Q5JV22|Q8N9P7|Q8TCP1|Q8WWW6|Q8WWW7|Q8WXF6|Q96N17|Q9C0A7|Q9H525|Q9H526|Q9NS36|Q9NU50|Q9UJ06|Q9UJ07|Q9ULF8	Missense_Mutation	SNP	ENST00000367255.5	37	CCDS5236.2	.	.	.	.	.	.	.	.	.	.	T	13.55	2.271004	0.40194	.	.	ENSG00000131018	ENST00000367255;ENST00000423061;ENST00000265368;ENST00000448038;ENST00000341594;ENST00000356820	T;T;T;T;T;T	0.55760	0.6;0.59;0.5;0.59;0.7;2.56	5.29	5.29	0.74685	.	0.398931	0.23718	N	0.045244	T	0.28962	0.0719	L	0.29908	0.895	0.40582	D	0.981402	B;B;P	0.36959	0.44;0.44;0.575	B;B;B	0.33620	0.08;0.08;0.167	T	0.34976	-0.9807	10	0.66056	D	0.02	.	15.5191	0.75851	0.0:0.0:0.0:1.0	.	6342;6342;6271	Q8NF91;E7EQI5;Q8NF91-4	SYNE1_HUMAN;.;.	G	6342;6271;6342;6271;5954;866	ENSP00000356224:D6342G;ENSP00000396024:D6271G;ENSP00000265368:D6342G;ENSP00000390975:D6271G;ENSP00000341887:D5954G;ENSP00000349276:D866G	ENSP00000265368:D6342G	D	-	2	0	SYNE1	152619541	1.000000	0.71417	0.487000	0.27428	0.370000	0.29829	6.003000	0.70701	2.128000	0.65567	0.528000	0.53228	GAC		0.473	SYNE1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000334755.2	NM_182961		C	152577848	T	C	152577848	3	2	679	1	0	0	0	0	1	0	0	0	15457	1667	58	3	7621	3	SYNE1	6	152577848	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10	121253360	152577848	18537219	38	43858										
C7orf50	84310	ucsc.edu	37	chr7	1167008	1167008	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tcacttcaggaacttttctcTtctgttttgccatcctgcaa	5	12	4	0			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:1167008T>C	ENST00000397098.3	-	2	940	c.14A>G	c.(13-15)aAg>aGg	p.K5R	C7orf50_ENST00000488073.1_5'UTR|C7orf50_ENST00000397100.2_Missense_Mutation_p.K5R|C7orf50_ENST00000357429.6_Missense_Mutation_p.K5R			Q9BRJ6	CG050_HUMAN	chromosome 7 open reading frame 50	5							poly(A) RNA binding (GO:0044822)			kidney(1)|large_intestine(1)|lung(3)|ovary(1)	6		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0216)|OV - Ovarian serous cystadenocarcinoma(56;1.3e-15)		AACTTTTCTCTTCTGTTTTGC	0.443																																																0													60	53	55					7																	1167008		2203	4300	6503	SO:0001583	missense	84310			BC006224	CCDS5320.1	7p22.3	2011-11-25			ENSG00000146540	ENSG00000146540			22421	protein-coding gene	gene with protein product							Standard	NM_032350		Approved	MGC11257, YCR016W	uc011jvu.1	Q9BRJ6	OTTHUMG00000151477	ENST00000397098.3:c.14A>G	7.37:g.1167008T>C	ENSP00000380286:p.Lys5Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000397098.3	37	CCDS5320.1	.	.	.	.	.	.	.	.	.	.	T	14.47	2.543912	0.45280	.	.	ENSG00000146540	ENST00000397100;ENST00000397098;ENST00000357429;ENST00000491163	.	.	.	3.68	3.68	0.42216	.	0.069851	0.53938	D	0.000047	T	0.36110	0.0955	L	0.27053	0.805	0.26005	N	0.98206	D	0.67145	0.996	P	0.57679	0.825	T	0.07635	-1.0762	9	0.37606	T	0.19	-16.775	9.0127	0.36150	0.0:0.0:0.0:1.0	.	5	Q9BRJ6	CG050_HUMAN	R	5	.	ENSP00000350011:K5R	K	-	2	0	C7orf50	1133534	1.000000	0.71417	1.000000	0.80357	0.824000	0.46624	2.740000	0.47418	1.902000	0.55061	0.533000	0.62120	AAG		0.443	C7orf50-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322817.3	NM_032350		C	1167008	T	C	1167008	3	2	679	1	0	0	0	0	1	0	0	0	2401	1609	56	3	586	3	C7orf50	7	1167008	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10		1167008	157971655	39	43859										
RADIL	55698	mdanderson.org	37	chr7	4841470	4841470	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	agcctgggagcccccacggcTgggttgccttccaggggggg	18	13	0	0	rs414035	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:4841470T>C	ENST00000399583.3	-	12	2843	c.2656A>G	c.(2656-2658)Agc>Ggc	p.S886G	RADIL_ENST00000538469.1_Missense_Mutation_p.S646G|RADIL_ENST00000536091.1_3'UTR	NM_018059.4	NP_060529.4	Q96JH8	RADIL_HUMAN	Ras association and DIL domains	886	Pro-rich.		S -> G (in dbSNP:rs414035). {ECO:0000269|PubMed:11230166, ECO:0000269|PubMed:11347906, ECO:0000269|PubMed:12690205, ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:17974005, ECO:0000269|Ref.6}.		multicellular organismal development (GO:0007275)|signal transduction (GO:0007165)|substrate adhesion-dependent cell spreading (GO:0034446)	microtubule (GO:0005874)				NS(1)|biliary_tract(2)|breast(1)|central_nervous_system(3)|endometrium(2)|large_intestine(2)|lung(22)|pancreas(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	41		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		CCCCCACGGCTGGGTTGCCTT	0.726													C|||	4990	0.996406	1.0	0.9885	5008	,	,		12822	1.0		0.9901	False		,,,				2504	1.0															0								C	GLY/SER	3271,3		1634,3,0	5	7	6		2656	0.2	0	7	dbSNP_80	6	7442,54		3694,54,0	no	missense	RADIL	NM_018059.4	56	5328,57,0	CC,CT,TT		0.7204,0.0916,0.5292	benign	886/1076	4841470	10713,57	1637	3748	5385	SO:0001583	missense	55698			AB058752	CCDS43544.1	7p22.1	2010-08-27			ENSG00000157927	ENSG00000157927			22226	protein-coding gene	gene with protein product		611491				16051602, 17704304	Standard	NM_018059		Approved	FLJ10324, KIAA1849, RASIP2	uc003snj.1	Q96JH8	OTTHUMG00000151753	ENST00000399583.3:c.2656A>G	7.37:g.4841470T>C	ENSP00000382492:p.Ser886Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1Z5|A5YM49|B7ZL20|Q0VFZ9|Q75LH3|Q9BSP5|Q9H0M6|Q9NW43|Q9NWC4	Missense_Mutation	SNP	ENST00000399583.3	37	CCDS43544.1	2176|2176	0.9963369963369964|0.9963369963369964	492|492	1.0|1.0	358|358	0.988950276243094|0.988950276243094	572|572	1.0|1.0	754|754	0.9947229551451188|0.9947229551451188	C|C	0.006|0.006	-2.029879|-2.029879	0.00410|0.00410	0.999084|0.999084	0.992796|0.992796	ENSG00000157927|ENSG00000157927	ENST00000544486|ENST00000399583;ENST00000316919;ENST00000538469	.|T;T	.|0.06687	.|3.34;3.27	4.94|4.94	0.203|0.203	0.15195|0.15195	.|.	.|1.064910	.|0.07231	.|N	.|0.862627	.|T	.|0.00012	.|0.0000	N|N	0.00210|0.00210	-1.845|-1.845	0.49687|0.49687	P|P	1.8300000000004424E-4|1.8300000000004424E-4	.|B;B	.|0.02656	.|0.0;0.0	.|B;B	.|0.04013	.|0.0;0.001	.|T	.|0.38394	.|-0.9663	.|9	.|0.12766	.|T	.|0.61	.|-6.6034	12.4289|12.4289	0.55563|0.55563	0.0:0.6455:0.0:0.3545|0.0:0.6455:0.0:0.3545	rs414035;rs10370995;rs57619776|rs414035;rs10370995;rs57619776	.|886;194	.|Q96JH8;Q75LH2	.|RADIL_HUMAN;.	.|G	-1|886;857;646	.|ENSP00000382492:S886G;ENSP00000442966:S646G	.|ENSP00000320946:S857G	.|S	-|-	.|1	.|0	RADIL|RADIL	4807996|4807996	0.007000|0.007000	0.16637|0.16637	0.000000|0.000000	0.03702|0.03702	0.001000|0.001000	0.01503|0.01503	-0.568000|-0.568000	0.05909|0.05909	-1.265000|-1.265000	0.02449|0.02449	-3.198000|-3.198000	0.00054|0.00054	.|AGC		0.726	RADIL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323769.2	NM_018059		C	4841470	T	C	4841470	3	2	679	1	0	0	0	0	1	0	0	0	13010	1580	55	3	587	3	RADIL	7	4841470	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10	3674462	4841470	154297193	40	43860										
TNRC18	84629	mdanderson.org	37	chr7	5353337	5353337	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gcgggtggtgcgggactgggCtgcggcggtgccgggcgcgc	24	11	0	0			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:5353337C>A	ENST00000430969.1	-	27	7533	c.7185G>T	c.(7183-7185)caG>caT	p.Q2395H	TNRC18_ENST00000399537.4_Missense_Mutation_p.Q2395H	NM_001080495.2	NP_001073964.2	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2395	Pro-rich.						chromatin binding (GO:0003682)			central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(8)	11		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		CGGGACTGGGCTGCGGCGGTG	0.701																																																0													10	13	12					7																	5353337		1560	3566	5126	SO:0001583	missense	84629			U80753	CCDS47534.1	7p22.1	2012-04-17			ENSG00000182095	ENSG00000182095		"Trinucleotide (CAG) repeat containing"	11962	protein-coding gene	gene with protein product						9225980	Standard	NM_001080495		Approved	CAGL79, TNRC18A, KIAA1856	uc003soi.4	O15417	OTTHUMG00000151831	ENST00000430969.1:c.7185G>T	7.37:g.5353337C>A	ENSP00000395538:p.Gln2395His	Somatic		WXS	Illumina HiSeq	Phase_I	A8MX41|Q96JH1|Q96K91	Missense_Mutation	SNP	ENST00000430969.1	37	CCDS47534.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	c|c	7.046|7.046	0.563541|0.563541	0.13498|0.13498	.|.	.|.	ENSG00000182095|ENSG00000182095	ENST00000328270|ENST00000399537;ENST00000430969	.|T;T	.|0.12879	.|2.65;2.64	4.73|4.73	1.92|1.92	0.25849|0.25849	.|.	.|0.000000	.|0.33023	.|N	.|0.005364	T|T	0.11024|0.11024	0.0269|0.0269	L|L	0.47716|0.47716	1.5|1.5	0.27352|0.27352	N|N	0.956201|0.956201	.|B	.|0.26120	.|0.142	.|B	.|0.19391	.|0.025	T|T	0.20107|0.20107	-1.0285|-1.0285	5|10	.|0.32370	.|T	.|0.25	.|.	8.3507|8.3507	0.32301|0.32301	0.0:0.7501:0.0:0.2499|0.0:0.7501:0.0:0.2499	.|.	.|2395	.|O15417	.|TNC18_HUMAN	S|H	209|2395	.|ENSP00000382452:Q2395H;ENSP00000395538:Q2395H	.|ENSP00000382452:Q2395H	A|Q	-|-	1|3	0|2	TNRC18|TNRC18	5319863|5319863	0.999000|0.999000	0.42202|0.42202	0.767000|0.767000	0.31495|0.31495	0.003000|0.003000	0.03518|0.03518	0.746000|0.746000	0.26275|0.26275	0.093000|0.093000	0.17368|0.17368	-0.258000|-0.258000	0.10820|0.10820	GCC|CAG		0.701	TNRC18-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding				A	5353337	C	A	5353337	3	1	679	1	0	0	0	0	1	0	0	0	16351	796	28	4	1737	4	TNRC18	7	5353337	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	511867	5353337	153785326	41	43861										
HIP1	3092	broad.mit.edu	37	chr7	75187548	75187549	+	Frame_Shift_Ins	INS	-	-	T													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ctatatcgctgttcattggcINSttgagctttccctgtattgt							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:75187548_75187549insT	ENST00000336926.6	-	15	1412_1413	c.1386_1387insA	c.(1384-1389)caagccfs	p.A463fs	HIP1_ENST00000434438.2_Frame_Shift_Ins_p.A463fs	NM_005338.5	NP_005329.3	O00291	HIP1_HUMAN	huntingtin interacting protein 1	463	pDED.				activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|cell differentiation (GO:0030154)|clathrin coat assembly (GO:0048268)|endocytosis (GO:0006897)|positive regulation of receptor-mediated endocytosis (GO:0048260)|regulation of apoptotic process (GO:0042981)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	clathrin-coated vesicle (GO:0030136)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)	clathrin binding (GO:0030276)|phosphatidylinositol binding (GO:0035091)|structural constituent of cytoskeleton (GO:0005200)			breast(3)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(25)|ovary(2)|pancreas(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	51						TGTTCATTGGCTTGAGCTTTCC	0.535			T	PDGFRB	CMML																																		Dom	yes		7	7q11.23	3092	huntingtin interacting protein 1		L	0																																										SO:0001589	frameshift_variant	3092			AF052288	CCDS34669.1, CCDS59060.1	7q11.23	2008-07-18			ENSG00000127946	ENSG00000127946			4913	protein-coding gene	gene with protein product		601767				9140394, 9147654	Standard	NM_005338		Approved	ILWEQ	uc003uds.2	O00291	OTTHUMG00000156050	ENST00000336926.6:c.1387dupA	7.37:g.75187550_75187550dupT	ENSP00000336747:p.Ala463fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3I7|E7ES17|O00328|Q2TB58|Q8TDL4	Frame_Shift_Ins	INS	ENST00000336926.6	37	CCDS34669.1																																																																																				0.535	HIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342863.2	NM_005338		T	75187549	-	T	75187548	7	5	679	1	0	1	1	0	0	0	0	0	7121	797	28	0	1794	0	HIP1	7	75187548	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	69834211	75187548	83951115	42	43862										
MDH2	4191	mdanderson.org	37	chr7	75677504	75677504	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ctccgccctcgcccggcctgCcagcgctgctctccgccgca	10	23	1	0	rs6720	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:75677504C>T	ENST00000315758.5	+	1	120	c.26C>T	c.(25-27)gCc>gTc	p.A9V	STYXL1_ENST00000460184.2_5'Flank|STYXL1_ENST00000360591.3_5'Flank|STYXL1_ENST00000451157.1_5'Flank|STYXL1_ENST00000359697.3_5'Flank|STYXL1_ENST00000431581.1_5'Flank|MDH2_ENST00000490105.1_3'UTR|STYXL1_ENST00000340062.5_5'Flank|MDH2_ENST00000432020.2_Missense_Mutation_p.A9V|MDH2_ENST00000443006.1_5'UTR|MDH2_ENST00000461263.2_Missense_Mutation_p.A9V|STYXL1_ENST00000248600.1_5'Flank	NM_005918.2	NP_005909.2	P40926	MDHM_HUMAN	malate dehydrogenase 2, NAD (mitochondrial)	9			A -> V (in dbSNP:rs17849553). {ECO:0000269|PubMed:15489334, ECO:0000269|Ref.1}.		carbohydrate metabolic process (GO:0005975)|cellular carbohydrate metabolic process (GO:0044262)|cellular metabolic process (GO:0044237)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|internal protein amino acid acetylation (GO:0006475)|malate metabolic process (GO:0006108)|NADH metabolic process (GO:0006734)|oxaloacetate metabolic process (GO:0006107)|small molecule metabolic process (GO:0044281)|tricarboxylic acid cycle (GO:0006099)	extracellular vesicular exosome (GO:0070062)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	L-malate dehydrogenase activity (GO:0030060)|malate dehydrogenase (NADP+) activity (GO:0046554)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(2)|lung(3)|ovary(1)|prostate(2)|skin(2)	14						GCCCGGCCTGCCAGCGCTGCT	0.741													c|||	2615	0.522165	0.7073	0.4164	5008	,	,		14327	0.6071		0.327	False		,,,				2504	0.4601															0								C	VAL/ALA	2410,1644		759,892,376	9	7	8		26	0.6	0	7	dbSNP_123	8	2255,5607		413,1429,2089	no	missense	MDH2	NM_005918.2	64	1172,2321,2465	TT,TC,CC		28.6823,40.5525,39.149	benign	9/339	75677504	4665,7251	2027	3931	5958	SO:0001583	missense	4191				CCDS5581.1, CCDS64691.1, CCDS75622.1	7q11.23	2013-09-20			ENSG00000146701	ENSG00000146701	1.1.1.37		6971	protein-coding gene	gene with protein product		154100					Standard	NM_005918		Approved		uc003ueo.3	P40926	OTTHUMG00000023827	ENST00000315758.5:c.26C>T	7.37:g.75677504C>T	ENSP00000327070:p.Ala9Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K414|B2RE78|B4DE44|E9PDB2|O43682	Missense_Mutation	SNP	ENST00000315758.5	37	CCDS5581.1	1104	0.5054945054945055	353	0.717479674796748	147	0.40607734806629836	356	0.6223776223776224	248	0.32717678100263853	C	15.67	2.903178	0.52333	0.594475	0.286823	ENSG00000146701	ENST00000315758;ENST00000432020	T;T	0.41758	0.99;0.99	5.57	0.558	0.17266	.	0.307415	0.35262	N	0.003322	T	0.00012	0.0000	L	0.33624	1.015	0.80722	P	0.0	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.34054	-0.9844	9	0.25751	T	0.34	-8.1463	9.0275	0.36239	0.0:0.6206:0.0:0.3794	rs6720	9;9	E9PDB2;P40926	.;MDHM_HUMAN	V	9	ENSP00000327070:A9V;ENSP00000408649:A9V	ENSP00000327070:A9V	A	+	2	0	MDH2	75515440	0.001000	0.12720	0.004000	0.12327	0.754000	0.42855	0.356000	0.20181	0.047000	0.15862	0.650000	0.86243	GCC		0.741	MDH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252851.1			T	75677504	C	T	75677504	3	4	679	1	0	0	0	0	1	0	0	0	9417	739	26	2	28	2	MDH2	7	75677504	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	489956	75677504	83461159	43	43863										
DTX2	113878	mdanderson.org	37	chr7	76112348	76112348	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gcgcccaggctgaacaccacCaacgcctggggcgcagctcc	12	18	0	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:76112348C>G	ENST00000324432.5	+	5	1302	c.792C>G	c.(790-792)acC>acG	p.T264T	DTX2_ENST00000413936.2_Silent_p.T264T|DTX2_ENST00000446600.1_Silent_p.T173T|DTX2_ENST00000446820.2_Silent_p.T264T|DTX2_ENST00000430490.2_Silent_p.T264T|DTX2_ENST00000307569.8_Silent_p.T264T	NM_020892.2	NP_065943.2	Q86UW9	DTX2_HUMAN	deltex 2, E3 ubiquitin ligase	264					Notch signaling pathway (GO:0007219)|protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)	ligase activity (GO:0016874)|zinc ion binding (GO:0008270)			NS(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(14)|ovary(1)|skin(1)|stomach(2)	27						TGAACACCACCAACGCCTGGG	0.672																																																0													66	77	74					7																	76112348		2203	4300	6503	SO:0001819	synonymous_variant	113878				CCDS5587.1, CCDS43605.1	7q11.23	2014-01-28	2014-01-28		ENSG00000091073	ENSG00000091073		"RING-type (C3HC4) zinc fingers"	15973	protein-coding gene	gene with protein product		613141	"deltex (Drosophila) homolog 2", "deltex homolog 2 (Drosophila)"			12670957	Standard	NM_020892		Approved	RNF58, KIAA1528	uc003ufh.4	Q86UW9	OTTHUMG00000162594	ENST00000324432.5:c.792C>G	7.37:g.76112348C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6XM87|Q6XM88|Q96H69|Q9H890|Q9P200	Silent	SNP	ENST00000324432.5	37	CCDS5587.1																																																																																				0.672	DTX2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000253104.2			G	76112348	C	G	76112348	2	3	679	1	0	0	0	0	0	0	0	1	4796	581	21	4		4	DTX2	7	76112348	Silent	SNP	C	TCGA-KO-8408-01A-11D-2310-10	434844	76112348	83026315	44	43864										
C7orf51	222950	broad.mit.edu	37	chr7	100084672	100084673	+	Frame_Shift_Ins	INS	-	-	G													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gtgtcgggggtggccctggcINSggggccagtgggggcctcac							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:100084672_100084673insG	ENST00000300179.2	+	3	456_457	c.297_298insG	c.(298-300)gggfs	p.G100fs	NYAP1_ENST00000454988.1_Frame_Shift_Ins_p.G43fs|NYAP1_ENST00000423930.1_Frame_Shift_Ins_p.G100fs	NM_173564.2	NP_775835.2	Q6ZVC0	NYAP1_HUMAN	neuronal tyrosine-phosphorylated phosphoinositide-3-kinase adaptor 1	100	Involved in CYFIP1- and NCKAP1-binding. {ECO:0000250}.				neuron projection morphogenesis (GO:0048812)|phosphatidylinositol 3-kinase signaling (GO:0014065)												GTGGCCCTGGCGGGGCCAGTGG	0.723																																																0																																										SO:0001589	frameshift_variant	222950			AK094857	CCDS5696.1	7q22.1	2011-11-30	2011-11-30	2011-11-30	ENSG00000166924	ENSG00000166924			22009	protein-coding gene	gene with protein product		615477	"chromosome 7 open reading frame 51", "KIAA1486-like"	C7orf51, KIAA1486L		21946561	Standard	NM_173564		Approved	FLJ37538	uc003uvd.2	Q6ZVC0	OTTHUMG00000155290	ENST00000300179.2:c.301dupG	7.37:g.100084676_100084676dupG	ENSP00000300179:p.Gly100fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6U9Y3|Q8N1V0	Frame_Shift_Ins	INS	ENST00000300179.2	37	CCDS5696.1																																																																																				0.723	NYAP1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000339335.2	NM_173564		G	100084673	-	G	100084672	7	5	679	1	0	1	1	0	0	0	0	0	2402	755	27	0	303	0	C7orf51	7	100084672	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	23972324	100084672	59053991	45	43865										
PCOLCE	5118	broad.mit.edu;hgsc.bcm.edu	37	chr7	100204166	100204166	+	Frame_Shift_Del	DEL	G	G	-													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ccaaagaagggcaagggcccGgccccaaacggggaactgag							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:100204166delG	ENST00000223061.5	+	6	1133	c.853delG	c.(853-855)ggcfs	p.G285fs	PCOLCE-AS1_ENST00000442166.2_RNA|PCOLCE-AS1_ENST00000446022.1_RNA	NM_002593.3	NP_002584.2	Q15113	PCOC1_HUMAN	procollagen C-endopeptidase enhancer	285					multicellular organismal development (GO:0007275)|positive regulation of peptidase activity (GO:0010952)|proteolysis (GO:0006508)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	collagen binding (GO:0005518)|heparin binding (GO:0008201)|peptidase activator activity (GO:0016504)			breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(11)|ovary(1)|skin(2)|upper_aerodigestive_tract(3)	23	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					GCAAGGGCCCGGCCCCAAACG	0.602																																																0													44	47	46					7																	100204166		2203	4300	6503	SO:0001589	frameshift_variant	5118			L33799	CCDS5700.1	7q22	2008-07-18			ENSG00000106333	ENSG00000106333			8738	protein-coding gene	gene with protein product	"procollagen, type 1, COOH-terminal proteinase enhancer", "procollagen C-proteinase enhancer 1"	600270				8824813, 9799793	Standard	NM_002593		Approved	PCPE, PCPE1	uc003uvo.3	Q15113	OTTHUMG00000156675	ENST00000223061.5:c.853delG	7.37:g.100204166delG	ENSP00000223061:p.Gly285fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9E1|O14550	Frame_Shift_Del	DEL	ENST00000223061.5	37	CCDS5700.1																																																																																				0.602	PCOLCE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345285.1	NM_002593		-	100204166	G	-	100204166	7	5	679	1	0	1	0	1	0	0	0	0	11601	1116	39	0	875	0	PCOLCE	7	100204166	Frame_Shift_Del	DEL	G	TCGA-KO-8408-01A-11D-2310-10	119494	100204166	58934497	46	43866	449	3								
PCOLCE	5118	bcgsc.ca	37	chr7	100204167	100204167	+	Frame_Shift_Del	DEL	G	G	-													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	caaagaagggcaagggcccgGccccaaacggggaactgagc							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:100204167delG	ENST00000223061.5	+	6	1134	c.854delG	c.(853-855)ggcfs	p.G285fs	PCOLCE-AS1_ENST00000442166.2_RNA|PCOLCE-AS1_ENST00000446022.1_RNA	NM_002593.3	NP_002584.2	Q15113	PCOC1_HUMAN	procollagen C-endopeptidase enhancer	285					multicellular organismal development (GO:0007275)|positive regulation of peptidase activity (GO:0010952)|proteolysis (GO:0006508)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	collagen binding (GO:0005518)|heparin binding (GO:0008201)|peptidase activator activity (GO:0016504)			breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(11)|ovary(1)|skin(2)|upper_aerodigestive_tract(3)	23	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					CAAGGGCCCGGCCCCAAACGG	0.597																																																0													44	47	46					7																	100204167		2203	4300	6503	SO:0001589	frameshift_variant	5118			L33799	CCDS5700.1	7q22	2008-07-18			ENSG00000106333	ENSG00000106333			8738	protein-coding gene	gene with protein product	"procollagen, type 1, COOH-terminal proteinase enhancer", "procollagen C-proteinase enhancer 1"	600270				8824813, 9799793	Standard	NM_002593		Approved	PCPE, PCPE1	uc003uvo.3	Q15113	OTTHUMG00000156675	ENST00000223061.5:c.854delG	7.37:g.100204167delG	ENSP00000223061:p.Gly285fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9E1|O14550	Frame_Shift_Del	DEL	ENST00000223061.5	37	CCDS5700.1																																																																																				0.597	PCOLCE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345285.1	NM_002593		-	100204167	G	-	100204167	7	5	679	1	0	1	0	1	0	0	0	0	11601	1203	42	0	876	0	PCOLCE	7	100204167	Frame_Shift_Del	DEL	G	TCGA-KO-8408-01A-11D-2310-10	1	100204167	58934496	47	43867	449	3								
PCOLCE	5118	hgsc.bcm.edu	37	chr7	100204168	100204168	+	Silent	SNP	C	C	A													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	aaagaagggcaagggcccggCcccaaacggggaactgagcc							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:100204168C>A	ENST00000223061.5	+	6	1135	c.855C>A	c.(853-855)ggC>ggA	p.G285G	PCOLCE-AS1_ENST00000442166.2_RNA|PCOLCE-AS1_ENST00000446022.1_RNA	NM_002593.3	NP_002584.2	Q15113	PCOC1_HUMAN	procollagen C-endopeptidase enhancer	285					multicellular organismal development (GO:0007275)|positive regulation of peptidase activity (GO:0010952)|proteolysis (GO:0006508)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	collagen binding (GO:0005518)|heparin binding (GO:0008201)|peptidase activator activity (GO:0016504)			breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(11)|ovary(1)|skin(2)|upper_aerodigestive_tract(3)	23	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					AAGGGCCCGGCCCCAAACGGG	0.597																																																0													45	47	46					7																	100204168		2203	4300	6503	SO:0001819	synonymous_variant	5118			L33799	CCDS5700.1	7q22	2008-07-18			ENSG00000106333	ENSG00000106333			8738	protein-coding gene	gene with protein product	"procollagen, type 1, COOH-terminal proteinase enhancer", "procollagen C-proteinase enhancer 1"	600270				8824813, 9799793	Standard	NM_002593		Approved	PCPE, PCPE1	uc003uvo.3	Q15113	OTTHUMG00000156675	ENST00000223061.5:c.855C>A	7.37:g.100204168C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9E1|O14550	Silent	SNP	ENST00000223061.5	37	CCDS5700.1																																																																																				0.597	PCOLCE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345285.1	NM_002593		A	100204168	C	A	100204168	2	1	679	1	0	0	0	0	0	0	0	1	11601	726	26	4		4	PCOLCE	7	100204168	Silent	SNP	C	TCGA-KO-8408-01A-11D-2310-10	1	100204168	58934495	48	43868	449	3								
ZAN	7455	bcgsc.ca	37	chr7	100334192	100334192	+	RNA	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cagacgatgaagactgggttCgagccagtgggccctctccc	13	13	1	3	rs200760090		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:100334192C>T	ENST00000348028.3	+	0	358				ZAN_ENST00000538115.1_RNA|ZAN_ENST00000427578.1_RNA|ZAN_ENST00000443370.1_RNA|ZAN_ENST00000546213.1_RNA|ZAN_ENST00000421100.1_RNA|ZAN_ENST00000349350.6_RNA|ZAN_ENST00000449052.1_RNA|ZAN_ENST00000542585.1_RNA|ZAN_ENST00000546292.1_RNA			Q9Y493	ZAN_HUMAN	zonadhesin (gene/pseudogene)						binding of sperm to zona pellucida (GO:0007339)|single organismal cell-cell adhesion (GO:0016337)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)		p.R65*(1)		NS(2)|breast(3)|central_nervous_system(3)|endometrium(21)|kidney(6)|large_intestine(18)|lung(60)|ovary(4)|pancreas(3)|prostate(5)|skin(8)|stomach(3)|upper_aerodigestive_tract(3)	139	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			AGACTGGGTTCGAGCCAGTGG	0.622																																																1	Substitution - Nonsense(1)	large_intestine(1)						C	stop/ARG,stop/ARG	0,3648		0,0,1824	82	80	80		193,193	4.7	0.5	7		80	2,7762		0,2,3880	yes	stop-gained,stop-gained	ZAN	NM_003386.1,NM_173059.1	,	0,2,5704	TT,TC,CC		0.0258,0.0,0.0175	,	65/2813,65/2722	100334192	2,11410	1824	3882	5706			7455			U83191		7q22.1	2013-10-10	2013-10-10		ENSG00000146839	ENSG00000146839			12857	protein-coding gene	gene with protein product		602372	"zonadhesin"			9799793, 17033959	Standard	NM_003386		Approved		uc003uwk.3	Q9Y493	OTTHUMG00000157037		7.37:g.100334192C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0FKC8|D6W5W4|O00218|Q96L85|Q96L86|Q96L87|Q96L88|Q96L89|Q96L90|Q9BXN9|Q9BZ83|Q9BZ84|Q9BZ85|Q9BZ86|Q9BZ87|Q9BZ88	Nonsense_Mutation	SNP	ENST00000348028.3	37		.	.	.	.	.	.	.	.	.	.	C	27.9	4.869836	0.91587	0.0	2.58E-4	ENSG00000146839	ENST00000546292;ENST00000538115;ENST00000542585	.	.	.	4.7	4.7	0.59300	.	0.000000	0.29009	N	0.013438	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	13.8686	0.63603	0.0:1.0:0.0:0.0	.	.	.	.	X	65	.	ENSP00000423579:R65X	R	+	1	2	ZAN	100172128	0.062000	0.20869	0.490000	0.27465	0.318000	0.28184	2.025000	0.41059	2.551000	0.86045	0.561000	0.74099	CGA		0.622	ZAN-006	KNOWN	basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000347214.1	NM_003386		T	100334192	C	T	100334192	1	4	679	0	1	0	0	0	0	0	0	0	17525	876	31	1		1	ZAN	7	100334192	RNA	SNP	C	TCGA-KO-8408-01A-11D-2310-10	130024	100334192	58804471	49	43869										
ZAN	7455	broad.mit.edu	37	chr7	100349927	100349927	+	RNA	DEL	C	C	-													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cccacagaaaaatccaccatCtccccagaaaaacccaccac							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:100349927delC	ENST00000348028.3	+	0	2364				ZAN_ENST00000538115.1_RNA|ZAN_ENST00000427578.1_RNA|ZAN_ENST00000443370.1_RNA|ZAN_ENST00000546213.1_RNA|ZAN_ENST00000421100.1_RNA|ZAN_ENST00000349350.6_RNA|ZAN_ENST00000449052.1_RNA|ZAN_ENST00000542585.1_RNA|ZAN_ENST00000546292.1_RNA			Q9Y493	ZAN_HUMAN	zonadhesin (gene/pseudogene)						binding of sperm to zona pellucida (GO:0007339)|single organismal cell-cell adhesion (GO:0016337)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(2)|breast(3)|central_nervous_system(3)|endometrium(21)|kidney(6)|large_intestine(18)|lung(60)|ovary(4)|pancreas(3)|prostate(5)|skin(8)|stomach(3)|upper_aerodigestive_tract(3)	139	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			AATCCACCATCTCCCCAGAAA	0.512																																																0													133	148	143					7																	100349927		1823	4070	5893			7455			U83191		7q22.1	2013-10-10	2013-10-10		ENSG00000146839	ENSG00000146839			12857	protein-coding gene	gene with protein product		602372	"zonadhesin"			9799793, 17033959	Standard	NM_003386		Approved		uc003uwk.3	Q9Y493	OTTHUMG00000157037		7.37:g.100349927delC		Somatic		WXS	Illumina HiSeq	Phase_I	A0FKC8|D6W5W4|O00218|Q96L85|Q96L86|Q96L87|Q96L88|Q96L89|Q96L90|Q9BXN9|Q9BZ83|Q9BZ84|Q9BZ85|Q9BZ86|Q9BZ87|Q9BZ88	Frame_Shift_Del	DEL	ENST00000348028.3	37																																																																																					0.512	ZAN-006	KNOWN	basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000347214.1	NM_003386		-	100349927	C	-	100349927	6	5	679	0	1	1	0	1	0	0	0	0	17525	903	32	0		0	ZAN	7	100349927	RNA	DEL	C	TCGA-KO-8408-01A-11D-2310-10	15735	100349927	58788736	50	43870	450	2								
ZAN	7455	broad.mit.edu	37	chr7	100349931	100349932	+	RNA	INS	-	-	T													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	agaaaaatccaccatctcccINScagaaaaacccaccaccccc					rs376016003		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:100349931_100349932insT	ENST00000348028.3	+	0	2368_2369				ZAN_ENST00000538115.1_RNA|ZAN_ENST00000427578.1_RNA|ZAN_ENST00000443370.1_RNA|ZAN_ENST00000546213.1_RNA|ZAN_ENST00000421100.1_RNA|ZAN_ENST00000349350.6_RNA|ZAN_ENST00000449052.1_RNA|ZAN_ENST00000542585.1_RNA|ZAN_ENST00000546292.1_RNA			Q9Y493	ZAN_HUMAN	zonadhesin (gene/pseudogene)						binding of sperm to zona pellucida (GO:0007339)|single organismal cell-cell adhesion (GO:0016337)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(2)|breast(3)|central_nervous_system(3)|endometrium(21)|kidney(6)|large_intestine(18)|lung(60)|ovary(4)|pancreas(3)|prostate(5)|skin(8)|stomach(3)|upper_aerodigestive_tract(3)	139	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CACCATCTCCCCAGAAAAACCC	0.515																																																0																																												7455			U83191		7q22.1	2013-10-10	2013-10-10		ENSG00000146839	ENSG00000146839			12857	protein-coding gene	gene with protein product		602372	"zonadhesin"			9799793, 17033959	Standard	NM_003386		Approved		uc003uwk.3	Q9Y493	OTTHUMG00000157037		7.37:g.100349931_100349932insT		Somatic		WXS	Illumina HiSeq	Phase_I	A0FKC8|D6W5W4|O00218|Q96L85|Q96L86|Q96L87|Q96L88|Q96L89|Q96L90|Q9BXN9|Q9BZ83|Q9BZ84|Q9BZ85|Q9BZ86|Q9BZ87|Q9BZ88	Frame_Shift_Ins	INS	ENST00000348028.3	37																																																																																					0.515	ZAN-006	KNOWN	basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000347214.1	NM_003386		T	100349932	-	T	100349931	6	5	679	0	1	1	1	0	0	0	0	0	17525	623	22	0		0	ZAN	7	100349931	RNA	INS	-	TCGA-KO-8408-01A-11D-2310-10	4	100349931	58788732	51	43871	450	2								
PLXNA4	91584	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	131913154	131913154	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tgttgggatggaccgtcagcCggacacactgcttcatctcc	11	13	3	0			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:131913154C>T	ENST00000359827.3	-	6	2641	c.1679G>A	c.(1678-1680)cGg>cAg	p.R560Q	PLXNA4_ENST00000321063.4_Missense_Mutation_p.R560Q			Q9HCM2	PLXA4_HUMAN	plexin A4	560					anterior commissure morphogenesis (GO:0021960)|axon guidance (GO:0007411)|chemorepulsion of branchiomotor axon (GO:0021793)|facial nerve structural organization (GO:0021612)|glossopharyngeal nerve morphogenesis (GO:0021615)|postganglionic parasympathetic nervous system development (GO:0021784)|regulation of axon extension involved in axon guidance (GO:0048841)|regulation of negative chemotaxis (GO:0050923)|semaphorin-plexin signaling pathway (GO:0071526)|semaphorin-plexin signaling pathway involved in axon guidance (GO:1902287)|sympathetic nervous system development (GO:0048485)|trigeminal nerve structural organization (GO:0021637)|vagus nerve morphogenesis (GO:0021644)	integral component of membrane (GO:0016021)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|semaphorin receptor complex (GO:0002116)	semaphorin receptor activity (GO:0017154)			NS(1)|breast(1)|endometrium(3)|kidney(4)|large_intestine(14)|lung(17)|ovary(1)|prostate(2)|skin(1)|stomach(1)	45						GACCGTCAGCCGGACACACTG	0.592																																																0													82	87	85					7																	131913154		1987	4171	6158	SO:0001583	missense	91584			AB046770, AK123428	CCDS5826.1, CCDS43646.1, CCDS43647.1	7q32.3	2007-09-26	2007-09-26	2007-09-26	ENSG00000221866	ENSG00000221866		"Plexins"	9102	protein-coding gene	gene with protein product		604280	"plexin A4, A", "plexin A4, B"	PLXNA4A, PLXNA4B			Standard	NM_181775		Approved	KIAA1550, DKFZp434G0625PRO34003, FAYV2820	uc003vra.4	Q9HCM2	OTTHUMG00000155108	ENST00000359827.3:c.1679G>A	7.37:g.131913154C>T	ENSP00000352882:p.Arg560Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1N6|E9PAM2|Q6UWC6|Q6ZW89|Q8N969|Q8ND00|Q8NEN3|Q9NTD4	Missense_Mutation	SNP	ENST00000359827.3	37	CCDS43646.1	.	.	.	.	.	.	.	.	.	.	C	11.68	1.711357	0.30322	.	.	ENSG00000221866	ENST00000321063;ENST00000359827	T;T	0.21361	2.01;2.01	5.91	5.91	0.95273	.	0.000000	0.85682	D	0.000000	T	0.12902	0.0313	N	0.08118	0	0.80722	D	1	B	0.19935	0.04	B	0.10450	0.005	T	0.19582	-1.0301	10	0.11794	T	0.64	.	20.2985	0.98592	0.0:1.0:0.0:0.0	.	560	Q9HCM2	PLXA4_HUMAN	Q	560	ENSP00000323194:R560Q;ENSP00000352882:R560Q	ENSP00000323194:R560Q	R	-	2	0	PLXNA4	131563694	0.998000	0.40836	1.000000	0.80357	0.976000	0.68499	2.067000	0.41461	2.793000	0.96121	0.655000	0.94253	CGG		0.592	PLXNA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338422.2	NM_181775		T	131913154	C	T	131913154	3	4	679	1	0	0	0	0	1	0	0	0	12129	652	23	1	4113	1	PLXNA4	7	131913154	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	31563223	131913154	27225509	52	43872										
SLC35B4	84912	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr7	133986798	133986798	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	taccacctgctttgctgacaTaaaagtgcaaataaatatcc	5	10	0	1	rs377475240		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:133986798T>A	ENST00000378509.4	-	5	708	c.409A>T	c.(409-411)Atg>Ttg	p.M137L		NM_032826.4	NP_116215.1	Q969S0	S35B4_HUMAN	solute carrier family 35 (UDP-xylose/UDP-N-acetylglucosamine transporter), member B4	137					carbohydrate transport (GO:0008643)|regulation of gluconeogenesis (GO:0006111)|transmembrane transport (GO:0055085)|UDP-N-acetylglucosamine transport (GO:0015788)|UDP-xylose transport (GO:0015790)	Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	UDP-N-acetylglucosamine transmembrane transporter activity (GO:0005462)|UDP-xylose transmembrane transporter activity (GO:0005464)			large_intestine(1)|lung(2)|skin(1)|stomach(1)	5						TTTGCTGACATAAAAGTGCAA	0.343																																																0													77	84	82					7																	133986798		2203	4300	6503	SO:0001583	missense	84912			AB052892	CCDS34756.1	7q33	2013-07-17	2013-07-17		ENSG00000205060	ENSG00000205060		"Solute carriers"	20584	protein-coding gene	gene with protein product		610923	"solute carrier family 35, member B4"				Standard	NM_032826		Approved	FLJ14697, YEA4	uc003vrn.3	Q969S0	OTTHUMG00000155321	ENST00000378509.4:c.409A>T	7.37:g.133986798T>A	ENSP00000367770:p.Met137Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1P3|A6NNS4|Q53GQ7|Q8TCU7|Q96K33	Missense_Mutation	SNP	ENST00000378509.4	37	CCDS34756.1	.	.	.	.	.	.	.	.	.	.	T	15.03	2.712721	0.48517	.	.	ENSG00000205060	ENST00000378509	T	0.68181	-0.31	5.84	5.84	0.93424	.	0.000000	0.85682	D	0.000000	T	0.59810	0.2221	L	0.48362	1.52	0.80722	D	1	B;B;B	0.29646	0.253;0.128;0.155	B;B;B	0.31495	0.115;0.08;0.131	T	0.56214	-0.8016	10	0.11182	T	0.66	-1.4447	15.8874	0.79261	0.0:0.0:0.0:1.0	.	137;137;137	Q969S0-3;Q969S0-2;Q969S0	.;.;S35B4_HUMAN	L	137	ENSP00000367770:M137L	ENSP00000367770:M137L	M	-	1	0	SLC35B4	133637338	1.000000	0.71417	1.000000	0.80357	0.839000	0.47603	7.598000	0.82745	2.230000	0.72887	0.528000	0.53228	ATG		0.343	SLC35B4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000339444.2	NM_032826		A	133986798	T	A	133986798	3	1	679	1	0	0	0	0	1	0	0	0	14591	1406	49	5	610	5	SLC35B4	7	133986798	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10	2073644	133986798	25151865	53	43873										
PDIA4	9601	mdanderson.org	37	chr7	148725417	148725417	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cgcgcttgccgctcaccctcGtccgggccctcggcacccgc	11	22	1	0	rs368592590	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:148725417G>T	ENST00000286091.4	-	1	316	c.84C>A	c.(82-84)gaC>gaA	p.D28E		NM_004911.4	NP_004902.1	P13667	PDIA4_HUMAN	protein disulfide isomerase family A, member 4	28	Thioredoxin 1. {ECO:0000255|PROSITE- ProRule:PRU00691}.				cell redox homeostasis (GO:0045454)|chaperone-mediated protein folding (GO:0061077)|protein folding (GO:0006457)|protein secretion (GO:0009306)|response to endoplasmic reticulum stress (GO:0034976)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum lumen (GO:0005788)	poly(A) RNA binding (GO:0044822)|protein disulfide isomerase activity (GO:0003756)			large_intestine(6)|lung(15)|ovary(2)|prostate(1)	24	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00385)			GCTCACCCTCGTCCGGGCCCT	0.766													G|||	3	0.000599042	0.0	0.0	5008	,	,		9672	0.0		0.003	False		,,,				2504	0.0															0								G	GLU/ASP	2,3246		0,2,1622	4	6	6		84	4.7	0.9	7		6	6,5918		0,6,2956	no	missense	PDIA4	NM_004911.4	45	0,8,4578	TT,TG,GG		0.1013,0.0616,0.0872	benign	28/646	148725417	8,9164	1624	2962	4586	SO:0001583	missense	9601			BC001928	CCDS5893.1	7q35	2009-11-20	2005-06-29		ENSG00000155660	ENSG00000155660	5.3.4.1	"Protein disulfide isomerases"	30167	protein-coding gene	gene with protein product			"protein disulfide isomerase-associated 4"			2549034, 2002068	Standard	NM_004911		Approved	ERP70, ERP72	uc003wff.2	P13667	OTTHUMG00000150248	ENST00000286091.4:c.84C>A	7.37:g.148725417G>T	ENSP00000286091:p.Asp28Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4K6|Q549T6	Missense_Mutation	SNP	ENST00000286091.4	37	CCDS5893.1	.	.	.	.	.	.	.	.	.	.	G	5.261	0.233586	0.09969	6.16E-4	0.001013	ENSG00000155660	ENST00000286091;ENST00000413966	T;T	0.45668	2.28;0.89	5.58	4.69	0.59074	Thioredoxin-like fold (1);	1.385570	0.04197	N	0.329265	T	0.25195	0.0612	N	0.08118	0	0.24603	N	0.993766	B	0.20887	0.049	B	0.17979	0.02	T	0.12066	-1.0562	10	0.02654	T	1	.	11.8705	0.52517	0.0822:0.0:0.9178:0.0	.	28	P13667	PDIA4_HUMAN	E	28	ENSP00000286091:D28E;ENSP00000408628:D28E	ENSP00000286091:D28E	D	-	3	2	PDIA4	148356350	0.691000	0.27709	0.932000	0.37286	0.283000	0.27025	1.045000	0.30341	1.344000	0.45657	0.655000	0.94253	GAC		0.766	PDIA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317077.1	NM_004911		T	148725417	G	T	148725417	3	4	679	1	0	0	0	0	1	0	0	0	11677	1136	40	4	1893	4	PDIA4	7	148725417	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	14738619	148725417	10413246	54	43874										
KRBA1	84626	broad.mit.edu	37	chr7	149430350	149430351	+	Frame_Shift_Ins	INS	-	-	C													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ctgagctgcccagtgagtctINSccccctccggagctgccccc							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:149430350_149430351insC	ENST00000485033.2	+	15	2124_2125	c.2124_2125insC	c.(2125-2127)cccfs	p.P709fs	KRBA1_ENST00000479560.1_3'UTR|KRBA1_ENST00000319551.8_Frame_Shift_Ins_p.P709fs|KRBA1_ENST00000255992.10_Frame_Shift_Ins_p.P769fs			A5PL33	KRBA1_HUMAN	KRAB-A domain containing 1	770	Pro-rich.									breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(17)|ovary(1)|prostate(1)	27	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCAGTGAGTCTCCCCCTCCGGA	0.653																																																0																																										SO:0001589	frameshift_variant	84626			AB058765	CCDS75674.1	7q36	2014-02-12	2006-08-15		ENSG00000133619	ENSG00000133619		"-"	22228	protein-coding gene	gene with protein product			"KRAB A domain containing 1"				Standard	NM_001290187		Approved	KIAA1862	uc003wfz.3	A5PL33	OTTHUMG00000157886	ENST00000485033.2:c.2129dupC	7.37:g.149430355_149430355dupC	ENSP00000420112:p.Pro709fs	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2F5|E7ENE9|Q8N4X0|Q96JG5	Frame_Shift_Ins	INS	ENST00000485033.2	37																																																																																					0.653	KRBA1-004	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000349841.3	NM_032534		C	149430351	-	C	149430350	7	5	679	1	0	1	1	0	0	0	0	0	8446	1538	54	0	2368	0	KRBA1	7	149430350	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	704933	149430350	9708313	55	43875										
ACTR3B	57180	mdanderson.org	37	chr7	152522195	152522195	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tgccccatcgatgtgcggcgCccgctgtataaggtatgagc	13	12	0	1	rs200914813	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr7:152522195C>T	ENST00000256001.8	+	9	1073	c.939C>T	c.(937-939)cgC>cgT	p.R313R	ACTR3B_ENST00000397282.2_Silent_p.R225R|ACTR3B_ENST00000537264.1_Silent_p.R225R|ACTR3B_ENST00000377776.3_Silent_p.R313R	NM_020445.5	NP_065178.1	Q9P1U1	ARP3B_HUMAN	ARP3 actin-related protein 3 homolog B (yeast)	313						cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)			breast(1)|kidney(1)|large_intestine(1)|lung(8)|ovary(1)|prostate(1)	13		all_hematologic(28;0.0592)|Prostate(32;0.191)	OV - Ovarian serous cystadenocarcinoma(82;0.0287)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0434)		ATGTGCGGCGCCCGCTGTATA	0.413																																																0													85	79	81					7																	152522195		2203	4300	6503	SO:0001819	synonymous_variant	57180				CCDS5934.1, CCDS34782.1	7q36.1	2010-07-20			ENSG00000133627	ENSG00000133627			17256	protein-coding gene	gene with protein product						10806390	Standard	NM_001040135		Approved	ARP11, ARP3beta	uc003wle.2	Q9P1U1	OTTHUMG00000151463	ENST00000256001.8:c.939C>T	7.37:g.152522195C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MTG1|B4DFW4|Q7Z526|Q96BT2	Silent	SNP	ENST00000256001.8	37	CCDS5934.1																																																																																				0.413	ACTR3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322803.1	NM_020445		T	152522195	C	T	152522195	2	4	679	1	0	0	0	0	0	0	0	1	213	726	26	2		2	ACTR3B	7	152522195	Silent	SNP	C	TCGA-KO-8408-01A-11D-2310-10	3091845	152522195	6616468	56	43876										
HR	55806	broad.mit.edu	37	chr8	21980059	21980060	+	Frame_Shift_Ins	INS	-	-	G													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gcatcagcttggcaggggcaINSgtgcccccggatatcaaact							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr8:21980059_21980060insG	ENST00000381418.4	-	8	3547_3548	c.2067_2068insC	c.(2065-2070)cactgcfs	p.C690fs	HR_ENST00000312841.8_Frame_Shift_Ins_p.C690fs	NM_005144.4	NP_005135.2	O43593	HAIR_HUMAN	hair growth associated	690					negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nuclear body (GO:0016604)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|oxidoreductase activity (GO:0016491)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(12)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)	27		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		TGGCAGGGGCAGTGCCCCCGGA	0.639																																																0																																										SO:0001589	frameshift_variant	55806			AF039196	CCDS6022.1, CCDS6023.1	8p12	2012-12-07	2012-12-07		ENSG00000168453	ENSG00000168453			5172	protein-coding gene	gene with protein product		602302	"hairless (mouse) homolog", "hairless homolog (mouse)"	ALUNC		10051399, 9463324	Standard	NM_018411		Approved	AU	uc003xas.3	O43593	OTTHUMG00000097089	ENST00000381418.4:c.2068dupC	8.37:g.21980060_21980060dupG	ENSP00000370826:p.Cys690fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GS30|Q96H33|Q9NPE1	Frame_Shift_Ins	INS	ENST00000381418.4	37	CCDS6022.1																																																																																				0.639	HR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214213.1			G	21980060	-	G	21980059	7	5	679	1	0	1	1	0	0	0	0	0	7354	188	7	0	1549	0	HR	8	21980059	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10		21980059	124383963	57	43877										
BMP1	649	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	22052331	22052331	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cgggcgctactgtggctatgAgaagcctgatgacatcaaga	13	9	1	4			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr8:22052331A>G	ENST00000306385.5	+	12	2208	c.1538A>G	c.(1537-1539)gAg>gGg	p.E513G	BMP1_ENST00000306349.8_Missense_Mutation_p.E513G|BMP1_ENST00000397816.3_Missense_Mutation_p.E513G|BMP1_ENST00000397814.3_Missense_Mutation_p.E513G|BMP1_ENST00000354870.5_3'UTR	NM_006129.4	NP_006120.1	P13497	BMP1_HUMAN	bone morphogenetic protein 1	513	CUB 2. {ECO:0000255|PROSITE- ProRule:PRU00059}.				cartilage condensation (GO:0001502)|cell differentiation (GO:0030154)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|lipoprotein metabolic process (GO:0042157)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|positive regulation of cartilage development (GO:0061036)|proteolysis (GO:0006508)|skeletal system development (GO:0001501)|small molecule metabolic process (GO:0044281)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|membrane-bounded vesicle (GO:0031988)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|peptidase activity (GO:0008233)|zinc ion binding (GO:0008270)			breast(1)|endometrium(7)|kidney(2)|large_intestine(7)|lung(7)|ovary(2)|prostate(1)|skin(3)	30				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		TGTGGCTATGAGAAGCCTGAT	0.567																																																0													81	80	80					8																	22052331		2203	4300	6503	SO:0001583	missense	649				CCDS6026.1, CCDS34856.1	8p21	2013-02-06	2004-08-09		ENSG00000168487	ENSG00000168487	3.4.24.19	"Bone morphogenetic proteins"	1067	protein-coding gene	gene with protein product	"procollagen C-endopeptidase"	112264	"procollagen C-endopeptidase"	PCOLC		2004778	Standard	NM_006129		Approved		uc003xbg.3	P13497	OTTHUMG00000097761	ENST00000306385.5:c.1538A>G	8.37:g.22052331A>G	ENSP00000305714:p.Glu513Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6F5|B2RN46|D3DSR0|Q13292|Q13872|Q14874|Q99421|Q99422|Q99423|Q9UL38	Missense_Mutation	SNP	ENST00000306385.5	37	CCDS6026.1	.	.	.	.	.	.	.	.	.	.	A	19.24	3.789672	0.70337	.	.	ENSG00000168487	ENST00000306385;ENST00000397816;ENST00000306349;ENST00000397814	T;T;T;T	0.18338	2.22;2.22;2.22;2.22	5.25	5.25	0.73442	CUB (5);	0.000000	0.38959	U	0.001504	T	0.22551	0.0544	L	0.33293	1	0.80722	D	1	P;P;P;P	0.51653	0.763;0.932;0.947;0.862	B;P;P;P	0.51945	0.355;0.685;0.661;0.526	T	0.00931	-1.1510	10	0.44086	T	0.13	.	14.1289	0.65240	1.0:0.0:0.0:0.0	.	513;586;513;513	P13497;Q59F71;P13497-2;P13497-6	BMP1_HUMAN;.;.;.	G	513	ENSP00000305714:E513G;ENSP00000380917:E513G;ENSP00000306121:E513G;ENSP00000380915:E513G	ENSP00000306121:E513G	E	+	2	0	BMP1	22108276	1.000000	0.71417	0.998000	0.56505	0.946000	0.59487	9.339000	0.96797	1.973000	0.57446	0.379000	0.24179	GAG		0.567	BMP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214995.2	NM_006132		G	22052331	A	G	22052331	3	3	679	1	0	0	0	0	1	0	0	0	1456	304	11	3	1584	3	BMP1	8	22052331	Missense_Mutation	SNP	A	TCGA-KO-8408-01A-11D-2310-10	72272	22052331	124311691	58	43878										
FAM150A	389658	mdanderson.org	37	chr8	53477780	53477780	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	agccagcgccagcaggaagaGtgcgggcaaaggggcgccgg	19	11	0	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr8:53477780G>C	ENST00000358543.4	-	1	287	c.37C>G	c.(37-39)Ctc>Gtc	p.L13V	FAM150A_ENST00000523939.1_Missense_Mutation_p.L13V	NM_207413.3	NP_997296.1	Q6UXT8	F150A_HUMAN	family with sequence similarity 150, member A	13						extracellular region (GO:0005576)				lung(1)	1		Lung NSC(129;0.0919)|all_epithelial(80;0.125)|all_lung(136;0.17)				AGCAGGAAGAGTGCGGGCAAA	0.716																																																0													2	3	3					8																	53477780		1704	3379	5083	SO:0001583	missense	389658				CCDS6150.1	8q11.23	2007-12-18			ENSG00000196711	ENSG00000196711			33775	protein-coding gene	gene with protein product							Standard	NM_207413		Approved	UNQ9433	uc003xrd.3	Q6UXT8	OTTHUMG00000164256	ENST00000358543.4:c.37C>G	8.37:g.53477780G>C	ENSP00000351345:p.Leu13Val	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZMG9	Missense_Mutation	SNP	ENST00000358543.4	37	CCDS6150.1	.	.	.	.	.	.	.	.	.	.	G	11.22	1.574998	0.28092	.	.	ENSG00000196711	ENST00000358543;ENST00000523939	.	.	.	2.65	1.76	0.24704	.	0.282155	0.21875	U	0.067834	T	0.32406	0.0828	N	0.24115	0.695	0.09310	N	1	D;D	0.60160	0.987;0.974	P;P	0.56088	0.791;0.671	T	0.06698	-1.0812	9	0.72032	D	0.01	.	5.4181	0.16386	0.1615:0.0:0.8385:0.0	.	13;13	B7ZMG9;Q6UXT8	.;F150A_HUMAN	V	13	.	ENSP00000351345:L13V	L	-	1	0	FAM150A	53640333	0.006000	0.16342	0.008000	0.14137	0.030000	0.12068	0.943000	0.29030	0.666000	0.31087	0.467000	0.42956	CTC		0.716	FAM150A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000377959.1	NM_207413		C	53477780	G	C	53477780	3	2	679	1	0	0	0	0	1	0	0	0	5460	1029	36	4	368	4	FAM150A	8	53477780	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	31425449	53477780	92886242	59	43879										
RIPK2	8767	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr8	90802425	90802425	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gcccttctgtccagggacttGatcatgaaagaggactatga	11	9	2	4			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr8:90802425G>A	ENST00000220751.4	+	11	1718	c.1404G>A	c.(1402-1404)ttG>ttA	p.L468L	RIPK2_ENST00000540020.1_Silent_p.L331L	NM_003821.5	NP_003812.1	O43353	RIPK2_HUMAN	receptor-interacting serine-threonine kinase 2	468	CARD. {ECO:0000255|PROSITE- ProRule:PRU00046}.				activation of MAPK activity (GO:0000187)|adaptive immune response (GO:0002250)|apoptotic process (GO:0006915)|cellular response to lipoteichoic acid (GO:0071223)|cellular response to muramyl dipeptide (GO:0071225)|cellular response to peptidoglycan (GO:0071224)|defense response to Gram-positive bacterium (GO:0050830)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|JNK cascade (GO:0007254)|lipopolysaccharide-mediated signaling pathway (GO:0031663)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic process (GO:0043066)|neurotrophin TRK receptor signaling pathway (GO:0048011)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing 1 signaling pathway (GO:0070427)|nucleotide-binding oligomerization domain containing 2 signaling pathway (GO:0070431)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of alpha-beta T cell proliferation (GO:0046641)|positive regulation of apoptotic process (GO:0043065)|positive regulation of chemokine production (GO:0032722)|positive regulation of cytokine-mediated signaling pathway (GO:0001961)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of immature T cell proliferation (GO:0033091)|positive regulation of interferon-alpha production (GO:0032727)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of interleukin-2 production (GO:0032743)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of JNK cascade (GO:0046330)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of T-helper 1 cell differentiation (GO:0045627)|positive regulation of T-helper 1 type immune response (GO:0002827)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor production (GO:0032760)|response to exogenous dsRNA (GO:0043330)|response to interleukin-1 (GO:0070555)|response to interleukin-12 (GO:0070671)|response to interleukin-18 (GO:0070673)|signal transduction (GO:0007165)|stress-activated MAPK cascade (GO:0051403)|T cell proliferation (GO:0042098)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|protein complex (GO:0043234)|vesicle (GO:0031982)	ATP binding (GO:0005524)|CARD domain binding (GO:0050700)|LIM domain binding (GO:0030274)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein homodimerization activity (GO:0042803)|protein serine/threonine kinase activity (GO:0004674)|signal transducer activity (GO:0004871)			kidney(1)|large_intestine(3)|lung(2)|ovary(2)|prostate(2)	10			BRCA - Breast invasive adenocarcinoma(11;0.0474)			CCAGGGACTTGATCATGAAAG	0.453																																																0													98	94	95					8																	90802425		2203	4300	6503	SO:0001819	synonymous_variant	8767			AC004003	CCDS6247.1	8q21	2008-05-02			ENSG00000104312	ENSG00000104312			10020	protein-coding gene	gene with protein product		603455				9575181, 9705938	Standard	XM_005251092		Approved	RICK, RIP2, CARDIAK, CARD3	uc003yee.3	O43353	OTTHUMG00000163809	ENST00000220751.4:c.1404G>A	8.37:g.90802425G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z748|Q6UWF0	Silent	SNP	ENST00000220751.4	37	CCDS6247.1																																																																																				0.453	RIPK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375686.1			A	90802425	G	A	90802425	2	1	679	1	0	0	0	0	0	0	0	1	13394	1281	45	2		2	RIPK2	8	90802425	Silent	SNP	G	TCGA-KO-8408-01A-11D-2310-10	37324645	90802425	55561597	60	43880										
COL14A1	7373	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	121238908	121238908	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cttagaaattgatgaggtgaCgacagacagttttagggtga	13	4	0	6			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr8:121238908C>T	ENST00000297848.3	+	16	2177	c.1907C>T	c.(1906-1908)aCg>aTg	p.T636M	COL14A1_ENST00000432943.2_3'UTR|COL14A1_ENST00000247781.3_Missense_Mutation_p.T541M|COL14A1_ENST00000537875.1_3'UTR|COL14A1_ENST00000309791.4_Missense_Mutation_p.T636M	NM_021110.1	NP_066933.1			collagen, type XIV, alpha 1											NS(1)|autonomic_ganglia(1)|breast(11)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(9)|large_intestine(31)|lung(42)|ovary(5)|pancreas(1)|prostate(1)|skin(8)|stomach(2)|upper_aerodigestive_tract(2)	119	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)			GATGAGGTGACGACAGACAGT	0.483																																																0													95	86	89					8																	121238908		2203	4300	6503	SO:0001583	missense	7373				CCDS34938.1	8q23	2013-02-11	2008-02-04		ENSG00000187955	ENSG00000187955		"Collagens", "Fibronectin type III domain containing"	2191	protein-coding gene	gene with protein product		120324	"undulin"	UND		1716629, 9427527	Standard	NM_021110		Approved		uc003yox.4	Q05707	OTTHUMG00000149877	ENST00000297848.3:c.1907C>T	8.37:g.121238908C>T	ENSP00000297848:p.Thr636Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000297848.3	37	CCDS34938.1	.	.	.	.	.	.	.	.	.	.	C	14.55	2.568018	0.45798	.	.	ENSG00000187955	ENST00000309791;ENST00000297848;ENST00000247781;ENST00000434620	T;T;T;T	0.60920	0.15;0.15;0.15;0.15	5.63	3.62	0.41486	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.549752	0.18638	N	0.135373	T	0.61060	0.2317	M	0.82517	2.595	0.80722	D	1	B;B	0.22851	0.076;0.036	B;B	0.19946	0.027;0.015	T	0.59783	-0.7389	10	0.59425	D	0.04	.	12.8014	0.57588	0.4222:0.5778:0.0:0.0	.	636;636	Q05707-2;Q05707	.;COEA1_HUMAN	M	636;636;541;449	ENSP00000311809:T636M;ENSP00000297848:T636M;ENSP00000247781:T541M;ENSP00000409461:T449M	ENSP00000247781:T541M	T	+	2	0	COL14A1	121308089	0.997000	0.39634	1.000000	0.80357	0.989000	0.77384	1.518000	0.35877	0.512000	0.28257	0.557000	0.71058	ACG		0.483	COL14A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313657.2	NM_021110		T	121238908	C	T	121238908	3	4	679	1	0	0	0	0	1	0	0	0	3673	536	19	1	1965	1	COL14A1	8	121238908	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	30436483	121238908	25125114	61	43881										
EPPK1	83481	mdanderson.org	37	chr8	144940378	144940378	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tggctgtgcacggggtcgatGacgccgcccgtggcgatctg	17	12	1	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr8:144940378G>A	ENST00000525985.1	-	2	7115	c.7044C>T	c.(7042-7044)gtC>gtT	p.V2348V				P58107	EPIPL_HUMAN	epiplakin 1	2348						cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)	poly(A) RNA binding (GO:0044822)			NS(1)|autonomic_ganglia(1)|breast(1)|central_nervous_system(5)|cervix(1)|endometrium(8)|kidney(4)|large_intestine(2)|lung(30)|ovary(2)|pancreas(1)|prostate(10)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	71	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)			CGGGGTCGATGACGCCGCCCG	0.701																																																0													194	188	190					8																	144940378		2168	4240	6408	SO:0001819	synonymous_variant	83481			AB051895	CCDS75800.1	8q24.3	2014-09-17				ENSG00000261150			15577	protein-coding gene	gene with protein product	"epidermal autoantigen 450K"	607553				11278896, 15671067	Standard	NM_031308		Approved	EPIPL1	uc003zaa.1	P58107		ENST00000525985.1:c.7044C>T	8.37:g.144940378G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q76E58|Q9NSU9	Silent	SNP	ENST00000525985.1	37																																																																																					0.701	EPPK1-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000382675.1	NM_031308		A	144940378	G	A	144940378	2	1	679	1	0	0	0	0	0	0	0	1	5192	1277	45	2		2	EPPK1	8	144940378	Silent	SNP	G	TCGA-KO-8408-01A-11D-2310-10	23701470	144940378	1423644	62	43882										
OPLAH	26873	broad.mit.edu	37	chr8	145108284	145108284	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ccttgcctggcgcccgcaggGcctccgtcaccgctggatgg	14	17	1	0	rs186909122		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr8:145108284G>T	ENST00000426825.1	-	20	2780	c.2699C>A	c.(2698-2700)gCc>gAc	p.A900D	CTD-3065J16.6_ENST00000528912.1_RNA|OPLAH_ENST00000534424.1_5'UTR|CTD-3065J16.6_ENST00000561181.1_RNA	NM_017570.3	NP_060040.1	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	900					glutathione biosynthetic process (GO:0006750)|glutathione derivative biosynthetic process (GO:1901687)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)	5-oxoprolinase (ATP-hydrolyzing) activity (GO:0017168)|ATP binding (GO:0005524)			breast(1)|central_nervous_system(1)|endometrium(1)|lung(13)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	20	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-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;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CGCCCGCAGGGCCTCCGTCAC	0.647																																																0													44	52	50					8																	145108284		2081	4210	6291	SO:0001583	missense	26873			AF024672, AB122018	CCDS75802.1	8q24.3	2010-11-23			ENSG00000178814	ENSG00000178814	3.5.2.9		8149	protein-coding gene	gene with protein product		614243				14993790	Standard	NM_017570		Approved	OPLA, 5-Opase	uc003zar.3	O14841		ENST00000426825.1:c.2699C>A	8.37:g.145108284G>T	ENSP00000475943:p.Ala900Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKY8|Q75W65|Q9Y4Q0	Missense_Mutation	SNP	ENST00000426825.1	37		.	.	.	.	.	.	.	.	.	.	G	14.54	2.564475	0.45694	.	.	ENSG00000178814	ENST00000426825	.	.	.	4.56	3.44	0.39384	.	0.106428	0.64402	D	0.000007	T	0.48132	0.1483	.	.	.	0.52099	D	0.999941	B	0.18863	0.031	B	0.25405	0.06	T	0.61317	-0.7087	7	0.62326	D	0.03	.	10.7882	0.46417	0.1156:0.0:0.8844:0.0	.	900	O14841	OPLA_HUMAN	D	900	.	ENSP00000412071:A900D	A	-	2	0	OPLAH	145180272	1.000000	0.71417	0.999000	0.59377	0.867000	0.49689	3.294000	0.51787	2.069000	0.61940	0.448000	0.29417	GCC		0.647	OPLAH-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_017570		T	145108284	G	T	145108284	3	4	679	1	0	0	0	0	1	0	0	0	10883	1203	42	4	1201	4	OPLAH	8	145108284	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	167906	145108284	1255738	63	43883										
OPLAH	26873	mdanderson.org	37	chr8	145113241	145113241	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cgggcccgagagcacagcacTggagccgctgaaggtgtcca	15	13	0	2	rs3935209	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr8:145113241T>G	ENST00000426825.1	-	7	931	c.850A>C	c.(850-852)Agt>Cgt	p.S284R	OPLAH_ENST00000534424.1_5'UTR	NM_017570.3	NP_060040.1	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	284			S -> R (in dbSNP:rs3935209).		glutathione biosynthetic process (GO:0006750)|glutathione derivative biosynthetic process (GO:1901687)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)	5-oxoprolinase (ATP-hydrolyzing) activity (GO:0017168)|ATP binding (GO:0005524)			breast(1)|central_nervous_system(1)|endometrium(1)|lung(13)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	20	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-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;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			AGCACAGCACTGGAGCCGCTG	0.687													G|||	1014	0.202476	0.5998	0.0893	5008	,	,		15381	0.003		0.0984	False		,,,				2504	0.0583															0								G	ARG/SER	1818,2076		465,888,594	6	9	8		850	2.9	1	8	dbSNP_108	8	604,7624		25,554,3535	yes	missense	OPLAH	NM_017570.3	110	490,1442,4129	GG,GT,TT		7.3408,46.6872,19.9802	benign	284/1289	145113241	2422,9700	1947	4114	6061	SO:0001583	missense	26873			AF024672, AB122018	CCDS75802.1	8q24.3	2010-11-23			ENSG00000178814	ENSG00000178814	3.5.2.9		8149	protein-coding gene	gene with protein product		614243				14993790	Standard	NM_017570		Approved	OPLA, 5-Opase	uc003zar.3	O14841		ENST00000426825.1:c.850A>C	8.37:g.145113241T>G	ENSP00000475943:p.Ser284Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKY8|Q75W65|Q9Y4Q0	Missense_Mutation	SNP	ENST00000426825.1	37		421	0.19276556776556777	297	0.6036585365853658	37	0.10220994475138122	13	0.022727272727272728	74	0.09762532981530343	G	11.48	1.649903	0.29336	0.466872	0.073408	ENSG00000178814	ENST00000426825	.	.	.	3.95	2.94	0.34122	.	0.000000	0.85682	N	0.000000	T	0.00012	0.0000	.	.	.	0.19575	N	0.999967	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.44421	-0.9329	7	0.02654	T	1	.	11.4387	0.50083	0.0:0.0:0.6654:0.3346	rs3935209;rs3935209	284;284	A7E261;O14841	.;OPLA_HUMAN	R	284	.	ENSP00000412071:S284R	S	-	1	0	OPLAH	145185229	0.940000	0.31905	0.981000	0.43875	0.538000	0.34931	0.568000	0.23623	0.652000	0.30806	-0.352000	0.07741	AGT		0.687	OPLAH-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_017570		G	145113241	T	G	145113241	3	3	679	1	0	0	0	0	1	0	0	0	10883	1580	55	5	3102	5	OPLAH	8	145113241	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10	4957	145113241	1250781	64	43884										
PRSS3	5646	mdanderson.org	37	chr9	33796660	33796660	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gttgctgtcccctttgacgaTgatgacaagattgttggggg	14	7	0	4			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr9:33796660T>C	ENST00000361005.5	+	2	231	c.231T>C	c.(229-231)gaT>gaC	p.D77D	PRSS3_ENST00000379405.3_Silent_p.D20D|PRSS3_ENST00000429677.3_Silent_p.D13D|PRSS3_ENST00000342836.4_Silent_p.D34D|RP11-133O22.6_ENST00000454429.2_RNA	NM_007343.3	NP_031369	P35030	TRY3_HUMAN	protease, serine, 3	77					cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|endothelial cell migration (GO:0043542)|innate immune response (GO:0045087)|proteolysis (GO:0006508)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)|zymogen activation (GO:0031638)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			large_intestine(3)|lung(4)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	13			LUSC - Lung squamous cell carcinoma(29;0.0176)			CCTTTGACGATGATGACAAGA	0.552																																																0													193	181	185					9																	33796660		2203	4300	6503	SO:0001819	synonymous_variant	5646				CCDS6545.1, CCDS47958.1, CCDS56570.1, CCDS56571.1	9p13	2010-05-07	2008-03-11		ENSG00000010438	ENSG00000010438	3.4.21.4	"Serine peptidases / Serine peptidases"	9486	protein-coding gene	gene with protein product	"mesotrypsin"	613578	"protease, serine, 4 (trypsin 4, brain)", "protease, serine, 3 (mesotrypsin)"	PRSS4		2326201, 8294000	Standard	NM_002771		Approved	TRY3, TRY4	uc003ztj.4	P35030	OTTHUMG00000019798	ENST00000361005.5:c.231T>C	9.37:g.33796660T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8CED1|A8CED3|A9Z1Y4|E7ES07|F8W7P3|P15951|Q15665|Q5VXV0|Q6ISJ4|Q9UQV3	Silent	SNP	ENST00000361005.5	37	CCDS47958.1																																																																																				0.552	PRSS3-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000052121.1	NM_002771		C	33796660	T	C	33796660	2	2	679	1	0	0	0	0	0	0	0	1	12632	1461	51	3		3	PRSS3	9	33796660	Silent	SNP	T	TCGA-KO-8408-01A-11D-2310-10		33796660	107416771	65	43885										
IL11RA	3590	broad.mit.edu	37	chr9	34658538	34658538	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gcgccctgacccaccccaggGcctgcgggtagagtcagtac	13	16	1	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr9:34658538G>T	ENST00000555003.1	+	8	2024	c.668G>T	c.(667-669)gGc>gTc	p.G223V	IL11RA_ENST00000378817.4_Missense_Mutation_p.G223V|IL11RA_ENST00000602473.1_Missense_Mutation_p.G223V|IL11RA_ENST00000441545.2_Missense_Mutation_p.G223V|IL11RA_ENST00000318041.9_Missense_Mutation_p.G223V			Q14626	I11RA_HUMAN	interleukin 11 receptor, alpha	223	Fibronectin type-III 2. {ECO:0000255|PROSITE-ProRule:PRU00316}.				developmental process (GO:0032502)|embryo implantation (GO:0007566)|head development (GO:0060322)|signal transduction (GO:0007165)	integral component of plasma membrane (GO:0005887)	cytokine receptor activity (GO:0004896)|signal transducer activity (GO:0004871)|transmembrane signaling receptor activity (GO:0004888)			breast(1)|large_intestine(1)|ovary(1)|skin(1)	4	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.174)	Oprelvekin(DB00038)	CCACCCCAGGGCCTGCGGGTA	0.602																																																0													62	60	60					9																	34658538		2203	4300	6503	SO:0001583	missense	3590			Z38102	CCDS6567.1	9p13	2014-05-22			ENSG00000137070	ENSG00000137070		"Interleukins and interleukin receptors", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5967	protein-coding gene	gene with protein product		600939				7670098	Standard	NM_001142784		Approved		uc011loq.3	Q14626	OTTHUMG00000019837	ENST00000555003.1:c.668G>T	9.37:g.34658538G>T	ENSP00000450565:p.Gly223Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q16542|Q5VZ80|Q7KYJ7	Missense_Mutation	SNP	ENST00000555003.1	37	CCDS6567.1	.	.	.	.	.	.	.	.	.	.	G	19.97	3.925777	0.73213	.	.	ENSG00000137070	ENST00000555003;ENST00000441545;ENST00000553620;ENST00000378817;ENST00000318041;ENST00000555981	T;T;T;T;T;T	0.72505	1.46;1.46;0.93;1.29;1.46;-0.66	5.15	4.19	0.49359	Long hematopoietin receptor, soluble alpha chain, conserved site (1);Fibronectin, type III (3);Immunoglobulin-like fold (1);	0.419860	0.27262	N	0.020180	T	0.73814	0.3635	L	0.54323	1.7	0.53688	D	0.999973	D;D	0.63880	0.993;0.993	P;P	0.59288	0.855;0.855	T	0.74876	-0.3515	10	0.62326	D	0.03	-19.9792	6.4922	0.22121	0.096:0.1853:0.7187:0.0	.	223;223	Q5VZ79;Q14626	.;I11RA_HUMAN	V	223;223;146;223;223;223	ENSP00000450565:G223V;ENSP00000394391:G223V;ENSP00000452207:G146V;ENSP00000368094:G223V;ENSP00000326500:G223V;ENSP00000450640:G223V	ENSP00000326500:G223V	G	+	2	0	IL11RA	34648538	0.998000	0.40836	1.000000	0.80357	0.982000	0.71751	2.129000	0.42055	2.401000	0.81631	0.563000	0.77884	GGC		0.602	IL11RA-006	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410625.1	NM_001142784		T	34658538	G	T	34658538	3	4	679	1	0	0	0	0	1	0	0	0	7630	1203	42	4	694	4	IL11RA	9	34658538	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	861878	34658538	106554893	66	43886										
DCAF10	79269	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr9	37861212	37861212	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gctgttctctacgactgactCattacattgaagaagccaat	7	10	2	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr9:37861212C>G	ENST00000377724.3	+	7	1752	c.1387C>G	c.(1387-1389)Cat>Gat	p.H463D	DCAF10_ENST00000242323.7_Missense_Mutation_p.H426D|RP11-613M10.9_ENST00000540557.1_Intron|DCAF10_ENST00000483167.1_3'UTR	NM_024345.3	NP_077321.3	Q5QP82	DCA10_HUMAN	DDB1 and CUL4 associated factor 10	463					protein ubiquitination (GO:0016567)	Cul4-RING E3 ubiquitin ligase complex (GO:0080008)				central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(4)|skin(1)	12						ACGACTGACTCATTACATTGA	0.488																																																0													121	112	115					9																	37861212		2203	4300	6503	SO:0001583	missense	79269			BC003520	CCDS6613.2, CCDS75835.1	9p13.2	2013-01-09	2009-07-17	2009-07-17	ENSG00000122741	ENSG00000122741		"WD repeat domain containing", "DDB1 and CUL4 associated factors"	23686	protein-coding gene	gene with protein product			"WD repeat domain 32"	WDR32			Standard	NM_001286810		Approved	MGC10765, FLJ23201	uc004aao.3	Q5QP82	OTTHUMG00000019934	ENST00000377724.3:c.1387C>G	9.37:g.37861212C>G	ENSP00000366953:p.His463Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A4VCJ5|Q32NE2|Q8N2Q5|Q96ET5|Q9BTQ5|Q9H5P6	Missense_Mutation	SNP	ENST00000377724.3	37	CCDS6613.2	.	.	.	.	.	.	.	.	.	.	C	23.2	4.392544	0.83011	.	.	ENSG00000122741	ENST00000377724;ENST00000242323	T;T	0.75154	-0.69;-0.91	5.66	5.66	0.87406	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.78805	0.4341	L	0.40543	1.245	0.80722	D	1	D;D	0.61697	0.96;0.99	D;D	0.68483	0.923;0.958	T	0.71437	-0.4593	10	0.08381	T	0.77	.	17.2476	0.87032	0.0:1.0:0.0:0.0	.	426;463	Q5QP82-2;Q5QP82	.;DCA10_HUMAN	D	463;426	ENSP00000366953:H463D;ENSP00000242323:H426D	ENSP00000242323:H426D	H	+	1	0	DCAF10	37851212	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.440000	0.80464	2.690000	0.91761	0.655000	0.94253	CAT		0.488	DCAF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052485.2	NM_024345		G	37861212	C	G	37861212	3	3	679	1	0	0	0	0	1	0	0	0	4263	826	29	4	1413	4	DCAF10	9	37861212	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	3202674	37861212	103352219	67	43887										
TUBB8	347688	mdanderson.org	37	chr10	94005	94005	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	actgactccatcagctccgcGccttcggtgtagtgtccctt	9	15	1	1	rs374716232		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr10:94005G>A	ENST00000309812.4	-	4	389	c.327C>T	c.(325-327)ggC>ggT	p.G109G	TUBB8_ENST00000413237.3_5'UTR|TUBB8_ENST00000332708.5_Missense_Mutation_p.A73V|TUBB8_ENST00000447903.2_Silent_p.G37G	NM_177987.2	NP_817124.1	Q3ZCM7	TBB8_HUMAN	tubulin, beta 8 class VIII	109					microtubule-based process (GO:0007017)|protein polymerization (GO:0051258)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)			NS(1)|cervix(1)|endometrium(4)|large_intestine(5)|lung(12)|ovary(2)|prostate(3)|skin(3)|stomach(1)	32		all_cancers(4;0.00131)|all_lung(4;0.000777)|Lung NSC(4;0.0043)|all_epithelial(10;0.0154)|Colorectal(49;0.235)		Epithelial(11;0.00341)|all cancers(11;0.00922)|OV - Ovarian serous cystadenocarcinoma(14;0.0508)|Lung(33;0.132)		TCAGCTCCGCGCCTTCGGTGT	0.602																																					Pancreas(192;2041 3010 9013 18103)											0													72	61	65					10																	94005		2203	4300	6503	SO:0001819	synonymous_variant	347688			AF355127	CCDS7051.1	10p15.3	2014-05-06			ENSG00000173876			"Tubulins"	20773	protein-coding gene	gene with protein product	"class VIII beta-tubulin"						Standard	NM_177987		Approved	bA631M21.2	uc001ifi.2	Q3ZCM7	OTTHUMG00000174803	ENST00000309812.4:c.327C>T	10.37:g.94005G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SQX9|Q8WZ78	Silent	SNP	ENST00000309812.4	37	CCDS7051.1	.	.	.	.	.	.	.	.	.	.	G	6.147	0.395295	0.11638	.	.	ENSG00000173876	ENST00000309812;ENST00000332708	.	.	.	.	.	.	.	.	.	.	.	T	0.56016	0.1957	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.54754	-0.8246	4	0.87932	D	0	.	2.8768	0.05634	3.0E-4:2.0E-4:0.5045:0.4949	.	.	.	.	V	117;73	.	ENSP00000311042:A117V	A	-	2	0	RP11-631M21.2	84005	0.000000	0.05858	0.286000	0.24833	0.290000	0.27261	-5.243000	0.00138	0.119000	0.18210	0.121000	0.15741	GCG		0.602	TUBB8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467795.1	NM_177987		A	94005	G	A	94005	2	1	679	1	0	0	0	0	0	0	0	1	16773	1074	38	1		1	TUBB8	10	94005	Silent	SNP	G	TCGA-KO-8408-01A-11D-2310-10		94005	135440742	68	43888			2	124		2	2	14	N	T_G	6.21494e-05
TUBB8	347688	mdanderson.org	37	chr10	94018	94018	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gctccgcgccttcggtgtagTgtcccttggcccagttgttt	12	13	0	0	rs9329307	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr10:94018T>C	ENST00000309812.4	-	4	376	c.314A>G	c.(313-315)cAc>cGc	p.H105R	TUBB8_ENST00000413237.3_5'UTR|TUBB8_ENST00000332708.5_Missense_Mutation_p.T69A|TUBB8_ENST00000447903.2_Missense_Mutation_p.H33R	NM_177987.2	NP_817124.1	Q3ZCM7	TBB8_HUMAN	tubulin, beta 8 class VIII	105					microtubule-based process (GO:0007017)|protein polymerization (GO:0051258)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)	p.H105R(1)		NS(1)|cervix(1)|endometrium(4)|large_intestine(5)|lung(12)|ovary(2)|prostate(3)|skin(3)|stomach(1)	32		all_cancers(4;0.00131)|all_lung(4;0.000777)|Lung NSC(4;0.0043)|all_epithelial(10;0.0154)|Colorectal(49;0.235)		Epithelial(11;0.00341)|all cancers(11;0.00922)|OV - Ovarian serous cystadenocarcinoma(14;0.0508)|Lung(33;0.132)		TTCGGTGTAGTGTCCCTTGGC	0.587																																					Pancreas(192;2041 3010 9013 18103)											1	Substitution - Missense(1)	prostate(1)											77	64	68					10																	94018		2203	4300	6503	SO:0001583	missense	347688			AF355127	CCDS7051.1	10p15.3	2014-05-06			ENSG00000173876			"Tubulins"	20773	protein-coding gene	gene with protein product	"class VIII beta-tubulin"						Standard	NM_177987		Approved	bA631M21.2	uc001ifi.2	Q3ZCM7	OTTHUMG00000174803	ENST00000309812.4:c.314A>G	10.37:g.94018T>C	ENSP00000311042:p.His105Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SQX9|Q8WZ78	Missense_Mutation	SNP	ENST00000309812.4	37	CCDS7051.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	11.13|11.13	1.548903|1.548903	0.27652|0.27652	.|.	.|.	ENSG00000173876|ENSG00000173876	ENST00000447903;ENST00000272035;ENST00000440680;ENST00000328974|ENST00000309812;ENST00000332708	T|.	0.69435|.	-0.4|.	.|.	.|.	.|.	Tubulin/FtsZ, GTPase domain (4);|.	0.000000|.	0.64402|.	U|.	0.000004|.	T|T	0.52108|0.52108	0.1714|0.1714	.|.	.|.	.|.	0.34522|0.34522	D|D	0.708225|0.708225	P;P|.	0.49635|.	0.65;0.926|.	P;P|.	0.47102|.	0.537;0.52|.	T|T	0.60439|0.60439	-0.7263|-0.7263	8|4	0.87932|0.87932	D|D	0|0	.|.	4.5487|4.5487	0.12098|0.12098	0.0:6.0E-4:0.0:0.9994|0.0:6.0E-4:0.0:0.9994	rs9329307|rs9329307	68;105|.	C9JAA5;Q3ZCM7|.	.;TBB8_HUMAN|.	R|A	33;71;68;105|113;69	ENSP00000403895:H33R|.	ENSP00000272035:H71R|ENSP00000311042:T113A	H|T	-|-	2|1	0|0	RP11-631M21.2|RP11-631M21.2	84018|84018	1.000000|1.000000	0.71417|0.71417	0.316000|0.316000	0.25252|0.25252	0.320000|0.320000	0.28249|0.28249	5.418000|5.418000	0.66429|0.66429	0.103000|0.103000	0.17682|0.17682	0.102000|0.102000	0.15555|0.15555	CAC|ACT		0.587	TUBB8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467795.1	NM_177987		C	94018	T	C	94018	3	2	679	1	0	0	0	0	1	0	0	0	16773	1696	59	3	1024	3	TUBB8	10	94018	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10	13	94018	135440729	69	43889			2	124		2	2	14	N	T_G	6.21494e-05
GPRIN2	9721	mdanderson.org	37	chr10	47000239	47000239	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cccagctgctgcggctgctcCggcgcggcccccgagtgagg	16	17	0	1	rs7912299	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr10:47000239C>T	ENST00000374317.1	+	3	1632	c.1359C>T	c.(1357-1359)tcC>tcT	p.S453S	GPRIN2_ENST00000374314.4_Silent_p.S453S	NM_014696.3	NP_055511.2	O60269	GRIN2_HUMAN	G protein regulated inducer of neurite outgrowth 2	453										breast(2)|central_nervous_system(1)|endometrium(6)|kidney(1)|large_intestine(1)|lung(6)|prostate(1)	18						GCGGCTGCTCCGGCGCGGCCC	0.746													C|||	2586	0.516374	0.5227	0.5159	5008	,	,		29285	0.5099		0.5159	False		,,,				2504	0.5153															0																																										SO:0001819	synonymous_variant	9721			BC011672	CCDS73101.1	10q11.22	2006-08-24	2006-08-24	2006-08-24	ENSG00000204175	ENSG00000204175			23730	protein-coding gene	gene with protein product		611240	"KIAA0514"	KIAA0514		9628581	Standard	NM_014696		Approved	MGC15171	uc001jec.3	O60269	OTTHUMG00000018107	ENST00000374317.1:c.1359C>T	10.37:g.47000239C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SVF0	Silent	SNP	ENST00000374317.1	37	CCDS31192.1																																																																																				0.746	GPRIN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047836.1	NM_014696		T	47000239	C	T	47000239	2	4	679	1	0	0	0	0	0	0	0	1	6737	639	23	1		1	GPRIN2	10	47000239	Silent	SNP	C	TCGA-KO-8408-01A-11D-2310-10	46906221	47000239	88534508	70	43890										
ARID5B	84159	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr10	63700094	63700094	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	aatggacagaaggaagctctGctgaagtacaggcagtcaac	12	8	2	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr10:63700094G>A	ENST00000279873.7	+	3	839	c.429G>A	c.(427-429)ctG>ctA	p.L143L		NM_032199.2	NP_115575.1	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	143					adipose tissue development (GO:0060612)|adrenal gland development (GO:0030325)|cell development (GO:0048468)|face morphogenesis (GO:0060325)|fat cell differentiation (GO:0045444)|fat pad development (GO:0060613)|female gonad development (GO:0008585)|fibroblast migration (GO:0010761)|kidney development (GO:0001822)|liver development (GO:0001889)|male gonad development (GO:0008584)|multicellular organism growth (GO:0035264)|muscle organ morphogenesis (GO:0048644)|negative regulation of transcription, DNA-templated (GO:0045892)|palate development (GO:0060021)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|post-embryonic development (GO:0009791)|skeletal system morphogenesis (GO:0048705)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|transcription regulatory region DNA binding (GO:0044212)			NS(1)|breast(2)|endometrium(13)|kidney(3)|large_intestine(7)|lung(9)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	44	Prostate(12;0.016)|all_hematologic(501;0.215)					AGGAAGCTCTGCTGAAGTACA	0.458																																																0													106	99	101					10																	63700094		2203	4300	6503	SO:0001819	synonymous_variant	84159			M73837	CCDS31208.1, CCDS58082.1	10q11.22	2013-02-07			ENSG00000150347	ENSG00000150347		"-"	17362	protein-coding gene	gene with protein product		608538				11483573, 11478881	Standard	NM_032199		Approved	FLJ21150, MRF2	uc001jlt.2	Q14865	OTTHUMG00000018298	ENST00000279873.7:c.429G>A	10.37:g.63700094G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DLB3|Q05DG6|Q32Q59|Q5VST4|Q6NZ42|Q7Z3M4|Q8N421|Q9H786	Silent	SNP	ENST00000279873.7	37	CCDS31208.1																																																																																				0.458	ARID5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048233.1	XM_084482		A	63700094	G	A	63700094	2	1	679	1	0	0	0	0	0	0	0	1	922	1306	46	2		2	ARID5B	10	63700094	Silent	SNP	G	TCGA-KO-8408-01A-11D-2310-10	16699855	63700094	71834653	71	43891										
PTEN	5728	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr10	89693003	89693003	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gggaagtaaggaccagagacAaaaaggtaagttattttttg	12	3	0	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr10:89693003A>T	ENST00000371953.3	+	5	1844	c.487A>T	c.(487-489)Aaa>Taa	p.K163*		NM_000314.4	NP_000305.3	P60484	PTEN_HUMAN	phosphatase and tensin homolog	163	Phosphatase tensin-type. {ECO:0000255|PROSITE-ProRule:PRU00590}.				activation of mitotic anaphase-promoting complex activity (GO:0007092)|aging (GO:0007568)|angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|brain morphogenesis (GO:0048854)|canonical Wnt signaling pathway (GO:0060070)|cardiac muscle tissue development (GO:0048738)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|central nervous system development (GO:0007417)|central nervous system myelin maintenance (GO:0032286)|central nervous system neuron axonogenesis (GO:0021955)|dendritic spine morphogenesis (GO:0060997)|dentate gyrus development (GO:0021542)|endothelial cell migration (GO:0043542)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|forebrain morphogenesis (GO:0048853)|heart development (GO:0007507)|innate immune response (GO:0045087)|inositol phosphate dephosphorylation (GO:0046855)|inositol phosphate metabolic process (GO:0043647)|learning or memory (GO:0007611)|locomotor rhythm (GO:0045475)|locomotory behavior (GO:0007626)|long term synaptic depression (GO:0060292)|long-term synaptic potentiation (GO:0060291)|male mating behavior (GO:0060179)|maternal behavior (GO:0042711)|memory (GO:0007613)|multicellular organismal response to stress (GO:0033555)|negative regulation of apoptotic process (GO:0043066)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell aging (GO:0090344)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031658)|negative regulation of dendritic spine morphogenesis (GO:0061002)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of myelination (GO:0031642)|negative regulation of organ growth (GO:0046621)|negative regulation of phagocytosis (GO:0050765)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of ribosome biogenesis (GO:0090071)|negative regulation of synaptic vesicle clustering (GO:2000808)|neuron-neuron synaptic transmission (GO:0007270)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell proliferation (GO:0008284)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|postsynaptic density assembly (GO:0097107)|prepulse inhibition (GO:0060134)|presynaptic membrane assembly (GO:0097105)|prostate gland growth (GO:0060736)|protein dephosphorylation (GO:0006470)|protein kinase B signaling (GO:0043491)|protein stabilization (GO:0050821)|regulation of B cell apoptotic process (GO:0002902)|regulation of cellular component size (GO:0032535)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of myeloid cell apoptotic process (GO:0033032)|regulation of neuron projection development (GO:0010975)|regulation of protein stability (GO:0031647)|response to arsenic-containing substance (GO:0046685)|response to ATP (GO:0033198)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to ethanol (GO:0045471)|response to glucose (GO:0009749)|response to nutrient (GO:0007584)|response to zinc ion (GO:0010043)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synapse maturation (GO:0060074)|T cell receptor signaling pathway (GO:0050852)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|extracellular region (GO:0005576)|mitochondrion (GO:0005739)|myelin sheath adaxonal region (GO:0035749)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|Schmidt-Lanterman incisure (GO:0043220)	anaphase-promoting complex binding (GO:0010997)|enzyme binding (GO:0019899)|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity (GO:0051717)|lipid binding (GO:0008289)|magnesium ion binding (GO:0000287)|PDZ domain binding (GO:0030165)|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity (GO:0016314)|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity (GO:0051800)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|phosphoprotein phosphatase activity (GO:0004721)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)	p.0?(37)|p.?(5)|p.R55fs*1(5)|p.K163*(2)|p.Y27fs*1(2)|p.F56fs*2(1)		NS(28)|autonomic_ganglia(2)|biliary_tract(6)|bone(5)|breast(92)|central_nervous_system(676)|cervix(26)|endometrium(1068)|eye(8)|haematopoietic_and_lymphoid_tissue(137)|kidney(24)|large_intestine(98)|liver(20)|lung(91)|meninges(2)|oesophagus(2)|ovary(82)|pancreas(6)|prostate(129)|salivary_gland(5)|skin(127)|soft_tissue(19)|stomach(30)|testis(1)|thyroid(29)|upper_aerodigestive_tract(29)|urinary_tract(12)|vulva(17)	2771		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		GACCAGAGACAAAAAGGTAAG	0.348		31	"D, Mis, N, F, S"		"glioma,  prostate, endometrial"	"harmartoma, glioma,  prostate, endometrial"			Proteus syndrome;Juvenile Polyposis;Hereditary Mixed Polyposis Syndrome type 1;Cowden syndrome;Bannayan-Riley-Ruvalcaba syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)																												yes	Rec	yes	"Cowden Syndrome, Bannayan-Riley-Ruvalcaba syndrome"	10	10q23.3	5728	phosphatase and tensin homolog gene		"L, E, M, O"	52	Whole gene deletion(37)|Deletion - Frameshift(8)|Unknown(5)|Substitution - Nonsense(2)	prostate(17)|central_nervous_system(11)|skin(6)|lung(5)|haematopoietic_and_lymphoid_tissue(4)|breast(3)|ovary(3)|soft_tissue(1)|endometrium(1)|urinary_tract(1)											49	51	50					10																	89693003		2203	4300	6503	SO:0001587	stop_gained	5728	Familial Cancer Database	Incl.: Encephalocraniocutaneous Lipomatosis, ECCL, Proteus-like s.;incl.: Juvenile Polyposis of the Stomach;HMPS1, Colorectal Adenoma Carcinoma syndrome, CRAC, CRAC1;CS, Cowden disease, Multiple Hamartoma Syndrome, incl.: Lhermitte-Duclos; part of PTEN hamartoma tumour syndrome (PHTS) / PTEN-MATCHS, Cowden-like syndrome;subset of PTEN-Hamartoma Tumor Syndrome; incl.: Ruvalcaba-Myhre-Smith s.	U92436	CCDS31238.1	10q23	2014-09-17	2008-07-31		ENSG00000171862	ENSG00000171862		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs"	9588	protein-coding gene	gene with protein product	"mutated in multiple advanced cancers 1"	601728		BZS, MHAM		9090379	Standard	NM_000314		Approved	MMAC1, TEP1, PTEN1	uc001kfb.3	P60484	OTTHUMG00000018688	ENST00000371953.3:c.487A>T	10.37:g.89693003A>T	ENSP00000361021:p.Lys163*	Somatic		WXS	Illumina HiSeq	Phase_I	B2R904|F2YHV0|O00633|O02679|Q6ICT7	Nonsense_Mutation	SNP	ENST00000371953.3	37	CCDS31238.1	.	.	.	.	.	.	.	.	.	.	A	48	14.499243	0.99798	.	.	ENSG00000171862	ENST00000371953	.	.	.	5.09	5.09	0.68999	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-10.3599	14.8682	0.70434	1.0:0.0:0.0:0.0	.	.	.	.	X	163	.	.	K	+	1	0	PTEN	89682983	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	8.918000	0.92759	1.898000	0.54952	0.460000	0.39030	AAA		0.348	PTEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049241.1	NM_000314		T	89693003	A	T	89693003	4	4	679	1	0	0	0	0	0	1	0	0	12748	131	5	5	505	5	PTEN	10	89693003	Nonsense_Mutation	SNP	A	TCGA-KO-8408-01A-11D-2310-10	25992909	89693003	45841744	72	43892										
C10orf12	26148	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr10	98743653	98743653	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ggaacaaatcagataaactgAaagagatttggaaaagcaag	10	4	1	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr10:98743653A>G	ENST00000286067.2	+	1	2613	c.2506A>G	c.(2506-2508)Aaa>Gaa	p.K836E		NM_015652.2	NP_056467.2	Q8N655	CJ012_HUMAN	chromosome 10 open reading frame 12	836										NS(1)|breast(2)|endometrium(3)|kidney(1)|large_intestine(8)|lung(19)|ovary(3)|prostate(2)|skin(2)|stomach(4)	45		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		AGATAAACTGAAAGAGATTTG	0.413																																																0													71	68	69					10																	98743653		2203	4300	6503	SO:0001583	missense	26148			BC024315	CCDS7452.1	10q24.2	2014-03-11			ENSG00000155640	ENSG00000155640			23420	protein-coding gene	gene with protein product						24550272	Standard	NM_015652		Approved	DKFZP564P1916, FLJ13022	uc001kmv.3	Q8N655	OTTHUMG00000018840	ENST00000286067.2:c.2506A>G	10.37:g.98743653A>G	ENSP00000286067:p.Lys836Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H945|Q9Y457	Missense_Mutation	SNP	ENST00000286067.2	37	CCDS7452.1	.	.	.	.	.	.	.	.	.	.	A	14.66	2.601386	0.46423	.	.	ENSG00000155640	ENST00000286067;ENST00000539886	T	0.08720	3.06	5.95	5.95	0.96441	.	0.000000	0.52532	D	0.000074	T	0.24005	0.0581	L	0.45581	1.43	0.40968	D	0.984676	D	0.89917	1.0	D	0.79784	0.993	T	0.00385	-1.1773	10	0.66056	D	0.02	-14.5334	16.4216	0.83760	1.0:0.0:0.0:0.0	.	836	Q8N655	CJ012_HUMAN	E	836;670	ENSP00000286067:K836E	ENSP00000286067:K836E	K	+	1	0	C10orf12	98733643	1.000000	0.71417	1.000000	0.80357	0.431000	0.31685	6.944000	0.75940	2.285000	0.76669	0.533000	0.62120	AAA		0.413	C10orf12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049627.1	NM_015652		G	98743653	A	G	98743653	3	3	679	1	0	0	0	0	1	0	0	0	1591	247	9	3	2508	3	C10orf12	10	98743653	Missense_Mutation	SNP	A	TCGA-KO-8408-01A-11D-2310-10	9050650	98743653	36791094	73	43893										
AP2A2	161	broad.mit.edu	37	chr11	970195	970195	+	Frame_Shift_Del	DEL	A	A	-													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	aggctcttgatggctatagtAaaaaaaagtacgtctgcaag							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr11:970195delA	ENST00000448903.2	+	3	304	c.163delA	c.(163-165)aaafs	p.K57fs	AP2A2_ENST00000332231.5_Frame_Shift_Del_p.K57fs|AP2A2_ENST00000534328.1_Frame_Shift_Del_p.K57fs	NM_001242837.1|NM_012305.3	NP_001229766.1|NP_036437.1	O94973	AP2A2_HUMAN	adaptor-related protein complex 2, alpha 2 subunit	57	Lipid-binding.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|axon guidance (GO:0007411)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|intracellular protein transport (GO:0006886)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of defense response to virus by virus (GO:0050690)|synaptic transmission (GO:0007268)|viral process (GO:0016032)	clathrin adaptor complex (GO:0030131)|clathrin-coated endocytic vesicle membrane (GO:0030669)|coated pit (GO:0005905)|cytosol (GO:0005829)|endocytic vesicle membrane (GO:0030666)|plasma membrane (GO:0005886)	lipid binding (GO:0008289)|protein kinase binding (GO:0019901)|protein transporter activity (GO:0008565)	p.K57fs*24(1)		breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(6)|ovary(2)	21		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.75e-24)|BRCA - Breast invasive adenocarcinoma(625;5.73e-05)|Lung(200;0.0696)|LUSC - Lung squamous cell carcinoma(625;0.082)		TGGCTATAGTAAAAAAAAGTA	0.488																																																1	Deletion - Frameshift(1)	large_intestine(1)											132	134	134					11																	970195		1937	4154	6091	SO:0001589	frameshift_variant	161			AB020706	CCDS44512.1, CCDS73234.1	11p15.5	2008-07-18			ENSG00000183020	ENSG00000183020			562	protein-coding gene	gene with protein product	"alpha-adaptin C; Huntingtin interacting protein J", "adaptin, alpha B", "clathrin-associated/assembly/adaptor protein, large, alpha 2"	607242		CLAPA2, ADTAB		9700202, 2564002	Standard	NM_012305		Approved	DKFZP564D1864, HYPJ, KIAA0899, HIP9	uc001lst.2	O94973	OTTHUMG00000165627	ENST00000448903.2:c.163delA	11.37:g.970195delA	ENSP00000413234:p.Lys57fs	Somatic		WXS	Illumina HiSeq	Phase_I	O75403|Q53ET1|Q96SI8	Frame_Shift_Del	DEL	ENST00000448903.2	37	CCDS44512.1																																																																																				0.488	AP2A2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000385431.2	NM_012305		-	970195	A	-	970195	7	5	679	1	0	1	0	1	0	0	0	0	740	363	13	0	173	0	AP2A2	11	970195	Frame_Shift_Del	DEL	A	TCGA-KO-8408-01A-11D-2310-10		970195	134036321	74	43894										
MUC2	4583	hgsc.bcm.edu	37	chr11	1092954	1092954	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cccatcaccaccaccactacGgtgaccccaaccccaacacc	3	23	1	1	rs56352686		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr11:1092954G>A	ENST00000359061.5	+	30	4776	c.4776G>A	c.(4774-4776)acG>acA	p.T1592T	MUC2_ENST00000441003.2_Silent_p.T1591T|MUC2_ENST00000361558.6_Intron|MUC2_ENST00000333592.6_5'Flank			Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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	0.627																																																0													52	85	74					11																	1092954		1812	3296	5108	SO:0001630	splice_region_variant	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000359061.5:c.4776+1G>A	11.37:g.1092954G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Silent	SNP	ENST00000359061.5	37																																																																																					0.627	MUC2-202	KNOWN	basic	protein_coding	protein_coding		NM_002457	Silent	A	1092954	G	A	1092954	5	1	679	1	0	0	0	0	0	0	1	0	9982	1103	39	1	4891	1	MUC2	11	1092954	Splice_Site	SNP	G	TCGA-KO-8408-01A-11D-2310-10	122759	1092954	133913562	75	43895										
NUP98	4928	broad.mit.edu	37	chr11	3793077	3793078	+	Frame_Shift_Ins	INS	-	-	A													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gaagtggctggagaagacccINSaaacaagccagttgtggtac							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr11:3793077_3793078insA	ENST00000324932.7	-	7	1104_1105	c.684_685insT	c.(682-687)tttgggfs	p.G229fs	NUP98_ENST00000397007.4_Frame_Shift_Ins_p.G229fs|NUP98_ENST00000397004.4_Frame_Shift_Ins_p.G229fs|NUP98_ENST00000355260.3_Frame_Shift_Ins_p.G229fs|NUP98_ENST00000359171.4_Frame_Shift_Ins_p.G229fs	NM_016320.4|NM_139132.3	NP_057404.2|NP_624358.2	P52948	NUP98_HUMAN	nucleoporin 98kDa	229	FG repeats 2.|Gly/Thr-rich.				carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|DNA replication (GO:0006260)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|nuclear pore complex assembly (GO:0051292)|nuclear pore organization (GO:0006999)|nucleocytoplasmic transport (GO:0006913)|protein import into nucleus, docking (GO:0000059)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytosol (GO:0005829)|nuclear envelope (GO:0005635)|nuclear inclusion body (GO:0042405)|nuclear membrane (GO:0031965)|nuclear periphery (GO:0034399)|nuclear pore (GO:0005643)|nuclear pore nuclear basket (GO:0044615)|nuclear pore outer ring (GO:0031080)|nucleoplasm (GO:0005654)	peptide binding (GO:0042277)|structural constituent of nuclear pore (GO:0017056)|transporter activity (GO:0005215)			NS(1)|autonomic_ganglia(1)|breast(8)|central_nervous_system(1)|endometrium(5)|kidney(5)|large_intestine(13)|liver(1)|lung(15)|ovary(2)|prostate(2)|skin(9)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	66		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		GGAGAAGACCCAAACAAGCCAG	0.5			T	"HOXA9, NSD1, WHSC1L1, DDX10, TOP1, HOXD13, PMX1, HOXA13, HOXD11, HOXA11, RAP1GDS1, HOXC11"	AML																																		Dom	yes		11	11p15	4928	nucleoporin 98kDa		L	0																																										SO:0001589	frameshift_variant	4928			AF071076, AF231130, BC012906, BG773331	CCDS7746.1, CCDS31347.1, CCDS41605.1, CCDS41606.1	11p15	2008-02-26	2002-08-29		ENSG00000110713	ENSG00000110713			8068	protein-coding gene	gene with protein product		601021	"nucleoporin 98kD"			9166830	Standard	NM_139131		Approved	NUP96	uc001lyh.3	P52948	OTTHUMG00000011846	ENST00000324932.7:c.685dupT	11.37:g.3793080_3793080dupA	ENSP00000316032:p.Gly229fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUT2|Q8WYB0|Q96E54|Q9H3Q4|Q9NT02|Q9UF57|Q9UHX0|Q9Y6J4|Q9Y6J5	Frame_Shift_Ins	INS	ENST00000324932.7	37	CCDS7746.1																																																																																				0.5	NUP98-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032766.3	NM_016320		A	3793078	-	A	3793077	7	5	679	1	0	1	1	0	0	0	0	0	10780	594	21	0	4897	0	NUP98	11	3793077	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	2700123	3793077	131213439	76	43896										
SMPD1	322	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr11	6415260	6415260	+	IGR	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cagtgcaactacctacatcgGccttaatcctggtgagtgag	10	11	0	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr11:6415260G>C	ENST00000609360.1	-	0	2642				SMPD1_ENST00000299397.3_Missense_Mutation_p.G448A|APBB1_ENST00000526240.1_5'Flank|SMPD1_ENST00000527275.1_Missense_Mutation_p.G491A|SMPD1_ENST00000356761.2_Missense_Mutation_p.G436A|SMPD1_ENST00000342245.4_Missense_Mutation_p.G492A	NM_001164.3	NP_001155.1	O00213	APBB1_HUMAN	amyloid beta (A4) precursor protein-binding, family B, member 1 (Fe65)						apoptotic process (GO:0006915)|axonogenesis (GO:0007409)|cell cycle arrest (GO:0007050)|cellular response to DNA damage stimulus (GO:0006974)|histone H4 acetylation (GO:0043967)|negative regulation of cell growth (GO:0030308)|negative regulation of thymidylate synthase biosynthetic process (GO:0050760)|positive regulation of apoptotic process (GO:0043065)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|growth cone (GO:0030426)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|synapse (GO:0045202)	beta-amyloid binding (GO:0001540)|chromatin binding (GO:0003682)|histone binding (GO:0042393)|proline-rich region binding (GO:0070064)|transcription factor binding (GO:0008134)			breast(4)|endometrium(3)|kidney(1)|large_intestine(7)|lung(5)|prostate(2)|skin(1)|urinary_tract(1)	24		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;6.49e-08)|BRCA - Breast invasive adenocarcinoma(625;0.194)		ACCTACATCGGCCTTAATCCT	0.557																																					GBM(147;1810 2556 5672 39622)											0													51	52	52					11																	6415260		2201	4296	6497	SO:0001628	intergenic_variant	6609			L77864	CCDS31410.1, CCDS58114.1, CCDS66015.1, CCDS66016.1, CCDS66017.1, CCDS66018.1	11p15	2008-02-01				ENSG00000166313			581	protein-coding gene	gene with protein product		602709		RIR		8955346, 8894693	Standard	NM_001164		Approved	Fe65	uc001mcy.1	O00213			11.37:g.6415260G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A1E379|A6NH82|A6NL69|B7Z1J5|B7Z1J6|B7Z2Y0|D3DQT2|Q7Z324|Q96A93|V9GYK0|V9GYT4	Missense_Mutation	SNP	ENST00000609360.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	11.40|11.40	1.626864|1.626864	0.28978|0.28978	.|.	.|.	ENSG00000166311|ENSG00000166311	ENST00000526280|ENST00000299397;ENST00000356761;ENST00000342245;ENST00000527275	.|D;D;D;D	.|0.85484	.|-1.99;-1.99;-1.99;-1.99	4.74|4.74	1.58|1.58	0.23477|0.23477	.|.	.|0.866705	.|0.10215	.|N	.|0.701671	T|T	0.78059|0.78059	0.4224|0.4224	L|L	0.46157|0.46157	1.445|1.445	0.09310|0.09310	N|N	0.999999|0.999999	.|B;B;B	.|0.16396	.|0.008;0.017;0.003	.|B;B;B	.|0.15052	.|0.006;0.012;0.005	T|T	0.64803|0.64803	-0.6321|-0.6321	5|10	.|0.41790	.|T	.|0.15	-36.4075|-36.4075	5.4497|5.4497	0.16556|0.16556	0.5195:0.0:0.4805:0.0|0.5195:0.0:0.4805:0.0	.|.	.|491;448;490	.|E9PKS3;G3XAB5;P17405	.|.;.;ASM_HUMAN	P|A	178|448;436;492;491	.|ENSP00000299397:G448A;ENSP00000349203:G436A;ENSP00000340409:G492A;ENSP00000435350:G491A	.|ENSP00000299397:G448A	A|G	+|+	1|2	0|0	SMPD1|SMPD1	6371836|6371836	0.995000|0.995000	0.38212|0.38212	0.327000|0.327000	0.25402|0.25402	0.958000|0.958000	0.62258|0.62258	3.263000|3.263000	0.51546|0.51546	0.601000|0.601000	0.29879|0.29879	-0.291000|-0.291000	0.09656|0.09656	GCC|GGC		0.557	APBB1-023	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000471831.1	NM_001164		C	6415260	G	C	6415260	1	2	679	0	1	0	0	0	0	0	0	0	14817	1203	42	4		4	SMPD1	11	6415260	IGR	SNP	G	TCGA-KO-8408-01A-11D-2310-10	2622183	6415260	128591256	77	43897										
INSC	387755	broad.mit.edu	37	chr11	15267583	15267583	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	aacatggaggagagttttgtGtagtgagtgtgggcgaagaa	17	2	0	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr11:15267583G>T	ENST00000379554.3	+	13	1783	c.1737G>T	c.(1735-1737)gtG>gtT	p.V579V	INSC_ENST00000525218.1_Silent_p.V490V|INSC_ENST00000379556.3_Silent_p.V532V|INSC_ENST00000447214.2_3'UTR|INSC_ENST00000530161.1_Silent_p.V532V|INSC_ENST00000528567.1_3'UTR|INSC_ENST00000424273.1_Silent_p.V490V	NM_001031853.3	NP_001027024.3	Q1MX18	INSC_HUMAN	inscuteable homolog (Drosophila)	579					establishment of mitotic spindle orientation (GO:0000132)|lung epithelial cell differentiation (GO:0060487)|nervous system development (GO:0007399)	apical part of cell (GO:0045177)|cytoplasm (GO:0005737)				NS(2)|breast(1)|central_nervous_system(2)|endometrium(6)|kidney(4)|large_intestine(3)|lung(24)|ovary(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	49						AGAGTTTTGTGTAGTGAGTGT	0.517																																																0													128	127	127					11																	15267583		1991	4169	6160	SO:0001819	synonymous_variant	387755			AB231744	CCDS41621.1, CCDS41622.1, CCDS60735.1, CCDS60736.1	11p15.2	2014-02-05			ENSG00000188487	ENSG00000188487			33116	protein-coding gene	gene with protein product	"inscuteable spindle orientation adaptor protein"	610668				16458856	Standard	NM_001031853		Approved		uc001mly.4	Q1MX18	OTTHUMG00000165838	ENST00000379554.3:c.1737G>T	11.37:g.15267583G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJX5|Q1MX19|Q3C1V6|Q4AC95|Q4AC96|Q4AC97|Q4AC98	Silent	SNP	ENST00000379554.3	37	CCDS41621.1																																																																																				0.517	INSC-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000386590.1	NM_001031853		T	15267583	G	T	15267583	2	4	679	1	0	0	0	0	0	0	0	1	7771	1364	48	4		4	INSC	11	15267583	Silent	SNP	G	TCGA-KO-8408-01A-11D-2310-10	8852323	15267583	119738933	78	43898										
CD5	921	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr11	60886402	60886402	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tgcagaaccccagaagacaaCacctccaacgacaaggcccc	7	17	0	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr11:60886402C>G	ENST00000347785.3	+	4	582	c.416C>G	c.(415-417)aCa>aGa	p.T139R		NM_014207.3	NP_055022.2	P06127	CD5_HUMAN	CD5 molecule	139					apoptotic signaling pathway (GO:0097190)|cell proliferation (GO:0008283)|cell recognition (GO:0008037)|T cell costimulation (GO:0031295)	external side of plasma membrane (GO:0009897)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	receptor activity (GO:0004872)|scavenger receptor activity (GO:0005044)|transmembrane signaling receptor activity (GO:0004888)			central_nervous_system(1)|large_intestine(4)|lung(10)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	19		all_lung(304;5.94e-05)|Lung NSC(402;7.26e-05)		BRCA - Breast invasive adenocarcinoma(625;0.000946)|Lung(977;0.0086)|LUSC - Lung squamous cell carcinoma(625;0.0528)		CAGAAGACAACACCTCCAACG	0.597																																																0													129	112	118					11																	60886402		2202	4299	6501	SO:0001583	missense	921			X04391	CCDS8000.1	11q13	2008-07-18	2006-03-28		ENSG00000110448	ENSG00000110448		"CD molecules"	1685	protein-coding gene	gene with protein product		153340	"CD5 antigen (p56-62)"	LEU1		1711157	Standard	NM_014207		Approved	T1	uc009ynk.3	P06127	OTTHUMG00000167825	ENST00000347785.3:c.416C>G	11.37:g.60886402C>G	ENSP00000342681:p.Thr139Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A0N0P4|A8K9I3	Missense_Mutation	SNP	ENST00000347785.3	37	CCDS8000.1	.	.	.	.	.	.	.	.	.	.	C	8.539	0.872797	0.17322	.	.	ENSG00000110448	ENST00000347785;ENST00000544014	T;T	0.28666	1.6;1.6	4.43	3.51	0.40186	Speract/scavenger receptor-related (1);	0.670897	0.13065	N	0.416574	T	0.31702	0.0805	M	0.68317	2.08	0.09310	N	1	B	0.23316	0.083	B	0.15870	0.014	T	0.17653	-1.0362	10	0.42905	T	0.14	-0.064	10.4904	0.44748	0.0:0.8029:0.1971:0.0	.	139	P06127	CD5_HUMAN	R	139	ENSP00000342681:T139R;ENSP00000440899:T139R	ENSP00000342681:T139R	T	+	2	0	CD5	60642978	0.000000	0.05858	0.006000	0.13384	0.018000	0.09664	0.428000	0.21395	1.198000	0.43158	-0.233000	0.12211	ACA		0.597	CD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396465.2	NM_014207		G	60886402	C	G	60886402	3	3	679	1	0	0	0	0	1	0	0	0	3023	478	17	4	430	4	CD5	11	60886402	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	45618819	60886402	74120114	79	43899										
C11orf9	745	broad.mit.edu	37	chr11	61544745	61544745	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	actcgcggtaggcctccaacCcaggccagttcgagagcgac	12	15	0	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr11:61544745C>T	ENST00000278836.5	+	12	1696	c.1600C>T	c.(1600-1602)Cca>Tca	p.P534S	MYRF_ENST00000327797.1_Missense_Mutation_p.P159S|TMEM258_ENST00000535042.1_Intron|MYRF_ENST00000265460.5_Missense_Mutation_p.P525S|MYRF_ENST00000389602.4_5'Flank	NM_001127392.1	NP_001120864.1	Q9Y2G1	MRF_HUMAN	myelin regulatory factor	534					central nervous system myelin maintenance (GO:0032286)|central nervous system myelination (GO:0022010)|oligodendrocyte development (GO:0014003)|oligodendrocyte differentiation (GO:0048709)|positive regulation of myelination (GO:0031643)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	DNA binding (GO:0003677)|peptidase activity (GO:0008233)|sequence-specific DNA binding transcription factor activity (GO:0003700)										GGCCTCCAACCCAGGCCAGTT	0.677																																																0													47	45	45					11																	61544745		2202	4298	6500	SO:0001583	missense	745				CCDS31579.1, CCDS44622.1	11q12-q13.1	2012-12-19	2012-12-19	2012-12-19	ENSG00000124920	ENSG00000124920			1181	protein-coding gene	gene with protein product	"myelin gene regulatory factor"	608329	"chromosome 11 open reading frame 9"	C11orf9		10828591, 12384578	Standard	NM_001127392		Approved	Ndt80, pqn-47, MRF	uc001nsc.1	Q9Y2G1	OTTHUMG00000168161	ENST00000278836.5:c.1600C>T	11.37:g.61544745C>T	ENSP00000278836:p.Pro534Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O43582|Q9P1Q6	Missense_Mutation	SNP	ENST00000278836.5	37	CCDS44622.1	.	.	.	.	.	.	.	.	.	.	C	25.1	4.606695	0.87157	.	.	ENSG00000124920	ENST00000278836;ENST00000265460;ENST00000327797	D;D;T	0.89270	-2.49;-2.45;-0.96	3.83	3.83	0.44106	NDT80 DNA-binding domain (3);p53-like transcription factor, DNA-binding (1);	0.000000	0.85682	D	0.000000	D	0.95629	0.8579	M	0.92738	3.34	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.83275	0.996;0.992	D	0.97004	0.9731	10	0.87932	D	0	-9.9032	16.617	0.84918	0.0:1.0:0.0:0.0	.	525;534	Q9Y2G1-2;Q9Y2G1	.;MRF_HUMAN	S	534;525;159	ENSP00000278836:P534S;ENSP00000265460:P525S;ENSP00000333261:P159S	ENSP00000265460:P525S	P	+	1	0	C11orf9	61301321	1.000000	0.71417	0.997000	0.53966	0.949000	0.60115	7.410000	0.80065	2.081000	0.62600	0.313000	0.20887	CCA		0.677	MYRF-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000398519.2	NM_013279		T	61544745	C	T	61544745	3	4	679	1	0	0	0	0	1	0	0	0	1673	623	22	2	1669	2	C11orf9	11	61544745	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	658343	61544745	73461771	80	43900										
YAP1	10413	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	102098274	102098274	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ctacagtgtccctcgaacccCagatgacttcctgaacagtg	8	14	0	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr11:102098274C>A	ENST00000282441.5	+	8	1626	c.1238C>A	c.(1237-1239)cCa>cAa	p.P413Q	YAP1_ENST00000526343.1_Missense_Mutation_p.P359Q|YAP1_ENST00000524575.1_Missense_Mutation_p.P235Q|YAP1_ENST00000528834.1_3'UTR|YAP1_ENST00000345877.2_Missense_Mutation_p.P363Q|YAP1_ENST00000531439.1_Missense_Mutation_p.P397Q|YAP1_ENST00000537274.1_Missense_Mutation_p.P401Q|RP11-864G5.3_ENST00000526310.1_RNA	NM_001130145.2|NM_001282101.1	NP_001123617.1|NP_001269030.1	P46937	YAP1_HUMAN	Yes-associated protein 1	413	Transactivation domain.				cell proliferation (GO:0008283)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to gamma radiation (GO:0071480)|contact inhibition (GO:0060242)|embryonic heart tube morphogenesis (GO:0003143)|gene expression (GO:0010467)|hippo signaling (GO:0035329)|keratinocyte differentiation (GO:0030216)|lateral mesoderm development (GO:0048368)|negative regulation of epithelial cell differentiation (GO:0030857)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|notochord development (GO:0030903)|paraxial mesoderm development (GO:0048339)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cell proliferation (GO:0008284)|positive regulation of organ growth (GO:0046622)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of keratinocyte proliferation (GO:0010837)|regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072307)|regulation of stem cell proliferation (GO:0072091)|somatic stem cell maintenance (GO:0035019)|transcription initiation from RNA polymerase II promoter (GO:0006367)|vasculogenesis (GO:0001570)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|RNA polymerase II transcription factor binding transcription factor activity (GO:0001076)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)|transcription regulatory region DNA binding (GO:0044212)			central_nervous_system(1)|large_intestine(1)|lung(1)|ovary(1)	4	all_cancers(8;0.000575)|all_epithelial(12;0.00564)	Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.00936)	Lung(13;0.245)	BRCA - Breast invasive adenocarcinoma(274;0.0189)		CCTCGAACCCCAGATGACTTC	0.448																																					Colon(50;247 1103 7861 28956)											0													190	139	157					11																	102098274		2203	4299	6502	SO:0001583	missense	10413				CCDS8314.1, CCDS44716.1, CCDS8314.2, CCDS53699.1, CCDS53700.1, CCDS60944.1, CCDS73373.1, CCDS73374.1	11q13	2010-03-19	2010-03-19		ENSG00000137693	ENSG00000137693			16262	protein-coding gene	gene with protein product		606608	"Yes-associated protein 1, 65kDa"			7782338	Standard	NM_001130145		Approved	YAP65	uc001pgt.3	P46937	OTTHUMG00000167322	ENST00000282441.5:c.1238C>A	11.37:g.102098274C>A	ENSP00000282441:p.Pro413Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTY1|B7ZA01|E3WEB5|E3WEB6|E9PRV2|F5H202|K0KQ18|K0KYZ8|K0L195|K0L1G3|Q7Z574|Q8IUY9	Missense_Mutation	SNP	ENST00000282441.5	37	CCDS44716.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	20.8|20.8	4.054360|4.054360	0.75960|0.75960	.|.	.|.	ENSG00000137693|ENSG00000137693	ENST00000526343;ENST00000282441;ENST00000537274;ENST00000345877;ENST00000445250;ENST00000531439;ENST00000524575|ENST00000529029	T;T;T|.	0.66638|.	-0.19;-0.22;-0.05|.	5.31|5.31	5.31|5.31	0.75309|0.75309	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.76083|0.76083	0.3938|0.3938	M|M	0.72894|0.72894	2.215|2.215	0.80722|0.80722	D|D	1|1	D;D;D;D;D;D|.	0.89917|.	0.998;1.0;1.0;1.0;1.0;1.0|.	D;D;D;D;D;D|.	0.91635|.	0.991;0.999;0.997;0.994;0.998;0.999|.	T|T	0.75519|0.75519	-0.3289|-0.3289	10|5	0.87932|.	D|.	0|.	.|.	18.9673|18.9673	0.92701|0.92701	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	235;330;359;397;413;363|.	B4DTY1;F5GWC5;E9PRV2;P46937-2;P46937;P46937-3|.	.;.;.;.;YAP1_HUMAN;.|.	Q|K	359;413;401;363;330;397;235|167	ENSP00000434134:P359Q;ENSP00000331023:P363Q;ENSP00000435602:P235Q|.	ENSP00000282441:P413Q|.	P|Q	+|+	2|1	0|0	YAP1|YAP1	101603484|101603484	1.000000|1.000000	0.71417|0.71417	0.839000|0.839000	0.33178|0.33178	0.456000|0.456000	0.32438|0.32438	7.461000|7.461000	0.80834|0.80834	2.492000|2.492000	0.84095|0.84095	0.650000|0.650000	0.86243|0.86243	CCA|CAG		0.448	YAP1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000394151.1	NM_006106		A	102098274	C	A	102098274	3	1	679	1	0	0	0	0	1	0	0	0	17478	594	21	4	1280	4	YAP1	11	102098274	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	40553529	102098274	32908242	81	43901										
DDI1	414301	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	103908145	103908145	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tgagagagcaagagaggcttCgtctctacacagccgaccca	11	12	1	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr11:103908145C>T	ENST00000302259.3	+	1	838	c.595C>T	c.(595-597)Cgt>Tgt	p.R199C	PDGFD_ENST00000302251.5_Intron|PDGFD_ENST00000393158.2_Intron	NM_001001711.2	NP_001001711.1	Q8WTU0	DDI1_HUMAN	DNA-damage inducible 1 homolog 1 (S. cerevisiae)	199							aspartic-type endopeptidase activity (GO:0004190)			central_nervous_system(1)|endometrium(4)|kidney(4)|large_intestine(12)|liver(2)|lung(21)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	52		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)		AGAGAGGCTTCGTCTCTACAC	0.512																																																0													63	70	67					11																	103908145		2202	4299	6501	SO:0001583	missense	414301				CCDS31660.1	11q22.3	2010-05-04	2010-05-04			ENSG00000170967			18961	protein-coding gene	gene with protein product			"DDI1, DNA-damage inducible 1, homolog 1 (S. cerevisiae)"				Standard	NM_001001711		Approved	FLJ36017	uc001phr.2	Q8WTU0		ENST00000302259.3:c.595C>T	11.37:g.103908145C>T	ENSP00000302805:p.Arg199Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z4U6|Q8WTS3	Missense_Mutation	SNP	ENST00000302259.3	37	CCDS31660.1	.	.	.	.	.	.	.	.	.	.	C	10.61	1.399903	0.25291	.	.	ENSG00000170967	ENST00000302259	T	0.26373	1.74	5.02	4.11	0.48088	.	0.178859	0.47455	N	0.000226	T	0.50154	0.1599	M	0.84326	2.69	0.09310	N	0.999997	D	0.89917	1.0	D	0.65874	0.939	T	0.46414	-0.9193	10	0.66056	D	0.02	-26.6368	11.8166	0.52214	0.0:0.9145:0.0:0.0855	.	199	Q8WTU0	DDI1_HUMAN	C	199	ENSP00000302805:R199C	ENSP00000302805:R199C	R	+	1	0	DDI1	103413355	0.845000	0.29573	0.014000	0.15608	0.012000	0.07955	2.207000	0.42788	1.502000	0.48669	-0.126000	0.14955	CGT		0.512	DDI1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387326.1	NM_001001711		T	103908145	C	T	103908145	3	4	679	1	0	0	0	0	1	0	0	0	4330	884	31	1	597	1	DDI1	11	103908145	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	1809871	103908145	31098371	82	43902										
SLC35F2	54733	broad.mit.edu	37	chr11	107676203	107676204	+	Frame_Shift_Ins	INS	-	-	A													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	atggcatagagggaagccccINSaagaaggaccaagatgtcac							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr11:107676203_107676204insA	ENST00000525815.1	-	5	1032_1033	c.612_613insT	c.(610-615)cttgggfs	p.G205fs	SLC35F2_ENST00000375682.4_Frame_Shift_Ins_p.G158fs|SLC35F2_ENST00000525071.1_Frame_Shift_Ins_p.G205fs|SLC35F2_ENST00000429869.1_Frame_Shift_Ins_p.G205fs|SLC35F2_ENST00000265836.7_Frame_Shift_Ins_p.G57fs	NM_017515.4	NP_059985.2	Q8IXU6	S35F2_HUMAN	solute carrier family 35, member F2	205					transport (GO:0006810)	integral component of membrane (GO:0016021)				breast(1)|central_nervous_system(1)|endometrium(1)|lung(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	8		all_cancers(61;9.46e-06)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;0.000111)|all_hematologic(158;0.000315)|all_epithelial(67;0.00197)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)|Epithelial(105;0.000105)|all cancers(92;0.00217)		AGGGAAGCCCCAAGAAGGACCA	0.465																																																0																																										SO:0001589	frameshift_variant	54733				CCDS41709.1	11q22.3	2013-05-22			ENSG00000110660	ENSG00000110660		"Solute carriers"	23615	protein-coding gene	gene with protein product						9119394	Standard	NM_017515		Approved	FLJ13018	uc001pjq.3	Q8IXU6	OTTHUMG00000166366	ENST00000525815.1:c.613dupT	11.37:g.107676205_107676205dupA	ENSP00000436785:p.Gly205fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q14963|Q5JPA8|Q6ZRQ3|Q9H947	Frame_Shift_Ins	INS	ENST00000525815.1	37	CCDS41709.1																																																																																				0.465	SLC35F2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389417.1	NM_017515		A	107676204	-	A	107676203	7	5	679	1	0	1	1	0	0	0	0	0	14602	594	21	0	527	0	SLC35F2	11	107676203	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	3768058	107676203	27330313	83	43903										
EXPH5	23086	broad.mit.edu	37	chr11	108381019	108381020	+	Frame_Shift_Ins	INS	-	-	G													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	aattctgcttccctgaggctINSggtgaatgtgatgggtgatg							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr11:108381019_108381020insG	ENST00000265843.4	-	6	5324_5325	c.5214_5215insC	c.(5212-5217)accagcfs	p.S1739fs	EXPH5_ENST00000443411.1_Frame_Shift_Ins_p.S1551fs|EXPH5_ENST00000525344.1_Frame_Shift_Ins_p.S1732fs|EXPH5_ENST00000428840.1_Frame_Shift_Ins_p.S1663fs	NM_015065.2	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5	1739					intracellular protein transport (GO:0006886)|keratinocyte development (GO:0003334)|multivesicular body sorting pathway (GO:0071985)|positive regulation of exocytosis (GO:0045921)|positive regulation of protein secretion (GO:0050714)	endosome (GO:0005768)	Rab GTPase binding (GO:0017137)			breast(3)|central_nervous_system(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(13)|liver(1)|lung(34)|ovary(3)|pancreas(2)|prostate(2)|skin(11)|stomach(3)|upper_aerodigestive_tract(1)	91		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)		TCCCTGAGGCTGGTGAATGTGA	0.49																																																0																																										SO:0001589	frameshift_variant	23086				CCDS8341.1	11q22.3	2008-02-05			ENSG00000110723	ENSG00000110723			30578	protein-coding gene	gene with protein product	"synaptotagmin-like homologue lacking C2 domains b"	612878				9734811, 11773082	Standard	NM_015065		Approved	SLAC2-B	uc001pkk.3	Q8NEV8	OTTHUMG00000166536	ENST00000265843.4:c.5215dupC	11.37:g.108381021_108381021dupG	ENSP00000265843:p.Ser1739fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q2KHM1|Q9Y4D6	Frame_Shift_Ins	INS	ENST00000265843.4	37	CCDS8341.1																																																																																				0.49	EXPH5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390279.1	NM_015065		G	108381020	-	G	108381019	7	5	679	1	0	1	1	0	0	0	0	0	5324	1580	55	0	758	0	EXPH5	11	108381019	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	704816	108381019	26625497	84	43904										
POU2F3	25833	broad.mit.edu	37	chr11	120173026	120173026	+	Frame_Shift_Del	DEL	G	G	-													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	aatctcctcccctttccacaGcaacaaagcggtctcctcct							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr11:120173026delG	ENST00000543440.2	+	6	543	c.393delG	c.(391-393)cagfs	p.Q133fs	POU2F3_ENST00000260264.4_Frame_Shift_Del_p.Q135fs	NM_014352.3	NP_055167.2	Q9UKI9	PO2F3_HUMAN	POU class 2 homeobox 3	133					epidermis development (GO:0008544)|keratinocyte differentiation (GO:0030216)|negative regulation by host of viral transcription (GO:0043922)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|wound healing (GO:0042060)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding (GO:0043565)			large_intestine(5)|lung(7)|ovary(2)|prostate(2)|skin(1)	17		Breast(109;0.0011)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;6.85e-06)		CCTTTCCACAGCAACAAAGCG	0.512											OREG0021420	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													153	129	137					11																	120173026		2203	4300	6503	SO:0001589	frameshift_variant	25833			AF133895	CCDS8431.1, CCDS58190.1	11q23.3	2011-06-20	2007-07-13		ENSG00000137709	ENSG00000137709		"Homeoboxes / POU class"	19864	protein-coding gene	gene with protein product		607394	"POU domain class 2, transcription factor 3"			10473598	Standard	NM_014352		Approved	OCT11, PLA-1, Skn-1a, Epoc-1	uc021qrk.1	Q9UKI9	OTTHUMG00000166140	ENST00000543440.2:c.393delG	11.37:g.120173026delG	ENSP00000441687:p.Gln133fs	Somatic	1501	WXS	Illumina HiSeq	Phase_I	A8K7H8|B4DY07|F5GWW6|Q3MIY3|Q9UKR7|Q9Y504	Frame_Shift_Del	DEL	ENST00000543440.2	37	CCDS8431.1																																																																																				0.512	POU2F3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388039.2			-	120173026	G	-	120173026	7	5	679	1	0	1	0	1	0	0	0	0	12280	962	34	0	415	0	POU2F3	11	120173026	Frame_Shift_Del	DEL	G	TCGA-KO-8408-01A-11D-2310-10	11792007	120173026	14833490	85	43905										
ST14	6768	broad.mit.edu	37	chr11	130079400	130079401	+	Frame_Shift_Ins	INS	-	-	C													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	aaccagaccacctgcgagaaINScctcctgccgcagcagatca							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr11:130079400_130079401insC	ENST00000278742.5	+	18	2751_2752	c.2333_2334insC	c.(2332-2337)aacctcfs	p.L779fs		NM_021978.3	NP_068813.1	Q9Y5Y6	ST14_HUMAN	suppression of tumorigenicity 14 (colon carcinoma)	779	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				keratinocyte differentiation (GO:0030216)|proteolysis (GO:0006508)	basolateral plasma membrane (GO:0016323)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|extrinsic component of plasma membrane (GO:0019897)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(4)|lung(12)|ovary(3)|pancreas(2)|prostate(1)|skin(3)	32	all_hematologic(175;0.0429)	Lung NSC(97;0.000602)|Breast(109;0.000962)|all_lung(97;0.00126)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0183)|Lung(977;0.228)	Urokinase(DB00013)	ACCTGCGAGAACCTCCTGCCGC	0.698																																																0																																										SO:0001589	frameshift_variant	6768			AF118224	CCDS8487.1	11q24-q25	2011-08-31	2005-11-19		ENSG00000149418	ENSG00000149418		"Serine peptidases / Transmembrane"	11344	protein-coding gene	gene with protein product	"epithin", "matriptase"	606797		PRSS14		9925927, 10373424	Standard	NM_021978		Approved	SNC19, HAI, MT-SP1, TMPRSS14	uc001qfw.3	Q9Y5Y6	OTTHUMG00000165768	ENST00000278742.5:c.2335dupC	11.37:g.130079402_130079402dupC	ENSP00000278742:p.Leu779fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BS01|Q9H3S0|Q9HB36|Q9HCA3	Frame_Shift_Ins	INS	ENST00000278742.5	37	CCDS8487.1																																																																																				0.698	ST14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386119.1			C	130079401	-	C	130079400	7	5	679	1	0	1	1	0	0	0	0	0	15223	43	2	0	2403	0	ST14	11	130079400	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	9906374	130079400	4927116	86	43906										
LST-3TM12	338821	broad.mit.edu;mdanderson.org	37	chr12	21242950	21242950	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	catggaaaggataccaaagtAttagaaaatgaaagacaagt	9	4	0	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr12:21242950A>G	ENST00000421593.2	+	13	1833	c.1833A>G	c.(1831-1833)gtA>gtG	p.V611V	SLCO1B3_ENST00000553473.1_Silent_p.V719V|RP11-125O5.2_ENST00000590779.1_Intron|SLCO1B7_ENST00000554957.1_Silent_p.V658V|LST3_ENST00000540229.1_Silent_p.V719V|LST3_ENST00000381541.3_Silent_p.V658V	NM_001009562.4	NP_001009562.3	G3V0H7	SO1B7_HUMAN	solute carrier organic anion transporter family, member 1B7 (non-functional)	611						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(25)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	46						ATACCAAAGTATTAGAAAATG	0.328																																																0													49	52	51					12																	21242950		2038	4228	6266	SO:0001819	synonymous_variant	338821			AF401642	CCDS44843.1	12p12.3	2013-05-22			ENSG00000205754	ENSG00000205754		"Solute carriers"	32934	protein-coding gene	gene with protein product							Standard	NM_001009562		Approved	LST3, SLC21A21		G3V0H7	OTTHUMG00000169045	ENST00000421593.2:c.1833A>G	12.37:g.21242950A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q71QF0	Silent	SNP	ENST00000421593.2	37	CCDS44843.1																																																																																				0.328	SLCO1B7-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000402066.1	NM_001009562		G	21242950	A	G	21242950	2	3	679	1	0	0	0	0	0	0	0	1	9073	436	16	3		3	LST-3TM12	12	21242950	Silent	SNP	A	TCGA-KO-8408-01A-11D-2310-10		21242950	112608945	87	43907										
E2F7	144455	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr12	77419483	77419483	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ggtctgcagaagggagtgtgGacgactttggattaaccaca	14	7	1	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr12:77419483G>A	ENST00000322886.7	-	12	2655	c.2420C>T	c.(2419-2421)tCc>tTc	p.S807F	E2F7_ENST00000416496.2_Intron	NM_203394.2	NP_976328.2	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	807					chorionic trophoblast cell differentiation (GO:0060718)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|hepatocyte differentiation (GO:0070365)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cytokinesis (GO:0032466)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0071930)|placenta development (GO:0001890)|positive regulation of DNA endoreduplication (GO:0032877)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|sprouting angiogenesis (GO:0002040)|trophoblast giant cell differentiation (GO:0060707)	nucleus (GO:0005634)|transcription factor complex (GO:0005667)	core promoter binding (GO:0001047)|identical protein binding (GO:0042802)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001227)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			central_nervous_system(1)|endometrium(3)|kidney(4)|large_intestine(15)|lung(14)|ovary(3)|upper_aerodigestive_tract(2)	42						AGGGAGTGTGGACGACTTTGG	0.537																																																0													148	132	137					12																	77419483		2203	4300	6503	SO:0001583	missense	144455			BC016658	CCDS9016.1	12q21.1	2008-02-05				ENSG00000165891			23820	protein-coding gene	gene with protein product		612046				12893818	Standard	NM_203394		Approved		uc001sym.4	Q96AV8	OTTHUMG00000169969	ENST00000322886.7:c.2420C>T	12.37:g.77419483G>A	ENSP00000323246:p.Ser807Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A6NC74|B2RMR7|B3KTZ5|B3KUP8|B5MED9	Missense_Mutation	SNP	ENST00000322886.7	37	CCDS9016.1	.	.	.	.	.	.	.	.	.	.	G	13.13	2.145117	0.37825	.	.	ENSG00000165891	ENST00000322886;ENST00000339887	T	0.22336	1.96	5.91	5.03	0.67393	.	0.134260	0.51477	D	0.000082	T	0.15912	0.0383	N	0.19112	0.55	0.47511	D	0.999448	P	0.44627	0.839	B	0.41723	0.365	T	0.02676	-1.1125	10	0.62326	D	0.03	-5.9471	12.4126	0.55476	0.0769:0.0:0.9231:0.0	.	807	Q96AV8	E2F7_HUMAN	F	807;278	ENSP00000323246:S807F	ENSP00000323246:S807F	S	-	2	0	E2F7	75943614	0.950000	0.32346	0.031000	0.17742	0.913000	0.54294	4.727000	0.61993	1.524000	0.49035	0.650000	0.86243	TCC		0.537	E2F7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406716.1	XM_084871		A	77419483	G	A	77419483	3	1	679	1	0	0	0	0	1	0	0	0	4874	1174	41	2	323	2	E2F7	12	77419483	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	56176533	77419483	56432412	88	43908										
MYBPC1	4604	mdanderson.org;bcgsc.ca	37	chr12	102043096	102043096	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	caagataccgaattagagttGagggtaaaaaacacatcttg	9	6	1	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr12:102043096G>T	ENST00000550270.1	+	13	1180	c.1180G>T	c.(1180-1182)Gag>Tag	p.E394*	MYBPC1_ENST00000452455.2_Nonsense_Mutation_p.E394*|MYBPC1_ENST00000551300.1_Nonsense_Mutation_p.E295*|MYBPC1_ENST00000547405.1_Nonsense_Mutation_p.E368*|MYBPC1_ENST00000361685.2_Nonsense_Mutation_p.E419*|MYBPC1_ENST00000553190.1_Nonsense_Mutation_p.E394*|MYBPC1_ENST00000361466.2_Nonsense_Mutation_p.E419*|MYBPC1_ENST00000545503.2_Nonsense_Mutation_p.E394*|MYBPC1_ENST00000392934.3_Nonsense_Mutation_p.E381*|RP11-755O11.2_ENST00000547027.1_RNA|MYBPC1_ENST00000441232.1_Nonsense_Mutation_p.E394*|MYBPC1_ENST00000547509.1_Nonsense_Mutation_p.E380*|MYBPC1_ENST00000536007.1_Nonsense_Mutation_p.E375*|MYBPC1_ENST00000549145.1_Nonsense_Mutation_p.E407*|MYBPC1_ENST00000550501.1_Intron|MYBPC1_ENST00000360610.2_Nonsense_Mutation_p.E394*|RP11-755O11.2_ENST00000552081.1_RNA|MYBPC1_ENST00000541119.1_Nonsense_Mutation_p.E382*			Q00872	MYPC1_HUMAN	myosin binding protein C, slow type	394	Ig-like C2-type 3.				cell adhesion (GO:0007155)|muscle filament sliding (GO:0030049)	cytosol (GO:0005829)|myofibril (GO:0030016)|myosin filament (GO:0032982)	structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			breast(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(9)|liver(1)|lung(22)|ovary(4)|prostate(1)|skin(4)|urinary_tract(2)	57						AATTAGAGTTGAGGGTAAAAA	0.353																																																0													126	119	122					12																	102043096		2203	4300	6503	SO:0001587	stop_gained	4604				CCDS9083.1, CCDS9084.1, CCDS9085.1, CCDS55877.1, CCDS58268.1, CCDS58269.1, CCDS58270.1, CCDS58271.1, CCDS58272.1, CCDS58273.1	12q23.2	2013-02-11	2001-11-28		ENSG00000196091	ENSG00000196091		"Myosin binding proteins", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	7549	protein-coding gene	gene with protein product		160794	"myosin-binding protein C, slow-type"			8375400, 16918501	Standard	NM_002465		Approved		uc010svs.2	Q00872	OTTHUMG00000170274	ENST00000550270.1:c.1180G>T	12.37:g.102043096G>T	ENSP00000449702:p.Glu394*	Somatic		WXS	Illumina HiSeq	Phase_I	B4DKR5|B7Z8G8|B7ZL02|B7ZL09|B7ZL10|E7ESM5|E7EWS6|G3XAE8|Q15497|Q17RR7|Q569K7|Q86T48|Q86TC8|Q8N3L2	Nonsense_Mutation	SNP	ENST00000550270.1	37	CCDS9085.1	.	.	.	.	.	.	.	.	.	.	G	32	5.108518	0.94292	.	.	ENSG00000196091	ENST00000547405;ENST00000452455;ENST00000441232;ENST00000360610;ENST00000392934;ENST00000547509;ENST00000361685;ENST00000549145;ENST00000553190;ENST00000540770;ENST00000545503;ENST00000536007;ENST00000541119;ENST00000361466;ENST00000551300;ENST00000550270	.	.	.	5.98	5.98	0.97165	.	0.248852	0.27811	N	0.017753	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	.	20.452	0.99131	0.0:0.0:1.0:0.0	.	.	.	.	X	368;394;394;394;381;380;419;407;394;419;394;375;382;419;295;394	.	ENSP00000353822:E394X	E	+	1	0	MYBPC1	100567227	1.000000	0.71417	0.984000	0.44739	0.079000	0.17450	9.476000	0.97823	2.838000	0.97847	0.591000	0.81541	GAG		0.353	MYBPC1-024	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000408806.1			T	102043096	G	T	102043096	4	4	679	1	0	0	0	0	0	1	0	0	10018	1291	45	4	1313	4	MYBPC1	12	102043096	Nonsense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	24623613	102043096	31808799	89	43909										
C1QTNF9B	387911	mdanderson.org	37	chr13	24465623	24465623	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gtgtgcagtatttttactccGtttttgaccaaagacacctg	8	9	0	2	rs4083570		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr13:24465623G>A	ENST00000382140.2	-	5	867	c.807C>T	c.(805-807)aaC>aaT	p.N269N	C1QTNF9B_ENST00000556521.1_5'UTR|MIPEP_ENST00000382172.3_5'Flank|C1QTNF9B_ENST00000382057.3_Missense_Mutation_p.T98M|C1QTNF9B-AS1_ENST00000435039.2_RNA|C1QTNF9B_ENST00000382145.1_Missense_Mutation_p.T98M|C1QTNF9B_ENST00000382137.3_Silent_p.N269N|C1QTNF9B-AS1_ENST00000417034.1_RNA|MIPEP_ENST00000469167.1_5'Flank|C1QTNF9B-AS1_ENST00000382133.4_RNA			B2RNN3	C1T9B_HUMAN	C1q and tumor necrosis factor related protein 9B	269	C1q. {ECO:0000255|PROSITE- ProRule:PRU00368}.					collagen trimer (GO:0005581)|extracellular vesicular exosome (GO:0070062)				breast(1)|central_nervous_system(1)|large_intestine(3)|lung(1)	6						TTTTTACTCCGTTTTTGACCA	0.507																																																0													137	117	124					13																	24465623		2203	4300	6503	SO:0001819	synonymous_variant	387911			BC110413	CCDS31947.1	13q12.12	2011-05-08			ENSG00000205863	ENSG00000205863			34072	protein-coding gene	gene with protein product		614148				17544811	Standard	NM_001007537		Approved	CTRP9B	uc010tcv.1	B2RNN3	OTTHUMG00000016570	ENST00000382140.2:c.807C>T	13.37:g.24465623G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2A3T6|B9EH31|Q0VGC5|Q5VX65|Q5VX66|Q8IUU4	Silent	SNP	ENST00000382140.2	37	CCDS31947.1	.	.	.	.	.	.	.	.	.	.	g	0.007	-2.002413	0.00431	.	.	ENSG00000205863	ENST00000382145;ENST00000382057	D;D	0.89343	-2.5;-2.5	3.96	-5.77	0.02369	.	.	.	.	.	D	0.88351	0.6413	.	.	.	0.19945	N	0.999942	.	.	.	.	.	.	T	0.82481	-0.0436	6	0.52906	T	0.07	.	15.0983	0.72253	0.4662:0.0:0.5338:0.0	rs4083570	.	.	.	M	98	ENSP00000371580:T98M;ENSP00000371489:T98M	ENSP00000371489:T98M	T	-	2	0	C1QTNF9B	23363623	0.000000	0.05858	0.269000	0.24586	0.053000	0.15095	-1.610000	0.02064	-1.672000	0.01464	-2.013000	0.00436	ACG		0.507	C1QTNF9B-001	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044162.3	NM_001007537		A	24465623	G	A	24465623	2	1	679	1	0	0	0	0	0	0	0	1	1973	1136	40	1		1	C1QTNF9B	13	24465623	Silent	SNP	G	TCGA-KO-8408-01A-11D-2310-10		24465623	90704255	90	43910										
C13orf36	400120	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr13	37269302	37269302	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tttcccacatccctgtccacGtcagtggacccatcctcagg	7	17	2	0	rs202230256		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr13:37269302G>A	ENST00000315190.3	+	2	533	c.87G>A	c.(85-87)acG>acA	p.T29T		NM_203451.2	NP_982276.2	A2A2V5	SRTM1_HUMAN	serine-rich and transmembrane domain containing 1	29						integral component of membrane (GO:0016021)											CCCTGTCCACGTCAGTGGACC	0.478																																																0													201	175	183					13																	37269302		2203	4300	6503	SO:0001819	synonymous_variant	400120				CCDS9358.1	13q13.3	2011-08-10	2011-08-10	2011-08-09	ENSG00000180440	ENSG00000180440			33792	protein-coding gene	gene with protein product			"chromosome 13 open reading frame 36"	C13orf36			Standard	NM_203451		Approved		uc001uvt.4	A2A2V5	OTTHUMG00000016735	ENST00000315190.3:c.87G>A	13.37:g.37269302G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N469	Silent	SNP	ENST00000315190.3	37	CCDS9358.1																																																																																				0.478	SERTM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044518.2	NM_203451		A	37269302	G	A	37269302	2	1	679	1	0	0	0	0	0	0	0	1	1732	1132	40	1		1	C13orf36	13	37269302	Silent	SNP	G	TCGA-KO-8408-01A-11D-2310-10	12803679	37269302	77900576	91	43911										
FREM2	341640	broad.mit.edu	37	chr13	39266098	39266098	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	aagccagtggtcaccatccaCaagctggttgtcagtgaaag	11	10	2	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr13:39266098C>T	ENST00000280481.7	+	1	4833	c.4617C>T	c.(4615-4617)caC>caT	p.H1539H		NM_207361.4	NP_997244.3	Q5SZK8	FREM2_HUMAN	FRAS1 related extracellular matrix protein 2	1539					cell communication (GO:0007154)|homophilic cell adhesion (GO:0007156)|inner ear development (GO:0048839)|morphogenesis of an epithelium (GO:0002009)	basement membrane (GO:0005604)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(35)|lung(39)|ovary(9)|pancreas(2)|prostate(12)|skin(11)|upper_aerodigestive_tract(7)|urinary_tract(2)	148		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TCACCATCCACAAGCTGGTTG	0.443																																																0													125	113	117					13																	39266098		2203	4300	6503	SO:0001819	synonymous_variant	341640			BX538150	CCDS31960.1	13q13.3	2004-12-15			ENSG00000150893	ENSG00000150893			25396	protein-coding gene	gene with protein product		608945				15345741	Standard	NM_207361		Approved	DKFZp686J0811	uc001uwv.3	Q5SZK8	OTTHUMG00000016759	ENST00000280481.7:c.4617C>T	13.37:g.39266098C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q4QQG1|Q5H9N8|Q5T6Q1|Q6N057|Q6ZSB4|Q7Z305|Q7Z341	Silent	SNP	ENST00000280481.7	37	CCDS31960.1																																																																																				0.443	FREM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044599.2	NM_207361		T	39266098	C	T	39266098	2	4	679	1	0	0	0	0	0	0	0	1	6052	477	17	2		2	FREM2	13	39266098	Silent	SNP	C	TCGA-KO-8408-01A-11D-2310-10	1996796	39266098	75903780	92	43912										
SALL2	6297	broad.mit.edu;mdanderson.org	37	chr14	21992203	21992203	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cagcttggtagtgaagtcacCaacttacttagttgcatgcg	10	9	1	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr14:21992203C>T	ENST00000327430.3	-	2	1953	c.1659G>A	c.(1657-1659)ttG>ttA	p.L553L	SALL2_ENST00000317492.5_Intron|SALL2_ENST00000538754.1_Intron|SALL2_ENST00000450879.2_Silent_p.L416L|AE000658.22_ENST00000535893.1_RNA	NM_005407.1	NP_005398.1	Q9Y467	SALL2_HUMAN	spalt-like transcription factor 2	553					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(12)|lung(12)|ovary(2)|skin(6)|urinary_tract(2)	43	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		GTGAAGTCACCAACTTACTTA	0.547																																																0													113	92	99					14																	21992203		2203	4300	6503	SO:0001819	synonymous_variant	6297			AB002358	CCDS32045.1	14q11.1-q12.1	2013-10-17	2013-10-17		ENSG00000165821	ENSG00000165821		"Zinc fingers, C2H2-type"	10526	protein-coding gene	gene with protein product		602219	"sal (Drosophila)-like 2", "sal-like 2 (Drosophila)"			8975705	Standard	XM_005267983		Approved	KIAA0360, Hsal2, ZNF795	uc001wbe.3	Q9Y467	OTTHUMG00000168826	ENST00000327430.3:c.1659G>A	14.37:g.21992203C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RMX6|B9EGK8|Q8N656|Q9Y4G1	Silent	SNP	ENST00000327430.3	37	CCDS32045.1	.	.	.	.	.	.	.	.	.	.	C	4.644	0.119658	0.08881	.	.	ENSG00000165821	ENST00000546363	.	.	.	5.12	2.33	0.28932	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-23.0876	8.846	0.35170	0.0:0.7491:0.0:0.2509	.	.	.	.	X	412	.	.	W	-	2	0	SALL2	21062043	0.086000	0.21541	1.000000	0.80357	0.948000	0.59901	-0.125000	0.10579	0.203000	0.20529	-0.219000	0.12488	TGG		0.547	SALL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401242.1	NM_005407		T	21992203	C	T	21992203	2	4	679	1	0	0	0	0	0	0	0	1	13824	593	21	2		2	SALL2	14	21992203	Silent	SNP	C	TCGA-KO-8408-01A-11D-2310-10		21992203	85357337	93	43913										
FAM179B	23116	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	45513838	45513838	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cattttgaatttttttttagGtgaaaaatttacgttctgga	7	3	1	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr14:45513838G>T	ENST00000361577.3	+	13	4133	c.3919G>T	c.(3919-3921)Gtg>Ttg	p.V1307L	KLHL28_ENST00000553817.1_5'Flank|FAM179B_ENST00000382233.2_3'UTR|FAM179B_ENST00000361462.2_Splice_Site_p.V1307L	NM_015091.2	NP_055906.2	Q9Y4F4	F179B_HUMAN	family with sequence similarity 179, member B	1307										endometrium(4)|kidney(5)|large_intestine(12)|lung(16)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	45						TTTTTTTTAGGTGAAAAATTT	0.303																																																0													47	49	49					14																	45513838		2202	4300	6502	SO:0001630	splice_region_variant	23116			AB007883	CCDS9681.1	14q21.3	2008-07-21	2008-07-21	2008-07-21	ENSG00000198718	ENSG00000198718			19959	protein-coding gene	gene with protein product			"KIAA0423"	KIAA0423			Standard	XM_005267451		Approved		uc001wvv.3	Q9Y4F4	OTTHUMG00000140264	ENST00000361577.3:c.3919-1G>T	14.37:g.45513838G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q68D66|Q6PG27	Missense_Mutation	SNP	ENST00000361577.3	37	CCDS9681.1	.	.	.	.	.	.	.	.	.	.	G	26.3	4.726304	0.89298	.	.	ENSG00000198718	ENST00000361577;ENST00000361462	T;T	0.52754	0.65;0.65	5.78	5.78	0.91487	Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.69878	0.3160	M	0.73962	2.25	0.80722	D	1	D;D	0.64830	0.966;0.994	D;D	0.70227	0.921;0.968	T	0.68258	-0.5456	9	.	.	.	-12.751	19.6126	0.95616	0.0:0.0:1.0:0.0	.	1307;1307	G3XAE9;Q9Y4F4	.;F179B_HUMAN	L	1307	ENSP00000355045:V1307L;ENSP00000354917:V1307L	.	V	+	1	0	FAM179B	44583588	1.000000	0.71417	1.000000	0.80357	0.824000	0.46624	9.540000	0.98080	2.730000	0.93505	0.650000	0.86243	GTG		0.303	FAM179B-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000276791.1	XM_113781	Missense_Mutation	T	45513838	G	T	45513838	5	4	679	1	0	0	0	0	0	0	1	0	5510	1275	44	4	3969	4	FAM179B	14	45513838	Splice_Site	SNP	G	TCGA-KO-8408-01A-11D-2310-10	23521635	45513838	61835702	94	43914										
C14orf166	51637	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr14	52458098	52458098	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gaaaatcaggcactacaagaTtgaagacagagggaatttaa	10	5	1	4			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr14:52458098T>C	ENST00000261700.3	+	2	290	c.125T>C	c.(124-126)aTt>aCt	p.I42T	C14orf166_ENST00000556760.1_Missense_Mutation_p.I42T	NM_016039.2	NP_057123.1	Q9Y224	CN166_HUMAN	chromosome 14 open reading frame 166	42					positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|RNA transport (GO:0050658)|transcription, DNA-templated (GO:0006351)|tRNA splicing, via endonucleolytic cleavage and ligation (GO:0006388)|viral process (GO:0016032)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|tRNA-splicing ligase complex (GO:0072669)	identical protein binding (GO:0042802)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|RNA polymerase II core binding (GO:0000993)			endometrium(1)|large_intestine(3)|lung(2)	6	Breast(41;0.0639)|all_epithelial(31;0.101)					CACTACAAGATTGAAGACAGA	0.348																																																0													78	78	78					14																	52458098		2203	4300	6503	SO:0001583	missense	51637			AF151857	CCDS9705.1	14q22.1	2014-05-29			ENSG00000087302	ENSG00000087302			23169	protein-coding gene	gene with protein product	"RLL motif containing 1"	610858				10810093, 24608264	Standard	NM_016039		Approved	CGI-99, RLLM1, CLE, CLE7, LCRP369	uc010aod.3	Q9Y224	OTTHUMG00000152332	ENST00000261700.3:c.125T>C	14.37:g.52458098T>C	ENSP00000261700:p.Ile42Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000261700.3	37	CCDS9705.1	.	.	.	.	.	.	.	.	.	.	T	22.8	4.331063	0.81690	.	.	ENSG00000087302	ENST00000261700;ENST00000556760	.	.	.	4.89	4.89	0.63831	.	0.000000	0.85682	D	0.000000	T	0.80476	0.4630	M	0.87682	2.9	0.80722	D	1	D	0.76494	0.999	D	0.72982	0.979	T	0.82348	-0.0502	9	0.41790	T	0.15	-6.0145	14.4684	0.67499	0.0:0.0:0.0:1.0	.	42	Q9Y224	CN166_HUMAN	T	42	.	ENSP00000261700:I42T	I	+	2	0	C14orf166	51527848	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.701000	0.84566	1.967000	0.57214	0.397000	0.26171	ATT		0.348	C14orf166-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276887.1	NM_016039		C	52458098	T	C	52458098	3	2	679	1	0	0	0	0	1	0	0	0	1758	1493	52	3	131	3	C14orf166	14	52458098	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10	6944260	52458098	54891442	95	43915										
ADAM21	8747	mdanderson.org	37	chr14	70924566	70924566	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ctatcatggttacgtggaggCagcccctgagtctctggttg	13	10	2	1	rs3829452	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr14:70924566C>G	ENST00000603540.1	+	2	608	c.350C>G	c.(349-351)gCa>gGa	p.A117G	ADAM21_ENST00000267499.3_Missense_Mutation_p.A117G|RP11-486O13.4_ENST00000556646.1_lincRNA	NM_003813.3	NP_003804.2	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21	117				A -> G (in Ref. 1; AAD55255 and 3; AAI09025/AAI09026). {ECO:0000305}.	binding of sperm to zona pellucida (GO:0007339)|multicellular organism reproduction (GO:0032504)|single fertilization (GO:0007338)	axon (GO:0030424)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)	p.A117G(1)		central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(10)|lung(10)|pancreas(1)|prostate(1)|skin(2)|stomach(1)	31				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		TACGTGGAGGCAGCCCCTGAG	0.488													C|||	1854	0.370208	0.4947	0.2161	5008	,	,		17161	0.5734		0.2207	False		,,,				2504	0.2556															1	Substitution - Missense(1)	stomach(1)											93	126	115					14																	70924566		2199	4300	6499	SO:0001583	missense	8747			AF029900	CCDS9804.1	14q24.1	2008-09-05	2005-08-18		ENSG00000139985	ENSG00000139985		"ADAM metallopeptidase domain containing"	200	protein-coding gene	gene with protein product		603713	"a disintegrin and metalloproteinase domain 21"			9469942	Standard	NM_003813		Approved	ADAM31	uc001xmd.3	Q9UKJ8		ENST00000603540.1:c.350C>G	14.37:g.70924566C>G	ENSP00000474385:p.Ala117Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O43507|Q2VPC6|Q32MR0	Missense_Mutation	SNP	ENST00000603540.1	37	CCDS9804.1	577	0.2641941391941392	150	0.3048780487804878	67	0.1850828729281768	267	0.46678321678321677	93	0.12269129287598944	C	0.001	-2.913798	0.00056	.	.	ENSG00000139985	ENST00000267499	T	0.03689	3.84	3.76	2.86	0.33363	Peptidase M12B, propeptide (1);	0.156559	0.28908	N	0.013758	T	0.00012	0.0000	N	0.00004	-3.32	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.44436	-0.9328	9	0.02654	T	1	.	12.0431	0.53464	0.0:0.1746:0.8254:0.0	rs3829452;rs11531313;rs57973896	117	Q9UKJ8	ADA21_HUMAN	G	117	ENSP00000267499:A117G	ENSP00000267499:A117G	A	+	2	0	ADAM21	69994319	0.987000	0.35691	0.013000	0.15412	0.010000	0.07245	2.053000	0.41326	0.922000	0.37019	-0.234000	0.12200	GCA		0.488	ADAM21-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413008.3			G	70924566	C	G	70924566	3	3	679	1	0	0	0	0	1	0	0	0	243	710	25	4	352	4	ADAM21	14	70924566	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	18466468	70924566	36424974	96	43916										
TTC7B	145567	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr14	91044471	91044471	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	agtcgctgcatgctcttcacGtgggtggggctgatggctaa	15	9	2	1	rs538193691		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr14:91044471G>A	ENST00000328459.6	-	19	2410	c.2289C>T	c.(2287-2289)caC>caT	p.H763H	TTC7B_ENST00000554654.1_5'UTR|TTC7B_ENST00000357056.2_Silent_p.H780H	NM_001010854.1	NP_001010854.1	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	763										NS(1)|breast(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(8)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)	36		Melanoma(154;0.222)				TGCTCTTCACGTGGGTGGGGC	0.637													G|||	1	0.000199681	0.0	0.0	5008	,	,		18196	0.0		0.001	False		,,,				2504	0.0															0													62	56	58					14																	91044471		2202	4300	6502	SO:0001819	synonymous_variant	145567			BC035865	CCDS32140.1	14q32.12	2013-01-11	2004-06-02	2004-06-04		ENSG00000165914		"Tetratricopeptide (TTC) repeat domain containing"	19858	protein-coding gene	gene with protein product			"tetratricopeptide repeat domain 7 like 1"	TTC7L1			Standard	XM_005267367		Approved		uc001xyp.3	Q86TV6		ENST00000328459.6:c.2289C>T	14.37:g.91044471G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q86U24|Q86VT3	Silent	SNP	ENST00000328459.6	37	CCDS32140.1	.	.	.	.	.	.	.	.	.	.	G	10.43	1.348527	0.24426	.	.	ENSG00000165914	ENST00000557292	.	.	.	5.48	-0.267	0.12938	.	.	.	.	.	T	0.56124	0.1964	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.50625	-0.8806	4	.	.	.	-21.5179	9.901	0.41348	0.6406:0.0:0.3594:0.0	.	.	.	.	C	191	.	.	R	-	1	0	TTC7B	90114224	0.942000	0.31987	0.998000	0.56505	0.996000	0.88848	0.041000	0.13927	0.030000	0.15379	-0.140000	0.14226	CGT		0.637	TTC7B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411364.2			A	91044471	G	A	91044471	2	1	679	1	0	0	0	0	0	0	0	1	16725	1136	40	1		1	TTC7B	14	91044471	Silent	SNP	G	TCGA-KO-8408-01A-11D-2310-10	20119905	91044471	16305069	97	43917										
GOLGA8A	23015	broad.mit.edu	37	chr15	34678927	34678927	+	Frame_Shift_Del	DEL	A	A	-													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ctgacgcgcatgcagagaggAggaggcggaggaggacttgg							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr15:34678927delA	ENST00000359187.4	-	3	248	c.184delT	c.(184-186)tccfs	p.S63fs	GOLGA8A_ENST00000432566.2_Frame_Shift_Del_p.S93fs|GOLGA8A_ENST00000543376.1_5'UTR|GOLGA8A_ENST00000360553.3_Frame_Shift_Del_p.S63fs	NM_181077.3	NP_851422.1	A7E2F4	GOG8A_HUMAN	golgin A8 family, member A	91						Golgi apparatus (GO:0005794)|membrane (GO:0016020)							all_lung(180;2.78e-08)		all cancers(64;8.27e-19)|GBM - Glioblastoma multiforme(113;6.98e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		TGCAGAGAGGAGGAGGCGGAG	0.567																																																0													6	10	9					15																	34678927		1801	3926	5727	SO:0001589	frameshift_variant	23015			BX648160	CCDS10038.1	15q14	2011-10-25	2010-02-12		ENSG00000175265	ENSG00000175265			31972	protein-coding gene	gene with protein product			"golgi autoantigen, golgin subfamily a, 8A"			10660574, 10677249	Standard	NM_181077		Approved	GM88, GOLGIN-67	uc001zii.3	A7E2F4	OTTHUMG00000129447	ENST00000359187.4:c.184delT	15.37:g.34678927delA	ENSP00000352111:p.Ser63fs	Somatic		WXS	Illumina HiSeq	Phase_I	A7MCY9|B7ZMK5|O94937|Q52M46|Q68DK6|Q9NZG8|Q9NZW0|Q9NZW3	Frame_Shift_Del	DEL	ENST00000359187.4	37	CCDS10038.1																																																																																				0.567	GOLGA8A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251830.2	NM_181076		-	34678927	A	-	34678927	7	5	679	1	0	1	0	1	0	0	0	0	6570	304	11	0	1683	0	GOLGA8A	15	34678927	Frame_Shift_Del	DEL	A	TCGA-KO-8408-01A-11D-2310-10		34678927	67852465	98	43918										
FSIP1	161835	broad.mit.edu	37	chr15	40056059	40056059	+	Frame_Shift_Del	DEL	T	T	-													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	acagcagtcaaagataaaaaTttttttgtattttccatctc					rs560347922		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr15:40056059delT	ENST00000350221.3	-	5	731	c.522delA	c.(520-522)aaafs	p.K174fs		NM_152597.4	NP_689810.3	Q8NA03	FSIP1_HUMAN	fibrous sheath interacting protein 1	174										NS(1)|breast(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(4)|ovary(2)|skin(4)|stomach(2)|urinary_tract(1)	23		all_cancers(109;2.66e-19)|all_epithelial(112;2.66e-16)|Lung NSC(122;1.5e-11)|all_lung(180;4.03e-10)|Melanoma(134;0.0575)|Ovarian(310;0.0827)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;8.22e-06)|BRCA - Breast invasive adenocarcinoma(123;0.142)		AAGATAAAAATTTTTTTGTAT	0.308																																																0																																										SO:0001589	frameshift_variant	161835			BC045191	CCDS10050.1	15q14	2012-11-19			ENSG00000150667	ENSG00000150667			21674	protein-coding gene	gene with protein product		615795				14702039	Standard	NM_152597		Approved	FLJ35989	uc001zki.3	Q8NA03	OTTHUMG00000172456	ENST00000350221.3:c.522delA	15.37:g.40056059delT	ENSP00000280236:p.Lys174fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6X2C8|Q86Y89	Frame_Shift_Del	DEL	ENST00000350221.3	37	CCDS10050.1																																																																																				0.308	FSIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252118.2	NM_152597		-	40056059	T	-	40056059	7	5	679	1	0	1	0	1	0	0	0	0	6081	1490	52	0	1255	0	FSIP1	15	40056059	Frame_Shift_Del	DEL	T	TCGA-KO-8408-01A-11D-2310-10	5377132	40056059	62475333	99	43919										
EXD1	161829	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr15	41501706	41501706	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	aaaaatctttcacctgcagcCagcacagtttgccatggcga	8	12	2	0			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr15:41501706C>T	ENST00000314992.5	-	5	543	c.353G>A	c.(352-354)tGg>tAg	p.W118*	EXD1_ENST00000458580.2_Nonsense_Mutation_p.W176*	NM_152596.2	NP_689809.2	Q8NHP7	EXD1_HUMAN	exonuclease 3'-5' domain containing 1	118	3'-5' exonuclease.						3'-5' exonuclease activity (GO:0008408)|nucleic acid binding (GO:0003676)			large_intestine(5)|liver(1)|lung(4)|ovary(2)|prostate(2)|skin(2)	16						CACCTGCAGCCAGCACAGTTT	0.368																																																0													60	56	57					15																	41501706		2203	4300	6503	SO:0001587	stop_gained	161829			BC030628	CCDS10072.1, CCDS66738.1	15q15.1	2009-02-24	2009-02-24	2009-02-24	ENSG00000178997	ENSG00000178997			28507	protein-coding gene	gene with protein product			"exonuclease 3'-5' domain-like 1"	EXDL1		12477932	Standard	NM_001286441		Approved	MGC33637	uc001znk.3	Q8NHP7	OTTHUMG00000130232	ENST00000314992.5:c.353G>A	15.37:g.41501706C>T	ENSP00000321029:p.Trp118*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K909|B7Z839|Q6ZW94	Nonsense_Mutation	SNP	ENST00000314992.5	37	CCDS10072.1	.	.	.	.	.	.	.	.	.	.	C	36	5.874195	0.97055	.	.	ENSG00000178997	ENST00000314992;ENST00000458580	.	.	.	4.77	4.77	0.60923	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.16896	T	0.51	-19.3436	15.148	0.72674	0.0:1.0:0.0:0.0	.	.	.	.	X	118;176	.	ENSP00000321029:W118X	W	-	2	0	EXD1	39288998	1.000000	0.71417	1.000000	0.80357	0.759000	0.43091	4.658000	0.61497	2.642000	0.89623	0.591000	0.81541	TGG		0.368	EXD1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000252553.2	NM_152596		T	41501706	C	T	41501706	4	4	679	1	0	0	0	0	0	1	0	0	5299	595	21	2	1215	2	EXD1	15	41501706	Nonsense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	1445647	41501706	61029686	100	43920										
MAP1A	4130	broad.mit.edu	37	chr15	43821988	43821989	+	Frame_Shift_Ins	INS	-	-	C													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ctatgtggtcagtgggaatgINSaccctgccaatggcgagcca					rs200714150		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr15:43821988_43821989insC	ENST00000300231.5	+	5	8626_8627	c.8176_8177insC	c.(8176-8178)gacfs	p.D2726fs	MAP1A_ENST00000399453.1_Frame_Shift_Ins_p.D2726fs|MAP1A_ENST00000382031.1_Frame_Shift_Ins_p.D2964fs			P78559	MAP1A_HUMAN	microtubule-associated protein 1A	2726					microtubule cytoskeleton organization (GO:0000226)|sensory perception of sound (GO:0007605)	cytosol (GO:0005829)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)	structural molecule activity (GO:0005198)			breast(5)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(11)|liver(2)|lung(19)|ovary(5)|pancreas(3)|prostate(2)|skin(6)|soft_tissue(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	66		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)	CAGTGGGAATGACCCTGCCAAT	0.574																																																0																																										SO:0001589	frameshift_variant	4130			U38292	CCDS42031.1	15q15.3	2006-06-15			ENSG00000166963	ENSG00000166963			6835	protein-coding gene	gene with protein product		600178		MAP1L		7806212, 7629894	Standard	XM_005254385		Approved		uc001zrt.3	P78559	OTTHUMG00000059756	Exception_encountered	15.37:g.43821988_43821989insC	ENSP00000300231:p.Asp2726fs	Somatic		WXS	Illumina HiSeq	Phase_I	O95643|Q12973|Q15882|Q9UJT4	Frame_Shift_Ins	INS	ENST00000300231.5	37	CCDS42031.1																																																																																				0.574	MAP1A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000132894.5	NM_002373		C	43821989	-	C	43821988	7	5	679	1	0	1	1	0	0	0	0	0	9234	1290	45	0	8182	0	MAP1A	15	43821988	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	2320282	43821988	58709404	101	43921										
SNX1	6642	broad.mit.edu	37	chr15	64422451	64422451	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ttgaggagaagctccaggagGtagagtgtgaggagcagcgc	18	6	0	4			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr15:64422451G>T	ENST00000559844.1	+	10	960	c.946G>T	c.(946-948)Gta>Tta	p.V316L	SNX1_ENST00000261889.5_Missense_Mutation_p.V316L|SNX1_ENST00000561026.1_Missense_Mutation_p.V251L|SNX1_ENST00000560829.1_Missense_Mutation_p.V98L|SNX1_ENST00000353874.4_Missense_Mutation_p.V316L			Q13596	SNX1_HUMAN	sorting nexin 1	316	BAR.				early endosome to Golgi transport (GO:0034498)|intracellular protein transport (GO:0006886)|positive regulation of protein catabolic process (GO:0045732)	cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|early endosome membrane (GO:0031901)|endosome membrane (GO:0010008)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|protein complex (GO:0043234)|retromer complex (GO:0030904)	epidermal growth factor receptor binding (GO:0005154)|insulin receptor binding (GO:0005158)|leptin receptor binding (GO:1990460)|phosphatidylinositol binding (GO:0035091)|transferrin receptor binding (GO:1990459)			breast(1)|endometrium(1)|large_intestine(5)|lung(4)|skin(1)|upper_aerodigestive_tract(1)	13						GCTCCAGGAGGTAGAGTGTGA	0.438																																																0													82	78	79					15																	64422451		2203	4300	6503	SO:0001583	missense	6642			BC000357	CCDS32266.1, CCDS32268.1, CCDS58371.1	15q22.31	2011-05-03			ENSG00000028528	ENSG00000028528		"Sorting nexins"	11172	protein-coding gene	gene with protein product		601272				8638121	Standard	NM_003099		Approved	SNX1A, MGC8664, HsT17379, Vps5	uc010uio.2	Q13596		ENST00000559844.1:c.946G>T	15.37:g.64422451G>T	ENSP00000453785:p.Val316Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NM19|A8K6T7|H0Y2M5|O60750|O60751|Q6ZRJ8	Missense_Mutation	SNP	ENST00000559844.1	37	CCDS32266.1	.	.	.	.	.	.	.	.	.	.	G	14.90	2.673595	0.47781	.	.	ENSG00000028528	ENST00000380285;ENST00000353874;ENST00000261889	T	0.27720	1.65	4.7	3.75	0.43078	Vps5 C-terminal (1);	0.058522	0.64402	D	0.000002	T	0.21468	0.0517	N	0.25332	0.735	0.80722	D	1	B;P;B;B;P;B;B	0.38250	0.228;0.624;0.031;0.031;0.57;0.001;0.031	B;B;B;B;B;B;B	0.43445	0.363;0.42;0.101;0.101;0.295;0.005;0.055	T	0.04320	-1.0960	10	0.02654	T	1	-8.8677	10.6197	0.45472	0.1015:0.0:0.8984:0.0	.	316;226;316;316;251;316;316	Q6ZRJ8;Q59GU6;Q53HL9;Q53GY8;Q13596-2;A6NKH4;Q13596	.;.;.;.;.;.;SNX1_HUMAN	L	316;316;251	ENSP00000326668:V316L	ENSP00000261889:V251L	V	+	1	0	SNX1	62209504	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.729000	0.54999	1.234000	0.43709	0.561000	0.74099	GTA		0.438	SNX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418559.1	NM_003099		T	64422451	G	T	64422451	3	4	679	1	0	0	0	0	1	0	0	0	14893	1261	44	4	984	4	SNX1	15	64422451	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	20600463	64422451	38108941	102	43922										
IQCH	64799	mdanderson.org;bcgsc.ca	37	chr15	67652191	67652191	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	attcttcattgtaggggaaaAgcagaaggtcaagaggacat	12	5	3	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr15:67652191A>G	ENST00000335894.4	+	8	787	c.721A>G	c.(721-723)Agc>Ggc	p.S241G	IQCH_ENST00000358767.3_Missense_Mutation_p.S68G|IQCH_ENST00000546225.1_5'UTR	NM_001031715.2	NP_001026885	Q86VS3	IQCH_HUMAN	IQ motif containing H	241										NS(1)|breast(1)|cervix(1)|endometrium(2)|large_intestine(9)|lung(9)|ovary(2)|pancreas(2)|skin(5)|upper_aerodigestive_tract(1)	33				Colorectal(3;0.0856)		GTAGGGGAAAAGCAGAAGGTC	0.433																																																0													251	231	238					15																	67652191		2201	4299	6500	SO:0001583	missense	64799			AY014282	CCDS10223.1, CCDS32273.1, CCDS10223.2, CCDS61680.1, CCDS61681.1	15q23	2005-10-24			ENSG00000103599	ENSG00000103599			25721	protein-coding gene	gene with protein product		612523				12477932	Standard	NM_022784		Approved	FLJ12476	uc002aqo.2	Q86VS3	OTTHUMG00000133231	ENST00000335894.4:c.721A>G	15.37:g.67652191A>G	ENSP00000336861:p.Ser241Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8W3|C9JPR6|D6RJ88|Q4G0S6|Q8NEH9|Q9BWX2|Q9H9Y1|Q9UF88	Missense_Mutation	SNP	ENST00000335894.4	37	CCDS32273.1	.	.	.	.	.	.	.	.	.	.	A	8.174	0.792329	0.16258	.	.	ENSG00000103599	ENST00000358767;ENST00000335894	T;T	0.44881	0.93;0.91	5.78	1.15	0.20763	.	0.874228	0.10119	N	0.713657	T	0.14098	0.0341	N	0.01800	-0.715	0.80722	D	1	B;B	0.06786	0.0;0.001	B;B	0.06405	0.001;0.002	T	0.21449	-1.0245	10	0.15499	T	0.54	-2.7848	3.3911	0.07289	0.3785:0.2017:0.4198:0.0	.	241;68	Q86VS3;Q86VS3-3	IQCH_HUMAN;.	G	68;241	ENSP00000351617:S68G;ENSP00000336861:S241G	ENSP00000336861:S241G	S	+	1	0	IQCH	65439245	0.877000	0.30153	0.989000	0.46669	0.949000	0.60115	-0.378000	0.07446	0.330000	0.23485	-0.242000	0.12053	AGC		0.433	IQCH-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256969.1	NM_022784		G	67652191	A	G	67652191	3	3	679	1	0	0	0	0	1	0	0	0	7818	72	3	3	879	3	IQCH	15	67652191	Missense_Mutation	SNP	A	TCGA-KO-8408-01A-11D-2310-10	3229740	67652191	34879201	103	43923										
GOLGA6B	55889	broad.mit.edu;mdanderson.org	37	chr15	72954855	72954855	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	aacgagaggcttcgggagcaGcagaagacgctacaggagca	15	9	0	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr15:72954855G>A	ENST00000421285.3	+	11	1110	c.1110G>A	c.(1108-1110)caG>caA	p.Q370Q	RN7SL853P_ENST00000477951.2_RNA	NM_018652.4	NP_061122.4	A6NDN3	GOG6B_HUMAN	golgin A6 family, member B	370						Golgi apparatus (GO:0005794)				NS(1)|breast(1)|endometrium(1)|lung(8)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	16						TTCGGGAGCAGCAGAAGACGC	0.592																																																0													16	18	17					15																	72954855		1441	2844	4285	SO:0001819	synonymous_variant	55889				CCDS10245.2	15q24.1	2011-10-25	2010-02-12		ENSG00000215186	ENSG00000215186			32205	protein-coding gene	gene with protein product			"golgi autoantigen, golgin subfamily a, 6B"				Standard	XM_006720604		Approved		uc010uks.1	A6NDN3	OTTHUMG00000133511	ENST00000421285.3:c.1110G>A	15.37:g.72954855G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MYY7	Silent	SNP	ENST00000421285.3	37	CCDS10245.2																																																																																				0.592	GOLGA6B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257474.4	NM_018652		A	72954855	G	A	72954855	2	1	679	1	0	0	0	0	0	0	0	1	6565	962	34	2		2	GOLGA6B	15	72954855	Silent	SNP	G	TCGA-KO-8408-01A-11D-2310-10	5302664	72954855	29576537	104	43924										
SYNM	23336	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	99671287	99671287	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	acctgggttccactcactggAaagaacaagctagaagcggt	11	10	1	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr15:99671287A>T	ENST00000560674.1	+	4	2333	c.1864A>T	c.(1864-1866)Aaa>Taa	p.K622*	SYNM_ENST00000561323.1_3'UTR|SYNM_ENST00000336292.6_Nonsense_Mutation_p.K907*|RP11-6O2.4_ENST00000566974.1_RNA|SYNM_ENST00000328642.7_Nonsense_Mutation_p.K907*			O15061	SYNEM_HUMAN	synemin, intermediate filament protein	908	Tail.				intermediate filament cytoskeleton organization (GO:0045104)	adherens junction (GO:0005912)|costamere (GO:0043034)|intermediate filament (GO:0005882)|membrane (GO:0016020)|neurofilament cytoskeleton (GO:0060053)	intermediate filament binding (GO:0019215)|structural constituent of cytoskeleton (GO:0005200)|structural constituent of muscle (GO:0008307)|vinculin binding (GO:0017166)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(8)|lung(6)|ovary(3)|prostate(1)|skin(2)|urinary_tract(1)	29						CACTCACTGGAAAGAACAAGC	0.522																																					Pancreas(125;1071 1762 21750 40003 40381)											0													35	38	37					15																	99671287		1929	4138	6067	SO:0001587	stop_gained	23336			AK026420	CCDS73786.1, CCDS73787.1	15q26.3	2014-09-17	2008-09-19	2008-09-19	ENSG00000182253	ENSG00000182253		"A-kinase anchor proteins", "Intermediate filaments type IV"	24466	protein-coding gene	gene with protein product	"synemin alpha", "synemin beta"	606087	"desmuslin"	DMN		11737198, 11454237	Standard	NM_145728		Approved	KIAA0353, SYN	uc002bup.3	O15061		ENST00000560674.1:c.1864A>T	15.37:g.99671287A>T	ENSP00000453040:p.Lys622*	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2Y2|Q2TBJ4|Q5NJJ9|Q8TE61|Q8TE62	Nonsense_Mutation	SNP	ENST00000560674.1	37		.	.	.	.	.	.	.	.	.	.	A	41	8.928228	0.99006	.	.	ENSG00000182253	ENST00000336292;ENST00000328642	.	.	.	5.76	5.76	0.90799	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	15.2654	0.73657	1.0:0.0:0.0:0.0	.	.	.	.	X	907	.	ENSP00000330469:K907X	K	+	1	0	SYNM	97488810	0.962000	0.33011	0.908000	0.35775	0.898000	0.52572	2.395000	0.44459	2.191000	0.70037	0.533000	0.62120	AAA		0.522	SYNM-003	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000415698.2	NM_145728		T	99671287	A	T	99671287	4	4	679	1	0	0	0	0	0	1	0	0	15467	247	9	5	2735	5	SYNM	15	99671287	Nonsense_Mutation	SNP	A	TCGA-KO-8408-01A-11D-2310-10	26716432	99671287	2860105	105	43925										
VASN	114990	mdanderson.org	37	chr16	4431373	4431373	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gagctgcgggcactgcccccGctgcgcctgccccgcctgct	13	20	0	0	rs740374	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr16:4431373G>C	ENST00000304735.3	+	2	650	c.495G>C	c.(493-495)ccG>ccC	p.P165P	CORO7_ENST00000574025.1_Intron|CORO7-PAM16_ENST00000572467.1_Intron|CORO7_ENST00000251166.4_Intron|CORO7_ENST00000539968.1_Intron|CORO7_ENST00000423908.2_Intron|CORO7_ENST00000537233.2_Intron	NM_138440.2	NP_612449.2	Q6EMK4	VASN_HUMAN	vasorin	165				Missing (in Ref. 2; AAQ88665). {ECO:0000305}.	cellular response to hypoxia (GO:0071456)|cellular response to redox state (GO:0071461)|negative regulation of epithelial to mesenchymal transition (GO:0010719)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)	cell surface (GO:0009986)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	transforming growth factor beta binding (GO:0050431)			breast(1)|lung(3)|prostate(1)|skin(1)	6						CACTGCCCCCGCTGCGCCTGC	0.697													G|||	66	0.0131789	0.0008	0.0202	5008	,	,		13608	0.0		0.0358	False		,,,				2504	0.0153															0								G	,,,,	25,4267		0,25,2121	12	9	10		,,,,495	-11.6	0	16	dbSNP_86	10	191,8271		1,189,4041	no	intron,intron,intron,intron,coding-synonymous	CORO7,VASN,CORO7-PAM16	NM_001201472.1,NM_001201473.1,NM_001201479.1,NM_024535.4,NM_138440.2	,,,,	1,214,6162	CC,CG,GG		2.2571,0.5825,1.6936	,,,,	,,,,165/674	4431373	216,12538	2146	4231	6377	SO:0001819	synonymous_variant	114990			AY358299	CCDS10514.1	16p13.3	2008-02-05	2006-03-30	2006-03-30	ENSG00000168140	ENSG00000168140			18517	protein-coding gene	gene with protein product		608843	"slit-like 2 (Drosophila)"	SLITL2		15247411	Standard	NM_138440		Approved		uc002cwj.1	Q6EMK4	OTTHUMG00000129469	ENST00000304735.3:c.495G>C	16.37:g.4431373G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXL4|Q6UXL5|Q96CX1	Silent	SNP	ENST00000304735.3	37	CCDS10514.1																																																																																				0.697	VASN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251632.1	NM_138440		C	4431373	G	C	4431373	2	2	679	1	0	0	0	0	0	0	0	1	17139	1074	38	4		4	VASN	16	4431373	Silent	SNP	G	TCGA-KO-8408-01A-11D-2310-10		4431373	85923380	106	43926										
XPO6	23214	broad.mit.edu	37	chr16	28128693	28128693	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gtagtagagatgagtgtcacGaactgctgcgtgttctgccg	14	8	2	2	rs372282404		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr16:28128693G>A	ENST00000304658.5	-	15	2450	c.1950C>T	c.(1948-1950)ttC>ttT	p.F650F	XPO6_ENST00000565698.1_Silent_p.F636F	NM_015171.3	NP_055986.1	Q96QU8	XPO6_HUMAN	exportin 6	650					protein export from nucleus (GO:0006611)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	protein transporter activity (GO:0008565)			breast(2)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(4)|lung(6)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	25						TGAGTGTCACGAACTGCTGCG	0.502																																																0								G		0,4084		0,0,2042	233	224	227		1950	-8.2	0.4	16		227	1,8375		0,1,4187	no	coding-synonymous	XPO6	NM_015171.2		0,1,6229	AA,AG,GG		0.0119,0.0,0.0080		650/1126	28128693	1,12459	2042	4188	6230	SO:0001819	synonymous_variant	23214			AY026388	CCDS42135.1, CCDS59266.1	16p11.2	2011-04-13	2003-03-11	2003-03-14		ENSG00000169180		"Exportins"	19733	protein-coding gene	gene with protein product		608411	"RAN binding protein 20"	RANBP20		14592989	Standard	NM_001270940		Approved	KIAA0370, FLJ22519	uc002dpa.2	Q96QU8		ENST00000304658.5:c.1950C>T	16.37:g.28128693G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A1L3W4|D3DWF9|Q2YDX3|Q53G88|Q68G50|Q76N88|Q96CP8|Q9BT21	Silent	SNP	ENST00000304658.5	37	CCDS42135.1																																																																																				0.502	XPO6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000433732.1	XM_055195		A	28128693	G	A	28128693	2	1	679	1	0	0	0	0	0	0	0	1	17460	1049	37	1		1	XPO6	16	28128693	Silent	SNP	G	TCGA-KO-8408-01A-11D-2310-10	23697320	28128693	62226060	107	43927										
RBL2	5934	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr16	53493465	53493465	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cagctacgcatagcttgagtCgtcttcacaccatgctgaca	8	13	2	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr16:53493465C>T	ENST00000262133.6	+	9	1419	c.1282C>T	c.(1282-1284)Cgt>Tgt	p.R428C	RBL2_ENST00000379935.4_3'UTR|RBL2_ENST00000544545.1_Missense_Mutation_p.R212C	NM_005611.3	NP_005602.3	Q08999	RBL2_HUMAN	retinoblastoma-like 2	428	Domain A.|Pocket; binds E1A.				chromatin modification (GO:0016568)|mitotic cell cycle (GO:0000278)|regulation of cell cycle (GO:0051726)|regulation of lipid kinase activity (GO:0043550)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)			breast(3)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(8)|lung(17)|ovary(4)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	45						TAGCTTGAGTCGTCTTCACAC	0.458																																																0													95	83	87					16																	53493465		2198	4300	6498	SO:0001583	missense	5934			X74594	CCDS10748.1	16q12.2	2014-03-11	2014-03-11		ENSG00000103479	ENSG00000103479			9894	protein-coding gene	gene with protein product		180203				8361765, 8643454	Standard	NM_005611		Approved	Rb2, p130	uc002ehi.4	Q08999	OTTHUMG00000133198	ENST00000262133.6:c.1282C>T	16.37:g.53493465C>T	ENSP00000262133:p.Arg428Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z913|Q15073|Q16084|Q8NE70|Q92812	Missense_Mutation	SNP	ENST00000262133.6	37	CCDS10748.1	.	.	.	.	.	.	.	.	.	.	C	23.4	4.410944	0.83340	.	.	ENSG00000103479	ENST00000262133;ENST00000544405;ENST00000379935;ENST00000544545	D;D;D	0.88509	-2.39;-2.39;-2.39	6.04	6.04	0.98038	Retinoblastoma-associated protein, A-box (1);Cyclin-like (2);	0.000000	0.85682	D	0.000000	D	0.95095	0.8411	M	0.80422	2.495	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.91635	0.999;0.996;0.982;0.95	D	0.94740	0.7918	10	0.87932	D	0	-15.4524	20.5948	0.99439	0.0:1.0:0.0:0.0	.	212;428;138;428	B7Z913;Q8NE70;E9PG04;Q08999	.;.;.;RBL2_HUMAN	C	428;354;138;212	ENSP00000262133:R428C;ENSP00000443744:R354C;ENSP00000444685:R212C	ENSP00000262133:R428C	R	+	1	0	RBL2	52050966	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.649000	0.83500	2.873000	0.98535	0.563000	0.77884	CGT		0.458	RBL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256908.3	NM_005611		T	53493465	C	T	53493465	3	4	679	1	0	0	0	0	1	0	0	0	13123	884	31	1	1316	1	RBL2	16	53493465	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	25364772	53493465	36861288	108	43928										
GPR56	9289	broad.mit.edu	37	chr16	57697474	57697474	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tccccatcagctcgggcagcAcctcgtccagccgcatctag	9	18	2	0			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr16:57697474A>C	ENST00000388812.4	+	14	2502	c.2062A>C	c.(2062-2064)Acc>Ccc	p.T688P	GPR56_ENST00000540164.2_Missense_Mutation_p.T682P|GPR56_ENST00000544297.1_Missense_Mutation_p.T507P|GPR56_ENST00000379694.4_Missense_Mutation_p.T518P|GPR56_ENST00000568908.1_Missense_Mutation_p.T682P|GPR56_ENST00000538815.1_Missense_Mutation_p.T682P|GPR56_ENST00000567835.1_Missense_Mutation_p.T688P|GPR56_ENST00000562558.1_Missense_Mutation_p.T682P|GPR56_ENST00000388813.5_Missense_Mutation_p.T682P|GPR56_ENST00000568909.1_Missense_Mutation_p.T688P|GPR56_ENST00000379696.3_Missense_Mutation_p.T688P|GPR56_ENST00000456916.1_Missense_Mutation_p.T688P|GPR56_ENST00000562631.1_Missense_Mutation_p.T682P			Q9Y653	GPR56_HUMAN	G protein-coupled receptor 56	688					angiogenesis (GO:0001525)|brain development (GO:0007420)|cell adhesion (GO:0007155)|cell-cell signaling (GO:0007267)|cerebral cortex radial glia guided migration (GO:0021801)|G-protein coupled receptor signaling pathway (GO:0007186)|layer formation in cerebral cortex (GO:0021819)|negative regulation of cell proliferation (GO:0008285)|negative regulation of neuron migration (GO:2001223)|neuropeptide signaling pathway (GO:0007218)|positive regulation of cell adhesion (GO:0045785)|positive regulation of Rho protein signal transduction (GO:0035025)|protein kinase C signaling (GO:0070528)|Rho protein signal transduction (GO:0007266)|vascular endothelial growth factor production (GO:0010573)	extracellular vesicular exosome (GO:0070062)|glial limiting end-foot (GO:0097451)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)	collagen binding (GO:0005518)|extracellular matrix binding (GO:0050840)|G-protein coupled receptor activity (GO:0004930)			kidney(1)|large_intestine(3)|lung(9)|prostate(1)|skin(1)	15						CTCGGGCAGCACCTCGTCCAG	0.672																																																0													52	52	52					16																	57697474		2198	4300	6498	SO:0001583	missense	9289			AJ011001	CCDS32460.1, CCDS32461.1, CCDS73893.1	16q13	2014-08-08				ENSG00000205336		"-", "GPCR / Class B : Orphans"	4512	protein-coding gene	gene with protein product		604110				10049584, 10100861	Standard	XM_005256237		Approved	TM7LN4, TM7XN1	uc002emb.2	Q9Y653		ENST00000388812.4:c.2062A>C	16.37:g.57697474A>C	ENSP00000373464:p.Thr688Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NIT7|A6NJV9|B0M0K4|B4DR54|O95966|Q6ZMP1|Q8NGB3|Q96HB4	Missense_Mutation	SNP	ENST00000388812.4	37	CCDS32460.1	.	.	.	.	.	.	.	.	.	.	A	16.35	3.098377	0.56183	.	.	ENSG00000205336	ENST00000388813;ENST00000388812;ENST00000538815;ENST00000456916;ENST00000540164;ENST00000544297;ENST00000379694;ENST00000379696	T;T;T;T;T;T;T;T	0.51071	0.72;0.73;0.72;0.73;0.72;1.66;1.1;0.73	4.79	4.79	0.61399	.	0.117908	0.37715	N	0.001978	T	0.53077	0.1774	N	0.24115	0.695	0.30860	N	0.733618	D;D;D;D	0.76494	0.999;0.998;0.999;0.998	D;D;D;D	0.85130	0.997;0.994;0.973;0.994	T	0.58239	-0.7671	10	0.62326	D	0.03	.	11.6826	0.51466	1.0:0.0:0.0:0.0	.	507;687;682;688	F5H144;B4DR54;Q9Y653-2;Q9Y653	.;.;.;GPR56_HUMAN	P	682;688;682;688;682;507;518;688	ENSP00000373465:T682P;ENSP00000373464:T688P;ENSP00000444415:T682P;ENSP00000398034:T688P;ENSP00000444911:T682P;ENSP00000438006:T507P;ENSP00000369016:T518P;ENSP00000369018:T688P	ENSP00000369016:T518P	T	+	1	0	GPR56	56254975	1.000000	0.71417	1.000000	0.80357	0.305000	0.27757	4.852000	0.62904	1.797000	0.52628	0.402000	0.26972	ACC		0.672	GPR56-203	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000433436.3			C	57697474	A	C	57697474	3	2	679	1	0	0	0	0	1	0	0	0	6707	159	6	5	2127	5	GPR56	16	57697474	Missense_Mutation	SNP	A	TCGA-KO-8408-01A-11D-2310-10	4204009	57697474	32657279	109	43929										
MMP15	4324	broad.mit.edu	37	chr16	58075623	58075624	+	Frame_Shift_Del	DEL	CA	CA	-													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gccccggcctccccagccacCacccccaggtgggaagccag					rs551320756	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr16:58075623_58075624delCA	ENST00000219271.3	+	6	1798_1799	c.1013_1014delCA	c.(1012-1014)ccafs	p.P340fs		NM_002428.2	NP_002419.1	P51511	MMP15_HUMAN	matrix metallopeptidase 15 (membrane-inserted)	340	Poly-Pro.				cellular protein modification process (GO:0006464)|collagen catabolic process (GO:0030574)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|positive regulation of catalytic activity (GO:0043085)|response to estradiol (GO:0032355)	extracellular matrix (GO:0031012)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|enzyme activator activity (GO:0008047)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|endometrium(4)|large_intestine(4)|lung(3)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	18					Marimastat(DB00786)	CCCCAGCCACCACCCCCAGGTG	0.743																																																0										60,4042		9,42,2000						2.5	1			10	42,7928		13,16,3956	no	frameshift	MMP15	NM_002428.2		22,58,5956	A1A1,A1R,RR		0.527,1.4627,0.8449				102,11970				SO:0001589	frameshift_variant	4324			Z48482	CCDS10792.1	16q13	2008-05-14	2005-08-08		ENSG00000102996	ENSG00000102996			7161	protein-coding gene	gene with protein product		602261	"matrix metalloproteinase 15 (membrane-inserted)"			9070935, 9119382	Standard	NM_002428		Approved	MT2-MMP, MTMMP2, SMCP-2	uc002ena.3	P51511	OTTHUMG00000133466	ENST00000219271.3:c.1013_1014delCA	16.37:g.58075623_58075624delCA	ENSP00000219271:p.Pro340fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0A2U6|Q14111	Frame_Shift_Del	DEL	ENST00000219271.3	37	CCDS10792.1																																																																																				0.743	MMP15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257342.1	NM_002428		-	58075624	CA	-	58075623	7	5	679	1	0	1	0	1	0	0	0	0	9661	594	21	0	1035	0	MMP15	16	58075623	Frame_Shift_Del	DEL	CA	TCGA-KO-8408-01A-11D-2310-10	378149	58075623	32279130	110	43930	451	2								
MMP15	4324	broad.mit.edu	37	chr16	58075631	58075631	+	Frame_Shift_Del	DEL	G	G	-													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ctccccagccaccacccccaGgtgggaagccagagcggccc							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr16:58075631delG	ENST00000219271.3	+	6	1806	c.1021delG	c.(1021-1023)ggtfs	p.G342fs		NM_002428.2	NP_002419.1	P51511	MMP15_HUMAN	matrix metallopeptidase 15 (membrane-inserted)	342					cellular protein modification process (GO:0006464)|collagen catabolic process (GO:0030574)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|positive regulation of catalytic activity (GO:0043085)|response to estradiol (GO:0032355)	extracellular matrix (GO:0031012)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|enzyme activator activity (GO:0008047)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|endometrium(4)|large_intestine(4)|lung(3)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	18					Marimastat(DB00786)	ACCACCCCCAGGTGGGAAGCC	0.741																																																0													10	12	11					16																	58075631		2140	4221	6361	SO:0001589	frameshift_variant	4324			Z48482	CCDS10792.1	16q13	2008-05-14	2005-08-08		ENSG00000102996	ENSG00000102996			7161	protein-coding gene	gene with protein product		602261	"matrix metalloproteinase 15 (membrane-inserted)"			9070935, 9119382	Standard	NM_002428		Approved	MT2-MMP, MTMMP2, SMCP-2	uc002ena.3	P51511	OTTHUMG00000133466	ENST00000219271.3:c.1021delG	16.37:g.58075631delG	ENSP00000219271:p.Gly342fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0A2U6|Q14111	Frame_Shift_Del	DEL	ENST00000219271.3	37	CCDS10792.1																																																																																				0.741	MMP15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257342.1	NM_002428		-	58075631	G	-	58075631	7	5	679	1	0	1	0	1	0	0	0	0	9661	1000	35	0	1043	0	MMP15	16	58075631	Frame_Shift_Del	DEL	G	TCGA-KO-8408-01A-11D-2310-10	8	58075631	32279122	111	43931	451	2								
TP53	7157	broad.mit.edu	37	chr17	7578176	7578176	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gaccccagttgcaaaccagaCctcaggcggctcatagggca	11	14	2	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr17:7578176C>A	ENST00000269305.4	-	6	862		c.e6+1		TP53_ENST00000455263.2_Splice_Site|TP53_ENST00000420246.2_Splice_Site|TP53_ENST00000574684.1_Intron|TP53_ENST00000445888.2_Splice_Site|TP53_ENST00000413465.2_Splice_Site|TP53_ENST00000359597.4_Splice_Site	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53						apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.?(56)|p.0?(8)|p.V225fs*24(1)|p.E224_V225insXX(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	GCAAACCAGACCTCAGGCGGC	0.527		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	66	Unknown(56)|Whole gene deletion(8)|Insertion - In frame(1)|Insertion - Frameshift(1)	ovary(12)|upper_aerodigestive_tract(10)|lung(8)|biliary_tract(5)|endometrium(5)|large_intestine(4)|oesophagus(4)|bone(4)|stomach(3)|central_nervous_system(3)|haematopoietic_and_lymphoid_tissue(2)|breast(2)|cervix(1)|soft_tissue(1)|skin(1)|pancreas(1)	GRCh37	CS071266	TP53	S							80	75	77					17																	7578176		2203	4300	6503	SO:0001630	splice_region_variant	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.672+1G>T	17.37:g.7578176C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Splice_Site	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	C	20.3	3.964220	0.74131	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944	.	.	.	5.28	4.29	0.51040	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.205	0.59790	0.1605:0.8394:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	TP53	7518901	1.000000	0.71417	0.998000	0.56505	0.979000	0.70002	7.775000	0.85489	1.321000	0.45227	0.563000	0.77884	.		0.527	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546	Intron	A	7578176	C	A	7578176	5	1	679	1	0	0	0	0	0	0	1	0	16393	521	18	4	621	4	TP53	17	7578176	Splice_Site	SNP	C	TCGA-KO-8408-01A-11D-2310-10		7578176	73617034	112	43932										
TP53	7157	broad.mit.edu;hgsc.bcm.edu	37	chr17	7579716	7579716	+	Frame_Shift_Del	DEL	G	G	-													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ttaccagaacgttgttttcaGgaagtctgaaagacaagagc					rs397516438		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr17:7579716delG	ENST00000269305.4	-	3	269	c.80delC	c.(79-81)cctfs	p.P27fs	TP53_ENST00000455263.2_Frame_Shift_Del_p.P27fs|TP53_ENST00000420246.2_Frame_Shift_Del_p.P27fs|TP53_ENST00000574684.1_5'Flank|TP53_ENST00000445888.2_Frame_Shift_Del_p.P27fs|TP53_ENST00000413465.2_Frame_Shift_Del_p.P27fs|TP53_ENST00000359597.4_Frame_Shift_Del_p.P27fs	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	27	Interaction with HRMT1L2.|Transcription activation (acidic).				apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.0?(8)|p.P27fs*17(4)|p.P27fs*50(1)|p.P13fs*18(1)|p.L26fs*11(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	GTTGTTTTCAGGAAGTCTGAA	0.617		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	15	Whole gene deletion(8)|Deletion - Frameshift(7)	large_intestine(5)|bone(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)											42	42	42					17																	7579716		2203	4300	6503	SO:0001589	frameshift_variant	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.80delC	17.37:g.7579716delG	ENSP00000269305:p.Pro27fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Frame_Shift_Del	DEL	ENST00000269305.4	37	CCDS11118.1																																																																																				0.617	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		-	7579716	G	-	7579716	7	5	679	1	0	1	0	1	0	0	0	0	16393	1000	35	0	1226	0	TP53	17	7579716	Frame_Shift_Del	DEL	G	TCGA-KO-8408-01A-11D-2310-10	1540	7579716	73615494	113	43933	452	2								
TP53	7157	bcgsc.ca	37	chr17	7579717	7579717	+	Frame_Shift_Del	DEL	G	G	-													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	taccagaacgttgttttcagGaagtctgaaagacaagagca					rs397516438		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr17:7579717delG	ENST00000269305.4	-	3	268	c.79delC	c.(79-81)cctfs	p.P27fs	TP53_ENST00000455263.2_Frame_Shift_Del_p.P27fs|TP53_ENST00000420246.2_Frame_Shift_Del_p.P27fs|TP53_ENST00000574684.1_5'Flank|TP53_ENST00000445888.2_Frame_Shift_Del_p.P27fs|TP53_ENST00000413465.2_Frame_Shift_Del_p.P27fs|TP53_ENST00000359597.4_Frame_Shift_Del_p.P27fs	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	27	Interaction with HRMT1L2.|Transcription activation (acidic).				apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.0?(8)|p.P27fs*17(2)|p.P13fs*18(1)|p.L26fs*11(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	TTGTTTTCAGGAAGTCTGAAA	0.622		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	12	Whole gene deletion(8)|Deletion - Frameshift(4)	bone(4)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)											42	42	42					17																	7579717		2203	4300	6503	SO:0001589	frameshift_variant	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.79delC	17.37:g.7579717delG	ENSP00000269305:p.Pro27fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Frame_Shift_Del	DEL	ENST00000269305.4	37	CCDS11118.1																																																																																				0.622	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		-	7579717	G	-	7579717	7	5	679	1	0	1	0	1	0	0	0	0	16393	1174	41	0	1227	0	TP53	17	7579717	Frame_Shift_Del	DEL	G	TCGA-KO-8408-01A-11D-2310-10	1	7579717	73615493	114	43934	452	2								
KRT38	8687	mdanderson.org	37	chr17	39595537	39595537	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ggtcggccttggccagggtcGcatcatccaggagcttctgt	14	12	2	0			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr17:39595537G>A	ENST00000246646.3	-	3	649	c.650C>T	c.(649-651)gCg>gTg	p.A217V		NM_006771.3	NP_006762.3	O76015	KRT38_HUMAN	keratin 38	217	Coil 1B.|Rod.					extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)	structural molecule activity (GO:0005198)			breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(11)|ovary(1)|pancreas(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	29		Breast(137;0.000496)				GGCCAGGGTCGCATCATCCAG	0.637																																																0													83	75	78					17																	39595537		2203	4300	6503	SO:0001583	missense	8687			Y16794	CCDS11392.1	17q21.2	2013-06-20	2006-07-17	2006-07-17	ENSG00000171360	ENSG00000171360		"-", "Intermediate filaments type I, keratins (acidic)"	6456	protein-coding gene	gene with protein product		604542	"keratin, hair, acidic, 8"	KRTHA8		9756910, 16831889	Standard	NM_006771		Approved		uc002hwq.1	O76015	OTTHUMG00000133439	ENST00000246646.3:c.650C>T	17.37:g.39595537G>A	ENSP00000246646:p.Ala217Val	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRM5|Q6A164	Missense_Mutation	SNP	ENST00000246646.3	37	CCDS11392.1	.	.	.	.	.	.	.	.	.	.	G	12.41	1.928753	0.34002	.	.	ENSG00000171360	ENST00000246646	D	0.90004	-2.6	4.31	3.11	0.35812	Filament (1);	1.672080	0.04241	N	0.336988	D	0.85961	0.5819	L	0.45051	1.395	0.09310	N	1	B	0.10296	0.003	B	0.10450	0.005	T	0.71217	-0.4658	10	0.72032	D	0.01	.	7.6159	0.28158	0.8792:0.0:0.1208:0.0	.	217	O76015	KRT38_HUMAN	V	217	ENSP00000246646:A217V	ENSP00000246646:A217V	A	-	2	0	KRT38	36849063	0.044000	0.20184	0.710000	0.30468	0.780000	0.44128	3.320000	0.51991	0.590000	0.29694	0.484000	0.47621	GCG		0.637	KRT38-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257307.2	NM_006771		A	39595537	G	A	39595537	3	1	679	1	0	0	0	0	1	0	0	0	8482	1087	38	1	740	1	KRT38	17	39595537	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	32015820	39595537	41599673	115	43935										
KRT32	3882	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr17	39623194	39623194	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tgggagtgagaggcctcttgGatcctgctctccagctccgc	13	13	2	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr17:39623194G>A	ENST00000225899.3	-	1	487	c.384C>T	c.(382-384)atC>atT	p.I128I	RNU2-32P_ENST00000411193.1_RNA	NM_002278.3	NP_002269.3	Q14532	K1H2_HUMAN	keratin 32	128	Coil 1A.|Rod.				epidermis development (GO:0008544)	extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)	structural molecule activity (GO:0005198)			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(6)|ovary(1)|prostate(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	21		Breast(137;0.000812)				AGGCCTCTTGGATCCTGCTCT	0.582																																																0													111	98	102					17																	39623194		2203	4300	6503	SO:0001819	synonymous_variant	3882			X90761	CCDS11393.1	17q21.2	2013-01-16	2006-07-17	2006-07-17	ENSG00000108759	ENSG00000108759		"-", "Intermediate filaments type I, keratins (acidic)"	6449	protein-coding gene	gene with protein product	"hard keratin type I"	602760	"keratin, hair, acidic, 2"	KRTHA2		7556444, 8823373, 16831889	Standard	NM_002278		Approved	Ha-2	uc002hwr.3	Q14532	OTTHUMG00000133430	ENST00000225899.3:c.384C>T	17.37:g.39623194G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000225899.3	37	CCDS11393.1																																																																																				0.582	KRT32-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257293.1	NM_002278		A	39623194	G	A	39623194	2	1	679	1	0	0	0	0	0	0	0	1	8475	1164	41	2		2	KRT32	17	39623194	Silent	SNP	G	TCGA-KO-8408-01A-11D-2310-10	27657	39623194	41572016	116	43936										
KRT19	3880	mdanderson.org	37	chr17	39684321	39684321	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cgccgtagccgccgccgtagGcccccgaggaggacgaggac	16	16	0	0	rs4602	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr17:39684321G>C	ENST00000361566.3	-	1	239	c.179C>G	c.(178-180)gCc>gGc	p.A60G		NM_002276.4	NP_002267.2	P08727	K1C19_HUMAN	keratin 19	60	Head.		A -> G (in dbSNP:rs4602). {ECO:0000269|PubMed:10623642, ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:21269460, ECO:0000269|PubMed:2447559, ECO:0000269|PubMed:2448790, ECO:0000269|PubMed:2469734}.		cell differentiation involved in embryonic placenta development (GO:0060706)|response to estrogen (GO:0043627)|sarcomere organization (GO:0045214)|viral process (GO:0016032)	cell periphery (GO:0071944)|costamere (GO:0043034)|dystrophin-associated glycoprotein complex (GO:0016010)|extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)|sarcolemma (GO:0042383)|Z disc (GO:0030018)	structural constituent of cytoskeleton (GO:0005200)|structural constituent of muscle (GO:0008307)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(3)|prostate(2)	12		Breast(137;0.00038)				GCCGCCGTAGGCCCCCGAGGA	0.726													C|||	3746	0.748003	0.6445	0.7896	5008	,	,		12585	0.9187		0.6471	False		,,,				2504	0.7863															0								C	GLY/ALA	2720,1596		894,932,332	17	23	21		179	4.4	1	17	dbSNP_52	21	5361,3111		1756,1849,631	no	missense	KRT19	NM_002276.4	60	2650,2781,963	CC,CG,GG		36.721,36.9787,36.8079		60/401	39684321	8081,4707	2158	4236	6394	SO:0001583	missense	3880				CCDS11399.1	17q21.2	2013-06-20			ENSG00000171345	ENSG00000171345		"-", "Intermediate filaments type I, keratins (acidic)"	6436	protein-coding gene	gene with protein product	"keratin, type I cytoskeletal 19", "keratin, type I, 40-kd", "cytokeratin 19", "40-kDa keratin intermediate filament"	148020				16831889	Standard	NM_002276		Approved	K19, CK19, K1CS, MGC15366		P08727	OTTHUMG00000133422	ENST00000361566.3:c.179C>G	17.37:g.39684321G>C	ENSP00000355124:p.Ala60Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2R874|Q5XG83|Q6NW33|Q7L5M9|Q96A53|Q96FV1|Q9BYF9|Q9P1Y4	Missense_Mutation	SNP	ENST00000361566.3	37	CCDS11399.1	1594	0.7298534798534798	313	0.6361788617886179	269	0.7430939226519337	533	0.9318181818181818	479	0.6319261213720316	C	2.730	-0.264716	0.05754	0.630213	0.63279	ENSG00000171345	ENST00000361566;ENST00000455635	T;T	0.81330	-1.48;-1.07	4.39	4.39	0.52855	.	0.426572	0.19926	N	0.102967	T	0.00012	0.0000	N	0.00237	-1.79	0.58432	P	4.000000000004E-6	B	0.02656	0.0	B	0.01281	0.0	T	0.40040	-0.9584	9	0.13853	T	0.58	.	14.8587	0.70362	0.0:0.8554:0.1446:0.0	rs4602;rs3188663;rs16967073;rs17856215;rs58113253	60	P08727	K1C19_HUMAN	G	60	ENSP00000355124:A60G;ENSP00000408759:A60G	ENSP00000355124:A60G	A	-	2	0	KRT19	36937847	0.005000	0.15991	1.000000	0.80357	0.129000	0.20672	0.256000	0.18351	1.213000	0.43380	-0.216000	0.12614	GCC		0.726	KRT19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257285.1	NM_002276		C	39684321	G	C	39684321	3	2	679	1	0	0	0	0	1	0	0	0	8463	1203	42	4	1047	4	KRT19	17	39684321	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	61127	39684321	41510889	117	43937										
ACLY	47	hgsc.bcm.edu;ucsc.edu	37	chr17	40049426	40049426	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ctgaagagggtggtgctcttTcctggtgggcaaagacacag	15	8	1	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr17:40049426T>C	ENST00000352035.2	-	15	1591	c.1461A>G	c.(1459-1461)ggA>ggG	p.G487G	ACLY_ENST00000590151.1_Splice_Site_p.G487G|ACLY_ENST00000393896.2_Splice_Site_p.G477G|ACLY_ENST00000537919.1_Splice_Site_p.G216G|ACLY_ENST00000353196.1_Splice_Site_p.G477G	NM_001096.2	NP_001087.2	P53396	ACLY_HUMAN	ATP citrate lyase	487					ATP catabolic process (GO:0006200)|cellular carbohydrate metabolic process (GO:0044262)|cellular lipid metabolic process (GO:0044255)|citrate metabolic process (GO:0006101)|coenzyme A metabolic process (GO:0015936)|energy reserve metabolic process (GO:0006112)|lipid biosynthetic process (GO:0008610)|long-chain fatty-acyl-CoA biosynthetic process (GO:0035338)|positive regulation of cellular metabolic process (GO:0031325)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)	citrate lyase complex (GO:0009346)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATP citrate synthase activity (GO:0003878)|cofactor binding (GO:0048037)|metal ion binding (GO:0046872)|succinate-CoA ligase (ADP-forming) activity (GO:0004775)		NTN1/ACLY(2)	breast(2)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(5)|lung(4)|ovary(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	28		Breast(137;0.000143)				TGGTGCTCTTTCCTGGTGGGC	0.627																																					Colon(64;807 1396 15971 30971)											0													82	77	79					17																	40049426		2203	4300	6503	SO:0001630	splice_region_variant	47			X64330	CCDS11412.1, CCDS11413.1	17q21.2	2010-04-27			ENSG00000131473	ENSG00000131473	2.3.3.8		115	protein-coding gene	gene with protein product	"ATP citrate synthase"	108728				1371749, 8088842	Standard	NM_001096		Approved	ATPCL, CLATP, ACL	uc002hyg.3	P53396	OTTHUMG00000133507	ENST00000352035.2:c.1460-1A>G	17.37:g.40049426T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DIM0|B4E3P0|Q13037|Q9BRL0	Silent	SNP	ENST00000352035.2	37	CCDS11412.1																																																																																				0.627	ACLY-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257465.1	NM_001096	Silent	C	40049426	T	C	40049426	5	2	679	1	0	0	0	0	0	0	1	0	143	1797	62	3	1904	3	ACLY	17	40049426	Splice_Site	SNP	T	TCGA-KO-8408-01A-11D-2310-10	365105	40049426	41145784	118	43938										
CDC27	996	mdanderson.org	37	chr17	45234650	45234650	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tcaggctgtctgtgagataaActatgattaggtacttgtgt	11	5	2	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr17:45234650A>G	ENST00000066544.3	-	6	669	c.576T>C	c.(574-576)agT>agC	p.S192S	CDC27_ENST00000446365.2_Silent_p.S131S|CDC27_ENST00000527547.1_Silent_p.S192S|CDC27_ENST00000528748.1_5'UTR|CDC27_ENST00000531206.1_Silent_p.S192S	NM_001114091.1|NM_001256.3	NP_001107563.1|NP_001247.3	P30260	CDC27_HUMAN	cell division cycle 27	192					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|cell proliferation (GO:0008283)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|mitotic cell cycle (GO:0000278)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K11-linked ubiquitination (GO:0070979)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	anaphase-promoting complex (GO:0005680)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle (GO:0005819)	protein phosphatase binding (GO:0019903)			NS(1)|breast(5)|central_nervous_system(3)|cervix(1)|endometrium(2)|kidney(17)|large_intestine(18)|lung(11)|ovary(5)|pancreas(1)|prostate(19)|skin(5)|upper_aerodigestive_tract(2)	90						TGTGAGATAAACTATGATTAG	0.373																																																0													67	67	67					17																	45234650		2203	4300	6503	SO:0001819	synonymous_variant	996			U00001	CCDS11509.1, CCDS45720.1, CCDS74090.1	17q21.32	2013-01-17	2013-01-17		ENSG00000004897	ENSG00000004897		"Anaphase promoting complex subunits", "Tetratricopeptide (TTC) repeat domain containing"	1728	protein-coding gene	gene with protein product	"anaphase promoting complex subunit 3"	116946	"cell division cycle 27", "cell division cycle 27 homolog (S. cerevisiae)"	D0S1430E, D17S978E		8234252	Standard	XM_005257892		Approved	APC3, ANAPC3, NUC2	uc002ile.4	P30260	OTTHUMG00000166429	ENST00000066544.3:c.576T>C	17.37:g.45234650A>G		Somatic		WXS	Illumina HiSeq	Phase_I	G3V1C4|Q16349|Q96F35	Silent	SNP	ENST00000066544.3	37	CCDS11509.1																																																																																				0.373	CDC27-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000389742.2			G	45234650	A	G	45234650	2	3	679	1	0	0	0	0	0	0	0	1	3068	40	2	3		3	CDC27	17	45234650	Silent	SNP	A	TCGA-KO-8408-01A-11D-2310-10	5185224	45234650	35960560	119	43939										
CCDC45	90799	ucsc.edu;bcgsc.ca	37	chr17	62521946	62521946	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	taaaggcagcaaatgggaagTatatccagctcaggtccaag	11	8	1	0			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr17:62521946T>C	ENST00000556440.2	+	9	1478	c.968T>C	c.(967-969)gTa>gCa	p.V323A	CEP95_ENST00000553412.1_Missense_Mutation_p.V159A	NM_138363.1	NP_612372.1	Q96GE4	CEP95_HUMAN	centrosomal protein 95kDa	323						centrosome (GO:0005813)|cytoplasm (GO:0005737)|spindle pole (GO:0000922)				endometrium(1)|kidney(3)|large_intestine(5)|lung(3)|ovary(1)	13						AAATGGGAAGTATATCCAGCT	0.383																																																0													72	70	70					17																	62521946		1846	4097	5943	SO:0001583	missense	90799			AL832822	CCDS45763.1	17q24.1	2014-02-20	2011-05-06	2011-05-06	ENSG00000258890	ENSG00000258890			25141	protein-coding gene	gene with protein product			"coiled-coil domain containing 45"	CCDC45		21399614	Standard	NM_138363		Approved	DKFZp667E1824	uc002jem.3	Q96GE4	OTTHUMG00000179174	ENST00000556440.2:c.968T>C	17.37:g.62521946T>C	ENSP00000450461:p.Val323Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4DMD2|Q96M81	Missense_Mutation	SNP	ENST00000556440.2	37	CCDS45763.1	.	.	.	.	.	.	.	.	.	.	T	10.53	1.375115	0.24857	.	.	ENSG00000258890	ENST00000553956;ENST00000556440;ENST00000553412	T;T	0.36878	1.23;1.23	5.1	-4.85	0.03142	.	1.411470	0.03847	N	0.271690	T	0.20373	0.0490	N	0.19112	0.55	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.18777	-1.0326	10	0.16420	T	0.52	3.826	7.8451	0.29421	0.1351:0.5551:0.0:0.3097	.	323	Q96GE4	CEP95_HUMAN	A	258;323;159	ENSP00000450461:V323A;ENSP00000450906:V159A	ENSP00000438458:V258A	V	+	2	0	CEP95	59952408	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.385000	0.07379	-0.677000	0.05231	-1.069000	0.02264	GTA		0.383	CEP95-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445100.2	NM_138363		C	62521946	T	C	62521946	3	2	679	1	0	0	0	0	1	0	0	0	2818	1638	57	3	1002	3	CCDC45	17	62521946	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10	17287296	62521946	18673264	120	43940										
ZNF516	9658	broad.mit.edu	37	chr18	74153725	74153726	+	Frame_Shift_Ins	INS	-	-	C													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cttgaggtactcggccggctINScggccaccttaccccgcgtg							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr18:74153725_74153726insC	ENST00000443185.2	-	3	1602_1603	c.1285_1286insG	c.(1285-1287)gagfs	p.E429fs	ZNF516_ENST00000524431.2_5'UTR	NM_014643.3	NP_055458.1	Q92618	ZN516_HUMAN	zinc finger protein 516	429					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(2)|endometrium(3)|kidney(2)|large_intestine(7)|lung(11)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	32		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		CTCGGCCGGCTCGGCCACCTTA	0.713																																																0																																										SO:0001589	frameshift_variant	9658			D86975	CCDS74234.1	18q23	2013-01-08				ENSG00000101493		"Zinc fingers, C2H2-type"	28990	protein-coding gene	gene with protein product		615114				9039502	Standard	NM_014643		Approved	HsT287, KIAA0222	uc021ulp.1	Q92618		ENST00000443185.2:c.1286dupG	18.37:g.74153726_74153726dupC	ENSP00000394757:p.Glu429fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000443185.2	37																																																																																					0.713	ZNF516-201	KNOWN	basic|appris_principal|exp_conf	protein_coding	protein_coding		NM_014643		C	74153726	-	C	74153725	7	5	679	1	0	1	1	0	0	0	0	0	17972	1551	54	0	2226	0	ZNF516	18	74153725	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10		74153725	3923523	121	43941										
ABCA7	10347	mdanderson.org	37	chr19	1047002	1047002	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cccttcctgctcagcgccgcActgctggttctggtgctcaa	10	16	3	0	rs3752234	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:1047002A>G	ENST00000263094.6	+	14	2055	c.1824A>G	c.(1822-1824)gcA>gcG	p.A608A	ABCA7_ENST00000435683.2_Silent_p.A470A|ABCA7_ENST00000533574.1_Intron|ABCA7_ENST00000433129.1_Silent_p.A608A	NM_019112.3	NP_061985.2	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 7	608					apolipoprotein A-I-mediated signaling pathway (GO:0038027)|ATP catabolic process (GO:0006200)|cholesterol efflux (GO:0033344)|high-density lipoprotein particle assembly (GO:0034380)|memory (GO:0007613)|negative regulation of amyloid precursor protein biosynthetic process (GO:0042985)|negative regulation of ATPase activity (GO:0032780)|negative regulation of beta-amyloid formation (GO:1902430)|peptide cross-linking (GO:0018149)|phagocytosis (GO:0006909)|phospholipid efflux (GO:0033700)|phospholipid scrambling (GO:0017121)|positive regulation of ATPase activity (GO:0032781)|positive regulation of beta-amyloid clearance (GO:1900223)|positive regulation of cholesterol efflux (GO:0010875)|positive regulation of engulfment of apoptotic cell (GO:1901076)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of phagocytosis (GO:0050766)|positive regulation of phospholipid efflux (GO:1902995)|protein localization to nucleus (GO:0034504)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|ATP-binding cassette (ABC) transporter complex (GO:0043190)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|phagocytic cup (GO:0001891)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)	apolipoprotein A-I receptor activity (GO:0034188)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|phospholipid transporter activity (GO:0005548)|transporter activity (GO:0005215)			NS(1)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(7)|lung(22)|ovary(1)|pancreas(7)|prostate(4)|skin(3)|upper_aerodigestive_tract(1)	65		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCAGCGCCGCACTGCTGGTTC	0.726													G|||	2899	0.578874	0.4637	0.7104	5008	,	,		13766	0.75		0.5199	False		,,,				2504	0.5256															0										2219,2141		606,1007,567	14	13	13		1824	-2.7	0.3	19	dbSNP_107	13	4663,3873		1348,1967,953	no	coding-synonymous	ABCA7	NM_019112.3		1954,2974,1520	GG,GA,AA		45.3725,49.1055,46.6346		608/2147	1047002	6882,6014	2180	4268	6448	SO:0001819	synonymous_variant	10347			AF328787	CCDS12055.1	19p13.3	2012-03-14			ENSG00000064687	ENSG00000064687		"ATP binding cassette transporters / subfamily A"	37	protein-coding gene	gene with protein product		605414					Standard	NM_019112		Approved	ABCX	uc002lqw.4	Q8IZY2	OTTHUMG00000167547	ENST00000263094.6:c.1824A>G	19.37:g.1047002A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q96S58|Q9BZC4|Q9NR73|Q9UKP8	Silent	SNP	ENST00000263094.6	37	CCDS12055.1																																																																																				0.726	ABCA7-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000394993.1	NM_019112		G	1047002	A	G	1047002	2	3	679	1	0	0	0	0	0	0	0	1	37	146	6	3		3	ABCA7	19	1047002	Silent	SNP	A	TCGA-KO-8408-01A-11D-2310-10		1047002	58081981	122	43942										
HMHA1	23526	mdanderson.org	37	chr19	1081617	1081617	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tgcgggcacaagaagctgcaAggccgcctgcagctgttcgg	15	12	0	1	rs10404947	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:1081617A>G	ENST00000313093.2	+	18	2490	c.2259A>G	c.(2257-2259)caA>caG	p.Q753Q	HMHA1_ENST00000543365.1_Silent_p.Q636Q|HMHA1_ENST00000536472.1_Silent_p.Q621Q|HMHA1_ENST00000539243.2_Silent_p.Q769Q|HMHA1_ENST00000586866.1_Silent_p.Q757Q|HMHA1_ENST00000590577.1_Silent_p.Q388Q|HMHA1_ENST00000590214.1_Silent_p.Q780Q	NM_012292.3	NP_036424.2	Q92619	HMHA1_HUMAN	histocompatibility (minor) HA-1	753					regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)	GTPase activator activity (GO:0005096)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|lung(7)|ovary(1)|prostate(2)	16		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGAAGCTGCAAGGCCGCCTGC	0.667													g|||	3807	0.760184	0.8079	0.8718	5008	,	,		13576	0.6607		0.7783	False		,,,				2504	0.7004															0										3437,847		1403,631,108	6	7	7		2259	2.2	1	19	dbSNP_119	7	6717,1707		2727,1263,222	no	coding-synonymous	HMHA1	NM_012292.2		4130,1894,330	GG,GA,AA		20.2635,19.7712,20.0976		753/1137	1081617	10154,2554	2142	4212	6354	SO:0001819	synonymous_variant	23526			D86976	CCDS32863.1, CCDS58637.1, CCDS74242.1, CCDS74243.1	19p13.3	2011-09-07				ENSG00000180448		"Rho GTPase activating proteins"	17102	protein-coding gene	gene with protein product		601155				9820596, 9039502	Standard	NM_012292		Approved	KIAA0223, HA-1, ARHGAP45	uc010xgd.2	Q92619		ENST00000313093.2:c.2259A>G	19.37:g.1081617A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DTS4|F6QP70|Q6P189|Q7LE26|Q86WS1|Q8HX84|Q9GJN9|Q9GJP0|Q9GJP1|Q9MY24	Silent	SNP	ENST00000313093.2	37	CCDS32863.1																																																																																				0.667	HMHA1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458026.1			G	1081617	A	G	1081617	2	3	679	1	0	0	0	0	0	0	0	1	7247	69	3	3		3	HMHA1	19	1081617	Silent	SNP	A	TCGA-KO-8408-01A-11D-2310-10	34615	1081617	58047366	123	43943										
ADAT3	113179	mdanderson.org	37	chr19	1912251	1912251	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	acgccgcgcccgtcctggacAagcgccagacctcacgcctc	10	20	1	1	rs150715312	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:1912251A>G	ENST00000602400.1	+	2	385	c.157A>G	c.(157-159)Aag>Gag	p.K53E	SCAMP4_ENST00000409472.1_Intron|SCAMP4_ENST00000316097.8_Intron|ADAT3_ENST00000329478.2_Missense_Mutation_p.K69E|SCAMP4_ENST00000414057.2_Intron			Q96EY9	ADAT3_HUMAN	adenosine deaminase, tRNA-specific 3	53					tRNA processing (GO:0008033)		hydrolase activity (GO:0016787)|zinc ion binding (GO:0008270)			breast(1)|kidney(3)|pancreas(1)|skin(2)	7		Ovarian(11;2.11e-07)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGTCCTGGACAAGCGCCAGAC	0.731													A|||	14	0.00279553	0.0008	0.0072	5008	,	,		11791	0.0		0.008	False		,,,				2504	0.0															0								A	,GLU/LYS	19,4335		0,19,2158	12	13	13		,157	3.8	0.9	19	dbSNP_134	13	144,8388		0,144,4122	yes	intron,missense	SCAMP4,ADAT3	NM_079834.2,NM_138422.1	,56	0,163,6280	GG,GA,AA		1.6878,0.4364,1.2649	,probably-damaging	,53/352	1912251	163,12723	2177	4266	6443	SO:0001583	missense	113179			BC011824	CCDS12076.1, CCDS12076.2	19p13.3	2011-05-19	2011-05-19		ENSG00000213638	ENSG00000213638			25151	protein-coding gene	gene with protein product	"tRNA-specific adenosine deaminase 3 homolog (S. cerevisiae)"	615302	"adenosine deaminase, tRNA-specific 3, TAD3 homolog (S. cerevisiae)"			12457566	Standard	NM_138422		Approved	TAD3	uc002luh.4	Q96EY9	OTTHUMG00000154591	ENST00000602400.1:c.157A>G	19.37:g.1912251A>G	ENSP00000473571:p.Lys53Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000602400.1	37		9	0.004120879120879121	1	0.0020325203252032522	2	0.0055248618784530384	0	0.0	6	0.0079155672823219	a	15.08	2.726322	0.48833	0.004364	0.016878	ENSG00000213638	ENST00000329478;ENST00000454697	.	.	.	4.81	3.79	0.43588	.	0.168491	0.50627	D	0.000108	T	0.41119	0.1145	M	0.69185	2.1	0.41829	D	0.990062	P	0.40970	0.734	B	0.42798	0.398	T	0.52034	-0.8629	9	0.56958	D	0.05	-18.1231	9.6141	0.39681	0.797:0.203:0.0:0.0	.	53	Q96EY9	ADAT3_HUMAN	E	53	.	ENSP00000332448:K53E	K	+	1	0	ADAT3	1863251	1.000000	0.71417	0.864000	0.33941	0.072000	0.16883	2.446000	0.44908	0.712000	0.32039	0.523000	0.50628	AAG		0.731	ADAT3-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_138422		G	1912251	A	G	1912251	3	3	679	1	0	0	0	0	1	0	0	0	286	131	5	3	159	3	ADAT3	19	1912251	Missense_Mutation	SNP	A	TCGA-KO-8408-01A-11D-2310-10	830634	1912251	57216732	124	43944										
ZNRF4	148066	mdanderson.org	37	chr19	5455971	5455971	+	Missense_Mutation	SNP	G	G	T													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tgggcaaccgctctctgggcGccatcgtgctgatccgccgc					rs8103406	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:5455971G>T	ENST00000222033.4	+	1	546	c.469G>T	c.(469-471)Gcc>Tcc	p.A157S		NM_181710.3	NP_859061.3	Q8WWF5	ZNRF4_HUMAN	zinc and ring finger 4	157	PA.		A -> S (in dbSNP:rs8103406).	AIV -> SIA (in Ref. 4; AAH17592). {ECO:0000305}.		cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)	zinc ion binding (GO:0008270)			NS(1)|kidney(2)|large_intestine(5)|lung(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	16				UCEC - Uterine corpus endometrioid carcinoma (162;0.0002)		CTCTCTGGGCGCCATCGTGCT	0.682													G|||	2713	0.541733	0.3585	0.4971	5008	,	,		15533	0.753		0.5278	False		,,,				2504	0.6176															0								G	SER/ALA	1582,2672		336,910,881	27	31	30		469	-2.2	0	19	dbSNP_116	30	4185,4267		1076,2033,1117	no	missense	ZNRF4	NM_181710.3	99	1412,2943,1998	TT,TG,GG		49.5149,37.1885,45.388	benign	157/430	5455971	5767,6939	2127	4226	6353	SO:0001583	missense	148066			AK098722	CCDS42475.1	19p13.3	2013-01-09				ENSG00000105428		"RING-type (C3HC4) zinc fingers"	17726	protein-coding gene	gene with protein product		612063					Standard	NM_181710		Approved	spzn, Ssrzf1, RNF204	uc002mca.4	Q8WWF5		ENST00000222033.4:c.469G>T	19.37:g.5455971G>T	ENSP00000222033:p.Ala157Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K886|O75866	Missense_Mutation	SNP	ENST00000222033.4	37	CCDS42475.1	1225	0.5608974358974359	185	0.37601626016260165	200	0.5524861878453039	447	0.7814685314685315	393	0.5184696569920845	G	6.035	0.374881	0.11409	0.371885	0.495149	ENSG00000105428	ENST00000222033	T	0.05996	3.36	4.65	-2.19	0.07015	Protease-associated domain, PA (1);	0.532164	0.18743	U	0.132384	T	0.00012	0.0000	N	0.13327	0.33	0.80722	P	0.0	P	0.35527	0.507	B	0.40410	0.328	T	0.04140	-1.0974	9	0.20519	T	0.43	-12.463	8.1434	0.31097	0.0:0.1176:0.3591:0.5233	rs8103406;rs17205855;rs17845552;rs17858449;rs61351917;rs8103406	157	Q8WWF5	ZNRF4_HUMAN	S	157	ENSP00000222033:A157S	ENSP00000222033:A157S	A	+	1	0	ZNRF4	5406971	0.024000	0.19004	0.000000	0.03702	0.066000	0.16364	0.569000	0.23638	-0.062000	0.13088	0.491000	0.48974	GCC		0.682	ZNRF4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450924.1	NM_181710		T	5455971	G	T	5455971	3	4	679	1	0	0	0	0	1	0	0	0	18226	1087	38	4	471	4	ZNRF4	19	5455971	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	3543720	5455971	53673012	125	43945	453	2								
ZNRF4	148066	mdanderson.org	37	chr19	5455978	5455978	+	Missense_Mutation	SNP	T	T	C													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ccgctctctgggcgccatcgTgctgatccgccgctacgact					rs386806230|rs8107825	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:5455978T>C	ENST00000222033.4	+	1	553	c.476T>C	c.(475-477)gTg>gCg	p.V159A		NM_181710.3	NP_859061.3	Q8WWF5	ZNRF4_HUMAN	zinc and ring finger 4	159	PA.		V -> A (in dbSNP:rs8107825).	AIV -> SIA (in Ref. 4; AAH17592). {ECO:0000305}.		cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)	zinc ion binding (GO:0008270)			NS(1)|kidney(2)|large_intestine(5)|lung(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	16				UCEC - Uterine corpus endometrioid carcinoma (162;0.0002)		GGCGCCATCGTGCTGATCCGC	0.677													C|||	2726	0.544329	0.3744	0.4957	5008	,	,		15728	0.752		0.5219	False		,,,				2504	0.6176															0								C	ALA/VAL	1603,2649		348,907,871	28	31	30		476	-3.1	0	19	dbSNP_116	30	4077,4391		1076,1925,1233	yes	missense	ZNRF4	NM_181710.3	64	1424,2832,2104	CC,CT,TT		48.146,37.6999,44.6541	benign	159/430	5455978	5680,7040	2126	4234	6360	SO:0001583	missense	148066			AK098722	CCDS42475.1	19p13.3	2013-01-09				ENSG00000105428		"RING-type (C3HC4) zinc fingers"	17726	protein-coding gene	gene with protein product		612063					Standard	NM_181710		Approved	spzn, Ssrzf1, RNF204	uc002mca.4	Q8WWF5		ENST00000222033.4:c.476T>C	19.37:g.5455978T>C	ENSP00000222033:p.Val159Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K886|O75866	Missense_Mutation	SNP	ENST00000222033.4	37	CCDS42475.1	1232	0.5641025641025641	191	0.3882113821138211	201	0.5552486187845304	447	0.7814685314685315	393	0.5184696569920845	C	0.375	-0.931828	0.02359	0.376999	0.48146	ENSG00000105428	ENST00000222033	T	0.10668	2.85	4.65	-3.08	0.05347	Protease-associated domain, PA (1);	0.244527	0.32503	N	0.006003	T	0.00012	0.0000	N	0.17248	0.465	0.80722	P	0.0	B	0.10296	0.003	B	0.14578	0.011	T	0.39035	-0.9633	9	0.02654	T	1	-7.3391	12.8579	0.57897	0.0:0.5818:0.0:0.4182	rs8107825;rs17856547;rs60068947;rs8107825	159	Q8WWF5	ZNRF4_HUMAN	A	159	ENSP00000222033:V159A	ENSP00000222033:V159A	V	+	2	0	ZNRF4	5406978	0.002000	0.14202	0.000000	0.03702	0.006000	0.05464	-0.987000	0.03743	-0.981000	0.03520	-1.140000	0.01884	GTG		0.677	ZNRF4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450924.1	NM_181710		C	5455978	T	C	5455978	3	2	679	1	0	0	0	0	1	0	0	0	18226	1696	59	3	478	3	ZNRF4	19	5455978	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10	7	5455978	53673005	126	43946	453	2								
PNPLA6	10908	mdanderson.org	37	chr19	7615903	7615903	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gaggcactgacccggcagccGcgagccacgacggtgcacgc	15	16	0	1	rs8107538	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:7615903G>A	ENST00000221249.6	+	20	2408	c.1977G>A	c.(1975-1977)ccG>ccA	p.P659P	PNPLA6_ENST00000594864.1_3'UTR|PNPLA6_ENST00000414982.3_Silent_p.P707P|PNPLA6_ENST00000545201.2_Silent_p.P633P|PNPLA6_ENST00000450331.3_Silent_p.P659P|PNPLA6_ENST00000600737.1_Silent_p.P698P	NM_006702.4	NP_006693.3	Q8IY17	PLPL6_HUMAN	patatin-like phospholipase domain containing 6	698					angiogenesis (GO:0001525)|cell death (GO:0008219)|lipid catabolic process (GO:0016042)|organ morphogenesis (GO:0009887)|phosphatidylcholine metabolic process (GO:0046470)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	lysophospholipase activity (GO:0004622)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(6)|lung(14)|ovary(3)|stomach(1)|upper_aerodigestive_tract(1)	35						CCCGGCAGCCGCGAGCCACGA	0.687													G|||	1012	0.202077	0.3419	0.1758	5008	,	,		9640	0.0129		0.2386	False		,,,				2504	0.1892															0								G	,,,,	1025,2749		156,713,1018	4	4	4		2121,1899,1977,2094,1977	-9.8	0.6	19	dbSNP_116	4	1552,5774		175,1202,2286	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	PNPLA6	NM_001166111.1,NM_001166112.1,NM_001166113.1,NM_001166114.1,NM_006702.4	,,,,	331,1915,3304	AA,AG,GG		21.1848,27.1595,23.2162	,,,,	707/1376,633/1301,659/1328,698/1366,659/1328	7615903	2577,8523	1887	3663	5550	SO:0001819	synonymous_variant	10908			AJ004832	CCDS32891.1, CCDS54206.1, CCDS54207.1, CCDS59343.1	19p13.2	2013-09-11						"Patatin-like phospholipase domain containing"	16268	protein-coding gene	gene with protein product	"neuropathy target esterase"	603197				9576844, 16799181, 19029121	Standard	NM_006702		Approved	NTE, sws, iPLA2delta, SPG39	uc010xjq.2	Q8IY17		ENST00000221249.6:c.1977G>A	19.37:g.7615903G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NGQ0|B4DFB9|B7Z7T2|F5H5K9|J3KQS3|O60859|Q86W58|Q9UG58	Silent	SNP	ENST00000221249.6	37	CCDS32891.1																																																																																				0.687	PNPLA6-001	KNOWN	NAGNAG_splice_site|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459275.1	NM_006702		A	7615903	G	A	7615903	2	1	679	1	0	0	0	0	0	0	0	1	12176	1074	38	1		1	PNPLA6	19	7615903	Silent	SNP	G	TCGA-KO-8408-01A-11D-2310-10	2159925	7615903	51513080	127	43947										
ZNF709	163051	broad.mit.edu	37	chr19	12575585	12575585	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gtttctctccagtgtgagttCgttcatggatttgaaaagaa	10	6	2	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:12575585C>T	ENST00000397732.3	-	4	1322	c.1151G>A	c.(1150-1152)cGa>cAa	p.R384Q	ZNF709_ENST00000428311.1_Missense_Mutation_p.R384Q|CTD-3105H18.18_ENST00000598753.1_Intron	NM_152601.3	NP_689814.1	Q8N972	ZN709_HUMAN	zinc finger protein 709	384					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			large_intestine(3)|upper_aerodigestive_tract(3)	6						AGTGTGAGTTCGTTCATGGAT	0.403																																					GBM(33;565 669 12371 29134 51667)											0													102	108	106					19																	12575585		2203	4300	6503	SO:0001583	missense	163051			AK095600	CCDS42504.1	19p13.2	2013-01-08			ENSG00000242852	ENSG00000242852		"Zinc fingers, C2H2-type", "-"	20629	protein-coding gene	gene with protein product							Standard	NM_152601		Approved	FLJ38281	uc002mtv.4	Q8N972	OTTHUMG00000156406	ENST00000397732.3:c.1151G>A	19.37:g.12575585C>T	ENSP00000380840:p.Arg384Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4E6	Missense_Mutation	SNP	ENST00000397732.3	37	CCDS42504.1	.	.	.	.	.	.	.	.	.	.	C	19.70	3.877206	0.72294	.	.	ENSG00000242852;ENSG00000196826	ENST00000397732;ENST00000428311	T;T	0.24723	1.84;1.84	2.71	2.71	0.32032	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.33938	N	0.004420	T	0.39733	0.1089	M	0.65320	2	0.30009	N	0.815324	D	0.76494	0.999	P	0.56343	0.796	T	0.41787	-0.9489	10	0.72032	D	0.01	.	13.272	0.60165	0.0:1.0:0.0:0.0	.	384	Q8N972	ZN709_HUMAN	Q	384	ENSP00000380840:R384Q;ENSP00000404127:R384Q	ENSP00000404127:R384Q	R	-	2	0	ZNF709;CTD-2192J16.17	12436585	0.000000	0.05858	0.031000	0.17742	0.968000	0.65278	-1.097000	0.03349	1.860000	0.53959	0.467000	0.42956	CGA		0.403	ZNF709-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344088.1	NM_152601		T	12575585	C	T	12575585	3	4	679	1	0	0	0	0	1	0	0	0	18125	884	31	1	778	1	ZNF709	19	12575585	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	4959682	12575585	46553398	128	43948										
CPAMD8	27151	hgsc.bcm.edu;ucsc.edu	37	chr19	17088187	17088187	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cgatgctctacctggttttcGaagaaggtctcgactgcaaa	10	10	2	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:17088187G>A	ENST00000443236.1	-	15	1921	c.1890C>T	c.(1888-1890)ttC>ttT	p.F630F	CPAMD8_ENST00000388925.4_Intron	NM_015692.2	NP_056507.2	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain containing 8	583						extracellular space (GO:0005615)|plasma membrane (GO:0005886)	serine-type endopeptidase inhibitor activity (GO:0004867)			breast(11)|central_nervous_system(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(17)|lung(14)|ovary(7)|pancreas(2)|prostate(4)|skin(5)	82						CCTGGTTTTCGAAGAAGGTCT	0.612																																																0													88	90	89					19																	17088187		1970	4144	6114	SO:0001819	synonymous_variant	27151			AY101765	CCDS42519.1	19p13.12	2008-02-05			ENSG00000160111	ENSG00000160111			23228	protein-coding gene	gene with protein product		608841				10574462	Standard	NM_015692		Approved	KIAA1283, VIP, K-CAP	uc002nfb.3	Q8IZJ3	OTTHUMG00000133549	ENST00000443236.1:c.1890C>T	19.37:g.17088187G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC09|Q9ULD7	Silent	SNP	ENST00000443236.1	37	CCDS42519.1	.	.	.	.	.	.	.	.	.	.	g	0.634	-0.815901	0.02776	.	.	ENSG00000160111	ENST00000443236	.	.	.	2.78	-2.91	0.05631	.	.	.	.	.	T	0.53498	0.1800	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.49781	-0.8903	4	.	.	.	.	9.1401	0.36899	0.7257:0.0:0.2743:0.0	.	.	.	.	L	641	.	.	S	-	2	0	CPAMD8	16949187	0.999000	0.42202	0.465000	0.27155	0.150000	0.21749	0.664000	0.25068	-0.662000	0.05338	-0.963000	0.02626	TCG		0.612	CPAMD8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257531.2	NM_015692		A	17088187	G	A	17088187	2	1	679	1	0	0	0	0	0	0	0	1	3797	1049	37	1		1	CPAMD8	19	17088187	Silent	SNP	G	TCGA-KO-8408-01A-11D-2310-10	4512602	17088187	42040796	129	43949										
ZNF676	163223	mdanderson.org	37	chr19	22363448	22363448	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ggtttctctccagtatgaatAatcttatgtttagtaaggat	8	5	2	1	rs200452805		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:22363448A>T	ENST00000397121.2	-	3	1388	c.1071T>A	c.(1069-1071)atT>atA	p.I357I		NM_001001411.2	NP_001001411.2	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	357					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(49)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(2)	67		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				CAGTATGAATAATCTTATGTT	0.383																																																0													68	74	72					19																	22363448		2162	4271	6433	SO:0001819	synonymous_variant	163223			AK097798	CCDS42539.1	19p12	2013-01-08				ENSG00000196109		"Zinc fingers, C2H2-type"	20429	protein-coding gene	gene with protein product							Standard	NM_001001411		Approved		uc002nqs.1	Q8N7Q3		ENST00000397121.2:c.1071T>A	19.37:g.22363448A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MVX5	Silent	SNP	ENST00000397121.2	37	CCDS42539.1																																																																																				0.383	ZNF676-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464392.1	NM_001001411		T	22363448	A	T	22363448	2	4	679	1	0	0	0	0	0	0	0	1	18095	358	13	5		5	ZNF676	19	22363448	Silent	SNP	A	TCGA-KO-8408-01A-11D-2310-10	5275261	22363448	36765535	130	43950										
FFAR1	2864	mdanderson.org	37	chr19	35843086	35843086	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ctgcctccgggcactggcccGctccggcctgacgcacaggc	13	19	0	1	rs2301151	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:35843086G>A	ENST00000246553.2	+	1	642	c.632G>A	c.(631-633)cGc>cAc	p.R211H		NM_005303.2	NP_005294.1	O14842	FFAR1_HUMAN	free fatty acid receptor 1	211			R -> H (in dbSNP:rs2301151). {ECO:0000269|PubMed:15489334}.		energy reserve metabolic process (GO:0006112)|G-protein coupled receptor signaling pathway (GO:0007186)|glucose homeostasis (GO:0042593)|insulin secretion (GO:0030073)|positive regulation of GTPase activity (GO:0043547)|regulation of insulin secretion (GO:0050796)|small molecule metabolic process (GO:0044281)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|guanyl-nucleotide exchange factor activity (GO:0005085)|lipid binding (GO:0008289)			central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(1)|lung(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	10	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;4.58e-20)|OV - Ovarian serous cystadenocarcinoma(14;6.67e-19)|all cancers(14;2.01e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)		Icosapent(DB00159)	GCACTGGCCCGCTCCGGCCTG	0.697													A|||	4405	0.879593	0.9902	0.8746	5008	,	,		14480	0.8056		0.7714	False		,,,				2504	0.9213															0			GRCh37	CM057586	FFAR1	M	rs2301151	A	HIS/ARG	4166,218		1978,210,4	15	15	15		632	-4.6	0.4	19	dbSNP_100	15	6689,1893		2621,1447,223	yes	missense	FFAR1	NM_005303.2	29	4599,1657,227	AA,AG,GG		22.0578,4.9726,16.281	benign	211/301	35843086	10855,2111	2192	4291	6483	SO:0001583	missense	2864			AF024687	CCDS12458.1	19q13.1	2012-08-08	2006-02-15	2006-02-15	ENSG00000126266	ENSG00000126266		"GPCR / Class A : Fatty acid receptors"	4498	protein-coding gene	gene with protein product		603820	"G protein-coupled receptor 40"	GPR40		15684720	Standard	NM_005303		Approved	FFA1R	uc002nzc.2	O14842		ENST00000246553.2:c.632G>A	19.37:g.35843086G>A	ENSP00000246553:p.Arg211His	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAS2|Q4VBL4	Missense_Mutation	SNP	ENST00000246553.2	37	CCDS12458.1	1787	0.8182234432234432	481	0.9776422764227642	301	0.8314917127071824	436	0.7622377622377622	569	0.7506596306068601	A	3.093	-0.186384	0.06340	0.950274	0.779422	ENSG00000126266	ENST00000246553	T	0.43688	0.94	4.1	-4.61	0.03380	GPCR, rhodopsin-like superfamily (1);	0.710890	0.12507	N	0.462804	T	0.00012	0.0000	N	0.12746	0.255	0.80722	P	0.0	B	0.06786	0.001	B	0.04013	0.001	T	0.19614	-1.0300	9	0.39692	T	0.17	-1.514	9.798	0.40746	0.2797:0.0:0.6033:0.117	rs2301151;rs17705375;rs2301151	211	O14842	FFAR1_HUMAN	H	211	ENSP00000246553:R211H	ENSP00000246553:R211H	R	+	2	0	FFAR1	40534926	0.004000	0.15560	0.443000	0.26883	0.215000	0.24574	0.285000	0.18883	-1.498000	0.01824	-1.327000	0.01280	CGC		0.697	FFAR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466112.2	NM_005303		A	35843086	G	A	35843086	3	1	679	1	0	0	0	0	1	0	0	0	5834	1087	38	1	634	1	FFAR1	19	35843086	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	13479638	35843086	23285897	131	43951										
RYR1	6261	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	38946146	38946146	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ctcttctccacaaacttggaCtggctggtcagcaagctgga	10	12	3	0			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:38946146C>G	ENST00000359596.3	+	15	1632	c.1632C>G	c.(1630-1632)gaC>gaG	p.D544E	RYR1_ENST00000360985.3_Missense_Mutation_p.D544E|RYR1_ENST00000355481.4_Missense_Mutation_p.D544E			P21817	RYR1_HUMAN	ryanodine receptor 1 (skeletal)	544			D -> Y (in MHS1). {ECO:0000269|PubMed:19191329}.		calcium ion transport (GO:0006816)|cellular response to caffeine (GO:0071313)|cytosolic calcium ion homeostasis (GO:0051480)|ion transmembrane transport (GO:0034220)|muscle contraction (GO:0006936)|ossification involved in bone maturation (GO:0043931)|outflow tract morphogenesis (GO:0003151)|release of sequestered calcium ion into cytosol (GO:0051209)|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0014808)|response to caffeine (GO:0031000)|response to hypoxia (GO:0001666)|skeletal muscle fiber development (GO:0048741)|skin development (GO:0043588)|transmembrane transport (GO:0055085)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|I band (GO:0031674)|integral component of plasma membrane (GO:0005887)|junctional membrane complex (GO:0030314)|junctional sarcoplasmic reticulum membrane (GO:0014701)|plasma membrane (GO:0005886)|sarcoplasmic reticulum (GO:0016529)|sarcoplasmic reticulum membrane (GO:0033017)|smooth endoplasmic reticulum (GO:0005790)|T-tubule (GO:0030315)|terminal cisterna (GO:0014802)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)|calcium-release channel activity (GO:0015278)|calmodulin binding (GO:0005516)|ryanodine-sensitive calcium-release channel activity (GO:0005219)|voltage-gated calcium channel activity (GO:0005245)			NS(4)|autonomic_ganglia(2)|breast(3)|central_nervous_system(5)|endometrium(26)|haematopoietic_and_lymphoid_tissue(3)|kidney(34)|large_intestine(42)|liver(1)|lung(106)|ovary(11)|pancreas(5)|prostate(9)|skin(12)|stomach(11)|upper_aerodigestive_tract(4)|urinary_tract(7)	285	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Caffeine(DB00201)|Dantrolene(DB01219)|Suramin(DB04786)	CAAACTTGGACTGGCTGGTCA	0.597																																																0													89	81	84					19																	38946146		2203	4300	6503	SO:0001583	missense	6261			J05200	CCDS33011.1, CCDS42563.1	19q13.1	2014-09-17				ENSG00000196218		"Ion channels / Ryanodine receptors"	10483	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 137"	180901	"central core disease of muscle"	MHS, MHS1, CCO		1862346, 16621918	Standard	NM_000540		Approved	RYR, PPP1R137	uc002oit.3	P21817		ENST00000359596.3:c.1632C>G	19.37:g.38946146C>G	ENSP00000352608:p.Asp544Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q16314|Q16368|Q9NPK1|Q9P1U4	Missense_Mutation	SNP	ENST00000359596.3	37	CCDS33011.1	.	.	.	.	.	.	.	.	.	.	C	14.16	2.452398	0.43531	.	.	ENSG00000196218	ENST00000359596;ENST00000355481;ENST00000360985	D;D;D	0.89270	-2.49;-2.49;-2.49	4.01	0.592	0.17471	Intracellular calcium-release channel (1);	0.000000	0.64402	U	0.000001	D	0.93347	0.7879	M	0.86573	2.825	0.36063	D	0.841576	D;D	0.89917	1.0;1.0	D;D	0.97110	0.996;1.0	D	0.92377	0.5910	10	0.87932	D	0	.	7.3077	0.26457	0.0:0.3696:0.0:0.6304	.	544;544	P21817-2;P21817	.;RYR1_HUMAN	E	544	ENSP00000352608:D544E;ENSP00000347667:D544E;ENSP00000354254:D544E	ENSP00000347667:D544E	D	+	3	2	RYR1	43637986	0.980000	0.34600	0.999000	0.59377	0.992000	0.81027	0.231000	0.17872	0.006000	0.14734	0.407000	0.27541	GAC		0.597	RYR1-010	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000462137.1			G	38946146	C	G	38946146	3	3	679	1	0	0	0	0	1	0	0	0	13781	564	20	4	1690	4	RYR1	19	38946146	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	3103060	38946146	20182837	132	43952										
NFKBIB	4793	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	39398202	39398202	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gcccaaccccatcctcgcccGcctcctccgtgcacacggag	8	22	0	0	rs557957478		TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:39398202G>A	ENST00000313582.5	+	5	906	c.872G>A	c.(871-873)cGc>cAc	p.R291H	NFKBIB_ENST00000392079.3_Missense_Mutation_p.R259H|NFKBIB_ENST00000572515.1_Missense_Mutation_p.R291H	NM_002503.4	NP_002494.2	Q15653	IKBB_HUMAN	nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor, beta	291					innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of type I interferon production (GO:0032481)|signal transduction (GO:0007165)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transcription, DNA-templated (GO:0006351)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytosol (GO:0005829)|nucleus (GO:0005634)	signal transducer activity (GO:0004871)|transcription coactivator activity (GO:0003713)			endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|ovary(1)	8	all_cancers(60;4.39e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			ATCCTCGCCCGCCTCCTCCGT	0.706													G|||	1	0.000199681	0.0	0.0	5008	,	,		15579	0.0		0.001	False		,,,				2504	0.0				Pancreas(165;1492 2005 6979 7739 34483)											0													20	21	21					19																	39398202		2191	4278	6469	SO:0001583	missense	4793			L40407	CCDS12524.1, CCDS74362.1	19q13.1	2013-01-10				ENSG00000104825		"Ankyrin repeat domain containing"	7798	protein-coding gene	gene with protein product		604495				9763672	Standard	NM_002503		Approved	IKBB, TRIP9	uc002ojw.3	Q15653		ENST00000313582.5:c.872G>A	19.37:g.39398202G>A	ENSP00000312988:p.Arg291His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3F4|Q96BJ7	Missense_Mutation	SNP	ENST00000313582.5	37	CCDS12524.1	.	.	.	.	.	.	.	.	.	.	G	13.89	2.371349	0.42003	.	.	ENSG00000104825	ENST00000509705;ENST00000313582;ENST00000392079	T;T	0.65549	-0.16;-0.16	4.9	3.87	0.44632	Ankyrin repeat-containing domain (4);	0.255015	0.28296	N	0.015872	T	0.55986	0.1955	L	0.61387	1.9	0.31726	N	0.637663	B;B;B	0.13145	0.004;0.007;0.004	B;B;B	0.12837	0.005;0.008;0.005	T	0.62445	-0.6853	10	0.87932	D	0	-12.6474	7.3513	0.26693	0.1908:0.0:0.8092:0.0	.	314;259;291	Q59EM7;G5E9C2;Q15653	.;.;IKBB_HUMAN	H	314;291;259	ENSP00000312988:R291H;ENSP00000375929:R259H	ENSP00000312988:R291H	R	+	2	0	NFKBIB	44090042	0.454000	0.25728	0.998000	0.56505	0.846000	0.48090	0.616000	0.24344	1.299000	0.44798	-0.229000	0.12294	CGC		0.706	NFKBIB-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438155.1	NM_002503		A	39398202	G	A	39398202	3	1	679	1	0	0	0	0	1	0	0	0	10385	1087	38	1	890	1	NFKBIB	19	39398202	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	452056	39398202	19730781	133	43953										
ZNF45	7596	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	44418134	44418134	+	Nonsense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tacagtgtacattaagatctGagctccgactgaagcccttc	8	11	1	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:44418134G>C	ENST00000269973.5	-	10	2544	c.1454C>G	c.(1453-1455)tCa>tGa	p.S485*	RP11-15A1.2_ENST00000586247.1_RNA|ZNF45_ENST00000589703.1_Nonsense_Mutation_p.S485*	NM_003425.3	NP_003416.1	Q02386	ZNF45_HUMAN	zinc finger protein 45	485					gene expression (GO:0010467)|multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|transcription initiation from RNA polymerase II promoter (GO:0006367)	nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.S485*(1)		breast(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(4)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)	17						ATTAAGATCTGAGCTCCGACT	0.502																																																1	Substitution - Nonsense(1)	lung(1)											60	60	60					19																	44418134		2203	4300	6503	SO:0001587	stop_gained	7596			M67509	CCDS12632.1	19q13.2	2013-01-08	2005-01-11			ENSG00000124459		"Zinc fingers, C2H2-type", "-"	13111	protein-coding gene	gene with protein product		194554	"zinc finger protein 45 (a Kruppel-associated box (KRAB) domain polypeptide)", "zinc finger protein 13"	ZNF13		9067431	Standard	NM_003425		Approved		uc002oxw.2	Q02386		ENST00000269973.5:c.1454C>G	19.37:g.44418134G>C	ENSP00000269973:p.Ser485*	Somatic		WXS	Illumina HiSeq	Phase_I	P17016|P78472|Q9P1U9	Nonsense_Mutation	SNP	ENST00000269973.5	37	CCDS12632.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	46|46	12.410211|12.410211	0.99665|0.99665	.|.	.|.	ENSG00000124459|ENSG00000124459	ENST00000328762|ENST00000269973	.|.	.|.	.|.	3.62|3.62	3.62|3.62	0.41486|0.41486	.|.	.|0.000000	.|0.30704	.|N	.|0.009053	T|.	0.65595|.	0.2706|.	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	T|.	0.68834|.	-0.5304|.	5|.	0.72032|0.62326	D|D	0.01|0.03	-6.1441|-6.1441	10.5424|10.5424	0.45041|0.45041	0.0:0.0:0.8058:0.1942|0.0:0.0:0.8058:0.1942	.|.	.|.	.|.	.|.	E|X	485|485	.|.	ENSP00000367176:Q485E|ENSP00000269973:S485X	Q|S	-|-	1|2	0|0	ZNF45|ZNF45	49109974|49109974	0.001000|0.001000	0.12720|0.12720	1.000000|1.000000	0.80357|0.80357	0.991000|0.991000	0.79684|0.79684	0.889000|0.889000	0.28282|0.28282	2.030000|2.030000	0.59900|0.59900	0.462000|0.462000	0.41574|0.41574	CAG|TCA		0.502	ZNF45-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459919.1	NM_003425		C	44418134	G	C	44418134	4	2	679	1	0	0	0	0	0	1	0	0	17933	1294	45	4	598	4	ZNF45	19	44418134	Nonsense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	5019932	44418134	14710849	134	43954										
RTN2	6253	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr19	45991752	45991752	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gtgctgccggtacagcagggGgatggtgaatagaccaatca	15	8	1	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:45991752G>T	ENST00000245923.4	-	9	1709	c.1474C>A	c.(1474-1476)Ccc>Acc	p.P492T	PPM1N_ENST00000401705.1_5'Flank|RTN2_ENST00000344680.4_Missense_Mutation_p.P419T|RTN2_ENST00000590526.1_Missense_Mutation_p.P218T|RTN2_ENST00000430715.2_Missense_Mutation_p.P152T	NM_005619.4	NP_005610.1	O75298	RTN2_HUMAN	reticulon 2	492	Reticulon. {ECO:0000255|PROSITE- ProRule:PRU00170}.				cell death (GO:0008219)|intracellular protein transmembrane transport (GO:0065002)|regulation of glucose import (GO:0046324)	endoplasmic reticulum (GO:0005783)|integral component of endoplasmic reticulum membrane (GO:0030176)|T-tubule (GO:0030315)|terminal cisterna (GO:0014802)				cervix(1)|endometrium(2)|kidney(3)|large_intestine(2)|lung(6)|ovary(4)|skin(1)|urinary_tract(1)	20		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00829)|Epithelial(262;0.184)|GBM - Glioblastoma multiforme(486;0.246)		TACAGCAGGGGGATGGTGAAT	0.587																																																0													106	100	102					19																	45991752		2203	4300	6503	SO:0001583	missense	6253			AF038540	CCDS12665.1, CCDS12666.1, CCDS46114.1	19q13.2-q13.3	2012-03-30				ENSG00000125744			10468	protein-coding gene	gene with protein product	"NSP-like protein 1", "Neuroendocrine-specific protein-like 1"	603183	"spastic paraplegia 12 (autosomal dominant)"	SPG12		8812484, 9530622, 22232211	Standard	NM_005619		Approved	NSP2, NSPL1	uc002pcb.4	O75298		ENST00000245923.4:c.1474C>A	19.37:g.45991752G>T	ENSP00000245923:p.Pro492Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O60509|Q7RTM6|Q7RTN1|Q7RTN2	Missense_Mutation	SNP	ENST00000245923.4	37	CCDS12665.1	.	.	.	.	.	.	.	.	.	.	G	22.9	4.343709	0.82022	.	.	ENSG00000125744	ENST00000344680;ENST00000245923;ENST00000430715	T;T;T	0.77489	-1.1;-1.1;-1.1	5.58	5.58	0.84498	.	0.109289	0.64402	D	0.000005	D	0.88969	0.6582	M	0.86268	2.805	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.999;1.0	D	0.90290	0.4322	10	0.87932	D	0	-14.6183	15.1396	0.72601	0.0:0.0:1.0:0.0	.	419;492	O75298-2;O75298	.;RTN2_HUMAN	T	419;492;152	ENSP00000345127:P419T;ENSP00000245923:P492T;ENSP00000398178:P152T	ENSP00000245923:P492T	P	-	1	0	RTN2	50683592	1.000000	0.71417	0.909000	0.35828	0.883000	0.51084	7.344000	0.79328	2.649000	0.89929	0.650000	0.86243	CCC		0.587	RTN2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000459574.1	NM_005619		T	45991752	G	T	45991752	3	4	679	1	0	0	0	0	1	0	0	0	13739	1232	43	4	175	4	RTN2	19	45991752	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	1573618	45991752	13137231	135	43955										
PLEKHA4	57664	broad.mit.edu	37	chr19	49340604	49340605	+	Frame_Shift_Ins	INS	-	-	G													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tgccccctcgtcttgtggcaINSggaccggaggggcgatcccg							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:49340604_49340605insG	ENST00000263265.6	-	20	2836_2837	c.2281_2282insC	c.(2281-2283)ctgfs	p.L761fs	HSD17B14_ENST00000599157.1_5'Flank|HSD17B14_ENST00000263278.4_5'Flank|PLEKHA4_ENST00000355496.5_3'UTR	NM_020904.2	NP_065955.2	Q9H4M7	PKHA4_HUMAN	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 4	761						cytoplasm (GO:0005737)|membrane (GO:0016020)	1-phosphatidylinositol binding (GO:0005545)			NS(1)|breast(5)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(5)|ovary(1)|prostate(3)|skin(2)|urinary_tract(2)	30		all_lung(116;4.89e-05)|Lung NSC(112;8.3e-05)|all_epithelial(76;0.000108)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.00027)|all cancers(93;0.00084)|GBM - Glioblastoma multiforme(486;0.0244)|Epithelial(262;0.0364)		GTCTTGTGGCAGGACCGGAGGG	0.663																																																0																																										SO:0001589	frameshift_variant	57664			AY007233	CCDS12737.1, CCDS54291.1	19q13.33	2013-01-10	2002-01-14			ENSG00000105559		"Pleckstrin homology (PH) domain containing"	14339	protein-coding gene	gene with protein product		607769	"pleckstrin homology domain-containing, family A (phosphoinositide binding specific) member 4"			11001876	Standard	NM_020904		Approved	PEPP1	uc002pkx.3	Q9H4M7		ENST00000263265.6:c.2282dupC	19.37:g.49340606_49340606dupG	ENSP00000263265:p.Leu761fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N4M8|Q8N658	Frame_Shift_Ins	INS	ENST00000263265.6	37	CCDS12737.1																																																																																				0.663	PLEKHA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466216.1			G	49340605	-	G	49340604	7	5	679	1	0	1	1	0	0	0	0	0	12065	188	7	0	61	0	PLEKHA4	19	49340604	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	3348852	49340604	9788379	136	43956										
LILRA6	79168	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	54744177	54744177	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	catgagttccaggggctcacTggggaaagacagcaggtggg	17	8	1	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr19:54744177T>A	ENST00000396365.2	-	6	1270	c.1231A>T	c.(1231-1233)Agt>Tgt	p.S411C	LILRA6_ENST00000270464.5_Intron|LILRB3_ENST00000407860.2_Intron|LILRA6_ENST00000440558.2_Intron|LILRA6_ENST00000391735.3_3'UTR|LILRA6_ENST00000245621.5_Missense_Mutation_p.S411C|LILRA6_ENST00000419410.2_Missense_Mutation_p.S411C	NM_024318.2	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 6	411					immune system process (GO:0002376)	integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(4)|lung(20)|ovary(3)|skin(2)|urinary_tract(2)	38	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)		AGGGGCTCACTGGGGAAAGAC	0.637																																																0													90	128	115					19																	54744177		2197	4300	6497	SO:0001583	missense	79168			AF041262	CCDS42610.1	19q13.4	2013-01-11	2005-05-17	2005-05-17	ENSG00000244482	ENSG00000244482		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	15495	protein-coding gene	gene with protein product			"leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 6"	LILRB6		10941842	Standard	NM_024318		Approved	ILT8, CD85b		Q6PI73	OTTHUMG00000066635	ENST00000396365.2:c.1231A>T	19.37:g.54744177T>A	ENSP00000379651:p.Ser411Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000396365.2	37	CCDS42610.1	.	.	.	.	.	.	.	.	.	.	T	15.36	2.811295	0.50527	.	.	ENSG00000244482	ENST00000419410;ENST00000421123;ENST00000396365;ENST00000245621	T;T;T	0.01527	4.8;4.8;4.8	2.71	2.71	0.32032	Immunoglobulin subtype (1);Immunoglobulin-like fold (1);	0.000000	0.42964	D	0.000622	T	0.13500	0.0327	H	0.95850	3.73	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;0.996;1.0	T	0.00239	-1.1888	10	0.87932	D	0	.	7.1498	0.25604	0.0:0.0:0.0:1.0	.	411;411;411	C9JFH3;Q6PI73;D3YTC4	.;LIRA6_HUMAN;.	C	411	ENSP00000411227:S411C;ENSP00000379651:S411C;ENSP00000245621:S411C	ENSP00000245621:S411C	S	-	1	0	LILRA6	59435989	0.876000	0.30132	0.840000	0.33206	0.013000	0.08279	0.730000	0.26043	1.263000	0.44181	0.164000	0.16699	AGT		0.637	LILRA6-003	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000313725.1	NM_024318		A	54744177	T	A	54744177	3	1	679	1	0	0	0	0	1	0	0	0	8796	1580	55	5	226	5	LILRA6	19	54744177	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10	5403573	54744177	4384806	137	43957										
CPXM1	56265	broad.mit.edu;mdanderson.org	37	chr20	2777897	2777897	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gcgcgcctccctggagccagGtctggggcagcaggcgaatg	17	13	1	0			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr20:2777897G>A	ENST00000380605.2	-	6	837	c.773C>T	c.(772-774)aCc>aTc	p.T258I		NM_001184699.1|NM_019609.4	NP_001171628.1|NP_062555.1	Q96SM3	CPXM1_HUMAN	carboxypeptidase X (M14 family), member 1	258	F5/8 type C. {ECO:0000255|PROSITE- ProRule:PRU00081}.				cell adhesion (GO:0007155)	extracellular space (GO:0005615)	metallocarboxypeptidase activity (GO:0004181)|zinc ion binding (GO:0008270)			endometrium(5)|kidney(5)|large_intestine(8)|lung(17)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	43						CTGGAGCCAGGTCTGGGGCAG	0.657																																																0													23	27	26					20																	2777897		2198	4291	6489	SO:0001583	missense	56265			AL035460	CCDS13033.1	20p13	2012-02-10	2006-08-24	2006-08-24	ENSG00000088882	ENSG00000088882			15771	protein-coding gene	gene with protein product	"carboxypeptidase-like protein X1"	609555	"carboxypeptidase X (M14 family)"	CPXM		14702039	Standard	NM_019609		Approved	CPX-1, CPX1	uc002wgu.3	Q96SM3	OTTHUMG00000031706	ENST00000380605.2:c.773C>T	20.37:g.2777897G>A	ENSP00000369979:p.Thr258Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P4G8|Q6UW65|Q9NUB5	Missense_Mutation	SNP	ENST00000380605.2	37	CCDS13033.1	.	.	.	.	.	.	.	.	.	.	G	18.82	3.704555	0.68615	.	.	ENSG00000088882	ENST00000380605	D	0.99032	-5.35	4.66	3.7	0.42460	Coagulation factor 5/8 C-terminal type domain (3);Galactose-binding domain-like (1);	0.115906	0.56097	D	0.000022	D	0.99029	0.9668	M	0.79475	2.455	0.36416	D	0.864022	D;D	0.64830	0.994;0.971	D;P	0.69142	0.962;0.812	D	0.99953	1.1577	10	0.87932	D	0	-13.0559	11.9346	0.52866	0.0:0.0:0.8251:0.1749	.	258;258	Q8N2E1;Q96SM3	.;CPXM1_HUMAN	I	258	ENSP00000369979:T258I	ENSP00000369979:T258I	T	-	2	0	CPXM1	2725897	1.000000	0.71417	1.000000	0.80357	0.955000	0.61496	1.649000	0.37281	1.174000	0.42811	0.561000	0.74099	ACC		0.657	CPXM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077643.2	NM_019609		A	2777897	G	A	2777897	3	1	679	1	0	0	0	0	1	0	0	0	3839	1261	44	2	1467	2	CPXM1	20	2777897	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10		2777897	60247623	138	43958										
BTBD3	22903	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr20	11903397	11903397	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cctgtgttaatttcctggagAccagcctgagtgccaagaat	10	10	0	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr20:11903397A>G	ENST00000405977.1	+	5	1277	c.652A>G	c.(652-654)Acc>Gcc	p.T218A	BTBD3_ENST00000488503.1_3'UTR|BTBD3_ENST00000378226.2_Missense_Mutation_p.T218A|BTBD3_ENST00000399006.2_Missense_Mutation_p.T157A|BTBD3_ENST00000254977.3_Missense_Mutation_p.T157A	NM_001282550.1|NM_001282552.1|NM_001282554.1	NP_001269479.1|NP_001269481.1|NP_001269483.1	Q9Y2F9	BTBD3_HUMAN	BTB (POZ) domain containing 3	218					cerebral cortex development (GO:0021987)|dendrite morphogenesis (GO:0048813)	cytosol (GO:0005829)|nucleus (GO:0005634)				breast(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(2)|lung(18)|ovary(3)|skin(2)	34						TTTCCTGGAGACCAGCCTGAG	0.542																																																0													105	104	104					20																	11903397		2203	4300	6503	SO:0001583	missense	22903			AB023169	CCDS13113.1, CCDS13114.1	20p12.2	2013-01-08			ENSG00000132640	ENSG00000132640		"BTB/POZ domain containing"	15854	protein-coding gene	gene with protein product		615566					Standard	NM_001282551		Approved	KIAA0952, dJ742J24.1	uc002wnz.3	Q9Y2F9	OTTHUMG00000031889	ENST00000405977.1:c.652A>G	20.37:g.11903397A>G	ENSP00000384545:p.Thr218Ala	Somatic		WXS	Illumina HiSeq	Phase_I	D3DW19|Q5JY73	Missense_Mutation	SNP	ENST00000405977.1	37	CCDS13113.1	.	.	.	.	.	.	.	.	.	.	A	18.36	3.607351	0.66558	.	.	ENSG00000132640	ENST00000254977;ENST00000399006;ENST00000405977;ENST00000378226;ENST00000455911	T;T;T;T;T	0.21191	2.02;2.02;2.02;2.02;2.02	5.95	5.95	0.96441	BTB/POZ-like (1);BTB/POZ (1);BTB/POZ fold (2);	0.000000	0.85682	D	0.000000	T	0.26231	0.0640	L	0.52823	1.66	0.80722	D	1	P	0.42827	0.791	B	0.43478	0.421	T	0.01757	-1.1280	10	0.24483	T	0.36	.	15.6134	0.76744	1.0:0.0:0.0:0.0	.	218	Q9Y2F9	BTBD3_HUMAN	A	157;157;218;218;107	ENSP00000254977:T157A;ENSP00000381971:T157A;ENSP00000384545:T218A;ENSP00000367471:T218A;ENSP00000408817:T107A	ENSP00000254977:T157A	T	+	1	0	BTBD3	11851397	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.339000	0.96797	2.281000	0.76405	0.528000	0.53228	ACC		0.542	BTBD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078021.3			G	11903397	A	G	11903397	3	3	679	1	0	0	0	0	1	0	0	0	1546	275	10	3	666	3	BTBD3	20	11903397	Missense_Mutation	SNP	A	TCGA-KO-8408-01A-11D-2310-10	9125500	11903397	51122123	139	43959										
RBBP9	10741	broad.mit.edu	37	chr20	18477730	18477731	+	Frame_Shift_Ins	INS	-	-	C													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	accttctccagctcctttttINScacccagccataccagccgt							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr20:18477730_18477731insC	ENST00000337227.4	-	1	156_157	c.81_82insG	c.(79-84)gtgaaafs	p.K28fs	RBBP9_ENST00000493184.1_5'UTR	NM_006606.2	NP_006597.2	O75884	RBBP9_HUMAN	retinoblastoma binding protein 9	28					regulation of cell proliferation (GO:0042127)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleolus (GO:0005730)|nucleus (GO:0005634)	hydrolase activity (GO:0016787)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|prostate(1)	9						AGCTCCTTTTTCACCCAGCCAT	0.609																																																0																																										SO:0001589	frameshift_variant	10741			AF039564	CCDS13136.1	20p11.2	2008-08-01	2001-11-28		ENSG00000089050	ENSG00000089050			9892	protein-coding gene	gene with protein product		602908	"retinoblastoma-binding protein 9"			9697699, 10449909	Standard	NM_006606		Approved	Bog	uc002wqy.3	O75884	OTTHUMG00000031972	ENST00000337227.4:c.82dupG	20.37:g.18477731_18477731dupC	ENSP00000336866:p.Lys28fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DW31|Q5JPH9|Q9H1D8	Frame_Shift_Ins	INS	ENST00000337227.4	37	CCDS13136.1																																																																																				0.609	RBBP9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078175.1	NM_006606		C	18477731	-	C	18477730	7	5	679	1	0	1	1	0	0	0	0	0	13119	1792	62	0	498	0	RBBP9	20	18477730	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	6574333	18477730	44547790	140	43960										
MYLK2	85366	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr20	30408125	30408125	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	aaaggagagggtgacaggggCggggggcccgcggagggcag	24	7	0	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr20:30408125C>T	ENST00000375994.2	+	2	522	c.249C>T	c.(247-249)ggC>ggT	p.G83G	MYLK2_ENST00000375985.4_Silent_p.G83G			Q9H1R3	MYLK2_HUMAN	myosin light chain kinase 2	83					cardiac muscle contraction (GO:0060048)|cardiac muscle tissue morphogenesis (GO:0055008)|neuromuscular synaptic transmission (GO:0007274)|peptidyl-threonine phosphorylation (GO:0018107)|positive regulation of gene expression (GO:0010628)|protein autophosphorylation (GO:0046777)|regulation of muscle filament sliding (GO:0032971)|skeletal muscle cell differentiation (GO:0035914)|skeletal muscle satellite cell differentiation (GO:0014816)|striated muscle contraction (GO:0006941)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|sarcomere (GO:0030017)	ATP binding (GO:0005524)|calmodulin binding (GO:0005516)|calmodulin-dependent protein kinase activity (GO:0004683)|myosin light chain kinase activity (GO:0004687)			NS(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(17)|ovary(1)|pancreas(1)|prostate(1)|skin(2)	33			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			GTGACAGGGGCGGGGGGCCCG	0.662																																																0													21	25	23					20																	30408125		2191	4271	6462	SO:0001819	synonymous_variant	85366			AF325549	CCDS13191.1	20q13.31	2014-09-17	2008-01-23		ENSG00000101306	ENSG00000101306	2.7.11.18		16243	protein-coding gene	gene with protein product	"skeletal muscle myosin light chain kinase"	606566	"myosin light chain kinase 2, skeletal muscle"				Standard	NM_033118		Approved	skMLCK, KMLC, MLCK2	uc002wwq.2	Q9H1R3	OTTHUMG00000032194	ENST00000375994.2:c.249C>T	20.37:g.30408125C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q569L1|Q96I84	Silent	SNP	ENST00000375994.2	37	CCDS13191.1																																																																																				0.662	MYLK2-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078583.2	NM_033118		T	30408125	C	T	30408125	2	4	679	1	0	0	0	0	0	0	0	1	10064	755	27	1		1	MYLK2	20	30408125	Silent	SNP	C	TCGA-KO-8408-01A-11D-2310-10	11930395	30408125	32617395	141	43961										
C20orf185	359710	hgsc.bcm.edu;mdanderson.org	37	chr20	31657702	31657702	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ttgcccatgcaggtcatgacTgtgcgtgcccagctggctcc	12	14	1	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr20:31657702T>A	ENST00000375494.3	+	11	1158	c.1158T>A	c.(1156-1158)acT>acA	p.T386T		NM_182658.1	NP_872599.1	P59826	BPIB3_HUMAN	BPI fold containing family B, member 3	386					innate immune response (GO:0045087)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)	lipid binding (GO:0008289)										AGGTCATGACTGTGCGTGCCC	0.577																																																0													251	227	235					20																	31657702		2203	4300	6503	SO:0001819	synonymous_variant	359710			AF549189	CCDS13212.1	20q11.21	2011-08-04	2011-07-29	2011-07-29	ENSG00000186190	ENSG00000186190		"BPI fold containing"	16178	protein-coding gene	gene with protein product		615717	"chromosome 20 open reading frame 185"	C20orf185		11971875, 21787333	Standard	NM_182658		Approved	dJ726C3.4, LPLUNC3, RYA3	uc002wym.1	P59826	OTTHUMG00000032234	ENST00000375494.3:c.1158T>A	20.37:g.31657702T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TDX7	Silent	SNP	ENST00000375494.3	37	CCDS13212.1																																																																																				0.577	BPIFB3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078654.2	NM_182658		A	31657702	T	A	31657702	2	1	679	1	0	0	0	0	0	0	0	1	2099	1567	55	5		5	C20orf185	20	31657702	Silent	SNP	T	TCGA-KO-8408-01A-11D-2310-10	1249577	31657702	31367818	142	43962										
SEMG2	6407	mdanderson.org;bcgsc.ca	37	chr20	43851703	43851703	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ttcaagtacagaagaaagacGactcaactatggaggaaaga	10	6	2	4			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr20:43851703G>A	ENST00000372769.3	+	2	1520	c.1430G>A	c.(1429-1431)cGa>cAa	p.R477Q		NM_003008.2	NP_002999.1	Q02383	SEMG2_HUMAN	semenogelin II	477	4 X 60 AA tandem repeats, type I.|Repeat-rich region.				sexual reproduction (GO:0019953)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)|secretory granule (GO:0030141)	structural molecule activity (GO:0005198)			autonomic_ganglia(1)|breast(3)|endometrium(6)|kidney(2)|large_intestine(6)|lung(9)|prostate(2)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	36		Myeloproliferative disorder(115;0.0122)				GAAGAAAGACGACTCAACTAT	0.393																																																0													81	80	81					20																	43851703		2203	4300	6503	SO:0001583	missense	6407				CCDS13346.1	20q12-q13.1	2008-07-02			ENSG00000124157	ENSG00000124157			10743	protein-coding gene	gene with protein product	"Semenogelin 2"	182141				1517240, 9523691	Standard	NM_003008		Approved	SGII	uc002xnk.3	Q02383	OTTHUMG00000032566	ENST00000372769.3:c.1430G>A	20.37:g.43851703G>A	ENSP00000361855:p.Arg477Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q53ZU2|Q6X2M5|Q6X2M6	Missense_Mutation	SNP	ENST00000372769.3	37	CCDS13346.1	.	.	.	.	.	.	.	.	.	.	G	3.240	-0.155535	0.06544	.	.	ENSG00000124157	ENST00000372769	T	0.06608	3.28	1.38	-2.53	0.06326	.	.	.	.	.	T	0.03871	0.0109	L	0.31578	0.945	0.09310	N	1	B;B	0.19331	0.035;0.012	B;B	0.13407	0.009;0.009	T	0.44421	-0.9329	9	0.25106	T	0.35	.	3.6481	0.08192	0.4393:0.3019:0.2588:0.0	.	477;477	A8K6Z6;Q02383	.;SEMG2_HUMAN	Q	477	ENSP00000361855:R477Q	ENSP00000361855:R477Q	R	+	2	0	SEMG2	43285117	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.482000	0.02320	-0.770000	0.04614	-1.960000	0.00479	CGA		0.393	SEMG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079417.1	NM_003008		A	43851703	G	A	43851703	3	1	679	1	0	0	0	0	1	0	0	0	14058	1058	37	1	1436	1	SEMG2	20	43851703	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	12194001	43851703	19173817	143	43963										
PREX1	57580	broad.mit.edu	37	chr20	47307517	47307518	+	Frame_Shift_Ins	INS	-	-	C													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ccgctcgcggatgatggcatINSccagccacttctgcttctcc							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr20:47307517_47307518insC	ENST00000371941.3	-	9	1175_1176	c.1153_1154insG	c.(1153-1155)gatfs	p.D385fs	PREX1_ENST00000396220.1_Frame_Shift_Ins_p.D385fs	NM_020820.3	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	385	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				actin filament polymerization (GO:0030041)|G-protein coupled receptor signaling pathway (GO:0007186)|intracellular signal transduction (GO:0035556)|neutrophil activation (GO:0042119)|neutrophil chemotaxis (GO:0030593)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|regulation of actin filament polymerization (GO:0030833)|regulation of dendrite development (GO:0050773)|superoxide metabolic process (GO:0006801)|T cell differentiation (GO:0030217)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendritic shaft (GO:0043198)|growth cone (GO:0030426)|intracellular membrane-bounded organelle (GO:0043231)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	enzyme binding (GO:0019899)|phospholipid binding (GO:0005543)|Rho GTPase activator activity (GO:0005100)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(3)|central_nervous_system(1)|endometrium(4)|kidney(6)|large_intestine(27)|lung(53)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|stomach(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	110			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GATGATGGCATCCAGCCACTTC	0.599																																																0																																										SO:0001589	frameshift_variant	57580			AB037836	CCDS13410.1	20q13.13	2013-01-10	2008-09-15		ENSG00000124126	ENSG00000124126		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	32594	protein-coding gene	gene with protein product		606905				11955434, 15545267, 16301320	Standard	NM_020820		Approved	KIAA1415, P-REX1	uc002xtw.1	Q8TCU6	OTTHUMG00000032685	ENST00000371941.3:c.1154dupG	20.37:g.47307519_47307519dupC	ENSP00000361009:p.Asp385fs	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5X9|Q5JS95|Q5JS96|Q69YL2|Q7Z2L9|Q9BQH0|Q9BX55|Q9H4Q6|Q9P2D2|Q9UGQ4	Frame_Shift_Ins	INS	ENST00000371941.3	37	CCDS13410.1																																																																																				0.599	PREX1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079623.1	NM_020820		C	47307518	-	C	47307517	7	5	679	1	0	1	1	0	0	0	0	0	12486	1435	50	0	3953	0	PREX1	20	47307517	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	3455814	47307517	15718003	144	43964										
DIDO1	11083	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	61513562	61513562	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tggtgctgacagccgcgtctGcagagcagagtggatacttg	15	9	1	3			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr20:61513562G>C	ENST00000266070.4	-	16	4071	c.3746C>G	c.(3745-3747)gCa>gGa	p.A1249G	DIDO1_ENST00000395343.1_Missense_Mutation_p.A1249G	NM_033081.2	NP_149072.2	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1	1249					apoptotic signaling pathway (GO:0097190)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			NS(6)|breast(5)|central_nervous_system(1)|cervix(3)|endometrium(6)|kidney(1)|large_intestine(17)|lung(39)|ovary(8)|prostate(3)|skin(7)|stomach(2)|upper_aerodigestive_tract(1)	99	Breast(26;5.68e-08)					AGCCGCGTCTGCAGAGCAGAG	0.602																																					Melanoma(25;381 482 3385 5362 7955 17159 17174 40604 47095)											0													87	99	95					20																	61513562		2203	4300	6503	SO:0001583	missense	11083			AB002331	CCDS13508.2, CCDS13509.1, CCDS33506.1	20q13.33	2013-01-28	2005-11-11	2005-11-11	ENSG00000101191	ENSG00000101191		"Zinc fingers, PHD-type"	2680	protein-coding gene	gene with protein product		604140	"chromosome 20 open reading frame 158", "death associated transcription factor 1"	C20orf158, DATF1		10393935	Standard	NM_033081		Approved	DIO1, dJ885L7.8, FLJ11265, KIAA0333, DIO-1, BYE1	uc002ydr.2	Q9BTC0	OTTHUMG00000032945	ENST00000266070.4:c.3746C>G	20.37:g.61513562G>C	ENSP00000266070:p.Ala1249Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MY65|B9EH82|E1P5I1|O15043|Q3ZTL7|Q3ZTL8|Q4VXS1|Q4VXS2|Q4VXV8|Q4VXV9|Q96D72|Q9BQW0|Q9BW03|Q9H4G6|Q9H4G7|Q9NTU8|Q9NUM8|Q9UFB6	Missense_Mutation	SNP	ENST00000266070.4	37	CCDS33506.1	.	.	.	.	.	.	.	.	.	.	G	4.977	0.181425	0.09495	.	.	ENSG00000101191	ENST00000266070;ENST00000395343	T;T	0.08370	3.1;3.1	5.22	0.891	0.19224	.	1.466600	0.05113	N	0.489227	T	0.04363	0.0120	N	0.02247	-0.625	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.40961	-0.9535	10	0.11485	T	0.65	-6.2548	15.0367	0.71754	0.0788:0.7204:0.2008:0.0	.	1249	Q9BTC0	DIDO1_HUMAN	G	1249	ENSP00000266070:A1249G;ENSP00000378752:A1249G	ENSP00000266070:A1249G	A	-	2	0	DIDO1	60984007	0.030000	0.19436	0.000000	0.03702	0.001000	0.01503	0.325000	0.19628	0.117000	0.18138	-0.300000	0.09419	GCA		0.602	DIDO1-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000080091.2	NM_080796		C	61513562	G	C	61513562	3	2	679	1	0	0	0	0	1	0	0	0	4524	1319	46	4	2980	4	DIDO1	20	61513562	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	14206045	61513562	1511958	145	43965										
ZBTB46	140685	broad.mit.edu;ucsc.edu	37	chr20	62384061	62384061	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gcgtgtggcgcttcatgtgcTcgcgccgcgtgaacttcttc	13	13	2	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr20:62384061T>C	ENST00000245663.4	-	4	1526	c.1376A>G	c.(1375-1377)gAg>gGg	p.E459G	ZBTB46_ENST00000302995.2_Missense_Mutation_p.E459G|ZBTB46_ENST00000395104.1_Missense_Mutation_p.E459G	NM_025224.3	NP_079500.2	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	459					negative regulation of dendritic cell differentiation (GO:2001199)|negative regulation of granulocyte differentiation (GO:0030853)|negative regulation of macrophage differentiation (GO:0045650)|negative regulation of monocyte differentiation (GO:0045656)|positive regulation of dendritic cell differentiation (GO:2001200)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)			endometrium(2)|kidney(1)|large_intestine(9)|lung(9)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	24	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					CTTCATGTGCTCGCGCCGCGT	0.697																																																0													57	42	47					20																	62384061		2202	4297	6499	SO:0001583	missense	140685			AK131482	CCDS13538.1	20q13.33	2013-01-08	2006-09-19	2006-09-19	ENSG00000130584	ENSG00000130584		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	16094	protein-coding gene	gene with protein product	"BTB-ZF protein expressed in effector lymphocytes"	614639	"BTB (POZ) domain containing 4"	ZNF340, BTBD4			Standard	NM_025224		Approved	FLJ13502, RINZF, BZEL	uc002ygv.2	Q86UZ6	OTTHUMG00000033001	ENST00000245663.4:c.1376A>G	20.37:g.62384061T>C	ENSP00000245663:p.Glu459Gly	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5K9|Q5JWJ3|Q6GMV4|Q9BQK3|Q9H3Z8|Q9H3Z9	Missense_Mutation	SNP	ENST00000245663.4	37	CCDS13538.1	.	.	.	.	.	.	.	.	.	.	T	22.7	4.319880	0.81469	.	.	ENSG00000130584	ENST00000245663;ENST00000302995;ENST00000395104	T;T;T	0.14640	2.49;2.49;2.49	4.4	4.4	0.53042	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.144833	0.44902	D	0.000419	T	0.13841	0.0335	N	0.13327	0.33	0.58432	D	0.999998	D	0.56287	0.975	P	0.55161	0.77	T	0.17471	-1.0368	10	0.15952	T	0.53	.	12.838	0.57784	0.0:0.0:0.0:1.0	.	459	Q86UZ6	ZBT46_HUMAN	G	459	ENSP00000245663:E459G;ENSP00000303102:E459G;ENSP00000378536:E459G	ENSP00000245663:E459G	E	-	2	0	ZBTB46	61854505	1.000000	0.71417	0.998000	0.56505	0.965000	0.64279	7.826000	0.86716	1.624000	0.50355	0.528000	0.53228	GAG		0.697	ZBTB46-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080232.2	NM_025224		C	62384061	T	C	62384061	3	2	679	1	0	0	0	0	1	0	0	0	17559	1551	54	3	401	3	ZBTB46	20	62384061	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10	870499	62384061	641459	146	43966										
HIRA	7290	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	19363305	19363305	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	caatgcagcaggagtagaggTagcattcatactggggtgaa	14	6	1	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr22:19363305T>C	ENST00000263208.5	-	15	1880	c.1624A>G	c.(1624-1626)Acc>Gcc	p.T542A	HIRA_ENST00000546308.1_Missense_Mutation_p.T498A|HIRA_ENST00000541063.1_Missense_Mutation_p.T498A|HIRA_ENST00000340170.4_Missense_Mutation_p.T542A	NM_003325.3	NP_003316.3	P54198	HIRA_HUMAN	histone cell cycle regulator	542	Interaction with CCNA1.				anatomical structure morphogenesis (GO:0009653)|chromatin modification (GO:0016568)|DNA replication-independent nucleosome assembly (GO:0006336)|gastrulation (GO:0007369)|muscle cell differentiation (GO:0042692)|osteoblast differentiation (GO:0001649)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|protein complex (GO:0043234)	chromatin binding (GO:0003682)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(14)|ovary(2)|prostate(1)|skin(1)	37	Colorectal(54;0.0993)					GGAGTAGAGGTAGCATTCATA	0.488																																																0													116	91	100					22																	19363305		2203	4300	6503	SO:0001583	missense	7290			X75296	CCDS13759.1	22q11.2	2013-05-03	2013-05-03		ENSG00000100084	ENSG00000100084		"WD repeat domain containing"	4916	protein-coding gene	gene with protein product	"DiGeorge critical region gene 1"	600237	"HIR (histone cell cycle regulation defective) homolog A (S. cerevisiae)", "HIR histone cell cycle regulation defective homolog A (S. cerevisiae)"	TUPLE1		8111380, 7633437, 9731536	Standard	NM_003325		Approved	DGCR1, TUP1	uc002zpf.1	P54198	OTTHUMG00000150134	ENST00000263208.5:c.1624A>G	22.37:g.19363305T>C	ENSP00000263208:p.Thr542Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q05BU9|Q8IXN2	Missense_Mutation	SNP	ENST00000263208.5	37	CCDS13759.1	.	.	.	.	.	.	.	.	.	.	T	12.90	2.076775	0.36662	.	.	ENSG00000100084	ENST00000340170;ENST00000263208;ENST00000541063;ENST00000539600;ENST00000546308	T;T;T;T	0.71579	-0.35;-0.58;-0.43;-0.39	5.02	2.79	0.32731	.	0.391386	0.27686	N	0.018280	T	0.46464	0.1394	N	0.19112	0.55	0.80722	D	1	B;B;B	0.06786	0.001;0.0;0.0	B;B;B	0.11329	0.006;0.001;0.001	T	0.15492	-1.0435	10	0.08837	T	0.75	-10.6408	4.5453	0.12078	0.1398:0.1619:0.0:0.6982	.	498;542;542	F5H4M2;P54198-2;P54198	.;.;HIRA_HUMAN	A	542;542;498;51;498	ENSP00000345350:T542A;ENSP00000263208:T542A;ENSP00000446073:T498A;ENSP00000441870:T498A	ENSP00000263208:T542A	T	-	1	0	HIRA	17743305	1.000000	0.71417	0.998000	0.56505	0.938000	0.57974	2.287000	0.43505	0.349000	0.23975	0.533000	0.62120	ACC		0.488	HIRA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316488.2	NM_003325		C	19363305	T	C	19363305	3	2	679	1	0	0	0	0	1	0	0	0	7127	1638	57	3	1473	3	HIRA	22	19363305	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10		19363305	31941261	147	43967										
YDJC	150223	mdanderson.org	37	chr22	21982892	21982892	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ctcccaagagcaagagaaagCgtcggggccttcaccgcagc	12	14	1	2	rs2298428	byFrequency	TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr22:21982892C>T	ENST00000292778.6	-	5	836	c.787G>A	c.(787-789)Gct>Act	p.A263T	YDJC_ENST00000398873.3_3'UTR	NM_001017964.1	NP_001017964.1	A8MPS7	YDJC_HUMAN	YdjC homolog (bacterial)	263			A -> T (in dbSNP:rs2298428).		carbohydrate metabolic process (GO:0005975)		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds (GO:0016810)					Colorectal(54;0.105)					CAAGAGAAAGCGTCGGGGCCT	0.701													C|||	1126	0.22484	0.0227	0.3631	5008	,	,		11576	0.4117		0.1769	False		,,,				2504	0.2566															0								C	THR/ALA	218,4160		4,210,1975	13	14	13	http://www.ncbi.nlm.nih.gov/pubmed?term	787	4.3	0.7	22	dbSNP_100	13	1582,6978		142,1298,2840	yes	missense	YDJC	NM_001017964.1	58	146,1508,4815	TT,TC,CC	http://www.ncbi.nlm.nih.gov/pubmed?term	18.4813,4.9794,13.9125	benign	263/324	21982892	1800,11138	2189	4280	6469	SO:0001583	missense	150223				CCDS33613.1	22q11.21	2008-02-26			ENSG00000161179	ENSG00000161179			27158	protein-coding gene	gene with protein product						18177738	Standard	XM_005261347		Approved		uc002zvb.2	A8MPS7	OTTHUMG00000150822	ENST00000292778.6:c.787G>A	22.37:g.21982892C>T	ENSP00000292778:p.Ala263Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q2YDT4|Q4V9R7	Missense_Mutation	SNP	ENST00000292778.6	37	CCDS33613.1	495	0.22664835164835165	20	0.04065040650406504	115	0.31767955801104975	223	0.38986013986013984	137	0.18073878627968337	C	24.5	4.541910	0.85917	0.049794	0.184813	ENSG00000161179	ENST00000292778	T	0.42131	0.98	4.32	4.32	0.51571	Polysaccharide deacetylase (1);	0.104489	0.64402	D	0.000007	T	0.00012	0.0000	L	0.54323	1.7	0.09310	P	1.0	P	0.46784	0.884	B	0.39068	0.289	T	0.47368	-0.9123	9	0.13470	T	0.59	-16.7508	14.3921	0.66986	0.0:1.0:0.0:0.0	rs2298428;rs52827392;rs56745961;rs2298428	263	A8MPS7	YDJC_HUMAN	T	263	ENSP00000292778:A263T	ENSP00000292778:A263T	A	-	1	0	YDJC	20312892	1.000000	0.71417	0.677000	0.29947	0.942000	0.58702	7.032000	0.76498	2.245000	0.73994	0.650000	0.86243	GCT		0.701	YDJC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320213.1			T	21982892	C	T	21982892	3	4	679	1	0	0	0	0	1	0	0	0	17483	768	27	1	188	1	YDJC	22	21982892	Missense_Mutation	SNP	C	TCGA-KO-8408-01A-11D-2310-10	2619587	21982892	29321674	148	43968										
RHBDD3	25807	broad.mit.edu	37	chr22	29661514	29661515	+	Frame_Shift_Ins	INS	-	-	C													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gggccaggaccaggccggggINSccggcccccaccagccacag							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr22:29661514_29661515insC	ENST00000216085.7	-	3	525_526	c.101_102insG	c.(100-102)ggcfs	p.G34fs	EWSR1_ENST00000406548.1_5'Flank|EWSR1_ENST00000397938.2_5'Flank|EWSR1_ENST00000332050.6_5'Flank|EWSR1_ENST00000333395.6_5'Flank|EWSR1_ENST00000414183.2_5'Flank|EWSR1_ENST00000331029.7_5'Flank|EWSR1_ENST00000332035.6_5'Flank	NM_012265.1	NP_036397.1	Q9Y3P4	RHBD3_HUMAN	rhomboid domain containing 3	34					liver development (GO:0001889)|MAPK cascade (GO:0000165)|negative regulation of natural killer cell activation (GO:0032815)|positive regulation of protein catabolic process (GO:0045732)|regulation of acute inflammatory response (GO:0002673)|regulation of protein secretion (GO:0050708)|response to xenobiotic stimulus (GO:0009410)	integral component of membrane (GO:0016021)	serine-type endopeptidase activity (GO:0004252)			lung(1)|ovary(1)	2						CCAGGCCGGGGCCGGCCCCCAC	0.683																																																0																																										SO:0001589	frameshift_variant	25807			AL050346	CCDS13850.1	22q12.2	2006-02-22	2006-02-22	2006-02-22	ENSG00000100263	ENSG00000100263			1308	protein-coding gene	gene with protein product			"chromosome 22 open reading frame 3"	C22orf3		10591208, 15105437	Standard	NM_012265		Approved	PTAG	uc003aeq.1	Q9Y3P4	OTTHUMG00000151032	ENST00000216085.7:c.102dupG	22.37:g.29661516_29661516dupC	ENSP00000216085:p.Gly34fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6I9X3|Q9UGQ7	Frame_Shift_Ins	INS	ENST00000216085.7	37	CCDS13850.1																																																																																				0.683	RHBDD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321085.1	NM_012265		C	29661515	-	C	29661514	7	5	679	1	0	1	1	0	0	0	0	0	13331	1190	42	0	1078	0	RHBDD3	22	29661514	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	7678622	29661514	21643052	149	43969										
CSF2RB	1439	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr22	37326788	37326788	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ggcaccactgccagattcccGtgcccgaccccgcgacccac	9	21	0	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr22:37326788G>A	ENST00000403662.3	+	8	1150	c.928G>A	c.(928-930)Gtg>Atg	p.V310M	CSF2RB_ENST00000536485.1_Missense_Mutation_p.V257M|CSF2RB_ENST00000406230.1_Missense_Mutation_p.V316M|CSF2RB_ENST00000262825.5_Missense_Mutation_p.V316M			P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta, low-affinity (granulocyte-macrophage)	310					cellular response to interleukin-3 (GO:0036016)|interleukin-3-mediated signaling pathway (GO:0038156)|interleukin-5-mediated signaling pathway (GO:0038043)|respiratory gaseous exchange (GO:0007585)|response to lipopolysaccharide (GO:0032496)|signal transduction (GO:0007165)	granulocyte macrophage colony-stimulating factor receptor complex (GO:0030526)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cytokine receptor activity (GO:0004896)|receptor activity (GO:0004872)			breast(2)|endometrium(2)|kidney(1)|large_intestine(8)|lung(18)|ovary(3)|pancreas(1)|skin(5)|upper_aerodigestive_tract(2)	42					Sargramostim(DB00020)	CCAGATTCCCGTGCCCGACCC	0.607																																																0													67	56	60					22																	37326788		2203	4300	6503	SO:0001583	missense	1439			M59941	CCDS13936.1	22q12.3	2014-09-09			ENSG00000100368	ENSG00000100368		"CD molecules", "Fibronectin type III domain containing"	2436	protein-coding gene	gene with protein product		138981		IL3RB		1833064, 1424804	Standard	NM_000395		Approved	IL5RB, CD131	uc003aqa.4	P32927	OTTHUMG00000150546	ENST00000403662.3:c.928G>A	22.37:g.37326788G>A	ENSP00000384053:p.Val310Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JZI1|Q6ICE0	Missense_Mutation	SNP	ENST00000403662.3	37	CCDS13936.1	.	.	.	.	.	.	.	.	.	.	G	20.6	4.013073	0.75161	.	.	ENSG00000100368	ENST00000403662;ENST00000539104;ENST00000262825;ENST00000406230;ENST00000536485	T;T;T;T	0.66995	-0.24;-0.24;-0.24;-0.24	5.36	5.36	0.76844	Interleukin-6 receptor alpha chain, binding (1);Fibronectin, type III (1);Immunoglobulin-like fold (1);	0.376195	0.19117	N	0.122286	T	0.81250	0.4783	M	0.76002	2.32	0.36748	D	0.88257	D;D	0.89917	1.0;1.0	D;D	0.97110	0.999;1.0	T	0.82979	-0.0188	10	0.38643	T	0.18	-28.2247	16.0129	0.80417	0.0:0.0:1.0:0.0	.	316;310	P32927-2;P32927	.;IL3RB_HUMAN	M	310;310;316;316;257	ENSP00000384053:V310M;ENSP00000262825:V316M;ENSP00000385271:V316M;ENSP00000440003:V257M	ENSP00000262825:V316M	V	+	1	0	CSF2RB	35656734	0.994000	0.37717	0.268000	0.24571	0.019000	0.09904	3.867000	0.56047	2.506000	0.84524	0.462000	0.41574	GTG		0.607	CSF2RB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318854.1	NM_000395		A	37326788	G	A	37326788	3	1	679	1	0	0	0	0	1	0	0	0	3937	1145	40	1	954	1	CSF2RB	22	37326788	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10	7665274	37326788	13977778	150	43970										
SAPS2	9701	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr22	50832465	50832465	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	gtgtaaggctcagaaccagaAgctgctggacttcctgtgca	12	10	1	2			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chr22:50832465A>T	ENST00000216061.5	+	4	498	c.128A>T	c.(127-129)aAg>aTg	p.K43M	PPP6R2_ENST00000359139.3_Missense_Mutation_p.K43M|PPP6R2_ENST00000395741.3_Missense_Mutation_p.K43M|PPP6R2_ENST00000395744.3_Missense_Mutation_p.K43M			O75170	PP6R2_HUMAN	protein phosphatase 6, regulatory subunit 2	43						cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)				NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(2)|liver(1)|lung(6)|ovary(2)|skin(1)|urinary_tract(1)	22						CAGAACCAGAAGCTGCTGGAC	0.552																																																0													162	145	150					22																	50832465		2203	4300	6503	SO:0001583	missense	9701			AB014585	CCDS33681.1, CCDS56235.1, CCDS56236.1, CCDS74881.1	22q13.33	2012-04-17	2010-06-28	2010-06-28	ENSG00000100239	ENSG00000100239		"Serine/threonine phosphatases / Protein phosphatase 6, regulatory subunits"	19253	protein-coding gene	gene with protein product		610877	"KIAA0685", "SAPS domain family, member 2"	KIAA0685, SAPS2		16769727	Standard	NM_014678		Approved	dJ579N16.1, SAP190	uc003blc.3	O75170	OTTHUMG00000150199	ENST00000216061.5:c.128A>T	22.37:g.50832465A>T	ENSP00000216061:p.Lys43Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6PVG3|B7Z7T3|Q5U5P3|Q7Z2L2|Q7Z5G5|Q7Z731|Q9UGB9	Missense_Mutation	SNP	ENST00000216061.5	37		.	.	.	.	.	.	.	.	.	.	A	19.01	3.744168	0.69418	.	.	ENSG00000100239	ENST00000359139;ENST00000395741;ENST00000395744;ENST00000216061	T;T;T;T	0.50001	0.76;0.76;0.76;0.76	5.43	3.32	0.38043	.	0.166665	0.49305	D	0.000158	T	0.64227	0.2579	M	0.79123	2.44	0.38371	D	0.944877	D;D;D;D;D	0.89917	0.999;0.998;1.0;0.999;1.0	D;P;D;D;D	0.75484	0.957;0.906;0.986;0.957;0.986	T	0.67868	-0.5559	10	0.87932	D	0	-27.622	7.1525	0.25618	0.7508:0.0:0.2492:0.0	.	43;43;43;43;43	O75170-5;O75170;O75170-3;O75170-4;O75170-2	.;PP6R2_HUMAN;.;.;.	M	43	ENSP00000352051:K43M;ENSP00000379090:K43M;ENSP00000379093:K43M;ENSP00000216061:K43M	ENSP00000216061:K43M	K	+	2	0	PPP6R2	49179331	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	2.829000	0.48128	0.898000	0.36418	0.477000	0.44152	AAG		0.552	PPP6R2-004	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000316809.1	NM_014678		T	50832465	A	T	50832465	3	4	679	1	0	0	0	0	1	0	0	0	13850	72	3	5	130	5	SAPS2	22	50832465	Missense_Mutation	SNP	A	TCGA-KO-8408-01A-11D-2310-10	13505677	50832465	472101	151	43971										
CXorf21	80231	broad.mit.edu;mdanderson.org	37	chrX	30577710	30577710	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	attcttctctctagacacttGaagactgatttggtctacac	6	10	4	4			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chrX:30577710G>C	ENST00000378962.3	-	3	1085	c.763C>G	c.(763-765)Caa>Gaa	p.Q255E		NM_025159.2	NP_079435.1	Q9HAI6	CX021_HUMAN	chromosome X open reading frame 21	255										kidney(1)|large_intestine(3)|lung(13)|ovary(1)|stomach(1)|urinary_tract(1)	20						CTAGACACTTGAAGACTGATT	0.403																																																0													99	88	92					X																	30577710		2202	4300	6502	SO:0001583	missense	80231			BC020611	CCDS14224.1	Xp21.3	2006-04-12			ENSG00000120280	ENSG00000120280			25667	protein-coding gene	gene with protein product						12477932	Standard	NM_025159		Approved	FLJ11577	uc004dcg.2	Q9HAI6	OTTHUMG00000021325	ENST00000378962.3:c.763C>G	X.37:g.30577710G>C	ENSP00000368245:p.Gln255Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000378962.3	37	CCDS14224.1	.	.	.	.	.	.	.	.	.	.	G	13.69	2.313179	0.40895	.	.	ENSG00000120280	ENST00000378962	.	.	.	5.11	4.21	0.49690	.	0.067962	0.64402	D	0.000012	T	0.52917	0.1764	M	0.74881	2.28	0.40146	D	0.976898	P	0.39480	0.675	B	0.29785	0.107	T	0.65389	-0.6180	9	0.72032	D	0.01	-7.5846	12.7882	0.57518	0.0:0.0:0.7183:0.2817	.	255	Q9HAI6	CX021_HUMAN	E	255	.	ENSP00000368245:Q255E	Q	-	1	0	CXorf21	30487631	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	5.931000	0.70113	2.351000	0.79841	0.513000	0.50165	CAA		0.403	CXorf21-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056164.1	NM_025159		C	30577710	G	C	30577710	3	2	679	1	0	0	0	0	1	0	0	0	4103	1299	45	4	146	4	CXorf21	23	30577710	Missense_Mutation	SNP	G	TCGA-KO-8408-01A-11D-2310-10		30577710	124692850	152	43972										
ATRX	546	broad.mit.edu;hgsc.bcm.edu	37	chrX	76937378	76937378	+	Frame_Shift_Del	DEL	A	A	-													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tttcagtctcttatcagaagAgttacaaccatcttctttca							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chrX:76937378delA	ENST00000373344.5	-	9	3584	c.3370delT	c.(3370-3372)tctfs	p.S1125fs	ATRX_ENST00000395603.3_Frame_Shift_Del_p.S1087fs|ATRX_ENST00000480283.1_5'UTR	NM_000489.3	NP_000480.3	P46100	ATRX_HUMAN	alpha thalassemia/mental retardation syndrome X-linked	1125					ATP catabolic process (GO:0006200)|cellular response to hydroxyurea (GO:0072711)|chromatin remodeling (GO:0006338)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA duplex unwinding (GO:0032508)|DNA methylation (GO:0006306)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|DNA replication-independent nucleosome assembly (GO:0006336)|forebrain development (GO:0030900)|negative regulation of telomeric RNA transcription from RNA pol II promoter (GO:1901581)|nucleosome assembly (GO:0006334)|positive regulation of nuclear cell cycle DNA replication (GO:0010571)|positive regulation of telomere maintenance (GO:0032206)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|replication fork processing (GO:0031297)|seminiferous tubule development (GO:0072520)|Sertoli cell development (GO:0060009)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|nuclear heterochromatin (GO:0005720)|nucleolus (GO:0005730)|nucleus (GO:0005634)|SWI/SNF superfamily-type complex (GO:0070603)|telomeric heterochromatin (GO:0031933)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|chromo shadow domain binding (GO:0070087)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)|DNA translocase activity (GO:0015616)|helicase activity (GO:0004386)|histone binding (GO:0042393)|methylated histone binding (GO:0035064)|zinc ion binding (GO:0008270)	p.?(1)		bone(1)|breast(6)|central_nervous_system(31)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(15)|kidney(14)|large_intestine(1)|liver(1)|lung(40)|ovary(2)|pancreas(13)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	145						TTATCAGAAGAGTTACAACCA	0.343			"Mis, F, N"		"Pancreatic neuroendocrine tumors, paediatric GBM"		ATR-X (alpha thalassemia/mental retardation) syndrome																																Rec	yes		X	Xq21.1	546	alpha thalassemia/mental retardation syndrome X-linked	yes	E	1	Unknown(1)	bone(1)											79	83	82					X																	76937378		2203	4291	6494	SO:0001589	frameshift_variant	546			U72937	CCDS14434.1, CCDS14435.1	Xq21.1	2014-06-17	2010-06-24		ENSG00000085224	ENSG00000085224			886	protein-coding gene	gene with protein product	"RAD54 homolog (S. cerevisiae)"	300032	"alpha thalassemia/mental retardation syndrome X-linked (RAD54 (S. cerevisiae) homolog)", "Juberg-Marsidi syndrome"	RAD54, JMS		7874112, 1415255, 8503439, 8630485	Standard	NM_000489		Approved	XH2, XNP	uc004ecp.4	P46100	OTTHUMG00000022686	ENST00000373344.5:c.3370delT	X.37:g.76937378delA	ENSP00000362441:p.Ser1125fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTE2|P51068|Q15886|Q59FB5|Q59H31|Q5H9A2|Q5JWI4|Q7Z2J1|Q9H0Z1|Q9NTS3	Frame_Shift_Del	DEL	ENST00000373344.5	37	CCDS14434.1																																																																																				0.343	ATRX-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058860.2	NM_000489		-	76937378	A	-	76937378	7	5	679	1	0	1	0	1	0	0	0	0	1208	304	11	0	4216	0	ATRX	23	76937378	Frame_Shift_Del	DEL	A	TCGA-KO-8408-01A-11D-2310-10	46359668	76937378	78333182	153	43973	454	2								
ATRX	546	bcgsc.ca	37	chrX	76937379	76937379	+	Frame_Shift_Del	DEL	A	A	-													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	ttcagtctcttatcagaagaGttacaaccatcttctttcat							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chrX:76937379delA	ENST00000373344.5	-	9	3583	c.3369delT	c.(3367-3369)aatfs	p.N1123fs	ATRX_ENST00000395603.3_Frame_Shift_Del_p.N1085fs|ATRX_ENST00000480283.1_5'UTR	NM_000489.3	NP_000480.3	P46100	ATRX_HUMAN	alpha thalassemia/mental retardation syndrome X-linked	1123					ATP catabolic process (GO:0006200)|cellular response to hydroxyurea (GO:0072711)|chromatin remodeling (GO:0006338)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA duplex unwinding (GO:0032508)|DNA methylation (GO:0006306)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|DNA replication-independent nucleosome assembly (GO:0006336)|forebrain development (GO:0030900)|negative regulation of telomeric RNA transcription from RNA pol II promoter (GO:1901581)|nucleosome assembly (GO:0006334)|positive regulation of nuclear cell cycle DNA replication (GO:0010571)|positive regulation of telomere maintenance (GO:0032206)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|replication fork processing (GO:0031297)|seminiferous tubule development (GO:0072520)|Sertoli cell development (GO:0060009)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|nuclear heterochromatin (GO:0005720)|nucleolus (GO:0005730)|nucleus (GO:0005634)|SWI/SNF superfamily-type complex (GO:0070603)|telomeric heterochromatin (GO:0031933)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|chromo shadow domain binding (GO:0070087)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)|DNA translocase activity (GO:0015616)|helicase activity (GO:0004386)|histone binding (GO:0042393)|methylated histone binding (GO:0035064)|zinc ion binding (GO:0008270)	p.?(1)		bone(1)|breast(6)|central_nervous_system(31)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(15)|kidney(14)|large_intestine(1)|liver(1)|lung(40)|ovary(2)|pancreas(13)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	145						TATCAGAAGAGTTACAACCAT	0.343			"Mis, F, N"		"Pancreatic neuroendocrine tumors, paediatric GBM"		ATR-X (alpha thalassemia/mental retardation) syndrome																																Rec	yes		X	Xq21.1	546	alpha thalassemia/mental retardation syndrome X-linked	yes	E	1	Unknown(1)	bone(1)											79	83	82					X																	76937379		2203	4292	6495	SO:0001589	frameshift_variant	546			U72937	CCDS14434.1, CCDS14435.1	Xq21.1	2014-06-17	2010-06-24		ENSG00000085224	ENSG00000085224			886	protein-coding gene	gene with protein product	"RAD54 homolog (S. cerevisiae)"	300032	"alpha thalassemia/mental retardation syndrome X-linked (RAD54 (S. cerevisiae) homolog)", "Juberg-Marsidi syndrome"	RAD54, JMS		7874112, 1415255, 8503439, 8630485	Standard	NM_000489		Approved	XH2, XNP	uc004ecp.4	P46100	OTTHUMG00000022686	ENST00000373344.5:c.3369delT	X.37:g.76937379delA	ENSP00000362441:p.Asn1123fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTE2|P51068|Q15886|Q59FB5|Q59H31|Q5H9A2|Q5JWI4|Q7Z2J1|Q9H0Z1|Q9NTS3	Frame_Shift_Del	DEL	ENST00000373344.5	37	CCDS14434.1																																																																																				0.343	ATRX-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058860.2	NM_000489		-	76937379	A	-	76937379	7	5	679	1	0	1	0	1	0	0	0	0	1208	1020	36	0	4217	0	ATRX	23	76937379	Frame_Shift_Del	DEL	A	TCGA-KO-8408-01A-11D-2310-10	1	76937379	78333181	154	43974	454	2								
ATP7A	538	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	77275864	77275864	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cacaaccctttctcaaattgTcaaacttgtggaagaggcac	7	11	2	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chrX:77275864T>C	ENST00000341514.6	+	13	2905	c.2750T>C	c.(2749-2751)gTc>gCc	p.V917A	ATP7A_ENST00000343533.5_Missense_Mutation_p.V839A|ATP7A_ENST00000350425.4_Intron	NM_000052.5	NP_000043.4	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	917					blood vessel development (GO:0001568)|blood vessel remodeling (GO:0001974)|cartilage development (GO:0051216)|catecholamine metabolic process (GO:0006584)|cellular copper ion homeostasis (GO:0006878)|central nervous system neuron development (GO:0021954)|cerebellar Purkinje cell differentiation (GO:0021702)|collagen fibril organization (GO:0030199)|copper ion export (GO:0060003)|copper ion import (GO:0015677)|copper ion transport (GO:0006825)|dendrite morphogenesis (GO:0048813)|detoxification of copper ion (GO:0010273)|dopamine metabolic process (GO:0042417)|elastic fiber assembly (GO:0048251)|elastin biosynthetic process (GO:0051542)|epinephrine metabolic process (GO:0042414)|extracellular matrix organization (GO:0030198)|hair follicle morphogenesis (GO:0031069)|in utero embryonic development (GO:0001701)|ion transmembrane transport (GO:0034220)|lactation (GO:0007595)|locomotory behavior (GO:0007626)|lung alveolus development (GO:0048286)|mitochondrion organization (GO:0007005)|negative regulation of metalloenzyme activity (GO:0048553)|negative regulation of neuron apoptotic process (GO:0043524)|neuron projection morphogenesis (GO:0048812)|norepinephrine biosynthetic process (GO:0042421)|norepinephrine metabolic process (GO:0042415)|peptidyl-lysine modification (GO:0018205)|pigmentation (GO:0043473)|positive regulation of catalytic activity (GO:0043085)|positive regulation of metalloenzyme activity (GO:0048554)|positive regulation of oxidoreductase activity (GO:0051353)|pyramidal neuron development (GO:0021860)|regulation of gene expression (GO:0010468)|regulation of oxidative phosphorylation (GO:0002082)|release of cytochrome c from mitochondria (GO:0001836)|removal of superoxide radicals (GO:0019430)|response to iron(III) ion (GO:0010041)|response to zinc ion (GO:0010043)|serotonin metabolic process (GO:0042428)|skin development (GO:0043588)|T-helper cell differentiation (GO:0042093)|transmembrane transport (GO:0055085)|tryptophan metabolic process (GO:0006568)|tyrosine metabolic process (GO:0006570)	basolateral plasma membrane (GO:0016323)|brush border membrane (GO:0031526)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|late endosome (GO:0005770)|membrane (GO:0016020)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|secretory granule (GO:0030141)|trans-Golgi network (GO:0005802)|trans-Golgi network transport vesicle (GO:0030140)	ATP binding (GO:0005524)|copper ion binding (GO:0005507)|copper ion transmembrane transporter activity (GO:0005375)|copper-dependent protein binding (GO:0032767)|copper-exporting ATPase activity (GO:0004008)|superoxide dismutase copper chaperone activity (GO:0016532)			breast(4)|central_nervous_system(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(26)|pancreas(1)|prostate(1)|urinary_tract(1)	53					Carboplatin(DB00958)|Cisplatin(DB00515)|Oxaliplatin(DB00526)	TCTCAAATTGTCAAACTTGTG	0.418																																																0													104	91	95					X																	77275864		2203	4296	6499	SO:0001583	missense	538			L06133	CCDS35339.1, CCDS75997.1	Xq21.1	2012-10-22	2008-07-31		ENSG00000165240	ENSG00000165240	3.6.3.4	"ATPases / P-type"	869	protein-coding gene	gene with protein product	"copper pump 1", "copper-transporting ATPase 1"	300011	"Menkes syndrome"	MNK		10079817	Standard	NM_000052		Approved		uc004ecx.4	Q04656	OTTHUMG00000021885	ENST00000341514.6:c.2750T>C	X.37:g.77275864T>C	ENSP00000345728:p.Val917Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B1AT72|O00227|O00745|Q9BYY8	Missense_Mutation	SNP	ENST00000341514.6	37	CCDS35339.1	.	.	.	.	.	.	.	.	.	.	T	27.9	4.868876	0.91587	.	.	ENSG00000165240	ENST00000343533;ENST00000341514	D;D	0.88509	-2.39;-2.39	5.83	5.83	0.93111	ATPase, P-type, ATPase-associated domain (1);ATPase,  P-type, cytoplasmic transduction domain A (1);	0.000000	0.85682	D	0.000000	D	0.91945	0.7449	L	0.43598	1.365	0.80722	D	1	D	0.67145	0.996	D	0.71656	0.974	D	0.92826	0.6276	10	0.87932	D	0	2.33	15.1442	0.72637	0.0:0.0:0.0:1.0	.	917	Q04656	ATP7A_HUMAN	A	839;917	ENSP00000343026:V839A;ENSP00000345728:V917A	ENSP00000345728:V917A	V	+	2	0	ATP7A	77162520	1.000000	0.71417	0.999000	0.59377	0.994000	0.84299	8.038000	0.88943	1.960000	0.56953	0.441000	0.28932	GTC		0.418	ATP7A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057306.1	NM_000052		C	77275864	T	C	77275864	3	2	679	1	0	0	0	0	1	0	0	0	1190	1667	58	3	2796	3	ATP7A	23	77275864	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10	338485	77275864	77994696	155	43975										
SYTL4	94121	broad.mit.edu	37	chrX	99942167	99942168	+	Frame_Shift_Ins	INS	-	-	A													0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	tcatacttcagggaaaaggcINSaatcctgccagtcacaaaga							TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chrX:99942167_99942168insA	ENST00000372989.1	-	13	1411_1412	c.1080_1081insT	c.(1078-1083)attgccfs	p.A361fs	SYTL4_ENST00000276141.6_Frame_Shift_Ins_p.A361fs|SYTL4_ENST00000263033.5_Frame_Shift_Ins_p.A361fs|SYTL4_ENST00000455616.1_Frame_Shift_Ins_p.A361fs|SYTL4_ENST00000372981.1_3'UTR|SYTL4_ENST00000454200.2_Frame_Shift_Ins_p.A363fs	NM_080737.2	NP_542775.2	Q96C24	SYTL4_HUMAN	synaptotagmin-like 4	361	C2 1. {ECO:0000255|PROSITE- ProRule:PRU00041}.				exocytosis (GO:0006887)|intracellular protein transport (GO:0006886)|multivesicular body sorting pathway (GO:0071985)|negative regulation of insulin secretion (GO:0046676)|positive regulation of exocytosis (GO:0045921)|positive regulation of protein secretion (GO:0050714)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|endosome (GO:0005768)|extrinsic component of membrane (GO:0019898)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|secretory granule (GO:0030141)|synaptic vesicle (GO:0008021)	neurexin family protein binding (GO:0042043)|phospholipid binding (GO:0005543)|transporter activity (GO:0005215)|zinc ion binding (GO:0008270)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(13)|ovary(2)|prostate(1)|skin(2)	27					"""Insulin(DB00071)|Insulin Regular(DB00030)"	AGGGAAAAGGCAATCCTGCCAG	0.495																																																0																																										SO:0001589	frameshift_variant	94121				CCDS14472.1	Xq21.33	2008-07-31	2008-07-31		ENSG00000102362	ENSG00000102362			15588	protein-coding gene	gene with protein product	"granuphilin-a", "exophilin-2"	300723					Standard	NM_080737		Approved		uc010nnc.3	Q96C24	OTTHUMG00000022004	ENST00000372989.1:c.1081dupT	X.37:g.99942169_99942169dupA	ENSP00000362080:p.Ala361fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5H9J3|Q5JPG8|Q8N9P4|Q9H4R0|Q9H4R1	Frame_Shift_Ins	INS	ENST00000372989.1	37	CCDS14472.1																																																																																				0.495	SYTL4-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000057488.1	NM_080737		A	99942168	-	A	99942167	7	5	679	1	0	1	1	0	0	0	0	0	15497	710	25	0	962	0	SYTL4	23	99942167	Frame_Shift_Ins	INS	-	TCGA-KO-8408-01A-11D-2310-10	22666303	99942167	55328393	156	43976										
HCFC1	3054	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	153230057	153230057	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0472972972972973	7	1	1.09609273861363	2.59483178937104	0.619221222463543	1	1	0	cgtagaggtcattgctgtatTtcccatactccaccatccca	6	14	1	1			TCGA-KO-8408-01A-11D-2310-10	TCGA-KO-8408-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	61026c67-aa07-4509-b221-ca1f26ffead1	759ed56f-0af5-46be-a93c-934e2863a5dd	g.chrX:153230057T>C	ENST00000310441.7	-	2	1280	c.314A>G	c.(313-315)aAa>aGa	p.K105R	HCFC1_ENST00000461098.1_5'Flank|HCFC1_ENST00000369984.4_Missense_Mutation_p.K105R|HCFC1_ENST00000354233.3_Missense_Mutation_p.K105R	NM_005334.2	NP_005325.2	P51610	HCFC1_HUMAN	host cell factor C1	105					cell cycle (GO:0007049)|chromatin organization (GO:0006325)|histone H4-K16 acetylation (GO:0043984)|histone H4-K5 acetylation (GO:0043981)|histone H4-K8 acetylation (GO:0043982)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of cell cycle (GO:0045787)|positive regulation of gene expression (GO:0010628)|protein stabilization (GO:0050821)|regulation of protein complex assembly (GO:0043254)|regulation of transcription, DNA-templated (GO:0006355)|release from viral latency (GO:0019046)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|histone acetyltransferase complex (GO:0000123)|membrane (GO:0016020)|mitochondrion (GO:0005739)|MLL1 complex (GO:0071339)|MLL5-L complex (GO:0070688)|neuronal cell body (GO:0043025)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|Set1C/COMPASS complex (GO:0048188)	chromatin binding (GO:0003682)|identical protein binding (GO:0042802)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001205)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)			NS(1)|breast(2)|central_nervous_system(2)|endometrium(12)|kidney(3)|large_intestine(3)|lung(18)|ovary(2)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	47	all_cancers(53;6.23e-16)|all_epithelial(53;5.61e-10)|all_lung(58;3.99e-07)|Lung NSC(58;5.02e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ATTGCTGTATTTCCCATACTC	0.587																																																0													172	181	178					X																	153230057		2182	4253	6435	SO:0001583	missense	3054				CCDS44020.1	Xq28	2014-06-12	2014-06-09		ENSG00000172534	ENSG00000172534			4839	protein-coding gene	gene with protein product	"VP16-accessory protein", "protein phosphatase 1, regulatory subunit 89"	300019	"mental retardation, X-linked 3", "host cell factor C1 (VP16-accessory protein)"	HFC1, MRX3		8392914, 23000143	Standard	XM_005274664		Approved	HCF-1, HCF1, CFF, VCAF, MGC70925, PPP1R89	uc004fjp.3	P51610	OTTHUMG00000024222	ENST00000310441.7:c.314A>G	X.37:g.153230057T>C	ENSP00000309555:p.Lys105Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P4G5	Missense_Mutation	SNP	ENST00000310441.7	37	CCDS44020.1	.	.	.	.	.	.	.	.	.	.	T	23.5	4.426077	0.83667	.	.	ENSG00000172534	ENST00000310441;ENST00000369984;ENST00000354233	T;T;T	0.43688	0.94;0.94;0.94	5.46	5.46	0.80206	.	0.000000	0.85682	D	0.000000	T	0.42177	0.1191	N	0.20845	0.615	0.58432	D	0.999997	B	0.23316	0.083	B	0.43274	0.414	T	0.47787	-0.9090	10	0.62326	D	0.03	.	13.4587	0.61214	0.0:0.0:0.0:1.0	.	105	P51610	HCFC1_HUMAN	R	105	ENSP00000309555:K105R;ENSP00000359001:K105R;ENSP00000346174:K105R	ENSP00000309555:K105R	K	-	2	0	HCFC1	152883251	1.000000	0.71417	0.999000	0.59377	0.964000	0.63967	3.887000	0.56197	1.821000	0.53095	0.381000	0.24937	AAA		0.587	HCFC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000061099.4	NM_005334		C	153230057	T	C	153230057	3	2	679	1	0	0	0	0	1	0	0	0	6998	1841	64	3	5893	3	HCFC1	23	153230057	Missense_Mutation	SNP	T	TCGA-KO-8408-01A-11D-2310-10	53287890	153230057	2040503	157	43977										
ARHGEF10L	55160	mdanderson.org	37	chr1	18023690	18023690	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	agatggccgacgaccccgacAtctgggtgcgcagccggccc	14	16	1	1	rs2270976	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr1:18023690A>G	ENST00000361221.3	+	29	3814	c.3655A>G	c.(3655-3657)Atc>Gtc	p.I1219V	ARHGEF10L_ENST00000375415.1_Missense_Mutation_p.I1180V|ARHGEF10L_ENST00000469726.1_3'UTR|ARHGEF10L_ENST00000167825.4_Missense_Mutation_p.I922V|ARHGEF10L_ENST00000452522.1_Missense_Mutation_p.I1180V|ARHGEF10L_ENST00000375408.3_Missense_Mutation_p.I992V	NM_018125.3	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF) 10-like	1219			I -> V (in dbSNP:rs2270976). {ECO:0000269|PubMed:10997877, ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:16112081}.			cytoplasm (GO:0005737)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|liver(2)|lung(16)|ovary(4)|pancreas(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	43		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;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)		CGACCCCGACATCTGGGTGCG	0.682													G|||	4120	0.822684	0.6694	0.8746	5008	,	,		15288	0.8988		0.8211	False		,,,				2504	0.9162															0								G	VAL/ILE,VAL/ILE	3132,1254		1149,834,210	18	19	19		3538,3655	3	1	1	dbSNP_100	19	7157,1397		3009,1139,129	yes	missense,missense	ARHGEF10L	NM_001011722.2,NM_018125.3	29,29	4158,1973,339	GG,GA,AA		16.3315,28.591,20.4869	benign,benign	1180/1241,1219/1280	18023690	10289,2651	2193	4277	6470	SO:0001583	missense	55160			AB046846	CCDS182.1, CCDS30617.1	1p36.13	2011-11-16			ENSG00000074964	ENSG00000074964		"Rho guanine nucleotide exchange factors"	25540	protein-coding gene	gene with protein product	"GrinchGEF"	612494				10997877, 16112081	Standard	XM_005245923		Approved	FLJ10521, KIAA1626	uc001ban.3	Q9HCE6	OTTHUMG00000002514	ENST00000361221.3:c.3655A>G	1.37:g.18023690A>G	ENSP00000355060:p.Ile1219Val	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKS1|Q17RW1|Q3YFJ4|Q5VXI5|Q5VXI6|Q66K51|Q6P0L7|Q8NAV5|Q9NVT3	Missense_Mutation	SNP	ENST00000361221.3	37	CCDS182.1	1772	0.8113553113553114	333	0.676829268292683	314	0.8674033149171271	513	0.8968531468531469	612	0.8073878627968337	G	2.988	-0.208717	0.06140	0.71409	0.836685	ENSG00000074964	ENST00000361221;ENST00000452522;ENST00000375415;ENST00000375408;ENST00000167825	T;T;T;T;T	0.58210	0.63;0.62;0.62;0.35;2.61	4.89	2.98	0.34508	.	0.331575	0.27787	N	0.017853	T	0.00012	0.0000	N	0.02697	-0.525	0.80722	P	0.0	B;B;B;B;B	0.02656	0.0;0.0;0.0;0.0;0.0	B;B;B;B;B	0.04013	0.001;0.001;0.001;0.001;0.001	T	0.41270	-0.9518	9	0.02654	T	1	-19.6777	7.746	0.28869	0.2723:0.0:0.7277:0.0	rs2270976;rs59534978;rs2270976	992;922;1175;1180;1219	Q5VXI4;Q9HCE6-4;Q9HCE6-3;Q9HCE6-2;Q9HCE6	.;.;.;.;ARGAL_HUMAN	V	1219;1180;1180;992;922	ENSP00000355060:I1219V;ENSP00000399401:I1180V;ENSP00000364564:I1180V;ENSP00000364557:I992V;ENSP00000167825:I922V	ENSP00000167825:I922V	I	+	1	0	ARHGEF10L	17896277	0.236000	0.23804	1.000000	0.80357	0.993000	0.82548	0.608000	0.24223	0.461000	0.27071	-0.119000	0.15052	ATC		0.682	ARHGEF10L-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000007147.1	NM_018125		G	18023690	A	G	18023690	3	3	680	1	0	0	0	0	1	0	0	0	895	217	8	3	3765	3	ARHGEF10L	1	18023690	Missense_Mutation	SNP	A	TCGA-KO-8409-01A-11D-2310-10		18023690	231226931	1	43978										
KIF17	57576	broad.mit.edu;mdanderson.org	37	chr1	21014271	21014271	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tccgcaaacctggaggaaacCtgagtcttggagacatcgtc	11	11	1	2			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr1:21014271C>T	ENST00000247986.2	-	8	1858	c.1548G>A	c.(1546-1548)caG>caA	p.Q516Q	KIF17_ENST00000490034.1_Intron|KIF17_ENST00000400463.3_Silent_p.Q516Q|KIF17_ENST00000375044.1_Silent_p.Q416Q			Q9P2E2	KIF17_HUMAN	kinesin family member 17	516					ATP catabolic process (GO:0006200)|cell projection organization (GO:0030030)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|neurogenesis (GO:0022008)|protein complex localization (GO:0031503)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|intraciliary transport particle B (GO:0030992)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|plus-end-directed microtubule motor activity (GO:0008574)			NS(2)|endometrium(3)|kidney(3)|large_intestine(9)|liver(1)|lung(23)|ovary(4)|pancreas(1)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	50		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)		TGGAGGAAACCTGAGTCTTGG	0.542																																																0													83	80	81					1																	21014271		2203	4300	6503	SO:0001819	synonymous_variant	57576			AB037826	CCDS213.1, CCDS44079.1, CCDS72722.1	1p36.13	2012-08-01			ENSG00000117245	ENSG00000117245		"Kinesins"	19167	protein-coding gene	gene with protein product	"kinesin-like protein KIF17", "KIF3-related motor protein", "KIF17 variant protein"	605037				10846156	Standard	XR_241202		Approved	KIAA1405, KIF3X, KIF17B, OSM-3, KLP-2	uc001bdr.4	Q9P2E2	OTTHUMG00000002863	ENST00000247986.2:c.1548G>A	1.37:g.21014271C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2A3Q7|A2A3Q8|O95077|Q53YS6|Q5VWA9|Q6GSA8|Q8N411	Silent	SNP	ENST00000247986.2	37	CCDS213.1																																																																																				0.542	KIF17-009	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000276995.1	NM_020816		T	21014271	C	T	21014271	2	4	680	1	0	0	0	0	0	0	0	1	8286	680	24	2		2	KIF17	1	21014271	Silent	SNP	C	TCGA-KO-8409-01A-11D-2310-10	2990581	21014271	228236350	2	43979										
RBMXL1	494115	mdanderson.org	37	chr1	89449141	89449141	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tccatgtgtcctcctcgtgaAggaggtcccctggttcctcc	10	15	0	1			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr1:89449141A>G	ENST00000321792.5	-	2	796	c.369T>C	c.(367-369)ccT>ccC	p.P123P	CCBL2_ENST00000370485.2_Intron|CCBL2_ENST00000446900.2_Intron|CCBL2_ENST00000260508.4_Intron|RBMXL1_ENST00000399794.2_Silent_p.P123P|RBMXL1_ENST00000413769.1_5'UTR|CCBL2_ENST00000370491.3_Intron	NM_019610.5	NP_062556.2	Q96E39	RMXL1_HUMAN	RNA binding motif protein, X-linked-like 1	123					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|RNA binding (GO:0003723)										CTCCTCGTGAAGGAGGTCCCC	0.512																																																0													104	112	110					1																	89449141		2203	4300	6503	SO:0001819	synonymous_variant	494115			BC012942	CCDS716.1	1p22.2	2013-02-12	2007-01-04	2007-01-04	ENSG00000213516	ENSG00000213516		"RNA binding motif (RRM) containing"	25073	protein-coding gene	gene with protein product	"kynurenine aminotransferase III"					10441733	Standard	NM_019610		Approved	KAT3	uc001dms.3	Q96E39	OTTHUMG00000010661	ENST00000321792.5:c.369T>C	1.37:g.89449141A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000321792.5	37	CCDS716.1																																																																																				0.512	RBMXL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029403.3	NM_019610		G	89449141	A	G	89449141	2	3	680	1	0	0	0	0	0	0	0	1	13166	59	3	3		3	RBMXL1	1	89449141	Silent	SNP	A	TCGA-KO-8409-01A-11D-2310-10	68434870	89449141	159801480	3	43980										
VANGL1	81839	broad.mit.edu	37	chr1	116226629	116226630	+	Frame_Shift_Ins	INS	-	-	A													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	cagctgctcggcgcagggacINStcaagccacaacgagttgta							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr1:116226629_116226630insA	ENST00000355485.2	+	6	1282_1283	c.1011_1012insA	c.(1012-1014)tcafs	p.S338fs	VANGL1_ENST00000310260.3_Frame_Shift_Ins_p.S338fs|VANGL1_ENST00000474344.1_3'UTR|VANGL1_ENST00000369509.1_Frame_Shift_Ins_p.S338fs|VANGL1_ENST00000369510.4_Frame_Shift_Ins_p.S336fs	NM_001172411.1|NM_138959.2	NP_001165882.1|NP_620409.1	Q8TAA9	VANG1_HUMAN	VANGL planar cell polarity protein 1	338					multicellular organismal development (GO:0007275)	integral component of membrane (GO:0016021)|lateral plasma membrane (GO:0016328)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(2)|liver(2)|lung(13)|urinary_tract(1)	27	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)		GGCGCAGGGACTCAAGCCACAA	0.52																																																0																																										SO:0001589	frameshift_variant	81839			AB075805	CCDS883.1, CCDS53350.1	1p13.1	2013-03-05	2013-03-05		ENSG00000173218	ENSG00000173218			15512	protein-coding gene	gene with protein product		610132	"vang (van gogh, Drosophila)-like 1, vang, van gogh-like 1 (Drosophila)", "vang-like 1 (van gogh, Drosophila)"			11956595, 12011995	Standard	NM_001172411		Approved	STB2	uc001efv.1	Q8TAA9	OTTHUMG00000011971	Exception_encountered	1.37:g.116226629_116226630insA	ENSP00000347672:p.Ser338fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T1D3|Q5T1D4|Q86WG8|Q8N559	Frame_Shift_Ins	INS	ENST00000355485.2	37	CCDS883.1																																																																																				0.52	VANGL1-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000033096.1			A	116226630	-	A	116226629	7	5	680	1	0	1	1	0	0	0	0	0	17131	564	20	0	1029	0	VANGL1	1	116226629	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10	26777488	116226629	133023992	4	43981										
IGSF3	3321	mdanderson.org	37	chr1	117158772	117158772	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ctgggtgtgtggcattcataCtccccggcatcccgggcctg	13	14	1	0			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr1:117158772C>T	ENST00000369486.3	-	3	1116	c.351G>A	c.(349-351)gaG>gaA	p.E117E	IGSF3_ENST00000369483.1_Silent_p.E117E|IGSF3_ENST00000318837.6_Silent_p.E117E	NM_001007237.1	NP_001007238.1	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3	117	Ig-like C2-type 1.				lacrimal gland development (GO:0032808)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)		p.E117E(2)		NS(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|liver(1)|lung(31)|ovary(4)|prostate(1)|skin(4)|upper_aerodigestive_tract(2)	62	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		GGCATTCATACTCCCCGGCAT	0.527																																																2	Substitution - coding silent(2)	endometrium(2)											56	51	53					1																	117158772		2203	4300	6503	SO:0001819	synonymous_variant	3321			AF031174	CCDS30813.1, CCDS30814.1	1p13	2013-01-29			ENSG00000143061	ENSG00000143061		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5950	protein-coding gene	gene with protein product		603491				9790749	Standard	NM_001007237		Approved	V8, EWI-3, MGC117164	uc031pnr.1	O75054	OTTHUMG00000022751	ENST00000369486.3:c.351G>A	1.37:g.117158772C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NJZ6|A6NMC7	Silent	SNP	ENST00000369486.3	37	CCDS30813.1																																																																																				0.527	IGSF3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000059040.1	NM_001542		T	117158772	C	T	117158772	2	4	680	1	0	0	0	0	0	0	0	1	7608	564	20	2		2	IGSF3	1	117158772	Silent	SNP	C	TCGA-KO-8409-01A-11D-2310-10	932143	117158772	132091849	5	43982										
NBPF14	25832	mdanderson.org	37	chr1	148004733	148004733	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tgacggagtcgaataacataTatccagtgagtcctgcaaga	10	8	0	3	rs78149412	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr1:148004733T>C	ENST00000369219.1	-	22	2597	c.2581A>G	c.(2581-2583)Ata>Gta	p.I861V				Q5TI25	NBPFE_HUMAN	neuroblastoma breakpoint family, member 14	861	NBPF 10. {ECO:0000255|PROSITE- ProRule:PRU00647}.					cytoplasm (GO:0005737)				NS(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(1)|lung(23)|ovary(2)|pancreas(2)|prostate(2)|skin(1)|stomach(2)|urinary_tract(1)	42	all_hematologic(923;0.032)					GAATAACATATATCCAGTGAG	0.443													-|||	115	0.0229633	0.0741	0.0072	5008	,	,		21040	0.0		0.008	False		,,,				2504	0.0041															0													136	204	182					1																	148004733		1971	4174	6145	SO:0001583	missense	25832			AK092351		1q21.1	2013-01-17			ENSG00000122497			"neuroblastoma breakpoint family"	25232	protein-coding gene	gene with protein product		614003				8619474, 9110174, 16079250	Standard	NM_015383		Approved	DJ328E19.C1.1	uc021owp.2	Q5TI25	OTTHUMG00000013900	ENST00000369219.1:c.2581A>G	1.37:g.148004733T>C	ENSP00000358221:p.Ile861Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TI23|Q8IX76|Q9UJI9	Missense_Mutation	SNP	ENST00000369219.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	t|t	0.096|0.096	-1.159114|-1.159114	0.01686|0.01686	.|.	.|.	ENSG00000122497|ENSG00000122497	ENST00000310701|ENST00000369219;ENST00000369368	.|T	.|0.05786	.|3.39	.|.	.|.	.|.	.|DUF1220 (2);	.|.	.|.	.|.	.|.	T|T	0.00666|0.00666	0.0022|0.0022	N|N	0.02011|0.02011	-0.69|-0.69	0.09310|0.09310	N|N	1|1	.|B;B;B	.|0.14012	.|0.0;0.009;0.005	.|B;B;B	.|0.11329	.|0.001;0.006;0.006	T|T	0.46442|0.46442	-0.9191|-0.9191	3|7	.|0.51188	.|T	.|0.08	.|.	.|.	.|.	.|.	.|.	.|209;842;861	.|F8WEX8;B4DH59;Q5TI25	.|.;.;NBPFE_HUMAN	M|V	866|861;209	.|ENSP00000358221:I861V	.|ENSP00000358221:I861V	I|I	-|-	3|1	3|0	NBPF14|NBPF14	146471357|146471357	0.689000|0.689000	0.27690|0.27690	0.004000|0.004000	0.12327|0.12327	0.022000|0.022000	0.10575|0.10575	-0.736000|-0.736000	0.04882|0.04882	-0.512000|-0.512000	0.06505|0.06505	0.055000|0.055000	0.15244|0.15244	ATA|ATA		0.443	NBPF14-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_015383		C	148004733	T	C	148004733	3	2	680	1	0	0	0	0	1	0	0	0	10201	1406	49	3	188	3	NBPF14	1	148004733	Missense_Mutation	SNP	T	TCGA-KO-8409-01A-11D-2310-10	30845961	148004733	101245888	6	43983										
PKLR	5313	broad.mit.edu	37	chr1	155270047	155270048	+	Frame_Shift_Ins	INS	-	-	C													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ggtcagttgggccacactggINScccgccgcagataccccgct							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr1:155270047_155270048insC	ENST00000342741.4	-	2	162_163	c.124_125insG	c.(124-126)gccfs	p.A42fs	PKLR_ENST00000392414.3_Frame_Shift_Ins_p.A11fs	NM_000298.5	NP_000289.1	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC	42					ATP biosynthetic process (GO:0006754)|carbohydrate metabolic process (GO:0005975)|cellular response to insulin stimulus (GO:0032869)|endocrine pancreas development (GO:0031018)|energy reserve metabolic process (GO:0006112)|glucose metabolic process (GO:0006006)|glycolytic process (GO:0006096)|positive regulation of cellular metabolic process (GO:0031325)|pyruvate biosynthetic process (GO:0042866)|response to ATP (GO:0033198)|response to cAMP (GO:0051591)|response to glucose (GO:0009749)|response to heat (GO:0009408)|response to hypoxia (GO:0001666)|response to lithium ion (GO:0010226)|response to nutrient (GO:0007584)|response to other organism (GO:0051707)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|potassium ion binding (GO:0030955)|pyruvate kinase activity (GO:0004743)			NS(1)|autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(16)|ovary(1)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	35	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)	GGCCACACTGGCCCGCCGCAGA	0.629																																																0																																										SO:0001589	frameshift_variant	5313			BC025737, M15465	CCDS1109.1, CCDS44240.1	1q22	2012-10-02			ENSG00000143627	ENSG00000143627	2.7.1.40		9020	protein-coding gene	gene with protein product		609712				3566732	Standard	NM_000298		Approved		uc001fkb.4	P30613	OTTHUMG00000035875	ENST00000342741.4:c.125dupG	1.37:g.155270050_155270050dupC	ENSP00000339933:p.Ala42fs	Somatic		WXS	Illumina HiSeq	Phase_I	O75758|P11973	Frame_Shift_Ins	INS	ENST00000342741.4	37	CCDS1109.1																																																																																				0.629	PKLR-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000087407.2	NM_000298		C	155270048	-	C	155270047	7	5	680	1	0	1	1	0	0	0	0	0	11983	1203	42	0	1639	0	PKLR	1	155270047	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10	7265314	155270047	93980574	7	43984										
HDGF	3068	ucsc.edu	37	chr1	156721154	156721154	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	cccgggccggccagtgtgggTagcccttcatcttggcgaac	14	14	2	0			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr1:156721154T>G	ENST00000357325.5	-	1	382	c.68A>C	c.(67-69)tAc>tCc	p.Y23S	HDGF_ENST00000465180.1_Intron|HDGF_ENST00000368206.5_Intron|HDGF_ENST00000416666.2_5'Flank|HDGF_ENST00000537739.1_Missense_Mutation_p.Y23S|HDGF_ENST00000368209.5_Intron|PRCC_ENST00000491853.1_Intron	NM_004494.2	NP_004485.1	P51858	HDGF_HUMAN	hepatoma-derived growth factor	23	PWWP. {ECO:0000255|PROSITE- ProRule:PRU00162}.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cell proliferation (GO:0008283)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein localization to nucleus (GO:0034504)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	DNA binding (GO:0003677)|heparin binding (GO:0008201)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA polymerase II transcription corepressor activity (GO:0001106)|transcription corepressor binding (GO:0001222)			endometrium(1)|kidney(1)|large_intestine(1)|lung(6)	9	all_hematologic(923;0.088)|Hepatocellular(266;0.158)	Breast(1374;0.198)		Colorectal(1306;0.018)		CCAGTGTGGGTAGCCCTTCAT	0.721																																																0													37	36	36					1																	156721154		2203	4299	6502	SO:0001583	missense	3068			D16431	CCDS1156.1, CCDS44247.1, CCDS44248.1	1q23.1	2013-10-14	2010-03-19		ENSG00000143321	ENSG00000143321			4856	protein-coding gene	gene with protein product	"high-mobility group protein 1-like"	600339	"hepatoma-derived growth factor (high-mobility group protein 1-like)"			8833162	Standard	NM_004494		Approved	HMG1L2	uc001fpy.4	P51858	OTTHUMG00000041295	ENST00000357325.5:c.68A>C	1.37:g.156721154T>G	ENSP00000349878:p.Tyr23Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KU21|D3DVC9|Q5SZ07|Q5SZ08|Q5SZ09	Missense_Mutation	SNP	ENST00000357325.5	37	CCDS1156.1	.	.	.	.	.	.	.	.	.	.	T	14.93	2.681376	0.47991	.	.	ENSG00000143321	ENST00000357325;ENST00000537739;ENST00000406805	T;T	0.74002	-0.8;-0.8	3.63	2.45	0.29901	PWWP (3);	.	.	.	.	T	0.79799	0.4508	M	0.86268	2.805	0.80722	D	1	P;D	0.67145	0.944;0.996	D;D	0.70227	0.968;0.957	T	0.80020	-0.1557	9	0.87932	D	0	.	7.5044	0.27536	0.1928:0.0:0.0:0.8072	.	23;23	B2RDE8;P51858	.;HDGF_HUMAN	S	23	ENSP00000349878:Y23S;ENSP00000443120:Y23S	ENSP00000349878:Y23S	Y	-	2	0	HDGF	154987778	1.000000	0.71417	1.000000	0.80357	0.040000	0.13550	5.215000	0.65241	0.374000	0.24650	0.477000	0.44152	TAC		0.721	HDGF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098946.1	NM_004494		G	156721154	T	G	156721154	3	3	680	1	0	0	0	0	1	0	0	0	7025	1638	57	5	678	5	HDGF	1	156721154	Missense_Mutation	SNP	T	TCGA-KO-8409-01A-11D-2310-10	1451107	156721154	92529467	8	43985										
C1orf198	84886	ucsc.edu	37	chr1	231004156	231004156	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	cctggccatggggctcagcgAcgagaagtaagtgaagcgct	15	10	1	2			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr1:231004156A>G	ENST00000366663.5	-	1	243	c.103T>C	c.(103-105)Tcg>Ccg	p.S35P	C1orf198_ENST00000427697.2_Intron|C1orf198_ENST00000470540.1_Intron	NM_032800.2	NP_116189.1	Q9H425	CA198_HUMAN	chromosome 1 open reading frame 198	35						cytoplasm (GO:0005737)				breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(6)|ovary(1)|prostate(2)|skin(1)|urinary_tract(1)	17	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				GGGCTCAGCGACGAGAAGTAA	0.682																																																0													22	27	26					1																	231004156		2202	4300	6502	SO:0001583	missense	84886			BC066649	CCDS1587.1, CCDS44330.1, CCDS44331.1	1q42.2	2008-02-05			ENSG00000119280	ENSG00000119280			25900	protein-coding gene	gene with protein product							Standard	NM_032800		Approved	FLJ14525, MGC10710, FLJ16283, DKFZp667D152, FLJ38847	uc001hub.3	Q9H425	OTTHUMG00000037790	ENST00000366663.5:c.103T>C	1.37:g.231004156A>G	ENSP00000355623:p.Ser35Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8R8|B3KTW1|G5EA08	Missense_Mutation	SNP	ENST00000366663.5	37	CCDS1587.1	.	.	.	.	.	.	.	.	.	.	a	27.1	4.796512	0.90453	.	.	ENSG00000119280	ENST00000366663	T	0.42131	0.98	3.63	2.47	0.30058	.	0.000000	0.64402	U	0.000003	T	0.57184	0.2036	M	0.68593	2.085	0.80722	D	1	D	0.71674	0.998	D	0.68943	0.961	T	0.57312	-0.7833	10	0.87932	D	0	.	9.652	0.39904	0.8238:0.1762:0.0:0.0	.	35	Q9H425	CA198_HUMAN	P	35	ENSP00000355623:S35P	ENSP00000355623:S35P	S	-	1	0	C1orf198	229070779	1.000000	0.71417	0.995000	0.50966	0.985000	0.73830	7.272000	0.78516	0.431000	0.26258	0.375000	0.23000	TCG		0.682	C1orf198-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000092236.2	NM_032800		G	231004156	A	G	231004156	3	3	680	1	0	0	0	0	1	0	0	0	2028	275	10	3	896	3	C1orf198	1	231004156	Missense_Mutation	SNP	A	TCGA-KO-8409-01A-11D-2310-10	74283002	231004156	18246465	9	43986										
GTF3C2	2976	broad.mit.edu;ucsc.edu	37	chr2	27550102	27550102	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gttgagaatgcccctctcccTcctgcatgcgcagcattggt	10	14	1	1			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr2:27550102T>C	ENST00000359541.2	-	18	2888	c.2459A>G	c.(2458-2460)gAg>gGg	p.E820G	GTF3C2_ENST00000264720.3_Missense_Mutation_p.E820G|MPV17_ENST00000357186.6_5'Flank			Q8WUA4	TF3C2_HUMAN	general transcription factor IIIC, polypeptide 2, beta 110kDa	820					5S class rRNA transcription from RNA polymerase III type 1 promoter (GO:0042791)|gene expression (GO:0010467)|transcription from RNA polymerase III promoter (GO:0006383)|transcription, DNA-templated (GO:0006351)|tRNA transcription from RNA polymerase III promoter (GO:0042797)	nucleoplasm (GO:0005654)|transcription factor TFIIIC complex (GO:0000127)				central_nervous_system(4)|endometrium(6)|kidney(1)|large_intestine(9)|lung(10)|ovary(1)|pancreas(1)|prostate(2)|skin(2)|urinary_tract(2)	38	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCCCTCTCCCTCCTGCATGCG	0.532																																																0													78	66	70					2																	27550102		2203	4300	6503	SO:0001583	missense	2976			D13636	CCDS1749.1	2p23.3	2013-01-10	2002-08-29		ENSG00000115207	ENSG00000115207		"General transcription factors", "WD repeat domain containing"	4665	protein-coding gene	gene with protein product		604883	"general transcription factor IIIC, polypeptide 2 (beta subunit, 110kD)"			7729686	Standard	NM_001521		Approved	KIAA0011, TFIIIC110	uc002rjw.2	Q8WUA4	OTTHUMG00000097785	ENST00000359541.2:c.2459A>G	2.37:g.27550102T>C	ENSP00000352536:p.Glu820Gly	Somatic		WXS	Illumina HiSeq	Phase_I	D6W557|Q16632|Q9BWI7	Silent	SNP	ENST00000359541.2	37	CCDS1749.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	t|t	16.54|16.54	3.150979|3.150979	0.57151|0.57151	.|.	.|.	ENSG00000115207|ENSG00000115207	ENST00000359541;ENST00000264720|ENST00000431028;ENST00000454704;ENST00000415683	T;T|.	0.73469|.	-0.75;-0.75|.	4.95|4.95	3.77|3.77	0.43336|0.43336	WD40 repeat-like-containing domain (1);|.	0.490106|.	0.22812|.	N|.	0.055334|.	T|T	0.30634|0.30634	0.0771|0.0771	N|N	0.14661|0.14661	0.345|0.345	0.33213|0.33213	D|D	0.553678|0.553678	B|.	0.02656|.	0.0|.	B|.	0.01281|.	0.0|.	T|T	0.38520|0.38520	-0.9657|-0.9657	10|5	0.28530|.	T|.	0.3|.	-9.0314|-9.0314	7.4656|7.4656	0.27320|0.27320	0.2122:0.0:0.0:0.7878|0.2122:0.0:0.0:0.7878	.|.	820|.	Q8WUA4|.	TF3C2_HUMAN|.	G|G	820|35;329;243	ENSP00000352536:E820G;ENSP00000264720:E820G|.	ENSP00000264720:E820G|.	E|R	-|-	2|1	0|2	GTF3C2|GTF3C2	27403606|27403606	0.998000|0.998000	0.40836|0.40836	0.999000|0.999000	0.59377|0.59377	0.997000|0.997000	0.91878|0.91878	0.549000|0.549000	0.23329|0.23329	0.876000|0.876000	0.35872|0.35872	0.529000|0.529000	0.55759|0.55759	GAG|AGG		0.532	GTF3C2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215028.2			C	27550102	T	C	27550102	3	2	680	1	0	0	0	0	1	0	0	0	6880	1551	54	3	284	3	GTF3C2	2	27550102	Missense_Mutation	SNP	T	TCGA-KO-8409-01A-11D-2310-10		27550102	215649271	10	43987										
ALK	238	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr2	29416536	29416536	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tgccatattcacgtgtccccCttccacggccggccctctag	8	18	2	0			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr2:29416536C>T	ENST00000389048.3	-	29	5323	c.4417G>A	c.(4417-4419)Ggg>Agg	p.G1473R	ALK_ENST00000431873.1_Missense_Mutation_p.G303R	NM_004304.4	NP_004295.2	Q9UM73	ALK_HUMAN	anaplastic lymphoma receptor tyrosine kinase	1473					activation of MAPK activity (GO:0000187)|cell proliferation (GO:0008283)|neuron development (GO:0048666)|NIK/NF-kappaB signaling (GO:0038061)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphorylation (GO:0016310)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|protein autophosphorylation (GO:0046777)|regulation of apoptotic process (GO:0042981)|signal transduction (GO:0007165)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|protein complex (GO:0043234)	ATP binding (GO:0005524)|NF-kappaB-inducing kinase activity (GO:0004704)|protein tyrosine kinase activity (GO:0004713)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)	p.V1471fs*45(1)	ATIC/ALK(24)|FN1/ALK(2)|C2orf44/ALK(2)|TPM3/ALK(33)|KLC1/ALK(2)|VCL/ALK(4)|TPM4/ALK(12)|KIF5B/ALK(8)|RANBP2/ALK(34)|SQSTM1/ALK(2)|EML4/ALK(543)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|NPM1/ALK(632)|CLTC/ALK(44)|CARS/ALK(5)|MSN/ALK(6)|TFG/ALK(9)	NS(2)|autonomic_ganglia(198)|breast(8)|central_nervous_system(2)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(7)|kidney(4)|large_intestine(25)|lung(61)|ovary(6)|pancreas(1)|prostate(2)|skin(5)|soft_tissue(3)|stomach(2)|thyroid(2)	340	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)|Crizotinib(DB08865)	ACGTGTCCCCCTTCCACGGCC	0.582			"T, Mis, A"	"NPM1, TPM3, TFG, TPM4, ATIC, CLTC, MSN, ALO17, CARS, EML4, KIF5B, C2orf22"	"ALCL, NSCLC, Neuroblastoma"	neuroblastoma			Neuroblastoma, Familial Clustering of;Congenital Central Hypoventilation Syndrome																													yes	Dom	yes	Familial neuroblastoma	2	2p23	238	anaplastic lymphoma kinase (Ki-1)		"L, E, M"	1	Deletion - Frameshift(1)	pancreas(1)											101	104	103					2																	29416536		2203	4300	6503	SO:0001583	missense	238	Familial Cancer Database	Familial Neuroblastoma;CCHS, Ondine Curse, incl. Ondine-Hirschsprung Disease	D45915	CCDS33172.1	2p23	2014-09-17	2008-01-23		ENSG00000171094	ENSG00000171094		"CD molecules"	427	protein-coding gene	gene with protein product		105590	"anaplastic lymphoma kinase (Ki-1)"			8122112	Standard	NM_004304		Approved	CD246	uc002rmy.3	Q9UM73	OTTHUMG00000152034	ENST00000389048.3:c.4417G>A	2.37:g.29416536C>T	ENSP00000373700:p.Gly1473Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZFX9|Q53QQ6|Q53RZ4|Q59FI3|Q9Y4K6	Missense_Mutation	SNP	ENST00000389048.3	37	CCDS33172.1	.	.	.	.	.	.	.	.	.	.	c	10.05	1.244136	0.22796	.	.	ENSG00000171094	ENST00000389048;ENST00000431873	T;T	0.77620	-1.11;2.59	5.64	3.81	0.43845	.	0.137965	0.32671	N	0.005794	T	0.65565	0.2703	L	0.36672	1.1	0.38337	D	0.943963	B	0.23735	0.09	B	0.21917	0.037	T	0.58875	-0.7559	10	0.23302	T	0.38	.	9.4229	0.38561	0.0:0.7747:0.1491:0.0762	.	1473	Q9UM73	ALK_HUMAN	R	1473;303	ENSP00000373700:G1473R;ENSP00000414027:G303R	ENSP00000373700:G1473R	G	-	1	0	ALK	29270040	0.999000	0.42202	0.449000	0.26957	0.022000	0.10575	5.497000	0.66924	0.716000	0.32124	0.556000	0.70494	GGG		0.582	ALK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324994.1	NM_004304		T	29416536	C	T	29416536	3	4	680	1	0	0	0	0	1	0	0	0	525	681	24	2	449	2	ALK	2	29416536	Missense_Mutation	SNP	C	TCGA-KO-8409-01A-11D-2310-10	1866434	29416536	213782837	11	43988										
IMMT	10989	broad.mit.edu	37	chr2	86374840	86374840	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ctcacctgctcaaattcagaCttcaattcctgttcttgtac	4	13	5	1			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr2:86374840C>T	ENST00000410111.3	-	13	1905	c.1518G>A	c.(1516-1518)aaG>aaA	p.K506K	IMMT_ENST00000254636.5_Silent_p.K407K|IMMT_ENST00000442664.2_Silent_p.K505K|IMMT_ENST00000449247.2_Silent_p.K495K|IMMT_ENST00000409051.2_Silent_p.K459K	NM_001100169.1|NM_001100170.1|NM_006839.2	NP_001093639.1|NP_001093640.1|NP_006830.2	Q16891	MIC60_HUMAN	inner membrane protein, mitochondrial	506					mitochondrial calcium ion homeostasis (GO:0051560)|response to cold (GO:0009409)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(1)|kidney(3)|large_intestine(9)|lung(12)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	30						CAAATTCAGACTTCAATTCCT	0.488																																																0													110	109	109					2																	86374840		1983	4152	6135	SO:0001819	synonymous_variant	10989			D21094	CCDS46355.1, CCDS46356.1, CCDS46357.1	2p11.2	2011-10-04	2010-04-29		ENSG00000132305	ENSG00000132305			6047	protein-coding gene	gene with protein product	"mitofilin", "mitochondrial inner membrane organizing system 2"	600378	"inner membrane protein, mitochondrial (mitofilin)"			9168817, 8039717	Standard	NM_001100169		Approved	P87, P89, HMP, MINOS2	uc002sqz.4	Q16891	OTTHUMG00000153170	ENST00000410111.3:c.1518G>A	2.37:g.86374840C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B1H0U5|B2R5N6|Q14539|Q15092|Q68D41|Q69HW5|Q6IBL0|Q7Z3X1|Q8TAJ5|Q9P0V2	Silent	SNP	ENST00000410111.3	37	CCDS46355.1	.	.	.	.	.	.	.	.	.	.	C	7.097	0.573397	0.13623	.	.	ENSG00000132305	ENST00000419070	.	.	.	6.17	0.529	0.17095	.	.	.	.	.	T	0.69233	0.3088	.	.	.	0.42153	D	0.991561	.	.	.	.	.	.	T	0.67995	-0.5526	4	.	.	.	-24.7055	16.3409	0.83081	0.0:0.8147:0.0:0.1853	.	.	.	.	I	361	.	.	V	-	1	0	IMMT	86228351	0.003000	0.15002	0.512000	0.27736	0.993000	0.82548	-0.013000	0.12678	-0.109000	0.12044	0.655000	0.94253	GTC		0.488	IMMT-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000329909.2	NM_006839		T	86374840	C	T	86374840	2	4	680	1	0	0	0	0	0	0	0	1	7725	564	20	2		2	IMMT	2	86374840	Silent	SNP	C	TCGA-KO-8409-01A-11D-2310-10	56958304	86374840	156824533	12	43989										
PCDP1	200373	ucsc.edu	37	chr2	120397411	120397411	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tccagtccctggttctctccTccctgccggacccctccaag	7	20	1	0			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr2:120397411T>C	ENST00000413369.3	+	21	2275	c.2188T>C	c.(2188-2190)Tcc>Ccc	p.S730P	PCDP1_ENST00000602047.1_Missense_Mutation_p.S444P	NM_001271049.1	NP_001257978																Colorectal(110;0.196)					GGTTCTCTCCTCCCTGCCGGA	0.493																																																0													95	94	94					2																	120397411		2203	4300	6503	SO:0001583	missense	0																														ENST00000413369.3:c.2188T>C	2.37:g.120397411T>C	ENSP00000393222:p.Ser730Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000413369.3	37	CCDS33282.2	.	.	.	.	.	.	.	.	.	.	T	16.24	3.067453	0.55539	.	.	ENSG00000163075	ENST00000295220;ENST00000413369	T	0.18960	2.18	5.07	-4.22	0.03800	.	1.174140	0.06179	N	0.679050	T	0.28732	0.0712	L	0.52573	1.65	0.09310	N	1	D	0.58970	0.984	P	0.59056	0.851	T	0.39941	-0.9589	10	0.54805	T	0.06	-1.9503	4.2765	0.10811	0.1332:0.1104:0.5434:0.213	.	730	Q4G0U5	PCDP1_HUMAN	P	444;730	ENSP00000393222:S730P	ENSP00000295220:S444P	S	+	1	0	AC069154.2	120113881	0.000000	0.05858	0.000000	0.03702	0.023000	0.10783	0.133000	0.15912	-0.261000	0.09405	-1.236000	0.01555	TCC		0.493	PCDP1-006	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464236.1			C	120397411	T	C	120397411	3	2	680	1	0	0	0	0	1	0	0	0	11579	1551	54	3	1380	3	PCDP1	2	120397411	Missense_Mutation	SNP	T	TCGA-KO-8409-01A-11D-2310-10	34022571	120397411	122801962	13	43990										
POTEE	445582	broad.mit.edu	37	chr2	132021077	132021078	+	Frame_Shift_Ins	INS	-	-	A													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tggaggatattgaaagtgtgINSaaaaaaaagaatgataatct					rs200735283	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr2:132021077_132021078insA	ENST00000356920.5	+	15	2143_2144	c.2049_2050insA	c.(2050-2052)aaafs	p.K684fs	PLEKHB2_ENST00000303908.3_Intron|PLEKHB2_ENST00000404460.1_Intron|POTEE_ENST00000358087.5_3'UTR	NM_001083538.1	NP_001077007.1	Q6S8J3	POTEE_HUMAN	POTE ankyrin domain family, member E	684					retina homeostasis (GO:0001895)|substantia nigra development (GO:0021762)	blood microparticle (GO:0072562)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)											TTGAAAGTGTGAAAAAAAAGAA	0.416																																																0																																										SO:0001589	frameshift_variant	445582			AY462868	CCDS46414.1	2q21.1	2014-04-10	2008-11-26	2008-11-26	ENSG00000188219	ENSG00000188219		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33895	protein-coding gene	gene with protein product	"cancer/testis antigen family 104, member 2"	608914	"ANKRD26-like family C, member 1A"	A26C1A			Standard	NM_001083538		Approved	POTE2, POTE-2, A26C1, POTE2gamma, CT104.2	uc002tsn.2	Q6S8J3	OTTHUMG00000186974	ENST00000356920.5:c.2057dupA	2.37:g.132021085_132021085dupA	ENSP00000439189:p.Lys684fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6S8J4|Q6S8J5|Q6S8J8	Frame_Shift_Ins	INS	ENST00000356920.5	37	CCDS46414.1																																																																																				0.416	POTEE-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001083538		A	132021078	-	A	132021077	7	5	680	1	0	1	1	0	0	0	0	0	12271	1277	45	0	2107	0	POTEE	2	132021077	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10	11623666	132021077	111178296	14	43991										
UBR3	130507	mdanderson.org	37	chr2	170684548	170684548	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gactgcggggacagcaacgtGatgcgggagagcgggtgagt	20	7	0	3	rs79036304	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr2:170684548G>A	ENST00000272793.5	+	1	581	c.531G>A	c.(529-531)gtG>gtA	p.V177V	UBR3_ENST00000418381.1_Silent_p.V177V			Q6ZT12	UBR3_HUMAN	ubiquitin protein ligase E3 component n-recognin 3 (putative)	177					embryo development (GO:0009790)|in utero embryonic development (GO:0001701)|olfactory behavior (GO:0042048)|sensory perception of smell (GO:0007608)|suckling behavior (GO:0001967)|ubiquitin-dependent protein catabolic process (GO:0006511)	integral component of membrane (GO:0016021)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(2)|cervix(1)|endometrium(5)|kidney(2)|large_intestine(9)|liver(1)|lung(8)|ovary(1)|prostate(3)|stomach(1)	33						ACAGCAACGTGATGCGGGAGA	0.726													g|||	320	0.0638978	0.174	0.0461	5008	,	,		9387	0.0109		0.0258	False		,,,				2504	0.0215															0													6	6	6					2																	170684548		685	1551	2236	SO:0001819	synonymous_variant	130507			AL834144	CCDS2238.2	2q31.1	2008-06-23	2008-06-23	2007-11-29	ENSG00000144357	ENSG00000144357		"Ubiquitin protein ligase E3 component n-recognins"	30467	protein-coding gene	gene with protein product		613831	"zinc finger protein 650"	ZNF650		17462990	Standard	NM_172070		Approved	KIAA2024, DKFZp434P117, FLJ37422	uc010zdi.2	Q6ZT12	OTTHUMG00000132229	ENST00000272793.5:c.531G>A	2.37:g.170684548G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DZR7|Q2KHN5|Q6ZR55|Q6ZSC2|Q8IVE7|Q8ND96	Silent	SNP	ENST00000272793.5	37																																																																																					0.726	UBR3-001	KNOWN	non_canonical_conserved|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000255290.2	NM_172070		A	170684548	G	A	170684548	2	1	680	1	0	0	0	0	0	0	0	1	16915	1277	45	2		2	UBR3	2	170684548	Silent	SNP	G	TCGA-KO-8409-01A-11D-2310-10	38663471	170684548	72514825	15	43992										
SATB2	23314	broad.mit.edu	37	chr2	200136984	200136984	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	cttgcttttgtcagcattttCctcctcagcctccactttgt	5	14	2	0			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr2:200136984C>T	ENST00000417098.1	-	11	2968	c.2152G>A	c.(2152-2154)Gaa>Aaa	p.E718K	SATB2_ENST00000457245.1_Missense_Mutation_p.E718K|SATB2_ENST00000428695.1_Missense_Mutation_p.E600K|SATB2_ENST00000443023.1_Missense_Mutation_p.E659K|SATB2_ENST00000260926.5_Missense_Mutation_p.E718K	NM_001172509.1	NP_001165980.1	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	718					cartilage development (GO:0051216)|cellular response to organic substance (GO:0071310)|chromatin remodeling (GO:0006338)|embryonic pattern specification (GO:0009880)|embryonic skeletal system morphogenesis (GO:0048704)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron migration (GO:0001764)|osteoblast development (GO:0002076)|palate development (GO:0060021)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|histone deacetylase complex (GO:0000118)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|sequence-specific DNA binding (GO:0043565)			breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(6)|lung(40)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	62						TCAGCATTTTCCTCCTCAGCC	0.502																																					Colon(30;262 767 11040 24421 36230)											0													127	122	123					2																	200136984		2203	4300	6503	SO:0001583	missense	23314			AB028957	CCDS2327.1	2q33.1	2011-06-20	2007-02-15		ENSG00000119042	ENSG00000119042		"Homeoboxes / CUT class"	21637	protein-coding gene	gene with protein product		608148	"SATB family member 2"				Standard	NM_015265		Approved	KIAA1034, FLJ21474	uc002uva.2	Q9UPW6	OTTHUMG00000132767	ENST00000417098.1:c.2152G>A	2.37:g.200136984C>T	ENSP00000401112:p.Glu718Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5Z8|Q3ZB87|Q4V763	Missense_Mutation	SNP	ENST00000417098.1	37	CCDS2327.1	.	.	.	.	.	.	.	.	.	.	C	13.83	2.353580	0.41700	.	.	ENSG00000119042	ENST00000417098;ENST00000443023;ENST00000260926;ENST00000428695;ENST00000457245	T;T;T;T;T	0.48522	0.81;0.81;0.81;0.82;0.81	5.63	5.63	0.86233	.	0.213619	0.39834	N	0.001259	T	0.36082	0.0954	N	0.14661	0.345	0.46376	D	0.999013	B;B	0.26002	0.139;0.004	B;B	0.22152	0.038;0.004	T	0.14839	-1.0458	10	0.51188	T	0.08	-6.9461	20.0401	0.97581	0.0:1.0:0.0:0.0	.	600;718	Q3ZB87;Q9UPW6	.;SATB2_HUMAN	K	718;659;718;600;718	ENSP00000401112:E718K;ENSP00000388764:E659K;ENSP00000260926:E718K;ENSP00000388581:E600K;ENSP00000405420:E718K	ENSP00000260926:E718K	E	-	1	0	SATB2	199845229	1.000000	0.71417	0.991000	0.47740	0.115000	0.19883	4.034000	0.57289	2.805000	0.96524	0.655000	0.94253	GAA		0.502	SATB2-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256140.1	NM_015265		T	200136984	C	T	200136984	3	4	680	1	0	0	0	0	1	0	0	0	13867	864	30	2	53	2	SATB2	2	200136984	Missense_Mutation	SNP	C	TCGA-KO-8409-01A-11D-2310-10	29452436	200136984	43062389	16	43993										
NCL	4691	broad.mit.edu	37	chr2	232322444	232322444	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	aatagatcgcccatcgatctCtgttccctgcttttcttcaa	5	13	3	1			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr2:232322444C>T	ENST00000322723.4	-	9	1597	c.1357G>A	c.(1357-1359)Gag>Aag	p.E453K	SNORA75_ENST00000384158.1_RNA|SNORD20_ENST00000384550.1_RNA|SNORD82_ENST00000365530.1_RNA	NM_005381.2	NP_005372.2	P19338	NUCL_HUMAN	nucleolin	453	RRM 2. {ECO:0000255|PROSITE- ProRule:PRU00176}.				angiogenesis (GO:0001525)|positive regulation of transcription of nuclear large rRNA transcript from RNA polymerase I promoter (GO:1901838)	cell cortex (GO:0005938)|cytoplasmic ribonucleoprotein granule (GO:0036464)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	identical protein binding (GO:0042802)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)|RNA binding (GO:0003723)|telomeric DNA binding (GO:0042162)			breast(3)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(8)|lung(7)|ovary(2)|pancreas(2)|prostate(2)|skin(3)	35		Ovarian(221;1.34e-05)|Renal(207;0.0112)|Lung NSC(271;0.0339)|all_lung(227;0.0616)|all_hematologic(139;0.0748)|Hepatocellular(293;0.137)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.65e-111)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.014)|COAD - Colon adenocarcinoma(134;0.141)|STAD - Stomach adenocarcinoma(1183;0.18)		CCATCGATCTCTGTTCCCTGC	0.393																																																0													168	152	157					2																	232322444		2203	4300	6503	SO:0001583	missense	4691				CCDS33397.1	2q37.1	2013-09-19			ENSG00000115053	ENSG00000115053		"RNA binding motif (RRM) containing"	7667	protein-coding gene	gene with protein product		164035				2394707, 3409881	Standard	NM_005381		Approved	C23	uc002vru.3	P19338	OTTHUMG00000153866	ENST00000322723.4:c.1357G>A	2.37:g.232322444C>T	ENSP00000318195:p.Glu453Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q53SK1|Q8NB06|Q9UCF0|Q9UDG1	Missense_Mutation	SNP	ENST00000322723.4	37	CCDS33397.1	.	.	.	.	.	.	.	.	.	.	C	35	5.498117	0.96355	.	.	ENSG00000115053	ENST00000322723;ENST00000392033;ENST00000322732;ENST00000356936	T;T	0.15718	2.4;2.4	5.49	5.49	0.81192	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.044956	0.85682	D	0.000000	T	0.27594	0.0678	N	0.13140	0.3	0.80722	D	1	D	0.61697	0.99	D	0.77004	0.989	T	0.11817	-1.0572	10	0.51188	T	0.08	-23.3514	18.4237	0.90602	0.0:1.0:0.0:0.0	.	453	P19338	NUCL_HUMAN	K	453;345;225;54	ENSP00000318195:E453K;ENSP00000349410:E54K	ENSP00000318195:E453K	E	-	1	0	NCL	232030688	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.087000	0.76893	2.587000	0.87381	0.558000	0.71614	GAG		0.393	NCL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000332731.1	NM_005381		T	232322444	C	T	232322444	3	4	680	1	0	0	0	0	1	0	0	0	10233	922	32	2	799	2	NCL	2	232322444	Missense_Mutation	SNP	C	TCGA-KO-8409-01A-11D-2310-10	32185460	232322444	10876929	17	43994										
SMARCC1	6599	bcgsc.ca	37	chr3	47651783	47651783	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gttccatgtggaagttttggCgttcagtaagcaactgctgc	12	8	1	0			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr3:47651783C>G	ENST00000254480.5	-	26	2935	c.2816G>C	c.(2815-2817)cGc>cCc	p.R939P	SMARCC1_ENST00000425518.1_5'UTR	NM_003074.3	NP_003065.3	Q92922	SMRC1_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1	939					ATP-dependent chromatin remodeling (GO:0043044)|chromatin remodeling (GO:0006338)|insulin receptor signaling pathway (GO:0008286)|nervous system development (GO:0007399)|nucleosome disassembly (GO:0006337)|organ morphogenesis (GO:0009887)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|protein complex (GO:0043234)|SWI/SNF complex (GO:0016514)|XY body (GO:0001741)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|protein N-terminus binding (GO:0047485)|transcription coactivator activity (GO:0003713)			breast(1)|endometrium(5)|kidney(2)|large_intestine(3)|lung(15)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	33				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		GAAGTTTTGGCGTTCAGTAAG	0.478																																																0													240	217	225					3																	47651783		2203	4300	6503	SO:0001583	missense	6599			U66615	CCDS2758.1	3p21.31	2008-05-15			ENSG00000173473	ENSG00000173473			11104	protein-coding gene	gene with protein product		601732				8804307	Standard	NM_003074		Approved	BAF155, SRG3, Rsc8, CRACC1	uc003crq.2	Q92922	OTTHUMG00000133519	ENST00000254480.5:c.2816G>C	3.37:g.47651783C>G	ENSP00000254480:p.Arg939Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RS0|Q6P172|Q8IWH2	Missense_Mutation	SNP	ENST00000254480.5	37	CCDS2758.1	.	.	.	.	.	.	.	.	.	.	C	18.37	3.609456	0.66558	.	.	ENSG00000173473	ENST00000254480	T	0.26810	1.71	6.06	6.06	0.98353	.	0.167377	0.53938	D	0.000049	T	0.63838	0.2545	M	0.92738	3.34	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.71013	-0.4715	10	0.87932	D	0	-4.7931	19.6164	0.95636	0.0:1.0:0.0:0.0	.	939	Q92922	SMRC1_HUMAN	P	939	ENSP00000254480:R939P	ENSP00000254480:R939P	R	-	2	0	SMARCC1	47626787	1.000000	0.71417	0.999000	0.59377	0.026000	0.11368	7.783000	0.85696	2.871000	0.98454	0.655000	0.94253	CGC		0.478	SMARCC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257491.1			G	47651783	C	G	47651783	3	3	680	1	0	0	0	0	1	0	0	0	14788	768	27	4	513	4	SMARCC1	3	47651783	Missense_Mutation	SNP	C	TCGA-KO-8409-01A-11D-2310-10		47651783	150370647	18	43995										
TSC22D2	9819	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr3	150127405	150127405	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ccgtctccccaaacctcctcCtagatgggcagctggcagcg	10	17	1	1			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr3:150127405C>T	ENST00000361875.3	+	1	1284	c.268C>T	c.(268-270)Cta>Tta	p.L90L	TSC22D2_ENST00000361136.2_Silent_p.L90L	NM_014779.2	NP_055594.1	O75157	T22D2_HUMAN	TSC22 domain family, member 2	90					response to osmotic stress (GO:0006970)		sequence-specific DNA binding transcription factor activity (GO:0003700)			cervix(2)|endometrium(2)|kidney(1)|large_intestine(3)|lung(8)|ovary(1)|upper_aerodigestive_tract(1)	18			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			AAACCTCCTCCTAGATGGGCA	0.662																																																0													17	20	19					3																	150127405		2203	4298	6501	SO:0001819	synonymous_variant	9819			AB014569	CCDS3149.1	3q25.1	2005-03-01			ENSG00000196428	ENSG00000196428			29095	protein-coding gene	gene with protein product						9734811	Standard	NM_014779		Approved	KIAA0669, TILZ4a, TILZ4b, TILZ4c	uc003exv.3	O75157	OTTHUMG00000159744	ENST00000361875.3:c.268C>T	3.37:g.150127405C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DNI5|Q6PI50|Q9H2Z6|Q9H2Z7|Q9H2Z8	Silent	SNP	ENST00000361875.3	37	CCDS3149.1																																																																																				0.662	TSC22D2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000357123.2	NM_014779		T	150127405	C	T	150127405	2	4	680	1	0	0	0	0	0	0	0	1	16620	680	24	2		2	TSC22D2	3	150127405	Silent	SNP	C	TCGA-KO-8409-01A-11D-2310-10	102475622	150127405	47895025	19	43996										
CPZ	8532	mdanderson.org	37	chr4	8594574	8594574	+	Missense_Mutation	SNP	T	T	C													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ccccaccatgccgcccccgcTgccgctgctgctccttacag					rs2302583	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr4:8594574T>C	ENST00000360986.4	+	1	188	c.14T>C	c.(13-15)cTg>cCg	p.L5P	CPZ_ENST00000506287.1_3'UTR|CPZ_ENST00000382480.2_5'UTR|CPZ_ENST00000315782.6_Missense_Mutation_p.L5P	NM_001014447.2	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z	5			L -> P (in dbSNP:rs2302583). {ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:9099699}.		proteolysis (GO:0006508)|Wnt signaling pathway (GO:0016055)	extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)	metallocarboxypeptidase activity (GO:0004181)|zinc ion binding (GO:0008270)	p.L5delL(1)		cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(23)|ovary(3)|pancreas(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	46						CCGCCCCCGCTGCCGCTGCTG	0.761													C|||	4037	0.80611	0.8283	0.8761	5008	,	,		9685	0.9127		0.7406	False		,,,				2504	0.684															1	Deletion - In frame(1)	upper_aerodigestive_tract(1)											2	3	3					4																	8594574		1502	3213	4715	SO:0001583	missense	8532			U83411	CCDS3404.1, CCDS33953.1, CCDS43212.1	4p16.1	2012-02-10			ENSG00000109625	ENSG00000109625			2333	protein-coding gene	gene with protein product	"metallocarboxypeptidase Z"	603105				9099699	Standard	NM_001014447		Approved		uc003glm.3	Q66K79	OTTHUMG00000090513	ENST00000360986.4:c.14T>C	4.37:g.8594574T>C	ENSP00000354255:p.Leu5Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O00520|Q96MX2	Missense_Mutation	SNP	ENST00000360986.4	37	CCDS33953.1	1777	0.8136446886446886	382	0.7764227642276422	312	0.861878453038674	522	0.9125874125874126	561	0.7401055408970977	C	3.283	-0.146655	0.06627	.	.	ENSG00000109625	ENST00000360986;ENST00000315782	T;T	0.59906	0.56;0.23	1.98	1.1	0.20463	.	4.658350	0.01367	N	0.012429	T	0.00012	0.0000	N	0.08118	0	0.58432	P	2.9999999999752447E-6	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.48210	-0.9055	9	0.49607	T	0.09	.	2.6287	0.04938	0.2816:0.5468:0.0:0.1716	rs2302583;rs56744501	5;5	Q66K79-2;Q66K79	.;CBPZ_HUMAN	P	5	ENSP00000354255:L5P;ENSP00000315074:L5P	ENSP00000315074:L5P	L	+	2	0	CPZ	8645474	0.000000	0.05858	0.003000	0.11579	0.045000	0.14185	-0.680000	0.05197	0.000000	0.14550	-0.355000	0.07637	CTG		0.761	CPZ-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000207001.4	NM_003652		C	8594574	T	C	8594574	3	2	680	1	0	0	0	0	1	0	0	0	3841	1580	55	3	16	3	CPZ	4	8594574	Missense_Mutation	SNP	T	TCGA-KO-8409-01A-11D-2310-10		8594574	182559702	20	43997	455	2								
CPZ	8532	mdanderson.org	37	chr4	8594577	8594577	+	Missense_Mutation	SNP	C	C	T													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	caccatgccgcccccgctgcCgctgctgctccttacagtcc					rs34964084	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr4:8594577C>T	ENST00000360986.4	+	1	191	c.17C>T	c.(16-18)cCg>cTg	p.P6L	CPZ_ENST00000506287.1_3'UTR|CPZ_ENST00000382480.2_5'UTR|CPZ_ENST00000315782.6_Missense_Mutation_p.P6L	NM_001014447.2	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z	6			P -> L (in dbSNP:rs34964084). {ECO:0000269|PubMed:9099699}.		proteolysis (GO:0006508)|Wnt signaling pathway (GO:0016055)	extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)	metallocarboxypeptidase activity (GO:0004181)|zinc ion binding (GO:0008270)			cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(23)|ovary(3)|pancreas(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	46						CCCCCGCTGCCGCTGCTGCTC	0.756													C|||	655	0.130791	0.025	0.1931	5008	,	,		9673	0.1617		0.2366	False		,,,				2504	0.089															0								C	,LEU/PRO,LEU/PRO	101,2957		1,99,1429	2	3	3		,17,17	-0.6	0	4	dbSNP_126	3	811,5659		38,735,2462	no	utr-5,missense,missense	CPZ	NM_001014448.2,NM_003652.3,NM_001014447.2	,98,98	39,834,3891	TT,TC,CC		12.5348,3.3028,9.5718	,benign,benign	,6/642,6/653	8594577	912,8616	1529	3235	4764	SO:0001583	missense	8532			U83411	CCDS3404.1, CCDS33953.1, CCDS43212.1	4p16.1	2012-02-10			ENSG00000109625	ENSG00000109625			2333	protein-coding gene	gene with protein product	"metallocarboxypeptidase Z"	603105				9099699	Standard	NM_001014447		Approved		uc003glm.3	Q66K79	OTTHUMG00000090513	ENST00000360986.4:c.17C>T	4.37:g.8594577C>T	ENSP00000354255:p.Pro6Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O00520|Q96MX2	Missense_Mutation	SNP	ENST00000360986.4	37	CCDS33953.1	352	0.16117216117216118	16	0.032520325203252036	78	0.2154696132596685	77	0.1346153846153846	181	0.23878627968337732	C	0.003	-2.482788	0.00163	0.033028	0.125348	ENSG00000109625	ENST00000360986;ENST00000315782	T;T	0.56776	0.68;0.44	1.87	-0.596	0.11657	.	2.196060	0.02795	N	0.122470	T	0.00012	0.0000	N	0.14661	0.345	0.38383	P	0.054822999999999955	B;B	0.09022	0.002;0.001	B;B	0.01281	0.0;0.0	T	0.06826	-1.0805	9	0.02654	T	1	.	4.365	0.11220	0.0:0.4294:0.0:0.5706	rs34964084	6;6	Q66K79-2;Q66K79	.;CBPZ_HUMAN	L	6	ENSP00000354255:P6L;ENSP00000315074:P6L	ENSP00000315074:P6L	P	+	2	0	CPZ	8645477	0.001000	0.12720	0.014000	0.15608	0.073000	0.16967	0.039000	0.13884	-0.198000	0.10333	-0.379000	0.06801	CCG		0.756	CPZ-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000207001.4	NM_003652		T	8594577	C	T	8594577	3	4	680	1	0	0	0	0	1	0	0	0	3841	652	23	1	19	1	CPZ	4	8594577	Missense_Mutation	SNP	C	TCGA-KO-8409-01A-11D-2310-10	3	8594577	182559699	21	43998	455	2								
G3BP2	9908	broad.mit.edu	37	chr4	76570758	76570758	+	Frame_Shift_Del	DEL	A	A	-													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	cccacaattccacgtggaccAccgggacctcgatcattgcg							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr4:76570758delA	ENST00000359707.4	-	12	2090	c.1305delT	c.(1303-1305)ggtfs	p.G436fs	G3BP2_ENST00000395719.3_Frame_Shift_Del_p.G436fs|G3BP2_ENST00000357854.3_Frame_Shift_Del_p.G403fs	NM_203505.2	NP_987101.1	Q9UN86	G3BP2_HUMAN	GTPase activating protein (SH3 domain) binding protein 2	436	Gly-rich.				cytoplasmic sequestering of NF-kappaB (GO:0007253)|mRNA transport (GO:0051028)|Ras protein signal transduction (GO:0007265)	cytoplasm (GO:0005737)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|receptor signaling complex scaffold activity (GO:0030159)			breast(3)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(6)|upper_aerodigestive_tract(3)|urinary_tract(2)	27			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			CACGTGGACCACCGGGACCTC	0.522																																																0													267	208	228					4																	76570758		2203	4300	6503	SO:0001589	frameshift_variant	9908			AB014560	CCDS3571.1, CCDS3572.1	4q21.1	2013-02-12	2006-11-01		ENSG00000138757	ENSG00000138757		"RNA binding motif (RRM) containing"	30291	protein-coding gene	gene with protein product	"Ras-GTPase activating protein SH3 domain-binding protein 2"					9734811, 9575347	Standard	NM_203504		Approved	KIAA0660	uc003his.3	Q9UN86	OTTHUMG00000130097	ENST00000359707.4:c.1305delT	4.37:g.76570758delA	ENSP00000352738:p.Gly436fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6X1|O60606|O75149|Q9UPA1	Frame_Shift_Del	DEL	ENST00000359707.4	37	CCDS3571.1																																																																																				0.522	G3BP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252399.2	NM_012297		-	76570758	A	-	76570758	7	5	680	1	0	1	0	1	0	0	0	0	6149	146	6	0	147	0	G3BP2	4	76570758	Frame_Shift_Del	DEL	A	TCGA-KO-8409-01A-11D-2310-10	67976181	76570758	114583518	22	43999										
ANTXR2	118429	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr4	80954628	80954628	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	agattactggggacctactcGttgtatatgtttcatttaca	8	7	1	1	rs529468896		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr4:80954628G>A	ENST00000307333.7	-	9	796	c.794C>T	c.(793-795)aCg>aTg	p.T265M	ANTXR2_ENST00000404191.1_Missense_Mutation_p.T188M|ANTXR2_ENST00000346652.6_Intron|ANTXR2_ENST00000295465.4_Missense_Mutation_p.T265M|ANTXR2_ENST00000403729.2_Missense_Mutation_p.T265M	NM_001145794.1	NP_001139266.1	P58335	ANTR2_HUMAN	anthrax toxin receptor 2	265					reproductive process (GO:0022414)	endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|receptor activity (GO:0004872)			endometrium(2)|kidney(1)|large_intestine(2)|lung(7)|ovary(1)	13						GGACCTACTCGTTGTATATGT	0.393									Juvenile Hyaline Fibromatosis																																							0													88	85	86					4																	80954628		1900	4128	6028	SO:0001583	missense	118429	Familial Cancer Database	incl. Infantile Systemic Hyalinosis	AY040326	CCDS47085.1, CCDS47086.1, CCDS68733.1	4q21.3	2004-01-15			ENSG00000163297	ENSG00000163297			21732	protein-coding gene	gene with protein product	"capillary morphogenesis protein 2"	608041				11683410, 12700348	Standard	NM_058172		Approved	CMG2, CMG-2, FLJ31074	uc003hlz.4	P58335	OTTHUMG00000151982	ENST00000307333.7:c.794C>T	4.37:g.80954628G>A	ENSP00000306185:p.Thr265Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5H6|Q59E98|Q5JPE9|Q86UI1|Q8N4J8|Q8NB13|Q96NC7	Missense_Mutation	SNP	ENST00000307333.7	37	CCDS47086.1	.	.	.	.	.	.	.	.	.	.	G	5.659	0.306184	0.10733	.	.	ENSG00000163297	ENST00000403729;ENST00000404191;ENST00000307333;ENST00000295465	D;D;D;D	0.85773	-2.03;-2.03;-2.03;-2.03	5.71	-2.12	0.07165	Anthrax toxin receptor, extracellular (1);	1.064330	0.07177	N	0.853341	T	0.66107	0.2756	N	0.08118	0	0.09310	N	1	B;B	0.15930	0.015;0.008	B;B	0.12837	0.008;0.005	T	0.51980	-0.8636	10	0.37606	T	0.19	-3.045	3.0427	0.06143	0.5656:0.0806:0.1079:0.2459	.	265;265	P58335;P58335-4	ANTR2_HUMAN;.	M	265;188;265;265	ENSP00000385575:T265M;ENSP00000384028:T188M;ENSP00000306185:T265M;ENSP00000295465:T265M	ENSP00000295465:T265M	T	-	2	0	ANTXR2	81173652	0.000000	0.05858	0.072000	0.20136	0.218000	0.24690	-0.664000	0.05292	-0.133000	0.11537	-0.347000	0.07816	ACG		0.393	ANTXR2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000324663.1	NM_058172		A	80954628	G	A	80954628	3	1	680	1	0	0	0	0	1	0	0	0	712	1145	40	1	750	1	ANTXR2	4	80954628	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10	4383870	80954628	110199648	23	44000										
PDHA2	5161	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	96761794	96761794	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tctatgggggcaatggcatcGtcggtgcacagggccccctg	15	12	1	0			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr4:96761794G>A	ENST00000295266.4	+	1	556	c.493G>A	c.(493-495)Gtc>Atc	p.V165I		NM_005390.4	NP_005381.1	P29803	ODPAT_HUMAN	pyruvate dehydrogenase (lipoamide) alpha 2	165					glucose metabolic process (GO:0006006)|glycolytic process (GO:0006096)|pyruvate metabolic process (GO:0006090)|tricarboxylic acid cycle (GO:0006099)	mitochondrion (GO:0005739)|nucleus (GO:0005634)	pyruvate dehydrogenase (acetyl-transferring) activity (GO:0004739)	p.V165I(1)		NS(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(11)|lung(23)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	46		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)		CAATGGCATCGTCGGTGCACA	0.507																																																1	Substitution - Missense(1)	lung(1)											69	71	71					4																	96761794		2203	4300	6503	SO:0001583	missense	5161				CCDS3644.1	4q22-q23	2009-11-09			ENSG00000163114	ENSG00000163114	1.2.4.1		8807	protein-coding gene	gene with protein product		179061		PDHAL			Standard	NM_005390		Approved		uc003htr.4	P29803	OTTHUMG00000130990	ENST00000295266.4:c.493G>A	4.37:g.96761794G>A	ENSP00000295266:p.Val165Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9Q3|Q0VDI5|Q4VC02|Q6NXQ1	Missense_Mutation	SNP	ENST00000295266.4	37	CCDS3644.1	.	.	.	.	.	.	.	.	.	.	G	14.85	2.659398	0.47467	.	.	ENSG00000163114	ENST00000295266	D	0.95853	-3.83	4.67	4.67	0.58626	Dehydrogenase, E1 component (1);	0.000000	0.85682	D	0.000000	D	0.93367	0.7885	M	0.68952	2.095	0.80722	D	1	P	0.43750	0.816	B	0.34873	0.191	D	0.94488	0.7699	10	0.87932	D	0	-1.6001	15.4624	0.75369	0.0:0.0:1.0:0.0	.	165	P29803	ODPAT_HUMAN	I	165	ENSP00000295266:V165I	ENSP00000295266:V165I	V	+	1	0	PDHA2	96980817	1.000000	0.71417	0.849000	0.33467	0.107000	0.19398	8.809000	0.91944	2.587000	0.87381	0.467000	0.42956	GTC		0.507	PDHA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253608.1			A	96761794	G	A	96761794	3	1	680	1	0	0	0	0	1	0	0	0	11672	1145	40	1	495	1	PDHA2	4	96761794	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10	15807166	96761794	94392482	24	44001										
NEUROG2	63973	mdanderson.org	37	chr4	113436044	113436044	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ctgctcagggcggcgctggcTcctcccgggctcagcaacac	13	17	2	0	rs901474	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr4:113436044T>G	ENST00000313341.3	-	2	914	c.588A>C	c.(586-588)ggA>ggC	p.G196G	RP11-402J6.1_ENST00000504009.1_RNA|RP11-402J6.1_ENST00000506057.1_RNA	NM_024019.3	NP_076924.1	Q9H2A3	NGN2_HUMAN	neurogenin 2	196					axon guidance (GO:0007411)|cell fate commitment (GO:0045165)|cell maturation (GO:0048469)|central nervous system neuron development (GO:0021954)|forebrain development (GO:0030900)|neuron migration (GO:0001764)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	E-box binding (GO:0070888)|sequence-specific DNA binding (GO:0043565)			central_nervous_system(1)|large_intestine(3)|lung(6)|skin(2)	12		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.00168)		CGGCGCTGGCTCCTCCCGGGC	0.731													G|||	4797	0.957867	0.9955	0.9337	5008	,	,		9350	1.0		0.8628	False		,,,				2504	0.9785															0								G		4270,104		2083,104,0	17	21	19		588	-1.3	0	4	dbSNP_86	19	7351,1195		3177,997,99	no	coding-synonymous	NEUROG2	NM_024019.2		5260,1101,99	GG,GT,TT		13.9832,2.3777,10.0542		196/273	113436044	11621,1299	2187	4273	6460	SO:0001819	synonymous_variant	63973			AF303002	CCDS3698.1	4q25	2013-05-21			ENSG00000178403	ENSG00000178403		"Basic helix-loop-helix proteins"	13805	protein-coding gene	gene with protein product		606624					Standard	NM_024019		Approved	Atoh4, Math4A, ngn-2, bHLHa8, NGN2	uc003ias.3	Q9H2A3	OTTHUMG00000132907	ENST00000313341.3:c.588A>C	4.37:g.113436044T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N416	Silent	SNP	ENST00000313341.3	37	CCDS3698.1																																																																																				0.731	NEUROG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256414.1	NM_024019		G	113436044	T	G	113436044	2	3	680	1	0	0	0	0	0	0	0	1	10360	1538	54	5		5	NEUROG2	4	113436044	Silent	SNP	T	TCGA-KO-8409-01A-11D-2310-10	16674250	113436044	77718232	25	44002										
FRG1	2483	mdanderson.org	37	chr4	190873379	190873379	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ccatagccattgaaatggatAagggaacctatatacatgca	8	8	0	1	rs112612436		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr4:190873379A>G	ENST00000226798.4	+	3	418	c.196A>G	c.(196-198)Aag>Gag	p.K66E	FRG1_ENST00000514482.1_3'UTR	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1	66			K -> E (in dbSNP:rs17406826).		mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)	p.K66E(1)		NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		TGAAATGGATAAGGGAACCTA	0.383																																																1	Substitution - Missense(1)	skin(1)											101	115	110					4																	190873379		2203	4298	6501	SO:0001583	missense	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.196A>G	4.37:g.190873379A>G	ENSP00000226798:p.Lys66Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Missense_Mutation	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	.	11.33	1.608104	0.28623	.	.	ENSG00000109536	ENST00000226798;ENST00000531991	T;T	0.44083	2.07;0.93	3.47	2.23	0.28157	Actin cross-linking (1);	0.148940	0.64402	D	0.000013	T	0.29288	0.0729	L	0.52011	1.625	0.42341	D	0.992332	B	0.02656	0.0	B	0.04013	0.001	T	0.10314	-1.0635	10	0.06757	T	0.87	-8.6418	8.2577	0.31766	0.7983:0.2017:0.0:0.0	rs17406826	66	Q14331	FRG1_HUMAN	E	66;3	ENSP00000226798:K66E;ENSP00000435943:K3E	ENSP00000226798:K66E	K	+	1	0	FRG1	191110373	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	2.931000	0.48932	0.668000	0.31126	0.441000	0.28932	AAG		0.383	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477		G	190873379	A	G	190873379	3	3	680	1	0	0	0	0	1	0	0	0	6053	363	13	3	206	3	FRG1	4	190873379	Missense_Mutation	SNP	A	TCGA-KO-8409-01A-11D-2310-10	77437335	190873379	280897	26	44003										
RNF145	153830	mdanderson.org	37	chr5	158630641	158630641	+	5'UTR	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gccatgttgtttttttttttCtttttttttttcttggagaa	6	4	2	1	rs74770414|rs74841177|rs368977591		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr5:158630641C>T	ENST00000424310.2	-	0	344				RNF145_ENST00000519865.1_5'UTR|RNF145_ENST00000274542.2_Silent_p.K23K|RNF145_ENST00000521606.2_Silent_p.K12K|RNF145_ENST00000520638.1_Silent_p.K9K|RNF145_ENST00000518802.1_Silent_p.K25K	NM_001199383.1	NP_001186312.1	Q96MT1	RN145_HUMAN	ring finger protein 145							integral component of membrane (GO:0016021)	zinc ion binding (GO:0008270)			endometrium(7)|kidney(2)|large_intestine(5)|lung(9)|ovary(3)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	30	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ttttttttttctttttttttt	0.363																																																0													32	34	33					5																	158630641		2203	4300	6503	SO:0001623	5_prime_UTR_variant	153830			BC042684	CCDS4344.1, CCDS56390.1, CCDS56391.1, CCDS56392.1, CCDS56393.1	5q33.3	2013-01-09			ENSG00000145860	ENSG00000145860		"RING-type (C3HC4) zinc fingers"	20853	protein-coding gene	gene with protein product							Standard	NM_001199380		Approved	FLJ31951	uc003lxo.2	Q96MT1	OTTHUMG00000130306	ENST00000424310.2:c.-16G>A	5.37:g.158630641C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z903|B7Z949|E7EVI7|Q8IVP7	Silent	SNP	ENST00000424310.2	37	CCDS56390.1																																																																																				0.363	RNF145-002	PUTATIVE	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374048.1	NM_144726		T	158630641	C	T	158630641	1	4	680	0	1	0	0	0	0	0	0	0	13460	912	32	2		2	RNF145	5	158630641	5'UTR	SNP	C	TCGA-KO-8409-01A-11D-2310-10		158630641	22284619	27	44004										
GABRB2	2561	hgsc.bcm.edu	37	chr5	160886707	160886709	+	In_Frame_Del	DEL	CTT	CTT	-													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gtcactccgtgcacaaatgaCttcttatcgttcaggaaata							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr5:160886707_160886709delCTT	ENST00000393959.1	-	4	378_380	c.379_381delAAG	c.(379-381)aagdel	p.K127del	GABRB2_ENST00000353437.6_In_Frame_Del_p.K127del|GABRB2_ENST00000274547.2_In_Frame_Del_p.K127del|GABRB2_ENST00000517547.1_Intron|GABRB2_ENST00000517901.1_In_Frame_Del_p.K64del|GABRB2_ENST00000520240.1_In_Frame_Del_p.K127del			P47870	GBRB2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta 2	127					cellular response to histamine (GO:0071420)|chloride transmembrane transport (GO:1902476)|cochlea development (GO:0090102)|gamma-aminobutyric acid signaling pathway (GO:0007214)|inner ear receptor cell development (GO:0060119)|innervation (GO:0060384)|ion transmembrane transport (GO:0034220)|negative regulation of neuron apoptotic process (GO:0043524)|sensory perception of sound (GO:0007605)|synaptic transmission (GO:0007268)|synaptic transmission, GABAergic (GO:0051932)|transmembrane transport (GO:0055085)|transport (GO:0006810)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|GABA-A receptor complex (GO:1902711)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	chloride channel activity (GO:0005254)|GABA-A receptor activity (GO:0004890)|inhibitory extracellular ligand-gated ion channel activity (GO:0005237)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(6)|liver(1)|lung(9)|soft_tissue(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	26	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)		Acamprosate(DB00659)|Adinazolam(DB00546)|Alprazolam(DB00404)|Amoxapine(DB00543)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Chlordiazepoxide(DB00475)|Cinolazepam(DB01594)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Clotiazepam(DB01559)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Fludiazepam(DB01567)|Flumazenil(DB01205)|Flurazepam(DB00690)|Fospropofol(DB06716)|Ginkgo biloba(DB01381)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Topiramate(DB00273)|Triazolam(DB00897)	GCACAAATGACTTCTTATCGTTC	0.458																																																0																																										SO:0001651	inframe_deletion	2561				CCDS4354.1, CCDS4355.1	5q34	2012-06-22			ENSG00000145864	ENSG00000145864		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4082	protein-coding gene	gene with protein product	"GABA(A) receptor, beta 2"	600232				7851879	Standard	NM_000813		Approved		uc003lys.1	P47870	OTTHUMG00000130349	ENST00000393959.1:c.379_381delAAG	5.37:g.160886710_160886712delCTT	ENSP00000377531:p.Lys127del	Somatic		WXS	Illumina HiSeq	Phase_I	A8K115|A8K1A0|D1LYT0|D1LYT1|Q16323|Q4FZB2	In_Frame_Del	DEL	ENST00000393959.1	37	CCDS4355.1																																																																																				0.458	GABRB2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252704.1			-	160886709	CTT	-	160886707	7	5	680	1	0	1	0	1	0	0	0	0	6174	564	20	0	1185	0	GABRB2	5	160886707	In_Frame_Del	DEL	CTT	TCGA-KO-8409-01A-11D-2310-10	2256066	160886707	20028553	28	44005	456	2								
GABRB2	2561	bcgsc.ca	37	chr5	160886708	160886710	+	In_Frame_Del	DEL	CTT	CTT	-													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tcactccgtgcacaaatgacTtcttatcgttcaggaaatag							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr5:160886708_160886710delCTT	ENST00000393959.1	-	4	377_379	c.378_380delAAG	c.(376-381)aaaagg>aag	p.R127del	GABRB2_ENST00000353437.6_In_Frame_Del_p.R127del|GABRB2_ENST00000274547.2_In_Frame_Del_p.R127del|GABRB2_ENST00000517547.1_Intron|GABRB2_ENST00000517901.1_In_Frame_Del_p.R64del|GABRB2_ENST00000520240.1_In_Frame_Del_p.R127del			P47870	GBRB2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta 2	127					cellular response to histamine (GO:0071420)|chloride transmembrane transport (GO:1902476)|cochlea development (GO:0090102)|gamma-aminobutyric acid signaling pathway (GO:0007214)|inner ear receptor cell development (GO:0060119)|innervation (GO:0060384)|ion transmembrane transport (GO:0034220)|negative regulation of neuron apoptotic process (GO:0043524)|sensory perception of sound (GO:0007605)|synaptic transmission (GO:0007268)|synaptic transmission, GABAergic (GO:0051932)|transmembrane transport (GO:0055085)|transport (GO:0006810)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|GABA-A receptor complex (GO:1902711)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	chloride channel activity (GO:0005254)|GABA-A receptor activity (GO:0004890)|inhibitory extracellular ligand-gated ion channel activity (GO:0005237)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(6)|liver(1)|lung(9)|soft_tissue(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	26	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)		Acamprosate(DB00659)|Adinazolam(DB00546)|Alprazolam(DB00404)|Amoxapine(DB00543)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Chlordiazepoxide(DB00475)|Cinolazepam(DB01594)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Clotiazepam(DB01559)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Fludiazepam(DB01567)|Flumazenil(DB01205)|Flurazepam(DB00690)|Fospropofol(DB06716)|Ginkgo biloba(DB01381)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Topiramate(DB00273)|Triazolam(DB00897)	CACAAATGACTTCTTATCGTTCA	0.458																																																0																																										SO:0001651	inframe_deletion	2561				CCDS4354.1, CCDS4355.1	5q34	2012-06-22			ENSG00000145864	ENSG00000145864		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4082	protein-coding gene	gene with protein product	"GABA(A) receptor, beta 2"	600232				7851879	Standard	NM_000813		Approved		uc003lys.1	P47870	OTTHUMG00000130349	ENST00000393959.1:c.378_380delAAG	5.37:g.160886708_160886710delCTT	ENSP00000377531:p.Arg127del	Somatic		WXS	Illumina HiSeq	Phase_I	A8K115|A8K1A0|D1LYT0|D1LYT1|Q16323|Q4FZB2	In_Frame_Del	DEL	ENST00000393959.1	37	CCDS4355.1																																																																																				0.458	GABRB2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252704.1			-	160886710	CTT	-	160886708	7	5	680	1	0	1	0	1	0	0	0	0	6174	1609	56	0	1186	0	GABRB2	5	160886708	In_Frame_Del	DEL	CTT	TCGA-KO-8409-01A-11D-2310-10	1	160886708	20028552	29	44006	456	2								
CAP2	10486	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr6	17507412	17507412	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gcttacagaatgacgtggccGcacttctgaaacccatatcg	9	12	1	3			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr6:17507412G>A	ENST00000229922.2	+	5	845	c.313G>A	c.(313-315)Gca>Aca	p.A105T	CAP2_ENST00000465994.1_Missense_Mutation_p.A105T|CAP2_ENST00000493172.1_Intron|CAP2_ENST00000378990.2_Missense_Mutation_p.A79T|CAP2_ENST00000489374.1_Intron	NM_006366.2	NP_006357.1	P40123	CAP2_HUMAN	CAP, adenylate cyclase-associated protein, 2 (yeast)	105					activation of adenylate cyclase activity (GO:0007190)|axon guidance (GO:0007411)|cytoskeleton organization (GO:0007010)|establishment or maintenance of cell polarity (GO:0007163)|signal transduction (GO:0007165)	plasma membrane (GO:0005886)		p.A105T(1)		breast(3)|endometrium(4)|kidney(1)|large_intestine(6)|lung(7)|ovary(1)|skin(4)|urinary_tract(1)	27	Breast(50;0.0333)|Ovarian(93;0.0386)	all_hematologic(90;0.0466)	all cancers(50;0.194)|Epithelial(50;0.227)			TGACGTGGCCGCACTTCTGAA	0.473																																																1	Substitution - Missense(1)	lung(1)											73	74	74					6																	17507412		2203	4300	6503	SO:0001583	missense	10486			BC008481	CCDS4539.1	6p22.3	2008-02-05			ENSG00000112186	ENSG00000112186			20039	protein-coding gene	gene with protein product						7962207, 8761950	Standard	NM_006366		Approved		uc003ncb.3	P40123	OTTHUMG00000014311	ENST00000229922.2:c.313G>A	6.37:g.17507412G>A	ENSP00000229922:p.Ala105Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5Y3|B7Z1C4|B7Z214|Q6IAY2	Missense_Mutation	SNP	ENST00000229922.2	37	CCDS4539.1	.	.	.	.	.	.	.	.	.	.	G	0.547	-0.850919	0.02651	.	.	ENSG00000112186	ENST00000229922;ENST00000378994;ENST00000378990;ENST00000465994	T;T;T	0.11821	2.74;2.74;2.74	5.38	0.545	0.17190	Adenylate cyclase-associated CAP, N-terminal (2);	0.434279	0.27289	N	0.020054	T	0.01353	0.0044	N	0.04805	-0.155	0.09310	N	1	B;B;B	0.11235	0.002;0.003;0.004	B;B;B	0.09377	0.003;0.004;0.003	T	0.47471	-0.9115	10	0.14656	T	0.56	-3.1059	6.7367	0.23413	0.3309:0.0:0.553:0.1162	.	105;79;105	B7Z1C4;E9PDI2;P40123	.;.;CAP2_HUMAN	T	105;105;79;105	ENSP00000229922:A105T;ENSP00000368275:A79T;ENSP00000418604:A105T	ENSP00000229922:A105T	A	+	1	0	CAP2	17615391	0.000000	0.05858	0.273000	0.24645	0.024000	0.10985	-0.057000	0.11768	0.012000	0.14892	-1.181000	0.01715	GCA		0.473	CAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039952.2			A	17507412	G	A	17507412	3	1	680	1	0	0	0	0	1	0	0	0	2622	1087	38	1	327	1	CAP2	6	17507412	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10		17507412	153607655	30	44007										
KIAA0319	9856	mdanderson.org	37	chr6	24551664	24551664	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ttctgcagactgtcttaccaTatttgggcctcagttccatt	7	11	3	1	rs807534	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr6:24551664T>C	ENST00000378214.3	-	20	3562	c.3038A>G	c.(3037-3039)tAt>tGt	p.Y1013C	KIAA0319_ENST00000537886.1_Intron|KIAA0319_ENST00000543707.1_Missense_Mutation_p.Y1013C|KIAA0319_ENST00000535378.1_Missense_Mutation_p.Y1004C|KIAA0319_ENST00000430948.2_Missense_Mutation_p.Y968C	NM_001168375.1|NM_014809.3	NP_001161847.1|NP_055624.2	Q5VV43	K0319_HUMAN	KIAA0319	1013			Y -> C (in dbSNP:rs807534).		negative regulation of dendrite development (GO:2000171)|neuron migration (GO:0001764)	early endosome (GO:0005769)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(3)|endometrium(6)|kidney(3)|large_intestine(11)|lung(19)|ovary(1)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)	53						TGTCTTACCATATTTGGGCCT	0.423													T|||	485	0.096845	0.0832	0.0922	5008	,	,		20835	0.0764		0.1272	False		,,,				2504	0.1084															0								T	CYS/TYR,CYS/TYR,CYS/TYR,,CYS/TYR	415,3991	202.1+/-225.0	20,375,1808	351	275	301		3011,3038,2903,,3038	0.2	1	6	dbSNP_86	301	1149,7451	235.7+/-268.2	75,999,3226	yes	missense,missense,missense,intron,missense	KIAA0319	NM_001168374.1,NM_001168375.1,NM_001168376.1,NM_001168377.1,NM_014809.3	194,194,194,,194	95,1374,5034	CC,CT,TT		13.3605,9.419,12.0252	probably-damaging,probably-damaging,probably-damaging,,probably-damaging	1004/1064,1013/1073,968/1028,,1013/1073	24551664	1564,11442	2203	4300	6503	SO:0001583	missense	9856			AB002317	CCDS34348.1, CCDS54969.1, CCDS54970.1, CCDS54971.1, CCDS75409.1	6p22.3	2013-12-13			ENSG00000137261	ENSG00000137261			21580	protein-coding gene	gene with protein product	"neuronal migration"	609269				9205841, 15514892	Standard	NM_014809		Approved	NMIG	uc003neh.1	Q5VV43	OTTHUMG00000014358	ENST00000378214.3:c.3038A>G	6.37:g.24551664T>C	ENSP00000367459:p.Tyr1013Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A7MD37|B2RTU7|B4DHA7|B4DK75|B7ZML3|F5H123|Q9UJC8|Q9Y4G7	Missense_Mutation	SNP	ENST00000378214.3	37	CCDS34348.1	220	0.10073260073260074	43	0.08739837398373984	40	0.11049723756906077	38	0.06643356643356643	99	0.13060686015831136	T	14.94	2.686305	0.47991	0.09419	0.133605	ENSG00000137261	ENST00000535378;ENST00000430948;ENST00000378214;ENST00000543707	T;T;T;T	0.07021	3.23;3.23;3.23;3.23	4.56	0.197	0.15164	.	0.307026	0.26855	N	0.022150	T	0.08403	0.0209	L	0.48362	1.52	0.28285	P	0.9238074000000001	D;D	0.89917	1.0;0.999	D;P	0.65874	0.939;0.87	T	0.09640	-1.0665	9	0.38643	T	0.18	-14.3463	10.4006	0.44227	0.3848:0.0:0.0:0.6152	rs807534;rs52812688;rs56987247;rs807534	1004;1013	Q5VV43-2;Q5VV43	.;K0319_HUMAN	C	1004;968;1013;1013	ENSP00000442403:Y1004C;ENSP00000401086:Y968C;ENSP00000367459:Y1013C;ENSP00000437656:Y1013C	ENSP00000367459:Y1013C	Y	-	2	0	KIAA0319	24659643	1.000000	0.71417	0.990000	0.47175	0.960000	0.62799	1.674000	0.37544	0.216000	0.20781	0.454000	0.30748	TAT		0.423	KIAA0319-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040009.1	NM_014809		C	24551664	T	C	24551664	3	2	680	1	0	0	0	0	1	0	0	0	8175	1406	49	3	188	3	KIAA0319	6	24551664	Missense_Mutation	SNP	T	TCGA-KO-8409-01A-11D-2310-10	7044252	24551664	146563403	31	44008										
OR2W1	26692	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr6	29012270	29012270	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gctggcttgcttttgacttcGttctcagcacagctttggca	10	11	1	1			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr6:29012270G>A	ENST00000377175.1	-	1	747	c.683C>T	c.(682-684)aCg>aTg	p.T228M		NM_030903.3	NP_112165.1	Q9Y3N9	OR2W1_HUMAN	olfactory receptor, family 2, subfamily W, member 1	228						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(1)|kidney(1)|large_intestine(6)|lung(12)|ovary(2)|skin(1)	23						TTTTGACTTCGTTCTCAGCAC	0.393																																																0													139	137	138					6																	29012270		1511	2709	4220	SO:0001583	missense	26692			AL035402	CCDS4656.1	6p22.1	2012-08-09			ENSG00000204704	ENSG00000204704		"GPCR / Class A : Olfactory receptors"	8281	protein-coding gene	gene with protein product							Standard	NM_030903		Approved	hs6M1-15	uc003nlw.2	Q9Y3N9	OTTHUMG00000031048	ENST00000377175.1:c.683C>T	6.37:g.29012270G>A	ENSP00000366380:p.Thr228Met	Somatic		WXS	Illumina HiSeq	Phase_I	B0S7Y5|Q5JNZ1|Q6IEU0|Q96R17|Q9GZL0|Q9GZL1	Missense_Mutation	SNP	ENST00000377175.1	37	CCDS4656.1	.	.	.	.	.	.	.	.	.	.	A	11.38	1.621816	0.28889	.	.	ENSG00000204704	ENST00000377175	T	0.00048	8.82	4.79	4.79	0.61399	GPCR, rhodopsin-like superfamily (1);	0.095158	0.46758	N	0.000274	T	0.00012	0.0000	N	0.00517	-1.405	0.09310	N	0.999994	B	0.02656	0.0	B	0.01281	0.0	T	0.27806	-1.0063	10	0.35671	T	0.21	.	9.4483	0.38710	0.914:0.0:0.086:0.0	.	228	Q9Y3N9	OR2W1_HUMAN	M	228	ENSP00000366380:T228M	ENSP00000366380:T228M	T	-	2	0	OR2W1	29120249	0.812000	0.29077	0.999000	0.59377	0.865000	0.49528	3.916000	0.56416	0.668000	0.31126	-0.332000	0.08345	ACG		0.393	OR2W1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076053.2			A	29012270	G	A	29012270	3	1	680	1	0	0	0	0	1	0	0	0	11039	1145	40	1	283	1	OR2W1	6	29012270	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10	4460606	29012270	142102797	32	44009										
OR2J3	442186	mdanderson.org	37	chr6	29080088	29080088	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	attacactgtcctcatgcacCctcgtttctgccacctgctg	6	16	2	0			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr6:29080088C>T	ENST00000377169.1	+	1	421	c.421C>T	c.(421-423)Cct>Tct	p.P141S		NM_001005216.2	NP_001005216.2	O76001	OR2J3_HUMAN	olfactory receptor, family 2, subfamily J, member 3	141						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(2)|large_intestine(5)|lung(13)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	24						CCTCATGCACCCTCGTTTCTG	0.517																																																0													385	415	405					6																	29080088		1399	2637	4036	SO:0001583	missense	442186				CCDS43433.1	6p22.2-p21.31	2012-08-09			ENSG00000204701	ENSG00000204701		"GPCR / Class A : Olfactory receptors"	8261	protein-coding gene	gene with protein product		615016					Standard	NM_001005216		Approved	OR6-6	uc011dll.2	O76001	OTTHUMG00000031092	ENST00000377169.1:c.421C>T	6.37:g.29080088C>T	ENSP00000366374:p.Pro141Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B0UY52|B9EH11|Q5SUJ7|Q6IF25|Q96R15|Q9GZK5|Q9GZL4|Q9GZL5	Missense_Mutation	SNP	ENST00000377169.1	37	CCDS43433.1	.	.	.	.	.	.	.	.	.	.	C	6.734	0.504144	0.12822	.	.	ENSG00000204701	ENST00000377169	T	0.01369	4.97	2.76	0.879	0.19155	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.00637	0.0021	L	0.53729	1.69	0.09310	N	1	P	0.42375	0.778	B	0.40009	0.316	T	0.48822	-0.9001	9	0.56958	D	0.05	.	2.4912	0.04610	0.367:0.3596:0.0:0.2735	.	141	O76001	OR2J3_HUMAN	S	141	ENSP00000366374:P141S	ENSP00000366374:P141S	P	+	1	0	OR2J3	29188067	0.000000	0.05858	0.988000	0.46212	0.150000	0.21749	-2.750000	0.00793	0.483000	0.27608	-0.466000	0.05196	CCT		0.517	OR2J3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076132.2			T	29080088	C	T	29080088	3	4	680	1	0	0	0	0	1	0	0	0	11011	623	22	2	423	2	OR2J3	6	29080088	Missense_Mutation	SNP	C	TCGA-KO-8409-01A-11D-2310-10	67818	29080088	142034979	33	44010										
HLA-C	3107	mdanderson.org	37	chr6	31239006	31239006	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gtccgcggcggtccaggagcGcaggtcctcgttcagggcga	17	13	1	0	rs76907552		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr6:31239006G>T	ENST00000376228.5	-	3	477	c.463C>A	c.(463-465)Cgc>Agc	p.R155S	HLA-C_ENST00000383329.3_Missense_Mutation_p.R155S	NM_002117.5	NP_002108.4	Q95604	1C17_HUMAN	major histocompatibility complex, class I, C	155	Alpha-2.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)	p.R155S(1)		central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(4)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)	17						GTCCAGGAGCGCAGGTCCTCG	0.697																																																1	Substitution - Missense(1)	skin(1)											35	27	30					6																	31239006		2178	4236	6414	SO:0001583	missense	3107			M11886	CCDS34393.1	6p21.3	2014-01-30			ENSG00000204525	ENSG00000204525		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4933	protein-coding gene	gene with protein product		142840	"psoriasis susceptibility 1"	HLA-JY3, D6S204, PSORS1		3863816, 16642438	Standard	NM_001243042		Approved		uc003nsy.3	P04222	OTTHUMG00000031154	ENST00000376228.5:c.463C>A	6.37:g.31239006G>T	ENSP00000365402:p.Arg155Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O02864|O02958|Q29643|Q9MY30	Missense_Mutation	SNP	ENST00000376228.5	37	CCDS34393.1	539|539	0.2467948717948718|0.2467948717948718	144|144	0.2926829268292683|0.2926829268292683	105|105	0.2900552486187845|0.2900552486187845	109|109	0.19055944055944055|0.19055944055944055	181|181	0.23878627968337732|0.23878627968337732	.|.	13.99|13.99	2.401987|2.401987	0.42613|0.42613	.|.	.|.	ENSG00000204525|ENSG00000204525	ENST00000415537|ENST00000376228;ENST00000383329;ENST00000396254;ENST00000539307	.|T;T	.|0.00753	.|5.74;5.74	2.81|2.81	0.177|0.177	0.15054|0.15054	.|MHC class I, alpha chain, alpha1/alpha2 (1);MHC classes I/II-like antigen recognition protein (1);MHC class I-like antigen recognition (1);	.|1.196610	.|0.06966	.|N	.|0.817182	T|T	0.01287|0.01287	0.0042|0.0042	M|M	0.71206|0.71206	2.165|2.165	0.42157|0.42157	P|P	0.008411999999999975|0.008411999999999975	.|D;B;D;B	.|0.63046	.|0.992;0.016;0.992;0.005	.|D;B;D;B	.|0.85130	.|0.997;0.103;0.997;0.049	T|T	0.46898|0.46898	-0.9158|-0.9158	4|9	.|0.54805	.|T	.|0.06	.|.	5.7525|5.7525	0.18154|0.18154	0.0:0.1715:0.3014:0.5271|0.0:0.1715:0.3014:0.5271	.|.	.|155;155;155;155	.|A2AEA4;A6H578;A2AEA2;P10321	.|.;.;.;1C07_HUMAN	E|S	154|155;155;155;192	.|ENSP00000365402:R155S;ENSP00000372819:R155S	.|ENSP00000365402:R155S	A|R	-|-	2|1	0|0	HLA-C|HLA-C	31346985|31346985	0.000000|0.000000	0.05858|0.05858	0.994000|0.994000	0.49952|0.49952	0.090000|0.090000	0.18270|0.18270	-1.467000|-1.467000	0.02352|0.02352	0.025000|0.025000	0.15241|0.15241	-0.692000|-0.692000	0.03713|0.03713	GCG|CGC		0.697	HLA-C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076281.3	NM_002117		T	31239006	G	T	31239006	3	4	680	1	0	0	0	0	1	0	0	0	7204	1087	38	4	661	4	HLA-C	6	31239006	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10	2158918	31239006	139876061	34	44011										
RIMS1	22999	broad.mit.edu	37	chr6	73102466	73102466	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gattttcttgatggattgggAccagcccagcttgttggccg	13	9	1	1			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr6:73102466A>G	ENST00000521978.1	+	31	4572	c.4572A>G	c.(4570-4572)ggA>ggG	p.G1524G	RIMS1_ENST00000264839.7_Silent_p.G1373G|RIMS1_ENST00000431478.2_3'UTR|RIMS1_ENST00000401910.3_Silent_p.G844G|RIMS1_ENST00000425662.2_Silent_p.G592G|RIMS1_ENST00000522291.1_Silent_p.G1123G|RIMS1_ENST00000523963.1_Silent_p.G649G|RIMS1_ENST00000538414.1_Silent_p.G330G|RIMS1_ENST00000520567.1_Silent_p.G1174G|RIMS1_ENST00000517827.1_Silent_p.G658G|RIMS1_ENST00000348717.5_Silent_p.G1307G|RIMS1_ENST00000517960.1_Silent_p.G1307G|RIMS1_ENST00000491071.2_Silent_p.G1347G|RIMS1_ENST00000518273.1_Silent_p.G1203G|RIMS1_ENST00000414192.2_Silent_p.G51G	NM_014989.5	NP_055804.2	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1524					calcium ion-dependent exocytosis (GO:0017156)|calcium ion-dependent exocytosis of neurotransmitter (GO:0048791)|glutamate secretion (GO:0014047)|intracellular protein transport (GO:0006886)|membrane fusion (GO:0061025)|neurotransmitter secretion (GO:0007269)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of gene expression (GO:0010628)|positive regulation of inhibitory postsynaptic membrane potential (GO:0097151)|protein complex assembly (GO:0006461)|regulated secretory pathway (GO:0045055)|regulation of catalytic activity (GO:0050790)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of neurotransmitter secretion (GO:0046928)|response to stimulus (GO:0050896)|secretion (GO:0046903)|synaptic transmission (GO:0007268)|synaptic vesicle exocytosis (GO:0016079)|visual perception (GO:0007601)	cell junction (GO:0030054)|plasma membrane (GO:0005886)|presynaptic active zone (GO:0048786)|presynaptic membrane (GO:0042734)	metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|Rab GTPase binding (GO:0017137)|small GTPase regulator activity (GO:0005083)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(25)|liver(4)|lung(35)|ovary(9)|pancreas(3)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	102		all_epithelial(107;0.179)|all_hematologic(105;0.212)				ATGGATTGGGACCAGCCCAGC	0.403																																																0													97	92	93					6																	73102466		1844	4107	5951	SO:0001819	synonymous_variant	22999			AB002338	CCDS47449.1, CCDS55029.1, CCDS55030.1, CCDS55031.1, CCDS55032.1, CCDS55033.1	6q12-q13	2008-10-16	2002-06-12	2002-06-14	ENSG00000079841	ENSG00000079841			17282	protein-coding gene	gene with protein product	"Rab3-interacting molecule"	606629	"RAB3 interacting protein 2"	RAB3IP2, CORD7		9205841, 11438518	Standard	NM_001168407		Approved	RIM, KIAA0340, RIM1	uc003pga.4	Q86UR5	OTTHUMG00000015009	ENST00000521978.1:c.4572A>G	6.37:g.73102466A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A7MBN6|B7Z2M0|B7Z2Q9|B7Z3S3|B7Z6S2|E7EX08|E9PCB7|E9PCZ1|E9PF48|E9PHF5|E9PHR1|O15048|Q5JY21|Q5JY25|Q5SZK1|Q8TDY9|Q8TDZ5|Q9HBA1|Q9HBA2|Q9HBA3|Q9HBA4|Q9HBA5|Q9HBA6	Silent	SNP	ENST00000521978.1	37	CCDS47449.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	10.80|10.80	1.451830|1.451830	0.26074|0.26074	.|.	.|.	ENSG00000079841|ENSG00000079841	ENST00000522211|ENST00000517433	.|.	.|.	.|.	5.5|5.5	-0.0463|-0.0463	0.13847|0.13847	.|.	.|.	.|.	.|.	.|.	T|T	0.33904|0.33904	0.0879|0.0879	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	T|T	0.21211|0.21211	-1.0252|-1.0252	4|4	.|.	.|.	.|.	-18.708|-18.708	4.8555|4.8555	0.13557|0.13557	0.6334:0.0:0.1322:0.2344|0.6334:0.0:0.1322:0.2344	.|.	.|.	.|.	.|.	G|A	442|870	.|.	.|.	D|T	+|+	2|1	0|0	RIMS1|RIMS1	73159187|73159187	0.996000|0.996000	0.38824|0.38824	0.996000|0.996000	0.52242|0.52242	0.998000|0.998000	0.95712|0.95712	0.671000|0.671000	0.25172|0.25172	-0.232000|-0.232000	0.09811|0.09811	0.482000|0.482000	0.46254|0.46254	GAC|ACC		0.403	RIMS1-011	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374968.1			G	73102466	A	G	73102466	2	3	680	1	0	0	0	0	0	0	0	1	13380	262	10	3		3	RIMS1	6	73102466	Silent	SNP	A	TCGA-KO-8409-01A-11D-2310-10	41863460	73102466	98012601	35	44012										
UNC93A	54346	mdanderson.org	37	chr6	167728900	167728900	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	accccacgctccaggacaggTcaaccaggcagaggatgaag	12	13	1	2			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr6:167728900T>C	ENST00000230256.3	+	8	1509	c.1334T>C	c.(1333-1335)gTc>gCc	p.V445A	UNC93A_ENST00000366829.2_Missense_Mutation_p.V403A	NM_018974.3	NP_061847.2	Q86WB7	UN93A_HUMAN	unc-93 homolog A (C. elegans)	445			V -> A. {ECO:0000269|PubMed:12381271}.			integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)		p.V445A(1)		breast(2)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(7)|lung(20)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	40		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		CCAGGACAGGTCAACCAGGCA	0.522																																																1	Substitution - Missense(1)	skin(1)											148	161	157					6																	167728900		2203	4300	6503	SO:0001583	missense	54346			AJ508812	CCDS5300.1, CCDS47515.1	6q27	2014-05-16	2001-11-28		ENSG00000112494	ENSG00000112494			12570	protein-coding gene	gene with protein product		607995	"unc93 (C.elegans) homolog A"			12381271	Standard	NM_001143947		Approved	dJ366N23.2, dJ366N23.1	uc003qvq.3	Q86WB7	OTTHUMG00000016021	ENST00000230256.3:c.1334T>C	6.37:g.167728900T>C	ENSP00000230256:p.Val445Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRP5|Q4QQJ4|Q5JZD6	Missense_Mutation	SNP	ENST00000230256.3	37	CCDS5300.1	.	.	.	.	.	.	.	.	.	.	C	1.940	-0.443865	0.04604	.	.	ENSG00000112494	ENST00000230256;ENST00000366829	T;T	0.04502	3.61;3.65	3.86	-3.95	0.04118	Major facilitator superfamily domain, general substrate transporter (1);	2.657010	0.01742	N	0.029466	T	0.00412	0.0013	N	0.02011	-0.69	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.44513	-0.9323	10	0.09084	T	0.74	0.3159	0.201	0.00145	0.3648:0.155:0.2022:0.2779	.	403;445	Q4QQJ4;Q86WB7	.;UN93A_HUMAN	A	445;403	ENSP00000230256:V445A;ENSP00000355794:V403A	ENSP00000230256:V445A	V	+	2	0	UNC93A	167648890	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.774000	0.04684	-0.778000	0.04566	-0.355000	0.07637	GTC		0.522	UNC93A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043125.2	NM_018974		C	167728900	T	C	167728900	3	2	680	1	0	0	0	0	1	0	0	0	17008	1667	58	3	1364	3	UNC93A	6	167728900	Missense_Mutation	SNP	T	TCGA-KO-8409-01A-11D-2310-10	94626434	167728900	3386167	36	44013										
AVL9	23080	broad.mit.edu	37	chr7	32620439	32620439	+	Frame_Shift_Del	DEL	A	A	-													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ttcagaatagtgaacgtggcAaaaaaattggaaacgtcatg					rs201620276		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr7:32620439delA	ENST00000318709.4	+	15	1989	c.1768delA	c.(1768-1770)aaafs	p.K591fs	AVL9_ENST00000404479.1_Intron|AVL9_ENST00000409301.1_Frame_Shift_Del_p.K573fs	NM_015060.1	NP_055875.1	Q8NBF6	AVL9_HUMAN	AVL9 homolog (S. cerevisiase)	591					cell migration (GO:0016477)	integral component of membrane (GO:0016021)|recycling endosome (GO:0055037)				endometrium(3)|kidney(1)|large_intestine(3)|lung(7)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	18						TGAACGTGGCAAAAAAATTGG	0.373																																																0													89	84	85					7																	32620439		2203	4300	6503	SO:0001589	frameshift_variant	23080			D87682	CCDS34613.1	7p14.3	2013-05-01	2008-10-03	2008-10-03	ENSG00000105778	ENSG00000105778			28994	protein-coding gene	gene with protein product		612927	"KIAA0241"	KIAA0241		17229886, 22595670	Standard	XM_005249668		Approved		uc003tcv.1	Q8NBF6	OTTHUMG00000152929	ENST00000318709.4:c.1768delA	7.37:g.32620439delA	ENSP00000315568:p.Lys591fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q92573	Frame_Shift_Del	DEL	ENST00000318709.4	37	CCDS34613.1																																																																																				0.373	AVL9-003	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328643.1	NM_015060		-	32620439	A	-	32620439	7	5	680	1	0	1	0	1	0	0	0	0	1228	131	5	0	1826	0	AVL9	7	32620439	Frame_Shift_Del	DEL	A	TCGA-KO-8409-01A-11D-2310-10		32620439	126518224	37	44014										
SPDYE1	285955	broad.mit.edu	37	chr7	44046997	44046997	+	Frame_Shift_Del	DEL	A	A	-													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tccagttataccgttccatgAacccgagggccaggaagaac							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr7:44046997delA	ENST00000258704.3	+	5	900	c.763delA	c.(763-765)aacfs	p.N255fs	AC004951.6_ENST00000447643.1_lincRNA|POLR2J4_ENST00000427076.1_RNA|RP5-1165K10.2_ENST00000454572.1_RNA	NM_001099435.2|NM_175064.2	NP_001092905.2|NP_778234.2	Q8NFV5	SPDE1_HUMAN	speedy/RINGO cell cycle regulator family member E1	255	Arg-rich.									endometrium(1)|kidney(4)|large_intestine(2)|lung(2)|ovary(1)|prostate(1)	11						CCGTTCCATGAACCCGAGGGC	0.557																																																0													184	188	187					7																	44046997		2203	4300	6503	SO:0001589	frameshift_variant	285955			AF412027	CCDS5475.1	7q11.23	2013-05-08	2013-05-08	2009-02-17	ENSG00000136206	ENSG00000136206		"Speedy homologs"	16408	protein-coding gene	gene with protein product	"Speedy E"		"Williams Beuren syndrome chromosome region 19", "speedy homolog E1 (Xenopus laevis)"	WBSCR19		12073013	Standard	NM_175064		Approved	Ringo1, SPDYE	uc003tjf.3	Q8NFV5	OTTHUMG00000128985	ENST00000258704.3:c.763delA	7.37:g.44046997delA	ENSP00000258704:p.Asn255fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NTH5	Frame_Shift_Del	DEL	ENST00000258704.3	37	CCDS5475.1																																																																																				0.557	SPDYE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250974.1	NM_175064		-	44046997	A	-	44046997	7	5	680	1	0	1	0	1	0	0	0	0	15041	246	9	0	781	0	SPDYE1	7	44046997	Frame_Shift_Del	DEL	A	TCGA-KO-8409-01A-11D-2310-10	11426558	44046997	115091666	38	44015										
TMEM120A	5447	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr7	75617798	75617798	+	IGR	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	atgaggatgatggtgaggtaGagcttgaacttctcatactc	12	6	1	5	rs114564646	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr7:75617798G>C	ENST00000461988.1	+	0	2522				TMEM120A_ENST00000493111.2_RNA|TMEM120A_ENST00000338761.4_RNA	NM_000941.2	NP_000932.3	P16435	NCPR_HUMAN	P450 (cytochrome) oxidoreductase						carnitine metabolic process (GO:0009437)|cellular organofluorine metabolic process (GO:0090346)|cellular response to follicle-stimulating hormone stimulus (GO:0071372)|cellular response to peptide hormone stimulus (GO:0071375)|demethylation (GO:0070988)|fatty acid oxidation (GO:0019395)|flavonoid metabolic process (GO:0009812)|internal peptidyl-lysine acetylation (GO:0018393)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of lipase activity (GO:0060192)|nitrate catabolic process (GO:0043602)|nitric oxide catabolic process (GO:0046210)|oxidation-reduction process (GO:0055114)|positive regulation of cholesterol biosynthetic process (GO:0045542)|positive regulation of chondrocyte differentiation (GO:0032332)|positive regulation of monooxygenase activity (GO:0032770)|positive regulation of smoothened signaling pathway (GO:0045880)|positive regulation of steroid hormone biosynthetic process (GO:0090031)|regulation of growth plate cartilage chondrocyte proliferation (GO:0003420)|response to drug (GO:0042493)|response to nutrient (GO:0007584)	endoplasmic reticulum (GO:0005783)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|mitochondrion (GO:0005739)	cytochrome-b5 reductase activity, acting on NAD(P)H (GO:0004128)|electron carrier activity (GO:0009055)|flavin adenine dinucleotide binding (GO:0050660)|FMN binding (GO:0010181)|hydrolase activity (GO:0016787)|iron ion binding (GO:0005506)|iron-cytochrome-c reductase activity (GO:0047726)|NADP binding (GO:0050661)|NADPH-hemoprotein reductase activity (GO:0003958)|nitric oxide dioxygenase activity (GO:0008941)			central_nervous_system(1)|endometrium(2)|kidney(2)|lung(3)|ovary(1)	9					Benzphetamine(DB00865)|Daunorubicin(DB00694)|Doxorubicin(DB00997)|Ethylmorphine(DB01466)|Flavin adenine dinucleotide(DB03147)|Lipoic Acid(DB00166)|Mitomycin(DB00305)|Nilutamide(DB00665)|Nitrofurantoin(DB00698)	TGGTGAGGTAGAGCTTGAACT	0.647																																																0													137	150	146					7																	75617798		2102	4205	6307	SO:0001628	intergenic_variant	83862			AF258341	CCDS5579.1	7q11.2	2006-12-05			ENSG00000127948	ENSG00000127948			9208	protein-coding gene	gene with protein product		124015				2516426	Standard	NM_000941		Approved	CYPOR, FLJ26468	uc003udy.3	P16435	OTTHUMG00000130413		7.37:g.75617798G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q16455|Q197M5|Q8N181|Q9H3M8|Q9UDT3	Silent	SNP	ENST00000461988.1	37	CCDS5579.1																																																																																				0.647	POR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252796.7	NM_000941		C	75617798	G	C	75617798	1	2	680	0	1	0	0	0	0	0	0	0	16045	929	33	4		4	TMEM120A	7	75617798	IGR	SNP	G	TCGA-KO-8409-01A-11D-2310-10	31570801	75617798	83520865	39	44016										
ADAM22	53616	mdanderson.org	37	chr7	87564497	87564497	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gcggggcgacctcggtggccCgcaggtgagaggctcggtcc	19	13	0	1	rs2279542	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr7:87564497C>G	ENST00000265727.7	+	2	321	c.242C>G	c.(241-243)cCg>cGg	p.P81R	ADAM22_ENST00000315984.7_Missense_Mutation_p.P81R|ADAM22_ENST00000398201.4_Missense_Mutation_p.P81R|ADAM22_ENST00000439864.1_Missense_Mutation_p.P81R|ADAM22_ENST00000398204.4_Missense_Mutation_p.P81R|ADAM22_ENST00000398209.3_Missense_Mutation_p.P81R			Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22	81			P -> R (in dbSNP:rs2279542). {ECO:0000269|PubMed:10524237, ECO:0000269|Ref.3}.		adult locomotory behavior (GO:0008344)|cell adhesion (GO:0007155)|central nervous system development (GO:0007417)|myelination in peripheral nervous system (GO:0022011)|negative regulation of cell adhesion (GO:0007162)	integral component of membrane (GO:0016021)	integrin binding (GO:0005178)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			endometrium(7)|kidney(4)|large_intestine(7)|liver(2)|lung(20)|ovary(6)|prostate(4)|skin(3)	53	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			CTCGGTGGCCCGCAGGTGAGA	0.701													G|||	3157	0.630391	0.9834	0.6282	5008	,	,		12450	0.5407		0.5229	False		,,,				2504	0.3579															0								G	ARG/PRO,ARG/PRO,ARG/PRO,ARG/PRO,ARG/PRO	3375,409		1523,329,40	10	12	11		242,242,242,242,242	-5.3	0	7	dbSNP_100	11	4227,3961		1120,1987,987	no	missense,missense,missense,missense,missense	ADAM22	NM_004194.3,NM_016351.4,NM_021721.3,NM_021722.4,NM_021723.3	103,103,103,103,103	2643,2316,1027	GG,GC,CC		48.3757,10.8087,36.5018	benign,benign,benign,benign,benign	81/860,81/871,81/824,81/900,81/907	87564497	7602,4370	1892	4094	5986	SO:0001583	missense	53616			AB009671	CCDS43608.1, CCDS43609.1, CCDS43610.1, CCDS47637.1	7q21	2008-07-18	2005-08-18		ENSG00000008277	ENSG00000008277		"ADAM metallopeptidase domain containing"	201	protein-coding gene	gene with protein product	"metalloproteinase-like, disintegrin-like, and cysteine-rich protein 2"	603709	"a disintegrin and metalloproteinase domain 22"			9693107, 10524237	Standard	NM_021723		Approved	MDC2	uc003ujn.3	Q9P0K1	OTTHUMG00000137417	ENST00000265727.7:c.242C>G	7.37:g.87564497C>G	ENSP00000265727:p.Pro81Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O75075|O75076|Q9P0K2|Q9UIA1|Q9UKK2	Missense_Mutation	SNP	ENST00000265727.7	37	CCDS47637.1	1379	0.6314102564102564	478	0.9715447154471545	215	0.5939226519337016	295	0.5157342657342657	391	0.5158311345646438	G	5.901	0.350386	0.11182	0.891913	0.516243	ENSG00000008277	ENST00000398204;ENST00000439864;ENST00000412441;ENST00000398201;ENST00000265727;ENST00000315984;ENST00000398209;ENST00000398203	T;T;T;T;T;T;T;T	0.15834	4.56;3.76;2.39;4.56;4.56;4.56;4.56;4.56	4.66	-5.26	0.02772	Peptidase M12B, propeptide (1);	1.669830	0.03048	N	0.154188	T	0.00012	0.0000	L	0.41356	1.27	0.80722	P	0.0	B;B;B;B;B;B	0.09022	0.001;0.001;0.002;0.0;0.0;0.0	B;B;B;B;B;B	0.13407	0.007;0.003;0.006;0.001;0.003;0.009	T	0.32955	-0.9887	9	0.10111	T	0.7	.	1.0673	0.01614	0.2217:0.3099:0.2591:0.2094	rs2279542;rs10374693;rs17252615;rs61662105;rs2279542	133;81;81;81;81;81	E9PBH5;Q9P0K1-5;Q9P0K1;Q9P0K1-2;E7EPF1;D6W5P7	.;.;ADA22_HUMAN;.;.;.	R	81;81;81;81;81;81;81;48	ENSP00000381262:P81R;ENSP00000391334:P81R;ENSP00000413899:P81R;ENSP00000381260:P81R;ENSP00000265727:P81R;ENSP00000315900:P81R;ENSP00000381267:P81R;ENSP00000381261:P48R	ENSP00000265727:P81R	P	+	2	0	ADAM22	87402433	0.000000	0.05858	0.007000	0.13788	0.753000	0.42808	-1.004000	0.03678	-1.699000	0.01416	-0.738000	0.03535	CCG		0.701	ADAM22-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000268370.2	NM_021723		G	87564497	C	G	87564497	3	3	680	1	0	0	0	0	1	0	0	0	244	652	23	4	248	4	ADAM22	7	87564497	Missense_Mutation	SNP	C	TCGA-KO-8409-01A-11D-2310-10	11946699	87564497	71574166	40	44017										
SLC13A1	6561	bcgsc.ca	37	chr7	122759248	122759248	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tattagccatgctggtaatgAacccagaggagataatttat	9	6	0	3			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr7:122759248A>G	ENST00000194130.2	-	13	1438	c.1399T>C	c.(1399-1401)Tca>Cca	p.S467P	SLC13A1_ENST00000539873.1_3'UTR	NM_022444.3	NP_071889.2	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate symporter), member 1	467					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	sodium:sulfate symporter activity (GO:0015382)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(9)|lung(20)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	45					Succinic acid(DB00139)	GCTGGTAATGAACCCAGAGGA	0.343																																																0													89	92	91					7																	122759248		2203	4300	6503	SO:0001583	missense	6561				CCDS5786.1	7q31.32	2013-07-18	2013-07-18		ENSG00000081800	ENSG00000081800		"Solute carriers"	10916	protein-coding gene	gene with protein product		606193	"solute carrier family 13 (sodium/sulphate symporters), member 1"			11161786	Standard	NM_022444		Approved	NaSi-1, NAS1	uc003vkm.3	Q9BZW2	OTTHUMG00000157087	ENST00000194130.2:c.1399T>C	7.37:g.122759248A>G	ENSP00000194130:p.Ser467Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H5Z0	Missense_Mutation	SNP	ENST00000194130.2	37	CCDS5786.1	.	.	.	.	.	.	.	.	.	.	A	18.65	3.670342	0.67814	.	.	ENSG00000081800	ENST00000194130	T	0.03441	3.93	5.53	5.53	0.82687	.	0.346143	0.30752	N	0.008959	T	0.21962	0.0529	M	0.88031	2.925	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.76071	0.987;0.987	T	0.01753	-1.1281	10	0.42905	T	0.14	-24.1496	14.821	0.70074	1.0:0.0:0.0:0.0	.	467;467	A4D0X1;Q9BZW2	.;S13A1_HUMAN	P	467	ENSP00000194130:S467P	ENSP00000194130:S467P	S	-	1	0	SLC13A1	122546484	0.993000	0.37304	1.000000	0.80357	0.987000	0.75469	3.066000	0.50002	2.094000	0.63399	0.482000	0.46254	TCA		0.343	SLC13A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347404.1	NM_022444		G	122759248	A	G	122759248	3	3	680	1	0	0	0	0	1	0	0	0	14404	246	9	3	400	3	SLC13A1	7	122759248	Missense_Mutation	SNP	A	TCGA-KO-8409-01A-11D-2310-10	35194751	122759248	36379415	41	44018										
TNFRSF10B	8795	mdanderson.org	37	chr8	22926313	22926313	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	caagggtcttggggacccggGgcccaggcctggctccccgc	16	16	1	0	rs1129424	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr8:22926313G>A	ENST00000276431.4	-	1	379	c.95C>T	c.(94-96)cCc>cTc	p.P32L	RP11-875O11.2_ENST00000501897.1_RNA|TNFRSF10B_ENST00000347739.3_Missense_Mutation_p.P32L|RP11-875O11.3_ENST00000520840.1_RNA|TNFRSF10B_ENST00000542226.1_5'UTR	NM_003842.4|NM_147187.2	NP_003833.4|NP_671716.2	O14763	TR10B_HUMAN	tumor necrosis factor receptor superfamily, member 10b	32			P -> L (in dbSNP:rs1129424). {ECO:0000269|PubMed:10072170, ECO:0000269|PubMed:12975309, ECO:0000269|PubMed:15489334, ECO:0000269|PubMed:17974005, ECO:0000269|PubMed:9242611, ECO:0000269|PubMed:9285725, ECO:0000269|PubMed:9325248, ECO:0000269|PubMed:9373179, ECO:0000269|PubMed:9430227, ECO:0000269|Ref.11}.		activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|activation of NF-kappaB-inducing kinase activity (GO:0007250)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|cell surface receptor signaling pathway (GO:0007166)|cellular response to mechanical stimulus (GO:0071260)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress (GO:0070059)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|regulation of apoptotic process (GO:0042981)|regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001239)|response to endoplasmic reticulum stress (GO:0034976)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	receptor activity (GO:0004872)|TRAIL binding (GO:0045569)			NS(1)|endometrium(2)|large_intestine(7)|liver(1)|lung(3)|skin(1)	15		Prostate(55;0.0421)|Breast(100;0.067)		Colorectal(74;0.0179)|COAD - Colon adenocarcinoma(73;0.0703)		GGGGACCCGGGGCCCAGGCCT	0.736													A|||	3753	0.749401	0.7753	0.7493	5008	,	,		13116	0.9107		0.5924	False		,,,				2504	0.7096				GBM(94;1064 1342 1839 21060 42553)											0								A	LEU/PRO,LEU/PRO	3291,1103		1260,771,166	13	16	15		95,95	0.1	0	8	dbSNP_86	15	5180,3384		1603,1974,705	yes	missense,missense	TNFRSF10B	NM_003842.4,NM_147187.2	98,98	2863,2745,871	AA,AG,GG		39.5142,25.1024,34.6273	benign,benign	32/441,32/412	22926313	8471,4487	2197	4282	6479	SO:0001583	missense	8795			AF012628	CCDS6035.1, CCDS6036.1	8p22-p21	2006-02-22			ENSG00000120889	ENSG00000120889		"Tumor necrosis factor receptor superfamily", "CD molecules"	11905	protein-coding gene	gene with protein product		603612				9285725, 9311998	Standard	NM_003842		Approved	DR5, KILLER, TRICK2A, TRAIL-R2, TRICKB, CD262	uc003xcu.2	O14763	OTTHUMG00000097826	ENST00000276431.4:c.95C>T	8.37:g.22926313G>A	ENSP00000276431:p.Pro32Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O14720|O15508|O15517|O15531|Q6UXM8|Q7Z360|Q9BVE0	Missense_Mutation	SNP	ENST00000276431.4	37	CCDS6035.1	1624	0.7435897435897436	384	0.7804878048780488	269	0.7430939226519337	520	0.9090909090909091	451	0.5949868073878628	a	0.028	-1.358005	0.01245	0.748976	0.604858	ENSG00000120889	ENST00000276431;ENST00000347739	T;D	0.83163	-1.44;-1.69	1.32	0.126	0.14722	.	0.377447	0.15516	N	0.258310	T	0.00012	0.0000	N	0.00321	-1.65	0.51482	P	7.900000000005125E-5	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.30851	-0.9964	9	0.07482	T	0.82	.	4.2483	0.10682	0.4549:0.0:0.5451:0.0	rs1129424;rs1805039;rs3187295;rs17088926;rs17855358;rs57417067	32;32	O14763;O14763-2	TR10B_HUMAN;.	L	32	ENSP00000276431:P32L;ENSP00000317859:P32L	ENSP00000276431:P32L	P	-	2	0	TNFRSF10B	22982258	0.000000	0.05858	0.001000	0.08648	0.001000	0.01503	-0.111000	0.10807	-0.291000	0.09012	-0.521000	0.04368	CCC		0.736	TNFRSF10B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000215099.2	NM_147187		A	22926313	G	A	22926313	3	1	680	1	0	0	0	0	1	0	0	0	16293	1232	43	2	1263	2	TNFRSF10B	8	22926313	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10		22926313	123437709	42	44019										
SLC20A2	6575	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr8	42294728	42294728	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gccaccgcgttacagtagctCgagtagctgtcgtagcgcag	13	12	0	0			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr8:42294728C>T	ENST00000342228.3	-	8	1671	c.1302G>A	c.(1300-1302)tcG>tcA	p.S434S	SLC20A2_ENST00000520179.1_Silent_p.S434S|SLC20A2_ENST00000520262.1_Silent_p.S434S	NM_006749.4	NP_006740.1	Q08357	S20A2_HUMAN	solute carrier family 20 (phosphate transporter), member 2	434					ion transport (GO:0006811)|phosphate ion transmembrane transport (GO:0035435)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)|transport (GO:0006810)|viral process (GO:0016032)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	inorganic phosphate transmembrane transporter activity (GO:0005315)|receptor activity (GO:0004872)|sodium:phosphate symporter activity (GO:0005436)|virus receptor activity (GO:0001618)			breast(1)|endometrium(6)|large_intestine(5)|lung(9)|ovary(3)|prostate(1)|stomach(1)	26	all_lung(13;8.33e-12)|Lung NSC(13;1.41e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;5.73e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00419)|Lung(22;0.0302)|LUSC - Lung squamous cell carcinoma(45;0.0869)			TACAGTAGCTCGAGTAGCTGT	0.652																																																0													65	61	62					8																	42294728		2203	4300	6503	SO:0001819	synonymous_variant	6575				CCDS6132.1	8p11.21	2013-05-22			ENSG00000168575	ENSG00000168575		"Solute carriers"	10947	protein-coding gene	gene with protein product		158378		MLVAR, GLVR2		7745689, 16790504	Standard	NM_001257180		Approved	PiT-2, Glvr-2	uc010lxm.4	Q08357	OTTHUMG00000164169	ENST00000342228.3:c.1302G>A	8.37:g.42294728C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000342228.3	37	CCDS6132.1																																																																																				0.652	SLC20A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377578.1			T	42294728	C	T	42294728	2	4	680	1	0	0	0	0	0	0	0	1	14452	871	31	1		1	SLC20A2	8	42294728	Silent	SNP	C	TCGA-KO-8409-01A-11D-2310-10	19368415	42294728	104069294	43	44020										
ZC3H3	23144	bcgsc.ca	37	chr8	144522319	144522319	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	cagcttgcagagcctgttggAgcacgctgctgctaaggcag	14	11	0	1			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr8:144522319A>G	ENST00000262577.5	-	11	2738	c.2707T>C	c.(2707-2709)Tcc>Ccc	p.S903P		NM_015117.2	NP_055932.2	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	903					mRNA polyadenylation (GO:0006378)|poly(A)+ mRNA export from nucleus (GO:0016973)|regulation of mRNA export from nucleus (GO:0010793)	nucleus (GO:0005634)	metal ion binding (GO:0046872)			breast(1)|endometrium(2)|kidney(2)|large_intestine(1)|lung(13)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	23	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			AGCCTGTTGGAGCACGCTGCT	0.662																																																0													38	35	36					8																	144522319		2200	4299	6499	SO:0001583	missense	23144			D63484	CCDS6402.1	8q24.3	2012-07-05	2005-06-02	2005-06-02	ENSG00000014164	ENSG00000014164		"Zinc fingers, CCCH-type domain containing"	28972	protein-coding gene	gene with protein product			"zinc finger CCCH-type domain containing 3"	ZC3HDC3		8590280	Standard	NM_015117		Approved	KIAA0150	uc003yyd.2	Q8IXZ2	OTTHUMG00000165127	ENST00000262577.5:c.2707T>C	8.37:g.144522319A>G	ENSP00000262577:p.Ser903Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q14163|Q8N4E2|Q9BUS4	Missense_Mutation	SNP	ENST00000262577.5	37	CCDS6402.1	.	.	.	.	.	.	.	.	.	.	A	12.15	1.852730	0.32699	.	.	ENSG00000014164	ENST00000262577	T	0.03553	3.89	4.34	1.81	0.25067	.	0.853593	0.09930	N	0.737297	T	0.02767	0.0083	L	0.29908	0.895	0.09310	N	1	B	0.30584	0.286	B	0.24974	0.057	T	0.46898	-0.9158	10	0.87932	D	0	-2.9192	1.404	0.02276	0.5396:0.182:0.1024:0.1761	.	903	Q8IXZ2	ZC3H3_HUMAN	P	903	ENSP00000262577:S903P	ENSP00000262577:S903P	S	-	1	0	ZC3H3	144593462	0.977000	0.34250	0.029000	0.17559	0.277000	0.26821	0.933000	0.28897	0.087000	0.17167	0.383000	0.25322	TCC		0.662	ZC3H3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382011.2	NM_015117		G	144522319	A	G	144522319	3	3	680	1	0	0	0	0	1	0	0	0	17581	304	11	3	147	3	ZC3H3	8	144522319	Missense_Mutation	SNP	A	TCGA-KO-8409-01A-11D-2310-10	102227591	144522319	1841703	44	44021										
DMRTA1	63951	broad.mit.edu	37	chr9	22451467	22451468	+	Frame_Shift_Ins	INS	-	-	A													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ctgcaaaggggatgtggtccINSaagccattgaacaggtttta							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr9:22451467_22451468insA	ENST00000325870.2	+	2	1297_1298	c.1072_1073insA	c.(1072-1074)caafs	p.Q358fs		NM_022160.2	NP_071443.2	Q5VZB9	DMRTA_HUMAN	DMRT-like family A1	358					male mating behavior (GO:0060179)|ovarian follicle development (GO:0001541)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|kidney(1)|large_intestine(3)|lung(6)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	15		all_cancers(5;4.09e-243)|Acute lymphoblastic leukemia(3;8.25e-150)|all_hematologic(3;4.25e-147)|Esophageal squamous(3;2.32e-09)|Renal(3;1.71e-07)|Breast(3;2.07e-06)|Hepatocellular(5;0.00563)		GBM - Glioblastoma multiforme(1;5.12e-278)|Lung(24;8.2e-52)|LUSC - Lung squamous cell carcinoma(38;1.46e-37)|OV - Ovarian serous cystadenocarcinoma(39;0.0517)		GGATGTGGTCCAAGCCATTGAA	0.45																																																0																																										SO:0001589	frameshift_variant	63951			AJ290954	CCDS6514.1	9p21.3	2008-05-15			ENSG00000176399	ENSG00000176399			13826	protein-coding gene	gene with protein product		614803					Standard	NM_022160		Approved		uc003zpp.1	Q5VZB9	OTTHUMG00000019693	ENST00000325870.2:c.1074dupA	9.37:g.22451469_22451469dupA	ENSP00000319651:p.Gln358fs	Somatic		WXS	Illumina HiSeq	Phase_I	A1L481|Q8N8Y9|Q9H4B9	Frame_Shift_Ins	INS	ENST00000325870.2	37	CCDS6514.1																																																																																				0.45	DMRTA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051935.2			A	22451468	-	A	22451467	7	5	680	1	0	1	1	0	0	0	0	0	4590	595	21	0	1078	0	DMRTA1	9	22451467	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10		22451467	118761964	45	44022										
KIF24	347240	broad.mit.edu	37	chr9	34257343	34257344	+	Frame_Shift_Ins	INS	-	-	GGGG													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ccctctccttctgatgtggcINSgggatgtttgtccaagcttc					rs376517927		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr9:34257343_34257344insGGGG	ENST00000402558.2	-	10	2285_2286	c.2261_2262insCCCC	c.(2260-2262)ccgfs	p.P754fs	KIF24_ENST00000345050.2_Frame_Shift_Ins_p.P620fs|KIF24_ENST00000379174.3_Frame_Shift_Ins_p.P620fs|KIF24_ENST00000379166.2_Frame_Shift_Ins_p.P754fs			Q5T7B8	KIF24_HUMAN	kinesin family member 24	754					ATP catabolic process (GO:0006200)|cilium assembly (GO:0042384)|metabolic process (GO:0008152)|microtubule depolymerization (GO:0007019)|microtubule-based movement (GO:0007018)	centriole (GO:0005814)|kinesin complex (GO:0005871)|microtubule (GO:0005874)|protein complex (GO:0043234)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			breast(1)|central_nervous_system(1)|endometrium(5)|large_intestine(4)|liver(1)|lung(13)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	32			LUSC - Lung squamous cell carcinoma(29;0.0107)			TCTGATGTGGCGGGATGTTTGT	0.54																																																0																																										SO:0001589	frameshift_variant	347240			AK001795	CCDS6551.2	9p13.3	2013-01-10			ENSG00000186638	ENSG00000186638		"Kinesins", "Sterile alpha motif (SAM) domain containing"	19916	protein-coding gene	gene with protein product		613747	"chromosome 9 open reading frame 48"	C9orf48		12477932	Standard	NM_194313		Approved	bA571F15.4, FLJ10933, FLJ43884	uc003zua.4	Q5T7B8	OTTHUMG00000019810	ENST00000402558.2:c.2261_2262insCCCC	9.37:g.34257343_34257344insGGGG	ENSP00000384433:p.Pro754fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q2TB93|Q5T7B5|Q5T7B7|Q6ZU97|Q6ZUZ2|Q86XZ0|Q9NV43	Frame_Shift_Ins	INS	ENST00000402558.2	37	CCDS6551.2																																																																																				0.54	KIF24-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052150.5			GGGG	34257344	-	GGGG	34257343	7	5	680	1	0	1	1	0	0	0	0	0	8299	755	27	0	1856	0	KIF24	9	34257343	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10	11805876	34257343	106956088	46	44023										
COL5A1	1289	broad.mit.edu	37	chr9	137645718	137645719	+	Frame_Shift_Ins	INS	-	-	G													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ccccctgggagcggaggtttINSgaagggcgagccgggagacg							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr9:137645718_137645719insG	ENST00000371817.3	+	15	2156_2157	c.1742_1743insG	c.(1741-1746)ttgaagfs	p.K582fs		NM_000093.3|NM_001278074.1	NP_000084.3|NP_001265003.1	P20908	CO5A1_HUMAN	collagen, type V, alpha 1	582	Triple-helical region.				axon guidance (GO:0007411)|blood vessel development (GO:0001568)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|collagen biosynthetic process (GO:0032964)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular fibril organization (GO:0043206)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|eye morphogenesis (GO:0048592)|heart morphogenesis (GO:0003007)|integrin biosynthetic process (GO:0045112)|negative regulation of endodermal cell differentiation (GO:1903225)|regulation of cellular component organization (GO:0051128)|skin development (GO:0043588)|tendon development (GO:0035989)|wound healing, spreading of epidermal cells (GO:0035313)	basement membrane (GO:0005604)|collagen type V trimer (GO:0005588)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	extracellular matrix structural constituent (GO:0005201)|heparin binding (GO:0008201)|integrin binding (GO:0005178)|metal ion binding (GO:0046872)|platelet-derived growth factor binding (GO:0048407)|proteoglycan binding (GO:0043394)			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(26)|liver(2)|lung(36)|ovary(4)|pancreas(4)|prostate(5)|skin(10)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(4)	115		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)		AGCGGAGGTTTGAAGGGCGAGC	0.658																																																0																																										SO:0001589	frameshift_variant	1289			D90279	CCDS6982.1, CCDS75932.1	9q34.2-q34.3	2014-09-17			ENSG00000130635	ENSG00000130635		"Collagens"	2209	protein-coding gene	gene with protein product	"alpha 1 type V collagen"	120215				1572660	Standard	NM_001278074		Approved		uc031tfl.1	P20908	OTTHUMG00000020891	ENST00000371817.3:c.1743dupG	9.37:g.137645719_137645719dupG	ENSP00000360882:p.Lys582fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q15094|Q5SUX4	Frame_Shift_Ins	INS	ENST00000371817.3	37	CCDS6982.1																																																																																				0.658	COL5A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054954.2	NM_000093		G	137645719	-	G	137645718	7	5	680	1	0	1	1	0	0	0	0	0	3698	1821	63	0	1800	0	COL5A1	9	137645718	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10	103388375	137645718	3567713	47	44024										
DPP7	29952	hgsc.bcm.edu	37	chr9	140008471	140008471	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	accgaacggcagcgacttccCgtagtagcgctgggggaacg	15	12	0	0	rs138978681		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr9:140008471C>T	ENST00000371579.2	-	4	335	c.331G>A	c.(331-333)Ggg>Agg	p.G111R		NM_013379.2	NP_037511.2	Q9UHL4	DPP2_HUMAN	dipeptidyl-peptidase 7	111						cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|lysosome (GO:0005764)	dipeptidyl-peptidase activity (GO:0008239)|serine-type peptidase activity (GO:0008236)			endometrium(2)|large_intestine(2)|lung(1)|ovary(1)|skin(1)	7	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;4.25e-05)|Epithelial(140;0.000633)		AGCGACTTCCCGTAGTAGCGC	0.771													C|||	1	0.000199681	0.0	0.0	5008	,	,		3826	0.0		0.001	False		,,,				2504	0.0															0								C	ARG/GLY	1,4293		0,1,2146	12	12	12		331	4.1	1	9	dbSNP_134	12	4,8458		0,4,4227	no	missense	DPP7	NM_013379.2	125	0,5,6373	TT,TC,CC		0.0473,0.0233,0.0392	probably-damaging	111/493	140008471	5,12751	2147	4231	6378	SO:0001583	missense	29952			AF154502	CCDS7030.1	9q34.3	2008-02-05	2006-01-12		ENSG00000176978	ENSG00000176978			14892	protein-coding gene	gene with protein product		610537	"dipeptidylpeptidase 7"			10477574, 11139392	Standard	XM_005266075		Approved	DPPII	uc004clh.3	Q9UHL4	OTTHUMG00000020977	ENST00000371579.2:c.331G>A	9.37:g.140008471C>T	ENSP00000360635:p.Gly111Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7U7|Q5VSF1|Q969X4	Missense_Mutation	SNP	ENST00000371579.2	37	CCDS7030.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	22.6|22.6	4.308878|4.308878	0.81247|0.81247	2.33E-4|2.33E-4	4.73E-4|4.73E-4	ENSG00000176978|ENSG00000176978	ENST00000371579|ENST00000443858	D|.	0.99732|.	-6.57|.	5.02|5.02	4.06|4.06	0.47325|0.47325	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	D|D	0.84529|0.84529	0.5492|0.5492	H|H	0.96889|0.96889	3.9|3.9	0.44092|0.44092	D|D	0.996854|0.996854	D|D	0.76494|0.76494	0.999|0.999	D|P	0.70227|0.61132	0.968|0.884	D|D	0.88254|0.88254	0.2918|0.2918	10|8	0.87932|0.87932	D|D	0|0	-31.7857|-31.7857	10.5562|10.5562	0.45118|0.45118	0.0:0.8039:0.1961:0.0|0.0:0.8039:0.1961:0.0	.|.	111|134	Q9UHL4|E7EQS4	DPP2_HUMAN|.	R|Q	111|134	ENSP00000360635:G111R|.	ENSP00000360635:G111R|ENSP00000413492:R134Q	G|R	-|-	1|2	0|0	DPP7|DPP7	139128292|139128292	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.690000|0.690000	0.40134|0.40134	4.043000|4.043000	0.57354|0.57354	2.330000|2.330000	0.79161|0.79161	0.555000|0.555000	0.69702|0.69702	GGG|CGG		0.771	DPP7-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055279.1	NM_013379		T	140008471	C	T	140008471	3	4	680	1	0	0	0	0	1	0	0	0	4733	652	23	1	1187	1	DPP7	9	140008471	Missense_Mutation	SNP	C	TCGA-KO-8409-01A-11D-2310-10	2362753	140008471	1204960	48	44025										
GPR158	57512	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr10	25887315	25887315	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	cttggattagctgggaaaacCcaaacagcaggtgtggaaga	13	7	0	1	rs369998736		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr10:25887315C>G	ENST00000376351.3	+	11	3119	c.2760C>G	c.(2758-2760)acC>acG	p.T920T	GPR158_ENST00000490549.1_3'UTR	NM_020752.2	NP_065803.2	Q5T848	GP158_HUMAN	G protein-coupled receptor 158	920					protein localization to plasma membrane (GO:0072659)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			breast(5)|cervix(1)|endometrium(9)|kidney(10)|large_intestine(20)|lung(56)|ovary(4)|pancreas(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	119						CTGGGAAAACCCAAACAGCAG	0.438																																																0								C		1,4405	2.1+/-5.4	0,1,2202	133	144	140		2760	1.6	1	10		140	0,8600		0,0,4300	no	coding-synonymous	GPR158	NM_020752.2		0,1,6502	GG,GC,CC		0.0,0.0227,0.0077		920/1216	25887315	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	57512			AB032962	CCDS31166.1	10p12.31	2012-08-21			ENSG00000151025	ENSG00000151025		"GPCR / Class C : Orphans"	23689	protein-coding gene	gene with protein product		614573					Standard	NM_020752		Approved	KIAA1136	uc001isj.3	Q5T848	OTTHUMG00000017832	ENST00000376351.3:c.2760C>G	10.37:g.25887315C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q6QR81|Q9ULT3	Silent	SNP	ENST00000376351.3	37	CCDS31166.1																																																																																				0.438	GPR158-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047248.2	XM_166110		G	25887315	C	G	25887315	2	3	680	1	0	0	0	0	0	0	0	1	6670	610	22	4		4	GPR158	10	25887315	Silent	SNP	C	TCGA-KO-8409-01A-11D-2310-10		25887315	109647432	49	44026										
MUC6	4588	mdanderson.org	37	chr11	1016885	1016885	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gagaagggactgctccctgtAggtggggagtgtgtggtgaa	19	5	0	2			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr11:1016885A>C	ENST00000421673.2	-	31	5966	c.5916T>G	c.(5914-5916)ccT>ccG	p.P1972P		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1972	Thr-rich.			P -> S (in Ref. 5; AAA35866). {ECO:0000305}.	cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		TGCTCCCTGTAGGTGGGGAGT	0.592																																																0													1108	1117	1114					11																	1016885		2203	4298	6501	SO:0001819	synonymous_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5916T>G	11.37:g.1016885A>C		Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Silent	SNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.592	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		C	1016885	A	C	1016885	2	2	680	1	0	0	0	0	0	0	0	1	9987	407	15	5		5	MUC6	11	1016885	Silent	SNP	A	TCGA-KO-8409-01A-11D-2310-10		1016885	133989631	50	44027										
MUC6	4588	mdanderson.org	37	chr11	1018341	1018341	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ctgtggccttgagcgttgttGgtggaggaatggtacctgtt	16	6	0	1	rs79748612		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr11:1018341G>A	ENST00000421673.2	-	31	4510	c.4460C>T	c.(4459-4461)cCa>cTa	p.P1487L		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1487	Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GAGCGTTGTTGGTGGAGGAAT	0.572																																																0													267	273	271					11																	1018341		2184	4268	6452	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4460C>T	11.37:g.1018341G>A	ENSP00000406861:p.Pro1487Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	7.717	0.696448	0.15106	.	.	ENSG00000184956	ENST00000421673	T	0.20881	2.04	2.58	0.531	0.17108	.	.	.	.	.	T	0.18299	0.0439	L	0.47190	1.495	0.09310	N	1	B	0.19935	0.04	B	0.12156	0.007	T	0.20806	-1.0264	9	0.46703	T	0.11	.	9.5369	0.39229	0.0:0.0:0.7093:0.2907	.	1487	Q6W4X9	MUC6_HUMAN	L	1487	ENSP00000406861:P1487L	ENSP00000406861:P1487L	P	-	2	0	MUC6	1008341	0.000000	0.05858	0.001000	0.08648	0.049000	0.14656	0.540000	0.23191	-0.007000	0.14345	-1.159000	0.01794	CCA		0.572	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1018341	G	A	1018341	3	1	680	1	0	0	0	0	1	0	0	0	9987	1348	47	2	2871	2	MUC6	11	1018341	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10	1456	1018341	133988175	51	44028										
MUC5B	727897	broad.mit.edu	37	chr11	1260210	1260211	+	Frame_Shift_Ins	INS	-	-	C													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gctgcctacgcccaggcctgINSccacgacgcgggcctgtgtg							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr11:1260210_1260211insC	ENST00000529681.1	+	26	3465_3466	c.3407_3408insC	c.(3406-3411)tgccacfs	p.H1137fs	MUC5B_ENST00000447027.1_Frame_Shift_Ins_p.H1140fs	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	1137	Cys-rich.				cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		GCCCAGGCCTGCCACGACGCGG	0.678																																																0																																										SO:0001589	frameshift_variant	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.3409dupC	11.37:g.1260212_1260212dupC	ENSP00000436812:p.His1137fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Frame_Shift_Ins	INS	ENST00000529681.1	37	CCDS44515.2																																																																																				0.678	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		C	1260211	-	C	1260210	7	5	680	1	0	1	1	0	0	0	0	0	9986	1319	46	0	3518	0	MUC5B	11	1260210	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10	241869	1260210	133746306	52	44029										
UEVLD	55293	mdanderson.org	37	chr11	18579859	18579859	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ttctgagaggtctaagaggaCaagcctgtctgcaataccct	10	10	3	2	rs199752573		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr11:18579859C>A	ENST00000541984.1	-	5	393	c.331G>T	c.(331-333)Gtc>Ttc	p.V111F	UEVLD_ENST00000320750.6_Missense_Mutation_p.V189F|UEVLD_ENST00000540666.1_5'UTR|UEVLD_ENST00000379387.4_Missense_Mutation_p.V189F|UEVLD_ENST00000396197.3_Missense_Mutation_p.V211F|UEVLD_ENST00000535484.1_Missense_Mutation_p.V173F|UEVLD_ENST00000543987.1_Missense_Mutation_p.V211F	NM_001261386.1	NP_001248315.1			UEV and lactate/malate dehyrogenase domains											endometrium(1)|kidney(1)|large_intestine(1)|lung(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	8						TCTAAGAGGACAAGCCTGTCT	0.423																																																0													103	84	90					11																	18579859		2199	4293	6492	SO:0001583	missense	55293			AF503350	CCDS7843.1, CCDS41624.1, CCDS58122.1, CCDS58123.1, CCDS58124.1, CCDS58125.1, CCDS73266.1	11p15.1	2006-07-14			ENSG00000151116	ENSG00000151116			30866	protein-coding gene	gene with protein product		610985				12427560	Standard	NM_001040697		Approved	Attp, UEV3	uc001mot.4	Q8IX04	OTTHUMG00000167729	ENST00000541984.1:c.331G>T	11.37:g.18579859C>A	ENSP00000437538:p.Val111Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000541984.1	37	CCDS58125.1	.	.	.	.	.	.	.	.	.	.	C	15.42	2.827481	0.50845	.	.	ENSG00000151116	ENST00000543987;ENST00000535484;ENST00000396197;ENST00000320750;ENST00000379387;ENST00000541984	D;D;D;D;D;D	0.89343	-2.5;-2.5;-2.5;-2.5;-2.5;-2.5	5.53	3.63	0.41609	Lactate/malate dehydrogenase, N-terminal (1);NAD(P)-binding domain (1);	0.194259	0.44285	D	0.000473	D	0.94238	0.8150	M	0.91196	3.185	0.80722	D	1	D;P;D;D	0.58268	0.982;0.813;0.962;0.982	D;P;P;D	0.64144	0.922;0.566;0.785;0.922	D	0.93517	0.6858	10	0.87932	D	0	-7.0358	9.1174	0.36766	0.0:0.7685:0.1523:0.0792	.	189;189;211;211	B4DL43;Q8IX04-3;Q8IX04-2;Q8IX04	.;.;.;UEVLD_HUMAN	F	211;173;211;189;189;111	ENSP00000442974:V211F;ENSP00000441092:V173F;ENSP00000379500:V211F;ENSP00000323353:V189F;ENSP00000368697:V189F;ENSP00000437538:V111F	ENSP00000323353:V189F	V	-	1	0	UEVLD	18536435	0.994000	0.37717	0.988000	0.46212	0.248000	0.25809	2.161000	0.42358	0.662000	0.31006	0.591000	0.81541	GTC		0.423	UEVLD-015	NOVEL	basic|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000395928.1	NM_018314		A	18579859	C	A	18579859	3	1	680	1	0	0	0	0	1	0	0	0	16945	478	17	4	808	4	UEVLD	11	18579859	Missense_Mutation	SNP	C	TCGA-KO-8409-01A-11D-2310-10	17319649	18579859	116426657	53	44030										
ANO5	203859	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr11	22291963	22291963	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gaaagttttggaccccttggGcttttctatgagtacttaga	10	7	1	2			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr11:22291963G>A	ENST00000324559.8	+	18	2321	c.2004G>A	c.(2002-2004)ggG>ggA	p.G668G	ANO5_ENST00000532043.1_3'UTR	NM_001142649.1|NM_213599.2	NP_001136121.1|NP_998764.1	Q75V66	ANO5_HUMAN	anoctamin 5	668					chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	intracellular calcium activated chloride channel activity (GO:0005229)			breast(2)|central_nervous_system(3)|endometrium(1)|kidney(2)|large_intestine(12)|lung(36)|ovary(1)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	63						GACCCCTTGGGCTTTTCTATG	0.418																																																0													163	167	166					11																	22291963		2203	4300	6503	SO:0001819	synonymous_variant	203859			AL833271	CCDS31444.1	11p15.1	2014-09-17	2008-08-28	2008-08-28	ENSG00000171714	ENSG00000171714		"Ion channels / Chloride channels : Calcium activated : Anoctamins"	27337	protein-coding gene	gene with protein product		608662	"transmembrane protein 16E", "limb girdle muscular dystrophy 2L (autosomal recessive)"	TMEM16E, LGMD2L		15067359, 20096397, 24692353	Standard	NM_213599		Approved	GDD1	uc001mqi.2	Q75V66	OTTHUMG00000166051	ENST00000324559.8:c.2004G>A	11.37:g.22291963G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000324559.8	37	CCDS31444.1																																																																																				0.418	ANO5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387615.1	NM_213599		A	22291963	G	A	22291963	2	1	680	1	0	0	0	0	0	0	0	1	700	1190	42	2		2	ANO5	11	22291963	Silent	SNP	G	TCGA-KO-8409-01A-11D-2310-10	3712104	22291963	112714553	54	44031										
ANO3	63982	broad.mit.edu;mdanderson.org	37	chr11	26465370	26465370	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tgttcatttgctgacctcagCgatttttgtttgggtaagtt	10	6	2	1	rs373465060		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr11:26465370C>T	ENST00000256737.3	+	3	1152	c.300C>T	c.(298-300)agC>agT	p.S100S	ANO3_ENST00000525139.1_Silent_p.S84S|ANO3_ENST00000537978.1_Silent_p.S84S|ANO3_ENST00000531646.1_Silent_p.S100S	NM_031418.2	NP_113606.2	Q9BYT9	ANO3_HUMAN	anoctamin 3	100					calcium activated galactosylceramide scrambling (GO:0061591)|calcium activated phosphatidylcholine scrambling (GO:0061590)|ion transmembrane transport (GO:0034220)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	phospholipid scramblase activity (GO:0017128)			breast(2)|central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(12)|lung(33)|ovary(2)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	68						CTGACCTCAGCGATTTTTGTT	0.328																																																0													117	115	115					11																	26465370		2203	4300	6503	SO:0001819	synonymous_variant	63982			AJ300461	CCDS31447.1	11p14.2	2014-04-09	2008-08-28	2008-08-28	ENSG00000134343	ENSG00000134343		"Ion channels / Chloride channels : Calcium activated : Anoctamins"	14004	protein-coding gene	gene with protein product	"transmembrane protein 16C (eight membrane-spanning domains)"	610110	"chromosome 11 open reading frame 25", "transmembrane protein 16C"	C11orf25, TMEM16C		12739008, 15067359, 23200863, 24692353	Standard	NM_031418		Approved	GENX-3947, DYT23	uc001mqt.4	Q9BYT9	OTTHUMG00000166096	ENST00000256737.3:c.300C>T	11.37:g.26465370C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3F5	Silent	SNP	ENST00000256737.3	37	CCDS31447.1																																																																																				0.328	ANO3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000387806.1	NM_031418		T	26465370	C	T	26465370	2	4	680	1	0	0	0	0	0	0	0	1	698	767	27	1		1	ANO3	11	26465370	Silent	SNP	C	TCGA-KO-8409-01A-11D-2310-10	4173407	26465370	108541146	55	44032										
KIF18A	81930	mdanderson.org	37	chr11	28119446	28119446	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	agtgttttccggacgtacacGaactactactttcatatggt	8	9	1	0			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr11:28119446G>A	ENST00000263181.6	-	2	339	c.49C>T	c.(49-51)Cgt>Tgt	p.R17C		NM_031217.3	NP_112494.3	Q8NI77	KI18A_HUMAN	kinesin family member 18A	17	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|blood coagulation (GO:0007596)|metabolic process (GO:0008152)|microtubule depolymerization (GO:0007019)|microtubule-based movement (GO:0007018)|mitotic cell cycle (GO:0000278)|mitotic metaphase plate congression (GO:0007080)|protein transport (GO:0015031)	caveola (GO:0005901)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinesin complex (GO:0005871)|kinetochore microtubule (GO:0005828)|microtubule cytoskeleton (GO:0015630)|nucleus (GO:0005634)|ruffle (GO:0001726)	actin binding (GO:0003779)|ATP binding (GO:0005524)|microtubule binding (GO:0008017)|microtubule plus-end binding (GO:0051010)|plus-end-directed microtubule motor activity (GO:0008574)|tubulin-dependent ATPase activity (GO:0070463)|ubiquitin binding (GO:0043130)	p.R17C(3)		breast(2)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(10)|ovary(3)|prostate(1)|skin(1)|urinary_tract(2)	36						GGACGTACACGAACTACTACT	0.363																																																3	Substitution - Missense(3)	large_intestine(3)											166	158	161					11																	28119446		2202	4299	6501	SO:0001583	missense	81930			AL136819	CCDS7867.1	11p14.1	2014-06-12			ENSG00000121621	ENSG00000121621		"Kinesins"	29441	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 99"	611271				11230166	Standard	NM_031217		Approved	DKFZP434G2226, PPP1R99	uc001msc.2	Q8NI77	OTTHUMG00000166195	ENST00000263181.6:c.49C>T	11.37:g.28119446G>A	ENSP00000263181:p.Arg17Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VPE3|Q86VS5|Q9H0F3	Missense_Mutation	SNP	ENST00000263181.6	37	CCDS7867.1	.	.	.	.	.	.	.	.	.	.	G	24.5	4.537380	0.85917	.	.	ENSG00000121621	ENST00000263181	D	0.86694	-2.16	5.53	5.53	0.82687	Kinesin, motor domain (4);	0.000000	0.85682	D	0.000000	D	0.96833	0.8966	H	0.99336	4.52	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.98173	1.0453	10	0.87932	D	0	.	19.823	0.96605	0.0:0.0:1.0:0.0	.	17;17	B2R6H3;Q8NI77	.;KI18A_HUMAN	C	17	ENSP00000263181:R17C	ENSP00000263181:R17C	R	-	1	0	KIF18A	28076022	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	7.205000	0.77881	2.770000	0.95276	0.650000	0.86243	CGT		0.363	KIF18A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388328.3	NM_031217		A	28119446	G	A	28119446	3	1	680	1	0	0	0	0	1	0	0	0	8287	1058	37	1	2711	1	KIF18A	11	28119446	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10	1654076	28119446	106887070	56	44033										
C11orf83	790955	bcgsc.ca	37	chr11	62439458	62439458	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	aggacccaaggagcagggagGaggcggccaggacccagcag	18	11	0	0			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr11:62439458G>A	ENST00000531323.1	+	3	697	c.154G>A	c.(154-156)Gag>Aag	p.E52K	C11orf83_ENST00000377953.3_Missense_Mutation_p.E52K|C11orf48_ENST00000532208.1_5'Flank|C11orf48_ENST00000354588.3_5'Flank|C11orf48_ENST00000431002.2_5'Flank			Q6UW78	CK083_HUMAN		52						extracellular region (GO:0005576)				cervix(1)|lung(1)|prostate(1)	3						GAGCAGGGAGGAGGCGGCCAG	0.667																																																0													24	32	29					11																	62439458		2188	4290	6478	SO:0001583	missense	790955																														ENST00000531323.1:c.154G>A	11.37:g.62439458G>A	ENSP00000432692:p.Glu52Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5FVD5	Missense_Mutation	SNP	ENST00000531323.1	37	CCDS41658.1	.	.	.	.	.	.	.	.	.	.	G	15.37	2.814661	0.50527	.	.	ENSG00000204922	ENST00000531323;ENST00000377953	.	.	.	5.08	3.17	0.36434	.	0.157554	0.38217	N	0.001763	T	0.40297	0.1111	.	.	.	0.09310	N	1	P	0.40180	0.705	B	0.41510	0.359	T	0.33343	-0.9872	8	0.87932	D	0	-13.4217	11.9872	0.53155	0.0:0.3702:0.6298:0.0	.	52	Q6UW78	CK083_HUMAN	K	52	.	ENSP00000367189:E52K	E	+	1	0	C11orf83	62196034	0.919000	0.31177	0.041000	0.18516	0.002000	0.02628	2.059000	0.41384	0.800000	0.34041	-0.211000	0.12701	GAG		0.667	C11orf83-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394992.2			A	62439458	G	A	62439458	3	1	680	1	0	0	0	0	1	0	0	0	1668	1175	41	2	160	2	C11orf83	11	62439458	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10	34320012	62439458	72567058	57	44034										
ORAOV1	220064	broad.mit.edu	37	chr11	69482297	69482297	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tccatcctcctcaaaatgaaAgtccggaaccttctgcacta	5	14	2	1			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr11:69482297A>G	ENST00000535657.1	-	5	485	c.404T>C	c.(403-405)cTt>cCt	p.L135P	ORAOV1_ENST00000536870.1_Missense_Mutation_p.L76P|ORAOV1_ENST00000279147.4_Missense_Mutation_p.L135P|ORAOV1_ENST00000539414.1_3'UTR			Q8WV07	ORAV1_HUMAN	oral cancer overexpressed 1	135										NS(1)|endometrium(1)|large_intestine(2)|lung(1)	5	all_cancers(3;5.53e-114)|all_epithelial(3;1.34e-121)|Breast(3;9.28e-34)|all_lung(4;1.99e-21)|Lung NSC(4;4.65e-21)|Hepatocellular(3;6.15e-15)|Melanoma(5;1.89e-05)|Ovarian(3;0.0348)		Epithelial(3;5.64e-57)|all cancers(3;5.98e-51)|BRCA - Breast invasive adenocarcinoma(2;5.49e-48)|Lung(3;1.13e-16)|LUSC - Lung squamous cell carcinoma(11;3.74e-15)|STAD - Stomach adenocarcinoma(18;0.0278)|LUAD - Lung adenocarcinoma(13;0.0537)			TCAAAATGAAAGTCCGGAACC	0.428																																																0													101	101	101					11																	69482297		2200	4294	6494	SO:0001583	missense	220064				CCDS8192.1	11q13.2	2010-11-23			ENSG00000149716	ENSG00000149716			17589	protein-coding gene	gene with protein product	"oral cancer overexpressed protein 1-A"	607224				12172009	Standard	NM_153451		Approved	TAOS1	uc001opc.3	Q8WV07		ENST00000535657.1:c.404T>C	11.37:g.69482297A>G	ENSP00000446129:p.Leu135Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4R2|Q8NFK0	Missense_Mutation	SNP	ENST00000535657.1	37	CCDS8192.1	.	.	.	.	.	.	.	.	.	.	A	21.0	4.085253	0.76642	.	.	ENSG00000149716	ENST00000279147;ENST00000536870;ENST00000535657	T;T;T	0.58652	0.42;0.32;0.42	4.89	4.89	0.63831	.	0.219542	0.30920	N	0.008611	T	0.72882	0.3516	M	0.66939	2.045	0.80722	D	1	D;D	0.89917	1.0;0.959	D;P	0.87578	0.998;0.503	T	0.75431	-0.3320	10	0.59425	D	0.04	.	13.0807	0.59112	1.0:0.0:0.0:0.0	.	76;135	F5GWS9;Q8WV07	.;ORAV1_HUMAN	P	135;76;135	ENSP00000279147:L135P;ENSP00000441984:L76P;ENSP00000446129:L135P	ENSP00000279147:L135P	L	-	2	0	ORAOV1	69191478	1.000000	0.71417	1.000000	0.80357	0.950000	0.60333	5.773000	0.68898	1.824000	0.53156	0.443000	0.29094	CTT		0.428	ORAOV1-009	PUTATIVE	basic|appris_candidate_longest|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000396821.1	NM_153451		G	69482297	A	G	69482297	3	3	680	1	0	0	0	0	1	0	0	0	11267	72	3	3	13	3	ORAOV1	11	69482297	Missense_Mutation	SNP	A	TCGA-KO-8409-01A-11D-2310-10	7042839	69482297	65524219	58	44035										
TRPC6	7225	mdanderson.org	37	chr11	101454192	101454192	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ggctccggcagcgccccgggGagaactgcccctccggggcc	16	18	0	1	rs3802829	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr11:101454192G>A	ENST00000344327.3	-	1	467	c.43C>T	c.(43-45)Ccc>Tcc	p.P15S	TRPC6_ENST00000526713.1_Intron|TRPC6_ENST00000360497.4_Missense_Mutation_p.P15S|RP11-748H22.1_ENST00000527374.1_RNA|TRPC6_ENST00000348423.4_Missense_Mutation_p.P15S|TRPC6_ENST00000532133.1_Missense_Mutation_p.P15S	NM_004621.5	NP_004612.2	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel, subfamily C, member 6	15					aging (GO:0007568)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|calcium ion transmembrane transport (GO:0070588)|cation transport (GO:0006812)|cellular response to hydrogen peroxide (GO:0070301)|cellular response to hypoxia (GO:0071456)|ion transmembrane transport (GO:0034220)|platelet activation (GO:0030168)|positive regulation of calcium ion transport (GO:0051928)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of ion transmembrane transporter activity (GO:0032414)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|slit diaphragm (GO:0036057)	inositol 1,4,5 trisphosphate binding (GO:0070679)|store-operated calcium channel activity (GO:0015279)			autonomic_ganglia(1)|breast(3)|central_nervous_system(2)|endometrium(3)|kidney(3)|large_intestine(14)|lung(17)|ovary(2)|pancreas(1)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	55		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		GCGCCCCGGGGAGAACTGCCC	0.741													G|||	339	0.0676917	0.0038	0.0605	5008	,	,		10026	0.13		0.1064	False		,,,				2504	0.0552				Colon(166;1315 1927 11094 12848 34731)											0								G	SER/PRO	76,3982		3,70,1956	5	7	6		43	4.6	0.7	11	dbSNP_107	6	680,7230		20,640,3295	no	missense	TRPC6	NM_004621.5	74	23,710,5251	AA,AG,GG		8.5967,1.8728,6.3168	benign	15/932	101454192	756,11212	2029	3955	5984	SO:0001583	missense	7225			AJ006276	CCDS8311.1	11q22.1	2014-02-04				ENSG00000137672		"Voltage-gated ion channels / Transient receptor potential cation channels"	12338	protein-coding gene	gene with protein product		603652	"focal segmental glomerulosclerosis 2"	FSGS2		9925922, 16382100, 15879175	Standard	NM_004621		Approved	TRP6	uc001pgk.4	Q9Y210		ENST00000344327.3:c.43C>T	11.37:g.101454192G>A	ENSP00000340913:p.Pro15Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q52M59|Q9HCW3|Q9NQA8|Q9NQA9	Missense_Mutation	SNP	ENST00000344327.3	37	CCDS8311.1	178	0.0815018315018315	0	0.0	26	0.0718232044198895	73	0.12762237762237763	79	0.10422163588390501	G	10.08	1.252041	0.22880	0.018728	0.085967	ENSG00000137672	ENST00000344327;ENST00000532133;ENST00000348423;ENST00000360497	T;T;T;T	0.79141	-1.04;-1.13;-1.0;-1.24	4.61	4.61	0.57282	.	1.645960	0.03897	N	0.279764	T	0.01387	0.0045	N	0.08118	0	0.48236	P	3.809999999999647E-4	B;B;B	0.26512	0.151;0.151;0.093	B;B;B	0.32864	0.154;0.154;0.074	T	0.10291	-1.0636	9	0.20046	T	0.44	-1.4425	12.9414	0.58348	0.0:0.0:1.0:0.0	rs3802829	15;15;15	Q9Y210-3;Q9Y210-2;Q9Y210	.;.;TRPC6_HUMAN	S	15	ENSP00000340913:P15S;ENSP00000435574:P15S;ENSP00000343672:P15S;ENSP00000353687:P15S	ENSP00000340913:P15S	P	-	1	0	TRPC6	100959402	0.971000	0.33674	0.702000	0.30337	0.033000	0.12548	2.484000	0.45242	2.100000	0.63781	0.561000	0.74099	CCC		0.741	TRPC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394770.1	NM_004621		A	101454192	G	A	101454192	3	1	680	1	0	0	0	0	1	0	0	0	16595	1174	41	2	2804	2	TRPC6	11	101454192	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10	31971895	101454192	33552324	59	44036										
TAS2R50	259296	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr12	11139408	11139408	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	attggcaaagtttccgagaaCaaataaaaccattattagaa	6	6	0	2			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr12:11139408C>A	ENST00000506868.1	-	1	103	c.52G>T	c.(52-54)Gtt>Ttt	p.V18F	TAS2R14_ENST00000381852.4_Intron|PRR4_ENST00000536668.1_Intron	NM_176890.2	NP_795371.2	P59544	T2R50_HUMAN	taste receptor, type 2, member 50	18					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(6)|lung(4)|ovary(2)|pancreas(1)	17						TTTCCGAGAACAAATAAAACC	0.338																																																0													41	48	45					12																	11139408		2199	4297	6496	SO:0001583	missense	259296			AF494235	CCDS8638.1	12p13.2	2012-08-22			ENSG00000212126	ENSG00000212126		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	18882	protein-coding gene	gene with protein product		609627				12379855, 12584440, 16175505	Standard	NM_176890		Approved	T2R51	uc001qzl.2	P59544	OTTHUMG00000162719	ENST00000506868.1:c.52G>T	12.37:g.11139408C>A	ENSP00000424040:p.Val18Phe	Somatic		WXS	Illumina HiSeq	Phase_I	P59545|Q2M255|Q645Y0	Missense_Mutation	SNP	ENST00000506868.1	37	CCDS8638.1	.	.	.	.	.	.	.	.	.	.	C	11.06	1.526332	0.27299	.	.	ENSG00000212126	ENST00000506868	T	0.39997	1.05	2.19	-1.66	0.08265	.	0.399174	0.17157	N	0.184841	T	0.30386	0.0763	L	0.45137	1.4	0.09310	N	1	B	0.33044	0.395	B	0.37943	0.261	T	0.21245	-1.0251	10	0.52906	T	0.07	.	3.705	0.08397	0.0:0.2865:0.4131:0.3004	.	18	P59544	T2R50_HUMAN	F	18	ENSP00000424040:V18F	ENSP00000424040:V18F	V	-	1	0	TAS2R50	11030675	0.000000	0.05858	0.002000	0.10522	0.166000	0.22503	-5.366000	0.00128	-0.130000	0.11599	0.313000	0.20887	GTT		0.338	TAS2R50-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370192.2	NM_176890		A	11139408	C	A	11139408	3	1	680	1	0	0	0	0	1	0	0	0	15596	478	17	4	851	4	TAS2R50	12	11139408	Missense_Mutation	SNP	C	TCGA-KO-8409-01A-11D-2310-10		11139408	122712487	60	44037										
MYF6	4618	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	81102660	81102660	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gtcagcctcgagtagccttcGatgcctttcttccatcgtgg	10	13	2	0			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr12:81102660G>A	ENST00000228641.3	+	3	872	c.650G>A	c.(649-651)cGa>cAa	p.R217Q		NM_002469.2	NP_002460.1	P23409	MYF6_HUMAN	myogenic factor 6 (herculin)	217					muscle cell differentiation (GO:0042692)|muscle cell fate commitment (GO:0042693)|muscle tissue morphogenesis (GO:0060415)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|skeletal muscle cell differentiation (GO:0035914)|skeletal muscle tissue development (GO:0007519)|skeletal muscle tissue regeneration (GO:0043403)|somitogenesis (GO:0001756)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|protein heterodimerization activity (GO:0046982)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(5)|lung(12)|skin(1)	26						AGTAGCCTTCGATGCCTTTCT	0.522																																																0													171	148	156					12																	81102660		2203	4300	6503	SO:0001583	missense	4618				CCDS9019.1	12q21	2013-05-21				ENSG00000111046		"Basic helix-loop-helix proteins"	7566	protein-coding gene	gene with protein product	"muscle-specific regulatory factor 4"	159991				8978788	Standard	NM_002469		Approved	MRF4, bHLHc4	uc001szf.2	P23409		ENST00000228641.3:c.650G>A	12.37:g.81102660G>A	ENSP00000228641:p.Arg217Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2R898|Q53X80|Q6FHI9	Missense_Mutation	SNP	ENST00000228641.3	37	CCDS9019.1	.	.	.	.	.	.	.	.	.	.	G	12.81	2.048748	0.36181	.	.	ENSG00000111046	ENST00000228641	D	0.95980	-3.87	5.6	4.7	0.59300	.	0.191189	0.46442	N	0.000289	D	0.91713	0.7380	L	0.43152	1.355	0.37091	D	0.899427	B	0.21147	0.052	B	0.08055	0.003	D	0.89343	0.3655	10	0.27785	T	0.31	-17.1862	11.6151	0.51086	0.0847:0.0:0.9153:0.0	.	217	P23409	MYF6_HUMAN	Q	217	ENSP00000228641:R217Q	ENSP00000228641:R217Q	R	+	2	0	MYF6	79626791	0.941000	0.31946	0.978000	0.43139	0.985000	0.73830	1.817000	0.39002	1.338000	0.45544	0.591000	0.81541	CGA		0.522	MYF6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407756.1	NM_002469		A	81102660	G	A	81102660	3	1	680	1	0	0	0	0	1	0	0	0	10035	1058	37	1	660	1	MYF6	12	81102660	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10	69963252	81102660	52749235	61	44038										
C12orf51	283450	broad.mit.edu	37	chr12	112688161	112688162	+	Frame_Shift_Ins	INS	-	-	C													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	aggggagatcacgccattggINScctccacctgccactggcac							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr12:112688161_112688162insC	ENST00000430131.2	-	24	3615_3616	c.2470_2471insG	c.(2470-2472)gccfs	p.A824fs	HECTD4_ENST00000550722.1_Frame_Shift_Ins_p.A1100fs|HECTD4_ENST00000377560.5_Frame_Shift_Ins_p.A1074fs			Q9Y4D8	HECD4_HUMAN	HECT domain containing E3 ubiquitin protein ligase 4	824					glucose homeostasis (GO:0042593)|glucose metabolic process (GO:0006006)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)										CACGCCATTGGCCTCCACCTGC	0.525																																																0																																										SO:0001589	frameshift_variant	283450			AK091473		12q24.13	2013-07-17	2012-08-14	2012-08-14	ENSG00000173064	ENSG00000173064			26611	protein-coding gene	gene with protein product			"chromosome 12 open reading frame 51"	C12orf51		21270382	Standard	NM_001109662		Approved	FLJ34154, KIAA0614	uc021reb.1	Q9Y4D8	OTTHUMG00000150719	ENST00000430131.2:c.2471dupG	12.37:g.112688163_112688163dupC	ENSP00000404379:p.Ala824fs	Somatic		WXS	Illumina HiSeq	Phase_I	L8B0P6|Q3MJD5|Q6P0A0|Q7L530|Q8NB70|Q8WU73|Q96NT9|Q9NZS4|Q9UFT6	Frame_Shift_Ins	INS	ENST00000430131.2	37																																																																																					0.525	HECTD4-202	KNOWN	basic	protein_coding	protein_coding		NM_173813		C	112688162	-	C	112688161	7	5	680	1	0	1	1	0	0	0	0	0	1698	1203	42	0	9727	0	C12orf51	12	112688161	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10	31585501	112688161	21163734	62	44039										
PSPC1	55269	mdanderson.org	37	chr13	20279923	20279923	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tgttgttcatattcatacccAtcattggaggaggaccttgg	10	8	3	0			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr13:20279923A>G	ENST00000338910.4	-	8	1424	c.1265T>C	c.(1264-1266)aTg>aCg	p.M422T		NM_001042414.2	NP_001035879.1	Q8WXF1	PSPC1_HUMAN	paraspeckle component 1	422	Gly-rich.				negative regulation of transcription, DNA-templated (GO:0045892)|regulation of circadian rhythm (GO:0042752)|rhythmic process (GO:0048511)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)|paraspeckles (GO:0042382)	core promoter binding (GO:0001047)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(1)|large_intestine(4)|lung(10)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	23		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		ATTCATACCCATCATTGGAGG	0.468																																																0													145	149	148					13																	20279923		1886	4123	6009	SO:0001583	missense	55269			AK001817	CCDS41870.1	13q11	2013-02-12			ENSG00000121390	ENSG00000121390		"RNA binding motif (RRM) containing"	20320	protein-coding gene	gene with protein product		612408				11790299	Standard	NM_001042414		Approved	PSP1, FLJ10955	uc021rgx.1	Q8WXF1	OTTHUMG00000016502	ENST00000338910.4:c.1265T>C	13.37:g.20279923A>G	ENSP00000343966:p.Met422Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JTQ3|Q8NCZ9|Q8WXE8|Q9NV36	Missense_Mutation	SNP	ENST00000338910.4	37	CCDS41870.1	.	.	.	.	.	.	.	.	.	.	A	12.20	1.865591	0.32977	.	.	ENSG00000121390	ENST00000338910;ENST00000422828	T	0.14640	2.49	5.29	5.29	0.74685	.	0.000000	0.85682	D	0.000000	T	0.21347	0.0514	L	0.46157	1.445	0.58432	D	0.999996	P	0.40431	0.717	P	0.49047	0.599	T	0.02109	-1.1212	10	0.22706	T	0.39	-8.3789	15.2195	0.73299	1.0:0.0:0.0:0.0	.	422	Q8WXF1	PSPC1_HUMAN	T	422;362	ENSP00000343966:M422T	ENSP00000343966:M422T	M	-	2	0	PSPC1	19177923	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	8.224000	0.89781	2.001000	0.58596	0.402000	0.26972	ATG		0.468	PSPC1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044037.2			G	20279923	A	G	20279923	3	3	680	1	0	0	0	0	1	0	0	0	12726	217	8	3	314	3	PSPC1	13	20279923	Missense_Mutation	SNP	A	TCGA-KO-8409-01A-11D-2310-10		20279923	94889955	63	44040										
POTEG	404785	broad.mit.edu	37	chr14	19553498	19553499	+	Frame_Shift_Ins	INS	-	-	G													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	aagcaagatgggcaagtggtINSgccgccactgcttcccctgg							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr14:19553498_19553499insG	ENST00000409832.3	+	1	134_135	c.82_83insG	c.(82-84)tgcfs	p.C28fs		NM_001005356.2	NP_001005356.1	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	28										cervix(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(31)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	47						GGGCAAGTGGTGCCGCCACTGC	0.574																																																0																																										SO:0001589	frameshift_variant	404785				CCDS73610.1	14q11.2	2013-01-10	2008-11-26	2008-11-26	ENSG00000222036	ENSG00000222036		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33896	protein-coding gene	gene with protein product	"cancer/testis antigen family 104, member 4"	608916	"ANKRD26-like family C, member 2"	A26C2			Standard	NR_027480		Approved	POTE14, POTE-14, POTE14alpha, CT104.4	uc001vuz.1	Q6S5H5	OTTHUMG00000170340	ENST00000409832.3:c.83dupG	14.37:g.19553499_19553499dupG	ENSP00000386971:p.Cys28fs	Somatic		WXS	Illumina HiSeq	Phase_I	A1L153|A6NMI9|Q6S5H6|Q6S8J2	Frame_Shift_Ins	INS	ENST00000409832.3	37	CCDS32018.1																																																																																				0.574	POTEG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408579.1	NM_001005356		G	19553499	-	G	19553498	7	5	680	1	0	1	1	0	0	0	0	0	12273	1696	59	0	84	0	POTEG	14	19553498	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10		19553498	87796042	64	44041										
LRFN5	145581	broad.mit.edu	37	chr14	42356435	42356435	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	agatgactcggttagatgtgAcatcaaataaattgcagaag	10	5	1	5			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr14:42356435A>G	ENST00000298119.4	+	3	1796	c.607A>G	c.(607-609)Aca>Gca	p.T203A	LRFN5_ENST00000554120.1_Missense_Mutation_p.T203A|LRFN5_ENST00000554171.1_Missense_Mutation_p.T203A	NM_152447.3	NP_689660.2	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III domain containing 5	203						integral component of membrane (GO:0016021)				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)		GTTAGATGTGACATCAAATAA	0.428										HNSCC(30;0.082)																																						0													71	65	67					14																	42356435		2203	4300	6503	SO:0001583	missense	145581			AK055365	CCDS9678.1	14q21.1	2013-02-11	2004-02-02	2004-02-04	ENSG00000165379	ENSG00000165379		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	20360	protein-coding gene	gene with protein product	"fibronectin type III, immunoglobulin and leucine rich repeat domains 8"	612811	"chromosome 14 open reading frame 146"	C14orf146		16828986	Standard	NM_152447		Approved	FIGLER8, SALM5	uc001wvm.3	Q96NI6	OTTHUMG00000140261	ENST00000298119.4:c.607A>G	14.37:g.42356435A>G	ENSP00000298119:p.Thr203Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B3KU78|Q86XL2	Missense_Mutation	SNP	ENST00000298119.4	37	CCDS9678.1	.	.	.	.	.	.	.	.	.	.	A	17.11	3.305424	0.60305	.	.	ENSG00000165379	ENST00000298119;ENST00000554120;ENST00000554171	T;T;T	0.51071	0.72;0.72;0.72	5.56	5.56	0.83823	.	0.000000	0.64402	D	0.000018	T	0.43500	0.1250	N	0.02334	-0.595	0.58432	D	0.999999	D;D	0.89917	1.0;0.999	D;D	0.85130	0.997;0.996	T	0.58752	-0.7581	10	0.45353	T	0.12	.	13.6661	0.62396	1.0:0.0:0.0:0.0	.	203;203	G3V364;Q96NI6	.;LRFN5_HUMAN	A	203	ENSP00000298119:T203A;ENSP00000451897:T203A;ENSP00000451067:T203A	ENSP00000298119:T203A	T	+	1	0	LRFN5	41426185	1.000000	0.71417	1.000000	0.80357	0.950000	0.60333	9.324000	0.96373	2.098000	0.63641	0.528000	0.53228	ACA		0.428	LRFN5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276786.1	NM_152447		G	42356435	A	G	42356435	3	3	680	1	0	0	0	0	1	0	0	0	8948	275	10	3	609	3	LRFN5	14	42356435	Missense_Mutation	SNP	A	TCGA-KO-8409-01A-11D-2310-10	22802937	42356435	64993105	65	44042										
YLPM1	56252	broad.mit.edu	37	chr14	75248591	75248592	+	Frame_Shift_Ins	INS	-	-	C													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ctctctcttcaacagcacctINSccacctgtcatgcccctccc							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr14:75248591_75248592insC	ENST00000552421.1	+	4	1969_1970	c.1845_1846insC	c.(1846-1848)ccafs	p.P616fs	YLPM1_ENST00000238571.3_Intron|YLPM1_ENST00000325680.7_Frame_Shift_Ins_p.P616fs			P49750	YLPM1_HUMAN	YLP motif containing 1	0					regulation of telomere maintenance (GO:0032204)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)			breast(4)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(12)|lung(24)|ovary(3)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(1)	62			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		CAACAGCACCTCCACCTGTCAT	0.579																																																0																																										SO:0001589	frameshift_variant	56252			AK090435	CCDS45135.1	14q24.3	2014-06-13	2004-07-15	2004-07-15	ENSG00000119596	ENSG00000119596			17798	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 169"		"chromosome 14 open reading frame 170"	C14orf170		7596406	Standard	NM_019589		Approved	ZAP, PPP1R169	uc001xqj.4	P49750	OTTHUMG00000172503	ENST00000552421.1:c.1847dupC	14.37:g.75248593_75248593dupC	ENSP00000447921:p.Pro616fs	Somatic		WXS	Illumina HiSeq	Phase_I	P49752|Q96I64|Q9P1V7	Frame_Shift_Ins	INS	ENST00000552421.1	37																																																																																					0.579	YLPM1-008	NOVEL	not_organism_supported|basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000404450.1	NM_019589		C	75248592	-	C	75248591	7	5	680	1	0	1	1	0	0	0	0	0	17498	1538	54	0	1859	0	YLPM1	14	75248591	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10	32892156	75248591	32100949	66	44043										
KIAA1737	85457	hgsc.bcm.edu	37	chr14	77580242	77580243	+	Frame_Shift_Ins	INS	-	-	C													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tcccagtctgaccttcgcttINScccccgccagtcctgtctgc					rs74069038		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr14:77580242_77580243insC	ENST00000361786.2	+	4	1098_1099	c.781_782insC	c.(781-783)tccfs	p.S261fs	RP11-463C8.4_ENST00000557752.1_Intron	NM_033426.2	NP_219494.2	Q9C0C6	CIPC_HUMAN		261					negative regulation of circadian rhythm (GO:0042754)|negative regulation of transcription, DNA-templated (GO:0045892)|rhythmic process (GO:0048511)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)				endometrium(2)|lung(4)|prostate(3)	9			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0284)		GACCTTCGCTTCCCCCGCCAGT	0.564																																																0																																										SO:0001589	frameshift_variant	85457																														ENST00000361786.2:c.786dupC	14.37:g.77580247_77580247dupC	ENSP00000355319:p.Ser261fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCI1|Q8N389|Q8NDZ1	Frame_Shift_Ins	INS	ENST00000361786.2	37	CCDS9855.1																																																																																				0.564	KIAA1737-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414278.1			C	77580243	-	C	77580242	7	5	680	1	0	1	1	0	0	0	0	0	8262	1783	62	0	791	0	KIAA1737	14	77580242	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10	2331651	77580242	29769298	67	44044										
PPP1R13B	23368	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	104205041	104205041	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	atcactatcagcagcattcaCgttgacaccaaaatccagca	5	13	3	1			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr14:104205041C>T	ENST00000202556.9	-	14	3121	c.2839G>A	c.(2839-2841)Gtg>Atg	p.V947M	PPP1R13B_ENST00000423488.2_Missense_Mutation_p.V366M|PPP1R13B_ENST00000555391.1_5'UTR	NM_015316.2	NP_056131.2	Q96KQ4	ASPP1_HUMAN	protein phosphatase 1, regulatory subunit 13B	947					intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|negative regulation of cell cycle (GO:0045786)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				endometrium(6)|kidney(2)|large_intestine(7)|lung(16)|ovary(1)|upper_aerodigestive_tract(1)	33		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				GCAGCATTCACGTTGACACCA	0.542																																																0													142	150	147					14																	104205041		2149	4265	6414	SO:0001583	missense	23368			AB018314	CCDS41997.1	14q32.33	2013-01-10	2011-10-04		ENSG00000088808	ENSG00000088808		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits", "Ankyrin repeat domain containing"	14950	protein-coding gene	gene with protein product		606455	"protein phosphatase 1, regulatory (inhibitor) subunit 13B"			9872452	Standard	NM_015316		Approved	p53BP2-like, KIAA0771, p85, ASPP1	uc001yof.1	Q96KQ4	OTTHUMG00000171647	ENST00000202556.9:c.2839G>A	14.37:g.104205041C>T	ENSP00000202556:p.Val947Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMX5|O94870	Missense_Mutation	SNP	ENST00000202556.9	37	CCDS41997.1	.	.	.	.	.	.	.	.	.	.	C	32	5.169936	0.94768	.	.	ENSG00000088808	ENST00000202556;ENST00000423488	T;T	0.69685	-0.35;-0.42	5.25	5.25	0.73442	Src homology-3 domain (1);Ankyrin repeat-containing domain (3);	0.000000	0.85682	D	0.000000	T	0.80904	0.4713	M	0.62088	1.915	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.82118	-0.0615	10	0.87932	D	0	.	19.0309	0.92957	0.0:1.0:0.0:0.0	.	947	Q96KQ4	ASPP1_HUMAN	M	947;366	ENSP00000202556:V947M;ENSP00000395213:V366M	ENSP00000202556:V947M	V	-	1	0	PPP1R13B	103274794	1.000000	0.71417	0.980000	0.43619	0.905000	0.53344	7.528000	0.81941	2.744000	0.94065	0.561000	0.74099	GTG		0.542	PPP1R13B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414591.1	NM_015316		T	104205041	C	T	104205041	3	4	680	1	0	0	0	0	1	0	0	0	12367	536	19	1	449	1	PPP1R13B	14	104205041	Missense_Mutation	SNP	C	TCGA-KO-8409-01A-11D-2310-10	26624799	104205041	3144499	68	44045										
PLA2G4D	283748	broad.mit.edu	37	chr15	42362217	42362218	+	Frame_Shift_Ins	INS	-	-	G													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gcattcccttggctggtgctINSggtcctgagggctgggttcc							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr15:42362217_42362218insG	ENST00000290472.3	-	19	2213_2214	c.2119_2120insC	c.(2119-2121)cagfs	p.Q707fs		NM_178034.3	NP_828848.3	Q86XP0	PA24D_HUMAN	phospholipase A2, group IVD (cytosolic)	707	PLA2c. {ECO:0000255|PROSITE- ProRule:PRU00555}.				glycerophospholipid biosynthetic process (GO:0046474)|phosphatidic acid biosynthetic process (GO:0006654)|phosphatidylcholine acyl-chain remodeling (GO:0036151)|phosphatidylethanolamine acyl-chain remodeling (GO:0036152)|phosphatidylglycerol acyl-chain remodeling (GO:0036148)|phosphatidylinositol acyl-chain remodeling (GO:0036149)|phosphatidylserine acyl-chain remodeling (GO:0036150)|phospholipid catabolic process (GO:0009395)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|membrane (GO:0016020)	metal ion binding (GO:0046872)|phospholipase A2 activity (GO:0004623)			NS(1)|breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(4)|lung(7)|ovary(1)|skin(2)|stomach(1)	27		all_cancers(109;6.37e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.019)|Ovarian(310;0.143)|Colorectal(260;0.245)		OV - Ovarian serous cystadenocarcinoma(18;4.9e-17)|GBM - Glioblastoma multiforme(94;1.02e-06)		TGGCTGGTGCTGGTCCTGAGGG	0.688																																																0																																										SO:0001589	frameshift_variant	283748			AB090876	CCDS32203.1	15q14	2008-09-19				ENSG00000159337	3.1.1.4		30038	protein-coding gene	gene with protein product		612864				14709560	Standard	NM_178034		Approved	cPLA2delta	uc001zox.3	Q86XP0		ENST00000290472.3:c.2120dupC	15.37:g.42362219_42362219dupG	ENSP00000290472:p.Gln707fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N176	Frame_Shift_Ins	INS	ENST00000290472.3	37	CCDS32203.1																																																																																				0.688	PLA2G4D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419317.1	NM_178034		G	42362218	-	G	42362217	7	5	680	1	0	1	1	0	0	0	0	0	12011	1580	55	0	344	0	PLA2G4D	15	42362217	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10		42362217	60169175	69	44046										
C15orf48	84419	broad.mit.edu	37	chr15	45723237	45723238	+	Frame_Shift_Ins	INS	-	-	G													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tcatgactgtggcggcgggtINSggagcctcatctttcgctgt							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr15:45723237_45723238insG	ENST00000344300.3	+	2	265_266	c.75_76insG	c.(76-78)ggafs	p.G26fs	MIR147B_ENST00000390185.1_RNA|C15orf48_ENST00000396650.2_Frame_Shift_Ins_p.G26fs|RP11-519G16.5_ENST00000559553.1_RNA	NM_032413.3	NP_115789.1	Q9C002	NMES1_HUMAN	chromosome 15 open reading frame 48	26						mitochondrion (GO:0005739)|nucleus (GO:0005634)				large_intestine(1)|lung(2)|ovary(1)	4		Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.67e-16)|GBM - Glioblastoma multiforme(94;1.71e-06)		TGGCGGCGGGTGGAGCCTCATC	0.416																																																0																																										SO:0001589	frameshift_variant	84419				CCDS10124.1	15q21.1	2014-05-29			ENSG00000166920	ENSG00000166920			29898	protein-coding gene	gene with protein product	"normal mucosa of esophagus specific 1"	608409				12209954	Standard	NM_032413		Approved	NMES1	uc001zvh.4	Q9C002	OTTHUMG00000131424	ENST00000344300.3:c.77dupG	15.37:g.45723239_45723239dupG	ENSP00000341610:p.Gly26fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000344300.3	37	CCDS10124.1																																																																																				0.416	C15orf48-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254217.2	NM_032413		G	45723238	-	G	45723237	7	5	680	1	0	1	1	0	0	0	0	0	1801	1683	59	0	81	0	C15orf48	15	45723237	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10	3361020	45723237	56808155	70	44047										
FAM154B	283726	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr15	82564044	82564044	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	atcttggtactacctacaaaCgggatttgaattcgtataaa	7	7	1	1	rs150372195		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr15:82564044C>T	ENST00000339465.5	+	2	223	c.154C>T	c.(154-156)Cgg>Tgg	p.R52W	FAM154B_ENST00000565501.1_3'UTR|FAM154B_ENST00000427381.2_Missense_Mutation_p.R37W|FAM154B_ENST00000565432.1_Missense_Mutation_p.R65W	NM_001008226.1	NP_001008227.1	Q658L1	F154B_HUMAN	family with sequence similarity 154, member B	52										autonomic_ganglia(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(9)|skin(2)	19						TACCTACAAACGGGATTTGAA	0.408																																																0								C	TRP/ARG	1,4405	2.1+/-5.4	0,1,2202	92	83	86		154	4	1	15	dbSNP_134	86	0,8600		0,0,4300	no	missense	FAM154B	NM_001008226.1	101	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging	52/399	82564044	1,13005	2203	4300	6503	SO:0001583	missense	283726			AL833762	CCDS32310.1	15q25.2	2008-02-21				ENSG00000188659			33727	protein-coding gene	gene with protein product							Standard	XM_005254317		Approved	DKFZp666G057	uc002bgv.3	Q658L1		ENST00000339465.5:c.154C>T	15.37:g.82564044C>T	ENSP00000340445:p.Arg52Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2M2	Missense_Mutation	SNP	ENST00000339465.5	37	CCDS32310.1	.	.	.	.	.	.	.	.	.	.	C	16.69	3.192179	0.58017	2.27E-4	0.0	ENSG00000188659	ENST00000339465;ENST00000427381	T;T	0.18810	2.19;2.19	4.98	3.99	0.46301	.	0.434099	0.19405	N	0.115064	T	0.35856	0.0946	M	0.65975	2.015	0.21933	N	0.999469	D;D	0.67145	0.996;0.996	P;P	0.56648	0.802;0.803	T	0.10042	-1.0647	10	0.66056	D	0.02	-1.3395	11.0297	0.47765	0.3549:0.6451:0.0:0.0	.	37;52	B4E2M2;Q658L1	.;F154B_HUMAN	W	52;37	ENSP00000340445:R52W;ENSP00000403743:R37W	ENSP00000340445:R52W	R	+	1	2	FAM154B	80351099	0.586000	0.26782	0.982000	0.44146	0.533000	0.34776	3.035000	0.49759	2.481000	0.83766	0.591000	0.81541	CGG		0.408	FAM154B-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000419644.1	NM_001008226		T	82564044	C	T	82564044	3	4	680	1	0	0	0	0	1	0	0	0	5468	527	19	1	160	1	FAM154B	15	82564044	Missense_Mutation	SNP	C	TCGA-KO-8409-01A-11D-2310-10	36840807	82564044	19967348	71	44048										
ZSCAN10	84891	broad.mit.edu	37	chr16	3140487	3140488	+	Frame_Shift_Ins	INS	-	-	C													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gggacccatcttcaccagggINSccgctagccgcagcgccccg					rs140902087		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr16:3140487_3140488insC	ENST00000252463.2	-	5	869_870	c.782_783insG	c.(781-783)ggcfs	p.G261fs	ZSCAN10_ENST00000538082.2_Frame_Shift_Ins_p.G179fs|ZSCAN10_ENST00000575108.1_5'UTR	NM_032805.1	NP_116194.1	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	261					negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|cervix(3)|endometrium(3)|kidney(1)|lung(8)|ovary(2)|prostate(1)|skin(4)|urinary_tract(1)	24						CTTCACCAGGGCCGCTAGCCGC	0.639																																																0																																										SO:0001589	frameshift_variant	84891			AA206569	CCDS10493.1, CCDS61813.1, CCDS61814.1	16p13.3	2013-01-08	2007-02-20	2007-02-20		ENSG00000130182		"-", "Zinc fingers, C2H2-type"	12997	protein-coding gene	gene with protein product			"zinc finger protein 206"	ZNF206		9653642	Standard	NM_032805		Approved		uc002ctv.1	Q96SZ4		ENST00000252463.2:c.783dupG	16.37:g.3140489_3140489dupC	ENSP00000252463:p.Gly261fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQD3|H0YFS6|Q1WWM2	Frame_Shift_Ins	INS	ENST00000252463.2	37	CCDS10493.1																																																																																				0.639	ZSCAN10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437124.2	NM_032805		C	3140488	-	C	3140487	7	5	680	1	0	1	1	0	0	0	0	0	18239	1190	42	0	1398	0	ZSCAN10	16	3140487	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10		3140487	87214266	72	44049										
EARS2	124454	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr16	23546345	23546345	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tccctgttgaggagcaggggCaggtgggcgaagtggggtgg	22	6	0	1			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr16:23546345C>A	ENST00000563459.1	-	4	828	c.822G>T	c.(820-822)ctG>ctT	p.L274L	EARS2_ENST00000564987.1_5'UTR|EARS2_ENST00000563232.1_Silent_p.L274L|EARS2_ENST00000449606.1_Silent_p.L274L|EARS2_ENST00000564501.1_Silent_p.L274L			Q5JPH6	SYEM_HUMAN	glutamyl-tRNA synthetase 2, mitochondrial	274					gene expression (GO:0010467)|glutamyl-tRNA aminoacylation (GO:0006424)|tRNA aminoacylation for mitochondrial protein translation (GO:0070127)|tRNA aminoacylation for protein translation (GO:0006418)	mitochondrion (GO:0005739)	ATP binding (GO:0005524)|glutamate-tRNA ligase activity (GO:0004818)|glutamate-tRNA(Gln) ligase activity (GO:0050561)|tRNA binding (GO:0000049)			central_nervous_system(1)|endometrium(1)|lung(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	8				GBM - Glioblastoma multiforme(48;0.0353)		GGAGCAGGGGCAGGTGGGCGA	0.627																																																0													31	35	34					16																	23546345		2092	4227	6319	SO:0001819	synonymous_variant	124454			AB075850	CCDS42132.1	16p12.2	2014-05-06	2012-10-26		ENSG00000103356	ENSG00000103356	6.1.1.17	"Aminoacyl tRNA synthetases / Class I"	29419	protein-coding gene	gene with protein product	"glutamate tRNA ligase 2, mitochondrial"	612799	"glutamyl-tRNA synthetase 2, mitochondrial (putative)"			15779907, 19805282, 22492562	Standard	NM_001083614		Approved	KIAA1970, MSE1	uc002dlt.4	Q5JPH6	OTTHUMG00000177018	ENST00000563459.1:c.822G>T	16.37:g.23546345C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KTT2|D3DWF1|Q86YH3|Q8TF31	Silent	SNP	ENST00000563459.1	37	CCDS42132.1																																																																																				0.627	EARS2-001	KNOWN	NMD_exception|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000434844.1	NM_133451		A	23546345	C	A	23546345	2	1	680	1	0	0	0	0	0	0	0	1	4880	697	25	4		4	EARS2	16	23546345	Silent	SNP	C	TCGA-KO-8409-01A-11D-2310-10	20405858	23546345	66808408	73	44050										
BCAR1	9564	mdanderson.org	37	chr16	75269477	75269477	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gccacctccaaggaggacgcAgactggctgctgcgtgtgct	14	13	0	1	rs61729595	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr16:75269477A>C	ENST00000162330.5	-	5	1446	c.1320T>G	c.(1318-1320)tcT>tcG	p.S440S	BCAR1_ENST00000393420.6_Silent_p.S458S|BCAR1_ENST00000566982.1_5'UTR|BCAR1_ENST00000418647.3_Silent_p.S486S|BCAR1_ENST00000538440.2_Silent_p.S440S|BCAR1_ENST00000546196.1_Silent_p.S411S|BCAR1_ENST00000393422.2_Silent_p.S458S|BCAR1_ENST00000542031.2_Silent_p.S438S|BCAR1_ENST00000535626.2_Silent_p.S292S|BCAR1_ENST00000420641.3_Silent_p.S458S	NM_001170717.1|NM_014567.3	NP_001164188.1|NP_055382.2	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	440	Ser-rich.				actin filament organization (GO:0007015)|antigen receptor-mediated signaling pathway (GO:0050851)|B cell receptor signaling pathway (GO:0050853)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell chemotaxis (GO:0060326)|cell division (GO:0051301)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|cellular response to hepatocyte growth factor stimulus (GO:0035729)|epidermal growth factor receptor signaling pathway (GO:0007173)|G-protein coupled receptor signaling pathway (GO:0007186)|hepatocyte growth factor receptor signaling pathway (GO:0048012)|insulin receptor signaling pathway (GO:0008286)|integrin-mediated signaling pathway (GO:0007229)|neurotrophin TRK receptor signaling pathway (GO:0048011)|platelet activation (GO:0030168)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of cell migration (GO:0030335)|positive regulation of endothelial cell migration (GO:0010595)|regulation of apoptotic process (GO:0042981)|regulation of cell growth (GO:0001558)|T cell receptor signaling pathway (GO:0050852)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	protein kinase binding (GO:0019901)|signal transducer activity (GO:0004871)	p.S458S(1)|p.S440S(1)		breast(2)|central_nervous_system(5)|endometrium(1)|kidney(6)|large_intestine(1)|liver(1)|lung(13)|ovary(1)|prostate(3)|upper_aerodigestive_tract(2)	35				BRCA - Breast invasive adenocarcinoma(221;0.169)		AGGAGGACGCAGACTGGCTGC	0.701													A|||	169	0.033746	0.003	0.0375	5008	,	,		15021	0.001		0.0855	False		,,,				2504	0.0532															2	Substitution - coding silent(2)	prostate(2)						A	,,,,,,,,	69,4303		0,69,2117	10	15	13		1458,1374,1374,1374,1320,1314,876,690,1320	-7.5	0	16	dbSNP_129	13	590,7978		14,562,3708	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	BCAR1	NM_001170714.1,NM_001170715.1,NM_001170716.1,NM_001170717.1,NM_001170718.1,NM_001170719.1,NM_001170720.1,NM_001170721.1,NM_014567.3	,,,,,,,,	14,631,5825	CC,CA,AA		6.8861,1.5782,5.0927	,,,,,,,,	486/917,458/889,458/889,458/889,440/871,438/869,292/723,230/661,440/871	75269477	659,12281	2186	4284	6470	SO:0001819	synonymous_variant	9564			AJ242987	CCDS10915.1, CCDS54037.1, CCDS54038.1, CCDS54039.1, CCDS54040.1, CCDS54041.1, CCDS54042.1, CCDS54043.1	16q22-q23	2011-04-13			ENSG00000050820	ENSG00000050820		"Cas scaffolding proteins"	971	protein-coding gene	gene with protein product	"Crk-associated substrate", "Cas scaffolding protein family member 1"	602941				8413311, 10639512	Standard	NM_001170714		Approved	P130Cas, Crkas, CAS, CASS1	uc010vnb.2	P56945	OTTHUMG00000137604	ENST00000162330.5:c.1320T>G	16.37:g.75269477A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KWD7|B4DEV4|B4DGB5|B4DIW5|B7Z7X7|E9PCL5|E9PCV2|F5GXA2|F5GXV6|F5H7Z0|F8WA69|Q6QEF7	Silent	SNP	ENST00000162330.5	37	CCDS10915.1																																																																																				0.701	BCAR1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000269017.1	NM_014567		C	75269477	A	C	75269477	2	2	680	1	0	0	0	0	0	0	0	1	1348	175	7	5		5	BCAR1	16	75269477	Silent	SNP	A	TCGA-KO-8409-01A-11D-2310-10	51723132	75269477	15085276	74	44051										
BANP	54971	mdanderson.org	37	chr16	88105725	88105725	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gcctcctcggaccccgcggcGgcgggcgtggatgggtcgcc	18	16	0	0	rs8050209	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr16:88105725G>A	ENST00000393207.1	+	13	1616	c.1395G>A	c.(1393-1395)gcG>gcA	p.A465A	BANP_ENST00000393208.2_Silent_p.A437A|BANP_ENST00000355163.5_Silent_p.A443A|BANP_ENST00000479780.2_Silent_p.A412A|BANP_ENST00000286122.7_Silent_p.A465A|BANP_ENST00000538234.1_Silent_p.A454A|BANP_ENST00000481948.1_3'UTR|BANP_ENST00000355022.4_Silent_p.A415A	NM_001173543.1	NP_001167014.1	Q8N9N5	BANP_HUMAN	BTG3 associated nuclear protein	465					cell cycle (GO:0007049)|chromatin modification (GO:0016568)|multicellular organismal development (GO:0007275)|negative regulation of protein catabolic process (GO:0042177)|protein localization to nucleus (GO:0034504)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)			NS(1)|endometrium(2)|large_intestine(3)|lung(5)|prostate(1)	12				BRCA - Breast invasive adenocarcinoma(80;0.00551)		ACCCCGCGGCGGCGGGCGTGG	0.706													g|||	2278	0.454872	0.525	0.3804	5008	,	,		14347	0.3016		0.5388	False		,,,				2504	0.4847															0								A	,,,,,,	2401,1967		708,985,491	13	14	14		1353,1329,1236,1362,1395,1245,1311	-11.6	0	16	dbSNP_116	14	4625,3925		1296,2033,946	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	BANP	NM_001173539.1,NM_001173540.1,NM_001173541.1,NM_001173542.1,NM_001173543.1,NM_017869.3,NM_079837.2	,,,,,,	2004,3018,1437	AA,AG,GG		45.9064,45.0321,45.6108	,,,,,,	451/506,443/498,412/467,454/509,465/520,415/470,437/492	88105725	7026,5892	2184	4275	6459	SO:0001819	synonymous_variant	54971			AK094158	CCDS10966.2, CCDS42215.1, CCDS54052.1, CCDS54053.1, CCDS54054.1	16q24	2012-11-22			ENSG00000172530	ENSG00000172530		"BEN domain containing"	13450	protein-coding gene	gene with protein product	"BEN domain containing 1"	611564				10940556, 10950932	Standard	NM_017869		Approved	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1	uc010vow.2	Q8N9N5	OTTHUMG00000137678	ENST00000393207.1:c.1395G>A	16.37:g.88105725G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MU25|A8MX25|B2RCF7|B4DNJ9|F5GZM0|Q96GJ7|Q9NWY1	Silent	SNP	ENST00000393207.1	37	CCDS54054.1																																																																																				0.706	BANP-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000269166.1	NM_017869		A	88105725	G	A	88105725	2	1	680	1	0	0	0	0	0	0	0	1	1310	1103	39	1		1	BANP	16	88105725	Silent	SNP	G	TCGA-KO-8409-01A-11D-2310-10	12836248	88105725	2249028	75	44052										
PELP1	27043	broad.mit.edu	37	chr17	4575433	4575433	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tccagttcttcttcctcctcCtcatcctcctcttcttcttc	1	19	6	0	rs201455361	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr17:4575433C>T	ENST00000574876.1	-	16	2870	c.2853G>A	c.(2851-2853)gaG>gaA	p.E951E	PELP1_ENST00000269230.7_Silent_p.E861E|PELP1_ENST00000572293.1_Silent_p.E1001E|PELP1_ENST00000436683.2_Silent_p.E804E|PELP1_ENST00000301396.4_Silent_p.E1095E			Q8IZL8	PELP1_HUMAN	proline, glutamate and leucine rich protein 1	951	Glu-rich.				cellular response to estrogen stimulus (GO:0071391)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|membrane (GO:0016020)|MLL1 complex (GO:0071339)|nucleolus (GO:0005730)|nucleus (GO:0005634)|transcriptionally active chromatin (GO:0035327)	chromatin binding (GO:0003682)|poly(A) RNA binding (GO:0044822)|transcription factor binding (GO:0008134)			breast(2)|central_nervous_system(2)|endometrium(2)|large_intestine(2)|lung(3)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	15						cttcctcctcctcatcctcct	0.498																																																0													60	65	63					17																	4575433		2079	4157	6236	SO:0001819	synonymous_variant	27043				CCDS58503.1, CCDS58503.2, CCDS62038.1	17p13.2	2012-05-02	2008-02-21			ENSG00000141456			30134	protein-coding gene	gene with protein product		609455	"proline, glutamic acid and leucine rich protein 1"			11481323, 12682072	Standard	NM_014389		Approved	MNAR	uc002fyi.4	Q8IZL8		ENST00000574876.1:c.2853G>A	17.37:g.4575433C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O15450|Q5EGN3|Q6NTE6|Q96FT1|Q9BU60	Silent	SNP	ENST00000574876.1	37	CCDS58503.1																																																																																				0.498	PELP1-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000439140.2	NM_014389		T	4575433	C	T	4575433	2	4	680	1	0	0	0	0	0	0	0	1	11732	680	24	2		2	PELP1	17	4575433	Silent	SNP	C	TCGA-KO-8409-01A-11D-2310-10		4575433	76619777	76	44053										
CCDC144A	9720	broad.mit.edu	37	chr17	16665752	16665753	+	Frame_Shift_Ins	INS	-	-	A													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tctccagaataaaaacttcgINScaagccgactttaataaaac					rs200919178		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr17:16665752_16665753insA	ENST00000360524.8	+	14	3868_3869	c.3792_3793insA	c.(3793-3795)caafs	p.Q1265fs	CCDC144A_ENST00000456009.1_Frame_Shift_Ins_p.Q1031fs|CCDC144A_ENST00000443444.2_Frame_Shift_Ins_p.Q1265fs|CCDC144A_ENST00000399273.1_Frame_Shift_Ins_p.Q1265fs|RP11-219A15.1_ENST00000448331.3_Frame_Shift_Ins_p.Q1265fs	NM_014695.1	NP_055510.1	A2RUR9	C144A_HUMAN	coiled-coil domain containing 144A	1265																	TAAAAACTTCGCAAGCCGACTT	0.347																																																0																																										SO:0001589	frameshift_variant	9720			BC133019	CCDS45621.1	17p11.2	2008-10-23			ENSG00000170160	ENSG00000170160			29072	protein-coding gene	gene with protein product						9628581, 11997339	Standard	NM_014695		Approved	KIAA0565, FLJ43983	uc002gqk.1	A2RUR9	OTTHUMG00000059178	Exception_encountered	17.37:g.16665752_16665753insA	ENSP00000353717:p.Gln1265fs	Somatic		WXS	Illumina HiSeq	Phase_I	O60311|Q6ZU57	Frame_Shift_Ins	INS	ENST00000360524.8	37	CCDS45621.1																																																																																				0.347	CCDC144A-013	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000444093.1			A	16665753	-	A	16665752	7	5	680	1	0	1	1	0	0	0	0	0	2779	1074	38	0	3846	0	CCDC144A	17	16665752	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10	12090319	16665752	64529458	77	44054										
KRTAP9-2	83899	mdanderson.org	37	chr17	39383027	39383027	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gcacaccctgctgccagcccGcctgctgtgtgtccagctgc	11	18	0	0	rs71371478	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr17:39383027G>T	ENST00000377721.3	+	1	128	c.121G>T	c.(121-123)Gcc>Tcc	p.A41S	KRTAP9-2_ENST00000455970.2_Missense_Mutation_p.A41S	NM_031961.2	NP_114167.2	Q9BYQ4	KRA92_HUMAN	keratin associated protein 9-2	41	17 X 5 AA repeats of C-C-[RQVSGE]-[SPTQ]- [TASP].					keratin filament (GO:0045095)		p.A41S(1)		large_intestine(1)|lung(6)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	11		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			CTGCCAGCCCGCCTGCTGTGT	0.637																																																1	Substitution - Missense(1)	skin(1)											59	53	55					17																	39383027		2203	4300	6503	SO:0001583	missense	83899			AJ406946	CCDS32651.1	17q21.2	2013-06-25			ENSG00000239886	ENSG00000239886		"Keratin associated proteins"	16926	protein-coding gene	gene with protein product						11279113	Standard	NM_031961		Approved	KAP9.2	uc002hwf.3	Q9BYQ4	OTTHUMG00000133609	ENST00000377721.3:c.121G>T	17.37:g.39383027G>T	ENSP00000366950:p.Ala41Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RK8|Q2TB15|Q6ISF6	Missense_Mutation	SNP	ENST00000377721.3	37	CCDS32651.1	.	.	.	.	.	.	.	.	.	.	.	0.006	-2.020245	0.00418	.	.	ENSG00000239886	ENST00000377721;ENST00000455970	T;T	0.01192	5.2;5.4	2.86	-2.81	0.05805	.	.	.	.	.	T	0.00328	0.0010	N	0.00368	-1.59	0.09310	N	0.999997	B	0.02656	0.0	B	0.01281	0.0	T	0.39742	-0.9599	9	0.02654	T	1	.	5.0512	0.14508	0.3642:0.0:0.0934:0.5425	.	41	Q9BYQ4	KRA92_HUMAN	S	41	ENSP00000366950:A41S;ENSP00000398325:A41S	ENSP00000366950:A41S	A	+	1	0	KRTAP9-2	36636553	0.000000	0.05858	0.088000	0.20740	0.203000	0.24098	-1.973000	0.01500	-1.243000	0.02519	-4.519000	0.00005	GCC		0.637	KRTAP9-2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257717.1			T	39383027	G	T	39383027	3	4	680	1	0	0	0	0	1	0	0	0	8580	1087	38	4	123	4	KRTAP9-2	17	39383027	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10	22717275	39383027	41812183	78	44055										
CDC27	996	mdanderson.org	37	chr17	45234432	45234432	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	aatcaatataagacactgagGaatctgtattcaaggagtac	8	6	3	2	rs201187810		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr17:45234432G>T	ENST00000066544.3	-	7	782	c.689C>A	c.(688-690)tCc>tAc	p.S230Y	CDC27_ENST00000528748.1_5'UTR|CDC27_ENST00000531206.1_Missense_Mutation_p.S230Y|CDC27_ENST00000446365.2_Missense_Mutation_p.S169Y|CDC27_ENST00000527547.1_Missense_Mutation_p.S230Y	NM_001114091.1|NM_001256.3	NP_001107563.1|NP_001247.3	P30260	CDC27_HUMAN	cell division cycle 27	230					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|cell proliferation (GO:0008283)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|mitotic cell cycle (GO:0000278)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K11-linked ubiquitination (GO:0070979)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	anaphase-promoting complex (GO:0005680)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle (GO:0005819)	protein phosphatase binding (GO:0019903)			NS(1)|breast(5)|central_nervous_system(3)|cervix(1)|endometrium(2)|kidney(17)|large_intestine(18)|lung(11)|ovary(5)|pancreas(1)|prostate(19)|skin(5)|upper_aerodigestive_tract(2)	90						AGACACTGAGGAATCTGTATT	0.318																																																0													36	40	38					17																	45234432		2180	4286	6466	SO:0001583	missense	996			U00001	CCDS11509.1, CCDS45720.1, CCDS74090.1	17q21.32	2013-01-17	2013-01-17		ENSG00000004897	ENSG00000004897		"Anaphase promoting complex subunits", "Tetratricopeptide (TTC) repeat domain containing"	1728	protein-coding gene	gene with protein product	"anaphase promoting complex subunit 3"	116946	"cell division cycle 27", "cell division cycle 27 homolog (S. cerevisiae)"	D0S1430E, D17S978E		8234252	Standard	XM_005257892		Approved	APC3, ANAPC3, NUC2	uc002ile.4	P30260	OTTHUMG00000166429	ENST00000066544.3:c.689C>A	17.37:g.45234432G>T	ENSP00000066544:p.Ser230Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	G3V1C4|Q16349|Q96F35	Missense_Mutation	SNP	ENST00000066544.3	37	CCDS11509.1	.	.	.	.	.	.	.	.	.	.	G	15.80	2.939804	0.52972	.	.	ENSG00000004897	ENST00000066544;ENST00000531206;ENST00000446365;ENST00000527547;ENST00000526866	T;T;T;T;T	0.68479	-0.33;-0.31;-0.12;-0.33;0.82	5.44	5.44	0.79542	.	0.065886	0.64402	D	0.000007	T	0.55816	0.1944	N	0.19112	0.55	0.58432	D	0.999999	P;B;B;P	0.45283	0.855;0.011;0.043;0.855	B;B;B;B	0.41510	0.359;0.008;0.02;0.271	T	0.63292	-0.6670	10	0.66056	D	0.02	-14.3838	16.7505	0.85484	0.0:0.0:1.0:0.0	.	169;230;230;230	B4DL80;G5EA36;G3V1C4;P30260	.;.;.;CDC27_HUMAN	Y	230;230;169;230;230	ENSP00000066544:S230Y;ENSP00000434614:S230Y;ENSP00000392802:S169Y;ENSP00000437339:S230Y;ENSP00000432105:S230Y	ENSP00000066544:S230Y	S	-	2	0	CDC27	42589431	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	7.204000	0.77872	2.555000	0.86185	0.460000	0.39030	TCC		0.318	CDC27-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000389742.2			T	45234432	G	T	45234432	3	4	680	1	0	0	0	0	1	0	0	0	3068	1174	41	4	1855	4	CDC27	17	45234432	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10	5851405	45234432	35960778	79	44056										
TTLL6	284076	broad.mit.edu	37	chr17	46847199	46847202	+	Frame_Shift_Del	DEL	CATG	CATG	-													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gatatcaaatgtggcttgttCatgtcactctttagcaaagt							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	CATG	CATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr17:46847199_46847202delCATG	ENST00000393382.3	-	14	2439_2442	c.2298_2301delCATG	c.(2296-2301)gacatgfs	p.DM766fs	TTLL6_ENST00000433608.2_Frame_Shift_Del_p.DM459fs	NM_001130918.1	NP_001124390.1			tubulin tyrosine ligase-like family, member 6											endometrium(1)|large_intestine(5)|lung(9)|prostate(1)|skin(2)	18						GTGGCTTGTTCATGTCACTCTTTA	0.451																																																0																																										SO:0001589	frameshift_variant	284076			AK093127	CCDS11537.2, CCDS45724.1	17q21.32	2013-02-14			ENSG00000170703	ENSG00000170703		"Tubulin tyrosine ligase-like family"	26664	protein-coding gene	gene with protein product		610849				15890843	Standard	NM_173623		Approved	FLJ35808	uc021tzm.1	Q8N841	OTTHUMG00000156978	ENST00000393382.3:c.2298_2301delCATG	17.37:g.46847199_46847202delCATG	ENSP00000377043:p.Asp766fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000393382.3	37	CCDS45724.1																																																																																				0.451	TTLL6-003	KNOWN	downstream_ATG|non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346939.3	NM_173623		-	46847202	CATG	-	46847199	7	5	680	1	0	1	0	1	0	0	0	0	16743	826	29	0	382	0	TTLL6	17	46847199	Frame_Shift_Del	DEL	CATG	TCGA-KO-8409-01A-11D-2310-10	1612767	46847199	34348011	80	44057										
LPO	4025	ucsc.edu	37	chr17	56343529	56343529	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ggcaggtggaattgatcctcTggtgcggggcctgctggcca	17	10	1	1			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr17:56343529T>C	ENST00000262290.4	+	11	1851	c.1535T>C	c.(1534-1536)cTg>cCg	p.L512P	LPO_ENST00000421678.2_Missense_Mutation_p.L429P|LPO_ENST00000543544.1_Missense_Mutation_p.L453P|LPO_ENST00000582328.1_Missense_Mutation_p.L429P	NM_006151.2	NP_006142.1	P22079	PERL_HUMAN	lactoperoxidase	512					defense response to bacterium (GO:0042742)|detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)|hydrogen peroxide catabolic process (GO:0042744)|response to oxidative stress (GO:0006979)|thiocyanate metabolic process (GO:0018969)	basolateral plasma membrane (GO:0016323)|cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	heme binding (GO:0020037)|metal ion binding (GO:0046872)|thiocyanate peroxidase activity (GO:0036393)	p.L512Q(1)		breast(5)|cervix(1)|endometrium(2)|large_intestine(4)|lung(12)|ovary(1)|prostate(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)	30						ATTGATCCTCTGGTGCGGGGC	0.527																																																1	Substitution - Missense(1)	lung(1)											52	45	48					17																	56343529		2203	4300	6503	SO:0001583	missense	4025			M58151	CCDS32689.1, CCDS54149.1	17q23.1	2008-02-05				ENSG00000167419	1.11.1.7		6678	protein-coding gene	gene with protein product		150205				2222811, 8964511	Standard	NM_006151		Approved	SPO	uc002ivt.3	P22079		ENST00000262290.4:c.1535T>C	17.37:g.56343529T>C	ENSP00000262290:p.Leu512Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A5JUY4|E7EMJ3|Q13408|Q3KNQ2	Missense_Mutation	SNP	ENST00000262290.4	37	CCDS32689.1	.	.	.	.	.	.	.	.	.	.	T	23.5	4.424191	0.83667	.	.	ENSG00000167419	ENST00000262290;ENST00000421678;ENST00000543544;ENST00000389576	T;T;T	0.73469	-0.75;-0.75;-0.75	6.06	6.06	0.98353	.	0.132210	0.51477	D	0.000081	D	0.90386	0.6991	H	0.95574	3.69	0.58432	D	0.999999	D;D	0.89917	1.0;1.0	D;D	0.91635	0.997;0.999	D	0.93004	0.6426	10	0.87932	D	0	-20.5675	15.7966	0.78416	0.0:0.0:0.0:1.0	.	429;512	E7EMJ3;P22079	.;PERL_HUMAN	P	512;429;453;257	ENSP00000262290:L512P;ENSP00000400245:L429P;ENSP00000445344:L453P	ENSP00000262290:L512P	L	+	2	0	LPO	53698528	0.453000	0.25721	0.998000	0.56505	0.997000	0.91878	3.968000	0.56809	2.315000	0.78130	0.533000	0.62120	CTG		0.527	LPO-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000443961.1			C	56343529	T	C	56343529	3	2	680	1	0	0	0	0	1	0	0	0	8929	1580	55	3	1573	3	LPO	17	56343529	Missense_Mutation	SNP	T	TCGA-KO-8409-01A-11D-2310-10	9496330	56343529	24851681	81	44058										
TEX14	56155	bcgsc.ca	37	chr17	56649410	56649410	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ttcttgactgttccagcaagAggcaaactctgtcttaacct	7	11	3	2			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr17:56649410A>G	ENST00000240361.8	-	25	3812	c.3727T>C	c.(3727-3729)Tct>Cct	p.S1243P	TEX14_ENST00000389934.3_Missense_Mutation_p.S1237P|TEX14_ENST00000349033.5_Missense_Mutation_p.S1197P			Q8IWB6	TEX14_HUMAN	testis expressed 14	1243					attachment of spindle microtubules to kinetochore (GO:0008608)|intercellular bridge organization (GO:0043063)|male meiosis (GO:0007140)|mitotic sister chromatid separation (GO:0051306)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of cytokinesis (GO:0032466)|negative regulation of protein binding (GO:0032091)	cell (GO:0005623)|cytoplasm (GO:0005737)|intercellular bridge (GO:0045171)|kinetochore (GO:0000776)|midbody (GO:0030496)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)			breast(6)|endometrium(5)|kidney(3)|large_intestine(22)|liver(1)|lung(24)|ovary(4)|pancreas(1)|prostate(1)|skin(5)|stomach(5)|upper_aerodigestive_tract(1)|urinary_tract(3)	81	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TTCCAGCAAGAGGCAAACTCT	0.418																																																0													102	102	102					17																	56649410		2203	4300	6503	SO:0001583	missense	56155			AF285601	CCDS32692.1, CCDS32693.1, CCDS56042.1	17q22	2013-09-20	2007-03-13		ENSG00000121101	ENSG00000121101			11737	protein-coding gene	gene with protein product	"cancer/testis antigen 113"	605792	"testis expressed sequence 14"			11279525, 12711554	Standard	NM_031272		Approved	CT113	uc010dcz.2	Q8IWB6	OTTHUMG00000179245	ENST00000240361.8:c.3727T>C	17.37:g.56649410A>G	ENSP00000240361:p.Ser1243Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NH19|Q7RTP3|Q8ND97|Q9BXT9	Missense_Mutation	SNP	ENST00000240361.8	37	CCDS56042.1	.	.	.	.	.	.	.	.	.	.	A	12.70	2.016712	0.35606	.	.	ENSG00000121101	ENST00000240361;ENST00000389934;ENST00000349033	T;T;T	0.22539	1.95;1.95;1.95	4.83	4.83	0.62350	.	0.204155	0.35067	N	0.003470	T	0.36276	0.0961	L	0.56769	1.78	0.09310	N	1	D;D;D	0.65815	0.991;0.986;0.995	P;P;P	0.61800	0.786;0.814;0.894	T	0.12344	-1.0551	10	0.45353	T	0.12	-3.6102	10.7272	0.46074	1.0:0.0:0.0:0.0	.	1243;1197;1237	Q8IWB6;Q8IWB6-3;Q8IWB6-2	TEX14_HUMAN;.;.	P	1243;1237;1197	ENSP00000240361:S1243P;ENSP00000374584:S1237P;ENSP00000268910:S1197P	ENSP00000240361:S1243P	S	-	1	0	TEX14	54004409	0.810000	0.29049	0.007000	0.13788	0.020000	0.10135	2.738000	0.47401	2.039000	0.60335	0.459000	0.35465	TCT		0.418	TEX14-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000445446.1			G	56649410	A	G	56649410	3	3	680	1	0	0	0	0	1	0	0	0	15790	304	11	3	802	3	TEX14	17	56649410	Missense_Mutation	SNP	A	TCGA-KO-8409-01A-11D-2310-10	305881	56649410	24545800	82	44059										
GAA	2548	broad.mit.edu	37	chr17	78086495	78086495	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ggagctcctgggagcagctcGcctcctccgtgccaggtgag	15	14	0	1			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr17:78086495G>T	ENST00000302262.3	+	13	2092	c.1873G>T	c.(1873-1875)Gcc>Tcc	p.A625S	GAA_ENST00000390015.3_Missense_Mutation_p.A625S	NM_000152.3	NP_000143.2	P10253	LYAG_HUMAN	glucosidase, alpha; acid	625					cardiac muscle contraction (GO:0060048)|diaphragm contraction (GO:0002086)|glucose metabolic process (GO:0006006)|glycogen catabolic process (GO:0005980)|heart morphogenesis (GO:0003007)|locomotory behavior (GO:0007626)|lysosome organization (GO:0007040)|maltose metabolic process (GO:0000023)|muscle cell cellular homeostasis (GO:0046716)|neuromuscular process controlling balance (GO:0050885)|neuromuscular process controlling posture (GO:0050884)|regulation of the force of heart contraction (GO:0002026)|sucrose metabolic process (GO:0005985)|tissue development (GO:0009888)|vacuolar sequestering (GO:0043181)	extracellular vesicular exosome (GO:0070062)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|membrane (GO:0016020)	alpha-1,4-glucosidase activity (GO:0004558)|carbohydrate binding (GO:0030246)|maltose alpha-glucosidase activity (GO:0032450)			autonomic_ganglia(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|lung(6)|ovary(2)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	21	all_neural(118;0.117)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.139)		Acarbose(DB00284)|Miglitol(DB00491)	GGAGCAGCTCGCCTCCTCCGT	0.687																																																0													14	14	14					17																	78086495		2196	4290	6486	SO:0001583	missense	2548				CCDS32760.1	17q25.2-q25.3	2014-09-17	2008-08-01				3.2.1.20		4065	protein-coding gene	gene with protein product	"Pompe disease", "glycogen storage disease type II"	606800					Standard	NM_000152		Approved		uc002jxq.3	P10253		ENST00000302262.3:c.1873G>T	17.37:g.78086495G>T	ENSP00000305692:p.Ala625Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q09GN4|Q14351|Q16302|Q8IWE7	Missense_Mutation	SNP	ENST00000302262.3	37	CCDS32760.1	.	.	.	.	.	.	.	.	.	.	G	6.601	0.479270	0.12581	.	.	ENSG00000171298	ENST00000302262;ENST00000390015	D;D	0.93133	-3.17;-3.17	4.97	-3.35	0.04928	Glycoside hydrolase, superfamily (1);	0.610435	0.18363	N	0.143511	D	0.89008	0.6593	L	0.49126	1.545	0.09310	N	1	B	0.16166	0.016	B	0.19666	0.026	T	0.73294	-0.4028	10	0.17832	T	0.49	-22.522	16.4366	0.83877	0.0:0.0:0.16:0.84	.	625	P10253	LYAG_HUMAN	S	625	ENSP00000305692:A625S;ENSP00000374665:A625S	ENSP00000305692:A625S	A	+	1	0	GAA	75701090	0.000000	0.05858	0.003000	0.11579	0.004000	0.04260	0.004000	0.13106	-0.282000	0.09128	-0.397000	0.06425	GCC		0.687	GAA-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437441.1			T	78086495	G	T	78086495	3	4	680	1	0	0	0	0	1	0	0	0	6154	1087	38	4	1919	4	GAA	17	78086495	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10	21437085	78086495	3108715	83	44060										
LAMA1	284217	broad.mit.edu	37	chr18	6949154	6949155	+	Frame_Shift_Ins	INS	-	-	C													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ggcctcctaggtagaacaaaINSccctccacatccagcatggt					rs35759306		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr18:6949154_6949155insC	ENST00000389658.3	-	59	8594_8595	c.8501_8502insG	c.(8500-8502)ggtfs	p.G2834fs		NM_005559.3	NP_005550.2	P25391	LAMA1_HUMAN	laminin, alpha 1	2834	Laminin G-like 4. {ECO:0000255|PROSITE- ProRule:PRU00122}.				axon guidance (GO:0007411)|branching involved in salivary gland morphogenesis (GO:0060445)|cell adhesion (GO:0007155)|cell surface receptor signaling pathway (GO:0007166)|epithelial tube branching involved in lung morphogenesis (GO:0060441)|establishment of epithelial cell apical/basal polarity (GO:0045198)|extracellular matrix organization (GO:0030198)|morphogenesis of an epithelial sheet (GO:0002011)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of embryonic development (GO:0045995)|retinal blood vessel morphogenesis (GO:0061304)	basement membrane (GO:0005604)|cell-cell junction (GO:0005911)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|laminin-1 complex (GO:0005606)|laminin-3 complex (GO:0005608)|proteinaceous extracellular matrix (GO:0005578)	extracellular matrix structural constituent (GO:0005201)|glycosphingolipid binding (GO:0043208)			NS(4)|breast(7)|central_nervous_system(3)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(49)|liver(1)|lung(71)|ovary(9)|pancreas(3)|prostate(5)|skin(11)|stomach(7)|upper_aerodigestive_tract(8)|urinary_tract(3)	205		Colorectal(10;0.172)				GGTAGAACAAACCCTCCACATC	0.48																																																0																																										SO:0001589	frameshift_variant	284217			X58531	CCDS32787.1	18p11.3	2013-03-01			ENSG00000101680	ENSG00000101680		"Laminins"	6481	protein-coding gene	gene with protein product		150320		LAMA		2591971	Standard	NM_005559		Approved		uc002knm.3	P25391	OTTHUMG00000133478	ENST00000389658.3:c.8502dupG	18.37:g.6949157_6949157dupC	ENSP00000374309:p.Gly2834fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000389658.3	37	CCDS32787.1																																																																																				0.48	LAMA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257369.1	NM_005559		C	6949155	-	C	6949154	7	5	680	1	0	1	1	0	0	0	0	0	8612	30	2	0	745	0	LAMA1	18	6949154	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10		6949154	71128094	84	44061										
ADAMTS10	81794	broad.mit.edu	37	chr19	8650351	8650352	+	Frame_Shift_Ins	INS	-	-	T													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	cggctgacctcagaccagtcINSgagggccgcccactccggag							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr19:8650351_8650352insT	ENST00000597188.1	-	23	3123_3124	c.2853_2854insA	c.(2851-2856)ctcgacfs	p.D952fs	ADAMTS10_ENST00000270328.4_Frame_Shift_Ins_p.D952fs|AC130469.2_ENST00000597256.1_RNA|ADAMTS10_ENST00000595838.1_Frame_Shift_Ins_p.D439fs	NM_030957.2	NP_112219.3	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 10	952	TSP type-1 4. {ECO:0000255|PROSITE- ProRule:PRU00210}.					extracellular matrix (GO:0031012)|microfibril (GO:0001527)	metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(2)|kidney(16)|large_intestine(5)|lung(9)|ovary(1)|pancreas(2)|prostate(3)|skin(10)|urinary_tract(1)	53						TCAGACCAGTCGAGGGCCGCCC	0.713																																																0																																										SO:0001589	frameshift_variant	81794			AF163762	CCDS12206.1, CCDS62529.1	19p13.2	2014-08-12	2005-08-19		ENSG00000142303	ENSG00000142303		"ADAM metallopeptidases with thrombospondin type 1 motif"	13201	protein-coding gene	gene with protein product		608990	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 10"				Standard	XM_005272499		Approved	ADAM-TS10	uc002mkj.1	Q9H324	OTTHUMG00000182216	ENST00000597188.1:c.2853_2854insA	19.37:g.8650351_8650352insT	ENSP00000471851:p.Asp952fs	Somatic		WXS	Illumina HiSeq	Phase_I	M0QZE4	Frame_Shift_Ins	INS	ENST00000597188.1	37	CCDS12206.1																																																																																				0.713	ADAMTS10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460085.3	NM_030957		T	8650352	-	T	8650351	7	5	680	1	0	1	1	0	0	0	0	0	256	884	31	0	473	0	ADAMTS10	19	8650351	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10		8650351	50478632	85	44062										
HOOK2	29911	mdanderson.org	37	chr19	12876964	12876964	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gcgcggttggcatcctccagGtggcgctgcagctcctcctg	14	15	0	0	rs897804	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr19:12876964G>C	ENST00000397668.3	-	15	1537	c.1464C>G	c.(1462-1464)caC>caG	p.H488Q	HOOK2_ENST00000589965.1_Intron|HOOK2_ENST00000264827.5_Missense_Mutation_p.H488Q	NM_013312.2	NP_037444.2	Q96ED9	HOOK2_HUMAN	hook microtubule-tethering protein 2	488	Sufficient for interaction with microtubules.		H -> Q (in dbSNP:rs897804). {ECO:0000269|PubMed:15489334}.		early endosome to late endosome transport (GO:0045022)|endocytosis (GO:0006897)|endosome organization (GO:0007032)|endosome to lysosome transport (GO:0008333)|lysosome organization (GO:0007040)|protein transport (GO:0015031)	centrosome (GO:0005813)|FHF complex (GO:0070695)|microtubule (GO:0005874)	identical protein binding (GO:0042802)			breast(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(7)|ovary(1)|prostate(5)|skin(1)	20						CATCCTCCAGGTGGCGCTGCA	0.706											OREG0025273	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	G|||	1086	0.216853	0.0325	0.2939	5008	,	,		12044	0.2321		0.4394	False		,,,				2504	0.1667															0								G	GLN/HIS,GLN/HIS	323,3541		20,283,1629	10	13	12		1464,1464	3.7	1	19	dbSNP_87	12	3246,5000		672,1902,1549	no	missense,missense	HOOK2	NM_001100176.1,NM_013312.2	24,24	692,2185,3178	CC,CG,GG		39.3645,8.3592,29.4715	benign,benign	488/718,488/720	12876964	3569,8541	1932	4123	6055	SO:0001583	missense	29911			AF044924	CCDS42507.1, CCDS42508.1	19p13.2	2013-08-21	2013-08-21						19885	protein-coding gene	gene with protein product		607824	"hook homolog 2 (Drosophila)"			9927460	Standard	NM_013312		Approved	HK2	uc002muy.2	Q96ED9		ENST00000397668.3:c.1464C>G	19.37:g.12876964G>C	ENSP00000380785:p.His488Gln	Somatic	683	WXS	Illumina HiSeq	Phase_I	O60562	Missense_Mutation	SNP	ENST00000397668.3	37	CCDS42508.1	599	0.2742673992673993	19	0.03861788617886179	120	0.3314917127071823	121	0.21153846153846154	339	0.4472295514511873	G	13.50	2.255926	0.39896	0.083592	0.393645	ENSG00000095066	ENST00000397668;ENST00000264827	T;T	0.15718	2.4;2.4	4.77	3.69	0.42338	.	0.449885	0.22723	N	0.056436	T	0.00012	0.0000	N	0.04959	-0.14	0.32618	P	0.5237350000000001	B;B	0.15473	0.01;0.013	B;B	0.14023	0.006;0.01	T	0.47935	-0.9078	9	0.20046	T	0.44	-30.7248	6.3	0.21107	0.1135:0.3067:0.5798:0.0	rs897804;rs17850914;rs897804	488;488	Q96ED9-2;Q96ED9	.;HOOK2_HUMAN	Q	488	ENSP00000380785:H488Q;ENSP00000264827:H488Q	ENSP00000264827:H488Q	H	-	3	2	HOOK2	12737964	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	1.363000	0.34159	2.174000	0.68829	0.467000	0.42956	CAC		0.706	HOOK2-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000451008.1	NM_013312		C	12876964	G	C	12876964	3	2	680	1	0	0	0	0	1	0	0	0	7290	1252	44	4	731	4	HOOK2	19	12876964	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10	4226613	12876964	46252019	86	44063										
MAP1S	55201	broad.mit.edu	37	chr19	17838792	17838793	+	Frame_Shift_Ins	INS	-	-	C													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ccgcacccggaagcccctggINScccgccccaactcacgcgct							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr19:17838792_17838793insC	ENST00000324096.4	+	5	2750_2751	c.2599_2600insC	c.(2599-2601)gccfs	p.A867fs	CTD-3149D2.4_ENST00000595363.1_RNA|MAP1S_ENST00000544059.2_Frame_Shift_Ins_p.A841fs|MAP1S_ENST00000597681.1_3'UTR	NM_018174.4	NP_060644.4	Q66K74	MAP1S_HUMAN	microtubule-associated protein 1S	867	Necessary for association with microtubules.|Necessary for interaction with RASSF1 isoform A and isoform C.				apoptotic DNA fragmentation (GO:0006309)|brain development (GO:0007420)|execution phase of apoptosis (GO:0097194)|microtubule bundle formation (GO:0001578)|mitochondrion transport along microtubule (GO:0047497)|nervous system development (GO:0007399)|neuron projection morphogenesis (GO:0048812)	cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|microtubule (GO:0005874)|neuronal cell body (GO:0043025)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|synapse (GO:0045202)	actin filament binding (GO:0051015)|beta-tubulin binding (GO:0048487)|DNA binding (GO:0003677)|microtubule binding (GO:0008017)|tubulin binding (GO:0015631)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(5)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	25						GAAGCCCCTGGCCCGCCCCAAC	0.668																																																0																																										SO:0001589	frameshift_variant	55201			BC067115	CCDS32954.1	19p13.12	2008-02-05	2006-07-04	2006-07-04		ENSG00000130479			15715	protein-coding gene	gene with protein product		607573	"chromosome 19 open reading frame 5", "VCY2 interacting protein 1", "BPY2 interacting protein 1"	C19orf5, VCY2IP1, BPY2IP1		11827465, 15528209, 16297881, 14627543	Standard	NM_018174		Approved	FLJ10669, MAP8	uc002nhe.1	Q66K74		ENST00000324096.4:c.2602dupC	19.37:g.17838795_17838795dupC	ENSP00000325313:p.Ala867fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DH53|Q27QB1|Q6NXF1|Q8N3L8|Q8N3W5|Q8NI88|Q96H94|Q96IT4|Q96SP8|Q9BRC6|Q9H928|Q9NVK7	Frame_Shift_Ins	INS	ENST00000324096.4	37	CCDS32954.1																																																																																				0.668	MAP1S-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466027.1	NM_018174		C	17838793	-	C	17838792	7	5	680	1	0	1	1	0	0	0	0	0	9241	1203	42	0	2617	0	MAP1S	19	17838792	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10	4961828	17838792	41290191	87	44064										
ACTN4	81	mdanderson.org;bcgsc.ca	37	chr19	39217630	39217630	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gctgggagcagctgctcaccAccattgcccgcaccatcaac	9	17	2	0			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr19:39217630A>G	ENST00000252699.2	+	18	2300	c.2224A>G	c.(2224-2226)Acc>Gcc	p.T742A	ACTN4_ENST00000390009.3_Missense_Mutation_p.T523A|ACTN4_ENST00000424234.2_Missense_Mutation_p.T352A	NM_004924.4	NP_004915.2	O43707	ACTN4_HUMAN	actinin, alpha 4	742	Mediates interaction with MICALL2. {ECO:0000250}.				actin filament bundle assembly (GO:0051017)|blood coagulation (GO:0007596)|negative regulation of cellular component movement (GO:0051271)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of cellular component movement (GO:0051272)|positive regulation of pinocytosis (GO:0048549)|positive regulation of sodium:proton antiporter activity (GO:0032417)|protein localization to tight junction (GO:1902396)|protein transport (GO:0015031)|regulation of apoptotic process (GO:0042981)|response to hypoxia (GO:0001666)|tight junction assembly (GO:0070830)	cell-cell junction (GO:0005911)|cortical cytoskeleton (GO:0030863)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|neuron projection (GO:0043005)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|platelet alpha granule lumen (GO:0031093)|protein complex (GO:0043234)|pseudopodium (GO:0031143)|ribonucleoprotein complex (GO:0030529)|stress fiber (GO:0001725)|Z disc (GO:0030018)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|calcium ion binding (GO:0005509)|integrin binding (GO:0005178)|nucleoside binding (GO:0001882)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)			NS(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(4)|lung(12)|ovary(1)|prostate(1)|skin(1)|urinary_tract(3)	30	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GCTGCTCACCACCATTGCCCG	0.637																																					Colon(168;199 1940 10254 46213 46384)											0													98	73	82					19																	39217630		2203	4300	6503	SO:0001583	missense	81			D89980	CCDS12518.1	19q13	2013-01-10			ENSG00000130402	ENSG00000130402		"EF-hand domain containing"	166	protein-coding gene	gene with protein product		604638	"focal segmental glomerulosclerosis 1"	FSGS1		9461087, 10700177	Standard	NM_004924		Approved		uc002oja.2	O43707	OTTHUMG00000137382	ENST00000252699.2:c.2224A>G	19.37:g.39217630A>G	ENSP00000252699:p.Thr742Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A4K467|D6PXK4|O76048	Missense_Mutation	SNP	ENST00000252699.2	37	CCDS12518.1	.	.	.	.	.	.	.	.	.	.	A	18.16	3.563257	0.65538	.	.	ENSG00000130402	ENST00000252699;ENST00000424234;ENST00000390009;ENST00000440400	T;T;T;T	0.45276	0.9;0.9;0.9;0.9	4.04	4.04	0.47022	.	0.000000	0.85682	D	0.000000	T	0.38957	0.1060	L	0.59912	1.85	0.58432	D	0.999998	B	0.02656	0.0	B	0.15484	0.013	T	0.27088	-1.0084	10	0.34782	T	0.22	.	12.4041	0.55430	1.0:0.0:0.0:0.0	.	742	O43707	ACTN4_HUMAN	A	742;352;523;178	ENSP00000252699:T742A;ENSP00000411187:T352A;ENSP00000439497:T523A;ENSP00000398393:T178A	ENSP00000252699:T742A	T	+	1	0	ACTN4	43909470	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	9.087000	0.94110	1.823000	0.53134	0.402000	0.26972	ACC		0.637	ACTN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268091.1			G	39217630	A	G	39217630	3	3	680	1	0	0	0	0	1	0	0	0	207	159	6	3	2294	3	ACTN4	19	39217630	Missense_Mutation	SNP	A	TCGA-KO-8409-01A-11D-2310-10	21378838	39217630	19911353	88	44065										
EID2B	126272	mdanderson.org	37	chr19	40023308	40023308	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tcggccactgggccttcccgAgcctcctgcacccgaacccc	9	21	0	0	rs1123301	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr19:40023308A>G	ENST00000326282.4	-	1	186	c.135T>C	c.(133-135)gcT>gcC	p.A45A	CTB-60E11.9_ENST00000594676.1_RNA|EID2B_ENST00000601837.1_Intron	NM_152361.1	NP_689574.1			EP300 interacting inhibitor of differentiation 2B											endometrium(1)|lung(1)|urinary_tract(1)	3	all_cancers(60;4.04e-06)|all_lung(34;1.77e-07)|Lung NSC(34;2.09e-07)|all_epithelial(25;1.13e-05)|Ovarian(47;0.159)		Epithelial(26;8.61e-26)|all cancers(26;2.76e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GGCCTTCCCGAGCCTCCTGCA	0.751													.|||	4013	0.801318	0.8646	0.6484	5008	,	,		13555	0.8442		0.7425	False		,,,				2504	0.8405															0								G		3691,533		1630,431,51	7	9	8		135	0	0	19	dbSNP_86	8	6168,2264		2313,1542,361	no	coding-synonymous	EID2B	NM_152361.1		3943,1973,412	GG,GA,AA		26.8501,12.6184,22.1002		45/162	40023308	9859,2797	2112	4216	6328	SO:0001819	synonymous_variant	126272			AK096263	CCDS12539.1	19q13.2	2008-02-05				ENSG00000176401			26796	protein-coding gene	gene with protein product						15970276	Standard	NM_152361		Approved	EID-3, FLJ38944	uc002olz.1	Q96D98		ENST00000326282.4:c.135T>C	19.37:g.40023308A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000326282.4	37	CCDS12539.1																																																																																				0.751	EID2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464961.1	NM_152361		G	40023308	A	G	40023308	2	3	680	1	0	0	0	0	0	0	0	1	4990	291	11	3		3	EID2B	19	40023308	Silent	SNP	A	TCGA-KO-8409-01A-11D-2310-10	805678	40023308	19105675	89	44066										
FUZ	80199	broad.mit.edu	37	chr19	50312460	50312461	+	Frame_Shift_Ins	INS	-	-	G													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	gggtgggctcggcccgcagaINSgtagacacagctccaggctc					rs527949286		TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr19:50312460_50312461insG	ENST00000313777.4	-	7	908_909	c.745_746insC	c.(745-747)ctcfs	p.L249fs	FUZ_ENST00000533418.1_Frame_Shift_Ins_p.L199fs|FUZ_ENST00000445575.2_Frame_Shift_Ins_p.L249fs|AC006942.4_ENST00000600669.1_RNA|FUZ_ENST00000528094.1_Frame_Shift_Ins_p.L213fs|FUZ_ENST00000534008.1_5'Flank	NM_025129.4	NP_079405.2	Q9BT04	FUZZY_HUMAN	fuzzy planar cell polarity protein	249	Leu-rich.				cilium assembly (GO:0042384)|embryonic body morphogenesis (GO:0010172)|embryonic skeletal system morphogenesis (GO:0048704)|establishment of planar polarity (GO:0001736)|hair follicle development (GO:0001942)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of fibroblast growth factor receptor signaling pathway involved in neural plate anterior/posterior pattern formation (GO:2000314)|negative regulation of neural crest formation (GO:0090301)|neural tube closure (GO:0001843)|nonmotile primary cilium assembly (GO:0035058)|positive regulation of cilium assembly (GO:0045724)|protein transport (GO:0015031)|regulation of smoothened signaling pathway (GO:0008589)|spinal cord dorsal/ventral patterning (GO:0021513)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)				endometrium(1)|lung(3)	4		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00793)|GBM - Glioblastoma multiforme(134;0.0116)		CGGCCCGCAGAGTAGACACAGC	0.673																																																0																																										SO:0001589	frameshift_variant	80199			BC016793	CCDS12781.1, CCDS54293.1	19q13.33	2013-03-05	2013-03-05			ENSG00000010361			26219	protein-coding gene	gene with protein product		610622	"fuzzy homolog (Drosophila)"			21761479	Standard	NM_001171937		Approved	FLJ22688, Fy	uc002ppq.2	Q9BT04		ENST00000313777.4:c.746dupC	19.37:g.50312461_50312461dupG	ENSP00000313309:p.Leu249fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RD86|B5MDH0|Q6PJY0|Q9H613	Frame_Shift_Ins	INS	ENST00000313777.4	37	CCDS12781.1																																																																																				0.673	FUZ-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393986.1	NM_025129		G	50312461	-	G	50312460	7	5	680	1	0	1	1	0	0	0	0	0	6119	304	11	0	530	0	FUZ	19	50312460	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10	10289152	50312460	8816523	90	44067										
SIGLEC11	114132	ucsc.edu	37	chr19	50455564	50455564	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ccgatgcttacctgaagacgAcaaggcaggaacagaaagcg	12	10	0	3			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr19:50455564A>G	ENST00000447370.2	-	9	1829	c.1739T>C	c.(1738-1740)gTc>gCc	p.V580A	CTC-326K19.6_ENST00000451973.1_Intron|SIGLEC11_ENST00000426971.2_Missense_Mutation_p.V484A|U3_ENST00000408198.1_RNA	NM_052884.2	NP_443116.2	Q96RL6	SIG11_HUMAN	sialic acid binding Ig-like lectin 11	580					cell adhesion (GO:0007155)	integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(8)|lung(9)|ovary(6)|pancreas(1)|prostate(1)|skin(1)	32		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)		CCTGAAGACGACAAGGCAGGA	0.622																																																0													79	79	79					19																	50455564		2203	4300	6503	SO:0001583	missense	114132			AF337818	CCDS12790.2, CCDS46150.1	19q13.3	2013-01-29			ENSG00000161640	ENSG00000161640		"Sialic acid binding Ig-like lectins", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	15622	protein-coding gene	gene with protein product		607157				11986327	Standard	NM_052884		Approved		uc010ybi.2	Q96RL6	OTTHUMG00000157077	ENST00000447370.2:c.1739T>C	19.37:g.50455564A>G	ENSP00000412361:p.Val580Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000447370.2	37	CCDS12790.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	9.712|9.712	1.157369|1.157369	0.21454|0.21454	.|.	.|.	ENSG00000161640|ENSG00000161640	ENST00000426971|ENST00000447370;ENST00000458019	.|T	.|0.56275	.|0.47	3.32|3.32	2.29|2.29	0.28610|0.28610	.|.	.|1.243010	.|0.05875	.|N	.|0.625446	T|T	0.40546|0.40546	0.1121|0.1121	L|L	0.38175|0.38175	1.15|1.15	0.09310|0.09310	N|N	1|1	.|B;B	.|0.22746	.|0.003;0.074	.|B;B	.|0.15870	.|0.014;0.01	T|T	0.23013|0.23013	-1.0200|-1.0200	5|10	.|0.25751	.|T	.|0.34	.|.	5.4248|5.4248	0.16419|0.16419	0.8566:0.0:0.1434:0.0|0.8566:0.0:0.1434:0.0	.|.	.|484;580	.|Q96RL6-2;Q96RL6	.|.;SIG11_HUMAN	P|A	474|580;484	.|ENSP00000412361:V580A	.|ENSP00000412361:V580A	S|V	-|-	1|2	0|0	SIGLEC11|SIGLEC11	55147376|55147376	0.003000|0.003000	0.15002|0.15002	0.003000|0.003000	0.11579|0.11579	0.001000|0.001000	0.01503|0.01503	0.734000|0.734000	0.26101|0.26101	0.441000|0.441000	0.26529|0.26529	0.379000|0.379000	0.24179|0.24179	TCG|GTC		0.622	SIGLEC11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000347382.1	NM_052884		G	50455564	A	G	50455564	3	3	680	1	0	0	0	0	1	0	0	0	14320	275	10	3	369	3	SIGLEC11	19	50455564	Missense_Mutation	SNP	A	TCGA-KO-8409-01A-11D-2310-10	143104	50455564	8673419	91	44068										
NLRP13	126204	broad.mit.edu	37	chr19	56424477	56424477	+	Frame_Shift_Del	DEL	T	T	-													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ggtcttcccaacccctgcccTccccaccaagactatcgtct							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr19:56424477delT	ENST00000342929.3	-	5	705	c.706delA	c.(706-708)aggfs	p.R236fs	NLRP13_ENST00000588751.1_Frame_Shift_Del_p.R236fs	NM_176810.2	NP_789780.2	Q86W25	NAL13_HUMAN	NLR family, pyrin domain containing 13	236	NACHT. {ECO:0000255|PROSITE- ProRule:PRU00136}.						ATP binding (GO:0005524)			NS(2)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(13)|lung(58)|ovary(4)|pancreas(2)|prostate(2)|skin(13)|stomach(2)|urinary_tract(1)	109		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		ACCCCTGCCCTCCCCACCAAG	0.502																																																0													114	116	115					19																	56424477		2203	4300	6503	SO:0001589	frameshift_variant	126204			AY154468	CCDS33119.1	19q13.43	2008-02-05	2006-12-08	2006-12-08	ENSG00000173572	ENSG00000173572		"Nucleotide-binding domain and leucine rich repeat containing"	22937	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 13"	609660	"NACHT, leucine rich repeat and PYD containing 13"	NALP13		12563287	Standard	NM_176810		Approved	NOD14, PAN13, CLR19.7	uc010ygg.2	Q86W25	OTTHUMG00000167839	ENST00000342929.3:c.706delA	19.37:g.56424477delT	ENSP00000343891:p.Arg236fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q7RTR5	Frame_Shift_Del	DEL	ENST00000342929.3	37	CCDS33119.1																																																																																				0.502	NLRP13-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000396560.1	NM_176810		-	56424477	T	-	56424477	7	5	680	1	0	1	0	1	0	0	0	0	10482	1550	54	0	2451	0	NLRP13	19	56424477	Frame_Shift_Del	DEL	T	TCGA-KO-8409-01A-11D-2310-10	5968913	56424477	2704506	92	44069										
ZNF552	79818	mdanderson.org	37	chr19	58320162	58320162	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	catgcaacttacacctcttcGcaaacaacgcctcctcaaca	3	17	2	0	rs576029108	byFrequency	TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr19:58320162G>A	ENST00000391701.1	-	3	639	c.470C>T	c.(469-471)gCg>gTg	p.A157V	ZNF586_ENST00000599802.1_Intron|ZNF586_ENST00000598885.1_Intron	NM_024762.3	NP_079038.2	Q9H707	ZN552_HUMAN	zinc finger protein 552	157					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|kidney(1)|large_intestine(3)|lung(1)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		ACACCTCTTCGCAAACAACGC	0.478													G|||	2	0.000399361	0.0015	0.0	5008	,	,		21428	0.0		0.0	False		,,,				2504	0.0															0													162	155	157					19																	58320162		2203	4300	6503	SO:0001583	missense	79818			AK097041	CCDS12963.1	19q13.43	2013-09-20			ENSG00000178935	ENSG00000178935		"Zinc fingers, C2H2-type", "-"	26135	protein-coding gene	gene with protein product							Standard	XM_005259267		Approved	FLJ21603	uc002qqg.3	Q9H707	OTTHUMG00000183478	ENST00000391701.1:c.470C>T	19.37:g.58320162G>A	ENSP00000375582:p.Ala157Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3KUE9|Q6P5A6	Missense_Mutation	SNP	ENST00000391701.1	37	CCDS12963.1	.	.	.	.	.	.	.	.	.	.	G	0.008	-1.870767	0.00542	.	.	ENSG00000178935	ENST00000391701	T	0.04083	3.71	1.96	-0.803	0.10886	.	.	.	.	.	T	0.01592	0.0051	N	0.04043	-0.29	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.46665	-0.9175	9	0.02654	T	1	.	2.7839	0.05368	0.6156:0.0:0.163:0.2214	.	153;157	B7Z1H1;Q9H707	.;ZN552_HUMAN	V	157	ENSP00000375582:A157V	ENSP00000375582:A157V	A	-	2	0	ZNF552	63011974	0.000000	0.05858	0.002000	0.10522	0.029000	0.11900	-0.431000	0.06965	0.022000	0.15160	-1.451000	0.01035	GCG		0.478	ZNF552-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466829.1	NM_024762		A	58320162	G	A	58320162	3	1	680	1	0	0	0	0	1	0	0	0	17996	1087	38	1	757	1	ZNF552	19	58320162	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10	1895685	58320162	808821	93	44070										
C19orf18	147685	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	58472845	58472845	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	cctctgagccctcttcttcaTctcctaataacggtatcctg	5	15	5	1			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr19:58472845T>G	ENST00000314391.3	-	5	547	c.446A>C	c.(445-447)gAt>gCt	p.D149A		NM_152474.4	NP_689687.1	Q8NEA5	CS018_HUMAN	chromosome 19 open reading frame 18	149						extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				large_intestine(2)|lung(3)|ovary(1)|pancreas(1)|prostate(1)	8		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;0.017)		CTCTTCTTCATCTCCTAATAA	0.463																																																0													156	132	140					19																	58472845		2203	4300	6503	SO:0001583	missense	147685			BC033933	CCDS12967.1	19q13.43	2013-03-11			ENSG00000177025	ENSG00000177025			28642	protein-coding gene	gene with protein product						12477932	Standard	NM_152474		Approved	MGC41906	uc002qqv.3	Q8NEA5	OTTHUMG00000183450	ENST00000314391.3:c.446A>C	19.37:g.58472845T>G	ENSP00000321519:p.Asp149Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000314391.3	37	CCDS12967.1	.	.	.	.	.	.	.	.	.	.	T	14.66	2.600617	0.46423	.	.	ENSG00000177025	ENST00000314391	T	0.58060	0.36	4.14	3.13	0.36017	.	0.617223	0.14394	N	0.322330	T	0.51991	0.1707	N	0.24115	0.695	0.09310	N	1	D	0.71674	0.998	D	0.63703	0.917	T	0.33343	-0.9872	10	0.62326	D	0.03	-35.2486	6.2222	0.20687	0.0:0.1121:0.0:0.8879	.	149	Q8NEA5	CS018_HUMAN	A	149	ENSP00000321519:D149A	ENSP00000321519:D149A	D	-	2	0	C19orf18	63164657	0.002000	0.14202	0.012000	0.15200	0.002000	0.02628	0.138000	0.16016	0.940000	0.37473	0.379000	0.24179	GAT		0.463	C19orf18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466704.1	NM_152474		G	58472845	T	G	58472845	3	3	680	1	0	0	0	0	1	0	0	0	1912	1435	50	5	209	5	C19orf18	19	58472845	Missense_Mutation	SNP	T	TCGA-KO-8409-01A-11D-2310-10	152683	58472845	656138	94	44071										
SIGLEC1	6614	broad.mit.edu	37	chr20	3677991	3677992	+	Splice_Site	INS	-	-	G													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	caatggccaggacagtggctINSggagagcaggcggcacagct							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr20:3677991_3677992insG	ENST00000344754.4	-	9	2122		c.e9-2		SIGLEC1_ENST00000202578.4_Splice_Site	NM_023068.3	NP_075556.1	Q9BZZ2	SN_HUMAN	sialic acid binding Ig-like lectin 1, sialoadhesin						cell-matrix adhesion (GO:0007160)|endocytosis (GO:0006897)|inflammatory response (GO:0006954)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of T cell apoptotic process (GO:0070234)|single organismal cell-cell adhesion (GO:0016337)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)			NS(1)|autonomic_ganglia(1)|breast(1)|central_nervous_system(4)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(5)|liver(2)|lung(24)|ovary(3)|pancreas(4)|prostate(3)|skin(8)|upper_aerodigestive_tract(1)	70						GGACAGTGGCTGGAGAGCAGGC	0.658																																																0																																										SO:0001630	splice_region_variant	6614			AF230073	CCDS13060.1	20p13	2013-01-29	2006-01-19	2006-01-19	ENSG00000088827	ENSG00000088827		"CD molecules", "Sialic acid binding Ig-like lectins", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	11127	protein-coding gene	gene with protein product		600751	"sialoadhesin"	SN		8530048	Standard	XM_006723610		Approved	SIGLEC-1, CD169, FLJ00051, FLJ00055, FLJ00073, FLJ32150, dJ1009E24.1, sialoadhesin	uc002wja.3	Q9BZZ2	OTTHUMG00000031757	ENST00000344754.4:c.2123-2->C	20.37:g.3677993_3677993dupG		Somatic		WXS	Illumina HiSeq	Phase_I	Q96DL4|Q9GZS5|Q9H1H6|Q9H1H7|Q9H7L7	Splice_Site	INS	ENST00000344754.4	37	CCDS13060.1																																																																																				0.658	SIGLEC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077761.2	NM_023068	Intron	G	3677992	-	G	3677991	8	5	680	1	0	1	1	0	0	0	1	0	14318	1594	55	0	3060	0	SIGLEC1	20	3677991	Splice_Site	INS	-	TCGA-KO-8409-01A-11D-2310-10		3677991	59347529	95	44072										
POTEH	23784	broad.mit.edu	37	chr22	16266972	16266973	+	Frame_Shift_Ins	INS	-	-	T													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tcaggaaattgctggctttcINSaggtgttctgcttttccttg							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr22:16266972_16266973insT	ENST00000343518.6	-	9	1527_1528	c.1476_1477insA	c.(1474-1479)cctgaafs	p.E493fs		NM_001136213.1	NP_001129685.1	Q6S545	POTEH_HUMAN	POTE ankyrin domain family, member H	493										NS(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|lung(20)|ovary(1)|skin(7)|urinary_tract(2)	37						TGCTGGCTTTCAGGTGTTCTGC	0.431																																																0																																										SO:0001589	frameshift_variant	23784			AY462874	CCDS74808.1	22q11.1	2013-01-10	2008-11-26	2008-11-26	ENSG00000198062	ENSG00000198062		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	133	protein-coding gene	gene with protein product	"cancer/testis antigen family 104, member 7"	608913	"actin, beta-like 1", "ANKRD26-like family C, member 3"	ACTBL1, A26C3		10591208, 15276201, 21439273	Standard	NM_001136213		Approved	POTE22, CT104.7	uc010gqp.2	Q6S545	OTTHUMG00000140314	ENST00000343518.6:c.1476_1477insA	22.37:g.16266972_16266973insT	ENSP00000340610:p.Glu493fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2CEK4|A6NCI1|A9Z1W0	Frame_Shift_Ins	INS	ENST00000343518.6	37	CCDS46658.1																																																																																				0.431	POTEH-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000276918.4	NM_001136213		T	16266973	-	T	16266972	7	5	680	1	0	1	1	0	0	0	0	0	12274	835	29	0	168	0	POTEH	22	16266972	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10		16266972	35037594	96	44073										
RIMBP3	85376	broad.mit.edu	37	chr22	20458634	20458635	+	Frame_Shift_Ins	INS	-	-	C													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	tgctccacgaagttggagggINScaccagcccccgccggccat							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chr22:20458634_20458635insC	ENST00000426804.1	-	1	3151_3152	c.2667_2668insG	c.(2665-2670)gtgcccfs	p.P890fs	RN7SKP131_ENST00000363006.1_RNA	NM_015672.1	NP_056487.1	Q9UFD9	RIM3A_HUMAN	RIMS binding protein 3	890	SH3 1. {ECO:0000255|PROSITE- ProRule:PRU00192}.									breast(2)|central_nervous_system(1)|cervix(1)|endometrium(2)|large_intestine(3)|lung(1)|prostate(1)|skin(1)|urinary_tract(1)	13	Colorectal(54;0.0993)|Melanoma(16;0.165)		LUSC - Lung squamous cell carcinoma(15;0.0405)|Lung(15;0.224)			AAGTTGGAGGGCACCAGCCCCC	0.609																																																0																																										SO:0001589	frameshift_variant	85376			AB051453	CCDS46665.1	22q11.21	2014-05-06			ENSG00000196622	ENSG00000275793			29344	protein-coding gene	gene with protein product		612699				11258795, 17855024	Standard	NM_015672		Approved	KIAA1666, RIMBP3.1, RIMBP3A	uc002zsd.4	Q9UFD9	OTTHUMG00000188355	ENST00000426804.1:c.2668dupG	22.37:g.20458635_20458635dupC	ENSP00000391564:p.Pro890fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYP7|Q9BY94|Q9UFQ5	Frame_Shift_Ins	INS	ENST00000426804.1	37	CCDS46665.1																																																																																				0.609	RIMBP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318945.2	NM_015672		C	20458635	-	C	20458634	7	5	680	1	0	1	1	0	0	0	0	0	13377	1203	42	0	2255	0	RIMBP3	22	20458634	Frame_Shift_Ins	INS	-	TCGA-KO-8409-01A-11D-2310-10	4191662	20458634	30845932	97	44074										
VCX3B	425054	mdanderson.org	37	chrX	8434221	8434221	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	cactgagtcaggagagccagGtggaggaaccactgagtcag	15	9	2	3			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chrX:8434221G>C	ENST00000381032.1	+	3	845	c.538G>C	c.(538-540)Gtg>Ctg	p.V180L	VCX3B_ENST00000444481.1_Missense_Mutation_p.V150L|VCX3B_ENST00000453306.1_Intron|VCX3B_ENST00000381029.4_Missense_Mutation_p.V148L|VCX3B_ENST00000440654.2_Missense_Mutation_p.V130L	NM_001001888.3	NP_001001888.3	Q9H321	VCX3B_HUMAN	variable charge, X-linked 3B	180	14 X 10 AA tandem repeats of L-S-Q-E-S- [EQ]-V-E-E-P.					nucleolus (GO:0005730)|nucleus (GO:0005634)		p.V150L(1)		NS(1)|large_intestine(1)|lung(2)|prostate(1)|skin(3)|urinary_tract(3)	11						GGAGAGCCAGGTGGAGGAACC	0.587																																																1	Substitution - Missense(1)	skin(1)											8	22	18					X																	8434221		1381	3321	4702	SO:0001583	missense	425054				CCDS48077.1, CCDS48077.2	Xp22.31	2009-01-14			ENSG00000205642	ENSG00000205642			31838	protein-coding gene	gene with protein product							Standard	NM_001001888		Approved	VCX-C	uc011mht.2	Q9H321	OTTHUMG00000021106	ENST00000381032.1:c.538G>C	X.37:g.8434221G>C	ENSP00000370420:p.Val180Leu	Somatic		WXS	Illumina HiSeq	Phase_I	C9JS46|Q4KN12	Missense_Mutation	SNP	ENST00000381032.1	37	CCDS48077.2	.	.	.	.	.	.	.	.	.	.	N	0.012	-1.656353	0.00779	.	.	ENSG00000205642	ENST00000381032;ENST00000444481;ENST00000440654;ENST00000381029	T;T;T;T	0.18657	2.2;2.68;2.2;2.68	0.828	-1.66	0.08265	.	.	.	.	.	T	0.05960	0.0155	N	0.01109	-1.01	0.09310	N	1	B;B	0.09022	0.002;0.002	B;B	0.04013	0.001;0.001	T	0.39921	-0.9590	9	0.25106	T	0.35	.	7.6676	0.28441	0.0:0.491:0.509:0.0	.	150;130	Q9H321;E7ERZ8	VCX3B_HUMAN;.	L	180;150;130;148	ENSP00000370420:V180L;ENSP00000414780:V150L;ENSP00000410372:V130L;ENSP00000370417:V148L	ENSP00000370417:V148L	V	+	1	0	VCX3B	8394221	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.042000	0.03539	-0.757000	0.04697	-1.693000	0.00726	GTG		0.587	VCX3B-001	NOVEL	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000055691.1			C	8434221	G	C	8434221	3	2	680	1	0	0	0	0	1	0	0	0	17157	1261	44	4	458	4	VCX3B	23	8434221	Missense_Mutation	SNP	G	TCGA-KO-8409-01A-11D-2310-10		8434221	146836339	98	44075										
SATL1	340562	broad.mit.edu	37	chrX	84363631	84363632	+	5'UTR	INS	-	-	T													0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	ttggctggggcctgattggcINSttgggcctggttgcgatggg							TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chrX:84363631_84363632insT	ENST00000395409.3	-	0	342_343				SATL1_ENST00000332921.5_5'UTR|SATL1_ENST00000509231.1_Frame_Shift_Ins_p.S115fs			Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1								N-acetyltransferase activity (GO:0008080)			NS(1)|breast(5)|endometrium(2)|large_intestine(3)|lung(13)|skin(3)|stomach(1)|urinary_tract(1)	29						GCCTGATTGGCTTGGGCCTGGT	0.545											OREG0019887	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0																																										SO:0001623	5_prime_UTR_variant	340562			BC043215	CCDS35343.1, CCDS35343.2	Xq21	2008-02-05			ENSG00000184788	ENSG00000184788			27992	protein-coding gene	gene with protein product						12477932	Standard	NM_001012980		Approved		uc004een.3	Q86VE3	OTTHUMG00000021931	ENST00000395409.3:c.-219->A	X.37:g.84363633_84363633dupT		Somatic	1228	WXS	Illumina HiSeq	Phase_I	A0AVK7|E9PB72|Q5H8V9	Frame_Shift_Ins	INS	ENST00000395409.3	37																																																																																					0.545	SATL1-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		XM_291339		T	84363632	-	T	84363631	6	5	680	0	1	1	1	0	0	0	0	0	13868	797	28	0		0	SATL1	23	84363631	5'UTR	INS	-	TCGA-KO-8409-01A-11D-2310-10	75929410	84363631	70906929	99	44076										
RGAG1	57529	broad.mit.edu	37	chrX	109698465	109698465	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0408163265306122	4	1	1.11123090745732	1.62054507337526	1.00585556278465	0.485714285714286	1	0	aaacgctgttactacctgaaAgagcatggagacccccaaga	9	11	0	4			TCGA-KO-8409-01A-11D-2310-10	TCGA-KO-8409-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8df1eeb4-dfc9-4a0a-8f93-98460c3ab489	ab217c1c-6141-4391-85a8-cacd3c7b1989	g.chrX:109698465A>G	ENST00000465301.2	+	4	4329	c.4083A>G	c.(4081-4083)aaA>aaG	p.K1361K	RGAG1_ENST00000540313.1_Silent_p.K1361K	NM_020769.2	NP_065820.1	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	1361										NS(1)|autonomic_ganglia(1)|breast(2)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(15)|liver(1)|lung(29)|ovary(1)|prostate(5)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	73						ACTACCTGAAAGAGCATGGAG	0.483																																																0													225	195	205					X																	109698465		2203	4300	6503	SO:0001819	synonymous_variant	57529			AY121804	CCDS14552.1	Xq23	2008-02-05			ENSG00000243978	ENSG00000243978			29245	protein-coding gene	gene with protein product						10718198, 15716091, 16093683	Standard	NM_020769		Approved	KIAA1318, Mart9, Mar9	uc004eor.2	Q8NET4	OTTHUMG00000022196	ENST00000465301.2:c.4083A>G	X.37:g.109698465A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9P2M8	Silent	SNP	ENST00000465301.2	37	CCDS14552.1																																																																																				0.483	RGAG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057906.2	NM_020769		G	109698465	A	G	109698465	2	3	680	1	0	0	0	0	0	0	0	1	13287	69	3	3		3	RGAG1	23	109698465	Silent	SNP	A	TCGA-KO-8409-01A-11D-2310-10	25334834	109698465	45572095	100	44077										
PRAMEF1	65121	mdanderson.org	37	chr1	12855822	12855822	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	tccactactcccaactcagtGccatcctgcctgccctgagc	6	19	1	1	rs148127907	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr1:12855822G>A	ENST00000332296.7	+	4	1205	c.1102G>A	c.(1102-1104)Gcc>Acc	p.A368T	PRAMEF1_ENST00000400814.3_Missense_Mutation_p.A123T	NM_023013.2	NP_075389.1	O95521	PRAM1_HUMAN	PRAME family member 1	368					negative regulation of apoptotic process (GO:0043066)|negative regulation of cell differentiation (GO:0045596)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)					cervix(1)|endometrium(2)|kidney(3)|large_intestine(6)|lung(14)|ovary(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	35	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCAACTCAGTGCCATCCTGCC	0.557													.|||	52	0.0103834	0.0	0.0029	5008	,	,		16217	0.0208		0.007	False		,,,				2504	0.0225															0													56	59	58					1																	12855822		2203	4296	6499	SO:0001583	missense	65121			AL049686	CCDS148.1	1p36.21	2013-01-17			ENSG00000116721	ENSG00000116721		"-"	28840	protein-coding gene	gene with protein product							Standard	NM_023013		Approved		uc001auj.2	O95521	OTTHUMG00000001928	ENST00000332296.7:c.1102G>A	1.37:g.12855822G>A	ENSP00000332134:p.Ala368Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UQP2	Missense_Mutation	SNP	ENST00000332296.7	37	CCDS148.1	.	.	.	.	.	.	.	.	.	.	.	10.57	1.386490	0.25031	.	.	ENSG00000116721	ENST00000332296;ENST00000400814	T;T	0.10668	2.85;2.85	1.56	1.56	0.23342	.	0.608476	0.16131	N	0.228175	T	0.08626	0.0214	L	0.35644	1.08	0.09310	N	1	B	0.22003	0.063	B	0.24848	0.056	T	0.24154	-1.0168	10	0.51188	T	0.08	.	6.5617	0.22489	0.0:0.0:1.0:0.0	.	368	O95521	PRAM1_HUMAN	T	368;123	ENSP00000332134:A368T;ENSP00000383616:A123T	ENSP00000332134:A368T	A	+	1	0	PRAMEF1	12778409	0.001000	0.12720	0.070000	0.20053	0.002000	0.02628	0.503000	0.22610	1.170000	0.42753	0.205000	0.17691	GCC		0.557	PRAMEF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005458.1	NM_023013		A	12855822	G	A	12855822	3	1	681	1	0	0	0	0	1	0	0	0	12435	1319	46	2	1112	2	PRAMEF1	1	12855822	Missense_Mutation	SNP	G	TCGA-KO-8410-01A-11D-2310-10		12855822	236394799	1	44078										
HNRNPCL1	343069	mdanderson.org	37	chr1	12907313	12907313	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	tgtcatcctctccttcctcaGcctctttttcatcatccttg	3	16	6	0	rs199978302	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr1:12907313G>A	ENST00000317869.6	-	2	1055	c.830C>T	c.(829-831)gCt>gTt	p.A277V		NM_001013631.1|NM_001136561.2|NM_001146181.1	NP_001013653.1|NP_001130033.2|NP_001139653.1	O60812	HNRC1_HUMAN	heterogeneous nuclear ribonucleoprotein C-like 1	277						nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(15)|prostate(1)|skin(1)|stomach(2)	29						TCCTTCCTCAGCCTCTTTTTC	0.483																																																0													136	156	149					1																	12907313		2203	4300	6503	SO:0001583	missense	0			BC002696	CCDS30591.1	1p36.21	2013-02-12		2008-04-18	ENSG00000179172	ENSG00000179172		"RNA binding motif (RRM) containing"	29295	protein-coding gene	gene with protein product				HNRPCL1			Standard	NM_001013631		Approved			O60812	OTTHUMG00000001931	ENST00000317869.6:c.830C>T	1.37:g.12907313G>A	ENSP00000365370:p.Ala277Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP44	Missense_Mutation	SNP	ENST00000317869.6	37	CCDS30591.1	.	.	.	.	.	.	.	.	.	.	.	9.441	1.088093	0.20390	.	.	ENSG00000179172	ENST00000317869	T	0.10192	2.9	0.926	0.926	0.19430	.	0.684130	0.13415	U	0.389546	T	0.18173	0.0436	L	0.43152	1.355	0.23440	N	0.997671	D	0.76494	0.999	D	0.75484	0.986	T	0.20371	-1.0277	10	0.14252	T	0.57	.	7.7533	0.28909	0.0:0.0:1.0:0.0	.	277	O60812	HNRCL_HUMAN	V	277	ENSP00000365370:A277V	ENSP00000365370:A277V	A	-	2	0	HNRNPCL1	12829900	0.994000	0.37717	0.938000	0.37757	0.160000	0.22226	1.263000	0.33004	0.814000	0.34374	0.173000	0.16961	GCT		0.483	HNRNPCL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005462.1	NM_001013631		A	12907313	G	A	12907313	3	1	681	1	0	0	0	0	1	0	0	0	7270	971	34	2	53	2	HNRNPCL1	1	12907313	Missense_Mutation	SNP	G	TCGA-KO-8410-01A-11D-2310-10	51491	12907313	236343308	2	44079										
LOC440563	0	mdanderson.org	37	chr1	13183631	13183631	+	IGR	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gctctgcagccaggttaataActgcaacctggctagcaatc	9	12	1	0	rs80009603	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr1:13183631A>T								RP13-221M14.3 (19163 upstream) : PRAMEF26 (32724 downstream)																							CAGGTTAATAACTGCAACCTG	0.502													.|||	165	0.0329473	0.0053	0.0173	5008	,	,		17952	0.0903		0.0348	False		,,,				2504	0.0204															0													59	45	49					1																	13183631		691	1587	2278	SO:0001628	intergenic_variant	0																															1.37:g.13183631A>T		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP		37																																																																																				0	0.502									T	13183631	A	T	13183631	1	4	681	0	1	0	0	0	0	0	0	0	8886	43	2	5		5	LOC440563	1	13183631	IGR	SNP	A	TCGA-KO-8410-01A-11D-2310-10	276318	13183631	236066990	3	44080										
PRAMEF18	391003	mdanderson.org	37	chr1	13474980	13474980	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gacgtgtcattgccgtgaaaGcagaaagtggtgaggttgga	16	5	1	3			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr1:13474980G>A	ENST00000376126.2	-	3	1148	c.1149C>T	c.(1147-1149)tgC>tgT	p.C383C		NM_001099850.1	NP_001093320.1	Q5VWM3	PRA18_HUMAN	PRAME family member 18	383					negative regulation of apoptotic process (GO:0043066)|negative regulation of cell differentiation (GO:0045596)|negative regulation of retinoic acid receptor signaling pathway (GO:0048387)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of cell proliferation (GO:0008284)					lung(2)|ovary(1)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TGCCGTGAAAGCAGAAAGTGG	0.572																																																0													42	47	45					1																	13474980		2164	4248	6412	SO:0001819	synonymous_variant	391003					1p36.21	2013-01-17			ENSG00000204491			"-"	30693	protein-coding gene	gene with protein product							Standard			Approved	OTTHUMG00000002932		Q5VWM3	OTTHUMG00000002932	ENST00000376126.2:c.1149C>T	1.37:g.13474980G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000376126.2	37	CCDS41258.1																																																																																				0.572	PRAMEF18-001	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008177.2	NM_001099850		A	13474980	G	A	13474980	2	1	681	1	0	0	0	0	0	0	0	1	12443	963	34	2		2	PRAMEF18	1	13474980	Silent	SNP	G	TCGA-KO-8410-01A-11D-2310-10	291349	13474980	235775641	4	44081										
AMPD1	270	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	115220103	115220103	+	Nonsense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	aggcggggctcagcatgctgGtacttggcctccaccaggtc	14	13	1	0			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr1:115220103G>C	ENST00000520113.2	-	10	1371	c.1356C>G	c.(1354-1356)taC>taG	p.Y452*	AMPD1_ENST00000369538.3_Nonsense_Mutation_p.Y448*|AMPD1_ENST00000353928.6_Nonsense_Mutation_p.Y419*			P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1	452					IMP salvage (GO:0032264)|nucleobase-containing small molecule metabolic process (GO:0055086)|purine nucleobase metabolic process (GO:0006144)|purine-containing compound salvage (GO:0043101)|response to organic substance (GO:0010033)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	AMP deaminase activity (GO:0003876)|metal ion binding (GO:0046872)			NS(1)|breast(1)|endometrium(5)|kidney(1)|large_intestine(10)|lung(17)|ovary(3)|pancreas(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	45	all_epithelial(7;7.83e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)	Adenosine monophosphate(DB00131)	CAGCATGCTGGTACTTGGCCT	0.582																																																0													85	72	76					1																	115220103		2203	4300	6503	SO:0001587	stop_gained	270			M60092	CCDS876.1, CCDS876.2, CCDS53349.1	1p13	2010-02-10	2010-02-10		ENSG00000116748	ENSG00000116748	3.5.4.6		468	protein-coding gene	gene with protein product	"AMPD isoform M", "skeletal muscle AMPD"	102770	"adenosine monophosphate deaminase 1 (isoform M)"			1400401	Standard	NM_001172626		Approved	MAD, MADA	uc001efe.2	P23109	OTTHUMG00000011892	ENST00000520113.2:c.1356C>G	1.37:g.115220103G>C	ENSP00000430075:p.Tyr452*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5N4|B2RAM1|F2Z3B3|Q5TF00|Q5TF02	Nonsense_Mutation	SNP	ENST00000520113.2	37	CCDS876.2	.	.	.	.	.	.	.	.	.	.	G	37	6.308656	0.97462	.	.	ENSG00000116748	ENST00000520113;ENST00000369538;ENST00000353928	.	.	.	5.85	2.99	0.34606	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-20.064	10.6982	0.45911	0.2078:0.0:0.7922:0.0	.	.	.	.	X	452;448;419	.	ENSP00000316520:Y419X	Y	-	3	2	AMPD1	115021626	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	3.502000	0.53332	0.384000	0.24942	-0.254000	0.11334	TAC		0.582	AMPD1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000032860.4			C	115220103	G	C	115220103	4	2	681	1	0	0	0	0	0	1	0	0	585	1256	44	4	1014	4	AMPD1	1	115220103	Nonsense_Mutation	SNP	G	TCGA-KO-8410-01A-11D-2310-10	101745123	115220103	134030518	5	44082										
THADA	63892	broad.mit.edu;bcgsc.ca	37	chr2	43755040	43755040	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gtttagtacttcagtgagttTcacaaaaccagtataagcca	7	8	2	1			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr2:43755040T>C	ENST00000405006.4	-	22	3703	c.3352A>G	c.(3352-3354)Aaa>Gaa	p.K1118E	THADA_ENST00000330266.7_Missense_Mutation_p.K828E|THADA_ENST00000405975.2_Missense_Mutation_p.K1118E|THADA_ENST00000415080.2_Missense_Mutation_p.K828E	NM_001083953.1|NM_001271643.1	NP_001077422.1|NP_001258572.1	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1118										breast(1)|endometrium(9)|kidney(5)|large_intestine(9)|liver(1)|lung(28)|ovary(4)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(5)	66		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				TCAGTGAGTTTCACAAAACCA	0.313																																																0													208	201	203					2																	43755040		1838	4089	5927	SO:0001583	missense	63892			AY149629	CCDS46268.1, CCDS62901.1, CCDS62902.1	2p21	2008-02-05			ENSG00000115970	ENSG00000115970			19217	protein-coding gene	gene with protein product		611800				12063398, 11214970	Standard	NM_022065		Approved	FLJ21877, KIAA1767, GITA	uc002rsx.4	Q6YHU6	OTTHUMG00000152398	ENST00000405006.4:c.3352A>G	2.37:g.43755040T>C	ENSP00000385995:p.Lys1118Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1V8|B7WNS6|Q3KR04|Q53RC6|Q53TB2|Q6YHU2|Q6ZU38|Q8IY32|Q8TAU8|Q96I88|Q9BZF7|Q9C096|Q9H6U0|Q9H6W7	Missense_Mutation	SNP	ENST00000405006.4	37	CCDS46268.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	13.83|13.83	2.353690|2.353690	0.41700|0.41700	.|.	.|.	ENSG00000115970|ENSG00000115970	ENST00000330266;ENST00000405975;ENST00000356975;ENST00000415080;ENST00000405006|ENST00000407351	T;T;T;T|.	0.42131|.	0.98;0.98;0.98;0.98|.	5.68|5.68	4.49|4.49	0.54785|0.54785	Domain of unknown function DUF2428, death-receptor-like (1);Armadillo-type fold (1);|.	0.220796|.	0.41605|.	D|.	0.000860|.	T|.	0.47414|.	0.1444|.	L|L	0.45137|0.45137	1.4|1.4	0.31061|0.31061	N|N	0.714094|0.714094	D;D;P;D|.	0.67145|.	0.98;0.996;0.776;0.984|.	P;P;P;P|.	0.57620|.	0.758;0.824;0.536;0.802|.	T|.	0.50792|.	-0.8786|.	10|.	0.72032|.	D|.	0.01|.	.|.	12.0505|12.0505	0.53503|0.53503	0.0:0.0:0.2709:0.7291|0.0:0.0:0.2709:0.7291	.|.	828;1119;828;1118|.	Q6YHU6-2;B6ZDQ0;C9JJB1;Q6YHU6|.	.;.;.;THADA_HUMAN|.	E|W	828;1118;1119;828;1118|431	ENSP00000331105:K828E;ENSP00000386088:K1118E;ENSP00000416048:K828E;ENSP00000385995:K1118E|.	ENSP00000331105:K828E|.	K|X	-|-	1|3	0|0	THADA|THADA	43608544|43608544	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.990000|0.990000	0.78478|0.78478	3.935000|3.935000	0.56560|0.56560	0.945000|0.945000	0.37605|0.37605	0.459000|0.459000	0.35465|0.35465	AAA|TGA		0.313	THADA-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000326070.3	NM_022065		C	43755040	T	C	43755040	3	2	681	1	0	0	0	0	1	0	0	0	15852	1792	62	3	2577	3	THADA	2	43755040	Missense_Mutation	SNP	T	TCGA-KO-8410-01A-11D-2310-10		43755040	199444333	6	44083										
ADD2	119	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	70910791	70910791	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ccgactcttctgcataggccCaaaggtgctcccggcccact	9	17	2	0			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr2:70910791C>A	ENST00000264436.4	-	10	1501	c.1057G>T	c.(1057-1059)Ggg>Tgg	p.G353W	ADD2_ENST00000407644.2_Missense_Mutation_p.G353W|ADD2_ENST00000413157.2_Missense_Mutation_p.G353W|ADD2_ENST00000355733.3_Missense_Mutation_p.G353W|ADD2_ENST00000430656.1_Missense_Mutation_p.G369W	NM_001617.3	NP_001608.1	P35612	ADDB_HUMAN	adducin 2 (beta)	353					actin cytoskeleton organization (GO:0030036)|actin filament bundle assembly (GO:0051017)|barbed-end actin filament capping (GO:0051016)|hemopoiesis (GO:0030097)|positive regulation of protein binding (GO:0032092)|protein complex assembly (GO:0006461)	cytoplasmic membrane-bounded vesicle (GO:0016023)|F-actin capping protein complex (GO:0008290)|plasma membrane (GO:0005886)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|spectrin binding (GO:0030507)|structural molecule activity (GO:0005198)			autonomic_ganglia(1)|central_nervous_system(2)|cervix(1)|endometrium(2)|large_intestine(11)|lung(13)|ovary(3)|pancreas(1)|skin(2)	36						TGCATAGGCCCAAAGGTGCTC	0.632																																																0													47	42	44					2																	70910791		2203	4300	6503	SO:0001583	missense	119			X58199	CCDS1906.1, CCDS1909.1, CCDS46318.1, CCDS54365.1	2p13.3	2008-02-05			ENSG00000075340	ENSG00000075340			244	protein-coding gene	gene with protein product		102681				1840603	Standard	NM_001617		Approved	ADDB	uc021vjc.1	P35612	OTTHUMG00000129710	ENST00000264436.4:c.1057G>T	2.37:g.70910791C>A	ENSP00000264436:p.Gly353Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4P2|B4DM17|D6W5G7|D6W5G8|Q13482|Q16412|Q59G82|Q5U5P4|Q6P0P2|Q6PGQ4|Q7Z688|Q7Z689|Q7Z690|Q7Z691	Missense_Mutation	SNP	ENST00000264436.4	37	CCDS1906.1	.	.	.	.	.	.	.	.	.	.	C	25.2	4.608811	0.87258	.	.	ENSG00000075340	ENST00000264436;ENST00000407644;ENST00000355733;ENST00000356565;ENST00000413157;ENST00000430656	T;T;T;T;T	0.09911	3.21;3.21;3.07;2.94;2.93	4.87	4.87	0.63330	.	0.000000	0.85682	D	0.000000	T	0.32763	0.0840	M	0.73217	2.22	0.80722	D	1	D;D;D;D	0.89917	0.999;0.998;0.998;1.0	D;D;D;D	0.97110	0.981;0.965;0.958;1.0	T	0.03148	-1.1067	10	0.87932	D	0	-31.9107	15.5561	0.76196	0.0:1.0:0.0:0.0	.	369;353;353;353	B4DM17;P35612-4;P35612;P35612-3	.;.;ADDB_HUMAN;.	W	353;353;353;353;353;369	ENSP00000264436:G353W;ENSP00000384677:G353W;ENSP00000347972:G353W;ENSP00000388072:G353W;ENSP00000398112:G369W	ENSP00000264436:G353W	G	-	1	0	ADD2	70764299	1.000000	0.71417	0.924000	0.36721	0.977000	0.68977	7.462000	0.80851	2.541000	0.85698	0.655000	0.94253	GGG		0.632	ADD2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251918.4	NM_001617		A	70910791	C	A	70910791	3	1	681	1	0	0	0	0	1	0	0	0	305	594	21	4	1328	4	ADD2	2	70910791	Missense_Mutation	SNP	C	TCGA-KO-8410-01A-11D-2310-10	27155751	70910791	172288582	7	44084										
SLC4A10	57282	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	162757484	162757484	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	atggggaagcagagccccacGgaggacatagtggacctgaa	15	9	0	2			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr2:162757484G>A	ENST00000446997.1	+	12	1498	c.1405G>A	c.(1405-1407)Gga>Aga	p.G469R	SLC4A10_ENST00000415876.2_Missense_Mutation_p.G439R|SLC4A10_ENST00000375514.5_Missense_Mutation_p.G450R|SLC4A10_ENST00000493021.1_3'UTR|SLC4A10_ENST00000421911.1_Missense_Mutation_p.G469R|SLC4A10_ENST00000535165.1_3'UTR|SLC4A10_ENST00000272716.5_Missense_Mutation_p.G439R	NM_001178015.1	NP_001171486.1	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate transporter, member 10	469					bicarbonate transport (GO:0015701)|chloride transport (GO:0006821)|ion transport (GO:0006811)|regulation of pH (GO:0006885)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)	basolateral plasma membrane (GO:0016323)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	inorganic anion exchanger activity (GO:0005452)|symporter activity (GO:0015293)			endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(9)|lung(35)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	60					Sodium bicarbonate(DB01390)	AGAGCCCCACGGAGGACATAG	0.458																																																0													46	52	50					2																	162757484		1953	4133	6086	SO:0001583	missense	57282				CCDS46438.1, CCDS54411.1, CCDS54412.1	2q24.2	2013-05-22	2008-09-15		ENSG00000144290	ENSG00000144290		"Solute carriers"	13811	protein-coding gene	gene with protein product		605556	"solute carrier family 4, sodium bicarbonate transporter-like, member 10"			10964153, 18319254	Standard	NM_022058		Approved	NBCn2, NCBE	uc002ubx.4	Q6U841	OTTHUMG00000153938	ENST00000446997.1:c.1405G>A	2.37:g.162757484G>A	ENSP00000393066:p.Gly469Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z1R0|B7Z2J0|B7ZLC5|B9EG69|F8W675|Q4ZFX6|Q8TCP2|Q9HCQ6	Missense_Mutation	SNP	ENST00000446997.1	37	CCDS54411.1	.	.	.	.	.	.	.	.	.	.	G	12.51	1.960298	0.34565	.	.	ENSG00000144290	ENST00000375514;ENST00000415876;ENST00000272716;ENST00000449513;ENST00000446997;ENST00000421911;ENST00000415711	T;T;T;T;T	0.80123	-1.34;-1.34;-1.34;-1.31;-1.31	5.27	5.27	0.74061	.	0.000000	0.85682	D	0.000000	D	0.85553	0.5723	M	0.61703	1.905	0.58432	D	0.999999	D;B;D;P	0.53619	0.961;0.1;0.961;0.773	P;B;P;B	0.57548	0.823;0.023;0.823;0.14	T	0.81123	-0.1076	10	0.14252	T	0.57	.	19.2477	0.93909	0.0:0.0:1.0:0.0	.	450;469;439;469	F8W675;E7EW28;Q6U841-2;Q6U841	.;.;.;S4A10_HUMAN	R	450;439;439;438;469;469;468	ENSP00000364664:G450R;ENSP00000395797:G439R;ENSP00000272716:G439R;ENSP00000393066:G469R;ENSP00000404486:G469R	ENSP00000272716:G439R	G	+	1	0	SLC4A10	162465730	1.000000	0.71417	0.997000	0.53966	0.993000	0.82548	7.787000	0.85759	2.628000	0.89032	0.655000	0.94253	GGA		0.458	SLC4A10-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000333090.1	NM_022058		A	162757484	G	A	162757484	3	1	681	1	0	0	0	0	1	0	0	0	14664	1117	39	1	1536	1	SLC4A10	2	162757484	Missense_Mutation	SNP	G	TCGA-KO-8410-01A-11D-2310-10	91846693	162757484	80441889	8	44085										
UGT1A9	54600	mdanderson.org	37	chr2	234580967	234580967	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	aattgcaggagtttgtttaaAgacaaaaaattagtagaata	8	2	0	2	rs28946876	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr2:234580967A>G	ENST00000354728.4	+	1	469	c.387A>G	c.(385-387)aaA>aaG	p.K129K	UGT1A1_ENST00000609637.1_Silent_p.K129K|UGT1A1_ENST00000373450.4_Intron|UGT1A10_ENST00000344644.5_Intron|UGT1A10_ENST00000373445.1_Intron			O60656	UD19_HUMAN	UDP glucuronosyltransferase 1 family, polypeptide A9	129					cellular glucuronidation (GO:0052695)|cellular lipid metabolic process (GO:0044255)|drug metabolic process (GO:0017144)|flavone metabolic process (GO:0051552)|flavonoid glucuronidation (GO:0052696)|metabolic process (GO:0008152)|negative regulation of catalytic activity (GO:0043086)|negative regulation of cellular glucuronidation (GO:2001030)|negative regulation of fatty acid metabolic process (GO:0045922)|retinoic acid metabolic process (GO:0042573)|small molecule metabolic process (GO:0044281)|xenobiotic glucuronidation (GO:0052697)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	enzyme binding (GO:0019899)|enzyme inhibitor activity (GO:0004857)|glucuronosyltransferase activity (GO:0015020)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|retinoic acid binding (GO:0001972)			breast(2)|endometrium(3)|kidney(3)|large_intestine(9)|lung(14)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)	37		Breast(86;0.000766)|all_lung(227;0.00269)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0331)|Lung NSC(271;0.0459)|Lung SC(224;0.128)		Epithelial(121;1.26e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000436)|Lung(119;0.00347)|LUSC - Lung squamous cell carcinoma(224;0.00757)	Acetaminophen(DB00316)|Buprenorphine(DB00921)|Canagliflozin(DB08907)|Dabigatran etexilate(DB06695)|Dapagliflozin(DB06292)|Entacapone(DB00494)|Etodolac(DB00749)|Ezogabine(DB04953)|Flurbiprofen(DB00712)|Haloperidol(DB00502)|Human Serum Albumin(DB00062)|Hydromorphone(DB00327)|Ibuprofen(DB01050)|Indomethacin(DB00328)|Irinotecan(DB00762)|Ketobemidone(DB06738)|Lumiracoxib(DB01283)|Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|Nateglinide(DB00731)|Niflumic Acid(DB04552)|Oxazepam(DB00842)|Propofol(DB00818)|Regorafenib(DB08896)|Sorafenib(DB00398)|Sulfamethoxazole(DB01015)|Tapentadol(DB06204)|Valproic Acid(DB00313)|Zileuton(DB00744)	GTTTGTTTAAAGACAAAAAAT	0.313																																																0													99	101	101					2																	234580967		2203	4300	6503	SO:0001819	synonymous_variant	54600			AF056188	CCDS2505.1	2q37	2010-03-05	2005-07-20		ENSG00000241119	ENSG00000241119		"UDP glucuronosyltransferases"	12541	other	complex locus constituent		606434	"UDP glycosyltransferase 1 family, polypeptide A9"			9295054, 1910331	Standard	NM_021027		Approved	HLUGP4, LUGP4, UGT1AI		O60656	OTTHUMG00000059124	ENST00000354728.4:c.387A>G	2.37:g.234580967A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B8K285|P36509|Q9HAX0	Silent	SNP	ENST00000354728.4	37	CCDS2505.1																																																																																				0.313	UGT1A9-001	KNOWN	basic|appris_principal|readthrough_transcript|CCDS	protein_coding	protein_coding	OTTHUMT00000130995.1	NM_021027		G	234580967	A	G	234580967	2	3	681	1	0	0	0	0	0	0	0	1	16964	69	3	3		3	UGT1A9	2	234580967	Silent	SNP	A	TCGA-KO-8410-01A-11D-2310-10	71823483	234580967	8618406	9	44086			1	125		3	3	68	N	C_AA_A	1.066728e-08
UGT1A9	54600	mdanderson.org	37	chr2	234581002	234581002	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	agaatacttaaaggagagttCttttgatgcagtgtttctcg	10	5	2	3	rs76167146	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr2:234581002C>G	ENST00000354728.4	+	1	504	c.422C>G	c.(421-423)tCt>tGt	p.S141C	UGT1A1_ENST00000609637.1_Missense_Mutation_p.S141C|UGT1A1_ENST00000373450.4_Intron|UGT1A10_ENST00000344644.5_Intron|UGT1A10_ENST00000373445.1_Intron			O60656	UD19_HUMAN	UDP glucuronosyltransferase 1 family, polypeptide A9	141					cellular glucuronidation (GO:0052695)|cellular lipid metabolic process (GO:0044255)|drug metabolic process (GO:0017144)|flavone metabolic process (GO:0051552)|flavonoid glucuronidation (GO:0052696)|metabolic process (GO:0008152)|negative regulation of catalytic activity (GO:0043086)|negative regulation of cellular glucuronidation (GO:2001030)|negative regulation of fatty acid metabolic process (GO:0045922)|retinoic acid metabolic process (GO:0042573)|small molecule metabolic process (GO:0044281)|xenobiotic glucuronidation (GO:0052697)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	enzyme binding (GO:0019899)|enzyme inhibitor activity (GO:0004857)|glucuronosyltransferase activity (GO:0015020)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|retinoic acid binding (GO:0001972)			breast(2)|endometrium(3)|kidney(3)|large_intestine(9)|lung(14)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)	37		Breast(86;0.000766)|all_lung(227;0.00269)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0331)|Lung NSC(271;0.0459)|Lung SC(224;0.128)		Epithelial(121;1.26e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000436)|Lung(119;0.00347)|LUSC - Lung squamous cell carcinoma(224;0.00757)	Acetaminophen(DB00316)|Buprenorphine(DB00921)|Canagliflozin(DB08907)|Dabigatran etexilate(DB06695)|Dapagliflozin(DB06292)|Entacapone(DB00494)|Etodolac(DB00749)|Ezogabine(DB04953)|Flurbiprofen(DB00712)|Haloperidol(DB00502)|Human Serum Albumin(DB00062)|Hydromorphone(DB00327)|Ibuprofen(DB01050)|Indomethacin(DB00328)|Irinotecan(DB00762)|Ketobemidone(DB06738)|Lumiracoxib(DB01283)|Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|Nateglinide(DB00731)|Niflumic Acid(DB04552)|Oxazepam(DB00842)|Propofol(DB00818)|Regorafenib(DB08896)|Sorafenib(DB00398)|Sulfamethoxazole(DB01015)|Tapentadol(DB06204)|Valproic Acid(DB00313)|Zileuton(DB00744)	AAGGAGAGTTCTTTTGATGCA	0.358																																																0													125	125	125					2																	234581002		2203	4300	6503	SO:0001583	missense	54600			AF056188	CCDS2505.1	2q37	2010-03-05	2005-07-20		ENSG00000241119	ENSG00000241119		"UDP glucuronosyltransferases"	12541	other	complex locus constituent		606434	"UDP glycosyltransferase 1 family, polypeptide A9"			9295054, 1910331	Standard	NM_021027		Approved	HLUGP4, LUGP4, UGT1AI		O60656	OTTHUMG00000059124	ENST00000354728.4:c.422C>G	2.37:g.234581002C>G	ENSP00000346768:p.Ser141Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B8K285|P36509|Q9HAX0	Missense_Mutation	SNP	ENST00000354728.4	37	CCDS2505.1	.	.	.	.	.	.	.	.	.	.	C	5.531	0.282927	0.10458	.	.	ENSG00000241119	ENST00000354728	T	0.62639	0.01	3.41	3.41	0.39046	.	.	.	.	.	T	0.61375	0.2342	M	0.81942	2.565	0.09310	N	1	B;B	0.10296	0.003;0.003	B;B	0.12837	0.008;0.008	T	0.58036	-0.7707	9	0.66056	D	0.02	.	6.3779	0.21517	0.334:0.5079:0.1581:0.0	.	141;141	Q5DSZ5;O60656	.;UD19_HUMAN	C	141	ENSP00000346768:S141C	ENSP00000346768:S141C	S	+	2	0	UGT1A9	234245741	0.000000	0.05858	0.866000	0.34008	0.471000	0.32888	0.356000	0.20181	1.907000	0.55213	0.440000	0.28878	TCT		0.358	UGT1A9-001	KNOWN	basic|appris_principal|readthrough_transcript|CCDS	protein_coding	protein_coding	OTTHUMT00000130995.1	NM_021027		G	234581002	C	G	234581002	3	3	681	1	0	0	0	0	1	0	0	0	16964	913	32	4	424	4	UGT1A9	2	234581002	Missense_Mutation	SNP	C	TCGA-KO-8410-01A-11D-2310-10	35	234581002	8618371	10	44087			1	125		3	3	68	N	C_AA_A	1.066728e-08
UGT1A9	54600	mdanderson.org	37	chr2	234581034	234581035	+	Missense_Mutation	DNP	AA	AA	GC													0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	tgtttctcgatccttttgatAactgtggcttaattgttgcc							TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr2:234581034_234581035AA>GC	ENST00000354728.4	+	1	536_537	c.454_455AA>GC	c.(454-456)AAc>GCc	p.N152A	UGT1A1_ENST00000609637.1_Missense_Mutation_p.N152A|UGT1A1_ENST00000373450.4_Intron|UGT1A10_ENST00000344644.5_Intron|UGT1A10_ENST00000373445.1_Intron			O60656	UD19_HUMAN	UDP glucuronosyltransferase 1 family, polypeptide A9	152					cellular glucuronidation (GO:0052695)|cellular lipid metabolic process (GO:0044255)|drug metabolic process (GO:0017144)|flavone metabolic process (GO:0051552)|flavonoid glucuronidation (GO:0052696)|metabolic process (GO:0008152)|negative regulation of catalytic activity (GO:0043086)|negative regulation of cellular glucuronidation (GO:2001030)|negative regulation of fatty acid metabolic process (GO:0045922)|retinoic acid metabolic process (GO:0042573)|small molecule metabolic process (GO:0044281)|xenobiotic glucuronidation (GO:0052697)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	enzyme binding (GO:0019899)|enzyme inhibitor activity (GO:0004857)|glucuronosyltransferase activity (GO:0015020)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|retinoic acid binding (GO:0001972)			breast(2)|endometrium(3)|kidney(3)|large_intestine(9)|lung(14)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)	37		Breast(86;0.000766)|all_lung(227;0.00269)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0331)|Lung NSC(271;0.0459)|Lung SC(224;0.128)		Epithelial(121;1.26e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000436)|Lung(119;0.00347)|LUSC - Lung squamous cell carcinoma(224;0.00757)	Acetaminophen(DB00316)|Buprenorphine(DB00921)|Canagliflozin(DB08907)|Dabigatran etexilate(DB06695)|Dapagliflozin(DB06292)|Entacapone(DB00494)|Etodolac(DB00749)|Ezogabine(DB04953)|Flurbiprofen(DB00712)|Haloperidol(DB00502)|Human Serum Albumin(DB00062)|Hydromorphone(DB00327)|Ibuprofen(DB01050)|Indomethacin(DB00328)|Irinotecan(DB00762)|Ketobemidone(DB06738)|Lumiracoxib(DB01283)|Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|Nateglinide(DB00731)|Niflumic Acid(DB04552)|Oxazepam(DB00842)|Propofol(DB00818)|Regorafenib(DB08896)|Sorafenib(DB00398)|Sulfamethoxazole(DB01015)|Tapentadol(DB06204)|Valproic Acid(DB00313)|Zileuton(DB00744)	TCCTTTTGATAACTGTGGCTTA	0.396																																																0																																										SO:0001583	missense	54600			AF056188	CCDS2505.1	2q37	2010-03-05	2005-07-20		ENSG00000241119	ENSG00000241119		"UDP glucuronosyltransferases"	12541	other	complex locus constituent		606434	"UDP glycosyltransferase 1 family, polypeptide A9"			9295054, 1910331	Standard	NM_021027		Approved	HLUGP4, LUGP4, UGT1AI		O60656	OTTHUMG00000059124	Exception_encountered	2.37:g.234581034_234581035delinsGC	ENSP00000346768:p.Asn152Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B8K285|P36509|Q9HAX0	Missense_Mutation	DNP	ENST00000354728.4	37	CCDS2505.1																																																																																				0.396	UGT1A9-001	KNOWN	basic|appris_principal|readthrough_transcript|CCDS	protein_coding	protein_coding	OTTHUMT00000130995.1	NM_021027		GC	234581035	AA	GC	234581034	3	3	681	1	0	0	0	0	1	0	0	0	16964	362	13	3	456	3	UGT1A9	2	234581034	Missense_Mutation	DNP	AA	TCGA-KO-8410-01A-11D-2310-10	32	234581034	8618339	11	44088			1	125		3	3	68	N	C_AA_A	1.066728e-08
PASK	23178	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	242076636	242076636	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ttaagctcagagggaaggtgGtaccgtccctggctcttcca	12	11	2	1			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr2:242076636G>A	ENST00000405260.1	-	7	1618	c.920C>T	c.(919-921)aCc>aTc	p.T307I	PASK_ENST00000544142.1_Missense_Mutation_p.T121I|PASK_ENST00000403638.3_Missense_Mutation_p.T307I|PASK_ENST00000234040.4_Missense_Mutation_p.T307I|PASK_ENST00000358649.4_Missense_Mutation_p.T307I|PASK_ENST00000539818.1_Missense_Mutation_p.T91I	NM_001252120.1	NP_001239049.1	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	307					negative regulation of glycogen biosynthetic process (GO:0045719)|positive regulation of translation (GO:0045727)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of energy homeostasis (GO:2000505)|regulation of glucagon secretion (GO:0070092)|regulation of respiratory gaseous exchange (GO:0043576)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)	ATP binding (GO:0005524)|phosphatidylinositol binding (GO:0035091)|protein serine/threonine kinase activity (GO:0004674)|signal transducer activity (GO:0004871)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(6)|lung(20)|ovary(4)|prostate(4)|skin(1)|stomach(1)|urinary_tract(2)	53		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		AGGGAAGGTGGTACCGTCCCT	0.567																																																0													79	77	78					2																	242076636		2203	4300	6503	SO:0001583	missense	23178			U79240	CCDS2545.1, CCDS58758.1, CCDS58759.1	2q37.3	2008-05-23			ENSG00000115687	ENSG00000115687			17270	protein-coding gene	gene with protein product		607505				11688972, 11459942, 15148392	Standard	NM_001252119		Approved	PASKIN, KIAA0135, STK37	uc010fzl.2	Q96RG2	OTTHUMG00000133392	ENST00000405260.1:c.920C>T	2.37:g.242076636G>A	ENSP00000384016:p.Thr307Ile	Somatic		WXS	Illumina HiSeq	Phase_I	G5E9F1|Q05BE4|Q68DY3|Q6GSJ5|Q86XH6|Q99763|Q9UFR7	Missense_Mutation	SNP	ENST00000405260.1	37	CCDS2545.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	19.54|19.54	3.846814|3.846814	0.71603|0.71603	.|.	.|.	ENSG00000115687|ENSG00000115687	ENST00000433589|ENST00000234040;ENST00000544142;ENST00000405260;ENST00000358649;ENST00000539818;ENST00000403638;ENST00000415234	.|T;T;T;T;T;T;T	.|0.70164	.|0.88;-0.46;0.88;0.88;0.88;0.88;-0.46	5.26|5.26	3.36|3.36	0.38483|0.38483	.|.	.|0.255608	.|0.27072	.|N	.|0.021072	T|T	0.76090|0.76090	0.3939|0.3939	M|M	0.70595|0.70595	2.14|2.14	0.23198|0.23198	N|N	0.998137|0.998137	.|D;D;D;P;D	.|0.63046	.|0.961;0.992;0.977;0.921;0.961	.|P;P;P;B;P	.|0.62813	.|0.708;0.907;0.847;0.415;0.708	T|T	0.65512|0.65512	-0.6150|-0.6150	5|10	.|0.56958	.|D	.|0.05	.|.	10.6401|10.6401	0.45588|0.45588	0.0:0.1401:0.7161:0.1438|0.0:0.1401:0.7161:0.1438	.|.	.|272;121;307;307;307	.|B7Z7R6;F5GYW7;Q96RG2-2;G5E9F1;Q96RG2	.|.;.;.;.;PASK_HUMAN	S|I	122|307;121;307;307;91;307;91	.|ENSP00000234040:T307I;ENSP00000441374:T121I;ENSP00000384016:T307I;ENSP00000351475:T307I;ENSP00000443083:T91I;ENSP00000384438:T307I;ENSP00000400734:T91I	.|ENSP00000234040:T307I	P|T	-|-	1|2	0|0	PASK|PASK	241725309|241725309	0.998000|0.998000	0.40836|0.40836	0.972000|0.972000	0.41901|0.41901	0.869000|0.869000	0.49853|0.49853	1.015000|1.015000	0.29963|0.29963	2.453000|2.453000	0.82957|0.82957	0.467000|0.467000	0.42956|0.42956	CCA|ACC		0.567	PASK-003	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000323753.1	NM_015148		A	242076636	G	A	242076636	3	1	681	1	0	0	0	0	1	0	0	0	11479	1261	44	2	3099	2	PASK	2	242076636	Missense_Mutation	SNP	G	TCGA-KO-8410-01A-11D-2310-10	7495602	242076636	1122737	12	44089										
GCET2	257144	broad.mit.edu	37	chr3	111842562	111842562	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	tgatggccttgtacagagaaCccgatgattgatgagggtat	13	6	0	5	rs570762149	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr3:111842562C>A	ENST00000308910.4	-	6	461	c.277G>T	c.(277-279)Gtt>Ttt	p.V93F	C3orf52_ENST00000467942.2_Intron|GCSAM_ENST00000484193.1_Missense_Mutation_p.V95F	NM_001190259.1|NM_001190260.1|NM_152785.4	NP_001177188.1|NP_001177189.1|NP_689998.1	Q8N6F7	GCSAM_HUMAN	germinal center-associated, signaling and motility	93					negative regulation of lymphocyte migration (GO:2000402)|regulation of B cell receptor signaling pathway (GO:0050855)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	actin binding (GO:0003779)|myosin II binding (GO:0045159)|protein kinase binding (GO:0019901)										GTACAGAGAACCCGATGATTG	0.483																																																0													140	118	126					3																	111842562		2203	4300	6503	SO:0001583	missense	257144			BC030506	CCDS2964.1, CCDS54621.1, CCDS54622.1	3q13.13	2012-09-03	2012-08-23	2012-08-23	ENSG00000174500	ENSG00000174500			20253	protein-coding gene	gene with protein product	"human germinal center-associated lymphoma"	607792	"germinal center expressed transcript 2"	GCET2			Standard	NM_152785		Approved	MGC40441, HGAL	uc021xcl.1	Q8N6F7	OTTHUMG00000159231	ENST00000308910.4:c.277G>T	3.37:g.111842562C>A	ENSP00000309487:p.Val93Phe	Somatic		WXS	Illumina HiSeq	Phase_I	C9JD17|C9JUG6	Missense_Mutation	SNP	ENST00000308910.4	37	CCDS2964.1	.	.	.	.	.	.	.	.	.	.	C	14.23	2.474764	0.43942	.	.	ENSG00000174500	ENST00000308910;ENST00000484193;ENST00000460387;ENST00000488580;ENST00000487901	.	.	.	4.2	2.41	0.29592	.	0.491893	0.17030	N	0.189773	T	0.51244	0.1663	L	0.56769	1.78	0.09310	N	1	D	0.63880	0.993	P	0.61132	0.884	T	0.34378	-0.9831	9	0.72032	D	0.01	-2.5888	6.4966	0.22146	0.0:0.7837:0.0:0.2163	.	93	Q8N6F7	GCET2_HUMAN	F	93;95;78;76;76	.	ENSP00000309487:V93F	V	-	1	0	GCET2	113325252	0.000000	0.05858	0.001000	0.08648	0.001000	0.01503	0.548000	0.23314	0.725000	0.32318	0.655000	0.94253	GTT		0.483	GCSAM-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000353967.2	NM_152785		A	111842562	C	A	111842562	3	1	681	1	0	0	0	0	1	0	0	0	6295	507	18	4	263	4	GCET2	3	111842562	Missense_Mutation	SNP	C	TCGA-KO-8410-01A-11D-2310-10		111842562	86179868	13	44090										
ATP6V1A	523	broad.mit.edu	37	chr3	113522467	113522467	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	agataaaatcactctggaggTagcaaaacttatcaaagatg	8	6	3	2			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr3:113522467T>C	ENST00000273398.3	+	13	1640	c.1532T>C	c.(1531-1533)gTa>gCa	p.V511A	ATP6V1A_ENST00000538620.1_Missense_Mutation_p.V478A|ATP6V1A_ENST00000461496.1_3'UTR	NM_001690.3	NP_001681.2	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal 70kDa, V1 subunit A	511					ATP hydrolysis coupled proton transport (GO:0015991)|cellular iron ion homeostasis (GO:0006879)|insulin receptor signaling pathway (GO:0008286)|interaction with host (GO:0051701)|phagosome maturation (GO:0090382)|transferrin transport (GO:0033572)|transmembrane transport (GO:0055085)|transport (GO:0006810)	apical plasma membrane (GO:0016324)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|microvillus (GO:0005902)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|proton-transporting two-sector ATPase complex (GO:0016469)|proton-transporting V-type ATPase, V1 domain (GO:0033180)	ATP binding (GO:0005524)|proton-transporting ATPase activity, rotational mechanism (GO:0046961)			breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(17)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	34					Alendronate(DB00630)|Etidronic acid(DB01077)|Tiludronate(DB01133)	ACTCTGGAGGTAGCAAAACTT	0.308																																																0													115	125	122					3																	113522467		2203	4295	6498	SO:0001583	missense	523			L09235	CCDS2976.1	3q13.31	2010-04-21	2002-08-29	2003-04-25	ENSG00000114573	ENSG00000114573	3.6.3.14	"ATPases / V-type"	851	protein-coding gene	gene with protein product		607027	"ATPase, H+ transporting, lysosomal (vacuolar proton pump), alpha polypeptide, 70kD, isoform 1"	VPP2, ATP6A1, ATP6V1A1		8463241	Standard	NM_001690		Approved	Vma1, VA68	uc003eao.3	P38606	OTTHUMG00000159295	ENST00000273398.3:c.1532T>C	3.37:g.113522467T>C	ENSP00000273398:p.Val511Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBR8|B7Z1R5|D3DN75|Q53YD9|Q96DY6|Q9UHY3	Missense_Mutation	SNP	ENST00000273398.3	37	CCDS2976.1	.	.	.	.	.	.	.	.	.	.	T	23.9	4.475070	0.84640	.	.	ENSG00000114573	ENST00000545842;ENST00000273398;ENST00000538620	T;T	0.77229	-1.08;-1.08	5.54	5.54	0.83059	ATPase, F1/V1/A1 complex, alpha/beta subunit, C-terminal (2);ATPase, F1 complex beta subunit/V1 complex, C-terminal (1);	0.000000	0.85682	D	0.000000	D	0.89001	0.6591	M	0.86740	2.835	0.80722	D	1	P	0.52463	0.953	D	0.67725	0.953	D	0.90023	0.4129	10	0.51188	T	0.08	-7.4545	15.676	0.77321	0.0:0.0:0.0:1.0	.	511	P38606	VATA_HUMAN	A	228;511;478	ENSP00000273398:V511A;ENSP00000439874:V478A	ENSP00000273398:V511A	V	+	2	0	ATP6V1A	115005157	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.994000	0.88315	2.100000	0.63781	0.528000	0.53228	GTA		0.308	ATP6V1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354457.1	NM_001690		C	113522467	T	C	113522467	3	2	681	1	0	0	0	0	1	0	0	0	1177	1638	57	3	1578	3	ATP6V1A	3	113522467	Missense_Mutation	SNP	T	TCGA-KO-8410-01A-11D-2310-10	1679905	113522467	84499963	14	44091										
KIAA1407	57577	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr3	113775289	113775289	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	catccttttctttgagaaggAccttccctgaggcgccagga	10	12	1	2			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr3:113775289A>C	ENST00000295878.3	-	1	171	c.25T>G	c.(25-27)Tcc>Gcc	p.S9A	QTRTD1_ENST00000485050.1_5'Flank|KIAA1407_ENST00000545063.1_5'UTR|KIAA1407_ENST00000480588.1_5'UTR|QTRTD1_ENST00000281273.4_5'Flank|QTRTD1_ENST00000479882.1_5'Flank|QTRTD1_ENST00000493014.1_5'Flank	NM_020817.1	NP_065868.1	Q8NCU4	K1407_HUMAN	KIAA1407	9										endometrium(9)|large_intestine(7)|lung(19)|ovary(2)|pancreas(1)|prostate(1)|urinary_tract(1)	40						TTTGAGAAGGACCTTCCCTGA	0.602																																																0													121	131	128					3																	113775289		2203	4300	6503	SO:0001583	missense	57577			AF509494	CCDS2977.1	3q13.31	2005-01-10			ENSG00000163617	ENSG00000163617			29272	protein-coding gene	gene with protein product						10718198	Standard	NM_020817		Approved		uc003eax.3	Q8NCU4	OTTHUMG00000159337	ENST00000295878.3:c.25T>G	3.37:g.113775289A>C	ENSP00000295878:p.Ser9Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYL1|Q9P2E0	Missense_Mutation	SNP	ENST00000295878.3	37	CCDS2977.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	0.810|0.810	-0.752298|-0.752298	0.03041|0.03041	.|.	.|.	ENSG00000163617|ENSG00000163617	ENST00000295878;ENST00000491000|ENST00000483766	T;T|.	0.44881|.	1.59;0.91|.	5.54|5.54	-1.63|-1.63	0.08345|0.08345	.|.	0.433787|.	0.23053|.	N|.	0.052470|.	T|T	0.19127|0.19127	0.0459|0.0459	N|N	0.19112|0.19112	0.55|0.55	0.18873|0.18873	N|N	0.999983|0.999983	B;B|.	0.09022|.	0.002;0.002|.	B;B|.	0.11329|.	0.006;0.006|.	T|T	0.26573|0.26573	-1.0099|-1.0099	10|6	0.02654|0.27082	T|T	1|0.32	.|.	3.19|3.19	0.06614|0.06614	0.302:0.4672:0.0924:0.1385|0.302:0.4672:0.0924:0.1385	.|.	9;9|.	C9JA89;Q8NCU4|.	.;K1407_HUMAN|.	A|G	9|33	ENSP00000295878:S9A;ENSP00000418099:S9A|.	ENSP00000295878:S9A|ENSP00000418991:V33G	S|V	-|-	1|2	0|0	KIAA1407|KIAA1407	115257979|115257979	0.033000|0.033000	0.19621|0.19621	0.003000|0.003000	0.11579|0.11579	0.017000|0.017000	0.09413|0.09413	0.144000|0.144000	0.16135|0.16135	-0.088000|-0.088000	0.12506|0.12506	0.533000|0.533000	0.62120|0.62120	TCC|GTC		0.602	KIAA1407-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354724.2	NM_020817		C	113775289	A	C	113775289	3	2	681	1	0	0	0	0	1	0	0	0	8236	275	10	5	2853	5	KIAA1407	3	113775289	Missense_Mutation	SNP	A	TCGA-KO-8410-01A-11D-2310-10	252822	113775289	84247141	15	44092										
LPHN3	23284	broad.mit.edu;mdanderson.org	37	chr4	62598528	62598528	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	agagtgaacatttgtttgagTccgaccaccaatctggggcg	12	9	1	3			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr4:62598528T>C	ENST00000514591.1	+	7	780	c.451T>C	c.(451-453)Tcc>Ccc	p.S151P	LPHN3_ENST00000511324.1_Missense_Mutation_p.S219P|LPHN3_ENST00000506720.1_Missense_Mutation_p.S219P|LPHN3_ENST00000504896.1_Missense_Mutation_p.S151P|LPHN3_ENST00000545650.1_Missense_Mutation_p.S151P|LPHN3_ENST00000512091.2_Missense_Mutation_p.S151P|LPHN3_ENST00000506746.1_Missense_Mutation_p.S219P|LPHN3_ENST00000514996.1_Missense_Mutation_p.S151P|LPHN3_ENST00000508946.1_Missense_Mutation_p.S151P|LPHN3_ENST00000509896.1_Missense_Mutation_p.S219P|LPHN3_ENST00000507164.1_Missense_Mutation_p.S219P|LPHN3_ENST00000507625.1_Missense_Mutation_p.S219P|LPHN3_ENST00000508693.1_Missense_Mutation_p.S219P|LPHN3_ENST00000506700.1_Missense_Mutation_p.S151P|LPHN3_ENST00000514157.1_Missense_Mutation_p.S151P			Q9HAR2	LPHN3_HUMAN	latrophilin 3	151	Olfactomedin-like. {ECO:0000255|PROSITE- ProRule:PRU00446}.				G-protein coupled receptor signaling pathway (GO:0007186)|neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)|G-protein coupled receptor activity (GO:0004930)			breast(5)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(5)|kidney(4)|large_intestine(21)|lung(73)|ovary(1)|pancreas(1)|prostate(6)|upper_aerodigestive_tract(1)	125						TTTGTTTGAGTCCGACCACCA	0.408																																																0													35	33	33					4																	62598528		1872	4103	5975	SO:0001583	missense	23284			AB018311	CCDS54768.1	4q13.1	2014-08-08				ENSG00000150471		"-", "GPCR / Class B : Orphans"	20974	protein-coding gene	gene with protein product						10994649	Standard	NM_015236		Approved	KIAA0768, LEC3	uc010ihh.3	Q9HAR2		ENST00000514591.1:c.451T>C	4.37:g.62598528T>C	ENSP00000422533:p.Ser151Pro	Somatic		WXS	Illumina HiSeq	Phase_I	E9PE04|O94867|Q9NWK5	Missense_Mutation	SNP	ENST00000514591.1	37	CCDS54768.1	.	.	.	.	.	.	.	.	.	.	T	15.96	2.985945	0.53934	.	.	ENSG00000150471	ENST00000512091;ENST00000514591;ENST00000509896;ENST00000511324;ENST00000506700;ENST00000534975;ENST00000545650;ENST00000295349;ENST00000280009;ENST00000507164;ENST00000508693;ENST00000507625;ENST00000514157;ENST00000504896;ENST00000508946;ENST00000506720;ENST00000506746;ENST00000514996	D;D;D;D;D;D;D;D;D;D;D;D;D;D;D	0.89270	-2.49;-2.49;-2.49;-2.49;-2.49;-2.49;-2.49;-2.49;-2.49;-2.49;-2.49;-2.49;-2.49;-2.49;-2.49	5.77	5.77	0.91146	.	0.059262	0.64402	D	0.000001	D	0.93442	0.7908	M	0.75615	2.305	0.45899	D	0.998742	D;D;P	0.76494	0.997;0.999;0.718	D;D;B	0.83275	0.995;0.996;0.264	D	0.93591	0.6921	10	0.59425	D	0.04	.	11.2897	0.49244	0.0:0.0:0.1523:0.8477	.	151;219;151	E9PE04;E7EN28;Q9HAR2-2	.;.;.	P	151;151;219;219;151;151;151;151;151;219;219;219;151;151;151;219;219;151	ENSP00000423388:S151P;ENSP00000422533:S151P;ENSP00000423787:S219P;ENSP00000425033:S219P;ENSP00000424120:S151P;ENSP00000439831:S151P;ENSP00000421476:S219P;ENSP00000424030:S219P;ENSP00000421372:S219P;ENSP00000425201:S151P;ENSP00000423434:S151P;ENSP00000421627:S151P;ENSP00000420931:S219P;ENSP00000425884:S219P;ENSP00000424258:S151P	ENSP00000280009:S151P	S	+	1	0	LPHN3	62281123	1.000000	0.71417	0.919000	0.36401	0.900000	0.52787	4.972000	0.63756	2.206000	0.71126	0.455000	0.32223	TCC		0.408	LPHN3-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000361765.1			C	62598528	T	C	62598528	3	2	681	1	0	0	0	0	1	0	0	0	8924	1667	58	3	469	3	LPHN3	4	62598528	Missense_Mutation	SNP	T	TCGA-KO-8410-01A-11D-2310-10		62598528	128555748	16	44093										
CXCL13	10563	broad.mit.edu	37	chr4	78528886	78528886	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	aggtctattacacaagcttgAggtgtagatgtgtccaagag	12	6	1	3			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr4:78528886A>G	ENST00000286758.4	+	3	172	c.94A>G	c.(94-96)Agg>Ggg	p.R32G		NM_006419.2	NP_006410.1	O43927	CXL13_HUMAN	chemokine (C-X-C motif) ligand 13	32					activation of Rap GTPase activity (GO:0032861)|B cell chemotaxis (GO:0035754)|B cell chemotaxis across high endothelial venule (GO:0035769)|cell surface receptor signaling pathway (GO:0007166)|cell-cell signaling (GO:0007267)|chronic inflammatory response (GO:0002544)|defense response to bacterium (GO:0042742)|endothelial cell chemotaxis to fibroblast growth factor (GO:0035768)|germinal center formation (GO:0002467)|immune response (GO:0006955)|lymph node development (GO:0048535)|lymphocyte chemotaxis across high endothelial venule (GO:0002518)|negative regulation of endothelial cell chemotaxis to fibroblast growth factor (GO:2000545)|positive regulation of cell-cell adhesion mediated by integrin (GO:0033634)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of integrin activation (GO:0033625)|positive regulation of T cell chemotaxis (GO:0010820)|regulation of angiogenesis (GO:0045765)|regulation of humoral immune response (GO:0002920)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	CCR10 chemokine receptor binding (GO:0031735)|chemokine activity (GO:0008009)|CXCR3 chemokine receptor binding (GO:0048248)|CXCR5 chemokine receptor binding (GO:0031724)|fibroblast growth factor binding (GO:0017134)|heparin binding (GO:0008201)|protein heterodimerization activity (GO:0046982)|receptor agonist activity (GO:0048018)			large_intestine(1)|ovary(1)|skin(1)|urinary_tract(1)	4						CACAAGCTTGAGGTGTAGATG	0.373																																																0													170	157	161					4																	78528886		2203	4300	6503	SO:0001583	missense	10563			AJ002211	CCDS3582.1	4q21	2013-02-25	2008-08-29	2002-08-23	ENSG00000156234	ENSG00000156234		"Endogenous ligands"	10639	protein-coding gene	gene with protein product	"B-cell chemoattractant"	605149	"small inducible cytokine B subfamily (Cys-X-Cys motif), member 13 (B-cell chemoattractant)"	SCYB13		9463416, 9486651	Standard	NM_006419		Approved	BLC, BCA-1, BLR1L, ANGIE, ANGIE2	uc003hkr.3	O43927	OTTHUMG00000130201	ENST00000286758.4:c.94A>G	4.37:g.78528886A>G	ENSP00000286758:p.Arg32Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000286758.4	37	CCDS3582.1	.	.	.	.	.	.	.	.	.	.	A	11.58	1.680365	0.29872	.	.	ENSG00000156234	ENST00000286758	T	0.15256	2.44	5.13	5.13	0.70059	Chemokine interleukin-8-like domain (2);	0.284845	0.31347	N	0.007820	T	0.19327	0.0464	L	0.55743	1.74	0.23834	N	0.996713	P	0.34997	0.479	B	0.36378	0.223	T	0.19679	-1.0298	10	0.87932	D	0	-18.6858	11.5101	0.50488	1.0:0.0:0.0:0.0	.	32	O43927	CXL13_HUMAN	G	32	ENSP00000286758:R32G	ENSP00000286758:R32G	R	+	1	2	CXCL13	78747910	0.975000	0.34042	0.344000	0.25628	0.006000	0.05464	3.864000	0.56024	2.281000	0.76405	0.528000	0.53228	AGG		0.373	CXCL13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252519.1			G	78528886	A	G	78528886	3	3	681	1	0	0	0	0	1	0	0	0	4083	295	11	3	100	3	CXCL13	4	78528886	Missense_Mutation	SNP	A	TCGA-KO-8410-01A-11D-2310-10	15930358	78528886	112625390	17	44094										
FRAS1	80144	broad.mit.edu;mdanderson.org	37	chr4	79403634	79403634	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ctcagctcagcacaaggagcCgaactgaccaaacccttcca	7	16	2	1	rs536123620		TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr4:79403634C>T	ENST00000264895.6	+	58	9137	c.8697C>T	c.(8695-8697)gcC>gcT	p.A2899A		NM_025074.6	NP_079350.5	Q86XX4	FRAS1_HUMAN	Fraser extracellular matrix complex subunit 1	2895					cell communication (GO:0007154)|embryonic limb morphogenesis (GO:0030326)|metanephros morphogenesis (GO:0003338)|morphogenesis of an epithelium (GO:0002009)|palate development (GO:0060021)|protein transport (GO:0015031)|skin development (GO:0043588)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|sublamina densa (GO:0061618)	metal ion binding (GO:0046872)			breast(2)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(5)|lung(54)|prostate(7)|skin(2)|urinary_tract(4)	103						CACAAGGAGCCGAACTGACCA	0.443													C|||	1	0.000199681	0.0008	0.0	5008	,	,		21295	0.0		0.0	False		,,,				2504	0.0															0													163	162	162					4																	79403634		1916	4128	6044	SO:0001819	synonymous_variant	80144			AB040933	CCDS54772.1	4q21.21	2014-06-25	2014-06-25		ENSG00000138759	ENSG00000138759			19185	protein-coding gene	gene with protein product		607830	"Fraser syndrome 1"			12766769, 3118036	Standard	NM_025074		Approved	FLJ22031, FLJ14927, KIAA1500	uc003hlb.2	Q86XX4	OTTHUMG00000160856	ENST00000264895.6:c.8697C>T	4.37:g.79403634C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2RRR8|Q86UZ4|Q8N3U9|Q8NAU7|Q96JW7|Q9H6N9|Q9P228	Silent	SNP	ENST00000264895.6	37	CCDS54771.1	.	.	.	.	.	.	.	.	.	.	C	10.51	1.369210	0.24771	.	.	ENSG00000138759	ENST00000512123	.	.	.	5.9	2.93	0.34026	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	6.0223	0.19636	0.4432:0.4265:0.0:0.1303	.	.	.	.	X	1128	.	.	R	+	1	2	FRAS1	79622658	0.094000	0.21725	1.000000	0.80357	0.997000	0.91878	-0.625000	0.05534	1.474000	0.48178	0.585000	0.79938	CGA		0.443	FRAS1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding				T	79403634	C	T	79403634	2	4	681	1	0	0	0	0	0	0	0	1	6049	639	23	1		1	FRAS1	4	79403634	Silent	SNP	C	TCGA-KO-8410-01A-11D-2310-10	874748	79403634	111750642	18	44095										
RAP1GDS1	5910	mdanderson.org	37	chr4	99341203	99341203	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	aaagatgttatcagctggggTcacagaggcagttttgaaat	12	5	2	3			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr4:99341203T>C	ENST00000408927.3	+	11	1321	c.1208T>C	c.(1207-1209)gTc>gCc	p.V403A	RAP1GDS1_ENST00000453712.2_Missense_Mutation_p.V404A|RAP1GDS1_ENST00000264572.7_Missense_Mutation_p.V312A|RAP1GDS1_ENST00000339360.5_Missense_Mutation_p.V404A|RAP1GDS1_ENST00000380158.4_Missense_Mutation_p.V355A|RAP1GDS1_ENST00000408900.3_Missense_Mutation_p.V354A	NM_001100426.1|NM_001100427.1|NM_021159.4	NP_001093896.1|NP_001093897.1|NP_066982.3	P52306	GDS1_HUMAN	RAP1, GTP-GDP dissociation stimulator 1	403					myosin filament assembly (GO:0031034)|negative regulation of endoplasmic reticulum calcium ion concentration (GO:0032471)|positive regulation of mitochondrial calcium ion concentration (GO:0051561)|positive regulation of Rho GTPase activity (GO:0032321)|vascular smooth muscle contraction (GO:0014829)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	GTPase activator activity (GO:0005096)			breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(14)|ovary(1)	28				OV - Ovarian serous cystadenocarcinoma(123;2.9e-07)|LUSC - Lung squamous cell carcinoma(1;0.0253)|Lung(1;0.0576)		TCAGCTGGGGTCACAGAGGCA	0.333			T	NUP98	T-ALL																																		Dom	yes		4	4q21-q25	5910	"RAP1, GTP-GDP dissociation stimulator 1"		L	0													96	97	96					4																	99341203		1812	4083	5895	SO:0001583	missense	5910				CCDS43253.1, CCDS43254.1, CCDS47105.1, CCDS47106.1, CCDS47107.1, CCDS47108.1	4q23-q25	2013-02-14			ENSG00000138698	ENSG00000138698		"Armadillo repeat containing"	9859	protein-coding gene	gene with protein product		179502				8262526, 17951244	Standard	NM_001100426		Approved	SmgGDS	uc003htw.4	P52306	OTTHUMG00000160987	ENST00000408927.3:c.1208T>C	4.37:g.99341203T>C	ENSP00000386153:p.Val403Ala	Somatic		WXS	Illumina HiSeq	Phase_I	E9PH06|G5E9P9|Q499L7|Q4KMV2|Q4QQI8|Q9BUW9|Q9BUX6|Q9NYM2|Q9NZA8	Missense_Mutation	SNP	ENST00000408927.3	37	CCDS43253.1	.	.	.	.	.	.	.	.	.	.	T	26.9	4.777893	0.90195	.	.	ENSG00000138698	ENST00000380158;ENST00000264572;ENST00000408927;ENST00000453712;ENST00000408900;ENST00000339360	T;T;T;T;T;T	0.50001	0.76;1.53;0.76;0.76;0.76;0.76	6.06	6.06	0.98353	Armadillo-like helical (1);Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.61751	0.2372	L	0.48362	1.52	0.80722	D	1	D;D;D;B;B;D	0.58970	0.982;0.982;0.969;0.073;0.369;0.984	P;D;D;B;B;P	0.70227	0.869;0.968;0.93;0.008;0.116;0.832	T	0.56450	-0.7977	10	0.29301	T	0.29	-9.3056	16.6154	0.84909	0.0:0.0:0.0:1.0	.	312;354;355;403;404;404	E9PH06;P52306-2;Q499L7;P52306;Q4QQI8;G5E9P9	.;.;.;GDS1_HUMAN;.;.	A	355;312;403;404;354;404	ENSP00000369503:V355A;ENSP00000264572:V312A;ENSP00000386153:V403A;ENSP00000407157:V404A;ENSP00000386223:V354A;ENSP00000340454:V404A	ENSP00000264572:V312A	V	+	2	0	RAP1GDS1	99560226	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	7.664000	0.83830	2.315000	0.78130	0.533000	0.62120	GTC		0.333	RAP1GDS1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000363273.2	NM_001100426		C	99341203	T	C	99341203	3	2	681	1	0	0	0	0	1	0	0	0	13052	1667	58	3	1253	3	RAP1GDS1	4	99341203	Missense_Mutation	SNP	T	TCGA-KO-8410-01A-11D-2310-10	19937569	99341203	91813073	19	44096										
GUCY1A3	2982	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr4	156638325	156638325	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gtctaggtggagaccattggCgatgcctattgtgtagctgg	15	7	1	1	rs112384014		TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr4:156638325C>T	ENST00000296518.7	+	8	1796	c.1587C>T	c.(1585-1587)ggC>ggT	p.G529G	GUCY1A3_ENST00000506455.1_Silent_p.G529G|GUCY1A3_ENST00000393832.3_Silent_p.G271G|GUCY1A3_ENST00000511108.1_Silent_p.G529G|GUCY1A3_ENST00000455639.2_Silent_p.G529G|GUCY1A3_ENST00000513574.1_Silent_p.G529G|GUCY1A3_ENST00000511507.1_Silent_p.G529G			Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3	529	Guanylate cyclase. {ECO:0000255|PROSITE- ProRule:PRU00099}.				blood circulation (GO:0008015)|blood coagulation (GO:0007596)|nitric oxide mediated signal transduction (GO:0007263)|positive regulation of cGMP biosynthetic process (GO:0030828)|regulation of blood pressure (GO:0008217)|relaxation of vascular smooth muscle (GO:0060087)|response to defense-related host nitric oxide production (GO:0052565)	guanylate cyclase complex, soluble (GO:0008074)	GTP binding (GO:0005525)|guanylate cyclase activity (GO:0004383)|heme binding (GO:0020037)|receptor activity (GO:0004872)	p.G529G(1)		central_nervous_system(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(25)|liver(2)|lung(19)|ovary(1)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	64	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		AGACCATTGGCGATGCCTATT	0.413																																																1	Substitution - coding silent(1)	large_intestine(1)											135	130	132					4																	156638325		2203	4300	6503	SO:0001819	synonymous_variant	2982				CCDS34085.1, CCDS54812.1	4q31.3-q33	2008-03-18				ENSG00000164116	4.6.1.2		4685	protein-coding gene	gene with protein product		139396		GUC1A3		1352257	Standard	NM_001130687		Approved	GC-SA3	uc003iow.3	Q02108		ENST00000296518.7:c.1587C>T	4.37:g.156638325C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DP19|D6RDW3|O43843|Q8TAH3	Silent	SNP	ENST00000296518.7	37	CCDS34085.1																																																																																				0.413	GUCY1A3-010	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365786.2			T	156638325	C	T	156638325	2	4	681	1	0	0	0	0	0	0	0	1	6901	755	27	1		1	GUCY1A3	4	156638325	Silent	SNP	C	TCGA-KO-8410-01A-11D-2310-10	57297122	156638325	34515951	20	44097										
FRG1	2483	mdanderson.org	37	chr4	190876272	190876272	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	tgggcgttcagatgcaattgGaccaagagaacaatgggaac	13	7	1	2	rs202104107		TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr4:190876272G>A	ENST00000226798.4	+	5	620	c.398G>A	c.(397-399)gGa>gAa	p.G133E	FRG1_ENST00000514482.1_3'UTR	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1	133					mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		GATGCAATTGGACCAAGAGAA	0.363																																																0													90	90	90					4																	190876272		2203	4300	6503	SO:0001583	missense	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.398G>A	4.37:g.190876272G>A	ENSP00000226798:p.Gly133Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Missense_Mutation	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	.	23.5	4.419225	0.83559	.	.	ENSG00000109536	ENST00000226798;ENST00000531991	T;T	0.63417	1.82;-0.04	4.04	4.04	0.47022	Actin cross-linking (1);	0.047717	0.85682	D	0.000000	T	0.75810	0.3900	M	0.87900	2.915	0.80722	D	1	P	0.50156	0.932	P	0.53401	0.725	T	0.81885	-0.0727	10	0.72032	D	0.01	5.2981	14.145	0.65344	0.0:0.0:1.0:0.0	.	133	Q14331	FRG1_HUMAN	E	133;70	ENSP00000226798:G133E;ENSP00000435943:G70E	ENSP00000226798:G133E	G	+	2	0	FRG1	191113266	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	7.413000	0.80104	1.964000	0.57103	0.567000	0.79289	GGA		0.363	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477		A	190876272	G	A	190876272	3	1	681	1	0	0	0	0	1	0	0	0	6053	1174	41	2	416	2	FRG1	4	190876272	Missense_Mutation	SNP	G	TCGA-KO-8410-01A-11D-2310-10	34237947	190876272	278004	21	44098			2	126		2	2	36	G		7.687852e-05
FRG1	2483	mdanderson.org	37	chr4	190876307	190876307	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gggaaccagtctttcaaaatGtaagtgctgttattgtttat	9	5	2	0	rs200854715		TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr4:190876307G>A	ENST00000226798.4	+	5	654		c.e5+1		FRG1_ENST00000514482.1_Splice_Site	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1						mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		CTTTCAAAATGTAAGTGCTGT	0.328																																																0													74	74	74					4																	190876307		2202	4295	6497	SO:0001630	splice_region_variant	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.432+1G>A	4.37:g.190876307G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Splice_Site	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	N	18.80	3.700931	0.68501	.	.	ENSG00000109536	ENST00000226798;ENST00000531991	.	.	.	3.88	3.88	0.44766	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.7779	0.63066	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	FRG1	191113301	1.000000	0.71417	1.000000	0.80357	0.869000	0.49853	7.413000	0.80104	1.879000	0.54435	0.567000	0.79289	.		0.328	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477	Intron	A	190876307	G	A	190876307	5	1	681	1	0	0	0	0	0	0	1	0	6053	1391	48	2	451	2	FRG1	4	190876307	Splice_Site	SNP	G	TCGA-KO-8410-01A-11D-2310-10	35	190876307	277969	22	44099			2	126		2	2	36	G		7.687852e-05
LMBRD2	92255	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	36136550	36136550	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gaatttccaccaagccatacCccaacaacaacacaagaaga	4	14	0	2			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr5:36136550C>T	ENST00000296603.4	-	6	1070	c.608G>A	c.(607-609)gGg>gAg	p.G203E		NM_001007527.1	NP_001007528.1	Q68DH5	LMBD2_HUMAN	LMBR1 domain containing 2	203						integral component of membrane (GO:0016021)|membrane (GO:0016020)				breast(2)|endometrium(4)|kidney(3)|large_intestine(7)|lung(12)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	35	all_lung(31;0.000146)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CAAGCCATACCCCAACAACAA	0.413																																																0													155	153	154					5																	36136550		2203	4300	6503	SO:0001583	missense	92255				CCDS34145.1	5p13.2	2008-02-05			ENSG00000164187	ENSG00000164187			25287	protein-coding gene	gene with protein product							Standard	NM_001007527		Approved	DKFZp434H2226	uc003jkb.1	Q68DH5	OTTHUMG00000162150	ENST00000296603.4:c.608G>A	5.37:g.36136550C>T	ENSP00000296603:p.Gly203Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRB6|Q9NTC7	Missense_Mutation	SNP	ENST00000296603.4	37	CCDS34145.1	.	.	.	.	.	.	.	.	.	.	C	35	5.418317	0.96092	.	.	ENSG00000164187	ENST00000296603;ENST00000546130	T	0.46451	0.87	6.17	6.17	0.99709	LMBR1-like membrane protein (1);	0.000000	0.85682	D	0.000000	T	0.71533	0.3351	M	0.85777	2.775	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.73344	-0.4012	10	0.87932	D	0	-15.2823	20.8794	0.99867	0.0:1.0:0.0:0.0	.	203	Q68DH5	LMBD2_HUMAN	E	203;97	ENSP00000296603:G203E	ENSP00000296603:G203E	G	-	2	0	LMBRD2	36172307	1.000000	0.71417	0.991000	0.47740	0.950000	0.60333	7.401000	0.79962	2.941000	0.99782	0.655000	0.94253	GGG		0.413	LMBRD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367552.1	NM_001007527		T	36136550	C	T	36136550	3	4	681	1	0	0	0	0	1	0	0	0	8850	623	22	2	1531	2	LMBRD2	5	36136550	Missense_Mutation	SNP	C	TCGA-KO-8410-01A-11D-2310-10		36136550	144778710	23	44100										
ITGA2	3673	broad.mit.edu;hgsc.bcm.edu	37	chr5	52376390	52376393	+	Frame_Shift_Del	DEL	TCCC	TCCC	-													0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ggcaactgtaatcatccacaTccctcagtataccaaagaaa							TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	TCCC	TCCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr5:52376390_52376393delTCCC	ENST00000296585.5	+	25	3121_3124	c.2978_2981delTCCC	c.(2977-2982)atccctfs	p.IP993fs		NM_002203.3	NP_002194.2	P17301	ITA2_HUMAN	integrin, alpha 2 (CD49B, alpha 2 subunit of VLA-2 receptor)	993					axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell adhesion mediated by integrin (GO:0033627)|cell proliferation (GO:0008283)|cell-matrix adhesion (GO:0007160)|cell-substrate adhesion (GO:0031589)|cellular response to hormone stimulus (GO:0032870)|collagen-activated signaling pathway (GO:0038065)|detection of mechanical stimulus involved in sensory perception of pain (GO:0050966)|establishment of protein localization (GO:0045184)|extracellular matrix organization (GO:0030198)|hepatocyte differentiation (GO:0070365)|hypotonic response (GO:0006971)|integrin-mediated signaling pathway (GO:0007229)|mammary gland development (GO:0030879)|mesodermal cell differentiation (GO:0048333)|organ morphogenesis (GO:0009887)|positive regulation of alkaline phosphatase activity (GO:0010694)|positive regulation of cell adhesion (GO:0045785)|positive regulation of cell projection organization (GO:0031346)|positive regulation of collagen binding (GO:0033343)|positive regulation of collagen biosynthetic process (GO:0032967)|positive regulation of DNA binding (GO:0043388)|positive regulation of epithelial cell migration (GO:0010634)|positive regulation of inflammatory response (GO:0050729)|positive regulation of leukocyte migration (GO:0002687)|positive regulation of phagocytosis, engulfment (GO:0060100)|positive regulation of positive chemotaxis (GO:0050927)|positive regulation of smooth muscle cell migration (GO:0014911)|positive regulation of smooth muscle cell proliferation (GO:0048661)|positive regulation of smooth muscle contraction (GO:0045987)|positive regulation of translation (GO:0045727)|positive regulation of transmission of nerve impulse (GO:0051971)|response to amine (GO:0014075)|response to drug (GO:0042493)|response to hypoxia (GO:0001666)|response to L-ascorbic acid (GO:0033591)|response to muscle activity (GO:0014850)|response to organic cyclic compound (GO:0014070)|skin morphogenesis (GO:0043589)|substrate-dependent cell migration (GO:0006929)|tissue homeostasis (GO:0001894)|viral process (GO:0016032)	axon terminus (GO:0043679)|basal part of cell (GO:0045178)|cell outer membrane (GO:0009279)|cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|focal adhesion (GO:0005925)|integrin alpha2-beta1 complex (GO:0034666)|integrin complex (GO:0008305)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	collagen binding (GO:0005518)|collagen binding involved in cell-matrix adhesion (GO:0098639)|collagen receptor activity (GO:0038064)|metal ion binding (GO:0046872)|virus receptor activity (GO:0001618)			breast(3)|central_nervous_system(2)|endometrium(5)|kidney(3)|large_intestine(8)|liver(1)|lung(18)|pancreas(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	47		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				ATCATCCACATCCCTCAGTATACC	0.387																																																0																																										SO:0001589	frameshift_variant	3673				CCDS3957.1	5q11.2	2010-03-23			ENSG00000164171	ENSG00000164171		"CD molecules", "Integrins"	6137	protein-coding gene	gene with protein product		192974		CD49B			Standard	NM_002203		Approved	CD49b	uc003joy.3	P17301	OTTHUMG00000131165	ENST00000296585.5:c.2978_2981delTCCC	5.37:g.52376390_52376393delTCCC	ENSP00000296585:p.Ile993fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q14595	Frame_Shift_Del	DEL	ENST00000296585.5	37	CCDS3957.1																																																																																				0.387	ITGA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253857.2	NM_002203		-	52376393	TCCC	-	52376390	7	5	681	1	0	1	0	1	0	0	0	0	7882	1435	50	0	3076	0	ITGA2	5	52376390	Frame_Shift_Del	DEL	TCCC	TCGA-KO-8410-01A-11D-2310-10	16239840	52376390	128538870	24	44101	457	2								
ITGA2	3673	bcgsc.ca	37	chr5	52376391	52376394	+	Frame_Shift_Del	DEL	TCCC	TCCC	-													0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gcaactgtaatcatccacatCcctcagtataccaaagaaaa							TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	TCCC	TCCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr5:52376391_52376394delTCCC	ENST00000296585.5	+	25	3122_3125	c.2979_2982delTCCC	c.(2977-2982)attcccfs	p.IP993fs		NM_002203.3	NP_002194.2	P17301	ITA2_HUMAN	integrin, alpha 2 (CD49B, alpha 2 subunit of VLA-2 receptor)	993					axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell adhesion mediated by integrin (GO:0033627)|cell proliferation (GO:0008283)|cell-matrix adhesion (GO:0007160)|cell-substrate adhesion (GO:0031589)|cellular response to hormone stimulus (GO:0032870)|collagen-activated signaling pathway (GO:0038065)|detection of mechanical stimulus involved in sensory perception of pain (GO:0050966)|establishment of protein localization (GO:0045184)|extracellular matrix organization (GO:0030198)|hepatocyte differentiation (GO:0070365)|hypotonic response (GO:0006971)|integrin-mediated signaling pathway (GO:0007229)|mammary gland development (GO:0030879)|mesodermal cell differentiation (GO:0048333)|organ morphogenesis (GO:0009887)|positive regulation of alkaline phosphatase activity (GO:0010694)|positive regulation of cell adhesion (GO:0045785)|positive regulation of cell projection organization (GO:0031346)|positive regulation of collagen binding (GO:0033343)|positive regulation of collagen biosynthetic process (GO:0032967)|positive regulation of DNA binding (GO:0043388)|positive regulation of epithelial cell migration (GO:0010634)|positive regulation of inflammatory response (GO:0050729)|positive regulation of leukocyte migration (GO:0002687)|positive regulation of phagocytosis, engulfment (GO:0060100)|positive regulation of positive chemotaxis (GO:0050927)|positive regulation of smooth muscle cell migration (GO:0014911)|positive regulation of smooth muscle cell proliferation (GO:0048661)|positive regulation of smooth muscle contraction (GO:0045987)|positive regulation of translation (GO:0045727)|positive regulation of transmission of nerve impulse (GO:0051971)|response to amine (GO:0014075)|response to drug (GO:0042493)|response to hypoxia (GO:0001666)|response to L-ascorbic acid (GO:0033591)|response to muscle activity (GO:0014850)|response to organic cyclic compound (GO:0014070)|skin morphogenesis (GO:0043589)|substrate-dependent cell migration (GO:0006929)|tissue homeostasis (GO:0001894)|viral process (GO:0016032)	axon terminus (GO:0043679)|basal part of cell (GO:0045178)|cell outer membrane (GO:0009279)|cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|focal adhesion (GO:0005925)|integrin alpha2-beta1 complex (GO:0034666)|integrin complex (GO:0008305)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	collagen binding (GO:0005518)|collagen binding involved in cell-matrix adhesion (GO:0098639)|collagen receptor activity (GO:0038064)|metal ion binding (GO:0046872)|virus receptor activity (GO:0001618)			breast(3)|central_nervous_system(2)|endometrium(5)|kidney(3)|large_intestine(8)|liver(1)|lung(18)|pancreas(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	47		Lung NSC(810;3.11e-05)|Breast(144;0.014)|Prostate(461;0.0181)				TCATCCACATCCCTCAGTATACCA	0.392																																																0																																										SO:0001589	frameshift_variant	3673				CCDS3957.1	5q11.2	2010-03-23			ENSG00000164171	ENSG00000164171		"CD molecules", "Integrins"	6137	protein-coding gene	gene with protein product		192974		CD49B			Standard	NM_002203		Approved	CD49b	uc003joy.3	P17301	OTTHUMG00000131165	ENST00000296585.5:c.2979_2982delTCCC	5.37:g.52376391_52376394delTCCC	ENSP00000296585:p.Ile993fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q14595	Frame_Shift_Del	DEL	ENST00000296585.5	37	CCDS3957.1																																																																																				0.392	ITGA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253857.2	NM_002203		-	52376394	TCCC	-	52376391	7	5	681	1	0	1	0	1	0	0	0	0	7882	845	30	0	3077	0	ITGA2	5	52376391	Frame_Shift_Del	DEL	TCCC	TCGA-KO-8410-01A-11D-2310-10	1	52376391	128538869	25	44102	457	2								
ADAMTS19	171019	ucsc.edu	37	chr5	128990039	128990039	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	tgctctcctgttggaaaagaAcagcctattcttctatcaga	7	10	4	2			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr5:128990039A>G	ENST00000274487.4	+	14	2344	c.2199A>G	c.(2197-2199)gaA>gaG	p.E733E	CTC-575N7.1_ENST00000503616.1_RNA	NM_133638.3	NP_598377.3	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 19	733	Cys-rich.					proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			NS(1)|breast(4)|endometrium(10)|kidney(9)|large_intestine(14)|lung(34)|ovary(6)|pancreas(1)|prostate(6)|skin(6)	91		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)		TTGGAAAAGAACAGCCTATTC	0.368																																																0													94	98	97					5																	128990039		2203	4300	6503	SO:0001819	synonymous_variant	171019			AJ311904	CCDS4146.1	5q23.3	2009-04-27	2005-08-19		ENSG00000145808	ENSG00000145808		"ADAM metallopeptidases with thrombospondin type 1 motif"	17111	protein-coding gene	gene with protein product		607513	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 19"			11867212	Standard	NM_133638		Approved		uc003kvb.1	Q8TE59	OTTHUMG00000128990	ENST00000274487.4:c.2199A>G	5.37:g.128990039A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000274487.4	37	CCDS4146.1																																																																																				0.368	ADAMTS19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250979.2	NM_133638		G	128990039	A	G	128990039	2	3	681	1	0	0	0	0	0	0	0	1	264	40	2	3		3	ADAMTS19	5	128990039	Silent	SNP	A	TCGA-KO-8410-01A-11D-2310-10	76613648	128990039	51925221	26	44103										
NUPL2	11097	ucsc.edu	37	chr7	23221811	23221811	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	aggaggacggcagcaaccgcAgcagcagccttcaggtgact	14	12	1	1	rs145987368	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr7:23221811A>G	ENST00000258742.5	+	1	366	c.107A>G	c.(106-108)cAg>cGg	p.Q36R	NUPL2_ENST00000410002.3_Missense_Mutation_p.Q36R|NUPL2_ENST00000487595.1_3'UTR|AC005082.1_ENST00000366347.4_Intron	NM_007342.2	NP_031368.1	O15504	NUPL2_HUMAN	nucleoporin like 2	36					carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|protein export from nucleus (GO:0006611)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytosol (GO:0005829)|nuclear pore (GO:0005643)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|nuclear export signal receptor activity (GO:0005049)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(1)|kidney(3)|large_intestine(3)|lung(4)|ovary(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	19						CAGCAACCGCAGCAGCAGCCT	0.642																																																0													51	41	45					7																	23221811		2203	4300	6503	SO:0001583	missense	11097			U97198	CCDS5379.1	7p15	2003-08-07			ENSG00000136243	ENSG00000136243			17010	protein-coding gene	gene with protein product	"nucleoporin-like protein 1"					10358091, 9450185	Standard	NM_007342		Approved	NLP_1, CG1, hCG1, H_RG271G13.9	uc003svu.3	O15504	OTTHUMG00000096955	ENST00000258742.5:c.107A>G	7.37:g.23221811A>G	ENSP00000258742:p.Gln36Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A4D143|B4DP42|Q49AE7|Q9BS49	Missense_Mutation	SNP	ENST00000258742.5	37	CCDS5379.1	.	.	.	.	.	.	.	.	.	.	A	10.72	1.429312	0.25726	.	.	ENSG00000136243	ENST00000258742;ENST00000410002;ENST00000413919	T;T;T	0.43688	0.94;0.94;0.94	3.37	-0.0117	0.13991	.	0.351400	0.30093	N	0.010424	T	0.29355	0.0731	L	0.56769	1.78	0.09310	N	1	B	0.32160	0.358	B	0.32805	0.153	T	0.12192	-1.0557	10	0.30854	T	0.27	0.0757	1.0493	0.01576	0.3687:0.3359:0.1191:0.1763	.	36	O15504	NUPL2_HUMAN	R	36	ENSP00000258742:Q36R;ENSP00000387330:Q36R;ENSP00000401475:Q36R	ENSP00000258742:Q36R	Q	+	2	0	NUPL2	23188336	0.739000	0.28196	0.001000	0.08648	0.061000	0.15899	0.682000	0.25335	-0.130000	0.11599	0.533000	0.62120	CAG		0.642	NUPL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214017.2	NM_007342		G	23221811	A	G	23221811	3	3	681	1	0	0	0	0	1	0	0	0	10782	188	7	3	109	3	NUPL2	7	23221811	Missense_Mutation	SNP	A	TCGA-KO-8410-01A-11D-2310-10		23221811	135916852	27	44104										
AMAC1L2	83650	mdanderson.org	37	chr8	11188806	11188806	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ttctcgtatggcttaccaggGttccaacctgccctcgctgg	10	14	1	0			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr8:11188806G>C	ENST00000382435.4	+	1	410	c.191G>C	c.(190-192)gGt>gCt	p.G64A		NM_001282300.1|NM_054028.1	NP_001269229.1|NP_473369.1	Q96KT7	S35G5_HUMAN	solute carrier family 35, member G5	64	EamA 1.					integral component of membrane (GO:0016021)		p.G64A(1)									GCTTACCAGGGTTCCAACCTG	0.637																																																1	Substitution - Missense(1)	skin(1)											151	146	148					8																	11188806		2203	4300	6503	SO:0001583	missense	83650			AJ291677	CCDS5980.1	8p23.1	2013-05-22	2011-08-03	2011-08-03	ENSG00000177710	ENSG00000177710		"Solute carriers"	15546	protein-coding gene	gene with protein product		615199	"acyl-malonyl condensing enzyme 1-like 2"	AMAC, AMAC1L2			Standard	NM_054028		Approved		uc003wtp.1	Q96KT7	OTTHUMG00000090653	ENST00000382435.4:c.191G>C	8.37:g.11188806G>C	ENSP00000371872:p.Gly64Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRL6	Missense_Mutation	SNP	ENST00000382435.4	37	CCDS5980.1	.	.	.	.	.	.	.	.	.	.	C	0.006	-2.054055	0.00390	.	.	ENSG00000177710	ENST00000382435	T	0.50277	0.75	0.34	0.34	0.15985	.	0.536315	0.15627	N	0.252577	T	0.16471	0.0396	N	0.02539	-0.55	0.09310	N	0.999999	B	0.02656	0.0	B	0.01281	0.0	T	0.25847	-1.0120	10	0.07644	T	0.81	-3.0E-4	6.0882	0.19978	0.0:0.3644:0.6356:0.0	.	64	Q96KT7	S35G5_HUMAN	A	64	ENSP00000371872:G64A	ENSP00000371872:G64A	G	+	2	0	SLC35G5	11226216	0.005000	0.15991	0.845000	0.33349	0.156000	0.22039	0.073000	0.14640	-1.304000	0.02329	-1.954000	0.00483	GGT		0.637	SLC35G5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207313.2	NM_054028		C	11188806	G	C	11188806	3	2	681	1	0	0	0	0	1	0	0	0	560	1261	44	4	193	4	AMAC1L2	8	11188806	Missense_Mutation	SNP	G	TCGA-KO-8410-01A-11D-2310-10		11188806	135175216	28	44105			3	127		3	3	680	N	G_C	1.109546e-06
AMAC1L2	83650	mdanderson.org	37	chr8	11189464	11189464	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gcccaccctgccctggtgtgCgctgtcctgcattccgaggt	12	16	0	0	rs58771247	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr8:11189464C>T	ENST00000382435.4	+	1	1068	c.849C>T	c.(847-849)tgC>tgT	p.C283C		NM_001282300.1|NM_054028.1	NP_001269229.1|NP_473369.1	Q96KT7	S35G5_HUMAN	solute carrier family 35, member G5	283	EamA 2.					integral component of membrane (GO:0016021)											CCCTGGTGTGCGCTGTCCTGC	0.577													C|||	221	0.0441294	0.1626	0.0072	5008	,	,		18296	0.0		0.0	False		,,,				2504	0.001															0								C		547,3859	227.5+/-242.7	29,489,1685	128	122	124		849		0.2	8	dbSNP_129	124	4,8594	3.7+/-12.6	0,4,4295	no	coding-synonymous	SLC35G5	NM_054028.1		29,493,5980	TT,TC,CC		0.0465,12.4149,4.2372		283/339	11189464	551,12453	2203	4299	6502	SO:0001819	synonymous_variant	83650			AJ291677	CCDS5980.1	8p23.1	2013-05-22	2011-08-03	2011-08-03	ENSG00000177710	ENSG00000177710		"Solute carriers"	15546	protein-coding gene	gene with protein product		615199	"acyl-malonyl condensing enzyme 1-like 2"	AMAC, AMAC1L2			Standard	NM_054028		Approved		uc003wtp.1	Q96KT7	OTTHUMG00000090653	ENST00000382435.4:c.849C>T	8.37:g.11189464C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2RRL6	Silent	SNP	ENST00000382435.4	37	CCDS5980.1																																																																																				0.577	SLC35G5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207313.2	NM_054028		T	11189464	C	T	11189464	2	4	681	1	0	0	0	0	0	0	0	1	560	776	27	1		1	AMAC1L2	8	11189464	Silent	SNP	C	TCGA-KO-8410-01A-11D-2310-10	658	11189464	135174558	29	44106			3	127		3	3	680	N	G_C	1.109546e-06
AMAC1L2	83650	mdanderson.org	37	chr8	11189485	11189485	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gctgtcctgcattccgaggtGgttgtggcccttatactgca	12	11	0	0			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr8:11189485G>T	ENST00000382435.4	+	1	1089	c.870G>T	c.(868-870)gtG>gtT	p.V290V		NM_001282300.1|NM_054028.1	NP_001269229.1|NP_473369.1	Q96KT7	S35G5_HUMAN	solute carrier family 35, member G5	290	EamA 2.					integral component of membrane (GO:0016021)											ATTCCGAGGTGGTTGTGGCCC	0.572																																																0													131	119	123					8																	11189485		2203	4299	6502	SO:0001819	synonymous_variant	83650			AJ291677	CCDS5980.1	8p23.1	2013-05-22	2011-08-03	2011-08-03	ENSG00000177710	ENSG00000177710		"Solute carriers"	15546	protein-coding gene	gene with protein product		615199	"acyl-malonyl condensing enzyme 1-like 2"	AMAC, AMAC1L2			Standard	NM_054028		Approved		uc003wtp.1	Q96KT7	OTTHUMG00000090653	ENST00000382435.4:c.870G>T	8.37:g.11189485G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2RRL6	Silent	SNP	ENST00000382435.4	37	CCDS5980.1																																																																																				0.572	SLC35G5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207313.2	NM_054028		T	11189485	G	T	11189485	2	4	681	1	0	0	0	0	0	0	0	1	560	1335	47	4		4	AMAC1L2	8	11189485	Silent	SNP	G	TCGA-KO-8410-01A-11D-2310-10	21	11189485	135174537	30	44107			3	127		3	3	680	N	G_C	1.109546e-06
ADAM9	8754	bcgsc.ca	37	chr8	38912013	38912013	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ttcacaggaatgtgaattggAcccttgctgcgaaggaagta	12	7	1	1			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr8:38912013A>G	ENST00000487273.2	+	13	1394	c.1316A>G	c.(1315-1317)gAc>gGc	p.D439G		NM_003816.2	NP_003807.1	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9	439	Disintegrin. {ECO:0000255|PROSITE- ProRule:PRU00068}.				activation of MAPKK activity (GO:0000186)|cell adhesion (GO:0007155)|cell adhesion mediated by integrin (GO:0033627)|cell-cell adhesion mediated by integrin (GO:0033631)|cell-matrix adhesion (GO:0007160)|cellular response to lipopolysaccharide (GO:0071222)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|integrin-mediated signaling pathway (GO:0007229)|keratinocyte differentiation (GO:0030216)|membrane protein ectodomain proteolysis (GO:0006509)|monocyte activation (GO:0042117)|PMA-inducible membrane protein ectodomain proteolysis (GO:0051088)|positive regulation of cell adhesion mediated by integrin (GO:0033630)|positive regulation of keratinocyte migration (GO:0051549)|positive regulation of macrophage fusion (GO:0034241)|positive regulation of membrane protein ectodomain proteolysis (GO:0051044)|positive regulation of protein secretion (GO:0050714)|response to calcium ion (GO:0051592)|response to glucocorticoid (GO:0051384)|response to hydrogen peroxide (GO:0042542)|response to laminar fluid shear stress (GO:0034616)|response to manganese ion (GO:0010042)|response to tumor necrosis factor (GO:0034612)|transforming growth factor beta receptor signaling pathway (GO:0007179)	basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|intrinsic component of external side of plasma membrane (GO:0031233)	collagen binding (GO:0005518)|integrin binding (GO:0005178)|laminin binding (GO:0043236)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|protein kinase C binding (GO:0005080)|SH3 domain binding (GO:0017124)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(5)|lung(14)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	31		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			TGTGAATTGGACCCTTGCTGC	0.358																																																0													130	112	118					8																	38912013		2203	4300	6503	SO:0001583	missense	8754			U41766	CCDS6112.1	8p11.23	2011-03-18	2010-06-24		ENSG00000168615	ENSG00000168615		"ADAM metallopeptidase domain containing"	216	protein-coding gene	gene with protein product	"meltrin gamma"	602713	"a disintegrin and metalloproteinase domain 9 (meltrin gamma)", "cone rod dystrophy 9"	CORD9		8647900, 11581183, 19409519	Standard	NR_027638		Approved	MDC9, KIAA0021, MCMP, Mltng	uc003xmr.3	Q13443	OTTHUMG00000159783	ENST00000487273.2:c.1316A>G	8.37:g.38912013A>G	ENSP00000419446:p.Asp439Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLN7|Q10718|Q8NFM6	Missense_Mutation	SNP	ENST00000487273.2	37	CCDS6112.1	.	.	.	.	.	.	.	.	.	.	A	28.6	4.937918	0.92526	.	.	ENSG00000168615	ENST00000487273	T	0.13196	2.61	5.77	5.77	0.91146	Blood coagulation inhibitor, Disintegrin (5);	0.143965	0.64402	D	0.000007	T	0.38931	0.1059	M	0.79926	2.475	0.80722	D	1	D	0.56746	0.977	D	0.62955	0.909	T	0.28396	-1.0045	10	0.72032	D	0.01	.	16.0937	0.81106	1.0:0.0:0.0:0.0	.	439	Q13443	ADAM9_HUMAN	G	439	ENSP00000419446:D439G	ENSP00000369249:D439G	D	+	2	0	ADAM9	39031170	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	8.766000	0.91728	2.211000	0.71520	0.455000	0.32223	GAC		0.358	ADAM9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357291.2			G	38912013	A	G	38912013	3	3	681	1	0	0	0	0	1	0	0	0	253	275	10	3	1366	3	ADAM9	8	38912013	Missense_Mutation	SNP	A	TCGA-KO-8410-01A-11D-2310-10	27722528	38912013	107452009	31	44108										
ADHFE1	137872	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	67357454	67357454	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ttattttctcttctccaagcTtcatggaagctattgagttt	6	8	3	1			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr8:67357454T>G	ENST00000396623.3	+	6	386	c.355T>G	c.(355-357)Ttc>Gtc	p.F119V	ADHFE1_ENST00000415254.1_Splice_Site_p.F71V|ADHFE1_ENST00000379385.4_Splice_Site_p.F119V|ADHFE1_ENST00000496501.1_3'UTR	NM_144650.2	NP_653251.2	Q8IWW8	HOT_HUMAN	alcohol dehydrogenase, iron containing, 1	119					2-oxoglutarate metabolic process (GO:0006103)|cellular metabolic process (GO:0044237)|molecular hydrogen transport (GO:0015993)|small molecule metabolic process (GO:0044281)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	hydroxyacid-oxoacid transhydrogenase activity (GO:0047988)|metal ion binding (GO:0046872)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(8)|lung(10)|ovary(1)|pancreas(1)|skin(2)|urinary_tract(2)	29		Lung NSC(129;0.197)	Epithelial(68;0.0321)|all cancers(69;0.0751)|BRCA - Breast invasive adenocarcinoma(89;0.0855)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			TTCTCCAAGCTTCATGGAAGC	0.403																																																0													84	77	79					8																	67357454		2203	4300	6503	SO:0001630	splice_region_variant	137872			AK056992	CCDS6190.2	8q12.3	2013-05-21			ENSG00000147576	ENSG00000147576	1.1.99.24	"Alcohol dehydrogenases"	16354	protein-coding gene	gene with protein product	"hydroxyacid-oxoacid transhydrogenase"	611083				12592711	Standard	NM_144650		Approved	ADHFe1, FLJ32430	uc003xwb.4	Q8IWW8	OTTHUMG00000150215	ENST00000396623.3:c.354-1T>G	8.37:g.67357454T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DTJ8|Q49A19|Q68CI7|Q6P2B6|Q96MF9	Missense_Mutation	SNP	ENST00000396623.3	37	CCDS6190.2	.	.	.	.	.	.	.	.	.	.	T	15.76	2.929052	0.52759	.	.	ENSG00000147576	ENST00000523113;ENST00000379385;ENST00000396623;ENST00000415254	T;T;T;T	0.29917	1.55;1.55;1.55;1.55	5.64	5.64	0.86602	Alcohol dehydrogenase, iron-type (1);	0.000000	0.85682	D	0.000000	T	0.38081	0.1027	N	0.20304	0.555	0.80722	D	1	P	0.51933	0.949	D	0.62955	0.909	T	0.13361	-1.0512	10	0.27785	T	0.31	-13.8237	15.8683	0.79084	0.0:0.0:0.0:1.0	.	119	Q8IWW8	HOT_HUMAN	V	54;119;119;71	ENSP00000428055:F54V;ENSP00000368695:F119V;ENSP00000379865:F119V;ENSP00000407115:F71V	ENSP00000368695:F119V	F	+	1	0	ADHFE1	67520008	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.707000	0.84623	2.148000	0.66965	0.533000	0.62120	TTC		0.403	ADHFE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316867.3	NM_144650	Missense_Mutation	G	67357454	T	G	67357454	5	3	681	1	0	0	0	0	0	0	1	0	314	1623	56	5	377	5	ADHFE1	8	67357454	Splice_Site	SNP	T	TCGA-KO-8410-01A-11D-2310-10	28445441	67357454	79006568	32	44109										
FAM135B	51059	broad.mit.edu	37	chr8	139165349	139165349	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	agacaagacaaggtcttcccTaaaagataaattgctattta	6	7	1	3			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr8:139165349T>C	ENST00000395297.1	-	13	1539	c.1369A>G	c.(1369-1371)Agg>Ggg	p.R457G		NM_015912.3	NP_056996.2	Q49AJ0	F135B_HUMAN	family with sequence similarity 135, member B	457										NS(3)|breast(9)|endometrium(21)|kidney(5)|large_intestine(28)|liver(1)|lung(135)|ovary(9)|pancreas(1)|prostate(7)|skin(9)|stomach(1)|upper_aerodigestive_tract(8)|urinary_tract(1)	238	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)			AGGTCTTCCCTAAAAGATAAA	0.373										HNSCC(54;0.14)																																						0													76	73	74					8																	139165349		1884	4109	5993	SO:0001583	missense	51059			AB196635	CCDS6375.2	8q24.23	2008-11-05			ENSG00000147724	ENSG00000147724			28029	protein-coding gene	gene with protein product						8619474, 9110174	Standard	NM_015912		Approved	C8ORFK32	uc003yuy.3	Q49AJ0	OTTHUMG00000149864	ENST00000395297.1:c.1369A>G	8.37:g.139165349T>C	ENSP00000378710:p.Arg457Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDB3|O95879|Q2WGJ7|Q3KP46	Missense_Mutation	SNP	ENST00000395297.1	37	CCDS6375.2	.	.	.	.	.	.	.	.	.	.	T	6.245	0.413338	0.11812	.	.	ENSG00000147724	ENST00000395297	T	0.16073	2.37	5.6	4.42	0.53409	.	1.343740	0.04323	N	0.350980	T	0.29093	0.0723	L	0.57536	1.79	0.09310	N	1	D;P;B	0.53462	0.96;0.775;0.22	P;B;B	0.47891	0.56;0.382;0.086	T	0.20571	-1.0271	10	0.51188	T	0.08	-0.0111	10.8283	0.46647	0.0:0.0:0.1583:0.8417	.	457;457;457	Q49AJ0-3;Q49AJ0-4;Q49AJ0	.;.;F135B_HUMAN	G	457	ENSP00000378710:R457G	ENSP00000276737:R457G	R	-	1	2	FAM135B	139234531	0.000000	0.05858	0.001000	0.08648	0.040000	0.13550	0.302000	0.19192	0.935000	0.37341	0.533000	0.62120	AGG		0.373	FAM135B-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313590.3	NM_015912		C	139165349	T	C	139165349	3	2	681	1	0	0	0	0	1	0	0	0	5453	1521	53	3	2883	3	FAM135B	8	139165349	Missense_Mutation	SNP	T	TCGA-KO-8410-01A-11D-2310-10	71807895	139165349	7198673	33	44110										
ELAVL2	1993	broad.mit.edu	37	chr9	23762052	23762052	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ggactctatttcaccaatgcTcccaaagagactctttagtt	6	11	3	1			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr9:23762052T>C	ENST00000397312.2	-	2	455	c.181A>G	c.(181-183)Agc>Ggc	p.S61G	ELAVL2_ENST00000223951.6_Missense_Mutation_p.S61G|ELAVL2_ENST00000544538.1_Missense_Mutation_p.S61G|ELAVL2_ENST00000380117.1_Missense_Mutation_p.S61G|ELAVL2_ENST00000380110.4_Missense_Mutation_p.S90G|ELAVL2_ENST00000462649.1_5'Flank	NM_004432.3	NP_004423.2	Q12926	ELAV2_HUMAN	ELAV like neuron-specific RNA binding protein 2	61	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				regulation of transcription, DNA-templated (GO:0006355)		mRNA 3'-UTR binding (GO:0003730)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(20)|ovary(2)|skin(1)|stomach(1)|urinary_tract(1)	39				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		TCACCAATGCTCCCAAAGAGA	0.393																																																0													193	179	184					9																	23762052		2203	4300	6503	SO:0001583	missense	1993			BC030692	CCDS6515.1, CCDS55298.1	9p21	2013-10-03	2013-10-03		ENSG00000107105	ENSG00000107105		"RNA binding motif (RRM) containing"	3313	protein-coding gene	gene with protein product	"Hu antigen B"	601673	"ELAV (embryonic lethal, abnormal vision, Drosophila)-like 2", "ELAV (embryonic lethal, abnormal vision, Drosophila)-like 2 (Hu antigen B)"			8812435	Standard	NM_004432		Approved	HuB, HEL-N1	uc003zpu.3	Q12926	OTTHUMG00000019700	ENST00000397312.2:c.181A>G	9.37:g.23762052T>C	ENSP00000380479:p.Ser61Gly	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRK3|Q13235|Q59G15|Q8NEM4|Q9H1Q8	Missense_Mutation	SNP	ENST00000397312.2	37	CCDS6515.1	.	.	.	.	.	.	.	.	.	.	T	17.34	3.364284	0.61513	.	.	ENSG00000107105	ENST00000223951;ENST00000397312;ENST00000544538;ENST00000380110;ENST00000380117;ENST00000359598;ENST00000440102	T;T;T;T;T	0.15487	2.42;2.42;2.42;2.42;2.42	5.92	5.92	0.95590	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (3);	0.000000	0.85682	D	0.000000	T	0.28797	0.0714	L	0.31294	0.92	0.80722	D	1	D;D	0.63880	0.989;0.993	P;P	0.60682	0.805;0.878	T	0.01874	-1.1256	10	0.87932	D	0	.	16.371	0.83361	0.0:0.0:0.0:1.0	.	61;61	Q12926;Q12926-2	ELAV2_HUMAN;.	G	61;61;61;61;61;89;61	ENSP00000223951:S61G;ENSP00000380479:S61G;ENSP00000440998:S61G;ENSP00000369460:S61G;ENSP00000412602:S61G	ENSP00000223951:S61G	S	-	1	0	ELAVL2	23752052	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	6.295000	0.72744	2.267000	0.75376	0.477000	0.44152	AGC		0.393	ELAVL2-201	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000051943.2	NM_004432		C	23762052	T	C	23762052	3	2	681	1	0	0	0	0	1	0	0	0	5052	1551	54	3	922	3	ELAVL2	9	23762052	Missense_Mutation	SNP	T	TCGA-KO-8410-01A-11D-2310-10		23762052	117451379	34	44111										
OR13C2	392376	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr9	107367862	107367862	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gtcttgggtgaccagaaagtCccttcagaaaaaattccacc	8	11	2	3			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr9:107367862C>T	ENST00000542196.1	-	1	89	c.47G>A	c.(46-48)gGa>gAa	p.G16E		NM_001004481.1	NP_001004481.1	Q8NGS9	O13C2_HUMAN	olfactory receptor, family 13, subfamily C, member 2	16						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			cervix(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(10)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	22						ACCAGAAAGTCCCTTCAGAAA	0.373																																																0													38	42	41					9																	107367862		2192	4293	6485	SO:0001583	missense	392376				CCDS35092.1	9q31.1	2012-10-03			ENSG00000257019	ENSG00000276119		"GPCR / Class A : Olfactory receptors"	14701	protein-coding gene	gene with protein product							Standard	NM_001004481		Approved		uc011lvq.2	Q8NGS9	OTTHUMG00000020415	ENST00000542196.1:c.47G>A	9.37:g.107367862C>T	ENSP00000438815:p.Gly16Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGV8|Q6IF54	Missense_Mutation	SNP	ENST00000542196.1	37	CCDS35092.1	.	.	.	.	.	.	.	.	.	.	C	13.08	2.129777	0.37630	.	.	ENSG00000257019	ENST00000542196	T	0.00655	5.95	3.39	3.39	0.38822	.	0.000000	0.37261	U	0.002175	T	0.05090	0.0136	M	0.92412	3.305	0.09310	N	1	D	0.89917	1.0	D	0.74674	0.984	T	0.04885	-1.0920	10	0.87932	D	0	.	8.5624	0.33518	0.0:0.7617:0.2383:0.0	.	16	Q8NGS9	O13C2_HUMAN	E	16	ENSP00000438815:G16E	ENSP00000438815:G16E	G	-	2	0	OR13C2	106407683	0.006000	0.16342	0.693000	0.30195	0.714000	0.41099	1.382000	0.34374	1.723000	0.51488	0.462000	0.41574	GGA		0.373	OR13C2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053489.2	NM_001004481		T	107367862	C	T	107367862	3	4	681	1	0	0	0	0	1	0	0	0	10941	855	30	2	912	2	OR13C2	9	107367862	Missense_Mutation	SNP	C	TCGA-KO-8410-01A-11D-2310-10	83605810	107367862	33845569	35	44112										
SIRT1	23411	broad.mit.edu	37	chr10	69648852	69648852	+	Frame_Shift_Del	DEL	A	A	-													0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	tgaaattactgcaagagtgcAaaaaaattatagttctaact							TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr10:69648852delA	ENST00000212015.6	+	3	813	c.760delA	c.(760-762)aaafs	p.K255fs	SIRT1_ENST00000432464.1_Intron|SIRT1_ENST00000497639.1_3'UTR|SIRT1_ENST00000406900.1_5'Flank	NM_012238.4	NP_036370.2	Q96EB6	SIR1_HUMAN	sirtuin 1	255	Deacetylase sirtuin-type. {ECO:0000255|PROSITE-ProRule:PRU00236}.|Interaction with CCAR2.|Interaction with HIST1H1E.				angiogenesis (GO:0001525)|cell aging (GO:0007569)|cellular glucose homeostasis (GO:0001678)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to hydrogen peroxide (GO:0070301)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to starvation (GO:0009267)|cellular response to tumor necrosis factor (GO:0071356)|cellular triglyceride homeostasis (GO:0035356)|cholesterol homeostasis (GO:0042632)|chromatin organization (GO:0006325)|chromatin silencing (GO:0006342)|chromatin silencing at rDNA (GO:0000183)|circadian regulation of gene expression (GO:0032922)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|DNA synthesis involved in DNA repair (GO:0000731)|establishment of chromatin silencing (GO:0006343)|fatty acid homeostasis (GO:0055089)|histone deacetylation (GO:0016575)|histone H3 deacetylation (GO:0070932)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|maintenance of chromatin silencing (GO:0006344)|methylation-dependent chromatin silencing (GO:0006346)|muscle organ development (GO:0007517)|negative regulation of androgen receptor signaling pathway (GO:0060766)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cAMP-dependent protein kinase activity (GO:2000480)|negative regulation of cell growth (GO:0030308)|negative regulation of cellular response to testosterone stimulus (GO:2000655)|negative regulation of cellular senescence (GO:2000773)|negative regulation of DNA damage response, signal transduction by p53 class mediator (GO:0043518)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of helicase activity (GO:0051097)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:1902166)|negative regulation of neuron death (GO:1901215)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902176)|negative regulation of peptidyl-lysine acetylation (GO:2000757)|negative regulation of phosphorylation (GO:0042326)|negative regulation of prostaglandin biosynthetic process (GO:0031393)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of TOR signaling (GO:0032007)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|ovulation from ovarian follicle (GO:0001542)|peptidyl-lysine acetylation (GO:0018394)|peptidyl-lysine deacetylation (GO:0034983)|positive regulation of adaptive immune response (GO:0002821)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cAMP-dependent protein kinase activity (GO:2000481)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cellular senescence (GO:2000774)|positive regulation of cholesterol efflux (GO:0010875)|positive regulation of chromatin silencing (GO:0031937)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of DNA repair (GO:0045739)|positive regulation of histone H3-K9 methylation (GO:0051574)|positive regulation of insulin receptor signaling pathway (GO:0046628)|positive regulation of macroautophagy (GO:0016239)|positive regulation of macrophage apoptotic process (GO:2000111)|positive regulation of MHC class II biosynthetic process (GO:0045348)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein deacetylation (GO:0006476)|protein destabilization (GO:0031648)|protein ubiquitination (GO:0016567)|pyrimidine dimer repair by nucleotide-excision repair (GO:0000720)|regulation of bile acid biosynthetic process (GO:0070857)|regulation of cell proliferation (GO:0042127)|regulation of endodeoxyribonuclease activity (GO:0032071)|regulation of glucose metabolic process (GO:0010906)|regulation of mitotic cell cycle (GO:0007346)|regulation of peroxisome proliferator activated receptor signaling pathway (GO:0035358)|regulation of protein import into nucleus, translocation (GO:0033158)|regulation of smooth muscle cell apoptotic process (GO:0034391)|response to hydrogen peroxide (GO:0042542)|response to insulin (GO:0032868)|response to oxidative stress (GO:0006979)|rRNA processing (GO:0006364)|single strand break repair (GO:0000012)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)|triglyceride mobilization (GO:0006642)|viral process (GO:0016032)|white fat cell differentiation (GO:0050872)	chromatin silencing complex (GO:0005677)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear envelope (GO:0005635)|nuclear euchromatin (GO:0005719)|nuclear heterochromatin (GO:0005720)|nuclear inner membrane (GO:0005637)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|rDNA heterochromatin (GO:0033553)	bHLH transcription factor binding (GO:0043425)|deacetylase activity (GO:0019213)|enzyme binding (GO:0019899)|histone binding (GO:0042393)|histone deacetylase activity (GO:0004407)|HLH domain binding (GO:0043398)|identical protein binding (GO:0042802)|keratin filament binding (GO:1990254)|metal ion binding (GO:0046872)|mitogen-activated protein kinase binding (GO:0051019)|NAD+ binding (GO:0070403)|NAD-dependent histone deacetylase activity (GO:0017136)|NAD-dependent histone deacetylase activity (H3-K9 specific) (GO:0046969)|NAD-dependent protein deacetylase activity (GO:0034979)|p53 binding (GO:0002039)|protein C-terminus binding (GO:0008022)|protein deacetylase activity (GO:0033558)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)			central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(6)|lung(3)|skin(1)	14						GCAAGAGTGCAAAAAAATTAT	0.333																																																0													51	55	54					10																	69648852		2202	4299	6501	SO:0001589	frameshift_variant	23411			AF083106	CCDS7273.1, CCDS44412.1	10q21	2010-06-25	2010-06-25		ENSG00000096717	ENSG00000096717			14929	protein-coding gene	gene with protein product		604479	"sirtuin (silent mating type information regulation 2, S. cerevisiae, homolog) 1", "sirtuin (silent mating type information regulation 2 homolog) 1 (S. cerevisiae)"			10381378	Standard	NM_012238		Approved	SIR2L1	uc001jnd.3	Q96EB6	OTTHUMG00000018340	ENST00000212015.6:c.760delA	10.37:g.69648852delA	ENSP00000212015:p.Lys255fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q2XNF6|Q5JVQ0|Q9GZR9|Q9Y6F0	Frame_Shift_Del	DEL	ENST00000212015.6	37	CCDS7273.1																																																																																				0.333	SIRT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048296.1			-	69648852	A	-	69648852	7	5	681	1	0	1	0	1	0	0	0	0	14350	131	5	0	770	0	SIRT1	10	69648852	Frame_Shift_Del	DEL	A	TCGA-KO-8410-01A-11D-2310-10		69648852	65885895	36	44113										
LZTS2	84445	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr10	102762597	102762597	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	cttccggacagagtcaccccCcagcccaagcagtgatgttg	10	15	1	2			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr10:102762597C>T	ENST00000370220.1	+	1	3365	c.302C>T	c.(301-303)cCc>cTc	p.P101L	LZTS2_ENST00000370223.3_Missense_Mutation_p.P101L					leucine zipper, putative tumor suppressor 2											breast(1)|large_intestine(6)|lung(7)|ovary(4)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	22				Epithelial(162;7.3e-09)|all cancers(201;3.72e-07)		GAGTCACCCCCCAGCCCAAGC	0.622																																					Esophageal Squamous(8;38 437 13604 19902 37640)											0													48	51	50					10																	102762597		2203	4300	6503	SO:0001583	missense	84445			AB058716	CCDS7507.1	10q24	2004-03-18			ENSG00000107816	ENSG00000107816			29381	protein-coding gene	gene with protein product		610454				11347906, 11709705	Standard	NM_032429		Approved	KIAA1813, LAPSER1	uc001ksj.3	Q9BRK4	OTTHUMG00000018914	ENST00000370220.1:c.302C>T	10.37:g.102762597C>T	ENSP00000359240:p.Pro101Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000370220.1	37	CCDS7507.1	.	.	.	.	.	.	.	.	.	.	C	13.74	2.326461	0.41197	.	.	ENSG00000107816	ENST00000426584;ENST00000370223;ENST00000429732;ENST00000315797;ENST00000370220;ENST00000454422	T;T	0.29397	1.57;1.57	4.78	4.78	0.61160	.	0.575630	0.18935	N	0.127095	T	0.14184	0.0343	N	0.08118	0	0.40738	D	0.982809	B	0.14012	0.009	B	0.06405	0.002	T	0.14309	-1.0477	10	0.21014	T	0.42	-13.9989	7.7296	0.28779	0.0:0.8173:0.0:0.1826	.	101	Q9BRK4	LZTS2_HUMAN	L	101	ENSP00000359243:P101L;ENSP00000359240:P101L	ENSP00000314437:P101L	P	+	2	0	LZTS2	102752587	0.018000	0.18449	0.992000	0.48379	0.934000	0.57294	0.303000	0.19210	2.349000	0.79799	0.561000	0.74099	CCC		0.622	LZTS2-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049872.1	XM_046743		T	102762597	C	T	102762597	3	4	681	1	0	0	0	0	1	0	0	0	9146	623	22	2	304	2	LZTS2	10	102762597	Missense_Mutation	SNP	C	TCGA-KO-8410-01A-11D-2310-10	33113745	102762597	32772150	37	44114										
STK32C	282974	ucsc.edu	37	chr10	134121101	134121101	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	tccttgtcgtcaaacaccggCctccgcgcggtggccgccga	12	17	1	0			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr10:134121101C>T	ENST00000368625.4	-	1	387				STK32C_ENST00000368622.1_5'Flank					serine/threonine kinase 32C											breast(1)|endometrium(2)|large_intestine(2)|lung(15)|ovary(2)|skin(1)	23		all_cancers(35;2.72e-11)|all_epithelial(44;2.33e-08)|Lung NSC(174;0.000855)|all_lung(145;0.00146)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.112)|Melanoma(40;0.124)|Glioma(114;0.203)		Epithelial(32;3.99e-05)|all cancers(32;5.58e-05)|OV - Ovarian serous cystadenocarcinoma(35;9.96e-05)|BRCA - Breast invasive adenocarcinoma(275;0.222)		CAAACACCGGCCTCCGCGCGG	0.706																																																0													24	28	26					10																	134121101		2164	4242	6406	SO:0001627	intron_variant	282974			AK057849	CCDS7666.1	10q26.3	2004-07-22			ENSG00000165752	ENSG00000165752			21332	protein-coding gene	gene with protein product							Standard	NM_173575		Approved	PKE, MGC23665, YANK3	uc001lle.1	Q86UX6	OTTHUMG00000019285	ENST00000368625.4:c.301+23838G>A	10.37:g.134121101C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000368625.4	37																																																																																					0.706	STK32C-201	KNOWN	basic	protein_coding	protein_coding		NM_173575		T	134121101	C	T	134121101	1	4	681	0	1	0	0	0	0	0	0	0	15311	738	26	2		2	STK32C	10	134121101	Intron	SNP	C	TCGA-KO-8410-01A-11D-2310-10	31358504	134121101	1413646	38	44115										
MUC6	4588	mdanderson.org	37	chr11	1016773	1016773	+	Missense_Mutation	SNP	G	G	T													0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	caaggaggtggagaaaggtgGaacgtgagtgggaagtgtgg							TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr11:1016773G>T	ENST00000421673.2	-	31	6078	c.6028C>A	c.(6028-6030)Cca>Aca	p.P2010T		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	2010	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GAGAAAGGTGGAACGTGAGTG	0.532																																																0													1076	1024	1042					11																	1016773		2203	4299	6502	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.6028C>A	11.37:g.1016773G>T	ENSP00000406861:p.Pro2010Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	9.910	1.209366	0.22289	.	.	ENSG00000184956	ENST00000421673	T	0.57595	0.39	2.46	-2.25	0.06888	.	.	.	.	.	T	0.38081	0.1027	M	0.65975	2.015	0.09310	N	1	B	0.33413	0.411	B	0.26614	0.071	T	0.27020	-1.0086	9	0.34782	T	0.22	.	0.3267	0.00312	0.277:0.2017:0.3162:0.2051	.	2010	Q6W4X9	MUC6_HUMAN	T	2010	ENSP00000406861:P2010T	ENSP00000406861:P2010T	P	-	1	0	MUC6	1006773	0.000000	0.05858	0.000000	0.03702	0.008000	0.06430	-0.333000	0.07894	-0.535000	0.06307	0.313000	0.20887	CCA		0.532	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		T	1016773	G	T	1016773	3	4	681	1	0	0	0	0	1	0	0	0	9987	1174	41	4	1303	4	MUC6	11	1016773	Missense_Mutation	SNP	G	TCGA-KO-8410-01A-11D-2310-10		1016773	133989743	39	44116	458	3								
MUC6	4588	mdanderson.org	37	chr11	1016777	1016777	+	Silent	SNP	G	G	A													0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gaggtggagaaaggtggaacGtgagtgggaagtgtggtctg							TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr11:1016777G>A	ENST00000421673.2	-	31	6074	c.6024C>T	c.(6022-6024)caC>caT	p.H2008H		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	2008	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		AAGGTGGAACGTGAGTGGGAA	0.537																																																0													1121	1075	1090					11																	1016777		2203	4299	6502	SO:0001819	synonymous_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.6024C>T	11.37:g.1016777G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Silent	SNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.537	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1016777	G	A	1016777	2	1	681	1	0	0	0	0	0	0	0	1	9987	1136	40	1		1	MUC6	11	1016777	Silent	SNP	G	TCGA-KO-8410-01A-11D-2310-10	4	1016777	133989739	40	44117	458	3								
MUC6	4588	mdanderson.org	37	chr11	1016787	1016787	+	Missense_Mutation	SNP	A	A	T													0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	aaggtggaacgtgagtgggaAgtgtggtctgagggtgtgat							TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr11:1016787A>T	ENST00000421673.2	-	31	6064	c.6014T>A	c.(6013-6015)cTt>cAt	p.L2005H		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	2005	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GTGAGTGGGAAGTGTGGTCTG	0.537																																																0													1245	1214	1224					11																	1016787		2203	4299	6502	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.6014T>A	11.37:g.1016787A>T	ENSP00000406861:p.Leu2005His	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	A	12.06	1.823722	0.32237	.	.	ENSG00000184956	ENST00000421673	T	0.21932	1.98	3.08	-6.16	0.02098	.	.	.	.	.	T	0.14313	0.0346	L	0.58101	1.795	0.09310	N	1	B	0.18461	0.028	B	0.14578	0.011	T	0.28681	-1.0036	9	0.42905	T	0.14	.	0.294	0.00262	0.2732:0.2364:0.2565:0.234	.	2005	Q6W4X9	MUC6_HUMAN	H	2005	ENSP00000406861:L2005H	ENSP00000406861:L2005H	L	-	2	0	MUC6	1006787	.	.	0.000000	0.03702	0.038000	0.13279	.	.	-2.379000	0.00595	0.254000	0.18369	CTT		0.537	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		T	1016787	A	T	1016787	3	4	681	1	0	0	0	0	1	0	0	0	9987	72	3	5	1317	5	MUC6	11	1016787	Missense_Mutation	SNP	A	TCGA-KO-8410-01A-11D-2310-10	10	1016787	133989729	41	44118	458	3								
MUC6	4588	mdanderson.org	37	chr11	1017162	1017162	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ctgtggccttgatcgtggtcGgtggaggaatggtgcctgtt	17	7	0	1			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr11:1017162G>A	ENST00000421673.2	-	31	5689	c.5639C>T	c.(5638-5640)cCg>cTg	p.P1880L		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1880	Approximate repeats.|Thr-rich.			PTTIKA -> LTTLMN (in Ref. 5; AAA35866). {ECO:0000305}.	cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GATCGTGGTCGGTGGAGGAAT	0.572																																																0													537	524	529					11																	1017162		2201	4287	6488	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5639C>T	11.37:g.1017162G>A	ENSP00000406861:p.Pro1880Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	1.995	-0.430731	0.04669	.	.	ENSG00000184956	ENST00000421673	T	0.24538	1.85	3.05	-4.43	0.03568	.	.	.	.	.	T	0.07728	0.0194	N	0.02539	-0.55	0.09310	N	1	B	0.31351	0.32	B	0.30179	0.112	T	0.29397	-1.0013	9	0.33141	T	0.24	.	4.4014	0.11388	0.2204:0.0:0.3208:0.4588	.	1880	Q6W4X9	MUC6_HUMAN	L	1880	ENSP00000406861:P1880L	ENSP00000406861:P1880L	P	-	2	0	MUC6	1007162	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.624000	0.05540	-0.880000	0.03997	-0.823000	0.03104	CCG		0.572	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1017162	G	A	1017162	3	1	681	1	0	0	0	0	1	0	0	0	9987	1116	39	1	1692	1	MUC6	11	1017162	Missense_Mutation	SNP	G	TCGA-KO-8410-01A-11D-2310-10	375	1017162	133989354	42	44119										
OR4C3	256144	mdanderson.org	37	chr11	48346513	48346513	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	atgcaattagttctattactTatgtttctccttgtctttat	4	7	3	0	rs78206553	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr11:48346513T>C	ENST00000319856.4	+	1	42	c.21T>C	c.(19-21)ctT>ctC	p.L7L		NM_001004702.1	NP_001004702.1	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C, member 3	0						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(18)|prostate(1)|skin(2)|stomach(3)|upper_aerodigestive_tract(1)	32						TTCTATTACTTATGTTTCTCC	0.353																																																0													114	119	117					11																	48346513		2201	4298	6499	SO:0001819	synonymous_variant	256144			AB065567	CCDS31489.1	11p11.2	2012-08-09				ENSG00000176547		"GPCR / Class A : Olfactory receptors"	14697	protein-coding gene	gene with protein product							Standard	NM_001004702		Approved		uc010rhv.2	Q8NH37	OTTHUMG00000166579	ENST00000319856.4:c.21T>C	11.37:g.48346513T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RNF2|Q6IFB3	Silent	SNP	ENST00000319856.4	37	CCDS31489.1																																																																																				0.353	OR4C3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390557.1	NM_001004702		C	48346513	T	C	48346513	2	2	681	1	0	0	0	0	0	0	0	1	11057	1741	61	3		3	OR4C3	11	48346513	Silent	SNP	T	TCGA-KO-8410-01A-11D-2310-10	47329351	48346513	86660003	43	44120										
PRB2	653247	mdanderson.org	37	chr12	11546395	11546395	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gaggtttgttgcctccttgtGggggtggtccttgtggcttt	16	7	0	0	rs11054277	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr12:11546395G>T	ENST00000389362.4	-	3	652	c.617C>A	c.(616-618)cCa>cAa	p.P206Q	PRB2_ENST00000545829.1_5'Flank|PRB1_ENST00000546254.1_Intron	NM_006248.3	NP_006239.3	P02812	PRB2_HUMAN	proline-rich protein BstNI subfamily 2	206	15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-P-Q-G-[GD]-[NKS]-[KSQ]- [PRS]-[QRS] [GPS]-[PSAR]-[PSR].					extracellular region (GO:0005576)		p.P185Q(1)|p.P206Q(1)		NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(14)|pancreas(1)|prostate(5)|skin(4)|stomach(2)|urinary_tract(1)	37		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			GCCTCCTTGTGGGGGTGGTCC	0.602													g|||	257	0.0513179	0.0091	0.062	5008	,	,		19479	0.0804		0.1113	False		,,,				2504	0.0092															2	Substitution - Missense(2)	lung(2)											68	78	75					12																	11546395		2075	4125	6200	SO:0001583	missense	653247			K03208	CCDS41757.2	12p13.2	2012-10-02			ENSG00000121335	ENSG00000121335			9338	protein-coding gene	gene with protein product		168810				8554050	Standard	NM_006248		Approved	PRPPRB1, Ps, cP7	uc010shk.1	P02812	OTTHUMG00000156975	ENST00000389362.4:c.617C>A	12.37:g.11546395G>T	ENSP00000374013:p.Pro206Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O00599|P02811|P04281	Missense_Mutation	SNP	ENST00000389362.4	37	CCDS41757.2	.	.	.	.	.	.	.	.	.	.	.	13.45	2.239350	0.39598	.	.	ENSG00000121335	ENST00000389362	T	0.04551	3.6	1.46	-2.65	0.06095	.	0.000000	0.35466	U	0.003186	T	0.04907	0.0132	L	0.33792	1.035	0.22888	N	0.998607	D	0.59357	0.985	P	0.52031	0.688	T	0.29882	-0.9997	10	0.42905	T	0.14	.	3.3379	0.07107	0.2091:0.2667:0.5243:0.0	.	206	P02812	PRB2_HUMAN	Q	206	ENSP00000374013:P206Q	ENSP00000374013:P206Q	P	-	2	0	PRB2	11437662	0.001000	0.12720	0.029000	0.17559	0.747000	0.42532	-0.415000	0.07106	-0.824000	0.04295	0.291000	0.19559	CCA		0.602	PRB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346925.2	NM_006248		T	11546395	G	T	11546395	3	4	681	1	0	0	0	0	1	0	0	0	12453	1348	47	4	637	4	PRB2	12	11546395	Missense_Mutation	SNP	G	TCGA-KO-8410-01A-11D-2310-10		11546395	122305500	44	44121										
LST-3TM12	338821	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	21242855	21242855	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ttcacagaagagccttcttcGgcttgaaggtagccctaata	9	10	2	3	rs112108376		TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr12:21242855G>A	ENST00000421593.2	+	13	1738	c.1738G>A	c.(1738-1740)Ggc>Agc	p.G580S	SLCO1B3_ENST00000553473.1_Missense_Mutation_p.G688S|LST3_ENST00000381541.3_Missense_Mutation_p.G627S|LST3_ENST00000540229.1_Missense_Mutation_p.G688S|SLCO1B7_ENST00000554957.1_Missense_Mutation_p.G627S|RP11-125O5.2_ENST00000590779.1_Intron	NM_001009562.4	NP_001009562.3	G3V0H7	SO1B7_HUMAN	solute carrier organic anion transporter family, member 1B7 (non-functional)	580						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(25)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	46						AGCCTTCTTCGGCTTGAAGGT	0.303													G|||	1	0.000199681	0.0008	0.0	5008	,	,		15372	0.0		0.0	False		,,,				2504	0.0															0								G	SER/GLY	0,3646		0,0,1823	55	54	55		1738	0.7	0	12	dbSNP_132	55	3,8171		0,3,4084	yes	missense	SLCO1B7	NM_001009562.4	56	0,3,5907	AA,AG,GG		0.0367,0.0,0.0254		580/641	21242855	3,11817	1823	4087	5910	SO:0001583	missense	338821			AF401642	CCDS44843.1	12p12.3	2013-05-22			ENSG00000205754	ENSG00000205754		"Solute carriers"	32934	protein-coding gene	gene with protein product							Standard	NM_001009562		Approved	LST3, SLC21A21		G3V0H7	OTTHUMG00000169045	ENST00000421593.2:c.1738G>A	12.37:g.21242855G>A	ENSP00000394168:p.Gly580Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q71QF0	Missense_Mutation	SNP	ENST00000421593.2	37	CCDS44843.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	.	12.20	1.865807	0.32977	0.0	3.67E-4	ENSG00000111700;ENSG00000257046;ENSG00000257046;ENSG00000205754;ENSG00000205754;ENSG00000205754	ENST00000553473;ENST00000381541;ENST00000540229;ENST00000554957;ENST00000421593;ENST00000545916	D;T;D;T;D;T	0.86230	-2.09;0.99;-2.09;0.99;-2.09;-1.02	2.57	0.657	0.17850	.	0.060842	0.64402	N	0.000004	D	0.89100	0.6619	M	0.71206	2.165	0.09310	N	1	D;D;P	0.63046	0.992;0.992;0.792	P;P;B	0.62184	0.899;0.899;0.149	T	0.79750	-0.1672	10	0.56958	D	0.05	.	4.9992	0.14255	0.3056:0.0:0.6944:0.0	.	580;627;688	G3V0H7;F5H094;Q5JAR4	.;.;.	S	688;627;688;627;580;89	ENSP00000451758:G688S;ENSP00000370952:G627S;ENSP00000441269:G688S;ENSP00000452013:G627S;ENSP00000394168:G580S;ENSP00000439857:G89S	ENSP00000370952:G627S	G	+	1	0	SLCO1B3;SLCO1B7;RP11-545J16.1	21134122	0.059000	0.20769	0.001000	0.08648	0.001000	0.01503	0.457000	0.21875	0.151000	0.19162	0.505000	0.49811	GGC		0.303	SLCO1B7-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000402066.1	NM_001009562		A	21242855	G	A	21242855	3	1	681	1	0	0	0	0	1	0	0	0	9073	1116	39	1	1788	1	LST-3TM12	12	21242855	Missense_Mutation	SNP	G	TCGA-KO-8410-01A-11D-2310-10	9696460	21242855	112609040	45	44122										
ZDHHC17	23390	broad.mit.edu;mdanderson.org	37	chr12	77216266	77216266	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	caagaggcaaggcaagcaaaAggatatgacaatccgtcctt	10	9	0	2			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr12:77216266A>G	ENST00000426126.2	+	8	1501	c.852A>G	c.(850-852)aaA>aaG	p.K284K	ZDHHC17_ENST00000334822.5_Silent_p.K284K	NM_015336.2	NP_056151.2	Q8IUH5	ZDH17_HUMAN	zinc finger, DHHC-type containing 17	284					lipoprotein transport (GO:0042953)|magnesium ion transport (GO:0015693)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|protein palmitoylation (GO:0018345)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi-associated vesicle membrane (GO:0030660)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)	identical protein binding (GO:0042802)|magnesium ion transmembrane transporter activity (GO:0015095)|palmitoyltransferase activity (GO:0016409)|protein-cysteine S-palmitoyltransferase activity (GO:0019706)|signal transducer activity (GO:0004871)|zinc ion binding (GO:0008270)			breast(2)|endometrium(2)|large_intestine(3)|liver(2)|lung(14)	23						GGCAAGCAAAAGGATATGACA	0.368																																																0													58	56	57					12																	77216266		1863	4108	5971	SO:0001819	synonymous_variant	23390			AB023163	CCDS44946.1	12q21.2	2013-01-10				ENSG00000186908		"Zinc fingers, DHHC-type", "Ankyrin repeat domain containing"	18412	protein-coding gene	gene with protein product		607799				9700202, 18794299	Standard	NM_015336		Approved	HIP14, HYPH, KIAA0946	uc001syk.1	Q8IUH5	OTTHUMG00000169917	ENST00000426126.2:c.852A>G	12.37:g.77216266A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DR39|O75407|Q7Z2I0|Q86W89|Q86YK0|Q9P088|Q9UPZ8	Silent	SNP	ENST00000426126.2	37	CCDS44946.1																																																																																				0.368	ZDHHC17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406555.1	NM_015336		G	77216266	A	G	77216266	2	3	681	1	0	0	0	0	0	0	0	1	17619	69	3	3		3	ZDHHC17	12	77216266	Silent	SNP	A	TCGA-KO-8410-01A-11D-2310-10	55973411	77216266	56635629	46	44123										
TDG	6996	mdanderson.org	37	chr12	104376608	104376608	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	tttatgtcagggctcagtgaGgtccagctgaaccatatgga	12	8	2	2	rs61937629	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr12:104376608G>A	ENST00000392872.3	+	5	744	c.510G>A	c.(508-510)gaG>gaA	p.E170E	AC078819.1_ENST00000401157.1_RNA|TDG_ENST00000542036.1_5'UTR|TDG_ENST00000544861.1_Silent_p.E27E|TDG_ENST00000266775.9_Silent_p.E166E	NM_003211.4	NP_003202.3	Q13569	TDG_HUMAN	thymine-DNA glycosylase	170					base-excision repair (GO:0006284)|base-excision repair, AP site formation (GO:0006285)|chromatin modification (GO:0016568)|depyrimidination (GO:0045008)|DNA demethylation (GO:0080111)|DNA repair (GO:0006281)|embryo development (GO:0009790)|mismatch repair (GO:0006298)|negative regulation of chromatin binding (GO:0035562)|negative regulation of protein binding (GO:0032091)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of gene expression, epigenetic (GO:0040029)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|PML body (GO:0016605)	damaged DNA binding (GO:0003684)|DNA N-glycosylase activity (GO:0019104)|double-stranded DNA binding (GO:0003690)|mismatched DNA binding (GO:0030983)|protein homodimerization activity (GO:0042803)|pyrimidine-specific mismatch base pair DNA N-glycosylase activity (GO:0008263)|RNA polymerase II transcription cofactor activity (GO:0001104)|structure-specific DNA binding (GO:0043566)	p.E170E(1)		large_intestine(2)|lung(14)|ovary(4)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)	24				BRCA - Breast invasive adenocarcinoma(302;0.00114)		GGCTCAGTGAGGTCCAGCTGA	0.443								Base excision repair (BER), DNA glycosylases																																								1	Substitution - coding silent(1)	stomach(1)											124	116	118					12																	104376608		2203	4300	6503	SO:0001819	synonymous_variant	6996			U51166	CCDS9095.1	12q24.1	2014-05-14			ENSG00000139372	ENSG00000139372	3.2.2.29		11700	protein-coding gene	gene with protein product	"G/T mismatch-specific thymine DNA glycosylase"	601423				8662714, 9299239	Standard	NM_003211		Approved		uc001tkg.3	Q13569	OTTHUMG00000168418	ENST00000392872.3:c.510G>A	12.37:g.104376608G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUZ6|Q8IZM3	Silent	SNP	ENST00000392872.3	37	CCDS9095.1																																																																																				0.443	TDG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399673.2			A	104376608	G	A	104376608	2	1	681	1	0	0	0	0	0	0	0	1	15737	991	35	2		2	TDG	12	104376608	Silent	SNP	G	TCGA-KO-8410-01A-11D-2310-10	27160342	104376608	29475287	47	44124										
MCF2L	23263	ucsc.edu;bcgsc.ca	37	chr13	113750740	113750740	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gaagggaggccccgatgcgcTgcgcgtgaggagcggggacg	21	10	0	1			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr13:113750740T>C	ENST00000375608.3	+	29	3279	c.3221T>C	c.(3220-3222)cTg>cCg	p.L1074P	MCF2L_ENST00000421756.1_Missense_Mutation_p.L1048P|MCF2L_ENST00000375601.3_Missense_Mutation_p.L1048P|MCF2L_ENST00000397030.1_Missense_Mutation_p.L1077P|MCF2L_ENST00000442652.2_Missense_Mutation_p.L1074P|MCF2L_ENST00000375604.2_Missense_Mutation_p.L1101P|MCF2L_ENST00000535094.2_Missense_Mutation_p.L1044P|MCF2L_ENST00000423482.2_Missense_Mutation_p.L1042P|MCF2L_ENST00000434480.2_Missense_Mutation_p.L1050P			O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming sequence-like	1074	SH3. {ECO:0000255|PROSITE- ProRule:PRU00192}.				apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|extracellular space (GO:0005615)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)	1-phosphatidylinositol binding (GO:0005545)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			kidney(1)|large_intestine(5)|ovary(1)|stomach(1)	8	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)				CCCGATGCGCTGCGCGTGAGG	0.706																																																0													22	33	30					13																	113750740		1558	3575	5133	SO:0001583	missense	23263			AB002360	CCDS9527.2, CCDS45070.1, CCDS9527.3, CCDS45070.2	13q34	2013-01-10			ENSG00000126217	ENSG00000126217		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	14576	protein-coding gene	gene with protein product		609499				9205841	Standard	NM_001112732		Approved	KIAA0362, DBS, OST, ARHGEF14	uc010tjr.2	O15068	OTTHUMG00000017377	ENST00000375608.3:c.3221T>C	13.37:g.113750740T>C	ENSP00000364758:p.Leu1074Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2X1|A2A2X2|A2A3G6|A2A3G8|B4DHD6|B4DIL6|E9PDN8|Q5JU56|Q5VXT1|Q6ZWD4|Q765G8|Q765G9|Q8N679	Missense_Mutation	SNP	ENST00000375608.3	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	18.63|18.63	3.664825|3.664825	0.67700|0.67700	.|.	.|.	ENSG00000126217|ENSG00000126217	ENST00000261963;ENST00000420013|ENST00000375608;ENST00000442652;ENST00000375604;ENST00000397030;ENST00000535094;ENST00000421756;ENST00000375601;ENST00000434480;ENST00000423482;ENST00000440749	.|T;T;T;T;T;T;T;T;T	.|0.50277	.|1.88;1.88;1.88;0.75;1.88;0.75;1.88;1.88;1.88	5.14|5.14	3.97|3.97	0.46021|0.46021	.|Src homology-3 domain (3);Variant SH3 (1);	.|0.234273	.|0.36134	.|N	.|0.002773	T|T	0.74145|0.74145	0.3678|0.3678	H|H	0.94462|0.94462	3.54|3.54	0.44123|0.44123	D|D	0.996903|0.996903	.|D;D;D;D	.|0.89917	.|1.0;1.0;1.0;1.0	.|D;D;D;D	.|0.80764	.|0.99;0.99;0.99;0.994	T|T	0.78132|0.78132	-0.2323|-0.2323	5|10	.|0.87932	.|D	.|0	.|.	9.842|9.842	0.41004|0.41004	0.0:0.0811:0.0:0.9189|0.0:0.0811:0.0:0.9189	.|.	.|1042;1044;1101;1074	.|E9PDN8;O15068-9;G5E9A1;O15068	.|.;.;.;MCF2L_HUMAN	R|P	215;116|1074;1074;1101;1077;1044;1048;1048;1050;1042;885	.|ENSP00000364758:L1074P;ENSP00000401422:L1074P;ENSP00000364754:L1101P;ENSP00000380225:L1077P;ENSP00000440374:L1044P;ENSP00000397285:L1048P;ENSP00000364751:L1048P;ENSP00000407722:L1050P;ENSP00000405639:L1042P	.|ENSP00000364751:L1048P	C|L	+|+	1|2	0|0	MCF2L|MCF2L	112798741|112798741	1.000000|1.000000	0.71417|0.71417	0.002000|0.002000	0.10522|0.10522	0.005000|0.005000	0.04900|0.04900	5.360000|5.360000	0.66086|0.66086	0.808000|0.808000	0.34231|0.34231	0.460000|0.460000	0.39030|0.39030	TGC|CTG		0.706	MCF2L-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000045849.4			C	113750740	T	C	113750740	3	2	681	1	0	0	0	0	1	0	0	0	9386	1580	55	3	3507	3	MCF2L	13	113750740	Missense_Mutation	SNP	T	TCGA-KO-8410-01A-11D-2310-10		113750740	1419138	48	44125										
C14orf101	54916	bcgsc.ca	37	chr14	57082681	57082681	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gttctcaagtaacaaatatgAggaccgaactctcattcaac	6	10	3	1			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr14:57082681A>G	ENST00000261556.6	+	8	999	c.877A>G	c.(877-879)Agg>Ggg	p.R293G	TMEM260_ENST00000553335.1_3'UTR|TMEM260_ENST00000538838.1_Missense_Mutation_p.R293G|TMEM260_ENST00000536419.1_5'UTR	NM_017799.3	NP_060269.3	Q9NX78	TM260_HUMAN	transmembrane protein 260	293						integral component of membrane (GO:0016021)											AACAAATATGAGGACCGAACT	0.313																																																0													131	135	134					14																	57082681		2203	4299	6502	SO:0001583	missense	0			AK000399	CCDS9727.2	14q22.2	2013-03-08	2013-03-08	2013-03-08	ENSG00000070269	ENSG00000070269			20185	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 101"	C14orf101			Standard	XR_245695		Approved	FLJ20392	uc001xcm.3	Q9NX78	OTTHUMG00000152337	ENST00000261556.6:c.877A>G	14.37:g.57082681A>G	ENSP00000261556:p.Arg293Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAN4|B3KPF5|Q86XE1	Missense_Mutation	SNP	ENST00000261556.6	37	CCDS9727.2	.	.	.	.	.	.	.	.	.	.	A	9.038	0.989011	0.18966	.	.	ENSG00000070269	ENST00000261556;ENST00000538838	T;T	0.42900	1.55;0.96	5.89	5.89	0.94794	.	0.493681	0.24808	N	0.035431	T	0.35393	0.0930	L	0.44542	1.39	0.80722	D	1	B	0.21520	0.057	B	0.14023	0.01	T	0.11567	-1.0582	10	0.22109	T	0.4	-9.7491	13.8303	0.63377	1.0:0.0:0.0:0.0	.	293	Q9NX78	CN101_HUMAN	G	293	ENSP00000261556:R293G;ENSP00000441934:R293G	ENSP00000261556:R293G	R	+	1	2	C14orf101	56152434	1.000000	0.71417	0.998000	0.56505	0.345000	0.29048	4.855000	0.62925	2.250000	0.74265	0.477000	0.44152	AGG		0.313	TMEM260-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276924.1	NM_017799		G	57082681	A	G	57082681	3	3	681	1	0	0	0	0	1	0	0	0	1736	295	11	3	907	3	C14orf101	14	57082681	Missense_Mutation	SNP	A	TCGA-KO-8410-01A-11D-2310-10		57082681	50266859	49	44126										
LTBP2	4053	ucsc.edu	37	chr14	74995365	74995365	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	tgtcggagctcgcgtaggtgTagccgtggccggcagggcag	19	10	0	0			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr14:74995365T>C	ENST00000261978.4	-	12	2575	c.2189A>G	c.(2188-2190)tAc>tGc	p.Y730C	LTBP2_ENST00000556690.1_Missense_Mutation_p.Y730C	NM_000428.2	NP_000419.1	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding protein 2	730					protein secretion (GO:0009306)|protein targeting (GO:0006605)|transforming growth factor beta receptor signaling pathway (GO:0007179)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|heparin binding (GO:0008201)			breast(3)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(9)|liver(1)|lung(29)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	58				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		CGCGTAGGTGTAGCCGTGGCC	0.627																																																0													39	39	39					14																	74995365		2203	4299	6502	SO:0001583	missense	4053				CCDS9831.1	14q24.3	2011-10-20	2001-12-04			ENSG00000119681		"Latent transforming growth factor, beta binding proteins"	6715	protein-coding gene	gene with protein product		602091	"chromosome 14 open reading frame 141"	LTBP3, C14orf141		7798248	Standard	NM_000428		Approved		uc001xqa.3	Q14767		ENST00000261978.4:c.2189A>G	14.37:g.74995365T>C	ENSP00000261978:p.Tyr730Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q99907|Q9NS51	Missense_Mutation	SNP	ENST00000261978.4	37	CCDS9831.1	.	.	.	.	.	.	.	.	.	.	T	23.5	4.429018	0.83667	.	.	ENSG00000119681	ENST00000261978;ENST00000556690	D;D	0.91180	-2.8;-2.8	5.54	5.54	0.83059	Matrix fibril-associated (2);	0.000000	0.38164	N	0.001785	D	0.92028	0.7474	L	0.34521	1.04	0.47659	D	0.999489	D	0.89917	1.0	D	0.87578	0.998	D	0.92040	0.5640	10	0.49607	T	0.09	.	13.3018	0.60330	0.0:0.0:0.0:1.0	.	730	Q14767	LTBP2_HUMAN	C	730	ENSP00000261978:Y730C;ENSP00000451477:Y730C	ENSP00000261978:Y730C	Y	-	2	0	LTBP2	74065118	1.000000	0.71417	1.000000	0.80357	0.873000	0.50193	6.853000	0.75435	2.326000	0.78906	0.533000	0.62120	TAC		0.627	LTBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413595.1	NM_000428		C	74995365	T	C	74995365	3	2	681	1	0	0	0	0	1	0	0	0	9081	1638	57	3	3376	3	LTBP2	14	74995365	Missense_Mutation	SNP	T	TCGA-KO-8410-01A-11D-2310-10	17912684	74995365	32354175	50	44127										
AHNAK2	113146	mdanderson.org	37	chr14	105412347	105412347	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ccgaacgacggcatcttgaaCttgggcattttgaacttgct	10	10	1	2	rs55842266	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr14:105412347C>T	ENST00000333244.5	-	7	9560	c.9441G>A	c.(9439-9441)aaG>aaA	p.K3147K	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3147						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			GCATCTTGAACTTGGGCATTT	0.602													.|||	305	0.0609026	0.0106	0.0778	5008	,	,		16789	0.0109		0.1491	False		,,,				2504	0.0777															0													199	143	161					14																	105412347		1924	4066	5990	SO:0001819	synonymous_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.9441G>A	14.37:g.105412347C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Silent	SNP	ENST00000333244.5	37	CCDS45177.1																																																																																				0.602	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		T	105412347	C	T	105412347	2	4	681	1	0	0	0	0	0	0	0	1	415	564	20	2		2	AHNAK2	14	105412347	Silent	SNP	C	TCGA-KO-8410-01A-11D-2310-10	30416982	105412347	1937193	51	44128										
ATP10A	57194	bcgsc.ca	37	chr15	25928591	25928591	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	aatcatggtagatgcagagaAgccacagaaaaactggaacc	10	8	1	3			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr15:25928591A>G	ENST00000356865.6	-	17	3445	c.3334T>C	c.(3334-3336)Ttc>Ctc	p.F1112L		NM_024490.3	NP_077816.1	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1112					ion transmembrane transport (GO:0034220)|phospholipid translocation (GO:0045332)|regulation of cell shape (GO:0008360)|transmembrane transport (GO:0055085)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			NS(1)|breast(2)|endometrium(8)|kidney(2)|large_intestine(33)|liver(1)|lung(41)|ovary(3)|pancreas(2)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(2)	103		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)		GATGCAGAGAAGCCACAGAAA	0.488																																																0													77	75	76					15																	25928591		2203	4300	6503	SO:0001583	missense	57194			AB011138	CCDS32178.1	15q12	2010-04-20	2007-09-19		ENSG00000206190	ENSG00000206190		"ATPases / P-type"	13542	protein-coding gene	gene with protein product		605855	"ATPase, Class V, type 10C", "ATPase, Class V, type 10A"	ATP10C		11015572, 9628581	Standard	NM_024490		Approved	ATPVA, ATPVC, KIAA0566	uc010ayu.3	O60312		ENST00000356865.6:c.3334T>C	15.37:g.25928591A>G	ENSP00000349325:p.Phe1112Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0S9|Q969I4	Missense_Mutation	SNP	ENST00000356865.6	37	CCDS32178.1	.	.	.	.	.	.	.	.	.	.	A	33	5.246143	0.95272	.	.	ENSG00000206190	ENST00000356865	T	0.72394	-0.65	4.81	4.81	0.61882	.	0.000000	0.85682	D	0.000000	D	0.87900	0.6294	H	0.95004	3.61	0.80722	D	1	D	0.89917	1.0	D	0.77557	0.99	D	0.91319	0.5080	10	0.87932	D	0	-32.2913	14.3699	0.66833	1.0:0.0:0.0:0.0	.	1112	O60312	AT10A_HUMAN	L	1112	ENSP00000349325:F1112L	ENSP00000349325:F1112L	F	-	1	0	ATP10A	23479684	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	8.963000	0.93385	1.790000	0.52503	0.533000	0.62120	TTC		0.488	ATP10A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414830.1	NM_024490		G	25928591	A	G	25928591	3	3	681	1	0	0	0	0	1	0	0	0	1116	72	3	3	1185	3	ATP10A	15	25928591	Missense_Mutation	SNP	A	TCGA-KO-8410-01A-11D-2310-10		25928591	76602801	52	44129										
GOLGA8B	440270	ucsc.edu	37	chr15	34819940	34819940	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	catctcaccaaggagctgcaGgactggctgtgcagtagggt	14	10	1	0	rs2615360	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr15:34819940G>C	ENST00000342314.5	-	16	1802	c.1705C>G	c.(1705-1707)Ctg>Gtg	p.L569V	GOLGA8B_ENST00000267731.7_Missense_Mutation_p.L569V|GOLGA8A_ENST00000543376.1_Intron|GOLGA8B_ENST00000438958.2_Missense_Mutation_p.L599V|MIR1233-2_ENST00000408138.1_RNA	NM_001023567.4	NP_001018861.3	A8MQT2	GOG8B_HUMAN	golgin A8 family, member B	569	Golgi-targeting domain.			L -> V (in Ref. 1; AAF40308 and 2; AAF34136). {ECO:0000305}.		Golgi apparatus (GO:0005794)|membrane (GO:0016020)				endometrium(1)	1		all_lung(180;2.78e-08)		all cancers(64;8.27e-19)|GBM - Glioblastoma multiforme(113;6.98e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		AGGAGCTGCAGGACTGGCTGT	0.592													c|||	687	0.137181	0.2027	0.1902	5008	,	,		7607	0.0734		0.1143	False		,,,				2504	0.1002															0													36	45	42					15																	34819940		1316	3386	4702	SO:0001583	missense	440270			AF164622	CCDS45211.1	15q14	2011-10-25	2010-02-12		ENSG00000215252	ENSG00000215252			31973	protein-coding gene	gene with protein product		609619	"golgi autoantigen, golgin subfamily a, 8B"				Standard	NM_001023567		Approved		uc001ziq.3	A8MQT2	OTTHUMG00000129549	ENST00000342314.5:c.1705C>G	15.37:g.34819940G>C	ENSP00000343064:p.Leu569Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLZ2|O94937|Q2M3S9|Q9NZG8|Q9NZW0|Q9NZW3	Missense_Mutation	SNP	ENST00000342314.5	37	CCDS45211.1	236	0.10805860805860806	65	0.13211382113821138	36	0.09944751381215469	59	0.10314685314685315	76	0.10026385224274406	N	0.004	-2.348606	0.00219	.	.	ENSG00000215252	ENST00000342314;ENST00000267731;ENST00000438958;ENST00000268079	T;T;T	0.24538	1.85;1.85;1.85	1.48	-1.31	0.09230	.	.	.	.	.	T	0.00073	0.0002	N	0.01515	-0.825	0.80722	P	0.0	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.0	T	0.25847	-1.0120	8	0.02654	T	1	.	3.4826	0.07607	0.0:0.1792:0.225:0.5958	.	425;569	B7ZMK6;A8MQT2	.;GOG8B_HUMAN	V	569;569;599;460	ENSP00000343064:L569V;ENSP00000267731:L569V;ENSP00000400063:L599V	ENSP00000267731:L569V	L	-	1	2	GOLGA8B	32607232	1.000000	0.71417	0.029000	0.17559	0.001000	0.01503	1.699000	0.37804	-0.989000	0.03485	-3.440000	0.00036	CTG		0.592	GOLGA8B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251739.2	NM_001023567		C	34819940	G	C	34819940	3	2	681	1	0	0	0	0	1	0	0	0	6571	991	35	4	110	4	GOLGA8B	15	34819940	Missense_Mutation	SNP	G	TCGA-KO-8410-01A-11D-2310-10	8891349	34819940	67711452	53	44130										
GOLGA6D	653643	mdanderson.org	37	chr15	75586737	75586737	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	cgtggagcctgcaccaggagTggccagggagggttctcccc	16	13	1	0	rs200428716		TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr15:75586737T>C	ENST00000434739.3	+	18	2044	c.2003T>C	c.(2002-2004)gTg>gCg	p.V668A	RN7SL327P_ENST00000488659.2_RNA	NM_001145224.1	NP_001138696.1	P0CG33	GOG6D_HUMAN	golgin A6 family, member D	668						Golgi apparatus (GO:0005794)				kidney(1)|lung(1)	2						GCACCAGGAGTGGCCAGGGAG	0.607																																																0													41	50	47					15																	75586737		642	1582	2224	SO:0001583	missense	653643				CCDS45308.1	15q24.2	2013-05-10	2010-02-12	2009-09-04	ENSG00000140478	ENSG00000140478			32204	protein-coding gene	gene with protein product			"golgi autoantigen, golgin subfamily a, 6D"				Standard	NM_001145224		Approved		uc010uma.2	P0CG33	OTTHUMG00000172672	ENST00000434739.3:c.2003T>C	15.37:g.75586737T>C	ENSP00000391085:p.Val668Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000434739.3	37	CCDS45308.1	24	0.01098901098901099	9	0.018292682926829267	7	0.019337016574585635	7	0.012237762237762238	1	0.0013192612137203166	C	2.514	-0.312259	0.05422	.	.	ENSG00000140478	ENST00000434739	T	0.20881	2.04	1.38	-2.75	0.05914	.	.	.	.	.	T	0.03827	0.0108	N	0.14661	0.345	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.22591	-1.0212	9	0.23302	T	0.38	.	1.0217	0.01519	0.2442:0.4003:0.1596:0.1958	.	668	P0CG33	GOG6D_HUMAN	A	668	ENSP00000391085:V668A	ENSP00000391085:V668A	V	+	2	0	GOLGA6D	73373790	0.000000	0.05858	0.000000	0.03702	0.005000	0.04900	-1.128000	0.03247	-2.830000	0.00339	-3.450000	0.00036	GTG		0.607	GOLGA6D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419798.1	NM_001145224		C	75586737	T	C	75586737	3	2	681	1	0	0	0	0	1	0	0	0	6567	1696	59	3	2073	3	GOLGA6D	15	75586737	Missense_Mutation	SNP	T	TCGA-KO-8410-01A-11D-2310-10	40766797	75586737	26944655	54	44131										
ADAMTS7	11173	mdanderson.org	37	chr15	79058378	79058378	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gggctatgggaggaggaaggAgagaagccaccccaacagtg	17	8	0	1	rs201462332		TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr15:79058378A>G	ENST00000388820.4	-	19	4085	c.3875T>C	c.(3874-3876)cTc>cCc	p.L1292P	ADAMTS7_ENST00000566303.1_5'Flank	NM_014272.3	NP_055087.2	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 7	1292					cellular response to BMP stimulus (GO:0071773)|cellular response to interleukin-1 (GO:0071347)|cellular response to tumor necrosis factor (GO:0071356)|negative regulation of chondrocyte differentiation (GO:0032331)|proteolysis involved in cellular protein catabolic process (GO:0051603)	cell surface (GO:0009986)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(2)|lung(23)|ovary(1)|prostate(8)|skin(9)	54						AGGAGGAAGGAGAGAAGCCAC	0.647																																																0													16	17	17					15																	79058378		2120	4172	6292	SO:0001583	missense	11173			AF140675	CCDS32303.1	15q25.1	2012-05-16	2005-08-19		ENSG00000136378	ENSG00000136378		"ADAM metallopeptidases with thrombospondin type 1 motif"	223	protein-coding gene	gene with protein product	"COMPase", "a disintegrin and metalloprotease with thrombospondin motifs-7 preproprotein"	605009	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 7"			10464288	Standard	NM_014272		Approved	ADAM-TS7, DKFZp434H204	uc002bej.4	Q9UKP4	OTTHUMG00000172907	ENST00000388820.4:c.3875T>C	15.37:g.79058378A>G	ENSP00000373472:p.Leu1292Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q14F51|Q6P7J9	Missense_Mutation	SNP	ENST00000388820.4	37	CCDS32303.1	.	.	.	.	.	.	.	.	.	.	a	2.158	-0.392791	0.04899	.	.	ENSG00000136378	ENST00000388820	T	0.59224	0.28	3.75	-1.46	0.08800	.	0.736535	0.11836	N	0.524771	T	0.26376	0.0644	N	0.02916	-0.46	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.19976	-1.0289	10	0.17832	T	0.49	.	7.6255	0.28210	0.4543:0.0:0.5457:0.0	.	1292	Q9UKP4	ATS7_HUMAN	P	1292	ENSP00000373472:L1292P	ENSP00000373472:L1292P	L	-	2	0	ADAMTS7	76845433	0.000000	0.05858	0.000000	0.03702	0.032000	0.12392	-0.278000	0.08490	-0.638000	0.05509	-1.242000	0.01536	CTC		0.647	ADAMTS7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000421331.1	NM_014272		G	79058378	A	G	79058378	3	3	681	1	0	0	0	0	1	0	0	0	271	304	11	3	1209	3	ADAMTS7	15	79058378	Missense_Mutation	SNP	A	TCGA-KO-8410-01A-11D-2310-10	3471641	79058378	23473014	55	44132										
RHOT2	89941	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr16	721884	721884	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gcgacggcgccctctcgcccGtggagctgcaaagccttttc	12	16	1	0	rs367726747		TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr16:721884G>T	ENST00000315082.4	+	13	1093	c.979G>T	c.(979-981)Gtg>Ttg	p.V327L		NM_138769.2	NP_620124.1	Q8IXI1	MIRO2_HUMAN	ras homolog family member T2	327	EF-hand 2. {ECO:0000255|PROSITE- ProRule:PRU00448}.				cellular homeostasis (GO:0019725)|mitochondrial outer membrane permeabilization (GO:0097345)|mitochondrion transport along microtubule (GO:0047497)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|integral component of mitochondrial outer membrane (GO:0031307)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)			endometrium(2)|kidney(3)|lung(4)|ovary(1)|pancreas(2)|prostate(1)	13		Hepatocellular(780;0.0218)				CCTCTCGCCCGTGGAGCTGCA	0.711																																																0													51	64	60					16																	721884		2199	4296	6495	SO:0001583	missense	89941			BC014942	CCDS10417.1	16p13.3	2013-01-10	2012-02-27	2004-03-24	ENSG00000140983	ENSG00000140983		"EF-hand domain containing"	21169	protein-coding gene	gene with protein product	"mitochondrial Rho (MIRO) GTPase 2"	613889	"chromosome 16 open reading frame 39", "ras homolog gene family, member T2"	C16orf39, ARHT2		12482879	Standard	NM_138769		Approved	MIRO-2	uc002cip.3	Q8IXI1	OTTHUMG00000121139	ENST00000315082.4:c.979G>T	16.37:g.721884G>T	ENSP00000321971:p.Val327Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A2IDC2|Q8NF53|Q96C13|Q96S17|Q9BT60|Q9H7M8	Missense_Mutation	SNP	ENST00000315082.4	37	CCDS10417.1	.	.	.	.	.	.	.	.	.	.	G	11.44	1.638715	0.29157	.	.	ENSG00000140983	ENST00000315082	T	0.09163	3.01	5.44	-4.54	0.03452	EF-hand-like domain (1);	1.491620	0.03357	N	0.197119	T	0.06234	0.0161	N	0.17474	0.49	0.09310	N	1	B	0.24721	0.11	B	0.24155	0.051	T	0.35649	-0.9780	10	0.30078	T	0.28	-10.8831	5.2347	0.15441	0.2999:0.0:0.3028:0.3973	.	327	Q8IXI1	MIRO2_HUMAN	L	327	ENSP00000321971:V327L	ENSP00000321971:V327L	V	+	1	0	RHOT2	661885	0.000000	0.05858	0.000000	0.03702	0.018000	0.09664	-1.054000	0.03496	-0.571000	0.06014	-1.423000	0.01107	GTG		0.711	RHOT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241617.1	NM_138769		T	721884	G	T	721884	3	4	681	1	0	0	0	0	1	0	0	0	13357	1145	40	4	1029	4	RHOT2	16	721884	Missense_Mutation	SNP	G	TCGA-KO-8410-01A-11D-2310-10		721884	89632869	56	44133										
TPSB2	64499	mdanderson.org	37	chr16	1279704	1279704	+	RNA	SNP	A	A	G													0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ctgggggcctcctgacccccAacgatgcccactcgctgcag					rs202107419	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr16:1279704A>G	ENST00000339687.6	-	0	118				TPSB2_ENST00000445910.1_RNA|TPSB2_ENST00000430512.2_RNA			P20231	TRYB2_HUMAN	tryptase beta 2 (gene/pseudogene)							extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			lung(1)|upper_aerodigestive_tract(1)	2		Hepatocellular(780;0.00369)				CCTGACCCCCAACGATGCCCA	0.697																																																0													30	38	35					16																	1279704		2182	4298	6480			64499			AF099143		16p13.3	2009-11-20	2009-11-18		ENSG00000197253	ENSG00000197253			14120	protein-coding gene	gene with protein product	"tryptase beta II", "tryptase beta III"	191081	"tryptase beta 2"			19748655	Standard	NM_024164		Approved		uc002cky.3	P20231	OTTHUMG00000155926		16.37:g.1279704A>G		Somatic		WXS	Illumina HiSeq	Phase_I	D2E6S0|D2E6S2|O95827|Q15664|Q9UQI6|Q9UQI7	Silent	SNP	ENST00000339687.6	37																																																																																					0.697	TPSB2-002	KNOWN	basic	processed_transcript	polymorphic_pseudogene	OTTHUMT00000342364.1	NM_024164		G	1279704	A	G	1279704	1	3	681	0	1	0	0	0	0	0	0	0	16436	117	5	3		3	TPSB2	16	1279704	RNA	SNP	A	TCGA-KO-8410-01A-11D-2310-10	557820	1279704	89075049	57	44134	459	4								
TPSB2	64499	mdanderson.org	37	chr16	1279710	1279710	+	RNA	SNP	G	G	A													0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gcctcctgacccccaacgatGcccactcgctgcagggcctg					rs200630968	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr16:1279710G>A	ENST00000339687.6	-	0	112				TPSB2_ENST00000445910.1_RNA|TPSB2_ENST00000430512.2_RNA			P20231	TRYB2_HUMAN	tryptase beta 2 (gene/pseudogene)							extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			lung(1)|upper_aerodigestive_tract(1)	2		Hepatocellular(780;0.00369)				CCCCAACGATGCCCACTCGCT	0.706																																																0													27	34	32					16																	1279710		2182	4297	6479			64499			AF099143		16p13.3	2009-11-20	2009-11-18		ENSG00000197253	ENSG00000197253			14120	protein-coding gene	gene with protein product	"tryptase beta II", "tryptase beta III"	191081	"tryptase beta 2"			19748655	Standard	NM_024164		Approved		uc002cky.3	P20231	OTTHUMG00000155926		16.37:g.1279710G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D2E6S0|D2E6S2|O95827|Q15664|Q9UQI6|Q9UQI7	Silent	SNP	ENST00000339687.6	37																																																																																					0.706	TPSB2-002	KNOWN	basic	processed_transcript	polymorphic_pseudogene	OTTHUMT00000342364.1	NM_024164		A	1279710	G	A	1279710	1	1	681	0	1	0	0	0	0	0	0	0	16436	1306	46	2		2	TPSB2	16	1279710	RNA	SNP	G	TCGA-KO-8410-01A-11D-2310-10	6	1279710	89075043	58	44135	459	4								
TPSB2	64499	mdanderson.org	37	chr16	1279714	1279714	+	RNA	SNP	A	A	G													0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	cctgacccccaacgatgcccActcgctgcagggcctggcct					rs192643610	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr16:1279714A>G	ENST00000339687.6	-	0	108				TPSB2_ENST00000445910.1_RNA|TPSB2_ENST00000430512.2_RNA			P20231	TRYB2_HUMAN	tryptase beta 2 (gene/pseudogene)							extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			lung(1)|upper_aerodigestive_tract(1)	2		Hepatocellular(780;0.00369)				AACGATGCCCACTCGCTGCAG	0.711																																																0													25	32	29					16																	1279714		2180	4295	6475			64499			AF099143		16p13.3	2009-11-20	2009-11-18		ENSG00000197253	ENSG00000197253			14120	protein-coding gene	gene with protein product	"tryptase beta II", "tryptase beta III"	191081	"tryptase beta 2"			19748655	Standard	NM_024164		Approved		uc002cky.3	P20231	OTTHUMG00000155926		16.37:g.1279714A>G		Somatic		WXS	Illumina HiSeq	Phase_I	D2E6S0|D2E6S2|O95827|Q15664|Q9UQI6|Q9UQI7	Missense_Mutation	SNP	ENST00000339687.6	37		171	0.0782967032967033	39	0.07926829268292683	28	0.07734806629834254	44	0.07692307692307693	60	0.079155672823219	a	8.603	0.887339	0.17540	.	.	ENSG00000197253	ENST00000430512	T	0.81078	-1.45	4.02	-8.04	0.01110	.	1.382050	0.04868	N	0.445430	T	0.05090	0.0136	.	.	.	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.32375	-0.9909	9	0.07644	T	0.81	.	3.7543	0.08579	0.5801:0.1008:0.1165:0.2027	.	29	P20231	TRYB2_HUMAN	A	29	ENSP00000412409:V29A	ENSP00000412409:V29A	V	-	2	0	TPSB2	1219715	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-4.520000	0.00221	-2.364000	0.00607	-1.306000	0.01317	GTG		0.711	TPSB2-002	KNOWN	basic	processed_transcript	polymorphic_pseudogene	OTTHUMT00000342364.1	NM_024164		G	1279714	A	G	1279714	1	3	681	0	1	0	0	0	0	0	0	0	16436	159	6	3		3	TPSB2	16	1279714	RNA	SNP	A	TCGA-KO-8410-01A-11D-2310-10	4	1279714	89075039	59	44136	459	4								
TPSB2	64499	mdanderson.org	37	chr16	1279717	1279717	+	RNA	SNP	C	C	T													0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	gacccccaacgatgcccactCgctgcagggcctggcctggg					rs201728868	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr16:1279717C>T	ENST00000339687.6	-	0	105				TPSB2_ENST00000445910.1_RNA|TPSB2_ENST00000430512.2_RNA			P20231	TRYB2_HUMAN	tryptase beta 2 (gene/pseudogene)							extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)|serine-type peptidase activity (GO:0008236)			lung(1)|upper_aerodigestive_tract(1)	2		Hepatocellular(780;0.00369)				GATGCCCACTCGCTGCAGGGC	0.711																																																0													23	30	28					16																	1279717		2181	4295	6476			64499			AF099143		16p13.3	2009-11-20	2009-11-18		ENSG00000197253	ENSG00000197253			14120	protein-coding gene	gene with protein product	"tryptase beta II", "tryptase beta III"	191081	"tryptase beta 2"			19748655	Standard	NM_024164		Approved		uc002cky.3	P20231	OTTHUMG00000155926		16.37:g.1279717C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D2E6S0|D2E6S2|O95827|Q15664|Q9UQI6|Q9UQI7	Missense_Mutation	SNP	ENST00000339687.6	37		.	.	.	.	.	.	.	.	.	.	C	9.729	1.161875	0.21538	.	.	ENSG00000197253	ENST00000430512	T	0.81078	-1.45	4.02	0.801	0.18679	.	0.365821	0.20030	N	0.100730	T	0.56920	0.2018	.	.	.	0.09310	N	1	B	0.25351	0.124	B	0.17722	0.019	T	0.35051	-0.9804	9	0.13108	T	0.6	.	3.9752	0.09472	0.1906:0.5843:0.0:0.225	.	28	P20231	TRYB2_HUMAN	Q	28	ENSP00000412409:R28Q	ENSP00000412409:R28Q	R	-	2	0	TPSB2	1219718	0.000000	0.05858	0.001000	0.08648	0.005000	0.04900	-0.308000	0.08156	0.286000	0.22352	0.462000	0.41574	CGA		0.711	TPSB2-002	KNOWN	basic	processed_transcript	polymorphic_pseudogene	OTTHUMT00000342364.1	NM_024164		T	1279717	C	T	1279717	1	4	681	0	1	0	0	0	0	0	0	0	16436	884	31	1		1	TPSB2	16	1279717	RNA	SNP	C	TCGA-KO-8410-01A-11D-2310-10	3	1279717	89075036	60	44137	459	4								
ZNF668	79759	ucsc.edu	37	chr16	31072996	31072996	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	cagggggcacacccgcggccTcactgcttcgatgggtccgc	14	16	1	0			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr16:31072996T>C	ENST00000538906.1	-	3	2037	c.1253A>G	c.(1252-1254)gAg>gGg	p.E418G	ZNF668_ENST00000394983.2_Missense_Mutation_p.E418G|ZNF668_ENST00000539836.3_Missense_Mutation_p.E441G|ZNF668_ENST00000417110.2_Missense_Mutation_p.S62P|ZNF668_ENST00000300849.4_Missense_Mutation_p.E418G|ZNF668_ENST00000426488.2_Missense_Mutation_p.E441G|ZNF668_ENST00000535577.1_Missense_Mutation_p.E418G|ZNF668_ENST00000564456.1_5'Flank	NM_001172668.1	NP_001166139	Q96K58	ZN668_HUMAN	zinc finger protein 668	418					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(6)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(3)|lung(9)|ovary(1)|prostate(1)|urinary_tract(1)	27						ACCCGCGGCCTCACTGCTTCG	0.682																																					Colon(181;1111 1980 5060 10512 25785)											0													64	71	68					16																	31072996		2197	4300	6497	SO:0001583	missense	79759				CCDS10701.1, CCDS54003.1	16p11.2	2013-01-08			ENSG00000167394	ENSG00000167394		"Zinc fingers, C2H2-type"	25821	protein-coding gene	gene with protein product						12477932	Standard	NM_024706		Approved	FLJ13479	uc021tgt.1	Q96K58	OTTHUMG00000047357	ENST00000538906.1:c.1253A>G	16.37:g.31072996T>C	ENSP00000440149:p.Glu418Gly	Somatic		WXS	Illumina HiSeq	Phase_I	C9JHH8|F5H7E7|Q59EV1|Q8N669|Q9H8L4	Missense_Mutation	SNP	ENST00000538906.1	37	CCDS10701.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	13.15|13.15	2.150724|2.150724	0.37923|0.37923	.|.	.|.	ENSG00000167394|ENSG00000232748	ENST00000539836;ENST00000535577;ENST00000538906;ENST00000394983;ENST00000300849|ENST00000417110	T;T;T;T;T|.	0.08282|.	3.11;3.11;3.11;3.11;3.11|.	4.84|4.84	4.84|4.84	0.62591|0.62591	Zinc finger, C2H2 (1);|.	0.349788|.	0.28465|.	N|.	0.015244|.	T|T	0.39860|0.39860	0.1094|0.1094	N|N	0.08118|0.08118	0|0	0.39968|0.39968	D|D	0.974752|0.974752	B|.	0.29716|.	0.255|.	B|.	0.23852|.	0.049|.	T|T	0.50508|0.50508	-0.8820|-0.8820	10|6	0.72032|0.87932	D|D	0.01|0	-28.8773|-28.8773	10.7371|10.7371	0.46130|0.46130	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	418|.	Q96K58|.	ZN668_HUMAN|.	G|P	441;418;418;418;418|62	ENSP00000442573:E441G;ENSP00000441349:E418G;ENSP00000440149:E418G;ENSP00000378434:E418G;ENSP00000300849:E418G|.	ENSP00000300849:E418G|ENSP00000391989:S62P	E|S	-|+	2|1	0|0	ZNF668|AC135050.1	30980497|30980497	0.003000|0.003000	0.15002|0.15002	1.000000|1.000000	0.80357|0.80357	0.698000|0.698000	0.40448|0.40448	-1.098000|-1.098000	0.03346|0.03346	2.048000|2.048000	0.60808|0.60808	0.379000|0.379000	0.24179|0.24179	GAG|TCA		0.682	ZNF668-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000108516.2	NM_024706		C	31072996	T	C	31072996	3	2	681	1	0	0	0	0	1	0	0	0	18087	1551	54	3	610	3	ZNF668	16	31072996	Missense_Mutation	SNP	T	TCGA-KO-8410-01A-11D-2310-10	29793279	31072996	59281757	61	44138										
COPS3	8533	ucsc.edu	37	chr17	17184462	17184462	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ttaccttgagctgagagctgTcggacactgttcacgaactg	11	10	1	2			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr17:17184462T>C	ENST00000268717.5	-	1	145	c.39A>G	c.(37-39)cgA>cgG	p.R13R	COPS3_ENST00000439936.2_5'Flank|COPS3_ENST00000539941.2_5'Flank	NM_003653.3	NP_003644.2	Q9UNS2	CSN3_HUMAN	COP9 signalosome subunit 3	13					cullin deneddylation (GO:0010388)|in utero embryonic development (GO:0001701)|response to light stimulus (GO:0009416)|signal transduction (GO:0007165)	COP9 signalosome (GO:0008180)|cytoplasm (GO:0005737)				NS(1)|large_intestine(3)|lung(6)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	13						CTGAGAGCTGTCGGACACTGT	0.692																																																0													38	36	37					17																	17184462		2201	4299	6500	SO:0001819	synonymous_variant	8533			AF031647	CCDS11183.1, CCDS56022.1	17p11.2	2013-03-14	2013-03-14		ENSG00000141030	ENSG00000141030			2239	protein-coding gene	gene with protein product		604665	"COP9 (constitutive photomorphogenic, Arabidopsis, homolog) subunit 3", "COP9 constitutive photomorphogenic homolog subunit 3 (Arabidopsis)"			9535219, 10191102	Standard	NM_003653		Approved	SGN3, CSN3	uc002grd.3	Q9UNS2	OTTHUMG00000059281	ENST00000268717.5:c.39A>G	17.37:g.17184462T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R683|B4DY81|O43191|Q7LDR6	Silent	SNP	ENST00000268717.5	37	CCDS11183.1																																																																																				0.692	COPS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131603.2			C	17184462	T	C	17184462	2	2	681	1	0	0	0	0	0	0	0	1	3736	1654	58	3		3	COPS3	17	17184462	Silent	SNP	T	TCGA-KO-8410-01A-11D-2310-10		17184462	64010748	62	44139										
MUC16	94025	mdanderson.org	37	chr19	8999414	8999414	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ttgacatagagactgtccctGtccagggtgtaggggcccag	14	10	0	2			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr19:8999414G>A	ENST00000397910.4	-	56	40964	c.40761C>T	c.(40759-40761)gaC>gaT	p.D13587D	MUC16_ENST00000380951.5_Silent_p.D228D	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13589	SEA 10. {ECO:0000255|PROSITE- ProRule:PRU00188}.			Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						GACTGTCCCTGTCCAGGGTGT	0.577																																																0													246	205	218					19																	8999414		2073	4216	6289	SO:0001819	synonymous_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.40761C>T	19.37:g.8999414G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Silent	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	.	2.942	-0.218576	0.06101	.	.	ENSG00000181143	ENST00000542240	.	.	.	3.48	2.44	0.29823	.	.	.	.	.	T	0.39200	0.1069	.	.	.	.	.	.	.	.	.	.	.	.	T	0.45056	-0.9287	3	.	.	.	.	6.0455	0.19758	0.1431:0.0:0.8569:0.0	.	.	.	.	I	427	.	.	T	-	2	0	MUC16	8860414	0.000000	0.05858	0.844000	0.33320	0.437000	0.31866	-0.585000	0.05794	1.967000	0.57214	0.555000	0.69702	ACA		0.577	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		A	8999414	G	A	8999414	2	1	681	1	0	0	0	0	0	0	0	1	9980	1368	48	2		2	MUC16	19	8999414	Silent	SNP	G	TCGA-KO-8410-01A-11D-2310-10		8999414	50129569	63	44140										
ZNF575	284346	ucsc.edu	37	chr19	44039421	44039421	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ctcctacccctccaagctggCagcccaccgcctcacgcaca	6	22	1	0			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr19:44039421C>T	ENST00000314228.5	+	4	832	c.320C>T	c.(319-321)gCa>gTa	p.A107V	ZNF575_ENST00000458714.2_Missense_Mutation_p.A206V|ZNF575_ENST00000601282.1_Missense_Mutation_p.A107V	NM_174945.2	NP_777605.1	Q86XF7	ZN575_HUMAN	zinc finger protein 575	107					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			large_intestine(1)|lung(1)|prostate(1)|urinary_tract(1)	4		Prostate(69;0.0199)				TCCAAGCTGGCAGCCCACCGC	0.706																																																0													32	29	30					19																	44039421		2203	4298	6501	SO:0001583	missense	284346			BC043611	CCDS12623.1	19q13.31	2013-09-20			ENSG00000176472	ENSG00000176472		"Zinc fingers, C2H2-type"	27606	protein-coding gene	gene with protein product							Standard	NM_174945		Approved	FLJ32567	uc002ows.3	Q86XF7	OTTHUMG00000182698	ENST00000314228.5:c.320C>T	19.37:g.44039421C>T	ENSP00000315870:p.Ala107Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DX54	Missense_Mutation	SNP	ENST00000314228.5	37	CCDS12623.1	.	.	.	.	.	.	.	.	.	.	C	16.73	3.204548	0.58234	.	.	ENSG00000176472	ENST00000458714;ENST00000314228	T;T	0.16897	2.31;2.31	4.28	4.28	0.50868	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.43747	D	0.000534	T	0.18215	0.0437	N	0.16066	0.365	0.20074	N	0.999934	P;D	0.57257	0.901;0.979	P;P	0.58391	0.702;0.838	T	0.07462	-1.0771	10	0.33141	T	0.24	-9.5726	10.7008	0.45926	0.0:0.8056:0.1944:0.0	.	107;206	Q86XF7;B3KQ07	ZN575_HUMAN;.	V	206;107	ENSP00000413956:A206V;ENSP00000315870:A107V	ENSP00000315870:A107V	A	+	2	0	ZNF575	48731261	0.000000	0.05858	0.997000	0.53966	0.991000	0.79684	-0.915000	0.04033	2.119000	0.64992	0.650000	0.86243	GCA		0.706	ZNF575-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463191.1	NM_174945		T	44039421	C	T	44039421	3	4	681	1	0	0	0	0	1	0	0	0	18019	710	25	2	326	2	ZNF575	19	44039421	Missense_Mutation	SNP	C	TCGA-KO-8410-01A-11D-2310-10	35040007	44039421	15089562	64	44141										
ZNF224	7767	broad.mit.edu	37	chr19	44611929	44611929	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	ggtccacacaggagagagacCatacaattgtaaggaatgtg	12	7	0	2			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr19:44611929C>T	ENST00000336976.6	+	6	1870	c.1616C>T	c.(1615-1617)cCa>cTa	p.P539L	AC084219.4_ENST00000592946.1_RNA	NM_013398.2	NP_037530.2	Q9NZL3	ZN224_HUMAN	zinc finger protein 224	539					negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nuclear membrane (GO:0031965)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(2)|ovary(2)|prostate(1)|stomach(2)|urinary_tract(1)	19		Prostate(69;0.0435)				GGAGAGAGACCATACAATTGT	0.428																																																0													104	98	100					19																	44611929		2203	4300	6503	SO:0001583	missense	7767			AF187990	CCDS33046.1	19q13.2	2013-01-08	2004-02-13			ENSG00000267680		"Zinc fingers, C2H2-type", "-"	13017	protein-coding gene	gene with protein product		194555	"zinc finger protein 255", "zinc finger protein 27"	ZNF255, ZNF27			Standard	NM_013398		Approved	BMZF-2, KOX22	uc002oyh.2	Q9NZL3		ENST00000336976.6:c.1616C>T	19.37:g.44611929C>T	ENSP00000337368:p.Pro539Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFW9|P17033|Q86V10|Q8IZC8|Q9UID9|Q9Y2P6	Missense_Mutation	SNP	ENST00000336976.6	37	CCDS33046.1	.	.	.	.	.	.	.	.	.	.	c	16.08	3.021545	0.54576	.	.	ENSG00000186019	ENST00000336976	T	0.27557	1.66	2.69	2.69	0.31865	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.35537	0.0935	M	0.73372	2.23	0.24003	N	0.996201	P	0.40302	0.712	B	0.39562	0.303	T	0.31052	-0.9957	9	0.87932	D	0	.	12.522	0.56065	0.0:1.0:0.0:0.0	.	539	Q9NZL3	ZN224_HUMAN	L	539	ENSP00000337368:P539L	ENSP00000337368:P539L	P	+	2	0	ZNF224	49303769	0.011000	0.17503	0.121000	0.21740	0.329000	0.28539	1.539000	0.36104	1.496000	0.48567	0.591000	0.81541	CCA		0.428	ZNF224-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460477.1	NM_013398		T	44611929	C	T	44611929	3	4	681	1	0	0	0	0	1	0	0	0	17790	594	21	2	1630	2	ZNF224	19	44611929	Missense_Mutation	SNP	C	TCGA-KO-8410-01A-11D-2310-10	572508	44611929	14517054	65	44142										
ZNF285	26974	mdanderson.org	37	chr19	44891010	44891010	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	tgtgaagaacagagctatacGcaaaatcctttccacacaca	6	11	0	3	rs150792548	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr19:44891010G>C	ENST00000330997.4	-	4	1461	c.1397C>G	c.(1396-1398)gCg>gGg	p.A466G	CTC-512J12.6_ENST00000588212.1_Intron|ZNF285_ENST00000591679.1_Missense_Mutation_p.A473G|ZNF285_ENST00000544719.2_Missense_Mutation_p.A466G	NM_152354.3	NP_689567.3	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	466					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)	p.A466G(1)		breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(15)|ovary(2)|prostate(5)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(2)	44						AGAGCTATACGCAAAATCCTT	0.418																																																1	Substitution - Missense(1)	skin(1)											83	84	83					19																	44891010		2203	4300	6503	SO:0001583	missense	26974			AK055309	CCDS12638.1, CCDS74389.1	19q13.32	2013-01-08	2010-04-14	2010-04-14		ENSG00000267508		"Zinc fingers, C2H2-type", "-"	13079	protein-coding gene	gene with protein product			"zinc finger protein 285A"	ZNF285A			Standard	XM_005258734		Approved			Q96NJ3	OTTHUMG00000178848	ENST00000330997.4:c.1397C>G	19.37:g.44891010G>C	ENSP00000333595:p.Ala466Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RJ3|Q6B0A8|Q6ISR5	Missense_Mutation	SNP	ENST00000330997.4	37	CCDS12638.1	.	.	.	.	.	.	.	.	.	.	G	9.126	1.010205	0.19277	.	.	ENSG00000062370	ENST00000544719;ENST00000330997	T	0.08008	3.14	3.46	0.829	0.18847	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.08714	0.0216	L	0.45744	1.44	0.09310	N	1	B;B	0.34399	0.452;0.0	B;B	0.36666	0.23;0.001	T	0.29488	-1.0010	9	0.56958	D	0.05	.	6.4144	0.21708	0.1094:0.3586:0.532:0.0	.	490;466	B7ZLR9;Q96NJ3	.;ZN285_HUMAN	G	489;466	ENSP00000333595:A466G	ENSP00000333595:A466G	A	-	2	0	ZNF285	49582850	0.000000	0.05858	0.002000	0.10522	0.860000	0.49131	-6.159000	0.00078	0.511000	0.28236	0.298000	0.19748	GCG		0.418	ZNF285-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443600.1	NM_152354		C	44891010	G	C	44891010	3	2	681	1	0	0	0	0	1	0	0	0	17834	1087	38	4	379	4	ZNF285	19	44891010	Missense_Mutation	SNP	G	TCGA-KO-8410-01A-11D-2310-10	279081	44891010	14237973	66	44143										
VN1R4	317703	mdanderson.org	37	chr19	53770838	53770838	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	cagtaaaaggagagataatgGagaagaacagagaagctccc	12	6	0	4	rs201450916	byFrequency	TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr19:53770838G>A	ENST00000311170.4	-	1	134	c.81C>T	c.(79-81)ctC>ctT	p.L27L	CTD-2245F17.9_ENST00000599803.1_lincRNA	NM_173857.2	NP_776256.2	Q7Z5H5	VN1R4_HUMAN	vomeronasal 1 receptor 4	27					response to pheromone (GO:0019236)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	pheromone receptor activity (GO:0016503)			central_nervous_system(1)|large_intestine(4)|lung(10)|ovary(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	22				GBM - Glioblastoma multiforme(134;0.00294)		AGAGATAATGGAGAAGAACAG	0.493										HNSCC(26;0.072)			G|||	13	0.00259585	0.0	0.0	5008	,	,		19592	0.0129		0.0	False		,,,				2504	0.0															0													56	61	59					19																	53770838		2203	4300	6503	SO:0001819	synonymous_variant	317703			AY114733	CCDS33099.1	19q13.42	2012-08-22			ENSG00000228567	ENSG00000228567		"Vomeronasal receptors / Type 1", "GPCR / Unclassified : Vomeronasal receptors, type 1"	19871	protein-coding gene	gene with protein product						12123587	Standard	NM_173857		Approved	V1RL4	uc010ydu.2	Q7Z5H5		ENST00000311170.4:c.81C>T	19.37:g.53770838G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3E2|Q7Z5H6|Q7Z5H7|Q8TDU2	Silent	SNP	ENST00000311170.4	37	CCDS33099.1																																																																																				0.493	VN1R4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464287.1	NM_173857		A	53770838	G	A	53770838	2	1	681	1	0	0	0	0	0	0	0	1	17192	1161	41	2		2	VN1R4	19	53770838	Silent	SNP	G	TCGA-KO-8410-01A-11D-2310-10	8879828	53770838	5358145	67	44144										
C20orf152	140894	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr20	34611599	34611599	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	tgatgagcctgggaaatgagTtgatacggataaggaaggaa	15	3	0	4			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr20:34611599T>A	ENST00000373973.3	+	11	1518	c.1345T>A	c.(1345-1347)Ttg>Atg	p.L449M	CNBD2_ENST00000538900.1_Intron|CNBD2_ENST00000349339.1_Missense_Mutation_p.L445M			Q96M20	CNBD2_HUMAN	cyclic nucleotide binding domain containing 2	449																	GGGAAATGAGTTGATACGGAT	0.438																																																0													116	113	114					20																	34611599		2203	4300	6503	SO:0001583	missense	140894			AL359828	CCDS13270.1, CCDS56189.1	20q11.23	2012-11-15	2012-11-15	2012-11-15	ENSG00000149646	ENSG00000149646			16145	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 152", "cyclic nucleotide (cNMP) binding domain containing 1"	C20orf152, CNMPD1		11780052	Standard	NM_080834		Approved	dJ954P9.1	uc002xer.1	Q96M20	OTTHUMG00000032371	ENST00000373973.3:c.1345T>A	20.37:g.34611599T>A	ENSP00000363084:p.Leu449Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q14C79|Q5JWY7|Q5T3S1|Q9BR36|Q9BWY5	Missense_Mutation	SNP	ENST00000373973.3	37		.	.	.	.	.	.	.	.	.	.	T	5.565	0.289134	0.10513	.	.	ENSG00000149646	ENST00000373973;ENST00000349339	T;T	0.55760	0.5;0.5	4.83	-2.93	0.05598	.	0.416111	0.21671	N	0.070873	T	0.22437	0.0541	N	0.03608	-0.345	0.80722	D	1	B	0.15473	0.013	B	0.18561	0.022	T	0.01266	-1.1401	10	0.46703	T	0.11	-6.2142	6.1413	0.20261	0.1648:0.0:0.2538:0.5814	.	445	Q96M20-2	.	M	449;445	ENSP00000363084:L449M;ENSP00000340954:L445M	ENSP00000340954:L445M	L	+	1	2	C20orf152	34075013	0.188000	0.23250	0.913000	0.36048	0.023000	0.10783	-1.726000	0.01861	-0.599000	0.05798	-2.316000	0.00254	TTG		0.438	CNBD2-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000078960.2	NM_080834		A	34611599	T	A	34611599	3	1	681	1	0	0	0	0	1	0	0	0	2094	1722	60	5	1375	5	C20orf152	20	34611599	Missense_Mutation	SNP	T	TCGA-KO-8410-01A-11D-2310-10		34611599	28413921	68	44145										
SERINC3	10955	broad.mit.edu;mdanderson.org	37	chr20	43129733	43129733	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	cctgtaccagctggtcagggTcatcatgatgtacaaggaag	12	9	3	1			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr20:43129733T>C	ENST00000342374.4	-	9	1421	c.1264A>G	c.(1264-1266)Acc>Gcc	p.T422A	SERINC3_ENST00000255175.1_Missense_Mutation_p.T422A|SERINC3_ENST00000541235.1_Missense_Mutation_p.T367A	NM_006811.2	NP_006802.1	Q13530	SERC3_HUMAN	serine incorporator 3	422					phosphatidylserine metabolic process (GO:0006658)|positive regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway (GO:1902237)|sphingolipid metabolic process (GO:0006665)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	L-serine transmembrane transporter activity (GO:0015194)			endometrium(4)|large_intestine(2)|lung(8)|skin(3)|urinary_tract(1)	18		Myeloproliferative disorder(115;0.0122)	Colorectal(3;0.000291)|COAD - Colon adenocarcinoma(18;0.00189)			CTGGTCAGGGTCATCATGATG	0.493																																																0													115	105	109					20																	43129733		2203	4300	6503	SO:0001583	missense	10955			U49188	CCDS13333.1	20q13.12	2008-05-14	2005-11-15	2005-11-15	ENSG00000132824	ENSG00000132824			11699	protein-coding gene	gene with protein product		607165	"tumor differentially expressed 1"	TDE1		10559794	Standard	NM_006811		Approved	DIFF33, TDE, SBBI99, TMS-1, AIGP1	uc002xme.3	Q13530	OTTHUMG00000033087	ENST00000342374.4:c.1264A>G	20.37:g.43129733T>C	ENSP00000340243:p.Thr422Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4DUE9|O43717|Q9BR33	Missense_Mutation	SNP	ENST00000342374.4	37	CCDS13333.1	.	.	.	.	.	.	.	.	.	.	T	20.5	3.995964	0.74703	.	.	ENSG00000132824	ENST00000411544;ENST00000255175;ENST00000342374;ENST00000538937;ENST00000541235	T;T;T;T	0.16324	2.35;2.35;2.35;2.35	5.3	4.2	0.49525	.	0.044662	0.85682	D	0.000000	T	0.48132	0.1483	M	0.93808	3.46	0.80722	D	1	B;P	0.48834	0.291;0.916	P;D	0.64237	0.491;0.923	T	0.55496	-0.8132	10	0.52906	T	0.07	-20.6231	10.9707	0.47438	0.0:0.0729:0.0:0.9271	.	422;422	Q53GK8;Q13530	.;SERC3_HUMAN	A	161;422;422;389;367	ENSP00000414197:T161A;ENSP00000255175:T422A;ENSP00000340243:T422A;ENSP00000440966:T367A	ENSP00000255175:T422A	T	-	1	0	SERINC3	42563147	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	7.746000	0.85057	1.038000	0.40049	0.460000	0.39030	ACC		0.493	SERINC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080544.3	NM_006811		C	43129733	T	C	43129733	3	2	681	1	0	0	0	0	1	0	0	0	14094	1667	58	3	165	3	SERINC3	20	43129733	Missense_Mutation	SNP	T	TCGA-KO-8410-01A-11D-2310-10	8518134	43129733	19895787	69	44146										
DSCAM	1826	broad.mit.edu;mdanderson.org	37	chr21	41384994	41384994	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	taagattttgcgtaaggattGtttcctttcaaatggccccg	9	8	1	1			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr21:41384994G>A	ENST00000400454.1	-	33	6483	c.6006C>T	c.(6004-6006)aaC>aaT	p.N2002N		NM_001271534.1|NM_001389.3	NP_001258463.1|NP_001380.2	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule	2002				HRPGDLIHLPPYLRMDFLLNRGGPGTSRDLSLGQACLEPQK SRTLKRPTVLEPIPMEAASSASSTREGQSWQPGAVATLPQR EGAELGQAAKMSSSQESLLDSRGHLKGNNPYAKSYTLV -> IGQVTSYICLHTLEWTFC (in Ref. 1; AAC17966). {ECO:0000305}.	cell adhesion (GO:0007155)|dendrite morphogenesis (GO:0048813)|dendrite self-avoidance (GO:0070593)|locomotory behavior (GO:0007626)|negative regulation of cell adhesion (GO:0007162)|nervous system development (GO:0007399)|positive regulation of axon extension involved in axon guidance (GO:0048842)|positive regulation of phosphorylation (GO:0042327)|post-embryonic retina morphogenesis in camera-type eye (GO:0060060)	axon (GO:0030424)|extracellular region (GO:0005576)|growth cone (GO:0030426)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)				NS(2)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(22)|haematopoietic_and_lymphoid_tissue(4)|kidney(6)|large_intestine(22)|lung(47)|ovary(7)|pancreas(2)|prostate(3)|skin(14)|upper_aerodigestive_tract(6)|urinary_tract(4)	142		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CGTAAGGATTGTTTCCTTTCA	0.463																																					Melanoma(134;970 1778 1785 21664 32388)											0													66	65	66					21																	41384994		1892	4127	6019	SO:0001819	synonymous_variant	1826			AF023449	CCDS42929.1	21q22.2-q22.3	2013-02-11			ENSG00000171587	ENSG00000171587		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	3039	protein-coding gene	gene with protein product		602523				9426258	Standard	NM_001271534		Approved	CHD2-42, CHD2-52	uc002yyq.1	O60469	OTTHUMG00000086732	ENST00000400454.1:c.6006C>T	21.37:g.41384994G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60468	Silent	SNP	ENST00000400454.1	37	CCDS42929.1																																																																																				0.463	DSCAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195029.1	NM_001389		A	41384994	G	A	41384994	2	1	681	1	0	0	0	0	0	0	0	1	4770	1368	48	2		2	DSCAM	21	41384994	Silent	SNP	G	TCGA-KO-8410-01A-11D-2310-10		41384994	6744901	70	44147										
MTMR3	8897	ucsc.edu	37	chr22	30418651	30418651	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	cactgctatgcgtgcgacagTgccttctggcttgccagcag	12	13	1	0			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chr22:30418651T>C	ENST00000401950.2	+	19	3732	c.3390T>C	c.(3388-3390)agT>agC	p.S1130S	MTMR3_ENST00000333027.3_Silent_p.S1093S|MTMR3_ENST00000323630.5_Silent_p.S994S|CTA-85E5.10_ENST00000453743.2_RNA|MTMR3_ENST00000406629.1_Silent_p.S1093S|CTA-85E5.10_ENST00000429350.1_RNA|MTMR3_ENST00000351488.3_Silent_p.S1093S	NM_021090.3	NP_066576.1	Q13615	MTMR3_HUMAN	myotubularin related protein 3	1130					peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phospholipid metabolic process (GO:0006644)|protein dephosphorylation (GO:0006470)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extrinsic component of membrane (GO:0019898)|membrane (GO:0016020)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|phosphatidylinositol-3,5-bisphosphate 3-phosphatase activity (GO:0052629)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)			breast(3)|large_intestine(3)|ovary(2)|skin(8)|upper_aerodigestive_tract(1)	17			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			CGTGCGACAGTGCCTTCTGGC	0.607																																																0													77	58	65					22																	30418651		2203	4300	6503	SO:0001819	synonymous_variant	8897			U58034	CCDS13870.1, CCDS13871.1, CCDS46682.1	22q12.2	2011-06-09			ENSG00000100330	ENSG00000100330		"Zinc fingers, FYVE domain containing", "Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	7451	protein-coding gene	gene with protein product		603558				8640223, 9736772	Standard	NM_153050		Approved	KIAA0371, ZFYVE10, FYVE-DSP1	uc003agv.4	Q13615	OTTHUMG00000151278	ENST00000401950.2:c.3390T>C	22.37:g.30418651T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A5PL26|A7MD32|Q9NYN5|Q9NYN6|Q9UDX6|Q9UEG3	Silent	SNP	ENST00000401950.2	37	CCDS13870.1																																																																																				0.607	MTMR3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000322066.1	NM_021090		C	30418651	T	C	30418651	2	2	681	1	0	0	0	0	0	0	0	1	9952	1693	59	3		3	MTMR3	22	30418651	Silent	SNP	T	TCGA-KO-8410-01A-11D-2310-10		30418651	20885915	71	44148										
BRWD3	254065	broad.mit.edu	37	chrX	79989615	79989615	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	accgtttctgattttctcttAccgtatgtgactctaattca	5	10	4	2			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chrX:79989615A>G	ENST00000373275.4	-	11	1303		c.e11+1			NM_153252.4	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3						cytoskeleton organization (GO:0007010)|regulation of cell shape (GO:0008360)					breast(4)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(18)|lung(39)|ovary(4)|prostate(2)|skin(3)	87						ATTTTCTCTTACCGTATGTGA	0.333																																																0													110	100	103					X																	79989615		2203	4296	6499	SO:0001630	splice_region_variant	254065				CCDS14447.1	Xq21.1	2013-01-09			ENSG00000165288	ENSG00000165288		"WD repeat domain containing"	17342	protein-coding gene	gene with protein product		300553				15543602, 16094372	Standard	NM_153252		Approved	FLJ38568, MRX93	uc004edt.3	Q6RI45	OTTHUMG00000021908	ENST00000373275.4:c.1086+1T>C	X.37:g.79989615A>G		Somatic		WXS	Illumina HiSeq	Phase_I	C9IZ39|C9J3F3|Q2T9J6|Q5JRN1|Q6RI37|Q6RI42|Q6RI44|Q8N916	Splice_Site	SNP	ENST00000373275.4	37	CCDS14447.1	.	.	.	.	.	.	.	.	.	.	A	18.83	3.707187	0.68615	.	.	ENSG00000165288	ENST00000373275	.	.	.	5.23	5.23	0.72850	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.2102	0.65759	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	BRWD3	79876271	1.000000	0.71417	1.000000	0.80357	0.974000	0.67602	8.672000	0.91181	1.932000	0.55993	0.441000	0.28932	.		0.333	BRWD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057344.1	NM_153252	Intron	G	79989615	A	G	79989615	5	3	681	1	0	0	0	0	0	0	1	0	1528	405	14	3	4444	3	BRWD3	23	79989615	Splice_Site	SNP	A	TCGA-KO-8410-01A-11D-2310-10		79989615	75280945	72	44149										
CXorf48	54967	broad.mit.edu;mdanderson.org	37	chrX	134294442	134294442	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	actctggttcctgagtctgaGggtccagcaccataaagatg	11	10	2	3			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chrX:134294442G>A	ENST00000276241.6	-	3	544	c.318C>T	c.(316-318)ccC>ccT	p.P106P	CXorf48_ENST00000344129.2_Silent_p.P106P	NM_001031705.2	NP_001026875.1	Q8WUE5	CT55_HUMAN		106										endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|lung(3)	5	Acute lymphoblastic leukemia(192;0.000127)					CTGAGTCTGAGGGTCCAGCAC	0.328																																																0													38	36	37					X																	134294442		2203	4298	6501	SO:0001819	synonymous_variant	54967																														ENST00000276241.6:c.318C>T	X.37:g.134294442G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NWY8	Silent	SNP	ENST00000276241.6	37	CCDS35400.1																																																																																				0.328	CXorf48-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058404.1			A	134294442	G	A	134294442	2	1	681	1	0	0	0	0	0	0	0	1	4113	987	35	2		2	CXorf48	23	134294442	Silent	SNP	G	TCGA-KO-8410-01A-11D-2310-10	54304827	134294442	20976118	73	44150										
BRCC3	79184	broad.mit.edu	37	chrX	154344462	154344462	+	Splice_Site	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0147058823529412	1	1	0.262906119194738	1.52485549132948	0	1	1	0	atgcgtataggaggatccacAggtagagaccctcttcactc	10	11	2	1			TCGA-KO-8410-01A-11D-2310-10	TCGA-KO-8410-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	798bd17b-69b7-40d7-92ff-7c2389edcccf	01229abb-7ade-4ab4-be30-3406270b8e6d	g.chrX:154344462A>T	ENST00000369462.1	+	9	779	c.754A>T	c.(754-756)Agc>Tgc	p.S252C	BRCC3_ENST00000399042.1_Splice_Site_p.S252C|BRCC3_ENST00000369459.2_Intron|BRCC3_ENST00000330045.7_Splice_Site_p.S227C|BRCC3_ENST00000340647.4_Splice_Site_p.S228C|MTCP1_ENST00000362018.2_Intron	NM_024332.3	NP_077308.1	P46736	BRCC3_HUMAN	BRCA1/BRCA2-containing complex, subunit 3	252					double-strand break repair (GO:0006302)|G2 DNA damage checkpoint (GO:0031572)|histone H2A K63-linked deubiquitination (GO:0070537)|positive regulation of DNA repair (GO:0045739)|protein K63-linked deubiquitination (GO:0070536)|regulation of catalytic activity (GO:0050790)|response to ionizing radiation (GO:0010212)|response to X-ray (GO:0010165)	BRCA1-A complex (GO:0070531)|BRISC complex (GO:0070552)|nuclear ubiquitin ligase complex (GO:0000152)|nucleus (GO:0005634)|ubiquitin ligase complex (GO:0000151)	enzyme regulator activity (GO:0030234)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)|polyubiquitin binding (GO:0031593)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(1)|lung(7)|ovary(1)|pancreas(1)|skin(1)	22	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)					GAGGATCCACAGGTAGAGACc	0.502																																																0													73	64	67					X																	154344462		1981	4142	6123	SO:0001630	splice_region_variant	79184			X64643	CCDS56610.1, CCDS56611.1, CCDS56612.1	Xq28	2013-05-29	2005-11-21	2005-11-21	ENSG00000185515	ENSG00000185515			24185	protein-coding gene	gene with protein product	"Lys-63-specific deubiquitinase"	300617	"chromosome X open reading frame 53"	CXorf53		1303175, 14636569	Standard	NM_024332		Approved	C6.1A, BRCC36	uc004fna.3	P46736	OTTHUMG00000022658	ENST00000369462.1:c.755+1A>T	X.37:g.154344462A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6QRF8|A6QRF9|A8MUX5|A8MWH0|A9Z1Y0|A9Z1Y5|B1B062|B4DQN7|Q16107|Q53YX5|Q9BTZ6	Missense_Mutation	SNP	ENST00000369462.1	37	CCDS56611.1	.	.	.	.	.	.	.	.	.	.	A	20.2	3.950183	0.73787	.	.	ENSG00000185515	ENST00000340647;ENST00000330045;ENST00000369462;ENST00000399042	T;T;T;T	0.47869	0.85;0.85;0.83;0.83	4.57	4.57	0.56435	.	0.045370	0.85682	D	0.000000	T	0.49932	0.1586	N	0.22421	0.69	0.80722	D	1	D;D	0.71674	0.992;0.998	P;P	0.61201	0.794;0.885	T	0.52631	-0.8550	10	0.52906	T	0.07	-10.0279	12.4562	0.55706	1.0:0.0:0.0:0.0	.	227;252	P46736-2;P46736	.;BRCC3_HUMAN	C	228;227;252;252	ENSP00000344103:S228C;ENSP00000328641:S227C;ENSP00000358474:S252C;ENSP00000381998:S252C	ENSP00000328641:S227C	S	+	1	0	BRCC3	153997656	1.000000	0.71417	1.000000	0.80357	0.928000	0.56348	6.698000	0.74608	1.775000	0.52247	0.481000	0.45027	AGC		0.502	BRCC3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000058788.4	NM_024332	Missense_Mutation	T	154344462	A	T	154344462	5	4	681	1	0	0	0	0	0	0	1	0	1502	202	7	5	788	5	BRCC3	23	154344462	Splice_Site	SNP	A	TCGA-KO-8410-01A-11D-2310-10	20050020	154344462	926098	74	44151										
TTC39A	22996	ucsc.edu	37	chr1	51761772	51761772	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	gaaataattccacttcgtcgTccccgaacggcttgtggtcc	9	13	0	0			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr1:51761772T>C	ENST00000447632.2	-	13	1280	c.1232A>G	c.(1231-1233)gAc>gGc	p.D411G	TTC39A_ENST00000451380.1_Missense_Mutation_p.D375G|TTC39A_ENST00000534098.1_Intron|TTC39A_ENST00000371747.3_Missense_Mutation_p.D410G|TTC39A_ENST00000262675.7_Missense_Mutation_p.D348G|TTC39A_ENST00000413473.2_Missense_Mutation_p.D379G|TTC39A_ENST00000371750.5_Missense_Mutation_p.D376G|TTC39A_ENST00000530004.1_Missense_Mutation_p.D19G			Q5SRH9	TT39A_HUMAN	tetratricopeptide repeat domain 39A	411								p.0?(2)		breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(3)|lung(2)|prostate(2)|skin(3)|urinary_tract(1)	17						CACTTCGTCGTCCCCGAACGG	0.592																																																2	Whole gene deletion(2)	thyroid(1)|central_nervous_system(1)											56	65	62					1																	51761772		2052	4187	6239	SO:0001583	missense	22996			AB007921	CCDS44143.1, CCDS44144.1, CCDS72789.1, CCDS72790.1	1p32.3	2013-01-11	2008-06-23	2008-06-23	ENSG00000085831	ENSG00000085831		"Tetratricopeptide (TTC) repeat domain containing"	18657	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 34"	C1orf34		9455484, 9461476	Standard	XM_005270643		Approved	KIAA0452, DEME-6	uc010onf.2	Q5SRH9	OTTHUMG00000008193	ENST00000447632.2:c.1232A>G	1.37:g.51761772T>C	ENSP00000393952:p.Asp411Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z782|E7EQY9|G3XAF8|O43417|O75040|Q5SRH5|Q5SRH6|Q5SRH7|Q5SRH8|Q5SRI0|Q5SRI1|Q5SRI2|Q5T7S1|Q6PIU8|Q9BT24	Missense_Mutation	SNP	ENST00000447632.2	37		.	.	.	.	.	.	.	.	.	.	T	23.6	4.437380	0.83885	.	.	ENSG00000085831	ENST00000530004;ENST00000447632;ENST00000413473;ENST00000262675;ENST00000451380;ENST00000371750;ENST00000525906;ENST00000371747	T;T;T;T;T;T;T;T	0.47528	0.84;0.84;0.84;0.84;0.84;0.84;0.84;0.84	5.09	5.09	0.68999	.	0.045757	0.85682	D	0.000000	T	0.56949	0.2020	M	0.64404	1.975	0.58432	D	0.999994	P;P;P;P;P;P	0.49862	0.523;0.578;0.929;0.929;0.888;0.913	B;B;P;P;P;P	0.51297	0.236;0.348;0.665;0.665;0.484;0.535	T	0.60495	-0.7252	10	0.52906	T	0.07	-12.7519	14.8601	0.70376	0.0:0.0:0.0:1.0	.	379;375;348;375;411;376	Q5SRH9-4;E7EQY9;D3DQ30;B7Z782;Q5SRH9;G3XAF8	.;.;.;.;TT39A_HUMAN;.	G	19;411;379;348;375;376;19;410	ENSP00000431228:D19G;ENSP00000393952:D411G;ENSP00000406144:D379G;ENSP00000262675:D348G;ENSP00000397207:D375G;ENSP00000360815:D376G;ENSP00000436659:D19G;ENSP00000360812:D410G	ENSP00000262675:D348G	D	-	2	0	TTC39A	51534360	1.000000	0.71417	1.000000	0.80357	0.652000	0.38707	7.601000	0.82783	1.899000	0.54978	0.460000	0.39030	GAC		0.592	TTC39A-004	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000022434.2			C	51761772	T	C	51761772	3	2	682	1	0	0	0	0	1	0	0	0	16719	1667	58	3	633	3	TTC39A	1	51761772	Missense_Mutation	SNP	T	TCGA-KO-8411-01A-11D-2310-10		51761772	197488849	1	44152										
USP24	23358	ucsc.edu	37	chr1	55595207	55595207	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	atttggcacagcttctggccAtgtcatcatcagctgttggc	10	11	4	0			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr1:55595207A>G	ENST00000294383.6	-	32	3577	c.3578T>C	c.(3577-3579)aTg>aCg	p.M1193T	USP24_ENST00000407756.1_Missense_Mutation_p.M1033T	NM_015306.2	NP_056121.2	Q9UPU5	UBP24_HUMAN	ubiquitin specific peptidase 24	1193					ubiquitin-dependent protein catabolic process (GO:0006511)		cysteine-type peptidase activity (GO:0008234)|ubiquitinyl hydrolase activity (GO:0036459)			breast(4)|cervix(1)|endometrium(8)|kidney(13)|large_intestine(7)|lung(16)|ovary(6)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	60						GCTTCTGGCCATGTCATCATC	0.408																																																0													97	96	96					1																	55595207		1909	4128	6037	SO:0001583	missense	23358			AB028980	CCDS44154.1, CCDS44154.2	1p32.3	2008-04-11	2005-08-08		ENSG00000162402	ENSG00000162402		"Ubiquitin-specific peptidases"	12623	protein-coding gene	gene with protein product		610569	"ubiquitin specific protease 24"			12838346	Standard	NM_015306		Approved	KIAA1057	uc021onw.1	Q9UPU5	OTTHUMG00000008135	ENST00000294383.6:c.3578T>C	1.37:g.55595207A>G	ENSP00000294383:p.Met1193Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZSY2|Q8N2Y4|Q9NXD1	Missense_Mutation	SNP	ENST00000294383.6	37	CCDS44154.2	.	.	.	.	.	.	.	.	.	.	A	4.152	0.026554	0.08054	.	.	ENSG00000162402	ENST00000294383;ENST00000407756	T;T	0.02197	4.4;4.42	5.78	4.64	0.57946	.	0.071934	0.85682	D	0.000000	T	0.01765	0.0056	N	0.14661	0.345	0.54753	D	0.999983	B	0.14438	0.01	B	0.13407	0.009	T	0.53844	-0.8381	10	0.12766	T	0.61	.	13.075	0.59081	0.8658:0.1342:0.0:0.0	.	1033	B7WPF4	.	T	1193;1033	ENSP00000294383:M1193T;ENSP00000385700:M1033T	ENSP00000294383:M1193T	M	-	2	0	USP24	55367795	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	8.962000	0.93254	0.988000	0.38734	0.482000	0.46254	ATG		0.408	USP24-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000022275.2			G	55595207	A	G	55595207	3	3	682	1	0	0	0	0	1	0	0	0	17067	217	8	3	4432	3	USP24	1	55595207	Missense_Mutation	SNP	A	TCGA-KO-8411-01A-11D-2310-10	3833435	55595207	193655414	2	44153										
WLS	79971	hgsc.bcm.edu;mdanderson.org	37	chr1	68697908	68697908	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	cccaccagaaaggcgatgatTtggaacacgagcagaatccc	10	12	0	3			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr1:68697908T>C	ENST00000262348.4	-	1	328	c.75A>G	c.(73-75)caA>caG	p.Q25Q	WLS_ENST00000370976.3_Silent_p.Q25Q|WLS_ENST00000540432.1_Silent_p.Q25Q|WLS_ENST00000370971.1_Silent_p.Q25Q|WLS_ENST00000354777.2_Silent_p.Q25Q	NM_024911.6	NP_079187.3	Q5T9L3	WLS_HUMAN	wntless Wnt ligand secretion mediator	25					anterior/posterior axis specification (GO:0009948)|mesoderm formation (GO:0001707)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|Wnt signaling pathway (GO:0016055)	cytoplasmic vesicle (GO:0031410)|early endosome membrane (GO:0031901)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	signal transducer activity (GO:0004871)			breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(1)|lung(4)|prostate(3)|urinary_tract(1)	20						AGGCGATGATTTGGAACACGA	0.498																																																0													174	160	165					1																	68697908		2203	4300	6503	SO:0001819	synonymous_variant	79971			BX538320	CCDS642.1, CCDS30750.1, CCDS53331.1	1p31.2	2013-10-03	2013-10-03	2010-03-02	ENSG00000116729	ENSG00000116729			30238	protein-coding gene	gene with protein product	"wntless homolog"	611514	"chromosome 1 open reading frame 139", "G protein-coupled receptor 177", "wntless homolog (Drosophila)"	C1orf139, GPR177		12761501	Standard	NM_024911		Approved	FLJ23091, MRP, wls, EVI, mig-14	uc001dee.3	Q5T9L3	OTTHUMG00000009153	ENST00000262348.4:c.75A>G	1.37:g.68697908T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RNT2|Q5JRS7|Q7Z2Z9|Q8NC43	Silent	SNP	ENST00000262348.4	37	CCDS642.1	.	.	.	.	.	.	.	.	.	.	t	8.540	0.873082	0.17322	.	.	ENSG00000116729	ENST00000534713	.	.	.	4.72	-2.39	0.06602	.	.	.	.	.	T	0.31327	0.0793	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.31724	-0.9933	4	.	.	.	-17.2091	5.2658	0.15597	0.1197:0.2776:0.0:0.6027	.	.	.	.	R	19	.	.	K	-	2	0	WLS	68470496	0.998000	0.40836	0.279000	0.24732	0.985000	0.73830	0.381000	0.20619	-0.657000	0.05373	0.249000	0.18162	AAA		0.498	WLS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025368.1	NM_024911		C	68697908	T	C	68697908	2	2	682	1	0	0	0	0	0	0	0	1	17388	1838	64	3		3	WLS	1	68697908	Silent	SNP	T	TCGA-KO-8411-01A-11D-2310-10	13102701	68697908	180552713	3	44154										
WNT2B	7482	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr1	113058941	113058941	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	gcagtgacaacatccactacGgtgtccgttttgccaaggcc	10	13	0	1			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr1:113058941G>A	ENST00000369684.4	+	3	1068	c.583G>A	c.(583-585)Ggt>Agt	p.G195S	WNT2B_ENST00000256640.5_Missense_Mutation_p.G103S|WNT2B_ENST00000478360.1_3'UTR|RP4-671G15.2_ENST00000608357.1_RNA|WNT2B_ENST00000369686.5_Missense_Mutation_p.G176S	NM_024494.2	NP_078613.1	Q93097	WNT2B_HUMAN	wingless-type MMTV integration site family, member 2B	195					canonical Wnt signaling pathway (GO:0060070)|cell fate commitment (GO:0045165)|cellular response to starvation (GO:0009267)|chondrocyte differentiation (GO:0002062)|cornea development in camera-type eye (GO:0061303)|forebrain regionalization (GO:0021871)|hematopoietic stem cell proliferation (GO:0071425)|iris morphogenesis (GO:0061072)|lens development in camera-type eye (GO:0002088)|lung induction (GO:0060492)|male gonad development (GO:0008584)|mesenchymal-epithelial cell signaling (GO:0060638)|neuron differentiation (GO:0030182)|positive regulation of branching involved in ureteric bud morphogenesis (GO:0090190)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|Wnt signaling pathway (GO:0016055)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)	frizzled binding (GO:0005109)			breast(2)|central_nervous_system(1)|endometrium(4)|large_intestine(3)|lung(4)|ovary(2)|skin(1)|stomach(1)	18	Lung SC(450;0.246)	all_cancers(81;7.31e-07)|all_epithelial(167;4.59e-06)|all_lung(203;2.56e-05)|Lung NSC(69;4.38e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CATCCACTACGGTGTCCGTTT	0.572																																																0													160	142	148					1																	113058941		2203	4300	6503	SO:0001583	missense	7482			AB045116	CCDS847.1, CCDS846.1	1p13	2008-07-18			ENSG00000134245	ENSG00000134245		"Wingless-type MMTV integration sites"	12781	protein-coding gene	gene with protein product	"XWNT2, Xenopus, homolog of", "wingless-type MMTV integration site family, member 13"	601968		WNT13		8761309, 10944466	Standard	NM_024494		Approved	XWNT2	uc001ecb.3	Q93097	OTTHUMG00000011157	ENST00000369684.4:c.583G>A	1.37:g.113058941G>A	ENSP00000358698:p.Gly195Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O14903|Q5TEH9|Q5TEI2|Q9HDC1|Q9HDC2	Missense_Mutation	SNP	ENST00000369684.4	37	CCDS847.1	.	.	.	.	.	.	.	.	.	.	G	36	5.805918	0.96967	.	.	ENSG00000134245	ENST00000256640;ENST00000369686;ENST00000369684	D;D;D	0.81996	-1.56;-1.56;-1.56	5.63	5.63	0.86233	.	0.000000	0.85682	D	0.000000	D	0.91469	0.7307	M	0.85710	2.77	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.79784	0.954;0.993	D	0.92181	0.5751	10	0.87932	D	0	.	19.2806	0.94051	0.0:0.0:1.0:0.0	.	195;176	Q93097;Q93097-2	WNT2B_HUMAN;.	S	103;176;195	ENSP00000256640:G103S;ENSP00000358700:G176S;ENSP00000358698:G195S	ENSP00000256640:G103S	G	+	1	0	WNT2B	112860464	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	9.869000	0.99810	2.637000	0.89404	0.561000	0.74099	GGT		0.572	WNT2B-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030692.1	NM_004185		A	113058941	G	A	113058941	3	1	682	1	0	0	0	0	1	0	0	0	17399	1116	39	1	726	1	WNT2B	1	113058941	Missense_Mutation	SNP	G	TCGA-KO-8411-01A-11D-2310-10	44361033	113058941	136191680	4	44155										
SLC27A3	11000	mdanderson.org	37	chr1	153748161	153748161	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	cgacccggaaggtcccgaggGgggctgcagcctggcctggc	18	14	0	0	rs34527123|rs587776392	byFrequency	TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr1:153748161G>C	ENST00000368661.3	+	1	394	c.329G>C	c.(328-330)gGg>gCg	p.G110A	SLC27A3_ENST00000484014.1_Intron|SLC27A3_ENST00000271857.2_Missense_Mutation_p.G191A	NM_024330.1	NP_077306.1	Q5K4L6	S27A3_HUMAN	solute carrier family 27 (fatty acid transporter), member 3	110			G -> A (in dbSNP:rs34527123).		fatty acid metabolic process (GO:0006631)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|mitochondrion (GO:0005739)	fatty-acyl-CoA synthase activity (GO:0004321)|ligase activity (GO:0016874)|nucleotide binding (GO:0000166)			NS(1)|endometrium(1)|large_intestine(3)|lung(7)|ovary(1)|prostate(1)	14	all_lung(78;6.47e-32)|Lung NSC(65;2.52e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GGTCCCGAGGGGGGCTGCAGC	0.711													G|||	51	0.0101837	0.0008	0.0173	5008	,	,		13208	0.001		0.0328	False		,,,				2504	0.0041															0								G	ALA/GLY	21,3907		0,21,1943	4	6	5		329	2.8	1	1	dbSNP_126	5	220,7654		2,216,3719	no	missense	SLC27A3	NM_024330.1	60	2,237,5662	CC,CG,GG		2.794,0.5346,2.042	possibly-damaging	110/731	153748161	241,11561	1964	3937	5901	SO:0001583	missense	11000			BC009916	CCDS1053.1	1q21.1	2013-05-22			ENSG00000143554	ENSG00000143554		"Acyl-CoA synthetase family", "Solute carriers"	10997	protein-coding gene	gene with protein product		604193				9671728	Standard	NM_024330		Approved	FATP3, MGC4365, ACSVL3	uc001fcz.3	Q5K4L6	OTTHUMG00000037155	ENST00000368661.3:c.329G>C	1.37:g.153748161G>C	ENSP00000357650:p.Gly110Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUQ7|Q5VUQ8|Q5VUR3|Q6ZV16|Q8N2X7|Q8TEJ0|Q96SW5|Q9BTJ5|Q9BTY5	Missense_Mutation	SNP	ENST00000368661.3	37	CCDS1053.1	40	0.018315018315018316	3	0.006097560975609756	8	0.022099447513812154	1	0.0017482517482517483	28	0.036939313984168866	G	15.58	2.876242	0.51801	0.005346	0.02794	ENSG00000143554	ENST00000271857;ENST00000368661	T;T	0.58210	0.35;0.4	3.71	2.78	0.32641	.	0.562171	0.15028	N	0.284627	T	0.13970	0.0338	N	0.14661	0.345	0.19300	N	0.999971	B	0.02656	0.0	B	0.04013	0.001	T	0.24512	-1.0158	10	0.25751	T	0.34	-2.2657	8.9582	0.35832	0.0:0.2277:0.7723:0.0	rs34527123	110	Q5K4L6	S27A3_HUMAN	A	191;110	ENSP00000271857:G191A;ENSP00000357650:G110A	ENSP00000271857:G191A	G	+	2	0	SLC27A3	152014785	0.535000	0.26370	0.973000	0.42090	0.938000	0.57974	0.716000	0.25836	0.753000	0.32945	0.462000	0.41574	GGG		0.711	SLC27A3-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_024330		C	153748161	G	C	153748161	3	2	682	1	0	0	0	0	1	0	0	0	14540	1232	43	4	331	4	SLC27A3	1	153748161	Missense_Mutation	SNP	G	TCGA-KO-8411-01A-11D-2310-10	40689220	153748161	95502460	5	44156										
C1orf125	126859	mdanderson.org	37	chr1	179504037	179504037	+	Missense_Mutation	SNP	G	G	C													0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	gagaagtaaaagaagaagaaGaacaacaagaagaagaagaa					rs200097954|rs368406759|rs6425573	byFrequency	TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr1:179504037G>C	ENST00000367618.3	+	25	3358	c.2971G>C	c.(2971-2973)Gaa>Caa	p.E991Q		NM_144696.4	NP_653297.3	Q5T1B0	AXDN1_HUMAN	axonemal dynein light chain domain containing 1	991	Glu-rich.		E -> Q (in dbSNP:rs6425573).					p.E991_Q992delEQ(1)		NS(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(27)|ovary(1)|pancreas(1)|prostate(1)|skin(8)|stomach(2)|upper_aerodigestive_tract(2)	59						agaagaagaagaacaacaaga	0.318													G|||	14	0.00279553	0.0	0.0058	5008	,	,		17137	0.002		0.004	False		,,,				2504	0.0041															1	Deletion - In frame(1)	haematopoietic_and_lymphoid_tissue(1)											49	51	50					1																	179504037		2152	4286	6438	SO:0001583	missense	126859			BX647935	CCDS30948.1	1q25.2	2011-02-18	2011-02-18	2011-02-18	ENSG00000162779	ENSG00000162779			26564	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 125"	C1orf125		14702039	Standard	NM_144696		Approved	FLJ32940	uc001gmo.3	Q5T1B0	OTTHUMG00000035266	ENST00000367618.3:c.2971G>C	1.37:g.179504037G>C	ENSP00000356590:p.Glu991Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6AWB2|Q96LJ3|Q96M01	Missense_Mutation	SNP	ENST00000367618.3	37	CCDS30948.1	.	.	.	.	.	.	.	.	.	.	G	9.300	1.052898	0.19907	.	.	ENSG00000162779	ENST00000367618;ENST00000360322;ENST00000434088	T;T	0.19105	2.17;2.17	4.89	-6.02	0.02192	.	0.508747	0.16499	N	0.211773	T	0.08980	0.0222	N	0.24115	0.695	0.09310	N	1	B;B	0.24186	0.099;0.099	B;B	0.10450	0.003;0.005	T	0.15838	-1.0423	10	0.28530	T	0.3	-2.8152	6.1976	0.20557	0.4456:0.3814:0.173:0.0	rs6425573	875;991	E9PCJ4;Q5T1B0	.;AXDN1_HUMAN	Q	991;875;851	ENSP00000356590:E991Q;ENSP00000391716:E851Q	ENSP00000353471:E875Q	E	+	1	0	AXDND1	177770660	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	0.365000	0.20348	-1.164000	0.02790	-1.047000	0.02352	GAA		0.318	AXDND1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085312.1	NM_144696		C	179504037	G	C	179504037	3	2	682	1	0	0	0	0	1	0	0	0	1995	943	33	4	3065	4	C1orf125	1	179504037	Missense_Mutation	SNP	G	TCGA-KO-8411-01A-11D-2310-10	25755876	179504037	69746584	6	44157	460	2								
C1orf125	126859	mdanderson.org	37	chr1	179504040	179504040	+	Missense_Mutation	SNP	C	C	G													0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	aagtaaaagaagaagaagaaCaacaagaagaagaagaagtc					rs200097954|rs368406759|rs79330752	byFrequency	TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr1:179504040C>G	ENST00000367618.3	+	25	3361	c.2974C>G	c.(2974-2976)Caa>Gaa	p.Q992E		NM_144696.4	NP_653297.3	Q5T1B0	AXDN1_HUMAN	axonemal dynein light chain domain containing 1	992	Glu-rich.							p.E991_Q992delEQ(1)		NS(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(27)|ovary(1)|pancreas(1)|prostate(1)|skin(8)|stomach(2)|upper_aerodigestive_tract(2)	59						agaagaagaacaacaagaaga	0.318													c|||	14	0.00279553	0.0	0.0058	5008	,	,		17397	0.002		0.004	False		,,,				2504	0.0041															1	Deletion - In frame(1)	haematopoietic_and_lymphoid_tissue(1)											50	53	52					1																	179504040		2149	4285	6434	SO:0001583	missense	126859			BX647935	CCDS30948.1	1q25.2	2011-02-18	2011-02-18	2011-02-18	ENSG00000162779	ENSG00000162779			26564	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 125"	C1orf125		14702039	Standard	NM_144696		Approved	FLJ32940	uc001gmo.3	Q5T1B0	OTTHUMG00000035266	ENST00000367618.3:c.2974C>G	1.37:g.179504040C>G	ENSP00000356590:p.Gln992Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6AWB2|Q96LJ3|Q96M01	Missense_Mutation	SNP	ENST00000367618.3	37	CCDS30948.1	.	.	.	.	.	.	.	.	.	.	c	0.001	-2.898575	0.00058	.	.	ENSG00000162779	ENST00000367618;ENST00000360322;ENST00000434088	T;T	0.15256	2.44;2.44	2.01	-1.28	0.09318	.	1.561730	0.04078	N	0.309154	T	0.06554	0.0168	N	0.08118	0	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.23904	-1.0175	10	0.02654	T	1	-5.6078	3.1227	0.06397	0.3057:0.2604:0.4339:0.0	.	876;992	E9PCJ4;Q5T1B0	.;AXDN1_HUMAN	E	992;876;852	ENSP00000356590:Q992E;ENSP00000391716:Q852E	ENSP00000353471:Q876E	Q	+	1	0	AXDND1	177770663	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.281000	0.08456	-0.358000	0.08162	-4.192000	0.00009	CAA		0.318	AXDND1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085312.1	NM_144696		G	179504040	C	G	179504040	3	3	682	1	0	0	0	0	1	0	0	0	1995	479	17	4	3068	4	C1orf125	1	179504040	Missense_Mutation	SNP	C	TCGA-KO-8411-01A-11D-2310-10	3	179504040	69746581	7	44158	460	2								
HMCN1	83872	broad.mit.edu;bcgsc.ca	37	chr1	185891568	185891568	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	gcctcagtactattgatttcCgagctggcttttctcgaaag	9	10	2	1			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr1:185891568C>T	ENST00000271588.4	+	7	1187	c.958C>T	c.(958-960)Cga>Tga	p.R320*	HMCN1_ENST00000367492.2_Nonsense_Mutation_p.R320*	NM_031935.2	NP_114141.2	Q96RW7	HMCN1_HUMAN	hemicentin 1	320					response to stimulus (GO:0050896)|visual perception (GO:0007601)	basement membrane (GO:0005604)|cell cortex (GO:0005938)|cell junction (GO:0030054)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)	p.R320*(1)		NS(2)|autonomic_ganglia(1)|breast(10)|central_nervous_system(2)|cervix(1)|endometrium(28)|haematopoietic_and_lymphoid_tissue(4)|kidney(13)|large_intestine(58)|liver(3)|lung(101)|ovary(23)|pancreas(4)|prostate(20)|skin(8)|stomach(1)|upper_aerodigestive_tract(11)|urinary_tract(18)	308						TATTGATTTCCGAGCTGGCTT	0.423																																																1	Substitution - Nonsense(1)	urinary_tract(1)											75	70	71					1																	185891568		2203	4300	6503	SO:0001587	stop_gained	83872			AF156100	CCDS30956.1	1q25.3-q31.1	2013-01-11			ENSG00000143341	ENSG00000143341		"Fibulins", "Immunoglobulin superfamily / I-set domain containing"	19194	protein-coding gene	gene with protein product	"fibulin 6"	608548	"age-related macular degeneration 1 (senile macular degeneration)"	ARMD1		11222143	Standard	NM_031935		Approved	FBLN6, FIBL6, FIBL-6	uc001grq.1	Q96RW7	OTTHUMG00000059337	ENST00000271588.4:c.958C>T	1.37:g.185891568C>T	ENSP00000271588:p.Arg320*	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGE3|Q5TYR7|Q96DN3|Q96DN8|Q96SC3	Nonsense_Mutation	SNP	ENST00000271588.4	37	CCDS30956.1	.	.	.	.	.	.	.	.	.	.	C	40	8.096734	0.98651	.	.	ENSG00000143341	ENST00000271588;ENST00000367492	.	.	.	5.43	4.51	0.55191	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	14.0593	0.64790	0.2741:0.7259:0.0:0.0	.	.	.	.	X	320	.	ENSP00000271588:R320X	R	+	1	2	HMCN1	184158191	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	1.287000	0.33284	1.258000	0.44101	0.655000	0.94253	CGA		0.423	HMCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131848.1	NM_031935		T	185891568	C	T	185891568	4	4	682	1	0	0	0	0	0	1	0	0	7227	644	23	1	984	1	HMCN1	1	185891568	Nonsense_Mutation	SNP	C	TCGA-KO-8411-01A-11D-2310-10	6387528	185891568	63359053	8	44159										
FAM179A	165186	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	29274925	29274925	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	ggtggcccctgacagcaagaCaactggcagctcataccctt	10	14	1	2			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr2:29274925C>T	ENST00000379558.4	+	20	3377	c.3026C>T	c.(3025-3027)aCa>aTa	p.T1009I	FAM179A_ENST00000403861.2_Missense_Mutation_p.T954I|FAM179A_ENST00000465300.1_3'UTR	NM_199280.2	NP_954974.2	Q6ZUX3	F179A_HUMAN	family with sequence similarity 179, member A	1009										breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(5)|lung(9)|ovary(3)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	26						GACAGCAAGACAACTGGCAGC	0.478																																																0													26	28	27					2																	29274925		1907	4123	6030	SO:0001583	missense	165186			AK125239, AK125744	CCDS1769.2	2p23.2	2008-10-30			ENSG00000189350	ENSG00000189350			33715	protein-coding gene	gene with protein product						16344560	Standard	NM_199280		Approved	FLJ43249, LOC165186	uc010ezl.3	Q6ZUX3	OTTHUMG00000128432	ENST00000379558.4:c.3026C>T	2.37:g.29274925C>T	ENSP00000368876:p.Thr1009Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZUF5	Missense_Mutation	SNP	ENST00000379558.4	37	CCDS1769.2	.	.	.	.	.	.	.	.	.	.	C	12.97	2.096144	0.36952	.	.	ENSG00000189350	ENST00000379558;ENST00000403861	T;T	0.09255	3.14;3.0	5.68	1.84	0.25277	.	1.414210	0.04767	N	0.427403	T	0.10508	0.0257	N	0.22421	0.69	0.09310	N	1	P;P	0.49358	0.923;0.766	P;B	0.46110	0.504;0.243	T	0.21793	-1.0235	10	0.54805	T	0.06	.	4.9181	0.13856	0.1464:0.6259:0.0:0.2277	.	954;1009	F8W8E4;Q6ZUX3	.;F179A_HUMAN	I	1009;954	ENSP00000368876:T1009I;ENSP00000384699:T954I	ENSP00000368876:T1009I	T	+	2	0	FAM179A	29128429	0.000000	0.05858	0.000000	0.03702	0.040000	0.13550	0.022000	0.13511	0.064000	0.16427	0.655000	0.94253	ACA		0.478	FAM179A-003	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317848.4	NM_199280		T	29274925	C	T	29274925	3	4	682	1	0	0	0	0	1	0	0	0	5509	478	17	2	3100	2	FAM179A	2	29274925	Missense_Mutation	SNP	C	TCGA-KO-8411-01A-11D-2310-10		29274925	213924448	9	44160										
CTDSPL	10217	ucsc.edu;mdanderson.org	37	chr3	38009346	38009346	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	aatgctgattttattgttccGgttgaaatcgatggaactat	9	5	0	2			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr3:38009346G>A	ENST00000273179.5	+	5	425	c.399G>A	c.(397-399)ccG>ccA	p.P133P	CTDSPL_ENST00000443503.2_Silent_p.P122P|MIR26A1_ENST00000362205.1_RNA|CTDSPL_ENST00000310189.3_3'UTR	NM_001008392.1	NP_001008393.1	O15194	CTDSL_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like	133	FCP1 homology. {ECO:0000255|PROSITE- ProRule:PRU00336}.					extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|phosphoprotein phosphatase activity (GO:0004721)			breast(1)|endometrium(2)|large_intestine(4)|skin(1)	8		Melanoma(1037;0.0122)		KIRC - Kidney renal clear cell carcinoma(284;0.0729)|Kidney(284;0.0902)		TTATTGTTCCGGTTGAAATCG	0.284											OREG0015472	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													63	62	62					3																	38009346		2198	4298	6496	SO:0001819	synonymous_variant	10217			D88153	CCDS33734.1, CCDS33735.1	3p21.3	2010-06-21	2003-10-27	2003-10-29	ENSG00000144677	ENSG00000144677	3.1.3.16	"Serine/threonine phosphatases / CTD aspartate-based phosphatases"	16890	protein-coding gene	gene with protein product	"small CTD phosphatase 3", "HYA22 protein", "RB protein serine phosphatase from chromosome 3"	608592	"chromosome 3 open reading frame 8"	C3orf8		9179494, 12543795	Standard	NM_005808		Approved	HYA22, SCP3, PSR1, RBSP3	uc003chg.3	O15194	OTTHUMG00000155942	ENST00000273179.5:c.399G>A	3.37:g.38009346G>A		Somatic	874	WXS	Illumina HiSeq	Phase_I	Q3ZTU0|Q70KI4|Q7Z5Q2	Silent	SNP	ENST00000273179.5	37	CCDS33734.1	.	.	.	.	.	.	.	.	.	.	G	9.235	1.036705	0.19669	.	.	ENSG00000144677	ENST00000416688	.	.	.	5.25	1.09	0.20402	.	.	.	.	.	T	0.51652	0.1687	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.35351	-0.9792	4	.	.	.	-16.9444	5.6624	0.17676	0.0633:0.1909:0.2146:0.5311	.	.	.	.	S	42	.	.	G	+	1	0	CTDSPL	37984350	0.228000	0.23718	0.996000	0.52242	0.999000	0.98932	-0.451000	0.06795	-0.024000	0.13941	0.655000	0.94253	GGT		0.284	CTDSPL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342392.1	NM_005808		A	38009346	G	A	38009346	2	1	682	1	0	0	0	0	0	0	0	1	4007	1103	39	1		1	CTDSPL	3	38009346	Silent	SNP	G	TCGA-KO-8411-01A-11D-2310-10		38009346	160013084	10	44161										
NKTR	4820	broad.mit.edu	37	chr3	42660605	42660605	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	aaactttatgattcagggtgGggacttcagtgaaggtagag	14	4	2	3			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr3:42660605G>A	ENST00000232978.8	+	4	415	c.227G>A	c.(226-228)gGg>gAg	p.G76E	RP4-613B23.1_ENST00000445452.1_RNA|RP4-613B23.1_ENST00000438017.1_RNA|NKTR_ENST00000442970.1_Missense_Mutation_p.G76E	NM_005385.3	NP_005376.2	P30414	NKTR_HUMAN	natural killer cell triggering receptor	76	PPIase cyclophilin-type. {ECO:0000255|PROSITE-ProRule:PRU00156}.				protein folding (GO:0006457)	membrane (GO:0016020)	cyclosporin A binding (GO:0016018)|peptidyl-prolyl cis-trans isomerase activity (GO:0003755)			breast(3)|central_nervous_system(1)|endometrium(7)|kidney(2)|large_intestine(6)|lung(10)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(4)	41				KIRC - Kidney renal clear cell carcinoma(284;0.24)		ATTCAGGGTGGGGACTTCAGT	0.353																																																0													135	146	142					3																	42660605		2203	4300	6503	SO:0001583	missense	4820				CCDS2702.1	3p22.1	2014-01-20	2014-01-20		ENSG00000114857	ENSG00000114857			7833	protein-coding gene	gene with protein product	"NK-tumor recognition protein", "natural-killer cells cyclophilin-related protein", "NK-TR protein"	161565	"natural killer-tumor recognition sequence"			8314596, 8144875	Standard	XM_005265173		Approved	p104	uc003clo.3	P30414	OTTHUMG00000133037	ENST00000232978.8:c.227G>A	3.37:g.42660605G>A	ENSP00000232978:p.Gly76Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000232978.8	37	CCDS2702.1	.	.	.	.	.	.	.	.	.	.	G	26.2	4.710635	0.89112	.	.	ENSG00000114857	ENST00000232978;ENST00000442970;ENST00000445842	T;T;T	0.67865	-0.29;-0.29;-0.29	4.94	4.94	0.65067	Peptidyl-prolyl cis-trans isomerase, cyclophilin-type (4);Cyclophilin-like (1);Peptidyl-prolyl cis-trans isomerase, cyclophilin-type, conserved site (1);	0.000000	0.85682	D	0.000000	D	0.89955	0.6865	H	0.99286	4.5	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.94345	0.7574	10	0.87932	D	0	-16.2248	18.1303	0.89599	0.0:0.0:1.0:0.0	.	76;76	P30414;A8K7K2	NKTR_HUMAN;.	E	76	ENSP00000232978:G76E;ENSP00000390259:G76E;ENSP00000408660:G76E	ENSP00000232978:G76E	G	+	2	0	NKTR	42635609	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.766000	0.98957	2.460000	0.83146	0.555000	0.69702	GGG		0.353	NKTR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256642.2	NM_005385		A	42660605	G	A	42660605	3	1	682	1	0	0	0	0	1	0	0	0	10455	1232	43	2	237	2	NKTR	3	42660605	Missense_Mutation	SNP	G	TCGA-KO-8411-01A-11D-2310-10	4651259	42660605	155361825	11	44162										
BSN	8927	broad.mit.edu	37	chr3	49689196	49689196	+	Frame_Shift_Del	DEL	A	A	-													0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	cagcatgcggcctttgctgcAggcccagggcctggccccaa							TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr3:49689196delA	ENST00000296452.4	+	5	2321	c.2207delA	c.(2206-2208)cagfs	p.Q736fs		NM_003458.3	NP_003449.2	Q9UPA5	BSN_HUMAN	bassoon presynaptic cytomatrix protein	736					synaptic transmission (GO:0007268)	axon (GO:0030424)|cell junction (GO:0030054)|dendrite (GO:0030425)|neuron projection terminus (GO:0044306)|nucleus (GO:0005634)|presynaptic cytoskeletal matrix assembled at active zones (GO:0048788)	metal ion binding (GO:0046872)			breast(8)|central_nervous_system(2)|cervix(2)|endometrium(16)|kidney(3)|large_intestine(17)|lung(37)|ovary(7)|pancreas(1)|prostate(4)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	106				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CCTTTGCTGCAGGCCCAGGGC	0.662																																																0													40	41	41					3																	49689196		2203	4300	6503	SO:0001589	frameshift_variant	8927			AF052224	CCDS2800.1	3p21	2013-01-07	2013-01-07		ENSG00000164061	ENSG00000164061			1117	protein-coding gene	gene with protein product	"zinc finger protein 231", "neuronal double zinc finger protein"	604020	"bassoon (presynaptic cytomatrix protein)"	ZNF231		9806829, 10329005	Standard	NM_003458		Approved		uc003cxe.4	Q9UPA5	OTTHUMG00000133750	ENST00000296452.4:c.2207delA	3.37:g.49689196delA	ENSP00000296452:p.Gln736fs	Somatic		WXS	Illumina HiSeq	Phase_I	O43161|Q7LGH3	Frame_Shift_Del	DEL	ENST00000296452.4	37	CCDS2800.1																																																																																				0.662	BSN-001	KNOWN	NMD_exception|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000258164.1	NM_003458		-	49689196	A	-	49689196	7	5	682	1	0	1	0	1	0	0	0	0	1532	188	7	0	2225	0	BSN	3	49689196	Frame_Shift_Del	DEL	A	TCGA-KO-8411-01A-11D-2310-10	7028591	49689196	148333234	12	44163										
RAD54L2	23132	broad.mit.edu	37	chr3	51624506	51624508	+	In_Frame_Del	DEL	GAG	GAG	-													0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	tggagctggaggatgcggaaGaggaggaggaggaggaggag							TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr3:51624506_51624508delGAG	ENST00000409535.2	+	2	195_197	c.70_72delGAG	c.(70-72)gagdel	p.E30del		NM_015106.2	NP_055921.2	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2 (S. cerevisiae)	30						nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|transcription cofactor activity (GO:0003712)			NS(2)|breast(1)|cervix(2)|endometrium(4)|large_intestine(5)|liver(2)|lung(9)|ovary(4)|skin(2)	31				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		ggatgcggaagaggaggaggagg	0.586																																																0																																										SO:0001651	inframe_deletion	23132			AB018352	CCDS33765.2	3p21.2	2006-01-17			ENSG00000164080	ENSG00000164080			29123	protein-coding gene	gene with protein product						9872452	Standard	NM_015106		Approved	KIAA0809, SRISNF2L	uc011bdt.2	Q9Y4B4	OTTHUMG00000152936	ENST00000409535.2:c.70_72delGAG	3.37:g.51624515_51624517delGAG	ENSP00000386520:p.Glu30del	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TB57|Q9BV54	In_Frame_Del	DEL	ENST00000409535.2	37	CCDS33765.2																																																																																				0.586	RAD54L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328700.2	NM_015106		-	51624508	GAG	-	51624506	7	5	682	1	0	1	0	1	0	0	0	0	13007	943	33	0	72	0	RAD54L2	3	51624506	In_Frame_Del	DEL	GAG	TCGA-KO-8411-01A-11D-2310-10	1935310	51624506	146397924	13	44164										
OR5H1	26341	mdanderson.org	37	chr3	97851659	97851659	+	Missense_Mutation	SNP	A	A	T													0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	taatatatctcatcaccatcAtggggaatcttggtctgatt					rs199787047	byFrequency	TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr3:97851659A>T	ENST00000354565.2	+	1	118	c.118A>T	c.(118-120)Atg>Ttg	p.M40L	RP11-343D2.11_ENST00000508964.1_RNA	NM_001005338.1	NP_001005338.1	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H, member 1	40						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.M40L(3)		breast(1)|endometrium(7)|kidney(8)|large_intestine(3)|lung(13)|ovary(1)|skin(1)	34						CATCACCATCATGGGGAATCT	0.413																																																3	Substitution - Missense(3)	kidney(2)|endometrium(1)											45	49	48					3																	97851659		2174	4242	6416	SO:0001583	missense	26341			X64988	CCDS33797.1	3q12.1	2012-08-09			ENSG00000231192	ENSG00000231192		"GPCR / Class A : Olfactory receptors"	8346	protein-coding gene	gene with protein product						1370859	Standard	NM_001005338		Approved	HTPCRX14, HSHTPCRX14	uc011bgt.2	A6NKK0	OTTHUMG00000160070	ENST00000354565.2:c.118A>T	3.37:g.97851659A>T	ENSP00000346575:p.Met40Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000354565.2	37	CCDS33797.1	.	.	.	.	.	.	.	.	.	.	A	3.067	-0.192020	0.06299	.	.	ENSG00000231192	ENST00000354565	T	0.00241	8.46	3.63	-0.16	0.13375	.	0.578292	0.14348	N	0.325303	T	0.00073	0.0002	N	0.04116	-0.275	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.04976	-1.0914	10	0.33940	T	0.23	.	7.0903	0.25279	0.5661:0.0:0.4339:0.0	.	40	A6NKK0	OR5H1_HUMAN	L	40	ENSP00000346575:M40L	ENSP00000346575:M40L	M	+	1	0	OR5H1	99334349	0.000000	0.05858	0.016000	0.15963	0.102000	0.19082	-3.263000	0.00535	-0.297000	0.08934	0.164000	0.16699	ATG		0.413	OR5H1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359100.2	NM_001005338		T	97851659	A	T	97851659	3	4	682	1	0	0	0	0	1	0	0	0	11166	217	8	5	120	5	OR5H1	3	97851659	Missense_Mutation	SNP	A	TCGA-KO-8411-01A-11D-2310-10	46227153	97851659	100170771	14	44165	461	2								
OR5H1	26341	mdanderson.org	37	chr3	97851661	97851661	+	Missense_Mutation	SNP	G	G	T													0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	atatatctcatcaccatcatGgggaatcttggtctgattgc					rs200721525	byFrequency	TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr3:97851661G>T	ENST00000354565.2	+	1	120	c.120G>T	c.(118-120)atG>atT	p.M40I	RP11-343D2.11_ENST00000508964.1_RNA	NM_001005338.1	NP_001005338.1	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H, member 1	40						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.M40I(4)		breast(1)|endometrium(7)|kidney(8)|large_intestine(3)|lung(13)|ovary(1)|skin(1)	34						TCACCATCATGGGGAATCTTG	0.413																																																4	Substitution - Missense(4)	endometrium(2)|kidney(2)											46	50	48					3																	97851661		2173	4250	6423	SO:0001583	missense	26341			X64988	CCDS33797.1	3q12.1	2012-08-09			ENSG00000231192	ENSG00000231192		"GPCR / Class A : Olfactory receptors"	8346	protein-coding gene	gene with protein product						1370859	Standard	NM_001005338		Approved	HTPCRX14, HSHTPCRX14	uc011bgt.2	A6NKK0	OTTHUMG00000160070	ENST00000354565.2:c.120G>T	3.37:g.97851661G>T	ENSP00000346575:p.Met40Ile	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000354565.2	37	CCDS33797.1	.	.	.	.	.	.	.	.	.	.	G	3.467	-0.108676	0.06924	.	.	ENSG00000231192	ENST00000354565	T	0.00433	7.43	3.63	2.75	0.32379	.	0.578292	0.14348	N	0.325303	T	0.00178	0.0005	N	0.02842	-0.48	0.20764	N	0.999858	B	0.06786	0.001	B	0.04013	0.001	T	0.29882	-0.9997	10	0.33940	T	0.23	.	8.5896	0.33679	0.1182:0.0:0.8818:0.0	.	40	A6NKK0	OR5H1_HUMAN	I	40	ENSP00000346575:M40I	ENSP00000346575:M40I	M	+	3	0	OR5H1	99334351	0.002000	0.14202	0.678000	0.29963	0.118000	0.20060	-0.111000	0.10807	0.729000	0.32403	0.195000	0.17529	ATG		0.413	OR5H1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359100.2	NM_001005338		T	97851661	G	T	97851661	3	4	682	1	0	0	0	0	1	0	0	0	11166	1348	47	4	122	4	OR5H1	3	97851661	Missense_Mutation	SNP	G	TCGA-KO-8411-01A-11D-2310-10	2	97851661	100170769	15	44166	461	2								
COL6A5	256076	hgsc.bcm.edu	37	chr3	130095482	130095482	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	ggaagaggcttcgaaagcccTgcagaaagacggggtgaaaa	15	7	0	4			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr3:130095482T>A	ENST00000432398.2	+	3	964	c.470T>A	c.(469-471)cTg>cAg	p.L157Q	COL6A5_ENST00000265379.6_Missense_Mutation_p.L157Q	NM_153264.5	NP_694996.5	A8TX70	CO6A5_HUMAN	collagen, type VI, alpha 5	157	Nonhelical region.|VWFA 1. {ECO:0000255|PROSITE- ProRule:PRU00219}.				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)				endometrium(6)|kidney(4)|large_intestine(8)|lung(19)|pancreas(2)|prostate(3)|stomach(1)|urinary_tract(1)	44						TCGAAAGCCCTGCAGAAAGAC	0.512																																																0													75	80	78					3																	130095482		692	1591	2283	SO:0001583	missense	256076			AK093199		3q21.3	2013-01-16	2010-05-24	2010-05-24	ENSG00000172752	ENSG00000172752		"Collagens"	26674	protein-coding gene	gene with protein product	"von Willebrand factor A domain containing 4"	611916	"collagen, type XXIX, alpha 1"	COL29A1		17850181	Standard	NM_153264		Approved	FLJ35880, VWA4	uc010htk.2	A8TX70	OTTHUMG00000159712	ENST00000432398.2:c.470T>A	3.37:g.130095482T>A	ENSP00000390895:p.Leu157Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A9J6L2|A9J6L4|A9J6L6|A9J6L7|A9J6M0|A9J6M1|A9J6M2|B5MEA7|Q6ZW26|Q8NA36	Missense_Mutation	SNP	ENST00000432398.2	37		.	.	.	.	.	.	.	.	.	.	T	11.74	1.730065	0.30684	.	.	ENSG00000172752	ENST00000432398;ENST00000265379	D;D	0.82893	-1.66;-1.66	5.14	5.14	0.70334	.	.	.	.	.	D	0.92792	0.7708	M	0.92317	3.295	0.34680	D	0.724616	D	0.89917	1.0	D	0.87578	0.998	D	0.97112	0.9805	9	0.87932	D	0	.	14.2338	0.65911	0.0:0.0:0.0:1.0	.	157	A8TX70-2	.	Q	157	ENSP00000390895:L157Q;ENSP00000265379:L157Q	ENSP00000265379:L157Q	L	+	2	0	COL6A5	131578172	0.958000	0.32768	0.849000	0.33467	0.023000	0.10783	6.861000	0.75478	2.064000	0.61679	0.455000	0.32223	CTG		0.512	COL6A5-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_153264		A	130095482	T	A	130095482	3	1	682	1	0	0	0	0	1	0	0	0	3704	1580	55	5	476	5	COL6A5	3	130095482	Missense_Mutation	SNP	T	TCGA-KO-8411-01A-11D-2310-10	32243821	130095482	67926948	16	44167										
FGFRL1	53834	mdanderson.org	37	chr4	1019078	1019078	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	acacacacacacacacactcTcacacacactcacacgtgga	3	18	2	0			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr4:1019078T>A	ENST00000398484.2	+	8	2038	c.1458T>A	c.(1456-1458)tcT>tcA	p.S486S	FGFRL1_ENST00000510644.1_Silent_p.S486S|FGFRL1_ENST00000504138.1_Silent_p.S486S|FGFRL1_ENST00000264748.6_Silent_p.S486S|RP11-460I19.2_ENST00000503095.1_lincRNA			Q8N441	FGRL1_HUMAN	fibroblast growth factor receptor-like 1	486	His-rich.				diaphragm development (GO:0060539)|heart valve morphogenesis (GO:0003179)|negative regulation of cell proliferation (GO:0008285)|skeletal system development (GO:0001501)|ventricular septum morphogenesis (GO:0060412)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	fibroblast growth factor-activated receptor activity (GO:0005007)|heparin binding (GO:0008201)			endometrium(1)|lung(9)|ovary(1)|prostate(1)|skin(1)	13			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			acacacactctcacacacact	0.607																																																0													12	14	13					4																	1019078		2171	4277	6448	SO:0001819	synonymous_variant	53834				CCDS3344.1	4p16	2013-01-11			ENSG00000127418	ENSG00000127418		"Immunoglobulin superfamily / I-set domain containing"	3693	protein-coding gene	gene with protein product		605830					Standard	NM_021923		Approved		uc003gcg.3	Q8N441	OTTHUMG00000118998	ENST00000398484.2:c.1458T>A	4.37:g.1019078T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RAU9|Q6PJN1|Q9BXN7|Q9H4D7	Silent	SNP	ENST00000398484.2	37	CCDS3344.1																																																																																				0.607	FGFRL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239195.2	NM_021923		A	1019078	T	A	1019078	2	1	682	1	0	0	0	0	0	0	0	1	5876	1538	54	5		5	FGFRL1	4	1019078	Silent	SNP	T	TCGA-KO-8411-01A-11D-2310-10		1019078	190135198	17	44168										
DSPP	1834	broad.mit.edu	37	chr4	88535571	88535571	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	tagtgacagcagtgacagtgAcagcagtgatagcagtgaca	13	7	0	5			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr4:88535571A>G	ENST00000282478.7	+	4	1790	c.1757A>G	c.(1756-1758)gAc>gGc	p.D586G	RP11-742B18.1_ENST00000506480.1_RNA|DSPP_ENST00000399271.1_Missense_Mutation_p.D586G			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	586	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		agtgacagtgacagcagtgat	0.458																																																0													76	80	79					4																	88535571		2165	4223	6388	SO:0001583	missense	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.1757A>G	4.37:g.88535571A>G	ENSP00000282478:p.Asp586Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	Missense_Mutation	SNP	ENST00000282478.7	37	CCDS43248.1	.	.	.	.	.	.	.	.	.	.	A	2.127	-0.400045	0.04865	.	.	ENSG00000152591	ENST00000399271;ENST00000282478	D;D	0.88975	-2.45;-2.45	3.69	3.69	0.42338	.	.	.	.	.	D	0.89022	0.6597	L	0.43923	1.385	0.24296	N	0.995148	D	0.64830	0.994	P	0.60609	0.877	T	0.78565	-0.2155	9	0.36615	T	0.2	.	5.9187	0.19070	0.874:0.0:0.126:0.0	.	586	Q9NZW4	DSPP_HUMAN	G	586	ENSP00000382213:D586G;ENSP00000282478:D586G	ENSP00000282478:D586G	D	+	2	0	DSPP	88754595	0.863000	0.29885	0.297000	0.24988	0.010000	0.07245	1.453000	0.35167	1.439000	0.47511	0.366000	0.22137	GAC		0.458	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		G	88535571	A	G	88535571	3	3	682	1	0	0	0	0	1	0	0	0	4784	275	10	3	1771	3	DSPP	4	88535571	Missense_Mutation	SNP	A	TCGA-KO-8411-01A-11D-2310-10	87516493	88535571	102618705	18	44169										
FAT1	2195	broad.mit.edu	37	chr4	187541479	187541479	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	gtgtccactttaacaacggcGtagtagggaaggttgacaaa	12	7	0	1	rs532659201		TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr4:187541479G>A	ENST00000441802.2	-	10	6470	c.6261C>T	c.(6259-6261)taC>taT	p.Y2087Y		NM_005245.3	NP_005236.2	Q14517	FAT1_HUMAN	FAT atypical cadherin 1	2087	Cadherin 19. {ECO:0000255|PROSITE- ProRule:PRU00043}.				actin filament organization (GO:0007015)|anatomical structure morphogenesis (GO:0009653)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|cell-cell signaling (GO:0007267)|establishment or maintenance of cell polarity (GO:0007163)|homophilic cell adhesion (GO:0007156)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(38)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(33)|lung(88)|ovary(13)|pancreas(2)|prostate(16)|skin(2)|upper_aerodigestive_tract(11)|urinary_tract(4)	228						TAACAACGGCGTAGTAGGGAA	0.498										HNSCC(5;0.00058)			G|||	1	0.000199681	0.0008	0.0	5008	,	,		19018	0.0		0.0	False		,,,				2504	0.0				Colon(197;1040 2055 4143 4984 49344)											0													171	164	166					4																	187541479		1982	4151	6133	SO:0001819	synonymous_variant	2195			X87241	CCDS47177.1	4q35.2	2013-05-31	2013-05-31	2008-10-30	ENSG00000083857	ENSG00000083857		"Cadherins / Cadherin-related"	3595	protein-coding gene	gene with protein product	"cadherin-related family member 8"	600976	"FAT tumor suppressor (Drosophila) homolog", "FAT tumor suppressor homolog 1 (Drosophila)"	FAT		8586420	Standard	XM_005262834		Approved	CDHF7, CDHR8	uc003izf.3	Q14517	OTTHUMG00000160320	ENST00000441802.2:c.6261C>T	4.37:g.187541479G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000441802.2	37	CCDS47177.1																																																																																				0.498	FAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360209.3	NM_005245		A	187541479	G	A	187541479	2	1	682	1	0	0	0	0	0	0	0	1	5696	1140	40	1		1	FAT1	4	187541479	Silent	SNP	G	TCGA-KO-8411-01A-11D-2310-10	99005908	187541479	3612797	19	44170										
FRG1	2483	mdanderson.org	37	chr4	190876307	190876307	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	gggaaccagtctttcaaaatGtaagtgctgttattgtttat	9	5	2	0	rs200854715		TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr4:190876307G>A	ENST00000226798.4	+	5	654		c.e5+1		FRG1_ENST00000514482.1_Splice_Site	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1						mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		CTTTCAAAATGTAAGTGCTGT	0.328																																																0													74	74	74					4																	190876307		2202	4295	6497	SO:0001630	splice_region_variant	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.432+1G>A	4.37:g.190876307G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Splice_Site	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	N	18.80	3.700931	0.68501	.	.	ENSG00000109536	ENST00000226798;ENST00000531991	.	.	.	3.88	3.88	0.44766	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.7779	0.63066	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	FRG1	191113301	1.000000	0.71417	1.000000	0.80357	0.869000	0.49853	7.413000	0.80104	1.879000	0.54435	0.567000	0.79289	.		0.328	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477	Intron	A	190876307	G	A	190876307	5	1	682	1	0	0	0	0	0	0	1	0	6053	1391	48	2	451	2	FRG1	4	190876307	Splice_Site	SNP	G	TCGA-KO-8411-01A-11D-2310-10	3334828	190876307	277969	20	44171										
OXCT1	5019	bcgsc.ca	37	chr5	41794806	41794806	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	tcattgcaaatgattcatcgCtggagaaaaaagaggctcct	9	8	2	3			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr5:41794806C>T	ENST00000196371.5	-	12	1305	c.1145G>A	c.(1144-1146)aGc>aAc	p.S382N	OXCT1_ENST00000509987.1_Missense_Mutation_p.S196N|OXCT1_ENST00000512084.1_5'Flank|OXCT1_ENST00000510634.1_5'Flank|OXCT1_ENST00000513081.1_5'Flank	NM_000436.3	NP_000427.1	P55809	SCOT1_HUMAN	3-oxoacid CoA transferase 1	382					adipose tissue development (GO:0060612)|brain development (GO:0007420)|cellular ketone body metabolic process (GO:0046950)|cellular lipid metabolic process (GO:0044255)|cellular response to acid chemical (GO:0071229)|cellular response to glucose stimulus (GO:0071333)|heart development (GO:0007507)|ketone body catabolic process (GO:0046952)|ketone catabolic process (GO:0042182)|positive regulation of insulin secretion (GO:0032024)|response to activity (GO:0014823)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to hormone (GO:0009725)|response to nutrient (GO:0007584)|response to starvation (GO:0042594)|small molecule metabolic process (GO:0044281)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	3-oxoacid CoA-transferase activity (GO:0008260)|protein homodimerization activity (GO:0042803)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(11)|ovary(3)|prostate(1)|skin(2)	28					Succinic acid(DB00139)	TGATTCATCGCTGGAGAAAAA	0.398																																																0													70	67	68					5																	41794806		2203	4300	6503	SO:0001583	missense	5019			U62961	CCDS3937.1	5p13	2008-02-05		2004-05-12	ENSG00000083720	ENSG00000083720			8527	protein-coding gene	gene with protein product		601424	"3-oxoacid CoA transferase"	OXCT		8751852	Standard	NM_000436		Approved	SCOT	uc003jmn.3	P55809	OTTHUMG00000094783	ENST00000196371.5:c.1145G>A	5.37:g.41794806C>T	ENSP00000196371:p.Ser382Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5V2|B7Z528	Missense_Mutation	SNP	ENST00000196371.5	37	CCDS3937.1	.	.	.	.	.	.	.	.	.	.	C	29.5	5.011963	0.93346	.	.	ENSG00000083720	ENST00000196371;ENST00000509987	D;D	0.87729	-2.29;-2.29	5.84	5.84	0.93424	3-oxoacid CoA-transferase, subunit B (1);	0.079191	0.85682	D	0.000000	D	0.95981	0.8691	H	0.96489	3.83	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.96810	0.9596	10	0.87932	D	0	-17.4734	18.9061	0.92462	0.0:1.0:0.0:0.0	.	382	P55809	SCOT1_HUMAN	N	382;196	ENSP00000196371:S382N;ENSP00000425348:S196N	ENSP00000196371:S382N	S	-	2	0	OXCT1	41830563	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.410000	0.80065	2.765000	0.95021	0.655000	0.94253	AGC		0.398	OXCT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000211594.2	NM_000436		T	41794806	C	T	41794806	3	4	682	1	0	0	0	0	1	0	0	0	11336	797	28	2	441	2	OXCT1	5	41794806	Missense_Mutation	SNP	C	TCGA-KO-8411-01A-11D-2310-10		41794806	139120454	21	44172										
SEMA6A	57556	mdanderson.org	37	chr5	115837967	115837967	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	ctggatgtccagcctgtgccTctgtgtggtgttccgtcctg	13	12	1	0			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr5:115837967T>C	ENST00000343348.6	-	3	944	c.157A>G	c.(157-159)Agg>Ggg	p.R53G	SEMA6A_ENST00000257414.8_Missense_Mutation_p.R53G|CTB-118N6.3_ENST00000510682.1_RNA|SEMA6A_ENST00000510263.1_Missense_Mutation_p.R53G|SEMA6A_ENST00000503962.1_5'UTR	NM_020796.3	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A	53	Sema. {ECO:0000255|PROSITE- ProRule:PRU00352}.				apoptotic process (GO:0006915)|axon guidance (GO:0007411)|cell surface receptor signaling pathway (GO:0007166)|centrosome localization (GO:0051642)|cytoskeleton organization (GO:0007010)|nervous system development (GO:0007399)|neuron migration (GO:0001764)|organ morphogenesis (GO:0009887)|positive regulation of neuron migration (GO:2001224)|semaphorin-plexin signaling pathway (GO:0071526)	axon (GO:0030424)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)	transmembrane signaling receptor activity (GO:0004888)			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(15)|ovary(2)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	31		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)		AGCCTGTGCCTCTGTGTGGTG	0.498																																																0													249	247	248					5																	115837967		2049	4205	6254	SO:0001583	missense	57556			AB037789	CCDS47256.1, CCDS75288.1	5q23.1	2014-07-29			ENSG00000092421			"Semaphorins"	10738	protein-coding gene	gene with protein product	"sema VIa"	605885		SEMAQ		9204478, 10993894	Standard	XM_006714663		Approved	KIAA1368, SEMA6A1, SEMA, HT018	uc010jck.3	Q9H2E6	OTTHUMG00000162987	ENST00000343348.6:c.157A>G	5.37:g.115837967T>C	ENSP00000345512:p.Arg53Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q9P2H9	Missense_Mutation	SNP	ENST00000343348.6	37	CCDS47256.1	.	.	.	.	.	.	.	.	.	.	T	15.71	2.913512	0.52439	.	.	ENSG00000092421	ENST00000343348;ENST00000257414;ENST00000510263;ENST00000515009;ENST00000509665	T;T;T;T;T	0.29142	1.99;1.99;1.99;1.58;1.58	5.47	5.47	0.80525	WD40/YVTN repeat-like-containing domain (1);Semaphorin/CD100 antigen (2);	0.049179	0.85682	D	0.000000	T	0.43055	0.1230	M	0.67953	2.075	0.80722	D	1	P;P	0.49696	0.881;0.927	B;P	0.48677	0.382;0.586	T	0.44952	-0.9294	10	0.72032	D	0.01	.	15.2197	0.73303	0.0:0.0:0.0:1.0	.	53;53	Q9H2E6;Q9H2E6-2	SEM6A_HUMAN;.	G	53	ENSP00000345512:R53G;ENSP00000257414:R53G;ENSP00000424388:R53G;ENSP00000421935:R53G;ENSP00000425553:R53G	ENSP00000257414:R53G	R	-	1	2	SEMA6A	115865866	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	3.895000	0.56258	2.082000	0.62665	0.528000	0.53228	AGG		0.498	SEMA6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371270.1	NM_020796		C	115837967	T	C	115837967	3	2	682	1	0	0	0	0	1	0	0	0	14052	1550	54	3	3003	3	SEMA6A	5	115837967	Missense_Mutation	SNP	T	TCGA-KO-8411-01A-11D-2310-10	74043161	115837967	65077293	22	44173										
SLC26A8	116369	ucsc.edu	37	chr6	35930387	35930387	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	acgttgctcagaataataccAgccagcacagcctgtgggga	11	11	1	1			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr6:35930387A>G	ENST00000490799.1	-	12	1730	c.1377T>C	c.(1375-1377)gcT>gcC	p.A459A	SLC26A8_ENST00000394602.2_Silent_p.A354A|SLC26A8_ENST00000355574.2_Silent_p.A459A	NM_052961.3	NP_443193.1			solute carrier family 26 (anion exchanger), member 8											breast(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(4)|large_intestine(6)|lung(16)|ovary(3)|prostate(6)|skin(3)|upper_aerodigestive_tract(2)	46						GAATAATACCAGCCAGCACAG	0.458																																																0													113	99	104					6																	35930387		2203	4300	6503	SO:0001819	synonymous_variant	116369			AF331522	CCDS4813.1, CCDS4814.1	6p21	2013-07-18	2013-07-18		ENSG00000112053	ENSG00000112053		"Solute carriers"	14468	protein-coding gene	gene with protein product		608480	"solute carrier family 26, member 8"			11834742, 11829495	Standard	NM_001193476		Approved		uc003olm.3	Q96RN1	OTTHUMG00000014586	ENST00000490799.1:c.1377T>C	6.37:g.35930387A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000490799.1	37	CCDS4813.1																																																																																				0.458	SLC26A8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040325.2			G	35930387	A	G	35930387	2	3	682	1	0	0	0	0	0	0	0	1	14536	175	7	3		3	SLC26A8	6	35930387	Silent	SNP	A	TCGA-KO-8411-01A-11D-2310-10		35930387	135184680	23	44174										
PKD1L1	168507	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chr7	47968829	47968829	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	tactggtggtaggcagtcacCgccattgcctcagacatgtt	11	11	2	1			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr7:47968829C>T	ENST00000289672.2	-	7	1082	c.1032G>A	c.(1030-1032)gcG>gcA	p.A344A		NM_138295.3	NP_612152.1	Q8TDX9	PK1L1_HUMAN	polycystic kidney disease 1 like 1	344					detection of mechanical stimulus (GO:0050982)|detection of nodal flow (GO:0003127)|left/right axis specification (GO:0070986)|single organismal cell-cell adhesion (GO:0016337)	calcium channel complex (GO:0034704)|cilium (GO:0005929)|membrane (GO:0016020)|nonmotile primary cilium (GO:0031513)|plasma membrane (GO:0005886)	calcium channel activity (GO:0005262)		BBS9/PKD1L1(2)	NS(1)|breast(9)|central_nervous_system(1)|cervix(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(27)|lung(44)|ovary(12)|prostate(5)|skin(8)|stomach(4)|upper_aerodigestive_tract(5)	142						AGGCAGTCACCGCCATTGCCT	0.527																																																0													131	123	126					7																	47968829		2203	4300	6503	SO:0001819	synonymous_variant	168507			AB061683	CCDS34633.1	7p12.3	2008-07-18			ENSG00000158683	ENSG00000158683			18053	protein-coding gene	gene with protein product	"polycystin-1L1"	609721				11863367	Standard	NM_138295		Approved	PRO19563	uc003tny.2	Q8TDX9	OTTHUMG00000155649	ENST00000289672.2:c.1032G>A	7.37:g.47968829C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UWK1	Silent	SNP	ENST00000289672.2	37	CCDS34633.1																																																																																				0.527	PKD1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340974.1	NM_138295		T	47968829	C	T	47968829	2	4	682	1	0	0	0	0	0	0	0	1	11971	639	23	1		1	PKD1L1	7	47968829	Silent	SNP	C	TCGA-KO-8411-01A-11D-2310-10		47968829	111169834	24	44175										
POM121	9883	broad.mit.edu	37	chr7	72413476	72413477	+	Frame_Shift_Ins	INS	-	-	C													0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	tgaggggcagccaccgggggINSccgccaagccggcccttgcc							TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr7:72413476_72413477insC	ENST00000434423.2	+	11	2944_2945	c.2944_2945insC	c.(2944-2946)gccfs	p.A982fs	POM121_ENST00000446813.1_Frame_Shift_Ins_p.A717fs|POM121_ENST00000257622.4_Frame_Shift_Ins_p.A717fs|POM121_ENST00000395270.1_Frame_Shift_Ins_p.A717fs|POM121_ENST00000358357.3_Frame_Shift_Ins_p.A717fs			Q96HA1	P121A_HUMAN	POM121 transmembrane nucleoporin	982	Pore side. {ECO:0000255}.				carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|protein transport (GO:0015031)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	endoplasmic reticulum (GO:0005783)|nuclear envelope (GO:0005635)|nuclear pore (GO:0005643)				NS(1)|breast(1)|endometrium(9)|kidney(4)|large_intestine(6)|lung(12)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	41		Lung NSC(55;0.163)				GCCACCGGGGGCCGCCAAGCCG	0.653																																																0																																										SO:0001589	frameshift_variant	9883			AB014518	CCDS5542.1, CCDS59059.1	7q11.23	2013-01-08	2012-03-13		ENSG00000196313	ENSG00000196313		"-"	19702	protein-coding gene	gene with protein product		615753	"POM121 membrane glycoprotein (rat)", "POM121 membrane glycoprotein"			8335683, 9734811, 17900573	Standard	NM_172020		Approved	KIAA0618, DKFZP586G1822, DKFZP586P2220, POM121A	uc003twk.2	Q96HA1	OTTHUMG00000023527	ENST00000434423.2:c.2946dupC	7.37:g.72413478_72413478dupC	ENSP00000405562:p.Ala982fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFS9|A8CDT4|A8K933|A8MXF9|O75115|Q96DI0|Q9H9X1|Q9Y2N3|Q9Y4S7	Frame_Shift_Ins	INS	ENST00000434423.2	37																																																																																					0.653	POM121-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000347344.1			C	72413477	-	C	72413476	7	5	682	1	0	1	1	0	0	0	0	0	12246	1203	42	0	2187	0	POM121	7	72413476	Frame_Shift_Ins	INS	-	TCGA-KO-8411-01A-11D-2310-10	24444647	72413476	86725187	25	44176										
GTF2IRD2	84163	mdanderson.org	37	chr7	74212075	74212075	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	acacgcgaaaagatctcgttGccagattttgtacccgtcat	8	11	2	2	rs2523348		TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr7:74212075G>T	ENST00000405086.2	-	16	1965	c.1776C>A	c.(1774-1776)ggC>ggA	p.G592G	GTF2IRD2_ENST00000451013.2_Silent_p.G139G	NM_173537.2	NP_775808	Q86UP8	GTD2A_HUMAN	GTF2I repeat domain containing 2	592					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|endometrium(3)|large_intestine(2)|lung(2)|ovary(2)|skin(1)	11						agatctcgttgccagattttg	0.507																																					NSCLC(40;560 1096 7501 40315 49546)											0													68	64	65					7																	74212075		2203	4299	6502	SO:0001819	synonymous_variant	84163			BC047706	CCDS5576.1, CCDS64682.1	7q11.23	2014-05-06			ENSG00000196275	ENSG00000196275			30775	protein-coding gene	gene with protein product	"transcription factor GTF2IRD2"	608899				15243160	Standard	NM_173537		Approved	FLJ37938, GTF2IRD2A	uc003ubd.1	Q86UP8	OTTHUMG00000181527	ENST00000405086.2:c.1776C>A	7.37:g.74212075G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5W6|B3KUZ2|Q69G40|Q6EKI8|Q6EKI9|Q6NVW2|Q6P7N8|Q86WX4|Q8ND85|Q8NDE5	Silent	SNP	ENST00000405086.2	37	CCDS5576.1																																																																																				0.507	GTF2IRD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252712.3	NM_173537		T	74212075	G	T	74212075	2	4	682	1	0	0	0	0	0	0	0	1	6876	1306	46	4		4	GTF2IRD2	7	74212075	Silent	SNP	G	TCGA-KO-8411-01A-11D-2310-10	1798599	74212075	84926588	26	44177										
AASS	10157	mdanderson.org	37	chr7	121773650	121773650	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	tgatgcctttgatgtgcttgGgagctagcggggcccttctc	14	10	1	2			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr7:121773650G>C	ENST00000393376.1	-	1	226	c.131C>G	c.(130-132)cCc>cGc	p.P44R	AASS_ENST00000473553.1_Intron|AASS_ENST00000417368.2_Missense_Mutation_p.P44R			Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase	44	Lysine-ketoglutarate reductase.				cellular nitrogen compound metabolic process (GO:0034641)|L-lysine catabolic process to acetyl-CoA via saccharopine (GO:0033512)|lysine catabolic process (GO:0006554)|protein tetramerization (GO:0051262)|small molecule metabolic process (GO:0044281)	intracellular membrane-bounded organelle (GO:0043231)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity (GO:0047131)|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity (GO:0047130)			autonomic_ganglia(1)|breast(2)|endometrium(3)|kidney(6)|large_intestine(12)|lung(27)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	54						GATGTGCTTGGGAGCTAGCGG	0.537																																																0													112	97	102					7																	121773650		2203	4300	6503	SO:0001583	missense	10157			AF229180	CCDS5783.1	7q31.3	2010-12-14			ENSG00000008311	ENSG00000008311			17366	protein-coding gene	gene with protein product		605113				10775527	Standard	NM_005763		Approved	LORSDH, LKRSDH	uc003vkb.3	Q9UDR5	OTTHUMG00000157058	ENST00000393376.1:c.131C>G	7.37:g.121773650G>C	ENSP00000377040:p.Pro44Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O95462	Missense_Mutation	SNP	ENST00000393376.1	37	CCDS5783.1	.	.	.	.	.	.	.	.	.	.	.	26.0	4.699346	0.88830	.	.	ENSG00000008311	ENST00000393376;ENST00000417368	D;D	0.91521	-2.86;-2.86	5.18	5.18	0.71444	Alanine dehydrogenase/PNT, N-terminal (1);	0.000000	0.85682	D	0.000000	D	0.97188	0.9081	H	0.97186	3.955	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.98611	1.0663	10	0.87932	D	0	-13.2955	18.6875	0.91570	0.0:0.0:1.0:0.0	.	44	Q9UDR5	AASS_HUMAN	R	44	ENSP00000377040:P44R;ENSP00000403768:P44R	ENSP00000351834:P44R	P	-	2	0	AASS	121560886	1.000000	0.71417	0.932000	0.37286	0.883000	0.51084	9.771000	0.98977	2.390000	0.81377	0.557000	0.71058	CCC		0.537	AASS-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347300.1	NM_005763		C	121773650	G	C	121773650	3	2	682	1	0	0	0	0	1	0	0	0	24	1232	43	4	2741	4	AASS	7	121773650	Missense_Mutation	SNP	G	TCGA-KO-8411-01A-11D-2310-10	47561575	121773650	37365013	27	44178										
GGH	8836	broad.mit.edu;bcgsc.ca	37	chr8	63942762	63942762	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	aaagtatttcatagtctttcTctgtaagatccagcctgaaa	6	8	3	2			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr8:63942762T>C	ENST00000260118.6	-	3	641	c.239A>G	c.(238-240)gAg>gGg	p.E80G	GGH_ENST00000518113.1_5'UTR	NM_003878.2	NP_003869.1	Q92820	GGH_HUMAN	gamma-glutamyl hydrolase (conjugase, folylpolygammaglutamyl hydrolase)	80	Gamma-glutamyl hydrolase. {ECO:0000255|PROSITE-ProRule:PRU00607}.				glutamine metabolic process (GO:0006541)|proteolysis (GO:0006508)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to insulin (GO:0032868)|response to zinc ion (GO:0010043)	cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|lysosome (GO:0005764)|nucleus (GO:0005634)	exopeptidase activity (GO:0008238)|gamma-glutamyl-peptidase activity (GO:0034722)|omega peptidase activity (GO:0008242)			breast(1)|kidney(1)|large_intestine(1)|liver(1)|lung(6)|stomach(1)	11	Breast(64;0.0716)	all_cancers(86;0.189)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.131)			Folic Acid(DB00158)|Methotrexate(DB00563)	ATAGTCTTTCTCTGTAAGATC	0.318																																																0													86	88	88					8																	63942762		2203	4293	6496	SO:0001583	missense	8836			U55206	CCDS6177.1	8q12.3	2008-02-05			ENSG00000137563	ENSG00000137563	3.4.19.9		4248	protein-coding gene	gene with protein product		601509				8816764, 10570974	Standard	NM_003878		Approved		uc003xuw.3	Q92820	OTTHUMG00000164365	ENST00000260118.6:c.239A>G	8.37:g.63942762T>C	ENSP00000260118:p.Glu80Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000260118.6	37	CCDS6177.1	.	.	.	.	.	.	.	.	.	.	T	8.575	0.880955	0.17467	.	.	ENSG00000137563	ENST00000260118;ENST00000517622	T	0.46451	0.87	5.45	-1.69	0.08186	.	2.128780	0.01441	N	0.015086	T	0.39064	0.1064	M	0.72479	2.2	0.09310	N	1	P	0.36616	0.561	B	0.34301	0.179	T	0.13899	-1.0492	10	0.27082	T	0.32	-20.6927	4.3633	0.11213	0.1164:0.066:0.3632:0.4545	.	80	Q92820	GGH_HUMAN	G	80;41	ENSP00000260118:E80G	ENSP00000260118:E80G	E	-	2	0	GGH	64105316	0.000000	0.05858	0.000000	0.03702	0.004000	0.04260	-0.045000	0.12003	-0.432000	0.07297	-0.316000	0.08728	GAG		0.318	GGH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378453.1			C	63942762	T	C	63942762	3	2	682	1	0	0	0	0	1	0	0	0	6364	1551	54	3	745	3	GGH	8	63942762	Missense_Mutation	SNP	T	TCGA-KO-8411-01A-11D-2310-10		63942762	82421260	28	44179										
PDP1	54704	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr8	94934838	94934838	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	aaatgcagtggagagcggccGggcactgctacccattctcc	12	13	1	1			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr8:94934838G>A	ENST00000297598.4	+	2	820	c.551G>A	c.(550-552)cGg>cAg	p.R184Q	PDP1_ENST00000396200.3_Missense_Mutation_p.R209Q|PDP1_ENST00000520728.1_Missense_Mutation_p.R184Q|PDP1_ENST00000517764.1_Missense_Mutation_p.R184Q	NM_001161781.1|NM_018444.3	NP_001155253.1|NP_060914.2	Q9P0J1	PDP1_HUMAN	pyruvate dehyrogenase phosphatase catalytic subunit 1	184					cellular metabolic process (GO:0044237)|peptidyl-threonine dephosphorylation (GO:0035970)|pyruvate metabolic process (GO:0006090)|regulation of acetyl-CoA biosynthetic process from pyruvate (GO:0010510)|small molecule metabolic process (GO:0044281)	mitochondrial matrix (GO:0005759)	[pyruvate dehydrogenase (lipoamide)] phosphatase activity (GO:0004741)|metal ion binding (GO:0046872)|protein serine/threonine phosphatase activity (GO:0004722)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(4)|liver(1)|lung(5)|ovary(1)|pancreas(1)|skin(2)	18						GAGAGCGGCCGGGCACTGCTA	0.453																																																0													62	59	60					8																	94934838		2203	4300	6503	SO:0001583	missense	54704			AF155661	CCDS6259.1, CCDS55262.1	8q22.1	2012-04-17	2009-06-12	2009-06-12	ENSG00000164951	ENSG00000164951	3.1.3.43	"Serine/threonine phosphatases / Protein phosphatases, Mg2+/Mn2+ dependent"	9279	protein-coding gene	gene with protein product		605993	"protein phosphatase 2C, magnesium-dependent, catalytic subunit"	PPM2C		8396421	Standard	NM_001161779		Approved	PDP, PDH	uc003ygf.3	Q9P0J1		ENST00000297598.4:c.551G>A	8.37:g.94934838G>A	ENSP00000297598:p.Arg184Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B3KX71|J3KPU0|Q5U5K1	Missense_Mutation	SNP	ENST00000297598.4	37	CCDS6259.1	.	.	.	.	.	.	.	.	.	.	G	18.71	3.682500	0.68157	.	.	ENSG00000164951	ENST00000297598;ENST00000520728;ENST00000396200;ENST00000517764;ENST00000518827	T;T;T;T	0.45276	0.91;0.91;0.9;0.91	6.16	5.28	0.74379	Protein phosphatase 2C-like (3);	0.058183	0.64402	N	0.000002	T	0.40862	0.1134	L	0.53249	1.67	0.58432	D	0.999996	P;P	0.47409	0.895;0.895	B;B	0.39258	0.295;0.198	T	0.34850	-0.9812	10	0.40728	T	0.16	-8.858	17.6344	0.88118	0.0:0.1231:0.8769:0.0	.	235;184	B4DYX8;Q9P0J1	.;PDP1_HUMAN	Q	184;184;209;184;184	ENSP00000297598:R184Q;ENSP00000428317:R184Q;ENSP00000379503:R209Q;ENSP00000430380:R184Q	ENSP00000297598:R184Q	R	+	2	0	PDP1	95004014	1.000000	0.71417	0.957000	0.39632	0.969000	0.65631	7.989000	0.88205	1.604000	0.50143	-0.182000	0.12963	CGG		0.453	PDP1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000378415.2	NM_018444		A	94934838	G	A	94934838	3	1	682	1	0	0	0	0	1	0	0	0	11692	1116	39	1	734	1	PDP1	8	94934838	Missense_Mutation	SNP	G	TCGA-KO-8411-01A-11D-2310-10	30992076	94934838	51429184	29	44180										
TRPS1	7227	broad.mit.edu	37	chr8	116616283	116616283	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	gaaagaggagtacatctacgTcaggggtggtgaatgaacac	14	6	2	3			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr8:116616283T>C	ENST00000220888.5	-	3	2033	c.1874A>G	c.(1873-1875)gAc>gGc	p.D625G	TRPS1_ENST00000520276.1_Missense_Mutation_p.D629G|TRPS1_ENST00000519076.1_Intron|TRPS1_ENST00000519674.1_Missense_Mutation_p.D625G|TRPS1_ENST00000395715.3_Missense_Mutation_p.D638G			Q9UHF7	TRPS1_HUMAN	trichorhinophalangeal syndrome I	625					chondrocyte differentiation (GO:0002062)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|NLS-bearing protein import into nucleus (GO:0006607)|positive regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902043)|regulation of chondrocyte differentiation (GO:0032330)|regulation of histone deacetylation (GO:0031063)|skeletal system development (GO:0001501)|transcription from RNA polymerase II promoter (GO:0006366)|transmembrane receptor protein serine/threonine kinase signaling pathway (GO:0007178)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(25)|lung(58)|ovary(3)|pancreas(1)|prostate(1)|skin(6)|urinary_tract(2)	111	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TACATCTACGTCAGGGGTGGT	0.517									Langer-Giedion syndrome																																							0													79	78	78					8																	116616283		2051	4198	6249	SO:0001583	missense	7227	Familial Cancer Database	Trichorhinophalangeal syndrome type 2, TRPS II	AF183810	CCDS6318.2, CCDS64957.1	8q23.3	2014-06-23			ENSG00000104447	ENSG00000104447		"GATA zinc finger domain containing", "Zinc fingers, C2H2-type"	12340	protein-coding gene	gene with protein product		604386				8530105, 10615131, 10647898	Standard	NM_001282903		Approved	LGCR	uc003yny.3	Q9UHF7	OTTHUMG00000142829	ENST00000220888.5:c.1874A>G	8.37:g.116616283T>C	ENSP00000220888:p.Asp625Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4E1Z5|Q08AU2|Q9NWE1|Q9UHH6	Missense_Mutation	SNP	ENST00000220888.5	37		.	.	.	.	.	.	.	.	.	.	T	16.00	2.999497	0.54147	.	.	ENSG00000104447	ENST00000395715;ENST00000220888;ENST00000520276;ENST00000519674	T;T;T;T	0.23950	1.88;1.88;1.88;1.88	5.77	5.77	0.91146	Zinc finger, C2H2-like (1);	0.000000	0.85682	D	0.000000	T	0.41119	0.1145	L	0.29908	0.895	0.58432	D	0.999998	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.998;0.994;0.998	T	0.31475	-0.9942	10	0.87932	D	0	.	16.3948	0.83586	0.0:0.0:0.0:1.0	.	629;625;638	Q9UHF7-3;Q9UHF7;Q9UHF7-2	.;TRPS1_HUMAN;.	G	638;625;629;625	ENSP00000379065:D638G;ENSP00000220888:D625G;ENSP00000428680:D629G;ENSP00000429174:D625G	ENSP00000220888:D625G	D	-	2	0	TRPS1	116685458	1.000000	0.71417	0.394000	0.26270	0.434000	0.31775	7.628000	0.83189	2.326000	0.78906	0.533000	0.62120	GAC		0.517	TRPS1-002	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000286436.3	NM_014112		C	116616283	T	C	116616283	3	2	682	1	0	0	0	0	1	0	0	0	16605	1667	58	3	1987	3	TRPS1	8	116616283	Missense_Mutation	SNP	T	TCGA-KO-8411-01A-11D-2310-10	21681445	116616283	29747739	30	44181										
C9orf79	286234	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr9	90500482	90500482	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	tgcacattcatccaccctgaCgtgcagaagctgctggagac	10	13	1	3	rs199568188	byFrequency	TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr9:90500482C>T	ENST00000325643.5	+	4	1146	c.1080C>T	c.(1078-1080)gaC>gaT	p.D360D		NM_178828.4	NP_849150.3	Q6ZUB1	S31E1_HUMAN	SPATA31 subfamily E, member 1	360					cell differentiation (GO:0030154)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)											TCCACCCTGACGTGCAGAAGC	0.577													.|||	3	0.000599042	0.0	0.0	5008	,	,		18697	0.001		0.002	False		,,,				2504	0.0															0													65	64	64					9																	90500482		2203	4300	6503	SO:0001819	synonymous_variant	286234			AK093185	CCDS6676.1	9q22.1-q22.2	2012-10-12	2012-10-12	2012-10-12	ENSG00000177992	ENSG00000177992			26672	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 79", "family with sequence similarity 75, member E1"	C9orf79, FAM75E1			Standard	NM_178828		Approved	FLJ35866	uc004app.4	Q6ZUB1	OTTHUMG00000020157	ENST00000325643.5:c.1080C>T	9.37:g.90500482C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RPB1|Q5SQC9|Q8NA41|Q8ND27	Silent	SNP	ENST00000325643.5	37	CCDS6676.1																																																																																				0.577	SPATA31E1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052954.2	NM_178828		T	90500482	C	T	90500482	2	4	682	1	0	0	0	0	0	0	0	1	2499	535	19	1		1	C9orf79	9	90500482	Silent	SNP	C	TCGA-KO-8411-01A-11D-2310-10		90500482	50712949	31	44182										
LCN1	3933	mdanderson.org	37	chr9	138413982	138413982	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	gtgacacccatgaccctcacGaccctggaagggggcaacct	11	15	1	2	rs150536266	byFrequency	TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr9:138413982G>A	ENST00000263598.2	+	2	240	c.180G>A	c.(178-180)acG>acA	p.T60T	LCN1_ENST00000371781.3_Silent_p.T60T	NM_001252617.1|NM_001252618.1|NM_001252619.1|NM_002297.3	NP_001239546.1|NP_001239547.1|NP_001239548.1|NP_002288.1	P31025	LCN1_HUMAN	lipocalin 1	60					negative regulation of endopeptidase activity (GO:0010951)|proteolysis (GO:0006508)|response to stimulus (GO:0050896)|retina homeostasis (GO:0001895)|sensory perception of taste (GO:0050909)|transport (GO:0006810)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	cysteine-type endopeptidase inhibitor activity (GO:0004869)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(5)	13		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.54e-08)|Epithelial(140;5.25e-08)|all cancers(34;9.27e-07)|READ - Rectum adenocarcinoma(205;0.155)		TGACCCTCACGACCCTGGAAG	0.612													G|||	14	0.00279553	0.0091	0.0	5008	,	,		17535	0.0		0.0	False		,,,				2504	0.002															0								G		11,4381		0,11,2185	13	12	12		180	-1.6	0	9	dbSNP_134	12	0,8564		0,0,4282	no	coding-synonymous	LCN1	NM_002297.2		0,11,6467	AA,AG,GG		0.0,0.2505,0.0849		60/177	138413982	11,12945	2196	4282	6478	SO:0001819	synonymous_variant	3933				CCDS6991.1	9q34	2011-11-14	2011-11-01		ENSG00000160349	ENSG00000160349		"Lipocalins"	6525	protein-coding gene	gene with protein product	"Von Ebner gland protein", "tear lipocalin", "lipocalin 1-like 2", "tear prealbumin"	151675	"lipocalin 1 (protein migrating faster than albumin, tear prealbumin)", "lipocalin 1 (tear prealbumin)"			8276406	Standard	NM_002297		Approved	VEGP, TP, PMFA, MGC71975, TLC	uc022bpk.1	P31025	OTTHUMG00000020908	ENST00000263598.2:c.180G>A	9.37:g.138413982G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T8A1	Silent	SNP	ENST00000263598.2	37	CCDS6991.1																																																																																				0.612	LCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054992.1	NM_002297		A	138413982	G	A	138413982	2	1	682	1	0	0	0	0	0	0	0	1	8687	1045	37	1		1	LCN1	9	138413982	Silent	SNP	G	TCGA-KO-8411-01A-11D-2310-10	47913500	138413982	2799449	32	44183										
FAM21C	253725	mdanderson.org	37	chr10	46248649	46248649	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	gtgacctcttcacggaagccTcccaggatcggcaagctgga	12	13	2	1	rs2610452	byFrequency	TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr10:46248649T>C	ENST00000336378.4	+	13	1262	c.1144T>C	c.(1144-1146)Tcc>Ccc	p.S382P	FAM21C_ENST00000359860.4_Missense_Mutation_p.S326P|FAM21C_ENST00000540872.1_Missense_Mutation_p.S382P|FAM21C_ENST00000537517.1_Missense_Mutation_p.S358P|FAM21C_ENST00000374362.2_Missense_Mutation_p.S382P	NM_015262.2	NP_056077.2	Q9Y4E1	FA21C_HUMAN	family with sequence similarity 21, member C	382				S -> P (in Ref. 4; AAI50612). {ECO:0000305}.	retrograde transport, endosome to Golgi (GO:0042147)	early endosome (GO:0005769)|endosome (GO:0005768)|plasma membrane (GO:0005886)|WASH complex (GO:0071203)				central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(6)|lung(8)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	28						CACGGAAGCCTCCCAGGATCG	0.493													C|||	755	0.150759	0.1823	0.1196	5008	,	,		7906	0.1706		0.0944	False		,,,				2504	0.1677															0													50	54	53					10																	46248649		1176	3339	4515	SO:0001583	missense	253725				CCDS44374.1, CCDS44374.2, CCDS53528.1, CCDS53529.1	10q11.22	2014-05-09			ENSG00000172661	ENSG00000172661			23414	protein-coding gene	gene with protein product		613631				20498093	Standard	NM_015262		Approved	Em:AC012044.3, KIAA0592	uc001jcu.3	Q9Y4E1	OTTHUMG00000018089	ENST00000336378.4:c.1144T>C	10.37:g.46248649T>C	ENSP00000337541:p.Ser382Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZQ6|B9EK53|F5H0J6|F5H871|Q5SQU4|Q5SQU5|Q7L521|Q9UG79	Missense_Mutation	SNP	ENST00000336378.4	37		66	0.03021978021978022	19	0.03861788617886179	7	0.019337016574585635	27	0.0472027972027972	13	0.017150395778364115	C	0.089	-1.169554	0.01660	.	.	ENSG00000172661	ENST00000336378;ENST00000540872;ENST00000537517;ENST00000374362;ENST00000399588;ENST00000359860;ENST00000436993	.	.	.	3.23	3.23	0.37069	.	0.311519	0.35096	N	0.003450	T	0.00906	0.0030	N	0.00436	-1.5	0.09310	N	1	B;B;B;B	0.02656	0.0;0.0;0.0;0.0	B;B;B;B	0.01281	0.0;0.0;0.0;0.0	T	0.36480	-0.9746	9	0.02654	T	1	-3.2928	6.6596	0.23007	0.0:0.8641:0.0:0.1359	.	358;382;382;327	F5H871;Q9Y4E1-4;Q9Y4E1;Q9Y4E1-3	.;.;FA21C_HUMAN;.	P	382;382;358;382;382;326;294	.	ENSP00000337541:S382P	S	+	1	0	FAM21C	45568655	0.006000	0.16342	0.005000	0.12908	0.071000	0.16799	0.625000	0.24477	0.714000	0.32081	-0.176000	0.13171	TCC		0.493	FAM21C-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding				C	46248649	T	C	46248649	3	2	682	1	0	0	0	0	1	0	0	0	5546	1551	54	3	1194	3	FAM21C	10	46248649	Missense_Mutation	SNP	T	TCGA-KO-8411-01A-11D-2310-10		46248649	89286098	33	44184										
SLIT1	6585	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	98819913	98819913	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	tgatgccgttcagctccaggCgtctgcggggagaaaagaga	15	9	2	3			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr10:98819913C>T	ENST00000266058.4	-	10	1189	c.944G>A	c.(943-945)cGc>cAc	p.R315H	SLIT1_ENST00000371041.3_Missense_Mutation_p.R315H|SLIT1_ENST00000371070.4_Missense_Mutation_p.R315H|ARHGAP19-SLIT1_ENST00000453547.2_3'UTR	NM_003061.2	NP_003052.2	O75093	SLIT1_HUMAN	slit homolog 1 (Drosophila)	315					axon extension involved in axon guidance (GO:0048846)|axon guidance (GO:0007411)|dorsal/ventral axon guidance (GO:0033563)|establishment of nucleus localization (GO:0040023)|forebrain morphogenesis (GO:0048853)|motor neuron axon guidance (GO:0008045)|negative chemotaxis (GO:0050919)|negative regulation of axon extension involved in axon guidance (GO:0048843)|negative regulation of synapse assembly (GO:0051964)|retinal ganglion cell axon guidance (GO:0031290)|spinal cord development (GO:0021510)|tangential migration from the subventricular zone to the olfactory bulb (GO:0022028)	extracellular space (GO:0005615)	calcium ion binding (GO:0005509)|Roundabout binding (GO:0048495)			breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(16)|lung(37)|ovary(5)|prostate(4)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	78		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		CAGCTCCAGGCGTCTGCGGGG	0.607																																																0													83	76	78					10																	98819913		2203	4300	6503	SO:0001583	missense	6585			AB011537	CCDS7453.1	10q23.3-q24	2008-08-01	2001-11-28		ENSG00000187122	ENSG00000187122			11085	protein-coding gene	gene with protein product		603742	"slit (Drosophila) homolog 1"	SLIL1		9693030, 9813312	Standard	NM_003061		Approved	slit1, MEGF4, Slit-1, SLIT3	uc001kmw.2	O75093	OTTHUMG00000018843	ENST00000266058.4:c.944G>A	10.37:g.98819913C>T	ENSP00000266058:p.Arg315His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T0V1|Q8WWZ2|Q9UIL7	Missense_Mutation	SNP	ENST00000266058.4	37	CCDS7453.1	.	.	.	.	.	.	.	.	.	.	C	25.2	4.611644	0.87258	.	.	ENSG00000187122	ENST00000266058;ENST00000371057;ENST00000371054;ENST00000371070;ENST00000314867;ENST00000456008;ENST00000371041	T;T;T;T	0.57273	1.84;1.84;0.67;0.41	5.23	5.23	0.72850	.	0.000000	0.85682	D	0.000000	T	0.61311	0.2337	N	0.17723	0.515	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	T	0.67440	-0.5670	10	0.87932	D	0	.	18.7943	0.91988	0.0:1.0:0.0:0.0	.	315;315	E7EWQ8;O75093	.;SLIT1_HUMAN	H	315;315;291;315;298;291;315	ENSP00000266058:R315H;ENSP00000360109:R315H;ENSP00000315005:R298H;ENSP00000360080:R315H	ENSP00000266058:R315H	R	-	2	0	SLIT1	98809903	1.000000	0.71417	1.000000	0.80357	0.598000	0.36846	7.197000	0.77814	2.464000	0.83262	0.561000	0.74099	CGC		0.607	SLIT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049636.1	NM_003061		T	98819913	C	T	98819913	3	4	682	1	0	0	0	0	1	0	0	0	14752	768	27	1	3772	1	SLIT1	10	98819913	Missense_Mutation	SNP	C	TCGA-KO-8411-01A-11D-2310-10	52571264	98819913	36714834	34	44185										
NEURL	9148	broad.mit.edu	37	chr10	105331354	105331354	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	ctgactcgctgcccaagtacGcctgccccgacctggtgtcc	10	18	0	1	rs539510212		TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr10:105331354G>A	ENST00000369780.4	+	3	833	c.424G>A	c.(424-426)Gcc>Acc	p.A142T	NEURL_ENST00000369777.2_Missense_Mutation_p.A125T	NM_004210.4	NP_004201.3	O76050	NEUL1_HUMAN		142	NHR 1. {ECO:0000255|PROSITE- ProRule:PRU00400}.				brain development (GO:0007420)|cellular response to amino acid stimulus (GO:0071230)|lactation (GO:0007595)|negative regulation of cell proliferation (GO:0008285)|negative regulation of Notch signaling pathway (GO:0045746)|nervous system development (GO:0007399)|Notch signaling pathway (GO:0007219)|positive regulation of apoptotic process (GO:0043065)|positive regulation of dendritic spine development (GO:0060999)|positive regulation of epidermal growth factor-activated receptor activity (GO:0045741)|positive regulation of filopodium assembly (GO:0051491)|positive regulation of long-term neuronal synaptic plasticity (GO:0048170)|positive regulation of synapse maturation (GO:0090129)|protein monoubiquitination (GO:0006513)|skeletal muscle tissue development (GO:0007519)|sperm axoneme assembly (GO:0007288)|sperm motility (GO:0030317)	apical dendrite (GO:0097440)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|dendritic spine (GO:0043197)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)	ligase activity (GO:0016874)|translation factor activity, non-nucleic acid binding (GO:0045183)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(4)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	17				Epithelial(162;2.12e-09)|all cancers(201;6.99e-08)|BRCA - Breast invasive adenocarcinoma(275;0.125)		GCCCAAGTACGCCTGCCCCGA	0.632													G|||	1	0.000199681	0.0	0.0014	5008	,	,		17124	0.0		0.0	False		,,,				2504	0.0															0													65	51	55					10																	105331354		2203	4300	6503	SO:0001583	missense	9148																														ENST00000369780.4:c.424G>A	10.37:g.105331354G>A	ENSP00000358795:p.Ala142Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TDR2|Q5TDR3|Q8TAN0|Q9H463	Missense_Mutation	SNP	ENST00000369780.4	37	CCDS7551.1	.	.	.	.	.	.	.	.	.	.	G	32	5.151231	0.94645	.	.	ENSG00000107954	ENST00000369780;ENST00000437579;ENST00000369777;ENST00000455386	T;T	0.31247	1.5;1.5	5.69	5.69	0.88448	NEUZ (2);	0.000000	0.85682	D	0.000000	T	0.62490	0.2432	M	0.85373	2.75	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.66348	-0.5946	10	0.62326	D	0.03	-17.5358	18.8032	0.92027	0.0:0.0:1.0:0.0	.	142	O76050	NEU1A_HUMAN	T	142;125;125;67	ENSP00000358795:A142T;ENSP00000358792:A125T	ENSP00000358792:A125T	A	+	1	0	NEURL	105321344	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.928000	0.87587	2.681000	0.91329	0.561000	0.74099	GCC		0.632	NEURL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050170.1			A	105331354	G	A	105331354	3	1	682	1	0	0	0	0	1	0	0	0	10352	1087	38	1	434	1	NEURL	10	105331354	Missense_Mutation	SNP	G	TCGA-KO-8411-01A-11D-2310-10	6511441	105331354	30203393	35	44186										
CTBP2	1488	bcgsc.ca	37	chr10	126715160	126715161	+	Intron	INS	-	-	GCCGCAGGCTGGGGCTGCAGG													0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	ggatgctgtctgcagaggagINSccgcagcgcccagagaagcc							TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr10:126715160_126715161insGCCGCAGGCTGGGGCTGCAGG	ENST00000337195.5	-	3	458				CTBP2_ENST00000494626.2_Intron|CTBP2_ENST00000531469.1_Intron|CTBP2_ENST00000309035.6_In_Frame_Ins_p.390_391insCSPSLRP|CTBP2_ENST00000411419.2_Intron	NM_001329.2	NP_001320.1	P56545	CTBP2_HUMAN	C-terminal binding protein 2						negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)|viral genome replication (GO:0019079)|white fat cell differentiation (GO:0050872)	cell junction (GO:0030054)|nucleus (GO:0005634)|synapse (GO:0045202)|transcriptional repressor complex (GO:0017053)	NAD binding (GO:0051287)|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor (GO:0016616)|transcription corepressor activity (GO:0003714)			breast(1)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(7)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	25		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)		CTGCAGAGGAGCCGCAGCGCCC	0.698																																																0																																										SO:0001627	intron_variant	1488			AF016507	CCDS7643.1, CCDS7644.1	10q26.13	2008-08-01			ENSG00000175029	ENSG00000175029			2495	protein-coding gene	gene with protein product		602619				9479502, 11864595	Standard	NM_022802		Approved	ribeye	uc001lie.4	P56545	OTTHUMG00000019224	ENST00000337195.5:c.58+12404->CCTGCAGCCCCAGCCTGCGGC	10.37:g.126715160_126715161insGCCGCAGGCTGGGGCTGCAGG		Somatic		WXS	Illumina HiSeq	Phase_I	A8K2X5|D3DRF5|O43449|Q5SQP7|Q69YI3|Q86SV0|Q9H2T8	In_Frame_Ins	INS	ENST00000337195.5	37	CCDS7643.1																																																																																				0.698	CTBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050900.3	NM_001083914		GCCGCAGGCTGGGGCTGCAGG	126715161	-	GCCGCAGGCTGGGGCTGCAGG	126715160	6	5	682	0	1	1	1	0	0	0	0	0	4000	971	34	0		0	CTBP2	10	126715160	Intron	INS	-	TCGA-KO-8411-01A-11D-2310-10	21383806	126715160	8819587	36	44187										
MUC6	4588	mdanderson.org	37	chr11	1017679	1017679	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	gatgttggtggtagaagttgAggtggcttcagcatggtgtg	18	3	1	2	rs111294390	byFrequency	TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr11:1017679A>G	ENST00000421673.2	-	31	5172	c.5122T>C	c.(5122-5124)Tca>Cca	p.S1708P		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1708	Approximate repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GTAGAAGTTGAGGTGGCTTCA	0.542																																																0													671	663	666					11																	1017679		2200	4286	6486	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5122T>C	11.37:g.1017679A>G	ENSP00000406861:p.Ser1708Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	a	1.190	-0.635554	0.03584	.	.	ENSG00000184956	ENST00000421673	T	0.24350	1.86	1.74	-3.47	0.04753	.	.	.	.	.	T	0.06645	0.0170	N	0.01576	-0.805	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.13150	-1.0520	9	0.30078	T	0.28	.	0.4744	0.00537	0.3445:0.1183:0.2044:0.3327	.	1708	Q6W4X9	MUC6_HUMAN	P	1708	ENSP00000406861:S1708P	ENSP00000406861:S1708P	S	-	1	0	MUC6	1007679	0.000000	0.05858	0.000000	0.03702	0.005000	0.04900	-3.120000	0.00595	-4.140000	0.00070	-0.883000	0.02948	TCA		0.542	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		G	1017679	A	G	1017679	3	3	682	1	0	0	0	0	1	0	0	0	9987	304	11	3	2209	3	MUC6	11	1017679	Missense_Mutation	SNP	A	TCGA-KO-8411-01A-11D-2310-10		1017679	133988837	37	44188										
MUC6	4588	mdanderson.org	37	chr11	1018271	1018271	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	ctgaatgagctgtgggcttgGctggtcccactggtggtcgg	17	9	0	2			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr11:1018271G>C	ENST00000421673.2	-	31	4580	c.4530C>G	c.(4528-4530)agC>agG	p.S1510R		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1510	Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		TGTGGGCTTGGCTGGTCCCAC	0.552																																																0													242	258	253					11																	1018271		2170	4268	6438	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4530C>G	11.37:g.1018271G>C	ENSP00000406861:p.Ser1510Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	2.932	-0.220929	0.06061	.	.	ENSG00000184956	ENST00000421673	T	0.19669	2.13	2.41	-4.82	0.03171	.	.	.	.	.	T	0.14098	0.0341	L	0.55481	1.735	0.09310	N	1	P	0.38978	0.652	B	0.32724	0.151	T	0.01228	-1.1412	9	0.34782	T	0.22	.	5.8101	0.18462	0.5536:0.2513:0.1951:0.0	.	1510	Q6W4X9	MUC6_HUMAN	R	1510	ENSP00000406861:S1510R	ENSP00000406861:S1510R	S	-	3	2	MUC6	1008271	0.000000	0.05858	0.000000	0.03702	0.010000	0.07245	-1.010000	0.03656	-2.668000	0.00415	-0.657000	0.03884	AGC		0.552	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		C	1018271	G	C	1018271	3	2	682	1	0	0	0	0	1	0	0	0	9987	1194	42	4	2801	4	MUC6	11	1018271	Missense_Mutation	SNP	G	TCGA-KO-8411-01A-11D-2310-10	592	1018271	133988245	38	44189										
MUC2	4583	hgsc.bcm.edu	37	chr11	1092845	1092845	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	aaccccaacacccaccggcaCacagaccccaacaacgacac	4	21	0	1			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr11:1092845C>T	ENST00000441003.2	+	30	4691	c.4664C>T	c.(4663-4665)aCa>aTa	p.T1555I	MUC2_ENST00000359061.5_Missense_Mutation_p.T1556I|MUC2_ENST00000333592.6_5'Flank|MUC2_ENST00000361558.6_Intron	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	CCCACCGGCACACAGACCCCA	0.632																																																0													94	126	114					11																	1092845		1882	3484	5366	SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4664C>T	11.37:g.1092845C>T	ENSP00000415183:p.Thr1555Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	C	3.039	-0.197860	0.06219	.	.	ENSG00000198788	ENST00000441003;ENST00000359061	T;T	0.13538	2.58;2.91	1.59	1.59	0.23543	.	7739.210000	0.00610	U	0.000401	T	0.10508	0.0257	.	.	.	0.09310	N	1	P	0.34699	0.464	B	0.24269	0.052	T	0.33369	-0.9871	9	0.42905	T	0.14	.	10.2908	0.43594	0.0:1.0:0.0:0.0	.	1555	E7EUV1	.	I	1555;1556	ENSP00000415183:T1555I;ENSP00000351956:T1556I	ENSP00000351956:T1556I	T	+	2	0	MUC2	1082845	0.000000	0.05858	0.001000	0.08648	0.338000	0.28826	0.112000	0.15479	0.906000	0.36621	0.109000	0.15622	ACA		0.632	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		T	1092845	C	T	1092845	3	4	682	1	0	0	0	0	1	0	0	0	9982	478	17	2	4782	2	MUC2	11	1092845	Missense_Mutation	SNP	C	TCGA-KO-8411-01A-11D-2310-10	74574	1092845	133913671	39	44190										
MYBPC3	4607	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr11	47356593	47356593	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	ctgcacaaaggggcactcacGcaggatctcctgcactgtca	10	14	3	0	rs397515992		TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr11:47356593G>A	ENST00000545968.1	-	27	2959	c.2905C>T	c.(2905-2907)Caa>Taa	p.Q969*	MYBPC3_ENST00000256993.4_Splice_Site_p.Q968*|MYBPC3_ENST00000399249.2_Splice_Site_p.Q969*	NM_000256.3	NP_000247.2	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	969					cardiac muscle contraction (GO:0060048)|cell adhesion (GO:0007155)|heart morphogenesis (GO:0003007)|muscle filament sliding (GO:0030049)|myosin filament assembly (GO:0031034)|positive regulation of ATPase activity (GO:0032781)|regulation of heart rate (GO:0002027)|regulation of muscle filament sliding (GO:0032971)|regulation of striated muscle contraction (GO:0006942)|sarcomere organization (GO:0045214)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)	A band (GO:0031672)|C zone (GO:0014705)|cytosol (GO:0005829)|sarcomere (GO:0030017)|striated muscle myosin thick filament (GO:0005863)	ATPase activator activity (GO:0001671)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|myosin binding (GO:0017022)|myosin heavy chain binding (GO:0032036)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			breast(2)|central_nervous_system(2)|endometrium(9)|kidney(1)|large_intestine(4)|lung(16)|ovary(3)|prostate(3)|urinary_tract(2)	42				Lung(87;0.176)		GGGCACTCACGCAGGATCTCC	0.642																																																0			GRCh37	CM981328	MYBPC3	M							27	32	31					11																	47356593		1984	4157	6141	SO:0001630	splice_region_variant	4607			X84075	CCDS53621.1	11p11.2	2014-09-17	2001-11-28			ENSG00000134571		"Myosin binding proteins", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	7551	protein-coding gene	gene with protein product		600958	"myosin-binding protein C, cardiac"	CMH4		7744002, 8358441	Standard	NM_000256		Approved	MYBP-C, FHC	uc021qis.1	Q14896		ENST00000545968.1:c.2905+1C>T	11.37:g.47356593G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A5PL00|Q16410|Q6R2F7|Q9UE27|Q9UM53	Nonsense_Mutation	SNP	ENST00000545968.1	37	CCDS53621.1	.	.	.	.	.	.	.	.	.	.	G	38	6.868535	0.97897	.	.	ENSG00000134571	ENST00000545968;ENST00000399249;ENST00000256993	.	.	.	5.16	3.14	0.36123	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	12.1437	0.54012	0.0743:0.1318:0.7939:0.0	.	.	.	.	X	969;969;968	.	.	Q	-	1	0	MYBPC3	47313169	1.000000	0.71417	1.000000	0.80357	0.904000	0.53231	3.648000	0.54410	1.185000	0.42971	0.455000	0.32223	CAA		0.642	MYBPC3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000392271.3		Nonsense_Mutation	A	47356593	G	A	47356593	5	1	682	1	0	0	0	0	0	0	1	0	10020	1101	38	1	951	1	MYBPC3	11	47356593	Splice_Site	SNP	G	TCGA-KO-8411-01A-11D-2310-10	46263748	47356593	87649923	40	44191										
KRTAP5-10	387273	mdanderson.org	37	chr11	71276725	71276725	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	tggctccggctgtgggggctAtggctctggctgtgggggct	20	9	1	0	rs201471375	byFrequency	TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr11:71276725A>G	ENST00000398531.1	+	1	117	c.92A>G	c.(91-93)tAt>tGt	p.Y31C	KRTAP5-10_ENST00000376536.4_Missense_Mutation_p.Y31C	NM_001012710.1	NP_001012728.1	Q6L8G5	KR510_HUMAN	keratin associated protein 5-10	31						keratin filament (GO:0045095)				endometrium(2)|large_intestine(1)|lung(4)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	12						TGTGGGGGCTATGGCTCTGGC	0.677																																																0																																										SO:0001583	missense	387273			AB126079	CCDS41684.1	11q13.4	2008-02-05			ENSG00000204572	ENSG00000204572		"Keratin associated proteins"	23605	protein-coding gene	gene with protein product						15144888	Standard	NM_001012710		Approved	KRTAP5.10	uc001oqt.1	Q6L8G5	OTTHUMG00000057585	ENST00000398531.1:c.92A>G	11.37:g.71276725A>G	ENSP00000381542:p.Tyr31Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B9EHA4	Missense_Mutation	SNP	ENST00000398531.1	37	CCDS41684.1	.	.	.	.	.	.	.	.	.	.	g	4.044	0.005740	0.07866	.	.	ENSG00000204572	ENST00000398531;ENST00000376536	T;T	0.00856	5.61;5.85	1.67	1.67	0.24075	.	.	.	.	.	T	0.00271	0.0008	N	0.00031	-2.595	0.20638	N	0.999878	B	0.02656	0.0	B	0.01281	0.0	T	0.46816	-0.9164	9	0.48119	T	0.1	.	4.2372	0.10632	0.3976:0.0:0.6024:0.0	.	31	Q6L8G5	KR510_HUMAN	C	31	ENSP00000381542:Y31C;ENSP00000365719:Y31C	ENSP00000365719:Y31C	Y	+	2	0	KRTAP5-10	70954373	0.001000	0.12720	0.866000	0.34008	0.119000	0.20118	-1.171000	0.03115	0.049000	0.15920	-0.473000	0.04963	TAT		0.677	KRTAP5-10-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000127968.2			G	71276725	A	G	71276725	3	3	682	1	0	0	0	0	1	0	0	0	8566	449	16	3	94	3	KRTAP5-10	11	71276725	Missense_Mutation	SNP	A	TCGA-KO-8411-01A-11D-2310-10	23920132	71276725	63729791	41	44192										
ARHGEF17	9828	mdanderson.org	37	chr11	73020389	73020389	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	cctcctgctcctcctcctccAtcgccgcctcctatcctgtc	4	23	0	0			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr11:73020389A>T	ENST00000263674.3	+	1	1056	c.706A>T	c.(706-708)Atc>Ttc	p.I236F	RP11-800A3.7_ENST00000546324.1_RNA	NM_014786.3	NP_055601.2	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	236					actin cytoskeleton organization (GO:0030036)|apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	guanyl-nucleotide exchange factor activity (GO:0005085)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(15)|ovary(2)|skin(2)	32						CTCCTCCTCCATCGCCGCCTC	0.677																																																0													12	15	14					11																	73020389		2048	3983	6031	SO:0001583	missense	9828			AF378754	CCDS8221.1	11q13.3	2011-11-16			ENSG00000110237	ENSG00000110237		"Rho guanine nucleotide exchange factors"	21726	protein-coding gene	gene with protein product	"Rho-specific guanine-nucleotide exchange factor 164 kDa", "tumor endothelial marker 4"					11559528, 12071859	Standard	NM_014786		Approved	TEM4, KIAA0337, p164-RhoGEF	uc001otu.3	Q96PE2	OTTHUMG00000167971	ENST00000263674.3:c.706A>T	11.37:g.73020389A>T	ENSP00000263674:p.Ile236Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP20|Q86XU2|Q8N2S0|Q9Y4G3	Missense_Mutation	SNP	ENST00000263674.3	37	CCDS8221.1	.	.	.	.	.	.	.	.	.	.	A	12.21	1.870463	0.33069	.	.	ENSG00000110237	ENST00000263674	T	0.59638	0.25	4.61	0.695	0.18070	.	0.993735	0.08148	N	0.990484	T	0.35480	0.0933	N	0.24115	0.695	0.19775	N	0.999951	P	0.35982	0.531	B	0.24394	0.053	T	0.25117	-1.0141	10	0.54805	T	0.06	-1.1385	5.2264	0.15397	0.6445:0.1573:0.1981:0.0	.	236	Q96PE2	ARHGH_HUMAN	F	236	ENSP00000263674:I236F	ENSP00000263674:I236F	I	+	1	0	ARHGEF17	72698037	0.000000	0.05858	0.765000	0.31456	0.926000	0.56050	-0.104000	0.10923	0.647000	0.30713	0.379000	0.24179	ATC		0.677	ARHGEF17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397365.1	NM_014786		T	73020389	A	T	73020389	3	4	682	1	0	0	0	0	1	0	0	0	900	217	8	5	708	5	ARHGEF17	11	73020389	Missense_Mutation	SNP	A	TCGA-KO-8411-01A-11D-2310-10	1743664	73020389	61986127	42	44193										
ATN1	1822	mdanderson.org	37	chr12	7045906	7045906	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	cagcaacagcagcagcagcaGcagcagcagcagcagcagca	12	14	0	0	rs377147612		TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr12:7045906G>A	ENST00000356654.4	+	5	1713	c.1476G>A	c.(1474-1476)caG>caA	p.Q492Q	ATN1_ENST00000396684.2_Silent_p.Q492Q	NM_001007026.1	NP_001007027.1	P54259	ATN1_HUMAN	atrophin 1	492	Poly-Gln.				cell migration (GO:0016477)|central nervous system development (GO:0007417)|maintenance of cell polarity (GO:0030011)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron apoptotic process (GO:0051402)|toxin metabolic process (GO:0009404)|transcription, DNA-templated (GO:0006351)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)	protein domain specific binding (GO:0019904)|transcription corepressor activity (GO:0003714)			breast(5)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(15)|ovary(2)|pancreas(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	40						agcagcagcagcagcagcagc	0.647																																																0													43	53	49					12																	7045906		2188	4263	6451	SO:0001819	synonymous_variant	1822			U23851	CCDS31734.1	12p	2007-08-01	2005-03-15	2005-03-17		ENSG00000111676			3033	protein-coding gene	gene with protein product		607462	"dentatorubral-pallidoluysian atrophy (atrophin-1)"	D12S755E, DRPLA		8136826	Standard	NM_001940		Approved	B37	uc001qrw.1	P54259		ENST00000356654.4:c.1476G>A	12.37:g.7045906G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q99495|Q99621|Q9UEK7	Silent	SNP	ENST00000356654.4	37	CCDS31734.1																																																																																				0.647	ATN1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401948.2	NM_001940		A	7045906	G	A	7045906	2	1	682	1	0	0	0	0	0	0	0	1	1111	962	34	2		2	ATN1	12	7045906	Silent	SNP	G	TCGA-KO-8411-01A-11D-2310-10		7045906	126805989	43	44194										
CLEC9A	283420	hgsc.bcm.edu;mdanderson.org	37	chr12	10205356	10205356	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	cagacacttaccagaaatgtCtgtcttccaacaaatgttca	5	11	3	2			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr12:10205356C>T	ENST00000355819.1	+	4	683	c.70C>T	c.(70-72)Ctg>Ttg	p.L24L	CLEC9A_ENST00000544751.1_3'UTR	NM_207345.2	NP_997228.1	Q6UXN8	CLC9A_HUMAN	C-type lectin domain family 9, member A	24					positive regulation of cytokine secretion (GO:0050715)|receptor-mediated endocytosis (GO:0006898)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)			breast(1)|endometrium(2)|kidney(2)|large_intestine(5)|lung(8)|ovary(1)|prostate(2)|urinary_tract(1)	22						CCAGAAATGTCTGTCTTCCAA	0.403																																																0													106	101	103					12																	10205356		2203	4300	6503	SO:0001819	synonymous_variant	283420				CCDS8611.1	12p13.31	2010-04-27				ENSG00000197992		"C-type lectin domain containing"	26705	protein-coding gene	gene with protein product		612252					Standard	NM_207345		Approved	UNQ9341, HEEE9341	uc001qxa.3	Q6UXN8		ENST00000355819.1:c.70C>T	12.37:g.10205356C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0ZBM2	Silent	SNP	ENST00000355819.1	37	CCDS8611.1																																																																																				0.403	CLEC9A-001	PUTATIVE	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000399564.1	NM_207345		T	10205356	C	T	10205356	2	4	682	1	0	0	0	0	0	0	0	1	3524	912	32	2		2	CLEC9A	12	10205356	Silent	SNP	C	TCGA-KO-8411-01A-11D-2310-10	3159450	10205356	123646539	44	44195										
EPS8	2059	broad.mit.edu;hgsc.bcm.edu	37	chr12	15784389	15784392	+	Frame_Shift_Del	DEL	TTGT	TTGT	-													0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	aacttacggtccaccggaagTtgtttgtgtctctggctgtc							TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	TTGT	TTGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr12:15784389_15784392delTTGT	ENST00000281172.5	-	18	2464_2467	c.2028_2031delACAA	c.(2026-2031)aaacaafs	p.KQ676fs	EPS8_ENST00000542903.1_Frame_Shift_Del_p.KQ416fs|EPS8_ENST00000543523.1_Frame_Shift_Del_p.KQ676fs|EPS8_ENST00000543612.1_Frame_Shift_Del_p.KQ676fs|EPS8_ENST00000540613.1_Frame_Shift_Del_p.KQ416fs	NM_004447.5	NP_004438.3	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway substrate 8	676	Effector region. {ECO:0000250}.				actin crosslink formation (GO:0051764)|actin cytoskeleton reorganization (GO:0031532)|actin filament bundle assembly (GO:0051017)|actin polymerization-dependent cell motility (GO:0070358)|adult locomotory behavior (GO:0008344)|barbed-end actin filament capping (GO:0051016)|behavioral response to ethanol (GO:0048149)|cell proliferation (GO:0008283)|dendritic cell migration (GO:0036336)|epidermal growth factor receptor signaling pathway (GO:0007173)|exit from mitosis (GO:0010458)|positive regulation of signal transduction (GO:0009967)|Rac protein signal transduction (GO:0016601)|regulation of actin filament length (GO:0030832)|regulation of cell shape (GO:0008360)|signal transduction (GO:0007165)	cell cortex (GO:0005938)|cell junction (GO:0030054)|extracellular vesicular exosome (GO:0070062)|N-methyl-D-aspartate selective glutamate receptor complex (GO:0017146)|neuron projection (GO:0043005)|postsynaptic density (GO:0014069)|ruffle membrane (GO:0032587)|stereocilium (GO:0032420)|vesicle (GO:0031982)	actin binding (GO:0003779)|Rac GTPase binding (GO:0048365)|SH3/SH2 adaptor activity (GO:0005070)			NS(1)|breast(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(9)|ovary(3)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	33		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		CCACCGGAAGTTGTTTGTGTCTCT	0.441																																																0																																										SO:0001589	frameshift_variant	2059			U12535	CCDS31753.1	12p12.3	2008-05-02				ENSG00000151491			3420	protein-coding gene	gene with protein product		600206				8084614	Standard	NM_004447		Approved		uc001rdb.3	Q12929		ENST00000281172.5:c.2028_2031delACAA	12.37:g.15784393_15784396delTTGT	ENSP00000281172:p.Lys676fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMC3|A8K6W2|A8KA66|B4DX66|Q8N6J0	Frame_Shift_Del	DEL	ENST00000281172.5	37	CCDS31753.1																																																																																				0.441	EPS8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401093.1			-	15784392	TTGT	-	15784389	7	5	682	1	0	1	0	1	0	0	0	0	5196	1722	60	0	453	0	EPS8	12	15784389	Frame_Shift_Del	DEL	TTGT	TCGA-KO-8411-01A-11D-2310-10	5579033	15784389	118067506	45	44196	462	2								
EPS8	2059	bcgsc.ca	37	chr12	15784390	15784393	+	Frame_Shift_Del	DEL	TTGT	TTGT	-													0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	acttacggtccaccggaagtTgtttgtgtctctggctgtct							TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	TTGT	TTGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr12:15784390_15784393delTTGT	ENST00000281172.5	-	18	2463_2466	c.2027_2030delACAA	c.(2026-2031)aacaaafs	p.NK676fs	EPS8_ENST00000542903.1_Frame_Shift_Del_p.NK416fs|EPS8_ENST00000543523.1_Frame_Shift_Del_p.NK676fs|EPS8_ENST00000543612.1_Frame_Shift_Del_p.NK676fs|EPS8_ENST00000540613.1_Frame_Shift_Del_p.NK416fs	NM_004447.5	NP_004438.3	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway substrate 8	676	Effector region. {ECO:0000250}.				actin crosslink formation (GO:0051764)|actin cytoskeleton reorganization (GO:0031532)|actin filament bundle assembly (GO:0051017)|actin polymerization-dependent cell motility (GO:0070358)|adult locomotory behavior (GO:0008344)|barbed-end actin filament capping (GO:0051016)|behavioral response to ethanol (GO:0048149)|cell proliferation (GO:0008283)|dendritic cell migration (GO:0036336)|epidermal growth factor receptor signaling pathway (GO:0007173)|exit from mitosis (GO:0010458)|positive regulation of signal transduction (GO:0009967)|Rac protein signal transduction (GO:0016601)|regulation of actin filament length (GO:0030832)|regulation of cell shape (GO:0008360)|signal transduction (GO:0007165)	cell cortex (GO:0005938)|cell junction (GO:0030054)|extracellular vesicular exosome (GO:0070062)|N-methyl-D-aspartate selective glutamate receptor complex (GO:0017146)|neuron projection (GO:0043005)|postsynaptic density (GO:0014069)|ruffle membrane (GO:0032587)|stereocilium (GO:0032420)|vesicle (GO:0031982)	actin binding (GO:0003779)|Rac GTPase binding (GO:0048365)|SH3/SH2 adaptor activity (GO:0005070)			NS(1)|breast(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(9)|ovary(3)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	33		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		CACCGGAAGTTGTTTGTGTCTCTG	0.446																																																0																																										SO:0001589	frameshift_variant	2059			U12535	CCDS31753.1	12p12.3	2008-05-02				ENSG00000151491			3420	protein-coding gene	gene with protein product		600206				8084614	Standard	NM_004447		Approved		uc001rdb.3	Q12929		ENST00000281172.5:c.2027_2030delACAA	12.37:g.15784390_15784393delTTGT	ENSP00000281172:p.Asn676fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMC3|A8K6W2|A8KA66|B4DX66|Q8N6J0	Frame_Shift_Del	DEL	ENST00000281172.5	37	CCDS31753.1																																																																																				0.446	EPS8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401093.1			-	15784393	TTGT	-	15784390	7	5	682	1	0	1	0	1	0	0	0	0	5196	1812	63	0	454	0	EPS8	12	15784390	Frame_Shift_Del	DEL	TTGT	TCGA-KO-8411-01A-11D-2310-10	1	15784390	118067505	46	44197	462	2								
SLC4A8	9498	broad.mit.edu	37	chr12	51868965	51868966	+	Frame_Shift_Ins	INS	-	-	G													0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	agcaccttaaagacgtttaaINSgacgagccgttatttcccaa							TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr12:51868965_51868966insG	ENST00000453097.2	+	16	2364_2365	c.2147_2148insG	c.(2146-2151)aagacgfs	p.T717fs	SLC4A8_ENST00000514353.3_Frame_Shift_Ins_p.T664fs|SLC4A8_ENST00000358657.3_Frame_Shift_Ins_p.T744fs|SLC4A8_ENST00000394856.1_Frame_Shift_Ins_p.T664fs	NM_001039960.2|NM_001258401.2	NP_001035049.1|NP_001245330.1			solute carrier family 4, sodium bicarbonate cotransporter, member 8											NS(1)|breast(2)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(18)|ovary(3)|pancreas(1)|prostate(1)|skin(6)|stomach(2)|urinary_tract(5)	55				BRCA - Breast invasive adenocarcinoma(357;0.15)		AAGACGTTTAAGACGAGCCGTT	0.446																																																0																																										SO:0001589	frameshift_variant	9498			AB018282	CCDS44890.1, CCDS58232.1, CCDS58233.1, CCDS73470.1	12q13.13	2013-05-22			ENSG00000050438	ENSG00000050438		"Solute carriers"	11034	protein-coding gene	gene with protein product		605024				11133997	Standard	NM_001039960		Approved	NBC3	uc001rys.2	Q2Y0W8	OTTHUMG00000169489	ENST00000453097.2:c.2148dupG	12.37:g.51868966_51868966dupG	ENSP00000405812:p.Thr717fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000453097.2	37	CCDS44890.1																																																																																				0.446	SLC4A8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404356.1	NM_004858		G	51868966	-	G	51868965	7	5	682	1	0	1	1	0	0	0	0	0	14672	72	3	0	2209	0	SLC4A8	12	51868965	Frame_Shift_Ins	INS	-	TCGA-KO-8411-01A-11D-2310-10	36084575	51868965	81982930	47	44198										
MARCH9	92979	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	58152575	58152575	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	cggacgctcttgcctcagcgCtgcggttatacaatcttgca	10	13	3	0			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr12:58152575C>T	ENST00000266643.5	+	4	1367	c.936C>T	c.(934-936)cgC>cgT	p.R312R	MARCH9_ENST00000548358.1_Silent_p.R199R	NM_138396.5	NP_612405.2	Q86YJ5	MARH9_HUMAN	membrane-associated ring finger (C3HC4) 9	312					protein ubiquitination (GO:0016567)	Golgi stack (GO:0005795)|integral component of membrane (GO:0016021)|lysosome (GO:0005764)|trans-Golgi network (GO:0005802)	ligase activity (GO:0016874)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|large_intestine(2)|lung(1)	4	all_cancers(7;4.96e-69)|Lung NSC(6;5.5e-25)|all_lung(6;3.87e-23)|all_epithelial(6;1.66e-15)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)		GBM - Glioblastoma multiforme(5;4.21e-120)|all cancers(5;3.75e-83)|BRCA - Breast invasive adenocarcinoma(9;0.0294)			TGCCTCAGCGCTGCGGTTATA	0.657																																																0													28	29	28					12																	58152575		2203	4300	6503	SO:0001819	synonymous_variant	92979			BC009489	CCDS31847.1	12q14.1	2013-01-09				ENSG00000139266		"MARCH membrane-associated ring fingers", "RING-type (C3HC4) zinc fingers"	25139	protein-coding gene	gene with protein product		613336				14722266	Standard	NM_138396		Approved	RNF179, FLJ36578	uc001spx.2	Q86YJ5		ENST00000266643.5:c.936C>T	12.37:g.58152575C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9U9|Q86VN5|Q96GG2	Silent	SNP	ENST00000266643.5	37	CCDS31847.1																																																																																				0.657	MARCH9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409244.1	NM_138396		T	58152575	C	T	58152575	2	4	682	1	0	0	0	0	0	0	0	1	9315	784	28	2		2	MARCH9	12	58152575	Silent	SNP	C	TCGA-KO-8411-01A-11D-2310-10	6283610	58152575	75699320	48	44199										
PPFIA2	8499	broad.mit.edu	37	chr12	81675147	81675147	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	agtaacttctgtactgaggtAaccccaagctgggaagccat	10	10	1	1			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr12:81675147A>G	ENST00000549396.1	-	27	3261	c.3101T>C	c.(3100-3102)tTa>tCa	p.L1034S	PPFIA2_ENST00000333447.7_Missense_Mutation_p.L1019S|PPFIA2_ENST00000541570.2_Missense_Mutation_p.L570S|PPFIA2_ENST00000550359.2_Missense_Mutation_p.L881S|PPFIA2_ENST00000552948.1_Missense_Mutation_p.L1013S|PPFIA2_ENST00000545296.2_Intron|PPFIA2_ENST00000548586.1_Missense_Mutation_p.L1028S|PPFIA2_ENST00000549325.1_Missense_Mutation_p.L1019S|PPFIA2_ENST00000443686.3_Missense_Mutation_p.L929S|PPFIA2_ENST00000541017.1_Missense_Mutation_p.L220S|RP11-121G22.3_ENST00000549161.1_lincRNA|PPFIA2_ENST00000407050.4_Missense_Mutation_p.L933S|PPFIA2_ENST00000550584.2_Missense_Mutation_p.L1034S	NM_001220476.1|NM_001282536.1|NM_003625.3	NP_001207405.1|NP_001269465.1|NP_003616.2	O75334	LIPA2_HUMAN	protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 2	1034	SAM 2. {ECO:0000255|PROSITE- ProRule:PRU00184}.				cell-matrix adhesion (GO:0007160)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|presynaptic active zone (GO:0048786)				NS(1)|autonomic_ganglia(1)|central_nervous_system(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(15)|lung(37)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(5)	85						GTACTGAGGTAACCCCAAGCT	0.393																																																0													115	110	111					12																	81675147		1840	4113	5953	SO:0001583	missense	8499			AF034799	CCDS55850.1, CCDS55851.1, CCDS55852.1, CCDS55853.1, CCDS55854.1, CCDS55855.1, CCDS55856.1, CCDS55857.1, CCDS59236.1, CCDS73503.1	12q21.31	2013-01-10						"Sterile alpha motif (SAM) domain containing"	9246	protein-coding gene	gene with protein product	"Liprin-alpha2"	603143				9624153	Standard	NM_003625		Approved		uc031qis.1	O75334		ENST00000549396.1:c.3101T>C	12.37:g.81675147A>G	ENSP00000450337:p.Leu1034Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVT5|B3KXA0|B7Z2A6|B7Z3U9|B7Z663|B7ZKZ5|E7ERB8|E7ETG6|F8VP68|Q2M3G8	Missense_Mutation	SNP	ENST00000549396.1	37	CCDS55857.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	23.5|23.5	4.428353|4.428353	0.83667|0.83667	.|.	.|.	ENSG00000139220|ENSG00000139220	ENST00000549396;ENST00000549325;ENST00000541570;ENST00000541017;ENST00000407050;ENST00000541501;ENST00000333447;ENST00000548586;ENST00000443686;ENST00000552948|ENST00000550018	T;T;T;T;T;T;T;T;T|.	0.62788|.	0.0;0.0;0.0;0.0;0.0;0.0;0.0;0.0;0.0|.	5.51|5.51	5.51|5.51	0.81932|0.81932	Sterile alpha motif domain (2);Sterile alpha motif/pointed domain (2);Sterile alpha motif, type 1 (1);|.	0.000000|.	0.64402|.	D|.	0.000003|.	D|D	0.85353|0.85353	0.5677|0.5677	M|M	0.92367|0.92367	3.3|3.3	0.80722|0.80722	D|D	1|1	D|.	0.89917|.	1.0|.	D|.	0.87578|.	0.998|.	D|D	0.88989|0.88989	0.3413|0.3413	10|5	0.87932|.	D|.	0|.	-8.0075|-8.0075	15.9105|15.9105	0.79470|0.79470	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	1034|.	O75334|.	LIPA2_HUMAN|.	S|H	1034;1019;570;220;933;1045;1019;1028;929;1013|137	ENSP00000450337:L1034S;ENSP00000450298:L1019S;ENSP00000438337:L570S;ENSP00000445532:L220S;ENSP00000385093:L933S;ENSP00000327416:L1019S;ENSP00000449338:L1028S;ENSP00000388373:L929S;ENSP00000447868:L1013S|.	ENSP00000327416:L1019S|.	L|Y	-|-	2|1	0|0	PPFIA2|PPFIA2	80199278|80199278	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.993000|0.993000	0.82548|0.82548	9.221000|9.221000	0.95188|0.95188	2.220000|2.220000	0.72140|0.72140	0.454000|0.454000	0.30748|0.30748	TTA|TAC		0.393	PPFIA2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000408030.1			G	81675147	A	G	81675147	3	3	682	1	0	0	0	0	1	0	0	0	12317	372	13	3	696	3	PPFIA2	12	81675147	Missense_Mutation	SNP	A	TCGA-KO-8411-01A-11D-2310-10	23522572	81675147	52176748	49	44200										
RILPL1	353116	broad.mit.edu	37	chr12	123957223	123957223	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	ttcttatctcgggagaagaaGctaaacctttggaagggaaa	11	6	2	2			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr12:123957223G>T	ENST00000376874.4	-	7	1309	c.1074C>A	c.(1072-1074)agC>agA	p.S358R	RILPL1_ENST00000544468.1_Missense_Mutation_p.S31R|SNRNP35_ENST00000527158.2_3'UTR|RILPL1_ENST00000340724.6_Missense_Mutation_p.S238R	NM_178314.3	NP_847884.2	Q5EBL4	RIPL1_HUMAN	Rab interacting lysosomal protein-like 1	358					epithelial cell morphogenesis (GO:0003382)|intracellular protein transport (GO:0006886)|regulation of neuron death (GO:1901214)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|primary cilium (GO:0072372)		p.S358R(3)		endometrium(1)|kidney(2)|large_intestine(1)|lung(2)|upper_aerodigestive_tract(1)	7	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.00067)|all cancers(50;0.00836)|BRCA - Breast invasive adenocarcinoma(302;0.197)		GGGAGAAGAAGCTAAACCTTT	0.498																																																3	Substitution - Missense(3)	kidney(2)|endometrium(1)											65	63	63					12																	123957223		1944	4154	6098	SO:0001583	missense	353116			AK097550	CCDS45006.1	12q24.31	2007-11-27			ENSG00000188026	ENSG00000188026			26814	protein-coding gene	gene with protein product		614092				14668488	Standard	NM_178314		Approved	FLJ39378	uc001ufe.2	Q5EBL4	OTTHUMG00000168686	ENST00000376874.4:c.1074C>A	12.37:g.123957223G>T	ENSP00000366070:p.Ser358Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q66K36|Q8N1M0	Missense_Mutation	SNP	ENST00000376874.4	37	CCDS45006.1	.	.	.	.	.	.	.	.	.	.	G	20.7	4.028945	0.75504	.	.	ENSG00000188026	ENST00000376874;ENST00000340724;ENST00000544468	T;T;T	0.27720	1.65;1.65;1.65	5.47	4.47	0.54385	.	.	.	.	.	T	0.37892	0.1020	L	0.29908	0.895	0.51767	D	0.999936	D;D	0.89917	1.0;0.997	D;D	0.85130	0.997;0.991	T	0.11717	-1.0576	9	0.49607	T	0.09	-0.9352	6.5327	0.22336	0.2105:0.0:0.7895:0.0	.	358;207	Q5EBL4;Q5EBL4-3	RIPL1_HUMAN;.	R	358;238;31	ENSP00000366070:S358R;ENSP00000345874:S238R;ENSP00000442991:S31R	ENSP00000345874:S238R	S	-	3	2	RILPL1	122523176	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.403000	0.44530	2.566000	0.86566	0.655000	0.94253	AGC		0.498	RILPL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400595.1	NM_178314		T	123957223	G	T	123957223	3	4	682	1	0	0	0	0	1	0	0	0	13374	962	34	4	141	4	RILPL1	12	123957223	Missense_Mutation	SNP	G	TCGA-KO-8411-01A-11D-2310-10	42282076	123957223	9894672	50	44201										
XPO4	64328	broad.mit.edu	37	chr13	21373326	21373326	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	ctgtccaatactgctgtttgGtttctgtgtccatatgtgca	9	9	1	0			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr13:21373326G>A	ENST00000255305.6	-	16	2371	c.2300C>T	c.(2299-2301)aCc>aTc	p.T767I	XPO4_ENST00000400602.2_Missense_Mutation_p.T767I			Q9C0E2	XPO4_HUMAN	exportin 4	767					positive regulation of protein export from nucleus (GO:0046827)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				breast(1)|endometrium(10)|kidney(4)|large_intestine(7)|lung(14)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	41		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)		CTGCTGTTTGGTTTCTGTGTC	0.443																																																0													252	246	248					13																	21373326		1919	4139	6058	SO:0001583	missense	64328			AB051508	CCDS41872.1	13q11	2011-04-13			ENSG00000132953	ENSG00000132953		"Exportins"	17796	protein-coding gene	gene with protein product		611449				11214970, 10944119	Standard	NM_022459		Approved	FLJ13046, KIAA1721	uc001unq.4	Q9C0E2	OTTHUMG00000016528	ENST00000255305.6:c.2300C>T	13.37:g.21373326G>A	ENSP00000255305:p.Thr767Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUZ5|Q8N3V6|Q9H934	Missense_Mutation	SNP	ENST00000255305.6	37	CCDS41872.1	.	.	.	.	.	.	.	.	.	.	G	13.77	2.336919	0.41398	.	.	ENSG00000132953	ENST00000400602;ENST00000456108;ENST00000255305	T;T	0.54479	0.57;0.57	5.98	5.98	0.97165	Armadillo-type fold (1);	0.145132	0.64402	D	0.000008	T	0.42899	0.1223	L	0.29908	0.895	0.51767	D	0.999936	B	0.13145	0.007	B	0.08055	0.003	T	0.16928	-1.0386	10	0.38643	T	0.18	-14.1782	15.5733	0.76356	0.0673:0.0:0.9327:0.0	.	767	Q9C0E2	XPO4_HUMAN	I	767;637;767	ENSP00000383444:T767I;ENSP00000255305:T767I	ENSP00000255305:T767I	T	-	2	0	XPO4	20271326	1.000000	0.71417	1.000000	0.80357	0.964000	0.63967	7.526000	0.81920	2.835000	0.97688	0.650000	0.86243	ACC		0.443	XPO4-001	KNOWN	non_canonical_conserved|non_canonical_U12|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000044096.1	NM_022459		A	21373326	G	A	21373326	3	1	682	1	0	0	0	0	1	0	0	0	17458	1261	44	2	1187	2	XPO4	13	21373326	Missense_Mutation	SNP	G	TCGA-KO-8411-01A-11D-2310-10		21373326	93796552	51	44202										
CDH24	64403	broad.mit.edu	37	chr14	23522739	23522739	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	aggggagtccaggtcagccgCggagatctggcctaccaggg	17	11	2	1			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr14:23522739C>T	ENST00000267383.5	-	6	1284	c.1192G>A	c.(1192-1194)Gcg>Acg	p.A398T	CDH24_ENST00000487137.2_Missense_Mutation_p.A398T|CDH24_ENST00000554034.1_Missense_Mutation_p.A398T|CDH24_ENST00000397359.3_Missense_Mutation_p.A398T			Q86UP0	CAD24_HUMAN	cadherin 24, type 2	398	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				adherens junction organization (GO:0034332)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|homophilic cell adhesion (GO:0007156)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	alpha-catenin binding (GO:0045294)|beta-catenin binding (GO:0008013)|calcium ion binding (GO:0005509)|delta-catenin binding (GO:0070097)			breast(1)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(6)|lung(5)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	26	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00654)		AGGTCAGCCGCGGAGATCTGG	0.632																																																0													34	32	33					14																	23522739		2203	4300	6503	SO:0001583	missense	64403			AL137477	CCDS9585.1, CCDS9586.1	14q11.2	2010-08-20	2009-11-20		ENSG00000139880	ENSG00000139880		"Cadherins / Major cadherins"	14265	protein-coding gene	gene with protein product			"cadherin-like 24"			12734196	Standard	NM_022478		Approved	CDH11L	uc001wil.3	Q86UP0	OTTHUMG00000028715	ENST00000267383.5:c.1192G>A	14.37:g.23522739C>T	ENSP00000267383:p.Ala398Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DS44|Q86UP1|Q9NT84	Missense_Mutation	SNP	ENST00000267383.5	37	CCDS9585.1	.	.	.	.	.	.	.	.	.	.	C	23.6	4.431928	0.83776	.	.	ENSG00000139880	ENST00000397359;ENST00000487137;ENST00000554034;ENST00000267383	T;T;T;T	0.61392	0.11;0.11;0.11;0.11	5.39	5.39	0.77823	Cadherin (4);Cadherin-like (1);	0.000000	0.85682	D	0.000000	D	0.84611	0.5510	H	0.96662	3.86	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	0.999;0.999;1.0	D	0.89350	0.3660	10	0.87932	D	0	.	18.0965	0.89492	0.0:1.0:0.0:0.0	.	398;398;398	Q86UP0-2;Q96LQ7;Q86UP0	.;.;CAD24_HUMAN	T	398	ENSP00000380517:A398T;ENSP00000434821:A398T;ENSP00000452493:A398T;ENSP00000267383:A398T	ENSP00000267383:A398T	A	-	1	0	CDH24	22592579	1.000000	0.71417	0.218000	0.23776	0.425000	0.31504	7.383000	0.79741	2.804000	0.96469	0.655000	0.94253	GCG		0.632	CDH24-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000257241.2	NM_022478		T	23522739	C	T	23522739	3	4	682	1	0	0	0	0	1	0	0	0	3111	768	27	1	1295	1	CDH24	14	23522739	Missense_Mutation	SNP	C	TCGA-KO-8411-01A-11D-2310-10		23522739	83826801	52	44203										
EXOC5	10640	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr14	57675499	57675499	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	catgcagagtatcaaaaagaTgtaataccattggaatctga	8	6	2	3			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr14:57675499T>C	ENST00000413566.2	-	18	2314	c.1955A>G	c.(1954-1956)cAt>cGt	p.H652R	EXOC5_ENST00000340918.7_Missense_Mutation_p.H587R	NM_006544.3	NP_006535.1	O00471	EXOC5_HUMAN	exocyst complex component 5	652					cellular protein metabolic process (GO:0044267)|exocytosis (GO:0006887)|membrane organization (GO:0061024)|post-Golgi vesicle-mediated transport (GO:0006892)|protein transport (GO:0015031)|vesicle docking (GO:0048278)	cytoplasm (GO:0005737)|cytosol (GO:0005829)				breast(3)|endometrium(1)|large_intestine(3)|lung(10)|ovary(3)|skin(1)|upper_aerodigestive_tract(1)	22						ATCAAAAAGATGTAATACCAT	0.343																																																0													45	44	44					14																	57675499		1835	4072	5907	SO:0001583	missense	10640			U85946	CCDS45111.1	14q22.3	2013-01-22	2005-11-01	2005-11-01	ENSG00000070367	ENSG00000070367			10696	protein-coding gene	gene with protein product		604469	"SEC10 (S. cerevisiae)-like 1", "SEC10-like 1 (S. cerevisiae)"	SEC10L1		9119050	Standard	XM_005267272		Approved	SEC10, SEC10P	uc001xct.3	O00471	OTTHUMG00000171309	ENST00000413566.2:c.1955A>G	14.37:g.57675499T>C	ENSP00000389934:p.His652Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6C5	Missense_Mutation	SNP	ENST00000413566.2	37	CCDS45111.1	.	.	.	.	.	.	.	.	.	.	T	16.25	3.070861	0.55539	.	.	ENSG00000070367	ENST00000413566;ENST00000340918	T;T	0.40476	1.04;1.03	5.54	5.54	0.83059	.	0.050800	0.85682	D	0.000000	T	0.25717	0.0626	N	0.08118	0	0.48901	D	0.999727	B;B	0.11235	0.001;0.004	B;B	0.16722	0.003;0.016	T	0.07635	-1.0762	10	0.22706	T	0.39	-6.9907	15.6841	0.77396	0.0:0.0:0.0:1.0	.	587;652	F8W9B8;O00471	.;EXOC5_HUMAN	R	652;587	ENSP00000389934:H652R;ENSP00000342100:H587R	ENSP00000342100:H587R	H	-	2	0	EXOC5	56745252	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.036000	0.88901	2.103000	0.63969	0.477000	0.44152	CAT		0.343	EXOC5-001	KNOWN	upstream_uORF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412905.1	NM_006544		C	57675499	T	C	57675499	3	2	682	1	0	0	0	0	1	0	0	0	5309	1464	51	3	175	3	EXOC5	14	57675499	Missense_Mutation	SNP	T	TCGA-KO-8411-01A-11D-2310-10	34152760	57675499	49674041	53	44204										
C14orf135	64430	broad.mit.edu	37	chr14	60581861	60581861	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	ctaaggatttacccagtggtCcggaaaaacatttttcatgg	9	8	1	0			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr14:60581861C>T	ENST00000406854.1	+	4	1593	c.1039C>T	c.(1039-1041)Ccg>Tcg	p.P347S	PCNXL4_ENST00000406949.1_Missense_Mutation_p.P113S|PCNXL4_ENST00000404681.2_Missense_Mutation_p.P347S|PCNXL4_ENST00000317623.4_Missense_Mutation_p.P113S			Q63HM2	PCX4_HUMAN	pecanex-like 4 (Drosophila)	347						integral component of membrane (GO:0016021)											ACCCAGTGGTCCGGAAAAACA	0.383																																																0													142	124	130					14																	60581861		1841	4086	5927	SO:0001583	missense	64430			AK022861		14q23.1	2012-07-18	2012-07-18	2012-07-18	ENSG00000126773	ENSG00000126773			20349	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 135"	C14orf135			Standard	NM_022495		Approved		uc001xer.4	Q63HM2	OTTHUMG00000150361	ENST00000406854.1:c.1039C>T	14.37:g.60581861C>T	ENSP00000384801:p.Pro347Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8MXM2|Q9BQG8|Q9H9F2	Missense_Mutation	SNP	ENST00000406854.1	37		.	.	.	.	.	.	.	.	.	.	C	0.715	-0.785530	0.02907	.	.	ENSG00000126773	ENST00000317623;ENST00000406854;ENST00000406949;ENST00000404681	T;T;T;T	0.21932	1.99;1.99;1.98;1.99	5.4	1.81	0.25067	.	.	.	.	.	T	0.05686	0.0149	N	0.00801	-1.175	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.40776	-0.9545	9	0.09338	T	0.73	.	8.6417	0.33981	0.0:0.3241:0.0:0.6759	.	347;113	Q63HM2;B5MC47	CN135_HUMAN;.	S	113;347;113;347	ENSP00000317396:P113S;ENSP00000384801:P347S;ENSP00000385201:P113S;ENSP00000385713:P347S	ENSP00000317396:P113S	P	+	1	0	C14orf135	59651614	0.000000	0.05858	0.001000	0.08648	0.004000	0.04260	0.548000	0.23314	0.445000	0.26639	-0.379000	0.06801	CCG		0.383	PCNXL4-005	KNOWN	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000317847.1	NM_022495		T	60581861	C	T	60581861	3	4	682	1	0	0	0	0	1	0	0	0	1747	855	30	2	343	2	C14orf135	14	60581861	Missense_Mutation	SNP	C	TCGA-KO-8411-01A-11D-2310-10	2906362	60581861	46767679	54	44205										
FAM174B	400451	mdanderson.org	37	chr15	93198687	93198688	+	Missense_Mutation	DNP	GA	GA	CC													0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	cgccactgctgttggagctgGagctgccgctgccgcccgcc					rs200080757		TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr15:93198687_93198688GA>CC	ENST00000327355.5	-	1	500_501	c.202_203TC>GG	c.(202-204)TCc>GGc	p.S68G	FAM174B_ENST00000555748.1_5'Flank|FAM174B_ENST00000555696.1_5'Flank	NM_207446.2	NP_997329.2	Q3ZCQ3	F174B_HUMAN	family with sequence similarity 174, member B	68				Missing (in Ref. 1; BAC11703 and 3; AAH60873). {ECO:0000305}.		integral component of membrane (GO:0016021)				endometrium(2)|lung(1)	3						GTTGGAGCTGGAGCTGCCGCTG	0.723																																																0																																										SO:0001583	missense	400451				CCDS45355.1	15q26.1	2012-10-03			ENSG00000185442	ENSG00000185442			34339	protein-coding gene	gene with protein product							Standard	NM_207446		Approved	LOC400451, MGC102891	uc010boe.3	Q3ZCQ3	OTTHUMG00000171744	ENST00000327355.5:c.202_203delinsCC	15.37:g.93198687_93198688delinsCC	ENSP00000329040:p.Ser68Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q3ZCR9|Q8NBH7	Missense_Mutation	DNP	ENST00000327355.5	37	CCDS45355.1																																																																																				0.723	FAM174B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000414931.1	NM_207446		CC	93198688	GA	CC	93198687	3	2	682	1	0	0	0	0	1	0	0	0	5500	1174	41	4	288	4	FAM174B	15	93198687	Missense_Mutation	DNP	GA	TCGA-KO-8411-01A-11D-2310-10		93198687	9332705	55	44206										
CFDP1	10428	broad.mit.edu	37	chr16	75448501	75448501	+	Frame_Shift_Del	DEL	T	T	-													0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	tggaatgctctgggcctttcTttttttcccttgggttttct							TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr16:75448501delT	ENST00000283882.3	-	2	289	c.157delA	c.(157-159)agafs	p.R53fs	CFDP1_ENST00000564286.1_5'UTR|RP11-77K12.1_ENST00000561887.1_Intron|RP11-77K12.1_ENST00000567194.1_Frame_Shift_Del_p.R110fs	NM_006324.2	NP_006315.1	Q9UEE9	CFDP1_HUMAN	craniofacial development protein 1	53	Glu-rich.				cell adhesion (GO:0007155)|multicellular organismal development (GO:0007275)|negative regulation of fibroblast apoptotic process (GO:2000270)|regulation of cell proliferation (GO:0042127)|regulation of cell shape (GO:0008360)					endometrium(1)|kidney(1)|large_intestine(1)|lung(1)|upper_aerodigestive_tract(1)	5						TGGGCCTTTCTTTTTTTCCCT	0.443																																																0													210	192	198					16																	75448501		2198	4300	6498	SO:0001589	frameshift_variant	10428			AB009285	CCDS10916.1	16q22.2-q22.3	2011-08-12			ENSG00000153774	ENSG00000153774			1873	protein-coding gene	gene with protein product	"Bucentaur", "centromere protein 29"	608108				9602175, 9006920, 11992732	Standard	NM_006324		Approved	BCNT, p97, CP27, SWC5, Yeti, CENP-29	uc002fdy.3	Q9UEE9	OTTHUMG00000137615	ENST00000283882.3:c.157delA	16.37:g.75448501delT	ENSP00000283882:p.Arg53fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00393|O00404|Q9UEF0|Q9UEF1|Q9UEF8	Frame_Shift_Del	DEL	ENST00000283882.3	37	CCDS10916.1																																																																																				0.443	CFDP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269031.2	NM_006324		-	75448501	T	-	75448501	7	5	682	1	0	1	0	1	0	0	0	0	3284	1617	56	0	766	0	CFDP1	16	75448501	Frame_Shift_Del	DEL	T	TCGA-KO-8411-01A-11D-2310-10		75448501	14906252	56	44207										
BPTF	2186	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr17	65960371	65960371	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	gtcagaattggtaccatgggCgctgcgttggcatcttgcaa	13	9	2	1			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr17:65960371C>T	ENST00000321892.4	+	27	8744	c.8683C>T	c.(8683-8685)Cgc>Tgc	p.R2895C	BPTF_ENST00000306378.6_Missense_Mutation_p.R2769C|BPTF_ENST00000424123.3_Missense_Mutation_p.R2613C|BPTF_ENST00000335221.5_Missense_Mutation_p.R2752C			Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2895					anterior/posterior pattern specification (GO:0009952)|ATP catabolic process (GO:0006200)|brain development (GO:0007420)|chromatin remodeling (GO:0006338)|embryonic placenta development (GO:0001892)|endoderm development (GO:0007492)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|microtubule cytoskeleton (GO:0015630)|nucleolus (GO:0005730)|nucleus (GO:0005634)|NURF complex (GO:0016589)	sequence-specific DNA binding (GO:0043565)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(16)|lung(23)|ovary(3)|pancreas(2)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	78	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)			GTACCATGGGCGCTGCGTTGG	0.463																																																0													149	141	144					17																	65960371		2203	4300	6503	SO:0001583	missense	2186			AY282495	CCDS11673.1	17q24	2013-01-28	2006-12-01	2006-12-01	ENSG00000171634	ENSG00000171634		"Zinc fingers, PHD-type"	3581	protein-coding gene	gene with protein product		601819	"fetal Alzheimer antigen"	FALZ		8975731, 10662542, 16728976	Standard	NM_182641		Approved	FAC1, NURF301	uc002jgf.3	Q12830	OTTHUMG00000132254	ENST00000321892.4:c.8683C>T	17.37:g.65960371C>T	ENSP00000315454:p.Arg2895Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NX67|Q7Z7D6|Q9UIG2	Missense_Mutation	SNP	ENST00000321892.4	37		.	.	.	.	.	.	.	.	.	.	C	16.81	3.225135	0.58668	.	.	ENSG00000171634	ENST00000306378;ENST00000335221;ENST00000321892;ENST00000342579	D;D;D	0.84873	-1.91;-1.91;-1.91	5.91	5.91	0.95273	.	.	.	.	.	D	0.93844	0.8031	M	0.86573	2.825	0.80722	D	1	B;P;D;D	0.89917	0.44;0.714;1.0;1.0	B;B;D;D	0.87578	0.122;0.271;0.998;0.998	D	0.93970	0.7248	9	0.87932	D	0	-5.0974	20.3011	0.98612	0.0:1.0:0.0:0.0	.	100;573;2769;2752	E9PE19;B4DJV8;Q12830-2;Q12830-4	.;.;.;.	C	2769;2752;2895;100	ENSP00000307208:R2769C;ENSP00000334351:R2752C;ENSP00000315454:R2895C	ENSP00000307208:R2769C	R	+	1	0	BPTF	63390833	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.770000	0.85390	2.809000	0.96659	0.555000	0.69702	CGC		0.463	BPTF-201	KNOWN	basic	protein_coding	protein_coding		NM_182641, NM_004459		T	65960371	C	T	65960371	3	4	682	1	0	0	0	0	1	0	0	0	1497	768	27	1	8789	1	BPTF	17	65960371	Missense_Mutation	SNP	C	TCGA-KO-8411-01A-11D-2310-10		65960371	15234839	57	44208										
ONECUT2	9480	hgsc.bcm.edu;ucsc.edu	37	chr18	55143925	55143925	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	ctgagcacagggggctcctcGtccacctccagcacgtgtac	11	16	0	1			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr18:55143925G>A	ENST00000491143.2	+	2	1517	c.1485G>A	c.(1483-1485)tcG>tcA	p.S495S		NM_004852.2	NP_004843.2	O95948	ONEC2_HUMAN	one cut homeobox 2	495					cell fate commitment (GO:0045165)|cilium assembly (GO:0042384)|endocrine pancreas development (GO:0031018)|epithelial cell development (GO:0002064)|liver development (GO:0001889)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|organ morphogenesis (GO:0009887)|peripheral nervous system neuron development (GO:0048935)|positive regulation of cell migration (GO:0030335)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of cell-matrix adhesion (GO:0001952)	nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			breast(1)|central_nervous_system(1)|endometrium(5)|kidney(1)|lung(4)|ovary(2)|skin(1)	15		Colorectal(73;0.234)		READ - Rectum adenocarcinoma(59;0.227)|Colorectal(16;0.245)		GGGGCTCCTCGTCCACCTCCA	0.552																																																0													29	32	31					18																	55143925		2068	4222	6290	SO:0001819	synonymous_variant	9480			Y18198	CCDS42440.1	18q21.31	2012-03-09	2007-07-16		ENSG00000119547	ENSG00000119547		"Homeoboxes / CUT class"	8139	protein-coding gene	gene with protein product		604894	"one cut domain, family member 2"			9915796	Standard	NM_004852		Approved	OC-2	uc002lgo.3	O95948	OTTHUMG00000159776	ENST00000491143.2:c.1485G>A	18.37:g.55143925G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000491143.2	37	CCDS42440.1	.	.	.	.	.	.	.	.	.	.	G	8.243	0.807355	0.16467	.	.	ENSG00000119547	ENST00000481727	.	.	.	5.9	-3.69	0.04450	.	.	.	.	.	T	0.37999	0.1024	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.37079	-0.9721	4	.	.	.	-11.4231	1.3888	0.02246	0.3881:0.1988:0.2581:0.1549	.	.	.	.	I	124	.	.	V	+	1	0	ONECUT2	53294923	0.000000	0.05858	0.835000	0.33067	0.998000	0.95712	-2.337000	0.01104	-0.394000	0.07727	0.650000	0.86243	GTC		0.552	ONECUT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357264.3			A	55143925	G	A	55143925	2	1	682	1	0	0	0	0	0	0	0	1	10876	1132	40	1		1	ONECUT2	18	55143925	Silent	SNP	G	TCGA-KO-8411-01A-11D-2310-10		55143925	22933323	58	44209										
POLRMT	5442	mdanderson.org	37	chr19	622336	622336	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	gggcctcgggcgcccccagcTcctcccagtactgccgcggc	13	20	0	0	rs2238549	byFrequency	TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr19:622336T>G	ENST00000588649.2	-	9	1748	c.1664A>C	c.(1663-1665)gAg>gCg	p.E555A	LLNLR-299G3.1_ENST00000607288.1_RNA	NM_005035.3	NP_005026.3	O00411	RPOM_HUMAN	polymerase (RNA) mitochondrial (DNA directed)	555			E -> A (in dbSNP:rs2238549).		gene expression (GO:0010467)|transcription from mitochondrial promoter (GO:0006390)|transcription initiation from mitochondrial promoter (GO:0006391)	mitochondrial matrix (GO:0005759)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)|poly(A) RNA binding (GO:0044822)			cervix(2)|endometrium(3)|large_intestine(1)|lung(9)|ovary(1)|pancreas(2)|prostate(1)|stomach(1)	20		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)		CGCCCCCAGCTCCTCCCAGTA	0.736													G|||	3107	0.620407	0.7421	0.3905	5008	,	,		13238	0.5804		0.505	False		,,,				2504	0.7791															0								G	ALA/GLU	2180,1784		674,832,476	3	4	4		1664	0.8	0.2	19	dbSNP_98	4	3162,4714		735,1692,1511	no	missense	POLRMT	NM_005035.3	107	1409,2524,1987	GG,GT,TT		40.1473,45.005,45.1182	benign	555/1231	622336	5342,6498	1982	3938	5920	SO:0001583	missense	5442				CCDS12036.1	19p13.3	2010-10-22			ENSG00000099821	ENSG00000099821	2.7.7.6		9200	protein-coding gene	gene with protein product		601778				9097968	Standard	NM_005035		Approved	h-mtRPOL, APOLMT, MTRNAP, MTRPOL	uc002lpf.1	O00411		ENST00000588649.2:c.1664A>C	19.37:g.622336T>G	ENSP00000465759:p.Glu555Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O60370	Missense_Mutation	SNP	ENST00000588649.2	37	CCDS12036.1	1206	0.5521978021978022	355	0.7215447154471545	157	0.43370165745856354	311	0.5437062937062938	383	0.5052770448548812	.	0.101	-1.151710	0.01700	0.54995	0.401473	ENSG00000099821	ENST00000215591	T	0.38887	1.11	4.15	0.782	0.18567	.	1.028080	0.07721	N	0.943661	T	0.00012	0.0000	N	0.00483	-1.445	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.39563	-0.9608	9	0.07175	T	0.84	-7.4541	3.713	0.08427	0.2656:0.0:0.3311:0.4033	rs2238549;rs60424827	555	O00411	RPOM_HUMAN	A	555	ENSP00000215591:E555A	ENSP00000215591:E555A	E	-	2	0	POLRMT	573336	0.000000	0.05858	0.177000	0.23020	0.499000	0.33736	0.188000	0.17018	-0.062000	0.13088	-0.217000	0.12591	GAG		0.736	POLRMT-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452172.3	NM_005035		G	622336	T	G	622336	3	3	682	1	0	0	0	0	1	0	0	0	12245	1551	54	5	2080	5	POLRMT	19	622336	Missense_Mutation	SNP	T	TCGA-KO-8411-01A-11D-2310-10		622336	58506647	59	44210										
ADAMTSL5	339366	bcgsc.ca	37	chr19	1506881	1506881	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	ggctgtagcgctcccgagggAgccagaactcaaactcgatg	13	12	1	1			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr19:1506881A>G	ENST00000413997.2	-	10	928	c.929T>C	c.(928-930)cTc>cCc	p.L310P	CTB-25B13.9_ENST00000590252.1_RNA|ADAMTSL5_ENST00000395467.2_Missense_Mutation_p.L69P|ADAMTSL5_ENST00000330475.4_Missense_Mutation_p.L300P|ADAMTSL5_ENST00000590562.1_5'UTR			Q6ZMM2	ATL5_HUMAN	ADAMTS-like 5	310						extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|microfibril (GO:0001527)|proteinaceous extracellular matrix (GO:0005578)	heparin binding (GO:0008201)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			cervix(1)|kidney(1)|large_intestine(2)|lung(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	10		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)		CTCCCGAGGGAGCCAGAACTC	0.697																																																0													19	25	24					19																	1506881		1819	3754	5573	SO:0001583	missense	339366			BC040620	CCDS12071.1	19p13.3	2008-02-05	2006-02-07	2006-02-07		ENSG00000185761			27912	protein-coding gene	gene with protein product			"thrombospondin, type I, domain containing 6"	THSD6			Standard	NM_213604		Approved		uc002ltd.2	Q6ZMM2		ENST00000413997.2:c.929T>C	19.37:g.1506881A>G	ENSP00000399364:p.Leu310Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DXK7|Q8IW95	Missense_Mutation	SNP	ENST00000413997.2	37		.	.	.	.	.	.	.	.	.	.	A	18.89	3.719079	0.68844	.	.	ENSG00000185761	ENST00000413997;ENST00000330475;ENST00000395467	T;T;T	0.56941	0.43;0.43;0.43	4.05	4.05	0.47172	ADAM-TS Spacer 1 (1);	0.000000	0.64402	D	0.000002	T	0.70692	0.3253	M	0.82193	2.58	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.72459	-0.4287	10	0.48119	T	0.1	.	9.3042	0.37865	1.0:0.0:0.0:0.0	.	310;300	B4DXK7;Q6ZMM2	.;ATL5_HUMAN	P	310;300;69	ENSP00000399364:L310P;ENSP00000327608:L300P;ENSP00000378850:L69P	ENSP00000327608:L300P	L	-	2	0	ADAMTSL5	1457881	1.000000	0.71417	0.996000	0.52242	0.787000	0.44495	6.470000	0.73558	1.702000	0.51228	0.397000	0.26171	CTC		0.697	ADAMTSL5-202	KNOWN	basic	protein_coding	protein_coding		XM_294919		G	1506881	A	G	1506881	3	3	682	1	0	0	0	0	1	0	0	0	278	304	11	3	528	3	ADAMTSL5	19	1506881	Missense_Mutation	SNP	A	TCGA-KO-8411-01A-11D-2310-10	884545	1506881	57622102	60	44211										
MUC16	94025	mdanderson.org	37	chr19	8999421	8999421	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	agagactgtccctgtccaggGtgtaggggcccagctcagtg	15	11	1	1	rs75266616		TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr19:8999421G>C	ENST00000397910.4	-	56	40957	c.40754C>G	c.(40753-40755)aCc>aGc	p.T13585S	MUC16_ENST00000380951.5_Missense_Mutation_p.T226S	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13587	SEA 10. {ECO:0000255|PROSITE- ProRule:PRU00188}.			Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						CCTGTCCAGGGTGTAGGGGCC	0.567																																																0													247	206	219					19																	8999421		2072	4221	6293	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.40754C>G	19.37:g.8999421G>C	ENSP00000381008:p.Thr13585Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	12.18|12.18	1.861742|1.861742	0.32884|0.32884	.|.	.|.	ENSG00000181143|ENSG00000181143	ENST00000542240|ENST00000397910;ENST00000380951	.|T;T	.|0.24538	.|1.85;1.85	3.48|3.48	1.25|1.25	0.21368|0.21368	.|SEA (1);	.|.	.|.	.|.	.|.	T|T	0.35740|0.35740	0.0942|0.0942	.|.	.|.	.|.	.|.	.|.	.|.	.|B;P	.|0.48911	.|0.114;0.917	.|B;D	.|0.63488	.|0.031;0.915	T|T	0.40403|0.40403	-0.9565|-0.9565	3|7	.|0.30854	.|T	.|0.27	.|.	4.5034|4.5034	0.11876|0.11876	0.1321:0.2319:0.6359:0.0|0.1321:0.2319:0.6359:0.0	.|.	.|21230;13585	.|Q8WXI7;B5ME49	.|MUC16_HUMAN;.	A|S	425|13585;226	.|ENSP00000381008:T13585S;ENSP00000370338:T226S	.|ENSP00000370338:T226S	P|T	-|-	1|2	0|0	MUC16|MUC16	8860421|8860421	0.991000|0.991000	0.36638|0.36638	0.997000|0.997000	0.53966|0.53966	0.497000|0.497000	0.33675|0.33675	0.218000|0.218000	0.17622|0.17622	0.783000|0.783000	0.33636|0.33636	0.555000|0.555000	0.69702|0.69702	CCC|ACC		0.567	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		C	8999421	G	C	8999421	3	2	682	1	0	0	0	0	1	0	0	0	9980	1261	44	4	2885	4	MUC16	19	8999421	Missense_Mutation	SNP	G	TCGA-KO-8411-01A-11D-2310-10	7492540	8999421	50129562	61	44212										
ZC3H4	23211	mdanderson.org	37	chr19	47575243	47575243	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	ggcatgtctgcgtgcatgtcTgcgtgcatgtcagggtgcat	15	9	3	0	rs392366		TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr19:47575243T>A	ENST00000253048.5	-	13	1975	c.1938A>T	c.(1936-1938)gcA>gcT	p.A646A	ZC3H4_ENST00000594019.1_Intron	NM_015168.1	NP_055983.1	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	646	Pro-rich.						metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			NS(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(6)|lung(13)|ovary(4)|prostate(2)|skin(7)|upper_aerodigestive_tract(1)	41		all_cancers(25;3.3e-08)|all_epithelial(76;2.28e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.0889)		OV - Ovarian serous cystadenocarcinoma(262;5.76e-05)|all cancers(93;7.69e-05)|Epithelial(262;0.00354)|GBM - Glioblastoma multiforme(486;0.0372)		cgtgcatgtctgcgtgcatgt	0.662																																																0								C		1,4247		0,1,2123	31	36	34		1938	-10.4	0	19	dbSNP_80	34	6,8510		0,6,4252	no	coding-synonymous	ZC3H4	NM_015168.1		0,7,6375	AA,AT,TT		0.0705,0.0235,0.0548		646/1304	47575243	7,12757	2124	4258	6382	SO:0001819	synonymous_variant	23211			AB028987	CCDS42582.1	19q13.33	2012-07-05	2007-10-18	2007-10-18		ENSG00000130749		"Zinc fingers, CCCH-type domain containing"	17808	protein-coding gene	gene with protein product			"chromosome 19 open reading frame 7"	C19orf7			Standard	NM_015168		Approved	KIAA1064	uc002pga.4	Q9UPT8		ENST00000253048.5:c.1938A>T	19.37:g.47575243T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9Y420	Silent	SNP	ENST00000253048.5	37	CCDS42582.1																																																																																				0.662	ZC3H4-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466667.1			A	47575243	T	A	47575243	2	1	682	1	0	0	0	0	0	0	0	1	17582	1567	55	5		5	ZC3H4	19	47575243	Silent	SNP	T	TCGA-KO-8411-01A-11D-2310-10	38575822	47575243	11553740	62	44213										
ZNF836	162962	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr19	52660555	52660555	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	ttttctacatcctcttgactAtgttgacctcttttaccatt	3	11	3	2			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr19:52660555A>G	ENST00000322146.8	-	5	902	c.381T>C	c.(379-381)caT>caC	p.H127H	ZNF836_ENST00000597252.1_Silent_p.H127H|CTC-471J1.8_ENST00000594362.1_RNA	NM_001102657.1	NP_001096127.1	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	127					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(2)|kidney(2)|large_intestine(9)|lung(10)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	26						CCTCTTGACTATGTTGACCTC	0.333																																																0													115	108	111					19																	52660555		1986	4198	6184	SO:0001819	synonymous_variant	162962			BC011784	CCDS46162.1	19q13.33	2013-01-08			ENSG00000196267	ENSG00000196267		"Zinc fingers, C2H2-type", "-"	34333	protein-coding gene	gene with protein product							Standard	NM_001102657		Approved	FLJ16287	uc010ydj.2	Q6ZNA1		ENST00000322146.8:c.381T>C	19.37:g.52660555A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000322146.8	37	CCDS46162.1																																																																																				0.333	ZNF836-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462456.1	NM_001102657		G	52660555	A	G	52660555	2	3	682	1	0	0	0	0	0	0	0	1	18199	446	16	3		3	ZNF836	19	52660555	Silent	SNP	A	TCGA-KO-8411-01A-11D-2310-10	5085312	52660555	6468428	63	44214										
VN1R4	317703	mdanderson.org	37	chr19	53770825	53770825	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	cctgcacccagtgcagtaaaAggagagataatggagaagaa	12	7	0	3	rs141780644		TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr19:53770825A>G	ENST00000311170.4	-	1	147	c.94T>C	c.(94-96)Ttt>Ctt	p.F32L	CTD-2245F17.9_ENST00000599803.1_lincRNA	NM_173857.2	NP_776256.2	Q7Z5H5	VN1R4_HUMAN	vomeronasal 1 receptor 4	32					response to pheromone (GO:0019236)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	pheromone receptor activity (GO:0016503)			central_nervous_system(1)|large_intestine(4)|lung(10)|ovary(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	22				GBM - Glioblastoma multiforme(134;0.00294)		GTGCAGTAAAAGGAGAGATAA	0.507										HNSCC(26;0.072)																																						0													55	60	58					19																	53770825		2203	4300	6503	SO:0001583	missense	317703			AY114733	CCDS33099.1	19q13.42	2012-08-22			ENSG00000228567	ENSG00000228567		"Vomeronasal receptors / Type 1", "GPCR / Unclassified : Vomeronasal receptors, type 1"	19871	protein-coding gene	gene with protein product						12123587	Standard	NM_173857		Approved	V1RL4	uc010ydu.2	Q7Z5H5		ENST00000311170.4:c.94T>C	19.37:g.53770825A>G	ENSP00000310856:p.Phe32Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3E2|Q7Z5H6|Q7Z5H7|Q8TDU2	Missense_Mutation	SNP	ENST00000311170.4	37	CCDS33099.1	.	.	.	.	.	.	.	.	.	.	A	3.164	-0.171426	0.06421	.	.	ENSG00000228567	ENST00000311170	T	0.34072	1.38	2.28	-3.47	0.04753	GPCR, rhodopsin-like superfamily (1);	0.000000	0.30575	N	0.009335	T	0.09862	0.0242	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.25676	-1.0125	10	0.02654	T	1	.	1.5772	0.02626	0.1176:0.3229:0.2328:0.3268	.	32	Q7Z5H5	VN1R4_HUMAN	L	32	ENSP00000310856:F32L	ENSP00000310856:F32L	F	-	1	0	VN1R4	58462637	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.898000	0.04105	-0.609000	0.05724	-3.182000	0.00056	TTT		0.507	VN1R4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464287.1	NM_173857		G	53770825	A	G	53770825	3	3	682	1	0	0	0	0	1	0	0	0	17192	72	3	3	814	3	VN1R4	19	53770825	Missense_Mutation	SNP	A	TCGA-KO-8411-01A-11D-2310-10	1110270	53770825	5358158	64	44215										
ADAMTS1	9510	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr21	28216883	28216883	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	ggcagccgagctgggatcgcCattcacggtgccggagtaga	16	11	1	1			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr21:28216883C>T	ENST00000284984.3	-	1	845	c.391G>A	c.(391-393)Ggc>Agc	p.G131S		NM_006988.3	NP_008919.3	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 1	131					heart trabecula formation (GO:0060347)|integrin-mediated signaling pathway (GO:0007229)|kidney development (GO:0001822)|negative regulation of cell proliferation (GO:0008285)|ovulation from ovarian follicle (GO:0001542)	basement membrane (GO:0005604)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)	heparin binding (GO:0008201)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			central_nervous_system(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(12)|lung(20)|ovary(2)|prostate(2)|skin(1)|urinary_tract(1)	42		Breast(209;0.000962)		Lung(58;0.215)		CTGGGATCGCCATTCACGGTG	0.697											OREG0026151	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													15	17	17					21																	28216883		2197	4298	6495	SO:0001583	missense	9510			AF060152	CCDS33524.1	21q21.3	2008-05-14	2005-08-19		ENSG00000154734	ENSG00000154734		"ADAM metallopeptidases with thrombospondin type 1 motif"	217	protein-coding gene	gene with protein product		605174	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 1"			10438512	Standard	NM_006988		Approved	C3-C5, METH1, KIAA1346	uc002ymf.3	Q9UHI8	OTTHUMG00000078688	ENST00000284984.3:c.391G>A	21.37:g.28216883C>T	ENSP00000284984:p.Gly131Ser	Somatic	800	WXS	Illumina HiSeq	Phase_I	D3DSD5|Q9NSJ8|Q9P2K0|Q9UH83|Q9UP80	Missense_Mutation	SNP	ENST00000284984.3	37	CCDS33524.1	.	.	.	.	.	.	.	.	.	.	C	13.79	2.340968	0.41498	.	.	ENSG00000154734	ENST00000284984	T	0.09255	3.0	4.16	3.26	0.37387	Peptidase M12B, propeptide (1);	.	.	.	.	T	0.14356	0.0347	L	0.58302	1.8	0.47698	D	0.999493	B	0.18968	0.032	B	0.30943	0.122	T	0.04333	-1.0959	9	0.24483	T	0.36	.	13.7507	0.62906	0.0:0.6866:0.3134:0.0	.	131	Q9UHI8	ATS1_HUMAN	S	131	ENSP00000284984:G131S	ENSP00000284984:G131S	G	-	1	0	ADAMTS1	27138754	0.932000	0.31603	0.559000	0.28332	0.430000	0.31655	1.404000	0.34623	0.935000	0.37341	0.555000	0.69702	GGC		0.697	ADAMTS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000171650.2			T	28216883	C	T	28216883	3	4	682	1	0	0	0	0	1	0	0	0	255	594	21	2	2548	2	ADAMTS1	21	28216883	Missense_Mutation	SNP	C	TCGA-KO-8411-01A-11D-2310-10		28216883	19913012	65	44216										
KRTAP10-10	353333	mdanderson.org	37	chr21	46057625	46057625	+	Silent	SNP	T	T	C													0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	cagcaggcctgctgtgtgccTgtctgctgtgtgcccgtctg					rs66931310|rs56249559|rs55677560	byFrequency	TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr21:46057625T>C	ENST00000380095.1	+	1	353	c.291T>C	c.(289-291)ccT>ccC	p.P97P	TSPEAR_ENST00000323084.4_Intron	NM_181688.1	NP_859016.1	P60014	KR10A_HUMAN	keratin associated protein 10-10	97	15 X 5 AA repeats of C-C-X(3).					keratin filament (GO:0045095)				NS(1)|endometrium(2)|kidney(1)|lung(6)|prostate(1)|skin(2)	13						gctgtgtgcctgtctgctgtg	0.622																																																0													82	79	80					21																	46057625		2132	4094	6226	SO:0001819	synonymous_variant	353333			AJ566387	CCDS33585.1	21q22.3	2006-03-13			ENSG00000221859	ENSG00000221859		"Keratin associated proteins"	22972	protein-coding gene	gene with protein product							Standard	NM_181688		Approved	KAP10.10, KAP18.10, KRTAP18-10	uc002zfq.3	P60014	OTTHUMG00000057631	ENST00000380095.1:c.291T>C	21.37:g.46057625T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000380095.1	37	CCDS33585.1																																																																																				0.622	KRTAP10-10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128034.1	NM_181688		C	46057625	T	C	46057625	2	2	682	1	0	0	0	0	0	0	0	1	8513	1567	55	3		3	KRTAP10-10	21	46057625	Silent	SNP	T	TCGA-KO-8411-01A-11D-2310-10	17840742	46057625	2072270	66	44217	463	2								
KRTAP10-10	353333	mdanderson.org	37	chr21	46057634	46057634	+	Silent	SNP	T	T	C													0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	tgctgtgtgcctgtctgctgTgtgcccgtctgctgcgtgcc					rs61029972	byFrequency	TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chr21:46057634T>C	ENST00000380095.1	+	1	362	c.300T>C	c.(298-300)tgT>tgC	p.C100C	TSPEAR_ENST00000323084.4_Intron	NM_181688.1	NP_859016.1	P60014	KR10A_HUMAN	keratin associated protein 10-10	100	15 X 5 AA repeats of C-C-X(3).					keratin filament (GO:0045095)				NS(1)|endometrium(2)|kidney(1)|lung(6)|prostate(1)|skin(2)	13						ctgtctgctgtgtgcccgtct	0.632													C|||	539	0.107628	0.2383	0.0591	5008	,	,		18755	0.0109		0.0557	False		,,,				2504	0.1186															0													126	121	123					21																	46057634		2203	4298	6501	SO:0001819	synonymous_variant	353333			AJ566387	CCDS33585.1	21q22.3	2006-03-13			ENSG00000221859	ENSG00000221859		"Keratin associated proteins"	22972	protein-coding gene	gene with protein product							Standard	NM_181688		Approved	KAP10.10, KAP18.10, KRTAP18-10	uc002zfq.3	P60014	OTTHUMG00000057631	ENST00000380095.1:c.300T>C	21.37:g.46057634T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000380095.1	37	CCDS33585.1																																																																																				0.632	KRTAP10-10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128034.1	NM_181688		C	46057634	T	C	46057634	2	2	682	1	0	0	0	0	0	0	0	1	8513	1702	59	3		3	KRTAP10-10	21	46057634	Silent	SNP	T	TCGA-KO-8411-01A-11D-2310-10	9	46057634	2072261	67	44218	463	2								
CXorf36	79742	bcgsc.ca	37	chrX	45010908	45010908	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.015625	1	1	0.280575539568345	0	0.323741007194245	1	1	0	accagcccttcagaacttatCgttatatttgcaatctgggt	7	10	2	1			TCGA-KO-8411-01A-11D-2310-10	TCGA-KO-8411-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9dfcbabf-2bc0-43a2-bdde-d0b2aaca3f6b	7f8f088d-0cab-4301-8a5d-9e780d18439b	g.chrX:45010908C>T	ENST00000398000.2	-	5	1365	c.1291G>A	c.(1291-1293)Gat>Aat	p.D431N	CXorf36_ENST00000477281.1_5'UTR	NM_176819.3	NP_789789.2	Q9H7Y0	DIA1R_HUMAN	chromosome X open reading frame 36	431						extracellular region (GO:0005576)				endometrium(1)|large_intestine(2)|lung(4)	7						CAGAACTTATCGTTATATTTG	0.527																																																0													95	84	88					X																	45010908		1568	3582	5150	SO:0001583	missense	79742			AF289581	CCDS14266.1, CCDS48096.1	Xp11.3-p11.23	2012-08-03			ENSG00000147113	ENSG00000147113			25866	protein-coding gene	gene with protein product						11944989, 21283809	Standard	NM_176819		Approved	FLJ14103, DIA1R	uc004dgg.2	Q9H7Y0	OTTHUMG00000021403	ENST00000398000.2:c.1291G>A	X.37:g.45010908C>T	ENSP00000381086:p.Asp431Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUU5|B2RPN7|Q6UWJ5	Missense_Mutation	SNP	ENST00000398000.2	37	CCDS48096.1	.	.	.	.	.	.	.	.	.	.	C	16.19	3.053779	0.55218	.	.	ENSG00000147113	ENST00000398000	T	0.36520	1.25	5.24	4.38	0.52667	.	0.404164	0.23272	N	0.050001	T	0.36635	0.0974	M	0.67953	2.075	0.80722	D	1	B	0.26845	0.161	B	0.19391	0.025	T	0.22661	-1.0210	10	0.72032	D	0.01	.	11.4036	0.49885	0.0:0.914:0.0:0.086	.	431	Q9H7Y0	CX036_HUMAN	N	431	ENSP00000381086:D431N	ENSP00000381086:D431N	D	-	1	0	CXorf36	44895852	0.997000	0.39634	0.684000	0.30055	0.530000	0.34684	2.903000	0.48711	0.996000	0.38943	0.594000	0.82650	GAT		0.527	CXorf36-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056333.2	NM_024689		T	45010908	C	T	45010908	3	4	682	1	0	0	0	0	1	0	0	0	4108	884	31	1	14	1	CXorf36	23	45010908	Missense_Mutation	SNP	C	TCGA-KO-8411-01A-11D-2310-10		45010908	110259652	68	44219										
NBPF10	100132406	ucsc.edu	37	chr1	145302775	145302775	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	tccaggccctcctcactccgTatgagccggacaagtcccag	9	17	1	1	rs376014420		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr1:145302775T>G	ENST00000369339.3	+	5	653	c.400T>G	c.(400-402)Tat>Gat	p.Y134D	NBPF10_ENST00000342960.5_Missense_Mutation_p.Y405D|NBPF10_ENST00000369338.1_Missense_Mutation_p.Y134D|RP11-458D21.5_ENST00000468030.1_3'UTR			Q6P3W6	NBPFA_HUMAN	neuroblastoma breakpoint family, member 10	405						cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(3)|breast(1)|central_nervous_system(3)|endometrium(12)|kidney(23)|lung(15)|ovary(1)|prostate(7)|skin(6)|urinary_tract(2)	73	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		CCTCACTCCGTATGAGCCGGA	0.577																																																0																																										SO:0001583	missense	100132406			BC021111		1q21.1	2013-01-17			ENSG00000163386	ENSG00000271425		"neuroblastoma breakpoint family"	31992	protein-coding gene	gene with protein product		614000				16079250	Standard	NM_001039703		Approved	AG1		Q6P3W6	OTTHUMG00000013757	ENST00000369339.3:c.400T>G	1.37:g.145302775T>G	ENSP00000358345:p.Tyr134Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5RHC0|Q9NWN6	Missense_Mutation	SNP	ENST00000369339.3	37		.	.	.	.	.	.	.	.	.	.	.	0	-2.664813	0.00107	.	.	ENSG00000163386	ENST00000448873;ENST00000369338;ENST00000369334;ENST00000342960	T;T	0.46063	0.88;4.33	0.712	-0.91	0.10511	.	.	.	.	.	T	0.03390	0.0098	.	.	.	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.33189	-0.9878	7	0.02654	T	1	.	.	.	.	.	134	A8MQ30	.	D	330;134;134;405	ENSP00000358344:Y134D;ENSP00000345684:Y405D	ENSP00000345684:Y405D	Y	+	1	0	NBPF10	144014132	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.464000	0.06688	-1.158000	0.02811	-1.371000	0.01190	TAT		0.577	NBPF10-001	KNOWN	not_best_in_genome_evidence|basic	protein_coding	protein_coding	OTTHUMT00000038550.3	NM_001039703		G	145302775	T	G	145302775	3	3	683	1	0	0	0	0	1	0	0	0	10200	1638	57	5	1243	5	NBPF10	1	145302775	Missense_Mutation	SNP	T	TCGA-KO-8413-01A-11D-2310-10		145302775	103947846	1	44220										
FAM163A	148753	broad.mit.edu	37	chr1	179782953	179782953	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gcggaaccgaggttgcagacGaggaggaggagcgggagcac	20	8	0	1			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr1:179782953G>A	ENST00000341785.4	+	5	529	c.133G>A	c.(133-135)Gag>Aag	p.E45K	RP11-12M5.3_ENST00000415218.1_RNA|RP11-12M5.3_ENST00000453051.1_RNA	NM_173509.2	NP_775780.1	Q96GL9	F163A_HUMAN	family with sequence similarity 163, member A	45						integral component of membrane (GO:0016021)				endometrium(2)|large_intestine(4)|lung(6)|ovary(1)|pancreas(1)|prostate(1)	15						GGTTGCAGACGAGGAGGAGGA	0.642																																																0													51	46	48					1																	179782953		2203	4300	6503	SO:0001583	missense	148753			BC009382	CCDS1333.1	1q25.2	2008-06-05	2008-06-05	2008-06-05	ENSG00000143340	ENSG00000143340			28274	protein-coding gene	gene with protein product		611727	"chromosome 1 open reading frame 76"	C1orf76		12477932	Standard	NM_173509		Approved	MGC16664	uc001gnj.3	Q96GL9	OTTHUMG00000035262	ENST00000341785.4:c.133G>A	1.37:g.179782953G>A	ENSP00000354891:p.Glu45Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8R7	Missense_Mutation	SNP	ENST00000341785.4	37	CCDS1333.1	.	.	.	.	.	.	.	.	.	.	G	18.58	3.654145	0.67472	.	.	ENSG00000143340	ENST00000341785	.	.	.	4.63	4.63	0.57726	.	0.524877	0.22200	N	0.063250	T	0.43700	0.1259	L	0.36672	1.1	0.47407	D	0.999414	D	0.52996	0.957	B	0.38880	0.284	T	0.52071	-0.8624	9	0.52906	T	0.07	-5.0697	17.4521	0.87595	0.0:0.0:1.0:0.0	.	45	Q96GL9	F163A_HUMAN	K	45	.	ENSP00000354891:E45K	E	+	1	0	FAM163A	178049576	0.999000	0.42202	0.964000	0.40570	0.559000	0.35586	3.571000	0.53841	2.293000	0.77203	0.462000	0.41574	GAG		0.642	FAM163A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085300.1	NM_173509		A	179782953	G	A	179782953	3	1	683	1	0	0	0	0	1	0	0	0	5480	1059	37	1	139	1	FAM163A	1	179782953	Missense_Mutation	SNP	G	TCGA-KO-8413-01A-11D-2310-10	34480178	179782953	69467668	2	44221										
SMEK2	57223	bcgsc.ca	37	chr2	55842601	55842601	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	acttgcctgttgtttctgatAtgcagtatttggatttatct	8	6	2	1			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr2:55842601A>G	ENST00000345102.5	-	2	485	c.184T>C	c.(184-186)Tat>Cat	p.Y62H	SMEK2_ENST00000272313.5_Missense_Mutation_p.Y62H|SMEK2_ENST00000477749.1_5'UTR|SMEK2_ENST00000407823.3_Missense_Mutation_p.Y62H|RP11-554J4.1_ENST00000608113.1_RNA	NM_001122964.1	NP_001116436	Q5MIZ7	P4R3B_HUMAN	SMEK homolog 2, suppressor of mek1 (Dictyostelium)	62	WH1.				positive regulation of gluconeogenesis (GO:0045722)|protein dephosphorylation (GO:0006470)|regulation of lipid metabolic process (GO:0019216)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)|protein phosphatase 4 complex (GO:0030289)				kidney(1)|large_intestine(4)|liver(1)|lung(7)|ovary(1)|prostate(1)|skin(1)	16			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TGTTTCTGATATGCAGTATTT	0.308																																																0													92	96	95					2																	55842601		2201	4299	6500	SO:0001583	missense	57223			AB037808	CCDS1855.1, CCDS46289.1, CCDS62913.1	2p16.1	2008-09-15			ENSG00000138041				29267	protein-coding gene	gene with protein product		610352				16085932, 18614045	Standard	NM_001122964		Approved	PSY2, FLFL2, KIAA1387, FLJ31474	uc002rzc.3	Q5MIZ7	OTTHUMG00000129336	ENST00000345102.5:c.184T>C	2.37:g.55842601A>G	ENSP00000339769:p.Tyr62His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P9B0|Q86XB8|Q9BQJ0|Q9BRK2|Q9H913|Q9P2G0	Missense_Mutation	SNP	ENST00000345102.5	37	CCDS46289.1	.	.	.	.	.	.	.	.	.	.	A	22.7	4.322473	0.81580	.	.	ENSG00000138041	ENST00000272313;ENST00000407823;ENST00000345102	T;T;T	0.46063	0.88;0.88;0.88	5.4	5.4	0.78164	Pleckstrin homology-type (1);	0.000000	0.85682	D	0.000000	T	0.74854	0.3771	H	0.95114	3.625	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.999	D	0.83441	0.0043	10	0.87932	D	0	-9.6523	15.4274	0.75065	1.0:0.0:0.0:0.0	.	62;62;62	Q5MIZ7-2;Q5MIZ7;Q5MIZ7-3	.;P4R3B_HUMAN;.	H	62	ENSP00000272313:Y62H;ENSP00000385912:Y62H;ENSP00000339769:Y62H	ENSP00000272313:Y62H	Y	-	1	0	SMEK2	55696105	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	8.507000	0.90522	2.061000	0.61500	0.528000	0.53228	TAT		0.308	SMEK2-002	NOVEL	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000251483.1	NM_020463		G	55842601	A	G	55842601	3	3	683	1	0	0	0	0	1	0	0	0	14807	449	16	3	2429	3	SMEK2	2	55842601	Missense_Mutation	SNP	A	TCGA-KO-8413-01A-11D-2310-10		55842601	187356772	3	44222										
ATG9A	79065	bcgsc.ca	37	chr2	220085850	220085850	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gcccccatgcagggcagtggTctcaggagctccaggccggg	16	14	1	0			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr2:220085850T>C	ENST00000409618.1	-	14	2759	c.2320A>G	c.(2320-2322)Acc>Gcc	p.T774A	ABCB6_ENST00000439002.2_5'Flank|ATG9A_ENST00000396761.2_Missense_Mutation_p.T774A|ATG9A_ENST00000409422.1_Missense_Mutation_p.T713A|AC068946.1_ENST00000408417.1_RNA|ABCB6_ENST00000265316.3_5'Flank|ATG9A_ENST00000361242.4_Missense_Mutation_p.T774A			Q7Z3C6	ATG9A_HUMAN	autophagy related 9A	774					autophagic vacuole assembly (GO:0000045)|late nucleophagy (GO:0044805)|mitochondrion degradation (GO:0000422)|piecemeal microautophagy of nucleus (GO:0034727)|protein localization to pre-autophagosomal structure (GO:0034497)|protein transport (GO:0015031)	autophagic vacuole (GO:0005776)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|integral component of membrane (GO:0016021)|late endosome (GO:0005770)|membrane (GO:0016020)|pre-autophagosomal structure (GO:0000407)|recycling endosome (GO:0055037)|trans-Golgi network (GO:0005802)				endometrium(2)|large_intestine(5)|lung(3)|prostate(1)|skin(1)|stomach(1)	13		Renal(207;0.0474)		Epithelial(149;1.37e-06)|all cancers(144;0.000222)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGGGCAGTGGTCTCAGGAGCT	0.647																																																0													21	23	22					2																	220085850		1892	4098	5990	SO:0001583	missense	79065			AK021732	CCDS42820.1	2q35	2014-02-12	2012-06-06	2005-09-11	ENSG00000198925	ENSG00000198925			22408	protein-coding gene	gene with protein product		612204	"APG9 autophagy 9-like 1 (S. cerevisiae)", "ATG9 autophagy related 9 homolog A (S. cerevisiae)"	APG9L1			Standard	NM_024085		Approved	FLJ22169	uc002vkf.1	Q7Z3C6	OTTHUMG00000154557	ENST00000409618.1:c.2320A>G	2.37:g.220085850T>C	ENSP00000386710:p.Thr774Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q3ZAQ6|Q6P0N7|Q7Z317|Q7Z320|Q8NDK6|Q8WU65|Q9BVL5|Q9H6L1|Q9HAG7	Missense_Mutation	SNP	ENST00000409618.1	37	CCDS42820.1	.	.	.	.	.	.	.	.	.	.	T	15.11	2.735244	0.48939	.	.	ENSG00000198925	ENST00000396761;ENST00000409618;ENST00000361242;ENST00000409422	T;T;T;T	0.71341	-0.56;-0.56;-0.56;-0.56	5.3	5.3	0.74995	.	0.320888	0.33813	N	0.004532	T	0.51907	0.1702	N	0.24115	0.695	0.37355	D	0.91096	B	0.06786	0.001	B	0.06405	0.002	T	0.51403	-0.8710	10	0.10902	T	0.67	-18.9449	9.84	0.40993	0.0:0.076:0.0:0.924	.	774	Q7Z3C6	ATG9A_HUMAN	A	774;774;774;713	ENSP00000379983:T774A;ENSP00000386710:T774A;ENSP00000355173:T774A;ENSP00000386535:T713A	ENSP00000355173:T774A	T	-	1	0	ATG9A	219794094	1.000000	0.71417	1.000000	0.80357	0.898000	0.52572	1.652000	0.37313	2.225000	0.72522	0.482000	0.46254	ACC		0.647	ATG9A-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335930.1	NM_024085		C	220085850	T	C	220085850	3	2	683	1	0	0	0	0	1	0	0	0	1102	1667	58	3	211	3	ATG9A	2	220085850	Missense_Mutation	SNP	T	TCGA-KO-8413-01A-11D-2310-10	164243249	220085850	23113523	4	44223										
PRR21	643905	mdanderson.org	37	chr2	240981515	240981515	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	agggccgtgggtgaagaggcAtggacgaagggccgtgggtg	22	6	0	2	rs59139800	byFrequency	TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr2:240981515A>G	ENST00000408934.1	-	1	884	c.885T>C	c.(883-885)caT>caC	p.H295H		NM_001080835.1	NP_001074304.1	Q8WXC7	PRR21_HUMAN	proline rich 21	295	Pro-rich.									NS(1)|breast(1)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(3)|lung(7)|ovary(2)|prostate(5)|skin(3)|stomach(2)|upper_aerodigestive_tract(2)	29						GTGAAGAGGCATGGACGAAGG	0.637													a|||	2084	0.416134	0.4463	0.379	5008	,	,		14987	0.5754		0.334	False		,,,				2504	0.3221															0													7	5	5					2																	240981515		1341	2643	3984	SO:0001819	synonymous_variant	643905			AF453950	CCDS33417.1	2q37.3	2009-04-20			ENSG00000221961	ENSG00000221961			33866	protein-coding gene	gene with protein product							Standard	NM_001080835		Approved		uc010zod.2	Q8WXC7	OTTHUMG00000159174	ENST00000408934.1:c.885T>C	2.37:g.240981515A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000408934.1	37	CCDS33417.1																																																																																				0.637	PRR21-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_001080835		G	240981515	A	G	240981515	2	3	683	1	0	0	0	0	0	0	0	1	12602	214	8	3		3	PRR21	2	240981515	Silent	SNP	A	TCGA-KO-8413-01A-11D-2310-10	20895665	240981515	2217858	5	44224										
COL8A1	1295	broad.mit.edu;mdanderson.org	37	chr3	99514923	99514923	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	tcagaacaggctgcaggactGtatgccgggcagtatgtcca	13	10	1	1			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr3:99514923G>A	ENST00000261037.3	+	5	2558	c.2178G>A	c.(2176-2178)ctG>ctA	p.L726L	COL8A1_ENST00000273342.4_Silent_p.L726L	NM_001850.4	NP_001841.2	P27658	CO8A1_HUMAN	collagen, type VIII, alpha 1	726	C1q. {ECO:0000255|PROSITE- ProRule:PRU00368}.|Nonhelical region (NC1).				angiogenesis (GO:0001525)|camera-type eye morphogenesis (GO:0048593)|cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|endodermal cell differentiation (GO:0035987)|epithelial cell proliferation (GO:0050673)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|positive regulation of cell-substrate adhesion (GO:0010811)	collagen type VIII trimer (GO:0005591)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|intracellular membrane-bounded organelle (GO:0043231)				breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(15)|skin(5)|upper_aerodigestive_tract(1)	27						CTGCAGGACTGTATGCCGGGC	0.473																																																0													35	35	35					3																	99514923		2203	4300	6503	SO:0001819	synonymous_variant	1295			AF170702	CCDS2934.1	3q11.1-q13.2	2013-01-16			ENSG00000144810	ENSG00000144810		"Collagens"	2215	protein-coding gene	gene with protein product		120251	"chromosome 3 open reading frame 7"	C3orf7		2029894	Standard	NM_001850		Approved	MGC9568	uc003dth.2	P27658	OTTHUMG00000148669	ENST00000261037.3:c.2178G>A	3.37:g.99514923G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DN42|Q53XI6|Q96D07	Silent	SNP	ENST00000261037.3	37	CCDS2934.1																																																																																				0.473	COL8A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000309001.1	NM_001850		A	99514923	G	A	99514923	2	1	683	1	0	0	0	0	0	0	0	1	3707	1364	48	2		2	COL8A1	3	99514923	Silent	SNP	G	TCGA-KO-8413-01A-11D-2310-10		99514923	98507507	6	44225										
GPR78	27201	mdanderson.org	37	chr4	8583312	8583312	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gtgcaccgggtggcacgcagAcactgccagcgcatggacac	14	14	0	1	rs17844778	byFrequency	TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr4:8583312A>C	ENST00000382487.4	+	1	1020	c.603A>C	c.(601-603)agA>agC	p.R201S	GPR78_ENST00000509216.1_Intron	NM_080819.4	NP_543009.2	Q96P69	GPR78_HUMAN	G protein-coupled receptor 78	201			R -> S (in dbSNP:rs17844778).		adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			central_nervous_system(4)|kidney(4)|large_intestine(1)|lung(8)|ovary(3)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)	26						TGGCACGCAGACACTGCCAGC	0.692													C|||	752	0.15016	0.0295	0.2161	5008	,	,		16947	0.0248		0.3231	False		,,,				2504	0.2178															0								C	SER/ARG	308,4022		19,270,1876	8	8	8		603	1.6	0	4	dbSNP_123	8	2619,5825		429,1761,2032	yes	missense	GPR78	NM_080819.2	110	448,2031,3908	CC,CA,AA		31.0161,7.1132,22.9137	benign	201/364	8583312	2927,9847	2165	4222	6387	SO:0001583	missense	27201			AF411107	CCDS3403.1	4p16.1	2012-08-21			ENSG00000155269	ENSG00000155269		"GPCR / Class A : Orphans"	4528	protein-coding gene	gene with protein product		606921				11574155	Standard	NM_080819		Approved		uc003glk.4	Q96P69	OTTHUMG00000128483	ENST00000382487.4:c.603A>C	4.37:g.8583312A>C	ENSP00000371927:p.Arg201Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NGV3	Missense_Mutation	SNP	ENST00000382487.4	37	CCDS3403.1	353	0.16163003663003664	28	0.056910569105691054	91	0.2513812154696133	8	0.013986013986013986	226	0.29815303430079154	C	0.020	-1.434012	0.01108	0.071132	0.310161	ENSG00000155269	ENST00000382487	T	0.40756	1.02	2.53	1.64	0.23874	GPCR, rhodopsin-like superfamily (1);	0.236614	0.34291	N	0.004095	T	0.00012	0.0000	N	0.01048	-1.04	0.58432	P	1.999999999946489E-6	B	0.02656	0.0	B	0.04013	0.001	T	0.44003	-0.9356	9	0.19147	T	0.46	.	9.2648	0.37634	0.3897:0.6103:0.0:0.0	rs17844778	201	Q96P69	GPR78_HUMAN	S	201	ENSP00000371927:R201S	ENSP00000371927:R201S	R	+	3	2	GPR78	8634212	0.998000	0.40836	0.000000	0.03702	0.067000	0.16453	0.463000	0.21972	-0.378000	0.07918	-0.648000	0.03929	AGA		0.692	GPR78-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359201.1			C	8583312	A	C	8583312	3	2	683	1	0	0	0	0	1	0	0	0	6717	272	10	5	605	5	GPR78	4	8583312	Missense_Mutation	SNP	A	TCGA-KO-8413-01A-11D-2310-10		8583312	182570964	7	44226										
MAP9	79884	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr4	156294336	156294336	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	tctgggtttaggtttcatttTtattttgtctttttcaaatt	6	4	4	0			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr4:156294336T>C	ENST00000311277.4	-	4	696	c.433A>G	c.(433-435)Aaa>Gaa	p.K145E	AC097467.2_ENST00000596165.1_RNA|MAP9_ENST00000379248.2_Missense_Mutation_p.K73E|MAP9_ENST00000515654.1_Missense_Mutation_p.K145E	NM_001039580.1	NP_001034669.1	Q49MG5	MAP9_HUMAN	microtubule-associated protein 9	145					cytokinesis (GO:0000910)|regulation of mitosis (GO:0007088)|spindle assembly involved in mitosis (GO:0090307)	astral microtubule (GO:0000235)|mitotic spindle midzone (GO:1990023)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(8)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)	26	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.143)		GGTTTCATTTTTATTTTGTCT	0.303																																																0													43	45	44					4																	156294336		2202	4300	6502	SO:0001583	missense	79884			AK024812	CCDS35493.1	4q32.1	2008-02-05			ENSG00000164114	ENSG00000164114			26118	protein-coding gene	gene with protein product	"aster-associated protein"	610070				16049101	Standard	XM_006714306		Approved	ASAP, FLJ21159	uc003ios.3	Q49MG5	OTTHUMG00000133628	ENST00000311277.4:c.433A>G	4.37:g.156294336T>C	ENSP00000310593:p.Lys145Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5I7|Q68DU1|Q9H781|Q9H7B6	Missense_Mutation	SNP	ENST00000311277.4	37	CCDS35493.1	.	.	.	.	.	.	.	.	.	.	T	11.89	1.774899	0.31411	.	.	ENSG00000164114	ENST00000311277;ENST00000515654;ENST00000433024;ENST00000393836;ENST00000379248	T;T;T;T	0.35421	2.14;2.15;1.41;1.31	5.84	-1.67	0.08238	.	0.700052	0.14170	N	0.336772	T	0.30262	0.0759	L	0.52364	1.645	0.09310	N	1	B;P;B;B	0.51537	0.001;0.946;0.01;0.01	B;P;B;B	0.45639	0.004;0.488;0.006;0.006	T	0.18808	-1.0325	10	0.66056	D	0.02	-4.9641	4.9297	0.13910	0.0:0.2786:0.2805:0.4409	.	145;73;145;145	B4DVG9;A8MSM7;B9EJB6;Q49MG5	.;.;.;MAP9_HUMAN	E	145;145;145;145;73	ENSP00000310593:K145E;ENSP00000427402:K145E;ENSP00000394048:K145E;ENSP00000368550:K73E	ENSP00000310593:K145E	K	-	1	0	MAP9	156513786	0.000000	0.05858	0.000000	0.03702	0.583000	0.36354	0.003000	0.13083	-0.184000	0.10567	0.455000	0.32223	AAA		0.303	MAP9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257771.3	NM_001039580		C	156294336	T	C	156294336	3	2	683	1	0	0	0	0	1	0	0	0	9277	1850	64	3	1554	3	MAP9	4	156294336	Missense_Mutation	SNP	T	TCGA-KO-8413-01A-11D-2310-10	147711024	156294336	34859940	8	44227										
FRG1	2483	mdanderson.org	37	chr4	190876287	190876287	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	aattggaccaagagaacaatGggaaccagtctttcaaaatg	9	7	2	1	rs113079586		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr4:190876287G>A	ENST00000226798.4	+	5	635	c.413G>A	c.(412-414)tGg>tAg	p.W138*	FRG1_ENST00000514482.1_3'UTR	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1	138					mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		AGAGAACAATGGGAACCAGTC	0.348																																																0													85	85	85					4																	190876287		2203	4300	6503	SO:0001587	stop_gained	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.413G>A	4.37:g.190876287G>A	ENSP00000226798:p.Trp138*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Nonsense_Mutation	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	.	37	6.190454	0.97362	.	.	ENSG00000109536	ENST00000226798;ENST00000531991	.	.	.	4.04	4.04	0.47022	.	0.054165	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-23.9237	14.145	0.65344	0.0:0.0:1.0:0.0	.	.	.	.	X	138;75	.	ENSP00000226798:W138X	W	+	2	0	FRG1	191113281	1.000000	0.71417	0.999000	0.59377	0.993000	0.82548	6.226000	0.72277	1.964000	0.57103	0.567000	0.79289	TGG		0.348	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477		A	190876287	G	A	190876287	4	1	683	1	0	0	0	0	0	1	0	0	6053	1357	47	2	431	2	FRG1	4	190876287	Nonsense_Mutation	SNP	G	TCGA-KO-8413-01A-11D-2310-10	34581951	190876287	277989	9	44228			1	128		3	3	2318	G		7.263727e-06
FRG1	2483	mdanderson.org	37	chr4	190876307	190876307	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gggaaccagtctttcaaaatGtaagtgctgttattgtttat	9	5	2	0	rs200854715		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr4:190876307G>A	ENST00000226798.4	+	5	654		c.e5+1		FRG1_ENST00000514482.1_Splice_Site	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1						mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		CTTTCAAAATGTAAGTGCTGT	0.328																																																0													74	74	74					4																	190876307		2202	4295	6497	SO:0001630	splice_region_variant	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.432+1G>A	4.37:g.190876307G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Splice_Site	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	N	18.80	3.700931	0.68501	.	.	ENSG00000109536	ENST00000226798;ENST00000531991	.	.	.	3.88	3.88	0.44766	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.7779	0.63066	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	FRG1	191113301	1.000000	0.71417	1.000000	0.80357	0.869000	0.49853	7.413000	0.80104	1.879000	0.54435	0.567000	0.79289	.		0.328	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477	Intron	A	190876307	G	A	190876307	5	1	683	1	0	0	0	0	0	0	1	0	6053	1391	48	2	451	2	FRG1	4	190876307	Splice_Site	SNP	G	TCGA-KO-8413-01A-11D-2310-10	20	190876307	277969	10	44229			1	128		3	3	2318	G		7.263727e-06
FRG1	2483	mdanderson.org	37	chr4	190878604	190878604	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gctttattagatgcaatgaaGcaggggacatagaagcaaaa	11	5	0	3	rs371189769		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr4:190878604G>A	ENST00000226798.4	+	6	706	c.484G>A	c.(484-486)Gca>Aca	p.A162T	FRG1_ENST00000514482.1_3'UTR	NM_004477.2	NP_004468.1	Q14331	FRG1_HUMAN	FSHD region gene 1	162					mRNA splicing, via spliceosome (GO:0000398)|muscle organ development (GO:0007517)|rRNA processing (GO:0006364)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)	poly(A) RNA binding (GO:0044822)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(2)|lung(11)|ovary(1)|pancreas(1)|prostate(5)|skin(7)|urinary_tract(1)	32		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)		ATGCAATGAAGCAGGGGACAT	0.383																																																0													36	36	36					4																	190878604		2184	4280	6464	SO:0001583	missense	2483			L76159	CCDS34121.1	4q35	2008-02-05			ENSG00000109536	ENSG00000109536			3954	protein-coding gene	gene with protein product		601278				8733123	Standard	XM_005262880		Approved	FSG1, FRG1A	uc003izs.3	Q14331	OTTHUMG00000160202	ENST00000226798.4:c.484G>A	4.37:g.190878604G>A	ENSP00000226798:p.Ala162Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K775	Missense_Mutation	SNP	ENST00000226798.4	37	CCDS34121.1	.	.	.	.	.	.	.	.	.	.	.	11.61	1.689550	0.29962	.	.	ENSG00000109536	ENST00000226798;ENST00000524583;ENST00000531991	T;T	0.42900	1.94;0.96	4.19	4.19	0.49359	Actin cross-linking (1);	0.268853	0.42821	D	0.000657	T	0.36110	0.0955	L	0.47716	1.5	0.31376	N	0.679557	B	0.27951	0.195	B	0.30716	0.119	T	0.35001	-0.9806	10	0.14656	T	0.56	-21.4303	14.4711	0.67517	0.0:0.0:1.0:0.0	.	162	Q14331	FRG1_HUMAN	T	162;34;99	ENSP00000226798:A162T;ENSP00000435943:A99T	ENSP00000226798:A162T	A	+	1	0	FRG1	191115598	1.000000	0.71417	1.000000	0.80357	0.534000	0.34807	4.336000	0.59304	2.063000	0.61619	0.454000	0.30748	GCA		0.383	FRG1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000359622.4	NM_004477		A	190878604	G	A	190878604	3	1	683	1	0	0	0	0	1	0	0	0	6053	971	34	2	506	2	FRG1	4	190878604	Missense_Mutation	SNP	G	TCGA-KO-8413-01A-11D-2310-10	2297	190878604	275672	11	44230			1	128		3	3	2318	G		7.263727e-06
HCN1	348980	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr5	45267264	45267264	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	ggatattcctccaggacctcGttgaaattgtccacggaaag	10	10	0	1	rs141455774	byFrequency	TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr5:45267264G>A	ENST00000303230.4	-	7	1767	c.1710C>T	c.(1708-1710)aaC>aaT	p.N570N		NM_021072.3	NP_066550.2	O60741	HCN1_HUMAN	hyperpolarization activated cyclic nucleotide-gated potassium channel 1	570					apical protein localization (GO:0045176)|cellular response to cAMP (GO:0071320)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|regulation of membrane potential (GO:0042391)|retinal cone cell development (GO:0046549)|sodium ion transmembrane transport (GO:0035725)|synaptic transmission (GO:0007268)	axon (GO:0030424)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cAMP binding (GO:0030552)|intracellular cAMP activated cation channel activity (GO:0005222)|potassium channel activity (GO:0005267)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated sodium channel activity (GO:0005248)			NS(3)|breast(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(21)|liver(1)|lung(98)|ovary(1)|prostate(7)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(5)	156						CCAGGACCTCGTTGAAATTGT	0.428																																																0								G		4,4402	8.1+/-20.4	0,4,2199	156	143	147		1710	1.9	1	5	dbSNP_134	147	0,8600		0,0,4300	no	coding-synonymous	HCN1	NM_021072.3		0,4,6499	AA,AG,GG		0.0,0.0908,0.0308		570/891	45267264	4,13002	2203	4300	6503	SO:0001819	synonymous_variant	348980			AF064876	CCDS3952.1	5p12	2011-07-05			ENSG00000164588	ENSG00000164588		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	4845	protein-coding gene	gene with protein product		602780		BCNG1		9405696, 9630217, 16382102	Standard	NM_021072		Approved	BCNG-1, HAC-2	uc003jok.3	O60741	OTTHUMG00000131155	ENST00000303230.4:c.1710C>T	5.37:g.45267264G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000303230.4	37	CCDS3952.1																																																																																				0.428	HCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253847.1	NM_021072		A	45267264	G	A	45267264	2	1	683	1	0	0	0	0	0	0	0	1	7003	1136	40	1		1	HCN1	5	45267264	Silent	SNP	G	TCGA-KO-8413-01A-11D-2310-10		45267264	135647996	12	44231										
HLA-DQA2	3118	mdanderson.org	37	chr6	32714125	32714125	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gggcactgtcttcatcatccAaggcctgcgttcagttggtg	12	11	4	0	rs200904145	byFrequency	TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr6:32714125A>G	ENST00000374940.3	+	4	824	c.722A>G	c.(721-723)cAa>cGa	p.Q241R		NM_020056.4	NP_064440.1	P01906	DQA2_HUMAN	major histocompatibility complex, class II, DQ alpha 2	241					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|immune response (GO:0006955)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|endosome (GO:0005768)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)	MHC class II receptor activity (GO:0032395)			endometrium(2)|large_intestine(3)|lung(7)|skin(1)	13					"""Insulin(DB00071)"	TTCATCATCCAAGGCCTGCGT	0.522																																																0													155	152	153					6																	32714125		1511	2709	4220	SO:0001583	missense	3118				CCDS4753.1	6p21.3	2013-01-11			ENSG00000237541	ENSG00000237541		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4943	protein-coding gene	gene with protein product		613503		HLA-DXA			Standard	NM_020056		Approved		uc003obx.3	P01906	OTTHUMG00000031108	ENST00000374940.3:c.722A>G	6.37:g.32714125A>G	ENSP00000364076:p.Gln241Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A2BF37|B0V0E7|O19789|Q5SQ94|Q5SR04	Missense_Mutation	SNP	ENST00000374940.3	37	CCDS4753.1	.	.	.	.	.	.	.	.	.	.	.	0.001	-3.026763	0.00041	.	.	ENSG00000237541	ENST00000374940	T	0.01705	4.68	3.06	-6.13	0.02118	.	0.616827	0.14885	N	0.292732	T	0.00178	0.0005	N	0.01800	-0.715	0.09310	N	1	B	0.02656	0.0	B	0.06405	0.002	T	0.28235	-1.0050	10	0.07813	T	0.8	.	5.6461	0.17590	0.6481:0.1299:0.222:0.0	.	241	P01906	DQA2_HUMAN	R	241	ENSP00000364076:Q241R	ENSP00000364076:Q241R	Q	+	2	0	HLA-DQA2	32822103	0.051000	0.20477	0.067000	0.19924	0.023000	0.10783	-0.431000	0.06965	-1.761000	0.01310	-1.188000	0.01700	CAA		0.522	HLA-DQA2-001	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076179.2	NM_020056		G	32714125	A	G	32714125	3	3	683	1	0	0	0	0	1	0	0	0	7212	130	5	3	736	3	HLA-DQA2	6	32714125	Missense_Mutation	SNP	A	TCGA-KO-8413-01A-11D-2310-10		32714125	138400942	13	44232										
C6orf170	221322	ucsc.edu	37	chr6	121436334	121436334	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	atacctgacagtcattttaaTgccaagctgctgcacagatg	8	10	1	2	rs201909100		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr6:121436334T>C	ENST00000398212.2	-	27	3086	c.3037A>G	c.(3037-3039)Att>Gtt	p.I1013V	TBC1D32_ENST00000275159.6_Missense_Mutation_p.I1054V|TBC1D32_ENST00000398197.2_5'UTR	NM_152730.4	NP_689943.4	Q96NH3	BROMI_HUMAN	TBC1 domain family, member 32	1013					cilium morphogenesis (GO:0060271)|embryonic digit morphogenesis (GO:0042733)|lens development in camera-type eye (GO:0002088)|protein localization to cilium (GO:0061512)|retinal pigment epithelium development (GO:0003406)|smoothened signaling pathway involved in dorsal/ventral neural tube patterning (GO:0060831)	cilium (GO:0005929)|cytoplasm (GO:0005737)	Rab GTPase activator activity (GO:0005097)										GTCATTTTAATGCCAAGCTGC	0.343													T|||	1	0.000199681	0.0008	0.0	5008	,	,		16598	0.0		0.0	False		,,,				2504	0.0															0													104	97	99					6																	121436334		1828	4102	5930	SO:0001583	missense	221322			AK055461	CCDS43501.1	6q22.31	2014-02-20	2013-07-10	2013-07-10	ENSG00000146350	ENSG00000146350			21485	protein-coding gene	gene with protein product	"broad-minded homolog"	615867	"chromosome 6 open reading frame 171", "chromosome 6 open reading frame 170"	C6orf171, C6orf170		20159594, 24285566	Standard	NM_152730		Approved	FLJ30899, dJ310J6.1, FLJ34235, bA57L9.1, BROMI	uc003pyo.1	Q96NH3	OTTHUMG00000015474	ENST00000398212.2:c.3037A>G	6.37:g.121436334T>C	ENSP00000381270:p.Ile1013Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SZD6|Q5SZM6|Q6ZMY4|Q6ZUR7|Q8NB47	Missense_Mutation	SNP	ENST00000398212.2	37	CCDS43501.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	T	3.083	-0.188580	0.06299	.	.	ENSG00000146350	ENST00000275159;ENST00000398212	T;T	0.16073	2.37;2.37	5.73	2.05	0.26809	.	0.221573	0.48286	N	0.000192	T	0.02571	0.0078	N	0.13327	0.33	0.27263	N	0.958571	B;B	0.06786	0.0;0.001	B;B	0.09377	0.001;0.004	T	0.46652	-0.9176	10	0.20519	T	0.43	.	9.4136	0.38507	0.0:0.3515:0.0:0.6485	.	1054;1013	Q96NH3-4;Q96NH3	.;BROMI_HUMAN	V	1054;1013	ENSP00000275159:I1054V;ENSP00000381270:I1013V	ENSP00000275159:I1054V	I	-	1	0	C6orf170	121478033	0.828000	0.29307	0.988000	0.46212	0.995000	0.86356	0.119000	0.15626	0.177000	0.19895	0.533000	0.62120	ATT		0.343	TBC1D32-005	PUTATIVE	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380937.2	NM_152730		C	121436334	T	C	121436334	3	2	683	1	0	0	0	0	1	0	0	0	2346	1464	51	3	760	3	C6orf170	6	121436334	Missense_Mutation	SNP	T	TCGA-KO-8413-01A-11D-2310-10	88722209	121436334	49678733	14	44233										
UTRN	7402	bcgsc.ca	37	chr6	145110379	145110379	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gtctgaagattggattaatgTctctctccaaaggtctcttg	9	8	4	2			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr6:145110379T>C	ENST00000367545.3	+	61	8884	c.8884T>C	c.(8884-8886)Tct>Cct	p.S2962P	UTRN_ENST00000367526.4_Missense_Mutation_p.S517P	NM_007124.2	NP_009055.2	P46939	UTRO_HUMAN	utrophin	2962	Interaction with SYNM.				aging (GO:0007568)|muscle cell differentiation (GO:0042692)|muscle contraction (GO:0006936)|muscle organ development (GO:0007517)|neuron projection morphogenesis (GO:0048812)|positive regulation of cell-matrix adhesion (GO:0001954)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of neuron projection development (GO:0010976)|regulation of cellular response to growth factor stimulus (GO:0090287)|regulation of sodium ion transmembrane transporter activity (GO:2000649)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|dystrophin-associated glycoprotein complex (GO:0016010)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|filopodium membrane (GO:0031527)|membrane (GO:0016020)|membrane raft (GO:0045121)|myofibril (GO:0030016)|neuromuscular junction (GO:0031594)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|protein complex (GO:0043234)|sarcolemma (GO:0042383)	actin binding (GO:0003779)|calcium ion binding (GO:0005509)|integrin binding (GO:0005178)|protein kinase binding (GO:0019901)|vinculin binding (GO:0017166)|zinc ion binding (GO:0008270)			NS(1)|autonomic_ganglia(1)|breast(7)|central_nervous_system(1)|cervix(2)|endometrium(21)|kidney(10)|large_intestine(29)|lung(56)|ovary(5)|pancreas(1)|prostate(1)|skin(5)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	148		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TGGATTAATGTCTCTCTCCAA	0.299																																																0													131	150	143					6																	145110379		2203	4299	6502	SO:0001583	missense	7402			AK023675	CCDS34547.1	6q24	2008-02-05	2006-12-13		ENSG00000152818	ENSG00000152818			12635	protein-coding gene	gene with protein product		128240	"utrophin (homologous to dystrophin)"	DMDL		1426262	Standard	NM_007124		Approved	DRP, DRP1	uc003qkt.3	P46939	OTTHUMG00000015746	ENST00000367545.3:c.8884T>C	6.37:g.145110379T>C	ENSP00000356515:p.Ser2962Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SYY1|Q5SZ57|Q9UJ40	Missense_Mutation	SNP	ENST00000367545.3	37	CCDS34547.1	.	.	.	.	.	.	.	.	.	.	T	20.3	3.961973	0.74016	.	.	ENSG00000152818	ENST00000367545;ENST00000367526	T;T	0.64085	-0.08;-0.08	5.96	3.45	0.39498	EF-hand domain, type 1 (1);EF-hand-like domain (1);	0.123946	0.36972	N	0.002309	T	0.59649	0.2209	M	0.83852	2.665	0.34582	D	0.714609	P	0.43231	0.801	P	0.47299	0.543	T	0.64989	-0.6277	10	0.42905	T	0.14	.	13.0868	0.59146	0.0:0.0:0.2518:0.7481	.	2962	P46939	UTRO_HUMAN	P	2962;517	ENSP00000356515:S2962P;ENSP00000356496:S517P	ENSP00000356496:S517P	S	+	1	0	UTRN	145152072	1.000000	0.71417	0.999000	0.59377	0.993000	0.82548	4.917000	0.63369	1.051000	0.40369	0.533000	0.62120	TCT		0.299	UTRN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042551.1			C	145110379	T	C	145110379	3	2	683	1	0	0	0	0	1	0	0	0	17115	1667	58	3	9126	3	UTRN	6	145110379	Missense_Mutation	SNP	T	TCGA-KO-8413-01A-11D-2310-10	23674045	145110379	26004688	15	44234										
TBP	6908	mdanderson.org	37	chr6	170871040	170871040	+	Silent	SNP	A	A	G													0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	cagcagcagcagcagcagcaAcagcaacagcagcagcagca					rs71815788|rs55736770	byFrequency	TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr6:170871040A>G	ENST00000392092.2	+	3	495	c.216A>G	c.(214-216)caA>caG	p.Q72Q	TBP_ENST00000540980.1_Silent_p.Q52Q|TBP_ENST00000230354.6_Silent_p.Q72Q	NM_003194.4	NP_003185.1	P20226	TBP_HUMAN	TATA box binding protein	72	Poly-Gln.				cell death (GO:0008219)|gene expression (GO:0010467)|positive regulation of transcription, DNA-templated (GO:0045893)|spermatogenesis (GO:0007283)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase I promoter (GO:0006360)|transcription from RNA polymerase II promoter (GO:0006366)|transcription from RNA polymerase III promoter (GO:0006383)|transcription initiation from RNA polymerase I promoter (GO:0006361)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	cytoplasm (GO:0005737)|female pronucleus (GO:0001939)|male pronucleus (GO:0001940)|nuclear euchromatin (GO:0005719)|nucleoplasm (GO:0005654)|transcription factor TFIIA complex (GO:0005672)|transcription factor TFIID complex (GO:0005669)	repressing transcription factor binding (GO:0070491)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)	p.Q72del(3)		breast(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(2)|lung(9)|ovary(1)|prostate(4)|urinary_tract(1)	26		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;1.07e-22)|BRCA - Breast invasive adenocarcinoma(81;5.01e-06)|GBM - Glioblastoma multiforme(31;0.00591)		agcagcagcaacagcaacagc	0.567																																																3	Deletion - In frame(3)	ovary(1)|prostate(1)|breast(1)											12	14	13					6																	170871040		1995	3894	5889	SO:0001819	synonymous_variant	6908			M55654	CCDS5315.1, CCDS55077.1	6q27	2014-04-02			ENSG00000112592	ENSG00000112592		"General transcription factors"	11588	protein-coding gene	gene with protein product		600075		GTF2D1, SCA17		2194289, 11448935	Standard	NM_003194		Approved	TFIID	uc003qxu.3	P20226	OTTHUMG00000016084	ENST00000392092.2:c.216A>G	6.37:g.170871040A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4E3B3|F5H869|Q16845|Q6IBM6|Q9UC02	Silent	SNP	ENST00000392092.2	37	CCDS5315.1																																																																																				0.567	TBP-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000043271.2	NM_003194		G	170871040	A	G	170871040	2	3	683	1	0	0	0	0	0	0	0	1	15656	40	2	3		3	TBP	6	170871040	Silent	SNP	A	TCGA-KO-8413-01A-11D-2310-10	25760661	170871040	244027	16	44235	464	2								
TBP	6908	mdanderson.org	37	chr6	170871043	170871043	+	Silent	SNP	G	G	A													0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	cagcagcagcagcagcaacaGcaacagcagcagcagcagca							TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr6:170871043G>A	ENST00000392092.2	+	3	498	c.219G>A	c.(217-219)caG>caA	p.Q73Q	TBP_ENST00000540980.1_Silent_p.Q53Q|TBP_ENST00000230354.6_Silent_p.Q73Q	NM_003194.4	NP_003185.1	P20226	TBP_HUMAN	TATA box binding protein	73	Poly-Gln.				cell death (GO:0008219)|gene expression (GO:0010467)|positive regulation of transcription, DNA-templated (GO:0045893)|spermatogenesis (GO:0007283)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase I promoter (GO:0006360)|transcription from RNA polymerase II promoter (GO:0006366)|transcription from RNA polymerase III promoter (GO:0006383)|transcription initiation from RNA polymerase I promoter (GO:0006361)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	cytoplasm (GO:0005737)|female pronucleus (GO:0001939)|male pronucleus (GO:0001940)|nuclear euchromatin (GO:0005719)|nucleoplasm (GO:0005654)|transcription factor TFIIA complex (GO:0005672)|transcription factor TFIID complex (GO:0005669)	repressing transcription factor binding (GO:0070491)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)	p.Q73Q(1)		breast(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(2)|lung(9)|ovary(1)|prostate(4)|urinary_tract(1)	26		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;1.07e-22)|BRCA - Breast invasive adenocarcinoma(81;5.01e-06)|GBM - Glioblastoma multiforme(31;0.00591)		agcagcaacagcaacagcagc	0.562																																																1	Substitution - coding silent(1)	endometrium(1)											17	21	20					6																	170871043		1987	3877	5864	SO:0001819	synonymous_variant	6908			M55654	CCDS5315.1, CCDS55077.1	6q27	2014-04-02			ENSG00000112592	ENSG00000112592		"General transcription factors"	11588	protein-coding gene	gene with protein product		600075		GTF2D1, SCA17		2194289, 11448935	Standard	NM_003194		Approved	TFIID	uc003qxu.3	P20226	OTTHUMG00000016084	ENST00000392092.2:c.219G>A	6.37:g.170871043G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4E3B3|F5H869|Q16845|Q6IBM6|Q9UC02	Silent	SNP	ENST00000392092.2	37	CCDS5315.1																																																																																				0.562	TBP-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000043271.2	NM_003194		A	170871043	G	A	170871043	2	1	683	1	0	0	0	0	0	0	0	1	15656	962	34	2		2	TBP	6	170871043	Silent	SNP	G	TCGA-KO-8413-01A-11D-2310-10	3	170871043	244024	17	44236	464	2								
MUC17	140453	mdanderson.org	37	chr7	100678935	100678935	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gccggtagtcagttctgaggCtagcaccctttcagcaactc	10	13	3	1	rs116960680		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr7:100678935C>T	ENST00000306151.4	+	3	4302	c.4238C>T	c.(4237-4239)gCt>gTt	p.A1413V		NM_001040105.1	NP_001035194.1	Q685J3	MUC17_HUMAN	mucin 17, cell surface associated	1413	59 X approximate tandem repeats.|Ser-rich.				cellular homeostasis (GO:0019725)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	apical plasma membrane (GO:0016324)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)	extracellular matrix constituent, lubricant activity (GO:0030197)|PDZ domain binding (GO:0030165)			NS(3)|breast(14)|central_nervous_system(2)|cervix(2)|endometrium(27)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(28)|lung(179)|ovary(19)|pancreas(1)|prostate(13)|skin(26)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(4)	343	Lung NSC(181;0.136)|all_lung(186;0.182)					AGTTCTGAGGCTAGCACCCTT	0.507																																																0													271	276	274					7																	100678935		2203	4300	6503	SO:0001583	missense	140453			AJ606307	CCDS34711.1	7q22	2007-01-17	2006-03-14		ENSG00000169876	ENSG00000169876		"Mucins"	16800	protein-coding gene	gene with protein product		608424				11855812	Standard	NM_001040105		Approved		uc003uxp.1	Q685J3	OTTHUMG00000157030	ENST00000306151.4:c.4238C>T	7.37:g.100678935C>T	ENSP00000302716:p.Ala1413Val	Somatic		WXS	Illumina HiSeq	Phase_I	O14761|Q685J2|Q8TDH7	Missense_Mutation	SNP	ENST00000306151.4	37	CCDS34711.1	.	.	.	.	.	.	.	.	.	.	c	2.228	-0.376848	0.05000	.	.	ENSG00000169876	ENST00000306151	T	0.02656	4.21	0.838	-1.68	0.08212	.	.	.	.	.	T	0.01870	0.0059	L	0.29908	0.895	0.09310	N	1	B	0.17038	0.02	B	0.06405	0.002	T	0.49103	-0.8974	9	0.16896	T	0.51	.	2.1924	0.03903	0.0:0.2679:0.3208:0.4112	.	1413	Q685J3	MUC17_HUMAN	V	1413	ENSP00000302716:A1413V	ENSP00000302716:A1413V	A	+	2	0	MUC17	100465655	0.000000	0.05858	0.000000	0.03702	0.017000	0.09413	0.179000	0.16840	-0.919000	0.03803	0.134000	0.15878	GCT		0.507	MUC17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347161.1	NM_001040105		T	100678935	C	T	100678935	3	4	683	1	0	0	0	0	1	0	0	0	9981	797	28	2	4248	2	MUC17	7	100678935	Missense_Mutation	SNP	C	TCGA-KO-8413-01A-11D-2310-10		100678935	58459728	18	44237										
SERPINE1	5054	hgsc.bcm.edu;ucsc.edu	37	chr7	100780310	100780310	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gtctcagcccgcatggccccCgaggagatcatcatggacag	12	14	3	1	rs550385890		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr7:100780310C>T	ENST00000223095.4	+	8	1273	c.1116C>T	c.(1114-1116)ccC>ccT	p.P372P	SERPINE1_ENST00000445463.2_Silent_p.P357P	NM_000602.4	NP_000593.1	P05121	PAI1_HUMAN	serpin peptidase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 1	372					angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|cellular response to lipopolysaccharide (GO:0071222)|chronological cell aging (GO:0001300)|defense response to Gram-negative bacterium (GO:0050829)|extracellular matrix organization (GO:0030198)|fibrinolysis (GO:0042730)|gene expression (GO:0010467)|negative regulation of blood coagulation (GO:0030195)|negative regulation of cell adhesion mediated by integrin (GO:0033629)|negative regulation of cell migration (GO:0030336)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|negative regulation of fibrinolysis (GO:0051918)|negative regulation of plasminogen activation (GO:0010757)|negative regulation of smooth muscle cell migration (GO:0014912)|negative regulation of smooth muscle cell-matrix adhesion (GO:2000098)|negative regulation of vascular wound healing (GO:0061044)|negative regulation of wound healing (GO:0061045)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of angiogenesis (GO:0045766)|positive regulation of blood coagulation (GO:0030194)|positive regulation of inflammatory response (GO:0050729)|positive regulation of interleukin-8 production (GO:0032757)|positive regulation of leukotriene production involved in inflammatory response (GO:0035491)|positive regulation of monocyte chemotaxis (GO:0090026)|positive regulation of receptor-mediated endocytosis (GO:0048260)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of cell proliferation (GO:0042127)|regulation of receptor activity (GO:0010469)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)|platelet alpha granule lumen (GO:0031093)	protease binding (GO:0002020)|serine-type endopeptidase inhibitor activity (GO:0004867)			central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(4)|lung(4)|ovary(1)|prostate(3)	20	Lung NSC(181;0.136)|all_lung(186;0.182)				Alteplase(DB00009)|Anistreplase(DB00029)|Drotrecogin alfa(DB00055)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)	GCATGGCCCCCGAGGAGATCA	0.582													C|||	1	0.000199681	0.0	0.0	5008	,	,		19048	0.001		0.0	False		,,,				2504	0.0															0													134	114	121					7																	100780310		2203	4300	6503	SO:0001819	synonymous_variant	5054			M16006	CCDS5711.1	7q22.1	2014-02-18	2005-08-18		ENSG00000106366	ENSG00000106366		"Serine (or cysteine) peptidase inhibitors"	8583	protein-coding gene	gene with protein product	"plasminogen activator inhibitor, type I"	173360	"serine (or cysteine) proteinase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 1"	PLANH1, PAI1		3097076, 2891140, 24172014	Standard	NM_000602		Approved	PAI	uc003uxt.4	P05121	OTTHUMG00000157107	ENST00000223095.4:c.1116C>T	7.37:g.100780310C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z4S0|F8WD53	Silent	SNP	ENST00000223095.4	37	CCDS5711.1																																																																																				0.582	SERPINE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347458.1	NM_000602		T	100780310	C	T	100780310	2	4	683	1	0	0	0	0	0	0	0	1	14124	639	23	1		1	SERPINE1	7	100780310	Silent	SNP	C	TCGA-KO-8413-01A-11D-2310-10	101375	100780310	58358353	19	44238										
IRF5	3663	mdanderson.org	37	chr7	128587381	128587381	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	ccgcccactctgcggccgccTactctgcagccgcccactct	8	22	3	0	rs199508964|rs79724471|rs60344245	byFrequency	TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr7:128587381T>C	ENST00000402030.2	+	6	603	c.531T>C	c.(529-531)ccT>ccC	p.P177P	IRF5_ENST00000473745.1_Silent_p.P177P|IRF5_ENST00000477535.1_Intron|IRF5_ENST00000357234.5_Silent_p.P193P|IRF5_ENST00000249375.4_Silent_p.P177P	NM_001098629.1|NM_001098630.1	NP_001092099.1|NP_001092100.1	Q13568	IRF5_HUMAN	interferon regulatory factor 5	177					cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of apoptotic process (GO:0043065)|positive regulation of interferon-alpha production (GO:0032727)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|response to muramyl dipeptide (GO:0032495)|response to peptidoglycan (GO:0032494)|transcription, DNA-templated (GO:0006351)|type I interferon signaling pathway (GO:0060337)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	regulatory region DNA binding (GO:0000975)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.?(1)		breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(1)|prostate(1)	15						TGCGGCCGCCTACTCTGCAGC	0.657																																																1	Unknown(1)	haematopoietic_and_lymphoid_tissue(1)						T	,,,,	881,2925		144,593,1166	5	7	6		531,579,531,,531		0.1	7	dbSNP_131	6	1628,6000		358,912,2544	no	coding-synonymous,coding-synonymous,coding-synonymous,intron,coding-synonymous	IRF5	NM_001098627.2,NM_001098629.1,NM_001098630.1,NM_001242452.1,NM_032643.3	,,,,	502,1505,3710	CC,CT,TT		21.3424,23.1477,21.9433	,,,,	177/499,193/515,177/499,,177/499	128587381	2509,8925	1903	3814	5717	SO:0001819	synonymous_variant	3663				CCDS5808.1, CCDS43645.1, CCDS56512.1	7q32	2008-07-18			ENSG00000128604	ENSG00000128604			6120	protein-coding gene	gene with protein product		607218					Standard	XM_005250317		Approved		uc003vog.3	Q13568	OTTHUMG00000158410	ENST00000402030.2:c.531T>C	7.37:g.128587381T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A4D1J8|A8DUA8|A8DUA9|E7EQ16|E7EW54|Q1A7B4|Q64GA9|Q64GB1|Q64GB2|Q6RCM8|Q9BQF0	Silent	SNP	ENST00000402030.2	37	CCDS5808.1	740	0.33882783882783885	191	0.3882113821138211	85	0.23480662983425415	170	0.2972027972027972	294	0.38786279683377306	T	2.949	-0.217149	0.06101	0.231477	0.213424	ENSG00000128604	ENST00000430204	.	.	.	.	.	.	.	.	.	.	.	T	0.00012	0.0000	.	.	.	0.58432	P	2.9999999999752447E-6	.	.	.	.	.	.	T	0.44667	-0.9313	1	.	.	.	.	.	.	.	.	166	E9PC81	.	P	166	.	.	L	+	2	0	IRF5	128374617	0.027000	0.19231	0.110000	0.21437	0.055000	0.15305	0.056000	0.14256	0.056000	0.16144	0.055000	0.15244	CTA		0.657	IRF5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350934.1	NM_001098627		C	128587381	T	C	128587381	2	2	683	1	0	0	0	0	0	0	0	1	7840	1509	53	3		3	IRF5	7	128587381	Silent	SNP	T	TCGA-KO-8413-01A-11D-2310-10	27807071	128587381	30551282	20	44239										
SDR16C5	195814	hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr8	57224802	57224802	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	ctttttgcctgttacgattcCggcattgttgattaggatgg	11	7	0	1	rs199932397		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr8:57224802C>T	ENST00000303749.3	-	3	1016	c.379G>A	c.(379-381)Gga>Aga	p.G127R	SDR16C5_ENST00000522671.1_Missense_Mutation_p.G127R|SDR16C5_ENST00000396721.2_Intron	NM_138969.2	NP_620419.2	Q8N3Y7	RDHE2_HUMAN	short chain dehydrogenase/reductase family 16C, member 5	127					detection of light stimulus involved in visual perception (GO:0050908)|keratinocyte proliferation (GO:0043616)|retinal metabolic process (GO:0042574)|retinol metabolic process (GO:0042572)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	retinol dehydrogenase activity (GO:0004745)			breast(2)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|lung(3)|ovary(1)|prostate(1)|skin(1)	16						GTTACGATTCCGGCATTGTTG	0.378																																																0								C	ARG/GLY	0,4406		0,0,2203	119	109	112		379	4.5	0.5	8		112	2,8598	2.2+/-6.3	0,2,4298	yes	missense	SDR16C5	NM_138969.2	125	0,2,6501	TT,TC,CC		0.0233,0.0,0.0154	probably-damaging	127/310	57224802	2,13004	2203	4300	6503	SO:0001583	missense	195814				CCDS6167.1	8q12.1	2011-09-20			ENSG00000170786	ENSG00000170786	1.1.1.-	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 3"	30311	protein-coding gene	gene with protein product		608989				12372410	Standard	NM_138969		Approved	RDHE2, RDH-E2	uc003xsy.1	Q8N3Y7	OTTHUMG00000164311	ENST00000303749.3:c.379G>A	8.37:g.57224802C>T	ENSP00000307607:p.Gly127Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DGK2|Q330K3|Q8TDV9|Q96LX1	Missense_Mutation	SNP	ENST00000303749.3	37	CCDS6167.1	.	.	.	.	.	.	.	.	.	.	C	25.3	4.622111	0.87460	0.0	2.33E-4	ENSG00000170786	ENST00000303749;ENST00000522671;ENST00000538514	D;T	0.94758	-3.51;-0.2	5.41	4.53	0.55603	NAD(P)-binding domain (1);	0.000000	0.85682	D	0.000000	D	0.98498	0.9499	H	0.99117	4.435	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.85130	0.997;0.997	D	0.99056	1.0829	10	0.87932	D	0	.	14.1141	0.65142	0.0:0.9276:0.0:0.0724	.	127;127	G3V145;Q8N3Y7	.;RDHE2_HUMAN	R	127	ENSP00000307607:G127R;ENSP00000431010:G127R	ENSP00000307607:G127R	G	-	1	0	SDR16C5	57387356	1.000000	0.71417	0.454000	0.27019	0.992000	0.81027	5.952000	0.70282	1.291000	0.44653	0.655000	0.94253	GGA		0.378	SDR16C5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378235.1	NM_138969		T	57224802	C	T	57224802	3	4	683	1	0	0	0	0	1	0	0	0	13984	661	23	1	570	1	SDR16C5	8	57224802	Missense_Mutation	SNP	C	TCGA-KO-8413-01A-11D-2310-10		57224802	89139220	21	44240										
VPS13B	157680	broad.mit.edu	37	chr8	100832274	100832274	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	tatcaatgaatccaaatgggAcctctggctatttgaaggag	10	7	2	2			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr8:100832274A>G	ENST00000358544.2	+	49	9104	c.8993A>G	c.(8992-8994)gAc>gGc	p.D2998G	VPS13B_ENST00000357162.2_Missense_Mutation_p.D2973G|VPS13B_ENST00000395996.1_3'UTR	NM_017890.4	NP_060360.3	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13 homolog B (yeast)	2998					protein transport (GO:0015031)					NS(1)|autonomic_ganglia(1)|breast(6)|central_nervous_system(4)|cervix(3)|endometrium(11)|haematopoietic_and_lymphoid_tissue(4)|kidney(10)|large_intestine(37)|lung(78)|ovary(8)|pancreas(3)|prostate(5)|skin(9)|upper_aerodigestive_tract(4)|urinary_tract(9)	193	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TCCAAATGGGACCTCTGGCTA	0.393																																					Colon(161;2205 2542 7338 31318)											0													124	129	127					8																	100832274		2203	4300	6503	SO:0001583	missense	157680			AJ608772	CCDS6280.1, CCDS6281.1, CCDS6283.1, CCDS47903.1	8q22-q23	2014-09-17	2006-12-19	2005-04-08	ENSG00000132549	ENSG00000132549			2183	protein-coding gene	gene with protein product		607817	"Cohen syndrome 1"	CHS1, COH1		7920642, 15498460	Standard	NM_181661		Approved		uc003yiv.4	Q7Z7G8	OTTHUMG00000140383	ENST00000358544.2:c.8993A>G	8.37:g.100832274A>G	ENSP00000351346:p.Asp2998Gly	Somatic		WXS	Illumina HiSeq	Phase_I	C9JD30|Q709C6|Q709C7|Q7Z7G4|Q7Z7G5|Q7Z7G6|Q7Z7G7|Q8NB77|Q9NWV1|Q9Y4E7	Missense_Mutation	SNP	ENST00000358544.2	37	CCDS6280.1	.	.	.	.	.	.	.	.	.	.	A	21.8	4.203194	0.79127	.	.	ENSG00000132549	ENST00000357162;ENST00000358544	T;T	0.80480	-1.38;-1.38	5.92	5.92	0.95590	.	0.000000	0.85682	D	0.000000	D	0.83147	0.5191	N	0.19112	0.55	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.996	D	0.85178	0.1002	10	0.54805	T	0.06	.	16.3526	0.83220	1.0:0.0:0.0:0.0	.	2973;2998	Q7Z7G8-2;Q7Z7G8	.;VP13B_HUMAN	G	2973;2998	ENSP00000349685:D2973G;ENSP00000351346:D2998G	ENSP00000349685:D2973G	D	+	2	0	VPS13B	100901450	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.339000	0.96797	2.255000	0.74692	0.533000	0.62120	GAC		0.393	VPS13B-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000277138.1	NM_184042		G	100832274	A	G	100832274	3	3	683	1	0	0	0	0	1	0	0	0	17202	275	10	3	9377	3	VPS13B	8	100832274	Missense_Mutation	SNP	A	TCGA-KO-8413-01A-11D-2310-10	43607472	100832274	45531748	22	44241										
UBR5	51366	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr8	103324629	103324629	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gagagaagaagggtcagcatCtggaccagagctgttctgac	14	8	3	4			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr8:103324629C>G	ENST00000520539.1	-	17	2698	c.2092G>C	c.(2092-2094)Gat>Cat	p.D698H	UBR5_ENST00000521922.1_Missense_Mutation_p.D692H|UBR5_ENST00000220959.4_Missense_Mutation_p.D698H	NM_001282873.1|NM_015902.5	NP_001269802.1|NP_056986.2	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin 5	698					cell proliferation (GO:0008283)|cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|negative regulation of double-strand break repair (GO:2000780)|negative regulation of histone H2A K63-linked ubiquitination (GO:1901315)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of catenin import into nucleus (GO:0035413)|positive regulation of protein import into nucleus, translocation (GO:0033160)|progesterone receptor signaling pathway (GO:0050847)|protein polyubiquitination (GO:0000209)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	ligase activity (GO:0016874)|RNA binding (GO:0003723)|ubiquitin-protein transferase activity (GO:0004842)|ubiquitin-ubiquitin ligase activity (GO:0034450)|zinc ion binding (GO:0008270)			NS(1)|breast(13)|central_nervous_system(1)|cervix(1)|endometrium(7)|kidney(8)|large_intestine(19)|liver(1)|lung(51)|ovary(6)|pancreas(1)|prostate(5)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(2)	124	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			GGGTCAGCATCTGGACCAGAG	0.408																																					Ovarian(131;96 1741 5634 7352 27489)											0													103	97	99					8																	103324629		2203	4300	6503	SO:0001583	missense	51366			AF006010	CCDS34933.1, CCDS64946.1	8q22	2008-06-23	2007-06-19	2007-06-19	ENSG00000104517	ENSG00000104517		"Ubiquitin protein ligase E3 component n-recognins"	16806	protein-coding gene	gene with protein product		608413	"E3 ubiquitin protein ligase, HECT domain containing, 1"	EDD1		10030672, 16055722	Standard	NM_015902		Approved	DD5, HYD, EDD, KIAA0896	uc003ykr.2	O95071	OTTHUMG00000164755	ENST00000520539.1:c.2092G>C	8.37:g.103324629C>G	ENSP00000429084:p.Asp698His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP24|J3KMW7|O94970|Q9NPL3	Missense_Mutation	SNP	ENST00000520539.1	37	CCDS34933.1	.	.	.	.	.	.	.	.	.	.	C	19.22	3.784670	0.70222	.	.	ENSG00000104517	ENST00000520539;ENST00000220959;ENST00000521922	T;T;T	0.52057	0.68;0.68;0.68	5.23	5.23	0.72850	.	0.000000	0.85682	D	0.000000	T	0.63307	0.2500	L	0.42245	1.32	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.77557	0.99;0.99	T	0.65429	-0.6170	10	0.66056	D	0.02	.	18.7881	0.91963	0.0:1.0:0.0:0.0	.	692;698	E7EMW7;O95071	.;UBR5_HUMAN	H	698;698;692	ENSP00000429084:D698H;ENSP00000220959:D698H;ENSP00000427819:D692H	ENSP00000220959:D698H	D	-	1	0	UBR5	103393805	1.000000	0.71417	0.996000	0.52242	0.967000	0.64934	7.818000	0.86416	2.449000	0.82847	0.591000	0.81541	GAT		0.408	UBR5-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000380075.2	NM_015902		G	103324629	C	G	103324629	3	3	683	1	0	0	0	0	1	0	0	0	16917	913	32	4	6479	4	UBR5	8	103324629	Missense_Mutation	SNP	C	TCGA-KO-8413-01A-11D-2310-10	2492355	103324629	43039393	23	44242										
FRG2B	441581	mdanderson.org	37	chr10	135438933	135438933	+	Silent	SNP	C	C	T													0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	accaagctttttcgaattgaCggtgtttggactcctagggc					rs200793608		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr10:135438933C>T	ENST00000425520.1	-	4	559	c.507G>A	c.(505-507)ccG>ccA	p.P169P	FRG2B_ENST00000443774.1_Silent_p.P170P	NM_001080998.1	NP_001074467.1	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	169						nucleus (GO:0005634)				endometrium(2)|kidney(2)|lung(14)|ovary(1)|prostate(1)	20		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		TTCGAATTGACGGTGTTTGGA	0.552																																																0													126	151	143					10																	135438933		2193	4291	6484	SO:0001819	synonymous_variant	441581			AY744466	CCDS44502.1	10q26.3	2012-10-02			ENSG00000225899	ENSG00000225899			33518	protein-coding gene	gene with protein product						15520407	Standard	NM_001080998		Approved		uc010qvg.2	Q96QU4	OTTHUMG00000019328	ENST00000425520.1:c.507G>A	10.37:g.135438933C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VSQ1	Silent	SNP	ENST00000425520.1	37	CCDS44502.1																																																																																				0.552	FRG2B-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000467780.1	NM_001080998		T	135438933	C	T	135438933	2	4	683	1	0	0	0	0	0	0	0	1	6054	523	19	1		1	FRG2B	10	135438933	Silent	SNP	C	TCGA-KO-8413-01A-11D-2310-10		135438933	95814	24	44243	465	2	2	129		3	2	29	N	C_A	4.612781e-05
FRG2B	441581	mdanderson.org	37	chr10	135438943	135438943	+	Missense_Mutation	SNP	A	A	T													0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	ttcgaattgacggtgtttggActcctagggcccgagaccta					rs200701804		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr10:135438943A>T	ENST00000425520.1	-	4	549	c.497T>A	c.(496-498)gTc>gAc	p.V166D	FRG2B_ENST00000443774.1_Missense_Mutation_p.V167D	NM_001080998.1	NP_001074467.1	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	166						nucleus (GO:0005634)				endometrium(2)|kidney(2)|lung(14)|ovary(1)|prostate(1)	20		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		CGGTGTTTGGACTCCTAGGGC	0.557																																																0													125	151	142					10																	135438943		2192	4290	6482	SO:0001583	missense	441581			AY744466	CCDS44502.1	10q26.3	2012-10-02			ENSG00000225899	ENSG00000225899			33518	protein-coding gene	gene with protein product						15520407	Standard	NM_001080998		Approved		uc010qvg.2	Q96QU4	OTTHUMG00000019328	ENST00000425520.1:c.497T>A	10.37:g.135438943A>T	ENSP00000401310:p.Val166Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VSQ1	Missense_Mutation	SNP	ENST00000425520.1	37	CCDS44502.1	.	.	.	.	.	.	.	.	.	.	.	2.998	-0.206630	0.06180	.	.	ENSG00000225899	ENST00000443774;ENST00000425520	T;T	0.39997	1.05;1.05	.	.	.	.	1.677530	0.03603	N	0.233651	T	0.22666	0.0547	N	0.08118	0	0.09310	N	0.999995	B	0.02656	0.0	B	0.04013	0.001	T	0.16748	-1.0392	8	0.34782	T	0.22	-0.1173	.	.	.	.	166	Q96QU4	FRG2B_HUMAN	D	167;166	ENSP00000408343:V167D;ENSP00000401310:V166D	ENSP00000401310:V166D	V	-	2	0	FRG2B	135288933	0.003000	0.15002	0.161000	0.22692	0.163000	0.22366	-0.691000	0.05133	0.103000	0.17682	0.102000	0.15555	GTC		0.557	FRG2B-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000467780.1	NM_001080998		T	135438943	A	T	135438943	3	4	683	1	0	0	0	0	1	0	0	0	6054	275	10	5	342	5	FRG2B	10	135438943	Missense_Mutation	SNP	A	TCGA-KO-8413-01A-11D-2310-10	10	135438943	95804	25	44244	465	2	2	129		3	2	29	N	C_A	4.612781e-05
FRG2B	441581	mdanderson.org	37	chr10	135438961	135438961	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	ggactcctagggcccgagacCtatgccgcttgctgcgccca	12	16	0	1	rs200048408	byFrequency	TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr10:135438961C>T	ENST00000425520.1	-	4	531	c.479G>A	c.(478-480)aGg>aAg	p.R160K	FRG2B_ENST00000443774.1_Missense_Mutation_p.R161K	NM_001080998.1	NP_001074467.1	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	160						nucleus (GO:0005634)				endometrium(2)|kidney(2)|lung(14)|ovary(1)|prostate(1)	20		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		GGCCCGAGACCTATGCCGCTT	0.557																																																0													118	141	133					10																	135438961		2195	4299	6494	SO:0001583	missense	441581			AY744466	CCDS44502.1	10q26.3	2012-10-02			ENSG00000225899	ENSG00000225899			33518	protein-coding gene	gene with protein product						15520407	Standard	NM_001080998		Approved		uc010qvg.2	Q96QU4	OTTHUMG00000019328	ENST00000425520.1:c.479G>A	10.37:g.135438961C>T	ENSP00000401310:p.Arg160Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VSQ1	Missense_Mutation	SNP	ENST00000425520.1	37	CCDS44502.1	.	.	.	.	.	.	.	.	.	.	.	7.703	0.693451	0.15039	.	.	ENSG00000225899	ENST00000443774;ENST00000425520	T;T	0.50001	0.76;0.76	.	.	.	.	2.815140	0.01633	N	0.023649	T	0.33235	0.0856	L	0.27053	0.805	0.09310	N	1	B	0.15473	0.013	B	0.16289	0.015	T	0.09684	-1.0663	8	0.21014	T	0.42	-0.5686	.	.	.	.	160	Q96QU4	FRG2B_HUMAN	K	161;160	ENSP00000408343:R161K;ENSP00000401310:R160K	ENSP00000401310:R160K	R	-	2	0	FRG2B	135288951	0.009000	0.17119	0.133000	0.22050	0.135000	0.20990	0.259000	0.18405	0.119000	0.18210	0.121000	0.15741	AGG		0.557	FRG2B-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000467780.1	NM_001080998		T	135438961	C	T	135438961	3	4	683	1	0	0	0	0	1	0	0	0	6054	681	24	2	360	2	FRG2B	10	135438961	Missense_Mutation	SNP	C	TCGA-KO-8413-01A-11D-2310-10	18	135438961	95786	26	44245			2	129		3	2	29	N	C_A	4.612781e-05
CHID1	66005	broad.mit.edu	37	chr11	869923	869924	+	Frame_Shift_Ins	INS	-	-	C													0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	atagagaccccaacgcccagINSctcccgggccagctccagcc							TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr11:869923_869924insC	ENST00000449825.1	-	13	1472_1473	c.1116_1117insG	c.(1114-1119)gagctgfs	p.L373fs	CHID1_ENST00000429789.2_Frame_Shift_Ins_p.L342fs|CHID1_ENST00000436108.2_Frame_Shift_Ins_p.L373fs|CHID1_ENST00000336845.5_Frame_Shift_Ins_p.L398fs|CHID1_ENST00000323541.7_Frame_Shift_Ins_p.L403fs|CHID1_ENST00000528581.1_Frame_Shift_Ins_p.L398fs|CHID1_ENST00000323578.8_Frame_Shift_Ins_p.L373fs|CHID1_ENST00000526714.1_5'Flank|CHID1_ENST00000454838.2_Frame_Shift_Ins_p.L398fs	NM_001142675.1	NP_001136147.1	Q9BWS9	CHID1_HUMAN	chitinase domain containing 1	373					carbohydrate metabolic process (GO:0005975)|chitin catabolic process (GO:0006032)|innate immune response (GO:0045087)|negative regulation of cytokine production involved in inflammatory response (GO:1900016)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|late endosome (GO:0005770)|lysosome (GO:0005764)|membrane (GO:0016020)|nucleus (GO:0005634)|trans-Golgi network (GO:0005802)	chitinase activity (GO:0004568)|oligosaccharide binding (GO:0070492)			endometrium(4)|kidney(1)|large_intestine(1)|lung(4)|ovary(1)|prostate(1)|skin(1)	13		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.48e-25)|Epithelial(43;3.75e-24)|BRCA - Breast invasive adenocarcinoma(625;4.65e-05)|Lung(200;0.0624)|LUSC - Lung squamous cell carcinoma(625;0.0735)		CCAACGCCCAGCTCCCGGGCCA	0.663																																					Pancreas(117;992 2327 5172 41921)											0																																										SO:0001589	frameshift_variant	66005			AK124697	CCDS7722.1, CCDS44510.1, CCDS44511.1	11p15.5	2005-10-27			ENSG00000177830	ENSG00000177830			28474	protein-coding gene	gene with protein product		615692					Standard	NM_023947		Approved	MGC3234, FLJ42707	uc001lsm.3	Q9BWS9	OTTHUMG00000133314	ENST00000449825.1:c.1117dupG	11.37:g.869924_869924dupC	ENSP00000391255:p.Leu373fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWB0|Q8NBM9|Q96CZ3|Q96S93|Q96SK0|Q9BY52	Frame_Shift_Ins	INS	ENST00000449825.1	37	CCDS7722.1																																																																																				0.663	CHID1-203	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257112.1	NM_023947		C	869924	-	C	869923	7	5	683	1	0	1	1	0	0	0	0	0	3347	962	34	0	68	0	CHID1	11	869923	Frame_Shift_Ins	INS	-	TCGA-KO-8413-01A-11D-2310-10		869923	134136593	27	44246										
OR51T1	401665	broad.mit.edu;mdanderson.org	37	chr11	4903765	4903765	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	ctctacctgaatggcactgaCgtattgtttattcttttctc	6	10	3	2	rs138268565	byFrequency	TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr11:4903765C>T	ENST00000322049.1	+	1	636	c.636C>T	c.(634-636)gaC>gaT	p.D212D	OR51T1_ENST00000380378.1_Silent_p.D239D|MMP26_ENST00000380390.1_Intron|MMP26_ENST00000477339.1_Intron			Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T, member 1	212						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(16)|ovary(2)|skin(3)|upper_aerodigestive_tract(1)	34		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATGGCACTGACGTATTGTTTA	0.443													c|||	2	0.000399361	0.0	0.0029	5008	,	,		22131	0.0		0.0	False		,,,				2504	0.0															0								T		0,4402		0,0,2201	115	106	109		717	-1.6	0.7	11	dbSNP_134	109	2,8594	2.2+/-6.3	0,2,4296	no	coding-synonymous	OR51T1	NM_001004759.1		0,2,6497	TT,TC,CC		0.0233,0.0,0.0154		239/355	4903765	2,12996	2201	4298	6499	SO:0001819	synonymous_variant	401665			BK004283	CCDS31363.1	11p15.4	2012-08-09			ENSG00000176900	ENSG00000176900		"GPCR / Class A : Olfactory receptors"	15205	protein-coding gene	gene with protein product							Standard	NM_001004759		Approved		uc010qyp.2	Q8NGJ9	OTTHUMG00000066507	ENST00000322049.1:c.636C>T	11.37:g.4903765C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFH9	Silent	SNP	ENST00000322049.1	37																																																																																					0.443	OR51T1-001	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000142180.1	NM_001004759		T	4903765	C	T	4903765	2	4	683	1	0	0	0	0	0	0	0	1	11113	535	19	1		1	OR51T1	11	4903765	Silent	SNP	C	TCGA-KO-8413-01A-11D-2310-10	4033842	4903765	130102751	28	44247										
FOLH1	2346	mdanderson.org	37	chr11	49186293	49186293	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	tgtaccaagctgtacatcagCggtgtacaatcaactctcag	8	11	3	0	rs370741711		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr11:49186293C>T	ENST00000256999.2	-	13	1664	c.1404G>A	c.(1402-1404)ccG>ccA	p.P468P	FOLH1_ENST00000533034.1_Silent_p.P453P|FOLH1_ENST00000340334.7_Silent_p.P453P|FOLH1_ENST00000356696.3_Silent_p.P468P|FOLH1_ENST00000343844.4_Silent_p.P160P|FOLH1_ENST00000525629.1_5'UTR	NM_004476.1	NP_004467.1	Q04609	FOLH1_HUMAN	folate hydrolase (prostate-specific membrane antigen) 1	468	NAALADase.				folic acid-containing compound metabolic process (GO:0006760)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	carboxypeptidase activity (GO:0004180)|dipeptidase activity (GO:0016805)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)|peptidase activity (GO:0008233)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(7)|lung(34)|ovary(1)|skin(1)|upper_aerodigestive_tract(4)|urinary_tract(3)	60					Capromab(DB00089)	TGTACATCAGCGGTGTACAAT	0.284																																																0													41	42	42					11																	49186293		2197	4295	6492	SO:0001819	synonymous_variant	2346			M99487	CCDS7946.1, CCDS31493.1, CCDS53626.1, CCDS53627.1, CCDS53628.1	11p11.2	2011-07-22			ENSG00000086205	ENSG00000086205	3.4.17.21		3788	protein-coding gene	gene with protein product	"glutamate carboxylase II", "glutamate carboxypeptidase II"	600934		FOLH		9838072	Standard	NM_001193472		Approved	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII	uc001ngy.3	Q04609	OTTHUMG00000166625	ENST00000256999.2:c.1404G>A	11.37:g.49186293C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4UU12|A9CB79|B7Z312|B7Z343|D3DQS5|E9PDX8|O43748|Q16305|Q541A4|Q8TAY3|Q9NP15|Q9NYE2|Q9P1P8	Silent	SNP	ENST00000256999.2	37	CCDS7946.1																																																																																				0.284	FOLH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390896.1	NM_004476		T	49186293	C	T	49186293	2	4	683	1	0	0	0	0	0	0	0	1	5986	755	27	1		1	FOLH1	11	49186293	Silent	SNP	C	TCGA-KO-8413-01A-11D-2310-10	44282528	49186293	85820223	29	44248										
OR5M9	390162	broad.mit.edu	37	chr11	56230414	56230414	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	aagtccatagtgtgcatattAggctgacagagaatccatag	10	7	0	2			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr11:56230414A>G	ENST00000279791.1	-	1	463	c.464T>C	c.(463-465)cTa>cCa	p.L155P		NM_001004743.1	NP_001004743.1	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M, member 9	155						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(17)|ovary(1)|prostate(1)|skin(4)|urinary_tract(2)	36	Esophageal squamous(21;0.00448)					TGTGCATATTAGGCTGACAGA	0.458																																																0													94	96	96					11																	56230414		2201	4296	6497	SO:0001583	missense	390162			AB065747	CCDS31531.1	11q11	2012-08-09			ENSG00000150269	ENSG00000150269		"GPCR / Class A : Olfactory receptors"	15294	protein-coding gene	gene with protein product							Standard	NM_001004743		Approved		uc010rjj.2	Q8NGP3	OTTHUMG00000166874	ENST00000279791.1:c.464T>C	11.37:g.56230414A>G	ENSP00000279791:p.Leu155Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEW5|Q96RB9	Missense_Mutation	SNP	ENST00000279791.1	37	CCDS31531.1	.	.	.	.	.	.	.	.	.	.	A	12.97	2.096068	0.36952	.	.	ENSG00000150269	ENST00000279791	T	0.00285	8.3	4.63	4.63	0.57726	GPCR, rhodopsin-like superfamily (1);	0.000000	0.37219	N	0.002191	T	0.00724	0.0024	M	0.92026	3.265	0.25397	N	0.988475	D	0.71674	0.998	D	0.76575	0.988	T	0.28808	-1.0032	10	0.66056	D	0.02	-3.3219	7.1803	0.25768	0.8977:0.0:0.1023:0.0	.	155	Q8NGP3	OR5M9_HUMAN	P	155	ENSP00000279791:L155P	ENSP00000279791:L155P	L	-	2	0	OR5M9	55986990	0.000000	0.05858	0.091000	0.20842	0.438000	0.31896	1.335000	0.33839	1.847000	0.53656	0.443000	0.29094	CTA		0.458	OR5M9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391638.1	NM_001004743		G	56230414	A	G	56230414	3	3	683	1	0	0	0	0	1	0	0	0	11184	420	15	3	470	3	OR5M9	11	56230414	Missense_Mutation	SNP	A	TCGA-KO-8413-01A-11D-2310-10	7044121	56230414	78776102	30	44249										
MYO7A	4647	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr11	76924024	76924024	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	cggagccaaacttccctgagAtcctcctaattgccatcaac	6	15	1	1	rs539755538		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr11:76924024A>T	ENST00000409709.3	+	47	6654	c.6382A>T	c.(6382-6384)Atc>Ttc	p.I2128F	MYO7A_ENST00000605744.1_3'UTR|MYO7A_ENST00000409619.2_Missense_Mutation_p.I2079F|MYO7A_ENST00000458637.2_Missense_Mutation_p.I2088F	NM_000260.3	NP_000251.3	Q13402	MYO7A_HUMAN	myosin VIIA	2128	FERM 2. {ECO:0000255|PROSITE- ProRule:PRU00084}.				actin filament-based movement (GO:0030048)|auditory receptor cell stereocilium organization (GO:0060088)|equilibrioception (GO:0050957)|eye photoreceptor cell development (GO:0042462)|intracellular protein transport (GO:0006886)|lysosome organization (GO:0007040)|metabolic process (GO:0008152)|phagolysosome assembly (GO:0001845)|pigment granule transport (GO:0051904)|post-embryonic organ morphogenesis (GO:0048563)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|visual perception (GO:0007601)	apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|lysosomal membrane (GO:0005765)|melanosome (GO:0042470)|myosin VII complex (GO:0031477)|photoreceptor connecting cilium (GO:0032391)|photoreceptor inner segment (GO:0001917)|photoreceptor outer segment (GO:0001750)|stereocilium (GO:0032420)|synapse (GO:0045202)	actin filament binding (GO:0051015)|actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|calmodulin binding (GO:0005516)|microfilament motor activity (GO:0000146)|spectrin binding (GO:0030507)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(10)|lung(32)|ovary(4)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	64						CTTCCCTGAGATCCTCCTAAT	0.517																																																0													86	73	77					11																	76924024		1938	4137	6075	SO:0001583	missense	4647			U39226	CCDS53683.1, CCDS53684.1, CCDS53685.1	11q13.5	2013-01-08	2005-09-12		ENSG00000137474	ENSG00000137474		"A-kinase anchor proteins", "Myosins / Myosin superfamily : Class VII"	7606	protein-coding gene	gene with protein product		276903	"myosin VIIA (Usher syndrome 1B (autosomal recessive, severe))"	USH1B, DFNB2, DFNA11		8884266	Standard	NM_000260		Approved	NSRD2	uc001oyb.2	Q13402	OTTHUMG00000152822	ENST00000409709.3:c.6382A>T	11.37:g.76924024A>T	ENSP00000386331:p.Ile2128Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B9A011|F8VUN5|P78427|Q13321|Q14785|Q92821|Q92822	Missense_Mutation	SNP	ENST00000409709.3	37	CCDS53683.1	.	.	.	.	.	.	.	.	.	.	A	14.67	2.603818	0.46423	.	.	ENSG00000137474	ENST00000409709;ENST00000458637;ENST00000409619;ENST00000545136;ENST00000358342;ENST00000343356;ENST00000341717;ENST00000458169	T;T;T;T	0.75367	-0.93;-0.93;-0.93;-0.93	4.74	3.62	0.41486	FERM domain (1);Pleckstrin homology-type (1);	0.049218	0.85682	D	0.000000	T	0.73713	0.3622	M	0.65975	2.015	0.54753	D	0.999981	P;B	0.40909	0.732;0.413	P;B	0.48598	0.583;0.142	T	0.66999	-0.5781	10	0.17369	T	0.5	.	6.986	0.24729	0.7717:0.1495:0.0788:0.0	.	2088;2128	F8VUN5;Q13402	.;MYO7A_HUMAN	F	2128;2088;2079;1301;2127;2097;2004;1270	ENSP00000386331:I2128F;ENSP00000392185:I2088F;ENSP00000386635:I2079F;ENSP00000417017:I1270F	ENSP00000345075:I2004F	I	+	1	0	MYO7A	76601672	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	4.068000	0.57534	0.777000	0.33496	0.477000	0.44152	ATC		0.517	MYO7A-001	KNOWN	non_canonical_conserved|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000328133.1	NM_000260		T	76924024	A	T	76924024	3	4	683	1	0	0	0	0	1	0	0	0	10089	333	12	5	6598	5	MYO7A	11	76924024	Missense_Mutation	SNP	A	TCGA-KO-8413-01A-11D-2310-10	20693610	76924024	58082492	31	44250										
PRB2	653247	hgsc.bcm.edu	37	chr12	11546874	11546874	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	ggagatgggggaccttgaggTttgttgcctccttgtggggg	19	6	0	2	rs534885201	byFrequency	TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr12:11546874T>C	ENST00000389362.4	-	3	173	c.138A>G	c.(136-138)aaA>aaG	p.K46K	PRB2_ENST00000545829.1_5'Flank|PRB1_ENST00000546254.1_Intron	NM_006248.3	NP_006239.3	P02812	PRB2_HUMAN	proline-rich protein BstNI subfamily 2	46						extracellular region (GO:0005576)		p.K46K(1)|p.?(1)|p.A39_G59delAPPQGGNKPQGPPSPPGKPQG(1)		NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(14)|pancreas(1)|prostate(5)|skin(4)|stomach(2)|urinary_tract(1)	37		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			GACCTTGAGGTTTGTTGCCTC	0.532													C|||	2	0.000399361	0.0	0.0014	5008	,	,		17866	0.001		0.0	False		,,,				2504	0.0															3	Unknown(1)|Substitution - coding silent(1)|Deletion - In frame(1)	stomach(3)											126	141	136					12																	11546874		2156	4278	6434	SO:0001819	synonymous_variant	653247			K03208	CCDS41757.2	12p13.2	2012-10-02			ENSG00000121335	ENSG00000121335			9338	protein-coding gene	gene with protein product		168810				8554050	Standard	NM_006248		Approved	PRPPRB1, Ps, cP7	uc010shk.1	P02812	OTTHUMG00000156975	ENST00000389362.4:c.138A>G	12.37:g.11546874T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O00599|P02811|P04281	Silent	SNP	ENST00000389362.4	37	CCDS41757.2																																																																																				0.532	PRB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346925.2	NM_006248		C	11546874	T	C	11546874	2	2	683	1	0	0	0	0	0	0	0	1	12453	1722	60	3		3	PRB2	12	11546874	Silent	SNP	T	TCGA-KO-8413-01A-11D-2310-10		11546874	122305021	32	44251										
NCOR2	9612	broad.mit.edu	37	chr12	124819113	124819113	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	tagaggggggcgggcaggggTgcgctgagctgctgtgggtg	24	6	0	2			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr12:124819113T>G	ENST00000405201.1	-	41	6462	c.6462A>C	c.(6460-6462)gcA>gcC	p.A2154A	NCOR2_ENST00000429285.2_Silent_p.A2144A|NCOR2_ENST00000404121.2_Silent_p.A1715A|NCOR2_ENST00000356219.3_Silent_p.A2161A|NCOR2_ENST00000404621.1_Silent_p.A2144A|NCOR2_ENST00000397355.1_Silent_p.A2145A			Q9Y618	NCOR2_HUMAN	nuclear receptor corepressor 2	2165					cellular lipid metabolic process (GO:0044255)|gene expression (GO:0010467)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|regulation of cellular ketone metabolic process by negative regulation of transcription from RNA polymerase II promoter (GO:0072365)|small molecule metabolic process (GO:0044281)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	membrane (GO:0016020)|nuclear body (GO:0016604)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|histone deacetylase binding (GO:0042826)|Notch binding (GO:0005112)|protein N-terminus binding (GO:0047485)|transcription corepressor activity (GO:0003714)			breast(5)|central_nervous_system(2)|endometrium(7)|kidney(5)|large_intestine(7)|lung(28)|ovary(3)|pancreas(1)|prostate(3)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	69	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		CGGGCAGGGGTGCGCTGAGCT	0.692																																																0													6	9	8					12																	124819113		2041	4111	6152	SO:0001819	synonymous_variant	9612			U37146	CCDS41857.1, CCDS41858.1, CCDS41857.2, CCDS41858.2, CCDS55892.1	12q24	2010-06-10	2010-06-10		ENSG00000196498	ENSG00000196498			7673	protein-coding gene	gene with protein product		600848	"nuclear receptor co-repressor 2"			7566127, 8813722	Standard	NM_001077261		Approved	SMRT, SMRTE, TRAC-1, CTG26, TNRC14	uc010tbb.2	Q9Y618	OTTHUMG00000150455	ENST00000405201.1:c.6462A>C	12.37:g.124819113T>G		Somatic		WXS	Illumina HiSeq	Phase_I	O00613|O15416|O15421|Q13354|Q56D06|Q59GM0|Q9Y5U0	Silent	SNP	ENST00000405201.1	37	CCDS41858.2	.	.	.	.	.	.	.	.	.	.	t	1.066	-0.671344	0.03403	.	.	ENSG00000196498	ENST00000443451	.	.	.	4.4	-6.49	0.01890	.	.	.	.	.	T	0.34106	0.0886	.	.	.	0.35397	D	0.791261	.	.	.	.	.	.	T	0.39722	-0.9600	4	.	.	.	-0.8161	2.2268	0.03986	0.1512:0.1274:0.3748:0.3466	.	.	.	.	P	27	.	.	H	-	2	0	NCOR2	123385066	0.008000	0.16893	0.012000	0.15200	0.049000	0.14656	-1.776000	0.01781	-1.142000	0.02869	-0.618000	0.04049	CAC		0.692	NCOR2-005	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318173.2	NM_006312		G	124819113	T	G	124819113	2	3	683	1	0	0	0	0	0	0	0	1	10243	1683	59	5		5	NCOR2	12	124819113	Silent	SNP	T	TCGA-KO-8413-01A-11D-2310-10	113272239	124819113	9032782	33	44252										
MAP3K9	4293	broad.mit.edu	37	chr14	71206799	71206799	+	Frame_Shift_Del	DEL	A	A	-													0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	ggaatgatggtggggcttgcAggaggactggagcggctgtt							TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr14:71206799delA	ENST00000554752.2	-	7	1649	c.1650delT	c.(1648-1650)cctfs	p.P550fs	MAP3K9_ENST00000381250.4_Frame_Shift_Del_p.P550fs|MAP3K9_ENST00000553414.1_Frame_Shift_Del_p.P244fs|MAP3K9_ENST00000555993.2_Frame_Shift_Del_p.P550fs|MAP3K9_ENST00000554146.1_Frame_Shift_Del_p.P287fs	NM_001284230.1	NP_001271159.1	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase 9	550					activation of JNKK activity (GO:0007256)|activation of JUN kinase activity (GO:0007257)|apoptotic process (GO:0006915)|positive regulation of apoptotic process (GO:0043065)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)		ATP binding (GO:0005524)|JUN kinase kinase kinase activity (GO:0004706)|MAP kinase kinase activity (GO:0004708)|protein homodimerization activity (GO:0042803)|protein serine/threonine kinase activity (GO:0004674)|protein tyrosine kinase activity (GO:0004713)			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(25)|ovary(2)|prostate(1)|skin(3)|stomach(2)	46				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)		TGGGGCTTGCAGGAGGACTGG	0.552																																					GBM(114;411 1587 13539 28235 50070)											0													149	135	140					14																	71206799		2203	4300	6503	SO:0001589	frameshift_variant	4293			AF251442	CCDS32112.1, CCDS61485.1, CCDS61488.1, CCDS73650.1	14q24.2	2012-10-02			ENSG00000006432	ENSG00000006432		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6861	protein-coding gene	gene with protein product		600136		MLK1			Standard	NM_001284231		Approved	PRKE1, MEKK9	uc001xml.3	P80192	OTTHUMG00000171249	ENST00000554752.2:c.1650delT	14.37:g.71206799delA	ENSP00000451612:p.Pro550fs	Somatic		WXS	Illumina HiSeq	Phase_I	A3KN85|Q0D2G7|Q6EH31|Q9H2N5	Frame_Shift_Del	DEL	ENST00000554752.2	37																																																																																					0.552	MAP3K9-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000412550.2			-	71206799	A	-	71206799	7	5	683	1	0	1	0	1	0	0	0	0	9264	175	7	0	1734	0	MAP3K9	14	71206799	Frame_Shift_Del	DEL	A	TCGA-KO-8413-01A-11D-2310-10		71206799	36142741	34	44253										
C14orf4	64207	broad.mit.edu	37	chr14	77493792	77493794	+	In_Frame_Del	DEL	TGT	TGT	-													0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gctgctgctgctgctgctgcTgttgctgctgctgctgctgc					rs377151545|rs28718623|rs71125518	byFrequency	TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	TGT	TGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr14:77493792_77493794delTGT	ENST00000238647.3	-	1	1240_1242	c.342_344delACA	c.(340-345)caacag>cag	p.114_115QQ>Q		NM_024496.3	NP_078772.1	Q9H1B7	I2BPL_HUMAN	interferon regulatory factor 2 binding protein-like	114	Poly-Gln.				development of secondary female sexual characteristics (GO:0046543)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	extracellular space (GO:0005615)|nucleus (GO:0005634)	metal ion binding (GO:0046872)			endometrium(2)|kidney(1)|lung(3)|ovary(1)|prostate(1)|skin(1)|urinary_tract(2)	11						ctgctgctgctgttgctgctgct	0.7																																																0										1119,1147		390,339,404						-1.3	0			2	2585,1523		1057,471,526	no	coding	IRF2BPL	NM_024496.2		1447,810,930	A1A1,A1R,RR		37.074,49.3822,41.8889				3704,2670				SO:0001651	inframe_deletion	64207			AJ277365	CCDS9854.1	14q24.3	2011-02-23	2011-02-23	2011-02-23	ENSG00000119669	ENSG00000119669			14282	protein-coding gene	gene with protein product	"enhanced at puberty 1"	611720	"chromosome 14 open reading frame 4"	C14orf4		11095982, 17627301	Standard	NM_024496		Approved	EAP1, KIAA1865	uc001xsy.4	Q9H1B7		ENST00000238647.3:c.342_344delACA	14.37:g.77493792_77493794delTGT	ENSP00000238647:p.Gln127del	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NDQ2|Q96JG2|Q9H3I7	In_Frame_Del	DEL	ENST00000238647.3	37	CCDS9854.1																																																																																				0.7	IRF2BPL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414298.1	NM_024496		-	77493794	TGT	-	77493792	7	5	683	1	0	1	0	1	0	0	0	0	1775	1580	55	0	2050	0	C14orf4	14	77493792	In_Frame_Del	DEL	TGT	TCGA-KO-8413-01A-11D-2310-10	6286993	77493792	29855748	35	44254										
AHNAK2	113146	mdanderson.org	37	chr14	105415691	105415691	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	ctgaatgctgaggtcagtggTcttcaggtccccctgcatgg	13	11	3	2	rs199921891		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr14:105415691T>C	ENST00000333244.5	-	7	6216	c.6097A>G	c.(6097-6099)Acc>Gcc	p.T2033A	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2033						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			AGGTCAGTGGTCTTCAGGTCC	0.662																																																0													111	80	90					14																	105415691		1929	4059	5988	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.6097A>G	14.37:g.105415691T>C	ENSP00000353114:p.Thr2033Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	.	.	.	.	.	.	.	.	.	.	-	4.415	0.076697	0.08485	.	.	ENSG00000185567	ENST00000333244	T	0.02916	4.11	3.87	1.35	0.21983	.	.	.	.	.	T	0.01627	0.0052	N	0.17345	0.48	0.09310	N	1	B	0.15141	0.012	B	0.21360	0.034	T	0.49312	-0.8953	9	0.07990	T	0.79	-38.0818	3.0595	0.06195	0.0:0.2131:0.2467:0.5403	.	2033	Q8IVF2	AHNK2_HUMAN	A	2033	ENSP00000353114:T2033A	ENSP00000353114:T2033A	T	-	1	0	AHNAK2	104486736	0.003000	0.15002	0.349000	0.25694	0.166000	0.22503	0.346000	0.19997	0.370000	0.24538	0.397000	0.26171	ACC		0.662	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		C	105415691	T	C	105415691	3	2	683	1	0	0	0	0	1	0	0	0	415	1667	58	3	11294	3	AHNAK2	14	105415691	Missense_Mutation	SNP	T	TCGA-KO-8413-01A-11D-2310-10	27921899	105415691	1933849	36	44255										
GOLGA6D	653643	mdanderson.org	37	chr15	75586689	75586689	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	ccgcctccctctctccgaagTtttttatgaagtgagcctgg	9	13	1	2	rs201430576	byFrequency	TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr15:75586689T>A	ENST00000434739.3	+	18	1996	c.1955T>A	c.(1954-1956)gTt>gAt	p.V652D	RN7SL327P_ENST00000488659.2_RNA	NM_001145224.1	NP_001138696.1	P0CG33	GOG6D_HUMAN	golgin A6 family, member D	652						Golgi apparatus (GO:0005794)				kidney(1)|lung(1)	2						CTCTCCGAAGTTTTTTATGAA	0.617													a|||	236	0.0471246	0.1157	0.0548	5008	,	,		15529	0.0298		0.002	False		,,,				2504	0.0133															0													8	15	13					15																	75586689		633	1578	2211	SO:0001630	splice_region_variant	653643				CCDS45308.1	15q24.2	2013-05-10	2010-02-12	2009-09-04	ENSG00000140478	ENSG00000140478			32204	protein-coding gene	gene with protein product			"golgi autoantigen, golgin subfamily a, 6D"				Standard	NM_001145224		Approved		uc010uma.2	P0CG33	OTTHUMG00000172672	ENST00000434739.3:c.1955-1T>A	15.37:g.75586689T>A		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000434739.3	37	CCDS45308.1	.	.	.	.	.	.	.	.	.	.	A	0.005	-2.147222	0.00328	.	.	ENSG00000140478	ENST00000434739	T	0.19669	2.13	1.63	-0.857	0.10693	.	.	.	.	.	T	0.02649	0.0080	N	0.00062	-2.325	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.36648	-0.9739	8	.	.	.	.	2.1621	0.03827	0.3879:0.0:0.3567:0.2555	.	652	P0CG33	GOG6D_HUMAN	D	652	ENSP00000391085:V652D	.	V	+	2	0	GOLGA6D	73373742	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	0.546000	0.23284	-0.743000	0.04784	-0.937000	0.02696	GTT		0.617	GOLGA6D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419798.1	NM_001145224	Missense_Mutation	A	75586689	T	A	75586689	5	1	683	1	0	0	0	0	0	0	1	0	6567	1739	60	5	2025	5	GOLGA6D	15	75586689	Splice_Site	SNP	T	TCGA-KO-8413-01A-11D-2310-10		75586689	26944703	37	44256										
SMG1	23049	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	18849726	18849726	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	ttctactccagttacacccaGtgctgtttcaatgttttgtg	7	10	2	0			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr16:18849726G>T	ENST00000446231.2	-	44	7559	c.7147C>A	c.(7147-7149)Ctg>Atg	p.L2383M	SMG1_ENST00000389467.3_Missense_Mutation_p.L2383M			Q96Q15	SMG1_HUMAN	SMG1 phosphatidylinositol 3-kinase-related kinase	2383	PI3K/PI4K. {ECO:0000255|PROSITE- ProRule:PRU00269}.				DNA repair (GO:0006281)|gene expression (GO:0010467)|mRNA export from nucleus (GO:0006406)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|peptidyl-serine phosphorylation (GO:0018105)|phosphatidylinositol phosphorylation (GO:0046854)|protein autophosphorylation (GO:0046777)|response to stress (GO:0006950)|RNA metabolic process (GO:0016070)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			NS(2)|breast(8)|cervix(2)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(16)|lung(37)|ovary(1)|skin(1)|stomach(4)|urinary_tract(1)	92						GTTACACCCAGTGCTGTTTCA	0.373																																																0													198	183	188					16																	18849726		1884	4122	6006	SO:0001583	missense	23049			AB061371	CCDS45430.1	16p12.3	2013-07-02	2013-07-02		ENSG00000157106	ENSG00000157106			30045	protein-coding gene	gene with protein product	"phosphatidylinositol 3-kinase-related kinase"	607032	"smg-1 homolog, phosphatidylinositol 3-kinase-related kinase (C. elegans)"			9455477, 11331269, 17229728	Standard	NM_015092		Approved	LIP, KIAA0421, ATX	uc002dfm.3	Q96Q15	OTTHUMG00000166900	ENST00000446231.2:c.7147C>A	16.37:g.18849726G>T	ENSP00000402515:p.Leu2383Met	Somatic		WXS	Illumina HiSeq	Phase_I	O43305|Q13284|Q8NFX2|Q96QV0|Q96RW3	Missense_Mutation	SNP	ENST00000446231.2	37	CCDS45430.1	.	.	.	.	.	.	.	.	.	.	G	16.24	3.068487	0.55539	.	.	ENSG00000157106	ENST00000446231;ENST00000389467	T;T	0.81163	-1.46;-1.46	5.87	2.86	0.33363	Protein kinase-like domain (1);Armadillo-type fold (1);Phosphatidylinositol 3-/4-kinase, catalytic (4);	0.000000	0.53938	D	0.000051	T	0.77572	0.4150	N	0.25031	0.7	0.33860	D	0.633718	P	0.44380	0.834	P	0.55923	0.787	T	0.79055	-0.1960	10	0.32370	T	0.25	.	10.4288	0.44395	0.2602:0.0:0.7398:0.0	.	2383	Q96Q15	SMG1_HUMAN	M	2383	ENSP00000402515:L2383M;ENSP00000374118:L2383M	ENSP00000374118:L2383M	L	-	1	2	SMG1	18757227	1.000000	0.71417	0.997000	0.53966	0.999000	0.98932	2.877000	0.48506	0.485000	0.27652	0.655000	0.94253	CTG		0.373	SMG1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000391817.1	NM_015092		T	18849726	G	T	18849726	3	4	683	1	0	0	0	0	1	0	0	0	14808	1020	36	4	3918	4	SMG1	16	18849726	Missense_Mutation	SNP	G	TCGA-KO-8413-01A-11D-2310-10		18849726	71505027	38	44257										
GPR139	124274	broad.mit.edu	37	chr16	20084858	20084858	+	Frame_Shift_Del	DEL	G	G	-													0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	ctgtagtagaccacgggcacGaaacccaagccgcaggccga							TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr16:20084858delG	ENST00000570682.1	-	1	381	c.81delC	c.(79-81)ttcfs	p.F27fs		NM_001002911.2	NP_001002911.1	Q6DWJ6	GP139_HUMAN	G protein-coupled receptor 139	27					G-protein coupled receptor signaling pathway (GO:0007186)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	neuropeptide receptor activity (GO:0008188)			autonomic_ganglia(1)|central_nervous_system(1)|kidney(1)|large_intestine(4)|lung(17)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)	30						CCACGGGCACGAAACCCAAGC	0.682																																																0													35	35	35					16																	20084858		2199	4299	6498	SO:0001589	frameshift_variant	124274			AY255545	CCDS32398.1	16p13.11	2012-08-21						"GPCR / Class A : Orphans"	19995	protein-coding gene	gene with protein product						12679517	Standard	XM_005255114		Approved	PGR3	uc002dgu.1	Q6DWJ6		ENST00000570682.1:c.81delC	16.37:g.20084858delG	ENSP00000458791:p.Phe27fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5R9|Q86SP2|Q8TDU8	Frame_Shift_Del	DEL	ENST00000570682.1	37	CCDS32398.1																																																																																				0.682	GPR139-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438522.1	NM_001002911		-	20084858	G	-	20084858	7	5	683	1	0	1	0	1	0	0	0	0	6655	1049	37	0	988	0	GPR139	16	20084858	Frame_Shift_Del	DEL	G	TCGA-KO-8413-01A-11D-2310-10	1235132	20084858	70269895	39	44258										
DDX19A	55308	broad.mit.edu	37	chr16	70405336	70405336	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	cttcccgtggacaaggacggGaatcctgacaatgagaccta	11	11	0	2			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr16:70405336G>A	ENST00000302243.7	+	11	1408	c.1245G>A	c.(1243-1245)ggG>ggA	p.G415G	DDX19A_ENST00000417604.2_Silent_p.G384G|DDX19A_ENST00000443119.2_Silent_p.G325G	NM_018332.3	NP_060802.1	Q9NUU7	DD19A_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 19A	415	C-terminal lobe. {ECO:0000250}.|Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				mRNA transport (GO:0051028)|positive regulation of apoptotic process (GO:0043065)|protein transport (GO:0015031)|response to zinc ion (GO:0010043)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nuclear pore (GO:0005643)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|RNA binding (GO:0003723)			breast(1)|endometrium(1)|large_intestine(5)|lung(3)|urinary_tract(1)	11		Ovarian(137;0.221)				ACAAGGACGGGAATCCTGACA	0.557																																																0													57	52	54					16																	70405336		2197	4280	6477	SO:0001819	synonymous_variant	55308			AF183422	CCDS10889.1	16q22.1	2012-02-23	2012-02-23	2005-07-13	ENSG00000168872	ENSG00000168872		"DEAD-boxes"	25628	protein-coding gene	gene with protein product			"DEAD (Asp-Glu-Ala-As) box polypeptide 19-like"	DDX19L		12477932	Standard	NM_018332		Approved	FLJ11126		Q9NUU7	OTTHUMG00000137579	ENST00000302243.7:c.1245G>A	16.37:g.70405336G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RPL0|B4DRZ7|Q53FM0	Silent	SNP	ENST00000302243.7	37	CCDS10889.1																																																																																				0.557	DDX19A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268967.2	NM_018332		A	70405336	G	A	70405336	2	1	683	1	0	0	0	0	0	0	0	1	4348	1161	41	2		2	DDX19A	16	70405336	Silent	SNP	G	TCGA-KO-8413-01A-11D-2310-10	50320478	70405336	19949417	40	44259										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr17	7578212	7578212	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gggcaccaccacactatgtcGaaaagtgtttctgtcatcca	8	12	2	0	rs397516436		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr17:7578212G>A	ENST00000269305.4	-	6	826	c.637C>T	c.(637-639)Cga>Tga	p.R213*	TP53_ENST00000574684.1_Intron|TP53_ENST00000359597.4_Nonsense_Mutation_p.R213*|TP53_ENST00000445888.2_Nonsense_Mutation_p.R213*|TP53_ENST00000455263.2_Nonsense_Mutation_p.R213*|TP53_ENST00000413465.2_Nonsense_Mutation_p.R213*|TP53_ENST00000420246.2_Nonsense_Mutation_p.R213*	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	213	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with FBXO42.|Required for interaction with ZNF385A.		R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation). {ECO:0000269|PubMed:16959974}.|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> W (in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.R213*(250)|p.R81*(21)|p.R120*(21)|p.0?(8)|p.?(5)|p.R213G(5)|p.R213fs*35(3)|p.R213fs*34(3)|p.D208_V216delDRNTFRHSV(1)|p.R120G(1)|p.D207_R213delDDRNTFR(1)|p.T211_S215delTFRHS(1)|p.R81fs*>11(1)|p.D208fs*1(1)|p.R120fs*35(1)|p.R81G(1)|p.R209_R213delRNTFR(1)|p.R213fs*2(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213R(1)|p.R213fs*32(1)|p.R209fs*6(1)|p.R213W(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	ACACTATGTCGAAAAGTGTTT	0.532		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	333	Substitution - Nonsense(292)|Deletion - Frameshift(8)|Whole gene deletion(8)|Substitution - Missense(8)|Deletion - In frame(5)|Insertion - Frameshift(5)|Unknown(5)|Complex - deletion inframe(1)|Substitution - coding silent(1)	large_intestine(89)|breast(45)|lung(37)|upper_aerodigestive_tract(30)|central_nervous_system(18)|skin(16)|oesophagus(15)|stomach(14)|ovary(14)|haematopoietic_and_lymphoid_tissue(10)|urinary_tract(9)|biliary_tract(8)|liver(8)|soft_tissue(5)|endometrium(5)|bone(4)|prostate(3)|thyroid(1)|pancreas(1)|autonomic_ganglia(1)	GRCh37	CM951226	TP53	M							132	118	123					17																	7578212		2203	4300	6503	SO:0001587	stop_gained	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.637C>T	17.37:g.7578212G>A	ENSP00000269305:p.Arg213*	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Nonsense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	G	37	6.039727	0.97226	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944;ENST00000414315	.	.	.	5.28	3.25	0.37280	.	0.057335	0.64402	D	0.000003	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-7.5444	12.7263	0.57173	0.0:0.0:0.701:0.299	.	.	.	.	X	213;213;213;213;213;213;202;120;81;120;81	.	ENSP00000269305:R213X	R	-	1	2	TP53	7518937	0.971000	0.33674	0.123000	0.21794	0.957000	0.61999	1.659000	0.37387	0.702000	0.31825	0.563000	0.77884	CGA		0.532	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		A	7578212	G	A	7578212	4	1	683	1	0	0	0	0	0	1	0	0	16393	1066	37	1	657	1	TP53	17	7578212	Nonsense_Mutation	SNP	G	TCGA-KO-8413-01A-11D-2310-10		7578212	73616998	41	44260										
SNF8	11267	bcgsc.ca	37	chr17	47010703	47010703	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	tcttgatggctctgatcaggTcatctctgaggtaaggaaga	12	7	5	4			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr17:47010703T>C	ENST00000502492.1	-	6	810	c.428A>G	c.(427-429)gAc>gGc	p.D143G	SNF8_ENST00000290330.3_Missense_Mutation_p.D143G|SNF8_ENST00000514089.1_5'UTR|AC091133.1_ENST00000435491.1_RNA			Q96H20	SNF8_HUMAN	SNF8, ESCRT-II complex subunit	143					endosomal transport (GO:0016197)|membrane organization (GO:0061024)|protein transport (GO:0015031)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	cytosol (GO:0005829)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	protein homodimerization activity (GO:0042803)|transcription factor binding (GO:0008134)			breast(1)|endometrium(1)|lung(1)	3						TCTGATCAGGTCATCTCTGAG	0.502																																																0													162	141	148					17																	47010703		2203	4300	6503	SO:0001583	missense	11267			AF156102	CCDS11541.1	17q21.32	2013-06-05	2013-06-05		ENSG00000159210	ENSG00000159210			17028	protein-coding gene	gene with protein product		610904	"SNF8, ESCRT-II complex subunit, homolog (S. cerevisiae)"			10419521, 15329733	Standard	NM_007241		Approved	EAP30, VPS22, Dot3	uc002ioj.3	Q96H20	OTTHUMG00000160569	ENST00000502492.1:c.428A>G	17.37:g.47010703T>C	ENSP00000421380:p.Asp143Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IXY3|Q9UN50	Missense_Mutation	SNP	ENST00000502492.1	37	CCDS11541.1	.	.	.	.	.	.	.	.	.	.	T	16.25	3.071558	0.55646	.	.	ENSG00000159210	ENST00000502492;ENST00000290330	.	.	.	6.07	6.07	0.98685	.	0.000000	0.85682	D	0.000000	D	0.82962	0.5151	M	0.93106	3.38	0.80722	D	1	D;D	0.54397	0.958;0.966	P;P	0.54856	0.649;0.762	D	0.87276	0.2289	9	0.87932	D	0	-32.4767	16.2903	0.82747	0.0:0.0:0.0:1.0	.	143;143	Q96H20-2;Q96H20	.;SNF8_HUMAN	G	143	.	ENSP00000290330:D143G	D	-	2	0	SNF8	44365702	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.794000	0.85869	2.326000	0.78906	0.533000	0.62120	GAC		0.502	SNF8-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000361172.1	NM_007241		C	47010703	T	C	47010703	3	2	683	1	0	0	0	0	1	0	0	0	14859	1667	58	3	360	3	SNF8	17	47010703	Missense_Mutation	SNP	T	TCGA-KO-8413-01A-11D-2310-10	39432491	47010703	34184507	42	44261										
FAM100B	283991	mdanderson.org	37	chr17	74261677	74261677	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	cggccgaccaggcgaagcagTtgctgcaggcggcccactgg	16	14	0	0	rs2585751	byFrequency	TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr17:74261677T>C	ENST00000327490.6	+	1	395	c.91T>C	c.(91-93)Ttg>Ctg	p.L31L	UBALD2_ENST00000589240.1_5'Flank	NM_182565.3	NP_872371.1	Q8IYN6	UBAD2_HUMAN	UBA-like domain containing 2	31																	GGCGAAGCAGTTGCTGCAGGC	0.766													C|||	3578	0.714457	0.8843	0.6412	5008	,	,		3805	0.7024		0.5547	False		,,,				2504	0.7137															0								C		3526,686		1494,538,74	10	12	11		91	2.6	1	17	dbSNP_100	11	4861,3485		1480,1901,792	no	coding-synonymous	FAM100B	NM_182565.3		2974,2439,866	CC,CT,TT		41.7565,16.2868,33.2139		31/165	74261677	8387,4171	2106	4173	6279	SO:0001819	synonymous_variant	283991				CCDS11742.1	17q25.1	2012-11-30	2012-11-30	2012-11-30	ENSG00000185262	ENSG00000185262			28438	protein-coding gene	gene with protein product			"family with sequence similarity 100, member B"	FAM100B			Standard	NM_182565		Approved	MGC29814	uc010wsy.1	Q8IYN6	OTTHUMG00000132666	ENST00000327490.6:c.91T>C	17.37:g.74261677T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000327490.6	37	CCDS11742.1																																																																																				0.766	UBALD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255920.1	NM_182565		C	74261677	T	C	74261677	2	2	683	1	0	0	0	0	0	0	0	1	5383	1722	60	3		3	FAM100B	17	74261677	Silent	SNP	T	TCGA-KO-8413-01A-11D-2310-10	27250974	74261677	6933533	43	44262										
ZNF521	25925	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	22807259	22807259	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	tagaggacagaaacccacggCgacaaatggcacatttatat	9	9	0	2			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr18:22807259C>T	ENST00000361524.3	-	4	771	c.623G>A	c.(622-624)cGc>cAc	p.R208H	ZNF521_ENST00000538137.2_Missense_Mutation_p.R208H|ZNF521_ENST00000579111.1_5'Flank|ZNF521_ENST00000584787.1_5'UTR	NM_015461.2	NP_056276.1	Q96K83	ZN521_HUMAN	zinc finger protein 521	208					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|protein domain specific binding (GO:0019904)			NS(1)|breast(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(21)|lung(97)|ovary(5)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	149	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					AAACCCACGGCGACAAATGGC	0.493			T	PAX5	ALL																																		Dom	yes		18	18q11.2	25925	zinc finger protein 521		L	0													88	83	85					18																	22807259		2203	4300	6503	SO:0001583	missense	25925			AK027354	CCDS32806.1	18q11.2	2013-01-08				ENSG00000198795		"Zinc fingers, C2H2-type"	24605	protein-coding gene	gene with protein product	"early hematopoietic zinc finger"	610974				11984006, 14630787	Standard	NM_015461		Approved	EHZF, Evi3	uc002kvk.2	Q96K83		ENST00000361524.3:c.623G>A	18.37:g.22807259C>T	ENSP00000354794:p.Arg208His	Somatic		WXS	Illumina HiSeq	Phase_I	A3QVP7|B0YJB7|Q8IXI0|Q8TES6|Q9C065|Q9HAL5|Q9UFK4	Missense_Mutation	SNP	ENST00000361524.3	37	CCDS32806.1	.	.	.	.	.	.	.	.	.	.	C	11.57	1.679010	0.29783	.	.	ENSG00000198795	ENST00000361524;ENST00000538137;ENST00000399425	T;T	0.14893	2.47;2.47	5.98	5.98	0.97165	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (2);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.85682	D	0.000000	T	0.25232	0.0613	N	0.16307	0.4	0.36028	D	0.839201	D	0.76494	0.999	D	0.66716	0.946	T	0.16630	-1.0396	10	0.87932	D	0	-41.7226	13.6203	0.62134	0.0:0.9294:0.0:0.0706	.	208	Q96K83	ZN521_HUMAN	H	208;242;208	ENSP00000354794:R208H;ENSP00000382352:R208H	ENSP00000354794:R208H	R	-	2	0	ZNF521	21061257	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.743000	0.68655	2.838000	0.97847	0.655000	0.94253	CGC		0.493	ZNF521-001	KNOWN	overlapping_uORF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000446781.2	NM_015461		T	22807259	C	T	22807259	3	4	683	1	0	0	0	0	1	0	0	0	17977	768	27	1	3332	1	ZNF521	18	22807259	Missense_Mutation	SNP	C	TCGA-KO-8413-01A-11D-2310-10		22807259	55269989	44	44263										
EPOR	2057	ucsc.edu	37	chr19	11488817	11488817	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	tgccagagtcagataccacaAggtacaggtactttaggtgg	12	8	1	2			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr19:11488817A>G	ENST00000222139.6	-	8	1474	c.1370T>C	c.(1369-1371)cTt>cCt	p.L457P	EPOR_ENST00000592375.2_3'UTR	NM_000121.3	NP_000112.1	P19235	EPOR_HUMAN	erythropoietin receptor	457					brain development (GO:0007420)|decidualization (GO:0046697)|erythropoietin-mediated signaling pathway (GO:0038162)|heart development (GO:0007507)|signal transduction (GO:0007165)	extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)	erythropoietin receptor activity (GO:0004900)|identical protein binding (GO:0042802)			endometrium(1)|lung(2)|ovary(1)|urinary_tract(1)	5					Darbepoetin alfa(DB00012)|Epoetin alfa(DB00016)|Epoetin Zeta(DB08923)|Peginesatide(DB08894)	AGATACCACAAGGTACAGGTA	0.577											OREG0025254	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													69	74	72					19																	11488817		2203	4300	6503	SO:0001583	missense	2057			M34986	CCDS12260.1	19p13.3-p13.2	2013-02-11				ENSG00000187266		"Fibronectin type III domain containing"	3416	protein-coding gene	gene with protein product		133171					Standard	NM_000121		Approved		uc002mrj.2	P19235		ENST00000222139.6:c.1370T>C	19.37:g.11488817A>G	ENSP00000222139:p.Leu457Pro	Somatic	672	WXS	Illumina HiSeq	Phase_I	B2RCG4|Q15443|Q2M205	Missense_Mutation	SNP	ENST00000222139.6	37	CCDS12260.1	.	.	.	.	.	.	.	.	.	.	A	15.93	2.977074	0.53720	.	.	ENSG00000187266	ENST00000222139	T	0.44482	0.92	4.82	4.82	0.62117	.	0.710381	0.13856	N	0.358052	T	0.50086	0.1595	L	0.32530	0.975	0.53688	D	0.999979	D	0.76494	0.999	D	0.70716	0.97	T	0.49113	-0.8973	10	0.87932	D	0	-36.5626	7.9588	0.30060	0.8174:0.0:0.0:0.1826	.	457	P19235	EPOR_HUMAN	P	457	ENSP00000222139:L457P	ENSP00000222139:L457P	L	-	2	0	EPOR	11349817	0.998000	0.40836	0.751000	0.31187	0.801000	0.45260	4.194000	0.58393	1.793000	0.52555	0.454000	0.30748	CTT		0.577	EPOR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458791.1			G	11488817	A	G	11488817	3	3	683	1	0	0	0	0	1	0	0	0	5191	72	3	3	160	3	EPOR	19	11488817	Missense_Mutation	SNP	A	TCGA-KO-8413-01A-11D-2310-10		11488817	47640166	45	44264										
MYH14	79784	ucsc.edu	37	chr19	50755954	50755954	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	ggaccctctgaatgacaacgTcgcagccttgctccaccaga	9	15	1	3			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr19:50755954T>C	ENST00000596571.1	+	14	1865	c.1865T>C	c.(1864-1866)gTc>gCc	p.V622A	MYH14_ENST00000440075.2_Missense_Mutation_p.V630A|MYH14_ENST00000425460.1_Missense_Mutation_p.V630A|MYH14_ENST00000376970.2_Missense_Mutation_p.V622A|MYH14_ENST00000601313.1_Missense_Mutation_p.V630A|MYH14_ENST00000598205.1_Missense_Mutation_p.V630A|MYH14_ENST00000262269.8_Missense_Mutation_p.V630A			Q7Z406	MYH14_HUMAN	myosin, heavy chain 14, non-muscle	622	Myosin motor.				actin filament-based movement (GO:0030048)|actomyosin structure organization (GO:0031032)|ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|mitochondrion morphogenesis (GO:0070584)|neuronal action potential (GO:0019228)|regulation of cell shape (GO:0008360)|sensory perception of sound (GO:0007605)|skeletal muscle atrophy (GO:0014732)|skeletal muscle contraction (GO:0003009)|skeletal muscle tissue development (GO:0007519)|vocalization behavior (GO:0071625)	actomyosin (GO:0042641)|axon (GO:0030424)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|growth cone (GO:0030426)|membrane (GO:0016020)|myosin II complex (GO:0016460)|myosin II filament (GO:0097513)|stress fiber (GO:0001725)	actin-dependent ATPase activity (GO:0030898)|ATP binding (GO:0005524)|microfilament motor activity (GO:0000146)			central_nervous_system(1)|cervix(2)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(10)|ovary(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	46		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		AATGACAACGTCGCAGCCTTG	0.587																																																0													50	51	51					19																	50755954		2183	4294	6477	SO:0001583	missense	79784			AY165122	CCDS46151.1, CCDS54295.1, CCDS59411.1	19q13.33	2011-09-27	2009-11-19			ENSG00000105357		"Myosins / Myosin superfamily : Class II"	23212	protein-coding gene	gene with protein product		608568	"myosin, heavy polypeptide 14", "myosin, heavy chain 14"	DFNA4		12909352, 15015131, 17940200	Standard	NM_024729		Approved	FLJ13881, KIAA2034, MHC16, MYH17	uc010enu.1	Q7Z406		ENST00000596571.1:c.1865T>C	19.37:g.50755954T>C	ENSP00000472819:p.Val622Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1S2|C3TTN4|Q5CZ75|Q6XYE4|Q76B62|Q8WV23|Q96I22|Q9BT27|Q9BW35|Q9H882	Missense_Mutation	SNP	ENST00000596571.1	37	CCDS59411.1	.	.	.	.	.	.	.	.	.	.	T	18.34	3.601434	0.66445	.	.	ENSG00000105357	ENST00000301415;ENST00000440075;ENST00000376970;ENST00000425460;ENST00000376965;ENST00000262269	D;D;D;D	0.87887	-2.31;-2.31;-2.31;-2.31	4.35	4.35	0.52113	Myosin head, motor domain (2);	.	.	.	.	D	0.92103	0.7497	M	0.76574	2.34	0.80722	D	1	D;D;D	0.71674	0.998;0.998;0.997	D;D;D	0.72075	0.953;0.976;0.959	D	0.92773	0.6234	9	0.87932	D	0	.	11.8047	0.52147	0.0:0.0:0.0:1.0	.	630;622;630	Q7Z406-2;Q7Z406;Q7Z406-6	.;MYH14_HUMAN;.	A	622;630;622;630;622;630	ENSP00000406273:V630A;ENSP00000366169:V622A;ENSP00000407879:V630A;ENSP00000262269:V630A	ENSP00000262269:V630A	V	+	2	0	MYH14	55447766	1.000000	0.71417	0.164000	0.22755	0.365000	0.29674	6.077000	0.71275	1.961000	0.56991	0.379000	0.24179	GTC		0.587	MYH14-008	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000464710.2	NM_024729		C	50755954	T	C	50755954	3	2	683	1	0	0	0	0	1	0	0	0	10040	1667	58	3	1947	3	MYH14	19	50755954	Missense_Mutation	SNP	T	TCGA-KO-8413-01A-11D-2310-10	39267137	50755954	8373029	46	44265										
ZNF808	388558	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr19	53057816	53057816	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gtttgtaacaaggttttcatGcgtaattcagtcctggctgt	10	7	2	0			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr19:53057816G>T	ENST00000359798.4	+	5	1827	c.1647G>T	c.(1645-1647)atG>atT	p.M549I		NM_001039886.3	NP_001034975.2	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	549					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(8)|kidney(3)|lung(12)|urinary_tract(1)	24				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		AGGTTTTCATGCGTAATTCAG	0.398																																																0													141	152	148					19																	53057816		2203	4300	6503	SO:0001583	missense	388558			CR749856	CCDS46167.1	19q13.41	2013-01-08			ENSG00000198482	ENSG00000198482		"Zinc fingers, C2H2-type", "-"	33230	protein-coding gene	gene with protein product							Standard	NM_001039886		Approved		uc010epq.1	Q8N4W9	OTTHUMG00000158230	ENST00000359798.4:c.1647G>T	19.37:g.53057816G>T	ENSP00000352846:p.Met549Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q68CN7	Missense_Mutation	SNP	ENST00000359798.4	37	CCDS46167.1	.	.	.	.	.	.	.	.	.	.	.	0.142	-1.101126	0.01843	.	.	ENSG00000198482	ENST00000359798	T	0.35048	1.33	1.51	-3.03	0.05429	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.11452	0.0279	N	0.02876	-0.465	0.09310	N	1	B	0.06786	0.001	B	0.01281	0.0	T	0.12708	-1.0537	9	0.30078	T	0.28	.	0.8882	0.01249	0.153:0.2176:0.318:0.3114	.	549	Q8N4W9	ZN808_HUMAN	I	549	ENSP00000352846:M549I	ENSP00000352846:M549I	M	+	3	0	ZNF808	57749628	0.000000	0.05858	0.000000	0.03702	0.008000	0.06430	-10.447000	0.00006	-1.967000	0.01008	0.205000	0.17691	ATG		0.398	ZNF808-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350447.3	NM_001039886		T	53057816	G	T	53057816	3	4	683	1	0	0	0	0	1	0	0	0	18185	1319	46	4	1657	4	ZNF808	19	53057816	Missense_Mutation	SNP	G	TCGA-KO-8413-01A-11D-2310-10	2301862	53057816	6071167	47	44266										
ZNF587	84914	mdanderson.org	37	chr19	58371202	58371202	+	Silent	SNP	C	C	T													0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gtatgtgggaaattatttggCaataagcacagcgtgactat							TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr19:58371202C>T	ENST00000339656.5	+	3	1604	c.1422C>T	c.(1420-1422)ggC>ggT	p.G474G	ZNF814_ENST00000596604.1_Intron|ZNF814_ENST00000597652.1_5'Flank|ZNF814_ENST00000597832.1_Intron|ZNF814_ENST00000595295.1_Intron|ZNF587_ENST00000423137.1_Silent_p.G473G|ZNF814_ENST00000597342.1_Intron|ZNF587_ENST00000419854.1_Silent_p.G431G	NM_001204817.1|NM_032828.3	NP_001191746.1|NP_116217.1	Q96SQ5	ZN587_HUMAN	zinc finger protein 587	474					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(1)|lung(4)|ovary(1)|pancreas(1)|stomach(1)	15		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;0.0264)		AATTATTTGGCAATAAGCACA	0.433																																					Pancreas(59;641 1233 1885 20055 50741)											0													154	150	151					19																	58371202		2203	4300	6503	SO:0001819	synonymous_variant	84914			AF294842	CCDS12964.1, CCDS56110.1	19q13.43	2013-01-08				ENSG00000198466		"Zinc fingers, C2H2-type", "-"	30955	protein-coding gene	gene with protein product						10520746	Standard	NM_032828		Approved	ZF6, FLJ14710, UBF-fl, FLJ20813	uc002qql.3	Q96SQ5	OTTHUMG00000154901	ENST00000339656.5:c.1422C>T	19.37:g.58371202C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0AV72|G3V0H5|Q6ZMK8	Silent	SNP	ENST00000339656.5	37	CCDS12964.1																																																																																				0.433	ZNF587-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000337594.2	NM_032828		T	58371202	C	T	58371202	2	4	683	1	0	0	0	0	0	0	0	1	18032	697	25	2		2	ZNF587	19	58371202	Silent	SNP	C	TCGA-KO-8413-01A-11D-2310-10	5313386	58371202	757781	48	44267	466	3								
ZNF587	84914	mdanderson.org	37	chr19	58371209	58371209	+	Missense_Mutation	SNP	C	C	A													0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	ggaaattatttggcaataagCacagcgtgactatacatcag							TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr19:58371209C>A	ENST00000339656.5	+	3	1611	c.1429C>A	c.(1429-1431)Cac>Aac	p.H477N	ZNF814_ENST00000596604.1_Intron|ZNF814_ENST00000597652.1_5'Flank|ZNF814_ENST00000597832.1_Intron|ZNF814_ENST00000595295.1_Intron|ZNF587_ENST00000423137.1_Missense_Mutation_p.H476N|ZNF814_ENST00000597342.1_Intron|ZNF587_ENST00000419854.1_Missense_Mutation_p.H434N	NM_001204817.1|NM_032828.3	NP_001191746.1|NP_116217.1	Q96SQ5	ZN587_HUMAN	zinc finger protein 587	477					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(1)|lung(4)|ovary(1)|pancreas(1)|stomach(1)	15		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;0.0264)		TGGCAATAAGCACAGCGTGAC	0.423																																					Pancreas(59;641 1233 1885 20055 50741)											0													158	150	153					19																	58371209		2203	4300	6503	SO:0001583	missense	84914			AF294842	CCDS12964.1, CCDS56110.1	19q13.43	2013-01-08				ENSG00000198466		"Zinc fingers, C2H2-type", "-"	30955	protein-coding gene	gene with protein product						10520746	Standard	NM_032828		Approved	ZF6, FLJ14710, UBF-fl, FLJ20813	uc002qql.3	Q96SQ5	OTTHUMG00000154901	ENST00000339656.5:c.1429C>A	19.37:g.58371209C>A	ENSP00000345479:p.His477Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV72|G3V0H5|Q6ZMK8	Missense_Mutation	SNP	ENST00000339656.5	37	CCDS12964.1	.	.	.	.	.	.	.	.	.	.	.	6.087	0.384262	0.11524	.	.	ENSG00000198466	ENST00000376209;ENST00000423137;ENST00000339656;ENST00000540851;ENST00000419854	T;T;T	0.13196	2.61;2.61;2.61	0.882	-1.59	0.08453	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.06554	0.0168	N	0.11106	0.095	0.23496	N	0.99756	B;B	0.15473	0.0;0.013	B;B	0.16289	0.0;0.015	T	0.27673	-1.0067	8	0.56958	D	0.05	.	5.9746	0.19371	0.0:0.4805:0.0:0.5195	.	476;477	G3V0H5;Q96SQ5	.;ZN587_HUMAN	N	434;476;477;477;434	ENSP00000393865:H476N;ENSP00000345479:H477N;ENSP00000406999:H434N	ENSP00000345479:H477N	H	+	1	0	ZNF587	63063021	0.000000	0.05858	0.000000	0.03702	0.370000	0.29829	-1.806000	0.01735	-0.644000	0.05465	0.195000	0.17529	CAC		0.423	ZNF587-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000337594.2	NM_032828		A	58371209	C	A	58371209	3	1	683	1	0	0	0	0	1	0	0	0	18032	710	25	4	1439	4	ZNF587	19	58371209	Missense_Mutation	SNP	C	TCGA-KO-8413-01A-11D-2310-10	7	58371209	757774	49	44268	466	3								
ZNF587	84914	mdanderson.org	37	chr19	58371212	58371212	+	Missense_Mutation	SNP	A	A	T													0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	aattatttggcaataagcacAgcgtgactatacatcagagg							TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr19:58371212A>T	ENST00000339656.5	+	3	1614	c.1432A>T	c.(1432-1434)Agc>Tgc	p.S478C	ZNF814_ENST00000596604.1_Intron|ZNF814_ENST00000597652.1_5'Flank|ZNF814_ENST00000597832.1_Intron|ZNF814_ENST00000595295.1_Intron|ZNF587_ENST00000423137.1_Missense_Mutation_p.S477C|ZNF814_ENST00000597342.1_Intron|ZNF587_ENST00000419854.1_Missense_Mutation_p.S435C	NM_001204817.1|NM_032828.3	NP_001191746.1|NP_116217.1	Q96SQ5	ZN587_HUMAN	zinc finger protein 587	478					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(1)|lung(4)|ovary(1)|pancreas(1)|stomach(1)	15		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;0.0264)		CAATAAGCACAGCGTGACTAT	0.423																																					Pancreas(59;641 1233 1885 20055 50741)											0													156	149	152					19																	58371212		2203	4300	6503	SO:0001583	missense	84914			AF294842	CCDS12964.1, CCDS56110.1	19q13.43	2013-01-08				ENSG00000198466		"Zinc fingers, C2H2-type", "-"	30955	protein-coding gene	gene with protein product						10520746	Standard	NM_032828		Approved	ZF6, FLJ14710, UBF-fl, FLJ20813	uc002qql.3	Q96SQ5	OTTHUMG00000154901	ENST00000339656.5:c.1432A>T	19.37:g.58371212A>T	ENSP00000345479:p.Ser478Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV72|G3V0H5|Q6ZMK8	Missense_Mutation	SNP	ENST00000339656.5	37	CCDS12964.1	.	.	.	.	.	.	.	.	.	.	.	7.068	0.567735	0.13560	.	.	ENSG00000198466	ENST00000376209;ENST00000423137;ENST00000339656;ENST00000540851;ENST00000419854	T;T;T	0.08008	3.14;3.14;3.14	0.882	-0.521	0.11931	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.08980	0.0222	M	0.64630	1.985	0.24750	N	0.992985	B;B	0.27140	0.169;0.025	B;B	0.29598	0.104;0.033	T	0.20773	-1.0265	8	0.38643	T	0.18	.	4.8451	0.13510	0.7267:0.0:0.0:0.2733	.	477;478	G3V0H5;Q96SQ5	.;ZN587_HUMAN	C	435;477;478;478;435	ENSP00000393865:S477C;ENSP00000345479:S478C;ENSP00000406999:S435C	ENSP00000345479:S478C	S	+	1	0	ZNF587	63063024	0.000000	0.05858	0.000000	0.03702	0.344000	0.29017	-2.794000	0.00765	-0.256000	0.09473	0.164000	0.16699	AGC		0.423	ZNF587-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000337594.2	NM_032828		T	58371212	A	T	58371212	3	4	683	1	0	0	0	0	1	0	0	0	18032	188	7	5	1442	5	ZNF587	19	58371212	Missense_Mutation	SNP	A	TCGA-KO-8413-01A-11D-2310-10	3	58371212	757771	50	44269	466	3								
LAMA5	3911	mdanderson.org	37	chr20	60887581	60887581	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gcctccggtggggaagagccGtcgcaggctgtggggaagcg	20	10	0	1	rs944895	byFrequency	TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chr20:60887581G>A	ENST00000252999.3	-	68	9301	c.9235C>T	c.(9235-9237)Cgg>Tgg	p.R3079W		NM_005560.3	NP_005551.3	O15230	LAMA5_HUMAN	laminin, alpha 5	3079	Laminin G-like 2. {ECO:0000255|PROSITE- ProRule:PRU00122}.		R -> W (in dbSNP:rs944895). {ECO:0000269|PubMed:11821406, ECO:0000269|PubMed:9271224, ECO:0000269|PubMed:9628581}.		angiogenesis (GO:0001525)|branching involved in salivary gland morphogenesis (GO:0060445)|branching involved in ureteric bud morphogenesis (GO:0001658)|cell differentiation (GO:0030154)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|cell recognition (GO:0008037)|cilium assembly (GO:0042384)|cytoskeleton organization (GO:0007010)|embryo development (GO:0009790)|endothelial cell differentiation (GO:0045446)|establishment of protein localization to plasma membrane (GO:0090002)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|focal adhesion assembly (GO:0048041)|hair follicle development (GO:0001942)|integrin-mediated signaling pathway (GO:0007229)|lung development (GO:0030324)|morphogenesis of a polarized epithelium (GO:0001738)|morphogenesis of embryonic epithelium (GO:0016331)|muscle organ development (GO:0007517)|neural crest cell migration (GO:0001755)|odontogenesis of dentin-containing tooth (GO:0042475)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of cell proliferation (GO:0042127)|regulation of embryonic development (GO:0045995)|substrate adhesion-dependent cell spreading (GO:0034446)	basal lamina (GO:0005605)|basement membrane (GO:0005604)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)|laminin-10 complex (GO:0043259)|laminin-11 complex (GO:0043260)|laminin-5 complex (GO:0005610)|nucleus (GO:0005634)	integrin binding (GO:0005178)|structural molecule activity (GO:0005198)			breast(2)|central_nervous_system(3)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|lung(40)|ovary(1)|pancreas(1)|prostate(3)|skin(6)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	81	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			GGGAAGAGCCGTCGCAGGCTG	0.677													.|||	3391	0.677117	0.5666	0.6988	5008	,	,		15366	0.7411		0.6431	False		,,,				2504	0.7802															0									TRP/ARG	2500,1886	594.1+/-388.1	703,1094,396	31	29	30		9235	3.4	0.1	20	dbSNP_86	30	5600,2988	634.2+/-398.8	1810,1980,504	yes	missense	LAMA5	NM_005560.3	101	2513,3074,900	AA,AG,GG		34.7927,43.0005,37.5674	probably-damaging	3079/3696	60887581	8100,4874	2193	4294	6487	SO:0001583	missense	3911			AF443072	CCDS33502.1	20q13.2-q13.3	2013-03-01			ENSG00000130702	ENSG00000130702		"Laminins"	6485	protein-coding gene	gene with protein product		601033				9271224	Standard	NM_005560		Approved		uc002ycq.3	O15230	OTTHUMG00000032908	ENST00000252999.3:c.9235C>T	20.37:g.60887581G>A	ENSP00000252999:p.Arg3079Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TDF8|Q8WZA7|Q9H1P1	Missense_Mutation	SNP	ENST00000252999.3	37	CCDS33502.1	1458	0.6675824175824175	280	0.5691056910569106	257	0.7099447513812155	425	0.743006993006993	496	0.6543535620052771	g	9.192	1.026390	0.19512	0.569995	0.652073	ENSG00000130702	ENST00000252999	T	0.78481	-1.18	4.36	3.38	0.38709	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (2);Laminin G, subdomain 2 (1);	1.920180	0.02454	N	0.085827	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	D	0.58620	0.983	P	0.47376	0.545	T	0.48547	-0.9026	9	0.72032	D	0.01	.	3.2954	0.06964	0.0954:0.1438:0.5475:0.2134	rs944895;rs58677971;rs944895	3079	O15230	LAMA5_HUMAN	W	3079	ENSP00000252999:R3079W	ENSP00000252999:R3079W	R	-	1	2	LAMA5	60320976	0.000000	0.05858	0.064000	0.19789	0.038000	0.13279	-0.605000	0.05661	2.269000	0.75478	0.556000	0.70494	CGG		0.677	LAMA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080014.2	NM_005560		A	60887581	G	A	60887581	3	1	683	1	0	0	0	0	1	0	0	0	8616	1144	40	1	1904	1	LAMA5	20	60887581	Missense_Mutation	SNP	G	TCGA-KO-8413-01A-11D-2310-10		60887581	2137939	51	44270										
FRMPD4	9758	broad.mit.edu	37	chrX	12735002	12735002	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	tccttgaacatggccattgcCgcacccccacctggctttag	8	16	0	1			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chrX:12735002C>T	ENST00000380682.1	+	15	2930	c.2424C>T	c.(2422-2424)gcC>gcT	p.A808A		NM_014728.3	NP_055543.2	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	808					positive regulation of synapse structural plasticity (GO:0051835)	cytoskeleton (GO:0005856)|dendritic spine (GO:0043197)	phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)			breast(1)|central_nervous_system(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(7)|lung(1)|ovary(3)|pancreas(1)|skin(3)	22						TGGCCATTGCCGCACCCCCAC	0.547																																																0													152	114	127					X																	12735002		2203	4300	6503	SO:0001819	synonymous_variant	9758			AB002314	CCDS35201.1	Xp22.31	2006-02-09	2006-02-09	2006-02-09	ENSG00000169933	ENSG00000169933			29007	protein-coding gene	gene with protein product		300838	"PDZ domain containing 10"	PDZK10, PDZD10		9205841	Standard	NM_014728		Approved	KIAA0316	uc004cuz.2	Q14CM0	OTTHUMG00000021138	ENST00000380682.1:c.2424C>T	X.37:g.12735002C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0X9|O15032	Silent	SNP	ENST00000380682.1	37	CCDS35201.1																																																																																				0.547	FRMPD4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055771.1	XM_045712		T	12735002	C	T	12735002	2	4	683	1	0	0	0	0	0	0	0	1	6066	639	23	1		1	FRMPD4	23	12735002	Silent	SNP	C	TCGA-KO-8413-01A-11D-2310-10		12735002	142535558	52	44271										
NUDT10	170685	mdanderson.org	37	chrX	51076024	51076024	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gtccgagaggtgtacgaagaGgcgggagtcaaggggaagtt	19	5	1	2	rs143435240		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chrX:51076024G>A	ENST00000376006.3	+	2	427	c.207G>A	c.(205-207)gaG>gaA	p.E69E	NUDT10_ENST00000356450.2_Silent_p.E69E	NM_153183.2	NP_694853.1	Q9BW91	NUDT9_HUMAN	nudix (nucleoside diphosphate linked moiety X)-type motif 10	234					ADP catabolic process (GO:0046032)|IDP catabolic process (GO:0046709)|nucleobase-containing small molecule catabolic process (GO:0034656)|nucleobase-containing small molecule metabolic process (GO:0055086)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|mitochondrial matrix (GO:0005759)	adenosine-diphosphatase activity (GO:0043262)|ADP-ribose diphosphatase activity (GO:0047631)|ADP-sugar diphosphatase activity (GO:0019144)	p.E69E(8)		cervix(1)|endometrium(8)|kidney(1)|large_intestine(1)|lung(1)|prostate(3)|upper_aerodigestive_tract(1)	16	Ovarian(276;0.236)					TGTACGAAGAGGCGGGAGTCA	0.657																																					NSCLC(90;1817 2035 37909 38249)											8	Substitution - coding silent(8)	endometrium(5)|cervix(1)|prostate(1)|lung(1)											52	62	59					X																	51076024		2203	4300	6503	SO:0001819	synonymous_variant	170685			AF469196	CCDS35278.1	Xp11.22-p11.1	2014-05-20			ENSG00000122824	ENSG00000122824		"Nudix motif containing"	17621	protein-coding gene	gene with protein product		300527				12105228	Standard	NM_153183		Approved	DIPP3a, hDIPP3alpha	uc004dph.3	Q8NFP7	OTTHUMG00000021530	ENST00000376006.3:c.207G>A	X.37:g.51076024G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NBN1|Q8NCB9|Q8NG25	Silent	SNP	ENST00000376006.3	37	CCDS35278.1																																																																																				0.657	NUDT10-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056578.1	NM_153183		A	51076024	G	A	51076024	2	1	683	1	0	0	0	0	0	0	0	1	10733	991	35	2		2	NUDT10	23	51076024	Silent	SNP	G	TCGA-KO-8413-01A-11D-2310-10	38341022	51076024	104194536	53	44272										
BRWD3	254065	broad.mit.edu	37	chrX	79932729	79932729	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	gtggataaatgagatttctcTtttgtttcttttttctcttt	6	5	3	1			TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chrX:79932729T>C	ENST00000373275.4	-	41	5004	c.4788A>G	c.(4786-4788)aaA>aaG	p.K1596K	BRWD3_ENST00000473691.1_5'Flank	NM_153252.4	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	1596			K -> E (in MRX93; may be a rare polymorphism). {ECO:0000269|PubMed:17668385}.		cytoskeleton organization (GO:0007010)|regulation of cell shape (GO:0008360)					breast(4)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(18)|lung(39)|ovary(4)|prostate(2)|skin(3)	87						GAGAtttctcttttgtttctt	0.408																																																0													72	64	66					X																	79932729		2203	4300	6503	SO:0001819	synonymous_variant	254065				CCDS14447.1	Xq21.1	2013-01-09			ENSG00000165288	ENSG00000165288		"WD repeat domain containing"	17342	protein-coding gene	gene with protein product		300553				15543602, 16094372	Standard	NM_153252		Approved	FLJ38568, MRX93	uc004edt.3	Q6RI45	OTTHUMG00000021908	ENST00000373275.4:c.4788A>G	X.37:g.79932729T>C		Somatic		WXS	Illumina HiSeq	Phase_I	C9IZ39|C9J3F3|Q2T9J6|Q5JRN1|Q6RI37|Q6RI42|Q6RI44|Q8N916	Silent	SNP	ENST00000373275.4	37	CCDS14447.1																																																																																				0.408	BRWD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057344.1	NM_153252		C	79932729	T	C	79932729	2	2	683	1	0	0	0	0	0	0	0	1	1528	1606	56	3		3	BRWD3	23	79932729	Silent	SNP	T	TCGA-KO-8413-01A-11D-2310-10	28856705	79932729	75337831	54	44273										
SPANXD	64648	broad.mit.edu;mdanderson.org	37	chrX	140785755	140785755	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0196078431372549	1	1	0.389669421487603	7.79338842975207	0	1	1	0	ttttaaagttcctcctgtagCgaaccactagtatggtcgag	9	9	0	0	rs368985448		TCGA-KO-8413-01A-11D-2310-10	TCGA-KO-8413-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	a5a92196-b322-4ea4-8446-1844057de50b	9da1b142-030b-472b-861e-25be9ab226f3	g.chrX:140785755C>T	ENST00000370515.3	-	2	494	c.161G>A	c.(160-162)cGc>cAc	p.R54H		NM_032417.2|NM_145665.1	NP_115793.1|NP_663698.1	Q9BXN6	SPNXD_HUMAN	SPANX family, member D	54						cytoplasm (GO:0005737)|nucleus (GO:0005634)		p.R54H(1)		breast(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	9	Acute lymphoblastic leukemia(192;7.65e-05)					CCTCCTGTAGCGAACCACTAG	0.483																																																1	Substitution - Missense(1)	upper_aerodigestive_tract(1)						C	HIS/ARG	0,3834		0,0,1632,570	232	175	194		161		0	X		194	1,6715		0,1,2427,1860	no	missense	SPANXD	NM_032417.2	29	0,1,4059,2430	TT,TC,CC,C		0.0149,0.0,0.0095	probably-damaging	54/98	140785755	1,10549	2202	4288	6490	SO:0001583	missense	171489			AJ457791	CCDS14675.1	Xq27.2	2014-06-19			ENSG00000196406	ENSG00000196406			14332	protein-coding gene	gene with protein product	"cancer/testis antigen family 11, member 4"	300670, 300671	"SPANX family, member E"	SPANXE			Standard	NM_032417		Approved	CT11.4		Q9BXN6	OTTHUMG00000022563	ENST00000370515.3:c.161G>A	X.37:g.140785755C>T	ENSP00000359546:p.Arg54His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JWI1	Missense_Mutation	SNP	ENST00000370515.3	37	CCDS14675.1	.	.	.	.	.	.	.	.	.	.	N	9.220	1.033247	0.19590	0.0	1.49E-4	ENSG00000196406	ENST00000370515	T	0.06933	3.24	.	.	.	.	.	.	.	.	T	0.11324	0.0276	.	.	.	0.09310	N	1	D	0.67145	0.996	P	0.59703	0.862	T	0.25641	-1.0126	6	0.15952	T	0.53	.	.	.	.	.	54	Q9BXN6	SPNXD_HUMAN	H	54	ENSP00000359546:R54H	ENSP00000359546:R54H	R	-	2	0	SPANXD	140613421	0.006000	0.16342	0.001000	0.08648	0.006000	0.05464	0.064000	0.14437	-0.506000	0.06558	0.068000	0.15388	CGC		0.483	SPANXD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058598.1			T	140785755	C	T	140785755	3	4	683	1	0	0	0	0	1	0	0	0	15001	768	27	1	136	1	SPANXD	23	140785755	Missense_Mutation	SNP	C	TCGA-KO-8413-01A-11D-2310-10	60853026	140785755	14484805	55	44274										
CSMD2	114784	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr1	34037290	34037290	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	taagcctccatcggccatgcTccacgctgatgctactgaca	8	15	0	2			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr1:34037290T>C	ENST00000373381.4	-	51	7975	c.7799A>G	c.(7798-7800)gAg>gGg	p.E2600G		NM_001281956.1|NM_052896.3	NP_001268885.1|NP_443128.2	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2602	Sushi 16. {ECO:0000255|PROSITE- ProRule:PRU00302}.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(5)|breast(5)|central_nervous_system(3)|cervix(2)|endometrium(20)|haematopoietic_and_lymphoid_tissue(4)|kidney(9)|large_intestine(43)|lung(114)|ovary(8)|pancreas(1)|prostate(6)|skin(20)|upper_aerodigestive_tract(5)|urinary_tract(1)	246		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TCGGCCATGCTCCACGCTGAT	0.473																																																0													95	86	89					1																	34037290		2203	4300	6503	SO:0001583	missense	114784			AY210418	CCDS380.1, CCDS60082.1	1p34.3	2014-01-28			ENSG00000121904	ENSG00000121904			19290	protein-coding gene	gene with protein product		608398				11472063, 11572484	Standard	NM_001281956		Approved	KIAA1884	uc001bxn.1	Q7Z408	OTTHUMG00000011135	ENST00000373381.4:c.7799A>G	1.37:g.34037290T>C	ENSP00000362479:p.Glu2600Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B1AM50|E7EUA6|Q53TY4|Q5VT59|Q8N963|Q96Q03|Q9H4V7|Q9H4V8|Q9H4V9|Q9H4W0|Q9H4W1|Q9H4W2|Q9H4W3|Q9H4W4|Q9HCY5|Q9HCY6|Q9HCY7	Missense_Mutation	SNP	ENST00000373381.4	37		.	.	.	.	.	.	.	.	.	.	T	21.9	4.222722	0.79464	.	.	ENSG00000121904	ENST00000373381	T	0.64991	-0.13	5.04	5.04	0.67666	Complement control module (2);Sushi/SCR/CCP (3);	0.057747	0.64402	D	0.000002	T	0.73869	0.3642	M	0.62154	1.92	0.80722	D	1	D;D	0.60575	0.976;0.988	D;D	0.64877	0.93;0.93	T	0.73852	-0.3852	10	0.39692	T	0.17	.	13.9546	0.64140	0.0:0.0:0.0:1.0	.	2602;2600	Q7Z408;E7EUA6	CSMD2_HUMAN;.	G	2600	ENSP00000362479:E2600G	ENSP00000241312:E2602G	E	-	2	0	CSMD2	33809877	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	6.198000	0.72106	1.900000	0.55004	0.460000	0.39030	GAG		0.473	CSMD2-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_052896		C	34037290	T	C	34037290	3	2	684	1	0	0	0	0	1	0	0	0	3947	1551	54	3	2730	3	CSMD2	1	34037290	Missense_Mutation	SNP	T	TCGA-KO-8414-01A-11D-2310-10		34037290	215213331	1	44275										
PTPRF	5792	bcgsc.ca	37	chr1	44079334	44079334	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	catcaccgacctggcggacaAcatcgagcgcctcaaagcca	9	16	2	0			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr1:44079334A>G	ENST00000359947.4	+	23	4359	c.4019A>G	c.(4018-4020)aAc>aGc	p.N1340S	PTPRF_ENST00000372414.3_Missense_Mutation_p.N1340S|PTPRF_ENST00000422171.2_Missense_Mutation_p.N699S|PTPRF_ENST00000372413.3_Missense_Mutation_p.N1331S|PTPRF_ENST00000438120.1_Missense_Mutation_p.N1331S|PTPRF_ENST00000496447.1_3'UTR	NM_002840.3	NP_002831.2	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1340					cell adhesion (GO:0007155)|cell migration (GO:0016477)|negative regulation of receptor binding (GO:1900121)|peptidyl-tyrosine dephosphorylation (GO:0035335)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	heparin binding (GO:0008201)|protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(2)|breast(4)|central_nervous_system(3)|endometrium(9)|kidney(4)|large_intestine(11)|liver(1)|lung(24)|ovary(4)|prostate(2)|skin(5)|upper_aerodigestive_tract(3)	72	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CTGGCGGACAACATCGAGCGC	0.597																																																0													287	232	251					1																	44079334		2203	4300	6503	SO:0001583	missense	5792			Y00815	CCDS489.2, CCDS490.2	1p34	2013-02-11			ENSG00000142949	ENSG00000142949		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	9670	protein-coding gene	gene with protein product		179590		LAR		7558042	Standard	NM_130440		Approved		uc001cjr.3	P10586	OTTHUMG00000007501	ENST00000359947.4:c.4019A>G	1.37:g.44079334A>G	ENSP00000353030:p.Asn1340Ser	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPX6|D3DPX7|Q5T021|Q5T022|Q5W9G2|Q86WS0	Missense_Mutation	SNP	ENST00000359947.4	37	CCDS489.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	16.20|16.20	3.055751|3.055751	0.55325|0.55325	.|.	.|.	ENSG00000142949|ENSG00000142949	ENST00000359947;ENST00000438120;ENST00000372414;ENST00000372413;ENST00000422171;ENST00000372407|ENST00000429895	T;T;T;T;T;T|.	0.28895|.	1.59;1.59;1.59;1.59;1.59;1.59|.	5.24|5.24	5.24|5.24	0.73138|0.73138	.|.	0.000000|.	0.37012|.	N|.	0.002300|.	T|T	0.52435|0.52435	0.1734|0.1734	N|N	0.22421|0.22421	0.69|0.69	0.58432|0.58432	D|D	0.999999|0.999999	B;B;B;B;B|.	0.20459|.	0.002;0.033;0.045;0.024;0.004|.	B;B;B;B;B|.	0.11329|.	0.001;0.005;0.006;0.005;0.001|.	T|T	0.49447|0.49447	-0.8939|-0.8939	10|5	0.87932|.	D|.	0|.	.|.	15.4562|15.4562	0.75314|0.75314	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	985;699;917;1331;1340|.	Q59FI2;F2Z3B8;Q5W9G3;P10586-2;P10586|.	.;.;.;.;PTPRF_HUMAN|.	S|A	1340;1331;1340;1331;699;412|986	ENSP00000353030:N1340S;ENSP00000398822:N1331S;ENSP00000361491:N1340S;ENSP00000361490:N1331S;ENSP00000387885:N699S;ENSP00000361484:N412S|.	ENSP00000353030:N1340S|.	N|T	+|+	2|1	0|0	PTPRF|PTPRF	43851921|43851921	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.524000|0.524000	0.34500|0.34500	9.281000|9.281000	0.95811|0.95811	2.117000|2.117000	0.64856|0.64856	0.459000|0.459000	0.35465|0.35465	AAC|ACA		0.597	PTPRF-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000019710.1			G	44079334	A	G	44079334	3	3	684	1	0	0	0	0	1	0	0	0	12814	43	2	3	4101	3	PTPRF	1	44079334	Missense_Mutation	SNP	A	TCGA-KO-8414-01A-11D-2310-10	10042044	44079334	205171287	2	44276										
LHX8	431707	broad.mit.edu	37	chr1	75622672	75622672	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	agcagtcccaccctccaggcTgtctccacccatgttagaag	8	16	1	1			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr1:75622672T>C	ENST00000294638.5	+	9	1569	c.905T>C	c.(904-906)cTg>cCg	p.L302P	LHX8_ENST00000356261.3_Missense_Mutation_p.L292P	NM_001001933.1	NP_001001933.1	Q68G74	LHX8_HUMAN	LIM homeobox 8	302					female gonad development (GO:0008585)|forebrain neuron development (GO:0021884)|learning or memory (GO:0007611)|odontogenesis of dentin-containing tooth (GO:0042475)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	female germ cell nucleus (GO:0001674)	sequence-specific DNA binding (GO:0043565)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(18)|ovary(3)|urinary_tract(1)	30						CCCTCCAGGCTGTCTCCACCC	0.507																																																0													255	222	233					1																	75622672		2203	4300	6503	SO:0001583	missense	431707			AB050476	CCDS30756.1, CCDS58008.1	1p31.1	2011-06-20			ENSG00000162624	ENSG00000162624		"Homeoboxes / LIM class"	28838	protein-coding gene	gene with protein product		604425				9598319	Standard	NM_001256114		Approved	Lhx7	uc031pmx.1	Q68G74	OTTHUMG00000009692	ENST00000294638.5:c.905T>C	1.37:g.75622672T>C	ENSP00000294638:p.Leu302Pro	Somatic		WXS	Illumina HiSeq	Phase_I	E9PGE3	Missense_Mutation	SNP	ENST00000294638.5	37	CCDS30756.1	.	.	.	.	.	.	.	.	.	.	T	20.2	3.955095	0.73902	.	.	ENSG00000162624	ENST00000294638;ENST00000356261	D;D	0.87179	-2.22;-2.2	5.12	5.12	0.69794	.	0.000000	0.85682	D	0.000000	D	0.89643	0.6774	L	0.50333	1.59	0.80722	D	1	D	0.71674	0.998	D	0.79784	0.993	D	0.91167	0.4965	10	0.72032	D	0.01	.	15.2331	0.73407	0.0:0.0:0.0:1.0	.	302	Q68G74	LHX8_HUMAN	P	302;292	ENSP00000294638:L302P;ENSP00000348597:L292P	ENSP00000294638:L302P	L	+	2	0	LHX8	75395260	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.020000	0.76419	2.067000	0.61834	0.374000	0.22700	CTG		0.507	LHX8-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000026700.1	NM_001001933		C	75622672	T	C	75622672	3	2	684	1	0	0	0	0	1	0	0	0	8783	1580	55	3	935	3	LHX8	1	75622672	Missense_Mutation	SNP	T	TCGA-KO-8414-01A-11D-2310-10	31543338	75622672	173627949	3	44277										
DENND4B	9909	mdanderson.org	37	chr1	153907306	153907306	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgctgctgctgctgctgctgTtgctgctgctgctgctgttg	14	11	0	0	rs2275483|rs375088543|rs557071025	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr1:153907306T>C	ENST00000361217.4	-	18	3121	c.2703A>G	c.(2701-2703)caA>caG	p.Q901Q	DENND4B_ENST00000474386.1_5'Flank	NM_014856.2	NP_055671.2	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	901	Gln-rich.				positive regulation of Rab GTPase activity (GO:0032851)|regulation of Rab protein signal transduction (GO:0032483)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)	Rab guanyl-nucleotide exchange factor activity (GO:0017112)	p.Q789Q(2)		NS(1)|breast(1)|cervix(1)|endometrium(7)|kidney(2)|large_intestine(6)|lung(9)|ovary(1)|prostate(5)|skin(2)|urinary_tract(1)	36	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			gctgctgctgttgctgctgct	0.647													T|||	552	0.110224	0.0582	0.1441	5008	,	,		16993	0.1627		0.0378	False		,,,				2504	0.1769															2	Substitution - coding silent(2)	prostate(2)						T		25,4345		2,21,2162	31	40	37		2703	2.1	1	1	dbSNP_120	37	106,8456		7,92,4182	no	coding-synonymous	DENND4B	NM_014856.2		9,113,6344	CC,CT,TT		1.238,0.5721,1.013		901/1497	153907306	131,12801	2185	4281	6466	SO:0001819	synonymous_variant	9909			AB007945	CCDS44228.1	1q21.3	2012-10-03	2006-01-27	2006-01-27	ENSG00000198837	ENSG00000198837		"DENN/MADD domain containing"	29044	protein-coding gene	gene with protein product			"KIAA0476"	KIAA0476		9455484, 12906859	Standard	NM_014856		Approved		uc001fdd.1	O75064	OTTHUMG00000037157	ENST00000361217.4:c.2703A>G	1.37:g.153907306T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T4K0	Silent	SNP	ENST00000361217.4	37	CCDS44228.1																																																																																				0.647	DENND4B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090278.2	XM_375806		C	153907306	T	C	153907306	2	2	684	1	0	0	0	0	0	0	0	1	4436	1722	60	3		3	DENND4B	1	153907306	Silent	SNP	T	TCGA-KO-8414-01A-11D-2310-10	78284634	153907306	95343315	4	44278										
FCGR3B	2214	mdanderson.org	37	chr1	161599643	161599643	+	Intron	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cctgtactctccactgtcgtTgactgtggcagcgtcaatga	10	12	2	2	rs147574249	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr1:161599643T>C	ENST00000540048.1	-	2	94				FCGR2B_ENST00000403078.3_Intron|FCGR2B_ENST00000367962.4_Intron|FCGR2B_ENST00000428605.2_Intron|FCGR2B_ENST00000367960.5_Intron|FCGR3B_ENST00000294800.3_Missense_Mutation_p.N82D|FCGR3B_ENST00000531221.1_Missense_Mutation_p.N118D|FCGR3B_ENST00000367964.2_Missense_Mutation_p.N82D			P08637	FCG3A_HUMAN	Fc fragment of IgG, low affinity IIIa, receptor (CD16a)						Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|immune response (GO:0006955)|innate immune response (GO:0045087)|regulation of immune response (GO:0050776)	external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(14)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	24	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Intravenous Immunoglobulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CCACTGTCGTTGACTGTGGCA	0.537													t|||	1420	0.283546	0.3328	0.2709	5008	,	,		10033	0.4177		0.1332	False		,,,				2504	0.2423															0													94	104	101					1																	161599643		1988	4137	6125	SO:0001627	intron_variant	2215			BC036723	CCDS1232.1, CCDS44266.1	1q23	2014-09-17	2005-02-02		ENSG00000203747	ENSG00000203747		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	3619	protein-coding gene	gene with protein product		146740	"Fc fragment of IgG, low affinity IIIa, receptor for (CD16)"	FCGR3, FCG3		2139735	Standard	NM_001127592		Approved	CD16, CD16a	uc001gar.3	P08637	OTTHUMG00000034466	ENST00000540048.1:c.61+514A>G	1.37:g.161599643T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2N6W9|Q53FJ0|Q53FL6|Q5EBR4|Q65ZM6|Q6PIJ0	Missense_Mutation	SNP	ENST00000540048.1	37		138|138	0.06318681318681318|0.06318681318681318	30|30	0.06097560975609756|0.06097560975609756	21|21	0.058011049723756904|0.058011049723756904	70|70	0.12237762237762238|0.12237762237762238	17|17	0.022427440633245383|0.022427440633245383	t|t	6.560|6.560	0.471594|0.471594	0.12461|0.12461	.|.	.|.	ENSG00000162747|ENSG00000162747	ENST00000367964;ENST00000294800;ENST00000531221;ENST00000534776|ENST00000421702	T;T;T;T|.	0.12147|.	2.71;2.71;2.71;2.71|.	2.79|2.79	-5.57|-5.57	0.02521|0.02521	Immunoglobulin subtype (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);|.	1.165540|.	0.06257|.	N|.	0.693161|.	T|T	0.03136|0.03136	0.0092|0.0092	N|N	0.03930|0.03930	-0.32|-0.32	0.09310|0.09310	N|N	1|1	B|.	0.02656|.	0.0|.	B|.	0.01281|.	0.0|.	T|T	0.34054|0.34054	-0.9844|-0.9844	10|5	0.40728|.	T|.	0.16|.	.|.	6.7925|6.7925	0.23707|0.23707	0.0:0.1697:0.1395:0.6908|0.0:0.1697:0.1395:0.6908	.|.	82|.	O75015|.	FCG3B_HUMAN|.	D|R	82;82;118;65|102	ENSP00000356941:N82D;ENSP00000294800:N82D;ENSP00000433642:N118D;ENSP00000437084:N65D|.	ENSP00000294800:N82D|.	N|Q	-|-	1|2	0|0	FCGR3B|FCGR3B	159866267|159866267	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.002000|0.002000	0.02628|0.02628	-3.414000|-3.414000	0.00479|0.00479	-1.905000|-1.905000	0.01090|0.01090	-0.575000|-0.575000	0.04146|0.04146	AAC|CAA		0.537	FCGR3A-203	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_000569		C	161599643	T	C	161599643	1	2	684	0	1	0	0	0	0	0	0	0	5792	1812	63	3		3	FCGR3B	1	161599643	Intron	SNP	T	TCGA-KO-8414-01A-11D-2310-10	7692337	161599643	87650978	5	44279										
KIFAP3	22920	broad.mit.edu	37	chr1	170004687	170004687	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	acccttgctaatgcaccaagGgcagtttctaaagaaaaagg	9	9	1	1			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr1:170004687G>A	ENST00000361580.2	-	6	752	c.525C>T	c.(523-525)gcC>gcT	p.A175A	KIFAP3_ENST00000490550.1_5'UTR|KIFAP3_ENST00000367767.1_Silent_p.A131A|KIFAP3_ENST00000538366.1_Silent_p.A97A|KIFAP3_ENST00000367765.1_Silent_p.A135A	NM_014970.3	NP_055785.2	Q92845	KIFA3_HUMAN	kinesin-associated protein 3	175					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|blood coagulation (GO:0007596)|membrane organization (GO:0061024)|microtubule-based movement (GO:0007018)|microtubule-based process (GO:0007017)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|plus-end-directed vesicle transport along microtubule (GO:0072383)|positive regulation of calcium-dependent cell-cell adhesion (GO:0046587)|protein complex assembly (GO:0006461)|protein localization (GO:0008104)|signal transduction (GO:0007165)	centrosome (GO:0005813)|condensed nuclear chromosome (GO:0000794)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|intraciliary transport particle (GO:0030990)|kinesin II complex (GO:0016939)|microtubule cytoskeleton (GO:0015630)	kinesin binding (GO:0019894)			endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(18)|prostate(2)|skin(3)|urinary_tract(2)	35	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					ATGCACCAAGGGCAGTTTCTA	0.368																																																0													53	55	55					1																	170004687		2203	4300	6503	SO:0001819	synonymous_variant	22920			U59919	CCDS1288.1, CCDS55659.1, CCDS55660.1, CCDS55661.1	1q24.2	2012-09-20			ENSG00000075945	ENSG00000075945			17060	protein-coding gene	gene with protein product	"Smg GDS"	601836				8900189	Standard	NM_014970		Approved	SMAP, KAP3, FLA3, KAP-1	uc001ggv.3	Q92845	OTTHUMG00000035947	ENST00000361580.2:c.525C>T	1.37:g.170004687G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B1AKU4|B1AKU5|B2RDL1|B7Z8A3|F5H591|Q8NHU7|Q9H416	Silent	SNP	ENST00000361580.2	37	CCDS1288.1																																																																																				0.368	KIFAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087568.1	NM_014970		A	170004687	G	A	170004687	2	1	684	1	0	0	0	0	0	0	0	1	8318	1219	43	2		2	KIFAP3	1	170004687	Silent	SNP	G	TCGA-KO-8414-01A-11D-2310-10	8405044	170004687	79245934	6	44280										
LPIN1	23175	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr2	11907890	11907890	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	aaccatgttttcccttcaggTtgacatagaaatcaatgggg	9	8	2	2			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr2:11907890T>A	ENST00000256720.2	+	3	287	c.194T>A	c.(193-195)gTt>gAt	p.V65D	LPIN1_ENST00000396099.1_Splice_Site_p.V71D|LPIN1_ENST00000425416.2_Splice_Site_p.V71D|LPIN1_ENST00000396098.1_Splice_Site_p.V71D|LPIN1_ENST00000449576.2_Splice_Site_p.V114D|MIR548S_ENST00000581352.1_RNA	NM_145693.2	NP_663731.1	Q14693	LPIN1_HUMAN	lipin 1	65	N-LIP.				cellular lipid metabolic process (GO:0044255)|fatty acid catabolic process (GO:0009062)|glycerophospholipid biosynthetic process (GO:0046474)|phosphatidylcholine biosynthetic process (GO:0006656)|phosphatidylethanolamine biosynthetic process (GO:0006646)|phospholipid metabolic process (GO:0006644)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)|triglyceride biosynthetic process (GO:0019432)|triglyceride mobilization (GO:0006642)	cytoplasm (GO:0005737)|endoplasmic reticulum membrane (GO:0005789)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)	phosphatidate phosphatase activity (GO:0008195)			autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(2)|kidney(5)|large_intestine(15)|liver(1)|lung(10)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	45	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		TCCCTTCAGGTTGACATAGAA	0.423																																																0													103	101	102					2																	11907890		2203	4300	6503	SO:0001630	splice_region_variant	23175			D80010	CCDS1682.1, CCDS58699.1, CCDS58700.1, CCDS58701.1	2p25.1	2008-05-23			ENSG00000134324	ENSG00000134324			13345	protein-coding gene	gene with protein product		605518				11138012, 8724849, 16950137	Standard	NM_145693		Approved	KIAA0188	uc010yjm.3	Q14693	OTTHUMG00000119082	ENST00000256720.2:c.193-1T>A	2.37:g.11907890T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MU38|B4DET9|B4DGS4|B4DGZ6|B5MC18|B7Z858|D6W506|E7ESE7|F5GY24|Q53T25	Missense_Mutation	SNP	ENST00000256720.2	37	CCDS1682.1	.	.	.	.	.	.	.	.	.	.	T	24.8	4.568823	0.86439	.	.	ENSG00000134324	ENST00000449576;ENST00000396098;ENST00000396099;ENST00000425416;ENST00000256720;ENST00000441684	D;D;D;D;D;D	0.83673	-1.75;-1.75;-1.75;-1.75;-1.75;-1.75	4.89	4.89	0.63831	Lipin, N-terminal (1);	0.000000	0.85682	D	0.000000	D	0.93083	0.7798	M	0.94101	3.495	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;0.998	D	0.94838	0.8002	10	0.87932	D	0	-17.684	14.814	0.70017	0.0:0.0:0.0:1.0	.	114;65;71	F5GY24;Q14693;A8MU38	.;LPIN1_HUMAN;.	D	114;71;71;71;65;65	ENSP00000397908:V114D;ENSP00000379405:V71D;ENSP00000379406:V71D;ENSP00000401522:V71D;ENSP00000256720:V65D;ENSP00000412578:V65D	ENSP00000256720:V65D	V	+	2	0	LPIN1	11825341	1.000000	0.71417	1.000000	0.80357	0.945000	0.59286	7.898000	0.87363	1.947000	0.56498	0.533000	0.62120	GTT		0.423	LPIN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239296.3	NM_145693	Missense_Mutation	A	11907890	T	A	11907890	5	1	684	1	0	0	0	0	0	0	1	0	8925	1739	60	5	200	5	LPIN1	2	11907890	Splice_Site	SNP	T	TCGA-KO-8414-01A-11D-2310-10		11907890	231291483	7	44281										
ADRA2B	151	mdanderson.org	37	chr2	96780986	96780986	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tcacactcttcctcctcctcCtcctcctcttcagcttcatc	1	21	5	0	rs4426564|rs60083507|rs28365031|rs34667759|rs29000568	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr2:96780986C>T	ENST00000409345.3	-	1	998	c.903G>A	c.(901-903)gaG>gaA	p.E301E		NM_000682.5	NP_000673	P18089	ADA2B_HUMAN	adrenoceptor alpha 2B	301	Asp/Glu-rich (acidic).				activation of MAPK activity by adrenergic receptor signaling pathway (GO:0071883)|activation of protein kinase B activity (GO:0032148)|angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|cell-cell signaling (GO:0007267)|epidermal growth factor-activated receptor transactivation by G-protein coupled receptor signaling pathway (GO:0035625)|female pregnancy (GO:0007565)|G-protein coupled receptor signaling pathway (GO:0007186)|MAPK cascade (GO:0000165)|negative regulation of epinephrine secretion (GO:0032811)|negative regulation of norepinephrine secretion (GO:0010700)|platelet activation (GO:0030168)|positive regulation of blood pressure (GO:0045777)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of uterine smooth muscle contraction (GO:0070474)|regulation of vascular smooth muscle contraction (GO:0003056)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	alpha2-adrenergic receptor activity (GO:0004938)|epinephrine binding (GO:0051379)			endometrium(2)|large_intestine(2)|lung(9)|ovary(3)	16					Amoxapine(DB00543)|Amphetamine(DB00182)|Apomorphine(DB00714)|Apraclonidine(DB00964)|Aripiprazole(DB01238)|Asenapine(DB06216)|Bethanidine(DB00217)|Brimonidine(DB00484)|Bromocriptine(DB01200)|Cabergoline(DB00248)|Carvedilol(DB01136)|Chlorpromazine(DB00477)|Clonidine(DB00575)|Clozapine(DB00363)|Desipramine(DB01151)|Doxepin(DB01142)|Dronedarone(DB04855)|Droxidopa(DB06262)|Ephedra(DB01363)|Epinephrine(DB00668)|Ergoloid mesylate(DB01049)|Ergotamine(DB00696)|Etomidate(DB00292)|Fenoldopam(DB00800)|Guanabenz(DB00629)|Guanfacine(DB01018)|Lisuride(DB00589)|Loxapine(DB00408)|Maprotiline(DB00934)|Mephentermine(DB01365)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Olanzapine(DB00334)|Oxymetazoline(DB00935)|Paliperidone(DB01267)|Pergolide(DB01186)|Phenoxybenzamine(DB00925)|Pramipexole(DB00413)|Prazosin(DB00457)|Quetiapine(DB01224)|Risperidone(DB00734)|Ropinirole(DB00268)|Rotigotine(DB05271)|Tizanidine(DB00697)|Tolazoline(DB00797)|Trimipramine(DB00726)|Xylometazoline(DB06694)|Yohimbine(DB01392)|Ziprasidone(DB00246)	cctcctcctcctcctcctctt	0.657														1245	0.248602	0.3517	0.1873	5008	,	,		17797	0.1766		0.2028	False		,,,				2504	0.274															0													11	14	13					2																	96780986		2095	4198	6293	SO:0001819	synonymous_variant	151			M34041	CCDS56129.1	2q11.1	2014-05-06	2012-05-09		ENSG00000222040	ENSG00000274286		"GPCR / Class A : Adrenoceptors : alpha"	282	protein-coding gene	gene with protein product		104260	"adrenergic, alpha-2B-, receptor"	ADRA2L1, ADRA2RL1		2164221	Standard	NM_000682		Approved	ADRARL1	uc021vlh.1	P18089	OTTHUMG00000188276	ENST00000409345.3:c.903G>A	2.37:g.96780986C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q4TUH9|Q53RF2|Q9BZK0	Silent	SNP	ENST00000409345.3	37	CCDS56129.1																																																																																				0.657	ADRA2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000334990.1			T	96780986	C	T	96780986	2	4	684	1	0	0	0	0	0	0	0	1	338	680	24	2		2	ADRA2B	2	96780986	Silent	SNP	C	TCGA-KO-8414-01A-11D-2310-10	84873096	96780986	146418387	8	44282										
OBSL1	23363	mdanderson.org	37	chr2	220417266	220417266	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	aggcgggcagaccttcctgtCggatgcggacgcgggctccg	17	13	0	1	rs59332477	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr2:220417266C>T	ENST00000404537.1	-	18	5356	c.5300G>A	c.(5299-5301)cGa>cAa	p.R1767Q	OBSL1_ENST00000373876.1_Missense_Mutation_p.R1675Q|OBSL1_ENST00000265318.4_3'UTR	NM_015311.2	NP_056126.1	O75147	OBSL1_HUMAN	obscurin-like 1	1767					cardiac myofibril assembly (GO:0055003)|cytoskeleton organization (GO:0007010)|Golgi organization (GO:0007030)|microtubule cytoskeleton organization (GO:0000226)|positive regulation of dendrite morphogenesis (GO:0050775)|protein localization to Golgi apparatus (GO:0034067)|regulation of mitosis (GO:0007088)	3M complex (GO:1990393)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|intercalated disc (GO:0014704)|M band (GO:0031430)|perinuclear region of cytoplasm (GO:0048471)|Z disc (GO:0030018)	cytoskeletal adaptor activity (GO:0008093)						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)		ACCTTCCTGTCGGATGCGGAC	0.731													C|||	1886	0.376597	0.3495	0.5202	5008	,	,		10361	0.3819		0.4583	False		,,,				2504	0.2219															0								C	GLN/ARG	1409,2443		283,843,800	9	13	12		5300	4.6	1	2	dbSNP_129	12	3644,4534		865,1914,1310	yes	missense	OBSL1	NM_015311.2	43	1148,2757,2110	TT,TC,CC		44.5586,36.5784,42.0033	probably-damaging	1767/1897	220417266	5053,6977	1926	4089	6015	SO:0001583	missense	23363			BC007201	CCDS46520.1, CCDS54433.1, CCDS63134.1	2q35	2013-01-29			ENSG00000124006	ENSG00000124006		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	29092	protein-coding gene	gene with protein product		610991				9734811	Standard	NM_015311		Approved	KIAA0657	uc010fwk.3	O75147	OTTHUMG00000059157	ENST00000404537.1:c.5300G>A	2.37:g.220417266C>T	ENSP00000385636:p.Arg1767Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A4KVA4|A4KVA5|Q96IW3|S4R3M6	Missense_Mutation	SNP	ENST00000404537.1	37	CCDS46520.1	913	0.41804029304029305	163	0.3313008130081301	168	0.46408839779005523	228	0.3986013986013986	354	0.46701846965699206	C	22.2	4.252406	0.80135	0.365784	0.445586	ENSG00000124006	ENST00000404537;ENST00000373876	T;T	0.66995	-0.24;-0.24	4.61	4.61	0.57282	Immunoglobulin subtype (1);Immunoglobulin I-set (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.00012	0.0000	L	0.41356	1.27	0.09310	P	1.0	D	0.89917	1.0	D	0.85130	0.997	T	0.44997	-0.9291	8	0.20519	T	0.43	.	14.2902	0.66273	0.0:1.0:0.0:0.0	rs59332477;rs62191611	1767	O75147	OBSL1_HUMAN	Q	1767;1675	ENSP00000385636:R1767Q;ENSP00000362983:R1675Q	ENSP00000362983:R1675Q	R	-	2	0	OBSL1	220125510	0.997000	0.39634	1.000000	0.80357	0.840000	0.47671	3.585000	0.53943	2.390000	0.81377	0.655000	0.94253	CGA		0.731	OBSL1-014	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322012.1			T	220417266	C	T	220417266	3	4	684	1	0	0	0	0	1	0	0	0	10820	884	31	1	406	1	OBSL1	2	220417266	Missense_Mutation	SNP	C	TCGA-KO-8414-01A-11D-2310-10	123636280	220417266	22782107	9	44283										
GPR35	2859	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr2	241570087	241570087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgcacgtggggctgacagtgCgcctcgcagtgggctggaac	17	11	0	1	rs377190882		TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr2:241570087C>T	ENST00000319838.5	+	6	1660	c.718C>T	c.(718-720)Cgc>Tgc	p.R240C	GPR35_ENST00000438013.2_Missense_Mutation_p.R271C|GPR35_ENST00000403859.1_Missense_Mutation_p.R240C|GPR35_ENST00000407714.1_Missense_Mutation_p.R240C|GPR35_ENST00000430267.1_Missense_Mutation_p.R240C	NM_001195381.1	NP_001182310.1	Q9HC97	GPR35_HUMAN	G protein-coupled receptor 35	240					G-protein coupled receptor signaling pathway (GO:0007186)	integral component of plasma membrane (GO:0005887)	G-protein coupled receptor activity (GO:0004930)			NS(2)|breast(1)|cervix(1)|endometrium(1)|lung(7)|ovary(1)|pancreas(1)|skin(2)|urinary_tract(1)	17		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;5.29e-32)|all cancers(36;1.38e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.02e-06)|Lung(119;0.00163)|Colorectal(34;0.00463)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.031)		GCTGACAGTGCGCCTCGCAGT	0.667																																																0													99	82	88					2																	241570087		2203	4300	6503	SO:0001583	missense	2859				CCDS2541.1, CCDS56174.1	2q37.3	2012-08-21			ENSG00000178623	ENSG00000178623		"GPCR / Class A : Orphans"	4492	protein-coding gene	gene with protein product		602646				9479505	Standard	NM_005301		Approved		uc021vze.1	Q9HC97	OTTHUMG00000133356	ENST00000319838.5:c.718C>T	2.37:g.241570087C>T	ENSP00000322731:p.Arg240Cys	Somatic		WXS	Illumina HiSeq	Phase_I	J3KR30|O43495|Q17R58|Q4VBN5|Q4ZFV2|Q6FHI8|Q86UH4	Missense_Mutation	SNP	ENST00000319838.5	37	CCDS2541.1	.	.	.	.	.	.	.	.	.	.	C	15.74	2.923480	0.52653	.	.	ENSG00000178623	ENST00000319838;ENST00000403859;ENST00000438013;ENST00000407714;ENST00000430267	T;T;T;T;T	0.72942	-0.7;-0.7;-0.7;-0.7;-0.7	3.64	-0.654	0.11443	GPCR, rhodopsin-like superfamily (1);	1.214260	0.05886	U	0.627409	T	0.79155	0.4398	L	0.58810	1.83	0.09310	N	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.68483	0.95;0.958;0.943	T	0.64952	-0.6286	10	0.56958	D	0.05	-3.0998	8.1112	0.30916	0.0:0.6526:0.0:0.3474	.	325;271;240	Q6ZMP9;A8K2J1;Q9HC97	.;.;GPR35_HUMAN	C	240;240;271;240;240	ENSP00000322731:R240C;ENSP00000385140:R240C;ENSP00000415890:R271C;ENSP00000384263:R240C;ENSP00000411788:R240C	ENSP00000322731:R240C	R	+	1	0	GPR35	241218760	0.000000	0.05858	0.000000	0.03702	0.098000	0.18820	-0.668000	0.05268	-0.235000	0.09767	0.305000	0.20034	CGC		0.667	GPR35-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000325631.1	NM_001195382		T	241570087	C	T	241570087	3	4	684	1	0	0	0	0	1	0	0	0	6697	768	27	1	720	1	GPR35	2	241570087	Missense_Mutation	SNP	C	TCGA-KO-8414-01A-11D-2310-10	21152821	241570087	1629286	10	44284										
HRH1	3269	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr3	11301062	11301062	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gactatgtggccagcacagcGtccattttcagtgtcttcat	9	11	3	0	rs201790628	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr3:11301062G>A	ENST00000397056.1	+	3	530	c.339G>A	c.(337-339)gcG>gcA	p.A113A	HRH1_ENST00000438284.2_Silent_p.A113A|HRH1_ENST00000431010.2_Silent_p.A113A	NM_000861.3|NM_001098211.1	NP_000852.1|NP_001091681.1	P35367	HRH1_HUMAN	histamine receptor H1	113					cellular response to histamine (GO:0071420)|eosinophil chemotaxis (GO:0048245)|G-protein coupled receptor signaling pathway (GO:0007186)|inflammatory response (GO:0006954)|inositol phosphate-mediated signaling (GO:0048016)|memory (GO:0007613)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|positive regulation of inositol trisphosphate biosynthetic process (GO:0032962)|positive regulation of vasoconstriction (GO:0045907)|regulation of synaptic plasticity (GO:0048167)|regulation of vascular permeability (GO:0043114)|visual learning (GO:0008542)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|histamine receptor activity (GO:0004969)	p.A113A(1)		autonomic_ganglia(1)|central_nervous_system(1)|endometrium(4)|large_intestine(3)|lung(11)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	25					Aceprometazine(DB01615)|Alcaftadine(DB06766)|Alimemazine(DB01246)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Antazoline(DB08799)|Aripiprazole(DB01238)|Asenapine(DB06216)|Astemizole(DB00637)|Azatadine(DB00719)|Azelastine(DB00972)|Benzatropine(DB00245)|Bepotastine(DB04890)|Betahistine(DB06698)|Bromodiphenhydramine(DB01237)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbinoxamine(DB00748)|Cetirizine(DB00341)|Chlorcyclizine(DB08936)|Chloropyramine(DB08800)|Chlorphenamine(DB01114)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Citalopram(DB00215)|Clemastine(DB00283)|Clofedanol(DB04837)|Clozapine(DB00363)|Cyclizine(DB01176)|Cyproheptadine(DB00434)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexbrompheniramine(DB00405)|Dimenhydrinate(DB00985)|Dimetindene(DB08801)|Diphenhydramine(DB01075)|Diphenylpyraline(DB01146)|Doxepin(DB01142)|Doxylamine(DB00366)|Emedastine(DB01084)|Epinastine(DB00751)|Escitalopram(DB01175)|Fexofenadine(DB00950)|Flunarizine(DB04841)|Histamine Phosphate(DB00667)|Hydroxyzine(DB00557)|Iloperidone(DB04946)|Imipramine(DB00458)|Isothipendyl(DB08802)|Ketotifen(DB00920)|Levocabastine(DB01106)|Loratadine(DB00455)|Loxapine(DB00408)|Maprotiline(DB00934)|Meclizine(DB00737)|Mepyramine(DB06691)|Mequitazine(DB01071)|Methdilazine(DB00902)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Nortriptyline(DB00540)|Olanzapine(DB00334)|Olopatadine(DB00768)|Orphenadrine(DB01173)|Paliperidone(DB01267)|Phenindamine(DB01619)|Pheniramine(DB01620)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Tolazoline(DB00797)|Trazodone(DB00656)|Trimipramine(DB00726)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Ziprasidone(DB00246)	CCAGCACAGCGTCCATTTTCA	0.542													G|||	6	0.00119808	0.0	0.0	5008	,	,		18426	0.0		0.0	False		,,,				2504	0.0061															1	Substitution - coding silent(1)	large_intestine(1)											215	208	210					3																	11301062		2203	4300	6503	SO:0001819	synonymous_variant	3269				CCDS2604.1	3p25	2012-11-12			ENSG00000196639	ENSG00000196639		"GPCR / Class A : Histamine receptors"	5182	protein-coding gene	gene with protein product		600167				8003029	Standard	NM_001098211		Approved		uc010hds.3	P35367	OTTHUMG00000129719	ENST00000397056.1:c.339G>A	3.37:g.11301062G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K047|Q6P9E5	Silent	SNP	ENST00000397056.1	37	CCDS2604.1																																																																																				0.542	HRH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251928.2			A	11301062	G	A	11301062	2	1	684	1	0	0	0	0	0	0	0	1	7362	1132	40	1		1	HRH1	3	11301062	Silent	SNP	G	TCGA-KO-8414-01A-11D-2310-10		11301062	186721368	11	44285										
ULK4	54986	ucsc.edu	37	chr3	41860994	41860994	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctctagggttctttttttttTcttcctaaaatgaagtggga	8	6	3	1			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr3:41860994T>C	ENST00000301831.4	-	19	2231	c.1769A>G	c.(1768-1770)gAa>gGa	p.E590G		NM_017886.2	NP_060356.2	Q96C45	ULK4_HUMAN	unc-51 like kinase 4	590					cilium morphogenesis (GO:0060271)|epithelial cilium movement (GO:0003351)|microtubule cytoskeleton organization (GO:0000226)|regulation of JNK cascade (GO:0046328)|regulation of MAPK cascade (GO:0043408)|regulation of neuron migration (GO:2001222)|regulation of neuron projection development (GO:0010975)|regulation of p38MAPK cascade (GO:1900744)|regulation of protein kinase C signaling (GO:0090036)|ventricular system development (GO:0021591)		ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|cervix(1)|large_intestine(6)|lung(7)|prostate(5)|skin(1)	22				KIRC - Kidney renal clear cell carcinoma(284;0.214)		CTTTTTTTTTTCTTCCTAAAA	0.438																																																0													56	57	57					3																	41860994		1851	4087	5938	SO:0001583	missense	54986			AK000581	CCDS43071.1	3p22.1	2013-07-02	2013-07-02		ENSG00000168038	ENSG00000168038			15784	protein-coding gene	gene with protein product			"unc-51-like kinase 4 (C. elegans)"			12477932	Standard	NM_017886		Approved	FLJ20574, REC01035, FAM7C1	uc003ckv.4	Q96C45	OTTHUMG00000156210	ENST00000301831.4:c.1769A>G	3.37:g.41860994T>C	ENSP00000301831:p.Glu590Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF15|Q8IW79|Q9NWV6|Q9UF96	Missense_Mutation	SNP	ENST00000301831.4	37	CCDS43071.1	.	.	.	.	.	.	.	.	.	.	T	15.18	2.755948	0.49362	.	.	ENSG00000168038	ENST00000301831	T	0.63913	-0.07	5.16	2.71	0.32032	Armadillo-like helical (1);Armadillo-type fold (2);	0.944419	0.08785	U	0.894149	T	0.67126	0.2860	L	0.43152	1.355	0.80722	D	1	D;D	0.63880	0.987;0.993	P;P	0.57776	0.827;0.827	T	0.55566	-0.8121	10	0.59425	D	0.04	.	8.1235	0.30984	0.2111:0.064:0.0:0.7249	.	590;590	B4E2M4;Q96C45	.;ULK4_HUMAN	G	590	ENSP00000301831:E590G	ENSP00000301831:E590G	E	-	2	0	ULK4	41835998	1.000000	0.71417	0.989000	0.46669	0.647000	0.38526	2.072000	0.41510	0.041000	0.15688	-2.530000	0.00182	GAA		0.438	ULK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000343490.1	XM_929989		C	41860994	T	C	41860994	3	2	684	1	0	0	0	0	1	0	0	0	16990	1783	62	3	2134	3	ULK4	3	41860994	Missense_Mutation	SNP	T	TCGA-KO-8414-01A-11D-2310-10	30559932	41860994	156161436	12	44286										
CELSR3	1951	broad.mit.edu	37	chr3	48697290	48697290	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gctgtgatagccagggtgtaGgtcacctggtcctcatagtc	13	10	2	1			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr3:48697290G>T	ENST00000164024.4	-	1	3058	c.2778C>A	c.(2776-2778)acC>acA	p.T926T	CELSR3_ENST00000544264.1_Silent_p.T926T	NM_001407.2	NP_001398.2	Q9NYQ7	CELR3_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 3	926	Cadherin 6. {ECO:0000255|PROSITE- ProRule:PRU00043}.				axonal fasciculation (GO:0007413)|cilium assembly (GO:0042384)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|regulation of protein localization (GO:0032880)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(1)|biliary_tract(1)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(23)|ovary(9)|prostate(6)|skin(7)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(5)	83				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CCAGGGTGTAGGTCACCTGGT	0.522																																																0													152	131	138					3																	48697290		2203	4300	6503	SO:0001819	synonymous_variant	1951			AF231023	CCDS2775.1	3p21.31	2014-08-08	2013-02-18		ENSG00000008300	ENSG00000008300		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	3230	protein-coding gene	gene with protein product	"flamingo homolog 1 (Drosophila)"	604264	"cadherin EGF LAG seven-pass G-type receptor 3, flamingo (Drosophila) homolog"	EGFL1		9693030	Standard	NM_001407		Approved	MEGF2, HFMI1, FMI1, CDHF11	uc003cuf.1	Q9NYQ7	OTTHUMG00000133544	ENST00000164024.4:c.2778C>A	3.37:g.48697290G>T		Somatic		WXS	Illumina HiSeq	Phase_I	O75092	Silent	SNP	ENST00000164024.4	37	CCDS2775.1																																																																																				0.522	CELSR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257523.1	NM_001407		T	48697290	G	T	48697290	2	4	684	1	0	0	0	0	0	0	0	1	3225	987	35	4		4	CELSR3	3	48697290	Silent	SNP	G	TCGA-KO-8414-01A-11D-2310-10	6836296	48697290	149325140	13	44287										
ZBBX	79740	broad.mit.edu	37	chr3	167039952	167039952	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tccatataggatagaatgtcTtctttaagttcaatattaag	6	5	3	1			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr3:167039952T>C	ENST00000392766.2	-	12	1276	c.936A>G	c.(934-936)gaA>gaG	p.E312E	ZBBX_ENST00000392767.2_Silent_p.E312E|ZBBX_ENST00000455345.2_Silent_p.E312E|ZBBX_ENST00000307529.5_Silent_p.E312E|ZBBX_ENST00000392764.1_Silent_p.E283E|ZBBX_ENST00000469220.1_Intron	NM_001199201.1|NM_024687.3	NP_001186130.1|NP_078963.2	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	312						intracellular (GO:0005622)	zinc ion binding (GO:0008270)			NS(1)|breast(1)|endometrium(5)|kidney(5)|large_intestine(9)|liver(1)|lung(38)|ovary(2)|prostate(1)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)	70						ATAGAATGTCTTCTTTAAGTT	0.279																																																0													67	64	65					3																	167039952		1789	4037	5826	SO:0001819	synonymous_variant	79740			AK026702	CCDS3199.2, CCDS56295.1, CCDS56296.1	3q26.1	2010-03-23			ENSG00000169064	ENSG00000169064			26245	protein-coding gene	gene with protein product						12477932	Standard	NM_024687		Approved	FLJ23049	uc011bpc.2	A8MT70	OTTHUMG00000133560	ENST00000392766.2:c.936A>G	3.37:g.167039952T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8MV69|B3KSC1|B5MDJ6|F2Z370|Q9H5T8	Silent	SNP	ENST00000392766.2	37	CCDS3199.2																																																																																				0.279	ZBBX-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000257657.3	NM_024687		C	167039952	T	C	167039952	2	2	684	1	0	0	0	0	0	0	0	1	17528	1606	56	3		3	ZBBX	3	167039952	Silent	SNP	T	TCGA-KO-8414-01A-11D-2310-10	118342662	167039952	30982478	14	44288										
EVC2	132884	broad.mit.edu	37	chr4	5564754	5564754	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gggtacaggggccagttcgcCaatgggctccagtgacaggt	16	10	0	1			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr4:5564754C>T	ENST00000344408.5	-	22	3801	c.3748G>A	c.(3748-3750)Ggc>Agc	p.G1250S	EVC2_ENST00000344938.1_Intron|EVC2_ENST00000310917.2_Missense_Mutation_p.G1170S	NM_147127.4	NP_667338.3	Q86UK5	LBN_HUMAN	Ellis van Creveld syndrome 2	1250					smoothened signaling pathway (GO:0007224)	cilium (GO:0005929)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				NS(2)|breast(3)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(32)|lung(28)|ovary(4)|pancreas(1)|prostate(2)|skin(2)|stomach(1)|urinary_tract(2)	81						GCCAGTTCGCCAATGGGCTCC	0.443																																																0													127	135	132					4																	5564754		2203	4300	6503	SO:0001583	missense	132884			AB083067	CCDS3382.2, CCDS54718.1	4p16.2-p16.1	2008-08-01	2008-08-01		ENSG00000173040	ENSG00000173040			19747	protein-coding gene	gene with protein product		607261				12136126, 12571802	Standard	NM_147127		Approved	LBN	uc003gij.3	Q86UK5	OTTHUMG00000125493	ENST00000344408.5:c.3748G>A	4.37:g.5564754C>T	ENSP00000342144:p.Gly1250Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q86YT3|Q86YT4|Q8NG49	Missense_Mutation	SNP	ENST00000344408.5	37	CCDS3382.2	.	.	.	.	.	.	.	.	.	.	C	13.45	2.239915	0.39598	.	.	ENSG00000173040	ENST00000310917;ENST00000344408	T;T	0.74526	-0.85;-0.85	5.17	4.32	0.51571	.	1.259860	0.05622	N	0.580176	T	0.56804	0.2010	N	0.12746	0.255	0.23936	N	0.996416	B	0.28605	0.217	B	0.21151	0.033	T	0.42882	-0.9425	10	0.27785	T	0.31	-17.1361	8.6563	0.34066	0.0:0.898:0.0:0.102	.	1250	Q86UK5	LBN_HUMAN	S	1170;1250	ENSP00000311683:G1170S;ENSP00000342144:G1250S	ENSP00000311683:G1170S	G	-	1	0	EVC2	5615655	0.059000	0.20769	0.029000	0.17559	0.953000	0.61014	2.258000	0.43249	2.430000	0.82344	0.563000	0.77884	GGC		0.443	EVC2-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000289822.2	NM_147127		T	5564754	C	T	5564754	3	4	684	1	0	0	0	0	1	0	0	0	5288	594	21	2	182	2	EVC2	4	5564754	Missense_Mutation	SNP	C	TCGA-KO-8414-01A-11D-2310-10		5564754	185589522	15	44289										
FBXL5	26234	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr4	15640143	15640143	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	aatctcacctttatctgactTttcatccacggaatatttaa	3	10	3	1			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr4:15640143T>C	ENST00000341285.3	-	4	695	c.571A>G	c.(571-573)Aag>Gag	p.K191E	FBXL5_ENST00000382358.4_Missense_Mutation_p.K65E|FBXL5_ENST00000412094.2_Missense_Mutation_p.K174E	NM_001193534.1|NM_001193535.1|NM_012161.3	NP_001180463.1|NP_001180464.1|NP_036293.1	Q9UKA1	FBXL5_HUMAN	F-box and leucine-rich repeat protein 5	191					iron ion homeostasis (GO:0055072)|protein ubiquitination (GO:0016567)|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146)	perinuclear region of cytoplasm (GO:0048471)|SCF ubiquitin ligase complex (GO:0019005)|ubiquitin ligase complex (GO:0000151)	iron ion binding (GO:0005506)|ubiquitin-protein transferase activity (GO:0004842)			endometrium(2)|large_intestine(3)|lung(5)|ovary(1)|pancreas(1)|prostate(1)	13						TTATCTGACTTTTCATCCACG	0.353																																																0													57	55	56					4																	15640143		2203	4300	6503	SO:0001583	missense	26234			AF174591	CCDS3415.1, CCDS54745.1	4p15.33	2011-06-09			ENSG00000118564	ENSG00000118564		"F-boxes / Leucine-rich repeats"	13602	protein-coding gene	gene with protein product		605655				10531035	Standard	NM_012161		Approved	FBL4, FBL5, FLR1	uc003goc.2	Q9UKA1	OTTHUMG00000097097	ENST00000341285.3:c.571A>G	4.37:g.15640143T>C	ENSP00000344866:p.Lys191Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8MSK4|B4DIB5|Q4W5A8|Q8NHP3|Q9NXN2|Q9P0I0|Q9P0X5|Q9UJT7|Q9UKC8	Missense_Mutation	SNP	ENST00000341285.3	37	CCDS3415.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	24.9|24.9	4.583921|4.583921	0.86748|0.86748	.|.	.|.	ENSG00000118564|ENSG00000118564	ENST00000341285;ENST00000412094;ENST00000382358;ENST00000512066|ENST00000513163	T;T;T|.	0.33654|.	1.45;1.46;1.4|.	5.49|5.49	5.49|5.49	0.81192|0.81192	.|.	0.000000|0.000000	0.85682|0.85682	D|D	0.000000|0.000000	T|T	0.57330|0.57330	0.2046|0.2046	L|L	0.34521|0.34521	1.04|1.04	0.80722|0.80722	D|D	1|1	D;D|.	0.71674|.	0.998;0.997|.	D;D|.	0.78314|.	0.991;0.98|.	T|T	0.53906|0.53906	-0.8372|-0.8372	10|6	0.46703|.	T|.	0.11|.	-22.038|-22.038	15.8847|15.8847	0.79238|0.79238	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	174;191|.	Q9UKA1-2;Q9UKA1|.	.;FBXL5_HUMAN|.	E|R	191;174;65;153|111	ENSP00000344866:K191E;ENSP00000408679:K174E;ENSP00000371795:K65E|.	ENSP00000344866:K191E|.	K|K	-|-	1|2	0|0	FBXL5|FBXL5	15249241|15249241	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	6.055000|6.055000	0.71103|0.71103	2.209000|2.209000	0.71365|0.71365	0.528000|0.528000	0.53228|0.53228	AAG|AAA		0.353	FBXL5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214235.2			C	15640143	T	C	15640143	3	2	684	1	0	0	0	0	1	0	0	0	5729	1850	64	3	1536	3	FBXL5	4	15640143	Missense_Mutation	SNP	T	TCGA-KO-8414-01A-11D-2310-10	10075389	15640143	175514133	16	44290										
CDC25C	995	broad.mit.edu	37	chr5	137666827	137666827	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	aaaactgggtcctgagccagAgcttccttcctctcttgtgg	10	12	1	2			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr5:137666827A>G	ENST00000323760.6	-	2	321	c.43T>C	c.(43-45)Tct>Cct	p.S15P	CDC25C_ENST00000356505.3_Missense_Mutation_p.S15P|CDC25C_ENST00000513970.1_Missense_Mutation_p.S15P|CDC25C_ENST00000514555.1_Missense_Mutation_p.S15P|CDC25C_ENST00000357274.3_Missense_Mutation_p.S15P|CDC25C_ENST00000348983.3_Missense_Mutation_p.S15P|CDC25C_ENST00000415130.2_Missense_Mutation_p.S15P	NM_001790.3	NP_001781.2	P30307	MPIP3_HUMAN	cell division cycle 25C	15					cell proliferation (GO:0008283)|DNA replication (GO:0006260)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|peptidyl-tyrosine dephosphorylation (GO:0035335)|regulation of cell cycle (GO:0051726)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of mitosis (GO:0007088)|spermatogenesis (GO:0007283)|viral process (GO:0016032)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)	protein kinase binding (GO:0019901)|protein tyrosine phosphatase activity (GO:0004725)|WW domain binding (GO:0050699)			endometrium(2)|kidney(3)|large_intestine(5)|lung(5)|skin(1)	16			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			CCTGAGCCAGAGCTTCCTTCC	0.458																																																0													90	86	87					5																	137666827		2203	4300	6503	SO:0001583	missense	995			M34065	CCDS4202.1, CCDS4203.1	5q31	2013-01-17	2013-01-17		ENSG00000158402	ENSG00000158402		"Protein tyrosine phosphatases / Class III Cys-based PTPs", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	1727	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 60"	157680	"cell division cycle 25C", "cell division cycle 25 homolog C (S. cerevisiae)", "cell division cycle 25 homolog C (S. pombe)"	CDC25		1703321	Standard	XM_005272145		Approved	PPP1R60	uc003lcp.1	P30307	OTTHUMG00000129203	ENST00000323760.6:c.43T>C	5.37:g.137666827A>G	ENSP00000321656:p.Ser15Pro	Somatic		WXS	Illumina HiSeq	Phase_I	D3DQB8|Q96PL3|Q9H168|Q9H2E8|Q9H2E9|Q9H2F1	Missense_Mutation	SNP	ENST00000323760.6	37	CCDS4202.1	.	.	.	.	.	.	.	.	.	.	A	8.444	0.851558	0.17034	.	.	ENSG00000158402	ENST00000323760;ENST00000356505;ENST00000357274;ENST00000348983;ENST00000415130;ENST00000513970;ENST00000534892;ENST00000514555;ENST00000503022;ENST00000510119	T;T;T;T;T;T;T;T;T	0.23754	2.51;2.52;1.95;1.95;1.95;2.51;2.52;1.9;1.89	4.14	-0.563	0.11778	.	1.422790	0.04401	N	0.364291	T	0.07908	0.0198	N	0.01003	-1.06	0.09310	N	1	B;B;B;B;B;B	0.02656	0.0;0.0;0.0;0.0;0.0;0.0	B;B;B;B;B;B	0.04013	0.001;0.001;0.0;0.001;0.0;0.0	T	0.18777	-1.0326	10	0.39692	T	0.17	12.7295	1.0632	0.01605	0.2141:0.4083:0.1758:0.2018	.	32;15;32;15;15;15	G3V1P6;P30307-3;B4DX61;P30307-2;P30307-4;P30307	.;.;.;.;.;MPIP3_HUMAN	P	15;15;15;15;15;15;32;15;15;32	ENSP00000321656:S15P;ENSP00000348898:S15P;ENSP00000349821:S15P;ENSP00000345205:S15P;ENSP00000392631:S15P;ENSP00000424795:S15P;ENSP00000425470:S15P;ENSP00000427251:S15P;ENSP00000427105:S32P	ENSP00000321656:S15P	S	-	1	0	CDC25C	137694726	0.000000	0.05858	0.000000	0.03702	0.673000	0.39480	-0.013000	0.12678	-0.090000	0.12462	0.533000	0.62120	TCT		0.458	CDC25C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251280.1			G	137666827	A	G	137666827	3	3	684	1	0	0	0	0	1	0	0	0	3066	304	11	3	1430	3	CDC25C	5	137666827	Missense_Mutation	SNP	A	TCGA-KO-8414-01A-11D-2310-10		137666827	43248433	17	44291										
TREML2	79865	mdanderson.org	37	chr6	41166017	41166017	+	Missense_Mutation	SNP	C	C	T													0	0	1	0	0	0	1	1	0	ggggccctttcacccagactCgggcaaagccaggctcacac					rs77093113	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr6:41166017C>T	ENST00000483722.1	-	2	391	c.206G>A	c.(205-207)cGa>cAa	p.R69Q		NM_024807.2	NP_079083.2	Q5T2D2	TRML2_HUMAN	triggering receptor expressed on myeloid cells-like 2	69	Ig-like V-type.				T cell activation (GO:0042110)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	receptor activity (GO:0004872)			breast(1)|central_nervous_system(1)|large_intestine(1)|lung(13)|ovary(1)|prostate(1)	18	Ovarian(28;0.0418)|Colorectal(47;0.196)					CACCCAGACTCGGGCAAAGCC	0.572																																																0													126	124	125					6																	41166017		2203	4300	6503	SO:0001583	missense	79865			AK023755	CCDS4853.1, CCDS4853.2	6p21.1	2013-01-11	2004-04-14	2004-04-16	ENSG00000112195	ENSG00000112195		"Immunoglobulin superfamily / V-set domain containing"	21092	protein-coding gene	gene with protein product	"TREM-like transcript 2"	609715	"chromosome 6 open reading frame 76"	C6orf76		12645956	Standard	NM_024807		Approved	FLJ13693, TLT2, dJ238O23.1	uc010jxm.1	Q5T2D2	OTTHUMG00000016349	ENST00000483722.1:c.206G>A	6.37:g.41166017C>T	ENSP00000418767:p.Arg69Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q08AP8|Q08AP9|Q8IWY0|Q9H8E9	Missense_Mutation	SNP	ENST00000483722.1	37	CCDS4853.2	.	.	.	.	.	.	.	.	.	.	.	15.90	2.968589	0.53614	.	.	ENSG00000112195	ENST00000483722	T	0.64991	-0.13	4.75	4.75	0.60458	Immunoglobulin subtype (1);Immunoglobulin V-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.129603	0.32563	N	0.005924	T	0.66567	0.2802	L	0.60455	1.87	0.26861	N	0.967955	D	0.89917	1.0	D	0.91635	0.999	T	0.60352	-0.7280	10	0.48119	T	0.1	-23.6018	13.6225	0.62144	0.0:1.0:0.0:0.0	.	69	Q5T2D2	TRML2_HUMAN	Q	69	ENSP00000418767:R69Q	ENSP00000418767:R69Q	R	-	2	0	TREML2	41273995	0.203000	0.23435	0.325000	0.25375	0.013000	0.08279	3.388000	0.52509	2.344000	0.79699	0.563000	0.77884	CGA		0.572	TREML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043756.3	NM_024807		T	41166017	C	T	41166017	3	4	684	1	0	0	0	0	1	0	0	0	16485	884	31	1	775	1	TREML2	6	41166017	Missense_Mutation	SNP	C	TCGA-KO-8414-01A-11D-2310-10		41166017	129949050	18	44292	467	2								
TREML2	79865	mdanderson.org	37	chr6	41166021	41166021	+	Missense_Mutation	SNP	C	C	T													0	0	1	0	0	0	1	1	0	ccctttcacccagactcgggCaaagccaggctcacacttct					rs386700523|rs61736679	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr6:41166021C>T	ENST00000483722.1	-	2	387	c.202G>A	c.(202-204)Gcc>Acc	p.A68T		NM_024807.2	NP_079083.2	Q5T2D2	TRML2_HUMAN	triggering receptor expressed on myeloid cells-like 2	68	Ig-like V-type.				T cell activation (GO:0042110)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	receptor activity (GO:0004872)			breast(1)|central_nervous_system(1)|large_intestine(1)|lung(13)|ovary(1)|prostate(1)	18	Ovarian(28;0.0418)|Colorectal(47;0.196)					CAGACTCGGGCAAAGCCAGGC	0.572																																																0													133	131	132					6																	41166021		2203	4300	6503	SO:0001583	missense	79865			AK023755	CCDS4853.1, CCDS4853.2	6p21.1	2013-01-11	2004-04-14	2004-04-16	ENSG00000112195	ENSG00000112195		"Immunoglobulin superfamily / V-set domain containing"	21092	protein-coding gene	gene with protein product	"TREM-like transcript 2"	609715	"chromosome 6 open reading frame 76"	C6orf76		12645956	Standard	NM_024807		Approved	FLJ13693, TLT2, dJ238O23.1	uc010jxm.1	Q5T2D2	OTTHUMG00000016349	ENST00000483722.1:c.202G>A	6.37:g.41166021C>T	ENSP00000418767:p.Ala68Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q08AP8|Q08AP9|Q8IWY0|Q9H8E9	Missense_Mutation	SNP	ENST00000483722.1	37	CCDS4853.2	.	.	.	.	.	.	.	.	.	.	.	0.011	-1.711493	0.00712	.	.	ENSG00000112195	ENST00000483722	T	0.67865	-0.29	4.75	0.472	0.16758	Immunoglobulin subtype (1);Immunoglobulin V-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.870478	0.09855	N	0.747087	T	0.06508	0.0167	N	0.00263	-1.745	0.21256	N	0.999743	B	0.10296	0.003	B	0.04013	0.001	T	0.39121	-0.9629	10	0.02654	T	1	-2.4265	5.3045	0.15795	0.0:0.0954:0.3459:0.5587	.	68	Q5T2D2	TRML2_HUMAN	T	68	ENSP00000418767:A68T	ENSP00000418767:A68T	A	-	1	0	TREML2	41273999	0.082000	0.21442	0.327000	0.25402	0.012000	0.07955	-0.620000	0.05565	-0.041000	0.13558	-0.440000	0.05779	GCC		0.572	TREML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043756.3	NM_024807		T	41166021	C	T	41166021	3	4	684	1	0	0	0	0	1	0	0	0	16485	710	25	2	779	2	TREML2	6	41166021	Missense_Mutation	SNP	C	TCGA-KO-8414-01A-11D-2310-10	4	41166021	129949046	19	44293	467	2								
DST	667	broad.mit.edu;bcgsc.ca	37	chr6	56417323	56417323	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tagaaaggcttttatagtttCcttttgcttttgcaatgttt	7	5	0	1			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr6:56417323C>A	ENST00000361203.3	-	57	15641	c.15634G>T	c.(15634-15636)Gaa>Taa	p.E5212*	DST_ENST00000370754.5_Nonsense_Mutation_p.E5392*|DST_ENST00000370788.2_Nonsense_Mutation_p.E3126*|DST_ENST00000446842.2_Nonsense_Mutation_p.E4888*|DST_ENST00000421834.2_Nonsense_Mutation_p.E3126*|DST_ENST00000370769.4_Nonsense_Mutation_p.E5214*|DST_ENST00000244364.6_Nonsense_Mutation_p.E2800*|DST_ENST00000312431.6_3'UTR			Q03001	DYST_HUMAN	dystonin	5212					axonogenesis (GO:0007409)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cell motility (GO:0048870)|cytoplasmic microtubule organization (GO:0031122)|cytoskeleton organization (GO:0007010)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)|integrin-mediated signaling pathway (GO:0007229)|intermediate filament cytoskeleton organization (GO:0045104)|maintenance of cell polarity (GO:0030011)|microtubule cytoskeleton organization (GO:0000226)|regulation of microtubule polymerization or depolymerization (GO:0031110)|response to wounding (GO:0009611)|retrograde axon cargo transport (GO:0008090)	actin cytoskeleton (GO:0015629)|axon (GO:0030424)|basal plasma membrane (GO:0009925)|basement membrane (GO:0005604)|cell leading edge (GO:0031252)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|integral component of membrane (GO:0016021)|intermediate filament (GO:0005882)|intermediate filament cytoskeleton (GO:0045111)|microtubule cytoskeleton (GO:0015630)|microtubule plus-end (GO:0035371)|neurofilament cytoskeleton (GO:0060053)|nucleus (GO:0005634)|Z disc (GO:0030018)	calcium ion binding (GO:0005509)|integrin binding (GO:0005178)|microtubule plus-end binding (GO:0051010)|protein C-terminus binding (GO:0008022)|protein homodimerization activity (GO:0042803)			NS(1)|breast(5)|central_nervous_system(8)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(22)|lung(43)|ovary(7)|prostate(1)|skin(4)|upper_aerodigestive_tract(3)	105	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TTTATAGTTTCCTTTTGCTTT	0.413																																																0													56	53	54					6																	56417323		1865	4086	5951	SO:0001587	stop_gained	667			M22942, M69225	CCDS4959.1, CCDS47443.1, CCDS75474.1	6p12.1	2013-01-10	2004-06-25	2004-07-01	ENSG00000151914	ENSG00000151914		"EF-hand domain containing"	1090	protein-coding gene	gene with protein product		113810	"bullous pemphigoid antigen 1, 230/240kDa"	BPAG1		2461961, 2276744	Standard	NM_001144770		Approved	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2	uc021zba.2	Q03001	OTTHUMG00000014913	ENST00000361203.3:c.15634G>T	6.37:g.56417323C>A	ENSP00000354508:p.Glu5212*	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3H1|O94833|Q12825|Q13266|Q13267|Q13775|Q5TBT0|Q5TBT2|Q5TF23|Q5TF24|Q8N1T8|Q8N8J3|Q8WXK8|Q8WXK9|Q96AK9|Q96DQ5|Q96J76|Q96QT5|Q9H555|Q9UGD7|Q9UGD8|Q9UN10	Nonsense_Mutation	SNP	ENST00000361203.3	37		.	.	.	.	.	.	.	.	.	.	C	55	24.898192	0.99962	.	.	ENSG00000151914	ENST00000244364;ENST00000370754;ENST00000370769;ENST00000421834;ENST00000446842;ENST00000370788;ENST00000361203	.	.	.	6.17	4.1	0.47936	.	0.483231	0.18277	N	0.146130	.	.	.	.	.	.	0.80722	A	1.000000	.	.	.	.	.	.	.	.	.	.	0.18276	T	0.48	.	8.1406	0.31080	0.0:0.6774:0.1268:0.1958	.	.	.	.	X	2800;5392;5214;3126;4888;3126;5212	.	ENSP00000244364:E2800X	E	-	1	0	DST	56525282	1.000000	0.71417	0.958000	0.39756	0.987000	0.75469	2.104000	0.41815	1.625000	0.50366	0.655000	0.94253	GAA		0.413	DST-004	NOVEL	not_organism_supported|basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000041021.3	NM_001723		A	56417323	C	A	56417323	4	1	684	1	0	0	0	0	0	1	0	0	4785	864	30	4	7289	4	DST	6	56417323	Nonsense_Mutation	SNP	C	TCGA-KO-8414-01A-11D-2310-10	15251302	56417323	114697744	20	44294										
GGCT	79017	hgsc.bcm.edu	37	chr7	30544237	30544238	+	Frame_Shift_Del	DEL	CT	CT	-													0	0	1	0	0	0	1	1	0	aggggtttcggaggtggatcCtctctgtcagcaggttgctg							TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr7:30544237_30544238delCT	ENST00000275428.4	-	1	222_223	c.88_89delAG	c.(88-90)aggfs	p.R30fs	GGCT_ENST00000005374.6_Frame_Shift_Del_p.R30fs|GGCT_ENST00000409436.1_Frame_Shift_Del_p.R30fs|GGCT_ENST00000598361.1_Intron|GGCT_ENST00000409390.1_Frame_Shift_Del_p.R30fs|GGCT_ENST00000409144.1_Frame_Shift_Del_p.R30fs	NM_024051.3	NP_076956.1	O75223	GGCT_HUMAN	gamma-glutamylcyclotransferase	30					glutathione biosynthetic process (GO:0006750)|glutathione derivative biosynthetic process (GO:1901687)|release of cytochrome c from mitochondria (GO:0001836)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	gamma-glutamylcyclotransferase activity (GO:0003839)|protein homodimerization activity (GO:0042803)			endometrium(2)|kidney(1)|large_intestine(2)|lung(3)	8						GAGGTGGATCCTCTCTGTCAGC	0.644																																																0																																										SO:0001589	frameshift_variant	79017			BC019243	CCDS5428.1, CCDS56474.1, CCDS56475.1, CCDS56476.1	7p15-p14	2010-04-23	2010-04-23	2008-08-04	ENSG00000006625	ENSG00000006625	2.3.2.4		21705	protein-coding gene	gene with protein product		137170	"chromosome 7 open reading frame 24"	C7orf24, GCTG		17932939, 18515354	Standard	NM_024051		Approved	MGC3077, CRF21, Ggc	uc003tba.3	O75223	OTTHUMG00000128593	ENST00000275428.4:c.88_89delAG	7.37:g.30544241_30544242delCT	ENSP00000275428:p.Arg30fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDN0|B8ZZN4|B8ZZR8|Q9BS37	Frame_Shift_Del	DEL	ENST00000275428.4	37	CCDS5428.1																																																																																				0.644	GGCT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250447.2	NM_024051		-	30544238	CT	-	30544237	7	5	684	1	0	1	0	1	0	0	0	0	6362	681	24	0	493	0	GGCT	7	30544237	Frame_Shift_Del	DEL	CT	TCGA-KO-8414-01A-11D-2310-10		30544237	128594426	21	44295	468	2								
GGCT	79017	bcgsc.ca	37	chr7	30544238	30544239	+	Frame_Shift_Del	DEL	CT	CT	-													0	0	1	0	0	0	1	1	0	ggggtttcggaggtggatccTctctgtcagcaggttgctgc							TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr7:30544238_30544239delCT	ENST00000275428.4	-	1	221_222	c.87_88delAG	c.(85-90)gaagggfs	p.G30fs	GGCT_ENST00000005374.6_Frame_Shift_Del_p.G30fs|GGCT_ENST00000409436.1_Frame_Shift_Del_p.G30fs|GGCT_ENST00000598361.1_Intron|GGCT_ENST00000409390.1_Frame_Shift_Del_p.G30fs|GGCT_ENST00000409144.1_Frame_Shift_Del_p.G30fs	NM_024051.3	NP_076956.1	O75223	GGCT_HUMAN	gamma-glutamylcyclotransferase	30					glutathione biosynthetic process (GO:0006750)|glutathione derivative biosynthetic process (GO:1901687)|release of cytochrome c from mitochondria (GO:0001836)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	gamma-glutamylcyclotransferase activity (GO:0003839)|protein homodimerization activity (GO:0042803)			endometrium(2)|kidney(1)|large_intestine(2)|lung(3)	8						AGGTGGATCCTCTCTGTCAGCA	0.649																																																0																																										SO:0001589	frameshift_variant	79017			BC019243	CCDS5428.1, CCDS56474.1, CCDS56475.1, CCDS56476.1	7p15-p14	2010-04-23	2010-04-23	2008-08-04	ENSG00000006625	ENSG00000006625	2.3.2.4		21705	protein-coding gene	gene with protein product		137170	"chromosome 7 open reading frame 24"	C7orf24, GCTG		17932939, 18515354	Standard	NM_024051		Approved	MGC3077, CRF21, Ggc	uc003tba.3	O75223	OTTHUMG00000128593	ENST00000275428.4:c.87_88delAG	7.37:g.30544238_30544239delCT	ENSP00000275428:p.Gly30fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDN0|B8ZZN4|B8ZZR8|Q9BS37	Frame_Shift_Del	DEL	ENST00000275428.4	37	CCDS5428.1																																																																																				0.649	GGCT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250447.2	NM_024051		-	30544239	CT	-	30544238	7	5	684	1	0	1	0	1	0	0	0	0	6362	1550	54	0	494	0	GGCT	7	30544238	Frame_Shift_Del	DEL	CT	TCGA-KO-8414-01A-11D-2310-10	1	30544238	128594425	22	44296	468	2								
BAZ1B	9031	broad.mit.edu	37	chr7	72863961	72863961	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tcatagagggccggcctcagAcaaaacaggtggaaggcttt	13	9	2	2			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr7:72863961A>G	ENST00000339594.4	-	15	3977	c.3639T>C	c.(3637-3639)tgT>tgC	p.C1213C	BAZ1B_ENST00000404251.1_Silent_p.C1213C	NM_032408.3	NP_115784.1	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	1213					cellular response to DNA damage stimulus (GO:0006974)|chromatin assembly or disassembly (GO:0006333)|chromatin-mediated maintenance of transcription (GO:0048096)|double-strand break repair (GO:0006302)|heart morphogenesis (GO:0003007)|histone phosphorylation (GO:0016572)|peptidyl-tyrosine phosphorylation (GO:0018108)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	condensed chromosome (GO:0000793)|nucleus (GO:0005634)|pericentric heterochromatin (GO:0005721)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|histone kinase activity (GO:0035173)|lysine-acetylated histone binding (GO:0070577)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein tyrosine kinase activity (GO:0004713)|vitamin D receptor activator activity (GO:0071884)|zinc ion binding (GO:0008270)			NS(1)|breast(5)|cervix(1)|endometrium(5)|kidney(5)|large_intestine(12)|lung(20)|ovary(5)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	61		Lung NSC(55;0.0659)|all_lung(88;0.152)				CCGGCCTCAGACAAAACAGGT	0.517																																					Esophageal Squamous(112;1167 1561 21085 43672 48228)											0													92	85	87					7																	72863961		2203	4300	6503	SO:0001819	synonymous_variant	9031			AF084479	CCDS5549.1	7q11.23	2013-01-28			ENSG00000009954	ENSG00000009954		"Zinc fingers, PHD-type"	961	protein-coding gene	gene with protein product	"Williams-Beuren syndrome chromosome region 9", "Williams-Beuren syndrome chromosome region 10", "transcription factor WSTF"	605681		WBSCR9, WBSCR10		9858827, 9828126	Standard	NM_032408		Approved	WSTF	uc003tyc.3	Q9UIG0	OTTHUMG00000023847	ENST00000339594.4:c.3639T>C	7.37:g.72863961A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B9EGK3|D3DXE9|O95039|O95247|O95277|Q6P1K4|Q86UJ6	Silent	SNP	ENST00000339594.4	37	CCDS5549.1																																																																																				0.517	BAZ1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252123.4	NM_032408		G	72863961	A	G	72863961	2	3	684	1	0	0	0	0	0	0	0	1	1330	273	10	3		3	BAZ1B	7	72863961	Silent	SNP	A	TCGA-KO-8414-01A-11D-2310-10	42319723	72863961	86274702	23	44297										
GNAI1	2770	bcgsc.ca	37	chr7	79818278	79818284	+	Frame_Shift_Del	DEL	ATCTGGT	ATCTGGT	-													0	0	1	0	0	0	1	1	0	tatttttaggtgctggtgaaTctggtaaaagtacaattgtg					rs147937975		TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	ATCTGGT	ATCTGGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr7:79818278_79818284delATCTGGT	ENST00000351004.3	+	2	503_509	c.130_136delATCTGGT	c.(130-138)atctggtaafs	p.IW*44fs	GNAI1_ENST00000457358.2_5'UTR|GNAI1_ENST00000490206.1_3'UTR	NM_002069.5	NP_002060.4	P63096	GNAI1_HUMAN	guanine nucleotide binding protein (G protein), alpha inhibiting activity polypeptide 1	44					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|blood coagulation (GO:0007596)|cell cycle (GO:0007049)|cell division (GO:0051301)|G-protein coupled receptor signaling pathway (GO:0007186)|platelet activation (GO:0030168)|response to peptide hormone (GO:0043434)|synaptic transmission (GO:0007268)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|heterotrimeric G-protein complex (GO:0005834)|lysosomal membrane (GO:0005765)|midbody (GO:0030496)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	G-protein beta/gamma-subunit complex binding (GO:0031683)|G-protein coupled serotonin receptor binding (GO:0031821)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|metal ion binding (GO:0046872)|signal transducer activity (GO:0004871)			NS(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(6)|lung(4)|skin(1)|upper_aerodigestive_tract(1)	19						TGCTGGTGAATCTGGTAAAAGTACAAT	0.314																																																0																																										SO:0001589	frameshift_variant	2770			AL049933	CCDS5595.1, CCDS59061.1	7q21-q22	2008-07-18			ENSG00000127955	ENSG00000127955			4384	protein-coding gene	gene with protein product	"Gi1 protein alpha subunit"	139310				3110783	Standard	NM_002069		Approved		uc003uhb.1	P63096	OTTHUMG00000023523	ENST00000351004.3:c.130_136delATCTGGT	7.37:g.79818278_79818284delATCTGGT	ENSP00000343027:p.Ile44fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA88|B4E2V1|C9J3A4|P04898|P11015|P31871|Q5U074|Q8TAN5|Q9UGA4	Frame_Shift_Del	DEL	ENST00000351004.3	37	CCDS5595.1																																																																																				0.314	GNAI1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253254.1	NM_002069		-	79818284	ATCTGGT	-	79818278	7	5	684	1	0	1	0	1	0	0	0	0	6511	1435	50	0	136	0	GNAI1	7	79818278	Frame_Shift_Del	DEL	ATCTGGT	TCGA-KO-8414-01A-11D-2310-10	6954317	79818278	79320385	24	44298										
GRM3	2913	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	86479693	86479693	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ccttctcttgtaggtgcagaCgacaaccatgtgcatctctg	9	12	2	1	rs376384427		TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr7:86479693C>T	ENST00000361669.2	+	5	3498	c.2399C>T	c.(2398-2400)aCg>aTg	p.T800M	GRM3_ENST00000536043.1_Missense_Mutation_p.T672M|GRM3_ENST00000546348.1_Missense_Mutation_p.T392M|GRM3_ENST00000439827.1_Silent_p.D444D|GRM3_ENST00000394720.2_Silent_p.D442D	NM_000840.2	NP_000831.2	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3	800					adenylate cyclase-inhibiting G-protein coupled glutamate receptor signaling pathway (GO:0007196)|negative regulation of adenylate cyclase activity (GO:0007194)|regulation of synaptic transmission, glutamatergic (GO:0051966)|synaptic transmission (GO:0007268)	astrocyte projection (GO:0097449)|axon (GO:0030424)|dendritic spine (GO:0043197)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)|presynaptic membrane (GO:0042734)	calcium channel regulator activity (GO:0005246)|G-protein coupled receptor activity (GO:0004930)|glutamate receptor activity (GO:0008066)|group II metabotropic glutamate receptor activity (GO:0001641)			NS(2)|breast(6)|central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(9)|lung(43)|ovary(3)|pancreas(2)|prostate(4)|skin(25)|upper_aerodigestive_tract(5)	109	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)					TAGGTGCAGACGACAACCATG	0.453													C|||	1	0.000199681	0.0	0.0	5008	,	,		21863	0.0		0.0	False		,,,				2504	0.001				GBM(52;969 1098 3139 52280)											0								C	MET/THR	1,4405	2.1+/-5.4	0,1,2202	218	150	173		2399	6	1	7		173	0,8600		0,0,4300	no	missense	GRM3	NM_000840.2	81	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging	800/880	86479693	1,13005	2203	4300	6503	SO:0001583	missense	2913				CCDS5600.1	7q21.1-q21.2	2012-08-29			ENSG00000198822	ENSG00000198822		"GPCR / Class C : Glutamate receptors, metabotropic", "Glutamate receptors"	4595	protein-coding gene	gene with protein product		601115				8824806	Standard	NM_000840		Approved	GPRC1C, mGlu3, MGLUR3	uc003uid.3	Q14832	OTTHUMG00000022884	ENST00000361669.2:c.2399C>T	7.37:g.86479693C>T	ENSP00000355316:p.Thr800Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q2PNZ6|Q75MV4|Q75N17|Q86YG6|Q8TBH9	Missense_Mutation	SNP	ENST00000361669.2	37	CCDS5600.1	.	.	.	.	.	.	.	.	.	.	C	24.6	4.545246	0.86022	2.27E-4	0.0	ENSG00000198822	ENST00000361669;ENST00000546348;ENST00000536043	D;D;D	0.88818	-2.43;-2.43;-2.43	5.97	5.97	0.96955	GPCR, family 3, C-terminal (2);	0.000000	0.85682	D	0.000000	D	0.93449	0.7910	L	0.53617	1.68	0.80722	D	1	D;D;D	0.89917	0.996;1.0;1.0	P;D;D	0.97110	0.861;1.0;0.999	D	0.93124	0.6527	10	0.62326	D	0.03	.	19.4162	0.94700	0.0:1.0:0.0:0.0	.	392;672;800	B7Z204;F5GYZ2;Q14832	.;.;GRM3_HUMAN	M	800;392;672	ENSP00000355316:T800M;ENSP00000444064:T392M;ENSP00000441407:T672M	ENSP00000355316:T800M	T	+	2	0	GRM3	86317629	1.000000	0.71417	0.972000	0.41901	0.785000	0.44390	6.077000	0.71275	2.837000	0.97791	0.655000	0.94253	ACG		0.453	GRM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253362.2			T	86479693	C	T	86479693	3	4	684	1	0	0	0	0	1	0	0	0	6805	536	19	1	2413	1	GRM3	7	86479693	Missense_Mutation	SNP	C	TCGA-KO-8414-01A-11D-2310-10	6661415	86479693	72658970	25	44299										
PTPRN2	5799	broad.mit.edu;bcgsc.ca	37	chr7	157449123	157449123	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ccaggatgaggcgctgctgcGtgcggaggggctggggatcg	21	9	0	1			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr7:157449123G>A	ENST00000389418.4	-	14	2131	c.2122C>T	c.(2122-2124)Cgc>Tgc	p.R708C	PTPRN2_ENST00000389416.4_Missense_Mutation_p.R691C|PTPRN2_ENST00000409483.1_Missense_Mutation_p.R670C|PTPRN2_ENST00000404321.2_Missense_Mutation_p.R731C|PTPRN2_ENST00000389413.3_Missense_Mutation_p.R679C	NM_002847.3	NP_002838.2	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N polypeptide 2	708					negative regulation of GTPase activity (GO:0034260)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)	endoplasmic reticulum lumen (GO:0005788)|integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)|secretory granule (GO:0030141)|terminal bouton (GO:0043195)	transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(1)|breast(1)|central_nervous_system(1)|cervix(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(11)|liver(1)|lung(42)|ovary(4)|pleura(1)|prostate(2)|skin(10)|upper_aerodigestive_tract(1)	86	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)		GCGCTGCTGCGTGCGGAGGGG	0.662																																																0													73	60	65					7																	157449123		2174	4259	6433	SO:0001583	missense	5799			AB002385	CCDS5947.1, CCDS5948.1, CCDS5949.1	7q36	2011-06-09			ENSG00000155093	ENSG00000155093		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like"	9677	protein-coding gene	gene with protein product	"IAR PTPRP"	601698				8954911, 9220540	Standard	NM_130842		Approved	KIAA0387, phogrin, ICAAR, IA-2beta	uc003wno.3	Q92932	OTTHUMG00000152646	ENST00000389418.4:c.2122C>T	7.37:g.157449123G>A	ENSP00000374069:p.Arg708Cys	Somatic		WXS	Illumina HiSeq	Phase_I	E9PC57|Q8N4I5|Q92662|Q9Y4F8|Q9Y4I6	Missense_Mutation	SNP	ENST00000389418.4	37	CCDS5947.1	.	.	.	.	.	.	.	.	.	.	g	15.09	2.731049	0.48939	.	.	ENSG00000155093	ENST00000409483;ENST00000389413;ENST00000389416;ENST00000389418;ENST00000404321	T;T;T;T;T	0.03524	3.92;3.95;3.91;3.91;3.9	4.19	3.29	0.37713	.	0.000000	0.64402	U	0.000017	T	0.16685	0.0401	M	0.74881	2.28	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.85130	0.996;0.987;0.996;0.997;0.99	T	0.00494	-1.1706	10	0.87932	D	0	.	13.598	0.62002	0.0:0.0:0.8433:0.1567	.	731;670;679;691;708	Q92932-3;E7EM83;Q92932-2;E9PC57;Q92932	.;.;.;.;PTPR2_HUMAN	C	670;679;691;708;731	ENSP00000387114:R670C;ENSP00000374064:R679C;ENSP00000374067:R691C;ENSP00000374069:R708C;ENSP00000385464:R731C	ENSP00000374064:R679C	R	-	1	0	PTPRN2	157141884	1.000000	0.71417	0.328000	0.25416	0.041000	0.13682	5.015000	0.64035	0.857000	0.35407	0.444000	0.29173	CGC		0.662	PTPRN2-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000353214.1			A	157449123	G	A	157449123	3	1	684	1	0	0	0	0	1	0	0	0	12821	1145	40	1	965	1	PTPRN2	7	157449123	Missense_Mutation	SNP	G	TCGA-KO-8414-01A-11D-2310-10	70969430	157449123	1689540	26	44300										
TRAPPC9	83696	broad.mit.edu	37	chr8	141321473	141321473	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tttgggccacatctttctttTctgaagagaagatgaaaaca	8	7	3	4			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr8:141321473T>C	ENST00000438773.2	-	10	1629	c.1496A>G	c.(1495-1497)gAa>gGa	p.E499G	TRAPPC9_ENST00000389327.3_Splice_Site_p.E490G|TRAPPC9_ENST00000389328.4_Splice_Site_p.E597G	NM_001160372.1	NP_001153844.1	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9	499					cell differentiation (GO:0030154)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)				breast(4)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|liver(1)|lung(16)|ovary(2)|prostate(1)|skin(4)|upper_aerodigestive_tract(3)	47						ATCTTTCTTTTCTGAAGAGAA	0.493																																																0													82	82	82					8																	141321473		2203	4300	6503	SO:0001630	splice_region_variant	83696			BC006206	CCDS34946.1, CCDS55278.1	8q24.3	2010-10-22			ENSG00000167632	ENSG00000167632		"Trafficking protein particle complex"	30832	protein-coding gene	gene with protein product	"TRAPP 120 kDa subunit", "tularik gene 1"	611966				11572484	Standard	NM_031466		Approved	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13	uc003yvh.2	Q96Q05	OTTHUMG00000164187	ENST00000438773.2:c.1496-1A>G	8.37:g.141321473T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q4VTT3|Q658K7|Q6P149|Q6ZQT3|Q7L5C4|Q86Y21|Q96SL2|Q9BQA2	Missense_Mutation	SNP	ENST00000438773.2	37	CCDS55278.1	.	.	.	.	.	.	.	.	.	.	T	22.6	4.317407	0.81469	.	.	ENSG00000167632	ENST00000389328;ENST00000389327;ENST00000438773	.	.	.	5.53	5.53	0.82687	.	0.000000	0.85682	D	0.000000	T	0.78123	0.4234	M	0.73217	2.22	0.58432	D	0.999997	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.998;0.995;0.998	T	0.79393	-0.1822	9	0.52906	T	0.07	.	15.6142	0.76753	0.0:0.0:0.0:1.0	.	499;490;597	Q96Q05;Q96Q05-3;Q96Q05-2	TPPC9_HUMAN;.;.	G	597;490;499	.	ENSP00000373978:E490G	E	-	2	0	TRAPPC9	141390655	1.000000	0.71417	0.998000	0.56505	0.793000	0.44817	6.822000	0.75277	2.230000	0.72887	0.454000	0.30748	GAA		0.493	TRAPPC9-002	PUTATIVE	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000377749.1	NM_031466	Missense_Mutation	C	141321473	T	C	141321473	5	2	684	1	0	0	0	0	0	0	1	0	16477	1797	62	3	2006	3	TRAPPC9	8	141321473	Splice_Site	SNP	T	TCGA-KO-8414-01A-11D-2310-10		141321473	5042549	27	44301										
ADAMTS14	140766	broad.mit.edu	37	chr10	72496471	72496471	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ccctgcaagcagctgtggtgCagccatcctgacaacccgta	10	15	0	1			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr10:72496471C>T	ENST00000373207.1	+	10	1521	c.1521C>T	c.(1519-1521)tgC>tgT	p.C507C	ADAMTS14_ENST00000373208.1_Silent_p.C510C	NM_080722.3	NP_542453.2	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 14	507	Disintegrin.				collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular matrix organization (GO:0030198)	extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			NS(1)|autonomic_ganglia(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(11)|lung(15)|ovary(7)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	50						AGCTGTGGTGCAGCCATCCTG	0.587																																																0													98	85	89					10																	72496471		2203	4300	6503	SO:0001819	synonymous_variant	140766			AF358666	CCDS7306.1, CCDS7307.1	10q21	2008-08-01	2005-08-19		ENSG00000138316	ENSG00000138316		"ADAM metallopeptidases with thrombospondin type 1 motif"	14899	protein-coding gene	gene with protein product		607506	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 14"			11779638	Standard	NM_139155		Approved		uc001jrg.3	Q8WXS8	OTTHUMG00000018414	ENST00000373207.1:c.1521C>T	10.37:g.72496471C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T4G0|Q5T4G1|Q8TE55|Q8TEY8	Silent	SNP	ENST00000373207.1	37	CCDS7306.1																																																																																				0.587	ADAMTS14-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000048522.1	NM_080722		T	72496471	C	T	72496471	2	4	684	1	0	0	0	0	0	0	0	1	259	718	25	2		2	ADAMTS14	10	72496471	Silent	SNP	C	TCGA-KO-8414-01A-11D-2310-10		72496471	63038276	28	44302										
KNDC1	85442	mdanderson.org	37	chr10	135000148	135000148	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gagagaattccagaaggagcTaggcagctggaaagtgcagc	15	7	0	2	rs3810965	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr10:135000148T>C	ENST00000304613.3	+	6	1317	c.1296T>C	c.(1294-1296)gcT>gcC	p.A432A	KNDC1_ENST00000368571.2_Silent_p.A367A|KNDC1_ENST00000368572.2_Silent_p.A432A			Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND) containing 1	432					cerebellar granule cell differentiation (GO:0021707)|positive regulation of protein phosphorylation (GO:0001934)|regulation of dendrite morphogenesis (GO:0048814)|small GTPase mediated signal transduction (GO:0007264)	dendrite (GO:0030425)|guanyl-nucleotide exchange factor complex (GO:0032045)|neuronal cell body (GO:0043025)	protein serine/threonine kinase activity (GO:0004674)|Ras guanyl-nucleotide exchange factor activity (GO:0005088)			NS(4)|breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(27)|ovary(1)|prostate(5)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	60		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)		CAGAAGGAGCTAGGCAGCTGG	0.667													c|||	2087	0.416733	0.118	0.3847	5008	,	,		13870	0.5764		0.4354	False		,,,				2504	0.6595															0										719,3683		63,593,1545	26	32	30		1296	-4.2	0	10	dbSNP_107	30	3956,4636		925,2106,1265	no	coding-synonymous	KNDC1	NM_152643.6		988,2699,2810	CC,CT,TT		46.0428,16.3335,35.9781		432/1750	135000148	4675,8319	2201	4296	6497	SO:0001819	synonymous_variant	85442			AK074179	CCDS7674.1	10q26.3	2004-09-14	2004-04-07		ENSG00000171798	ENSG00000171798			29374	protein-coding gene	gene with protein product			"RasGEF domain family, member 2"	RASGEF2, C10orf23		11214970	Standard	NM_152643		Approved	KIAA1768, bB439H18.3, FLJ25027	uc001llz.1	Q76NI1	OTTHUMG00000019303	ENST00000304613.3:c.1296T>C	10.37:g.135000148T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B0QZC5|Q5T233|Q6ZNH8|Q8TEE5|Q96LV7|Q9C095	Silent	SNP	ENST00000304613.3	37	CCDS7674.1																																																																																				0.667	KNDC1-006	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000277044.3	NM_152643		C	135000148	T	C	135000148	2	2	684	1	0	0	0	0	0	0	0	1	8433	1509	53	3		3	KNDC1	10	135000148	Silent	SNP	T	TCGA-KO-8414-01A-11D-2310-10	62503677	135000148	534599	29	44303			1	130		2	2	12	N	T_A	1.883255e-05
KNDC1	85442	mdanderson.org	37	chr10	135000159	135000159	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	agaaggagctaggcagctggAaagtgcagccgcggagcagg	18	8	0	1	rs3810964	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr10:135000159A>G	ENST00000304613.3	+	6	1328	c.1307A>G	c.(1306-1308)gAa>gGa	p.E436G	KNDC1_ENST00000368571.2_Missense_Mutation_p.E371G|KNDC1_ENST00000368572.2_Missense_Mutation_p.E436G			Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND) containing 1	436			E -> G (in dbSNP:rs3810964). {ECO:0000269|Ref.1}.		cerebellar granule cell differentiation (GO:0021707)|positive regulation of protein phosphorylation (GO:0001934)|regulation of dendrite morphogenesis (GO:0048814)|small GTPase mediated signal transduction (GO:0007264)	dendrite (GO:0030425)|guanyl-nucleotide exchange factor complex (GO:0032045)|neuronal cell body (GO:0043025)	protein serine/threonine kinase activity (GO:0004674)|Ras guanyl-nucleotide exchange factor activity (GO:0005088)			NS(4)|breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(27)|ovary(1)|prostate(5)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	60		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)		AGGCAGCTGGAAAGTGCAGCC	0.652													a|||	2088	0.416933	0.118	0.3847	5008	,	,		14228	0.5774		0.4354	False		,,,				2504	0.6595															0									GLY/GLU	699,3701		65,569,1566	23	28	26		1307	-5.9	0	10	dbSNP_107	26	3934,4658		927,2080,1289	yes	missense	KNDC1	NM_152643.6	98	992,2649,2855	GG,GA,AA		45.7868,15.8864,35.6604	benign	436/1750	135000159	4633,8359	2200	4296	6496	SO:0001583	missense	85442			AK074179	CCDS7674.1	10q26.3	2004-09-14	2004-04-07		ENSG00000171798	ENSG00000171798			29374	protein-coding gene	gene with protein product			"RasGEF domain family, member 2"	RASGEF2, C10orf23		11214970	Standard	NM_152643		Approved	KIAA1768, bB439H18.3, FLJ25027	uc001llz.1	Q76NI1	OTTHUMG00000019303	ENST00000304613.3:c.1307A>G	10.37:g.135000159A>G	ENSP00000304437:p.Glu436Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B0QZC5|Q5T233|Q6ZNH8|Q8TEE5|Q96LV7|Q9C095	Missense_Mutation	SNP	ENST00000304613.3	37	CCDS7674.1	871	0.39880952380952384	52	0.10569105691056911	135	0.3729281767955801	338	0.5909090909090909	346	0.45646437994722955	A	6.455	0.452036	0.12283	0.158864	0.457868	ENSG00000171798	ENST00000304613;ENST00000368572;ENST00000368571	T;T;T	0.28895	1.59;1.59;1.59	3.02	-5.95	0.02241	.	0.946911	0.08625	N	0.917834	T	0.00012	0.0000	N	0.00538	-1.39	0.80722	P	0.0	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.43893	-0.9363	9	0.09843	T	0.71	-2.0863	2.4481	0.04511	0.2095:0.4457:0.2064:0.1384	rs3810964;rs58651584;rs3810964	371;436	Q76NI1-2;Q76NI1	.;VKIND_HUMAN	G	436;436;371	ENSP00000304437:E436G;ENSP00000357561:E436G;ENSP00000357560:E371G	ENSP00000304437:E436G	E	+	2	0	KNDC1	134850149	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.407000	0.07178	-1.198000	0.02669	-1.676000	0.00740	GAA		0.652	KNDC1-006	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000277044.3	NM_152643		G	135000159	A	G	135000159	3	3	684	1	0	0	0	0	1	0	0	0	8433	246	9	3	1329	3	KNDC1	10	135000159	Missense_Mutation	SNP	A	TCGA-KO-8414-01A-11D-2310-10	11	135000159	534588	30	44304			1	130		2	2	12	N	T_A	1.883255e-05
MUC6	4588	mdanderson.org	37	chr11	1016628	1016628	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tcattggtggggctgtgtggGtggaccctgtggccttgagc	18	8	1	1	rs202039948		TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr11:1016628G>A	ENST00000421673.2	-	31	6223	c.6173C>T	c.(6172-6174)aCc>aTc	p.T2058I		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	2058	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GGCTGTGTGGGTGGACCCTGT	0.567																																																0													381	380	380					11																	1016628		2193	4287	6480	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.6173C>T	11.37:g.1016628G>A	ENSP00000406861:p.Thr2058Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	14.35	2.507954	0.44558	.	.	ENSG00000184956	ENST00000421673	T	0.19250	2.16	2.46	2.46	0.29980	.	.	.	.	.	T	0.20941	0.0504	L	0.50333	1.59	0.09310	N	1	D	0.56968	0.978	B	0.42738	0.396	T	0.10706	-1.0618	9	0.45353	T	0.12	.	11.0274	0.47753	0.0:0.0:1.0:0.0	.	2058	Q6W4X9	MUC6_HUMAN	I	2058	ENSP00000406861:T2058I	ENSP00000406861:T2058I	T	-	2	0	MUC6	1006628	0.007000	0.16637	0.002000	0.10522	0.226000	0.24999	1.358000	0.34102	1.716000	0.51395	0.313000	0.20887	ACC		0.567	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1016628	G	A	1016628	3	1	684	1	0	0	0	0	1	0	0	0	9987	1261	44	2	1158	2	MUC6	11	1016628	Missense_Mutation	SNP	G	TCGA-KO-8414-01A-11D-2310-10		1016628	133989888	31	44305			2	131		2	2	35	G		5.820856e-05
MUC6	4588	mdanderson.org	37	chr11	1016662	1016662	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	cttgagcgttgttggtggagGaacggtgcctgttggcgttg	18	6	0	1	rs201489806		TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr11:1016662G>A	ENST00000421673.2	-	31	6189	c.6139C>T	c.(6139-6141)Cct>Tct	p.P2047S		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	2047	Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		GTTGGTGGAGGAACGGTGCCT	0.572																																																0													524	490	502					11																	1016662		2200	4295	6495	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.6139C>T	11.37:g.1016662G>A	ENSP00000406861:p.Pro2047Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	6.404	0.442648	0.12164	.	.	ENSG00000184956	ENST00000421673	T	0.18810	2.19	3.12	-2.06	0.07298	.	.	.	.	.	T	0.10809	0.0264	L	0.33485	1.01	0.09310	N	1	B	0.06786	0.001	B	0.04013	0.001	T	0.40553	-0.9557	9	0.11485	T	0.65	.	2.5371	0.04716	0.2087:0.142:0.5053:0.144	.	2047	Q6W4X9	MUC6_HUMAN	S	2047	ENSP00000406861:P2047S	ENSP00000406861:P2047S	P	-	1	0	MUC6	1006662	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	0.038000	0.13862	-1.027000	0.03325	-1.786000	0.00637	CCT		0.572	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1016662	G	A	1016662	3	1	684	1	0	0	0	0	1	0	0	0	9987	1174	41	2	1192	2	MUC6	11	1016662	Missense_Mutation	SNP	G	TCGA-KO-8414-01A-11D-2310-10	34	1016662	133989854	32	44306			2	131		2	2	35	G		5.820856e-05
MUC2	4583	broad.mit.edu	37	chr11	1092624	1092624	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	accactcccagccctccaacCaccactcccagccctccaac	2	25	0	0			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr11:1092624C>A	ENST00000441003.2	+	30	4470	c.4443C>A	c.(4441-4443)acC>acA	p.T1481T	MUC2_ENST00000333592.6_5'Flank|MUC2_ENST00000359061.5_Silent_p.T1482T|MUC2_ENST00000361558.6_Intron	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	4216	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	gccctccaaccaccactccca	0.627																																																0													223	336	297					11																	1092624		1558	2939	4497	SO:0001819	synonymous_variant	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4443C>A	11.37:g.1092624C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Silent	SNP	ENST00000441003.2	37																																																																																					0.627	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		A	1092624	C	A	1092624	2	1	684	1	0	0	0	0	0	0	0	1	9982	581	21	4		4	MUC2	11	1092624	Silent	SNP	C	TCGA-KO-8414-01A-11D-2310-10	75962	1092624	133913892	33	44307										
GYLTL1B	120071	broad.mit.edu	37	chr11	45945039	45945039	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cccagctcttgcatgtggccAtcgtgtgtgcggggcataac	13	12	1	0	rs200481274	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr11:45945039A>G	ENST00000531526.1	+	3	412	c.301A>G	c.(301-303)Atc>Gtc	p.I101V	GYLTL1B_ENST00000389968.3_5'UTR|GYLTL1B_ENST00000536139.1_Missense_Mutation_p.I70V|GYLTL1B_ENST00000325468.5_Missense_Mutation_p.I101V|GYLTL1B_ENST00000529052.1_Missense_Mutation_p.I70V|GYLTL1B_ENST00000401752.1_Missense_Mutation_p.I101V	NM_152312.3	NP_689525.3	Q8N3Y3	LARG2_HUMAN	glycosyltransferase-like 1B	101					muscle cell cellular homeostasis (GO:0046716)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	transferase activity, transferring glycosyl groups (GO:0016757)			breast(2)|central_nervous_system(2)|endometrium(6)|large_intestine(4)|lung(5)|ovary(2)|upper_aerodigestive_tract(1)	22				GBM - Glioblastoma multiforme(35;0.226)		GCATGTGGCCATCGTGTGTGC	0.642													A|||	3	0.000599042	0.0023	0.0	5008	,	,		14666	0.0		0.0	False		,,,				2504	0.0															0													125	101	109					11																	45945039		2203	4299	6502	SO:0001583	missense	120071				CCDS31473.1	11p11.12	2013-02-22			ENSG00000165905	ENSG00000165905		"Glycosyltransferase family 8 domain containing"	16522	protein-coding gene	gene with protein product		609709				15661757, 15958417	Standard	XM_005252785		Approved	PP5656, FLJ35207, LARGE2	uc001nbv.1	Q8N3Y3	OTTHUMG00000167037	ENST00000531526.1:c.301A>G	11.37:g.45945039A>G	ENSP00000432869:p.Ile101Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NN75|Q8N8Y6|Q8NAK3|Q8WY62	Missense_Mutation	SNP	ENST00000531526.1	37	CCDS31473.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	A	12.92	2.082391	0.36758	.	.	ENSG00000165905	ENST00000529052;ENST00000531526;ENST00000401752;ENST00000325468;ENST00000536139	T;T;T;T;T	0.39592	1.07;1.09;1.09;1.09;1.07	5.41	1.6	0.23607	.	0.529195	0.20424	N	0.092620	T	0.25791	0.0628	L	0.31926	0.97	0.80722	D	1	B;B	0.17667	0.023;0.005	B;B	0.22880	0.042;0.02	T	0.05099	-1.0906	10	0.12766	T	0.61	-13.0566	6.0892	0.19985	0.6788:0.0:0.0699:0.2513	.	70;101	E9PIZ2;Q8N3Y3	.;LARG2_HUMAN	V	70;101;101;101;70	ENSP00000431932:I70V;ENSP00000432869:I101V;ENSP00000385235:I101V;ENSP00000324570:I101V;ENSP00000445044:I70V	ENSP00000324570:I101V	I	+	1	0	GYLTL1B	45901615	0.066000	0.20996	1.000000	0.80357	0.664000	0.39144	1.170000	0.31883	0.345000	0.23873	-0.333000	0.08304	ATC		0.642	GYLTL1B-002	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000392572.1	NM_152312		G	45945039	A	G	45945039	3	3	684	1	0	0	0	0	1	0	0	0	6914	217	8	3	307	3	GYLTL1B	11	45945039	Missense_Mutation	SNP	A	TCGA-KO-8414-01A-11D-2310-10	44852415	45945039	89061477	34	44308										
RCOR2	283248	mdanderson.org	37	chr11	63679369	63679369	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgctgggggctccagaggggTtccaatcagggtgggtgggg	21	7	1	1	rs320108	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr11:63679369T>C	ENST00000301459.4	-	12	1927	c.1540A>G	c.(1540-1542)Acc>Gcc	p.T514A	RCOR2_ENST00000473926.2_5'Flank	NM_173587.3	NP_775858.2	Q8IZ40	RCOR2_HUMAN	REST corepressor 2	514	Pro-rich.		T -> A (in dbSNP:rs320108). {ECO:0000269|PubMed:15489334}.		negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	chromatin (GO:0000785)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			kidney(2)|large_intestine(3)|liver(1)|lung(5)|ovary(2)|skin(3)|upper_aerodigestive_tract(1)	17						TCCAGAGGGGTTCCAATCAGG	0.716													C|||	4739	0.946286	0.8064	0.9813	5008	,	,		6119	1.0		1.0	False		,,,				2504	1.0															0													1	1	1					11																	63679369		870	1975	2845	SO:0001583	missense	283248			BC010608	CCDS8052.1	11q13.1	2008-02-05			ENSG00000167771	ENSG00000167771			27455	protein-coding gene	gene with protein product						12477932	Standard	NM_173587		Approved		uc001nyc.3	Q8IZ40	OTTHUMG00000150472	ENST00000301459.4:c.1540A>G	11.37:g.63679369T>C	ENSP00000301459:p.Thr514Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q96FP3	Missense_Mutation	SNP	ENST00000301459.4	37	CCDS8052.1	2093	0.9583333333333334	408	0.8292682926829268	355	0.9806629834254144	572	1.0	758	1.0	C	5.421	0.262822	0.10294	.	.	ENSG00000167771	ENST00000301459	T	0.28454	1.61	4.42	4.42	0.53409	.	0.312825	0.30752	N	0.008943	T	0.00012	0.0000	N	0.02011	-0.69	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.42361	-0.9456	9	0.02654	T	1	.	7.9221	0.29852	0.0:0.7501:0.1613:0.0885	rs320108;rs17855501;rs61010286	514	Q8IZ40	RCOR2_HUMAN	A	514	ENSP00000301459:T514A	ENSP00000301459:T514A	T	-	1	0	RCOR2	63435945	0.021000	0.18746	1.000000	0.80357	0.993000	0.82548	0.269000	0.18589	1.258000	0.44101	-0.222000	0.12452	ACC		0.716	RCOR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318233.1	NM_173587		C	63679369	T	C	63679369	3	2	684	1	0	0	0	0	1	0	0	0	13196	1725	60	3	35	3	RCOR2	11	63679369	Missense_Mutation	SNP	T	TCGA-KO-8414-01A-11D-2310-10	17734330	63679369	71327147	35	44309										
RCOR2	283248	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	63681937	63681937	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gccgccgggcctgtctgtccAtcacactagttcggctgcgg	13	15	2	0			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr11:63681937A>G	ENST00000301459.4	-	6	944	c.557T>C	c.(556-558)aTg>aCg	p.M186T	RCOR2_ENST00000473926.2_5'Flank	NM_173587.3	NP_775858.2	Q8IZ40	RCOR2_HUMAN	REST corepressor 2	186					negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	chromatin (GO:0000785)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			kidney(2)|large_intestine(3)|liver(1)|lung(5)|ovary(2)|skin(3)|upper_aerodigestive_tract(1)	17						CTGTCTGTCCATCACACTAGT	0.602																																																0													60	72	68					11																	63681937		2200	4297	6497	SO:0001583	missense	283248			BC010608	CCDS8052.1	11q13.1	2008-02-05			ENSG00000167771	ENSG00000167771			27455	protein-coding gene	gene with protein product						12477932	Standard	NM_173587		Approved		uc001nyc.3	Q8IZ40	OTTHUMG00000150472	ENST00000301459.4:c.557T>C	11.37:g.63681937A>G	ENSP00000301459:p.Met186Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q96FP3	Missense_Mutation	SNP	ENST00000301459.4	37	CCDS8052.1	.	.	.	.	.	.	.	.	.	.	A	18.99	3.740239	0.69304	.	.	ENSG00000167771	ENST00000301459	T	0.28895	1.59	4.37	4.37	0.52481	.	0.046931	0.85682	D	0.000000	T	0.54029	0.1833	M	0.84082	2.675	0.80722	D	1	D	0.54601	0.967	P	0.60789	0.879	T	0.61860	-0.6976	10	0.72032	D	0.01	.	12.8973	0.58106	1.0:0.0:0.0:0.0	.	186	Q8IZ40	RCOR2_HUMAN	T	186	ENSP00000301459:M186T	ENSP00000301459:M186T	M	-	2	0	RCOR2	63438513	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	7.404000	0.79996	1.749000	0.51849	0.459000	0.35465	ATG		0.602	RCOR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318233.1	NM_173587		G	63681937	A	G	63681937	3	3	684	1	0	0	0	0	1	0	0	0	13196	217	8	3	1042	3	RCOR2	11	63681937	Missense_Mutation	SNP	A	TCGA-KO-8414-01A-11D-2310-10	2568	63681937	71324579	36	44310										
OR2AT4	341152	hgsc.bcm.edu	37	chr11	74800084	74800084	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cgaagcactgaggccaggatGtggacataggagagaagcac	15	8	0	2			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr11:74800084G>A	ENST00000305159.3	-	1	715	c.675C>T	c.(673-675)caC>caT	p.H225H		NM_001005285.1	NP_001005285.1	A6NND4	O2AT4_HUMAN	olfactory receptor, family 2, subfamily AT, member 4	225						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(3)|large_intestine(3)|lung(3)|ovary(1)|upper_aerodigestive_tract(2)	12						AGGCCAGGATGTGGACATAGG	0.592																																																0													43	43	43					11																	74800084		2200	4293	6493	SO:0001819	synonymous_variant	341152			BK004820	CCDS31639.1	11q13.4	2012-08-09			ENSG00000171561	ENSG00000171561		"GPCR / Class A : Olfactory receptors"	19620	protein-coding gene	gene with protein product							Standard	NM_001005285		Approved		uc010rro.2	A6NND4	OTTHUMG00000165370	ENST00000305159.3:c.675C>T	11.37:g.74800084G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B9EGZ8	Silent	SNP	ENST00000305159.3	37	CCDS31639.1																																																																																				0.592	OR2AT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383734.1	NM_001005285		A	74800084	G	A	74800084	2	1	684	1	0	0	0	0	0	0	0	1	10994	1368	48	2		2	OR2AT4	11	74800084	Silent	SNP	G	TCGA-KO-8414-01A-11D-2310-10	11118147	74800084	60206432	37	44311										
CEP57	9702	broad.mit.edu	37	chr11	95561021	95561021	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctaatgaagcaacacagtaaAgctttgtgcaatgatcgagt	9	7	0	2			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr11:95561021A>G	ENST00000325542.5	+	9	1195	c.957A>G	c.(955-957)aaA>aaG	p.K319K	CEP57_ENST00000325486.5_Silent_p.K293K|CEP57_ENST00000537677.1_Silent_p.K292K|CEP57_ENST00000541150.1_Silent_p.K310K	NM_001243776.1|NM_014679.4	NP_001230705.1|NP_055494.2	Q86XR8	CEP57_HUMAN	centrosomal protein 57kDa	319	Mediates interaction with microtubules. {ECO:0000250}.				fibroblast growth factor receptor signaling pathway (GO:0008543)|G2/M transition of mitotic cell cycle (GO:0000086)|microtubule anchoring (GO:0034453)|mitotic cell cycle (GO:0000278)|protein homooligomerization (GO:0051260)|protein import into nucleus, translocation (GO:0000060)|spermatid development (GO:0007286)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|microtubule cytoskeleton (GO:0015630)|nucleus (GO:0005634)	fibroblast growth factor binding (GO:0017134)|protein homodimerization activity (GO:0042803)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(4)|ovary(1)|prostate(1)	13		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				AACACAGTAAAGCTTTGTGCA	0.423									Mosaic Variegated Aneuploidy Syndrome																																							0													165	151	156					11																	95561021		2201	4298	6499	SO:0001819	synonymous_variant	9702	Familial Cancer Database	MVA, MVA syndrome, VMA syndrome, variegated mosaic aneuploidy syndrome, premature centromere division	D42054	CCDS8304.1, CCDS58166.1, CCDS58167.1	11q21	2014-09-17			ENSG00000166037	ENSG00000166037			30794	protein-coding gene	gene with protein product		607951				7788527	Standard	NM_014679		Approved	Translokin, TSP57, KIAA0092	uc001pfp.2	Q86XR8	OTTHUMG00000167740	ENST00000325542.5:c.957A>G	11.37:g.95561021A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJH1|A8K5D0|B4DDP5|F5H5F7|Q14704|Q5JB46|Q8IXP0|Q9BVF9	Silent	SNP	ENST00000325542.5	37	CCDS8304.1	.	.	.	.	.	.	.	.	.	.	A	6.608	0.480636	0.12581	.	.	ENSG00000166037	ENST00000535224	.	.	.	5.85	3.55	0.40652	.	.	.	.	.	T	0.59542	0.2201	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.53585	-0.8418	4	.	.	.	-12.1297	9.8436	0.41013	0.8007:0.0:0.1993:0.0	.	.	.	.	G	109	.	.	S	+	1	0	CEP57	95200669	1.000000	0.71417	0.869000	0.34112	0.641000	0.38312	1.953000	0.40352	0.484000	0.27630	0.383000	0.25322	AGC		0.423	CEP57-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395983.1	NM_014679		G	95561021	A	G	95561021	2	3	684	1	0	0	0	0	0	0	0	1	3258	69	3	3		3	CEP57	11	95561021	Silent	SNP	A	TCGA-KO-8414-01A-11D-2310-10	20760937	95561021	39445495	38	44312										
PDGFD	80310	bcgsc.ca	37	chr11	104034625	104034625	+	Frame_Shift_Del	DEL	A	A	-													0	0	1	0	0	0	1	1	0	gctgcaaaagtttgcgcagaTtagagtgtagacaaagatga					rs199923487		TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr11:104034625delA	ENST00000393158.2	-	1	210	c.31delT	c.(31-33)ttcfs	p.F11fs	PDGFD_ENST00000302251.5_Frame_Shift_Del_p.F11fs			Q9GZP0	PDGFD_HUMAN	platelet derived growth factor D	11					cellular response to amino acid stimulus (GO:0071230)|multicellular organismal development (GO:0007275)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of cell division (GO:0051781)|regulation of peptidyl-tyrosine phosphorylation (GO:0050730)	endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)				biliary_tract(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(8)|prostate(3)|upper_aerodigestive_tract(1)	23		Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Melanoma(852;0.0563)|all_neural(303;0.165)		BRCA - Breast invasive adenocarcinoma(274;0.00136)|Epithelial(105;0.111)		TTTGCGCAGATTAGAGTGTAG	0.567											OREG0021315	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													63	63	63					11																	104034625		2202	4299	6501	SO:0001589	frameshift_variant	80310			AF113216	CCDS8326.1, CCDS41703.1	11q22.3	2008-02-05			ENSG00000170962	ENSG00000170962			30620	protein-coding gene	gene with protein product	"spinal cord derived growth factor B"	609673				11162582, 11980634	Standard	NM_033135		Approved	SCDGF-B, MSTP036, IEGF	uc001phq.3	Q9GZP0	OTTHUMG00000165953	ENST00000393158.2:c.31delT	11.37:g.104034625delA	ENSP00000376865:p.Phe11fs	Somatic	1378	WXS	Illumina HiSeq	Phase_I	A8K9T6|Q9BWV5	Frame_Shift_Del	DEL	ENST00000393158.2	37	CCDS41703.1																																																																																				0.567	PDGFD-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000387231.2	NM_025208		-	104034625	A	-	104034625	7	5	684	1	0	1	0	1	0	0	0	0	11667	1493	52	0	1109	0	PDGFD	11	104034625	Frame_Shift_Del	DEL	A	TCGA-KO-8414-01A-11D-2310-10	8473604	104034625	30971891	39	44313										
FEZ1	9638	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr11	125359542	125359542	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gaagaaaaattctcaagctcGgagagggaggggtcctcgag	15	7	1	2	rs558361561	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr11:125359542G>A	ENST00000278919.3	-	2	366	c.132C>T	c.(130-132)tcC>tcT	p.S44S	FEZ1_ENST00000366139.3_Silent_p.S44S|FEZ1_ENST00000524435.1_Silent_p.S44S	NM_005103.4	NP_005094.1	Q99689	FEZ1_HUMAN	fasciculation and elongation protein zeta 1 (zygin I)	44					axon guidance (GO:0007411)|cell adhesion (GO:0007155)|cellular response to growth factor stimulus (GO:0071363)|establishment of mitochondrion localization (GO:0051654)|nervous system development (GO:0007399)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of neuron projection development (GO:0010976)|transport (GO:0006810)	axon (GO:0030424)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|microtubule (GO:0005874)|microtubule cytoskeleton (GO:0015630)|plasma membrane (GO:0005886)				breast(1)|central_nervous_system(3)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(5)|lung(9)|ovary(1)|upper_aerodigestive_tract(1)	24	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0934)		TCTCAAGCTCGGAGAGGGAGG	0.502													G|||	4	0.000798722	0.0	0.0	5008	,	,		18287	0.001		0.0	False		,,,				2504	0.0031				Melanoma(180;509 2033 10762 15939 24711)											0													64	70	68					11																	125359542		2201	4299	6500	SO:0001819	synonymous_variant	9638			U60060	CCDS31716.1, CCDS44758.1	11q24.2	2005-09-29			ENSG00000149557	ENSG00000149557			3659	protein-coding gene	gene with protein product		604825				9096408, 15843383	Standard	NM_005103		Approved		uc001qbx.3	Q99689	OTTHUMG00000165886	ENST00000278919.3:c.132C>T	11.37:g.125359542G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O00679|O00728|Q6IBI7	Silent	SNP	ENST00000278919.3	37	CCDS31716.1																																																																																				0.502	FEZ1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386875.1	NM_005103		A	125359542	G	A	125359542	2	1	684	1	0	0	0	0	0	0	0	1	5830	1103	39	1		1	FEZ1	11	125359542	Silent	SNP	G	TCGA-KO-8414-01A-11D-2310-10	21324917	125359542	9646974	40	44314										
PRH2	5555	mdanderson.org	37	chr12	11083356	11083356	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctgctggtgatgggaaccagAatgatggccctcagcaggga	15	9	1	3	rs112809344|rs116998526	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr12:11083356A>G	ENST00000396400.3	+	3	234	c.196A>G	c.(196-198)Aat>Gat	p.N66D	PRH2_ENST00000381847.3_Missense_Mutation_p.N66D|PRR4_ENST00000536668.1_Intron	NM_001110213.1	NP_001103683.1	P02810	PRPC_HUMAN	proline-rich protein HaeIII subfamily 2	66			D -> N (in allele PRH2-1; dbSNP:rs1049112). {ECO:0000269|Ref.4}.			extracellular space (GO:0005615)				breast(1)|endometrium(5)|kidney(2)|large_intestine(1)|lung(3)|upper_aerodigestive_tract(1)	13						TGGGAACCAGAATGATGGCCC	0.582																																																0													135	130	132					12																	11083356		2173	4253	6426	SO:0001583	missense	5555				CCDS8636.1	12p13.2	2012-10-02				ENSG00000134551			9367	protein-coding gene	gene with protein product	"parotid proline-rich protein", "acidic salivary proline-rich protein, HaeIII type, 2"	168790				3009472	Standard	NM_005042		Approved	Pr	uc001qzi.4	P02810		ENST00000396400.3:c.196A>G	12.37:g.11083356A>G	ENSP00000379682:p.Asn66Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A2VCM0|A3KN66|A5D902|B2RMW2|Q4VBP2|Q53XA2|Q6P2F6	Missense_Mutation	SNP	ENST00000396400.3	37	CCDS8636.1	516	0.23626373626373626	107	0.21747967479674796	78	0.2154696132596685	120	0.2097902097902098	211	0.2783641160949868	a	0.001	-3.000061	0.00044	.	.	ENSG00000134551	ENST00000381847;ENST00000396400	T;T	0.16597	2.33;2.33	0.736	-1.47	0.08772	.	1.354520	0.05670	N	0.588505	T	0.00012	0.0000	.	.	.	0.80722	P	0.0	.	.	.	.	.	.	T	0.31530	-0.9940	6	0.02654	T	1	.	2.7991	0.05409	0.458:0.2535:0.2885:0.0	.	.	.	.	D	66	ENSP00000371271:N66D;ENSP00000379682:N66D	ENSP00000371271:N66D	N	+	1	0	PRH2	10974623	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-1.671000	0.01954	-1.974000	0.00998	-0.614000	0.04051	AAT		0.582	PRH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400231.1	NM_001110213		G	11083356	A	G	11083356	3	3	684	1	0	0	0	0	1	0	0	0	12493	246	9	3	206	3	PRH2	12	11083356	Missense_Mutation	SNP	A	TCGA-KO-8414-01A-11D-2310-10		11083356	122768539	41	44315										
GXYLT1	283464	mdanderson.org	37	chr12	42512817	42512817	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cttactctgcctttaaagctAtgatgtagctgatcttcagc	7	10	3	2	rs201566551		TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr12:42512817A>G	ENST00000398675.3	-	3	703	c.471T>C	c.(469-471)caT>caC	p.H157H	GXYLT1_ENST00000280876.6_Silent_p.H126H	NM_001099650.1|NM_173601.1	NP_001093120.1|NP_775872.1	Q4G148	GXLT1_HUMAN	glucoside xylosyltransferase 1	157					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate metabolic process (GO:0030204)|glycosaminoglycan metabolic process (GO:0030203)|O-glycan processing (GO:0016266)|small molecule metabolic process (GO:0044281)	Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	UDP-xylosyltransferase activity (GO:0035252)			kidney(2)|large_intestine(4)|liver(3)|lung(8)	17						CTTTAAAGCTATGATGTAGCT	0.323																																																0													71	64	66					12																	42512817		1859	4097	5956	SO:0001819	synonymous_variant	283464			BC015597	CCDS41771.1, CCDS41772.1	12q12	2013-10-11	2009-11-17	2009-11-17	ENSG00000151233	ENSG00000151233		"Glycosyltransferase family 8 domain containing"	27482	protein-coding gene	gene with protein product		613321	"glycosyltransferase 8 domain containing 3"	GLT8D3		19940119	Standard	NM_001099650		Approved	FLJ43151	uc001rms.4	Q4G148	OTTHUMG00000169379	ENST00000398675.3:c.471T>C	12.37:g.42512817A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KWJ2|Q8IXV1|Q96BH4	Silent	SNP	ENST00000398675.3	37	CCDS41772.1																																																																																				0.323	GXYLT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403778.1	XM_290597		G	42512817	A	G	42512817	2	3	684	1	0	0	0	0	0	0	0	1	6910	446	16	3		3	GXYLT1	12	42512817	Silent	SNP	A	TCGA-KO-8414-01A-11D-2310-10	31429461	42512817	91339078	42	44316										
SYNE2	23224	bcgsc.ca	37	chr14	64445578	64445578	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	actgttttccagaatcaacaAcattttggagaaaaaattta	5	6	1	2			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr14:64445578A>G	ENST00000344113.4	+	14	1627	c.1415A>G	c.(1414-1416)aAc>aGc	p.N472S	SYNE2_ENST00000358025.3_Missense_Mutation_p.N472S|SYNE2_ENST00000554584.1_Missense_Mutation_p.N472S|SYNE2_ENST00000357395.3_5'UTR	NM_015180.4	NP_055995.4	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	472					centrosome localization (GO:0051642)|cytoskeletal anchoring at nuclear membrane (GO:0090286)|establishment or maintenance of cell polarity (GO:0007163)|fibroblast migration (GO:0010761)|nuclear envelope organization (GO:0006998)|nuclear migration (GO:0007097)|nuclear migration along microfilament (GO:0031022)|positive regulation of cell migration (GO:0030335)|protein localization to nucleus (GO:0034504)	aggresome (GO:0016235)|cytoplasm (GO:0005737)|filopodium membrane (GO:0031527)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|intermediate filament cytoskeleton (GO:0045111)|lamellipodium membrane (GO:0031258)|mitochondrion (GO:0005739)|nuclear envelope (GO:0005635)|nuclear lumen (GO:0031981)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|sarcoplasmic reticulum (GO:0016529)|SUN-KASH complex (GO:0034993)|Z disc (GO:0030018)	actin binding (GO:0003779)			NS(5)|breast(17)|central_nervous_system(3)|cervix(8)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(21)|large_intestine(34)|lung(75)|ovary(10)|pancreas(2)|prostate(8)|skin(8)|stomach(1)|upper_aerodigestive_tract(9)|urinary_tract(4)	224				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AGAATCAACAACATTTTGGAG	0.289																																																0													52	49	50					14																	64445578		1789	4059	5848	SO:0001583	missense	23224			AB023228	CCDS9761.2, CCDS41963.1, CCDS45124.1, CCDS45125.1	14q22.1-q22.3	2014-09-17			ENSG00000054654	ENSG00000054654			17084	protein-coding gene	gene with protein product	"nuclear envelope spectrin repeat-2", "nucleus and actin connecting element"	608442				10231032, 10878022	Standard	NM_182910		Approved	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2	uc001xgl.3	Q8WXH0	OTTHUMG00000140349	ENST00000344113.4:c.1415A>G	14.37:g.64445578A>G	ENSP00000341781:p.Asn472Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q540G1|Q8N1S3|Q8NF49|Q8TER7|Q8WWW3|Q8WWW4|Q8WWW5|Q8WXH1|Q9NU50|Q9UFQ4|Q9Y2L4|Q9Y4R1	Missense_Mutation	SNP	ENST00000344113.4	37	CCDS41963.1	.	.	.	.	.	.	.	.	.	.	A	10.21	1.287284	0.23478	.	.	ENSG00000054654	ENST00000358025;ENST00000344113;ENST00000554584;ENST00000261678	T;T;T	0.55234	0.91;0.91;0.53	6.0	4.83	0.62350	.	0.197267	0.35067	N	0.003476	T	0.60573	0.2279	L	0.59436	1.845	0.80722	D	1	P;D	0.56035	0.956;0.974	P;P	0.57009	0.651;0.811	T	0.57189	-0.7854	10	0.30078	T	0.28	.	10.8847	0.46960	0.8596:0.0:0.0:0.1404	.	472;472	Q8WXH0;Q8WXH0-2	SYNE2_HUMAN;.	S	472	ENSP00000350719:N472S;ENSP00000341781:N472S;ENSP00000452570:N472S	ENSP00000261678:N472S	N	+	2	0	SYNE2	63515331	0.887000	0.30362	1.000000	0.80357	0.189000	0.23516	0.506000	0.22658	1.034000	0.39945	0.528000	0.53228	AAC		0.289	SYNE2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276994.2	NM_182914		G	64445578	A	G	64445578	3	3	684	1	0	0	0	0	1	0	0	0	15458	43	2	3	1465	3	SYNE2	14	64445578	Missense_Mutation	SNP	A	TCGA-KO-8414-01A-11D-2310-10		64445578	42903962	43	44317										
PAPLN	89932	ucsc.edu	37	chr14	73721711	73721711	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	agccttgtaacacgcagcccTgtcatctcccccagggtaag	9	15	2	0			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr14:73721711T>C	ENST00000554301.1	+	13	1775	c.1612T>C	c.(1612-1614)Tgt>Cgt	p.C538R	PAPLN_ENST00000381166.3_Missense_Mutation_p.C538R|PAPLN_ENST00000427855.1_Missense_Mutation_p.C538R|PAPLN_ENST00000340738.5_Missense_Mutation_p.C511R|PAPLN_ENST00000555445.1_Missense_Mutation_p.C538R			O95428	PPN_HUMAN	papilin, proteoglycan-like sulfated glycoprotein	538	TSP type-1 5. {ECO:0000255|PROSITE- ProRule:PRU00210}.					basement membrane (GO:0005604)	metalloendopeptidase activity (GO:0004222)|serine-type endopeptidase inhibitor activity (GO:0004867)|zinc ion binding (GO:0008270)			NS(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(4)|lung(11)|ovary(3)|pancreas(3)|prostate(5)|skin(3)|upper_aerodigestive_tract(3)	42				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		CACGCAGCCCTGTCATCTCCC	0.642																																																0													35	35	35					14																	73721711		2203	4300	6503	SO:0001583	missense	89932			BC042057	CCDS32114.1	14q24.2	2013-01-11				ENSG00000100767		"Immunoglobulin superfamily / I-set domain containing"	19262	protein-coding gene	gene with protein product						11076767, 19734141	Standard	NM_173462		Approved	MGC50452	uc001xnw.4	O95428		ENST00000554301.1:c.1612T>C	14.37:g.73721711T>C	ENSP00000451803:p.Cys538Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DES8|B4DGE6|Q659F2|Q6UXJ4|Q6ZNM1|Q6ZUJ0|Q7Z681|Q8IVU0	Missense_Mutation	SNP	ENST00000554301.1	37		.	.	.	.	.	.	.	.	.	.	T	14.56	2.571985	0.45798	.	.	ENSG00000100767	ENST00000340738;ENST00000427855;ENST00000381166;ENST00000554301;ENST00000555445	D;D;D;D;D	0.98762	-5.12;-5.12;-5.12;-5.12;-5.12	4.55	4.55	0.56014	.	.	.	.	.	D	0.99527	0.9831	H	0.99415	4.555	0.80722	D	1	D;D;D	0.76494	0.997;0.997;0.999	D;D;D	0.70016	0.944;0.967;0.963	D	0.97673	1.0168	9	0.87932	D	0	.	14.063	0.64810	0.0:0.0:0.0:1.0	.	538;538;511	O95428-5;O95428;O95428-6	.;PPN_HUMAN;.	R	511;538;538;538;538	ENSP00000345395:C511R;ENSP00000403403:C538R;ENSP00000370558:C538R;ENSP00000451803:C538R;ENSP00000451729:C538R	ENSP00000216658:C538R	C	+	1	0	PAPLN	72791464	1.000000	0.71417	0.998000	0.56505	0.056000	0.15407	7.084000	0.76866	1.901000	0.55032	0.533000	0.62120	TGT		0.642	PAPLN-002	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000413182.1	NM_173462		C	73721711	T	C	73721711	3	2	684	1	0	0	0	0	1	0	0	0	11435	1580	55	3	1577	3	PAPLN	14	73721711	Missense_Mutation	SNP	T	TCGA-KO-8414-01A-11D-2310-10	9276133	73721711	33627829	44	44318										
AHNAK2	113146	mdanderson.org	37	chr14	105412138	105412138	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctttgaggccagctccctcgAgaacgtggccctctgggagc	13	14	1	2	rs200384326		TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr14:105412138A>G	ENST00000333244.5	-	7	9769	c.9650T>C	c.(9649-9651)cTc>cCc	p.L3217P	AHNAK2_ENST00000557457.1_Intron	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3217						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			AGCTCCCTCGAGAACGTGGCC	0.602																																																0													112	72	85					14																	105412138		1914	4004	5918	SO:0001583	missense	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.9650T>C	14.37:g.105412138A>G	ENSP00000353114:p.Leu3217Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Missense_Mutation	SNP	ENST00000333244.5	37	CCDS45177.1	.	.	.	.	.	.	.	.	.	.	N	2.736	-0.263306	0.05754	.	.	ENSG00000185567	ENST00000333244	T	0.00554	6.64	2.59	2.59	0.31030	.	.	.	.	.	T	0.00178	0.0005	N	0.00128	-2.045	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.17837	-1.0356	8	0.30078	T	0.28	.	5.3502	0.16032	0.1716:0.0:0.8284:0.0	.	3217	Q8IVF2	AHNK2_HUMAN	P	3217	ENSP00000353114:L3217P	ENSP00000353114:L3217P	L	-	2	0	AHNAK2	104483183	0.000000	0.05858	0.005000	0.12908	0.003000	0.03518	-0.587000	0.05780	0.297000	0.22615	-0.971000	0.02607	CTC		0.602	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		G	105412138	A	G	105412138	3	3	684	1	0	0	0	0	1	0	0	0	415	304	11	3	7741	3	AHNAK2	14	105412138	Missense_Mutation	SNP	A	TCGA-KO-8414-01A-11D-2310-10	31690427	105412138	1937402	45	44319										
SETD1A	9739	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	30990508	30990508	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cagtgcgcctctgcgtccccCagaaccacctgctgggcccc	10	20	1	1			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr16:30990508C>G	ENST00000262519.8	+	14	4087	c.3401C>G	c.(3400-3402)cCa>cGa	p.P1134R		NM_014712.1	NP_055527.1	O15047	SET1A_HUMAN	SET domain containing 1A	1134	Pro-rich. {ECO:0000255}.				histone H3-K4 methylation (GO:0051568)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)|Set1C/COMPASS complex (GO:0048188)	histone methyltransferase activity (H3-K4 specific) (GO:0042800)|nucleotide binding (GO:0000166)|RNA binding (GO:0003723)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(9)|lung(21)|ovary(3)|prostate(2)|skin(4)|upper_aerodigestive_tract(4)|urinary_tract(1)	59						CTGCGTCCCCCAGAACCACCT	0.682																																																0													8	9	8					16																	30990508		2120	4233	6353	SO:0001583	missense	9739			AB002337	CCDS32435.1	16p11.2	2013-02-12			ENSG00000099381	ENSG00000099381		"Chromatin-modifying enzymes / K-methyltransferases", "RNA binding motif (RRM) containing"	29010	protein-coding gene	gene with protein product		611052				9205841, 12670868	Standard	XM_005255723		Approved	KIAA0339, Set1, KMT2F	uc002ead.1	O15047	OTTHUMG00000150474	ENST00000262519.8:c.3401C>G	16.37:g.30990508C>G	ENSP00000262519:p.Pro1134Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NP62|Q6PIF3|Q8TAJ6	Missense_Mutation	SNP	ENST00000262519.8	37	CCDS32435.1	.	.	.	.	.	.	.	.	.	.	C	1.780	-0.482257	0.04383	.	.	ENSG00000099381	ENST00000262519	D	0.94376	-3.41	5.03	3.07	0.35406	.	0.432061	0.22293	N	0.061961	D	0.89643	0.6774	M	0.61703	1.905	0.09310	N	1	B	0.17465	0.022	B	0.11329	0.006	T	0.81965	-0.0691	10	0.66056	D	0.02	.	4.1573	0.10266	0.1617:0.579:0.0:0.2592	.	1134	O15047	SET1A_HUMAN	R	1134	ENSP00000262519:P1134R	ENSP00000262519:P1134R	P	+	2	0	SETD1A	30898009	0.000000	0.05858	0.692000	0.30179	0.179000	0.23085	0.663000	0.25053	0.522000	0.28464	-0.252000	0.11476	CCA		0.682	SETD1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318244.2	NM_014712		G	30990508	C	G	30990508	3	3	684	1	0	0	0	0	1	0	0	0	14143	594	21	4	3451	4	SETD1A	16	30990508	Missense_Mutation	SNP	C	TCGA-KO-8414-01A-11D-2310-10		30990508	59364245	46	44320										
TP53	7157	hgsc.bcm.edu;bcgsc.ca	37	chr17	7577543	7577543	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gtgaggatgggcctccggttCatgccgcccatgcaggaact	14	12	1	1	rs397516437		TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr17:7577543C>A	ENST00000269305.4	-	7	927	c.738G>T	c.(736-738)atG>atT	p.M246I	TP53_ENST00000420246.2_Missense_Mutation_p.M246I|TP53_ENST00000359597.4_Missense_Mutation_p.M246I|TP53_ENST00000413465.2_Missense_Mutation_p.M246I|TP53_ENST00000574684.1_5'Flank|TP53_ENST00000455263.2_Missense_Mutation_p.M246I|TP53_ENST00000445888.2_Missense_Mutation_p.M246I	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	246	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Interacts with the 53BP2 SH3 domain.|Required for interaction with ZNF385A.		M -> I (in sporadic cancers; somatic mutation).|M -> K (in sporadic cancers; somatic mutation).|M -> L (in sporadic cancers; somatic mutation).|M -> R (in sporadic cancers; somatic mutation).|M -> T (in sporadic cancers; somatic mutation).|M -> V (in LFS; germline mutation and in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.M246I(24)|p.0?(8)|p.?(5)|p.M246_P250delMNRRP(2)|p.C242fs*98(1)|p.C238_M246delCNSSCMGGM(1)|p.G245fs*14(1)|p.G245fs*16(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	GCCTCCGGTTCATGCCGCCCA	0.572		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	43	Substitution - Missense(24)|Whole gene deletion(8)|Unknown(5)|Deletion - In frame(3)|Deletion - Frameshift(3)	upper_aerodigestive_tract(8)|biliary_tract(5)|ovary(5)|central_nervous_system(4)|bone(4)|large_intestine(3)|stomach(3)|breast(3)|haematopoietic_and_lymphoid_tissue(2)|urinary_tract(2)|liver(1)|lung(1)|skin(1)|pancreas(1)											152	113	126					17																	7577543		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.738G>T	17.37:g.7577543C>A	ENSP00000269305:p.Met246Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	C	25.1	4.604664	0.87157	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944	D;D;D;D;D;D;D;D	0.99789	-6.75;-6.75;-6.75;-6.75;-6.75;-6.75;-6.75;-6.75	4.62	4.62	0.57501	p53, DNA-binding domain (1);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.000000	0.85682	D	0.000000	D	0.99468	0.9811	L	0.33624	1.015	0.80722	D	1	P;B;B;D;P;D	0.76494	0.895;0.098;0.057;0.969;0.474;0.999	D;B;B;D;P;D	0.83275	0.931;0.24;0.082;0.959;0.865;0.996	D	0.97709	1.0189	10	0.87932	D	0	-28.5667	15.3618	0.74483	0.0:1.0:0.0:0.0	.	246;246;153;246;246;246	P04637-2;P04637-3;E9PFT5;P04637;Q1MSW8;E7EQX7	.;.;.;P53_HUMAN;.;.	I	246;246;246;246;246;246;235;153;114;153	ENSP00000410739:M246I;ENSP00000352610:M246I;ENSP00000269305:M246I;ENSP00000398846:M246I;ENSP00000391127:M246I;ENSP00000391478:M246I;ENSP00000425104:M114I;ENSP00000423862:M153I	ENSP00000269305:M246I	M	-	3	0	TP53	7518268	1.000000	0.71417	1.000000	0.80357	0.957000	0.61999	7.609000	0.82925	2.564000	0.86499	0.462000	0.41574	ATG		0.572	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		A	7577543	C	A	7577543	3	1	684	1	0	0	0	0	1	0	0	0	16393	826	29	4	552	4	TP53	17	7577543	Missense_Mutation	SNP	C	TCGA-KO-8414-01A-11D-2310-10		7577543	73617667	47	44321										
MYO15A	51168	broad.mit.edu	37	chr17	18025035	18025035	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cctgggccctgtgccatcccCcaccctccagcctgaggatc	9	20	0	1			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr17:18025035C>T	ENST00000205890.5	+	2	3259	c.2921C>T	c.(2920-2922)cCc>cTc	p.P974L		NM_016239.3	NP_057323.3	Q9UKN7	MYO15_HUMAN	myosin XVA	974					inner ear morphogenesis (GO:0042472)|locomotory behavior (GO:0007626)|sensory perception of sound (GO:0007605)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|myosin complex (GO:0016459)|stereocilium (GO:0032420)	ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(5)|central_nervous_system(2)|endometrium(17)|kidney(3)|large_intestine(16)|lung(27)|ovary(3)|pancreas(1)|prostate(6)|skin(13)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	99	all_neural(463;0.228)					GTGCCATCCCCCACCCTCCAG	0.657																																																0													16	18	17					17																	18025035		1917	4121	6038	SO:0001583	missense	51168			AF144094	CCDS42271.1	17p11.2	2011-09-27			ENSG00000091536	ENSG00000091536		"Myosins / Myosin superfamily : Class XV"	7594	protein-coding gene	gene with protein product		602666		DFNB3, MYO15		9603736	Standard	NM_016239		Approved		uc021trl.1	Q9UKN7	OTTHUMG00000059390	ENST00000205890.5:c.2921C>T	17.37:g.18025035C>T	ENSP00000205890:p.Pro974Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFC7	Missense_Mutation	SNP	ENST00000205890.5	37	CCDS42271.1	.	.	.	.	.	.	.	.	.	.	c	11.45	1.642537	0.29246	.	.	ENSG00000091536	ENST00000205890	D	0.86562	-2.14	4.11	1.96	0.26148	.	.	.	.	.	T	0.75686	0.3883	N	0.19112	0.55	0.09310	N	0.999999	B	0.02656	0.0	B	0.01281	0.0	T	0.65467	-0.6161	9	0.72032	D	0.01	.	5.0866	0.14687	0.2025:0.6831:0.0:0.1144	.	974	Q9UKN7	MYO15_HUMAN	L	974	ENSP00000205890:P974L	ENSP00000205890:P974L	P	+	2	0	MYO15A	17965760	0.000000	0.05858	0.001000	0.08648	0.004000	0.04260	0.561000	0.23515	0.716000	0.32124	0.455000	0.32223	CCC		0.657	MYO15A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132048.1	NM_016239		T	18025035	C	T	18025035	3	4	684	1	0	0	0	0	1	0	0	0	10070	623	22	2	2923	2	MYO15A	17	18025035	Missense_Mutation	SNP	C	TCGA-KO-8414-01A-11D-2310-10	10447492	18025035	63170175	48	44322										
CDC27	996	mdanderson.org	37	chr17	45234664	45234664	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	agataaactatgattaggtaCttgtgttgtgcaagagttgg	12	3	0	3			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr17:45234664C>T	ENST00000066544.3	-	6	655	c.562G>A	c.(562-564)Gta>Ata	p.V188I	CDC27_ENST00000531206.1_Missense_Mutation_p.V188I|CDC27_ENST00000527547.1_Missense_Mutation_p.V188I|CDC27_ENST00000528748.1_5'UTR|CDC27_ENST00000446365.2_Missense_Mutation_p.V127I	NM_001114091.1|NM_001256.3	NP_001107563.1|NP_001247.3	P30260	CDC27_HUMAN	cell division cycle 27	188					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|cell proliferation (GO:0008283)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|mitotic cell cycle (GO:0000278)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein K11-linked ubiquitination (GO:0070979)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	anaphase-promoting complex (GO:0005680)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle (GO:0005819)	protein phosphatase binding (GO:0019903)			NS(1)|breast(5)|central_nervous_system(3)|cervix(1)|endometrium(2)|kidney(17)|large_intestine(18)|lung(11)|ovary(5)|pancreas(1)|prostate(19)|skin(5)|upper_aerodigestive_tract(2)	90						TGATTAGGTACTTGTGTTGTG	0.383																																																0													68	69	68					17																	45234664		2203	4300	6503	SO:0001583	missense	996			U00001	CCDS11509.1, CCDS45720.1, CCDS74090.1	17q21.32	2013-01-17	2013-01-17		ENSG00000004897	ENSG00000004897		"Anaphase promoting complex subunits", "Tetratricopeptide (TTC) repeat domain containing"	1728	protein-coding gene	gene with protein product	"anaphase promoting complex subunit 3"	116946	"cell division cycle 27", "cell division cycle 27 homolog (S. cerevisiae)"	D0S1430E, D17S978E		8234252	Standard	XM_005257892		Approved	APC3, ANAPC3, NUC2	uc002ile.4	P30260	OTTHUMG00000166429	ENST00000066544.3:c.562G>A	17.37:g.45234664C>T	ENSP00000066544:p.Val188Ile	Somatic		WXS	Illumina HiSeq	Phase_I	G3V1C4|Q16349|Q96F35	Missense_Mutation	SNP	ENST00000066544.3	37	CCDS11509.1	.	.	.	.	.	.	.	.	.	.	C	8.291	0.817763	0.16607	.	.	ENSG00000004897	ENST00000066544;ENST00000531206;ENST00000446365;ENST00000527547;ENST00000526866	T;T;T;T;T	0.66815	-0.22;-0.22;0.05;-0.23;0.88	5.39	3.38	0.38709	.	0.290713	0.33364	N	0.004987	T	0.42131	0.1189	N	0.08118	0	0.37885	D	0.930507	B;B;B;B	0.13145	0.004;0.007;0.001;0.0	B;B;B;B	0.10450	0.002;0.005;0.002;0.001	T	0.32134	-0.9918	10	0.17369	T	0.5	-14.5769	10.538	0.45016	0.0:0.8363:0.0:0.1637	.	127;188;188;188	B4DL80;G5EA36;G3V1C4;P30260	.;.;.;CDC27_HUMAN	I	188;188;127;188;188	ENSP00000066544:V188I;ENSP00000434614:V188I;ENSP00000392802:V127I;ENSP00000437339:V188I;ENSP00000432105:V188I	ENSP00000066544:V188I	V	-	1	0	CDC27	42589663	1.000000	0.71417	1.000000	0.80357	0.842000	0.47809	3.765000	0.55272	1.285000	0.44548	-0.157000	0.13467	GTA		0.383	CDC27-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000389742.2			T	45234664	C	T	45234664	3	4	684	1	0	0	0	0	1	0	0	0	3068	565	20	2	1986	2	CDC27	17	45234664	Missense_Mutation	SNP	C	TCGA-KO-8414-01A-11D-2310-10	27209629	45234664	35960546	49	44323										
ATP8B3	148229	mdanderson.org	37	chr19	1789556	1789556	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctacggcgggctctggagtcCtgggctggcggtgcagccag	18	12	1	0	rs12978609	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr19:1789556C>T	ENST00000310127.6	-	23	2887	c.2649G>A	c.(2647-2649)caG>caA	p.Q883Q	ATP8B3_ENST00000539485.1_Silent_p.Q893Q|ATP8B3_ENST00000525591.1_Silent_p.Q846Q	NM_138813.3	NP_620168.1	O60423	AT8B3_HUMAN	ATPase, aminophospholipid transporter, class I, type 8B, member 3	883					binding of sperm to zona pellucida (GO:0007339)	acrosomal vesicle (GO:0001669)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(9)|ovary(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	23		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)		CTCTGGAGTCCTGGGCTGGCG	0.706													.|||	1551	0.309704	0.2988	0.2882	5008	,	,		7109	0.4395		0.2515	False		,,,				2504	0.2658															0								C	,	1059,2769		176,707,1031	7	9	9		2538,2649	-4.6	0	19	dbSNP_121	9	1989,6143		269,1451,2346	no	coding-synonymous,coding-synonymous	ATP8B3	NM_001178002.1,NM_138813.2	,	445,2158,3377	TT,TC,CC		24.4589,27.6646,25.4849	,	846/1264,883/1301	1789556	3048,8912	1914	4066	5980	SO:0001819	synonymous_variant	148229			AA827939	CCDS45901.1, CCDS54196.1	19p13.3	2010-04-28	2010-04-28		ENSG00000130270	ENSG00000130270		"ATPases / P-type"	13535	protein-coding gene	gene with protein product	"aminophospholipid translocase ATP8B3", "potential phospholipid-transporting ATPase IK"	605866	"ATPase, Class I, type 8B, member 3", "ATPase, class I, type 8B, member 3"			11015572	Standard	NM_138813		Approved	ATPIK	uc002ltw.4	O60423	OTTHUMG00000166189	ENST00000310127.6:c.2649G>A	19.37:g.1789556C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z485|Q8IVB8|Q8N4Y8|Q96M22	Silent	SNP	ENST00000310127.6	37	CCDS45901.1																																																																																				0.706	ATP8B3-002	KNOWN	alternative_5_UTR|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000388279.1	NM_138813		T	1789556	C	T	1789556	2	4	684	1	0	0	0	0	0	0	0	1	1196	680	24	2		2	ATP8B3	19	1789556	Silent	SNP	C	TCGA-KO-8414-01A-11D-2310-10		1789556	57339427	50	44324										
OR10H2	26538	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr19	15839690	15839690	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	accctgatggccaccacctaCgcagtcctcacgcccttcct	6	20	1	1	rs141193809	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr19:15839690C>T	ENST00000305899.3	+	1	857	c.837C>T	c.(835-837)taC>taT	p.Y279Y		NM_013939.2	NP_039227.1	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H, member 2	279						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(10)|ovary(2)|skin(3)|stomach(1)	27	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					CCACCACCTACGCAGTCCTCA	0.532													c|||	5	0.000998403	0.0	0.0	5008	,	,		21943	0.004		0.001	False		,,,				2504	0.0															0													129	107	114					19																	15839690		2203	4300	6503	SO:0001819	synonymous_variant	26538			AC004597	CCDS12333.1	19p13.1	2012-08-09				ENSG00000171942		"GPCR / Class A : Olfactory receptors"	8173	protein-coding gene	gene with protein product							Standard	NM_013939		Approved		uc002nbm.2	O60403		ENST00000305899.3:c.837C>T	19.37:g.15839690C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFQ1|Q96R58	Silent	SNP	ENST00000305899.3	37	CCDS12333.1																																																																																				0.532	OR10H2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460917.1			T	15839690	C	T	15839690	2	4	684	1	0	0	0	0	0	0	0	1	10913	547	19	1		1	OR10H2	19	15839690	Silent	SNP	C	TCGA-KO-8414-01A-11D-2310-10	14050134	15839690	43289293	51	44325										
PEG3	5178	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr19	57327003	57327003	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	caatgtatttctttttagcaCgagccttctggtattcacgg	8	9	3	0	rs140722468		TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr19:57327003C>T	ENST00000326441.9	-	10	3170	c.2807G>A	c.(2806-2808)cGt>cAt	p.R936H	ZIM2_ENST00000391708.3_Intron|ZIM2_ENST00000599935.1_Intron|ZIM2_ENST00000593711.1_Intron|PEG3_ENST00000423103.2_Missense_Mutation_p.R936H|ZIM2_ENST00000221722.5_Intron|ZIM2_ENST00000601070.1_Intron|PEG3_ENST00000593695.1_Missense_Mutation_p.R810H|PEG3_ENST00000598410.1_Missense_Mutation_p.R812H	NM_006210.2	NP_006201.1	Q9GZU2	PEG3_HUMAN	paternally expressed 3	936					apoptotic process (GO:0006915)|genetic imprinting (GO:0071514)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)			NS(1)|biliary_tract(4)|breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(27)|lung(84)|ovary(8)|pancreas(5)|prostate(6)|skin(8)|stomach(2)|upper_aerodigestive_tract(6)	170		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CTTTTTAGCACGAGCCTTCTG	0.448													C|||	1	0.000199681	0.0	0.0	5008	,	,		20637	0.001		0.0	False		,,,				2504	0.0															0													128	126	127					19																	57327003		2203	4300	6503	SO:0001583	missense	5178			AB006625	CCDS12948.1, CCDS58684.1, CCDS58685.1	19q13.4	2013-01-09				ENSG00000198300		"Zinc fingers, C2H2-type", "-", "-", "-"	8826	protein-coding gene	gene with protein product		601483				9149948	Standard	NM_006210		Approved	ZKSCAN22, KIAA0287, ZNF904, ZSCAN24	uc010etr.2	Q9GZU2		ENST00000326441.9:c.2807G>A	19.37:g.57327003C>T	ENSP00000326581:p.Arg936His	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2B8|B4DIM4|C9JP50|P78418|Q5H9P9|Q7Z7H7|Q8TF75|Q9GZY2	Missense_Mutation	SNP	ENST00000326441.9	37	CCDS12948.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	C	10.94	1.492123	0.26774	.	.	ENSG00000198300	ENST00000326441;ENST00000423103	T;T	0.02890	4.12;4.12	3.99	3.99	0.46301	.	0.000000	0.47852	D	0.000214	T	0.08268	0.0206	M	0.68593	2.085	.	.	.	P;D;D	0.89917	0.663;1.0;1.0	B;D;D	0.85130	0.185;0.997;0.997	T	0.11941	-1.0567	9	0.02654	T	1	-28.6785	7.7783	0.29049	0.0:0.8895:0.0:0.1105	.	812;936;871	A7E2B8;Q9GZU2;Q96Q96	.;PEG3_HUMAN;.	H	936	ENSP00000326581:R936H;ENSP00000403051:R936H	ENSP00000326581:R936H	R	-	2	0	ZIM2	62018815	0.980000	0.34600	1.000000	0.80357	0.998000	0.95712	2.527000	0.45615	2.539000	0.85634	0.655000	0.94253	CGT		0.448	PEG3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416099.2			T	57327003	C	T	57327003	3	4	684	1	0	0	0	0	1	0	0	0	11727	536	19	1	1963	1	PEG3	19	57327003	Missense_Mutation	SNP	C	TCGA-KO-8414-01A-11D-2310-10	41487313	57327003	1801980	52	44326										
ZNF814	730051	mdanderson.org	37	chr19	58385790	58385790	+	Missense_Mutation	SNP	G	G	T													0	0	1	0	0	0	1	1	0	cacattctccacattcataaGgtcttttcccagtgtgaact					rs111727691		TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr19:58385790G>T	ENST00000435989.2	-	3	1202	c.968C>A	c.(967-969)cCt>cAt	p.P323H	ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000595295.1_Intron|ZNF814_ENST00000597342.1_Intron|ZNF814_ENST00000597832.1_Intron|ZNF814_ENST00000596604.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	323					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						ACATTCATAAGGTCTTTTCCC	0.358																																																0													15	12	13					19																	58385790		688	1563	2251	SO:0001583	missense	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.968C>A	19.37:g.58385790G>T	ENSP00000410545:p.Pro323His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF35	Missense_Mutation	SNP	ENST00000435989.2	37	CCDS46212.1	.	.	.	.	.	.	.	.	.	.	.	8.139	0.784825	0.16189	.	.	ENSG00000204514	ENST00000435989	T	0.29397	1.57	2.27	1.18	0.20946	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.57080	0.2029	M	0.90019	3.08	0.20764	N	0.999853	D	0.89917	1.0	D	0.67231	0.95	T	0.46247	-0.9205	9	0.66056	D	0.02	.	9.258	0.37595	0.0:0.0:0.7811:0.2189	.	323	B7Z6K7	ZN814_HUMAN	H	323	ENSP00000410545:P323H	ENSP00000410545:P323H	P	-	2	0	ZNF814	63077602	0.000000	0.05858	0.028000	0.17463	0.016000	0.09150	-0.439000	0.06897	0.330000	0.23485	-1.407000	0.01130	CCT		0.358	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		T	58385790	G	T	58385790	3	4	684	1	0	0	0	0	1	0	0	0	18188	1000	35	4	1603	4	ZNF814	19	58385790	Missense_Mutation	SNP	G	TCGA-KO-8414-01A-11D-2310-10	1058787	58385790	743193	53	44327	469	3								
ZNF814	730051	mdanderson.org	37	chr19	58385793	58385793	+	Missense_Mutation	SNP	C	C	T													0	0	1	0	0	0	1	1	0	attctccacattcataaggtCttttcccagtgtgaactctc					rs113623532		TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr19:58385793C>T	ENST00000435989.2	-	3	1199	c.965G>A	c.(964-966)aGa>aAa	p.R322K	ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000595295.1_Intron|ZNF814_ENST00000597342.1_Intron|ZNF814_ENST00000597832.1_Intron|ZNF814_ENST00000596604.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	322					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						TTCATAAGGTCTTTTCCCAGT	0.358																																																0													15	12	13					19																	58385793		687	1562	2249	SO:0001583	missense	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.965G>A	19.37:g.58385793C>T	ENSP00000410545:p.Arg322Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF35	Missense_Mutation	SNP	ENST00000435989.2	37	CCDS46212.1	.	.	.	.	.	.	.	.	.	.	.	0.023	-1.395361	0.01175	.	.	ENSG00000204514	ENST00000435989	T	0.12361	2.69	2.27	9.47E-4	0.14044	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.03608	0.0103	N	0.02225	-0.63	0.09310	N	0.999999	B	0.29301	0.241	B	0.28916	0.096	T	0.40534	-0.9558	9	0.02654	T	1	.	4.6969	0.12808	0.0:0.4166:0.0:0.5834	.	322	B7Z6K7	ZN814_HUMAN	K	322	ENSP00000410545:R322K	ENSP00000410545:R322K	R	-	2	0	ZNF814	63077605	0.000000	0.05858	0.024000	0.17045	0.009000	0.06853	-1.883000	0.01623	0.331000	0.23511	-1.381000	0.01174	AGA		0.358	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		T	58385793	C	T	58385793	3	4	684	1	0	0	0	0	1	0	0	0	18188	913	32	2	1606	2	ZNF814	19	58385793	Missense_Mutation	SNP	C	TCGA-KO-8414-01A-11D-2310-10	3	58385793	743190	54	44328	469	3								
ZNF814	730051	mdanderson.org	37	chr19	58385798	58385799	+	Missense_Mutation	DNP	CC	CC	TT													0	0	1	0	0	0	1	1	0	ccacattcataaggtcttttCccagtgtgaactctctgatg							TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr19:58385798_58385799CC>TT	ENST00000435989.2	-	3	1193_1194	c.959_960GG>AA	c.(958-960)gGG>gAA	p.G320E	ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000595295.1_Intron|ZNF814_ENST00000597342.1_Intron|ZNF814_ENST00000597832.1_Intron|ZNF814_ENST00000596604.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	320					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.G320E(1)|p.G320G(1)		NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						AAGGTCTTTTCCCAGTGTGAAC	0.356																																																2	Substitution - Missense(1)|Substitution - coding silent(1)	central_nervous_system(2)																																								SO:0001583	missense	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.959_960delinsTT	19.37:g.58385798_58385799delinsTT	ENSP00000410545:p.Gly320Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF35	Missense_Mutation	DNP	ENST00000435989.2	37	CCDS46212.1																																																																																				0.356	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		TT	58385799	CC	TT	58385798	3	4	684	1	0	0	0	0	1	0	0	0	18188	842	30	2	1611	2	ZNF814	19	58385798	Missense_Mutation	DNP	CC	TCGA-KO-8414-01A-11D-2310-10	5	58385798	743185	55	44329	469	3								
TMEM90B	79953	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr20	24646034	24646034	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ccaggccagcaccagctcccGgcgggccctattcctggcag	12	18	0	0			TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr20:24646034G>A	ENST00000376862.3	+	4	1304	c.671G>A	c.(670-672)cGg>cAg	p.R224Q		NM_024893.1	NP_079169.1	Q9H7V2	SYNG1_HUMAN	synapse differentiation inducing 1	224					intracellular protein transport (GO:0006886)|positive regulation of synapse assembly (GO:0051965)|response to biotic stimulus (GO:0009607)|synaptic vesicle clustering (GO:0097091)	cell body (GO:0044297)|cell junction (GO:0030054)|dendritic shaft (GO:0043198)|dendritic spine (GO:0043197)|early endosome membrane (GO:0031901)|excitatory synapse (GO:0060076)|integral component of plasma membrane (GO:0005887)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)	glutamate receptor binding (GO:0035254)|protein homodimerization activity (GO:0042803)			breast(2)|endometrium(1)|large_intestine(3)|lung(14)|prostate(1)|skin(3)	24						ACCAGCTCCCGGCGGGCCCTA	0.587																																																0													124	135	132					20																	24646034		2203	4300	6503	SO:0001583	missense	79953			AK024282	CCDS13164.1	20p11.21	2011-06-30	2011-06-30	2011-06-30	ENSG00000101463	ENSG00000101463			15885	protein-coding gene	gene with protein product	"interferon induced transmembrane protein domain containing 5", "synapse differentiation induced gene 1"	614311	"chromosome 20 open reading frame 39", "transmembrane protein 90B"	C20orf39, TMEM90B		20152115	Standard	NM_024893		Approved	FLJ14220, IFITMD5, SynDIG1	uc002wtw.1	Q9H7V2	OTTHUMG00000032104	ENST00000376862.3:c.671G>A	20.37:g.24646034G>A	ENSP00000366058:p.Arg224Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IA30|Q9H514	Missense_Mutation	SNP	ENST00000376862.3	37	CCDS13164.1	.	.	.	.	.	.	.	.	.	.	G	37	5.981175	0.97168	.	.	ENSG00000101463	ENST00000376862	D	0.86497	-2.13	5.75	5.75	0.90469	.	0.000000	0.85682	D	0.000000	D	0.90528	0.7032	L	0.36672	1.1	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.90420	0.4416	10	0.51188	T	0.08	-38.2043	17.4359	0.87552	0.0:0.0:1.0:0.0	.	224	Q9H7V2	SYNG1_HUMAN	Q	224	ENSP00000366058:R224Q	ENSP00000366058:R224Q	R	+	2	0	SYNDIG1	24594034	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.529000	0.98049	2.714000	0.92807	0.561000	0.74099	CGG		0.587	SYNDIG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078376.1	NM_024893		A	24646034	G	A	24646034	3	1	684	1	0	0	0	0	1	0	0	0	16231	1116	39	1	681	1	TMEM90B	20	24646034	Missense_Mutation	SNP	G	TCGA-KO-8414-01A-11D-2310-10		24646034	38379486	56	44330										
NCOA3	8202	mdanderson.org	37	chr20	46279827	46279827	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	atgatgatgcagcagcagcaGcagcagcaacagcagcagca	12	11	0	2	rs6018623	byFrequency	TCGA-KO-8414-01A-11D-2310-10	TCGA-KO-8414-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2a61c3d7-f0c1-45d1-9eca-02fb72e95c13	edf00a92-13fd-4c2f-b41c-16458d1a47dd	g.chr20:46279827G>A	ENST00000371998.3	+	20	3944	c.3753G>A	c.(3751-3753)caG>caA	p.Q1251Q	NCOA3_ENST00000371997.3_Silent_p.Q1242Q|NCOA3_ENST00000372004.3_Silent_p.Q1247Q|NCOA3_ENST00000341724.6_Silent_p.Q1177Q			Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3	1251	Acetyltransferase.|Poly-Gln.				androgen receptor signaling pathway (GO:0030521)|developmental growth (GO:0048589)|histone acetylation (GO:0016573)|labyrinthine layer morphogenesis (GO:0060713)|mammary gland branching involved in thelarche (GO:0060744)|multicellular organism growth (GO:0035264)|positive regulation of gene expression (GO:0010628)|positive regulation of keratinocyte differentiation (GO:0045618)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|receptor transactivation (GO:0035624)|regulation of RNA biosynthetic process (GO:2001141)|transcription, DNA-templated (GO:0006351)|vagina development (GO:0060068)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|chromatin binding (GO:0003682)|histone acetyltransferase activity (GO:0004402)|ligand-dependent nuclear receptor binding (GO:0016922)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|nuclear hormone receptor binding (GO:0035257)|protein N-terminus binding (GO:0047485)|signal transducer activity (GO:0004871)|thyroid hormone receptor binding (GO:0046966)|transcription coactivator activity (GO:0003713)			breast(3)|endometrium(3)|kidney(4)|large_intestine(12)|lung(19)|ovary(4)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	52						agcagcagcagcagcagcaac	0.552													G|||	876	0.17492	0.1906	0.1571	5008	,	,		14950	0.1617		0.1928	False		,,,				2504	0.1616															0								G	,,,	850,3556	326.4+/-299.6	85,680,1438	49	55	53		3750,3726,3741,3753	4.4	1	20	dbSNP_114	53	959,7641	191.8+/-238.0	90,779,3431	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	NCOA3	NM_001174087.1,NM_001174088.1,NM_006534.3,NM_181659.2	,,,	175,1459,4869	AA,AG,GG		11.1512,19.2919,13.909	,,,	1250/1424,1242/1416,1247/1421,1251/1425	46279827	1809,11197	2203	4300	6503	SO:0001819	synonymous_variant	8202			AF012108	CCDS13406.1, CCDS13407.1, CCDS54472.1	20q12	2011-07-01			ENSG00000124151	ENSG00000124151		"Chromatin-modifying enzymes / K-acetyltransferases", "Basic helix-loop-helix proteins"	7670	protein-coding gene	gene with protein product	"receptor-associated coactivator 3", "thyroid hormone receptor activator molecule 1"	601937				9252329, 9346901	Standard	NM_181659		Approved	RAC3, AIB1, ACTR, p/CIP, TRAM-1, CAGH16, TNRC16, KAT13B, bHLHe42, SRC-3, SRC3	uc002xtk.3	Q9Y6Q9	OTTHUMG00000033061	ENST00000371998.3:c.3753G>A	20.37:g.46279827G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4LAZ5|Q0VF45|Q5JYD9|Q5JYE0|Q9BR49|Q9UPC9|Q9UPG4|Q9UPG7	Silent	SNP	ENST00000371998.3	37	CCDS13407.1																																																																																				0.552	NCOA3-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000080405.1	NM_006534		A	46279827	G	A	46279827	2	1	684	1	0	0	0	0	0	0	0	1	10237	962	34	2		2	NCOA3	20	46279827	Silent	SNP	G	TCGA-KO-8414-01A-11D-2310-10	21633793	46279827	16745693	57	44331										
UBXN11	91544	mdanderson.org	37	chr1	26608828	26608828	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gggtccaggacagggactggGgccgggaccgggaccgggac	21	11	0	0	rs66614970|rs1134584	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr1:26608828G>A	ENST00000374222.1	-	16	1989	c.1525C>T	c.(1525-1527)Ccc>Tcc	p.P509S	UBXN11_ENST00000314675.7_Missense_Mutation_p.P389S|UBXN11_ENST00000357089.4_Missense_Mutation_p.P476S|UBXN11_ENST00000374223.1_Missense_Mutation_p.P266S|UBXN11_ENST00000374221.3_Missense_Mutation_p.P509S|UBXN11_ENST00000374217.2_Missense_Mutation_p.P476S			Q5T124	UBX11_HUMAN	UBX domain protein 11	509	3 X 8 AA tandem repeats of P-G-P-G-P-G-P- S.|Pro-rich.		P -> S (in dbSNP:rs17838088). {ECO:0000269|PubMed:14702039, ECO:0000269|Ref.2}.			cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)		p.G490_P515delGPGPSPGPGPGPSPGPGPGPSPCPGP(1)		endometrium(3)|kidney(2)|large_intestine(4)|lung(6)|ovary(2)|prostate(3)|upper_aerodigestive_tract(3)	23						cagggactggggccgggaccg	0.716													-|||	1970	0.393371	0.3555	0.402	5008	,	,		9393	0.3095		0.6292	False		,,,				2504	0.2822															1	Deletion - In frame(1)	ovary(1)						G	SER/PRO,SER/PRO,SER/PRO	1653,1827		423,807,510	15	18	17		1525,1426,1165		0.1	1	dbSNP_86	17	5288,2624		1813,1662,481	yes	missense,missense,missense	UBXN11	NM_183008.2,NM_145345.2,NM_001077262.1	74,74,74	2236,2469,991	AA,AG,GG		33.1648,47.5,39.0713	,,	509/521,476/488,389/401	26608828	6941,4451	1740	3956	5696	SO:0001583	missense	91544			AF521017	CCDS41286.1, CCDS41287.1, CCDS41288.1	1p36.11	2008-07-25	2008-07-25	2008-07-25	ENSG00000158062	ENSG00000158062		"UBX domain containing"	30600	protein-coding gene	gene with protein product	"socius"	609151	"UBX domain containing 5"	UBXD5		11940653	Standard	NM_183008		Approved	SOC, SOCI	uc001blw.3	Q5T124	OTTHUMG00000003382	ENST00000374222.1:c.1525C>T	1.37:g.26608828G>A	ENSP00000363339:p.Pro509Ser	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPK6|Q5T117|Q5T120|Q5T125|Q5T126|Q5T129|Q5T131|Q5T133|Q63HM6|Q71RB3|Q8IY27|Q8N1L6|Q8N9M4|Q8NA18|Q8NFE3|Q8NFE4|Q8NFE6	Missense_Mutation	SNP	ENST00000374222.1	37	CCDS41288.1	816	0.37362637362637363	167	0.3394308943089431	127	0.35082872928176795	149	0.26048951048951047	373	0.4920844327176781	-	0.571	-0.841059	0.02692	0.475	0.668352	ENSG00000158062	ENST00000314675;ENST00000374223;ENST00000357089;ENST00000374221;ENST00000374222;ENST00000374217	T;T;T;T;T;T	0.22945	2.0;1.93;1.95;2.0;2.0;1.95	.	.	.	.	0.324999	0.15808	U	0.243645	T	0.00012	0.0000	N	0.24115	0.695	0.54753	P	1.4999999999987246E-5	.	.	.	.	.	.	T	0.23261	-1.0193	5	0.36615	T	0.2	.	.	.	.	rs3196815	476;389;509	Q5T124-2;Q5T124-3;Q5T124	.;.;UBX11_HUMAN	S	389;266;476;509;509;476	ENSP00000324721:P389S;ENSP00000363340:P266S;ENSP00000349601:P476S;ENSP00000363338:P509S;ENSP00000363339:P509S;ENSP00000363334:P476S	ENSP00000324721:P389S	P	-	1	0	UBXN11	26481415	0.000000	0.05858	0.140000	0.22221	0.152000	0.21847	-0.877000	0.04197	0.064000	0.16427	0.064000	0.15345	CCC		0.716	UBXN11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000009500.1	NM_145345		A	26608828	G	A	26608828	3	1	685	1	0	0	0	0	1	0	0	0	16925	1232	43	2	41	2	UBXN11	1	26608828	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10		26608828	222641793	1	44332										
NASP	4678	mdanderson.org	37	chr1	46073361	46073362	+	Missense_Mutation	DNP	CA	CA	TG													0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	agtgcagagaaaaaggaggtCaggagaagcagggagaggta					rs78094239|rs75187774	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr1:46073361_46073362CA>TG	ENST00000350030.3	+	6	865_866	c.778_779CA>TG	c.(778-780)CAg>TGg	p.Q260W	NASP_ENST00000372052.4_Intron|NASP_ENST00000537798.1_Missense_Mutation_p.Q196W|NASP_ENST00000402363.3_Missense_Mutation_p.Q262W|NASP_ENST00000351223.3_Intron	NM_002482.3	NP_002473.2	P49321	NASP_HUMAN	nuclear autoantigenic sperm protein (histone-binding)	260	Glu-rich (acidic).				blastocyst development (GO:0001824)|cell cycle (GO:0007049)|cell proliferation (GO:0008283)|DNA replication (GO:0006260)|DNA replication-dependent nucleosome assembly (GO:0006335)|DNA replication-independent nucleosome assembly (GO:0006336)|histone exchange (GO:0043486)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|protein complex (GO:0043234)	Hsp90 protein binding (GO:0051879)			breast(1)|cervix(1)|endometrium(1)|large_intestine(2)|lung(6)|ovary(1)|pancreas(1)|prostate(3)|skin(1)	17	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.211)					AAAAGGAGGTCAGGAGAAGCAG	0.48																																																0																																										SO:0001583	missense	4678			M97856	CCDS524.1, CCDS525.1, CCDS55597.1	1p34.1	2013-01-10			ENSG00000132780	ENSG00000132780		"Tetratricopeptide (TTC) repeat domain containing"	7644	protein-coding gene	gene with protein product		603185				1426632	Standard	NM_002482		Approved	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999	uc001coi.2	P49321	OTTHUMG00000007826	Exception_encountered	1.37:g.46073361_46073362delinsTG	ENSP00000255120:p.Gln260Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6H2|B4DQP3|D3DQ07|F5H3J2|Q53GW5|Q5T622|Q5T625|Q96A69|Q9BTW2	Missense_Mutation	DNP	ENST00000350030.3	37	CCDS524.1																																																																																				0.48	NASP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000021533.2	NM_002482		TG	46073362	CA	TG	46073361	3	4	685	1	0	0	0	0	1	0	0	0	10179	827	29	2	877	2	NASP	1	46073361	Missense_Mutation	DNP	CA	TCGA-KO-8415-01A-11D-2310-10	19464533	46073361	203177260	2	44333			1	132		2	2	13	N	G_CA	3.062292e-05
NASP	4678	mdanderson.org	37	chr1	46073373	46073373	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	aaggaggtcaggagaagcagGgagaggtaattgtgagcata	17	3	1	3	rs199792714	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr1:46073373G>A	ENST00000350030.3	+	6	877	c.790G>A	c.(790-792)Gga>Aga	p.G264R	NASP_ENST00000372052.4_Intron|NASP_ENST00000537798.1_Missense_Mutation_p.G200R|NASP_ENST00000402363.3_Missense_Mutation_p.G266R|NASP_ENST00000351223.3_Intron	NM_002482.3	NP_002473.2	P49321	NASP_HUMAN	nuclear autoantigenic sperm protein (histone-binding)	264	Glu-rich (acidic).				blastocyst development (GO:0001824)|cell cycle (GO:0007049)|cell proliferation (GO:0008283)|DNA replication (GO:0006260)|DNA replication-dependent nucleosome assembly (GO:0006335)|DNA replication-independent nucleosome assembly (GO:0006336)|histone exchange (GO:0043486)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|protein complex (GO:0043234)	Hsp90 protein binding (GO:0051879)			breast(1)|cervix(1)|endometrium(1)|large_intestine(2)|lung(6)|ovary(1)|pancreas(1)|prostate(3)|skin(1)	17	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.211)					GGAGAAGCAGGGAGAGGTAAT	0.478																																																0													44	47	46					1																	46073373		2203	4300	6503	SO:0001583	missense	4678			M97856	CCDS524.1, CCDS525.1, CCDS55597.1	1p34.1	2013-01-10			ENSG00000132780	ENSG00000132780		"Tetratricopeptide (TTC) repeat domain containing"	7644	protein-coding gene	gene with protein product		603185				1426632	Standard	NM_002482		Approved	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999	uc001coi.2	P49321	OTTHUMG00000007826	ENST00000350030.3:c.790G>A	1.37:g.46073373G>A	ENSP00000255120:p.Gly264Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6H2|B4DQP3|D3DQ07|F5H3J2|Q53GW5|Q5T622|Q5T625|Q96A69|Q9BTW2	Missense_Mutation	SNP	ENST00000350030.3	37	CCDS524.1	.	.	.	.	.	.	.	.	.	.	G	22.6	4.306595	0.81247	.	.	ENSG00000132780	ENST00000537798;ENST00000402363;ENST00000341288;ENST00000350030;ENST00000470768	D;D;D;D	0.94650	-3.48;-3.48;-3.48;-3.48	5.37	5.37	0.77165	.	0.623202	0.16964	N	0.192395	D	0.93615	0.7961	L	0.32530	0.975	0.43412	D	0.995555	P;P;D;P;P	0.53619	0.928;0.933;0.961;0.883;0.919	P;P;P;B;B	0.50405	0.565;0.542;0.64;0.231;0.408	D	0.92054	0.5651	9	.	.	.	-3.2525	20.0097	0.97446	0.0:0.0:1.0:0.0	.	200;264;164;264;266	F5H3J2;Q53H03;B4DS57;P49321;P49321-3	.;.;.;NASP_HUMAN;.	R	200;266;164;264;227	ENSP00000438871:G200R;ENSP00000384529:G266R;ENSP00000255120:G264R;ENSP00000436924:G227R	.	G	+	1	0	NASP	45845960	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	1.877000	0.39598	2.902000	0.99343	0.650000	0.86243	GGA		0.478	NASP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000021533.2	NM_002482		A	46073373	G	A	46073373	3	1	685	1	0	0	0	0	1	0	0	0	10179	1233	43	2	889	2	NASP	1	46073373	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10	12	46073373	203177248	3	44334			1	132		2	2	13	N	G_CA	3.062292e-05
FAM189B	10712	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr1	155224214	155224214	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	tagagtgaatggccgcttccAggacacaatgccaaccaccc	9	14	0	2			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr1:155224214A>T	ENST00000361361.2	-	2	768	c.259T>A	c.(259-261)Tgg>Agg	p.W87R	SCAMP3_ENST00000472397.1_5'Flank|FAM189B_ENST00000350210.2_Intron|FAM189B_ENST00000368368.3_Intron|FAM189B_ENST00000472550.1_5'UTR	NM_006589.2	NP_006580.2	P81408	F189B_HUMAN	family with sequence similarity 189, member B	87						integral component of membrane (GO:0016021)	WW domain binding (GO:0050699)			breast(4)|central_nervous_system(1)|endometrium(3)|large_intestine(4)|lung(6)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	23						GGCCGCTTCCAGGACACAATG	0.632																																																0													76	76	76					1																	155224214		2203	4300	6503	SO:0001583	missense	10712			AF070550	CCDS1103.1, CCDS1104.1, CCDS58035.1	1q21	2009-07-09	2009-07-09	2009-07-09	ENSG00000160767	ENSG00000160767			1233	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 2"	C1orf2		9331372	Standard	NM_006589		Approved	cote1	uc001fjm.3	P81408	OTTHUMG00000035844	ENST00000361361.2:c.259T>A	1.37:g.155224214A>T	ENSP00000354958:p.Trp87Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B1AVS5|Q8IXL3|Q9BR66	Missense_Mutation	SNP	ENST00000361361.2	37	CCDS1103.1	.	.	.	.	.	.	.	.	.	.	A	22.1	4.240778	0.79912	.	.	ENSG00000160767	ENST00000361361	T	0.02258	4.37	4.46	4.46	0.54185	.	0.000000	0.64402	D	0.000001	T	0.05960	0.0155	M	0.65975	2.015	0.46298	D	0.99897	D	0.76494	0.999	D	0.87578	0.998	T	0.05338	-1.0891	10	0.87932	D	0	.	11.9955	0.53201	1.0:0.0:0.0:0.0	.	87	P81408	F189B_HUMAN	R	87	ENSP00000354958:W87R	ENSP00000354958:W87R	W	-	1	0	FAM189B	153490838	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.248000	0.78268	1.989000	0.58080	0.459000	0.35465	TGG		0.632	FAM189B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087224.1	NM_006589		T	155224214	A	T	155224214	3	4	685	1	0	0	0	0	1	0	0	0	5521	188	7	5	1791	5	FAM189B	1	155224214	Missense_Mutation	SNP	A	TCGA-KO-8415-01A-11D-2310-10	109150841	155224214	94026407	4	44335										
FAM5C	339479	hgsc.bcm.edu;ucsc.edu	37	chr1	190067565	190067565	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gacttgatgcgacttctcagGtagatgtgtactgtctcaaa	10	8	2	2			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr1:190067565G>A	ENST00000367462.3	-	8	2115	c.1884C>T	c.(1882-1884)taC>taT	p.Y628Y	BRINP3_ENST00000534846.1_Silent_p.Y526Y	NM_199051.1	NP_950252.1	Q76B58	BRNP3_HUMAN	bone morphogenetic protein/retinoic acid inducible neural-specific 3	628					cell cycle arrest (GO:0007050)|cellular response to retinoic acid (GO:0071300)|negative regulation of mitotic cell cycle (GO:0045930)|positive regulation of neuron differentiation (GO:0045666)	dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|mitochondrion (GO:0005739)|neuronal cell body (GO:0043025)											GACTTCTCAGGTAGATGTGTA	0.453																																																0													223	233	230					1																	190067565		2203	4300	6503	SO:0001819	synonymous_variant	339479			AB111893	CCDS1373.1	1q31.1	2013-09-18	2013-09-18	2013-09-18	ENSG00000162670	ENSG00000162670			22393	protein-coding gene	gene with protein product			"family with sequence similarity 5, member C"	FAM5C		16018821, 15193423	Standard	NM_199051		Approved	DBCCR1L, DBCCR1L1	uc001gse.1	Q76B58	OTTHUMG00000035533	ENST00000367462.3:c.1884C>T	1.37:g.190067565G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KVP1|B7Z260|O95726|Q2M330	Silent	SNP	ENST00000367462.3	37	CCDS1373.1																																																																																				0.453	BRINP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086278.1	NM_199051		A	190067565	G	A	190067565	2	1	685	1	0	0	0	0	0	0	0	1	5601	1256	44	2		2	FAM5C	1	190067565	Silent	SNP	G	TCGA-KO-8415-01A-11D-2310-10	34843351	190067565	59183056	5	44336										
OR14C36	127066	mdanderson.org	37	chr1	248512749	248512749	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	acatcttttcgaccgtgctcGggtttccaagaggagcagac	11	11	1	2	rs28377739	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr1:248512749G>A	ENST00000317861.1	+	1	673	c.673G>A	c.(673-675)Ggg>Agg	p.G225R		NM_001001918.1	NP_001001918.1	Q8NHC7	O14CZ_HUMAN	olfactory receptor, family 14, subfamily C, member 36	225			G -> R (in dbSNP:rs28377739).			integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			central_nervous_system(1)|endometrium(2)|large_intestine(4)|liver(2)|lung(20)|ovary(2)|prostate(3)|skin(7)|upper_aerodigestive_tract(2)	43						GACCGTGCTCGGGTTTCCAAG	0.498													a|||	2306	0.460463	0.3601	0.4885	5008	,	,		19309	0.4315		0.5239	False		,,,				2504	0.5409															0								A	ARG/GLY	1764,2642	643.9+/-397.9	352,1060,791	191	146	161		673	1.2	0	1	dbSNP_125	161	4894,3706	530.1+/-381.7	1390,2114,796	yes	missense	OR14C36	NM_001001918.1	125	1742,3174,1587	AA,AG,GG		43.093,40.0363,48.8082	benign	225/313	248512749	6658,6348	2203	4300	6503	SO:0001583	missense	127066			BK004466	CCDS31112.1	1q44	2012-08-09	2008-04-02	2008-04-02	ENSG00000177174	ENSG00000177174		"GPCR / Class A : Olfactory receptors"	15026	protein-coding gene	gene with protein product			"olfactory receptor, family 5, subfamily BF, member 1"	OR5BF1			Standard	NM_001001918		Approved		uc010pzl.2	Q8NHC7	OTTHUMG00000040463	ENST00000317861.1:c.673G>A	1.37:g.248512749G>A	ENSP00000324534:p.Gly225Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IEZ6	Missense_Mutation	SNP	ENST00000317861.1	37	CCDS31112.1	1006	0.4606227106227106	169	0.3434959349593496	179	0.494475138121547	253	0.4423076923076923	405	0.5343007915567283	A	0.005	-2.203520	0.00296	0.400363	0.56907	ENSG00000177174	ENST00000317861	T	0.00019	9.06	3.91	1.2	0.21068	GPCR, rhodopsin-like superfamily (1);	0.422559	0.19555	N	0.111462	T	0.00012	0.0000	N	0.00227	-1.8	0.80722	P	0.0	B	0.09022	0.002	B	0.01281	0.0	T	0.37776	-0.9691	9	0.02654	T	1	.	6.3589	0.21417	0.6176:0.2982:0.0841:0.0	rs28377739	225	Q8NHC7	O14CZ_HUMAN	R	225	ENSP00000324534:G225R	ENSP00000324534:G225R	G	+	1	0	OR14C36	246579372	0.000000	0.05858	0.035000	0.18076	0.144000	0.21451	0.145000	0.16157	0.101000	0.17610	-1.086000	0.02197	GGG		0.498	OR14C36-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097359.1	NM_001001918		A	248512749	G	A	248512749	3	1	685	1	0	0	0	0	1	0	0	0	10953	1116	39	1	675	1	OR14C36	1	248512749	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10	58445184	248512749	737872	6	44337										
XDH	7498	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr2	31621476	31621476	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	atctcctccatggtgggctcGggctgattccggagcagtgt	14	11	1	1			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr2:31621476G>A	ENST00000379416.3	-	5	444	c.396C>T	c.(394-396)ccC>ccT	p.P132P		NM_000379.3	NP_000370.2	P47989	XDH_HUMAN	xanthine dehydrogenase	132					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|lactation (GO:0007595)|negative regulation of endothelial cell differentiation (GO:0045602)|negative regulation of endothelial cell proliferation (GO:0001937)|negative regulation of gene expression (GO:0010629)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of vascular endothelial growth factor signaling pathway (GO:1900747)|negative regulation of vasculogenesis (GO:2001213)|nucleobase-containing small molecule metabolic process (GO:0055086)|positive regulation of p38MAPK cascade (GO:1900745)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|purine nucleobase metabolic process (GO:0006144)|purine nucleotide catabolic process (GO:0006195)|small molecule metabolic process (GO:0044281)|xanthine catabolic process (GO:0009115)	cytosol (GO:0005829)|extracellular space (GO:0005615)|peroxisome (GO:0005777)	2 iron, 2 sulfur cluster binding (GO:0051537)|electron carrier activity (GO:0009055)|flavin adenine dinucleotide binding (GO:0050660)|iron ion binding (GO:0005506)|molybdopterin cofactor binding (GO:0043546)|protein homodimerization activity (GO:0042803)|UDP-N-acetylmuramate dehydrogenase activity (GO:0008762)|xanthine dehydrogenase activity (GO:0004854)|xanthine oxidase activity (GO:0004855)			breast(3)|central_nervous_system(2)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(13)|lung(31)|ovary(1)|pancreas(1)|prostate(3)|skin(9)|urinary_tract(1)	74	Acute lymphoblastic leukemia(172;0.155)				Aldesleukin(DB00041)|Allopurinol(DB00437)|Azathioprine(DB00993)|Carboplatin(DB00958)|Carvedilol(DB01136)|Chlorphenesin(DB00856)|Cisplatin(DB00515)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Doxorubicin(DB00997)|Flavin adenine dinucleotide(DB03147)|L-Carnitine(DB00583)|Menadione(DB00170)|Mercaptopurine(DB01033)|Nitrofural(DB00336)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Spermine(DB00127)|Trifluoperazine(DB00831)	TGGTGGGCTCGGGCTGATTCC	0.567																																					Colon(66;682 1445 30109 40147)											0													130	123	125					2																	31621476		2203	4300	6503	SO:0001819	synonymous_variant	7498			D11456	CCDS1775.1	2p23.1	2009-07-10	2003-03-20		ENSG00000158125	ENSG00000158125	1.17.1.4		12805	protein-coding gene	gene with protein product		607633	"xanthene dehydrogenase"			8224915	Standard	NM_000379		Approved	XOR, XO	uc002rnv.1	P47989	OTTHUMG00000099385	ENST00000379416.3:c.396C>T	2.37:g.31621476G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q16681|Q16712|Q4PJ16	Silent	SNP	ENST00000379416.3	37	CCDS1775.1																																																																																				0.567	XDH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216840.1	NM_000379		A	31621476	G	A	31621476	2	1	685	1	0	0	0	0	0	0	0	1	17438	1103	39	1		1	XDH	2	31621476	Silent	SNP	G	TCGA-KO-8415-01A-11D-2310-10		31621476	211577897	7	44338										
TEKT4	150483	mdanderson.org	37	chr2	95539855	95539855	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ccaccaccttccaagagaggTgggccccagctctgcccctg	10	18	1	1	rs201662522	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr2:95539855T>G	ENST00000295201.4	+	3	850		c.e3+2		AC097374.2_ENST00000568768.1_RNA	NM_144705.2	NP_653306.1	Q8WW24	TEKT4_HUMAN	tektin 4						cell projection organization (GO:0030030)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|motile cilium (GO:0031514)|nucleus (GO:0005634)				NS(1)|breast(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(15)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	28						CCAAGAGAGGTGGGCCCCAGC	0.682																																																0													56	54	55					2																	95539855		2203	4300	6503	SO:0001630	splice_region_variant	150483			AK097438	CCDS2005.1	2q11.2	2008-02-05			ENSG00000163060	ENSG00000163060			31012	protein-coding gene	gene with protein product							Standard	XM_005263876		Approved	MGC27019	uc002stw.1	Q8WW24	OTTHUMG00000130396	ENST00000295201.4:c.713+2T>G	2.37:g.95539855T>G		Somatic		WXS	Illumina HiSeq	Phase_I		Splice_Site	SNP	ENST00000295201.4	37	CCDS2005.1	.	.	.	.	.	.	.	.	.	.	.	13.70	2.316724	0.40996	.	.	ENSG00000163060	ENST00000295201	.	.	.	2.24	2.24	0.28232	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	8.0143	0.30372	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	TEKT4	94903582	1.000000	0.71417	0.603000	0.28903	0.057000	0.15508	4.740000	0.62087	0.779000	0.33543	0.254000	0.18369	.		0.682	TEKT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252777.1	NM_144705	Intron	G	95539855	T	G	95539855	5	3	685	1	0	0	0	0	0	0	1	0	15767	1710	59	5	725	5	TEKT4	2	95539855	Splice_Site	SNP	T	TCGA-KO-8415-01A-11D-2310-10	63918379	95539855	147659518	8	44339										
GTDC1	79712	broad.mit.edu	37	chr2	144765015	144765015	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	tctctctgctctggctgaaaAggaagggccatggacagaac	12	10	3	2			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr2:144765015A>G	ENST00000392869.2	-	6	761	c.609T>C	c.(607-609)ccT>ccC	p.P203P	GTDC1_ENST00000392867.3_Silent_p.P203P|GTDC1_ENST00000344850.4_Silent_p.P203P|GTDC1_ENST00000241391.5_Silent_p.P203P|GTDC1_ENST00000463875.2_Silent_p.P74P|GTDC1_ENST00000542155.1_Silent_p.P203P|GTDC1_ENST00000409214.1_Silent_p.P203P|GTDC1_ENST00000409298.1_Intron	NM_001284234.1	NP_001271163.1	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	203					biosynthetic process (GO:0009058)		transferase activity, transferring glycosyl groups (GO:0016757)			central_nervous_system(1)|endometrium(1)|large_intestine(4)|liver(1)|lung(17)|ovary(1)	25				BRCA - Breast invasive adenocarcinoma(221;0.0914)		CTGGCTGAAAAGGAAGGGCCA	0.423																																																0													77	78	77					2																	144765015		2203	4300	6503	SO:0001819	synonymous_variant	79712			AY281366	CCDS2185.1, CCDS33300.1, CCDS63029.1, CCDS74582.1, CCDS74583.1	2q22.3	2013-02-22			ENSG00000121964	ENSG00000121964		"Glycosyltransferase group 1 domain containing"	20887	protein-coding gene	gene with protein product	"mannosyltransferase-like"	610165				15068588, 21821951	Standard	NM_024659		Approved	FLJ11753, Hmat-Xa	uc010fnn.3	Q4AE62	OTTHUMG00000131835	ENST00000392869.2:c.609T>C	2.37:g.144765015A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5P2|D3DP81|Q53SM7|Q53TC5|Q6P7E7|Q6PJB6|Q6WKW6|Q9HAE5	Silent	SNP	ENST00000392869.2	37	CCDS33300.1																																																																																				0.423	GTDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254779.2	NM_024659		G	144765015	A	G	144765015	2	3	685	1	0	0	0	0	0	0	0	1	6858	59	3	3		3	GTDC1	2	144765015	Silent	SNP	A	TCGA-KO-8415-01A-11D-2310-10	49225160	144765015	98434358	9	44340										
TNS1	7145	broad.mit.edu	37	chr2	218713275	218713275	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	agggcctctgggtagcccccCtcactggtgttggtgacccc	13	15	2	1			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr2:218713275C>T	ENST00000171887.4	-	17	2042	c.1590G>A	c.(1588-1590)gaG>gaA	p.E530E	TNS1_ENST00000430930.1_Silent_p.E530E|TNS1_ENST00000419504.1_Silent_p.E530E|TNS1_ENST00000480665.1_5'UTR	NM_022648.4	NP_072174.3	Q9HBL0	TENS1_HUMAN	tensin 1	530					cell-substrate junction assembly (GO:0007044)|fibroblast migration (GO:0010761)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|focal adhesion (GO:0005925)	poly(A) RNA binding (GO:0044822)			breast(2)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(23)|liver(1)|lung(24)|ovary(3)|pancreas(1)|prostate(3)|skin(5)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	79		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GGTAGCCCCCCTCACTGGTGT	0.592																																																0													64	69	67					2																	218713275		2203	4300	6503	SO:0001819	synonymous_variant	7145			AB209238	CCDS2407.1	2q35-q36	2014-06-13	2005-05-13	2005-05-13	ENSG00000079308	ENSG00000079308		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs", "SH2 domain containing"	11973	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 155"	600076	"tensin", "matrix-remodelling associated 6"	TNS, MXRA6			Standard	NM_022648		Approved	DKFZp586K0617, PPP1R155	uc002vgt.2	Q9HBL0	OTTHUMG00000133056	ENST00000171887.4:c.1590G>A	2.37:g.218713275C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZG71|Q6IPI5	Silent	SNP	ENST00000171887.4	37	CCDS2407.1																																																																																				0.592	TNS1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256672.2	NM_022648		T	218713275	C	T	218713275	2	4	685	1	0	0	0	0	0	0	0	1	16355	680	24	2		2	TNS1	2	218713275	Silent	SNP	C	TCGA-KO-8415-01A-11D-2310-10	73948260	218713275	24486098	10	44341										
USP37	57695	broad.mit.edu	37	chr2	219350461	219350461	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	tcacaagaatactccagttcTtcggcctataaaaagaagga	7	9	2	2			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr2:219350461T>C	ENST00000258399.3	-	16	2008	c.1596A>G	c.(1594-1596)gaA>gaG	p.E532E	USP37_ENST00000415516.1_Silent_p.E460E|USP37_ENST00000418019.1_Silent_p.E532E|USP37_ENST00000475553.1_5'UTR|USP37_ENST00000454775.1_Silent_p.E532E	NM_020935.2	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	532	USP.				G1/S transition of mitotic cell cycle (GO:0000082)|mitotic nuclear division (GO:0007067)|protein deubiquitination (GO:0016579)|protein K11-linked deubiquitination (GO:0035871)|protein K48-linked deubiquitination (GO:0071108)|ubiquitin-dependent protein catabolic process (GO:0006511)	nucleus (GO:0005634)	cysteine-type endopeptidase activity (GO:0004197)|protein kinase binding (GO:0019901)|ubiquitin-specific protease activity (GO:0004843)			NS(2)|breast(3)|cervix(1)|endometrium(6)|kidney(4)|large_intestine(1)|lung(7)|ovary(2)|prostate(3)|skin(5)|stomach(1)	35		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		ACTCCAGTTCTTCGGCCTATA	0.333																																																0													104	109	107					2																	219350461		2203	4300	6503	SO:0001819	synonymous_variant	57695			AB046814	CCDS2418.1	2q35	2008-02-05	2005-08-08		ENSG00000135913	ENSG00000135913		"Ubiquitin-specific peptidases"	20063	protein-coding gene	gene with protein product			"ubiquitin specific protease 37"			12838346	Standard	NM_020935		Approved	KIAA1594	uc010fvs.1	Q86T82	OTTHUMG00000133113	ENST00000258399.3:c.1596A>G	2.37:g.219350461T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2RUQ8|B7ZM38|B7ZM41|E9PHL3|Q2KHT2|Q53S10|Q7Z3A5|Q9HCH8	Silent	SNP	ENST00000258399.3	37	CCDS2418.1																																																																																				0.333	USP37-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256779.3	NM_020935		C	219350461	T	C	219350461	2	2	685	1	0	0	0	0	0	0	0	1	17080	1606	56	3		3	USP37	2	219350461	Silent	SNP	T	TCGA-KO-8415-01A-11D-2310-10	637186	219350461	23848912	11	44342										
OR5H1	26341	broad.mit.edu	37	chr3	97851659	97851659	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	taatatatctcatcaccatcAtggggaatcttggtctgatt	7	8	5	1	rs199787047	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr3:97851659A>T	ENST00000354565.2	+	1	118	c.118A>T	c.(118-120)Atg>Ttg	p.M40L	RP11-343D2.11_ENST00000508964.1_RNA	NM_001005338.1	NP_001005338.1	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H, member 1	40						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.M40L(3)		breast(1)|endometrium(7)|kidney(8)|large_intestine(3)|lung(13)|ovary(1)|skin(1)	34						CATCACCATCATGGGGAATCT	0.413																																																3	Substitution - Missense(3)	kidney(2)|endometrium(1)											45	49	48					3																	97851659		2174	4242	6416	SO:0001583	missense	26341			X64988	CCDS33797.1	3q12.1	2012-08-09			ENSG00000231192	ENSG00000231192		"GPCR / Class A : Olfactory receptors"	8346	protein-coding gene	gene with protein product						1370859	Standard	NM_001005338		Approved	HTPCRX14, HSHTPCRX14	uc011bgt.2	A6NKK0	OTTHUMG00000160070	ENST00000354565.2:c.118A>T	3.37:g.97851659A>T	ENSP00000346575:p.Met40Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000354565.2	37	CCDS33797.1	.	.	.	.	.	.	.	.	.	.	A	3.067	-0.192020	0.06299	.	.	ENSG00000231192	ENST00000354565	T	0.00241	8.46	3.63	-0.16	0.13375	.	0.578292	0.14348	N	0.325303	T	0.00073	0.0002	N	0.04116	-0.275	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.04976	-1.0914	10	0.33940	T	0.23	.	7.0903	0.25279	0.5661:0.0:0.4339:0.0	.	40	A6NKK0	OR5H1_HUMAN	L	40	ENSP00000346575:M40L	ENSP00000346575:M40L	M	+	1	0	OR5H1	99334349	0.000000	0.05858	0.016000	0.15963	0.102000	0.19082	-3.263000	0.00535	-0.297000	0.08934	0.164000	0.16699	ATG		0.413	OR5H1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359100.2	NM_001005338		T	97851659	A	T	97851659	3	4	685	1	0	0	0	0	1	0	0	0	11166	217	8	5	120	5	OR5H1	3	97851659	Missense_Mutation	SNP	A	TCGA-KO-8415-01A-11D-2310-10		97851659	100170771	12	44343										
ARGFX	503582	bcgsc.ca	37	chr3	121304933	121304933	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gcagcaatcagcaaagcaacGaaaccagatccttccatcca	6	14	1	1	rs9813391	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr3:121304933G>A	ENST00000334384.3	+	4	444	c.434G>A	c.(433-435)cGa>cAa	p.R145Q		NM_001012659.1	NP_001012677.1	A6NJG6	ARGFX_HUMAN	arginine-fifty homeobox	145			R -> Q (in dbSNP:rs9813391).		regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)			kidney(1)|large_intestine(3)|lung(6)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	15				GBM - Glioblastoma multiforme(114;0.152)		GCAAAGCAACGAAACCAGATC	0.502													G|||	857	0.171126	0.1127	0.4438	5008	,	,		19879	0.0506		0.2545	False		,,,				2504	0.0951															0								G	GLN/ARG	613,3793	263.1+/-265.3	38,537,1628	123	113	116		434	-0.9	0	3	dbSNP_119	116	2371,6229	390.0+/-343.1	324,1723,2253	yes	missense	ARGFX	NM_001012659.1	43	362,2260,3881	AA,AG,GG		27.5698,13.9128,22.9433	benign	145/316	121304933	2984,10022	2203	4300	6503	SO:0001583	missense	503582				CCDS33834.1	3q13.33	2011-06-20			ENSG00000186103	ENSG00000186103		"Homeoboxes / PRD class"	30146	protein-coding gene	gene with protein product		611164					Standard	XM_005247505		Approved		uc003eef.3	A6NJG6	OTTHUMG00000159395	ENST00000334384.3:c.434G>A	3.37:g.121304933G>A	ENSP00000335578:p.Arg145Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000334384.3	37	CCDS33834.1	440	0.20146520146520147	64	0.13008130081300814	142	0.39226519337016574	30	0.05244755244755245	204	0.2691292875989446	G	0.150	-1.091973	0.01858	0.139128	0.275698	ENSG00000186103	ENST00000334384	D	0.88354	-2.37	3.32	-0.937	0.10415	.	1.246050	0.06010	N	0.649304	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	B	0.16396	0.017	B	0.04013	0.001	T	0.04165	-1.0972	9	0.10111	T	0.7	-0.0198	2.7093	0.05170	0.1684:0.3796:0.344:0.108	rs9813391;rs17741793;rs52830852;rs9813391	145	A6NJG6	ARGFX_HUMAN	Q	145	ENSP00000335578:R145Q	ENSP00000335578:R145Q	R	+	2	0	ARGFX	122787623	0.000000	0.05858	0.000000	0.03702	0.053000	0.15095	-0.293000	0.08320	-0.190000	0.10465	-0.270000	0.10280	CGA		0.502	ARGFX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355096.2	NM_001012659		A	121304933	G	A	121304933	3	1	685	1	0	0	0	0	1	0	0	0	859	1058	37	1	448	1	ARGFX	3	121304933	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10	23453274	121304933	76717497	13	44344										
F2R	2149	broad.mit.edu	37	chr5	76029194	76029194	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	cctctgagtgccagaggtacGtctacagtatcttatgctgc	10	11	3	2			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr5:76029194G>A	ENST00000319211.4	+	2	1409	c.1144G>A	c.(1144-1146)Gtc>Atc	p.V382I		NM_001992.3	NP_001983.2	P25116	PAR1_HUMAN	coagulation factor II (thrombin) receptor	382					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|activation of MAPKK activity (GO:0000186)|anatomical structure morphogenesis (GO:0009653)|blood coagulation (GO:0007596)|connective tissue replacement involved in inflammatory response wound healing (GO:0002248)|establishment of synaptic specificity at neuromuscular junction (GO:0007529)|G-protein coupled receptor signaling pathway (GO:0007186)|homeostasis of number of cells within a tissue (GO:0048873)|inflammatory response (GO:0006954)|negative regulation of cell proliferation (GO:0008285)|negative regulation of glomerular filtration (GO:0003105)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of renin secretion into blood stream (GO:1900134)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|platelet activation (GO:0030168)|platelet dense granule organization (GO:0060155)|positive regulation of blood coagulation (GO:0030194)|positive regulation of calcium ion transport (GO:0051928)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of collagen biosynthetic process (GO:0032967)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G-protein coupled signaling pathway (GO:0051482)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interleukin-6 secretion (GO:2000778)|positive regulation of interleukin-8 secretion (GO:2000484)|positive regulation of JAK-STAT cascade (GO:0046427)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of release of sequestered calcium ion into cytosol (GO:0051281)|positive regulation of Rho protein signal transduction (GO:0035025)|positive regulation of smooth muscle contraction (GO:0045987)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of vasoconstriction (GO:0045907)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|regulation of blood coagulation (GO:0030193)|regulation of interleukin-1 beta production (GO:0032651)|regulation of sensory perception of pain (GO:0051930)|release of sequestered calcium ion into cytosol (GO:0051209)|response to lipopolysaccharide (GO:0032496)|response to wounding (GO:0009611)|STAT protein import into nucleus (GO:0007262)|tyrosine phosphorylation of STAT protein (GO:0007260)	caveola (GO:0005901)|extracellular region (GO:0005576)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|neuromuscular junction (GO:0031594)|plasma membrane (GO:0005886)|platelet dense tubular network (GO:0031094)|postsynaptic membrane (GO:0045211)	G-protein alpha-subunit binding (GO:0001965)|G-protein beta-subunit binding (GO:0031681)|G-protein coupled receptor activity (GO:0004930)|receptor binding (GO:0005102)|thrombin receptor activity (GO:0015057)			NS(1)|breast(1)|endometrium(3)|kidney(1)|lung(7)|ovary(3)	16		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Prostate(461;0.00955)|Ovarian(174;0.0129)		all cancers(79;4.43e-43)	Streptokinase(DB00086)	CCAGAGGTACGTCTACAGTAT	0.473																																																0													115	115	115					5																	76029194		2203	4300	6503	SO:0001583	missense	2149			M62424	CCDS4032.1	5q13	2012-08-08			ENSG00000181104	ENSG00000181104		"GPCR / Class A : Protease activated receptors"	3537	protein-coding gene	gene with protein product		187930				8395910	Standard	NM_001992		Approved	TR, CF2R, PAR1, PAR-1	uc003ken.4	P25116	OTTHUMG00000131299	ENST00000319211.4:c.1144G>A	5.37:g.76029194G>A	ENSP00000321326:p.Val382Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q53XV0|Q96RF7|Q9BUN4	Missense_Mutation	SNP	ENST00000319211.4	37	CCDS4032.1	.	.	.	.	.	.	.	.	.	.	G	5.320	0.244382	0.10077	.	.	ENSG00000181104	ENST00000319211	T	0.37752	1.18	4.79	3.91	0.45181	.	0.136796	0.49305	D	0.000147	T	0.19765	0.0475	N	0.14661	0.345	0.80722	D	1	B	0.18310	0.027	B	0.08055	0.003	T	0.04930	-1.0917	10	0.45353	T	0.12	-25.1425	7.4328	0.27137	0.0:0.707:0.1446:0.1484	.	382	P25116	PAR1_HUMAN	I	382	ENSP00000321326:V382I	ENSP00000321326:V382I	V	+	1	0	F2R	76064950	1.000000	0.71417	0.923000	0.36655	0.445000	0.32107	1.883000	0.39658	1.368000	0.46115	-0.539000	0.04255	GTC		0.473	F2R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254068.2			A	76029194	G	A	76029194	3	1	685	1	0	0	0	0	1	0	0	0	5345	1145	40	1	1150	1	F2R	5	76029194	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10		76029194	104886066	14	44345										
GPR98	84059	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr5	89981756	89981756	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	caatgtgactagaacaggagGagcatttgcagatgtctctg	12	7	1	3			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr5:89981756G>A	ENST00000405460.2	+	29	6530	c.6434G>A	c.(6433-6435)gGa>gAa	p.G2145E		NM_032119.3	NP_115495.3	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98	2145	Calx-beta 15. {ECO:0000255}.				detection of mechanical stimulus involved in sensory perception of sound (GO:0050910)|G-protein coupled receptor signaling pathway (GO:0007186)|inner ear receptor stereocilium organization (GO:0060122)|maintenance of organ identity (GO:0048496)|nervous system development (GO:0007399)|neurological system process (GO:0050877)|neuropeptide signaling pathway (GO:0007218)|photoreceptor cell maintenance (GO:0045494)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|single organismal cell-cell adhesion (GO:0016337)|visual perception (GO:0007601)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|stereocilia ankle link complex (GO:0002142)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(4)|breast(7)|central_nervous_system(6)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(3)|kidney(18)|large_intestine(46)|liver(2)|lung(80)|ovary(12)|pancreas(5)|prostate(1)|skin(50)|stomach(7)|upper_aerodigestive_tract(8)|urinary_tract(6)	269		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)		AGAACAGGAGGAGCATTTGCA	0.418																																																0													84	75	78					5																	89981756		1914	4129	6043	SO:0001583	missense	84059			AB014586	CCDS47246.1	5q13	2014-08-08	2006-05-26	2006-05-26	ENSG00000164199	ENSG00000164199		"-", "GPCR / Class B : Orphans"	17416	protein-coding gene	gene with protein product		602851	"monogenic, audiogenic seizure susceptibility 1 homolog (mouse)"	USH2C, MASS1		10976914, 14740321	Standard	NM_032119		Approved	DKFZp761P0710, KIAA0686, FEB4, VLGR1b	uc003kju.3	Q8WXG9	OTTHUMG00000162668	ENST00000405460.2:c.6434G>A	5.37:g.89981756G>A	ENSP00000384582:p.Gly2145Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O75171|Q8TF58|Q9H0X5|Q9UL61	Missense_Mutation	SNP	ENST00000405460.2	37	CCDS47246.1	.	.	.	.	.	.	.	.	.	.	G	32	5.164873	0.94727	.	.	ENSG00000164199	ENST00000405460;ENST00000296619;ENST00000399043	T	0.37411	1.2	5.59	5.59	0.84812	Na-Ca exchanger/integrin-beta4 (2);	0.000000	0.85682	D	0.000000	T	0.66703	0.2816	M	0.84433	2.695	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.69702	-0.5074	10	0.54805	T	0.06	.	19.5929	0.95523	0.0:0.0:1.0:0.0	.	2145	Q8WXG9	GPR98_HUMAN	E	2145	ENSP00000384582:G2145E	ENSP00000296619:G2145E	G	+	2	0	GPR98	90017512	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.624000	0.98398	2.626000	0.88956	0.591000	0.81541	GGA		0.418	GPR98-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369993.2	NM_032119		A	89981756	G	A	89981756	3	1	685	1	0	0	0	0	1	0	0	0	6728	1174	41	2	6548	2	GPR98	5	89981756	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10	13952562	89981756	90933504	15	44346										
PCDHGA4	56111	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr5	140736273	140736273	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ttccagggtgcacctctgtcCtcctatgtctccatcaactc	6	16	3	0			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr5:140736273C>T	ENST00000571252.1	+	1	1506	c.1506C>T	c.(1504-1506)tcC>tcT	p.S502S	PCDHGA1_ENST00000517417.1_Intron|PCDHGB1_ENST00000523390.1_Intron|PCDHGA3_ENST00000253812.6_Intron|PCDHGA2_ENST00000394576.2_Intron	NM_018917.2	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4	502	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			endometrium(1)|kidney(1)|lung(3)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACCTCTGTCCTCCTATGTCT	0.512																																																0													128	135	133					5																	140736273		2096	4248	6344	SO:0001819	synonymous_variant	56111			AF152511	CCDS58979.1, CCDS58979.2, CCDS75331.1	5q31	2010-01-26						"Cadherins / Protocadherins : Clustered"	8702	other	protocadherin		606291				10380929	Standard	NM_018917		Approved	PCDH-GAMMA-A4		Q9Y5G9		ENST00000571252.1:c.1506C>T	5.37:g.140736273C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9Y5D3	Silent	SNP	ENST00000571252.1	37	CCDS58979.1																																																																																				0.512	PCDHGA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437959.1	NM_018917		T	140736273	C	T	140736273	2	4	685	1	0	0	0	0	0	0	0	1	11563	668	24	2		2	PCDHGA4	5	140736273	Silent	SNP	C	TCGA-KO-8415-01A-11D-2310-10	50754517	140736273	40178987	16	44347										
RANBP17	64901	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr5	170725856	170725856	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ccatgcagtctcgacatgatGagctgacccgacttttctga	9	12	2	4			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr5:170725856G>A	ENST00000523189.1	+	28	3425	c.3261G>A	c.(3259-3261)atG>atA	p.M1087I	RANBP17_ENST00000521759.1_3'UTR	NM_022897.3	NP_075048.1	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	1087					mRNA transport (GO:0051028)|protein import into nucleus (GO:0006606)	cytoplasm (GO:0005737)|nuclear pore (GO:0005643)	GTP binding (GO:0005525)			breast(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(8)|lung(25)|ovary(3)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)	50	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)			TCGACATGATGAGCTGACCCG	0.517			T	TRD@	ALL																																		Dom	yes		5	5q34	64901	RAN binding protein 17		L	0													104	85	91					5																	170725856		2203	4300	6503	SO:0001583	missense	64901			AF222747	CCDS34287.1	5q34	2009-01-12			ENSG00000204764	ENSG00000204764			14428	protein-coding gene	gene with protein product		606141				11024021	Standard	NM_022897		Approved		uc003mba.3	Q9H2T7	OTTHUMG00000163203	ENST00000523189.1:c.3261G>A	5.37:g.170725856G>A	ENSP00000427975:p.Met1087Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IU74	Missense_Mutation	SNP	ENST00000523189.1	37	CCDS34287.1	.	.	.	.	.	.	.	.	.	.	G	14.89	2.669902	0.47677	.	.	ENSG00000204764	ENST00000523189;ENST00000534916	T	0.22743	1.94	5.87	5.87	0.94306	.	0.148962	0.48286	D	0.000195	T	0.20373	0.0490	L	0.38175	1.15	0.35735	D	0.818246	B	0.30793	0.295	B	0.27608	0.081	T	0.09907	-1.0653	10	0.49607	T	0.09	-17.8979	17.9912	0.89170	0.0:0.0:1.0:0.0	.	1087	Q9H2T7	RBP17_HUMAN	I	1087;517	ENSP00000427975:M1087I	ENSP00000427975:M1087I	M	+	3	0	RANBP17	170658461	1.000000	0.71417	1.000000	0.80357	0.266000	0.26442	7.541000	0.82084	2.785000	0.95823	0.655000	0.94253	ATG		0.517	RANBP17-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000372036.1	NM_022897		A	170725856	G	A	170725856	3	1	685	1	0	0	0	0	1	0	0	0	13040	1290	45	2	3371	2	RANBP17	5	170725856	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10	29989583	170725856	10189404	17	44348										
MDC1	9656	ucsc.edu	37	chr6	30681950	30681950	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	accacattcttcccgaggtgTagtgggaaatctaagaatta	9	8	2	1			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr6:30681950T>C	ENST00000376406.3	-	3	794	c.147A>G	c.(145-147)ctA>ctG	p.L49L	MDC1_ENST00000376405.2_Silent_p.L49L|MDC1_ENST00000494654.1_5'Flank|MDC1-AS1_ENST00000442150.1_RNA	NM_014641.2	NP_055456.2	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	49	Interaction with CHEK2.|Interaction with the MRN complex.				DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|intra-S DNA damage checkpoint (GO:0031573)	chromosome (GO:0005694)|focal adhesion (GO:0005925)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	FHA domain binding (GO:0070975)|protein C-terminus binding (GO:0008022)			breast(2)|kidney(1)|ovary(1)	4						TCCCGAGGTGTAGTGGGAAAT	0.463								Other conserved DNA damage response genes																																								0													42	40	41					6																	30681950		1506	2696	4202	SO:0001819	synonymous_variant	9656			D79992	CCDS34384.1	6p21.3	2010-02-17	2009-06-12		ENSG00000137337	ENSG00000137337			21163	protein-coding gene	gene with protein product		607593				10975465, 12607005	Standard	NM_014641		Approved	NFBD1, KIAA0170, Em:AB023051.5	uc003nrg.4	Q14676	OTTHUMG00000031075	ENST00000376406.3:c.147A>G	6.37:g.30681950T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2AB04|A2BF04|A2RRA8|A7YY86|B0S8A2|Q0EFC2|Q2L6H7|Q2TAZ4|Q5JP55|Q5JP56|Q5ST83|Q68CQ3|Q86Z06|Q96QC2	Silent	SNP	ENST00000376406.3	37	CCDS34384.1																																																																																				0.463	MDC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000076103.1	NM_014641		C	30681950	T	C	30681950	2	2	685	1	0	0	0	0	0	0	0	1	9410	1625	57	3		3	MDC1	6	30681950	Silent	SNP	T	TCGA-KO-8415-01A-11D-2310-10		30681950	140433117	18	44349										
SLC26A8	116369	bcgsc.ca	37	chr6	35918965	35918965	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ctgtttctgagtaggtttccCgtatcactgtctcggattca	9	10	4	1	rs116200048|rs35886585	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr6:35918965C>T	ENST00000490799.1	-	19	2800	c.2447G>A	c.(2446-2448)cGg>cAg	p.R816Q	SLC26A8_ENST00000394602.2_Missense_Mutation_p.R711Q|SLC26A8_ENST00000355574.2_Missense_Mutation_p.R816Q	NM_052961.3	NP_443193.1			solute carrier family 26 (anion exchanger), member 8											breast(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|kidney(4)|large_intestine(6)|lung(16)|ovary(3)|prostate(6)|skin(3)|upper_aerodigestive_tract(2)	46						GTAGGTTTCCCGTATCACTGT	0.542													C|||	10	0.00199681	0.0	0.0043	5008	,	,		16596	0.0		0.007	False		,,,				2504	0.0															0								C	GLN/ARG,GLN/ARG,GLN/ARG	7,4399	12.9+/-30.5	0,7,2196	140	119	126		2447,2447,2132	1.3	1	6	dbSNP_132	126	93,8507	51.9+/-112.3	1,91,4208	yes	missense,missense,missense	SLC26A8	NM_001193476.1,NM_052961.3,NM_138718.2	43,43,43	1,98,6404	TT,TC,CC		1.0814,0.1589,0.7689	benign,benign,benign	816/971,816/971,711/866	35918965	100,12906	2203	4300	6503	SO:0001583	missense	116369			AF331522	CCDS4813.1, CCDS4814.1	6p21	2013-07-18	2013-07-18		ENSG00000112053	ENSG00000112053		"Solute carriers"	14468	protein-coding gene	gene with protein product		608480	"solute carrier family 26, member 8"			11834742, 11829495	Standard	NM_001193476		Approved		uc003olm.3	Q96RN1	OTTHUMG00000014586	ENST00000490799.1:c.2447G>A	6.37:g.35918965C>T	ENSP00000417638:p.Arg816Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000490799.1	37	CCDS4813.1	4	0.0018315018315018315	0	0.0	2	0.0055248618784530384	0	0.0	2	0.002638522427440633	C	4.362	0.066653	0.08388	0.001589	0.010814	ENSG00000112053	ENST00000490799;ENST00000394602;ENST00000355574	D;D;D	0.94457	-3.13;-3.43;-3.13	5.42	1.33	0.21861	.	0.337736	0.25810	N	0.028143	T	0.56688	0.2002	N	0.01048	-1.04	0.26909	N	0.966934	B;B;B	0.12013	0.003;0.005;0.005	B;B;B	0.06405	0.001;0.001;0.002	T	0.62248	-0.6894	10	0.02654	T	1	.	7.521	0.27629	0.0:0.2612:0.0:0.7388	.	816;711;398	Q96RN1;Q96RN1-2;Q96RN1-3	S26A8_HUMAN;.;.	Q	816;711;816	ENSP00000417638:R816Q;ENSP00000378100:R711Q;ENSP00000347778:R816Q	ENSP00000347778:R816Q	R	-	2	0	SLC26A8	36026943	0.997000	0.39634	0.999000	0.59377	0.902000	0.53008	0.352000	0.20113	0.084000	0.17077	-0.290000	0.09829	CGG		0.542	SLC26A8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040325.2			T	35918965	C	T	35918965	3	4	685	1	0	0	0	0	1	0	0	0	14536	652	23	1	473	1	SLC26A8	6	35918965	Missense_Mutation	SNP	C	TCGA-KO-8415-01A-11D-2310-10	5237015	35918965	135196102	19	44350										
TREML1	340205	broad.mit.edu	37	chr6	41121543	41121543	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	tgtgcaaaatctggggccccCtggccccatccaccatgcag	10	16	1	0			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr6:41121543C>T	ENST00000426005.2	-	2	372	c.329G>A	c.(328-330)aGg>aAg	p.R110K	TREML1_ENST00000373127.4_Missense_Mutation_p.R110K|TREML1_ENST00000437044.2_Intron	NM_178174.2	NP_835468.1	Q86YW5	TRML1_HUMAN	triggering receptor expressed on myeloid cells-like 1	110	Ig-like V-type.				calcium-mediated signaling (GO:0019722)|innate immune response (GO:0045087)|platelet activation (GO:0030168)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|platelet alpha granule (GO:0031091)		p.R110K(1)		breast(2)|endometrium(2)|kidney(1)|large_intestine(2)|lung(5)|ovary(1)	13	Ovarian(28;0.0418)|Colorectal(47;0.196)					CTGGGGCCCCCTGGCCCCATC	0.602																																																1	Substitution - Missense(1)	ovary(1)											46	53	51					6																	41121543		2203	4300	6503	SO:0001583	missense	340205			AF534822	CCDS4851.1, CCDS64420.1, CCDS64421.1	6p21.1	2013-01-11			ENSG00000161911	ENSG00000161911		"Immunoglobulin superfamily / V-set domain containing"	20434	protein-coding gene	gene with protein product	"TREM-like transcript 1"	609714				12393607, 12645956	Standard	NM_178174		Approved	TLT1, dJ238O23.3	uc011duc.3	Q86YW5	OTTHUMG00000016231	ENST00000426005.2:c.329G>A	6.37:g.41121543C>T	ENSP00000402855:p.Arg110Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q496B3|Q8IWY1|Q8IWY2	Missense_Mutation	SNP	ENST00000426005.2	37	CCDS4851.1	.	.	.	.	.	.	.	.	.	.	C	1.289	-0.608158	0.03717	.	.	ENSG00000161911	ENST00000373127;ENST00000426005	T;T	0.21932	1.98;1.98	6.08	-2.33	0.06724	Immunoglobulin subtype (1);Immunoglobulin-like fold (1);	2.389720	0.01192	N	0.007343	T	0.01627	0.0052	N	0.08118	0	0.18873	N	0.999988	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.14755	-1.0461	10	0.05525	T	0.97	.	0.6503	0.00825	0.2664:0.1127:0.2842:0.3367	.	110;110	Q86YW5;Q86YW5-2	TRML1_HUMAN;.	K	110	ENSP00000362219:R110K;ENSP00000402855:R110K	ENSP00000362219:R110K	R	-	2	0	TREML1	41229521	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.513000	0.06305	-0.872000	0.04037	-2.175000	0.00321	AGG		0.602	TREML1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000043538.2	NM_178174		T	41121543	C	T	41121543	3	4	685	1	0	0	0	0	1	0	0	0	16484	681	24	2	624	2	TREML1	6	41121543	Missense_Mutation	SNP	C	TCGA-KO-8415-01A-11D-2310-10	5202578	41121543	129993524	20	44351										
C6orf150	115004	mdanderson.org	37	chr6	74161503	74161503	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	acgtcccagggcccgggcggAggtcttggcttcgtggagca	17	12	1	0	rs9446904	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr6:74161503A>G	ENST00000370315.3	-	1	496	c.402T>C	c.(400-402)ccT>ccC	p.P134P	MB21D1_ENST00000370318.1_Silent_p.P134P	NM_138441.2	NP_612450.2	Q8N884	CGAS_HUMAN	Mab-21 domain containing 1	134					activation of innate immune response (GO:0002218)|cellular response to exogenous dsRNA (GO:0071360)|cyclic nucleotide biosynthetic process (GO:0009190)|defense response to virus (GO:0051607)|innate immune response (GO:0045087)|positive regulation of defense response to virus by host (GO:0002230)|positive regulation of type I interferon production (GO:0032481)	cytosol (GO:0005829)	ATP binding (GO:0005524)|cyclic-GMP-AMP synthase activity (GO:0061501)|DNA binding (GO:0003677)|GTP binding (GO:0005525)|metal ion binding (GO:0046872)			central_nervous_system(1)|large_intestine(4)|lung(1)	6						GCCCGGGCGGAGGTCTTGGCT	0.751													G|||	4499	0.898363	0.8949	0.8674	5008	,	,		11256	0.9484		0.8579	False		,,,				2504	0.9151															0								G		3318,426		1470,378,24	4	5	4		402	-3	0	6	dbSNP_119	4	6360,1026		2732,896,65	no	coding-synonymous	MB21D1	NM_138441.2		4202,1274,89	GG,GA,AA		13.8911,11.3782,13.0458		134/523	74161503	9678,1452	1872	3693	5565	SO:0001819	synonymous_variant	115004			BC012928	CCDS4978.1	6q13	2011-02-23	2011-02-23	2011-02-23	ENSG00000164430	ENSG00000164430			21367	protein-coding gene	gene with protein product		613973	"chromosome 6 open reading frame 150"	C6orf150			Standard	NM_138441		Approved		uc003pgx.1	Q8N884	OTTHUMG00000015034	ENST00000370315.3:c.402T>C	6.37:g.74161503A>G		Somatic		WXS	Illumina HiSeq	Phase_I	L0L2J9|Q14CV6|Q32NC9|Q5SWL0|Q5SWL1|Q96E45	Silent	SNP	ENST00000370315.3	37	CCDS4978.1																																																																																				0.751	MB21D1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041221.5	NM_138441		G	74161503	A	G	74161503	2	3	685	1	0	0	0	0	0	0	0	1	2339	291	11	3		3	C6orf150	6	74161503	Silent	SNP	A	TCGA-KO-8415-01A-11D-2310-10	33039960	74161503	96953564	21	44352										
RSPH10B	222967	mdanderson.org	37	chr7	5983092	5983092	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gagcgtccgctgttgctcacGgaataaattgcctaaaaata	9	9	1	0	rs201187545		TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr7:5983092G>A	ENST00000405415.1	-	14	2007	c.1621C>T	c.(1621-1623)Cgt>Tgt	p.R541C	RSPH10B_ENST00000337579.3_Missense_Mutation_p.R541C|RSPH10B_ENST00000535104.1_5'UTR|RSPH10B_ENST00000441023.2_Missense_Mutation_p.R541C|RSPH10B_ENST00000404406.1_Missense_Mutation_p.R541C|RSPH10B_ENST00000539903.1_Missense_Mutation_p.P280L			P0C881	R10B1_HUMAN	radial spoke head 10 homolog B (Chlamydomonas)	541										breast(1)|kidney(1)|lung(4)|ovary(1)|skin(4)	11		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0974)		TGTTGCTCACGGAATAAATTG	0.388																																																0													28	28	28					7																	5983092		2142	4274	6416	SO:0001583	missense	728194				CCDS34598.1	7p22.2	2008-07-04			ENSG00000155026	ENSG00000155026			27362	protein-coding gene	gene with protein product						16507594	Standard	NM_173565		Approved		uc003sph.1	P0C881	OTTHUMG00000152378	ENST00000405415.1:c.1621C>T	7.37:g.5983092G>A	ENSP00000385443:p.Arg541Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMW7|Q86ST9|Q8NE68	Missense_Mutation	SNP	ENST00000405415.1	37	CCDS34598.1	10|10	0.004578754578754579|0.004578754578754579	4|4	0.008130081300813009|0.008130081300813009	0|0	0.0|0.0	0|0	0.0|0.0	6|6	0.0079155672823219|0.0079155672823219	G|G	10.49|10.49	1.366017|1.366017	0.24684|0.24684	.|.	.|.	ENSG00000155026|ENSG00000155026	ENST00000539903|ENST00000405415;ENST00000404406;ENST00000337579;ENST00000354951;ENST00000441023	T|T;T;T;T	0.62639|0.51817	0.01|0.69;0.69;0.69;0.69	3.38|3.38	-4.94|-4.94	0.03057|0.03057	.|.	.|1.615010	.|0.03267	.|N	.|0.184174	T|T	0.10380|0.10380	0.0254|0.0254	N|N	0.00436|0.00436	-1.5|-1.5	0.31735|0.31735	N|N	0.636584|0.636584	.|B;B;B	.|0.12630	.|0.006;0.0;0.0	.|B;B;B	.|0.04013	.|0.001;0.0;0.0	T|T	0.13469|0.13469	-1.0508|-1.0508	7|10	0.87932|0.37606	D|T	0|0.19	.|.	6.042|6.042	0.19740|0.19740	0.5682:0.0:0.26:0.1718|0.5682:0.0:0.26:0.1718	.|.	.|242;541;400	.|B7Z298;P0C881;F5GXE3	.|.;R10B1_HUMAN;.	L|C	280|541;541;541;400;541	ENSP00000445203:P280L|ENSP00000385443:R541C;ENSP00000384097:R541C;ENSP00000338556:R541C;ENSP00000400988:R541C	ENSP00000440914:P323L|ENSP00000338556:R541C	P|R	-|-	2|1	0|0	RSPH10B|RSPH10B	5949618|5949618	0.026000|0.026000	0.19158|0.19158	0.142000|0.142000	0.22268|0.22268	0.069000|0.069000	0.16628|0.16628	-0.149000|-0.149000	0.10204|0.10204	-0.612000|-0.612000	0.05701|0.05701	-1.143000|-1.143000	0.01870|0.01870	CCG|CGT		0.388	RSPH10B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000325465.2	NM_173565		A	5983092	G	A	5983092	3	1	685	1	0	0	0	0	1	0	0	0	13716	1116	39	1	1019	1	RSPH10B	7	5983092	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10		5983092	153155571	22	44353										
SP8	221833	mdanderson.org	37	chr7	20824614	20824614	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	aaggccgagtgactcaggccCgagtaatccgagttgtagcc	13	11	1	1	rs34908430	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr7:20824614C>T	ENST00000361443.4	-	3	1005	c.768G>A	c.(766-768)tcG>tcA	p.S256S	SP8_ENST00000418710.2_Silent_p.S274S	NM_198956.2	NP_945194.1	Q8IXZ3	SP8_HUMAN	Sp8 transcription factor	256					dorsal/ventral pattern formation (GO:0009953)|embryonic limb morphogenesis (GO:0030326)|proximal/distal pattern formation (GO:0009954)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|large_intestine(2)|lung(1)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	8						GACTCAGGCCCGAGTAATCCG	0.706													c|||	1351	0.269768	0.0635	0.379	5008	,	,		12232	0.3958		0.2893	False		,,,				2504	0.3211															0								C	,	317,3303		22,273,1515	5	6	5		822,768	-5.1	1	7	dbSNP_126	5	1820,5582		247,1326,2128	no	coding-synonymous,coding-synonymous	SP8	NM_182700.4,NM_198956.2	,	269,1599,3643	TT,TC,CC		24.5879,8.7569,19.3885	,	274/509,256/491	20824614	2137,8885	1810	3701	5511	SO:0001819	synonymous_variant	221833				CCDS5372.1, CCDS43555.1	7p21.2	2013-01-08			ENSG00000164651	ENSG00000164651		"Specificity protein transcription factors", "Zinc fingers, C2H2-type"	19196	protein-coding gene	gene with protein product		608306					Standard	NM_182700		Approved		uc003suz.3	Q8IXZ3	OTTHUMG00000094788	ENST00000361443.4:c.768G>A	7.37:g.20824614C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z615|Q7Z616|Q96MJ1	Silent	SNP	ENST00000361443.4	37	CCDS5372.1																																																																																				0.706	SP8-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000326904.2			T	20824614	C	T	20824614	2	4	685	1	0	0	0	0	0	0	0	1	14983	639	23	1		1	SP8	7	20824614	Silent	SNP	C	TCGA-KO-8415-01A-11D-2310-10	14841522	20824614	138314049	23	44354										
FKBP9	11328	mdanderson.org	37	chr7	33044951	33044951	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	aaagaccaggaagccaaacaCgatgaactctaaacctggca	8	11	1	2			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr7:33044951C>G	ENST00000242209.4	+	10	1870	c.1701C>G	c.(1699-1701)caC>caG	p.H567Q	FKBP9_ENST00000490776.2_Missense_Mutation_p.H335Q|FKBP9_ENST00000538336.1_Missense_Mutation_p.H620Q|FKBP9_ENST00000538443.1_Missense_Mutation_p.H429Q|AVL9_ENST00000404479.1_Intron	NM_001284343.1|NM_007270.3	NP_001271272.1|NP_009201.2	O95302	FKBP9_HUMAN	FK506 binding protein 9, 63 kDa	567	EF-hand 2. {ECO:0000255|PROSITE- ProRule:PRU00448}.				chaperone-mediated protein folding (GO:0061077)|protein folding (GO:0006457)|protein peptidyl-prolyl isomerization (GO:0000413)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)	calcium ion binding (GO:0005509)|FK506 binding (GO:0005528)|peptidyl-prolyl cis-trans isomerase activity (GO:0003755)			central_nervous_system(13)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(6)|lung(9)|ovary(2)|upper_aerodigestive_tract(1)	39			GBM - Glioblastoma multiforme(11;0.0156)			AAGCCAAACACGATGAACTCT	0.517																																																0													152	109	124					7																	33044951		2203	4300	6503	SO:0001583	missense	11328			AF089745	CCDS5439.1, CCDS64622.1, CCDS64623.1	7p11.1	2013-01-10	2002-08-29		ENSG00000122642	ENSG00000122642		"EF-hand domain containing"	3725	protein-coding gene	gene with protein product			"FK506-binding protein 9 (63 kD)"			12036304	Standard	NM_007270		Approved	FKBP60, FKBP63	uc003tdh.3	O95302	OTTHUMG00000097847	ENST00000242209.4:c.1701C>G	7.37:g.33044951C>G	ENSP00000242209:p.His567Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B3KY35|B7Z1G9|B7Z6H3|Q2M2A1|Q3MIR7|Q6IN76|Q6P2N1|Q96EX5|Q96IJ9	Missense_Mutation	SNP	ENST00000242209.4	37	CCDS5439.1	.	.	.	.	.	.	.	.	.	.	C	17.34	3.365781	0.61513	.	.	ENSG00000122642	ENST00000242209;ENST00000538336;ENST00000538443;ENST00000490776	T;T;T;T	0.58060	0.36;0.38;0.4;0.36	5.07	-3.51	0.04696	.	.	.	.	.	T	0.69806	0.3152	.	.	.	0.58432	D	0.999995	D;D;P	0.89917	0.999;1.0;0.86	D;D;B	0.87578	0.993;0.998;0.401	T	0.71185	-0.4667	8	0.72032	D	0.01	-9.9572	14.0577	0.64779	0.0:0.4114:0.0:0.5886	.	335;620;567	B7Z1G9;B7Z6H3;O95302	.;.;FKBP9_HUMAN	Q	567;620;429;335	ENSP00000242209:H567Q;ENSP00000439250:H620Q;ENSP00000437504:H429Q;ENSP00000441317:H335Q	ENSP00000242209:H567Q	H	+	3	2	FKBP9	33011476	0.024000	0.19004	0.835000	0.33067	0.918000	0.54935	-0.859000	0.04277	-1.301000	0.02338	-0.266000	0.10368	CAC		0.517	FKBP9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215137.1	NM_007270		G	33044951	C	G	33044951	3	3	685	1	0	0	0	0	1	0	0	0	5922	535	19	4	1739	4	FKBP9	7	33044951	Missense_Mutation	SNP	C	TCGA-KO-8415-01A-11D-2310-10	12220337	33044951	126093712	24	44355										
CHCHD2	51142	broad.mit.edu	37	chr7	56172050	56172050	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	tgcagtggttgccatctgggCcatcagacctggctgccggg	15	12	2	1			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr7:56172050C>T	ENST00000395422.3	-	2	331	c.169G>A	c.(169-171)Gcc>Acc	p.A57T		NM_016139.2	NP_057223.1	Q9Y6H1	CHCH2_HUMAN	coiled-coil-helix-coiled-coil-helix domain containing 2	57						mitochondrion (GO:0005739)				endometrium(1)|large_intestine(1)|lung(3)	5	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			GCCATCTGGGCCATCAGACCT	0.647																																																0													20	21	21					7																	56172050		2198	4289	6487	SO:0001583	missense	51142			AF078845	CCDS5526.1	7p11.2	2014-07-14	2004-01-19	2004-01-21	ENSG00000106153	ENSG00000106153		"Coiled-coil-helix-coiled-coil-helix domain containing"	21645	protein-coding gene	gene with protein product			"chromosome 7 open reading frame 17"	C7orf17		23303788	Standard	NM_016139		Approved		uc003tsa.3	Q9Y6H1	OTTHUMG00000129429	ENST00000395422.3:c.169G>A	7.37:g.56172050C>T	ENSP00000378812:p.Ala57Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q498C3|Q6NZ50	Missense_Mutation	SNP	ENST00000395422.3	37	CCDS5526.1	.	.	.	.	.	.	.	.	.	.	C	34	5.298530	0.95574	.	.	ENSG00000106153	ENST00000395422	T	0.48522	0.81	5.62	4.74	0.60224	.	0.051128	0.85682	D	0.000000	T	0.74168	0.3681	M	0.92970	3.365	0.80722	D	1	D	0.71674	0.998	D	0.65987	0.94	T	0.81656	-0.0834	10	0.66056	D	0.02	.	15.123	0.72460	0.1425:0.8575:0.0:0.0	.	57	Q9Y6H1	CHCH2_HUMAN	T	57	ENSP00000378812:A57T	ENSP00000378812:A57T	A	-	1	0	CHCHD2	56139544	1.000000	0.71417	1.000000	0.80357	0.966000	0.64601	5.926000	0.70070	1.378000	0.46305	-0.152000	0.13540	GCC		0.647	CHCHD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251589.1	NM_016139		T	56172050	C	T	56172050	3	4	685	1	0	0	0	0	1	0	0	0	3318	739	26	2	298	2	CHCHD2	7	56172050	Missense_Mutation	SNP	C	TCGA-KO-8415-01A-11D-2310-10	23127099	56172050	102966613	25	44356										
DYNC1I1	1780	ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	95668630	95668630	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ctttgaaggtcaccaagggcCagtgacaggaattaactgcc	11	10	1	2			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr7:95668630C>A	ENST00000324972.6	+	14	1650	c.1457C>A	c.(1456-1458)cCa>cAa	p.P486Q	DYNC1I1_ENST00000497626.1_3'UTR|DYNC1I1_ENST00000457059.1_Missense_Mutation_p.P469Q|DYNC1I1_ENST00000359388.4_Missense_Mutation_p.P449Q|DYNC1I1_ENST00000437599.1_Missense_Mutation_p.P466Q|DYNC1I1_ENST00000447467.2_Missense_Mutation_p.P469Q|DYNC1I1_ENST00000537881.1_Missense_Mutation_p.P449Q	NM_004411.4	NP_004402.1	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	486					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|metabolic process (GO:0008152)|vesicle transport along microtubule (GO:0047496)	cytoplasmic dynein complex (GO:0005868)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytosol (GO:0005829)|kinetochore (GO:0000776)|microtubule (GO:0005874)|perinuclear region of cytoplasm (GO:0048471)|spindle pole (GO:0000922)|vesicle (GO:0031982)	microtubule binding (GO:0008017)|microtubule motor activity (GO:0003777)|motor activity (GO:0003774)|spectrin binding (GO:0030507)			NS(2)|autonomic_ganglia(1)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(10)|lung(27)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	54	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)			CACCAAGGGCCAGTGACAGGA	0.478																																																0													151	142	145					7																	95668630		2203	4300	6503	SO:0001583	missense	1780			AF063228	CCDS5644.1, CCDS47645.1, CCDS47646.1, CCDS64718.1	7q21.3-q22.1	2013-01-18	2005-11-24	2005-11-24	ENSG00000158560	ENSG00000158560		"Cytoplasmic dyneins", "WD repeat domain containing"	2963	protein-coding gene	gene with protein product		603772	"dynein, cytoplasmic, intermediate polypeptide 1"	DNCI1		10049579, 16260502	Standard	NM_004411		Approved	DNCIC1	uc003uoc.4	O14576	OTTHUMG00000153983	ENST00000324972.6:c.1457C>A	7.37:g.95668630C>A	ENSP00000320130:p.Pro486Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DME3|F5H050|G5E9K1|Q8TBF7|Q9Y2X1	Missense_Mutation	SNP	ENST00000324972.6	37	CCDS5644.1	.	.	.	.	.	.	.	.	.	.	C	25.3	4.622230	0.87460	.	.	ENSG00000158560	ENST00000447467;ENST00000324972;ENST00000537881;ENST00000437599;ENST00000359388;ENST00000457059	T;T;T;T;T;T	0.61742	0.08;0.08;0.08;0.08;0.08;0.08	4.94	4.94	0.65067	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.78291	0.4260	M	0.82132	2.575	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.91635	0.999;0.998;0.998;0.998;0.993	T	0.81095	-0.1088	10	0.87932	D	0	-20.6976	18.7491	0.91806	0.0:1.0:0.0:0.0	.	469;466;469;486;449	Q7Z6M0;G5E9K1;O14576-2;O14576;O14576-3	.;.;.;DC1I1_HUMAN;.	Q	469;486;449;466;449;469	ENSP00000392337:P469Q;ENSP00000320130:P486Q;ENSP00000438377:P449Q;ENSP00000398118:P466Q;ENSP00000352348:P449Q;ENSP00000412444:P469Q	ENSP00000320130:P486Q	P	+	2	0	DYNC1I1	95506566	1.000000	0.71417	1.000000	0.80357	0.958000	0.62258	7.651000	0.83577	2.753000	0.94483	0.557000	0.71058	CCA		0.478	DYNC1I1-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000333432.1	NM_004411		A	95668630	C	A	95668630	3	1	685	1	0	0	0	0	1	0	0	0	4844	594	21	4	1507	4	DYNC1I1	7	95668630	Missense_Mutation	SNP	C	TCGA-KO-8415-01A-11D-2310-10	39496580	95668630	63470033	26	44357										
CSMD1	64478	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr8	3263582	3263582	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	cacggtggagctccagaccaCgttcccgtcttgcagtatgc	11	14	1	1			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr8:3263582C>T	ENST00000520002.1	-	16	2791	c.2236G>A	c.(2236-2238)Gtg>Atg	p.V746M	CSMD1_ENST00000602723.1_Missense_Mutation_p.V746M|CSMD1_ENST00000542608.1_Missense_Mutation_p.V745M|CSMD1_ENST00000400186.3_Missense_Mutation_p.V746M|CSMD1_ENST00000537824.1_Missense_Mutation_p.V745M|CSMD1_ENST00000602557.1_Missense_Mutation_p.V746M|CSMD1_ENST00000539096.1_Missense_Mutation_p.V745M			Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1	746	Sushi 4. {ECO:0000255|PROSITE- ProRule:PRU00302}.					integral component of membrane (GO:0016021)				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)		CTCCAGACCACGTTCCCGTCT	0.552																																																0													58	60	59					8																	3263582		1985	4175	6160	SO:0001583	missense	64478					8p23.2	2012-04-17			ENSG00000183117	ENSG00000183117		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	14026	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 24"	608397					Standard	NM_033225		Approved	KIAA1890, PPP1R24	uc022aqr.1	Q96PZ7	OTTHUMG00000163605	ENST00000520002.1:c.2236G>A	8.37:g.3263582C>T	ENSP00000430733:p.Val746Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q0H0J5|Q96QU9|Q96RM4	Missense_Mutation	SNP	ENST00000520002.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	27.1|27.1	4.803832|4.803832	0.90623|0.90623	.|.	.|.	ENSG00000183117|ENSG00000183117	ENST00000335551|ENST00000400186;ENST00000520002;ENST00000318252;ENST00000537824;ENST00000542608;ENST00000539096	.|T;T;T;T;T	.|0.64803	.|-0.12;-0.12;-0.12;-0.12;-0.12	5.36|5.36	5.36|5.36	0.76844|0.76844	.|Complement control module (2);Sushi/SCR/CCP (3);	.|0.000000	.|0.64402	.|D	.|0.000003	T|T	0.78000|0.78000	0.4215|0.4215	M|M	0.62723|0.62723	1.935|1.935	0.80722|0.80722	D|D	1|1	.|D;D	.|0.89917	.|1.0;1.0	.|D;D	.|0.91635	.|0.998;0.999	T|T	0.77892|0.77892	-0.2418|-0.2418	5|10	.|0.49607	.|T	.|0.09	.|.	19.0906|19.0906	0.93225|0.93225	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|746;746	.|E5RIG2;Q96PZ7	.|.;CSMD1_HUMAN	H|M	225|746;746;608;745;745;745	.|ENSP00000383047:V746M;ENSP00000430733:V746M;ENSP00000441462:V745M;ENSP00000446243:V745M;ENSP00000441675:V745M	.|ENSP00000320445:V608M	R|V	-|-	2|1	0|0	CSMD1|CSMD1	3250989|3250989	1.000000|1.000000	0.71417|0.71417	0.921000|0.921000	0.36526|0.36526	0.856000|0.856000	0.48823|0.48823	7.618000|7.618000	0.83043|0.83043	2.486000|2.486000	0.83907|0.83907	0.591000|0.591000	0.81541|0.81541	CGT|GTG		0.552	CSMD1-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000374500.2	NM_033225		T	3263582	C	T	3263582	3	4	685	1	0	0	0	0	1	0	0	0	3946	536	19	1	8685	1	CSMD1	8	3263582	Missense_Mutation	SNP	C	TCGA-KO-8415-01A-11D-2310-10		3263582	143100440	27	44358										
GPR124	25960	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	37688272	37688272	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	accacctcatcccgtccctaCgccaagtggtgttccagggg	10	16	1	0	rs144591273		TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr8:37688272C>T	ENST00000412232.2	+	7	776	c.763C>T	c.(763-765)Cgc>Tgc	p.R255C	GPR124_ENST00000315215.7_Missense_Mutation_p.R255C	NM_032777.9	NP_116166.9	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124	255	Ig-like.				central nervous system development (GO:0007417)|endothelial cell migration (GO:0043542)|G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of vascular endothelial growth factor signaling pathway (GO:1900747)|neuropeptide signaling pathway (GO:0007218)|positive regulation of endothelial cell migration (GO:0010595)|regulation of angiogenesis (GO:0045765)|regulation of chemotaxis (GO:0050920)|regulation of establishment of blood-brain barrier (GO:0090210)|sprouting angiogenesis (GO:0002040)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(4)|lung(16)|ovary(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	37			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			CCCGTCCCTACGCCAAGTGGT	0.657																																																0								C	CYS/ARG	1,4399		0,1,2199	81	52	62		763	5.2	1	8	dbSNP_134	62	1,8597		0,1,4298	no	missense	GPR124	NM_032777.9	180	0,2,6497	TT,TC,CC		0.0116,0.0227,0.0154	probably-damaging	255/1339	37688272	2,12996	2200	4299	6499	SO:0001583	missense	25960			AB040964	CCDS6097.2	8p11.22	2014-08-08			ENSG00000020181	ENSG00000020181		"-", "GPCR / Class B : Orphans", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	17849	protein-coding gene	gene with protein product	"tumor endothelial marker 5"	606823				11559528, 12565841	Standard	NM_032777		Approved	TEM5, DKFZp434C211, DKFZp434J0911, KIAA1531, FLJ14390	uc003xkj.3	Q96PE1	OTTHUMG00000156182	ENST00000412232.2:c.763C>T	8.37:g.37688272C>T	ENSP00000406367:p.Arg255Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8W3|D3DSW4|Q8N3R1|Q8TEM3|Q96KB2|Q9P1Z7|Q9UFY4	Missense_Mutation	SNP	ENST00000412232.2	37	CCDS6097.2	.	.	.	.	.	.	.	.	.	.	C	23.7	4.451640	0.84209	2.27E-4	1.16E-4	ENSG00000020181	ENST00000416514;ENST00000315215;ENST00000412232	T;T	0.60299	0.2;0.25	5.19	5.19	0.71726	Immunoglobulin subtype (1);Immunoglobulin-like fold (1);	0.135299	0.51477	D	0.000096	T	0.76111	0.3942	M	0.70275	2.135	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.79108	0.992;0.97	T	0.78553	-0.2160	10	0.66056	D	0.02	-37.0163	18.7204	0.91691	0.0:1.0:0.0:0.0	.	255;255	Q96PE1-2;Q96PE1	.;GP124_HUMAN	C	248;255;255	ENSP00000323508:R255C;ENSP00000406367:R255C	ENSP00000323508:R255C	R	+	1	0	GPR124	37807430	1.000000	0.71417	0.997000	0.53966	0.987000	0.75469	3.846000	0.55888	2.429000	0.82318	0.655000	0.94253	CGC		0.657	GPR124-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000343331.2			T	37688272	C	T	37688272	3	4	685	1	0	0	0	0	1	0	0	0	6645	536	19	1	768	1	GPR124	8	37688272	Missense_Mutation	SNP	C	TCGA-KO-8415-01A-11D-2310-10	34424690	37688272	108675750	28	44359										
TG	7038	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr8	134145788	134145788	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ctggcctgactttgtaccccGtgctggtggagagaactaca	12	11	0	2	rs531167775		TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr8:134145788G>A	ENST00000220616.4	+	47	8112	c.8072G>A	c.(8071-8073)cGt>cAt	p.R2691H	TG_ENST00000519543.1_Missense_Mutation_p.R824H|TG_ENST00000542445.1_Missense_Mutation_p.R1061H|TG_ENST00000377869.1_Missense_Mutation_p.R2634H	NM_003235.4	NP_003226.4	P01266	THYG_HUMAN	thyroglobulin	2691					hormone biosynthetic process (GO:0042446)|iodide transport (GO:0015705)|regulation of myelination (GO:0031641)|signal transduction (GO:0007165)|thyroid gland development (GO:0030878)|thyroid hormone generation (GO:0006590)	extracellular region (GO:0005576)|extracellular space (GO:0005615)				NS(1)|breast(11)|central_nervous_system(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(34)|liver(2)|lung(59)|ovary(9)|pancreas(2)|prostate(6)|skin(7)|stomach(4)|upper_aerodigestive_tract(4)|urinary_tract(8)	168	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TTTGTACCCCGTGCTGGTGGA	0.502													G|||	1	0.000199681	0.0	0.0	5008	,	,		19855	0.0		0.0	False		,,,				2504	0.001															0													124	116	119					8																	134145788		2203	4300	6503	SO:0001583	missense	7038			AU141420	CCDS34944.1	8q24	2012-10-02			ENSG00000042832	ENSG00000042832			11764	protein-coding gene	gene with protein product		188450					Standard	NM_003235		Approved	TGN, AITD3	uc003ytw.3	P01266	OTTHUMG00000164649	ENST00000220616.4:c.8072G>A	8.37:g.134145788G>A	ENSP00000220616:p.Arg2691His	Somatic		WXS	Illumina HiSeq	Phase_I	O15274|O43899|Q15593|Q15948|Q9NYR1|Q9NYR2|Q9UMZ0|Q9UNY3	Missense_Mutation	SNP	ENST00000220616.4	37	CCDS34944.1	.	.	.	.	.	.	.	.	.	.	G	0.003	-2.459928	0.00171	.	.	ENSG00000042832	ENST00000377869;ENST00000543313;ENST00000220616;ENST00000535932;ENST00000542445;ENST00000519543;ENST00000521107	T;T;T;T;T	0.67865	-0.29;-0.29;-0.29;-0.29;1.0	4.84	-3.18	0.05186	Carboxylesterase, type B (1);	1.420510	0.04377	N	0.360115	T	0.37839	0.1018	N	0.04880	-0.145	0.09310	N	1	B;B;B	0.06786	0.001;0.001;0.0	B;B;B	0.06405	0.001;0.0;0.002	T	0.41251	-0.9519	10	0.02654	T	1	.	7.5366	0.27714	0.5152:0.1139:0.3709:0.0	.	824;1061;2691	E7EVM0;F5GWW5;P01266	.;.;THYG_HUMAN	H	2634;1497;2691;810;1061;824;95	ENSP00000367100:R2634H;ENSP00000220616:R2691H;ENSP00000441693:R1061H;ENSP00000430430:R824H;ENSP00000430161:R95H	ENSP00000220616:R2691H	R	+	2	0	TG	134214970	0.000000	0.05858	0.000000	0.03702	0.006000	0.05464	-0.194000	0.09559	-0.692000	0.05128	-1.134000	0.01955	CGT		0.502	TG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379606.1	NM_003235		A	134145788	G	A	134145788	3	1	685	1	0	0	0	0	1	0	0	0	15825	1145	40	1	8258	1	TG	8	134145788	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10	96457516	134145788	12218234	29	44360										
PTK2	5747	hgsc.bcm.edu;bcgsc.ca	37	chr8	141856698	141856698	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	atgtatagttatcatcttacCgtatttctagacaacccaac	4	10	3	1			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr8:141856698C>T	ENST00000522684.1	-	6	759	c.530G>A	c.(529-531)cGg>cAg	p.R177Q	PTK2_ENST00000519419.1_Splice_Site_p.R221Q|PTK2_ENST00000340930.3_Splice_Site_p.R177Q|PTK2_ENST00000395218.2_Splice_Site_p.R177Q|PTK2_ENST00000521059.1_Splice_Site_p.R177Q|PTK2_ENST00000535192.1_Splice_Site_p.R177Q|PTK2_ENST00000517887.1_Splice_Site_p.R221Q	NM_153831.3	NP_722560.1	Q05397	FAK1_HUMAN	protein tyrosine kinase 2	177	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.				angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell motility (GO:0048870)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|central nervous system neuron axonogenesis (GO:0021955)|embryo development (GO:0009790)|endothelial cell migration (GO:0043542)|ephrin receptor signaling pathway (GO:0048013)|establishment of cell polarity (GO:0030010)|establishment of nucleus localization (GO:0040023)|extracellular matrix organization (GO:0030198)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|growth hormone receptor signaling pathway (GO:0060396)|heart morphogenesis (GO:0003007)|innate immune response (GO:0045087)|integrin-mediated signaling pathway (GO:0007229)|microtubule cytoskeleton organization (GO:0000226)|negative regulation of anoikis (GO:2000811)|negative regulation of apoptotic process (GO:0043066)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of organ growth (GO:0046621)|negative regulation of synapse assembly (GO:0051964)|netrin-activated signaling pathway (GO:0038007)|neuron migration (GO:0001764)|peptidyl-tyrosine phosphorylation (GO:0018108)|placenta development (GO:0001890)|platelet activation (GO:0030168)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|protein autophosphorylation (GO:0046777)|regulation of cell adhesion mediated by integrin (GO:0033628)|regulation of cell proliferation (GO:0042127)|regulation of cell shape (GO:0008360)|regulation of cytoskeleton organization (GO:0051493)|regulation of endothelial cell migration (GO:0010594)|regulation of focal adhesion assembly (GO:0051893)|regulation of osteoblast differentiation (GO:0045667)|regulation of Rho GTPase activity (GO:0032319)|signal complex assembly (GO:0007172)|transforming growth factor beta receptor signaling pathway (GO:0007179)|vasculogenesis (GO:0001570)	apical plasma membrane (GO:0016324)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|stress fiber (GO:0001725)	actin binding (GO:0003779)|ATP binding (GO:0005524)|JUN kinase binding (GO:0008432)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|SH2 domain binding (GO:0042169)|signal transducer activity (GO:0004871)			breast(1)|central_nervous_system(1)|endometrium(8)|kidney(2)|large_intestine(6)|lung(23)|ovary(2)|prostate(1)|skin(3)|urinary_tract(1)	48	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			ATCATCTTACCGTATTTCTAG	0.323																																																0													106	99	102					8																	141856698		2203	4300	6503	SO:0001630	splice_region_variant	5747			L13616	CCDS6381.1, CCDS56557.1	8q24.3	2013-02-18	2013-02-18		ENSG00000169398	ENSG00000169398	2.7.10.1	"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	9611	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 71"	600758	"PTK2 protein tyrosine kinase 2"			8422239	Standard	NM_153831		Approved	FAK, FADK, FAK1, PPP1R71	uc003yvt.3	Q05397	OTTHUMG00000067438	ENST00000522684.1:c.530+1G>A	8.37:g.141856698C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4E2N6|F5H4S4|Q14291|Q9UD85	Missense_Mutation	SNP	ENST00000522684.1	37	CCDS6381.1	.	.	.	.	.	.	.	.	.	.	C	35	5.496021	0.96355	.	.	ENSG00000169398	ENST00000522684;ENST00000535192;ENST00000517887;ENST00000521059;ENST00000395214;ENST00000395218;ENST00000354438;ENST00000340930;ENST00000519419;ENST00000524357	T;T;T;T;T;T;T;T	0.72942	-0.7;-0.7;-0.7;-0.7;-0.7;-0.7;-0.7;1.03	5.35	5.35	0.76521	Band 4.1 domain (1);FERM central domain (2);FERM domain (1);FERM/acyl-CoA-binding protein, 3-helical bundle (1);	0.000000	0.85682	D	0.000000	D	0.85691	0.5755	M	0.82193	2.58	0.80722	D	1	D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D	0.91635	0.999;0.997;0.999;0.996;0.997;0.998	D	0.86495	0.1800	9	.	.	.	.	18.6889	0.91576	0.0:1.0:0.0:0.0	.	177;84;177;199;177;88	B4E2N6;Q59GN8;Q05397;Q658W2;Q8IYN9;Q59GM6	.;.;FAK1_HUMAN;.;.;.	Q	177;177;221;177;87;177;84;177;221;92	ENSP00000429911:R177Q;ENSP00000438009:R177Q;ENSP00000429082:R221Q;ENSP00000429474:R177Q;ENSP00000378644:R177Q;ENSP00000341189:R177Q;ENSP00000429129:R221Q;ENSP00000429001:R92Q	.	R	-	2	0	PTK2	141925880	1.000000	0.71417	1.000000	0.80357	0.875000	0.50365	6.631000	0.74277	2.504000	0.84457	0.484000	0.47621	CGG;CGG;CGG;CGG;CGG;CGG;CGG;CGG;CGG;CGA		0.323	PTK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378054.5	NM_005607	Missense_Mutation	T	141856698	C	T	141856698	5	4	685	1	0	0	0	0	0	0	1	0	12773	666	23	1	2736	1	PTK2	8	141856698	Splice_Site	SNP	C	TCGA-KO-8415-01A-11D-2310-10	7710910	141856698	4507324	30	44361										
PLEC	5339	mdanderson.org	37	chr8	144996263	144996263	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ctgccgccgctgctgctccaGctgctgcagctcctcctgct	10	19	0	0	rs11988293	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr8:144996263G>A	ENST00000322810.4	-	32	8306	c.8137C>T	c.(8137-8139)Ctg>Ttg	p.L2713L	PLEC_ENST00000527096.1_Silent_p.L2599L|PLEC_ENST00000357649.2_Silent_p.L2580L|PLEC_ENST00000345136.3_Silent_p.L2576L|PLEC_ENST00000354958.2_Silent_p.L2554L|PLEC_ENST00000354589.3_Silent_p.L2576L|PLEC_ENST00000436759.2_Silent_p.L2603L|PLEC_ENST00000356346.3_Silent_p.L2562L|PLEC_ENST00000398774.2_Silent_p.L2544L	NM_201380.2	NP_958782.1	Q15149	PLEC_HUMAN	plectin	2713	Central fibrous rod domain.				apoptotic process (GO:0006915)|cell junction assembly (GO:0034329)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)	costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|intermediate filament cytoskeleton (GO:0045111)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcoplasm (GO:0016528)	ankyrin binding (GO:0030506)|poly(A) RNA binding (GO:0044822)|structural constituent of muscle (GO:0008307)			NS(1)|breast(3)|central_nervous_system(4)|cervix(7)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(8)|lung(57)|ovary(4)|pancreas(2)|prostate(11)|skin(9)|stomach(2)|upper_aerodigestive_tract(10)	137						tgctgctccagctgctgcagc	0.721													G|||	268	0.0535144	0.1952	0.013	5008	,	,		15052	0.0		0.001	False		,,,				2504	0.0															0								G	,,,,,,,	677,3429		38,601,1414	5	6	5		7807,7684,7660,8137,7630,7726,7738,7726	3.2	0.7	8	dbSNP_120	5	6,7986		0,6,3990	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	PLEC	NM_000445.3,NM_201378.2,NM_201379.1,NM_201380.2,NM_201381.1,NM_201382.2,NM_201383.1,NM_201384.1	,,,,,,,	38,607,5404	AA,AG,GG		0.0751,16.4881,5.6456	,,,,,,,	2603/4575,2562/4534,2554/4526,2713/4685,2544/4516,2576/4548,2580/4552,2576/4548	144996263	683,11415	2053	3996	6049	SO:0001819	synonymous_variant	5339			U53204	CCDS43769.1, CCDS43770.1, CCDS43771.1, CCDS43772.1, CCDS43773.1, CCDS43774.1, CCDS43775.1, CCDS47936.1	8q24	2010-02-04	2010-02-04	2010-02-04	ENSG00000178209	ENSG00000178209			9069	protein-coding gene	gene with protein product		601282	"plectin 1, intermediate filament binding protein, 500kD", "epidermolysis bullosa simplex 1 (Ogna)", "plectin 1, intermediate filament binding protein 500kDa"	EBS1, PLEC1		8633055, 8696340	Standard	XM_005250976		Approved	PCN, PLTN	uc003zaf.1	Q15149	OTTHUMG00000165291	ENST00000322810.4:c.8137C>T	8.37:g.144996263G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q15148|Q16640|Q6S376|Q6S377|Q6S378|Q6S379|Q6S380|Q6S381|Q6S382|Q6S383	Silent	SNP	ENST00000322810.4	37	CCDS43772.1																																																																																				0.721	PLEC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383281.1	NM_000445		A	144996263	G	A	144996263	2	1	685	1	0	0	0	0	0	0	0	1	12059	962	34	2		2	PLEC	8	144996263	Silent	SNP	G	TCGA-KO-8415-01A-11D-2310-10	3139565	144996263	1367759	31	44362										
GLIS3	169792	mdanderson.org	37	chr9	4118111	4118111	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ggtaagggggtggggggcctGggggcggcggcagaggaggg	28	5	0	1	rs6415788	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr9:4118111G>T	ENST00000324333.10	-	3	1095	c.902C>A	c.(901-903)cCa>cAa	p.P301Q	GLIS3_ENST00000381971.3_Missense_Mutation_p.P456Q	NM_152629.3	NP_689842.3	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3	301	Pro-rich.		P -> Q (in dbSNP:rs6415788). {ECO:0000269|PubMed:15489334}.		negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription from RNA polymerase II promoter (GO:0006366)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(12)|lung(4)|ovary(2)|prostate(1)|skin(1)	26		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		tggggggcctgggggcggcgg	0.731													T|||	3386	0.676118	0.6006	0.7622	5008	,	,		9673	0.874		0.6302	False		,,,				2504	0.5603															0								T	GLN/PRO,GLN/PRO	2499,1143		894,711,216	8	11	10		1367,902	5.4	1	9	dbSNP_116	10	4958,2542		1716,1526,508	yes	missense,missense	GLIS3	NM_001042413.1,NM_152629.3	76,76	2610,2237,724	TT,TG,GG		33.8933,31.3839,33.0731	benign,benign	456/931,301/776	4118111	7457,3685	1821	3750	5571	SO:0001583	missense	169792			BC033899	CCDS6451.1, CCDS43784.1	9p24.2	2008-05-02	2004-07-16	2004-07-16	ENSG00000107249	ENSG00000107249		"Zinc fingers, C2H2-type"	28510	protein-coding gene	gene with protein product		610192	"zinc finger protein 515"	ZNF515		14500813	Standard	NM_152629		Approved	MGC33662	uc003zhx.1	Q8NEA6	OTTHUMG00000019463	ENST00000324333.10:c.902C>A	9.37:g.4118111G>T	ENSP00000325494:p.Pro301Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B1AL19|Q1PHK5	Missense_Mutation	SNP	ENST00000324333.10	37	CCDS6451.1	1503	0.6881868131868132	289	0.5873983739837398	261	0.7209944751381215	500	0.8741258741258742	453	0.5976253298153035	T	1.187	-0.636435	0.03557	0.686161	0.661067	ENSG00000107249	ENST00000324333;ENST00000381971	T;T	0.10192	2.92;2.9	5.37	5.37	0.77165	.	0.000000	0.47852	N	0.000210	T	0.00012	0.0000	N	0.01048	-1.04	0.42193	P	0.008264000000000049	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.34576	-0.9823	9	0.02654	T	1	.	12.6151	0.56571	0.0:0.0:0.1388:0.8612	rs6415788;rs13294473;rs59237658;rs6415788	456;301	Q8NEA6-2;Q8NEA6	.;GLIS3_HUMAN	Q	301;456	ENSP00000325494:P301Q;ENSP00000371398:P456Q	ENSP00000325494:P301Q	P	-	2	0	GLIS3	4108111	1.000000	0.71417	0.971000	0.41717	0.160000	0.22226	4.123000	0.57917	0.872000	0.35775	-0.256000	0.11100	CCA		0.731	GLIS3-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000051559.1	NM_152629		T	4118111	G	T	4118111	3	4	685	1	0	0	0	0	1	0	0	0	6454	1348	47	4	1457	4	GLIS3	9	4118111	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10		4118111	137095320	32	44363										
LAMC3	10319	mdanderson.org	37	chr9	133884820	133884820	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gccgcgggcgcgggggctcaTtgccagcgctgcgacgccgc	18	16	1	0	rs3739512	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr9:133884820T>G	ENST00000361069.4	+	1	352	c.219T>G	c.(217-219)caT>caG	p.H73Q	LAMC3_ENST00000480883.1_3'UTR	NM_006059.3	NP_006050.3	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3	73	Laminin N-terminal. {ECO:0000255|PROSITE- ProRule:PRU00466}.				astrocyte development (GO:0014002)|cell adhesion (GO:0007155)|cell morphogenesis involved in differentiation (GO:0000904)|extracellular matrix organization (GO:0030198)|retina development in camera-type eye (GO:0060041)|visual perception (GO:0007601)	basement membrane (GO:0005604)|extracellular region (GO:0005576)|membrane (GO:0016020)|proteinaceous extracellular matrix (GO:0005578)	structural molecule activity (GO:0005198)			endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(12)|lung(31)|ovary(3)|pancreas(1)|prostate(3)|upper_aerodigestive_tract(2)|urinary_tract(3)	69	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		cgggggcTCATTGCCAGCGCT	0.731													G|||	3285	0.65595	0.8011	0.5504	5008	,	,		9081	0.8611		0.4533	False		,,,				2504	0.5317															0								G	GLN/HIS	2801,873		1125,551,161	6	5	6		219	3	0.6	9	dbSNP_107	6	3292,3800		842,1608,1096	no	missense	LAMC3	NM_006059.3	24	1967,2159,1257	GG,GT,TT		46.4185,23.7616,43.4052	benign	73/1576	133884820	6093,4673	1837	3546	5383	SO:0001583	missense	10319			AF041835	CCDS6938.1	9q31-q34	2013-03-01			ENSG00000050555	ENSG00000050555		"Laminins"	6494	protein-coding gene	gene with protein product		604349				10225960	Standard	NM_006059		Approved	DKFZp434E202	uc004caa.1	Q9Y6N6	OTTHUMG00000020819	ENST00000361069.4:c.219T>G	9.37:g.133884820T>G	ENSP00000354360:p.His73Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B1APX9|B1APY0|Q59H72	Missense_Mutation	SNP	ENST00000361069.4	37	CCDS6938.1	1392	0.6373626373626373	369	0.75	198	0.5469613259668509	486	0.8496503496503497	339	0.4472295514511873	G	4.105	0.017662	0.07959	0.762384	0.464185	ENSG00000050555	ENST00000361069;ENST00000355048;ENST00000320021	T	0.73681	-0.77	3.94	3.0	0.34707	Laminin, N-terminal (3);	0.518974	0.20363	N	0.093816	T	0.00012	0.0000	N	0.00224	-1.81	0.49798	P	1.7699999999998273E-4	B	0.02656	0.0	B	0.01281	0.0	T	0.39761	-0.9598	9	0.18710	T	0.47	.	8.2046	0.31446	0.0:0.327:0.5045:0.1685	rs3739512	73	Q9Y6N6	LAMC3_HUMAN	Q	73	ENSP00000354360:H73Q	ENSP00000325873:H73Q	H	+	3	2	LAMC3	132874641	1.000000	0.71417	0.637000	0.29366	0.294000	0.27393	1.591000	0.36665	0.126000	0.18424	-0.648000	0.03929	CAT		0.731	LAMC3-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054717.3	NM_006059		G	133884820	T	G	133884820	3	3	685	1	0	0	0	0	1	0	0	0	8623	1490	52	5	221	5	LAMC3	9	133884820	Missense_Mutation	SNP	T	TCGA-KO-8415-01A-11D-2310-10	129766709	133884820	7328611	33	44364										
PTEN	5728	hgsc.bcm.edu	37	chr10	89720712	89720712	+	Frame_Shift_Del	DEL	A	A	-													0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	aggaccagaggaaacctcagAaaaagtagaaaatggaagtc							TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr10:89720712delA	ENST00000371953.3	+	8	2220	c.863delA	c.(862-864)gaafs	p.E288fs	PTEN_ENST00000472832.1_3'UTR	NM_000314.4	NP_000305.3	P60484	PTEN_HUMAN	phosphatase and tensin homolog	288	C2 tensin-type. {ECO:0000255|PROSITE- ProRule:PRU00589}.				activation of mitotic anaphase-promoting complex activity (GO:0007092)|aging (GO:0007568)|angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|brain morphogenesis (GO:0048854)|canonical Wnt signaling pathway (GO:0060070)|cardiac muscle tissue development (GO:0048738)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|central nervous system development (GO:0007417)|central nervous system myelin maintenance (GO:0032286)|central nervous system neuron axonogenesis (GO:0021955)|dendritic spine morphogenesis (GO:0060997)|dentate gyrus development (GO:0021542)|endothelial cell migration (GO:0043542)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|forebrain morphogenesis (GO:0048853)|heart development (GO:0007507)|innate immune response (GO:0045087)|inositol phosphate dephosphorylation (GO:0046855)|inositol phosphate metabolic process (GO:0043647)|learning or memory (GO:0007611)|locomotor rhythm (GO:0045475)|locomotory behavior (GO:0007626)|long term synaptic depression (GO:0060292)|long-term synaptic potentiation (GO:0060291)|male mating behavior (GO:0060179)|maternal behavior (GO:0042711)|memory (GO:0007613)|multicellular organismal response to stress (GO:0033555)|negative regulation of apoptotic process (GO:0043066)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell aging (GO:0090344)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031658)|negative regulation of dendritic spine morphogenesis (GO:0061002)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of myelination (GO:0031642)|negative regulation of organ growth (GO:0046621)|negative regulation of phagocytosis (GO:0050765)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of ribosome biogenesis (GO:0090071)|negative regulation of synaptic vesicle clustering (GO:2000808)|neuron-neuron synaptic transmission (GO:0007270)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell proliferation (GO:0008284)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|postsynaptic density assembly (GO:0097107)|prepulse inhibition (GO:0060134)|presynaptic membrane assembly (GO:0097105)|prostate gland growth (GO:0060736)|protein dephosphorylation (GO:0006470)|protein kinase B signaling (GO:0043491)|protein stabilization (GO:0050821)|regulation of B cell apoptotic process (GO:0002902)|regulation of cellular component size (GO:0032535)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of myeloid cell apoptotic process (GO:0033032)|regulation of neuron projection development (GO:0010975)|regulation of protein stability (GO:0031647)|response to arsenic-containing substance (GO:0046685)|response to ATP (GO:0033198)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to ethanol (GO:0045471)|response to glucose (GO:0009749)|response to nutrient (GO:0007584)|response to zinc ion (GO:0010043)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synapse maturation (GO:0060074)|T cell receptor signaling pathway (GO:0050852)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|extracellular region (GO:0005576)|mitochondrion (GO:0005739)|myelin sheath adaxonal region (GO:0035749)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|Schmidt-Lanterman incisure (GO:0043220)	anaphase-promoting complex binding (GO:0010997)|enzyme binding (GO:0019899)|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity (GO:0051717)|lipid binding (GO:0008289)|magnesium ion binding (GO:0000287)|PDZ domain binding (GO:0030165)|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity (GO:0016314)|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity (GO:0051800)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|phosphoprotein phosphatase activity (GO:0004721)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)	p.0?(37)|p.R55fs*1(5)|p.E288fs*3(5)|p.?(2)|p.N212fs*1(2)|p.Y27fs*1(2)|p.G165_*404del(1)|p.S287fs*8(1)|p.W274_F341del(1)|p.S287fs*1(1)|p.E288fs*9(1)		NS(28)|autonomic_ganglia(2)|biliary_tract(6)|bone(5)|breast(92)|central_nervous_system(676)|cervix(26)|endometrium(1068)|eye(8)|haematopoietic_and_lymphoid_tissue(137)|kidney(24)|large_intestine(98)|liver(20)|lung(91)|meninges(2)|oesophagus(2)|ovary(82)|pancreas(6)|prostate(129)|salivary_gland(5)|skin(127)|soft_tissue(19)|stomach(30)|testis(1)|thyroid(29)|upper_aerodigestive_tract(29)|urinary_tract(12)|vulva(17)	2771		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		GAAACCTCAGAAAAAGTAGAA	0.313		31	"D, Mis, N, F, S"		"glioma,  prostate, endometrial"	"harmartoma, glioma,  prostate, endometrial"			Proteus syndrome;Juvenile Polyposis;Hereditary Mixed Polyposis Syndrome type 1;Cowden syndrome;Bannayan-Riley-Ruvalcaba syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)																												yes	Rec	yes	"Cowden Syndrome, Bannayan-Riley-Ruvalcaba syndrome"	10	10q23.3	5728	phosphatase and tensin homolog gene		"L, E, M, O"	58	Whole gene deletion(37)|Deletion - Frameshift(17)|Deletion - In frame(2)|Unknown(2)	prostate(16)|central_nervous_system(12)|endometrium(7)|skin(6)|lung(4)|haematopoietic_and_lymphoid_tissue(3)|breast(3)|ovary(3)|urinary_tract(2)|large_intestine(1)|soft_tissue(1)											57	60	59					10																	89720712		2202	4296	6498	SO:0001589	frameshift_variant	5728	Familial Cancer Database	Incl.: Encephalocraniocutaneous Lipomatosis, ECCL, Proteus-like s.;incl.: Juvenile Polyposis of the Stomach;HMPS1, Colorectal Adenoma Carcinoma syndrome, CRAC, CRAC1;CS, Cowden disease, Multiple Hamartoma Syndrome, incl.: Lhermitte-Duclos; part of PTEN hamartoma tumour syndrome (PHTS) / PTEN-MATCHS, Cowden-like syndrome;subset of PTEN-Hamartoma Tumor Syndrome; incl.: Ruvalcaba-Myhre-Smith s.	U92436	CCDS31238.1	10q23	2014-09-17	2008-07-31		ENSG00000171862	ENSG00000171862		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs"	9588	protein-coding gene	gene with protein product	"mutated in multiple advanced cancers 1"	601728		BZS, MHAM		9090379	Standard	NM_000314		Approved	MMAC1, TEP1, PTEN1	uc001kfb.3	P60484	OTTHUMG00000018688	ENST00000371953.3:c.863delA	10.37:g.89720712delA	ENSP00000361021:p.Glu288fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R904|F2YHV0|O00633|O02679|Q6ICT7	Frame_Shift_Del	DEL	ENST00000371953.3	37	CCDS31238.1																																																																																				0.313	PTEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049241.1	NM_000314		-	89720712	A	-	89720712	7	5	685	1	0	1	0	1	0	0	0	0	12748	246	9	0	893	0	PTEN	10	89720712	Frame_Shift_Del	DEL	A	TCGA-KO-8415-01A-11D-2310-10		89720712	45814035	34	44365	470	2								
PTEN	5728	bcgsc.ca	37	chr10	89720713	89720713	+	Frame_Shift_Del	DEL	A	A	-													0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ggaccagaggaaacctcagaAaaagtagaaaatggaagtct							TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr10:89720713delA	ENST00000371953.3	+	8	2221	c.864delA	c.(862-864)gaafs	p.E288fs	PTEN_ENST00000472832.1_3'UTR	NM_000314.4	NP_000305.3	P60484	PTEN_HUMAN	phosphatase and tensin homolog	288	C2 tensin-type. {ECO:0000255|PROSITE- ProRule:PRU00589}.				activation of mitotic anaphase-promoting complex activity (GO:0007092)|aging (GO:0007568)|angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|brain morphogenesis (GO:0048854)|canonical Wnt signaling pathway (GO:0060070)|cardiac muscle tissue development (GO:0048738)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|central nervous system development (GO:0007417)|central nervous system myelin maintenance (GO:0032286)|central nervous system neuron axonogenesis (GO:0021955)|dendritic spine morphogenesis (GO:0060997)|dentate gyrus development (GO:0021542)|endothelial cell migration (GO:0043542)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|forebrain morphogenesis (GO:0048853)|heart development (GO:0007507)|innate immune response (GO:0045087)|inositol phosphate dephosphorylation (GO:0046855)|inositol phosphate metabolic process (GO:0043647)|learning or memory (GO:0007611)|locomotor rhythm (GO:0045475)|locomotory behavior (GO:0007626)|long term synaptic depression (GO:0060292)|long-term synaptic potentiation (GO:0060291)|male mating behavior (GO:0060179)|maternal behavior (GO:0042711)|memory (GO:0007613)|multicellular organismal response to stress (GO:0033555)|negative regulation of apoptotic process (GO:0043066)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell aging (GO:0090344)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031658)|negative regulation of dendritic spine morphogenesis (GO:0061002)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of myelination (GO:0031642)|negative regulation of organ growth (GO:0046621)|negative regulation of phagocytosis (GO:0050765)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of ribosome biogenesis (GO:0090071)|negative regulation of synaptic vesicle clustering (GO:2000808)|neuron-neuron synaptic transmission (GO:0007270)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell proliferation (GO:0008284)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|postsynaptic density assembly (GO:0097107)|prepulse inhibition (GO:0060134)|presynaptic membrane assembly (GO:0097105)|prostate gland growth (GO:0060736)|protein dephosphorylation (GO:0006470)|protein kinase B signaling (GO:0043491)|protein stabilization (GO:0050821)|regulation of B cell apoptotic process (GO:0002902)|regulation of cellular component size (GO:0032535)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of myeloid cell apoptotic process (GO:0033032)|regulation of neuron projection development (GO:0010975)|regulation of protein stability (GO:0031647)|response to arsenic-containing substance (GO:0046685)|response to ATP (GO:0033198)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to ethanol (GO:0045471)|response to glucose (GO:0009749)|response to nutrient (GO:0007584)|response to zinc ion (GO:0010043)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synapse maturation (GO:0060074)|T cell receptor signaling pathway (GO:0050852)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|extracellular region (GO:0005576)|mitochondrion (GO:0005739)|myelin sheath adaxonal region (GO:0035749)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|Schmidt-Lanterman incisure (GO:0043220)	anaphase-promoting complex binding (GO:0010997)|enzyme binding (GO:0019899)|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity (GO:0051717)|lipid binding (GO:0008289)|magnesium ion binding (GO:0000287)|PDZ domain binding (GO:0030165)|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity (GO:0016314)|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity (GO:0051800)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|phosphoprotein phosphatase activity (GO:0004721)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)	p.0?(37)|p.R55fs*1(5)|p.?(2)|p.N212fs*1(2)|p.Y27fs*1(2)|p.G165_*404del(1)|p.E288fs*8(1)|p.S287fs*8(1)|p.W274_F341del(1)|p.S287fs*1(1)|p.E288fs*3(1)		NS(28)|autonomic_ganglia(2)|biliary_tract(6)|bone(5)|breast(92)|central_nervous_system(676)|cervix(26)|endometrium(1068)|eye(8)|haematopoietic_and_lymphoid_tissue(137)|kidney(24)|large_intestine(98)|liver(20)|lung(91)|meninges(2)|oesophagus(2)|ovary(82)|pancreas(6)|prostate(129)|salivary_gland(5)|skin(127)|soft_tissue(19)|stomach(30)|testis(1)|thyroid(29)|upper_aerodigestive_tract(29)|urinary_tract(12)|vulva(17)	2771		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		AAACCTCAGAAAAAGTAGAAA	0.308		31	"D, Mis, N, F, S"		"glioma,  prostate, endometrial"	"harmartoma, glioma,  prostate, endometrial"			Proteus syndrome;Juvenile Polyposis;Hereditary Mixed Polyposis Syndrome type 1;Cowden syndrome;Bannayan-Riley-Ruvalcaba syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)																												yes	Rec	yes	"Cowden Syndrome, Bannayan-Riley-Ruvalcaba syndrome"	10	10q23.3	5728	phosphatase and tensin homolog gene		"L, E, M, O"	54	Whole gene deletion(37)|Deletion - Frameshift(13)|Deletion - In frame(2)|Unknown(2)	prostate(16)|central_nervous_system(12)|skin(6)|endometrium(4)|lung(4)|haematopoietic_and_lymphoid_tissue(3)|breast(3)|ovary(3)|urinary_tract(2)|soft_tissue(1)											57	61	60					10																	89720713		2202	4296	6498	SO:0001589	frameshift_variant	5728	Familial Cancer Database	Incl.: Encephalocraniocutaneous Lipomatosis, ECCL, Proteus-like s.;incl.: Juvenile Polyposis of the Stomach;HMPS1, Colorectal Adenoma Carcinoma syndrome, CRAC, CRAC1;CS, Cowden disease, Multiple Hamartoma Syndrome, incl.: Lhermitte-Duclos; part of PTEN hamartoma tumour syndrome (PHTS) / PTEN-MATCHS, Cowden-like syndrome;subset of PTEN-Hamartoma Tumor Syndrome; incl.: Ruvalcaba-Myhre-Smith s.	U92436	CCDS31238.1	10q23	2014-09-17	2008-07-31		ENSG00000171862	ENSG00000171862		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs"	9588	protein-coding gene	gene with protein product	"mutated in multiple advanced cancers 1"	601728		BZS, MHAM		9090379	Standard	NM_000314		Approved	MMAC1, TEP1, PTEN1	uc001kfb.3	P60484	OTTHUMG00000018688	ENST00000371953.3:c.864delA	10.37:g.89720713delA	ENSP00000361021:p.Glu288fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R904|F2YHV0|O00633|O02679|Q6ICT7	Frame_Shift_Del	DEL	ENST00000371953.3	37	CCDS31238.1																																																																																				0.308	PTEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049241.1	NM_000314		-	89720713	A	-	89720713	7	5	685	1	0	1	0	1	0	0	0	0	12748	11	1	0	894	0	PTEN	10	89720713	Frame_Shift_Del	DEL	A	TCGA-KO-8415-01A-11D-2310-10	1	89720713	45814034	35	44366	470	2								
MUC6	4588	mdanderson.org	37	chr11	1017068	1017068	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	agggatgtagaagttttggcCgtgctaaatgagcttgggga	16	4	0	2	rs78992004		TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr11:1017068C>T	ENST00000421673.2	-	31	5783	c.5733G>A	c.(5731-5733)acG>acA	p.T1911T		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1911	Approximate repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		AAGTTTTGGCCGTGCTAAATG	0.552																																																0																																										SO:0001819	synonymous_variant	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5733G>A	11.37:g.1017068C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Silent	SNP	ENST00000421673.2	37	CCDS44513.1																																																																																				0.552	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		T	1017068	C	T	1017068	2	4	685	1	0	0	0	0	0	0	0	1	9987	639	23	1		1	MUC6	11	1017068	Silent	SNP	C	TCGA-KO-8415-01A-11D-2310-10		1017068	133989448	36	44367			2	133		3	3	878	N	T_C_A	2.497871e-06
MUC6	4588	mdanderson.org	37	chr11	1017744	1017744	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	atgtagaggttttggctgtgTttaatgagctcagggcttgg	15	4	1	2	rs200243990		TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr11:1017744T>C	ENST00000421673.2	-	31	5107	c.5057A>G	c.(5056-5058)aAc>aGc	p.N1686S		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1686	Approximate repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		TTTGGCTGTGTTTAATGAGCT	0.562																																																0													863	836	845					11																	1017744		2200	4296	6496	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5057A>G	11.37:g.1017744T>C	ENSP00000406861:p.Asn1686Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	C	0.010	-1.750323	0.00669	.	.	ENSG00000184956	ENST00000421673	T	0.14640	2.49	1.87	-2.04	0.07343	.	.	.	.	.	T	0.02012	0.0063	N	0.00152	-1.975	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.38134	-0.9675	9	0.02654	T	1	.	6.3147	0.21184	0.0:0.2622:0.5902:0.1476	.	1686	Q6W4X9	MUC6_HUMAN	S	1686	ENSP00000406861:N1686S	ENSP00000406861:N1686S	N	-	2	0	MUC6	1007744	0.016000	0.18221	0.000000	0.03702	0.019000	0.09904	-0.366000	0.07563	-1.043000	0.03258	-0.886000	0.02939	AAC		0.562	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		C	1017744	T	C	1017744	3	2	685	1	0	0	0	0	1	0	0	0	9987	1725	60	3	2274	3	MUC6	11	1017744	Missense_Mutation	SNP	T	TCGA-KO-8415-01A-11D-2310-10	676	1017744	133988772	37	44368			2	133		3	3	878	N	T_C_A	2.497871e-06
MUC6	4588	mdanderson.org	37	chr11	1017945	1017945	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gagtcaccaaagaggtggagAaaggtggaacgtgagtggga	18	4	1	3			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr11:1017945A>G	ENST00000421673.2	-	31	4906	c.4856T>C	c.(4855-4857)tTc>tCc	p.F1619S		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1619	Approximate repeats.|Pro-rich.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		AGAGGTGGAGAAAGGTGGAAC	0.542																																																0																																										SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4856T>C	11.37:g.1017945A>G	ENSP00000406861:p.Phe1619Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	A	0.026	-1.375208	0.01214	.	.	ENSG00000184956	ENST00000421673	T	0.19669	2.13	2.39	-1.65	0.08291	.	.	.	.	.	T	0.14227	0.0344	L	0.41710	1.295	0.09310	N	1	B	0.29341	0.242	B	0.35931	0.214	T	0.39860	-0.9593	9	0.06625	T	0.88	.	6.4604	0.21954	0.6729:0.0:0.3271:0.0	.	1619	Q6W4X9	MUC6_HUMAN	S	1619	ENSP00000406861:F1619S	ENSP00000406861:F1619S	F	-	2	0	MUC6	1007945	0.000000	0.05858	0.000000	0.03702	0.010000	0.07245	-0.579000	0.05834	-0.502000	0.06596	-0.917000	0.02746	TTC		0.542	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		G	1017945	A	G	1017945	3	3	685	1	0	0	0	0	1	0	0	0	9987	246	9	3	2475	3	MUC6	11	1017945	Missense_Mutation	SNP	A	TCGA-KO-8415-01A-11D-2310-10	201	1017945	133988571	38	44369			2	133		3	3	878	N	T_C_A	2.497871e-06
MUC2	4583	mdanderson.org	37	chr11	1093311	1093311	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	accactacggtgaccccaacCccaacacccaccggcacaca	5	21	0	1			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr11:1093311C>A	ENST00000441003.2	+	30	5157	c.5130C>A	c.(5128-5130)acC>acA	p.T1710T	MUC2_ENST00000361558.6_Intron|MUC2_ENST00000333592.6_5'Flank|MUC2_ENST00000359061.5_Silent_p.T1677T	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	tgaccccaaccccaacaccca	0.637																																																0													143	189	173					11																	1093311		1906	3557	5463	SO:0001819	synonymous_variant	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.5130C>A	11.37:g.1093311C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Silent	SNP	ENST00000441003.2	37																																																																																					0.637	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		A	1093311	C	A	1093311	2	1	685	1	0	0	0	0	0	0	0	1	9982	610	22	4		4	MUC2	11	1093311	Silent	SNP	C	TCGA-KO-8415-01A-11D-2310-10	75366	1093311	133913205	39	44370										
ZNF215	7762	bcgsc.ca	37	chr11	6977554	6977554	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ggccttcagtaaaagtgaagAcagtaataatccaacactcc	7	10	1	2			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr11:6977554A>G	ENST00000278319.5	+	7	1934	c.1346A>G	c.(1345-1347)gAc>gGc	p.D449G	ZNF215_ENST00000529903.1_Intron|ZNF215_ENST00000414517.2_Missense_Mutation_p.D449G	NM_013250.2	NP_037382.2	Q9UL58	ZN215_HUMAN	zinc finger protein 215	449					regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(4)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(12)|ovary(1)|prostate(2)|skin(4)	32				Epithelial(150;6.33e-08)|BRCA - Breast invasive adenocarcinoma(625;0.134)		AAAAGTGAAGACAGTAATAAT	0.393																																																0													88	89	89					11																	6977554		2201	4296	6497	SO:0001583	missense	7762			AF056618	CCDS7775.1	11p15.4	2013-01-09			ENSG00000149054	ENSG00000149054		"Zinc fingers, C2H2-type", "-", "-", "-"	13007	protein-coding gene	gene with protein product		605016					Standard	XM_005253130		Approved	ZKSCAN11, ZSCAN43	uc001mey.3	Q9UL58	OTTHUMG00000165507	ENST00000278319.5:c.1346A>G	11.37:g.6977554A>G	ENSP00000278319:p.Asp449Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q96C84	Missense_Mutation	SNP	ENST00000278319.5	37	CCDS7775.1	.	.	.	.	.	.	.	.	.	.	A	0.179	-1.063752	0.01934	.	.	ENSG00000149054	ENST00000278319;ENST00000414517	T;T	0.06142	3.34;3.34	4.75	3.6	0.41247	.	0.322331	0.22564	N	0.058429	T	0.05181	0.0138	N	0.20881	0.62	0.46241	D	0.99894	P	0.46395	0.877	B	0.40636	0.335	T	0.42699	-0.9436	10	0.87932	D	0	-4.2538	9.1926	0.37209	0.8374:0.0:0.0:0.1626	.	449	Q9UL58	ZN215_HUMAN	G	449	ENSP00000278319:D449G;ENSP00000393202:D449G	ENSP00000278319:D449G	D	+	2	0	ZNF215	6934130	0.000000	0.05858	0.041000	0.18516	0.009000	0.06853	-1.036000	0.03560	0.922000	0.37019	0.477000	0.44152	GAC		0.393	ZNF215-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384550.1			G	6977554	A	G	6977554	3	3	685	1	0	0	0	0	1	0	0	0	17783	275	10	3	1364	3	ZNF215	11	6977554	Missense_Mutation	SNP	A	TCGA-KO-8415-01A-11D-2310-10	5884243	6977554	128028962	40	44371										
OR4X1	390113	hgsc.bcm.edu	37	chr11	48285986	48285986	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	tggcctgcgcagacaccttcTtcattagcctgctgatcatc	8	14	3	2	rs76457745		TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr11:48285986T>A	ENST00000320048.1	+	1	574	c.574T>A	c.(574-576)Ttc>Atc	p.F192I		NM_001004726.1	NP_001004726.1	Q8NH49	OR4X1_HUMAN	olfactory receptor, family 4, subfamily X, member 1 (gene/pseudogene)	192						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(11)|ovary(1)|pancreas(1)|prostate(1)|skin(5)|stomach(1)	28						AGACACCTTCTTCATTAGCCT	0.537																																																0													110	85	94					11																	48285986		2201	4298	6499	SO:0001583	missense	390113			AB065544	CCDS31487.1	11p11.2	2013-10-10	2013-10-10		ENSG00000176567	ENSG00000176567		"GPCR / Class A : Olfactory receptors"	14854	protein-coding gene	gene with protein product			"olfactory receptor, family 4, subfamily X, member 1"				Standard	NM_001004726		Approved		uc010rht.2	Q8NH49	OTTHUMG00000165301	ENST00000320048.1:c.574T>A	11.37:g.48285986T>A	ENSP00000321506:p.Phe192Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF74	Missense_Mutation	SNP	ENST00000320048.1	37	CCDS31487.1	.	.	.	.	.	.	.	.	.	.	T	4.614	0.114104	0.08831	.	.	ENSG00000176567	ENST00000320048	T	0.00030	8.9	4.4	2.51	0.30379	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.00039	0.0001	N	0.01668	-0.77	0.22745	N	0.998789	B	0.25235	0.121	B	0.24394	0.053	T	0.00485	-1.1711	9	0.17369	T	0.5	.	3.9248	0.09259	0.1875:0.6133:0.0:0.1992	.	192	Q8NH49	OR4X1_HUMAN	I	192	ENSP00000321506:F192I	ENSP00000321506:F192I	F	+	1	0	OR4X1	48242562	0.000000	0.05858	0.999000	0.59377	0.059000	0.15707	-2.231000	0.01206	1.210000	0.43336	-0.318000	0.08688	TTC		0.537	OR4X1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383373.1	NM_001004726		A	48285986	T	A	48285986	3	1	685	1	0	0	0	0	1	0	0	0	11091	1609	56	5	576	5	OR4X1	11	48285986	Missense_Mutation	SNP	T	TCGA-KO-8415-01A-11D-2310-10	41308432	48285986	86720530	41	44372										
CDC42BPG	55561	mdanderson.org	37	chr11	64601933	64601933	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	agctgggcctcctgcacctgTgtcagccgctcctgcaggcc	12	17	1	0	rs7933683	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr11:64601933T>C	ENST00000342711.5	-	19	2291	c.2292A>G	c.(2290-2292)acA>acG	p.T764T	CDC42BPG_ENST00000491280.1_5'Flank	NM_017525.2	NP_059995.2			CDC42 binding protein kinase gamma (DMPK-like)											central_nervous_system(1)|lung(3)	4						CCTGCACCTGTGTCAGCCGCT	0.706													C|||	1376	0.27476	0.0424	0.2147	5008	,	,		15170	0.4921		0.2575	False		,,,				2504	0.4254															0								C		284,3850		12,260,1795	6	7	6		2292	-6.1	0.8	11	dbSNP_116	6	1681,6531		171,1339,2596	no	coding-synonymous	CDC42BPG	NM_017525.2		183,1599,4391	CC,CT,TT		20.47,6.8699,15.9161		764/1552	64601933	1965,10381	2067	4106	6173	SO:0001819	synonymous_variant	55561			AY648038	CCDS31601.1	11q13	2013-01-10			ENSG00000171219	ENSG00000171219		"Pleckstrin homology (PH) domain containing"	29829	protein-coding gene	gene with protein product		613991				9341881, 15194684	Standard	NM_017525		Approved	HSMDPKIN, MRCKgamma, DMPK2, kappa-200	uc001obs.4	Q6DT37	OTTHUMG00000045365	ENST00000342711.5:c.2292A>G	11.37:g.64601933T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000342711.5	37	CCDS31601.1																																																																																				0.706	CDC42BPG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000105352.4	XM_290516		C	64601933	T	C	64601933	2	2	685	1	0	0	0	0	0	0	0	1	3076	1683	59	3		3	CDC42BPG	11	64601933	Silent	SNP	T	TCGA-KO-8415-01A-11D-2310-10	16315947	64601933	70404583	42	44373										
SLC2A3	6515	mdanderson.org	37	chr12	8074168	8074168	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gggactttgaagaaggtaaaAgccaagaaggtaatgaggaa	14	3	0	4			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr12:8074168A>G	ENST00000075120.7	-	10	1572	c.1332T>C	c.(1330-1332)gcT>gcC	p.A444A	SLC2A3_ENST00000543435.1_5'Flank	NM_006931.2	NP_008862.1	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose transporter), member 3	444					carbohydrate metabolic process (GO:0005975)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|L-ascorbic acid metabolic process (GO:0019852)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	glucose transmembrane transporter activity (GO:0005355)			central_nervous_system(1)|cervix(2)|endometrium(1)|kidney(3)|large_intestine(2)|lung(14)|ovary(3)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	30				Kidney(36;0.0866)		AGAAGGTAAAAGCCAAGAAGG	0.448																																					Colon(96;424 1461 14416 20933 23688)											0													79	75	77					12																	8074168		2203	4300	6503	SO:0001819	synonymous_variant	6515			M20681	CCDS8586.1	12p13.3	2013-05-22			ENSG00000059804	ENSG00000059804		"Solute carriers"	11007	protein-coding gene	gene with protein product		138170		GLUT3			Standard	NM_006931		Approved		uc001qtr.3	P11169	OTTHUMG00000133685	ENST00000075120.7:c.1332T>C	12.37:g.8074168A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R606|D3DUU6|Q6I9U2|Q9UG15	Silent	SNP	ENST00000075120.7	37	CCDS8586.1																																																																																				0.448	SLC2A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257914.1	NM_006931		G	8074168	A	G	8074168	2	3	685	1	0	0	0	0	0	0	0	1	14558	59	3	3		3	SLC2A3	12	8074168	Silent	SNP	A	TCGA-KO-8415-01A-11D-2310-10		8074168	125777727	43	44374										
TAS2R19	259294	mdanderson.org	37	chr12	11174327	11174327	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ctgttttagcttcctacttcCcataatcaggatgaatgagt	7	9	1	2	rs72475481	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr12:11174327C>T	ENST00000390673.2	-	1	892	c.844G>A	c.(844-846)Gga>Aga	p.G282R	PRR4_ENST00000536668.1_Intron|TAS2R14_ENST00000381852.4_Intron	NM_176888.1	NP_795369.1	P59542	T2R19_HUMAN	taste receptor, type 2, member 19	282					sensory perception of taste (GO:0050909)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			breast(1)|cervix(1)|large_intestine(2)|lung(10)|prostate(1)|skin(1)|stomach(1)	17						TTCCTACTTCCCATAATCAGG	0.428																																																0													120	113	115					12																	11174327		2203	4300	6503	SO:0001583	missense	259294			AX097730, AF494234	CCDS8640.1	12p13.2	2012-08-22			ENSG00000212124	ENSG00000212124		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19108	protein-coding gene	gene with protein product		613961	"taste receptor, type 2, member 48", "taste receptor, type 2, member 23"	TAS2R48, TAS2R23			Standard	NM_176888		Approved	T2R19, T2R23	uc010shj.2	P59542	OTTHUMG00000162687	ENST00000390673.2:c.844G>A	12.37:g.11174327C>T	ENSP00000375091:p.Gly282Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MIJ4|Q645X8	Missense_Mutation	SNP	ENST00000390673.2	37	CCDS8640.1	966	0.4423076923076923	167	0.3394308943089431	168	0.46408839779005523	270	0.47202797202797203	361	0.4762532981530343	C	11.62	1.692440	0.30052	.	.	ENSG00000212124	ENST00000390673	T	0.32988	1.43	2.95	2.95	0.34219	.	0.303148	0.25189	U	0.032478	T	0.00012	0.0000	M	0.64676	1.99	0.09310	N	1	P	0.46912	0.886	P	0.46585	0.521	T	0.51521	-0.8695	10	0.52906	T	0.07	.	7.4146	0.27036	0.2594:0.7406:0.0:0.0	.	282	P59542	T2R19_HUMAN	R	282	ENSP00000375091:G282R	ENSP00000375091:G282R	G	-	1	0	TAS2R19	11065594	0.000000	0.05858	0.005000	0.12908	0.003000	0.03518	-0.166000	0.09954	1.662000	0.50781	0.405000	0.27470	GGA		0.428	TAS2R19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370080.1	NM_176888		T	11174327	C	T	11174327	3	4	685	1	0	0	0	0	1	0	0	0	15582	632	22	2	58	2	TAS2R19	12	11174327	Missense_Mutation	SNP	C	TCGA-KO-8415-01A-11D-2310-10	3100159	11174327	122677568	44	44375										
TAS2R31	259290	mdanderson.org	37	chr12	11183797	11183797	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	accgccagagcagtgagaatCtggtcagcaaaagagatctt	11	9	3	3			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr12:11183797C>T	ENST00000390675.2	-	1	209	c.138G>A	c.(136-138)caG>caA	p.Q46Q	PRR4_ENST00000536668.1_Intron|TAS2R14_ENST00000381852.4_Intron	NM_176885.2	NP_795366.2	P59538	T2R31_HUMAN	taste receptor, type 2, member 31	46					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			kidney(1)|lung(6)	7						CAGTGAGAATCTGGTCAGCAA	0.378																																																0																																										SO:0001819	synonymous_variant	259290			AX097748, AF494228	CCDS53747.1	12p13.2	2012-08-22				ENSG00000256436		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19113	protein-coding gene	gene with protein product		612669	"taste receptor, type 2, member 44"	TAS2R44			Standard	NM_176885		Approved	T2R31, T2R53	uc001qzo.1	P59538		ENST00000390675.2:c.138G>A	12.37:g.11183797C>T		Somatic		WXS	Illumina HiSeq	Phase_I	P59547|Q17R84|Q645X5	Silent	SNP	ENST00000390675.2	37	CCDS53747.1																																																																																				0.378	TAS2R31-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400233.1	NM_176885		T	11183797	C	T	11183797	2	4	685	1	0	0	0	0	0	0	0	1	15586	912	32	2		2	TAS2R31	12	11183797	Silent	SNP	C	TCGA-KO-8415-01A-11D-2310-10	9470	11183797	122668098	45	44376										
GRIN2B	2904	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	13828724	13828724	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	agaagaattatcaccagtttCgggtgcatctggtagccatc	10	9	2	2	rs201952040		TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr12:13828724C>T	ENST00000609686.1	-	4	1289	c.1080G>A	c.(1078-1080)ccG>ccA	p.P360P		NM_000834.3	NP_000825.2	Q13224	NMDE2_HUMAN	glutamate receptor, ionotropic, N-methyl D-aspartate 2B	360					behavioral fear response (GO:0001662)|behavioral response to pain (GO:0048266)|detection of mechanical stimulus involved in sensory perception of pain (GO:0050966)|glutamate receptor signaling pathway (GO:0007215)|in utero embryonic development (GO:0001701)|ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|learning (GO:0007612)|learning or memory (GO:0007611)|memory (GO:0007613)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of synaptic plasticity (GO:0048167)|response to ethanol (GO:0045471)|sensory organ development (GO:0007423)|startle response (GO:0001964)|suckling behavior (GO:0001967)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transport (GO:0006810)	cell junction (GO:0030054)|cell surface (GO:0009986)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|N-methyl-D-aspartate selective glutamate receptor complex (GO:0017146)|neuron projection (GO:0043005)|neuronal postsynaptic density (GO:0097481)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|synaptic vesicle (GO:0008021)	calcium channel activity (GO:0005262)|extracellular-glutamate-gated ion channel activity (GO:0005234)|glycine binding (GO:0016594)|N-methyl-D-aspartate selective glutamate receptor activity (GO:0004972)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|central_nervous_system(5)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(3)|kidney(12)|large_intestine(12)|liver(1)|lung(70)|ovary(4)|prostate(6)|skin(10)|upper_aerodigestive_tract(5)|urinary_tract(1)	143					Acamprosate(DB00659)|Acetylcysteine(DB06151)|Atomoxetine(DB00289)|Felbamate(DB00949)|Gabapentin(DB00996)|Haloperidol(DB00502)|Ketobemidone(DB06738)|Memantine(DB01043)|Milnacipran(DB04896)|Pentobarbital(DB00312)|Pethidine(DB00454)|Phenobarbital(DB01174)|Secobarbital(DB00418)	TCACCAGTTTCGGGTGCATCT	0.373																																																0													127	124	125					12																	13828724		2203	4300	6503	SO:0001819	synonymous_variant	2904				CCDS8662.1	12p13.1	2014-07-16			ENSG00000273079			"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4586	protein-coding gene	gene with protein product		138252		NMDAR2B		1350383	Standard	NM_000834		Approved	GluN2B	uc001rbt.2	Q13224	OTTHUMG00000137373	ENST00000609686.1:c.1080G>A	12.37:g.13828724C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q12919|Q13220|Q13225|Q14CU4|Q9UM56	Silent	SNP	ENST00000609686.1	37	CCDS8662.1																																																																																				0.373	GRIN2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268014.2			T	13828724	C	T	13828724	2	4	685	1	0	0	0	0	0	0	0	1	6787	871	31	1		1	GRIN2B	12	13828724	Silent	SNP	C	TCGA-KO-8415-01A-11D-2310-10	2644927	13828724	120023171	46	44377										
IPO8	10526	bcgsc.ca	37	chr12	30787155	30787155	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ctcctcctcatcttcacctcTtccattatttgactgcattg	3	15	4	1			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr12:30787155T>C	ENST00000256079.4	-	23	3099	c.2761A>G	c.(2761-2763)Aga>Gga	p.R921G	IPO8_ENST00000544829.1_Missense_Mutation_p.R716G	NM_006390.3	NP_006381.2	O15397	IPO8_HUMAN	importin 8	921					intracellular protein transport (GO:0006886)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	Ran GTPase binding (GO:0008536)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(16)|liver(1)|lung(22)|prostate(2)|skin(2)|urinary_tract(2)	52	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)					TCTTCACCTCTTCCATTATTT	0.408																																																0													251	199	217					12																	30787155		2203	4300	6503	SO:0001583	missense	10526			U77494	CCDS8719.1, CCDS53773.1	12p11.21	2011-05-23	2003-03-11	2003-03-14	ENSG00000133704	ENSG00000133704		"Importins"	9853	protein-coding gene	gene with protein product		605600	"RAN binding protein 8"	RANBP8		9214382	Standard	NM_006390		Approved	IMP8	uc001rjd.3	O15397	OTTHUMG00000169172	ENST00000256079.4:c.2761A>G	12.37:g.30787155T>C	ENSP00000256079:p.Arg921Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7M3	Missense_Mutation	SNP	ENST00000256079.4	37	CCDS8719.1	.	.	.	.	.	.	.	.	.	.	T	7.327	0.618242	0.14129	.	.	ENSG00000133704	ENST00000256079;ENST00000545286;ENST00000544829	T;T	0.45276	1.91;0.9	5.1	-4.0	0.04057	Armadillo-type fold (1);	0.499991	0.22314	N	0.061686	T	0.13329	0.0323	N	0.02011	-0.69	0.09310	N	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.04013	0.001;0.0;0.001	T	0.25813	-1.0121	10	0.25106	T	0.35	-13.0789	9.4985	0.39004	0.0:0.1284:0.7165:0.1551	.	716;397;921	B7Z7M3;Q59F59;O15397	.;.;IPO8_HUMAN	G	921;397;716	ENSP00000256079:R921G;ENSP00000444520:R716G	ENSP00000256079:R921G	R	-	1	2	IPO8	30678422	0.015000	0.18098	0.004000	0.12327	0.330000	0.28571	1.089000	0.30890	-0.435000	0.07264	0.533000	0.62120	AGA		0.408	IPO8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402700.2	NM_006390		C	30787155	T	C	30787155	3	2	685	1	0	0	0	0	1	0	0	0	7805	1617	56	3	364	3	IPO8	12	30787155	Missense_Mutation	SNP	T	TCGA-KO-8415-01A-11D-2310-10	16958431	30787155	103064740	47	44378										
KRT5	3852	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	52913573	52913573	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gttgagggtcttgatctgctCgcgctcctcggtcctcaccc	11	15	3	2	rs59115483		TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr12:52913573C>T	ENST00000252242.4	-	1	898	c.508G>A	c.(508-510)Gag>Aag	p.E170K		NM_000424.3	NP_000415.2	P13647	K2C5_HUMAN	keratin 5	170	Coil 1A.|Rod.		E -> K (in K-EBS; dbSNP:rs59115483). {ECO:0000269|PubMed:11973334}.		cell junction assembly (GO:0034329)|epidermis development (GO:0008544)|hemidesmosome assembly (GO:0031581)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)|keratin filament (GO:0045095)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	scaffold protein binding (GO:0097110)|structural constituent of cytoskeleton (GO:0005200)			endometrium(5)|kidney(1)|large_intestine(8)|lung(15)|prostate(4)|skin(2)	35				BRCA - Breast invasive adenocarcinoma(357;0.189)		TTGATCTGCTCGCGCTCCTCG	0.498																																																0			GRCh37	CM021625	KRT5	M	rs59115483						182	175	177					12																	52913573		2203	4300	6503	SO:0001583	missense	3852				CCDS8830.1	12q13.13	2013-01-16	2008-08-01		ENSG00000186081	ENSG00000186081		"-", "Intermediate filaments type II, keratins (basic)"	6442	protein-coding gene	gene with protein product		148040	"epidermolysis bullosa simplex 2 Dowling-Meara/Kobner/Weber-Cockayne types", "keratin 5 (epidermolysis bullosa simplex, Dowling-Meara/Kobner/Weber-Cockayne types)"	EBS2		1713141, 16831889	Standard	NM_000424		Approved	KRT5A	uc001san.3	P13647	OTTHUMG00000169657	ENST00000252242.4:c.508G>A	12.37:g.52913573C>T	ENSP00000252242:p.Glu170Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PI71|Q6UBJ0|Q8TA91	Missense_Mutation	SNP	ENST00000252242.4	37	CCDS8830.1	.	.	.	.	.	.	.	.	.	.	C	24.4	4.522137	0.85600	.	.	ENSG00000186081	ENST00000252242;ENST00000456000;ENST00000549420;ENST00000551275	D;T;T	0.91631	-2.88;-1.12;-1.12	5.66	5.66	0.87406	Filament (1);	0.000000	0.64402	D	0.000019	D	0.96716	0.8928	M	0.89904	3.07	0.58432	A	0.999999	D	0.71674	0.998	D	0.64321	0.924	D	0.97086	0.9787	9	0.87932	D	0	.	19.7439	0.96243	0.0:1.0:0.0:0.0	rs59115483	170	P13647	K2C5_HUMAN	K	170;135;60;135	ENSP00000252242:E170K;ENSP00000447209:E60K;ENSP00000448041:E135K	ENSP00000252242:E170K	E	-	1	0	KRT5	51199840	1.000000	0.71417	0.963000	0.40424	0.292000	0.27327	7.818000	0.86416	2.669000	0.90835	0.655000	0.94253	GAG		0.498	KRT5-001	KNOWN	overlapping_uORF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405312.1			T	52913573	C	T	52913573	3	4	685	1	0	0	0	0	1	0	0	0	8486	893	31	1	1300	1	KRT5	12	52913573	Missense_Mutation	SNP	C	TCGA-KO-8415-01A-11D-2310-10	22126418	52913573	80938322	48	44379										
KRT76	51350	broad.mit.edu	37	chr12	53169330	53169330	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	cctgagcctgtggtctgctgCtggagcagttcccacttggt	13	12	1	1			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr12:53169330C>T	ENST00000332411.2	-	2	710	c.657G>A	c.(655-657)caG>caA	p.Q219Q		NM_015848.4	NP_056932.2	Q01546	K22O_HUMAN	keratin 76	219	Linker 1.|Rod.				cytoskeleton organization (GO:0007010)	extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)|keratin filament (GO:0045095)|nucleus (GO:0005634)	structural molecule activity (GO:0005198)			breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(10)|prostate(1)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	27						TGGTCTGCTGCTGGAGCAGTT	0.557																																																0													111	113	112					12																	53169330		2203	4300	6503	SO:0001819	synonymous_variant	51350			M99063	CCDS8838.1	12q13.13	2013-06-25			ENSG00000185069	ENSG00000185069		"-", "Intermediate filaments type II, keratins (basic)"	24430	protein-coding gene	gene with protein product						1282112, 16831889	Standard	NM_015848		Approved	HUMCYT2A, KRT2B, KRT2P	uc001sax.3	Q01546	OTTHUMG00000169797	ENST00000332411.2:c.657G>A	12.37:g.53169330C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DRR3|Q7Z795	Silent	SNP	ENST00000332411.2	37	CCDS8838.1																																																																																				0.557	KRT76-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405928.1	NM_015848		T	53169330	C	T	53169330	2	4	685	1	0	0	0	0	0	0	0	1	8496	796	28	2		2	KRT76	12	53169330	Silent	SNP	C	TCGA-KO-8415-01A-11D-2310-10	255757	53169330	80682565	49	44380										
DGKA	1606	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr12	56335069	56335069	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ctaacacccacccacttctcGtctttgtcaatcctaagagt	4	15	3	1			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr12:56335069G>A	ENST00000331886.5	+	14	1589	c.1135G>A	c.(1135-1137)Gtc>Atc	p.V379I	DGKA_ENST00000551156.1_Missense_Mutation_p.V379I|DGKA_ENST00000549079.2_3'UTR|DGKA_ENST00000394147.1_Missense_Mutation_p.V379I	NM_001345.4	NP_001336.2	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	379	DAGKc. {ECO:0000255|PROSITE- ProRule:PRU00783}.			V -> L (in Ref. 2; AAC34802). {ECO:0000305}.	blood coagulation (GO:0007596)|intracellular signal transduction (GO:0035556)|platelet activation (GO:0030168)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)	cytosol (GO:0005829)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|diacylglycerol kinase activity (GO:0004143)|NAD+ kinase activity (GO:0003951)|phospholipid binding (GO:0005543)	p.V379I(1)		breast(1)|endometrium(3)|large_intestine(1)|lung(11)|ovary(4)|pancreas(1)|skin(3)|urinary_tract(1)	25					Vitamin E(DB00163)	CCCACTTCTCGTCTTTGTCAA	0.493																																																1	Substitution - Missense(1)	pancreas(1)											115	114	114					12																	56335069		2203	4300	6503	SO:0001583	missense	1606			AF064767	CCDS8896.1	12q13.3	2013-01-10	2002-08-29			ENSG00000065357	2.7.1.107	"EF-hand domain containing"	2849	protein-coding gene	gene with protein product		125855	"diacylglycerol kinase, alpha (80kD)"	DAGK, DAGK1		8180475, 7959783	Standard	NM_001345		Approved	DGK-alpha	uc001sim.3	P23743		ENST00000331886.5:c.1135G>A	12.37:g.56335069G>A	ENSP00000328405:p.Val379Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O75481|O75482|O75483|O95217|Q3ZE25|Q8IZ56|Q8N5Q2	Missense_Mutation	SNP	ENST00000331886.5	37	CCDS8896.1	.	.	.	.	.	.	.	.	.	.	G	36	5.648661	0.96714	.	.	ENSG00000065357	ENST00000331886;ENST00000555218;ENST00000394147;ENST00000551156;ENST00000552903	T;T;T;T;T	0.50548	0.79;0.74;0.79;0.79;0.74	5.85	5.85	0.93711	Diacylglycerol kinase, catalytic domain (3);	0.000000	0.85682	D	0.000000	T	0.67392	0.2888	M	0.74389	2.26	0.80722	D	1	D;D	0.76494	0.999;0.995	P;P	0.59487	0.778;0.858	T	0.68379	-0.5424	10	0.66056	D	0.02	.	19.3175	0.94220	0.0:0.0:1.0:0.0	.	298;379	G3V4E1;P23743	.;DGKA_HUMAN	I	379;298;379;379;14	ENSP00000328405:V379I;ENSP00000451743:V298I;ENSP00000377703:V379I;ENSP00000450359:V379I;ENSP00000451518:V14I	ENSP00000328405:V379I	V	+	1	0	DGKA	54621336	1.000000	0.71417	0.998000	0.56505	0.976000	0.68499	9.241000	0.95402	2.941000	0.99782	0.655000	0.94253	GTC		0.493	DGKA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407291.1			A	56335069	G	A	56335069	3	1	685	1	0	0	0	0	1	0	0	0	4467	1145	40	1	1185	1	DGKA	12	56335069	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10	3165739	56335069	77516826	50	44381										
OAS3	4940	mdanderson.org	37	chr12	113376452	113376452	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ctgggcgccctggccgctgcCctgagggagcgcgggggccg	20	15	0	1	rs1859329	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr12:113376452C>T	ENST00000228928.7	+	1	296	c.117C>T	c.(115-117)gcC>gcT	p.A39A	OAS3_ENST00000548514.1_Silent_p.A39A|OAS3_ENST00000546638.1_3'UTR|RP1-71H24.1_ENST00000552784.1_RNA|OAS3_ENST00000551007.1_Silent_p.A39A	NM_006187.2	NP_006178.2	Q9Y6K5	OAS3_HUMAN	2'-5'-oligoadenylate synthetase 3, 100kDa	39	OAS domain 1.				cytokine-mediated signaling pathway (GO:0019221)|defense response to virus (GO:0051607)|interferon-gamma-mediated signaling pathway (GO:0060333)|negative regulation of viral genome replication (GO:0045071)|nucleobase-containing compound metabolic process (GO:0006139)|regulation of ribonuclease activity (GO:0060700)|response to virus (GO:0009615)|type I interferon signaling pathway (GO:0060337)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular space (GO:0005615)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	2'-5'-oligoadenylate synthetase activity (GO:0001730)|ATP binding (GO:0005524)|double-stranded RNA binding (GO:0003725)|metal ion binding (GO:0046872)			breast(3)|central_nervous_system(2)|endometrium(2)|kidney(3)|large_intestine(8)|lung(6)|ovary(1)|skin(2)	27						TGGCCGCTGCCCTGAGGGAGC	0.701													C|||	3937	0.786142	0.9887	0.7738	5008	,	,		12918	0.748		0.6352	False		,,,				2504	0.7157															0								C		3337,247		1556,225,11	7	8	8		117	0.8	0	12	dbSNP_92	8	5199,2777		1738,1723,527	no	coding-synonymous	OAS3	NM_006187.2		3294,1948,538	TT,TC,CC		34.817,6.8917,26.1592		39/1088	113376452	8536,3024	1792	3988	5780	SO:0001819	synonymous_variant	4940			AF063613	CCDS44981.1	12q24.2	2008-05-02	2002-08-29			ENSG00000111331			8088	protein-coding gene	gene with protein product		603351	"2'-5'-oligoadenylate synthetase 3 (100 kD)"			9790745	Standard	NM_006187		Approved		uc001tug.3	Q9Y6K5	OTTHUMG00000169795	ENST00000228928.7:c.117C>T	12.37:g.113376452C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2HJ14|Q9H3P5	Silent	SNP	ENST00000228928.7	37	CCDS44981.1																																																																																				0.701	OAS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405920.1			T	113376452	C	T	113376452	2	4	685	1	0	0	0	0	0	0	0	1	10808	610	22	2		2	OAS3	12	113376452	Silent	SNP	C	TCGA-KO-8415-01A-11D-2310-10	57041383	113376452	20475443	51	44382										
ING1	3621	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr13	111367954	111367954	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gggtggacgagttgatttgaAcgtcttcgggtcgctcggcc	16	9	1	2			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr13:111367954A>T	ENST00000375774.3	+	1	626	c.164A>T	c.(163-165)aAc>aTc	p.N55I	ING1_ENST00000464141.1_Intron|ING1_ENST00000338450.7_Intron|CARS2_ENST00000535398.1_5'Flank|ING1_ENST00000375775.3_Intron|ING1_ENST00000333219.7_Intron	NM_005537.4	NP_005528.3	Q9UK53	ING1_HUMAN	inhibitor of growth family, member 1	55					cell cycle (GO:0007049)|chromatin modification (GO:0016568)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|positive regulation of transcription, DNA-templated (GO:0045893)|protein import into nucleus (GO:0006606)|regulation of cell death (GO:0010941)	nucleus (GO:0005634)	methylated histone binding (GO:0035064)|zinc ion binding (GO:0008270)			endometrium(4)|large_intestine(6)|lung(1)|ovary(1)	12	all_lung(23;3.61e-05)|Lung NSC(43;0.00144)|Lung SC(71;0.0753)|all_neural(89;0.077)|Medulloblastoma(90;0.148)		BRCA - Breast invasive adenocarcinoma(86;0.188)			GTTGATTTGAACGTCTTCGGG	0.602																																																0													109	104	105					13																	111367954		2203	4300	6503	SO:0001583	missense	3621				CCDS9515.1, CCDS9516.1, CCDS9517.1, CCDS9518.1	13q34	2013-01-28			ENSG00000153487	ENSG00000153487		"Zinc fingers, PHD-type"	6062	protein-coding gene	gene with protein product	"inhibitor of growth 1", "tumor suppressor ING1", "growth inhibitor ING1", "growth inhibitory protein ING1"	601566				8944021, 9186514	Standard	NM_198219		Approved	p33ING1, p33ING1b, p24ING1c, p33, p47, p47ING1a	uc001vri.3	Q9UK53	OTTHUMG00000017346	ENST00000375774.3:c.164A>T	13.37:g.111367954A>T	ENSP00000364929:p.Asn55Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O00532|O43658|Q53ZR3|Q5T9G8|Q5T9G9|Q5T9H0|Q5T9H1|Q9H007|Q9HD98|Q9HD99|Q9NS83|Q9P0U6|Q9UBC6|Q9UIJ1|Q9UIJ2|Q9UIJ3|Q9UIJ4|Q9UK52	Missense_Mutation	SNP	ENST00000375774.3	37	CCDS9517.1	.	.	.	.	.	.	.	.	.	.	A	14.79	2.639445	0.47153	.	.	ENSG00000153487	ENST00000375774	T	0.38077	1.16	4.32	4.32	0.51571	.	0.225560	0.42294	D	0.000738	T	0.29976	0.0750	N	0.19112	0.55	0.27004	N	0.964843	D	0.58268	0.982	P	0.49140	0.601	T	0.11743	-1.0575	10	0.87932	D	0	-12.9249	9.7925	0.40715	1.0:0.0:0.0:0.0	.	55	Q9UK53	ING1_HUMAN	I	55	ENSP00000364929:N55I	ENSP00000364929:N55I	N	+	2	0	ING1	110165955	1.000000	0.71417	1.000000	0.80357	0.671000	0.39405	4.220000	0.58567	1.809000	0.52856	0.459000	0.35465	AAC		0.602	ING1-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000045770.2	NM_005537		T	111367954	A	T	111367954	3	4	685	1	0	0	0	0	1	0	0	0	7742	43	2	5	314	5	ING1	13	111367954	Missense_Mutation	SNP	A	TCGA-KO-8415-01A-11D-2310-10		111367954	3801924	52	44383										
OR4M1	441670	mdanderson.org	37	chr14	20248760	20248760	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gtggagaggaagataatttcCtttggtggatgcattgcaca	13	5	0	2			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr14:20248760C>A	ENST00000315957.4	+	1	360	c.279C>A	c.(277-279)tcC>tcA	p.S93S		NM_001005500.1	NP_001005500.1	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M, member 1	93						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.S93S(1)		NS(1)|breast(1)|endometrium(1)|large_intestine(4)|lung(32)|prostate(1)|skin(2)	42	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AGATAATTTCCTTTGGTGGAT	0.448																																																1	Substitution - coding silent(1)	large_intestine(1)											252	273	266					14																	20248760		2203	4300	6503	SO:0001819	synonymous_variant	441670				CCDS32021.1	14q11.2	2013-09-23			ENSG00000176299	ENSG00000176299		"GPCR / Class A : Olfactory receptors"	14735	protein-coding gene	gene with protein product							Standard	NM_001005500		Approved		uc010tku.2	Q8NGD0	OTTHUMG00000170599	ENST00000315957.4:c.279C>A	14.37:g.20248760C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B9EH18|Q6IFA3	Silent	SNP	ENST00000315957.4	37	CCDS32021.1																																																																																				0.448	OR4M1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409770.1			A	20248760	C	A	20248760	2	1	685	1	0	0	0	0	0	0	0	1	11082	668	24	4		4	OR4M1	14	20248760	Silent	SNP	C	TCGA-KO-8415-01A-11D-2310-10		20248760	87100780	53	44384										
EVL	51466	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr14	100595075	100595075	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	agctggggccaagctgagaaGagtccaacgggtaagagctc	15	9	0	3			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr14:100595075G>T	ENST00000402714.2	+	6	1305	c.701G>T	c.(700-702)aGa>aTa	p.R234I	EVL_ENST00000392920.3_Missense_Mutation_p.R236I|EVL_ENST00000544450.2_Missense_Mutation_p.R240I			Q9UI08	EVL_HUMAN	Enah/Vasp-like	234	EVH2 block A.|EVH2.				actin filament organization (GO:0007015)|actin polymerization or depolymerization (GO:0008154)|axon guidance (GO:0007411)|cell surface receptor signaling pathway (GO:0007166)|negative regulation of epithelial cell migration (GO:0010633)|negative regulation of ruffle assembly (GO:1900028)|nervous system development (GO:0007399)|organ morphogenesis (GO:0009887)|positive regulation of actin filament polymerization (GO:0030838)|positive regulation of stress fiber assembly (GO:0051496)|protein homotetramerization (GO:0051289)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|membrane (GO:0016020)	profilin binding (GO:0005522)|SH3 domain binding (GO:0017124)			cervix(1)|large_intestine(5)|lung(3)|ovary(3)|urinary_tract(2)	14		Melanoma(154;0.152)				AAGCTGAGAAGAGTCCAACGG	0.657																																																0													27	30	29					14																	100595075		2196	4293	6489	SO:0001583	missense	51466			AF112209	CCDS9955.1	14q32.2	2014-08-13			ENSG00000196405	ENSG00000196405			20234	protein-coding gene	gene with protein product						10945997, 10993894	Standard	NM_016337		Approved	RNB6	uc001ygu.3	Q9UI08	OTTHUMG00000171530	ENST00000402714.2:c.701G>T	14.37:g.100595075G>T	ENSP00000384720:p.Arg234Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K105|O95884|Q7Z522|Q8TBV1|Q9UF25|Q9UIC2	Missense_Mutation	SNP	ENST00000402714.2	37		.	.	.	.	.	.	.	.	.	.	G	21.5	4.154557	0.78114	.	.	ENSG00000196405	ENST00000402714;ENST00000544450;ENST00000392920;ENST00000539470;ENST00000557384;ENST00000554695	T;T;T;T	0.72167	-0.62;-0.63;-0.63;0.64	5.2	4.27	0.50696	.	0.064953	0.56097	D	0.000025	T	0.78616	0.4311	M	0.76574	2.34	0.58432	D	0.999999	B;D;D	0.71674	0.006;0.998;0.996	B;P;P	0.59703	0.005;0.862;0.731	T	0.80513	-0.1349	10	0.87932	D	0	-21.3881	8.6814	0.34212	0.0758:0.0:0.7728:0.1514	.	240;236;234	B7Z3I5;Q9UI08-2;Q9UI08	.;.;EVL_HUMAN	I	234;240;236;199;130;51	ENSP00000384720:R234I;ENSP00000437904:R240I;ENSP00000376652:R236I;ENSP00000450979:R130I	ENSP00000376652:R236I	R	+	2	0	EVL	99664828	1.000000	0.71417	0.995000	0.50966	0.931000	0.56810	4.238000	0.58688	2.422000	0.82143	0.655000	0.94253	AGA		0.657	EVL-006	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000413958.1			T	100595075	G	T	100595075	3	4	685	1	0	0	0	0	1	0	0	0	5293	942	33	4	729	4	EVL	14	100595075	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10	80346315	100595075	6754465	54	44385										
KIF26A	26153	mdanderson.org	37	chr14	104643721	104643721	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	agccctggcggccctgtggcCggtcccagagcagccccacg	14	18	0	1	rs2487301	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr14:104643721C>A	ENST00000423312.2	+	12	4596	c.4596C>A	c.(4594-4596)gcC>gcA	p.A1532A	KIF26A_ENST00000315264.7_Silent_p.A1393A	NM_015656.1	NP_056471.1	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	1532					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|blood coagulation (GO:0007596)|enteric nervous system development (GO:0048484)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|negative regulation of signal transduction (GO:0009968)|regulation of cell growth by extracellular stimulus (GO:0001560)	cytosol (GO:0005829)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|microtubule binding (GO:0008017)|microtubule motor activity (GO:0003777)			autonomic_ganglia(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(8)|pancreas(1)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)	21		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		GCCCTGTGGCCGGTCCCAGAG	0.731													C|||	2298	0.458866	0.7383	0.2911	5008	,	,		13223	0.372		0.3419	False		,,,				2504	0.41															0								C		2061,1315		665,731,292	4	6	5		4596	-7.6	0	14	dbSNP_100	5	2447,5087		528,1391,1848	no	coding-synonymous	KIF26A	NM_015656.1		1193,2122,2140	AA,AC,CC		32.4794,38.9514,41.3199		1532/1883	104643721	4508,6402	1688	3767	5455	SO:0001819	synonymous_variant	26153			AB033062	CCDS45171.1	14q32.33	2009-03-19			ENSG00000066735	ENSG00000066735		"Kinesins"	20226	protein-coding gene	gene with protein product		613231				10574462, 11416179	Standard	NM_015656		Approved	KIAA1236, DKFZP434N178	uc001yos.4	Q9ULI4	OTTHUMG00000154986	ENST00000423312.2:c.4596C>A	14.37:g.104643721C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TAZ7|Q96GK3|Q9UFL3	Silent	SNP	ENST00000423312.2	37	CCDS45171.1																																																																																				0.731	KIF26A-002	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414356.1			A	104643721	C	A	104643721	2	1	685	1	0	0	0	0	0	0	0	1	8301	639	23	4		4	KIF26A	14	104643721	Silent	SNP	C	TCGA-KO-8415-01A-11D-2310-10	4048646	104643721	2705819	55	44386										
C15orf43	145645	mdanderson.org	37	chr15	45253735	45253735	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ccacagaaataagaagaaaaAttggtagttttatttgggaa	9	3	0	3	rs77033860	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr15:45253735A>T	ENST00000340827.3	+	4	318	c.301A>T	c.(301-303)Att>Ttt	p.I101F	RNU6-1332P_ENST00000516666.1_RNA	NM_152448.2	NP_689661.1	Q8NHR7	CO043_HUMAN	chromosome 15 open reading frame 43	101										NS(1)|breast(2)|large_intestine(1)|lung(2)|skin(2)	8		all_cancers(109;3.68e-08)|all_epithelial(112;1.05e-06)|Lung NSC(122;1.42e-05)|all_lung(180;0.000112)|Melanoma(134;0.0192)		all cancers(107;7.64e-17)|GBM - Glioblastoma multiforme(94;2.03e-06)		AAGAAGAAAAATTGGTAGTTT	0.289																																																0													63	60	61					15																	45253735		2198	4293	6491	SO:0001583	missense	145645			BC029537	CCDS10115.1	15q21.1	2006-02-03			ENSG00000167014	ENSG00000167014			28520	protein-coding gene	gene with protein product							Standard	NM_152448		Approved	MGC33951	uc001zuk.4	Q8NHR7	OTTHUMG00000131264	ENST00000340827.3:c.301A>T	15.37:g.45253735A>T	ENSP00000340644:p.Ile101Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000340827.3	37	CCDS10115.1	.	.	.	.	.	.	.	.	.	.	A	13.56	2.274786	0.40194	.	.	ENSG00000167014	ENST00000340827	T	0.49139	0.79	4.4	3.26	0.37387	.	0.243069	0.31909	N	0.006868	T	0.35008	0.0917	L	0.29908	0.895	0.37417	D	0.913478	P	0.35383	0.498	B	0.37943	0.261	T	0.30621	-0.9972	10	0.48119	T	0.1	.	8.141	0.31082	0.7769:0.2231:0.0:0.0	.	101	Q8NHR7	CO043_HUMAN	F	101	ENSP00000340644:I101F	ENSP00000340644:I101F	I	+	1	0	C15orf43	43041027	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	0.732000	0.26072	0.650000	0.30769	0.448000	0.29417	ATT		0.289	C15orf43-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254032.1	NM_152448		T	45253735	A	T	45253735	3	4	685	1	0	0	0	0	1	0	0	0	1799	101	4	5	315	5	C15orf43	15	45253735	Missense_Mutation	SNP	A	TCGA-KO-8415-01A-11D-2310-10		45253735	57277657	56	44387										
CPPED1	55313	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	12798816	12798816	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gggtgttgccaatgtcatggTtgccgctgacaaggaccagt	14	9	1	1	rs3748982		TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr16:12798816T>A	ENST00000381774.4	-	3	620	c.380A>T	c.(379-381)aAc>aTc	p.N127I	CPPED1_ENST00000433677.2_Intron|CPPED1_ENST00000261660.4_Intron	NM_018340.2	NP_060810.2	Q9BRF8	CPPED_HUMAN	calcineurin-like phosphoesterase domain containing 1	127	Catalytic.					cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	metal ion binding (GO:0046872)|phosphoprotein phosphatase activity (GO:0004721)			cervix(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(10)|skin(1)|urinary_tract(1)	18						AATGTCATGGTTGCCGCTGAC	0.627																																																0													66	71	69					16																	12798816		2093	4219	6312	SO:0001583	missense	55313			AK022710	CCDS42119.1, CCDS42120.1	16p13.12	2014-02-12	2009-03-13		ENSG00000103381	ENSG00000103381			25632	protein-coding gene	gene with protein product	"complete S transactivated protein 1"	615603				12477932	Standard	NM_018340		Approved	CSTP1, FLJ11151	uc002dca.4	Q9BRF8	OTTHUMG00000167711	ENST00000381774.4:c.380A>T	16.37:g.12798816T>A	ENSP00000371193:p.Asn127Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B4DQ68|Q6MZY9|Q9H9M9|Q9NUT6	Missense_Mutation	SNP	ENST00000381774.4	37	CCDS42120.1	.	.	.	.	.	.	.	.	.	.	T	17.05	3.290732	0.59976	.	.	ENSG00000103381	ENST00000381774	D	0.99304	-5.72	5.7	5.7	0.88788	Metallophosphoesterase domain (1);	0.000000	0.85682	D	0.000000	D	0.99518	0.9828	M	0.92923	3.36	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.98268	1.0502	10	0.87932	D	0	-38.6905	13.9242	0.63952	0.0:0.0:0.0:1.0	.	127	Q9BRF8	CPPED_HUMAN	I	127	ENSP00000371193:N127I	ENSP00000371193:N127I	N	-	2	0	CPPED1	12706317	1.000000	0.71417	1.000000	0.80357	0.027000	0.11550	7.740000	0.84986	2.169000	0.68431	0.528000	0.53228	AAC		0.627	CPPED1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395795.2	NM_018340		A	12798816	T	A	12798816	3	1	685	1	0	0	0	0	1	0	0	0	3824	1725	60	5	572	5	CPPED1	16	12798816	Missense_Mutation	SNP	T	TCGA-KO-8415-01A-11D-2310-10		12798816	77555937	57	44388										
CCDC135	84229	broad.mit.edu;mdanderson.org	37	chr16	57760055	57760055	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	cagagcgcgtgtttctggtcGcggaggagcgcatccagctg	16	11	1	1	rs542227091	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr16:57760055G>A	ENST00000360716.3	+	14	2055	c.1834G>A	c.(1834-1836)Gcg>Acg	p.A612T	CCDC135_ENST00000394337.4_Missense_Mutation_p.A612T|CCDC135_ENST00000336825.8_Missense_Mutation_p.A547T			Q8IY82	CC135_HUMAN		612					cell differentiation (GO:0030154)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|motile cilium (GO:0031514)		p.A612T(1)		breast(1)|central_nervous_system(2)|cervix(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(12)|ovary(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	30						GTTTCTGGTCGCGGAGGAGCG	0.632													g|||	4	0.000798722	0.0008	0.0	5008	,	,		16364	0.003		0.0	False		,,,				2504	0.0															1	Substitution - Missense(1)	lung(1)											56	48	51					16																	57760055		2198	4298	6496	SO:0001583	missense	84229																														ENST00000360716.3:c.1834G>A	16.37:g.57760055G>A	ENSP00000353942:p.Ala612Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K943|Q8NAA0|Q9H080	Missense_Mutation	SNP	ENST00000360716.3	37	CCDS10787.1	.	.	.	.	.	.	.	.	.	.	g	6.322	0.427552	0.11987	.	.	ENSG00000159625	ENST00000394337;ENST00000336825;ENST00000360716	T;T;T	0.10192	3.07;2.9;3.07	4.87	-9.73	0.00512	.	3.226540	0.00864	N	0.001941	T	0.04679	0.0127	N	0.22421	0.69	0.09310	N	1	B;B	0.16396	0.017;0.016	B;B	0.09377	0.004;0.004	T	0.36163	-0.9759	10	0.15499	T	0.54	0.6512	0.4774	0.00542	0.2806:0.1555:0.3011:0.2629	.	547;612	Q8IY82-2;Q8IY82	.;CC135_HUMAN	T	612;547;612	ENSP00000377869:A612T;ENSP00000338938:A547T;ENSP00000353942:A612T	ENSP00000338938:A547T	A	+	1	0	CCDC135	56317556	0.000000	0.05858	0.000000	0.03702	0.029000	0.11900	-5.390000	0.00126	-1.869000	0.01141	0.655000	0.94253	GCG		0.632	CCDC135-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000433323.2			A	57760055	G	A	57760055	3	1	685	1	0	0	0	0	1	0	0	0	2771	1087	38	1	1880	1	CCDC135	16	57760055	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10	44961239	57760055	32594698	58	44389										
LCAT	3931	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr16	67974324	67974324	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	tccagggggaggtggtggttAtgcgctgctcctctttcagc	15	10	2	0			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr16:67974324A>T	ENST00000264005.5	-	6	835	c.806T>A	c.(805-807)aTa>aAa	p.I269K		NM_000229.1	NP_000220.1	P04180	LCAT_HUMAN	lecithin-cholesterol acyltransferase	269					cholesterol esterification (GO:0034435)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|cholesterol transport (GO:0030301)|high-density lipoprotein particle remodeling (GO:0034375)|lipoprotein biosynthetic process (GO:0042158)|lipoprotein metabolic process (GO:0042157)|phosphatidylcholine biosynthetic process (GO:0006656)|phospholipid metabolic process (GO:0006644)|regulation of high-density lipoprotein particle assembly (GO:0090107)|reverse cholesterol transport (GO:0043691)|small molecule metabolic process (GO:0044281)|very-low-density lipoprotein particle remodeling (GO:0034372)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|high-density lipoprotein particle (GO:0034364)	apolipoprotein A-I binding (GO:0034186)|phosphatidylcholine-sterol O-acyltransferase activity (GO:0004607)			cervix(4)|endometrium(4)|large_intestine(1)|lung(6)|ovary(1)	16		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00418)|Epithelial(162;0.0183)|all cancers(182;0.12)		GGTGGTGGTTATGCGCTGCTC	0.582																																																0													139	120	126					16																	67974324		2198	4300	6498	SO:0001583	missense	3931				CCDS10854.1	16q22.1	2012-10-02			ENSG00000213398	ENSG00000213398	2.3.1.43		6522	protein-coding gene	gene with protein product		606967					Standard	NM_000229		Approved		uc002euy.1	P04180	OTTHUMG00000137551	ENST00000264005.5:c.806T>A	16.37:g.67974324A>T	ENSP00000264005:p.Ile269Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q53XQ3	Missense_Mutation	SNP	ENST00000264005.5	37	CCDS10854.1	.	.	.	.	.	.	.	.	.	.	A	14.64	2.594408	0.46214	.	.	ENSG00000213398	ENST00000264005	D	0.95377	-3.69	5.89	3.57	0.40892	.	0.119263	0.56097	U	0.000039	D	0.93497	0.7925	M	0.81682	2.555	0.47737	D	0.999503	B	0.20164	0.042	B	0.18871	0.023	D	0.90033	0.4136	10	0.52906	T	0.07	-18.912	4.8882	0.13713	0.6798:0.1586:0.1616:0.0	.	269	P04180	LCAT_HUMAN	K	269	ENSP00000264005:I269K	ENSP00000264005:I269K	I	-	2	0	LCAT	66531825	1.000000	0.71417	0.622000	0.29159	0.962000	0.63368	6.155000	0.71833	1.064000	0.40671	0.459000	0.35465	ATA		0.582	LCAT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268885.3			T	67974324	A	T	67974324	3	4	685	1	0	0	0	0	1	0	0	0	8665	449	16	5	520	5	LCAT	16	67974324	Missense_Mutation	SNP	A	TCGA-KO-8415-01A-11D-2310-10	10214269	67974324	22380429	59	44390										
NCOR1	9611	mdanderson.org	37	chr17	16068464	16068464	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ggagcttcatgtttgcctccGaatgctggatcctttagaga	11	9	1	1	rs200311165	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr17:16068464G>A	ENST00000268712.3	-	5	704	c.447C>T	c.(445-447)ttC>ttT	p.F149F	NCOR1_ENST00000395851.1_Silent_p.F149F|NCOR1_ENST00000395848.1_Silent_p.F40F	NM_006311.3	NP_006302.2	O75376	NCOR1_HUMAN	nuclear receptor corepressor 1	149	Interaction with ZBTB33 and HEXIM1.				CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation (GO:0002361)|cellular lipid metabolic process (GO:0044255)|cholesterol homeostasis (GO:0042632)|chromatin modification (GO:0016568)|circadian regulation of gene expression (GO:0032922)|definitive erythrocyte differentiation (GO:0060318)|gene expression (GO:0010467)|negative regulation of JNK cascade (GO:0046329)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|positive regulation of histone deacetylation (GO:0031065)|regulation of fatty acid transport (GO:2000191)|regulation of glycolytic process by negative regulation of transcription from RNA polymerase II promoter (GO:0072362)|regulation of lipid transport by negative regulation of transcription from RNA polymerase II promoter (GO:0072368)|regulation of multicellular organism growth (GO:0040014)|small molecule metabolic process (GO:0044281)|spindle assembly (GO:0051225)|thalamus development (GO:0021794)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle microtubule (GO:0005876)|transcription factor complex (GO:0005667)|transcriptional repressor complex (GO:0017053)	chromatin binding (GO:0003682)|histone deacetylase binding (GO:0042826)|histone deacetylase regulator activity (GO:0035033)|nuclear hormone receptor binding (GO:0035257)|RNA polymerase II activating transcription factor binding (GO:0001102)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)|transcription regulatory region DNA binding (GO:0044212)			NS(2)|breast(13)|central_nervous_system(2)|cervix(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(17)|lung(26)|ovary(1)|prostate(7)|skin(2)|upper_aerodigestive_tract(6)|urinary_tract(10)	107				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		GTTTGCCTCCGAATGCTGGAT	0.378																																																0													107	99	102					17																	16068464		2203	4300	6503	SO:0001819	synonymous_variant	9611			AF044209	CCDS11175.1, CCDS54094.1, CCDS54095.1	17p11.2	2014-06-12	2010-06-10		ENSG00000141027	ENSG00000141027			7672	protein-coding gene	gene with protein product	"thyroid hormone- and retinoic acid receptor-associated corepressor 1", "protein phosphatase 1, regulatory subunit 109"	600849	"nuclear receptor co-repressor 1"			7566114, 9724795	Standard	NM_006311		Approved	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216, PPP1R109	uc002gpo.3	O75376	OTTHUMG00000059309	ENST00000268712.3:c.447C>T	17.37:g.16068464G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3DLF8|E9PGV6|Q86YY0|Q9UPV5|Q9UQ18	Silent	SNP	ENST00000268712.3	37	CCDS11175.1																																																																																				0.378	NCOR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131751.5	NM_006311		A	16068464	G	A	16068464	2	1	685	1	0	0	0	0	0	0	0	1	10242	1049	37	1		1	NCOR1	17	16068464	Silent	SNP	G	TCGA-KO-8415-01A-11D-2310-10		16068464	65126746	60	44391										
CCDC144NL	339184	mdanderson.org	37	chr17	20768803	20768803	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	atgtggtgatgaaccctttgCtcatgcagatgacaatactc	9	9	1	4	rs561339792|rs76135364	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr17:20768803C>T	ENST00000327925.5	-	4	710	c.591G>A	c.(589-591)gaG>gaA	p.E197E	RP11-344E13.3_ENST00000577537.1_RNA|CCDC144NL_ENST00000539484.1_5'UTR	NM_001004306.1	NP_001004306.1	Q6NUI1	C144L_HUMAN	coiled-coil domain containing 144 family, N-terminal like	197										large_intestine(3)|lung(3)|skin(1)	7						GAACCCTTTGCTCATGCAGAT	0.348																																																0													82	76	78					17																	20768803		2203	4299	6502	SO:0001819	synonymous_variant	339184				CCDS32591.1	17p11.2	2009-01-15			ENSG00000205212	ENSG00000205212			33735	protein-coding gene	gene with protein product							Standard	NM_001004306		Approved	MGC87631	uc002gyf.3	Q6NUI1	OTTHUMG00000132271	ENST00000327925.5:c.591G>A	17.37:g.20768803C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000327925.5	37	CCDS32591.1																																																																																				0.348	CCDC144NL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255361.2	NM_001004306		T	20768803	C	T	20768803	2	4	685	1	0	0	0	0	0	0	0	1	2781	796	28	2		2	CCDC144NL	17	20768803	Silent	SNP	C	TCGA-KO-8415-01A-11D-2310-10	4700339	20768803	60426407	61	44392										
CCDC144NL	339184	mdanderson.org	37	chr17	20769964	20769964	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	cagagccacgtcatctgctcCaccgtaccacaggcgactcc	8	18	2	1	rs79395366	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr17:20769964C>A	ENST00000327925.5	-	3	587	c.468G>T	c.(466-468)gtG>gtT	p.V156V	RP11-344E13.3_ENST00000417232.2_RNA|RP11-344E13.3_ENST00000577537.1_RNA|RP11-344E13.3_ENST00000439794.2_RNA|RP11-344E13.3_ENST00000583962.1_RNA|CCDC144NL_ENST00000539484.1_5'UTR|RP11-344E13.3_ENST00000577860.1_RNA|RP11-344E13.3_ENST00000582324.1_RNA	NM_001004306.1	NP_001004306.1	Q6NUI1	C144L_HUMAN	coiled-coil domain containing 144 family, N-terminal like	156										large_intestine(3)|lung(3)|skin(1)	7						tcatctgctccaccgtaccac	0.612																																																0													69	45	53					17																	20769964		2137	4143	6280	SO:0001819	synonymous_variant	339184				CCDS32591.1	17p11.2	2009-01-15			ENSG00000205212	ENSG00000205212			33735	protein-coding gene	gene with protein product							Standard	NM_001004306		Approved	MGC87631	uc002gyf.3	Q6NUI1	OTTHUMG00000132271	ENST00000327925.5:c.468G>T	17.37:g.20769964C>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000327925.5	37	CCDS32591.1																																																																																				0.612	CCDC144NL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255361.2	NM_001004306		A	20769964	C	A	20769964	2	1	685	1	0	0	0	0	0	0	0	1	2781	581	21	4		4	CCDC144NL	17	20769964	Silent	SNP	C	TCGA-KO-8415-01A-11D-2310-10	1161	20769964	60425246	62	44393										
KRT34	3885	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	39535652	39535652	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ctccagggcgttgactgtgcGtctcagctcgatgatctccg	12	13	2	2			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr17:39535652G>A	ENST00000394001.1	-	5	985	c.955C>T	c.(955-957)Cgc>Tgc	p.R319C		NM_021013.3	NP_066293.2	O76011	KRT34_HUMAN	keratin 34	319	Coil 2.|Rod.				epidermis development (GO:0008544)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)	structural molecule activity (GO:0005198)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(4)|lung(9)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	25		Breast(137;0.000496)				TTGACTGTGCGTCTCAGCTCG	0.582																																																0													136	110	119					17																	39535652		2203	4300	6503	SO:0001583	missense	3885			Y16790	CCDS11390.1	17q21.2	2013-01-16	2006-07-17	2006-07-17	ENSG00000131737	ENSG00000131737		"-", "Intermediate filaments type I, keratins (acidic)"	6452	protein-coding gene	gene with protein product	"hard keratin type I 4"	602763	"keratin, hair, acidic, 4"	KRTHA4		2431943, 9756910, 16831889	Standard	NM_021013		Approved	Ha-4	uc002hwm.3	O76011	OTTHUMG00000133436	ENST00000394001.1:c.955C>T	17.37:g.39535652G>A	ENSP00000377570:p.Arg319Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUT8|Q8N4W2	Missense_Mutation	SNP	ENST00000394001.1	37	CCDS11390.1	.	.	.	.	.	.	.	.	.	.	g	13.59	2.282843	0.40394	.	.	ENSG00000131737	ENST00000394001;ENST00000251648	.	.	.	4.9	4.9	0.64082	Filament (1);	0.000000	0.64402	D	0.000004	T	0.69405	0.3107	M	0.75085	2.285	0.50813	D	0.999899	P	0.50710	0.938	P	0.46825	0.528	T	0.76258	-0.3025	9	0.87932	D	0	.	17.4103	0.87484	0.0:0.0:1.0:0.0	.	319	O76011	KRT34_HUMAN	C	277;319	.	ENSP00000251648:R319C	R	-	1	0	KRT34	36789178	1.000000	0.71417	1.000000	0.80357	0.058000	0.15608	4.309000	0.59135	2.422000	0.82143	0.555000	0.69702	CGC		0.582	KRT34-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257304.3	NM_021013		A	39535652	G	A	39535652	3	1	685	1	0	0	0	0	1	0	0	0	8478	1145	40	1	367	1	KRT34	17	39535652	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10	18765688	39535652	41659558	63	44394										
DSC3	1825	broad.mit.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr18	28604440	28604440	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ctgctgaatatccatctgcaGttgacgcataagcaatcaac	7	11	2	2			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr18:28604440G>T	ENST00000360428.4	-	6	730	c.650C>A	c.(649-651)aCt>aAt	p.T217N	DSC3_ENST00000434452.1_Missense_Mutation_p.T217N	NM_001941.3	NP_001932.2	Q14574	DSC3_HUMAN	desmocollin 3	217	Cadherin 1. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|in utero embryonic development (GO:0001701)|protein stabilization (GO:0050821)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|desmosome (GO:0030057)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|gamma-catenin binding (GO:0045295)			endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(6)|lung(29)|ovary(2)|prostate(1)|skin(5)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	56			OV - Ovarian serous cystadenocarcinoma(10;0.125)			TCCATCTGCAGTTGACGCATA	0.403																																																0													62	65	64					18																	28604440		2203	4300	6503	SO:0001583	missense	1825			X83929	CCDS32810.1	18q12.1	2014-07-30			ENSG00000134762	ENSG00000134762		"Cadherins / Major cadherins"	3037	protein-coding gene	gene with protein product		600271		DSC4		7774948, 8486729	Standard	NM_001941		Approved	CDHF3, DSC, DSC1, DSC2	uc002kwj.4	Q14574	OTTHUMG00000179622	ENST00000360428.4:c.650C>A	18.37:g.28604440G>T	ENSP00000353608:p.Thr217Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A6NN35|Q14200|Q9HAZ9	Missense_Mutation	SNP	ENST00000360428.4	37	CCDS32810.1	.	.	.	.	.	.	.	.	.	.	G	12.97	2.098160	0.37048	.	.	ENSG00000134762	ENST00000360428;ENST00000434452	T;T	0.45668	0.89;0.89	4.9	4.9	0.64082	Cadherin (4);Cadherin-like (1);	.	.	.	.	T	0.58878	0.2153	L	0.48935	1.535	0.31889	N	0.617423	B;D	0.76494	0.443;0.999	B;D	0.74674	0.425;0.984	T	0.62690	-0.6801	9	0.56958	D	0.05	.	17.3669	0.87366	0.0:0.0:1.0:0.0	.	217;217	Q14574;Q14574-2	DSC3_HUMAN;.	N	217	ENSP00000353608:T217N;ENSP00000392068:T217N	ENSP00000353608:T217N	T	-	2	0	DSC3	26858438	0.999000	0.42202	0.387000	0.26183	0.146000	0.21551	4.619000	0.61218	2.691000	0.91804	0.655000	0.94253	ACT		0.403	DSC3-001	KNOWN	non_canonical_genome_sequence_error|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000447384.1	NM_001941, NM_024423		T	28604440	G	T	28604440	3	4	685	1	0	0	0	0	1	0	0	0	4769	1029	36	4	2115	4	DSC3	18	28604440	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10		28604440	49472808	64	44395										
C19orf6	91304	mdanderson.org	37	chr19	1010406	1010406	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	atggaggccgggctaggcccGcctaccgcagcccccagggg	16	16	0	0	rs62131162	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr19:1010406G>A	ENST00000356663.3	-	11	1927	c.1806C>T	c.(1804-1806)ggC>ggT	p.G602G	TMEM259_ENST00000333175.5_3'UTR	NM_001033026.1	NP_001028198.1	Q4ZIN3	MBRL_HUMAN	transmembrane protein 259	602						cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)											GGCTAGGCCCGCCTACCGCAG	0.741													N|||	505	0.100839	0.1278	0.098	5008	,	,		11980	0.001		0.1322	False		,,,				2504	0.137															0									,	328,3510		20,288,1611	3	4	4		1806,	-2.6	0	19	dbSNP_129	4	874,6922		40,794,3064	no	coding-synonymous,utr-3	C19orf6	NM_001033026.1,NM_033420.3	,	60,1082,4675	AA,AG,GG		11.2109,8.5461,10.3318	,	602/621,	1010406	1202,10432	1919	3898	5817	SO:0001819	synonymous_variant	91304			BC008957	CCDS12052.1, CCDS32862.1	19p13.3	2013-02-06	2013-02-06	2013-02-06	ENSG00000182087	ENSG00000182087			17039	protein-coding gene	gene with protein product	"membralin", "aspecific BCL2 ARE-binding protein 1"	611011	"chromosome 19 open reading frame 6"	C19orf6		12638133, 16084606	Standard	XM_005259675		Approved	MGC4022, ASBABP1, MBRL	uc002lqr.1	Q4ZIN3		ENST00000356663.3:c.1806C>T	19.37:g.1010406G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60392|Q8NF79|Q96H30	Silent	SNP	ENST00000356663.3	37	CCDS32862.1																																																																																				0.741	TMEM259-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000458236.1	NM_033420		A	1010406	G	A	1010406	2	1	685	1	0	0	0	0	0	0	0	1	1943	1074	38	1		1	C19orf6	19	1010406	Silent	SNP	G	TCGA-KO-8415-01A-11D-2310-10		1010406	58118577	65	44396										
SIN3B	23309	hgsc.bcm.edu;ucsc.edu	37	chr19	16982119	16982119	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gagggcagcatcgaccccacGcagtacgaggacaccctacg	12	15	0	0			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr19:16982119G>A	ENST00000248054.5	+	14	2523	c.2502G>A	c.(2500-2502)acG>acA	p.T834T	SIN3B_ENST00000595541.1_Silent_p.T424T|SIN3B_ENST00000379803.1_Silent_p.T866T					SIN3 transcription regulator family member B											endometrium(4)|kidney(2)|large_intestine(8)|lung(8)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	26						TCGACCCCACGCAGTACGAGG	0.627																																																0													115	96	103					19																	16982119		2203	4300	6503	SO:0001819	synonymous_variant	23309			AB014600	CCDS32946.1, CCDS74308.1	19p13.12	2013-08-21	2013-08-21						19354	protein-coding gene	gene with protein product		607777	"SIN3 homolog B, transcription regulator (yeast)", "SIN3 transcription regulator homolog B (yeast)"			9734811	Standard	XM_005259832		Approved	KIAA0700	uc002ney.2	O75182		ENST00000248054.5:c.2502G>A	19.37:g.16982119G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000248054.5	37																																																																																					0.627	SIN3B-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000462846.1	NM_015260		A	16982119	G	A	16982119	2	1	685	1	0	0	0	0	0	0	0	1	14339	1074	38	1		1	SIN3B	19	16982119	Silent	SNP	G	TCGA-KO-8415-01A-11D-2310-10	15971713	16982119	42146864	66	44397										
MAST3	23031	broad.mit.edu;mdanderson.org	37	chr19	18245714	18245714	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	actggtgggccatgggcgtcGtcctctatgagtttctggtg	15	9	2	1			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr19:18245714G>A	ENST00000262811.6	+	16	1705	c.1705G>A	c.(1705-1707)Gtc>Atc	p.V569I		NM_015016.1	NP_055831.1	O60307	MAST3_HUMAN	microtubule associated serine/threonine kinase 3	569	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.						ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(8)|lung(6)|ovary(4)|pancreas(1)|stomach(1)	31						CATGGGCGTCGTCCTCTATGA	0.632																																																0													98	106	103					19																	18245714		2062	4217	6279	SO:0001583	missense	23031			AB011133	CCDS46014.1	19p13	2008-02-05				ENSG00000099308			19036	protein-coding gene	gene with protein product		612258					Standard	NM_015016		Approved	KIAA0561	uc002nhz.4	O60307		ENST00000262811.6:c.1705G>A	19.37:g.18245714G>A	ENSP00000262811:p.Val569Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q7LDZ8|Q9UPI0	Missense_Mutation	SNP	ENST00000262811.6	37	CCDS46014.1	.	.	.	.	.	.	.	.	.	.	G	5.645	0.303656	0.10678	.	.	ENSG00000099308	ENST00000262811	T	0.24723	1.84	4.8	0.811	0.18739	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.270108	0.40728	N	0.001035	T	0.07188	0.0182	N	0.02334	-0.595	0.32713	N	0.511322	B	0.06786	0.001	B	0.06405	0.002	T	0.42666	-0.9438	10	0.02654	T	1	-29.6574	8.0084	0.30338	0.8171:0.0:0.1829:0.0	.	569	O60307	MAST3_HUMAN	I	569	ENSP00000262811:V569I	ENSP00000262811:V569I	V	+	1	0	MAST3	18106714	1.000000	0.71417	0.983000	0.44433	0.967000	0.64934	2.549000	0.45803	0.249000	0.21456	0.313000	0.20887	GTC		0.632	MAST3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466526.2	XM_038150		A	18245714	G	A	18245714	3	1	685	1	0	0	0	0	1	0	0	0	9333	1145	40	1	1767	1	MAST3	19	18245714	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10	1263595	18245714	40883269	67	44398										
HAPLN4	404037	mdanderson.org	37	chr19	19369435	19369435	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gcatcaccgccgccccctgcActcccggtcccccccaggcc	8	25	1	0	rs2074295	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr19:19369435A>G	ENST00000291481.7	-	4	777	c.714T>C	c.(712-714)agT>agC	p.S238S	AC138430.4_ENST00000586064.2_RNA	NM_023002.2	NP_075378.1	Q86UW8	HPLN4_HUMAN	hyaluronan and proteoglycan link protein 4	238	Link 1. {ECO:0000255|PROSITE- ProRule:PRU00323, ECO:0000305}.				cell adhesion (GO:0007155)	proteinaceous extracellular matrix (GO:0005578)	hyaluronic acid binding (GO:0005540)	p.S238S(1)		NS(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(7)|pancreas(1)|prostate(1)	16			Epithelial(12;0.00575)		Hyaluronan(DB08818)	CGCCCCCTGCACTCCCGGTCC	0.701													G|||	1768	0.353035	0.4675	0.3213	5008	,	,		12281	0.2589		0.2117	False		,,,				2504	0.4632															1	Substitution - coding silent(1)	haematopoietic_and_lymphoid_tissue(1)						G		1881,2525	599.7+/-389.3	404,1073,726	30	29	29		714	1.8	0	19	dbSNP_96	29	1941,6655	695.8+/-404.8	217,1507,2574	no	coding-synonymous	HAPLN4	NM_023002.2		621,2580,3300	GG,GA,AA		22.5803,42.6918,29.3955		238/403	19369435	3822,9180	2203	4298	6501	SO:0001819	synonymous_variant	404037			AB107883	CCDS12398.1	19p13.1	2013-01-11						"Immunoglobulin superfamily / V-set domain containing"	31357	protein-coding gene	gene with protein product	"brain link protein 2"					12663660	Standard	NM_023002		Approved	BRAL2, KIAA1926	uc002nmb.3	Q86UW8		ENST00000291481.7:c.714T>C	19.37:g.19369435A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A5PKW5|Q96PW2	Silent	SNP	ENST00000291481.7	37	CCDS12398.1																																																																																				0.701	HAPLN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460117.2	NM_023002		G	19369435	A	G	19369435	2	3	685	1	0	0	0	0	0	0	0	1	6964	156	6	3		3	HAPLN4	19	19369435	Silent	SNP	A	TCGA-KO-8415-01A-11D-2310-10	1123721	19369435	39759548	68	44399										
ARHGAP33	115703	broad.mit.edu	37	chr19	36278799	36278799	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gagtccctttcgctccatgcCccccgacaggctcaatgcct	8	18	1	0			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr19:36278799C>T	ENST00000007510.4	+	21	3476	c.3332C>T	c.(3331-3333)cCc>cTc	p.P1111L	AC002398.5_ENST00000433059.1_lincRNA|ARHGAP33_ENST00000314737.5_Missense_Mutation_p.P950L|ARHGAP33_ENST00000378944.5_Missense_Mutation_p.P947L			O14559	RHG33_HUMAN	Rho GTPase activating protein 33	1111					protein transport (GO:0015031)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|plasma membrane (GO:0005886)	phosphatidylinositol binding (GO:0035091)|Rac GTPase activator activity (GO:0030675)			endometrium(7)|large_intestine(8)|lung(13)|ovary(1)|pancreas(1)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	37						CGCTCCATGCCCCCCGACAGG	0.647																																																0													22	24	23					19																	36278799		2202	4299	6501	SO:0001583	missense	115703			AY044864	CCDS12477.1, CCDS54254.1	19q13.13	2011-06-29	2010-02-19	2010-02-19		ENSG00000004777		"Rho GTPase activating proteins"	23085	protein-coding gene	gene with protein product		614902	"sorting nexin 26"	SNX26		12297274, 12461558	Standard	NM_052948		Approved	FLJ39019, TCGAP	uc002obs.2	O14559		ENST00000007510.4:c.3332C>T	19.37:g.36278799C>T	ENSP00000007510:p.Pro1111Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O14552|O14560|Q6ZSP6|Q96CP3|Q9NT23	Missense_Mutation	SNP	ENST00000007510.4	37		.	.	.	.	.	.	.	.	.	.	C	14.39	2.521279	0.44866	.	.	ENSG00000004777	ENST00000007510;ENST00000314737;ENST00000378944	T;T;T	0.25085	2.53;1.82;2.2	4.85	4.85	0.62838	.	0.000000	0.45606	D	0.000359	T	0.17323	0.0416	N	0.14661	0.345	0.58432	D	0.999999	P;P	0.40731	0.728;0.728	B;B	0.39217	0.294;0.294	T	0.06110	-1.0845	10	0.24483	T	0.36	.	17.0835	0.86604	0.0:1.0:0.0:0.0	.	947;950	O14559-10;O14559-11	.;.	L	1111;950;947	ENSP00000007510:P1111L;ENSP00000320038:P950L;ENSP00000368227:P947L	ENSP00000007510:P1111L	P	+	2	0	ARHGAP33	40970639	0.997000	0.39634	1.000000	0.80357	0.617000	0.37484	3.755000	0.55197	2.421000	0.82119	0.462000	0.41574	CCC		0.647	ARHGAP33-201	KNOWN	basic	protein_coding	protein_coding		NM_052948		T	36278799	C	T	36278799	3	4	685	1	0	0	0	0	1	0	0	0	882	623	22	2	3414	2	ARHGAP33	19	36278799	Missense_Mutation	SNP	C	TCGA-KO-8415-01A-11D-2310-10	16909364	36278799	22850184	69	44400										
FBL	2091	broad.mit.edu	37	chr19	40331124	40331124	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ctttttcctccccgaccacgAccccggttgccaccagaatg	7	18	0	1			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr19:40331124A>G	ENST00000221801.3	-	3	326	c.213T>C	c.(211-213)ggT>ggC	p.G71G	FBL_ENST00000593503.1_5'Flank	NM_001436.3	NP_001427.2	P22087	FBRL_HUMAN	fibrillarin	71	DMA/Gly-rich.				histone glutamine methylation (GO:1990258)|osteoblast differentiation (GO:0001649)|rRNA processing (GO:0006364)|snoRNA metabolic process (GO:0016074)|tRNA processing (GO:0008033)	box C/D snoRNP complex (GO:0031428)|Cajal body (GO:0015030)|extracellular vesicular exosome (GO:0070062)|granular component (GO:0001652)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	histone-glutamine methyltransferase activity (GO:1990259)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			endometrium(1)|kidney(1)|large_intestine(4)|lung(2)|ovary(1)	9	all_cancers(60;5.79e-06)|all_lung(34;5.2e-08)|Lung NSC(34;6.14e-08)|Ovarian(47;0.06)	Renal(1328;0.000518)|Hepatocellular(1079;0.0893)	Epithelial(26;5.74e-25)|OV - Ovarian serous cystadenocarcinoma(5;3.13e-24)|all cancers(26;8.59e-23)	GBM - Glioblastoma multiforme(1328;0.000826)|STAD - Stomach adenocarcinoma(1328;0.138)		CCCGACCACGACCCCGGTTGC	0.587																																																0													213	190	198					19																	40331124		2203	4300	6503	SO:0001819	synonymous_variant	2091			AC005393	CCDS12545.1	19q13.1	2010-02-17			ENSG00000105202	ENSG00000105202			3599	protein-coding gene	gene with protein product		134795				1846968, 2026646	Standard	NM_001436		Approved	RNU3IP1, FLRN, FIB	uc002omn.3	P22087		ENST00000221801.3:c.213T>C	19.37:g.40331124A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B5BUE8|O75259|Q6IAT5|Q9UPI6	Silent	SNP	ENST00000221801.3	37	CCDS12545.1																																																																																				0.587	FBL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462509.4	NM_001436		G	40331124	A	G	40331124	2	3	685	1	0	0	0	0	0	0	0	1	5703	262	10	3		3	FBL	19	40331124	Silent	SNP	A	TCGA-KO-8415-01A-11D-2310-10	4052325	40331124	18797859	70	44401										
ZNF615	284370	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr19	52505118	52505118	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gttgtgcaagtttcttctccTcgttccaatttggagagtgc	10	9	2	1			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr19:52505118T>G	ENST00000602063.1	-	5	535	c.186A>C	c.(184-186)cgA>cgC	p.R62R	ZNF615_ENST00000594083.1_Silent_p.R62R|ZNF615_ENST00000376716.5_Silent_p.R62R|ZNF615_ENST00000598071.1_Silent_p.R62R|ZNF615_ENST00000595114.1_5'Flank|ZNF615_ENST00000391795.3_Silent_p.R67R|ZNF615_ENST00000597747.1_Silent_p.R62R			Q8N8J6	ZN615_HUMAN	zinc finger protein 615	62	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(12)|ovary(5)|prostate(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(2)	42		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		TTTCTTCTCCTCGTTCCAATT	0.463																																																0													183	141	155					19																	52505118		2203	4300	6503	SO:0001819	synonymous_variant	284370			AK096691	CCDS12846.1, CCDS59418.1	19q13.41	2013-01-08						"Zinc fingers, C2H2-type", "-"	24740	protein-coding gene	gene with protein product						12477932	Standard	NM_001199324		Approved	FLJ33710	uc002pyf.2	Q8N8J6		ENST00000602063.1:c.186A>C	19.37:g.52505118T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKW9|Q2M2Y6|Q5CZB0|Q6ZMT7|Q6ZRB3	Silent	SNP	ENST00000602063.1	37	CCDS12846.1																																																																																				0.463	ZNF615-009	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462391.1	NM_198480		G	52505118	T	G	52505118	2	3	685	1	0	0	0	0	0	0	0	1	18052	1538	54	5		5	ZNF615	19	52505118	Silent	SNP	T	TCGA-KO-8415-01A-11D-2310-10	12173994	52505118	6623865	71	44402										
VN1R2	317701	broad.mit.edu	37	chr19	53762250	53762250	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	tgaaagtaaaagccccgacaTacattggtctctccaatatc	6	11	1	1			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr19:53762250T>C	ENST00000341702.3	+	1	706	c.622T>C	c.(622-624)Tac>Cac	p.Y208H		NM_173856.2	NP_776255.2	Q8NFZ6	VN1R2_HUMAN	vomeronasal 1 receptor 2	208					response to pheromone (GO:0019236)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	pheromone receptor activity (GO:0016503)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(6)|lung(15)|skin(1)|upper_aerodigestive_tract(1)	31				GBM - Glioblastoma multiforme(134;0.00301)		AGCCCCGACATACATTGGTCT	0.473																																																0													54	54	54					19																	53762250		2203	4300	6503	SO:0001583	missense	317701			AF370359	CCDS12862.1	19q13.42	2012-08-22			ENSG00000196131	ENSG00000196131		"Vomeronasal receptors / Type 1", "GPCR / Unclassified : Vomeronasal receptors, type 1"	19872	protein-coding gene	gene with protein product						12123587	Standard	NM_173856		Approved	V1RL2	uc002qbi.2	Q8NFZ6		ENST00000341702.3:c.622T>C	19.37:g.53762250T>C	ENSP00000351244:p.Tyr208His	Somatic		WXS	Illumina HiSeq	Phase_I	A1L411|Q8TDU4	Missense_Mutation	SNP	ENST00000341702.3	37	CCDS12862.1	.	.	.	.	.	.	.	.	.	.	T	8.543	0.873682	0.17322	.	.	ENSG00000196131	ENST00000341702	T	0.05199	3.48	2.94	1.92	0.25849	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.06690	0.0171	L	0.39147	1.195	0.09310	N	1	P	0.37548	0.599	B	0.41135	0.348	T	0.34004	-0.9846	9	0.42905	T	0.14	.	4.7136	0.12884	0.0:0.2716:0.0:0.7284	.	208	Q8NFZ6	VN1R2_HUMAN	H	208	ENSP00000351244:Y208H	ENSP00000351244:Y208H	Y	+	1	0	VN1R2	58454062	0.000000	0.05858	0.004000	0.12327	0.058000	0.15608	0.011000	0.13264	0.560000	0.29169	0.486000	0.48141	TAC		0.473	VN1R2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464285.1	NM_173856		C	53762250	T	C	53762250	3	2	685	1	0	0	0	0	1	0	0	0	17191	1406	49	3	624	3	VN1R2	19	53762250	Missense_Mutation	SNP	T	TCGA-KO-8415-01A-11D-2310-10	1257132	53762250	5366733	72	44403										
ZNF628	89887	mdanderson.org	37	chr19	55994240	55994240	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	cgtcgccaccgccacgtgcaCactggcgagaggccccacgc	12	19	0	1	rs12981044	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr19:55994240C>T	ENST00000598519.1	+	3	2233	c.1680C>T	c.(1678-1680)caC>caT	p.H560H	ZNF628_ENST00000391718.2_Silent_p.H556H|NAT14_ENST00000205194.4_5'Flank|NAT14_ENST00000587400.1_5'Flank|NAT14_ENST00000591590.1_5'Flank			Q5EBL2	ZN628_HUMAN	zinc finger protein 628	560					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(4)|kidney(1)|lung(2)	7	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0531)		GCCACGTGCACACTGGCGAGA	0.716													N|||	2845	0.568091	0.6717	0.536	5008	,	,		12336	0.4375		0.5368	False		,,,				2504	0.6176															0										2855,1543		931,993,275	22	23	23		1668	3.1	1	19	dbSNP_121	23	4867,3723		1367,2133,795	no	coding-synonymous	ZNF628	NM_033113.2		2298,3126,1070	TT,TC,CC		43.3411,35.0841,40.5451		556/1056	55994240	7722,5266	2199	4295	6494	SO:0001819	synonymous_variant	89887			AF367249	CCDS33116.3	19q13.43	2013-01-08			ENSG00000197483	ENSG00000197483		"Zinc fingers, C2H2-type"	28054	protein-coding gene	gene with protein product	"Zinc finger expressed in Embryonal cells and Certain adult organs"	610671					Standard	NM_033113		Approved	ZEC, Zfp628	uc002qld.3	Q5EBL2	OTTHUMG00000150396	ENST00000598519.1:c.1680C>T	19.37:g.55994240C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q86X34	Silent	SNP	ENST00000598519.1	37	CCDS33116.3																																																																																				0.716	ZNF628-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000317934.2	XM_058964		T	55994240	C	T	55994240	2	4	685	1	0	0	0	0	0	0	0	1	18064	477	17	2		2	ZNF628	19	55994240	Silent	SNP	C	TCGA-KO-8415-01A-11D-2310-10	2231990	55994240	3134743	73	44404										
JAG1	182	broad.mit.edu	37	chr20	10629266	10629266	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ttgatttcattctgacagtgAcccccattcaaacaggggtt	8	10	3	3			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr20:10629266A>G	ENST00000254958.5	-	12	2015	c.1500T>C	c.(1498-1500)ggT>ggC	p.G500G	JAG1_ENST00000423891.2_Silent_p.G341G|JAG1_ENST00000488480.1_RNA	NM_000214.2	NP_000205.1	P78504	JAG1_HUMAN	jagged 1	500	EGF-like 8; calcium-binding. {ECO:0000255|PROSITE-ProRule:PRU00076}.				angiogenesis (GO:0001525)|aorta morphogenesis (GO:0035909)|auditory receptor cell differentiation (GO:0042491)|blood vessel remodeling (GO:0001974)|cardiac neural crest cell development involved in outflow tract morphogenesis (GO:0061309)|cardiac right ventricle morphogenesis (GO:0003215)|cardiac septum morphogenesis (GO:0060411)|cell fate determination (GO:0001709)|ciliary body morphogenesis (GO:0061073)|distal tubule development (GO:0072017)|endocardial cushion cell development (GO:0061444)|endothelial cell differentiation (GO:0045446)|hemopoiesis (GO:0030097)|keratinocyte differentiation (GO:0030216)|loop of Henle development (GO:0072070)|morphogenesis of an epithelial sheet (GO:0002011)|myoblast differentiation (GO:0045445)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of stem cell differentiation (GO:2000737)|nervous system development (GO:0007399)|neuronal stem cell maintenance (GO:0097150)|Notch receptor processing (GO:0007220)|Notch signaling involved in heart development (GO:0061314)|Notch signaling pathway (GO:0007219)|positive regulation of myeloid cell differentiation (GO:0045639)|positive regulation of Notch signaling pathway (GO:0045747)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|pulmonary artery morphogenesis (GO:0061156)|pulmonary valve morphogenesis (GO:0003184)|regulation of cell migration (GO:0030334)|regulation of cell proliferation (GO:0042127)|response to muramyl dipeptide (GO:0032495)|T cell mediated immunity (GO:0002456)	apical part of cell (GO:0045177)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|growth factor activity (GO:0008083)|Notch binding (GO:0005112)|structural molecule activity (GO:0005198)			biliary_tract(1)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(10)|lung(14)|ovary(2)|pancreas(1)|urinary_tract(1)	44						TCTGACAGTGACCCCCATTCA	0.498									Alagille Syndrome																																							0													77	73	74					20																	10629266		2203	4300	6503	SO:0001819	synonymous_variant	182	Familial Cancer Database	ALGS1, ALGS2.Alagille-Watson syndrome	U61276	CCDS13112.1	20p12.1-p11.23	2011-05-12	2010-06-24		ENSG00000101384	ENSG00000101384		"CD molecules"	6188	protein-coding gene	gene with protein product		601920	"Alagille syndrome"	AGS, JAGL1		7697721, 9207788	Standard	NM_000214		Approved	AHD, AWS, HJ1, CD339	uc002wnw.2	P78504	OTTHUMG00000031872	ENST00000254958.5:c.1500T>C	20.37:g.10629266A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0AV43|B4DYR1|E9PCF9|O14902|O15122|Q15816	Silent	SNP	ENST00000254958.5	37	CCDS13112.1																																																																																				0.498	JAG1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_000214		G	10629266	A	G	10629266	2	3	685	1	0	0	0	0	0	0	0	1	7941	262	10	3		3	JAG1	20	10629266	Silent	SNP	A	TCGA-KO-8415-01A-11D-2310-10		10629266	52396254	74	44405										
CST2	1470	mdanderson.org	37	chr20	23805930	23805930	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	tatggttcggcccacctctaTgtcgaagaagtaattcaccc	8	12	2	1	rs199856966		TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr20:23805930T>C	ENST00000304725.2	-	2	329	c.259A>G	c.(259-261)Ata>Gta	p.I87V		NM_001322.2	NP_001313.1	P09228	CYTT_HUMAN	cystatin SA	87					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)|negative regulation of endopeptidase activity (GO:0010951)	extracellular space (GO:0005615)	cysteine-type endopeptidase inhibitor activity (GO:0004869)			breast(1)|cervix(1)|large_intestine(1)|liver(1)|lung(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	10						CCCACCTCTATGTCGAAGAAG	0.537																																					Pancreas(193;496 3017 22514 29918)											0													314	240	265					20																	23805930		2203	4300	6503	SO:0001583	missense	1470			M19671	CCDS13161.1	20p11.2	2007-11-29			ENSG00000170369	ENSG00000170369			2474	protein-coding gene	gene with protein product	"cystatin 2"	123856					Standard	NM_001322		Approved		uc002wtq.1	P09228	OTTHUMG00000032086	ENST00000304725.2:c.259A>G	20.37:g.23805930T>C	ENSP00000307540:p.Ile87Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UCQ7	Missense_Mutation	SNP	ENST00000304725.2	37	CCDS13161.1	.	.	.	.	.	.	.	.	.	.	C	0.007	-1.972408	0.00457	.	.	ENSG00000170369	ENST00000304725	T	0.11169	2.8	2.36	1.34	0.21922	Proteinase inhibitor I25, cystatin, conserved site (1);Proteinase inhibitor I25, cystatin (2);	0.163089	0.40818	N	0.001002	T	0.01523	0.0049	N	0.00150	-1.985	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.43718	-0.9374	10	0.02654	T	1	.	5.1107	0.14808	0.0:0.6785:0.0:0.3215	.	87	P09228	CYTT_HUMAN	V	87	ENSP00000307540:I87V	ENSP00000307540:I87V	I	-	1	0	CST2	23753930	0.000000	0.05858	0.005000	0.12908	0.003000	0.03518	-0.283000	0.08433	-0.065000	0.13021	-0.665000	0.03846	ATA		0.537	CST2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078352.2			C	23805930	T	C	23805930	3	2	685	1	0	0	0	0	1	0	0	0	3974	1464	51	3	174	3	CST2	20	23805930	Missense_Mutation	SNP	T	TCGA-KO-8415-01A-11D-2310-10	13176664	23805930	39219590	75	44406										
BAGE2	85319	mdanderson.org	37	chr21	11058230	11058230	+	RNA	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	actgaaatcctgaaaggtgtCggctcctgcagcacaaggat	11	10	0	2	rs372289393		TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr21:11058230C>A	ENST00000470054.1	-	0	417							Q86Y30	BAGE2_HUMAN	B melanoma antigen family, member 2							extracellular region (GO:0005576)								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)		TGAAAGGTGTCGGCTCCTGCA	0.418																																																0													92	72	78					21																	11058230		692	1591	2283			85319			AF218570		21p	2009-03-13			ENSG00000187172	ENSG00000187172			15723	protein-coding gene	gene with protein product	"cancer/testis antigen family 2, member 2"					12461691	Standard	NM_182482		Approved	CT2.2		Q86Y30	OTTHUMG00000074128		21.37:g.11058230C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K925|Q08ER0	Silent	SNP	ENST00000470054.1	37																																																																																					0.418	BAGE2-001	KNOWN	basic	processed_transcript	pseudogene	OTTHUMT00000157417.3	NM_182482		A	11058230	C	A	11058230	1	1	685	0	1	0	0	0	0	0	0	0	1292	871	31	4		4	BAGE2	21	11058230	RNA	SNP	C	TCGA-KO-8415-01A-11D-2310-10		11058230	37071665	76	44407										
KRTAP10-4	386672	mdanderson.org	37	chr21	45993851	45993851	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	ccctgctgcccagtgacctgCgagcccagcccctgccaatc	9	20	0	1	rs201895065		TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr21:45993851C>T	ENST00000400374.3	+	1	246	c.216C>T	c.(214-216)tgC>tgT	p.C72C	TSPEAR_ENST00000323084.4_Intron|TSPEAR_ENST00000397916.1_5'Flank	NM_198687.1	NP_941960.1	P60372	KR104_HUMAN	keratin associated protein 10-4	72	36 X 5 AA repeats of C-C-X(3).					keratin filament (GO:0045095)				NS(1)|endometrium(4)|kidney(1)|large_intestine(1)|lung(9)|pancreas(1)|prostate(1)	18						CAGTGACCTGCGAGCCCAGCC	0.721																																																0													20	38	32					21																	45993851		1993	4191	6184	SO:0001819	synonymous_variant	386672			AB076351	CCDS42957.1	21q22.3	2006-03-13	2004-07-12	2004-07-14	ENSG00000215454	ENSG00000215454		"Keratin associated proteins"	20521	protein-coding gene	gene with protein product			"keratin associated protein 18-4"	KRTAP18-4			Standard	NM_198687		Approved	KRTAP18.4, KAP10.4	uc002zfk.1	P60372	OTTHUMG00000057641	ENST00000400374.3:c.216C>T	21.37:g.45993851C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q08AS0	Silent	SNP	ENST00000400374.3	37	CCDS42957.1																																																																																				0.721	KRTAP10-4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128045.1	NM_198687		T	45993851	C	T	45993851	2	4	685	1	0	0	0	0	0	0	0	1	8518	776	27	1		1	KRTAP10-4	21	45993851	Silent	SNP	C	TCGA-KO-8415-01A-11D-2310-10	34935621	45993851	2136044	77	44408										
SCARF2	91179	mdanderson.org	37	chr22	20780296	20780296	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	gcttggtggcggggtcaggtGgcggcggtttcctgcgctcg	20	10	1	0	rs9680797	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chr22:20780296G>A	ENST00000266214.5	-	11	2086	c.1982C>T	c.(1981-1983)cCa>cTa	p.P661L	SCARF2_ENST00000405555.3_Missense_Mutation_p.P656L	NM_153334.4	NP_699165.2	Q96GP6	SREC2_HUMAN	scavenger receptor class F, member 2	661	Pro-rich.				cell adhesion (GO:0007155)	focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)				breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(1)|lung(3)|prostate(1)|skin(2)	10	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			GGGGTCAGGTGGCGGCGGTTT	0.756													g|||	68	0.0135783	0.0008	0.0303	5008	,	,		7971	0.0		0.0398	False		,,,				2504	0.0061															0									LEU/PRO,LEU/PRO	27,4371		0,27,2172	16	20	19		1982,1967	3.4	0.9	22	dbSNP_119	19	316,8274		10,296,3989	yes	missense,missense	SCARF2	NM_153334.4,NM_182895.2	98,98	10,323,6161	AA,AG,GG		3.6787,0.6139,2.6409	probably-damaging,probably-damaging	661/871,656/866	20780296	343,12645	2199	4295	6494	SO:0001583	missense	91179			AF522196	CCDS13779.1, CCDS46666.1	22q11.21	2011-10-10			ENSG00000244486	ENSG00000244486			19869	protein-coding gene	gene with protein product		613619				12154095	Standard	XM_006724364		Approved	SREC-II, SREC2, HUMZD58C02	uc002zsk.2	Q96GP6	OTTHUMG00000150779	ENST00000266214.5:c.1982C>T	22.37:g.20780296G>A	ENSP00000266214:p.Pro661Leu	Somatic		WXS	Illumina HiSeq	Phase_I	E5RFB8|Q58A83|Q8IXF3|Q9BW74	Missense_Mutation	SNP	ENST00000266214.5	37	CCDS13779.1	43	0.019688644688644688	4	0.008130081300813009	9	0.024861878453038673	0	0.0	30	0.0395778364116095	g	15.57	2.873045	0.51695	0.006139	0.036787	ENSG00000244486	ENST00000405555;ENST00000341328;ENST00000266214	T;T	0.22539	2.01;1.95	3.38	3.38	0.38709	.	0.084416	0.47093	U	0.000259	T	0.07458	0.0188	L	0.29908	0.895	0.49299	D	0.999771	D;D	0.89917	1.0;1.0	D;D	0.80764	0.994;0.994	T	0.01405	-1.1363	10	0.11485	T	0.65	.	12.6984	0.57018	0.0:0.0:1.0:0.0	rs9680797	656;656	E5RFB8;Q96GP6	.;SREC2_HUMAN	L	656;656;661	ENSP00000385589:P656L;ENSP00000266214:P661L	ENSP00000266214:P661L	P	-	2	0	SCARF2	19110296	1.000000	0.71417	0.865000	0.33974	0.132000	0.20833	8.286000	0.89916	1.917000	0.55516	0.441000	0.28932	CCA		0.756	SCARF2-001	NOVEL	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000320047.1			A	20780296	G	A	20780296	3	1	685	1	0	0	0	0	1	0	0	0	13897	1348	47	2	634	2	SCARF2	22	20780296	Missense_Mutation	SNP	G	TCGA-KO-8415-01A-11D-2310-10		20780296	30524270	78	44409										
ARSD	414	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chrX	2827911	2827911	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	accacagtagggaacacgtcCatcaggctcgtgggctctcc	11	14	2	0			TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chrX:2827911C>G	ENST00000381154.1	-	8	1320	c.1245G>C	c.(1243-1245)atG>atC	p.M415I		NM_001669.3	NP_001660.2	P51689	ARSD_HUMAN	arylsulfatase D	415					cellular protein metabolic process (GO:0044267)|glycosphingolipid metabolic process (GO:0006687)|post-translational protein modification (GO:0043687)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum lumen (GO:0005788)|extracellular vesicular exosome (GO:0070062)|lysosome (GO:0005764)	arylsulfatase activity (GO:0004065)|metal ion binding (GO:0046872)			large_intestine(3)|lung(3)	6		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)				GGAACACGTCCATCAGGCTCG	0.612																																																0													49	43	45					X																	2827911		2203	4300	6503	SO:0001583	missense	414			X83572	CCDS35196.1	Xp22.3	2013-02-14			ENSG00000006756	ENSG00000006756		"Arylsulfatase family"	717	protein-coding gene	gene with protein product		300002				7720070	Standard	NM_001669		Approved		uc004cqy.3	P51689	OTTHUMG00000021077	ENST00000381154.1:c.1245G>C	X.37:g.2827911C>G	ENSP00000370546:p.Met415Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UHJ8	Missense_Mutation	SNP	ENST00000381154.1	37	CCDS35196.1	.	.	.	.	.	.	.	.	.	.	C	16.12	3.031848	0.54790	.	.	ENSG00000006756	ENST00000381154;ENST00000458014	D;D	0.98493	-4.96;-3.03	2.98	2.98	0.34508	Alkaline phosphatase-like, alpha/beta/alpha (1);Sulfatase (1);Alkaline-phosphatase-like, core domain (1);	0.000000	0.85682	U	0.000000	D	0.98353	0.9453	L	0.60012	1.86	0.51767	D	0.999933	D	0.89917	1.0	D	0.97110	1.0	D	0.98773	1.0729	10	0.66056	D	0.02	.	13.7858	0.63108	0.0:1.0:0.0:0.0	.	415	P51689	ARSD_HUMAN	I	415;17	ENSP00000370546:M415I;ENSP00000409180:M17I	ENSP00000370546:M415I	M	-	3	0	ARSD	2837911	1.000000	0.71417	0.838000	0.33150	0.203000	0.24098	4.688000	0.61715	1.286000	0.44565	0.436000	0.28706	ATG		0.612	ARSD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055636.1			G	2827911	C	G	2827911	3	3	685	1	0	0	0	0	1	0	0	0	989	594	21	4	548	4	ARSD	23	2827911	Missense_Mutation	SNP	C	TCGA-KO-8415-01A-11D-2310-10		2827911	152442649	79	44410										
PRKX	5613	mdanderson.org	37	chrX	3631167	3631167	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0253164556962025	2	1	0.416199813258637	0	0.437009803921569	0.4	1	0	caaagtcctgcaggctgtacAcaggcggctccggcgacagc	13	14	0	0	rs3752362	byFrequency	TCGA-KO-8415-01A-11D-2310-10	TCGA-KO-8415-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	ebde5c33-4b0f-4c3d-bf45-52b2d54093ec	6ae02049-78de-46c7-af90-146bd04cb94e	g.chrX:3631167A>G	ENST00000262848.5	-	1	482	c.128T>C	c.(127-129)gTg>gCg	p.V43A		NM_005044.4	NP_005035.1	P51817	PRKX_HUMAN	protein kinase, X-linked	43			V -> A (in dbSNP:rs3752362).		angiogenesis (GO:0001525)|cell adhesion (GO:0007155)|cell-substrate adhesion (GO:0031589)|endothelial cell migration (GO:0043542)|endothelial cell proliferation (GO:0001935)|epithelial tube morphogenesis (GO:0060562)|kidney morphogenesis (GO:0060993)|myeloid cell differentiation (GO:0030099)|peptidyl-serine phosphorylation (GO:0018105)|protein autophosphorylation (GO:0046777)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of epithelial cell differentiation involved in kidney development (GO:2000696)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|cAMP-dependent protein kinase activity (GO:0004691)			kidney(1)|large_intestine(2)|lung(6)|pancreas(1)|skin(2)	12		all_lung(23;0.000396)|Lung NSC(23;0.00123)				CAGGCTGTACACAGGCGGCTC	0.751													N|||	2672	0.707815	0.736	0.4856	3775	,	,		7851	0.6944		0.2644	False		,,,				2504	0.4049															0								G	ALA/VAL	3226,436		1253,279,441,50,57	6	5	6		128	-0.4	0	X	dbSNP_107	6	2368,4079		373,1000,622,979,1121	yes	missense	PRKX	NM_005044.4	64	1626,1279,1063,1029,1178	GG,GA,G,AA,A		36.7303,11.9061,44.6632	benign	43/359	3631167	5594,4515	2080	4095	6175	SO:0001583	missense	5613				CCDS14125.1	Xp22.3	2008-08-01			ENSG00000183943	ENSG00000183943	2.7.11.1		9441	protein-coding gene	gene with protein product		300083				7633447	Standard	NM_005044		Approved	PKX1	uc010nde.3	P51817	OTTHUMG00000021087	ENST00000262848.5:c.128T>C	X.37:g.3631167A>G	ENSP00000262848:p.Val43Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000262848.5	37	CCDS14125.1	1097	0.6612417118746232	255	0.8673469387755102	120	0.47619047619047616	261	0.8474025974025974	133	0.20336391437308868	G	2.016	-0.425905	0.04701	0.880939	0.367303	ENSG00000183943	ENST00000262848	T	0.07908	3.15	1.08	-0.453	0.12201	Protein kinase-like domain (1);	0.957488	0.08497	N	0.937090	T	0.00012	0.0000	N	0.02539	-0.55	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.07908	-1.0748	9	0.38643	T	0.18	.	1.5859	0.02644	0.284:0.0:0.3851:0.3309	rs3752362;rs57248025	43	P51817	PRKX_HUMAN	A	43	ENSP00000262848:V43A	ENSP00000262848:V43A	V	-	2	0	PRKX	3641167	0.007000	0.16637	0.001000	0.08648	0.016000	0.09150	-0.380000	0.07427	-0.338000	0.08413	-0.697000	0.03683	GTG		0.751	PRKX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055659.1	NM_005044		G	3631167	A	G	3631167	3	3	685	1	0	0	0	0	1	0	0	0	12537	159	6	3	980	3	PRKX	23	3631167	Missense_Mutation	SNP	A	TCGA-KO-8415-01A-11D-2310-10	803256	3631167	151639393	80	44411										
CLCNKB	1188	broad.mit.edu;mdanderson.org	37	chr1	16383402	16383402	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	aacctgacaaatccgccagcCccaaagtgagccggcccagc	9	17	0	2	rs6698427		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr1:16383402C>T	ENST00000375679.4	+	20	2166	c.2055C>T	c.(2053-2055)gcC>gcT	p.A685A	CLCNKB_ENST00000375667.3_Silent_p.A515A|FAM131C_ENST00000494078.1_5'Flank	NM_000085.4	NP_000076.2	P51801	CLCKB_HUMAN	chloride channel, voltage-sensitive Kb	685					excretion (GO:0007588)|ion transmembrane transport (GO:0034220)|regulation of anion transport (GO:0044070)|transmembrane transport (GO:0055085)|transport (GO:0006810)	chloride channel complex (GO:0034707)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	adenyl nucleotide binding (GO:0030554)|metal ion binding (GO:0046872)|voltage-gated chloride channel activity (GO:0005247)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|ovary(2)|prostate(1)|skin(6)|stomach(2)|urinary_tract(1)	21		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)		ATCCGCCAGCCCCAAAGTGAG	0.587																																																0													66	64	65					1																	16383402		2203	4300	6503	SO:0001819	synonymous_variant	1188			AK098217	CCDS168.1, CCDS57974.1	1p36	2012-09-26	2012-02-23		ENSG00000184908	ENSG00000184908		"Ion channels / Chloride channels : Voltage-sensitive"	2027	protein-coding gene	gene with protein product		602023	"chloride channel Kb"				Standard	NM_000085		Approved	hClC-Kb		P51801	OTTHUMG00000009530	ENST00000375679.4:c.2055C>T	1.37:g.16383402C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KUY3|Q5T5Q7|Q5T5Q8	Silent	SNP	ENST00000375679.4	37	CCDS168.1																																																																																				0.587	CLCNKB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026331.1	NM_000085		T	16383402	C	T	16383402	2	4	686	1	0	0	0	0	0	0	0	1	3472	610	22	2		2	CLCNKB	1	16383402	Silent	SNP	C	TCGA-KO-8416-01A-11D-2310-10		16383402	232867219	1	44412										
ZMYM4	9202	ucsc.edu	37	chr1	35865108	35865108	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tttgacccacttaataaaggAcagggaatccaggcacgttc	9	10	0	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr1:35865108A>G	ENST00000314607.6	+	23	3539	c.3459A>G	c.(3457-3459)ggA>ggG	p.G1153G	ZMYM4_ENST00000373297.2_Silent_p.G1064G	NM_005095.2	NP_005086.2	Q5VZL5	ZMYM4_HUMAN	zinc finger, MYM-type 4	1153					cytoskeleton organization (GO:0007010)|multicellular organismal development (GO:0007275)|regulation of cell morphogenesis (GO:0022604)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(7)|kidney(6)|large_intestine(13)|lung(16)|ovary(2)|prostate(3)|skin(2)	54		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TTAATAAAGGACAGGGAATCC	0.408																																																0													83	83	83					1																	35865108		2203	4300	6503	SO:0001819	synonymous_variant	9202			AB007885	CCDS389.1	1p34-p32	2013-01-08	2005-12-19	2005-12-19	ENSG00000146463	ENSG00000146463		"Zinc fingers, MYM type"	13055	protein-coding gene	gene with protein product		613568	"zinc finger protein 262"	ZNF262		10449923	Standard	NM_005095		Approved	KIAA0425, ZNF198L3, MYM	uc001byt.3	Q5VZL5	OTTHUMG00000004241	ENST00000314607.6:c.3459A>G	1.37:g.35865108A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0JP19|A0JP20|O43308|Q5T5E1|Q5T5E2|Q7L3Q4	Silent	SNP	ENST00000314607.6	37	CCDS389.1	.	.	.	.	.	.	.	.	.	.	A	9.861	1.196401	0.22037	.	.	ENSG00000146463	ENST00000457946	.	.	.	5.38	0.146	0.14833	.	.	.	.	.	T	0.42517	0.1206	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.20273	-1.0280	4	.	.	.	-10.5428	2.3725	0.04334	0.5597:0.1194:0.2068:0.1141	.	.	.	.	A	812	.	.	T	+	1	0	ZMYM4	35637695	0.998000	0.40836	0.994000	0.49952	0.974000	0.67602	0.553000	0.23391	-0.188000	0.10499	-1.887000	0.00540	ACA		0.408	ZMYM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012207.3	NM_005095		G	35865108	A	G	35865108	2	3	686	1	0	0	0	0	0	0	0	1	17714	262	10	3		3	ZMYM4	1	35865108	Silent	SNP	A	TCGA-KO-8416-01A-11D-2310-10	19481706	35865108	213385513	2	44413										
NRD1	4898	mdanderson.org	37	chr1	52306075	52306075	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tcatcatcatcttcttcttcTtcctccacctcctcttcttc	0	18	9	0	rs78724482	byFrequency	TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr1:52306075T>C	ENST00000354831.7	-	2	642	c.453A>G	c.(451-453)gaA>gaG	p.E151E	NRD1_ENST00000352171.7_Silent_p.E151E|NRD1_ENST00000539524.1_Silent_p.E19E|NRD1_ENST00000544028.1_Silent_p.E19E|NRD1_ENST00000485608.1_5'UTR	NM_002525.2	NP_002516.2	O43847	NRDC_HUMAN	nardilysin (N-arginine dibasic convertase)	0	Asp/Glu-rich (highly acidic).|Poly-Glu.				cell migration (GO:0016477)|cell proliferation (GO:0008283)|neuromuscular junction development (GO:0007528)|positive regulation of membrane protein ectodomain proteolysis (GO:0051044)|proteolysis (GO:0006508)|regulation of endopeptidase activity (GO:0052548)	cell surface (GO:0009986)|cytosol (GO:0005829)	epidermal growth factor binding (GO:0048408)|metal ion binding (GO:0046872)|metalloendopeptidase activity (GO:0004222)			NS(1)|breast(2)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(6)|lung(9)|pancreas(1)|prostate(1)|skin(1)	27						cttcttcttcttcctccacct	0.388																																																0													165	136	146					1																	52306075		2203	4300	6503	SO:0001819	synonymous_variant	4898			X93207	CCDS559.1, CCDS41335.1, CCDS55599.1	1p32.2-p32.1	2008-07-18			ENSG00000078618	ENSG00000078618			7995	protein-coding gene	gene with protein product		602651				9581555, 9479496	Standard	NM_002525		Approved	hNRD1, hNRD2	uc001ctc.4	O43847	OTTHUMG00000008278	ENST00000354831.7:c.453A>G	1.37:g.52306075T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NI41|O15241|O15242|Q5VUL0|Q96HB2|Q9NU57	Silent	SNP	ENST00000354831.7	37	CCDS559.1																																																																																				0.388	NRD1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000023045.1	NM_002525		C	52306075	T	C	52306075	2	2	686	1	0	0	0	0	0	0	0	1	10652	1606	56	3		3	NRD1	1	52306075	Silent	SNP	T	TCGA-KO-8416-01A-11D-2310-10	16440967	52306075	196944546	3	44414										
PDE4DIP	9659	bcgsc.ca	37	chr1	144906195	144906195	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	caaccagttgcatttgcaggTcctagaagtcaaaaaataag	8	8	1	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr1:144906195T>C	ENST00000369354.3	-	19	2627	c.2438A>G	c.(2437-2439)gAc>gGc	p.D813G	PDE4DIP_ENST00000369359.4_Splice_Site_p.D950G|PDE4DIP_ENST00000313431.9_Splice_Site_p.D976G|PDE4DIP_ENST00000479408.2_Splice_Site_p.D600G|PDE4DIP_ENST00000529945.1_Splice_Site_p.D976G|PDE4DIP_ENST00000524974.1_Intron|PDE4DIP_ENST00000369349.3_Splice_Site_p.D813G|PDE4DIP_ENST00000530740.1_Splice_Site_p.D950G|PDE4DIP_ENST00000369356.4_Splice_Site_p.D813G|PDE4DIP_ENST00000369351.3_Splice_Site_p.D813G|PDE4DIP_ENST00000313382.9_Splice_Site_p.D879G			Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein	813					cellular protein complex assembly (GO:0043623)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|myofibril (GO:0030016)|nucleus (GO:0005634)	enzyme binding (GO:0019899)			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(12)|lung(106)|ovary(8)|prostate(7)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	176				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CATTTGCAGGTCCTAGAAGTC	0.398			T	PDGFRB	MPD																																		Dom	yes		1	1q12	9659	phosphodiesterase 4D interacting protein (myomegalin)		L	0													77	80	79					1																	144906195		2203	4296	6499	SO:0001630	splice_region_variant	9659			AB007923, AB007946	CCDS72887.1, CCDS72888.1, CCDS72889.1, CCDS72890.1, CCDS72891.1, CCDS72892.1, CCDS72893.1, CCDS72894.1	1q21.1	2008-07-31	2008-07-31		ENSG00000178104	ENSG00000178104			15580	protein-coding gene	gene with protein product	"myomegalin"	608117	"cardiomyopathy associated 2"	CMYA2		9455484, 11134006	Standard	NM_022359		Approved	KIAA0477, KIAA0454, MMGL	uc021ouh.1	Q5VU43	OTTHUMG00000013846	ENST00000369354.3:c.2437-1A>G	1.37:g.144906195T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2RU15|O75042|O75065|Q2YDC1|Q5VU42|Q5VU44|Q5VU45|Q5VU46|Q5VU47|Q5VU48|Q5VU49|Q68DU2|Q6AZ93|Q6PK88|Q86T40|Q86TB2|Q8N3W0|Q8TAY9|Q9HCP2|Q9HCP3|Q9HCP4|Q9HCP5	Missense_Mutation	SNP	ENST00000369354.3	37	CCDS30824.1	.	.	.	.	.	.	.	.	.	.	T	22.2	4.258082	0.80246	.	.	ENSG00000178104	ENST00000313382;ENST00000369354;ENST00000369356;ENST00000369353;ENST00000530740;ENST00000369359;ENST00000369351;ENST00000369349;ENST00000313431;ENST00000529945;ENST00000479408	T;T;T;T;T;T;T;T;T;T	0.18810	4.41;4.34;4.34;4.31;4.24;3.42;3.4;2.32;2.35;2.19	5.97	5.97	0.96955	.	.	.	.	.	T	0.24586	0.0596	L	0.34521	1.04	0.80722	D	1	D;D;D;D;D	0.89917	1.0;0.999;1.0;0.998;0.999	D;D;D;D;D	0.91635	0.998;0.981;0.999;0.978;0.985	T	0.02721	-1.1119	9	0.46703	T	0.11	.	12.9928	0.58630	0.0:0.0:0.0:1.0	.	976;813;976;879;813	E9PL24;Q5VU43-7;Q5VU43-2;Q5VU43-3;Q5VU43	.;.;.;.;MYOME_HUMAN	G	879;813;813;976;950;950;813;813;976;976;600	ENSP00000327209:D879G;ENSP00000358360:D813G;ENSP00000358363:D813G;ENSP00000435654:D950G;ENSP00000358366:D950G;ENSP00000358357:D813G;ENSP00000358355:D813G;ENSP00000316434:D976G;ENSP00000433392:D976G;ENSP00000436791:D600G	ENSP00000327209:D879G	D	-	2	0	PDE4DIP	143617552	1.000000	0.71417	1.000000	0.80357	0.942000	0.58702	5.735000	0.68587	2.323000	0.78572	0.467000	0.42956	GAC		0.398	PDE4DIP-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000038858.2	NM_022359	Missense_Mutation	C	144906195	T	C	144906195	5	2	686	1	0	0	0	0	0	0	1	0	11650	1681	58	3	4716	3	PDE4DIP	1	144906195	Splice_Site	SNP	T	TCGA-KO-8416-01A-11D-2310-10	92600120	144906195	104344426	4	44415										
NBPF14	25832	broad.mit.edu	37	chr1	148010987	148010987	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tcaagacaacctgaaggagtTgaataacatctatccagtga	8	8	2	4			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr1:148010987T>C	ENST00000369219.1	-	14	1651	c.1635A>G	c.(1633-1635)tcA>tcG	p.S545S				Q5TI25	NBPFE_HUMAN	neuroblastoma breakpoint family, member 14	545	NBPF 6. {ECO:0000255|PROSITE- ProRule:PRU00647}.					cytoplasm (GO:0005737)		p.S545S(1)		NS(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(1)|lung(23)|ovary(2)|pancreas(2)|prostate(2)|skin(1)|stomach(2)|urinary_tract(1)	42	all_hematologic(923;0.032)					CTGAAGGAGTTGAATAACATC	0.478																																																1	Substitution - coding silent(1)	kidney(1)											2	2	2					1																	148010987		627	1514	2141	SO:0001819	synonymous_variant	25832			AK092351		1q21.1	2013-01-17			ENSG00000122497			"neuroblastoma breakpoint family"	25232	protein-coding gene	gene with protein product		614003				8619474, 9110174, 16079250	Standard	NM_015383		Approved	DJ328E19.C1.1	uc021owp.2	Q5TI25	OTTHUMG00000013900	ENST00000369219.1:c.1635A>G	1.37:g.148010987T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TI23|Q8IX76|Q9UJI9	Silent	SNP	ENST00000369219.1	37		.	.	.	.	.	.	.	.	.	.	-	0.755	-0.771349	0.02951	.	.	ENSG00000122497	ENST00000310701	.	.	.	.	.	.	.	.	.	.	.	T	0.08714	0.0216	.	.	.	0.09310	N	0.999998	.	.	.	.	.	.	T	0.36480	-0.9746	2	.	.	.	.	.	.	.	.	.	.	.	R	551	.	.	Q	-	2	0	NBPF14	146477611	0.914000	0.31030	0.004000	0.12327	0.003000	0.03518	-0.265000	0.08644	-0.568000	0.06038	-0.564000	0.04169	CAA		0.478	NBPF14-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_015383		C	148010987	T	C	148010987	2	2	686	1	0	0	0	0	0	0	0	1	10201	1799	63	3		3	NBPF14	1	148010987	Silent	SNP	T	TCGA-KO-8416-01A-11D-2310-10	3104792	148010987	101239634	5	44416										
FMN2	56776	bcgsc.ca	37	chr1	240497469	240497469	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cccaggacctttttcaggccTcacagatgaagtttgaagat	9	10	2	4			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr1:240497469T>C	ENST00000319653.9	+	13	4935	c.4705T>C	c.(4705-4707)Tca>Cca	p.S1569P	FMN2_ENST00000545751.1_Missense_Mutation_p.S165P	NM_020066.4	NP_064450.3	Q9NZ56	FMN2_HUMAN	formin 2	1569	FH2. {ECO:0000255|PROSITE- ProRule:PRU00774}.				cellular response to DNA damage stimulus (GO:0006974)|cellular response to hypoxia (GO:0071456)|establishment of meiotic spindle localization (GO:0051295)|formin-nucleated actin cable assembly (GO:0070649)|homologous chromosome movement towards spindle pole involved in homologous chromosome segregation (GO:0051758)|intracellular signal transduction (GO:0035556)|intracellular transport (GO:0046907)|multicellular organismal development (GO:0007275)|negative regulation of apoptotic process (GO:0043066)|negative regulation of protein catabolic process (GO:0042177)|oogenesis (GO:0048477)|polar body extrusion after meiotic divisions (GO:0040038)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	cell cortex (GO:0005938)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|microvillus (GO:0005902)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)|spindle (GO:0005819)	actin binding (GO:0003779)			NS(1)|breast(7)|central_nervous_system(6)|cervix(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(10)|large_intestine(13)|lung(87)|ovary(6)|pancreas(3)|prostate(12)|skin(7)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(2)	178	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TTTTCAGGCCTCACAGATGAA	0.368																																																0													125	138	134					1																	240497469		2203	4300	6503	SO:0001583	missense	56776			AF218942	CCDS31069.2	1q43	2008-02-05			ENSG00000155816	ENSG00000155816			14074	protein-coding gene	gene with protein product		606373				10781961	Standard	NM_020066		Approved		uc010pyd.2	Q9NZ56	OTTHUMG00000039883	ENST00000319653.9:c.4705T>C	1.37:g.240497469T>C	ENSP00000318884:p.Ser1569Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B0QZA7|B4DP05|Q59GF6|Q5VU37|Q9NZ55	Missense_Mutation	SNP	ENST00000319653.9	37	CCDS31069.2	.	.	.	.	.	.	.	.	.	.	T	25.1	4.598050	0.87055	.	.	ENSG00000155816	ENST00000319653;ENST00000545751;ENST00000537355;ENST00000406993	T;T	0.20738	2.05;2.05	5.52	5.52	0.82312	Actin-binding FH2/DRF autoregulatory (1);Actin-binding FH2 (3);	0.000000	0.53938	D	0.000051	T	0.51924	0.1703	M	0.85462	2.755	0.80722	D	1	D;D;D;D	0.89917	1.0;0.996;1.0;0.999	D;D;D;D	0.91635	0.999;0.931;0.999;0.998	T	0.59862	-0.7374	10	0.87932	D	0	.	15.6348	0.76944	0.0:0.0:0.0:1.0	.	165;215;198;1569	B4DP05;F5H2C1;B4DN09;Q9NZ56	.;.;.;FMN2_HUMAN	P	1569;165;196;45	ENSP00000318884:S1569P;ENSP00000437918:S165P	ENSP00000318884:S1569P	S	+	1	0	FMN2	238564092	1.000000	0.71417	0.996000	0.52242	0.922000	0.55478	5.067000	0.64357	2.096000	0.63516	0.459000	0.35465	TCA		0.368	FMN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096217.2	XM_371352		C	240497469	T	C	240497469	3	2	686	1	0	0	0	0	1	0	0	0	5957	1551	54	3	4755	3	FMN2	1	240497469	Missense_Mutation	SNP	T	TCGA-KO-8416-01A-11D-2310-10	92486482	240497469	8753152	6	44417										
KIF26B	55083	mdanderson.org	37	chr1	245851609	245851609	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ccagggctccagctcgccccCcggtgggaagcacacgccct	12	19	0	0	rs150834033	byFrequency	TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr1:245851609C>G	ENST00000407071.2	+	12	5764	c.5324C>G	c.(5323-5325)cCc>cGc	p.P1775R	KIF26B_ENST00000366518.4_Missense_Mutation_p.P1394R	NM_018012.3	NP_060482.2	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1775	Ser-rich.				establishment of cell polarity (GO:0030010)|metabolic process (GO:0008152)|positive regulation of cell-cell adhesion (GO:0022409)|ureteric bud invasion (GO:0072092)	cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|microtubule motor activity (GO:0003777)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(21)|ovary(4)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	51	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			AGCTCGCCCCCCGGTGGGAAG	0.721													C|||	70	0.0139776	0.0023	0.0274	5008	,	,		10300	0.002		0.0308	False		,,,				2504	0.0153															0								C	ARG/PRO	25,3179		2,21,1579	8	9	9		5324	5.3	0	1	dbSNP_134	9	219,6715		2,215,3250	yes	missense	KIF26B	NM_018012.3	103	4,236,4829	GG,GC,CC		3.1584,0.7803,2.4068	probably-damaging	1775/2109	245851609	244,9894	1602	3467	5069	SO:0001583	missense	55083			AK001019	CCDS44342.1	1q44	2008-02-05			ENSG00000162849	ENSG00000162849		"Kinesins"	25484	protein-coding gene	gene with protein product		614026					Standard	NM_018012		Approved	FLJ10157	uc001ibf.1	Q2KJY2	OTTHUMG00000040079	ENST00000407071.2:c.5324C>G	1.37:g.245851609C>G	ENSP00000385545:p.Pro1775Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQR9|Q6ZUZ0|Q8IUN3|Q8IVR1|Q9NWB4	Missense_Mutation	SNP	ENST00000407071.2	37	CCDS44342.1	37	0.01694139194139194	4	0.008130081300813009	10	0.027624309392265192	1	0.0017482517482517483	22	0.029023746701846966	C	12.79	2.043373	0.36085	0.007803	0.031584	ENSG00000162849	ENST00000407071;ENST00000366518;ENST00000413001	D;D	0.83837	-1.77;-1.76	5.29	5.29	0.74685	.	.	.	.	.	T	0.76744	0.4030	M	0.78801	2.425	0.80722	D	1	D;D	0.57899	0.981;0.966	P;P	0.52758	0.708;0.564	D	0.85045	0.0925	9	0.87932	D	0	.	18.9252	0.92541	0.0:1.0:0.0:0.0	.	1394;1775	B7WPD9;Q2KJY2	.;KI26B_HUMAN	R	1775;1394;1391	ENSP00000385545:P1775R;ENSP00000355475:P1394R	ENSP00000355475:P1394R	P	+	2	0	KIF26B	243918232	0.998000	0.40836	0.016000	0.15963	0.081000	0.17604	7.547000	0.82146	2.475000	0.83589	0.462000	0.41574	CCC		0.721	KIF26B-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381037.1	XM_371354		G	245851609	C	G	245851609	3	3	686	1	0	0	0	0	1	0	0	0	8302	623	22	4	5370	4	KIF26B	1	245851609	Missense_Mutation	SNP	C	TCGA-KO-8416-01A-11D-2310-10	5354140	245851609	3399012	7	44418										
FBXO41	150726	mdanderson.org	37	chr2	73492614	73492614	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgagctgcgagggggctgggAccgctctgagcccccgttgg	18	12	1	2	rs526106	byFrequency	TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr2:73492614A>T	ENST00000521871.1	-	5	1775	c.1360T>A	c.(1360-1362)Tcc>Acc	p.S454T	FBXO41_ENST00000520530.2_Missense_Mutation_p.S454T|FBXO41_ENST00000295133.5_Missense_Mutation_p.S515T			Q8TF61	FBX41_HUMAN	F-box protein 41	454				S -> T (in Ref. 3; BAB85526). {ECO:0000305}.						breast(2)|central_nervous_system(1)|endometrium(1)|lung(6)|pancreas(1)|prostate(1)|skin(1)	13						GGGGGCTGGGACCGCTCTGAG	0.716													A|||	1654	0.330272	0.2837	0.2421	5008	,	,		11856	0.4752		0.2674	False		,,,				2504	0.3712															0								A	THR/SER	1058,2838		144,770,1034	15	18	17		1360	-0.8	0.9	2	dbSNP_83	17	2135,6093		283,1569,2262	no	missense	FBXO41	NM_001080410.2	58	427,2339,3296	TT,TA,AA		25.948,27.1561,26.3362	benign	454/876	73492614	3193,8931	1948	4114	6062	SO:0001583	missense	150726			AB075820	CCDS46337.1, CCDS46337.2	2p13.2	2004-08-24				ENSG00000163013		"F-boxes /  "other""	29409	protein-coding gene	gene with protein product		609108				11853319	Standard	NM_001080410		Approved	KIAA1940, Fbx41	uc021vjh.1	Q8TF61		ENST00000521871.1:c.1360T>A	2.37:g.73492614A>T	ENSP00000428646:p.Ser454Thr	Somatic		WXS	Illumina HiSeq	Phase_I	G3V0Z7|Q2M1V8	Missense_Mutation	SNP	ENST00000521871.1	37	CCDS46337.2	714	0.3269230769230769	138	0.2804878048780488	100	0.27624309392265195	275	0.4807692307692308	201	0.26517150395778366	A	13.31	2.199095	0.38806	0.271561	0.25948	ENSG00000163013	ENST00000295133;ENST00000521871	.	.	.	5.52	-0.818	0.10833	.	0.643686	0.15471	N	0.260595	T	0.00012	0.0000	N	0.14661	0.345	0.44611	P	0.0024170000000000025	.	.	.	.	.	.	T	0.43523	-0.9386	6	0.07030	T	0.85	.	0.8479	0.01166	0.1821:0.347:0.2234:0.2476	rs526106	.	.	.	T	515;454	.	ENSP00000295133:S515T	S	-	1	0	FBXO41	73346122	0.998000	0.40836	0.946000	0.38457	0.962000	0.63368	0.752000	0.26362	-0.113000	0.11958	0.454000	0.30748	TCC		0.716	FBXO41-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377381.1			T	73492614	A	T	73492614	3	4	686	1	0	0	0	0	1	0	0	0	5757	275	10	5	1303	5	FBXO41	2	73492614	Missense_Mutation	SNP	A	TCGA-KO-8416-01A-11D-2310-10		73492614	169706759	8	44419										
ARHGEF3	50650	bcgsc.ca	37	chr3	56789174	56789175	+	Frame_Shift_Ins	INS	-	-	GGAGC													0	0	1	0	0	0	1	1	0	tctcactgcggaagctaatgINSgagcgctaaacaatgagaaa							TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr3:56789174_56789175insGGAGC	ENST00000296315.3	-	3	377_378	c.209_210insGCTCC	c.(208-210)tccfs	p.-70fs	ARHGEF3_ENST00000497267.1_Frame_Shift_Ins_p.-41fs|ARHGEF3_ENST00000413728.2_Frame_Shift_Ins_p.-76fs|ARHGEF3_ENST00000496106.1_Frame_Shift_Ins_p.-76fs|ARHGEF3_ENST00000498517.1_5'UTR|ARHGEF3_ENST00000338458.4_Frame_Shift_Ins_p.-102fs|ARHGEF3_ENST00000495373.1_Frame_Shift_Ins_p.-70fs	NM_019555.2	NP_062455.1	Q9NR81	ARHG3_HUMAN	Rho guanine nucleotide exchange factor (GEF) 3						apoptotic signaling pathway (GO:0097190)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of Rho GTPase activity (GO:0032321)|regulation of small GTPase mediated signal transduction (GO:0051056)|Rho protein signal transduction (GO:0007266)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|intracellular (GO:0005622)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			cervix(1)|endometrium(3)|kidney(3)|large_intestine(4)|lung(11)|ovary(1)|prostate(1)|urinary_tract(1)	25				KIRC - Kidney renal clear cell carcinoma(284;0.0161)|Kidney(284;0.019)|OV - Ovarian serous cystadenocarcinoma(275;0.193)		GGAAGCTAATGGAGCGCTAAAC	0.55																																																0																																										SO:0001589	frameshift_variant	50650			AB209661	CCDS2878.1, CCDS46854.1, CCDS46855.1, CCDS74948.1	3p14.3	2012-09-20			ENSG00000163947	ENSG00000163947		"Rho guanine nucleotide exchange factors"	683	protein-coding gene	gene with protein product	"exchange factor found in platelets and leukemic and neuronal tissues, XPLN", "RhoGEF protein"	612115				10873612	Standard	NM_019555		Approved	STA3, XPLN, GEF3, DKFZP434F2429	uc003dih.2	Q9NR81	OTTHUMG00000158857	ENST00000296315.3:c.209_210insGCTCC	3.37:g.56789174_56789175insGGAGC	ENSP00000296315:p.Ser70fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5U7|Q4FZB6|Q4QQI5|Q4QQQ0|Q59F00|Q6NUN3|Q7Z4U2|Q7Z5T2|Q9H7T4	Frame_Shift_Ins	INS	ENST00000296315.3	37	CCDS2878.1																																																																																				0.55	ARHGEF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352431.2	NM_019555		GGAGC	56789175	-	GGAGC	56789174	7	5	686	1	0	1	1	0	0	0	0	0	904	1335	47	0	1402	0	ARHGEF3	3	56789174	Frame_Shift_Ins	INS	-	TCGA-KO-8416-01A-11D-2310-10		56789174	141233256	9	44420										
CD80	941	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr3	119263627	119263627	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tctccttttgccagtagatgCgagtttgtgccagctcttca	9	11	3	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr3:119263627C>T	ENST00000264246.3	-	3	550	c.188G>A	c.(187-189)cGc>cAc	p.R63H	CD80_ENST00000383668.3_Missense_Mutation_p.R63H|CD80_ENST00000478182.1_Missense_Mutation_p.R63H|CD80_ENST00000383669.3_Missense_Mutation_p.R63H	NM_005191.3	NP_005182.1	P33681	CD80_HUMAN	CD80 molecule	63	Ig-like V-type.				cell-cell signaling (GO:0007267)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of alpha-beta T cell proliferation (GO:0046641)|positive regulation of granulocyte macrophage colony-stimulating factor biosynthetic process (GO:0045425)|positive regulation of interleukin-2 biosynthetic process (GO:0045086)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of signal transduction (GO:0009967)|positive regulation of T-helper 1 cell differentiation (GO:0045627)|positive regulation of transcription, DNA-templated (GO:0045893)|T cell activation (GO:0042110)|T cell costimulation (GO:0031295)|viral process (GO:0016032)	cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	coreceptor activity (GO:0015026)			breast(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(5)|ovary(1)|upper_aerodigestive_tract(2)	12					Abatacept(DB01281)|Belatacept(DB06681)	CCAGTAGATGCGAGTTTGTGC	0.468																																					Melanoma(132;135 1764 1806 5833 14593)											0													165	141	149					3																	119263627		2203	4300	6503	SO:0001583	missense	941				CCDS2989.1	3q13.3-q21	2013-01-11	2006-03-31		ENSG00000121594	ENSG00000121594		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing"	1700	protein-coding gene	gene with protein product	"B-lymphocyte activation antigen B7"	112203	"CD80 antigen (CD28 antigen ligand 1, B7-1 antigen)", "CD80 molecule "	CD28LG, CD28LG1		1370389	Standard	NM_005191		Approved	B7.1, B7-1	uc003ecq.3	P33681	OTTHUMG00000159419	ENST00000264246.3:c.188G>A	3.37:g.119263627C>T	ENSP00000264246:p.Arg63His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5DTA9|Q5DTB0	Missense_Mutation	SNP	ENST00000264246.3	37	CCDS2989.1	.	.	.	.	.	.	.	.	.	.	C	18.82	3.704898	0.68615	.	.	ENSG00000121594	ENST00000264246;ENST00000478182;ENST00000383669;ENST00000383668	T;T;T;T	0.66460	-0.21;-0.21;-0.21;-0.21	5.13	5.13	0.70059	Immunoglobulin subtype (1);Immunoglobulin V-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.000000	0.43260	D	0.000584	T	0.82162	0.4977	M	0.83603	2.65	0.21020	N	0.999801	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.87578	0.997;0.996;0.998;0.998	T	0.75190	-0.3405	10	0.62326	D	0.03	-12.7701	13.9575	0.64160	0.0:1.0:0.0:0.0	.	63;63;63;63	Q5DTA9;Q5DTB0;A0N0P2;P33681	.;.;.;CD80_HUMAN	H	63	ENSP00000264246:R63H;ENSP00000418364:R63H;ENSP00000373165:R63H;ENSP00000373164:R63H	ENSP00000264246:R63H	R	-	2	0	CD80	120746317	0.550000	0.26489	0.052000	0.19188	0.026000	0.11368	3.213000	0.51153	2.665000	0.90641	0.650000	0.86243	CGC		0.468	CD80-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355196.1	NM_005191		T	119263627	C	T	119263627	3	4	686	1	0	0	0	0	1	0	0	0	3040	768	27	1	694	1	CD80	3	119263627	Missense_Mutation	SNP	C	TCGA-KO-8416-01A-11D-2310-10	62474453	119263627	78758803	10	44421										
C4orf44	345222	mdanderson.org	37	chr4	3257593	3257593	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	acctgccgcgaggtgcgccgCgtgctggaccagcagcacat	14	15	0	0	rs362287	byFrequency	TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr4:3257593C>T	ENST00000438480.2	+	3	2485	c.738C>T	c.(736-738)cgC>cgT	p.R246R	MSANTD1_ENST00000507492.1_Silent_p.R233R|MSANTD1_ENST00000510580.1_Silent_p.R246R	NM_001042690.1	NP_001036155.1	Q6ZTZ1	MSD1_HUMAN	Myb/SANT-like DNA-binding domain containing 1	246										endometrium(1)|lung(2)	3						AGGTGCGCCGCGTGCTGGACC	0.667													C|||	1288	0.257188	0.0802	0.3069	5008	,	,		14882	0.3343		0.3787	False		,,,				2504	0.2566															0								C		442,3382		40,362,1510	7	8	8		738	-0.3	1	4	dbSNP_79	8	2174,5164		319,1536,1814	no	coding-synonymous	C4orf44	NM_001042690.1		359,1898,3324	TT,TC,CC		29.6266,11.5586,23.4367		246/279	3257593	2616,8546	1912	3669	5581	SO:0001819	synonymous_variant	345222				CCDS47003.1	4p16.2	2012-03-02	2012-03-02	2012-03-02	ENSG00000188981	ENSG00000188981			33741	protein-coding gene	gene with protein product			"chromosome 4 open reading frame 44"	C4orf44			Standard	NM_001042690		Approved	LOC345222	uc003ggs.3	Q6ZTZ1	OTTHUMG00000159977	ENST00000438480.2:c.738C>T	4.37:g.3257593C>T		Somatic		WXS	Illumina HiSeq	Phase_I	C9J6V0	Silent	SNP	ENST00000438480.2	37	CCDS47003.1																																																																																				0.667	MSANTD1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370924.1	NM_001012982		T	3257593	C	T	3257593	2	4	686	1	0	0	0	0	0	0	0	1	2274	755	27	1		1	C4orf44	4	3257593	Silent	SNP	C	TCGA-KO-8416-01A-11D-2310-10		3257593	187896683	11	44422										
YTHDC1	91746	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr4	69195975	69195975	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	aagataacactccttgcagaTctaaatgcaagatttaattt	5	7	1	3			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr4:69195975T>A	ENST00000344157.4	-	8	1511	c.1176A>T	c.(1174-1176)agA>agT	p.R392S	YTHDC1_ENST00000355665.3_Missense_Mutation_p.R374S|YTHDC1_ENST00000579690.1_Missense_Mutation_p.R392S	NM_001031732.2	NP_001026902.1	Q96MU7	YTDC1_HUMAN	YTH domain containing 1	392	YTH. {ECO:0000255|PROSITE- ProRule:PRU00225}.				mRNA splice site selection (GO:0006376)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(10)|lung(7)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)	30						TCCTTGCAGATCTAAATGCAA	0.294																																																0													32	33	33					4																	69195975		2196	4285	6481	SO:0001583	missense	91746			AK098515	CCDS3522.2, CCDS33992.1	4q13.3	2009-01-14			ENSG00000083896	ENSG00000083896			30626	protein-coding gene	gene with protein product						12368078, 10564280	Standard	XM_005265706		Approved	YT521, KIAA1966, YT521-B	uc003hdx.3	Q96MU7	OTTHUMG00000129306	ENST00000344157.4:c.1176A>T	4.37:g.69195975T>A	ENSP00000339245:p.Arg392Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5Q3|Q7Z622|Q8TF35	Missense_Mutation	SNP	ENST00000344157.4	37	CCDS33992.1	.	.	.	.	.	.	.	.	.	.	T	16.93	3.256900	0.59321	.	.	ENSG00000083896	ENST00000344157;ENST00000355665	T;T	0.30981	1.51;1.51	5.44	4.27	0.50696	YTH domain (2);	0.000000	0.85682	D	0.000000	T	0.55033	0.1895	M	0.80183	2.485	0.80722	D	1	D;D	0.64830	0.971;0.994	D;D	0.75020	0.981;0.985	T	0.58781	-0.7576	10	0.87932	D	0	.	11.0667	0.47979	0.0:0.0727:0.0:0.9273	.	374;392	Q96MU7-2;Q96MU7	.;YTDC1_HUMAN	S	392;374	ENSP00000339245:R392S;ENSP00000347888:R374S	ENSP00000339245:R392S	R	-	3	2	YTHDC1	68878570	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	2.624000	0.46444	0.921000	0.36994	0.482000	0.46254	AGA		0.294	YTHDC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251437.1	NM_133370		A	69195975	T	A	69195975	3	1	686	1	0	0	0	0	1	0	0	0	17508	1432	50	5	1047	5	YTHDC1	4	69195975	Missense_Mutation	SNP	T	TCGA-KO-8416-01A-11D-2310-10	65938382	69195975	121958301	12	44423										
GK2	2712	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr4	80328442	80328442	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctctctgcctagtttgtaagCtactgtggtcaaaaggccat	9	10	2	0			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr4:80328442C>A	ENST00000358842.3	-	1	930	c.913G>T	c.(913-915)Gct>Tct	p.A305S		NM_033214.2	NP_149991.2	Q01415	GALK2_HUMAN	glycerol kinase 2	0					carbohydrate metabolic process (GO:0005975)|galactose metabolic process (GO:0006012)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|galactokinase activity (GO:0004335)|N-acetylgalactosamine kinase activity (GO:0033858)			autonomic_ganglia(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(13)|ovary(2)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)	39						AGTTTGTAAGCTACTGTGGTC	0.438																																																0													122	106	111					4																	80328442		2203	4300	6503	SO:0001583	missense	2712			BC029820	CCDS3585.1	4q13	2008-02-05	2002-10-03	2002-10-04	ENSG00000196475	ENSG00000196475		"Glycerol kinases"	4291	protein-coding gene	gene with protein product		600148	"glycerol kinase pseudogene 2"	GKP2		7987308	Standard	NM_033214		Approved	GKTA	uc003hlu.3	Q14410	OTTHUMG00000130199	ENST00000358842.3:c.913G>T	4.37:g.80328442C>A	ENSP00000351706:p.Ala305Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z4Q4	Missense_Mutation	SNP	ENST00000358842.3	37	CCDS3585.1	.	.	.	.	.	.	.	.	.	.	C	14.46	2.541867	0.45280	.	.	ENSG00000196475	ENST00000358842	D	0.91068	-2.78	4.18	4.18	0.49190	Carbohydrate kinase, FGGY, C-terminal (1);	0.171235	0.50627	D	0.000109	D	0.95984	0.8692	M	0.93978	3.48	0.58432	D	0.999995	D	0.65815	0.995	D	0.72338	0.977	D	0.96118	0.9082	10	0.72032	D	0.01	-12.0764	12.3114	0.54929	0.0:1.0:0.0:0.0	.	305	Q14410	GLPK2_HUMAN	S	305	ENSP00000351706:A305S	ENSP00000351706:A305S	A	-	1	0	GK2	80547466	1.000000	0.71417	0.998000	0.56505	0.018000	0.09664	6.529000	0.73812	2.645000	0.89757	0.585000	0.79938	GCT		0.438	GK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252517.2	NM_033214		A	80328442	C	A	80328442	3	1	686	1	0	0	0	0	1	0	0	0	6428	797	28	4	752	4	GK2	4	80328442	Missense_Mutation	SNP	C	TCGA-KO-8416-01A-11D-2310-10	11132467	80328442	110825834	13	44424										
MRPS30	10884	mdanderson.org	37	chr5	44809454	44809454	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gagcccgagcccgagcccgaAcccgaacctgaacctgcgct	11	18	0	1	rs142383960		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr5:44809454A>G	ENST00000507110.1	+	1	428	c.390A>G	c.(388-390)gaA>gaG	p.E130E	RP11-53O19.1_ENST00000508945.1_RNA|RP11-53O19.1_ENST00000505637.1_RNA|RP11-53O19.1_ENST00000514597.1_RNA|RP11-53O19.1_ENST00000505401.1_RNA|RP11-53O19.1_ENST00000505302.1_RNA|RP11-53O19.1_ENST00000508123.1_RNA|RP11-53O19.1_ENST00000503452.1_RNA|RP11-53O19.1_ENST00000503179.1_RNA	NM_016640.3	NP_057724.2	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	130					apoptotic process (GO:0006915)|translation (GO:0006412)	mitochondrion (GO:0005739)|ribosome (GO:0005840)	poly(A) RNA binding (GO:0044822)|structural constituent of ribosome (GO:0003735)			central_nervous_system(1)|cervix(1)|endometrium(4)|large_intestine(2)|lung(11)|prostate(1)	20	Lung NSC(6;8.08e-07)					ccgagcccgaacccgaacctg	0.706																																																0													13	15	14					5																	44809454		2196	4295	6491	SO:0001819	synonymous_variant	10884			AF146192	CCDS3951.1	5q11	2012-09-13		2001-11-09	ENSG00000112996	ENSG00000112996		"Mitochondrial ribosomal proteins / small subunits"	8769	protein-coding gene	gene with protein product		611991		PDCD9		10640817, 11279123	Standard	NM_016640		Approved	PAP	uc003joh.3	Q9NP92	OTTHUMG00000096967	ENST00000507110.1:c.390A>G	5.37:g.44809454A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q96I91|Q96Q19|Q9H0P8|Q9NSF9|Q9NZ76	Silent	SNP	ENST00000507110.1	37	CCDS3951.1																																																																																				0.706	MRPS30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214033.2	NM_016640		G	44809454	A	G	44809454	2	3	686	1	0	0	0	0	0	0	0	1	9847	40	2	3		3	MRPS30	5	44809454	Silent	SNP	A	TCGA-KO-8416-01A-11D-2310-10		44809454	136105806	14	44425										
C5orf44	80006	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr5	64942924	64942924	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	agcgtttaaatctttcagccTccaatgctgcagtggctgaa	9	10	2	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr5:64942924T>A	ENST00000399438.3	+	5	688	c.343T>A	c.(343-345)Tcc>Acc	p.S115T	TRAPPC13_ENST00000231526.4_Missense_Mutation_p.S115T|TRAPPC13_ENST00000505553.1_Missense_Mutation_p.S115T|TRAPPC13_ENST00000438419.2_Missense_Mutation_p.S115T|TRAPPC13_ENST00000545191.1_Missense_Mutation_p.S115T	NM_001093755.1|NM_024941.3	NP_001087224.1|NP_079217.2	A5PLN9	TPC13_HUMAN	trafficking protein particle complex 13	115																	TCTTTCAGCCTCCAATGCTGC	0.358																																																0													67	62	64					5																	64942924		1824	4087	5911	SO:0001583	missense	80006				CCDS47221.1, CCDS47222.1, CCDS47223.1, CCDS58950.1	5q12.3	2013-01-31	2013-01-24	2013-01-24	ENSG00000113597	ENSG00000113597			25828	protein-coding gene	gene with protein product	"Trs65-related"		"chromosome 5 open reading frame 44"	C5orf44		12477932	Standard	NM_024941		Approved	FLJ13611, FLJ26957, MGC48585	uc010iwu.1	A5PLN9	OTTHUMG00000163649	ENST00000399438.3:c.343T>A	5.37:g.64942924T>A	ENSP00000382367:p.Ser115Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RZ9|Q49A23|Q4JHG0|Q6MZG4|Q8TCM2|Q9H8I3	Missense_Mutation	SNP	ENST00000399438.3	37	CCDS47222.1	.	.	.	.	.	.	.	.	.	.	T	16.47	3.133539	0.56828	.	.	ENSG00000113597	ENST00000399438;ENST00000438419;ENST00000231526;ENST00000505553;ENST00000545191	.	.	.	5.64	5.64	0.86602	.	0.000000	0.85682	D	0.000000	T	0.55273	0.1910	L	0.35854	1.095	0.80722	D	1	B;B;B;B	0.16603	0.015;0.006;0.015;0.018	B;B;B;B	0.23018	0.026;0.015;0.026;0.043	T	0.51474	-0.8701	9	0.44086	T	0.13	-26.3722	15.8523	0.78943	0.0:0.0:0.0:1.0	.	115;115;115;115	A5PLN9-4;A5PLN9-2;A5PLN9-5;A5PLN9	.;.;.;CE044_HUMAN	T	115	.	ENSP00000231526:S115T	S	+	1	0	C5orf44	64978680	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.698000	0.84413	2.153000	0.67306	0.455000	0.32223	TCC		0.358	TRAPPC13-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000370113.1	NM_024941		A	64942924	T	A	64942924	3	1	686	1	0	0	0	0	1	0	0	0	2305	1551	54	5	361	5	C5orf44	5	64942924	Missense_Mutation	SNP	T	TCGA-KO-8416-01A-11D-2310-10	20133470	64942924	115972336	15	44426										
MCTP1	79772	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr5	94253666	94253666	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gcccaggacaggaagagctgGcctgccgcacgtctggatgg	16	12	1	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr5:94253666G>C	ENST00000515393.1	-	8	1284	c.1285C>G	c.(1285-1287)Cca>Gca	p.P429A	MCTP1_ENST00000505208.1_Missense_Mutation_p.P208A|MCTP1_ENST00000429576.2_Intron|MCTP1_ENST00000312216.8_Missense_Mutation_p.P208A|MCTP1_ENST00000505078.1_Intron	NM_024717.4	NP_078993.4	Q6DN14	MCTP1_HUMAN	multiple C2 domains, transmembrane 1	429					calcium-mediated signaling (GO:0019722)	integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)			breast(1)|endometrium(3)|large_intestine(13)|liver(2)|lung(13)|ovary(2)|skin(4)|stomach(2)|urinary_tract(1)	41		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)		GGAAGAGCTGGCCTGCCGCAC	0.428																																																0													66	70	68					5																	94253666		2203	4300	6503	SO:0001583	missense	79772				CCDS34203.1, CCDS47247.1, CCDS75275.1	5q15	2008-02-05			ENSG00000175471	ENSG00000175471			26183	protein-coding gene	gene with protein product						15528213	Standard	XM_005272082		Approved	FLJ22344	uc003kkx.2	Q6DN14	OTTHUMG00000162742	ENST00000515393.1:c.1285C>G	5.37:g.94253666G>C	ENSP00000424126:p.Pro429Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q6DN13|Q8N2W1|Q8NBA2|Q96LX0|Q9H6E8	Missense_Mutation	SNP	ENST00000515393.1	37	CCDS34203.1	.	.	.	.	.	.	.	.	.	.	G	10.48	1.360751	0.24598	.	.	ENSG00000175471	ENST00000515393;ENST00000312216;ENST00000512425;ENST00000505208	T;T;T;T	0.76709	-1.04;-0.91;-0.86;-1.03	5.14	3.35	0.38373	.	0.184499	0.33327	N	0.005036	T	0.60779	0.2295	N	0.22421	0.69	0.22591	N	0.998957	B;B	0.22683	0.043;0.073	B;B	0.21917	0.025;0.037	T	0.48198	-0.9056	10	0.32370	T	0.25	-0.7513	6.646	0.22934	0.0906:0.0:0.7344:0.175	.	429;208	Q6DN14;Q6DN14-2	MCTP1_HUMAN;.	A	429;208;90;208	ENSP00000424126:P429A;ENSP00000308957:P208A;ENSP00000431075:P90A;ENSP00000426438:P208A	ENSP00000308957:P208A	P	-	1	0	MCTP1	94279422	1.000000	0.71417	0.977000	0.42913	0.388000	0.30384	2.101000	0.41787	0.742000	0.32697	0.655000	0.94253	CCA		0.428	MCTP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000370280.3	NM_024717		C	94253666	G	C	94253666	3	2	686	1	0	0	0	0	1	0	0	0	9407	1203	42	4	1778	4	MCTP1	5	94253666	Missense_Mutation	SNP	G	TCGA-KO-8416-01A-11D-2310-10	29310742	94253666	86661594	16	44427										
HIST1H2BK	85236	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr6	27114569	27114569	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gcgggagcggacttcgctggTtccggcatgttgaaggcgaa	17	9	0	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr6:27114569T>C	ENST00000356950.1	-	1	8	c.9A>G	c.(7-9)gaA>gaG	p.E3E	HIST1H2AH_ENST00000377459.1_5'Flank|MIR3143_ENST00000584253.1_RNA|HIST1H2BK_ENST00000396891.4_Silent_p.E3E			O60814	H2B1K_HUMAN	histone cluster 1, H2bk	3					antibacterial humoral response (GO:0019731)|chromatin organization (GO:0006325)|defense response to Gram-positive bacterium (GO:0050830)|innate immune response in mucosa (GO:0002227)	extracellular space (GO:0005615)|nucleoplasm (GO:0005654)|nucleosome (GO:0000786)|nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|kidney(1)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)|skin(1)	13						ACTTCGCTGGTTCCGGCATGT	0.562																																																0													51	51	51					6																	27114569		2203	4300	6503	SO:0001819	synonymous_variant	85236			AJ223352	CCDS4621.1	6p22.1	2011-01-27	2006-10-11	2003-02-28	ENSG00000197903	ENSG00000197903		"Histones / Replication-dependent"	13954	protein-coding gene	gene with protein product		615045	"H2B histone family, member T", "histone 1, H2bk"	H2BFT		12408966	Standard	NM_080593		Approved	H2BFAiii	uc003nix.2	O60814	OTTHUMG00000014473	ENST00000356950.1:c.9A>G	6.37:g.27114569T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7P7|Q2VPI7	Silent	SNP	ENST00000356950.1	37	CCDS4621.1																																																																																				0.562	HIST1H2BK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040141.1	NM_080593		C	27114569	T	C	27114569	2	2	686	1	0	0	0	0	0	0	0	1	7157	1722	60	3		3	HIST1H2BK	6	27114569	Silent	SNP	T	TCGA-KO-8416-01A-11D-2310-10		27114569	144000498	17	44428										
SYNE1	23345	bcgsc.ca	37	chr6	152590301	152590301	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	acactttactttttgttgctGgagactgctctgccgctgct	9	11	1	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr6:152590301G>T	ENST00000367255.5	-	99	19295	c.18694C>A	c.(18694-18696)Cag>Aag	p.Q6232K	SYNE1_ENST00000448038.1_Missense_Mutation_p.Q6161K|SYNE1_ENST00000423061.1_Missense_Mutation_p.Q6161K|SYNE1_ENST00000341594.5_Missense_Mutation_p.Q5844K|SYNE1_ENST00000356820.4_Missense_Mutation_p.Q756K|SYNE1_ENST00000265368.4_Missense_Mutation_p.Q6232K	NM_182961.3	NP_892006.3	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6232					cell death (GO:0008219)|cytoskeletal anchoring at nuclear membrane (GO:0090286)|establishment of nucleus localization (GO:0040023)|Golgi organization (GO:0007030)|muscle cell differentiation (GO:0042692)|nuclear matrix anchoring at nuclear membrane (GO:0090292)|nucleus organization (GO:0006997)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nucleus (GO:0005634)|postsynaptic membrane (GO:0045211)|sarcomere (GO:0030017)|SUN-KASH complex (GO:0034993)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|lamin binding (GO:0005521)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)			NS(3)|biliary_tract(1)|breast(17)|central_nervous_system(21)|cervix(3)|endometrium(27)|haematopoietic_and_lymphoid_tissue(4)|kidney(16)|large_intestine(138)|liver(1)|lung(190)|ovary(11)|pancreas(5)|prostate(12)|skin(20)|stomach(3)|upper_aerodigestive_tract(33)|urinary_tract(19)	524		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTTTGTTGCTGGAGACTGCTC	0.547										HNSCC(10;0.0054)																																						0													114	105	108					6																	152590301		2203	4300	6503	SO:0001583	missense	23345			AB018339	CCDS5235.1, CCDS5236.1, CCDS5236.2	6q24.2-q25.3	2014-09-17			ENSG00000131018	ENSG00000131018			17089	protein-coding gene	gene with protein product	"myocyte nuclear envelope protein 1", "nuclear envelope spectrin repeat-1"	608441	"chromosome 6 open reading frame 98"	C6orf98		9872452, 10878022	Standard	NM_182961		Approved	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1	uc003qou.4	Q8NF91	OTTHUMG00000015841	ENST00000367255.5:c.18694C>A	6.37:g.152590301G>T	ENSP00000356224:p.Gln6232Lys	Somatic		WXS	Illumina HiSeq	Phase_I	E7EQI5|O94890|Q5JV19|Q5JV22|Q8N9P7|Q8TCP1|Q8WWW6|Q8WWW7|Q8WXF6|Q96N17|Q9C0A7|Q9H525|Q9H526|Q9NS36|Q9NU50|Q9UJ06|Q9UJ07|Q9ULF8	Missense_Mutation	SNP	ENST00000367255.5	37	CCDS5236.2	.	.	.	.	.	.	.	.	.	.	G	32	5.127081	0.94429	.	.	ENSG00000131018	ENST00000367255;ENST00000423061;ENST00000265368;ENST00000448038;ENST00000341594;ENST00000356820	T;T;T;T;T;T	0.58797	0.4;0.39;0.31;0.39;0.55;1.02	5.57	5.57	0.84162	.	0.000000	0.64402	D	0.000020	T	0.65481	0.2695	M	0.69823	2.125	0.80722	D	1	D;D;D	0.58268	0.97;0.97;0.982	P;P;P	0.54629	0.576;0.576;0.757	T	0.64854	-0.6309	10	0.46703	T	0.11	.	19.9066	0.97010	0.0:0.0:1.0:0.0	.	6232;6232;6161	Q8NF91;E7EQI5;Q8NF91-4	SYNE1_HUMAN;.;.	K	6232;6161;6232;6161;5844;756	ENSP00000356224:Q6232K;ENSP00000396024:Q6161K;ENSP00000265368:Q6232K;ENSP00000390975:Q6161K;ENSP00000341887:Q5844K;ENSP00000349276:Q756K	ENSP00000265368:Q6232K	Q	-	1	0	SYNE1	152631994	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	9.269000	0.95684	2.779000	0.95612	0.655000	0.94253	CAG		0.547	SYNE1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000334755.2	NM_182961		T	152590301	G	T	152590301	3	4	686	1	0	0	0	0	1	0	0	0	15457	1357	47	4	7964	4	SYNE1	6	152590301	Missense_Mutation	SNP	G	TCGA-KO-8416-01A-11D-2310-10	125475732	152590301	18524766	18	44429										
BAZ1B	9031	mdanderson.org	37	chr7	72861634	72861634	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	taatcttcttcctcctcctcCtcttcttcctcctcctcctc	0	21	4	0			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr7:72861634C>T	ENST00000339594.4	-	16	4142	c.3804G>A	c.(3802-3804)gaG>gaA	p.E1268E	BAZ1B_ENST00000404251.1_Silent_p.E1268E	NM_032408.3	NP_115784.1	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	1268	Poly-Glu.				cellular response to DNA damage stimulus (GO:0006974)|chromatin assembly or disassembly (GO:0006333)|chromatin-mediated maintenance of transcription (GO:0048096)|double-strand break repair (GO:0006302)|heart morphogenesis (GO:0003007)|histone phosphorylation (GO:0016572)|peptidyl-tyrosine phosphorylation (GO:0018108)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	condensed chromosome (GO:0000793)|nucleus (GO:0005634)|pericentric heterochromatin (GO:0005721)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|histone kinase activity (GO:0035173)|lysine-acetylated histone binding (GO:0070577)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein tyrosine kinase activity (GO:0004713)|vitamin D receptor activator activity (GO:0071884)|zinc ion binding (GO:0008270)			NS(1)|breast(5)|cervix(1)|endometrium(5)|kidney(5)|large_intestine(12)|lung(20)|ovary(5)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	61		Lung NSC(55;0.0659)|all_lung(88;0.152)				cctcctcctcctcttcttcct	0.438																																					Esophageal Squamous(112;1167 1561 21085 43672 48228)											0													178	145	156					7																	72861634		2203	4300	6503	SO:0001819	synonymous_variant	9031			AF084479	CCDS5549.1	7q11.23	2013-01-28			ENSG00000009954	ENSG00000009954		"Zinc fingers, PHD-type"	961	protein-coding gene	gene with protein product	"Williams-Beuren syndrome chromosome region 9", "Williams-Beuren syndrome chromosome region 10", "transcription factor WSTF"	605681		WBSCR9, WBSCR10		9858827, 9828126	Standard	NM_032408		Approved	WSTF	uc003tyc.3	Q9UIG0	OTTHUMG00000023847	ENST00000339594.4:c.3804G>A	7.37:g.72861634C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B9EGK3|D3DXE9|O95039|O95247|O95277|Q6P1K4|Q86UJ6	Silent	SNP	ENST00000339594.4	37	CCDS5549.1																																																																																				0.438	BAZ1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252123.4	NM_032408		T	72861634	C	T	72861634	2	4	686	1	0	0	0	0	0	0	0	1	1330	680	24	2		2	BAZ1B	7	72861634	Silent	SNP	C	TCGA-KO-8416-01A-11D-2310-10		72861634	86277029	19	44430										
RP1L1	94137	hgsc.bcm.edu	37	chr8	10465962	10465962	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tcttctgactctggctgggcCtctccttctgcctctggggc	11	15	6	1	rs111646478	byFrequency	TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr8:10465962C>A	ENST00000382483.3	-	4	5869	c.5646G>T	c.(5644-5646)gaG>gaT	p.E1882D		NM_178857.5	NP_849188.4	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1962					cell projection organization (GO:0030030)|intracellular signal transduction (GO:0035556)|photoreceptor cell development (GO:0042461)|photoreceptor cell maintenance (GO:0045494)|visual perception (GO:0007601)	axoneme (GO:0005930)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|photoreceptor connecting cilium (GO:0032391)|photoreceptor outer segment (GO:0001750)				breast(5)|central_nervous_system(2)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(4)|kidney(5)|large_intestine(16)|lung(82)|ovary(8)|prostate(5)|skin(6)|upper_aerodigestive_tract(4)|urinary_tract(3)	148				COAD - Colon adenocarcinoma(149;0.0811)		CTGGCTGGGCCTCTCCTTCTG	0.617													C|||	159	0.0317492	0.0061	0.0548	5008	,	,		16897	0.001		0.0805	False		,,,				2504	0.0317															0													156	173	168					8																	10465962		1942	4150	6092	SO:0001583	missense	94137			AY168346	CCDS43708.1	8p23.1	2011-12-06			ENSG00000183638	ENSG00000183638			15946	protein-coding gene	gene with protein product		608581				12634863	Standard	NM_178857		Approved	DCDC4B	uc003wtc.3	Q8IWN7	OTTHUMG00000163806	ENST00000382483.3:c.5646G>T	8.37:g.10465962C>A	ENSP00000371923:p.Glu1882Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q86SQ1|Q8IWN8|Q8IWN9|Q8IWP0|Q8IWP1|Q8IWP2	Missense_Mutation	SNP	ENST00000382483.3	37	CCDS43708.1	.	.	.	.	.	.	.	.	.	.	C	6.872	0.530264	0.13127	.	.	ENSG00000183638	ENST00000382483	T	0.07800	3.16	1.4	-2.79	0.05841	.	.	.	.	.	T	0.04861	0.0131	N	0.24115	0.695	0.09310	N	1	B	0.10296	0.003	B	0.09377	0.004	T	0.44267	-0.9339	9	0.23891	T	0.37	.	7.224	0.26005	0.6018:0.3982:0.0:0.0	.	1882	A6NKC6	.	D	1882	ENSP00000371923:E1882D	ENSP00000371923:E1882D	E	-	3	2	RP1L1	10503372	0.000000	0.05858	0.006000	0.13384	0.007000	0.05969	-3.895000	0.00340	-0.232000	0.09811	-0.516000	0.04426	GAG		0.617	RP1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375673.1			A	10465962	C	A	10465962	3	1	686	1	0	0	0	0	1	0	0	0	13546	680	24	4	1560	4	RP1L1	8	10465962	Missense_Mutation	SNP	C	TCGA-KO-8416-01A-11D-2310-10		10465962	135898060	20	44431										
AMAC1L2	83650	mdanderson.org	37	chr8	11188748	11188748	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	atggcctgctggtggccctgCtgggtgggggcctgcctgct	18	12	0	0	rs538767857	byFrequency	TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr8:11188748C>A	ENST00000382435.4	+	1	352	c.133C>A	c.(133-135)Ctg>Atg	p.L45M		NM_001282300.1|NM_054028.1	NP_001269229.1|NP_473369.1	Q96KT7	S35G5_HUMAN	solute carrier family 35, member G5	45						integral component of membrane (GO:0016021)											GGTGGCCCTGCTGGGTGGGGG	0.677													C|||	3	0.000599042	0.0008	0.0014	5008	,	,		16814	0.001		0.0	False		,,,				2504	0.0															0													47	54	52					8																	11188748		2203	4300	6503	SO:0001583	missense	83650			AJ291677	CCDS5980.1	8p23.1	2013-05-22	2011-08-03	2011-08-03	ENSG00000177710	ENSG00000177710		"Solute carriers"	15546	protein-coding gene	gene with protein product		615199	"acyl-malonyl condensing enzyme 1-like 2"	AMAC, AMAC1L2			Standard	NM_054028		Approved		uc003wtp.1	Q96KT7	OTTHUMG00000090653	ENST00000382435.4:c.133C>A	8.37:g.11188748C>A	ENSP00000371872:p.Leu45Met	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRL6	Missense_Mutation	SNP	ENST00000382435.4	37	CCDS5980.1	.	.	.	.	.	.	.	.	.	.	C	8.482	0.859971	0.17178	.	.	ENSG00000177710	ENST00000382435	T	0.34275	1.37	0.34	0.34	0.15985	.	0.230767	0.22238	N	0.062730	T	0.18841	0.0452	N	0.24115	0.695	0.31574	N	0.655966	B	0.13145	0.007	B	0.14578	0.011	T	0.06570	-1.0819	10	0.52906	T	0.07	-3.4659	2.848	0.05549	0.0:0.5979:0.0:0.4021	.	45	Q96KT7	S35G5_HUMAN	M	45	ENSP00000371872:L45M	ENSP00000371872:L45M	L	+	1	2	SLC35G5	11226158	0.990000	0.36364	0.929000	0.37066	0.229000	0.25112	-0.196000	0.09532	0.426000	0.26116	0.089000	0.15464	CTG		0.677	SLC35G5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207313.2	NM_054028		A	11188748	C	A	11188748	3	1	686	1	0	0	0	0	1	0	0	0	560	796	28	4	135	4	AMAC1L2	8	11188748	Missense_Mutation	SNP	C	TCGA-KO-8416-01A-11D-2310-10	722786	11188748	135175274	21	44432										
MTMR7	9108	ucsc.edu	37	chr8	17206529	17206529	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tccggaatttggaactccccActatgatgtgtgccgtggcc	11	12	0	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr8:17206529A>G	ENST00000180173.5	-	5	564	c.530T>C	c.(529-531)gTg>gCg	p.V177A	MTMR7_ENST00000521857.1_Missense_Mutation_p.V177A|MTMR7_ENST00000523571.1_5'UTR	NM_004686.4	NP_004677.3	Q9Y216	MTMR7_HUMAN	myotubularin related protein 7	177	Myotubularin phosphatase. {ECO:0000255|PROSITE-ProRule:PRU00669}.				inositol phosphate dephosphorylation (GO:0046855)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phospholipid metabolic process (GO:0006644)|protein dephosphorylation (GO:0006470)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|membrane (GO:0016020)	protein tyrosine phosphatase activity (GO:0004725)			breast(1)|endometrium(5)|kidney(2)|large_intestine(5)|liver(1)|lung(8)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(1)	32				Colorectal(111;0.112)		GGAACTCCCCACTATGATGTG	0.428																																																0													135	129	131					8																	17206529		2203	4300	6503	SO:0001583	missense	9108			AF073482	CCDS34851.1	8p22	2011-06-09			ENSG00000003987	ENSG00000003987		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	7454	protein-coding gene	gene with protein product		603562				9736772, 12890864	Standard	NM_004686		Approved		uc003wxm.3	Q9Y216	OTTHUMG00000163771	ENST00000180173.5:c.530T>C	8.37:g.17206529A>G	ENSP00000180173:p.Val177Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A1L4K9|B4DG87|Q68DX4	Missense_Mutation	SNP	ENST00000180173.5	37	CCDS34851.1	.	.	.	.	.	.	.	.	.	.	A	27.8	4.865172	0.91511	.	.	ENSG00000003987	ENST00000180173;ENST00000521857	D;D	0.92595	-3.07;-3.07	5.24	5.24	0.73138	Myotubularin phosphatase domain (1);Myotubularin-related (1);	0.241929	0.41823	D	0.000808	D	0.92750	0.7695	L	0.52364	1.645	0.80722	D	1	P	0.43024	0.798	P	0.54372	0.75	D	0.90246	0.4290	10	0.15499	T	0.54	.	15.851	0.78930	1.0:0.0:0.0:0.0	.	177	Q9Y216	MTMR7_HUMAN	A	177	ENSP00000180173:V177A;ENSP00000429733:V177A	ENSP00000180173:V177A	V	-	2	0	MTMR7	17250900	1.000000	0.71417	0.949000	0.38748	0.995000	0.86356	6.971000	0.76105	2.281000	0.76405	0.533000	0.62120	GTG		0.428	MTMR7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375311.1	NM_004686		G	17206529	A	G	17206529	3	3	686	1	0	0	0	0	1	0	0	0	9955	159	6	3	1492	3	MTMR7	8	17206529	Missense_Mutation	SNP	A	TCGA-KO-8416-01A-11D-2310-10	6017781	17206529	129157493	22	44433										
ARFGEF1	10565	hgsc.bcm.edu	37	chr8	68112661	68112661	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cttatctttagaactttagtTagaaacaaaagcagtaagtt	6	5	1	2			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr8:68112661T>C	ENST00000262215.3	-	38	5744	c.5355A>G	c.(5353-5355)ctA>ctG	p.L1785L	ARFGEF1_ENST00000518230.1_Silent_p.L623L|ARFGEF1_ENST00000517955.1_5'UTR|ARFGEF1_ENST00000520381.1_Silent_p.L1239L	NM_006421.4	NP_006412.2	Q9Y6D6	BIG1_HUMAN	ADP-ribosylation factor guanine nucleotide-exchange factor 1 (brefeldin A-inhibited)	1785					endomembrane system organization (GO:0010256)|exocytosis (GO:0006887)|Golgi organization (GO:0007030)|negative regulation of actin filament polymerization (GO:0030837)|negative regulation of Rho GTPase activity (GO:0034259)|positive regulation of GTPase activity (GO:0043547)|positive regulation of protein glycosylation in Golgi (GO:0090284)|positive regulation of wound healing (GO:0090303)|protein transport (GO:0015031)|regulation of ARF protein signal transduction (GO:0032012)|regulation of establishment of cell polarity (GO:2000114)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|small nuclear ribonucleoprotein complex (GO:0030532)|trans-Golgi network (GO:0005802)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|guanyl-nucleotide exchange factor activity (GO:0005085)|myosin binding (GO:0017022)|protein kinase A regulatory subunit binding (GO:0034237)			breast(1)|endometrium(14)|kidney(4)|large_intestine(17)|lung(20)|ovary(4)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	65	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GAACTTTAGTTAGAAACAAAA	0.428																																																0													114	113	113					8																	68112661		2203	4300	6503	SO:0001819	synonymous_variant	10565			AF084520	CCDS6199.1	8q13	2011-08-18	2011-08-18		ENSG00000066777	ENSG00000066777			15772	protein-coding gene	gene with protein product		604141				10212200, 8917509	Standard	NM_006421		Approved	DKFZP434L057, BIG1, ARFGEP1, p200	uc003xxo.2	Q9Y6D6	OTTHUMG00000164626	ENST00000262215.3:c.5355A>G	8.37:g.68112661T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NV46|Q9UFV2|Q9UNL0	Silent	SNP	ENST00000262215.3	37	CCDS6199.1																																																																																				0.428	ARFGEF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379441.4	NM_006421		C	68112661	T	C	68112661	2	2	686	1	0	0	0	0	0	0	0	1	852	1741	61	3		3	ARFGEF1	8	68112661	Silent	SNP	T	TCGA-KO-8416-01A-11D-2310-10	50906132	68112661	78251361	23	44434										
MTDH	92140	ucsc.edu;bcgsc.ca	37	chr8	98736833	98736833	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ccttttcttttttagccaagTctgaaactagctgggaatct	7	9	3	1	rs372764968		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr8:98736833T>C	ENST00000336273.3	+	12	2012	c.1684T>C	c.(1684-1686)Tct>Cct	p.S562P	MTDH_ENST00000519934.1_Missense_Mutation_p.S506P	NM_178812.3	NP_848927.2	Q86UE4	LYRIC_HUMAN	metadherin	562					lipopolysaccharide-mediated signaling pathway (GO:0031663)|negative regulation of apoptotic process (GO:0043066)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of angiogenesis (GO:0045766)|positive regulation of autophagy (GO:0010508)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of protein kinase B signaling (GO:0051897)|tight junction assembly (GO:0070830)	apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|intercellular canaliculus (GO:0046581)|nuclear body (GO:0016604)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|tight junction (GO:0005923)	double-stranded RNA binding (GO:0003725)|NF-kappaB binding (GO:0051059)|poly(A) RNA binding (GO:0044822)|RNA polymerase II transcription factor binding (GO:0001085)|transcription coactivator activity (GO:0003713)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(6)|large_intestine(5)|liver(1)|lung(8)|ovary(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	32	Breast(36;2.56e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.178)			TTTAGCCAAGTCTGAAACTAG	0.323																																																0													102	104	103					8																	98736833		2203	4300	6503	SO:0001583	missense	92140			AF411226	CCDS6274.1	8q22.1	2014-07-14			ENSG00000147649	ENSG00000147649			29608	protein-coding gene	gene with protein product	"astrocyte elevated gene 1"	610323				15093543	Standard	NM_178812		Approved	LYRIC, 3D3, AEG-1	uc003yhz.3	Q86UE4	OTTHUMG00000164692	ENST00000336273.3:c.1684T>C	8.37:g.98736833T>C	ENSP00000338235:p.Ser562Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q05DH2|Q52QU9|Q6PK07|Q8TCX3	Missense_Mutation	SNP	ENST00000336273.3	37	CCDS6274.1	.	.	.	.	.	.	.	.	.	.	T	15.21	2.766344	0.49574	.	.	ENSG00000147649	ENST00000336273;ENST00000519934;ENST00000521933	T;T	0.54479	0.57;0.57	5.64	5.64	0.86602	.	0.059502	0.64402	D	0.000001	T	0.64702	0.2622	L	0.42245	1.32	0.49213	D	0.99976	D	0.89917	1.0	D	0.85130	0.997	T	0.63107	-0.6711	10	0.38643	T	0.18	-5.6617	14.4204	0.67180	0.0:0.0:0.0:1.0	.	562	Q86UE4	LYRIC_HUMAN	P	562;506;185	ENSP00000338235:S562P;ENSP00000428168:S506P	ENSP00000338235:S562P	S	+	1	0	MTDH	98806009	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	5.491000	0.66887	2.148000	0.66965	0.533000	0.62120	TCT		0.323	MTDH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379772.2			C	98736833	T	C	98736833	3	2	686	1	0	0	0	0	1	0	0	0	9924	1667	58	3	1730	3	MTDH	8	98736833	Missense_Mutation	SNP	T	TCGA-KO-8416-01A-11D-2310-10	30624172	98736833	47627189	24	44435										
SMARCA2	6595	mdanderson.org	37	chr9	2039815	2039815	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cagcagcagcagcagcagcaGcaacagcagccgcagcagca	12	15	0	0	rs574062756	byFrequency	TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr9:2039815G>A	ENST00000382203.1	+	4	914	c.705G>A	c.(703-705)caG>caA	p.Q235Q	SMARCA2_ENST00000357248.2_Silent_p.Q235Q|SMARCA2_ENST00000382194.1_Silent_p.Q235Q|RP11-264I13.2_ENST00000426860.1_RNA|SMARCA2_ENST00000491574.1_3'UTR|SMARCA2_ENST00000349721.2_Silent_p.Q235Q			P51531	SMCA2_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	235	Poly-Gln.				aortic smooth muscle cell differentiation (GO:0035887)|ATP catabolic process (GO:0006200)|chromatin remodeling (GO:0006338)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|nervous system development (GO:0007399)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)	intermediate filament cytoskeleton (GO:0045111)|intracellular membrane-bounded organelle (GO:0043231)|nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SWI/SNF complex (GO:0016514)	ATP binding (GO:0005524)|DNA-dependent ATPase activity (GO:0008094)|helicase activity (GO:0004386)|RNA polymerase II transcription coactivator activity (GO:0001105)|transcription coactivator activity (GO:0003713)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(3)|large_intestine(11)|liver(2)|lung(19)|ovary(3)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	56		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		agcagcagcagcaacagcagc	0.587													G|||	41	0.0081869	0.0151	0.0029	5008	,	,		10366	0.0089		0.0	False		,,,				2504	0.0102															0													10	13	12					9																	2039815		2161	4205	6366	SO:0001819	synonymous_variant	6595			D26155	CCDS34977.1, CCDS34978.1, CCDS75807.1, CCDS75808.1	9p24.3	2008-11-11	2006-11-09		ENSG00000080503	ENSG00000080503			11098	protein-coding gene	gene with protein product		600014		SNF2L2		8012116	Standard	NM_003070		Approved	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2	uc003zhc.3	P51531	OTTHUMG00000019445	ENST00000382203.1:c.705G>A	9.37:g.2039815G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B1ALG3|B1ALG4|D3DRH4|D3DRH5	Silent	SNP	ENST00000382203.1	37	CCDS34977.1																																																																																				0.587	SMARCA2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000051505.1	NM_003070		A	2039815	G	A	2039815	2	1	686	1	0	0	0	0	0	0	0	1	14782	962	34	2		2	SMARCA2	9	2039815	Silent	SNP	G	TCGA-KO-8416-01A-11D-2310-10		2039815	139173616	25	44436										
EPB41L4B	54566	mdanderson.org	37	chr9	112082510	112082510	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gccggcggcggagatgtgcaCggccgcgccgccggtgagca	19	14	0	2	rs117569740	byFrequency	TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr9:112082510C>T	ENST00000374566.3	-	1	734	c.217G>A	c.(217-219)Gtg>Atg	p.V73M	EPB41L4B_ENST00000374557.4_Missense_Mutation_p.V73M	NM_019114.3	NP_061987.3	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	73				V -> M (in Ref. 2; BAA96079). {ECO:0000305}.	actomyosin structure organization (GO:0031032)	apical part of cell (GO:0045177)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extrinsic component of membrane (GO:0019898)	structural constituent of cytoskeleton (GO:0005200)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(6)|lung(14)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	39						GAGATGTGCACGGCCGCGCCG	0.796													c|||	470	0.0938498	0.0129	0.072	5008	,	,		4964	0.1855		0.159	False		,,,				2504	0.0573															0									MET/VAL,MET/VAL	73,2621		0,73,1274	2	3	2		217,217	2.9	1	9	dbSNP_132	2	697,5609		29,639,2485	no	missense,missense	EPB41L4B	NM_018424.2,NM_019114.3	21,21	29,712,3759	TT,TC,CC		11.053,2.7097,8.5556	benign,benign	73/519,73/901	112082510	770,8230	1347	3153	4500	SO:0001583	missense	54566			AB032179	CCDS43859.1, CCDS43860.1	9q22.1-q22.3	2008-02-05			ENSG00000095203	ENSG00000095203			19818	protein-coding gene	gene with protein product		610340				10783258	Standard	NM_018424		Approved	EHM2	uc004bdz.1	Q9H329	OTTHUMG00000020470	ENST00000374566.3:c.217G>A	9.37:g.112082510C>T	ENSP00000363694:p.Val73Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T4G5|Q5T4G6|Q9H328|Q9P2V3	Missense_Mutation	SNP	ENST00000374566.3	37	CCDS43859.1	304	0.1391941391941392	12	0.024390243902439025	31	0.0856353591160221	123	0.21503496503496503	138	0.1820580474934037	c	16.13	3.036368	0.54896	0.027097	0.11053	ENSG00000095203	ENST00000374566;ENST00000374557	D;D	0.84070	-1.77;-1.8	2.94	2.94	0.34122	.	.	.	.	.	T	0.00178	0.0005	N	0.24115	0.695	0.27693	P	0.9460421	D;D	0.89917	1.0;0.999	D;D	0.66847	0.947;0.92	T	0.07597	-1.0764	8	0.35671	T	0.21	.	10.0702	0.42328	0.0:1.0:0.0:0.0	.	73;73	Q9H329-2;Q9H329	.;E41LB_HUMAN	M	73	ENSP00000363694:V73M;ENSP00000363685:V73M	ENSP00000363685:V73M	V	-	1	0	EPB41L4B	111122331	0.998000	0.40836	0.998000	0.56505	0.000000	0.00434	1.975000	0.40569	1.467000	0.48044	0.000000	0.15137	GTG		0.796	EPB41L4B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000053592.1	NM_018424		T	112082510	C	T	112082510	3	4	686	1	0	0	0	0	1	0	0	0	5158	536	19	1	2741	1	EPB41L4B	9	112082510	Missense_Mutation	SNP	C	TCGA-KO-8416-01A-11D-2310-10	110042695	112082510	29130921	26	44437										
UCN3	114131	broad.mit.edu	37	chr10	5415962	5415962	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	aggggtggagccagaggcacCcggtacagatacgtgtccca	15	11	0	2			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr10:5415962C>T	ENST00000380433.3	+	2	507	c.279C>T	c.(277-279)acC>acT	p.T93T		NM_053049.2	NP_444277.2	Q969E3	UCN3_HUMAN	urocortin 3	93					adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|cellular response to hypoxia (GO:0071456)|cellular response to nutrient levels (GO:0031669)|digestion (GO:0007586)|positive regulation of insulin secretion (GO:0032024)|positive regulation of membrane potential (GO:0045838)|response to corticosterone (GO:0051412)|response to glucose (GO:0009749)|response to immobilization stress (GO:0035902)|response to starvation (GO:0042594)	axon terminus (GO:0043679)|extracellular space (GO:0005615)|varicosity (GO:0043196)				endometrium(1)|large_intestine(1)	2						CCAGAGGCACCCGGTACAGAT	0.627																																																0													57	57	57					10																	5415962		2201	4299	6500	SO:0001819	synonymous_variant	114131			AF361943	CCDS7065.1	10p15.1	2013-02-28	2012-10-17		ENSG00000178473	ENSG00000178473		"Endogenous ligands"	17781	protein-coding gene	gene with protein product	"stresscopin", "prepro-urocortin 3"	605901				11416224	Standard	NM_053049		Approved	UCNIII, SPC	uc001ihx.1	Q969E3	OTTHUMG00000017594	ENST00000380433.3:c.279C>T	10.37:g.5415962C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q496H2|Q5SR91	Silent	SNP	ENST00000380433.3	37	CCDS7065.1																																																																																				0.627	UCN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046547.1	NM_053049		T	5415962	C	T	5415962	2	4	686	1	0	0	0	0	0	0	0	1	16941	610	22	2		2	UCN3	10	5415962	Silent	SNP	C	TCGA-KO-8416-01A-11D-2310-10		5415962	130118785	27	44438										
SLK	9748	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr10	105727558	105727558	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tggggagcgagaagaagaagAagcagtacgaacacgtgaag	16	5	0	5	rs137997569		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr10:105727558A>C	ENST00000369755.3	+	1	600	c.55A>C	c.(55-57)Aag>Cag	p.K19Q	SLK_ENST00000335753.4_Missense_Mutation_p.K19Q	NM_014720.2	NP_055535.2	Q9H2G2	SLK_HUMAN	STE20-like kinase	19	Poly-Lys.				apoptotic process (GO:0006915)|protein autophosphorylation (GO:0046777)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|protein homodimerization activity (GO:0042803)|protein serine/threonine kinase activity (GO:0004674)			kidney(1)|lung(1)|ovary(2)|skin(2)|stomach(2)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		GAAGAAGAAGAAGCAGTACGA	0.458													A|||	1	0.000199681	0.0	0.0014	5008	,	,		14767	0.0		0.0	False		,,,				2504	0.0				NSCLC(111;540 1651 1927 4474 17706)											0								A	GLN/LYS	1,4405	2.1+/-5.4	0,1,2202	129	137	134		55	4.6	1	10	dbSNP_134	134	2,8598	2.2+/-6.3	0,2,4298	yes	missense	SLK	NM_014720.2	53	0,3,6500	CC,CA,AA		0.0233,0.0227,0.0231	probably-damaging	19/1236	105727558	3,13003	2203	4300	6503	SO:0001583	missense	9748				CCDS7553.1	10q25.1	2010-06-25	2010-06-25		ENSG00000065613	ENSG00000065613			11088	protein-coding gene	gene with protein product			"SNF1 (sucrose nonfermenting, yeast, homolog)-like kinase, SNF1 sucrose nonfermenting like kinase (yeast)", "STE20-like kinase (yeast)"			3526554	Standard	NM_014720		Approved	STK2, se20-9, KIAA0204	uc001kxo.1	Q9H2G2	OTTHUMG00000018999	ENST00000369755.3:c.55A>C	10.37:g.105727558A>C	ENSP00000358770:p.Lys19Gln	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRA0|D3DRA1|O00211|Q6P1Z4|Q86WU7|Q86WW1|Q92603|Q9NQL0|Q9NQL1	Missense_Mutation	SNP	ENST00000369755.3	37	CCDS7553.1	.	.	.	.	.	.	.	.	.	.	A	31	5.085324	0.94100	2.27E-4	2.33E-4	ENSG00000065613	ENST00000335753;ENST00000369755	T;T	0.71222	-0.55;-0.55	4.57	4.57	0.56435	Protein kinase-like domain (1);	0.000000	0.85682	D	0.000000	T	0.81973	0.4936	M	0.66939	2.045	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.91635	0.999;0.991	D	0.84148	0.0421	10	0.72032	D	0.01	.	13.9341	0.64015	1.0:0.0:0.0:0.0	.	19;19	Q9H2G2-2;Q9H2G2	.;SLK_HUMAN	Q	19	ENSP00000336824:K19Q;ENSP00000358770:K19Q	ENSP00000336824:K19Q	K	+	1	0	SLK	105717548	1.000000	0.71417	1.000000	0.80357	0.949000	0.60115	8.916000	0.92745	1.690000	0.51089	0.260000	0.18958	AAG		0.458	SLK-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050188.1	NM_014720		C	105727558	A	C	105727558	3	2	686	1	0	0	0	0	1	0	0	0	14761	247	9	5	57	5	SLK	10	105727558	Missense_Mutation	SNP	A	TCGA-KO-8416-01A-11D-2310-10	100311596	105727558	29807189	28	44439										
KNDC1	85442	ucsc.edu	37	chr10	135020674	135020674	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	aacgctggggcctggagcccTgcaccctcccagtgatcgtg	13	15	0	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr10:135020674T>C	ENST00000304613.3	+	20	3634	c.3613T>C	c.(3613-3615)Tgc>Cgc	p.C1205R	KNDC1_ENST00000368571.2_3'UTR|KNDC1_ENST00000368572.2_Missense_Mutation_p.C1207R			Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND) containing 1	1205					cerebellar granule cell differentiation (GO:0021707)|positive regulation of protein phosphorylation (GO:0001934)|regulation of dendrite morphogenesis (GO:0048814)|small GTPase mediated signal transduction (GO:0007264)	dendrite (GO:0030425)|guanyl-nucleotide exchange factor complex (GO:0032045)|neuronal cell body (GO:0043025)	protein serine/threonine kinase activity (GO:0004674)|Ras guanyl-nucleotide exchange factor activity (GO:0005088)			NS(4)|breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(27)|ovary(1)|prostate(5)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	60		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)		CCTGGAGCCCTGCACCCTCCC	0.662																																																0													27	25	26					10																	135020674		2194	4296	6490	SO:0001583	missense	85442			AK074179	CCDS7674.1	10q26.3	2004-09-14	2004-04-07		ENSG00000171798	ENSG00000171798			29374	protein-coding gene	gene with protein product			"RasGEF domain family, member 2"	RASGEF2, C10orf23		11214970	Standard	NM_152643		Approved	KIAA1768, bB439H18.3, FLJ25027	uc001llz.1	Q76NI1	OTTHUMG00000019303	ENST00000304613.3:c.3613T>C	10.37:g.135020674T>C	ENSP00000304437:p.Cys1205Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B0QZC5|Q5T233|Q6ZNH8|Q8TEE5|Q96LV7|Q9C095	Missense_Mutation	SNP	ENST00000304613.3	37	CCDS7674.1	.	.	.	.	.	.	.	.	.	.	T	10.31	1.315195	0.23908	.	.	ENSG00000171798	ENST00000304613;ENST00000368572	T;T	0.12039	2.72;2.72	3.63	0.808	0.18719	.	0.277674	0.29321	U	0.012493	T	0.11793	0.0287	L	0.57536	1.79	0.45005	D	0.998027	D	0.54601	0.967	P	0.46026	0.501	T	0.32851	-0.9891	10	0.23302	T	0.38	-17.9744	0.8433	0.01155	0.2313:0.1132:0.178:0.4774	.	1205	Q76NI1	VKIND_HUMAN	R	1205;1207	ENSP00000304437:C1205R;ENSP00000357561:C1207R	ENSP00000304437:C1205R	C	+	1	0	KNDC1	134870664	0.783000	0.28701	0.988000	0.46212	0.474000	0.32979	1.015000	0.29963	0.039000	0.15632	0.353000	0.21931	TGC		0.662	KNDC1-006	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000277044.3	NM_152643		C	135020674	T	C	135020674	3	2	686	1	0	0	0	0	1	0	0	0	8433	1580	55	3	3691	3	KNDC1	10	135020674	Missense_Mutation	SNP	T	TCGA-KO-8416-01A-11D-2310-10	29293116	135020674	514073	29	44440										
MUC6	4588	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr11	1017180	1017180	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tcggtggaggaatggtgcctGttggcattgagtggatggag	19	4	0	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr11:1017180G>A	ENST00000421673.2	-	31	5671	c.5621C>T	c.(5620-5622)aCa>aTa	p.T1874I		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1874	Approximate repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		AATGGTGCCTGTTGGCATTGA	0.582																																																0													502	480	488					11																	1017180		2202	4286	6488	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.5621C>T	11.37:g.1017180G>A	ENSP00000406861:p.Thr1874Ile	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	11.38	1.623016	0.28889	.	.	ENSG00000184956	ENST00000421673	T	0.22539	1.95	3.05	1.02	0.19986	.	.	.	.	.	T	0.28928	0.0718	L	0.39898	1.24	0.09310	N	1	P	0.44478	0.836	P	0.58391	0.838	T	0.13019	-1.0525	9	0.51188	T	0.08	.	6.6132	0.22763	0.1151:0.1811:0.7038:0.0	.	1874	Q6W4X9	MUC6_HUMAN	I	1874	ENSP00000406861:T1874I	ENSP00000406861:T1874I	T	-	2	0	MUC6	1007180	0.000000	0.05858	0.000000	0.03702	0.012000	0.07955	-0.013000	0.12678	0.118000	0.18165	-0.671000	0.03813	ACA		0.582	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1017180	G	A	1017180	3	1	686	1	0	0	0	0	1	0	0	0	9987	1377	48	2	1710	2	MUC6	11	1017180	Missense_Mutation	SNP	G	TCGA-KO-8416-01A-11D-2310-10		1017180	133989336	30	44441										
MUC5B	727897	broad.mit.edu	37	chr11	1270045	1270045	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tccccccagtgctgaccaccAccgccaccacacctgcagcc	6	23	0	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr11:1270045A>C	ENST00000529681.1	+	31	11993	c.11935A>C	c.(11935-11937)Acc>Ccc	p.T3979P	RP11-532E4.2_ENST00000532061.2_RNA|MUC5B_ENST00000447027.1_Missense_Mutation_p.T3982P	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	3979	11 X approximate tandem repeats, Ser/Thr- rich.|7 X Cys-rich subdomain repeats.|Thr-rich.				cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		gctgaccaccaccgccaccac	0.642																																																0													19	27	24					11																	1270045		1254	2834	4088	SO:0001583	missense	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.11935A>C	11.37:g.1270045A>C	ENSP00000436812:p.Thr3979Pro	Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Missense_Mutation	SNP	ENST00000529681.1	37	CCDS44515.2	.	.	.	.	.	.	.	.	.	.	A	8.902	0.956543	0.18507	.	.	ENSG00000117983	ENST00000529681;ENST00000447027;ENST00000349637	T;T	0.20332	2.08;2.27	2.84	-0.148	0.13424	.	.	.	.	.	T	0.28034	0.0691	L	0.46157	1.445	0.09310	N	1	D	0.65815	0.995	P	0.56278	0.795	T	0.13602	-1.0503	9	0.87932	D	0	.	6.7891	0.23689	0.809:0.0:0.191:0.0	.	3982	E9PBJ0	.	P	3979;3982;3923	ENSP00000436812:T3979P;ENSP00000415793:T3982P	ENSP00000343037:T3923P	T	+	1	0	MUC5B	1226621	0.000000	0.05858	0.001000	0.08648	0.323000	0.28346	-5.417000	0.00124	0.078000	0.16900	0.248000	0.18094	ACC		0.642	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		C	1270045	A	C	1270045	3	2	686	1	0	0	0	0	1	0	0	0	9986	159	6	5	12066	5	MUC5B	11	1270045	Missense_Mutation	SNP	A	TCGA-KO-8416-01A-11D-2310-10	252865	1270045	133736471	31	44442										
KRTAP5-4	387267	mdanderson.org	37	chr11	1643255	1643255	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cccccacagccagagccacaGcccccacagccggagccaca	8	22	0	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr11:1643255G>A	ENST00000399682.1	-	1	113	c.69C>T	c.(67-69)ggC>ggT	p.G23G		NM_001012709.1	NP_001012727	Q6L8H1	KRA54_HUMAN	keratin associated protein 5-4	0						keratin filament (GO:0045095)		p.G23G(1)		NS(1)|endometrium(9)|kidney(2)|lung(2)|pancreas(1)|prostate(3)|skin(2)	20		all_epithelial(84;0.00819)|Breast(177;0.00832)|Ovarian(85;0.0256)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		cagagccacagcccccacagc	0.687																																																1	Substitution - coding silent(1)	kidney(1)											4	8	7					11																	1643255		646	1526	2172	SO:0001819	synonymous_variant	387267			AB126073		11p15.5	2012-04-19			ENSG00000241598	ENSG00000241598		"Keratin associated proteins"	23599	protein-coding gene	gene with protein product						15144888	Standard	NM_001012709		Approved	KRTAP5.4	uc009ycy.1	Q6L8H1	OTTHUMG00000057553	ENST00000399682.1:c.69C>T	11.37:g.1643255G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000399682.1	37																																																																																					0.687	KRTAP5-4-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000127918.1	NM_001012709		A	1643255	G	A	1643255	2	1	686	1	0	0	0	0	0	0	0	1	8570	958	34	2		2	KRTAP5-4	11	1643255	Silent	SNP	G	TCGA-KO-8416-01A-11D-2310-10	373210	1643255	133363261	32	44443										
ZDHHC13	54503	bcgsc.ca	37	chr11	19174169	19174169	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tcattattcatatgctaaaaAcagaagccaaaatgagagcc	6	8	2	2			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr11:19174169A>G	ENST00000446113.2	+	8	932	c.811A>G	c.(811-813)Aca>Gca	p.T271A	ZDHHC13_ENST00000399351.3_Missense_Mutation_p.T141A|ZDHHC13_ENST00000532812.1_3'UTR	NM_019028.2	NP_061901.2	Q8IUH4	ZDH13_HUMAN	zinc finger, DHHC-type containing 13	271					metabolic process (GO:0008152)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|signal transduction (GO:0007165)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi-associated vesicle membrane (GO:0030660)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)	magnesium ion transmembrane transporter activity (GO:0015095)|palmitoyltransferase activity (GO:0016409)|protein-cysteine S-palmitoyltransferase activity (GO:0019706)|signal transducer activity (GO:0004871)|zinc ion binding (GO:0008270)			NS(1)|kidney(1)|lung(2)|skin(1)|upper_aerodigestive_tract(1)	6						TATGCTAAAAACAGAAGCCAA	0.363																																																0													60	58	58					11																	19174169		1802	4056	5858	SO:0001583	missense	54503			AB024495	CCDS44550.1, CCDS44551.1	11p15.1	2013-01-10			ENSG00000177054	ENSG00000177054		"Zinc fingers, DHHC-type", "Ankyrin repeat domain containing"	18413	protein-coding gene	gene with protein product		612815				18794299	Standard	NM_001001483		Approved	FLJ10852, FLJ10941, HIP14L	uc001mpi.3	Q8IUH4	OTTHUMG00000166099	ENST00000446113.2:c.811A>G	11.37:g.19174169A>G	ENSP00000400113:p.Thr271Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z2D3|Q86VK2|Q9NV30|Q9NV99	Missense_Mutation	SNP	ENST00000446113.2	37	CCDS44550.1	.	.	.	.	.	.	.	.	.	.	A	9.311	1.055651	0.19907	.	.	ENSG00000177054	ENST00000446113;ENST00000399351	T;T	0.64085	-0.08;-0.08	5.51	3.18	0.36537	Ankyrin repeat-containing domain (3);	1.062360	0.07154	N	0.849542	T	0.36635	0.0974	N	0.05230	-0.09	0.23210	N	0.998117	B	0.02656	0.0	B	0.04013	0.001	T	0.28996	-1.0026	10	0.10902	T	0.67	-4.7782	5.7177	0.17970	0.673:0.0:0.327:0.0	.	271	Q8IUH4	ZDH13_HUMAN	A	271;141	ENSP00000400113:T271A;ENSP00000382288:T141A	ENSP00000382288:T141A	T	+	1	0	ZDHHC13	19130745	0.000000	0.05858	1.000000	0.80357	0.987000	0.75469	0.106000	0.15354	0.945000	0.37605	0.472000	0.43445	ACA		0.363	ZDHHC13-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387821.1	NM_019028		G	19174169	A	G	19174169	3	3	686	1	0	0	0	0	1	0	0	0	17615	43	2	3	841	3	ZDHHC13	11	19174169	Missense_Mutation	SNP	A	TCGA-KO-8416-01A-11D-2310-10	17530914	19174169	115832347	33	44444										
OR1S2	219958	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	57970779	57970779	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tcatcatgggtgtcaccacaGtgaataggacagcaccaatc	9	11	3	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr11:57970779G>A	ENST00000302592.6	-	1	874	c.875C>T	c.(874-876)aCt>aTt	p.T292I		NM_001004459.1	NP_001004459.1	Q8NGQ3	OR1S2_HUMAN	olfactory receptor, family 1, subfamily S, member 2	292						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(11)|kidney(1)|large_intestine(4)|lung(23)|ovary(2)|skin(2)|stomach(2)|urinary_tract(1)	46		Breast(21;0.0589)				TGTCACCACAGTGAATAGGAC	0.448																																																0													152	142	145					11																	57970779		2201	4296	6497	SO:0001583	missense	219958			BK004297	CCDS31545.1	11q12.1	2012-08-09			ENSG00000197887	ENSG00000197887		"GPCR / Class A : Olfactory receptors"	15141	protein-coding gene	gene with protein product							Standard	NM_001004459		Approved		uc010rkb.2	Q8NGQ3	OTTHUMG00000167541	ENST00000302592.6:c.875C>T	11.37:g.57970779G>A	ENSP00000305469:p.Thr292Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFG5|Q96R85	Missense_Mutation	SNP	ENST00000302592.6	37	CCDS31545.1	.	.	.	.	.	.	.	.	.	.	G	14.18	2.457628	0.43634	.	.	ENSG00000197887	ENST00000302592	T	0.00241	8.46	4.75	4.75	0.60458	GPCR, rhodopsin-like superfamily (1);	0.129483	0.35207	N	0.003376	T	0.00468	0.0015	M	0.90198	3.095	0.31600	N	0.652805	P	0.44044	0.825	P	0.46299	0.511	T	0.21759	-1.0236	10	0.72032	D	0.01	.	16.8288	0.85938	0.0:0.0:1.0:0.0	.	292	Q8NGQ3	OR1S2_HUMAN	I	292	ENSP00000305469:T292I	ENSP00000305469:T292I	T	-	2	0	OR1S2	57727355	0.120000	0.22244	0.998000	0.56505	0.443000	0.32047	2.643000	0.46604	2.622000	0.88805	0.655000	0.94253	ACT		0.448	OR1S2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394703.2	NM_001004459		A	57970779	G	A	57970779	3	1	686	1	0	0	0	0	1	0	0	0	10980	1029	36	2	105	2	OR1S2	11	57970779	Missense_Mutation	SNP	G	TCGA-KO-8416-01A-11D-2310-10	38796610	57970779	77035737	34	44445										
MAML2	84441	mdanderson.org	37	chr11	95825407	95825407	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgctgctgctgctgctgctgCtgctgctgttgctgctgttg	14	11	0	0	rs61901862		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr11:95825407C>T	ENST00000524717.1	-	2	3072	c.1788G>A	c.(1786-1788)caG>caA	p.Q596Q		NM_032427.1	NP_115803.1	Q8IZL2	MAML2_HUMAN	mastermind-like 2 (Drosophila)	596					gene expression (GO:0010467)|Notch signaling pathway (GO:0007219)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription initiation from RNA polymerase II promoter (GO:0006367)	Golgi apparatus (GO:0005794)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)	p.Q596Q(1)	CRTC3/MAML2(26)|CRTC1/MAML2(516)	breast(2)|cervix(1)|endometrium(11)|kidney(4)|large_intestine(8)|lung(12)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	43		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				gctgctgctgctgctgctgtt	0.532			T	"MECT1, CRTC3"	salivary gland mucoepidermoid																																		Dom	yes		11	11q22-q23	84441	mastermind-like 2 (Drosophila)		E	1	Substitution - coding silent(1)	kidney(1)											28	35	33					11																	95825407		2119	4148	6267	SO:0001819	synonymous_variant	84441			AB058722	CCDS44714.1	11q	2008-02-05	2001-11-28		ENSG00000184384	ENSG00000184384			16259	protein-coding gene	gene with protein product		607537	"mastermind (Drosophila)-like 2"			12370315, 12386158	Standard	NM_032427		Approved	KIAA1819, MAM3	uc001pfw.1	Q8IZL2	OTTHUMG00000167677	ENST00000524717.1:c.1788G>A	11.37:g.95825407C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7MD26|Q6AI23|Q6Y3A3|Q8IUL3|Q96JK6	Silent	SNP	ENST00000524717.1	37	CCDS44714.1																																																																																				0.532	MAML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395540.1			T	95825407	C	T	95825407	2	4	686	1	0	0	0	0	0	0	0	1	9213	796	28	2		2	MAML2	11	95825407	Silent	SNP	C	TCGA-KO-8416-01A-11D-2310-10	37854628	95825407	39181109	35	44446										
TMPRSS13	84000	mdanderson.org	37	chr11	117789302	117789302	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctggaaagtgatgccagagcCggagatgcccgggctggaga	17	9	0	4			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr11:117789302C>T	ENST00000430170.2	-	2	360	c.273G>A	c.(271-273)ccG>ccA	p.P91P	TMPRSS13_ENST00000524993.1_Silent_p.P91P|TMPRSS13_ENST00000528626.1_Silent_p.P91P|TMPRSS13_ENST00000526090.1_Silent_p.P91P|TMPRSS13_ENST00000445164.2_Silent_p.P91P	NM_001244995.1	NP_001231924.1	Q9BYE2	TMPSD_HUMAN	transmembrane protease, serine 13	91	13 X 5 AA repeats of A-S-P-A-[GLQR].|Ala-rich.					blood microparticle (GO:0072562)|integral component of membrane (GO:0016021)	scavenger receptor activity (GO:0005044)|serine-type endopeptidase activity (GO:0004252)			endometrium(1)|kidney(3)|large_intestine(6)|lung(7)|pancreas(1)|prostate(1)|urinary_tract(1)	20	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.00106)		ATGCCAGAGCCGGAGATGCCC	0.627																																																0													59	69	65					11																	117789302		2036	4169	6205	SO:0001819	synonymous_variant	84000			AB048796	CCDS41721.1, CCDS55788.1, CCDS55789.1, CCDS58185.1	11q23	2010-04-13	2005-03-11	2005-03-12	ENSG00000137747	ENSG00000137747		"Serine peptidases / Transmembrane"	29808	protein-coding gene	gene with protein product		610050	"transmembrane protease, serine 11"	TMPRSS11		11267681	Standard	NM_001077263		Approved	MSPL	uc001prs.2	Q9BYE2	OTTHUMG00000166992	ENST00000430170.2:c.273G>A	11.37:g.117789302C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DTM9|E9PIJ5|F8WAJ3|Q86YM4|Q96JY8|Q9BYE1	Silent	SNP	ENST00000430170.2	37	CCDS58185.1																																																																																				0.627	TMPRSS13-006	PUTATIVE	basic|appris_candidate|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000392318.1	NM_032046		T	117789302	C	T	117789302	2	4	686	1	0	0	0	0	0	0	0	1	16257	639	23	1		1	TMPRSS13	11	117789302	Silent	SNP	C	TCGA-KO-8416-01A-11D-2310-10	21963895	117789302	17217214	36	44447										
ROBO3	64221	mdanderson.org	37	chr11	124750455	124750455	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ccctggccggagccggagtcGgagtcagagccggagccaga	17	13	1	2	rs200255001|rs199686375		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr11:124750455G>A	ENST00000397801.1	+	27	4292	c.4100G>A	c.(4099-4101)cGg>cAg	p.R1367Q	ROBO3_ENST00000543966.1_Missense_Mutation_p.R130Q|ROBO3_ENST00000538940.1_Missense_Mutation_p.R1345Q|ROBO3_ENST00000525482.1_3'UTR	NM_022370.3	NP_071765.2	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3 (Drosophila)	1367					axon guidance (GO:0007411)|axon midline choice point recognition (GO:0016199)|neuron migration (GO:0001764)	axon (GO:0030424)|integral component of membrane (GO:0016021)		p.R1367Q(1)		breast(2)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(17)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	35	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		agccggagtcggagtcagagc	0.657													-|||	1	0.000199681	0.0	0.0	5008	,	,		15316	0.0		0.0	False		,,,				2504	0.001															1	Substitution - Missense(1)	central_nervous_system(1)											14	22	19					11																	124750455		2003	4113	6116	SO:0001583	missense	64221			AK024697	CCDS44755.1	11q24	2013-02-11	2001-11-28		ENSG00000154134	ENSG00000154134		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	13433	protein-coding gene	gene with protein product		608630	"roundabout (axon guidance receptor, Drosophila) homolog 3", "horizontal gaze palsy with progressive scoliosis"	HGPPS		15105459	Standard	NM_022370		Approved	RBIG1, FLJ21044, HGPS	uc001qbc.3	Q96MS0	OTTHUMG00000165934	ENST00000397801.1:c.4100G>A	11.37:g.124750455G>A	ENSP00000380903:p.Arg1367Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000397801.1	37	CCDS44755.1	.	.	.	.	.	.	.	.	.	.	-	9.957	1.221827	0.22457	.	.	ENSG00000154134	ENST00000397801;ENST00000538940;ENST00000543966	T;T;T	0.63744	-0.06;-0.05;0.9	.	.	.	.	2.111980	0.03039	N	0.153117	T	0.44414	0.1292	N	0.22421	0.69	0.25439	N	0.98812	B	0.11235	0.004	B	0.01281	0.0	T	0.13548	-1.0505	9	0.26408	T	0.33	.	3.585	0.07967	0.0:0.5:0.5:0.0	.	1367	Q96MS0	ROBO3_HUMAN	Q	1367;1345;130	ENSP00000380903:R1367Q;ENSP00000441797:R1345Q;ENSP00000438799:R130Q	ENSP00000380903:R1367Q	R	+	2	0	ROBO3	124255665	0.941000	0.31946	0.996000	0.52242	0.523000	0.34469	-0.157000	0.10085	-0.000000	0.14550	0.000000	0.15137	CGG		0.657	ROBO3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387091.1	XM_370663		A	124750455	G	A	124750455	3	1	686	1	0	0	0	0	1	0	0	0	13528	1116	39	1	4206	1	ROBO3	11	124750455	Missense_Mutation	SNP	G	TCGA-KO-8416-01A-11D-2310-10	6961153	124750455	10256061	37	44448										
ARHGAP32	9743	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr11	128840231	128840231	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ggtacagaggtcttgggcagTaggctggctcatcatctggg	16	8	4	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr11:128840231T>C	ENST00000310343.9	-	22	4834	c.4835A>G	c.(4834-4836)tAc>tGc	p.Y1612C	ARHGAP32_ENST00000392657.3_Missense_Mutation_p.Y1263C|ARHGAP32_ENST00000527272.1_Missense_Mutation_p.Y1263C|ARHGAP32_ENST00000524655.1_3'UTR	NM_001142685.1	NP_001136157.1	A7KAX9	RHG32_HUMAN	Rho GTPase activating protein 32	1612	Interaction with GAB2.				regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	actin cytoskeleton (GO:0015629)|cell cortex (GO:0005938)|cell junction (GO:0030054)|cell projection (GO:0042995)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|postsynaptic membrane (GO:0045211)	GTPase activator activity (GO:0005096)|phosphatidylinositol binding (GO:0035091)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(12)|lung(28)|ovary(3)|prostate(6)|urinary_tract(3)	60						TCTTGGGCAGTAGGCTGGCTC	0.532																																																0													89	82	84					11																	128840231		2201	4297	6498	SO:0001583	missense	9743			AB018255	CCDS31718.1, CCDS44769.1	11q24.3	2011-06-29			ENSG00000134909	ENSG00000134909		"Rho GTPase activating proteins"	17399	protein-coding gene	gene with protein product		608541				12446789, 12819203, 17663722	Standard	NM_014715		Approved	GRIT, KIAA0712, MGC1892, RICS, GC-GAP	uc009zcp.3	A7KAX9	OTTHUMG00000165774	ENST00000310343.9:c.4835A>G	11.37:g.128840231T>C	ENSP00000310561:p.Tyr1612Cys	Somatic		WXS	Illumina HiSeq	Phase_I	I7H0B0|O94820|Q86YL6|Q8IUG4|Q9BWG3	Missense_Mutation	SNP	ENST00000310343.9	37	CCDS44769.1	.	.	.	.	.	.	.	.	.	.	T	15.25	2.779073	0.49891	.	.	ENSG00000134909	ENST00000310343;ENST00000392657;ENST00000527272	T;T;T	0.14144	2.55;2.53;2.53	5.66	4.47	0.54385	.	0.256463	0.39759	N	0.001266	T	0.24314	0.0589	M	0.62723	1.935	0.34814	D	0.738056	D	0.63880	0.993	P	0.53185	0.72	T	0.34650	-0.9820	10	0.72032	D	0.01	.	10.8803	0.46935	0.2372:0.0:0.0:0.7628	.	1612	A7KAX9	RHG32_HUMAN	C	1612;1263;1263	ENSP00000310561:Y1612C;ENSP00000376425:Y1263C;ENSP00000432862:Y1263C	ENSP00000310561:Y1612C	Y	-	2	0	ARHGAP32	128345441	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.416000	0.44644	2.156000	0.67533	0.533000	0.62120	TAC		0.532	ARHGAP32-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386151.3	NM_014715		C	128840231	T	C	128840231	3	2	686	1	0	0	0	0	1	0	0	0	881	1638	57	3	1432	3	ARHGAP32	11	128840231	Missense_Mutation	SNP	T	TCGA-KO-8416-01A-11D-2310-10	4089776	128840231	6166285	38	44449										
CLECL1	160365	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr12	9885606	9885606	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cgaacagttttgatgtcagcGtagactacatctccagccat	8	11	2	2			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr12:9885606G>A	ENST00000327839.3	-	1	289	c.255C>T	c.(253-255)taC>taT	p.Y85Y		NM_172004.3	NP_742001.1	Q8IZS7	CLCL1_HUMAN	C-type lectin-like 1	85						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)			breast(1)|kidney(1)|large_intestine(4)|lung(3)	9						TGATGTCAGCGTAGACTACAT	0.428																																																0													81	83	82					12																	9885606		2203	4300	6503	SO:0001819	synonymous_variant	160365			AF518873	CCDS8603.1, CCDS73441.1	12p13.31	2007-06-21				ENSG00000184293			24462	protein-coding gene	gene with protein product	"dendritic cell associated lectin 1"	607467				12421943	Standard	NM_172004		Approved	DCAL1	uc001qwi.3	Q8IZS7		ENST00000327839.3:c.255C>T	12.37:g.9885606G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000327839.3	37	CCDS8603.1	.	.	.	.	.	.	.	.	.	.	G	3.107	-0.183527	0.06340	.	.	ENSG00000184293	ENST00000542530	.	.	.	1.99	0.826	0.18829	.	.	.	.	.	T	0.23806	0.0576	.	.	.	0.23150	N	0.99822	.	.	.	.	.	.	T	0.23762	-1.0179	4	.	.	.	.	3.7836	0.08690	0.8053:0.0:0.1947:0.0	.	.	.	.	M	37	.	.	T	-	2	0	CLECL1	9776873	0.623000	0.27094	0.135000	0.22099	0.139000	0.21198	0.228000	0.17814	0.226000	0.20979	-0.255000	0.11280	ACG		0.428	CLECL1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399815.1	NM_172004		A	9885606	G	A	9885606	2	1	686	1	0	0	0	0	0	0	0	1	3525	1140	40	1		1	CLECL1	12	9885606	Silent	SNP	G	TCGA-KO-8416-01A-11D-2310-10		9885606	123966289	39	44450										
FMNL3	91010	broad.mit.edu	37	chr12	50045190	50045190	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	aggcccactgtcaacaccacAgagggtgcagcaccagggag	13	13	1	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr12:50045190A>T	ENST00000293590.5	-	15	1880	c.1647T>A	c.(1645-1647)tcT>tcA	p.S549S	FMNL3_ENST00000335154.5_Silent_p.S549S|FMNL3_ENST00000550488.1_Silent_p.S549S|FMNL3_ENST00000352151.5_Silent_p.S498S			Q8IVF7	FMNL3_HUMAN	formin-like 3	549					actin cytoskeleton organization (GO:0030036)|cell migration (GO:0016477)|cytoskeleton organization (GO:0007010)|regulation of cell shape (GO:0008360)	cytoplasm (GO:0005737)	GTPase activating protein binding (GO:0032794)			breast(4)|endometrium(7)|kidney(2)|large_intestine(6)|lung(11)|ovary(2)|pancreas(2)|prostate(2)|skin(2)|stomach(1)	39						TCAACACCACAGAGGGTGCAG	0.607																																																0													28	31	30					12																	50045190		1957	4153	6110	SO:0001819	synonymous_variant	91010			AK128195	CCDS41780.1, CCDS44874.1	12q13.12	2006-04-10							23698	protein-coding gene	gene with protein product						12684686	Standard	NM_198900		Approved	DKFZp762B245, MGC45819, WBP3	uc001ruv.1	Q8IVF7	OTTHUMG00000169651	ENST00000293590.5:c.1647T>A	12.37:g.50045190A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0JZA7|Q6ZRJ1	Silent	SNP	ENST00000293590.5	37																																																																																					0.607	FMNL3-201	KNOWN	basic	protein_coding	protein_coding		NM_175736		T	50045190	A	T	50045190	2	4	686	1	0	0	0	0	0	0	0	1	5960	175	7	5		5	FMNL3	12	50045190	Silent	SNP	A	TCGA-KO-8416-01A-11D-2310-10	40159584	50045190	83806705	40	44451										
PXN	5829	broad.mit.edu	37	chr12	120662127	120662127	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ggtctcctccgacaagaacaCaggccgtttggagatgtggg	14	10	1	2	rs202176482		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr12:120662127C>A	ENST00000228307.7	-	2	208	c.67G>T	c.(67-69)Gtg>Ttg	p.V23L	PXN_ENST00000458477.2_5'UTR|PXN_ENST00000267257.7_Missense_Mutation_p.V23L|PXN_ENST00000536957.1_Missense_Mutation_p.V21L|PXN_ENST00000538144.1_5'UTR|PXN_ENST00000424649.2_Missense_Mutation_p.V23L	NM_001080855.2	NP_001074324.1	P49023	PAXI_HUMAN	paxillin	23					activation of MAPK activity (GO:0000187)|branching morphogenesis of an epithelial tube (GO:0048754)|cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|cellular component movement (GO:0006928)|cellular response to reactive oxygen species (GO:0034614)|cytoskeleton organization (GO:0007010)|epidermal growth factor receptor signaling pathway (GO:0007173)|focal adhesion assembly (GO:0048041)|growth hormone receptor signaling pathway (GO:0060396)|integrin-mediated signaling pathway (GO:0007229)|lamellipodium assembly (GO:0030032)|muscle contraction (GO:0006936)|peptidyl-tyrosine phosphorylation (GO:0018108)|regulation of cell shape (GO:0008360)|signal complex assembly (GO:0007172)|signal transduction (GO:0007165)|substrate adhesion-dependent cell spreading (GO:0034446)|transforming growth factor beta receptor signaling pathway (GO:0007179)	cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|lamellipodium (GO:0030027)|microtubule associated complex (GO:0005875)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|stress fiber (GO:0001725)	beta-catenin binding (GO:0008013)|vinculin binding (GO:0017166)|zinc ion binding (GO:0008270)			breast(1)|endometrium(5)|kidney(2)|large_intestine(1)|lung(5)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	19	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GACAAGAACACAGGCCGTTTG	0.622																																																0													56	64	61					12																	120662127		1999	4147	6146	SO:0001583	missense	5829			U14588	CCDS44996.1, CCDS44997.1, CCDS44998.1, CCDS58281.1	12q24	2006-01-23			ENSG00000089159	ENSG00000089159			9718	protein-coding gene	gene with protein product		602505				7534286	Standard	NM_001080855		Approved		uc001txv.3	P49023	OTTHUMG00000169169	ENST00000228307.7:c.67G>T	12.37:g.120662127C>A	ENSP00000228307:p.Val23Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAI3|B7ZMB4|O14970|O14971|O60360|Q5HYA4	Missense_Mutation	SNP	ENST00000228307.7	37	CCDS44997.1	.	.	.	.	.	.	.	.	.	.	C	17.40	3.379542	0.61845	.	.	ENSG00000089159	ENST00000228307;ENST00000424649;ENST00000536957;ENST00000267257;ENST00000543331	T;T;T;T;T	0.54866	0.57;0.55;0.61;0.55;0.62	5.44	4.55	0.56014	.	0.125619	0.52532	D	0.000069	T	0.32734	0.0839	N	0.11560	0.145	0.80722	D	1	B;B	0.09022	0.001;0.002	B;B	0.14023	0.007;0.01	T	0.11084	-1.0602	10	0.19147	T	0.46	-13.2736	14.4703	0.67512	0.0:0.9281:0.0:0.0719	.	23;23	P49023-2;P49023	.;PAXI_HUMAN	L	23;23;21;23;24	ENSP00000228307:V23L;ENSP00000391283:V23L;ENSP00000443887:V21L;ENSP00000267257:V23L;ENSP00000443745:V24L	ENSP00000228307:V23L	V	-	1	0	PXN	119146510	0.996000	0.38824	0.990000	0.47175	0.987000	0.75469	3.301000	0.51842	2.559000	0.86315	0.591000	0.81541	GTG		0.622	PXN-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000402679.4	NM_002859		A	120662127	C	A	120662127	3	1	686	1	0	0	0	0	1	0	0	0	12865	478	17	4	1752	4	PXN	12	120662127	Missense_Mutation	SNP	C	TCGA-KO-8416-01A-11D-2310-10	70616937	120662127	13189768	41	44452										
CAMKK2	10645	ucsc.edu	37	chr12	121678593	121678593	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	agcaactttccacgcagggaCtgcctctcacaagagcactt	8	14	1	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr12:121678593C>T	ENST00000324774.5	-	17	2504	c.1676G>A	c.(1675-1677)aGt>aAt	p.S559N	CAMKK2_ENST00000337174.3_3'UTR|CAMKK2_ENST00000347034.2_Missense_Mutation_p.S516N|CAMKK2_ENST00000402834.4_Missense_Mutation_p.S559N|CAMKK2_ENST00000392474.2_Intron|CAMKK2_ENST00000404169.3_Missense_Mutation_p.S559N|CAMKK2_ENST00000538733.1_3'UTR|CAMKK2_ENST00000412367.2_3'UTR|CAMKK2_ENST00000545538.1_Intron	NM_006549.3	NP_006540.3	Q96RR4	KKCC2_HUMAN	calcium/calmodulin-dependent protein kinase kinase 2, beta	559					calcium-mediated signaling (GO:0019722)|MAPK cascade (GO:0000165)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of transcription, DNA-templated (GO:0045893)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of protein kinase activity (GO:0045859)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|intracellular (GO:0005622)|nucleus (GO:0005634)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|calmodulin-dependent protein kinase activity (GO:0004683)|protein tyrosine kinase activity (GO:0004713)			endometrium(2)|kidney(1)|large_intestine(2)|liver(2)|lung(4)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	17	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CACGCAGGGACTGCCTCTCAC	0.677																																																0													26	31	29					12																	121678593		2203	4299	6502	SO:0001583	missense	10645			AF101264	CCDS9216.1, CCDS9217.1, CCDS9218.1, CCDS9219.1, CCDS44999.1, CCDS53837.1, CCDS58283.1	12q24.2	2002-08-13				ENSG00000110931			1470	protein-coding gene	gene with protein product		615002				9662074	Standard	NM_172226		Approved	CAMKK, KIAA0787, CAMKKB, MGC15254	uc001tzu.3	Q96RR4		ENST00000324774.5:c.1676G>A	12.37:g.121678593C>T	ENSP00000312741:p.Ser559Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7Q7|O94883|Q8IUG2|Q8IUG3|Q8N3I4|Q8WY03|Q8WY04|Q8WY05|Q8WY06|Q96RP1|Q96RP2|Q96RR3|Q9BWE9|Q9UER3|Q9UES2|Q9Y5N2	Missense_Mutation	SNP	ENST00000324774.5	37	CCDS9216.1	.	.	.	.	.	.	.	.	.	.	C	10.53	1.376530	0.24857	.	.	ENSG00000110931	ENST00000347034;ENST00000324774;ENST00000404169	T;T;T	0.73363	-0.71;-0.74;-0.74	5.47	5.47	0.80525	.	.	.	.	.	T	0.58090	0.2098	N	0.22421	0.69	0.42015	D	0.990956	B;B	0.13594	0.008;0.005	B;B	0.13407	0.009;0.004	T	0.53606	-0.8415	9	0.27785	T	0.31	0.0303	8.3402	0.32239	0.0:0.8324:0.0:0.1676	.	516;559	Q96RR4-4;Q96RR4	.;KKCC2_HUMAN	N	516;559;559	ENSP00000321230:S516N;ENSP00000312741:S559N;ENSP00000384600:S559N	ENSP00000312741:S559N	S	-	2	0	CAMKK2	120162976	0.000000	0.05858	0.034000	0.17996	0.002000	0.02628	-0.015000	0.12634	2.748000	0.94277	0.655000	0.94253	AGT		0.677	CAMKK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000402563.1	NM_172226		T	121678593	C	T	121678593	3	4	686	1	0	0	0	0	1	0	0	0	2609	565	20	2	94	2	CAMKK2	12	121678593	Missense_Mutation	SNP	C	TCGA-KO-8416-01A-11D-2310-10	1016466	121678593	12173302	42	44453										
HOMEZ	57594	mdanderson.org	37	chr14	23744823	23744823	+	Missense_Mutation	SNP	A	A	T													0	0	1	0	0	0	1	1	0	tcatcatcatcatcatcatcAtcttcctcctcctcctcctc					rs3208861	byFrequency	TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr14:23744823A>T	ENST00000357460.5	-	2	1778	c.1614T>A	c.(1612-1614)gaT>gaA	p.D538E	HOMEZ_ENST00000431326.2_Missense_Mutation_p.D540E|HOMEZ_ENST00000561013.1_Missense_Mutation_p.D540E	NM_020834.2	NP_065885.2	Q8IX15	HOMEZ_HUMAN	homeobox and leucine zipper encoding	538	Poly-Asp.			D -> E (in Ref. 5; AAI30393). {ECO:0000305}.|Missing (in Ref. 3; BAG63992). {ECO:0000305}.	regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)			endometrium(5)|lung(7)	12	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		catcatcatcatcttcctcct	0.473																																																0													38	39	38					14																	23744823		2191	4254	6445	SO:0001583	missense	57594			AB037864	CCDS45085.1	14q11.2	2011-06-20	2007-02-15	2007-02-15		ENSG00000215271		"Homeoboxes / ZF class"	20164	protein-coding gene	gene with protein product		608119	"KIAA1443"	KIAA1443		12925734	Standard	NM_020834		Approved		uc001wja.2	Q8IX15		ENST00000357460.5:c.1614T>A	14.37:g.23744823A>T	ENSP00000350049:p.Asp538Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A1L445|B4DZ80|F8WCA3|Q6P049|Q86XB6|Q9P2A5	Missense_Mutation	SNP	ENST00000357460.5	37	CCDS45085.1	.	.	.	.	.	.	.	.	.	.	A	0.003	-2.558686	0.00136	.	.	ENSG00000215271	ENST00000357460;ENST00000431326	T;T	0.70631	-0.5;-0.5	.	.	.	Armadillo-like helical (1);	.	.	.	.	T	0.40522	0.1120	N	0.14661	0.345	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.33752	-0.9856	7	0.02654	T	1	.	.	.	.	rs3208861	540;538	F8WCA3;Q8IX15	.;HOMEZ_HUMAN	E	538;540	ENSP00000350049:D538E;ENSP00000406579:D540E	ENSP00000350049:D538E	D	-	3	2	HOMEZ	22814663	0.164000	0.22935	0.167000	0.22817	0.037000	0.13140	-2.011000	0.01452	-1.137000	0.02888	-1.213000	0.01624	GAT		0.473	HOMEZ-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000416939.2	NM_020834		T	23744823	A	T	23744823	3	4	686	1	0	0	0	0	1	0	0	0	7288	214	8	5	42	5	HOMEZ	14	23744823	Missense_Mutation	SNP	A	TCGA-KO-8416-01A-11D-2310-10		23744823	83604717	43	44454	471	2								
HOMEZ	57594	mdanderson.org	37	chr14	23744826	23744826	+	Silent	SNP	T	T	C													0	0	1	0	0	0	1	1	0	tcatcatcatcatcatcatcTtcctcctcctcctcctcctc					rs35076736|rs76331664|rs67447855	byFrequency	TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr14:23744826T>C	ENST00000357460.5	-	2	1775	c.1611A>G	c.(1609-1611)gaA>gaG	p.E537E	HOMEZ_ENST00000431326.2_Silent_p.E539E|HOMEZ_ENST00000561013.1_Silent_p.E539E	NM_020834.2	NP_065885.2	Q8IX15	HOMEZ_HUMAN	homeobox and leucine zipper encoding	537	Poly-Asp.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)			endometrium(5)|lung(7)	12	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		catcatcatcttcctcctcct	0.483																																																0													39	39	39					14																	23744826		2192	4262	6454	SO:0001819	synonymous_variant	57594			AB037864	CCDS45085.1	14q11.2	2011-06-20	2007-02-15	2007-02-15		ENSG00000215271		"Homeoboxes / ZF class"	20164	protein-coding gene	gene with protein product		608119	"KIAA1443"	KIAA1443		12925734	Standard	NM_020834		Approved		uc001wja.2	Q8IX15		ENST00000357460.5:c.1611A>G	14.37:g.23744826T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A1L445|B4DZ80|F8WCA3|Q6P049|Q86XB6|Q9P2A5	Silent	SNP	ENST00000357460.5	37	CCDS45085.1																																																																																				0.483	HOMEZ-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000416939.2	NM_020834		C	23744826	T	C	23744826	2	2	686	1	0	0	0	0	0	0	0	1	7288	1606	56	3		3	HOMEZ	14	23744826	Silent	SNP	T	TCGA-KO-8416-01A-11D-2310-10	3	23744826	83604714	44	44455	471	2								
MAGEL2	54551	hgsc.bcm.edu	37	chr15	23890897	23890897	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cgatgcctgggcctgctgggGgggtagctggatttgcacgg	19	9	0	0			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr15:23890897G>T	ENST00000532292.1	-	1	278	c.184C>A	c.(184-186)Ccc>Acc	p.P62T		NM_019066.4	NP_061939.3	Q9UJ55	MAGL2_HUMAN	MAGE-like 2	0					Arp2/3 complex-mediated actin nucleation (GO:0034314)|protein K63-linked ubiquitination (GO:0070534)|retrograde transport, endosome to Golgi (GO:0042147)	endosome (GO:0005768)	ubiquitin-protein transferase activity (GO:0004842)			breast(1)|endometrium(1)|large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)	7		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)		GCCTGCTGGGGGGGTAGCTGG	0.701																																																0													6	8	7					15																	23890897		1843	4012	5855	SO:0001583	missense	54551			AJ243531	CCDS73700.1	15q11-q12	2008-07-18				ENSG00000254585			6814	protein-coding gene	gene with protein product		605283		NDNL1		10556298	Standard	NM_019066		Approved	nM15	uc001ywj.4	Q9UJ55		ENST00000532292.1:c.184C>A	15.37:g.23890897G>T	ENSP00000433433:p.Pro62Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000532292.1	37																																																																																					0.701	MAGEL2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000395182.2	NM_019066		T	23890897	G	T	23890897	3	4	686	1	0	0	0	0	1	0	0	0	9196	1232	43	4	1760	4	MAGEL2	15	23890897	Missense_Mutation	SNP	G	TCGA-KO-8416-01A-11D-2310-10		23890897	78640495	45	44456										
HERC2	8924	broad.mit.edu;mdanderson.org	37	chr15	28456246	28456246	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cccgacctgctttcaggatgTatagcttcaactgctggcac	9	13	2	0			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr15:28456246T>A	ENST00000261609.7	-	44	7079	c.6971A>T	c.(6970-6972)tAc>tTc	p.Y2324F		NM_004667.5	NP_004658.3			HECT and RLD domain containing E3 ubiquitin protein ligase 2											NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(3)|cervix(3)|endometrium(20)|kidney(11)|large_intestine(33)|lung(95)|ovary(7)|prostate(8)|skin(7)|upper_aerodigestive_tract(8)|urinary_tract(4)	204		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)		TTTCAGGATGTATAGCTTCAA	0.582																																																0													49	46	47					15																	28456246		2202	4298	6500	SO:0001583	missense	8924			AF071172	CCDS10021.1	15q13	2012-02-23	2012-02-23		ENSG00000128731	ENSG00000128731			4868	protein-coding gene	gene with protein product		605837	"hect domain and RLD 2"			9949213	Standard	NM_004667		Approved	jdf2, p528, D15F37S1	uc001zbj.4	O95714	OTTHUMG00000129251	ENST00000261609.7:c.6971A>T	15.37:g.28456246T>A	ENSP00000261609:p.Tyr2324Phe	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000261609.7	37	CCDS10021.1	.	.	.	.	.	.	.	.	.	.	T	15.54	2.862647	0.51482	.	.	ENSG00000128731	ENST00000261609	T	0.37752	1.18	4.84	3.72	0.42706	.	0.068466	0.64402	D	0.000012	T	0.49236	0.1545	L	0.51422	1.61	0.58432	D	0.999996	P	0.52842	0.956	D	0.65010	0.931	T	0.44174	-0.9345	10	0.54805	T	0.06	.	10.4591	0.44567	0.0:0.0766:0.0:0.9234	.	2324	O95714	HERC2_HUMAN	F	2324	ENSP00000261609:Y2324F	ENSP00000261609:Y2324F	Y	-	2	0	HERC2	26129841	1.000000	0.71417	0.994000	0.49952	0.534000	0.34807	6.123000	0.71614	0.872000	0.35775	0.459000	0.35465	TAC		0.582	HERC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251358.2	NM_004667		A	28456246	T	A	28456246	3	1	686	1	0	0	0	0	1	0	0	0	7065	1638	57	5	7733	5	HERC2	15	28456246	Missense_Mutation	SNP	T	TCGA-KO-8416-01A-11D-2310-10	4565349	28456246	74075146	46	44457										
ZFYVE19	84936	mdanderson.org	37	chr15	41099910	41099910	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gtgggcgtgtggggcggggcAgggcagggaagggaagggcg	27	5	0	0	rs62018606		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr15:41099910A>G	ENST00000355341.4	+	1	624	c.123A>G	c.(121-123)gcA>gcG	p.A41A	DNAJC17_ENST00000220496.4_5'Flank|ZFYVE19_ENST00000336455.5_Intron|ZFYVE19_ENST00000570108.1_Intron|ZFYVE19_ENST00000564258.1_Intron|ZFYVE19_ENST00000299173.10_Silent_p.A41A|ZFYVE19_ENST00000563530.1_3'UTR	NM_001077268.1	NP_001070736.1	Q96K21	ANCHR_HUMAN	zinc finger, FYVE domain containing 19	41					abscission (GO:0009838)|cell division (GO:0051301)|cytokinesis checkpoint (GO:0031565)|negative regulation of cytokinesis (GO:0032466)	centrosome (GO:0005813)|cleavage furrow (GO:0032154)|cytoplasm (GO:0005737)|midbody (GO:0030496)	phosphatidylinositol-3-phosphate binding (GO:0032266)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(1)|large_intestine(1)|lung(4)|skin(1)	9		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)		Ggggcggggcagggcagggaa	0.716																																																0													16	22	20					15																	41099910		1992	4147	6139	SO:0001819	synonymous_variant	84936			AK027746	CCDS42025.1, CCDS58353.1, CCDS58354.1, CCDS58355.1	15q14	2008-05-02				ENSG00000166140		"Zinc fingers, FYVE domain containing"	20758	protein-coding gene	gene with protein product							Standard	NM_001077268		Approved	FLJ14840	uc031qrk.1	Q96K21		ENST00000355341.4:c.123A>G	15.37:g.41099910A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KVB2|C9JNF4|H3BUF9|Q86WC2|Q8WU96	Silent	SNP	ENST00000355341.4	37	CCDS42025.1																																																																																				0.716	ZFYVE19-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000418996.1	NM_032850		G	41099910	A	G	41099910	2	3	686	1	0	0	0	0	0	0	0	1	17677	175	7	3		3	ZFYVE19	15	41099910	Silent	SNP	A	TCGA-KO-8416-01A-11D-2310-10	12643664	41099910	61431482	47	44458										
C15orf59	388135	hgsc.bcm.edu;mdanderson.org	37	chr15	74032954	74032954	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tccagttcaaagtcgaagtcCgaggttagcttatcgatctg	10	9	2	0	rs144044826		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr15:74032954C>T	ENST00000569673.1	-	3	1390	c.186G>A	c.(184-186)tcG>tcA	p.S62S	C15orf59_ENST00000379822.4_Silent_p.S62S|C15orf59_ENST00000558834.1_5'UTR			Q2T9L4	CO059_HUMAN	chromosome 15 open reading frame 59	62										breast(1)|endometrium(2)|large_intestine(2)|lung(6)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	15						AGTCGAAGTCCGAGGTTAGCT	0.612																																																0								C		0,4396		0,0,2198	149	153	152		186	-9.7	0.9	15	dbSNP_134	152	1,8593	1.2+/-3.3	0,1,4296	no	coding-synonymous	C15orf59	NM_001039614.1		0,1,6494	TT,TC,CC		0.0116,0.0,0.0077		62/294	74032954	1,12989	2198	4297	6495	SO:0001819	synonymous_variant	388135				CCDS32289.1	15q24.1	2012-09-27			ENSG00000205363	ENSG00000205363			33753	protein-coding gene	gene with protein product							Standard	XM_005254369		Approved	MGC131524, LOC388135	uc002avy.3	Q2T9L4	OTTHUMG00000172556	ENST00000569673.1:c.186G>A	15.37:g.74032954C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000569673.1	37	CCDS32289.1																																																																																				0.612	C15orf59-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419077.2	NM_001039614		T	74032954	C	T	74032954	2	4	686	1	0	0	0	0	0	0	0	1	1809	639	23	1		1	C15orf59	15	74032954	Silent	SNP	C	TCGA-KO-8416-01A-11D-2310-10	32933044	74032954	28498438	48	44459										
ADAMTS7	11173	mdanderson.org	37	chr15	79057989	79057989	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	ccagcccacaccacttgcctCgctccagtttcccgcttgcc	6	21	0	0	rs200769684		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr15:79057989C>T	ENST00000388820.4	-	19	4474	c.4264G>A	c.(4264-4266)Gag>Aag	p.E1422K	ADAMTS7_ENST00000566303.1_5'Flank	NM_014272.3	NP_055087.2	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 7	1422	TSP type-1 5. {ECO:0000255|PROSITE- ProRule:PRU00210}.				cellular response to BMP stimulus (GO:0071773)|cellular response to interleukin-1 (GO:0071347)|cellular response to tumor necrosis factor (GO:0071356)|negative regulation of chondrocyte differentiation (GO:0032331)|proteolysis involved in cellular protein catabolic process (GO:0051603)	cell surface (GO:0009986)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)	p.E1422K(3)		NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(2)|lung(23)|ovary(1)|prostate(8)|skin(9)	54						CCACTTGCCTCGCTCCAGTTT	0.657																																																3	Substitution - Missense(3)	skin(2)|NS(1)											31	34	33					15																	79057989		2188	4275	6463	SO:0001583	missense	11173			AF140675	CCDS32303.1	15q25.1	2012-05-16	2005-08-19		ENSG00000136378	ENSG00000136378		"ADAM metallopeptidases with thrombospondin type 1 motif"	223	protein-coding gene	gene with protein product	"COMPase", "a disintegrin and metalloprotease with thrombospondin motifs-7 preproprotein"	605009	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 7"			10464288	Standard	NM_014272		Approved	ADAM-TS7, DKFZp434H204	uc002bej.4	Q9UKP4	OTTHUMG00000172907	ENST00000388820.4:c.4264G>A	15.37:g.79057989C>T	ENSP00000373472:p.Glu1422Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q14F51|Q6P7J9	Missense_Mutation	SNP	ENST00000388820.4	37	CCDS32303.1	.	.	.	.	.	.	.	.	.	.	c	8.994	0.978370	0.18812	.	.	ENSG00000136378	ENST00000388820	T	0.54279	0.58	4.21	-8.41	0.00961	.	0.609972	0.15843	N	0.241932	T	0.35248	0.0925	L	0.51914	1.62	0.19775	N	0.999954	B	0.14012	0.009	B	0.10450	0.005	T	0.45483	-0.9258	10	0.07325	T	0.83	.	13.64	0.62243	0.0:0.6736:0.1359:0.1905	.	1422	Q9UKP4	ATS7_HUMAN	K	1422	ENSP00000373472:E1422K	ENSP00000373472:E1422K	E	-	1	0	ADAMTS7	76845044	0.010000	0.17322	0.706000	0.30403	0.289000	0.27227	-0.206000	0.09398	-1.547000	0.01715	-2.551000	0.00177	GAG		0.657	ADAMTS7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000421331.1	NM_014272		T	79057989	C	T	79057989	3	4	686	1	0	0	0	0	1	0	0	0	271	893	31	1	820	1	ADAMTS7	15	79057989	Missense_Mutation	SNP	C	TCGA-KO-8416-01A-11D-2310-10	5025035	79057989	23473403	49	44460										
ANPEP	290	bcgsc.ca	37	chr15	90349234	90349234	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cctccatgtactcgctgcggTagaagcccgccaggtcatct	10	15	2	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr15:90349234T>C	ENST00000300060.6	-	2	894	c.581A>G	c.(580-582)tAc>tGc	p.Y194C		NM_001150.2	NP_001141.2	P15144	AMPN_HUMAN	alanyl (membrane) aminopeptidase	194	Metalloprotease.				angiogenesis (GO:0001525)|angiotensin maturation (GO:0002003)|cell differentiation (GO:0030154)|cellular protein metabolic process (GO:0044267)|viral process (GO:0016032)	endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|external side of plasma membrane (GO:0009897)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)	aminopeptidase activity (GO:0004177)|metallopeptidase activity (GO:0008237)|receptor activity (GO:0004872)|virus receptor activity (GO:0001618)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(10)|liver(1)|lung(20)|ovary(3)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(3)	57	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.169)		Ezetimibe(DB00973)|Icatibant(DB06196)	CTCGCTGCGGTAGAAGCCCGC	0.612																																					NSCLC(30;827 977 2459 19669 26125)											0													88	82	84					15																	90349234		2200	4299	6499	SO:0001583	missense	290			M22324	CCDS10356.1	15q25-q26	2008-07-31	2008-07-31		ENSG00000166825	ENSG00000166825	3.4.11.2	"CD molecules"	500	protein-coding gene	gene with protein product	"aminopeptidase N", "aminopeptidase M", "microsomal aminopeptidase"	151530		CD13, PEPN		2428842, 1977688	Standard	NM_001150		Approved	LAP1, gp150, p150	uc002bop.4	P15144	OTTHUMG00000149814	ENST00000300060.6:c.581A>G	15.37:g.90349234T>C	ENSP00000300060:p.Tyr194Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q16728|Q6GT90|Q8IUK3|Q8IVH3|Q9UCE0	Missense_Mutation	SNP	ENST00000300060.6	37	CCDS10356.1	.	.	.	.	.	.	.	.	.	.	T	22.2	4.257356	0.80246	.	.	ENSG00000166825	ENST00000300060	T	0.07114	3.22	4.8	4.8	0.61643	Peptidase M1, membrane alanine aminopeptidase, N-terminal (1);	0.000000	0.85682	D	0.000000	T	0.45716	0.1356	H	0.98965	4.385	0.58432	D	0.999997	D	0.89917	1.0	D	0.97110	1.0	T	0.66085	-0.6011	10	0.87932	D	0	.	12.3003	0.54870	0.0:0.0:0.0:1.0	.	194	P15144	AMPN_HUMAN	C	194	ENSP00000300060:Y194C	ENSP00000300060:Y194C	Y	-	2	0	ANPEP	88150238	1.000000	0.71417	1.000000	0.80357	0.901000	0.52897	6.099000	0.71466	1.794000	0.52575	0.460000	0.39030	TAC		0.612	ANPEP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313425.1			C	90349234	T	C	90349234	3	2	686	1	0	0	0	0	1	0	0	0	710	1638	57	3	2402	3	ANPEP	15	90349234	Missense_Mutation	SNP	T	TCGA-KO-8416-01A-11D-2310-10	11291245	90349234	12182158	50	44461										
ZNF319	57567	broad.mit.edu;hgsc.bcm.edu	37	chr16	58030679	58030679	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgccgctgcaggtctgacgcGtacttgaagcgtttctcgca	12	12	2	2	rs372922346		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr16:58030679G>A	ENST00000299237.2	-	2	2113	c.1491C>T	c.(1489-1491)taC>taT	p.Y497Y	USB1_ENST00000561743.1_5'Flank	NM_020807.1	NP_065858.1	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	497					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			large_intestine(2)|lung(4)|ovary(1)|urinary_tract(1)	8						GGTCTGACGCGTACTTGAAGC	0.617																																																0								G		0,4396		0,0,2198	53	45	48		1491	-6.4	0	16		48	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	ZNF319	NM_020807.1		0,1,6497	AA,AG,GG		0.0116,0.0,0.0077		497/583	58030679	1,12995	2198	4300	6498	SO:0001819	synonymous_variant	57567			AB037809	CCDS32462.1	16q21	2013-01-08				ENSG00000166188		"Zinc fingers, C2H2-type"	13644	protein-coding gene	gene with protein product						10718198, 11161788	Standard	XM_005256069		Approved	KIAA1388, Zfp319	uc002emx.1	Q9P2F9		ENST00000299237.2:c.1491C>T	16.37:g.58030679G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q52LH8	Silent	SNP	ENST00000299237.2	37	CCDS32462.1																																																																																				0.617	ZNF319-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000430317.1			A	58030679	G	A	58030679	2	1	686	1	0	0	0	0	0	0	0	1	17849	1140	40	1		1	ZNF319	16	58030679	Silent	SNP	G	TCGA-KO-8416-01A-11D-2310-10		58030679	32324074	51	44462										
FHOD1	29109	bcgsc.ca	37	chr16	67273272	67273272	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tgatctcttcatagaagcccTccagcatctcccgctgctct	6	16	4	2			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr16:67273272T>C	ENST00000258201.4	-	2	534	c.287A>G	c.(286-288)gAg>gGg	p.E96G		NM_013241.2	NP_037373.2	Q9Y613	FHOD1_HUMAN	formin homology 2 domain containing 1	96	GBD/FH3. {ECO:0000255|PROSITE- ProRule:PRU00579}.				positive regulation of stress fiber assembly (GO:0051496)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|membrane (GO:0016020)|nucleus (GO:0005634)	identical protein binding (GO:0042802)			breast(4)|endometrium(3)|kidney(3)|large_intestine(5)|lung(7)|ovary(3)|prostate(1)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	34		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)		ATAGAAGCCCTCCAGCATCTC	0.582																																																0													91	78	83					16																	67273272		2198	4300	6498	SO:0001583	missense	29109			AF113615	CCDS10834.1	16q22	2008-02-22			ENSG00000135723	ENSG00000135723			17905	protein-coding gene	gene with protein product		606881				10352228, 16112087	Standard	NM_013241		Approved	FHOS	uc002esl.3	Q9Y613	OTTHUMG00000137521	ENST00000258201.4:c.287A>G	16.37:g.67273272T>C	ENSP00000258201:p.Glu96Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q59F76|Q6Y1F2|Q76MS8|Q8N521	Missense_Mutation	SNP	ENST00000258201.4	37	CCDS10834.1	.	.	.	.	.	.	.	.	.	.	T	19.97	3.925603	0.73213	.	.	ENSG00000135723	ENST00000258201	T	0.25414	1.8	5.0	5.0	0.66597	GTPase-binding/formin homology 3 (1);	0.057492	0.64402	D	0.000002	T	0.34629	0.0904	L	0.47190	1.495	0.80722	D	1	D	0.59767	0.986	P	0.53266	0.722	T	0.10965	-1.0607	10	0.87932	D	0	.	12.5809	0.56390	0.0:0.0:0.0:1.0	.	96	Q9Y613	FHOD1_HUMAN	G	96	ENSP00000258201:E96G	ENSP00000258201:E96G	E	-	2	0	FHOD1	65830773	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	6.945000	0.75947	2.105000	0.64084	0.533000	0.62120	GAG		0.582	FHOD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268844.2			C	67273272	T	C	67273272	3	2	686	1	0	0	0	0	1	0	0	0	5889	1551	54	3	3291	3	FHOD1	16	67273272	Missense_Mutation	SNP	T	TCGA-KO-8416-01A-11D-2310-10	9242593	67273272	23081481	52	44463										
FA2H	79152	mdanderson.org	37	chr16	74808425	74808425	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tcccacgtagtactgctccaGccagcggcgcgcgttggccg	13	16	0	0	rs929881	byFrequency	TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr16:74808425G>A	ENST00000219368.3	-	1	298	c.229C>T	c.(229-231)Ctg>Ttg	p.L77L	FA2H_ENST00000544337.1_5'UTR	NM_024306.4	NP_077282.3	Q7L5A8	FA2H_HUMAN	fatty acid 2-hydroxylase	77	Cytochrome b5 heme-binding. {ECO:0000255|PROSITE-ProRule:PRU00279}.				cell death (GO:0008219)|central nervous system myelin maintenance (GO:0032286)|fatty acid biosynthetic process (GO:0006633)|lipid modification (GO:0030258)|peripheral nervous system myelin maintenance (GO:0032287)|regulation of cell proliferation (GO:0042127)|regulation of hair cycle (GO:0042634)|sebaceous gland cell differentiation (GO:0001949)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	fatty acid alpha-hydroxylase activity (GO:0080132)|heme binding (GO:0020037)|iron ion binding (GO:0005506)			endometrium(2)|large_intestine(4)|lung(3)|skin(1)	10						TACTGCTCCAGCCAGCGGCGC	0.761													A|||	1247	0.249002	0.447	0.2046	5008	,	,		11282	0.0377		0.3151	False		,,,				2504	0.1626															0								A		1423,2211		327,769,721	5	6	5		229	2.9	1	16	dbSNP_86	5	2074,5176		390,1294,1941	no	coding-synonymous	FA2H	NM_024306.4		717,2063,2662	AA,AG,GG		28.6069,39.158,32.1297		77/373	74808425	3497,7387	1817	3625	5442	SO:0001819	synonymous_variant	79152			BC002679	CCDS10911.1	16q23	2013-03-04	2003-10-29	2003-10-31	ENSG00000103089	ENSG00000103089		"Fatty acid hydroxylase domain containing"	21197	protein-coding gene	gene with protein product	"fatty acid hydroxylase"	611026	"fatty acid hydroxylase domain containing 1", "spastic paraplegia 35 (autosomal recessive)"	FAXDC1, SPG35		20104589	Standard	NM_024306		Approved	FAAH, FLJ25287	uc002fde.2	Q7L5A8	OTTHUMG00000137603	ENST00000219368.3:c.229C>T	16.37:g.74808425G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8T6|O75213|Q96DK1|Q9H1A5	Silent	SNP	ENST00000219368.3	37	CCDS10911.1																																																																																				0.761	FA2H-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269015.2	NM_024306		A	74808425	G	A	74808425	2	1	686	1	0	0	0	0	0	0	0	1	5356	962	34	2		2	FA2H	16	74808425	Silent	SNP	G	TCGA-KO-8416-01A-11D-2310-10	7535153	74808425	15546328	53	44464										
ACSF3	197322	mdanderson.org	37	chr16	89167138	89167138	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ggcgcctgggctgcgccttgGcgtcctgccggctggcgcct	17	16	0	0	rs11547019	byFrequency	TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr16:89167138G>C	ENST00000317447.4	+	3	426	c.49G>C	c.(49-51)Gcg>Ccg	p.A17P	ACSF3_ENST00000378345.4_Intron|ACSF3_ENST00000406948.3_Missense_Mutation_p.A17P	NM_001127214.2|NM_001243279.1|NM_001284316.1|NM_174917.3	NP_001120686.1|NP_001230208.1|NP_001271245.1|NP_777577.2	Q4G176	ACSF3_HUMAN	acyl-CoA synthetase family member 3	17			A -> P (in dbSNP:rs11547019). {ECO:0000269|PubMed:15489334}.		fatty acid biosynthetic process (GO:0006633)|fatty acid metabolic process (GO:0006631)|malonate catabolic process (GO:0090410)	mitochondrion (GO:0005739)	acid-thiol ligase activity (GO:0016878)|ATP binding (GO:0005524)|malonyl-CoA synthetase activity (GO:0090409)			central_nervous_system(1)|endometrium(1)|kidney(2)|lung(9)|prostate(1)|urinary_tract(1)	15				BRCA - Breast invasive adenocarcinoma(80;0.0281)		CTGCGCCTTGGCGTCCTGCCG	0.682													G|||	282	0.0563099	0.0015	0.0317	5008	,	,		14874	0.1597		0.0577	False		,,,				2504	0.0399															0								G	PRO/ALA,PRO/ALA	30,4298		0,30,2134	16	18	17		49,49	0.4	0	16	dbSNP_120	17	334,8134		7,320,3907	yes	missense,missense	ACSF3	NM_001127214.2,NM_174917.3	27,27	7,350,6041	CC,CG,GG		3.9443,0.6932,2.8446	benign,benign	17/577,17/577	89167138	364,12432	2164	4234	6398	SO:0001583	missense	197322			AK075499	CCDS10974.1, CCDS73926.1	16q24.3	2013-01-15			ENSG00000176715	ENSG00000176715		"Acyl-CoA synthetase family"	27288	protein-coding gene	gene with protein product	"malonyl-CoA synthetase"	614245				17762044, 21846720	Standard	XM_005256293		Approved		uc010cig.2	Q4G176	OTTHUMG00000138044	ENST00000317447.4:c.49G>C	16.37:g.89167138G>C	ENSP00000320646:p.Ala17Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4J8|C9JQL6|Q6INA0|Q8N2F7	Missense_Mutation	SNP	ENST00000317447.4	37	CCDS10974.1	150	0.06868131868131869	0	0.0	5	0.013812154696132596	96	0.16783216783216784	49	0.06464379947229551	G	12.21	1.870413	0.33069	0.006932	0.039443	ENSG00000176715	ENST00000317447;ENST00000537290;ENST00000406948	T;T;T	0.57595	0.81;0.39;0.81	5.02	0.452	0.16634	.	1.418140	0.04327	N	0.351700	T	0.00144	0.0004	L	0.48362	1.52	0.09310	N	1	B	0.10296	0.003	B	0.08055	0.003	T	0.04427	-1.0952	10	0.35671	T	0.21	-22.3275	2.9079	0.05727	0.0869:0.3051:0.3296:0.2784	rs11547019	17	Q4G176	ACSF3_HUMAN	P	17	ENSP00000320646:A17P;ENSP00000440734:A17P;ENSP00000384627:A17P	ENSP00000320646:A17P	A	+	1	0	ACSF3	87694639	0.000000	0.05858	0.009000	0.14445	0.070000	0.16714	-0.170000	0.09897	0.149000	0.19098	0.650000	0.86243	GCG		0.682	ACSF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269919.1	NM_174917		C	89167138	G	C	89167138	3	2	686	1	0	0	0	0	1	0	0	0	176	1203	42	4	51	4	ACSF3	16	89167138	Missense_Mutation	SNP	G	TCGA-KO-8416-01A-11D-2310-10	14358713	89167138	1187615	54	44465										
USP6	9098	ucsc.edu;mdanderson.org	37	chr17	5037195	5037195	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cctacagatcatgaaggagaGgggcaagaggtcatctgaac	13	8	3	5	rs74900103		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr17:5037195G>A	ENST00000574788.1	+	15	2628	c.398G>A	c.(397-399)aGg>aAg	p.R133K	USP6_ENST00000304328.5_5'UTR|USP6_ENST00000332776.4_Missense_Mutation_p.R133K|USP6_ENST00000250066.6_Missense_Mutation_p.R133K			P35125	UBP6_HUMAN	ubiquitin specific peptidase 6	133	Rab-GAP TBC. {ECO:0000255|PROSITE- ProRule:PRU00163}.				cellular protein modification process (GO:0006464)|protein deubiquitination (GO:0016579)|regulation of vesicle-mediated transport (GO:0060627)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|recycling endosome (GO:0055037)	calmodulin binding (GO:0005516)|cysteine-type endopeptidase activity (GO:0004197)|nucleic acid binding (GO:0003676)|Rab GTPase activator activity (GO:0005097)|ubiquitin-specific protease activity (GO:0004843)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(4)|lung(15)|ovary(1)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	34						ATGAAGGAGAGGGGCAAGAGG	0.547			T	"COL1A1, CDH11, ZNF9, OMD"	aneurysmal bone cysts																																		Dom	yes		17	17p13	9098	ubiquitin specific peptidase 6 (Tre-2 oncogene)		M	0													185	166	173					17																	5037195		2203	4300	6503	SO:0001583	missense	9098			X63547	CCDS11069.2	17p13	2014-06-12	2014-06-12		ENSG00000129204	ENSG00000129204	3.4.19.12	"Ubiquitin-specific peptidases"	12629	protein-coding gene	gene with protein product	"ubiquitin carboxyl-terminal hydrolase 6", "TBC1D3 and USP32 fusion", "Tre-2 oncogene"	604334	"ubiquitin specific protease 6 (Tre-2 oncogene)", "TRE oncogene, Smith Magenis syndrome chromosome region", "ubiquitin specific peptidase 6 (Tre-2 oncogene)"	HRP1, TRESMCR		12838346, 1349106	Standard	NM_004505		Approved	Tre-2, TRE17, Tre2	uc002gav.1	P35125	OTTHUMG00000099449	ENST00000574788.1:c.398G>A	17.37:g.5037195G>A	ENSP00000460380:p.Arg133Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q15634|Q86WP6|Q8IWT4	Missense_Mutation	SNP	ENST00000574788.1	37	CCDS11069.2	.	.	.	.	.	.	.	.	.	.	G	0.090	-1.168985	0.01660	.	.	ENSG00000129204	ENST00000332776;ENST00000250066	T;T	0.26373	1.74;1.74	0.862	-1.72	0.08107	Rab-GAP/TBC domain (4);	0.104487	0.64402	N	0.000003	T	0.05135	0.0137	N	0.01576	-0.805	0.34807	D	0.737346	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.40459	-0.9562	10	0.05351	T	0.99	.	2.1908	0.03898	0.3285:0.3345:0.337:0.0	.	133;133	B9A6N0;P35125	.;UBP6_HUMAN	K	133	ENSP00000328010:R133K;ENSP00000250066:R133K	ENSP00000250066:R133K	R	+	2	0	USP6	4977919	0.068000	0.21057	0.092000	0.20876	0.093000	0.18481	0.731000	0.26058	-1.381000	0.02112	-1.368000	0.01194	AGG		0.547	USP6-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438990.1	NM_004505		A	5037195	G	A	5037195	3	1	686	1	0	0	0	0	1	0	0	0	17098	1000	35	2	420	2	USP6	17	5037195	Missense_Mutation	SNP	G	TCGA-KO-8416-01A-11D-2310-10		5037195	76158015	55	44466										
TP53	7157	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr17	7578208	7578208	+	Missense_Mutation	SNP	T	T	A													0	0	1	0	0	0	1	1	0	catagggcaccaccacactaTgtcgaaaagtgtttctgtca							TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr17:7578208T>A	ENST00000269305.4	-	6	830	c.641A>T	c.(640-642)cAt>cTt	p.H214L	TP53_ENST00000420246.2_Missense_Mutation_p.H214L|TP53_ENST00000455263.2_Missense_Mutation_p.H214L|TP53_ENST00000359597.4_Missense_Mutation_p.H214L|TP53_ENST00000445888.2_Missense_Mutation_p.H214L|TP53_ENST00000574684.1_Intron|TP53_ENST00000413465.2_Missense_Mutation_p.H214L	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	214	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with FBXO42.|Required for interaction with ZNF385A.		H -> D (in sporadic cancers; somatic mutation).|H -> P (in a sporadic cancer; somatic mutation).|H -> Q (in sporadic cancers; somatic mutation).|H -> R (in sporadic cancers; somatic mutation).|H -> Y (in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.H214R(61)|p.0?(8)|p.?(5)|p.H82R(4)|p.H214fs*33(4)|p.H121R(4)|p.H214fs*5(2)|p.D208fs*1(1)|p.H82fs*>9(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213fs*32(1)|p.H121fs*33(1)|p.T211_S215delTFRHS(1)|p.R209fs*6(1)|p.D208_V216delDRNTFRHSV(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	CACCACACTATGTCGAAAAGT	0.542		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	98	Substitution - Missense(69)|Deletion - Frameshift(12)|Whole gene deletion(8)|Unknown(5)|Deletion - In frame(3)|Complex - deletion inframe(1)	lung(27)|liver(12)|ovary(8)|biliary_tract(6)|oesophagus(6)|upper_aerodigestive_tract(5)|central_nervous_system(5)|large_intestine(5)|urinary_tract(5)|prostate(4)|bone(4)|stomach(3)|breast(3)|haematopoietic_and_lymphoid_tissue(2)|soft_tissue(1)|skin(1)|pancreas(1)											127	114	119					17																	7578208		2203	4300	6503	SO:0001583	missense	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.641A>T	17.37:g.7578208T>A	ENSP00000269305:p.His214Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Missense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	T	37	6.001408	0.97189	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944;ENST00000414315	D;D;D;D;D;D;D;D	0.99766	-6.69;-6.69;-6.69;-6.69;-6.69;-6.69;-6.69;-6.69	5.28	5.28	0.74379	p53, DNA-binding domain (1);p53-like transcription factor, DNA-binding (1);p53/RUNT-type transcription factor, DNA-binding domain (1);	0.052737	0.85682	D	0.000000	D	0.99518	0.9828	L	0.45228	1.405	0.80722	D	1	D;D;B;D;D;D;D	0.89917	1.0;0.996;0.176;0.999;0.997;0.997;0.999	D;D;B;D;D;D;D	0.79108	0.992;0.981;0.088;0.99;0.982;0.989;0.98	D	0.97889	1.0296	10	0.87932	D	0	-26.1151	13.4753	0.61306	0.0:0.0:0.0:1.0	.	175;214;214;121;214;214;214	B4E095;P04637-2;P04637-3;E9PFT5;P04637;Q1MSW8;E7EQX7	.;.;.;.;P53_HUMAN;.;.	L	214;214;214;214;214;214;203;121;82;121;82	ENSP00000410739:H214L;ENSP00000352610:H214L;ENSP00000269305:H214L;ENSP00000398846:H214L;ENSP00000391127:H214L;ENSP00000391478:H214L;ENSP00000425104:H82L;ENSP00000423862:H121L	ENSP00000269305:H214L	H	-	2	0	TP53	7518933	1.000000	0.71417	0.283000	0.24790	0.961000	0.63080	7.996000	0.88334	2.128000	0.65567	0.460000	0.39030	CAT		0.542	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		A	7578208	T	A	7578208	3	1	686	1	0	0	0	0	1	0	0	0	16393	1464	51	5	653	5	TP53	17	7578208	Missense_Mutation	SNP	T	TCGA-KO-8416-01A-11D-2310-10	2541013	7578208	73617002	56	44467	472	2								
TP53	7157	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr17	7578212	7578212	+	Nonsense_Mutation	SNP	G	G	A													0	0	1	0	0	0	1	1	0	gggcaccaccacactatgtcGaaaagtgtttctgtcatcca					rs397516436		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr17:7578212G>A	ENST00000269305.4	-	6	826	c.637C>T	c.(637-639)Cga>Tga	p.R213*	TP53_ENST00000420246.2_Nonsense_Mutation_p.R213*|TP53_ENST00000455263.2_Nonsense_Mutation_p.R213*|TP53_ENST00000359597.4_Nonsense_Mutation_p.R213*|TP53_ENST00000445888.2_Nonsense_Mutation_p.R213*|TP53_ENST00000574684.1_Intron|TP53_ENST00000413465.2_Nonsense_Mutation_p.R213*	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	213	Interaction with AXIN1. {ECO:0000250}.|Interaction with HIPK1. {ECO:0000250}.|Required for interaction with FBXO42.|Required for interaction with ZNF385A.		R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation). {ECO:0000269|PubMed:16959974}.|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> W (in sporadic cancers; somatic mutation).		apoptotic process (GO:0006915)|B cell lineage commitment (GO:0002326)|base-excision repair (GO:0006284)|blood coagulation (GO:0007596)|cell aging (GO:0007569)|cell cycle arrest (GO:0007050)|cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to drug (GO:0035690)|cellular response to glucose starvation (GO:0042149)|cellular response to hypoxia (GO:0071456)|cellular response to ionizing radiation (GO:0071479)|cellular response to UV (GO:0034644)|cerebellum development (GO:0021549)|chromatin assembly (GO:0031497)|determination of adult lifespan (GO:0008340)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|DNA strand renaturation (GO:0000733)|double-strand break repair (GO:0006302)|embryonic organ development (GO:0048568)|ER overload response (GO:0006983)|gastrulation (GO:0007369)|in utero embryonic development (GO:0001701)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|mitotic cell cycle arrest (GO:0071850)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|multicellular organismal development (GO:0007275)|necroptotic process (GO:0070266)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of DNA replication (GO:0008156)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of helicase activity (GO:0051097)|negative regulation of macromitophagy (GO:1901525)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neuron apoptotic process (GO:0051402)|Notch signaling pathway (GO:0007219)|nucleotide-excision repair (GO:0006289)|oligodendrocyte apoptotic process (GO:0097252)|oxidative stress-induced premature senescence (GO:0090403)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cardiac muscle cell apoptotic process (GO:0010666)|positive regulation of cell aging (GO:0090343)|positive regulation of cell cycle arrest (GO:0071158)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial membrane permeability (GO:0035794)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|positive regulation of thymocyte apoptotic process (GO:0070245)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|protein complex assembly (GO:0006461)|protein import into nucleus, translocation (GO:0000060)|protein localization (GO:0008104)|protein tetramerization (GO:0051262)|Ras protein signal transduction (GO:0007265)|regulation of apoptotic process (GO:0042981)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|regulation of tissue remodeling (GO:0034103)|regulation of transcription, DNA-templated (GO:0006355)|release of cytochrome c from mitochondria (GO:0001836)|replicative senescence (GO:0090399)|response to antibiotic (GO:0046677)|response to gamma radiation (GO:0010332)|response to ischemia (GO:0002931)|response to salt stress (GO:0009651)|response to X-ray (GO:0010165)|rRNA transcription (GO:0009303)|somitogenesis (GO:0001756)|T cell differentiation in thymus (GO:0033077)|T cell lineage commitment (GO:0002360)|T cell proliferation involved in immune response (GO:0002309)|transforming growth factor beta receptor signaling pathway (GO:0007179)|viral process (GO:0016032)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nuclear chromatin (GO:0000790)|nuclear matrix (GO:0016363)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|replication fork (GO:0005657)	ATP binding (GO:0005524)|chaperone binding (GO:0051087)|chromatin binding (GO:0003682)|copper ion binding (GO:0005507)|damaged DNA binding (GO:0003684)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|histone deacetylase regulator activity (GO:0035033)|identical protein binding (GO:0042802)|p53 binding (GO:0002039)|protease binding (GO:0002020)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|protein N-terminus binding (GO:0047485)|protein phosphatase 2A binding (GO:0051721)|protein phosphatase binding (GO:0019903)|receptor tyrosine kinase binding (GO:0030971)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)	p.R213*(250)|p.R81*(21)|p.R120*(21)|p.0?(8)|p.?(5)|p.R213G(5)|p.R213fs*35(3)|p.R213fs*34(3)|p.D208_V216delDRNTFRHSV(1)|p.R120G(1)|p.D207_R213delDDRNTFR(1)|p.T211_S215delTFRHS(1)|p.R81fs*>11(1)|p.D208fs*1(1)|p.R120fs*35(1)|p.R81G(1)|p.R209_R213delRNTFR(1)|p.R213fs*2(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213R(1)|p.R213fs*32(1)|p.R209fs*6(1)|p.R213W(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		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)	Acetylsalicylic acid(DB00945)	ACACTATGTCGAAAAGTGTTT	0.532		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	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, 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)																											Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		"L, E, M, O"	333	Substitution - Nonsense(292)|Deletion - Frameshift(8)|Whole gene deletion(8)|Substitution - Missense(8)|Deletion - In frame(5)|Insertion - Frameshift(5)|Unknown(5)|Complex - deletion inframe(1)|Substitution - coding silent(1)	large_intestine(89)|breast(45)|lung(37)|upper_aerodigestive_tract(30)|central_nervous_system(18)|skin(16)|oesophagus(15)|stomach(14)|ovary(14)|haematopoietic_and_lymphoid_tissue(10)|urinary_tract(9)|biliary_tract(8)|liver(8)|soft_tissue(5)|endometrium(5)|bone(4)|prostate(3)|thyroid(1)|pancreas(1)|autonomic_ganglia(1)	GRCh37	CM951226	TP53	M							132	118	123					17																	7578212		2203	4300	6503	SO:0001587	stop_gained	7157	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	AF307851	CCDS11118.1, CCDS45605.1, CCDS45606.1, CCDS73963.1, CCDS73964.1, CCDS73965.1, CCDS73966.1, CCDS73967.1, CCDS73968.1, CCDS73969.1, CCDS73970.1, CCDS73971.1	17p13.1	2014-09-17	2008-01-16		ENSG00000141510	ENSG00000141510			11998	protein-coding gene	gene with protein product	"Li-Fraumeni syndrome"	191170				6396087, 3456488, 2047879	Standard	NM_001126115		Approved	p53, LFS1	uc002gij.3	P04637	OTTHUMG00000162125	ENST00000269305.4:c.637C>T	17.37:g.7578212G>A	ENSP00000269305:p.Arg213*	Somatic		WXS	Illumina HiSeq	Phase_I	Q15086|Q15087|Q15088|Q16535|Q16807|Q16808|Q16809|Q16810|Q16811|Q16848|Q2XN98|Q3LRW1|Q3LRW2|Q3LRW3|Q3LRW4|Q3LRW5|Q86UG1|Q8J016|Q99659|Q9BTM4|Q9HAQ8|Q9NP68|Q9NPJ2|Q9NZD0|Q9UBI2|Q9UQ61	Nonsense_Mutation	SNP	ENST00000269305.4	37	CCDS11118.1	.	.	.	.	.	.	.	.	.	.	G	37	6.039727	0.97226	.	.	ENSG00000141510	ENST00000413465;ENST00000359597;ENST00000269305;ENST00000455263;ENST00000420246;ENST00000445888;ENST00000396473;ENST00000545858;ENST00000509690;ENST00000514944;ENST00000414315	.	.	.	5.28	3.25	0.37280	.	0.057335	0.64402	D	0.000003	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-7.5444	12.7263	0.57173	0.0:0.0:0.701:0.299	.	.	.	.	X	213;213;213;213;213;213;202;120;81;120;81	.	ENSP00000269305:R213X	R	-	1	2	TP53	7518937	0.971000	0.33674	0.123000	0.21794	0.957000	0.61999	1.659000	0.37387	0.702000	0.31825	0.563000	0.77884	CGA		0.532	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	NM_000546		A	7578212	G	A	7578212	4	1	686	1	0	0	0	0	0	1	0	0	16393	1066	37	1	657	1	TP53	17	7578212	Nonsense_Mutation	SNP	G	TCGA-KO-8416-01A-11D-2310-10	4	7578212	73616998	57	44468	472	2								
MYO15A	51168	ucsc.edu	37	chr17	18057479	18057479	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ggacagctacagccatcctgTgcagcttgacctcctgttcc	9	15	0	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr17:18057479T>C	ENST00000205890.5	+	44	8461	c.8123T>C	c.(8122-8124)gTg>gCg	p.V2708A	MYO15A_ENST00000585180.1_5'UTR|MYO15A_ENST00000418233.3_5'UTR	NM_016239.3	NP_057323.3	Q9UKN7	MYO15_HUMAN	myosin XVA	2708	Tail.				inner ear morphogenesis (GO:0042472)|locomotory behavior (GO:0007626)|sensory perception of sound (GO:0007605)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|myosin complex (GO:0016459)|stereocilium (GO:0032420)	ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(5)|central_nervous_system(2)|endometrium(17)|kidney(3)|large_intestine(16)|lung(27)|ovary(3)|pancreas(1)|prostate(6)|skin(13)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	99	all_neural(463;0.228)					AGCCATCCTGTGCAGCTTGAC	0.612																																																0													70	81	78					17																	18057479		2074	4222	6296	SO:0001583	missense	51168			AF144094	CCDS42271.1	17p11.2	2011-09-27			ENSG00000091536	ENSG00000091536		"Myosins / Myosin superfamily : Class XV"	7594	protein-coding gene	gene with protein product		602666		DFNB3, MYO15		9603736	Standard	NM_016239		Approved		uc021trl.1	Q9UKN7	OTTHUMG00000059390	ENST00000205890.5:c.8123T>C	17.37:g.18057479T>C	ENSP00000205890:p.Val2708Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFC7	Missense_Mutation	SNP	ENST00000205890.5	37	CCDS42271.1	.	.	.	.	.	.	.	.	.	.	T	19.06	3.753191	0.69648	.	.	ENSG00000091536	ENST00000205890	D	0.87966	-2.32	5.19	5.19	0.71726	.	.	.	.	.	D	0.83348	0.5235	M	0.65677	2.01	0.80722	D	1	P	0.43788	0.817	B	0.36959	0.237	T	0.82806	-0.0275	9	0.37606	T	0.19	.	10.2936	0.43610	0.0:0.0803:0.0:0.9197	.	2708	Q9UKN7	MYO15_HUMAN	A	2708	ENSP00000205890:V2708A	ENSP00000205890:V2708A	V	+	2	0	MYO15A	17998204	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	4.531000	0.60602	1.952000	0.56665	0.460000	0.39030	GTG		0.612	MYO15A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132048.1	NM_016239		C	18057479	T	C	18057479	3	2	686	1	0	0	0	0	1	0	0	0	10070	1696	59	3	8289	3	MYO15A	17	18057479	Missense_Mutation	SNP	T	TCGA-KO-8416-01A-11D-2310-10	10479267	18057479	63137731	58	44469										
ENOSF1	55556	mdanderson.org	37	chr18	712568	712568	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	cgtcccggaccgagagccggGagatcctgccgcgcaccatg	14	16	0	2	rs3786349	byFrequency	TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr18:712568G>A	ENST00000251101.7	-	1	108	c.20C>T	c.(19-21)tCc>tTc	p.S7F	ENOSF1_ENST00000340116.7_5'Flank|ENOSF1_ENST00000580982.1_Missense_Mutation_p.S7F|ENOSF1_ENST00000383578.3_5'UTR|ENOSF1_ENST00000539164.1_Missense_Mutation_p.S7F	NM_017512.5	NP_059982.2	Q7L5Y1	ENOF1_HUMAN	enolase superfamily member 1	7					cellular amino acid catabolic process (GO:0009063)|cellular carbohydrate catabolic process (GO:0044275)	mitochondrion (GO:0005739)	isomerase activity (GO:0016853)|L-fuconate dehydratase activity (GO:0050023)|magnesium ion binding (GO:0000287)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(3)|ovary(1)|prostate(1)	10						CGAGAGCCGGGAGATCCTGCC	0.766													G|||	601	0.120008	0.0265	0.0778	5008	,	,		9725	0.2748		0.1412	False		,,,				2504	0.0951															0								G	,PHE/SER	105,3179		1,103,1538	5	5	5		,20	-1.5	0	18	dbSNP_107	5	546,5710		15,516,2597	no	utr-5,missense	ENOSF1	NM_001126123.3,NM_017512.5	,155	16,619,4135	AA,AG,GG		8.7276,3.1973,6.8239	,benign	,7/444	712568	651,8889	1642	3128	4770	SO:0001583	missense	55556			X67098	CCDS11822.1, CCDS11823.1, CCDS45821.1	18p11.32	2005-01-26			ENSG00000132199	ENSG00000132199			30365	protein-coding gene	gene with protein product		607427				14508106	Standard	NM_001126123		Approved	HSRTSBETA, rTS, TYMSAS	uc002kku.4	Q7L5Y1	OTTHUMG00000131470	ENST00000251101.7:c.20C>T	18.37:g.712568G>A	ENSP00000251101:p.Ser7Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMP3|A8K9R5|B3KSL6|B3KXE4|D3DUH0|Q15407|Q15594|Q15595|Q6ZS08|Q9HAS5|Q9HAS6	Missense_Mutation	SNP	ENST00000251101.7	37	CCDS11822.1	329	0.15064102564102563	28	0.056910569105691054	34	0.09392265193370165	161	0.28146853146853146	106	0.13984168865435356	G	10.32	1.318029	0.23994	0.031973	0.087276	ENSG00000132199	ENST00000251101;ENST00000539164	T;T	0.42131	0.98;0.98	4.19	-1.5	0.08691	.	.	.	.	.	T	0.00012	0.0000	L	0.36672	1.1	0.80722	P	0.0	B	0.30455	0.28	B	0.25506	0.061	T	0.26018	-1.0115	8	0.42905	T	0.14	.	10.165	0.42875	0.083:0.5405:0.3765:0.0	rs3786349	7	Q7L5Y1	ENOF1_HUMAN	F	7	ENSP00000251101:S7F;ENSP00000446321:S7F	ENSP00000251101:S7F	S	-	2	0	ENOSF1	702568	0.079000	0.21365	0.023000	0.16930	0.684000	0.39900	0.057000	0.14279	-0.433000	0.07286	0.313000	0.20887	TCC		0.766	ENOSF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254312.2	NM_017512		A	712568	G	A	712568	3	1	686	1	0	0	0	0	1	0	0	0	5127	1174	41	2	1519	2	ENOSF1	18	712568	Missense_Mutation	SNP	G	TCGA-KO-8416-01A-11D-2310-10		712568	77364680	59	44470										
CTDP1	9150	broad.mit.edu	37	chr18	77477838	77477838	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gccctgcggcctttcccgacCgggagggtgtgccccccacc	13	19	0	0			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr18:77477838C>T	ENST00000299543.7	+	10	2386	c.2239C>T	c.(2239-2241)Cgg>Tgg	p.R747W	CTDP1_ENST00000075430.7_Missense_Mutation_p.R747W	NM_001202504.1|NM_004715.4	NP_001189433.1|NP_004706.3	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1	747					exit from mitosis (GO:0010458)|gene expression (GO:0010467)|positive regulation of viral transcription (GO:0050434)|protein dephosphorylation (GO:0006470)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|viral process (GO:0016032)	actin cytoskeleton (GO:0015629)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|midbody (GO:0030496)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle (GO:0005819)|spindle midzone (GO:0051233)|spindle pole (GO:0000922)	CTD phosphatase activity (GO:0008420)|DNA-directed RNA polymerase activity (GO:0003899)			autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(14)|ovary(2)|prostate(2)|urinary_tract(1)	35		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		CTTTCCCGACCGGGAGGGTGT	0.667																																																0													38	44	42					18																	77477838		2203	4300	6503	SO:0001583	missense	9150			AF081287	CCDS12017.1, CCDS12018.1, CCDS74239.1	18q23	2014-09-17			ENSG00000060069	ENSG00000060069		"Serine/threonine phosphatases / CTD aspartate-based phosphatases"	2498	protein-coding gene	gene with protein product		604927				9405607, 9765293	Standard	NM_004715		Approved	FCP1	uc002lnh.2	Q9Y5B0	OTTHUMG00000132920	ENST00000299543.7:c.2239C>T	18.37:g.77477838C>T	ENSP00000299543:p.Arg747Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8MY97|Q7Z644|Q96BZ1|Q9Y6F5	Missense_Mutation	SNP	ENST00000299543.7	37	CCDS12017.1	.	.	.	.	.	.	.	.	.	.	C	13.32	2.202466	0.38905	.	.	ENSG00000060069	ENST00000299543;ENST00000075430	T;T	0.48522	0.81;0.81	5.22	2.76	0.32466	FCP1-like phosphatase, C-terminal (1);	0.476726	0.24289	N	0.039825	T	0.58694	0.2140	L	0.50333	1.59	0.30776	N	0.742543	D;D;D	0.76494	0.999;0.999;0.999	P;P;D	0.65443	0.893;0.893;0.935	T	0.62324	-0.6878	10	0.66056	D	0.02	-37.4624	11.866	0.52493	0.7087:0.2913:0.0:0.0	.	628;747;747	Q9Y5B0-3;Q9Y5B0-4;Q9Y5B0	.;.;CTDP1_HUMAN	W	747	ENSP00000299543:R747W;ENSP00000075430:R747W	ENSP00000075430:R747W	R	+	1	2	CTDP1	75578826	1.000000	0.71417	0.564000	0.28396	0.064000	0.16182	2.452000	0.44961	0.276000	0.22118	-0.457000	0.05445	CGG		0.667	CTDP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256432.1	NM_004715		T	77477838	C	T	77477838	3	4	686	1	0	0	0	0	1	0	0	0	4004	643	23	1	2277	1	CTDP1	18	77477838	Missense_Mutation	SNP	C	TCGA-KO-8416-01A-11D-2310-10	76765270	77477838	599410	60	44471										
SBNO2	22904	ucsc.edu;bcgsc.ca	37	chr19	1116843	1116843	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	cttactcagcggccgagacgAagcagttgaggtgcccatcg	13	12	1	2			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr19:1116843A>G	ENST00000361757.3	-	16	2024	c.1787T>C	c.(1786-1788)tTc>tCc	p.F596S	SBNO2_ENST00000587024.1_Missense_Mutation_p.F586S|SBNO2_ENST00000438103.2_Missense_Mutation_p.F539S	NM_014963.2	NP_055778.2	Q9Y2G9	SBNO2_HUMAN	strawberry notch homolog 2 (Drosophila)	596					bone mineralization (GO:0030282)|bone trabecula morphogenesis (GO:0061430)|macrophage activation involved in immune response (GO:0002281)|negative regulation of transcription, DNA-templated (GO:0045892)|osteoclast fusion (GO:0072675)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of inflammatory response (GO:0050727)|transcription, DNA-templated (GO:0006351)					NS(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(2)|lung(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	14		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|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)		GGCCGAGACGAAGCAGTTGAG	0.677																																																0													35	42	40					19																	1116843		2167	4255	6422	SO:0001583	missense	22904			AK074102	CCDS45894.1, CCDS45895.1	19p13.3	2008-02-05	2006-10-06	2006-10-06		ENSG00000064932			29158	protein-coding gene	gene with protein product		615729	"KIAA0963"	KIAA0963		10231032	Standard	NM_014963		Approved	FLJ00173, Stno, Sno	uc002lrk.4	Q9Y2G9		ENST00000361757.3:c.1787T>C	19.37:g.1116843A>G	ENSP00000354733:p.Phe596Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8P2|B3KWJ1|O75257|Q3KQX0|Q8TEM0	Missense_Mutation	SNP	ENST00000361757.3	37	CCDS45894.1	.	.	.	.	.	.	.	.	.	.	A	16.51	3.142945	0.57044	.	.	ENSG00000064932	ENST00000361757;ENST00000438103;ENST00000250872	.	.	.	4.18	4.18	0.49190	.	0.000000	0.85682	D	0.000000	T	0.81240	0.4781	M	0.90705	3.14	0.58432	D	0.999999	D;D;D	0.89917	0.999;1.0;1.0	D;D;D	0.91635	0.994;0.998;0.999	D	0.84066	0.0377	9	0.49607	T	0.09	-26.5993	12.8397	0.57794	1.0:0.0:0.0:0.0	.	596;596;539	B4DV91;Q9Y2G9;Q9Y2G9-3	.;SBNO2_HUMAN;.	S	596;539;620	.	ENSP00000250872:F620S	F	-	2	0	SBNO2	1067843	1.000000	0.71417	0.997000	0.53966	0.026000	0.11368	8.873000	0.92357	1.879000	0.54435	0.460000	0.39030	TTC		0.677	SBNO2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000458065.2	NM_014963		G	1116843	A	G	1116843	3	3	686	1	0	0	0	0	1	0	0	0	13876	246	9	3	2381	3	SBNO2	19	1116843	Missense_Mutation	SNP	A	TCGA-KO-8416-01A-11D-2310-10		1116843	58012140	61	44472										
S1PR2	9294	mdanderson.org	37	chr19	10334663	10334663	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ttgcacccccacccccggccTccagcactgcagcggccgaa	9	21	0	0	rs2116942	byFrequency	TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr19:10334663T>G	ENST00000590320.1	-	2	1029	c.919A>C	c.(919-921)Agg>Cgg	p.R307R	CTD-2369P2.2_ENST00000317726.4_lincRNA	NM_004230.3	NP_004221.3	O95136	S1PR2_HUMAN	sphingosine-1-phosphate receptor 2	307					activation of MAPK activity (GO:0000187)|G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|positive regulation of cell proliferation (GO:0008284)|positive regulation of establishment of endothelial barrier (GO:1903142)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|G-protein coupled receptor binding (GO:0001664)|integrin binding (GO:0005178)|lipid binding (GO:0008289)|sphingosine-1-phosphate receptor activity (GO:0038036)			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|lung(8)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	15						ACCCCCGGCCTCCAGCACTGC	0.706													G|||	2764	0.551917	0.7678	0.4568	5008	,	,		9629	0.3095		0.5895	False		,,,				2504	0.5389				Pancreas(194;229 3020 15179 45747)											0								G		3127,1219		1156,815,202	15	18	17		919	1.6	0.4	19	dbSNP_96	17	5012,3506		1509,1994,756	no	coding-synonymous	S1PR2	NM_004230.3		2665,2809,958	GG,GT,TT		41.1599,28.0488,36.7304		307/354	10334663	8139,4725	2173	4259	6432	SO:0001819	synonymous_variant	9294			AF034780	CCDS12229.1	19q13	2013-03-13	2008-04-30	2008-04-30	ENSG00000267534	ENSG00000267534		"GPCR / Class A : Lysophospholipid receptors : Sphingosine 1-phosphate"	3169	protein-coding gene	gene with protein product		605111	"endothelial differentiation, sphingolipid G-protein-coupled receptor, 5"	EDG5		8087418, 8878560	Standard	NM_004230		Approved	Gpcr13, H218, AGR16	uc002mnl.2	O95136	OTTHUMG00000180399	ENST00000590320.1:c.919A>C	19.37:g.10334663T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q86UN8	Silent	SNP	ENST00000590320.1	37	CCDS12229.1																																																																																				0.706	S1PR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451194.1	NM_004230		G	10334663	T	G	10334663	2	3	686	1	0	0	0	0	0	0	0	1	13807	1550	54	5		5	S1PR2	19	10334663	Silent	SNP	T	TCGA-KO-8416-01A-11D-2310-10	9217820	10334663	48794320	62	44473										
OR10H2	26538	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	15839010	15839010	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	tggccaccgtctggagcgagCgcagcctccacacgcccatg	12	17	1	0	rs373719619		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr19:15839010C>T	ENST00000305899.3	+	1	177	c.157C>T	c.(157-159)Cgc>Tgc	p.R53C		NM_013939.2	NP_039227.1	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H, member 2	53						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(10)|ovary(2)|skin(3)|stomach(1)	27	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					CTGGAGCGAGCGCAGCCTCCA	0.612																																																0													197	159	172					19																	15839010		2203	4300	6503	SO:0001583	missense	26538			AC004597	CCDS12333.1	19p13.1	2012-08-09				ENSG00000171942		"GPCR / Class A : Olfactory receptors"	8173	protein-coding gene	gene with protein product							Standard	NM_013939		Approved		uc002nbm.2	O60403		ENST00000305899.3:c.157C>T	19.37:g.15839010C>T	ENSP00000306095:p.Arg53Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFQ1|Q96R58	Missense_Mutation	SNP	ENST00000305899.3	37	CCDS12333.1	.	.	.	.	.	.	.	.	.	.	.	12.82	2.052310	0.36181	.	.	ENSG00000171942	ENST00000305899	T	0.01084	5.36	2.88	2.88	0.33553	GPCR, rhodopsin-like superfamily (1);	0.270198	0.26563	N	0.023673	T	0.01523	0.0049	M	0.64630	1.985	0.34217	D	0.674979	B	0.22983	0.078	B	0.15870	0.014	T	0.20140	-1.0284	10	0.56958	D	0.05	.	5.6424	0.17571	0.0:0.8456:0.0:0.1544	.	53	O60403	O10H2_HUMAN	C	53	ENSP00000306095:R53C	ENSP00000306095:R53C	R	+	1	0	OR10H2	15700010	0.000000	0.05858	0.919000	0.36401	0.801000	0.45260	-0.657000	0.05335	1.446000	0.47643	0.537000	0.68136	CGC		0.612	OR10H2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460917.1			T	15839010	C	T	15839010	3	4	686	1	0	0	0	0	1	0	0	0	10913	768	27	1	159	1	OR10H2	19	15839010	Missense_Mutation	SNP	C	TCGA-KO-8416-01A-11D-2310-10	5504347	15839010	43289973	63	44474										
ZNF528	84436	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	52919685	52919685	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ttacaaatgtaatcaatgtgGcaaggtctttaatcaagcat	7	6	3	0			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr19:52919685G>T	ENST00000360465.3	+	7	2006	c.1580G>T	c.(1579-1581)gGc>gTc	p.G527V	ZNF528_ENST00000391788.2_3'UTR	NM_032423.2	NP_115799.2	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	527					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(13)|lung(6)|ovary(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	39				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)		AATCAATGTGGCAAGGTCTTT	0.393																																																0													69	64	66					19																	52919685		2203	4300	6503	SO:0001583	missense	84436			AB058730	CCDS33091.1	19q13	2013-01-08			ENSG00000167555	ENSG00000167555		"Zinc fingers, C2H2-type", "-"	29384	protein-coding gene	gene with protein product		615580				11347906	Standard	NM_032423		Approved	KIAA1827	uc002pzh.3	Q3MIS6	OTTHUMG00000156494	ENST00000360465.3:c.1580G>T	19.37:g.52919685G>T	ENSP00000353652:p.Gly527Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPN4|Q86T88|Q96JK0	Missense_Mutation	SNP	ENST00000360465.3	37	CCDS33091.1	.	.	.	.	.	.	.	.	.	.	G	8.697	0.908812	0.17833	.	.	ENSG00000167555	ENST00000360465	T	0.23754	1.89	1.94	0.84	0.18912	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.53690	0.1812	H	0.94462	3.54	0.42832	D	0.994028	D	0.76494	0.999	D	0.65140	0.932	T	0.57100	-0.7869	9	0.87932	D	0	.	7.3395	0.26630	0.1512:0.0:0.8488:0.0	.	527	Q3MIS6	ZN528_HUMAN	V	527	ENSP00000353652:G527V	ENSP00000353652:G527V	G	+	2	0	ZNF528	57611497	0.982000	0.34865	0.063000	0.19743	0.026000	0.11368	1.708000	0.37899	0.140000	0.18849	-0.262000	0.10625	GGC		0.393	ZNF528-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344336.1	NM_032423		T	52919685	G	T	52919685	3	4	686	1	0	0	0	0	1	0	0	0	17981	1203	42	4	1594	4	ZNF528	19	52919685	Missense_Mutation	SNP	G	TCGA-KO-8416-01A-11D-2310-10	37080675	52919685	6209298	64	44475										
TGM3	7053	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr20	2306576	2306576	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ggatggcaggtgttggatgcTaccccgcaggaaagaagcca	15	9	0	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr20:2306576T>C	ENST00000381458.5	+	8	1128	c.1065T>C	c.(1063-1065)gcT>gcC	p.A355A	TGM3_ENST00000463090.1_3'UTR	NM_003245.3	NP_003236.3	Q08188	TGM3_HUMAN	transglutaminase 3	355					cell envelope organization (GO:0043163)|cellular protein modification process (GO:0006464)|hair follicle morphogenesis (GO:0031069)|keratinization (GO:0031424)|keratinocyte differentiation (GO:0030216)|peptide cross-linking (GO:0018149)|protein tetramerization (GO:0051262)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)	calcium ion binding (GO:0005509)|catalytic activity (GO:0003824)|protein-glutamine gamma-glutamyltransferase activity (GO:0003810)|transferase activity, transferring acyl groups (GO:0016746)			breast(3)|cervix(1)|endometrium(1)|kidney(4)|large_intestine(11)|lung(10)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(2)	39					L-Glutamine(DB00130)	TGTTGGATGCTACCCCGCAGG	0.522																																																0													122	80	94					20																	2306576		2202	4299	6501	SO:0001819	synonymous_variant	7053			L10386	CCDS33435.1	20q11.2	2013-05-02	2013-05-02		ENSG00000125780	ENSG00000125780	2.3.2.13	"Transglutaminases"	11779	protein-coding gene	gene with protein product	"E polypeptide, protein-glutamine-gamma-glutamyltransferase"	600238	"transglutaminase 3 (E polypeptide, protein-glutamine-gamma-glutamyltransferase)"			7851911, 9452468	Standard	NM_003245		Approved	TGE	uc002wfx.4	Q08188	OTTHUMG00000031690	ENST00000381458.5:c.1065T>C	20.37:g.2306576T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5N6|B2RCR6|D3DVX1|O95933|Q32ML9|Q32MM0	Silent	SNP	ENST00000381458.5	37	CCDS33435.1																																																																																				0.522	TGM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077579.2	NM_003245		C	2306576	T	C	2306576	2	2	686	1	0	0	0	0	0	0	0	1	15843	1509	53	3		3	TGM3	20	2306576	Silent	SNP	T	TCGA-KO-8416-01A-11D-2310-10		2306576	60718944	65	44476										
GDF5	8200	broad.mit.edu	37	chr20	34021909	34021909	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ccaggtgggagcgcaatgggAactcgcacagcccctcgcag	14	14	0	0			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr20:34021909A>G	ENST00000374372.1	-	4	1807	c.1304T>C	c.(1303-1305)tTc>tCc	p.F435S	GDF5_ENST00000374369.3_Missense_Mutation_p.F435S|GDF5OS_ENST00000374375.1_5'UTR			P43026	GDF5_HUMAN	growth differentiation factor 5	435					cell-cell signaling (GO:0007267)|chondrocyte differentiation (GO:0002062)|embryonic limb morphogenesis (GO:0030326)|extracellular matrix organization (GO:0030198)|forelimb morphogenesis (GO:0035136)|growth (GO:0040007)|hindlimb morphogenesis (GO:0035137)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of mesenchymal cell apoptotic process (GO:2001054)|negative regulation of neuron apoptotic process (GO:0043524)|positive regulation of chondrocyte differentiation (GO:0032332)|positive regulation of neuron differentiation (GO:0045666)|regulation of multicellular organism growth (GO:0040014)|transforming growth factor beta receptor signaling pathway (GO:0007179)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|plasma membrane (GO:0005886)	growth factor activity (GO:0008083)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(3)|lung(9)|skin(3)	26	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			GCGCAATGGGAACTCGCACAG	0.602																																																0													135	118	124					20																	34021909		2203	4300	6503	SO:0001583	missense	8200			X80915	CCDS13254.1	20q11.2	2008-05-22	2007-04-12		ENSG00000125965	ENSG00000125965			4220	protein-coding gene	gene with protein product	"cartilage-derived morphogenetic protein-1"	601146				9288091, 9288098	Standard	NM_000557		Approved	CDMP1, BMP14	uc002xck.1	P43026	OTTHUMG00000032341	ENST00000374372.1:c.1304T>C	20.37:g.34021909A>G	ENSP00000363492:p.Phe435Ser	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5Q2|Q96SB1	Missense_Mutation	SNP	ENST00000374372.1	37	CCDS13254.1	.	.	.	.	.	.	.	.	.	.	A	20.5	3.999143	0.74818	.	.	ENSG00000125965	ENST00000374369;ENST00000374372	D;D	0.84146	-1.81;-1.81	4.53	4.53	0.55603	Transforming growth factor-beta, C-terminal (3);	0.000000	0.85682	D	0.000000	D	0.90300	0.6966	L	0.60904	1.88	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.999;1.0	D	0.91390	0.5134	10	0.87932	D	0	.	14.0234	0.64571	1.0:0.0:0.0:0.0	.	435;435	F1T0J1;P43026	.;GDF5_HUMAN	S	435	ENSP00000363489:F435S;ENSP00000363492:F435S	ENSP00000363489:F435S	F	-	2	0	GDF5	33485323	1.000000	0.71417	1.000000	0.80357	0.918000	0.54935	9.139000	0.94554	1.893000	0.54813	0.459000	0.35465	TTC		0.602	GDF5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078875.2			G	34021909	A	G	34021909	3	3	686	1	0	0	0	0	1	0	0	0	6323	246	9	3	205	3	GDF5	20	34021909	Missense_Mutation	SNP	A	TCGA-KO-8416-01A-11D-2310-10	31715333	34021909	29003611	66	44477										
C20orf117	140710	bcgsc.ca	37	chr20	35437043	35437043	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gggactcctgcaccagcatgTtcttctcctggctccagaat	9	14	2	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr20:35437043T>C	ENST00000357779.3	-	8	2299	c.1973A>G	c.(1972-1974)aAc>aGc	p.N658S	SOGA1_ENST00000279034.6_Missense_Mutation_p.N658S|SOGA1_ENST00000456801.2_Missense_Mutation_p.N499S|SOGA1_ENST00000237536.4_Missense_Mutation_p.N896S			O94964	SOGA1_HUMAN	suppressor of glucose, autophagy associated 1	658					insulin receptor signaling pathway (GO:0008286)|negative regulation of gluconeogenesis (GO:0045721)|regulation of autophagy (GO:0010506)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)				endometrium(5)|kidney(1)|lung(21)|urinary_tract(1)	28						CACCAGCATGTTCTTCTCCTG	0.582											OREG0025909	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													47	50	49					20																	35437043		1958	4165	6123	SO:0001583	missense	140710			AK126630	CCDS46598.1, CCDS54459.1	20q11.23	2012-03-01	2012-02-27	2012-02-27	ENSG00000149639	ENSG00000149639			16111	protein-coding gene	gene with protein product	"suppressor of glucose by autophagy", "suppressor of glucose from autophagy"		"chromosome 20 open reading frame 117", "KIAA0889"	C20orf117, KIAA0889		20813965	Standard	NM_080627		Approved	dJ132F21.1, FLJ44670, SOGA	uc021wcx.1	O94964	OTTHUMG00000032395	ENST00000357779.3:c.1973A>G	20.37:g.35437043T>C	ENSP00000350424:p.Asn658Ser	Somatic	855	WXS	Illumina HiSeq	Phase_I	A6NK10|Q14DB2|Q5JW51|Q6ZTG8	Missense_Mutation	SNP	ENST00000357779.3	37		.	.	.	.	.	.	.	.	.	.	T	17.78	3.473425	0.63737	.	.	ENSG00000149639	ENST00000237536;ENST00000279034;ENST00000456801;ENST00000357779	T;T;T;T	0.38560	1.13;1.13;1.13;1.13	5.28	5.28	0.74379	.	0.048321	0.85682	D	0.000000	T	0.35970	0.0950	L	0.36672	1.1	0.41468	D	0.98808	B	0.31435	0.323	B	0.34824	0.19	T	0.15321	-1.0441	10	0.26408	T	0.33	-56.7913	14.3227	0.66496	0.0:0.0:0.0:1.0	.	658	O94964-4	.	S	896;658;499;658	ENSP00000237536:N896S;ENSP00000279034:N658S;ENSP00000413886:N499S;ENSP00000350424:N658S	ENSP00000237536:N896S	N	-	2	0	KIAA0889	34870457	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	4.807000	0.62576	2.216000	0.71823	0.533000	0.62120	AAC		0.582	SOGA1-201	KNOWN	basic	protein_coding	protein_coding		NM_199181		C	35437043	T	C	35437043	3	2	686	1	0	0	0	0	1	0	0	0	2085	1725	60	3	2392	3	C20orf117	20	35437043	Missense_Mutation	SNP	T	TCGA-KO-8416-01A-11D-2310-10	1415134	35437043	27588477	67	44478										
USP25	29761	broad.mit.edu	37	chr21	17150316	17150316	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	cagggcattcagggagactgGaataactgatgaggaacaag	14	6	1	3			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr21:17150316G>A	ENST00000285679.6	+	4	731	c.362G>A	c.(361-363)gGa>gAa	p.G121E	USP25_ENST00000400183.2_Missense_Mutation_p.G121E|USP25_ENST00000351097.5_Missense_Mutation_p.G121E|USP25_ENST00000547201.1_3'UTR|USP25_ENST00000285681.2_Missense_Mutation_p.G121E	NM_013396.3	NP_037528.3	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	121					cellular protein modification process (GO:0006464)|protein K48-linked deubiquitination (GO:0071108)|protein K63-linked deubiquitination (GO:0070536)|proteolysis (GO:0006508)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	peptidase activity (GO:0008233)|SUMO binding (GO:0032183)|ubiquitin-specific protease activity (GO:0004843)			breast(4)|endometrium(6)|kidney(2)|large_intestine(13)|liver(5)|lung(14)|ovary(4)|prostate(1)|skin(1)|urinary_tract(2)	52				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)		AGGGAGACTGGAATAACTGAT	0.343																																																0													59	60	60					21																	17150316		2203	4300	6503	SO:0001583	missense	29761			AF170562	CCDS33515.1, CCDS63336.1, CCDS63337.1	21q11.2	2011-02-24	2005-08-08		ENSG00000155313	ENSG00000155313		"Ubiquitin-specific peptidases"	12624	protein-coding gene	gene with protein product		604736	"ubiquitin specific protease 25"			12838346, 10612803	Standard	NM_013396		Approved	USP21	uc002yjy.1	Q9UHP3	OTTHUMG00000074343	ENST00000285679.6:c.362G>A	21.37:g.17150316G>A	ENSP00000285679:p.Gly121Glu	Somatic		WXS	Illumina HiSeq	Phase_I	C0LSZ0|Q6DHZ9|Q9H9W1	Missense_Mutation	SNP	ENST00000285679.6	37	CCDS33515.1	.	.	.	.	.	.	.	.	.	.	G	26.4	4.735801	0.89482	.	.	ENSG00000155313	ENST00000285681;ENST00000285679;ENST00000351097;ENST00000400183	T;T;T;T	0.30448	1.94;1.95;1.53;1.95	5.09	5.09	0.68999	.	0.000000	0.85682	D	0.000000	T	0.38692	0.1050	N	0.14661	0.345	0.80722	D	1	D;D;D;D	0.89917	0.998;1.0;0.998;1.0	D;D;D;D	0.91635	0.943;0.998;0.943;0.999	T	0.20940	-1.0260	10	0.19590	T	0.45	.	18.85	0.92224	0.0:0.0:1.0:0.0	.	121;121;121;121	Q9UHP3-3;Q96B65;Q9UHP3-1;Q9UHP3	.;.;.;UBP25_HUMAN	E	121	ENSP00000285681:G121E;ENSP00000285679:G121E;ENSP00000299574:G121E;ENSP00000383044:G121E	ENSP00000285679:G121E	G	+	2	0	USP25	16072187	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.379000	0.97198	2.526000	0.85167	0.585000	0.79938	GGA		0.343	USP25-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157964.1			A	17150316	G	A	17150316	3	1	686	1	0	0	0	0	1	0	0	0	17068	1174	41	2	376	2	USP25	21	17150316	Missense_Mutation	SNP	G	TCGA-KO-8416-01A-11D-2310-10		17150316	30979579	68	44479										
TRIOBP	11078	mdanderson.org	37	chr22	38122448	38122448	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ccccaggcgcagtgcagcagCgggggccgcacccacagccc	14	19	0	0	rs739137	byFrequency	TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chr22:38122448C>T	ENST00000406386.3	+	7	4140	c.3885C>T	c.(3883-3885)agC>agT	p.S1295S		NM_001039141.2	NP_001034230.1	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein	1295					actin modification (GO:0030047)|barbed-end actin filament capping (GO:0051016)|mitotic nuclear division (GO:0007067)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|nucleus (GO:0005634)	actin filament binding (GO:0051015)|GTP-Rho binding (GO:0017049)|myosin II binding (GO:0045159)|ubiquitin protein ligase binding (GO:0031625)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(3)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	12	Melanoma(58;0.0574)					AGTGCAGCAGCGGGGGCCGCA	0.726													C|||	1686	0.336661	0.1543	0.2867	5008	,	,		13163	0.5863		0.3877	False		,,,				2504	0.3088															0								C		648,3004		99,450,1277	5	7	6		3885	3.6	1	22	dbSNP_86	6	3246,4490		767,1712,1389	no	coding-synonymous	TRIOBP	NM_001039141.2		866,2162,2666	TT,TC,CC		41.9597,17.7437,34.1939		1295/2366	38122448	3894,7494	1826	3868	5694	SO:0001819	synonymous_variant	11078			AB051449	CCDS33644.1, CCDS43015.1, CCDS43016.1	22q13.1	2014-06-03			ENSG00000100106	ENSG00000100106		"Pleckstrin homology (PH) domain containing"	17009	protein-coding gene	gene with protein product		609761		DFNB28		11148140, 16385457, 16385458	Standard	NM_001039141		Approved	HRIHFB2122, KIAA1662, Tara, TAP68	uc003atr.3	Q9H2D6	OTTHUMG00000150657	ENST00000406386.3:c.3885C>T	22.37:g.38122448C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B1AHD4|B1AHD7|F2Z2W0|F8W6V6|O94797|Q2PZW8|Q2Q3Z9|Q2Q400|Q5R3M6|Q96DW1|Q9BT77|Q9BTL7|Q9BY98|Q9Y3L4	Silent	SNP	ENST00000406386.3	37	CCDS43015.1																																																																																				0.726	TRIOBP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000319439.2			T	38122448	C	T	38122448	2	4	686	1	0	0	0	0	0	0	0	1	16565	767	27	1		1	TRIOBP	22	38122448	Silent	SNP	C	TCGA-KO-8416-01A-11D-2310-10		38122448	13182118	69	44480										
CD99	4267	broad.mit.edu	37	chrX	2658825	2658825	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	ctctgtctcccacagttcagCgtactcttttagagaaatag	7	11	4	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chrX:2658825C>T	ENST00000381192.3	+	10	720	c.538C>T	c.(538-540)Cgt>Tgt	p.R180C	CD99_ENST00000381187.3_Missense_Mutation_p.R164C	NM_001277710.1|NM_002414.3	NP_001264639.1|NP_002405.1	P14209	CD99_HUMAN	CD99 molecule	180					cell adhesion (GO:0007155)	cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)				breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(6)|skin(1)	11						CACAGTTCAGCGTACTCTTTT	0.507																																																0													246	235	239					X																	2658825		2203	4296	6499	SO:0001583	missense	4267			M16279	CCDS14119.1, CCDS48071.1, CCDS75947.1	Xp22.32 and Yp11.3	2012-10-02	2006-03-28	2003-02-14	ENSG00000002586	ENSG00000002586		"Pseudoautosomal regions / PAR1", "CD molecules"	7082	protein-coding gene	gene with protein product		313470, 450000	"antigen identified by monoclonal antibodies 12E7, F21 and O13", "CD99 antigen"	MIC2			Standard	NM_001122898		Approved		uc004cqm.3	P14209	OTTHUMG00000021073	ENST00000381192.3:c.538C>T	X.37:g.2658825C>T	ENSP00000370588:p.Arg180Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NIW1|O00518|Q6ICV7	Missense_Mutation	SNP	ENST00000381192.3	37	CCDS14119.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	9.349|9.349	1.065017|1.065017	0.20067|0.20067	.|.	.|.	ENSG00000002586|ENSG00000002586	ENST00000381177|ENST00000381192;ENST00000381187	.|T;T	.|0.32988	.|1.45;1.43	1.06|1.06	0.16|0.16	0.14972|0.14972	.|.	.|0.193478	.|0.31648	.|U	.|0.007288	T|T	0.10208|0.10208	0.0250|0.0250	N|N	0.14661|0.14661	0.345|0.345	0.09310|0.09310	N|N	1|1	.|D;D;D	.|0.63880	.|0.993;0.993;0.993	.|B;B;B	.|0.32928	.|0.155;0.155;0.155	T|T	0.33675|0.33675	-0.9859|-0.9859	6|10	0.87932|0.52906	D|T	0|0.07	.|.	3.1953|3.1953	0.06631|0.06631	0.0:0.6805:0.0:0.3195|0.0:0.6805:0.0:0.3195	.|.	.|164;180;180	.|A6NIW1;B2R932;P14209	.|.;.;CD99_HUMAN	V|C	78|180;164	.|ENSP00000370588:R180C;ENSP00000370582:R164C	ENSP00000370570:A78V|ENSP00000370582:R164C	A|R	+|+	2|1	0|0	CD99|CD99	2668825|2668825	0.043000|0.043000	0.20138|0.20138	0.005000|0.005000	0.12908|0.12908	0.523000|0.523000	0.34469|0.34469	-0.075000|-0.075000	0.11431|0.11431	-0.010000|-0.010000	0.14271|0.14271	0.284000|0.284000	0.19432|0.19432	GCG|CGT		0.507	CD99-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055624.1	NM_001122898		T	2658825	C	T	2658825	3	4	686	1	0	0	0	0	1	0	0	0	3052	768	27	1	576	1	CD99	23	2658825	Missense_Mutation	SNP	C	TCGA-KO-8416-01A-11D-2310-10		2658825	152611735	70	44481										
SHROOM2	357	broad.mit.edu	37	chrX	9900608	9900608	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gtcctcggcaggcccttcccAacgccatcccctgcgtccct	8	21	0	0			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chrX:9900608A>C	ENST00000380913.3	+	6	3375	c.3285A>C	c.(3283-3285)ccA>ccC	p.P1095P	SHROOM2_ENST00000493668.1_3'UTR|SHROOM2_ENST00000418909.2_5'UTR	NM_001649.2	NP_001640.1	Q13796	SHRM2_HUMAN	shroom family member 2	1095					apical protein localization (GO:0045176)|brain development (GO:0007420)|camera-type eye development (GO:0043010)|camera-type eye morphogenesis (GO:0048593)|cell migration (GO:0016477)|cell-cell junction maintenance (GO:0045217)|cellular pigment accumulation (GO:0043482)|ear development (GO:0043583)|establishment of melanosome localization (GO:0032401)|eye pigment granule organization (GO:0008057)|lens morphogenesis in camera-type eye (GO:0002089)|melanosome organization (GO:0032438)|negative regulation of actin filament depolymerization (GO:0030835)|sodium ion transmembrane transport (GO:0035725)	apical plasma membrane (GO:0016324)|cell cortex (GO:0005938)|cell-cell adherens junction (GO:0005913)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|filamentous actin (GO:0031941)|microtubule (GO:0005874)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|beta-catenin binding (GO:0008013)|ligand-gated sodium channel activity (GO:0015280)			breast(4)|central_nervous_system(2)|cervix(3)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(13)|ovary(3)|prostate(3)|skin(6)|upper_aerodigestive_tract(2)	57		Hepatocellular(5;0.000888)				GGCCCTTCCCAACGCCATCCC	0.697																																																0													41	37	39					X																	9900608		2203	4300	6503	SO:0001819	synonymous_variant	357			X83543	CCDS14135.1	Xp22.3	2008-02-05	2006-07-20	2006-07-20	ENSG00000146950	ENSG00000146950			630	protein-coding gene	gene with protein product		300103	"apical protein, Xenopus laevis-like", "apical protein-like (Xenopus laevis)"	APXL		7795590, 16615870	Standard	NM_001649		Approved		uc004csu.1	Q13796	OTTHUMG00000021121	ENST00000380913.3:c.3285A>C	X.37:g.9900608A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B9EIQ7	Silent	SNP	ENST00000380913.3	37	CCDS14135.1																																																																																				0.697	SHROOM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055721.1	NM_001649		C	9900608	A	C	9900608	2	2	686	1	0	0	0	0	0	0	0	1	14307	117	5	5		5	SHROOM2	23	9900608	Silent	SNP	A	TCGA-KO-8416-01A-11D-2310-10	7241783	9900608	145369952	71	44482										
DCAF8L2	347442	mdanderson.org	37	chrX	27765417	27765417	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	1	0	gaagaggaggaggaggaggaGgaggaggaggaggaggagga	26	0	0	1			TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chrX:27765417G>A	ENST00000451261.2	+	5	804	c.405G>A	c.(403-405)gaG>gaA	p.E135E		NM_001136533.1	NP_001130005.1	P0C7V8	DC8L2_HUMAN	DDB1 and CUL4 associated factor 8-like 2	135	Glu-rich.									central_nervous_system(1)|endometrium(9)|kidney(3)|lung(7)|pancreas(1)|skin(3)	24						aggaggaggaggaggaggagg	0.577																																																0													15	14	14					X																	27765417		692	1587	2279	SO:0001819	synonymous_variant	347442				CCDS59162.1	Xp22.11	2013-01-09	2009-07-17	2009-07-17		ENSG00000189186		"WD repeat domain containing"	31811	protein-coding gene	gene with protein product			"WD repeat domain 42C"	WDR42C			Standard	NM_001136533		Approved		uc011mjy.2	P0C7V8		ENST00000451261.2:c.405G>A	X.37:g.27765417G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RXH9|J3KT06	Silent	SNP	ENST00000451261.2	37	CCDS59162.1																																																																																				0.577	DCAF8L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056143.4	XM_293354		A	27765417	G	A	27765417	2	1	686	1	0	0	0	0	0	0	0	1	4280	991	35	2		2	DCAF8L2	23	27765417	Silent	SNP	G	TCGA-KO-8416-01A-11D-2310-10	17864809	27765417	127505143	72	44483										
TAF7L	54457	mdanderson.org	37	chrX	100531437	100531437	+	Silent	SNP	C	C	T													0	0	1	0	0	0	1	1	0	tcctcatcctcatcctcatcCtcatcttcatcatcctcatc							TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chrX:100531437C>T	ENST00000372907.3	-	10	1040	c.1029G>A	c.(1027-1029)gaG>gaA	p.E343E	TAF7L_ENST00000356784.1_Silent_p.E257E|TAF7L_ENST00000372905.2_Intron|TAF7L_ENST00000324762.6_Intron	NM_024885.3	NP_079161.3	Q5H9L4	TAF7L_HUMAN	TAF7-like RNA polymerase II, TATA box binding protein (TBP)-associated factor, 50kDa	343	Glu-rich.				cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|spermatogenesis (GO:0007283)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cytoplasm (GO:0005737)|transcription factor TFIID complex (GO:0005669)				NS(1)|breast(4)|kidney(4)|large_intestine(4)|lung(7)|ovary(1)|pancreas(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	29						catcctcatcctcatcttcat	0.413																																					Ovarian(104;431 1530 3210 15406 18594)											0													210	163	179					X																	100531437		2203	4300	6503	SO:0001819	synonymous_variant	54457			AF285595	CCDS35347.1, CCDS55466.1	Xq22.1	2009-03-25	2002-08-29	2001-12-07	ENSG00000102387	ENSG00000102387			11548	protein-coding gene	gene with protein product	"cancer/testis antigen 40"	300314	"TATA box binding protein (TBP)-associated factor, RNA polymerase II, Q"	TAF2Q		11279525	Standard	NM_024885		Approved	CT40	uc004ehb.3	Q5H9L4	OTTHUMG00000022021	ENST00000372907.3:c.1029G>A	X.37:g.100531437C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5H9L6|Q86XI4|Q9BXU5|Q9H5R0	Silent	SNP	ENST00000372907.3	37	CCDS35347.1																																																																																				0.413	TAF7L-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000057526.2			T	100531437	C	T	100531437	2	4	686	1	0	0	0	0	0	0	0	1	15545	680	24	2		2	TAF7L	23	100531437	Silent	SNP	C	TCGA-KO-8416-01A-11D-2310-10	72766020	100531437	54739123	73	44484	473	3								
TAF7L	54457	mdanderson.org	37	chrX	100531443	100531443	+	Missense_Mutation	SNP	T	T	A													0	0	1	0	0	0	1	1	0	tcctcatcctcatcctcatcTtcatcatcctcatcctcatc					rs201479972		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chrX:100531443T>A	ENST00000372907.3	-	10	1034	c.1023A>T	c.(1021-1023)gaA>gaT	p.E341D	TAF7L_ENST00000356784.1_Missense_Mutation_p.E255D|TAF7L_ENST00000372905.2_Intron|TAF7L_ENST00000324762.6_Intron	NM_024885.3	NP_079161.3	Q5H9L4	TAF7L_HUMAN	TAF7-like RNA polymerase II, TATA box binding protein (TBP)-associated factor, 50kDa	341	Glu-rich.				cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|spermatogenesis (GO:0007283)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cytoplasm (GO:0005737)|transcription factor TFIID complex (GO:0005669)				NS(1)|breast(4)|kidney(4)|large_intestine(4)|lung(7)|ovary(1)|pancreas(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	29						catcctcatcttcatcatcct	0.423																																					Ovarian(104;431 1530 3210 15406 18594)											0													214	170	185					X																	100531443		2203	4300	6503	SO:0001583	missense	54457			AF285595	CCDS35347.1, CCDS55466.1	Xq22.1	2009-03-25	2002-08-29	2001-12-07	ENSG00000102387	ENSG00000102387			11548	protein-coding gene	gene with protein product	"cancer/testis antigen 40"	300314	"TATA box binding protein (TBP)-associated factor, RNA polymerase II, Q"	TAF2Q		11279525	Standard	NM_024885		Approved	CT40	uc004ehb.3	Q5H9L4	OTTHUMG00000022021	ENST00000372907.3:c.1023A>T	X.37:g.100531443T>A	ENSP00000361998:p.Glu341Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5H9L6|Q86XI4|Q9BXU5|Q9H5R0	Missense_Mutation	SNP	ENST00000372907.3	37	CCDS35347.1	.	.	.	.	.	.	.	.	.	.	t	3.169	-0.170386	0.06461	.	.	ENSG00000102387	ENST00000372907;ENST00000356784	T;T	0.04194	3.68;5.26	4.65	-9.3	0.00649	Armadillo-like helical (1);	0.509071	0.14654	N	0.306382	T	0.00906	0.0030	N	0.00926	-1.1	0.09310	N	1	B	0.12013	0.005	B	0.09377	0.004	T	0.34254	-0.9836	10	0.13853	T	0.58	0.4824	1.2941	0.02066	0.3347:0.1119:0.1394:0.414	.	341	Q5H9L4	TAF7L_HUMAN	D	341;255	ENSP00000361998:E341D;ENSP00000349235:E255D	ENSP00000349235:E255D	E	-	3	2	TAF7L	100418099	0.000000	0.05858	0.000000	0.03702	0.006000	0.05464	-2.944000	0.00681	-2.253000	0.00698	-1.727000	0.00703	GAA		0.423	TAF7L-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000057526.2			A	100531443	T	A	100531443	3	1	686	1	0	0	0	0	1	0	0	0	15545	1606	56	5	381	5	TAF7L	23	100531443	Missense_Mutation	SNP	T	TCGA-KO-8416-01A-11D-2310-10	6	100531443	54739117	74	44485	473	3								
TAF7L	54457	mdanderson.org	37	chrX	100531446	100531446	+	Missense_Mutation	SNP	A	A	C													0	0	1	0	0	0	1	1	0	tcatcctcatcctcatcttcAtcatcctcatcctcatcatc					rs200145772		TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chrX:100531446A>C	ENST00000372907.3	-	10	1031	c.1020T>G	c.(1018-1020)gaT>gaG	p.D340E	TAF7L_ENST00000356784.1_Missense_Mutation_p.D254E|TAF7L_ENST00000372905.2_Intron|TAF7L_ENST00000324762.6_Intron	NM_024885.3	NP_079161.3	Q5H9L4	TAF7L_HUMAN	TAF7-like RNA polymerase II, TATA box binding protein (TBP)-associated factor, 50kDa	340	Glu-rich.				cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|spermatogenesis (GO:0007283)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cytoplasm (GO:0005737)|transcription factor TFIID complex (GO:0005669)				NS(1)|breast(4)|kidney(4)|large_intestine(4)|lung(7)|ovary(1)|pancreas(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	29						cctcatcttcatcatcctcat	0.423																																					Ovarian(104;431 1530 3210 15406 18594)											0													216	172	187					X																	100531446		2203	4300	6503	SO:0001583	missense	54457			AF285595	CCDS35347.1, CCDS55466.1	Xq22.1	2009-03-25	2002-08-29	2001-12-07	ENSG00000102387	ENSG00000102387			11548	protein-coding gene	gene with protein product	"cancer/testis antigen 40"	300314	"TATA box binding protein (TBP)-associated factor, RNA polymerase II, Q"	TAF2Q		11279525	Standard	NM_024885		Approved	CT40	uc004ehb.3	Q5H9L4	OTTHUMG00000022021	ENST00000372907.3:c.1020T>G	X.37:g.100531446A>C	ENSP00000361998:p.Asp340Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5H9L6|Q86XI4|Q9BXU5|Q9H5R0	Missense_Mutation	SNP	ENST00000372907.3	37	CCDS35347.1	.	.	.	.	.	.	.	.	.	.	a	1.221	-0.626850	0.03610	.	.	ENSG00000102387	ENST00000372907;ENST00000356784	T;T	0.20463	3.75;2.07	4.65	-8.53	0.00916	Armadillo-like helical (1);	1.425020	0.05265	N	0.516431	T	0.05318	0.0141	N	0.03115	-0.41	0.09310	N	1	B	0.02656	0.0	B	0.06405	0.002	T	0.27938	-1.0059	10	0.02654	T	1	0.0484	3.5395	0.07806	0.2328:0.4402:0.222:0.105	.	340	Q5H9L4	TAF7L_HUMAN	E	340;254	ENSP00000361998:D340E;ENSP00000349235:D254E	ENSP00000349235:D254E	D	-	3	2	TAF7L	100418102	0.000000	0.05858	0.000000	0.03702	0.014000	0.08584	-2.122000	0.01321	-1.525000	0.01762	-0.457000	0.05445	GAT		0.423	TAF7L-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000057526.2			C	100531446	A	C	100531446	3	2	686	1	0	0	0	0	1	0	0	0	15545	214	8	5	384	5	TAF7L	23	100531446	Missense_Mutation	SNP	A	TCGA-KO-8416-01A-11D-2310-10	3	100531446	54739114	75	44486	473	3								
SLC6A14	11254	hgsc.bcm.edu	37	chrX	115572265	115572265	+	Splice_Site	DEL	G	G	-													0	0	1	0	0	0	1	1	0	ggattcttccattgtttcaaGgttggtattaaagcgttttc							TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chrX:115572265delG	ENST00000371900.4	+	3	434	c.346delG	c.(346-348)ggt>gt	p.G116fs		NM_007231.3	NP_009162.1	Q9UN76	S6A14_HUMAN	solute carrier family 6 (amino acid transporter), member 14	116					amino acid transmembrane transport (GO:0003333)|amino acid transport (GO:0006865)|cellular amino acid metabolic process (GO:0006520)|ion transport (GO:0006811)|response to toxic substance (GO:0009636)|transmembrane transport (GO:0055085)|transport (GO:0006810)	brush border membrane (GO:0031526)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	amino acid transmembrane transporter activity (GO:0015171)|neurotransmitter:sodium symporter activity (GO:0005328)			breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(8)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(1)	23					L-Proline(DB00172)|Valaciclovir(DB00577)|Valganciclovir(DB01610)	ATTGTTTCAAGGTTGGTATTA	0.373																																																0													222	206	212					X																	115572265		2203	4300	6503	SO:0001630	splice_region_variant	11254			AF151978	CCDS14570.1	Xq23	2013-05-22			ENSG00000087916	ENSG00000268104		"Solute carriers"	11047	protein-coding gene	gene with protein product		300444	"solute carrier family 6 (neurotransmitter transporter), member 14"			10446133	Standard	NM_007231		Approved		uc004eqi.3	Q9UN76	OTTHUMG00000022245	ENST00000371900.4:c.346+1G>-	X.37:g.115572265delG		Somatic		WXS	Illumina HiSeq	Phase_I	Q5H942	Frame_Shift_Del	DEL	ENST00000371900.4	37	CCDS14570.1																																																																																				0.373	SLC6A14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057986.1		Frame_Shift_Del	-	115572265	G	-	115572265	8	5	686	1	0	1	0	1	0	0	1	0	14690	1014	35	0	356	0	SLC6A14	23	115572265	Splice_Site	DEL	G	TCGA-KO-8416-01A-11D-2310-10	15040819	115572265	39698295	76	44487	474	2								
SLC6A14	11254	bcgsc.ca	37	chrX	115572266	115572266	+	Splice_Site	DEL	G	G	-													0	0	1	0	0	0	1	1	0	gattcttccattgtttcaagGttggtattaaagcgttttct							TCGA-KO-8416-01A-11D-2310-10	TCGA-KO-8416-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	9d29543e-8601-4fd0-8e76-3df3de465cab	539a0194-ea33-4213-b815-b8dbbc07a276	g.chrX:115572266delG	ENST00000371900.4	+	3	434		c.e3+1			NM_007231.3	NP_009162.1	Q9UN76	S6A14_HUMAN	solute carrier family 6 (amino acid transporter), member 14						amino acid transmembrane transport (GO:0003333)|amino acid transport (GO:0006865)|cellular amino acid metabolic process (GO:0006520)|ion transport (GO:0006811)|response to toxic substance (GO:0009636)|transmembrane transport (GO:0055085)|transport (GO:0006810)	brush border membrane (GO:0031526)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	amino acid transmembrane transporter activity (GO:0015171)|neurotransmitter:sodium symporter activity (GO:0005328)			breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(8)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(1)	23					L-Proline(DB00172)|Valaciclovir(DB00577)|Valganciclovir(DB01610)	TTGTTTCAAGGTTGGTATTAA	0.373																																																0													220	204	209					X																	115572266		2203	4300	6503	SO:0001630	splice_region_variant	11254			AF151978	CCDS14570.1	Xq23	2013-05-22			ENSG00000087916	ENSG00000268104		"Solute carriers"	11047	protein-coding gene	gene with protein product		300444	"solute carrier family 6 (neurotransmitter transporter), member 14"			10446133	Standard	NM_007231		Approved		uc004eqi.3	Q9UN76	OTTHUMG00000022245	ENST00000371900.4:c.346+1G>-	X.37:g.115572266delG		Somatic		WXS	Illumina HiSeq	Phase_I	Q5H942	Splice_Site	DEL	ENST00000371900.4	37	CCDS14570.1																																																																																				0.373	SLC6A14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057986.1		Intron	-	115572266	G	-	115572266	8	5	686	1	0	1	0	1	0	0	1	0	14690	1275	44	0	357	0	SLC6A14	23	115572266	Splice_Site	DEL	G	TCGA-KO-8416-01A-11D-2310-10	1	115572266	39698294	77	44488	474	2								
NOC2L	26155	ucsc.edu	37	chr1	880468	880468	+	Silent	SNP	C	C	T													0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ctgctgtcctcctcgccctcCtcctcgtcctcttcatcgtc					rs368313199|rs372255682	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr1:880468C>T	ENST00000327044.6	-	18	2161	c.2112G>A	c.(2110-2112)gaG>gaA	p.E704E		NM_015658.3	NP_056473	Q9Y3T9	NOC2L_HUMAN	nucleolar complex associated 2 homolog (S. cerevisiae)	704	Asp/Glu-rich (acidic).				apoptotic process (GO:0006915)|cellular response to UV (GO:0034644)|chromatin assembly (GO:0031497)|negative regulation of B cell apoptotic process (GO:0002903)|negative regulation of histone acetylation (GO:0035067)|negative regulation of intrinsic apoptotic signaling pathway (GO:2001243)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nucleolus to nucleoplasm transport (GO:0032066)|transcription, DNA-templated (GO:0006351)	nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|histone binding (GO:0042393)|nucleosome binding (GO:0031491)|poly(A) RNA binding (GO:0044822)|repressing transcription factor binding (GO:0070491)|transcription corepressor activity (GO:0003714)			endometrium(2)|kidney(1)|large_intestine(2)|lung(6)|ovary(2)|skin(2)|urinary_tract(1)	16	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)		cctcgccctcctcctcgtcct	0.622																																																0													124	115	118					1																	880468		2203	4300	6503	SO:0001819	synonymous_variant	26155			AL050019	CCDS3.1	1p36.33	2014-06-12			ENSG00000188976	ENSG00000188976			24517	protein-coding gene	gene with protein product	"novel INHAT repressor", "protein phosphatase 1, regulatory subunit 12"	610770					Standard	NM_015658		Approved	DKFZP564C186, NET7, NET15, NIR, PPP1R112	uc001abz.4	Q9Y3T9	OTTHUMG00000040720	ENST00000327044.6:c.2112G>A	1.37:g.880468C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SVA3|Q9BTN6	Silent	SNP	ENST00000327044.6	37	CCDS3.1																																																																																				0.622	NOC2L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097869.1	NM_015658		T	880468	C	T	880468	2	4	687	1	0	0	0	0	0	0	0	1	10520	680	24	2		2	NOC2L	1	880468	Silent	SNP	C	TCGA-KO-8417-01A-11D-2310-10		880468	248370153	1	44489	475	2								
NOC2L	26155	ucsc.edu	37	chr1	880475	880475	+	Missense_Mutation	SNP	T	T	C													0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	cctcctcgccctcctcctcgTcctcttcatcgtcttccacc					rs368313199|rs372255682	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr1:880475T>C	ENST00000327044.6	-	18	2154	c.2105A>G	c.(2104-2106)gAc>gGc	p.D702G		NM_015658.3	NP_056473	Q9Y3T9	NOC2L_HUMAN	nucleolar complex associated 2 homolog (S. cerevisiae)	702	Asp/Glu-rich (acidic).				apoptotic process (GO:0006915)|cellular response to UV (GO:0034644)|chromatin assembly (GO:0031497)|negative regulation of B cell apoptotic process (GO:0002903)|negative regulation of histone acetylation (GO:0035067)|negative regulation of intrinsic apoptotic signaling pathway (GO:2001243)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nucleolus to nucleoplasm transport (GO:0032066)|transcription, DNA-templated (GO:0006351)	nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|histone binding (GO:0042393)|nucleosome binding (GO:0031491)|poly(A) RNA binding (GO:0044822)|repressing transcription factor binding (GO:0070491)|transcription corepressor activity (GO:0003714)			endometrium(2)|kidney(1)|large_intestine(2)|lung(6)|ovary(2)|skin(2)|urinary_tract(1)	16	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)		ctcctcctcgtcctcttcatc	0.622																																																0																																										SO:0001583	missense	26155			AL050019	CCDS3.1	1p36.33	2014-06-12			ENSG00000188976	ENSG00000188976			24517	protein-coding gene	gene with protein product	"novel INHAT repressor", "protein phosphatase 1, regulatory subunit 12"	610770					Standard	NM_015658		Approved	DKFZP564C186, NET7, NET15, NIR, PPP1R112	uc001abz.4	Q9Y3T9	OTTHUMG00000040720	ENST00000327044.6:c.2105A>G	1.37:g.880475T>C	ENSP00000317992:p.Asp702Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SVA3|Q9BTN6	Missense_Mutation	SNP	ENST00000327044.6	37	CCDS3.1	.	.	.	.	.	.	.	.	.	.	T	10.22	1.289827	0.23478	.	.	ENSG00000188976	ENST00000327044	T	0.26810	1.71	3.68	-0.445	0.12242	Armadillo-type fold (1);	2.008120	0.02105	N	0.054339	T	0.18425	0.0442	L	0.29908	0.895	0.09310	N	1	B;B;B	0.19583	0.037;0.037;0.001	B;B;B	0.20767	0.031;0.031;0.002	T	0.14727	-1.0462	10	0.25751	T	0.34	0.5989	4.3641	0.11216	0.0:0.212:0.1769:0.6111	.	702;702;469	B3KNC3;Q9Y3T9;Q9H9J5	.;NOC2L_HUMAN;.	G	702	ENSP00000317992:D702G	ENSP00000317992:D702G	D	-	2	0	NOC2L	870338	0.000000	0.05858	0.001000	0.08648	0.001000	0.01503	-0.335000	0.07873	0.046000	0.15833	-0.796000	0.03273	GAC		0.622	NOC2L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097869.1	NM_015658		C	880475	T	C	880475	3	2	687	1	0	0	0	0	1	0	0	0	10520	1667	58	3	152	3	NOC2L	1	880475	Missense_Mutation	SNP	T	TCGA-KO-8417-01A-11D-2310-10	7	880475	248370146	2	44490	475	2								
AJAP1	55966	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr1	4772576	4772576	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tacaaacacggaagacaactGtggccgccaccaccaccacc	7	17	0	1			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr1:4772576G>C	ENST00000378191.4	+	2	1027	c.646G>C	c.(646-648)Gtg>Ctg	p.V216L	AJAP1_ENST00000378190.3_Missense_Mutation_p.V216L	NM_018836.3	NP_061324.1	Q9UKB5	AJAP1_HUMAN	adherens junctions associated protein 1	216	Thr-rich.				cell adhesion (GO:0007155)	cell junction (GO:0030054)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				endometrium(4)|large_intestine(6)|lung(11)|ovary(1)|prostate(1)|urinary_tract(1)	24	all_cancers(77;0.071)|Ovarian(185;0.0721)	all_cancers(23;1.77e-36)|all_epithelial(116;1.26e-21)|all_lung(118;3.51e-08)|Lung NSC(185;3.47e-06)|all_neural(13;8.84e-06)|all_hematologic(16;7.61e-05)|Breast(487;0.000507)|Renal(390;0.0007)|Colorectal(325;0.00117)|Hepatocellular(190;0.0071)|Glioma(11;0.0155)|Myeloproliferative disorder(586;0.0258)|Ovarian(437;0.0409)|Lung SC(97;0.133)|Medulloblastoma(700;0.215)		Epithelial(90;3.89e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.97e-19)|GBM - Glioblastoma multiforme(42;3.71e-19)|Colorectal(212;4.57e-06)|COAD - Colon adenocarcinoma(227;0.00019)|Kidney(185;0.000969)|BRCA - Breast invasive adenocarcinoma(365;0.00122)|STAD - Stomach adenocarcinoma(132;0.00578)|KIRC - Kidney renal clear cell carcinoma(229;0.0126)|READ - Rectum adenocarcinoma(331;0.0689)		GAAGACAACTGTGGccgccac	0.647																																																0													32	31	31					1																	4772576		2203	4299	6502	SO:0001583	missense	55966			AF175409	CCDS54.1	1p36.32	2008-02-05	2008-01-08		ENSG00000196581	ENSG00000196581			30801	protein-coding gene	gene with protein product	"transmembrane protein SHREW1"	610972				14595118	Standard	NM_001042478		Approved	SHREW1, SHREW-1, MOT8	uc001aln.3	Q9UKB5	OTTHUMG00000000645	ENST00000378191.4:c.646G>C	1.37:g.4772576G>C	ENSP00000367433:p.Val216Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9Y229	Missense_Mutation	SNP	ENST00000378191.4	37	CCDS54.1	.	.	.	.	.	.	.	.	.	.	G	11.07	1.530294	0.27387	.	.	ENSG00000196581	ENST00000378190;ENST00000378191	T;T	0.45276	0.9;0.9	5.35	4.42	0.53409	.	0.500610	0.18335	N	0.144364	T	0.28001	0.0690	N	0.17082	0.46	0.28859	N	0.895599	B	0.28291	0.206	B	0.31101	0.124	T	0.16630	-1.0396	10	0.25106	T	0.35	-5.2669	11.9527	0.52964	0.0:0.1754:0.8246:0.0	.	216	Q9UKB5	AJAP1_HUMAN	L	216	ENSP00000367432:V216L;ENSP00000367433:V216L	ENSP00000367432:V216L	V	+	1	0	AJAP1	4672436	0.928000	0.31464	0.027000	0.17364	0.774000	0.43823	1.764000	0.38471	1.218000	0.43458	0.467000	0.42956	GTG		0.647	AJAP1-001	KNOWN	NMD_exception|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000001542.3	NM_018836		C	4772576	G	C	4772576	3	2	687	1	0	0	0	0	1	0	0	0	438	1377	48	4	652	4	AJAP1	1	4772576	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	3892101	4772576	244478045	3	44491										
TRIM63	84676	mdanderson.org;bcgsc.ca	37	chr1	26385003	26385003	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ctcgatgaagctaagcttttTctcctgctcctgcgtgatcc	8	13	1	2	rs2275950	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr1:26385003T>C	ENST00000374272.3	-	5	847	c.709A>G	c.(709-711)Aaa>Gaa	p.K237E	TRIM63_ENST00000483052.1_5'Flank	NM_032588.3	NP_115977.2	Q969Q1	TRI63_HUMAN	tripartite motif containing 63, E3 ubiquitin protein ligase	237			K -> E (in dbSNP:rs2275950). {ECO:0000269|PubMed:11243782, ECO:0000269|PubMed:15489334}.		cellular response to dexamethasone stimulus (GO:0071549)|muscle contraction (GO:0006936)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|regulation of gene expression (GO:0010468)|response to electrical stimulus involved in regulation of muscle adaptation (GO:0014878)|response to interleukin-1 (GO:0070555)|signal transduction (GO:0007165)|skeletal muscle atrophy (GO:0014732)	contractile fiber (GO:0043292)|cytoplasm (GO:0005737)|microtubule (GO:0005874)|nucleus (GO:0005634)	ligase activity (GO:0016874)|signal transducer activity (GO:0004871)|titin binding (GO:0031432)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)	p.K237E(1)		kidney(1)|large_intestine(1)|ovary(1)|skin(1)|stomach(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;0.000154)|all_lung(284;0.00021)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0133)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;9.15e-26)|Colorectal(126;3.16e-08)|COAD - Colon adenocarcinoma(152;1.72e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000767)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		CTAAGCTTTTTCTCCTGCTCC	0.537													C|||	913	0.182308	0.267	0.1239	5008	,	,		20137	0.1706		0.2187	False		,,,				2504	0.0838															1	Substitution - Missense(1)	stomach(1)						C	GLU/LYS	1195,3211	710.2+/-407.8	175,845,1183	177	161	166		709	5.5	1	1	dbSNP_100	166	1862,6738	729.6+/-406.7	197,1468,2635	yes	missense	TRIM63	NM_032588.2	56	372,2313,3818	CC,CT,TT		21.6512,27.1221,23.5045	benign	237/354	26385003	3057,9949	2203	4300	6503	SO:0001583	missense	84676			AF353673	CCDS273.1	1p34-p33	2014-09-17	2012-02-23	2004-11-17	ENSG00000158022	ENSG00000158022		"RING-type (C3HC4) zinc fingers", "Tripartite motif containing / Tripartite motif containing"	16007	protein-coding gene	gene with protein product	"muscle-specific RING finger protein 1", "iris ring finger protein", "striated muscle RING zinc finger protein"	606131	"ring finger protein 28", "tripartite motif-containing 63", "tripartite motif containing 63"	RNF28		11243782, 11283016	Standard	NM_032588		Approved	MURF-1, IRF, SMRZ	uc001bli.2	Q969Q1	OTTHUMG00000007510	ENST00000374272.3:c.709A>G	1.37:g.26385003T>C	ENSP00000363390:p.Lys237Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DN95|Q5T2I1|Q96BD3|Q96KD9|Q9BYV4	Missense_Mutation	SNP	ENST00000374272.3	37	CCDS273.1	434	0.1987179487179487	127	0.258130081300813	43	0.11878453038674033	100	0.17482517482517482	164	0.21635883905013192	C	7.836	0.720876	0.15372	0.271221	0.216512	ENSG00000158022	ENST00000374272	T	0.40756	1.02	5.5	5.5	0.81552	.	0.198167	0.52532	N	0.000069	T	0.00012	0.0000	N	0.00043	-2.47	0.48830	P	2.889999999999837E-4	B	0.02656	0.0	B	0.01281	0.0	T	0.33954	-0.9848	9	0.02654	T	1	.	14.2207	0.65826	0.0:0.9273:0.0:0.0727	rs2275950;rs52817885;rs60345068;rs2275950	237	Q969Q1	TRI63_HUMAN	E	237	ENSP00000363390:K237E	ENSP00000363390:K237E	K	-	1	0	TRIM63	26257590	0.957000	0.32711	1.000000	0.80357	0.788000	0.44548	2.222000	0.42926	1.336000	0.45506	-0.215000	0.12644	AAA		0.537	TRIM63-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019750.1	NM_032588		C	26385003	T	C	26385003	3	2	687	1	0	0	0	0	1	0	0	0	16550	1792	62	3	372	3	TRIM63	1	26385003	Missense_Mutation	SNP	T	TCGA-KO-8417-01A-11D-2310-10	21612427	26385003	222865618	4	44492										
HCRTR1	3061	ucsc.edu;bcgsc.ca	37	chr1	32084861	32084861	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	cagcagagagccgtcccctgTgcctccagactatgaagatg	11	13	0	4	rs11806980	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr1:32084861T>C	ENST00000373706.5	+	1	221	c.68T>C	c.(67-69)gTg>gCg	p.V23A	HCRTR1_ENST00000373705.1_Missense_Mutation_p.V23A|HCRTR1_ENST00000403528.2_Missense_Mutation_p.V23A|HCRTR1_ENST00000468521.1_3'UTR			O43613	OX1R_HUMAN	hypocretin (orexin) receptor 1	23					feeding behavior (GO:0007631)|neuropeptide signaling pathway (GO:0007218)|synaptic transmission (GO:0007268)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|orexin receptor activity (GO:0016499)|peptide hormone binding (GO:0017046)			breast(2)|large_intestine(1)|lung(2)|ovary(1)|prostate(1)	7		Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.053)		CCGTCCCCTGTGCCTCCAGAC	0.612													T|||	204	0.0407348	0.1437	0.0187	5008	,	,		19073	0.0		0.001	False		,,,				2504	0.0															0								T	ALA/VAL	551,3855	250.9+/-257.8	35,481,1687	98	101	100		68	-2.6	0.1	1	dbSNP_120	100	3,8597	3.0+/-9.4	0,3,4297	yes	missense	HCRTR1	NM_001525.2	64	35,484,5984	CC,CT,TT		0.0349,12.5057,4.2596	benign	23/426	32084861	554,12452	2203	4300	6503	SO:0001583	missense	3061			AF041243	CCDS344.1	1p33	2012-08-08			ENSG00000121764	ENSG00000121764		"GPCR / Class A : Hypocretin (orexin) receptors"	4848	protein-coding gene	gene with protein product		602392				9491897	Standard	NM_001525		Approved	OX1R	uc009vtx.2	O43613	OTTHUMG00000003876	ENST00000373706.5:c.68T>C	1.37:g.32084861T>C	ENSP00000362810:p.Val23Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3A6|Q9HBV6	Missense_Mutation	SNP	ENST00000373706.5	37	CCDS344.1	73	0.033424908424908424	67	0.13617886178861788	5	0.013812154696132596	0	0.0	1	0.0013192612137203166	T	0.130	-1.115174	0.01799	0.125057	3.49E-4	ENSG00000121764	ENST00000403528;ENST00000373706;ENST00000373705	T;T;T	0.59638	0.25;0.25;0.47	3.91	-2.64	0.06114	.	1.606490	0.03596	N	0.232667	T	0.00210	0.0006	N	0.08118	0	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.02925	-1.1093	10	0.08837	T	0.75	.	0.8658	0.01203	0.1644:0.3194:0.1983:0.3179	rs11806980	23;23	A6NMV7;O43613	.;OX1R_HUMAN	A	23	ENSP00000384387:V23A;ENSP00000362810:V23A;ENSP00000362809:V23A	ENSP00000362809:V23A	V	+	2	0	HCRTR1	31857448	0.000000	0.05858	0.095000	0.20976	0.693000	0.40251	-0.247000	0.08866	-0.443000	0.07180	0.533000	0.62120	GTG		0.612	HCRTR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000011042.1	NM_001525		C	32084861	T	C	32084861	3	2	687	1	0	0	0	0	1	0	0	0	7008	1696	59	3	70	3	HCRTR1	1	32084861	Missense_Mutation	SNP	T	TCGA-KO-8417-01A-11D-2310-10	5699858	32084861	217165760	5	44493										
GJB5	2709	broad.mit.edu	37	chr1	35223027	35223027	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tctctggtcttcatcttccgCgtgctggtgtacctggtgac	11	12	4	1	rs61750010	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr1:35223027C>T	ENST00000338513.1	+	2	269	c.96C>T	c.(94-96)cgC>cgT	p.R32R	GJB4_ENST00000339480.1_5'Flank	NM_005268.3	NP_005259.1	O95377	CXB5_HUMAN	gap junction protein, beta 5, 31.1kDa	32					cell communication (GO:0007154)|epidermis development (GO:0008544)|labyrinthine layer morphogenesis (GO:0060713)|spongiotrophoblast differentiation (GO:0060708)	connexon complex (GO:0005922)|integral component of membrane (GO:0016021)				endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|ovary(1)|skin(1)|stomach(1)	10		Myeloproliferative disorder(586;0.0393)				TCATCTTCCGCGTGCTGGTGT	0.572													C|||	15	0.00299521	0.0106	0.0014	5008	,	,		19499	0.0		0.0	False		,,,				2504	0.0															0								C		70,4336	64.1+/-101.4	0,70,2133	115	104	108		96	-11.3	0.1	1	dbSNP_129	108	0,8600		0,0,4300	no	coding-synonymous	GJB5	NM_005268.2		0,70,6433	TT,TC,CC		0.0,1.5887,0.5382		32/274	35223027	70,12936	2203	4300	6503	SO:0001819	synonymous_variant	2709			BC004379	CCDS382.1	1p34.3	2008-05-14	2007-11-06		ENSG00000189280	ENSG00000189280		"Ion channels / Gap junction proteins (connexins)"	4287	protein-coding gene	gene with protein product	"connexin 31.1"	604493	"gap junction protein, beta 5 (connexin 31.1)", "gap junction protein, beta 5"			9843209	Standard	NM_005268		Approved	CX31.1	uc001bxu.4	O95377	OTTHUMG00000004053	ENST00000338513.1:c.96C>T	1.37:g.35223027C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UPA3	Silent	SNP	ENST00000338513.1	37	CCDS382.1																																																																																				0.572	GJB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000011561.1	NM_005268		T	35223027	C	T	35223027	2	4	687	1	0	0	0	0	0	0	0	1	6418	755	27	1		1	GJB5	1	35223027	Silent	SNP	C	TCGA-KO-8417-01A-11D-2310-10	3138166	35223027	214027594	6	44494										
FHL3	2275	broad.mit.edu	37	chr1	38463083	38463083	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ccaggagccctggcttagggCcctgcctggctacagccctg	13	16	0	0			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr1:38463083C>A	ENST00000373016.3	-	6	1005	c.837G>T	c.(835-837)ggG>ggT	p.G279G	FHL3_ENST00000485803.1_5'UTR	NM_001243878.1|NM_004468.4	NP_001230807.1|NP_004459.2	Q13643	FHL3_HUMAN	four and a half LIM domains 3	279					actin cytoskeleton organization (GO:0030036)|muscle organ development (GO:0007517)	focal adhesion (GO:0005925)|nucleus (GO:0005634)|stress fiber (GO:0001725)|Z disc (GO:0030018)	zinc ion binding (GO:0008270)			endometrium(1)|kidney(1)|large_intestine(1)|lung(2)	5	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TGGCTTAGGGCCCTGCCTGGC	0.642																																																0													56	61	59					1																	38463083		2203	4300	6503	SO:0001819	synonymous_variant	2275			BC011697	CCDS30678.1	1p34.3	2008-02-05			ENSG00000183386	ENSG00000183386			3704	protein-coding gene	gene with protein product		602790				8753811, 10226657	Standard	NM_004468		Approved	SLIM2	uc001cck.3	Q13643	OTTHUMG00000004434	ENST00000373016.3:c.837G>T	1.37:g.38463083C>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DPT6|Q6I9T0|Q9BVA2	Silent	SNP	ENST00000373016.3	37	CCDS30678.1																																																																																				0.642	FHL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012958.1	NM_004468		A	38463083	C	A	38463083	2	1	687	1	0	0	0	0	0	0	0	1	5887	726	26	4		4	FHL3	1	38463083	Silent	SNP	C	TCGA-KO-8417-01A-11D-2310-10	3240056	38463083	210787538	7	44495										
ANP32E	81611	ucsc.edu;mdanderson.org	37	chr1	150199042	150199042	+	Missense_Mutation	SNP	C	C	A													0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tcatcctcatcctcatcctcCtcttcctcttcctcctcctc					rs56692627|rs28594165|rs68136184	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr1:150199042C>A	ENST00000314136.8	-	5	948	c.579G>T	c.(577-579)gaG>gaT	p.E193D	ANP32E_ENST00000369115.2_Missense_Mutation_p.E61D|ANP32E_ENST00000436748.2_Missense_Mutation_p.E152D|ANP32E_ENST00000369114.5_Intron|ANP32E_ENST00000369116.4_Missense_Mutation_p.E61D|ANP32E_ENST00000533654.1_Missense_Mutation_p.R138M|ANP32E_ENST00000369119.3_Missense_Mutation_p.E145D	NM_001136478.2|NM_001280559.1|NM_030920.3	NP_001129950.1|NP_001267488.1|NP_112182.1	Q9BTT0	AN32E_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32 family, member E	193	Asp/Glu-rich (highly acidic).				histone exchange (GO:0043486)|negative regulation of catalytic activity (GO:0043086)	cytoplasmic membrane-bounded vesicle (GO:0016023)|nucleus (GO:0005634)|Swr1 complex (GO:0000812)	histone binding (GO:0042393)|phosphatase inhibitor activity (GO:0019212)			breast(3)|endometrium(3)|lung(7)|skin(1)|urinary_tract(1)	15	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			cctcatcctcctcttcctctt	0.443																																																0													236	194	208					1																	150199042		2203	4300	6503	SO:0001583	missense	81611			AK092672	CCDS946.1, CCDS44214.1, CCDS44215.1, CCDS60245.1	1q22	2008-02-05			ENSG00000143401	ENSG00000143401		"ANP32 acidic nuclear phosphoproteins"	16673	protein-coding gene	gene with protein product		609611				12438741	Standard	NM_030920		Approved	LANPL, MGC5350, LANP-L	uc001etw.3	Q9BTT0	OTTHUMG00000012547	ENST00000314136.8:c.579G>T	1.37:g.150199042C>A	ENSP00000324074:p.Glu193Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B4E0I6|E9PEA6|Q5TB18|Q5TB20|Q8N1S4|Q8WWW9	Missense_Mutation	SNP	ENST00000314136.8	37	CCDS946.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	0.397|0.397	-0.920493|-0.920493	0.02396|0.02396	.|.	.|.	ENSG00000143401|ENSG00000143401	ENST00000314136;ENST00000369119;ENST00000369116;ENST00000436748;ENST00000534437;ENST00000369115;ENST00000534220|ENST00000533654	T;T;T|T	0.00351|0.00342	7.97;7.97;7.97|8.03	3.62|3.62	-7.24|-7.24	0.01475|0.01475	.|.	.|.	.|.	.|.	.|.	T|T	0.00039|0.00039	0.0001|0.0001	N|N	0.14661|0.14661	0.345|0.345	0.09310|0.09310	N|N	1|1	B;B;B|B	0.02656|0.02656	0.0;0.0;0.0|0.0	B;B;B|B	0.04013|0.01281	0.001;0.0;0.0|0.0	T|T	0.45877|0.45877	-0.9231|-0.9231	9|9	0.11485|0.62326	T|D	0.65|0.03	.|.	0.0398|0.0398	0.00008|0.00008	0.2803:0.2244:0.1888:0.3065|0.2803:0.2244:0.1888:0.3065	rs28594165|rs28594165	152;193;145|138	E9PEA6;Q9BTT0;Q5TB20|E9PLC4	.;AN32E_HUMAN;.|.	D|M	193;145;61;152;7;61;71|138	ENSP00000324074:E193D;ENSP00000358115:E145D;ENSP00000393718:E152D|ENSP00000435215:R138M	ENSP00000324074:E193D|ENSP00000435215:R138M	E|R	-|-	3|2	2|0	ANP32E|ANP32E	148465666|148465666	0.087000|0.087000	0.21565|0.21565	0.000000|0.000000	0.03702|0.03702	0.002000|0.002000	0.02628|0.02628	-2.245000|-2.245000	0.01192|0.01192	-3.665000|-3.665000	0.00124|0.00124	-2.619000|-2.619000	0.00157|0.00157	GAG|AGG		0.443	ANP32E-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000035056.1	NM_030920		A	150199042	C	A	150199042	3	1	687	1	0	0	0	0	1	0	0	0	709	680	24	4	239	4	ANP32E	1	150199042	Missense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10	111735959	150199042	99051579	8	44496	476	2								
ANP32E	81611	ucsc.edu;mdanderson.org	37	chr1	150199045	150199045	+	Silent	SNP	T	T	C													0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tcctcatcctcatcctcctcTtcctcttcctcctcctcttc					rs56692627|rs68136184|rs28460085	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr1:150199045T>C	ENST00000314136.8	-	5	945	c.576A>G	c.(574-576)gaA>gaG	p.E192E	ANP32E_ENST00000369115.2_Silent_p.E60E|ANP32E_ENST00000436748.2_Silent_p.E151E|ANP32E_ENST00000369114.5_Intron|ANP32E_ENST00000369116.4_Silent_p.E60E|ANP32E_ENST00000533654.1_Missense_Mutation_p.K137R|ANP32E_ENST00000369119.3_Silent_p.E144E	NM_001136478.2|NM_001280559.1|NM_030920.3	NP_001129950.1|NP_001267488.1|NP_112182.1	Q9BTT0	AN32E_HUMAN	acidic (leucine-rich) nuclear phosphoprotein 32 family, member E	192	Asp/Glu-rich (highly acidic).				histone exchange (GO:0043486)|negative regulation of catalytic activity (GO:0043086)	cytoplasmic membrane-bounded vesicle (GO:0016023)|nucleus (GO:0005634)|Swr1 complex (GO:0000812)	histone binding (GO:0042393)|phosphatase inhibitor activity (GO:0019212)			breast(3)|endometrium(3)|lung(7)|skin(1)|urinary_tract(1)	15	Lung NSC(24;7.29e-29)|Breast(34;0.00211)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			catcctcctcttcctcttcct	0.438																																																0													225	183	197					1																	150199045		2203	4300	6503	SO:0001819	synonymous_variant	81611			AK092672	CCDS946.1, CCDS44214.1, CCDS44215.1, CCDS60245.1	1q22	2008-02-05			ENSG00000143401	ENSG00000143401		"ANP32 acidic nuclear phosphoproteins"	16673	protein-coding gene	gene with protein product		609611				12438741	Standard	NM_030920		Approved	LANPL, MGC5350, LANP-L	uc001etw.3	Q9BTT0	OTTHUMG00000012547	ENST00000314136.8:c.576A>G	1.37:g.150199045T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4E0I6|E9PEA6|Q5TB18|Q5TB20|Q8N1S4|Q8WWW9	Silent	SNP	ENST00000314136.8	37	CCDS946.1	.	.	.	.	.	.	.	.	.	.	T	4.124	0.021213	0.08006	.	.	ENSG00000143401	ENST00000533654	T	0.00337	8.05	4.98	-1.51	0.08664	.	.	.	.	.	T	0.00039	0.0001	.	.	.	0.24003	N	0.996202	B	0.02656	0.0	B	0.04013	0.001	T	0.15925	-1.0420	8	0.56958	D	0.05	.	4.2912	0.10879	0.3012:0.342:0.0:0.3568	rs28460085	137	E9PLC4	.	R	137	ENSP00000435215:K137R	ENSP00000435215:K137R	K	-	2	0	ANP32E	148465669	0.097000	0.21791	0.054000	0.19295	0.014000	0.08584	-2.180000	0.01258	-0.128000	0.11641	-0.366000	0.07423	AAG		0.438	ANP32E-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000035056.1	NM_030920		C	150199045	T	C	150199045	2	2	687	1	0	0	0	0	0	0	0	1	709	1606	56	3		3	ANP32E	1	150199045	Silent	SNP	T	TCGA-KO-8417-01A-11D-2310-10	3	150199045	99051576	9	44497	476	2								
S100A7A	338324	bcgsc.ca	37	chr1	153391729	153391729	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ccttgctgggagacatagccGcagactaccacaagcagagc	11	13	0	3	rs3006414	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr1:153391729G>A	ENST00000368729.4	+	3	307	c.250G>A	c.(250-252)Gca>Aca	p.A84T	S100A7A_ENST00000368728.2_Missense_Mutation_p.A84T|S100A7A_ENST00000329256.2_Missense_Mutation_p.A84T	NM_176823.3	NP_789793.1	Q86SG5	S1A7A_HUMAN	S100 calcium binding protein A7A	84	EF-hand 2. {ECO:0000255|PROSITE- ProRule:PRU00448}.		A -> T (in dbSNP:rs3006414).			cytoplasm (GO:0005737)	calcium ion binding (GO:0005509)|protein self-association (GO:0043621)	p.A84T(1)		cervix(1)|endometrium(3)|kidney(1)|lung(3)|prostate(1)|skin(2)|stomach(1)	12	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)			AGACATAGCCGCAGACTACCA	0.527													a|||	1047	0.209065	0.4766	0.1686	5008	,	,		16030	0.1379		0.0835	False		,,,				2504	0.0787															1	Substitution - Missense(1)	stomach(1)						A	THR/ALA	1893,2513		408,1077,718	81	76	78		250	-2.9	0	1	dbSNP_101	78	765,7835		32,701,3567	no	missense	S100A7A	NM_176823.3	58	440,1778,4285	AA,AG,GG		8.8953,42.9641,20.4367	benign	84/102	153391729	2658,10348	2203	4300	6503	SO:0001583	missense	338324			AY189118	CCDS30872.1	1q22	2013-01-10	2006-09-11	2006-09-11	ENSG00000184330	ENSG00000184330		"S100 calcium binding proteins", "EF-hand domain containing"	21657	protein-coding gene	gene with protein product			"S100 calcium binding protein A15", "S100 calcium binding protein A7-like 1"	S100A15, S100A7L1		11230159	Standard	NM_176823		Approved	S100A7f	uc001fbt.1	Q86SG5	OTTHUMG00000013122	ENST00000368729.4:c.250G>A	1.37:g.153391729G>A	ENSP00000357718:p.Ala84Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DV38|Q5SY69	Missense_Mutation	SNP	ENST00000368729.4	37	CCDS30872.1	436	0.19963369963369965	229	0.4654471544715447	55	0.15193370165745856	85	0.1486013986013986	67	0.08839050131926121	.	0.009	-1.820264	0.00595	0.429641	0.088953	ENSG00000184330	ENST00000368729;ENST00000368728;ENST00000329256	T;T;T	0.06142	3.34;3.34;3.34	1.7	-2.9	0.05648	EF-hand-like domain (1);	.	.	.	.	T	0.00328	0.0010	N	0.00289	-1.7	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.37798	-0.9690	8	0.09843	T	0.71	.	3.6925	0.08351	0.2976:0.0:0.4869:0.2155	rs3006414;rs57686181;rs3006414	84	Q86SG5	S1A7A_HUMAN	T	84	ENSP00000357718:A84T;ENSP00000357717:A84T;ENSP00000329008:A84T	ENSP00000329008:A84T	A	+	1	0	S100A7A	151658353	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.964000	0.01512	-1.503000	0.01812	-2.435000	0.00213	GCA		0.527	S100A7A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000036786.2	NM_176823		A	153391729	G	A	153391729	3	1	687	1	0	0	0	0	1	0	0	0	13797	1087	38	1	256	1	S100A7A	1	153391729	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	3192684	153391729	95858892	10	44498										
RHBG	57127	bcgsc.ca	37	chr1	156351699	156351699	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tggcagctggcttcttggctGggactgtctccacgctgggg	16	11	2	0	rs3748569	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr1:156351699G>A	ENST00000368249.1	+	6	981	c.943G>A	c.(943-945)Ggg>Agg	p.G315R	RHBG_ENST00000537040.1_Missense_Mutation_p.G153R|RHBG_ENST00000255013.3_Missense_Mutation_p.G246R|RHBG_ENST00000368246.2_Missense_Mutation_p.G315R|RHBG_ENST00000451864.2_Intron|RHBG_ENST00000400992.2_Missense_Mutation_p.G283R	NM_001256396.1|NM_020407.4	NP_001243325.1|NP_065140.3	Q9H310	RHBG_HUMAN	Rh family, B glycoprotein (gene/pseudogene)	315			G -> R (in dbSNP:rs3748569). {ECO:0000269|PubMed:15489334}.		ammonium transmembrane transport (GO:0072488)|ammonium transport (GO:0015696)|transepithelial ammonium transport (GO:0070634)|transmembrane transport (GO:0055085)	anchored component of plasma membrane (GO:0046658)|basolateral plasma membrane (GO:0016323)|cytoplasmic vesicle (GO:0031410)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|spectrin-associated cytoskeleton (GO:0014731)	ammonium transmembrane transporter activity (GO:0008519)|ankyrin binding (GO:0030506)			endometrium(1)|kidney(1)|large_intestine(4)|lung(9)|ovary(3)|skin(2)|stomach(1)|urinary_tract(1)	22	Hepatocellular(266;0.158)					CTTCTTGGCTGGGACTGTCTC	0.572													G|||	2728	0.544728	0.5719	0.6037	5008	,	,		18935	0.7014		0.4095	False		,,,				2504	0.4438															0								G	ARG/GLY	2175,1959		576,1023,468	95	106	103		943	4.4	1	1	dbSNP_107	103	3575,4831		782,2011,1410	yes	missense	RHBG	NM_020407.3	125	1358,3034,1878	AA,AG,GG		42.5291,47.3875,45.8533	probably-damaging	315/459	156351699	5750,6790	2067	4203	6270	SO:0001583	missense	57127			AF193807		1q22	2013-05-22	2009-01-22		ENSG00000132677	ENSG00000132677		"Solute carriers"	14572	protein-coding gene	gene with protein product		607079	"Rhesus blood group, B glycoprotein"			10852913	Standard	NM_020407		Approved	SLC42A2	uc010pho.3	Q9H310	OTTHUMG00000024057	ENST00000368249.1:c.943G>A	1.37:g.156351699G>A	ENSP00000357232:p.Gly315Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K475|Q5SZW4|Q5SZW6|Q5SZW7|Q6P193|Q6YJI2|Q6YJI3	Missense_Mutation	SNP	ENST00000368249.1	37		1209	0.5535714285714286	287	0.5833333333333334	208	0.574585635359116	403	0.7045454545454546	311	0.4102902374670185	G	26.5	4.744673	0.89663	0.526125	0.425291	ENSG00000132677	ENST00000368249;ENST00000368246;ENST00000537040;ENST00000400992;ENST00000255013	T;T;T;T;T	0.38722	1.12;1.12;1.12;1.12;1.12	4.44	4.44	0.53790	Ammonium transporter AmtB-like (3);	0.049574	0.85682	D	0.000000	T	0.67325	0.2881	M	0.93763	3.455	0.09310	P	1.0	D;D;D;D	0.89917	0.999;1.0;1.0;1.0	D;D;D;D	0.97110	0.986;0.998;1.0;0.999	T	0.77643	-0.2511	9	0.72032	D	0.01	-1.7511	14.5902	0.68359	0.0:0.0:1.0:0.0	rs3748569;rs17855953;rs52807244;rs58877861;rs3748569	315;153;283;352	Q9H310;F5GWZ4;Q9H310-3;Q5SZW5	RHBG_HUMAN;.;.;.	R	315;315;153;283;246	ENSP00000357232:G315R;ENSP00000357229:G315R;ENSP00000441197:G153R;ENSP00000383777:G283R;ENSP00000255013:G246R	ENSP00000255013:G246R	G	+	1	0	RHBG	154618323	1.000000	0.71417	0.957000	0.39632	0.996000	0.88848	7.438000	0.80431	2.286000	0.76751	0.561000	0.74099	GGG		0.572	RHBG-001	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000060589.2	NM_001256395		A	156351699	G	A	156351699	3	1	687	1	0	0	0	0	1	0	0	0	13337	1348	47	2	965	2	RHBG	1	156351699	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	2959970	156351699	92898922	11	44499										
ANKRD45	339416	ucsc.edu	37	chr1	173596257	173596257	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ttctgtgtcagtaacagctaAagagacttttgcaatatatt	7	6	2	1	rs12059066	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr1:173596257A>T	ENST00000333279.2	-	4	598	c.538T>A	c.(538-540)Tta>Ata	p.L180I		NM_198493.2	NP_940895.1	Q5TZF3	ANR45_HUMAN	ankyrin repeat domain 45	196										NS(2)|endometrium(2)|large_intestine(4)|lung(3)|skin(1)	12						GTAACAGCTAAAGAGACTTTT	0.373													A|||	965	0.192692	0.6989	0.0504	5008	,	,		20198	0.0		0.005	False		,,,				2504	0.001															0								A	ILE/LEU	2539,1867	632.6+/-395.9	756,1027,420	145	150	148		538	-3.8	0	1	dbSNP_120	148	32,8568	19.8+/-62.0	0,32,4268	yes	missense	ANKRD45	NM_198493.2	5	756,1059,4688	TT,TA,AA		0.3721,42.374,19.7678	benign	180/267	173596257	2571,10435	2203	4300	6503	SO:0001583	missense	339416				CCDS1309.1	1q25.1	2013-01-10			ENSG00000183831	ENSG00000183831		"Ankyrin repeat domain containing"	24786	protein-coding gene	gene with protein product	"cancer/testis antigen 117"						Standard	NM_198493		Approved	FLJ45235, CT117	uc001gja.1	Q5TZF3	OTTHUMG00000040546	ENST00000333279.2:c.538T>A	1.37:g.173596257A>T	ENSP00000331268:p.Leu180Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4G2|Q6ZST1	Missense_Mutation	SNP	ENST00000333279.2	37	CCDS1309.1	377	0.17261904761904762	353	0.717479674796748	20	0.055248618784530384	0	0.0	4	0.005277044854881266	A	11.25	1.583800	0.28268	0.57626	0.003721	ENSG00000183831	ENST00000333279	T	0.13778	2.56	5.35	-3.79	0.04320	.	1.555310	0.03916	N	0.282716	T	0.01870	0.0059	N	0.22421	0.69	0.80722	P	0.0	B	0.27068	0.167	B	0.19148	0.024	T	0.35895	-0.9770	9	0.36615	T	0.2	-17.7491	1.2921	0.02062	0.1379:0.3633:0.2467:0.2521	rs12059066;rs52822128;rs12059066	196	Q5TZF3	ANR45_HUMAN	I	180	ENSP00000331268:L180I	ENSP00000331268:L180I	L	-	1	2	ANKRD45	171862880	0.000000	0.05858	0.000000	0.03702	0.656000	0.38851	-0.559000	0.05971	-1.213000	0.02617	0.455000	0.32223	TTA		0.373	ANKRD45-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097580.2	NM_198493		T	173596257	A	T	173596257	3	4	687	1	0	0	0	0	1	0	0	0	673	11	1	5	274	5	ANKRD45	1	173596257	Missense_Mutation	SNP	A	TCGA-KO-8417-01A-11D-2310-10	17244558	173596257	75654364	12	44500										
CACYBP	27101	hgsc.bcm.edu	37	chr1	174975972	174975972	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	aatgtgcaggtgcatttcacAgagaggtgagttctcattat	11	6	2	2	rs1802325	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr1:174975972A>G	ENST00000367679.2	+	3	775	c.327A>G	c.(325-327)acA>acG	p.T109T	CACYBP_ENST00000405362.1_Silent_p.T66T|CACYBP_ENST00000367681.2_Silent_p.T66T	NM_014412.2	NP_055227.1	Q9HB71	CYBP_HUMAN	calcyclin binding protein	109	CS. {ECO:0000255|PROSITE- ProRule:PRU00547}.|Interaction with SKP1.				aging (GO:0007568)|cardiac muscle cell differentiation (GO:0055007)|cellular response to calcium ion (GO:0071277)|negative regulation of cell death (GO:0060548)|positive regulation of DNA replication (GO:0045740)|response to growth hormone (GO:0060416)	beta-catenin destruction complex (GO:0030877)|cell body (GO:0044297)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|neuron projection (GO:0043005)|nuclear envelope lumen (GO:0005641)|nucleus (GO:0005634)	protein homodimerization activity (GO:0042803)			NS(1)|breast(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(1)|prostate(1)	11						TGCATTTCACAGAGAGGTGAG	0.378													A|||	80	0.0159744	0.0598	0.0014	5008	,	,		19433	0.0		0.0	False		,,,				2504	0.0															0								A	,	284,4122	158.5+/-191.2	11,262,1930	92	85	87		198,327	3.6	1	1	dbSNP_89	87	4,8596	2.2+/-6.3	0,4,4296	no	coding-synonymous,coding-synonymous	CACYBP	NM_001007214.1,NM_014412.2	,	11,266,6226	GG,GA,AA		0.0465,6.4458,2.2144	,	66/186,109/229	174975972	288,12718	2203	4300	6503	SO:0001819	synonymous_variant	27101			BC022352	CCDS1315.1, CCDS30942.1	1q24-q25	2008-02-05			ENSG00000116161	ENSG00000116161			30423	protein-coding gene	gene with protein product		606186				11389839, 12421809	Standard	XM_005245092		Approved	SIP, S100A6BP	uc001gkj.1	Q9HB71	OTTHUMG00000034941	ENST00000367679.2:c.327A>G	1.37:g.174975972A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2ZWH2|B3KSF1|O60666|Q5R370|Q5R371	Silent	SNP	ENST00000367679.2	37	CCDS1315.1																																																																																				0.378	CACYBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084583.3	NM_014412		G	174975972	A	G	174975972	2	3	687	1	0	0	0	0	0	0	0	1	2566	175	7	3		3	CACYBP	1	174975972	Silent	SNP	A	TCGA-KO-8417-01A-11D-2310-10	1379715	174975972	74274649	13	44501										
PROX1	5629	broad.mit.edu;ucsc.edu;mdanderson.org	37	chr1	214171103	214171103	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tccacaccgccaaccagcgcCtgcagtgctttggcgacgtc	10	17	0	0			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr1:214171103C>T	ENST00000366958.4	+	2	1833	c.1225C>T	c.(1225-1227)Ctg>Ttg	p.L409L	PROX1_ENST00000435016.1_Silent_p.L409L|PROX1_ENST00000261454.4_Silent_p.L409L|PROX1_ENST00000498508.2_Silent_p.L409L	NM_001270616.1	NP_001257545.1	Q92786	PROX1_HUMAN	prospero homeobox 1	409					aorta smooth muscle tissue morphogenesis (GO:0060414)|atrial cardiac muscle tissue morphogenesis (GO:0055009)|brain development (GO:0007420)|cell fate determination (GO:0001709)|cerebellar granule cell differentiation (GO:0021707)|dentate gyrus development (GO:0021542)|dorsal spinal cord development (GO:0021516)|embryonic retina morphogenesis in camera-type eye (GO:0060059)|endocardium formation (GO:0060214)|hepatocyte cell migration (GO:0002194)|hepatocyte differentiation (GO:0070365)|hepatocyte proliferation (GO:0072574)|kidney development (GO:0001822)|lens development in camera-type eye (GO:0002088)|lens fiber cell morphogenesis (GO:0070309)|liver development (GO:0001889)|lung development (GO:0030324)|lymphangiogenesis (GO:0001946)|lymphatic endothelial cell differentiation (GO:0060836)|negative regulation of bile acid biosynthetic process (GO:0070858)|negative regulation of cell proliferation (GO:0008285)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of viral genome replication (GO:0045071)|neural tube development (GO:0021915)|neuronal stem cell maintenance (GO:0097150)|olfactory placode formation (GO:0030910)|optic placode formation involved in camera-type eye formation (GO:0046619)|otic placode formation (GO:0043049)|pancreas development (GO:0031016)|positive regulation of cell cycle (GO:0045787)|positive regulation of cell cycle checkpoint (GO:1901978)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045737)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of forebrain neuron differentiation (GO:2000979)|positive regulation of heart growth (GO:0060421)|positive regulation of neural precursor cell proliferation (GO:2000179)|positive regulation of sarcomere organization (GO:0060298)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of circadian rhythm (GO:0042752)|regulation of gene expression (GO:0010468)|regulation of transcription involved in lymphatic endothelial cell fate commitment (GO:0060849)|response to nutrient levels (GO:0031667)|retina morphogenesis in camera-type eye (GO:0060042)|skeletal muscle thin filament assembly (GO:0030240)|venous blood vessel morphogenesis (GO:0048845)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)|ventricular cardiac myofibril assembly (GO:0055005)|ventricular septum morphogenesis (GO:0060412)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	core promoter sequence-specific DNA binding (GO:0001046)|DBD domain binding (GO:0050692)|DNA binding (GO:0003677)|LBD domain binding (GO:0050693)|ligand-dependent nuclear receptor binding (GO:0016922)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)|transcription regulatory region DNA binding (GO:0044212)			autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(6)|lung(15)|ovary(3)|prostate(2)|skin(4)	47				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		CAACCAGCGCCTGCAGTGCTT	0.582																																																0													99	101	100					1																	214171103		2203	4300	6503	SO:0001819	synonymous_variant	5629			U44060	CCDS31021.1	1q41	2011-06-20	2007-06-01		ENSG00000117707	ENSG00000117707		"Homeoboxes / PROS class"	9459	protein-coding gene	gene with protein product		601546	"prospero-related homeobox 1"			8812486	Standard	NM_002763		Approved		uc001hkg.2	Q92786	OTTHUMG00000036946	ENST00000366958.4:c.1225C>T	1.37:g.214171103C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NK29|A8K2B1|Q5SW76|Q8TB91	Silent	SNP	ENST00000366958.4	37	CCDS31021.1																																																																																				0.582	PROX1-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089727.6	NM_002763		T	214171103	C	T	214171103	2	4	687	1	0	0	0	0	0	0	0	1	12570	680	24	2		2	PROX1	1	214171103	Silent	SNP	C	TCGA-KO-8417-01A-11D-2310-10	39195131	214171103	35079518	14	44502										
ATL2	64225	bcgsc.ca	37	chr2	38525660	38525660	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tatcgccacttccttgagatCcaagtgttttcgctccagat	7	12	0	2	rs7582826	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr2:38525660C>G	ENST00000378954.4	-	12	1259	c.1258G>C	c.(1258-1260)Gat>Cat	p.D420H	ATL2_ENST00000332337.4_Missense_Mutation_p.D402H|ATL2_ENST00000406122.1_Missense_Mutation_p.D249H|ATL2_ENST00000402054.1_Missense_Mutation_p.D249H|ATL2_ENST00000539122.1_Missense_Mutation_p.D249H|ATL2_ENST00000419554.2_Missense_Mutation_p.D420H|ATL2_ENST00000452935.2_Missense_Mutation_p.D402H|ATL2_ENST00000546051.1_Missense_Mutation_p.D249H	NM_001135673.1|NM_022374.2	NP_001129145.1|NP_071769.2	Q8NHH9	ATLA2_HUMAN	atlastin GTPase 2	420			D -> H (in dbSNP:rs7582826).		endoplasmic reticulum organization (GO:0007029)|Golgi organization (GO:0007030)|GTP catabolic process (GO:0006184)|protein homooligomerization (GO:0051260)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|identical protein binding (GO:0042802)			breast(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(2)|lung(7)|ovary(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	22						TCCTTGAGATCCAAGTGTTTT	0.418													C|||	335	0.066893	0.2428	0.0159	5008	,	,		20456	0.0		0.003	False		,,,				2504	0.0															0								C	HIS/ASP,HIS/ASP	866,3540	338.9+/-305.5	83,700,1420	127	125	126		1258,1258	3.6	1	2	dbSNP_116	126	4,8596	3.7+/-12.6	0,4,4296	yes	missense,missense	ATL2	NM_001135673.1,NM_022374.2	81,81	83,704,5716	GG,GC,CC		0.0465,19.655,6.6892	benign,benign	420/584,420/580	38525660	870,12136	2203	4300	6503	SO:0001583	missense	64225				CCDS1795.1, CCDS46260.1	2p22.3	2008-09-17	2008-09-17	2008-09-17	ENSG00000119787	ENSG00000119787			24047	protein-coding gene	gene with protein product		609368	"ADP-ribosylation factor-like 6 interacting protein 2"	ARL6IP2		10508919, 18270207	Standard	NM_022374		Approved		uc002rqq.3	Q8NHH9	OTTHUMG00000102074	ENST00000378954.4:c.1258G>C	2.37:g.38525660C>G	ENSP00000368237:p.Asp420His	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z1X2|B7Z7X8|Q4ZG30|Q7Z630|Q8NHH8|Q9H5M7	Missense_Mutation	SNP	ENST00000378954.4	37	CCDS46260.1	138	0.06318681318681318	130	0.26422764227642276	7	0.019337016574585635	0	0.0	1	0.0013192612137203166	C	13.53	2.264129	0.39995	0.19655	4.65E-4	ENSG00000119787	ENST00000378954;ENST00000406122;ENST00000402054;ENST00000539122;ENST00000332337;ENST00000419554;ENST00000452935;ENST00000546051	T;T;T;T;T;T;T;T	0.02258	4.37;4.37;4.37;4.37;4.37;4.37;4.37;4.37	5.51	3.6	0.41247	Guanylate-binding protein, C-terminal (3);	0.187724	0.56097	D	0.000028	T	0.00012	0.0000	N	0.02011	-0.69	0.19575	P	0.999962805	P;B;B;B;B	0.43633	0.813;0.0;0.002;0.0;0.001	P;B;B;B;B	0.51055	0.657;0.02;0.012;0.007;0.012	T	0.60347	-0.7281	9	0.40728	T	0.16	-14.0153	10.4882	0.44735	0.0:0.7938:0.1332:0.0731	rs7582826;rs52809531;rs7582826	249;402;402;420;420	B5MCN0;B7Z7X8;Q8NHH9-4;Q8NHH9-2;Q8NHH9	.;.;.;.;ATLA2_HUMAN	H	420;249;249;249;402;420;402;249	ENSP00000368237:D420H;ENSP00000385446:D249H;ENSP00000384062:D249H;ENSP00000446192:D249H;ENSP00000333393:D402H;ENSP00000415336:D420H;ENSP00000390743:D402H;ENSP00000438938:D249H	ENSP00000333393:D402H	D	-	1	0	ATL2	38379164	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	2.578000	0.46051	1.463000	0.47967	0.591000	0.81541	GAT		0.418	ATL2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219886.2	NM_022374		G	38525660	C	G	38525660	3	3	687	1	0	0	0	0	1	0	0	0	1107	855	30	4	613	4	ATL2	2	38525660	Missense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10		38525660	204673713	15	44503										
CLEC4F	165530	bcgsc.ca	37	chr2	71043461	71043461	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gagtatctgtctggtccagaCggccatttgctttttgggtc	12	9	2	1	rs722896	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr2:71043461C>T	ENST00000272367.2	-	4	1128	c.1052G>A	c.(1051-1053)cGt>cAt	p.R351H	CLEC4F_ENST00000426626.1_Missense_Mutation_p.R351H	NM_001258027.1|NM_173535.2	NP_001244956.1|NP_775806.2	Q8N1N0	CLC4F_HUMAN	C-type lectin domain family 4, member F	351			R -> H (in dbSNP:rs722896).		endocytosis (GO:0006897)	integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)			endometrium(1)|large_intestine(5)|lung(18)|ovary(5)|prostate(5)|skin(1)|upper_aerodigestive_tract(2)	37						CTGGTCCAGACGGCCATTTGC	0.403													C|||	1693	0.338059	0.1195	0.4006	5008	,	,		21626	0.5248		0.3101	False		,,,				2504	0.4254				Colon(107;10 2157 6841 26035)											0								C	HIS/ARG	739,3667	303.5+/-288.0	60,619,1524	86	83	84		1052	-5.1	0	2	dbSNP_86	84	2597,6003	421.6+/-353.8	431,1735,2134	yes	missense	CLEC4F	NM_173535.2	29	491,2354,3658	TT,TC,CC		30.1977,16.7726,25.6497	benign	351/590	71043461	3336,9670	2203	4300	6503	SO:0001583	missense	165530			AK096429	CCDS1910.1	2p13.3	2008-02-05	2005-02-09	2005-02-11	ENSG00000152672	ENSG00000152672		"C-type lectin domain containing"	25357	protein-coding gene	gene with protein product			"C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 13"	CLECSF13		8889548, 1846367	Standard	NM_001258027		Approved	FLJ39110, KCLR	uc002shf.3	Q8N1N0	OTTHUMG00000129713	ENST00000272367.2:c.1052G>A	2.37:g.71043461C>T	ENSP00000272367:p.Arg351His	Somatic		WXS	Illumina HiSeq	Phase_I	A4QPA5	Missense_Mutation	SNP	ENST00000272367.2	37	CCDS1910.1	753	0.3447802197802198	58	0.11788617886178862	124	0.3425414364640884	343	0.5996503496503497	228	0.3007915567282322	C	7.700	0.692882	0.15039	0.167726	0.301977	ENSG00000152672	ENST00000272367;ENST00000426626	D;D	0.82893	-1.66;-1.66	3.79	-5.05	0.02955	.	1.546170	0.04013	N	0.298500	T	0.00012	0.0000	N	0.04355	-0.22	0.80722	P	0.0	B;B	0.12630	0.002;0.006	B;B	0.04013	0.001;0.001	T	0.16600	-1.0397	9	0.13470	T	0.59	.	11.5395	0.50659	0.0:0.2236:0.0:0.7764	rs722896;rs59663124;rs722896	351;351	B7ZMM1;Q8N1N0	.;CLC4F_HUMAN	H	351	ENSP00000272367:R351H;ENSP00000390581:R351H	ENSP00000272367:R351H	R	-	2	0	CLEC4F	70896969	0.000000	0.05858	0.000000	0.03702	0.779000	0.44077	-1.034000	0.03567	-1.226000	0.02574	0.467000	0.42956	CGT		0.403	CLEC4F-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251922.1	NM_173535		T	71043461	C	T	71043461	3	4	687	1	0	0	0	0	1	0	0	0	3518	536	19	1	733	1	CLEC4F	2	71043461	Missense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10	32517801	71043461	172155912	16	44504										
LBX2	85474	ucsc.edu;bcgsc.ca	37	chr2	74725178	74725178	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	agctgcacaggacttccgggGacaacgcgcgtagcgaggcg	16	12	0	0	rs17009998	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr2:74725178G>A	ENST00000377566.4	-	2	651	c.473C>T	c.(472-474)tCc>tTc	p.S158F	LBX2_ENST00000341396.2_3'UTR|AC005041.17_ENST00000479098.1_RNA|LBX2_ENST00000460508.3_Missense_Mutation_p.S154F|LBX2_ENST00000550249.1_5'UTR	NM_001282430.1	NP_001269359.1	Q6XYB7	LBX2_HUMAN	ladybird homeobox 2	158			S -> F (in dbSNP:rs17009998).		regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)			central_nervous_system(1)|kidney(1)|large_intestine(1)|lung(1)	4						GACTTCCGGGGACAACGCGCG	0.687													G|||	1668	0.333067	0.1399	0.2579	5008	,	,		15440	0.8204		0.1551	False		,,,				2504	0.3282															0								G	PHE/SER	662,3744	276.3+/-273.0	54,554,1595	49	48	48		461	3	0.2	2	dbSNP_123	48	1139,7459	227.9+/-263.1	77,985,3237	yes	missense	LBX2	NM_001009812.1	155	131,1539,4832	AA,AG,GG		13.2473,15.025,13.8496	probably-damaging	154/195	74725178	1801,11203	2203	4299	6502	SO:0001583	missense	85474			AC005041	CCDS33228.1, CCDS62938.1	2p13.1	2014-05-06	2007-02-15		ENSG00000179528	ENSG00000179528		"Homeoboxes / ANTP class : NKL subclass"	15525	protein-coding gene	gene with protein product		607164	"ladybird homeobox homolog 2 (Drosophila)"			11386758	Standard	NM_001282430		Approved		uc002slw.3	Q6XYB7	OTTHUMG00000170595	ENST00000377566.4:c.473C>T	2.37:g.74725178G>A	ENSP00000366789:p.Ser158Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z5Y8	Missense_Mutation	SNP	ENST00000377566.4	37		718	0.32875457875457875	63	0.12804878048780488	72	0.19889502762430938	471	0.8234265734265734	112	0.14775725593667546	G	15.19	2.759678	0.49468	0.15025	0.132473	ENSG00000179528	ENST00000377566;ENST00000460508	D;D	0.91945	-2.82;-2.94	4.76	2.95	0.34219	.	0.647217	0.13712	N	0.367991	T	0.00012	0.0000	L	0.29908	0.895	0.20563	P	0.999885927	B;B	0.12630	0.006;0.002	B;B	0.19148	0.024;0.002	T	0.44174	-0.9345	9	0.66056	D	0.02	.	7.3598	0.26739	0.0893:0.0:0.7431:0.1677	rs17009998;rs60339187;rs17009998	154;158	Q6XYB7-2;Q6XYB7	.;LBX2_HUMAN	F	158;154	ENSP00000366789:S158F;ENSP00000417116:S154F	ENSP00000366789:S158F	S	-	2	0	LBX2	74578686	0.000000	0.05858	0.178000	0.23040	0.034000	0.12701	0.297000	0.19101	0.605000	0.29947	0.561000	0.74099	TCC		0.687	LBX2-002	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000328490.1	NM_001009812		A	74725178	G	A	74725178	3	1	687	1	0	0	0	0	1	0	0	0	8661	1174	41	2	127	2	LBX2	2	74725178	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	3681717	74725178	168474195	17	44505										
GPD2	2820	bcgsc.ca	37	chr2	157406249	157406249	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	cccccagacagggaaagtgcGtgtgagcggcgcacggtgca	16	12	0	2	rs2116665	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr2:157406249G>A	ENST00000310454.6	+	7	1163	c.791G>A	c.(790-792)cGt>cAt	p.R264H	GPD2_ENST00000409674.1_Missense_Mutation_p.R264H|GPD2_ENST00000438166.2_Missense_Mutation_p.R264H|GPD2_ENST00000540309.1_Missense_Mutation_p.R264H|GPD2_ENST00000409125.4_Missense_Mutation_p.R37H	NM_001083112.2	NP_001076581.2	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2 (mitochondrial)	264			R -> H (in dbSNP:rs2116665). {ECO:0000269|PubMed:14702039, ECO:0000269|PubMed:7821823, ECO:0000269|PubMed:8549872, ECO:0000269|PubMed:8682323, ECO:0000269|PubMed:9110174, ECO:0000269|Ref.4, ECO:0000269|Ref.6, ECO:0000269|Ref.8}.		camera-type eye development (GO:0043010)|cellular lipid metabolic process (GO:0044255)|gluconeogenesis (GO:0006094)|glycerol catabolic process (GO:0019563)|glycerol-3-phosphate metabolic process (GO:0006072)|multicellular organism growth (GO:0035264)|small molecule metabolic process (GO:0044281)	glycerol-3-phosphate dehydrogenase complex (GO:0009331)|mitochondrial inner membrane (GO:0005743)	calcium ion binding (GO:0005509)|glycerol-3-phosphate dehydrogenase activity (GO:0004368)|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity (GO:0052591)	p.R264H(1)		central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(10)|ovary(1)|skin(1)|stomach(1)	22						GGGAAAGTGCGTGTGAGCGGC	0.522													G|||	3295	0.657947	0.4849	0.7032	5008	,	,		19139	0.7847		0.6889	False		,,,				2504	0.6973															1	Substitution - Missense(1)	stomach(1)	GRCh37	CM012769	GPD2	M	rs2116665	G	HIS/ARG,HIS/ARG	2093,2313	572.1+/-383.2	503,1087,613	66	63	64		791,791	3.2	0	2	dbSNP_96	64	6102,2498	694.7+/-404.8	2144,1814,342	yes	missense,missense	GPD2	NM_000408.4,NM_001083112.2	29,29	2647,2901,955	AA,AG,GG		29.0465,47.5034,36.9906	possibly-damaging,possibly-damaging	264/728,264/728	157406249	8195,4811	2203	4300	6503	SO:0001583	missense	2820				CCDS2202.1	2q24.1	2013-01-10			ENSG00000115159	ENSG00000115159	1.1.1.8	"EF-hand domain containing"	4456	protein-coding gene	gene with protein product		138430					Standard	NM_001083112		Approved		uc002tzd.4	P43304	OTTHUMG00000131951	ENST00000310454.6:c.791G>A	2.37:g.157406249G>A	ENSP00000308610:p.Arg264His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4V0|B3KSA9|Q59FR1|Q9HAP9	Missense_Mutation	SNP	ENST00000310454.6	37	CCDS2202.1	1431	0.6552197802197802	228	0.4634146341463415	241	0.6657458563535912	441	0.7709790209790209	521	0.6873350923482849	G	7.674	0.687659	0.14973	0.475034	0.709535	ENSG00000115159	ENST00000310454;ENST00000409125;ENST00000438166;ENST00000540309;ENST00000409674	T;T;T;T;T	0.67523	-0.27;-0.27;-0.27;-0.27;-0.27	5.91	3.17	0.36434	FAD dependent oxidoreductase (1);	0.321794	0.38436	N	0.001700	T	0.00012	0.0000	L	0.51422	1.61	0.29245	P	0.872348	B	0.17038	0.02	B	0.15484	0.013	T	0.34800	-0.9814	9	0.51188	T	0.08	.	10.1454	0.42760	0.2664:0.0:0.7336:0.0	rs2116665;rs2228475;rs17847134;rs17858516;rs2116665	264	P43304	GPDM_HUMAN	H	264;37;264;264;264	ENSP00000308610:R264H;ENSP00000386484:R37H;ENSP00000409708:R264H;ENSP00000440892:R264H;ENSP00000386425:R264H	ENSP00000308610:R264H	R	+	2	0	GPD2	157114495	0.930000	0.31532	0.004000	0.12327	0.333000	0.28666	1.958000	0.40402	0.412000	0.25729	0.650000	0.86243	CGT		0.522	GPD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254910.3			A	157406249	G	A	157406249	3	1	687	1	0	0	0	0	1	0	0	0	6613	1145	40	1	813	1	GPD2	2	157406249	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	82681071	157406249	85793124	18	44506										
PPIG	9360	bcgsc.ca	37	chr2	170493677	170493677	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gctcagagagagaagaaagtCaaagcagaaacaaagacaaa	10	6	2	5	rs78054206	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr2:170493677C>G	ENST00000260970.3	+	14	2129	c.1909C>G	c.(1909-1911)Caa>Gaa	p.Q637E	PPIG_ENST00000448752.2_Missense_Mutation_p.Q637E|PPIG_ENST00000409714.3_Missense_Mutation_p.Q622E	NM_004792.2	NP_004783.2	Q13427	PPIG_HUMAN	peptidylprolyl isomerase G (cyclophilin G)	637	Arg/Ser-rich (RS domain).				protein folding (GO:0006457)|RNA splicing (GO:0008380)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	cyclosporin A binding (GO:0016018)|peptidyl-prolyl cis-trans isomerase activity (GO:0003755)|poly(A) RNA binding (GO:0044822)			NS(2)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(8)|liver(1)|lung(17)|ovary(2)|stomach(1)|urinary_tract(1)	43					L-Proline(DB00172)	AGAAGAAAGTCAAAGCAGAAA	0.423													C|||	53	0.0105831	0.0378	0.0043	5008	,	,		19841	0.0		0.0	False		,,,				2504	0.0															0								C	GLU/GLN	127,4279	91.6+/-130.3	1,125,2077	69	70	70		1909	4.7	1	2	dbSNP_132	70	3,8597	3.0+/-9.4	0,3,4297	yes	missense	PPIG	NM_004792.2	29	1,128,6374	GG,GC,CC		0.0349,2.8824,0.9995	benign	637/755	170493677	130,12876	2203	4300	6503	SO:0001583	missense	9360			X99717	CCDS2235.1	2q31.1	2010-07-23	2006-01-12		ENSG00000138398	ENSG00000138398	6.1.1.16		14650	protein-coding gene	gene with protein product	"SR-related CTD-associated factor 10"	606093	"peptidyl-prolyl isomerase G (cyclophilin G)"			8973360, 9153302	Standard	NM_004792		Approved	CARS-Cyp, SRCyp, SCAF10	uc002uez.3	Q13427	OTTHUMG00000132206	ENST00000260970.3:c.1909C>G	2.37:g.170493677C>G	ENSP00000260970:p.Gln637Glu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPC5|D3DPC6|O00706|Q53R40|Q53SN4|Q96DG9	Missense_Mutation	SNP	ENST00000260970.3	37	CCDS2235.1	34	0.015567765567765568	32	0.06504065040650407	2	0.0055248618784530384	0	0.0	0	0.0	C	13.29	2.192937	0.38707	0.028824	3.49E-4	ENSG00000138398	ENST00000260970;ENST00000409714;ENST00000448752	T;T;T	0.15834	2.39;2.39;2.39	5.6	4.73	0.59995	.	0.054301	0.85682	D	0.000000	T	0.01029	0.0034	L	0.27053	0.805	0.33842	D	0.631606	B;B;B	0.22800	0.075;0.075;0.075	B;B;B	0.19946	0.027;0.027;0.027	T	0.04115	-1.0976	10	0.87932	D	0	-24.8159	16.0895	0.81082	0.1352:0.8648:0.0:0.0	rs62652316	622;622;637	E9PG73;Q2NKQ6;Q13427	.;.;PPIG_HUMAN	E	637;622;637	ENSP00000260970:Q637E;ENSP00000386245:Q622E;ENSP00000407083:Q637E	ENSP00000260970:Q637E	Q	+	1	0	PPIG	170201923	1.000000	0.71417	1.000000	0.80357	0.944000	0.59088	4.558000	0.60789	1.376000	0.46267	-0.189000	0.12847	CAA		0.423	PPIG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255264.2			G	170493677	C	G	170493677	3	3	687	1	0	0	0	0	1	0	0	0	12334	827	29	4	1955	4	PPIG	2	170493677	Missense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10	13087428	170493677	72705696	19	44507										
TTN	7273	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr2	179613962	179613962	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tatttctttcttaatagtgaCatcactgaaatcatcaacaa	3	8	5	2	rs72648903	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr2:179613962C>T	ENST00000591111.1	-	45	10585				TTN_ENST00000359218.5_Intron|TTN_ENST00000460472.2_Intron|TTN_ENST00000342992.6_Intron|TTN_ENST00000360870.5_Missense_Mutation_p.V4389I|TTN_ENST00000342175.6_Intron|TTN-AS1_ENST00000578746.1_RNA|TTN_ENST00000589042.1_Intron|TTN-AS1_ENST00000590773.1_RNA|TTN-AS1_ENST00000585451.1_RNA			Q8WZ42	TITIN_HUMAN	titin						adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTAATAGTGACATCACTGAAA	0.343													C|||	95	0.0189696	0.0703	0.0029	5008	,	,		19175	0.0		0.0	False		,,,				2504	0.0															0								C	,,ILE/VAL,,	221,4179	123.7+/-161.0	6,209,1985	57	62	60		,,13165,,	3.4	0	2	dbSNP_130	60	6,8586	3.7+/-12.6	0,6,4290	yes	intron,intron,missense,intron,intron	TTN	NM_003319.4,NM_133378.4,NM_133379.3,NM_133432.3,NM_133437.3	,,29,,	6,215,6275	TT,TC,CC		0.0698,5.0227,1.7472	,,,,	,,4389/5605,,	179613962	227,12765	2200	4296	6496	SO:0001627	intron_variant	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.10360+3888G>A	2.37:g.179613962C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	SNP	ENST00000591111.1	37		35	0.016025641025641024	34	0.06910569105691057	1	0.0027624309392265192	0	0.0	0	0.0	C	10.23	1.293061	0.23564	0.050227	6.98E-4	ENSG00000155657	ENST00000360870	T	0.60672	0.17	5.23	3.42	0.39159	.	.	.	.	.	T	0.04452	0.0122	N	0.24115	0.695	0.09310	N	0.999999	B	0.06786	0.001	B	0.06405	0.002	T	0.02126	-1.1209	9	0.16420	T	0.52	.	13.5505	0.61730	0.0:0.8613:0.0:0.1387	.	4389	Q8WZ42-6	.	I	4389	ENSP00000354117:V4389I	ENSP00000354117:V4389I	V	-	1	0	TTN	179322207	0.001000	0.12720	0.000000	0.03702	0.000000	0.00434	1.120000	0.31271	0.434000	0.26340	-2.010000	0.00438	GTC		0.343	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		T	179613962	C	T	179613962	1	4	687	0	1	0	0	0	0	0	0	0	16747	478	17	2		2	TTN	2	179613962	Intron	SNP	C	TCGA-KO-8417-01A-11D-2310-10	9120285	179613962	63585411	20	44508										
C2orf88	84281	bcgsc.ca	37	chr2	191064753	191064753	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ggaacctccagggaccaataCtgtgatcttggaatatgcac	10	10	1	1	rs6753459	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr2:191064753C>T	ENST00000340623.4	+	2	578	c.167C>T	c.(166-168)aCt>aTt	p.T56I	C2orf88_ENST00000396974.2_Missense_Mutation_p.T56I|C2orf88_ENST00000443551.2_Missense_Mutation_p.T56I|C2orf88_ENST00000409870.1_Missense_Mutation_p.T56I	NM_001042519.1|NM_001042520.1|NM_001042521.1|NM_032321.2	NP_001035984.1|NP_001035985.1|NP_001035986.1|NP_115697.2	Q9BSF0	SMAKA_HUMAN	chromosome 2 open reading frame 88	56	PKA-RI-binding.		T -> I (in dbSNP:rs6753459). {ECO:0000269|PubMed:15489334}.			plasma membrane (GO:0005886)				kidney(1)|large_intestine(1)|lung(1)	3						GGGACCAATACTGTGATCTTG	0.458													T|||	1771	0.353634	0.5008	0.2752	5008	,	,		21385	0.4355		0.2435	False		,,,				2504	0.2393															0								T	ILE/THR,ILE/THR,ILE/THR,ILE/THR	1769,2189		415,939,625	189	191	191		167,167,167,167	-3	0	2	dbSNP_116	191	1970,6336		227,1516,2410	yes	missense,missense,missense,missense	C2orf88	NM_001042519.1,NM_001042520.1,NM_001042521.1,NM_032321.2	89,89,89,89	642,2455,3035	TT,TC,CC		23.7178,44.6943,30.4876	benign,benign,benign,benign	56/96,56/96,56/96,56/96	191064753	3739,8525	1979	4153	6132	SO:0001583	missense	84281			BC005083	CCDS42792.1	2q32.2	2014-02-12	2009-04-08		ENSG00000187699	ENSG00000187699			28191	protein-coding gene	gene with protein product	"small membrane AKAP"	615117				23996002	Standard	NM_032321		Approved	MGC13057, smAKAP	uc002urt.3	Q9BSF0	OTTHUMG00000154361	ENST00000340623.4:c.167C>T	2.37:g.191064753C>T	ENSP00000345107:p.Thr56Ile	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPI3|P0C876|Q53TC7	Missense_Mutation	SNP	ENST00000340623.4	37	CCDS42792.1	810	0.3708791208791209	246	0.5	103	0.2845303867403315	276	0.4825174825174825	185	0.24406332453825857	T	6.053	0.378138	0.11466	0.446943	0.237178	ENSG00000187699	ENST00000396974;ENST00000409545;ENST00000409870;ENST00000340623;ENST00000443551	T;T;T;T;T	0.46819	0.86;0.86;0.86;0.86;0.86	5.31	-3.0	0.05480	.	1.022090	0.07888	N	0.970707	T	0.00012	0.0000	.	.	.	0.80722	P	0.0	B	0.02656	0.0	B	0.04013	0.001	T	0.47711	-0.9096	7	.	.	.	0.2971	8.7611	0.34676	0.0:0.5139:0.114:0.3721	rs6753459;rs17845041;rs17857815;rs56561086;rs61523734;rs6753459	56	Q9BSF0	CB088_HUMAN	I	56	ENSP00000380172:T56I;ENSP00000386976:T56I;ENSP00000386649:T56I;ENSP00000345107:T56I;ENSP00000405225:T56I	.	T	+	2	0	C2orf88	190772998	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.449000	0.02392	-0.951000	0.03654	-2.280000	0.00272	ACT		0.458	C2orf88-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000334954.1	NM_032321		T	191064753	C	T	191064753	3	4	687	1	0	0	0	0	1	0	0	0	2204	565	20	2	169	2	C2orf88	2	191064753	Missense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10	11450791	191064753	52134620	21	44509										
COL4A4	1286	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr2	227924228	227924228	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gaccaaatgcagggtctcccGggattcctttctgaccattc	9	13	2	1	rs36121515	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr2:227924228G>A	ENST00000396625.3	-	28	2483	c.2276C>T	c.(2275-2277)cCg>cTg	p.P759L	COL4A4_ENST00000329662.7_Missense_Mutation_p.P759L	NM_000092.4	NP_000083.3	P53420	CO4A4_HUMAN	collagen, type IV, alpha 4	759	Triple-helical region.		P -> L (in dbSNP:rs36121515).		axon guidance (GO:0007411)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glomerular basement membrane development (GO:0032836)	basal lamina (GO:0005605)|collagen type IV trimer (GO:0005587)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(15)|lung(35)|ovary(5)|pancreas(3)|prostate(2)|skin(12)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(3)	98		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		AGGGTCTCCCGGGATTCCTTT	0.612													G|||	132	0.0263578	0.0991	0.0014	5008	,	,		13983	0.0		0.0	False		,,,				2504	0.0															0								G	LEU/PRO	308,3354		15,278,1538	78	83	82		2276	5.1	0	2	dbSNP_126	82	5,8139		0,5,4067	yes	missense	COL4A4	NM_000092.4	98	15,283,5605	AA,AG,GG		0.0614,8.4107,2.6512	probably-damaging	759/1691	227924228	313,11493	1831	4072	5903	SO:0001583	missense	1286				CCDS42828.1	2q35-q37	2014-09-17			ENSG00000081052	ENSG00000081052		"Collagens"	2206	protein-coding gene	gene with protein product	"collagen of basement membrane, alpha-4 chain"	120131				1639407	Standard	NM_000092		Approved	CA44	uc021vxs.1	P53420	OTTHUMG00000149892	ENST00000396625.3:c.2276C>T	2.37:g.227924228G>A	ENSP00000379866:p.Pro759Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8MTZ1|Q53RW9|Q53S42|Q53WR1	Missense_Mutation	SNP	ENST00000396625.3	37	CCDS42828.1	46	0.021062271062271064	45	0.09146341463414634	1	0.0027624309392265192	0	0.0	0	0.0	G	20.4	3.975804	0.74360	0.084107	6.14E-4	ENSG00000081052	ENST00000396625;ENST00000329662	D;D	0.96685	-4.09;-4.09	5.99	5.09	0.68999	.	.	.	.	.	T	0.51227	0.1662	M	0.76838	2.35	0.40369	D	0.979327	P	0.48503	0.911	B	0.33121	0.158	T	0.73379	-0.4001	9	0.49607	T	0.09	.	12.3916	0.55362	0.081:0.0:0.919:0.0	rs36121515;rs61284557	759	P53420	CO4A4_HUMAN	L	759	ENSP00000379866:P759L;ENSP00000328553:P759L	ENSP00000328553:P759L	P	-	2	0	COL4A4	227632472	0.998000	0.40836	0.036000	0.18154	0.993000	0.82548	4.002000	0.57053	1.474000	0.48178	0.655000	0.94253	CCG		0.612	COL4A4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000313770.1	NM_000092		A	227924228	G	A	227924228	3	1	687	1	0	0	0	0	1	0	0	0	3695	1116	39	1	2880	1	COL4A4	2	227924228	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	36859475	227924228	15275145	22	44510										
UGT1A9	54600	broad.mit.edu;hgsc.bcm.edu	37	chr2	234581245	234581245	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ggaacatttattatgccaccGttttttcaaaaatgccctag	6	9	1	0			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr2:234581245G>A	ENST00000354728.4	+	1	747	c.665G>A	c.(664-666)cGt>cAt	p.R222H	UGT1A10_ENST00000344644.5_Intron|UGT1A1_ENST00000373450.4_Intron|UGT1A10_ENST00000373445.1_Intron|UGT1A1_ENST00000609637.1_Missense_Mutation_p.R222H			O60656	UD19_HUMAN	UDP glucuronosyltransferase 1 family, polypeptide A9	222					cellular glucuronidation (GO:0052695)|cellular lipid metabolic process (GO:0044255)|drug metabolic process (GO:0017144)|flavone metabolic process (GO:0051552)|flavonoid glucuronidation (GO:0052696)|metabolic process (GO:0008152)|negative regulation of catalytic activity (GO:0043086)|negative regulation of cellular glucuronidation (GO:2001030)|negative regulation of fatty acid metabolic process (GO:0045922)|retinoic acid metabolic process (GO:0042573)|small molecule metabolic process (GO:0044281)|xenobiotic glucuronidation (GO:0052697)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	enzyme binding (GO:0019899)|enzyme inhibitor activity (GO:0004857)|glucuronosyltransferase activity (GO:0015020)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|retinoic acid binding (GO:0001972)	p.R222H(2)		breast(2)|endometrium(3)|kidney(3)|large_intestine(9)|lung(14)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)	37		Breast(86;0.000766)|all_lung(227;0.00269)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0331)|Lung NSC(271;0.0459)|Lung SC(224;0.128)		Epithelial(121;1.26e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000436)|Lung(119;0.00347)|LUSC - Lung squamous cell carcinoma(224;0.00757)	Acetaminophen(DB00316)|Buprenorphine(DB00921)|Canagliflozin(DB08907)|Dabigatran etexilate(DB06695)|Dapagliflozin(DB06292)|Entacapone(DB00494)|Etodolac(DB00749)|Ezogabine(DB04953)|Flurbiprofen(DB00712)|Haloperidol(DB00502)|Human Serum Albumin(DB00062)|Hydromorphone(DB00327)|Ibuprofen(DB01050)|Indomethacin(DB00328)|Irinotecan(DB00762)|Ketobemidone(DB06738)|Lumiracoxib(DB01283)|Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|Nateglinide(DB00731)|Niflumic Acid(DB04552)|Oxazepam(DB00842)|Propofol(DB00818)|Regorafenib(DB08896)|Sorafenib(DB00398)|Sulfamethoxazole(DB01015)|Tapentadol(DB06204)|Valproic Acid(DB00313)|Zileuton(DB00744)	TTATGCCACCGTTTTTTCAAA	0.428																																																2	Substitution - Missense(2)	upper_aerodigestive_tract(1)|large_intestine(1)											215	224	221					2																	234581245		2203	4300	6503	SO:0001583	missense	54600			AF056188	CCDS2505.1	2q37	2010-03-05	2005-07-20		ENSG00000241119	ENSG00000241119		"UDP glucuronosyltransferases"	12541	other	complex locus constituent		606434	"UDP glycosyltransferase 1 family, polypeptide A9"			9295054, 1910331	Standard	NM_021027		Approved	HLUGP4, LUGP4, UGT1AI		O60656	OTTHUMG00000059124	ENST00000354728.4:c.665G>A	2.37:g.234581245G>A	ENSP00000346768:p.Arg222His	Somatic		WXS	Illumina HiSeq	Phase_I	B8K285|P36509|Q9HAX0	Missense_Mutation	SNP	ENST00000354728.4	37	CCDS2505.1	.	.	.	.	.	.	.	.	.	.	G	4.521	0.096669	0.08681	.	.	ENSG00000241119	ENST00000354728	T	0.63913	-0.07	3.22	-5.2	0.02823	.	.	.	.	.	T	0.30823	0.0777	N	0.12182	0.205	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.001	T	0.19451	-1.0305	9	0.16420	T	0.52	.	1.2724	0.02024	0.3067:0.2019:0.0882:0.4033	.	222;222	Q5DSZ5;O60656	.;UD19_HUMAN	H	222	ENSP00000346768:R222H	ENSP00000346768:R222H	R	+	2	0	UGT1A9	234245984	0.000000	0.05858	0.000000	0.03702	0.010000	0.07245	-0.600000	0.05693	-0.368000	0.08040	-0.760000	0.03462	CGT		0.428	UGT1A9-001	KNOWN	basic|appris_principal|readthrough_transcript|CCDS	protein_coding	protein_coding	OTTHUMT00000130995.1	NM_021027		A	234581245	G	A	234581245	3	1	687	1	0	0	0	0	1	0	0	0	16964	1145	40	1	667	1	UGT1A9	2	234581245	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	6657017	234581245	8618128	23	44511										
STK25	10494	broad.mit.edu;bcgsc.ca	37	chr2	242437048	242437048	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	cacctctccgaagacgggccGgaccagcgtggacaggcact	13	15	1	1	rs140408761		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr2:242437048G>A	ENST00000316586.4	-	10	1436	c.1087C>T	c.(1087-1089)Cgg>Tgg	p.R363W	STK25_ENST00000401869.1_Missense_Mutation_p.R363W|STK25_ENST00000478403.1_5'UTR|STK25_ENST00000405883.3_Missense_Mutation_p.R286W|STK25_ENST00000403346.3_Missense_Mutation_p.R363W|STK25_ENST00000535007.1_Missense_Mutation_p.R269W|STK25_ENST00000405585.1_Missense_Mutation_p.R286W|STK25_ENST00000543554.1_Missense_Mutation_p.R269W	NM_001271977.1|NM_001271978.1|NM_001282308.1	NP_001258906.1|NP_001258907.1|NP_001269237.1	O00506	STK25_HUMAN	serine/threonine kinase 25	363					establishment or maintenance of cell polarity (GO:0007163)|Golgi localization (GO:0051645)|positive regulation of axonogenesis (GO:0050772)|response to oxidative stress (GO:0006979)|signal transduction (GO:0007165)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|kidney(1)|large_intestine(2)|lung(5)|upper_aerodigestive_tract(1)	10		all_cancers(19;2.09e-34)|all_epithelial(40;2.09e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Ovarian(221;0.069)|Lung NSC(271;0.0886)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.2)		Epithelial(32;8.24e-34)|all cancers(36;3.46e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.6e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.1e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0839)		AAGACGGGCCGGACCAGCGTG	0.657																																					NSCLC(99;1100 1566 7679 28647 48345)											0								G	TRP/ARG	1,4405	2.1+/-5.4	0,1,2202	71	72	71		1087	3.4	1	2	dbSNP_134	71	0,8600		0,0,4300	no	missense	STK25	NM_006374.3	101	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	possibly-damaging	363/427	242437048	1,13005	2203	4300	6503	SO:0001583	missense	10494			D63780	CCDS2549.1, CCDS63199.1, CCDS63200.1	2q37.3	2010-06-25	2010-06-25		ENSG00000115694	ENSG00000115694			11404	protein-coding gene	gene with protein product		602255	"serine/threonine kinase 25 (Ste20, yeast homolog)"			8887545, 9160885, 15037601	Standard	NM_001271977		Approved	SOK1, YSK1	uc002wbp.4	O00506	OTTHUMG00000133408	ENST00000316586.4:c.1087C>T	2.37:g.242437048G>A	ENSP00000325748:p.Arg363Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6Z3|A8K7D2|B7Z9K1|Q15522|Q5BJF1	Missense_Mutation	SNP	ENST00000316586.4	37	CCDS2549.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	16.86|16.86	3.240112|3.240112	0.58995|0.58995	2.27E-4|2.27E-4	0.0|0.0	ENSG00000115694|ENSG00000115694	ENST00000423004|ENST00000316586;ENST00000403346;ENST00000401869;ENST00000405883;ENST00000545437;ENST00000405585;ENST00000543554;ENST00000535007	.|T;T;T;T;T;T;T	.|0.38077	.|1.16;1.16;1.16;1.16;1.16;1.16;1.16	5.17|5.17	3.37|3.37	0.38596|0.38596	.|.	.|0.318737	.|0.28630	.|N	.|0.014677	T|T	0.23094|0.23094	0.0558|0.0558	N|N	0.08118|0.08118	0|0	0.35762|0.35762	D|D	0.820274|0.820274	.|P;P;B	.|0.40398	.|0.716;0.716;0.41	.|B;P;B	.|0.44860	.|0.39;0.462;0.339	T|T	0.29640|0.29640	-1.0005|-1.0005	5|10	.|0.66056	.|D	.|0.02	.|.	8.2258|8.2258	0.31568|0.31568	0.0716:0.0:0.6497:0.2787|0.0716:0.0:0.6497:0.2787	.|.	.|289;286;363	.|B4DVS7;A8K6Z3;O00506	.|.;.;STK25_HUMAN	L|W	206|363;363;363;286;269;286;269;269	.|ENSP00000325748:R363W;ENSP00000384162:R363W;ENSP00000385687:R363W;ENSP00000384444:R286W;ENSP00000385541:R286W;ENSP00000444886:R269W;ENSP00000446008:R269W	.|ENSP00000325748:R363W	P|R	-|-	2|1	0|2	STK25|STK25	242085721|242085721	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.808000|0.808000	0.45660|0.45660	3.009000|3.009000	0.49552|0.49552	0.692000|0.692000	0.31613|0.31613	-0.152000|-0.152000	0.13540|0.13540	CCG|CGG		0.657	STK25-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257265.4	NM_006374		A	242437048	G	A	242437048	3	1	687	1	0	0	0	0	1	0	0	0	15306	1115	39	1	205	1	STK25	2	242437048	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	7855803	242437048	762325	24	44512										
IMPDH2	54870	hgsc.bcm.edu	37	chr3	49065314	49065314	+	IGR	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	acgcgatccttggggctgagGaccacagggtctgtgatgaa	15	9	1	3	rs139765703		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr3:49065314G>A	ENST00000395443.2	-	0	3549				RP13-131K19.6_ENST00000607245.1_RNA|IMPDH2_ENST00000326739.4_Silent_p.V120V	NM_198880.1	NP_942581.1	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1							nucleus (GO:0005634)				breast(2)|endometrium(5)|large_intestine(8)|lung(8)|ovary(1)|skin(1)	25				BRCA - Breast invasive adenocarcinoma(193;8.88e-05)|Kidney(197;0.00239)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		TGGGGCTGAGGACCACAGGGT	0.537																																																0								G		2,4404	4.2+/-10.8	0,2,2201	60	54	56		360	3.2	1	3	dbSNP_134	56	0,8600		0,0,4300	no	coding-synonymous	IMPDH2	NM_000884.2		0,2,6501	AA,AG,GG		0.0,0.0454,0.0154		120/515	49065314	2,13004	2203	4300	6503	SO:0001628	intergenic_variant	3615				CCDS2787.1	3p21.31	2011-06-03			ENSG00000198218	ENSG00000198218			24713	protein-coding gene	gene with protein product						12477932	Standard	NM_017730		Approved	FLJ20259	uc003cvv.3	Q2TAL8	OTTHUMG00000156772		3.37:g.49065314G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0F7|Q7L621|Q8TEA5	Silent	SNP	ENST00000395443.2	37	CCDS2787.1	.	.	.	.	.	.	.	.	.	.	G	10.31	1.314174	0.23908	4.54E-4	0.0	ENSG00000178035	ENST00000429182	.	.	.	5.94	3.18	0.36537	.	.	.	.	.	T	0.58864	0.2152	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.51926	-0.8643	4	.	.	.	-44.2625	9.3153	0.37930	0.1361:0.4861:0.3778:0.0	.	.	.	.	S	52	.	.	P	-	1	0	IMPDH2	49040318	0.996000	0.38824	1.000000	0.80357	0.968000	0.65278	0.434000	0.21494	0.407000	0.25591	-0.264000	0.10439	CCT		0.537	QRICH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345669.1	NM_017730		A	49065314	G	A	49065314	1	1	687	0	1	0	0	0	0	0	0	0	7734	1161	41	2		2	IMPDH2	3	49065314	IGR	SNP	G	TCGA-KO-8417-01A-11D-2310-10		49065314	148957116	25	44513										
LPP	4026	bcgsc.ca	37	chr3	188327555	188327555	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	accagaaccctcctgggatgTatccagtcactggtcccaag	9	14	1	1	rs7645635	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr3:188327555T>C	ENST00000312675.4	+	6	1282	c.1036T>C	c.(1036-1038)Tat>Cat	p.Y346H	LPP_ENST00000448637.1_Missense_Mutation_p.Y346H|LPP_ENST00000543006.1_Missense_Mutation_p.Y346H|LPP_ENST00000471917.1_3'UTR	NM_001167672.1|NM_005578.3	NP_001161144.1|NP_005569.1	Q93052	LPP_HUMAN	LIM domain containing preferred translocation partner in lipoma	346	Pro-rich.		Y -> H (in dbSNP:rs7645635).		cell adhesion (GO:0007155)	cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	zinc ion binding (GO:0008270)		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)		TCCTGGGATGTATCCAGTCAC	0.522			T	"HMGA2, MLL, C12orf9"	"lipoma, leukemia"								T|||	1002	0.20008	0.7126	0.0764	5008	,	,		18753	0.0		0.005	False		,,,				2504	0.002						Dom	yes		3	3q28	4026	LIM domain containing preferred translocation partner in lipoma		"L, M"	0								T	HIS/TYR,,HIS/TYR	2581,1825		769,1043,391	42	42	42		1036,,1036	6.2	0.9	3	dbSNP_116	42	34,8564		0,34,4265	yes	missense,intron,missense	LPP	NM_001167671.1,NM_001167672.1,NM_005578.3	83,,83	769,1077,4656	CC,CT,TT		0.3954,41.4208,20.1092	probably-damaging,,probably-damaging	346/613,,346/613	188327555	2615,10389	2203	4299	6502	SO:0001583	missense	4026			AL833171	CCDS3291.1	3q27-q28	2004-03-02	2002-01-14		ENSG00000145012	ENSG00000145012			6679	protein-coding gene	gene with protein product		600700	"LIM domain-containing preferred translocation partner in lipoma"			8812423	Standard	XM_005247453		Approved		uc003frs.2	Q93052	OTTHUMG00000156387	ENST00000312675.4:c.1036T>C	3.37:g.188327555T>C	ENSP00000318089:p.Tyr346His	Somatic		WXS	Illumina HiSeq	Phase_I	A1L4L6|D3DNV6|Q8NFX5	Missense_Mutation	SNP	ENST00000312675.4	37	CCDS3291.1	360	0.16483516483516483	328	0.6666666666666666	28	0.07734806629834254	0	0.0	4	0.005277044854881266	T	16.16	3.043406	0.55003	0.585792	0.003954	ENSG00000145012	ENST00000448637;ENST00000312675;ENST00000543006;ENST00000415906	T;T;T;T	0.54866	1.79;0.55;0.55;1.41	6.17	6.17	0.99709	.	0.188754	0.37348	N	0.002140	T	0.00012	0.0000	M	0.66939	2.045	0.22050	P	0.999392708	D;D	0.89917	1.0;0.999	D;D	0.91635	0.999;0.965	T	0.47611	-0.9104	9	0.15499	T	0.54	.	16.0034	0.80327	0.0:0.0:0.0:1.0	rs7645635;rs52823079;rs57290235;rs7645635	346;346	C9JUT4;Q93052	.;LPP_HUMAN	H	346;346;346;183	ENSP00000393602:Y346H;ENSP00000318089:Y346H;ENSP00000438891:Y346H;ENSP00000393008:Y183H	ENSP00000318089:Y346H	Y	+	1	0	LPP	189810249	1.000000	0.71417	0.850000	0.33497	0.194000	0.23727	5.358000	0.66064	2.371000	0.80710	0.533000	0.62120	TAT		0.522	LPP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344030.1	NM_005578		C	188327555	T	C	188327555	3	2	687	1	0	0	0	0	1	0	0	0	8930	1638	57	3	1050	3	LPP	3	188327555	Missense_Mutation	SNP	T	TCGA-KO-8417-01A-11D-2310-10	139262241	188327555	9694875	26	44514										
POLN	353497	mdanderson.org	37	chr4	2175733	2175733	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tctttgttcacctgaatggcAtggctttccatcactgtgat	8	10	3	2	rs2022302	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr4:2175733A>G	ENST00000511885.2	-	11	1676	c.1323T>C	c.(1321-1323)caT>caC	p.H441H	POLN_ENST00000382865.1_Silent_p.H441H|POLN_ENST00000515357.1_5'UTR			Q7Z5Q5	DPOLN_HUMAN	polymerase (DNA directed) nu	441					double-strand break repair via homologous recombination (GO:0000724)|interstrand cross-link repair (GO:0036297)|translesion synthesis (GO:0019985)	nucleus (GO:0005634)	cyclin binding (GO:0030332)|DNA binding (GO:0003677)|DNA-directed DNA polymerase activity (GO:0003887)			kidney(6)|large_intestine(5)|liver(1)|lung(8)|ovary(2)|skin(4)|urinary_tract(2)	28			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			CCTGAATGGCATGGCTTTCCA	0.418								DNA polymerases (catalytic subunits)					G|||	1612	0.321885	0.5703	0.2435	5008	,	,		24761	0.373		0.1243	False		,,,				2504	0.1922															0								G		2221,2185	586.4+/-386.5	581,1059,563	270	231	244		1323	-0.9	0	4	dbSNP_94	244	995,7605	773.9+/-407.7	60,875,3365	no	coding-synonymous	POLN	NM_181808.2		641,1934,3928	GG,GA,AA		11.5698,49.5915,24.727		441/901	2175733	3216,9790	2203	4300	6503	SO:0001819	synonymous_variant	353497			AF044578	CCDS3360.1	4p16.3	2012-05-18			ENSG00000130997	ENSG00000130997		"DNA polymerases"	18870	protein-coding gene	gene with protein product		610887				12794064	Standard	NM_181808		Approved		uc003ger.2	Q7Z5Q5	OTTHUMG00000090081	ENST00000511885.2:c.1323T>C	4.37:g.2175733A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A2A336|B4E158|Q4TTW4|Q6ZNF4	Silent	SNP	ENST00000511885.2	37	CCDS3360.1	677	0.309981684981685	281	0.5711382113821138	91	0.2513812154696133	210	0.36713286713286714	95	0.12532981530343007	G	0.009	-1.809418	0.00606	0.504085	0.115698	ENSG00000130997	ENST00000511098	.	.	.	4.28	-0.849	0.10723	.	.	.	.	.	T	0.00012	0.0000	.	.	.	0.51012	P	9.80000000000425E-5	.	.	.	.	.	.	T	0.46400	-0.9194	3	.	.	.	-3.7462	9.2076	0.37298	0.5601:0.0:0.4399:0.0	rs2022302;rs61574681;rs2022302	.	.	.	T	75	.	.	M	-	2	0	POLN	2145531	0.000000	0.05858	0.007000	0.13788	0.003000	0.03518	-1.618000	0.02049	-0.617000	0.05664	-2.725000	0.00131	ATG		0.418	POLN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000205684.2	NM_181808		G	2175733	A	G	2175733	2	3	687	1	0	0	0	0	0	0	0	1	12214	214	8	3		3	POLN	4	2175733	Silent	SNP	A	TCGA-KO-8417-01A-11D-2310-10		2175733	188978543	27	44515										
SLIT2	9353	mdanderson.org	37	chr4	20535317	20535317	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gcagcataagatgttcaaggGattggaaagcctcaaaactt	10	7	2	1			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr4:20535317G>C	ENST00000504154.1	+	18	2063	c.1811G>C	c.(1810-1812)gGa>gCa	p.G604A	SLIT2_ENST00000503823.1_Missense_Mutation_p.G596A|SLIT2_ENST00000503837.1_Missense_Mutation_p.G600A|SLIT2_ENST00000273739.5_Missense_Mutation_p.G608A	NM_004787.1	NP_004778.1	O94813	SLIT2_HUMAN	slit homolog 2 (Drosophila)	604					apoptotic process involved in luteolysis (GO:0061364)|axon extension involved in axon guidance (GO:0048846)|axon guidance (GO:0007411)|branching morphogenesis of an epithelial tube (GO:0048754)|cell migration involved in sprouting angiogenesis (GO:0002042)|cellular response to heparin (GO:0071504)|cellular response to hormone stimulus (GO:0032870)|chemorepulsion involved in postnatal olfactory bulb interneuron migration (GO:0021836)|corticospinal neuron axon guidance through spinal cord (GO:0021972)|dorsal/ventral axon guidance (GO:0033563)|in utero embryonic development (GO:0001701)|induction of negative chemotaxis (GO:0050929)|mammary duct terminal end bud growth (GO:0060763)|metanephros development (GO:0001656)|motor neuron axon guidance (GO:0008045)|negative chemotaxis (GO:0050919)|negative regulation of actin filament polymerization (GO:0030837)|negative regulation of axon extension (GO:0030517)|negative regulation of catalytic activity (GO:0043086)|negative regulation of cell growth (GO:0030308)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cellular response to growth factor stimulus (GO:0090288)|negative regulation of chemokine-mediated signaling pathway (GO:0070100)|negative regulation of endothelial cell migration (GO:0010596)|negative regulation of gene expression (GO:0010629)|negative regulation of lamellipodium assembly (GO:0010593)|negative regulation of leukocyte chemotaxis (GO:0002689)|negative regulation of monocyte chemotaxis (GO:0090027)|negative regulation of mononuclear cell migration (GO:0071676)|negative regulation of neutrophil chemotaxis (GO:0090024)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of retinal ganglion cell axon guidance (GO:0090260)|negative regulation of small GTPase mediated signal transduction (GO:0051058)|negative regulation of smooth muscle cell chemotaxis (GO:0071672)|negative regulation of smooth muscle cell migration (GO:0014912)|negative regulation of vascular permeability (GO:0043116)|positive regulation of apoptotic process (GO:0043065)|positive regulation of axonogenesis (GO:0050772)|response to cortisol (GO:0051414)|retinal ganglion cell axon guidance (GO:0031290)|Roundabout signaling pathway (GO:0035385)|single organismal cell-cell adhesion (GO:0016337)|ureteric bud development (GO:0001657)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|chemorepellent activity (GO:0045499)|GTPase inhibitor activity (GO:0005095)|heparin binding (GO:0008201)|identical protein binding (GO:0042802)|laminin-1 binding (GO:0043237)|protein homodimerization activity (GO:0042803)|proteoglycan binding (GO:0043394)|Roundabout binding (GO:0048495)			NS(1)|breast(4)|central_nervous_system(4)|cervix(1)|endometrium(5)|kidney(7)|large_intestine(17)|lung(60)|ovary(3)|pancreas(1)|prostate(2)|skin(10)|upper_aerodigestive_tract(1)	116						ATGTTCAAGGGATTGGAAAGC	0.383																																																0													159	158	158					4																	20535317		2203	4300	6503	SO:0001583	missense	9353			AF055585	CCDS3426.1, CCDS75110.1, CCDS75111.1	4p15.2	2008-08-01	2001-11-28		ENSG00000145147	ENSG00000145147			11086	protein-coding gene	gene with protein product		603746	"slit (Drosophila) homolog 2"	SLIL3		9813312, 18269211	Standard	XM_005248211		Approved	Slit-2	uc003gpr.1	O94813	OTTHUMG00000128551	ENST00000504154.1:c.1811G>C	4.37:g.20535317G>C	ENSP00000422591:p.Gly604Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLR5|O95710|Q17RU3|Q9Y5Q7	Missense_Mutation	SNP	ENST00000504154.1	37	CCDS3426.1	.	.	.	.	.	.	.	.	.	.	G	27.3	4.822940	0.90873	.	.	ENSG00000145147	ENST00000503823;ENST00000504154;ENST00000273739;ENST00000382173;ENST00000503837	T;T;T;T	0.25085	1.82;1.82;1.82;1.82	5.09	5.09	0.68999	.	0.000000	0.85682	D	0.000000	T	0.55146	0.1902	M	0.80982	2.52	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.75020	0.985;0.967	T	0.61912	-0.6965	10	0.87932	D	0	.	18.4759	0.90792	0.0:0.0:1.0:0.0	.	596;604	O94813-3;O94813	.;SLIT2_HUMAN	A	596;604;608;600;600	ENSP00000427548:G596A;ENSP00000422591:G604A;ENSP00000273739:G608A;ENSP00000422261:G600A	ENSP00000273739:G608A	G	+	2	0	SLIT2	20144415	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	9.745000	0.98856	2.366000	0.80165	0.561000	0.74099	GGA		0.383	SLIT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250396.2			C	20535317	G	C	20535317	3	2	687	1	0	0	0	0	1	0	0	0	14753	1174	41	4	1881	4	SLIT2	4	20535317	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	18359584	20535317	170618959	28	44516										
BBS12	166379	broad.mit.edu;mdanderson.org	37	chr4	123663688	123663688	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	agcagataacaacacatcacGaactctgaaaaacagcctgc	6	12	2	2			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr4:123663688G>A	ENST00000314218.3	+	2	834	c.641G>A	c.(640-642)cGa>cAa	p.R214Q	BBS12_ENST00000542236.1_Missense_Mutation_p.R214Q	NM_152618.2	NP_689831.2	Q6ZW61	BBS12_HUMAN	Bardet-Biedl syndrome 12	214					cellular protein metabolic process (GO:0044267)|chaperone-mediated protein complex assembly (GO:0051131)|eating behavior (GO:0042755)|intraciliary transport (GO:0042073)|negative regulation of fat cell differentiation (GO:0045599)|photoreceptor cell maintenance (GO:0045494)	cilium (GO:0005929)	ATP binding (GO:0005524)			cervix(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(6)|ovary(2)|prostate(4)	21						AACACATCACGAACTCTGAAA	0.398									Bardet-Biedl syndrome																																							0													76	77	77					4																	123663688		2203	4300	6503	SO:0001583	missense	166379	Familial Cancer Database	BBS, Bardet-Biedl syndrome, type 1-12: BBS1-12,Laurence-Moon-Biedl syndrome	AK123553	CCDS3728.1	4q27	2014-06-17	2006-12-13	2006-12-13	ENSG00000181004	ENSG00000181004		"Heat Shock Proteins / Chaperonins"	26648	protein-coding gene	gene with protein product		610683	"chromosome 4 open reading frame 24"	C4orf24		17160889	Standard	NM_001178007		Approved	FLJ35630, FLJ41559	uc003ieu.3	Q6ZW61	OTTHUMG00000133070	ENST00000314218.3:c.641G>A	4.37:g.123663688G>A	ENSP00000319062:p.Arg214Gln	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNX5|Q7Z342|Q7Z482|Q8NAB8	Missense_Mutation	SNP	ENST00000314218.3	37	CCDS3728.1	.	.	.	.	.	.	.	.	.	.	G	0.018	-1.467434	0.01053	.	.	ENSG00000181004	ENST00000314218;ENST00000542236	T;T	0.67171	-0.25;-0.25	4.99	-2.79	0.05841	.	0.380610	0.26911	N	0.021862	T	0.21590	0.0520	N	0.01048	-1.04	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.37244	-0.9714	10	0.02654	T	1	-15.624	2.5248	0.04689	0.4039:0.3436:0.1412:0.1113	.	214	Q6ZW61	BBS12_HUMAN	Q	214	ENSP00000319062:R214Q;ENSP00000438273:R214Q	ENSP00000319062:R214Q	R	+	2	0	BBS12	123883138	0.000000	0.05858	0.000000	0.03702	0.233000	0.25261	0.181000	0.16880	-0.294000	0.08973	-0.451000	0.05528	CGA		0.398	BBS12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256710.1	NM_152618		A	123663688	G	A	123663688	3	1	687	1	0	0	0	0	1	0	0	0	1337	1058	37	1	643	1	BBS12	4	123663688	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	103128371	123663688	67490588	29	44517										
HCN1	348980	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	45396746	45396746	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tggggcttgggctccataccCaatgcacagcatgtgactca	11	12	1	1			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr5:45396746C>G	ENST00000303230.4	-	4	1135	c.1078G>C	c.(1078-1080)Ggg>Cgg	p.G360R		NM_021072.3	NP_066550.2	O60741	HCN1_HUMAN	hyperpolarization activated cyclic nucleotide-gated potassium channel 1	360					apical protein localization (GO:0045176)|cellular response to cAMP (GO:0071320)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|regulation of membrane potential (GO:0042391)|retinal cone cell development (GO:0046549)|sodium ion transmembrane transport (GO:0035725)|synaptic transmission (GO:0007268)	axon (GO:0030424)|dendrite (GO:0030425)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	cAMP binding (GO:0030552)|intracellular cAMP activated cation channel activity (GO:0005222)|potassium channel activity (GO:0005267)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated sodium channel activity (GO:0005248)			NS(3)|breast(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(21)|liver(1)|lung(98)|ovary(1)|prostate(7)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(5)	156						GCTCCATACCCAATGCACAGC	0.483																																																0													107	93	98					5																	45396746		2203	4300	6503	SO:0001583	missense	348980			AF064876	CCDS3952.1	5p12	2011-07-05			ENSG00000164588	ENSG00000164588		"Voltage-gated ion channels / Cyclic nucleotide-regulated channels"	4845	protein-coding gene	gene with protein product		602780		BCNG1		9405696, 9630217, 16382102	Standard	NM_021072		Approved	BCNG-1, HAC-2	uc003jok.3	O60741	OTTHUMG00000131155	ENST00000303230.4:c.1078G>C	5.37:g.45396746C>G	ENSP00000307342:p.Gly360Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000303230.4	37	CCDS3952.1	.	.	.	.	.	.	.	.	.	.	C	29.0	4.965322	0.92855	.	.	ENSG00000164588	ENST00000303230	D	0.99888	-7.54	5.18	5.18	0.71444	Ion transport (1);	0.186326	0.36101	N	0.002787	D	0.99919	0.9962	H	0.95365	3.66	0.80722	D	1	D	0.67145	0.996	D	0.74674	0.984	D	0.96259	0.9189	10	0.87932	D	0	.	18.8829	0.92364	0.0:1.0:0.0:0.0	.	360	O60741	HCN1_HUMAN	R	360	ENSP00000307342:G360R	ENSP00000307342:G360R	G	-	1	0	HCN1	45432503	1.000000	0.71417	0.995000	0.50966	0.998000	0.95712	7.651000	0.83577	2.705000	0.92388	0.650000	0.86243	GGG		0.483	HCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253847.1	NM_021072		G	45396746	C	G	45396746	3	3	687	1	0	0	0	0	1	0	0	0	7003	594	21	4	1614	4	HCN1	5	45396746	Missense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10		45396746	135518514	30	44518										
CATSPER3	347732	bcgsc.ca	37	chr5	134343766	134343766	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ctgtttggatctccagacaaTggtgaccatgataactgggg	12	8	1	3	rs3896260	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr5:134343766T>G	ENST00000282611.6	+	4	698	c.612T>G	c.(610-612)aaT>aaG	p.N204K		NM_178019.2	NP_821138.1	Q86XQ3	CTSR3_HUMAN	cation channel, sperm associated 3	204			N -> K (in dbSNP:rs3896260).		calcium ion import (GO:0070509)|membrane depolarization during action potential (GO:0086010)|multicellular organism reproduction (GO:0032504)|multicellular organismal development (GO:0007275)|single fertilization (GO:0007338)|sodium ion transport (GO:0006814)|sperm capacitation (GO:0048240)|sperm motility (GO:0030317)|sperm-egg recognition (GO:0035036)	acrosomal vesicle (GO:0001669)|CatSper complex (GO:0036128)|endoplasmic reticulum (GO:0005783)|motile cilium (GO:0031514)|plasma membrane (GO:0005886)	calcium activated cation channel activity (GO:0005227)|voltage-gated calcium channel activity (GO:0005245)			NS(1)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(2)|lung(5)|ovary(1)|stomach(1)|urinary_tract(1)	18			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CTCCAGACAATGGTGACCATG	0.552													G|||	646	0.128994	0.4584	0.0461	5008	,	,		15472	0.0		0.007	False		,,,				2504	0.001															0								G	LYS/ASN	1758,2648	644.5+/-398.0	347,1064,792	184	145	158		612	-2.1	0	5	dbSNP_108	158	24,8576	818.1+/-406.9	0,24,4276	yes	missense	CATSPER3	NM_178019.2	94	347,1088,5068	GG,GT,TT		0.2791,39.9001,13.7014	benign	204/399	134343766	1782,11224	2203	4300	6503	SO:0001583	missense	347732			AF432876	CCDS4181.1	5q31.2	2011-07-05			ENSG00000152705	ENSG00000152705		"Voltage-gated ion channels / Cation channels, sperm associated"	20819	protein-coding gene	gene with protein product		609120				12646162, 12932298, 17227845, 16382101	Standard	NM_178019		Approved	CACRC	uc003lag.3	Q86XQ3	OTTHUMG00000129137	ENST00000282611.6:c.612T>G	5.37:g.134343766T>G	ENSP00000282611:p.Asn204Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q86XS6	Missense_Mutation	SNP	ENST00000282611.6	37	CCDS4181.1	241	0.11034798534798534	221	0.4491869918699187	17	0.04696132596685083	0	0.0	3	0.00395778364116095	G	0.003	-2.468589	0.00169	0.399001	0.002791	ENSG00000152705	ENST00000282611	D	0.97553	-4.43	4.33	-2.08	0.07254	Ion transport (1);	1.918400	0.01976	N	0.044466	T	0.00012	0.0000	N	0.02539	-0.55	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.50440	-0.8828	8	.	.	.	1.4415	0.1834	0.00126	0.2523:0.1883:0.202:0.3574	rs3896260;rs52815255;rs60117234;rs3896260	204	Q86XQ3	CTSR3_HUMAN	K	204	ENSP00000282611:N204K	.	N	+	3	2	CATSPER3	134371665	0.000000	0.05858	0.000000	0.03702	0.016000	0.09150	-1.154000	0.03166	-0.973000	0.03555	-0.358000	0.07595	AAT		0.552	CATSPER3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251191.2	NM_178019		G	134343766	T	G	134343766	3	3	687	1	0	0	0	0	1	0	0	0	2691	1461	51	5	626	5	CATSPER3	5	134343766	Missense_Mutation	SNP	T	TCGA-KO-8417-01A-11D-2310-10	88947020	134343766	46571494	31	44519										
PCDHA6	56142	mdanderson.org	37	chr5	140207965	140207965	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tcgaccgcgaggagctgtgcGggcggagcgcggagtgcagc	20	11	0	0	rs150162226	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr5:140207965G>C	ENST00000529310.1	+	1	403	c.289G>C	c.(289-291)Ggg>Cgg	p.G97R	PCDHA1_ENST00000504120.2_Intron|PCDHA2_ENST00000526136.1_Intron|PCDHA1_ENST00000394633.3_Intron|PCDHA4_ENST00000530339.1_Intron|PCDHA3_ENST00000522353.2_Intron|PCDHA4_ENST00000512229.2_Intron|PCDHA6_ENST00000527624.1_Missense_Mutation_p.G97R|PCDHA5_ENST00000529859.1_Intron|PCDHA5_ENST00000529619.1_Intron	NM_018909.2|NM_031848.2|NM_031849.1	NP_061732.1|NP_114036.1|NP_114037.1	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6	97	Cadherin 1. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|nervous system development (GO:0007399)	extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(11)|lung(42)|prostate(8)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	89			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAGCTGTGCGGGCGGAGCGC	0.577																																																0													111	127	121					5																	140207965		2203	4291	6494	SO:0001583	missense	56142			AF152484	CCDS47281.1, CCDS47282.1	5q31	2010-11-26			ENSG00000081842	ENSG00000081842		"Cadherins / Protocadherins : Clustered"	8672	other	complex locus constituent	"KIAA0345-like 8"	606312		CNRS2		10380929, 10662547	Standard	NM_018909		Approved	CNR2, CRNR2, PCDH-ALPHA6		Q9UN73	OTTHUMG00000163353	ENST00000529310.1:c.289G>C	5.37:g.140207965G>C	ENSP00000433378:p.Gly97Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O75283|Q9NRT8	Missense_Mutation	SNP	ENST00000529310.1	37	CCDS47281.1	.	.	.	.	.	.	.	.	.	.	G	9.482	1.098477	0.20552	.	.	ENSG00000081842	ENST00000529310;ENST00000527624	T;T	0.30981	1.51;1.51	3.87	3.87	0.44632	Cadherin, N-terminal (1);Cadherin (3);Cadherin-like (1);	0.213176	0.22539	U	0.058753	T	0.37945	0.1022	M	0.70595	2.14	0.26008	N	0.98203	D;P;P	0.56287	0.975;0.915;0.791	P;P;P	0.46389	0.515;0.49;0.51	T	0.34625	-0.9821	10	0.51188	T	0.08	.	12.2854	0.54789	0.0:0.1713:0.8287:0.0	.	97;97;97	Q9UN73-3;Q9UN73;Q9UN73-2	.;PCDA6_HUMAN;.	R	97	ENSP00000433378:G97R;ENSP00000434113:G97R	ENSP00000434113:G97R	G	+	1	0	PCDHA6	140188149	0.984000	0.35163	1.000000	0.80357	0.243000	0.25628	5.505000	0.66981	2.139000	0.66308	0.313000	0.20887	GGG		0.577	PCDHA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372829.3	NM_018909		C	140207965	G	C	140207965	3	2	687	1	0	0	0	0	1	0	0	0	11535	1116	39	4	291	4	PCDHA6	5	140207965	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	5864199	140207965	40707295	32	44520										
PCDH12	51294	hgsc.bcm.edu	37	chr5	141324954	141324954	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tctgaggtatgttcacaggcAcctgctgctgctgctgctgc	12	12	2	1	rs200120809		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr5:141324954A>T	ENST00000231484.3	-	4	4757	c.3547T>A	c.(3547-3549)Tgc>Agc	p.C1183S		NM_016580.2	NP_057664.1	Q9NPG4	PCD12_HUMAN	protocadherin 12	1183					calcium-dependent cell-cell adhesion (GO:0016339)|glycogen metabolic process (GO:0005977)|homophilic cell adhesion (GO:0007156)|labyrinthine layer development (GO:0060711)|neuron recognition (GO:0008038)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(13)|lung(14)|ovary(3)|prostate(2)|skin(1)	38		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTTCACAGGCACctgctgctg	0.562																																																0													22	23	23					5																	141324954		2201	4290	6491	SO:0001583	missense	51294			AF231025	CCDS4269.1	5q31.3	2010-01-26			ENSG00000113555	ENSG00000113555		"Cadherins / Protocadherins : Non-clustered"	8657	protein-coding gene	gene with protein product		605622				10716726, 10380929	Standard	NM_016580		Approved	VE-cadherin-2	uc003llx.3	Q9NPG4	OTTHUMG00000129658	ENST00000231484.3:c.3547T>A	5.37:g.141324954A>T	ENSP00000231484:p.Cys1183Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXB6|Q96KB8|Q9H7Y6|Q9H8E0	Missense_Mutation	SNP	ENST00000231484.3	37	CCDS4269.1	.	.	.	.	.	.	.	.	.	.	A	2.539	-0.306764	0.05458	.	.	ENSG00000113555	ENST00000231484	T	0.48836	0.8	5.54	3.42	0.39159	.	0.703549	0.13113	N	0.412850	T	0.22666	0.0547	N	0.08118	0	0.09310	N	1	B	0.13594	0.008	B	0.09377	0.004	T	0.19745	-1.0296	10	0.20046	T	0.44	.	3.9309	0.09285	0.3566:0.4726:0.0:0.1708	.	1183	Q9NPG4	PCD12_HUMAN	S	1183	ENSP00000231484:C1183S	ENSP00000231484:C1183S	C	-	1	0	PCDH12	141305138	0.000000	0.05858	0.112000	0.21494	0.305000	0.27757	0.199000	0.17237	0.589000	0.29677	0.533000	0.62120	TGC		0.562	PCDH12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251858.1	NM_016580		T	141324954	A	T	141324954	3	4	687	1	0	0	0	0	1	0	0	0	11517	159	6	5	11	5	PCDH12	5	141324954	Missense_Mutation	SNP	A	TCGA-KO-8417-01A-11D-2310-10	1116989	141324954	39590306	33	44521										
SOX30	11063	broad.mit.edu	37	chr5	157078493	157078493	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gccgggcttttgcctgccccGccttgcatcgagtctctcat	10	16	2	0	rs371262922		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr5:157078493G>A	ENST00000265007.6	-	1	935	c.594C>T	c.(592-594)ggC>ggT	p.G198G	SOX30_ENST00000311371.5_Silent_p.G198G|SOX30_ENST00000519442.1_Intron	NM_178424.1	NP_848511.1	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30	198					regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|response to corticosteroid (GO:0031960)|spermatogenesis (GO:0007283)|transcription from RNA polymerase II promoter (GO:0006366)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(9)|ovary(1)|pancreas(1)|prostate(1)|urinary_tract(1)	23	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)			TGCCTGCCCCGCCTTGCATCG	0.657																																					Esophageal Squamous(31;525 799 19355 21125 41744)											0													64	75	71					5																	157078493		2197	4289	6486	SO:0001819	synonymous_variant	11063			AB022083	CCDS4339.1, CCDS4340.1	5q33	2010-10-21			ENSG00000039600	ENSG00000039600		"SRY (sex determining region Y)-boxes"	30635	protein-coding gene	gene with protein product		606698				15019997, 11678506	Standard	NM_178424		Approved		uc003lxb.1	O94993	OTTHUMG00000130247	ENST00000265007.6:c.594C>T	5.37:g.157078493G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O94995|Q8IYX6	Silent	SNP	ENST00000265007.6	37	CCDS4339.1																																																																																				0.657	SOX30-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252571.2	NM_007017		A	157078493	G	A	157078493	2	1	687	1	0	0	0	0	0	0	0	1	14965	1074	38	1		1	SOX30	5	157078493	Silent	SNP	G	TCGA-KO-8417-01A-11D-2310-10	15753539	157078493	23836767	34	44522										
CDHR2	54825	mdanderson.org	37	chr5	175992370	175992370	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tgtgatggcccagctatggcTgtcctgcttcctccttcctg	10	14	0	1	rs114786529	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr5:175992370T>C	ENST00000510636.1	+	2	291	c.17T>C	c.(16-18)cTg>cCg	p.L6P	CDHR2_ENST00000506348.1_Missense_Mutation_p.L6P|CDHR2_ENST00000261944.5_Missense_Mutation_p.L6P	NM_001171976.1	NP_001165447.1	Q9BYE9	CDHR2_HUMAN	cadherin-related family member 2	6					cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|negative regulation of cell growth (GO:0030308)	cell junction (GO:0030054)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(3)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(4)|large_intestine(8)|liver(1)|lung(23)|ovary(3)|prostate(5)|skin(4)|urinary_tract(1)	56						CAGCTATGGCTGTCCTGCTTC	0.617													T|||	41	0.0081869	0.0272	0.0072	5008	,	,		20034	0.0		0.0	False		,,,				2504	0.0															0								T	PRO/LEU,PRO/LEU	83,4323	72.0+/-110.0	0,83,2120	185	141	156		17,17	4.4	1	5	dbSNP_132	156	17,8583	12.6+/-44.7	0,17,4283	yes	missense,missense	CDHR2	NM_001171976.1,NM_017675.4	98,98	0,100,6403	CC,CT,TT		0.1977,1.8838,0.7689	probably-damaging,probably-damaging	6/1311,6/1311	175992370	100,12906	2203	4300	6503	SO:0001583	missense	54825			AB047004	CCDS34297.1	5q35.2	2011-07-01	2010-01-25	2010-01-25		ENSG00000074276		"Cadherins / Cadherin-related"	18231	protein-coding gene	gene with protein product	"protocadherin LKC"		"protocadherin 24"	PCDH24		11082270, 12117771	Standard	NM_001171976		Approved	PC-LKC, FLJ20124, FLJ20383, PCLKC	uc003mem.2	Q9BYE9		ENST00000510636.1:c.17T>C	5.37:g.175992370T>C	ENSP00000424565:p.Leu6Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A1L3U4|A6NC80|Q9NXP8	Missense_Mutation	SNP	ENST00000510636.1	37	CCDS34297.1	22	0.010073260073260074	20	0.04065040650406504	2	0.0055248618784530384	0	0.0	0	0.0	T	12.99	2.102143	0.37048	0.018838	0.001977	ENSG00000074276	ENST00000510636;ENST00000261944;ENST00000506348	T;T;T	0.57436	0.4;0.4;0.4	4.36	4.36	0.52297	.	.	.	.	.	T	0.28001	0.0690	L	0.38838	1.175	0.58432	D	0.999999	D	0.89917	1.0	D	0.85130	0.997	T	0.50550	-0.8815	9	0.62326	D	0.03	-15.2557	10.1165	0.42593	0.0:0.0:0.0:1.0	.	6	Q9BYE9	CDHR2_HUMAN	P	6	ENSP00000424565:L6P;ENSP00000261944:L6P;ENSP00000421078:L6P	ENSP00000261944:L6P	L	+	2	0	CDHR2	175924976	1.000000	0.71417	0.994000	0.49952	0.126000	0.20510	1.468000	0.35332	1.962000	0.57031	0.459000	0.35465	CTG		0.617	CDHR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372201.1	NM_017675		C	175992370	T	C	175992370	3	2	687	1	0	0	0	0	1	0	0	0	3121	1580	55	3	19	3	CDHR2	5	175992370	Missense_Mutation	SNP	T	TCGA-KO-8417-01A-11D-2310-10	18913877	175992370	4922890	35	44523										
ADAMTS2	9509	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr5	178580530	178580530	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gcccaggccgaagtcaaagcGgcattgctcgttcatggagt	13	11	2	0			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr5:178580530G>A	ENST00000251582.7	-	9	1578	c.1477C>T	c.(1477-1479)Cgc>Tgc	p.R493C	ADAMTS2_ENST00000274609.5_Missense_Mutation_p.R493C	NM_014244.4	NP_055059.2	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 2	493	Disintegrin.				collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular matrix organization (GO:0030198)|lung development (GO:0030324)|protein processing (GO:0016485)|skin development (GO:0043588)|spermatogenesis (GO:0007283)	extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(15)|lung(31)|ovary(1)|pancreas(3)|prostate(2)|skin(7)	72	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		AAGTCAAAGCGGCATTGCTCG	0.662																																																0													76	59	65					5																	178580530		2202	4300	6502	SO:0001583	missense	9509			AJ003125	CCDS4444.1, CCDS34311.1	5q23-q24	2008-07-18	2005-08-19		ENSG00000087116	ENSG00000087116		"ADAM metallopeptidases with thrombospondin type 1 motif"	218	protein-coding gene	gene with protein product	"procollagen I N-proteinase", "procollagen N-endopeptidase"	604539	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 2"			10094461, 15373769	Standard	NM_014244		Approved	ADAMTS-3, hPCPNI, PCINP, ADAM-TS2, NPI	uc003mjw.3	O95450	OTTHUMG00000130915	ENST00000251582.7:c.1477C>T	5.37:g.178580530G>A	ENSP00000251582:p.Arg493Cys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000251582.7	37	CCDS4444.1	.	.	.	.	.	.	.	.	.	.	G	21.3	4.125084	0.77436	.	.	ENSG00000087116	ENST00000251582;ENST00000274609	T;T	0.71103	-0.54;-0.54	4.58	3.69	0.42338	Metallopeptidase, catalytic domain (1);	0.105625	0.42548	D	0.000696	D	0.84857	0.5565	M	0.89095	3.005	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.995;0.998	D	0.86522	0.1816	10	0.87932	D	0	.	11.2801	0.49188	0.0:0.0:0.6691:0.3309	.	493;493	O95450-2;O95450	.;ATS2_HUMAN	C	493	ENSP00000251582:R493C;ENSP00000274609:R493C	ENSP00000251582:R493C	R	-	1	0	ADAMTS2	178513136	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	7.578000	0.82498	1.000000	0.39049	0.462000	0.41574	CGC		0.662	ADAMTS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253507.1	NM_014244		A	178580530	G	A	178580530	3	1	687	1	0	0	0	0	1	0	0	0	265	1116	39	1	2289	1	ADAMTS2	5	178580530	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	2588160	178580530	2334730	36	44524										
HLA-C	3107	mdanderson.org	37	chr6	31238859	31238859	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gcccctggtacctgcgcgctGcagcgtctccttcccgttct	10	18	2	0	rs41555616		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr6:31238859G>C	ENST00000376228.5	-	3	624	c.610C>G	c.(610-612)Cag>Gag	p.Q204E	HLA-C_ENST00000383329.3_Missense_Mutation_p.Q204E	NM_002117.5	NP_002108.4	Q95604	1C17_HUMAN	major histocompatibility complex, class I, C	204	Alpha-2.				antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)|viral process (GO:0016032)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	peptide antigen binding (GO:0042605)			central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(4)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)	17						CCTGCGCGCTGCAGCGTCTCC	0.657																																																0													51	44	46					6																	31238859		2202	4300	6502	SO:0001583	missense	3107			M11886	CCDS34393.1	6p21.3	2014-01-30			ENSG00000204525	ENSG00000204525		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4933	protein-coding gene	gene with protein product		142840	"psoriasis susceptibility 1"	HLA-JY3, D6S204, PSORS1		3863816, 16642438	Standard	NM_001243042		Approved		uc003nsy.3	P04222	OTTHUMG00000031154	ENST00000376228.5:c.610C>G	6.37:g.31238859G>C	ENSP00000365402:p.Gln204Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O02864|O02958|Q29643|Q9MY30	Missense_Mutation	SNP	ENST00000376228.5	37	CCDS34393.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	7.911|7.911	0.736528|0.736528	0.15574|0.15574	.|.	.|.	ENSG00000204525|ENSG00000204525	ENST00000415537|ENST00000376228;ENST00000383329;ENST00000396254;ENST00000539307	.|T;T	.|0.00008	.|9.55;9.55	2.55|2.55	1.64|1.64	0.23874|0.23874	.|MHC classes I/II-like antigen recognition protein (1);MHC class I-like antigen recognition (1);	.|2.663580	.|0.02242	.|U	.|0.065850	T|T	0.00039|0.00039	0.0001|0.0001	L|L	0.50847|0.50847	1.595|1.595	0.24729|0.24729	N|N	0.993107|0.993107	.|B;B;B;B	.|0.02656	.|0.0;0.0;0.0;0.0	.|B;B;B;B	.|0.06405	.|0.001;0.0;0.0;0.002	T|T	0.46428|0.46428	-0.9192|-0.9192	5|10	.|0.72032	.|D	.|0.01	.|.	5.1171|5.1171	0.14840|0.14840	0.0:0.2329:0.529:0.2381|0.0:0.2329:0.529:0.2381	rs41555616|rs41555616	.|204;204;204;204	.|A2AEA4;A6H578;A2AEA2;P10321	.|.;.;.;1C07_HUMAN	G|E	203|204;204;204;241	.|ENSP00000365402:Q204E;ENSP00000372819:Q204E	.|ENSP00000365402:Q204E	A|Q	-|-	2|1	0|0	HLA-C|HLA-C	31346838|31346838	0.867000|0.867000	0.29959|0.29959	0.825000|0.825000	0.32803|0.32803	0.053000|0.053000	0.15095|0.15095	1.230000|1.230000	0.32612|0.32612	0.606000|0.606000	0.29965|0.29965	0.305000|0.305000	0.20034|0.20034	GCA|CAG		0.657	HLA-C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076281.3	NM_002117		C	31238859	G	C	31238859	3	2	687	1	0	0	0	0	1	0	0	0	7204	1328	46	4	514	4	HLA-C	6	31238859	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10		31238859	139876208	37	44525										
HLA-DRB1	3123	mdanderson.org	37	chr6	32548534	32548534	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gctcctcacctttctgattcCtgaagtagatgaacagcccg	8	13	2	4	rs71547382		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr6:32548534C>T	ENST00000360004.5	-	4	857	c.752G>A	c.(751-753)aGg>aAg	p.R251K		NM_002124.3	NP_002115.2	Q30167	2B1A_HUMAN	major histocompatibility complex, class II, DR beta 1	251					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cytokine-mediated signaling pathway (GO:0019221)|interferon-gamma-mediated signaling pathway (GO:0060333)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)	clathrin-coated endocytic vesicle membrane (GO:0030669)|endocytic vesicle membrane (GO:0030666)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|late endosome membrane (GO:0031902)|lysosomal membrane (GO:0005765)|MHC class II protein complex (GO:0042613)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)|transport vesicle membrane (GO:0030658)				large_intestine(3)|lung(2)|ovary(1)|prostate(1)|skin(2)|stomach(1)	10						TTTCTGATTCCTGAAGTAGAT	0.537										Multiple Myeloma(14;0.17)																																						0																																										SO:0001583	missense	3123			AJ297583	CCDS47409.1	6p21.3	2013-01-11			ENSG00000196126	ENSG00000196126		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4948	protein-coding gene	gene with protein product		142857		HLA-DR1B			Standard	NM_001243965		Approved		uc011eri.2	P01911	OTTHUMG00000031196	ENST00000360004.5:c.752G>A	6.37:g.32548534C>T	ENSP00000353099:p.Arg251Lys	Somatic		WXS	Illumina HiSeq	Phase_I	P01914|Q9MYF5	Missense_Mutation	SNP	ENST00000360004.5	37	CCDS47409.1	.	.	.	.	.	.	.	.	.	.	.	12.57	1.976489	0.34848	.	.	ENSG00000196126	ENST00000360004	T	0.00635	6.06	3.98	1.66	0.24008	.	0.334220	0.32578	N	0.005907	T	0.00241	0.0007	L	0.33710	1.025	0.28819	N	0.897785	B;B;B	0.18166	0.026;0.026;0.0	B;B;B	0.17979	0.02;0.02;0.001	T	0.44757	-0.9307	10	0.38643	T	0.18	.	6.6584	0.23000	0.0:0.6946:0.0:0.3054	.	251;251;251	P04229;Q29974;P01911	2B11_HUMAN;2B1G_HUMAN;2B1F_HUMAN	K	251	ENSP00000353099:R251K	ENSP00000353099:R251K	R	-	2	0	HLA-DRB1	32656512	0.000000	0.05858	0.929000	0.37066	0.845000	0.48019	-0.186000	0.09670	0.802000	0.34089	0.453000	0.30009	AGG		0.537	HLA-DRB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076393.3	NM_002124		T	32548534	C	T	32548534	3	4	687	1	0	0	0	0	1	0	0	0	7215	681	24	2	60	2	HLA-DRB1	6	32548534	Missense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10	1309675	32548534	138566533	38	44526										
CAPN11	11131	hgsc.bcm.edu;bcgsc.ca	37	chr6	44137081	44137081	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	cagccggctcaaggccaaggGcgtgggccagcacgacaacg	15	14	1	0			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr6:44137081G>T	ENST00000398776.1	+	3	190	c.152G>T	c.(151-153)gGc>gTc	p.G51V	CAPN11_ENST00000542245.1_Missense_Mutation_p.G51V	NM_007058.3	NP_008989.2	Q9UMQ6	CAN11_HUMAN	calpain 11	51					proteolysis (GO:0006508)	acrosomal vesicle (GO:0001669)|cytoplasm (GO:0005737)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)|peptidase activity (GO:0008233)			breast(3)|endometrium(5)|kidney(1)|large_intestine(5)|lung(17)|ovary(1)|pancreas(1)|prostate(2)|stomach(1)	36	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)			AAGGCCAAGGGCGTGGGCCAG	0.507																																																0													40	42	41					6																	44137081		1926	4136	6062	SO:0001583	missense	11131			AJ242832	CCDS47436.1	6p12	2013-01-10			ENSG00000137225	ENSG00000137225		"EF-hand domain containing"	1478	protein-coding gene	gene with protein product		604822				10409436	Standard	NM_007058		Approved		uc003owt.1	Q9UMQ6	OTTHUMG00000014758	ENST00000398776.1:c.152G>T	6.37:g.44137081G>T	ENSP00000381758:p.Gly51Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RA64|Q5T3G1|Q8N4R5	Missense_Mutation	SNP	ENST00000398776.1	37	CCDS47436.1	.	.	.	.	.	.	.	.	.	.	G	15.93	2.976740	0.53720	.	.	ENSG00000137225	ENST00000398776;ENST00000542245;ENST00000532171	D;D;T	0.97209	-4.29;-4.29;0.98	4.1	4.1	0.47936	.	0.138591	0.33691	N	0.004649	D	0.97720	0.9252	M	0.63208	1.945	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.97601	1.0123	10	0.52906	T	0.07	.	16.5907	0.84764	0.0:0.0:1.0:0.0	.	51	Q9UMQ6	CAN11_HUMAN	V	51;51;81	ENSP00000381758:G51V;ENSP00000441078:G51V;ENSP00000432420:G81V	ENSP00000381758:G51V	G	+	2	0	CAPN11	44245059	1.000000	0.71417	0.540000	0.28089	0.016000	0.09150	7.713000	0.84693	2.574000	0.86865	0.650000	0.86243	GGC		0.507	CAPN11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040714.3			T	44137081	G	T	44137081	3	4	687	1	0	0	0	0	1	0	0	0	2626	1203	42	4	162	4	CAPN11	6	44137081	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	11588547	44137081	126977986	39	44527										
ANKMY2	57037	ucsc.edu	37	chr7	16642116	16642116	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ccagtgtgttttctggcaggTttgatcacaatatattacct	8	8	2	1			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr7:16642116T>G	ENST00000306999.2	-	9	1273	c.1030A>C	c.(1030-1032)Acc>Ccc	p.T344P		NM_020319.2	NP_064715.1	Q8IV38	ANKY2_HUMAN	ankyrin repeat and MYND domain containing 2	344						cilium (GO:0005929)	metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(8)|ovary(1)|prostate(1)|urinary_tract(1)	23	Lung NSC(10;0.103)|all_lung(11;0.204)			UCEC - Uterine corpus endometrioid carcinoma (126;0.195)		TTCTGGCAGGTTTGATCACAA	0.363																																																0													142	139	140					7																	16642116		2201	4300	6501	SO:0001583	missense	57037			AK001740	CCDS5361.1	7p21	2013-01-10			ENSG00000106524	ENSG00000106524		"Zinc fingers, MYND-type", "Ankyrin repeat domain containing"	25370	protein-coding gene	gene with protein product						12477932	Standard	NM_020319		Approved	DKFZP564O043, ZMYND20	uc003sti.3	Q8IV38	OTTHUMG00000090806	ENST00000306999.2:c.1030A>C	7.37:g.16642116T>G	ENSP00000303570:p.Thr344Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A4D124|Q659G1|Q96BL3	Missense_Mutation	SNP	ENST00000306999.2	37	CCDS5361.1	.	.	.	.	.	.	.	.	.	.	T	9.066	0.995639	0.19043	.	.	ENSG00000106524	ENST00000306999	T	0.71341	-0.56	5.27	2.84	0.33178	Zinc finger, MYND-type (3);	0.409722	0.30930	N	0.008582	T	0.62109	0.2401	L	0.52011	1.625	0.22771	N	0.998754	B	0.34349	0.45	B	0.35278	0.199	T	0.50162	-0.8860	10	0.36615	T	0.2	0.0514	9.3128	0.37915	0.1121:0.066:0.0:0.8219	.	344	Q8IV38	ANKY2_HUMAN	P	344	ENSP00000303570:T344P	ENSP00000303570:T344P	T	-	1	0	ANKMY2	16608641	0.996000	0.38824	0.983000	0.44433	0.849000	0.48306	1.904000	0.39868	0.008000	0.14787	-2.866000	0.00100	ACC		0.363	ANKMY2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207600.2	NM_020319		G	16642116	T	G	16642116	3	3	687	1	0	0	0	0	1	0	0	0	635	1725	60	5	303	5	ANKMY2	7	16642116	Missense_Mutation	SNP	T	TCGA-KO-8417-01A-11D-2310-10		16642116	142496547	40	44528										
PPP1R9A	55607	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr7	94827677	94827677	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	acagatttgttattgggcggGaaaaaccaggacaagtgagc	13	6	0	2			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr7:94827677G>A	ENST00000433881.1	+	6	2303	c.1771G>A	c.(1771-1773)Gaa>Aaa	p.E591K	PPP1R9A_ENST00000424654.1_Missense_Mutation_p.E591K|PPP1R9A_ENST00000289495.5_Missense_Mutation_p.E591K|AC002429.5_ENST00000417881.2_RNA|PPP1R9A_ENST00000340694.4_Missense_Mutation_p.E591K|PPP1R9A_ENST00000433360.1_Missense_Mutation_p.E591K|PPP1R9A_ENST00000456331.2_Missense_Mutation_p.E591K			Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory subunit 9A	591	PDZ. {ECO:0000255|PROSITE- ProRule:PRU00143}.				actin filament organization (GO:0007015)|calcium-mediated signaling (GO:0019722)|neuron projection development (GO:0031175)	cell junction (GO:0030054)|cortical actin cytoskeleton (GO:0030864)|dendritic spine (GO:0043197)|filopodium (GO:0030175)|growth cone (GO:0030426)|synapse (GO:0045202)		p.E591*(2)		breast(3)|central_nervous_system(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(11)|liver(2)|lung(22)|ovary(2)|prostate(1)|skin(4)|upper_aerodigestive_tract(8)|urinary_tract(5)	71	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			TATTGGGCGGGAAAAACCAGG	0.448										HNSCC(28;0.073)																																						2	Substitution - Nonsense(2)	lung(2)											77	78	78					7																	94827677		2203	4300	6503	SO:0001583	missense	55607			AB033048	CCDS34683.1, CCDS55127.1, CCDS55128.1	7q21.3	2013-01-10	2011-10-04		ENSG00000158528	ENSG00000158528		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits", "Sterile alpha motif (SAM) domain containing"	14946	protein-coding gene	gene with protein product		602468	"protein phosphatase 1, regulatory (inhibitor) subunit 9A"			10574462	Standard	NM_001166160		Approved	Neurabin-I, KIAA1222, FLJ20068	uc010lfj.3	Q9ULJ8	OTTHUMG00000155566	ENST00000433881.1:c.1771G>A	7.37:g.94827677G>A	ENSP00000398870:p.Glu591Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A1L494|B2RWQ1|E9PCA0|E9PCK6|E9PDX1|F8W7J9|O76059|Q9NXT2	Missense_Mutation	SNP	ENST00000433881.1	37	CCDS34683.1	.	.	.	.	.	.	.	.	.	.	G	20.8	4.048562	0.75846	.	.	ENSG00000158528	ENST00000433360;ENST00000340694;ENST00000424654;ENST00000433881;ENST00000289495;ENST00000456331	T;T;T;T;T;T	0.38401	1.14;1.14;1.14;1.14;1.14;1.14	5.61	5.61	0.85477	PDZ/DHR/GLGF (3);	0.000000	0.85682	D	0.000000	T	0.54854	0.1884	L	0.41632	1.29	0.80722	D	1	D;D;D;D;D	0.89917	0.995;1.0;1.0;0.998;0.998	D;D;D;D;D	0.85130	0.978;0.997;0.997;0.973;0.986	T	0.54536	-0.8279	10	0.87932	D	0	.	20.0173	0.97481	0.0:0.0:1.0:0.0	.	591;591;591;591;591	B7ZLX4;F8W7J9;E9PDX1;E9PCK6;Q9ULJ8	.;.;.;.;NEB1_HUMAN	K	591	ENSP00000405514:E591K;ENSP00000344524:E591K;ENSP00000411342:E591K;ENSP00000398870:E591K;ENSP00000289495:E591K;ENSP00000402893:E591K	ENSP00000289495:E591K	E	+	1	0	PPP1R9A	94665613	1.000000	0.71417	0.998000	0.56505	0.038000	0.13279	9.718000	0.98758	2.814000	0.96858	0.591000	0.81541	GAA		0.448	PPP1R9A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340662.1	NM_001166160		A	94827677	G	A	94827677	3	1	687	1	0	0	0	0	1	0	0	0	12388	1175	41	2	1789	2	PPP1R9A	7	94827677	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	78185561	94827677	64310986	41	44529										
DEFA6	1671	hgsc.bcm.edu	37	chr8	6783459	6783459	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tcctgggcatcagcctcataAgcttttgcctgcagtggatc	10	12	2	0	rs13439322	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr8:6783459A>C	ENST00000297436.2	-	1	139	c.99T>G	c.(97-99)gcT>gcG	p.A33A	GS1-24F4.3_ENST00000526235.1_RNA	NM_001926.3	NP_001917.1	Q01524	DEF6_HUMAN	defensin, alpha 6, Paneth cell-specific	33					antibacterial humoral response (GO:0019731)|defense response to fungus (GO:0050832)|innate immune response (GO:0045087)|killing of cells of other organism (GO:0031640)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi lumen (GO:0005796)				lung(4)	4			STAD - Stomach adenocarcinoma(24;0.0322)	COAD - Colon adenocarcinoma(149;0.0572)|READ - Rectum adenocarcinoma(644;0.121)		CAGCCTCATAAGCTTTTGCCT	0.557													a|||	259	0.0517173	0.1899	0.0101	5008	,	,		21955	0.001		0.0	False		,,,				2504	0.0															0								A		731,3675		66,599,1538	67	54	59		99	0.6	0	8	dbSNP_121	59	5,8595		0,5,4295	no	coding-synonymous	DEFA6	NM_001926.3		66,604,5833	CC,CA,AA		0.0581,16.591,5.6589		33/101	6783459	736,12270	2203	4300	6503	SO:0001819	synonymous_variant	1671			M98331	CCDS5960.1	8p23.1	2007-02-20			ENSG00000164822	ENSG00000164822		"Defensins, alpha"	2765	protein-coding gene	gene with protein product		600471				8417977	Standard	NM_001926		Approved	HD-6, DEF6	uc003wqt.3	Q01524	OTTHUMG00000149984	ENST00000297436.2:c.99T>G	8.37:g.6783459A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6EZF9	Silent	SNP	ENST00000297436.2	37	CCDS5960.1																																																																																				0.557	DEFA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206739.1	NM_001926		C	6783459	A	C	6783459	2	2	687	1	0	0	0	0	0	0	0	1	4395	59	3	5		5	DEFA6	8	6783459	Silent	SNP	A	TCGA-KO-8417-01A-11D-2310-10		6783459	139580563	42	44530										
EBF2	64641	bcgsc.ca	37	chr8	25708131	25708131	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tctgaatccatttccattgcCgctggagcaggcaggtgaag	12	10	1	2	rs17054477	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr8:25708131C>T	ENST00000520164.1	-	15	2212	c.1675G>A	c.(1675-1677)Ggc>Agc	p.G559S	EBF2_ENST00000408929.3_Missense_Mutation_p.G411S|EBF2_ENST00000535548.1_3'UTR	NM_022659.3	NP_073150.2	Q9HAK2	COE2_HUMAN	early B-cell factor 2	559			G -> S (in dbSNP:rs17054477).		adipose tissue development (GO:0060612)|brown fat cell differentiation (GO:0050873)|cell fate determination (GO:0001709)|positive regulation of chromatin binding (GO:0035563)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(3)|kidney(2)|large_intestine(3)|lung(22)|ovary(3)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)	39		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		TTTCCATTGCCGCTGGAGCAG	0.488													C|||	192	0.0383387	0.1377	0.0101	5008	,	,		20848	0.001		0.0	False		,,,				2504	0.002				Esophageal Squamous(166;1018 1046 3854 8328 13429 13634 14071 26624 32918)											0								C	SER/GLY	378,3518		19,340,1589	129	126	127		1675	5.4	1	8	dbSNP_123	127	28,8236		0,28,4104	yes	missense	EBF2	NM_022659.2	56	19,368,5693	TT,TC,CC		0.3388,9.7023,3.3388	benign	559/576	25708131	406,11754	1948	4132	6080	SO:0001583	missense	64641			AK021562, AK001144	CCDS43726.1	8p21.1	2007-07-26			ENSG00000221818	ENSG00000221818			19090	protein-coding gene	gene with protein product		609934				9151732	Standard	NM_022659		Approved	FLJ11500, COE2	uc003xes.2	Q9HAK2	OTTHUMG00000163838	ENST00000520164.1:c.1675G>A	8.37:g.25708131C>T	ENSP00000430241:p.Gly559Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJM4|A6NMF7|F5H645|Q66VZ3|Q6DK36|Q6IS86|Q6ISA4	Missense_Mutation	SNP	ENST00000520164.1	37	CCDS43726.1	83	0.038003663003663	77	0.1565040650406504	4	0.011049723756906077	2	0.0034965034965034965	0	0.0	C	11.94	1.788711	0.31685	0.097023	0.003388	ENSG00000221818	ENST00000520164;ENST00000408929	T;T	0.40756	1.02;1.02	5.45	5.45	0.79879	.	0.181162	0.48286	D	0.000190	T	0.00073	0.0002	N	0.02247	-0.625	0.09310	P	1.0	B	0.02656	0.0	B	0.04013	0.001	T	0.10683	-1.0619	9	0.19590	T	0.45	-17.0497	14.4976	0.67700	0.1468:0.8532:0.0:0.0	rs17054477;rs52802933;rs17054477	559	Q9HAK2	COE2_HUMAN	S	559;411	ENSP00000430241:G559S;ENSP00000386178:G411S	ENSP00000386178:G411S	G	-	1	0	EBF2	25764048	1.000000	0.71417	1.000000	0.80357	0.941000	0.58515	3.857000	0.55972	2.714000	0.92807	0.563000	0.77884	GGC		0.488	EBF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375886.2	NM_022659		T	25708131	C	T	25708131	3	4	687	1	0	0	0	0	1	0	0	0	4883	652	23	1	60	1	EBF2	8	25708131	Missense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10	18924672	25708131	120655891	43	44531										
PCMTD1	115294	mdanderson.org	37	chr8	52733214	52733214	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tgcatctcatcatttatgaaAtttctaagtgtgcgtcgaat	7	7	3	1	rs200377849		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr8:52733214A>C	ENST00000360540.5	-	7	1177	c.771T>G	c.(769-771)aaT>aaG	p.N257K	PCMTD1_ENST00000522514.1_Missense_Mutation_p.N257K|PCMTD1_ENST00000544451.1_Missense_Mutation_p.N181K|PCMTD1_ENST00000519559.1_5'UTR	NM_052937.2	NP_443169.2	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1	257						cytoplasm (GO:0005737)	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity (GO:0004719)	p.N257K(1)		NS(2)|endometrium(1)|kidney(3)|large_intestine(3)|lung(17)|prostate(2)|skin(8)|soft_tissue(1)	37		Lung NSC(129;0.0795)|all_lung(136;0.144)				CATTTATGAAATTTCTAAGTG	0.388																																																1	Substitution - Missense(1)	skin(1)											78	81	80					8																	52733214		2203	4300	6503	SO:0001583	missense	115294				CCDS6148.1, CCDS69480.1	8q11.23	2010-08-05			ENSG00000168300	ENSG00000168300			30483	protein-coding gene	gene with protein product							Standard	XM_005251146		Approved	FLJ10883	uc003xqx.4	Q96MG8	OTTHUMG00000164246	ENST00000360540.5:c.771T>G	8.37:g.52733214A>C	ENSP00000353739:p.Asn257Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q96FK9	Missense_Mutation	SNP	ENST00000360540.5	37	CCDS6148.1	.	.	.	.	.	.	.	.	.	.	A	12.61	1.991059	0.35131	.	.	ENSG00000168300	ENST00000360540;ENST00000544451;ENST00000522514	T;T;T	0.47528	0.84;0.84;0.84	5.56	-0.996	0.10218	.	0.046341	0.85682	D	0.000000	T	0.38983	0.1061	N	0.20530	0.585	0.53005	D	0.999961	P;D;B	0.65815	0.651;0.995;0.002	B;P;B	0.60886	0.122;0.88;0.002	T	0.41556	-0.9502	10	0.02654	T	1	-22.28	11.477	0.50304	0.3747:0.0:0.6253:0.0	.	127;181;257	B4E2B4;F5H1M8;Q96MG8	.;.;PCMD1_HUMAN	K	257;181;257	ENSP00000353739:N257K;ENSP00000444026:N181K;ENSP00000428099:N257K	ENSP00000353739:N257K	N	-	3	2	PCMTD1	52895767	1.000000	0.71417	0.997000	0.53966	0.989000	0.77384	3.249000	0.51437	-0.122000	0.11766	-0.250000	0.11733	AAT		0.388	PCMTD1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377909.2	NM_052937		C	52733214	A	C	52733214	3	2	687	1	0	0	0	0	1	0	0	0	11593	98	4	5	306	5	PCMTD1	8	52733214	Missense_Mutation	SNP	A	TCGA-KO-8417-01A-11D-2310-10	27025083	52733214	93630808	44	44532										
C8orf47	203111	hgsc.bcm.edu	37	chr8	99102105	99102105	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tgttatgaatgatccattccAtaaaactcctgaaggtccag	7	9	0	3	rs11994440	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr8:99102105A>G	ENST00000318528.3	+	2	1219	c.860A>G	c.(859-861)cAt>cGt	p.H287R	C8orf47_ENST00000545282.1_Intron	NM_173549.2	NP_775820.2	Q6P6B1	ERIC5_HUMAN		287	Glu-rich.		H -> R (in dbSNP:rs11994440).							kidney(1)|large_intestine(5)|lung(4)|prostate(1)|skin(2)	13	Breast(36;2.31e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.214)			GATCCATTCCATAAAACTCCT	0.443													A|||	124	0.0247604	0.0908	0.0058	5008	,	,		22739	0.0		0.0	False		,,,				2504	0.0															0								A	,ARG/HIS	390,4016	195.3+/-220.0	26,338,1839	101	93	96		,860	-3.2	0	8	dbSNP_120	96	2,8598	2.2+/-6.3	0,2,4298	yes	intron,missense	C8orf47	NM_001170806.1,NM_173549.2	,29	26,340,6137	GG,GA,AA		0.0233,8.8516,3.014	,benign	,287/375	99102105	392,12614	2203	4300	6503	SO:0001583	missense	203111																														ENST00000318528.3:c.860A>G	8.37:g.99102105A>G	ENSP00000315614:p.His287Arg	Somatic		WXS	Illumina HiSeq	Phase_I	G3V1K4|Q8N1L8	Missense_Mutation	SNP	ENST00000318528.3	37	CCDS34929.1	50	0.022893772893772892	48	0.0975609756097561	2	0.0055248618784530384	0	0.0	0	0.0	A	4.333	0.061136	0.08339	0.088516	2.33E-4	ENSG00000177459	ENST00000318528	T	0.22134	1.97	5.13	-3.19	0.05171	.	1.083140	0.07108	N	0.841664	T	0.00468	0.0015	M	0.63428	1.95	0.09310	N	1	B	0.16396	0.017	B	0.12156	0.007	T	0.33497	-0.9866	10	0.21014	T	0.42	-19.7838	5.9982	0.19505	0.2438:0.321:0.4352:0.0	rs11994440;rs52793077;rs57265963;rs11994440	287	Q6P6B1	CH047_HUMAN	R	287	ENSP00000315614:H287R	ENSP00000315614:H287R	H	+	2	0	C8orf47	99171281	0.003000	0.15002	0.000000	0.03702	0.026000	0.11368	0.598000	0.24074	-0.430000	0.07318	-0.250000	0.11733	CAT		0.443	C8orf47-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000380465.1			G	99102105	A	G	99102105	3	3	687	1	0	0	0	0	1	0	0	0	2434	217	8	3	866	3	C8orf47	8	99102105	Missense_Mutation	SNP	A	TCGA-KO-8417-01A-11D-2310-10	46368891	99102105	47261917	45	44533										
COL22A1	169044	hgsc.bcm.edu;ucsc.edu	37	chr8	139606435	139606435	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	atctgggccaggaggtaggcGagtctggctgtaaagtagaa	16	6	2	1	rs115499018	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr8:139606435G>A	ENST00000303045.6	-	63	4886	c.4440C>T	c.(4438-4440)ctC>ctT	p.L1480L	COL22A1_ENST00000435777.1_Silent_p.L1460L|COL22A1_ENST00000341807.4_5'UTR	NM_152888.1	NP_690848.1	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1480	Gly-rich.|Pro-rich.				extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)				breast(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(14)|large_intestine(29)|lung(107)|ovary(13)|pancreas(1)|prostate(3)|skin(12)|upper_aerodigestive_tract(15)|urinary_tract(4)	211	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)			GGAGGTAGGCGAGTCTGGCTG	0.572										HNSCC(7;0.00092)			G|||	54	0.0107827	0.0378	0.0043	5008	,	,		18009	0.0		0.001	False		,,,				2504	0.0															0								G		111,4295	76.8+/-115.0	2,107,2094	33	36	35		4440	-11.8	0.6	8	dbSNP_132	35	2,8598	2.2+/-6.3	0,2,4298	no	coding-synonymous	COL22A1	NM_152888.1		2,109,6392	AA,AG,GG		0.0233,2.5193,0.8688		1480/1627	139606435	113,12893	2203	4300	6503	SO:0001819	synonymous_variant	169044			AF406780	CCDS6376.1	8q24.3	2013-01-16			ENSG00000169436	ENSG00000169436		"Collagens"	22989	protein-coding gene	gene with protein product		610026					Standard	NM_152888		Approved		uc003yvd.3	Q8NFW1	OTTHUMG00000150035	ENST00000303045.6:c.4440C>T	8.37:g.139606435G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZMH0|C9K0G4|Q8IVT9	Silent	SNP	ENST00000303045.6	37	CCDS6376.1																																																																																				0.572	COL22A1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000315905.2	XM_291257		A	139606435	G	A	139606435	2	1	687	1	0	0	0	0	0	0	0	1	3683	1045	37	1		1	COL22A1	8	139606435	Silent	SNP	G	TCGA-KO-8417-01A-11D-2310-10	40504330	139606435	6757587	46	44534										
DENND3	22898	ucsc.edu	37	chr8	142204326	142204326	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	aaagtcgccatttggaaaggCgaataaacgtggctgagtct	12	7	1	1	rs1045248	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr8:142204326C>G	ENST00000262585.2	+	23	3869	c.3591C>G	c.(3589-3591)ggC>ggG	p.G1197G	DENND3_ENST00000424248.1_Silent_p.G1145G|DENND3_ENST00000523308.1_Silent_p.G247G|DENND3_ENST00000519811.1_Silent_p.G1277G	NM_014957.2	NP_055772.2	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	1197					cellular protein catabolic process (GO:0044257)|endosome to lysosome transport (GO:0008333)|positive regulation of Rab GTPase activity (GO:0032851)		Rab guanyl-nucleotide exchange factor activity (GO:0017112)			breast(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(12)|lung(19)|ovary(1)|prostate(3)|skin(4)|stomach(2)|urinary_tract(1)	55	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			TTTGGAAAGGCGAATAAACGT	0.617													G|||	2563	0.511781	0.4713	0.4625	5008	,	,		19319	0.6627		0.4085	False		,,,				2504	0.5521															0								G		2180,2226	582.3+/-385.5	540,1100,563	56	50	52		3591	-5.1	0	8	dbSNP_86	52	3283,5315	636.1+/-399.1	642,1999,1658	no	coding-synonymous	DENND3	NM_014957.2		1182,3099,2221	GG,GC,CC		38.1833,49.478,42.0102		1197/1199	142204326	5463,7541	2203	4299	6502	SO:0001819	synonymous_variant	22898			AB020677	CCDS34947.1	8q24.3	2013-01-10				ENSG00000105339		"DENN/MADD domain containing", "WD repeat domain containing"	29134	protein-coding gene	gene with protein product						10048485	Standard	NM_014957		Approved	KIAA0870	uc003yvy.3	A2RUS2		ENST00000262585.2:c.3591C>G	8.37:g.142204326C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZM28|O94947|Q2TAM7|Q6ZMS6|Q96DK3	Silent	SNP	ENST00000262585.2	37	CCDS34947.1	1101	0.5041208791208791	236	0.4796747967479675	184	0.5082872928176796	386	0.6748251748251748	295	0.3891820580474934	G	0.178	-1.064887	0.01934	0.49478	0.381833	ENSG00000105339	ENST00000518668	.	.	.	5.29	-5.14	0.02875	.	.	.	.	.	T	0.00012	0.0000	.	.	.	0.09310	P	1.0	.	.	.	.	.	.	T	0.41963	-0.9479	3	.	.	.	-22.9582	2.163	0.03829	0.147:0.3307:0.2613:0.261	rs1045248;rs3185128;rs3739225;rs1045248	.	.	.	G	1202	.	.	R	+	1	2	DENND3	142273508	0.000000	0.05858	0.013000	0.15412	0.005000	0.04900	-3.114000	0.00598	-1.350000	0.02199	-2.316000	0.00254	CGA		0.617	DENND3-201	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_014957		G	142204326	C	G	142204326	2	3	687	1	0	0	0	0	0	0	0	1	4434	755	27	4		4	DENND3	8	142204326	Silent	SNP	C	TCGA-KO-8417-01A-11D-2310-10	2597891	142204326	4159696	47	44535										
GPR172A	79581	bcgsc.ca	37	chr8	145583036	145583036	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gggctcctgggctgcggtcaAtgggatctgggtggagctac	18	9	2	0	rs141698844		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr8:145583036A>G	ENST00000532887.1	+	2	666	c.83A>G	c.(82-84)aAt>aGt	p.N28S	SLC52A2_ENST00000402965.1_Missense_Mutation_p.N28S|FBXL6_ENST00000331890.5_5'Flank|FBXL6_ENST00000455319.2_5'Flank|FBXL6_ENST00000526524.1_5'Flank|SLC52A2_ENST00000530047.1_Missense_Mutation_p.N28S|SLC52A2_ENST00000526752.1_Missense_Mutation_p.N28S|SLC52A2_ENST00000540505.1_Intron|SLC52A2_ENST00000527078.1_Missense_Mutation_p.N28S|SLC52A2_ENST00000526891.1_Intron|SLC52A2_ENST00000329994.2_Missense_Mutation_p.N28S			Q9HAB3	S52A2_HUMAN	solute carrier family 52 (riboflavin transporter), member 2	28					riboflavin transport (GO:0032218)	integral component of plasma membrane (GO:0005887)	riboflavin transporter activity (GO:0032217)|virus receptor activity (GO:0001618)									Gamma Hydroxybutyric Acid(DB01440)	GCTGCGGTCAATGGGATCTGG	0.662													A|||	1	0.000199681	0.0	0.0	5008	,	,		18507	0.0		0.001	False		,,,				2504	0.0															0								A	SER/ASN	2,4400	4.2+/-10.8	0,2,2199	84	77	79		83	1.7	0	8	dbSNP_134	79	2,8598	2.2+/-6.3	0,2,4298	yes	missense	GPR172A	NM_024531.3	46	0,4,6497	GG,GA,AA		0.0233,0.0454,0.0308	probably-damaging	28/446	145583036	4,12998	2201	4300	6501	SO:0001583	missense	79581			AY070774	CCDS6423.1	8q24.3	2013-07-17	2013-07-17	2012-02-29		ENSG00000185803		"Solute carriers"	30224	protein-coding gene	gene with protein product		607882	"G protein-coupled receptor 172A"	GPR172A		12740431	Standard	NM_024531		Approved	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3	uc003zcd.2	Q9HAB3		ENST00000532887.1:c.83A>G	8.37:g.145583036A>G	ENSP00000436768:p.Asn28Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6B6|D3DWL8|G1UCY1|Q86UT1	Missense_Mutation	SNP	ENST00000532887.1	37	CCDS6423.1	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	A	19.02	3.744904	0.69418	4.54E-4	2.33E-4	ENSG00000185803	ENST00000524541;ENST00000530047;ENST00000527078;ENST00000526338;ENST00000402965;ENST00000534725;ENST00000532887;ENST00000329994;ENST00000526752	T;T;T;T;T;T;T;T;T	0.78816	-1.21;-1.21;-1.21;-1.21;-1.21;-1.21;-1.21;-1.21;-1.21	4.33	1.72	0.24424	.	0.053970	0.64402	D	0.000001	D	0.85173	0.5636	M	0.84773	2.715	0.80722	D	1	D	0.69078	0.997	D	0.75020	0.985	T	0.82133	-0.0608	10	0.52906	T	0.07	.	5.0614	0.14559	0.7124:0.1836:0.104:0.0	.	28	Q9HAB3	RFT3_HUMAN	S	28	ENSP00000434239:N28S;ENSP00000435820:N28S;ENSP00000434728:N28S;ENSP00000433583:N28S;ENSP00000385961:N28S;ENSP00000431965:N28S;ENSP00000436768:N28S;ENSP00000333638:N28S;ENSP00000433796:N28S	ENSP00000333638:N28S	N	+	2	0	GPR172A	145553844	0.993000	0.37304	0.047000	0.18901	0.654000	0.38779	3.228000	0.51270	0.531000	0.28639	0.379000	0.24179	AAT		0.662	SLC52A2-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382405.1	NM_024531		G	145583036	A	G	145583036	3	3	687	1	0	0	0	0	1	0	0	0	6676	101	4	3	85	3	GPR172A	8	145583036	Missense_Mutation	SNP	A	TCGA-KO-8417-01A-11D-2310-10	3378710	145583036	780986	48	44536										
ZNF658	26149	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chr9	40774999	40774999	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	cacagaggtttttcttgtttTtcccggatccctttgatgtg	9	9	1	2			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr9:40774999T>A	ENST00000602553.1	-	5	570	c.276A>T	c.(274-276)gaA>gaT	p.E92D	ZNF658_ENST00000441795.1_Missense_Mutation_p.E90D|ZNF658_ENST00000377626.3_Missense_Mutation_p.E92D			Q5TYW1	ZN658_HUMAN	zinc finger protein 658	92					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(3)|central_nervous_system(1)|endometrium(6)|kidney(1)|large_intestine(9)|lung(21)|ovary(2)|prostate(1)|upper_aerodigestive_tract(2)	46				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		TTTCTTGTTTTTCCCGGATCC	0.308																																																0													11	14	13					9																	40774999		687	1633	2320	SO:0001583	missense	26149			AA482262	CCDS75846.1	9p13.1	2013-01-08			ENSG00000196409	ENSG00000274349		"Zinc fingers, C2H2-type", "-"	25226	protein-coding gene	gene with protein product							Standard	NM_033160		Approved	MGC35232, DKFZp572C163, FLJ32813	uc004abs.2	Q5TYW1	OTTHUMG00000013392	ENST00000602553.1:c.276A>T	9.37:g.40774999T>A	ENSP00000473484:p.Glu92Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PIP3|Q96M55|Q9H9S6|Q9UG02	Missense_Mutation	SNP	ENST00000602553.1	37	CCDS35023.1	.	.	.	.	.	.	.	.	.	.	t	13.60	2.284284	0.40394	.	.	ENSG00000196409	ENST00000441795;ENST00000377626	T;T	0.08193	3.23;3.12	2.3	0.937	0.19494	.	.	.	.	.	T	0.07369	0.0186	L	0.45581	1.43	0.09310	N	0.99999	P;B	0.40302	0.712;0.092	B;B	0.40375	0.327;0.05	T	0.29305	-1.0016	9	0.14252	T	0.57	.	5.9381	0.19177	0.0:0.0:0.466:0.534	.	92;92	Q5TYW1-2;Q5TYW1	.;ZN658_HUMAN	D	90;92	ENSP00000408462:E90D;ENSP00000366853:E92D	ENSP00000366853:E92D	E	-	3	2	ZNF658	40764999	0.883000	0.30277	0.058000	0.19502	0.013000	0.08279	0.808000	0.27154	1.092000	0.41356	0.321000	0.21382	GAA		0.308	ZNF658-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467800.1	NM_033160		A	40774999	T	A	40774999	3	1	687	1	0	0	0	0	1	0	0	0	18081	1838	64	5	2907	5	ZNF658	9	40774999	Missense_Mutation	SNP	T	TCGA-KO-8417-01A-11D-2310-10		40774999	100438432	49	44537										
PPP6C	5537	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	chr9	127915854	127915854	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	aaaagccaacctgctcctcgGggactgatagcccaggtatc	10	13	0	1			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr9:127915854G>A	ENST00000373547.4	-	6	726	c.627C>T	c.(625-627)ccC>ccT	p.P209P	PPP6C_ENST00000451402.1_Silent_p.P246P|PPP6C_ENST00000373546.3_Silent_p.P62P|PPP6C_ENST00000415905.1_Silent_p.P187P	NM_002721.4	NP_002712.1	O00743	PPP6_HUMAN	protein phosphatase 6, catalytic subunit	209					G1/S transition of mitotic cell cycle (GO:0000082)|protein dephosphorylation (GO:0006470)	cytosol (GO:0005829)	metal ion binding (GO:0046872)|protein serine/threonine phosphatase activity (GO:0004722)			NS(2)|endometrium(1)|large_intestine(4)|liver(1)|lung(2)|ovary(1)|skin(3)	14						CTGCTCCTCGGGGACTGATAG	0.438																																																0													76	72	74					9																	127915854		2203	4300	6503	SO:0001819	synonymous_variant	5537			AF035158	CCDS6861.1, CCDS48018.1, CCDS48019.1	9q33.3	2010-03-17			ENSG00000119414	ENSG00000119414		"Serine/threonine phosphatases / Protein phosphatase, catalytic subunits"	9323	protein-coding gene	gene with protein product		612725				9143513	Standard	NM_002721		Approved	PP6	uc004bpg.4	O00743	OTTHUMG00000020671	ENST00000373547.4:c.627C>T	9.37:g.127915854G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R5V6|B7Z2W9|B7Z5K9|Q5U0A2|Q9UIC9	Silent	SNP	ENST00000373547.4	37	CCDS6861.1																																																																																				0.438	PPP6C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054060.1	NM_016294		A	127915854	G	A	127915854	2	1	687	1	0	0	0	0	0	0	0	1	12417	1219	43	2		2	PPP6C	9	127915854	Silent	SNP	G	TCGA-KO-8417-01A-11D-2310-10	87140855	127915854	13297577	50	44538										
ZBTB43	23099	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr9	129595572	129595572	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gcgagggcatggatgtgcacGcgacctacgacgagcaccag	15	12	0	0			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr9:129595572G>A	ENST00000373464.4	+	3	1048	c.784G>A	c.(784-786)Gcg>Acg	p.A262T	ZBTB43_ENST00000449886.1_Missense_Mutation_p.A262T|ZBTB43_ENST00000373457.1_Missense_Mutation_p.A262T	NM_014007.3	NP_054726.1	O43298	ZBT43_HUMAN	zinc finger and BTB domain containing 43	262					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(3)|breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(2)|lung(2)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	14						GGATGTGCACGCGACCTACGA	0.607																																																0													59	49	52					9																	129595572		2203	4300	6503	SO:0001583	missense	23099			AF049907	CCDS6867.1	9q33.3	2013-01-09	2006-04-12	2006-04-12	ENSG00000169155	ENSG00000169155		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	17908	protein-coding gene	gene with protein product			"zinc finger protein 297B"	ZNF297B			Standard	NM_014007		Approved	KIAA0414, ZNF-X, FLJ22470, ZBTB22B	uc010mxf.3	O43298	OTTHUMG00000020693	ENST00000373464.4:c.784G>A	9.37:g.129595572G>A	ENSP00000362563:p.Ala262Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JU96	Missense_Mutation	SNP	ENST00000373464.4	37	CCDS6867.1	.	.	.	.	.	.	.	.	.	.	G	9.187	1.025052	0.19433	.	.	ENSG00000169155	ENST00000449886;ENST00000373464;ENST00000373457	T;T;T	0.10288	2.89;2.89;2.89	5.49	4.6	0.57074	.	0.257564	0.33290	N	0.005072	T	0.05593	0.0147	N	0.19112	0.55	0.09310	N	1	B	0.27679	0.185	B	0.12837	0.008	T	0.39187	-0.9626	10	0.13470	T	0.59	.	7.3486	0.26678	0.1583:0.1397:0.7021:0.0	.	262	O43298	ZBT43_HUMAN	T	262	ENSP00000390344:A262T;ENSP00000362563:A262T;ENSP00000362556:A262T	ENSP00000362556:A262T	A	+	1	0	ZBTB43	128635393	0.011000	0.17503	0.781000	0.31783	0.724000	0.41520	1.177000	0.31969	1.463000	0.47967	-0.448000	0.05591	GCG		0.607	ZBTB43-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054124.1	NM_001135776		A	129595572	G	A	129595572	3	1	687	1	0	0	0	0	1	0	0	0	17556	1087	38	1	786	1	ZBTB43	9	129595572	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	1679718	129595572	11617859	51	44539										
MYST4	23522	hgsc.bcm.edu	37	chr10	76790413	76790413	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	cacccatcagtcacaaatctAtgggcgctcccagactgtag	8	14	3	1	rs143966521		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr10:76790413A>G	ENST00000287239.4	+	18	6320	c.5831A>G	c.(5830-5832)tAt>tGt	p.Y1944C	KAT6B_ENST00000372725.1_Missense_Mutation_p.Y1652C|KAT6B_ENST00000372724.1_Missense_Mutation_p.Y1652C|KAT6B_ENST00000372711.1_Missense_Mutation_p.Y1761C|KAT6B_ENST00000372714.1_Missense_Mutation_p.Y1652C	NM_001256468.1|NM_012330.3	NP_001243397.1|NP_036462.2	Q8WYB5	KAT6B_HUMAN	K(lysine) acetyltransferase 6B	1944	Interaction with RUNX1 and RUNX2.				chromatin organization (GO:0006325)|histone acetylation (GO:0016573)|histone H3 acetylation (GO:0043966)|negative regulation of transcription, DNA-templated (GO:0045892)|nucleosome assembly (GO:0006334)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	MOZ/MORF histone acetyltransferase complex (GO:0070776)|nucleoplasm (GO:0005654)|nucleosome (GO:0000786)|nucleus (GO:0005634)	acetyltransferase activity (GO:0016407)|DNA binding (GO:0003677)|histone acetyltransferase activity (GO:0004402)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)	p.Y1944C(1)									TCACAAATCTATGGGCGCTCC	0.552																																																1	Substitution - Missense(1)	lung(1)						A	CYS/TYR	0,4406		0,0,2203	86	86	86		5831	5.7	1	10	dbSNP_134	86	1,8599	1.2+/-3.3	0,1,4299	no	missense	KAT6B	NM_012330.2	194	0,1,6502	GG,GA,AA		0.0116,0.0,0.0077	probably-damaging	1944/2074	76790413	1,13005	2203	4300	6503	SO:0001583	missense	23522			AF113514	CCDS7345.1, CCDS58084.1, CCDS58085.1	10q22.2	2013-01-28	2011-07-21	2011-07-21	ENSG00000156650	ENSG00000156650		"Chromatin-modifying enzymes / K-acetyltransferases", "Zinc fingers, C2HC-type containing", "Zinc fingers, PHD-type"	17582	protein-coding gene	gene with protein product	"MOZ-related factor"	605880	"MYST histone acetyltransferase (monocytic leukemia) 4"	MYST4		9205841, 10497217	Standard	NM_012330		Approved	querkopf, qkf, Morf, MOZ2, ZC2HC6B	uc001jwn.2	Q8WYB5	OTTHUMG00000018509	ENST00000287239.4:c.5831A>G	10.37:g.76790413A>G	ENSP00000287239:p.Tyr1944Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O15087|Q86Y05|Q8WU81|Q9UKW2|Q9UKW3|Q9UKX0	Missense_Mutation	SNP	ENST00000287239.4	37	CCDS7345.1	.	.	.	.	.	.	.	.	.	.	A	14.09	2.432460	0.43224	0.0	1.16E-4	ENSG00000156650	ENST00000372725;ENST00000372724;ENST00000287239;ENST00000372714;ENST00000372711	D;D;D;D;D	0.87650	-2.13;-2.13;-2.28;-2.13;-2.14	5.69	5.69	0.88448	.	0.000000	0.45361	D	0.000363	D	0.89822	0.6826	L	0.29908	0.895	0.58432	D	0.999998	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.997;0.999;0.998	D	0.91276	0.5048	10	0.87932	D	0	-10.2811	15.9322	0.79672	1.0:0.0:0.0:0.0	.	1761;1652;1944	Q8WYB5-2;Q8WYB5-3;Q8WYB5	.;.;KAT6B_HUMAN	C	1652;1652;1944;1652;1761	ENSP00000361810:Y1652C;ENSP00000361809:Y1652C;ENSP00000287239:Y1944C;ENSP00000361799:Y1652C;ENSP00000361796:Y1761C	ENSP00000287239:Y1944C	Y	+	2	0	KAT6B	76460419	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	8.962000	0.93254	2.165000	0.68154	0.460000	0.39030	TAT		0.552	KAT6B-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048771.1	NM_012330		G	76790413	A	G	76790413	3	3	687	1	0	0	0	0	1	0	0	0	10112	449	16	3	5893	3	MYST4	10	76790413	Missense_Mutation	SNP	A	TCGA-KO-8417-01A-11D-2310-10		76790413	58744334	52	44540										
TDRD1	56165	hgsc.bcm.edu	37	chr10	115987678	115987678	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tgtgcttttagaaaagatgtAtaggatgaattgctgctgca	11	4	0	3	rs34112549	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr10:115987678A>G	ENST00000369280.1	+	23	3645	c.3185A>G	c.(3184-3186)tAt>tGt	p.Y1062C	TDRD1_ENST00000422662.1_Missense_Mutation_p.Y666C|TDRD1_ENST00000369282.1_Missense_Mutation_p.Y1062C|TDRD1_ENST00000251864.2_Missense_Mutation_p.Y1138C|TDRD1_ENST00000369281.2_Missense_Mutation_p.Y1024C			Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	1061					DNA methylation involved in gamete generation (GO:0043046)|gene silencing by RNA (GO:0031047)|germ cell development (GO:0007281)|meiotic nuclear division (GO:0007126)|multicellular organismal development (GO:0007275)|piRNA metabolic process (GO:0034587)|spermatogenesis (GO:0007283)	chromatoid body (GO:0033391)|cytoplasm (GO:0005737)|P granule (GO:0043186)|pi-body (GO:0071546)	metal ion binding (GO:0046872)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(15)|ovary(1)|prostate(2)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(5)	48		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		GAAAAGATGTATAGGATGAAT	0.318													A|||	56	0.0111821	0.0408	0.0014	5008	,	,		18848	0.0		0.001	False		,,,				2504	0.0															0								A	CYS/TYR	164,4240	109.1+/-147.4	5,154,2043	114	108	110		3413	-3.2	0	10	dbSNP_126	110	4,8596	3.7+/-12.6	0,4,4296	yes	missense	TDRD1	NM_198795.1	194	5,158,6339	GG,GA,AA		0.0465,3.7239,1.2919	benign	1138/1190	115987678	168,12836	2202	4300	6502	SO:0001583	missense	56165			AF285606	CCDS7588.1	10q26.11	2013-01-23			ENSG00000095627	ENSG00000095627		"Tudor domain containing"	11712	protein-coding gene	gene with protein product	"cancer/testis antigen 41.1"	605796				11279525	Standard	NM_198795		Approved	CT41.1	uc001lbg.1	Q9BXT4	OTTHUMG00000019083	ENST00000369280.1:c.3185A>G	10.37:g.115987678A>G	ENSP00000358286:p.Tyr1062Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEN3|A6NMN2|B3KVI4|B4E2L5|D3DRC2|Q4G0Y8|Q6P518|Q9H7B3	Missense_Mutation	SNP	ENST00000369280.1	37		24	0.01098901098901099	23	0.046747967479674794	0	0.0	0	0.0	1	0.0013192612137203166	A	6.628	0.484402	0.12641	0.037239	4.65E-4	ENSG00000095627	ENST00000369282;ENST00000251864;ENST00000369281;ENST00000422662;ENST00000369280	T;T;T;T;T	0.17370	3.13;3.13;2.28;2.55;3.13	5.3	-3.16	0.05217	.	1.884470	0.02263	N	0.067712	T	0.01353	0.0044	N	0.04508	-0.205	0.09310	N	1	B;B;B;B;B	0.02656	0.0;0.0;0.0;0.0;0.0	B;B;B;B;B	0.04013	0.001;0.0;0.0;0.001;0.001	T	0.30563	-0.9974	10	0.36615	T	0.2	6.9222	13.0699	0.59055	0.3937:0.0:0.6063:0.0	rs34112549	666;1138;1024;1138;1024	Q9BXT4-4;Q9BXT4;B7WPM2;Q9BXT4-3;Q9BXT4-2	.;TDRD1_HUMAN;.;.;.	C	1062;1138;1024;666;1062	ENSP00000358288:Y1062C;ENSP00000251864:Y1138C;ENSP00000358287:Y1024C;ENSP00000402794:Y666C;ENSP00000358286:Y1062C	ENSP00000251864:Y1138C	Y	+	2	0	TDRD1	115977668	0.000000	0.05858	0.000000	0.03702	0.018000	0.09664	0.001000	0.13038	-0.599000	0.05798	-0.973000	0.02599	TAT		0.318	TDRD1-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000050457.2			G	115987678	A	G	115987678	3	3	687	1	0	0	0	0	1	0	0	0	15742	449	16	3	3503	3	TDRD1	10	115987678	Missense_Mutation	SNP	A	TCGA-KO-8417-01A-11D-2310-10	39197265	115987678	19547069	53	44541										
OR51I2	390064	hgsc.bcm.edu	37	chr11	5475431	5475431	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tgaggaacgcctcaaagctcTcaacacatgtgtgtcacata	8	11	3	1	rs199654892|rs35301588	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr11:5475431T>A	ENST00000341449.2	+	1	794	c.713T>A	c.(712-714)cTc>cAc	p.L238H	AC104389.28_ENST00000415970.1_RNA|HBE1_ENST00000380237.1_Intron|HBG2_ENST00000380259.2_Intron|HBG2_ENST00000380252.1_Intron	NM_001004754.2	NP_001004754.1	Q9H344	O51I2_HUMAN	olfactory receptor, family 51, subfamily I, member 2	238					detection of chemical stimulus involved in sensory perception of smell (GO:0050911)|sensory perception of smell (GO:0007608)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(3)|kidney(1)|large_intestine(7)|lung(8)|ovary(2)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)	29		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.09e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTCAAAGCTCTCAACACATGT	0.498																																																0													282	237	252					11																	5475431		2201	4297	6498	SO:0001583	missense	390064			BK004381	CCDS31383.1	11p15.4	2012-08-09			ENSG00000187918	ENSG00000187918		"GPCR / Class A : Olfactory receptors"	15201	protein-coding gene	gene with protein product							Standard	NM_001004754		Approved		uc010qzf.2	Q9H344	OTTHUMG00000066902	ENST00000341449.2:c.713T>A	11.37:g.5475431T>A	ENSP00000341987:p.Leu238His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF81	Missense_Mutation	SNP	ENST00000341449.2	37	CCDS31383.1	.	.	.	.	.	.	.	.	.	.	T	14.64	2.594810	0.46318	.	.	ENSG00000187918	ENST00000341449	T	0.00207	8.55	5.58	5.58	0.84498	GPCR, rhodopsin-like superfamily (1);	0.110868	0.40908	D	0.000997	T	0.00875	0.0029	H	0.95574	3.69	0.31649	N	0.647016	D	0.76494	0.999	D	0.66847	0.947	T	0.03325	-1.1048	10	0.87932	D	0	.	14.7227	0.69320	0.0:0.0:0.0:1.0	.	238	Q9H344	O51I2_HUMAN	H	238	ENSP00000341987:L238H	ENSP00000341987:L238H	L	+	2	0	OR51I2	5432007	0.880000	0.30214	1.000000	0.80357	0.415000	0.31203	5.792000	0.69052	2.343000	0.79666	0.533000	0.62120	CTC		0.498	OR51I2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000143385.1	NM_001004754		A	5475431	T	A	5475431	3	1	687	1	0	0	0	0	1	0	0	0	11108	1551	54	5	715	5	OR51I2	11	5475431	Missense_Mutation	SNP	T	TCGA-KO-8417-01A-11D-2310-10		5475431	129531085	54	44542										
DNHD1	144132	bcgsc.ca	37	chr11	6524072	6524072	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gacttccttcctggatagccAggtgatgactgctctgaaga	11	10	1	4	rs11605196	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr11:6524072A>C	ENST00000527990.2	+	2	836	c.836A>C	c.(835-837)cAg>cCg	p.Q279P	DNHD1_ENST00000354685.3_Missense_Mutation_p.Q279P|DNHD1_ENST00000254579.6_Missense_Mutation_p.Q279P			Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1	279			Q -> P (in dbSNP:rs11605196).		microtubule-based movement (GO:0007018)	dynein complex (GO:0030286)|extracellular vesicular exosome (GO:0070062)	microtubule motor activity (GO:0003777)			NS(1)|autonomic_ganglia(1)|breast(4)|endometrium(13)|kidney(6)|large_intestine(11)|lung(14)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	55		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		CTGGATAGCCAGGTGATGACT	0.502													A|||	499	0.0996406	0.0408	0.147	5008	,	,		20522	0.0169		0.1789	False		,,,				2504	0.1493															0								A	PRO/GLN,PRO/GLN	277,4125	155.2+/-188.4	10,257,1934	122	102	109		836,836	4.5	0	11	dbSNP_120	109	1636,6956	302.2+/-305.8	165,1306,2825	yes	missense,missense	DNHD1	NM_144666.2,NM_173589.3	76,76	175,1563,4759	CC,CA,AA		19.041,6.2926,14.7222	benign,benign	279/4754,279/598	6524072	1913,11081	2201	4296	6497	SO:0001583	missense	144132			AK128064	CCDS44532.1, CCDS7767.1	11p15.4	2011-02-10		2005-11-28	ENSG00000179532	ENSG00000179532			26532	protein-coding gene	gene with protein product			"chromosome 11 open reading frame 47", "dynein heavy chain domain 1-like", "coiled-coil domain containing 35"	DHCD1, C11orf47, DNHD1L, CCDC35		12975309	Standard	NM_173589		Approved	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796	uc001mdw.4	Q96M86	OTTHUMG00000133403	ENST00000527990.2:c.836A>C	11.37:g.6524072A>C	ENSP00000436180:p.Gln279Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKK8|Q6UWI9|Q8NAA2|Q8TEE6|Q9NSZ9	Missense_Mutation	SNP	ENST00000527990.2	37	CCDS44532.1	224	0.10256410256410256	26	0.052845528455284556	46	0.1270718232044199	11	0.019230769230769232	141	0.18601583113456466	A	11.40	1.627054	0.28978	0.062926	0.19041	ENSG00000179532	ENST00000254579;ENST00000354685;ENST00000527990	T;T;T	0.27890	1.64;2.65;1.64	5.64	4.52	0.55395	.	0.540708	0.18166	N	0.149607	T	0.00039	0.0001	L	0.40543	1.245	0.80722	P	0.0	P;B	0.44578	0.838;0.004	B;B	0.41813	0.367;0.004	T	0.18178	-1.0345	9	0.28530	T	0.3	.	8.2343	0.31616	0.9095:0.0:0.0905:0.0	rs11605196;rs52824639;rs11605196	279;279	Q96M86;Q96M86-4	DNHD1_HUMAN;.	P	279	ENSP00000254579:Q279P;ENSP00000346716:Q279P;ENSP00000436180:Q279P	ENSP00000254579:Q279P	Q	+	2	0	DNHD1	6480648	0.000000	0.05858	0.019000	0.16419	0.032000	0.12392	0.115000	0.15540	0.971000	0.38288	0.460000	0.39030	CAG		0.502	DNHD1-007	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384673.2	NM_144666		C	6524072	A	C	6524072	3	2	687	1	0	0	0	0	1	0	0	0	4670	188	7	5	842	5	DNHD1	11	6524072	Missense_Mutation	SNP	A	TCGA-KO-8417-01A-11D-2310-10	1048641	6524072	128482444	55	44543										
PHF21A	51317	ucsc.edu	37	chr11	46001380	46001380	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tggtggtggtactgctgctgTtgttgtagttgctgtagtgg	17	4	0	0	rs151038480		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr11:46001380T>C	ENST00000418153.2	-	6	490	c.291A>G	c.(289-291)caA>caG	p.Q97Q	PHF21A_ENST00000323180.6_Silent_p.Q97Q|PHF21A_ENST00000257821.4_Silent_p.Q97Q			Q96BD5	PF21A_HUMAN	PHD finger protein 21A	97	Gln-rich.				blood coagulation (GO:0007596)|chromatin modification (GO:0016568)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of transcription, DNA-templated (GO:0006355)|suckling behavior (GO:0001967)|transcription, DNA-templated (GO:0006351)	histone deacetylase complex (GO:0000118)|nucleoplasm (GO:0005654)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			central_nervous_system(2)|cervix(1)|endometrium(3)|large_intestine(10)|lung(9)|skin(2)|upper_aerodigestive_tract(2)	29						actgctgctgttgttgtagtt	0.498																																																0								T	,	3,4401	6.2+/-15.9	0,3,2199	343	268	294		291,291	-6.8	0.1	11	dbSNP_134	294	0,8598		0,0,4299	no	coding-synonymous,coding-synonymous	PHF21A	NM_001101802.1,NM_016621.3	,	0,3,6498	CC,CT,TT		0.0,0.0681,0.0231	,	97/681,97/635	46001380	3,12999	2202	4299	6501	SO:0001819	synonymous_variant	51317			AL359593	CCDS31474.1, CCDS44578.1	11p11.2	2013-01-28			ENSG00000135365	ENSG00000135365		"Zinc fingers, PHD-type"	24156	protein-coding gene	gene with protein product		608325				11214970, 12032298	Standard	NM_001101802		Approved	BHC80, KIAA1696, BM-006	uc001ncc.4	Q96BD5	OTTHUMG00000167038	ENST00000418153.2:c.291A>G	11.37:g.46001380T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DQP5|Q6AWA2|Q9C0G7|Q9H8V9|Q9HAK6|Q9NZE9	Silent	SNP	ENST00000418153.2	37	CCDS44578.1																																																																																				0.498	PHF21A-004	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000392583.1	NM_016621		C	46001380	T	C	46001380	2	2	687	1	0	0	0	0	0	0	0	1	11840	1722	60	3		3	PHF21A	11	46001380	Silent	SNP	T	TCGA-KO-8417-01A-11D-2310-10	39477308	46001380	89005136	56	44544										
CARD17	440068	mdanderson.org;bcgsc.ca	37	chr11	104971257	104971257	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tacctgctgagagtcccagcGtccctgccaggtgactgtct	11	14	1	2	rs12806837	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr11:104971257G>A	ENST00000375707.1	-	2	273	c.257C>T	c.(256-258)aCg>aTg	p.T86M	CASP1_ENST00000598974.1_Intron|CASP1_ENST00000593315.1_Intron|CASP1_ENST00000594519.1_Intron|CARD16_ENST00000525374.1_Intron|CASP1_ENST00000415981.2_Intron	NM_001007232.1	NP_001007233.1	Q5XLA6	CAR17_HUMAN	caspase recruitment domain family, member 17	86	CARD. {ECO:0000255|PROSITE- ProRule:PRU00046}.				regulation of apoptotic process (GO:0042981)	cytoplasm (GO:0005737)	cysteine-type endopeptidase inhibitor activity (GO:0004869)			breast(1)|large_intestine(1)|lung(2)|ovary(1)|stomach(1)	6						GAGTCCCAGCGTCCCTGCCAG	0.488													.|||	512	0.102236	0.143	0.2233	5008	,	,		20238	0.006		0.0815	False		,,,				2504	0.0818															0								G	MET/THR	601,3803		31,539,1632	122	106	111		257	-2.5	0	11	dbSNP_121	111	694,7904		29,636,3634	no	missense	CARD17	NM_001007232.1	81	60,1175,5266	AA,AG,GG		8.0716,13.6467,9.96		86/111	104971257	1295,11707	2202	4299	6501	SO:0001583	missense	440068				CCDS31662.1	11q22.3	2009-01-13				ENSG00000255221			33827	protein-coding gene	gene with protein product	"Inhibitory CARD"	609490				15383541	Standard	NM_001007232		Approved	INCA	uc001pir.1	Q5XLA6		ENST00000375707.1:c.257C>T	11.37:g.104971257G>A	ENSP00000364859:p.Thr86Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000375707.1	37	CCDS31662.1	216	0.0989010989010989	81	0.16463414634146342	75	0.20718232044198895	2	0.0034965034965034965	58	0.07651715039577836	.	6.103	0.387223	0.11581	0.136467	0.080716	ENSG00000255221	ENST00000375707	T	0.20881	2.04	2.69	-2.47	0.06442	DEATH-like (2);Caspase Recruitment (3);	.	.	.	.	T	0.00012	0.0000	M	0.70595	2.14	0.80722	P	0.0	P	0.38617	0.64	B	0.29598	0.104	T	0.12167	-1.0558	8	0.40728	T	0.16	.	2.9218	0.05771	0.4783:0.0:0.2414:0.2803	rs12806837	86	Q5XLA6	CAR17_HUMAN	M	86	ENSP00000364859:T86M	ENSP00000364859:T86M	T	-	2	0	CARD17	104476467	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-1.712000	0.01885	-0.752000	0.04728	0.511000	0.50034	ACG		0.488	CARD17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388181.1	NM_001007232		A	104971257	G	A	104971257	3	1	687	1	0	0	0	0	1	0	0	0	2650	1145	40	1	83	1	CARD17	11	104971257	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	58969877	104971257	30035259	57	44545										
PRB1	5542	mdanderson.org	37	chr12	11508460	11508460	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	agctgagctcagggccagcaAggccactgacagcagaatca	12	12	2	3	rs200021729		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr12:11508460A>G	ENST00000500254.2	-	1	65	c.28T>C	c.(28-30)Ttg>Ctg	p.L10L	PRB1_ENST00000546254.1_Intron|PRB1_ENST00000545626.1_Silent_p.L10L	NM_005039.3|NM_199353.2	NP_005030.2|NP_955385.1	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1	0						extracellular region (GO:0005576)				NS(1)|central_nervous_system(1)|kidney(4)|large_intestine(1)|lung(9)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	20			OV - Ovarian serous cystadenocarcinoma(49;0.185)			AGGGCCAGCAAGGCCACTGAC	0.498																																																0													83	80	81					12																	11508460		2177	4276	6453	SO:0001819	synonymous_variant	5542				CCDS8642.1, CCDS55805.1	12p13.2	2012-10-02							9337	protein-coding gene	gene with protein product		180989				8317492	Standard	NM_199353		Approved	PM, PMF, PMS, PRB1M, PRB1L	uc001qzu.1	P04280		ENST00000500254.2:c.28T>C	12.37:g.11508460A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q08805|Q15186|Q15187|Q15214|Q15215|Q16038	Silent	SNP	ENST00000500254.2	37	CCDS8642.1																																																																																				0.498	PRB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000402312.1	NM_005039		G	11508460	A	G	11508460	2	3	687	1	0	0	0	0	0	0	0	1	12452	69	3	3		3	PRB1	12	11508460	Silent	SNP	A	TCGA-KO-8417-01A-11D-2310-10		11508460	122343435	58	44546										
PRB2	653247	mdanderson.org	37	chr12	11546625	11546625	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ggaggaggtggaggaccttgAggctggttgcctccttgtgg	19	7	0	1	rs200564286		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr12:11546625A>G	ENST00000389362.4	-	3	422	c.387T>C	c.(385-387)ccT>ccC	p.P129P	PRB1_ENST00000546254.1_Intron|PRB2_ENST00000545829.1_5'Flank	NM_006248.3	NP_006239.3	P02812	PRB2_HUMAN	proline-rich protein BstNI subfamily 2	129	15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-P-Q-G-[GD]-[NKS]-[KSQ]- [PRS]-[QRS] [GPS]-[PSAR]-[PSR].					extracellular region (GO:0005576)				NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(14)|pancreas(1)|prostate(5)|skin(4)|stomach(2)|urinary_tract(1)	37		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			GAGGACCTTGAGGCTGGTTGC	0.602																																																0													309	287	294					12																	11546625		2203	4300	6503	SO:0001819	synonymous_variant	653247			K03208	CCDS41757.2	12p13.2	2012-10-02			ENSG00000121335	ENSG00000121335			9338	protein-coding gene	gene with protein product		168810				8554050	Standard	NM_006248		Approved	PRPPRB1, Ps, cP7	uc010shk.1	P02812	OTTHUMG00000156975	ENST00000389362.4:c.387T>C	12.37:g.11546625A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O00599|P02811|P04281	Silent	SNP	ENST00000389362.4	37	CCDS41757.2																																																																																				0.602	PRB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346925.2	NM_006248		G	11546625	A	G	11546625	2	3	687	1	0	0	0	0	0	0	0	1	12453	291	11	3		3	PRB2	12	11546625	Silent	SNP	A	TCGA-KO-8417-01A-11D-2310-10	38165	11546625	122305270	59	44547										
IRS2	8660	ucsc.edu	37	chr13	110435914	110435914	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tcctccaggatgcgccccacGggggagctcatgagcacgta	13	14	1	1	rs12853546	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr13:110435914G>A	ENST00000375856.3	-	1	3001	c.2487C>T	c.(2485-2487)ccC>ccT	p.P829P		NM_003749.2	NP_003740.2	Q9Y4H2	IRS2_HUMAN	insulin receptor substrate 2	829					brain development (GO:0007420)|cell proliferation (GO:0008283)|cellular response to glucose stimulus (GO:0071333)|cellular response to insulin stimulus (GO:0032869)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|glucose metabolic process (GO:0006006)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|lipid homeostasis (GO:0055088)|mammary gland development (GO:0030879)|negative regulation of B cell apoptotic process (GO:0002903)|negative regulation of kinase activity (GO:0033673)|negative regulation of plasma membrane long-chain fatty acid transport (GO:0010748)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of fatty acid beta-oxidation (GO:0032000)|positive regulation of glucose import (GO:0046326)|positive regulation of glucose metabolic process (GO:0010907)|positive regulation of glycogen biosynthetic process (GO:0045725)|positive regulation of insulin secretion (GO:0032024)|positive regulation of mesenchymal cell proliferation (GO:0002053)|regulation of lipid metabolic process (GO:0019216)|response to glucose (GO:0009749)|signal transduction (GO:0007165)	cytosol (GO:0005829)|plasma membrane (GO:0005886)	signal transducer activity (GO:0004871)			kidney(2)|large_intestine(2)|lung(8)|ovary(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)	19	all_cancers(4;7.57e-15)|all_epithelial(4;5.91e-09)|all_lung(23;7.64e-07)|Lung NSC(43;0.000183)|Colorectal(4;0.00159)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0155)	Breast(118;0.159)	all cancers(43;0.00815)|BRCA - Breast invasive adenocarcinoma(86;0.11)|Epithelial(84;0.127)|GBM - Glioblastoma multiforme(44;0.147)			TGCGCCCCACGGGGGAGCTCA	0.731													.|||	1127	0.22504	0.2027	0.1542	5008	,	,		8938	0.2173		0.2565	False		,,,				2504	0.2812				Melanoma(100;613 2409 40847)											0								G		757,3251		86,585,1333	4	6	5		2487	-10.3	0.3	13	dbSNP_121	5	1742,6278		224,1294,2492	no	coding-synonymous	IRS2	NM_003749.2		310,1879,3825	AA,AG,GG		21.7207,18.8872,20.7765		829/1339	110435914	2499,9529	2004	4010	6014	SO:0001819	synonymous_variant	8660			AB000732	CCDS9510.1	13q34	2013-01-10			ENSG00000185950	ENSG00000185950		"Pleckstrin homology (PH) domain containing"	6126	protein-coding gene	gene with protein product		600797				9312143	Standard	NM_003749		Approved		uc001vqv.3	Q9Y4H2	OTTHUMG00000017338	ENST00000375856.3:c.2487C>T	13.37:g.110435914G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q96RR2|Q9BZG0|Q9Y6I5	Silent	SNP	ENST00000375856.3	37	CCDS9510.1																																																																																				0.731	IRS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045755.1	NM_003749		A	110435914	G	A	110435914	2	1	687	1	0	0	0	0	0	0	0	1	7848	1103	39	1		1	IRS2	13	110435914	Silent	SNP	G	TCGA-KO-8417-01A-11D-2310-10		110435914	4733964	60	44548										
DAAM1	23002	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr14	59793702	59793702	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	aaagaacaagcggaaaaaatGagaaaaggtaaataatgagg	11	2	0	3			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr14:59793702G>T	ENST00000395125.1	+	11	1388	c.1365G>T	c.(1363-1365)atG>atT	p.M455I	DAAM1_ENST00000351081.1_Missense_Mutation_p.M455I|DAAM1_ENST00000360909.3_Missense_Mutation_p.M455I	NM_014992.2	NP_055807.1	Q9Y4D1	DAAM1_HUMAN	dishevelled associated activator of morphogenesis 1	455					actin cytoskeleton organization (GO:0030036)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|plasma membrane (GO:0005886)|stress fiber (GO:0001725)	identical protein binding (GO:0042802)			breast(3)|cervix(3)|endometrium(5)|kidney(5)|large_intestine(4)|lung(7)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(4)|urinary_tract(1)	37				OV - Ovarian serous cystadenocarcinoma(108;0.165)		CGGAAAAAATGAGAAAAGGTA	0.333																																																0													160	175	170					14																	59793702		2203	4300	6503	SO:0001583	missense	23002			AB014566	CCDS9737.1, CCDS58323.1	14q22.3	2008-08-11			ENSG00000100592	ENSG00000100592			18142	protein-coding gene	gene with protein product		606626				11779461, 18162551	Standard	NM_014992		Approved	KIAA0666	uc031qou.1	Q9Y4D1	OTTHUMG00000140326	ENST00000395125.1:c.1365G>T	14.37:g.59793702G>T	ENSP00000378557:p.Met455Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q86U34|Q8N1Z8|Q8TB39	Missense_Mutation	SNP	ENST00000395125.1	37	CCDS9737.1	.	.	.	.	.	.	.	.	.	.	G	19.46	3.831199	0.71258	.	.	ENSG00000100592	ENST00000360909;ENST00000351081;ENST00000358498;ENST00000395125	T;T;T	0.39997	1.05;1.05;1.05	6.01	6.01	0.97437	Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.42787	0.1218	M	0.68952	2.095	0.80722	D	1	B;B	0.02656	0.0;0.0	B;B	0.08055	0.003;0.001	T	0.24119	-1.0169	10	0.46703	T	0.11	.	12.7696	0.57412	0.074:0.0:0.926:0.0	.	455;455	Q9Y4D1-2;Q9Y4D1	.;DAAM1_HUMAN	I	455	ENSP00000354162:M455I;ENSP00000247170:M455I;ENSP00000378557:M455I	ENSP00000247170:M455I	M	+	3	0	DAAM1	58863455	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	6.475000	0.73582	2.861000	0.98227	0.650000	0.86243	ATG		0.333	DAAM1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000276942.2	NM_014992		T	59793702	G	T	59793702	3	4	687	1	0	0	0	0	1	0	0	0	4217	1290	45	4	1407	4	DAAM1	14	59793702	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10		59793702	47555838	61	44549										
ERH	2079	bcgsc.ca	37	chr14	69861593	69861593	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	agcataagttctgccttctgGcctcttggtaggctgtacca	10	11	3	0			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr14:69861593G>T	ENST00000557016.1	-	2	433	c.40C>A	c.(40-42)Cca>Aca	p.P14T	ERH_ENST00000216520.6_Intron|ERH_ENST00000555373.1_Missense_Mutation_p.P14T	NM_004450.2	NP_004441.1	P84090	ERH_HUMAN	enhancer of rudimentary homolog (Drosophila)	14					cell cycle (GO:0007049)|nucleobase-containing compound metabolic process (GO:0006139)|osteoblast differentiation (GO:0001649)|pyrimidine nucleoside metabolic process (GO:0006213)	membrane (GO:0016020)|midbody (GO:0030496)	poly(A) RNA binding (GO:0044822)								all cancers(60;0.00365)|BRCA - Breast invasive adenocarcinoma(234;0.0137)|OV - Ovarian serous cystadenocarcinoma(108;0.0507)		CTGCCTTCTGGCCTCTTGGTA	0.373																																																0													102	91	95					14																	69861593		2203	4300	6503	SO:0001583	missense	2079			BC014301	CCDS9794.1	14q24.1	2011-05-18	2001-11-28		ENSG00000100632	ENSG00000100632			3447	protein-coding gene	gene with protein product		601191	"enhancer of rudimentary (Drosophila) homolog"			8786099, 9074495	Standard	NM_004450		Approved	DROER	uc001xlc.2	P84090		ENST00000557016.1:c.40C>A	14.37:g.69861593G>T	ENSP00000451080:p.Pro14Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5H2|P70659|Q14259	Missense_Mutation	SNP	ENST00000557016.1	37	CCDS9794.1	.	.	.	.	.	.	.	.	.	.	G	17.75	3.466046	0.63625	.	.	ENSG00000100632	ENST00000557016;ENST00000555373	.	.	.	5.63	5.63	0.86233	.	0.000000	0.85682	D	0.000000	T	0.74650	0.3744	M	0.75615	2.305	0.80722	D	1	B	0.27997	0.197	B	0.42319	0.383	T	0.68674	-0.5346	9	0.13108	T	0.6	.	19.6765	0.95936	0.0:0.0:1.0:0.0	.	14	P84090	ERH_HUMAN	T	14	.	ENSP00000216520:P14T	P	-	1	0	ERH	68931346	1.000000	0.71417	1.000000	0.80357	0.862000	0.49288	9.768000	0.98965	2.644000	0.89710	0.655000	0.94253	CCA		0.373	ERH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412990.1	NM_004450		T	69861593	G	T	69861593	3	4	687	1	0	0	0	0	1	0	0	0	5228	1203	42	4	286	4	ERH	14	69861593	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	10067891	69861593	37487947	62	44550										
DCAF4	26094	mdanderson.org	37	chr14	73422350	73422350	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	catgattcagcagtgacctcTgtgcggatcctccaagatga	10	11	2	4	rs2806034	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr14:73422350T>G	ENST00000358377.2	+	12	1345	c.1125T>G	c.(1123-1125)tcT>tcG	p.S375S	DCAF4_ENST00000553457.1_Silent_p.S275S|DCAF4_ENST00000353777.3_Silent_p.S205S|DCAF4_ENST00000509153.1_Silent_p.S315S|DCAF4_ENST00000555042.1_Silent_p.S369S|DCAF4_ENST00000394234.2_Silent_p.S275S	NM_001163509.1|NM_015604.3	NP_001156981.1|NP_056419.2	Q8WV16	DCAF4_HUMAN	DDB1 and CUL4 associated factor 4	375					protein ubiquitination (GO:0016567)	Cul4-RING E3 ubiquitin ligase complex (GO:0080008)				NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(6)|ovary(1)|skin(1)	22						CAGTGACCTCTGTGCGGATCC	0.547													T|||	1046	0.208866	0.1921	0.1527	5008	,	,		19731	0.1518		0.3131	False		,,,				2504	0.2229															0								T	,,,,	970,3436	364.9+/-317.2	105,760,1338	215	199	205		1107,1062,1125,825,945	0.5	0.7	14	dbSNP_100	205	2601,5999	420.9+/-353.5	408,1785,2107	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	DCAF4	NM_001163508.1,NM_001163509.1,NM_015604.3,NM_181340.2,NM_181341.2	,,,,	513,2545,3445	GG,GT,TT		30.2442,22.0154,27.4566	,,,,	369/490,354/475,375/496,275/396,315/436	73422350	3571,9435	2203	4300	6503	SO:0001819	synonymous_variant	26094			BC018979	CCDS9809.1, CCDS9810.1, CCDS41968.1, CCDS41968.2, CCDS55926.1	14q24.3	2013-01-09	2009-07-17	2009-07-17		ENSG00000119599		"WD repeat domain containing", "DDB1 and CUL4 associated factors"	20229	protein-coding gene	gene with protein product			"WD repeat domain 21", "WD repeat domain 21A"	WDR21, WDR21A			Standard	NM_015604		Approved	DKFZp434K114	uc010ttr.2	Q8WV16		ENST00000358377.2:c.1125T>G	14.37:g.73422350T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DUT6|G3V522|Q86U31|Q8IV10|Q96K22|Q9Y4P5	Silent	SNP	ENST00000358377.2	37	CCDS9809.1																																																																																				0.547	DCAF4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000361058.1	NM_015604		G	73422350	T	G	73422350	2	3	687	1	0	0	0	0	0	0	0	1	4272	1567	55	5		5	DCAF4	14	73422350	Silent	SNP	T	TCGA-KO-8417-01A-11D-2310-10	3560757	73422350	33927190	63	44551										
YLPM1	56252	broad.mit.edu;hgsc.bcm.edu;bcgsc.ca	37	chr14	75265325	75265325	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	acaggggtgcagctggcagcCgagaaaggggaccacctcgg	17	11	0	1			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr14:75265325C>T	ENST00000325680.7	+	5	3449	c.3325C>T	c.(3325-3327)Cga>Tga	p.R1109*	YLPM1_ENST00000552421.1_Intron|YLPM1_ENST00000238571.3_Nonsense_Mutation_p.R914*	NM_019589.2	NP_062535.2	P49750	YLPM1_HUMAN	YLP motif containing 1	914	Arg-rich.				regulation of telomere maintenance (GO:0032204)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)			breast(4)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(12)|lung(24)|ovary(3)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(1)	62			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		AGCTGGCAGCCGAGAAAGGGG	0.627																																																0													45	54	51					14																	75265325		1933	4131	6064	SO:0001587	stop_gained	56252			AK090435	CCDS45135.1	14q24.3	2014-06-13	2004-07-15	2004-07-15	ENSG00000119596	ENSG00000119596			17798	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 169"		"chromosome 14 open reading frame 170"	C14orf170		7596406	Standard	NM_019589		Approved	ZAP, PPP1R169	uc001xqj.4	P49750	OTTHUMG00000172503	ENST00000325680.7:c.3325C>T	14.37:g.75265325C>T	ENSP00000324463:p.Arg1109*	Somatic		WXS	Illumina HiSeq	Phase_I	P49752|Q96I64|Q9P1V7	Nonsense_Mutation	SNP	ENST00000325680.7	37	CCDS45135.1	.	.	.	.	.	.	.	.	.	.	C	33	5.253132	0.95336	.	.	ENSG00000119596	ENST00000325680;ENST00000238571;ENST00000423680	.	.	.	5.78	3.91	0.45181	.	0.110829	0.40302	N	0.001127	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-7.3673	10.8655	0.46853	0.3692:0.5117:0.1192:0.0	.	.	.	.	X	1109;914;822	.	ENSP00000238571:R914X	R	+	1	2	YLPM1	74335078	0.996000	0.38824	0.999000	0.59377	0.972000	0.66771	0.320000	0.19540	0.739000	0.32628	0.643000	0.83706	CGA		0.627	YLPM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404451.1	NM_019589		T	75265325	C	T	75265325	4	4	687	1	0	0	0	0	0	1	0	0	17498	644	23	1	3343	1	YLPM1	14	75265325	Nonsense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10	1842975	75265325	32084215	64	44552										
DISP2	85455	mdanderson.org	37	chr15	40660192	40660192	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tcttcatgggcacggctgtgCtggtgcacctggcgctcacg	14	13	3	0	rs8040755	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr15:40660192C>T	ENST00000267889.3	+	8	1966	c.1879C>T	c.(1879-1881)Ctg>Ttg	p.L627L	RP11-64K12.4_ENST00000558421.1_RNA	NM_033510.1	NP_277045.1	A7MBM2	DISP2_HUMAN	dispatched homolog 2 (Drosophila)	627	SSD. {ECO:0000255|PROSITE- ProRule:PRU00199}.				smoothened signaling pathway (GO:0007224)	integral component of membrane (GO:0016021)				breast(1)|endometrium(4)|kidney(2)|large_intestine(7)|lung(12)|ovary(4)	30		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.39e-06)|Colorectal(105;0.0114)|READ - Rectum adenocarcinoma(2;0.0649)|BRCA - Breast invasive adenocarcinoma(123;0.0798)|Lung(196;0.15)|LUAD - Lung adenocarcinoma(183;0.247)		CACGGCTGTGCTGGTGCACCT	0.746													C|||	218	0.0435304	0.0038	0.1066	5008	,	,		10666	0.0179		0.0984	False		,,,				2504	0.0225															0								C		81,4189		0,81,2054	5	5	5		1879	5.6	1	15	dbSNP_116	5	887,7489		41,805,3342	no	coding-synonymous	DISP2	NM_033510.1		41,886,5396	TT,TC,CC		10.5898,1.897,7.6546		627/1402	40660192	968,11678	2135	4188	6323	SO:0001819	synonymous_variant	85455			AB051529	CCDS10056.1	15q14	2004-01-15			ENSG00000140323	ENSG00000140323			19712	protein-coding gene	gene with protein product		607503				11214970, 10619433	Standard	NM_033510		Approved	DISPB, KIAA1742, HsT16908	uc001zlk.1	A7MBM2	OTTHUMG00000129983	ENST00000267889.3:c.1879C>T	15.37:g.40660192C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6AHW3|Q9C0C1	Silent	SNP	ENST00000267889.3	37	CCDS10056.1																																																																																				0.746	DISP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252249.1	NM_033510		T	40660192	C	T	40660192	2	4	687	1	0	0	0	0	0	0	0	1	4542	796	28	2		2	DISP2	15	40660192	Silent	SNP	C	TCGA-KO-8417-01A-11D-2310-10		40660192	61871200	65	44553										
LIPC	3990	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	chr15	58837951	58837951	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ttcccattagggctggatgcCgcgggacctttgtttgaggg	15	9	0	1	rs149322349		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr15:58837951C>T	ENST00000356113.6	+	7	1200	c.585C>T	c.(583-585)gcC>gcT	p.A195A	LIPC_ENST00000299022.5_Silent_p.A195A|LIPC_ENST00000433326.2_Silent_p.A134A|LIPC_ENST00000414170.3_Silent_p.A195A			P11150	LIPC_HUMAN	lipase, hepatic	195					cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|chylomicron remnant clearance (GO:0034382)|fatty acid biosynthetic process (GO:0006633)|high-density lipoprotein particle remodeling (GO:0034375)|intermediate-density lipoprotein particle remodeling (GO:0034373)|low-density lipoprotein particle remodeling (GO:0034374)|phosphatidylcholine catabolic process (GO:0034638)|reverse cholesterol transport (GO:0043691)|triglyceride catabolic process (GO:0019433)|triglyceride homeostasis (GO:0070328)|very-low-density lipoprotein particle remodeling (GO:0034372)	extracellular space (GO:0005615)|high-density lipoprotein particle (GO:0034364)	apolipoprotein binding (GO:0034185)|heparin binding (GO:0008201)|low-density lipoprotein particle binding (GO:0030169)|phospholipase activity (GO:0004620)|triglyceride lipase activity (GO:0004806)	p.A195A(1)		breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(15)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	31		Colorectal(260;0.215)		GBM - Glioblastoma multiforme(80;0.00213)|all cancers(107;0.00548)		GGCTGGATGCCGCGGGACCTT	0.493																																																1	Substitution - coding silent(1)	endometrium(1)						C		0,4384		0,0,2192	62	59	60		585	-10.9	0	15	dbSNP_134	60	1,8583	1.2+/-3.3	0,1,4291	no	coding-synonymous	LIPC	NM_000236.2		0,1,6483	TT,TC,CC		0.0116,0.0,0.0077		195/500	58837951	1,12967	2192	4292	6484	SO:0001819	synonymous_variant	3990				CCDS10166.1	15q21-q23	2012-10-02			ENSG00000166035	ENSG00000166035	3.1.1.3		6619	protein-coding gene	gene with protein product		151670					Standard	NM_000236		Approved	HL, HTGL	uc002afa.2	P11150	OTTHUMG00000132632	ENST00000356113.6:c.585C>T	15.37:g.58837951C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2RUB4|A8K9B6|O43571|P78529|Q99465	Silent	SNP	ENST00000356113.6	37	CCDS10166.1																																																																																				0.493	LIPC-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416209.1			T	58837951	C	T	58837951	2	4	687	1	0	0	0	0	0	0	0	1	8827	639	23	1		1	LIPC	15	58837951	Silent	SNP	C	TCGA-KO-8417-01A-11D-2310-10	18177759	58837951	43693441	66	44554										
CYP1A2	1544	broad.mit.edu;hgsc.bcm.edu;ucsc.edu;mdanderson.org;bcgsc.ca	37	chr15	75042327	75042327	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gcagatccgcattggctccaCgcccgtgctggtgctgagcc	13	15	0	2	rs138652540		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr15:75042327C>T	ENST00000343932.4	+	2	311	c.248C>T	c.(247-249)aCg>aTg	p.T83M		NM_000761.3	NP_000752.2	P05177	CP1A2_HUMAN	cytochrome P450, family 1, subfamily A, polypeptide 2	83			T -> M (in allele CYP1A2*9). {ECO:0000269|PubMed:14563787}.		alkaloid metabolic process (GO:0009820)|arachidonic acid metabolic process (GO:0019369)|cellular respiration (GO:0045333)|cellular response to cadmium ion (GO:0071276)|dibenzo-p-dioxin metabolic process (GO:0018894)|drug catabolic process (GO:0042737)|drug metabolic process (GO:0017144)|epoxygenase P450 pathway (GO:0019373)|exogenous drug catabolic process (GO:0042738)|heterocycle metabolic process (GO:0046483)|hydrogen peroxide biosynthetic process (GO:0050665)|lung development (GO:0030324)|methylation (GO:0032259)|monocarboxylic acid metabolic process (GO:0032787)|monoterpenoid metabolic process (GO:0016098)|omega-hydroxylase P450 pathway (GO:0097267)|oxidation-reduction process (GO:0055114)|oxidative deethylation (GO:0071615)|oxidative demethylation (GO:0070989)|porphyrin-containing compound metabolic process (GO:0006778)|post-embryonic development (GO:0009791)|regulation of gene expression (GO:0010468)|response to estradiol (GO:0032355)|response to lipopolysaccharide (GO:0032496)|small molecule metabolic process (GO:0044281)|steroid catabolic process (GO:0006706)|toxin biosynthetic process (GO:0009403)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)|intracellular membrane-bounded organelle (GO:0043231)	aromatase activity (GO:0070330)|caffeine oxidase activity (GO:0034875)|demethylase activity (GO:0032451)|electron carrier activity (GO:0009055)|enzyme binding (GO:0019899)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity (GO:0016491)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen (GO:0016712)			breast(2)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(7)|lung(7)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	33					"""Insulin(DB00071)|Acenocoumarol(DB01418)|Acetaminophen(DB00316)|Agomelatine(DB06594)|Albendazole(DB00518)|Alitretinoin(DB00523)|Almotriptan(DB00918)|Alosetron(DB00969)|Aminoglutethimide(DB00357)|Aminophenazone(DB01424)|Aminophylline(DB01223)|Amiodarone(DB01118)|Amitriptyline(DB00321)|Amlodipine(DB00381)|Anagrelide(DB00261)|Anastrozole(DB01217)|Antipyrine(DB01435)|Apixaban(DB06605)|Aprepitant(DB00673)|Asenapine(DB06216)|Atropine(DB00572)|Axitinib(DB06626)|Azelastine(DB00972)|Azithromycin(DB00207)|Benzyl alcohol(DB06770)|Betaxolol(DB00195)|Bortezomib(DB00188)|Bromazepam(DB01558)|Bromocriptine(DB01200)|Bupivacaine(DB00297)|Buprenorphine(DB00921)|Bupropion(DB01156)|Caffeine(DB00201)|Carbamazepine(DB00564)|Carmustine(DB00262)|Carvedilol(DB01136)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Cinnarizine(DB00568)|Ciprofloxacin(DB00537)|Cisapride(DB00604)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clenbuterol(DB01407)|Clevidipine(DB04920)|Clobetasol propionate(DB01013)|Clomifene(DB00882)|Clomipramine(DB01242)|Clonidine(DB00575)|Clopidogrel(DB00758)|Clotrimazole(DB00257)|Clozapine(DB00363)|Conjugated Estrogens(DB00286)|Cyclobenzaprine(DB00924)|Dacarbazine(DB00851)|Dapagliflozin(DB06292)|Dasatinib(DB01254)|Daunorubicin(DB00694)|Delavirdine(DB00705)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexfenfluramine(DB01191)|Dexmedetomidine(DB00633)|Diazepam(DB00829)|Diclofenac(DB00586)|Dinoprostone(DB00917)|Diphenhydramine(DB01075)|Domperidone(DB01184)|Dopamine(DB00988)|Doxepin(DB01142)|Duloxetine(DB00476)|Edetic Acid(DB00974)|Efavirenz(DB00625)|Eltrombopag(DB06210)|Enoxacin(DB00467)|Epinephrine(DB00668)|Ergotamine(DB00696)|Erlotinib(DB00530)|Erythromycin(DB00199)|Estradiol(DB00783)|Estrone(DB00655)|Estropipate(DB04574)|Ethanol(DB00898)|Etoposide(DB00773)|Etoricoxib(DB01628)|Flunarizine(DB04841)|Flunitrazepam(DB01544)|Fluorouracil(DB00544)|Fluoxetine(DB00472)|Fluphenazine(DB00623)|Flutamide(DB00499)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Frovatriptan(DB00998)|Gemfibrozil(DB01241)|Griseofulvin(DB00400)|Guanabenz(DB00629)|Haloperidol(DB00502)|Hesperetin(DB01094)|Hexobarbital(DB01355)|Iloperidone(DB04946)|Imatinib(DB00619)|Imipramine(DB00458)|Imiquimod(DB00724)|inhaled insulin(DB05278)|Insulin Aspart(DB01306)|Insulin Detemir(DB01307)|Insulin Glargine(DB00047)|Insulin Glulisine(DB01309)|Insulin Lispro(DB00046)|Insulin Regular(DB00030)|Irbesartan(DB01029)|Isoniazid(DB00951)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Leflunomide(DB01097)|Levobupivacaine(DB01002)|Levofloxacin(DB01137)|Lidocaine(DB00281)|Lomefloxacin(DB00978)|Lopinavir(DB01601)|Lorcaserin(DB04871)|Losartan(DB00678)|Lumiracoxib(DB01283)|Malathion(DB00772)|Maprotiline(DB00934)|Meclizine(DB00737)|Melatonin(DB01065)|Menadione(DB00170)|Methadone(DB00333)|Methimazole(DB00763)|Methotrimeprazine(DB01403)|Methoxsalen(DB00553)|Methoxyflurane(DB01028)|Mexiletine(DB00379)|Mianserin(DB06148)|Miconazole(DB01110)|Mirtazapine(DB00370)|Moclobemide(DB01171)|Modafinil(DB00745)|Nabumetone(DB00461)|Nafcillin(DB00607)|Naproxen(DB00788)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Niclosamide(DB06803)|Nicotine(DB00184)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nisoldipine(DB00401)|Nitric Oxide(DB00435)|Nitroprusside(DB00325)|Norepinephrine(DB00368)|Norfloxacin(DB01059)|Nortriptyline(DB00540)|Ofloxacin(DB01165)|Olanzapine(DB00334)|Omeprazole(DB00338)|Ondansetron(DB00904)|Oxaliplatin(DB00526)|Oxtriphylline(DB01303)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Pazopanib(DB06589)|Pefloxacin(DB00487)|Pentamidine(DB00738)|Pentoxifylline(DB00806)|Perphenazine(DB00850)|Phenobarbital(DB01174)|Phentermine(DB00191)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Pimozide(DB01100)|Pipotiazine(DB01621)|Pomalidomide(DB08910)|Praziquantel(DB01058)|Primaquine(DB01087)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Propafenone(DB01182)|Propofol(DB00818)|Propranolol(DB00571)|Pyrazinamide(DB00339)|Quinidine(DB00908)|Quinine(DB00468)|Rabeprazole(DB01129)|Ramelteon(DB00980)|Ranitidine(DB00863)|Rasagiline(DB01367)|Rifabutin(DB00615)|Rifampicin(DB01045)|Rilpivirine(DB08864)|Riluzole(DB00740)|Ritonavir(DB00503)|Rizatriptan(DB00953)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Rosiglitazone(DB00412)|Rotigotine(DB05271)|Roxithromycin(DB00778)|Secobarbital(DB00418)|Selegiline(DB01037)|Sertraline(DB01104)|SIMEPREVIR(DB06290)|Sorafenib(DB00398)|Streptozocin(DB00428)|Sulindac(DB00605)|Tamoxifen(DB00675)|Telithromycin(DB00976)|Tenofovir(DB00300)|Terbinafine(DB00857)|Thalidomide(DB01041)|Theobromine(DB01412)|Theophylline(DB00277)|Thiabendazole(DB00730)|Thioridazine(DB00679)|Thiothixene(DB01623)|Ticlopidine(DB00208)|Tioconazole(DB01007)|Tizanidine(DB00697)|Tocainide(DB01056)|Toremifene(DB00539)|Tranylcypromine(DB00752)|Triamterene(DB00384)|Trifluoperazine(DB00831)|Valproic Acid(DB00313)|Vemurafenib(DB08881)|Verapamil(DB00661)|Warfarin(DB00682)|Zafirlukast(DB00549)|Zileuton(DB00744)|Ziprasidone(DB00246)|Zolmitriptan(DB00315)|Zolpidem(DB00425)"	ATTGGCTCCACGCCCGTGCTG	0.667													C|||	1	0.000199681	0.0	0.0014	5008	,	,		18734	0.0		0.0	False		,,,				2504	0.0															0								C	MET/THR	1,4393	2.1+/-5.4	0,1,2196	51	46	48		248	3.1	0.3	15	dbSNP_134	48	0,8592		0,0,4296	yes	missense	CYP1A2	NM_000761.3	81	0,1,6492	TT,TC,CC		0.0,0.0228,0.0077	probably-damaging	83/517	75042327	1,12985	2197	4296	6493	SO:0001583	missense	1544			AF182274	CCDS32293.1	15q24.1	2013-11-11	2003-01-14		ENSG00000140505	ENSG00000140505	1.14.14.1	"Cytochrome P450s"	2596	protein-coding gene	gene with protein product		124060	"cytochrome P450, subfamily I (aromatic compound-inducible), polypeptide 2"			15128046	Standard	NM_000761		Approved	P3-450, CP12	uc002ayr.1	P05177	OTTHUMG00000172901	ENST00000343932.4:c.248C>T	15.37:g.75042327C>T	ENSP00000342007:p.Thr83Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q16754|Q6NWU5|Q9BXX7|Q9UK49	Missense_Mutation	SNP	ENST00000343932.4	37	CCDS32293.1	.	.	.	.	.	.	.	.	.	.	c	14.29	2.489965	0.44249	2.28E-4	0.0	ENSG00000140505	ENST00000343932	T	0.70045	-0.45	4.98	3.11	0.35812	.	0.153946	0.52532	D	0.000076	T	0.77075	0.4077	M	0.81341	2.54	0.09310	N	1	D	0.89917	1.0	D	0.97110	1.0	T	0.65689	-0.6107	10	0.52906	T	0.07	.	3.3504	0.07150	0.1313:0.5675:0.1437:0.1575	.	83	P05177-2	.	M	83	ENSP00000342007:T83M	ENSP00000342007:T83M	T	+	2	0	CYP1A2	72829380	0.028000	0.19301	0.338000	0.25549	0.878000	0.50629	1.520000	0.35899	0.704000	0.31869	-0.215000	0.12644	ACG		0.667	CYP1A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000421263.2	NM_000761		T	75042327	C	T	75042327	3	4	687	1	0	0	0	0	1	0	0	0	4152	536	19	1	250	1	CYP1A2	15	75042327	Missense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10	16204376	75042327	27489065	67	44555										
RBBP6	5930	mdanderson.org	37	chr16	24583715	24583715	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tcaaagaagaacaaagataaAgagaaggagaaggagaaaga	12	2	1	7	rs148143334	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr16:24583715A>G	ENST00000319715.4	+	18	5760	c.5328A>G	c.(5326-5328)aaA>aaG	p.K1776K	RBBP6_ENST00000381039.3_Silent_p.K936K|RBBP6_ENST00000348022.2_Silent_p.K1742K	NM_006910.4	NP_008841.2	Q7Z6E9	RBBP6_HUMAN	retinoblastoma binding protein 6	1776					embryonic organ development (GO:0048568)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|somite development (GO:0061053)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)	ligase activity (GO:0016874)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(10)|lung(17)|ovary(4)|pancreas(1)|prostate(2)|urinary_tract(1)	46				GBM - Glioblastoma multiforme(48;0.0518)		acaaagataaagagaaggaga	0.318																																																0													25	24	24					16																	24583715		1913	3652	5565	SO:0001819	synonymous_variant	5930				CCDS10621.1, CCDS10622.1, CCDS45444.1	16p12.2	2008-08-04	2001-11-28		ENSG00000122257	ENSG00000122257			9889	protein-coding gene	gene with protein product	"proliferation potential-related protein"	600938	"retinoblastoma-binding protein 6"			8595913, 16396680	Standard	NM_006910		Approved	P2P-R, PACT, SNAMA	uc002dmh.3	Q7Z6E9	OTTHUMG00000096991	ENST00000319715.4:c.5328A>G	16.37:g.24583715A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q147T5|Q15290|Q6DKH4|Q6P4C2|Q6YNC9|Q7Z6E8|Q8N0V2|Q96PH3|Q9H3I8|Q9H5M5|Q9NPX4	Silent	SNP	ENST00000319715.4	37	CCDS10621.1																																																																																				0.318	RBBP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214067.2	NM_006910		G	24583715	A	G	24583715	2	3	687	1	0	0	0	0	0	0	0	1	13116	69	3	3		3	RBBP6	16	24583715	Silent	SNP	A	TCGA-KO-8417-01A-11D-2310-10		24583715	65771038	68	44556										
SPAG7	9552	mdanderson.org	37	chr17	4864114	4864114	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tccactttctgttgtttctcTtgctcttgtagtttcttcag	6	10	5	0	rs61749470	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr17:4864114T>C	ENST00000206020.3	-	2	187	c.120A>G	c.(118-120)caA>caG	p.Q40Q	SPAG7_ENST00000575142.1_Silent_p.Q29Q|SPAG7_ENST00000573366.1_5'UTR	NM_004890.2	NP_004881.2	O75391	SPAG7_HUMAN	sperm associated antigen 7	40						nucleus (GO:0005634)	nucleic acid binding (GO:0003676)			central_nervous_system(1)|endometrium(1)|kidney(2)|lung(3)|ovary(2)|urinary_tract(1)	10						GTTGTTTCTCTTGCTCTTGTA	0.478													T|||	103	0.0205671	0.028	0.013	5008	,	,		19443	0.0099		0.0388	False		,,,				2504	0.0082															0								T		94,3648		0,94,1777	161	155	157		120	1.7	1	17	dbSNP_129	157	279,7943		6,267,3838	no	coding-synonymous	SPAG7	NM_004890.2		6,361,5615	CC,CT,TT		3.3933,2.512,3.1177		40/228	4864114	373,11591	1871	4111	5982	SO:0001819	synonymous_variant	9552			AF047437	CCDS42240.1	17p13.2	2008-07-18				ENSG00000091640			11216	protein-coding gene	gene with protein product		610056				9653160	Standard	NM_004890		Approved	FSA-1, ACRP, MGC20134	uc002gae.3	O75391		ENST00000206020.3:c.120A>G	17.37:g.4864114T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q96EU5	Silent	SNP	ENST00000206020.3	37	CCDS42240.1																																																																																				0.478	SPAG7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438747.1	NM_004890		C	4864114	T	C	4864114	2	2	687	1	0	0	0	0	0	0	0	1	14996	1606	56	3		3	SPAG7	17	4864114	Silent	SNP	T	TCGA-KO-8417-01A-11D-2310-10		4864114	76331096	69	44557										
XAF1	54739	bcgsc.ca	37	chr17	6663894	6663894	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ccagcacagagatgtctgtcGcagtgaacaggcccagctcg	12	13	1	2	rs386794960|rs2271232	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr17:6663894G>A	ENST00000361842.3	+	4	634	c.395G>A	c.(394-396)cGc>cAc	p.R132H	XAF1_ENST00000346752.4_Missense_Mutation_p.R113H|XAF1_ENST00000441631.1_Missense_Mutation_p.R132H|XAF1_ENST00000438512.1_Missense_Mutation_p.R132H	NM_017523.3	NP_059993.2	Q6GPH4	XAF1_HUMAN	XIAP associated factor 1	132			R -> H (in dbSNP:rs2271232).	R -> Q (in Ref. 3; BAF85537). {ECO:0000305}.	apoptotic process (GO:0006915)|cytokine-mediated signaling pathway (GO:0019221)|negative regulation of protein complex assembly (GO:0031333)|response to interferon-beta (GO:0035456)|type I interferon signaling pathway (GO:0060337)	cytosol (GO:0005829)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	zinc ion binding (GO:0008270)			large_intestine(2)|lung(2)|prostate(1)|urinary_tract(1)	6						GATGTCTGTCGCAGTGAACAG	0.592													G|||	670	0.133786	0.2481	0.072	5008	,	,		17101	0.1855		0.0398	False		,,,				2504	0.0665															0													51	50	50					17																	6663894		2203	4300	6503	SO:0001583	missense	54739			X99699	CCDS11080.1, CCDS11081.1	17p13.2	2010-03-19			ENSG00000132530	ENSG00000132530			30932	protein-coding gene	gene with protein product		606717				12029096, 11175744	Standard	NM_199139		Approved	BIRC4BP, XIAPAF1, HSXIAPAF1	uc002gdn.3	Q6GPH4		ENST00000361842.3:c.395G>A	17.37:g.6663894G>A	ENSP00000354822:p.Arg132His	Somatic		WXS	Illumina HiSeq	Phase_I	A2T931|A2T932|A8K2L1|A8K9Y3|D3DTM6|Q6MZE8|Q8N557|Q99982	Missense_Mutation	SNP	ENST00000361842.3	37	CCDS11080.1	220	0.10073260073260074	98	0.1991869918699187	17	0.04696132596685083	76	0.13286713286713286	29	0.03825857519788918	G	14.62	2.589297	0.46214	.	.	ENSG00000132530	ENST00000361842;ENST00000441631;ENST00000346752;ENST00000438512	T;T;T;T	0.29397	1.57;1.57;1.57;1.57	3.77	-4.73	0.03259	.	1.042900	0.07588	N	0.921505	T	0.00012	0.0000	N	0.14661	0.345	0.80722	P	0.0	D;D;P;D	0.62365	0.991;0.974;0.956;0.963	P;B;B;B	0.47430	0.547;0.4;0.2;0.301	T	0.05099	-1.0906	9	0.38643	T	0.18	-0.2545	5.9149	0.19050	0.297:0.0:0.5538:0.1493	rs2271232	132;113;132;72	C9J7Z8;Q6GPH4-2;Q6GPH4;B3KPW1	.;.;XAF1_HUMAN;.	H	132;132;113;132	ENSP00000354822:R132H;ENSP00000413199:R132H;ENSP00000341029:R113H;ENSP00000406233:R132H	ENSP00000341029:R113H	R	+	2	0	XAF1	6604618	0.000000	0.05858	0.000000	0.03702	0.010000	0.07245	-1.822000	0.01711	-0.958000	0.03622	0.455000	0.32223	CGC		0.592	XAF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000439643.5	NM_017523		A	6663894	G	A	6663894	3	1	687	1	0	0	0	0	1	0	0	0	17431	1087	38	1	409	1	XAF1	17	6663894	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	1799780	6663894	74531316	70	44558										
MYH4	4622	bcgsc.ca	37	chr17	10348354	10348354	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gcgccagctgctcagcctcaTccagacggagctgcagatcc	11	16	2	2	rs2277649	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr17:10348354T>C	ENST00000255381.2	-	37	5515	c.5405A>G	c.(5404-5406)gAt>gGt	p.D1802G	RP11-799N11.1_ENST00000399342.2_RNA|CTC-297N7.11_ENST00000587182.2_RNA|RP11-799N11.1_ENST00000581304.1_RNA	NM_017533.2	NP_060003.2	Q9Y623	MYH4_HUMAN	myosin, heavy chain 4, skeletal muscle	1802			D -> G (in dbSNP:rs2277649). {ECO:0000269|PubMed:10388558}.		actin filament-based movement (GO:0030048)|ATP catabolic process (GO:0006200)|membrane organization (GO:0061024)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|response to activity (GO:0014823)	muscle myosin complex (GO:0005859)|myofibril (GO:0030016)|myosin filament (GO:0032982)|sarcomere (GO:0030017)	ATP binding (GO:0005524)|double-stranded RNA binding (GO:0003725)|microfilament motor activity (GO:0000146)			NS(4)|breast(8)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(13)|lung(72)|ovary(10)|prostate(7)|skin(9)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	149						CTCAGCCTCATCCAGACGGAG	0.567													T|||	2278	0.454872	0.233	0.4755	5008	,	,		18937	0.8214		0.3181	False		,,,				2504	0.5031															0								T	GLY/ASP	1137,3269	405.8+/-333.6	141,855,1207	143	140	141		5405	5.5	0.9	17	dbSNP_100	141	3050,5550	469.9+/-367.7	536,1978,1786	no	missense	MYH4	NM_017533.2	94	677,2833,2993	CC,CT,TT		35.4651,25.8057,32.1928	possibly-damaging	1802/1940	10348354	4187,8819	2203	4300	6503	SO:0001583	missense	4622				CCDS11154.1	17p13.1	2013-09-19	2006-09-29		ENSG00000264424	ENSG00000264424		"Myosins / Myosin superfamily : Class II"	7574	protein-coding gene	gene with protein product		160742	"myosin, heavy polypeptide 4, skeletal muscle"			8518795	Standard	NM_017533		Approved	MYH2B, MyHC-2B, MyHC-IIb	uc002gmn.3	Q9Y623	OTTHUMG00000130365	ENST00000255381.2:c.5405A>G	17.37:g.10348354T>C	ENSP00000255381:p.Asp1802Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000255381.2	37	CCDS11154.1	979	0.4482600732600733	106	0.21544715447154472	162	0.44751381215469616	473	0.8269230769230769	238	0.31398416886543534	T	19.34	3.809062	0.70797	0.258057	0.354651	ENSG00000141048	ENST00000255381	T	0.78481	-1.18	5.5	5.5	0.81552	Myosin tail (1);	0.000000	0.38605	U	0.001638	T	0.00012	0.0000	H	0.95079	3.62	0.09310	P	0.999999246958	D	0.63880	0.993	D	0.70487	0.969	T	0.47761	-0.9092	9	0.87932	D	0	.	15.8867	0.79255	0.0:0.0:0.0:1.0	rs2277649;rs61532457;rs2277649	1802	Q9Y623	MYH4_HUMAN	G	1802	ENSP00000255381:D1802G	ENSP00000255381:D1802G	D	-	2	0	MYH4	10289079	1.000000	0.71417	0.938000	0.37757	0.170000	0.22686	6.257000	0.72480	2.214000	0.71695	0.482000	0.46254	GAT		0.567	MYH4-001	KNOWN	NAGNAG_splice_site|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252731.1	NM_017533		C	10348354	T	C	10348354	3	2	687	1	0	0	0	0	1	0	0	0	10044	1435	50	3	430	3	MYH4	17	10348354	Missense_Mutation	SNP	T	TCGA-KO-8417-01A-11D-2310-10	3684460	10348354	70846856	71	44559										
ELAC2	60528	broad.mit.edu	37	chr17	12898343	12898343	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tccactgcaggactggagatCtcagccccttcctgaaggca	10	14	1	2			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr17:12898343C>T	ENST00000338034.4	-	20	2084	c.1845G>A	c.(1843-1845)gaG>gaA	p.E615E	ELAC2_ENST00000395962.2_Silent_p.E596E|ELAC2_ENST00000426905.3_Silent_p.E575E	NM_018127.6|NM_173717.1	NP_060597.4|NP_776065.1	Q9BQ52	RNZ2_HUMAN	elaC ribonuclease Z 2	615					mitochondrial tRNA 3'-trailer cleavage, endonucleolytic (GO:0072684)	mitochondrion (GO:0005739)|nucleus (GO:0005634)	endonuclease activity (GO:0004519)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(4)|kidney(2)|large_intestine(4)|lung(8)|skin(1)	23						GACTGGAGATCTCAGCCCCTT	0.453																																																0													174	181	179					17																	12898343		2203	4300	6503	SO:0001819	synonymous_variant	60528			AF304370	CCDS11164.1, CCDS54093.1	17p11.2	2013-05-24	2013-05-24		ENSG00000006744	ENSG00000006744	3.1.26.11		14198	protein-coding gene	gene with protein product	"tRNase Z (long form)"	605367	"elaC (E. coli) homolog 2", "elaC homolog 2 (E. coli)"			10986046, 16636667, 21559454	Standard	NM_018127		Approved	FLJ10530, HPC2	uc010vvr.2	Q9BQ52	OTTHUMG00000058764	ENST00000338034.4:c.1845G>A	17.37:g.12898343C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DPL9|Q6IA94|Q9HAS8|Q9HAS9|Q9NVT1	Silent	SNP	ENST00000338034.4	37	CCDS11164.1																																																																																				0.453	ELAC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000129934.5			T	12898343	C	T	12898343	2	4	687	1	0	0	0	0	0	0	0	1	5049	912	32	2		2	ELAC2	17	12898343	Silent	SNP	C	TCGA-KO-8417-01A-11D-2310-10	2549989	12898343	68296867	72	44560										
LRRC48	83450	bcgsc.ca	37	chr17	17896205	17896205	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	acctcatgtacctggactacCggcgcattgatgaccacaca	8	14	1	2	rs4584886	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr17:17896205C>T	ENST00000399187.1	+	6	789	c.571C>T	c.(571-573)Cgg>Tgg	p.R191W	LRRC48_ENST00000399182.1_Missense_Mutation_p.R191W|LRRC48_ENST00000584166.1_Missense_Mutation_p.R191W|LRRC48_ENST00000411504.2_Missense_Mutation_p.R191W|LRRC48_ENST00000313838.8_Missense_Mutation_p.R191W	NM_031294.3	NP_112584.3	Q9H069	LRC48_HUMAN	leucine rich repeat containing 48	191	LRRCT.		R -> W (in dbSNP:rs4584886). {ECO:0000269|PubMed:15489334}.			cytoplasm (GO:0005737)				breast(1)|large_intestine(2)|lung(2)|pancreas(1)|urinary_tract(1)	7	all_neural(463;0.228)					CCTGGACTACCGGCGCATTGA	0.542													C|||	2915	0.582069	0.4153	0.5187	5008	,	,		20965	0.8641		0.3748	False		,,,				2504	0.7751															0								C	TRP/ARG,TRP/ARG,TRP/ARG,TRP/ARG	1688,2530		355,978,776	93	93	93		571,571,571,571	3	1	17	dbSNP_111	93	2759,5693		452,1855,1919	yes	missense,missense,missense,missense	LRRC48	NM_001130090.1,NM_001130091.1,NM_001130092.1,NM_031294.3	101,101,101,101	807,2833,2695	TT,TC,CC		32.6432,40.019,35.0987	probably-damaging,probably-damaging,probably-damaging,probably-damaging	191/524,191/458,191/458,191/524	17896205	4447,8223	2109	4226	6335	SO:0001583	missense	83450			AK093317	CCDS45622.1, CCDS45623.1	17p11.2	2014-07-18			ENSG00000171962	ENSG00000171962			25384	protein-coding gene	gene with protein product						11997338, 23354437	Standard	NM_001130090		Approved	DKFZP586M1120	uc021trk.1	Q9H069	OTTHUMG00000059355	ENST00000399187.1:c.571C>T	17.37:g.17896205C>T	ENSP00000382140:p.Arg191Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAE6|Q86SF9|Q86W73|Q8IWG0	Missense_Mutation	SNP	ENST00000399187.1	37	CCDS45622.1	1170	0.5357142857142857	220	0.44715447154471544	167	0.4613259668508287	503	0.8793706293706294	280	0.36939313984168864	C	18.50	3.637604	0.67130	0.40019	0.326432	ENSG00000171962	ENST00000313838;ENST00000448396;ENST00000411504;ENST00000399184;ENST00000399187;ENST00000399182;ENST00000399185	T;T;T;T	0.55760	0.5;0.5;0.5;0.5	5.22	3.04	0.35103	.	0.200569	0.51477	D	0.000091	T	0.00012	0.0000	M	0.86740	2.835	0.09310	P	0.999999999725949	D;D	0.89917	1.0;1.0	D;D	0.74674	0.964;0.984	T	0.11916	-1.0568	9	0.72032	D	0.01	-17.5	12.1487	0.54038	0.4277:0.5723:0.0:0.0	rs4584886;rs17854522;rs17859520;rs59823215;rs4584886	191;191	Q9H069;Q9H069-2	LRC48_HUMAN;.	W	191	ENSP00000326870:R191W;ENSP00000394020:R191W;ENSP00000382140:R191W;ENSP00000382136:R191W	ENSP00000326870:R191W	R	+	1	2	LRRC48	17836930	1.000000	0.71417	0.986000	0.45419	0.690000	0.40134	3.333000	0.52090	1.156000	0.42514	0.655000	0.94253	CGG		0.542	LRRC48-001	KNOWN	non_canonical_conserved|non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131945.3	NM_031294		T	17896205	C	T	17896205	3	4	687	1	0	0	0	0	1	0	0	0	9012	643	23	1	585	1	LRRC48	17	17896205	Missense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10	4997862	17896205	63299005	73	44561										
SLC5A10	125206	mdanderson.org	37	chr17	18918396	18918396	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	atgatcgcagtgatgctggcGgcgctcatgtcgtcgctgac	14	11	1	3	rs2074279	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr17:18918396G>C	ENST00000395645.3	+	11	1143	c.1125G>C	c.(1123-1125)gcG>gcC	p.A375A	SLC5A10_ENST00000317977.6_Silent_p.A308A|SLC5A10_ENST00000395647.2_Silent_p.A391A|SLC5A10_ENST00000417251.2_Silent_p.A339A|SLC5A10_ENST00000395643.2_Silent_p.A348A|SLC5A10_ENST00000395642.1_Silent_p.A308A	NM_001042450.2	NP_001035915.1	A0PJK1	SC5AA_HUMAN	solute carrier family 5 (sodium/sugar cotransporter), member 10	375					sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(3)|ovary(3)|prostate(3)|skin(3)	24						TGATGCTGGCGGCGCTCATGT	0.677													C|||	997	0.199081	0.3336	0.0663	5008	,	,		12776	0.3413		0.0288	False		,,,				2504	0.1401															0								C	,	1209,3197	706.8+/-407.4	151,907,1145	60	49	53		1125,1173	-4.3	0.8	17	dbSNP_96	53	187,8413	810.1+/-407.1	2,183,4115	no	coding-synonymous,coding-synonymous	SLC5A10	NM_001042450.1,NM_152351.3	,	153,1090,5260	CC,CG,GG		2.1744,27.4399,10.7335	,	375/597,391/613	18918396	1396,11610	2203	4300	6503	SO:0001819	synonymous_variant	125206				CCDS11201.2, CCDS42275.1, CCDS59277.1, CCDS59278.1, CCDS74008.1	17p11.2	2013-07-19	2013-07-19		ENSG00000154025	ENSG00000154025		"Solute carriers"	23155	protein-coding gene	gene with protein product			"solute carrier family 5 (sodium/glucose cotransporter), member 10"				Standard	NM_152351		Approved	SGLT5	uc002gut.2	A0PJK1	OTTHUMG00000178143	ENST00000395645.3:c.1125G>C	17.37:g.18918396G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8MUC9|B4DPI0|B7WPR4|Q6P5X0|Q8IXM4|Q96LQ1	Silent	SNP	ENST00000395645.3	37	CCDS42275.1																																																																																				0.677	SLC5A10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132129.2	NM_152351		C	18918396	G	C	18918396	2	2	687	1	0	0	0	0	0	0	0	1	14675	1103	39	4		4	SLC5A10	17	18918396	Silent	SNP	G	TCGA-KO-8417-01A-11D-2310-10	1022191	18918396	62276814	74	44562										
PSMD12	5718	broad.mit.edu	37	chr17	65340732	65340732	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	agattcttacatgttcaacaActctgttcttcaagtctttc	4	10	6	1	rs2230680	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr17:65340732A>G	ENST00000356126.3	-	9	1180	c.1073T>C	c.(1072-1074)gTt>gCt	p.V358A	PSMD12_ENST00000357146.4_Missense_Mutation_p.V338A	NM_002816.3	NP_002807.1	O00232	PSD12_HUMAN	proteasome (prosome, macropain) 26S subunit, non-ATPase, 12	358	PCI.		V -> A (in dbSNP:rs2230680).		anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|cellular nitrogen compound metabolic process (GO:0034641)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|negative regulation of apoptotic process (GO:0043066)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|viral process (GO:0016032)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|proteasome accessory complex (GO:0022624)|proteasome complex (GO:0000502)|proteasome regulatory particle (GO:0005838)				breast(1)|large_intestine(4)|lung(6)|pancreas(1)|urinary_tract(1)	13	all_cancers(12;2.38e-11)|all_epithelial(3;8.27e-13)					ATGTTCAACAACTCTGTTCTT	0.328													A|||	8	0.00159744	0.0061	0.0	5008	,	,		17078	0.0		0.0	False		,,,				2504	0.0															0								A	ALA/VAL,ALA/VAL	34,4372	38.4+/-70.7	1,32,2170	83	81	82		1073,1013	5.6	1	17	dbSNP_98	82	0,8600		0,0,4300	yes	missense,missense	PSMD12	NM_002816.3,NM_174871.2	64,64	1,32,6470	GG,GA,AA		0.0,0.7717,0.2614	probably-damaging,probably-damaging	358/457,338/437	65340732	34,12972	2203	4300	6503	SO:0001583	missense	5718			AB003103	CCDS11669.1, CCDS11670.1	17q24.3	2008-05-22			ENSG00000197170	ENSG00000197170		"Proteasome (prosome, macropain) subunits"	9557	protein-coding gene	gene with protein product		604450				9426256	Standard	NM_002816		Approved	p55, Rpn5	uc002jfy.3	O00232	OTTHUMG00000140376	ENST00000356126.3:c.1073T>C	17.37:g.65340732A>G	ENSP00000348442:p.Val358Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6NP15|Q53HA2|Q6P053	Missense_Mutation	SNP	ENST00000356126.3	37	CCDS11669.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	A	25.4	4.635451	0.87760	0.007717	0.0	ENSG00000197170	ENST00000356126;ENST00000357146	T;T	0.33654	1.4;1.4	5.59	5.59	0.84812	Winged helix-turn-helix transcription repressor DNA-binding (1);Proteasome component (PCI) domain (2);	0.000000	0.85682	D	0.000000	T	0.62732	0.2452	M	0.93462	3.42	0.80722	D	1	D;D	0.65815	0.995;0.995	D;D	0.72338	0.977;0.977	T	0.76961	-0.2765	10	0.87932	D	0	-21.0461	15.7585	0.78058	1.0:0.0:0.0:0.0	rs2230680;rs35331578;rs2230680	338;358	A6NP15;O00232	.;PSD12_HUMAN	A	358;338	ENSP00000348442:V358A;ENSP00000349667:V338A	ENSP00000348442:V358A	V	-	2	0	PSMD12	62771194	1.000000	0.71417	0.996000	0.52242	0.996000	0.88848	5.894000	0.69806	2.121000	0.65114	0.397000	0.26171	GTT		0.328	PSMD12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277103.1	NM_002816, NM_174871		G	65340732	A	G	65340732	3	3	687	1	0	0	0	0	1	0	0	0	12705	43	2	3	309	3	PSMD12	17	65340732	Missense_Mutation	SNP	A	TCGA-KO-8417-01A-11D-2310-10	46422336	65340732	15854478	75	44563										
EVPL	2125	bcgsc.ca	37	chr17	74006474	74006474	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ctgcagcagttggctcctctGcgcctccagctcatgctgca	10	16	2	0	rs151046085		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr17:74006474G>A	ENST00000301607.3	-	22	3065	c.2812C>T	c.(2812-2814)Cag>Tag	p.Q938*	EVPL_ENST00000586740.1_Nonsense_Mutation_p.Q960*	NM_001988.2	NP_001979.2	Q92817	EVPL_HUMAN	envoplakin	938	Central fibrous rod domain.				epidermis development (GO:0008544)|keratinization (GO:0031424)|keratinocyte differentiation (GO:0030216)|peptide cross-linking (GO:0018149)	cell junction (GO:0030054)|cornified envelope (GO:0001533)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	protein binding, bridging (GO:0030674)|structural molecule activity (GO:0005198)			breast(4)|central_nervous_system(4)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(8)|lung(14)|ovary(2)|pancreas(2)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(4)	54						TGGCTCCTCTGCGCCTCCAGC	0.662																																																0								G	stop/GLN	2,4404	2.1+/-5.4	0,2,2201	39	40	40		2812	4.8	1	17	dbSNP_134	40	0,8600		0,0,4300	yes	stop-gained	EVPL	NM_001988.2		0,2,6501	AA,AG,GG		0.0,0.0454,0.0154		938/2034	74006474	2,13004	2203	4300	6503	SO:0001587	stop_gained	2125			U53786	CCDS11737.1	17q25	2008-07-18				ENSG00000167880			3503	protein-coding gene	gene with protein product		601590				8938451, 10409435	Standard	NM_001988		Approved	EVPK	uc002jqi.2	Q92817		ENST00000301607.3:c.2812C>T	17.37:g.74006474G>A	ENSP00000301607:p.Gln938*	Somatic		WXS	Illumina HiSeq	Phase_I	A0AUV5	Nonsense_Mutation	SNP	ENST00000301607.3	37	CCDS11737.1	.	.	.	.	.	.	.	.	.	.	G	37	6.602199	0.97697	4.54E-4	0.0	ENSG00000167880	ENST00000301607	.	.	.	4.85	4.85	0.62838	.	0.342375	0.31589	N	0.007395	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.28530	T	0.3	-31.8895	13.3284	0.60473	0.0:0.0:0.842:0.158	.	.	.	.	X	938	.	ENSP00000301607:Q938X	Q	-	1	0	EVPL	71518069	1.000000	0.71417	0.978000	0.43139	0.142000	0.21351	3.745000	0.55119	2.397000	0.81536	0.561000	0.74099	CAG		0.662	EVPL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449483.1	NM_001988		A	74006474	G	A	74006474	4	1	687	1	0	0	0	0	0	1	0	0	5294	1328	46	2	3293	2	EVPL	17	74006474	Nonsense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	8665742	74006474	7188736	76	44564										
P4HB	5034	hgsc.bcm.edu	37	chr17	79801890	79801891	+	Stop_Codon_Del	DEL	AC	AC	-													0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	cgggtctggctttgcgtattAcagttcatctttcacagctt							TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr17:79801890_79801891delAC	ENST00000331483.4	-	0	1746_1747				RP11-498C9.2_ENST00000576784.1_RNA|P4HB_ENST00000439918.2_Stop_Codon_Del|P4HB_ENST00000472244.1_5'Flank|P4HB_ENST00000576390.1_Intron	NM_000918.3	NP_000909.2	P07237	PDIA1_HUMAN	prolyl 4-hydroxylase, beta polypeptide						cell redox homeostasis (GO:0045454)|cellular response to hypoxia (GO:0071456)|extracellular matrix organization (GO:0030198)|lipoprotein metabolic process (GO:0042157)|peptidyl-proline hydroxylation to 4-hydroxy-L-proline (GO:0018401)|protein folding (GO:0006457)|regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902175)|response to endoplasmic reticulum stress (GO:0034976)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|plasma membrane (GO:0005886)|procollagen-proline 4-dioxygenase complex (GO:0016222)	poly(A) RNA binding (GO:0044822)|procollagen-proline 4-dioxygenase activity (GO:0004656)|protein disulfide isomerase activity (GO:0003756)			NS(1)|breast(1)|large_intestine(2)|lung(17)|urinary_tract(1)	22	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0509)			TTTGCGTATTACAGTTCATCTT	0.609																																					Colon(49;444 983 1296 7887 42561)											0																																										SO:0001567	stop_retained_variant	5034			J02783	CCDS11787.1	17q25	2011-10-19	2008-12-09		ENSG00000185624	ENSG00000185624	1.14.11.2, 5.3.4.1	"Protein disulfide isomerases"	8548	protein-coding gene	gene with protein product	"protein disulfide isomerase-associated 1", "protein disulfide isomerase family A, member 1", "collagen prolyl 4-hydroxylase beta"	176790	"procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), beta polypeptide (protein disulfide isomerase; thyroid hormone binding protein p55)", "procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), beta polypeptide (protein disulfide isomerase-associated 1)", "procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), beta polypeptide"	PO4DB, ERBA2L		8111381	Standard	NM_000918		Approved	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta	uc002kbn.1	P07237	OTTHUMG00000150269	Exception_encountered	17.37:g.79801890_79801891delAC	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDQ2|P30037|P32079|Q15205|Q6LDE5	Frame_Shift_Del	DEL	ENST00000331483.4	37	CCDS11787.1																																																																																				0.609	P4HB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317250.3	NM_000918		-	79801891	AC	-	79801890	7	5	687	1	0	1	0	1	0	0	0	0	11366	404	14	0	5	0	P4HB	17	79801890	Stop_Codon_Del	DEL	AC	TCGA-KO-8417-01A-11D-2310-10	5795416	79801890	1393320	77	44565	477	2								
P4HB	5034	bcgsc.ca	37	chr17	79801891	79801892	+	Frame_Shift_Del	DEL	AC	AC	-													0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gggtctggctttgcgtattaCagttcatctttcacagcttt							TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr17:79801891_79801892delAC	ENST00000331483.4	-	11	1745_1746	c.1523_1524delGT	c.(1522-1524)cgtfs	p.R508fs	RP11-498C9.2_ENST00000576784.1_RNA|P4HB_ENST00000439918.2_Frame_Shift_Del_p.R464fs|P4HB_ENST00000472244.1_5'Flank|P4HB_ENST00000576390.1_Intron	NM_000918.3	NP_000909.2	P07237	PDIA1_HUMAN	prolyl 4-hydroxylase, beta polypeptide	508					cell redox homeostasis (GO:0045454)|cellular response to hypoxia (GO:0071456)|extracellular matrix organization (GO:0030198)|lipoprotein metabolic process (GO:0042157)|peptidyl-proline hydroxylation to 4-hydroxy-L-proline (GO:0018401)|protein folding (GO:0006457)|regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902175)|response to endoplasmic reticulum stress (GO:0034976)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|plasma membrane (GO:0005886)|procollagen-proline 4-dioxygenase complex (GO:0016222)	poly(A) RNA binding (GO:0044822)|procollagen-proline 4-dioxygenase activity (GO:0004656)|protein disulfide isomerase activity (GO:0003756)			NS(1)|breast(1)|large_intestine(2)|lung(17)|urinary_tract(1)	22	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0509)			TTGCGTATTACAGTTCATCTTT	0.609																																					Colon(49;444 983 1296 7887 42561)											0																																										SO:0001589	frameshift_variant	5034			J02783	CCDS11787.1	17q25	2011-10-19	2008-12-09		ENSG00000185624	ENSG00000185624	1.14.11.2, 5.3.4.1	"Protein disulfide isomerases"	8548	protein-coding gene	gene with protein product	"protein disulfide isomerase-associated 1", "protein disulfide isomerase family A, member 1", "collagen prolyl 4-hydroxylase beta"	176790	"procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), beta polypeptide (protein disulfide isomerase; thyroid hormone binding protein p55)", "procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), beta polypeptide (protein disulfide isomerase-associated 1)", "procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), beta polypeptide"	PO4DB, ERBA2L		8111381	Standard	NM_000918		Approved	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta	uc002kbn.1	P07237	OTTHUMG00000150269	ENST00000331483.4:c.1523_1524delGT	17.37:g.79801891_79801892delAC	ENSP00000327801:p.Arg508fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDQ2|P30037|P32079|Q15205|Q6LDE5	Frame_Shift_Del	DEL	ENST00000331483.4	37	CCDS11787.1																																																																																				0.609	P4HB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317250.3	NM_000918		-	79801892	AC	-	79801891	7	5	687	1	0	1	0	1	0	0	0	0	11366	465	17	0	6	0	P4HB	17	79801891	Frame_Shift_Del	DEL	AC	TCGA-KO-8417-01A-11D-2310-10	1	79801891	1393319	78	44566	477	2								
POTEC	388468	mdanderson.org	37	chr18	14542884	14542884	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gagcgtcttcataaaggagtTgtcatggtctccagaagtgc	12	8	4	1	rs201764782		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr18:14542884T>C	ENST00000358970.5	-	1	261	c.262A>G	c.(262-264)Aac>Gac	p.N88D	POTEC_ENST00000389891.4_5'UTR	NM_001137671.1	NP_001131143.1	B2RU33	POTEC_HUMAN	POTE ankyrin domain family, member C	88										NS(2)|breast(1)|endometrium(9)|kidney(13)|lung(14)|prostate(3)|skin(6)|soft_tissue(1)|urinary_tract(3)	52						ATAAAGGAGTTGTCATGGTCT	0.607																																																0													53	58	56					18																	14542884		692	1591	2283	SO:0001583	missense	388468			BX649118	CCDS45835.1	18p11.21	2013-01-10	2008-11-26	2008-11-26	ENSG00000183206	ENSG00000183206		"POTE ankyrin domain containing", "Ankyrin repeat domain containing"	33894	protein-coding gene	gene with protein product	"cancer/testis antigen family 104, member 6"		"ANKRD26-like family B, member 2"	A26B2			Standard	NM_001137671		Approved	POTE18, POTE-18, DKFZp686J0529, CT104.6	uc010dln.3	B2RU33	OTTHUMG00000162963	ENST00000358970.5:c.262A>G	18.37:g.14542884T>C	ENSP00000351856:p.Asn88Asp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000358970.5	37	CCDS45835.1	.	.	.	.	.	.	.	.	.	.	t	0.003	-2.420683	0.00188	.	.	ENSG00000183206	ENST00000358970;ENST00000389891	T	0.22539	1.95	.	.	.	.	.	.	.	.	T	0.03390	0.0098	N	0.00483	-1.445	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.25152	-1.0140	7	0.02654	T	1	.	.	.	.	.	88	B2RU33	POTEC_HUMAN	D	88	ENSP00000351856:N88D	ENSP00000351856:N88D	N	-	1	0	POTEC	14532884	0.000000	0.05858	0.004000	0.12327	0.004000	0.04260	-0.876000	0.04201	-1.345000	0.02214	-1.352000	0.01234	AAC		0.607	POTEC-002	KNOWN	not_best_in_genome_evidence|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371179.1	XM_496269		C	14542884	T	C	14542884	3	2	687	1	0	0	0	0	1	0	0	0	12269	1812	63	3	1410	3	POTEC	18	14542884	Missense_Mutation	SNP	T	TCGA-KO-8417-01A-11D-2310-10		14542884	63534364	79	44567										
GRIN3B	116444	mdanderson.org	37	chr19	1009585	1009585	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	cccaccacactctggccgacCggggagccaggaatgaggcg	14	15	1	1	rs10401454	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr19:1009585C>G	ENST00000234389.3	+	9	3135	c.3116C>G	c.(3115-3117)cCg>cGg	p.P1039R		NM_138690.1	NP_619635.1	O60391	NMD3B_HUMAN	glutamate receptor, ionotropic, N-methyl-D-aspartate 3B	1039					ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|protein insertion into membrane (GO:0051205)|regulation of calcium ion transport (GO:0051924)|synaptic transmission, glutamatergic (GO:0035249)	cell junction (GO:0030054)|dendrite (GO:0030425)|N-methyl-D-aspartate selective glutamate receptor complex (GO:0017146)|neuronal cell body (GO:0043025)|postsynaptic membrane (GO:0045211)	calcium channel activity (GO:0005262)|cation channel activity (GO:0005261)|extracellular-glutamate-gated ion channel activity (GO:0005234)|glycine binding (GO:0016594)|N-methyl-D-aspartate selective glutamate receptor activity (GO:0004972)|neurotransmitter binding (GO:0042165)|neurotransmitter receptor activity (GO:0030594)			breast(1)|kidney(1)|lung(7)|prostate(1)|upper_aerodigestive_tract(1)	11		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)	Acamprosate(DB00659)|Atomoxetine(DB00289)|Gabapentin(DB00996)|Glycine(DB00145)|Halothane(DB01159)|Ketobemidone(DB06738)|Milnacipran(DB04896)|Orphenadrine(DB01173)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Secobarbital(DB00418)	TCTGGCCGACCGGGGAGCCAG	0.652													-|||	1279	0.255391	0.2859	0.2565	5008	,	,		9642	0.1478		0.3171	False		,,,				2504	0.2607															0									ARG/PRO	490,2270		45,400,935	2	2	2		3116	-3.6	0	19	dbSNP_119	2	1532,4650		199,1134,1758	yes	missense	GRIN3B	NM_138690.1	103	244,1534,2693	GG,GC,CC		24.7816,17.7536,22.6124	benign	1039/1044	1009585	2022,6920	1380	3091	4471	SO:0001583	missense	116444				CCDS32861.1	19p13.3	2014-05-06			ENSG00000116032	ENSG00000116032		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	16768	protein-coding gene	gene with protein product		606651					Standard	XM_003403700		Approved	GluN3B	uc002lqo.1	O60391	OTTHUMG00000181904	ENST00000234389.3:c.3116C>G	19.37:g.1009585C>G	ENSP00000234389:p.Pro1039Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5EAK7|Q7RTW9	Missense_Mutation	SNP	ENST00000234389.3	37	CCDS32861.1	564	0.25824175824175827	140	0.2845528455284553	104	0.287292817679558	73	0.12762237762237763	247	0.3258575197889182	C	3.647	-0.072382	0.07228	0.177536	0.247816	ENSG00000116032	ENST00000234389	T	0.11063	2.81	3.71	-3.57	0.04612	.	603.621000	0.00817	U	0.001548	T	0.00012	0.0000	N	0.08118	0	0.54753	P	1.6000000000016E-5	B	0.14805	0.011	B	0.04013	0.001	T	0.41787	-0.9489	9	0.07030	T	0.85	.	2.269	0.04086	0.1122:0.3933:0.2254:0.2691	rs10401454;rs58830778	1039	O60391	NMD3B_HUMAN	R	1039	ENSP00000234389:P1039R	ENSP00000234389:P1039R	P	+	2	0	GRIN3B	960585	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-2.539000	0.00937	-0.787000	0.04510	-2.078000	0.00380	CCG		0.652	GRIN3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000103923.2			G	1009585	C	G	1009585	3	3	687	1	0	0	0	0	1	0	0	0	6791	652	23	4	3150	4	GRIN3B	19	1009585	Missense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10		1009585	58119398	80	44568										
MUC16	94025	broad.mit.edu;hgsc.bcm.edu;mdanderson.org;bcgsc.ca	37	chr19	8994179	8994179	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gcagccagagtacagagggcCaacactggtgttcttgaaca	12	10	1	3			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr19:8994179C>T	ENST00000397910.4	-	65	41709	c.41506G>A	c.(41506-41508)Ggc>Agc	p.G13836S	MUC16_ENST00000380951.5_Missense_Mutation_p.G477S	NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	13839	SEA 12. {ECO:0000255|PROSITE- ProRule:PRU00188}.			Missing (in Ref. 3; AAK74120). {ECO:0000305}.	cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TACAGAGGGCCAACACTGGTG	0.522																																																0													115	101	106					19																	8994179		1999	4173	6172	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.41506G>A	19.37:g.8994179C>T	ENSP00000381008:p.Gly13836Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	.	15.37	2.812775	0.50527	.	.	ENSG00000181143	ENST00000397910;ENST00000380951	T;T	0.39056	1.1;1.1	3.74	1.56	0.23342	SEA (1);	0.203527	0.24523	N	0.037787	T	0.54013	0.1832	M	0.64997	1.995	.	.	.	P;D	0.71674	0.907;0.998	P;D	0.80764	0.623;0.994	T	0.61559	-0.7038	9	0.56958	D	0.05	.	6.2106	0.20628	0.0:0.7621:0.0:0.2379	.	21481;13836	Q8WXI7;B5ME49	MUC16_HUMAN;.	S	13836;477	ENSP00000381008:G13836S;ENSP00000370338:G477S	ENSP00000370338:G477S	G	-	1	0	MUC16	8855179	0.017000	0.18338	0.001000	0.08648	0.196000	0.23810	1.901000	0.39838	0.387000	0.25024	-0.157000	0.13467	GGC		0.522	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		T	8994179	C	T	8994179	3	4	687	1	0	0	0	0	1	0	0	0	9980	594	21	2	2097	2	MUC16	19	8994179	Missense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10	7984594	8994179	50134804	81	44569										
CCDC123	84902	hgsc.bcm.edu	37	chr19	33444556	33444556	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	cacagcgtacaggtcatcacTgtggcctcctctgtcctccc	8	17	3	0	rs73579706	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr19:33444556T>C	ENST00000305768.5	-	4	545	c.457A>G	c.(457-459)Agt>Ggt	p.S153G	CEP89_ENST00000590597.2_Missense_Mutation_p.S153G	NM_032816.3	NP_116205.3	Q96ST8	CEP89_HUMAN	centrosomal protein 89kDa	153					cilium assembly (GO:0042384)	centriole (GO:0005814)|centrosome (GO:0005813)|ciliary transition fiber (GO:0097539)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|spindle pole (GO:0000922)				breast(2)|cervix(1)|endometrium(4)|large_intestine(4)|lung(15)|ovary(3)|pancreas(1)|prostate(2)|skin(1)|stomach(1)|urinary_tract(1)	35						AGGTCATCACTGTGGCCTCCT	0.483																																																0													401	426	418					19																	33444556		2203	4300	6503	SO:0001583	missense	84902			AL832158	CCDS32987.1	19q13.11	2014-02-20	2011-05-06	2011-05-06		ENSG00000121289			25907	protein-coding gene	gene with protein product		615470	"coiled-coil domain containing 123"	CCDC123		16395595	Standard	NM_032816		Approved	FLJ14640	uc002nty.3	Q96ST8		ENST00000305768.5:c.457A>G	19.37:g.33444556T>C	ENSP00000306105:p.Ser153Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGA6|Q8N5J8	Missense_Mutation	SNP	ENST00000305768.5	37	CCDS32987.1	.	.	.	.	.	.	.	.	.	.	T	3.578	-0.086165	0.07097	.	.	ENSG00000121289	ENST00000305768	T	0.31510	1.49	5.12	-10.2	0.00374	.	3.796690	0.00695	N	0.000748	T	0.07234	0.0183	N	0.01048	-1.04	0.09310	N	1	B;B;B	0.12013	0.005;0.0;0.0	B;B;B	0.08055	0.003;0.0;0.0	T	0.34725	-0.9817	10	0.22706	T	0.39	7.6155	0.6143	0.00767	0.2371:0.2982:0.1712:0.2935	.	124;153;153	Q8WUL5;Q96ST8-3;Q96ST8	.;.;CEP89_HUMAN	G	153	ENSP00000306105:S153G	ENSP00000306105:S153G	S	-	1	0	CEP89	38136396	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-1.650000	0.01991	-4.026000	0.00080	-0.951000	0.02657	AGT		0.483	CEP89-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000451300.2	NM_032816		C	33444556	T	C	33444556	3	2	687	1	0	0	0	0	1	0	0	0	2761	1580	55	3	1958	3	CCDC123	19	33444556	Missense_Mutation	SNP	T	TCGA-KO-8417-01A-11D-2310-10	24450377	33444556	25684427	82	44570										
NUMBL	9253	mdanderson.org	37	chr19	41173898	41173898	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tgctgctgctgctgctgctgTtgctgttgctgctgctgctg	14	11	0	0	rs59088184|rs79747129|rs71173669|rs141662737	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr19:41173898T>C	ENST00000252891.4	-	10	1472	c.1305A>G	c.(1303-1305)caA>caG	p.Q435Q	NUMBL_ENST00000540131.1_Silent_p.Q394Q|NUMBL_ENST00000598779.1_Silent_p.Q394Q	NM_004756.3	NP_004747.1	Q9Y6R0	NUMBL_HUMAN	numb homolog (Drosophila)-like	435	Poly-Gln.				adherens junction organization (GO:0034332)|axonogenesis (GO:0007409)|cytokine-mediated signaling pathway (GO:0019221)|lateral ventricle development (GO:0021670)|nervous system development (GO:0007399)|neuroblast division in subventricular zone (GO:0021849)|positive regulation of dendrite morphogenesis (GO:0050775)|positive regulation of neurogenesis (GO:0050769)|protein metabolic process (GO:0019538)	cytoplasm (GO:0005737)				NS(1)|breast(1)|endometrium(1)|large_intestine(5)|lung(6)|ovary(2)	16			Lung(22;0.000393)|LUSC - Lung squamous cell carcinoma(20;0.00105)			gctgctgctgttgctgttgct	0.667																																																0													5	6	6					19																	41173898		1943	3908	5851	SO:0001819	synonymous_variant	9253			AF015401	CCDS12561.1	19q13.13-q13.2	2008-07-17	2001-11-28			ENSG00000105245			8061	protein-coding gene	gene with protein product		604018	"numb (Drosophila) homolog-like"			9225980, 9303539	Standard	XM_006723471		Approved	NUMB-R, CTG3a, CAG3A, TNRC23, NUMBR, NUMBLIKE	uc002oon.3	Q9Y6R0		ENST00000252891.4:c.1305A>G	19.37:g.41173898T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z4J9	Silent	SNP	ENST00000252891.4	37	CCDS12561.1																																																																																				0.667	NUMBL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462749.2	NM_004756		C	41173898	T	C	41173898	2	2	687	1	0	0	0	0	0	0	0	1	10759	1722	60	3		3	NUMBL	19	41173898	Silent	SNP	T	TCGA-KO-8417-01A-11D-2310-10	7729342	41173898	17955085	83	44571										
PSG4	5672	mdanderson.org	37	chr19	43709647	43709647	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gtgagcaggacccccttccaGgtgatgcgctgtgtgcaggg	16	11	0	2	rs12985206	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr19:43709647G>A	ENST00000405312.3	-	1	279	c.42C>T	c.(40-42)acC>acT	p.T14T	PSG4_ENST00000244295.9_Silent_p.T14T|PSG4_ENST00000433626.2_Silent_p.T14T	NM_002780.3	NP_002771.2	Q00888	PSG4_HUMAN	pregnancy specific beta-1-glycoprotein 4	14					female pregnancy (GO:0007565)	extracellular vesicular exosome (GO:0070062)				central_nervous_system(1)|endometrium(2)|large_intestine(8)|lung(10)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	24		Prostate(69;0.00682)				CCCCCTTCCAGGTGATGCGCT	0.597													G|||	3276	0.654153	0.6392	0.5274	5008	,	,		13710	0.7966		0.5865	False		,,,				2504	0.6871															0													62	61	61					19																	43709647		2186	4271	6457	SO:0001819	synonymous_variant	5672				CCDS33039.1, CCDS46093.1, CCDS62695.1	19q13.2	2013-01-29			ENSG00000243137	ENSG00000243137		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9521	protein-coding gene	gene with protein product	"pregnancy-specific beta-1-glycoprotein 4"	176393				2783133	Standard	NM_002780		Approved		uc002ovy.4	Q00888	OTTHUMG00000151544	ENST00000405312.3:c.42C>T	19.37:g.43709647G>A		Somatic		WXS	Illumina HiSeq	Phase_I	E7EX79|Q13047|Q13048|Q15234|Q15240|Q9UQ76	Silent	SNP	ENST00000405312.3	37	CCDS46093.1																																																																																				0.597	PSG4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323073.1	NM_213633		A	43709647	G	A	43709647	2	1	687	1	0	0	0	0	0	0	0	1	12667	987	35	2		2	PSG4	19	43709647	Silent	SNP	G	TCGA-KO-8417-01A-11D-2310-10	2535749	43709647	15419336	84	44572										
ZNF180	7733	broad.mit.edu	37	chr19	44982053	44982053	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gatacatgtttatgaaaatgGtttcttatgggtataactgg	10	3	1	1			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr19:44982053G>T	ENST00000221327.4	-	5	926	c.645C>A	c.(643-645)aaC>aaA	p.N215K	ZNF180_ENST00000586637.1_3'UTR|ZNF180_ENST00000585514.1_5'Flank|ZNF180_ENST00000592529.1_Missense_Mutation_p.N188K|ZNF180_ENST00000391956.4_Missense_Mutation_p.N190K|AC069278.4_ENST00000591684.1_lincRNA	NM_013256.3	NP_037388.2	Q9UJW8	ZN180_HUMAN	zinc finger protein 180	215					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(1)|endometrium(3)|kidney(5)|large_intestine(14)|lung(6)|ovary(2)|urinary_tract(1)	33		Prostate(69;0.0435)				TATGAAAATGGTTTCTTATGG	0.353																																					Esophageal Squamous(180;1353 2003 32862 46574 49854)											0													87	87	87					19																	44982053		2203	4300	6503	SO:0001583	missense	7733			AF192913	CCDS12639.1, CCDS62707.1, CCDS62708.1	19q13.2	2013-01-08	2006-08-22			ENSG00000167384		"Zinc fingers, C2H2-type", "-"	12970	protein-coding gene	gene with protein product		606740	"zinc finger protein 180 (HHZ168)"				Standard	NM_001288762		Approved	HHZ168	uc002ozf.4	Q9UJW8		ENST00000221327.4:c.645C>A	19.37:g.44982053G>T	ENSP00000221327:p.Asn215Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCN6|B3KV56|K7EQX9|Q58F03|Q9P1U2	Missense_Mutation	SNP	ENST00000221327.4	37	CCDS12639.1	.	.	.	.	.	.	.	.	.	.	G	0.572	-0.840767	0.02692	.	.	ENSG00000167384	ENST00000221327;ENST00000391956	T;T	0.06528	3.29;3.33	4.89	1.36	0.22044	.	0.296949	0.24386	N	0.038980	T	0.03739	0.0106	L	0.34521	1.04	0.25773	N	0.984811	B;B;B	0.12013	0.005;0.002;0.003	B;B;B	0.13407	0.009;0.004;0.004	T	0.39143	-0.9628	10	0.19147	T	0.46	-18.0554	1.5731	0.02619	0.1888:0.1773:0.4719:0.1619	.	190;214;215	G5E9B8;Q58F03;Q9UJW8	.;.;ZN180_HUMAN	K	215;190	ENSP00000221327:N215K;ENSP00000375818:N190K	ENSP00000221327:N215K	N	-	3	2	ZNF180	49673893	1.000000	0.71417	0.551000	0.28230	0.022000	0.10575	2.874000	0.48483	0.651000	0.30788	0.655000	0.94253	AAC		0.353	ZNF180-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000451601.1	NM_013256		T	44982053	G	T	44982053	3	4	687	1	0	0	0	0	1	0	0	0	17760	1252	44	4	1437	4	ZNF180	19	44982053	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	1272406	44982053	14146930	85	44573										
ZNF577	84765	bcgsc.ca	37	chr19	52375849	52375849	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ctgatggggccacattcactTcatttgtgaggcttattctc	9	10	3	2			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr19:52375849T>A	ENST00000301399.5	-	7	1759	c.1394A>T	c.(1393-1395)gAa>gTa	p.E465V	ZNF577_ENST00000485702.1_Intron|ZNF577_ENST00000420592.1_Missense_Mutation_p.E406V|ZNF577_ENST00000451628.2_Missense_Mutation_p.E406V|ZNF577_ENST00000412216.1_Intron	NM_032679.2	NP_116068.2	Q9BSK1	ZN577_HUMAN	zinc finger protein 577	465					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|kidney(1)|large_intestine(5)|lung(9)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	21		all_neural(266;0.0602)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		CACATTCACTTCATTTGTGAG	0.348																																																0													59	56	57					19																	52375849		2203	4300	6503	SO:0001583	missense	84765			AL832871	CCDS12842.2, CCDS46160.1	19q13.41	2013-09-20			ENSG00000161551	ENSG00000161551		"Zinc fingers, C2H2-type", "-"	28673	protein-coding gene	gene with protein product						12477932	Standard	NM_032679		Approved	MGC4400	uc010yde.2	Q9BSK1	OTTHUMG00000157045	ENST00000301399.5:c.1394A>T	19.37:g.52375849T>A	ENSP00000301399:p.Glu465Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0B4|A8K6Z7|C9JFB9	Missense_Mutation	SNP	ENST00000301399.5	37	CCDS12842.2	.	.	.	.	.	.	.	.	.	.	.	1.312	-0.601860	0.03744	.	.	ENSG00000161551	ENST00000301399;ENST00000420592;ENST00000451628;ENST00000458390	T;T;T;T	0.07114	3.22;3.27;3.27;3.22	3.04	-3.78	0.04333	.	.	.	.	.	T	0.04952	0.0133	N	0.22421	0.69	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.39522	-0.9610	9	0.87932	D	0	.	4.5645	0.12177	0.5822:0.0:0.2307:0.1871	.	465;406	Q9BSK1;Q9BSK1-2	ZN577_HUMAN;.	V	465;406;406;465	ENSP00000301399:E465V;ENSP00000413476:E406V;ENSP00000389652:E406V;ENSP00000404509:E465V	ENSP00000301399:E465V	E	-	2	0	ZNF577	57067661	0.000000	0.05858	0.023000	0.16930	0.157000	0.22087	-1.374000	0.02566	-0.952000	0.03649	-0.336000	0.08194	GAA		0.348	ZNF577-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000347243.1	NM_032679		A	52375849	T	A	52375849	3	1	687	1	0	0	0	0	1	0	0	0	18021	1783	62	5	67	5	ZNF577	19	52375849	Missense_Mutation	SNP	T	TCGA-KO-8417-01A-11D-2310-10	7393796	52375849	6753134	86	44574										
MAVS	57506	bcgsc.ca	37	chr20	3838399	3838399	+	Missense_Mutation	SNP	T	T	A													0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tcattgcggcactgaggggcTgtgagctagttgatctcgcg					rs11908032|rs34591263	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr20:3838399T>A	ENST00000428216.2	+	3	363	c.235T>A	c.(235-237)Tgt>Agt	p.C79S	MAVS_ENST00000416600.2_Intron|MAVS_ENST00000358134.6_Missense_Mutation_p.C79S	NM_020746.4	NP_065797.2	Q7Z434	MAVS_HUMAN	mitochondrial antiviral signaling protein	79			C -> F (in dbSNP:rs11905552).|C -> S (in dbSNP:rs11908032).		activation of innate immune response (GO:0002218)|cellular response to exogenous dsRNA (GO:0071360)|defense response to bacterium (GO:0042742)|defense response to virus (GO:0051607)|innate immune response (GO:0045087)|negative regulation of type I interferon production (GO:0032480)|negative regulation of viral genome replication (GO:0045071)|positive regulation of chemokine (C-C motif) ligand 5 production (GO:0071651)|positive regulation of defense response to virus by host (GO:0002230)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interferon-alpha production (GO:0032727)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of interleukin-8 production (GO:0032757)|positive regulation of IP-10 production (GO:0071660)|positive regulation of protein import into nucleus, translocation (GO:0033160)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription factor import into nucleus (GO:0042993)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor production (GO:0032760)|positive regulation of type I interferon-mediated signaling pathway (GO:0060340)|regulation of peroxisome organization (GO:1900063)|RIG-I signaling pathway (GO:0039529)|signal transduction (GO:0007165)|viral process (GO:0016032)	integral component of membrane (GO:0016021)|mitochondrial membrane (GO:0031966)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|peroxisomal membrane (GO:0005778)	CARD domain binding (GO:0050700)|protein kinase binding (GO:0019901)|signal transducer activity (GO:0004871)			autonomic_ganglia(1)|breast(3)|endometrium(1)|large_intestine(3)|lung(4)|skin(1)|upper_aerodigestive_tract(1)	14						ACTGAGGGGCTGTGAGCTAGT	0.632													T|||	180	0.0359425	0.1301	0.0086	5008	,	,		14935	0.0		0.002	False		,,,				2504	0.0															0								T	,SER/CYS	26,4380		10,6,2187	139	112	121		,235	4.7	0.9	20	dbSNP_120	121	0,8600		0,0,4300	yes	intron,missense	MAVS	NM_001206491.1,NM_020746.4	,112	10,6,6487	AA,AT,TT		0.0,0.5901,0.1999	,probably-damaging	,79/541	3838399	26,12980	2203	4300	6503	SO:0001583	missense	57506			DQ174270	CCDS33437.1, CCDS56176.1	20p13	2009-04-02			ENSG00000088888	ENSG00000088888			29233	protein-coding gene	gene with protein product	"virus-induced signaling adaptor", "IFN-B promoter stimulator 1", "CARD adaptor inducing IFN-beta"	609676				16125763, 16153868	Standard	NM_020746		Approved	VISA, KIAA1271, IPS-1, Cardif	uc002wjw.4	Q7Z434	OTTHUMG00000031765	ENST00000428216.2:c.235T>A	20.37:g.3838399T>A	ENSP00000401980:p.Cys79Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6X0|B2BD33|B2BD34|F5H6C8|Q2HWT5|Q3I0Y2|Q5T7I6|Q86VY7|Q9H1H3|Q9H4Y1|Q9H8D3|Q9ULE9	Missense_Mutation	SNP	ENST00000428216.2	37	CCDS33437.1	38	0.0173992673992674	36	0.07317073170731707	2	0.0055248618784530384	0	0.0	0	0.0	T	10.77	1.442585	0.25987	0.005901	0.0	ENSG00000088888	ENST00000428216;ENST00000358134	T;T	0.09538	2.97;2.97	4.67	4.67	0.58626	.	0.000000	0.85682	D	0.000000	T	0.02083	0.0065	M	0.63428	1.95	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.955;0.998;0.998	T	0.00032	-1.2277	10	0.51188	T	0.08	-14.2787	10.4331	0.44419	0.0:0.0:0.0:1.0	rs11908032	79;79;79	B2BD34;Q7Z434;Q7Z434-2	.;MAVS_HUMAN;.	S	79	ENSP00000401980:C79S;ENSP00000350852:C79S	ENSP00000350852:C79S	C	+	1	0	MAVS	3786399	0.993000	0.37304	0.915000	0.36163	0.035000	0.12851	3.409000	0.52657	1.950000	0.56595	0.496000	0.49642	TGT		0.632	MAVS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077784.3	NM_020746		A	3838399	T	A	3838399	3	1	687	1	0	0	0	0	1	0	0	0	9345	1580	55	5	241	5	MAVS	20	3838399	Missense_Mutation	SNP	T	TCGA-KO-8417-01A-11D-2310-10		3838399	59187121	87	44575	478	2								
MAVS	57506	mdanderson.org;bcgsc.ca	37	chr20	3838400	3838400	+	Missense_Mutation	SNP	G	G	T													0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	cattgcggcactgaggggctGtgagctagttgatctcgcgg					rs11905552|rs34591263	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr20:3838400G>T	ENST00000428216.2	+	3	364	c.236G>T	c.(235-237)tGt>tTt	p.C79F	MAVS_ENST00000416600.2_Intron|MAVS_ENST00000358134.6_Missense_Mutation_p.C79F	NM_020746.4	NP_065797.2	Q7Z434	MAVS_HUMAN	mitochondrial antiviral signaling protein	79			C -> F (in dbSNP:rs11905552).|C -> S (in dbSNP:rs11908032).		activation of innate immune response (GO:0002218)|cellular response to exogenous dsRNA (GO:0071360)|defense response to bacterium (GO:0042742)|defense response to virus (GO:0051607)|innate immune response (GO:0045087)|negative regulation of type I interferon production (GO:0032480)|negative regulation of viral genome replication (GO:0045071)|positive regulation of chemokine (C-C motif) ligand 5 production (GO:0071651)|positive regulation of defense response to virus by host (GO:0002230)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interferon-alpha production (GO:0032727)|positive regulation of interferon-beta production (GO:0032728)|positive regulation of interleukin-8 production (GO:0032757)|positive regulation of IP-10 production (GO:0071660)|positive regulation of protein import into nucleus, translocation (GO:0033160)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription factor import into nucleus (GO:0042993)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor production (GO:0032760)|positive regulation of type I interferon-mediated signaling pathway (GO:0060340)|regulation of peroxisome organization (GO:1900063)|RIG-I signaling pathway (GO:0039529)|signal transduction (GO:0007165)|viral process (GO:0016032)	integral component of membrane (GO:0016021)|mitochondrial membrane (GO:0031966)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|peroxisomal membrane (GO:0005778)	CARD domain binding (GO:0050700)|protein kinase binding (GO:0019901)|signal transducer activity (GO:0004871)			autonomic_ganglia(1)|breast(3)|endometrium(1)|large_intestine(3)|lung(4)|skin(1)|upper_aerodigestive_tract(1)	14						CTGAGGGGCTGTGAGCTAGTT	0.632													G|||	180	0.0359425	0.1301	0.0086	5008	,	,		14916	0.0		0.002	False		,,,				2504	0.0															0								G	,PHE/CYS	16,4390		7,2,2194	140	112	121		,236	4.7	1	20	dbSNP_120	121	0,8600		0,0,4300	yes	intron,missense	MAVS	NM_001206491.1,NM_020746.4	,205	7,2,6494	TT,TG,GG		0.0,0.3631,0.123	,probably-damaging	,79/541	3838400	16,12990	2203	4300	6503	SO:0001583	missense	57506			DQ174270	CCDS33437.1, CCDS56176.1	20p13	2009-04-02			ENSG00000088888	ENSG00000088888			29233	protein-coding gene	gene with protein product	"virus-induced signaling adaptor", "IFN-B promoter stimulator 1", "CARD adaptor inducing IFN-beta"	609676				16125763, 16153868	Standard	NM_020746		Approved	VISA, KIAA1271, IPS-1, Cardif	uc002wjw.4	Q7Z434	OTTHUMG00000031765	ENST00000428216.2:c.236G>T	20.37:g.3838400G>T	ENSP00000401980:p.Cys79Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6X0|B2BD33|B2BD34|F5H6C8|Q2HWT5|Q3I0Y2|Q5T7I6|Q86VY7|Q9H1H3|Q9H4Y1|Q9H8D3|Q9ULE9	Missense_Mutation	SNP	ENST00000428216.2	37	CCDS33437.1	38	0.0173992673992674	36	0.07317073170731707	2	0.0055248618784530384	0	0.0	0	0.0	G	9.560	1.118096	0.20877	0.003631	0.0	ENSG00000088888	ENST00000428216;ENST00000358134	T;T	0.10960	2.82;2.82	4.67	4.67	0.58626	.	0.000000	0.85682	D	0.000000	T	0.01976	0.0062	L	0.50919	1.6	0.80722	D	1	P;D;D	0.89917	0.617;1.0;1.0	B;D;D	0.91635	0.221;0.999;0.999	T	0.00018	-1.2372	10	0.72032	D	0.01	-14.2787	12.9462	0.58373	0.0:0.0:1.0:0.0	rs11905552;rs11905552	79;79;79	B2BD34;Q7Z434;Q7Z434-2	.;MAVS_HUMAN;.	F	79	ENSP00000401980:C79F;ENSP00000350852:C79F	ENSP00000350852:C79F	C	+	2	0	MAVS	3786400	1.000000	0.71417	0.987000	0.45799	0.051000	0.14879	4.206000	0.58473	2.407000	0.81776	0.609000	0.83330	TGT		0.632	MAVS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077784.3	NM_020746		T	3838400	G	T	3838400	3	4	687	1	0	0	0	0	1	0	0	0	9345	1377	48	4	242	4	MAVS	20	3838400	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	1	3838400	59187120	88	44576	478	2								
PPDPF	79144	hgsc.bcm.edu	37	chr20	62152686	62152687	+	Frame_Shift_Ins	INS	-	-	CC													0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ggccatcccctccagcggctINScgctcgtggccacccacgac					rs138230076		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr20:62152686_62152687insCC	ENST00000370179.3	+	2	221_222	c.25_26insCC	c.(25-27)tcgfs	p.S9fs	PPDPF_ENST00000370177.1_Frame_Shift_Ins_p.S9fs|PPDPF_ENST00000473620.1_Intron	NM_024299.2	NP_077275.1	Q9H3Y8	PPDPF_HUMAN	pancreatic progenitor cell differentiation and proliferation factor	9					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)					kidney(1)|lung(2)|ovary(1)	4						CTCCAGCGGCTCGCTCGTGGCC	0.698																																																0																																										SO:0001589	frameshift_variant	79144			AL121829	CCDS13523.1	20q13.33	2013-07-23	2013-07-23	2009-06-04	ENSG00000125534	ENSG00000125534			16142	protein-coding gene	gene with protein product	"exocrine differentiation and proliferation factor"		"chromosome 20 open reading frame 149", "pancreatic progenitor cell differentiation and proliferation factor homolog (zebrafish)"	C20orf149			Standard	NM_024299		Approved	dJ697K14.9, exdpf	uc002yff.3	Q9H3Y8	OTTHUMG00000032978	Exception_encountered	20.37:g.62152686_62152687insCC	ENSP00000359198:p.Ser9fs	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5J2|Q4VXP1|Q9H3Y7	Frame_Shift_Ins	INS	ENST00000370179.3	37	CCDS13523.1																																																																																				0.698	PPDPF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080149.1			CC	62152687	-	CC	62152686	7	5	687	1	0	1	1	0	0	0	0	0	12313	1551	54	0	27	0	PPDPF	20	62152686	Frame_Shift_Ins	INS	-	TCGA-KO-8417-01A-11D-2310-10	58314286	62152686	872834	89	44577										
SRMS	6725	bcgsc.ca	37	chr20	62173561	62173561	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	cttgcgcatgagttccgtgaCgatgtacacaggctccccgc	11	14	0	2	rs310657	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr20:62173561C>G	ENST00000217188.1	-	5	941	c.901G>C	c.(901-903)Gtc>Ctc	p.V301L		NM_080823.2	NP_543013.1	Q9H3Y6	SRMS_HUMAN	src-related kinase lacking C-terminal regulatory tyrosine and N-terminal myristylation sites	301	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.		V -> L (in dbSNP:rs310657). {ECO:0000269|PubMed:17344846}.		peptidyl-tyrosine autophosphorylation (GO:0038083)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein tyrosine kinase activity (GO:0004713)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(1)|lung(9)|prostate(2)|stomach(1)	19	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)			AGTTCCGTGACGATGTACACA	0.677													C|||	579	0.115615	0.3608	0.0576	5008	,	,		16696	0.0139		0.0258	False		,,,				2504	0.0225															0								C	LEU/VAL	1389,3009	452.2+/-349.9	215,959,1025	96	76	83		901	4.6	1	20	dbSNP_79	83	166,8434	77.5+/-140.1	0,166,4134	yes	missense	SRMS	NM_080823.2	32	215,1125,5159	GG,GC,CC		1.9302,31.5825,11.9634	probably-damaging	301/489	62173561	1555,11443	2199	4300	6499	SO:0001583	missense	6725				CCDS13525.1	20q13.33	2013-02-14	2003-08-22		ENSG00000125508	ENSG00000125508		"SH2 domain containing"	11298	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 148"	C20orf148		7935409	Standard	NM_080823		Approved	SRM, dJ697K14.1	uc002yfi.1	Q9H3Y6	OTTHUMG00000032977	ENST00000217188.1:c.901G>C	20.37:g.62173561C>G	ENSP00000217188:p.Val301Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000217188.1	37	CCDS13525.1	235	0.10760073260073261	192	0.3902439024390244	16	0.04419889502762431	10	0.017482517482517484	17	0.022427440633245383	C	17.54	3.416230	0.62511	0.315825	0.019302	ENSG00000125508	ENST00000217188	D	0.87179	-2.22	4.62	4.62	0.57501	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.124501	0.35936	N	0.002882	T	0.00012	0.0000	L	0.53780	1.695	0.31636	P	0.648475	B	0.33549	0.417	P	0.45377	0.478	T	0.01706	-1.1291	9	0.87932	D	0	.	12.0155	0.53311	0.0:0.9126:0.0:0.0873	rs310657;rs311541;rs1757734;rs58635261;rs310657	301	Q9H3Y6	SRMS_HUMAN	L	301	ENSP00000217188:V301L	ENSP00000217188:V301L	V	-	1	0	SRMS	61644005	1.000000	0.71417	1.000000	0.80357	0.211000	0.24417	1.512000	0.35812	2.120000	0.65058	0.561000	0.74099	GTC		0.677	SRMS-001	KNOWN	mRNA_end_NF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080148.1	NM_080823		G	62173561	C	G	62173561	3	3	687	1	0	0	0	0	1	0	0	0	15164	536	19	4	581	4	SRMS	20	62173561	Missense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10	20875	62173561	851959	90	44578										
ERG	2078	mdanderson.org	37	chr21	39795360	39795360	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	acgataactctgcgctcgttCgtggtcatgtttgggggtgg	15	8	2	0	rs200326224		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr21:39795360C>T	ENST00000417133.2	-	5	566	c.381G>A	c.(379-381)acG>acA	p.T127T	ERG_ENST00000398897.1_Silent_p.T28T|ERG_ENST00000429727.2_Silent_p.T120T|ERG_ENST00000398919.2_Silent_p.T127T|ERG_ENST00000398907.1_Silent_p.T120T|ERG_ENST00000398910.1_Silent_p.T127T|ERG_ENST00000288319.7_Silent_p.T120T|ERG_ENST00000398905.1_Silent_p.T120T|ERG_ENST00000442448.1_Silent_p.T127T|ERG_ENST00000398911.1_Silent_p.T127T|ERG_ENST00000453032.2_Silent_p.T28T	NM_001136154.1|NM_001243432.1	NP_001129626.1|NP_001230361.1	Q12809	KCNH2_HUMAN	v-ets avian erythroblastosis virus E26 oncogene homolog	145	PAC. {ECO:0000255|PROSITE- ProRule:PRU00141}.				cardiac muscle contraction (GO:0060048)|cellular response to drug (GO:0035690)|membrane depolarization during action potential (GO:0086010)|membrane repolarization during action potential (GO:0086011)|membrane repolarization during cardiac muscle cell action potential (GO:0086013)|negative regulation of potassium ion export (GO:1902303)|negative regulation of potassium ion transmembrane transport (GO:1901380)|positive regulation of potassium ion transmembrane transport (GO:1901381)|potassium ion export (GO:0071435)|potassium ion homeostasis (GO:0055075)|potassium ion transmembrane transport (GO:0071805)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of heart rate by hormone (GO:0003064)|regulation of membrane potential (GO:0042391)|regulation of membrane repolarization (GO:0060306)|regulation of potassium ion transmembrane transport (GO:1901379)|regulation of ventricular cardiac muscle cell membrane repolarization (GO:0060307)|synaptic transmission (GO:0007268)|ventricular cardiac muscle cell action potential (GO:0086005)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|nuclear envelope (GO:0005635)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|identical protein binding (GO:0042802)|inward rectifier potassium channel activity (GO:0005242)|phosphorelay sensor kinase activity (GO:0000155)|protein homodimerization activity (GO:0042803)|ubiquitin protein ligase binding (GO:0031625)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated potassium channel activity involved in ventricular cardiac muscle cell action potential repolarization (GO:1902282)		EWSR1/ERG(178)|NDRG1/ERG(5)|TMPRSS2/ERG(3582)|FUS/ERG(167)|SLC45A3/ERG(50)	lung(2)|ovary(1)|skin(1)	4		Prostate(19;3.6e-06)			Alfuzosin(DB00346)|Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Chlorpromazine(DB00477)|Cisapride(DB00604)|Dofetilide(DB00204)|Doxazosin(DB00590)|Doxepin(DB01142)|Dronedarone(DB04855)|Halofantrine(DB01218)|Ibutilide(DB00308)|Imipramine(DB00458)|Miconazole(DB01110)|Pimozide(DB01100)|Prazosin(DB00457)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terazosin(DB01162)|Thioridazine(DB00679)|Verapamil(DB00661)	TGCGCTCGTTCGTGGTCATGT	0.607			T	"EWSR1, TMPRSS2, ELF4, FUS, HERPUD1, NDRG1"	"Ewing sarcoma, prostate, AML"								C|||	1	0.000199681	0.0	0.0	5008	,	,		15792	0.0		0.001	False		,,,				2504	0.0				Esophageal Squamous(130;336 1700 3010 3083 40589)		Dom	yes		21	21q22.3	2078	v-ets erythroblastosis virus E26 oncogene like (avian)		"M, E, L"	0								C	,,,	0,4406		0,0,2203	240	155	184		381,84,381,360	-6.6	0.6	21		184	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	ERG	NM_001136154.1,NM_001136155.1,NM_004449.4,NM_182918.3	,,,	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	,,,	127/487,28/388,127/463,120/480	39795360	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	2078				CCDS13657.1, CCDS13658.1, CCDS46648.1, CCDS46649.1, CCDS58789.1	21q22.3	2013-07-09	2013-07-09		ENSG00000157554	ENSG00000157554			3446	protein-coding gene	gene with protein product	"v-ets avian erythroblastosis virus E26 oncogene related", "transcriptional regulator ERG (transforming protein ERG)", "v-ets erythroblastosis virus E26 oncogene like", "TMPRSS2-ERG prostate cancer specific"	165080	"v-ets avian erythroblastosis virus E26 oncogene related"			3274086	Standard	NM_001136154		Approved	erg-3, p55	uc002yxa.3	P11308	OTTHUMG00000090767	ENST00000417133.2:c.381G>A	21.37:g.39795360C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A5H1P7|C4PFH9|D3DX04|O75418|O75680|Q708S9|Q9BT72|Q9BUT7|Q9H3P0	Silent	SNP	ENST00000417133.2	37	CCDS46648.1																																																																																				0.607	ERG-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000207532.2	NM_182918		T	39795360	C	T	39795360	2	4	687	1	0	0	0	0	0	0	0	1	5224	871	31	1		1	ERG	21	39795360	Silent	SNP	C	TCGA-KO-8417-01A-11D-2310-10		39795360	8334535	91	44579										
KRTAP12-2	353323	bcgsc.ca	37	chr21	46086377	46086377	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tcatgctcagcagcaggaagAgatactgtaggagatgggtc	14	7	2	2	rs2838622	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr21:46086377A>G	ENST00000360770.3	-	1	467	c.427T>C	c.(427-429)Tct>Cct	p.S143P	TSPEAR_ENST00000323084.4_Intron	NM_181684.2	NP_859012.1	P59991	KR122_HUMAN	keratin associated protein 12-2	143			S -> P (in dbSNP:rs2838622).			keratin filament (GO:0045095)				central_nervous_system(1)|endometrium(1)|lung(3)	5						CAGCAGGAAGAGATACTGTAG	0.602													G|||	2918	0.582668	0.6967	0.5403	5008	,	,		19253	0.5655		0.492	False		,,,				2504	0.5695															0								G	,PRO/SER	2893,1387		1004,885,251	54	59	57		,427	1.8	0	21	dbSNP_100	57	3867,4609		924,2019,1295	yes	intron,missense	TSPEAR,KRTAP12-2	NM_144991.2,NM_181684.2	,74	1928,2904,1546	GG,GA,AA		45.6229,32.4065,47.0053	,benign	,143/147	46086377	6760,5996	2140	4238	6378	SO:0001583	missense	353323			AJ566389	CCDS42965.1	21q22.3	2006-03-13			ENSG00000221864	ENSG00000221864		"Keratin associated proteins"	20530	protein-coding gene	gene with protein product							Standard	NM_181684		Approved	KRTAP12.2, KAP12.2	uc002zfu.3	P59991	OTTHUMG00000057636	ENST00000360770.3:c.427T>C	21.37:g.46086377A>G	ENSP00000354001:p.Ser143Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NIS1|A6NMS9|Q0VAS4	Missense_Mutation	SNP	ENST00000360770.3	37	CCDS42965.1	1234	0.565018315018315	353	0.717479674796748	203	0.5607734806629834	303	0.5297202797202797	375	0.4947229551451187	g	0.003	-2.494097	0.00159	0.675935	0.456229	ENSG00000221864	ENST00000360770;ENST00000539483	T	0.02067	4.47	3.62	1.78	0.24846	.	.	.	.	.	T	0.00012	0.0000	N	0.00368	-1.59	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.15780	-1.0425	8	0.02654	T	1	.	5.8109	0.18465	0.3543:0.0:0.6457:0.0	rs2838622;rs61048872;rs2838622	143	P59991	KR122_HUMAN	P	143;93	ENSP00000354001:S143P	ENSP00000354001:S143P	S	-	1	0	KRTAP12-2	44910805	0.003000	0.15002	0.002000	0.10522	0.008000	0.06430	-0.301000	0.08232	-0.049000	0.13379	-0.355000	0.07637	TCT		0.602	KRTAP12-2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128039.1	NM_181684		G	46086377	A	G	46086377	3	3	687	1	0	0	0	0	1	0	0	0	8526	304	11	3	17	3	KRTAP12-2	21	46086377	Missense_Mutation	SNP	A	TCGA-KO-8417-01A-11D-2310-10	6291017	46086377	2043518	92	44580										
CDC42EP1	11135	mdanderson.org	37	chr22	37964429	37964429	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	cagcgcctgctgcaaaccccTcagcacctgccgcaaccccc	7	22	1	0	rs200195385|rs62235034|rs66468174	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr22:37964429T>C	ENST00000249014.4	+	3	1198	c.778T>C	c.(778-780)Tca>Cca	p.S260P		NM_152243.2	NP_689449.1	Q00587	BORG5_HUMAN	CDC42 effector protein (Rho GTPase binding) 1	260	8 X 7 AA tandem repeats of [PT]-[AT]-A- [ENT]-[PT]-[PTS]-[AG].				positive regulation of pseudopodium assembly (GO:0031274)|regulation of cell shape (GO:0008360)|Rho protein signal transduction (GO:0007266)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)		p.N258_A264delNPSAPAA(3)		endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(2)|lung(4)|prostate(5)	15	Melanoma(58;0.0574)					TGCAAACCCCTCAGCACCTGC	0.667																																																3	Deletion - In frame(3)	large_intestine(2)|haematopoietic_and_lymphoid_tissue(1)											12	10	11					22																	37964429		2168	3775	5943	SO:0001583	missense	11135			M88338	CCDS13949.1	22q13.1	2008-06-11			ENSG00000128283	ENSG00000128283			17014	protein-coding gene	gene with protein product	"55 kDa bone marrow stromal/endothelial cell protein", "serum constituent protein"	606084				1629197, 10430899	Standard	NM_152243		Approved	MSE55, CEP1, Borg5	uc003asz.4	Q00587	OTTHUMG00000150591	ENST00000249014.4:c.778T>C	22.37:g.37964429T>C	ENSP00000249014:p.Ser260Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K825|Q96GN1	Missense_Mutation	SNP	ENST00000249014.4	37	CCDS13949.1	812	0.3717948717948718	78	0.15853658536585366	183	0.505524861878453	155	0.270979020979021	396	0.5224274406332454	T	0.070	-1.204174	0.01568	.	.	ENSG00000128283	ENST00000249014	T	0.31769	1.48	1.93	-3.86	0.04230	.	.	.	.	.	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	B	0.02656	0.0	B	0.01281	0.0	T	0.45011	-0.9290	8	0.06236	T	0.91	.	1.0989	0.01680	0.1719:0.4066:0.17:0.2515	rs62235034	260	Q00587	BORG5_HUMAN	P	260	ENSP00000249014:S260P	ENSP00000249014:S260P	S	+	1	0	CDC42EP1	36294375	0.000000	0.05858	0.000000	0.03702	0.010000	0.07245	-0.184000	0.09698	-1.081000	0.03105	-1.073000	0.02249	TCA		0.667	CDC42EP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318993.1	NM_152243		C	37964429	T	C	37964429	3	2	687	1	0	0	0	0	1	0	0	0	3077	1551	54	3	784	3	CDC42EP1	22	37964429	Missense_Mutation	SNP	T	TCGA-KO-8417-01A-11D-2310-10		37964429	13340137	93	44581										
BAIAP2L2	80115	mdanderson.org	37	chr22	38483172	38483172	+	Silent	SNP	G	G	T													0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gggttcatgggtgtcatgggGgacatggaggtcatggaggt					rs539447143	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr22:38483172G>T	ENST00000381669.3	-	11	1362	c.1218C>A	c.(1216-1218)tcC>tcA	p.S406S	CTA-228A9.3_ENST00000609162.1_lincRNA	NM_025045.4	NP_079321.3	Q6UXY1	BI2L2_HUMAN	BAI1-associated protein 2-like 2	406					filopodium assembly (GO:0046847)|membrane organization (GO:0061024)|regulation of actin cytoskeleton organization (GO:0032956)|signal transduction (GO:0007165)	cell-cell contact zone (GO:0044291)|cytoplasmic vesicle (GO:0031410)|plasma membrane (GO:0005886)|vesicle membrane (GO:0012506)	phospholipid binding (GO:0005543)			large_intestine(2)|lung(1)|ovary(2)|pancreas(1)|prostate(1)|stomach(1)	8	Melanoma(58;0.045)					gtgtcatgggggacatggagg	0.662													G|||	30	0.00599042	0.0068	0.0014	5008	,	,		13061	0.0		0.004	False		,,,				2504	0.0164															0													31	37	35					22																	38483172		1925	4122	6047	SO:0001819	synonymous_variant	80115			BC015619	CCDS43018.1	22q13.1	2005-02-09			ENSG00000128298	ENSG00000128298			26203	protein-coding gene	gene with protein product							Standard	NM_025045		Approved	FLJ22582	uc003auw.3	Q6UXY1	OTTHUMG00000151197	ENST00000381669.3:c.1218C>A	22.37:g.38483172G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B0QYE2|Q96BG7	Silent	SNP	ENST00000381669.3	37	CCDS43018.1																																																																																				0.662	BAIAP2L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321727.1	NM_025045		T	38483172	G	T	38483172	2	4	687	1	0	0	0	0	0	0	0	1	1303	1219	43	4		4	BAIAP2L2	22	38483172	Silent	SNP	G	TCGA-KO-8417-01A-11D-2310-10	518743	38483172	12821394	94	44582	479	3								
BAIAP2L2	80115	mdanderson.org	37	chr22	38483174	38483174	+	Missense_Mutation	SNP	A	A	T													0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gttcatgggtgtcatgggggAcatggaggtcatggaggtca					rs374089121|rs200930717|rs78489217	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr22:38483174A>T	ENST00000381669.3	-	11	1360	c.1216T>A	c.(1216-1218)Tcc>Acc	p.S406T	CTA-228A9.3_ENST00000609162.1_lincRNA	NM_025045.4	NP_079321.3	Q6UXY1	BI2L2_HUMAN	BAI1-associated protein 2-like 2	406					filopodium assembly (GO:0046847)|membrane organization (GO:0061024)|regulation of actin cytoskeleton organization (GO:0032956)|signal transduction (GO:0007165)	cell-cell contact zone (GO:0044291)|cytoplasmic vesicle (GO:0031410)|plasma membrane (GO:0005886)|vesicle membrane (GO:0012506)	phospholipid binding (GO:0005543)	p.M405_S406insTSM(1)		large_intestine(2)|lung(1)|ovary(2)|pancreas(1)|prostate(1)|stomach(1)	8	Melanoma(58;0.045)					gtcatgggggacatggaggtc	0.657													A|||	84	0.0167732	0.0076	0.0159	5008	,	,		13137	0.001		0.0278	False		,,,				2504	0.0348															1	Insertion - In frame(1)	ovary(1)											32	38	36					22																	38483174		1925	4121	6046	SO:0001583	missense	80115			BC015619	CCDS43018.1	22q13.1	2005-02-09			ENSG00000128298	ENSG00000128298			26203	protein-coding gene	gene with protein product							Standard	NM_025045		Approved	FLJ22582	uc003auw.3	Q6UXY1	OTTHUMG00000151197	ENST00000381669.3:c.1216T>A	22.37:g.38483174A>T	ENSP00000371085:p.Ser406Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B0QYE2|Q96BG7	Missense_Mutation	SNP	ENST00000381669.3	37	CCDS43018.1	254	0.1163003663003663	58	0.11788617886178862	58	0.16022099447513813	32	0.055944055944055944	106	0.13984168865435356	A	0.010	-1.753658	0.00663	.	.	ENSG00000128298	ENST00000381669;ENST00000402500;ENST00000428572	T;T	0.21543	2.0;2.0	0.235	-0.47	0.12131	.	2.310980	0.01612	N	0.022579	T	0.00039	0.0001	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.27434	-1.0074	9	0.18276	T	0.48	.	.	.	.	.	406	Q6UXY1	BI2L2_HUMAN	T	406;406;97	ENSP00000371085:S406T;ENSP00000410074:S97T	ENSP00000371085:S406T	S	-	1	0	BAIAP2L2	36813120	0.121000	0.22262	0.001000	0.08648	0.001000	0.01503	0.410000	0.21098	-2.434000	0.00554	-2.582000	0.00168	TCC		0.657	BAIAP2L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321727.1	NM_025045		T	38483174	A	T	38483174	3	4	687	1	0	0	0	0	1	0	0	0	1303	275	10	5	389	5	BAIAP2L2	22	38483174	Missense_Mutation	SNP	A	TCGA-KO-8417-01A-11D-2310-10	2	38483174	12821392	95	44583	479	3								
BAIAP2L2	80115	mdanderson.org	37	chr22	38483180	38483180	+	Missense_Mutation	SNP	A	A	G													0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gggtgtcatgggggacatggAggtcatggaggtcatggggg					rs111783779	byFrequency	TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr22:38483180A>G	ENST00000381669.3	-	11	1354	c.1210T>C	c.(1210-1212)Tcc>Ccc	p.S404P	CTA-228A9.3_ENST00000609162.1_lincRNA	NM_025045.4	NP_079321.3	Q6UXY1	BI2L2_HUMAN	BAI1-associated protein 2-like 2	404					filopodium assembly (GO:0046847)|membrane organization (GO:0061024)|regulation of actin cytoskeleton organization (GO:0032956)|signal transduction (GO:0007165)	cell-cell contact zone (GO:0044291)|cytoplasmic vesicle (GO:0031410)|plasma membrane (GO:0005886)|vesicle membrane (GO:0012506)	phospholipid binding (GO:0005543)			large_intestine(2)|lung(1)|ovary(2)|pancreas(1)|prostate(1)|stomach(1)	8	Melanoma(58;0.045)					ggggacatggaggtcatggag	0.657													A|||	14	0.00279553	0.0061	0.0	5008	,	,		13299	0.0		0.001	False		,,,				2504	0.0051															0													34	41	39					22																	38483180		1927	4124	6051	SO:0001583	missense	80115			BC015619	CCDS43018.1	22q13.1	2005-02-09			ENSG00000128298	ENSG00000128298			26203	protein-coding gene	gene with protein product							Standard	NM_025045		Approved	FLJ22582	uc003auw.3	Q6UXY1	OTTHUMG00000151197	ENST00000381669.3:c.1210T>C	22.37:g.38483180A>G	ENSP00000371085:p.Ser404Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B0QYE2|Q96BG7	Missense_Mutation	SNP	ENST00000381669.3	37	CCDS43018.1	.	.	.	.	.	.	.	.	.	.	A	1.092	-0.663862	0.03428	.	.	ENSG00000128298	ENST00000381669;ENST00000402500;ENST00000428572	T;T	0.21031	2.03;2.03	0.208	0.208	0.15221	.	2.204600	0.02525	N	0.093019	T	0.08802	0.0218	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.17992	-1.0351	9	0.05436	T	0.98	.	.	.	.	.	404	Q6UXY1	BI2L2_HUMAN	P	404;404;95	ENSP00000371085:S404P;ENSP00000410074:S95P	ENSP00000371085:S404P	S	-	1	0	BAIAP2L2	36813126	0.009000	0.17119	0.004000	0.12327	0.001000	0.01503	0.089000	0.15002	-0.794000	0.04468	-0.795000	0.03280	TCC		0.657	BAIAP2L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321727.1	NM_025045		G	38483180	A	G	38483180	3	3	687	1	0	0	0	0	1	0	0	0	1303	304	11	3	395	3	BAIAP2L2	22	38483180	Missense_Mutation	SNP	A	TCGA-KO-8417-01A-11D-2310-10	6	38483180	12821386	96	44584	479	3								
PHF21B	112885	hgsc.bcm.edu	37	chr22	45283998	45283998	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gtgctcatcgtgggtgatctCgttctggaagagaagggagg	17	6	3	2			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chr22:45283998C>G	ENST00000313237.5	-	10	1192	c.1042G>C	c.(1042-1044)Gag>Cag	p.E348Q	PHF21B_ENST00000447824.3_Missense_Mutation_p.R286P|PHF21B_ENST00000404079.2_Missense_Mutation_p.E294Q|PHF21B_ENST00000396103.3_Missense_Mutation_p.E306Q|PHF21B_ENST00000403565.1_Missense_Mutation_p.E144Q	NM_138415.4	NP_612424.1	Q96EK2	PF21B_HUMAN	PHD finger protein 21B	348							zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(14)|ovary(2)|prostate(1)|skin(2)	25		all_neural(38;0.00802)|Glioma(61;0.0353)|Ovarian(80;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0203)		TGGGTGATCTCGTTCTGGAAG	0.692																																																0													12	11	12					22																	45283998		2109	4127	6236	SO:0001583	missense	112885			AK091480	CCDS14061.1, CCDS56234.1, CCDS63504.1	22q13.31	2013-01-28			ENSG00000056487	ENSG00000056487		"Zinc fingers, PHD-type"	25161	protein-coding gene	gene with protein product			"PHD finger protein 4"	PHF4		12477932	Standard	NM_138415		Approved	BHC80L, FLJ34161	uc011aql.2	Q96EK2	OTTHUMG00000151199	ENST00000313237.5:c.1042G>C	22.37:g.45283998C>G	ENSP00000324403:p.Glu348Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B0QYW3|B0QYW4|B3KRU4|B7Z4F8|Q5TFL2|Q6ICC0	Missense_Mutation	SNP	ENST00000313237.5	37	CCDS14061.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	12.68|12.68	2.009195|2.009195	0.35415|0.35415	.|.	.|.	ENSG00000056487|ENSG00000056487	ENST00000403565;ENST00000313237;ENST00000396103;ENST00000404079|ENST00000447824	T;T;T;T|T	0.55413|0.42900	0.52;0.52;0.52;0.52|0.96	4.13|4.13	4.13|4.13	0.48395|0.48395	Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, FYVE/PHD-type (1);|.	0.080425|.	0.48286|.	D|.	0.000197|.	T|T	0.39572|0.39572	0.1083|0.1083	L|L	0.45581|0.45581	1.43|1.43	0.35018|0.35018	D|D	0.757597|0.757597	D;D;D;D|B	0.67145|0.09022	0.99;0.964;0.996;0.989|0.002	P;P;P;P|B	0.60949|0.08055	0.869;0.676;0.881;0.794|0.003	T|T	0.50583|0.50583	-0.8811|-0.8811	10|9	0.33141|0.48119	T|T	0.24|0.1	-28.4847|-28.4847	16.5776|16.5776	0.84705|0.84705	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	306;294;348;144|286	Q96EK2-3;B7Z4F8;Q96EK2;B1AHC5|B7Z657	.;.;PF21B_HUMAN;.|.	Q|P	144;348;306;294|286	ENSP00000385053:E144Q;ENSP00000324403:E348Q;ENSP00000379410:E306Q;ENSP00000385105:E294Q|ENSP00000388619:R286P	ENSP00000324403:E348Q|ENSP00000388619:R286P	E|R	-|-	1|2	0|0	PHF21B|PHF21B	43662662|43662662	0.999000|0.999000	0.42202|0.42202	0.884000|0.884000	0.34674|0.34674	0.105000|0.105000	0.19272|0.19272	4.394000|4.394000	0.59671|0.59671	2.106000|2.106000	0.64143|0.64143	0.462000|0.462000	0.41574|0.41574	GAG|CGA		0.692	PHF21B-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000321731.2	NM_138415		G	45283998	C	G	45283998	3	3	687	1	0	0	0	0	1	0	0	0	11841	893	31	4	569	4	PHF21B	22	45283998	Missense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10	6800818	45283998	6020568	97	44585										
CXorf22	170063	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	35969403	35969403	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	atcaaaaattaaacatgcacGtgtatacaataatagcccag	5	8	1	0			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chrX:35969403G>A	ENST00000297866.5	+	5	878	c.812G>A	c.(811-813)cGt>cAt	p.R271H		NM_152632.3	NP_689845.2	Q6ZTR5	CX022_HUMAN	chromosome X open reading frame 22	271										breast(2)|central_nervous_system(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(9)|lung(18)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(3)	44						AAACATGCACGTGTATACAAT	0.413																																																0													72	63	66					X																	35969403		2202	4300	6502	SO:0001583	missense	170063			BC027936	CCDS14237.2	Xp21.1	2014-08-07			ENSG00000165164	ENSG00000165164			28546	protein-coding gene	gene with protein product						12477932	Standard	NM_152632		Approved	MGC34831	uc004ddj.3	Q6ZTR5	OTTHUMG00000021350	ENST00000297866.5:c.812G>A	X.37:g.35969403G>A	ENSP00000297866:p.Arg271His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JRM8|Q8N6X8	Missense_Mutation	SNP	ENST00000297866.5	37	CCDS14237.2	.	.	.	.	.	.	.	.	.	.	G	3.433	-0.115726	0.06881	.	.	ENSG00000165164	ENST00000297866	T	0.13420	2.59	5.76	3.31	0.37934	.	0.993117	0.08188	N	0.984326	T	0.10594	0.0259	L	0.36672	1.1	0.09310	N	1	P	0.52316	0.952	B	0.44044	0.439	T	0.14783	-1.0460	10	0.14252	T	0.57	-20.7771	2.0991	0.03675	0.2631:0.0768:0.1427:0.5173	.	271	Q6ZTR5	CX022_HUMAN	H	271	ENSP00000297866:R271H	ENSP00000297866:R271H	R	+	2	0	CXorf22	35879324	0.006000	0.16342	0.001000	0.08648	0.006000	0.05464	0.902000	0.28459	0.264000	0.21851	-0.490000	0.04691	CGT		0.413	CXorf22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056216.2	NM_152632		A	35969403	G	A	35969403	3	1	687	1	0	0	0	0	1	0	0	0	4104	1145	40	1	830	1	CXorf22	23	35969403	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10		35969403	119301157	98	44586										
PDZD11	51248	broad.mit.edu;mdanderson.org;bcgsc.ca	37	chrX	69506937	69506937	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	gtgggctgcaactttctagtGcacagtcctctctttttggc	10	11	2	0			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chrX:69506937G>T	ENST00000239666.4	-	7	550	c.418C>A	c.(418-420)Cac>Aac	p.H140N	PDZD11_ENST00000374454.1_Missense_Mutation_p.H140N|KIF4A_ENST00000374388.3_5'Flank|PDZD11_ENST00000473667.1_5'Flank	NM_016484.4	NP_057568.1	Q5EBL8	PDZ11_HUMAN	PDZ domain containing 11	140						basolateral plasma membrane (GO:0016323)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)	protein C-terminus binding (GO:0008022)			breast(1)|endometrium(2)|large_intestine(3)|lung(3)	9						ACTTTCTAGTGCACAGTCCTC	0.483																																																0													58	47	51					X																	69506937		2202	4297	6499	SO:0001583	missense	51248			AF151061	CCDS14400.1	Xq13.1	2008-02-05		2006-01-24	ENSG00000120509	ENSG00000120509			28034	protein-coding gene	gene with protein product		300632		PDZK11		11042152, 12975309	Standard	NM_016484		Approved		uc004dyd.1	Q5EBL8	OTTHUMG00000021771	ENST00000239666.4:c.418C>A	X.37:g.69506937G>T	ENSP00000239666:p.His140Asn	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVU3|Q6UWE1|Q9P0Q1	Missense_Mutation	SNP	ENST00000239666.4	37	CCDS14400.1	.	.	.	.	.	.	.	.	.	.	G	21.6	4.170797	0.78452	.	.	ENSG00000120509	ENST00000239666;ENST00000374454	T;T	0.39997	1.05;1.05	5.65	5.65	0.86999	.	0.000000	0.85682	D	0.000000	T	0.53562	0.1804	L	0.27053	0.805	0.80722	D	1	D;D	0.67145	0.996;0.981	D;D	0.75484	0.986;0.932	T	0.56902	-0.7902	10	0.87932	D	0	.	17.55	0.87873	0.0:0.0:1.0:0.0	.	171;140	Q5EBL8-2;Q5EBL8	.;PDZ11_HUMAN	N	140	ENSP00000239666:H140N;ENSP00000363578:H140N	ENSP00000239666:H140N	H	-	1	0	PDZD11	69423662	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.142000	0.77339	2.618000	0.88619	0.600000	0.82982	CAC		0.483	PDZD11-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057060.1	NM_016484		T	69506937	G	T	69506937	3	4	687	1	0	0	0	0	1	0	0	0	11707	1319	46	4	8	4	PDZD11	23	69506937	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	33537534	69506937	85763623	99	44587										
RPS6KA6	27330	broad.mit.edu;hgsc.bcm.edu;mdanderson.org	37	chrX	83361951	83361951	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	aatacatttgcacttgtgatAggagtgattttatattcttc	7	5	1	2			TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chrX:83361951A>G	ENST00000262752.2	-	14	1216	c.1209T>C	c.(1207-1209)ccT>ccC	p.P403P	RPS6KA6_ENST00000495332.1_5'Flank|RPS6KA6_ENST00000543399.1_Silent_p.P403P	NM_014496.4	NP_055311.1	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide 6	403					axon guidance (GO:0007411)|central nervous system development (GO:0007417)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|negative regulation of embryonic development (GO:0045992)|negative regulation of ERK1 and ERK2 cascade (GO:0070373)|negative regulation of mesoderm development (GO:2000381)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(26)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	46						CACTTGTGATAGGAGTGATTT	0.353																																																0													78	72	74					X																	83361951		2202	4300	6502	SO:0001819	synonymous_variant	27330			AF184965	CCDS14451.1	Xq21.1	2011-04-05	2002-08-29		ENSG00000072133	ENSG00000072133			10435	protein-coding gene	gene with protein product		300303	"ribosomal protein S6 kinase, 90kD, polypeptide 6"			10644430	Standard	NM_014496		Approved	RSK4	uc004eej.2	Q9UK32	OTTHUMG00000021923	ENST00000262752.2:c.1209T>C	X.37:g.83361951A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R854|B7ZL90|Q6FHX2|Q8WX28|Q9H4S6	Silent	SNP	ENST00000262752.2	37	CCDS14451.1																																																																																				0.353	RPS6KA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057372.1	NM_014496		G	83361951	A	G	83361951	2	3	687	1	0	0	0	0	0	0	0	1	13668	407	15	3		3	RPS6KA6	23	83361951	Silent	SNP	A	TCGA-KO-8417-01A-11D-2310-10	13855014	83361951	71908609	100	44588										
RBMX	27316	mdanderson.org	37	chrX	135956462	135956462	+	Missense_Mutation	SNP	G	G	C													0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	ttgtctgccaacccgatcacGaccacttgagtagagatcac					rs74463481		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chrX:135956462G>C	ENST00000320676.7	-	9	1169	c.1015C>G	c.(1015-1017)Cgt>Ggt	p.R339G	RBMX_ENST00000565438.1_Missense_Mutation_p.R211G|RBMX_ENST00000562646.1_3'UTR|RBMX_ENST00000496459.2_5'Flank|RBMX_ENST00000431446.3_Intron|RBMX_ENST00000570135.1_Missense_Mutation_p.R204G	NM_002139.3	NP_002130.2	P38159	RBMX_HUMAN	RNA binding motif protein, X-linked	339	Necessary for RNA-binding.				cellular response to interleukin-1 (GO:0071347)|gene expression (GO:0010467)|membrane protein ectodomain proteolysis (GO:0006509)|mRNA splicing, via spliceosome (GO:0000398)|negative regulation of mRNA splicing, via spliceosome (GO:0048025)|osteoblast differentiation (GO:0001649)|positive regulation of mRNA splicing, via spliceosome (GO:0048026)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein homooligomerization (GO:0051260)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|RNA splicing (GO:0008380)|transcription from RNA polymerase II promoter (GO:0006366)	catalytic step 2 spliceosome (GO:0071013)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nuclear euchromatin (GO:0005719)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)|supraspliceosomal complex (GO:0044530)	chromatin binding (GO:0003682)|core promoter binding (GO:0001047)|mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			NS(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|large_intestine(2)|lung(12)|ovary(2)|pancreas(1)|prostate(2)|urinary_tract(1)	33	Acute lymphoblastic leukemia(192;0.000127)					ACCCGATCACGACCACTTGAG	0.537																																																0																																										SO:0001583	missense	27316				CCDS14661.1, CCDS55510.1	Xq26	2013-05-23	2003-09-12		ENSG00000147274	ENSG00000147274		"RNA binding motif (RRM) containing"	9910	protein-coding gene	gene with protein product	"heterogeneous nuclear ribonucleoprotein G"	300199	"RNA binding motif protein, X chromosome"			10391206, 10391207	Standard	NM_002139		Approved	RNMX, hnRNP-G, HNRNPG	uc004fae.2	P38159	OTTHUMG00000022517	ENST00000320676.7:c.1015C>G	X.37:g.135956462G>C	ENSP00000359645:p.Arg339Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3U4|D3DWH0|E9PG86|Q5JQ67|Q8N8Y7|Q969R3	Missense_Mutation	SNP	ENST00000320676.7	37	CCDS14661.1	.	.	.	.	.	.	.	.	.	.	.	12.06	1.824057	0.32237	.	.	ENSG00000147274	ENST00000320676;ENST00000449161	T	0.81247	-1.47	5.4	4.54	0.55810	.	0.000000	0.85682	U	0.000000	T	0.77350	0.4117	L	0.59436	1.845	0.19300	P	0.9999701562	P	0.47034	0.889	B	0.40101	0.319	D	0.84520	0.0627	9	0.72032	D	0.01	.	13.8398	0.63432	0.0758:0.0:0.9242:0.0	.	339	P38159	HNRPG_HUMAN	G	339;326	ENSP00000359645:R339G	ENSP00000359645:R339G	R	-	1	0	RBMX	135784128	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	4.693000	0.61753	1.168000	0.42723	-0.176000	0.13171	CGT		0.537	RBMX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058507.1	NM_002139		C	135956462	G	C	135956462	3	2	687	1	0	0	0	0	1	0	0	0	13164	1058	37	4	219	4	RBMX	23	135956462	Missense_Mutation	SNP	G	TCGA-KO-8417-01A-11D-2310-10	52594511	135956462	19314098	101	44589	480	2								
RBMX	27316	mdanderson.org	37	chrX	135956467	135956467	+	Missense_Mutation	SNP	C	C	T													0.0210526315789474	2	1	0.321049136786189	0.642098273572377	0.214032757857459	1	1	0	tgccaacccgatcacgaccaCttgagtagagatcacttcgg					rs35899675		TCGA-KO-8417-01A-11D-2310-10	TCGA-KO-8417-11A-01D-2311-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0c7af04b-e171-47c4-8be5-5db33f20148e	32e33f58-0399-49bb-bc8c-1eeb122d4df4	g.chrX:135956467C>T	ENST00000320676.7	-	9	1164	c.1010G>A	c.(1009-1011)aGt>aAt	p.S337N	RBMX_ENST00000565438.1_Missense_Mutation_p.S209N|RBMX_ENST00000562646.1_3'UTR|RBMX_ENST00000496459.2_5'Flank|RBMX_ENST00000431446.3_Intron|RBMX_ENST00000570135.1_Missense_Mutation_p.S202N	NM_002139.3	NP_002130.2	P38159	RBMX_HUMAN	RNA binding motif protein, X-linked	337	Necessary for RNA-binding.				cellular response to interleukin-1 (GO:0071347)|gene expression (GO:0010467)|membrane protein ectodomain proteolysis (GO:0006509)|mRNA splicing, via spliceosome (GO:0000398)|negative regulation of mRNA splicing, via spliceosome (GO:0048025)|osteoblast differentiation (GO:0001649)|positive regulation of mRNA splicing, via spliceosome (GO:0048026)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein homooligomerization (GO:0051260)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|RNA splicing (GO:0008380)|transcription from RNA polymerase II promoter (GO:0006366)	catalytic step 2 spliceosome (GO:0071013)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nuclear euchromatin (GO:0005719)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)|supraspliceosomal complex (GO:0044530)	chromatin binding (GO:0003682)|core promoter binding (GO:0001047)|mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)	p.S337N(1)		NS(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|large_intestine(2)|lung(12)|ovary(2)|pancreas(1)|prostate(2)|urinary_tract(1)	33	Acute lymphoblastic leukemia(192;0.000127)					ATCACGACCACTTGAGTAGAG	0.527																																																1	Substitution - Missense(1)	large_intestine(1)											126	116	119					X																	135956467		2203	4300	6503	SO:0001583	missense	27316				CCDS14661.1, CCDS55510.1	Xq26	2013-05-23	2003-09-12		ENSG00000147274	ENSG00000147274		"RNA binding motif (RRM) containing"	9910	protein-coding gene	gene with protein product	"heterogeneous nuclear ribonucleoprotein G"	300199	"RNA binding motif protein, X chromosome"			10391206, 10391207	Standard	NM_002139		Approved	RNMX, hnRNP-G, HNRNPG	uc004fae.2	P38159	OTTHUMG00000022517	ENST00000320676.7:c.1010G>A	X.37:g.135956467C>T	ENSP00000359645:p.Ser337Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3U4|D3DWH0|E9PG86|Q5JQ67|Q8N8Y7|Q969R3	Missense_Mutation	SNP	ENST00000320676.7	37	CCDS14661.1	.	.	.	.	.	.	.	.	.	.	.	14.40	2.523817	0.44866	.	.	ENSG00000147274	ENST00000320676;ENST00000449161	T	0.77229	-1.08	5.4	5.4	0.78164	.	0.134440	0.49916	U	0.000121	D	0.83959	0.5367	L	0.43152	1.355	0.23661	P	0.99717437	D	0.57899	0.981	D	0.67900	0.954	D	0.83628	0.0143	9	0.44086	T	0.13	.	18.4308	0.90624	0.0:1.0:0.0:0.0	rs55701431	337	P38159	HNRPG_HUMAN	N	337;324	ENSP00000359645:S337N	ENSP00000359645:S337N	S	-	2	0	RBMX	135784133	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	4.933000	0.63484	2.380000	0.81148	0.600000	0.82982	AGT		0.527	RBMX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058507.1	NM_002139		T	135956467	C	T	135956467	3	4	687	1	0	0	0	0	1	0	0	0	13164	565	20	2	224	2	RBMX	23	135956467	Missense_Mutation	SNP	C	TCGA-KO-8417-01A-11D-2310-10	5	135956467	19314093	102	44590	480	2								
RPS6KA1	6195	ucsc.edu	37	chr1	26873742	26873742	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	ctgtatgctatgaaggtgctGaagaaggcaacgctgaaagg	14	6	0	4			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr1:26873742G>A	ENST00000374168.2	+	4	442	c.288G>A	c.(286-288)ctG>ctA	p.L96L	RPS6KA1_ENST00000374166.4_Silent_p.L96L|RPS6KA1_ENST00000374162.2_Silent_p.L4L|RPS6KA1_ENST00000526792.1_Silent_p.L4L|RPS6KA1_ENST00000530003.1_Silent_p.L80L|RPS6KA1_ENST00000531382.1_Silent_p.L105L	NM_002953.3	NP_002944.2	Q15418	KS6A1_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide 1	96	Protein kinase 1. {ECO:0000255|PROSITE- ProRule:PRU00159}.				axon guidance (GO:0007411)|cell cycle (GO:0007049)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of cell differentiation (GO:0045597)|positive regulation of cell growth (GO:0030307)|positive regulation of hepatic stellate cell activation (GO:2000491)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of DNA-templated transcription in response to stress (GO:0043620)|regulation of translation in response to stress (GO:0043555)|signal transduction (GO:0007165)|stress-activated MAPK cascade (GO:0051403)|synaptic transmission (GO:0007268)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle (GO:0005819)	ATP binding (GO:0005524)|cysteine-type endopeptidase inhibitor activity involved in apoptotic process (GO:0043027)|magnesium ion binding (GO:0000287)|protein serine/threonine kinase activity (GO:0004674)|protein serine/threonine/tyrosine kinase activity (GO:0004712)			lung(1)	1		all_cancers(24;2.49e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00571)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.12e-50)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-29)|Colorectal(126;1.4e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000537)|KIRC - Kidney renal clear cell carcinoma(1967;0.000759)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0361)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.161)|LUSC - Lung squamous cell carcinoma(448;0.234)		TGAAGGTGCTGAAGAAGGCAA	0.597																																																0													70	62	65					1																	26873742		2203	4300	6503	SO:0001819	synonymous_variant	6195			BC014966	CCDS284.1, CCDS30649.1	1p	2011-04-05	2002-08-29		ENSG00000117676	ENSG00000117676			10430	protein-coding gene	gene with protein product		601684	"ribosomal protein S6 kinase, 90kD, polypeptide 1"			8141249	Standard	NM_001006665		Approved	RSK, RSK1, HU-1	uc001bms.1	Q15418	OTTHUMG00000004003	ENST00000374168.2:c.288G>A	1.37:g.26873742G>A		Somatic		WXS	Illumina HiSeq		A6NGG4|A8K9K7|B2RDY8|B7Z5J0|Q5SVM5|Q5SVM8|Q5SVM9|Q96C05|Q9BQK2	Silent	SNP	ENST00000374168.2	37	CCDS284.1																																																																																				0.597	RPS6KA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000011431.1	NM_002953		A	26873742	G	A	26873742	2	1	688	1	0	0	0	0	0	0	0	1	13663	1277	45	2		2	RPS6KA1	1	26873742	Silent	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10		26873742	222376879	1	44591										
TRIM62	55223	broad.mit.edu	37	chr1	33625315	33625315	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	gacagtgaggccaccccagcCaggaaggtgtgccggtcggt	16	12	0	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr1:33625315C>T	ENST00000291416.5	-	3	968	c.735G>A	c.(733-735)ctG>ctA	p.L245L	TRIM62_ENST00000485148.1_5'UTR|TRIM62_ENST00000543586.1_Silent_p.L124L	NM_018207.2	NP_060677.2	Q9BVG3	TRI62_HUMAN	tripartite motif containing 62	245					innate immune response (GO:0045087)|negative regulation of viral transcription (GO:0032897)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|protein ubiquitination (GO:0016567)|regulation of viral entry into host cell (GO:0046596)|regulation of viral release from host cell (GO:1902186)	cytoplasm (GO:0005737)	ligase activity (GO:0016874)|zinc ion binding (GO:0008270)			endometrium(3)|kidney(2)|large_intestine(4)|lung(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	15		Myeloproliferative disorder(586;0.0393)				CCACCCCAGCCAGGAAGGTGT	0.682																																																0													32	34	33					1																	33625315		2203	4300	6503	SO:0001819	synonymous_variant	55223			BC007999	CCDS376.1	1p35.1	2013-10-11	2011-01-25		ENSG00000116525	ENSG00000116525		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	25574	protein-coding gene	gene with protein product	"ductal epithelium-associated RING Chromosome 1"		"tripartite motif-containing 62"			19536326	Standard	NM_018207		Approved	FLJ10759, DEAR1	uc001bxb.3	Q9BVG3	OTTHUMG00000004132	ENST00000291416.5:c.735G>A	1.37:g.33625315C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KVH5|B4DTE4|D3DPR1|Q9NVG0	Silent	SNP	ENST00000291416.5	37	CCDS376.1																																																																																				0.682	TRIM62-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000011890.1	NM_018207		T	33625315	C	T	33625315	2	4	688	1	0	0	0	0	0	0	0	1	16549	581	21	2		2	TRIM62	1	33625315	Silent	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	6751573	33625315	215625306	2	44592										
FHL3	2275	broad.mit.edu	37	chr1	38463363	38463363	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	acccttgtcccacctacgatGgggcgcttgcagctgctgca	11	15	0	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr1:38463363G>T	ENST00000373016.3	-	5	849	c.681C>A	c.(679-681)ccC>ccA	p.P227P	FHL3_ENST00000485803.1_5'UTR	NM_001243878.1|NM_004468.4	NP_001230807.1|NP_004459.2	Q13643	FHL3_HUMAN	four and a half LIM domains 3	227	LIM zinc-binding 4. {ECO:0000255|PROSITE- ProRule:PRU00125}.				actin cytoskeleton organization (GO:0030036)|muscle organ development (GO:0007517)	focal adhesion (GO:0005925)|nucleus (GO:0005634)|stress fiber (GO:0001725)|Z disc (GO:0030018)	zinc ion binding (GO:0008270)			endometrium(1)|kidney(1)|large_intestine(1)|lung(2)	5	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				CACCTACGATGGGGCGCTTGC	0.592																																																0													90	84	86					1																	38463363		2203	4300	6503	SO:0001819	synonymous_variant	2275			BC011697	CCDS30678.1	1p34.3	2008-02-05			ENSG00000183386	ENSG00000183386			3704	protein-coding gene	gene with protein product		602790				8753811, 10226657	Standard	NM_004468		Approved	SLIM2	uc001cck.3	Q13643	OTTHUMG00000004434	ENST00000373016.3:c.681C>A	1.37:g.38463363G>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DPT6|Q6I9T0|Q9BVA2	Silent	SNP	ENST00000373016.3	37	CCDS30678.1																																																																																				0.592	FHL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012958.1	NM_004468		T	38463363	G	T	38463363	2	4	688	1	0	0	0	0	0	0	0	1	5887	1335	47	4		4	FHL3	1	38463363	Silent	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	4838048	38463363	210787258	3	44593										
LPAR3	23566	broad.mit.edu	37	chr1	85331710	85331710	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cgtcccaacacacaaaacaaTcacaagctttgttcctgtcc	4	15	1	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr1:85331710T>G	ENST00000440886.1	-	1	132	c.94A>C	c.(94-96)Att>Ctt	p.I32L	LPAR3_ENST00000370611.3_Missense_Mutation_p.I32L|LPAR3_ENST00000491034.1_5'UTR			Q9UBY5	LPAR3_HUMAN	lysophosphatidic acid receptor 3	32					activation of MAPK activity (GO:0000187)|bleb assembly (GO:0032060)|G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|positive regulation of calcium ion transport (GO:0051928)|positive regulation of collateral sprouting (GO:0048672)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G-protein coupled signaling pathway (GO:0051482)|synaptic transmission (GO:0007268)	axon (GO:0030424)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|lipid binding (GO:0008289)|lysophosphatidic acid receptor activity (GO:0070915)|phospholipid binding (GO:0005543)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(11)|ovary(2)|urinary_tract(1)	24						CACAAAACAATCACAAGCTTT	0.383																																																0													114	122	119					1																	85331710		2203	4300	6503	SO:0001583	missense	23566			AF127138	CCDS700.1	1p22.3	2012-08-08	2008-04-11	2008-04-11	ENSG00000171517	ENSG00000171517		"GPCR / Class A : Lysophospholipid receptors : Lysophosphatidic acid"	14298	protein-coding gene	gene with protein product		605106	"endothelial differentiation, lysophosphatidic acid G-protein-coupled receptor, 7"	EDG7		10488122	Standard	NM_012152		Approved	LP-A3, Edg-7, RP4-678I3, HOFNH30, LPA3	uc009wcj.1	Q9UBY5	OTTHUMG00000009925	ENST00000440886.1:c.94A>C	1.37:g.85331710T>G	ENSP00000395389:p.Ile32Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVA3	Missense_Mutation	SNP	ENST00000440886.1	37	CCDS700.1	.	.	.	.	.	.	.	.	.	.	T	2.940	-0.219154	0.06101	.	.	ENSG00000171517	ENST00000440886;ENST00000370611	T;T	0.35236	1.32;1.32	5.58	5.58	0.84498	.	0.864598	0.08979	U	0.866129	T	0.09905	0.0243	N	0.21142	0.635	0.34287	D	0.682867	B	0.02656	0.0	B	0.04013	0.001	T	0.09729	-1.0661	10	0.07990	T	0.79	.	10.4572	0.44557	0.0:0.082:0.0:0.918	.	32	Q9UBY5	LPAR3_HUMAN	L	32	ENSP00000395389:I32L;ENSP00000359643:I32L	ENSP00000359643:I32L	I	-	1	0	LPAR3	85104298	0.867000	0.29959	0.964000	0.40570	0.801000	0.45260	2.523000	0.45580	2.118000	0.64928	0.383000	0.25322	ATT		0.383	LPAR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000027467.1	NM_012152		G	85331710	T	G	85331710	3	3	688	1	0	0	0	0	1	0	0	0	8913	1435	50	5	975	5	LPAR3	1	85331710	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10	46868347	85331710	163918911	4	44594										
CTTNBP2NL	55917	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	112999075	112999075	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cagagagttttccagcagaaAgaacccatgggagcaacata	10	9	0	3			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr1:112999075A>G	ENST00000271277.6	+	6	1186	c.961A>G	c.(961-963)Aga>Gga	p.R321G		NM_018704.2	NP_061174.1	Q9P2B4	CT2NL_HUMAN	CTTNBP2 N-terminal like	321					negative regulation of transmembrane transport (GO:0034763)|negative regulation of transporter activity (GO:0032410)|protein dephosphorylation (GO:0006470)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)	protein phosphatase 2A binding (GO:0051721)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(5)|lung(13)|ovary(1)|prostate(1)|stomach(1)|urinary_tract(1)	29		all_cancers(81;0.00064)|all_epithelial(167;0.000415)|all_lung(203;0.00045)|Lung NSC(69;0.000705)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCCAGCAGAAAGAACCCATGG	0.483																																																0													136	140	138					1																	112999075		2203	4300	6503	SO:0001583	missense	55917			AB037854	CCDS845.1	1p13.2	2008-02-05			ENSG00000143079	ENSG00000143079			25330	protein-coding gene	gene with protein product		615100				10718198	Standard	NM_018704		Approved	DKFZp547A023	uc001ebx.3	Q9P2B4	OTTHUMG00000011154	ENST00000271277.6:c.961A>G	1.37:g.112999075A>G	ENSP00000271277:p.Arg321Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KMS5|Q96B40	Missense_Mutation	SNP	ENST00000271277.6	37	CCDS845.1	.	.	.	.	.	.	.	.	.	.	A	2.835	-0.241767	0.05906	.	.	ENSG00000143079	ENST00000271277	T	0.22945	1.93	5.88	4.73	0.59995	.	0.247257	0.38778	N	0.001578	T	0.08714	0.0216	L	0.44542	1.39	0.09310	N	1	B	0.17038	0.02	B	0.14023	0.01	T	0.22208	-1.0223	10	0.22109	T	0.4	-12.5708	12.215	0.54402	0.8572:0.1428:0.0:0.0	.	321	Q9P2B4	CT2NL_HUMAN	G	321	ENSP00000271277:R321G	ENSP00000271277:R321G	R	+	1	2	CTTNBP2NL	112800598	0.600000	0.26899	0.921000	0.36526	0.055000	0.15305	1.467000	0.35321	1.017000	0.39495	0.533000	0.62120	AGA		0.483	CTTNBP2NL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030686.1	NM_018704		G	112999075	A	G	112999075	3	3	688	1	0	0	0	0	1	0	0	0	4048	64	3	3	975	3	CTTNBP2NL	1	112999075	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	27667365	112999075	136251546	5	44595										
ANKRD35	148741	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	145561841	145561841	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	gcgagaaaaggatgctgcccGgggggctttgtcaagaccgg	17	9	1	2	rs201815402		TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr1:145561841G>A	ENST00000355594.4	+	10	1616	c.1529G>A	c.(1528-1530)cGg>cAg	p.R510Q		NM_144698.3	NP_653299.4	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	510										NS(1)|biliary_tract(1)|central_nervous_system(1)|endometrium(7)|kidney(2)|large_intestine(9)|lung(16)|ovary(4)|prostate(3)|skin(2)|urinary_tract(1)	47	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GATGCTGCCCGGGGGGCTTTG	0.632																																					Melanoma(9;127 754 22988 51047)											0													87	104	98					1																	145561841		2201	4300	6501	SO:0001583	missense	148741			AK091120	CCDS72867.1, CCDS72868.1	1q21.1	2013-01-10			ENSG00000198483	ENSG00000198483		"Ankyrin repeat domain containing"	26323	protein-coding gene	gene with protein product							Standard	NM_144698		Approved	FLJ25124	uc001eob.1	Q8N283	OTTHUMG00000013743	ENST00000355594.4:c.1529G>A	1.37:g.145561841G>A	ENSP00000347802:p.Arg510Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEU0|B4DL62|Q3MJ10|Q96LS3	Missense_Mutation	SNP	ENST00000355594.4	37	CCDS919.1	.	.	.	.	.	.	.	.	.	.	g	13.79	2.341545	0.41498	.	.	ENSG00000198483	ENST00000453670;ENST00000355594	T	0.67865	-0.29	5.23	4.31	0.51392	.	0.342769	0.20873	N	0.084127	T	0.46756	0.1409	M	0.70595	2.14	0.80722	D	1	B	0.32324	0.364	B	0.24006	0.05	T	0.51364	-0.8715	10	0.34782	T	0.22	-6.7716	11.0303	0.47769	0.0:0.0:0.8146:0.1853	.	510	Q8N283	ANR35_HUMAN	Q	419;510	ENSP00000347802:R510Q	ENSP00000347802:R510Q	R	+	2	0	ANKRD35	144273198	0.749000	0.28305	0.965000	0.40720	0.652000	0.38707	1.901000	0.39838	1.405000	0.46838	0.651000	0.88453	CGG		0.632	ANKRD35-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000038515.1	NM_144698		A	145561841	G	A	145561841	3	1	688	1	0	0	0	0	1	0	0	0	664	1116	39	1	1567	1	ANKRD35	1	145561841	Missense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	32562766	145561841	103688780	6	44596										
PEAR1	375033	broad.mit.edu	37	chr1	156879832	156879832	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	agaaggttgtgccagtcgctGtgactgtgaccactctgatg	13	9	1	4			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr1:156879832G>A	ENST00000338302.3	+	14	1835	c.1610G>A	c.(1609-1611)tGt>tAt	p.C537Y	PEAR1_ENST00000292357.7_Missense_Mutation_p.C537Y			Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	537					recognition of apoptotic cell (GO:0043654)	integral component of membrane (GO:0016021)|phagocytic cup (GO:0001891)				breast(1)|central_nervous_system(2)|endometrium(4)|large_intestine(6)|lung(22)|ovary(4)|skin(3)|upper_aerodigestive_tract(1)	43	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GCCAGTCGCTGTGACTGTGAC	0.627																																																0													139	119	126					1																	156879832		2203	4300	6503	SO:0001583	missense	375033			AK098809	CCDS30892.1	1q23.1	2008-02-05	2007-10-25	2007-10-25	ENSG00000187800	ENSG00000187800			33631	protein-coding gene	gene with protein product		610278	"multiple EGF-like-domains 12"	MEGF12		15851471	Standard	NM_001080471		Approved	JEDI, FLJ00193	uc001fqj.1	Q5VY43	OTTHUMG00000041293	ENST00000338302.3:c.1610G>A	1.37:g.156879832G>A	ENSP00000344465:p.Cys537Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TEK2	Missense_Mutation	SNP	ENST00000338302.3	37	CCDS30892.1	.	.	.	.	.	.	.	.	.	.	G	20.9	4.073667	0.76415	.	.	ENSG00000187800	ENST00000338302;ENST00000292357	T;T	0.72835	-0.69;-0.69	4.71	4.71	0.59529	EGF-like, laminin (1);	0.000000	0.53938	D	0.000048	D	0.87410	0.6170	H	0.96301	3.8	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.90879	0.4752	10	0.72032	D	0.01	.	15.1995	0.73122	0.0:0.0:1.0:0.0	.	537	Q5VY43	PEAR1_HUMAN	Y	537	ENSP00000344465:C537Y;ENSP00000292357:C537Y	ENSP00000292357:C537Y	C	+	2	0	PEAR1	155146456	1.000000	0.71417	1.000000	0.80357	0.948000	0.59901	8.844000	0.92147	2.447000	0.82792	0.561000	0.74099	TGT		0.627	PEAR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098937.2	NM_001080471		A	156879832	G	A	156879832	3	1	688	1	0	0	0	0	1	0	0	0	11719	1377	48	2	1656	2	PEAR1	1	156879832	Missense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	11317991	156879832	92370789	7	44597										
DDR2	4921	broad.mit.edu	37	chr1	162688920	162688920	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	ctatcttgagttctgcaaaaGctcaggttaatccaggtaac	8	9	3	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr1:162688920G>C	ENST00000367922.3	+	4	505	c.67G>C	c.(67-69)Gct>Cct	p.A23P	DDR2_ENST00000367921.3_Missense_Mutation_p.A23P	NM_001014796.1	NP_001014796.1	Q16832	DDR2_HUMAN	discoidin domain receptor tyrosine kinase 2	23					biomineral tissue development (GO:0031214)|cell adhesion (GO:0007155)|chondrocyte proliferation (GO:0035988)|collagen fibril organization (GO:0030199)|collagen-activated tyrosine kinase receptor signaling pathway (GO:0038063)|endochondral bone growth (GO:0003416)|extracellular matrix organization (GO:0030198)|ossification (GO:0001503)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of extracellular matrix disassembly (GO:0090091)|positive regulation of fibroblast migration (GO:0010763)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|protein autophosphorylation (GO:0046777)|regulation of bone mineralization (GO:0030500)|regulation of extracellular matrix disassembly (GO:0010715)|signal transduction (GO:0007165)	apical plasma membrane (GO:0016324)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|collagen binding (GO:0005518)|protein tyrosine kinase collagen receptor activity (GO:0038062)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			central_nervous_system(2)|kidney(1)|lung(2)|ovary(1)|skin(1)	7	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)		Regorafenib(DB08896)	TTCTGCAAAAGCTCAGGTTAA	0.453																																					NSCLC(161;314 2006 8283 19651 23192)											0													176	152	160					1																	162688920		2203	4300	6503	SO:0001583	missense	4921			AK095975	CCDS1241.1	1q12-q23	2009-07-10	2008-01-23		ENSG00000162733	ENSG00000162733	2.7.10.1		2731	protein-coding gene	gene with protein product		191311	"discoidin domain receptor family, member 2"	TYRO10, NTRKR3		9659899	Standard	XM_005245221		Approved	TKT	uc001gcg.3	Q16832	OTTHUMG00000034423	ENST00000367922.3:c.67G>C	1.37:g.162688920G>C	ENSP00000356899:p.Ala23Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z730	Missense_Mutation	SNP	ENST00000367922.3	37	CCDS1241.1	.	.	.	.	.	.	.	.	.	.	G	13.03	2.115339	0.37339	.	.	ENSG00000162733	ENST00000446985;ENST00000415555;ENST00000542391;ENST00000367922;ENST00000367921	D;D;D;D	0.97976	-4.37;-4.64;-1.84;-1.84	4.25	4.25	0.50352	.	0.636214	0.14742	N	0.301137	D	0.91379	0.7280	N	0.21448	0.665	0.34326	D	0.687194	B	0.06786	0.001	B	0.13407	0.009	D	0.87367	0.2348	9	0.41790	T	0.15	.	12.3368	0.55071	0.0:0.0:1.0:0.0	.	23	Q16832	DDR2_HUMAN	P	23	ENSP00000400309:A23P;ENSP00000391310:A23P;ENSP00000356899:A23P;ENSP00000356898:A23P	ENSP00000356898:A23P	A	+	1	0	DDR2	160955544	1.000000	0.71417	1.000000	0.80357	0.976000	0.68499	4.311000	0.59147	2.364000	0.80123	0.467000	0.42956	GCT		0.453	DDR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083213.2	NM_006182		C	162688920	G	C	162688920	3	2	688	1	0	0	0	0	1	0	0	0	4339	971	34	4	69	4	DDR2	1	162688920	Missense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	5809088	162688920	86561701	8	44598										
ILDR2	387597	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	166890003	166890003	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	gttgctgtggtagggcaggtCgcggccgcggtaggacgggc	21	9	0	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr1:166890003C>T	ENST00000271417.3	-	9	1880	c.1825G>A	c.(1825-1827)Gac>Aac	p.D609N	ILDR2_ENST00000529071.1_Missense_Mutation_p.D590N|ILDR2_ENST00000469934.2_Intron|ILDR2_ENST00000526687.1_Missense_Mutation_p.D501N|ILDR2_ENST00000525740.1_Missense_Mutation_p.D482N|ILDR2_ENST00000528703.1_Missense_Mutation_p.D550N|ILDR2_ENST00000529387.1_Intron	NM_199351.2	NP_955383.1	Q71H61	ILDR2_HUMAN	immunoglobulin-like domain containing receptor 2	609					cell differentiation (GO:0030154)|homeostasis of number of cells within a tissue (GO:0048873)|insulin secretion (GO:0030073)|pancreas development (GO:0031016)|response to glucose (GO:0009749)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)				NS(3)|breast(1)|kidney(2)|large_intestine(2)|lung(9)|ovary(1)|skin(2)|upper_aerodigestive_tract(2)	22						TAGGGCAGGTCGCGGCCGCGG	0.687																																																0													6	9	8					1																	166890003		2076	4108	6184	SO:0001583	missense	387597			AF503509	CCDS1256.1	1q24.1	2008-12-18	2008-12-18	2008-12-18	ENSG00000143195	ENSG00000143195			18131	protein-coding gene	gene with protein product	"LISCH-like"		"chromosome 1 open reading frame 32"	C1orf32			Standard	NM_199351		Approved		uc001gdx.2	Q71H61	OTTHUMG00000034320	ENST00000271417.3:c.1825G>A	1.37:g.166890003C>T	ENSP00000271417:p.Asp609Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000271417.3	37	CCDS1256.1	.	.	.	.	.	.	.	.	.	.	C	20.9	4.069172	0.76301	.	.	ENSG00000143195	ENST00000271417;ENST00000525740;ENST00000529071;ENST00000526687;ENST00000528703	T;T;T;T;T	0.77750	0.5;-1.12;0.5;-1.12;-0.12	4.76	4.76	0.60689	.	3.853080	0.00892	N	0.002254	T	0.64638	0.2616	L	0.56769	1.78	0.35061	D	0.761595	P	0.49358	0.923	B	0.36030	0.216	T	0.57464	-0.7807	9	0.62326	D	0.03	.	12.8493	0.57848	0.1631:0.8369:0.0:0.0	.	609	Q71H61	ILDR2_HUMAN	N	609;482;590;501;550	ENSP00000271417:D609N;ENSP00000436120:D482N;ENSP00000436882:D590N;ENSP00000434273:D501N;ENSP00000432750:D550N	ENSP00000271417:D609N	D	-	1	0	ILDR2	165156627	1.000000	0.71417	0.997000	0.53966	0.735000	0.41995	4.789000	0.62446	2.171000	0.68590	0.561000	0.74099	GAC		0.687	ILDR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000082880.2	NM_199351		T	166890003	C	T	166890003	3	4	688	1	0	0	0	0	1	0	0	0	7717	884	31	1	102	1	ILDR2	1	166890003	Missense_Mutation	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	4201083	166890003	82360618	9	44599										
TPR	7175	hgsc.bcm.edu;broad.mit.edu	37	chr1	186316562	186316562	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cttagctgactcacaagatcAtccacatcttctttgttgct	5	12	4	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr1:186316562A>G	ENST00000367478.4	-	22	3101	c.2805T>C	c.(2803-2805)gaT>gaC	p.D935D		NM_003292.2	NP_003283.2	P12270	TPR_HUMAN	translocated promoter region, nuclear basket protein	935					carbohydrate metabolic process (GO:0005975)|cellular response to heat (GO:0034605)|cellular response to interferon-alpha (GO:0035457)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|MAPK import into nucleus (GO:0000189)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic nuclear envelope disassembly (GO:0007077)|mitotic spindle assembly checkpoint (GO:0007094)|mRNA export from nucleus in response to heat stress (GO:0031990)|negative regulation of RNA export from nucleus (GO:0046832)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of translational initiation (GO:0045947)|nuclear pore organization (GO:0006999)|positive regulation of heterochromatin assembly (GO:0031453)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of mitotic cell cycle spindle assembly checkpoint (GO:0090267)|positive regulation of protein export from nucleus (GO:0046827)|positive regulation of protein import into nucleus (GO:0042307)|protein import into nucleus (GO:0006606)|regulation of glucose transport (GO:0010827)|regulation of mitotic sister chromatid separation (GO:0010965)|regulation of spindle assembly involved in mitosis (GO:1901673)|response to epidermal growth factor (GO:0070849)|RNA export from nucleus (GO:0006405)|RNA import into nucleus (GO:0006404)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytoplasmic dynein complex (GO:0005868)|extrinsic component of membrane (GO:0019898)|kinetochore (GO:0000776)|mitotic spindle (GO:0072686)|nuclear envelope (GO:0005635)|nuclear inclusion body (GO:0042405)|nuclear membrane (GO:0031965)|nuclear periphery (GO:0034399)|nuclear pore (GO:0005643)|nuclear pore nuclear basket (GO:0044615)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|dynein complex binding (GO:0070840)|heat shock protein binding (GO:0031072)|mitogen-activated protein kinase binding (GO:0051019)|mRNA binding (GO:0003729)|nucleocytoplasmic transporter activity (GO:0005487)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)|tubulin binding (GO:0015631)			autonomic_ganglia(1)|breast(5)|central_nervous_system(4)|cervix(2)|endometrium(9)|kidney(12)|large_intestine(23)|liver(1)|lung(45)|ovary(2)|pancreas(1)|prostate(6)|skin(3)|stomach(1)|urinary_tract(8)	123		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)		TCACAAGATCATCCACATCTT	0.368			T	NTRK1	papillary thyroid																																		Dom	yes		1	1q25	7175	translocated promoter region		E	0													213	200	204					1																	186316562		1964	4159	6123	SO:0001819	synonymous_variant	7175			U69668	CCDS41446.1	1q25	2012-03-13	2012-03-13		ENSG00000047410	ENSG00000047410			12017	protein-coding gene	gene with protein product		189940	"translocated promoter region (to activated MET oncogene)"			1611909, 15229283	Standard	NM_003292		Approved		uc001grv.3	P12270	OTTHUMG00000035580	ENST00000367478.4:c.2805T>C	1.37:g.186316562A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q15655|Q5SWY0|Q99968	Silent	SNP	ENST00000367478.4	37	CCDS41446.1																																																																																				0.368	TPR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000086353.2	NM_003292		G	186316562	A	G	186316562	2	3	688	1	0	0	0	0	0	0	0	1	16428	214	8	3		3	TPR	1	186316562	Silent	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	19426559	186316562	62934059	10	44600										
ASPM	259266	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	197072290	197072290	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	tctcactttcataccacgatAagctgactgtaaagttacta	5	10	2	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr1:197072290A>G	ENST00000367409.4	-	18	6347	c.6091T>C	c.(6091-6093)Tat>Cat	p.Y2031H	ASPM_ENST00000367408.1_Intron|ASPM_ENST00000294732.7_Intron	NM_018136.4	NP_060606.3	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle) homolog, microcephaly associated (Drosophila)	2031	IQ 14. {ECO:0000255|PROSITE- ProRule:PRU00116}.				developmental growth (GO:0048589)|forebrain neuroblast division (GO:0021873)|maintenance of centrosome location (GO:0051661)|mitotic nuclear division (GO:0007067)|negative regulation of asymmetric cell division (GO:0045769)|negative regulation of neuron differentiation (GO:0045665)|neuron migration (GO:0001764)|oogenesis (GO:0048477)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of neuroblast proliferation (GO:0002052)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|midbody (GO:0030496)|nucleus (GO:0005634)|spindle pole (GO:0000922)				breast(6)|central_nervous_system(2)|cervix(2)|endometrium(10)|kidney(9)|large_intestine(28)|liver(1)|lung(87)|ovary(5)|pancreas(2)|prostate(6)|skin(4)|urinary_tract(3)	165						ATACCACGATAAGCTGACTGT	0.328																																																0													94	99	97					1																	197072290		2203	4298	6501	SO:0001583	missense	259266			AY367065	CCDS1389.1, CCDS55672.1	1q31	2008-02-05	2006-09-12		ENSG00000066279	ENSG00000066279			19048	protein-coding gene	gene with protein product		605481	"microcephaly, primary autosomal recessive 5", "asp (abnormal spindle)-like, microcephaly associated (Drosophila)"	MCPH5		11078481	Standard	NM_018136		Approved	Calmbp1, ASP, FLJ10517, FLJ10549	uc001gtu.3	Q8IZT6	OTTHUMG00000036277	ENST00000367409.4:c.6091T>C	1.37:g.197072290A>G	ENSP00000356379:p.Tyr2031His	Somatic		WXS	Illumina HiSeq	Phase_I	Q4G1H1|Q5VYL3|Q86UX4|Q8IUL2|Q8IZJ7|Q8IZJ8|Q8IZJ9|Q8N4D1|Q9NVS1|Q9NVT6	Missense_Mutation	SNP	ENST00000367409.4	37	CCDS1389.1	.	.	.	.	.	.	.	.	.	.	a	19.52	3.842459	0.71488	.	.	ENSG00000066279	ENST00000367409	T	0.27557	1.66	5.6	4.46	0.54185	.	0.174809	0.40302	N	0.001123	T	0.59959	0.2232	M	0.90650	3.135	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.63541	-0.6614	10	0.41790	T	0.15	.	11.3347	0.49496	0.8639:0.0:0.0:0.1361	.	2031	Q8IZT6	ASPM_HUMAN	H	2031	ENSP00000356379:Y2031H	ENSP00000356379:Y2031H	Y	-	1	0	ASPM	195338913	1.000000	0.71417	0.632000	0.29296	0.972000	0.66771	7.212000	0.77941	0.930000	0.37217	0.524000	0.50904	TAT		0.328	ASPM-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000088256.1	NM_018136		G	197072290	A	G	197072290	3	3	688	1	0	0	0	0	1	0	0	0	1056	362	13	3	4386	3	ASPM	1	197072290	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	10755728	197072290	52178331	11	44601										
CR1L	1379	broad.mit.edu	37	chr1	207890832	207890832	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	tcttttgtccaaatcctccaGctatccttaatgggagacac	6	12	1	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr1:207890832G>T	ENST00000508064.2	+	11	1498	c.1438G>T	c.(1438-1440)Gct>Tct	p.A480S		NM_175710.1	NP_783641.1	Q2VPA4	CR1L_HUMAN	complement component (3b/4b) receptor 1-like	480	Sushi 8. {ECO:0000255|PROSITE- ProRule:PRU00302}.					cytoplasm (GO:0005737)|extracellular region (GO:0005576)|membrane (GO:0016020)|receptor complex (GO:0043235)				endometrium(1)|kidney(1)|large_intestine(2)|lung(15)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	22						AAATCCTCCAGCTATCCTTAA	0.413																																																0													94	87	89					1																	207890832		1819	4074	5893	SO:0001583	missense	1379			AY114160	CCDS44310.1	1q32.1	2008-02-05			ENSG00000197721	ENSG00000197721		"Complement system"	2335	protein-coding gene	gene with protein product		605886				2295627	Standard	NM_175710		Approved		uc001hga.4	Q2VPA4	OTTHUMG00000036354	ENST00000508064.2:c.1438G>T	1.37:g.207890832G>T	ENSP00000421736:p.Ala480Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q32MC9|Q8NEU7	Missense_Mutation	SNP	ENST00000508064.2	37	CCDS44310.1	.	.	.	.	.	.	.	.	.	.	.	1.011	-0.687807	0.03328	.	.	ENSG00000197721	ENST00000508064	T	0.62941	-0.01	2.9	-5.8	0.02347	Complement control module (2);Sushi/SCR/CCP (3);	.	.	.	.	T	0.33294	0.0858	N	0.16862	0.45	0.09310	N	1	B	0.21071	0.051	B	0.28305	0.088	T	0.33777	-0.9855	9	0.10636	T	0.68	.	0.2712	0.00232	0.3235:0.2626:0.1505:0.2635	.	480	Q2VPA4	CR1L_HUMAN	S	480	ENSP00000421736:A480S	ENSP00000421736:A480S	A	+	1	0	CR1L	205957455	0.000000	0.05858	0.000000	0.03702	0.336000	0.28762	-0.640000	0.05440	-2.312000	0.00648	0.305000	0.20034	GCT		0.413	CR1L-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390247.1	XM_114735		T	207890832	G	T	207890832	3	4	688	1	0	0	0	0	1	0	0	0	3843	971	34	4	1480	4	CR1L	1	207890832	Missense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	10818542	207890832	41359789	12	44602										
IFT172	26160	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	27702392	27702392	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	ttacctggctaggtcccacaTacgtcaactcaaacttgttc	6	13	2	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr2:27702392T>A	ENST00000260570.3	-	10	1092	c.989A>T	c.(988-990)tAt>tTt	p.Y330F	IFT172_ENST00000359466.6_Missense_Mutation_p.Y330F|IFT172_ENST00000416524.2_Missense_Mutation_p.Y309F	NM_015662.1	NP_056477.1	Q9UG01	IF172_HUMAN	intraflagellar transport 172	330					bone development (GO:0060348)|brain development (GO:0007420)|cilium assembly (GO:0042384)|cytoplasmic microtubule organization (GO:0031122)|dorsal/ventral pattern formation (GO:0009953)|epidermis development (GO:0008544)|heart looping (GO:0001947)|hindgut development (GO:0061525)|left/right axis specification (GO:0070986)|limb development (GO:0060173)|negative regulation of epithelial cell proliferation (GO:0050680)|neural tube closure (GO:0001843)|Notch signaling pathway (GO:0007219)|palate development (GO:0060021)|positive regulation of smoothened signaling pathway (GO:0045880)|protein processing (GO:0016485)|smoothened signaling pathway (GO:0007224)|spinal cord motor neuron differentiation (GO:0021522)	axoneme (GO:0005930)|ciliary basal body (GO:0036064)|cilium (GO:0005929)|intraciliary transport particle B (GO:0030992)|sperm midpiece (GO:0097225)|sperm principal piece (GO:0097228)|vesicle (GO:0031982)				central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(17)|lung(17)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	43	Acute lymphoblastic leukemia(172;0.155)					AGGTCCCACATACGTCAACTC	0.507																																																0													164	142	150					2																	27702392		2203	4300	6503	SO:0001583	missense	26160			AB033005	CCDS1755.1	2p23.3	2014-07-03	2014-07-03		ENSG00000138002	ENSG00000138002		"Intraflagellar transport homologs", "WD repeat domain containing"	30391	protein-coding gene	gene with protein product	"wimple homolog"	607386	"intraflagellar transport 172 homolog (Chlamydomonas)"			10788441, 10574461, 24140113	Standard	XM_005264254		Approved	SLB, wim, osm-1, NPHP17	uc002rku.3	Q9UG01	OTTHUMG00000128425	ENST00000260570.3:c.989A>T	2.37:g.27702392T>A	ENSP00000260570:p.Tyr330Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKZ0|B2RNU5|Q86X44|Q96HW4|Q9UFJ9|Q9ULP1	Missense_Mutation	SNP	ENST00000260570.3	37	CCDS1755.1	.	.	.	.	.	.	.	.	.	.	T	18.09	3.547345	0.65311	.	.	ENSG00000138002	ENST00000260570;ENST00000359466;ENST00000416524	T;T;T	0.23147	1.92;1.92;1.92	5.64	5.64	0.86602	WD40 repeat-like-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.30230	0.0758	M	0.64404	1.975	0.80722	D	1	B;P;B;B	0.35821	0.394;0.523;0.394;0.322	B;B;B;B	0.38378	0.228;0.272;0.144;0.2	T	0.04320	-1.0960	10	0.25106	T	0.35	-9.0488	14.6686	0.68926	0.0:0.0:0.0:1.0	.	330;330;330;330	A5PKZ0;Q9UG01-2;E7EP25;Q9UG01	.;.;.;IF172_HUMAN	F	330;330;309	ENSP00000260570:Y330F;ENSP00000352443:Y330F;ENSP00000407408:Y309F	ENSP00000260570:Y330F	Y	-	2	0	IFT172	27555896	1.000000	0.71417	0.988000	0.46212	0.937000	0.57800	7.558000	0.82253	2.138000	0.66242	0.533000	0.62120	TAT		0.507	IFT172-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250213.2	NM_015662		A	27702392	T	A	27702392	3	1	688	1	0	0	0	0	1	0	0	0	7564	1406	49	5	4416	5	IFT172	2	27702392	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10		27702392	215496981	13	44603										
TCF7L1	83439	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	85361150	85361150	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cctccgcaggcggagaggcgCccgcagcccgtccgggacac	15	18	0	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr2:85361150C>G	ENST00000282111.3	+	2	536	c.261C>G	c.(259-261)cgC>cgG	p.R87R		NM_031283.2	NP_112573.1	Q9HCS4	TF7L1_HUMAN	transcription factor 7-like 1 (T-cell specific, HMG-box)	87					anterior/posterior axis specification, embryo (GO:0008595)|axial mesoderm morphogenesis (GO:0048319)|brain development (GO:0007420)|canonical Wnt signaling pathway (GO:0060070)|chromatin organization (GO:0006325)|generation of neurons (GO:0048699)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription from RNA polymerase II promoter during mitosis (GO:0046022)|regulation of stem cell maintenance (GO:2000036)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|regulation of Wnt signaling pathway (GO:0030111)|skin development (GO:0043588)|somatic stem cell maintenance (GO:0035019)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|transcription factor complex (GO:0005667)	beta-catenin binding (GO:0008013)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(3)|skin(4)|upper_aerodigestive_tract(1)	18						CGGAGAGGCGCCCGCAGCCCG	0.697																																																0													19	25	23					2																	85361150		2200	4299	6499	SO:0001819	synonymous_variant	83439			X62870	CCDS1971.1	2p11.2	2008-02-05			ENSG00000152284	ENSG00000152284			11640	protein-coding gene	gene with protein product		604652		TCF3		1741298, 11085512	Standard	NM_031283		Approved		uc002soy.3	Q9HCS4	OTTHUMG00000130026	ENST00000282111.3:c.261C>G	2.37:g.85361150C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q53R97|Q6PD70|Q9NP00	Silent	SNP	ENST00000282111.3	37	CCDS1971.1																																																																																				0.697	TCF7L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252301.2	NM_031283		G	85361150	C	G	85361150	2	3	688	1	0	0	0	0	0	0	0	1	15709	726	26	4		4	TCF7L1	2	85361150	Silent	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	57658758	85361150	157838223	14	44604										
RNF103	7844	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	86832185	86832185	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	atggcatattatatatgccaAtatctgtcatataactcttg	5	7	3	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr2:86832185A>G	ENST00000237455.4	-	4	1807	c.839T>C	c.(838-840)aTt>aCt	p.I280T	AC015971.2_ENST00000597638.1_RNA|AC015971.2_ENST00000424788.1_RNA|AC015971.2_ENST00000426549.1_RNA|AC015971.2_ENST00000439077.1_RNA|RNF103_ENST00000477307.1_5'UTR|CHMP3_ENST00000439940.2_Intron|RNF103-CHMP3_ENST00000604011.1_Intron	NM_001198951.1|NM_005667.3	NP_001185880.1|NP_005658.1	O00237	RN103_HUMAN	ring finger protein 103	280					central nervous system development (GO:0007417)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|protein ubiquitination (GO:0016567)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(7)|lung(7)|skin(2)	25						ATATATGCCAATATCTGTCAT	0.353																																																0													45	48	47					2																	86832185		2203	4300	6503	SO:0001583	missense	7844			D76444	CCDS33237.1	2p11.2	2013-01-09	2003-05-14	2003-05-16	ENSG00000239305	ENSG00000239305		"RING-type (C3HC4) zinc fingers"	12859	protein-coding gene	gene with protein product		602507	"zinc finger protein 103 homolog (mouse)"	ZFP103		9070305	Standard	NM_005667		Approved	hkf-1, KF1	uc021vkg.1	O00237	OTTHUMG00000153197	ENST00000237455.4:c.839T>C	2.37:g.86832185A>G	ENSP00000237455:p.Ile280Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFV6|B2RAG4|Q53SU6|Q8IVB9	Missense_Mutation	SNP	ENST00000237455.4	37	CCDS33237.1	.	.	.	.	.	.	.	.	.	.	A	11.95	1.790231	0.31685	.	.	ENSG00000239305	ENST00000237455	T	0.48522	0.81	5.1	5.1	0.69264	.	0.052243	0.85682	D	0.000000	T	0.43033	0.1229	L	0.51422	1.61	0.53688	D	0.999973	B	0.20052	0.041	B	0.16289	0.015	T	0.28073	-1.0055	10	0.30078	T	0.28	-13.0155	14.881	0.70534	1.0:0.0:0.0:0.0	.	280	O00237	RN103_HUMAN	T	280	ENSP00000237455:I280T	ENSP00000237455:I280T	I	-	2	0	RNF103	86685696	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	8.953000	0.93041	1.937000	0.56155	0.377000	0.23210	ATT		0.353	RNF103-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000330041.2	NM_005667		G	86832185	A	G	86832185	3	3	688	1	0	0	0	0	1	0	0	0	13436	101	4	3	1222	3	RNF103	2	86832185	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	1471035	86832185	156367188	15	44605										
MALL	7851	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	110873286	110873286	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	agctcgggcaggaagaaggcGaaagggatggtgaggaacag	19	5	0	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr2:110873286G>A	ENST00000272462.2	-	1	857	c.84C>T	c.(82-84)ttC>ttT	p.F28F	MALL_ENST00000427178.1_Silent_p.F28F	NM_005434.4	NP_005425.1	Q13021	MALL_HUMAN	mal, T-cell differentiation protein-like	28	MARVEL. {ECO:0000255|PROSITE- ProRule:PRU00581}.				cholesterol homeostasis (GO:0042632)	clathrin-coated vesicle (GO:0030136)|cytoplasmic membrane-bounded vesicle (GO:0016023)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)				kidney(1)|large_intestine(3)|lung(1)|ovary(1)|skin(1)|stomach(1)|urinary_tract(1)	9				Epithelial(1;0.0546)|STAD - Stomach adenocarcinoma(1;0.18)		GGAAGAAGGCGAAAGGGATGG	0.726																																																0													21	22	21					2																	110873286		2184	4286	6470	SO:0001819	synonymous_variant	7851			U17077	CCDS2085.1	2q13	2008-02-05			ENSG00000144063	ENSG00000144063			6818	protein-coding gene	gene with protein product		602022				9326933	Standard	NM_005434		Approved	BENE	uc002tfk.3	Q13021	OTTHUMG00000131196	ENST00000272462.2:c.84C>T	2.37:g.110873286G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KWR6|Q9BTU0	Silent	SNP	ENST00000272462.2	37	CCDS2085.1																																																																																				0.726	MALL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253921.1	NM_005434		A	110873286	G	A	110873286	2	1	688	1	0	0	0	0	0	0	0	1	9208	1049	37	1		1	MALL	2	110873286	Silent	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	24041101	110873286	132326087	16	44606										
SLC20A1	6574	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	113418053	113418053	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	aacaccaatatggcttctacTctatggtggtgttggtatct	9	8	3	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr2:113418053T>C	ENST00000272542.3	+	9	2236	c.1697T>C	c.(1696-1698)cTc>cCc	p.L566P		NM_005415.4	NP_005406.3	Q8WUM9	S20A1_HUMAN	solute carrier family 20 (phosphate transporter), member 1	566					ion transport (GO:0006811)|phosphate ion transmembrane transport (GO:0035435)|phosphate-containing compound metabolic process (GO:0006796)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|signal transduction (GO:0007165)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	high-affinity inorganic phosphate:sodium symporter activity (GO:0005316)|inorganic phosphate transmembrane transporter activity (GO:0005315)|receptor activity (GO:0004872)|signal transducer activity (GO:0004871)|sodium:phosphate symporter activity (GO:0005436)			breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|liver(2)|lung(8)|ovary(3)|skin(1)|urinary_tract(3)	28						TGGCTTCTACTCTATGGTGGT	0.458																																																0													180	174	176					2																	113418053		2203	4300	6503	SO:0001583	missense	6574				CCDS2099.1	2q13	2013-05-22			ENSG00000144136	ENSG00000144136		"Solute carriers"	10946	protein-coding gene	gene with protein product	"gibbon ape leukemia virus receptor 1"	137570		GLVR1		8041748	Standard	NM_005415		Approved	PiT-1, Glvr-1	uc002tib.3	Q8WUM9	OTTHUMG00000131317	ENST00000272542.3:c.1697T>C	2.37:g.113418053T>C	ENSP00000272542:p.Leu566Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q08344|Q6DHX8|Q9UQ82	Missense_Mutation	SNP	ENST00000272542.3	37	CCDS2099.1	.	.	.	.	.	.	.	.	.	.	T	24.8	4.570460	0.86542	.	.	ENSG00000144136	ENST00000272542	D	0.91996	-2.95	5.81	5.81	0.92471	.	0.062816	0.64402	D	0.000004	D	0.95191	0.8441	M	0.68593	2.085	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.79108	0.992;0.992	D	0.95405	0.8493	10	0.66056	D	0.02	-33.1091	14.1127	0.65132	0.0:0.0:0.0:1.0	.	566;566	A7LNJ1;Q8WUM9	.;S20A1_HUMAN	P	566	ENSP00000272542:L566P	ENSP00000272542:L566P	L	+	2	0	SLC20A1	113134524	1.000000	0.71417	0.926000	0.36857	0.997000	0.91878	8.040000	0.89188	2.226000	0.72624	0.482000	0.46254	CTC		0.458	SLC20A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254086.2	NM_005415		C	113418053	T	C	113418053	3	2	688	1	0	0	0	0	1	0	0	0	14451	1551	54	3	1727	3	SLC20A1	2	113418053	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10	2544767	113418053	129781320	17	44607										
INHBB	3625	hgsc.bcm.edu	37	chr2	121106693	121106693	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	agatggcctcgcctcctcccGggtccgcctatacttcttca	8	17	2	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr2:121106693G>A	ENST00000295228.3	+	2	513	c.467G>A	c.(466-468)cGg>cAg	p.R156Q		NM_002193.2	NP_002184.2	P09529	INHBB_HUMAN	inhibin, beta B	156					activin receptor signaling pathway (GO:0032924)|cell differentiation (GO:0030154)|cellular response to insulin stimulus (GO:0032869)|cellular response to leptin stimulus (GO:0044320)|cellular response to starvation (GO:0009267)|defense response (GO:0006952)|fat cell differentiation (GO:0045444)|growth (GO:0040007)|negative regulation of follicle-stimulating hormone secretion (GO:0046882)|negative regulation of hepatocyte growth factor biosynthetic process (GO:0048178)|negative regulation of insulin secretion (GO:0046676)|oocyte development (GO:0048599)|ovarian follicle development (GO:0001541)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of follicle-stimulating hormone secretion (GO:0046881)|positive regulation of ovulation (GO:0060279)|response to mechanical stimulus (GO:0009612)	extracellular region (GO:0005576)|perinuclear region of cytoplasm (GO:0048471)	cytokine activity (GO:0005125)|hormone activity (GO:0005179)|host cell surface receptor binding (GO:0046789)|protein homodimerization activity (GO:0042803)	p.R156Q(1)		NS(1)|breast(1)|endometrium(2)|large_intestine(3)|lung(4)|pancreas(2)|skin(2)	15		Prostate(154;0.122)				GCCTCCTCCCGGGTCCGCCTA	0.557																																																1	Substitution - Missense(1)	large_intestine(1)											53	58	56					2																	121106693		2203	4300	6503	SO:0001583	missense	3625				CCDS2132.1	2q14.2	2014-01-30	2007-07-30		ENSG00000163083	ENSG00000163083		"Endogenous ligands"	6067	protein-coding gene	gene with protein product		147390	"inhibin, beta B (activin AB beta polypeptide)"			3345731	Standard	NM_002193		Approved		uc002tmn.2	P09529	OTTHUMG00000131437	ENST00000295228.3:c.467G>A	2.37:g.121106693G>A	ENSP00000295228:p.Arg156Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q53T31|Q8N1D3	Missense_Mutation	SNP	ENST00000295228.3	37	CCDS2132.1	.	.	.	.	.	.	.	.	.	.	G	10.96	1.497539	0.26861	.	.	ENSG00000163083	ENST00000295228	T	0.66995	-0.24	5.09	5.09	0.68999	Transforming growth factor-beta, N-terminal (1);	0.555848	0.17053	N	0.188863	T	0.53850	0.1822	L	0.31664	0.95	0.33909	D	0.639429	B	0.24823	0.112	B	0.26094	0.066	T	0.59316	-0.7477	10	0.30854	T	0.27	-3.725	11.2497	0.49017	0.0848:0.0:0.9151:0.0	.	156	P09529	INHBB_HUMAN	Q	156	ENSP00000295228:R156Q	ENSP00000295228:R156Q	R	+	2	0	INHBB	120823163	1.000000	0.71417	1.000000	0.80357	0.932000	0.56968	5.966000	0.70395	2.804000	0.96469	0.655000	0.94253	CGG		0.557	INHBB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254234.1			A	121106693	G	A	121106693	3	1	688	1	0	0	0	0	1	0	0	0	7749	1116	39	1	473	1	INHBB	2	121106693	Missense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	7688640	121106693	122092680	18	44608										
ANKRD44	91526	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	197878244	197878244	+	Frame_Shift_Del	DEL	G	G	-													0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	acaagacctacctgaggcatGaagtggggttcttttggtta							TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr2:197878244delG	ENST00000328737.2	-	18	1916	c.1840delC	c.(1840-1842)catfs	p.H614fs	ANKRD44_ENST00000337207.5_Frame_Shift_Del_p.H614fs|ANKRD44_ENST00000282272.8_Frame_Shift_Del_p.H631fs|ANKRD44_ENST00000450567.1_Frame_Shift_Del_p.H614fs			Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	639										NS(1)|endometrium(3)|kidney(2)|large_intestine(9)|lung(20)|ovary(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	45			OV - Ovarian serous cystadenocarcinoma(117;0.246)			CCTGAGGCATGAAGTGGGGTT	0.443																																																0													168	160	163					2																	197878244		2203	4300	6503	SO:0001589	frameshift_variant	91526			AK097086	CCDS33355.1, CCDS33355.2, CCDS74619.1	2q33.1	2013-01-10			ENSG00000065413	ENSG00000065413		"Serine/threonine phosphatases / Protein phosphatase 6, regulatory subunits", "Ankyrin repeat domain containing"	25259	protein-coding gene	gene with protein product	"protein phosphatase 6 ankyrin repeat subunit B"						Standard	NM_153697		Approved	PP6-ARS-B	uc021vuj.1	Q8N8A2	OTTHUMG00000154411	ENST00000328737.2:c.1840delC	2.37:g.197878244delG	ENSP00000331516:p.His614fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q53SL9|Q6P480|Q86VL5|Q8IZ72|Q9UFA4	Frame_Shift_Del	DEL	ENST00000328737.2	37																																																																																					0.443	ANKRD44-002	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000335113.1	NM_153697		-	197878244	G	-	197878244	7	5	688	1	0	1	0	1	0	0	0	0	672	1290	45	0	955	0	ANKRD44	2	197878244	Frame_Shift_Del	DEL	G	TCGA-KV-A6GD-01A-11D-A31X-10	76771551	197878244	45321129	19	44609										
EEF1B2	1933	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	207027278	207027278	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cttgggatgatgagacagatAtggcgaaattagaggagtgc	15	4	0	4			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr2:207027278A>T	ENST00000392222.2	+	5	838	c.463A>T	c.(463-465)Atg>Ttg	p.M155L	EEF1B2_ENST00000392221.1_Missense_Mutation_p.M155L|NDUFS1_ENST00000233190.6_5'Flank|SNORD51_ENST00000384320.2_RNA|EEF1B2_ENST00000236957.5_Missense_Mutation_p.M155L|SNORA41_ENST00000384675.1_RNA	NM_001959.3	NP_001950.1	P24534	EF1B_HUMAN	eukaryotic translation elongation factor 1 beta 2	155					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|translation (GO:0006412)|translational elongation (GO:0006414)	cytosol (GO:0005829)|eukaryotic translation elongation factor 1 complex (GO:0005853)	translation elongation factor activity (GO:0003746)			breast(1)|endometrium(5)|kidney(3)|large_intestine(1)|lung(6)	16						TGAGACAGATATGGCGAAATT	0.388																																																0													125	132	129					2																	207027278		2203	4300	6503	SO:0001583	missense	1933			X60489	CCDS2367.1	2q33.3	2011-04-28			ENSG00000114942	ENSG00000114942			3208	protein-coding gene	gene with protein product		600655				8250921	Standard	NM_001959		Approved		uc002vbf.1	P24534	OTTHUMG00000132891	ENST00000392222.2:c.463A>T	2.37:g.207027278A>T	ENSP00000376056:p.Met155Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K795|Q6IBH9	Missense_Mutation	SNP	ENST00000392222.2	37	CCDS2367.1	.	.	.	.	.	.	.	.	.	.	A	15.97	2.990128	0.54041	.	.	ENSG00000114942	ENST00000236957;ENST00000392221;ENST00000392222	.	.	.	5.24	5.24	0.73138	Translation elongation factor EF1B/ribosomal protein S6 (1);Translation elongation factor EF1B, beta/delta subunit, guanine nucleotide exchange (3);	0.071117	0.85682	D	0.000000	T	0.54902	0.1887	L	0.39245	1.2	0.80722	D	1	B	0.02656	0.0	B	0.20384	0.029	T	0.50651	-0.8803	9	0.33940	T	0.23	-16.9302	15.1403	0.72607	1.0:0.0:0.0:0.0	.	155	P24534	EF1B_HUMAN	L	155	.	ENSP00000236957:M155L	M	+	1	0	EEF1B2	206735523	1.000000	0.71417	0.994000	0.49952	0.958000	0.62258	9.237000	0.95368	1.984000	0.57885	0.533000	0.62120	ATG		0.388	EEF1B2-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336436.1	NM_001037663		T	207027278	A	T	207027278	3	4	688	1	0	0	0	0	1	0	0	0	4927	449	16	5	481	5	EEF1B2	2	207027278	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	9149034	207027278	36172095	20	44610										
COL4A3	1285	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	228131751	228131751	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	acagtgcccttatatcccagGgcctcccggtctcccaggat	9	16	1	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr2:228131751G>T	ENST00000396578.3	+	23	1613	c.1451G>T	c.(1450-1452)gGg>gTg	p.G484V	AC097662.2_ENST00000437673.1_RNA|AC097662.2_ENST00000396588.2_RNA|AC097662.2_ENST00000439598.2_RNA|AC097662.2_ENST00000433324.1_RNA	NM_000091.4	NP_000082.2	Q01955	CO4A3_HUMAN	collagen, type IV, alpha 3 (Goodpasture antigen)	484	Triple-helical region.				activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|axon guidance (GO:0007411)|blood circulation (GO:0008015)|cell adhesion (GO:0007155)|cell proliferation (GO:0008283)|cell surface receptor signaling pathway (GO:0007166)|collagen catabolic process (GO:0030574)|endothelial cell apoptotic process (GO:0072577)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glomerular basement membrane development (GO:0032836)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cell proliferation (GO:0008285)|negative regulation of endopeptidase activity (GO:0010951)|sensory perception of sound (GO:0007605)	basement membrane (GO:0005604)|collagen type IV trimer (GO:0005587)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	extracellular matrix structural constituent (GO:0005201)|integrin binding (GO:0005178)|metalloendopeptidase inhibitor activity (GO:0008191)|structural molecule activity (GO:0005198)			NS(4)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(24)|ovary(1)|pancreas(1)|prostate(1)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	55		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)		TATATCCCAGGGCCTCCCGGT	0.468																																																0													66	66	66					2																	228131751		1865	4098	5963	SO:0001583	missense	1285				CCDS42829.1	2q36-q37	2014-09-17			ENSG00000169031	ENSG00000169031		"Collagens"	2204	protein-coding gene	gene with protein product	"tumstatin"	120070				1737849	Standard	NM_000091		Approved		uc002vom.2	Q01955	OTTHUMG00000149891	ENST00000396578.3:c.1451G>T	2.37:g.228131751G>T	ENSP00000379823:p.Gly484Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q53QQ1|Q53R14|Q53RW8|Q9BQT2|Q9NYC4|Q9UDJ9|Q9UDK9|Q9UDL0|Q9UDL1	Missense_Mutation	SNP	ENST00000396578.3	37	CCDS42829.1	.	.	.	.	.	.	.	.	.	.	G	12.55	1.971284	0.34754	.	.	ENSG00000169031	ENST00000396578;ENST00000328380;ENST00000335583;ENST00000396574;ENST00000315699	D	0.99353	-5.77	5.36	5.36	0.76844	.	0.000000	0.56097	D	0.000028	D	0.99579	0.9848	H	0.95365	3.66	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	1.0;1.0;1.0;1.0	D	0.97996	1.0357	10	0.72032	D	0.01	.	14.5754	0.68243	0.0:0.0:1.0:0.0	.	484;484;484;484	Q01955-5;Q01955-4;Q01955-2;Q01955	.;.;.;CO4A3_HUMAN	V	484	ENSP00000379823:G484V	ENSP00000323334:G484V	G	+	2	0	COL4A3	227839995	1.000000	0.71417	0.778000	0.31720	0.010000	0.07245	4.981000	0.63819	2.515000	0.84797	0.655000	0.94253	GGG		0.468	COL4A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331409.2	NM_000091		T	228131751	G	T	228131751	3	4	688	1	0	0	0	0	1	0	0	0	3693	1232	43	4	1541	4	COL4A3	2	228131751	Missense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	21104473	228131751	15067622	21	44611										
RAB17	64284	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	238494741	238494741	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cccaggagaaccagcttgaaCacacggggctggctgggggc	16	12	0	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr2:238494741C>A	ENST00000264601.3	-	2	686	c.57G>T	c.(55-57)gtG>gtT	p.V19V	RAB17_ENST00000409576.1_Intron|RAB17_ENST00000416106.1_5'UTR|RAB17_ENST00000409822.1_Intron|RAB17_ENST00000538644.1_5'UTR	NM_022449.3	NP_071894.1	Q9H0T7	RAB17_HUMAN	RAB17, member RAS oncogene family	19			V -> A (in dbSNP:rs3751112). {ECO:0000269|Ref.3}.		cilium assembly (GO:0042384)|endocytic recycling (GO:0032456)|establishment of melanosome localization (GO:0032401)|filopodium assembly (GO:0046847)|GTP catabolic process (GO:0006184)|immunoglobulin transcytosis in epithelial cells mediated by polymeric immunoglobulin receptor (GO:0002415)|melanosome transport (GO:0032402)|protein transport (GO:0015031)|regulation of dendrite development (GO:0050773)|regulation of filopodium assembly (GO:0051489)|regulation of synapse assembly (GO:0051963)|small GTPase mediated signal transduction (GO:0007264)|transcytosis (GO:0045056)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|dendrite (GO:0030425)|endocytic vesicle (GO:0030139)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|melanosome (GO:0042470)|neuronal cell body (GO:0043025)|recycling endosome (GO:0055037)|recycling endosome membrane (GO:0055038)	GDP binding (GO:0019003)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)			haematopoietic_and_lymphoid_tissue(2)|large_intestine(1)|lung(1)	4		Renal(207;0.00272)|Breast(86;0.00297)|all_hematologic(139;0.182)|Ovarian(221;0.221)		Epithelial(121;9.36e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.26e-10)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000354)|Lung(119;0.011)|LUSC - Lung squamous cell carcinoma(224;0.026)		CCAGCTTGAACACACGGGGCT	0.597																																					Colon(56;987 1029 6466 13943 27336)											0													57	57	57					2																	238494741		2203	4300	6503	SO:0001819	synonymous_variant	64284			AK022600	CCDS2520.1	2q37.3	2008-05-23			ENSG00000124839	ENSG00000124839		"RAB, member RAS oncogene"	16523	protein-coding gene	gene with protein product		602206				9624171	Standard	NM_022449		Approved		uc002vwz.2	Q9H0T7	OTTHUMG00000133299	ENST00000264601.3:c.57G>T	2.37:g.238494741C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q53QV6|Q6IA73|Q6PJZ0|Q9BVU1|Q9H9U9	Silent	SNP	ENST00000264601.3	37	CCDS2520.1	.	.	.	.	.	.	.	.	.	.	C	6.279	0.419620	0.11928	.	.	ENSG00000124839	ENST00000430445	.	.	.	4.69	-3.2	0.05156	.	.	.	.	.	T	0.49029	0.1533	.	.	.	0.58432	D	0.999991	.	.	.	.	.	.	T	0.40515	-0.9559	4	.	.	.	-6.0609	5.8207	0.18526	0.0869:0.4881:0.2678:0.1572	.	.	.	.	F	1	.	.	C	-	2	0	RAB17	238159480	0.001000	0.12720	0.004000	0.12327	0.070000	0.16714	-0.140000	0.10342	-0.948000	0.03668	-1.094000	0.02160	TGT		0.597	RAB17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257084.2			A	238494741	C	A	238494741	2	1	688	1	0	0	0	0	0	0	0	1	12915	465	17	4		4	RAB17	2	238494741	Silent	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	10362990	238494741	4704632	22	44612										
HDLBP	3069	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	242173343	242173343	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	atcttgggatggtatttgggGtctacagtgacactcagctt	12	7	3	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr2:242173343G>A	ENST00000391975.1	-	24	3407	c.3180C>T	c.(3178-3180)gaC>gaT	p.D1060D	HDLBP_ENST00000391976.2_Silent_p.D1060D|HDLBP_ENST00000427183.2_Silent_p.D1027D|HDLBP_ENST00000310931.4_Silent_p.D1060D	NM_203346.3	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	1060	KH 13. {ECO:0000255|PROSITE- ProRule:PRU00117}.				cholesterol metabolic process (GO:0008203)|lipid transport (GO:0006869)	cytoplasm (GO:0005737)|high-density lipoprotein particle (GO:0034364)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	lipid binding (GO:0008289)|poly(A) RNA binding (GO:0044822)			breast(7)|cervix(1)|endometrium(8)|kidney(1)|large_intestine(11)|lung(8)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	44		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		GGTATTTGGGGTCTACAGTGA	0.468																																																0													159	146	151					2																	242173343		2203	4300	6503	SO:0001819	synonymous_variant	3069				CCDS2547.1, CCDS58760.1	2q37.3	2008-07-18	2008-07-18		ENSG00000115677	ENSG00000115677			4857	protein-coding gene	gene with protein product		142695	"vigilin"	VGL		1318310, 8390966	Standard	NM_005336		Approved	HBP	uc002waz.3	Q00341	OTTHUMG00000133391	ENST00000391975.1:c.3180C>T	2.37:g.242173343G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DTQ2|E7EM71|Q53QU2|Q9UCY3	Silent	SNP	ENST00000391975.1	37	CCDS2547.1	.	.	.	.	.	.	.	.	.	.	G	9.945	1.218600	0.22373	.	.	ENSG00000115677	ENST00000373292	.	.	.	5.56	-0.0544	0.13813	.	.	.	.	.	T	0.59797	0.2220	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.56685	-0.7938	4	.	.	.	-47.1969	12.584	0.56406	0.4388:0.0:0.5612:0.0	.	.	.	.	S	869	.	.	P	-	1	0	HDLBP	241822016	0.997000	0.39634	0.995000	0.50966	0.986000	0.74619	0.367000	0.20382	0.046000	0.15833	0.563000	0.77884	CCC		0.468	HDLBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257245.5	NM_203346		A	242173343	G	A	242173343	2	1	688	1	0	0	0	0	0	0	0	1	7032	1252	44	2		2	HDLBP	2	242173343	Silent	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	3678602	242173343	1026030	23	44613										
SLC6A6	6533	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	14508107	14508107	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	acgctgccgggcgcgggcgcAggcatcaagttctatctgta	14	12	3	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr3:14508107A>G	ENST00000454876.2	+	7	1145	c.816A>G	c.(814-816)gcA>gcG	p.A272A	SLC6A6_ENST00000360861.3_Silent_p.A272A			P31641	SC6A6_HUMAN	solute carrier family 6 (neurotransmitter transporter), member 6	272				A -> R (in Ref. 1; CAA79481). {ECO:0000305}.	amino acid transport (GO:0006865)|cellular amino acid metabolic process (GO:0006520)|ion transport (GO:0006811)|taurine transport (GO:0015734)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	neurotransmitter:sodium symporter activity (GO:0005328)|taurine binding (GO:0030977)|taurine:sodium symporter activity (GO:0005369)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(11)|ovary(1)|prostate(1)|skin(2)	28						GCGCGGGCGCAGGCATCAAGT	0.632																																																0													80	70	73					3																	14508107		2203	4300	6503	SO:0001819	synonymous_variant	6533				CCDS33705.1, CCDS46765.1	3p25.1	2013-07-19	2013-07-19		ENSG00000131389	ENSG00000131389		"Solute carriers"	11052	protein-coding gene	gene with protein product	"taurine transporter"	186854	"solute carrier family 6 (neurotransmitter transporter, taurine), member 6"			8010975, 8382624	Standard	XM_006713307		Approved	TAUT	uc010heg.4	P31641	OTTHUMG00000155525	ENST00000454876.2:c.816A>G	3.37:g.14508107A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RNU7|Q9BRI2|Q9BXB0	Silent	SNP	ENST00000454876.2	37	CCDS33705.1																																																																																				0.632	SLC6A6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340507.1	NM_003043		G	14508107	A	G	14508107	2	3	688	1	0	0	0	0	0	0	0	1	14701	175	7	3		3	SLC6A6	3	14508107	Silent	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10		14508107	183514323	24	44614										
TMEM115	11070	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	50396218	50396218	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	gagcagctccaaggccccccAgaggggctccagcaaacgcc	12	17	0	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr3:50396218A>G	ENST00000266025.3	-	1	823	c.277T>C	c.(277-279)Tgg>Cgg	p.W93R	XXcos-LUCA11.5_ENST00000606589.1_Intron	NM_007024.4	NP_008955.1	Q12893	TM115_HUMAN	transmembrane protein 115	93					negative regulation of cell proliferation (GO:0008285)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)				breast(2)|endometrium(1)|lung(1)|prostate(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		AAGGCCCCCCAGAGGGGCTCC	0.622																																																0													55	68	64					3																	50396218		2203	4300	6503	SO:0001583	missense	11070			BC011948	CCDS2828.1	3p21.31	2008-11-04			ENSG00000126062	ENSG00000126062			30055	protein-coding gene	gene with protein product	"placental protein 6"	607069				11085536	Standard	NM_007024		Approved	PL6	uc003dan.1	Q12893	OTTHUMG00000044212	ENST00000266025.3:c.277T>C	3.37:g.50396218A>G	ENSP00000266025:p.Trp93Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A2IDB7|O14568|Q6IAY4|Q9UIX3	Missense_Mutation	SNP	ENST00000266025.3	37	CCDS2828.1	.	.	.	.	.	.	.	.	.	.	A	23.1	4.371161	0.82573	.	.	ENSG00000126062	ENST00000266025	T	0.11712	2.75	5.26	5.26	0.73747	.	0.000000	0.85682	D	0.000000	T	0.39682	0.1087	M	0.89414	3.03	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.46555	-0.9183	10	0.87932	D	0	.	14.4388	0.67301	1.0:0.0:0.0:0.0	.	93	Q12893	TM115_HUMAN	R	93	ENSP00000266025:W93R	ENSP00000266025:W93R	W	-	1	0	TMEM115	50371222	1.000000	0.71417	1.000000	0.80357	0.972000	0.66771	8.943000	0.92975	2.110000	0.64415	0.460000	0.39030	TGG		0.622	TMEM115-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000102784.3	NM_007024		G	50396218	A	G	50396218	3	3	688	1	0	0	0	0	1	0	0	0	16041	188	7	3	786	3	TMEM115	3	50396218	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	35888111	50396218	147626212	25	44615										
P2RY1	5028	hgsc.bcm.edu;broad.mit.edu	37	chr3	152554007	152554007	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	tcttgtttctgacatgcatcAgtgcccaccggtacagcggt	10	12	3	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr3:152554007A>G	ENST00000305097.3	+	1	1272	c.436A>G	c.(436-438)Agt>Ggt	p.S146G		NM_002563.3	NP_002554.1	P47900	P2RY1_HUMAN	purinergic receptor P2Y, G-protein coupled, 1	146					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|aging (GO:0007568)|blood coagulation (GO:0007596)|brain development (GO:0007420)|cell surface receptor signaling pathway (GO:0007166)|eating behavior (GO:0042755)|G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of binding (GO:0051100)|negative regulation of norepinephrine secretion (GO:0010700)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)|platelet activation (GO:0030168)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of hormone secretion (GO:0046887)|positive regulation of inositol trisphosphate biosynthetic process (GO:0032962)|positive regulation of ion transport (GO:0043270)|positive regulation of penile erection (GO:0060406)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein localization to plasma membrane (GO:0072659)|regulation of receptor activity (GO:0010469)|regulation of vasodilation (GO:0042312)|relaxation of muscle (GO:0090075)|response to growth factor (GO:0070848)|response to mechanical stimulus (GO:0009612)|sensory perception of pain (GO:0019233)|signal transduction involved in regulation of gene expression (GO:0023019)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|cell body (GO:0044297)|cell surface (GO:0009986)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|neuronal postsynaptic density (GO:0097481)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	ADP binding (GO:0043531)|ADP-activated nucleotide receptor activity (GO:0045032)|ATP binding (GO:0005524)|ATP-activated nucleotide receptor activity (GO:0045031)|G-protein coupled purinergic nucleotide receptor activity (GO:0045028)|receptor activity (GO:0004872)|scaffold protein binding (GO:0097110)			breast(1)|endometrium(1)|large_intestine(7)|lung(11)|ovary(1)|prostate(2)	23			LUSC - Lung squamous cell carcinoma(72;0.0628)|Lung(72;0.11)			GACATGCATCAGTGCCCACCG	0.507																																																0													91	79	83					3																	152554007		2203	4300	6503	SO:0001583	missense	5028			U42029	CCDS3169.1	3q25.2	2012-08-08			ENSG00000169860	ENSG00000169860		"Purinergic receptors", "GPCR / Class A : Purinergic receptors, P2Y"	8539	protein-coding gene	gene with protein product		601167				8579591	Standard	NM_002563		Approved	P2Y1	uc003ezq.3	P47900	OTTHUMG00000159694	ENST00000305097.3:c.436A>G	3.37:g.152554007A>G	ENSP00000304767:p.Ser146Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000305097.3	37	CCDS3169.1	.	.	.	.	.	.	.	.	.	.	A	21.5	4.164790	0.78339	.	.	ENSG00000169860	ENST00000305097	T	0.80994	-1.44	5.76	5.76	0.90799	GPCR, rhodopsin-like superfamily (1);	0.000000	0.85682	D	0.000000	D	0.90844	0.7124	M	0.92122	3.275	0.58432	D	0.999999	D	0.63046	0.992	P	0.60012	0.867	D	0.92885	0.6326	10	0.72032	D	0.01	.	15.2728	0.73717	1.0:0.0:0.0:0.0	.	146	P47900	P2RY1_HUMAN	G	146	ENSP00000304767:S146G	ENSP00000304767:S146G	S	+	1	0	P2RY1	154036697	1.000000	0.71417	1.000000	0.80357	0.869000	0.49853	9.210000	0.95106	2.186000	0.69663	0.533000	0.62120	AGT		0.507	P2RY1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356943.1	NM_002563		G	152554007	A	G	152554007	3	3	688	1	0	0	0	0	1	0	0	0	11353	188	7	3	438	3	P2RY1	3	152554007	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	102157789	152554007	45468423	26	44616										
FGFR3	2261	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	1807653	1807653	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	tggcccggggcatggagtacTtggcctcccagaaggtgggc	17	11	0	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr4:1807653T>A	ENST00000260795.2	+	12	1924	c.1822T>A	c.(1822-1824)Ttg>Atg	p.L608M	FGFR3_ENST00000440486.2_Missense_Mutation_p.L608M|FGFR3_ENST00000340107.4_Missense_Mutation_p.L610M|FGFR3_ENST00000481110.2_Missense_Mutation_p.L609M|FGFR3_ENST00000352904.1_Missense_Mutation_p.L496M|FGFR3_ENST00000412135.2_Missense_Mutation_p.L496M			P22607	FGFR3_HUMAN	fibroblast growth factor receptor 3	608	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				alveolar secondary septum development (GO:0061144)|axonogenesis involved in innervation (GO:0060385)|bone maturation (GO:0070977)|bone mineralization (GO:0030282)|bone morphogenesis (GO:0060349)|cell-cell signaling (GO:0007267)|central nervous system myelination (GO:0022010)|chondrocyte differentiation (GO:0002062)|chondrocyte proliferation (GO:0035988)|cochlea development (GO:0090102)|digestive tract morphogenesis (GO:0048546)|endochondral bone growth (GO:0003416)|endochondral ossification (GO:0001958)|epidermal growth factor receptor signaling pathway (GO:0007173)|epithelial cell fate commitment (GO:0072148)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor apoptotic signaling pathway (GO:1902178)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|inner ear receptor cell differentiation (GO:0060113)|insulin receptor signaling pathway (GO:0008286)|JAK-STAT cascade (GO:0007259)|lens fiber cell development (GO:0070307)|lens morphogenesis in camera-type eye (GO:0002089)|MAPK cascade (GO:0000165)|morphogenesis of an epithelium (GO:0002009)|negative regulation of astrocyte differentiation (GO:0048712)|negative regulation of developmental growth (GO:0048640)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of mitosis (GO:0045839)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cell differentiation (GO:0045597)|positive regulation of cell proliferation (GO:0008284)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of MAPKKK cascade by fibroblast growth factor receptor signaling pathway (GO:0090080)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of phospholipase activity (GO:0010518)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of tyrosine phosphorylation of Stat1 protein (GO:0042511)|positive regulation of tyrosine phosphorylation of Stat3 protein (GO:0042517)|protein autophosphorylation (GO:0046777)|response to axon injury (GO:0048678)|skeletal system development (GO:0001501)|somatic stem cell maintenance (GO:0035019)|substantia nigra development (GO:0021762)	cell surface (GO:0009986)|cytoplasmic side of plasma membrane (GO:0009898)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|lysosome (GO:0005764)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|fibroblast growth factor binding (GO:0017134)|fibroblast growth factor-activated receptor activity (GO:0005007)|protein tyrosine kinase activity (GO:0004713)			NS(1)|central_nervous_system(5)|cervix(6)|endometrium(2)|haematopoietic_and_lymphoid_tissue(40)|kidney(1)|large_intestine(5)|lung(9)|ovary(1)|pancreas(2)|prostate(9)|skin(339)|soft_tissue(4)|testis(2)|upper_aerodigestive_tract(58)|urinary_tract(2607)	3091		Breast(71;0.212)|all_epithelial(65;0.241)	all cancers(2;0.000145)|OV - Ovarian serous cystadenocarcinoma(23;0.0019)|Epithelial(3;0.00221)|GBM - Glioblastoma multiforme(2;0.234)		Palifermin(DB00039)|Pazopanib(DB06589)|Ponatinib(DB08901)	CATGGAGTACTTGGCCTCCCA	0.662		1	"Mis, T"	"IGH@, ETV6"	"bladder, MM, T-cell lymphoma"		"Hypochondroplasia, Thanatophoric dysplasia"		Saethre-Chotzen syndrome;Muenke syndrome																														Dom	yes		4	4p16.3	2261	fibroblast growth factor receptor 3	yes	"L, E"	0													39	47	44					4																	1807653		2203	4299	6502	SO:0001583	missense	2261	Familial Cancer Database	Acrocephalosyndactyly type III;Muenke Nonsyndromic Coronal Craniosynostosis, FGFR3-related Craniosynostosis	M64347	CCDS3353.1, CCDS3354.1, CCDS54706.1	4p16.3	2013-01-11	2008-08-01		ENSG00000068078	ENSG00000068078		"CD molecules", "Immunoglobulin superfamily / I-set domain containing"	3690	protein-coding gene	gene with protein product		134934	"achondroplasia, thanatophoric dwarfism"	ACH		1847508	Standard	NM_000142		Approved	CEK2, JTK4, CD333	uc003gdu.2	P22607	OTTHUMG00000121148	ENST00000260795.2:c.1822T>A	4.37:g.1807653T>A	ENSP00000260795:p.Leu608Met	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVP9|D3DVQ0|Q14308|Q16294|Q16608|Q59FL9	Missense_Mutation	SNP	ENST00000260795.2	37	CCDS3353.1	.	.	.	.	.	.	.	.	.	.	c	11.98	1.799537	0.31869	.	.	ENSG00000068078	ENST00000481110;ENST00000340107;ENST00000440486;ENST00000412135;ENST00000260795;ENST00000352904	D;D;D;D;D;D	0.92446	-3.04;-3.04;-3.04;-3.04;-3.04;-3.04	4.18	1.33	0.21861	Serine-threonine/tyrosine-protein kinase (2);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.64402	D	0.000001	D	0.95586	0.8565	M	0.86805	2.84	0.80722	D	1	D;D;D;D	0.89917	1.0;0.999;1.0;1.0	D;D;D;D	0.91635	0.996;0.999;0.998;0.991	D	0.94568	0.7768	10	0.87932	D	0	.	10.2771	0.43517	0.0:0.681:0.0:0.319	.	610;496;608;609	P22607-2;P22607-3;P22607;F8W9L4	.;.;FGFR3_HUMAN;.	M	609;610;608;496;608;496	ENSP00000420533:L609M;ENSP00000339824:L610M;ENSP00000414914:L608M;ENSP00000412903:L496M;ENSP00000260795:L608M;ENSP00000231803:L496M	ENSP00000260795:L608M	L	+	1	2	FGFR3	1777451	0.995000	0.38212	0.995000	0.50966	0.390000	0.30446	0.568000	0.23623	0.311000	0.23014	-1.193000	0.01689	TTG		0.662	FGFR3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000241632.2	NM_000142		A	1807653	T	A	1807653	3	1	688	1	0	0	0	0	1	0	0	0	5874	1606	56	5	2023	5	FGFR3	4	1807653	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10		1807653	189346623	27	44617										
SLC4A4	8671	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	72413388	72413388	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	acaaagagtcactggaacccTtgtgtttattctgactggtc	9	9	2	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr4:72413388T>C	ENST00000264485.5	+	20	2762	c.2645T>C	c.(2644-2646)cTt>cCt	p.L882P	SLC4A4_ENST00000340595.3_Missense_Mutation_p.L838P|SLC4A4_ENST00000425175.1_Missense_Mutation_p.L882P|SLC4A4_ENST00000351898.6_Intron	NM_001098484.2	NP_001091954.1	Q9Y6R1	S4A4_HUMAN	solute carrier family 4 (sodium bicarbonate cotransporter), member 4	882					bicarbonate transport (GO:0015701)|ion transport (GO:0006811)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)|transport (GO:0006810)	basolateral plasma membrane (GO:0016323)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	inorganic anion exchanger activity (GO:0005452)|sodium:bicarbonate symporter activity (GO:0008510)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(9)|liver(1)|lung(21)|ovary(3)|pancreas(1)|prostate(1)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(1)	58			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)		Sodium bicarbonate(DB01390)	ACTGGAACCCTTGTGTTTATT	0.373																																																0													217	212	214					4																	72413388		2203	4300	6503	SO:0001583	missense	8671			AF007216	CCDS3549.1, CCDS43236.1, CCDS47071.1	4q13.3	2013-07-19	2013-07-19		ENSG00000080493	ENSG00000080493		"Solute carriers"	11030	protein-coding gene	gene with protein product		603345	"solute carrier family 4, sodium bicarbonate cotransporter, member 4"	SLC4A5		9235899, 9651366	Standard	NM_001098484		Approved	NBC1, HNBC1, NBC2, pNBC, hhNMC	uc010iic.3	Q9Y6R1	OTTHUMG00000129907	ENST00000264485.5:c.2645T>C	4.37:g.72413388T>C	ENSP00000264485:p.Leu882Pro	Somatic		WXS	Illumina HiSeq	Phase_I	C4B714|O15153|Q8NEJ2|Q9H262|Q9NRZ1|Q9UIC0|Q9UIC1|Q9UP50	Missense_Mutation	SNP	ENST00000264485.5	37	CCDS43236.1	.	.	.	.	.	.	.	.	.	.	T	22.3	4.277920	0.80692	.	.	ENSG00000080493	ENST00000264485;ENST00000425175;ENST00000340595	D;D;D	0.82167	-1.58;-1.58;-1.58	5.81	5.81	0.92471	Bicarbonate transporter, C-terminal (1);	0.329506	0.33980	N	0.004364	D	0.87661	0.6233	M	0.80183	2.485	0.80722	D	1	P;P;B	0.40230	0.708;0.481;0.242	P;B;B	0.46208	0.507;0.419;0.427	D	0.89124	0.3505	10	0.87932	D	0	.	16.167	0.81768	0.0:0.0:0.0:1.0	.	882;838;882	A5JJ20;Q9Y6R1-2;Q9Y6R1	.;.;S4A4_HUMAN	P	882;882;838	ENSP00000264485:L882P;ENSP00000393557:L882P;ENSP00000344272:L838P	ENSP00000264485:L882P	L	+	2	0	SLC4A4	72632252	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	6.184000	0.72008	2.210000	0.71456	0.533000	0.62120	CTT		0.373	SLC4A4-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362090.1	NM_003759		C	72413388	T	C	72413388	3	2	688	1	0	0	0	0	1	0	0	0	14669	1609	56	3	2840	3	SLC4A4	4	72413388	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10	70605735	72413388	118740888	28	44618										
NKD2	85409	broad.mit.edu	37	chr5	1038447	1038449	+	In_Frame_Del	DEL	CAC	CAC	-													0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	agcaccaccaccaccacgagCaccaccaccaccaccaccac					rs3840989		TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	CAC	CAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr5:1038447_1038449delCAC	ENST00000296849.5	+	10	1544_1546	c.1315_1317delCAC	c.(1315-1317)cacdel	p.H447del	NKD2_ENST00000382730.2_In_Frame_Del_p.P86del|NKD2_ENST00000274150.4_3'UTR	NM_033120.3	NP_149111.1	Q969F2	NKD2_HUMAN	naked cuticle homolog 2 (Drosophila)	447	His-rich.				exocytosis (GO:0006887)|Golgi vesicle fusion to target membrane (GO:0048210)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein processing (GO:0010954)|protein targeting to plasma membrane (GO:0072661)|Wnt signaling pathway (GO:0016055)	basolateral plasma membrane (GO:0016323)|cell periphery (GO:0071944)|cytoplasmic vesicle (GO:0031410)	calcium ion binding (GO:0005509)|growth factor binding (GO:0019838)|ubiquitin protein ligase binding (GO:0031625)			breast(1)|central_nervous_system(3)|large_intestine(1)|lung(8)|pancreas(1)	14	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;3.28e-09)		Epithelial(17;0.00093)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00417)|Lung(60;0.165)			ccaccacgagcaccaccaccacc	0.69																																																0																																										SO:0001651	inframe_deletion	85409			AF358137	CCDS3859.1, CCDS59486.1	5p15.3	2013-01-10			ENSG00000145506	ENSG00000145506		"EF-hand domain containing"	17046	protein-coding gene	gene with protein product	"naked cuticle-2", "Dvl-binding protein NKD2"	607852				11356022, 11604995	Standard	NM_033120		Approved	Naked2	uc003jbt.2	Q969F2	OTTHUMG00000090348	ENST00000296849.5:c.1315_1317delCAC	5.37:g.1038456_1038458delCAC	ENSP00000296849:p.His447del	Somatic		WXS	Illumina HiSeq	Phase_I	Q96EK8|Q9BSN0	In_Frame_Del	DEL	ENST00000296849.5	37	CCDS3859.1																																																																																				0.69	NKD2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000206720.2	NM_033120		-	1038449	CAC	-	1038447	7	5	688	1	0	1	0	1	0	0	0	0	10449	710	25	0	1353	0	NKD2	5	1038447	In_Frame_Del	DEL	CAC	TCGA-KV-A6GD-01A-11D-A31X-10		1038447	179876813	29	44619										
TRIO	7204	broad.mit.edu	37	chr5	14358383	14358385	+	In_Frame_Del	DEL	CAG	CAG	-													0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	acctcatcaagcgctttggcCagcagcagcagaccaccctg							TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr5:14358383_14358385delCAG	ENST00000344204.4	+	12	2167_2169	c.2143_2145delCAG	c.(2143-2145)cagdel	p.Q718del	TRIO_ENST00000537187.1_In_Frame_Del_p.Q718del|TRIO_ENST00000509967.2_In_Frame_Del_p.Q669del	NM_007118.2	NP_009049.2	O75962	TRIO_HUMAN	trio Rho guanine nucleotide exchange factor	718	Poly-Gln.				apoptotic signaling pathway (GO:0097190)|axon guidance (GO:0007411)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	cytosol (GO:0005829)	ATP binding (GO:0005524)|guanyl-nucleotide exchange factor activity (GO:0005085)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(2)|breast(6)|central_nervous_system(4)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(21)|lung(34)|ovary(4)|prostate(2)|skin(11)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(4)	118	Lung NSC(4;0.000742)					GCGCTTTGGCCAGCAGCAGCAGA	0.631																																																0																																										SO:0001651	inframe_deletion	7204			AF091395	CCDS3883.1	5p14-p15.1	2013-01-11	2012-07-12		ENSG00000038382	ENSG00000038382		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing"	12303	protein-coding gene	gene with protein product		601893	"triple functional domain (PTPRF interacting)"			8643598	Standard	NM_007118		Approved	ARHGEF23	uc003jff.3	O75962	OTTHUMG00000131057	ENST00000344204.4:c.2143_2145delCAG	5.37:g.14358392_14358394delCAG	ENSP00000339299:p.Gln718del	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTD1|Q13458|Q59EQ7|Q6PJC9|Q6ZN05|Q8IWK8	In_Frame_Del	DEL	ENST00000344204.4	37	CCDS3883.1																																																																																				0.631	TRIO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253711.2	NM_007118		-	14358385	CAG	-	14358383	7	5	688	1	0	1	0	1	0	0	0	0	16564	595	21	0	2189	0	TRIO	5	14358383	In_Frame_Del	DEL	CAG	TCGA-KV-A6GD-01A-11D-A31X-10	13319936	14358383	166556877	30	44620										
ISL1	3670	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	50680410	50680410	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	ccctatgtgttggttgcggcAatcagattcacgatcagtat	10	9	3	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr5:50680410A>G	ENST00000230658.7	+	2	649	c.64A>G	c.(64-66)Aat>Gat	p.N22D	ISL1_ENST00000511384.1_Missense_Mutation_p.N22D|CTD-2314G24.2_ENST00000559112.2_RNA	NM_002202.2	NP_002193.2	P61371	ISL1_HUMAN	ISL LIM homeobox 1	22	LIM zinc-binding 1. {ECO:0000255|PROSITE- ProRule:PRU00125}.				atrial septum morphogenesis (GO:0060413)|axon regeneration (GO:0031103)|cardiac cell fate determination (GO:0060913)|cardiac muscle cell myoblast differentiation (GO:0060379)|cardiac right ventricle morphogenesis (GO:0003215)|cellular response to glucocorticoid stimulus (GO:0071385)|endocardial cushion morphogenesis (GO:0003203)|innervation (GO:0060384)|mesenchymal cell differentiation (GO:0048762)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of inflammatory response (GO:0050728)|negative regulation of intracellular estrogen receptor signaling pathway (GO:0033147)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of protein homodimerization activity (GO:0090074)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neural crest cell migration (GO:0001755)|neuron fate specification (GO:0048665)|outflow tract morphogenesis (GO:0003151)|outflow tract septum morphogenesis (GO:0003148)|pancreas development (GO:0031016)|peripheral nervous system neuron axonogenesis (GO:0048936)|pharyngeal system development (GO:0060037)|pituitary gland development (GO:0021983)|positive regulation of angiogenesis (GO:0045766)|positive regulation of cell proliferation (GO:0008284)|positive regulation of DNA binding (GO:0043388)|positive regulation of granulocyte colony-stimulating factor production (GO:0071657)|positive regulation of granulocyte macrophage colony-stimulating factor production (GO:0032725)|positive regulation of insulin secretion (GO:0032024)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interleukin-1 alpha production (GO:0032730)|positive regulation of interleukin-1 beta production (GO:0032731)|positive regulation of interleukin-12 production (GO:0032735)|positive regulation of interleukin-6 production (GO:0032755)|positive regulation of macrophage colony-stimulating factor production (GO:1901258)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor production (GO:0032760)|positive regulation of tyrosine phosphorylation of Stat3 protein (GO:0042517)|positive regulation vascular endothelial growth factor production (GO:0010575)|regulation of secondary heart field cardioblast proliferation (GO:0003266)|retinal ganglion cell axon guidance (GO:0031290)|secondary heart field specification (GO:0003139)|sensory system development (GO:0048880)|spinal cord motor neuron cell fate specification (GO:0021520)|spinal cord motor neuron differentiation (GO:0021522)|trigeminal nerve development (GO:0021559)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)|visceral motor neuron differentiation (GO:0021524)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	bHLH transcription factor binding (GO:0043425)|chromatin binding (GO:0003682)|enhancer sequence-specific DNA binding (GO:0001158)|estrogen receptor binding (GO:0030331)|ligand-dependent nuclear receptor binding (GO:0016922)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II transcription coactivator activity (GO:0001105)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(1)|kidney(3)|large_intestine(11)|lung(9)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	31		Lung NSC(810;0.000845)|Breast(144;0.0411)				TGGTTGCGGCAATCAGATTCA	0.393																																																0													141	131	134					5																	50680410		1856	4100	5956	SO:0001583	missense	3670			BC031213	CCDS43314.1	5q11.2	2012-03-09	2007-07-13		ENSG00000016082	ENSG00000016082		"Homeoboxes / LIM class"	6132	protein-coding gene	gene with protein product		600366	"ISL1 transcription factor, LIM/homeodomain, (islet-1)"			7912209	Standard	NM_002202		Approved	Isl-1, ISLET1	uc003jor.3	P61371	OTTHUMG00000162281	ENST00000230658.7:c.64A>G	5.37:g.50680410A>G	ENSP00000230658:p.Asn22Asp	Somatic		WXS	Illumina HiSeq	Phase_I	P20663|P47894	Missense_Mutation	SNP	ENST00000230658.7	37	CCDS43314.1	.	.	.	.	.	.	.	.	.	.	A	14.93	2.682347	0.47991	.	.	ENSG00000016082	ENST00000230658;ENST00000503187;ENST00000511384	D;D	0.87029	-2.2;-2.2	6.16	6.16	0.99307	Zinc finger, LIM-type (5);	0.000000	0.85682	D	0.000000	T	0.79040	0.4379	N	0.13098	0.295	0.58432	D	0.999993	P	0.36183	0.542	B	0.36030	0.216	T	0.78427	-0.2208	10	0.31617	T	0.26	.	16.8061	0.85666	1.0:0.0:0.0:0.0	.	22	P61371	ISL1_HUMAN	D	22	ENSP00000230658:N22D;ENSP00000422676:N22D	ENSP00000230658:N22D	N	+	1	0	ISL1	50716167	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.543000	0.82106	2.367000	0.80283	0.528000	0.53228	AAT		0.393	ISL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368413.3	NM_002202		G	50680410	A	G	50680410	3	3	688	1	0	0	0	0	1	0	0	0	7863	130	5	3	70	3	ISL1	5	50680410	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	36322027	50680410	130234850	31	44621										
SEC24A	10802	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	134060676	134060676	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cttttattcctaagggatgaGagtccaatgaaagcaaactt	8	7	0	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr5:134060676G>C	ENST00000398844.2	+	23	3462	c.3174G>C	c.(3172-3174)gaG>gaC	p.E1058D		NM_021982.2	NP_068817.1	O95486	SC24A_HUMAN	SEC24 family member A	1058					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular protein metabolic process (GO:0044267)|COPII vesicle coating (GO:0048208)|ER to Golgi vesicle-mediated transport (GO:0006888)|intracellular protein transport (GO:0006886)|membrane organization (GO:0061024)|positive regulation of cholesterol homeostasis (GO:2000189)|positive regulation of protein secretion (GO:0050714)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)|regulation of low-density lipoprotein particle receptor biosynthetic process (GO:0045714)|small molecule metabolic process (GO:0044281)	COPII vesicle coat (GO:0030127)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|ER to Golgi transport vesicle membrane (GO:0012507)|Golgi membrane (GO:0000139)	zinc ion binding (GO:0008270)			NS(1)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(4)|lung(13)|ovary(1)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	36			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TAAGGGATGAGAGTCCAATGA	0.323																																																0													60	56	57					5																	134060676		1806	4068	5874	SO:0001583	missense	10802			AJ131244	CCDS43363.1, CCDS58967.1	5q31.1	2013-10-21	2013-10-21		ENSG00000113615	ENSG00000113615			10703	protein-coding gene	gene with protein product		607183	"SEC24 (S. cerevisiae) related gene family, member A", "SEC24 family, member A (S. cerevisiae)"			10075675, 10329445	Standard	NM_021982		Approved		uc003kzs.3	O95486	OTTHUMG00000163064	ENST00000398844.2:c.3174G>C	5.37:g.134060676G>C	ENSP00000381823:p.Glu1058Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8MVW3|Q8WUV2|Q96GP7	Missense_Mutation	SNP	ENST00000398844.2	37	CCDS43363.1	.	.	.	.	.	.	.	.	.	.	G	7.791	0.711484	0.15239	.	.	ENSG00000113615	ENST00000398844	T	0.28666	1.6	5.68	5.68	0.88126	.	0.045285	0.85682	D	0.000000	T	0.11623	0.0283	N	0.04260	-0.245	0.80722	D	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.29731	-1.0002	10	0.10902	T	0.67	-12.469	5.5239	0.16947	0.1812:0.1697:0.6491:0.0	.	822;1058	B4E205;O95486	.;SC24A_HUMAN	D	1058	ENSP00000381823:E1058D	ENSP00000381823:E1058D	E	+	3	2	SEC24A	134088575	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	0.734000	0.26101	2.691000	0.91804	0.650000	0.86243	GAG		0.323	SEC24A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371563.1			C	134060676	G	C	134060676	3	2	688	1	0	0	0	0	1	0	0	0	14007	933	33	4	3264	4	SEC24A	5	134060676	Missense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	83380266	134060676	46854584	32	44622										
HNRNPA0	10949	broad.mit.edu	37	chr5	137088931	137088931	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	ccccagctactgcctccaccGccgccgccgccgccgctctt	8	24	1	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr5:137088931G>A	ENST00000314940.4	-	1	1108	c.825C>T	c.(823-825)ggC>ggT	p.G275G		NM_006805.3	NP_006796.1	Q13151	ROA0_HUMAN	heterogeneous nuclear ribonucleoprotein A0	275	Gly-rich.				3'-UTR-mediated mRNA stabilization (GO:0070935)|gene expression (GO:0010467)|inflammatory response (GO:0006954)|mRNA processing (GO:0006397)|mRNA splicing, via spliceosome (GO:0000398)|response to lipopolysaccharide (GO:0032496)|RNA splicing (GO:0008380)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	AU-rich element binding (GO:0017091)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)|RNA binding (GO:0003723)	p.G275G(1)		large_intestine(1)|lung(2)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			Tgcctccaccgccgccgccgc	0.632																																																1	Substitution - coding silent(1)	large_intestine(1)											9	13	11					5																	137088931		1925	3891	5816	SO:0001819	synonymous_variant	10949			U23803	CCDS4193.1	5q31	2013-02-12		2007-08-16	ENSG00000177733	ENSG00000177733		"RNA binding motif (RRM) containing"	5030	protein-coding gene	gene with protein product		609409		HNRPA0		7585247	Standard	NM_006805		Approved	hnRNPA0	uc003lbt.3	Q13151	OTTHUMG00000129156	ENST00000314940.4:c.825C>T	5.37:g.137088931G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6IB18	Silent	SNP	ENST00000314940.4	37	CCDS4193.1																																																																																				0.632	HNRNPA0-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251221.1	NM_006805		A	137088931	G	A	137088931	2	1	688	1	0	0	0	0	0	0	0	1	7263	1074	38	1		1	HNRNPA0	5	137088931	Silent	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	3028255	137088931	43826329	33	44623										
C5orf41	153222	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	172518246	172518246	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	gccaactaaatgcagtcctgAagaagatgaggaggacgagg	14	7	0	4	rs374100928		TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr5:172518246A>T	ENST00000296953.2	+	4	1383	c.1064A>T	c.(1063-1065)gAa>gTa	p.E355V	CREBRF_ENST00000520420.1_Missense_Mutation_p.E355V|CREBRF_ENST00000540014.1_Missense_Mutation_p.E355V|CREBRF_ENST00000522692.1_Missense_Mutation_p.E355V	NM_153607.2	NP_705835.2	Q8IUR6	CRERF_HUMAN	CREB3 regulatory factor	355	Glu-rich.				negative regulation of endoplasmic reticulum unfolded protein response (GO:1900102)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of intracellular transport (GO:0032388)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of protein transport (GO:0051222)|response to endoplasmic reticulum stress (GO:0034976)|response to unfolded protein (GO:0006986)|transcription, DNA-templated (GO:0006351)|transport (GO:0006810)	cytoplasm (GO:0005737)|nuclear body (GO:0016604)|nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)										TGCAGTCCtgaagaagatgag	0.443																																																0													63	50	54					5																	172518246		2203	4300	6503	SO:0001583	missense	153222			AY139008	CCDS34293.1, CCDS54948.1	5q35.2	2012-03-06	2012-03-06	2012-03-06	ENSG00000164463	ENSG00000164463			24050	protein-coding gene	gene with protein product	"luman/CREB3 recruitment factor"		"chromosome 5 open reading frame 41"	C5orf41		18391022	Standard	NM_153607		Approved	LRF	uc003mch.3	Q8IUR6	OTTHUMG00000163322	ENST00000296953.2:c.1064A>T	5.37:g.172518246A>T	ENSP00000296953:p.Glu355Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3DFH2|B3KW49|D3DQM2|F5GXN3|Q5HYG4|Q5HYK0|Q86YR3|Q8IZG1	Missense_Mutation	SNP	ENST00000296953.2	37	CCDS34293.1	.	.	.	.	.	.	.	.	.	.	A	17.18	3.323089	0.60634	.	.	ENSG00000164463	ENST00000522692;ENST00000296953;ENST00000540014;ENST00000520420;ENST00000538538;ENST00000393776	T;T;T;T	0.70749	-0.51;2.19;2.19;-0.51	5.52	5.52	0.82312	.	0.433677	0.23268	N	0.050045	T	0.75525	0.3861	N	0.24115	0.695	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.83275	0.991;0.996	T	0.78703	-0.2101	10	0.66056	D	0.02	.	15.3153	0.74069	1.0:0.0:0.0:0.0	.	355;355	Q8IUR6;Q8IUR6-2	CE041_HUMAN;.	V	355	ENSP00000431107:E355V;ENSP00000296953:E355V;ENSP00000440075:E355V;ENSP00000428290:E355V	ENSP00000296953:E355V	E	+	2	0	C5orf41	172450852	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	6.297000	0.72757	2.103000	0.63969	0.533000	0.62120	GAA		0.443	CREBRF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372667.1	NM_153607		T	172518246	A	T	172518246	3	4	688	1	0	0	0	0	1	0	0	0	2302	246	9	5	1074	5	C5orf41	5	172518246	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	35429315	172518246	8397014	34	44624										
AGXT2L2	85007	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	177649897	177649897	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	gcagggggaatgatctgcccTcccacactgggcagagactc	13	13	1	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr5:177649897T>C	ENST00000308158.5	-	7	891	c.657A>G	c.(655-657)ggA>ggG	p.G219G	PHYKPL_ENST00000481811.1_Intron	NM_153373.2	NP_699204.1	Q8IUZ5	AT2L2_HUMAN	5-phosphohydroxy-L-lysine phospho-lyase	219						mitochondrion (GO:0005739)	lyase activity (GO:0016829)|pyridoxal phosphate binding (GO:0030170)|transaminase activity (GO:0008483)									L-Alanine(DB00160)	TGATCTGCCCTCCCACACTGG	0.582																																																0													94	80	85					5																	177649897		2203	4300	6503	SO:0001819	synonymous_variant	85007			BC037567	CCDS4434.1	5q35.3	2013-06-12	2013-06-12	2013-06-12	ENSG00000175309	ENSG00000175309	4.2.3.134		28249	protein-coding gene	gene with protein product	"5-phosphonooxy-L-lysine phospho-lyase"	614683	"alanine-glyoxylate aminotransferase 2-like 2"	AGXT2L2		22241472	Standard	NM_153373		Approved	MGC15875	uc003miz.3	Q8IUZ5	OTTHUMG00000130892	ENST00000308158.5:c.657A>G	5.37:g.177649897T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7P6|B3KN36|D3DWP9|Q8WYS6|Q96HW8	Silent	SNP	ENST00000308158.5	37	CCDS4434.1																																																																																				0.582	PHYKPL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253477.1	NM_032921		C	177649897	T	C	177649897	2	2	688	1	0	0	0	0	0	0	0	1	407	1538	54	3		3	AGXT2L2	5	177649897	Silent	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10	5131651	177649897	3265363	35	44625										
TBC1D7	51256	broad.mit.edu;ucsc.edu	37	chr6	13307840	13307840	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	agacctacttgcctctgtaaActggattcaggcaaacatcc	7	12	2	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr6:13307840A>T	ENST00000379300.3	-	6	900	c.657T>A	c.(655-657)agT>agA	p.S219R	TBC1D7_ENST00000607658.1_Missense_Mutation_p.S192R|TBC1D7_ENST00000356436.4_Missense_Mutation_p.S219R|TBC1D7_ENST00000607532.1_5'UTR|TBC1D7_ENST00000343141.4_Missense_Mutation_p.S173R|TBC1D7_ENST00000379307.2_Missense_Mutation_p.S192R	NM_001143964.2|NM_016495.4	NP_001137436.1|NP_057579.1	Q9P0N9	TBCD7_HUMAN	TBC1 domain family, member 7	219	Rab-GAP TBC. {ECO:0000255|PROSITE- ProRule:PRU00163}.				activation of Rho GTPase activity (GO:0032862)|negative regulation of cilium assembly (GO:1902018)|negative regulation of TOR signaling (GO:0032007)|positive regulation of GTP catabolic process (GO:0033126)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of Rab GTPase activity (GO:0032851)|response to growth factor (GO:0070848)	ciliary basal body (GO:0036064)|cytoplasmic vesicle (GO:0031410)	Rab GTPase activator activity (GO:0005097)|Rab GTPase binding (GO:0017137)			breast(1)|endometrium(1)|large_intestine(4)|lung(14)|ovary(1)|stomach(1)	22	Breast(50;0.0296)|Ovarian(93;0.0339)	all_hematologic(90;0.135)	Epithelial(50;0.0784)|BRCA - Breast invasive adenocarcinoma(129;0.13)|all cancers(50;0.21)			GCCTCTGTAAACTGGATTCAG	0.478																																																0													116	114	115					6																	13307840		2203	4300	6503	SO:0001583	missense	51256			AF151073	CCDS4523.1, CCDS47376.1, CCDS58995.1	6p23	2013-07-10			ENSG00000145979	ENSG00000145979			21066	protein-coding gene	gene with protein product		612655				11042152, 17646400	Standard	XM_005249163		Approved	dJ257A7.3, FLJ32666	uc003nan.3	Q9P0N9	OTTHUMG00000014272	ENST00000379300.3:c.657T>A	6.37:g.13307840A>T	ENSP00000368602:p.Ser219Arg	Somatic		WXS	Illumina HiSeq	Phase_I	E7EV96|Q2TU37|Q53F44|Q5SZL7|Q86VM8|Q96MB8	Missense_Mutation	SNP	ENST00000379300.3	37	CCDS4523.1	.	.	.	.	.	.	.	.	.	.	A	23.8	4.464789	0.84425	.	.	ENSG00000145979	ENST00000334971;ENST00000356436;ENST00000379300;ENST00000379307;ENST00000343141;ENST00000452989;ENST00000450347;ENST00000422136;ENST00000446018;ENST00000420456	T;T;T;T;T;T;T;T;T	0.42900	1.94;1.94;1.94;1.94;1.94;1.94;1.94;1.94;0.96	6.17	2.41	0.29592	Rab-GAP/TBC domain (3);	0.474423	0.28504	N	0.015120	T	0.47507	0.1449	M	0.81682	2.555	0.54753	D	0.999986	D;D;D;D	0.89917	0.999;1.0;1.0;1.0	D;D;D;D	0.91635	0.966;0.999;0.992;0.999	T	0.45977	-0.9224	10	0.26408	T	0.33	-0.0635	8.4637	0.32942	0.7018:0.0:0.2982:0.0	.	173;192;192;219	Q2TU37;Q5SZL5;Q9P0N9-2;Q9P0N9	.;.;.;TBCD7_HUMAN	R	160;219;219;192;173;192;192;219;192;192	ENSP00000348813:S219R;ENSP00000368602:S219R;ENSP00000368609:S192R;ENSP00000343100:S173R;ENSP00000414292:S192R;ENSP00000404680:S192R;ENSP00000394425:S219R;ENSP00000417005:S192R;ENSP00000412102:S192R	ENSP00000334212:S160R	S	-	3	2	TBC1D7	13415819	1.000000	0.71417	0.997000	0.53966	0.994000	0.84299	1.781000	0.38644	0.177000	0.19895	0.533000	0.62120	AGT		0.478	TBC1D7-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039896.2	NM_016495		T	13307840	A	T	13307840	3	4	688	1	0	0	0	0	1	0	0	0	15636	40	2	5	236	5	TBC1D7	6	13307840	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10		13307840	157807227	36	44626										
SESN1	27244	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	109309823	109309823	+	Frame_Shift_Del	DEL	T	T	-													0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	ttcaggagtgcaaacaacagTtttgatataaactttaaagc							TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr6:109309823delT	ENST00000356644.7	-	9	1409	c.1315delA	c.(1315-1317)actfs	p.T439fs	SESN1_ENST00000302071.2_Frame_Shift_Del_p.T373fs|SESN1_ENST00000436639.2_Frame_Shift_Del_p.T498fs	NM_001199933.1	NP_001186862.1	Q9Y6P5	SESN1_HUMAN	sestrin 1	439					cell cycle arrest (GO:0007050)|cellular response to DNA damage stimulus (GO:0006974)|negative regulation of cell proliferation (GO:0008285)|regulation of protein kinase B signaling (GO:0051896)|regulation of response to reactive oxygen species (GO:1901031)	nucleus (GO:0005634)				cervix(1)|large_intestine(3)|lung(3)|ovary(1)|skin(1)|urinary_tract(1)	10		all_cancers(87;6.45e-05)|Acute lymphoblastic leukemia(125;3.55e-10)|all_hematologic(75;1.68e-07)|all_epithelial(87;0.0106)|Colorectal(196;0.0637)		Epithelial(106;0.0014)|BRCA - Breast invasive adenocarcinoma(108;0.00146)|all cancers(137;0.0031)|OV - Ovarian serous cystadenocarcinoma(136;0.0117)		CAAACAACAGTTTTGATATAA	0.343																																																0													83	75	77					6																	109309823		2203	4300	6503	SO:0001589	frameshift_variant	27244			AF033120	CCDS5070.1, CCDS56444.1, CCDS56445.1	6q21	2008-10-23			ENSG00000080546	ENSG00000080546			21595	protein-coding gene	gene with protein product		606103				9926927, 7938006	Standard	NM_014454		Approved	SEST1, PA26	uc003psu.3	Q9Y6P5	OTTHUMG00000015338	ENST00000356644.7:c.1315delA	6.37:g.109309823delT	ENSP00000349061:p.Thr439fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M2B7|Q5T316|Q9NV00|Q9UPD5|Q9Y6P6	Frame_Shift_Del	DEL	ENST00000356644.7	37	CCDS56445.1																																																																																				0.343	SESN1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000041738.4	NM_014454		-	109309823	T	-	109309823	7	5	688	1	0	1	0	1	0	0	0	0	14137	1725	60	0	171	0	SESN1	6	109309823	Frame_Shift_Del	DEL	T	TCGA-KV-A6GD-01A-11D-A31X-10	96001983	109309823	61805244	37	44627										
HIVEP2	3097	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	143090738	143090738	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	atgtaagcttgccggttccaGgcctatgcatagcagccaga	11	11	0	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr6:143090738G>T	ENST00000367604.1	-	4	5777	c.5138C>A	c.(5137-5139)cCt>cAt	p.P1713H	HIVEP2_ENST00000367603.2_Missense_Mutation_p.P1713H|HIVEP2_ENST00000012134.2_Missense_Mutation_p.P1713H			P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer binding protein 2	1713					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(2)|breast(4)|central_nervous_system(6)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(19)|lung(35)|ovary(4)|prostate(6)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	100				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		GCCGGTTCCAGGCCTATGCAT	0.433																																					Esophageal Squamous(107;843 1510 13293 16805 42198)											0													118	109	112					6																	143090738		1861	4116	5977	SO:0001583	missense	3097			M60119	CCDS43510.1	6q23-q24	2013-01-08	2001-11-28		ENSG00000010818	ENSG00000010818		"Zinc fingers, C2H2-type"	4921	protein-coding gene	gene with protein product	"c-myc intron binding protein 1"	143054	"human immunodeficiency virus type I enhancer-binding protein 2"			1733857, 2022670	Standard	NM_006734		Approved	MBP-2, HIV-EP2, MIBP1, ZAS2, Schnurri-2, ZNF40B	uc003qjd.3	P31629	OTTHUMG00000015713	ENST00000367604.1:c.5138C>A	6.37:g.143090738G>T	ENSP00000356576:p.Pro1713His	Somatic		WXS	Illumina HiSeq	Phase_I	Q02646|Q5THT5|Q9NS05	Missense_Mutation	SNP	ENST00000367604.1	37	CCDS43510.1	.	.	.	.	.	.	.	.	.	.	G	16.83	3.231189	0.58777	.	.	ENSG00000010818	ENST00000367604;ENST00000367603;ENST00000012134	T;T;T	0.02863	4.13;4.13;4.13	5.95	4.11	0.48088	.	0.192613	0.56097	D	0.000024	T	0.04907	0.0132	M	0.72894	2.215	0.47407	D	0.999417	D	0.67145	0.996	P	0.58013	0.831	T	0.10019	-1.0648	10	0.87932	D	0	-17.5678	8.3283	0.32171	0.135:0.1282:0.7368:0.0	.	1713	P31629	ZEP2_HUMAN	H	1713	ENSP00000356576:P1713H;ENSP00000356575:P1713H;ENSP00000012134:P1713H	ENSP00000012134:P1713H	P	-	2	0	HIVEP2	143132431	1.000000	0.71417	0.975000	0.42487	0.991000	0.79684	6.728000	0.74769	1.514000	0.48869	0.655000	0.94253	CCT		0.433	HIVEP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042495.1			T	143090738	G	T	143090738	3	4	688	1	0	0	0	0	1	0	0	0	7194	1000	35	4	2226	4	HIVEP2	6	143090738	Missense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	33780915	143090738	28024329	38	44628										
EIF2AK1	27102	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	6084205	6084205	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cggcttacctcgtggctgaaTcacatgaacatgttctatcc	8	12	2	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr7:6084205T>G	ENST00000199389.6	-	7	864	c.718A>C	c.(718-720)Att>Ctt	p.I240L	EIF2AK1_ENST00000536084.1_Missense_Mutation_p.I116L|EIF2AK1_ENST00000495565.1_5'UTR	NM_001134335.1|NM_014413.3	NP_001127807.1|NP_055228.2	Q9BQI3	E2AK1_HUMAN	eukaryotic translation initiation factor 2-alpha kinase 1	240	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				negative regulation of cell proliferation (GO:0008285)|negative regulation of hemoglobin biosynthetic process (GO:0046986)|negative regulation of translational initiation by iron (GO:0045993)|protein autophosphorylation (GO:0046777)|protoporphyrinogen IX metabolic process (GO:0046501)|regulation of eIF2 alpha phosphorylation by heme (GO:0010999)|response to external stimulus (GO:0009605)|response to stress (GO:0006950)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|eukaryotic translation initiation factor 2alpha kinase activity (GO:0004694)|heme binding (GO:0020037)|protein homodimerization activity (GO:0042803)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(10)|prostate(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(2)	27		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.106)|OV - Ovarian serous cystadenocarcinoma(56;5.22e-14)		CGTGGCTGAATCACATGAACA	0.468																																																0													99	79	86					7																	6084205		2203	4300	6503	SO:0001583	missense	27102			BC006524	CCDS5345.1	7p22	2005-01-20			ENSG00000086232	ENSG00000086232			24921	protein-coding gene	gene with protein product	"heme regulated initiation factor 2 alpha kinase"	613635				7709427, 10718198	Standard	NM_014413		Approved	HRI, KIAA1369	uc003spp.3	Q9BQI3	OTTHUMG00000090689	ENST00000199389.6:c.718A>C	7.37:g.6084205T>G	ENSP00000199389:p.Ile240Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2R2|Q549K6|Q8NBW3|Q9HC02|Q9NYE0|Q9P0V6|Q9P1J5|Q9P2H8|Q9UHG4	Missense_Mutation	SNP	ENST00000199389.6	37	CCDS5345.1	.	.	.	.	.	.	.	.	.	.	.	1.012	-0.687440	0.03328	.	.	ENSG00000086232	ENST00000199389;ENST00000536084	T;T	0.14144	2.53;2.53	5.2	2.36	0.29203	Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.526065	0.21443	N	0.074457	T	0.06826	0.0174	N	0.17723	0.515	0.09310	N	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.11329	0.006;0.002;0.002	T	0.42932	-0.9422	10	0.11485	T	0.65	-0.4159	5.4401	0.16504	0.0:0.4964:0.2696:0.234	.	116;240;240	B4DIP4;Q9BQI3-2;Q9BQI3	.;.;E2AK1_HUMAN	L	240;116	ENSP00000199389:I240L;ENSP00000445784:I116L	ENSP00000199389:I240L	I	-	1	0	EIF2AK1	6050731	0.000000	0.05858	0.062000	0.19696	0.277000	0.26821	-0.787000	0.04618	0.180000	0.19960	-0.248000	0.11899	ATT		0.468	EIF2AK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207373.2	NM_014413		G	6084205	T	G	6084205	3	3	688	1	0	0	0	0	1	0	0	0	4998	1435	50	5	1210	5	EIF2AK1	7	6084205	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10		6084205	153054458	39	44629										
CLCN1	1180	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	143049049	143049049	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	gaggaggatgaggatgaactGatcctttgaccccctcccac	11	12	0	4			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr7:143049049G>A	ENST00000343257.2	+	23	3045	c.2958G>A	c.(2956-2958)ctG>ctA	p.L986L		NM_000083.2	NP_000074	P35523	CLCN1_HUMAN	chloride channel, voltage-sensitive 1	986					chloride transmembrane transport (GO:1902476)|ion transmembrane transport (GO:0034220)|muscle contraction (GO:0006936)|neuronal action potential propagation (GO:0019227)|regulation of anion transport (GO:0044070)|transmembrane transport (GO:0055085)|transport (GO:0006810)	chloride channel complex (GO:0034707)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)	adenyl nucleotide binding (GO:0030554)|chloride channel activity (GO:0005254)|voltage-gated chloride channel activity (GO:0005247)			breast(4)|central_nervous_system(1)|endometrium(1)|large_intestine(11)|lung(26)|ovary(3)|prostate(2)|skin(7)|stomach(1)|upper_aerodigestive_tract(2)	58	Melanoma(164;0.205)					AGGATGAACTGATCCTTTGAC	0.617																																																0													85	83	84					7																	143049049		2203	4300	6503	SO:0001819	synonymous_variant	1180			Z25884	CCDS5881.1	7q12	2012-09-26	2012-02-23		ENSG00000188037	ENSG00000188037		"Ion channels / Chloride channels : Voltage-sensitive"	2019	protein-coding gene	gene with protein product	"Thomsen disease, autosomal dominant"	118425	"chloride channel 1, skeletal muscle"			1379744	Standard	NM_000083		Approved	CLC1, ClC-1	uc003wcr.1	P35523	OTTHUMG00000152695	ENST00000343257.2:c.2958G>A	7.37:g.143049049G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D2H5|Q2M202	Silent	SNP	ENST00000343257.2	37	CCDS5881.1																																																																																				0.617	CLCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000327420.1	NM_000083		A	143049049	G	A	143049049	2	1	688	1	0	0	0	0	0	0	0	1	3464	1277	45	2		2	CLCN1	7	143049049	Silent	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	136964844	143049049	16089614	40	44630										
ANK1	286	ucsc.edu	37	chr8	41566447	41566447	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	gcagcagactacgggccaccTccacctggttctgcttggca	11	15	1	1	rs372122833		TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr8:41566447T>C	ENST00000347528.4	-	17	1930	c.1847A>G	c.(1846-1848)gAg>gGg	p.E616G	ANK1_ENST00000396942.1_Missense_Mutation_p.E616G|ANK1_ENST00000289734.7_Missense_Mutation_p.E616G|ANK1_ENST00000379758.2_Missense_Mutation_p.E616G|ANK1_ENST00000265709.8_Missense_Mutation_p.E649G|ANK1_ENST00000352337.4_Missense_Mutation_p.E616G|ANK1_ENST00000396945.1_Missense_Mutation_p.E616G	NM_020475.2|NM_020476.2|NM_020477.2	NP_065208.2|NP_065209.2|NP_065210.2	P16157	ANK1_HUMAN	ankyrin 1, erythrocytic	616	89 kDa domain.				axon guidance (GO:0007411)|cytoskeleton organization (GO:0007010)|ER to Golgi vesicle-mediated transport (GO:0006888)|erythrocyte development (GO:0048821)|exocytosis (GO:0006887)|maintenance of epithelial cell apical/basal polarity (GO:0045199)|monovalent inorganic cation transport (GO:0015672)|porphyrin-containing compound biosynthetic process (GO:0006779)|positive regulation of organelle organization (GO:0010638)|protein targeting to plasma membrane (GO:0072661)|signal transduction (GO:0007165)	axolemma (GO:0030673)|basolateral plasma membrane (GO:0016323)|cortical cytoskeleton (GO:0030863)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|M band (GO:0031430)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|sarcoplasmic reticulum (GO:0016529)|spectrin-associated cytoskeleton (GO:0014731)|Z disc (GO:0030018)	ATPase binding (GO:0051117)|cytoskeletal adaptor activity (GO:0008093)|enzyme binding (GO:0019899)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			breast(5)|central_nervous_system(4)|endometrium(9)|kidney(1)|large_intestine(26)|lung(62)|ovary(3)|prostate(5)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	122	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)			ACGGGCCACCTCCACCTGGTT	0.607																																																0													80	71	74					8																	41566447		2203	4300	6503	SO:0001583	missense	286			M28880	CCDS6119.1, CCDS6121.1, CCDS6122.1, CCDS47849.1, CCDS55227.1	8p11.21	2013-01-10			ENSG00000029534	ENSG00000029534		"Ankyrin repeat domain containing"	492	protein-coding gene	gene with protein product		612641		ANK		1689849	Standard	NM_001142445		Approved	SPH1	uc003xom.3	P16157	OTTHUMG00000150281	ENST00000347528.4:c.1847A>G	8.37:g.41566447T>C	ENSP00000339620:p.Glu616Gly	Somatic		WXS	Illumina HiSeq		A0PJN8|A6NJ23|E5RFL7|O43400|Q13768|Q53ER1|Q59FP2|Q8N604|Q99407	Missense_Mutation	SNP	ENST00000347528.4	37	CCDS6119.1	.	.	.	.	.	.	.	.	.	.	T	21.7	4.194486	0.78902	.	.	ENSG00000029534	ENST00000347528;ENST00000289734;ENST00000379758;ENST00000396945;ENST00000396942;ENST00000352337;ENST00000265709;ENST00000358820	T;T;T;T;T;T;T	0.70045	-0.45;-0.45;-0.45;-0.45;-0.45;-0.45;-0.45	5.51	5.51	0.81932	Ankyrin repeat-containing domain (3);	0.102848	0.64402	D	0.000003	T	0.64057	0.2564	L	0.45470	1.425	0.80722	D	1	P;P;B;B;P	0.40107	0.703;0.664;0.027;0.354;0.703	B;B;B;B;B	0.40410	0.328;0.188;0.023;0.048;0.328	T	0.69011	-0.5258	10	0.87932	D	0	.	15.6125	0.76737	0.0:0.0:0.0:1.0	.	649;616;616;616;616	P16157-21;P16157-4;P16157;P16157-5;P16157-3	.;.;ANK1_HUMAN;.;.	G	616;616;616;616;616;616;649;616	ENSP00000339620:E616G;ENSP00000289734:E616G;ENSP00000369082:E616G;ENSP00000380149:E616G;ENSP00000380147:E616G;ENSP00000309131:E616G;ENSP00000265709:E649G	ENSP00000265709:E649G	E	-	2	0	ANK1	41685604	1.000000	0.71417	1.000000	0.80357	0.874000	0.50279	6.276000	0.72601	2.091000	0.63221	0.459000	0.35465	GAG		0.607	ANK1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000317297.1	NM_020475		C	41566447	T	C	41566447	3	2	688	1	0	0	0	0	1	0	0	0	620	1551	54	3	4256	3	ANK1	8	41566447	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10		41566447	104797575	41	44631										
UBR5	51366	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	103287958	103287958	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	atccaggttctgctccaacaTcttccatgaataccctgccg	6	15	2	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr8:103287958T>C	ENST00000520539.1	-	46	7214	c.6608A>G	c.(6607-6609)gAt>gGt	p.D2203G	UBR5_ENST00000521922.1_Missense_Mutation_p.D2197G|UBR5_ENST00000220959.4_Missense_Mutation_p.D2203G|UBR5_ENST00000518205.1_5'Flank	NM_001282873.1|NM_015902.5	NP_001269802.1|NP_056986.2	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin 5	2203					cell proliferation (GO:0008283)|cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|negative regulation of double-strand break repair (GO:2000780)|negative regulation of histone H2A K63-linked ubiquitination (GO:1901315)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of catenin import into nucleus (GO:0035413)|positive regulation of protein import into nucleus, translocation (GO:0033160)|progesterone receptor signaling pathway (GO:0050847)|protein polyubiquitination (GO:0000209)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	ligase activity (GO:0016874)|RNA binding (GO:0003723)|ubiquitin-protein transferase activity (GO:0004842)|ubiquitin-ubiquitin ligase activity (GO:0034450)|zinc ion binding (GO:0008270)			NS(1)|breast(13)|central_nervous_system(1)|cervix(1)|endometrium(7)|kidney(8)|large_intestine(19)|liver(1)|lung(51)|ovary(6)|pancreas(1)|prostate(5)|skin(6)|upper_aerodigestive_tract(2)|urinary_tract(2)	124	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			TGCTCCAACATCTTCCATGAA	0.418																																					Ovarian(131;96 1741 5634 7352 27489)											0													97	83	88					8																	103287958		2203	4300	6503	SO:0001583	missense	51366			AF006010	CCDS34933.1, CCDS64946.1	8q22	2008-06-23	2007-06-19	2007-06-19	ENSG00000104517	ENSG00000104517		"Ubiquitin protein ligase E3 component n-recognins"	16806	protein-coding gene	gene with protein product		608413	"E3 ubiquitin protein ligase, HECT domain containing, 1"	EDD1		10030672, 16055722	Standard	NM_015902		Approved	DD5, HYD, EDD, KIAA0896	uc003ykr.2	O95071	OTTHUMG00000164755	ENST00000520539.1:c.6608A>G	8.37:g.103287958T>C	ENSP00000429084:p.Asp2203Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP24|J3KMW7|O94970|Q9NPL3	Missense_Mutation	SNP	ENST00000520539.1	37	CCDS34933.1	.	.	.	.	.	.	.	.	.	.	T	26.6	4.749637	0.89753	.	.	ENSG00000104517	ENST00000520539;ENST00000220959;ENST00000521922;ENST00000521566	T;T;T	0.54071	0.59;0.6;0.6	5.36	5.36	0.76844	.	0.000000	0.85682	D	0.000000	T	0.69278	0.3093	M	0.67397	2.05	0.58432	D	0.999999	D;D	0.65815	0.995;0.972	D;P	0.64687	0.928;0.871	T	0.73285	-0.4031	10	0.87932	D	0	.	15.3625	0.74492	0.0:0.0:0.0:1.0	.	2197;2203	E7EMW7;O95071	.;UBR5_HUMAN	G	2203;2203;2197;28	ENSP00000429084:D2203G;ENSP00000220959:D2203G;ENSP00000427819:D2197G	ENSP00000220959:D2203G	D	-	2	0	UBR5	103357134	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.698000	0.84413	2.046000	0.60703	0.528000	0.53228	GAT		0.418	UBR5-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000380075.2	NM_015902		C	103287958	T	C	103287958	3	2	688	1	0	0	0	0	1	0	0	0	16917	1435	50	3	1847	3	UBR5	8	103287958	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10	61721511	103287958	43076064	42	44632										
SNTB1	6641	broad.mit.edu	37	chr8	121706046	121706046	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	atgacggggggtctgaggtgCtgccccctaaccgaggggat	17	10	1	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr8:121706046C>T	ENST00000395601.3	-	3	1088	c.674G>A	c.(673-675)aGc>aAc	p.S225N	SNTB1_ENST00000519177.1_5'UTR|SNTB1_ENST00000517992.1_Missense_Mutation_p.S225N	NM_021021.3	NP_066301.1	Q13884	SNTB1_HUMAN	syntrophin, beta 1 (dystrophin-associated protein A1, 59kDa, basic component 1)	225	PH 1. {ECO:0000255|PROSITE- ProRule:PRU00145}.				muscle contraction (GO:0006936)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|dystrophin-associated glycoprotein complex (GO:0016010)|focal adhesion (GO:0005925)|protein complex (GO:0043234)|synapse (GO:0045202)				NS(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(10)|prostate(2)|skin(6)	24	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)			GTCTGAGGTGCTGCCCCCTAA	0.572																																																0													96	93	94					8																	121706046		2203	4300	6503	SO:0001583	missense	6641			AF028828	CCDS6334.1	8q23-q24	2013-01-10	2002-08-29		ENSG00000172164	ENSG00000172164		"Pleckstrin homology (PH) domain containing"	11168	protein-coding gene	gene with protein product	"tax interaction protein 43"	600026	"syntrophin, beta 1 (dystrophin-associated protein A1, 59kD, basic component 1)"	SNT2B1		8183929, 9482110	Standard	NM_021021		Approved	59-DAP, A1B, BSYN2, TIP-43, SNT2	uc010mdg.3	Q13884	OTTHUMG00000165041	ENST00000395601.3:c.674G>A	8.37:g.121706046C>T	ENSP00000378965:p.Ser225Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9E0|O14912|Q4KMG8	Missense_Mutation	SNP	ENST00000395601.3	37	CCDS6334.1	.	.	.	.	.	.	.	.	.	.	C	7.745	0.702140	0.15172	.	.	ENSG00000172164	ENST00000395601;ENST00000517992	T;T	0.54479	0.57;0.57	5.96	4.09	0.47781	Pleckstrin homology domain (2);	0.980591	0.08401	N	0.951494	T	0.40791	0.1131	N	0.24115	0.695	0.09310	N	1	B;B	0.23806	0.015;0.091	B;B	0.15870	0.011;0.014	T	0.25047	-1.0143	10	0.39692	T	0.17	.	11.9555	0.52978	0.0998:0.5015:0.3986:0.0	.	225;225	Q13884;Q13884-2	SNTB1_HUMAN;.	N	225	ENSP00000378965:S225N;ENSP00000431124:S225N	ENSP00000378965:S225N	S	-	2	0	SNTB1	121775227	0.125000	0.22332	0.041000	0.18516	0.069000	0.16628	2.938000	0.48987	1.476000	0.48215	0.655000	0.94253	AGC		0.572	SNTB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381535.1	NM_021021		T	121706046	C	T	121706046	3	4	688	1	0	0	0	0	1	0	0	0	14885	797	28	2	966	2	SNTB1	8	121706046	Missense_Mutation	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	18418088	121706046	24657976	43	44633										
TRPM3	80036	broad.mit.edu;bcgsc.ca	37	chr9	73151135	73151136	+	Frame_Shift_Ins	INS	-	-	T													0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	ttgttggacagggttctctcINStgagttatcaccctcctggg							TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr9:73151135_73151136insT	ENST00000377110.3	-	25	5100_5101	c.4857_4858insA	c.(4855-4860)tcagagfs	p.E1620fs	TRPM3_ENST00000423814.3_Frame_Shift_Ins_p.E1647fs|TRPM3_ENST00000377106.1_Frame_Shift_Ins_p.E1492fs|TRPM3_ENST00000358082.3_Frame_Shift_Ins_p.E1482fs|TRPM3_ENST00000357533.2_Frame_Shift_Ins_p.E1624fs|TRPM3_ENST00000396280.5_Frame_Shift_Ins_p.E1469fs|TRPM3_ENST00000377111.2_Intron|TRPM3_ENST00000377105.1_Frame_Shift_Ins_p.E1479fs|TRPM3_ENST00000396292.4_Frame_Shift_Ins_p.E1492fs|TRPM3_ENST00000408909.2_Frame_Shift_Ins_p.E1479fs|TRPM3_ENST00000360823.2_Frame_Shift_Ins_p.E1482fs|TRPM3_ENST00000396285.1_Frame_Shift_Ins_p.E1479fs			Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel, subfamily M, member 3	1645					calcium ion transmembrane transport (GO:0070588)|cation transport (GO:0006812)|detection of temperature stimulus (GO:0016048)|ion transmembrane transport (GO:0034220)|sensory perception of temperature stimulus (GO:0050951)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium activated cation channel activity (GO:0005227)|calcium channel activity (GO:0005262)|cation channel activity (GO:0005261)			NS(2)|breast(4)|central_nervous_system(2)|endometrium(6)|kidney(1)|large_intestine(18)|liver(1)|lung(46)|ovary(3)|pancreas(2)|prostate(5)|skin(4)|urinary_tract(1)	95						AGGGTTCTCTCTGAGTTATCAC	0.55																																																0																																										SO:0001589	frameshift_variant	80036			AB046836	CCDS6634.1, CCDS6635.1, CCDS6636.1, CCDS6637.1, CCDS43835.1, CCDS65064.1	9q21.11	2011-12-14			ENSG00000083067	ENSG00000083067		"Voltage-gated ion channels / Transient receptor potential cation channels"	17992	protein-coding gene	gene with protein product	"melastatin 2"	608961				16382100	Standard	NM_206946		Approved	KIAA1616, LTRPC3, GON-2	uc004aid.3	Q9HCF6	OTTHUMG00000019997	ENST00000377110.3:c.4858dupA	9.37:g.73151136_73151136dupT	ENSP00000366314:p.Glu1620fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3F6|A9Z1Y7|Q5VW02|Q5VW03|Q5VW04|Q5W5T7|Q86SH0|Q86SH6|Q86UL0|Q86WK1|Q86WK2|Q86WK3|Q86WK4|Q86YZ9|Q86Z00|Q86Z01|Q9H0X2	Frame_Shift_Ins	INS	ENST00000377110.3	37	CCDS43835.1																																																																																				0.55	TRPM3-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214158.3	NM_206945		T	73151136	-	T	73151135	7	5	688	1	0	1	1	0	0	0	0	0	16599	922	32	0	269	0	TRPM3	9	73151135	Frame_Shift_Ins	INS	-	TCGA-KV-A6GD-01A-11D-A31X-10		73151135	68062296	44	44634										
CTSL1	1514	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	90344596	90344596	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	aggcagttgcaactgtggggCccatttctgttgctattgat	12	8	1	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr9:90344596C>T	ENST00000343150.5	+	6	1620	c.730C>T	c.(730-732)Ccc>Tcc	p.P244S	CTSL_ENST00000340342.6_Missense_Mutation_p.P244S|CTSL_ENST00000495822.1_3'UTR			P07711	CATL1_HUMAN	cathepsin L	244					adaptive immune response (GO:0002250)|antigen processing and presentation (GO:0019882)|antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cellular response to thyroid hormone stimulus (GO:0097067)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|innate immune response (GO:0045087)|macrophage apoptotic process (GO:0071888)|proteolysis (GO:0006508)|proteolysis involved in cellular protein catabolic process (GO:0051603)|toll-like receptor signaling pathway (GO:0002224)	endolysosome lumen (GO:0036021)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)|lysosome (GO:0005764)|nucleus (GO:0005634)	collagen binding (GO:0005518)|cysteine-type endopeptidase activity (GO:0004197)|cysteine-type peptidase activity (GO:0008234)|fibronectin binding (GO:0001968)|histone binding (GO:0042393)|proteoglycan binding (GO:0043394)										AACTGTGGGGCCCATTTCTGT	0.428																																																0													153	147	149					9																	90344596		2203	4300	6503	SO:0001583	missense	1514			X12451	CCDS6675.1	9q21.33	2013-06-27	2013-06-27	2013-06-27	ENSG00000135047	ENSG00000135047	3.4.22.15	"Cathepsins"	2537	protein-coding gene	gene with protein product		116880	"cathepsin L1"	CTSL1		8419312, 2835398	Standard	NM_145918		Approved	FLJ31037	uc004apk.4	P07711	OTTHUMG00000020149	ENST00000343150.5:c.730C>T	9.37:g.90344596C>T	ENSP00000345344:p.Pro244Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IAV1|Q96QJ0	Missense_Mutation	SNP	ENST00000343150.5	37	CCDS6675.1	.	.	.	.	.	.	.	.	.	.	C	18.16	3.562005	0.65538	.	.	ENSG00000135047	ENST00000343150;ENST00000340342	T;T	0.58652	0.32;0.32	4.19	4.19	0.49359	Peptidase C1A, papain C-terminal (2);	0.000000	0.85682	D	0.000000	D	0.86167	0.5868	H	0.99156	4.45	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.92638	0.6122	10	0.87932	D	0	.	16.7092	0.85380	0.0:1.0:0.0:0.0	.	244	P07711	CATL1_HUMAN	S	244	ENSP00000345344:P244S;ENSP00000365061:P244S	ENSP00000365061:P244S	P	+	1	0	CTSL1	89534416	1.000000	0.71417	0.118000	0.21660	0.300000	0.27592	6.804000	0.75186	2.134000	0.65973	0.655000	0.94253	CCC		0.428	CTSL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052936.1	NM_001912		T	90344596	C	T	90344596	3	4	688	1	0	0	0	0	1	0	0	0	4040	739	26	2	748	2	CTSL1	9	90344596	Missense_Mutation	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	17193461	90344596	50868835	45	44635										
CSGALNACT2	55454	broad.mit.edu	37	chr10	43659419	43659419	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	tgggacaagggagaggtcttGatgtttttctgtgatgttga	15	3	2	4	rs79064394		TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr10:43659419G>T	ENST00000374466.3	+	5	1421	c.1086G>T	c.(1084-1086)ttG>ttT	p.L362F		NM_018590.3	NP_061060.3	Q8N6G5	CGAT2_HUMAN	chondroitin sulfate N-acetylgalactosaminyltransferase 2	362					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|chondroitin sulfate proteoglycan biosynthetic process (GO:0050650)|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050653)|dermatan sulfate proteoglycan biosynthetic process (GO:0050651)|dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050652)|glycosaminoglycan metabolic process (GO:0030203)|proteoglycan biosynthetic process (GO:0030166)|small molecule metabolic process (GO:0044281)	Golgi cisterna membrane (GO:0032580)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)|membrane (GO:0016020)	acetylgalactosaminyltransferase activity (GO:0008376)|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity (GO:0047237)|metal ion binding (GO:0046872)	p.L362F(5)		endometrium(12)|kidney(3)|large_intestine(5)|lung(16)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	42						GAGAGGTCTTGATGTTTTTCT	0.433																																																5	Substitution - Missense(5)	endometrium(4)|kidney(1)											223	221	222					10																	43659419		2203	4300	6503	SO:0001583	missense	55454			AF116646	CCDS7201.1	10q11.21	2013-02-19			ENSG00000169826	ENSG00000169826		"Beta 4-glycosyltransferases"	24292	protein-coding gene	gene with protein product	"chondroitin beta1,4 N-acetylgalactosaminyltransferase 2"					12446672	Standard	NM_018590		Approved	GALNACT2, MGC40204, PRO0082, GALNACT-2	uc001jan.4	Q8N6G5	OTTHUMG00000018023	ENST00000374466.3:c.1086G>T	10.37:g.43659419G>T	ENSP00000363590:p.Leu362Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWL7|Q6MZJ5|Q6MZP6|Q8TCH4|Q9P1I6	Missense_Mutation	SNP	ENST00000374466.3	37	CCDS7201.1	.	.	.	.	.	.	.	.	.	.	G	24.2	4.499782	0.85176	.	.	ENSG00000169826	ENST00000374466	T	0.27256	1.68	6.08	5.17	0.71159	.	0.064535	0.64402	D	0.000004	T	0.57359	0.2048	M	0.89095	3.005	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.63721	-0.6573	10	0.87932	D	0	-11.7375	14.8306	0.70146	0.0683:0.0:0.9317:0.0	.	362	Q8N6G5	CGAT2_HUMAN	F	362	ENSP00000363590:L362F	ENSP00000363590:L362F	L	+	3	2	CSGALNACT2	42979425	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.683000	0.37638	2.894000	0.99253	0.591000	0.81541	TTG		0.433	CSGALNACT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047693.1	NM_018590		T	43659419	G	T	43659419	3	4	688	1	0	0	0	0	1	0	0	0	3941	1281	45	4	1100	4	CSGALNACT2	10	43659419	Missense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10		43659419	91875328	46	44636										
IFIT5	24138	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	91177012	91177012	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	tctgttggagttagaatgtcAttttacatggaatttactta	8	4	2	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr10:91177012A>G	ENST00000371795.4	+	2	269	c.56A>G	c.(55-57)cAt>cGt	p.H19R	IFIT5_ENST00000416601.1_Missense_Mutation_p.H19R|LIPA_ENST00000371837.1_5'Flank	NM_012420.2	NP_036552.1	Q13325	IFIT5_HUMAN	interferon-induced protein with tetratricopeptide repeats 5	19					defense response to virus (GO:0051607)|innate immune response (GO:0045087)	actin cytoskeleton (GO:0015629)|apical part of cell (GO:0045177)|ruffle membrane (GO:0032587)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|single-stranded RNA binding (GO:0003727)|tRNA binding (GO:0000049)			endometrium(1)|large_intestine(4)|lung(4)	9						TTAGAATGTCATTTTACATGG	0.318																																																0													69	71	70					10																	91177012		2203	4300	6503	SO:0001583	missense	24138			U34605	CCDS7403.1	10q23.31	2013-01-10			ENSG00000152778	ENSG00000152778		"Tetratricopeptide (TTC) repeat domain containing"	13328	protein-coding gene	gene with protein product	"retinoic acid- and interferon-inducible protein (58kD)"					9398535	Standard	NM_012420		Approved	RI58	uc010qnh.2	Q13325	OTTHUMG00000018713	ENST00000371795.4:c.56A>G	10.37:g.91177012A>G	ENSP00000360860:p.His19Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5X9|B4DDV1|Q5T7I9|Q6IAX3	Missense_Mutation	SNP	ENST00000371795.4	37	CCDS7403.1	.	.	.	.	.	.	.	.	.	.	A	19.78	3.890598	0.72524	.	.	ENSG00000152778	ENST00000371795;ENST00000416601	T;T	0.60797	0.16;0.16	6.16	6.16	0.99307	.	0.045911	0.85682	D	0.000000	T	0.77253	0.4103	M	0.80847	2.515	0.53688	D	0.999979	D;D	0.89917	1.0;1.0	D;D	0.71414	0.973;0.973	T	0.80284	-0.1447	10	0.87932	D	0	-13.583	15.9872	0.80168	1.0:0.0:0.0:0.0	.	19;19	Q13325;B4DDV1	IFIT5_HUMAN;.	R	19	ENSP00000360860:H19R;ENSP00000414042:H19R	ENSP00000360860:H19R	H	+	2	0	IFIT5	91166992	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	5.666000	0.68059	2.367000	0.80283	0.528000	0.53228	CAT		0.318	IFIT5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049303.1	NM_012420		G	91177012	A	G	91177012	3	3	688	1	0	0	0	0	1	0	0	0	7532	217	8	3	62	3	IFIT5	10	91177012	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	47517593	91177012	44357735	47	44637										
XPNPEP1	7511	broad.mit.edu	37	chr10	111642221	111642221	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	tctcgctcacagcatagctgGccttgtcactgacccacacc	7	17	3	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr10:111642221G>A	ENST00000502935.1	-	10	1129	c.1010C>T	c.(1009-1011)gCc>gTc	p.A337V	XPNPEP1_ENST00000430337.1_5'Flank|XPNPEP1_ENST00000369683.1_Missense_Mutation_p.A223V|XPNPEP1_ENST00000322238.8_Missense_Mutation_p.A337V|XPNPEP1_ENST00000369680.4_Missense_Mutation_p.A294V					X-prolyl aminopeptidase (aminopeptidase P) 1, soluble											endometrium(2)|kidney(9)|large_intestine(4)|lung(9)|ovary(3)|pancreas(2)|skin(1)|urinary_tract(1)	31		Breast(234;0.174)		Epithelial(162;1.64e-05)|all cancers(201;0.000564)|BRCA - Breast invasive adenocarcinoma(275;0.0721)		AGCATAGCTGGCCTTGTCACT	0.567																																																0													129	106	114					10																	111642221		2203	4300	6503	SO:0001583	missense	7511				CCDS7560.1, CCDS7560.2, CCDS53576.1	10q25.3	2006-01-16	2002-07-17		ENSG00000108039	ENSG00000108039	3.4.11.9		12822	protein-coding gene	gene with protein product		602443	"X-prolyl aminopeptidase (aminopeptidase P)-like"	XPNPEP, XPNPEPL1, XPNPEPL			Standard	NM_020383		Approved		uc001kyp.2	Q9NQW7	OTTHUMG00000019029	ENST00000502935.1:c.1010C>T	10.37:g.111642221G>A	ENSP00000421566:p.Ala337Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000502935.1	37	CCDS7560.2	.	.	.	.	.	.	.	.	.	.	G	24.3	4.520589	0.85495	.	.	ENSG00000108039	ENST00000502935;ENST00000369683;ENST00000322238;ENST00000369680;ENST00000403138	.	.	.	5.82	5.82	0.92795	.	0.000000	0.85682	D	0.000000	T	0.43656	0.1257	L	0.37561	1.115	0.80722	D	1	B;D;P	0.55605	0.296;0.972;0.898	B;B;B	0.40982	0.017;0.345;0.144	T	0.27872	-1.0061	9	0.15952	T	0.53	-17.9818	18.2859	0.90114	0.0:0.0:1.0:0.0	.	337;337;294	B4E2P4;G5E9Y2;Q9NQW7	.;.;XPP1_HUMAN	V	337;223;337;294;294	.	ENSP00000324011:A337V	A	-	2	0	XPNPEP1	111632211	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	8.864000	0.92294	2.757000	0.94681	0.655000	0.94253	GCC		0.567	XPNPEP1-015	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000050264.2			A	111642221	G	A	111642221	3	1	688	1	0	0	0	0	1	0	0	0	17454	1203	42	2	1038	2	XPNPEP1	10	111642221	Missense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	20465209	111642221	23892526	48	44638										
OR52B2	255725	broad.mit.edu	37	chr11	6191110	6191110	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cagaagcttcgggtgatgacGgccagagcaatcctccccac	11	14	0	4	rs369907116		TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:6191110G>A	ENST00000530810.1	-	1	528	c.447C>T	c.(445-447)gcC>gcT	p.A149A	RP11-290F24.3_ENST00000529961.1_RNA	NM_001004052.1	NP_001004052.1	Q96RD2	O52B2_HUMAN	olfactory receptor, family 52, subfamily B, member 2	149						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|central_nervous_system(3)|endometrium(1)|large_intestine(1)|lung(15)	21		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;3.69e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGGTGATGACGGCCAGAGCAA	0.517																																					NSCLC(5;186 261 1778 7098 14207)											0								G		0,4304		0,0,2152	60	61	61		447	4.3	1	11		61	1,8527		0,1,4263	no	coding-synonymous	OR52B2	NM_001004052.1		0,1,6415	AA,AG,GG		0.0117,0.0,0.0078		149/324	6191110	1,12831	2152	4264	6416	SO:0001819	synonymous_variant	255725			AB065763	CCDS53598.1	11p15.4	2012-08-09				ENSG00000255307		"GPCR / Class A : Olfactory receptors"	15207	protein-coding gene	gene with protein product							Standard	NM_001004052		Approved		uc010qzy.2	Q96RD2		ENST00000530810.1:c.447C>T	11.37:g.6191110G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NGM7	Silent	SNP	ENST00000530810.1	37	CCDS53598.1																																																																																				0.517	OR52B2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385977.1	NM_001004052		A	6191110	G	A	6191110	2	1	688	1	0	0	0	0	0	0	0	1	11118	1103	39	1		1	OR52B2	11	6191110	Silent	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10		6191110	128815406	49	44639										
USH1C	10083	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	17542471	17542471	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	agcagtgatggttttaggcaAgagtagctgttcctttgagc	13	6	0	3			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:17542471A>C	ENST00000318024.4	-	14	1264	c.1156T>G	c.(1156-1158)Ttg>Gtg	p.L386V	USH1C_ENST00000005226.7_Missense_Mutation_p.L386V|USH1C_ENST00000527720.1_Missense_Mutation_p.L355V|USH1C_ENST00000527020.1_Missense_Mutation_p.L367V	NM_005709.3	NP_005700.2	Q9Y6N9	USH1C_HUMAN	Usher syndrome 1C (autosomal recessive, severe)	386					auditory receptor cell differentiation (GO:0042491)|equilibrioception (GO:0050957)|G2/M transition of mitotic cell cycle (GO:0000086)|inner ear morphogenesis (GO:0042472)|parallel actin filament bundle assembly (GO:0030046)|photoreceptor cell maintenance (GO:0045494)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)	apical part of cell (GO:0045177)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|photoreceptor inner segment (GO:0001917)|photoreceptor outer segment (GO:0001750)|plasma membrane (GO:0005886)|stereocilium (GO:0032420)|synapse (GO:0045202)	spectrin binding (GO:0030507)			central_nervous_system(2)|endometrium(3)|kidney(2)|large_intestine(9)|lung(25)|ovary(1)|prostate(3)|skin(1)|stomach(1)|urinary_tract(1)	48						GTTTTAGGCAAGAGTAGCTGT	0.488																																																0													457	438	444					11																	17542471		2200	4293	6493	SO:0001583	missense	10083			AB006955	CCDS7825.1, CCDS31438.1, CCDS73265.1	11p14.3	2013-06-19	2004-05-19		ENSG00000006611	ENSG00000006611			12597	protein-coding gene	gene with protein product	"harmonin"	605242	"deafness, autosomal recessive 18"	DFNB18		10973247, 12107438	Standard	NM_005709		Approved	PDZ73, harmonin, NY-CO-37, NY-CO-38, PDZ-73, AIE-75, PDZD7C	uc001mne.3	Q9Y6N9	OTTHUMG00000166323	ENST00000318024.4:c.1156T>G	11.37:g.17542471A>C	ENSP00000317018:p.Leu386Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K423|Q7RTU8|Q96B29|Q9UM04|Q9UM17|Q9UPC3	Missense_Mutation	SNP	ENST00000318024.4	37	CCDS31438.1	.	.	.	.	.	.	.	.	.	.	A	9.184	1.024225	0.19433	.	.	ENSG00000006611	ENST00000318024;ENST00000527720;ENST00000527020;ENST00000005226	T;T;T;T	0.63913	1.77;1.77;2.01;-0.07	5.7	-8.8	0.00817	.	0.781295	0.12318	N	0.479554	T	0.26159	0.0638	N	0.08118	0	0.09310	N	1	B;B;B	0.14438	0.01;0.006;0.0	B;B;B	0.15870	0.014;0.006;0.001	T	0.28554	-1.0040	10	0.11485	T	0.65	.	3.9214	0.09245	0.2554:0.0946:0.4467:0.2034	.	367;386;386	Q9Y6N9-4;Q9Y6N9;Q7RTU8	.;USH1C_HUMAN;.	V	386;355;367;386	ENSP00000317018:L386V;ENSP00000432944:L355V;ENSP00000436934:L367V;ENSP00000005226:L386V	ENSP00000005226:L386V	L	-	1	2	USH1C	17499047	0.000000	0.05858	0.002000	0.10522	0.642000	0.38348	-1.114000	0.03293	-1.238000	0.02535	-1.039000	0.02377	TTG		0.488	USH1C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000389146.1	NM_005709		C	17542471	A	C	17542471	3	2	688	1	0	0	0	0	1	0	0	0	17046	69	3	5	1677	5	USH1C	11	17542471	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	11351361	17542471	117464045	50	44640										
OR5M3	219482	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	56237348	56237348	+	Missense_Mutation	SNP	A	A	T													0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	aagagatgataattacagtcAgggaatatgtgaagttaatg							TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:56237348A>T	ENST00000312240.2	-	1	666	c.626T>A	c.(625-627)cTg>cAg	p.L209Q		NM_001004742.2	NP_001004742.2	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M, member 3	209						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|central_nervous_system(2)|endometrium(2)|large_intestine(7)|lung(15)|ovary(2)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	37	Esophageal squamous(21;0.00448)					AATTACAGTCAGGGAATATGT	0.438																																																0													111	109	110					11																	56237348		2201	4296	6497	SO:0001583	missense	219482			AB065746	CCDS31532.1	11q11	2012-08-09			ENSG00000174937	ENSG00000174937		"GPCR / Class A : Olfactory receptors"	14806	protein-coding gene	gene with protein product							Standard	NM_001004742		Approved		uc010rjk.2	Q8NGP4	OTTHUMG00000166875	ENST00000312240.2:c.626T>A	11.37:g.56237348A>T	ENSP00000312208:p.Leu209Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNM7|Q6IEW4|Q96RC0	Missense_Mutation	SNP	ENST00000312240.2	37	CCDS31532.1	.	.	.	.	.	.	.	.	.	.	A	7.810	0.715500	0.15306	.	.	ENSG00000174937	ENST00000312240	T	0.49432	0.78	5.08	5.08	0.68730	GPCR, rhodopsin-like superfamily (1);	0.000000	0.33854	N	0.004500	T	0.71753	0.3377	H	0.97240	3.965	0.09310	N	1	B	0.19445	0.036	B	0.40038	0.317	T	0.68884	-0.5291	10	0.72032	D	0.01	-8.3442	12.8019	0.57591	1.0:0.0:0.0:0.0	.	209	Q8NGP4	OR5M3_HUMAN	Q	209	ENSP00000312208:L209Q	ENSP00000312208:L209Q	L	-	2	0	OR5M3	55993924	0.207000	0.23482	0.002000	0.10522	0.005000	0.04900	4.573000	0.60893	1.897000	0.54924	0.448000	0.29417	CTG		0.438	OR5M3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391639.1	NM_001004742		T	56237348	A	T	56237348	3	4	688	1	0	0	0	0	1	0	0	0	11182	188	7	5	299	5	OR5M3	11	56237348	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	38694877	56237348	78769168	51	44641	481	2								
OR5M3	219482	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	56237358	56237358	+	Missense_Mutation	SNP	T	T	A													0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	aattacagtcagggaatatgTgaagttaatgccggcaagta							TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:56237358T>A	ENST00000312240.2	-	1	656	c.616A>T	c.(616-618)Aca>Tca	p.T206S		NM_001004742.2	NP_001004742.2	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M, member 3	206						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|central_nervous_system(2)|endometrium(2)|large_intestine(7)|lung(15)|ovary(2)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	37	Esophageal squamous(21;0.00448)					AGGGAATATGTGAAGTTAATG	0.428																																																0													120	118	119					11																	56237358		2201	4296	6497	SO:0001583	missense	219482			AB065746	CCDS31532.1	11q11	2012-08-09			ENSG00000174937	ENSG00000174937		"GPCR / Class A : Olfactory receptors"	14806	protein-coding gene	gene with protein product							Standard	NM_001004742		Approved		uc010rjk.2	Q8NGP4	OTTHUMG00000166875	ENST00000312240.2:c.616A>T	11.37:g.56237358T>A	ENSP00000312208:p.Thr206Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNM7|Q6IEW4|Q96RC0	Missense_Mutation	SNP	ENST00000312240.2	37	CCDS31532.1	.	.	.	.	.	.	.	.	.	.	T	3.617	-0.078287	0.07184	.	.	ENSG00000174937	ENST00000312240	T	0.37058	1.22	5.08	-0.403	0.12400	GPCR, rhodopsin-like superfamily (1);	0.993240	0.08161	N	0.988433	T	0.16981	0.0408	N	0.11255	0.115	0.09310	N	1	B	0.14012	0.009	B	0.23150	0.044	T	0.31194	-0.9952	10	0.22706	T	0.39	-3.9091	3.5764	0.07936	0.2773:0.1679:0.0:0.5548	.	206	Q8NGP4	OR5M3_HUMAN	S	206	ENSP00000312208:T206S	ENSP00000312208:T206S	T	-	1	0	OR5M3	55993934	0.000000	0.05858	0.552000	0.28243	0.327000	0.28475	-0.845000	0.04340	0.248000	0.21435	0.448000	0.29417	ACA		0.428	OR5M3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391639.1	NM_001004742		A	56237358	T	A	56237358	3	1	688	1	0	0	0	0	1	0	0	0	11182	1696	59	5	309	5	OR5M3	11	56237358	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10	10	56237358	78769158	52	44642	481	2								
SSRP1	6749	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	57100282	57100282	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	aagatgcagatggcatctccCgtggcctggattacatccgc	11	12	1	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:57100282C>A	ENST00000278412.2	-	6	851	c.585G>T	c.(583-585)acG>acT	p.T195T		NM_003146.2	NP_003137.1	Q08945	SSRP1_HUMAN	structure specific recognition protein 1	195					DNA repair (GO:0006281)|DNA replication (GO:0006260)|gene expression (GO:0010467)|positive regulation of viral transcription (GO:0050434)|regulation of transcription, DNA-templated (GO:0006355)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|viral process (GO:0016032)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			breast(1)|cervix(1)|endometrium(2)|kidney(3)|large_intestine(4)|lung(6)|ovary(2)|prostate(4)	23						TGGCATCTCCCGTGGCCTGGA	0.562																																					Colon(89;1000 1340 6884 23013 41819)											0													65	63	64					11																	57100282		2201	4296	6497	SO:0001819	synonymous_variant	6749			M86737	CCDS7952.1	11q12	2008-02-05			ENSG00000149136	ENSG00000149136			11327	protein-coding gene	gene with protein product	"facilitates chromatin remodeling 80 kDa subunit"	604328				1372440	Standard	NM_003146		Approved	FACT80	uc001njt.3	Q08945	OTTHUMG00000167024	ENST00000278412.2:c.585G>T	11.37:g.57100282C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BJG8	Silent	SNP	ENST00000278412.2	37	CCDS7952.1																																																																																				0.562	SSRP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392460.1	NM_003146		A	57100282	C	A	57100282	2	1	688	1	0	0	0	0	0	0	0	1	15206	639	23	4		4	SSRP1	11	57100282	Silent	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	862924	57100282	77906234	53	44643										
SYVN1	84447	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	64900251	64900251	+	Splice_Site	DEL	T	T	-													0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	gatgttggggctgcgttccaTctgaggcagagcacagaaga							TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:64900251delT	ENST00000377190.3	-	5	473	c.379delA	c.(379-381)atg>tg	p.M127fs	SYVN1_ENST00000526060.1_Splice_Site_p.M127fs|SYVN1_ENST00000294256.8_Splice_Site_p.M127fs|SYVN1_ENST00000307289.6_Intron|SYVN1_ENST00000526121.1_5'Flank	NM_172230.2	NP_757385.1	Q86TM6	SYVN1_HUMAN	synovial apoptosis inhibitor 1, synoviolin	127					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|in utero embryonic development (GO:0001701)|negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway (GO:1902236)|protein N-linked glycosylation via asparagine (GO:0018279)|protein ubiquitination (GO:0016567)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)	acid-amino acid ligase activity (GO:0016881)|zinc ion binding (GO:0008270)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(10)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	22						CTGCGTTCCATCTGAGGCAGA	0.612																																																0													97	97	97					11																	64900251		2201	4297	6498	SO:0001630	splice_region_variant	84447			AB085847	CCDS8097.1, CCDS31605.1	11q13	2013-01-09			ENSG00000162298	ENSG00000162298		"RING-type (C3HC4) zinc fingers"	20738	protein-coding gene	gene with protein product	"HMG-coA reductase degradation 1 homolog (S. cerevisiae)"	608046				12975321	Standard	NM_032431		Approved	HRD1, DER3	uc001odb.3	Q86TM6		ENST00000377190.3:c.379-1A>-	11.37:g.64900251delT		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3K3|Q8N6E8|Q96JL5|Q96PK3	Frame_Shift_Del	DEL	ENST00000377190.3	37	CCDS31605.1																																																																																				0.612	SYVN1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000385274.1	NM_032431	Frame_Shift_Del	-	64900251	T	-	64900251	8	5	688	1	0	1	0	1	0	0	1	0	15499	1449	50	0	1522	0	SYVN1	11	64900251	Splice_Site	DEL	T	TCGA-KV-A6GD-01A-11D-A31X-10	7799969	64900251	70106265	54	44644										
FRMD8	83786	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	65168213	65168213	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	agcatgtcctgctgggcctgCgcttccaggagctgtcgtgg	15	12	0	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:65168213C>T	ENST00000317568.5	+	9	1109	c.946C>T	c.(946-948)Cgc>Tgc	p.R316C	FRMD8_ENST00000355991.5_Missense_Mutation_p.R260C|FRMD8_ENST00000416776.2_Missense_Mutation_p.R282C	NM_031904.3	NP_114110.1	Q9BZ67	FRMD8_HUMAN	FERM domain containing 8	316	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.					cytoskeleton (GO:0005856)				NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(1)|lung(9)|pancreas(1)|urinary_tract(1)	17						GCTGGGCCTGCGCTTCCAGGA	0.657																																																0													48	38	41					11																	65168213		2201	4296	6497	SO:0001583	missense	83786			AK074850	CCDS8102.1, CCDS73320.1	11q13.1	2007-08-14			ENSG00000126391	ENSG00000126391			25462	protein-coding gene	gene with protein product						12477932	Standard	NM_031904		Approved	FLJ90369, FKSG44	uc001odu.4	Q9BZ67	OTTHUMG00000166275	ENST00000317568.5:c.946C>T	11.37:g.65168213C>T	ENSP00000319726:p.Arg316Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2P1|Q86V56|Q8NCB5	Missense_Mutation	SNP	ENST00000317568.5	37	CCDS8102.1	.	.	.	.	.	.	.	.	.	.	C	14.69	2.609302	0.46527	.	.	ENSG00000126391	ENST00000317568;ENST00000355991;ENST00000416776	D;T;D	0.84223	-1.81;-1.22;-1.82	4.49	3.56	0.40772	FERM domain (1);	0.572355	0.18795	N	0.130960	D	0.84813	0.5555	.	.	.	0.48452	D	0.999659	B;B;D	0.71674	0.041;0.175;0.998	B;B;P	0.48654	0.01;0.028;0.585	D	0.83999	0.0342	9	0.56958	D	0.05	-14.6802	9.9641	0.41715	0.3682:0.6317:0.0:0.0	.	282;260;316	B4E2P1;Q9BZ67-2;Q9BZ67	.;.;FRMD8_HUMAN	C	316;260;282	ENSP00000319726:R316C;ENSP00000348270:R260C;ENSP00000392111:R282C	ENSP00000319726:R316C	R	+	1	0	FRMD8	64924789	0.940000	0.31905	1.000000	0.80357	0.991000	0.79684	1.023000	0.30065	0.998000	0.38996	0.549000	0.68633	CGC		0.657	FRMD8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388833.1	NM_031904		T	65168213	C	T	65168213	3	4	688	1	0	0	0	0	1	0	0	0	6063	768	27	1	976	1	FRMD8	11	65168213	Missense_Mutation	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	267962	65168213	69838303	55	44645										
MUS81	80198	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	65631192	65631192	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	agaccaatcctagagacccaGgtgaagggccgtggacaggc	14	11	0	3			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:65631192G>A	ENST00000308110.4	+	9	1310	c.961G>A	c.(961-963)Gca>Aca	p.A321T	MUS81_ENST00000533035.1_Splice_Site_p.A246T|EFEMP2_ENST00000532648.1_5'Flank|CFL1_ENST00000534769.1_5'Flank	NM_025128.4	NP_079404.3	Q96NY9	MUS81_HUMAN	MUS81 structure-specific endonuclease subunit	321	ERCC4.				DNA catabolic process, endonucleolytic (GO:0000737)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|response to intra-S DNA damage checkpoint signaling (GO:0072429)	intercellular bridge (GO:0045171)|nucleus (GO:0005634)	3'-flap endonuclease activity (GO:0048257)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(1)|kidney(3)|large_intestine(2)|lung(5)|ovary(1)|skin(1)	13				READ - Rectum adenocarcinoma(159;0.166)		TAGAGACCCAGGTGAAGGGCC	0.637								Homologous recombination																																								0													59	64	63					11																	65631192		2201	4296	6497	SO:0001630	splice_region_variant	80198				CCDS8115.1	11q13	2013-07-03	2013-07-03			ENSG00000172732			29814	protein-coding gene	gene with protein product	"SLX3 structure-specific endonuclease subunit homolog (S. cerevisiae)"	606591	"MUS81 endonuclease homolog (yeast)", "MUS81 endonuclease homolog (S. cerevisiae)"			11741546, 12374758	Standard	NM_025128		Approved	FLJ44872, SLX3	uc001ofv.4	Q96NY9		ENST00000308110.4:c.961+1G>A	11.37:g.65631192G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H7D9	Missense_Mutation	SNP	ENST00000308110.4	37	CCDS8115.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	11.03|11.03	1.519664|1.519664	0.27211|0.27211	.|.	.|.	ENSG00000172732|ENSG00000172732	ENST00000533035;ENST00000308110;ENST00000437855|ENST00000529374	T;T|.	0.22945|.	1.93;1.93|.	5.14|5.14	3.2|3.2	0.36748|0.36748	DNA repair nuclease, XPF-type/Helicase (1);Restriction endonuclease, type II-like (1);ERCC4 domain (2);|.	0.343384|.	0.32430|.	N|.	0.006119|.	T|T	0.43656|0.43656	0.1257|0.1257	L|L	0.35288|0.35288	1.05|1.05	0.36284|0.36284	D|D	0.855981|0.855981	B|.	0.29805|.	0.257|.	B|.	0.31442|.	0.13|.	T|T	0.46317|0.46317	-0.9200|-0.9200	10|5	0.13470|.	T|.	0.59|.	-1.6633|-1.6633	6.6325|6.6325	0.22865|0.22865	0.0927:0.0:0.7303:0.177|0.0927:0.0:0.7303:0.177	.|.	321|.	Q96NY9|.	MUS81_HUMAN|.	T|N	246;321;321|245	ENSP00000432287:A246T;ENSP00000307853:A321T|.	ENSP00000307853:A321T|.	A|S	+|+	1|2	0|0	MUS81|MUS81	65387768|65387768	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.034000|0.034000	0.12701|0.12701	3.588000|3.588000	0.53964|0.53964	1.370000|1.370000	0.46153|0.46153	0.563000|0.563000	0.77884|0.77884	GCA|AGC		0.637	MUS81-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390941.3	NM_025128	Missense_Mutation	A	65631192	G	A	65631192	5	1	688	1	0	0	0	0	0	0	1	0	9995	1014	35	2	995	2	MUS81	11	65631192	Splice_Site	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	462979	65631192	69375324	56	44646										
TCIRG1	10312	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	67811752	67811752	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cgcacaagtgcctcattgccGaggcctggtgctctgtgcga	13	13	2	0	rs372690969		TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:67811752G>A	ENST00000265686.3	+	9	1069	c.961G>A	c.(961-963)Gag>Aag	p.E321K	TCIRG1_ENST00000532635.1_Missense_Mutation_p.E105K	NM_006019.3	NP_006010.2	Q13488	VPP3_HUMAN	T-cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 subunit A3	321					ATP hydrolysis coupled proton transport (GO:0015991)|cellular defense response (GO:0006968)|cellular iron ion homeostasis (GO:0006879)|insulin receptor signaling pathway (GO:0008286)|interaction with host (GO:0051701)|phagosome maturation (GO:0090382)|positive regulation of cell proliferation (GO:0008284)|proton transport (GO:0015992)|transferrin transport (GO:0033572)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|endosome membrane (GO:0010008)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|mitochondrion (GO:0005739)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)|vacuolar proton-transporting V-type ATPase, V0 domain (GO:0000220)	hydrogen ion transmembrane transporter activity (GO:0015078)|transporter activity (GO:0005215)			breast(1)|endometrium(4)|large_intestine(3)|lung(4)|ovary(3)|prostate(1)	16						CCTCATTGCCGAGGCCTGGTG	0.697																																																0								G	LYS/GLU,LYS/GLU	0,4388		0,0,2194	31	28	29		961,313	4.5	1	11		29	1,8581		0,1,4290	no	missense,missense	TCIRG1	NM_006019.3,NM_006053.3	56,56	0,1,6484	AA,AG,GG		0.0117,0.0,0.0077	probably-damaging,probably-damaging	321/831,105/615	67811752	1,12969	2194	4291	6485	SO:0001583	missense	10312			AF025374	CCDS8177.1, CCDS53670.1	11q13.2	2014-09-17	2006-01-20		ENSG00000110719	ENSG00000110719		"ATPases / V-type"	11647	protein-coding gene	gene with protein product	"T-cell immune response cDNA 7"	604592	"T-cell, immune regulator 1", "T-cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein a isoform 3", "T-cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 protein A3"			8579597, 9806637	Standard	NM_006019		Approved	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3	uc001one.3	Q13488	OTTHUMG00000167358	ENST00000265686.3:c.961G>A	11.37:g.67811752G>A	ENSP00000265686:p.Glu321Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O75877|Q8WVC5	Missense_Mutation	SNP	ENST00000265686.3	37	CCDS8177.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	23.2|23.2	4.390688|4.390688	0.82902|0.82902	0.0|0.0	1.17E-4|1.17E-4	ENSG00000110719|ENSG00000110719	ENST00000265686;ENST00000532635|ENST00000529364	D;D|.	0.87650|.	-2.28;-2.28|.	5.44|5.44	4.53|4.53	0.55603|0.55603	.|.	0.103326|.	0.64402|.	D|.	0.000004|.	T|T	0.75788|0.75788	0.3897|0.3897	M|M	0.83953|0.83953	2.67|2.67	0.80722|0.80722	D|D	1|1	D|.	0.89917|.	1.0|.	D|.	0.71414|.	0.973|.	T|T	0.77765|0.77765	-0.2465|-0.2465	10|5	0.87932|.	D|.	0|.	-18.098|-18.098	12.3719|12.3719	0.55260|0.55260	0.0826:0.0:0.9174:0.0|0.0826:0.0:0.9174:0.0	.|.	321|.	Q13488|.	VPP3_HUMAN|.	K|Q	321;105|154	ENSP00000265686:E321K;ENSP00000434407:E105K|.	ENSP00000265686:E321K|.	E|R	+|+	1|2	0|0	TCIRG1|TCIRG1	67568328|67568328	1.000000|1.000000	0.71417|0.71417	0.977000|0.977000	0.42913|0.42913	0.202000|0.202000	0.24057|0.24057	7.852000|7.852000	0.86927|0.86927	2.554000|2.554000	0.86153|0.86153	0.462000|0.462000	0.41574|0.41574	GAG|CGA		0.697	TCIRG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394305.1	NM_006019		A	67811752	G	A	67811752	3	1	688	1	0	0	0	0	1	0	0	0	15715	1059	37	1	991	1	TCIRG1	11	67811752	Missense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	2180560	67811752	67194764	57	44647										
INPPL1	3636	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	71948603	71948603	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	ctgcccccaggcccctcaccAgccagcactttcctggggga	10	19	1	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:71948603A>G	ENST00000298229.2	+	26	3519	c.3315A>G	c.(3313-3315)ccA>ccG	p.P1105P	PHOX2A_ENST00000544057.1_5'Flank|INPPL1_ENST00000538751.1_Silent_p.P863P|INPPL1_ENST00000541756.1_Silent_p.P863P	NM_001567.3	NP_001558.3	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	1105	Pro-rich.				actin filament organization (GO:0007015)|cell adhesion (GO:0007155)|endochondral ossification (GO:0001958)|endocytosis (GO:0006897)|glucose metabolic process (GO:0006006)|immune system process (GO:0002376)|inositol phosphate metabolic process (GO:0043647)|negative regulation of cell proliferation (GO:0008285)|negative regulation of gene expression (GO:0010629)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phospholipid metabolic process (GO:0006644)|post-embryonic development (GO:0009791)|response to insulin (GO:0032868)|ruffle assembly (GO:0097178)|small molecule metabolic process (GO:0044281)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)	hydrolase activity (GO:0016787)|SH2 domain binding (GO:0042169)			breast(2)|endometrium(9)|kidney(1)|large_intestine(7)|lung(12)|ovary(1)|pancreas(1)|prostate(3)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	44						GCCCCTCACCAGCCAGCACTT	0.692																																																0													19	21	20					11																	71948603		2108	4155	6263	SO:0001819	synonymous_variant	3636			Y14385	CCDS8213.1	11q23	2013-02-14			ENSG00000165458	ENSG00000165458		"Sterile alpha motif (SAM) domain containing", "SH2 domain containing"	6080	protein-coding gene	gene with protein product	"51C protein"	600829				8530088	Standard	NM_001567		Approved	SHIP2	uc001osf.3	O15357	OTTHUMG00000167879	ENST00000298229.2:c.3315A>G	11.37:g.71948603A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RTX5|Q13577|Q13578	Silent	SNP	ENST00000298229.2	37	CCDS8213.1																																																																																				0.692	INPPL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396789.1	NM_001567		G	71948603	A	G	71948603	2	3	688	1	0	0	0	0	0	0	0	1	7768	175	7	3		3	INPPL1	11	71948603	Silent	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	4136851	71948603	63057913	58	44648										
ARAP1	116985	broad.mit.edu;ucsc.edu	37	chr11	72423580	72423580	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cagcagactggccacgcgcaCggcccgtgggactcggctcg	15	16	0	1	rs558010391		TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:72423580C>G	ENST00000393609.3	-	6	983	c.781G>C	c.(781-783)Gtg>Ctg	p.V261L	ARAP1_ENST00000393605.3_Missense_Mutation_p.V21L|ARAP1_ENST00000359373.5_Missense_Mutation_p.V261L|ARAP1_ENST00000334211.8_Missense_Mutation_p.V16L|ARAP1_ENST00000426523.1_Missense_Mutation_p.V16L|ARAP1_ENST00000455638.2_Missense_Mutation_p.V261L|ARAP1_ENST00000429686.1_Missense_Mutation_p.V16L	NM_001040118.2	NP_001035207.1	Q96P48	ARAP1_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1	261					actin filament reorganization involved in cell cycle (GO:0030037)|negative regulation of stress fiber assembly (GO:0051497)|positive regulation of Cdc42 GTPase activity (GO:0043089)|positive regulation of filopodium assembly (GO:0051491)|positive regulation of receptor recycling (GO:0001921)|regulation of ARF GTPase activity (GO:0032312)|regulation of cell shape (GO:0008360)|regulation of cellular component movement (GO:0051270)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)	ARF GTPase activator activity (GO:0008060)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|Rho GTPase activator activity (GO:0005100)|zinc ion binding (GO:0008270)			cervix(2)|endometrium(2)|large_intestine(10)|lung(8)|ovary(1)|skin(3)|urinary_tract(1)	27						GCCACGCGCACGGCCCGTGGG	0.667													C|||	1	0.000199681	0.0008	0.0	5008	,	,		12493	0.0		0.0	False		,,,				2504	0.0				Ovarian(102;1198 1520 13195 17913 37529)											0													146	121	130					11																	72423580		2200	4293	6493	SO:0001583	missense	116985			AF411983	CCDS8217.2, CCDS41687.1, CCDS44671.1	11q13.3	2013-01-11	2008-09-22	2008-09-22	ENSG00000186635	ENSG00000186635		"ADP-ribosylation factor GTPase activating proteins", "Sterile alpha motif (SAM) domain containing", "Pleckstrin homology (PH) domain containing", "Ankyrin repeat domain containing"	16925	protein-coding gene	gene with protein product		606646	"centaurin, delta 2"	CENTD2			Standard	NM_001040118		Approved		uc001osu.3	Q96P48	OTTHUMG00000157102	ENST00000393609.3:c.781G>C	11.37:g.72423580C>G	ENSP00000377233:p.Val261Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A3KLL7|B2RTS2|O94879|Q4LDD5|Q59FI7|Q6PHS3|Q8WU51|Q96HP6|Q96L71	Missense_Mutation	SNP	ENST00000393609.3	37	CCDS41687.1	.	.	.	.	.	.	.	.	.	.	C	22.0	4.223925	0.79576	.	.	ENSG00000186635	ENST00000359373;ENST00000455638;ENST00000393605;ENST00000334211;ENST00000393609;ENST00000426523;ENST00000429686;ENST00000340247	T;T;T;T;T;T;T	0.08458	3.2;3.2;3.18;3.23;3.2;3.24;3.09	4.34	4.34	0.51931	.	0.240731	0.28322	N	0.015777	T	0.16599	0.0399	L	0.29908	0.895	0.30306	N	0.789	P;P;D;P;D	0.53312	0.931;0.931;0.959;0.931;0.959	P;P;D;D;D	0.68621	0.872;0.872;0.959;0.911;0.94	T	0.00773	-1.1572	10	0.62326	D	0.03	.	12.2025	0.54335	0.0:1.0:0.0:0.0	.	16;16;261;261;21	E7EU13;B2RTS2;Q96P48-3;Q96P48;Q96P48-1	.;.;.;ARAP1_HUMAN;.	L	261;261;21;16;261;16;16;50	ENSP00000352332:V261L;ENSP00000390461:V261L;ENSP00000377230:V21L;ENSP00000335506:V16L;ENSP00000377233:V261L;ENSP00000392264:V16L;ENSP00000403127:V16L	ENSP00000335506:V16L	V	-	1	0	ARAP1	72101228	0.982000	0.34865	0.998000	0.56505	0.906000	0.53458	3.800000	0.55537	2.250000	0.74265	0.561000	0.74099	GTG		0.667	ARAP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000347428.1	NM_001040118		G	72423580	C	G	72423580	3	3	688	1	0	0	0	0	1	0	0	0	838	536	19	4	3691	4	ARAP1	11	72423580	Missense_Mutation	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	474977	72423580	62582936	59	44649										
C2CD3	26005	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	73796809	73796809	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	agaactcagggcagaaagaaCaggccacagggtgggttcgg	16	8	1	3			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:73796809C>G	ENST00000334126.7	-	21	3990	c.3764G>C	c.(3763-3765)tGt>tCt	p.C1255S	C2CD3_ENST00000313663.7_Missense_Mutation_p.C1255S			Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	1255	C2 1.				brain development (GO:0007420)|centriole elongation (GO:0061511)|embryonic digit morphogenesis (GO:0042733)|heart looping (GO:0001947)|in utero embryonic development (GO:0001701)|neural plate axis specification (GO:0021997)|neural tube development (GO:0021915)|nonmotile primary cilium assembly (GO:0035058)|protein localization to centrosome (GO:0071539)|protein processing (GO:0016485)|regulation of proteolysis (GO:0030162)|regulation of smoothened signaling pathway (GO:0008589)	centriolar satellite (GO:0034451)|centriole (GO:0005814)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)				NS(1)|breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(16)|lung(26)|ovary(4)|pancreas(2)|prostate(1)|skin(3)	64	Breast(11;4.16e-06)					GCAGAAAGAACAGGCCACAGG	0.547																																																0													86	75	79					11																	73796809		2200	4293	6493	SO:0001583	missense	26005			BC035599	CCDS31636.1, CCDS66167.1	11q13.4	2014-02-12	2007-10-17		ENSG00000168014	ENSG00000168014			24564	protein-coding gene	gene with protein product		615944					Standard	XM_005273897		Approved	DKFZP586P0123	uc001ouu.2	Q4AC94	OTTHUMG00000168110	ENST00000334126.7:c.3764G>C	11.37:g.73796809C>G	ENSP00000334379:p.Cys1255Ser	Somatic		WXS	Illumina HiSeq	Phase_I	C9JR55|E2QRD1|Q2NLE1|Q3C1U9|Q6ZU92|Q8IYM4|Q8NB87|Q8NDH7|Q9Y4M2	Missense_Mutation	SNP	ENST00000334126.7	37		.	.	.	.	.	.	.	.	.	.	C	20.1	3.935426	0.73442	.	.	ENSG00000168014	ENST00000334126;ENST00000313663;ENST00000313681;ENST00000414160	T;T;T	0.37411	1.2;1.2;1.2	5.8	4.88	0.63580	.	0.169348	0.50627	D	0.000102	T	0.27241	0.0668	L	0.29908	0.895	0.42377	D	0.992478	P	0.47910	0.902	B	0.40066	0.318	T	0.03008	-1.1083	10	0.37606	T	0.19	-9.4621	13.9561	0.64150	0.0:0.9267:0.0:0.0733	.	1255	Q4AC94-1	.	S	1255;1255;1255;63	ENSP00000334379:C1255S;ENSP00000323339:C1255S;ENSP00000388750:C63S	ENSP00000323339:C1255S	C	-	2	0	C2CD3	73474457	0.998000	0.40836	1.000000	0.80357	0.951000	0.60555	3.590000	0.53979	2.742000	0.94016	0.655000	0.94253	TGT		0.547	C2CD3-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_015531		G	73796809	C	G	73796809	3	3	688	1	0	0	0	0	1	0	0	0	2156	478	17	4	2171	4	C2CD3	11	73796809	Missense_Mutation	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	1373229	73796809	61209707	60	44650										
C11orf30	56946	broad.mit.edu	37	chr11	76183839	76183839	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	atacagttgcagtaacagctGtggtgtcctctacaccatct	8	11	2	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:76183839G>T	ENST00000529032.1	+	7	1063	c.1063G>T	c.(1063-1065)Gtg>Ttg	p.V355L	C11orf30_ENST00000343878.3_Missense_Mutation_p.V355L|C11orf30_ENST00000525038.1_Missense_Mutation_p.V370L|C11orf30_ENST00000533248.1_Missense_Mutation_p.V369L|C11orf30_ENST00000525919.1_Missense_Mutation_p.V356L|C11orf30_ENST00000524767.1_Missense_Mutation_p.V370L|C11orf30_ENST00000524490.1_Missense_Mutation_p.V356L|C11orf30_ENST00000334736.3_Missense_Mutation_p.V355L			Q7Z589	EMSY_HUMAN	chromosome 11 open reading frame 30	355	Interaction with BRCA2.|Ser-rich.				chromatin modification (GO:0016568)|DNA repair (GO:0006281)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)				NS(1)|breast(4)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(10)|liver(1)|lung(23)|ovary(5)|prostate(2)|skin(4)|stomach(1)|urinary_tract(2)	60						AGTAACAGCTGTGGTGTCCTC	0.433																																																0													150	122	132					11																	76183839		2200	4292	6492	SO:0001583	missense	56946			AF226047	CCDS8244.1, CCDS73349.1, CCDS73350.1, CCDS73351.1	11q13.5	2010-07-01			ENSG00000158636	ENSG00000158636			18071	protein-coding gene	gene with protein product		608574					Standard	XM_005274106		Approved	EMSY	uc001oxl.3	Q7Z589	OTTHUMG00000165282	ENST00000529032.1:c.1063G>T	11.37:g.76183839G>T	ENSP00000432327:p.Val355Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKT8|B7ZKU0|B7ZKU2|Q17RM7|Q4G109|Q8NBU6|Q8TE50|Q9H8I9|Q9NRH0	Missense_Mutation	SNP	ENST00000529032.1	37	CCDS8244.1	.	.	.	.	.	.	.	.	.	.	G	24.1	4.490244	0.84962	.	.	ENSG00000158636	ENST00000524490;ENST00000334736;ENST00000343878;ENST00000393457;ENST00000524767;ENST00000533248;ENST00000525919;ENST00000525038;ENST00000529032	.	.	.	6.17	6.17	0.99709	.	0.000000	0.85682	D	0.000000	T	0.67581	0.2908	L	0.29908	0.895	0.80722	D	1	D;D;D;D;D;D;D;D	0.67145	0.994;0.994;0.994;0.996;0.996;0.994;0.994;0.994	D;D;D;D;D;D;D;D	0.76071	0.97;0.97;0.97;0.987;0.987;0.97;0.97;0.97	T	0.60047	-0.7339	9	0.26408	T	0.33	-5.3729	20.8794	0.99867	0.0:0.0:1.0:0.0	.	369;370;370;355;305;356;356;355	B7ZKT8;B7ZKU2;B7ZKU0;Q7Z589-2;F5H2F0;Q17RM7;E9PMC9;Q7Z589	.;.;.;.;.;.;.;EMSY_HUMAN	L	356;355;355;305;370;369;356;370;355	.	ENSP00000334130:V355L	V	+	1	0	C11orf30	75861487	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.476000	0.97823	2.941000	0.99782	0.655000	0.94253	GTG		0.433	C11orf30-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000383288.2	NM_020193		T	76183839	G	T	76183839	3	4	688	1	0	0	0	0	1	0	0	0	1638	1377	48	4	1089	4	C11orf30	11	76183839	Missense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	2387030	76183839	58822677	61	44651										
MAML2	84441	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr11	95825407	95825407	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	tgctgctgctgctgctgctgCtgctgctgttgctgctgttg	14	11	0	0	rs61901862		TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:95825407C>T	ENST00000524717.1	-	2	3072	c.1788G>A	c.(1786-1788)caG>caA	p.Q596Q		NM_032427.1	NP_115803.1	Q8IZL2	MAML2_HUMAN	mastermind-like 2 (Drosophila)	596					gene expression (GO:0010467)|Notch signaling pathway (GO:0007219)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription initiation from RNA polymerase II promoter (GO:0006367)	Golgi apparatus (GO:0005794)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)	p.Q596Q(1)	CRTC3/MAML2(26)|CRTC1/MAML2(516)	breast(2)|cervix(1)|endometrium(11)|kidney(4)|large_intestine(8)|lung(12)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	43		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				gctgctgctgctgctgctgtt	0.532			T	"MECT1, CRTC3"	salivary gland mucoepidermoid																																		Dom	yes		11	11q22-q23	84441	mastermind-like 2 (Drosophila)		E	1	Substitution - coding silent(1)	kidney(1)											28	35	33					11																	95825407		2119	4148	6267	SO:0001819	synonymous_variant	84441			AB058722	CCDS44714.1	11q	2008-02-05	2001-11-28		ENSG00000184384	ENSG00000184384			16259	protein-coding gene	gene with protein product		607537	"mastermind (Drosophila)-like 2"			12370315, 12386158	Standard	NM_032427		Approved	KIAA1819, MAM3	uc001pfw.1	Q8IZL2	OTTHUMG00000167677	ENST00000524717.1:c.1788G>A	11.37:g.95825407C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7MD26|Q6AI23|Q6Y3A3|Q8IUL3|Q96JK6	Silent	SNP	ENST00000524717.1	37	CCDS44714.1																																																																																				0.532	MAML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395540.1			T	95825407	C	T	95825407	2	4	688	1	0	0	0	0	0	0	0	1	9213	796	28	2		2	MAML2	11	95825407	Silent	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	19641568	95825407	39181109	62	44652										
YAP1	10413	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	102100555	102100555	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	gagatggaatgaacatagaaGgagaggagctgatgccaagt	15	4	0	5			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:102100555G>T	ENST00000282441.5	+	9	1787	c.1399G>T	c.(1399-1401)Gga>Tga	p.G467*	YAP1_ENST00000524575.1_Nonsense_Mutation_p.G289*|YAP1_ENST00000526343.1_Nonsense_Mutation_p.G413*|YAP1_ENST00000531439.1_Nonsense_Mutation_p.G451*|RP11-864G5.3_ENST00000526310.1_RNA|YAP1_ENST00000345877.2_Nonsense_Mutation_p.G417*|YAP1_ENST00000537274.1_Nonsense_Mutation_p.G455*|YAP1_ENST00000528834.1_3'UTR	NM_001130145.2|NM_001282101.1	NP_001123617.1|NP_001269030.1	P46937	YAP1_HUMAN	Yes-associated protein 1	467	Transactivation domain.				cell proliferation (GO:0008283)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to gamma radiation (GO:0071480)|contact inhibition (GO:0060242)|embryonic heart tube morphogenesis (GO:0003143)|gene expression (GO:0010467)|hippo signaling (GO:0035329)|keratinocyte differentiation (GO:0030216)|lateral mesoderm development (GO:0048368)|negative regulation of epithelial cell differentiation (GO:0030857)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|notochord development (GO:0030903)|paraxial mesoderm development (GO:0048339)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cell proliferation (GO:0008284)|positive regulation of organ growth (GO:0046622)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of keratinocyte proliferation (GO:0010837)|regulation of metanephric nephron tubule epithelial cell differentiation (GO:0072307)|regulation of stem cell proliferation (GO:0072091)|somatic stem cell maintenance (GO:0035019)|transcription initiation from RNA polymerase II promoter (GO:0006367)|vasculogenesis (GO:0001570)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|RNA polymerase II transcription factor binding transcription factor activity (GO:0001076)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)|transcription regulatory region DNA binding (GO:0044212)			central_nervous_system(1)|large_intestine(1)|lung(1)|ovary(1)	4	all_cancers(8;0.000575)|all_epithelial(12;0.00564)	Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.00936)	Lung(13;0.245)	BRCA - Breast invasive adenocarcinoma(274;0.0189)		GAACATAGAAGGAGAGGAGCT	0.483																																					Colon(50;247 1103 7861 28956)											0													131	123	126					11																	102100555		2203	4299	6502	SO:0001587	stop_gained	10413				CCDS8314.1, CCDS44716.1, CCDS8314.2, CCDS53699.1, CCDS53700.1, CCDS60944.1, CCDS73373.1, CCDS73374.1	11q13	2010-03-19	2010-03-19		ENSG00000137693	ENSG00000137693			16262	protein-coding gene	gene with protein product		606608	"Yes-associated protein 1, 65kDa"			7782338	Standard	NM_001130145		Approved	YAP65	uc001pgt.3	P46937	OTTHUMG00000167322	ENST00000282441.5:c.1399G>T	11.37:g.102100555G>T	ENSP00000282441:p.Gly467*	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTY1|B7ZA01|E3WEB5|E3WEB6|E9PRV2|F5H202|K0KQ18|K0KYZ8|K0L195|K0L1G3|Q7Z574|Q8IUY9	Nonsense_Mutation	SNP	ENST00000282441.5	37	CCDS44716.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	40|40	8.303129|8.303129	0.98750|0.98750	.|.	.|.	ENSG00000137693|ENSG00000137693	ENST00000526343;ENST00000282441;ENST00000537274;ENST00000345877;ENST00000445250;ENST00000531439;ENST00000524575|ENST00000529029	.|.	.|.	.|.	6.17|6.17	6.17|6.17	0.99709|0.99709	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	.|T	.|0.77638	.|0.4160	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.73658	.|-0.3913	.|4	0.87932|.	D|.	0|.	.|.	20.8794|20.8794	0.99867|0.99867	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|.	.|.	.|.	X|N	413;467;455;417;384;451;289|220	.|.	ENSP00000282441:G467X|.	G|K	+|+	1|3	0|2	YAP1|YAP1	101605765|101605765	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.981000|0.981000	0.71138|0.71138	9.441000|9.441000	0.97557|0.97557	2.941000|2.941000	0.99782|0.99782	0.655000|0.655000	0.94253|0.94253	GGA|AAG		0.483	YAP1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000394151.1	NM_006106		T	102100555	G	T	102100555	4	4	688	1	0	0	0	0	0	1	0	0	17478	1001	35	4	1445	4	YAP1	11	102100555	Nonsense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	6275148	102100555	32905961	63	44653										
ARHGAP32	9743	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	128933815	128933815	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	acctctaaggtcagttcgtcAggggcccgagcagtgtacct	12	12	3	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr11:128933815A>G	ENST00000310343.9	-	8	824	c.825T>C	c.(823-825)ccT>ccC	p.P275P	ARHGAP32_ENST00000524655.1_Silent_p.P201P	NM_001142685.1	NP_001136157.1	A7KAX9	RHG32_HUMAN	Rho GTPase activating protein 32	275	SH3. {ECO:0000255|PROSITE- ProRule:PRU00192}.				regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	actin cytoskeleton (GO:0015629)|cell cortex (GO:0005938)|cell junction (GO:0030054)|cell projection (GO:0042995)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|postsynaptic membrane (GO:0045211)	GTPase activator activity (GO:0005096)|phosphatidylinositol binding (GO:0035091)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(12)|lung(28)|ovary(3)|prostate(6)|urinary_tract(3)	60						TCAGTTCGTCAGGGGCCCGAG	0.433																																																0													162	158	160					11																	128933815		1566	3579	5145	SO:0001819	synonymous_variant	9743			AB018255	CCDS31718.1, CCDS44769.1	11q24.3	2011-06-29			ENSG00000134909	ENSG00000134909		"Rho GTPase activating proteins"	17399	protein-coding gene	gene with protein product		608541				12446789, 12819203, 17663722	Standard	NM_014715		Approved	GRIT, KIAA0712, MGC1892, RICS, GC-GAP	uc009zcp.3	A7KAX9	OTTHUMG00000165774	ENST00000310343.9:c.825T>C	11.37:g.128933815A>G		Somatic		WXS	Illumina HiSeq	Phase_I	I7H0B0|O94820|Q86YL6|Q8IUG4|Q9BWG3	Silent	SNP	ENST00000310343.9	37	CCDS44769.1																																																																																				0.433	ARHGAP32-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386151.3	NM_014715		G	128933815	A	G	128933815	2	3	688	1	0	0	0	0	0	0	0	1	881	175	7	3		3	ARHGAP32	11	128933815	Silent	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	26833260	128933815	6072701	64	44654										
CLSTN3	9746	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	7302198	7302198	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	ctggtgggggatgacctggaTcccgagcgggaaagcctgct	17	10	0	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr12:7302198T>C	ENST00000266546.6	+	14	2604	c.2154T>C	c.(2152-2154)gaT>gaC	p.D718D	CLSTN3_ENST00000537408.1_Silent_p.D730D	NM_014718.3	NP_055533.2	Q9BQT9	CSTN3_HUMAN	calsyntenin 3	718					homophilic cell adhesion (GO:0007156)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|postsynaptic membrane (GO:0045211)	calcium ion binding (GO:0005509)			NS(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(12)|lung(7)|prostate(1)|skin(1)	33						ATGACCTGGATCCCGAGCGGG	0.572																																																0													86	78	80					12																	7302198		2203	4300	6503	SO:0001819	synonymous_variant	9746			AB018269	CCDS8575.1	12p13.31	2011-07-01			ENSG00000139182	ENSG00000139182		"Cadherins / Cadherin-related"	18371	protein-coding gene	gene with protein product	"cadherin-related family member 14"	611324				12498782	Standard	NM_014718		Approved	CSTN3, KIAA0726, CDHR14	uc001qsr.3	Q9BQT9	OTTHUMG00000168167	ENST00000266546.6:c.2154T>C	12.37:g.7302198T>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DUT6|O94831|Q2T9J5|Q5UE57	Silent	SNP	ENST00000266546.6	37	CCDS8575.1																																																																																				0.572	CLSTN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398560.2	NM_014718		C	7302198	T	C	7302198	2	2	688	1	0	0	0	0	0	0	0	1	3565	1432	50	3		3	CLSTN3	12	7302198	Silent	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10		7302198	126549697	65	44655										
MON2	23041	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	62954577	62954577	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	tgagcttgaagatttgaatcTatggtgggctgcgtggaata	14	4	1	4			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr12:62954577T>A	ENST00000393632.2	+	26	4107	c.3716T>A	c.(3715-3717)cTa>cAa	p.L1239Q	MON2_ENST00000552738.1_Missense_Mutation_p.L1216Q|MON2_ENST00000393630.3_Missense_Mutation_p.L1240Q|MON2_ENST00000546600.1_Missense_Mutation_p.L1239Q|MON2_ENST00000393629.2_Missense_Mutation_p.L1239Q|MON2_ENST00000280379.6_Missense_Mutation_p.L1240Q	NM_015026.2	NP_055841.2	Q7Z3U7	MON2_HUMAN	MON2 homolog (S. cerevisiae)	1239					actin cytoskeleton organization (GO:0030036)|Golgi to endosome transport (GO:0006895)|positive regulation of GTPase activity (GO:0043547)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	extracellular vesicular exosome (GO:0070062)|trans-Golgi network (GO:0005802)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(5)|kidney(3)|large_intestine(15)|lung(21)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	57			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		GATTTGAATCTATGGTGGGCT	0.393																																																0													92	90	91					12																	62954577		2203	4300	6503	SO:0001583	missense	23041				CCDS31849.1, CCDS61175.1, CCDS61177.1, CCDS61178.1	12q14.1	2014-08-12	2006-04-04		ENSG00000061987	ENSG00000061987			29177	protein-coding gene	gene with protein product			"MON2 homolog (yeast)"			16301316, 24285343	Standard	NM_015026		Approved	KIAA1040	uc001sre.3	Q7Z3U7	OTTHUMG00000169992	ENST00000393632.2:c.3716T>A	12.37:g.62954577T>A	ENSP00000377252:p.Leu1239Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A5D8U7|A7E2Y0|B9EGP5|F8VWA6|F8W1Z6|Q86TA2|Q8N3I5|Q8NAI0|Q8NHE2|Q9UPW1	Missense_Mutation	SNP	ENST00000393632.2	37	CCDS31849.1	.	.	.	.	.	.	.	.	.	.	T	21.1	4.100011	0.76983	.	.	ENSG00000061987	ENST00000393632;ENST00000393630;ENST00000280379;ENST00000546600;ENST00000552738;ENST00000393629	T;T;T;T;T;T	0.70282	-0.47;-0.47;-0.47;-0.47;-0.47;-0.47	5.03	5.03	0.67393	.	0.000000	0.64402	D	0.000001	T	0.79857	0.4518	L	0.52759	1.655	0.80722	D	1	D;D;D;D;D	0.89917	1.0;0.997;0.979;1.0;1.0	D;P;P;D;D	0.83275	0.99;0.861;0.793;0.994;0.996	T	0.79308	-0.1857	9	.	.	.	-5.6366	15.0609	0.71951	0.0:0.0:0.0:1.0	.	1239;1216;1239;114;1239	B9EGP5;F8VWA6;F8W1Z6;Q7Z3U7-3;Q7Z3U7-4	.;.;.;.;.	Q	1239;1240;1240;1239;1216;1239	ENSP00000377252:L1239Q;ENSP00000377250:L1240Q;ENSP00000280379:L1240Q;ENSP00000447407:L1239Q;ENSP00000449215:L1216Q;ENSP00000377249:L1239Q	.	L	+	2	0	MON2	61240844	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	7.787000	0.85759	2.031000	0.59945	0.377000	0.23210	CTA		0.393	MON2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406767.3	NM_015026		A	62954577	T	A	62954577	3	1	688	1	0	0	0	0	1	0	0	0	9707	1522	53	5	3818	5	MON2	12	62954577	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10	55652379	62954577	70897318	66	44656										
MRPS31	10240	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	41323388	41323388	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	tgtggctaactgcttagcaaAttccacatcccaaagtgaag	8	10	0	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr13:41323388A>T	ENST00000323563.6	-	6	880	c.844T>A	c.(844-846)Ttt>Att	p.F282I	MRPS31_ENST00000498078.1_5'UTR	NM_005830.3	NP_005821.2	Q92665	RT31_HUMAN	mitochondrial ribosomal protein S31	282						mitochondrial small ribosomal subunit (GO:0005763)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)|protein domain specific binding (GO:0019904)|structural constituent of ribosome (GO:0003735)			breast(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(6)|upper_aerodigestive_tract(1)	13		Lung NSC(96;3.55e-06)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;1.52e-08)|Epithelial(112;7.63e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000192)|GBM - Glioblastoma multiforme(144;0.00233)|BRCA - Breast invasive adenocarcinoma(63;0.0706)		TGCTTAGCAAATTCCACATCC	0.368																																																0													103	90	94					13																	41323388		2203	4300	6503	SO:0001583	missense	10240			Z68747	CCDS9372.1	13q14.11	2012-09-13			ENSG00000102738	ENSG00000102738		"Mitochondrial ribosomal proteins / small subunits"	16632	protein-coding gene	gene with protein product		611992				11279123, 8567980	Standard	NM_005830		Approved	IMOGN38	uc001uxm.4	Q92665	OTTHUMG00000016777	ENST00000323563.6:c.844T>A	13.37:g.41323388A>T	ENSP00000315397:p.Phe282Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCS3|Q5VYC8|Q8WTV8	Missense_Mutation	SNP	ENST00000323563.6	37	CCDS9372.1	.	.	.	.	.	.	.	.	.	.	A	16.70	3.196191	0.58126	.	.	ENSG00000102738	ENST00000323563	T	0.30182	1.54	5.17	5.17	0.71159	.	0.105571	0.64402	D	0.000003	T	0.50973	0.1647	M	0.80982	2.52	0.40731	D	0.982746	D	0.71674	0.998	D	0.65233	0.933	T	0.54255	-0.8321	10	0.37606	T	0.19	.	8.5691	0.33558	0.912:0.0:0.088:0.0	.	282	Q92665	RT31_HUMAN	I	282	ENSP00000315397:F282I	ENSP00000315397:F282I	F	-	1	0	MRPS31	40221388	1.000000	0.71417	0.995000	0.50966	0.613000	0.37349	2.868000	0.48436	1.947000	0.56498	0.524000	0.50904	TTT		0.368	MRPS31-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044640.2			T	41323388	A	T	41323388	3	4	688	1	0	0	0	0	1	0	0	0	9848	101	4	5	351	5	MRPS31	13	41323388	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10		41323388	73846490	67	44657										
COL4A2	1284	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	111117912	111117912	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cttacctggaccaccaggctTcctgggccctcctggccccg	10	19	0	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr13:111117912T>A	ENST00000360467.5	+	25	2243	c.1937T>A	c.(1936-1938)tTc>tAc	p.F646Y	COL4A2-AS2_ENST00000458403.2_RNA	NM_001846.2	NP_001837.2	P08572	CO4A2_HUMAN	collagen, type IV, alpha 2	646	Triple-helical region.				angiogenesis (GO:0001525)|axon guidance (GO:0007411)|cellular response to transforming growth factor beta stimulus (GO:0071560)|collagen catabolic process (GO:0030574)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|negative regulation of angiogenesis (GO:0016525)|transcription, DNA-templated (GO:0006351)	collagen type IV trimer (GO:0005587)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|intracellular membrane-bounded organelle (GO:0043231)	extracellular matrix structural constituent (GO:0005201)			NS(1)|central_nervous_system(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(4)|liver(2)|lung(48)|ovary(1)|prostate(3)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	80	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)			CCACCAGGCTTCCTGGGCCCT	0.597																																																0													29	34	32					13																	111117912		1873	4094	5967	SO:0001583	missense	1284			AK025912	CCDS41907.1	13q34	2013-09-05			ENSG00000134871	ENSG00000134871		"Collagens"	2203	protein-coding gene	gene with protein product	"canstatin", "collagen type IV alpha 2"	120090				2439508, 3025878	Standard	NM_001846		Approved	FLJ22259, DKFZp686I14213	uc001vqx.3	P08572	OTTHUMG00000017344	ENST00000360467.5:c.1937T>A	13.37:g.111117912T>A	ENSP00000353654:p.Phe646Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q14052|Q548C3|Q5VZA9|Q66K23	Missense_Mutation	SNP	ENST00000360467.5	37	CCDS41907.1	.	.	.	.	.	.	.	.	.	.	T	0.019	-1.456320	0.01071	.	.	ENSG00000134871	ENST00000360467;ENST00000257309	D	0.93247	-3.19	4.82	3.55	0.40652	.	0.654622	0.13725	N	0.367070	D	0.84942	0.5584	N	0.17674	0.51	0.09310	N	0.999999	B	0.23650	0.089	B	0.17098	0.017	T	0.72966	-0.4131	10	0.29301	T	0.29	.	5.8702	0.18799	0.1497:0.0841:0.0:0.7662	.	646	P08572	CO4A2_HUMAN	Y	646	ENSP00000353654:F646Y	ENSP00000257309:F646Y	F	+	2	0	COL4A2	109915913	0.000000	0.05858	0.103000	0.21229	0.102000	0.19082	0.319000	0.19522	1.802000	0.52723	0.379000	0.24179	TTC		0.597	COL4A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045761.2	NM_001846		A	111117912	T	A	111117912	3	1	688	1	0	0	0	0	1	0	0	0	3692	1783	62	5	2031	5	COL4A2	13	111117912	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10	69794524	111117912	4051966	68	44658										
GTF2A1	2957	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	81659105	81659105	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	aggtataacttgagtcttatTtcctgtaaataagatttgct	7	5	1	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr14:81659105T>A	ENST00000553612.1	-	7	1094	c.691A>T	c.(691-693)Aat>Tat	p.N231Y	GTF2A1_ENST00000434192.2_Missense_Mutation_p.N192Y	NM_001278940.1|NM_015859.3	NP_001265869.1|NP_056943.1	P52655	TF2AA_HUMAN	general transcription factor IIA, 1, 19/37kDa	231					gene expression (GO:0010467)|regulation of transcription, DNA-templated (GO:0006355)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor TFIIA complex (GO:0005672)	DNA binding (GO:0003677)|protein heterodimerization activity (GO:0046982)|TBP-class protein binding (GO:0017025)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)			breast(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(5)|upper_aerodigestive_tract(1)	12				BRCA - Breast invasive adenocarcinoma(234;0.0287)		TGAGTCTTATTTCCTGTAAAT	0.502																																																0													174	172	173					14																	81659105		2203	4300	6503	SO:0001583	missense	2957			X75383	CCDS9873.1, CCDS9874.1	14q31	2010-03-23	2002-08-29					"General transcription factors"	4646	protein-coding gene	gene with protein product		600520	"glucose regulated protein, 58kD pseudogene"			8224848	Standard	NM_015859		Approved	TFIIA	uc001xvf.2	P52655		ENST00000553612.1:c.691A>T	14.37:g.81659105T>A	ENSP00000452454:p.Asn231Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q3KNQ9	Missense_Mutation	SNP	ENST00000553612.1	37	CCDS9873.1	.	.	.	.	.	.	.	.	.	.	T	23.7	4.444489	0.83993	.	.	ENSG00000165417	ENST00000553612;ENST00000344860;ENST00000434192	T;T	0.44083	0.93;0.93	5.2	5.2	0.72013	.	0.000000	0.85682	D	0.000000	T	0.62588	0.2440	M	0.68952	2.095	0.80722	D	1	D	0.69078	0.997	D	0.81914	0.995	T	0.64723	-0.6340	10	0.52906	T	0.07	-21.9526	15.3673	0.74531	0.0:0.0:0.0:1.0	.	231	P52655	TF2AA_HUMAN	Y	231;192;192	ENSP00000452454:N231Y;ENSP00000409492:N192Y	ENSP00000298173:N231Y	N	-	1	0	GTF2A1	80728858	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.643000	0.83403	2.084000	0.62774	0.533000	0.62120	AAT		0.502	GTF2A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413309.1	NM_015859		A	81659105	T	A	81659105	3	1	688	1	0	0	0	0	1	0	0	0	6859	1841	64	5	451	5	GTF2A1	14	81659105	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10		81659105	25690435	69	44659										
SETD3	84193	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	99929881	99929881	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	atctgcacatactcttcccaCtcttttcctgggccaggcgc	7	16	3	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr14:99929881C>T	ENST00000331768.5	-	3	297	c.138G>A	c.(136-138)gaG>gaA	p.E46E	SETD3_ENST00000329331.3_Silent_p.E46E|SETD3_ENST00000453938.1_5'UTR|SETD3_ENST00000436070.2_Silent_p.E46E	NM_032233.2	NP_115609.2	Q86TU7	SETD3_HUMAN	SET domain containing 3	46					histone H3-K36 methylation (GO:0010452)|peptidyl-lysine dimethylation (GO:0018027)|peptidyl-lysine monomethylation (GO:0018026)|peptidyl-lysine trimethylation (GO:0018023)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	nuclear chromatin (GO:0000790)	histone methyltransferase activity (H3-K36 specific) (GO:0046975)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|transcription coactivator activity (GO:0003713)			NS(1)|central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(8)|lung(8)|ovary(1)|skin(1)	25		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)				ACTCTTCCCACTCTTTTCCTG	0.413																																																0													84	71	76					14																	99929881		2203	4300	6503	SO:0001819	synonymous_variant	84193			AK026680	CCDS9951.1, CCDS9952.1	14q32.2	2006-02-15	2006-02-15	2006-02-15	ENSG00000183576	ENSG00000183576			20493	protein-coding gene	gene with protein product		615671	"chromosome 14 open reading frame 154"	C14orf154			Standard	NM_032233		Approved	FLJ23027	uc001ygc.3	Q86TU7	OTTHUMG00000028970	ENST00000331768.5:c.138G>A	14.37:g.99929881C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJU3|A5PLP0|B4DZE8|Q0VAQ2|Q659C0|Q86TU8|Q96GY9|Q9H5U5	Silent	SNP	ENST00000331768.5	37	CCDS9951.1																																																																																				0.413	SETD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000072339.3	NM_032233		T	99929881	C	T	99929881	2	4	688	1	0	0	0	0	0	0	0	1	14145	564	20	2		2	SETD3	14	99929881	Silent	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	18270776	99929881	7419659	70	44660										
MTMR15	22909	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	31197838	31197838	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	gattcagaggcaaaatctcaTagttctgcagatgatgcttc	9	8	3	3			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr15:31197838T>G	ENST00000362065.4	+	2	1263	c.972T>G	c.(970-972)caT>caG	p.H324Q	FAN1_ENST00000565466.1_Missense_Mutation_p.H324Q|FAN1_ENST00000561594.1_Missense_Mutation_p.H324Q|FAN1_ENST00000561607.1_Missense_Mutation_p.H324Q	NM_014967.4	NP_055782.3	Q9Y2M0	FAN1_HUMAN	FANCD2/FANCI-associated nuclease 1	324					DNA catabolic process, endonucleolytic (GO:0000737)|DNA repair (GO:0006281)|double-strand break repair via homologous recombination (GO:0000724)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair, DNA incision (GO:0033683)	nucleus (GO:0005634)	5'-3' exonuclease activity (GO:0008409)|5'-flap endonuclease activity (GO:0017108)|DNA binding (GO:0003677)|magnesium ion binding (GO:0000287)|phosphodiesterase I activity (GO:0004528)|ubiquitin binding (GO:0043130)			autonomic_ganglia(2)|breast(2)|cervix(2)|endometrium(7)|kidney(1)|large_intestine(6)|lung(8)|skin(1)	29						CAAAATCTCATAGTTCTGCAG	0.418								Direct reversal of damage																																								0													71	67	68					15																	31197838		2202	4300	6502	SO:0001583	missense	22909				CCDS32186.1, CCDS58344.1	15q13.2-q13.3	2010-08-04	2010-08-04	2010-08-04		ENSG00000198690			29170	protein-coding gene	gene with protein product		613534	"KIAA1018", "myotubularin related protein 15"	KIAA1018, MTMR15		20603015, 20603016, 20603073	Standard	NM_014967		Approved		uc001zff.3	Q9Y2M0		ENST00000362065.4:c.972T>G	15.37:g.31197838T>G	ENSP00000354497:p.His324Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4M2|Q86WU8	Missense_Mutation	SNP	ENST00000362065.4	37	CCDS32186.1	.	.	.	.	.	.	.	.	.	.	T	3.821	-0.037772	0.07497	.	.	ENSG00000198690	ENST00000362065	T	0.40756	1.02	5.46	-9.68	0.00528	.	2.519990	0.00901	N	0.002356	T	0.18299	0.0439	N	0.16478	0.41	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.0;0.001	T	0.17228	-1.0376	10	0.12766	T	0.61	0.1551	2.0377	0.03543	0.2596:0.2533:0.3519:0.1352	.	324;324	Q9Y2M0;Q9Y2M0-2	FAN1_HUMAN;.	Q	324	ENSP00000354497:H324Q	ENSP00000354497:H324Q	H	+	3	2	FAN1	28985130	0.000000	0.05858	0.000000	0.03702	0.038000	0.13279	-3.615000	0.00414	-2.231000	0.00718	-0.291000	0.09656	CAT		0.418	FAN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000430740.1	NM_014967		G	31197838	T	G	31197838	3	3	688	1	0	0	0	0	1	0	0	0	9950	1403	49	5	974	5	MTMR15	15	31197838	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10		31197838	71333554	71	44661										
DMXL2	23312	broad.mit.edu	37	chr15	51828388	51828388	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cagtaactgggaatgagagtTggaagccaagccacattaga	12	7	0	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr15:51828388T>G	ENST00000251076.5	-	12	2576	c.2289A>C	c.(2287-2289)ccA>ccC	p.P763P	DMXL2_ENST00000449909.3_Silent_p.P763P|DMXL2_ENST00000543779.2_Silent_p.P763P	NM_001174116.1|NM_015263.3	NP_001167587.1|NP_056078.2	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	763						cell junction (GO:0030054)|extracellular space (GO:0005615)|membrane (GO:0016020)|synaptic vesicle (GO:0008021)	Rab GTPase binding (GO:0017137)			breast(4)|central_nervous_system(1)|cervix(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(26)|liver(1)|lung(28)|ovary(7)|prostate(7)|skin(4)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	101				all cancers(107;0.00494)		GAATGAGAGTTGGAAGCCAAG	0.358																																																0													96	84	88					15																	51828388		2194	4292	6486	SO:0001819	synonymous_variant	23312			AB020663	CCDS10141.1, CCDS53945.1, CCDS53946.1	15q21.2	2013-01-10			ENSG00000104093	ENSG00000104093		"WD repeat domain containing"	2938	protein-coding gene	gene with protein product	"rabconnectin 3"	612186					Standard	NM_001174116		Approved	RC3, KIAA0856	uc010ufy.2	Q8TDJ6	OTTHUMG00000131749	ENST00000251076.5:c.2289A>C	15.37:g.51828388T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RTR3|B7ZMH3|F5GWF1|O94938	Silent	SNP	ENST00000251076.5	37	CCDS10141.1																																																																																				0.358	DMXL2-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000254671.2	NM_015263		G	51828388	T	G	51828388	2	3	688	1	0	0	0	0	0	0	0	1	4597	1799	63	5		5	DMXL2	15	51828388	Silent	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10	20630550	51828388	50703004	72	44662										
ONECUT1	3175	broad.mit.edu	37	chr15	53081865	53081867	+	In_Frame_Del	DEL	GGT	GGT	-													0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	caggctgtgctcaggggcccGgtggtggtggtggtaatctc							TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	GGT	GGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr15:53081865_53081867delGGT	ENST00000305901.5	-	1	342_344	c.215_217delACC	c.(214-219)caccgg>cgg	p.H72del	ONECUT1_ENST00000561401.2_Intron	NM_004498.2	NP_004489.1	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	72	Poly-His.				B cell differentiation (GO:0030183)|cell fate commitment (GO:0045165)|cilium assembly (GO:0042384)|endocrine pancreas development (GO:0031018)|endoderm development (GO:0007492)|epithelial cell development (GO:0002064)|glucose metabolic process (GO:0006006)|liver development (GO:0001889)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|positive regulation of cell migration (GO:0030335)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of cell-matrix adhesion (GO:0001952)|regulation of transcription, DNA-templated (GO:0006355)|spleen development (GO:0048536)	nucleus (GO:0005634)	DNA binding (GO:0003677)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)			endometrium(2)|kidney(1)|large_intestine(3)|lung(8)|prostate(2)|skin(1)	17				all cancers(107;0.0708)		TCAGGGGCCCGGTGGTGGTGGTG	0.719																																																0																																										SO:0001651	inframe_deletion	3175			U77975	CCDS10150.1	15q21.3	2012-03-09	2007-07-16		ENSG00000169856	ENSG00000169856		"Homeoboxes / CUT class"	8138	protein-coding gene	gene with protein product		604164	"one cut domain, family member 1"	HNF6, HNF6A		8887657, 8790352	Standard	NM_004498		Approved	HNF-6	uc002aci.2	Q9UBC0	OTTHUMG00000131899	ENST00000305901.5:c.215_217delACC	15.37:g.53081874_53081876delGGT	ENSP00000302630:p.His72del	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTV4|Q99744|Q9UMR6	In_Frame_Del	DEL	ENST00000305901.5	37	CCDS10150.1																																																																																				0.719	ONECUT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254849.2			-	53081867	GGT	-	53081865	7	5	688	1	0	1	0	1	0	0	0	0	10875	1115	39	0	1188	0	ONECUT1	15	53081865	In_Frame_Del	DEL	GGT	TCGA-KV-A6GD-01A-11D-A31X-10	1253477	53081865	49449527	73	44663										
SIN3A	25942	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	75705130	75705130	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	gactttggcaggtgggggctGaggagctggctgggcaggag	22	6	0	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr15:75705130G>A	ENST00000394947.3	-	5	1044	c.730C>T	c.(730-732)Cag>Tag	p.Q244*	SIN3A_ENST00000394949.4_Nonsense_Mutation_p.Q244*|SIN3A_ENST00000360439.4_Nonsense_Mutation_p.Q244*	NM_001145358.1	NP_001138830.1			SIN3 transcription regulator family member A											breast(2)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(16)|lung(15)|ovary(3)|prostate(2)|skin(5)|upper_aerodigestive_tract(2)	63						GGTGggggctgaggagctggc	0.552																																																0													81	75	77					15																	75705130		2197	4294	6491	SO:0001587	stop_gained	25942			AK027559	CCDS10279.1	15q22.33	2013-08-21	2013-08-21		ENSG00000169375	ENSG00000169375			19353	protein-coding gene	gene with protein product		607776	"SIN3 homolog A, transcription regulator (yeast)", "SIN3 transcription regulator homolog A (yeast)"			10773092, 7601471	Standard	NM_001145357		Approved	KIAA0700, DKFZP434K2235	uc002bai.3	Q96ST3	OTTHUMG00000142834	ENST00000394947.3:c.730C>T	15.37:g.75705130G>A	ENSP00000378402:p.Gln244*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000394947.3	37	CCDS10279.1	.	.	.	.	.	.	.	.	.	.	G	37	6.213995	0.97380	.	.	ENSG00000169375	ENST00000394947;ENST00000394949;ENST00000360439	.	.	.	6.04	5.12	0.69794	.	0.098566	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.11485	T	0.65	-11.3013	14.2887	0.66263	0.0708:0.0:0.9292:0.0	.	.	.	.	X	244	.	ENSP00000353622:Q244X	Q	-	1	0	SIN3A	73492183	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	9.867000	0.99620	1.557000	0.49525	0.561000	0.74099	CAG		0.552	SIN3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286469.1	NM_015477		A	75705130	G	A	75705130	4	1	688	1	0	0	0	0	0	1	0	0	14338	1299	45	2	3159	2	SIN3A	15	75705130	Nonsense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	22623265	75705130	26826262	74	44664										
RASGRF1	5923	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr15	79350728	79350728	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	catcctcgatctgctgccgaAgctgcttggccacggtcttc	10	15	2	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr15:79350728A>T	ENST00000419573.3	-	3	753	c.479T>A	c.(478-480)cTt>cAt	p.L160H	RASGRF1_ENST00000560334.1_5'UTR|RASGRF1_ENST00000558480.2_Missense_Mutation_p.L160H	NM_002891.4	NP_002882.3	Q13972	RGRF1_HUMAN	Ras protein-specific guanine nucleotide-releasing factor 1	160					activation of Rac GTPase activity (GO:0032863)|cell proliferation (GO:0008283)|long-term memory (GO:0007616)|neuron projection development (GO:0031175)|positive regulation of Ras GTPase activity (GO:0032320)|positive regulation of Ras protein signal transduction (GO:0046579)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)|regulation of neuronal synaptic plasticity (GO:0048168)|regulation of Rac protein signal transduction (GO:0035020)|regulation of Ras protein signal transduction (GO:0046578)|regulation of synaptic plasticity (GO:0048167)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)|synaptic transmission (GO:0007268)	cytosol (GO:0005829)|growth cone (GO:0030426)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)	guanyl-nucleotide exchange factor activity (GO:0005085)|Ras guanyl-nucleotide exchange factor activity (GO:0005088)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(2)|central_nervous_system(2)|endometrium(7)|kidney(4)|large_intestine(18)|lung(23)|ovary(2)|prostate(6)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	71						CTGCTGCCGAAGCTGCTTGGC	0.602																																																0													124	101	109					15																	79350728		2196	4293	6489	SO:0001583	missense	5923			M91815	CCDS10309.1, CCDS42065.1, CCDS45320.1	15q24	2013-01-10			ENSG00000058335	ENSG00000058335		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	9875	protein-coding gene	gene with protein product		606600		GRF1		7684828, 1379731	Standard	NM_153815		Approved	CDC25L, CDC25, GRF55, H-GRF55, GNRP, PP13187	uc002beq.3	Q13972	OTTHUMG00000144172	ENST00000419573.3:c.479T>A	15.37:g.79350728A>T	ENSP00000405963:p.Leu160His	Somatic		WXS	Illumina HiSeq	Phase_I	F8VPA5|H0YKF2|J3KQP9|Q16027	Missense_Mutation	SNP	ENST00000419573.3	37	CCDS10309.1	.	.	.	.	.	.	.	.	.	.	A	20.4	3.982389	0.74474	.	.	ENSG00000058335	ENST00000419573;ENST00000394741	T	0.46819	0.86	4.59	4.59	0.56863	.	0.000000	0.64402	D	0.000005	T	0.62258	0.2413	L	0.55481	1.735	0.80722	D	1	D;D;D;D	0.89917	0.999;1.0;1.0;1.0	D;D;D;D	0.85130	0.954;0.984;0.993;0.997	T	0.65492	-0.6155	10	0.87932	D	0	.	11.9588	0.52997	1.0:0.0:0.0:0.0	.	160;160;160;160	A8K270;Q8IUU5;Q13972;F8VPA5	.;.;RGRF1_HUMAN;.	H	160	ENSP00000405963:L160H	ENSP00000378224:L160H	L	-	2	0	RASGRF1	77137783	1.000000	0.71417	0.997000	0.53966	0.677000	0.39632	8.730000	0.91510	1.917000	0.55516	0.443000	0.29094	CTT		0.602	RASGRF1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000291371.3	NM_002891		T	79350728	A	T	79350728	3	4	688	1	0	0	0	0	1	0	0	0	13085	72	3	5	3446	5	RASGRF1	15	79350728	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	3645598	79350728	23180664	75	44665										
GRIN2A	2903	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	9858489	9858489	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	agttattgaggttatccttcTgccggttggccacaaatgtt	10	8	1	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr16:9858489T>C	ENST00000396573.2	-	14	3221	c.2912A>G	c.(2911-2913)cAg>cGg	p.Q971R	GRIN2A_ENST00000535259.1_Missense_Mutation_p.Q814R|GRIN2A_ENST00000404927.2_Missense_Mutation_p.Q971R|GRIN2A_ENST00000330684.3_Missense_Mutation_p.Q971R|GRIN2A_ENST00000396575.2_Missense_Mutation_p.Q971R|GRIN2A_ENST00000562109.1_Missense_Mutation_p.Q971R	NM_000833.3	NP_000824.1	Q12879	NMDE1_HUMAN	glutamate receptor, ionotropic, N-methyl D-aspartate 2A	971					directional locomotion (GO:0033058)|dopamine metabolic process (GO:0042417)|glutamate receptor signaling pathway (GO:0007215)|ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|learning or memory (GO:0007611)|memory (GO:0007613)|negative regulation of protein catabolic process (GO:0042177)|neurogenesis (GO:0022008)|positive regulation of apoptotic process (GO:0043065)|protein localization (GO:0008104)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of sensory perception of pain (GO:0051930)|regulation of synaptic plasticity (GO:0048167)|response to amphetamine (GO:0001975)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to wounding (GO:0009611)|sensory perception of pain (GO:0019233)|serotonin metabolic process (GO:0042428)|sleep (GO:0030431)|startle response (GO:0001964)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transport (GO:0006810)|visual learning (GO:0008542)	cell junction (GO:0030054)|cell surface (GO:0009986)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|integral component of plasma membrane (GO:0005887)|N-methyl-D-aspartate selective glutamate receptor complex (GO:0017146)|neuronal postsynaptic density (GO:0097481)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|presynaptic membrane (GO:0042734)|synaptic vesicle (GO:0008021)	calcium channel activity (GO:0005262)|extracellular-glutamate-gated ion channel activity (GO:0005234)|N-methyl-D-aspartate selective glutamate receptor activity (GO:0004972)|zinc ion binding (GO:0008270)			NS(7)|breast(5)|cervix(1)|endometrium(11)|kidney(6)|large_intestine(36)|lung(71)|ovary(4)|prostate(9)|skin(45)|upper_aerodigestive_tract(2)|urinary_tract(1)	198					Acamprosate(DB00659)|Acetylcysteine(DB06151)|Atomoxetine(DB00289)|Felbamate(DB00949)|Gabapentin(DB00996)|Glycine(DB00145)|Halothane(DB01159)|Ketobemidone(DB06738)|Memantine(DB01043)|Milnacipran(DB04896)|Pentobarbital(DB00312)|Pethidine(DB00454)|Phenobarbital(DB01174)|Secobarbital(DB00418)	GTTATCCTTCTGCCGGTTGGC	0.468																																																0													151	131	137					16																	9858489		2197	4300	6497	SO:0001583	missense	2903				CCDS10539.1, CCDS45407.1	16p13.2	2012-08-29			ENSG00000183454	ENSG00000183454		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4585	protein-coding gene	gene with protein product		138253		NMDAR2A		9480759	Standard	XM_005255267		Approved	GluN2A	uc002czo.4	Q12879	OTTHUMG00000129721	ENST00000396573.2:c.2912A>G	16.37:g.9858489T>C	ENSP00000379818:p.Gln971Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O00669|Q17RZ6	Missense_Mutation	SNP	ENST00000396573.2	37	CCDS10539.1	.	.	.	.	.	.	.	.	.	.	T	5.637	0.302152	0.10678	.	.	ENSG00000183454	ENST00000396573;ENST00000404927;ENST00000535259;ENST00000330684;ENST00000396575	T;T;T;T;T	0.11712	2.75;2.75;2.76;2.75;2.75	5.33	5.33	0.75918	Glutamate [NMDA] receptor, epsilon subunit, C-terminal (1);	0.088776	0.85682	D	0.000000	T	0.08714	0.0216	L	0.27053	0.805	0.23293	N	0.997962	B;B;B	0.24317	0.034;0.101;0.005	B;B;B	0.29440	0.062;0.102;0.008	T	0.32428	-0.9907	9	.	.	.	.	10.6354	0.45563	0.0:0.0:0.1607:0.8393	.	814;971;971	F5GZ52;Q17RZ6;Q12879	.;.;NMDE1_HUMAN	R	971;971;814;971;971	ENSP00000379818:Q971R;ENSP00000385872:Q971R;ENSP00000441572:Q814R;ENSP00000332549:Q971R;ENSP00000379820:Q971R	.	Q	-	2	0	GRIN2A	9765990	1.000000	0.71417	1.000000	0.80357	0.936000	0.57629	4.691000	0.61738	2.016000	0.59253	0.533000	0.62120	CAG		0.468	GRIN2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251930.3			C	9858489	T	C	9858489	3	2	688	1	0	0	0	0	1	0	0	0	6786	1580	55	3	1486	3	GRIN2A	16	9858489	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10		9858489	80496264	76	44666										
ITGAX	3687	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	31373395	31373395	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cctggaatccttttctcccaGgatggccccgttctgggggc	12	14	2	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr16:31373395G>A	ENST00000268296.4	+	11	1207		c.e11-1		ITGAX_ENST00000562522.1_Splice_Site	NM_000887.3	NP_000878.2	P20702	ITAX_HUMAN	integrin, alpha X (complement component 3 receptor 4 subunit)						blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|heterotypic cell-cell adhesion (GO:0034113)|integrin-mediated signaling pathway (GO:0007229)|leukocyte migration (GO:0050900)|organ morphogenesis (GO:0009887)	cell surface (GO:0009986)|integrin complex (GO:0008305)|membrane (GO:0016020)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|receptor activity (GO:0004872)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(8)|lung(42)|ovary(2)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	77						TTTTCTCCCAGGATGGCCCCG	0.592																																																0													82	87	86					16																	31373395		2197	4300	6497	SO:0001630	splice_region_variant	3687			BC038237	CCDS10711.1, CCDS67014.1	16p11.2	2010-03-23	2006-02-10		ENSG00000140678	ENSG00000140678		"CD molecules", "Complement system", "Integrins"	6152	protein-coding gene	gene with protein product		151510	"integrin, alpha X (antigen CD11C (p150), alpha polypeptide)"	CD11C		3284962, 2303426	Standard	NM_001286375		Approved	CD11c	uc002ebu.1	P20702	OTTHUMG00000132465	ENST00000268296.4:c.1087-1G>A	16.37:g.31373395G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVA6	Splice_Site	SNP	ENST00000268296.4	37	CCDS10711.1	.	.	.	.	.	.	.	.	.	.	g	13.52	2.262216	0.39995	.	.	ENSG00000140678	ENST00000268296	.	.	.	4.5	4.5	0.54988	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.4899	0.67645	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	ITGAX	31280896	1.000000	0.71417	1.000000	0.80357	0.483000	0.33249	5.608000	0.67654	2.217000	0.71921	0.580000	0.79431	.		0.592	ITGAX-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000255628.2	NM_000887	Intron	A	31373395	G	A	31373395	5	1	688	1	0	0	0	0	0	0	1	0	7896	1014	35	2	1128	2	ITGAX	16	31373395	Splice_Site	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	21514906	31373395	58981358	77	44667										
ITGAX	3687	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	31383064	31383064	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	tgagccgagtccgagtcctcGggctgaaggcacactgtgaa	14	11	0	3	rs368436373		TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr16:31383064G>A	ENST00000268296.4	+	17	2240	c.2119G>A	c.(2119-2121)Ggg>Agg	p.G707R	ITGAX_ENST00000562522.1_Missense_Mutation_p.G707R	NM_000887.3	NP_000878.2	P20702	ITAX_HUMAN	integrin, alpha X (complement component 3 receptor 4 subunit)	707					blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|heterotypic cell-cell adhesion (GO:0034113)|integrin-mediated signaling pathway (GO:0007229)|leukocyte migration (GO:0050900)|organ morphogenesis (GO:0009887)	cell surface (GO:0009986)|integrin complex (GO:0008305)|membrane (GO:0016020)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)|receptor activity (GO:0004872)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(8)|lung(42)|ovary(2)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	77						CCGAGTCCTCGGGCTGAAGGC	0.652																																																0								G	ARG/GLY	0,4394		0,0,2197	60	54	56		2119	4.4	0	16		56	2,8598	2.2+/-6.3	0,2,4298	no	missense	ITGAX	NM_000887.3	125	0,2,6495	AA,AG,GG		0.0233,0.0,0.0154	probably-damaging	707/1164	31383064	2,12992	2197	4300	6497	SO:0001583	missense	3687			BC038237	CCDS10711.1, CCDS67014.1	16p11.2	2010-03-23	2006-02-10		ENSG00000140678	ENSG00000140678		"CD molecules", "Complement system", "Integrins"	6152	protein-coding gene	gene with protein product		151510	"integrin, alpha X (antigen CD11C (p150), alpha polypeptide)"	CD11C		3284962, 2303426	Standard	NM_001286375		Approved	CD11c	uc002ebu.1	P20702	OTTHUMG00000132465	ENST00000268296.4:c.2119G>A	16.37:g.31383064G>A	ENSP00000268296:p.Gly707Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVA6	Missense_Mutation	SNP	ENST00000268296.4	37	CCDS10711.1	.	.	.	.	.	.	.	.	.	.	G	15.13	2.741680	0.49151	0.0	2.33E-4	ENSG00000140678	ENST00000268296	T	0.44881	0.91	5.4	4.43	0.53597	Integrin alpha-2 (1);	.	.	.	.	T	0.51398	0.1672	L	0.55834	1.745	0.09310	N	1	D	0.59767	0.986	P	0.56514	0.8	T	0.38436	-0.9661	9	0.49607	T	0.09	.	10.5956	0.45336	0.0933:0.0:0.9067:0.0	.	707	P20702	ITAX_HUMAN	R	707	ENSP00000268296:G707R	ENSP00000268296:G707R	G	+	1	0	ITGAX	31290565	0.076000	0.21285	0.028000	0.17463	0.033000	0.12548	2.282000	0.43461	2.662000	0.90505	0.655000	0.94253	GGG		0.652	ITGAX-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000255628.2	NM_000887		A	31383064	G	A	31383064	3	1	688	1	0	0	0	0	1	0	0	0	7896	1116	39	1	2185	1	ITGAX	16	31383064	Missense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	9669	31383064	58971689	78	44668										
KIAA0664	23277	bcgsc.ca	37	chr17	2601710	2601710	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	gggcgccacgtaggccgccaCgtcccccccgaagtccttgt	12	18	0	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr17:2601710C>T	ENST00000570628.2	-	10	1432	c.1327G>A	c.(1327-1329)Gtg>Atg	p.V443M	CLUH_ENST00000435359.1_Missense_Mutation_p.V443M|CLUH_ENST00000538975.1_Missense_Mutation_p.V443M			O75153	CLU_HUMAN	clustered mitochondria (cluA/CLU1) homolog	443					intracellular distribution of mitochondria (GO:0048312)	cytoplasm (GO:0005737)											TAGGCCGCCACGTCCCCCCCG	0.627																																																0													45	52	50					17																	2601710		2123	4211	6334	SO:0001583	missense	23277			AB014564	CCDS45572.1	17p13.3	2012-12-18	2012-11-30	2012-11-30	ENSG00000132361	ENSG00000132361			29094	protein-coding gene	gene with protein product			"KIAA0664"	KIAA0664			Standard	XM_005256567		Approved	CLU1	uc002fuy.1	O75153	OTTHUMG00000177575	ENST00000570628.2:c.1327G>A	17.37:g.2601710C>T	ENSP00000458986:p.Val443Met	Somatic		WXS	Illumina HiSeq	Phase_1	Q6AHY2|Q6P3X7|Q6ZUG8|Q8N4U7|Q9BTA3|Q9H979	Missense_Mutation	SNP	ENST00000570628.2	37	CCDS45572.1	.	.	.	.	.	.	.	.	.	.	C	15.68	2.904464	0.52333	.	.	ENSG00000132361	ENST00000435359;ENST00000322335;ENST00000538975	T;T	0.80393	-1.37;-1.37	5.41	5.41	0.78517	.	0.289374	0.39210	N	0.001425	T	0.76018	0.3929	N	0.14661	0.345	0.35837	D	0.825776	D;D	0.61697	0.99;0.981	P;P	0.56648	0.803;0.803	T	0.80061	-0.1540	10	0.38643	T	0.18	.	11.6201	0.51113	0.0:0.9191:0.0:0.0809	.	443;443	O75153;C9J6D7	K0664_HUMAN;.	M	443	ENSP00000388872:V443M;ENSP00000439628:V443M	ENSP00000320468:V443M	V	-	1	0	KIAA0664	2548460	0.996000	0.38824	0.998000	0.56505	0.297000	0.27493	2.506000	0.45433	2.532000	0.85374	0.655000	0.94253	GTG		0.627	CLUH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437807.2	NM_015229		T	2601710	C	T	2601710	3	4	688	1	0	0	0	0	1	0	0	0	8196	536	19	1	2670	1	KIAA0664	17	2601710	Missense_Mutation	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10		2601710	78593500	79	44669										
MFAP4	4239	broad.mit.edu	37	chr17	19288499	19288499	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cggggagatggagaagtcagCgtacttggcataggccgtgt	17	7	1	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr17:19288499C>T	ENST00000299610.4	-	5	517	c.433G>A	c.(433-435)Gct>Act	p.A145T	MFAP4_ENST00000395592.2_Missense_Mutation_p.A169T|MFAP4_ENST00000574313.2_5'Flank|MFAP4_ENST00000497081.2_Missense_Mutation_p.A170T	NM_002404.2	NP_002395.1	P55083	MFAP4_HUMAN	microfibrillar-associated protein 4	145	Fibrinogen C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00739}.				cell adhesion (GO:0007155)|cellular response to UV-B (GO:0071493)|elastic fiber assembly (GO:0048251)|extracellular fibril organization (GO:0043206)|extracellular matrix organization (GO:0030198)|regulation of collagen metabolic process (GO:0010712)|UV protection (GO:0009650)	elastic fiber (GO:0071953)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|microfibril (GO:0001527)				large_intestine(1)|lung(6)|prostate(2)|upper_aerodigestive_tract(1)	10	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					GAGAAGTCAGCGTACTTGGCA	0.577																																																0													184	131	149					17																	19288499		2203	4300	6503	SO:0001583	missense	4239			L38486	CCDS11208.1, CCDS56023.1	17p11.2	2013-02-06			ENSG00000166482	ENSG00000166482		"Fibrinogen C domain containing"	7035	protein-coding gene	gene with protein product	"microfibril-associated glycoprotein 4"	600596				7633408	Standard	NM_001198695		Approved		uc002gvs.3	P55083	OTTHUMG00000059585	ENST00000299610.4:c.433G>A	17.37:g.19288499C>T	ENSP00000299610:p.Ala145Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAJ1|A8MVM2|B4E317|Q6P680	Missense_Mutation	SNP	ENST00000299610.4	37	CCDS11208.1	.	.	.	.	.	.	.	.	.	.	c	7.070	0.568193	0.13560	.	.	ENSG00000166482	ENST00000395592;ENST00000299610	T;T	0.20881	2.04;2.04	5.0	-0.0266	0.13930	Fibrinogen, alpha/beta/gamma chain, C-terminal globular (4);Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1 (1);	1.423620	0.04430	N	0.369121	T	0.10680	0.0261	N	0.05608	-0.01	0.09310	N	1	B;B	0.16396	0.001;0.017	B;B	0.12837	0.003;0.008	T	0.29181	-1.0020	10	0.26408	T	0.33	.	5.4949	0.16797	0.0:0.5367:0.1482:0.3151	.	145;169	P55083;A8MVM2	MFAP4_HUMAN;.	T	169;145	ENSP00000378957:A169T;ENSP00000299610:A145T	ENSP00000299610:A145T	A	-	1	0	MFAP4	19229092	0.000000	0.05858	0.003000	0.11579	0.115000	0.19883	-0.283000	0.08433	0.158000	0.19367	0.550000	0.68814	GCT		0.577	MFAP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132493.2	NM_002404		T	19288499	C	T	19288499	3	4	688	1	0	0	0	0	1	0	0	0	9524	768	27	1	342	1	MFAP4	17	19288499	Missense_Mutation	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	16686789	19288499	61906711	80	44670										
PSMD11	5717	broad.mit.edu	37	chr17	30771555	30771555	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cggtaagatggcggcggcggCggtggtggagttccagagag	21	7	0	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr17:30771555C>T	ENST00000261712.3	+	1	277	c.14C>T	c.(13-15)gCg>gTg	p.A5V	PSMD11_ENST00000457654.2_Missense_Mutation_p.A5V	NM_001270482.1|NM_002815.3	NP_001257411.1|NP_002806.2	O00231	PSD11_HUMAN	proteasome (prosome, macropain) 26S subunit, non-ATPase, 11	5					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|apoptotic process (GO:0006915)|cellular nitrogen compound metabolic process (GO:0034641)|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|G1/S transition of mitotic cell cycle (GO:0000082)|gene expression (GO:0010467)|mitotic cell cycle (GO:0000278)|mRNA metabolic process (GO:0016071)|negative regulation of apoptotic process (GO:0043066)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|proteasome assembly (GO:0043248)|protein polyubiquitination (GO:0000209)|regulation of apoptotic process (GO:0042981)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|stem cell differentiation (GO:0048863)|ubiquitin-dependent protein catabolic process (GO:0006511)|viral process (GO:0016032)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|proteasome accessory complex (GO:0022624)|proteasome complex (GO:0000502)|proteasome regulatory particle (GO:0005838)				breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(7)|ovary(1)|skin(4)|upper_aerodigestive_tract(1)	19		Breast(31;0.159)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.109)			gcggcggcggcggtggtggAG	0.701																																					Ovarian(130;1038 1716 9294 11987 19279)											0													18	18	18					17																	30771555		2186	4270	6456	SO:0001583	missense	5717			AB003102	CCDS11272.1	17q12	2008-05-22			ENSG00000108671	ENSG00000108671		"Proteasome (prosome, macropain) subunits"	9556	protein-coding gene	gene with protein product		604449				9426256, 9119060	Standard	NM_001270482		Approved	S9, p44.5, MGC3844, Rpn6	uc010cta.2	O00231	OTTHUMG00000132811	ENST00000261712.3:c.14C>T	17.37:g.30771555C>T	ENSP00000261712:p.Ala5Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3I7|E1P663|O00495|Q53FT5	Missense_Mutation	SNP	ENST00000261712.3	37	CCDS11272.1	.	.	.	.	.	.	.	.	.	.	C	20.5	3.999150	0.74818	.	.	ENSG00000108671	ENST00000261712	.	.	.	5.25	4.28	0.50868	.	0.000000	0.85682	D	0.000000	T	0.24928	0.0605	N	0.08118	0	0.53688	D	0.999975	P;B	0.37038	0.579;0.212	B;B	0.33392	0.163;0.049	T	0.08086	-1.0739	9	0.27785	T	0.31	-19.5166	11.4424	0.50105	0.0:0.9133:0.0:0.0867	.	5;5	B4DTS5;O00231	.;PSD11_HUMAN	V	5	.	ENSP00000261712:A5V	A	+	2	0	PSMD11	27795668	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	6.945000	0.75947	1.455000	0.47813	0.558000	0.71614	GCG		0.701	PSMD11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256252.2	NM_002815		T	30771555	C	T	30771555	3	4	688	1	0	0	0	0	1	0	0	0	12704	768	27	1	16	1	PSMD11	17	30771555	Missense_Mutation	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	11483056	30771555	50423655	81	44671										
COL1A1	1277	broad.mit.edu;bcgsc.ca	37	chr17	48277127	48277128	+	Missense_Mutation	DNP	GC	GC	AT													0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	gccgcacctgagccgtcgggGcagacgggacagcactcgcc							TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr17:48277127_48277128GC>AT	ENST00000225964.5	-	2	402_403	c.284_285GC>AT	c.(283-285)tGC>tAT	p.C95Y		NM_000088.3	NP_000079	P02452	CO1A1_HUMAN	collagen, type I, alpha 1	95	VWFC. {ECO:0000255|PROSITE- ProRule:PRU00220}.				blood coagulation (GO:0007596)|blood vessel development (GO:0001568)|bone trabecula formation (GO:0060346)|cartilage development involved in endochondral bone morphogenesis (GO:0060351)|cellular response to amino acid stimulus (GO:0071230)|cellular response to mechanical stimulus (GO:0071260)|cellular response to retinoic acid (GO:0071300)|cellular response to transforming growth factor beta stimulus (GO:0071560)|collagen biosynthetic process (GO:0032964)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|embryonic skeletal system development (GO:0048706)|endochondral ossification (GO:0001958)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|face morphogenesis (GO:0060325)|intramembranous ossification (GO:0001957)|leukocyte migration (GO:0050900)|negative regulation of cell-substrate adhesion (GO:0010812)|osteoblast differentiation (GO:0001649)|platelet activation (GO:0030168)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of cell migration (GO:0030335)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of transcription, DNA-templated (GO:0045893)|protein heterotrimerization (GO:0070208)|protein localization to nucleus (GO:0034504)|protein transport (GO:0015031)|response to cAMP (GO:0051591)|response to corticosteroid (GO:0031960)|response to estradiol (GO:0032355)|response to hydrogen peroxide (GO:0042542)|response to nutrient (GO:0007584)|response to peptide hormone (GO:0043434)|sensory perception of sound (GO:0007605)|skeletal system development (GO:0001501)|skin morphogenesis (GO:0043589)|tooth mineralization (GO:0034505)|visual perception (GO:0007601)	collagen type I trimer (GO:0005584)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)	extracellular matrix structural constituent (GO:0005201)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|platelet-derived growth factor binding (GO:0048407)		COL1A1/PDGFB(429)	NS(1)|breast(3)|central_nervous_system(8)|endometrium(3)|kidney(4)|large_intestine(17)|liver(3)|lung(18)|ovary(1)|pancreas(1)|prostate(4)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	71					Collagenase(DB00048)	AGCCGTCGGGGCAGACGGGACA	0.728			T	"PDGFB, USP6"	"dermatofibrosarcoma protuberans, aneurysmal bone cyst "		Osteogenesis imperfecta																																Dom	yes		17	17q21.31-q22	1277	"collagen, type I, alpha 1"	yes	M	0																																										SO:0001583	missense	1277			Z74615	CCDS11561.1	17q21.33	2014-09-17			ENSG00000108821	ENSG00000108821		"Collagens"	2197	protein-coding gene	gene with protein product		120150				3178743, 2857713	Standard	NM_000088		Approved	OI4	uc002iqm.3	P02452	OTTHUMG00000148674	ENST00000225964.5:c.284_285delinsAT	17.37:g.48277127_48277128delinsAT	ENSP00000225964:p.Cys95Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	O76045|P78441|Q13896|Q13902|Q13903|Q14037|Q14992|Q15176|Q15201|Q16050|Q59F64|Q7KZ30|Q7KZ34|Q8IVI5|Q8N473|Q9UML6|Q9UMM7	Missense_Mutation	DNP	ENST00000225964.5	37	CCDS11561.1																																																																																				0.728	COL1A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000309036.2			AT	48277128	GC	AT	48277127	3	1	688	1	0	0	0	0	1	0	0	0	3679	1195	42	2	4309	2	COL1A1	17	48277127	Missense_Mutation	DNP	GC	TCGA-KV-A6GD-01A-11D-A31X-10	17505572	48277127	32918083	82	44672										
SFRS1	6426	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	56083837	56083837	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	ggaaactccacccgcagacgGtacccatcgtaatcatagcc	8	15	1	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr17:56083837G>T	ENST00000258962.4	-	2	454	c.246C>A	c.(244-246)taC>taA	p.Y82*	SRSF1_ENST00000582730.2_Nonsense_Mutation_p.Y82*|RP11-159D12.5_ENST00000578794.1_5'Flank|SRSF1_ENST00000584773.1_Nonsense_Mutation_p.Y82*|SRSF1_ENST00000585096.1_Intron|SRSF1_ENST00000581497.1_5'Flank	NM_006924.4	NP_008855.1	Q07955	SRSF1_HUMAN	serine/arginine-rich splicing factor 1	82	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				cardiac muscle contraction (GO:0060048)|gene expression (GO:0010467)|in utero embryonic development (GO:0001701)|mRNA 3'-end processing (GO:0031124)|mRNA 5'-splice site recognition (GO:0000395)|mRNA export from nucleus (GO:0006406)|mRNA processing (GO:0006397)|mRNA splice site selection (GO:0006376)|mRNA splicing, via spliceosome (GO:0000398)|regulation of mRNA splicing, via spliceosome (GO:0048024)|regulation of mRNA stability (GO:0043488)|regulation of transcription, DNA-templated (GO:0006355)|regulation of translation (GO:0006417)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	catalytic step 2 spliceosome (GO:0071013)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nuclear speck (GO:0016607)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)	p.Y82*(1)		breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(1)|lung(7)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	24						CCCGCAGACGGTACCCATCGT	0.637																																																1	Substitution - Nonsense(1)	haematopoietic_and_lymphoid_tissue(1)											30	28	29					17																	56083837		2203	4298	6501	SO:0001587	stop_gained	6426				CCDS11600.1, CCDS58580.1	17q22	2013-02-12	2010-06-22	2010-06-22	ENSG00000136450	ENSG00000136450		"Serine/arginine-rich splicing factors", "RNA binding motif (RRM) containing"	10780	protein-coding gene	gene with protein product	"splicing factor 2", "pre-mRNA-splicing factor SF2, P33 subunit", "alternate splicing factor", "SR splicing factor 1"	600812	"splicing factor, arginine/serine-rich 1"	SFRS1		8530103, 20516191	Standard	NM_006924		Approved	ASF, SF2, SRp30a, SF2p33, MGC5228	uc002ivi.3	Q07955		ENST00000258962.4:c.246C>A	17.37:g.56083837G>T	ENSP00000258962:p.Tyr82*	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6Z7|D3DTZ3|Q13809	Nonsense_Mutation	SNP	ENST00000258962.4	37	CCDS11600.1	.	.	.	.	.	.	.	.	.	.	G	21.4	4.149607	0.78001	.	.	ENSG00000136450	ENST00000258962	.	.	.	5.96	-2.82	0.05787	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.26408	T	0.33	.	13.3631	0.60667	0.5712:0.0:0.4287:0.0	.	.	.	.	X	82	.	ENSP00000258962:Y82X	Y	-	3	2	SRSF1	53438836	1.000000	0.71417	0.931000	0.37212	0.911000	0.54048	0.912000	0.28597	-0.291000	0.09012	-0.794000	0.03295	TAC		0.637	SRSF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443335.1	NM_006924		T	56083837	G	T	56083837	4	4	688	1	0	0	0	0	0	1	0	0	14178	1256	44	4	566	4	SFRS1	17	56083837	Nonsense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	7806710	56083837	25111373	83	44673										
NETO1	81832	hgsc.bcm.edu;bcgsc.ca	37	chr18	70450990	70450990	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cccacatgcggatcaccccaAgacccgtgcgtagcatgaca	9	16	1	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr18:70450990A>T	ENST00000327305.6	-	7	1448	c.791T>A	c.(790-792)cTt>cAt	p.L264H	NETO1_ENST00000583169.1_Missense_Mutation_p.L264H|NETO1_ENST00000299430.2_Missense_Mutation_p.L263H	NM_138966.3	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin (NRP) and tolloid (TLL)-like 1	264	CUB 2. {ECO:0000255|PROSITE- ProRule:PRU00059}.				memory (GO:0007613)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|receptor localization to synapse (GO:0097120)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|visual learning (GO:0008542)	cell junction (GO:0030054)|excitatory synapse (GO:0060076)|extracellular region (GO:0005576)|kainate selective glutamate receptor complex (GO:0032983)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)				NS(3)|breast(2)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(7)|lung(36)|ovary(2)|prostate(3)|skin(3)|stomach(1)	63		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		GATCACCCCAAGACCCGTGCG	0.478																																																0													193	165	174					18																	70450990		2203	4300	6503	SO:0001583	missense	81832			AF448838	CCDS12000.1, CCDS42444.1	18q22.2	2008-08-01			ENSG00000166342	ENSG00000166342			13823	protein-coding gene	gene with protein product		607973				11943477, 12810072	Standard	NM_138999		Approved	BTCL1, BCTL1	uc002lkw.3	Q8TDF5	OTTHUMG00000132834	ENST00000327305.6:c.791T>A	18.37:g.70450990A>T	ENSP00000313088:p.Leu264His	Somatic		WXS	Illumina HiSeq	Phase_I	Q86W85|Q8ND78|Q8TDF4	Missense_Mutation	SNP	ENST00000327305.6	37	CCDS12000.1	.	.	.	.	.	.	.	.	.	.	A	22.2	4.261669	0.80358	.	.	ENSG00000166342	ENST00000327305;ENST00000299430	T;T	0.18174	2.23;2.23	5.27	5.27	0.74061	CUB (5);	0.000000	0.53938	D	0.000058	T	0.36082	0.0954	L	0.47716	1.5	0.80722	D	1	D;D	0.89917	1.0;0.994	D;D	0.87578	0.998;0.957	T	0.08146	-1.0736	10	0.72032	D	0.01	-10.3986	15.5016	0.75703	1.0:0.0:0.0:0.0	.	263;264	Q8TDF5-2;Q8TDF5	.;NETO1_HUMAN	H	264;263	ENSP00000313088:L264H;ENSP00000299430:L263H	ENSP00000299430:L263H	L	-	2	0	NETO1	68601970	1.000000	0.71417	0.058000	0.19502	0.790000	0.44656	9.287000	0.95975	2.102000	0.63906	0.528000	0.53228	CTT		0.478	NETO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256301.2	NM_138999		T	70450990	A	T	70450990	3	4	688	1	0	0	0	0	1	0	0	0	10346	72	3	5	826	5	NETO1	18	70450990	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10		70450990	7626258	84	44674										
DOT1L	84444	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	2226194	2226194	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	tttgccaggtggtggcttggCgggaaggaagcccgcgcccg	18	11	0	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr19:2226194C>T	ENST00000398665.3	+	27	3710	c.3674C>T	c.(3673-3675)gCg>gTg	p.A1225V		NM_032482.2	NP_115871.1	Q8TEK3	DOT1L_HUMAN	DOT1-like histone H3K79 methyltransferase	1225					histone lysine methylation (GO:0034968)|regulation of JAK-STAT cascade (GO:0046425)|regulation of transcription regulatory region DNA binding (GO:2000677)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|transcription factor binding (GO:0008134)			NS(1)|breast(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(3)|lung(14)|ovary(2)|pancreas(2)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(9)	42		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)		GGTGGCTTGGCGGGAAGGAAG	0.677																																																0													12	16	15					19																	2226194		1920	4101	6021	SO:0001583	missense	84444			AF509504	CCDS42460.1	19p13.3	2013-05-21	2013-05-21		ENSG00000104885	ENSG00000104885	2.1.1.43	"Chromatin-modifying enzymes / K-methyltransferases"	24948	protein-coding gene	gene with protein product	"histone methyltransferase DOT1L"	607375	"DOT1-like, histone H3 methyltransferase (S. cerevisiae)"			11347906, 12123582	Standard	NM_032482		Approved	KIAA1814, DOT1, KMT4	uc002lvb.4	Q8TEK3	OTTHUMG00000150431	ENST00000398665.3:c.3674C>T	19.37:g.2226194C>T	ENSP00000381657:p.Ala1225Val	Somatic		WXS	Illumina HiSeq	Phase_I	O60379|Q96JL1	Missense_Mutation	SNP	ENST00000398665.3	37	CCDS42460.1	.	.	.	.	.	.	.	.	.	.	C	10.54	1.379238	0.24944	.	.	ENSG00000104885	ENST00000398665;ENST00000221482;ENST00000457590	T;T	0.30182	1.95;1.54	4.54	-0.654	0.11443	.	1.117080	0.06764	N	0.782394	T	0.21103	0.0508	L	0.31294	0.92	0.09310	N	1	B;B	0.16396	0.002;0.017	B;B	0.09377	0.001;0.004	T	0.32719	-0.9896	10	0.87932	D	0	-8.2664	5.1085	0.14796	0.0:0.5858:0.1604:0.2538	.	1225;1225	Q8TEK3;Q8TEK3-2	DOT1L_HUMAN;.	V	1225;1225;105	ENSP00000381657:A1225V;ENSP00000407411:A105V	ENSP00000221482:A1225V	A	+	2	0	DOT1L	2177194	0.000000	0.05858	0.000000	0.03702	0.225000	0.24961	0.096000	0.15147	-0.246000	0.09611	0.491000	0.48974	GCG		0.677	DOT1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318066.1	NM_032482		T	2226194	C	T	2226194	3	4	688	1	0	0	0	0	1	0	0	0	4711	768	27	1	3780	1	DOT1L	19	2226194	Missense_Mutation	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10		2226194	56902789	85	44675										
SF4	57794	broad.mit.edu	37	chr19	19416711	19416711	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cctcgtcctcgtcaggggacTggaagacactcgggcggtgc	15	13	1	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr19:19416711T>C	ENST00000247001.5	-	4	832	c.485A>G	c.(484-486)cAg>cGg	p.Q162R	SUGP1_ENST00000585763.1_5'UTR|SUGP1_ENST00000334782.5_Missense_Mutation_p.Q162R	NM_172231.3	NP_757386.2	Q8IWZ8	SUGP1_HUMAN	SURP and G patch domain containing 1	162					gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)	nucleoplasm (GO:0005654)|spliceosomal complex (GO:0005681)	poly(A) RNA binding (GO:0044822)			NS(1)|breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(7)|ovary(1)|prostate(1)|stomach(2)|urinary_tract(2)	22						GTCAGGGGACTGGAAGACACT	0.662																																																0													54	53	53					19																	19416711		2203	4300	6503	SO:0001583	missense	57794			AF521128	CCDS12399.1	19p13	2013-01-28	2010-08-10	2010-08-10		ENSG00000105705		"G patch domain containing"	18643	protein-coding gene	gene with protein product		607992	"splicing factor 4"	SF4		12594045	Standard	NM_172231		Approved	F23858, DKFZp434E2216, RBP	uc002nmh.3	Q8IWZ8		ENST00000247001.5:c.485A>G	19.37:g.19416711T>C	ENSP00000247001:p.Gln162Arg	Somatic		WXS	Illumina HiSeq	Phase_I	O60378|Q6P3X9|Q8TCQ4|Q8WWT4|Q8WWT5|Q9NTG3	Missense_Mutation	SNP	ENST00000247001.5	37	CCDS12399.1	.	.	.	.	.	.	.	.	.	.	T	14.98	2.697947	0.48307	.	.	ENSG00000105705	ENST00000247001;ENST00000535070;ENST00000334782	T	0.23348	1.91	4.44	4.44	0.53790	.	0.216607	0.44097	D	0.000485	T	0.22781	0.0550	L	0.59436	1.845	0.33038	D	0.531103	P	0.36199	0.543	B	0.31946	0.138	T	0.29488	-1.0010	10	0.17832	T	0.49	.	12.5289	0.56102	0.0:0.0:0.0:1.0	.	162	Q8IWZ8	SUGP1_HUMAN	R	162	ENSP00000247001:Q162R	ENSP00000247001:Q162R	Q	-	2	0	SUGP1	19277711	1.000000	0.71417	1.000000	0.80357	0.513000	0.34164	3.078000	0.50096	1.650000	0.50662	0.460000	0.39030	CAG		0.662	SUGP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460128.4	NM_021164		C	19416711	T	C	19416711	3	2	688	1	0	0	0	0	1	0	0	0	14168	1580	55	3	1496	3	SF4	19	19416711	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10	17190517	19416711	39712272	86	44676										
PDCD2L	84306	broad.mit.edu	37	chr19	34895341	34895341	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	ggtcgcccggcggccatggcGgccgttctgaagccggtgct	17	14	1	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr19:34895341G>T	ENST00000246535.3	+	1	53	c.6G>T	c.(4-6)gcG>gcT	p.A2A	PDCD2L_ENST00000587065.2_5'Flank|RP11-618P17.4_ENST00000606020.1_Intron	NM_032346.1	NP_115722.1	Q9BRP1	PDD2L_HUMAN	programmed cell death 2-like	2					cell cycle (GO:0007049)	cytoplasm (GO:0005737)|membrane (GO:0016020)				breast(2)|kidney(1)|large_intestine(4)|lung(1)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			CGGCCATGGCGGCCGTTCTGA	0.662																																																0													3	4	4					19																	34895341		1697	3332	5029	SO:0001819	synonymous_variant	84306			BC006146	CCDS12438.1	19q13.11	2008-02-05				ENSG00000126249			28194	protein-coding gene	gene with protein product		615661				16311922	Standard	NM_032346		Approved	MGC13096	uc002nvj.3	Q9BRP1		ENST00000246535.3:c.6G>T	19.37:g.34895341G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000246535.3	37	CCDS12438.1																																																																																				0.662	PDCD2L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459251.3	NM_032346		T	34895341	G	T	34895341	2	4	688	1	0	0	0	0	0	0	0	1	11627	1103	39	4		4	PDCD2L	19	34895341	Silent	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	15478630	34895341	24233642	87	44677										
RYR1	6261	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	38948847	38948847	+	Nonsense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	accgagggctacaccccctaCcctggggccggcgagggctg	15	16	0	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr19:38948847C>G	ENST00000359596.3	+	18	2082	c.2082C>G	c.(2080-2082)taC>taG	p.Y694*	RYR1_ENST00000355481.4_Nonsense_Mutation_p.Y694*|RYR1_ENST00000360985.3_Nonsense_Mutation_p.Y694*			P21817	RYR1_HUMAN	ryanodine receptor 1 (skeletal)	694	B30.2/SPRY 1. {ECO:0000255|PROSITE- ProRule:PRU00548}.				calcium ion transport (GO:0006816)|cellular response to caffeine (GO:0071313)|cytosolic calcium ion homeostasis (GO:0051480)|ion transmembrane transport (GO:0034220)|muscle contraction (GO:0006936)|ossification involved in bone maturation (GO:0043931)|outflow tract morphogenesis (GO:0003151)|release of sequestered calcium ion into cytosol (GO:0051209)|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0014808)|response to caffeine (GO:0031000)|response to hypoxia (GO:0001666)|skeletal muscle fiber development (GO:0048741)|skin development (GO:0043588)|transmembrane transport (GO:0055085)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|I band (GO:0031674)|integral component of plasma membrane (GO:0005887)|junctional membrane complex (GO:0030314)|junctional sarcoplasmic reticulum membrane (GO:0014701)|plasma membrane (GO:0005886)|sarcoplasmic reticulum (GO:0016529)|sarcoplasmic reticulum membrane (GO:0033017)|smooth endoplasmic reticulum (GO:0005790)|T-tubule (GO:0030315)|terminal cisterna (GO:0014802)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)|calcium-release channel activity (GO:0015278)|calmodulin binding (GO:0005516)|ryanodine-sensitive calcium-release channel activity (GO:0005219)|voltage-gated calcium channel activity (GO:0005245)			NS(4)|autonomic_ganglia(2)|breast(3)|central_nervous_system(5)|endometrium(26)|haematopoietic_and_lymphoid_tissue(3)|kidney(34)|large_intestine(42)|liver(1)|lung(106)|ovary(11)|pancreas(5)|prostate(9)|skin(12)|stomach(11)|upper_aerodigestive_tract(4)|urinary_tract(7)	285	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Caffeine(DB00201)|Dantrolene(DB01219)|Suramin(DB04786)	ACACCCCCTACCCTGGGGCCG	0.637																																																0													52	51	51					19																	38948847		2203	4300	6503	SO:0001587	stop_gained	6261			J05200	CCDS33011.1, CCDS42563.1	19q13.1	2014-09-17				ENSG00000196218		"Ion channels / Ryanodine receptors"	10483	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 137"	180901	"central core disease of muscle"	MHS, MHS1, CCO		1862346, 16621918	Standard	NM_000540		Approved	RYR, PPP1R137	uc002oit.3	P21817		ENST00000359596.3:c.2082C>G	19.37:g.38948847C>G	ENSP00000352608:p.Tyr694*	Somatic		WXS	Illumina HiSeq	Phase_I	Q16314|Q16368|Q9NPK1|Q9P1U4	Nonsense_Mutation	SNP	ENST00000359596.3	37	CCDS33011.1	.	.	.	.	.	.	.	.	.	.	C	41	8.988435	0.99027	.	.	ENSG00000196218	ENST00000359596;ENST00000355481;ENST00000360985	.	.	.	5.02	5.02	0.67125	.	0.000000	0.64402	U	0.000007	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	12.9369	0.58320	0.0:0.9196:0.0:0.0804	.	.	.	.	X	694	.	ENSP00000347667:Y694X	Y	+	3	2	RYR1	43640687	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	2.109000	0.41863	2.623000	0.88846	0.549000	0.68633	TAC		0.637	RYR1-010	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000462137.1			G	38948847	C	G	38948847	4	3	688	1	0	0	0	0	0	1	0	0	13781	518	18	4	2152	4	RYR1	19	38948847	Nonsense_Mutation	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	4053506	38948847	20180136	88	44678										
PSG5	5673	hgsc.bcm.edu;broad.mit.edu	37	chr19	43679366	43679366	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	aggatgctgggatccacttaCcagagacttcgactgtcatg	11	10	1	1			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr19:43679366C>T	ENST00000366175.3	-	4	1095		c.e4+1		PSG5_ENST00000342951.6_Splice_Site|PSG5_ENST00000407356.1_Splice_Site|PSG5_ENST00000599812.1_Splice_Site|PSG5_ENST00000407568.1_Intron|PSG5_ENST00000404580.1_Missense_Mutation_p.G322D			Q15238	PSG5_HUMAN	pregnancy specific beta-1-glycoprotein 5						female pregnancy (GO:0007565)	extracellular region (GO:0005576)				breast(1)|endometrium(2)|kidney(2)|large_intestine(1)|lung(18)|prostate(1)|skin(6)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	35		Prostate(69;0.00899)				GATCCACTTACCAGAGACTTC	0.463																																																0													125	148	140					19																	43679366		2202	4292	6494	SO:0001630	splice_region_variant	5673				CCDS12617.1	19q13.2	2013-01-29			ENSG00000204941	ENSG00000204941		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9522	protein-coding gene	gene with protein product	"pregnancy-specific beta-1 glycoprotein", "pregnancy-specific beta 1 glycoprotein"	176394				2735907	Standard	NM_002781		Approved	FL-NCA-3, PSG	uc002ovx.3	Q15238	OTTHUMG00000151539	ENST00000366175.3:c.964+1G>A	19.37:g.43679366C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q15239|Q96QJ1|Q9UQ75	Splice_Site	SNP	ENST00000366175.3	37	CCDS12617.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|c	5.814|5.814	0.334421|0.334421	0.11013|0.11013	.|.	.|.	ENSG00000204941|ENSG00000204941	ENST00000366175;ENST00000407356;ENST00000342951|ENST00000404580	.|T	.|0.01252	.|5.1	1.25|1.25	1.25|1.25	0.21368|0.21368	.|.	.|.	.|.	.|.	.|.	.|T	.|0.00967	.|0.0032	.|.	.|.	.|.	0.23661|0.23661	N|N	0.99718|0.99718	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.49634	.|-0.8919	.|6	.|0.15499	.|T	.|0.54	.|.	5.8107|5.8107	0.18465|0.18465	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|.	.|.	.|.	.|D	-1|322	.|ENSP00000385250:G322D	.|ENSP00000385250:G322D	.|G	-|-	.|2	.|0	PSG5|PSG5	48371206|48371206	0.321000|0.321000	0.24625|0.24625	0.181000|0.181000	0.23098|0.23098	0.040000|0.040000	0.13550|0.13550	0.696000|0.696000	0.25541|0.25541	0.644000|0.644000	0.30656|0.30656	0.184000|0.184000	0.17185|0.17185	.|GGT		0.463	PSG5-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000323055.1	NM_002781	Intron	T	43679366	C	T	43679366	5	4	688	1	0	0	0	0	0	0	1	0	12668	521	18	2	50	2	PSG5	19	43679366	Splice_Site	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	4730519	43679366	15449617	89	44679										
NLRP8	126205	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	56487643	56487643	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	ctgtgtgaggccctgaagaaCcctgactgtacattacagat	10	10	0	5			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr19:56487643C>T	ENST00000291971.3	+	8	2921	c.2850C>T	c.(2848-2850)aaC>aaT	p.N950N	NLRP8_ENST00000590542.1_Silent_p.N931N	NM_176811.2	NP_789781.2	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	950					neuron death (GO:0070997)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)			breast(4)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(14)|ovary(5)|skin(2)|stomach(3)|upper_aerodigestive_tract(2)	35		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		CCCTGAAGAACCCTGACTGTA	0.453																																																0													139	135	136					19																	56487643		2203	4300	6503	SO:0001819	synonymous_variant	126205			AY154463	CCDS12937.1	19q13.43	2008-02-05	2006-12-08	2006-12-08		ENSG00000179709		"Nucleotide-binding domain and leucine rich repeat containing"	22940	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 8"	609659	"NACHT, leucine rich repeat and PYD containing 8"	NALP8		12563287	Standard	NM_176811		Approved	NOD16, PAN4, CLR19.2	uc002qmh.3	Q86W28		ENST00000291971.3:c.2850C>T	19.37:g.56487643C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q7RTR4	Silent	SNP	ENST00000291971.3	37	CCDS12937.1																																																																																				0.453	NLRP8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457462.1	NM_176811		T	56487643	C	T	56487643	2	4	688	1	0	0	0	0	0	0	0	1	10490	506	18	2		2	NLRP8	19	56487643	Silent	SNP	C	TCGA-KV-A6GD-01A-11D-A31X-10	12808277	56487643	2641340	90	44680										
ACTR5	79913	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	37383625	37383625	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cacaaatggcggtgtcctgaTtattatgagaataatgtcca	9	7	0	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr20:37383625T>C	ENST00000243903.4	+	4	838	c.801T>C	c.(799-801)gaT>gaC	p.D267D		NM_024855.3	NP_079131.3	Q9H9F9	ARP5_HUMAN	ARP5 actin-related protein 5 homolog (yeast)	267					DNA recombination (GO:0006310)|double-strand break repair (GO:0006302)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)|UV-damage excision repair (GO:0070914)	cytoplasm (GO:0005737)|Ino80 complex (GO:0031011)|nucleus (GO:0005634)				kidney(2)|large_intestine(2)|liver(1)|lung(5)|skin(2)	12		Myeloproliferative disorder(115;0.00878)				GGTGTCCTGATTATTATGAGA	0.418																																																0													67	71	70					20																	37383625		2203	4300	6503	SO:0001819	synonymous_variant	79913			AK022847	CCDS13308.1	20q12	2011-07-06	2001-11-28		ENSG00000101442	ENSG00000101442		"INO80 complex subunits"	14671	protein-coding gene	gene with protein product	"INO80 complex subunit M"		"ARP5 (actin-related protein 5, yeast) homolog"			16230350	Standard	NM_024855		Approved	FLJ12785, Arp5, INO80M	uc002xjd.2	Q9H9F9	OTTHUMG00000032456	ENST00000243903.4:c.801T>C	20.37:g.37383625T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q86WF7|Q8IUY5|Q8N724|Q9BRN0|Q9BVB7	Silent	SNP	ENST00000243903.4	37	CCDS13308.1																																																																																				0.418	ACTR5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079205.2	NM_024855		C	37383625	T	C	37383625	2	2	688	1	0	0	0	0	0	0	0	1	215	1490	52	3		3	ACTR5	20	37383625	Silent	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10		37383625	25641895	91	44681										
PREX1	57580	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	47361658	47361658	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	aaatccttatgaacttccagGatgtcttcgatgttcgagaa	8	8	1	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr20:47361658G>A	ENST00000371941.3	-	3	340	c.318C>T	c.(316-318)atC>atT	p.I106I	PREX1_ENST00000396220.1_Silent_p.I106I	NM_020820.3	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,5-trisphosphate-dependent Rac exchange factor 1	106	DH. {ECO:0000255|PROSITE- ProRule:PRU00062}.				actin filament polymerization (GO:0030041)|G-protein coupled receptor signaling pathway (GO:0007186)|intracellular signal transduction (GO:0035556)|neutrophil activation (GO:0042119)|neutrophil chemotaxis (GO:0030593)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|regulation of actin filament polymerization (GO:0030833)|regulation of dendrite development (GO:0050773)|superoxide metabolic process (GO:0006801)|T cell differentiation (GO:0030217)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendritic shaft (GO:0043198)|growth cone (GO:0030426)|intracellular membrane-bounded organelle (GO:0043231)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	enzyme binding (GO:0019899)|phospholipid binding (GO:0005543)|Rho GTPase activator activity (GO:0005100)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(3)|central_nervous_system(1)|endometrium(4)|kidney(6)|large_intestine(27)|lung(53)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|stomach(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	110			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GAACTTCCAGGATGTCTTCGA	0.473																																																0													159	163	162					20																	47361658		2203	4300	6503	SO:0001819	synonymous_variant	57580			AB037836	CCDS13410.1	20q13.13	2013-01-10	2008-09-15		ENSG00000124126	ENSG00000124126		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	32594	protein-coding gene	gene with protein product		606905				11955434, 15545267, 16301320	Standard	NM_020820		Approved	KIAA1415, P-REX1	uc002xtw.1	Q8TCU6	OTTHUMG00000032685	ENST00000371941.3:c.318C>T	20.37:g.47361658G>A		Somatic		WXS	Illumina HiSeq	Phase_I	E1P5X9|Q5JS95|Q5JS96|Q69YL2|Q7Z2L9|Q9BQH0|Q9BX55|Q9H4Q6|Q9P2D2|Q9UGQ4	Silent	SNP	ENST00000371941.3	37	CCDS13410.1																																																																																				0.473	PREX1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000079623.1	NM_020820		A	47361658	G	A	47361658	2	1	688	1	0	0	0	0	0	0	0	1	12486	1164	41	2		2	PREX1	20	47361658	Silent	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	9978033	47361658	15663862	92	44682										
GNAS	2778	broad.mit.edu	37	chr20	57429158	57429158	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	ctcccctctgggtcccaggcGccatcggcagcccatcccaa	9	20	1	0	rs542409237		TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr20:57429158G>A	ENST00000371100.4	+	1	1390	c.838G>A	c.(838-840)Gcc>Acc	p.A280T	GNAS_ENST00000371102.4_Missense_Mutation_p.A280T|GNAS_ENST00000371075.3_Intron|GNAS_ENST00000313949.7_Intron|GNAS_ENST00000371098.2_Intron|GNAS_ENST00000306120.3_Silent_p.A216A|GNAS_ENST00000464624.2_3'UTR|GNAS_ENST00000371099.2_Missense_Mutation_p.A280T	NM_001077490.1|NM_080425.2	NP_001070958.1|NP_536350.2	P63092	GNAS2_HUMAN	GNAS complex locus	0			R -> G (in PHP1A). {ECO:0000269|PubMed:11926205}.|R -> K (in PHP1A). {ECO:0000269|PubMed:11788646}.		activation of adenylate cyclase activity (GO:0007190)|adenylate cyclase-activating adrenergic receptor signaling pathway (GO:0071880)|adenylate cyclase-activating dopamine receptor signaling pathway (GO:0007191)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|blood coagulation (GO:0007596)|bone development (GO:0060348)|cAMP biosynthetic process (GO:0006171)|cellular response to catecholamine stimulus (GO:0071870)|cellular response to glucagon stimulus (GO:0071377)|cellular response to prostaglandin E stimulus (GO:0071380)|cognition (GO:0050890)|developmental growth (GO:0048589)|energy reserve metabolic process (GO:0006112)|hair follicle placode formation (GO:0060789)|intracellular transport (GO:0046907)|platelet aggregation (GO:0070527)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of cAMP-mediated signaling (GO:0043950)|positive regulation of Ras GTPase activity (GO:0032320)|regulation of insulin secretion (GO:0050796)|sensory perception of smell (GO:0007608)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|heterotrimeric G-protein complex (GO:0005834)|intrinsic component of membrane (GO:0031224)|membrane (GO:0016020)|plasma membrane (GO:0005886)|trans-Golgi network membrane (GO:0032588)	adenylate cyclase activity (GO:0004016)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|metal ion binding (GO:0046872)|signal transducer activity (GO:0004871)			adrenal_gland(12)|autonomic_ganglia(1)|biliary_tract(5)|central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(4)|kidney(7)|large_intestine(37)|liver(9)|lung(9)|ovary(16)|pancreas(56)|parathyroid(5)|pituitary(228)|prostate(2)|small_intestine(1)|stomach(1)|testis(2)|thyroid(35)|upper_aerodigestive_tract(3)|urinary_tract(1)	441	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			GGTCCCAGGCGCCATCGGCAG	0.682			Mis		pituitary adenoma		"McCune-Albright syndrome; pseudohypoparathyroidism, type IA"			TSP Lung(22;0.16)			G|||	1	0.000199681	0.0	0.0	5008	,	,		14006	0.001		0.0	False		,,,				2504	0.0				Colon(117;935 1597 6045 8307 46442)		Dom	yes		20	20q13.2	2778	"guanine nucleotide binding protein (G protein), alpha stimulating activity polypeptide 1"	yes	E	0													13	15	15					20																	57429158		1827	4020	5847	SO:0001583	missense	2778			M21142	CCDS13471.1, CCDS13472.1, CCDS42892.1, CCDS46622.1, CCDS46623.1, CCDS46624.1	20q13.2-q13.3	2010-03-01	2001-12-19	2001-12-20	ENSG00000087460	ENSG00000087460			4392	protein-coding gene	gene with protein product	"secretogranin VI"	139320	"guanine nucleotide binding protein (G protein), alpha stimulating activity polypeptide 1"	GNAS1			Standard	NM_000516		Approved	NESP55, NESP, GNASXL, GPSA, SCG6	uc002xzw.3	O95467	OTTHUMG00000033069	ENST00000371100.4:c.838G>A	20.37:g.57429158G>A	ENSP00000360141:p.Ala280Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NI00|E1P5G5|P04895|Q12927|Q14433|Q32P26|Q5JWD2|Q5JWD4|Q5JWD5|Q6NR75|Q6NXS0|Q8TBC0|Q96H70	Missense_Mutation	SNP	ENST00000371100.4	37	CCDS46622.1	.	.	.	.	.	.	.	.	.	.	G	7.769	0.707084	0.15239	.	.	ENSG00000087460	ENST00000371099;ENST00000371100;ENST00000371102	D;D	0.90261	-2.64;-2.63	4.03	1.02	0.19986	.	12.416800	0.00751	N	0.001065	D	0.83275	0.5219	N	0.19112	0.55	0.09310	N	1	B	0.09022	0.002	B	0.04013	0.001	T	0.68618	-0.5361	10	0.27785	T	0.31	.	6.1229	0.20164	0.3301:0.0:0.6699:0.0	.	280	Q5JWF2	GNAS1_HUMAN	T	280	ENSP00000360141:A280T;ENSP00000360143:A280T	ENSP00000360140:A280T	A	+	1	0	GNAS	56862553	0.001000	0.12720	0.001000	0.08648	0.197000	0.23852	0.342000	0.19926	0.272000	0.22027	-0.254000	0.11334	GCC		0.682	GNAS-001	PUTATIVE	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000080417.3	NM_000516		A	57429158	G	A	57429158	3	1	688	1	0	0	0	0	1	0	0	0	6517	1087	38	1	1582	1	GNAS	20	57429158	Missense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10	10067500	57429158	5596362	93	44683										
SLC25A1	6576	broad.mit.edu	37	chr22	19165669	19165669	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	tgccccggtaccgcggcgggTgcgagcgctcgtccagctgc	16	16	0	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr22:19165669T>G	ENST00000215882.5	-	2	335	c.179A>C	c.(178-180)cAc>cCc	p.H60P	SLC25A1_ENST00000461267.1_5'UTR|SLC25A1_ENST00000451283.1_5'UTR|CLTCL1_ENST00000442042.2_5'Flank	NM_005984.3	NP_005975.1	P53007	TXTP_HUMAN	solute carrier family 25 (mitochondrial carrier; citrate transporter), member 1	60					carbohydrate metabolic process (GO:0005975)|cellular lipid metabolic process (GO:0044255)|citrate transport (GO:0015746)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|long-chain fatty-acyl-CoA biosynthetic process (GO:0035338)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|nucleus (GO:0005634)	citrate transmembrane transporter activity (GO:0015137)			cervix(1)|lung(1)	2	Colorectal(54;0.0993)	all_lung(157;9.94e-09)		Lung(27;0.124)		CCGCGGCGGGTGCGAGCGCTC	0.746																																																0													7	8	7					22																	19165669		2051	4085	6136	SO:0001583	missense	6576			U25147	CCDS13758.1, CCDS74817.1	22q11	2013-05-22			ENSG00000100075	ENSG00000100075		"Solute carriers"	10979	protein-coding gene	gene with protein product		190315	"solute carrier family 20 (mitochondrial citrate transporter), member 3"	SLC20A3		8666394, 9254007	Standard	NM_001256534		Approved	CTP	uc002zoz.4	P53007	OTTHUMG00000150123	ENST00000215882.5:c.179A>C	22.37:g.19165669T>G	ENSP00000215882:p.His60Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8E8|Q9BSK6	Missense_Mutation	SNP	ENST00000215882.5	37	CCDS13758.1	.	.	.	.	.	.	.	.	.	.	T	15.58	2.874271	0.51695	.	.	ENSG00000100075	ENST00000215882	T	0.78364	-1.17	4.77	3.7	0.42460	Mitochondrial carrier domain (2);	0.321554	0.31233	N	0.008017	T	0.55497	0.1924	N	0.04655	-0.195	0.80722	D	1	B	0.02656	0.0	B	0.01281	0.0	T	0.43556	-0.9384	10	0.29301	T	0.29	-14.0182	11.3684	0.49686	0.0:0.0:0.1523:0.8477	.	60	P53007	TXTP_HUMAN	P	60	ENSP00000215882:H60P	ENSP00000215882:H60P	H	-	2	0	SLC25A1	17545669	1.000000	0.71417	0.407000	0.26434	0.997000	0.91878	5.920000	0.70017	0.638000	0.30545	0.448000	0.29417	CAC		0.746	SLC25A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316441.1	NM_005984		G	19165669	T	G	19165669	3	3	688	1	0	0	0	0	1	0	0	0	14484	1696	59	5	788	5	SLC25A1	22	19165669	Missense_Mutation	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10		19165669	32138897	94	44684										
GSTT1	2952	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	24384206	24384206	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	cgcggcagggctgggacagcAggtccaggtacagctccagg	17	12	0	0			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr22:24384206A>T	ENST00000248935.5	-	1	78	c.26T>A	c.(25-27)cTg>cAg	p.L9Q	GSTT1_ENST00000439996.2_5'UTR	NM_000853.2	NP_000844.2	P30711	GSTT1_HUMAN		9	GST N-terminal.				glutathione derivative biosynthetic process (GO:1901687)|glutathione metabolic process (GO:0006749)|oxidation-reduction process (GO:0055114)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	glutathione peroxidase activity (GO:0004602)|glutathione transferase activity (GO:0004364)			cervix(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|ovary(1)|prostate(1)|skin(1)	6					Carboplatin(DB00958)|Cisplatin(DB00515)|Etoposide(DB00773)|Glutathione(DB00143)|Oxaliplatin(DB00526)	CTGGGACAGCAGGTCCAGGTA	0.592									Myelodysplasia and Acute Myeloid Leukemia (AML), Familial																																							0													77	72	74					22																	24384206		1700	3601	5301	SO:0001583	missense	2952	Familial Cancer Database	incl.: Familial Myelodysplastic syndrome (late-onset), Familial AML, Familial Monocytic Leukemia, Familial Monosomy 7 and AML																												ENST00000248935.5:c.26T>A	22.37:g.24384206A>T	ENSP00000248935:p.Leu9Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O00226|Q5TZY2|Q6IC69|Q969K8|Q96IY3	Missense_Mutation	SNP	ENST00000248935.5	37	CCDS13822.1	.	.	.	.	.	.	.	.	.	.	.	28.3	4.911220	0.92178	.	.	ENSG00000184674	ENST00000248935;ENST00000382792;ENST00000452369;ENST00000417870;ENST00000447865	T;T;T	0.64085	-0.08;-0.08;-0.08	5.31	5.31	0.75309	Glutathione S-transferase, N-terminal (1);Thioredoxin-like fold (2);	0.000000	0.64402	U	0.000006	T	0.77922	0.4203	M	0.80508	2.5	0.80722	D	1	D	0.63046	0.992	D	0.63957	0.92	T	0.81464	-0.0921	10	0.87932	D	0	-11.7318	13.568	0.61830	1.0:0.0:0.0:0.0	.	9	P30711	GSTT1_HUMAN	Q	9	ENSP00000248935:L9Q;ENSP00000406003:L9Q;ENSP00000397362:L9Q	ENSP00000248935:L9Q	L	-	2	0	GSTT1	22714206	1.000000	0.71417	1.000000	0.80357	0.832000	0.47134	8.005000	0.88553	2.163000	0.67991	0.451000	0.29950	CTG		0.592	GSTT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320184.2			T	24384206	A	T	24384206	3	4	688	1	0	0	0	0	1	0	0	0	6852	188	7	5	716	5	GSTT1	22	24384206	Missense_Mutation	SNP	A	TCGA-KV-A6GD-01A-11D-A31X-10	5218537	24384206	26920360	95	44685										
CCDC117	150275	broad.mit.edu;bcgsc.ca	37	chr22	29176936	29176936	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	attttttttctttttttcagTtgtccagtaagaaagaaaag	6	4	2	2			TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chr22:29176936T>A	ENST00000249064.4	+	3	416	c.240T>A	c.(238-240)gaT>gaA	p.D80E	CCDC117_ENST00000421503.2_Intron|CCDC117_ENST00000443309.2_5'UTR|CCDC117_ENST00000448492.2_Splice_Site_p.R62R	NM_001284263.1|NM_001284265.1|NM_173510.2	NP_001271192.1|NP_001271194.1|NP_775781.1	Q8IWD4	CC117_HUMAN	coiled-coil domain containing 117	80										breast(1)|kidney(1)|large_intestine(4)|upper_aerodigestive_tract(1)	7						TTTTTTTCAGTTGTCCAGTAA	0.338																																																0													47	44	45					22																	29176936		2203	4300	6503	SO:0001630	splice_region_variant	150275			AK091133	CCDS13846.1, CCDS63435.1, CCDS63436.1	22q12.1	2006-06-27			ENSG00000159873	ENSG00000159873			26599	protein-coding gene	gene with protein product						12477932	Standard	NM_001284263		Approved	FLJ33814	uc003aeb.3	Q8IWD4	OTTHUMG00000151091	ENST00000249064.4:c.240-1T>A	22.37:g.29176936T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0F1|B7Z2V1|B7Z860|Q6ICA7|Q8N278	Missense_Mutation	SNP	ENST00000249064.4	37	CCDS13846.1	.	.	.	.	.	.	.	.	.	.	T	10.25	1.299486	0.23650	.	.	ENSG00000159873	ENST00000249064	T	0.17528	2.27	5.37	1.95	0.26073	.	0.365309	0.26757	N	0.022642	T	0.06735	0.0172	N	0.12182	0.205	0.80722	D	1	B	0.02656	0.0	B	0.09377	0.004	T	0.34601	-0.9822	9	.	.	.	.	2.228	0.03989	0.1453:0.0882:0.321:0.4454	.	80	Q8IWD4	CC117_HUMAN	E	80	ENSP00000249064:D80E	.	D	+	3	2	CCDC117	27506936	0.993000	0.37304	0.924000	0.36721	0.943000	0.58893	0.209000	0.17435	0.017000	0.15025	0.459000	0.35465	GAT		0.338	CCDC117-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321258.1	NM_173510	Missense_Mutation	A	29176936	T	A	29176936	5	1	688	1	0	0	0	0	0	0	1	0	2756	1739	60	5	250	5	CCDC117	22	29176936	Splice_Site	SNP	T	TCGA-KV-A6GD-01A-11D-A31X-10	4792730	29176936	22127630	96	44686										
RP2	6102	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	46696623	46696623	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0416666666666667	4	1	1.03426791277259	1.55140186915888	0.930841121495327	0.523809523809524	1	0	ggccaaagcagtacagctggGatcagcgcgagaaggtaatg	15	8	1	1	rs377324837		TCGA-KV-A6GD-01A-11D-A31X-10	TCGA-KV-A6GD-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	971ca777-b810-45b5-bcca-7100b2935d0f	92ae44d5-c386-489b-b4aa-c3e169713c55	g.chrX:46696623G>T	ENST00000218340.3	+	1	249	c.88G>T	c.(88-90)Gat>Tat	p.D30Y		NM_006915.2	NP_008846.2	O75695	XRP2_HUMAN	retinitis pigmentosa 2 (X-linked recessive)	30	C-CAP/cofactor C-like. {ECO:0000255|PROSITE-ProRule:PRU00659}.				cell morphogenesis (GO:0000902)|CTP biosynthetic process (GO:0006241)|cytoskeleton organization (GO:0007010)|GTP biosynthetic process (GO:0006183)|positive regulation of GTPase activity (GO:0043547)|post-Golgi vesicle-mediated transport (GO:0006892)|protein folding (GO:0006457)|protein transport (GO:0015031)|UTP biosynthetic process (GO:0006228)|visual perception (GO:0007601)	centriole (GO:0005814)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|periciliary membrane compartment (GO:1990075)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|GTP binding (GO:0005525)|GTPase activator activity (GO:0005096)|nucleoside diphosphate kinase activity (GO:0004550)|unfolded protein binding (GO:0051082)			NS(1)|large_intestine(4)|lung(5)|stomach(1)	11						GTACAGCTGGGATCAGCGCGA	0.657																																																0													67	44	52					X																	46696623		2133	4095	6228	SO:0001583	missense	6102			AJ007590	CCDS14270.1	Xp11.3	2013-01-08			ENSG00000102218	ENSG00000102218			10274	protein-coding gene	gene with protein product		300757				6325945, 9697692, 19852809	Standard	NM_006915		Approved	TBCCD2, NME10, NM23-H10	uc004dgw.4	O75695	OTTHUMG00000021430	ENST00000218340.3:c.88G>T	X.37:g.46696623G>T	ENSP00000218340:p.Asp30Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q86XJ7|Q9NU67	Missense_Mutation	SNP	ENST00000218340.3	37	CCDS14270.1	.	.	.	.	.	.	.	.	.	.	G	19.30	3.801424	0.70682	.	.	ENSG00000102218	ENST00000218340	D	0.90955	-2.76	3.85	3.85	0.44370	C-CAP/cofactor C-like domain (1);	0.000000	0.85682	D	0.000000	D	0.93413	0.7899	M	0.78049	2.395	0.58432	D	0.999998	D	0.63046	0.992	P	0.60068	0.868	D	0.93614	0.6941	10	0.72032	D	0.01	-5.5346	10.3577	0.43974	0.0:0.0:1.0:0.0	.	30	O75695	XRP2_HUMAN	Y	30	ENSP00000218340:D30Y	ENSP00000218340:D30Y	D	+	1	0	RP2	46581567	1.000000	0.71417	1.000000	0.80357	0.960000	0.62799	4.164000	0.58190	1.903000	0.55091	0.462000	0.41574	GAT		0.657	RP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056375.1	NM_006915		T	46696623	G	T	46696623	3	4	688	1	0	0	0	0	1	0	0	0	13547	1174	41	4	90	4	RP2	23	46696623	Missense_Mutation	SNP	G	TCGA-KV-A6GD-01A-11D-A31X-10		46696623	108573937	97	44687										
CASZ1	54897	broad.mit.edu	37	chr1	10714185	10714185	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ttgtagaacttcttgaagccGtccttggcgtaggcatcgtc	11	10	1	2	rs377121758		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr1:10714185G>T	ENST00000377022.3	-	11	2246	c.1929C>A	c.(1927-1929)gaC>gaA	p.D643E	CASZ1_ENST00000344008.5_Missense_Mutation_p.D643E|RP4-734G22.3_ENST00000606802.1_RNA	NM_001079843.2	NP_001073312.1	Q86V15	CASZ1_HUMAN	castor zinc finger 1	643					multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(9)|large_intestine(13)|lung(18)|ovary(2)|prostate(5)|skin(2)|urinary_tract(1)	54	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		TCTTGAAGCCGTCCTTGGCGT	0.562																																																0													136	126	130					1																	10714185		2203	4300	6503	SO:0001583	missense	54897			AK000328	CCDS120.2, CCDS41246.1	1p36.22	2013-01-07	2007-02-02		ENSG00000130940	ENSG00000130940		"Zinc fingers, C2H2-type"	26002	protein-coding gene	gene with protein product	"zinc finger protein 693", "survival related gene"	609895	"castor homolog 1, zinc finger (Drosophila)"			16631614, 21252912	Standard	NM_001079843		Approved	FLJ20321, ZNF693, castor, cst, SRG	uc001aro.4	Q86V15	OTTHUMG00000002035	ENST00000377022.3:c.1929C>A	1.37:g.10714185G>T	ENSP00000366221:p.Asp643Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q078S9|Q2EN02|Q5T9S1|Q6ZNM8|Q8WX49|Q8WX50|Q9BT16|Q9NXC6	Missense_Mutation	SNP	ENST00000377022.3	37	CCDS41246.1	.	.	.	.	.	.	.	.	.	.	G	19.73	3.882411	0.72294	.	.	ENSG00000130940	ENST00000377022;ENST00000344008	.	.	.	4.84	-1.82	0.07857	.	0.136617	0.64402	D	0.000004	T	0.60444	0.2269	L	0.39397	1.21	0.43018	D	0.994564	P;P;D	0.76494	0.916;0.951;0.999	P;P;D	0.85130	0.72;0.72;0.997	T	0.56032	-0.8046	9	0.18710	T	0.47	-36.0167	12.0394	0.53444	0.5645:0.0:0.4355:0.0	.	667;643;643	B7Z1S3;Q86V15-2;Q86V15	.;.;CASZ1_HUMAN	E	643	.	ENSP00000339445:D643E	D	-	3	2	CASZ1	10636772	0.542000	0.26426	0.982000	0.44146	0.998000	0.95712	-0.024000	0.12435	-0.435000	0.07264	0.561000	0.74099	GAC		0.562	CASZ1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005673.2	NM_017766		T	10714185	G	T	10714185	3	4	689	1	0	0	0	0	1	0	0	0	2687	1136	40	4	3398	4	CASZ1	1	10714185	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10		10714185	238536436	1	44688										
CTTNBP2NL	55917	broad.mit.edu	37	chr1	112999438	112999438	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	agcgtttattggggtcatcaGctagcagccctggctaccag	12	11	2	0			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr1:112999438G>T	ENST00000271277.6	+	6	1549	c.1324G>T	c.(1324-1326)Gct>Tct	p.A442S		NM_018704.2	NP_061174.1	Q9P2B4	CT2NL_HUMAN	CTTNBP2 N-terminal like	442					negative regulation of transmembrane transport (GO:0034763)|negative regulation of transporter activity (GO:0032410)|protein dephosphorylation (GO:0006470)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)	protein phosphatase 2A binding (GO:0051721)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(5)|lung(13)|ovary(1)|prostate(1)|stomach(1)|urinary_tract(1)	29		all_cancers(81;0.00064)|all_epithelial(167;0.000415)|all_lung(203;0.00045)|Lung NSC(69;0.000705)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GGGGTCATCAGCTAGCAGCCC	0.542																																																0													229	234	232					1																	112999438		2203	4300	6503	SO:0001583	missense	55917			AB037854	CCDS845.1	1p13.2	2008-02-05			ENSG00000143079	ENSG00000143079			25330	protein-coding gene	gene with protein product		615100				10718198	Standard	NM_018704		Approved	DKFZp547A023	uc001ebx.3	Q9P2B4	OTTHUMG00000011154	ENST00000271277.6:c.1324G>T	1.37:g.112999438G>T	ENSP00000271277:p.Ala442Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KMS5|Q96B40	Missense_Mutation	SNP	ENST00000271277.6	37	CCDS845.1	.	.	.	.	.	.	.	.	.	.	G	7.655	0.683704	0.14907	.	.	ENSG00000143079	ENST00000271277	T	0.22134	1.97	5.56	5.56	0.83823	.	0.227351	0.47852	D	0.000204	T	0.08447	0.0210	L	0.35414	1.06	0.46499	D	0.999075	B	0.20052	0.041	B	0.19666	0.026	T	0.11227	-1.0596	10	0.09338	T	0.73	-9.3431	19.1035	0.93283	0.0:0.0:1.0:0.0	.	442	Q9P2B4	CT2NL_HUMAN	S	442	ENSP00000271277:A442S	ENSP00000271277:A442S	A	+	1	0	CTTNBP2NL	112800961	0.987000	0.35691	0.752000	0.31206	0.804000	0.45430	6.778000	0.75043	2.609000	0.88269	0.462000	0.41574	GCT		0.542	CTTNBP2NL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030686.1	NM_018704		T	112999438	G	T	112999438	3	4	689	1	0	0	0	0	1	0	0	0	4048	971	34	4	1338	4	CTTNBP2NL	1	112999438	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	102285253	112999438	136251183	2	44689										
C1orf92	149499	broad.mit.edu	37	chr1	156897772	156897772	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	cgacgcctcctgctggaaaaAgggacacaggagcgctcgcg	14	13	0	0			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr1:156897772A>G	ENST00000337428.7	+	9	1126	c.972A>G	c.(970-972)aaA>aaG	p.K324K	LRRC71_ENST00000490146.1_3'UTR	NM_144702.2	NP_653303.2	Q8N4P6	LRC71_HUMAN	leucine rich repeat containing 71	324										endometrium(2)|large_intestine(3)|lung(5)|ovary(1)|stomach(1)	12						TGCTGGAAAAAGGGACACAGG	0.677											OREG0013892	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													25	37	33					1																	156897772		1978	4130	6108	SO:0001819	synonymous_variant	149499			BC033790	CCDS44249.1	1q23.1	2011-02-14	2011-02-14	2011-02-14	ENSG00000160838	ENSG00000160838			26556	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 92"	C1orf92		14702039	Standard	NM_144702		Approved	FLJ32884	uc001fqm.2	Q8N4P6	OTTHUMG00000041298	ENST00000337428.7:c.972A>G	1.37:g.156897772A>G		Somatic	1782	WXS	Illumina HiSeq	Phase_I	Q96M24	Silent	SNP	ENST00000337428.7	37	CCDS44249.1																																																																																				0.677	LRRC71-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098961.1	NM_144702		G	156897772	A	G	156897772	2	3	689	1	0	0	0	0	0	0	0	1	2071	69	3	3		3	C1orf92	1	156897772	Silent	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10	43898334	156897772	92352849	3	44690										
C1orf112	55732	bcgsc.ca	37	chr1	169771829	169771829	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	cagaggactgtcaagccaaaAtttggaaatccagaccactc	8	11	1	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr1:169771829A>T	ENST00000286031.6	+	4	834	c.134A>T	c.(133-135)aAt>aTt	p.N45I	C1orf112_ENST00000498289.1_3'UTR|C1orf112_ENST00000413811.2_Missense_Mutation_p.N16I|C1orf112_ENST00000359326.4_Missense_Mutation_p.N45I|C1orf112_ENST00000456684.1_Missense_Mutation_p.N103I	NM_018186.2	NP_060656.2	Q9NSG2	CA112_HUMAN	chromosome 1 open reading frame 112	45										breast(1)|cervix(1)|endometrium(8)|kidney(4)|large_intestine(8)|lung(9)|ovary(1)|skin(1)|stomach(1)	34	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TCAAGCCAAAATTTGGAAATC	0.328																																																0													68	72	71					1																	169771829		2203	4297	6500	SO:0001583	missense	55732			AL354614	CCDS1285.1	1q24.2	2012-06-26			ENSG00000000460	ENSG00000000460			25565	protein-coding gene	gene with protein product						12477932	Standard	NM_018186		Approved	FLJ10706	uc001ggq.3	Q9NSG2	OTTHUMG00000035821	ENST00000286031.6:c.134A>T	1.37:g.169771829A>T	ENSP00000286031:p.Asn45Ile	Somatic		WXS	Illumina HiSeq	Phase_1	A6NFP1|B3KU42|Q3KNQ1|Q9H8L5|Q9NVJ0	Missense_Mutation	SNP	ENST00000286031.6	37	CCDS1285.1	.	.	.	.	.	.	.	.	.	.	A	26.0	4.700017	0.88924	.	.	ENSG00000000460	ENST00000413811;ENST00000359326;ENST00000456684;ENST00000286031	T;T;T	0.69561	0.57;-0.41;0.57	5.9	5.9	0.94986	.	0.000000	0.85682	D	0.000000	T	0.78635	0.4314	M	0.77616	2.38	0.53688	D	0.999975	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.999	T	0.82143	-0.0603	10	0.87932	D	0	-23.1688	15.1562	0.72743	1.0:0.0:0.0:0.0	.	16;45;103	B4E0A9;Q9NSG2;B4DRP7	.;CA112_HUMAN;.	I	16;45;103;45	ENSP00000352276:N45I;ENSP00000415583:N103I;ENSP00000286031:N45I	ENSP00000286031:N45I	N	+	2	0	C1orf112	168038453	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	6.430000	0.73391	2.251000	0.74343	0.528000	0.53228	AAT		0.328	C1orf112-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087126.3	NM_018186		T	169771829	A	T	169771829	3	4	689	1	0	0	0	0	1	0	0	0	1987	101	4	5	140	5	C1orf112	1	169771829	Missense_Mutation	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10	12874057	169771829	79478792	4	44691										
HMCN1	83872	broad.mit.edu	37	chr1	186023105	186023105	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	actgcaaagaaagaatacaaTctgcaagtttacagtaagtt	7	6	1	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr1:186023105T>G	ENST00000271588.4	+	44	7078	c.6849T>G	c.(6847-6849)aaT>aaG	p.N2283K	HMCN1_ENST00000367492.2_Missense_Mutation_p.N2283K	NM_031935.2	NP_114141.2	Q96RW7	HMCN1_HUMAN	hemicentin 1	2283	Ig-like C2-type 20.				response to stimulus (GO:0050896)|visual perception (GO:0007601)	basement membrane (GO:0005604)|cell cortex (GO:0005938)|cell junction (GO:0030054)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)			NS(2)|autonomic_ganglia(1)|breast(10)|central_nervous_system(2)|cervix(1)|endometrium(28)|haematopoietic_and_lymphoid_tissue(4)|kidney(13)|large_intestine(58)|liver(3)|lung(101)|ovary(23)|pancreas(4)|prostate(20)|skin(8)|stomach(1)|upper_aerodigestive_tract(11)|urinary_tract(18)	308						AAGAATACAATCTGCAAGTTT	0.363																																																0													102	102	102					1																	186023105		2203	4300	6503	SO:0001583	missense	83872			AF156100	CCDS30956.1	1q25.3-q31.1	2013-01-11			ENSG00000143341	ENSG00000143341		"Fibulins", "Immunoglobulin superfamily / I-set domain containing"	19194	protein-coding gene	gene with protein product	"fibulin 6"	608548	"age-related macular degeneration 1 (senile macular degeneration)"	ARMD1		11222143	Standard	NM_031935		Approved	FBLN6, FIBL6, FIBL-6	uc001grq.1	Q96RW7	OTTHUMG00000059337	ENST00000271588.4:c.6849T>G	1.37:g.186023105T>G	ENSP00000271588:p.Asn2283Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGE3|Q5TYR7|Q96DN3|Q96DN8|Q96SC3	Missense_Mutation	SNP	ENST00000271588.4	37	CCDS30956.1	.	.	.	.	.	.	.	.	.	.	T	0.116	-1.131462	0.01756	.	.	ENSG00000143341	ENST00000271588;ENST00000367492	T;T	0.65916	-0.18;-0.18	4.93	1.27	0.21489	Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.656047	0.17688	N	0.165378	T	0.39733	0.1089	L	0.33339	1.005	0.09310	N	1	B	0.06786	0.001	B	0.09377	0.004	T	0.27806	-1.0063	10	0.05525	T	0.97	.	5.3345	0.15949	0.0:0.2528:0.1406:0.6066	.	2283	Q96RW7	HMCN1_HUMAN	K	2283	ENSP00000271588:N2283K;ENSP00000356462:N2283K	ENSP00000271588:N2283K	N	+	3	2	HMCN1	184289728	0.012000	0.17670	0.020000	0.16555	0.527000	0.34593	0.684000	0.25364	0.024000	0.15214	0.338000	0.21704	AAT		0.363	HMCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000131848.1	NM_031935		G	186023105	T	G	186023105	3	3	689	1	0	0	0	0	1	0	0	0	7227	1432	50	5	7023	5	HMCN1	1	186023105	Missense_Mutation	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10	16251276	186023105	63227516	5	44692										
PIK3C2B	5287	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	204413511	204413511	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	cagcatctgagagtgagccaAtccactgcacagccatacga	9	13	1	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr1:204413511A>G	ENST00000367187.3	-	18	3276	c.2720T>C	c.(2719-2721)aTt>aCt	p.I907T	PIK3C2B_ENST00000424712.2_Missense_Mutation_p.I879T	NM_002646.3	NP_002637.3	O00750	P3C2B_HUMAN	phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 beta	907	PIK helical. {ECO:0000255|PROSITE- ProRule:PRU00878}.				phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol-3-phosphate biosynthetic process (GO:0036092)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|protein kinase B signaling (GO:0043491)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)|phosphatidylinositol 3-kinase complex (GO:0005942)|plasma membrane (GO:0005886)	1-phosphatidylinositol-3-kinase activity (GO:0016303)|1-phosphatidylinositol-4-phosphate 3-kinase activity (GO:0035005)|ATP binding (GO:0005524)|lipid kinase activity (GO:0001727)|phosphatidylinositol binding (GO:0035091)			breast(3)|central_nervous_system(1)|cervix(2)|endometrium(4)|large_intestine(11)|lung(24)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	52	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)			GAGTGAGCCAATCCACTGCAC	0.582																																																0													83	68	73					1																	204413511		2203	4300	6503	SO:0001583	missense	5287			Y11312	CCDS1446.1	1q32	2012-07-13	2012-07-13		ENSG00000133056	ENSG00000133056	2.7.1.154		8972	protein-coding gene	gene with protein product		602838	"phosphoinositide-3-kinase, class 2, beta polypeptide"			9144573, 9830063	Standard	NM_002646		Approved	C2-PI3K, PI3K-C2beta	uc001haw.3	O00750	OTTHUMG00000036101	ENST00000367187.3:c.2720T>C	1.37:g.204413511A>G	ENSP00000356155:p.Ile907Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O95666|Q5SW99	Missense_Mutation	SNP	ENST00000367187.3	37	CCDS1446.1	.	.	.	.	.	.	.	.	.	.	A	26.4	4.730234	0.89390	.	.	ENSG00000133056	ENST00000367187;ENST00000424712	T;T	0.67345	-0.26;-0.26	5.98	5.98	0.97165	Phosphoinositide 3-kinase, accessory (PIK) domain (3);Armadillo-type fold (1);	0.045667	0.85682	D	0.000000	D	0.82559	0.5063	M	0.85197	2.74	0.51482	D	0.999921	D;D	0.61697	0.98;0.99	P;P	0.62885	0.908;0.903	D	0.85512	0.1198	10	0.87932	D	0	.	16.1192	0.81329	1.0:0.0:0.0:0.0	.	879;907	F5GWN5;O00750	.;P3C2B_HUMAN	T	907;879	ENSP00000356155:I907T;ENSP00000400561:I879T	ENSP00000356155:I907T	I	-	2	0	PIK3C2B	202680134	1.000000	0.71417	0.999000	0.59377	0.902000	0.53008	9.339000	0.96797	2.288000	0.76882	0.482000	0.46254	ATT		0.582	PIK3C2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087965.1	NM_002646		G	204413511	A	G	204413511	3	3	689	1	0	0	0	0	1	0	0	0	11917	101	4	3	2252	3	PIK3C2B	1	204413511	Missense_Mutation	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10	18390406	204413511	44837110	6	44693										
HLX	3142	broad.mit.edu	37	chr1	221057861	221057861	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ctgggagtggtgggagcagcGgcggcggcggcaatagtttc	20	8	0	0			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr1:221057861G>A	ENST00000366903.6	+	4	2783	c.1282G>A	c.(1282-1284)Ggc>Agc	p.G428S	HLX_ENST00000549319.1_Missense_Mutation_p.G214S	NM_021958.3	NP_068777.1	Q14774	HLX_HUMAN	H2.0-like homeobox	428	Ser-rich.				cell differentiation (GO:0030154)|embryonic digestive tract morphogenesis (GO:0048557)|enteric nervous system development (GO:0048484)|liver development (GO:0001889)|multicellular organismal development (GO:0007275)|negative regulation of T-helper 2 cell differentiation (GO:0045629)|positive regulation of cell proliferation (GO:0008284)|positive regulation of organ growth (GO:0046622)|positive regulation of T-helper 1 cell differentiation (GO:0045627)|regulation of transcription, DNA-templated (GO:0006355)|skeletal muscle tissue development (GO:0007519)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)	p.G431delG(1)		breast(1)|central_nervous_system(1)|endometrium(5)|large_intestine(9)|lung(11)|ovary(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	32				GBM - Glioblastoma multiforme(131;0.00914)		tgggagcagcggcggcggcgg	0.642																																																1	Deletion - In frame(1)	large_intestine(1)											25	24	25					1																	221057861		2203	4300	6503	SO:0001583	missense	3142			BC033808	CCDS1527.1	1q41	2011-06-20	2007-07-26	2007-07-26	ENSG00000136630	ENSG00000136630		"Homeoboxes / ANTP class : NKL subclass"	4978	protein-coding gene	gene with protein product		142995	"H2.0 (Drosophila)-like homeo box 1", "H2.0-like homeobox 1 (Drosophila)", "H2.0-like homeobox 1"	HLX1		1676597, 7806220	Standard	NM_021958		Approved	HB24	uc001hmv.4	Q14774	OTTHUMG00000037352	ENST00000366903.6:c.1282G>A	1.37:g.221057861G>A	ENSP00000355870:p.Gly428Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8A8|Q15988|Q59HE7|Q9NZ75	Missense_Mutation	SNP	ENST00000366903.6	37	CCDS1527.1	.	.	.	.	.	.	.	.	.	.	G	13.31	2.198731	0.38806	.	.	ENSG00000136630	ENST00000366903;ENST00000549319	D;D	0.91996	-2.65;-2.95	2.86	-0.687	0.11320	.	0.951617	0.08586	N	0.923819	T	0.78483	0.4290	N	0.14661	0.345	0.23320	N	0.997912	B	0.10296	0.003	B	0.06405	0.002	T	0.65689	-0.6107	10	0.02654	T	1	.	3.3157	0.07032	0.4133:0.2112:0.3755:0.0	.	428	Q14774	HLX_HUMAN	S	428;214	ENSP00000355870:G428S;ENSP00000449882:G214S	ENSP00000355870:G428S	G	+	1	0	HLX	219124484	0.977000	0.34250	0.038000	0.18304	0.016000	0.09150	1.135000	0.31454	0.081000	0.16988	-0.291000	0.09656	GGC		0.642	HLX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090902.3	NM_021958		A	221057861	G	A	221057861	3	1	689	1	0	0	0	0	1	0	0	0	7223	1116	39	1	1296	1	HLX	1	221057861	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	16644350	221057861	28192760	7	44694										
TLR5	7100	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	223286235	223286235	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	cagcaggagcctctcagtggTgttgaggacctgggggacct	16	10	1	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr1:223286235T>A	ENST00000540964.1	-	4	600	c.139A>T	c.(139-141)Acc>Tcc	p.T47S	TLR5_ENST00000342210.6_Missense_Mutation_p.T47S			O60602	TLR5_HUMAN	toll-like receptor 5	47					cellular response to lipopolysaccharide (GO:0071222)|cellular response to mechanical stimulus (GO:0071260)|defense response to bacterium (GO:0042742)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|male gonad development (GO:0008584)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|positive regulation of interleukin-8 production (GO:0032757)|positive regulation of toll-like receptor signaling pathway (GO:0034123)|regulation of cytokine secretion (GO:0050707)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor signaling pathway (GO:0002224)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	interleukin-1 receptor binding (GO:0005149)|transmembrane signaling receptor activity (GO:0004888)			breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(4)|lung(8)|ovary(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	32				GBM - Glioblastoma multiforme(131;0.0851)		CTCTCAGTGGTGTTGAGGACC	0.547																																																0													62	63	62					1																	223286235		2203	4300	6503	SO:0001583	missense	7100				CCDS31033.1	1q32.3-q42	2014-01-29			ENSG00000187554	ENSG00000187554			11851	protein-coding gene	gene with protein product	"Toll/interleukin-1 receptor-like protein 3"	603031	"systemic lupus erythematosus susceptibility 1"	SLEB1		9435236, 16027372	Standard	NM_003268		Approved	TIL3, FLJ10052, MGC126430, MGC126431	uc001hnw.2	O60602	OTTHUMG00000037937	ENST00000540964.1:c.139A>T	1.37:g.223286235T>A	ENSP00000440643:p.Thr47Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B1AZ05|B3Y633|B9VJ63|D1CS80|D3DTB8|O15456|Q32MI2|Q32MI3	Missense_Mutation	SNP	ENST00000540964.1	37	CCDS31033.1	.	.	.	.	.	.	.	.	.	.	T	10.90	1.480409	0.26598	.	.	ENSG00000187554	ENST00000540964;ENST00000366881;ENST00000342210	D;D;D	0.82526	-1.62;-1.62;-1.62	4.75	3.6	0.41247	.	0.354369	0.30510	N	0.009461	T	0.70430	0.3223	L	0.48362	1.52	0.09310	N	1	B	0.06786	0.001	B	0.10450	0.005	T	0.50516	-0.8819	10	0.09084	T	0.74	.	3.4825	0.07607	0.0:0.2019:0.2085:0.5896	.	47	O60602	TLR5_HUMAN	S	47	ENSP00000440643:T47S;ENSP00000355846:T47S;ENSP00000340089:T47S	ENSP00000340089:T47S	T	-	1	0	TLR5	221352858	0.318000	0.24598	0.004000	0.12327	0.995000	0.86356	0.650000	0.24858	0.751000	0.32900	0.533000	0.62120	ACC		0.547	TLR5-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_003268		A	223286235	T	A	223286235	3	1	689	1	0	0	0	0	1	0	0	0	15966	1696	59	5	2441	5	TLR5	1	223286235	Missense_Mutation	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10	2228374	223286235	25964386	8	44695										
SIPA1L2	57568	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	232539257	232539257	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ataagggcagctcttgggccCcttccaggtcctgcccatgc	11	15	1	0			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr1:232539257C>T	ENST00000366630.1	-	20	5235	c.4877G>A	c.(4876-4878)gGg>gAg	p.G1626E	SIPA1L2_ENST00000308942.4_Missense_Mutation_p.G682E|SIPA1L2_ENST00000262861.4_Missense_Mutation_p.G1626E			Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like 2	1626					regulation of small GTPase mediated signal transduction (GO:0051056)		GTPase activator activity (GO:0005096)			NS(1)|breast(5)|central_nervous_system(2)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(13)|lung(49)|ovary(2)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	103		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				CTCTTGGGCCCCTTCCAGGTC	0.562																																																0													64	71	69					1																	232539257		1959	4156	6115	SO:0001583	missense	57568			AB037810	CCDS41474.1	1q42.2	2008-02-05			ENSG00000116991	ENSG00000116991			23800	protein-coding gene	gene with protein product		611609					Standard	NM_020808		Approved	KIAA1389	uc001hvg.3	Q9P2F8	OTTHUMG00000037820	ENST00000366630.1:c.4877G>A	1.37:g.232539257C>T	ENSP00000355589:p.Gly1626Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q2TV88|Q5VXR7|Q5VXR8|Q641Q4|Q8NA38|Q96DZ3|Q9H9F6	Missense_Mutation	SNP	ENST00000366630.1	37	CCDS41474.1	.	.	.	.	.	.	.	.	.	.	C	5.973	0.363555	0.11296	.	.	ENSG00000116991	ENST00000366630;ENST00000262861;ENST00000308942	T;T;T	0.29397	1.57;1.57;1.57	5.04	3.16	0.36331	.	0.545601	0.19376	N	0.115763	T	0.15046	0.0363	N	0.16478	0.41	0.33489	D	0.588516	B;B	0.20052	0.002;0.041	B;B	0.17722	0.019;0.011	T	0.20571	-1.0271	10	0.14656	T	0.56	-10.7471	5.5271	0.16964	0.0:0.6269:0.1476:0.2255	.	1626;682	Q9P2F8;Q9P2F8-2	SI1L2_HUMAN;.	E	1626;1626;682	ENSP00000355589:G1626E;ENSP00000262861:G1626E;ENSP00000309102:G682E	ENSP00000262861:G1626E	G	-	2	0	SIPA1L2	230605880	0.978000	0.34361	0.987000	0.45799	0.992000	0.81027	2.333000	0.43912	0.723000	0.32274	0.644000	0.83932	GGG		0.562	SIPA1L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092318.1	XM_045839		T	232539257	C	T	232539257	3	4	689	1	0	0	0	0	1	0	0	0	14343	623	22	2	303	2	SIPA1L2	1	232539257	Missense_Mutation	SNP	C	TCGA-KV-A6GE-01A-11D-A31X-10	9253022	232539257	16711364	9	44696										
SLC30A3	7781	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	27480036	27480036	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	tggtaccttgaagtagatgaGgatggaggcagccagtaccc	14	8	0	3			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr2:27480036G>C	ENST00000233535.4	-	5	1115	c.763C>G	c.(763-765)Ctc>Gtc	p.L255V	SLC30A3_ENST00000447008.2_Missense_Mutation_p.L250V	NM_003459.4	NP_003450.2	Q99726	ZNT3_HUMAN	solute carrier family 30 (zinc transporter), member 3	255					positive regulation of transport (GO:0051050)|regulation of sequestering of zinc ion (GO:0061088)|transmembrane transport (GO:0055085)|transport (GO:0006810)|zinc ion transmembrane transport (GO:0071577)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|endosome (GO:0005768)|integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|membrane (GO:0016020)|neuron projection (GO:0043005)|synaptic vesicle (GO:0008021)|synaptic vesicle membrane (GO:0030672)	zinc transporting ATPase activity (GO:0015633)			NS(1)|breast(1)|cervix(1)|endometrium(2)|large_intestine(3)|lung(11)|pancreas(1)	20	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AAGTAGATGAGGATGGAGGCA	0.612																																																0													79	76	77					2																	27480036		2203	4300	6503	SO:0001583	missense	7781			U76010	CCDS1743.1	2p23.3	2013-05-22			ENSG00000115194	ENSG00000115194		"Solute carriers"	11014	protein-coding gene	gene with protein product		602878		ZNT3		8962159	Standard	NM_003459		Approved		uc002rjj.3	Q99726	OTTHUMG00000128409	ENST00000233535.4:c.763C>G	2.37:g.27480036G>C	ENSP00000233535:p.Leu255Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TC03	Missense_Mutation	SNP	ENST00000233535.4	37	CCDS1743.1	.	.	.	.	.	.	.	.	.	.	G	10.45	1.353230	0.24512	.	.	ENSG00000115194	ENST00000233535;ENST00000447008;ENST00000445870;ENST00000432351	T;T;T	0.66460	-0.21;-0.21;-0.21	4.88	4.88	0.63580	.	0.122293	0.53938	D	0.000044	T	0.40595	0.1123	N	0.01668	-0.77	0.37697	D	0.924059	B;B	0.15930	0.012;0.015	B;B	0.31101	0.076;0.124	T	0.44360	-0.9333	10	0.22706	T	0.39	-24.7171	11.753	0.51859	0.0:0.1782:0.8218:0.0	.	250;255	F5H3B7;Q99726	.;ZNT3_HUMAN	V	255;250;192;206	ENSP00000233535:L255V;ENSP00000415226:L250V;ENSP00000414320:L206V	ENSP00000233535:L255V	L	-	1	0	SLC30A3	27333540	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.584000	0.46102	2.429000	0.82318	0.555000	0.69702	CTC		0.612	SLC30A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250189.2			C	27480036	G	C	27480036	3	2	689	1	0	0	0	0	1	0	0	0	14569	1000	35	4	419	4	SLC30A3	2	27480036	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10		27480036	215719337	10	44697										
FBXO11	80204	broad.mit.edu;bcgsc.ca	37	chr2	48132850	48132850	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	tctccggttggcggctcggaCggagttcatttgccgggctg	16	11	2	0			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr2:48132850C>G	ENST00000403359.3	-	1	82	c.10G>C	c.(10-12)Gtc>Ctc	p.V4L	AC079807.2_ENST00000417692.1_RNA|FBXO11_ENST00000316377.4_5'Flank|AC079807.2_ENST00000432064.1_RNA|FBXO11_ENST00000378314.3_5'Flank|AC079807.2_ENST00000439870.1_RNA	NM_001190274.1	NP_001177203.1	Q86XK2	FBX11_HUMAN	F-box protein 11	4					cellular protein modification process (GO:0006464)|peptidyl-arginine N-methylation (GO:0035246)|protein ubiquitination (GO:0016567)|sensory perception of sound (GO:0007605)|ubiquitin-dependent protein catabolic process (GO:0006511)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)|ubiquitin ligase complex (GO:0000151)	protein-arginine N-methyltransferase activity (GO:0016274)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)	p.0?(2)		endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(11)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	26		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GCGGCTCGGACGGAGTTCATT	0.721			"Mis, F, D"		DLBCL																																		Rec	yes		2	2p16.3	80204	F-box protein 11		L	2	Whole gene deletion(2)	haematopoietic_and_lymphoid_tissue(2)											3	3	3					2																	48132850		748	1783	2531	SO:0001583	missense	80204			AF174599	CCDS1837.1, CCDS54357.1	2p16.3	2014-01-29	2008-06-23	2008-06-23	ENSG00000138081	ENSG00000138081		"Ubiquitin protein ligase E3 component n-recognins", "F-boxes /  "other""	13590	protein-coding gene	gene with protein product	"ubiquitin protein ligase E3 component n-recognin 6"	607871	"F-box only protein 11"			10531035, 16487488, 18162545	Standard	NM_025133		Approved	FBX11, UBR6	uc002rwe.3	Q86XK2	OTTHUMG00000129130	ENST00000403359.3:c.10G>C	2.37:g.48132850C>G	ENSP00000384823:p.Val4Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A1L491|Q52ZP1|Q53EP7|Q53RT5|Q8IXG3|Q96E90|Q9H6V8|Q9H9L1|Q9NR14|Q9UFK1|Q9UHI1|Q9UKC2	Missense_Mutation	SNP	ENST00000403359.3	37	CCDS54357.1	.	.	.	.	.	.	.	.	.	.	C	16.39	3.109165	0.56398	.	.	ENSG00000138081	ENST00000403359	T	0.55234	0.53	2.44	2.44	0.29823	.	.	.	.	.	T	0.37945	0.1022	N	0.08118	0	0.80722	D	1	.	.	.	.	.	.	T	0.43702	-0.9375	7	0.87932	D	0	-16.2404	10.0511	0.42216	0.0:1.0:0.0:0.0	.	.	.	.	L	4	ENSP00000384823:V4L	ENSP00000384823:V4L	V	-	1	0	FBXO11	47986354	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.264000	0.58859	1.345000	0.45676	0.491000	0.48974	GTC		0.721	FBXO11-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000251181.3	NM_012167, NM_018693, NM_025133		G	48132850	C	G	48132850	3	3	689	1	0	0	0	0	1	0	0	0	5734	536	19	4	2955	4	FBXO11	2	48132850	Missense_Mutation	SNP	C	TCGA-KV-A6GE-01A-11D-A31X-10	20652814	48132850	195066523	11	44698										
CSRNP3	80034	broad.mit.edu	37	chr2	166535409	166535409	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	taagtgctcacagtagttctAtgggccctgtcgctcactcc	9	13	3	0	rs144629858		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr2:166535409A>G	ENST00000342316.4	+	5	1176	c.904A>G	c.(904-906)Atg>Gtg	p.M302V	CSRNP3_ENST00000409420.1_Missense_Mutation_p.M334V|CSRNP3_ENST00000314499.7_Missense_Mutation_p.M302V	NM_024969.3	NP_079245.2	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	302					apoptotic process (GO:0006915)|negative regulation of phosphatase activity (GO:0010923)|positive regulation of apoptotic process (GO:0043065)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	nucleus (GO:0005634)	RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|cervix(1)|endometrium(1)|large_intestine(9)|lung(15)|ovary(3)|skin(2)	33						CAGTAGTTCTATGGGCCCTGT	0.493																																																0								A	VAL/MET,VAL/MET	0,4406		0,0,2203	69	68	69		904,904	5.8	1	2	dbSNP_134	69	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense	CSRNP3	NM_001172173.1,NM_024969.3	21,21	0,1,6502	GG,GA,AA		0.0116,0.0,0.0077	benign,benign	302/586,302/586	166535409	1,13005	2203	4300	6503	SO:0001583	missense	80034			AB063300	CCDS2225.1	2q24.3	2012-04-17	2009-01-07	2009-01-07	ENSG00000178662	ENSG00000178662		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	30729	protein-coding gene	gene with protein product	"TGF beta induced apotosis protein 2", "protein phosphatase 1, regulatory subunit 73"		"family with sequence similarity 130, member A2"	FAM130A2		17726538	Standard	NM_024969		Approved	FLJ32093, TAIP-2, PPP1R73	uc002udg.3	Q8WYN3	OTTHUMG00000132145	ENST00000342316.4:c.904A>G	2.37:g.166535409A>G	ENSP00000344042:p.Met302Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPR4|Q53SG0|Q6ZTX3|Q9HAF9	Missense_Mutation	SNP	ENST00000342316.4	37	CCDS2225.1	.	.	.	.	.	.	.	.	.	.	A	9.199	1.028096	0.19512	0.0	1.16E-4	ENSG00000178662	ENST00000421875;ENST00000431452;ENST00000314499;ENST00000342316;ENST00000409420	T;T;T;T	0.41400	1.0;1.0;1.0;1.0	5.77	5.77	0.91146	.	0.255061	0.46758	D	0.000261	T	0.28234	0.0697	L	0.27053	0.805	0.39036	D	0.960042	B	0.17268	0.021	B	0.16722	0.016	T	0.16217	-1.0410	10	0.12103	T	0.63	-17.1574	11.3019	0.49311	0.8478:0.1521:0.0:0.0	.	302	Q8WYN3	CSRN3_HUMAN	V	302;309;302;302;334	ENSP00000412081:M302V;ENSP00000318258:M302V;ENSP00000344042:M302V;ENSP00000387195:M334V	ENSP00000318258:M302V	M	+	1	0	CSRNP3	166243655	0.974000	0.33945	1.000000	0.80357	0.997000	0.91878	1.752000	0.38349	2.195000	0.70347	0.528000	0.53228	ATG		0.493	CSRNP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255191.2	NM_024969		G	166535409	A	G	166535409	3	3	689	1	0	0	0	0	1	0	0	0	3967	449	16	3	918	3	CSRNP3	2	166535409	Missense_Mutation	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10	118402559	166535409	76663964	12	44699										
AGPS	8540	broad.mit.edu	37	chr2	178257705	178257705	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	tgagtgcaaagcgcggagagCcgcgtcggcggccacggcag	18	12	0	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr2:178257705C>T	ENST00000264167.4	+	1	334	c.188C>T	c.(187-189)gCc>gTc	p.A63V	AGPS_ENST00000409888.1_Missense_Mutation_p.A63V|AC074286.1_ENST00000397057.2_RNA|NFE2L2_ENST00000464747.1_5'Flank	NM_003659.3	NP_003650.1	O00116	ADAS_HUMAN	alkylglycerone phosphate synthase	63					cellular lipid metabolic process (GO:0044255)|ether lipid biosynthetic process (GO:0008611)|lipid biosynthetic process (GO:0008610)|small molecule metabolic process (GO:0044281)	intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|peroxisomal matrix (GO:0005782)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	alkylglycerone-phosphate synthase activity (GO:0008609)|FAD binding (GO:0071949)|UDP-N-acetylmuramate dehydrogenase activity (GO:0008762)			breast(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(8)|lung(12)|ovary(2)|skin(1)	32			OV - Ovarian serous cystadenocarcinoma(117;0.0018)|Epithelial(96;0.00919)|all cancers(119;0.0358)			GCGCGGAGAGCCGCGTCGGCG	0.701																																																0													2	3	3					2																	178257705		1427	2821	4248	SO:0001583	missense	8540			Y09443	CCDS2275.1	2q	2008-02-05			ENSG00000018510	ENSG00000018510	2.5.1.26		327	protein-coding gene	gene with protein product		603051				9187299, 9553082	Standard	NM_003659		Approved	ADHAPS, ADAS, ALDHPSY, ADPS, ADAP-S	uc002ull.2	O00116	OTTHUMG00000132530	ENST00000264167.4:c.188C>T	2.37:g.178257705C>T	ENSP00000264167:p.Ala63Val	Somatic		WXS	Illumina HiSeq	Phase_I	A5D8U9|Q2TU35	Missense_Mutation	SNP	ENST00000264167.4	37	CCDS2275.1	.	.	.	.	.	.	.	.	.	.	C	22.3	4.273488	0.80580	.	.	ENSG00000018510	ENST00000264167;ENST00000409888	D	0.97850	-4.57	4.57	4.57	0.56435	.	0.581401	0.16956	N	0.192694	D	0.97179	0.9078	L	0.29908	0.895	0.30660	N	0.75453	D	0.63880	0.993	D	0.65443	0.935	D	0.94907	0.8061	10	0.36615	T	0.2	.	14.3917	0.66983	0.0:1.0:0.0:0.0	.	63	O00116	ADAS_HUMAN	V	63	ENSP00000264167:A63V	ENSP00000264167:A63V	A	+	2	0	AGPS	177965951	0.832000	0.29368	0.997000	0.53966	0.997000	0.91878	2.006000	0.40874	2.358000	0.79984	0.655000	0.94253	GCC		0.701	AGPS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255730.2			T	178257705	C	T	178257705	3	4	689	1	0	0	0	0	1	0	0	0	394	739	26	2	190	2	AGPS	2	178257705	Missense_Mutation	SNP	C	TCGA-KV-A6GE-01A-11D-A31X-10	11722296	178257705	64941668	13	44700										
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	179424419	179424419	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	agagtcatttctgttggcatTttcaatggtcagtgatgtac	10	6	4	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr2:179424419T>A	ENST00000591111.1	-	276	81741	c.81517A>T	c.(81517-81519)Aat>Tat	p.N27173Y	TTN-AS1_ENST00000591332.1_RNA|TTN-AS1_ENST00000592689.1_RNA|TTN_ENST00000342175.6_Missense_Mutation_p.N19941Y|TTN_ENST00000589042.1_Missense_Mutation_p.N28814Y|TTN-AS1_ENST00000586452.1_RNA|TTN_ENST00000342992.6_Missense_Mutation_p.N26246Y|TTN-AS1_ENST00000586831.1_RNA|TTN-AS1_ENST00000590807.1_RNA|TTN-AS1_ENST00000592630.1_RNA|TTN-AS1_ENST00000590932.1_RNA|TTN-AS1_ENST00000419746.1_RNA|TTN-AS1_ENST00000592750.1_RNA|TTN-AS1_ENST00000586707.1_RNA|TTN-AS1_ENST00000438095.1_RNA|TTN_ENST00000359218.5_Missense_Mutation_p.N19874Y|TTN_ENST00000460472.2_Missense_Mutation_p.N19749Y|TTN-AS1_ENST00000592600.1_RNA|TTN-AS1_ENST00000456053.1_RNA|TTN-AS1_ENST00000585451.1_RNA			Q8WZ42	TITIN_HUMAN	titin	27173	Ig-like 129.				adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGTTGGCATTTTCAATGGTC	0.423																																																0													167	157	160					2																	179424419		2006	4191	6197	SO:0001583	missense	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.81517A>T	2.37:g.179424419T>A	ENSP00000465570:p.Asn27173Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	T	11.56	1.673934	0.29693	.	.	ENSG00000155657	ENST00000342992;ENST00000460472;ENST00000342175;ENST00000359218;ENST00000356127	T;T;T;T	0.50001	0.76;0.76;0.76;0.76	5.77	5.77	0.91146	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Peptidase C2, calpain, large subunit, domain III (1);Ribonuclease H-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.51941	0.1704	M	0.70595	2.14	0.39978	D	0.974889	P;P;P;P	0.49253	0.921;0.921;0.921;0.921	B;B;B;B	0.42163	0.378;0.378;0.378;0.378	T	0.62742	-0.6790	9	0.87932	D	0	.	16.383	0.83481	0.0:0.0:0.0:1.0	.	19749;19874;19941;27173	D3DPF9;E7EQE6;E7ET18;Q8WZ42	.;.;.;TITIN_HUMAN	Y	26246;19749;19941;19874;19746	ENSP00000343764:N26246Y;ENSP00000434586:N19749Y;ENSP00000340554:N19941Y;ENSP00000352154:N19874Y	ENSP00000340554:N19941Y	N	-	1	0	TTN	179132665	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	4.039000	0.57325	2.326000	0.78906	0.533000	0.62120	AAT		0.423	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		A	179424419	T	A	179424419	3	1	689	1	0	0	0	0	1	0	0	0	16747	1841	64	5	21687	5	TTN	2	179424419	Missense_Mutation	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10	1166714	179424419	63774954	14	44701										
EDEM1	9695	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	5229984	5229984	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ccactgccgcggccgtgggcCcgaccgcggggacccgtgag	17	17	0	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr3:5229984C>G	ENST00000256497.4	+	1	627	c.494C>G	c.(493-495)cCc>cGc	p.P165R	AC026202.1_ENST00000600805.1_5'Flank|AC026202.3_ENST00000439325.1_RNA|EDEM1_ENST00000445686.1_5'Flank	NM_014674.2	NP_055489.1	Q92611	EDEM1_HUMAN	ER degradation enhancer, mannosidase alpha-like 1	165					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|post-translational protein modification (GO:0043687)|protein folding (GO:0006457)|protein N-linked glycosylation via asparagine (GO:0018279)	endoplasmic reticulum membrane (GO:0005789)|integral component of endoplasmic reticulum membrane (GO:0030176)	calcium ion binding (GO:0005509)|misfolded protein binding (GO:0051787)			NS(1)|breast(1)|endometrium(1)|large_intestine(5)|liver(2)|lung(4)|ovary(2)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(3)	22				Epithelial(13;0.0588)|OV - Ovarian serous cystadenocarcinoma(96;0.0682)		GGCCGTGGGCCCGACCGCGGG	0.736																																																0													8	10	10					3																	5229984		2079	4182	6261	SO:0001583	missense	9695			D86967	CCDS33686.1	3p26.1	2008-02-05			ENSG00000134109	ENSG00000134109			18967	protein-coding gene	gene with protein product		607673				12610306	Standard	NM_014674		Approved	KIAA0212, EDEM	uc003bqi.3	Q92611	OTTHUMG00000154896	ENST00000256497.4:c.494C>G	3.37:g.5229984C>G	ENSP00000256497:p.Pro165Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9C8|B4DXP3	Missense_Mutation	SNP	ENST00000256497.4	37	CCDS33686.1	.	.	.	.	.	.	.	.	.	.	C	14.92	2.679794	0.47886	.	.	ENSG00000134109	ENST00000256497	T	0.81415	-1.49	4.81	4.81	0.61882	.	0.109188	0.64402	D	0.000005	T	0.69097	0.3073	N	0.25957	0.775	0.80722	D	1	B	0.32653	0.379	B	0.34180	0.177	T	0.66685	-0.5861	10	0.05959	T	0.93	-8.2011	17.4653	0.87631	0.0:1.0:0.0:0.0	.	165	Q92611	EDEM1_HUMAN	R	165	ENSP00000256497:P165R	ENSP00000256497:P165R	P	+	2	0	EDEM1	5204984	1.000000	0.71417	0.691000	0.30163	0.932000	0.56968	5.419000	0.66435	2.199000	0.70637	0.491000	0.48974	CCC		0.736	EDEM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337566.2	NM_014674		G	5229984	C	G	5229984	3	3	689	1	0	0	0	0	1	0	0	0	4913	623	22	4	496	4	EDEM1	3	5229984	Missense_Mutation	SNP	C	TCGA-KV-A6GE-01A-11D-A31X-10		5229984	192792446	15	44702										
ACY1	95	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	52022828	52022828	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	tgcctgctgccactgacaacCgctatatccgcgcggtgagc	11	15	0	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr3:52022828C>A	ENST00000404366.2	+	14	1194	c.1048C>A	c.(1048-1050)Cgc>Agc	p.R350S	ACY1_ENST00000476854.1_Missense_Mutation_p.R285S|ACY1_ENST00000494103.1_Missense_Mutation_p.R278S|ABHD14A-ACY1_ENST00000463937.1_Missense_Mutation_p.R451S|ACY1_ENST00000476351.1_Missense_Mutation_p.R315S|ACY1_ENST00000458031.2_Missense_Mutation_p.R440S	NM_000666.2|NM_001198895.1	NP_000657.1|NP_001185824.1	Q03154	ACY1_HUMAN	aminoacylase 1	350					cellular amino acid metabolic process (GO:0006520)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	aminoacylase activity (GO:0004046)|metal ion binding (GO:0046872)|metallopeptidase activity (GO:0008237)			breast(1)|endometrium(1)|large_intestine(3)|lung(4)|ovary(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acetylcysteine(DB06151)|L-Aspartic Acid(DB00128)	CACTGACAACCGCTATATCCG	0.567																																																0													160	172	168					3																	52022828		2203	4300	6503	SO:0001583	missense	95			L07548	CCDS2844.1, CCDS56261.1, CCDS56262.1, CCDS56263.1	3p21.2	2006-02-02			ENSG00000243989	ENSG00000243989	3.5.1.14		177	protein-coding gene	gene with protein product		104620				1707030, 6948533	Standard	NM_000666		Approved		uc003dcq.3	Q03154	OTTHUMG00000157815	ENST00000404366.2:c.1048C>A	3.37:g.52022828C>A	ENSP00000384296:p.Arg350Ser	Somatic		WXS	Illumina HiSeq	Phase_I	C9J6I6|C9J9D8|C9JWD4	Missense_Mutation	SNP	ENST00000404366.2	37	CCDS2844.1	.	.	.	.	.	.	.	.	.	.	C	18.84	3.709106	0.68615	.	.	ENSG00000114786;ENSG00000114786;ENSG00000114786;ENSG00000243989;ENSG00000243989;ENSG00000243989;ENSG00000243989	ENST00000458031;ENST00000463937;ENST00000232907;ENST00000476854;ENST00000476351;ENST00000494103;ENST00000404366	T;T;T;T;T;T	0.50813	0.73;0.73;0.73;0.73;0.73;0.73	5.69	5.69	0.88448	.	0.000000	0.85682	D	0.000000	T	0.75766	0.3894	M	0.91872	3.25	0.80722	D	1	D;D	0.76494	0.991;0.999	D;D	0.68039	0.955;0.951	T	0.80522	-0.1345	10	0.62326	D	0.03	-13.0341	19.4166	0.94703	0.0:1.0:0.0:0.0	.	440;350	B4DNW0;Q03154	.;ACY1_HUMAN	S	440;451;350;285;315;278;350	ENSP00000390557:R440S;ENSP00000420487:R451S;ENSP00000419262:R285S;ENSP00000417056:R315S;ENSP00000417618:R278S;ENSP00000384296:R350S	ENSP00000384296:R350S	R	+	1	0	ACY1;RP11-155D18.11	51997868	1.000000	0.71417	1.000000	0.80357	0.175000	0.22909	6.896000	0.75665	2.679000	0.91253	0.655000	0.94253	CGC		0.567	ACY1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349657.1	NM_000666		A	52022828	C	A	52022828	3	1	689	1	0	0	0	0	1	0	0	0	226	652	23	4	1098	4	ACY1	3	52022828	Missense_Mutation	SNP	C	TCGA-KV-A6GE-01A-11D-A31X-10	46792844	52022828	145999602	16	44703										
NT5DC2	64943	broad.mit.edu	37	chr3	52558884	52558884	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ccagcacctgcctcgactccGcgtcctgataggtctgggga	12	15	1	1	rs201813711	byFrequency	TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr3:52558884G>A	ENST00000307076.4	-	13	1650	c.1250C>T	c.(1249-1251)gCg>gTg	p.A417V	NT5DC2_ENST00000422318.2_Missense_Mutation_p.A454V|NT5DC2_ENST00000459839.1_Missense_Mutation_p.A429V|NT5DC2_ENST00000307092.4_Missense_Mutation_p.A358V	NM_022908.2	NP_075059.1	Q9H857	NT5D2_HUMAN	5'-nucleotidase domain containing 2	417							hydrolase activity (GO:0016787)|metal ion binding (GO:0046872)			endometrium(1)|lung(3)|prostate(1)|stomach(1)	6				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)		CCTCGACTCCGCGTCCTGATA	0.667													G|||	3	0.000599042	0.0	0.0	5008	,	,		14820	0.003		0.0	False		,,,				2504	0.0															0								G	VAL/ALA,VAL/ALA	0,4406		0,0,2203	50	51	51		1361,1250	3	0.2	3		51	1,8597	1.2+/-3.3	0,1,4298	yes	missense,missense	NT5DC2	NM_001134231.1,NM_022908.2	64,64	0,1,6501	AA,AG,GG		0.0116,0.0,0.0077	benign,benign	454/558,417/521	52558884	1,13003	2203	4299	6502	SO:0001583	missense	64943			AF131781	CCDS2858.1, CCDS46843.1	3p21.1	2006-02-03			ENSG00000168268	ENSG00000168268			25717	protein-coding gene	gene with protein product						8619474, 9110174	Standard	NM_022908		Approved	FLJ12442	uc003den.3	Q9H857	OTTHUMG00000158626	ENST00000307076.4:c.1250C>T	3.37:g.52558884G>A	ENSP00000302468:p.Ala417Val	Somatic		WXS	Illumina HiSeq	Phase_I	C9JTZ6|E9PAL9|O95888|Q96C80|Q9H9Z8	Missense_Mutation	SNP	ENST00000307076.4	37	CCDS2858.1	2	9.157509157509158E-4	0	0.0	0	0.0	2	0.0034965034965034965	0	0.0	G	11.24	1.579578	0.28180	0.0	1.16E-4	ENSG00000168268	ENST00000307092;ENST00000463947;ENST00000307076;ENST00000422318;ENST00000459839	T;T;T;T;T	0.23552	1.9;1.9;1.9;1.9;1.9	5.04	3.05	0.35203	HAD-like domain (1);	0.304028	0.35936	N	0.002898	T	0.20007	0.0481	L	0.52364	1.645	0.21064	N	0.999799	B;B;P	0.36048	0.334;0.212;0.534	B;B;B	0.31547	0.085;0.041;0.132	T	0.12268	-1.0554	10	0.42905	T	0.14	-19.2435	8.8026	0.34918	0.1554:0.0:0.6959:0.1487	.	429;417;454	C9JTZ6;Q9H857;E9PAL9	.;NT5D2_HUMAN;.	V	358;131;417;454;429	ENSP00000306017:A358V;ENSP00000418780:A131V;ENSP00000302468:A417V;ENSP00000406933:A454V;ENSP00000419547:A429V	ENSP00000302468:A417V	A	-	2	0	NT5DC2	52533924	0.988000	0.35896	0.246000	0.24233	0.417000	0.31264	5.316000	0.65815	1.131000	0.42111	0.491000	0.48974	GCG		0.667	NT5DC2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000351509.1	NM_022908		A	52558884	G	A	52558884	3	1	689	1	0	0	0	0	1	0	0	0	10698	1087	38	1	320	1	NT5DC2	3	52558884	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	536056	52558884	145463546	17	44704										
MCM2	4171	broad.mit.edu	37	chr3	127323557	127323557	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	gtcagagggaggcagcagagCgggccatgcggcagcgtgac	19	10	1	3	rs201721106		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr3:127323557C>T	ENST00000265056.7	+	3	587	c.343C>T	c.(343-345)Cgg>Tgg	p.R115W		NM_004526.2	NP_004517.2	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	115	Interaction with KAT7. {ECO:0000250}.				cell cycle (GO:0007049)|cellular response to interleukin-4 (GO:0071353)|DNA replication (GO:0006260)|DNA replication initiation (GO:0006270)|DNA strand elongation involved in DNA replication (GO:0006271)|DNA unwinding involved in DNA replication (GO:0006268)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|nucleosome assembly (GO:0006334)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|MCM complex (GO:0042555)|microtubule cytoskeleton (GO:0015630)|nuclear origin of replication recognition complex (GO:0005664)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)|DNA replication origin binding (GO:0003688)|metal ion binding (GO:0046872)			ovary(3)|skin(2)|stomach(1)	6						GGCAGCAGAGCGGGCCATGCG	0.692													C|||	1	0.000199681	0.0	0.0	5008	,	,		16493	0.0		0.001	False		,,,				2504	0.0															0								C	TRP/ARG	0,4406		0,0,2203	21	25	24		343	3.4	1	3	dbSNP_134	24	1,8597	1.2+/-3.3	0,1,4298	no	missense	MCM2	NM_004526.2	101	0,1,6501	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	115/905	127323557	1,13003	2203	4299	6502	SO:0001583	missense	4171			X67334	CCDS3043.1	3q21	2007-04-04	2007-04-04		ENSG00000073111	ENSG00000073111			6944	protein-coding gene	gene with protein product	"mitotin"	116945	"minichromosome maintenance deficient (S. cerevisiae) 2 (mitotin)", "MCM2 minichromosome maintenance deficient 2, mitotin (S. cerevisiae)"	CCNL1, CDCL1		1710453, 8258304	Standard	NM_004526		Approved	D3S3194, KIAA0030, BM28, cdc19	uc003ejp.4	P49736	OTTHUMG00000159637	ENST00000265056.7:c.343C>T	3.37:g.127323557C>T	ENSP00000265056:p.Arg115Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q14577|Q15023|Q8N2V1|Q969W7|Q96AE1|Q9BRM7	Missense_Mutation	SNP	ENST00000265056.7	37	CCDS3043.1	1	4.578754578754579E-4	0	0.0	0	0.0	0	0.0	1	0.0013192612137203166	C	18.51	3.639211	0.67244	0.0	1.16E-4	ENSG00000073111	ENST00000265056;ENST00000480910	T;T	0.25749	1.78;1.78	5.29	3.38	0.38709	.	0.176748	0.50627	D	0.000109	T	0.44603	0.1301	M	0.76170	2.325	0.44352	D	0.997248	D	0.76494	0.999	P	0.56788	0.806	T	0.53027	-0.8496	10	0.72032	D	0.01	-32.7362	14.2509	0.66019	0.3832:0.6168:0.0:0.0	.	115	P49736	MCM2_HUMAN	W	115;106	ENSP00000265056:R115W;ENSP00000419802:R106W	ENSP00000265056:R115W	R	+	1	2	MCM2	128806247	1.000000	0.71417	0.999000	0.59377	0.977000	0.68977	2.910000	0.48766	1.182000	0.42928	0.591000	0.81541	CGG		0.692	MCM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356612.1			T	127323557	C	T	127323557	3	4	689	1	0	0	0	0	1	0	0	0	9393	759	27	1	353	1	MCM2	3	127323557	Missense_Mutation	SNP	C	TCGA-KV-A6GE-01A-11D-A31X-10	74764673	127323557	70698873	18	44705										
PLXND1	23129	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	129281631	129281631	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	tgcccccattcccacccaccAaggtcgacgtcctctgcacg	7	20	1	0			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr3:129281631A>G	ENST00000324093.4	-	27	5002	c.4824T>C	c.(4822-4824)ctT>ctC	p.L1608L	PLXND1_ENST00000393239.1_Splice_Site_p.L1608L	NM_015103.2	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1	1608					angiogenesis (GO:0001525)|axon guidance (GO:0007411)|dichotomous subdivision of terminal units involved in salivary gland branching (GO:0060666)|endothelial cell migration (GO:0043542)|outflow tract morphogenesis (GO:0003151)|patterning of blood vessels (GO:0001569)|positive regulation of protein binding (GO:0032092)|regulation of angiogenesis (GO:0045765)|regulation of cell migration (GO:0030334)|semaphorin-plexin signaling pathway (GO:0071526)|synapse assembly (GO:0007416)	integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)	protein domain specific binding (GO:0019904)|semaphorin receptor activity (GO:0017154)		PLXND1/TMCC1(4)	NS(1)|breast(1)|endometrium(4)|kidney(5)|large_intestine(17)|lung(28)|prostate(10)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	72						CCCACCCACCAAGGTCGACGT	0.627																																					Ovarian(97;366 1484 3738 22084 39045)											0													64	56	58					3																	129281631		2203	4300	6503	SO:0001630	splice_region_variant	23129			AY116661	CCDS33854.1	3q21.3	2007-05-16			ENSG00000004399	ENSG00000004399		"Plexins"	9107	protein-coding gene	gene with protein product		604282				12412018	Standard	NM_015103		Approved	KIAA0620	uc003emx.2	Q9Y4D7	OTTHUMG00000159547	ENST00000324093.4:c.4825+1T>C	3.37:g.129281631A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A7E2C6|C9JPZ6|Q6PJS9|Q8IZJ2|Q9BTQ2	Silent	SNP	ENST00000324093.4	37	CCDS33854.1																																																																																				0.627	PLXND1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356132.4	NM_015103	Silent	G	129281631	A	G	129281631	5	3	689	1	0	0	0	0	0	0	1	0	12134	144	5	3	993	3	PLXND1	3	129281631	Splice_Site	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10	1958074	129281631	68740799	19	44706										
TNIK	23043	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	170846580	170846580	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	gctgaaggactccgaccttgGgggcaggttggggtcagata	17	8	1	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr3:170846580G>A	ENST00000436636.2	-	16	2040	c.1696C>T	c.(1696-1698)Cca>Tca	p.P566S	TNIK_ENST00000369326.5_Missense_Mutation_p.P537S|TNIK_ENST00000475336.1_Intron|TNIK_ENST00000460047.1_Intron|TNIK_ENST00000284483.8_Missense_Mutation_p.P566S|TNIK_ENST00000470834.1_Missense_Mutation_p.P537S|TNIK_ENST00000357327.5_Missense_Mutation_p.P537S|TNIK_ENST00000538048.1_Intron|TNIK_ENST00000341852.6_Intron|TNIK_ENST00000488470.1_Intron	NM_015028.2	NP_055843.1	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase	566	Mediates interaction with NEDD4.				actin cytoskeleton reorganization (GO:0031532)|activation of JNKK activity (GO:0007256)|cytoskeleton organization (GO:0007010)|intracellular signal transduction (GO:0035556)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of dendrite morphogenesis (GO:0048814)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)|small GTPase regulator activity (GO:0005083)			cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(14)|lung(22)|ovary(5)|pancreas(1)|prostate(4)|upper_aerodigestive_tract(2)	62	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			TCCGACCTTGGGGGCAGGTTG	0.557																																																0													53	57	56					3																	170846580		1961	4156	6117	SO:0001583	missense	23043			AF172264	CCDS46956.1, CCDS54673.1, CCDS54674.1, CCDS54675.1, CCDS54676.1, CCDS54677.1, CCDS54678.1, CCDS54679.1	3q26.31	2008-01-23			ENSG00000154310	ENSG00000154310			30765	protein-coding gene	gene with protein product		610005				9628581, 10521462	Standard	NR_027767		Approved	KIAA0551	uc003fhh.2	Q9UKE5	OTTHUMG00000159036	ENST00000436636.2:c.1696C>T	3.37:g.170846580G>A	ENSP00000399511:p.Pro566Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2A3|A8K4U1|D3DNQ6|O60298|Q8WUY7|Q9UKD8|Q9UKD9|Q9UKE0|Q9UKE1|Q9UKE2|Q9UKE3|Q9UKE4	Missense_Mutation	SNP	ENST00000436636.2	37	CCDS46956.1	.	.	.	.	.	.	.	.	.	.	G	15.98	2.993752	0.54041	.	.	ENSG00000154310	ENST00000436636;ENST00000369326;ENST00000284483;ENST00000357327;ENST00000470834	T;T;T;T;T	0.49139	0.79;0.79;0.79;0.79;0.79	5.11	5.11	0.69529	.	0.055369	0.64402	D	0.000001	T	0.35624	0.0938	N	0.17723	0.515	0.80722	D	1	B;B;B;B	0.32128	0.178;0.357;0.033;0.243	B;B;B;B	0.36959	0.237;0.237;0.084;0.119	T	0.10800	-1.0614	10	0.06625	T	0.88	.	18.7271	0.91718	0.0:0.0:1.0:0.0	.	537;566;537;566	Q9UKE5-6;Q9UKE5-4;Q9UKE5-2;Q9UKE5	.;.;.;TNIK_HUMAN	S	566;537;566;537;537	ENSP00000399511:P566S;ENSP00000358332:P537S;ENSP00000284483:P566S;ENSP00000349880:P537S;ENSP00000419990:P537S	ENSP00000284483:P566S	P	-	1	0	TNIK	172329274	1.000000	0.71417	0.997000	0.53966	0.992000	0.81027	7.298000	0.78815	2.652000	0.90054	0.561000	0.74099	CCA		0.557	TNIK-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000352973.2	XM_039796		A	170846580	G	A	170846580	3	1	689	1	0	0	0	0	1	0	0	0	16325	1232	43	2	2458	2	TNIK	3	170846580	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	41564949	170846580	27175850	20	44707										
SEL1L3	23231	broad.mit.edu	37	chr4	25760681	25760681	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ctcgattagcagggccaggtTaaaaaatccctaaaaacaag	8	9	0	0			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr4:25760681T>A	ENST00000399878.3	-	21	3087	c.2965A>T	c.(2965-2967)Aac>Tac	p.N989Y	SEL1L3_ENST00000264868.5_Missense_Mutation_p.N954Y|SEL1L3_ENST00000502949.1_Missense_Mutation_p.N836Y	NM_015187.3	NP_056002.2	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3 (C. elegans)	989						integral component of membrane (GO:0016021)				breast(1)|endometrium(1)|kidney(2)|large_intestine(1)|lung(6)|prostate(1)|urinary_tract(2)	14						AGGGCCAGGTTAAAAAATCCC	0.373																																																0													112	109	110					4																	25760681		1847	4089	5936	SO:0001583	missense	23231			BC009945	CCDS47037.1, CCDS75113.1	4p15.2	2009-09-24			ENSG00000091490	ENSG00000091490			29108	protein-coding gene	gene with protein product	"KIAA0746 protein"					9872452	Standard	XM_005248143		Approved	KIAA0746	uc003gru.4	Q68CR1	OTTHUMG00000160331	ENST00000399878.3:c.2965A>T	4.37:g.25760681T>A	ENSP00000382767:p.Asn989Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJH6|A8K0X2|O94847|Q6P999|Q96G59	Missense_Mutation	SNP	ENST00000399878.3	37	CCDS47037.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	22.1|22.1	4.238808|4.238808	0.79800|0.79800	.|.	.|.	ENSG00000091490|ENSG00000091490	ENST00000510448|ENST00000399878;ENST00000264868;ENST00000502949;ENST00000507618	.|T;T;T;T	.|0.57752	.|0.38;0.38;0.38;0.38	5.71|5.71	5.71|5.71	0.89125|0.89125	.|Tetratricopeptide-like helical (1);	.|0.099166	.|0.64402	.|D	.|0.000001	T|T	0.71392|0.71392	0.3334|0.3334	M|M	0.68952|0.68952	2.095|2.095	0.45216|0.45216	D|D	0.998226|0.998226	.|D;D	.|0.89917	.|0.999;1.0	.|D;D	.|0.83275	.|0.995;0.996	T|T	0.74636|0.74636	-0.3599|-0.3599	5|10	.|0.87932	.|D	.|0	-28.0464|-28.0464	15.9869|15.9869	0.80160|0.80160	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	.|396;989	.|B4DTH5;Q68CR1	.|.;SE1L3_HUMAN	F|Y	15|989;954;836;80	.|ENSP00000382767:N989Y;ENSP00000264868:N954Y;ENSP00000425438:N836Y;ENSP00000426050:N80Y	.|ENSP00000264868:N954Y	L|N	-|-	3|1	2|0	SEL1L3|SEL1L3	25369779|25369779	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.997000|0.997000	0.91878|0.91878	5.480000|5.480000	0.66820|0.66820	2.171000|2.171000	0.68590|0.68590	0.533000|0.533000	0.62120|0.62120	TTA|AAC		0.373	SEL1L3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360261.1	NM_015187		A	25760681	T	A	25760681	3	1	689	1	0	0	0	0	1	0	0	0	14025	1754	61	5	449	5	SEL1L3	4	25760681	Missense_Mutation	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10		25760681	165393595	21	44708										
SLC30A5	64924	bcgsc.ca	37	chr5	68413165	68413165	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ttgactgctctgctttagtcAtgggactttttgctgccctg	10	10	2	1	rs377546157		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr5:68413165A>G	ENST00000396591.3	+	11	1991	c.1381A>G	c.(1381-1383)Atg>Gtg	p.M461V	CTC-498J12.3_ENST00000504129.1_RNA	NM_022902.4	NP_075053.2	Q8TAD4	ZNT5_HUMAN	solute carrier family 30 (zinc transporter), member 5	461					cellular protein metabolic process (GO:0044267)|cellular zinc ion homeostasis (GO:0006882)|cobalt ion transport (GO:0006824)|regulation of proton transport (GO:0010155)|response to zinc ion (GO:0010043)|transmembrane transport (GO:0055085)|zinc ion transmembrane transport (GO:0071577)|zinc ion transport (GO:0006829)	apical plasma membrane (GO:0016324)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)|secretory granule (GO:0030141)|secretory granule membrane (GO:0030667)	zinc ion binding (GO:0008270)|zinc ion transmembrane transporter activity (GO:0005385)			breast(3)|central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(6)|lung(6)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	25		Lung NSC(167;0.000986)|Prostate(74;0.00809)|Colorectal(97;0.0508)|Ovarian(174;0.16)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)		TGCTTTAGTCATGGGACTTTT	0.453																																																0													198	185	189					5																	68413165		2203	4300	6503	SO:0001583	missense	64924			AF212235	CCDS3996.1, CCDS34173.1, CCDS58955.1	5q13.1	2013-05-22			ENSG00000145740	ENSG00000145740		"Solute carriers"	19089	protein-coding gene	gene with protein product		607819				11937503, 11904301	Standard	NM_022902		Approved	ZTL1, ZnT-5, FLJ12496, FLJ12756, ZNT5, MGC5499, ZNTL1	uc003jvh.3	Q8TAD4	OTTHUMG00000131253	ENST00000396591.3:c.1381A>G	5.37:g.68413165A>G	ENSP00000379836:p.Met461Val	Somatic		WXS	Illumina HiSeq	Phase_1	B7ZM89|Q6UX54|Q7L4M4|Q8TDG3|Q9BVY8|Q9H9H1	Missense_Mutation	SNP	ENST00000396591.3	37	CCDS3996.1	.	.	.	.	.	.	.	.	.	.	A	13.39	2.224205	0.39300	.	.	ENSG00000145740	ENST00000396591;ENST00000438236	T	0.59224	0.28	5.44	5.44	0.79542	.	0.136502	0.64402	D	0.000002	T	0.41696	0.1170	N	0.13299	0.325	0.80722	D	1	B;B;B	0.14012	0.001;0.005;0.009	B;B;B	0.20384	0.029;0.012;0.029	T	0.25676	-1.0125	10	0.23302	T	0.38	.	15.3146	0.74065	1.0:0.0:0.0:0.0	.	290;290;461	Q9H9X0;Q8TAD4-2;Q8TAD4	.;.;ZNT5_HUMAN	V	461;74	ENSP00000379836:M461V	ENSP00000379836:M461V	M	+	1	0	SLC30A5	68448921	1.000000	0.71417	1.000000	0.80357	0.918000	0.54935	5.332000	0.65911	2.287000	0.76781	0.482000	0.46254	ATG		0.453	SLC30A5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254017.2			G	68413165	A	G	68413165	3	3	689	1	0	0	0	0	1	0	0	0	14571	217	8	3	1511	3	SLC30A5	5	68413165	Missense_Mutation	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10		68413165	112502095	22	44709										
GPR150	285601	broad.mit.edu	37	chr5	94957233	94957233	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	gacgagggcggcttgcgcccAccccctccgcgccccagacc	12	21	0	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr5:94957233A>C	ENST00000380007.2	+	1	1452	c.1254A>C	c.(1252-1254)ccA>ccC	p.P418P		NM_199243.1	NP_954713.1	Q8NGU9	GP150_HUMAN	G protein-coupled receptor 150	418	Poly-Pro.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			lung(2)	2		all_cancers(142;0.000462)|all_epithelial(76;2.44e-06)|all_lung(232;0.0318)|Lung NSC(167;0.041)|Ovarian(225;0.051)		all cancers(79;1.82e-16)		GCTTGCGCCCACCCCCTCCGC	0.682																																																0													9	10	10					5																	94957233		2123	4114	6237	SO:0001819	synonymous_variant	285601			BC030197	CCDS4074.1	5q15	2012-08-21			ENSG00000178015	ENSG00000178015		"GPCR / Class A : Orphans"	23628	protein-coding gene	gene with protein product						12679517	Standard	NM_199243		Approved	PGR11	uc003kle.1	Q8NGU9	OTTHUMG00000121170	ENST00000380007.2:c.1254A>C	5.37:g.94957233A>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000380007.2	37	CCDS4074.1																																																																																				0.682	GPR150-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241657.2			C	94957233	A	C	94957233	2	2	689	1	0	0	0	0	0	0	0	1	6663	146	6	5		5	GPR150	5	94957233	Silent	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10	26544068	94957233	85958027	23	44710										
KCNN2	3781	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	113740442	113740442	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	acttaataagataaacttcaAtacacgttttgttatgaaga	5	5	1	3			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr5:113740442A>G	ENST00000512097.3	+	4	1908	c.890A>G	c.(889-891)aAt>aGt	p.N297S	KCNN2_ENST00000264773.3_Missense_Mutation_p.N297S|KCNN2_ENST00000507750.1_Intron			Q9H2S1	KCNN2_HUMAN	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 2	297					potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|regulation of potassium ion transmembrane transport (GO:1901379)|synaptic transmission (GO:0007268)	dendritic spine (GO:0043197)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|smooth endoplasmic reticulum (GO:0005790)|T-tubule (GO:0030315)|Z disc (GO:0030018)	alpha-actinin binding (GO:0051393)|calcium-activated potassium channel activity (GO:0015269)|calmodulin binding (GO:0005516)|protein homodimerization activity (GO:0042803)|small conductance calcium-activated potassium channel activity (GO:0016286)			breast(1)|endometrium(5)|kidney(2)|large_intestine(7)|lung(21)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	45		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)	Miconazole(DB01110)|Procaine(DB00721)	ATAAACTTCAATACACGTTTT	0.373																																																0													128	126	127					5																	113740442		2202	4300	6502	SO:0001583	missense	3781			AF239613	CCDS4114.1, CCDS43352.1	5q22.3	2012-07-05			ENSG00000080709	ENSG00000080709		"Potassium channels", "Voltage-gated ion channels / Potassium channels, calcium-activated"	6291	protein-coding gene	gene with protein product		605879				16382103	Standard	NM_001278204		Approved	KCa2.2, hSK2	uc003kqo.3	Q9H2S1	OTTHUMG00000128836	ENST00000512097.3:c.890A>G	5.37:g.113740442A>G	ENSP00000427120:p.Asn297Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF94|Q0VFZ4|Q6PJI0|Q6X2Y2	Missense_Mutation	SNP	ENST00000512097.3	37	CCDS4114.1	.	.	.	.	.	.	.	.	.	.	A	20.3	3.974549	0.74246	.	.	ENSG00000080709	ENST00000512097;ENST00000264773	D;D	0.98701	-5.08;-5.08	5.33	5.33	0.75918	.	0.089556	0.85682	D	0.000000	D	0.98679	0.9557	M	0.86805	2.84	0.80722	D	1	P	0.44877	0.845	P	0.48770	0.589	D	0.99525	1.0959	10	0.87932	D	0	-4.5111	14.9498	0.71064	1.0:0.0:0.0:0.0	.	297	Q9H2S1	KCNN2_HUMAN	S	297	ENSP00000427120:N297S;ENSP00000264773:N297S	ENSP00000264773:N297S	N	+	2	0	KCNN2	113768341	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	9.224000	0.95209	2.016000	0.59253	0.402000	0.26972	AAT		0.373	KCNN2-001	KNOWN	not_organism_supported|upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250775.2	NM_021614		G	113740442	A	G	113740442	3	3	689	1	0	0	0	0	1	0	0	0	8086	101	4	3	900	3	KCNN2	5	113740442	Missense_Mutation	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10	18783209	113740442	67174818	24	44711										
F13A1	2162	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	6222265	6222266	+	Splice_Site	INS	-	-	CACA													0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ccattgtcaatcaaactcacINScacactgaatccttggtgag							TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr6:6222265_6222266insCACA	ENST00000264870.3	-	8	1377_1378		c.e8+1			NM_000129.3	NP_000120.2	P00488	F13A_HUMAN	coagulation factor XIII, A1 polypeptide						blood coagulation (GO:0007596)|peptide cross-linking (GO:0018149)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|platelet alpha granule lumen (GO:0031093)	metal ion binding (GO:0046872)|protein-glutamine gamma-glutamyltransferase activity (GO:0003810)			NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(37)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	62	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	ATCAAACTCACCACACTGAATC	0.376																																																0																																										SO:0001630	splice_region_variant	2162			M14539	CCDS4496.1	6p24.2-p23	2014-01-24			ENSG00000124491	ENSG00000124491		"Transglutaminases"	3531	protein-coding gene	gene with protein product		134570		F13A			Standard	NM_000129		Approved		uc003mwv.3	P00488	OTTHUMG00000014186	ENST00000264870.3:c.1112+1->TGTG	6.37:g.6222266_6222269dupCACA		Somatic		WXS	Illumina HiSeq	Phase_I	Q59HA7|Q8N6X2|Q96P24|Q9BX29	Splice_Site	INS	ENST00000264870.3	37	CCDS4496.1																																																																																				0.376	F13A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039756.3	NM_000129	Intron	CACA	6222266	-	CACA	6222265	8	5	689	1	0	1	1	0	0	0	1	0	5342	521	18	0	1117	0	F13A1	6	6222265	Splice_Site	INS	-	TCGA-KV-A6GE-01A-11D-A31X-10		6222265	164892802	25	44712										
HIST1H1E	3008	broad.mit.edu	37	chr6	26157244	26157244	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	gaccgccaagcccaaggcagCcaagccaaagaaggcggcag	13	14	0	1	rs537217446		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr6:26157244C>T	ENST00000304218.3	+	1	686	c.626C>T	c.(625-627)gCc>gTc	p.A209V	HIST1H2BD_ENST00000377777.4_5'Flank|HIST1H2BD_ENST00000289316.2_5'Flank	NM_005321.2	NP_005312.1	P10412	H14_HUMAN	histone cluster 1, H1e	209					nucleosome assembly (GO:0006334)|nucleosome positioning (GO:0016584)	extracellular vesicular exosome (GO:0070062)|nuclear heterochromatin (GO:0005720)|nucleosome (GO:0000786)|nucleus (GO:0005634)	chromatin DNA binding (GO:0031490)|poly(A) RNA binding (GO:0044822)			NS(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(1)|liver(1)|lung(9)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	26						CCCAAGGCAGCCAAGCCAAAG	0.542													C|||	1	0.000199681	0.0008	0.0	5008	,	,		15493	0.0		0.0	False		,,,				2504	0.0															0													31	33	32					6																	26157244		2202	4291	6493	SO:0001583	missense	3008			M60748	CCDS4586.1	6p22.1	2012-05-04	2006-10-11	2003-02-21	ENSG00000168298	ENSG00000168298		"Histones / Replication-dependent"	4718	protein-coding gene	gene with protein product		142220	"H1 histone family, member 4", "histone 1, H1e"	H1F4		1916825, 12408966	Standard	NM_005321		Approved	H1.4, H1e, H1s-4	uc003ngq.3	P10412	OTTHUMG00000014422	ENST00000304218.3:c.626C>T	6.37:g.26157244C>T	ENSP00000307705:p.Ala209Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VB25	Missense_Mutation	SNP	ENST00000304218.3	37	CCDS4586.1	.	.	.	.	.	.	.	.	.	.	.	12.89	2.073411	0.36566	.	.	ENSG00000168298	ENST00000304218	T	0.25579	1.79	5.51	4.64	0.57946	.	0.141424	0.45867	D	0.000340	T	0.33760	0.0874	L	0.58810	1.83	0.49798	D	0.999827	D	0.57571	0.98	D	0.70227	0.968	T	0.06075	-1.0847	10	0.36615	T	0.2	-4.4289	13.8813	0.63684	0.0:0.9262:0.0:0.0738	.	209	P10412	H14_HUMAN	V	209	ENSP00000307705:A209V	ENSP00000307705:A209V	A	+	2	0	HIST1H1E	26265223	0.958000	0.32768	1.000000	0.80357	0.999000	0.98932	3.856000	0.55964	1.452000	0.47756	0.655000	0.94253	GCC		0.542	HIST1H1E-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040084.1	NM_005321		T	26157244	C	T	26157244	3	4	689	1	0	0	0	0	1	0	0	0	7133	739	26	2	628	2	HIST1H1E	6	26157244	Missense_Mutation	SNP	C	TCGA-KV-A6GE-01A-11D-A31X-10	19934979	26157244	144957823	26	44713										
MDGA1	266727	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	37622225	37622225	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	gaccactgcagctgggggagGggatcaccgcctgtcagcag	16	12	2	0			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr6:37622225G>T	ENST00000434837.3	-	6	1985	c.807C>A	c.(805-807)ccC>ccA	p.P269P	MDGA1_ENST00000505425.1_Silent_p.P269P|MDGA1_ENST00000297153.7_Silent_p.P269P	NM_153487.3	NP_705691.1	Q8NFP4	MDGA1_HUMAN	MAM domain containing glycosylphosphatidylinositol anchor 1	269	Ig-like 3.				brain development (GO:0007420)|cerebral cortex radially oriented cell migration (GO:0021799)|neuron migration (GO:0001764)|spinal cord association neuron differentiation (GO:0021527)	anchored component of plasma membrane (GO:0046658)|extracellular space (GO:0005615)				central_nervous_system(2)|endometrium(6)|kidney(3)|large_intestine(12)|lung(11)|prostate(1)|skin(2)|urinary_tract(1)	38						GCTGGGGGAGGGGATCACCGC	0.642																																																0													45	48	47					6																	37622225		2076	4205	6281	SO:0001819	synonymous_variant	266727			AF478693	CCDS47417.1	6p21	2013-01-29			ENSG00000112139	ENSG00000112139		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	19267	protein-coding gene	gene with protein product		609626				15922729, 15019943	Standard	NM_153487		Approved	GPIM, MAMDC3	uc003onu.1	Q8NFP4	OTTHUMG00000014626	ENST00000434837.3:c.807C>A	6.37:g.37622225G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NHG0|Q8NBE3	Silent	SNP	ENST00000434837.3	37	CCDS47417.1																																																																																				0.642	MDGA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040419.3			T	37622225	G	T	37622225	2	4	689	1	0	0	0	0	0	0	0	1	9413	1219	43	4		4	MDGA1	6	37622225	Silent	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	11464981	37622225	133492842	27	44714										
FILIP1	27145	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	76023889	76023889	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	tcagattttagttttaaaagTttcttactttcttcaattag	4	5	4	1	rs540413529		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr6:76023889T>A	ENST00000237172.7	-	5	1989	c.1659A>T	c.(1657-1659)aaA>aaT	p.K553N	FILIP1_ENST00000393004.2_Missense_Mutation_p.K553N|FILIP1_ENST00000498523.1_5'UTR|FILIP1_ENST00000370020.1_Missense_Mutation_p.K454N	NM_015687.2	NP_056502.1	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	553										breast(3)|central_nervous_system(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(18)|liver(1)|lung(28)|ovary(1)|pancreas(1)|prostate(5)|skin(9)|upper_aerodigestive_tract(4)	80						GTTTTAAAAGTTTCTTACTTT	0.299																																																0													53	55	55					6																	76023889		2202	4296	6498	SO:0001583	missense	27145			AB033101	CCDS4984.1, CCDS75480.1	6q14.1	2008-02-05			ENSG00000118407	ENSG00000118407			21015	protein-coding gene	gene with protein product		607307				10574462	Standard	XM_005248713		Approved	FILIP, KIAA1275	uc003pia.3	Q7Z7B0	OTTHUMG00000015056	ENST00000237172.7:c.1659A>T	6.37:g.76023889T>A	ENSP00000237172:p.Lys553Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMU6|Q5VUL6|Q86TC3|Q8N8B9|Q96SK6|Q9NVI8|Q9ULE5	Missense_Mutation	SNP	ENST00000237172.7	37	CCDS4984.1	.	.	.	.	.	.	.	.	.	.	T	13.87	2.365070	0.41902	.	.	ENSG00000118407	ENST00000393004;ENST00000237172;ENST00000370020	T;T;T	0.20881	2.04;2.04;2.07	5.95	3.25	0.37280	.	0.000000	0.85682	D	0.000000	T	0.31327	0.0793	M	0.79258	2.445	0.50039	D	0.99984	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.85130	0.997;0.986;0.994	T	0.07731	-1.0757	10	0.52906	T	0.07	-33.9484	9.0168	0.36175	0.0:0.6368:0.0:0.3632	.	553;553;553	A8K2G7;Q7Z7B0;Q7Z7B0-2	.;FLIP1_HUMAN;.	N	553;553;454	ENSP00000376728:K553N;ENSP00000237172:K553N;ENSP00000359037:K454N	ENSP00000237172:K553N	K	-	3	2	FILIP1	76080609	0.998000	0.40836	1.000000	0.80357	0.983000	0.72400	0.593000	0.23999	0.437000	0.26423	-0.132000	0.14878	AAA		0.299	FILIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041263.1	XM_029179		A	76023889	T	A	76023889	3	1	689	1	0	0	0	0	1	0	0	0	5901	1722	60	5	1990	5	FILIP1	6	76023889	Missense_Mutation	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10	38401664	76023889	95091178	28	44715										
USP45	85015	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	99894085	99894085	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	acaccggatccactactggaTctgaacagcccagtctgctt	8	14	2	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr6:99894085T>C	ENST00000327681.6	-	14	2095	c.1563A>G	c.(1561-1563)agA>agG	p.R521R	USP45_ENST00000369233.2_Silent_p.R473R|USP45_ENST00000392738.2_Silent_p.R201R|USP45_ENST00000500704.2_Silent_p.R521R|USP45_ENST00000539675.1_Intron	NM_001080481.1	NP_001073950.1	Q70EL2	UBP45_HUMAN	ubiquitin specific peptidase 45	521	USP.		R -> T (in dbSNP:rs41288947). {ECO:0000269|PubMed:15489334}.		protein deubiquitination (GO:0016579)|ubiquitin-dependent protein catabolic process (GO:0006511)		ubiquitin-specific protease activity (GO:0004843)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(5)|large_intestine(6)|lung(2)|ovary(1)|skin(1)|stomach(2)|upper_aerodigestive_tract(1)	22		all_cancers(76;0.000208)|Acute lymphoblastic leukemia(125;8.41e-11)|all_hematologic(75;2.56e-07)|all_epithelial(107;0.122)|Colorectal(196;0.133)		BRCA - Breast invasive adenocarcinoma(108;0.0718)		CACTACTGGATCTGAACAGCC	0.483																																																0													83	69	74					6																	99894085		2203	4300	6503	SO:0001819	synonymous_variant	85015			AL832030	CCDS34501.1	6q16.2	2008-02-05	2005-08-08		ENSG00000123552	ENSG00000123552		"Ubiquitin-specific peptidases"	20080	protein-coding gene	gene with protein product			"ubiquitin specific protease 45"			12838346	Standard	NM_001080481		Approved	MGC14793	uc003ppx.2	Q70EL2	OTTHUMG00000015267	ENST00000327681.6:c.1563A>G	6.37:g.99894085T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RXG0|Q5T062|Q86T44|Q86TC0|Q9BRU1	Silent	SNP	ENST00000327681.6	37	CCDS34501.1																																																																																				0.483	USP45-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041609.2	NM_032929		C	99894085	T	C	99894085	2	2	689	1	0	0	0	0	0	0	0	1	17088	1432	50	3		3	USP45	6	99894085	Silent	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10	23870196	99894085	71220982	29	44716										
ENPP1	5167	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	132211511	132211511	+	Frame_Shift_Del	DEL	G	G	-													0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	atgactcctcatgggttgaaGaattgttaatgttacacaga							TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr6:132211511delG	ENST00000360971.2	+	25	2658	c.2638delG	c.(2638-2640)gaafs	p.E880fs		NM_006208.2	NP_006199.2	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase 1	880	Nuclease.				3'-phosphoadenosine 5'-phosphosulfate metabolic process (GO:0050427)|ATP catabolic process (GO:0006200)|biomineral tissue development (GO:0031214)|bone remodeling (GO:0046849)|cellular phosphate ion homeostasis (GO:0030643)|cellular response to insulin stimulus (GO:0032869)|generation of precursor metabolites and energy (GO:0006091)|immune response (GO:0006955)|inorganic diphosphate transport (GO:0030505)|negative regulation of cell growth (GO:0030308)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of glucose import (GO:0046325)|negative regulation of glycogen biosynthetic process (GO:0045719)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of ossification (GO:0030279)|negative regulation of protein autophosphorylation (GO:0031953)|nucleic acid phosphodiester bond hydrolysis (GO:0090305)|nucleoside triphosphate catabolic process (GO:0009143)|phosphate-containing compound metabolic process (GO:0006796)|regulation of bone mineralization (GO:0030500)|riboflavin metabolic process (GO:0006771)|sequestering of triglyceride (GO:0030730)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|plasma membrane (GO:0005886)	3'-phosphoadenosine 5'-phosphosulfate binding (GO:0050656)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|insulin receptor binding (GO:0005158)|NADH pyrophosphatase activity (GO:0035529)|nucleic acid binding (GO:0003676)|nucleoside-triphosphate diphosphatase activity (GO:0047429)|nucleotide diphosphatase activity (GO:0004551)|phosphodiesterase I activity (GO:0004528)|polysaccharide binding (GO:0030247)|protein homodimerization activity (GO:0042803)|scavenger receptor activity (GO:0005044)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(2)|endometrium(1)|kidney(3)|large_intestine(8)|lung(22)|ovary(2)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	46	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	ATGGGTTGAAGAATTGTTAAT	0.388																																					Colon(104;336 1535 5856 11019 33782)											0													132	123	126					6																	132211511		2203	4300	6503	SO:0001589	frameshift_variant	5167			M57736	CCDS5150.2	6q22-q23	2008-02-07			ENSG00000197594	ENSG00000197594	3.1.4.1, 3.6.1.9		3356	protein-coding gene	gene with protein product		173335		NPPS, M6S1, PDNP1		1315502	Standard	NM_006208		Approved	PC-1, PCA1	uc011ecf.2	P22413	OTTHUMG00000015572	ENST00000360971.2:c.2638delG	6.37:g.132211511delG	ENSP00000354238:p.Glu880fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T9R6|Q9NPZ3|Q9P1P6|Q9UP61|Q9Y6K3	Frame_Shift_Del	DEL	ENST00000360971.2	37	CCDS5150.2																																																																																				0.388	ENPP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042238.2			-	132211511	G	-	132211511	7	5	689	1	0	1	0	1	0	0	0	0	5131	943	33	0	2736	0	ENPP1	6	132211511	Frame_Shift_Del	DEL	G	TCGA-KV-A6GE-01A-11D-A31X-10	32317426	132211511	38903556	30	44717	482	2								
ENPP1	5167	bcgsc.ca	37	chr6	132211512	132211512	+	Missense_Mutation	SNP	A	A	T													0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	tgactcctcatgggttgaagAattgttaatgttacacagag							TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr6:132211512A>T	ENST00000360971.2	+	25	2659	c.2639A>T	c.(2638-2640)gAa>gTa	p.E880V		NM_006208.2	NP_006199.2	P22413	ENPP1_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase 1	880	Nuclease.				3'-phosphoadenosine 5'-phosphosulfate metabolic process (GO:0050427)|ATP catabolic process (GO:0006200)|biomineral tissue development (GO:0031214)|bone remodeling (GO:0046849)|cellular phosphate ion homeostasis (GO:0030643)|cellular response to insulin stimulus (GO:0032869)|generation of precursor metabolites and energy (GO:0006091)|immune response (GO:0006955)|inorganic diphosphate transport (GO:0030505)|negative regulation of cell growth (GO:0030308)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of glucose import (GO:0046325)|negative regulation of glycogen biosynthetic process (GO:0045719)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of ossification (GO:0030279)|negative regulation of protein autophosphorylation (GO:0031953)|nucleic acid phosphodiester bond hydrolysis (GO:0090305)|nucleoside triphosphate catabolic process (GO:0009143)|phosphate-containing compound metabolic process (GO:0006796)|regulation of bone mineralization (GO:0030500)|riboflavin metabolic process (GO:0006771)|sequestering of triglyceride (GO:0030730)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|lysosomal membrane (GO:0005765)|plasma membrane (GO:0005886)	3'-phosphoadenosine 5'-phosphosulfate binding (GO:0050656)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|insulin receptor binding (GO:0005158)|NADH pyrophosphatase activity (GO:0035529)|nucleic acid binding (GO:0003676)|nucleoside-triphosphate diphosphatase activity (GO:0047429)|nucleotide diphosphatase activity (GO:0004551)|phosphodiesterase I activity (GO:0004528)|polysaccharide binding (GO:0030247)|protein homodimerization activity (GO:0042803)|scavenger receptor activity (GO:0005044)|zinc ion binding (GO:0008270)			autonomic_ganglia(1)|breast(2)|endometrium(1)|kidney(3)|large_intestine(8)|lung(22)|ovary(2)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	46	Breast(56;0.0505)			GBM - Glioblastoma multiforme(226;0.0216)|OV - Ovarian serous cystadenocarcinoma(155;0.022)	Amifostine(DB01143)|Ribavirin(DB00811)	TGGGTTGAAGAATTGTTAATG	0.393																																					Colon(104;336 1535 5856 11019 33782)											0													132	123	126					6																	132211512		2203	4300	6503	SO:0001583	missense	5167			M57736	CCDS5150.2	6q22-q23	2008-02-07			ENSG00000197594	ENSG00000197594	3.1.4.1, 3.6.1.9		3356	protein-coding gene	gene with protein product		173335		NPPS, M6S1, PDNP1		1315502	Standard	NM_006208		Approved	PC-1, PCA1	uc011ecf.2	P22413	OTTHUMG00000015572	ENST00000360971.2:c.2639A>T	6.37:g.132211512A>T	ENSP00000354238:p.Glu880Val	Somatic		WXS	Illumina HiSeq	Phase_1	Q5T9R6|Q9NPZ3|Q9P1P6|Q9UP61|Q9Y6K3	Missense_Mutation	SNP	ENST00000360971.2	37	CCDS5150.2	.	.	.	.	.	.	.	.	.	.	A	20.5	4.005981	0.74932	.	.	ENSG00000197594	ENST00000360971	T	0.69926	-0.44	5.73	5.73	0.89815	DNA/RNA non-specific endonuclease (2);Extracellular Endonuclease, subunit A (2);	0.231734	0.43260	D	0.000599	T	0.80788	0.4690	M	0.87381	2.88	0.50632	D	0.999888	D	0.63880	0.993	D	0.72075	0.976	D	0.83861	0.0268	10	0.56958	D	0.05	-9.8218	15.671	0.77274	1.0:0.0:0.0:0.0	.	880	P22413	ENPP1_HUMAN	V	880	ENSP00000354238:E880V	ENSP00000354238:E880V	E	+	2	0	ENPP1	132253205	1.000000	0.71417	0.927000	0.36925	0.638000	0.38207	7.323000	0.79105	2.184000	0.69523	0.477000	0.44152	GAA		0.393	ENPP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042238.2			T	132211512	A	T	132211512	3	4	689	1	0	0	0	0	1	0	0	0	5131	246	9	5	2737	5	ENPP1	6	132211512	Missense_Mutation	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10	1	132211512	38903555	31	44718	482	2								
COPS6	10980	ucsc.edu;bcgsc.ca	37	chr7	99686962	99686962	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	actgggagtgtttccgtcgcTctccatccccttgtcattct	8	14	3	0			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr7:99686962T>C	ENST00000303904.3	+	2	163	c.126T>C	c.(124-126)gcT>gcC	p.A42A	COPS6_ENST00000418625.1_Silent_p.A41A	NM_006833.4	NP_006824.2	Q7L5N1	CSN6_HUMAN	COP9 signalosome subunit 6	42	MPN.				cullin deneddylation (GO:0010388)|viral process (GO:0016032)	COP9 signalosome (GO:0008180)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)				breast(1)|endometrium(3)|large_intestine(4)|lung(2)|prostate(1)|stomach(1)	12	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)		STAD - Stomach adenocarcinoma(171;0.129)			TTTCCGTCGCTCTCCATCCCC	0.607																																																0													152	139	143					7																	99686962		2203	4300	6503	SO:0001819	synonymous_variant	10980			BC002520	CCDS5682.1	7q22.1	2013-03-14	2013-03-14		ENSG00000168090	ENSG00000168090			21749	protein-coding gene	gene with protein product	"COP9 subunit 6 (MOV34 homolog, 34 kD)"	614729	"COP9 constitutive photomorphogenic homolog subunit 6 (Arabidopsis)"			12477932	Standard	NM_006833		Approved	MOV34-34KD, CSN6	uc003usu.3	Q7L5N1	OTTHUMG00000154632	ENST00000303904.3:c.126T>C	7.37:g.99686962T>C		Somatic		WXS	Illumina HiSeq		A4D2A3|O15387	Silent	SNP	ENST00000303904.3	37	CCDS5682.1																																																																																				0.607	COPS6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000336412.3	NM_006833		C	99686962	T	C	99686962	2	2	689	1	0	0	0	0	0	0	0	1	3739	1538	54	3		3	COPS6	7	99686962	Silent	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10		99686962	59451701	32	44719										
FLNC	2318	broad.mit.edu	37	chr7	128483884	128483885	+	Frame_Shift_Ins	INS	-	-	G													0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	acagtgacttatggcggggaINSccctgtccccaagagcccct					rs200474685		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr7:128483884_128483885insG	ENST00000325888.8	+	19	3107_3108	c.2846_2847insG	c.(2845-2850)gaccctfs	p.D949fs	FLNC_ENST00000346177.6_Frame_Shift_Ins_p.D949fs	NM_001458.4	NP_001449.3	Q14315	FLNC_HUMAN	filamin C, gamma	949					cell junction assembly (GO:0034329)	costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcoplasm (GO:0016528)	ankyrin binding (GO:0030506)|cytoskeletal protein binding (GO:0008092)			biliary_tract(1)|breast(7)|central_nervous_system(1)|cervix(1)|endometrium(19)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(19)|lung(59)|ovary(2)|pancreas(2)|prostate(1)|skin(6)|upper_aerodigestive_tract(2)	128						TATGGCGGGGACCCTGTCCCCA	0.535																																																0																																										SO:0001589	frameshift_variant	2318			AB208865	CCDS43644.1, CCDS47705.1	7q32-q35	2014-09-17	2009-07-23		ENSG00000128591	ENSG00000128591			3756	protein-coding gene	gene with protein product	"actin binding protein 280"	102565	"filamin C, gamma (actin binding protein 280)"	FLN2		7689010, 8088838	Standard	NM_001458		Approved	ABP-280, ABPL	uc003vnz.4	Q14315	OTTHUMG00000023627	Exception_encountered	7.37:g.128483884_128483885insG	ENSP00000327145:p.Asp949fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2ZZ88|O95303|Q07985|Q9NS12|Q9NYE5|Q9UMR8|Q9Y503	Frame_Shift_Ins	INS	ENST00000325888.8	37	CCDS43644.1																																																																																				0.535	FLNC-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059948.3			G	128483885	-	G	128483884	7	5	689	1	0	1	1	0	0	0	0	0	5942	275	10	0	2920	0	FLNC	7	128483884	Frame_Shift_Ins	INS	-	TCGA-KV-A6GE-01A-11D-A31X-10	28796922	128483884	30654779	33	44720										
ZNF425	155054	broad.mit.edu	37	chr7	148800800	148800800	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ccacactcatcacaagaaaaAggcctctccccactgtgaag	6	15	3	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr7:148800800A>G	ENST00000378061.2	-	4	2295	c.2163T>C	c.(2161-2163)ccT>ccC	p.P721P		NM_001001661.2	NP_001001661.1	Q6IV72	ZN425_HUMAN	zinc finger protein 425	721					negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(6)|endometrium(4)|kidney(3)|large_intestine(11)|lung(20)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)	50	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			CACAAGAAAAAGGCCTCTCCC	0.567																																																0													77	68	71					7																	148800800		2203	4300	6503	SO:0001819	synonymous_variant	155054			AK056498	CCDS34773.1	7q36.1	2013-01-08			ENSG00000204947	ENSG00000204947		"Zinc fingers, C2H2-type", "-"	20690	protein-coding gene	gene with protein product							Standard	NM_001001661		Approved		uc003wfj.3	Q6IV72	OTTHUMG00000158971	ENST00000378061.2:c.2163T>C	7.37:g.148800800A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KPM1|Q08AG3	Silent	SNP	ENST00000378061.2	37	CCDS34773.1																																																																																				0.567	ZNF425-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352726.1	XM_088140		G	148800800	A	G	148800800	2	3	689	1	0	0	0	0	0	0	0	1	17911	59	3	3		3	ZNF425	7	148800800	Silent	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10	20316916	148800800	10337863	34	44721										
TGS1	96764	broad.mit.edu;bcgsc.ca	37	chr8	56686242	56686242	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	cattgaggagcgggaggattGtaagatactgtgcctttgct	14	6	0	2	rs140849025		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr8:56686242G>A	ENST00000260129.5	+	1	542	c.65G>A	c.(64-66)tGt>tAt	p.C22Y	TMEM68_ENST00000521229.1_5'Flank|TMEM68_ENST00000519784.1_5'Flank|TMEM68_ENST00000334667.2_5'Flank|TMEM68_ENST00000434581.2_5'Flank|TMEM68_ENST00000522576.1_5'Flank|TMEM68_ENST00000523073.1_5'Flank	NM_024831.6	NP_079107.6	Q96RS0	TGS1_HUMAN	trimethylguanosine synthase 1	22					7-methylguanosine cap hypermethylation (GO:0036261)|7-methylguanosine RNA capping (GO:0009452)|cellular lipid metabolic process (GO:0044255)|gene expression (GO:0010467)|ncRNA metabolic process (GO:0034660)|regulation of transcription, DNA-templated (GO:0006355)|ribonucleoprotein complex biogenesis (GO:0022613)|ribonucleoprotein complex import into nucleus (GO:0071167)|RNA metabolic process (GO:0016070)|small molecule metabolic process (GO:0044281)|spliceosomal snRNP assembly (GO:0000387)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular space (GO:0005615)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|small nuclear ribonucleoprotein complex (GO:0030532)	RNA trimethylguanosine synthase activity (GO:0071164)			breast(3)|central_nervous_system(1)|endometrium(4)|large_intestine(5)|lung(10)|ovary(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	29		all_lung(136;0.119)|all_epithelial(80;0.125)|Lung NSC(129;0.147)	Epithelial(17;0.00027)|all cancers(17;0.00251)			CGGGAGGATTGTAAGATACTG	0.488																																					Esophageal Squamous(34;275 823 4842 34837 48447)											0													138	138	138					8																	56686242		2203	4300	6503	SO:0001583	missense	96764			AY028423	CCDS34894.1	8q11	2010-06-25	2010-06-25	2006-11-27	ENSG00000137574	ENSG00000137574	2.1.1.-		17843	protein-coding gene	gene with protein product		606461	"nuclear receptor coactivator 6 interacting protein", "trimethylguanosine synthase homolog (S. cerevisiae)"	NCOA6IP		11517327, 11983179, 19307714	Standard	NM_024831		Approved	PIMT	uc003xsj.4	Q96RS0	OTTHUMG00000164294	ENST00000260129.5:c.65G>A	8.37:g.56686242G>A	ENSP00000260129:p.Cys22Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJQ5|Q5GH23|Q8TDG9|Q96QU3|Q9H5V3	Missense_Mutation	SNP	ENST00000260129.5	37	CCDS34894.1	.	.	.	.	.	.	.	.	.	.	G	0.001	-4.651060	0.00000	.	.	ENSG00000137574	ENST00000260129	T	0.16743	2.32	4.83	-9.65	0.00537	.	2.328040	0.01178	N	0.007037	T	0.04003	0.0112	N	0.01267	-0.92	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.33828	-0.9853	10	0.02654	T	1	11.8686	4.4565	0.11645	0.0822:0.3072:0.4524:0.1581	.	22	Q96RS0	TGS1_HUMAN	Y	22	ENSP00000260129:C22Y	ENSP00000260129:C22Y	C	+	2	0	TGS1	56848796	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-4.180000	0.00279	-7.058000	0.00002	-3.382000	0.00040	TGT		0.488	TGS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378152.1	NM_024831		A	56686242	G	A	56686242	3	1	689	1	0	0	0	0	1	0	0	0	15849	1377	48	2	67	2	TGS1	8	56686242	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10		56686242	89677780	35	44722										
PRDM14	63978	broad.mit.edu	37	chr8	70981965	70981965	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ggaagtcttcctccacggtgGccaggctgtttctgtagtgt	13	10	2	0			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr8:70981965G>T	ENST00000276594.2	-	2	332	c.131C>A	c.(130-132)gCc>gAc	p.A44D		NM_024504.3	NP_078780.1	Q9GZV8	PRD14_HUMAN	PR domain containing 14	44					cell fate specification (GO:0001708)|cell morphogenesis (GO:0000902)|fertilization (GO:0009566)|germ cell development (GO:0007281)|germ-line stem cell maintenance (GO:0030718)|histone H3-R26 methylation (GO:0034972)|homeostasis of number of cells within a tissue (GO:0048873)|inner cell mass cell fate commitment (GO:0001827)|negative regulation of fibroblast growth factor receptor signaling pathway (GO:0040037)|regulation of DNA methylation (GO:0044030)|regulation of gene expression, epigenetic (GO:0040029)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|methyltransferase activity (GO:0008168)			NS(1)|endometrium(4)|kidney(4)|large_intestine(3)|lung(13)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	32	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			CTCCACGGTGGCCAGGCTGTT	0.657																																					NSCLC(129;99 1813 5906 40656 46114)											0													15	16	16					8																	70981965		2196	4295	6491	SO:0001583	missense	63978			AF319458	CCDS6206.1	8q13.3	2013-01-08			ENSG00000147596	ENSG00000147596		"Zinc fingers, C2H2-type"	14001	protein-coding gene	gene with protein product		611781					Standard	NM_024504		Approved		uc003xym.3	Q9GZV8	OTTHUMG00000150495	ENST00000276594.2:c.131C>A	8.37:g.70981965G>T	ENSP00000276594:p.Ala44Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q86UX9	Missense_Mutation	SNP	ENST00000276594.2	37	CCDS6206.1	.	.	.	.	.	.	.	.	.	.	G	14.40	2.524450	0.44969	.	.	ENSG00000147596	ENST00000276594;ENST00000426346	T	0.12255	2.7	5.48	2.68	0.31781	.	0.713478	0.12923	N	0.428054	T	0.09905	0.0243	L	0.27053	0.805	0.09310	N	1	B	0.30482	0.281	B	0.24701	0.055	T	0.23048	-1.0199	10	0.66056	D	0.02	0.2737	9.427	0.38586	0.076:0.2701:0.6538:0.0	.	44	Q9GZV8	PRD14_HUMAN	D	44	ENSP00000276594:A44D	ENSP00000276594:A44D	A	-	2	0	PRDM14	71144519	0.001000	0.12720	0.000000	0.03702	0.003000	0.03518	0.601000	0.24119	0.261000	0.21753	0.655000	0.94253	GCC		0.657	PRDM14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318505.1			T	70981965	G	T	70981965	3	4	689	1	0	0	0	0	1	0	0	0	12465	1203	42	4	1612	4	PRDM14	8	70981965	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	14295723	70981965	75382057	36	44723										
STOML2	30968	broad.mit.edu	37	chr9	35101777	35101777	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	tttgagctagctgggtgacgGcatactcagggtcctccaca	12	11	1	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr9:35101777G>A	ENST00000356493.5	-	5	436	c.374C>T	c.(373-375)gCc>gTc	p.A125V	STOML2_ENST00000452248.2_Missense_Mutation_p.A125V|STOML2_ENST00000487490.1_Intron	NM_013442.1	NP_038470.1	Q9UJZ1	STML2_HUMAN	stomatin (EPB72)-like 2	125					CD4-positive, alpha-beta T cell activation (GO:0035710)|cellular calcium ion homeostasis (GO:0006874)|interleukin-2 production (GO:0032623)|lipid localization (GO:0010876)|mitochondrial ATP synthesis coupled proton transport (GO:0042776)|mitochondrial calcium ion transport (GO:0006851)|mitochondrial protein processing (GO:0034982)|mitochondrion organization (GO:0007005)|positive regulation of cardiolipin metabolic process (GO:1900210)|positive regulation of mitochondrial DNA replication (GO:0090297)|positive regulation of mitochondrial membrane potential (GO:0010918)|protein oligomerization (GO:0051259)|stress-induced mitochondrial fusion (GO:1990046)|T cell receptor signaling pathway (GO:0050852)	cytoskeleton (GO:0005856)|extrinsic component of plasma membrane (GO:0019897)|membrane raft (GO:0045121)|mitochondrial inner membrane (GO:0005743)|mitochondrial intermembrane space (GO:0005758)	cardiolipin binding (GO:1901612)|receptor binding (GO:0005102)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(6)|prostate(1)	16			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			CTGGGTGACGGCATACTCAGG	0.507																																																0													148	147	147					9																	35101777		2203	4300	6503	SO:0001583	missense	30968			AF190167	CCDS6577.1, CCDS69588.1, CCDS75830.1	9p13.1	2008-02-05			ENSG00000165283	ENSG00000165283			14559	protein-coding gene	gene with protein product		608292				10713127, 17121834	Standard	NM_001287031		Approved	SLP-2, HSPC108	uc003zwi.3	Q9UJZ1	OTTHUMG00000019851	ENST00000356493.5:c.374C>T	9.37:g.35101777G>A	ENSP00000348886:p.Ala125Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4E1K7|D3DRN3|O60376|Q53G29|Q96FY2|Q9P042	Missense_Mutation	SNP	ENST00000356493.5	37	CCDS6577.1	.	.	.	.	.	.	.	.	.	.	G	33	5.226127	0.95173	.	.	ENSG00000165283	ENST00000356493;ENST00000452248	D;D	0.94046	-3.34;-3.34	5.17	5.17	0.71159	.	0.098302	0.64402	D	0.000002	D	0.98381	0.9462	H	0.99130	4.44	0.80722	D	1	D;D	0.89917	0.998;1.0	D;D	0.87578	0.995;0.998	D	0.99593	1.0976	10	0.87932	D	0	-1.6791	18.4617	0.90741	0.0:0.0:1.0:0.0	.	125;125	B4E1K7;Q9UJZ1	.;STML2_HUMAN	V	125	ENSP00000348886:A125V;ENSP00000395743:A125V	ENSP00000348886:A125V	A	-	2	0	STOML2	35091777	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.657000	0.98554	2.691000	0.91804	0.655000	0.94253	GCC		0.507	STOML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052273.1	NM_013442		A	35101777	G	A	35101777	3	1	689	1	0	0	0	0	1	0	0	0	15326	1203	42	2	720	2	STOML2	9	35101777	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10		35101777	106111654	37	44724										
CREB3	57704	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	35736272	35736272	+	IGR	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ttgtacctgctatgtactccTctgacacaagggggagcctg	11	11	1	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr9:35736272T>C	ENST00000378103.3	-	0	3611				CREB3_ENST00000486056.1_3'UTR|CREB3_ENST00000353704.2_Missense_Mutation_p.S249P|GBA2_ENST00000467252.1_5'Flank	NM_020944.2	NP_065995.1	Q9HCG7	GBA2_HUMAN	glucosidase, beta (bile acid) 2						bile acid metabolic process (GO:0008206)|cell death (GO:0008219)|central nervous system neuron development (GO:0021954)|glucosylceramide catabolic process (GO:0006680)|glycoside catabolic process (GO:0016139)|glycosphingolipid metabolic process (GO:0006687)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|smooth endoplasmic reticulum (GO:0005790)	beta-glucosidase activity (GO:0008422)|glucosylceramidase activity (GO:0004348)			NS(1)|kidney(3)|large_intestine(5)|lung(5)|ovary(4)|skin(3)	21	all_epithelial(49;0.167)		Lung(28;0.00416)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TATGTACTCCTCTGACACAAG	0.552											OREG0019176	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													220	207	211					9																	35736272		2203	4300	6503	SO:0001628	intergenic_variant	10488			AJ309567	CCDS6589.1	9p13.2	2013-09-11			ENSG00000070610	ENSG00000070610			18986	protein-coding gene	gene with protein product	"bile acid beta-glucosidase", "non-lysosomal glucosylceramidase"	609471	"spastic paraplegia 46 (autosomal recessive)"	SPG46		11489889, 23332916, 23332917	Standard	NM_020944		Approved	KIAA1605, AD035, DKFZp762K054	uc003zxw.3	Q9HCG7	OTTHUMG00000021024		9.37:g.35736272T>C		Somatic	857	WXS	Illumina HiSeq	Phase_I	D3DRP2|Q5TCV6|Q96A51|Q96LY1|Q96SJ2|Q9H2L8	Missense_Mutation	SNP	ENST00000378103.3	37	CCDS6589.1	.	.	.	.	.	.	.	.	.	.	T	20.6	4.018246	0.75275	.	.	ENSG00000107175	ENST00000353704	T	0.67865	-0.29	5.68	4.56	0.56223	.	0.238919	0.43260	D	0.000597	T	0.74068	0.3668	L	0.56769	1.78	0.42787	D	0.993883	D;D	0.76494	0.999;0.996	D;D	0.66196	0.942;0.919	T	0.71394	-0.4606	10	0.26408	T	0.33	.	10.8203	0.46601	0.0:0.0743:0.0:0.9257	.	273;249	O43889;O43889-2	CREB3_HUMAN;.	P	249	ENSP00000342136:S249P	ENSP00000342136:S249P	S	+	1	0	CREB3	35726272	0.999000	0.42202	0.698000	0.30274	0.980000	0.70556	3.862000	0.56009	2.182000	0.69389	0.533000	0.62120	TCT		0.552	GBA2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000055456.1	NM_020944		C	35736272	T	C	35736272	1	2	689	0	1	0	0	0	0	0	0	0	3857	1551	54	3		3	CREB3	9	35736272	IGR	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10	634495	35736272	105477159	38	44725										
MAP3K8	1326	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	30748425	30748425	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	gctggaacttcctgagaacaTtgctggtagggacaccctgc	12	11	0	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr10:30748425T>G	ENST00000263056.1	+	8	1964	c.1268T>G	c.(1267-1269)aTt>aGt	p.I423S	MAP3K8_ENST00000375321.1_Missense_Mutation_p.I423S|MAP3K8_ENST00000542547.1_Missense_Mutation_p.I423S	NM_001244134.1|NM_005204.3	NP_001231063.1|NP_005195.2	P41279	M3K8_HUMAN	mitogen-activated protein kinase kinase kinase 8	423			Missing (in oncogenic form).		cell cycle (GO:0007049)|protein phosphorylation (GO:0006468)|T cell costimulation (GO:0031295)	cytoplasm (GO:0005737)|cytosol (GO:0005829)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|MAP kinase kinase kinase activity (GO:0004709)|protein serine/threonine kinase activity (GO:0004674)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	23		Prostate(175;0.151)				CCTGAGAACATTGCTGGTAGG	0.527																																																0													70	62	65					10																	30748425		2203	4300	6503	SO:0001583	missense	1326			D14497	CCDS7166.1	10p11.2	2011-06-09			ENSG00000107968	ENSG00000107968		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6860	protein-coding gene	gene with protein product		191195		COT, ESTF		2072910, 8479752	Standard	NM_005204		Approved	Tpl-2, EST, c-COT, MEKK8	uc009xlf.2	P41279	OTTHUMG00000017889	ENST00000263056.1:c.1268T>G	10.37:g.30748425T>G	ENSP00000263056:p.Ile423Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2Q5|D3DRX1|Q14275|Q5T855|Q9HC81	Missense_Mutation	SNP	ENST00000263056.1	37	CCDS7166.1	.	.	.	.	.	.	.	.	.	.	T	15.81	2.944339	0.53079	.	.	ENSG00000107968	ENST00000375328;ENST00000263056;ENST00000542547;ENST00000375321	T;T;T	0.70749	-0.51;-0.51;-0.51	4.91	4.91	0.64330	Protein kinase-like domain (1);	0.048008	0.85682	D	0.000000	T	0.52517	0.1739	N	0.24115	0.695	0.80722	D	1	P	0.35575	0.51	B	0.32211	0.142	T	0.52638	-0.8549	10	0.08599	T	0.76	.	14.5659	0.68176	0.0:0.0:0.0:1.0	.	423	P41279	M3K8_HUMAN	S	423	ENSP00000263056:I423S;ENSP00000443610:I423S;ENSP00000364470:I423S	ENSP00000263056:I423S	I	+	2	0	MAP3K8	30788431	1.000000	0.71417	0.979000	0.43373	0.850000	0.48378	5.323000	0.65858	1.850000	0.53721	0.519000	0.50382	ATT		0.527	MAP3K8-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047416.2	NM_005204		G	30748425	T	G	30748425	3	3	689	1	0	0	0	0	1	0	0	0	9263	1493	52	5	1290	5	MAP3K8	10	30748425	Missense_Mutation	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10		30748425	104786322	39	44726										
DNHD1	144132	hgsc.bcm.edu	37	chr11	6592937	6592937	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	gggctacaggtcctacatgcGgagtgggacccaatagctgg	15	10	0	0	rs544585664		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr11:6592937G>T	ENST00000527990.2	+	41	13983	c.13983G>T	c.(13981-13983)gcG>gcT	p.A4661A	DNHD1_ENST00000254579.6_Silent_p.A4661A			Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1	4661					microtubule-based movement (GO:0007018)	dynein complex (GO:0030286)|extracellular vesicular exosome (GO:0070062)	microtubule motor activity (GO:0003777)			NS(1)|autonomic_ganglia(1)|breast(4)|endometrium(13)|kidney(6)|large_intestine(11)|lung(14)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	55		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		TCCTACATGCGGAGTGGGACC	0.627																																																0													36	46	43					11																	6592937		2097	4219	6316	SO:0001819	synonymous_variant	144132			AK128064	CCDS44532.1, CCDS7767.1	11p15.4	2011-02-10		2005-11-28	ENSG00000179532	ENSG00000179532			26532	protein-coding gene	gene with protein product			"chromosome 11 open reading frame 47", "dynein heavy chain domain 1-like", "coiled-coil domain containing 35"	DHCD1, C11orf47, DNHD1L, CCDC35		12975309	Standard	NM_173589		Approved	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796	uc001mdw.4	Q96M86	OTTHUMG00000133403	ENST00000527990.2:c.13983G>T	11.37:g.6592937G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKK8|Q6UWI9|Q8NAA2|Q8TEE6|Q9NSZ9	Silent	SNP	ENST00000527990.2	37	CCDS44532.1																																																																																				0.627	DNHD1-007	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384673.2	NM_144666		T	6592937	G	T	6592937	2	4	689	1	0	0	0	0	0	0	0	1	4670	1103	39	4		4	DNHD1	11	6592937	Silent	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10		6592937	128413579	40	44727										
PACS1	55690	broad.mit.edu;bcgsc.ca	37	chr11	66008916	66008916	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	aggagccctaatagcccataTggggacgtgattggcctcca	12	11	0	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr11:66008916T>A	ENST00000320580.4	+	22	2481	c.2448T>A	c.(2446-2448)taT>taA	p.Y816*	PACS1_ENST00000524815.1_5'UTR|PACS1_ENST00000529757.1_Nonsense_Mutation_p.Y352*	NM_018026.3	NP_060496.2	Q6VY07	PACS1_HUMAN	phosphofurin acidic cluster sorting protein 1	816					protein targeting to Golgi (GO:0000042)|protein targeting to plasma membrane (GO:0072661)|regulation of defense response to virus by virus (GO:0050690)|viral process (GO:0016032)	COPI-coated vesicle (GO:0030137)|cytosol (GO:0005829)	ion channel binding (GO:0044325)		RBM14/PACS1(2)	breast(1)|central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(8)|lung(8)|ovary(6)|skin(2)|urinary_tract(1)	37						ATAGCCCATATGGGGACGTGA	0.612																																																0													35	29	31					11																	66008916		2200	4295	6495	SO:0001587	stop_gained	55690			AB033001	CCDS8129.1	11q13.1-q13.2	2008-02-05			ENSG00000175115	ENSG00000175115			30032	protein-coding gene	gene with protein product		607492				12855553, 14608369	Standard	NM_018026		Approved	FLJ10209, KIAA1175	uc001oha.2	Q6VY07	OTTHUMG00000166889	ENST00000320580.4:c.2448T>A	11.37:g.66008916T>A	ENSP00000316454:p.Tyr816*	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PJY6|Q6PKB6|Q7Z590|Q7Z5W4|Q8N8K6|Q96MW0|Q9NW92|Q9ULP5	Nonsense_Mutation	SNP	ENST00000320580.4	37	CCDS8129.1	.	.	.	.	.	.	.	.	.	.	T	34	5.312003	0.95655	.	.	ENSG00000175115	ENST00000320580;ENST00000529757	.	.	.	5.42	-2.15	0.07102	.	0.188559	0.46442	D	0.000283	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-10.3124	11.7077	0.51607	0.0:0.6645:0.0:0.3355	.	.	.	.	X	816;352	.	ENSP00000316454:Y816X	Y	+	3	2	PACS1	65765492	0.032000	0.19561	0.784000	0.31847	0.413000	0.31143	-0.715000	0.04997	-0.559000	0.06110	-0.290000	0.09829	TAT		0.612	PACS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391690.2	NM_018026		A	66008916	T	A	66008916	4	1	689	1	0	0	0	0	0	1	0	0	11379	1471	51	5	2534	5	PACS1	11	66008916	Nonsense_Mutation	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10	59415979	66008916	68997600	41	44728										
CLCF1	23529	broad.mit.edu;bcgsc.ca	37	chr11	67135057	67135057	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ggcactgcagggaggtgccaGagcaccgtgcacaggcacgc	16	13	0	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr11:67135057G>T	ENST00000312438.7	-	2	254	c.57C>A	c.(55-57)ctC>ctA	p.L19L	AP003419.11_ENST00000543494.1_RNA|CLCF1_ENST00000533438.1_Silent_p.L9L|CLCF1_ENST00000528474.1_Silent_p.L9L	NM_013246.2	NP_037378.1	Q9UBD9	CLCF1_HUMAN	cardiotrophin-like cytokine factor 1	19					B cell differentiation (GO:0030183)|cell surface receptor signaling pathway (GO:0007166)|cytokine-mediated signaling pathway (GO:0019221)|JAK-STAT cascade (GO:0007259)|negative regulation of neuron apoptotic process (GO:0043524)|positive regulation of astrocyte differentiation (GO:0048711)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of cell proliferation (GO:0008284)|positive regulation of immunoglobulin production (GO:0002639)|positive regulation of isotype switching to IgE isotypes (GO:0048295)|positive regulation of tyrosine phosphorylation of Stat3 protein (GO:0042517)	CNTFR-CLCF1 complex (GO:0097059)|CRLF-CLCF1 complex (GO:0097058)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	ciliary neurotrophic factor receptor binding (GO:0005127)|cytokine activity (GO:0005125)|growth factor activity (GO:0008083)|protein heterodimerization activity (GO:0046982)|receptor binding (GO:0005102)			endometrium(1)|urinary_tract(1)	2			BRCA - Breast invasive adenocarcinoma(15;2.39e-06)			GGAGGTGCCAGAGCACCGTGC	0.662																																																0													96	77	83					11																	67135057		2200	4295	6495	SO:0001819	synonymous_variant	23529			BC012939	CCDS31617.1, CCDS53666.1	11q13.3	2014-01-28	2006-07-03		ENSG00000175505	ENSG00000175505			17412	protein-coding gene	gene with protein product	"B-cell stimulating factor 3", "cold-induced sweating syndrome 2", "novel neurotrophin-1"	607672	"CRLF1 associated cytokine-like factor 1"			10500198, 10448081, 16782820	Standard	NM_001166212		Approved	NNT1, BSF3, CLC, NR6, CISS2, BSF-3, NNT-1	uc010rpp.2	Q9UBD9	OTTHUMG00000167669	ENST00000312438.7:c.57C>A	11.37:g.67135057G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DNT4|Q6NZA4	Silent	SNP	ENST00000312438.7	37	CCDS31617.1																																																																																				0.662	CLCF1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395478.1	NM_013246		T	67135057	G	T	67135057	2	4	689	1	0	0	0	0	0	0	0	1	3463	929	33	4		4	CLCF1	11	67135057	Silent	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	1126141	67135057	67871459	42	44729										
DSCAML1	57453	broad.mit.edu	37	chr11	117389379	117389380	+	Frame_Shift_Ins	INS	-	-	G													0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	tcgagggcccaggtgaccgtINSggggggcggggcgcccttgg							TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr11:117389379_117389380insG	ENST00000321322.6	-	7	1492_1493	c.1491_1492insC	c.(1489-1494)cccacgfs	p.T498fs	DSCAML1_ENST00000527706.1_Frame_Shift_Ins_p.T228fs	NM_020693.2	NP_065744.2	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	438	Ig-like C2-type 5.				axonogenesis (GO:0007409)|brain development (GO:0007420)|cell fate determination (GO:0001709)|central nervous system development (GO:0007417)|dendrite self-avoidance (GO:0070593)|dorsal/ventral pattern formation (GO:0009953)|embryonic skeletal system morphogenesis (GO:0048704)|homophilic cell adhesion (GO:0007156)|negative regulation of cell adhesion (GO:0007162)	cell surface (GO:0009986)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	protein homodimerization activity (GO:0042803)			breast(3)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|large_intestine(24)|lung(49)|ovary(6)|pancreas(1)|prostate(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	110	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)		CAGGTGACCGTGGGGGGCGGGG	0.658																																																0																																										SO:0001589	frameshift_variant	57453				CCDS8384.1	11q22.2-q22.3	2013-02-11			ENSG00000177103	ENSG00000177103		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	14656	protein-coding gene	gene with protein product		611782				11453658	Standard	NM_020693		Approved	KIAA1132	uc001prh.1	Q8TD84	OTTHUMG00000167071	ENST00000321322.6:c.1492dupC	11.37:g.117389385_117389385dupG	ENSP00000315465:p.Thr498fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q76MU9|Q8IZY3|Q8IZY4|Q8WXU7|Q9ULT7	Frame_Shift_Ins	INS	ENST00000321322.6	37	CCDS8384.1																																																																																				0.658	DSCAML1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392907.2	NM_020693		G	117389380	-	G	117389379	7	5	689	1	0	1	1	0	0	0	0	0	4771	1696	59	0	4957	0	DSCAML1	11	117389379	Frame_Shift_Ins	INS	-	TCGA-KV-A6GE-01A-11D-A31X-10	50254322	117389379	17617137	43	44730										
CD163L1	283316	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	7528456	7528456	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	tgatctcccacagaaagagaTatggcatctccacagtttaa	7	10	2	3			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr12:7528456T>A	ENST00000313599.3	-	10	2583	c.2526A>T	c.(2524-2526)atA>atT	p.I842I	CD163L1_ENST00000396630.1_Silent_p.I842I|CD163L1_ENST00000416109.2_Silent_p.I852I|CD163L1_ENST00000544331.1_5'UTR			Q9NR16	C163B_HUMAN	CD163 molecule-like 1	842	SRCR 8. {ECO:0000255|PROSITE- ProRule:PRU00196}.					extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	scavenger receptor activity (GO:0005044)			breast(5)|central_nervous_system(3)|endometrium(8)|kidney(3)|large_intestine(18)|lung(37)|ovary(8)|prostate(3)|skin(6)|stomach(1)|urinary_tract(4)	96						CAGAAAGAGATATGGCATCTC	0.458																																																0													112	106	108					12																	7528456		2203	4300	6503	SO:0001819	synonymous_variant	283316			AF264014	CCDS8577.1, CCDS73434.1	12p13.31	2006-03-28	2006-03-28			ENSG00000177675			30375	protein-coding gene	gene with protein product		606079	"CD163 antigen-like 1"			11124526, 11086079	Standard	XM_005253348		Approved	M160, CD163B	uc001qsy.3	Q9NR16		ENST00000313599.3:c.2526A>T	12.37:g.7528456T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4E0G7|C9JHR7|E7EVK4|Q2M3B7|Q6UWC2	Silent	SNP	ENST00000313599.3	37	CCDS8577.1																																																																																				0.458	CD163L1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000399329.1	NM_174941		A	7528456	T	A	7528456	2	1	689	1	0	0	0	0	0	0	0	1	2970	1396	49	5		5	CD163L1	12	7528456	Silent	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10		7528456	126323439	44	44731										
TAS2R30	259293	bcgsc.ca	37	chr12	11285978	11285978	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	gccgcaaaactgaaagaaaaAtctgctttagcttcttgttt	7	8	2	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr12:11285978A>G	ENST00000539585.1	-	1	1265	c.866T>C	c.(865-867)aTt>aCt	p.I289T	TAS2R14_ENST00000381852.4_Intron|PRR4_ENST00000536668.1_Intron	NM_001097643.1	NP_001091112.1	P59541	T2R30_HUMAN	taste receptor, type 2, member 30	289					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)			autonomic_ganglia(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(4)|skin(1)	13						TGAAAGAAAAATCTGCTTTAG	0.428																																																0													147	148	148					12																	11285978		1983	4196	6179	SO:0001583	missense	259293			AX097746, AF494233	CCDS53750.1	12p13.2	2012-08-22				ENSG00000256188		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	19112	protein-coding gene	gene with protein product		613963	"taste receptor, type 2, member 47"	TAS2R47			Standard	NM_001097643		Approved	T2R30	uc009zhs.1	P59541		ENST00000539585.1:c.866T>C	12.37:g.11285978A>G	ENSP00000444736:p.Ile289Thr	Somatic		WXS	Illumina HiSeq	Phase_1	Q645X7	Missense_Mutation	SNP	ENST00000539585.1	37	CCDS53750.1	.	.	.	.	.	.	.	.	.	.	-	0.008	-1.869761	0.00542	.	.	ENSG00000256188	ENST00000539585	T	0.35048	1.33	2.8	-4.06	0.03986	.	.	.	.	.	T	0.07728	0.0194	N	0.00972	-1.085	0.09310	N	1	B	0.10296	0.003	B	0.14023	0.01	T	0.28839	-1.0031	9	0.02654	T	1	.	2.665	0.05041	0.2603:0.0:0.3629:0.3768	.	289	P59541	T2R30_HUMAN	T	289	ENSP00000444736:I289T	ENSP00000444736:I289T	I	-	2	0	TAS2R30	11177245	0.000000	0.05858	0.000000	0.03702	0.068000	0.16541	-0.224000	0.09164	-0.744000	0.04778	-1.351000	0.01236	ATT		0.428	TAS2R30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400238.1	NM_001097643		G	11285978	A	G	11285978	3	3	689	1	0	0	0	0	1	0	0	0	15585	101	4	3	97	3	TAS2R30	12	11285978	Missense_Mutation	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10	3757522	11285978	122565917	45	44732										
ABCC9	10060	ucsc.edu;bcgsc.ca	37	chr12	22089587	22089587	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	attatatgaagaaatgttgtTaccacaaaatgaaaggctca	7	5	1	3			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr12:22089587T>C	ENST00000261201.4	-	1	21	c.22A>G	c.(22-24)Aac>Gac	p.N8D	ABCC9_ENST00000345162.2_Missense_Mutation_p.N8D|ABCC9_ENST00000326684.4_Missense_Mutation_p.N8D|ABCC9_ENST00000538350.1_Missense_Mutation_p.N8D|ABCC9_ENST00000261200.4_Missense_Mutation_p.N8D	NM_005691.2	NP_005682.2	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 9	8					defense response to virus (GO:0051607)|potassium ion import (GO:0010107)|potassium ion transport (GO:0006813)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	ATP-sensitive potassium channel complex (GO:0008282)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcomere (GO:0030017)|voltage-gated potassium channel complex (GO:0008076)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|ion channel binding (GO:0044325)|potassium channel activity (GO:0005267)|potassium channel regulator activity (GO:0015459)|sulfonylurea receptor activity (GO:0008281)|transporter activity (GO:0005215)			NS(2)|breast(5)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(15)|lung(56)|ovary(4)|pancreas(1)|prostate(4)|skin(7)|upper_aerodigestive_tract(3)|urinary_tract(5)	118					Adenosine triphosphate(DB00171)|Glyburide(DB01016)	GAAATGTTGTTACCACAAAAT	0.343																																																0													93	94	94					12																	22089587		2203	4300	6503	SO:0001583	missense	10060			AF061323	CCDS8693.1, CCDS8694.1	12p12.1	2014-09-17			ENSG00000069431	ENSG00000069431		"ATP binding cassette transporters / subfamily C"	60	protein-coding gene	gene with protein product	"sulfonylurea receptor 2"	601439				9457174, 15034580	Standard	NM_020297		Approved	SUR2, CMD1O	uc001rfh.3	O60706	OTTHUMG00000169094	ENST00000261201.4:c.22A>G	12.37:g.22089587T>C	ENSP00000261201:p.Asn8Asp	Somatic		WXS	Illumina HiSeq		O60707	Missense_Mutation	SNP	ENST00000261201.4	37	CCDS8694.1	.	.	.	.	.	.	.	.	.	.	T	13.01	2.110455	0.37242	.	.	ENSG00000069431	ENST00000261200;ENST00000261201;ENST00000345162;ENST00000326684;ENST00000538350	D;D;D;D;D	0.96745	-2.96;-2.98;-2.97;-4.09;-4.11	5.32	1.71	0.24356	.	0.221661	0.52532	N	0.000061	D	0.91981	0.7460	L	0.47716	1.5	0.34815	D	0.738083	B;B;B;B	0.33549	0.002;0.001;0.0;0.417	B;B;B;B	0.28011	0.008;0.005;0.002;0.085	D	0.88614	0.3158	10	0.34782	T	0.22	-7.4686	9.0179	0.36182	0.0:0.2105:0.0:0.7895	.	8;8;8;8	G3V1N6;Q8N4N7;O60706;O60706-2	.;.;ABCC9_HUMAN;.	D	8	ENSP00000261200:N8D;ENSP00000261201:N8D;ENSP00000261202:N8D;ENSP00000317518:N8D;ENSP00000442604:N8D	ENSP00000261200:N8D	N	-	1	0	ABCC9	21980854	0.990000	0.36364	0.632000	0.29296	0.919000	0.55068	2.126000	0.42026	0.139000	0.18822	0.523000	0.50628	AAC		0.343	ABCC9-002	KNOWN	not_organism_supported|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000402230.1	NM_005691		C	22089587	T	C	22089587	3	2	689	1	0	0	0	0	1	0	0	0	59	1754	61	3	4921	3	ABCC9	12	22089587	Missense_Mutation	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10	10803609	22089587	111762308	46	44733										
DDX11	1663	bcgsc.ca	37	chr12	31237539	31237539	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ggagcaggccaggaggaagcAgcgagaagaacgcctgcagc	17	10	0	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr12:31237539A>G	ENST00000407793.2	+	4	667	c.416A>G	c.(415-417)cAg>cGg	p.Q139R	DDX11_ENST00000228264.6_Missense_Mutation_p.Q113R|DDX11_ENST00000545668.1_Missense_Mutation_p.Q139R|DDX11_ENST00000251758.5_Missense_Mutation_p.Q139R|DDX11_ENST00000542838.1_Missense_Mutation_p.Q139R|DDX11_ENST00000350437.4_Missense_Mutation_p.Q139R	NM_030653.3|NM_152438.1	NP_085911.2|NP_689651.1	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11	139	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|ATP catabolic process (GO:0006200)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|sister chromatid cohesion (GO:0007062)|viral process (GO:0016032)	midbody (GO:0030496)|nuclear chromatin (GO:0000790)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle pole (GO:0000922)	4 iron, 4 sulfur cluster binding (GO:0051539)|ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA-dependent ATPase activity (GO:0008094)|double-stranded DNA binding (GO:0003690)|helicase activity (GO:0004386)|metal ion binding (GO:0046872)|RNA binding (GO:0003723)|single-stranded DNA binding (GO:0003697)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(11)|large_intestine(5)|lung(23)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	57	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					AGGAGGAAGCAGCGAGAAGAA	0.582										Multiple Myeloma(12;0.14)																																						0													23	25	24					12																	31237539		2199	4289	6488	SO:0001583	missense	1663			U75969	CCDS8721.1, CCDS41767.1, CCDS44856.1, CCDS58224.1	12p11.21	2012-02-23	2012-02-23		ENSG00000013573	ENSG00000013573		"DEAD-boxes"	2736	protein-coding gene	gene with protein product	"CHL1-like helicase homolog (S. cerevisiae)"	601150	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11 (S.cerevisiae CHL1-like helicase)", "DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11"				Standard	NM_030653		Approved	CHLR1, KRG2, CHL1, ChlR1, WABS	uc001rjv.2	Q96FC9	OTTHUMG00000168435	ENST00000407793.2:c.416A>G	12.37:g.31237539A>G	ENSP00000384703:p.Gln139Arg	Somatic		WXS	Illumina HiSeq	Phase_1	Q13333|Q86VQ4|Q86W62|Q92498|Q92770|Q92998|Q92999	Missense_Mutation	SNP	ENST00000407793.2	37	CCDS44856.1	.	.	.	.	.	.	.	.	.	.	A	6.614	0.481678	0.12581	.	.	ENSG00000013573	ENST00000542838;ENST00000407793;ENST00000251758;ENST00000228264;ENST00000415475;ENST00000545668;ENST00000350437;ENST00000535317	T;T;T;T;T;T;T;T	0.02606	4.23;4.23;4.23;4.23;4.23;4.23;4.23;4.23	4.06	1.62	0.23740	Helicase-like, DEXD box c2 type (1);Helicase, superfamily 1/2, ATP-binding domain, DinG/Rad3-type (1);	0.191160	0.44902	N	0.000406	T	0.01320	0.0043	N	0.04260	-0.245	0.24037	N	0.996095	B;B;B;B	0.16802	0.019;0.019;0.01;0.01	B;B;B;B	0.16289	0.01;0.01;0.015;0.015	T	0.48502	-0.9030	10	0.24483	T	0.36	.	5.3691	0.16131	0.7235:0.1777:0.0987:0.0	.	139;139;139;139	B4DZY1;Q96FC9;Q96FC9-4;Q96FC9-2	.;DDX11_HUMAN;.;.	R	139;139;139;113;113;139;139;175	ENSP00000443426:Q139R;ENSP00000384703:Q139R;ENSP00000251758:Q139R;ENSP00000228264:Q113R;ENSP00000406457:Q113R;ENSP00000440402:Q139R;ENSP00000309965:Q139R;ENSP00000440171:Q175R	ENSP00000228264:Q113R	Q	+	2	0	DDX11	31128806	1.000000	0.71417	0.914000	0.36105	0.007000	0.05969	3.416000	0.52707	0.226000	0.20979	-0.710000	0.03640	CAG		0.582	DDX11-202	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000399728.1	NM_030653		G	31237539	A	G	31237539	3	3	689	1	0	0	0	0	1	0	0	0	4345	188	7	3	426	3	DDX11	12	31237539	Missense_Mutation	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10	9147952	31237539	102614356	47	44734										
KRT5	3852	broad.mit.edu	37	chr12	52913574	52913574	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ttgagggtcttgatctgctcGcgctcctcggtcctcaccct	10	15	3	2	rs200658792		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr12:52913574G>T	ENST00000252242.4	-	1	897	c.507C>A	c.(505-507)cgC>cgA	p.R169R		NM_000424.3	NP_000415.2	P13647	K2C5_HUMAN	keratin 5	169	Coil 1A.|Rod.		R -> P (in DM-EBS; dbSNP:rs60720877). {ECO:0000269|PubMed:16786515}.		cell junction assembly (GO:0034329)|epidermis development (GO:0008544)|hemidesmosome assembly (GO:0031581)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)|keratin filament (GO:0045095)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	scaffold protein binding (GO:0097110)|structural constituent of cytoskeleton (GO:0005200)			endometrium(5)|kidney(1)|large_intestine(8)|lung(15)|prostate(4)|skin(2)	35				BRCA - Breast invasive adenocarcinoma(357;0.189)		TGATCTGCTCGCGCTCCTCGG	0.502																																																0													183	175	178					12																	52913574		2203	4300	6503	SO:0001819	synonymous_variant	3852				CCDS8830.1	12q13.13	2013-01-16	2008-08-01		ENSG00000186081	ENSG00000186081		"-", "Intermediate filaments type II, keratins (basic)"	6442	protein-coding gene	gene with protein product		148040	"epidermolysis bullosa simplex 2 Dowling-Meara/Kobner/Weber-Cockayne types", "keratin 5 (epidermolysis bullosa simplex, Dowling-Meara/Kobner/Weber-Cockayne types)"	EBS2		1713141, 16831889	Standard	NM_000424		Approved	KRT5A	uc001san.3	P13647	OTTHUMG00000169657	ENST00000252242.4:c.507C>A	12.37:g.52913574G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6PI71|Q6UBJ0|Q8TA91	Silent	SNP	ENST00000252242.4	37	CCDS8830.1																																																																																				0.502	KRT5-001	KNOWN	overlapping_uORF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405312.1			T	52913574	G	T	52913574	2	4	689	1	0	0	0	0	0	0	0	1	8486	1074	38	4		4	KRT5	12	52913574	Silent	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	21676035	52913574	80938321	48	44735										
METAP2	10988	broad.mit.edu	37	chr12	95867964	95867964	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ctctcgggcaacatggcgggTgtggaggaggtagcggcctc	18	10	1	0			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr12:95867964T>G	ENST00000323666.5	+	1	238	c.9T>G	c.(7-9)ggT>ggG	p.G3G	METAP2_ENST00000261220.9_Silent_p.G3G|METAP2_ENST00000550777.1_Silent_p.G3G|METAP2_ENST00000546753.1_Silent_p.G3G|METAP2_ENST00000551840.1_Silent_p.G3G	NM_006838.3	NP_006829.1			methionyl aminopeptidase 2											endometrium(3)|large_intestine(2)|lung(7)|prostate(1)	13						ACATGGCGGGTGTGGAGGAGG	0.652																																																0													34	42	39					12																	95867964		2203	4297	6500	SO:0001819	synonymous_variant	10988			U13261	CCDS9052.1	12q22	2014-09-04			ENSG00000111142		3.4.11.18		16672	protein-coding gene	gene with protein product	"Peptidase M"	601870				7644482, 8858118	Standard	NM_006838		Approved	MNPEP, p67, MAP2	uc001tec.3	P50579	OTTHUMG00000170280	ENST00000323666.5:c.9T>G	12.37:g.95867964T>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000323666.5	37	CCDS9052.1																																																																																				0.652	METAP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000408296.1	NM_006838		G	95867964	T	G	95867964	2	3	689	1	0	0	0	0	0	0	0	1	9494	1683	59	5		5	METAP2	12	95867964	Silent	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10	42954390	95867964	37983931	49	44736										
VSIG10	54621	hgsc.bcm.edu	37	chr12	118506351	118506351	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	tcctcctcctcctcctcctcCtcttcctcttctgaatccac	1	22	3	1	rs373328738		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr12:118506351C>T	ENST00000359236.5	-	8	1674	c.1398G>A	c.(1396-1398)gaG>gaA	p.E466E		NM_019086.5	NP_061959.2	Q8N0Z9	VSI10_HUMAN	V-set and immunoglobulin domain containing 10	466	Glu-rich.					integral component of membrane (GO:0016021)				endometrium(5)|large_intestine(3)|lung(6)|skin(1)|stomach(1)|urinary_tract(1)	17						cctcctcctcctcttcctctt	0.458																																																0													96	91	92					12																	118506351		2045	4191	6236	SO:0001819	synonymous_variant	54621				CCDS44992.1	12q24.23	2013-01-29			ENSG00000176834	ENSG00000176834		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	26078	protein-coding gene	gene with protein product						12477932	Standard	NM_019086		Approved		uc001tws.3	Q8N0Z9		ENST00000359236.5:c.1398G>A	12.37:g.118506351C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NWQ7	Silent	SNP	ENST00000359236.5	37	CCDS44992.1																																																																																				0.458	VSIG10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401273.2	NM_019086		T	118506351	C	T	118506351	2	4	689	1	0	0	0	0	0	0	0	1	17235	680	24	2		2	VSIG10	12	118506351	Silent	SNP	C	TCGA-KV-A6GE-01A-11D-A31X-10	22638387	118506351	15345544	50	44737										
PARP4	143	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	25021252	25021252	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	cagggcctcgggcacatctgGattgagttgctgccatttga	13	10	1	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr13:25021252G>C	ENST00000381989.3	-	26	3292	c.3187C>G	c.(3187-3189)Cca>Gca	p.P1063A		NM_006437.3	NP_006428.2	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	1063					cell death (GO:0008219)|cellular protein modification process (GO:0006464)|cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|inflammatory response (GO:0006954)|protein ADP-ribosylation (GO:0006471)|response to drug (GO:0042493)|transport (GO:0006810)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)|spindle microtubule (GO:0005876)	DNA binding (GO:0003677)|enzyme binding (GO:0019899)|NAD+ ADP-ribosyltransferase activity (GO:0003950)			autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|endometrium(5)|kidney(3)|large_intestine(14)|lung(18)|ovary(3)|prostate(2)|skin(6)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	63		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		GGCACATCTGGATTGAGTTGC	0.488																																																0													66	61	63					13																	25021252		2203	4300	6503	SO:0001583	missense	143			AF057160	CCDS9307.1	13q11	2010-09-29	2004-08-20	2004-08-26	ENSG00000102699	ENSG00000102699		"Poly (ADP-ribose) polymerases"	271	protein-coding gene	gene with protein product	"von Willebrand factor A domain containing 5C"	607519	"ADP-ribosyltransferase (NAD+; poly (ADP-ribose) polymerase)-like 1"	ADPRTL1		10644454	Standard	NM_006437		Approved	VAULT3, p193, VPARP, VWA5C	uc001upl.3	Q9UKK3	OTTHUMG00000016582	ENST00000381989.3:c.3187C>G	13.37:g.25021252G>C	ENSP00000371419:p.Pro1063Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O75903|Q14682|Q5QNZ9|Q9H1M6	Missense_Mutation	SNP	ENST00000381989.3	37	CCDS9307.1	.	.	.	.	.	.	.	.	.	.	G	0	-2.637295	0.00114	.	.	ENSG00000102699	ENST00000381989	T	0.02032	4.49	4.71	-9.42	0.00610	.	1.340860	0.04661	N	0.408863	T	0.01558	0.0050	L	0.38175	1.15	0.09310	N	1	B	0.09022	0.002	B	0.04013	0.001	T	0.46803	-0.9165	10	0.08179	T	0.78	1.0731	4.7321	0.12970	0.163:0.2649:0.4575:0.1146	.	1063	Q9UKK3	PARP4_HUMAN	A	1063	ENSP00000371419:P1063A	ENSP00000371419:P1063A	P	-	1	0	PARP4	23919252	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.667000	0.01961	-2.376000	0.00598	-1.768000	0.00664	CCA		0.488	PARP4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044189.1	NM_006437		C	25021252	G	C	25021252	3	2	689	1	0	0	0	0	1	0	0	0	11470	1174	41	4	2023	4	PARP4	13	25021252	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10		25021252	90148626	51	44738										
PRMT5	10419	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	23397402	23397402	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	tccatggagaaagctttcccAcaattagcgtattccagtct	7	11	1	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr14:23397402A>G	ENST00000324366.8	-	3	471	c.248T>C	c.(247-249)gTg>gCg	p.V83A	RP11-298I3.1_ENST00000548819.1_RNA|PRMT5-AS1_ENST00000590290.1_RNA|PRMT5_ENST00000553641.1_5'UTR|PRMT5_ENST00000397440.4_Missense_Mutation_p.V66A|RP11-298I3.1_ENST00000548322.1_RNA|PRMT5-AS1_ENST00000587245.2_RNA|PRMT5_ENST00000216350.8_Intron|PRMT5-AS1_ENST00000599580.2_RNA|PRMT5-AS1_ENST00000595662.1_RNA|PRMT5_ENST00000553897.1_Intron|PRMT5_ENST00000397441.2_Missense_Mutation_p.V66A|PRMT5_ENST00000538452.1_5'UTR	NM_006109.3	NP_006100.2	O14744	ANM5_HUMAN	protein arginine methyltransferase 5	83	TIM barrel. {ECO:0000269|PubMed:23071334}.				cell proliferation (GO:0008283)|circadian regulation of gene expression (GO:0032922)|endothelial cell activation (GO:0042118)|gene expression (GO:0010467)|histone H4-R3 methylation (GO:0043985)|ncRNA metabolic process (GO:0034660)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|peptidyl-arginine methylation (GO:0018216)|peptidyl-arginine methylation, to symmetrical-dimethyl arginine (GO:0019918)|peptidyl-arginine N-methylation (GO:0035246)|regulation of mitosis (GO:0007088)|regulation of transcription, DNA-templated (GO:0006355)|RNA metabolic process (GO:0016070)|spliceosomal snRNP assembly (GO:0000387)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|methylosome (GO:0034709)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|core promoter sequence-specific DNA binding (GO:0001046)|histone-arginine N-methyltransferase activity (GO:0008469)|methyltransferase activity (GO:0008168)|protein-arginine omega-N symmetric methyltransferase activity (GO:0035243)|ribonucleoprotein complex binding (GO:0043021)|transcription corepressor activity (GO:0003714)			endometrium(4)|kidney(3)|large_intestine(3)|lung(9)|ovary(1)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	25	all_cancers(95;2.76e-05)			GBM - Glioblastoma multiforme(265;0.0126)		AAGCTTTCCCACAATTAGCGT	0.433																																																0													92	82	85					14																	23397402		2203	4300	6503	SO:0001583	missense	10419			AF015913	CCDS9579.1, CCDS41922.1, CCDS61394.1, CCDS61395.1, CCDS61396.1	14q11.2	2014-06-12	2006-02-16	2006-02-16	ENSG00000100462	ENSG00000100462	2.1.1.125	"Protein arginine methyltransferases"	10894	protein-coding gene	gene with protein product		604045	"skb1 (S. pombe) homolog", "SKB1 homolog (S. pombe)"	HRMT1L5, SKB1		9843966	Standard	NM_001282955		Approved	SKB1Hs	uc001whm.1	O14744	OTTHUMG00000028709	ENST00000324366.8:c.248T>C	14.37:g.23397402A>G	ENSP00000319169:p.Val83Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8MTP3|A8MZ91|B4DX49|B4DY30|B5BU10|D3DS33|E2QRE7|Q6IBR1|Q9UKH1	Missense_Mutation	SNP	ENST00000324366.8	37	CCDS9579.1	.	.	.	.	.	.	.	.	.	.	A	24.7	4.564340	0.86335	.	.	ENSG00000100462	ENST00000324366;ENST00000397441;ENST00000397440;ENST00000553550;ENST00000554867;ENST00000556616;ENST00000554910;ENST00000421938	.	.	.	5.68	5.68	0.88126	.	0.000000	0.85682	D	0.000000	T	0.80534	0.4641	M	0.84683	2.71	0.80722	D	1	D;D;D	0.71674	0.963;0.991;0.998	D;P;D	0.68765	0.959;0.73;0.96	D	0.83988	0.0336	9	0.87932	D	0	-13.1665	14.9141	0.70781	1.0:0.0:0.0:0.0	.	66;83;66	A8MTP3;O14744;A8MZ91	.;ANM5_HUMAN;.	A	83;66;66;83;83;45;41;93	.	ENSP00000319169:V83A	V	-	2	0	PRMT5	22467242	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.199000	0.89731	2.176000	0.68965	0.455000	0.32223	GTG		0.433	PRMT5-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071674.3			G	23397402	A	G	23397402	3	3	689	1	0	0	0	0	1	0	0	0	12549	159	6	3	1725	3	PRMT5	14	23397402	Missense_Mutation	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10		23397402	83952138	52	44739										
DIO2	1734	broad.mit.edu	37	chr14	80669247	80669247	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	tcggcactggggcggcaaggAgaaacgctccagaagctgct	15	11	0	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr14:80669247A>T	ENST00000557010.1	-	4	992	c.607T>A	c.(607-609)Tcc>Acc	p.S203T	DIO2_ENST00000422005.3_3'UTR|DIO2_ENST00000557125.1_3'UTR|DIO2_ENST00000555750.1_Missense_Mutation_p.S239T|DIO2_ENST00000438257.4_Missense_Mutation_p.S203T	NM_000793.5|NM_001242502.1|NM_001242503.1	NP_000784.2|NP_001229431.1|NP_001229432.1	Q92813	IOD2_HUMAN	deiodinase, iodothyronine, type II	203					cellular nitrogen compound metabolic process (GO:0034641)|hormone biosynthetic process (GO:0042446)|selenocysteine incorporation (GO:0001514)|small molecule metabolic process (GO:0044281)|thyroid hormone generation (GO:0006590)|thyroid hormone metabolic process (GO:0042403)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	selenium binding (GO:0008430)|thyroxine 5'-deiodinase activity (GO:0004800)|ubiquitin protein ligase binding (GO:0031625)			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(14)|skin(1)|stomach(1)	25				BRCA - Breast invasive adenocarcinoma(234;0.0281)		GGCGGCAAGGAGAAACGCTCC	0.557											OREG0022848	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													71	75	74					14																	80669247		2047	4193	6240	SO:0001583	missense	1734			AF007144	CCDS45146.1, CCDS55934.1	14q24.2-q24.3	2014-05-02			ENSG00000211448	ENSG00000211448	1.97.1.10		2884	protein-coding gene	gene with protein product	"thyroxine deiodinase, type II", "deiodonase-2", "deiodinase-2"	601413				8755651, 10343107	Standard	NM_001007023		Approved	TXDI2, SelY	uc021rxb.1	Q92813	OTTHUMG00000171443	ENST00000557010.1:c.607T>A	14.37:g.80669247A>T	ENSP00000451419:p.Ser203Thr	Somatic	1200	WXS	Illumina HiSeq	Phase_I	B9EGK0|G3V315|Q6B0A3|Q9HCP8|Q9P1W4|Q9UDZ1	Missense_Mutation	SNP	ENST00000557010.1	37	CCDS45146.1	.	.	.	.	.	.	.	.	.	.	A	21.3	4.132860	0.77662	.	.	ENSG00000211448	ENST00000438257;ENST00000557010;ENST00000555750	T;T;T	0.31247	1.51;1.51;1.5	5.77	5.77	0.91146	.	0.000000	0.64402	D	0.000002	T	0.55321	0.1913	M	0.73598	2.24	0.80722	D	1	D;D;D	0.76494	0.998;0.998;0.999	D;D;D	0.67103	0.915;0.949;0.945	T	0.57171	-0.7857	10	0.51188	T	0.08	.	16.0828	0.81017	1.0:0.0:0.0:0.0	.	239;203;239	Q92813-2;Q92813;G3V315	.;IOD2_HUMAN;.	T	203;203;239	ENSP00000405854:S203T;ENSP00000451419:S203T;ENSP00000450980:S239T	ENSP00000405854:S203T	S	-	1	0	DIO2	79739000	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.369000	0.79578	2.199000	0.70637	0.528000	0.53228	TCC		0.557	DIO2-001	KNOWN	basic|appris_principal|CCDS|seleno	protein_coding	protein_coding	OTTHUMT00000413428.2			T	80669247	A	T	80669247	3	4	689	1	0	0	0	0	1	0	0	0	4527	304	11	5	218	5	DIO2	14	80669247	Missense_Mutation	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10	57271845	80669247	26680293	53	44740										
C14orf102	55051	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	90756895	90756895	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	aaggcctccaccagctggaaCtgaagatcatggctggaaag	12	10	1	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr14:90756895C>A	ENST00000354366.3	-	10	2131	c.1899G>T	c.(1897-1899)caG>caT	p.Q633H	NRDE2_ENST00000357904.3_Missense_Mutation_p.Q402H	NM_017970.3	NP_060440.2	Q9H7Z3	NRDE2_HUMAN	NRDE-2, necessary for RNA interference, domain containing	633																	CCAGCTGGAACTGAAGATCAT	0.458																																																0													79	81	81					14																	90756895		2203	4300	6503	SO:0001583	missense	55051			AK000870	CCDS9890.1	14q32.11	2012-12-14	2012-09-25	2012-09-25	ENSG00000119720	ENSG00000119720			20186	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 102"	C14orf102			Standard	NM_017970		Approved	FLJ14051	uc001xyi.2	Q9H7Z3	OTTHUMG00000171020	ENST00000354366.3:c.1899G>T	14.37:g.90756895C>A	ENSP00000346335:p.Gln633His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DH71|Q4G0A7|Q9NWH6	Missense_Mutation	SNP	ENST00000354366.3	37	CCDS9890.1	.	.	.	.	.	.	.	.	.	.	C	10.36	1.329880	0.24167	.	.	ENSG00000119720	ENST00000354366;ENST00000357904	T;T	0.33438	1.41;1.41	5.9	4.91	0.64330	.	0.316430	0.34700	N	0.003759	T	0.32615	0.0835	M	0.71581	2.175	0.53688	D	0.999972	B	0.27823	0.19	B	0.31495	0.131	T	0.12760	-1.0535	10	0.40728	T	0.16	-15.6305	8.4865	0.33074	0.0:0.7126:0.1565:0.1309	.	633	Q9H7Z3	CN102_HUMAN	H	633;402	ENSP00000346335:Q633H;ENSP00000350579:Q402H	ENSP00000346335:Q633H	Q	-	3	2	C14orf102	89826648	0.863000	0.29885	0.933000	0.37362	0.148000	0.21650	0.219000	0.17641	2.788000	0.95919	0.650000	0.86243	CAG		0.458	NRDE2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411264.1	NM_017970		A	90756895	C	A	90756895	3	1	689	1	0	0	0	0	1	0	0	0	1737	564	20	4	1615	4	C14orf102	14	90756895	Missense_Mutation	SNP	C	TCGA-KV-A6GE-01A-11D-A31X-10	10087648	90756895	16592645	54	44741										
BAHD1	22893	broad.mit.edu;bcgsc.ca	37	chr15	40751319	40751319	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	cctaaaactgagccaggagcGggagctacccctgcggctgc	13	14	0	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr15:40751319G>A	ENST00000416165.1	+	2	727	c.656G>A	c.(655-657)cGg>cAg	p.R219Q	BAHD1_ENST00000561234.1_Missense_Mutation_p.R219Q|BAHD1_ENST00000560846.1_Missense_Mutation_p.R219Q	NM_014952.3	NP_055767.3	Q8TBE0	BAHD1_HUMAN	bromo adjacent homology domain containing 1	219					heterochromatin assembly (GO:0031507)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	chromatin silencing complex (GO:0005677)|chromosome (GO:0005694)	chromatin binding (GO:0003682)			NS(1)|endometrium(6)|kidney(3)|large_intestine(3)|lung(10)|pancreas(1)|prostate(2)|skin(1)|urinary_tract(1)	28		all_cancers(109;8.28e-19)|all_epithelial(112;2.64e-15)|Lung NSC(122;5.14e-11)|all_lung(180;1.27e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;3.46e-06)|BRCA - Breast invasive adenocarcinoma(123;0.08)		AGCCAGGAGCGGGAGCTACCC	0.647																																																0													27	32	30					15																	40751319		2203	4300	6503	SO:0001583	missense	22893			AL833923	CCDS10058.1, CCDS73705.1	15q14	2005-11-10			ENSG00000140320	ENSG00000140320			29153	protein-coding gene	gene with protein product		613880				10231032	Standard	XM_005254229		Approved	KIAA0945	uc001zlu.2	Q8TBE0	OTTHUMG00000129982	ENST00000416165.1:c.656G>A	15.37:g.40751319G>A	ENSP00000396976:p.Arg219Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NDF7|Q9Y2F4	Missense_Mutation	SNP	ENST00000416165.1	37	CCDS10058.1	.	.	.	.	.	.	.	.	.	.	G	21.0	4.078117	0.76528	.	.	ENSG00000140320	ENST00000416165	T	0.22743	1.94	5.0	5.0	0.66597	.	0.171717	0.38005	N	0.001842	T	0.16938	0.0407	N	0.14661	0.345	0.37906	D	0.931219	D;D;D	0.56746	0.977;0.961;0.977	P;B;P	0.49140	0.601;0.397;0.601	T	0.02109	-1.1212	10	0.59425	D	0.04	-19.1008	9.8207	0.40880	0.1236:0.0:0.8764:0.0	.	219;219;219	Q8TBE0-3;Q8TBE0;Q8TBE0-2	.;BAHD1_HUMAN;.	Q	219	ENSP00000396976:R219Q	ENSP00000396976:R219Q	R	+	2	0	BAHD1	38538611	1.000000	0.71417	1.000000	0.80357	0.973000	0.67179	3.090000	0.50191	2.750000	0.94351	0.655000	0.94253	CGG		0.647	BAHD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252248.1	NM_014952		A	40751319	G	A	40751319	3	1	689	1	0	0	0	0	1	0	0	0	1297	1116	39	1	658	1	BAHD1	15	40751319	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10		40751319	61780073	55	44742										
TP53BP1	7158	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	43749148	43749148	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	gaactggagacatgggttccGtatcctcaatctgtgtgttt	11	8	2	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr15:43749148G>A	ENST00000263801.3	-	12	1895	c.1643C>T	c.(1642-1644)aCg>aTg	p.T548M	TP53BP1_ENST00000382044.4_Missense_Mutation_p.T553M|TP53BP1_ENST00000450115.2_Missense_Mutation_p.T553M|TP53BP1_ENST00000382039.3_Missense_Mutation_p.T553M|TP53BP1_ENST00000605155.1_5'Flank	NM_005657.2	NP_005648.1	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1	548					cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|kinetochore (GO:0000776)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|replication fork (GO:0005657)	damaged DNA binding (GO:0003684)|methylated histone binding (GO:0035064)|p53 binding (GO:0002039)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II transcription cofactor activity (GO:0001104)|telomeric DNA binding (GO:0042162)			breast(4)|endometrium(5)|kidney(7)|large_intestine(22)|lung(13)|ovary(4)|pancreas(2)|prostate(1)|skin(10)|upper_aerodigestive_tract(1)|urinary_tract(3)	72		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		CATGGGTTCCGTATCCTCAAT	0.408								Other conserved DNA damage response genes																																								0													146	130	135					15																	43749148		2201	4298	6499	SO:0001583	missense	7158			U09477	CCDS10096.1, CCDS45250.1, CCDS45251.1	15q15-q21	2007-08-02	2007-08-02		ENSG00000067369	ENSG00000067369			11999	protein-coding gene	gene with protein product		605230	"tumor protein p53-binding protein, 1"			8016121, 9748285	Standard	NM_005657		Approved	53BP1, p202	uc001zrr.4	Q12888	OTTHUMG00000059757	ENST00000263801.3:c.1643C>T	15.37:g.43749148G>A	ENSP00000263801:p.Thr548Met	Somatic		WXS	Illumina HiSeq	Phase_I	F8VY86|Q2M1Z7|Q4LE46|Q5FWZ3|Q7Z3U4	Missense_Mutation	SNP	ENST00000263801.3	37	CCDS10096.1	.	.	.	.	.	.	.	.	.	.	G	12.20	1.865405	0.32977	.	.	ENSG00000067369	ENST00000263801;ENST00000382044;ENST00000382039;ENST00000450115;ENST00000413546	T;T;T;T;T	0.19105	2.17;2.17;2.17;2.17;2.17	5.04	3.17	0.36434	.	0.402681	0.25610	N	0.029482	T	0.35941	0.0949	L	0.59436	1.845	0.26495	N	0.97487	D;D;D;D	0.76494	0.995;0.999;0.999;0.999	P;P;D;D	0.67382	0.762;0.894;0.951;0.951	T	0.07986	-1.0744	10	0.48119	T	0.1	-2.4294	8.306	0.32042	0.2433:0.0:0.7567:0.0	.	553;548;553;553	B7Z3E7;Q12888;Q12888-2;F8VY86	.;TP53B_HUMAN;.;.	M	548;553;553;553;553	ENSP00000263801:T548M;ENSP00000371475:T553M;ENSP00000371470:T553M;ENSP00000393497:T553M;ENSP00000388028:T553M	ENSP00000263801:T548M	T	-	2	0	TP53BP1	41536440	0.941000	0.31946	0.984000	0.44739	0.741000	0.42261	1.664000	0.37439	0.634000	0.30469	-0.244000	0.11960	ACG		0.408	TP53BP1-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000132897.3			A	43749148	G	A	43749148	3	1	689	1	0	0	0	0	1	0	0	0	16395	1145	40	1	4343	1	TP53BP1	15	43749148	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	2997829	43749148	58782244	56	44743										
VPS13C	54832	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	62211580	62211580	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	atgactggcattgggattccGtacattatacaatcgccgtc	9	10	0	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr15:62211580G>A	ENST00000261517.5	-	58	7619	c.7546C>T	c.(7546-7548)Cgg>Tgg	p.R2516W	VPS13C_ENST00000395896.4_Missense_Mutation_p.R2516W|VPS13C_ENST00000395898.3_Missense_Mutation_p.R2473W|VPS13C_ENST00000249837.3_Missense_Mutation_p.R2473W	NM_020821.2	NP_065872.1			vacuolar protein sorting 13 homolog C (S. cerevisiae)											NS(3)|breast(4)|endometrium(4)|kidney(9)|large_intestine(26)|lung(46)|ovary(5)|prostate(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	117						TTGGGATTCCGTACATTATAC	0.423																																																0													147	144	145					15																	62211580		2203	4299	6502	SO:0001583	missense	54832			AJ608770	CCDS10180.1, CCDS32257.1, CCDS45272.1, CCDS58367.1	15q21.3	2009-07-09	2006-04-04		ENSG00000129003	ENSG00000129003			23594	protein-coding gene	gene with protein product		608879	"vacuolar protein sorting 13C (yeast)"				Standard	NM_018080		Approved	FLJ20136, FLJ10381, KIAA1421	uc002agz.3	Q709C8	OTTHUMG00000132801	ENST00000261517.5:c.7546C>T	15.37:g.62211580G>A	ENSP00000261517:p.Arg2516Trp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000261517.5	37	CCDS32257.1	.	.	.	.	.	.	.	.	.	.	G	10.51	1.369251	0.24771	.	.	ENSG00000129003	ENST00000249837;ENST00000261517;ENST00000395896;ENST00000395898	T;T;T	0.50548	0.74;0.74;0.91	5.35	2.37	0.29283	.	0.191981	0.43579	N	0.000554	T	0.36441	0.0967	L	0.54323	1.7	0.34837	D	0.740249	B;B;B;B	0.29909	0.136;0.261;0.261;0.17	B;B;B;B	0.23419	0.031;0.031;0.046;0.014	T	0.40040	-0.9584	10	0.56958	D	0.05	.	5.3262	0.15908	0.1657:0.0:0.4056:0.4287	.	2473;2516;2473;2516	Q709C8-4;Q709C8-2;Q709C8-3;Q709C8	.;.;.;VP13C_HUMAN	W	2473;2516;2516;2516	ENSP00000249837:R2473W;ENSP00000261517:R2516W;ENSP00000379233:R2516W	ENSP00000249837:R2473W	R	-	1	2	VPS13C	59998872	0.752000	0.28338	0.148000	0.22405	0.563000	0.35712	1.599000	0.36751	0.290000	0.22444	-0.181000	0.13052	CGG		0.423	VPS13C-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000415997.1	NM_017684		A	62211580	G	A	62211580	3	1	689	1	0	0	0	0	1	0	0	0	17203	1144	40	1	3855	1	VPS13C	15	62211580	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	18462432	62211580	40319812	57	44744										
VPS13C	54832	broad.mit.edu	37	chr15	62219326	62219326	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	cctctcttttctctgagaaaAgggcaagcgagcactttcag	9	11	3	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr15:62219326A>G	ENST00000261517.5	-	52	6553	c.6480T>C	c.(6478-6480)ccT>ccC	p.P2160P	VPS13C_ENST00000395896.4_Silent_p.P2160P|VPS13C_ENST00000395898.3_Silent_p.P2117P|VPS13C_ENST00000249837.3_Silent_p.P2117P	NM_020821.2	NP_065872.1			vacuolar protein sorting 13 homolog C (S. cerevisiae)											NS(3)|breast(4)|endometrium(4)|kidney(9)|large_intestine(26)|lung(46)|ovary(5)|prostate(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	117						CTCTGAGAAAAGGGCAAGCGA	0.423																																																0													120	118	119					15																	62219326		2203	4300	6503	SO:0001819	synonymous_variant	54832			AJ608770	CCDS10180.1, CCDS32257.1, CCDS45272.1, CCDS58367.1	15q21.3	2009-07-09	2006-04-04		ENSG00000129003	ENSG00000129003			23594	protein-coding gene	gene with protein product		608879	"vacuolar protein sorting 13C (yeast)"				Standard	NM_018080		Approved	FLJ20136, FLJ10381, KIAA1421	uc002agz.3	Q709C8	OTTHUMG00000132801	ENST00000261517.5:c.6480T>C	15.37:g.62219326A>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000261517.5	37	CCDS32257.1																																																																																				0.423	VPS13C-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000415997.1	NM_017684		G	62219326	A	G	62219326	2	3	689	1	0	0	0	0	0	0	0	1	17203	59	3	3		3	VPS13C	15	62219326	Silent	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10	7746	62219326	40312066	58	44745										
PARP6	56965	broad.mit.edu	37	chr15	72552951	72552951	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	caggagatggaacggttcatGaggcgcccaacccgaagctc	13	12	1	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr15:72552951G>T	ENST00000569795.1	-	10	1311	c.624C>A	c.(622-624)ctC>ctA	p.L208L	PARP6_ENST00000413097.2_5'UTR|PARP6_ENST00000287196.9_Silent_p.L208L|PARP6_ENST00000260376.7_Silent_p.L208L			Q2NL67	PARP6_HUMAN	poly (ADP-ribose) polymerase family, member 6	208							NAD+ ADP-ribosyltransferase activity (GO:0003950)			NS(1)|breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(8)|skin(1)|urinary_tract(1)	18						AACGGTTCATGAGGCGCCCAA	0.557																																																0													376	370	372					15																	72552951		1920	4129	6049	SO:0001819	synonymous_variant	56965			AL390093	CCDS10241.2	15q22	2010-02-16			ENSG00000137817	ENSG00000137817		"Poly (ADP-ribose) polymerases"	26921	protein-coding gene	gene with protein product						15273990	Standard	XM_005254557		Approved	pART17	uc002auc.3	Q2NL67	OTTHUMG00000133443	ENST00000569795.1:c.624C>A	15.37:g.72552951G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H7C5|Q9H9X6|Q9HAF3|Q9NPS6|Q9UFG4	Silent	SNP	ENST00000569795.1	37	CCDS10241.2																																																																																				0.557	PARP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257315.2	NM_020214		T	72552951	G	T	72552951	2	4	689	1	0	0	0	0	0	0	0	1	11471	1277	45	4		4	PARP6	15	72552951	Silent	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	10333625	72552951	29978441	59	44746										
NPTN	27020	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	73884465	73884465	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ataatgacctcttcactggtGacaatccttggctctgtaat	7	10	3	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr15:73884465G>A	ENST00000345330.4	-	3	650	c.453C>T	c.(451-453)gtC>gtT	p.V151V	NPTN_ENST00000563691.1_Silent_p.V151V|NPTN_ENST00000351217.6_Silent_p.V35V|NPTN_ENST00000564551.1_Intron|NPTN_ENST00000545878.1_Silent_p.V151V|NPTN_ENST00000287226.8_Silent_p.V151V|NPTN_ENST00000562924.1_Silent_p.V35V|NPTN_ENST00000542234.1_Intron	NM_001161363.1|NM_012428.3	NP_001154835.1|NP_036560.1	Q9Y639	NPTN_HUMAN	neuroplastin	151	Ig-like 2.|Narpin; mediates binding with FGFR1 and has antidepressant-like activity. {ECO:0000250}.				homophilic cell adhesion (GO:0007156)|long-term synaptic potentiation (GO:0060291)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of fibroblast growth factor receptor signaling pathway (GO:0045743)|positive regulation of long-term neuronal synaptic plasticity (GO:0048170)|positive regulation of neuron projection development (GO:0010976)|positive regulation of protein phosphorylation (GO:0001934)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|presynaptic membrane (GO:0042734)	cell adhesion molecule binding (GO:0050839)|type 1 fibroblast growth factor receptor binding (GO:0005105)			breast(2)|cervix(1)|endometrium(2)|large_intestine(2)|lung(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)	13						CTTCACTGGTGACAATCCTTG	0.532																																					Pancreas(101;1519 1568 9459 19537 41286)|Esophageal Squamous(143;1278 1787 35254 36835 44843)											0													156	117	130					15																	73884465		2198	4297	6495	SO:0001819	synonymous_variant	27020			AF035287	CCDS10249.1, CCDS10250.1, CCDS58379.1, CCDS58380.1	15q24.1	2013-01-29	2006-02-22	2006-02-22	ENSG00000156642	ENSG00000156642		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	17867	protein-coding gene	gene with protein product		612820	"stromal cell derived factor receptor 1"	SDFR1		8619474, 9110174	Standard	NM_012428		Approved	SDR1, GP55, GP65, np65, np55	uc002avs.3	Q9Y639	OTTHUMG00000137586	ENST00000345330.4:c.453C>T	15.37:g.73884465G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RAL7|B7Z4D3|B7ZLL2|Q17R52|Q59EJ9|Q6NVX7|Q9Y640	Silent	SNP	ENST00000345330.4	37	CCDS10249.1																																																																																				0.532	NPTN-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000268980.1	NM_012428		A	73884465	G	A	73884465	2	1	689	1	0	0	0	0	0	0	0	1	10608	1277	45	2		2	NPTN	15	73884465	Silent	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	1331514	73884465	28646927	60	44747										
PRSS27	83886	broad.mit.edu	37	chr16	2762757	2762757	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	agccctcaccccagctgatcAcccccgcctgcagccacgac	7	22	2	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr16:2762757A>C	ENST00000302641.3	-	6	791	c.737T>G	c.(736-738)gTg>gGg	p.V246G	AC092117.1_ENST00000410123.1_RNA	NM_031948.3	NP_114154.1	Q9BQR3	PRS27_HUMAN	protease, serine 27	246	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.					extracellular region (GO:0005576)|plasma membrane (GO:0005886)	serine-type endopeptidase activity (GO:0004252)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)	8						CCAGCTGATCACCCCCGCCTG	0.667																																																0													27	24	25					16																	2762757		2178	4284	6462	SO:0001583	missense	83886			AB056161	CCDS10476.1	16p13.3	2010-05-07			ENSG00000172382	ENSG00000172382		"Serine peptidases / Serine peptidases"	15475	protein-coding gene	gene with protein product		608018					Standard	NM_031948		Approved	MPN, pancreasin, CAPH2, marapsin	uc002crf.3	Q9BQR3	OTTHUMG00000128929	ENST00000302641.3:c.737T>G	16.37:g.2762757A>C	ENSP00000306390:p.Val246Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000302641.3	37	CCDS10476.1	.	.	.	.	.	.	.	.	.	.	.	16.11	3.030268	0.54790	.	.	ENSG00000172382	ENST00000302641;ENST00000543965	D	0.85861	-2.04	5.21	5.21	0.72293	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	0.000000	0.48286	D	0.000182	D	0.94670	0.8281	H	0.96777	3.88	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.79108	0.987;0.992	D	0.96007	0.8998	10	0.87932	D	0	.	13.0312	0.58842	1.0:0.0:0.0:0.0	.	246;210	Q9BQR3;B3KP25	PRS27_HUMAN;.	G	246;210	ENSP00000306390:V246G	ENSP00000306390:V246G	V	-	2	0	PRSS27	2702758	0.956000	0.32656	0.212000	0.23672	0.512000	0.34134	8.849000	0.92178	1.969000	0.57287	0.459000	0.35465	GTG		0.667	PRSS27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250908.1	NM_031948		C	2762757	A	C	2762757	3	2	689	1	0	0	0	0	1	0	0	0	12631	159	6	5	139	5	PRSS27	16	2762757	Missense_Mutation	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10		2762757	87591996	61	44748										
ELMO3	79767	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	67236173	67236173	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	gctgctgtgtgagctgctccGtgttggggagccctgtgagt	17	9	0	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr16:67236173G>C	ENST00000360833.1	+	12	1412	c.1355G>C	c.(1354-1356)cGt>cCt	p.R452P	ELMO3_ENST00000477898.1_Missense_Mutation_p.R303P|ELMO3_ENST00000393997.2_Missense_Mutation_p.R469P|MIR328_ENST00000385213.1_RNA			Q96BJ8	ELMO3_HUMAN	engulfment and cell motility 3	416	ELMO. {ECO:0000255|PROSITE- ProRule:PRU00664}.				apoptotic process (GO:0006915)|phagocytosis (GO:0006909)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)				cervix(2)|kidney(4)|large_intestine(3)|lung(3)|ovary(2)|prostate(1)|upper_aerodigestive_tract(3)	18		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00067)|Epithelial(162;0.00442)|all cancers(182;0.0417)		GAGCTGCTCCGTGTTGGGGAG	0.642																																																0													72	80	77					16																	67236173		2198	4300	6498	SO:0001583	missense	79767				CCDS10833.2	16q22.1	2010-03-18	2006-01-20		ENSG00000102890	ENSG00000102890		"Engulfment and cell motility proteins"	17289	protein-coding gene	gene with protein product		606422	"engulfment and cell motility 3 (ced-12 homolog, C. elegans)"			11595183	Standard	NM_024712		Approved	FLJ13824, CED12, ELMO-3, CED-12	uc002esa.3	Q96BJ8	OTTHUMG00000133570	ENST00000360833.1:c.1355G>C	16.37:g.67236173G>C	ENSP00000354077:p.Arg452Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DV86|Q9H8A5	Missense_Mutation	SNP	ENST00000360833.1	37		.	.	.	.	.	.	.	.	.	.	G	11.93	1.785844	0.31593	.	.	ENSG00000102890	ENST00000360833;ENST00000393997	T;T	0.33438	1.41;1.41	5.62	-8.47	0.00939	Engulfment/cell motility, ELMO (2);	0.430306	0.28977	N	0.013534	T	0.38612	0.1047	M	0.66939	2.045	0.48185	D	0.999606	P;P;P	0.47604	0.752;0.898;0.898	P;P;P	0.52598	0.703;0.697;0.697	T	0.62909	-0.6754	10	0.87932	D	0	0.0214	17.3874	0.87420	0.3634:0.0:0.6366:0.0	.	416;452;469	Q96BJ8;F8W9E7;Q96BJ8-3	ELMO3_HUMAN;.;.	P	452;469	ENSP00000354077:R452P;ENSP00000377566:R469P	ENSP00000354077:R452P	R	+	2	0	ELMO3	65793674	0.006000	0.16342	0.002000	0.10522	0.156000	0.22039	0.112000	0.15479	-1.379000	0.02118	-1.029000	0.02412	CGT		0.642	ELMO3-001	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000257667.2	NM_024712		C	67236173	G	C	67236173	3	2	689	1	0	0	0	0	1	0	0	0	5069	1145	40	4	1456	4	ELMO3	16	67236173	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	64473416	67236173	23118580	62	44749										
PRMT7	54496	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr16	68386313	68386313	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ctgtggttgtggagttcaggGtaggccacccaggggatgtt	17	7	1	0			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr16:68386313G>A	ENST00000339507.5	+	15	2405		c.e15+1		PRMT7_ENST00000441236.1_Splice_Site|PRMT7_ENST00000449359.3_Splice_Site|PRMT7_ENST00000348497.4_Splice_Site			Q9NVM4	ANM7_HUMAN	protein arginine methyltransferase 7						cell differentiation (GO:0030154)|DNA methylation involved in gamete generation (GO:0043046)|histone arginine methylation (GO:0034969)|histone methylation (GO:0016571)|peptidyl-arginine methylation (GO:0018216)|peptidyl-arginine methylation, to asymmetrical-dimethyl arginine (GO:0019919)|peptidyl-arginine methylation, to symmetrical-dimethyl arginine (GO:0019918)|regulation of gene expression by genetic imprinting (GO:0006349)|regulation of protein binding (GO:0043393)|regulation of transcription, DNA-templated (GO:0006355)|spliceosomal snRNP assembly (GO:0000387)|transcription, DNA-templated (GO:0006351)	cytosol (GO:0005829)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	[myelin basic protein]-arginine N-methyltransferase activity (GO:0016277)|histone binding (GO:0042393)|histone methyltransferase activity (H4-R3 specific) (GO:0044020)|histone-arginine N-methyltransferase activity (GO:0008469)|protein-arginine omega-N asymmetric methyltransferase activity (GO:0035242)|protein-arginine omega-N monomethyltransferase activity (GO:0035241)|protein-arginine omega-N symmetric methyltransferase activity (GO:0035243)|ribonucleoprotein complex binding (GO:0043021)|S-adenosylmethionine-dependent methyltransferase activity (GO:0008757)			endometrium(3)|kidney(2)|large_intestine(3)|lung(10)|pancreas(1)|urinary_tract(1)	20		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0155)|Epithelial(162;0.0629)		GGAGTTCAGGGTAGGCCACCC	0.622																																																0													40	38	39					16																	68386313		2198	4300	6498	SO:0001630	splice_region_variant	54496			AK001502	CCDS10866.1, CCDS54033.1	16q22.1	2008-02-05			ENSG00000132600	ENSG00000132600		"Protein arginine methyltransferases"	25557	protein-coding gene	gene with protein product		610087				15044439	Standard	NM_001184824		Approved	FLJ10640, KIAA1933	uc002evy.2	Q9NVM4	OTTHUMG00000137556	ENST00000339507.5:c.1575+1G>A	16.37:g.68386313G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KPR0|B3KUG9|B4E379|Q96PV5|Q9H9L0	Splice_Site	SNP	ENST00000339507.5	37	CCDS10866.1	.	.	.	.	.	.	.	.	.	.	G	20.2	3.947713	0.73787	.	.	ENSG00000132600	ENST00000449359;ENST00000441236;ENST00000348497;ENST00000339507	.	.	.	5.1	5.1	0.69264	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.9994	0.80280	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	PRMT7	66943814	1.000000	0.71417	1.000000	0.80357	0.823000	0.46562	9.352000	0.97076	2.392000	0.81423	0.655000	0.94253	.		0.622	PRMT7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268892.3	NM_019023	Intron	A	68386313	G	A	68386313	5	1	689	1	0	0	0	0	0	0	1	0	12551	1275	44	2	1626	2	PRMT7	16	68386313	Splice_Site	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	1150140	68386313	21968440	63	44750										
DHX38	9785	bcgsc.ca	37	chr16	72132887	72132887	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ctccctcctacaaatataacGagtgggccgatgacagaaga	9	11	0	3	rs557237564		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr16:72132887G>A	ENST00000268482.3	+	6	1335	c.826G>A	c.(826-828)Gag>Aag	p.E276K	DHX38_ENST00000536867.1_Intron	NM_014003.3	NP_054722.2	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	276					gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA export from nucleus (GO:0006406)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	catalytic step 2 spliceosome (GO:0071013)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|poly(A) RNA binding (GO:0044822)			endometrium(5)|kidney(1)|large_intestine(16)|lung(15)|pancreas(1)|prostate(2)|skin(5)|stomach(2)|upper_aerodigestive_tract(1)	48		Ovarian(137;0.125)				CAAATATAACGAGTGGGCCGA	0.592																																					Melanoma(97;711 1442 7855 13832 28836)											0													57	56	56					16																	72132887		2198	4300	6498	SO:0001583	missense	9785			AF038391	CCDS10907.1	16q22	2008-02-05	2003-06-13	2003-06-20	ENSG00000140829	ENSG00000140829		"DEAH-boxes"	17211	protein-coding gene	gene with protein product		605584	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 38"	DDX38		9524131, 9039502	Standard	NM_014003		Approved	PRP16, KIAA0224, hPrp16, PRPF16	uc002fcb.3	Q92620	OTTHUMG00000137596	ENST00000268482.3:c.826G>A	16.37:g.72132887G>A	ENSP00000268482:p.Glu276Lys	Somatic		WXS	Illumina HiSeq	Phase_1	B4DVG8|D3DWS7|O75212|Q96HN7	Missense_Mutation	SNP	ENST00000268482.3	37	CCDS10907.1	.	.	.	.	.	.	.	.	.	.	G	12.91	2.080529	0.36662	.	.	ENSG00000140829	ENST00000268482	T	0.02916	4.11	4.87	4.87	0.63330	.	0.000000	0.85682	D	0.000000	T	0.02929	0.0087	L	0.27053	0.805	0.80722	D	1	B	0.09022	0.002	B	0.04013	0.001	T	0.50101	-0.8867	10	0.09843	T	0.71	.	18.3634	0.90383	0.0:0.0:1.0:0.0	.	276	Q92620	PRP16_HUMAN	K	276	ENSP00000268482:E276K	ENSP00000268482:E276K	E	+	1	0	DHX38	70690388	1.000000	0.71417	0.390000	0.26220	0.533000	0.34776	9.262000	0.95591	2.419000	0.82065	0.563000	0.77884	GAG		0.592	DHX38-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269004.3	NM_014003		A	72132887	G	A	72132887	3	1	689	1	0	0	0	0	1	0	0	0	4513	1059	37	1	844	1	DHX38	16	72132887	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	3746574	72132887	18221866	64	44751										
MYH4	4622	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	10369879	10369879	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	agctccagcttcggtcttggCtgtcaccttccccccttccc	7	19	2	0	rs148833814		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr17:10369879C>T	ENST00000255381.2	-	3	294	c.184G>A	c.(184-186)Gcc>Acc	p.A62T	CTC-297N7.11_ENST00000587182.2_RNA|RP11-799N11.1_ENST00000399342.2_RNA|RP11-799N11.1_ENST00000581304.1_RNA	NM_017533.2	NP_060003.2	Q9Y623	MYH4_HUMAN	myosin, heavy chain 4, skeletal muscle	62					actin filament-based movement (GO:0030048)|ATP catabolic process (GO:0006200)|membrane organization (GO:0061024)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|response to activity (GO:0014823)	muscle myosin complex (GO:0005859)|myofibril (GO:0030016)|myosin filament (GO:0032982)|sarcomere (GO:0030017)	ATP binding (GO:0005524)|double-stranded RNA binding (GO:0003725)|microfilament motor activity (GO:0000146)			NS(4)|breast(8)|central_nervous_system(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(13)|lung(72)|ovary(10)|prostate(7)|skin(9)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	149						TCGGTCTTGGCTGTCACCTTC	0.463																																																0								C	THR/ALA	0,4406		0,0,2203	201	188	192		184	4.5	0.3	17	dbSNP_134	192	1,8599	1.2+/-3.3	0,1,4299	no	missense	MYH4	NM_017533.2	58	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign	62/1940	10369879	1,13005	2203	4300	6503	SO:0001583	missense	4622				CCDS11154.1	17p13.1	2013-09-19	2006-09-29		ENSG00000264424	ENSG00000264424		"Myosins / Myosin superfamily : Class II"	7574	protein-coding gene	gene with protein product		160742	"myosin, heavy polypeptide 4, skeletal muscle"			8518795	Standard	NM_017533		Approved	MYH2B, MyHC-2B, MyHC-IIb	uc002gmn.3	Q9Y623	OTTHUMG00000130365	ENST00000255381.2:c.184G>A	17.37:g.10369879C>T	ENSP00000255381:p.Ala62Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000255381.2	37	CCDS11154.1	.	.	.	.	.	.	.	.	.	.	C	17.18	3.324097	0.60634	0.0	1.16E-4	ENSG00000141048	ENST00000255381	T	0.80304	-1.36	4.53	4.53	0.55603	Myosin, N-terminal, SH3-like (1);	0.261790	0.19148	U	0.121502	T	0.76069	0.3936	L	0.41492	1.28	0.80722	D	1	B	0.06786	0.001	B	0.10450	0.005	T	0.73544	-0.3949	10	0.66056	D	0.02	.	17.8023	0.88591	0.0:1.0:0.0:0.0	.	62	Q9Y623	MYH4_HUMAN	T	62	ENSP00000255381:A62T	ENSP00000255381:A62T	A	-	1	0	MYH4	10310604	0.240000	0.23847	0.284000	0.24805	0.914000	0.54420	4.544000	0.60691	2.498000	0.84270	0.650000	0.86243	GCC		0.463	MYH4-001	KNOWN	NAGNAG_splice_site|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252731.1	NM_017533		T	10369879	C	T	10369879	3	4	689	1	0	0	0	0	1	0	0	0	10044	797	28	2	5787	2	MYH4	17	10369879	Missense_Mutation	SNP	C	TCGA-KV-A6GE-01A-11D-A31X-10		10369879	70825331	65	44752										
BLMH	642	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	28614937	28614937	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	tctgggctgtgtccacaaaaGcactcaagaagaaataacag	9	9	2	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr17:28614937G>A	ENST00000261714.6	-	4	524	c.350C>T	c.(349-351)gCt>gTt	p.A117V	BLMH_ENST00000394819.3_Missense_Mutation_p.A30V|BLMH_ENST00000582669.1_5'Flank|RNU6-1267P_ENST00000410747.1_RNA	NM_000386.3	NP_000377.1	Q13867	BLMH_HUMAN	bleomycin hydrolase	117					antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|protein polyubiquitination (GO:0000209)|proteolysis (GO:0006508)|response to drug (GO:0042493)|response to toxic substance (GO:0009636)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	aminopeptidase activity (GO:0004177)|carboxypeptidase activity (GO:0004180)|cysteine-type endopeptidase activity (GO:0004197)|cysteine-type peptidase activity (GO:0008234)			breast(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(2)|ovary(1)|prostate(1)|stomach(1)	13					Bleomycin(DB00290)	GTCCACAAAAGCACTCAAGAA	0.388																																					Pancreas(127;628 1772 12912 33293 36203)											0													88	85	86					17																	28614937		2203	4300	6503	SO:0001583	missense	642			X92106	CCDS32604.1	17q11.2	2004-02-16				ENSG00000108578			1059	protein-coding gene	gene with protein product		602403				9407121, 9331073	Standard	NM_000386		Approved	BH	uc002hez.2	Q13867		ENST00000261714.6:c.350C>T	17.37:g.28614937G>A	ENSP00000261714:p.Ala117Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R796|Q53F86|Q9UER9	Missense_Mutation	SNP	ENST00000261714.6	37	CCDS32604.1	.	.	.	.	.	.	.	.	.	.	G	19.14	3.769945	0.69992	.	.	ENSG00000108578	ENST00000261714;ENST00000394819	T;T	0.44881	0.91;0.91	5.95	5.95	0.96441	.	0.197192	0.52532	D	0.000067	T	0.45637	0.1352	M	0.63208	1.945	0.51233	D	0.999918	B;B	0.23540	0.087;0.036	B;B	0.25759	0.063;0.039	T	0.31530	-0.9940	10	0.49607	T	0.09	-8.7167	17.5491	0.87871	0.0:0.0:1.0:0.0	.	30;117	E7EMN3;Q13867	.;BLMH_HUMAN	V	117;30	ENSP00000261714:A117V;ENSP00000378296:A30V	ENSP00000261714:A117V	A	-	2	0	BLMH	25639063	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	4.945000	0.63568	2.824000	0.97209	0.655000	0.94253	GCT		0.388	BLMH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447940.1	NM_000386		A	28614937	G	A	28614937	3	1	689	1	0	0	0	0	1	0	0	0	1446	971	34	2	1053	2	BLMH	17	28614937	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	18245058	28614937	52580273	66	44753										
CACNB1	782	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	37343149	37343149	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	aacctcacagccctccttcaCcagccgcccgatccaccagt	5	21	2	0	rs201083692	byFrequency	TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr17:37343149C>G	ENST00000394303.3	-	5	655	c.448G>C	c.(448-450)Gtg>Ctg	p.V150L	CACNB1_ENST00000582877.1_5'UTR|CACNB1_ENST00000394310.3_Missense_Mutation_p.V150L|CACNB1_ENST00000344140.5_Missense_Mutation_p.V150L	NM_000723.4	NP_000714.3	Q02641	CACB1_HUMAN	calcium channel, voltage-dependent, beta 1 subunit	150	SH3. {ECO:0000255|PROSITE- ProRule:PRU00192}.				axon guidance (GO:0007411)|protein targeting to membrane (GO:0006612)|transport (GO:0006810)	sarcoplasmic reticulum (GO:0016529)|T-tubule (GO:0030315)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|voltage-gated calcium channel activity (GO:0005245)			breast(1)|endometrium(3)|kidney(1)|large_intestine(4)|liver(1)|lung(3)|ovary(1)|prostate(1)|skin(1)	16					Dronedarone(DB04855)|Ibutilide(DB00308)|Magnesium Sulfate(DB00653)|Nimodipine(DB00393)|Spironolactone(DB00421)|Verapamil(DB00661)	CCCTCCTTCACCAGCCGCCCG	0.572																																					Esophageal Squamous(5;100 366 38393 41452 45827)											0													62	58	59					17																	37343149		2203	4300	6503	SO:0001583	missense	782				CCDS11334.1, CCDS42311.1, CCDS45665.1	17q21-q22	2013-03-20			ENSG00000067191	ENSG00000067191		"Calcium channel subunits"	1401	protein-coding gene	gene with protein product		114207		CACNLB1		8381767, 8395940	Standard	NM_000723		Approved		uc002hrm.2	Q02641	OTTHUMG00000133217	ENST00000394303.3:c.448G>C	17.37:g.37343149C>G	ENSP00000377840:p.Val150Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K114|O15331|Q02639|Q02640|Q8N3X9|Q9C085|Q9UD79	Missense_Mutation	SNP	ENST00000394303.3	37	CCDS42311.1	.	.	.	.	.	.	.	.	.	.	C	31	5.061866	0.93846	.	.	ENSG00000067191	ENST00000539338;ENST00000394303;ENST00000344140;ENST00000394310;ENST00000536613	D;D;D	0.83335	-1.71;-1.71;-1.71	5.06	5.06	0.68205	Src homology-3 domain (3);	0.000000	0.85682	D	0.000000	D	0.92166	0.7516	M	0.86420	2.815	0.80722	D	1	P;D;D;P;D	0.64830	0.902;0.984;0.988;0.902;0.994	D;D;D;P;D	0.78314	0.927;0.926;0.991;0.893;0.97	D	0.93547	0.6883	10	0.87932	D	0	-16.2167	17.1868	0.86868	0.0:1.0:0.0:0.0	.	103;150;150;150;150	F5H6X1;Q6TME4;Q02641-2;Q02641-3;Q02641	.;.;.;.;CACB1_HUMAN	L	100;150;150;150;103	ENSP00000377840:V150L;ENSP00000345461:V150L;ENSP00000377847:V150L	ENSP00000345461:V150L	V	-	1	0	CACNB1	34596675	1.000000	0.71417	1.000000	0.80357	0.974000	0.67602	7.711000	0.84669	2.362000	0.80069	0.313000	0.20887	GTG		0.572	CACNB1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256945.3			G	37343149	C	G	37343149	3	3	689	1	0	0	0	0	1	0	0	0	2554	507	18	4	1652	4	CACNB1	17	37343149	Missense_Mutation	SNP	C	TCGA-KV-A6GE-01A-11D-A31X-10	8728212	37343149	43852061	67	44754										
SLC25A39	51629	broad.mit.edu;bcgsc.ca	37	chr17	42399919	42399919	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	gtggattggagagaggagggCactggggaaaggcagggggc	23	4	0	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr17:42399919C>T	ENST00000377095.5	-	5	311	c.192G>A	c.(190-192)ttG>ttA	p.L64L	SLC25A39_ENST00000225308.8_Intron|SLC25A39_ENST00000590194.1_Intron|SLC25A39_ENST00000586016.1_Intron|SLC25A39_ENST00000537904.2_Intron	NM_001143780.1	NP_001137252.1	Q9BZJ4	S2539_HUMAN	solute carrier family 25, member 39	64					heme biosynthetic process (GO:0006783)|transport (GO:0006810)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)				endometrium(2)|lung(3)|prostate(1)|upper_aerodigestive_tract(1)	7		Prostate(33;0.0233)		BRCA - Breast invasive adenocarcinoma(366;0.189)		GAGAGGAGGGCACTGGGGAAA	0.587																																																0													64	54	58					17																	42399919		2203	4300	6503	SO:0001630	splice_region_variant	51629			BC096819	CCDS11482.1, CCDS45700.1	17q12	2013-05-22			ENSG00000013306	ENSG00000013306		"Solute carriers"	24279	protein-coding gene	gene with protein product		610820				16949250	Standard	NM_001143780		Approved	FLJ22407, CGI-69	uc002ign.2	Q9BZJ4	OTTHUMG00000132628	ENST00000377095.5:c.191-1G>A	17.37:g.42399919C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8JZZ2|D3DX51|D3DX54|Q4V9M1|Q9P182|Q9UF66|Q9Y379	Silent	SNP	ENST00000377095.5	37	CCDS45700.1																																																																																				0.587	SLC25A39-006	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000457745.1	NM_016016	Silent	T	42399919	C	T	42399919	5	4	689	1	0	0	0	0	0	0	1	0	14516	724	25	2	919	2	SLC25A39	17	42399919	Splice_Site	SNP	C	TCGA-KV-A6GE-01A-11D-A31X-10	5056770	42399919	38795291	68	44755										
NACA2	342538	ucsc.edu	37	chr17	59668318	59668318	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	tggacatagccttccgtgccCtcttttcactccgactctgt	7	15	3	0			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr17:59668318C>T	ENST00000521764.1	-	1	245	c.224G>A	c.(223-225)aGg>aAg	p.R75K		NM_199290.3	NP_954984.1	Q9H009	NACA2_HUMAN	nascent polypeptide-associated complex alpha subunit 2	75	NAC-A/B. {ECO:0000255|PROSITE- ProRule:PRU00507}.				myoblast migration (GO:0051451)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)			large_intestine(1)|lung(5)|ovary(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	12	all_epithelial(1;3.12e-14)					CTTCCGTGCCCTCTTTTCACT	0.458																																																0													246	229	234					17																	59668318		2203	4300	6503	SO:0001583	missense	342538			BC062710	CCDS11630.1	17q23.3	2014-01-28	2007-04-20	2007-04-20		ENSG00000253506			23290	protein-coding gene	gene with protein product	"alpha-NAC protein"	609274	"nascent-polypeptide-associated complex alpha polypeptide-like"	NACAL		12406326	Standard	NM_199290		Approved	MGC71999	uc002izj.2	Q9H009		ENST00000521764.1:c.224G>A	17.37:g.59668318C>T	ENSP00000427802:p.Arg75Lys	Somatic		WXS	Illumina HiSeq		Q2VIR9	Missense_Mutation	SNP	ENST00000521764.1	37	CCDS11630.1	.	.	.	.	.	.	.	.	.	.	C	12.57	1.976583	0.34848	.	.	ENSG00000253506	ENST00000521764	T	0.17528	2.27	0.753	-0.748	0.11087	Nascent polypeptide-associated complex NAC (2);	0.072360	0.50627	N	0.000118	T	0.01489	0.0048	N	0.00010	-3.04	0.23577	N	0.997375	B	0.02656	0.0	B	0.01281	0.0	T	0.46076	-0.9217	9	.	.	.	.	4.0866	0.09950	0.0:0.257:0.0:0.743	.	75	Q9H009	NACA2_HUMAN	K	75	ENSP00000427802:R75K	.	R	-	2	0	NACA2	57023100	1.000000	0.71417	0.973000	0.42090	0.773000	0.43773	3.300000	0.51834	-0.188000	0.10499	-0.624000	0.04008	AGG		0.458	NACA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255437.2	NM_199290		T	59668318	C	T	59668318	3	4	689	1	0	0	0	0	1	0	0	0	10141	681	24	2	427	2	NACA2	17	59668318	Missense_Mutation	SNP	C	TCGA-KV-A6GE-01A-11D-A31X-10	17268399	59668318	21526892	69	44756										
AFG3L2	10939	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	12367020	12367020	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ccaagtgatttctctcccggAtctcttgagcagcaagtaaa	8	11	2	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr18:12367020A>G	ENST00000269143.3	-	5	727	c.496T>C	c.(496-498)Tcc>Ccc	p.S166P		NM_006796.2	NP_006787.2	Q9Y4W6	AFG32_HUMAN	AFG3-like AAA ATPase 2	166					axonogenesis (GO:0007409)|cell death (GO:0008219)|cristae formation (GO:0042407)|mitochondrial fusion (GO:0008053)|mitochondrial protein processing (GO:0034982)|muscle fiber development (GO:0048747)|myelination (GO:0042552)|nerve development (GO:0021675)|neuromuscular junction development (GO:0007528)|regulation of multicellular organism growth (GO:0040014)|righting reflex (GO:0060013)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|metalloendopeptidase activity (GO:0004222)|unfolded protein binding (GO:0051082)|zinc ion binding (GO:0008270)			NS(1)|endometrium(1)|kidney(2)|large_intestine(3)|lung(12)|prostate(3)|skin(1)|stomach(3)|urinary_tract(1)	27					Adenosine triphosphate(DB00171)	TCTCTCCCGGATCTCTTGAGC	0.448																																																0													114	108	110					18																	12367020		2203	4300	6503	SO:0001583	missense	10939			Y18314	CCDS11859.1	18p11.21	2014-09-17	2013-10-17		ENSG00000141385	ENSG00000141385		"ATPases / AAA-type"	315	protein-coding gene	gene with protein product		604581	"AFG3 (ATPase family gene 3, yeast)-like 2", "spinocerebellar ataxia 28", "AFG3 ATPase family gene 3-like 2 (yeast)", "AFG3 ATPase family gene 3-like 2 (S. cerevisiae)", "AFG3 ATPase family member 3-like 2 (S. cerevisiae)"	SCA28		10395799, 18769991	Standard	NM_006796		Approved	SPAX5	uc002kqz.2	Q9Y4W6	OTTHUMG00000131695	ENST00000269143.3:c.496T>C	18.37:g.12367020A>G	ENSP00000269143:p.Ser166Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P1L0	Missense_Mutation	SNP	ENST00000269143.3	37	CCDS11859.1	.	.	.	.	.	.	.	.	.	.	A	13.48	2.248845	0.39797	.	.	ENSG00000141385	ENST00000269143;ENST00000537174	T	0.78364	-1.17	5.72	5.72	0.89469	Peptidase M41, FtsH extracellular (1);Peptidase M41, FtsH (1);	0.163104	0.56097	D	0.000030	T	0.58337	0.2115	N	0.05441	-0.05	0.46167	D	0.998904	B	0.06786	0.001	B	0.12837	0.008	T	0.55522	-0.8128	10	0.29301	T	0.29	-0.123	10.65	0.45642	0.9197:0.0:0.0803:0.0	.	166	Q9Y4W6	AFG32_HUMAN	P	166;181	ENSP00000269143:S166P	ENSP00000269143:S166P	S	-	1	0	AFG3L2	12357020	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	2.808000	0.47963	2.182000	0.69389	0.533000	0.62120	TCC		0.448	AFG3L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254603.2	NM_006796		G	12367020	A	G	12367020	3	3	689	1	0	0	0	0	1	0	0	0	360	333	12	3	1949	3	AFG3L2	18	12367020	Missense_Mutation	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10		12367020	65710228	70	44757										
MUC16	94025	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	9088827	9088827	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	gaagtgaatttagagaccatTacagtagcagagagagaagt	12	4	0	4			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr19:9088827T>C	ENST00000397910.4	-	1	3191	c.2988A>G	c.(2986-2988)gtA>gtG	p.V996V		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	996	Thr-rich.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TAGAGACCATTACAGTAGCAG	0.468																																																0													257	242	247					19																	9088827		1979	4156	6135	SO:0001819	synonymous_variant	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.2988A>G	19.37:g.9088827T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Silent	SNP	ENST00000397910.4	37	CCDS54212.1																																																																																				0.468	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		C	9088827	T	C	9088827	2	2	689	1	0	0	0	0	0	0	0	1	9980	1741	61	3		3	MUC16	19	9088827	Silent	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10		9088827	50040156	71	44758										
NKPD1	284353	broad.mit.edu	37	chr19	45655438	45655438	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ggctcggatgagacccatgcGccggcggatggagtggtcca	17	11	0	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr19:45655438G>T	ENST00000438936.2	-	3	1802	c.1591C>A	c.(1591-1593)Cgc>Agc	p.R531S	NKPD1_ENST00000317951.4_Missense_Mutation_p.R753S|AC005757.7_ENST00000589594.1_lincRNA|NKPD1_ENST00000429338.1_Intron|NKPD1_ENST00000589776.1_Missense_Mutation_p.R531S			Q17RQ9	NKPD1_HUMAN	NTPase, KAP family P-loop domain containing 1	531						integral component of membrane (GO:0016021)				endometrium(1)|lung(4)|prostate(2)|urinary_tract(1)	8		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00863)|GBM - Glioblastoma multiforme(486;0.231)		AGACCCATGCGCCGGCGGATG	0.716																																																0													6	9	8					19																	45655438		1926	4080	6006	SO:0001583	missense	284353			AK090919		19q13.32	2012-07-02		2012-07-02	ENSG00000179846	ENSG00000179846			24739	protein-coding gene	gene with protein product						14702039	Standard	NM_198478		Approved	FLJ33600	uc010xxi.2	Q17RQ9	OTTHUMG00000160521	ENST00000438936.2:c.1591C>A	19.37:g.45655438G>T	ENSP00000401739:p.Arg531Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLG6|D6RH15|Q8N2A2	Missense_Mutation	SNP	ENST00000438936.2	37		.	.	.	.	.	.	.	.	.	.	G	16.14	3.037590	0.54896	.	.	ENSG00000179846	ENST00000317951;ENST00000438936	T;T	0.44083	0.93;0.95	5.43	4.39	0.52855	.	.	.	.	.	T	0.39784	0.1091	L	0.46157	1.445	0.80722	D	1	P	0.52842	0.956	P	0.51866	0.682	T	0.33007	-0.9885	9	0.07644	T	0.81	-10.5324	8.5125	0.33226	0.1757:0.0:0.8243:0.0	.	531	Q17RQ9	NKPD1_HUMAN	S	753;531	ENSP00000321976:R753S;ENSP00000401739:R531S	ENSP00000321976:R753S	R	-	1	0	NKPD1	50347278	0.989000	0.36119	1.000000	0.80357	0.986000	0.74619	1.381000	0.34362	1.292000	0.44672	0.561000	0.74099	CGC		0.716	NKPD1-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000360950.2	NM_198478		T	45655438	G	T	45655438	3	4	689	1	0	0	0	0	1	0	0	0	10453	1087	38	4	245	4	NKPD1	19	45655438	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	36566611	45655438	13473545	72	44759										
ZNF677	342926	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	53740610	53740610	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	atttattacatttgtaaggtTtttctccagtgtgaattctc	6	6	2	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr19:53740610T>C	ENST00000598513.1	-	5	1520	c.1370A>G	c.(1369-1371)aAa>aGa	p.K457R	ZNF677_ENST00000333952.4_Missense_Mutation_p.K457R	NM_182609.2	NP_872415.1	Q86XU0	ZN677_HUMAN	zinc finger protein 677	457					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(13)|lung(6)|ovary(1)|pancreas(1)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	36				GBM - Glioblastoma multiforme(134;0.00352)		TTTGTAAGGTTTTTCTCCAGT	0.378																																																0													54	52	53					19																	53740610		2203	4300	6503	SO:0001583	missense	342926			BC050038	CCDS12861.1	19q13.42	2013-01-08				ENSG00000197928		"Zinc fingers, C2H2-type", "-"	28730	protein-coding gene	gene with protein product	"hypothetical protein MGC48625"					12477932	Standard	NM_182609		Approved	MGC48625	uc002qbg.1	Q86XU0		ENST00000598513.1:c.1370A>G	19.37:g.53740610T>C	ENSP00000469391:p.Lys457Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000598513.1	37	CCDS12861.1	.	.	.	.	.	.	.	.	.	.	T	16.82	3.227295	0.58668	.	.	ENSG00000197928	ENST00000333952	T	0.24908	1.83	2.21	1.14	0.20703	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.37393	N	0.002104	T	0.26085	0.0636	N	0.13272	0.32	0.25071	N	0.990998	D	0.67145	0.996	D	0.69142	0.962	T	0.05194	-1.0900	10	0.72032	D	0.01	.	6.5871	0.22626	0.0:0.0:0.2456:0.7543	.	457	Q86XU0	ZN677_HUMAN	R	457	ENSP00000334394:K457R	ENSP00000334394:K457R	K	-	2	0	ZNF677	58432422	0.880000	0.30214	0.998000	0.56505	0.997000	0.91878	0.417000	0.21214	0.277000	0.22141	0.533000	0.62120	AAA		0.378	ZNF677-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464189.1	NM_182609		C	53740610	T	C	53740610	3	2	689	1	0	0	0	0	1	0	0	0	18096	1841	64	3	388	3	ZNF677	19	53740610	Missense_Mutation	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10	8085172	53740610	5388373	73	44760										
LILRA5	353514	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	54822787	54822787	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	cacctgtggctgggggtcacAgggcccacagggaacagggc	17	12	1	0			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr19:54822787A>C	ENST00000301219.3	-	5	728	c.609T>G	c.(607-609)ccT>ccG	p.P203P	AC008984.2_ENST00000507363.1_RNA|LILRA5_ENST00000432233.3_Silent_p.P203P|LILRA5_ENST00000346508.3_Silent_p.P191P|LILRA5_ENST00000446712.3_Silent_p.P191P	NM_021250.2	NP_067073.1	A6NI73	LIRA5_HUMAN	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 5	203	Ig-like C2-type 2.				innate immune response (GO:0045087)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				breast(1)|endometrium(2)|large_intestine(4)|lung(6)|ovary(1)|prostate(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	20	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TGGGGGTCACAGGGCCCACAG	0.592																																																0													54	56	55					19																	54822787		2203	4300	6503	SO:0001819	synonymous_variant	353514			AF212842	CCDS12888.1, CCDS12889.1	19q13.4	2013-01-11	2005-05-13	2005-05-13	ENSG00000187116	ENSG00000187116		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	16309	protein-coding gene	gene with protein product		606047		LILRB7		10941842	Standard	NM_181986		Approved	ILT11, LIR9, CD85, CD85f	uc002qfe.3	A6NI73	OTTHUMG00000065357	ENST00000301219.3:c.609T>G	19.37:g.54822787A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NHI3	Silent	SNP	ENST00000301219.3	37	CCDS12888.1																																																																																				0.592	LILRA5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140231.1	NM_181985		C	54822787	A	C	54822787	2	2	689	1	0	0	0	0	0	0	0	1	8795	175	7	5		5	LILRA5	19	54822787	Silent	SNP	A	TCGA-KV-A6GE-01A-11D-A31X-10	1082177	54822787	4306196	74	44761										
ZNF814	730051	hgsc.bcm.edu	37	chr19	58385790	58385790	+	Missense_Mutation	SNP	G	G	T													0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	cacattctccacattcataaGgtcttttcccagtgtgaact					rs111727691		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr19:58385790G>T	ENST00000435989.2	-	3	1202	c.968C>A	c.(967-969)cCt>cAt	p.P323H	ZNF814_ENST00000595295.1_Intron|ZNF814_ENST00000597342.1_Intron|ZNF814_ENST00000596604.1_Intron|ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000597832.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	323					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						ACATTCATAAGGTCTTTTCCC	0.358																																																0													15	12	13					19																	58385790		688	1563	2251	SO:0001583	missense	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.968C>A	19.37:g.58385790G>T	ENSP00000410545:p.Pro323His	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF35	Missense_Mutation	SNP	ENST00000435989.2	37	CCDS46212.1	.	.	.	.	.	.	.	.	.	.	.	8.139	0.784825	0.16189	.	.	ENSG00000204514	ENST00000435989	T	0.29397	1.57	2.27	1.18	0.20946	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.57080	0.2029	M	0.90019	3.08	0.20764	N	0.999853	D	0.89917	1.0	D	0.67231	0.95	T	0.46247	-0.9205	9	0.66056	D	0.02	.	9.258	0.37595	0.0:0.0:0.7811:0.2189	.	323	B7Z6K7	ZN814_HUMAN	H	323	ENSP00000410545:P323H	ENSP00000410545:P323H	P	-	2	0	ZNF814	63077602	0.000000	0.05858	0.028000	0.17463	0.016000	0.09150	-0.439000	0.06897	0.330000	0.23485	-1.407000	0.01130	CCT		0.358	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		T	58385790	G	T	58385790	3	4	689	1	0	0	0	0	1	0	0	0	18188	1000	35	4	1603	4	ZNF814	19	58385790	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	3563003	58385790	743193	75	44762	483	3								
ZNF814	730051	hgsc.bcm.edu	37	chr19	58385793	58385793	+	Missense_Mutation	SNP	C	C	T													0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	attctccacattcataaggtCttttcccagtgtgaactctc					rs113623532		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr19:58385793C>T	ENST00000435989.2	-	3	1199	c.965G>A	c.(964-966)aGa>aAa	p.R322K	ZNF814_ENST00000595295.1_Intron|ZNF814_ENST00000597342.1_Intron|ZNF814_ENST00000596604.1_Intron|ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000597832.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	322					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						TTCATAAGGTCTTTTCCCAGT	0.358																																																0													15	12	13					19																	58385793		687	1562	2249	SO:0001583	missense	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.965G>A	19.37:g.58385793C>T	ENSP00000410545:p.Arg322Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF35	Missense_Mutation	SNP	ENST00000435989.2	37	CCDS46212.1	.	.	.	.	.	.	.	.	.	.	.	0.023	-1.395361	0.01175	.	.	ENSG00000204514	ENST00000435989	T	0.12361	2.69	2.27	9.47E-4	0.14044	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.03608	0.0103	N	0.02225	-0.63	0.09310	N	0.999999	B	0.29301	0.241	B	0.28916	0.096	T	0.40534	-0.9558	9	0.02654	T	1	.	4.6969	0.12808	0.0:0.4166:0.0:0.5834	.	322	B7Z6K7	ZN814_HUMAN	K	322	ENSP00000410545:R322K	ENSP00000410545:R322K	R	-	2	0	ZNF814	63077605	0.000000	0.05858	0.024000	0.17045	0.009000	0.06853	-1.883000	0.01623	0.331000	0.23511	-1.381000	0.01174	AGA		0.358	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		T	58385793	C	T	58385793	3	4	689	1	0	0	0	0	1	0	0	0	18188	913	32	2	1606	2	ZNF814	19	58385793	Missense_Mutation	SNP	C	TCGA-KV-A6GE-01A-11D-A31X-10	3	58385793	743190	76	44763	483	3								
ZNF814	730051	hgsc.bcm.edu	37	chr19	58385798	58385799	+	Missense_Mutation	DNP	CC	CC	TT													0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ccacattcataaggtcttttCccagtgtgaactctctgatg							TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr19:58385798_58385799CC>TT	ENST00000435989.2	-	3	1193_1194	c.959_960GG>AA	c.(958-960)gGG>gAA	p.G320E	ZNF814_ENST00000595295.1_Intron|ZNF814_ENST00000597342.1_Intron|ZNF814_ENST00000596604.1_Intron|ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000597832.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	320					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)	p.G320E(1)|p.G320G(1)		NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						AAGGTCTTTTCCCAGTGTGAAC	0.356																																																2	Substitution - Missense(1)|Substitution - coding silent(1)	central_nervous_system(2)																																								SO:0001583	missense	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.959_960delinsTT	19.37:g.58385798_58385799delinsTT	ENSP00000410545:p.Gly320Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NF35	Missense_Mutation	DNP	ENST00000435989.2	37	CCDS46212.1																																																																																				0.356	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		TT	58385799	CC	TT	58385798	3	4	689	1	0	0	0	0	1	0	0	0	18188	842	30	2	1611	2	ZNF814	19	58385798	Missense_Mutation	DNP	CC	TCGA-KV-A6GE-01A-11D-A31X-10	5	58385798	743185	77	44764	483	3								
ZNF814	730051	bcgsc.ca	37	chr19	58385873	58385873	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ccacattctccacattcatgTtttttttcagtgtgaactct	4	11	4	1	rs397978905	byFrequency	TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr19:58385873T>C	ENST00000435989.2	-	3	1119	c.885A>G	c.(883-885)aaA>aaG	p.K295K	ZNF814_ENST00000595295.1_Intron|ZNF814_ENST00000597342.1_Intron|ZNF814_ENST00000596604.1_Intron|ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000597832.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	295					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						CACATTCATGTTTTTTTTCAG	0.358																																																0													17	13	14					19																	58385873		687	1561	2248	SO:0001819	synonymous_variant	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.885A>G	19.37:g.58385873T>C		Somatic		WXS	Illumina HiSeq	Phase_1	A6NF35	Silent	SNP	ENST00000435989.2	37	CCDS46212.1																																																																																				0.358	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		C	58385873	T	C	58385873	2	2	689	1	0	0	0	0	0	0	0	1	18188	1722	60	3		3	ZNF814	19	58385873	Silent	SNP	T	TCGA-KV-A6GE-01A-11D-A31X-10	75	58385873	743110	78	44765										
AHCY	191	broad.mit.edu	37	chr20	32873357	32873357	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ctcatcacgaagctggggtgGcccatggcacaacccaggtt	12	13	2	0			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr20:32873357G>T	ENST00000217426.2	-	9	1133	c.1056C>A	c.(1054-1056)ggC>ggA	p.G352G	CTD-3216D2.5_ENST00000609218.1_RNA|AHCY_ENST00000538132.1_Silent_p.G324G	NM_000687.2	NP_000678.1	P23526	SAHH_HUMAN	adenosylhomocysteinase	352					cellular nitrogen compound metabolic process (GO:0034641)|chronic inflammatory response to antigenic stimulus (GO:0002439)|circadian sleep/wake cycle (GO:0042745)|homocysteine biosynthetic process (GO:0071268)|methylation (GO:0032259)|one-carbon metabolic process (GO:0006730)|response to hypoxia (GO:0001666)|response to nutrient (GO:0007584)|S-adenosylhomocysteine catabolic process (GO:0019510)|small molecule metabolic process (GO:0044281)|sulfur amino acid metabolic process (GO:0000096)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|neuron projection (GO:0043005)|nucleus (GO:0005634)	adenosylhomocysteinase activity (GO:0004013)|adenyl nucleotide binding (GO:0030554)|NAD binding (GO:0051287)			endometrium(6)|large_intestine(4)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	19						AGCTGGGGTGGCCCATGGCAC	0.607																																																0													81	69	73					20																	32873357		2203	4300	6503	SO:0001819	synonymous_variant	191			M61832	CCDS13233.1, CCDS54457.1	20q11.22	2009-06-12	2009-06-12		ENSG00000101444	ENSG00000101444	3.3.1.1		343	protein-coding gene	gene with protein product		180960	"S-adenosylhomocysteine hydrolase"			7079734, 6580258	Standard	NM_001161766		Approved	SAHH	uc002xai.3	P23526	OTTHUMG00000140098	ENST00000217426.2:c.1056C>A	20.37:g.32873357G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K307|B3KUN3|E1P5P2|F5H737|Q96A36	Silent	SNP	ENST00000217426.2	37	CCDS13233.1																																																																																				0.607	AHCY-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078773.2	NM_000687		T	32873357	G	T	32873357	2	4	689	1	0	0	0	0	0	0	0	1	409	1190	42	4		4	AHCY	20	32873357	Silent	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10		32873357	30152163	79	44766										
C20orf132	140699	broad.mit.edu;bcgsc.ca	37	chr20	35772168	35772168	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	aagcatttagcggcagagctGtggagctccaggaattctcg	13	9	1	1			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr20:35772168G>A	ENST00000400441.3	-	11	1286	c.1287C>T	c.(1285-1287)caC>caT	p.H429H	MROH8_ENST00000217333.8_Silent_p.H309H|MROH8_ENST00000441008.2_Silent_p.H415H			Q9H579	MROH8_HUMAN	maestro heat-like repeat family member 8	314																	CGGCAGAGCTGTGGAGCTCCA	0.383																																																0													64	59	61					20																	35772168		1841	4088	5929	SO:0001819	synonymous_variant	140699			AL136172		20q11.22	2012-12-19	2012-12-19	2012-12-19	ENSG00000101353	ENSG00000101353		"maestro heat-like repeat containing"	16125	protein-coding gene	gene with protein product	"hypothetical protein LOC140699"		"chromosome 20 open reading frame 131", "chromosome 20 open reading frame 132"	C20orf131, C20orf132		11780052, 15635413	Standard	NM_152503		Approved	dJ621N11.4, dJ621N11.3	uc010zvu.2	Q9H579	OTTHUMG00000032407	ENST00000400441.3:c.1287C>T	20.37:g.35772168G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JYQ6	Silent	SNP	ENST00000400441.3	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	0.008|0.008	-1.910082|-1.910082	0.00508|0.00508	.|.	.|.	ENSG00000101353|ENSG00000101353	ENST00000417458;ENST00000421643|ENST00000343811;ENST00000400440	.|.	.|.	.|.	5.19|5.19	-0.111|-0.111	0.13576|0.13576	.|.	.|.	.|.	.|.	.|.	.|T	.|0.31575	.|0.0801	.|.	.|.	.|.	0.09310|0.09310	N|N	1|1	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.29305	.|-1.0016	.|4	.|.	.|.	.|.	-0.5771|-0.5771	7.5762|7.5762	0.27937|0.27937	0.4617:0.0:0.5383:0.0|0.4617:0.0:0.5383:0.0	.|.	.|.	.|.	.|.	X|I	108;431|456;460	.|.	.|.	Q|T	-|-	1|2	0|0	C20orf132|C20orf132	35205582|35205582	0.001000|0.001000	0.12720|0.12720	0.000000|0.000000	0.03702|0.03702	0.000000|0.000000	0.00434|0.00434	0.368000|0.368000	0.20399|0.20399	-0.051000|-0.051000	0.13334|0.13334	-0.768000|-0.768000	0.03414|0.03414	CAG|ACA		0.383	MROH8-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_152503		A	35772168	G	A	35772168	2	1	689	1	0	0	0	0	0	0	0	1	2088	1368	48	2		2	C20orf132	20	35772168	Silent	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10	2898811	35772168	27253352	80	44767										
TRAPPC10	7109	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	45502876	45502876	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	ctaccggaagactgcggagtGgcttaccaagcacaagacgt	12	11	0	2			TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr21:45502876G>A	ENST00000291574.4	+	14	2106	c.1931G>A	c.(1930-1932)tGg>tAg	p.W644*		NM_003274.4	NP_003265.3	P48553	TPC10_HUMAN	trafficking protein particle complex 10	644					sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)|vesicle-mediated transport (GO:0016192)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	sodium ion transmembrane transporter activity (GO:0015081)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(10)|lung(8)|ovary(1)|prostate(2)|skin(2)|urinary_tract(4)	41						ACTGCGGAGTGGCTTACCAAG	0.512																																																0													162	150	154					21																	45502876		2203	4300	6503	SO:0001587	stop_gained	7109			U19252	CCDS13704.1	21q22.3	2008-05-07	2008-05-07	2008-05-07	ENSG00000160218	ENSG00000160218		"Trafficking protein particle complex"	11868	protein-coding gene	gene with protein product	"trafficking protein particle complex subunit 130", "TRAPP 130 kDa subunit"	602103	"transmembrane protein 1"	TMEM1		7633421	Standard	NM_003274		Approved	EHOC-1, TRS130	uc002zea.3	P48553	OTTHUMG00000086894	ENST00000291574.4:c.1931G>A	21.37:g.45502876G>A	ENSP00000291574:p.Trp644*	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MIR2|Q86SI7|Q9UMD4|Q9Y4L3	Nonsense_Mutation	SNP	ENST00000291574.4	37	CCDS13704.1	.	.	.	.	.	.	.	.	.	.	G	38	7.254018	0.98168	.	.	ENSG00000160218	ENST00000291574	.	.	.	5.58	5.58	0.84498	.	0.000000	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.27785	T	0.31	.	19.1791	0.93615	0.0:0.0:1.0:0.0	.	.	.	.	X	644	.	ENSP00000291574:W644X	W	+	2	0	TRAPPC10	44327304	1.000000	0.71417	1.000000	0.80357	0.888000	0.51559	5.397000	0.66302	2.622000	0.88805	0.655000	0.94253	TGG		0.512	TRAPPC10-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000195737.1	NM_003274		A	45502876	G	A	45502876	4	1	689	1	0	0	0	0	0	1	0	0	16469	1357	47	2	1985	2	TRAPPC10	21	45502876	Nonsense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10		45502876	2627019	81	44768										
CELSR1	9620	broad.mit.edu	37	chr22	46763676	46763676	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0126582278481013	1	1	0.324710424710425	0	0.413267813267813	1	1	0	gtgaaagctcagtgcatcgcGgttcacagccagcagcccca	11	14	2	1	rs367719288		TCGA-KV-A6GE-01A-11D-A31X-10	TCGA-KV-A6GE-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	aff18e57-af36-44a3-8a58-5c8633a7ae20	24f06120-19b5-449d-88bf-45b846e314f7	g.chr22:46763676G>T	ENST00000262738.3	-	28	8028	c.8029C>A	c.(8029-8031)Cgc>Agc	p.R2677S		NM_014246.1	NP_055061.1	Q9NYQ6	CELR1_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 1	2677					anterior/posterior pattern specification (GO:0009952)|apical protein localization (GO:0045176)|central nervous system development (GO:0007417)|establishment of body hair planar orientation (GO:0048105)|establishment of planar polarity (GO:0001736)|establishment of planar polarity of embryonic epithelium (GO:0042249)|G-protein coupled receptor signaling pathway (GO:0007186)|hair follicle development (GO:0001942)|homophilic cell adhesion (GO:0007156)|inner ear morphogenesis (GO:0042472)|lateral sprouting involved in lung morphogenesis (GO:0060490)|locomotory behavior (GO:0007626)|neural tube closure (GO:0001843)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|orthogonal dichotomous subdivision of terminal units involved in lung branching morphogenesis (GO:0060488)|planar cell polarity pathway involved in neural tube closure (GO:0090179)|planar dichotomous subdivision of terminal units involved in lung branching morphogenesis (GO:0060489)|protein localization involved in establishment of planar polarity (GO:0090251)|regulation of actin cytoskeleton organization (GO:0032956)|Rho protein signal transduction (GO:0007266)|wound healing (GO:0042060)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)|protein dimerization activity (GO:0046983)|transmembrane signaling receptor activity (GO:0004888)			breast(8)|central_nervous_system(5)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(5)|kidney(4)|large_intestine(13)|lung(27)|ovary(2)|pancreas(2)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(3)	95		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)		AGTGCATCGCGGTTCACAGCC	0.657											OREG0026655	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													41	36	38					22																	46763676		2198	4298	6496	SO:0001583	missense	9620			AF231024	CCDS14076.1	22q13.31	2014-08-08	2013-02-18		ENSG00000075275	ENSG00000075275		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	1850	protein-coding gene	gene with protein product	"flamingo homolog 2 (Drosophila)"	604523	"cadherin, EGF LAG seven-pass G-type receptor 1, flamingo (Drosophila) homolog"			9339365	Standard	XM_006724383		Approved	ME2, HFMI2, FMI2, CDHF9	uc003bhw.1	Q9NYQ6	OTTHUMG00000150423	ENST00000262738.3:c.8029C>A	22.37:g.46763676G>T	ENSP00000262738:p.Arg2677Ser	Somatic	941	WXS	Illumina HiSeq	Phase_I	O95722|Q5TH47|Q9BWQ5|Q9Y506|Q9Y526	Missense_Mutation	SNP	ENST00000262738.3	37	CCDS14076.1	.	.	.	.	.	.	.	.	.	.	g	0.561	-0.845056	0.02671	.	.	ENSG00000075275	ENST00000262738	T	0.36520	1.25	4.94	-4.58	0.03410	GPCR, family 2-like (1);	0.067050	0.64402	N	0.000020	T	0.06371	0.0164	N	0.00332	-1.63	0.80722	D	1	B	0.11235	0.004	B	0.12156	0.007	T	0.33828	-0.9853	10	0.09084	T	0.74	.	6.9268	0.24419	0.0:0.3515:0.2591:0.3894	.	2677	Q9NYQ6	CELR1_HUMAN	S	2677	ENSP00000262738:R2677S	ENSP00000262738:R2677S	R	-	1	0	CELSR1	45142340	0.862000	0.29867	0.221000	0.23827	0.298000	0.27526	0.959000	0.29240	-1.070000	0.03149	-0.546000	0.04227	CGC		0.657	CELSR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318037.1	NM_014246		T	46763676	G	T	46763676	3	4	689	1	0	0	0	0	1	0	0	0	3223	1116	39	4	1047	4	CELSR1	22	46763676	Missense_Mutation	SNP	G	TCGA-KV-A6GE-01A-11D-A31X-10		46763676	4540890	82	44769										
UBR4	23352	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	19482811	19482811	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ctaactcggtctgtgaaccaGgtaaccacacggctttgatg	10	11	1	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr1:19482811G>A	ENST00000375254.3	-	42	6053	c.6026C>T	c.(6025-6027)cCt>cTt	p.P2009L	UBR4_ENST00000375267.2_Missense_Mutation_p.P2009L|UBR4_ENST00000375217.2_Missense_Mutation_p.P2009L|UBR4_ENST00000375226.2_Missense_Mutation_p.P2009L	NM_020765.2	NP_065816.2	Q5T4S7	UBR4_HUMAN	ubiquitin protein ligase E3 component n-recognin 4	2009					protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|viral process (GO:0016032)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(7)|central_nervous_system(1)|cervix(2)|endometrium(23)|kidney(25)|large_intestine(25)|liver(2)|lung(47)|ovary(10)|pancreas(2)|prostate(7)|skin(5)|stomach(5)|upper_aerodigestive_tract(4)|urinary_tract(6)	171		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CTGTGAACCAGGTAACCACAC	0.438																																																0													139	122	128					1																	19482811		2203	4300	6503	SO:0001583	missense	23352			AF348492	CCDS189.1	1p36.13	2008-06-23	2007-06-19	2007-06-19	ENSG00000127481	ENSG00000127481		"Ubiquitin protein ligase E3 component n-recognins"	30313	protein-coding gene	gene with protein product		609890	"zinc finger, UBR1 type 1"	ZUBR1		14702039, 10718198, 16055722	Standard	XM_005245802		Approved	KIAA1307, KIAA0462, RBAF600	uc001bbi.3	Q5T4S7	OTTHUMG00000002498	ENST00000375254.3:c.6026C>T	1.37:g.19482811G>A	ENSP00000364403:p.Pro2009Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8MPT2|A8MQ33|A8MQB1|O60646|O75050|Q4QRK5|Q5T4S8|Q5T4S9|Q5TBN8|Q5TBP2|Q6DKH8|Q6P4A4|Q7L8P7|Q8IXJ4|Q8TDN5|Q8WV67|Q9HA46|Q9P2N9|Q9UG82	Missense_Mutation	SNP	ENST00000375254.3	37	CCDS189.1	.	.	.	.	.	.	.	.	.	.	G	34	5.380190	0.95945	.	.	ENSG00000127481	ENST00000375254;ENST00000375267;ENST00000375217;ENST00000375226;ENST00000417040;ENST00000419533	T;T;T;T;T	0.27720	1.65;1.65;1.65;1.65;2.69	5.41	5.41	0.78517	.	0.000000	0.85682	D	0.000000	T	0.63402	0.2508	M	0.87827	2.91	0.80722	D	1	D	0.71674	0.998	D	0.76071	0.987	T	0.68800	-0.5313	10	0.87932	D	0	.	19.3843	0.94550	0.0:0.0:1.0:0.0	.	2009	Q5T4S7	UBR4_HUMAN	L	2009;2009;2009;2009;719;1225	ENSP00000364403:P2009L;ENSP00000364416:P2009L;ENSP00000364365:P2009L;ENSP00000364374:P2009L;ENSP00000404897:P719L	ENSP00000364365:P2009L	P	-	2	0	UBR4	19355398	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	8.969000	0.93411	2.814000	0.96858	0.591000	0.81541	CCT		0.438	UBR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000007085.1	NM_020765		A	19482811	G	A	19482811	3	1	690	1	0	0	0	0	1	0	0	0	16916	1000	35	2	9785	2	UBR4	1	19482811	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10		19482811	229767810	1	44770										
ADPRHL2	54936	broad.mit.edu	37	chr1	36557328	36557328	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gcgatgtctttgagcctgccCgggcccagtttaacgggaaa	13	11	1	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr1:36557328C>T	ENST00000373178.4	+	3	448	c.418C>T	c.(418-420)Cgg>Tgg	p.R140W		NM_017825.2	NP_060295.1	Q9NX46	ARHL2_HUMAN	ADP-ribosylhydrolase like 2	140						mitochondrion (GO:0005739)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|poly(ADP-ribose) glycohydrolase activity (GO:0004649)			cervix(1)|endometrium(2)|large_intestine(1)|lung(3)|pancreas(1)	8		Myeloproliferative disorder(586;0.0393)				TGAGCCTGCCCGGGCCCAGTT	0.562																																																0													78	82	81					1																	36557328		2203	4300	6503	SO:0001583	missense	54936			AJ427295	CCDS402.1	1p34.3	2008-02-05			ENSG00000116863	ENSG00000116863			21304	protein-coding gene	gene with protein product		610624				12070318, 16278211	Standard	NM_017825		Approved	ARH3, FLJ20446	uc001bzt.3	Q9NX46	OTTHUMG00000007628	ENST00000373178.4:c.418C>T	1.37:g.36557328C>T	ENSP00000362273:p.Arg140Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q53G94|Q6IAB8|Q9BY47	Missense_Mutation	SNP	ENST00000373178.4	37	CCDS402.1	.	.	.	.	.	.	.	.	.	.	C	18.81	3.703805	0.68501	.	.	ENSG00000116863	ENST00000373178;ENST00000540867	T	0.31247	1.5	5.35	3.38	0.38709	.	0.105277	0.64402	D	0.000009	T	0.52306	0.1726	M	0.71296	2.17	0.33910	D	0.639556	D	0.89917	1.0	D	0.75484	0.986	T	0.65158	-0.6236	10	0.46703	T	0.11	-17.9963	13.2367	0.59972	0.5987:0.4013:0.0:0.0	.	140	Q9NX46	ARHL2_HUMAN	W	140;60	ENSP00000362273:R140W	ENSP00000362273:R140W	R	+	1	2	ADPRHL2	36329915	0.841000	0.29509	0.996000	0.52242	0.970000	0.65996	1.654000	0.37334	0.544000	0.28883	0.563000	0.77884	CGG		0.562	ADPRHL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000020199.1	NM_017825		T	36557328	C	T	36557328	3	4	690	1	0	0	0	0	1	0	0	0	333	643	23	1	428	1	ADPRHL2	1	36557328	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	17074517	36557328	212693293	2	44771										
STK40	83931	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	36820910	36820910	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	cgtagtgctgcaggttgatgAggtcagcggtcttatcgctg	15	8	2	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr1:36820910A>T	ENST00000373129.3	-	6	873	c.467T>A	c.(466-468)cTc>cAc	p.L156H	STK40_ENST00000359297.2_Missense_Mutation_p.L156H|STK40_ENST00000482458.1_5'UTR|STK40_ENST00000373130.3_Missense_Mutation_p.L161H|STK40_ENST00000373132.3_Missense_Mutation_p.L156H	NM_032017.1	NP_114406.1	Q8N2I9	STK40_HUMAN	serine/threonine kinase 40	156	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				glycogen metabolic process (GO:0005977)|lung alveolus development (GO:0048286)|lung morphogenesis (GO:0060425)|multicellular organism growth (GO:0035264)|negative regulation of apoptotic process (GO:0043066)|regulation of gene expression (GO:0010468)|regulation of MAPK cascade (GO:0043408)|respiratory system process (GO:0003016)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(3)|ovary(1)|skin(1)|stomach(1)	13		Myeloproliferative disorder(586;0.0393)				CAGGTTGATGAGGTCAGCGGT	0.557																																																0													278	239	252					1																	36820910		2203	4300	6503	SO:0001583	missense	83931			BC008344	CCDS407.1, CCDS60089.1	1p34.3	2008-02-05			ENSG00000196182	ENSG00000196182			21373	protein-coding gene	gene with protein product		609437					Standard	NM_032017		Approved	MGC4796, SgK495	uc001cak.1	Q8N2I9	OTTHUMG00000008238	ENST00000373129.3:c.467T>A	1.37:g.36820910A>T	ENSP00000362221:p.Leu156His	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPS8|Q5VTK8|Q5VTK9|Q6ZMN1|Q8N2J8|Q8N3I6|Q96HN6|Q96I44|Q9BSA3|Q9H7H6	Missense_Mutation	SNP	ENST00000373129.3	37	CCDS407.1	.	.	.	.	.	.	.	.	.	.	A	29.4	5.006207	0.93287	.	.	ENSG00000196182	ENST00000373129;ENST00000359297;ENST00000373130;ENST00000373132	T;T;T;T	0.69175	-0.38;1.96;1.96;-0.38	5.91	5.91	0.95273	Serine/threonine-protein kinase-like domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.064019	0.64402	D	0.000004	D	0.87200	0.6118	H	0.95043	3.615	0.80722	D	1	D;D;D	0.89917	1.0;0.999;1.0	D;D;D	0.91635	0.999;0.958;0.975	D	0.90870	0.4745	10	0.87932	D	0	-15.2233	15.5237	0.75885	1.0:0.0:0.0:0.0	.	156;161;156	Q8N2I9-3;Q8N2I9-4;Q8N2I9	.;.;STK40_HUMAN	H	156;156;161;156	ENSP00000362221:L156H;ENSP00000352245:L156H;ENSP00000362222:L161H;ENSP00000362224:L156H	ENSP00000352245:L156H	L	-	2	0	STK40	36593497	1.000000	0.71417	0.999000	0.59377	0.926000	0.56050	8.857000	0.92250	2.263000	0.75096	0.379000	0.24179	CTC		0.557	STK40-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000022592.1	NM_032017		T	36820910	A	T	36820910	3	4	690	1	0	0	0	0	1	0	0	0	15319	304	11	5	868	5	STK40	1	36820910	Missense_Mutation	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	263582	36820910	212429711	3	44772										
KIAA0754	643314	broad.mit.edu	37	chr1	39880152	39880152	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ggattaaattcagatgaggtAattgtccattttgattctgg	10	4	2	3			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr1:39880152A>T	ENST00000530275.1	+	1	4002	c.3807A>T	c.(3805-3807)gtA>gtT	p.V1269V	MACF1_ENST00000317713.7_Intron|MACF1_ENST00000361689.2_Intron|MACF1_ENST00000545844.1_Intron|MACF1_ENST00000539005.1_Intron|MACF1_ENST00000372915.3_Intron|MACF1_ENST00000567887.1_Intron|MACF1_ENST00000289893.4_Intron|MACF1_ENST00000564288.1_Intron	NM_015038.1	NP_055853.1	O94854	K0754_HUMAN	KIAA0754	1269										central_nervous_system(1)|large_intestine(6)|skin(1)	8	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	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)			CAGATGAGGTAATTGTCCATT	0.443																																																0													78	80	79					1																	39880152		1941	4140	6081	SO:0001819	synonymous_variant	643314					1p34.2	2009-07-09				ENSG00000255103			29111	protein-coding gene	gene with protein product						9872452	Standard	NM_015038		Approved		uc009vvt.1	O94854		ENST00000530275.1:c.3807A>T	1.37:g.39880152A>T		Somatic		WXS	Illumina HiSeq	Phase_I	E9PMC2|Q6ZSB2	Silent	SNP	ENST00000530275.1	37																																																																																					0.443	KIAA0754-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000392100.1	NM_015038		T	39880152	A	T	39880152	2	4	690	1	0	0	0	0	0	0	0	1	8199	349	13	5		5	KIAA0754	1	39880152	Silent	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	3059242	39880152	209370469	4	44773										
HSPB11	51668	broad.mit.edu;bcgsc.ca	37	chr1	54395757	54395757	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ttcaatccttacatgtttgtGgaaacaaataatgaattcct	5	7	1	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr1:54395757G>A	ENST00000194214.5	-	3	549	c.160C>T	c.(160-162)Cac>Tac	p.H54Y	HSPB11_ENST00000489675.1_5'Flank|HSPB11_ENST00000371378.2_Missense_Mutation_p.H54Y|HSPB11_ENST00000371377.3_Missense_Mutation_p.H54Y|HSPB11_ENST00000371376.1_Missense_Mutation_p.H54Y	NM_016126.2	NP_057210.2	Q9Y547	IFT25_HUMAN	heat shock protein family B (small), member 11	54					cell adhesion (GO:0007155)|heart development (GO:0007507)|left/right axis specification (GO:0070986)|lung development (GO:0030324)|protein transport (GO:0015031)|response to stress (GO:0006950)|skeletal system development (GO:0001501)|smoothened signaling pathway (GO:0007224)	centrosome (GO:0005813)|cilium (GO:0005929)|extracellular vesicular exosome (GO:0070062)|intraciliary transport particle B (GO:0030992)	metal ion binding (GO:0046872)			breast(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(3)|prostate(1)|urinary_tract(1)	9						ACATGTTTGTGGAAACAAATA	0.318																																																0													91	86	88					1																	54395757		1801	4066	5867	SO:0001583	missense	51668			AF100747	CCDS41341.1	1p32	2014-02-21	2008-06-24	2008-06-24	ENSG00000081870	ENSG00000081870		"Intraflagellar transport homologs", "Heat shock proteins / HSPB"	25019	protein-coding gene	gene with protein product	"intraflagellar transport 25 homolog (Chlamydomonas)"		"chromosome 1 open reading frame 41"	C1orf41		11042152, 19253336	Standard	NM_016126		Approved	HSPCO34, PP25, IFT25	uc001cwh.3	Q9Y547	OTTHUMG00000008408	ENST00000194214.5:c.160C>T	1.37:g.54395757G>A	ENSP00000194214:p.His54Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NG57|D3DQ45|Q9Y684	Missense_Mutation	SNP	ENST00000194214.5	37	CCDS41341.1	.	.	.	.	.	.	.	.	.	.	G	18.91	3.723851	0.68959	.	.	ENSG00000081870	ENST00000194214;ENST00000371378;ENST00000371377;ENST00000371376	D;D;D;D	0.98192	-4.78;-4.78;-4.78;-4.78	5.96	5.96	0.96718	Coagulation factor 5/8 C-terminal type domain (1);Galactose-binding domain-like (1);	0.284349	0.38959	N	0.001502	D	0.98286	0.9432	L	0.51422	1.61	0.37457	D	0.915078	P;P	0.52463	0.953;0.871	D;P	0.63793	0.918;0.538	D	0.99932	1.1332	10	0.59425	D	0.04	-15.3098	15.9014	0.79380	0.0:0.0:1.0:0.0	.	54;54	A6NIR2;Q9Y547	.;HSB11_HUMAN	Y	54	ENSP00000194214:H54Y;ENSP00000360429:H54Y;ENSP00000360428:H54Y;ENSP00000360427:H54Y	ENSP00000194214:H54Y	H	-	1	0	HSPB11	54168345	1.000000	0.71417	1.000000	0.80357	0.917000	0.54804	3.202000	0.51067	2.833000	0.97629	0.591000	0.81541	CAC		0.318	HSPB11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023114.1	NM_016126		A	54395757	G	A	54395757	3	1	690	1	0	0	0	0	1	0	0	0	7426	1348	47	2	290	2	HSPB11	1	54395757	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	14515605	54395757	194854864	5	44774										
CELSR2	1952	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	109807154	109807154	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	agagcatcaacgtggagcaaGgctgtagcctgcctgaccct	12	12	1	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr1:109807154G>A	ENST00000271332.3	+	11	5429	c.5368G>A	c.(5368-5370)Ggc>Agc	p.G1790S		NM_001408.2	NP_001399.1	Q9HCU4	CELR2_HUMAN	cadherin, EGF LAG seven-pass G-type receptor 2	1790	Laminin G-like 2. {ECO:0000255|PROSITE- ProRule:PRU00122}.				cerebrospinal fluid secretion (GO:0033326)|cilium assembly (GO:0042384)|cilium movement (GO:0003341)|dendrite morphogenesis (GO:0048813)|G-protein coupled receptor signaling pathway (GO:0007186)|homophilic cell adhesion (GO:0007156)|neural plate anterior/posterior regionalization (GO:0021999)|neuron migration (GO:0001764)|neuropeptide signaling pathway (GO:0007218)|regulation of cell-cell adhesion (GO:0022407)|regulation of protein localization (GO:0032880)|regulation of transcription, DNA-templated (GO:0006355)|ventricular system development (GO:0021591)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|cervix(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(14)|lung(27)|ovary(5)|prostate(1)|skin(3)|urinary_tract(2)	82		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)		CGTGGAGCAAGGCTGTAGCCT	0.587																																					NSCLC(158;1285 2011 34800 34852 42084)											0													190	170	177					1																	109807154		2203	4300	6503	SO:0001583	missense	1952			D87469	CCDS796.1	1p13.3	2014-08-08	2013-02-18		ENSG00000143126	ENSG00000143126		"Cadherins / Major cadherins", "-", "GPCR / Class B : Orphans"	3231	protein-coding gene	gene with protein product		604265	"cadherin, EGF LAG seven-pass G-type receptor 2, flamingo (Drosophila) homolog"	EGFL2		9693030, 10907856	Standard	NM_001408		Approved	KIAA0279, MEGF3, Flamingo1, CDHF10	uc001dxa.4	Q9HCU4	OTTHUMG00000012003	ENST00000271332.3:c.5368G>A	1.37:g.109807154G>A	ENSP00000271332:p.Gly1790Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T2Y7|Q92566	Missense_Mutation	SNP	ENST00000271332.3	37	CCDS796.1	.	.	.	.	.	.	.	.	.	.	G	25.5	4.643501	0.87859	.	.	ENSG00000143126	ENST00000271332	D	0.87179	-2.22	4.79	4.79	0.61399	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (1);	.	.	.	.	D	0.93190	0.7831	M	0.82517	2.595	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.93620	0.6947	9	0.62326	D	0.03	.	18.0161	0.89241	0.0:0.0:1.0:0.0	.	1790	Q9HCU4	CELR2_HUMAN	S	1790	ENSP00000271332:G1790S	ENSP00000271332:G1790S	G	+	1	0	CELSR2	109608677	1.000000	0.71417	0.996000	0.52242	0.712000	0.41017	9.202000	0.95026	2.504000	0.84457	0.561000	0.74099	GGC		0.587	CELSR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033200.1	NM_001408		A	109807154	G	A	109807154	3	1	690	1	0	0	0	0	1	0	0	0	3224	1000	35	2	5410	2	CELSR2	1	109807154	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	55411397	109807154	139443467	6	44775										
ADAMTSL4	54507	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	150531493	150531493	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ctctgtggtctgccttgggaGtggggcagccctcgggccag	17	12	2	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr1:150531493G>T	ENST00000369038.2	+	14	2816	c.2615G>T	c.(2614-2616)aGt>aTt	p.S872I	ADAMTSL4_ENST00000369039.5_Missense_Mutation_p.S895I|RP11-54A4.2_ENST00000442435.2_RNA|ADAMTSL4_ENST00000271643.4_Missense_Mutation_p.S872I			Q6UY14	ATL4_HUMAN	ADAMTS-like 4	872	TSP type-1 4. {ECO:0000255|PROSITE- ProRule:PRU00210}.				apoptotic process (GO:0006915)|extracellular matrix organization (GO:0030198)|positive regulation of apoptotic process (GO:0043065)	interstitial matrix (GO:0005614)	metalloendopeptidase activity (GO:0004222)|protease binding (GO:0002020)			breast(1)|cervix(1)|endometrium(6)|large_intestine(3)|lung(13)|ovary(2)|prostate(3)|skin(3)	32	all_cancers(9;3.13e-53)|all_epithelial(9;3.74e-43)|all_lung(15;2.43e-34)|Lung NSC(24;8.86e-31)|Breast(34;0.000326)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0241)|Epithelial(6;3.18e-23)|all cancers(9;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(6;1.13e-14)|BRCA - Breast invasive adenocarcinoma(12;0.000503)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			TGCCTTGGGAGTGGGGCAGCC	0.692																																																0													15	19	18					1																	150531493		2201	4296	6497	SO:0001583	missense	54507			BC027478	CCDS955.1, CCDS30852.1, CCDS72908.1	1q21.2	2008-02-05	2005-12-01	2005-12-01	ENSG00000143382	ENSG00000143382			19706	protein-coding gene	gene with protein product		610113	"thrombospondin repeat containing 1"	TSRC1		12706885	Standard	NM_019032		Approved	DKFZP434K1772	uc001eux.3	Q6UY14	OTTHUMG00000034863	ENST00000369038.2:c.2615G>T	1.37:g.150531493G>T	ENSP00000358034:p.Ser872Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTT0|F8WAD0|Q5T5F7|Q6IPM6|Q8N643|Q9HBS6	Missense_Mutation	SNP	ENST00000369038.2	37	CCDS955.1	.	.	.	.	.	.	.	.	.	.	G	18.00	3.525215	0.64747	.	.	ENSG00000143382	ENST00000271643;ENST00000407995;ENST00000369039;ENST00000369038	T;T;T	0.60797	0.16;0.16;0.16	5.63	5.63	0.86233	.	.	.	.	.	T	0.66973	0.2844	L	0.53617	1.68	0.46564	D	0.999104	D;D;D	0.89917	1.0;0.998;0.999	D;D;D	0.74674	0.981;0.984;0.973	T	0.68315	-0.5441	9	0.62326	D	0.03	.	17.1708	0.86830	0.0:0.0:1.0:0.0	.	833;895;872	B7ZMJ3;F8WAD0;Q6UY14	.;.;ATL4_HUMAN	I	872;410;895;872	ENSP00000271643:S872I;ENSP00000358035:S895I;ENSP00000358034:S872I	ENSP00000271643:S872I	S	+	2	0	ADAMTSL4	148798117	0.765000	0.28485	0.987000	0.45799	0.293000	0.27360	2.637000	0.46553	2.655000	0.90218	0.462000	0.41574	AGT		0.692	ADAMTSL4-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084395.4	NM_019032		T	150531493	G	T	150531493	3	4	690	1	0	0	0	0	1	0	0	0	277	1029	36	4	2744	4	ADAMTSL4	1	150531493	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	40724339	150531493	98719128	7	44776										
TCHHL1	126637	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	152059687	152059687	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ttggcttctctccatgggtcCactctgttatttccaactgc	7	13	2	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr1:152059687C>T	ENST00000368806.1	-	3	535	c.471G>A	c.(469-471)gtG>gtA	p.V157V		NM_001008536.1	NP_001008536.1	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	157							calcium ion binding (GO:0005509)			breast(4)|endometrium(1)|kidney(2)|large_intestine(9)|lung(33)|ovary(2)|prostate(1)|skin(7)|stomach(1)	60	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			TCCATGGGTCCACTCTGTTAT	0.453																																																0													131	118	122					1																	152059687		2203	4300	6503	SO:0001819	synonymous_variant	126637				CCDS30857.1	1q21.3	2011-10-11	2004-10-05	2006-01-27	ENSG00000182898	ENSG00000182898		"S100 calcium binding proteins"	31796	protein-coding gene	gene with protein product			"S100 calcium binding protein A17"	S100A17, THHL1			Standard	NM_001008536		Approved		uc001ezo.1	Q5QJ38	OTTHUMG00000013058	ENST00000368806.1:c.471G>A	1.37:g.152059687C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RPK8|Q5VTJ9	Silent	SNP	ENST00000368806.1	37	CCDS30857.1																																																																																				0.453	TCHHL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000036638.2	XM_060104		T	152059687	C	T	152059687	2	4	690	1	0	0	0	0	0	0	0	1	15713	581	21	2		2	TCHHL1	1	152059687	Silent	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	1528194	152059687	97190934	8	44777										
KCNN3	3782	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	154744543	154744543	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gggcagatggtcatgagcgtCttcatgacaaagcgggtgtt	15	7	3	3			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr1:154744543C>T	ENST00000271915.4	-	3	1671	c.1356G>A	c.(1354-1356)aaG>aaA	p.K452K	KCNN3_ENST00000361147.4_Silent_p.K147K|KCNN3_ENST00000358505.2_Silent_p.K139K	NM_001204087.1|NM_002249.5	NP_001191016.1|NP_002240.3	Q9UGI6	KCNN3_HUMAN	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 3	457					potassium ion transmembrane transport (GO:0071805)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	calmodulin binding (GO:0005516)|small conductance calcium-activated potassium channel activity (GO:0016286)			cervix(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(11)|prostate(4)|skin(1)	28	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)		Miconazole(DB01110)|Procaine(DB00721)	TCATGAGCGTCTTCATGACAA	0.562																																																0													141	105	117					1																	154744543		2203	4300	6503	SO:0001819	synonymous_variant	3782			AF031815	CCDS1072.1, CCDS30880.1, CCDS72928.1	1q21.3	2012-07-05			ENSG00000143603	ENSG00000143603		"Potassium channels", "Voltage-gated ion channels / Potassium channels, calcium-activated"	6292	protein-coding gene	gene with protein product		602983				9491810, 16382103	Standard	NM_002249		Approved	KCa2.3, hSK3, SKCA3	uc021pah.1	Q9UGI6	OTTHUMG00000037260	ENST00000271915.4:c.1356G>A	1.37:g.154744543C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B1ANX0|O43517|Q86VF9|Q8WXG7	Silent	SNP	ENST00000271915.4	37	CCDS30880.1																																																																																				0.562	KCNN3-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090688.3	NM_002249		T	154744543	C	T	154744543	2	4	690	1	0	0	0	0	0	0	0	1	8087	912	32	2		2	KCNN3	1	154744543	Silent	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	2684856	154744543	94506078	9	44778										
ROBLD3	28956	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	156027791	156027791	+	Frame_Shift_Del	DEL	G	G	-													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gggccgtgtagccatcacccGagtggccaaccttctgctgt							TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr1:156027791delG	ENST00000368305.4	+	3	392	c.254delG	c.(253-255)cgafs	p.R85fs	LAMTOR2_ENST00000368302.3_Frame_Shift_Del_p.R85fs|LAMTOR2_ENST00000368304.5_Intron	NM_014017.3	NP_054736.1	Q9Y2Q5	LTOR2_HUMAN	late endosomal/lysosomal adaptor, MAPK and MTOR activator 2	85					activation of MAPKK activity (GO:0000186)|cell growth (GO:0016049)|cellular protein localization (GO:0034613)|cellular response to amino acid stimulus (GO:0071230)|positive regulation of GTPase activity (GO:0043547)|positive regulation of TOR signaling (GO:0032008)	extracellular vesicular exosome (GO:0070062)|late endosome (GO:0005770)|lysosomal membrane (GO:0005765)|Ragulator complex (GO:0071986)				breast(1)|cervix(1)|kidney(1)|large_intestine(1)|lung(2)|skin(1)	7						GCCATCACCCGAGTGGCCAAC	0.577																																																0													205	152	170					1																	156027791		2203	4300	6503	SO:0001589	frameshift_variant	28956			BC024190	CCDS1128.1, CCDS44243.1	1q22	2014-09-17	2011-02-15	2011-02-15	ENSG00000116586	ENSG00000116586			29796	protein-coding gene	gene with protein product	"mitogen activated protein binding protein interacting protein", "MAPKSP1 adaptor protein", "endosomal adaptor protein"	610389	"roadblock domain containing 3"	ROBLD3		11042152	Standard	NM_014017		Approved	MAPBPIP, MAPKSP1AP, p14, ENDAP, Ragulator2	uc001fnb.3	Q9Y2Q5	OTTHUMG00000017462	ENST00000368305.4:c.254delG	1.37:g.156027791delG	ENSP00000357288:p.Arg85fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VY97|Q5VY98|Q5VY99	Frame_Shift_Del	DEL	ENST00000368305.4	37	CCDS1128.1																																																																																				0.577	LAMTOR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046197.1	NM_014017		-	156027791	G	-	156027791	7	5	690	1	0	1	0	1	0	0	0	0	13525	1058	37	0	264	0	ROBLD3	1	156027791	Frame_Shift_Del	DEL	G	TCGA-MH-A55W-01A-11D-A26P-10	1283248	156027791	93222830	10	44779										
ELK4	2005	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	205588957	205588957	+	Intron	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	atgagaaatggggtaactttCacatgacagtcacacataac	8	8	2	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr1:205588957C>G	ENST00000357992.4	-	3	1420				ELK4_ENST00000289703.4_Nonstop_Mutation_p.*406S|ELK4_ENST00000468523.1_5'Flank	NM_001973.3	NP_001964.2	P28324	ELK4_HUMAN	ELK4, ETS-domain protein (SRF accessory protein 1)						cell differentiation (GO:0030154)|histone H3 deacetylation (GO:0070932)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|core promoter binding (GO:0001047)|DNA binding (GO:0003677)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription cofactor activity (GO:0003712)		SLC45A3/ELK4(18)	breast(1)|endometrium(1)|kidney(2)|large_intestine(1)|lung(6)|skin(1)	12	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0908)			GGGTAACTTTCACATGACAGT	0.289			T	SLC45A3	prostate																																		Dom	yes		1	1q32	2005	"ELK4, ETS-domain protein (SRF accessory protein 1)"		E	0													48	48	48					1																	205588957		2203	4300	6503	SO:0001627	intron_variant	2005			M85165	CCDS1456.1, CCDS1457.1	1q32	2008-02-05			ENSG00000158711	ENSG00000158711			3326	protein-coding gene	gene with protein product		600246				7851904, 8575773	Standard	NM_001973		Approved	SAP1		P28324	OTTHUMG00000037221	ENST00000357992.4:c.1080+136G>C	1.37:g.205588957C>G		Somatic		WXS	Illumina HiSeq	Phase_I	P28323|Q6GSJ2	Missense_Mutation	SNP	ENST00000357992.4	37	CCDS1456.1	.	.	.	.	.	.	.	.	.	.	C	11.79	1.744796	0.30865	.	.	ENSG00000158711	ENST00000289703	.	.	.	4.73	4.73	0.59995	.	.	.	.	.	.	.	.	.	.	.	0.09310	N	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.5541	0.61749	0.0:1.0:0.0:0.0	.	.	.	.	S	406	.	.	X	-	2	2	ELK4	203855580	0.000000	0.05858	0.860000	0.33809	0.233000	0.25261	0.118000	0.15605	2.344000	0.79699	0.655000	0.94253	TGA		0.289	ELK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090615.1	NM_021795		G	205588957	C	G	205588957	1	3	690	0	1	0	0	0	0	0	0	0	5063	837	29	4		4	ELK4	1	205588957	Intron	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	49561166	205588957	43661664	11	44780										
OR13G1	441933	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	247836182	247836183	+	Missense_Mutation	DNP	CG	CG	AA													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	agaaggaaaacatacatgggCgtatgcaaggtgttgttata					rs200763482	byFrequency	TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	CG	CG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr1:247836182_247836183CG>AA	ENST00000359688.2	-	1	182_183	c.161_162CG>TT	c.(160-162)aCG>aTT	p.T54I	RP11-634B7.4_ENST00000449298.1_RNA	NM_001005487.1	NP_001005487.1	Q8NGZ3	O13G1_HUMAN	olfactory receptor, family 13, subfamily G, member 1	54						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.T54M(1)		endometrium(2)|kidney(1)|large_intestine(2)|lung(28)|skin(2)	35	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)			CATACATGGGCGTATGCAAGGT	0.421																																																1	Substitution - Missense(1)	endometrium(1)																																								SO:0001583	missense	441933			AB065623	CCDS31094.1	1q44	2012-08-09			ENSG00000197437	ENSG00000197437		"GPCR / Class A : Olfactory receptors"	14999	protein-coding gene	gene with protein product		611677					Standard	NM_001005487		Approved		uc001idi.1	Q8NGZ3	OTTHUMG00000040212	ENST00000359688.2:c.161_162delinsAA	1.37:g.247836182_247836183delinsAA	ENSP00000352717:p.Thr54Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN80|Q5T2T2|Q6IF86	Missense_Mutation	DNP	ENST00000359688.2	37	CCDS31094.1																																																																																				0.421	OR13G1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096869.1	NM_001005487		AA	247836183	CG	AA	247836182	3	1	690	1	0	0	0	0	1	0	0	0	10949	755	27	4	765	4	OR13G1	1	247836182	Missense_Mutation	DNP	CG	TCGA-MH-A55W-01A-11D-A26P-10	42247225	247836182	1414439	12	44781										
GEN1	348654	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	17962535	17962535	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ttacaaaattatcatatcctCaggataatctacaaccagat	3	9	3	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr2:17962535C>G	ENST00000381254.2	+	14	2270	c.2056C>G	c.(2056-2058)Cag>Gag	p.Q686E	SMC6_ENST00000402989.1_Intron|GEN1_ENST00000317402.7_Missense_Mutation_p.Q686E	NM_001130009.1	NP_001123481.1	Q17RS7	GEN_HUMAN	GEN1 Holliday junction 5' flap endonuclease	686					DNA catabolic process, endonucleolytic (GO:0000737)|double-strand break repair via homologous recombination (GO:0000724)|positive regulation of mitotic cell cycle spindle assembly checkpoint (GO:0090267)|regulation of centrosome duplication (GO:0010824)|resolution of mitotic recombination intermediates (GO:0071140)|resolution of recombination intermediates (GO:0071139)	centrosome (GO:0005813)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	crossover junction endodeoxyribonuclease activity (GO:0008821)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(6)|central_nervous_system(1)|kidney(1)|large_intestine(3)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	16	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					ATCATATCCTCAGGATAATCT	0.348								Homologous recombination																																								0													75	82	79					2																	17962535		2203	4300	6503	SO:0001583	missense	348654			AK098188	CCDS1691.1	2p24.2	2013-06-04	2013-06-04		ENSG00000178295	ENSG00000178295			26881	protein-coding gene	gene with protein product	"Holliday junction resolvase"	612449	"Gen endonuclease homolog 1 (Drosophila)"			15576351	Standard	NM_182625		Approved	FLJ40869, Gen	uc002rct.2	Q17RS7	OTTHUMG00000121173	ENST00000381254.2:c.2056C>G	2.37:g.17962535C>G	ENSP00000370653:p.Gln686Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RS9|Q6ZN37	Missense_Mutation	SNP	ENST00000381254.2	37	CCDS1691.1	.	.	.	.	.	.	.	.	.	.	C	2.631	-0.286254	0.05605	.	.	ENSG00000178295	ENST00000317402;ENST00000381254;ENST00000536097	T;T	0.24723	1.84;1.84	5.41	2.48	0.30137	.	0.967756	0.08453	N	0.943658	T	0.25494	0.0620	M	0.62723	1.935	0.09310	N	1	B	0.10296	0.003	B	0.08055	0.003	T	0.31888	-0.9927	10	0.59425	D	0.04	0.3588	4.3539	0.11169	0.1364:0.6005:0.1325:0.1307	.	686	Q17RS7	GEN_HUMAN	E	686;686;323	ENSP00000318977:Q686E;ENSP00000370653:Q686E	ENSP00000318977:Q686E	Q	+	1	0	GEN1	17826016	0.000000	0.05858	0.001000	0.08648	0.018000	0.09664	0.195000	0.17155	0.717000	0.32145	0.655000	0.94253	CAG		0.348	GEN1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241661.2	NM_182625		G	17962535	C	G	17962535	3	3	690	1	0	0	0	0	1	0	0	0	6342	827	29	4	2106	4	GEN1	2	17962535	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10		17962535	225236838	13	44782										
ITSN2	50618	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	24469667	24469667	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	aattaacccacttccataccAggatgaaaggcaggtgtggc	10	10	0	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr2:24469667A>G	ENST00000355123.4	-	28	3827	c.3384T>C	c.(3382-3384)ccT>ccC	p.P1128P	ITSN2_ENST00000361999.3_Splice_Site_p.P1101P|ITSN2_ENST00000406921.3_Splice_Site_p.P1128P	NM_006277.2	NP_006268.2	Q9NZM3	ITSN2_HUMAN	intersectin 2	1128	SH3 5. {ECO:0000255|PROSITE- ProRule:PRU00192}.				endocytosis (GO:0006897)|positive regulation of signal transduction (GO:0009967)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|SH3/SH2 adaptor activity (GO:0005070)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(8)|large_intestine(11)|liver(3)|lung(28)|ovary(2)|stomach(1)	61	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTCCATACCAGGATGAAAGG	0.383																																																0													87	87	87					2																	24469667		2203	4300	6503	SO:0001630	splice_region_variant	50618			AB033082	CCDS1710.2, CCDS1711.2, CCDS46230.1	2p23.3	2013-09-19	2002-10-30		ENSG00000198399	ENSG00000198399		"Rho guanine nucleotide exchange factors", "EF-hand domain containing"	6184	protein-coding gene	gene with protein product	"SH3 domain protein 1B", "SH3P18-like WASP associated protein"	604464	"SH3 domain protein 1B"	SH3D1B		10922467, 11748279	Standard	NM_006277		Approved	KIAA1256, SWAP, SH3P18, SWA, PRO2015	uc002rfe.2	Q9NZM3	OTTHUMG00000090818	ENST00000355123.4:c.3385+1T>C	2.37:g.24469667A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O95062|Q15812|Q9HAK4|Q9NXE6|Q9NYG0|Q9NZM2|Q9ULG4	Silent	SNP	ENST00000355123.4	37	CCDS1710.2	.	.	.	.	.	.	.	.	.	.	A	11.59	1.683791	0.29872	.	.	ENSG00000198399	ENST00000416160	.	.	.	5.59	-2.45	0.06481	.	.	.	.	.	T	0.43122	0.1233	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.35624	-0.9781	4	.	.	.	.	4.57	0.12205	0.3227:0.0:0.2426:0.4346	.	.	.	.	P	56	.	.	L	-	2	0	ITSN2	24323171	1.000000	0.71417	0.998000	0.56505	0.972000	0.66771	1.158000	0.31737	-0.097000	0.12307	0.383000	0.25322	CTG		0.383	ITSN2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000207620.2	NM_006277	Silent	G	24469667	A	G	24469667	5	3	690	1	0	0	0	0	0	0	1	0	7934	202	7	3	1812	3	ITSN2	2	24469667	Splice_Site	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	6507132	24469667	218729706	14	44783										
ADCY3	109	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	25051028	25051029	+	Splice_Site	DNP	GA	GA	AC													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gtgtagtactggagacagctGagctggaggccaggacggcg							TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr2:25051028_25051029GA>AC	ENST00000260600.5	-	13	3025_3026	c.2174_2175TC>GT	c.(2173-2175)cTC>cGT	p.L725R	ADCY3_ENST00000450524.1_5'UTR|ADCY3_ENST00000405392.1_Intron|RP11-443B20.1_ENST00000606114.1_RNA	NM_004036.3	NP_004027.2	O60266	ADCY3_HUMAN	adenylate cyclase 3	725					activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|neurotrophin TRK receptor signaling pathway (GO:0048011)|sensory perception of smell (GO:0007608)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	cilium (GO:0005929)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	adenylate cyclase activity (GO:0004016)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)			NS(1)|breast(5)|endometrium(7)|kidney(1)|large_intestine(7)|lung(14)|ovary(3)|prostate(4)|skin(2)	44	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					GGAGACAGCTGAGCTGGAGGCC	0.604											OREG0014498	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0																																										SO:0001630	splice_region_variant	109			AF033861	CCDS1715.1	2p23.3	2013-02-04			ENSG00000138031	ENSG00000138031	4.6.1.1	"Adenylate cyclases"	234	protein-coding gene	gene with protein product		600291				9920776	Standard	NM_004036		Approved	AC3	uc002rfs.4	O60266	OTTHUMG00000094765	ENST00000260600.5:c.2174_2175delinsAC	2.37:g.25051028_25051029delinsAC		Somatic	776	WXS	Illumina HiSeq	Phase_I	B3KT86|Q53T54|Q9UDB1	Missense_Mutation	DNP	ENST00000260600.5	37	CCDS1715.1																																																																																				0.604	ADCY3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000211574.2		Missense_Mutation	AC	25051029	GA	AC	25051028	5	1	690	1	0	0	0	0	0	0	1	0	295	1277	45	2	1295	2	ADCY3	2	25051028	Splice_Site	DNP	GA	TCGA-MH-A55W-01A-11D-A26P-10	581361	25051028	218148345	15	44784										
SLC5A6	8884	hgsc.bcm.edu;bcgsc.ca	37	chr2	27428892	27428892	+	Splice_Site	DEL	A	A	-													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	caccacggcttactgcacttAccagagctgtatagacggta							TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr2:27428892delA	ENST00000310574.3	-	6	1053		c.e6+1		SLC5A6_ENST00000408041.1_Splice_Site|SLC5A6_ENST00000461319.1_5'Flank	NM_021095.2	NP_066918.2	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium/multivitamin and iodide cotransporter), member 6						biotin metabolic process (GO:0006768)|biotin transport (GO:0015878)|pantothenate metabolic process (GO:0015939)|pantothenate transmembrane transport (GO:0015887)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|transport (GO:0006810)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	brush border membrane (GO:0031526)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)|vesicle membrane (GO:0012506)	sodium-dependent multivitamin transmembrane transporter activity (GO:0008523)			endometrium(2)|kidney(2)|large_intestine(3)|lung(8)|ovary(3)|prostate(1)|skin(1)	20	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|gabapentin enacarbil(DB08872)|Lipoic Acid(DB00166)	TACTGCACTTACCAGAGCTGT	0.502																																																0													87	75	79					2																	27428892		2203	4300	6503	SO:0001630	splice_region_variant	8884			AF069307	CCDS1740.1	2p23	2013-07-19	2013-07-19		ENSG00000138074	ENSG00000138074		"Solute carriers"	11041	protein-coding gene	gene with protein product		604024	"solute carrier family 5 (sodium-dependent vitamin transporter), member 6"			9516450, 10329687	Standard	NM_021095		Approved	SMVT	uc002rjd.3	Q9Y289	OTTHUMG00000097075	ENST00000310574.3:c.579+1T>-	2.37:g.27428892delA		Somatic		WXS	Illumina HiSeq	Phase_I	B2RB85|D6W549|Q969Y5	Splice_Site	DEL	ENST00000310574.3	37	CCDS1740.1																																																																																				0.502	SLC5A6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214194.1	NM_021095	Intron	-	27428892	A	-	27428892	8	5	690	1	0	1	0	1	0	0	1	0	14682	405	14	0	1374	0	SLC5A6	2	27428892	Splice_Site	DEL	A	TCGA-MH-A55W-01A-11D-A26P-10	2377864	27428892	215770481	16	44785										
NRBP1	29959	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	27660178	27660178	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	agagtcctcatatgtgccacAggaagccatcagcagtgcca	10	12	2	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr2:27660178A>T	ENST00000233557.3	+	11	1686	c.854A>T	c.(853-855)cAg>cTg	p.Q285L	NRBP1_ENST00000379863.3_Missense_Mutation_p.Q293L|NRBP1_ENST00000379852.3_Missense_Mutation_p.Q285L			Q9UHY1	NRBP_HUMAN	nuclear receptor binding protein 1	285	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				ER to Golgi vesicle-mediated transport (GO:0006888)|gene expression (GO:0010467)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cell projection (GO:0042995)|endomembrane system (GO:0012505)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|perinuclear region of cytoplasm (GO:0048471)	ATP binding (GO:0005524)|protein homodimerization activity (GO:0042803)|protein kinase activity (GO:0004672)			central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(3)|lung(6)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	19	Acute lymphoblastic leukemia(172;0.155)					TATGTGCCACAGGAAGCCATC	0.463																																																0													78	72	74					2																	27660178		2203	4300	6503	SO:0001583	missense	29959			AF113249	CCDS1753.1	2p23	2008-02-05	2005-12-22	2005-12-22	ENSG00000115216	ENSG00000115216			7993	protein-coding gene	gene with protein product		606010	"nuclear receptor binding protein"	NRBP		10843813, 11956649	Standard	NM_013392		Approved	BCON3, MUDPNP, MADM	uc002rkp.3	Q9UHY1	OTTHUMG00000097789	ENST00000233557.3:c.854A>T	2.37:g.27660178A>T	ENSP00000233557:p.Gln285Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KV40|D6W558|Q53FZ5|Q96SU3	Missense_Mutation	SNP	ENST00000233557.3	37	CCDS1753.1	.	.	.	.	.	.	.	.	.	.	A	16.36	3.100500	0.56183	.	.	ENSG00000115216	ENST00000233557;ENST00000421823;ENST00000379852;ENST00000379863	T;T;T	0.32272	1.46;1.46;1.46	5.63	5.63	0.86233	Serine/threonine-protein kinase-like domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.28928	0.0718	L	0.28014	0.82	0.80722	D	1	B;B;B	0.32862	0.387;0.049;0.06	B;B;B	0.40256	0.324;0.039;0.021	T	0.08513	-1.0718	10	0.40728	T	0.16	-13.0877	14.6481	0.68774	1.0:0.0:0.0:0.0	.	265;293;285	B4DW31;F8W6G1;Q9UHY1	.;.;NRBP_HUMAN	L	285;265;285;293	ENSP00000233557:Q285L;ENSP00000369181:Q285L;ENSP00000369192:Q293L	ENSP00000233557:Q285L	Q	+	2	0	NRBP1	27513682	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.394000	0.79862	2.138000	0.66242	0.533000	0.62120	CAG		0.463	NRBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215033.1	NM_013392		T	27660178	A	T	27660178	3	4	690	1	0	0	0	0	1	0	0	0	10649	188	7	5	888	5	NRBP1	2	27660178	Missense_Mutation	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	231286	27660178	215539195	17	44786										
RANBP2	5903	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	109380179	109380179	+	Frame_Shift_Del	DEL	A	A	-													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	cccctcctgcagcttacagtAacagtgaaagccttttaggt					rs201854838		TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr2:109380179delA	ENST00000283195.6	+	20	3310	c.3184delA	c.(3184-3186)aacfs	p.N1062fs		NM_006267.4	NP_006258.3	P49792	RBP2_HUMAN	RAN binding protein 2	1062					carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|negative regulation of glucokinase activity (GO:0033132)|protein folding (GO:0006457)|protein import into nucleus (GO:0006606)|protein sumoylation (GO:0016925)|regulation of gluconeogenesis involved in cellular glucose homeostasis (GO:0090526)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nuclear inclusion body (GO:0042405)|nuclear membrane (GO:0031965)|nuclear pore (GO:0005643)|nuclear pore nuclear basket (GO:0044615)	ligase activity (GO:0016874)|peptidyl-prolyl cis-trans isomerase activity (GO:0003755)|Ran GTPase binding (GO:0008536)|RNA binding (GO:0003723)|zinc ion binding (GO:0008270)		RANBP2/ALK(34)	NS(1)|biliary_tract(1)|breast(3)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(21)|large_intestine(19)|lung(51)|pancreas(1)|prostate(8)|skin(7)|upper_aerodigestive_tract(2)|urinary_tract(1)	129						AGCTTACAGTAACAGTGAAAG	0.443																																																0													74	77	76					2																	109380179		2203	4300	6503	SO:0001589	frameshift_variant	5903			D42063	CCDS2079.1	2q13	2013-11-14			ENSG00000153201	ENSG00000153201		"Tetratricopeptide (TTC) repeat domain containing"	9848	protein-coding gene	gene with protein product		601181	"acute necrotizing encephalopathy 1 (autosomal dominant)"	ANE1		7724562, 19118815	Standard	NM_006267		Approved	NUP358, ADANE	uc002tem.4	P49792	OTTHUMG00000130981	ENST00000283195.6:c.3184delA	2.37:g.109380179delA	ENSP00000283195:p.Asn1062fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q13074|Q15280|Q53TE2|Q59FH7	Frame_Shift_Del	DEL	ENST00000283195.6	37	CCDS2079.1																																																																																				0.443	RANBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253594.1	NM_006267		-	109380179	A	-	109380179	7	5	690	1	0	1	0	1	0	0	0	0	13041	362	13	0	3262	0	RANBP2	2	109380179	Frame_Shift_Del	DEL	A	TCGA-MH-A55W-01A-11D-A26P-10	81720001	109380179	133819194	18	44787										
NPHP1	4867	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	110922202	110922202	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tcttccacagtctccatcctAtttcgcatcagaactattag	4	13	3	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr2:110922202A>T	ENST00000393272.3	-	8	931	c.834T>A	c.(832-834)aaT>aaA	p.N278K	NPHP1_ENST00000445609.2_Intron|NPHP1_ENST00000417665.1_Intron|NPHP1_ENST00000355301.4_Intron|NPHP1_ENST00000316534.4_Missense_Mutation_p.N278K	NM_000272.3|NM_207181.2	NP_000263.2|NP_997064.2	O15259	NPHP1_HUMAN	nephronophthisis 1 (juvenile)	278					actin cytoskeleton organization (GO:0030036)|cell projection organization (GO:0030030)|cellular protein localization (GO:0034613)|excretion (GO:0007588)|photoreceptor cell outer segment organization (GO:0035845)|retina development in camera-type eye (GO:0060041)|signal transduction (GO:0007165)|single organismal cell-cell adhesion (GO:0016337)|spermatid differentiation (GO:0048515)|visual behavior (GO:0007632)	cell-cell junction (GO:0005911)|ciliary transition zone (GO:0035869)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|membrane (GO:0016020)|motile cilium (GO:0031514)|photoreceptor connecting cilium (GO:0032391)|tight junction (GO:0005923)	structural molecule activity (GO:0005198)			autonomic_ganglia(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(6)|lung(10)|ovary(2)	24						TCTCCATCCTATTTCGCATCA	0.463																																																0													185	182	183					2																	110922202		2203	4300	6503	SO:0001583	missense	4867			AF023674	CCDS2086.1, CCDS46384.1, CCDS46385.1, CCDS46386.1	2q13	2014-01-28			ENSG00000144061	ENSG00000144061			7905	protein-coding gene	gene with protein product	"nephrocystin-1"	607100		NPH1			Standard	NM_000272		Approved	JBTS4, SLSN1	uc002tfm.4	O15259	OTTHUMG00000131195	ENST00000393272.3:c.834T>A	2.37:g.110922202A>T	ENSP00000376953:p.Asn278Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O14837	Missense_Mutation	SNP	ENST00000393272.3	37	CCDS46385.1	.	.	.	.	.	.	.	.	.	.	A	11.00	1.510348	0.27036	.	.	ENSG00000144061	ENST00000316534;ENST00000393272	T;T	0.60171	0.21;0.21	4.36	-3.69	0.04450	.	1.449030	0.04895	U	0.450299	T	0.35038	0.0918	N	0.22421	0.69	0.09310	N	1	B;B	0.06786	0.001;0.001	B;B	0.08055	0.001;0.003	T	0.09335	-1.0679	10	0.23302	T	0.38	-2.1995	1.7177	0.02905	0.4617:0.1409:0.2537:0.1437	.	278;278	O15259;O15259-4	NPHP1_HUMAN;.	K	278	ENSP00000313169:N278K;ENSP00000376953:N278K	ENSP00000313169:N278K	N	-	3	2	NPHP1	110279491	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.481000	0.06552	-0.376000	0.07943	-1.092000	0.02172	AAT		0.463	NPHP1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000253919.3	NM_000272		T	110922202	A	T	110922202	3	4	690	1	0	0	0	0	1	0	0	0	10586	446	16	5	1419	5	NPHP1	2	110922202	Missense_Mutation	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	1542023	110922202	132277171	19	44788										
CLASP1	23332	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	122161975	122161975	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gagggtcagcaaacatccgaGtgaagatctcacacaacctt	9	11	2	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr2:122161975G>C	ENST00000263710.4	-	26	3094	c.2705C>G	c.(2704-2706)aCt>aGt	p.T902S	CLASP1_ENST00000397587.3_Missense_Mutation_p.T882S|CLASP1_ENST00000409078.3_Missense_Mutation_p.T874S|CLASP1_ENST00000545861.1_Missense_Mutation_p.T649S|CLASP1_ENST00000541859.1_Missense_Mutation_p.T635S|CLASP1_ENST00000541377.1_Missense_Mutation_p.T880S|CLASP1_ENST00000455322.2_Missense_Mutation_p.T874S	NM_015282.2	NP_056097.1	Q7Z460	CLAP1_HUMAN	cytoplasmic linker associated protein 1	902					axon guidance (GO:0007411)|cell division (GO:0051301)|establishment of spindle orientation (GO:0051294)|establishment or maintenance of cell polarity (GO:0007163)|exit from mitosis (GO:0010458)|G2/M transition of mitotic cell cycle (GO:0000086)|microtubule anchoring (GO:0034453)|microtubule bundle formation (GO:0001578)|microtubule cytoskeleton organization (GO:0000226)|microtubule nucleation (GO:0007020)|microtubule organizing center organization (GO:0031023)|mitotic cell cycle (GO:0000278)|negative regulation of microtubule depolymerization (GO:0007026)|negative regulation of microtubule polymerization or depolymerization (GO:0031111)	cell cortex (GO:0005938)|centrosomal corona (GO:0031592)|centrosome (GO:0005813)|cortical microtubule cytoskeleton (GO:0030981)|cytoplasmic microtubule (GO:0005881)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|kinetochore (GO:0000776)|kinetochore microtubule (GO:0005828)|membrane (GO:0016020)|spindle microtubule (GO:0005876)	kinetochore binding (GO:0043515)|microtubule binding (GO:0008017)|microtubule plus-end binding (GO:0051010)			NS(2)|breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(4)|large_intestine(8)|lung(19)|ovary(1)|prostate(1)	47	Renal(3;0.0496)					AAACATCCGAGTGAAGATCTC	0.408																																																0													102	99	100					2																	122161975		1978	4156	6134	SO:0001583	missense	23332			AB014522		2q14.2-q14.3	2013-01-18			ENSG00000074054	ENSG00000074054			17088	protein-coding gene	gene with protein product	"multiple asters 1"	605852				9734811, 10899121, 16914514	Standard	NM_015282		Approved	KIAA0622, MAST1	uc002tnc.3	Q7Z460	OTTHUMG00000153331	ENST00000263710.4:c.2705C>G	2.37:g.122161975G>C	ENSP00000263710:p.Thr902Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLX3|O75118|Q2KHQ9|Q5H9P0|Q8N5B8|Q9BQT5	Missense_Mutation	SNP	ENST00000263710.4	37		.	.	.	.	.	.	.	.	.	.	G	29.9	5.041443	0.93685	.	.	ENSG00000074054	ENST00000263710;ENST00000455322;ENST00000397587;ENST00000541377;ENST00000541859;ENST00000409078;ENST00000545861	T;T;T;T;T;T;T	0.65549	-0.16;-0.16;-0.16;-0.16;-0.16;-0.16;-0.16	5.37	5.37	0.77165	Armadillo-like helical (1);Armadillo-type fold (1);	0.045519	0.85682	D	0.000000	T	0.76615	0.4012	L	0.55481	1.735	0.58432	D	0.999999	D;D;P;P	0.76494	0.999;0.999;0.865;0.74	D;D;P;P	0.79108	0.992;0.968;0.604;0.617	T	0.77496	-0.2566	10	0.59425	D	0.04	-15.1313	19.1123	0.93321	0.0:0.0:1.0:0.0	.	874;882;880;902	E7EUA5;F5GWS0;B7ZLX3;Q7Z460	.;.;.;CLAP1_HUMAN	S	902;874;882;880;635;874;649	ENSP00000263710:T902S;ENSP00000389372:T874S;ENSP00000380717:T882S;ENSP00000441625:T880S;ENSP00000441770:T635S;ENSP00000386442:T874S;ENSP00000438620:T649S	ENSP00000263710:T902S	T	-	2	0	CLASP1	121878445	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	9.496000	0.97967	2.518000	0.84900	0.563000	0.77884	ACT		0.408	CLASP1-201	KNOWN	basic	protein_coding	protein_coding		NM_015282		C	122161975	G	C	122161975	3	2	690	1	0	0	0	0	1	0	0	0	3456	1029	36	4	1967	4	CLASP1	2	122161975	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	11239773	122161975	121037398	20	44789										
KIF1A	547	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	241725900	241725900	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ggggttcaggaggtcacggaCgcgctcacagtaaatctcca	13	11	4	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr2:241725900C>T	ENST00000320389.7	-	6	618	c.460G>A	c.(460-462)Gtc>Atc	p.V154I	KIF1A_ENST00000498729.2_Missense_Mutation_p.V154I	NM_004321.6	NP_004312.2	Q12756	KIF1A_HUMAN	kinesin family member 1A	154	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				anterograde axon cargo transport (GO:0008089)|ATP catabolic process (GO:0006200)|cell death (GO:0008219)|cytoskeleton-dependent intracellular transport (GO:0030705)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|motor activity (GO:0003774)|plus-end-directed microtubule motor activity (GO:0008574)			NS(1)|central_nervous_system(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(8)|lung(25)|ovary(1)|prostate(5)|skin(2)|urinary_tract(1)	66		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)		AGGTCACGGACGCGCTCACAG	0.652																																																0													112	117	115					2																	241725900		2085	4227	6312	SO:0001583	missense	547			AF004425	CCDS46561.1, CCDS58757.1	2q37.2	2014-09-17	2004-01-09	2004-01-14	ENSG00000130294	ENSG00000130294		"Kinesins", "Pleckstrin homology (PH) domain containing"	888	protein-coding gene	gene with protein product		601255	"axonal transport of synaptic vesicles", "chromosome 2 open reading frame 20", "spastic paraplegia 30 (autosomal recessive)"	ATSV, C2orf20, SPG30		7539720, 10323250, 22258533	Standard	NM_001244008		Approved	UNC104	uc010fzk.3	Q12756	OTTHUMG00000151940	ENST00000320389.7:c.460G>A	2.37:g.241725900C>T	ENSP00000322791:p.Val154Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1S5|F5H045|O95068|Q13355|Q14752|Q2NKJ6|Q4LE42|Q53T78|Q59GH1|Q63Z40|Q6P1R9|Q7KZ57	Missense_Mutation	SNP	ENST00000320389.7	37	CCDS46561.1	.	.	.	.	.	.	.	.	.	.	C	23.3	4.399825	0.83120	.	.	ENSG00000130294	ENST00000320389;ENST00000498729;ENST00000373308;ENST00000404283	T;T;T	0.74315	-0.83;-0.83;-0.83	4.55	4.55	0.56014	Kinesin, motor domain (4);	0.000000	0.64402	U	0.000001	T	0.80681	0.4669	L	0.35414	1.06	0.80722	D	1	D;D;D	0.89917	1.0;0.999;1.0	D;D;D	0.85130	0.997;0.983;0.996	D	0.83722	0.0193	10	0.87932	D	0	.	17.3339	0.87274	0.0:1.0:0.0:0.0	.	154;154;154	F5H045;Q12756-2;Q12756	.;.;KIF1A_HUMAN	I	154	ENSP00000322791:V154I;ENSP00000438388:V154I;ENSP00000384231:V154I	ENSP00000322791:V154I	V	-	1	0	KIF1A	241374573	1.000000	0.71417	0.911000	0.35937	0.436000	0.31835	5.859000	0.69539	2.087000	0.62958	0.643000	0.83706	GTC		0.652	KIF1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324536.3	NM_138483		T	241725900	C	T	241725900	3	4	690	1	0	0	0	0	1	0	0	0	8290	536	19	1	4780	1	KIF1A	2	241725900	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	119563925	241725900	1473473	21	44790										
FYCO1	79443	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	46009857	46009857	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tccttctctgctgctcctagCtccaggccctgcaggcatgt	9	16	1	0	rs372875711		TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr3:46009857C>A	ENST00000296137.2	-	8	1174	c.969G>T	c.(967-969)gaG>gaT	p.E323D	FYCO1_ENST00000535325.1_Missense_Mutation_p.E323D	NM_024513.3	NP_078789.2	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	323					plus-end-directed vesicle transport along microtubule (GO:0072383)	autophagic vacuole (GO:0005776)|cytoplasmic vesicle (GO:0031410)|integral component of membrane (GO:0016021)|late endosome (GO:0005770)|lysosome (GO:0005764)|membrane (GO:0016020)	metal ion binding (GO:0046872)			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)		CTGCTCCTAGCTCCAGGCCCT	0.627																																																0													71	64	66					3																	46009857		2203	4300	6503	SO:0001583	missense	79443			AJ292348	CCDS2734.1	3p21.3	2008-02-05			ENSG00000163820	ENSG00000163820		"Zinc fingers, FYVE domain containing"	14673	protein-coding gene	gene with protein product		607182				11896456	Standard	NM_024513		Approved	FLJ13335, ZFYVE7	uc003cpb.5	Q9BQS8	OTTHUMG00000133447	ENST00000296137.2:c.969G>T	3.37:g.46009857C>A	ENSP00000296137:p.Glu323Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKT7|Q3MJE6|Q86T41|Q86TB1|Q8TEF9|Q96IV5|Q9H8P9	Missense_Mutation	SNP	ENST00000296137.2	37	CCDS2734.1	.	.	.	.	.	.	.	.	.	.	C	19.41	3.822936	0.71028	.	.	ENSG00000163820	ENST00000296137;ENST00000535325	T;T	0.28454	1.61;1.69	5.66	5.66	0.87406	.	0.237259	0.43260	D	0.000588	T	0.42539	0.1207	M	0.67953	2.075	0.34032	D	0.653899	D;P	0.63880	0.993;0.932	P;B	0.56127	0.792;0.362	T	0.54390	-0.8301	10	0.28530	T	0.3	-23.5428	8.7704	0.34728	0.0:0.8728:0.0:0.1272	.	323;323	B7ZKT7;Q9BQS8	.;FYCO1_HUMAN	D	323	ENSP00000296137:E323D;ENSP00000441178:E323D	ENSP00000296137:E323D	E	-	3	2	FYCO1	45984861	0.931000	0.31567	0.984000	0.44739	0.507000	0.33981	1.633000	0.37113	2.671000	0.90904	0.655000	0.94253	GAG		0.627	FYCO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257320.2	NM_024513		A	46009857	C	A	46009857	3	1	690	1	0	0	0	0	1	0	0	0	6132	796	28	4	3511	4	FYCO1	3	46009857	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10		46009857	152012573	22	44791										
RBM5	10181	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	50155814	50155814	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ggagccaaaggcagcgcataTggtttgtcgggcgccgattc	15	10	0	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr3:50155814T>A	ENST00000347869.3	+	25	2548	c.2373T>A	c.(2371-2373)taT>taA	p.Y791*	RP11-493K19.3_ENST00000437204.1_RNA|RP11-493K19.3_ENST00000425674.1_RNA	NM_005778.3	NP_005769.1	P52756	RBM5_HUMAN	RNA binding motif protein 5	791	Required for interaction with U2AF2.				apoptotic process (GO:0006915)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|negative regulation of cell proliferation (GO:0008285)|positive regulation of apoptotic process (GO:0043065)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)|spliceosomal complex assembly (GO:0000245)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)	DNA binding (GO:0003677)|mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|zinc ion binding (GO:0008270)			breast(2)|cervix(2)|endometrium(3)|large_intestine(4)|lung(6)|prostate(2)	19				BRCA - Breast invasive adenocarcinoma(193;0.000121)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GCAGCGCATATGGTTTGTCGG	0.557																																																0													93	81	85					3																	50155814		2203	4300	6503	SO:0001587	stop_gained	10181			U23946	CCDS2810.1	3p21.3	2013-08-15			ENSG00000003756	ENSG00000003756		"G patch domain containing", "RNA binding motif (RRM) containing"	9902	protein-coding gene	gene with protein product		606884				10352938, 23935508	Standard	NM_005778		Approved	LUCA15, H37	uc003cyg.3	P52756	OTTHUMG00000156785	ENST00000347869.3:c.2373T>A	3.37:g.50155814T>A	ENSP00000343054:p.Tyr791*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RA45|B4DM16|B4DMF9|B4DZ63|Q93021|Q9BU14|Q9HDA6|Q9UKY8|Q9UL24	Nonsense_Mutation	SNP	ENST00000347869.3	37	CCDS2810.1	.	.	.	.	.	.	.	.	.	.	T	35	5.436728	0.96168	.	.	ENSG00000003756	ENST00000347869;ENST00000543047;ENST00000544851	.	.	.	5.56	0.508	0.16972	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-9.522	10.6385	0.45579	0.0:0.4157:0.0:0.5843	.	.	.	.	X	791;790;481	.	ENSP00000343054:Y791X	Y	+	3	2	RBM5	50130818	0.435000	0.25577	0.988000	0.46212	0.413000	0.31143	-0.355000	0.07671	0.075000	0.16796	0.528000	0.53228	TAT		0.557	RBM5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345797.3	NM_005778		A	50155814	T	A	50155814	4	1	690	1	0	0	0	0	0	1	0	0	13156	1471	51	5	2467	5	RBM5	3	50155814	Nonsense_Mutation	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10	4145957	50155814	147866616	23	44792										
KIAA1524	57650	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	108288411	108288411	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tcatctgagtgagcatatggCgcagctgagtcactgaacag	12	9	3	4	rs375108755		TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr3:108288411C>T	ENST00000295746.8	-	9	1014	c.938G>A	c.(937-939)cGc>cAc	p.R313H	KIAA1524_ENST00000487834.1_5'UTR|KIAA1524_ENST00000491772.1_Missense_Mutation_p.R154H	NM_020890.2	NP_065941.2	Q8TCG1	CIP2A_HUMAN	KIAA1524	313					positive regulation of neural precursor cell proliferation (GO:2000179)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(1)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(5)|lung(21)|ovary(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	38						GAGCATATGGCGCAGCTGAGT	0.418																																																0								C	HIS/ARG	0,4406		0,0,2203	59	56	57		938	5.8	1	3		57	1,8597	1.2+/-3.3	0,1,4298	no	missense	KIAA1524	NM_020890.2	29	0,1,6501	TT,TC,CC		0.0116,0.0,0.0077	probably-damaging	313/906	108288411	1,13003	2203	4299	6502	SO:0001583	missense	57650			AB040957	CCDS33812.1	3q13.13	2014-01-14			ENSG00000163507	ENSG00000163507			29302	protein-coding gene	gene with protein product	"cancerous inhibitor of protein phosphatase 2A"	610643				10819331, 24214971	Standard	NM_020890		Approved	CIP2A	uc003dxb.4	Q8TCG1	OTTHUMG00000159233	ENST00000295746.8:c.938G>A	3.37:g.108288411C>T	ENSP00000295746:p.Arg313His	Somatic		WXS	Illumina HiSeq	Phase_I	A1L4J7|B9EGC3|Q6P4G6|Q8WVP8|Q96PI2|Q9H9C6|Q9P204	Missense_Mutation	SNP	ENST00000295746.8	37	CCDS33812.1	.	.	.	.	.	.	.	.	.	.	C	33	5.255797	0.95336	0.0	1.16E-4	ENSG00000163507	ENST00000491772;ENST00000295746	T;T	0.14391	2.51;2.65	5.85	5.85	0.93711	Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.38719	0.1051	M	0.66939	2.045	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.04103	-1.0977	10	0.87932	D	0	-5.9074	18.3439	0.90314	0.0:1.0:0.0:0.0	.	313	Q8TCG1	CIP2A_HUMAN	H	154;313	ENSP00000419487:R154H;ENSP00000295746:R313H	ENSP00000295746:R313H	R	-	2	0	KIAA1524	109771101	1.000000	0.71417	1.000000	0.80357	0.952000	0.60782	6.424000	0.73366	2.773000	0.95371	0.655000	0.94253	CGC		0.418	KIAA1524-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353975.2	NM_020890		T	108288411	C	T	108288411	3	4	690	1	0	0	0	0	1	0	0	0	8246	768	27	1	1831	1	KIAA1524	3	108288411	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	58132597	108288411	89734019	24	44793										
WDR52	55779	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	113120585	113120585	+	Splice_Site	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ctattgtctcaaaatcccatAtcttgtaaaatgaaaagaaa	4	7	2	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr3:113120585A>C	ENST00000295868.2	-	10	1334	c.1172T>G	c.(1171-1173)aTa>aGa	p.I391R	WDR52-AS1_ENST00000498480.1_RNA|WDR52-AS1_ENST00000473329.1_RNA|WDR52_ENST00000393845.2_Splice_Site_p.I391R	NM_018338.3	NP_060808.2														breast(2)|central_nervous_system(3)|endometrium(3)|kidney(5)|large_intestine(7)|lung(26)|prostate(1)|urinary_tract(2)	49						AAAATCCCATATCTTGTAAAA	0.308																																																0													60	60	60					3																	113120585		2203	4298	6501	SO:0001630	splice_region_variant	55779																														ENST00000295868.2:c.1171-1T>G	3.37:g.113120585A>C		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000295868.2	37	CCDS2972.1	.	.	.	.	.	.	.	.	.	.	A	19.49	3.838251	0.71373	.	.	ENSG00000206530	ENST00000393845;ENST00000295868	T;T	0.70631	-0.5;3.01	5.63	5.63	0.86233	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40 repeat, conserved site (1);WD40-repeat-containing domain (1);	.	.	.	.	T	0.79446	0.4447	L	0.59436	1.845	0.80722	D	1	D	0.69078	0.997	P	0.59012	0.85	T	0.81839	-0.0748	9	0.87932	D	0	.	15.8341	0.78787	1.0:0.0:0.0:0.0	.	391	Q96MT7	WDR52_HUMAN	R	391	ENSP00000377428:I391R;ENSP00000295868:I391R	ENSP00000295868:I391R	I	-	2	0	WDR52	114603275	1.000000	0.71417	1.000000	0.80357	0.967000	0.64934	4.300000	0.59079	2.144000	0.66660	0.533000	0.62120	ATA		0.308	WDR52-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000354128.3		Missense_Mutation	C	113120585	A	C	113120585	5	2	690	1	0	0	0	0	0	0	1	0	17316	463	16	5	4511	5	WDR52	3	113120585	Splice_Site	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	4832174	113120585	84901845	25	44794										
KALRN	8997	broad.mit.edu	37	chr3	124209630	124209630	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	agtcgctgatccggaaggggCgggagcggcacttgttcctc	16	11	0	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr3:124209630C>T	ENST00000240874.3	+	30	4637	c.4480C>T	c.(4480-4482)Cgg>Tgg	p.R1494W	KALRN_ENST00000360013.3_Missense_Mutation_p.R1494W|KALRN_ENST00000460856.1_Missense_Mutation_p.R1485W	NM_003947.4	NP_003938.1	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase	1494	PH 1. {ECO:0000255|PROSITE- ProRule:PRU00145}.				apoptotic signaling pathway (GO:0097190)|intracellular signal transduction (GO:0035556)|nervous system development (GO:0007399)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|positive regulation of GTPase activity (GO:0043547)|protein phosphorylation (GO:0006468)|regulation of small GTPase mediated signal transduction (GO:0051056)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)|vesicle-mediated transport (GO:0016192)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|guanyl-nucleotide exchange factor activity (GO:0005085)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			NS(1)|breast(1)|central_nervous_system(1)|cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(21)|lung(28)|ovary(4)|prostate(5)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	83						CCGGAAGGGGCGGGAGCGGCA	0.488																																																0													74	82	79					3																	124209630		2203	4300	6503	SO:0001583	missense	8997			U94190	CCDS3027.1, CCDS3028.1	3q21.2	2013-02-11	2005-03-11	2005-03-12	ENSG00000160145	ENSG00000160145		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	4814	protein-coding gene	gene with protein product	"serine/threonine kinase with Dbl and pleckstrin homology domains"	604605	"huntingtin-associated protein interacting protein (duo)"	HAPIP		9285789, 10023074	Standard	NM_001024660		Approved	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24	uc003ehd.3	O60229	OTTHUMG00000125545	ENST00000240874.3:c.4480C>T	3.37:g.124209630C>T	ENSP00000240874:p.Arg1494Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A8MSI4|C9JQ37|Q6ZN45|Q8TBQ5|Q9NSZ4|Q9Y2A5	Missense_Mutation	SNP	ENST00000240874.3	37	CCDS3027.1	.	.	.	.	.	.	.	.	.	.	C	20.3	3.974277	0.74246	.	.	ENSG00000160145	ENST00000460856;ENST00000240874;ENST00000360013	T;T;T	0.12147	2.71;2.71;2.71	5.28	5.28	0.74379	Pleckstrin homology-type (1);Pleckstrin homology domain (2);	0.000000	0.64402	D	0.000001	T	0.47838	0.1467	M	0.89840	3.065	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;0.987;1.0	T	0.56739	-0.7929	10	0.87932	D	0	.	19.1106	0.93315	0.0:1.0:0.0:0.0	.	1485;1494;1494	C9IZQ6;O60229;O60229-2	.;KALRN_HUMAN;.	W	1485;1494;1494	ENSP00000418611:R1485W;ENSP00000240874:R1494W;ENSP00000353109:R1494W	ENSP00000240874:R1494W	R	+	1	2	KALRN	125692320	0.996000	0.38824	1.000000	0.80357	0.993000	0.82548	3.539000	0.53604	2.763000	0.94921	0.650000	0.86243	CGG		0.488	KALRN-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000258843.4	NM_003947		T	124209630	C	T	124209630	3	4	690	1	0	0	0	0	1	0	0	0	7982	759	27	1	4598	1	KALRN	3	124209630	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	11089045	124209630	73812800	26	44795										
IFT122	55764	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	129214436	129214436	+	Frame_Shift_Del	DEL	T	T	-													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tgtacaccgacctctgcatgTttgagtatgccaaggtaacc							TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr3:129214436delT	ENST00000348417.2	+	18	2271	c.2194delT	c.(2194-2196)tttfs	p.F732fs	IFT122_ENST00000349441.2_Frame_Shift_Del_p.F621fs|IFT122_ENST00000347300.2_Frame_Shift_Del_p.F673fs|IFT122_ENST00000507564.1_Frame_Shift_Del_p.F724fs|IFT122_ENST00000440957.2_Frame_Shift_Del_p.F523fs|IFT122_ENST00000504021.1_Frame_Shift_Del_p.F608fs|IFT122_ENST00000513932.1_3'UTR|IFT122_ENST00000296266.3_Frame_Shift_Del_p.F783fs|IFT122_ENST00000431818.2_Frame_Shift_Del_p.F582fs	NM_052989.1	NP_443715.1	Q9HBG6	IF122_HUMAN	intraflagellar transport 122	732					camera-type eye morphogenesis (GO:0048593)|ciliary receptor clustering involved in smoothened signaling pathway (GO:0060830)|cilium morphogenesis (GO:0060271)|embryonic body morphogenesis (GO:0010172)|embryonic digit morphogenesis (GO:0042733)|embryonic forelimb morphogenesis (GO:0035115)|embryonic heart tube development (GO:0035050)|embryonic heart tube left/right pattern formation (GO:0060971)|establishment of protein localization to organelle (GO:0072594)|intraciliary anterograde transport (GO:0035720)|intraciliary retrograde transport (GO:0035721)|limb development (GO:0060173)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of smoothened signaling pathway involved in ventral spinal cord patterning (GO:0021914)|neural tube closure (GO:0001843)|protein localization to cilium (GO:0061512)|signal transduction downstream of smoothened (GO:0007227)|smoothened signaling pathway involved in dorsal/ventral neural tube patterning (GO:0060831)	ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|intraciliary transport particle A (GO:0030991)|membrane (GO:0016020)|photoreceptor connecting cilium (GO:0032391)|primary cilium (GO:0072372)				breast(3)|cervix(1)|endometrium(9)|large_intestine(10)|lung(21)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	52						CCTCTGCATGTTTGAGTATGC	0.537																																																0													118	106	110					3																	129214436		2203	4300	6503	SO:0001589	frameshift_variant	55764			AF244930	CCDS3059.1, CCDS3060.1, CCDS3061.1, CCDS3062.1, CCDS63770.1, CCDS63772.1, CCDS63773.1	3q21	2014-07-03	2014-07-03	2005-11-02	ENSG00000163913	ENSG00000163913		"WD repeat domain containing", "Intraflagellar transport homologs"	13556	protein-coding gene	gene with protein product		606045	"WD repeat domain 10", "intraflagellar transport 122 homolog (Chlamydomonas)"	WDR10		11242542	Standard	NM_052985		Approved	WDR140, WDR10p, SPG	uc003emm.3	Q9HBG6	OTTHUMG00000159516	ENST00000348417.2:c.2194delT	3.37:g.129214436delT	ENSP00000324005:p.Phe732fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KW53|B4DEY9|B4DPW7|E7EQF4|E9PDG2|E9PDX2|G3XAB1|H7C3C0|Q53G36|Q8TC06|Q9BTB9|Q9BTY4|Q9HAT9|Q9HBG5|Q9NV68|Q9UF80	Frame_Shift_Del	DEL	ENST00000348417.2	37	CCDS3061.1																																																																																				0.537	IFT122-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000355852.1	NM_018262		-	129214436	T	-	129214436	7	5	690	1	0	1	0	1	0	0	0	0	7562	1725	60	0	2421	0	IFT122	3	129214436	Frame_Shift_Del	DEL	T	TCGA-MH-A55W-01A-11D-A26P-10	5004806	129214436	68807994	27	44796										
CCRL1	51554	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	132319273	132319273	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	acagaaccagtcaacagattAttattatgaggaaaatgaaa	7	5	1	4			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr3:132319273A>C	ENST00000249887.2	+	2	128	c.32A>C	c.(31-33)tAt>tCt	p.Y11S	ACAD11_ENST00000264990.6_Intron|ACAD11_ENST00000355458.3_Intron|ACAD11_ENST00000545291.1_Intron	NM_016557.2|NM_178445.2	NP_057641.1|NP_848540.1	Q9NPB9	ACKR4_HUMAN	atypical chemokine receptor 4	11					chemokine-mediated signaling pathway (GO:0070098)|chemotaxis (GO:0006935)|G-protein coupled receptor signaling pathway (GO:0007186)|immune response (GO:0006955)	endosome (GO:0005768)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	chemokine receptor activity (GO:0004950)|scavenger receptor activity (GO:0005044)										TCAACAGATTATTATTATGAG	0.343																																																0													26	27	27					3																	132319273		2200	4297	6497	SO:0001583	missense	51554			AF110640	CCDS3075.1	3q22	2013-07-17	2013-07-16	2013-07-16	ENSG00000129048	ENSG00000129048		"GPCR / Class A : Chemokine receptors : Atypical"	1611	protein-coding gene	gene with protein product		606065	"chemokine (C-C motif) receptor-like 1"	CCRL1		10767544, 16148	Standard	NM_016557		Approved	CCR11, CCBP2, VSHK1, CCX-CKR, PPR1	uc003eow.3	Q9NPB9	OTTHUMG00000159768	ENST00000249887.2:c.32A>C	3.37:g.132319273A>C	ENSP00000249887:p.Tyr11Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9U7	Missense_Mutation	SNP	ENST00000249887.2	37	CCDS3075.1	.	.	.	.	.	.	.	.	.	.	A	13.28	2.190302	0.38707	.	.	ENSG00000129048	ENST00000249887;ENST00000424114	T	0.35048	1.33	5.22	5.22	0.72569	.	0.306400	0.31949	N	0.006803	T	0.26085	0.0636	L	0.43152	1.355	0.48511	D	0.999662	P	0.39480	0.675	B	0.33121	0.158	T	0.05257	-1.0896	10	0.21540	T	0.41	.	10.5061	0.44834	0.8378:0.1622:0.0:0.0	.	11	Q9NPB9	CCRL1_HUMAN	S	11	ENSP00000249887:Y11S	ENSP00000249887:Y11S	Y	+	2	0	CCRL1	133801963	1.000000	0.71417	1.000000	0.80357	0.926000	0.56050	5.519000	0.67074	1.970000	0.57323	0.482000	0.46254	TAT		0.343	ACKR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357238.2	NM_016557		C	132319273	A	C	132319273	3	2	690	1	0	0	0	0	1	0	0	0	2951	449	16	5	34	5	CCRL1	3	132319273	Missense_Mutation	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	3104837	132319273	65703157	28	44797										
MYNN	55892	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	169496621	169496621	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ggaagaggtggtcactaaatGcaaaataaagatggaagatt	12	3	1	3			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr3:169496621G>A	ENST00000349841.5	+	3	995	c.332G>A	c.(331-333)tGc>tAc	p.C111Y	MYNN_ENST00000392733.1_Missense_Mutation_p.C111Y|MYNN_ENST00000356716.4_Missense_Mutation_p.C111Y|MYNN_ENST00000544106.1_Missense_Mutation_p.C111Y|RP11-362K14.5_ENST00000602342.1_RNA	NM_018657.4	NP_061127.1	Q9NPC7	MYNN_HUMAN	myoneurin	111					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|kidney(3)|large_intestine(2)|lung(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	16	all_cancers(22;9.55e-22)|all_epithelial(15;2.04e-26)|all_lung(20;5.05e-16)|Lung NSC(18;2.19e-15)|Ovarian(172;0.000223)|Breast(254;0.197)		Epithelial(2;4.03e-64)|all cancers(2;2.19e-58)|Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00676)			GTCACTAAATGCAAAATAAAG	0.348																																																0													92	98	96					3																	169496621		2203	4300	6503	SO:0001583	missense	55892			AF148848	CCDS3207.1, CCDS54671.1	3q26.31	2013-01-09			ENSG00000085274	ENSG00000085274		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	14955	protein-coding gene	gene with protein product		606042				10873615	Standard	NM_001185118		Approved	SBBIZ1, ZBTB31, ZNF902	uc010hwo.3	Q9NPC7		ENST00000349841.5:c.332G>A	3.37:g.169496621G>A	ENSP00000326240:p.Cys111Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6C9|Q6QHA6|Q6QHA7|Q6R3G1|Q6R3G2|Q6R4A0|Q7Z716|Q7Z717|Q86Z11|Q86Z12|Q9NS01|Q9UIW8	Missense_Mutation	SNP	ENST00000349841.5	37	CCDS3207.1	.	.	.	.	.	.	.	.	.	.	G	17.29	3.352343	0.61293	.	.	ENSG00000085274	ENST00000356716;ENST00000349841;ENST00000392733;ENST00000544106	T;T;T;T	0.78364	-1.17;-1.17;-1.17;-1.17	5.54	5.54	0.83059	BTB/POZ-like (1);BTB/POZ (1);BTB/POZ fold (2);	0.000000	0.85682	D	0.000000	D	0.93530	0.7935	H	0.98802	4.335	0.49915	D	0.999837	D;D	0.76494	0.999;0.998	D;D	0.81914	0.995;0.992	D	0.95900	0.8914	10	0.87932	D	0	.	19.4966	0.95075	0.0:0.0:1.0:0.0	.	111;111	Q9NPC7-2;Q9NPC7	.;MYNN_HUMAN	Y	111	ENSP00000349150:C111Y;ENSP00000326240:C111Y;ENSP00000376492:C111Y;ENSP00000440637:C111Y	ENSP00000326240:C111Y	C	+	2	0	MYNN	170979315	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	5.825000	0.69286	2.616000	0.88540	0.650000	0.86243	TGC		0.348	MYNN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467801.1	NM_018657		A	169496621	G	A	169496621	3	1	690	1	0	0	0	0	1	0	0	0	10068	1319	46	2	338	2	MYNN	3	169496621	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	37177348	169496621	28525809	29	44798										
ATP11B	23200	broad.mit.edu	37	chr3	182607235	182607235	+	Frame_Shift_Del	DEL	T	T	-													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gcctcttaagtattaaaacaTttctttattggaccatcctg							TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr3:182607235delT	ENST00000323116.5	+	25	3141	c.2881delT	c.(2881-2883)tttfs	p.F961fs		NM_014616.2	NP_055431.1	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	961					aminophospholipid transport (GO:0015917)|ion transmembrane transport (GO:0034220)|ion transport (GO:0006811)|phospholipid translocation (GO:0045332)|transmembrane transport (GO:0055085)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nuclear inner membrane (GO:0005637)|plasma membrane (GO:0005886)|recycling endosome (GO:0055037)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|ion transmembrane transporter activity (GO:0015075)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			breast(3)|cervix(2)|endometrium(2)|kidney(4)|large_intestine(6)|liver(2)|lung(14)|ovary(2)|pancreas(2)|prostate(1)|skin(2)|urinary_tract(1)	41	all_cancers(143;9.04e-15)|Ovarian(172;0.0355)		all cancers(12;1.2e-42)|Epithelial(37;2.77e-36)|LUSC - Lung squamous cell carcinoma(7;7.58e-24)|Lung(8;4.66e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.35e-20)			TATTAAAACATTTCTTTATTG	0.328																																																0													78	79	79					3																	182607235		2201	4299	6500	SO:0001589	frameshift_variant	23200			AF156548	CCDS33896.1	3q27	2010-04-20	2007-09-19		ENSG00000058063	ENSG00000058063		"ATPases / P-type"	13553	protein-coding gene	gene with protein product		605869	"ATPase, Class VI, type 11B"			10231032, 11015572	Standard	NM_014616		Approved	ATPIF, ATPIR, KIAA0956	uc003flb.3	Q9Y2G3	OTTHUMG00000158295	ENST00000323116.5:c.2881delT	3.37:g.182607235delT	ENSP00000321195:p.Phe961fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q96FN1|Q9UKK7	Frame_Shift_Del	DEL	ENST00000323116.5	37	CCDS33896.1																																																																																				0.328	ATP11B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350598.1	NM_014616		-	182607235	T	-	182607235	7	5	690	1	0	1	0	1	0	0	0	0	1120	1493	52	0	2979	0	ATP11B	3	182607235	Frame_Shift_Del	DEL	T	TCGA-MH-A55W-01A-11D-A26P-10	13110614	182607235	15415195	30	44799										
KNG1	3827	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	186435425	186435425	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	aaattgactgcaatgacaagGatttatttaaagctgtggat	9	4	0	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr3:186435425G>T	ENST00000265023.4	+	1	306	c.94G>T	c.(94-96)Gat>Tat	p.D32Y	RP11-573D15.8_ENST00000599314.1_RNA|KNG1_ENST00000447445.1_Missense_Mutation_p.D32Y|KNG1_ENST00000287611.2_Missense_Mutation_p.D32Y	NM_001102416.2	NP_001095886.1	P01042	KNG1_HUMAN	kininogen 1	32	Cystatin kininogen-type 1. {ECO:0000255|PROSITE-ProRule:PRU00979}.				blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|inflammatory response (GO:0006954)|negative regulation of blood coagulation (GO:0030195)|negative regulation of cell adhesion (GO:0007162)|negative regulation of endopeptidase activity (GO:0010951)|negative regulation of proteolysis (GO:0045861)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of renal sodium excretion (GO:0035815)|positive regulation of urine volume (GO:0035810)|smooth muscle contraction (GO:0006939)|vasodilation (GO:0042311)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)|platelet alpha granule lumen (GO:0031093)	cysteine-type endopeptidase inhibitor activity (GO:0004869)|heparin binding (GO:0008201)|receptor binding (GO:0005102)|zinc ion binding (GO:0008270)			endometrium(1)|lung(15)|prostate(1)|skin(2)|stomach(2)	21	all_cancers(143;8.96e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;4.12e-20)	GBM - Glioblastoma multiforme(93;0.0798)		CAATGACAAGGATTTATTTAA	0.393																																																0													119	121	121					3																	186435425		2203	4299	6502	SO:0001583	missense	3827				CCDS3281.1, CCDS43183.1, CCDS54695.1	3q27.3	2014-05-15	2004-05-21	2004-05-26	ENSG00000113889	ENSG00000113889		"Endogenous ligands"	6383	protein-coding gene	gene with protein product	"alpha-2-thiol proteinase inhibitor", "bradykinin"	612358	"kininogen"	KNG, BDK		1733668	Standard	NM_000893		Approved	BK	uc011bsa.2	P01042	OTTHUMG00000150348	ENST00000265023.4:c.94G>T	3.37:g.186435425G>T	ENSP00000265023:p.Asp32Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K474|B2RCR2|C9JEX1|P01043|Q53EQ0|Q6PAU9|Q7M4P1	Missense_Mutation	SNP	ENST00000265023.4	37	CCDS43183.1	.	.	.	.	.	.	.	.	.	.	G	13.29	2.192786	0.38707	.	.	ENSG00000113889	ENST00000287611;ENST00000265023;ENST00000447445;ENST00000432028	T;T;T	0.29655	1.56;1.56;1.56	5.2	4.31	0.51392	Proteinase inhibitor I25, cystatin (2);	0.603229	0.15391	N	0.264803	T	0.51805	0.1696	M	0.71581	2.175	0.22017	N	0.999412	D;D	0.89917	0.994;1.0	D;D	0.72075	0.976;0.975	T	0.39014	-0.9634	10	0.51188	T	0.08	-6.5792	10.4191	0.44340	0.0929:0.0:0.9071:0.0	.	32;32	P01042;P01042-2	KNG1_HUMAN;.	Y	32;32;32;20	ENSP00000287611:D32Y;ENSP00000265023:D32Y;ENSP00000396025:D32Y	ENSP00000265023:D32Y	D	+	1	0	KNG1	187918119	0.221000	0.23642	0.035000	0.18076	0.403000	0.30841	2.124000	0.42006	1.302000	0.44855	0.455000	0.32223	GAT		0.393	KNG1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000317738.1	NM_001102416		T	186435425	G	T	186435425	3	4	690	1	0	0	0	0	1	0	0	0	8434	1174	41	4	96	4	KNG1	3	186435425	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	3828190	186435425	11587005	31	44800										
CPZ	8532	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	8607801	8607801	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	atctacctagcccagtacctGtgctctgagtacctgcttgg	9	13	2	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr4:8607801G>C	ENST00000360986.4	+	5	969	c.795G>C	c.(793-795)ctG>ctC	p.L265L	CPZ_ENST00000382480.2_Silent_p.L128L|CPZ_ENST00000429646.2_5'UTR|CPZ_ENST00000315782.6_Silent_p.L254L	NM_001014447.2	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z	265					proteolysis (GO:0006508)|Wnt signaling pathway (GO:0016055)	extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)	metallocarboxypeptidase activity (GO:0004181)|zinc ion binding (GO:0008270)			cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(23)|ovary(3)|pancreas(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	46						CCCAGTACCTGTGCTCTGAGT	0.607																																																0													147	112	124					4																	8607801		2203	4300	6503	SO:0001819	synonymous_variant	8532			U83411	CCDS3404.1, CCDS33953.1, CCDS43212.1	4p16.1	2012-02-10			ENSG00000109625	ENSG00000109625			2333	protein-coding gene	gene with protein product	"metallocarboxypeptidase Z"	603105				9099699	Standard	NM_001014447		Approved		uc003glm.3	Q66K79	OTTHUMG00000090513	ENST00000360986.4:c.795G>C	4.37:g.8607801G>C		Somatic		WXS	Illumina HiSeq	Phase_I	O00520|Q96MX2	Silent	SNP	ENST00000360986.4	37	CCDS33953.1																																																																																				0.607	CPZ-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000207001.4	NM_003652		C	8607801	G	C	8607801	2	2	690	1	0	0	0	0	0	0	0	1	3841	1364	48	4		4	CPZ	4	8607801	Silent	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10		8607801	182546475	32	44801										
TBC1D19	55296	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	26585819	26585819	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gggctagggcaggggaaatgTtgcaggaggagtcggacctc	19	7	0	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr4:26585819T>C	ENST00000264866.4	+	1	282	c.4T>C	c.(4-6)Ttg>Ctg	p.L2L	TBC1D19_ENST00000511789.1_Silent_p.L2L	NM_018317.2	NP_060787.2	Q8N5T2	TBC19_HUMAN	TBC1 domain family, member 19	2							Rab GTPase activator activity (GO:0005097)			breast(4)|endometrium(1)|kidney(1)|large_intestine(1)|lung(8)|skin(1)|upper_aerodigestive_tract(1)	17		Breast(46;0.0503)				AGGGGAAATGTTGCAGGAGGA	0.627																																																0													44	45	45					4																	26585819		2203	4298	6501	SO:0001819	synonymous_variant	55296			AK001944	CCDS3439.1, CCDS75115.1	4p15.2	2008-02-05			ENSG00000109680	ENSG00000109680			25624	protein-coding gene	gene with protein product							Standard	XM_006713967		Approved	FLJ11082	uc003gsf.4	Q8N5T2	OTTHUMG00000097797	ENST00000264866.4:c.4T>C	4.37:g.26585819T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B9A6M0|Q9NUX1	Silent	SNP	ENST00000264866.4	37	CCDS3439.1																																																																																				0.627	TBC1D19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215052.2	NM_018317		C	26585819	T	C	26585819	2	2	690	1	0	0	0	0	0	0	0	1	15619	1722	60	3		3	TBC1D19	4	26585819	Silent	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10	17978018	26585819	164568457	33	44802										
N4BP2	55728	ucsc.edu	37	chr4	40122111	40122111	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ttgttggtgactggccagttGataagactattggtcagagg	14	5	1	4			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr4:40122111G>A	ENST00000261435.6	+	9	2796	c.2380G>A	c.(2380-2382)Gat>Aat	p.D794N		NM_018177.4	NP_060647.2	Q86UW6	N4BP2_HUMAN	NEDD4 binding protein 2	794					nucleic acid phosphodiester bond hydrolysis (GO:0090305)|phosphorylation (GO:0016310)	cytosol (GO:0005829)	ATP binding (GO:0005524)|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity (GO:0046404)|endonuclease activity (GO:0004519)			breast(4)|endometrium(3)|kidney(12)|large_intestine(7)|liver(2)|lung(22)|ovary(1)|pancreas(1)|prostate(2)|skin(5)|upper_aerodigestive_tract(1)	60						CTGGCCAGTTGATAAGACTAT	0.363																																																0													49	50	50					4																	40122111		2203	4299	6502	SO:0001583	missense	55728			AB037834	CCDS3457.1	4p14	2008-01-18			ENSG00000078177	ENSG00000078177			29851	protein-coding gene	gene with protein product	"BCL-3 binding protein"					10718198, 11717310	Standard	NM_018177		Approved	B3BP	uc003guy.4	Q86UW6	OTTHUMG00000128599	ENST00000261435.6:c.2380G>A	4.37:g.40122111G>A	ENSP00000261435:p.Asp794Asn	Somatic		WXS	Illumina HiSeq		A0AVR3|Q9NVK2|Q9P2D4	Missense_Mutation	SNP	ENST00000261435.6	37	CCDS3457.1	.	.	.	.	.	.	.	.	.	.	G	20.9	4.067078	0.76301	.	.	ENSG00000078177	ENST00000261435;ENST00000381804	T	0.20881	2.04	5.64	5.64	0.86602	.	0.119478	0.53938	D	0.000057	T	0.31949	0.0813	L	0.56769	1.78	0.39414	D	0.966804	P;P	0.46142	0.873;0.799	P;B	0.47346	0.544;0.343	T	0.06075	-1.0847	10	0.72032	D	0.01	-15.067	16.7169	0.85399	0.0:0.1289:0.8711:0.0	.	794;794	Q86UW6-2;Q86UW6	.;N4BP2_HUMAN	N	794;714	ENSP00000261435:D794N	ENSP00000261435:D794N	D	+	1	0	N4BP2	39798506	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.227000	0.58612	2.681000	0.91329	0.561000	0.74099	GAT		0.363	N4BP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250458.2	NM_018177		A	40122111	G	A	40122111	3	1	690	1	0	0	0	0	1	0	0	0	10117	1290	45	2	2406	2	N4BP2	4	40122111	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	13536292	40122111	151032165	34	44803										
GRSF1	2926	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	71702003	71702003	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	catactcagggggtggtggaAggtcttccaggtaagtagtt	15	6	2	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr4:71702003A>G	ENST00000254799.6	-	2	503	c.386T>C	c.(385-387)cTt>cCt	p.L129P	GRSF1_ENST00000439371.1_5'UTR|GRSF1_ENST00000545193.1_Missense_Mutation_p.L11P|GRSF1_ENST00000502323.1_5'UTR|GRSF1_ENST00000508091.1_5'UTR	NM_002092.3	NP_002083	Q12849	GRSF1_HUMAN	G-rich RNA sequence binding factor 1	129	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				anterior/posterior pattern specification (GO:0009952)|morphogenesis of embryonic epithelium (GO:0016331)|mRNA polyadenylation (GO:0006378)|tRNA processing (GO:0008033)	cytoplasm (GO:0005737)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)	mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(9)|upper_aerodigestive_tract(2)	17		all_hematologic(202;0.21)	Lung(101;0.235)			GGGTGGTGGAAGGTCTTCCAG	0.413																																																0													82	84	83					4																	71702003		1848	4089	5937	SO:0001583	missense	2926			BC040485	CCDS47069.1, CCDS47070.1	4q13	2013-07-16				ENSG00000132463		"RNA binding motif (RRM) containing"	4610	protein-coding gene	gene with protein product		604851				8036161	Standard	NM_001098477		Approved		uc010iia.1	Q12849		ENST00000254799.6:c.386T>C	4.37:g.71702003A>G	ENSP00000254799:p.Leu129Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPW0|Q4W5S5|Q6ZST3|Q8IWD6|Q8NBD2	Missense_Mutation	SNP	ENST00000254799.6	37	CCDS47069.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	14.72|14.72	2.619082|2.619082	0.46736|0.46736	.|.	.|.	ENSG00000132463|ENSG00000132463	ENST00000514161|ENST00000254799;ENST00000540657;ENST00000499044;ENST00000545193	.|T;T;T	.|0.21734	.|2.05;2.03;1.99	4.51|4.51	4.51|4.51	0.55191|0.55191	.|RNA recognition motif domain (1);	.|0.718315	.|0.12425	.|N	.|0.470117	T|T	0.15998|0.15998	0.0385|0.0385	N|N	0.22421|0.22421	0.69|0.69	0.80722|0.80722	D|D	1|1	.|P;P	.|0.47350	.|0.79;0.894	.|B;P	.|0.45037	.|0.202;0.467	T|T	0.02917|0.02917	-1.1094|-1.1094	5|10	.|0.45353	.|T	.|0.12	-2.599|-2.599	5.3313|5.3313	0.15934|0.15934	0.6438:0.1816:0.0:0.1746|0.6438:0.1816:0.0:0.1746	.|.	.|42;129	.|B7Z5F9;Q12849	.|.;GRSF1_HUMAN	L|P	66|129;61;102;11	.|ENSP00000254799:L129P;ENSP00000427354:L102P;ENSP00000443380:L11P	.|ENSP00000254799:L129P	F|L	-|-	1|2	0|0	GRSF1|GRSF1	71920867|71920867	0.827000|0.827000	0.29292|0.29292	0.959000|0.959000	0.39883|0.39883	0.674000|0.674000	0.39518|0.39518	3.964000|3.964000	0.56780|0.56780	1.881000|1.881000	0.54492|0.54492	0.533000|0.533000	0.62120|0.62120	TTC|CTT		0.413	GRSF1-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362642.1	NM_002092		G	71702003	A	G	71702003	3	3	690	1	0	0	0	0	1	0	0	0	6816	72	3	3	1088	3	GRSF1	4	71702003	Missense_Mutation	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	31579892	71702003	119452273	35	44804										
TBC1D9	23158	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	141600812	141600812	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	taaaagcaaaggtggttaatGctgaggtacatccaaccctg	10	8	0	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr4:141600812G>A	ENST00000442267.2	-	4	620	c.546C>T	c.(544-546)agC>agT	p.S182S		NM_015130.2	NP_055945.2	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	182	GRAM 1.						calcium ion binding (GO:0005509)|Rab GTPase activator activity (GO:0005097)			endometrium(3)|kidney(2)|large_intestine(3)|lung(18)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	31	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				GGTGGTTAATGCTGAGGTACA	0.448																																																0													69	67	67					4																	141600812		1837	4092	5929	SO:0001819	synonymous_variant	23158			AB020689	CCDS47136.1	4q31.1	2013-01-10	2006-07-12		ENSG00000109436	ENSG00000109436		"EF-hand domain containing"	21710	protein-coding gene	gene with protein product			"TBC1 domain family, member 9"			12970790	Standard	NM_015130		Approved	KIAA0882, MDR1	uc010ioj.3	Q6ZT07	OTTHUMG00000161405	ENST00000442267.2:c.546C>T	4.37:g.141600812G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6H8U8|D3DNZ1|O94958	Silent	SNP	ENST00000442267.2	37	CCDS47136.1																																																																																				0.448	TBC1D9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364806.1	NM_015130		A	141600812	G	A	141600812	2	1	690	1	0	0	0	0	0	0	0	1	15639	1310	46	2		2	TBC1D9	4	141600812	Silent	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	69898809	141600812	49553464	36	44805										
EGFLAM	133584	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	38418272	38418272	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	acaaaccgaggctttcaaggCtgtgtgcagtcgctcgctgt	12	11	1	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr5:38418272C>A	ENST00000354891.3	+	12	1945	c.1599C>A	c.(1597-1599)ggC>ggA	p.G533G	EGFLAM_ENST00000397202.2_Intron|EGFLAM_ENST00000322350.5_Silent_p.G533G|EGFLAM_ENST00000336740.6_Silent_p.G299G	NM_001205301.1	NP_001192230.1	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G domains	533	Laminin G-like 1. {ECO:0000255|PROSITE- ProRule:PRU00122}.				extracellular matrix organization (GO:0030198)|peptide cross-linking via chondroitin 4-sulfate glycosaminoglycan (GO:0019800)|positive regulation of cell-substrate adhesion (GO:0010811)	basement membrane (GO:0005604)|cell junction (GO:0030054)|interstitial matrix (GO:0005614)|synapse (GO:0045202)	glycosaminoglycan binding (GO:0005539)			NS(1)|breast(3)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|lung(43)|ovary(1)|pancreas(3)|prostate(1)|skin(8)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	85	all_lung(31;0.000385)					GCTTTCAAGGCTGTGTGCAGT	0.542																																					Colon(62;485 1295 3347 17454)											0													96	100	98					5																	38418272		2203	4300	6503	SO:0001819	synonymous_variant	133584			AK097549	CCDS3924.1, CCDS3925.1, CCDS47199.1, CCDS56363.1	5p13.2-p13.1	2014-04-03			ENSG00000164318	ENSG00000164318		"Fibronectin type III domain containing"	26810	protein-coding gene	gene with protein product	"pikachurin", "agrin-like"					18641643, 20078962, 22760553	Standard	NM_182801		Approved	FLJ39155, AGRINL, AGRNL, PIKA	uc003jlc.2	Q63HQ2	OTTHUMG00000131139	ENST00000354891.3:c.1599C>A	5.37:g.38418272C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6D7|Q5U643|Q6P3V1|Q8N124|Q8N197|Q8N7Y0|Q8N8N5|Q8NAL2	Silent	SNP	ENST00000354891.3	37	CCDS56363.1																																																																																				0.542	EGFLAM-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000367323.1	NM_152403		A	38418272	C	A	38418272	2	1	690	1	0	0	0	0	0	0	0	1	4968	784	28	4		4	EGFLAM	5	38418272	Silent	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10		38418272	142496988	37	44806										
DAB2	1601	broad.mit.edu	37	chr5	39383200	39383200	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ggatcaggattaggggtgggAaagaagttgagattggcaga	18	2	1	3			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr5:39383200A>G	ENST00000320816.6	-	10	1328	c.861T>C	c.(859-861)ttT>ttC	p.F287F	DAB2_ENST00000509337.1_Silent_p.F266F|DAB2_ENST00000339788.6_Intron|DAB2_ENST00000545653.1_Silent_p.F266F|DAB2_ENST00000512525.1_5'Flank	NM_001343.3	NP_001334.2	P98082	DAB2_HUMAN	Dab, mitogen-responsive phosphoprotein, homolog 2 (Drosophila)	287	Required for localization to clathrin- coated pits. {ECO:0000250}.				activation of JUN kinase activity (GO:0007257)|apoptotic process (GO:0006915)|cell morphogenesis involved in differentiation (GO:0000904)|cell proliferation (GO:0008283)|cellular response to transforming growth factor beta stimulus (GO:0071560)|clathrin coat assembly (GO:0048268)|endoderm development (GO:0007492)|excretion (GO:0007588)|in utero embryonic development (GO:0001701)|leading edge cell differentiation (GO:0035026)|membrane organization (GO:0061024)|myeloid cell differentiation (GO:0030099)|negative regulation of androgen receptor signaling pathway (GO:0060766)|negative regulation of apoptotic process (GO:0043066)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of protein binding (GO:0032091)|negative regulation of protein localization to plasma membrane (GO:1903077)|negative regulation of transcription, DNA-templated (GO:0045892)|pinocytosis (GO:0006907)|positive regulation of cell migration (GO:0030335)|positive regulation of clathrin-mediated endocytosis (GO:2000370)|positive regulation of early endosome to late endosome transport (GO:2000643)|positive regulation of endocytosis (GO:0045807)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|positive regulation of integrin-mediated signaling pathway (GO:2001046)|positive regulation of pathway-restricted SMAD protein phosphorylation (GO:0010862)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of receptor recycling (GO:0001921)|positive regulation of SMAD protein import into nucleus (GO:0060391)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|positive regulation of transcription elongation from RNA polymerase II promoter (GO:0032968)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|positive regulation of Wnt signaling pathway, planar cell polarity pathway (GO:2000096)|protein transport (GO:0015031)|receptor-mediated endocytosis (GO:0006898)|Wnt signaling pathway (GO:0016055)	apical plasma membrane (GO:0016324)|clathrin coat of coated pit (GO:0030132)|clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal membrane (GO:0005765)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)	cargo receptor activity (GO:0038024)|clathrin adaptor activity (GO:0035615)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|protein C-terminus binding (GO:0008022)|SMAD binding (GO:0046332)			autonomic_ganglia(1)|breast(3)|central_nervous_system(1)|endometrium(1)|kidney(5)|large_intestine(9)|lung(19)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)	47	all_lung(31;0.000197)		Epithelial(62;0.137)			TAGGGGTGGGAAAGAAGTTGA	0.473																																																0													143	150	148					5																	39383200		2203	4300	6503	SO:0001819	synonymous_variant	1601			U53446	CCDS34149.1, CCDS58946.1	5p13.1	2013-10-03	2013-03-08		ENSG00000153071	ENSG00000153071			2662	protein-coding gene	gene with protein product		601236	"disabled (Drosophila) homolog 2 (mitogen-responsive phosphoprotein)", "disabled homolog 2, mitogen-responsive phosphoprotein (Drosophila)"			8660969, 9620555	Standard	NM_001343		Approved	DOC-2	uc003jlx.3	P98082	OTTHUMG00000162043	ENST00000320816.6:c.861T>C	5.37:g.39383200A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NES5|Q13598|Q9BTY0|Q9UK04	Silent	SNP	ENST00000320816.6	37	CCDS34149.1																																																																																				0.473	DAB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367014.1	NM_001343		G	39383200	A	G	39383200	2	3	690	1	0	0	0	0	0	0	0	1	4220	243	9	3		3	DAB2	5	39383200	Silent	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	964928	39383200	141532060	38	44807										
GPR98	84059	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	89979468	89979468	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	aacatagactctgatcctgaTggtgatctcgccttcacctc	7	13	3	4			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr5:89979468T>C	ENST00000405460.2	+	28	5826	c.5730T>C	c.(5728-5730)gaT>gaC	p.D1910D		NM_032119.3	NP_115495.3	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98	1910	Calx-beta 13. {ECO:0000255}.				detection of mechanical stimulus involved in sensory perception of sound (GO:0050910)|G-protein coupled receptor signaling pathway (GO:0007186)|inner ear receptor stereocilium organization (GO:0060122)|maintenance of organ identity (GO:0048496)|nervous system development (GO:0007399)|neurological system process (GO:0050877)|neuropeptide signaling pathway (GO:0007218)|photoreceptor cell maintenance (GO:0045494)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)|single organismal cell-cell adhesion (GO:0016337)|visual perception (GO:0007601)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|stereocilia ankle link complex (GO:0002142)	calcium ion binding (GO:0005509)|G-protein coupled receptor activity (GO:0004930)			NS(4)|breast(7)|central_nervous_system(6)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(3)|kidney(18)|large_intestine(46)|liver(2)|lung(80)|ovary(12)|pancreas(5)|prostate(1)|skin(50)|stomach(7)|upper_aerodigestive_tract(8)|urinary_tract(6)	269		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)		CTGATCCTGATGGTGATCTCG	0.418																																																0													69	70	70					5																	89979468		1951	4141	6092	SO:0001819	synonymous_variant	84059			AB014586	CCDS47246.1	5q13	2014-08-08	2006-05-26	2006-05-26	ENSG00000164199	ENSG00000164199		"-", "GPCR / Class B : Orphans"	17416	protein-coding gene	gene with protein product		602851	"monogenic, audiogenic seizure susceptibility 1 homolog (mouse)"	USH2C, MASS1		10976914, 14740321	Standard	NM_032119		Approved	DKFZp761P0710, KIAA0686, FEB4, VLGR1b	uc003kju.3	Q8WXG9	OTTHUMG00000162668	ENST00000405460.2:c.5730T>C	5.37:g.89979468T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O75171|Q8TF58|Q9H0X5|Q9UL61	Silent	SNP	ENST00000405460.2	37	CCDS47246.1																																																																																				0.418	GPR98-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369993.2	NM_032119		C	89979468	T	C	89979468	2	2	690	1	0	0	0	0	0	0	0	1	6728	1461	51	3		3	GPR98	5	89979468	Silent	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10	50596268	89979468	90935792	39	44808										
STK10	6793	hgsc.bcm.edu	37	chr5	171471934	171471934	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	aagaacttggcggccttgctTggggtggaggggtttgggca	19	6	0	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr5:171471934T>G	ENST00000176763.5	-	19	3202	c.2859A>C	c.(2857-2859)ccA>ccC	p.P953P		NM_005990.3	NP_005981.3	O94804	STK10_HUMAN	serine/threonine kinase 10	953					cell cycle (GO:0007049)|lymphocyte aggregation (GO:0071593)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of lymphocyte migration (GO:2000401)|signal transduction by phosphorylation (GO:0023014)	extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|identical protein binding (GO:0042802)|polo kinase kinase activity (GO:0042801)|protein homodimerization activity (GO:0042803)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(15)|ovary(6)|pancreas(1)|prostate(1)|testis(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	47	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)			CGGCCTTGCTTGGGGTGGAGG	0.607																																																0													83	77	79					5																	171471934		2203	4300	6503	SO:0001819	synonymous_variant	6793			AB015718	CCDS34290.1	5q35.1	2008-07-18			ENSG00000072786	ENSG00000072786			11388	protein-coding gene	gene with protein product		603919				10199912	Standard	NM_005990		Approved	LOK, PRO2729	uc003mbo.1	O94804	OTTHUMG00000163265	ENST00000176763.5:c.2859A>C	5.37:g.171471934T>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6ND35|B2R8F5|B3KMY1|Q6NSK0|Q9UIW4	Silent	SNP	ENST00000176763.5	37	CCDS34290.1																																																																																				0.607	STK10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000372374.2	NM_005990		G	171471934	T	G	171471934	2	3	690	1	0	0	0	0	0	0	0	1	15298	1799	63	5		5	STK10	5	171471934	Silent	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10	81492466	171471934	9443326	40	44809										
NSD1	64324	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	176709581	176709584	+	Splice_Site	DEL	AAGT	AAGT	-													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ctatatgctcaccctagacaAagtaagtaatgggaaatgct							TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	AAGT	AAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr5:176709581_176709584delAAGT	ENST00000439151.2	+	19	6053_6054	c.6008_6009delAAGT	c.(6007-6009)aaa>a	p.K2003fs	NSD1_ENST00000354179.4_Splice_Site_p.K1734fs|NSD1_ENST00000361032.4_Splice_Site_p.K1900fs|NSD1_ENST00000347982.4_Splice_Site_p.K1734fs	NM_022455.4	NP_071900.2	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	2003	SET. {ECO:0000255|PROSITE- ProRule:PRU00190}.				gastrulation with mouth forming second (GO:0001702)|histone H3-K36 methylation (GO:0010452)|histone H4-K20 methylation (GO:0034770)|histone methylation (GO:0016571)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|chromatin binding (GO:0003682)|estrogen receptor binding (GO:0030331)|histone methyltransferase activity (H3-K36 specific) (GO:0046975)|histone methyltransferase activity (H4-K20 specific) (GO:0042799)|retinoic acid receptor binding (GO:0042974)|retinoid X receptor binding (GO:0046965)|thyroid hormone receptor binding (GO:0046966)|transcription cofactor activity (GO:0003712)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(2)|kidney(13)|large_intestine(18)|lung(24)|ovary(2)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(7)|urinary_tract(3)	96	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)		ACCCTAGACAAAGTAAGTAATGGG	0.397			T	NUP98	AML		Sotos Syndrome		Weaver syndrome;Sotos syndrome;Beckwith-Wiedemann syndrome	HNSCC(47;0.14)																													Dom	yes		5	5q35	64324	nuclear receptor binding SET domain protein 1	yes	L	0																																										SO:0001630	splice_region_variant	64324	Familial Cancer Database	Weaver-Smith syndrome;Cerebral Gigantism;BWS, Exomphalos-Macroglossia-Gigantism (EMG) syndrome, Wiedemann-Beckwith syndrome, WBS	AK026066	CCDS4412.1, CCDS4413.1	5q35	2014-09-17	2003-03-12		ENSG00000165671	ENSG00000165671		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	14234	protein-coding gene	gene with protein product		606681	"Sotos syndrome"	STO		9628876, 11896389	Standard	NM_022455		Approved	ARA267, FLJ22263, KMT3B	uc003mfr.4	Q96L73	OTTHUMG00000130846	ENST00000439151.2:c.6009+1AAGT>-	5.37:g.176709585_176709588delAAGT		Somatic		WXS	Illumina HiSeq	Phase_I	Q96PD8|Q96RN7	Frame_Shift_Del	DEL	ENST00000439151.2	37	CCDS4412.1																																																																																				0.397	NSD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253412.2	NM_172349	Frame_Shift_Del	-	176709584	AAGT	-	176709581	8	5	690	1	0	1	0	1	0	0	1	0	10676	28	1	0	6078	0	NSD1	5	176709581	Splice_Site	DEL	AAGT	TCGA-MH-A55W-01A-11D-A26P-10	5237647	176709581	4205679	41	44810										
TNXB	7148	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	32038155	32038155	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tcacccacagctccccaaggCggggtggggcccctgggctg	15	16	1	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr6:32038155C>T	ENST00000375244.3	-	14	5228	c.5027G>A	c.(5026-5028)cGc>cAc	p.R1676H	TNXB_ENST00000375247.2_Missense_Mutation_p.R1676H			P22105	TENX_HUMAN	tenascin XB	1758	Fibronectin type-III 9. {ECO:0000255|PROSITE-ProRule:PRU00316}.				actin cytoskeleton organization (GO:0030036)|cell adhesion (GO:0007155)|cell-matrix adhesion (GO:0007160)|collagen fibril organization (GO:0030199)|collagen metabolic process (GO:0032963)|elastic fiber assembly (GO:0048251)|extracellular fibril organization (GO:0043206)|fatty acid metabolic process (GO:0006631)|regulation of JUN kinase activity (GO:0043506)|single organismal cell-cell adhesion (GO:0016337)|triglyceride metabolic process (GO:0006641)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|proteinaceous extracellular matrix (GO:0005578)	heparin binding (GO:0008201)|integrin binding (GO:0005178)			endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|prostate(1)	8						CTCCCCAAGGCGGGGTGGGGC	0.597																																																0													14	16	15					6																	32038155		1903	4094	5997	SO:0001583	missense	7148			X71923	CCDS4736.1	6p21.3	2013-02-11			ENSG00000168477	ENSG00000168477		"Fibrinogen C domain containing", "Fibronectin type III domain containing"	11976	protein-coding gene	gene with protein product		600985		TNXB1, TNXB2		8530023	Standard	NM_019105		Approved	TNXBS, XBS, XB	uc021yvf.2	P22105	OTTHUMG00000031088	ENST00000375244.3:c.5027G>A	6.37:g.32038155C>T	ENSP00000364393:p.Arg1676His	Somatic		WXS	Illumina HiSeq	Phase_I	P78530|P78531|Q08424|Q08AM0|Q08AM1|Q59GU7|Q5SQD3|Q5ST74|Q7L8Q4|Q8N4R1|Q9NPK9|Q9UC10|Q9UC11|Q9UC12|Q9UC13|Q9UMG7	Missense_Mutation	SNP	ENST00000375244.3	37		.	.	.	.	.	.	.	.	.	.	C	11.28	1.593489	0.28357	.	.	ENSG00000168477	ENST00000375244;ENST00000375247	T;T	0.04603	3.59;3.59	4.34	0.318	0.15867	.	0.470849	0.16112	N	0.229047	T	0.03263	0.0095	M	0.88241	2.94	0.23773	N	0.996888	B	0.26775	0.159	B	0.23716	0.048	T	0.22173	-1.0224	10	0.49607	T	0.09	.	8.1222	0.30978	0.0:0.6178:0.0:0.3822	.	1676	P22105-3	.	H	1676	ENSP00000364393:R1676H;ENSP00000364396:R1676H	ENSP00000364393:R1676H	R	-	2	0	TNXB	32146133	0.991000	0.36638	0.989000	0.46669	0.365000	0.29674	0.675000	0.25232	0.160000	0.19432	-0.302000	0.09304	CGC		0.597	TNXB-001	PUTATIVE	not_organism_supported|basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000268927.2	NM_019105		T	32038155	C	T	32038155	3	4	690	1	0	0	0	0	1	0	0	0	16358	768	27	1	9810	1	TNXB	6	32038155	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10		32038155	139076912	42	44811										
KCNK5	8645	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	39159405	39159412	+	Frame_Shift_Del	DEL	TTGTGGAC	TTGTGGAC	-													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gccgccgcttcttaatggctTtgtggacttccacaaacatg					rs13208158	byFrequency	TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	TTGTGGAC	TTGTGGAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr6:39159405_39159412delTTGTGGAC	ENST00000359534.3	-	5	1092_1099	c.754_761delGTCCACAA	c.(754-762)gtccacaaafs	p.VHK252fs		NM_003740.3	NP_003731.1	O95279	KCNK5_HUMAN	potassium channel, subfamily K, member 5	252					excretion (GO:0007588)|potassium ion transport (GO:0006813)	integral component of plasma membrane (GO:0005887)	potassium channel activity (GO:0005267)|voltage-gated ion channel activity (GO:0005244)			central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(6)|lung(4)|skin(3)	19						CTTAATGGCTTTGTGGACTTCCACAAAC	0.591																																																0																																										SO:0001589	frameshift_variant	8645			AF084830	CCDS4841.1	6p21	2012-03-07			ENSG00000164626	ENSG00000164626		"Potassium channels", "Voltage-gated ion channels / Potassium channels, Two-P"	6280	protein-coding gene	gene with protein product		603493				9812978, 16382106	Standard	XM_005249456		Approved	K2p5.1, TASK-2	uc003oon.3	O95279	OTTHUMG00000014642	ENST00000359534.3:c.754_761delGTCCACAA	6.37:g.39159405_39159412delTTGTGGAC	ENSP00000352527:p.Val252fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAQ6|B5TJL2|Q5VV76	Frame_Shift_Del	DEL	ENST00000359534.3	37	CCDS4841.1																																																																																				0.591	KCNK5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040449.1	NM_003740		-	39159412	TTGTGGAC	-	39159405	7	5	690	1	0	1	0	1	0	0	0	0	8076	1841	64	0	742	0	KCNK5	6	39159405	Frame_Shift_Del	DEL	TTGTGGAC	TCGA-MH-A55W-01A-11D-A26P-10	7121250	39159405	131955662	43	44812										
PKHD1	5314	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	51768400	51768400	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	agctgaacatcttacctctaTaacattggtgggactgcaga	9	9	2	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr6:51768400T>G	ENST00000371117.3	-	43	7266	c.6991A>C	c.(6991-6993)Ata>Cta	p.I2331L	PKHD1_ENST00000340994.4_Missense_Mutation_p.I2331L	NM_138694.3	NP_619639.3	P08F94	PKHD1_HUMAN	polycystic kidney and hepatic disease 1 (autosomal recessive)	2331			I -> K (in ARPKD). {ECO:0000269|PubMed:11919560, ECO:0000269|PubMed:12506140}.		cellular calcium ion homeostasis (GO:0006874)|cilium assembly (GO:0042384)|homeostatic process (GO:0042592)|kidney development (GO:0001822)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cellular component movement (GO:0051271)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of protein kinase B signaling (GO:0051898)|positive regulation of cell proliferation (GO:0008284)|regulation of centrosome duplication (GO:0010824)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of TOR signaling (GO:0032006)|single organismal cell-cell adhesion (GO:0016337)	anchored component of external side of plasma membrane (GO:0031362)|apical plasma membrane (GO:0016324)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|mitotic spindle (GO:0072686)|perinuclear region of cytoplasm (GO:0048471)|primary cilium (GO:0072372)	receptor activity (GO:0004872)			NS(1)|autonomic_ganglia(1)|breast(8)|central_nervous_system(5)|cervix(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(59)|lung(139)|ovary(16)|prostate(8)|skin(20)|soft_tissue(1)|stomach(2)|upper_aerodigestive_tract(7)|urinary_tract(5)	304	Lung NSC(77;0.0605)					CTTACCTCTATAACATTGGTG	0.478																																																0													173	163	167					6																	51768400		2203	4300	6503	SO:0001583	missense	5314			AF480064	CCDS4935.1, CCDS4936.1	6p21.2-p12	2012-11-26	2003-04-16		ENSG00000170927	ENSG00000170927			9016	protein-coding gene	gene with protein product	"tigmin", "polyductin", "fibrocystin"	606702	"TIG multiple domains 1"	TIGM1		9503014	Standard	NM_138694		Approved	ARPKD, FCYT	uc003pah.1	P08F94	OTTHUMG00000014841	ENST00000371117.3:c.6991A>C	6.37:g.51768400T>G	ENSP00000360158:p.Ile2331Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUA2|Q5VUA3|Q5VWV1|Q86Z26|Q8TCZ9	Missense_Mutation	SNP	ENST00000371117.3	37	CCDS4935.1	.	.	.	.	.	.	.	.	.	.	T	7.897	0.733493	0.15574	.	.	ENSG00000170927	ENST00000371117;ENST00000340994;ENST00000393616	D;D	0.82803	-1.65;-1.65	5.87	-2.49	0.06403	Pectin lyase fold/virulence factor (1);Pectin lyase fold (1);	0.766468	0.11605	N	0.547353	T	0.44074	0.1276	N	0.12182	0.205	0.09310	N	1	B;B;B	0.15141	0.012;0.006;0.012	B;B;B	0.17722	0.008;0.007;0.019	T	0.39440	-0.9614	10	0.44086	T	0.13	.	6.1429	0.20269	0.0:0.2716:0.2385:0.4899	.	2331;2331;2331	A8MVM9;P08F94-2;P08F94	.;.;PKHD1_HUMAN	L	2331	ENSP00000360158:I2331L;ENSP00000341097:I2331L	ENSP00000341097:I2331L	I	-	1	0	PKHD1	51876359	0.002000	0.14202	0.004000	0.12327	0.326000	0.28443	-0.160000	0.10041	-0.465000	0.06953	0.528000	0.53228	ATA		0.478	PKHD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040893.1	NM_138694		G	51768400	T	G	51768400	3	3	690	1	0	0	0	0	1	0	0	0	11978	1406	49	5	5372	5	PKHD1	6	51768400	Missense_Mutation	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10	12608995	51768400	119346667	44	44813										
GCM1	8521	hgsc.bcm.edu;bcgsc.ca	37	chr6	52993368	52993369	+	In_Frame_Ins	INS	-	-	AAA													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gctggtcagaggaaaaggatINSaattggaataacagttgtca							TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr6:52993368_52993369insAAA	ENST00000259803.7	-	6	1157_1158	c.946_947insTTT	c.(946-948)tat>tTTTat	p.315_316insF	RP11-506E9.3_ENST00000566420.1_RNA	NM_003643.3	NP_003634.2	Q9NP62	GCM1_HUMAN	glial cells missing homolog 1 (Drosophila)	315					anatomical structure morphogenesis (GO:0009653)|astrocyte fate commitment (GO:0060018)|branching involved in labyrinthine layer morphogenesis (GO:0060670)|cell differentiation involved in embryonic placenta development (GO:0060706)|positive regulation of syncytium formation by plasma membrane fusion (GO:0060143)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(2)|liver(1)|lung(15)|ovary(1)|skin(1)	24	Lung NSC(77;0.0755)					AGGAAAAGGATAATTGGAATAA	0.48																																																0																																										SO:0001652	inframe_insertion	8521			D88613	CCDS4950.1	6p21-p12	2008-08-29	2001-11-28	2002-09-27	ENSG00000137270	ENSG00000137270			4197	protein-coding gene	gene with protein product		603715	"glial cells missing (Drosophila) homolog a"	GCMA		8962155	Standard	NM_003643		Approved	hGCMa	uc003pbp.3	Q9NP62	OTTHUMG00000014871	ENST00000259803.7:c.946_947insTTT	6.37:g.52993368_52993369insAAA	ENSP00000259803:p.Asn315_Tyr316insPhe	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VAQ7|Q5T0X0|Q99468|Q9P1X3	In_Frame_Ins	INS	ENST00000259803.7	37	CCDS4950.1																																																																																				0.48	GCM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040953.1			AAA	52993369	-	AAA	52993368	7	5	690	1	0	1	1	0	0	0	0	0	6304	1406	49	0	367	0	GCM1	6	52993368	In_Frame_Ins	INS	-	TCGA-MH-A55W-01A-11D-A26P-10	1224968	52993368	118121699	45	44814										
MDN1	23195	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	90459294	90459294	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ataaagtcctgggggattttGggtggcaaaaagcataaacc	12	6	0	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr6:90459294G>A	ENST00000369393.3	-	25	3698	c.3583C>T	c.(3583-3585)Caa>Taa	p.Q1195*	MDN1_ENST00000428876.1_Nonsense_Mutation_p.Q1195*			Q9NU22	MDN1_HUMAN	MDN1, midasin homolog (yeast)	1195					ATP catabolic process (GO:0006200)|protein complex assembly (GO:0006461)	cytoplasm (GO:0005737)|intermediate filament cytoskeleton (GO:0045111)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|unfolded protein binding (GO:0051082)			NS(1)|breast(13)|central_nervous_system(2)|cervix(3)|endometrium(22)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(52)|liver(1)|lung(83)|ovary(10)|pancreas(1)|prostate(10)|skin(6)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	218		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)		GGGGGATTTTGGGTGGCAAAA	0.413																																																0													157	170	166					6																	90459294		2203	4300	6503	SO:0001587	stop_gained	23195			AF503925	CCDS5024.1	6q15	2014-01-28			ENSG00000112159	ENSG00000112159			18302	protein-coding gene	gene with protein product						9205841, 12102729	Standard	XM_005248699		Approved	KIAA0301	uc003pnn.1	Q9NU22	OTTHUMG00000015213	ENST00000369393.3:c.3583C>T	6.37:g.90459294G>A	ENSP00000358400:p.Gln1195*	Somatic		WXS	Illumina HiSeq	Phase_I	O15019|Q5T794	Nonsense_Mutation	SNP	ENST00000369393.3	37	CCDS5024.1	.	.	.	.	.	.	.	.	.	.	G	41	9.048239	0.99048	.	.	ENSG00000112159	ENST00000369393;ENST00000428876;ENST00000439638	.	.	.	5.85	5.85	0.93711	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.72032	D	0.01	.	20.1649	0.98147	0.0:0.0:1.0:0.0	.	.	.	.	X	1195;1195;1122	.	ENSP00000358400:Q1195X	Q	-	1	0	MDN1	90516015	1.000000	0.71417	0.939000	0.37840	0.819000	0.46315	9.378000	0.97191	2.753000	0.94483	0.655000	0.94253	CAA		0.413	MDN1-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041514.2			A	90459294	G	A	90459294	4	1	690	1	0	0	0	0	0	1	0	0	9422	1357	47	2	13519	2	MDN1	6	90459294	Nonsense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	37465926	90459294	80655773	46	44815										
AKAP12	9590	hgsc.bcm.edu;bcgsc.ca	37	chr6	151671659	151671659	+	Frame_Shift_Del	DEL	C	C	-													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	aaagcaatgggaggagaccaCcagaaagctgatgaggccgg							TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr6:151671659delC	ENST00000253332.1	+	3	2322	c.2133delC	c.(2131-2133)cacfs	p.H711fs	AKAP12_ENST00000359755.5_Frame_Shift_Del_p.H606fs|AKAP12_ENST00000354675.6_Frame_Shift_Del_p.H613fs|AKAP12_ENST00000402676.2_Frame_Shift_Del_p.H711fs			Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12	711					G-protein coupled receptor signaling pathway (GO:0007186)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of protein kinase A signaling (GO:0010739)|protein targeting (GO:0006605)|regulation of protein kinase C signaling (GO:0090036)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|focal adhesion (GO:0005925)	adenylate cyclase binding (GO:0008179)|protein kinase A binding (GO:0051018)			breast(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(22)|lung(22)|ovary(2)|pancreas(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	68		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		GAGGAGACCACCAGAAAGCTG	0.532																																					Melanoma(141;1616 1805 10049 24534 51979)											0													96	106	103					6																	151671659		2203	4300	6503	SO:0001589	frameshift_variant	9590			U81607	CCDS5229.1, CCDS5230.1	6q24-q25	2011-07-01	2008-08-29		ENSG00000131016	ENSG00000131016		"A-kinase anchor proteins"	370	protein-coding gene	gene with protein product	"gravin", "Src-Suppressed C Kinase Substrate"	604698	"A kinase (PRKA) anchor protein (gravin) 12"			9000000	Standard	NM_144497		Approved	AKAP250, SSeCKS	uc011eep.2	Q02952	OTTHUMG00000015833	ENST00000253332.1:c.2133delC	6.37:g.151671659delC	ENSP00000253332:p.His711fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00310|O00498|Q4LE68|Q5SZ80|Q5TGN1|Q68D82|Q99970	Frame_Shift_Del	DEL	ENST00000253332.1	37	CCDS5229.1																																																																																				0.532	AKAP12-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042712.1			-	151671659	C	-	151671659	7	5	690	1	0	1	0	1	0	0	0	0	448	506	18	0	2172	0	AKAP12	6	151671659	Frame_Shift_Del	DEL	C	TCGA-MH-A55W-01A-11D-A26P-10	61212365	151671659	19443408	47	44816										
ZBTB2	57621	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	151686673	151686676	+	Frame_Shift_Del	DEL	TTTC	TTTC	-													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	cattcagtctagtaagacggTttcttgttcctttttgatgg					rs143773461		TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	TTTC	TTTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr6:151686673_151686676delTTTC	ENST00000325144.4	-	3	1665_1668	c.1525_1528delGAAA	c.(1525-1530)gaaaccfs	p.ET509fs		NM_020861.1	NP_065912.1	Q8N680	ZBTB2_HUMAN	zinc finger and BTB domain containing 2	509					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)	p.E509K(2)		breast(1)|endometrium(2)|large_intestine(2)|lung(6)|skin(1)	12			BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.63e-11)		AGTAAGACGGTTTCTTGTTCCTTT	0.446																																																2	Substitution - Missense(2)	lung(1)|skin(1)																																								SO:0001589	frameshift_variant	57621			BC020172	CCDS5231.1	6q25.1	2013-01-09			ENSG00000181472	ENSG00000181472		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	20868	protein-coding gene	gene with protein product						10819331	Standard	NM_020861		Approved	KIAA1483, ZNF437, bA351K16.2	uc003qoh.3	Q8N680	OTTHUMG00000015834	ENST00000325144.4:c.1525_1528delGAAA	6.37:g.151686673_151686676delTTTC	ENSP00000323183:p.Glu509fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7C7|Q5SZ81|Q9P245	Frame_Shift_Del	DEL	ENST00000325144.4	37	CCDS5231.1																																																																																				0.446	ZBTB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042715.1	NM_020861		-	151686676	TTTC	-	151686673	7	5	690	1	0	1	0	1	0	0	0	0	17540	1725	60	0	20	0	ZBTB2	6	151686673	Frame_Shift_Del	DEL	TTTC	TCGA-MH-A55W-01A-11D-A26P-10	15014	151686673	19428394	48	44817										
BBS9	27241	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	33380559	33380559	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	acttgaacgtttctgtcgtgGtttctcctaactttgattca	7	9	3	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr7:33380559G>C	ENST00000242067.6	+	11	1770	c.1249G>C	c.(1249-1251)Gtt>Ctt	p.V417L	BBS9_ENST00000354265.4_Missense_Mutation_p.V417L|BBS9_ENST00000396127.2_Missense_Mutation_p.V417L|BBS9_ENST00000355070.2_Missense_Mutation_p.V417L|BBS9_ENST00000350941.3_Missense_Mutation_p.V417L	NM_198428.2	NP_940820.1	Q3SYG4	PTHB1_HUMAN	Bardet-Biedl syndrome 9	417					cilium assembly (GO:0042384)|fat cell differentiation (GO:0045444)|protein transport (GO:0015031)|response to stimulus (GO:0050896)|visual perception (GO:0007601)	BBSome (GO:0034464)|cilium (GO:0005929)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|plasma membrane (GO:0005886)			BBS9/PKD1L1(2)	NS(1)|autonomic_ganglia(1)|endometrium(1)|kidney(2)|large_intestine(7)|lung(27)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	50			GBM - Glioblastoma multiforme(11;0.0894)			TTCTGTCGTGGTTTCTCCTAA	0.338									Bardet-Biedl syndrome																																							0													187	175	179					7																	33380559		2203	4300	6503	SO:0001583	missense	27241	Familial Cancer Database	BBS, Bardet-Biedl syndrome, type 1-12: BBS1-12,Laurence-Moon-Biedl syndrome		CCDS5441.1, CCDS34618.1, CCDS43566.1, CCDS47572.1	7p14	2014-06-17			ENSG00000122507	ENSG00000122507			30000	protein-coding gene	gene with protein product	"parathyroid hormone responsive B1 gene"	607968				16380913, 10221542	Standard	XM_005249701		Approved	B1, PTHB1	uc003tdn.1	Q3SYG4	OTTHUMG00000128659	ENST00000242067.6:c.1249G>C	7.37:g.33380559G>C	ENSP00000242067:p.Val417Leu	Somatic		WXS	Illumina HiSeq	Phase_I	E9PDC9|P78514|Q7KYS6|Q7KYS7|Q8N570|Q99844|Q99854|Q9Y699|Q9Y6A0	Missense_Mutation	SNP	ENST00000242067.6	37	CCDS43566.1	.	.	.	.	.	.	.	.	.	.	G	14.37	2.515586	0.44763	.	.	ENSG00000122507	ENST00000242067;ENST00000350941;ENST00000396127;ENST00000355070;ENST00000354265;ENST00000396132;ENST00000396125;ENST00000537775	D;D;D;D;D	0.84516	-1.86;-1.86;-1.86;-1.86;-1.86	4.48	4.48	0.54585	.	0.000000	0.85682	D	0.000000	D	0.84727	0.5536	M	0.62723	1.935	0.80722	D	1	P;P;B;P	0.34864	0.473;0.473;0.245;0.473	B;B;B;B	0.42112	0.133;0.376;0.169;0.376	T	0.82524	-0.0414	10	0.31617	T	0.26	-21.4487	12.2466	0.54574	0.0859:0.0:0.9141:0.0	.	417;417;417;417	Q3SYG4-2;E9PDC9;Q3SYG4-4;Q3SYG4	.;.;.;PTHB1_HUMAN	L	417;417;417;417;417;417;417;295	ENSP00000242067:V417L;ENSP00000313122:V417L;ENSP00000379433:V417L;ENSP00000347182:V417L;ENSP00000346214:V417L	ENSP00000242067:V417L	V	+	1	0	BBS9	33347084	0.998000	0.40836	0.341000	0.25589	0.957000	0.61999	3.026000	0.49689	2.433000	0.82419	0.650000	0.86243	GTT		0.338	BBS9-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000329064.1			C	33380559	G	C	33380559	3	2	690	1	0	0	0	0	1	0	0	0	1342	1261	44	4	1287	4	BBS9	7	33380559	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10		33380559	125758104	49	44818										
GBAS	2631	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	56046042	56046042	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ttgaattttcttttgtttcaGttcacaatgttaaaccggaa	6	6	3	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr7:56046042G>C	ENST00000322090.3	+	3	261		c.e3-1		GBAS_ENST00000446778.1_Intron|GBAS_ENST00000487370.1_Splice_Site	NM_001483.2	NP_001474.1	O75323	NIPS2_HUMAN	glioblastoma amplified sequence						ATP biosynthetic process (GO:0006754)|negative regulation of ATP citrate synthase activity (GO:2000984)|oxidative phosphorylation (GO:0006119)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|mitochondrion (GO:0005739)				breast(1)|central_nervous_system(1)|large_intestine(1)|lung(2)	5	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TTTTGTTTCAGTTCACAATGT	0.323																																																0													178	160	166					7																	56046042		2203	4300	6503	SO:0001630	splice_region_variant	2631			AF029786	CCDS5521.1, CCDS56488.1	7p12	2014-03-11			ENSG00000146729	ENSG00000146729			4179	protein-coding gene	gene with protein product		603004				9615231, 9661659, 20888800	Standard	NM_001483		Approved	NIPSNAP2	uc003tre.2	O75323	OTTHUMG00000022932	ENST00000322090.3:c.233-1G>C	7.37:g.56046042G>C		Somatic		WXS	Illumina HiSeq	Phase_I	C9IYJ3|O43801|Q53X96	Splice_Site	SNP	ENST00000322090.3	37	CCDS5521.1	.	.	.	.	.	.	.	.	.	.	G	22.4	4.279038	0.80692	.	.	ENSG00000146729	ENST00000322090	.	.	.	5.8	5.8	0.92144	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	19.0588	0.93078	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	GBAS	56013536	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.510000	0.98004	2.744000	0.94065	0.655000	0.94253	.		0.323	GBAS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251524.1	NM_001483	Intron	C	56046042	G	C	56046042	5	2	690	1	0	0	0	0	0	0	1	0	6276	1043	36	4	242	4	GBAS	7	56046042	Splice_Site	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	22665483	56046042	103092621	50	44819										
TAF6	6878	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	99711723	99711723	+	Frame_Shift_Del	DEL	T	T	-													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tgacctcatccgttagcagcTggcaggtctcctcctgaatc							TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr7:99711723delT	ENST00000344095.4	-	2	635	c.110delA	c.(109-111)cagfs	p.Q37fs	TAF6_ENST00000497233.1_5'Flank|RP11-506M12.1_ENST00000494221.1_RNA|TAF6_ENST00000437822.2_Frame_Shift_Del_p.Q74fs|TAF6_ENST00000418432.2_5'UTR|TAF6_ENST00000452041.1_Frame_Shift_Del_p.Q37fs|TAF6_ENST00000472509.1_Frame_Shift_Del_p.Q94fs|TAF6_ENST00000453269.2_Frame_Shift_Del_p.Q37fs	NM_005641.3	NP_005632.1	P49848	TAF6_HUMAN	TAF6 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 80kDa	37					DNA-templated transcription, initiation (GO:0006352)|gene expression (GO:0010467)|negative regulation of cell cycle (GO:0045786)|negative regulation of cell proliferation (GO:0008285)|regulation of sequence-specific DNA binding transcription factor activity (GO:0051090)|regulation of transcription, DNA-templated (GO:0006355)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	cytoplasm (GO:0005737)|MLL1 complex (GO:0071339)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor TFIID complex (GO:0005669)|transcription factor TFTC complex (GO:0033276)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|liver(1)|lung(7)|ovary(2)|pancreas(1)|prostate(1)|urinary_tract(2)	26	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CGTTAGCAGCTGGCAGGTCTC	0.582																																																0													140	126	130					7																	99711723		2203	4300	6503	SO:0001589	frameshift_variant	6878				CCDS5686.1, CCDS55135.1	7q	2010-02-26	2002-08-29	2001-12-07	ENSG00000106290	ENSG00000106290			11540	protein-coding gene	gene with protein product	"TAF6 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 80 kD", "transcription initiation factor TFIID 70 kD subunit"	602955	"TATA box binding protein (TBP)-associated factor, RNA polymerase II, E, 70/85kD"	TAF2E		826207	Standard	NM_139315		Approved	TAFII70, TAFII80, MGC:8964, TAFII85	uc011kji.2	P49848	OTTHUMG00000154771	ENST00000344095.4:c.110delA	7.37:g.99711723delT	ENSP00000344537:p.Gln37fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2B2|A4D2B3|B4DT11|D6W5U2|Q6AI29	Frame_Shift_Del	DEL	ENST00000344095.4	37	CCDS5686.1																																																																																				0.582	TAF6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337024.2	NM_005641		-	99711723	T	-	99711723	7	5	690	1	0	1	0	1	0	0	0	0	15542	1580	55	0	1979	0	TAF6	7	99711723	Frame_Shift_Del	DEL	T	TCGA-MH-A55W-01A-11D-A26P-10	43665681	99711723	59426940	51	44820										
SLC13A4	26266	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	135370357	135370357	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gacacgaggatgcatgccagCagggtgacagcccacggtgg	16	11	0	1	rs375873088	byFrequency	TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr7:135370357C>A	ENST00000354042.4	-	14	2207	c.1518G>T	c.(1516-1518)ctG>ctT	p.L506L	C7orf73_ENST00000422968.1_Intron|SLC13A4_ENST00000491630.1_5'UTR	NM_012450.2	NP_036582.2	Q9UKG4	S13A4_HUMAN	solute carrier family 13 (sodium/sulfate symporter), member 4	506					sodium ion transmembrane transport (GO:0035725)|sulfate transport (GO:0008272)|transmembrane transport (GO:0055085)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	sodium:sulfate symporter activity (GO:0015382)			breast(1)|central_nervous_system(2)|endometrium(3)|kidney(2)|large_intestine(6)|lung(7)|skin(1)|upper_aerodigestive_tract(2)	24						TGCATGCCAGCAGGGTGACAG	0.552																																																0													200	174	183					7																	135370357		2203	4300	6503	SO:0001819	synonymous_variant	26266			AF169301	CCDS5840.1	7q33	2013-07-18	2013-07-18		ENSG00000164707	ENSG00000164707		"Solute carriers"	15827	protein-coding gene	gene with protein product	"sulphate transporter 1"	604309	"solute carrier family 13 (sodium/sulphate symporters), member 4"			10535998	Standard	NM_012450		Approved	SUT-1, SUT1	uc003vta.3	Q9UKG4	OTTHUMG00000155539	ENST00000354042.4:c.1518G>T	7.37:g.135370357C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D1Q4|Q8N631	Silent	SNP	ENST00000354042.4	37	CCDS5840.1																																																																																				0.552	SLC13A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340558.1	NM_012450		A	135370357	C	A	135370357	2	1	690	1	0	0	0	0	0	0	0	1	14407	697	25	4		4	SLC13A4	7	135370357	Silent	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	35658634	135370357	23768306	52	44821										
MLL3	58508	broad.mit.edu	37	chr7	151921114	151921114	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	caatacctatcacattgtctAcattgcagaataagatcttc	4	10	3	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr7:151921114A>T	ENST00000262189.6	-	20	3527	c.3309T>A	c.(3307-3309)tgT>tgA	p.C1103*	KMT2C_ENST00000355193.2_Nonsense_Mutation_p.C1103*	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	1103					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)	p.C1103*(10)									CACATTGTCTACATTGCAGAA	0.338																																																10	Substitution - Nonsense(10)	kidney(6)|endometrium(4)											56	51	52					7																	151921114		2203	4300	6503	SO:0001587	stop_gained	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.3309T>A	7.37:g.151921114A>T	ENSP00000262189:p.Cys1103*	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Nonsense_Mutation	SNP	ENST00000262189.6	37	CCDS5931.1	.	.	.	.	.	.	.	.	.	.	A	41	8.814636	0.98964	.	.	ENSG00000055609	ENST00000262189;ENST00000355193	.	.	.	5.39	-2.79	0.05841	.	0.000000	0.50627	D	0.000105	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	13.2367	0.59972	0.4373:0.0:0.5627:0.0	rs4024337	.	.	.	X	1103	.	ENSP00000262189:C1103X	C	-	3	2	MLL3	151552047	0.735000	0.28153	0.983000	0.44433	0.992000	0.81027	-0.154000	0.10130	-0.431000	0.07307	0.528000	0.53228	TGT		0.338	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			T	151921114	A	T	151921114	4	4	690	1	0	0	0	0	0	1	0	0	9629	389	14	5	11586	5	MLL3	7	151921114	Nonsense_Mutation	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	16550757	151921114	7217549	53	44822										
ANK1	286	broad.mit.edu;bcgsc.ca	37	chr8	41582026	41582026	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tgaggagcaactgggccacgTtgaggttctcgtagtgagcc	15	9	1	3			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr8:41582026T>G	ENST00000347528.4	-	7	742	c.659A>C	c.(658-660)aAc>aCc	p.N220T	ANK1_ENST00000265709.8_Missense_Mutation_p.N253T|ANK1_ENST00000379758.2_Missense_Mutation_p.N220T|ANK1_ENST00000396942.1_Missense_Mutation_p.N220T|ANK1_ENST00000289734.7_Missense_Mutation_p.N220T|ANK1_ENST00000352337.4_Missense_Mutation_p.N220T|ANK1_ENST00000396945.1_Missense_Mutation_p.N220T	NM_020475.2|NM_020476.2|NM_020477.2	NP_065208.2|NP_065209.2|NP_065210.2	P16157	ANK1_HUMAN	ankyrin 1, erythrocytic	220	89 kDa domain.				axon guidance (GO:0007411)|cytoskeleton organization (GO:0007010)|ER to Golgi vesicle-mediated transport (GO:0006888)|erythrocyte development (GO:0048821)|exocytosis (GO:0006887)|maintenance of epithelial cell apical/basal polarity (GO:0045199)|monovalent inorganic cation transport (GO:0015672)|porphyrin-containing compound biosynthetic process (GO:0006779)|positive regulation of organelle organization (GO:0010638)|protein targeting to plasma membrane (GO:0072661)|signal transduction (GO:0007165)	axolemma (GO:0030673)|basolateral plasma membrane (GO:0016323)|cortical cytoskeleton (GO:0030863)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|M band (GO:0031430)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|sarcoplasmic reticulum (GO:0016529)|spectrin-associated cytoskeleton (GO:0014731)|Z disc (GO:0030018)	ATPase binding (GO:0051117)|cytoskeletal adaptor activity (GO:0008093)|enzyme binding (GO:0019899)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			breast(5)|central_nervous_system(4)|endometrium(9)|kidney(1)|large_intestine(26)|lung(62)|ovary(3)|prostate(5)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	122	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)			CTGGGCCACGTTGAGGTTCTC	0.572																																																0													37	34	35					8																	41582026		2203	4300	6503	SO:0001583	missense	286			M28880	CCDS6119.1, CCDS6121.1, CCDS6122.1, CCDS47849.1, CCDS55227.1	8p11.21	2013-01-10			ENSG00000029534	ENSG00000029534		"Ankyrin repeat domain containing"	492	protein-coding gene	gene with protein product		612641		ANK		1689849	Standard	NM_001142445		Approved	SPH1	uc003xom.3	P16157	OTTHUMG00000150281	ENST00000347528.4:c.659A>C	8.37:g.41582026T>G	ENSP00000339620:p.Asn220Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJN8|A6NJ23|E5RFL7|O43400|Q13768|Q53ER1|Q59FP2|Q8N604|Q99407	Missense_Mutation	SNP	ENST00000347528.4	37	CCDS6119.1	.	.	.	.	.	.	.	.	.	.	T	20.4	3.989986	0.74589	.	.	ENSG00000029534	ENST00000347528;ENST00000289734;ENST00000379758;ENST00000396945;ENST00000396942;ENST00000352337;ENST00000265709;ENST00000358820	T;T;T;T;T;T;T	0.64260	-0.09;-0.09;-0.09;-0.09;-0.09;-0.09;-0.09	5.52	3.08	0.35506	Ankyrin repeat-containing domain (3);	0.145630	0.64402	D	0.000018	T	0.53965	0.1829	N	0.25094	0.71	0.80722	D	1	P;P;P;P;P	0.44690	0.586;0.841;0.699;0.651;0.538	P;P;B;P;P	0.49561	0.615;0.615;0.358;0.582;0.492	T	0.53620	-0.8413	10	0.72032	D	0.01	.	8.5499	0.33444	0.0:0.257:0.0:0.743	.	253;220;220;220;220	P16157-21;P16157-4;P16157;P16157-5;P16157-3	.;.;ANK1_HUMAN;.;.	T	220;220;220;220;220;220;253;220	ENSP00000339620:N220T;ENSP00000289734:N220T;ENSP00000369082:N220T;ENSP00000380149:N220T;ENSP00000380147:N220T;ENSP00000309131:N220T;ENSP00000265709:N253T	ENSP00000265709:N253T	N	-	2	0	ANK1	41701183	0.998000	0.40836	1.000000	0.80357	0.992000	0.81027	2.870000	0.48451	0.361000	0.24292	-0.417000	0.06048	AAC		0.572	ANK1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000317297.1	NM_020475		G	41582026	T	G	41582026	3	3	690	1	0	0	0	0	1	0	0	0	620	1725	60	5	5484	5	ANK1	8	41582026	Missense_Mutation	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10		41582026	104781996	54	44823										
TRPM6	140803	broad.mit.edu	37	chr9	77448994	77448994	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ccagatttttctcaaggaatGagaggaatgggatttcaagg	12	5	2	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr9:77448994G>A	ENST00000360774.1	-	6	826	c.589C>T	c.(589-591)Cat>Tat	p.H197Y	TRPM6_ENST00000449912.2_Missense_Mutation_p.H192Y|TRPM6_ENST00000451710.3_Missense_Mutation_p.H197Y|TRPM6_ENST00000376871.3_Missense_Mutation_p.H197Y|TRPM6_ENST00000376864.4_Missense_Mutation_p.H197Y|TRPM6_ENST00000359047.2_Missense_Mutation_p.H197Y|TRPM6_ENST00000483186.1_5'Flank|TRPM6_ENST00000376872.3_Missense_Mutation_p.H197Y|TRPM6_ENST00000361255.3_Missense_Mutation_p.H192Y	NM_017662.4	NP_060132.3	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel, subfamily M, member 6	197					calcium ion transmembrane transport (GO:0070588)|ion transmembrane transport (GO:0034220)|response to toxic substance (GO:0009636)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|calcium channel activity (GO:0005262)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)			NS(2)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(22)|liver(1)|lung(53)|ovary(1)|prostate(7)|skin(12)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	126						CTCAAGGAATGAGAGGAATGG	0.408																																																0													134	124	127					9																	77448994		2203	4300	6503	SO:0001583	missense	140803			AK026281	CCDS6647.1, CCDS55318.1, CCDS55319.1	9q21.13	2011-12-14	2003-12-02		ENSG00000119121	ENSG00000119121		"Voltage-gated ion channels / Transient receptor potential cation channels"	17995	protein-coding gene	gene with protein product		607009	"hypomagnesemia, secondary hypocalcemia"	HOMG, HSH		10021370, 12032570, 16382100	Standard	NM_017662		Approved	CHAK2, FLJ22628	uc004ajk.1	Q9BX84	OTTHUMG00000020027	ENST00000360774.1:c.589C>T	9.37:g.77448994G>A	ENSP00000354006:p.His197Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6VPR8|Q6VPR9|Q6VPS0|Q6VPS1|Q6VPS2	Missense_Mutation	SNP	ENST00000360774.1	37	CCDS6647.1	.	.	.	.	.	.	.	.	.	.	G	11.28	1.592060	0.28357	.	.	ENSG00000119121	ENST00000360774;ENST00000451710;ENST00000376872;ENST00000376871;ENST00000449912;ENST00000361255;ENST00000376870;ENST00000376864;ENST00000359047	T;T;T;T;T;T;T;T	0.02974	4.09;4.09;4.09;4.09;4.09;4.09;4.09;4.09	5.84	4.9	0.64082	.	0.532611	0.23708	N	0.045358	T	0.03136	0.0092	N	0.19112	0.55	0.09310	N	1	B;B;B;B;B;P	0.35600	0.037;0.037;0.011;0.027;0.323;0.511	B;B;B;B;B;B	0.36464	0.058;0.01;0.006;0.015;0.162;0.225	T	0.39078	-0.9631	10	0.72032	D	0.01	.	14.2191	0.65812	0.0:0.0:0.8037:0.1963	.	197;197;197;197;197;192	Q9BX84-7;Q9BX84-6;Q9BX84-5;Q96LV9;Q9BX84;Q9BX84-3	.;.;.;.;TRPM6_HUMAN;.	Y	197;197;197;197;192;192;196;197;197	ENSP00000354006:H197Y;ENSP00000407341:H197Y;ENSP00000366068:H197Y;ENSP00000366067:H197Y;ENSP00000396672:H192Y;ENSP00000354962:H192Y;ENSP00000366060:H197Y;ENSP00000351942:H197Y	ENSP00000351942:H197Y	H	-	1	0	TRPM6	76638814	0.546000	0.26457	0.283000	0.24790	0.960000	0.62799	3.317000	0.51968	1.325000	0.45301	0.491000	0.48974	CAT		0.408	TRPM6-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000052693.1	NM_017662		A	77448994	G	A	77448994	3	1	690	1	0	0	0	0	1	0	0	0	16602	1290	45	2	5615	2	TRPM6	9	77448994	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10		77448994	63764437	55	44824										
GOLGA2	2801	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	131021446	131021446	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gccctcaccaactccctcacCtgggtttcctgcaactcttg	6	18	3	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr9:131021446C>T	ENST00000421699.2	-	19	2028	c.2016G>A	c.(2014-2016)caG>caA	p.Q672Q	AL590708.1_ENST00000408370.1_RNA|GOLGA2_ENST00000609374.1_Splice_Site_p.Q660Q	NM_004486.4	NP_004477.3	Q08379	GOGA2_HUMAN	golgin A2	672					mitotic cell cycle (GO:0000278)	cis-Golgi network (GO:0005801)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)				NS(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(10)|lung(13)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	34						ACTCCCTCACCTGGGTTTCCT	0.632																																																0													42	46	45					9																	131021446		2203	4300	6503	SO:0001630	splice_region_variant	2801			L06147	CCDS6896.2	9q34.13	2010-06-28	2010-02-12		ENSG00000167110	ENSG00000167110			4425	protein-coding gene	gene with protein product	"Golgi matrix protein GM130", "SY11 protein"	602580	"golgi autoantigen, golgin subfamily a, 2"			8315394	Standard	NM_004486		Approved	GM130, golgin-95	uc011maw.2	Q08379	OTTHUMG00000020732	ENST00000421699.2:c.2016+1G>A	9.37:g.131021446C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6GRM9|Q9BRB0|Q9NYF9	Silent	SNP	ENST00000421699.2	37	CCDS6896.2																																																																																				0.632	GOLGA2-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054358.2	NM_004486	Silent	T	131021446	C	T	131021446	5	4	690	1	0	0	0	0	0	0	1	0	6559	695	24	2	1024	2	GOLGA2	9	131021446	Splice_Site	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	53572452	131021446	10191985	56	44825										
C9orf78	51759	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	132593305	132593305	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ttctgttcctcatgttccacGatccctttcctcttctttag	4	14	4	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr9:132593305G>T	ENST00000372447.3	-	6	440	c.387C>A	c.(385-387)atC>atA	p.I129I	C9orf78_ENST00000461762.1_5'UTR	NM_016520.2	NP_057604.1	Q9NZ63	CI078_HUMAN	chromosome 9 open reading frame 78	129						cytoplasm (GO:0005737)|nucleus (GO:0005634)				kidney(2)|lung(7)|ovary(1)|prostate(1)|stomach(2)	13		Ovarian(14;0.00556)				CATGTTCCACGATCCCTTTCC	0.478																																																0													180	159	166					9																	132593305		2203	4300	6503	SO:0001819	synonymous_variant	51759			BC017570	CCDS6931.1	9q34.2	2012-03-16			ENSG00000136819	ENSG00000136819			24932	protein-coding gene	gene with protein product	"Hepatocellular carcinoma-associated antigen 59"					11042152, 12097419	Standard	NM_016520		Approved	HSPC220, HCA59	uc004byp.3	Q9NZ63	OTTHUMG00000020796	ENST00000372447.3:c.387C>A	9.37:g.132593305G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KPX8|Q8WVU6|Q9NT39	Silent	SNP	ENST00000372447.3	37	CCDS6931.1																																																																																				0.478	C9orf78-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054625.1	NM_016520		T	132593305	G	T	132593305	2	4	690	1	0	0	0	0	0	0	0	1	2498	1048	37	4		4	C9orf78	9	132593305	Silent	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	1571859	132593305	8620126	57	44826										
PRKCQ	5588	broad.mit.edu	37	chr10	6557067	6557067	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gcaggacccgcagtcaaagtTggacaagccaatccgaagaa	11	11	1	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr10:6557067T>G	ENST00000263125.5	-	2	130	c.31A>C	c.(31-33)Aac>Cac	p.N11H	PRKCQ_ENST00000397176.2_Missense_Mutation_p.N11H|PRKCQ_ENST00000539722.1_5'UTR	NM_001282644.1|NM_006257.3	NP_001269573.1|NP_006248.1	Q04759	KPCT_HUMAN	protein kinase C, theta	11	C2.				apoptotic process (GO:0006915)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|Fc-epsilon receptor signaling pathway (GO:0038095)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|membrane protein ectodomain proteolysis (GO:0006509)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of T cell apoptotic process (GO:0070233)|phototransduction, visible light (GO:0007603)|platelet activation (GO:0030168)|positive regulation of interleukin-17 production (GO:0032740)|positive regulation of interleukin-2 biosynthetic process (GO:0045086)|positive regulation of interleukin-4 production (GO:0032753)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of T cell activation (GO:0050870)|positive regulation of T cell proliferation (GO:0042102)|positive regulation of T-helper 17 type immune response (GO:2000318)|positive regulation of T-helper 2 cell activation (GO:2000570)|protein ubiquitination (GO:0016567)|regulation of cell growth (GO:0001558)|regulation of platelet aggregation (GO:0090330)|regulation of rhodopsin mediated signaling pathway (GO:0022400)|regulation of transcription, DNA-templated (GO:0006355)|rhodopsin mediated signaling pathway (GO:0016056)|T cell receptor signaling pathway (GO:0050852)	cytosol (GO:0005829)|immunological synapse (GO:0001772)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein kinase C activity (GO:0004697)|protein serine/threonine kinase activity (GO:0004674)|ubiquitin-protein transferase activity (GO:0004842)			NS(1)|breast(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|liver(1)|lung(13)|ovary(4)|prostate(1)|skin(4)|stomach(2)	45					Tamoxifen(DB00675)	CAGTCAAAGTTGGACAAGCCA	0.488																																					Ovarian(50;572 1126 10530 25349 30594)											0													54	56	55					10																	6557067		2203	4300	6503	SO:0001583	missense	5588			L07032	CCDS7079.1, CCDS55701.1, CCDS60482.1	10p15	2009-07-10			ENSG00000065675	ENSG00000065675	2.7.11.1		9410	protein-coding gene	gene with protein product		600448				8444877	Standard	NM_001282645		Approved		uc001ijj.2	Q04759	OTTHUMG00000017623	ENST00000263125.5:c.31A>C	10.37:g.6557067T>G	ENSP00000263125:p.Asn11His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DF52|Q14DH6|Q3MJF1|Q64FY5|Q9H508|Q9H549	Missense_Mutation	SNP	ENST00000263125.5	37	CCDS7079.1	.	.	.	.	.	.	.	.	.	.	T	15.13	2.742344	0.49151	.	.	ENSG00000065675	ENST00000263125;ENST00000397176	T;T	0.68331	-0.32;-0.26	5.2	3.99	0.46301	C2 calcium/lipid-binding domain, CaLB (1);	0.240987	0.44097	D	0.000499	T	0.52025	0.1709	N	0.22421	0.69	0.80722	D	1	B;B	0.09022	0.0;0.002	B;B	0.11329	0.006;0.003	T	0.52668	-0.8545	10	0.49607	T	0.09	.	12.6635	0.56828	0.0:0.0:0.1369:0.8631	.	11;11	Q04759-2;Q04759	.;KPCT_HUMAN	H	11	ENSP00000263125:N11H;ENSP00000380361:N11H	ENSP00000263125:N11H	N	-	1	0	PRKCQ	6597073	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	4.294000	0.59043	2.090000	0.63153	0.460000	0.39030	AAC		0.488	PRKCQ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046665.1	NM_006257		G	6557067	T	G	6557067	3	3	690	1	0	0	0	0	1	0	0	0	12525	1812	63	5	2157	5	PRKCQ	10	6557067	Missense_Mutation	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10		6557067	128977680	58	44827										
PCDH15	65217	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	55600213	55600213	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tccaatggactccactacgaCcttggcaccaggaatttgtt	8	12	0	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr10:55600213C>A	ENST00000320301.6	-	29	4244	c.3850G>T	c.(3850-3852)Gtc>Ttc	p.V1284F	PCDH15_ENST00000395442.1_Intron|PCDH15_ENST00000361849.3_Missense_Mutation_p.V1284F|PCDH15_ENST00000409834.1_Missense_Mutation_p.V895F|PCDH15_ENST00000414778.1_Missense_Mutation_p.V1289F|PCDH15_ENST00000395438.1_Missense_Mutation_p.V1284F|PCDH15_ENST00000395433.1_Missense_Mutation_p.V1262F|PCDH15_ENST00000463095.1_5'UTR|PCDH15_ENST00000395446.1_Intron|PCDH15_ENST00000373965.2_Missense_Mutation_p.V1291F|PCDH15_ENST00000437009.1_Missense_Mutation_p.V1213F|PCDH15_ENST00000395445.1_Missense_Mutation_p.V1291F|PCDH15_ENST00000395432.2_Missense_Mutation_p.V1247F|PCDH15_ENST00000395430.1_Missense_Mutation_p.V1284F|PCDH15_ENST00000395440.1_Intron|PCDH15_ENST00000373957.3_Intron	NM_033056.3	NP_149045.3	Q96QU1	PCD15_HUMAN	protocadherin-related 15	1284					equilibrioception (GO:0050957)|homophilic cell adhesion (GO:0007156)|photoreceptor cell maintenance (GO:0045494)|sensory perception of light stimulus (GO:0050953)|sensory perception of sound (GO:0007605)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|photoreceptor outer segment (GO:0001750)|plasma membrane (GO:0005886)|stereocilium (GO:0032420)|synapse (GO:0045202)	calcium ion binding (GO:0005509)			NS(3)|breast(6)|central_nervous_system(1)|cervix(3)|endometrium(18)|haematopoietic_and_lymphoid_tissue(4)|kidney(13)|large_intestine(39)|lung(108)|ovary(5)|pancreas(6)|prostate(6)|skin(12)|upper_aerodigestive_tract(12)|urinary_tract(1)	237		Melanoma(3;0.117)|Lung SC(717;0.238)				TCCACTACGACCTTGGCACCA	0.448										HNSCC(58;0.16)																																						0													100	90	93					10																	55600213		2203	4300	6503	SO:0001583	missense	65217			AY029205	CCDS7248.1, CCDS44400.1, CCDS44401.1, CCDS44403.1, CCDS44404.1, CCDS73134.1, CCDS73135.1, CCDS73136.1, CCDS73137.1, CCDS73138.1	10q21.1	2013-01-08	2010-01-25		ENSG00000150275	ENSG00000150275		"Cadherins / Cadherin-related"	14674	protein-coding gene	gene with protein product	"cadherin-related family member 15"	605514	"deafness, autosomal recessive 23", "protocadherin 15"	USH1F, DFNB23		11398101, 14570705	Standard	NM_033056		Approved	CDHR15	uc010qhy.1	Q96QU1	OTTHUMG00000018259	ENST00000320301.6:c.3850G>T	10.37:g.55600213C>A	ENSP00000322604:p.Val1284Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A6NL19|C6ZEF5|C6ZEF6|C6ZEF7|Q5VY38|Q5VY39|Q6TRH8|Q8NDB9|Q96QT8	Missense_Mutation	SNP	ENST00000320301.6	37	CCDS7248.1	.	.	.	.	.	.	.	.	.	.	C	21.3	4.130044	0.77549	.	.	ENSG00000150275	ENST00000373965;ENST00000414778;ENST00000455746;ENST00000395438;ENST00000409834;ENST00000395445;ENST00000395432;ENST00000361849;ENST00000395433;ENST00000320301;ENST00000395430;ENST00000417177;ENST00000437009	T;T;T;T;T;T;T;T;T;T;T	0.65732	0.07;0.11;-0.01;0.01;0.02;-0.12;-0.14;-0.09;-0.14;-0.16;-0.17	5.43	5.43	0.79202	.	.	.	.	.	T	0.73321	0.3572	L	0.36672	1.1	0.80722	D	1	D;D;D;D;D;D;D;D;D;D;D;D;D	0.89917	0.999;1.0;1.0;1.0;1.0;1.0;0.999;0.999;1.0;1.0;0.999;1.0;1.0	D;D;D;D;D;D;D;D;D;D;D;D;D	0.91635	0.998;0.999;0.999;0.999;0.999;0.999;0.998;0.998;0.999;0.999;0.998;0.999;0.999	T	0.75431	-0.3320	9	0.87932	D	0	.	19.1946	0.93682	0.0:1.0:0.0:0.0	.	1262;1284;1284;1289;1213;1247;1284;1284;1291;1291;1284;1289;1284	A2A3E8;E7EMG4;A2A3E7;C9JIG1;E7EM53;E7EMG0;A2A3E6;A2A3E3;C6ZEF5;A2A3E2;C6ZEF7;C9J4F3;Q96QU1	.;.;.;.;.;.;.;.;.;.;.;.;PCD15_HUMAN	F	1291;1289;1284;1284;895;1291;1247;1284;1262;1284;1284;1289;1213	ENSP00000363076:V1291F;ENSP00000410304:V1289F;ENSP00000378826:V1284F;ENSP00000386693:V895F;ENSP00000378832:V1291F;ENSP00000378820:V1247F;ENSP00000354950:V1284F;ENSP00000378821:V1262F;ENSP00000322604:V1284F;ENSP00000378818:V1284F;ENSP00000412628:V1213F	ENSP00000322604:V1284F	V	-	1	0	PCDH15	55270219	1.000000	0.71417	0.995000	0.50966	0.949000	0.60115	4.762000	0.62250	2.703000	0.92315	0.579000	0.79373	GTC		0.448	PCDH15-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000048121.2	NM_033056		A	55600213	C	A	55600213	3	1	690	1	0	0	0	0	1	0	0	0	11518	507	18	4	3656	4	PCDH15	10	55600213	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	49043146	55600213	79934534	59	44828										
NRG3	10718	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	83635808	83635808	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	cctcctcctaccttcacgatTctactccctcctggaccctg	4	20	2	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr10:83635808T>C	ENST00000404547.1	+	1	712	c.712T>C	c.(712-714)Tct>Cct	p.S238P	NRG3_ENST00000372141.2_Missense_Mutation_p.S238P|NRG3_ENST00000404576.2_5'Flank|NRG3_ENST00000372142.2_5'Flank|NRG3_ENST00000556918.1_5'Flank			P56975	NRG3_HUMAN	neuregulin 3	238	Ser/Thr-rich.				activation of transmembrane receptor protein tyrosine kinase activity (GO:0007171)|intracellular signal transduction (GO:0035556)|mammary placode formation (GO:0060596)|pattern specification process (GO:0007389)|regulation of cell growth (GO:0001558)	extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)	growth factor activity (GO:0008083)|receptor tyrosine kinase binding (GO:0030971)|transmembrane receptor protein tyrosine kinase activator activity (GO:0030297)			breast(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(41)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	69				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		CCTTCACGATTCTACTCCCTC	0.602																																																0													100	74	83					10																	83635808		2203	4300	6503	SO:0001583	missense	10718			AK098823	CCDS31233.1, CCDS53547.1	10q22-q23	2003-09-09			ENSG00000185737	ENSG00000185737			7999	protein-coding gene	gene with protein product		605533				9275162	Standard	NM_001010848		Approved		uc001kco.2	P56975	OTTHUMG00000018626	ENST00000404547.1:c.712T>C	10.37:g.83635808T>C	ENSP00000384796:p.Ser238Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A4D7U1|Q0PEH2|Q5VYH3	Missense_Mutation	SNP	ENST00000404547.1	37	CCDS31233.1	.	.	.	.	.	.	.	.	.	.	T	17.05	3.288753	0.59976	.	.	ENSG00000185737	ENST00000372141;ENST00000404547;ENST00000537287	T;T	0.32515	1.45;1.46	4.14	4.14	0.48551	.	0.174325	0.27831	N	0.017667	T	0.35913	0.0948	L	0.36672	1.1	0.80722	D	1	D;D	0.64830	0.994;0.994	P;P	0.54759	0.76;0.76	T	0.13282	-1.0515	10	0.59425	D	0.04	-18.5043	11.474	0.50286	0.0:0.0:0.0:1.0	.	238;238	B9EGV5;P56975-4	.;.	P	238	ENSP00000361214:S238P;ENSP00000384796:S238P	ENSP00000361214:S238P	S	+	1	0	NRG3	83625788	0.998000	0.40836	0.059000	0.19551	0.993000	0.82548	5.633000	0.67825	1.879000	0.54435	0.529000	0.55759	TCT		0.602	NRG3-005	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000412262.1	XM_166086		C	83635808	T	C	83635808	3	2	690	1	0	0	0	0	1	0	0	0	10656	1783	62	3	714	3	NRG3	10	83635808	Missense_Mutation	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10	28035595	83635808	51898939	60	44829										
KIF11	3832	bcgsc.ca	37	chr10	94373230	94373230	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	atcaatccctgttgactttgGgaagggtcattactgccctt	9	10	2	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr10:94373230G>A	ENST00000260731.3	+	8	976	c.886G>A	c.(886-888)Gga>Aga	p.G296R		NM_004523.3	NP_004514.2	P52732	KIF11_HUMAN	kinesin family member 11	296	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|ATP catabolic process (GO:0006200)|blood coagulation (GO:0007596)|chromosome segregation (GO:0007059)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|mitotic centrosome separation (GO:0007100)|mitotic nuclear division (GO:0007067)|mitotic spindle organization (GO:0007052)|spindle assembly involved in mitosis (GO:0090307)|spindle organization (GO:0007051)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinesin complex (GO:0005871)|membrane (GO:0016020)|microtubule (GO:0005874)|spindle (GO:0005819)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)|plus-end-directed microtubule motor activity (GO:0008574)|protein complex binding (GO:0032403)|protein kinase binding (GO:0019901)			breast(1)|endometrium(5)|kidney(2)|large_intestine(9)|lung(8)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29						GTTGACTTTGGGAAGGGTCAT	0.438																																					Colon(47;212 1003 2764 4062 8431)											0													96	96	96					10																	94373230		2203	4300	6503	SO:0001583	missense	3832			X85137	CCDS7422.1	10q24.1	2008-03-03	2003-01-09	2003-01-10	ENSG00000138160	ENSG00000138160		"Kinesins"	6388	protein-coding gene	gene with protein product		148760	"kinesin-like 1"	KNSL1		1505978, 8548803	Standard	NM_004523		Approved	Eg5, HKSP, TRIP5	uc001kic.3	P52732	OTTHUMG00000018761	ENST00000260731.3:c.886G>A	10.37:g.94373230G>A	ENSP00000260731:p.Gly296Arg	Somatic		WXS	Illumina HiSeq	Phase_1	A0AV49|B2RMV3|Q15716|Q5VWX0	Missense_Mutation	SNP	ENST00000260731.3	37	CCDS7422.1	.	.	.	.	.	.	.	.	.	.	G	29.2	4.984191	0.93044	.	.	ENSG00000138160	ENST00000260731	D	0.88201	-2.35	5.58	5.58	0.84498	Kinesin, motor domain (3);	0.000000	0.85682	D	0.000000	D	0.96090	0.8726	M	0.92412	3.305	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.96656	0.9485	10	0.87932	D	0	.	19.579	0.95458	0.0:0.0:1.0:0.0	.	296	P52732	KIF11_HUMAN	R	296	ENSP00000260731:G296R	ENSP00000260731:G296R	G	+	1	0	KIF11	94363210	1.000000	0.71417	1.000000	0.80357	0.963000	0.63663	9.732000	0.98816	2.617000	0.88574	0.591000	0.81541	GGA		0.438	KIF11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049401.1	NM_004523		A	94373230	G	A	94373230	3	1	690	1	0	0	0	0	1	0	0	0	8279	1233	43	2	916	2	KIF11	10	94373230	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	10737422	94373230	41161517	61	44830										
CYP2C8	1558	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	96818110	96818110	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	acctgctccattttgatcagGaagcaatcgataaagtcccg	8	11	1	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr10:96818110G>C	ENST00000371270.3	-	5	895	c.801C>G	c.(799-801)ttC>ttG	p.F267L	CYP2C8_ENST00000539050.1_Missense_Mutation_p.F181L|CYP2C8_ENST00000535898.1_Missense_Mutation_p.F165L	NM_000770.3|NM_001198853.1|NM_001198855.1	NP_000761.3|NP_001185782.1|NP_001185784.1	P10632	CP2C8_HUMAN	cytochrome P450, family 2, subfamily C, polypeptide 8	267					arachidonic acid metabolic process (GO:0019369)|drug metabolic process (GO:0017144)|epoxygenase P450 pathway (GO:0019373)|exogenous drug catabolic process (GO:0042738)|omega-hydroxylase P450 pathway (GO:0097267)|organic acid metabolic process (GO:0006082)|oxidation-reduction process (GO:0055114)|oxidative demethylation (GO:0070989)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)	aromatase activity (GO:0070330)|caffeine oxidase activity (GO:0034875)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)			breast(1)|endometrium(3)|kidney(3)|large_intestine(5)|lung(6)|skin(3)	21		Colorectal(252;0.0397)		all cancers(201;6.21e-05)	Abiraterone(DB05812)|Acetaminophen(DB00316)|Acetylsalicylic acid(DB00945)|Almotriptan(DB00918)|Aminophenazone(DB01424)|Amiodarone(DB01118)|Amitriptyline(DB00321)|Amlodipine(DB00381)|Amodiaquine(DB00613)|Amprenavir(DB00701)|Antipyrine(DB01435)|Apixaban(DB06605)|Atorvastatin(DB01076)|Azelastine(DB00972)|Benzyl alcohol(DB06770)|Bezafibrate(DB01393)|Bortezomib(DB00188)|Brompheniramine(DB00835)|Buprenorphine(DB00921)|Bupropion(DB01156)|Cabazitaxel(DB06772)|Caffeine(DB00201)|Candesartan(DB00796)|Carbamazepine(DB00564)|Carbinoxamine(DB00748)|Chloramphenicol(DB00446)|Chloroquine(DB00608)|Cholecalciferol(DB00169)|Cimetidine(DB00501)|Cisapride(DB00604)|Clopidogrel(DB00758)|Clotrimazole(DB00257)|Clozapine(DB00363)|Cocaine(DB00907)|Colchicine(DB01394)|Cyclophosphamide(DB00531)|Cyclosporine(DB00091)|Dabrafenib(DB08912)|Dapsone(DB00250)|Delavirdine(DB00705)|Dexamethasone(DB01234)|Dextromethorphan(DB00514)|Dextropropoxyphene(DB00647)|Diazepam(DB00829)|Diclofenac(DB00586)|Diethylstilbestrol(DB00255)|Diltiazem(DB00343)|Domperidone(DB01184)|Eltrombopag(DB06210)|Enzalutamide(DB08899)|Erlotinib(DB00530)|Estradiol(DB00783)|Eszopiclone(DB00402)|Ethinyl Estradiol(DB00977)|Etoposide(DB00773)|Felodipine(DB01023)|Fenofibrate(DB01039)|Fluorouracil(DB00544)|Fluvastatin(DB01095)|Fosphenytoin(DB01320)|Gemfibrozil(DB01241)|Halofantrine(DB01218)|Hydrocortisone(DB00741)|Ibuprofen(DB01050)|Ifosfamide(DB01181)|Irbesartan(DB01029)|Isoniazid(DB00951)|Ketamine(DB01221)|Ketobemidone(DB06738)|Ketoconazole(DB01026)|Ketoprofen(DB01009)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Levomilnacipran(DB08918)|Levothyroxine(DB00451)|Lidocaine(DB00281)|Liotrix(DB01583)|Loperamide(DB00836)|Loratadine(DB00455)|Losartan(DB00678)|Lovastatin(DB00227)|Medroxyprogesterone Acetate(DB00603)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Methadone(DB00333)|Metronidazole(DB00916)|Mirtazapine(DB00370)|Mometasone(DB00764)|Montelukast(DB00471)|Morphine(DB00295)|Mycophenolate mofetil(DB00688)|Naloxone(DB01183)|Naproxen(DB00788)|Nicardipine(DB00622)|Nicotine(DB00184)|Nifedipine(DB01115)|Nilotinib(DB04868)|Nilutamide(DB00665)|Nilvadipine(DB06712)|Omeprazole(DB00338)|Oxybutynin(DB01062)|Paclitaxel(DB01229)|Paramethadione(DB00617)|Paroxetine(DB00715)|Pazopanib(DB06589)|Pentamidine(DB00738)|Perphenazine(DB00850)|Phenelzine(DB00780)|Phenobarbital(DB01174)|Phenprocoumon(DB00946)|Phenytoin(DB00252)|Pioglitazone(DB01132)|Piroxicam(DB00554)|Pitavastatin(DB08860)|Ponatinib(DB08901)|Pravastatin(DB00175)|Primidone(DB00794)|Probenecid(DB01032)|Progesterone(DB00396)|Propafenone(DB01182)|Propofol(DB00818)|Pyrimethamine(DB00205)|Quinidine(DB00908)|Quinine(DB00468)|Raloxifene(DB00481)|Regorafenib(DB08896)|Repaglinide(DB00912)|Rifampicin(DB01045)|Rifapentine(DB01201)|Ritonavir(DB00503)|Rosiglitazone(DB00412)|Salmeterol(DB00938)|Saquinavir(DB01232)|Secobarbital(DB00418)|Selegiline(DB01037)|Simvastatin(DB00641)|Sitagliptin(DB01261)|Sorafenib(DB00398)|Spironolactone(DB00421)|Sulfadiazine(DB00359)|Sulfamethoxazole(DB01015)|Sulfaphenazole(DB06729)|Sulfinpyrazone(DB01138)|Tamoxifen(DB00675)|Tazarotene(DB00799)|Temazepam(DB00231)|Terbinafine(DB00857)|Testosterone(DB00624)|Theophylline(DB00277)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tioconazole(DB01007)|Tolbutamide(DB01124)|Torasemide(DB00214)|Trametinib(DB08911)|Tretinoin(DB00755)|Triazolam(DB00897)|Trimethadione(DB00347)|Trimethoprim(DB00440)|Troleandomycin(DB01361)|Valproic Acid(DB00313)|Verapamil(DB00661)|Vismodegib(DB08828)|Warfarin(DB00682)|Zafirlukast(DB00549)|Zidovudine(DB00495)|Zopiclone(DB01198)	TTTTGATCAGGAAGCAATCGA	0.353																																																0													163	145	151					10																	96818110		2203	4300	6503	SO:0001583	missense	1558			M17397	CCDS7438.1, CCDS55721.1, CCDS73166.1	10q24.1	2007-12-14	2003-01-14		ENSG00000138115	ENSG00000138115		"Cytochrome P450s"	2622	protein-coding gene	gene with protein product		601129	"cytochrome P450, subfamily IIC (mephenytoin 4-hydroxylase), polypeptide 8"			7841444	Standard	NM_001198853		Approved	CPC8	uc001kkb.3	P10632	OTTHUMG00000018804	ENST00000371270.3:c.801C>G	10.37:g.96818110G>C	ENSP00000360317:p.Phe267Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9N8|B0AZN2|B7Z1F6|Q5VX93|Q8WWB1|Q9UCZ9	Missense_Mutation	SNP	ENST00000371270.3	37	CCDS7438.1	.	.	.	.	.	.	.	.	.	.	G	11.16	1.557052	0.27827	.	.	ENSG00000138115	ENST00000371270;ENST00000535868;ENST00000535898;ENST00000539050	T;T;T	0.06687	3.27;3.27;3.27	4.17	-0.451	0.12214	.	0.000000	0.85682	U	0.000000	T	0.07638	0.0192	L	0.29908	0.895	0.29573	N	0.849721	P;P;P;P	0.50617	0.922;0.937;0.779;0.937	P;P;P;P	0.50109	0.459;0.594;0.631;0.49	T	0.16424	-1.0403	10	0.49607	T	0.09	.	4.5328	0.12013	0.2874:0.0:0.5591:0.1535	.	181;165;235;267	F5H7Q9;B7Z1F6;B7Z8S1;P10632	.;.;.;CP2C8_HUMAN	L	267;234;165;181	ENSP00000360317:F267L;ENSP00000445062:F165L;ENSP00000442343:F181L	ENSP00000360317:F267L	F	-	3	2	CYP2C8	96808100	0.998000	0.40836	0.741000	0.31004	0.173000	0.22820	0.270000	0.18607	0.011000	0.14865	0.305000	0.20034	TTC		0.353	CYP2C8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049499.2	NM_000770		C	96818110	G	C	96818110	3	2	690	1	0	0	0	0	1	0	0	0	4169	1165	41	4	691	4	CYP2C8	10	96818110	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	2444880	96818110	38716637	62	44831										
SORBS1	10580	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	97096528	97096528	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	cgcctgcccccctctctgctTtcctctcatattgtccactc	4	20	2	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr10:97096528T>G	ENST00000361941.3	-	28	3415	c.3389A>C	c.(3388-3390)aAa>aCa	p.K1130T	SORBS1_ENST00000371241.1_Intron|SORBS1_ENST00000371247.2_Missense_Mutation_p.K1130T|SORBS1_ENST00000371227.4_Missense_Mutation_p.K1084T|SORBS1_ENST00000347291.4_Intron|SORBS1_ENST00000371249.2_Intron|SORBS1_ENST00000277982.5_Missense_Mutation_p.K989T|SORBS1_ENST00000353505.5_Intron|SORBS1_ENST00000371239.1_Intron|SORBS1_ENST00000393949.1_Intron|SORBS1_ENST00000306402.6_Intron|SORBS1_ENST00000371246.2_Missense_Mutation_p.K989T|SORBS1_ENST00000607232.1_Intron|SORBS1_ENST00000354106.3_Intron|SORBS1_ENST00000371245.3_Intron	NM_001034954.1	NP_001030126			sorbin and SH3 domain containing 1											NS(1)|breast(3)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(19)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	42		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)		CCTCTCTGCTTTCCTCTCATA	0.552																																																0													74	71	72					10																	97096528		2203	4300	6503	SO:0001583	missense	10580			AF136381	CCDS7442.1, CCDS31252.1, CCDS31253.1, CCDS31254.1, CCDS31255.1, CCDS31256.1, CCDS73169.1	10q23.33	2011-07-25	2002-05-08		ENSG00000095637	ENSG00000095637			14565	protein-coding gene	gene with protein product	"c-Cbl-associated protein"	605264	"SH3-domain protein 5 (ponsin)"	SH3D5		10085297, 11001060	Standard	XM_005269405		Approved	FLJ12406, CAP, sh3p12, ponsin, KIAA1296	uc001kkp.3	Q9BX66	OTTHUMG00000018812	ENST00000361941.3:c.3389A>C	10.37:g.97096528T>G	ENSP00000355136:p.Lys1130Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000361941.3	37	CCDS31255.1	.	.	.	.	.	.	.	.	.	.	T	12.02	1.813778	0.32053	.	.	ENSG00000095637	ENST00000371247;ENST00000371227;ENST00000371246;ENST00000361941;ENST00000277982	T;T;T;T;T	0.08984	3.09;3.03;3.38;3.09;3.38	5.58	3.22	0.36961	.	0.488362	0.17388	N	0.176042	T	0.04815	0.0130	N	0.19112	0.55	0.80722	D	1	B;B;B	0.30281	0.275;0.079;0.275	B;B;B	0.27076	0.076;0.035;0.076	T	0.46331	-0.9199	10	0.15499	T	0.54	-0.5924	7.5752	0.27931	0.0:0.1794:0.0:0.8206	.	1084;1130;989	Q9BX66-11;Q9BX66;Q9BX66-2	.;SRBS1_HUMAN;.	T	1130;1084;989;1130;989	ENSP00000360293:K1130T;ENSP00000360271:K1084T;ENSP00000360292:K989T;ENSP00000355136:K1130T;ENSP00000277982:K989T	ENSP00000277982:K989T	K	-	2	0	SORBS1	97086518	0.873000	0.30073	0.996000	0.52242	0.854000	0.48673	0.144000	0.16135	0.406000	0.25560	0.459000	0.35465	AAA		0.552	SORBS1-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049517.1			G	97096528	T	G	97096528	3	3	690	1	0	0	0	0	1	0	0	0	14940	1841	64	5	569	5	SORBS1	10	97096528	Missense_Mutation	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10	278418	97096528	38438219	63	44832										
GPR123	84435	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	134912186	134912187	+	Frame_Shift_Del	DEL	TT	TT	-													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ggccggcacacgctcctgaaTttctgcttccacgcggccct							TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr10:134912186_134912187delTT	ENST00000392607.3	+	4	610_611	c.174_175delTT	c.(172-177)aatttcfs	p.F59fs	GPR123_ENST00000607359.1_Frame_Shift_Del_p.F779fs	NM_001083909.1	NP_001077378.1	Q86SQ6	GP123_HUMAN	G protein-coupled receptor 123	59					G-protein coupled receptor signaling pathway (GO:0007186)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			endometrium(2)|kidney(2)|large_intestine(1)|lung(6)|prostate(3)	14		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)		CGCTCCTGAATTTCTGCTTCCA	0.658																																																0																																										SO:0001589	frameshift_variant	84435			AB058731	CCDS41580.1	10q26	2014-08-08			ENSG00000197177	ENSG00000197177		"-", "GPCR / Class B : Orphans"	13838	protein-coding gene	gene with protein product		612302				12565841	Standard	XM_005252695		Approved	KIAA1828	uc001llw.3	Q86SQ6	OTTHUMG00000019304	ENST00000392607.3:c.174_175delTT	10.37:g.134912186_134912187delTT	ENSP00000376384:p.Phe59fs	Somatic		WXS	Illumina HiSeq	Phase_I	A5HL16|A6NG50|Q5T234|Q86SN7|Q96JJ9	Frame_Shift_Del	DEL	ENST00000392607.3	37	CCDS41580.1																																																																																				0.658	GPR123-003	NOVEL	basic|appris_candidate|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000051113.2			-	134912187	TT	-	134912186	7	5	690	1	0	1	0	1	0	0	0	0	6644	1490	52	0	184	0	GPR123	10	134912186	Frame_Shift_Del	DEL	TT	TCGA-MH-A55W-01A-11D-A26P-10	37815658	134912186	622561	64	44833										
MARK2	2011	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	63671476	63671476	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	agcctaaccatgccagggtcCcgggcctccacggcttctgc	11	17	1	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr11:63671476C>G	ENST00000509502.2	+	15	1894	c.1431C>G	c.(1429-1431)tcC>tcG	p.S477S	MARK2_ENST00000350490.7_Intron|MARK2_ENST00000315032.8_Silent_p.S511S|MARK2_ENST00000413835.2_Intron|MARK2_ENST00000402010.2_Silent_p.S511S|MARK2_ENST00000425897.2_Intron|MARK2_ENST00000408948.3_Intron|MARK2_ENST00000361128.5_Intron|MARK2_ENST00000513765.2_Silent_p.S478S|MARK2_ENST00000377810.3_Intron|MARK2_ENST00000377809.4_Silent_p.S511S|MARK2_ENST00000502399.3_Silent_p.S510S|MARK2_ENST00000508192.1_Intron	NM_017490.3	NP_059672.2			MAP/microtubule affinity-regulating kinase 2											autonomic_ganglia(1)|breast(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(6)|lung(13)|ovary(1)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	33						TGCCAGGGTCCCGGGCCTCCA	0.652																																																0													39	41	40					11																	63671476		1818	4074	5892	SO:0001819	synonymous_variant	2011			BC008771	CCDS8051.1, CCDS41665.1, CCDS8051.2, CCDS53649.1, CCDS53650.1, CCDS53651.1	11q13.1	2013-06-27	2002-07-26	2002-08-01	ENSG00000072518	ENSG00000072518			3332	protein-coding gene	gene with protein product	"ELKL motif kinase 1", "serine/threonine kinase", "protein-serine/threonine kinase", "Ser/Thr protein kinase PAR-1B"	600526	"ELKL motif kinase"	EMK1		9730619, 10516437	Standard	NM_017490		Approved	PAR-1, Par1b, PAR-1B	uc001nxw.3	Q7KZI7	OTTHUMG00000160504	ENST00000509502.2:c.1431C>G	11.37:g.63671476C>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000509502.2	37	CCDS41665.1																																																																																				0.652	MARK2-003	NOVEL	basic|appris_candidate_longest|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000360862.2	NM_017490		G	63671476	C	G	63671476	2	3	690	1	0	0	0	0	0	0	0	1	9320	610	22	4		4	MARK2	11	63671476	Silent	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10		63671476	71335040	65	44834										
DPF2	5977	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	65107956	65107956	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gcctgcctttcttggactcaCagaccggagtagcccagagc	11	14	2	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr11:65107956C>G	ENST00000528416.1	+	2	266	c.133C>G	c.(133-135)Cag>Gag	p.Q45E	DPF2_ENST00000415073.2_Missense_Mutation_p.Q45E|DPF2_ENST00000252268.4_Missense_Mutation_p.Q45E|DPF2_ENST00000532264.1_Intron	NM_006268.4	NP_006259.1	Q92785	REQU_HUMAN	D4, zinc and double PHD fingers family 2	45					apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|zinc ion binding (GO:0008270)			endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(7)|lung(7)|ovary(1)|prostate(1)	23						CTTGGACTCACAGACCGGAGT	0.562																																																0													102	103	103					11																	65107956		2201	4297	6498	SO:0001583	missense	5977			U94585	CCDS8100.1	11q13.1	2014-05-13	2003-10-06	2003-10-08	ENSG00000133884	ENSG00000133884		"Zinc fingers, PHD-type"	9964	protein-coding gene	gene with protein product		601671	"requiem, apoptosis response zinc finger gene"	REQ		11845289	Standard	NM_006268		Approved	ubi-d4, BAF45d	uc001odm.3	Q92785	OTTHUMG00000165985	ENST00000528416.1:c.133C>G	11.37:g.65107956C>G	ENSP00000436901:p.Gln45Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7C9|B4DT58	Missense_Mutation	SNP	ENST00000528416.1	37	CCDS8100.1	.	.	.	.	.	.	.	.	.	.	C	32	5.118519	0.94385	.	.	ENSG00000133884	ENST00000528416;ENST00000415073;ENST00000252268	D;D;D	0.92647	-3.06;-3.06;-3.08	5.52	5.52	0.82312	.	0.000000	0.35870	N	0.002937	D	0.96269	0.8783	M	0.83953	2.67	0.80722	D	1	D;D;D	0.76494	0.963;0.999;0.963	D;D;D	0.91635	0.973;0.999;0.973	D	0.96656	0.9485	10	0.87932	D	0	-25.3906	16.9414	0.86219	0.0:1.0:0.0:0.0	.	45;45;45	B4DT58;E9PN04;Q92785	.;.;REQU_HUMAN	E	45	ENSP00000436901:Q45E;ENSP00000399714:Q45E;ENSP00000252268:Q45E	ENSP00000252268:Q45E	Q	+	1	0	DPF2	64864532	1.000000	0.71417	0.968000	0.41197	0.994000	0.84299	7.818000	0.86416	2.588000	0.87417	0.655000	0.94253	CAG		0.562	DPF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387293.3	NM_006268		G	65107956	C	G	65107956	3	3	690	1	0	0	0	0	1	0	0	0	4719	479	17	4	139	4	DPF2	11	65107956	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	1436480	65107956	69898560	66	44835										
ADRBK1	156	bcgsc.ca	37	chr11	67048958	67048958	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tgaagtgcctggacaaaaagCgcatcaagatgaagcagggg	14	7	1	3			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr11:67048958C>T	ENST00000308595.5	+	9	966	c.676C>T	c.(676-678)Cgc>Tgc	p.R226C	ADRBK1_ENST00000526285.1_Missense_Mutation_p.R226C	NM_001619.3	NP_001610.2	P25098	ARBK1_HUMAN	adrenergic, beta, receptor kinase 1	226	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of phospholipase C activity (GO:0007202)|cardiac muscle contraction (GO:0060048)|desensitization of G-protein coupled receptor protein signaling pathway (GO:0002029)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|G-protein coupled acetylcholine receptor signaling pathway (GO:0007213)|heart development (GO:0007507)|innate immune response (GO:0045087)|negative regulation of striated muscle contraction (GO:0045988)|negative regulation of the force of heart contraction by chemical signal (GO:0003108)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|positive regulation of catecholamine secretion (GO:0033605)|receptor internalization (GO:0031623)|signal transduction (GO:0007165)|tachykinin receptor signaling pathway (GO:0007217)|termination of G-protein coupled receptor signaling pathway (GO:0038032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|plasma membrane (GO:0005886)	alpha-2A adrenergic receptor binding (GO:0031694)|ATP binding (GO:0005524)|beta-adrenergic receptor kinase activity (GO:0047696)|Edg-2 lysophosphatidic acid receptor binding (GO:0031755)|G-protein coupled receptor kinase activity (GO:0004703)|protein kinase activity (GO:0004672)			cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(2)|liver(2)|lung(8)|prostate(2)	22			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)	GGACAAAAAGCGCATCAAGAT	0.657																																																0													76	69	71					11																	67048958		2200	4295	6495	SO:0001583	missense	156			X61157	CCDS8156.1	11q13	2013-01-10			ENSG00000173020	ENSG00000173020		"Pleckstrin homology (PH) domain containing"	289	protein-coding gene	gene with protein product		109635				2037065	Standard	NM_001619		Approved	GRK2, BARK1	uc009yrn.1	P25098	OTTHUMG00000167104	ENST00000308595.5:c.676C>T	11.37:g.67048958C>T	ENSP00000312262:p.Arg226Cys	Somatic		WXS	Illumina HiSeq	Phase_1	B0ZBE1|Q13837|Q6GTT3	Missense_Mutation	SNP	ENST00000308595.5	37	CCDS8156.1	.	.	.	.	.	.	.	.	.	.	C	15.04	2.716682	0.48622	.	.	ENSG00000173020	ENST00000308595;ENST00000526285	T;T	0.66815	-0.23;-0.23	5.0	4.08	0.47627	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.64402	D	0.000007	T	0.79667	0.4485	M	0.70108	2.13	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.998	T	0.81805	-0.0764	10	0.87932	D	0	-13.2398	12.8248	0.57714	0.2975:0.7025:0.0:0.0	.	226;226	P25098;E9PRV7	ARBK1_HUMAN;.	C	226	ENSP00000312262:R226C;ENSP00000434126:R226C	ENSP00000312262:R226C	R	+	1	0	ADRBK1	66805534	1.000000	0.71417	1.000000	0.80357	0.339000	0.28857	2.696000	0.47052	1.225000	0.43566	-0.282000	0.10007	CGC		0.657	ADRBK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393153.1	NM_001619		T	67048958	C	T	67048958	3	4	690	1	0	0	0	0	1	0	0	0	343	768	27	1	710	1	ADRBK1	11	67048958	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	1941002	67048958	67957558	67	44836										
FAT3	120114	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	92599961	92599961	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gcggcagcggccctggaatcTtgggcatctcgggccgtgct	16	13	2	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr11:92599961T>A	ENST00000298047.6	+	21	11730	c.11713T>A	c.(11713-11715)Ttg>Atg	p.L3905M	FAT3_ENST00000525166.1_Missense_Mutation_p.L3755M|FAT3_ENST00000533797.1_Missense_Mutation_p.L240M|FAT3_ENST00000409404.2_Missense_Mutation_p.L3905M			Q8TDW7	FAT3_HUMAN	FAT atypical cadherin 3	3905	Laminin G-like. {ECO:0000255|PROSITE- ProRule:PRU00122}.				homophilic cell adhesion (GO:0007156)|multicellular organismal development (GO:0007275)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(2)|endometrium(10)|kidney(4)|large_intestine(11)|liver(2)|lung(37)|ovary(5)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(5)	85		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CCCTGGAATCTTGGGCATCTC	0.592										TCGA Ovarian(4;0.039)																																						0													29	34	32					11																	92599961		2046	4196	6242	SO:0001583	missense	120114			AB076400		11q14.3	2013-05-31	2013-05-31		ENSG00000165323	ENSG00000165323		"Cadherins / Cadherin-related"	23112	protein-coding gene	gene with protein product	"cadherin-related family member 10"	612483	"FAT tumor suppressor homolog 3 (Drosophila)"			11811999	Standard	NM_001008781		Approved	KIAA1989, CDHF15, CDHR10	uc001pdj.4	Q8TDW7	OTTHUMG00000154468	ENST00000298047.6:c.11713T>A	11.37:g.92599961T>A	ENSP00000298047:p.Leu3905Met	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDB0|Q96AU6	Missense_Mutation	SNP	ENST00000298047.6	37		.	.	.	.	.	.	.	.	.	.	T	14.78	2.638068	0.47153	.	.	ENSG00000165323	ENST00000298047;ENST00000409404;ENST00000525166;ENST00000533797	T;T;T;T	0.72505	-0.66;-0.66;-0.66;-0.66	5.77	-6.79	0.01715	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (2);Laminin G, subdomain 2 (1);	.	.	.	.	T	0.65688	0.2715	L	0.35414	1.06	0.80722	D	1	P;P	0.39601	0.68;0.645	B;B	0.43194	0.249;0.411	T	0.61367	-0.7077	9	0.49607	T	0.09	.	24.6348	0.99991	0.0:0.8789:0.0:0.1211	.	3905;3905	Q8TDW7-3;Q8TDW7	.;FAT3_HUMAN	M	3905;3905;3755;240	ENSP00000298047:L3905M;ENSP00000387040:L3905M;ENSP00000432586:L3755M;ENSP00000436399:L240M	ENSP00000298047:L3905M	L	+	1	2	FAT3	92239609	0.086000	0.21541	0.260000	0.24451	0.815000	0.46073	-0.484000	0.06528	-1.317000	0.02292	-0.379000	0.06801	TTG		0.592	FAT3-201	KNOWN	basic	protein_coding	protein_coding		NM_001008781		A	92599961	T	A	92599961	3	1	690	1	0	0	0	0	1	0	0	0	5698	1606	56	5	11795	5	FAT3	11	92599961	Missense_Mutation	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10	25551003	92599961	42406555	68	44837										
ALKBH8	91801	ucsc.edu	37	chr11	107423870	107423870	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	atctttatctacattgttgtTctcatagtggaactcataac	5	8	4	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr11:107423870T>C	ENST00000428149.2	-	5	710	c.559A>G	c.(559-561)Aac>Gac	p.N187D	ALKBH8_ENST00000530933.1_5'Flank|ALKBH8_ENST00000429370.1_Missense_Mutation_p.N187D|ALKBH8_ENST00000389568.3_Missense_Mutation_p.N187D|ALKBH8_ENST00000417449.2_Missense_Mutation_p.N190D	NM_138775.2	NP_620130.2	Q96BT7	ALKB8_HUMAN	alkB, alkylation repair homolog 8 (E. coli)	187					cellular response to DNA damage stimulus (GO:0006974)|tRNA methylation (GO:0030488)	cytosol (GO:0005829)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (GO:0016706)|RNA binding (GO:0003723)|tRNA (uracil) methyltransferase activity (GO:0016300)			breast(2)|large_intestine(2)|lung(5)	9		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00512)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.53e-05)|Epithelial(105;0.00029)|all cancers(92;0.00518)		ACATTGTTGTTCTCATAGTGG	0.294																																																0													143	131	135					11																	107423870		2200	4294	6494	SO:0001583	missense	91801			AF086489	CCDS8337.2, CCDS73376.1	11q22.3	2013-10-04			ENSG00000137760	ENSG00000137760	2.1.1.229	"Alkylation repair homologs", "RNA binding motif (RRM) containing"	25189	protein-coding gene	gene with protein product		613306				20123966	Standard	NM_138775		Approved	MGC10235	uc009yxp.3	Q96BT7	OTTHUMG00000157008	ENST00000428149.2:c.559A>G	11.37:g.107423870T>C	ENSP00000415885:p.Asn187Asp	Somatic		WXS	Illumina HiSeq		B1Q2M0|B4DEF6|Q8N989	Missense_Mutation	SNP	ENST00000428149.2	37	CCDS8337.2	.	.	.	.	.	.	.	.	.	.	T	20.3	3.961973	0.74016	.	.	ENSG00000137760	ENST00000428149;ENST00000429370;ENST00000389568;ENST00000417449	T;T;T;T	0.30448	2.81;1.53;2.81;2.81	5.52	4.4	0.53042	.	0.097141	0.64402	D	0.000002	T	0.42154	0.1190	M	0.67953	2.075	0.36045	D	0.84038	P	0.45283	0.855	P	0.51582	0.674	T	0.50866	-0.8777	10	0.37606	T	0.19	-14.8904	10.7841	0.46395	0.0:0.0748:0.0:0.9252	.	187	Q96BT7	ALKB8_HUMAN	D	187;187;187;190	ENSP00000415885:N187D;ENSP00000391225:N187D;ENSP00000374219:N187D;ENSP00000397673:N190D	ENSP00000260318:N187D	N	-	1	0	ALKBH8	106929080	1.000000	0.71417	1.000000	0.80357	0.960000	0.62799	5.671000	0.68095	0.922000	0.37019	-0.376000	0.06991	AAC		0.294	ALKBH8-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000347071.2	NM_138775		C	107423870	T	C	107423870	3	2	690	1	0	0	0	0	1	0	0	0	533	1783	62	3	1467	3	ALKBH8	11	107423870	Missense_Mutation	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10	14823909	107423870	27582646	69	44838										
C2CD2L	9854	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	118984691	118984704	+	Splice_Site	DEL	TTTCCAAGGTAACA	TTTCCAAGGTAACA	-													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	cactctcatcatctctggtgTttccaaggtaacagggctct							TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	TTTCCAAGGTAACA	TTTCCAAGGTAACA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr11:118984691_118984704delTTTCCAAGGTAACA	ENST00000528586.1	+	8	930_937	c.860_867delTTTCCAAGGTAACA	c.(859-867)gtttccaag>g	p.VSK287fs	C2CD2L_ENST00000336702.3_Splice_Site_p.VSK540fs			O14523	C2C2L_HUMAN	C2CD2-like	539						integral component of membrane (GO:0016021)				NS(1)|endometrium(1)|large_intestine(2)|lung(8)|prostate(1)	13						ATCTCTGGTGTTTCCAAGGTAACAGGGCTCTGGG	0.598																																																0																																										SO:0001630	splice_region_variant	9854			AK025223	CCDS8413.1	11q23.3	2008-04-22	2008-04-22	2008-04-22		ENSG00000172375			29000	protein-coding gene	gene with protein product			"transmembrane protein 24"	TMEM24		15289880	Standard	XM_005271738		Approved	KIAA0285	uc001pvn.3	O14523		ENST00000528586.1:c.867+1TTTCCAAGGTAACA>-	11.37:g.118984691_118984704delTTTCCAAGGTAACA		Somatic		WXS	Illumina HiSeq	Phase_I	Q86UT7|Q86V04|Q8N522|Q8TBN4|Q96G10	Frame_Shift_Del	DEL	ENST00000528586.1	37																																																																																					0.598	C2CD2L-003	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000388199.2	NM_014807	Frame_Shift_Del	-	118984704	TTTCCAAGGTAACA	-	118984691	8	5	690	1	0	1	0	1	0	0	1	0	2155	1725	60	0	1665	0	C2CD2L	11	118984691	Splice_Site	DEL	TTTCCAAGGTAACA	TCGA-MH-A55W-01A-11D-A26P-10	11560821	118984691	16021825	70	44839										
CCDC15	80071	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	124847425	124847425	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ggataaatacaggaataagaGgagagttgcccattaaggtc	12	5	0	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr11:124847425G>C	ENST00000344762.5	+	6	941	c.682G>C	c.(682-684)Gga>Cga	p.G228R	CCDC15_ENST00000529051.1_Missense_Mutation_p.G228R	NM_025004.2	NP_079280.2	Q0P6D6	CCD15_HUMAN	coiled-coil domain containing 15	228						centrosome (GO:0005813)				central_nervous_system(1)|cervix(1)|large_intestine(6)|lung(10)|ovary(1)|prostate(3)|skin(1)	23	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.68e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0413)		AGGAATAAGAGGAGAGTTGCC	0.378																																																0													67	65	66					11																	124847425		1828	4076	5904	SO:0001583	missense	80071			BC018540	CCDS44756.1	11q24.2	2008-02-05			ENSG00000149548	ENSG00000149548			25798	protein-coding gene	gene with protein product							Standard	NM_025004		Approved	FLJ13215	uc001qbm.4	Q0P6D6	OTTHUMG00000165940	ENST00000344762.5:c.682G>C	11.37:g.124847425G>C	ENSP00000341684:p.Gly228Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H8U7	Missense_Mutation	SNP	ENST00000344762.5	37	CCDS44756.1	.	.	.	.	.	.	.	.	.	.	G	2.444	-0.327892	0.05314	.	.	ENSG00000149548	ENST00000529051;ENST00000344762	T;T	0.31510	1.49;1.57	3.57	0.63	0.17693	.	.	.	.	.	T	0.20455	0.0492	L	0.31926	0.97	0.09310	N	1	B	0.12013	0.005	B	0.10450	0.005	T	0.22591	-1.0212	9	0.46703	T	0.11	-1.5802	5.3366	0.15961	0.3864:0.0:0.6136:0.0	.	228	Q0P6D6	CCD15_HUMAN	R	228	ENSP00000435403:G228R;ENSP00000341684:G228R	ENSP00000341684:G228R	G	+	1	0	CCDC15	124352635	0.000000	0.05858	0.006000	0.13384	0.005000	0.04900	0.169000	0.16641	0.314000	0.23086	-0.363000	0.07495	GGA		0.378	CCDC15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387131.1	NM_025004		C	124847425	G	C	124847425	3	2	690	1	0	0	0	0	1	0	0	0	2786	1001	35	4	700	4	CCDC15	11	124847425	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	5862734	124847425	10159091	71	44840										
STT3A	3703	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	125478106	125478106	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gcaagttgaatccacaacaaTttgaagttcttttccggagc	8	9	1	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr11:125478106T>G	ENST00000529196.1	+	10	1089	c.883T>G	c.(883-885)Ttt>Gtt	p.F295V	STT3A_ENST00000531491.1_Missense_Mutation_p.F203V|STT3A_ENST00000392708.4_Missense_Mutation_p.F295V			P46977	STT3A_HUMAN	STT3A, subunit of the oligosaccharyltransferase complex (catalytic)	295					cellular protein metabolic process (GO:0044267)|co-translational protein modification (GO:0043686)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|oligosaccharyltransferase complex (GO:0008250)	dolichyl-diphosphooligosaccharide-protein glycotransferase activity (GO:0004579)			NS(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(3)|lung(15)|skin(1)	33	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)		TCCACAACAATTTGAAGTTCT	0.507																																																0													145	136	139					11																	125478106		2201	4299	6500	SO:0001583	missense	3703			BC020965	CCDS8458.1, CCDS60998.1	11q23.3	2013-03-06	2013-03-06	2006-02-07	ENSG00000134910	ENSG00000134910	2.4.99.18		6172	protein-coding gene	gene with protein product	"dolichyl-diphosphooligosaccharide protein glycotransferase"	601134	"integral membrane protein 1", "STT3, subunit of the oligosaccharyltransferase complex, homolog A (S. cerevisiae)", "STT3A, cataylic subunit of the oligosaccharyltransferase complex"	ITM1		8941377, 8634329, 10234787	Standard	NM_152713		Approved	TMC, MGC9042, STT3-A	uc001qcd.2	P46977	OTTHUMG00000165852	ENST00000529196.1:c.883T>G	11.37:g.125478106T>G	ENSP00000436962:p.Phe295Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DJ24|E9PNQ1|Q86XU9|Q8TE35|Q8WUB4	Missense_Mutation	SNP	ENST00000529196.1	37	CCDS8458.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	34|34	5.361297|5.361297	0.95877|0.95877	.|.	.|.	ENSG00000134910|ENSG00000134910	ENST00000392708;ENST00000529196;ENST00000531491|ENST00000526726	.|.	.|.	.|.	5.64|5.64	5.64|5.64	0.86602|0.86602	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	D|D	0.84561|0.84561	0.5499|0.5499	M|M	0.91818|0.91818	3.245|3.245	0.80722|0.80722	D|D	1|1	P;P;D|.	0.53151|.	0.923;0.925;0.958|.	P;P;P|.	0.59012|.	0.622;0.85;0.85|.	D|D	0.88159|0.88159	0.2856|0.2856	9|5	0.66056|.	D|.	0.02|.	-19.0074|-19.0074	15.5287|15.5287	0.75932|0.75932	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	203;203;295|.	B4DJ24;E9PNQ1;P46977|.	.;.;STT3A_HUMAN|.	V|K	295;295;203|52	.|.	ENSP00000376472:F295V|.	F|N	+|+	1|3	0|2	STT3A|STT3A	124983316|124983316	1.000000|1.000000	0.71417|0.71417	0.999000|0.999000	0.59377|0.59377	0.990000|0.990000	0.78478|0.78478	8.040000|8.040000	0.89188|0.89188	2.148000|2.148000	0.66965|0.66965	0.533000|0.533000	0.62120|0.62120	TTT|AAT		0.507	STT3A-002	PUTATIVE	alternative_5_UTR|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000386691.1	NM_152713		G	125478106	T	G	125478106	3	3	690	1	0	0	0	0	1	0	0	0	15345	1493	52	5	913	5	STT3A	11	125478106	Missense_Mutation	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10	630681	125478106	9528410	72	44841										
IQSEC3	440073	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	275007	275007	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	cagaagttcgtggaggacctGaaggagtccattgctgaggt	15	7	0	3			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr12:275007G>A	ENST00000538872.1	+	11	3040	c.2922G>A	c.(2920-2922)ctG>ctA	p.L974L	IQSEC3_ENST00000382841.2_Silent_p.L671L|RP11-598F7.6_ENST00000537295.1_lincRNA|RP11-598F7.5_ENST00000540136.1_RNA|IQSEC3_ENST00000326261.4_Silent_p.L974L			Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	974	PH.				actin cytoskeleton organization (GO:0030036)|positive regulation of GTPase activity (GO:0043547)|regulation of ARF protein signal transduction (GO:0032012)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|inhibitory synapse (GO:0060077)|postsynaptic membrane (GO:0045211)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)			central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(6)|lung(18)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	35	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		TGGAGGACCTGAAGGAGTCCA	0.602																																																0													80	76	77					12																	275007		2203	4300	6503	SO:0001819	synonymous_variant	440073			AB029033	CCDS31725.1, CCDS53728.1	12p13.33	2014-03-18			ENSG00000120645	ENSG00000120645			29193	protein-coding gene	gene with protein product		612118				10470851	Standard	NM_001170738		Approved	KIAA1110, MGC30156	uc001qhw.2	Q9UPP2	OTTHUMG00000167975	ENST00000538872.1:c.2922G>A	12.37:g.275007G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NIF2|A6NKV9|Q8TB43	Silent	SNP	ENST00000538872.1	37	CCDS53728.1																																																																																				0.602	IQSEC3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397382.3	XM_495902		A	275007	G	A	275007	2	1	690	1	0	0	0	0	0	0	0	1	7826	1277	45	2		2	IQSEC3	12	275007	Silent	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10		275007	133576888	73	44842										
CD163L1	283316	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	7527336	7527336	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	cggctgtccccatccactagGcggagccgtttgtcctctta	10	15	1	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr12:7527336G>T	ENST00000313599.3	-	13	3168	c.3111C>A	c.(3109-3111)cgC>cgA	p.R1037R	CD163L1_ENST00000544331.1_5'Flank|CD163L1_ENST00000416109.2_Silent_p.R1047R|CD163L1_ENST00000396630.1_Silent_p.R1037R			Q9NR16	C163B_HUMAN	CD163 molecule-like 1	1037	SRCR 10. {ECO:0000255|PROSITE- ProRule:PRU00196}.					extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	scavenger receptor activity (GO:0005044)			breast(5)|central_nervous_system(3)|endometrium(8)|kidney(3)|large_intestine(18)|lung(37)|ovary(8)|prostate(3)|skin(6)|stomach(1)|urinary_tract(4)	96						CATCCACTAGGCGGAGCCGTT	0.522											OREG0021653	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													32	30	31					12																	7527336		2203	4300	6503	SO:0001819	synonymous_variant	283316			AF264014	CCDS8577.1, CCDS73434.1	12p13.31	2006-03-28	2006-03-28			ENSG00000177675			30375	protein-coding gene	gene with protein product		606079	"CD163 antigen-like 1"			11124526, 11086079	Standard	XM_005253348		Approved	M160, CD163B	uc001qsy.3	Q9NR16		ENST00000313599.3:c.3111C>A	12.37:g.7527336G>T		Somatic	642	WXS	Illumina HiSeq	Phase_I	B4E0G7|C9JHR7|E7EVK4|Q2M3B7|Q6UWC2	Silent	SNP	ENST00000313599.3	37	CCDS8577.1																																																																																				0.522	CD163L1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000399329.1	NM_174941		T	7527336	G	T	7527336	2	4	690	1	0	0	0	0	0	0	0	1	2970	1190	42	4		4	CD163L1	12	7527336	Silent	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	7252329	7527336	126324559	74	44843										
SFRS2IP	9169	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	46342224	46342224	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	aaagttaatcactaaccttaTacagcttttagaattttcat	3	7	2	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr12:46342224T>C	ENST00000369367.3	-	5	627	c.394A>G	c.(394-396)Ata>Gta	p.I132V	SCAF11_ENST00000419565.2_Missense_Mutation_p.I132V	NM_004719.2	NP_004710.2	Q99590	SCAFB_HUMAN	SR-related CTD-associated factor 11	132					mRNA processing (GO:0006397)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)|spliceosomal complex assembly (GO:0000245)	nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(8)|large_intestine(17)|lung(25)|ovary(3)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	69						ACTAACCTTATACAGCTTTTA	0.308																																																0													116	104	108					12																	46342224		1804	4076	5880	SO:0001583	missense	9169			Y11251	CCDS8748.2	12q13.11	2013-01-09	2011-01-10	2011-01-10	ENSG00000139218	ENSG00000139218		"RING-type (C3HC4) zinc fingers"	10784	protein-coding gene	gene with protein product		603668	"splicing factor, arginine/serine-rich 2, interacting protein", "serine/arginine-rich splicing factor 2, interacting protein"	SFRS2IP, SRSF2IP		9224939, 9447963	Standard	NM_004719		Approved	SIP1, SRRP129, CASP11	uc001rox.3	Q99590	OTTHUMG00000149930	ENST00000369367.3:c.394A>G	12.37:g.46342224T>C	ENSP00000358374:p.Ile132Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEU9|A6NLW5|Q8IW59	Missense_Mutation	SNP	ENST00000369367.3	37	CCDS8748.2	.	.	.	.	.	.	.	.	.	.	T	0.096	-1.159474	0.01686	.	.	ENSG00000139218	ENST00000369367;ENST00000419565;ENST00000547018	T;T;T	0.40756	1.02;1.02;1.02	5.76	2.03	0.26663	.	2.058940	0.02882	U	0.132917	T	0.21103	0.0508	N	0.03608	-0.345	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.21895	-1.0232	10	0.10377	T	0.69	.	7.6398	0.28288	0.0:0.2476:0.0:0.7524	.	132	Q99590	SCAFB_HUMAN	V	132;132;72	ENSP00000358374:I132V;ENSP00000413036:I132V;ENSP00000446746:I72V	ENSP00000358374:I132V	I	-	1	0	SCAF11	44628491	0.005000	0.15991	0.024000	0.17045	0.748000	0.42578	-0.080000	0.11339	0.095000	0.17434	0.460000	0.39030	ATA		0.308	SCAF11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313992.2	NM_004719		C	46342224	T	C	46342224	3	2	690	1	0	0	0	0	1	0	0	0	14190	1406	49	3	4041	3	SFRS2IP	12	46342224	Missense_Mutation	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10	38814888	46342224	87509671	75	44844										
MTERFD3	80298	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	107371368	107371368	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tttaatggtgccacagggttAaataatggccttactttttt	8	6	0	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr12:107371368A>C	ENST00000552029.1	-	2	3193	c.1125T>G	c.(1123-1125)ttT>ttG	p.F375L	MTERFD3_ENST00000392830.2_Missense_Mutation_p.F375L|C12orf23_ENST00000551237.1_Intron|MTERFD3_ENST00000240050.4_Missense_Mutation_p.F375L			Q49AM1	MTEF2_HUMAN		375					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	mitochondrial matrix (GO:0005759)|mitochondrial nucleoid (GO:0042645)	transcription regulatory region DNA binding (GO:0044212)			breast(1)|kidney(1)|large_intestine(2)|lung(3)	7						CCACAGGGTTAAATAATGGCC	0.353																																																0													114	112	113					12																	107371368		2202	4300	6502	SO:0001583	missense	80298																														ENST00000552029.1:c.1125T>G	12.37:g.107371368A>C	ENSP00000447651:p.Phe375Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q53HM2|Q9H4L6|Q9H7Y9	Missense_Mutation	SNP	ENST00000552029.1	37	CCDS9111.1	.	.	.	.	.	.	.	.	.	.	A	21.6	4.167376	0.78339	.	.	ENSG00000120832	ENST00000392830;ENST00000240050;ENST00000552029	T;T;T	0.26373	1.74;1.74;1.74	5.95	4.81	0.61882	.	0.000000	0.85682	D	0.000000	T	0.33614	0.0869	M	0.63843	1.955	0.58432	D	0.999997	P	0.48503	0.911	P	0.49387	0.609	T	0.11867	-1.0570	10	0.87932	D	0	7.5321	8.7341	0.34516	0.859:0.0:0.141:0.0	.	375	Q49AM1	MTER3_HUMAN	L	375	ENSP00000376575:F375L;ENSP00000240050:F375L;ENSP00000447651:F375L	ENSP00000240050:F375L	F	-	3	2	MTERFD3	105895498	1.000000	0.71417	1.000000	0.80357	0.944000	0.59088	5.017000	0.64047	2.272000	0.75746	0.460000	0.39030	TTT		0.353	MTERFD3-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406835.1			C	107371368	A	C	107371368	3	2	690	1	0	0	0	0	1	0	0	0	9928	359	13	5	36	5	MTERFD3	12	107371368	Missense_Mutation	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	61029144	107371368	26480527	76	44845										
DIABLO	56616	bcgsc.ca	37	chr12	122710521	122710521	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	cgcagcggtacctgaagaatGaagttacgctgcgcgacagc	13	11	0	3	rs373013757		TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr12:122710521G>A	ENST00000443649.3	-	2	858	c.41C>T	c.(40-42)tCa>tTa	p.S14L	DIABLO_ENST00000353548.6_Missense_Mutation_p.S14L|RP11-512M8.5_ENST00000535844.1_Intron|DIABLO_ENST00000464942.2_5'UTR|DIABLO_ENST00000413918.1_Missense_Mutation_p.S14L|DIABLO_ENST00000475784.1_5'Flank|DIABLO_ENST00000267169.6_5'UTR	NM_019887.4	NP_063940.1	Q9NR28	DBLOH_HUMAN	diablo, IAP-binding mitochondrial protein	14					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|activation of cysteine-type endopeptidase activity involved in apoptotic process by cytochrome c (GO:0008635)|apoptotic process (GO:0006915)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway in response to oxidative stress (GO:0008631)|neuron apoptotic process (GO:0051402)|positive regulation of apoptotic process (GO:0043065)	CD40 receptor complex (GO:0035631)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|mitochondrial intermembrane space (GO:0005758)|mitochondrion (GO:0005739)				breast(1)|endometrium(3)|large_intestine(1)|lung(1)|ovary(1)	7	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000302)|Epithelial(86;0.00051)|BRCA - Breast invasive adenocarcinoma(302;0.223)		CCTGAAGAATGAAGTTACGCT	0.682													g|||	1	0.000199681	0.0008	0.0	5008	,	,		11936	0.0		0.0	False		,,,				2504	0.0															0									LEU/SER,LEU/SER	1,4399		0,1,2199	19	17	18		41,41	1.8	0	12		18	0,8578		0,0,4289	no	missense,missense	DIABLO	NM_138929.3,NM_019887.4	145,145	0,1,6488	AA,AG,GG		0.0,0.0227,0.0077	benign,benign	14/196,14/240	122710521	1,12977	2200	4289	6489	SO:0001583	missense	56616			AF262240	CCDS9228.1, CCDS9229.1, CCDS73541.1	12q24.31	2011-08-02	2011-03-11		ENSG00000184047	ENSG00000184047			21528	protein-coding gene	gene with protein product	"second mitochondria-derived activator of caspase"	605219				12749848, 17237824, 21722859	Standard	NM_019887		Approved	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64	uc010tab.2	Q9NR28	OTTHUMG00000157014	ENST00000443649.3:c.41C>T	12.37:g.122710521G>A	ENSP00000398495:p.Ser14Leu	Somatic		WXS	Illumina HiSeq	Phase_1	B2RDQ0|Q6W3F3|Q96LV0|Q9BT11|Q9HAV6	Missense_Mutation	SNP	ENST00000443649.3	37	CCDS9228.1	.	.	.	.	.	.	.	.	.	.	g	8.145	0.786089	0.16189	2.27E-4	0.0	ENSG00000184047	ENST00000413918;ENST00000443649;ENST00000353548	T;T;T	0.74947	-0.89;-0.89;-0.89	4.66	1.81	0.25067	.	0.737030	0.13496	N	0.383642	T	0.61578	0.2358	L	0.44542	1.39	0.09310	N	1	B;B	0.34103	0.437;0.053	B;B	0.27608	0.074;0.081	T	0.53301	-0.8458	10	0.87932	D	0	2.2226	7.2325	0.26051	0.2852:0.0:0.7148:0.0	.	14;14	Q6W3F3;Q9NR28	.;DBLOH_HUMAN	L	14	ENSP00000411638:S14L;ENSP00000398495:S14L;ENSP00000320343:S14L	ENSP00000339963:S14L	S	-	2	0	DIABLO	121276474	0.024000	0.19004	0.000000	0.03702	0.001000	0.01503	0.692000	0.25482	0.201000	0.20466	-0.342000	0.07992	TCA		0.682	DIABLO-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347102.2	NM_019887		A	122710521	G	A	122710521	3	1	690	1	0	0	0	0	1	0	0	0	4519	1294	45	2	702	2	DIABLO	12	122710521	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	15339153	122710521	11141374	77	44846										
MMP17	4326	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	132334421	132334421	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ccgtctccgacttcagcctcCcgcctggcggcatcgacgct	10	19	2	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr12:132334421C>T	ENST00000360564.1	+	9	1381	c.1279C>T	c.(1279-1281)Ccg>Tcg	p.P427S	MMP17_ENST00000535291.1_Missense_Mutation_p.P343S|MMP17_ENST00000535004.1_Intron	NM_016155.4	NP_057239.4	Q9ULZ9	MMP17_HUMAN	matrix metallopeptidase 17 (membrane-inserted)	427					positive regulation of catalytic activity (GO:0043085)	anchored component of membrane (GO:0031225)|integral component of plasma membrane (GO:0005887)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|enzyme activator activity (GO:0008047)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			endometrium(1)|large_intestine(3)|lung(1)	5	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.82e-07)|Epithelial(86;1.51e-06)|all cancers(50;2.35e-05)	Marimastat(DB00786)	CTTCAGCCTCCCGCCTGGCGG	0.587																																																0													105	109	108					12																	132334421		2203	4300	6503	SO:0001583	missense	4326			X89576	CCDS31927.1	12q24.3	2005-08-08	2005-08-08		ENSG00000198598	ENSG00000198598			7163	protein-coding gene	gene with protein product		602285	"matrix metalloproteinase 17 (membrane-inserted)"			9878265	Standard	NM_016155		Approved	MT4-MMP	uc001ujc.1	Q9ULZ9	OTTHUMG00000168050	ENST00000360564.1:c.1279C>T	12.37:g.132334421C>T	ENSP00000353767:p.Pro427Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q14850	Missense_Mutation	SNP	ENST00000360564.1	37	CCDS31927.1	.	.	.	.	.	.	.	.	.	.	C	25.4	4.629492	0.87660	.	.	ENSG00000198598	ENST00000360564;ENST00000535291;ENST00000534865;ENST00000542648	T;T;T;T	0.04603	3.59;3.59;3.59;3.59	4.48	4.48	0.54585	Hemopexin/matrixin (2);	0.064020	0.64402	D	0.000006	T	0.23492	0.0568	M	0.83483	2.645	0.80722	D	1	D	0.65815	0.995	D	0.68039	0.955	T	0.04509	-1.0946	10	0.72032	D	0.01	.	17.1756	0.86841	0.0:1.0:0.0:0.0	.	427	Q9ULZ9	MMP17_HUMAN	S	427;343;268;57	ENSP00000353767:P427S;ENSP00000441106:P343S;ENSP00000442104:P268S;ENSP00000439542:P57S	ENSP00000353767:P427S	P	+	1	0	MMP17	130900374	1.000000	0.71417	0.995000	0.50966	0.701000	0.40568	7.727000	0.84838	2.054000	0.61138	0.471000	0.43371	CCG		0.587	MMP17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397757.1	NM_016155		T	132334421	C	T	132334421	3	4	690	1	0	0	0	0	1	0	0	0	9663	623	22	2	1313	2	MMP17	12	132334421	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	9623900	132334421	1517474	78	44847										
SUCLA2	8803	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	48571053	48571053	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gggaacggagacaccagcttCttgcaataattccatactca	8	11	2	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr13:48571053C>G	ENST00000378654.3	-	2	252	c.196G>C	c.(196-198)Gaa>Caa	p.E66Q	SUCLA2_ENST00000497202.1_5'UTR|SUCLA2_ENST00000534875.1_Missense_Mutation_p.E8Q|SUCLA2_ENST00000544100.1_5'UTR|SUCLA2_ENST00000543413.1_Missense_Mutation_p.E8Q	NM_003850.2	NP_003841.1	Q9P2R7	SUCB1_HUMAN	succinate-CoA ligase, ADP-forming, beta subunit	66	ATP-grasp.				cellular metabolic process (GO:0044237)|small molecule metabolic process (GO:0044281)|succinate metabolic process (GO:0006105)|succinyl-CoA metabolic process (GO:0006104)|succinyl-CoA pathway (GO:0006781)|tricarboxylic acid cycle (GO:0006099)	extracellular vesicular exosome (GO:0070062)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|succinate-CoA ligase (ADP-forming) activity (GO:0004775)			central_nervous_system(1)|cervix(1)|endometrium(1)|large_intestine(5)|lung(3)|skin(4)	15		all_cancers(8;1.13e-24)|all_epithelial(8;1.78e-13)|all_lung(13;2.85e-06)|Breast(56;0.000141)|Lung NSC(96;0.000226)|all_hematologic(8;0.000885)|Prostate(109;0.00132)|Acute lymphoblastic leukemia(8;0.0167)|Myeloproliferative disorder(33;0.039)|Hepatocellular(98;0.0556)|Lung SC(185;0.102)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(144;2.1e-06)	Succinic acid(DB00139)	ACACCAGCTTCTTGCAATAAT	0.393																																																0													126	114	118					13																	48571053		2203	4300	6503	SO:0001583	missense	8803			AF058953	CCDS9406.1	13q12.2-q13.3	2010-04-16			ENSG00000136143	ENSG00000136143	6.2.1.5		11448	protein-coding gene	gene with protein product		603921				9765291	Standard	NM_003850		Approved		uc001vbs.3	Q9P2R7	OTTHUMG00000016889	ENST00000378654.3:c.196G>C	13.37:g.48571053C>G	ENSP00000367923:p.Glu66Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDE7|O95194|Q5T9Q4|Q5T9Q6|Q9NV21|Q9NVP7	Missense_Mutation	SNP	ENST00000378654.3	37	CCDS9406.1	.	.	.	.	.	.	.	.	.	.	c	13.38	2.219646	0.39201	.	.	ENSG00000136143	ENST00000378654;ENST00000378645;ENST00000534875;ENST00000543413	T;T;T	0.71817	-0.6;-0.6;-0.6	5.63	5.63	0.86233	ATP-grasp fold (1);ATP-grasp fold, succinyl-CoA synthetase-type (1);	0.109463	0.64402	D	0.000002	T	0.56819	0.2011	N	0.17872	0.535	0.80722	D	1	B;B	0.22276	0.067;0.031	B;B	0.29267	0.1;0.1	T	0.52719	-0.8538	10	0.27785	T	0.31	-27.7135	12.0435	0.53466	0.0:0.9215:0.0:0.0785	.	66;66	E5KS55;Q9P2R7	.;SUCB1_HUMAN	Q	66;44;8;8	ENSP00000367923:E66Q;ENSP00000438182:E8Q;ENSP00000441056:E8Q	ENSP00000367912:E44Q	E	-	1	0	SUCLA2	47469054	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	5.665000	0.68052	2.656000	0.90262	0.591000	0.81541	GAA		0.393	SUCLA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044852.1			G	48571053	C	G	48571053	3	3	690	1	0	0	0	0	1	0	0	0	15375	922	32	4	1235	4	SUCLA2	13	48571053	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10		48571053	66598825	79	44848										
STK24	8428	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	99127511	99127511	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gatgtcctcttacctttaatGtctctgtggattttcttctc	6	10	4	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr13:99127511G>T	ENST00000376547.3	-	4	613	c.468C>A	c.(466-468)gaC>gaA	p.D156E	STK24_ENST00000397517.2_Missense_Mutation_p.D144E|STK24_ENST00000539966.1_Missense_Mutation_p.D125E	NM_003576.3	NP_003567.2	Q9Y6E0	STK24_HUMAN	serine/threonine kinase 24	156	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				apoptotic process (GO:0006915)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|execution phase of apoptosis (GO:0097194)|intrinsic apoptotic signaling pathway in response to oxidative stress (GO:0008631)|negative regulation of cell migration (GO:0030336)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of axon regeneration (GO:0048679)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(7)|ovary(1)|skin(1)	17	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			TACCTTTAATGTCTCTGTGGA	0.443																																																0													108	99	102					13																	99127511		2203	4300	6503	SO:0001583	missense	8428			AF024636	CCDS9488.1, CCDS32001.1, CCDS66573.1	13q31.2-q32.3	2010-06-25	2010-06-25		ENSG00000102572	ENSG00000102572			11403	protein-coding gene	gene with protein product	"STE20-like kinase 3", "sterile 20-like kinase 3"	604984	"serine/threonine kinase 24 (Ste20, yeast homolog)"			9353338, 10644707	Standard	NM_003576		Approved	MST-3, MST3, MST3B, STK3, STE20	uc001vnn.1	Q9Y6E0	OTTHUMG00000017250	ENST00000376547.3:c.468C>A	13.37:g.99127511G>T	ENSP00000365730:p.Asp156Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O14840|Q5JV92	Missense_Mutation	SNP	ENST00000376547.3	37	CCDS9488.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	20.3|20.3	3.964958|3.964958	0.74131|0.74131	.|.	.|.	ENSG00000102572|ENSG00000102572	ENST00000397517;ENST00000376547;ENST00000539966;ENST00000376533;ENST00000543110|ENST00000444574	D;D;D|.	0.92911|.	-3.13;-3.13;-3.13|.	4.93|4.93	-3.84|-3.84	0.04256|0.04256	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);|.	0.000000|.	0.64402|.	U|.	0.000020|.	D|D	0.84361|0.84361	0.5455|0.5455	H|H	0.97340|0.97340	3.985|3.985	0.58432|0.58432	D|D	0.999999|0.999999	D;D;D|.	0.89917|.	1.0;1.0;1.0|.	D;D;D|.	0.91635|.	0.999;0.999;0.999|.	D|D	0.85372|0.85372	0.1114|0.1114	10|5	0.87932|.	D|.	0|.	.|.	11.1814|11.1814	0.48631|0.48631	0.5388:0.0:0.4612:0.0|0.5388:0.0:0.4612:0.0	.|.	125;144;156|.	B4DR80;Q5U0E6;Q9Y6E0|.	.;.;STK24_HUMAN|.	E|N	144;156;125;132;144|62	ENSP00000380651:D144E;ENSP00000365730:D156E;ENSP00000442539:D125E|.	ENSP00000365716:D132E|.	D|H	-|-	3|1	2|0	STK24|STK24	97925512|97925512	0.972000|0.972000	0.33761|0.33761	0.957000|0.957000	0.39632|0.39632	0.955000|0.955000	0.61496|0.61496	0.333000|0.333000	0.19768|0.19768	-0.885000|-0.885000	0.03971|0.03971	-0.390000|-0.390000	0.06520|0.06520	GAC|CAT		0.443	STK24-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000045549.2	NM_003576		T	99127511	G	T	99127511	3	4	690	1	0	0	0	0	1	0	0	0	15305	1368	48	4	895	4	STK24	13	99127511	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	50556458	99127511	16042367	80	44849										
CIDEB	27141	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	24775587	24775587	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ataggcctcttacccttgtaGggctccagctctgaccagac	9	14	2	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr14:24775587G>C	ENST00000336557.5	-	6	1631	c.329C>G	c.(328-330)cCt>cGt	p.P110R	CIDEB_ENST00000258807.5_Missense_Mutation_p.P110R|CIDEB_ENST00000554411.1_Missense_Mutation_p.P110R|NOP9_ENST00000267425.3_3'UTR|LTB4R2_ENST00000528054.1_5'Flank			Q9UHD4	CIDEB_HUMAN	cell death-inducing DFFA-like effector b	110	CIDE-N. {ECO:0000255|PROSITE- ProRule:PRU00447}.				apoptotic process (GO:0006915)|execution phase of apoptosis (GO:0097194)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|regulation of apoptotic process (GO:0042981)	cytosol (GO:0005829)|lipid particle (GO:0005811)	identical protein binding (GO:0042802)			NS(1)|endometrium(1)|kidney(1)|large_intestine(3)|urinary_tract(1)	7				GBM - Glioblastoma multiforme(265;0.0181)		TACCCTTGTAGGGCTCCAGCT	0.562																																																0													140	111	121					14																	24775587		2203	4300	6503	SO:0001583	missense	27141			AF190901	CCDS32056.1	14q12	2012-09-20			ENSG00000136305	ENSG00000136305			1977	protein-coding gene	gene with protein product		604441				10619428, 10837461	Standard	XM_005267540		Approved		uc001woo.3	Q9UHD4	OTTHUMG00000171555	ENST00000336557.5:c.329C>G	14.37:g.24775587G>C	ENSP00000337731:p.Pro110Arg	Somatic		WXS	Illumina HiSeq	Phase_I	D3DS73|Q546V8|Q9NNW9	Missense_Mutation	SNP	ENST00000336557.5	37	CCDS32056.1	.	.	.	.	.	.	.	.	.	.	G	14.46	2.541298	0.45280	.	.	ENSG00000136305	ENST00000554411;ENST00000336557;ENST00000258807;ENST00000541830	T;T;T	0.48522	0.81;0.81;0.81	4.43	4.43	0.53597	Caspase-activated nuclease CIDE-N (2);	0.163888	0.56097	D	0.000036	T	0.67468	0.2896	M	0.87827	2.91	0.80722	D	1	P	0.37038	0.579	P	0.53224	0.721	T	0.72371	-0.4314	10	0.72032	D	0.01	-12.5195	11.7635	0.51918	0.0:0.0:0.8233:0.1767	.	110	Q9UHD4	CIDEB_HUMAN	R	110	ENSP00000451089:P110R;ENSP00000337731:P110R;ENSP00000258807:P110R	ENSP00000258807:P110R	P	-	2	0	CIDEB	23845427	0.995000	0.38212	0.513000	0.27749	0.217000	0.24651	2.732000	0.47352	2.307000	0.77673	0.561000	0.74099	CCT		0.562	CIDEB-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414120.1			C	24775587	G	C	24775587	3	2	690	1	0	0	0	0	1	0	0	0	3428	1000	35	4	342	4	CIDEB	14	24775587	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10		24775587	82573953	81	44850										
ACTR10	55860	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	58680398	58680398	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ttggggagcactacccctagGaggaaaagctcttcacaagt	11	10	2	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr14:58680398G>C	ENST00000254286.4	+	6	580	c.500G>C	c.(499-501)gGa>gCa	p.G167A		NM_018477.2	NP_060947.1	Q9NZ32	ARP10_HUMAN	actin-related protein 10 homolog (S. cerevisiae)	167					microtubule-based movement (GO:0007018)	cytoplasm (GO:0005737)|dynactin complex (GO:0005869)				central_nervous_system(1)|endometrium(2)|large_intestine(1)|lung(6)|prostate(1)|skin(1)|urinary_tract(1)	13						CTACCCCTAGGAGGAAAAGCT	0.363																																																0													68	66	67					14																	58680398		2203	4300	6503	SO:0001583	missense	55860			AF220190	CCDS32090.1	14q23.1	2014-08-08			ENSG00000131966	ENSG00000131966			17372	protein-coding gene	gene with protein product						12857853	Standard	NM_018477		Approved	HARP11, ACTR11, Arp11	uc001xdf.3	Q9NZ32	OTTHUMG00000171049	ENST00000254286.4:c.500G>C	14.37:g.58680398G>C	ENSP00000254286:p.Gly167Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H9Y5|Q9NWY2	Missense_Mutation	SNP	ENST00000254286.4	37	CCDS32090.1	.	.	.	.	.	.	.	.	.	.	G	16.72	3.201439	0.58234	.	.	ENSG00000131966	ENST00000543474;ENST00000254286	D	0.94497	-3.44	5.8	5.8	0.92144	.	0.101891	0.64402	D	0.000002	D	0.88066	0.6337	N	0.13003	0.285	0.80722	D	1	B	0.27166	0.17	B	0.30716	0.119	D	0.83755	0.0211	10	0.02654	T	1	-16.7897	17.2104	0.86929	0.0:0.0:1.0:0.0	.	167	Q9NZ32	ARP10_HUMAN	A	167	ENSP00000254286:G167A	ENSP00000254286:G167A	G	+	2	0	ACTR10	57750151	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.523000	0.81856	2.748000	0.94277	0.655000	0.94253	GGA		0.363	ACTR10-002	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411405.1			C	58680398	G	C	58680398	3	2	690	1	0	0	0	0	1	0	0	0	208	1174	41	4	522	4	ACTR10	14	58680398	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	33904811	58680398	48669142	82	44851										
SPTLC2	9517	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	78036838	78036838	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	agctcctctagttcttcatgCttgtccaggtttcctgtgtg	9	11	3	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr14:78036838C>A	ENST00000216484.2	-	5	838	c.645G>T	c.(643-645)aaG>aaT	p.K215N		NM_004863.3	NP_004854.1	O15270	SPTC2_HUMAN	serine palmitoyltransferase, long chain base subunit 2	215					ceramide biosynthetic process (GO:0046513)|small molecule metabolic process (GO:0044281)|sphinganine biosynthetic process (GO:0046511)|sphingolipid biosynthetic process (GO:0030148)|sphingolipid metabolic process (GO:0006665)|sphingomyelin biosynthetic process (GO:0006686)|sphingosine biosynthetic process (GO:0046512)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)|serine C-palmitoyltransferase complex (GO:0017059)	pyridoxal phosphate binding (GO:0030170)|serine C-palmitoyltransferase activity (GO:0004758)			kidney(1)|large_intestine(5)|lung(5)|ovary(1)|skin(2)|upper_aerodigestive_tract(5)	19			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0346)	L-Serine(DB00133)	GTTCTTCATGCTTGTCCAGGT	0.368																																																0													128	115	119					14																	78036838		2203	4300	6503	SO:0001583	missense	9517			AB011098	CCDS9865.1	14q24.3	2014-09-17			ENSG00000100596	ENSG00000100596	2.3.1.50		11278	protein-coding gene	gene with protein product		605713				8921873, 9363775	Standard	NM_004863		Approved	KIAA0526, LCB2, LCB2A, hLCB2a	uc001xub.3	O15270		ENST00000216484.2:c.645G>T	14.37:g.78036838C>A	ENSP00000216484:p.Lys215Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q16685	Missense_Mutation	SNP	ENST00000216484.2	37	CCDS9865.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	12.04|12.04	1.817411|1.817411	0.32145|0.32145	.|.	.|.	ENSG00000100596|ENSG00000100596	ENST00000554901|ENST00000216484	.|D	.|0.90444	.|-2.67	5.49|5.49	1.55|1.55	0.23275|0.23275	.|Aminotransferase, class I/classII (1);Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (1);Pyridoxal phosphate-dependent transferase, major domain (1);	.|0.169622	.|0.56097	.|D	.|0.000039	D|D	0.82559|0.82559	0.5063|0.5063	L|L	0.27053|0.27053	0.805|0.805	0.54753|0.54753	D|D	0.999983|0.999983	.|B	.|0.17038	.|0.02	.|B	.|0.20577	.|0.03	T|T	0.71119|0.71119	-0.4685|-0.4685	5|10	.|0.34782	.|T	.|0.22	-25.2504|-25.2504	10.0683|10.0683	0.42317|0.42317	0.0:0.4966:0.0:0.5034|0.0:0.4966:0.0:0.5034	.|.	.|215	.|O15270	.|SPTC2_HUMAN	S|N	152|215	.|ENSP00000216484:K215N	.|ENSP00000216484:K215N	A|K	-|-	1|3	0|2	SPTLC2|SPTLC2	77106591|77106591	0.942000|0.942000	0.31987|0.31987	0.999000|0.999000	0.59377|0.59377	0.996000|0.996000	0.88848|0.88848	0.022000|0.022000	0.13511|0.13511	0.071000|0.071000	0.16664|0.16664	-0.137000|-0.137000	0.14449|0.14449	GCA|AAG		0.368	SPTLC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414030.1	NM_004863		A	78036838	C	A	78036838	3	1	690	1	0	0	0	0	1	0	0	0	15136	796	28	4	1075	4	SPTLC2	14	78036838	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	19356440	78036838	29312702	83	44852										
C14orf159	80017	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	91681816	91681816	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ctgtactcatgtgctgtccaCagtcagtacctgaggaaagc	10	11	2	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr14:91681816C>T	ENST00000523771.1	+	13	2220	c.1617C>T	c.(1615-1617)caC>caT	p.H539H	C14orf159_ENST00000522322.1_Silent_p.H539H|C14orf159_ENST00000520328.1_Silent_p.H487H|C14orf159_ENST00000521077.2_Silent_p.H504H|C14orf159_ENST00000428926.2_Silent_p.H539H|C14orf159_ENST00000256324.10_Silent_p.H544H|C14orf159_ENST00000523816.1_Silent_p.H539H|C14orf159_ENST00000412671.2_Silent_p.H544H|C14orf159_ENST00000518868.1_Silent_p.H544H|C14orf159_ENST00000525393.2_Silent_p.H415H			Q7Z3D6	CN159_HUMAN	chromosome 14 open reading frame 159	539						mitochondrion (GO:0005739)				NS(1)|central_nervous_system(2)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(5)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	21		all_cancers(154;0.0191)|all_epithelial(191;0.241)		Epithelial(152;0.141)|OV - Ovarian serous cystadenocarcinoma(161;0.207)		GTGCTGTCCACAGTCAGTACC	0.552																																																0													117	103	108					14																	91681816		2203	4300	6503	SO:0001819	synonymous_variant	80017			AK097294	CCDS32141.1, CCDS41979.1, CCDS45150.1, CCDS66693.1, CCDS73677.1	14q32.11	2012-09-26			ENSG00000133943	ENSG00000133943			20498	protein-coding gene	gene with protein product							Standard	NM_001102367		Approved	FLJ39975	uc001xze.2	Q7Z3D6	OTTHUMG00000164980	ENST00000523771.1:c.1617C>T	14.37:g.91681816C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KUI7|Q86SW3|Q86SX8|Q86SX9|Q86T08|Q86TV5|Q96GW5|Q9H7G0|Q9H8Y9|Q9H9W6	Silent	SNP	ENST00000523771.1	37	CCDS32141.1	.	.	.	.	.	.	.	.	.	.	C	3.836	-0.034789	0.07543	.	.	ENSG00000133943	ENST00000522816	.	.	.	5.34	-3.48	0.04739	.	.	.	.	.	T	0.28466	0.0704	.	.	.	0.09310	N	0.999996	.	.	.	.	.	.	T	0.34900	-0.9810	4	.	.	.	.	7.4016	0.26967	0.0:0.1871:0.1388:0.6741	.	.	.	.	I	140	.	.	T	+	2	0	C14orf159	90751569	0.000000	0.05858	0.001000	0.08648	0.003000	0.03518	-0.541000	0.06099	-0.508000	0.06540	-0.175000	0.13238	ACA		0.552	C14orf159-014	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381273.1	NM_024952		T	91681816	C	T	91681816	2	4	690	1	0	0	0	0	0	0	0	1	1757	477	17	2		2	C14orf159	14	91681816	Silent	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	13644978	91681816	15667724	84	44853										
MARK3	4140	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	103969341	103969341	+	Frame_Shift_Del	DEL	G	G	-													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ggacatgatgcgggaaatccGcaaagtgttggacgccaata							TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr14:103969341delG	ENST00000429436.2	+	18	2549	c.2039delG	c.(2038-2040)cgcfs	p.R680fs	MARK3_ENST00000561071.1_3'UTR|MARK3_ENST00000416682.2_Frame_Shift_Del_p.R679fs|MARK3_ENST00000440884.3_Frame_Shift_Del_p.R586fs|MARK3_ENST00000553942.1_Frame_Shift_Del_p.R671fs|MARK3_ENST00000303622.9_Frame_Shift_Del_p.R656fs|MARK3_ENST00000335102.5_Frame_Shift_Del_p.R703fs|MARK3_ENST00000216288.7_Frame_Shift_Del_p.R640fs	NM_001128918.1|NM_001128919.1	NP_001122390.1|NP_001122391.1	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	680						plasma membrane (GO:0005886)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)	p.I639_K641del(2)		autonomic_ganglia(1)|breast(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(6)|lung(10)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	30		Melanoma(154;0.155)	Epithelial(46;0.241)			CGGGAAATCCGCAAAGTGTTG	0.532																																																2	Deletion - In frame(2)	central_nervous_system(2)											69	71	71					14																	103969341		2055	4220	6275	SO:0001589	frameshift_variant	4140			M80359	CCDS41993.1, CCDS45165.1, CCDS45166.1, CCDS45167.1, CCDS55947.1	14q32.32	2014-04-07			ENSG00000075413	ENSG00000075413			6897	protein-coding gene	gene with protein product		602678				9533022	Standard	NM_002376		Approved	CTAK1, KP78, PAR-1A	uc001ymz.4	P27448	OTTHUMG00000171789	ENST00000429436.2:c.2039delG	14.37:g.103969341delG	ENSP00000411397:p.Arg680fs	Somatic		WXS	Illumina HiSeq	Phase_I	O60219|Q86TT8|Q8TB41|Q8WX83|Q96RG1|Q9UMY9|Q9UN34	Frame_Shift_Del	DEL	ENST00000429436.2	37	CCDS45165.1																																																																																				0.532	MARK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415144.1	NM_001128918		-	103969341	G	-	103969341	7	5	690	1	0	1	0	1	0	0	0	0	9321	1087	38	0	2109	0	MARK3	14	103969341	Frame_Shift_Del	DEL	G	TCGA-MH-A55W-01A-11D-A26P-10	12287525	103969341	3380199	85	44854										
AHNAK2	113146	broad.mit.edu	37	chr14	105406110	105406110	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ttgactttagctgctgcttcAccccctgttgctgccggtgc	10	14	1	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr14:105406110A>C	ENST00000333244.5	-	7	15797	c.15678T>G	c.(15676-15678)ggT>ggG	p.G5226G	AHNAK2_ENST00000557457.1_Silent_p.G224G	NM_138420.2	NP_612429.2	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5226						costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|Z disc (GO:0030018)				cervix(4)|endometrium(4)|large_intestine(3)|lung(14)|ovary(2)|prostate(2)|skin(1)|stomach(3)	33		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)			CTGCTGCTTCACCCCCTGTTG	0.572																																																0													250	268	262					14																	105406110		2031	4186	6217	SO:0001819	synonymous_variant	113146			AB095939	CCDS45177.1	14q32.33	2010-04-01	2007-03-26	2007-03-26	ENSG00000185567	ENSG00000185567			20125	protein-coding gene	gene with protein product		608570	"chromosome 14 open reading frame 78"	C14orf78		15007166	Standard	NM_138420		Approved		uc010axc.1	Q8IVF2		ENST00000333244.5:c.15678T>G	14.37:g.105406110A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5BKX7|Q7Z343|Q7Z358|Q7Z394|Q7Z3G0|Q86WQ6|Q8IYY1|Q8N3G4|Q96EX9	Silent	SNP	ENST00000333244.5	37	CCDS45177.1																																																																																				0.572	AHNAK2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410300.1	NM_138420		C	105406110	A	C	105406110	2	2	690	1	0	0	0	0	0	0	0	1	415	146	6	5		5	AHNAK2	14	105406110	Silent	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	1436769	105406110	1943430	86	44855										
MGA	23269	bcgsc.ca	37	chr15	42057124	42057124	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	actccacacacctctgccaaCcttgtgatgactccgcaagg	7	16	1	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr15:42057124C>T	ENST00000570161.1	+	22	7785	c.7785C>T	c.(7783-7785)aaC>aaT	p.N2595N	MGA_ENST00000389936.4_Silent_p.N2556N|MGA_ENST00000545763.1_Silent_p.N2386N|MGA_ENST00000219905.7_Silent_p.N2595N|MGA_ENST00000566586.1_Silent_p.N2386N			O43451	MGA_HUMAN	MGA, MAX dimerization protein	0					carbohydrate metabolic process (GO:0005975)|polysaccharide digestion (GO:0044245)|small molecule metabolic process (GO:0044281)|starch catabolic process (GO:0005983)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	alpha-1,4-glucosidase activity (GO:0004558)|amylase activity (GO:0016160)|carbohydrate binding (GO:0030246)|catalytic activity (GO:0003824)|glucan 1,4-alpha-glucosidase activity (GO:0004339)|maltose alpha-glucosidase activity (GO:0032450)			NS(1)|breast(4)|central_nervous_system(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(18)|lung(33)|ovary(8)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	95		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)	Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	CCTCTGCCAACCTTGTGATGA	0.453																																																0													108	110	110					15																	42057124		2018	4179	6197	SO:0001819	synonymous_variant	23269			AB011090	CCDS55959.1, CCDS55960.1	15q15	2012-11-15	2012-11-15		ENSG00000174197	ENSG00000174197		"MAX dimerization proteins", "T-boxes"	14010	protein-coding gene	gene with protein product			"MAX gene associated"				Standard	NM_001080541		Approved	KIAA0518, MAD5, MXD5, FLJ12634	uc010ucy.2	Q8IWI9		ENST00000570161.1:c.7785C>T	15.37:g.42057124C>T		Somatic		WXS	Illumina HiSeq	Phase_1	Q0VAX6|Q75ME7|Q86UM5	Silent	SNP	ENST00000570161.1	37	CCDS55959.1																																																																																				0.453	MGA-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000420229.1	NM_001164273.1		T	42057124	C	T	42057124	2	4	690	1	0	0	0	0	0	0	0	1	9547	506	18	2		2	MGA	15	42057124	Silent	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10		42057124	60474268	87	44856										
ELL3	80237	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	44066413	44066413	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gttcctcgccgaactcttttAatctctgctcccagctctat	5	15	3	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr15:44066413A>C	ENST00000319359.3	-	9	1646	c.1005T>G	c.(1003-1005)atT>atG	p.I335M	RP11-296A16.1_ENST00000417761.2_3'UTR|ELL3_ENST00000497465.1_5'UTR|SERF2_ENST00000381359.1_5'Flank	NM_025165.2	NP_079441.1	Q9HB65	ELL3_HUMAN	elongation factor RNA polymerase II-like 3	335					DNA-templated transcription, elongation (GO:0006354)|negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:1902166)|positive regulation of DNA-templated transcription, elongation (GO:0032786)|positive regulation of neural precursor cell proliferation (GO:2000179)|positive regulation of neurogenesis (GO:0050769)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of epithelial to mesenchymal transition (GO:0010717)|snRNA transcription from RNA polymerase II promoter (GO:0042795)|spermatogenesis (GO:0007283)|stem cell differentiation (GO:0048863)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)	nucleolus (GO:0005730)|nucleus (GO:0005634)|transcription elongation factor complex (GO:0008023)	enhancer binding (GO:0035326)			cervix(1)|kidney(1)|large_intestine(5)|lung(4)|ovary(1)|skin(1)	13		all_cancers(109;7.57e-15)|all_epithelial(112;3.51e-12)|Lung NSC(122;4.72e-08)|all_lung(180;4.9e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;7.81e-07)		GAACTCTTTTAATCTCTGCTC	0.512																																																0													97	91	93					15																	44066413		2198	4298	6496	SO:0001583	missense	80237			AF276512	CCDS10102.1	15q15.1	2008-02-05			ENSG00000128886	ENSG00000128886			23113	protein-coding gene	gene with protein product		609885				10882741	Standard	NM_025165		Approved	FLJ22637	uc001zsw.1	Q9HB65	OTTHUMG00000059936	ENST00000319359.3:c.1005T>G	15.37:g.44066413A>C	ENSP00000320346:p.Ile335Met	Somatic		WXS	Illumina HiSeq	Phase_I	B3KQ66|B3KX08|Q6I9Z7|Q9H634	Missense_Mutation	SNP	ENST00000319359.3	37	CCDS10102.1	.	.	.	.	.	.	.	.	.	.	A	9.435	1.086448	0.20390	.	.	ENSG00000128886	ENST00000319359	T	0.21543	2.0	5.92	0.357	0.16079	Occludin/RNA polymerase II elongation factor, ELL domain (1);	0.091491	0.48286	D	0.000192	T	0.08088	0.0202	N	0.04132	-0.27	0.43994	D	0.996697	B;B;P	0.35050	0.334;0.334;0.482	B;B;B	0.35655	0.15;0.15;0.207	T	0.26326	-1.0106	10	0.34782	T	0.22	-19.7297	6.1561	0.20338	0.2417:0.3845:0.3738:0.0	.	335;335;289	B3KX08;Q9HB65;B3KQ66	.;ELL3_HUMAN;.	M	335	ENSP00000320346:I335M	ENSP00000320346:I335M	I	-	3	3	ELL3	41853705	0.993000	0.37304	1.000000	0.80357	0.829000	0.46940	0.127000	0.15790	0.374000	0.24650	-0.479000	0.04858	ATT		0.512	ELL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000133236.2	NM_025165		C	44066413	A	C	44066413	3	2	690	1	0	0	0	0	1	0	0	0	5066	358	13	5	200	5	ELL3	15	44066413	Missense_Mutation	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	2009289	44066413	58464979	88	44857										
FAM63B	54629	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	59139573	59139573	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tgggaaagcctacacaacgtAgatggtgatggaaatttctg	12	6	1	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr15:59139573A>T	ENST00000559228.1	+	7	1528	c.1446A>T	c.(1444-1446)gtA>gtT	p.V482V	FAM63B_ENST00000450403.2_Silent_p.V482V			Q8NBR6	FA63B_HUMAN	family with sequence similarity 63, member B	482										central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(1)|liver(2)|lung(4)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	15						TACACAACGTAGATGGTGATG	0.388																																																0													143	132	135					15																	59139573		1828	4082	5910	SO:0001819	synonymous_variant	54629			AK075319	CCDS42046.1, CCDS45268.1	15q21.3	2005-08-09							26954	protein-coding gene	gene with protein product						10574461	Standard	NM_001040450		Approved	KIAA1164	uc002afj.3	Q8NBR6		ENST00000559228.1:c.1446A>T	15.37:g.59139573A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RTT8|Q9ULQ6	Silent	SNP	ENST00000559228.1	37	CCDS42046.1																																																																																				0.388	FAM63B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000416230.1	NM_019092		T	59139573	A	T	59139573	2	4	690	1	0	0	0	0	0	0	0	1	5604	407	15	5		5	FAM63B	15	59139573	Silent	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	15073160	59139573	43391819	89	44858										
DAPK2	23604	broad.mit.edu;ucsc.edu	37	chr15	64200745	64200745	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ggtgctgctcctcctccgtgGgtggagggctttcctcctgg	15	13	0	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr15:64200745G>A	ENST00000457488.1	-	12	1117	c.1087C>T	c.(1087-1089)Cca>Tca	p.P363S	DAPK2_ENST00000261891.3_Missense_Mutation_p.P363S	NM_014326.3	NP_055141.2	Q9UIK4	DAPK2_HUMAN	death-associated protein kinase 2	363					anoikis (GO:0043276)|apoptotic process (GO:0006915)|intracellular signal transduction (GO:0035556)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of apoptotic process (GO:0042981)|regulation of autophagy (GO:0010506)|regulation of intrinsic apoptotic signaling pathway (GO:2001242)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)	ATP binding (GO:0005524)|calmodulin binding (GO:0005516)|calmodulin-dependent protein kinase activity (GO:0004683)|identical protein binding (GO:0042802)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(2)|skin(1)|stomach(1)	11				LUAD - Lung adenocarcinoma(2;0.215)		CTCCTCCGTGGGTGGAGGGCT	0.602																																																0													54	39	44					15																	64200745		2202	4299	6501	SO:0001583	missense	23604			AB018001	CCDS10188.1	15q22.1	2008-07-18			ENSG00000035664	ENSG00000035664			2675	protein-coding gene	gene with protein product						10376525	Standard	XM_005254265		Approved	DRP-1, MGC119312	uc002amr.3	Q9UIK4	OTTHUMG00000132947	ENST00000457488.1:c.1087C>T	15.37:g.64200745G>A	ENSP00000408277:p.Pro363Ser	Somatic		WXS	Illumina HiSeq	Phase_I	E9JGM7|O75892|Q24JS1	Missense_Mutation	SNP	ENST00000457488.1	37	CCDS10188.1	.	.	.	.	.	.	.	.	.	.	G	11.94	1.788395	0.31685	.	.	ENSG00000035664	ENST00000261891;ENST00000457488	T;T	0.66638	-0.22;-0.22	5.26	4.34	0.51931	.	0.242826	0.26048	N	0.026647	T	0.52306	0.1726	L	0.36672	1.1	0.38280	D	0.942401	B	0.19331	0.035	B	0.15052	0.012	T	0.48387	-0.9040	10	0.13853	T	0.58	.	11.0466	0.47863	0.087:0.0:0.913:0.0	.	363	Q9UIK4	DAPK2_HUMAN	S	363	ENSP00000261891:P363S;ENSP00000408277:P363S	ENSP00000261891:P363S	P	-	1	0	DAPK2	61987798	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	1.491000	0.35583	1.217000	0.43442	0.655000	0.94253	CCA		0.602	DAPK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256479.1	NM_014326		A	64200745	G	A	64200745	3	1	690	1	0	0	0	0	1	0	0	0	4238	1232	43	2	29	2	DAPK2	15	64200745	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	5061172	64200745	38330647	90	44859										
ACAN	176	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	89400337	89400337	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tctggaatagaggatgtcagTgaacttccttcaggagaagg	13	6	3	3			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr15:89400337T>A	ENST00000561243.1	+	11	4521	c.4521T>A	c.(4519-4521)agT>agA	p.S1507R	ACAN_ENST00000352105.7_Missense_Mutation_p.S1507R|ACAN_ENST00000439576.2_Missense_Mutation_p.S1507R|ACAN_ENST00000559004.1_Missense_Mutation_p.S1507R			P16112	PGCA_HUMAN	aggrecan	1508	CS-2.				carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate catabolic process (GO:0042340)|keratan sulfate metabolic process (GO:0042339)|proteolysis (GO:0006508)|skeletal system development (GO:0001501)|small molecule metabolic process (GO:0044281)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|lysosomal lumen (GO:0043202)|proteinaceous extracellular matrix (GO:0005578)	carbohydrate binding (GO:0030246)|extracellular matrix structural constituent (GO:0005201)|hyaluronic acid binding (GO:0005540)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(4)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(15)|liver(2)|lung(40)|ovary(2)|prostate(5)|skin(5)|stomach(8)|upper_aerodigestive_tract(1)|urinary_tract(2)	93	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			AGGATGTCAGTGAACTTCCTT	0.493																																																0													69	70	70					15																	89400337		1870	4099	5969	SO:0001583	missense	176			M55172	CCDS53970.1, CCDS53971.1	15q26.1	2013-05-07	2007-02-16	2007-02-16	ENSG00000157766	ENSG00000157766		"Immunoglobulin superfamily / V-set domain containing", "Proteoglycans / Extracellular Matrix : Hyalectans"	319	protein-coding gene	gene with protein product	"aggrecan proteoglycan"	155760	"chondroitin sulfate proteoglycan 1", "aggrecan 1"	MSK16, CSPG1, AGC1		1985970	Standard	NM_013227		Approved	CSPGCP	uc010upo.1	P16112	OTTHUMG00000171989	ENST00000561243.1:c.4521T>A	15.37:g.89400337T>A	ENSP00000453342:p.Ser1507Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q13650|Q9UCD3|Q9UCP4|Q9UCP5|Q9UDE0	Missense_Mutation	SNP	ENST00000561243.1	37	CCDS53970.1	.	.	.	.	.	.	.	.	.	.	T	14.33	2.503317	0.44558	.	.	ENSG00000157766	ENST00000439576;ENST00000352105;ENST00000268134	D;D	0.97016	-4.21;-4.21	3.27	0.774	0.18521	.	.	.	.	.	D	0.97309	0.9120	M	0.79926	2.475	0.09310	N	1	D;D	0.76494	0.999;0.998	D;D	0.72982	0.979;0.953	D	0.91248	0.5027	9	0.56958	D	0.05	.	6.8295	0.23902	0.0:0.3522:0.0:0.6478	.	1507;1507	E7ENV9;E7EX88	.;.	R	1507;1507;1393	ENSP00000387356:S1507R;ENSP00000341615:S1507R	ENSP00000268134:S1393R	S	+	3	2	ACAN	87201341	0.000000	0.05858	0.002000	0.10522	0.944000	0.59088	-0.304000	0.08199	0.050000	0.15949	0.260000	0.18958	AGT		0.493	ACAN-006	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416267.2	NM_001135		A	89400337	T	A	89400337	3	1	690	1	0	0	0	0	1	0	0	0	117	1693	59	5	4563	5	ACAN	15	89400337	Missense_Mutation	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10	25199592	89400337	13131055	91	44860										
RBBP6	5930	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	24581079	24581079	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tgataaaaccaaacggaagaAtgatggatctgctgtgtcca	10	7	1	3			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr16:24581079A>T	ENST00000319715.4	+	17	3500	c.3068A>T	c.(3067-3069)aAt>aTt	p.N1023I	RBBP6_ENST00000348022.2_Missense_Mutation_p.N989I|RBBP6_ENST00000381039.3_Intron	NM_006910.4	NP_008841.2	Q7Z6E9	RBBP6_HUMAN	retinoblastoma binding protein 6	1023	Interaction with RB1. {ECO:0000250}.				embryonic organ development (GO:0048568)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|somite development (GO:0061053)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)	ligase activity (GO:0016874)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(10)|lung(17)|ovary(4)|pancreas(1)|prostate(2)|urinary_tract(1)	46				GBM - Glioblastoma multiforme(48;0.0518)		AAACGGAAGAATGATGGATCT	0.383																																																0													89	93	92					16																	24581079		2197	4300	6497	SO:0001583	missense	5930				CCDS10621.1, CCDS10622.1, CCDS45444.1	16p12.2	2008-08-04	2001-11-28		ENSG00000122257	ENSG00000122257			9889	protein-coding gene	gene with protein product	"proliferation potential-related protein"	600938	"retinoblastoma-binding protein 6"			8595913, 16396680	Standard	NM_006910		Approved	P2P-R, PACT, SNAMA	uc002dmh.3	Q7Z6E9	OTTHUMG00000096991	ENST00000319715.4:c.3068A>T	16.37:g.24581079A>T	ENSP00000317872:p.Asn1023Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q147T5|Q15290|Q6DKH4|Q6P4C2|Q6YNC9|Q7Z6E8|Q8N0V2|Q96PH3|Q9H3I8|Q9H5M5|Q9NPX4	Missense_Mutation	SNP	ENST00000319715.4	37	CCDS10621.1	.	.	.	.	.	.	.	.	.	.	A	14.65	2.597918	0.46318	.	.	ENSG00000122257	ENST00000319715;ENST00000348022	T;T	0.14516	2.5;2.5	5.66	1.57	0.23409	.	0.405156	0.23413	N	0.048451	T	0.06280	0.0162	N	0.19112	0.55	0.23724	N	0.997013	B;B	0.22983	0.078;0.047	B;B	0.21151	0.033;0.014	T	0.31971	-0.9924	10	0.28530	T	0.3	-9.0723	1.0512	0.01580	0.2899:0.3403:0.1901:0.1797	.	989;1023	Q7Z6E9-2;Q7Z6E9	.;RBBP6_HUMAN	I	1023;989	ENSP00000317872:N1023I;ENSP00000316291:N989I	ENSP00000317872:N1023I	N	+	2	0	RBBP6	24488580	0.343000	0.24818	0.990000	0.47175	0.994000	0.84299	0.309000	0.19332	-0.006000	0.14370	0.533000	0.62120	AAT		0.383	RBBP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214067.2	NM_006910		T	24581079	A	T	24581079	3	4	690	1	0	0	0	0	1	0	0	0	13116	101	4	5	3188	5	RBBP6	16	24581079	Missense_Mutation	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10		24581079	65773674	92	44861										
CHST6	4166	bcgsc.ca	37	chr16	75513372	75513372	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	cacggcccactggaagaggtCggacaggttgcggcgccaag	16	12	0	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr16:75513372C>T	ENST00000332272.4	-	3	534	c.355G>A	c.(355-357)Gac>Aac	p.D119N	CHST6_ENST00000390664.2_Missense_Mutation_p.D119N|RP11-77K12.4_ENST00000530512.3_RNA	NM_021615.4	NP_067628.1	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O) sulfotransferase 6	119					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate metabolic process (GO:0042339)|N-acetylglucosamine metabolic process (GO:0006044)|small molecule metabolic process (GO:0044281)|sulfur compound metabolic process (GO:0006790)	Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)	N-acetylglucosamine 6-O-sulfotransferase activity (GO:0001517)			central_nervous_system(1)|cervix(1)|endometrium(1)|large_intestine(1)|lung(7)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	17						TGGAAGAGGTCGGACAGGTTG	0.657																																																0													48	43	45					16																	75513372		2198	4298	6496	SO:0001583	missense	4166			AF280086	CCDS10918.1	16q22	2008-02-05			ENSG00000183196	ENSG00000183196		"Sulfotransferases, membrane-bound"	6938	protein-coding gene	gene with protein product		605294		MCDC1		8644739, 11017086	Standard	NM_021615		Approved		uc002fef.3	Q9GZX3	OTTHUMG00000137612	ENST00000332272.4:c.355G>A	16.37:g.75513372C>T	ENSP00000328983:p.Asp119Asn	Somatic		WXS	Illumina HiSeq	Phase_1	D3DUK3	Missense_Mutation	SNP	ENST00000332272.4	37	CCDS10918.1	.	.	.	.	.	.	.	.	.	.	C	10.50	1.368045	0.24771	.	.	ENSG00000183196	ENST00000332272;ENST00000390664	D;D	0.96491	-4.03;-4.03	4.56	4.56	0.56223	Sulfotransferase domain (1);	0.298026	0.35378	N	0.003256	D	0.91835	0.7416	N	0.25380	0.74	0.35691	D	0.814828	B	0.15719	0.014	B	0.16289	0.015	D	0.90235	0.4282	10	0.15499	T	0.54	.	14.8296	0.70137	0.0:1.0:0.0:0.0	.	119	Q9GZX3	CHST6_HUMAN	N	119	ENSP00000328983:D119N;ENSP00000375079:D119N	ENSP00000328983:D119N	D	-	1	0	CHST6	74070873	0.877000	0.30153	0.985000	0.45067	0.943000	0.58893	1.700000	0.37815	2.078000	0.62432	0.591000	0.81541	GAC		0.657	CHST6-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000435478.1	NM_021615		T	75513372	C	T	75513372	3	4	690	1	0	0	0	0	1	0	0	0	3410	884	31	1	836	1	CHST6	16	75513372	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	50932293	75513372	14841381	93	44862										
ARHGEF15	22899	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	8215790	8215790	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tggctcagaatggctctgccTcagctcctggcactgtgcgg	13	13	3	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr17:8215790T>G	ENST00000361926.3	+	2	543	c.433T>G	c.(433-435)Tca>Gca	p.S145A	ARHGEF15_ENST00000421050.1_Missense_Mutation_p.S145A	NM_173728.3	NP_776089.2	O94989	ARHGF_HUMAN	Rho guanine nucleotide exchange factor (GEF) 15	145					negative regulation of synapse maturation (GO:2000297)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of stress fiber assembly (GO:0051496)|regulation of catalytic activity (GO:0050790)|retina vasculature morphogenesis in camera-type eye (GO:0061299)	cytoplasm (GO:0005737)|dendrite (GO:0030425)	GTPase activator activity (GO:0005096)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(1)|endometrium(9)|large_intestine(5)|lung(11)|ovary(5)|prostate(3)|skin(2)|urinary_tract(1)	37						TGGCTCTGCCTCAGCTCCTGG	0.672																																																0													54	54	54					17																	8215790		2203	4300	6503	SO:0001583	missense	22899			AB020722	CCDS11139.1	17p13.1	2011-11-16			ENSG00000198844	ENSG00000198844		"Rho guanine nucleotide exchange factors"	15590	protein-coding gene	gene with protein product	"Rho guanine exchange factor (GEF) 15"	608504				10048485	Standard	NM_173728		Approved	KIAA0915, Vsm-RhoGEF, ARGEF15, FLJ13791, MGC44868	uc002glc.3	O94989	OTTHUMG00000108187	ENST00000361926.3:c.433T>G	17.37:g.8215790T>G	ENSP00000355026:p.Ser145Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6G1|Q8N449|Q9H8B4	Missense_Mutation	SNP	ENST00000361926.3	37	CCDS11139.1	.	.	.	.	.	.	.	.	.	.	T	11.22	1.574696	0.28092	.	.	ENSG00000198844	ENST00000361926;ENST00000455564;ENST00000421050	T;T	0.74632	-0.86;-0.86	5.12	4.03	0.46877	.	1.787260	0.03046	N	0.153884	T	0.79569	0.4468	L	0.29908	0.895	0.24301	N	0.99513	D;D;P	0.58268	0.982;0.982;0.884	D;D;B	0.67548	0.952;0.952;0.262	T	0.62053	-0.6935	10	0.45353	T	0.12	-10.5299	7.7269	0.28765	0.0:0.0947:0.0:0.9053	.	145;145;46	D3DTR7;O94989;B4DTR5	.;ARHGF_HUMAN;.	A	145;46;145	ENSP00000355026:S145A;ENSP00000412505:S145A	ENSP00000355026:S145A	S	+	1	0	ARHGEF15	8156515	0.954000	0.32549	0.913000	0.36048	0.921000	0.55340	1.645000	0.37238	0.969000	0.38237	0.454000	0.30748	TCA		0.672	ARHGEF15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000226993.2	NM_173728		G	8215790	T	G	8215790	3	3	690	1	0	0	0	0	1	0	0	0	898	1551	54	5	435	5	ARHGEF15	17	8215790	Missense_Mutation	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10		8215790	72979420	94	44863										
FAM18B2	201158	ucsc.edu	37	chr17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tgagcaactcacagagaagaCagacgatgattgcactgact	10	9	1	6			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr17:15457087C>T	ENST00000225576.3	-	3	247	c.152G>A	c.(151-153)tGt>tAt	p.C51Y	TVP23C_ENST00000584811.1_5'UTR|TVP23C-CDRT4_ENST00000522212.2_Missense_Mutation_p.C51Y|TVP23C_ENST00000438826.3_Missense_Mutation_p.C51Y|TVP23C_ENST00000518321.1_Missense_Mutation_p.C51Y|TVP23C_ENST00000519970.1_Intron|TVP23C_ENST00000428082.2_Missense_Mutation_p.C51Y	NM_145301.2	NP_660344.2	Q96ET8	TV23C_HUMAN	trans-golgi network vesicle protein 23 homolog C (S. cerevisiae)	51						integral component of membrane (GO:0016021)											ACAGAGAAGACAGACGATGAT	0.373																																																0													274	265	268					17																	15457087		2203	4300	6503	SO:0001583	missense	201158			BC011952	CCDS11170.1, CCDS45617.1	17p12	2012-11-29	2012-11-29	2012-11-29	ENSG00000175106	ENSG00000175106			30453	protein-coding gene	gene with protein product			"family with sequence similarity 18, member B2"	FAM18B2			Standard	NM_001135036		Approved	MGC8763	uc002goq.2	Q96ET8	OTTHUMG00000171461	ENST00000225576.3:c.152G>A	17.37:g.15457087C>T	ENSP00000225576:p.Cys51Tyr	Somatic		WXS	Illumina HiSeq		Q3LIC7	Missense_Mutation	SNP	ENST00000225576.3	37	CCDS11170.1	.	.	.	.	.	.	.	.	.	.	.	2.368	-0.344949	0.05208	.	.	ENSG00000259024;ENSG00000175106;ENSG00000175106;ENSG00000175106	ENST00000522212;ENST00000225576;ENST00000428082;ENST00000438826	T;T;T;T	0.25749	1.78;1.78;1.78;1.78	4.47	4.47	0.54385	.	0.000000	0.85682	N	0.000000	T	0.02571	0.0078	N	0.00004	-3.335	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.06405	0.0;0.0;0.002	T	0.38457	-0.9660	10	0.02654	T	1	-3.8701	9.492	0.38965	0.0:0.0877:0.0:0.9123	.	51;51;51	Q96ET8-2;Q96ET8-3;Q96ET8	.;.;F18B2_HUMAN	Y	51	ENSP00000429865:C51Y;ENSP00000225576:C51Y;ENSP00000406387:C51Y;ENSP00000413355:C51Y	ENSP00000225576:C51Y	C	-	2	0	RP11-726O12.1;FAM18B2	15397812	1.000000	0.71417	1.000000	0.80357	0.703000	0.40648	6.178000	0.71968	0.670000	0.31165	-0.442000	0.05670	TGT		0.373	TVP23C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000130705.2	NM_145301		T	15457087	C	T	15457087	3	4	690	1	0	0	0	0	1	0	0	0	5524	478	17	2	848	2	FAM18B2	17	15457087	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	7241297	15457087	65738123	95	44864										
FBXO47	494188	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	37099134	37099134	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tgtttccacttagcattaggAgacgtgcattattctctaga	8	8	1	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr17:37099134A>G	ENST00000378079.2	-	9	1179	c.980T>C	c.(979-981)cTc>cCc	p.L327P		NM_001008777.2	NP_001008777.2	Q5MNV8	FBX47_HUMAN	F-box protein 47	327										NS(1)|breast(1)|endometrium(1)|large_intestine(5)|lung(9)|ovary(1)|prostate(1)|skin(1)	20						TAGCATTAGGAGACGTGCATT	0.403																																																0													98	91	93					17																	37099134		2203	4300	6503	SO:0001583	missense	494188				CCDS32639.1	17q12	2014-08-12			ENSG00000204952	ENSG00000204952		"F-boxes /  "other""	31969	protein-coding gene	gene with protein product		609498				15723337	Standard	NM_001008777		Approved		uc002hrc.2	Q5MNV8	OTTHUMG00000178945	ENST00000378079.2:c.980T>C	17.37:g.37099134A>G	ENSP00000367319:p.Leu327Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RTZ4	Missense_Mutation	SNP	ENST00000378079.2	37	CCDS32639.1	.	.	.	.	.	.	.	.	.	.	A	17.39	3.378341	0.61735	.	.	ENSG00000204952	ENST00000378079	T	0.61158	0.13	5.9	4.8	0.61643	.	0.254055	0.40385	N	0.001113	T	0.71626	0.3362	M	0.66939	2.045	0.58432	D	0.999995	D	0.76494	0.999	D	0.67231	0.95	T	0.73902	-0.3836	10	0.87932	D	0	-13.2646	12.1337	0.53957	0.8566:0.1434:0.0:0.0	.	327	Q5MNV8	FBX47_HUMAN	P	327	ENSP00000367319:L327P	ENSP00000367319:L327P	L	-	2	0	FBXO47	34352660	1.000000	0.71417	0.996000	0.52242	0.995000	0.86356	7.161000	0.77505	1.013000	0.39391	0.482000	0.46254	CTC		0.403	FBXO47-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444073.1	NM_001008777		G	37099134	A	G	37099134	3	3	690	1	0	0	0	0	1	0	0	0	5763	304	11	3	390	3	FBXO47	17	37099134	Missense_Mutation	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	21642047	37099134	44096076	96	44865										
COPZ2	51226	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	46103806	46103806	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	cacagccttcatttcaataaCgaccatttaatttgttcctt	3	11	2	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr17:46103806C>G	ENST00000006101.4	-	10	614	c.615G>C	c.(613-615)tcG>tcC	p.S205S	COPZ2_ENST00000584666.1_5'UTR	NM_016429.2	NP_057513.1	Q9P299	COPZ2_HUMAN	coatomer protein complex, subunit zeta 2	207					intracellular protein transport (GO:0006886)|vesicle-mediated transport (GO:0016192)	cis-Golgi network (GO:0005801)|COPI vesicle coat (GO:0030126)				lung(3)|upper_aerodigestive_tract(1)	4						ATTTCAATAACGACCATTTAA	0.507											OREG0024510	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													71	79	77					17																	46103806		1868	4095	5963	SO:0001819	synonymous_variant	51226			AB037938	CCDS74092.1	17q21.2	2008-07-18				ENSG00000005243			19356	protein-coding gene	gene with protein product	"nonclathrin coat protein zeta-COP", "zeta2-COP", "zeta-2 coat protein"	615526				11056392	Standard	NM_016429		Approved	MGC23008	uc002imy.3	Q9P299		ENST00000006101.4:c.615G>C	17.37:g.46103806C>G		Somatic	936	WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000006101.4	37																																																																																					0.507	COPZ2-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_016429		G	46103806	C	G	46103806	2	3	690	1	0	0	0	0	0	0	0	1	3744	523	19	4		4	COPZ2	17	46103806	Silent	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	9004672	46103806	35091404	97	44866										
AMZ2	51321	hgsc.bcm.edu;bcgsc.ca	37	chr17	66246341	66246341	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tttgttagatgcaaataataCggcactccgaacagacacta	7	9	0	2	rs532820909		TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr17:66246341C>T	ENST00000359904.3	+	2	1145	c.13C>T	c.(13-15)Cgg>Tgg	p.R5W	AMZ2_ENST00000585050.1_Intron|AMZ2_ENST00000577985.1_Missense_Mutation_p.R5W|RP11-147L13.2_ENST00000577698.1_RNA|AMZ2_ENST00000359783.4_Missense_Mutation_p.R5W|AMZ2_ENST00000392720.2_Missense_Mutation_p.R5W|AMZ2_ENST00000577273.1_Missense_Mutation_p.R5W|AMZ2_ENST00000580753.1_Missense_Mutation_p.R5W|AMZ2_ENST00000577866.1_Missense_Mutation_p.R5W	NM_016627.4	NP_057711.3	Q86W34	AMZ2_HUMAN	archaelysin family metallopeptidase 2	5							metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			breast(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(3)	9	all_cancers(12;1.12e-09)		BRCA - Breast invasive adenocarcinoma(8;3.17e-08)|LUSC - Lung squamous cell carcinoma(166;0.24)			GCAAATAATACGGCACTCCGA	0.343													C|||	1	0.000199681	0.0	0.0	5008	,	,		20400	0.0		0.0	False		,,,				2504	0.001															0													75	79	78					17																	66246341		2203	4300	6503	SO:0001583	missense	51321			CR609550	CCDS11674.1, CCDS32714.1	17q24.2	2010-04-08			ENSG00000196704	ENSG00000196704			28041	protein-coding gene	gene with protein product	"archaemetzincin-2"	615169				15972818	Standard	XM_005257436		Approved		uc002jgr.1	Q86W34		ENST00000359904.3:c.13C>T	17.37:g.66246341C>T	ENSP00000352976:p.Arg5Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NLD9|B3KR44|Q5XKF1|Q9NZE2	Missense_Mutation	SNP	ENST00000359904.3	37	CCDS11674.1	.	.	.	.	.	.	.	.	.	.	C	0.090	-1.168251	0.01660	.	.	ENSG00000196704	ENST00000359904;ENST00000359783;ENST00000392720	T;T;T	0.19938	2.11;2.11;2.11	3.71	1.58	0.23477	.	0.721746	0.11673	N	0.540610	T	0.21718	0.0523	L	0.57536	1.79	0.09310	N	1	D;D	0.61697	0.978;0.99	B;B	0.43623	0.425;0.425	T	0.14090	-1.0485	10	0.87932	D	0	-32.5953	7.065	0.25147	0.1861:0.451:0.3629:0.0	.	5;5	A6NLD9;Q86W34	.;AMZ2_HUMAN	W	5	ENSP00000352976:R5W;ENSP00000352831:R5W;ENSP00000376481:R5W	ENSP00000352831:R5W	R	+	1	2	AMZ2	63757936	0.001000	0.12720	0.000000	0.03702	0.006000	0.05464	0.302000	0.19192	0.320000	0.23234	0.456000	0.33151	CGG		0.343	AMZ2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000448261.1	NM_016627		T	66246341	C	T	66246341	3	4	690	1	0	0	0	0	1	0	0	0	597	527	19	1	15	1	AMZ2	17	66246341	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	20142535	66246341	14948869	98	44867										
C17orf70	80233	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	79518169	79518169	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	atgcaggcatcggggtccacAgggatcacgggggaaggctg	18	9	1	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr17:79518169A>G	ENST00000327787.8	-	3	397	c.351T>C	c.(349-351)ccT>ccC	p.P117P	C17orf70_ENST00000425898.2_5'Flank|C17orf70_ENST00000537152.1_5'UTR			Q0VG06	FP100_HUMAN	chromosome 17 open reading frame 70	117					DNA repair (GO:0006281)	cytoplasm (GO:0005737)|Fanconi anaemia nuclear complex (GO:0043240)|intermediate filament cytoskeleton (GO:0045111)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|central_nervous_system(1)|endometrium(1)|lung(11)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	19	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			CGGGGTCCACAGGGATCACGG	0.647																																																0													6	8	7					17																	79518169		1251	2219	3470	SO:0001819	synonymous_variant	80233			BC008883	CCDS32765.1, CCDS32765.2	17q25.3	2012-05-30			ENSG00000185504	ENSG00000185504			26171	protein-coding gene	gene with protein product	"Fanconi anemia-associated protein, 100kDa"	611301				17396147	Standard	NM_025161		Approved	FLJ22175, FAAP100	uc002kaq.3	Q0VG06	OTTHUMG00000167764	ENST00000327787.8:c.351T>C	17.37:g.79518169A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NNM1|Q8N3F7|Q9BV13|Q9H6K7|Q9H7E8	Silent	SNP	ENST00000327787.8	37	CCDS32765.2																																																																																				0.647	C17orf70-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396170.1	NM_025161		G	79518169	A	G	79518169	2	3	690	1	0	0	0	0	0	0	0	1	1879	175	7	3		3	C17orf70	17	79518169	Silent	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	13271828	79518169	1677041	99	44868										
DLGAP1	9229	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	3508641	3508641	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gttgggcactgcccactgcgGttcggatttttcctagaact	11	11	0	1	rs538990113		TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr18:3508641G>A	ENST00000315677.3	-	11	3093	c.2498C>T	c.(2497-2499)aCc>aTc	p.T833I	DLGAP1_ENST00000539435.1_Missense_Mutation_p.T541I|DLGAP1_ENST00000400150.3_Missense_Mutation_p.T549I|DLGAP1_ENST00000400147.2_Missense_Mutation_p.T531I|DLGAP1_ENST00000400155.1_Missense_Mutation_p.T539I|DLGAP1_ENST00000400149.3_Missense_Mutation_p.T523I|DLGAP1_ENST00000581699.1_Missense_Mutation_p.T539I|DLGAP1_ENST00000400145.2_Missense_Mutation_p.T531I|DLGAP1_ENST00000581527.1_Missense_Mutation_p.T833I|DLGAP1_ENST00000515196.2_Missense_Mutation_p.T833I|DLGAP1_ENST00000584874.1_Missense_Mutation_p.T833I|DLGAP1_ENST00000534970.1_Missense_Mutation_p.T517I	NM_004746.3	NP_004737.2	O14490	DLGP1_HUMAN	discs, large (Drosophila) homolog-associated protein 1	833					synaptic transmission (GO:0007268)	cell junction (GO:0030054)|neuronal postsynaptic density (GO:0097481)|postsynaptic membrane (GO:0045211)				breast(2)|endometrium(3)|kidney(1)|large_intestine(5)|lung(31)|ovary(2)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(6)|urinary_tract(1)	56		Colorectal(8;0.0257)				GCCCACTGCGGTTCGGATTTT	0.413																																																0													64	58	60					18																	3508641		2203	4300	6503	SO:0001583	missense	9229			AB000277	CCDS11836.1, CCDS42406.1, CCDS56049.1, CCDS56050.1, CCDS56051.1, CCDS56052.1, CCDS56053.1, CCDS74191.1	18p11.3	2008-07-28	2001-11-28		ENSG00000170579	ENSG00000170579			2905	protein-coding gene	gene with protein product		605445	"discs, large (Drosophila) homolog-associated protein 1"			9024696, 9286858	Standard	NM_004746		Approved	GKAP, SAPAP1, DAP-1	uc002kmf.3	O14490	OTTHUMG00000131537	ENST00000315677.3:c.2498C>T	18.37:g.3508641G>A	ENSP00000316377:p.Thr833Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8MWN8|B2RMU8|B7WPA1|B7Z2H2|B7Z2I2|B7Z9Y4|O14489|P78335	Missense_Mutation	SNP	ENST00000315677.3	37	CCDS11836.1	.	.	.	.	.	.	.	.	.	.	G	20.5	4.008210	0.75046	.	.	ENSG00000170579	ENST00000315677;ENST00000400147;ENST00000400150;ENST00000400149;ENST00000400155;ENST00000534970;ENST00000539435;ENST00000400145;ENST00000515196	T;T;T;T;T;T;T;T;T	0.19250	2.16;2.16;2.16;2.16;2.16;2.16;2.16;2.16;2.16	5.66	4.74	0.60224	.	0.160479	0.56097	D	0.000030	T	0.24812	0.0602	L	0.48362	1.52	0.44908	D	0.997921	D;P;P;P;P;D;P;P	0.54397	0.966;0.939;0.758;0.662;0.758;0.958;0.758;0.714	P;P;P;B;P;B;P;B	0.47705	0.522;0.522;0.555;0.398;0.555;0.387;0.555;0.419	T	0.00885	-1.1527	10	0.87932	D	0	-22.5862	11.1457	0.48430	0.0:0.1378:0.7192:0.1429	.	833;517;529;539;541;531;833;531	B7Z9Y4;B7Z2H2;B7Z2J5;A8MWN8;B7Z2I2;O14490-3;O14490;O14490-2	.;.;.;.;.;.;DLGP1_HUMAN;.	I	833;531;549;523;539;517;541;531;833	ENSP00000316377:T833I;ENSP00000383011:T531I;ENSP00000383014:T549I;ENSP00000383013:T523I;ENSP00000383019:T539I;ENSP00000437817:T517I;ENSP00000446312:T541I;ENSP00000383010:T531I;ENSP00000445973:T833I	ENSP00000316377:T833I	T	-	2	0	DLGAP1	3498641	1.000000	0.71417	0.969000	0.41365	0.997000	0.91878	4.878000	0.63093	2.656000	0.90262	0.655000	0.94253	ACC		0.413	DLGAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254394.4			A	3508641	G	A	3508641	3	1	690	1	0	0	0	0	1	0	0	0	4561	1261	44	2	447	2	DLGAP1	18	3508641	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10		3508641	74568607	100	44869										
RALBP1	10928	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	9524704	9524704	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gtctaacatggccacgatgcCcacgctgccagagacccagg	11	15	1	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr18:9524704C>G	ENST00000019317.4	+	5	1389	c.1166C>G	c.(1165-1167)cCc>cGc	p.P389R	RALBP1_ENST00000383432.3_Missense_Mutation_p.P389R			Q15311	RBP1_HUMAN	ralA binding protein 1	389					ATP catabolic process (GO:0006200)|chemotaxis (GO:0006935)|positive regulation of Cdc42 GTPase activity (GO:0043089)|regulation of GTPase activity (GO:0043087)|regulation of small GTPase mediated signal transduction (GO:0051056)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)|transport (GO:0006810)	cytosol (GO:0005829)|membrane (GO:0016020)	ATPase activity (GO:0016887)|ATPase activity, coupled to movement of substances (GO:0043492)|GTPase activator activity (GO:0005096)|Rac GTPase activator activity (GO:0030675)|Rac GTPase binding (GO:0048365)|Ral GTPase binding (GO:0017160)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(6)|lung(3)|upper_aerodigestive_tract(1)	14					Carbamazepine(DB00564)|Doxorubicin(DB00997)|Sorafenib(DB00398)|Vincristine(DB00541)	GCCACGATGCCCACGCTGCCA	0.537																																																0													51	44	46					18																	9524704		2203	4300	6503	SO:0001583	missense	10928			L42542	CCDS11845.1	18p11.22	2006-04-22			ENSG00000017797	ENSG00000017797			9841	protein-coding gene	gene with protein product		605801				7673236	Standard	NM_006788		Approved	RLIP76, RIP1, RIP	uc002koc.3	Q15311	OTTHUMG00000131596	ENST00000019317.4:c.1166C>G	18.37:g.9524704C>G	ENSP00000019317:p.Pro389Arg	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUI0	Missense_Mutation	SNP	ENST00000019317.4	37	CCDS11845.1	.	.	.	.	.	.	.	.	.	.	C	28.2	4.900504	0.92035	.	.	ENSG00000017797	ENST00000019317;ENST00000383432	T;T	0.11169	2.8;2.8	5.51	5.51	0.81932	.	0.000000	0.85682	D	0.000000	T	0.33059	0.0850	M	0.62723	1.935	0.80722	D	1	D	0.89917	1.0	D	0.74348	0.983	T	0.00899	-1.1522	10	0.66056	D	0.02	-11.5257	19.7818	0.96418	0.0:1.0:0.0:0.0	.	389	Q15311	RBP1_HUMAN	R	389	ENSP00000019317:P389R;ENSP00000372924:P389R	ENSP00000019317:P389R	P	+	2	0	RALBP1	9514704	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	7.629000	0.83207	2.736000	0.93811	0.655000	0.94253	CCC		0.537	RALBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254479.1	NM_006788		G	9524704	C	G	9524704	3	3	690	1	0	0	0	0	1	0	0	0	13025	623	22	4	1180	4	RALBP1	18	9524704	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	6016063	9524704	68552544	101	44870										
DSG4	147409	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	28966661	28966661	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tttgcttaaggtgaaggaatTtgacattgaaaatggcacta	10	4	0	3			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr18:28966661T>A	ENST00000308128.4	+	3	230	c.95T>A	c.(94-96)tTt>tAt	p.F32Y	RP11-534N16.1_ENST00000581452.1_RNA|RP11-534N16.1_ENST00000578477.1_RNA|DSG4_ENST00000359747.4_Missense_Mutation_p.F32Y|RP11-534N16.1_ENST00000581856.1_RNA	NM_177986.3	NP_817123.1	Q86SJ6	DSG4_HUMAN	desmoglein 4	32					anagen (GO:0042640)|BMP signaling pathway (GO:0030509)|homophilic cell adhesion (GO:0007156)|keratinocyte differentiation (GO:0030216)|single organismal cell-cell adhesion (GO:0016337)	desmosome (GO:0030057)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(1)|central_nervous_system(6)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(11)|liver(2)|lung(35)|ovary(4)|skin(1)|stomach(1)|urinary_tract(1)	70			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			GTGAAGGAATTTGACATTGAA	0.393																																																0													83	81	82					18																	28966661		2203	4300	6503	SO:0001583	missense	147409			AY177664, AY168788	CCDS11897.1, CCDS45845.1	18q12.1	2010-01-26			ENSG00000175065	ENSG00000175065		"Cadherins / Major cadherins"	21307	protein-coding gene	gene with protein product		607892				12648213	Standard	NM_001134453		Approved	CDHF13, LAH	uc002kwq.2	Q86SJ6	OTTHUMG00000131979	ENST00000308128.4:c.95T>A	18.37:g.28966661T>A	ENSP00000311859:p.Phe32Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A2RUI1|Q6Y9L9|Q8IXV4	Missense_Mutation	SNP	ENST00000308128.4	37	CCDS11897.1	.	.	.	.	.	.	.	.	.	.	T	4.207	0.037227	0.08148	.	.	ENSG00000175065	ENST00000308128;ENST00000359747	T;T	0.58940	0.36;0.3	5.32	4.07	0.47477	.	0.332353	0.16946	N	0.193117	T	0.21962	0.0529	N	0.01576	-0.805	0.20821	N	0.999849	B;B	0.06786	0.0;0.001	B;B	0.01281	0.0;0.0	T	0.31779	-0.9931	10	0.02654	T	1	.	6.1963	0.20552	0.137:0.0:0.218:0.645	.	32;32	Q86SJ6-2;Q86SJ6	.;DSG4_HUMAN	Y	32	ENSP00000311859:F32Y;ENSP00000352785:F32Y	ENSP00000311859:F32Y	F	+	2	0	DSG4	27220659	0.997000	0.39634	0.997000	0.53966	0.919000	0.55068	1.382000	0.34374	2.137000	0.66172	0.528000	0.53228	TTT		0.393	DSG4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254941.1	NM_177986		A	28966661	T	A	28966661	3	1	690	1	0	0	0	0	1	0	0	0	4781	1841	64	5	105	5	DSG4	18	28966661	Missense_Mutation	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10	19441957	28966661	49110587	102	44871										
DSG2	1829	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	29116286	29116286	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gatgcagagtatgtgaatgtTactgcagaggacctggatgg	15	5	0	3			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr18:29116286T>C	ENST00000261590.8	+	11	1754	c.1545T>C	c.(1543-1545)gtT>gtC	p.V515V		NM_001943.3	NP_001934.2	Q14126	DSG2_HUMAN	desmoglein 2	515			V -> I (in dbSNP:rs2230235).		apoptotic process (GO:0006915)|bundle of His cell to Purkinje myocyte communication (GO:0086069)|cell adhesion (GO:0007155)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|homophilic cell adhesion (GO:0007156)|maternal process involved in female pregnancy (GO:0060135)|regulation of heart rate by cardiac conduction (GO:0086091)|response to progesterone (GO:0032570)|ventricular cardiac muscle cell action potential (GO:0086005)	apical plasma membrane (GO:0016324)|cell surface (GO:0009986)|cell-cell junction (GO:0005911)|desmosome (GO:0030057)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|lateral plasma membrane (GO:0016328)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(2)|central_nervous_system(6)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(5)|lung(17)|ovary(2)|prostate(4)|skin(2)|urinary_tract(1)	49			OV - Ovarian serous cystadenocarcinoma(10;0.0068)			ATGTGAATGTTACTGCAGAGG	0.483																																																0													94	89	90					18																	29116286		1963	4174	6137	SO:0001819	synonymous_variant	1829			Z26317	CCDS42423.1	18q12.1	2014-09-17				ENSG00000046604		"Cadherins / Major cadherins"	3049	protein-coding gene	gene with protein product		125671				1612610	Standard	NM_001943		Approved	CDHF5	uc002kwu.4	Q14126		ENST00000261590.8:c.1545T>C	18.37:g.29116286T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q4KKU6	Silent	SNP	ENST00000261590.8	37	CCDS42423.1																																																																																				0.483	DSG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447506.1	NM_001943		C	29116286	T	C	29116286	2	2	690	1	0	0	0	0	0	0	0	1	4779	1741	61	3		3	DSG2	18	29116286	Silent	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10	149625	29116286	48960962	103	44872										
UBXN6	80700	ucsc.edu	37	chr19	4453972	4453972	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tgtggggccccaggcccgggActgcttctgctccagccggg	16	15	1	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr19:4453972A>G	ENST00000301281.6	-	2	326	c.202T>C	c.(202-204)Tcc>Ccc	p.S68P	UBXN6_ENST00000394765.3_Missense_Mutation_p.S15P|CTB-50L17.9_ENST00000592034.1_RNA	NM_025241.2	NP_079517.1	Q9BZV1	UBXN6_HUMAN	UBX domain protein 6	68						cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)				NS(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(4)|skin(1)	12						CAGGCCCGGGACTGCTTCTGC	0.692																																																0													71	82	78					19																	4453972		2203	4300	6503	SO:0001583	missense	80700			AF272893	CCDS12129.1, CCDS54201.1	19p13	2008-07-25	2008-07-25	2008-07-25		ENSG00000167671		"UBX domain containing"	14928	protein-coding gene	gene with protein product		611946	"UBX domain-containing 1", "UBX domain containing 1"	UBXD1		11342112	Standard	NM_025241		Approved	UBXDC2	uc002man.2	Q9BZV1		ENST00000301281.6:c.202T>C	19.37:g.4453972A>G	ENSP00000301281:p.Ser68Pro	Somatic		WXS	Illumina HiSeq		D6W626|Q96AH1|Q96IK9|Q9BZV0	Missense_Mutation	SNP	ENST00000301281.6	37	CCDS12129.1	.	.	.	.	.	.	.	.	.	.	A	8.094	0.775072	0.16051	.	.	ENSG00000167671	ENST00000301281;ENST00000394765	T;T	0.45668	1.94;0.89	4.24	3.2	0.36748	.	0.377447	0.27048	N	0.021186	T	0.08846	0.0219	N	0.00237	-1.79	0.22292	N	0.999225	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.0	T	0.33059	-0.9883	10	0.07325	T	0.83	-14.2173	5.506	0.16854	0.1175:0.2038:0.6787:0.0	.	15;68	Q9BZV1-2;Q9BZV1	.;UBXN6_HUMAN	P	68;15	ENSP00000301281:S68P;ENSP00000378246:S15P	ENSP00000301281:S68P	S	-	1	0	UBXN6	4404972	1.000000	0.71417	0.667000	0.29798	0.762000	0.43233	2.474000	0.45154	0.747000	0.32809	-0.415000	0.06103	TCC		0.692	UBXN6-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458447.3	NM_025241		G	4453972	A	G	4453972	3	3	690	1	0	0	0	0	1	0	0	0	16929	275	10	3	1163	3	UBXN6	19	4453972	Missense_Mutation	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10		4453972	54675011	104	44873										
LRRC8E	80131	broad.mit.edu	37	chr19	7964010	7964010	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ccggggaaggcaggggagggTgagaaggagaaagtgctggc	22	5	0	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr19:7964010T>G	ENST00000306708.6	+	3	704	c.603T>G	c.(601-603)ggT>ggG	p.G201G	AC010336.1_ENST00000539278.1_3'UTR	NM_001268284.1|NM_001268285.1|NM_025061.4	NP_001255213.1|NP_001255214.1|NP_079337.2	Q6NSJ5	LRC8E_HUMAN	leucine rich repeat containing 8 family, member E	201					ion transport (GO:0006811)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(10)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(10)	35						CAGGGGAGGGTGAGAAGGAGA	0.642																																																0													42	48	46					19																	7964010		2203	4300	6503	SO:0001819	synonymous_variant	80131				CCDS12189.1	19p13.2	2008-02-05				ENSG00000171017			26272	protein-coding gene	gene with protein product		612891				12477932	Standard	NM_025061		Approved	FLJ23420	uc002mir.3	Q6NSJ5		ENST00000306708.6:c.603T>G	19.37:g.7964010T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KR78|Q2YDY3|Q7L236|Q8N3B0|Q9H5H8	Silent	SNP	ENST00000306708.6	37	CCDS12189.1																																																																																				0.642	LRRC8E-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000461354.1	NM_025061		G	7964010	T	G	7964010	2	3	690	1	0	0	0	0	0	0	0	1	9032	1683	59	5		5	LRRC8E	19	7964010	Silent	SNP	T	TCGA-MH-A55W-01A-11D-A26P-10	3510038	7964010	51164973	105	44874										
ZNF799	90576	ucsc.edu;bcgsc.ca	37	chr19	12502160	12502160	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ttctttcatgacttttcagtGaactaggacaatcaaagcct	6	9	4	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr19:12502160G>T	ENST00000430385.3	-	4	1252	c.1052C>A	c.(1051-1053)tCa>tAa	p.S351*	CTD-3105H18.14_ENST00000435033.1_Intron|ZNF799_ENST00000419318.1_Nonsense_Mutation_p.S319*	NM_001080821.2	NP_001074290.1	Q96GE5	ZN799_HUMAN	zinc finger protein 799	351					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(3)|kidney(2)|large_intestine(4)|lung(4)|ovary(2)|prostate(2)|skin(2)	19						ACTTTTCAGTGAACTAGGACA	0.413																																																0													161	157	158					19																	12502160		2203	4300	6503	SO:0001587	stop_gained	90576			BC009517	CCDS45989.1	19p13.2	2013-01-08			ENSG00000196466	ENSG00000196466		"Zinc fingers, C2H2-type", "-"	28071	protein-coding gene	gene with protein product			"zinc finger protein 842"	ZNF842			Standard	NM_001080821		Approved	HIT-40, MGC71805	uc002mts.4	Q96GE5	OTTHUMG00000156408	ENST00000430385.3:c.1052C>A	19.37:g.12502160G>T	ENSP00000411084:p.Ser351*	Somatic		WXS	Illumina HiSeq			Nonsense_Mutation	SNP	ENST00000430385.3	37	CCDS45989.1	.	.	.	.	.	.	.	.	.	.	G	38	7.279860	0.98182	.	.	ENSG00000196466	ENST00000419318;ENST00000430385	.	.	.	1.31	-1.62	0.08372	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	2.5092	0.04652	0.1876:0.0:0.3077:0.5047	.	.	.	.	X	319;351	.	ENSP00000415278:S319X	S	-	2	0	ZNF799	12363160	0.000000	0.05858	0.001000	0.08648	0.117000	0.20001	-0.475000	0.06599	-0.373000	0.07979	0.430000	0.28490	TCA		0.413	ZNF799-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344099.2	NM_001080821		T	12502160	G	T	12502160	4	4	690	1	0	0	0	0	0	1	0	0	18178	1294	45	4	883	4	ZNF799	19	12502160	Nonsense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	4538150	12502160	46626823	106	44875										
RDH13	112724	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	55570627	55570627	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ggccttgctggggcaagcccCaccggtgacatagtccctga	13	14	0	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr19:55570627C>A	ENST00000415061.3	-	2	225	c.82G>T	c.(82-84)Ggg>Tgg	p.G28W	RDH13_ENST00000396247.3_5'UTR	NM_001145971.1	NP_001139443.1	Q8NBN7	RDH13_HUMAN	retinol dehydrogenase 13 (all-trans/9-cis)	28					eye photoreceptor cell development (GO:0042462)|response to high light intensity (GO:0009644)|retina layer formation (GO:0010842)	mitochondrion (GO:0005739)	oxidoreductase activity (GO:0016491)			endometrium(2)|large_intestine(2)|lung(6)|ovary(1)|skin(1)	12			BRCA - Breast invasive adenocarcinoma(297;0.199)	GBM - Glioblastoma multiforme(193;0.0504)	Vitamin A(DB00162)	GGGCAAGCCCCACCGGTGACA	0.632																																																0													28	27	27					19																	55570627		1567	3580	5147	SO:0001583	missense	112724				CCDS42627.1, CCDS54320.1	19q13.42	2011-09-14	2006-05-09			ENSG00000160439	1.1.1.-	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 2"	19978	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 7C, member 3"		"retinol dehydrogenase 13 (all-trans and 9-cis)"			12226107, 19027726	Standard	NM_138412		Approved	SDR7C3	uc002qio.3	Q8NBN7		ENST00000415061.3:c.82G>T	19.37:g.55570627C>A	ENSP00000391121:p.Gly28Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UX79|Q96G88	Missense_Mutation	SNP	ENST00000415061.3	37	CCDS54320.1	.	.	.	.	.	.	.	.	.	.	C	23.3	4.395156	0.83011	.	.	ENSG00000160439	ENST00000415061;ENST00000291892	D;D	0.83673	-1.75;-1.63	5.24	5.24	0.73138	.	0.000000	0.85682	D	0.000000	D	0.88930	0.6571	L	0.56769	1.78	0.80722	D	1	D	0.89917	1.0	D	0.79108	0.992	D	0.89139	0.3515	10	0.59425	D	0.04	.	14.7528	0.69540	0.0:1.0:0.0:0.0	.	28	Q8NBN7	RDH13_HUMAN	W	28	ENSP00000391121:G28W;ENSP00000291892:G28W	ENSP00000291892:G28W	G	-	1	0	RDH13	60262439	0.988000	0.35896	0.311000	0.25182	0.164000	0.22412	3.974000	0.56852	2.635000	0.89317	0.650000	0.86243	GGG		0.632	RDH13-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451470.1	NM_138412		A	55570627	C	A	55570627	3	1	690	1	0	0	0	0	1	0	0	0	13205	594	21	4	937	4	RDH13	19	55570627	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	43068467	55570627	3558356	107	44876										
SLC32A1	140679	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	37353586	37353607	+	Frame_Shift_Del	DEL	GGGCGCTGAAGCGCCCGTCGAG	GGGCGCTGAAGCGCCCGTCGAG	-													0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ggagagccctgcggggacgaGggcgctgaagcgcccgtcga					rs148951877		TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	GGGCGCTGAAGCGCCCGTCGAG	GGGCGCTGAAGCGCCCGTCGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr20:37353586_37353607delGGGCGCTGAAGCGCCCGTCGAG	ENST00000217420.1	+	1	482_503	c.219_240delGGGCGCTGAAGCGCCCGTCGAG	c.(217-240)gagggcgctgaagcgcccgtcgagfs	p.EGAEAPVE73fs		NM_080552.2	NP_542119.1	Q9H598	VIAAT_HUMAN	solute carrier family 32 (GABA vesicular transporter), member 1	73					aging (GO:0007568)|ion transport (GO:0006811)|neurotransmitter secretion (GO:0007269)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	cell tip (GO:0051286)|clathrin-sculpted gamma-aminobutyric acid transport vesicle membrane (GO:0061202)|cone cell pedicle (GO:0044316)|dendrite (GO:0030425)|dendrite terminus (GO:0044292)|inhibitory synapse (GO:0060077)|integral component of membrane (GO:0016021)|neuron projection (GO:0043005)|neuron projection terminus (GO:0044306)|plasma membrane (GO:0005886)|synaptic vesicle membrane (GO:0030672)	gamma-aminobutyric acid:proton symporter activity (GO:0015495)|glycine transmembrane transporter activity (GO:0015187)			breast(2)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(11)|lung(16)|urinary_tract(1)	38		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	GCGGGGACGAGGGCGCTGAAGCGCCCGTCGAGGGAGACATCC	0.671																																																0																																										SO:0001589	frameshift_variant	140679			AL133519	CCDS13307.1	20q11	2013-05-22			ENSG00000101438	ENSG00000101438		"Solute carriers"	11018	protein-coding gene	gene with protein product			"vesicular inhibitory amino acid transporter"	VIAAT		19843525	Standard	NM_080552		Approved	VGAT, bA122O1.1	uc002xjc.3	Q9H598	OTTHUMG00000032457	ENST00000217420.1:c.219_240delGGGCGCTGAAGCGCCCGTCGAG	20.37:g.37353586_37353607delGGGCGCTGAAGCGCCCGTCGAG	ENSP00000217420:p.Glu73fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N489	Frame_Shift_Del	DEL	ENST00000217420.1	37	CCDS13307.1																																																																																				0.671	SLC32A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079206.1	NM_080552		-	37353607	GGGCGCTGAAGCGCCCGTCGAG	-	37353586	7	5	690	1	0	1	0	1	0	0	0	0	14578	991	35	0	221	0	SLC32A1	20	37353586	Frame_Shift_Del	DEL	GGGCGCTGAAGCGCCCGTCGAG	TCGA-MH-A55W-01A-11D-A26P-10		37353586	25671934	108	44877										
NCOA3	8202	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	46254225	46254225	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ttaggaccgcttttacttcaGgcaagtataaagattttaac	7	7	1	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr20:46254225G>A	ENST00000371998.3	+	5	548	c.357G>A	c.(355-357)caG>caA	p.Q119Q	NCOA3_ENST00000341724.6_Splice_Site_p.Q119Q|NCOA3_ENST00000372004.3_Splice_Site_p.Q119Q|NCOA3_ENST00000371997.3_Splice_Site_p.Q119Q			Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3	119	PAS. {ECO:0000255|PROSITE- ProRule:PRU00140}.				androgen receptor signaling pathway (GO:0030521)|developmental growth (GO:0048589)|histone acetylation (GO:0016573)|labyrinthine layer morphogenesis (GO:0060713)|mammary gland branching involved in thelarche (GO:0060744)|multicellular organism growth (GO:0035264)|positive regulation of gene expression (GO:0010628)|positive regulation of keratinocyte differentiation (GO:0045618)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|receptor transactivation (GO:0035624)|regulation of RNA biosynthetic process (GO:2001141)|transcription, DNA-templated (GO:0006351)|vagina development (GO:0060068)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|chromatin binding (GO:0003682)|histone acetyltransferase activity (GO:0004402)|ligand-dependent nuclear receptor binding (GO:0016922)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|nuclear hormone receptor binding (GO:0035257)|protein N-terminus binding (GO:0047485)|signal transducer activity (GO:0004871)|thyroid hormone receptor binding (GO:0046966)|transcription coactivator activity (GO:0003713)			breast(3)|endometrium(3)|kidney(4)|large_intestine(12)|lung(19)|ovary(4)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	52						TTTTACTTCAGGCAAGTATAA	0.343																																																0													76	71	73					20																	46254225		2203	4300	6503	SO:0001630	splice_region_variant	8202			AF012108	CCDS13406.1, CCDS13407.1, CCDS54472.1	20q12	2011-07-01			ENSG00000124151	ENSG00000124151		"Chromatin-modifying enzymes / K-acetyltransferases", "Basic helix-loop-helix proteins"	7670	protein-coding gene	gene with protein product	"receptor-associated coactivator 3", "thyroid hormone receptor activator molecule 1"	601937				9252329, 9346901	Standard	NM_181659		Approved	RAC3, AIB1, ACTR, p/CIP, TRAM-1, CAGH16, TNRC16, KAT13B, bHLHe42, SRC-3, SRC3	uc002xtk.3	Q9Y6Q9	OTTHUMG00000033061	ENST00000371998.3:c.357+1G>A	20.37:g.46254225G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4LAZ5|Q0VF45|Q5JYD9|Q5JYE0|Q9BR49|Q9UPC9|Q9UPG4|Q9UPG7	Silent	SNP	ENST00000371998.3	37	CCDS13407.1																																																																																				0.343	NCOA3-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000080405.1	NM_006534	Silent	A	46254225	G	A	46254225	5	1	690	1	0	0	0	0	0	0	1	0	10237	1014	35	2	367	2	NCOA3	20	46254225	Splice_Site	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	8900639	46254225	16771295	109	44878										
ADNP	23394	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	49509272	49509272	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	aatggatacatttgtaggtgAgctttttctcaactggatga	10	5	1	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr20:49509272A>G	ENST00000396029.3	-	5	2546	c.1979T>C	c.(1978-1980)cTc>cCc	p.L660P	ADNP_ENST00000371602.4_Missense_Mutation_p.L660P|ADNP_ENST00000396032.3_Missense_Mutation_p.L660P|ADNP_ENST00000349014.3_Missense_Mutation_p.L660P	NM_001282531.1|NM_015339.2	NP_001269460.1|NP_056154.1	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector homeobox	660					negative regulation of neuron apoptotic process (GO:0043524)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	extracellular space (GO:0005615)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|breast(4)|endometrium(7)|kidney(1)|large_intestine(13)|lung(7)|ovary(2)|prostate(2)|skin(2)	39						TTTGTAGGTGAGCTTTTTCTC	0.458																																																0													168	159	162					20																	49509272		2203	4300	6503	SO:0001583	missense	23394			AF250860	CCDS13433.1	20q13.13	2011-06-20	2007-07-17		ENSG00000101126	ENSG00000101126		"Homeoboxes / ZF class"	15766	protein-coding gene	gene with protein product	"ADNP homeobox 1"	611386	"activity-dependent neuroprotector"			9872452, 11013255	Standard	NM_015339		Approved	KIAA0784, ADNP1	uc002xvu.1	Q9H2P0	OTTHUMG00000032737	ENST00000396029.3:c.1979T>C	20.37:g.49509272A>G	ENSP00000379346:p.Leu660Pro	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5Y2|O94881|Q5BKU2|Q9UG34	Missense_Mutation	SNP	ENST00000396029.3	37	CCDS13433.1	.	.	.	.	.	.	.	.	.	.	A	12.33	1.907002	0.33628	.	.	ENSG00000101126	ENST00000371602;ENST00000349014;ENST00000396029;ENST00000396032	.	.	.	5.95	5.95	0.96441	.	0.000000	0.85682	D	0.000000	T	0.45276	0.1334	N	0.17082	0.46	0.80722	D	1	B	0.25486	0.127	B	0.25140	0.058	T	0.40720	-0.9548	9	0.54805	T	0.06	-14.7154	16.4177	0.83748	1.0:0.0:0.0:0.0	.	660	Q9H2P0	ADNP_HUMAN	P	660	.	ENSP00000342905:L660P	L	-	2	0	ADNP	48942679	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	8.941000	0.92964	2.267000	0.75376	0.528000	0.53228	CTC		0.458	ADNP-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079705.2	NM_181442		G	49509272	A	G	49509272	3	3	690	1	0	0	0	0	1	0	0	0	323	304	11	3	1333	3	ADNP	20	49509272	Missense_Mutation	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10	3255047	49509272	13516248	110	44879										
LIPI	149998	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	15561570	15561570	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	aagccagactgttttcttttGtgtgttgaaattaacattaa	7	5	1	2	rs569460311		TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr21:15561570G>A	ENST00000536861.1	-	2	216	c.217C>T	c.(217-219)Caa>Taa	p.Q73*	LIPI_ENST00000344577.2_Nonsense_Mutation_p.Q94*			Q6XZB0	LIPI_HUMAN	lipase, member I	73					lipid catabolic process (GO:0016042)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|membrane (GO:0016020)|plasma membrane (GO:0005886)	heparin binding (GO:0008201)|phospholipase activity (GO:0004620)			endometrium(1)|kidney(13)|large_intestine(9)|liver(3)|lung(24)|ovary(3)|urinary_tract(1)	54				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		GTTTTCTTTTGTGTGTTGAAA	0.378																																																0													140	125	130					21																	15561570		2203	4300	6503	SO:0001587	stop_gained	149998			BC028732	CCDS13564.1	21q11.2	2012-07-31			ENSG00000188992	ENSG00000188992			18821	protein-coding gene	gene with protein product	"membrane-associated phospholipase A1 beta", "cancer/testis antigen 17"	609252				12719377	Standard	XM_005260924		Approved	PRED5, LPDL, CT17, mPA-PLA1beta, PLA1C	uc002yjm.3	Q6XZB0	OTTHUMG00000074258	ENST00000536861.1:c.217C>T	21.37:g.15561570G>A	ENSP00000440381:p.Gln73*	Somatic		WXS	Illumina HiSeq	Phase_I	G1JSG3|G1JSG4|G1JSG5|G1JSG6|G1JSG7|G1JSG8|G1JSG9	Nonsense_Mutation	SNP	ENST00000536861.1	37		.	.	.	.	.	.	.	.	.	.	G	25.4	4.631384	0.87660	.	.	ENSG00000188992	ENST00000344577;ENST00000536861	.	.	.	5.3	-2.36	0.06663	.	1.079770	0.06983	N	0.820308	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.29301	T	0.29	.	1.3793	0.02227	0.1755:0.2196:0.1309:0.474	.	.	.	.	X	94;73	.	ENSP00000343331:Q94X	Q	-	1	0	LIPI	14483441	0.000000	0.05858	0.001000	0.08648	0.986000	0.74619	0.242000	0.18087	-0.342000	0.08363	-0.152000	0.13540	CAA		0.378	LIPI-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_198996		A	15561570	G	A	15561570	4	1	690	1	0	0	0	0	0	1	0	0	8832	1386	48	2	1201	2	LIPI	21	15561570	Nonsense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10		15561570	32568325	111	44880										
HLCS	3141	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	38309141	38309141	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gtctctgagagcactgtcctCcagcaggtggtagagaatat	12	9	1	2	rs148324626		TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr21:38309141C>G	ENST00000399120.1	-	5	1834	c.604G>C	c.(604-606)Gag>Cag	p.E202Q	HLCS_ENST00000336648.4_Missense_Mutation_p.E202Q	NM_001242784.1	NP_001229713.1	P50747	BPL1_HUMAN	holocarboxylase synthetase (biotin-(proprionyl-CoA-carboxylase (ATP-hydrolysing)) ligase)	202					biotin metabolic process (GO:0006768)|cell proliferation (GO:0008283)|histone biotinylation (GO:0071110)|histone modification (GO:0016570)|protein biotinylation (GO:0009305)|response to biotin (GO:0070781)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	chromatin (GO:0000785)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|mitochondrion (GO:0005739)|nuclear lamina (GO:0005652)|nuclear matrix (GO:0016363)	ATP binding (GO:0005524)|biotin binding (GO:0009374)|biotin-[acetyl-CoA-carboxylase] ligase activity (GO:0004077)|biotin-[methylcrotonoyl-CoA-carboxylase] ligase activity (GO:0004078)|biotin-[methylmalonyl-CoA-carboxytransferase] ligase activity (GO:0004079)|biotin-[propionyl-CoA-carboxylase (ATP-hydrolyzing)] ligase activity (GO:0004080)|biotin-protein ligase activity (GO:0018271)|enzyme binding (GO:0019899)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(8)|liver(1)|lung(8)|ovary(2)|upper_aerodigestive_tract(1)	24		Myeloproliferative disorder(46;0.0422)			Biotin(DB00121)	GCACTGTCCTCCAGCAGGTGG	0.582																																																0								C	GLN/GLU,GLN/GLU,GLN/GLU	1,4405	2.1+/-5.4	0,1,2202	70	73	72		604,604,604	3	0	21	dbSNP_134	72	0,8600		0,0,4300	no	missense,missense,missense	HLCS	NM_000411.6,NM_001242784.1,NM_001242785.1	29,29,29	0,1,6502	GG,GC,CC		0.0,0.0227,0.0077	benign,benign,benign	202/727,202/727,202/727	38309141	1,13005	2203	4300	6503	SO:0001583	missense	3141				CCDS13647.1	21q22.1	2012-07-13	2010-04-30		ENSG00000159267	ENSG00000159267	6.3.4.9, 6.3.4.10, 6.3.4.11, 6.3.4.15		4976	protein-coding gene	gene with protein product		609018	"holocarboxylase synthetase (biotin-[proprionyl-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase)", "holocarboxylase synthetase (biotin-(proprionyl-Coenzyme A-carboxylase (ATP-hydrolysing)) ligase)"			7842009	Standard	NM_000411		Approved	HCS	uc021wjb.1	P50747	OTTHUMG00000086636	ENST00000399120.1:c.604G>C	21.37:g.38309141C>G	ENSP00000382071:p.Glu202Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAH1|D3DSG6|Q99451	Missense_Mutation	SNP	ENST00000399120.1	37	CCDS13647.1	.	.	.	.	.	.	.	.	.	.	C	9.293	1.051089	0.19827	2.27E-4	0.0	ENSG00000159267	ENST00000399120;ENST00000336648	D;D	0.98164	-4.76;-4.76	5.91	2.99	0.34606	.	0.383875	0.32258	N	0.006346	D	0.94745	0.8304	L	0.35723	1.085	0.09310	N	1	B;B	0.13145	0.007;0.003	B;B	0.09377	0.004;0.004	D	0.84732	0.0746	10	0.15952	T	0.53	.	10.2355	0.43280	0.0:0.6608:0.2659:0.0733	.	202;202	B2RAH1;P50747	.;BPL1_HUMAN	Q	202	ENSP00000382071:E202Q;ENSP00000338387:E202Q	ENSP00000338387:E202Q	E	-	1	0	HLCS	37231011	0.279000	0.24239	0.001000	0.08648	0.283000	0.27025	1.771000	0.38542	0.335000	0.23614	0.655000	0.94253	GAG		0.582	HLCS-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000194687.2			G	38309141	C	G	38309141	3	3	690	1	0	0	0	0	1	0	0	0	7220	864	30	4	1608	4	HLCS	21	38309141	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	22747571	38309141	9820754	112	44881										
C21orf29	54084	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	45949793	45949793	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ctgctgggacacagccttggGgtggcgtctgagcccggcag	17	12	1	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr21:45949793G>A	ENST00000323084.4	-	5	743	c.678C>T	c.(676-678)acC>acT	p.T226T	TSPEAR_ENST00000397916.1_Silent_p.T158T	NM_001272037.1|NM_144991.2	NP_001258966.1|NP_659428.2	Q8WU66	TSEAR_HUMAN	thrombospondin-type laminin G domain and EAR repeats	226	Laminin G-like.				sensory perception of sound (GO:0007605)	cell surface (GO:0009986)|ciliary membrane (GO:0060170)|extracellular region (GO:0005576)|stereocilium (GO:0032420)				breast(1)|central_nervous_system(6)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(7)|lung(7)|ovary(1)|pancreas(1)|skin(6)|soft_tissue(1)|upper_aerodigestive_tract(2)	37						ACAGCCTTGGGGTGGCGTCTG	0.662																																																0													35	39	37					21																	45949793		2203	4300	6503	SO:0001819	synonymous_variant	54084			AJ487962	CCDS13712.1, CCDS74801.1	21q22.3	2012-10-30	2011-01-25	2011-01-25	ENSG00000175894	ENSG00000175894			1268	protein-coding gene	gene with protein product		612920	"chromosome 21 open reading frame 29", "deafness, autosomal recessive 98"	C21orf29, DFNB98		12095917, 22678063	Standard	NM_144991		Approved	MGC11251, TSP-EAR	uc002zfe.1	Q8WU66	OTTHUMG00000041215	ENST00000323084.4:c.678C>T	21.37:g.45949793G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000323084.4	37	CCDS13712.1																																																																																				0.662	TSPEAR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098761.1	NM_144991		A	45949793	G	A	45949793	2	1	690	1	0	0	0	0	0	0	0	1	2126	1219	43	2		2	C21orf29	21	45949793	Silent	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	7640652	45949793	2180102	113	44882										
IL17RA	23765	hgsc.bcm.edu	37	chr22	17566096	17566096	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ccctgcgactcctggaccacCgggcgctggtctgctcccag	12	18	1	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr22:17566096C>A	ENST00000319363.6	+	1	248	c.115C>A	c.(115-117)Cgg>Agg	p.R39R	IL17RA_ENST00000477874.1_3'UTR	NM_014339.5	NP_055154.3	Q96F46	I17RA_HUMAN	interleukin 17 receptor A	39					cell surface receptor signaling pathway (GO:0007166)|cytokine-mediated signaling pathway (GO:0019221)|fibroblast activation (GO:0072537)|positive regulation of cytokine production involved in inflammatory response (GO:1900017)|positive regulation of interleukin-23 production (GO:0032747)	extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)	interleukin-17 receptor activity (GO:0030368)			endometrium(2)|large_intestine(8)|lung(16)|ovary(1)|skin(2)|stomach(1)	30		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		CCTGGACCACCGGGCGCTGGT	0.766																																																0													2	2	2					22																	17566096		1628	3503	5131	SO:0001819	synonymous_variant	23765			U58917	CCDS13739.1	22q11.1	2014-09-17	2006-04-26	2006-04-26	ENSG00000177663	ENSG00000177663		"Interleukins and interleukin receptors", "CD molecules"	5985	protein-coding gene	gene with protein product		605461	"interleukin 17 receptor"	IL17R		9367539, 10591208	Standard	NM_014339		Approved	hIL-17R, IL-17RA, CDw217, CD217	uc002zly.4	Q96F46	OTTHUMG00000150026	ENST00000319363.6:c.115C>A	22.37:g.17566096C>A		Somatic		WXS	Illumina HiSeq	Phase_I	O43844|Q20WK1	Silent	SNP	ENST00000319363.6	37	CCDS13739.1																																																																																				0.766	IL17RA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000315820.1	NM_014339		A	17566096	C	A	17566096	2	1	690	1	0	0	0	0	0	0	0	1	7646	643	23	4		4	IL17RA	22	17566096	Silent	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10		17566096	33738470	114	44883										
HIC2	23119	ucsc.edu	37	chr22	21800382	21800382	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	acccctgcaaggaggaggagGagaacggcaaggatgcaagt	16	8	0	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr22:21800382G>A	ENST00000443632.2	+	2	1570	c.1198G>A	c.(1198-1200)Gag>Aag	p.E400K	HIC2_ENST00000407598.2_Missense_Mutation_p.E400K|HIC2_ENST00000407464.2_Missense_Mutation_p.E400K			Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	400					negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|plasma membrane (GO:0005886)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|protein C-terminus binding (GO:0008022)			NS(1)|endometrium(4)|large_intestine(1)|lung(7)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	16	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				GGAGGAGGAGGAGAACGGCAA	0.672																																					NSCLC(23;437 858 2282 27947 40366)											0													24	23	23					22																	21800382		2192	4281	6473	SO:0001583	missense	23119			AB028943	CCDS13789.1	22q11.21	2013-01-09			ENSG00000169635	ENSG00000169635		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	18595	protein-coding gene	gene with protein product		607712				11554746	Standard	NM_015094		Approved	KIAA1020, HRG22, ZBTB30, ZNF907	uc002zur.4	Q96JB3	OTTHUMG00000150781	ENST00000443632.2:c.1198G>A	22.37:g.21800382G>A	ENSP00000387757:p.Glu400Lys	Somatic		WXS	Illumina HiSeq		Q504T6|Q96KR3|Q9NSM9|Q9UPX9	Missense_Mutation	SNP	ENST00000443632.2	37	CCDS13789.1	.	.	.	.	.	.	.	.	.	.	G	15.29	2.790874	0.50102	.	.	ENSG00000169635	ENST00000407464;ENST00000407598;ENST00000443632	T;T;T	0.11821	2.74;2.74;2.74	5.18	5.18	0.71444	.	0.000000	0.85682	D	0.000000	T	0.14960	0.0361	M	0.65498	2.005	0.49130	D	0.999756	B	0.34200	0.441	B	0.32465	0.146	T	0.03818	-1.1001	10	0.02654	T	1	.	16.225	0.82285	0.0:0.0:1.0:0.0	.	400	Q96JB3	HIC2_HUMAN	K	400	ENSP00000385319:E400K;ENSP00000384889:E400K;ENSP00000387757:E400K	ENSP00000385319:E400K	E	+	1	0	HIC2	20130382	1.000000	0.71417	0.990000	0.47175	0.380000	0.30137	6.248000	0.72418	2.694000	0.91930	0.655000	0.94253	GAG		0.672	HIC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320061.2			A	21800382	G	A	21800382	3	1	690	1	0	0	0	0	1	0	0	0	7109	1175	41	2	1204	2	HIC2	22	21800382	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	4234286	21800382	29504184	115	44884										
CSNK1E	1454	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	38690131	38690131	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	tcacctgtgaggctgggatcCgggagacctcttgccgccca	13	14	2	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr22:38690131C>T	ENST00000396832.1	-	9	1462	c.1202G>A	c.(1201-1203)cGg>cAg	p.R401Q	CSNK1E_ENST00000498529.1_5'Flank|CSNK1E_ENST00000400206.2_Missense_Mutation_p.R401Q|CSNK1E_ENST00000403904.1_Missense_Mutation_p.R401Q|CSNK1E_ENST00000359867.3_Missense_Mutation_p.R401Q	NM_152221.2	NP_689407.1	P49674	KC1E_HUMAN	casein kinase 1, epsilon	401					cellular protein localization (GO:0034613)|circadian regulation of gene expression (GO:0032922)|DNA repair (GO:0006281)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|negative regulation of Wnt signaling pathway (GO:0030178)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|protein phosphorylation (GO:0006468)|regulation of circadian rhythm (GO:0042752)|signal transduction (GO:0007165)	cytosol (GO:0005829)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(2)|liver(1)|lung(7)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	22	Melanoma(58;0.045)					GGCTGGGATCCGGGAGACCTC	0.662																																					Esophageal Squamous(119;108 755 9651 12170 13692 17603 24932 28315 37982 41601)											0													26	27	27					22																	38690131		2201	4300	6501	SO:0001583	missense	1454				CCDS13970.1	22q13.1	2013-01-17			ENSG00000213923	ENSG00000213923			2453	protein-coding gene	gene with protein product		600863				7797465, 10535959	Standard	NM_001894		Approved	HCKIE, CKIE, CKIepsilon	uc003avk.3	P49674	OTTHUMG00000151135	ENST00000396832.1:c.1202G>A	22.37:g.38690131C>T	ENSP00000380044:p.Arg401Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000396832.1	37	CCDS13970.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	25.1|25.1	4.600758|4.600758	0.87055|0.87055	.|.	.|.	ENSG00000213923|ENSG00000213923	ENST00000366216|ENST00000359867;ENST00000396832;ENST00000402865;ENST00000400206;ENST00000403904	.|T;T;T;T	.|0.57436	.|0.4;0.4;0.4;0.4	5.8|5.8	5.8|5.8	0.92144|0.92144	.|.	.|0.055638	.|0.64402	.|D	.|0.000001	T|T	0.59211|0.59211	0.2177|0.2177	N|N	0.12182|0.12182	0.205|0.205	0.80722|0.80722	D|D	1|1	.|D	.|0.89917	.|1.0	.|D	.|0.83275	.|0.996	T|T	0.65175|0.65175	-0.6232|-0.6232	5|10	.|0.56958	.|D	.|0.05	.|.	20.063|20.063	0.97692|0.97692	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|401	.|P49674	.|KC1E_HUMAN	R|Q	104|401	.|ENSP00000352929:R401Q;ENSP00000380044:R401Q;ENSP00000383067:R401Q;ENSP00000384074:R401Q	.|ENSP00000352929:R401Q	G|R	-|-	1|2	0|0	CSNK1E|CSNK1E	37020077|37020077	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.254000|0.254000	0.26022|0.26022	7.482000|7.482000	0.81143|0.81143	2.735000|2.735000	0.93741|0.93741	0.655000|0.655000	0.94253|0.94253	GGA|CGG		0.662	CSNK1E-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321462.1	NM_001894		T	38690131	C	T	38690131	3	4	690	1	0	0	0	0	1	0	0	0	3955	652	23	1	56	1	CSNK1E	22	38690131	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	16889749	38690131	12614435	116	44885										
SHANK3	85358	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	51160300	51160300	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	agcccagcagtgagccacccCctgcccctgagtctgcagcc	10	19	1	2			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chr22:51160300C>G	ENST00000414786.2	+	21	4224	c.3997C>G	c.(3997-3999)Cct>Gct	p.P1333A	SHANK3_ENST00000262795.3_Missense_Mutation_p.P1363A|SHANK3_ENST00000445220.2_Missense_Mutation_p.P1349A			Q9BYB0	SHAN3_HUMAN	SH3 and multiple ankyrin repeat domains 3	1347	Pro-rich.		V -> G. {ECO:0000269|PubMed:20385823}.		adult behavior (GO:0030534)|alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor clustering (GO:0097113)|brain morphogenesis (GO:0048854)|dendritic spine morphogenesis (GO:0060997)|guanylate kinase-associated protein clustering (GO:0097117)|learning (GO:0007612)|MAPK cascade (GO:0000165)|memory (GO:0007613)|N-methyl-D-aspartate receptor clustering (GO:0097114)|negative regulation of actin filament bundle assembly (GO:0032232)|negative regulation of cell volume (GO:0045794)|positive regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:2000969)|positive regulation of dendritic spine development (GO:0060999)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of glutamate receptor signaling pathway (GO:1900451)|positive regulation of long-term neuronal synaptic plasticity (GO:0048170)|positive regulation of synapse structural plasticity (GO:0051835)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|postsynaptic density assembly (GO:0097107)|regulation of dendritic spine morphogenesis (GO:0061001)|regulation of long term synaptic depression (GO:1900452)|regulation of long-term synaptic potentiation (GO:1900271)|social behavior (GO:0035176)|striatal medium spiny neuron differentiation (GO:0021773)|synapse assembly (GO:0007416)|vocal learning (GO:0042297)|vocalization behavior (GO:0071625)	cell junction (GO:0030054)|ciliary membrane (GO:0060170)|cytoplasm (GO:0005737)|neuron projection (GO:0043005)|neuron spine (GO:0044309)|neuronal postsynaptic density (GO:0097481)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	GKAP/Homer scaffold activity (GO:0030160)|identical protein binding (GO:0042802)|ionotropic glutamate receptor binding (GO:0035255)|protein C-terminus binding (GO:0008022)|scaffold protein binding (GO:0097110)|SH3 domain binding (GO:0017124)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(1)|kidney(1)|lung(5)	8		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		TGAGCCACCCCCTGCCCCTGA	0.711																																																0													8	10	9					22																	51160300		1900	4008	5908	SO:0001583	missense	85358			AB051437		22q13.3	2013-11-14			ENSG00000251322	ENSG00000251322		"Sterile alpha motif (SAM) domain containing", "Ankyrin repeat domain containing"	14294	protein-coding gene	gene with protein product	"proline rich synapse associated protein 2", "shank postsynaptic density protein"	606230				11258795, 11431708, 10806096, 17173049	Standard	NM_033517		Approved	SPANK-2, prosap2, KIAA1650, PSAP2	uc031ryd.1	Q9BYB0	OTTHUMG00000150169	ENST00000414786.2:c.3997C>G	22.37:g.51160300C>G	ENSP00000464552:p.Pro1333Ala	Somatic		WXS	Illumina HiSeq	Phase_I	D7UT47|Q8TET3	Missense_Mutation	SNP	ENST00000414786.2	37		.	.	.	.	.	.	.	.	.	.	C	15.71	2.913103	0.52439	.	.	ENSG00000251322	ENST00000262795;ENST00000445220	T;T	0.18960	2.18;2.18	5.11	5.11	0.69529	.	0.073236	0.56097	D	0.000028	T	0.28167	0.0695	M	0.78456	2.415	0.28658	N	0.906287	B;B;B	0.28512	0.176;0.096;0.214	B;B;B	0.25884	0.064;0.036;0.052	T	0.13683	-1.0500	10	0.34782	T	0.22	.	16.0382	0.80645	0.0:1.0:0.0:0.0	.	1347;1348;1363	D7UT47;Q9BYB0;F2Z3L0	.;SHAN3_HUMAN;.	A	1363;1349	ENSP00000442518:P1363A;ENSP00000446078:P1349A	ENSP00000442518:P1363A	P	+	1	0	SHANK3	49507166	0.230000	0.23740	0.974000	0.42286	0.986000	0.74619	1.882000	0.39648	2.381000	0.81170	0.462000	0.41574	CCT		0.711	SHANK3-001	KNOWN	non_canonical_polymorphism|basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000316674.2	NM_001080420		G	51160300	C	G	51160300	3	3	690	1	0	0	0	0	1	0	0	0	14279	623	22	4	4173	4	SHANK3	22	51160300	Missense_Mutation	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	12470169	51160300	144266	117	44886										
WWC3	55841	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	10066562	10066562	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	aaagtttgtctttgatgataAaacaagacttgtagaccgag	9	5	1	4			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chrX:10066562A>C	ENST00000380861.4	+	8	1065	c.674A>C	c.(673-675)aAa>aCa	p.K225T	WWC3_ENST00000454666.1_Missense_Mutation_p.K225T	NM_015691.3	NP_056506.2	Q9ULE0	WWC3_HUMAN	WWC family member 3	225					negative regulation of hippo signaling (GO:0035331)|negative regulation of organ growth (GO:0046621)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)	cytosol (GO:0005829)	kinase binding (GO:0019900)|protein complex scaffold (GO:0032947)			NS(1)|breast(3)|endometrium(10)|kidney(1)|large_intestine(11)|lung(17)|ovary(5)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	52						TTTGATGATAAAACAAGACTT	0.353																																																0													78	73	75					X																	10066562		2203	4300	6503	SO:0001583	missense	55841			AK091936	CCDS14136.1	Xp22.32	2008-02-05			ENSG00000047644	ENSG00000047644		"WW, C2 and coiled-coil domain containing"	29237	protein-coding gene	gene with protein product						10574462	Standard	NM_015691		Approved	KIAA1280, BM042	uc004csx.4	Q9ULE0	OTTHUMG00000021123	ENST00000380861.4:c.674A>C	X.37:g.10066562A>C	ENSP00000370242:p.Lys225Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA96|Q659C1|Q9BTQ1	Missense_Mutation	SNP	ENST00000380861.4	37	CCDS14136.1	.	.	.	.	.	.	.	.	.	.	A	16.55	3.155337	0.57259	.	.	ENSG00000047644	ENST00000380861;ENST00000454666;ENST00000398613	T;T	0.05199	3.48;3.48	5.49	5.49	0.81192	.	0.217302	0.48286	D	0.000185	T	0.07954	0.0199	L	0.51422	1.61	0.39975	D	0.974846	P	0.39424	0.673	B	0.37144	0.242	T	0.38845	-0.9642	10	0.19590	T	0.45	-27.9526	14.6222	0.68594	1.0:0.0:0.0:0.0	.	225	Q9ULE0	WWC3_HUMAN	T	225	ENSP00000370242:K225T;ENSP00000399584:K225T	ENSP00000370242:K225T	K	+	2	0	WWC3	10026562	1.000000	0.71417	1.000000	0.80357	0.937000	0.57800	3.309000	0.51903	1.834000	0.53371	0.339000	0.21740	AAA		0.353	WWC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055725.1	NM_015691		C	10066562	A	C	10066562	3	2	690	1	0	0	0	0	1	0	0	0	17425	14	1	5	700	5	WWC3	23	10066562	Missense_Mutation	SNP	A	TCGA-MH-A55W-01A-11D-A26P-10		10066562	145203998	118	44887										
SSX5	6758	broad.mit.edu	37	chrX	48054486	48054486	+	Intron	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gtagagctttaatgctgctgGctggctctcttcccaccttc	9	13	1	1			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chrX:48054486G>T	ENST00000376923.1	-	2	69				SSX5_ENST00000347757.1_Intron|SSX5_ENST00000311798.1_Missense_Mutation_p.A50D			O60225	SSX5_HUMAN	synovial sarcoma, X breakpoint 5						regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleic acid binding (GO:0003676)			endometrium(3)|kidney(1)|large_intestine(6)|lung(7)|skin(1)	18						AATGCTGCTGGCTGGCTCTCT	0.522																																																0													68	59	62					X																	48054486		2203	4299	6502	SO:0001627	intron_variant	6758			BC016640	CCDS14288.1, CCDS14289.1	Xp11.23	2008-02-05			ENSG00000165583	ENSG00000165583			11339	protein-coding gene	gene with protein product		300327					Standard	NM_021015		Approved		uc004diz.1	O60225	OTTHUMG00000021471	ENST00000376923.1:c.70-196C>A	X.37:g.48054486G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JQ59|Q5JQ60|Q96AW3	Missense_Mutation	SNP	ENST00000376923.1	37	CCDS14289.1	.	.	.	.	.	.	.	.	.	.	N	7.535	0.659410	0.14645	.	.	ENSG00000165583	ENST00000311798	T	0.10288	2.89	1.18	0.234	0.15390	.	.	.	.	.	T	0.04724	0.0128	.	.	.	0.09310	N	1	B	0.23540	0.087	B	0.20384	0.029	T	0.45411	-0.9263	8	0.15066	T	0.55	.	3.1437	0.06464	0.3293:0.0:0.6707:0.0	.	50	O60225-2	.	D	50	ENSP00000312415:A50D	ENSP00000312415:A50D	A	-	2	0	SSX5	47939430	0.000000	0.05858	0.001000	0.08648	0.150000	0.21749	-0.180000	0.09754	0.017000	0.15025	0.171000	0.16805	GCC		0.522	SSX5-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000056466.1	NM_021015		T	48054486	G	T	48054486	1	4	690	0	1	0	0	0	0	0	0	0	15220	1203	42	4		4	SSX5	23	48054486	Intron	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	37987924	48054486	107216074	119	44888										
RLIM	51132	broad.mit.edu	37	chrX	73811995	73811995	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	gtatttaagattctacgaatGggaattctgatggtactgac	10	5	2	3			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chrX:73811995G>T	ENST00000332687.6	-	4	1373	c.1155C>A	c.(1153-1155)ccC>ccA	p.P385P	RLIM_ENST00000349225.2_Silent_p.P385P	NM_016120.3	NP_057204.2	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	385					negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|protein ubiquitination (GO:0016567)|random inactivation of X chromosome (GO:0060816)|transcription, DNA-templated (GO:0006351)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	ligase activity (GO:0016874)|transcription corepressor activity (GO:0003714)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|endometrium(3)|kidney(1)|large_intestine(3)|lung(14)|ovary(2)|prostate(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	30						TTCTACGAATGGGAATTCTGA	0.413																																					Esophageal Squamous(169;1899 1923 14997 18818 32118)											0													109	98	102					X																	73811995		2203	4300	6503	SO:0001819	synonymous_variant	51132			AF155109	CCDS14427.1	Xq13-q21	2013-01-09	2009-02-17	2009-02-17	ENSG00000131263	ENSG00000131263		"RING-type (C3HC4) zinc fingers"	13429	protein-coding gene	gene with protein product	"ring zinc finger protein NY-REN-43antigen", "LIM domain interacting ring finger protein"	300379	"ring finger protein 12"	RNF12		10508479	Standard	NM_016120		Approved	NY-REN-43, MGC15161	uc004ebw.3	Q9NVW2	OTTHUMG00000021859	ENST00000332687.6:c.1155C>A	X.37:g.73811995G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBQ1|D3DTE0|Q96D38|Q9Y598	Silent	SNP	ENST00000332687.6	37	CCDS14427.1																																																																																				0.413	RLIM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057268.1	NM_016120		T	73811995	G	T	73811995	2	4	690	1	0	0	0	0	0	0	0	1	13403	1335	47	4		4	RLIM	23	73811995	Silent	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	25757509	73811995	81458565	120	44889										
XIAP	331	bcgsc.ca	37	chrX	123020210	123020210	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	ttgcttctttgttttgggccGgaatcttaatattcgaagtg	10	6	2	0	rs368511826		TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chrX:123020210G>T	ENST00000371199.3	+	2	997	c.698G>T	c.(697-699)cGg>cTg	p.R233L	XIAP_ENST00000468691.1_Intron|XIAP_ENST00000434753.3_Missense_Mutation_p.R233L|XIAP_ENST00000355640.3_Missense_Mutation_p.R233L	NM_001167.3	NP_001158.2	P98170	XIAP_HUMAN	X-linked inhibitor of apoptosis	233					apoptotic process (GO:0006915)|cellular response to DNA damage stimulus (GO:0006974)|copper ion homeostasis (GO:0055070)|inhibition of cysteine-type endopeptidase activity involved in apoptotic process (GO:1990001)|intrinsic apoptotic signaling pathway (GO:0097193)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of neuron apoptotic process (GO:0043524)|neuron apoptotic process (GO:0051402)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of protein linear polyubiquitination (GO:1902530)|positive regulation of protein ubiquitination (GO:0031398)|protein ubiquitination (GO:0016567)|regulation of BMP signaling pathway (GO:0030510)|regulation of cell proliferation (GO:0042127)|regulation of inflammatory response (GO:0050727)|regulation of innate immune response (GO:0045088)|regulation of nucleotide-binding oligomerization domain containing signaling pathway (GO:0070424)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|protein complex (GO:0043234)	cysteine-type endopeptidase inhibitor activity involved in apoptotic process (GO:0043027)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)	p.R233Q(1)		breast(2)|endometrium(3)|kidney(3)|large_intestine(2)|lung(12)|ovary(3)	25						GTTTTGGGCCGGAATCTTAAT	0.403									X-linked Lymphoproliferative syndrome																																							1	Substitution - Missense(1)	endometrium(1)											110	102	104					X																	123020210		2203	4300	6503	SO:0001583	missense	331	Familial Cancer Database	XLP, Duncan syndrome, Familial Fatal Epstein-Barr Infection, incl. XLP2	U45880	CCDS14606.1	Xq25	2014-09-17	2008-03-04	2008-03-04	ENSG00000101966	ENSG00000101966		"Baculoviral IAP repeat containing"	592	protein-coding gene	gene with protein product		300079	"baculoviral IAP repeat-containing 4"	API3, BIRC4		8552191, 8654366	Standard	NM_001167		Approved	hILP	uc010nqu.3	P98170	OTTHUMG00000022336	ENST00000371199.3:c.698G>T	X.37:g.123020210G>T	ENSP00000360242:p.Arg233Leu	Somatic		WXS	Illumina HiSeq	Phase_1	D3DTF2|Q9NQ14	Missense_Mutation	SNP	ENST00000371199.3	37	CCDS14606.1	.	.	.	.	.	.	.	.	.	.	G	15.51	2.853544	0.51270	.	.	ENSG00000101966	ENST00000434753;ENST00000371199;ENST00000355640	T;T;T	0.70986	-0.53;-0.53;-0.53	5.81	5.81	0.92471	Baculoviral inhibition of apoptosis protein repeat (1);	0.000000	0.64402	D	0.000003	T	0.80523	0.4639	M	0.66939	2.045	0.45354	D	0.998347	D	0.71674	0.998	D	0.63597	0.916	T	0.80448	-0.1378	9	.	.	.	-30.5957	13.2865	0.60245	0.0768:0.0:0.9232:0.0	.	233	P98170	XIAP_HUMAN	L	233	ENSP00000395230:R233L;ENSP00000360242:R233L;ENSP00000347858:R233L	.	R	+	2	0	XIAP	122847891	1.000000	0.71417	0.997000	0.53966	0.604000	0.37047	3.016000	0.49607	2.461000	0.83175	0.508000	0.49915	CGG		0.403	XIAP-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058165.5	NM_001167		T	123020210	G	T	123020210	3	4	690	1	0	0	0	0	1	0	0	0	17440	1116	39	4	700	4	XIAP	23	123020210	Missense_Mutation	SNP	G	TCGA-MH-A55W-01A-11D-A26P-10	49208215	123020210	32250350	121	44890										
PNCK	139728	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	152938463	152938463	+	Splice_Site	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0655737704918033	8	1	1.15032679738562	1.22222222222222	1.11111111111111	0.637186343068696	1	0	cacacgcgcgcgcacactcaCgagccgagcctctcgcggat	11	18	2	0			TCGA-MH-A55W-01A-11D-A26P-10	TCGA-MH-A55W-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2425a532-f562-423a-88f5-228642f53875	38fa8b8f-1a31-4331-9acc-15e845c9a9b8	g.chrX:152938463C>G	ENST00000370150.1	-	2	247		c.e2+1		PNCK_ENST00000370142.1_Splice_Site|PNCK_ENST00000340888.3_Splice_Site|PNCK_ENST00000475172.1_Splice_Site|PNCK_ENST00000370145.4_Splice_Site|PNCK_ENST00000447676.2_Splice_Site|PNCK_ENST00000393831.2_Splice_Site			Q6P2M8	KCC1B_HUMAN	pregnancy up-regulated nonubiquitous CaM kinase							cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|calmodulin-dependent protein kinase activity (GO:0004683)			breast(2)|lung(3)|skin(1)	6	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					cgcacactcacGAGCCGAGCC	0.592																																																0													47	32	37					X																	152938463		2201	4288	6489	SO:0001630	splice_region_variant	139728			BC033746	CCDS35503.2, CCDS48189.1	Xq28	2013-10-14	2013-10-14		ENSG00000130822	ENSG00000130822			13415	protein-coding gene	gene with protein product		300680	"pregnancy upregulated non-ubiquitously expressed CaM kinase", "pregnancy up-regulated non-ubiquitously expressed CaM kinase"			12477932	Standard	NM_001039582		Approved	MGC45419, CaMK1b	uc011myu.2	Q6P2M8	OTTHUMG00000024216	ENST00000370150.1:c.68+1G>C	X.37:g.152938463C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DJR8|B4E1A6|B7WPG0|D3DWU7|Q8N4R0	Splice_Site	SNP	ENST00000370150.1	37																																																																																					0.592	PNCK-001	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000061044.2	NM_198452	Intron	G	152938463	C	G	152938463	5	3	690	1	0	0	0	0	0	0	1	0	12152	550	19	4	1002	4	PNCK	23	152938463	Splice_Site	SNP	C	TCGA-MH-A55W-01A-11D-A26P-10	29918253	152938463	2332097	122	44891										
UBR4	23352	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	19504023	19504023	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	atcaaagatgagaaggaggcGagccaagataagcggcacga	14	7	1	3			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr1:19504023G>C	ENST00000375254.3	-	19	2596	c.2569C>G	c.(2569-2571)Cgc>Ggc	p.R857G	UBR4_ENST00000375217.2_Missense_Mutation_p.R857G|UBR4_ENST00000375226.2_Missense_Mutation_p.R857G|UBR4_ENST00000375267.2_Missense_Mutation_p.R857G	NM_020765.2	NP_065816.2	Q5T4S7	UBR4_HUMAN	ubiquitin protein ligase E3 component n-recognin 4	857					protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|viral process (GO:0016032)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(7)|central_nervous_system(1)|cervix(2)|endometrium(23)|kidney(25)|large_intestine(25)|liver(2)|lung(47)|ovary(10)|pancreas(2)|prostate(7)|skin(5)|stomach(5)|upper_aerodigestive_tract(4)|urinary_tract(6)	171		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		AGAAGGAGGCGAGCCAAGATA	0.498																																																0													133	126	128					1																	19504023		2203	4300	6503	SO:0001583	missense	23352			AF348492	CCDS189.1	1p36.13	2008-06-23	2007-06-19	2007-06-19	ENSG00000127481	ENSG00000127481		"Ubiquitin protein ligase E3 component n-recognins"	30313	protein-coding gene	gene with protein product		609890	"zinc finger, UBR1 type 1"	ZUBR1		14702039, 10718198, 16055722	Standard	XM_005245802		Approved	KIAA1307, KIAA0462, RBAF600	uc001bbi.3	Q5T4S7	OTTHUMG00000002498	ENST00000375254.3:c.2569C>G	1.37:g.19504023G>C	ENSP00000364403:p.Arg857Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MPT2|A8MQ33|A8MQB1|O60646|O75050|Q4QRK5|Q5T4S8|Q5T4S9|Q5TBN8|Q5TBP2|Q6DKH8|Q6P4A4|Q7L8P7|Q8IXJ4|Q8TDN5|Q8WV67|Q9HA46|Q9P2N9|Q9UG82	Missense_Mutation	SNP	ENST00000375254.3	37	CCDS189.1	.	.	.	.	.	.	.	.	.	.	G	28.3	4.909893	0.92107	.	.	ENSG00000127481	ENST00000375254;ENST00000375267;ENST00000375217;ENST00000375226;ENST00000419533	T;T;T;T	0.44083	0.93;0.93;0.93;0.93	5.73	5.73	0.89815	.	0.000000	0.85682	D	0.000000	T	0.60728	0.2291	L	0.50333	1.59	0.80722	D	1	D	0.60160	0.987	D	0.67725	0.953	T	0.61043	-0.7142	10	0.87932	D	0	.	19.4792	0.95002	0.0:0.0:1.0:0.0	.	857	Q5T4S7	UBR4_HUMAN	G	857;857;857;857;73	ENSP00000364403:R857G;ENSP00000364416:R857G;ENSP00000364365:R857G;ENSP00000364374:R857G	ENSP00000364365:R857G	R	-	1	0	UBR4	19376610	1.000000	0.71417	1.000000	0.80357	0.951000	0.60555	9.238000	0.95380	2.713000	0.92767	0.655000	0.94253	CGC		0.498	UBR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000007085.1	NM_020765		C	19504023	G	C	19504023	3	2	691	1	0	0	0	0	1	0	0	0	16916	1058	37	4	13334	4	UBR4	1	19504023	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10		19504023	229746598	1	44892										
GJB5	2709	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	35223633	35223633	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ggtcatcacccccacggtacCacctcttcctgcaaacaaga	6	17	3	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr1:35223633C>T	ENST00000338513.1	+	2	875	c.702C>T	c.(700-702)acC>acT	p.T234T	GJB4_ENST00000339480.1_5'Flank	NM_005268.3	NP_005259.1	O95377	CXB5_HUMAN	gap junction protein, beta 5, 31.1kDa	234					cell communication (GO:0007154)|epidermis development (GO:0008544)|labyrinthine layer morphogenesis (GO:0060713)|spongiotrophoblast differentiation (GO:0060708)	connexon complex (GO:0005922)|integral component of membrane (GO:0016021)				endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|ovary(1)|skin(1)|stomach(1)	10		Myeloproliferative disorder(586;0.0393)				CCCACGGTACCACCTCTTCCT	0.572																																																0													156	129	138					1																	35223633		2203	4300	6503	SO:0001819	synonymous_variant	2709			BC004379	CCDS382.1	1p34.3	2008-05-14	2007-11-06		ENSG00000189280	ENSG00000189280		"Ion channels / Gap junction proteins (connexins)"	4287	protein-coding gene	gene with protein product	"connexin 31.1"	604493	"gap junction protein, beta 5 (connexin 31.1)", "gap junction protein, beta 5"			9843209	Standard	NM_005268		Approved	CX31.1	uc001bxu.4	O95377	OTTHUMG00000004053	ENST00000338513.1:c.702C>T	1.37:g.35223633C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UPA3	Silent	SNP	ENST00000338513.1	37	CCDS382.1																																																																																				0.572	GJB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000011561.1	NM_005268		T	35223633	C	T	35223633	2	4	691	1	0	0	0	0	0	0	0	1	6418	581	21	2		2	GJB5	1	35223633	Silent	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	15719610	35223633	214026988	2	44893										
GNL2	29889	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	38040324	38040324	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gaaagtcctcagcattctccCaagaatcaatcttgtatgtt	6	10	4	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr1:38040324C>G	ENST00000373062.3	-	11	1342	c.1244G>C	c.(1243-1245)tGg>tCg	p.W415S		NM_013285.2	NP_037417.1	Q13823	NOG2_HUMAN	guanine nucleotide binding protein-like 2 (nucleolar)	415					GTP catabolic process (GO:0006184)|ribosome biogenesis (GO:0042254)	membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(8)|ovary(2)|prostate(3)|skin(1)|urinary_tract(1)	30		Myeloproliferative disorder(586;0.0393)				AGCATTCTCCCAAGAATCAAT	0.418																																																0													92	85	88					1																	38040324		2203	4300	6503	SO:0001583	missense	29889			L05425	CCDS421.1	1p34	2008-02-05			ENSG00000134697	ENSG00000134697			29925	protein-coding gene	gene with protein product		609365				8822211	Standard	NM_013285		Approved	Ngp-1, HUMAUANTIG	uc001cbk.3	Q13823	OTTHUMG00000004322	ENST00000373062.3:c.1244G>C	1.37:g.38040324C>G	ENSP00000362153:p.Trp415Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BWN7	Missense_Mutation	SNP	ENST00000373062.3	37	CCDS421.1	.	.	.	.	.	.	.	.	.	.	C	33	5.223863	0.95139	.	.	ENSG00000134697	ENST00000373062	T	0.12774	2.65	5.87	5.87	0.94306	GTP-binding protein, orthogonal bundle domain (1);	0.000000	0.85682	D	0.000000	T	0.45438	0.1342	M	0.86420	2.815	0.80722	D	1	D	0.63046	0.992	D	0.66497	0.944	T	0.44143	-0.9347	10	0.72032	D	0.01	-11.3487	20.5827	0.99408	0.0:1.0:0.0:0.0	.	415	Q13823	NOG2_HUMAN	S	415	ENSP00000362153:W415S	ENSP00000362153:W415S	W	-	2	0	GNL2	37812911	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.786000	0.85741	2.941000	0.99782	0.655000	0.94253	TGG		0.418	GNL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012478.1	NM_013285		G	38040324	C	G	38040324	3	3	691	1	0	0	0	0	1	0	0	0	6543	595	21	4	975	4	GNL2	1	38040324	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	2816691	38040324	211210297	3	44894										
ATP1A1	476	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	116941337	116941337	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tatggggattgctggctcagAtgtgtccaagcaagctgctg	14	8	1	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr1:116941337A>G	ENST00000295598.5	+	16	2471	c.2219A>G	c.(2218-2220)gAt>gGt	p.D740G	ATP1A1_ENST00000369496.4_Missense_Mutation_p.D709G|ATP1A1_ENST00000537345.1_Missense_Mutation_p.D740G	NM_000701.7	NP_000692.2	P05023	AT1A1_HUMAN	ATPase, Na+/K+ transporting, alpha 1 polypeptide	740					ATP biosynthetic process (GO:0006754)|cardiac muscle contraction (GO:0060048)|cell communication by electrical coupling involved in cardiac conduction (GO:0086064)|cellular potassium ion homeostasis (GO:0030007)|cellular response to mechanical stimulus (GO:0071260)|cellular response to steroid hormone stimulus (GO:0071383)|cellular sodium ion homeostasis (GO:0006883)|ion transmembrane transport (GO:0034220)|membrane hyperpolarization (GO:0060081)|membrane repolarization (GO:0086009)|membrane repolarization during cardiac muscle cell action potential (GO:0086013)|negative regulation of glucocorticoid biosynthetic process (GO:0031947)|negative regulation of heart contraction (GO:0045822)|positive regulation of heart contraction (GO:0045823)|positive regulation of striated muscle contraction (GO:0045989)|potassium ion import (GO:0010107)|regulation of blood pressure (GO:0008217)|regulation of cardiac muscle cell contraction (GO:0086004)|regulation of sodium ion transport (GO:0002028)|regulation of the force of heart contraction (GO:0002026)|relaxation of cardiac muscle (GO:0055119)|response to drug (GO:0042493)|sodium ion export from cell (GO:0036376)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|basolateral plasma membrane (GO:0016323)|caveola (GO:0005901)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|sarcolemma (GO:0042383)|sodium:potassium-exchanging ATPase complex (GO:0005890)|T-tubule (GO:0030315)|vesicle (GO:0031982)	ADP binding (GO:0043531)|ATP binding (GO:0005524)|chaperone binding (GO:0051087)|phosphatase activity (GO:0016791)|potassium ion binding (GO:0030955)|sodium ion binding (GO:0031402)|sodium:potassium-exchanging ATPase activity (GO:0005391)|steroid hormone binding (GO:1990239)			NS(2)|breast(2)|cervix(3)|endometrium(2)|kidney(5)|large_intestine(9)|lung(17)|ovary(1)|prostate(1)|skin(3)|stomach(1)|urinary_tract(1)	47	Lung SC(450;0.225)	all_cancers(81;1.28e-06)|all_epithelial(167;3.48e-07)|all_lung(203;2.64e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0164)|LUSC - Lung squamous cell carcinoma(189;0.0548)|Colorectal(144;0.0825)|COAD - Colon adenocarcinoma(174;0.127)|all cancers(265;0.24)	Acetyldigitoxin(DB00511)|Almitrine(DB01430)|Aluminium(DB01370)|Bepridil(DB01244)|Bretylium(DB01158)|Ciclopirox(DB01188)|Deslanoside(DB01078)|Diazoxide(DB01119)|Digitoxin(DB01396)|Digoxin(DB00390)|Ethacrynic acid(DB00903)|Hydroflumethiazide(DB00774)|Ouabain(DB01092)|Trichlormethiazide(DB01021)	GCTGGCTCAGATGTGTCCAAG	0.493																																																0													201	191	194					1																	116941337		2203	4300	6503	SO:0001583	missense	476			D00099	CCDS887.1, CCDS53351.1, CCDS53352.1	1p13	2012-10-22			ENSG00000163399	ENSG00000163399	3.6.3.9	"ATPases / P-type"	799	protein-coding gene	gene with protein product	"sodium/potassium-transporting ATPase subunit alpha-1", "sodium pump subunit alpha-1", "sodium-potassium ATPase catalytic subunit alpha-1"	182310					Standard	NM_000701		Approved		uc001ege.3	P05023	OTTHUMG00000012109	ENST00000295598.5:c.2219A>G	1.37:g.116941337A>G	ENSP00000295598:p.Asp740Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBR6|B7Z2T5|B7Z3U6|F5H3A1|Q16689|Q6LDM4|Q9UCN1|Q9UJ20|Q9UJ21	Missense_Mutation	SNP	ENST00000295598.5	37	CCDS887.1	.	.	.	.	.	.	.	.	.	.	A	27.1	4.803837	0.90623	.	.	ENSG00000163399	ENST00000295598;ENST00000537345;ENST00000369496	D;D;D	0.83419	-1.72;-1.72;-1.72	5.23	5.23	0.72850	HAD-like domain (1);ATPase, P-type,  transmembrane domain (1);	0.000000	0.85682	D	0.000000	D	0.92622	0.7656	H	0.94847	3.59	0.80722	D	1	D;D	0.89917	1.0;0.995	D;D	0.97110	1.0;0.999	D	0.94580	0.7778	10	0.87932	D	0	.	15.2911	0.73868	1.0:0.0:0.0:0.0	.	740;740	F5H3A1;P05023	.;AT1A1_HUMAN	G	740;740;709	ENSP00000295598:D740G;ENSP00000445306:D740G;ENSP00000358508:D709G	ENSP00000295598:D740G	D	+	2	0	ATP1A1	116742860	1.000000	0.71417	0.550000	0.28217	0.991000	0.79684	9.139000	0.94554	2.195000	0.70347	0.533000	0.62120	GAT		0.493	ATP1A1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000033481.5	NM_001160233		G	116941337	A	G	116941337	3	3	691	1	0	0	0	0	1	0	0	0	1128	333	12	3	2297	3	ATP1A1	1	116941337	Missense_Mutation	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	78901013	116941337	132309284	4	44895										
LCE2A	353139	hgsc.bcm.edu	37	chr1	152671534	152671534	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ccagctctgggggctgctgcGgctccagctctgggggctgc	17	14	2	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr1:152671534G>A	ENST00000368779.1	+	2	208	c.157G>A	c.(157-159)Ggc>Agc	p.G53S		NM_178428.3	NP_848515.1	Q5TA79	LCE2A_HUMAN	late cornified envelope 2A	53	Cys-rich.				keratinization (GO:0031424)			p.C51_G64delCCGSSSGGCCSSGG(2)		breast(1)|large_intestine(1)|liver(2)|lung(4)	8	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGGCTGCTGCGGCTCCAGCTC	0.692																																																2	Deletion - In frame(2)	liver(2)											48	61	56					1																	152671534		2203	4299	6502	SO:0001583	missense	353139				CCDS1021.1	1q21.3	2008-02-05			ENSG00000187173	ENSG00000187173		"Late cornified envelopes"	29469	protein-coding gene	gene with protein product		612609				11698679	Standard	NM_178428		Approved	LEP9	uc001faj.3	Q5TA79	OTTHUMG00000012392	ENST00000368779.1:c.157G>A	1.37:g.152671534G>A	ENSP00000357768:p.Gly53Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A4QMZ9	Missense_Mutation	SNP	ENST00000368779.1	37	CCDS1021.1	.	.	.	.	.	.	.	.	.	.	-	6.374	0.437046	0.12104	.	.	ENSG00000187173	ENST00000368779	T	0.03717	3.83	3.72	2.79	0.32731	.	.	.	.	.	T	0.01222	0.0040	L	0.51853	1.615	0.09310	N	1	P	0.39964	0.697	B	0.29353	0.101	T	0.47394	-0.9121	9	0.87932	D	0	.	6.8388	0.23951	0.1374:0.0:0.8626:0.0	.	53	Q5TA79	LCE2A_HUMAN	S	53	ENSP00000357768:G53S	ENSP00000357768:G53S	G	+	1	0	LCE2A	150938158	0.982000	0.34865	0.111000	0.21465	0.270000	0.26580	0.561000	0.23515	0.525000	0.28522	0.580000	0.79431	GGC		0.692	LCE2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034512.1	NM_178428		A	152671534	G	A	152671534	3	1	691	1	0	0	0	0	1	0	0	0	8672	1116	39	1	159	1	LCE2A	1	152671534	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	35730197	152671534	96579087	5	44896										
OR6Y1	391112	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	158517180	158517180	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	aggtggagaatgccttttggCggccctgagcagaagggatc	16	8	0	3			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr1:158517180C>T	ENST00000302617.3	-	1	715	c.716G>A	c.(715-717)cGc>cAc	p.R239H		NM_001005189.1	NP_001005189.1	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y, member 1	239						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|kidney(1)|large_intestine(5)|lung(16)|ovary(1)|prostate(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	30	all_hematologic(112;0.0378)					TGCCTTTTGGCGGCCCTGAGC	0.522																																																0													137	136	137					1																	158517180		2202	4300	6502	SO:0001583	missense	391112			BK004192	CCDS30899.1	1q23.1	2012-08-09			ENSG00000197532	ENSG00000197532		"GPCR / Class A : Olfactory receptors"	14823	protein-coding gene	gene with protein product				OR6Y2			Standard	NM_001005189		Approved		uc010pil.2	Q8NGX8	OTTHUMG00000019629	ENST00000302617.3:c.716G>A	1.37:g.158517180C>T	ENSP00000304807:p.Arg239His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFS0	Missense_Mutation	SNP	ENST00000302617.3	37	CCDS30899.1	.	.	.	.	.	.	.	.	.	.	C	17.84	3.487953	0.64074	.	.	ENSG00000197532	ENST00000302617	T	0.00333	8.07	5.34	4.41	0.53225	GPCR, rhodopsin-like superfamily (1);	0.000000	0.42964	D	0.000631	T	0.00524	0.0017	M	0.90759	3.145	0.09310	N	1	D	0.89917	1.0	D	0.81914	0.995	T	0.30297	-0.9983	10	0.87932	D	0	.	13.4384	0.61096	0.0:0.9214:0.0:0.0786	.	239	Q8NGX8	OR6Y1_HUMAN	H	239	ENSP00000304807:R239H	ENSP00000304807:R239H	R	-	2	0	OR6Y1	156783804	0.003000	0.15002	0.951000	0.38953	0.889000	0.51656	1.500000	0.35682	2.763000	0.94921	0.655000	0.94253	CGC		0.522	OR6Y1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051844.1	NM_001005189		T	158517180	C	T	158517180	3	4	691	1	0	0	0	0	1	0	0	0	11220	768	27	1	263	1	OR6Y1	1	158517180	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	5845646	158517180	90733441	6	44897										
BAT2L2	23215	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	171506567	171506567	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ctatcctcatgctgagcctcAacaagcaactactcccaaag	5	15	2	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr1:171506567A>G	ENST00000338920.4	+	15	2690	c.2453A>G	c.(2452-2454)cAa>cGa	p.Q818R	PRRC2C_ENST00000367742.3_Missense_Mutation_p.Q820R|PRRC2C_ENST00000392078.3_Missense_Mutation_p.Q820R|PRRC2C_ENST00000426496.2_Missense_Mutation_p.Q818R	NM_015172.3	NP_055987.2	Q9Y520	PRC2C_HUMAN	proline-rich coiled-coil 2C	818					hematopoietic progenitor cell differentiation (GO:0002244)	membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)										GCTGAGCCTCAACAAGCAACT	0.403																																																0													53	43	47					1																	171506567		2203	4299	6502	SO:0001583	missense	23215			AL096857	CCDS1296.2	1q24.3	2012-07-18	2010-12-09	2010-12-09	ENSG00000117523	ENSG00000117523			24903	protein-coding gene	gene with protein product			"BAT2 domain containing 1", "HLA-B associated transcript 2-like 2"	BAT2D1, BAT2L2		10470851, 12443540	Standard	NM_015172		Approved	KIAA1096, XTP2	uc010pmg.2	Q9Y520	OTTHUMG00000034665	ENST00000338920.4:c.2453A>G	1.37:g.171506567A>G	ENSP00000343629:p.Gln818Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q05DM8|Q49A39|Q6PD54|Q9H2N2|Q9HA05|Q9NSM8|Q9NXL3|Q9UF29|Q9UPQ6	Missense_Mutation	SNP	ENST00000338920.4	37	CCDS1296.2	.	.	.	.	.	.	.	.	.	.	A	10.98	1.503319	0.26949	.	.	ENSG00000117523	ENST00000392078;ENST00000451306;ENST00000426496;ENST00000367742;ENST00000338920;ENST00000392080;ENST00000483654	T;T;T;T	0.07021	3.23;3.23;3.23;3.23	5.42	3.01	0.34805	.	0.156139	0.29631	N	0.011615	T	0.02494	0.0076	L	0.32530	0.975	0.35787	D	0.822122	P	0.42409	0.779	B	0.38500	0.275	T	0.52983	-0.8502	10	0.21014	T	0.42	.	12.7484	0.57293	0.6068:0.3932:0.0:0.0	.	818	Q9Y520-4	.	R	820;819;818;820;818;575;577	ENSP00000375928:Q820R;ENSP00000410219:Q818R;ENSP00000356716:Q820R;ENSP00000343629:Q818R	ENSP00000343629:Q818R	Q	+	2	0	PRRC2C	169773191	0.998000	0.40836	0.985000	0.45067	0.912000	0.54170	1.913000	0.39956	0.336000	0.23639	-0.320000	0.08662	CAA		0.403	PRRC2C-010	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000314826.4	NM_015172		G	171506567	A	G	171506567	3	3	691	1	0	0	0	0	1	0	0	0	1321	130	5	3	2507	3	BAT2L2	1	171506567	Missense_Mutation	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	12989387	171506567	77744054	7	44898										
FAM129A	116496	ucsc.edu	37	chr1	184767284	184767284	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tttcaacgtgaatcatattgGtatgatctgcaaagatgaac	8	6	3	4			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr1:184767284G>A	ENST00000367511.3	-	13	1788	c.1595C>T	c.(1594-1596)aCc>aTc	p.T532I	FAM129A_ENST00000487074.1_5'UTR	NM_052966.2	NP_443198.1	Q9BZQ8	NIBAN_HUMAN	family with sequence similarity 129, member A	532					negative regulation of protein phosphorylation (GO:0001933)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of translation (GO:0045727)|response to endoplasmic reticulum stress (GO:0034976)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|plasma membrane (GO:0005886)				autonomic_ganglia(1)|breast(1)|cervix(2)|endometrium(4)|large_intestine(6)|liver(1)|lung(22)|ovary(3)|skin(3)|upper_aerodigestive_tract(2)	45						AATCATATTGGTATGATCTGC	0.408																																																0													101	93	96					1																	184767284		2203	4300	6503	SO:0001583	missense	116496			AF288391	CCDS1364.1	1q25	2008-10-08	2006-11-23	2006-11-23	ENSG00000135842	ENSG00000135842			16784	protein-coding gene	gene with protein product	"cell growth inhibiting protein 39"		"chromosome 1 open reading frame 24"	C1orf24		15085203, 16444351	Standard	NM_052966		Approved	NIBAN, GIG39	uc001gra.4	Q9BZQ8	OTTHUMG00000035388	ENST00000367511.3:c.1595C>T	1.37:g.184767284G>A	ENSP00000356481:p.Thr532Ile	Somatic		WXS	Illumina HiSeq		Q2TTR2|Q5TEM8|Q8TEI5|Q9H593|Q9H9Y8|Q9HCB9	Missense_Mutation	SNP	ENST00000367511.3	37	CCDS1364.1	.	.	.	.	.	.	.	.	.	.	G	16.13	3.035316	0.54896	.	.	ENSG00000135842	ENST00000367511	T	0.11604	2.76	5.37	5.37	0.77165	.	0.232950	0.42821	D	0.000646	T	0.26991	0.0661	L	0.60455	1.87	0.42181	D	0.991681	P;D	0.71674	0.815;0.998	P;D	0.66351	0.49;0.943	T	0.00406	-1.1759	10	0.59425	D	0.04	-14.0264	13.185	0.59675	0.0:0.0:0.8412:0.1588	.	63;532	Q5TEY9;Q9BZQ8	.;NIBAN_HUMAN	I	532	ENSP00000356481:T532I	ENSP00000356481:T532I	T	-	2	0	FAM129A	183033907	1.000000	0.71417	0.872000	0.34217	0.960000	0.62799	6.237000	0.72345	2.512000	0.84698	0.655000	0.94253	ACC		0.408	FAM129A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085786.1			A	184767284	G	A	184767284	3	1	691	1	0	0	0	0	1	0	0	0	5440	1261	44	2	1199	2	FAM129A	1	184767284	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	13260717	184767284	64483337	8	44899										
TMEM206	55248	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	212548558	212548558	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ttggactttctggatgaaagGatctttccattcaaagacca	8	8	3	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr1:212548558G>A	ENST00000261455.4	-	7	1005	c.868C>T	c.(868-870)Cct>Tct	p.P290S	TMEM206_ENST00000535273.1_Missense_Mutation_p.P351S	NM_018252.2	NP_060722.2	Q9H813	TM206_HUMAN	transmembrane protein 206	290						cell surface (GO:0009986)|integral component of membrane (GO:0016021)				breast(1)|kidney(3)|large_intestine(4)|lung(6)|prostate(1)|skin(2)	17				all cancers(67;0.012)|OV - Ovarian serous cystadenocarcinoma(81;0.0121)|GBM - Glioblastoma multiforme(131;0.0377)|Epithelial(68;0.148)		TGGATGAAAGGATCTTTCCAT	0.318																																																0													79	77	78					1																	212548558		2203	4300	6503	SO:0001583	missense	55248			AK024066	CCDS1504.1, CCDS55687.1	1q32.3	2008-02-05	2008-01-17	2008-01-17	ENSG00000065600	ENSG00000065600			25593	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 75"	C1orf75		12477932	Standard	NM_018252		Approved	FLJ10874	uc010pte.2	Q9H813	OTTHUMG00000036751	ENST00000261455.4:c.868C>T	1.37:g.212548558G>A	ENSP00000261455:p.Pro290Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z4D6|Q6IA87|Q9NV85	Missense_Mutation	SNP	ENST00000261455.4	37	CCDS1504.1	.	.	.	.	.	.	.	.	.	.	G	26.6	4.751203	0.89753	.	.	ENSG00000065600	ENST00000261455;ENST00000535273	.	.	.	5.87	5.87	0.94306	.	0.000000	0.85682	D	0.000000	T	0.72953	0.3525	L	0.34521	1.04	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.74023	0.982;0.946	T	0.73855	-0.3851	9	0.87932	D	0	-7.061	20.5827	0.99408	0.0:0.0:1.0:0.0	.	351;290	B7Z4D6;Q9H813	.;TM206_HUMAN	S	290;351	.	ENSP00000261455:P290S	P	-	1	0	TMEM206	210615181	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	5.190000	0.65104	2.941000	0.99782	0.655000	0.94253	CCT		0.318	TMEM206-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089306.1	NM_018252		A	212548558	G	A	212548558	3	1	691	1	0	0	0	0	1	0	0	0	16143	1174	41	2	192	2	TMEM206	1	212548558	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	27781274	212548558	36702063	9	44900										
OBSCN	84033	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	228469852	228469852	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ctgcaccaagtgatgccgggGaggtggtcttctctgtgcgg	16	10	2	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr1:228469852G>T	ENST00000422127.1	+	31	8460	c.8416G>T	c.(8416-8418)Gag>Tag	p.E2806*	OBSCN_ENST00000570156.2_Nonsense_Mutation_p.E3235*|OBSCN_ENST00000359599.6_Nonsense_Mutation_p.E1653*|OBSCN_ENST00000284548.11_Nonsense_Mutation_p.E2806*|OBSCN_ENST00000366709.4_5'UTR|OBSCN_ENST00000366707.4_5'UTR	NM_001098623.2	NP_001092093.2	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF	2806	Ig-like 27.				apoptotic signaling pathway (GO:0097190)|multicellular organismal development (GO:0007275)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of apoptotic process (GO:0043065)|protein localization to M-band (GO:0036309)|regulation of small GTPase mediated signal transduction (GO:0051056)|sarcomere organization (GO:0045214)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|M band (GO:0031430)|myofibril (GO:0030016)|Z disc (GO:0030018)	ankyrin binding (GO:0030506)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)|structural constituent of muscle (GO:0008307)|titin binding (GO:0031432)			NS(2)|breast(7)|central_nervous_system(5)|cervix(2)|endometrium(30)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(37)|lung(89)|ovary(8)|pancreas(3)|prostate(13)|skin(6)|stomach(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	223		Prostate(94;0.0405)				TGATGCCGGGGAGGTGGTCTT	0.647																																																0													32	38	36					1																	228469852		1989	4156	6145	SO:0001587	stop_gained	84033			AJ002535	CCDS1570.2, CCDS58065.1, CCDS59204.1	1q42	2014-09-17			ENSG00000154358	ENSG00000154358		"Rho guanine nucleotide exchange factors", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	15719	protein-coding gene	gene with protein product		608616				11448995, 11814696	Standard	NM_001098623		Approved	KIAA1556, UNC89, KIAA1639, ARHGEF30	uc001hsq.2	Q5VST9	OTTHUMG00000039772	ENST00000422127.1:c.8416G>T	1.37:g.228469852G>T	ENSP00000409493:p.Glu2806*	Somatic		WXS	Illumina HiSeq	Phase_I	Q2A664|Q5T7G8|Q5T7G9|Q5VSU2|Q86YC7|Q8NHN0|Q8NHN1|Q8NHN2|Q8NHN3|Q8NHN4|Q8NHN5|Q8NHN6|Q8NHN7|Q8NHN8|Q8NHN9|Q96AA2|Q9HCD3|Q9HCL6	Nonsense_Mutation	SNP	ENST00000422127.1	37	CCDS58065.1	.	.	.	.	.	.	.	.	.	.	G	17.68	3.448476	0.63178	.	.	ENSG00000154358	ENST00000284548;ENST00000422127;ENST00000359599;ENST00000366706;ENST00000366704	.	.	.	4.21	4.21	0.49690	.	0.000000	0.64402	D	0.000003	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.09843	T	0.71	.	16.9495	0.86240	0.0:0.0:1.0:0.0	.	.	.	.	X	2806;2806;1653;505;212	.	ENSP00000284548:E2806X	E	+	1	0	OBSCN	226536475	1.000000	0.71417	0.992000	0.48379	0.321000	0.28281	9.350000	0.97070	2.063000	0.61619	0.462000	0.41574	GAG		0.647	OBSCN-204	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_052843		T	228469852	G	T	228469852	4	4	691	1	0	0	0	0	0	1	0	0	10819	1175	41	4	8534	4	OBSCN	1	228469852	Nonsense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	15921294	228469852	20780769	10	44901										
LYST	1130	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	235884164	235884164	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ccatattccagaagattaggGaggttatttgtgagtatatt	10	4	0	3			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr1:235884164G>A	ENST00000389794.3	-	40	9531	c.9357C>T	c.(9355-9357)ctC>ctT	p.L3119L	LYST_ENST00000389793.2_Silent_p.L3119L|LYST_ENST00000473037.1_5'UTR			Q99698	LYST_HUMAN	lysosomal trafficking regulator	3119					blood coagulation (GO:0007596)|defense response to bacterium (GO:0042742)|defense response to protozoan (GO:0042832)|defense response to virus (GO:0051607)|endosome to lysosome transport via multivesicular body sorting pathway (GO:0032510)|leukocyte chemotaxis (GO:0030595)|lysosome organization (GO:0007040)|mast cell secretory granule organization (GO:0033364)|melanosome organization (GO:0032438)|microtubule-based process (GO:0007017)|natural killer cell mediated cytotoxicity (GO:0042267)|neutrophil mediated immunity (GO:0002446)|phospholipid homeostasis (GO:0055091)|phospholipid metabolic process (GO:0006644)|pigmentation (GO:0043473)|positive regulation of natural killer cell activation (GO:0032816)|response to drug (GO:0042493)|secretion of lysosomal enzymes (GO:0033299)|T cell mediated immunity (GO:0002456)	cytosol (GO:0005829)|microtubule cytoskeleton (GO:0015630)				NS(1)|breast(13)|central_nervous_system(3)|cervix(3)|endometrium(17)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(27)|lung(66)|ovary(7)|pancreas(1)|prostate(4)|skin(4)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	162	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)			GAAGATTAGGGAGGTTATTTG	0.328																																																0													121	119	120					1																	235884164		2203	4300	6503	SO:0001819	synonymous_variant	1130			U70064	CCDS31062.1	1q42.1-q42.2	2014-09-17	2004-12-09	2004-12-10	ENSG00000143669	ENSG00000143669		"WD repeat domain containing"	1968	protein-coding gene	gene with protein product		606897	"Chediak-Higashi syndrome 1"	CHS1		8717042, 8896560	Standard	NM_000081		Approved	CHS	uc001hxj.3	Q99698	OTTHUMG00000040527	ENST00000389794.3:c.9357C>T	1.37:g.235884164G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O43274|Q5T2U9|Q96TD7|Q96TD8|Q99709|Q9H133	Silent	SNP	ENST00000389794.3	37	CCDS31062.1																																																																																				0.328	LYST-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097533.5			A	235884164	G	A	235884164	2	1	691	1	0	0	0	0	0	0	0	1	9135	1161	41	2		2	LYST	1	235884164	Silent	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	7414312	235884164	13366457	11	44902										
FAM110C	642273	hgsc.bcm.edu;broad.mit.edu	37	chr2	45688	45688	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ccgcggtgaagttctccctcCccagggcctccaccacctcg	9	20	1	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:45688C>T	ENST00000327669.4	-	1	697	c.698G>A	c.(697-699)gGg>gAg	p.G233E	FAM110C_ENST00000460464.1_5'Flank	NM_001077710.2	NP_001071178.2	Q1W6H9	F110C_HUMAN	family with sequence similarity 110, member C	233					positive regulation of cell migration (GO:0030335)|positive regulation of protein kinase B signaling (GO:0051897)|regulation of cell projection assembly (GO:0060491)	cell cortex (GO:0005938)|microtubule (GO:0005874)|nucleus (GO:0005634)	alpha-tubulin binding (GO:0043014)			central_nervous_system(1)|kidney(1)|lung(2)	4	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.00221)		all cancers(51;0.000815)|Epithelial(75;0.00379)|OV - Ovarian serous cystadenocarcinoma(76;0.0127)|GBM - Glioblastoma multiforme(21;0.232)		GTTCTCCCTCCCCAGGGCCTC	0.682																																																0													12	15	14					2																	45688		2074	4200	6274	SO:0001583	missense	642273			DQ431183	CCDS42645.1	2p25.3	2011-12-01			ENSG00000184731	ENSG00000184731			33340	protein-coding gene	gene with protein product		611395				17499476, 19698782	Standard	NM_001077710		Approved		uc010yim.2	Q1W6H9	OTTHUMG00000151321	ENST00000327669.4:c.698G>A	2.37:g.45688C>T	ENSP00000328347:p.Gly233Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000327669.4	37	CCDS42645.1	.	.	.	.	.	.	.	.	.	.	C	18.41	3.618544	0.66787	.	.	ENSG00000184731	ENST00000327669	T	0.50548	0.74	4.64	4.64	0.57946	.	0.000000	0.85682	D	0.000000	T	0.67011	0.2848	M	0.70595	2.14	0.42278	D	0.992084	D	0.71674	0.998	D	0.74674	0.984	T	0.71879	-0.4459	10	0.72032	D	0.01	-10.2308	15.3421	0.74306	0.0:1.0:0.0:0.0	.	233	Q1W6H9	F110C_HUMAN	E	233	ENSP00000328347:G233E	ENSP00000328347:G233E	G	-	2	0	FAM110C	35688	0.991000	0.36638	0.057000	0.19452	0.348000	0.29142	3.654000	0.54453	2.277000	0.76020	0.561000	0.74099	GGG		0.682	FAM110C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322220.1	NM_001077710		T	45688	C	T	45688	3	4	691	1	0	0	0	0	1	0	0	0	5402	623	22	2	275	2	FAM110C	2	45688	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10		45688	243153685	12	44903										
SMC6	79677	ucsc.edu	37	chr2	17881597	17881597	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ttctttttgttgctccatatGttcctcaaccattttcattt	3	10	3	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:17881597G>A	ENST00000448223.2	-	21	2541	c.2272C>T	c.(2272-2274)Cat>Tat	p.H758Y	SMC6_ENST00000351948.4_Missense_Mutation_p.H758Y|SMC6_ENST00000402989.1_Missense_Mutation_p.H758Y|SMC6_ENST00000381272.4_Missense_Mutation_p.H784Y	NM_001142286.1	NP_001135758.1	Q96SB8	SMC6_HUMAN	structural maintenance of chromosomes 6	758					cellular senescence (GO:0090398)|double-strand break repair via homologous recombination (GO:0000724)|telomere maintenance via recombination (GO:0000722)	chromosome, telomeric region (GO:0000781)|intracellular (GO:0005622)|nucleolus (GO:0005730)|nucleus (GO:0005634)|PML body (GO:0016605)|Smc5-Smc6 complex (GO:0030915)	ATP binding (GO:0005524)			NS(1)|biliary_tract(1)|breast(6)|central_nervous_system(4)|cervix(1)|endometrium(4)|kidney(6)|large_intestine(3)|lung(13)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	43	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TGCTCCATATGTTCCTCAACC	0.264																																																0													159	148	152					2																	17881597		2202	4300	6502	SO:0001583	missense	79677			AJ310551	CCDS1690.1	2p24.3	2008-02-05	2006-07-06	2006-07-06	ENSG00000163029	ENSG00000163029		"Structural maintenance of chromosomes proteins"	20466	protein-coding gene	gene with protein product		609387	"SMC6 structural maintenance of chromosomes 6-like 1 (yeast)"	SMC6L1		11230166	Standard	NM_024624		Approved	FLJ22116	uc002rcn.3	Q96SB8	OTTHUMG00000090675	ENST00000448223.2:c.2272C>T	2.37:g.17881597G>A	ENSP00000404092:p.His758Tyr	Somatic		WXS	Illumina HiSeq		A8K8Q6|D6W518|Q05BV4|Q9H0X3|Q9H6M0	Missense_Mutation	SNP	ENST00000448223.2	37	CCDS1690.1	.	.	.	.	.	.	.	.	.	.	G	11.02	1.514803	0.27123	.	.	ENSG00000163029	ENST00000448223;ENST00000351948;ENST00000381272;ENST00000402989	T;T;T;T	0.29397	1.57;1.57;1.57;1.57	5.18	2.74	0.32292	RecF/RecN/SMC (1);	0.479711	0.22822	N	0.055207	T	0.14227	0.0344	N	0.08118	0	0.20307	N	0.999914	B;B	0.18166	0.026;0.001	B;B	0.14578	0.011;0.002	T	0.16928	-1.0386	10	0.51188	T	0.08	.	6.2662	0.20928	0.0:0.1374:0.4642:0.3984	.	784;758	Q96SB8-2;Q96SB8	.;SMC6_HUMAN	Y	758;758;784;758	ENSP00000404092:H758Y;ENSP00000323439:H758Y;ENSP00000370672:H784Y;ENSP00000384539:H758Y	ENSP00000323439:H758Y	H	-	1	0	SMC6	17745078	1.000000	0.71417	0.998000	0.56505	0.854000	0.48673	0.719000	0.25881	0.384000	0.24942	-0.484000	0.04775	CAT		0.264	SMC6-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207359.1	NM_024624		A	17881597	G	A	17881597	3	1	691	1	0	0	0	0	1	0	0	0	14800	1377	48	2	1035	2	SMC6	2	17881597	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	17835909	17881597	225317776	13	44904										
DNMT3A	1788	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	25469542	25469542	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gctggaagccccccagggccCattcaatcatgggcttgttc	11	14	2	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:25469542C>T	ENST00000264709.3	-	10	1563	c.1226G>A	c.(1225-1227)tGg>tAg	p.W409*	DNMT3A_ENST00000474887.1_5'Flank|DNMT3A_ENST00000402667.1_Nonsense_Mutation_p.W186*|DNMT3A_ENST00000321117.5_Nonsense_Mutation_p.W409*|DNMT3A_ENST00000380746.4_Nonsense_Mutation_p.W220*	NM_175629.2	NP_783328.1	Q9Y6K1	DNM3A_HUMAN	DNA (cytosine-5-)-methyltransferase 3 alpha	409					C-5 methylation of cytosine (GO:0090116)|cellular response to amino acid stimulus (GO:0071230)|DNA methylation (GO:0006306)|DNA methylation involved in embryo development (GO:0043045)|DNA methylation involved in gamete generation (GO:0043046)|DNA methylation on cytosine within a CG sequence (GO:0010424)|hypermethylation of CpG island (GO:0044027)|methylation-dependent chromatin silencing (GO:0006346)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of gene expression by genetic imprinting (GO:0006349)|S-adenosylhomocysteine metabolic process (GO:0046498)|S-adenosylmethioninamine metabolic process (GO:0046499)|spermatogenesis (GO:0007283)	chromosome, centromeric region (GO:0000775)|cytoplasm (GO:0005737)|euchromatin (GO:0000791)|nuclear heterochromatin (GO:0005720)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA (cytosine-5-)-methyltransferase activity (GO:0003886)|DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates (GO:0051718)|DNA binding (GO:0003677)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|unmethylated CpG binding (GO:0045322)			breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(964)|kidney(3)|large_intestine(10)|lung(29)|ovary(3)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)	1021	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCCCAGGGCCCATTCAATCAT	0.647			"Mis, F, N, S"		AML																																		Rec	yes		2	2p23	1788	DNA (cytosine-5-)-methyltransferase 3 alpha		L	0													61	61	61					2																	25469542		2203	4298	6501	SO:0001587	stop_gained	1788				CCDS1718.2, CCDS33157.1, CCDS46232.1	2p23	2014-09-17			ENSG00000119772	ENSG00000119772			2978	protein-coding gene	gene with protein product		602769				9662389, 10433969	Standard	NM_175630		Approved		uc002rgc.4	Q9Y6K1	OTTHUMG00000094777	ENST00000264709.3:c.1226G>A	2.37:g.25469542C>T	ENSP00000264709:p.Trp409*	Somatic		WXS	Illumina HiSeq	Phase_I	E9PEB8|Q86TE8|Q86XF5|Q8IZV0|Q8WXU9	Nonsense_Mutation	SNP	ENST00000264709.3	37	CCDS33157.1	.	.	.	.	.	.	.	.	.	.	C	37	6.406269	0.97542	.	.	ENSG00000119772	ENST00000380746;ENST00000321117;ENST00000264709;ENST00000402667	.	.	.	4.87	4.87	0.63330	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-7.0978	15.5438	0.76077	0.0:1.0:0.0:0.0	.	.	.	.	X	220;409;409;186	.	ENSP00000264709:W409X	W	-	2	0	DNMT3A	25323046	1.000000	0.71417	1.000000	0.80357	0.864000	0.49448	7.528000	0.81941	2.535000	0.85469	0.655000	0.94253	TGG		0.647	DNMT3A-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000211587.1	NM_022552		T	25469542	C	T	25469542	4	4	691	1	0	0	0	0	0	1	0	0	4678	595	21	2	1568	2	DNMT3A	2	25469542	Nonsense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	7587945	25469542	217729831	14	44905										
C2orf16	84226	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	27801772	27801772	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gacagatattttgcagcctgAagagacctatatagacccta	8	9	0	4			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:27801772A>T	ENST00000408964.2	+	1	2384	c.2333A>T	c.(2332-2334)gAa>gTa	p.E778V	AC074091.1_ENST00000408604.1_RNA	NM_032266.3	NP_115642.3	Q68DN1	CB016_HUMAN	chromosome 2 open reading frame 16	778						extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)				breast(1)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(33)|urinary_tract(1)	47	Acute lymphoblastic leukemia(172;0.155)					TTGCAGCCTGAAGAGACCTAT	0.403																																																0													170	168	168					2																	27801772		1824	4081	5905	SO:0001583	missense	84226			AL136898	CCDS42666.1	2p23.3	2013-09-20			ENSG00000221843	ENSG00000221843			25275	protein-coding gene	gene with protein product	"P-S-E-R-S-H-H-S repeats containing"						Standard	NM_032266		Approved	DKFZp434G118	uc002rkz.4	Q68DN1	OTTHUMG00000159099	ENST00000408964.2:c.2333A>T	2.37:g.27801772A>T	ENSP00000386190:p.Glu778Val	Somatic		WXS	Illumina HiSeq	Phase_I	B9EIQ4|Q53S01|Q8ND64|Q9H088	Missense_Mutation	SNP	ENST00000408964.2	37	CCDS42666.1	.	.	.	.	.	.	.	.	.	.	A	12.72	2.022880	0.35701	.	.	ENSG00000221843	ENST00000408964	T	0.06768	3.26	5.39	-2.51	0.06365	.	.	.	.	.	T	0.05868	0.0153	N	0.24115	0.695	0.09310	N	1	P	0.46512	0.879	P	0.45449	0.481	T	0.28681	-1.0036	9	0.66056	D	0.02	.	2.4234	0.04454	0.285:0.1502:0.4258:0.139	.	778	Q68DN1	CB016_HUMAN	V	778	ENSP00000386190:E778V	ENSP00000386190:E778V	E	+	2	0	C2orf16	27655276	0.056000	0.20664	0.033000	0.17914	0.105000	0.19272	0.158000	0.16422	-0.136000	0.11475	0.459000	0.35465	GAA		0.403	C2orf16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353292.1	NM_032266		T	27801772	A	T	27801772	3	4	691	1	0	0	0	0	1	0	0	0	2159	246	9	5	2335	5	C2orf16	2	27801772	Missense_Mutation	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	2332230	27801772	215397601	15	44906										
GEMIN6	79833	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	39008788	39008788	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gagaagctgatgcatttgttCacgtctggagactgcaaagc	12	8	2	3			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:39008788C>T	ENST00000281950.3	+	3	374	c.258C>T	c.(256-258)ttC>ttT	p.F86F	GEMIN6_ENST00000409566.1_3'UTR|GEMIN6_ENST00000409011.1_3'UTR	NM_024775.9	NP_079051.9	Q8WXD5	GEMI6_HUMAN	gem (nuclear organelle) associated protein 6	86					gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|ncRNA metabolic process (GO:0034660)|RNA metabolic process (GO:0016070)|spliceosomal complex assembly (GO:0000245)|spliceosomal snRNP assembly (GO:0000387)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|SMN complex (GO:0032797)|SMN-Sm protein complex (GO:0034719)				kidney(1)|large_intestine(3)|pancreas(1)	5		all_hematologic(82;0.21)				TGCATTTGTTCACGTCTGGAG	0.478																																																0													102	88	92					2																	39008788		2203	4300	6503	SO:0001819	synonymous_variant	79833			AF453443	CCDS1799.1	2p22.1	2014-05-14			ENSG00000152147	ENSG00000152147			20044	protein-coding gene	gene with protein product		607006				11748230	Standard	NM_024775		Approved	FLJ23459	uc002rrc.3	Q8WXD5	OTTHUMG00000128588	ENST00000281950.3:c.258C>T	2.37:g.39008788C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RDP8|Q53SI5|Q8WVB4|Q9H5G6	Silent	SNP	ENST00000281950.3	37	CCDS1799.1																																																																																				0.478	GEMIN6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250441.3			T	39008788	C	T	39008788	2	4	691	1	0	0	0	0	0	0	0	1	6339	825	29	2		2	GEMIN6	2	39008788	Silent	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	11207016	39008788	204190585	16	44907										
TSPYL6	388951	broad.mit.edu	37	chr2	54482521	54482521	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gacagctgtgggtggtggcgGaaagcagtgacccagaagcc	17	9	0	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:54482521G>A	ENST00000317802.7	-	1	888	c.768C>T	c.(766-768)ttC>ttT	p.F256F	ACYP2_ENST00000394666.3_Intron|ACYP2_ENST00000606865.1_Intron|ACYP2_ENST00000607452.1_Intron|ACYP2_ENST00000303536.4_Intron	NM_001003937.2	NP_001003937.2	Q8N831	TSYL6_HUMAN	TSPY-like 6	256					nucleosome assembly (GO:0006334)	nucleus (GO:0005634)				NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(1)|ovary(1)|skin(1)|stomach(2)	20						GGTGGTGGCGGAAAGCAGTGA	0.517																																																0													72	73	73					2																	54482521		2142	4280	6422	SO:0001819	synonymous_variant	388951			AK097417	CCDS42682.1	2p16.3	2007-10-22			ENSG00000178021	ENSG00000178021			14521	protein-coding gene	gene with protein product							Standard	NM_001003937		Approved		uc002rxr.2	Q8N831	OTTHUMG00000151823	ENST00000317802.7:c.768C>T	2.37:g.54482521G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6NUJ3	Silent	SNP	ENST00000317802.7	37	CCDS42682.1																																																																																				0.517	TSPYL6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000324069.3	XM_371494		A	54482521	G	A	54482521	2	1	691	1	0	0	0	0	0	0	0	1	16675	1165	41	2		2	TSPYL6	2	54482521	Silent	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	15473733	54482521	188716852	17	44908										
ZNF638	27332	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	71607375	71607375	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	aaagaggtgaagaaaaagacTttagagtcaaagaaagtatc	10	3	1	6			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:71607375T>C	ENST00000409544.1	+	9	2919	c.2289T>C	c.(2287-2289)acT>acC	p.T763T	ZNF638_ENST00000410075.1_3'UTR|ZNF638_ENST00000377802.2_Silent_p.T763T|RNU6-105P_ENST00000363909.1_RNA|ZNF638_ENST00000355812.3_Silent_p.T763T|ZNF638_ENST00000264447.4_Silent_p.T763T	NM_001252612.1	NP_001239541.1	Q14966	ZN638_HUMAN	zinc finger protein 638	763					regulation of transcription, DNA-templated (GO:0006355)|RNA splicing (GO:0008380)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	double-stranded DNA binding (GO:0003690)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|zinc ion binding (GO:0008270)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(16)|lung(28)|ovary(2)|pancreas(2)|prostate(1)|skin(2)|urinary_tract(1)	63						AGAAAAAGACTTTAGAGTCAA	0.249																																																0													33	33	33					2																	71607375		2189	4242	6431	SO:0001819	synonymous_variant	27332			D83032	CCDS1917.1	2p13.1	2013-02-12	2004-07-29	2004-07-30	ENSG00000075292	ENSG00000075292		"RNA binding motif (RRM) containing"	17894	protein-coding gene	gene with protein product		614349	"zinc finger, matrin-like"	ZFML		8647861	Standard	NM_014497		Approved	NP220, MGC26130, Zfp638	uc002shy.3	Q14966	OTTHUMG00000129735	ENST00000409544.1:c.2289T>C	2.37:g.71607375T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B5MDV1|B7ZLD1|Q53R34|Q5XJ05|Q68DP3|Q6P2H2|Q7Z3T7|Q8NF92|Q8TCA1|Q9H2G1|Q9NP37	Silent	SNP	ENST00000409544.1	37	CCDS1917.1																																																																																				0.249	ZNF638-002	NOVEL	alternative_5_UTR|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000327431.1	NM_014497		C	71607375	T	C	71607375	2	2	691	1	0	0	0	0	0	0	0	1	18067	1596	56	3		3	ZNF638	2	71607375	Silent	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	17124854	71607375	171591998	18	44909										
FER1L5	90342	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	97359251	97359251	+	RNA	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ctacccctccagggcccttcAttcgggtggtcttcctgaac	9	16	2	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:97359251A>T	ENST00000457909.1	+	0	1760							A0AVI2	FR1L5_HUMAN	fer-1-like family member 5							integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(1)|autonomic_ganglia(1)|breast(4)|cervix(1)|endometrium(9)|large_intestine(9)|lung(6)|ovary(2)|prostate(2)|skin(1)|urinary_tract(2)	38						AGGGCCCTTCATTCGGGTGGT	0.612																																																0													58	69	66					2																	97359251		692	1591	2283			90342			BC126368		2q11.2	2014-06-27	2014-06-27		ENSG00000249715	ENSG00000249715			19044	protein-coding gene	gene with protein product			"fer-1-like 5 (C. elegans)"				Standard	XM_006712826		Approved	DKFZp434I0121	uc010fia.3	A0AVI2	OTTHUMG00000154929		2.37:g.97359251A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q17RH2|Q6ZU24	Missense_Mutation	SNP	ENST00000457909.1	37		.	.	.	.	.	.	.	.	.	.	A	9.661	1.144037	0.21205	.	.	ENSG00000214272	ENST00000414152;ENST00000436930	.	.	.	5.31	-0.268	0.12934	C2 membrane targeting protein (1);C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);	.	.	.	.	T	0.57651	0.2068	M	0.62723	1.935	.	.	.	P	0.50369	0.934	P	0.52856	0.711	T	0.66508	-0.5906	7	0.66056	D	0.02	-3.7442	9.6818	0.40074	0.4125:0.0:0.5875:0.0	.	1128	A0AVI2	FR1L5_HUMAN	F	1128;1086	.	ENSP00000444148:I1128F	I	+	1	0	FER1L5	96722978	0.149000	0.22717	0.255000	0.24374	0.514000	0.34195	1.218000	0.32467	-0.049000	0.13379	0.459000	0.35465	ATT		0.612	FER1L5-001	KNOWN	basic|exp_conf	retained_intron	pseudogene	OTTHUMT00000339030.1	NM_001077400		T	97359251	A	T	97359251	1	4	691	0	1	0	0	0	0	0	0	0	5821	217	8	5		5	FER1L5	2	97359251	RNA	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	25751876	97359251	145840122	19	44910										
ST6GAL2	84620	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	107459932	107459932	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	cttcacccgcctcctctggaCctgtgcagccggaaaagccc	9	18	2	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:107459932C>G	ENST00000409382.3	-	2	1112	c.502G>C	c.(502-504)Gtc>Ctc	p.V168L	AC016994.2_ENST00000425419.1_RNA|ST6GAL2_ENST00000409087.3_Missense_Mutation_p.V168L|ST6GAL2_ENST00000361686.4_Missense_Mutation_p.V168L	NM_001142351.1	NP_001135823.1	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide alpha-2,6-sialyltranferase 2	168					growth (GO:0040007)|multicellular organismal development (GO:0007275)|oligosaccharide metabolic process (GO:0009311)|protein glycosylation (GO:0006486)|sialylation (GO:0097503)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	beta-galactoside alpha-2,6-sialyltransferase activity (GO:0003835)			autonomic_ganglia(1)|breast(1)|endometrium(2)|kidney(1)|large_intestine(8)|liver(1)|lung(30)|ovary(5)|pancreas(6)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	65						CTCCTCTGGACCTGTGCAGCC	0.662																																																0													78	90	86					2																	107459932		2203	4300	6503	SO:0001583	missense	84620			AB059555	CCDS2073.1, CCDS46380.1	2q11-q12	2008-02-05	2005-02-07	2005-02-07	ENSG00000144057	ENSG00000144057	2.4.99.2		10861	protein-coding gene	gene with protein product		608472	"sialyltransferase 2 (monosialoganglioside sialyltransferase)"	SIAT2			Standard	NM_032528		Approved	KIAA1877, St6gal2, St6GalII	uc002tdr.3	Q96JF0	OTTHUMG00000130923	ENST00000409382.3:c.502G>C	2.37:g.107459932C>G	ENSP00000386942:p.Val168Leu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVK3|Q53QP4|Q86Y44|Q8IUG7|Q96HE4	Missense_Mutation	SNP	ENST00000409382.3	37	CCDS2073.1	.	.	.	.	.	.	.	.	.	.	C	1.093	-0.663505	0.03428	.	.	ENSG00000144057	ENST00000361686;ENST00000409382;ENST00000409087	T;T;T	0.30714	2.53;2.53;1.52	2.52	1.61	0.23674	.	2.704170	0.01639	N	0.023935	T	0.17109	0.0411	N	0.08118	0	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.0;0.001	T	0.17501	-1.0367	10	0.19147	T	0.46	.	6.3831	0.21546	0.0:0.6285:0.0:0.3715	.	168;168	Q96JF0-2;Q96JF0	.;SIAT2_HUMAN	L	168	ENSP00000355273:V168L;ENSP00000386942:V168L;ENSP00000387332:V168L	ENSP00000355273:V168L	V	-	1	0	ST6GAL2	106826364	0.000000	0.05858	0.000000	0.03702	0.186000	0.23388	0.013000	0.13310	0.339000	0.23719	0.561000	0.74099	GTC		0.662	ST6GAL2-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000330065.1	NM_032528		G	107459932	C	G	107459932	3	3	691	1	0	0	0	0	1	0	0	0	15234	507	18	4	1194	4	ST6GAL2	2	107459932	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	10100681	107459932	135739441	20	44911										
RANBP2	5903	ucsc.edu;bcgsc.ca	37	chr2	109381778	109381778	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	cttcagagacaagcaaggctCcaaagagcggatttgaggga	13	8	1	3			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:109381778C>G	ENST00000283195.6	+	20	4909	c.4783C>G	c.(4783-4785)Cca>Gca	p.P1595A		NM_006267.4	NP_006258.3	P49792	RBP2_HUMAN	RAN binding protein 2	1595					carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|negative regulation of glucokinase activity (GO:0033132)|protein folding (GO:0006457)|protein import into nucleus (GO:0006606)|protein sumoylation (GO:0016925)|regulation of gluconeogenesis involved in cellular glucose homeostasis (GO:0090526)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nuclear inclusion body (GO:0042405)|nuclear membrane (GO:0031965)|nuclear pore (GO:0005643)|nuclear pore nuclear basket (GO:0044615)	ligase activity (GO:0016874)|peptidyl-prolyl cis-trans isomerase activity (GO:0003755)|Ran GTPase binding (GO:0008536)|RNA binding (GO:0003723)|zinc ion binding (GO:0008270)		RANBP2/ALK(34)	NS(1)|biliary_tract(1)|breast(3)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(21)|large_intestine(19)|lung(51)|pancreas(1)|prostate(8)|skin(7)|upper_aerodigestive_tract(2)|urinary_tract(1)	129						AAGCAAGGCTCCAAAGAGCGG	0.448																																																0													122	124	123					2																	109381778		2203	4300	6503	SO:0001583	missense	5903			D42063	CCDS2079.1	2q13	2013-11-14			ENSG00000153201	ENSG00000153201		"Tetratricopeptide (TTC) repeat domain containing"	9848	protein-coding gene	gene with protein product		601181	"acute necrotizing encephalopathy 1 (autosomal dominant)"	ANE1		7724562, 19118815	Standard	NM_006267		Approved	NUP358, ADANE	uc002tem.4	P49792	OTTHUMG00000130981	ENST00000283195.6:c.4783C>G	2.37:g.109381778C>G	ENSP00000283195:p.Pro1595Ala	Somatic		WXS	Illumina HiSeq		Q13074|Q15280|Q53TE2|Q59FH7	Missense_Mutation	SNP	ENST00000283195.6	37	CCDS2079.1	.	.	.	.	.	.	.	.	.	.	c	10.31	1.314111	0.23908	.	.	ENSG00000153201	ENST00000283195	T	0.28069	1.63	4.78	0.353	0.16058	.	.	.	.	.	T	0.16557	0.0398	L	0.27053	0.805	0.09310	N	1	B	0.02656	0.0	B	0.06405	0.002	T	0.31308	-0.9948	9	0.16896	T	0.51	0.078	4.6119	0.12406	0.2692:0.5227:0.1308:0.0773	.	1595	P49792	RBP2_HUMAN	A	1595	ENSP00000283195:P1595A	ENSP00000283195:P1595A	P	+	1	0	RANBP2	108748210	0.000000	0.05858	0.990000	0.47175	0.914000	0.54420	-1.871000	0.01640	0.124000	0.18369	0.655000	0.94253	CCA		0.448	RANBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253594.1	NM_006267		G	109381778	C	G	109381778	3	3	691	1	0	0	0	0	1	0	0	0	13041	855	30	4	4861	4	RANBP2	2	109381778	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	1921846	109381778	133817595	21	44912										
TNFAIP6	7130	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	152235994	152235994	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gtcaaggaaaaaatacaagtActacttctactggaaataaa	6	6	2	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:152235994A>T	ENST00000243347.3	+	6	856	c.781A>T	c.(781-783)Act>Tct	p.T261S		NM_007115.3	NP_009046.2	P98066	TSG6_HUMAN	tumor necrosis factor, alpha-induced protein 6	261					cell adhesion (GO:0007155)|cell-cell signaling (GO:0007267)|inflammatory response (GO:0006954)|signal transduction (GO:0007165)		hyaluronic acid binding (GO:0005540)			endometrium(1)|kidney(1)|large_intestine(3)|lung(4)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.131)	Hyaluronan(DB08818)	AAATACAAGTACTACTTCTAC	0.333																																																0													84	90	88					2																	152235994		2203	4300	6503	SO:0001583	missense	7130				CCDS2193.1	2q23.3	2008-11-18			ENSG00000123610	ENSG00000123610			11898	protein-coding gene	gene with protein product		600410				1730767, 8568267, 15060082	Standard	NM_007115		Approved	TSG6, TSG-6	uc002txk.3	P98066	OTTHUMG00000131884	ENST00000243347.3:c.781A>T	2.37:g.152235994A>T	ENSP00000243347:p.Thr261Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q53TI7|Q8WWI9	Missense_Mutation	SNP	ENST00000243347.3	37	CCDS2193.1	.	.	.	.	.	.	.	.	.	.	A	8.550	0.875364	0.17395	.	.	ENSG00000123610	ENST00000243347	T	0.18174	2.23	5.56	1.83	0.25207	.	0.332619	0.29185	N	0.012896	T	0.07773	0.0195	N	0.17082	0.46	0.09310	N	0.999999	B	0.02656	0.0	B	0.04013	0.001	T	0.33497	-0.9866	10	0.21540	T	0.41	.	3.4438	0.07473	0.6522:0.0:0.1812:0.1666	.	261	P98066	TSG6_HUMAN	S	261	ENSP00000243347:T261S	ENSP00000243347:T261S	T	+	1	0	TNFAIP6	151944240	0.044000	0.20184	0.250000	0.24296	0.441000	0.31987	1.210000	0.32370	0.063000	0.16370	0.533000	0.62120	ACT		0.333	TNFAIP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254834.2	NM_007115		T	152235994	A	T	152235994	3	4	691	1	0	0	0	0	1	0	0	0	16287	391	14	5	803	5	TNFAIP6	2	152235994	Missense_Mutation	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	42854216	152235994	90963379	22	44913										
SLC4A10	57282	bcgsc.ca	37	chr2	162821643	162821643	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ctggttggatgatttgatgcCcgagagtaagaaaaagaaac	12	5	0	5			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:162821643C>T	ENST00000446997.1	+	23	3212	c.3119C>T	c.(3118-3120)cCc>cTc	p.P1040L	SLC4A10_ENST00000375514.5_Missense_Mutation_p.P1021L|SLC4A10_ENST00000421911.1_Missense_Mutation_p.P1040L|SLC4A10_ENST00000415876.2_Missense_Mutation_p.P1010L|SLC4A10_ENST00000272716.5_Missense_Mutation_p.P1010L	NM_001178015.1	NP_001171486.1	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate transporter, member 10	1040					bicarbonate transport (GO:0015701)|chloride transport (GO:0006821)|ion transport (GO:0006811)|regulation of pH (GO:0006885)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)	basolateral plasma membrane (GO:0016323)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	inorganic anion exchanger activity (GO:0005452)|symporter activity (GO:0015293)			endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(9)|lung(35)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	60					Sodium bicarbonate(DB01390)	GATTTGATGCCCGAGAGTAAG	0.348																																																0													81	75	77					2																	162821643		1812	4083	5895	SO:0001583	missense	57282				CCDS46438.1, CCDS54411.1, CCDS54412.1	2q24.2	2013-05-22	2008-09-15		ENSG00000144290	ENSG00000144290		"Solute carriers"	13811	protein-coding gene	gene with protein product		605556	"solute carrier family 4, sodium bicarbonate transporter-like, member 10"			10964153, 18319254	Standard	NM_022058		Approved	NBCn2, NCBE	uc002ubx.4	Q6U841	OTTHUMG00000153938	ENST00000446997.1:c.3119C>T	2.37:g.162821643C>T	ENSP00000393066:p.Pro1040Leu	Somatic		WXS	Illumina HiSeq	Phase_1	B7Z1R0|B7Z2J0|B7ZLC5|B9EG69|F8W675|Q4ZFX6|Q8TCP2|Q9HCQ6	Missense_Mutation	SNP	ENST00000446997.1	37	CCDS54411.1	.	.	.	.	.	.	.	.	.	.	C	29.1	4.973232	0.92919	.	.	ENSG00000144290	ENST00000375514;ENST00000415876;ENST00000272716;ENST00000449513;ENST00000446997;ENST00000421911;ENST00000415711	T;T;T;T;D	0.82893	-1.43;-1.43;-1.44;-1.44;-1.66	5.93	5.04	0.67666	.	0.054718	0.85682	D	0.000000	D	0.91205	0.7229	M	0.93550	3.43	0.80722	D	1	P;P;D	0.57571	0.552;0.552;0.98	B;B;P	0.52957	0.331;0.331;0.714	D	0.93475	0.6822	10	0.87932	D	0	.	16.4058	0.83669	0.1326:0.8674:0.0:0.0	.	1021;1010;1040	F8W675;Q6U841-2;Q6U841	.;.;S4A10_HUMAN	L	1021;1010;1010;1009;1040;1040;1039	ENSP00000364664:P1021L;ENSP00000395797:P1010L;ENSP00000272716:P1010L;ENSP00000393066:P1040L;ENSP00000404486:P1040L	ENSP00000272716:P1010L	P	+	2	0	SLC4A10	162529889	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	7.818000	0.86416	1.460000	0.47911	0.655000	0.94253	CCC		0.348	SLC4A10-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000333090.1	NM_022058		T	162821643	C	T	162821643	3	4	691	1	0	0	0	0	1	0	0	0	14664	623	22	2	3294	2	SLC4A10	2	162821643	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	10585649	162821643	80377730	23	44914										
SMARCAL1	50485	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	217285132	217285132	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gacaggccggccttccatcaGctccatccctttcatttgtc	7	16	2	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:217285132G>A	ENST00000357276.4	+	5	1303	c.973G>A	c.(973-975)Gct>Act	p.A325T	SMARCAL1_ENST00000358207.5_Missense_Mutation_p.A325T	NM_014140.3	NP_054859.2	Q9NZC9	SMAL1_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a-like 1	325					cellular response to DNA damage stimulus (GO:0006974)|chromatin modification (GO:0016568)|DNA metabolic process (GO:0006259)|DNA strand renaturation (GO:0000733)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|replication fork processing (GO:0031297)	nucleus (GO:0005634)|site of double-strand break (GO:0035861)	annealing helicase activity (GO:0036310)|ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA-dependent ATPase activity (GO:0008094)|helicase activity (GO:0004386)			NS(1)|breast(3)|endometrium(4)|kidney(3)|large_intestine(10)|liver(1)|lung(15)|ovary(3)|prostate(1)|skin(1)	42		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		CCTTCCATCAGCTCCATCCCT	0.562									Schimke Immuno-Osseous Dysplasia																																							0													121	100	108					2																	217285132		2203	4300	6503	SO:0001583	missense	50485	Familial Cancer Database	SIOD	AF210833	CCDS2403.1	2q35	2014-09-17			ENSG00000138375	ENSG00000138375			11102	protein-coding gene	gene with protein product	"HepA-related protein", "ATP-driven annealing helicase"	606622				10713074, 10857751, 18974355	Standard	NM_014140		Approved	HHARP, HARP	uc002vgd.4	Q9NZC9	OTTHUMG00000133055	ENST00000357276.4:c.973G>A	2.37:g.217285132G>A	ENSP00000349823:p.Ala325Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEH0|Q53R00|Q96AY1|Q9NXQ5|Q9UFH3|Q9UI93	Missense_Mutation	SNP	ENST00000357276.4	37	CCDS2403.1	.	.	.	.	.	.	.	.	.	.	G	14.62	2.590173	0.46214	.	.	ENSG00000138375	ENST00000357276;ENST00000358207;ENST00000427645;ENST00000392128;ENST00000412913	D;D;T;D;T	0.86097	-2.04;-2.04;1.45;-2.07;0.63	4.85	4.85	0.62838	.	0.704849	0.14015	N	0.347188	T	0.80711	0.4675	L	0.59436	1.845	0.09310	N	1	P	0.37612	0.602	B	0.31290	0.127	T	0.71968	-0.4432	10	0.28530	T	0.3	-12.6293	13.2969	0.60303	0.0:0.1601:0.8399:0.0	.	325	Q9NZC9	SMAL1_HUMAN	T	325;325;224;189;45	ENSP00000349823:A325T;ENSP00000350940:A325T;ENSP00000392997:A224T;ENSP00000375974:A189T;ENSP00000390248:A45T	ENSP00000349823:A325T	A	+	1	0	SMARCAL1	216993377	0.682000	0.27624	0.373000	0.26003	0.202000	0.24057	4.009000	0.57110	2.531000	0.85337	0.561000	0.74099	GCT		0.562	SMARCAL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256671.2			A	217285132	G	A	217285132	3	1	691	1	0	0	0	0	1	0	0	0	14786	971	34	2	983	2	SMARCAL1	2	217285132	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	54463489	217285132	25914241	24	44915										
IGFBP5	3488	ucsc.edu;bcgsc.ca	37	chr2	217541549	217541549	+	Silent	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tccatgcctggcagcttcatCccgtacttgtccacgcacca	7	17	1	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:217541549C>G	ENST00000233813.4	-	4	1493	c.744G>C	c.(742-744)ggG>ggC	p.G248G		NM_000599.3	NP_000590.1	P24593	IBP5_HUMAN	insulin-like growth factor binding protein 5	248	Thyroglobulin type-1. {ECO:0000255|PROSITE-ProRule:PRU00500}.				cellular protein metabolic process (GO:0044267)|cellular response to cAMP (GO:0071320)|cellular response to organic cyclic compound (GO:0071407)|glucose homeostasis (GO:0042593)|glucose metabolic process (GO:0006006)|hair follicle morphogenesis (GO:0031069)|intracellular signal transduction (GO:0035556)|mammary gland involution (GO:0060056)|negative regulation of cell migration (GO:0030336)|negative regulation of insulin-like growth factor receptor signaling pathway (GO:0043569)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of smooth muscle cell migration (GO:0014912)|negative regulation of smooth muscle cell proliferation (GO:0048662)|negative regulation of translation (GO:0017148)|osteoblast differentiation (GO:0001649)|positive regulation of insulin-like growth factor receptor signaling pathway (GO:0043568)|positive regulation of protein kinase B signaling (GO:0051897)|regulation of cell growth (GO:0001558)|regulation of glucose metabolic process (GO:0010906)|signal transduction (GO:0007165)|skeletal muscle tissue growth (GO:0048630)|striated muscle cell differentiation (GO:0051146)|type B pancreatic cell proliferation (GO:0044342)	extracellular region (GO:0005576)|insulin-like growth factor binding protein complex (GO:0016942)	insulin-like growth factor I binding (GO:0031994)			endometrium(1)|large_intestine(3)|lung(1)	5		Renal(323;0.0822)		Epithelial(149;2.1e-06)|all cancers(144;0.000165)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCAGCTTCATCCCGTACTTGT	0.612																																																0													207	166	180					2																	217541549		2203	4300	6503	SO:0001819	synonymous_variant	3488				CCDS2405.1	2q35	2014-09-16			ENSG00000115461	ENSG00000115461			5474	protein-coding gene	gene with protein product		146734				7511611	Standard	NM_000599		Approved		uc002vgj.4	P24593	OTTHUMG00000133058	ENST00000233813.4:c.744G>C	2.37:g.217541549C>G		Somatic		WXS	Illumina HiSeq		Q5U0A3	Silent	SNP	ENST00000233813.4	37	CCDS2405.1																																																																																				0.612	IGFBP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256674.2	NM_000599		G	217541549	C	G	217541549	2	3	691	1	0	0	0	0	0	0	0	1	7589	842	30	4		4	IGFBP5	2	217541549	Silent	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	256417	217541549	25657824	25	44916										
KCNJ13	3769	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	233633228	233633228	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tgctggagcagagtagccagAggacttgatggtgtaatgga	16	5	0	3			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:233633228A>T	ENST00000233826.3	-	3	895	c.756T>A	c.(754-756)ccT>ccA	p.P252P	KCNJ13_ENST00000410029.1_Silent_p.P252P|GIGYF2_ENST00000409451.3_Intron|GIGYF2_ENST00000409547.1_Intron|KCNJ13_ENST00000409779.1_3'UTR|GIGYF2_ENST00000409480.1_Intron|GIGYF2_ENST00000409196.3_Intron|GIGYF2_ENST00000373566.3_Intron|GIGYF2_ENST00000373563.4_Intron|GIGYF2_ENST00000452341.2_Intron|AC064852.4_ENST00000427571.1_RNA	NM_002242.4	NP_002233.2	O60928	KCJ13_HUMAN	potassium inwardly-rectifying channel, subfamily J, member 13	252					potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)	integral component of membrane (GO:0016021)	inward rectifier potassium channel activity (GO:0005242)			endometrium(3)|large_intestine(2)|lung(2)|stomach(1)|urinary_tract(1)	9		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0306)|Lung NSC(271;0.0908)		Epithelial(121;5.9e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000311)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)|GBM - Glioblastoma multiforme(43;0.0617)		GAGTAGCCAGAGGACTTGATG	0.443																																																0													129	118	122					2																	233633228		2203	4300	6503	SO:0001819	synonymous_variant	3769			AJ006128	CCDS2498.1, CCDS54437.1	2q37	2014-01-28			ENSG00000115474	ENSG00000115474		"Potassium channels", "Voltage-gated ion channels / Potassium channels, Inwardly rectifying"	6259	protein-coding gene	gene with protein product		603208				9878260, 9620703, 16382105	Standard	NM_002242		Approved	Kir7.1, Kir1.4, LCA16	uc002vtp.3	O60928	OTTHUMG00000153292	ENST00000233826.3:c.756T>A	2.37:g.233633228A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0PGH1|O76023|Q53SA1|Q8N3Y4	Silent	SNP	ENST00000233826.3	37	CCDS2498.1																																																																																				0.443	KCNJ13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257036.1	NM_002242		T	233633228	A	T	233633228	2	4	691	1	0	0	0	0	0	0	0	1	8054	291	11	5		5	KCNJ13	2	233633228	Silent	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	16091679	233633228	9566145	26	44917										
GIGYF2	26058	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	233659498	233659498	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	cagcccctgtcgcagattccTtcagatacagcctctcctct	6	17	3	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr2:233659498T>A	ENST00000409547.1	+	15	1634	c.1323T>A	c.(1321-1323)ccT>ccA	p.P441P	GIGYF2_ENST00000409451.3_Silent_p.P462P|GIGYF2_ENST00000409480.1_Silent_p.P463P|GIGYF2_ENST00000409196.3_Silent_p.P435P|GIGYF2_ENST00000373566.3_Silent_p.P463P|GIGYF2_ENST00000373563.4_Silent_p.P441P|GIGYF2_ENST00000452341.2_Silent_p.P272P	NM_015575.3	NP_056390.2	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2	441	Pro-rich.				adult locomotory behavior (GO:0008344)|cell death (GO:0008219)|cellular protein metabolic process (GO:0044267)|feeding behavior (GO:0007631)|homeostasis of number of cells within a tissue (GO:0048873)|insulin-like growth factor receptor signaling pathway (GO:0048009)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|musculoskeletal movement (GO:0050881)|negative regulation of translation (GO:0017148)|neuromuscular process controlling balance (GO:0050885)|post-embryonic development (GO:0009791)|spinal cord motor neuron differentiation (GO:0021522)	membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)			NS(1)|biliary_tract(1)|breast(3)|central_nervous_system(4)|cervix(1)|endometrium(11)|kidney(2)|large_intestine(17)|lung(11)|ovary(5)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	63		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		CGCAGATTCCTTCAGATACAG	0.478																																																0													292	293	293					2																	233659498		2203	4300	6503	SO:0001819	synonymous_variant	26058			U80751	CCDS33401.1, CCDS46542.1, CCDS46543.1	2q37.1	2011-07-06	2008-02-11	2008-02-11	ENSG00000204120	ENSG00000204120		"Trinucleotide (CAG) repeat containing"	11960	protein-coding gene	gene with protein product	"GYF domain containing 2"	612003	"PERQ amino acid rich, with GYF domain 2", "PERQ amino acid rich, with GYF domain 3", "trinucleotide repeat containing 15", "Parkinson disease (autosomal recessive, early onset) 11"	PERQ2, PERQ3, TNRC15, PARK11		9225980, 9734811, 12771153, 18358451, 19279319	Standard	NM_015575		Approved	KIAA0642, GYF2	uc002vtk.4	Q6Y7W6	OTTHUMG00000153237	ENST00000409547.1:c.1323T>A	2.37:g.233659498T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6H8W4|B9EG55|E9PBB0|O75137|Q7Z2Z8|Q7Z3I2|Q96HU4|Q9NV82	Silent	SNP	ENST00000409547.1	37	CCDS33401.1																																																																																				0.478	GIGYF2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000330316.2	NM_001103146		A	233659498	T	A	233659498	2	1	691	1	0	0	0	0	0	0	0	1	6385	1596	56	5		5	GIGYF2	2	233659498	Silent	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	26270	233659498	9539875	27	44918										
KIAA1407	57577	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	113697143	113697143	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ttttgaagaaaatgtacacaAaattttcttacttcttcctg	4	7	2	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr3:113697143A>C	ENST00000295878.3	-	16	2642	c.2496T>G	c.(2494-2496)ttT>ttG	p.F832L		NM_020817.1	NP_065868.1	Q8NCU4	K1407_HUMAN	KIAA1407	832										endometrium(9)|large_intestine(7)|lung(19)|ovary(2)|pancreas(1)|prostate(1)|urinary_tract(1)	40						AATGTACACAAAATTTTCTTA	0.393																																																0													73	74	74					3																	113697143		2203	4300	6503	SO:0001583	missense	57577			AF509494	CCDS2977.1	3q13.31	2005-01-10			ENSG00000163617	ENSG00000163617			29272	protein-coding gene	gene with protein product						10718198	Standard	NM_020817		Approved		uc003eax.3	Q8NCU4	OTTHUMG00000159337	ENST00000295878.3:c.2496T>G	3.37:g.113697143A>C	ENSP00000295878:p.Phe832Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYL1|Q9P2E0	Missense_Mutation	SNP	ENST00000295878.3	37	CCDS2977.1	.	.	.	.	.	.	.	.	.	.	A	7.654	0.683498	0.14907	.	.	ENSG00000163617	ENST00000295878	T	0.28666	1.6	4.46	-2.16	0.07080	.	0.462954	0.22456	N	0.059825	T	0.05135	0.0137	N	0.00413	-1.525	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.38415	-0.9662	10	0.05620	T	0.96	.	5.5621	0.17150	0.256:0.3712:0.3728:0.0	.	832	Q8NCU4	K1407_HUMAN	L	832	ENSP00000295878:F832L	ENSP00000295878:F832L	F	-	3	2	KIAA1407	115179833	0.000000	0.05858	0.000000	0.03702	0.745000	0.42441	-1.005000	0.03674	-0.297000	0.08934	0.528000	0.53228	TTT		0.393	KIAA1407-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354724.2	NM_020817		C	113697143	A	C	113697143	3	2	691	1	0	0	0	0	1	0	0	0	8236	11	1	5	322	5	KIAA1407	3	113697143	Missense_Mutation	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10		113697143	84325287	28	44919										
ABCC5	10057	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	183669307	183669307	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	aaacttcatagggcttcgaaGgatccttcggaaaagctcgt	10	9	1	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr3:183669307G>C	ENST00000334444.6	-	20	3106	c.2866C>G	c.(2866-2868)Ctt>Gtt	p.L956V	ABCC5_ENST00000265586.6_Missense_Mutation_p.L956V	NM_005688.2	NP_005679.2	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 5	956	ABC transmembrane type-1 2. {ECO:0000255|PROSITE-ProRule:PRU00441}.				carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|hyaluronan biosynthetic process (GO:0030213)|hyaluronan metabolic process (GO:0030212)|organic anion transport (GO:0015711)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|organic anion transmembrane transporter activity (GO:0008514)			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(9)|lung(32)|ovary(3)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	62	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)		Adefovir Dipivoxil(DB00718)|Alprostadil(DB00770)|Atorvastatin(DB01076)|Cisplatin(DB00515)|Dinoprostone(DB00917)|Dipyridamole(DB00975)|Fluorouracil(DB00544)|Glutathione(DB00143)|Mercaptopurine(DB01033)|Probenecid(DB01032)|Rifampicin(DB01045)|Sildenafil(DB00203)|Sulfinpyrazone(DB01138)|Zidovudine(DB00495)	GGGCTTCGAAGGATCCTTCGG	0.542																																																0													74	79	77					3																	183669307		2004	4191	6195	SO:0001583	missense	10057			AF104942	CCDS33898.1, CCDS43176.1	3q27	2012-03-14			ENSG00000114770	ENSG00000114770		"ATP binding cassette transporters / subfamily C"	56	protein-coding gene	gene with protein product		605251				8894702, 9827529	Standard	XM_005247058		Approved	MRP5, SMRP, EST277145, MOAT-C	uc003fmg.3	O15440	OTTHUMG00000156871	ENST00000334444.6:c.2866C>G	3.37:g.183669307G>C	ENSP00000333926:p.Leu956Val	Somatic		WXS	Illumina HiSeq	Phase_I	B9EIQ2|O14517|Q29ZA9|Q29ZB1|Q86UX3|Q86W30|Q9UN85|Q9UNP5|Q9UQC3	Missense_Mutation	SNP	ENST00000334444.6	37	CCDS43176.1	.	.	.	.	.	.	.	.	.	.	G	22.5	4.299975	0.81136	.	.	ENSG00000114770	ENST00000334444;ENST00000265586	D;D	0.91843	-2.92;-2.92	6.11	5.23	0.72850	ABC transporter, transmembrane domain, type 1 (1);ABC transporter, integral membrane type 1 (1);ABC transporter, transmembrane domain (1);	0.000000	0.85682	D	0.000000	D	0.92616	0.7654	M	0.74647	2.275	0.58432	D	0.999996	P;P	0.43024	0.771;0.798	P;B	0.44422	0.449;0.387	D	0.92434	0.5956	10	0.49607	T	0.09	-14.3754	15.2019	0.73147	0.067:0.0:0.933:0.0	.	956;956	Q86UX3;O15440	.;MRP5_HUMAN	V	956	ENSP00000333926:L956V;ENSP00000265586:L956V	ENSP00000265586:L956V	L	-	1	0	ABCC5	185152001	1.000000	0.71417	0.995000	0.50966	0.995000	0.86356	6.461000	0.73522	1.590000	0.49995	0.655000	0.94253	CTT		0.542	ABCC5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346350.1	NM_005688		C	183669307	G	C	183669307	3	2	691	1	0	0	0	0	1	0	0	0	56	1000	35	4	1491	4	ABCC5	3	183669307	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	69972164	183669307	14353123	29	44920										
KIAA0226	9711	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	197408102	197408102	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ttaatgagcaggtccttggaGaagttgctgacgtagtactt	12	6	0	3			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr3:197408102G>A	ENST00000296343.5	-	16	2327	c.2328C>T	c.(2326-2328)ttC>ttT	p.F776F	KIAA0226_ENST00000273582.5_Silent_p.F731F|KIAA0226_ENST00000389665.5_Silent_p.F801F	NM_014687.1	NP_055502.1	Q92622	RUBIC_HUMAN	KIAA0226	776					autophagy (GO:0006914)|cell death (GO:0008219)|endocytosis (GO:0006897)|negative regulation of autophagy (GO:0010507)|negative regulation of endocytosis (GO:0045806)	early endosome (GO:0005769)|late endosome (GO:0005770)|lysosome (GO:0005764)				NS(2)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|lung(13)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	31	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)		GGTCCTTGGAGAAGTTGCTGA	0.522																																					Esophageal Squamous(3;167 355 3763 15924)											0													154	149	151					3																	197408102		2046	4228	6274	SO:0001819	synonymous_variant	9711			D86979	CCDS43195.1, CCDS46987.1	3q29	2011-08-09			ENSG00000145016	ENSG00000145016			28991	protein-coding gene	gene with protein product	"RUN domain and cysteine-rich domain containing, Beclin 1-interacting protein"	613516				9039502, 19270693, 20826435	Standard	XM_005269374		Approved	rubicon, rundataxin	uc003fyc.2	Q92622	OTTHUMG00000155452	ENST00000296343.5:c.2328C>T	3.37:g.197408102G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q96CK5	Silent	SNP	ENST00000296343.5	37	CCDS43195.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	8.648|8.648	0.897483|0.897483	0.17686|0.17686	.|.	.|.	ENSG00000145016|ENSG00000145016	ENST00000413360|ENST00000415452	.|.	.|.	.|.	4.55|4.55	3.66|3.66	0.41972|0.41972	.|.	.|.	.|.	.|.	.|.	T|T	0.63046|0.63046	0.2478|0.2478	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	T|T	0.61667|0.61667	-0.7016|-0.7016	4|4	.|.	.|.	.|.	.|.	12.4295|12.4295	0.55565|0.55565	0.0825:0.0:0.9175:0.0|0.0825:0.0:0.9175:0.0	.|.	.|.	.|.	.|.	F|F	738|560	.|.	.|.	L|S	-|-	1|2	0|0	KIAA0226|KIAA0226	198892499|198892499	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.909000|0.909000	0.53808|0.53808	2.466000|2.466000	0.45084|0.45084	1.244000|1.244000	0.43870|0.43870	0.555000|0.555000	0.69702|0.69702	CTC|TCT		0.522	KIAA0226-011	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000340184.1	XM_032901		A	197408102	G	A	197408102	2	1	691	1	0	0	0	0	0	0	0	1	8169	933	33	2		2	KIAA0226	3	197408102	Silent	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	13738795	197408102	614328	30	44921										
GAK	2580	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	882734	882734	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ccaggaagccgccatacggcTggtcgtactccgccagcgcc	12	17	0	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr4:882734T>A	ENST00000314167.4	-	11	1216	c.1106A>T	c.(1105-1107)cAg>cTg	p.Q369L	GAK_ENST00000511163.1_Missense_Mutation_p.Q290L	NM_005255.2	NP_005246.2	O14976	GAK_HUMAN	cyclin G associated kinase	369					cell cycle (GO:0007049)|cell development (GO:0048468)|clathrin coat disassembly (GO:0072318)|clathrin-mediated endocytosis (GO:0072583)|endoplasmic reticulum organization (GO:0007029)|epidermal cell differentiation (GO:0009913)|establishment of skin barrier (GO:0061436)|forebrain morphogenesis (GO:0048853)|Golgi organization (GO:0007030)|intrahepatic bile duct development (GO:0035622)|positive regulation of neural precursor cell proliferation (GO:2000179)	cell junction (GO:0030054)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			autonomic_ganglia(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(7)|lung(16)|skin(7)|urinary_tract(2)	39				Colorectal(103;0.219)		GCCATACGGCTGGTCGTACTC	0.662																																																0													45	40	42					4																	882734		2200	4293	6493	SO:0001583	missense	2580			D88435	CCDS3340.1	4p16	2011-09-07			ENSG00000178950	ENSG00000178950		"Heat shock proteins / DNAJ (HSP40)"	4113	protein-coding gene	gene with protein product	"auxilin-2"	602052				9299234	Standard	NM_005255		Approved	DNAJC26	uc003gbm.4	O14976	OTTHUMG00000088301	ENST00000314167.4:c.1106A>T	4.37:g.882734T>A	ENSP00000314499:p.Gln369Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5U4P5|Q9BVY6	Missense_Mutation	SNP	ENST00000314167.4	37	CCDS3340.1	.	.	.	.	.	.	.	.	.	.	T	16.66	3.185496	0.57909	.	.	ENSG00000178950	ENST00000314167;ENST00000511163	T;T	0.79352	-0.8;-1.26	4.55	4.55	0.56014	.	0.739757	0.13112	N	0.412872	T	0.80544	0.4643	M	0.76002	2.32	0.58432	D	0.999999	D;P;P;P	0.54772	0.968;0.883;0.944;0.937	P;P;B;B	0.48654	0.585;0.48;0.4;0.256	T	0.79271	-0.1872	10	0.45353	T	0.12	-33.1852	10.2933	0.43610	0.0:0.0:0.0:1.0	.	290;290;369;265	Q5U4P5;E9PGR2;O14976;Q59HA5	.;.;GAK_HUMAN;.	L	369;290	ENSP00000314499:Q369L;ENSP00000421361:Q290L	ENSP00000314499:Q369L	Q	-	2	0	GAK	872734	1.000000	0.71417	0.993000	0.49108	0.052000	0.14988	6.860000	0.75473	1.679000	0.50963	0.459000	0.35465	CAG		0.662	GAK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239188.1	NM_005255		A	882734	T	A	882734	3	1	691	1	0	0	0	0	1	0	0	0	6202	1580	55	5	2901	5	GAK	4	882734	Missense_Mutation	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10		882734	190271542	31	44922										
ADD1	118	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	2916729	2916729	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	agaccgtgagctggaggagtAccgcagggaggtggagagga	20	6	0	3			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr4:2916729A>G	ENST00000398129.1	+	12	1744	c.1724A>G	c.(1723-1725)tAc>tGc	p.Y575C	ADD1_ENST00000398125.1_Missense_Mutation_p.Y606C|ADD1_ENST00000355842.3_Missense_Mutation_p.Y606C|ADD1_ENST00000398123.2_Missense_Mutation_p.Y606C|ADD1_ENST00000513328.2_Missense_Mutation_p.Y575C|ADD1_ENST00000264758.7_Missense_Mutation_p.Y606C|ADD1_ENST00000446856.1_Missense_Mutation_p.Y575C|ADD1_ENST00000503455.2_Missense_Mutation_p.Y606C			P35611	ADDA_HUMAN	adducin 1 (alpha)	575					actin cytoskeleton organization (GO:0030036)|actin filament bundle assembly (GO:0051017)|activation of signaling protein activity involved in unfolded protein response (GO:0006987)|apoptotic process (GO:0006915)|barbed-end actin filament capping (GO:0051016)|cell morphogenesis (GO:0000902)|cell volume homeostasis (GO:0006884)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular protein metabolic process (GO:0044267)|cellular response to retinoic acid (GO:0071300)|endoplasmic reticulum unfolded protein response (GO:0030968)|erythrocyte differentiation (GO:0030218)|hemoglobin metabolic process (GO:0020027)|homeostasis of number of cells within a tissue (GO:0048873)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|positive regulation of angiogenesis (GO:0045766)|positive regulation of endocytosis (GO:0045807)|positive regulation of protein binding (GO:0032092)	cytosol (GO:0005829)|dendritic spine (GO:0043197)|F-actin capping protein complex (GO:0008290)|focal adhesion (GO:0005925)|intermediate filament cytoskeleton (GO:0045111)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|poly(A) RNA binding (GO:0044822)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|spectrin binding (GO:0030507)|structural molecule activity (GO:0005198)|transcription factor binding (GO:0008134)			breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(8)|ovary(1)|prostate(2)	22				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CTGGAGGAGTACCGCAGGGAG	0.587																																					Esophageal Squamous(71;505 1201 20414 34538 37449)											0													100	95	96					4																	2916729		2203	4300	6503	SO:0001583	missense	118			L07261	CCDS3363.1, CCDS3364.1, CCDS43205.1, CCDS75094.1	4p16.3	2009-04-22			ENSG00000087274	ENSG00000087274			243	protein-coding gene	gene with protein product		102680				1840603	Standard	NM_001119		Approved		uc003gfq.3	P35611	OTTHUMG00000122080	ENST00000398129.1:c.1724A>G	4.37:g.2916729A>G	ENSP00000381197:p.Tyr575Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3N8|A2A3P0|B4DI79|D3DVR3|D3DVR4|D3DVR5|Q13734|Q14729|Q16156|Q86XM2|Q9UJB6	Missense_Mutation	SNP	ENST00000398129.1	37	CCDS43205.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	26.3|26.3	4.720674|4.720674	0.89205|0.89205	.|.	.|.	ENSG00000087274|ENSG00000087274	ENST00000514940;ENST00000541843|ENST00000264758;ENST00000446856;ENST00000398125;ENST00000513328;ENST00000503455;ENST00000355842;ENST00000398123;ENST00000398129	.|T;T;T;T;T;T;T;T	.|0.31247	.|1.5;1.5;1.5;1.5;1.5;1.5;1.5;1.5	5.44|5.44	5.44|5.44	0.79542|0.79542	.|.	.|0.000000	.|0.85682	.|D	.|0.000000	T|T	0.56775|0.56775	0.2008|0.2008	M|M	0.73430|0.73430	2.235|2.235	0.80722|0.80722	D|D	1|1	.|D;D;D;D;D	.|0.89917	.|0.993;1.0;1.0;0.997;1.0	.|D;D;D;P;D	.|0.87578	.|0.928;0.977;0.998;0.863;0.992	T|T	0.61816|0.61816	-0.6985|-0.6985	5|10	.|0.87932	.|D	.|0	-15.9835|-15.9835	15.4885|15.4885	0.75587|0.75587	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	.|606;575;606;575;606	.|Q86XM2;P35611;P35611-3;P35611-2;A2A3N8	.|.;ADDA_HUMAN;.;.;.	A|C	312;21|606;575;606;575;606;606;606;575	.|ENSP00000264758:Y606C;ENSP00000399828:Y575C;ENSP00000381193:Y606C;ENSP00000421907:Y575C;ENSP00000423024:Y606C;ENSP00000348100:Y606C;ENSP00000381191:Y606C;ENSP00000381197:Y575C	.|ENSP00000264758:Y606C	T|Y	+|+	1|2	0|0	ADD1|ADD1	2886527|2886527	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.990000|0.990000	0.78478|0.78478	8.766000|8.766000	0.91728|0.91728	2.060000|2.060000	0.61445|0.61445	0.460000|0.460000	0.39030|0.39030	ACC|TAC		0.587	ADD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000242840.1	NM_014189		G	2916729	A	G	2916729	3	3	691	1	0	0	0	0	1	0	0	0	304	391	14	3	1863	3	ADD1	4	2916729	Missense_Mutation	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	2033995	2916729	188237547	32	44923										
SLC10A4	201780	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	48487158	48487158	+	Splice_Site	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ggtggctgactacattgtgaAggtaaggccccctcttccct	11	12	1	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr4:48487158A>C	ENST00000273861.4	+	2	1019	c.800A>C	c.(799-801)aAg>aCg	p.K267T		NM_152679.3	NP_689892.1	Q96EP9	NTCP4_HUMAN	solute carrier family 10, member 4	267						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	bile acid:sodium symporter activity (GO:0008508)			central_nervous_system(1)|large_intestine(1)|lung(1)|ovary(1)|prostate(1)|urinary_tract(1)	6						TACATTGTGAAGGTAAGGCCC	0.522																																																0													73	72	72					4																	48487158		2203	4300	6503	SO:0001630	splice_region_variant	201780			BC012048	CCDS3482.1	4p12	2013-07-18	2013-07-18		ENSG00000145248	ENSG00000145248		"Solute carriers"	22980	protein-coding gene	gene with protein product							Standard	NM_152679		Approved	MGC29802	uc003gyc.2	Q96EP9	OTTHUMG00000102092	ENST00000273861.4:c.801+1A>C	4.37:g.48487158A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8WUZ2	Missense_Mutation	SNP	ENST00000273861.4	37	CCDS3482.1	.	.	.	.	.	.	.	.	.	.	A	22.1	4.242171	0.79912	.	.	ENSG00000145248	ENST00000273861	T	0.10763	2.84	5.03	5.03	0.67393	.	0.044192	0.85682	D	0.000000	T	0.19967	0.0480	L	0.56340	1.77	0.80722	D	1	P	0.51537	0.946	P	0.51550	0.673	T	0.00480	-1.1714	10	0.44086	T	0.13	-29.9309	15.2283	0.73367	1.0:0.0:0.0:0.0	.	267	Q96EP9	NTCP4_HUMAN	T	267	ENSP00000273861:K267T	ENSP00000273861:K267T	K	+	2	0	SLC10A4	48181915	1.000000	0.71417	1.000000	0.80357	0.468000	0.32798	8.506000	0.90518	2.237000	0.73441	0.460000	0.39030	AAG		0.522	SLC10A4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219926.3	NM_152679	Missense_Mutation	C	48487158	A	C	48487158	5	2	691	1	0	0	0	0	0	0	1	0	14389	86	3	5	806	5	SLC10A4	4	48487158	Splice_Site	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	45570429	48487158	142667118	33	44924										
KIAA1211	57482	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	57182735	57182735	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	cctcgcccccaggccccgagGaaaggaagggacagaagagg	15	13	0	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr4:57182735G>A	ENST00000504228.1	+	6	3172	c.3067G>A	c.(3067-3069)Gaa>Aaa	p.E1023K	KIAA1211_ENST00000541073.1_Missense_Mutation_p.E1016K|KIAA1211_ENST00000264229.6_Missense_Mutation_p.E1023K			Q6ZU35	K1211_HUMAN	KIAA1211	1023										endometrium(7)|large_intestine(10)|lung(39)|ovary(2)|prostate(3)|skin(3)|stomach(1)	65	Glioma(25;0.08)|all_neural(26;0.101)					AGGCCCCGAGGAAAGGAAGGG	0.647																																																0													16	19	18					4																	57182735		1988	4152	6140	SO:0001583	missense	57482			AB033037	CCDS43230.1	4q12	2012-08-03			ENSG00000109265	ENSG00000109265			29219	protein-coding gene	gene with protein product						10574462, 11230166	Standard	NM_020722		Approved		uc003hbk.2	Q6ZU35	OTTHUMG00000160749	ENST00000504228.1:c.3067G>A	4.37:g.57182735G>A	ENSP00000423366:p.Glu1023Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NTE2|Q9NTP8|Q9ULK9	Missense_Mutation	SNP	ENST00000504228.1	37	CCDS43230.1	.	.	.	.	.	.	.	.	.	.	G	14.11	2.437122	0.43224	.	.	ENSG00000109265	ENST00000264229;ENST00000504228;ENST00000541073	T;T;T	0.78003	-1.14;-1.14;-1.14	5.24	3.44	0.39384	.	.	.	.	.	T	0.67970	0.2950	L	0.44542	1.39	0.09310	N	1	B;B;B	0.28350	0.208;0.084;0.084	B;B;B	0.21917	0.022;0.037;0.037	T	0.58301	-0.7660	9	0.44086	T	0.13	-11.2684	8.9225	0.35621	0.2382:0.0:0.7618:0.0	.	1016;1016;1023	B7ZVZ4;F5H1N7;Q6ZU35	.;.;K1211_HUMAN	K	1023;1023;1016	ENSP00000264229:E1023K;ENSP00000423366:E1023K;ENSP00000444006:E1016K	ENSP00000264229:E1023K	E	+	1	0	KIAA1211	56877492	0.169000	0.23002	0.190000	0.23270	0.164000	0.22412	2.380000	0.44327	1.140000	0.42260	0.561000	0.74099	GAA		0.647	KIAA1211-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362097.2	NM_020722		A	57182735	G	A	57182735	3	1	691	1	0	0	0	0	1	0	0	0	8222	1175	41	2	3085	2	KIAA1211	4	57182735	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	8695577	57182735	133971541	34	44925										
BTC	685	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	75695357	75695357	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ctgccaccacacagtgaaggAtcactagaccttcaaattca	6	13	3	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr4:75695357A>C	ENST00000395743.3	-	2	434	c.74T>G	c.(73-75)aTc>aGc	p.I25S		NM_001729.2	NP_001720.1	P35070	BTC_HUMAN	betacellulin	25					epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|negative regulation of apoptotic process (GO:0043066)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell differentiation (GO:0045597)|positive regulation of cell division (GO:0051781)|positive regulation of cell proliferation (GO:0008284)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of mitosis (GO:0045840)|positive regulation of urine volume (GO:0035810)	extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	epidermal growth factor receptor binding (GO:0005154)|growth factor activity (GO:0008083)			central_nervous_system(1)|cervix(1)|kidney(1)|large_intestine(3)|lung(2)|skin(1)|upper_aerodigestive_tract(1)	10			Lung(101;0.219)			ACAGTGAAGGATCACTAGACC	0.403																																																0													81	78	79					4																	75695357		2203	4300	6503	SO:0001583	missense	685			S55606	CCDS3566.1	4q13.3	2012-09-20			ENSG00000174808	ENSG00000174808			1121	protein-coding gene	gene with protein product		600345				8439318, 11522793	Standard	NM_001729		Approved		uc003hig.2	P35070	OTTHUMG00000130107	ENST00000395743.3:c.74T>G	4.37:g.75695357A>C	ENSP00000379092:p.Ile25Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q96F48	Missense_Mutation	SNP	ENST00000395743.3	37	CCDS3566.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	15.68|15.68	2.903687|2.903687	0.52333|0.52333	.|.	.|.	ENSG00000174808|ENSG00000174808	ENST00000395743|ENST00000512743	T|.	0.12672|.	2.66|.	4.03|4.03	4.03|4.03	0.46877|0.46877	.|.	0.209768|.	0.41823|.	D|.	0.000807|.	T|T	0.46964|0.46964	0.1420|0.1420	L|L	0.47716|0.47716	1.5|1.5	0.29910|0.29910	N|N	0.823672|0.823672	P|.	0.47677|.	0.899|.	P|.	0.48227|.	0.571|.	T|T	0.45352|0.45352	-0.9267|-0.9267	10|5	0.66056|.	D|.	0.02|.	-17.9524|-17.9524	9.6494|9.6494	0.39888|0.39888	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	25|.	P35070|.	BTC_HUMAN|.	S|A	25|4	ENSP00000379092:I25S|.	ENSP00000379092:I25S|.	I|S	-|-	2|1	0|0	BTC|BTC	75914381|75914381	1.000000|1.000000	0.71417|0.71417	0.974000|0.974000	0.42286|0.42286	0.841000|0.841000	0.47740|0.47740	2.227000|2.227000	0.42972|0.42972	2.055000|2.055000	0.61198|0.61198	0.482000|0.482000	0.46254|0.46254	ATC|TCC		0.403	BTC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252413.1			C	75695357	A	C	75695357	3	2	691	1	0	0	0	0	1	0	0	0	1551	333	12	5	478	5	BTC	4	75695357	Missense_Mutation	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	18512622	75695357	115458919	35	44926										
C4orf17	84103	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	100434294	100434294	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	cgagggcaaaggcagccataTtatggctagaaatgtaagct	12	7	0	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr4:100434294T>C	ENST00000326581.4	+	2	418	c.56T>C	c.(55-57)aTt>aCt	p.I19T	C4orf17_ENST00000514652.1_Missense_Mutation_p.I19T	NM_032149.2	NP_115525.2	Q53FE4	CD017_HUMAN	chromosome 4 open reading frame 17	19										central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(9)|prostate(1)|urinary_tract(3)	18				OV - Ovarian serous cystadenocarcinoma(123;2.08e-08)		GGCAGCCATATTATGGCTAGA	0.468																																																0													102	86	92					4																	100434294		2203	4300	6503	SO:0001583	missense	84103			AL136838	CCDS3649.1	4q23	2008-02-05			ENSG00000138813	ENSG00000138813			25274	protein-coding gene	gene with protein product						11230166	Standard	NM_032149		Approved	DKFZP434G072	uc003huw.3	Q53FE4	OTTHUMG00000131027	ENST00000326581.4:c.56T>C	4.37:g.100434294T>C	ENSP00000322582:p.Ile19Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FI84|Q6IS77|Q8NA78|Q9H0D9	Missense_Mutation	SNP	ENST00000326581.4	37	CCDS3649.1	.	.	.	.	.	.	.	.	.	.	T	10.04	1.242808	0.22796	.	.	ENSG00000138813	ENST00000326581;ENST00000514652	T;T	0.18338	2.22;2.22	4.76	-9.53	0.00575	.	1.807420	0.02601	N	0.101018	T	0.15089	0.0364	L	0.57536	1.79	0.09310	N	1	B	0.24426	0.103	B	0.25140	0.058	T	0.39354	-0.9618	10	0.66056	D	0.02	1.4304	5.5029	0.16838	0.1118:0.1614:0.5637:0.1631	.	19	Q53FE4	CD017_HUMAN	T	19	ENSP00000322582:I19T;ENSP00000427663:I19T	ENSP00000322582:I19T	I	+	2	0	C4orf17	100653317	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.503000	0.06383	-1.204000	0.02648	-0.256000	0.11100	ATT		0.468	C4orf17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253670.2	NM_032149		C	100434294	T	C	100434294	3	2	691	1	0	0	0	0	1	0	0	0	2254	1493	52	3	58	3	C4orf17	4	100434294	Missense_Mutation	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	24738937	100434294	90719982	36	44927										
TBCK	93627	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	107163709	107163709	+	Frame_Shift_Del	DEL	C	C	-													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gaccttgtccaaagctttcaCcatcctcaaagagaaaactg					rs371959745		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr4:107163709delC	ENST00000273980.5	-	13	1535	c.1088delG	c.(1087-1089)ggtfs	p.G363fs	TBCK_ENST00000432496.2_Frame_Shift_Del_p.G363fs|TBCK_ENST00000394706.3_Frame_Shift_Del_p.G324fs|TBCK_ENST00000394708.2_Frame_Shift_Del_p.G363fs|TBCK_ENST00000361687.4_Frame_Shift_Del_p.G300fs					TBC1 domain containing kinase											NS(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(9)|ovary(1)|pancreas(1)|prostate(3)|stomach(1)|upper_aerodigestive_tract(1)	25						AAAGCTTTCACCATCCTCAAA	0.313																																																0													67	65	66					4																	107163709		2203	4300	6503	SO:0001589	frameshift_variant	93627				CCDS3673.1, CCDS54788.1, CCDS54789.1	4q24	2014-09-17			ENSG00000145348	ENSG00000145348			28261	protein-coding gene	gene with protein product						12471243	Standard	XR_427553		Approved	MGC16169, HSPC302	uc010ilv.2	Q8TEA7	OTTHUMG00000131214	ENST00000273980.5:c.1088delG	4.37:g.107163709delC	ENSP00000273980:p.Gly363fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000273980.5	37	CCDS54788.1																																																																																				0.313	TBCK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253953.4	NM_033115		-	107163709	C	-	107163709	7	5	691	1	0	1	0	1	0	0	0	0	15648	507	18	0	1653	0	TBCK	4	107163709	Frame_Shift_Del	DEL	C	TCGA-MH-A55Z-01A-11D-A26P-10	6729415	107163709	83990567	37	44928										
NDST3	9348	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	118975229	118975229	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	agaagttgactgtggcgaccTccaacacctaccatatcaac	7	13	1	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr4:118975229T>G	ENST00000296499.5	+	2	567	c.164T>G	c.(163-165)cTc>cGc	p.L55R	NDST3_ENST00000433996.2_Missense_Mutation_p.L55R	NM_004784.2	NP_004775.1	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 3	55	Heparan sulfate N-deacetylase 3.				heparan sulfate proteoglycan biosynthetic process (GO:0015012)|heparin biosynthetic process (GO:0030210)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	[heparan sulfate]-glucosamine N-sulfotransferase activity (GO:0015016)|deacetylase activity (GO:0019213)			NS(1)|breast(3)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(23)|prostate(1)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	54						TGTGGCGACCTCCAACACCTA	0.443																																																0													115	113	114					4																	118975229		2203	4300	6503	SO:0001583	missense	9348			AF074924	CCDS3708.1	4q26	2008-08-04			ENSG00000164100	ENSG00000164100		"Sulfotransferases, membrane-bound"	7682	protein-coding gene	gene with protein product		603950				9915799	Standard	NM_004784		Approved	HSST3	uc003ibx.3	O95803	OTTHUMG00000132959	ENST00000296499.5:c.164T>G	4.37:g.118975229T>G	ENSP00000296499:p.Leu55Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DI67|Q4W5C1|Q4W5D0|Q6UWC5|Q9UP21	Missense_Mutation	SNP	ENST00000296499.5	37	CCDS3708.1	.	.	.	.	.	.	.	.	.	.	T	12.23	1.875654	0.33162	.	.	ENSG00000164100	ENST00000296499;ENST00000433996	T;T	0.44881	1.24;0.91	5.53	5.53	0.82687	.	0.404758	0.24922	N	0.034522	T	0.29491	0.0735	N	0.26042	0.785	0.31434	N	0.672752	B;B;P	0.49559	0.001;0.091;0.925	B;B;P	0.44990	0.002;0.148;0.466	T	0.17806	-1.0357	10	0.15499	T	0.54	.	7.5856	0.27991	0.0:0.0731:0.1414:0.7856	.	55;55;55	B4DI67;O95803;O95803-2	.;NDST3_HUMAN;.	R	55	ENSP00000296499:L55R;ENSP00000396625:L55R	ENSP00000296499:L55R	L	+	2	0	NDST3	119194677	0.051000	0.20477	0.954000	0.39281	0.344000	0.29017	1.922000	0.40045	2.083000	0.62718	0.528000	0.53228	CTC		0.443	NDST3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256517.4	NM_004784		G	118975229	T	G	118975229	3	3	691	1	0	0	0	0	1	0	0	0	10264	1551	54	5	166	5	NDST3	4	118975229	Missense_Mutation	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	11811520	118975229	72179047	38	44929										
SH3D19	152503	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	152096316	152096316	+	Missense_Mutation	SNP	T	T	A													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tctcagtcccagagtcccacTctccagaagctctgttagca							TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr4:152096316T>A	ENST00000409252.2	-	6	907	c.200A>T	c.(199-201)gAg>gTg	p.E67V	SH3D19_ENST00000455740.1_Missense_Mutation_p.E67V|SH3D19_ENST00000304527.4_Missense_Mutation_p.E67V|SH3D19_ENST00000427414.2_Missense_Mutation_p.E67V|SH3D19_ENST00000409598.4_Missense_Mutation_p.E67V|SH3D19_ENST00000424281.1_Missense_Mutation_p.E67V|SH3D19_ENST00000604030.1_5'Flank|SH3D19_ENST00000514152.1_Missense_Mutation_p.E67V			Q5HYK7	SH319_HUMAN	SH3 domain containing 19	67					cytoskeleton organization (GO:0007010)|membrane organization (GO:0061024)|positive regulation of membrane protein ectodomain proteolysis (GO:0051044)|post-Golgi vesicle-mediated transport (GO:0006892)|regulation of cell morphogenesis (GO:0022604)	cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	proline-rich region binding (GO:0070064)			autonomic_ganglia(1)|endometrium(1)|large_intestine(3)|lung(10)|ovary(1)|skin(3)|urinary_tract(1)	20	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)				AGAGTCCCACTCTCCAGAAGC	0.517																																																0													85	85	85					4																	152096316		2203	4300	6503	SO:0001583	missense	152503			BX647422	CCDS34077.2, CCDS47143.1, CCDS47144.1	4q31.3	2009-03-05	2009-03-05	2009-03-05	ENSG00000109686	ENSG00000109686			30418	protein-coding gene	gene with protein product	"EEN binding protein"	608674				12477932	Standard	NM_001009555		Approved	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19	uc010ipl.1	Q5HYK7	OTTHUMG00000154051	ENST00000409252.2:c.200A>T	4.37:g.152096316T>A	ENSP00000386848:p.Glu67Val	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z296|Q08EK1|Q32N10|Q5U3B8|Q86XB3|Q8N5E7|Q9UFC8	Missense_Mutation	SNP	ENST00000409252.2	37	CCDS34077.2	.	.	.	.	.	.	.	.	.	.	T	21.3	4.134175	0.77662	.	.	ENSG00000109686	ENST00000409598;ENST00000304527;ENST00000455740;ENST00000424281;ENST00000427414;ENST00000409252;ENST00000514152	T;T;T;T;T;T;T	0.06449	3.3;3.3;3.3;3.3;3.3;3.3;3.3	6.07	3.59	0.41128	.	2.410060	0.02778	U	0.120587	T	0.23451	0.0567	M	0.62723	1.935	0.38335	D	0.943906	D;D;D	0.63046	0.969;0.982;0.992	P;P;P	0.61397	0.625;0.849;0.888	T	0.00024	-1.2325	10	0.87932	D	0	-8.5478	10.825	0.46627	0.0:0.1277:0.0:0.8723	.	67;67;67	Q5HYK7;Q5HYK7-2;Q5HYK7-3	SH319_HUMAN;.;.	V	67	ENSP00000387030:E67V;ENSP00000302913:E67V;ENSP00000416708:E67V;ENSP00000404542:E67V;ENSP00000415694:E67V;ENSP00000386848:E67V;ENSP00000423449:E67V	ENSP00000302913:E67V	E	-	2	0	SH3D19	152315766	0.997000	0.39634	0.976000	0.42696	0.954000	0.61252	2.976000	0.49289	0.514000	0.28300	0.533000	0.62120	GAG		0.517	SH3D19-002	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000335132.3	NM_001009555		A	152096316	T	A	152096316	3	1	691	1	0	0	0	0	1	0	0	0	14262	1551	54	5	2232	5	SH3D19	4	152096316	Missense_Mutation	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	33121087	152096316	39057960	39	44930	484	3								
SH3D19	152503	hgsc.bcm.edu;bcgsc.ca	37	chr4	152096322	152096322	+	Missense_Mutation	SNP	G	G	A													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tcccagagtcccactctccaGaagctctgttagcagctggt							TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr4:152096322G>A	ENST00000409252.2	-	6	901	c.194C>T	c.(193-195)tCt>tTt	p.S65F	SH3D19_ENST00000455740.1_Missense_Mutation_p.S65F|SH3D19_ENST00000304527.4_Missense_Mutation_p.S65F|SH3D19_ENST00000427414.2_Missense_Mutation_p.S65F|SH3D19_ENST00000409598.4_Missense_Mutation_p.S65F|SH3D19_ENST00000424281.1_Missense_Mutation_p.S65F|SH3D19_ENST00000604030.1_5'Flank|SH3D19_ENST00000514152.1_Missense_Mutation_p.S65F			Q5HYK7	SH319_HUMAN	SH3 domain containing 19	65					cytoskeleton organization (GO:0007010)|membrane organization (GO:0061024)|positive regulation of membrane protein ectodomain proteolysis (GO:0051044)|post-Golgi vesicle-mediated transport (GO:0006892)|regulation of cell morphogenesis (GO:0022604)	cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	proline-rich region binding (GO:0070064)			autonomic_ganglia(1)|endometrium(1)|large_intestine(3)|lung(10)|ovary(1)|skin(3)|urinary_tract(1)	20	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)				CCACTCTCCAGAAGCTCTGTT	0.527																																																0													85	85	85					4																	152096322		2203	4300	6503	SO:0001583	missense	152503			BX647422	CCDS34077.2, CCDS47143.1, CCDS47144.1	4q31.3	2009-03-05	2009-03-05	2009-03-05	ENSG00000109686	ENSG00000109686			30418	protein-coding gene	gene with protein product	"EEN binding protein"	608674				12477932	Standard	NM_001009555		Approved	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19	uc010ipl.1	Q5HYK7	OTTHUMG00000154051	ENST00000409252.2:c.194C>T	4.37:g.152096322G>A	ENSP00000386848:p.Ser65Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z296|Q08EK1|Q32N10|Q5U3B8|Q86XB3|Q8N5E7|Q9UFC8	Missense_Mutation	SNP	ENST00000409252.2	37	CCDS34077.2	.	.	.	.	.	.	.	.	.	.	G	19.49	3.838322	0.71373	.	.	ENSG00000109686	ENST00000409598;ENST00000304527;ENST00000455740;ENST00000424281;ENST00000427414;ENST00000409252;ENST00000514152	T;T;T;T;T;T;T	0.06068	3.35;3.35;3.35;3.35;3.35;3.35;3.35	6.07	4.34	0.51931	.	0.591075	0.16731	N	0.201834	T	0.21674	0.0522	M	0.64997	1.995	0.35608	D	0.808417	D;D;D	0.89917	0.999;1.0;1.0	D;D;D	0.91635	0.998;0.999;0.999	T	0.08534	-1.0717	10	0.87932	D	0	-5.1533	12.0719	0.53622	0.0648:0.1217:0.8135:0.0	.	65;65;65	Q5HYK7;Q5HYK7-2;Q5HYK7-3	SH319_HUMAN;.;.	F	65	ENSP00000387030:S65F;ENSP00000302913:S65F;ENSP00000416708:S65F;ENSP00000404542:S65F;ENSP00000415694:S65F;ENSP00000386848:S65F;ENSP00000423449:S65F	ENSP00000302913:S65F	S	-	2	0	SH3D19	152315772	1.000000	0.71417	0.999000	0.59377	0.986000	0.74619	5.083000	0.64456	0.883000	0.36040	0.655000	0.94253	TCT		0.527	SH3D19-002	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000335132.3	NM_001009555		A	152096322	G	A	152096322	3	1	691	1	0	0	0	0	1	0	0	0	14262	942	33	2	2238	2	SH3D19	4	152096322	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	6	152096322	39057954	40	44931	484	3								
SH3D19	152503	hgsc.bcm.edu;bcgsc.ca	37	chr4	152096326	152096326	+	Frame_Shift_Del	DEL	C	C	-													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	agagtcccactctccagaagCtctgttagcagctggtttgg							TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr4:152096326delC	ENST00000409252.2	-	6	897	c.190delG	c.(190-192)gctfs	p.A64fs	SH3D19_ENST00000455740.1_Frame_Shift_Del_p.A64fs|SH3D19_ENST00000304527.4_Frame_Shift_Del_p.A64fs|SH3D19_ENST00000427414.2_Frame_Shift_Del_p.A64fs|SH3D19_ENST00000409598.4_Frame_Shift_Del_p.A64fs|SH3D19_ENST00000424281.1_Frame_Shift_Del_p.A64fs|SH3D19_ENST00000604030.1_5'Flank|SH3D19_ENST00000514152.1_Frame_Shift_Del_p.A64fs			Q5HYK7	SH319_HUMAN	SH3 domain containing 19	64					cytoskeleton organization (GO:0007010)|membrane organization (GO:0061024)|positive regulation of membrane protein ectodomain proteolysis (GO:0051044)|post-Golgi vesicle-mediated transport (GO:0006892)|regulation of cell morphogenesis (GO:0022604)	cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	proline-rich region binding (GO:0070064)			autonomic_ganglia(1)|endometrium(1)|large_intestine(3)|lung(10)|ovary(1)|skin(3)|urinary_tract(1)	20	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)				TCTCCAGAAGCTCTGTTAGCA	0.532																																																0													86	86	86					4																	152096326		2203	4300	6503	SO:0001589	frameshift_variant	152503			BX647422	CCDS34077.2, CCDS47143.1, CCDS47144.1	4q31.3	2009-03-05	2009-03-05	2009-03-05	ENSG00000109686	ENSG00000109686			30418	protein-coding gene	gene with protein product	"EEN binding protein"	608674				12477932	Standard	NM_001009555		Approved	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19	uc010ipl.1	Q5HYK7	OTTHUMG00000154051	ENST00000409252.2:c.190delG	4.37:g.152096326delC	ENSP00000386848:p.Ala64fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z296|Q08EK1|Q32N10|Q5U3B8|Q86XB3|Q8N5E7|Q9UFC8	Frame_Shift_Del	DEL	ENST00000409252.2	37	CCDS34077.2																																																																																				0.532	SH3D19-002	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000335132.3	NM_001009555		-	152096326	C	-	152096326	7	5	691	1	0	1	0	1	0	0	0	0	14262	797	28	0	2242	0	SH3D19	4	152096326	Frame_Shift_Del	DEL	C	TCGA-MH-A55Z-01A-11D-A26P-10	4	152096326	39057950	41	44932	484	3								
FSTL5	56884	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	162307106	162307106	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	agtggttccttgagactcttTatcatcttgaccttcccaga	7	11	3	3			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr4:162307106T>A	ENST00000306100.5	-	16	2773	c.2337A>T	c.(2335-2337)atA>atT	p.I779I	FSTL5_ENST00000536695.1_Silent_p.I778I|RP11-234O6.2_ENST00000508189.1_RNA|FSTL5_ENST00000427802.2_Silent_p.I769I|FSTL5_ENST00000379164.4_Silent_p.I778I	NM_001128427.2|NM_020116.4	NP_001121899.1|NP_064501.2	Q8N475	FSTL5_HUMAN	follistatin-like 5	779						extracellular region (GO:0005576)	calcium ion binding (GO:0005509)			central_nervous_system(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(18)|lung(43)|ovary(4)|pancreas(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)	91	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TGAGACTCTTTATCATCTTGA	0.458																																																0													179	163	168					4																	162307106		2203	4300	6503	SO:0001819	synonymous_variant	56884			BC036502	CCDS3802.1, CCDS47157.1, CCDS47158.1	4q32.3	2013-01-11			ENSG00000168843	ENSG00000168843		"EF-hand domain containing", "Immunoglobulin superfamily / I-set domain containing"	21386	protein-coding gene	gene with protein product						10574462, 15527507	Standard	NM_020116		Approved	DKFZp566D234, KIAA1263	uc003iqh.4	Q8N475	OTTHUMG00000161397	ENST00000306100.5:c.2337A>T	4.37:g.162307106T>A		Somatic		WXS	Illumina HiSeq	Phase_I	E9PCP6|Q9NSW7|Q9ULF7	Silent	SNP	ENST00000306100.5	37	CCDS3802.1																																																																																				0.458	FSTL5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000364773.2	NM_020116		A	162307106	T	A	162307106	2	1	691	1	0	0	0	0	0	0	0	1	6087	1744	61	5		5	FSTL5	4	162307106	Silent	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	10210780	162307106	28847170	42	44933										
WDR17	116966	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	177089815	177089815	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gaagtgtccccttttgttacGttaacaggaatttggcagct	10	8	0	0	rs371828424		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr4:177089815G>C	ENST00000280190.4	+	25	3256	c.3100G>C	c.(3100-3102)Gtt>Ctt	p.V1034L	WDR17_ENST00000393643.2_Missense_Mutation_p.V1010L|WDR17_ENST00000507824.2_Intron|WDR17_ENST00000508596.1_Intron			Q8IZU2	WDR17_HUMAN	WD repeat domain 17	1034										breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(18)|lung(46)|ovary(2)|pancreas(1)|prostate(3)|skin(5)|stomach(1)|upper_aerodigestive_tract(6)|urinary_tract(1)	92		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)		CTTTTGTTACGTTAACAGGAA	0.338																																																0													134	127	129					4																	177089815		2203	4300	6503	SO:0001583	missense	116966			AF492460	CCDS3825.1, CCDS43284.1, CCDS43284.2	4q34	2013-01-09			ENSG00000150627	ENSG00000150627		"WD repeat domain containing"	16661	protein-coding gene	gene with protein product		609005				12401215	Standard	NM_170710		Approved		uc003iuj.3	Q8IZU2	OTTHUMG00000160791	ENST00000280190.4:c.3100G>C	4.37:g.177089815G>C	ENSP00000280190:p.Val1034Leu	Somatic		WXS	Illumina HiSeq	Phase_I	E7EQX0|Q0QD35	Missense_Mutation	SNP	ENST00000280190.4	37	CCDS3825.1	.	.	.	.	.	.	.	.	.	.	g	1.369	-0.586595	0.03827	.	.	ENSG00000150627	ENST00000393643;ENST00000280190;ENST00000507824	T;T	0.54866	0.61;0.55	5.1	-2.02	0.07388	.	0.528184	0.15689	N	0.249514	T	0.20292	0.0488	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.27773	-1.0064	10	0.02654	T	1	0.4761	4.7601	0.13104	0.4883:0.0:0.3534:0.1582	.	1034	Q8IZU2	WDR17_HUMAN	L	1010;1034;1010	ENSP00000377258:V1010L;ENSP00000280190:V1034L	ENSP00000280190:V1034L	V	+	1	0	WDR17	177326809	0.081000	0.21417	0.000000	0.03702	0.003000	0.03518	-0.019000	0.12546	-0.243000	0.09653	-1.290000	0.01357	GTT		0.338	WDR17-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000362334.2			C	177089815	G	C	177089815	3	2	691	1	0	0	0	0	1	0	0	0	17289	1145	40	4	3194	4	WDR17	4	177089815	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	14782709	177089815	14064461	43	44934										
CCDC110	256309	ucsc.edu;bcgsc.ca	37	chr4	186382296	186382296	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	atacttttgttcaatatttcActgatttccgactgtacctt	4	9	2	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr4:186382296A>G	ENST00000307588.3	-	5	330	c.255T>C	c.(253-255)agT>agC	p.S85S	CCDC110_ENST00000507501.1_5'UTR|CCDC110_ENST00000393540.3_Intron|CCDC110_ENST00000510617.1_Silent_p.S85S	NM_152775.3	NP_689988.1	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110	85						nucleus (GO:0005634)				NS(1)|breast(1)|central_nervous_system(2)|endometrium(6)|kidney(3)|large_intestine(8)|lung(9)	30		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)		TCAATATTTCACTGATTTCCG	0.284																																																0													101	100	101					4																	186382296		2203	4297	6500	SO:0001819	synonymous_variant	256309			AB080722	CCDS3843.1, CCDS47170.1	4q35.1	2010-12-24			ENSG00000168491	ENSG00000168491			28504	protein-coding gene	gene with protein product	"cancer/testis antigen 52"	609488				18160854	Standard	NM_152775		Approved	KM-HN-1, MGC33607, CT52	uc003ixu.4	Q8TBZ0	OTTHUMG00000160415	ENST00000307588.3:c.255T>C	4.37:g.186382296A>G		Somatic		WXS	Illumina HiSeq		Q86YI9|Q8N7W0	Silent	SNP	ENST00000307588.3	37	CCDS3843.1																																																																																				0.284	CCDC110-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000360519.2	NM_152775		G	186382296	A	G	186382296	2	3	691	1	0	0	0	0	0	0	0	1	2749	156	6	3		3	CCDC110	4	186382296	Silent	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	9292481	186382296	4771980	44	44935										
TNPO1	3842	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	72183032	72183032	+	Nonsense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	agaatcaggcattttggtttTaggagcaattgctgaaggta	12	4	1	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr5:72183032T>G	ENST00000337273.5	+	12	1712	c.1286T>G	c.(1285-1287)tTa>tGa	p.L429*	TNPO1_ENST00000523768.1_Nonsense_Mutation_p.L379*|TNPO1_ENST00000454282.1_Nonsense_Mutation_p.L379*|TNPO1_ENST00000506351.2_Nonsense_Mutation_p.L421*	NM_002270.3	NP_002261.3	Q92973	TNPO1_HUMAN	transportin 1	429					gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|protein import into nucleus, translocation (GO:0000060)|RNA metabolic process (GO:0016070)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	nuclear localization sequence binding (GO:0008139)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(4)|large_intestine(10)|lung(6)|ovary(1)|prostate(2)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	36		Lung NSC(167;0.0053)|Ovarian(174;0.0175)		OV - Ovarian serous cystadenocarcinoma(47;6.14e-54)		ATTTTGGTTTTAGGAGCAATT	0.358																																																0													99	97	98					5																	72183032		2203	4300	6503	SO:0001587	stop_gained	3842			U70322	CCDS4016.1, CCDS43329.1	5q13.1	2009-01-12	2004-01-29	2004-01-30	ENSG00000083312	ENSG00000083312		"Importins"	6401	protein-coding gene	gene with protein product	"importin 2"	602901	"karyopherin (importin) beta 2"	KPNB2		8808633, 9144189	Standard	NM_153188		Approved	MIP, TRN, IPO2, MIP1	uc003kci.4	Q92973	OTTHUMG00000100967	ENST00000337273.5:c.1286T>G	5.37:g.72183032T>G	ENSP00000336712:p.Leu429*	Somatic		WXS	Illumina HiSeq	Phase_I	B4DVC6|Q92957|Q92975	Nonsense_Mutation	SNP	ENST00000337273.5	37	CCDS43329.1	.	.	.	.	.	.	.	.	.	.	T	26.8	4.770905	0.90108	.	.	ENSG00000083312	ENST00000337273;ENST00000454282;ENST00000523768;ENST00000506351	.	.	.	5.19	5.19	0.71726	.	0.000000	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-7.9103	15.3454	0.74334	0.0:0.0:0.0:1.0	.	.	.	.	X	429;379;379;421	.	ENSP00000336712:L429X	L	+	2	0	TNPO1	72218788	1.000000	0.71417	1.000000	0.80357	0.915000	0.54546	7.651000	0.83577	2.099000	0.63709	0.528000	0.53228	TTA		0.358	TNPO1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000218577.3	NM_002270		G	72183032	T	G	72183032	4	3	691	1	0	0	0	0	0	1	0	0	16347	1764	61	5	1332	5	TNPO1	5	72183032	Nonsense_Mutation	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10		72183032	108732228	45	44936										
BRD8	10902	ucsc.edu;bcgsc.ca	37	chr5	137507060	137507060	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ttgtactcactttggtgtctCagtggtctctaaaagctccg	9	10	3	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr5:137507060C>T	ENST00000254900.5	-	4	597	c.226G>A	c.(226-228)Gag>Aag	p.E76K	BRD8_ENST00000411594.2_Missense_Mutation_p.E76K|BRD8_ENST00000455658.2_Missense_Mutation_p.E35K|BRD8_ENST00000230901.5_Missense_Mutation_p.E76K|BRD8_ENST00000402931.1_Missense_Mutation_p.E76K	NM_139199.1	NP_631938	Q9H0E9	BRD8_HUMAN	bromodomain containing 8	76					cell surface receptor signaling pathway (GO:0007166)|chromatin organization (GO:0006325)|histone H2A acetylation (GO:0043968)|histone H4 acetylation (GO:0043967)|intracellular receptor signaling pathway (GO:0030522)|regulation of growth (GO:0040008)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)	mitochondrion (GO:0005739)|NuA4 histone acetyltransferase complex (GO:0035267)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|Swr1 complex (GO:0000812)	sequence-specific DNA binding transcription factor activity (GO:0003700)|thyroid hormone receptor activity (GO:0004887)			breast(2)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(9)|ovary(1)|prostate(1)|skin(1)|stomach(3)|urinary_tract(1)	35			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			TTTGGTGTCTCAGTGGTCTCT	0.368																																																0													121	122	122					5																	137507060		2203	4300	6503	SO:0001583	missense	10902			AF016270	CCDS4198.1, CCDS34241.1, CCDS54907.1	5q31	2008-02-05			ENSG00000112983	ENSG00000112983			19874	protein-coding gene	gene with protein product		602848				8611617, 9368056	Standard	NM_001164326		Approved	SMAP, p120	uc003lcf.1	Q9H0E9	OTTHUMG00000129204	ENST00000254900.5:c.226G>A	5.37:g.137507060C>T	ENSP00000254900:p.Glu76Lys	Somatic		WXS	Illumina HiSeq		O43178|Q15355|Q58AB0|Q59GN0|Q969M9	Missense_Mutation	SNP	ENST00000254900.5	37	CCDS4198.1	.	.	.	.	.	.	.	.	.	.	C	34	5.410624	0.96072	.	.	ENSG00000112983	ENST00000254900;ENST00000454473;ENST00000418329;ENST00000230901;ENST00000402931;ENST00000411594;ENST00000455658;ENST00000430331	T;T;T;T;T;T;T	0.48201	1.29;0.84;0.84;0.98;1.05;0.82;1.08	5.41	5.41	0.78517	.	0.000000	0.85682	D	0.000000	T	0.60418	0.2267	L	0.32530	0.975	0.80722	D	1	D;D;D;D;D;D	0.69078	0.99;0.997;0.993;0.996;0.996;0.997	D;D;D;D;D;D	0.76071	0.979;0.98;0.956;0.987;0.987;0.985	T	0.62553	-0.6830	10	0.72032	D	0.01	-12.8674	18.5411	0.91029	0.0:1.0:0.0:0.0	.	35;60;76;76;76;76	F8W820;B4DN43;A8K1N6;Q9H0E9-4;Q9H0E9-2;Q9H0E9	.;.;.;.;.;BRD8_HUMAN	K	76;71;71;76;76;76;35;120	ENSP00000254900:E76K;ENSP00000398067:E71K;ENSP00000398873:E71K;ENSP00000230901:E76K;ENSP00000384845:E76K;ENSP00000394330:E76K;ENSP00000408396:E35K	ENSP00000230901:E76K	E	-	1	0	BRD8	137534959	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	7.719000	0.84751	2.697000	0.92050	0.563000	0.77884	GAG		0.368	BRD8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251282.3	NM_006696		T	137507060	C	T	137507060	3	4	691	1	0	0	0	0	1	0	0	0	1508	835	29	2	3864	2	BRD8	5	137507060	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	65324028	137507060	43408200	46	44937										
SLC23A1	9963	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	138718252	138718252	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gtacaacatgtcaaacttagGctctgtgggtagcggggtcg	14	8	2	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr5:138718252G>A	ENST00000348729.3	-	2	125	c.79C>T	c.(79-81)Cct>Tct	p.P27S	SLC23A1_ENST00000503919.1_5'UTR|SLC23A1_ENST00000353963.3_Missense_Mutation_p.P27S	NM_005847.4	NP_005838	Q9UHI7	S23A1_HUMAN	solute carrier family 23 (ascorbic acid transporter), member 1	27					brain development (GO:0007420)|dehydroascorbic acid transport (GO:0070837)|L-ascorbic acid metabolic process (GO:0019852)|L-ascorbic acid transport (GO:0015882)|lung development (GO:0030324)|nucleobase transport (GO:0015851)|nucleobase-containing compound metabolic process (GO:0006139)|response to toxic substance (GO:0009636)|small molecule metabolic process (GO:0044281)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)|transepithelial L-ascorbic acid transport (GO:0070904)|vitamin metabolic process (GO:0006766)|vitamin transmembrane transport (GO:0035461)|water-soluble vitamin metabolic process (GO:0006767)	apical plasma membrane (GO:0016324)|basal plasma membrane (GO:0009925)|brush border (GO:0005903)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|intracellular organelle (GO:0043229)|membrane (GO:0016020)|plasma membrane (GO:0005886)	dehydroascorbic acid transporter activity (GO:0033300)|L-ascorbate:sodium symporter activity (GO:0008520)|L-ascorbic acid transporter activity (GO:0015229)|nucleobase transmembrane transporter activity (GO:0015205)|sodium ion transmembrane transporter activity (GO:0015081)|sodium-dependent L-ascorbate transmembrane transporter activity (GO:0070890)			biliary_tract(1)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(5)|liver(2)|lung(5)|ovary(1)	19			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)		Vitamin C(DB00126)	TCAAACTTAGGCTCTGTGGGT	0.582																																																0													134	111	118					5																	138718252		2203	4300	6503	SO:0001583	missense	9963			AF058317	CCDS4212.1, CCDS4213.1	5q31.2	2013-07-18	2013-07-18	2003-03-21	ENSG00000170482	ENSG00000170482		"Solute carriers"	10974	protein-coding gene	gene with protein product		603790	"solute carrier family 23 (nucleobase transporters), member 2"	SLC23A2		9804989, 10331392	Standard	NM_005847		Approved	YSPL3, SVCT1	uc003leg.3	Q9UHI7	OTTHUMG00000129228	ENST00000348729.3:c.79C>T	5.37:g.138718252G>A	ENSP00000302701:p.Pro27Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O95191|Q8WWB6|Q9UGH4|Q9UI39	Missense_Mutation	SNP	ENST00000348729.3	37	CCDS4212.1	.	.	.	.	.	.	.	.	.	.	G	10.65	1.410755	0.25465	.	.	ENSG00000170482	ENST00000353963;ENST00000348729;ENST00000339881;ENST00000453898;ENST00000508270	T;T	0.17370	2.28;2.29	4.68	2.9	0.33743	.	0.428794	0.24659	N	0.036652	T	0.08670	0.0215	N	0.08118	0	0.31262	N	0.692759	B;B	0.06786	0.001;0.0	B;B	0.04013	0.001;0.001	T	0.06552	-1.0820	10	0.87932	D	0	-27.6722	8.6703	0.34145	0.1818:0.0:0.8182:0.0	.	27;27	Q9UHI7;Q9UHI7-2	S23A1_HUMAN;.	S	27;27;27;27;101	ENSP00000302851:P27S;ENSP00000302701:P27S	ENSP00000343584:P27S	P	-	1	0	SLC23A1	138746151	0.993000	0.37304	0.987000	0.45799	0.446000	0.32137	1.322000	0.33689	0.600000	0.29862	0.456000	0.33151	CCT		0.582	SLC23A1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000374185.1	NM_152685		A	138718252	G	A	138718252	3	1	691	1	0	0	0	0	1	0	0	0	14475	1203	42	2	1781	2	SLC23A1	5	138718252	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	1211192	138718252	42197008	47	44938										
FAT2	2196	hgsc.bcm.edu	37	chr5	150911353	150911353	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	accaccgagactgtgacggtGcccagcgtggacagcggtat	14	12	0	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr5:150911353G>A	ENST00000261800.5	-	13	9618	c.9606C>T	c.(9604-9606)ggC>ggT	p.G3202G		NM_001447.2	NP_001438.1	Q9NYQ8	FAT2_HUMAN	FAT atypical cadherin 2	3202	Cadherin 28. {ECO:0000255|PROSITE- ProRule:PRU00043}.				epithelial cell migration (GO:0010631)|homophilic cell adhesion (GO:0007156)	cell-cell adherens junction (GO:0005913)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(6)|breast(3)|central_nervous_system(3)|cervix(5)|endometrium(15)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(61)|liver(1)|lung(60)|ovary(6)|prostate(5)|skin(5)|stomach(2)|upper_aerodigestive_tract(11)|urinary_tract(1)	196		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTGTGACGGTGCCCAGCGTGG	0.672																																																0													101	89	93					5																	150911353		2203	4300	6503	SO:0001819	synonymous_variant	2196			AF231022	CCDS4317.1	5q33.1	2014-07-21	2013-05-31		ENSG00000086570	ENSG00000086570		"Cadherins / Cadherin-related"	3596	protein-coding gene	gene with protein product	"cadherin-related family member 9"	604269	"FAT tumor suppressor (Drosophila) homolog 2", "FAT tumor suppressor homolog 2 (Drosophila)"			9693030	Standard	NM_001447		Approved	MEGF1, CDHF8, HFAT2, CDHR9	uc003lue.4	Q9NYQ8	OTTHUMG00000130126	ENST00000261800.5:c.9606C>T	5.37:g.150911353G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O75091|Q9NSR7	Silent	SNP	ENST00000261800.5	37	CCDS4317.1	.	.	.	.	.	.	.	.	.	.	G	5.409	0.260626	0.10239	.	.	ENSG00000086570	ENST00000520200	.	.	.	5.34	3.55	0.40652	.	.	.	.	.	T	0.55673	0.1935	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.49133	-0.8971	4	.	.	.	.	6.8949	0.24251	0.1533:0.1441:0.7025:0.0	.	.	.	.	Y	61	.	.	H	-	1	0	FAT2	150891546	1.000000	0.71417	1.000000	0.80357	0.436000	0.31835	2.210000	0.42816	0.630000	0.30394	0.557000	0.71058	CAC		0.672	FAT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252434.1	NM_001447		A	150911353	G	A	150911353	2	1	691	1	0	0	0	0	0	0	0	1	5697	1306	46	2		2	FAT2	5	150911353	Silent	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	12193101	150911353	30003907	48	44939										
LCP2	3937	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	169680134	169680134	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ctctcttacctcttcctccgCgggggatgggggccgaggtt	14	13	2	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr5:169680134C>T	ENST00000046794.5	-	18	1849	c.1234G>A	c.(1234-1236)Gcg>Acg	p.A412T	LCP2_ENST00000521416.1_Missense_Mutation_p.A207T	NM_005565.3	NP_005556.1	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2 (SH2 domain containing leukocyte protein of 76kDa)	412					blood coagulation (GO:0007596)|cytokine secretion (GO:0050663)|Fc-epsilon receptor signaling pathway (GO:0038095)|immune response (GO:0006955)|innate immune response (GO:0045087)|mast cell activation (GO:0045576)|platelet activation (GO:0030168)|T cell receptor signaling pathway (GO:0050852)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cell-cell junction (GO:0005911)|cytosol (GO:0005829)				cervix(1)|endometrium(1)|kidney(3)|large_intestine(4)|lung(12)|ovary(1)|upper_aerodigestive_tract(1)	23	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)		TCTTCCTCCGCGGGGGATGGG	0.458																																																0													36	34	35					5																	169680134		1815	4077	5892	SO:0001583	missense	3937				CCDS47339.1	5q35.1	2013-02-14	2002-08-29		ENSG00000043462	ENSG00000043462		"SH2 domain containing"	6529	protein-coding gene	gene with protein product	"76 kDa tyrosine phosphoprotein", "SH2 domain-containing leukocyte protein of 76kD"	601603	"lymphocyte cytosolic protein 2 (SH2 domain-containing leukocyte protein of 76kD)"	SLP76		7706237	Standard	NM_005565		Approved	SLP-76	uc003man.1	Q13094	OTTHUMG00000163121	ENST00000046794.5:c.1234G>A	5.37:g.169680134C>T	ENSP00000046794:p.Ala412Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8KA25|Q53XV4	Missense_Mutation	SNP	ENST00000046794.5	37	CCDS47339.1	.	.	.	.	.	.	.	.	.	.	C	10.23	1.293873	0.23564	.	.	ENSG00000043462	ENST00000046794;ENST00000521416	D;D	0.92805	-3.11;-3.11	5.74	3.01	0.34805	.	0.541975	0.19974	N	0.101934	T	0.75481	0.3855	N	0.02539	-0.55	0.09310	N	1	B;B	0.18610	0.029;0.001	B;B	0.08055	0.003;0.001	T	0.62835	-0.6770	9	.	.	.	-3.3438	5.838	0.18617	0.154:0.685:0.0:0.1611	.	207;412	E7ESF6;Q13094	.;LCP2_HUMAN	T	412;207	ENSP00000046794:A412T;ENSP00000428871:A207T	.	A	-	1	0	LCP2	169612712	0.001000	0.12720	0.002000	0.10522	0.112000	0.19704	0.873000	0.28052	0.445000	0.26639	0.563000	0.77884	GCG		0.458	LCP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371727.1	NM_005565		T	169680134	C	T	169680134	3	4	691	1	0	0	0	0	1	0	0	0	8699	768	27	1	383	1	LCP2	5	169680134	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	18768781	169680134	11235126	49	44940										
ADAMTS2	9509	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	178553061	178553061	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gctttgggcttcgagagggcGgcacagaagccacggtgtac	16	10	0	2	rs370747086		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr5:178553061G>T	ENST00000251582.7	-	18	2789	c.2688C>A	c.(2686-2688)gcC>gcA	p.A896A		NM_014244.4	NP_055059.2	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 2	896	TSP type-1 2. {ECO:0000255|PROSITE- ProRule:PRU00210}.				collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|extracellular matrix organization (GO:0030198)|lung development (GO:0030324)|protein processing (GO:0016485)|skin development (GO:0043588)|spermatogenesis (GO:0007283)	extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(15)|lung(31)|ovary(1)|pancreas(3)|prostate(2)|skin(7)	72	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		TCGAGAGGGCGGCACAGAAGC	0.637																																																0													84	84	84					5																	178553061		2203	4300	6503	SO:0001819	synonymous_variant	9509			AJ003125	CCDS4444.1, CCDS34311.1	5q23-q24	2008-07-18	2005-08-19		ENSG00000087116	ENSG00000087116		"ADAM metallopeptidases with thrombospondin type 1 motif"	218	protein-coding gene	gene with protein product	"procollagen I N-proteinase", "procollagen N-endopeptidase"	604539	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 2"			10094461, 15373769	Standard	NM_014244		Approved	ADAMTS-3, hPCPNI, PCINP, ADAM-TS2, NPI	uc003mjw.3	O95450	OTTHUMG00000130915	ENST00000251582.7:c.2688C>A	5.37:g.178553061G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000251582.7	37	CCDS4444.1																																																																																				0.637	ADAMTS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253507.1	NM_014244		T	178553061	G	T	178553061	2	4	691	1	0	0	0	0	0	0	0	1	265	1103	39	4		4	ADAMTS2	5	178553061	Silent	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	8872927	178553061	2362199	50	44941										
CANX	821	hgsc.bcm.edu;bcgsc.ca	37	chr5	179136997	179136997	+	Frame_Shift_Del	DEL	C	C	-													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	cgggtatctatgaagaaaaaCatgctaagaggccagatgca							TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr5:179136997delC	ENST00000247461.4	+	7	852	c.652delC	c.(652-654)catfs	p.H218fs	CANX_ENST00000415618.2_Frame_Shift_Del_p.H253fs|CANX_ENST00000452673.2_Frame_Shift_Del_p.H218fs|CANX_ENST00000503126.1_3'UTR|CANX_ENST00000512607.2_Frame_Shift_Del_p.H110fs|CANX_ENST00000504734.1_Frame_Shift_Del_p.H218fs	NM_001746.3	NP_001737.1	P27824	CALX_HUMAN	calnexin	218					aging (GO:0007568)|antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular protein metabolic process (GO:0044267)|chaperone-mediated protein folding (GO:0061077)|clathrin-mediated endocytosis (GO:0072583)|post-translational protein modification (GO:0043687)|protein folding (GO:0006457)|protein N-linked glycosylation via asparagine (GO:0018279)|protein secretion (GO:0009306)|synaptic vesicle endocytosis (GO:0048488)	axon (GO:0030424)|dendrite cytoplasm (GO:0032839)|dendritic spine (GO:0043197)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum membrane (GO:0005789)|ER-mitochondrion membrane contact site (GO:0044233)|extracellular vesicular exosome (GO:0070062)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|protein complex (GO:0043234)|ribosome (GO:0005840)	calcium ion binding (GO:0005509)|carbohydrate binding (GO:0030246)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(3)|kidney(4)|large_intestine(2)|lung(7)|prostate(2)|urinary_tract(3)	22	all_cancers(89;0.000129)|all_epithelial(37;5.59e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0413)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		Antihemophilic Factor(DB00025)|Tenecteplase(DB00031)	TGAAGAAAAACATGCTAAGAG	0.373																																																0													132	135	134					5																	179136997		2203	4300	6503	SO:0001589	frameshift_variant	821			L18887	CCDS4447.1	5q35	2008-07-18			ENSG00000127022	ENSG00000127022			1473	protein-coding gene	gene with protein product	"major histocompatibility complex class I antigen-binding protein p88"	114217				1326756, 8136357	Standard	NM_001746		Approved	CNX, IP90, P90	uc003mkl.3	P27824	OTTHUMG00000130910	ENST00000247461.4:c.652delC	5.37:g.179136997delC	ENSP00000247461:p.His218fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5V8|B4DGP8|B4E2T8|D3DWQ3|D6R9K3	Frame_Shift_Del	DEL	ENST00000247461.4	37	CCDS4447.1																																																																																				0.373	CANX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253500.2	NM_001024649		-	179136997	C	-	179136997	7	5	691	1	0	1	0	1	0	0	0	0	2620	478	17	0	674	0	CANX	5	179136997	Frame_Shift_Del	DEL	C	TCGA-MH-A55Z-01A-11D-A26P-10	583936	179136997	1778263	51	44942										
ZSCAN12	9753	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	28359289	28359289	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tctctgatgttcagtatggtCagagttctcagtcaggctta	10	8	5	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr6:28359289C>G	ENST00000361028.1	-	4	923	c.778G>C	c.(778-780)Gac>Cac	p.D260H	ZSCAN12_ENST00000396827.3_Missense_Mutation_p.D260H			O43309	ZSC12_HUMAN	zinc finger and SCAN domain containing 12	260					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|endometrium(3)|urinary_tract(1)	6						TCAGTATGGTCAGAGTTCTCA	0.433																																																0													219	181	192					6																	28359289		692	1591	2283	SO:0001583	missense	9753			AB007886		6p21	2013-01-08	2007-02-20	2007-02-20	ENSG00000158691	ENSG00000158691		"-", "Zinc fingers, C2H2-type"	13172	protein-coding gene	gene with protein product		603978	"zinc finger protein 305", "zinc finger protein 96"	ZNF305, ZNF96		9244436	Standard	NM_001163391		Approved	KIAA0426, ZNF29K1, ZFP96, dJ29K1.2	uc011dlh.2	O43309	OTTHUMG00000014522	ENST00000361028.1:c.778G>C	6.37:g.28359289C>G	ENSP00000354305:p.Asp260His	Somatic		WXS	Illumina HiSeq	Phase_I	O43724	Missense_Mutation	SNP	ENST00000361028.1	37		.	.	.	.	.	.	.	.	.	.	C	3.906	-0.021133	0.07634	.	.	ENSG00000158691	ENST00000361028;ENST00000396827	T;T	0.27557	1.66;1.66	3.93	-0.342	0.12635	.	0.768215	0.10643	N	0.650758	T	0.02342	0.0072	N	0.02539	-0.55	0.09310	N	1	P;B	0.47302	0.893;0.38	B;B	0.34301	0.179;0.054	T	0.24548	-1.0157	10	0.22706	T	0.39	.	4.3597	0.11196	0.1506:0.4779:0.0:0.3715	.	260;260	A8K187;O43309	.;ZSC12_HUMAN	H	260	ENSP00000354305:D260H;ENSP00000380039:D260H	ENSP00000354305:D260H	D	-	1	0	ZSCAN12	28467268	0.000000	0.05858	0.000000	0.03702	0.383000	0.30230	-1.601000	0.02081	0.004000	0.14682	0.650000	0.86243	GAC		0.433	ZSCAN12-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000040190.1	NM_014724		G	28359289	C	G	28359289	3	3	691	1	0	0	0	0	1	0	0	0	18240	826	29	4	1061	4	ZSCAN12	6	28359289	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10		28359289	142755778	52	44943										
HSD17B8	7923	broad.mit.edu	37	chr6	33172821	33172821	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gggagcaaggaggggccgccCcgagggaaccatgctgcctt	17	12	0	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr6:33172821C>T	ENST00000374662.3	+	2	222	c.195C>T	c.(193-195)ccC>ccT	p.P65P	MIR219-1_ENST00000362166.1_RNA|HSD17B8_ENST00000469186.1_3'UTR	NM_014234.4	NP_055049.1	Q92506	DHB8_HUMAN	hydroxysteroid (17-beta) dehydrogenase 8	65					androgen metabolic process (GO:0008209)|estrogen biosynthetic process (GO:0006703)|fatty acid biosynthetic process (GO:0006633)	mitochondrial envelope (GO:0005740)|mitochondrial matrix (GO:0005759)|plasma membrane (GO:0005886)	3-hydroxyacyl-CoA dehydrogenase activity (GO:0003857)|estradiol 17-beta-dehydrogenase activity (GO:0004303)|testosterone dehydrogenase (NAD+) activity (GO:0047035)			NS(1)|breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(2)|lung(1)|urinary_tract(2)	9						AGGGGCCGCCCCGAGGGAACC	0.706																																																0													9	11	10					6																	33172821		1498	2702	4200	SO:0001819	synonymous_variant	7923			D82061	CCDS4769.1	6p21.3	2011-09-14	2002-02-19	2002-02-22	ENSG00000204228	ENSG00000204228	1.1.1.62	"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 1"	3554	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 30C, member 1"	601417	"FabG (beta-ketoacyl-[acyl-carrier-protein] reductase, E coli) like (E. coli)"	FABGL		8812499, 19027726	Standard	NM_014234		Approved	HKE6, D6S2245E, RING2, KE6, H2-KE6, SDR30C1	uc003odi.2	Q92506	OTTHUMG00000031117	ENST00000374662.3:c.195C>T	6.37:g.33172821C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NLX7|Q5STP7|Q9UIQ1	Silent	SNP	ENST00000374662.3	37	CCDS4769.1																																																																																				0.706	HSD17B8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076196.1	NM_014234		T	33172821	C	T	33172821	2	4	691	1	0	0	0	0	0	0	0	1	7396	610	22	2		2	HSD17B8	6	33172821	Silent	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	4813532	33172821	137942246	53	44944										
TAAR9	134860	broad.mit.edu;bcgsc.ca	37	chr6	132859693	132859693	+	RNA	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gagtcactgtgatgcccttcAgcacagtgaggtctgtggag	14	9	3	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr6:132859693A>C	ENST00000434551.1	+	0	265					NM_175057.3	NP_778227.3	Q96RI9	TAAR9_HUMAN	trace amine associated receptor 9 (gene/pseudogene)						G-protein coupled receptor signaling pathway (GO:0007186)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|trace-amine receptor activity (GO:0001594)					Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.0042)|GBM - Glioblastoma multiforme(226;0.00816)		GATGCCCTTCAGCACAGTGAG	0.453																																					Colon(10;433 445 15992 45047 47213)											0													203	198	200					6																	132859693		2178	4286	6464			134860			AF380189	CCDS75520.1	6q23.2	2013-10-02	2010-03-12	2005-02-24	ENSG00000237110	ENSG00000237110		"GPCR / Class A : Trace amine associated receptors"	20977	protein-coding gene	gene with protein product		608282	"trace amine receptor 3", "trace amine associated receptor 9"	TRAR3		15718104	Standard	NM_175057		Approved	TA3, TAR3	uc011eci.2	Q96RI9	OTTHUMG00000015578		6.37:g.132859693A>C		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000434551.1	37																																																																																					0.453	TAAR9-001	KNOWN	mRNA_end_NF|cds_end_NF|basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000042254.2	NM_175057		C	132859693	A	C	132859693	1	2	691	0	1	0	0	0	0	0	0	0	15506	188	7	5		5	TAAR9	6	132859693	RNA	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	99686872	132859693	38255374	54	44945										
C6orf211	79624	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	151790234	151790234	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	atggaatatttcagtacgatGgtcccctttgacttgattta	8	7	1	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr6:151790234G>A	ENST00000367294.3	+	5	1574	c.1315G>A	c.(1315-1317)Ggt>Agt	p.G439S	C6orf211_ENST00000545879.1_Missense_Mutation_p.G320S	NM_024573.1	NP_078849.1	Q9H993	CF211_HUMAN	chromosome 6 open reading frame 211	439										breast(1)|cervix(1)|endometrium(1)|large_intestine(5)|lung(7)	15			BRCA - Breast invasive adenocarcinoma(37;0.183)	OV - Ovarian serous cystadenocarcinoma(155;5.27e-11)		TCAGTACGATGGTCCCCTTTG	0.507																																																0													21	22	22					6																	151790234		1959	4161	6120	SO:0001583	missense	79624			AJ420548	CCDS5233.1, CCDS69224.1	6q25.1	2013-01-07			ENSG00000146476	ENSG00000146476			17872	protein-coding gene	gene with protein product							Standard	NM_001286562		Approved	FLJ12910	uc003qok.1	Q9H993	OTTHUMG00000015838	ENST00000367294.3:c.1315G>A	6.37:g.151790234G>A	ENSP00000356263:p.Gly439Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q96FC6|Q9UFY5	Missense_Mutation	SNP	ENST00000367294.3	37	CCDS5233.1	.	.	.	.	.	.	.	.	.	.	G	11.75	1.730830	0.30684	.	.	ENSG00000146476	ENST00000367294;ENST00000545879	T;T	0.13089	3.04;2.62	6.16	5.3	0.74995	.	0.212744	0.47852	D	0.000212	T	0.05181	0.0138	L	0.45352	1.415	0.41042	D	0.985231	B	0.22983	0.078	B	0.20184	0.028	T	0.18777	-1.0326	10	0.15499	T	0.54	.	13.6292	0.62186	0.0707:0.0:0.9293:0.0	.	439	Q9H993	CF211_HUMAN	S	439;320	ENSP00000356263:G439S;ENSP00000444121:G320S	ENSP00000356263:G439S	G	+	1	0	C6orf211	151831927	0.998000	0.40836	0.986000	0.45419	0.154000	0.21943	2.502000	0.45398	1.626000	0.50381	0.650000	0.86243	GGT		0.507	C6orf211-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042724.1	NM_024573		A	151790234	G	A	151790234	3	1	691	1	0	0	0	0	1	0	0	0	2356	1348	47	2	1333	2	C6orf211	6	151790234	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	18930541	151790234	19324833	55	44946										
EIF2AK1	27102	broad.mit.edu;bcgsc.ca	37	chr7	6078295	6078296	+	Frame_Shift_Ins	INS	-	-	A													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gatgtgcagcatcaggtggtINSactgtgcctaggagaggaca					rs150001751		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr7:6078295_6078296insA	ENST00000199389.6	-	10	1272_1273	c.1126_1127insT	c.(1126-1128)tacfs	p.Y376fs	EIF2AK1_ENST00000495565.1_5'Flank|EIF2AK1_ENST00000536084.1_Frame_Shift_Ins_p.Y252fs	NM_001134335.1|NM_014413.3	NP_001127807.1|NP_055228.2	Q9BQI3	E2AK1_HUMAN	eukaryotic translation initiation factor 2-alpha kinase 1	376	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				negative regulation of cell proliferation (GO:0008285)|negative regulation of hemoglobin biosynthetic process (GO:0046986)|negative regulation of translational initiation by iron (GO:0045993)|protein autophosphorylation (GO:0046777)|protoporphyrinogen IX metabolic process (GO:0046501)|regulation of eIF2 alpha phosphorylation by heme (GO:0010999)|response to external stimulus (GO:0009605)|response to stress (GO:0006950)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|eukaryotic translation initiation factor 2alpha kinase activity (GO:0004694)|heme binding (GO:0020037)|protein homodimerization activity (GO:0042803)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(10)|prostate(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(2)	27		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.106)|OV - Ovarian serous cystadenocarcinoma(56;5.22e-14)		CATCAGGTGGTACTGTGCCTAG	0.505																																																0																																										SO:0001589	frameshift_variant	27102			BC006524	CCDS5345.1	7p22	2005-01-20			ENSG00000086232	ENSG00000086232			24921	protein-coding gene	gene with protein product	"heme regulated initiation factor 2 alpha kinase"	613635				7709427, 10718198	Standard	NM_014413		Approved	HRI, KIAA1369	uc003spp.3	Q9BQI3	OTTHUMG00000090689	ENST00000199389.6:c.1127dupT	7.37:g.6078296_6078296dupA	ENSP00000199389:p.Tyr376fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2R2|Q549K6|Q8NBW3|Q9HC02|Q9NYE0|Q9P0V6|Q9P1J5|Q9P2H8|Q9UHG4	Frame_Shift_Ins	INS	ENST00000199389.6	37	CCDS5345.1																																																																																				0.505	EIF2AK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207373.2	NM_014413		A	6078296	-	A	6078295	7	5	691	1	0	1	1	0	0	0	0	0	4998	1638	57	0	789	0	EIF2AK1	7	6078295	Frame_Shift_Ins	INS	-	TCGA-MH-A55Z-01A-11D-A26P-10		6078295	153060368	56	44947	485	3								
EIF2AK1	27102	hgsc.bcm.edu;bcgsc.ca	37	chr7	6078297	6078297	+	Missense_Mutation	SNP	C	C	G													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	atgtgcagcatcaggtggtaCtgtgcctaggagaggacaca							TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr7:6078297C>G	ENST00000199389.6	-	10	1271	c.1125G>C	c.(1123-1125)caG>caC	p.Q375H	EIF2AK1_ENST00000495565.1_5'Flank|EIF2AK1_ENST00000536084.1_Missense_Mutation_p.Q251H	NM_001134335.1|NM_014413.3	NP_001127807.1|NP_055228.2	Q9BQI3	E2AK1_HUMAN	eukaryotic translation initiation factor 2-alpha kinase 1	375	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				negative regulation of cell proliferation (GO:0008285)|negative regulation of hemoglobin biosynthetic process (GO:0046986)|negative regulation of translational initiation by iron (GO:0045993)|protein autophosphorylation (GO:0046777)|protoporphyrinogen IX metabolic process (GO:0046501)|regulation of eIF2 alpha phosphorylation by heme (GO:0010999)|response to external stimulus (GO:0009605)|response to stress (GO:0006950)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|eukaryotic translation initiation factor 2alpha kinase activity (GO:0004694)|heme binding (GO:0020037)|protein homodimerization activity (GO:0042803)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(10)|prostate(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(2)	27		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.106)|OV - Ovarian serous cystadenocarcinoma(56;5.22e-14)		TCAGGTGGTACTGTGCCTAGG	0.507																																																0													108	94	99					7																	6078297		2203	4300	6503	SO:0001583	missense	27102			BC006524	CCDS5345.1	7p22	2005-01-20			ENSG00000086232	ENSG00000086232			24921	protein-coding gene	gene with protein product	"heme regulated initiation factor 2 alpha kinase"	613635				7709427, 10718198	Standard	NM_014413		Approved	HRI, KIAA1369	uc003spp.3	Q9BQI3	OTTHUMG00000090689	ENST00000199389.6:c.1125G>C	7.37:g.6078297C>G	ENSP00000199389:p.Gln375His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2R2|Q549K6|Q8NBW3|Q9HC02|Q9NYE0|Q9P0V6|Q9P1J5|Q9P2H8|Q9UHG4	Missense_Mutation	SNP	ENST00000199389.6	37	CCDS5345.1	.	.	.	.	.	.	.	.	.	.	.	9.811	1.183288	0.21870	.	.	ENSG00000086232	ENST00000199389;ENST00000536084;ENST00000426957	T;T	0.65549	-0.16;-0.16	5.57	2.56	0.30785	Serine/threonine-protein kinase-like domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.521490	0.21777	N	0.069272	T	0.53334	0.1790	M	0.64630	1.985	0.31933	N	0.61189	B;B;B	0.20368	0.044;0.007;0.005	B;B;B	0.22386	0.039;0.009;0.01	T	0.56062	-0.8041	10	0.37606	T	0.19	-7.4865	5.5568	0.17121	0.1395:0.6391:0.0:0.2214	.	251;374;375	B4DIP4;Q9BQI3-2;Q9BQI3	.;.;E2AK1_HUMAN	H	375;251;2	ENSP00000199389:Q375H;ENSP00000445784:Q251H	ENSP00000199389:Q375H	Q	-	3	2	EIF2AK1	6044823	1.000000	0.71417	0.996000	0.52242	0.286000	0.27126	0.647000	0.24812	1.341000	0.45600	0.650000	0.86243	CAG		0.507	EIF2AK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207373.2	NM_014413		G	6078297	C	G	6078297	3	3	691	1	0	0	0	0	1	0	0	0	4998	564	20	4	791	4	EIF2AK1	7	6078297	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	2	6078297	153060366	57	44948	485	3								
EIF2AK1	27102	broad.mit.edu;bcgsc.ca	37	chr7	6078298	6078299	+	Frame_Shift_Ins	INS	-	-	A													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gtgcagcatcaggtggtactINSgtgcctaggagaggacacag					rs372398524		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr7:6078298_6078299insA	ENST00000199389.6	-	10	1269_1270	c.1123_1124insT	c.(1123-1125)cagfs	p.Q375fs	EIF2AK1_ENST00000495565.1_5'Flank|EIF2AK1_ENST00000536084.1_Frame_Shift_Ins_p.Q251fs	NM_001134335.1|NM_014413.3	NP_001127807.1|NP_055228.2	Q9BQI3	E2AK1_HUMAN	eukaryotic translation initiation factor 2-alpha kinase 1	375	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				negative regulation of cell proliferation (GO:0008285)|negative regulation of hemoglobin biosynthetic process (GO:0046986)|negative regulation of translational initiation by iron (GO:0045993)|protein autophosphorylation (GO:0046777)|protoporphyrinogen IX metabolic process (GO:0046501)|regulation of eIF2 alpha phosphorylation by heme (GO:0010999)|response to external stimulus (GO:0009605)|response to stress (GO:0006950)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|eukaryotic translation initiation factor 2alpha kinase activity (GO:0004694)|heme binding (GO:0020037)|protein homodimerization activity (GO:0042803)			central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(10)|prostate(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(2)	27		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.106)|OV - Ovarian serous cystadenocarcinoma(56;5.22e-14)		CAGGTGGTACTGTGCCTAGGAG	0.51																																																0																																										SO:0001589	frameshift_variant	27102			BC006524	CCDS5345.1	7p22	2005-01-20			ENSG00000086232	ENSG00000086232			24921	protein-coding gene	gene with protein product	"heme regulated initiation factor 2 alpha kinase"	613635				7709427, 10718198	Standard	NM_014413		Approved	HRI, KIAA1369	uc003spp.3	Q9BQI3	OTTHUMG00000090689	ENST00000199389.6:c.1123_1124insT	7.37:g.6078298_6078299insA	ENSP00000199389:p.Gln375fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2R2|Q549K6|Q8NBW3|Q9HC02|Q9NYE0|Q9P0V6|Q9P1J5|Q9P2H8|Q9UHG4	Frame_Shift_Ins	INS	ENST00000199389.6	37	CCDS5345.1																																																																																				0.51	EIF2AK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207373.2	NM_014413		A	6078299	-	A	6078298	7	5	691	1	0	1	1	0	0	0	0	0	4998	1580	55	0	792	0	EIF2AK1	7	6078298	Frame_Shift_Ins	INS	-	TCGA-MH-A55Z-01A-11D-A26P-10	1	6078298	153060365	58	44949	485	3								
NFE2L3	9603	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	26224635	26224636	+	Frame_Shift_Del	DEL	CT	CT	-													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	atcaagtctaattcctctcaCtctgtgtgtgatgaaggtgc							TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr7:26224635_26224636delCT	ENST00000056233.3	+	4	1576_1577	c.1317_1318delCT	c.(1315-1320)cactctfs	p.S440fs		NM_004289.6	NP_004280.5	Q9Y4A8	NF2L3_HUMAN	nuclear factor, erythroid 2-like 3	440					transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)			breast(2)|endometrium(1)|kidney(2)|large_intestine(4)|lung(5)|ovary(1)|prostate(2)|skin(5)|urinary_tract(7)	29						ATTCCTCTCACTCTGTGTGTGA	0.421																																																0																																										SO:0001589	frameshift_variant	9603			AB010812	CCDS5396.1	7p15.2	2013-08-23	2013-08-23		ENSG00000050344	ENSG00000050344		"basic leucine zipper proteins"	7783	protein-coding gene	gene with protein product		604135	"nuclear factor (erythroid-derived 2)-like 3"			10037736	Standard	NM_004289		Approved	Nrf3	uc003sxq.3	Q9Y4A8	OTTHUMG00000023882	ENST00000056233.3:c.1317_1318delCT	7.37:g.26224637_26224638delCT	ENSP00000056233:p.Ser440fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NUS0|Q7Z498|Q86UJ4|Q86VR5|Q9UQA4	Frame_Shift_Del	DEL	ENST00000056233.3	37	CCDS5396.1																																																																																				0.421	NFE2L3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214088.1			-	26224636	CT	-	26224635	7	5	691	1	0	1	0	1	0	0	0	0	10376	564	20	0	1331	0	NFE2L3	7	26224635	Frame_Shift_Del	DEL	CT	TCGA-MH-A55Z-01A-11D-A26P-10	20146337	26224635	132914028	59	44950										
SKAP2	8935	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	26729973	26729973	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tttcactggagcactgtcctCttcttcttctgtaaataaac	5	11	5	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr7:26729973C>G	ENST00000345317.2	-	10	1118	c.805G>C	c.(805-807)Gag>Cag	p.E269Q	SKAP2_ENST00000489977.1_5'UTR|SKAP2_ENST00000539623.1_Missense_Mutation_p.E97Q	NM_003930.3	NP_003921.2	O75563	SKAP2_HUMAN	src kinase associated phosphoprotein 2	269					B cell activation (GO:0042113)|negative regulation of cell proliferation (GO:0008285)|positive regulation of signal transduction (GO:0009967)|protein complex assembly (GO:0006461)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	SH3/SH2 adaptor activity (GO:0005070)			haematopoietic_and_lymphoid_tissue(2)|large_intestine(3)|lung(7)|ovary(1)|pancreas(1)|skin(3)	17						GCACTGTCCTCTTCTTCTTCT	0.388																																																0													231	179	197					7																	26729973		2203	4300	6503	SO:0001583	missense	8935				CCDS5400.1	7p15.2	2013-01-10	2006-09-28	2006-09-28	ENSG00000005020	ENSG00000005020		"Pleckstrin homology (PH) domain containing"	15687	protein-coding gene	gene with protein product		605215	"src family associated phosphoprotein 2"	SCAP2		9837776, 9755858	Standard	NM_003930		Approved	RA70, SKAP-HOM, SKAP55R, SAPS	uc003syc.3	O75563	OTTHUMG00000023495	ENST00000345317.2:c.805G>C	7.37:g.26729973C>G	ENSP00000005587:p.Glu269Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A4D173|Q53GP6|Q75MK6|Q75MZ4|Q9UBZ3|Q9UED8	Missense_Mutation	SNP	ENST00000345317.2	37	CCDS5400.1	.	.	.	.	.	.	.	.	.	.	C	6.838	0.523906	0.13066	.	.	ENSG00000005020	ENST00000345317;ENST00000539623;ENST00000535331	T;T	0.33654	1.87;1.4	6.17	6.17	0.99709	Src homology-3 domain (1);	0.266780	0.38111	N	0.001812	T	0.30198	0.0757	L	0.34521	1.04	0.47308	D	0.999385	P;P	0.38922	0.651;0.514	B;B	0.35240	0.198;0.151	T	0.02226	-1.1192	10	0.32370	T	0.25	-4.5212	17.7962	0.88572	0.0:1.0:0.0:0.0	.	254;269	B7Z5N4;O75563	.;SKAP2_HUMAN	Q	269;97;254	ENSP00000005587:E269Q;ENSP00000443593:E97Q	ENSP00000005587:E269Q	E	-	1	0	SKAP2	26696498	1.000000	0.71417	1.000000	0.80357	0.174000	0.22865	2.839000	0.48207	2.941000	0.99782	0.655000	0.94253	GAG		0.388	SKAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214128.1			G	26729973	C	G	26729973	3	3	691	1	0	0	0	0	1	0	0	0	14369	922	32	4	286	4	SKAP2	7	26729973	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	505338	26729973	132408690	60	44951										
PLEKHA8	84725	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	30094389	30094389	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	aatcatgacaataacttgacTcagtctggatcagactcaag	7	9	5	3			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr7:30094389T>C	ENST00000449726.1	+	8	1211	c.861T>C	c.(859-861)acT>acC	p.T287T	PLEKHA8_ENST00000396259.1_Silent_p.T287T|PLEKHA8_ENST00000396257.2_Silent_p.T287T|PLEKHA8_ENST00000258679.7_Silent_p.T287T	NM_001197027.1	NP_001183956.1	Q96JA3	PKHA8_HUMAN	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 8	287				T -> S (in Ref. 1; AAK55424). {ECO:0000305}.	ER to Golgi ceramide transport (GO:0035621)|lipid transport (GO:0006869)|protein transport (GO:0015031)	membrane (GO:0016020)|trans-Golgi network (GO:0005802)	ceramide binding (GO:0097001)|glycolipid binding (GO:0051861)|glycolipid transporter activity (GO:0017089)|phosphatidylinositol-4-phosphate binding (GO:0070273)			breast(4)|large_intestine(3)|lung(8)|ovary(1)|prostate(1)	17						ATAACTTGACTCAGTCTGGAT	0.383																																																0													149	143	145					7																	30094389		2203	4300	6503	SO:0001819	synonymous_variant	84725			BC053990	CCDS5424.1, CCDS56473.1, CCDS75574.1	7p21-p11.2	2013-01-10			ENSG00000106086	ENSG00000106086		"Pleckstrin homology (PH) domain containing"	30037	protein-coding gene	gene with protein product		608639				11001876	Standard	NM_001197027		Approved	FAPP2, MGC3358	uc003taq.3	Q96JA3	OTTHUMG00000097751	ENST00000449726.1:c.861T>C	7.37:g.30094389T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DH00|Q7Z5V8|Q9BU78|Q9H274|Q9H8Z7	Silent	SNP	ENST00000449726.1	37	CCDS56473.1																																																																																				0.383	PLEKHA8-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_032639		C	30094389	T	C	30094389	2	2	691	1	0	0	0	0	0	0	0	1	12069	1538	54	3		3	PLEKHA8	7	30094389	Silent	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	3364416	30094389	129044274	61	44952										
POLM	27434	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	44114102	44114102	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	catcggaccgcaggactgggGtgctcaggtcctggtggtgc	17	11	1	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr7:44114102G>A	ENST00000242248.5	-	7	964	c.863C>T	c.(862-864)aCc>aTc	p.T288I	POLM_ENST00000492971.1_5'UTR|POLM_ENST00000335195.6_Silent_p.H285H|POLM_ENST00000395831.3_Silent_p.H242H	NM_013284.2	NP_037416.1	Q9NP87	DPOLM_HUMAN	polymerase (DNA directed), mu	288					DNA recombination (GO:0006310)|DNA repair (GO:0006281)	nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA-directed DNA polymerase activity (GO:0003887)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(2)|liver(1)|lung(6)|ovary(3)|skin(2)	22						CAGGACTGGGGTGCTCAGGTC	0.697								DNA polymerases (catalytic subunits)																																								0													21	19	20					7																	44114102		2201	4299	6500	SO:0001583	missense	27434			AF176097	CCDS34625.1, CCDS64635.1, CCDS64636.1	7p13	2012-05-18			ENSG00000122678	ENSG00000122678		"DNA polymerases"	9185	protein-coding gene	gene with protein product	"Pol iota"	606344				10982892	Standard	XM_005249708		Approved	Tdt-N	uc003tjt.3	Q9NP87	OTTHUMG00000155353	ENST00000242248.5:c.863C>T	7.37:g.44114102G>A	ENSP00000242248:p.Thr288Ile	Somatic		WXS	Illumina HiSeq	Phase_I	D3DVK4|Q6P5X8|Q86WQ9	Missense_Mutation	SNP	ENST00000242248.5	37	CCDS34625.1	.	.	.	.	.	.	.	.	.	.	G	13.05	2.122221	0.37436	.	.	ENSG00000122678	ENST00000242248	T	0.44083	0.93	5.38	1.23	0.21249	DNA-directed DNA polymerase X (1);DNA polymerase lambda, fingers domain (1);	.	.	.	.	T	0.42471	0.1204	M	0.68317	2.08	0.80722	D	1	P	0.40211	0.707	B	0.42959	0.403	T	0.33803	-0.9854	9	0.56958	D	0.05	-0.2386	8.6696	0.34143	0.0841:0.4398:0.4761:0.0	.	288	Q9NP87	DPOLM_HUMAN	I	288	ENSP00000242248:T288I	ENSP00000242248:T288I	T	-	2	0	POLM	44080627	0.013000	0.17824	0.506000	0.27664	0.637000	0.38172	0.038000	0.13862	0.231000	0.21079	0.555000	0.69702	ACC		0.697	POLM-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000339594.1	NM_013284		A	44114102	G	A	44114102	3	1	691	1	0	0	0	0	1	0	0	0	12213	1261	44	2	641	2	POLM	7	44114102	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	14019713	44114102	115024561	62	44953										
OGDH	4967	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	44735721	44735721	+	Missense_Mutation	SNP	G	G	T													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gcactggctggactctccctGgcctggtgagtgaagaaaca							TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr7:44735721G>T	ENST00000222673.5	+	13	1808	c.1766G>T	c.(1765-1767)tGg>tTg	p.W589L	OGDH_ENST00000543843.1_Missense_Mutation_p.W540L|OGDH_ENST00000444676.1_Missense_Mutation_p.W604L|OGDH_ENST00000439616.2_Missense_Mutation_p.W439L|OGDH_ENST00000447398.1_Missense_Mutation_p.W600L|OGDH_ENST00000449767.1_Missense_Mutation_p.W585L	NM_002541.3	NP_002532.2	Q02218	ODO1_HUMAN	oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)	589					2-oxoglutarate metabolic process (GO:0006103)|cellular metabolic process (GO:0044237)|cellular nitrogen compound metabolic process (GO:0034641)|cerebellar cortex development (GO:0021695)|generation of precursor metabolites and energy (GO:0006091)|glycolytic process (GO:0006096)|hippocampus development (GO:0021766)|lysine catabolic process (GO:0006554)|NADH metabolic process (GO:0006734)|olfactory bulb mitral cell layer development (GO:0061034)|pyramidal neuron development (GO:0021860)|small molecule metabolic process (GO:0044281)|striatum development (GO:0021756)|succinyl-CoA metabolic process (GO:0006104)|tangential migration from the subventricular zone to the olfactory bulb (GO:0022028)|thalamus development (GO:0021794)|tricarboxylic acid cycle (GO:0006099)	mitochondrial matrix (GO:0005759)|mitochondrial membrane (GO:0031966)|mitochondrion (GO:0005739)|oxoglutarate dehydrogenase complex (GO:0045252)	metal ion binding (GO:0046872)|oxoglutarate dehydrogenase (NAD+) activity (GO:0034602)|oxoglutarate dehydrogenase (succinyl-transferring) activity (GO:0004591)|thiamine pyrophosphate binding (GO:0030976)			breast(2)|endometrium(5)|kidney(2)|large_intestine(6)|lung(13)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(4)	36					Valproic Acid(DB00313)	GACTCTCCCTGGCCTGGTGAG	0.438																																																0													71	67	68					7																	44735721		2203	4300	6503	SO:0001583	missense	4967			D10523	CCDS34627.1, CCDS47580.1, CCDS55107.1	7p13-p11.2	2010-11-23			ENSG00000105953	ENSG00000105953	1.2.4.2		8124	protein-coding gene	gene with protein product		613022				8020988, 1542694	Standard	NM_002541		Approved	E1k	uc003tln.3	Q02218	OTTHUMG00000155304	ENST00000222673.5:c.1766G>T	7.37:g.44735721G>T	ENSP00000222673:p.Trp589Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2U9|D3DVL0|E9PBM1|Q96DD3|Q9UDX0	Missense_Mutation	SNP	ENST00000222673.5	37	CCDS34627.1	.	.	.	.	.	.	.	.	.	.	G	26.2	4.713754	0.89112	.	.	ENSG00000105953	ENST00000439616;ENST00000449767;ENST00000447398;ENST00000444676;ENST00000222673;ENST00000543843	T;T;T;T;T;T	0.06608	3.33;3.28;3.29;3.29;3.29;3.3	4.9	4.9	0.64082	.	0.000000	0.85682	D	0.000000	T	0.36303	0.0962	M	0.94021	3.485	0.80722	D	1	D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D	0.97110	1.0;1.0;1.0;1.0;1.0;1.0	T	0.51132	-0.8744	10	0.87932	D	0	-15.9477	17.8672	0.88799	0.0:0.0:1.0:0.0	.	384;439;585;600;491;589	B4E3E9;E9PFG7;E9PBM1;E9PDF2;A2VCT2;Q02218	.;.;.;.;.;ODO1_HUMAN	L	439;585;600;604;589;540	ENSP00000398576:W439L;ENSP00000392878:W585L;ENSP00000388183:W600L;ENSP00000414662:W604L;ENSP00000222673:W589L;ENSP00000443821:W540L	ENSP00000222673:W589L	W	+	2	0	OGDH	44702246	1.000000	0.71417	1.000000	0.80357	0.873000	0.50193	9.657000	0.98554	2.556000	0.86216	0.655000	0.94253	TGG		0.438	OGDH-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000339391.1			T	44735721	G	T	44735721	3	4	691	1	0	0	0	0	1	0	0	0	10846	1357	47	4	1985	4	OGDH	7	44735721	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	621619	44735721	114402942	63	44954	486	2								
OGDH	4967	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	44735723	44735723	+	Missense_Mutation	SNP	C	C	A													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	actggctggactctccctggCctggtgagtgaagaaacagt							TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr7:44735723C>A	ENST00000222673.5	+	13	1810	c.1768C>A	c.(1768-1770)Cct>Act	p.P590T	OGDH_ENST00000543843.1_Missense_Mutation_p.P541T|OGDH_ENST00000444676.1_Missense_Mutation_p.P605T|OGDH_ENST00000439616.2_Missense_Mutation_p.P440T|OGDH_ENST00000447398.1_Missense_Mutation_p.P601T|OGDH_ENST00000449767.1_Missense_Mutation_p.P586T	NM_002541.3	NP_002532.2	Q02218	ODO1_HUMAN	oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)	590					2-oxoglutarate metabolic process (GO:0006103)|cellular metabolic process (GO:0044237)|cellular nitrogen compound metabolic process (GO:0034641)|cerebellar cortex development (GO:0021695)|generation of precursor metabolites and energy (GO:0006091)|glycolytic process (GO:0006096)|hippocampus development (GO:0021766)|lysine catabolic process (GO:0006554)|NADH metabolic process (GO:0006734)|olfactory bulb mitral cell layer development (GO:0061034)|pyramidal neuron development (GO:0021860)|small molecule metabolic process (GO:0044281)|striatum development (GO:0021756)|succinyl-CoA metabolic process (GO:0006104)|tangential migration from the subventricular zone to the olfactory bulb (GO:0022028)|thalamus development (GO:0021794)|tricarboxylic acid cycle (GO:0006099)	mitochondrial matrix (GO:0005759)|mitochondrial membrane (GO:0031966)|mitochondrion (GO:0005739)|oxoglutarate dehydrogenase complex (GO:0045252)	metal ion binding (GO:0046872)|oxoglutarate dehydrogenase (NAD+) activity (GO:0034602)|oxoglutarate dehydrogenase (succinyl-transferring) activity (GO:0004591)|thiamine pyrophosphate binding (GO:0030976)			breast(2)|endometrium(5)|kidney(2)|large_intestine(6)|lung(13)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(4)	36					Valproic Acid(DB00313)	CTCTCCCTGGCCTGGTGAGTG	0.438																																																0													69	65	67					7																	44735723		2203	4300	6503	SO:0001583	missense	4967			D10523	CCDS34627.1, CCDS47580.1, CCDS55107.1	7p13-p11.2	2010-11-23			ENSG00000105953	ENSG00000105953	1.2.4.2		8124	protein-coding gene	gene with protein product		613022				8020988, 1542694	Standard	NM_002541		Approved	E1k	uc003tln.3	Q02218	OTTHUMG00000155304	ENST00000222673.5:c.1768C>A	7.37:g.44735723C>A	ENSP00000222673:p.Pro590Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2U9|D3DVL0|E9PBM1|Q96DD3|Q9UDX0	Missense_Mutation	SNP	ENST00000222673.5	37	CCDS34627.1	.	.	.	.	.	.	.	.	.	.	C	12.81	2.050408	0.36181	.	.	ENSG00000105953	ENST00000439616;ENST00000449767;ENST00000447398;ENST00000444676;ENST00000222673;ENST00000543843	T;T;T;T;T;T	0.05199	3.49;3.48;3.48;3.48;3.48;3.49	4.9	4.9	0.64082	.	0.000000	0.85682	D	0.000000	T	0.06554	0.0168	L	0.31294	0.92	0.80722	D	1	B;B;B;B;B;B	0.17268	0.007;0.007;0.01;0.01;0.001;0.021	B;B;B;B;B;B	0.16289	0.004;0.004;0.015;0.015;0.002;0.009	T	0.40194	-0.9576	10	0.19590	T	0.45	-15.3111	17.8673	0.88799	0.0:1.0:0.0:0.0	.	385;440;586;601;492;590	B4E3E9;E9PFG7;E9PBM1;E9PDF2;A2VCT2;Q02218	.;.;.;.;.;ODO1_HUMAN	T	440;586;601;605;590;541	ENSP00000398576:P440T;ENSP00000392878:P586T;ENSP00000388183:P601T;ENSP00000414662:P605T;ENSP00000222673:P590T;ENSP00000443821:P541T	ENSP00000222673:P590T	P	+	1	0	OGDH	44702248	1.000000	0.71417	1.000000	0.80357	0.882000	0.50991	7.651000	0.83577	2.556000	0.86216	0.655000	0.94253	CCT		0.438	OGDH-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000339391.1			A	44735723	C	A	44735723	3	1	691	1	0	0	0	0	1	0	0	0	10846	739	26	4	1987	4	OGDH	7	44735723	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	2	44735723	114402940	64	44955	486	2								
GRB10	2887	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	50660660	50660660	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	catctgcggtcataaggccaCtcggatgcagtggtgcttga	13	10	2	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr7:50660660C>T	ENST00000401949.1	-	19	2243	c.1774G>A	c.(1774-1776)Gtg>Atg	p.V592M	GRB10_ENST00000406641.1_Missense_Mutation_p.V534M|GRB10_ENST00000439599.1_Missense_Mutation_p.V586M|GRB10_ENST00000402578.1_Missense_Mutation_p.V534M|GRB10_ENST00000407526.1_Missense_Mutation_p.V534M|GRB10_ENST00000398810.2_Missense_Mutation_p.V534M|GRB10_ENST00000398812.2_Missense_Mutation_p.V592M|GRB10_ENST00000357271.5_Missense_Mutation_p.V546M|GRB10_ENST00000335866.3_Missense_Mutation_p.V534M|GRB10_ENST00000403097.1_Missense_Mutation_p.V586M|GRB10_ENST00000402497.1_Missense_Mutation_p.V534M			Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10	592					insulin receptor signaling pathway (GO:0008286)|insulin-like growth factor receptor signaling pathway (GO:0048009)|negative regulation of glucose import (GO:0046325)|negative regulation of glycogen biosynthetic process (GO:0045719)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of phosphorylation (GO:0042326)|negative regulation of Wnt signaling pathway (GO:0030178)|positive regulation of phosphorylation (GO:0042327)|positive regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030949)|response to insulin (GO:0032868)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|plasma membrane (GO:0005886)	insulin receptor binding (GO:0005158)|SH3/SH2 adaptor activity (GO:0005070)			NS(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(2)|lung(19)|ovary(3)|skin(3)|upper_aerodigestive_tract(2)	41	Glioma(55;0.08)|all_neural(89;0.245)					CATAAGGCCACTCGGATGCAG	0.512									Russell-Silver syndrome																																							0													146	146	146					7																	50660660		2080	4226	6306	SO:0001583	missense	2887	Familial Cancer Database	Silver-Russell Dwarfism, Silver-Russell syndrome, SRS, Russel-Silver Dwarfism		CCDS43582.1, CCDS43583.1, CCDS47586.1	7p12.2	2013-02-14			ENSG00000106070	ENSG00000106070		"Pleckstrin homology (PH) domain containing", "SH2 domain containing"	4564	protein-coding gene	gene with protein product		601523					Standard	NM_005311		Approved		uc003tpi.2	Q13322	OTTHUMG00000150622	ENST00000401949.1:c.1774G>A	7.37:g.50660660C>T	ENSP00000385770:p.Val592Met	Somatic		WXS	Illumina HiSeq	Phase_I	A4D258|A7VJ95|A8K0E6|D3DVM9|O00427|O00701|O75222|Q92606|Q92907|Q92948	Missense_Mutation	SNP	ENST00000401949.1	37	CCDS43582.1	.	.	.	.	.	.	.	.	.	.	C	25.0	4.589636	0.86851	.	.	ENSG00000106070	ENST00000398812;ENST00000439599;ENST00000335866;ENST00000398810;ENST00000402578;ENST00000403097;ENST00000406641;ENST00000357271;ENST00000407526;ENST00000401949;ENST00000398791;ENST00000402497	D;D;D;D;D;D;D;D;D;D;D	0.85702	-1.93;-1.92;-2.02;-2.02;-2.02;-1.92;-2.02;-1.73;-2.02;-1.93;-2.02	5.66	5.66	0.87406	.	0.000000	0.85682	D	0.000000	D	0.89287	0.6672	L	0.57536	1.79	0.80722	D	1	D;D;P	0.54964	0.969;0.969;0.869	P;P;B	0.54815	0.761;0.761;0.361	D	0.89034	0.3444	10	0.52906	T	0.07	-32.1431	19.7417	0.96234	0.0:1.0:0.0:0.0	.	586;546;592	Q13322-4;Q13322-2;Q13322	.;.;GRB10_HUMAN	M	592;586;534;534;534;586;534;546;534;592;124;534	ENSP00000381793:V592M;ENSP00000406716:V586M;ENSP00000338543:V534M;ENSP00000381790:V534M;ENSP00000385189:V534M;ENSP00000385544:V586M;ENSP00000385366:V534M;ENSP00000349818:V546M;ENSP00000385046:V534M;ENSP00000385770:V592M;ENSP00000385748:V534M	ENSP00000338543:V534M	V	-	1	0	GRB10	50628154	1.000000	0.71417	0.975000	0.42487	0.994000	0.84299	7.818000	0.86416	2.661000	0.90470	0.655000	0.94253	GTG		0.512	GRB10-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319157.1			T	50660660	C	T	50660660	3	4	691	1	0	0	0	0	1	0	0	0	6763	565	20	2	14	2	GRB10	7	50660660	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	5924937	50660660	108478003	65	44956										
CSPP1	10565	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	68107797	68107797	+	IGR	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tggaaaaccaggcactttcaCttggcagggcctgtcgactg	12	11	1	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr8:68107797C>T	ENST00000262215.3	-	0	7225				ARFGEF1_ENST00000520381.1_Intron|ARFGEF1_ENST00000517955.1_5'Flank|CSPP1_ENST00000262210.5_Missense_Mutation_p.T1212I|CSPP1_ENST00000412460.1_Missense_Mutation_p.T867I	NM_006421.4	NP_006412.2	Q9Y6D6	BIG1_HUMAN	ADP-ribosylation factor guanine nucleotide-exchange factor 1 (brefeldin A-inhibited)						endomembrane system organization (GO:0010256)|exocytosis (GO:0006887)|Golgi organization (GO:0007030)|negative regulation of actin filament polymerization (GO:0030837)|negative regulation of Rho GTPase activity (GO:0034259)|positive regulation of GTPase activity (GO:0043547)|positive regulation of protein glycosylation in Golgi (GO:0090284)|positive regulation of wound healing (GO:0090303)|protein transport (GO:0015031)|regulation of ARF protein signal transduction (GO:0032012)|regulation of establishment of cell polarity (GO:2000114)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|small nuclear ribonucleoprotein complex (GO:0030532)|trans-Golgi network (GO:0005802)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)|guanyl-nucleotide exchange factor activity (GO:0005085)|myosin binding (GO:0017022)|protein kinase A regulatory subunit binding (GO:0034237)			breast(1)|endometrium(14)|kidney(4)|large_intestine(17)|lung(20)|ovary(4)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	65	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GGCACTTTCACTTGGCAGGGC	0.493																																																0													50	51	51					8																	68107797		1953	4158	6111	SO:0001628	intergenic_variant	79848			AF084520	CCDS6199.1	8q13	2011-08-18	2011-08-18		ENSG00000066777	ENSG00000066777			15772	protein-coding gene	gene with protein product		604141				10212200, 8917509	Standard	NM_006421		Approved	DKFZP434L057, BIG1, ARFGEP1, p200	uc003xxo.2	Q9Y6D6	OTTHUMG00000164626		8.37:g.68107797C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NV46|Q9UFV2|Q9UNL0	Missense_Mutation	SNP	ENST00000262215.3	37	CCDS6199.1	.	.	.	.	.	.	.	.	.	.	C	6.942	0.543635	0.13250	.	.	ENSG00000104218	ENST00000262210;ENST00000389042;ENST00000412460;ENST00000519668	T;T;T	0.32272	1.46;1.48;1.48	5.51	-0.424	0.12321	.	0.554792	0.18305	N	0.145291	T	0.21550	0.0519	L	0.44542	1.39	0.09310	N	1	B;P;P	0.41569	0.256;0.755;0.755	B;B;B	0.35470	0.176;0.203;0.203	T	0.10177	-1.0641	10	0.66056	D	0.02	-1.672	10.1481	0.42776	0.2208:0.5604:0.2188:0.0	.	867;1212;1247	Q1MSJ5-2;Q1MSJ5-1;Q1MSJ5	.;.;CSPP1_HUMAN	I	1212;1247;867;867	ENSP00000262210:T1212I;ENSP00000415782:T867I;ENSP00000430092:T867I	ENSP00000262210:T1212I	T	+	2	0	CSPP1	68270351	0.000000	0.05858	0.008000	0.14137	0.141000	0.21300	0.200000	0.17257	-0.223000	0.09943	-0.181000	0.13052	ACT		0.493	ARFGEF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379441.4	NM_006421		T	68107797	C	T	68107797	1	4	691	0	1	0	0	0	0	0	0	0	3964	565	20	2		2	CSPP1	8	68107797	IGR	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10		68107797	78256225	66	44957										
DCAF13	25879	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	104444950	104444950	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tggaagctttcatttttacaGcagcaaatgaagattataag	8	5	1	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr8:104444950G>T	ENST00000297579.5	+	7	1499	c.1222G>T	c.(1222-1224)Gca>Tca	p.A408S	DCAF13_ENST00000521999.1_3'UTR	NM_015420.6	NP_056235.4	Q9NV06	DCA13_HUMAN	DDB1 and CUL4 associated factor 13	256					protein ubiquitination (GO:0016567)|rRNA processing (GO:0006364)	Cul4-RING E3 ubiquitin ligase complex (GO:0080008)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	poly(A) RNA binding (GO:0044822)			NS(1)|breast(1)|kidney(2)|large_intestine(8)|lung(8)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	25						CATTTTTACAGCAGCAAATGA	0.308																																																0													80	87	85					8																	104444950		2203	4297	6500	SO:0001583	missense	25879			AK074725	CCDS34934.1	8q22.3	2013-01-09	2009-07-17	2009-07-17	ENSG00000164934	ENSG00000164934		"WD repeat domain containing", "DDB1 and CUL4 associated factors"	24535	protein-coding gene	gene with protein product			"WD repeats and SOF1 domain containing"	WDSOF1		11042152	Standard	NM_015420		Approved	DKFZP564O0463, Gm83, HSPC064	uc003yln.3	Q9NV06	OTTHUMG00000164888	ENST00000297579.5:c.1222G>T	8.37:g.104444950G>T	ENSP00000297579:p.Ala408Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MII9|Q8NCH8|Q8TC51|Q96JY7|Q9NZX3	Missense_Mutation	SNP	ENST00000297579.5	37	CCDS34934.1	.	.	.	.	.	.	.	.	.	.	G	15.65	2.895183	0.52121	.	.	ENSG00000164934	ENST00000297579	T	0.01397	4.94	5.45	5.45	0.79879	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.236141	0.41938	D	0.000800	T	0.02380	0.0073	L	0.43152	1.355	0.80722	D	1	B	0.34241	0.444	B	0.32677	0.15	T	0.62120	-0.6921	10	0.46703	T	0.11	-21.6615	19.6374	0.95740	0.0:0.0:1.0:0.0	.	256	Q9NV06	DCA13_HUMAN	S	408	ENSP00000297579:A408S	ENSP00000297579:A408S	A	+	1	0	DCAF13	104514126	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	4.624000	0.61254	2.711000	0.92665	0.563000	0.77884	GCA		0.308	DCAF13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380797.2	NM_015420		T	104444950	G	T	104444950	3	4	691	1	0	0	0	0	1	0	0	0	4268	971	34	4	1248	4	DCAF13	8	104444950	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	36337153	104444950	41919072	67	44958										
PKHD1L1	93035	broad.mit.edu	37	chr8	110453596	110453596	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tattcaggattaccaacaatGggaaagattcaggtatcagc	9	7	3	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr8:110453596G>A	ENST00000378402.5	+	34	4296	c.4192G>A	c.(4192-4194)Ggg>Agg	p.G1398R		NM_177531.4	NP_803875.2	Q86WI1	PKHL1_HUMAN	polycystic kidney and hepatic disease 1 (autosomal recessive)-like 1	1398	IPT/TIG 7.				immune response (GO:0006955)	cytosol (GO:0005829)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)	receptor activity (GO:0004872)			NS(4)|breast(13)|central_nervous_system(6)|cervix(1)|endometrium(19)|kidney(17)|large_intestine(34)|lung(122)|ovary(11)|pancreas(3)|prostate(9)|skin(3)|stomach(4)|upper_aerodigestive_tract(13)|urinary_tract(4)	263			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TACCAACAATGGGAAAGATTC	0.289										HNSCC(38;0.096)																																						0													39	39	39					8																	110453596		1809	4056	5865	SO:0001583	missense	93035			AY219181	CCDS47911.1	8q23	2003-03-28			ENSG00000205038	ENSG00000205038			20313	protein-coding gene	gene with protein product		607843				12620974	Standard	NM_177531		Approved		uc003yne.3	Q86WI1	OTTHUMG00000164934	ENST00000378402.5:c.4192G>A	8.37:g.110453596G>A	ENSP00000367655:p.Gly1398Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q567P2|Q9UF27	Missense_Mutation	SNP	ENST00000378402.5	37	CCDS47911.1	.	.	.	.	.	.	.	.	.	.	G	18.97	3.735401	0.69189	.	.	ENSG00000205038	ENST00000378402	D	0.90261	-2.64	5.48	5.48	0.80851	Cupredoxin (1);Cell surface receptor IPT/TIG (1);Immunoglobulin E-set (1);	0.000000	0.64402	D	0.000002	D	0.95268	0.8465	M	0.78049	2.395	0.38053	D	0.935856	D	0.89917	1.0	D	0.91635	0.999	D	0.96317	0.9233	10	0.87932	D	0	.	17.2099	0.86928	0.0:0.0:1.0:0.0	.	1398	Q86WI1	PKHL1_HUMAN	R	1398	ENSP00000367655:G1398R	ENSP00000367655:G1398R	G	+	1	0	PKHD1L1	110522772	1.000000	0.71417	0.348000	0.25681	0.725000	0.41563	5.168000	0.64978	2.730000	0.93505	0.650000	0.86243	GGG		0.289	PKHD1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381017.1	NM_177531		A	110453596	G	A	110453596	3	1	691	1	0	0	0	0	1	0	0	0	11979	1348	47	2	4326	2	PKHD1L1	8	110453596	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	6008646	110453596	35910426	68	44959										
PUF60	22827	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	144902839	144902839	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tgagcatttctattgaccgaTtgcaaaggtgagagaggatc	12	6	1	4			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr8:144902839T>C	ENST00000526683.1	-	5	900	c.345A>G	c.(343-345)caA>caG	p.Q115Q	PUF60_ENST00000524570.1_5'UTR|PUF60_ENST00000456095.2_Silent_p.Q86Q|PUF60_ENST00000313352.7_Intron|PUF60_ENST00000453551.2_Silent_p.Q72Q|PUF60_ENST00000527197.1_Intron|PUF60_ENST00000349157.6_Intron	NM_001271098.1|NM_078480.2	NP_001258027.1|NP_510965.1	Q9UHX1	PUF60_HUMAN	poly-U binding splicing factor 60KDa	115	Inhibits homodimerization.|Inhibits transcriptional repression, interaction with ERCC3 and apoptosis induction.				apoptotic process (GO:0006915)|mRNA processing (GO:0006397)|regulation of transcription, DNA-templated (GO:0006355)|RNA splicing (GO:0008380)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	DNA binding (GO:0003677)|identical protein binding (GO:0042802)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(1)|endometrium(1)|kidney(3)|lung(7)|prostate(2)	14	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;6.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			TATTGACCGATTGCAAAGGTG	0.562																																																0													199	208	205					8																	144902839		2085	4208	6293	SO:0001819	synonymous_variant	22827			AF114818	CCDS47933.1, CCDS47934.1, CCDS47935.1, CCDS59514.1, CCDS59515.1, CCDS59516.1	8q24.3	2013-02-12	2007-07-27		ENSG00000179950	ENSG00000179950		"RNA binding motif (RRM) containing"	17042	protein-coding gene	gene with protein product	"siah binding protein 1", "FBP interacting repressor", "pyrimidine tract binding splicing factor", "Ro ribonucleoprotein binding protein 1"	604819				10668799, 10882074, 17579712	Standard	NM_078480		Approved	FIR, SIAHBP1, RoBPI	uc003yzs.4	Q9UHX1	OTTHUMG00000165155	ENST00000526683.1:c.345A>G	8.37:g.144902839T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K8K8|Q969E7|Q96D94|Q96H63|Q99628|Q9NZA0|Q9UJY7	Silent	SNP	ENST00000526683.1	37	CCDS47934.1	.	.	.	.	.	.	.	.	.	.	T	9.393	1.076050	0.20227	.	.	ENSG00000179950	ENST00000527744	.	.	.	5.28	4.14	0.48551	.	.	.	.	.	T	0.59972	0.2233	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.55927	-0.8063	4	.	.	.	.	9.9314	0.41525	0.0:0.0798:0.0:0.9202	.	.	.	.	S	113	.	.	N	-	2	0	PUF60	144974827	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.482000	0.60257	0.868000	0.35678	0.533000	0.62120	AAT		0.562	PUF60-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000382222.1	NM_014281		C	144902839	T	C	144902839	2	2	691	1	0	0	0	0	0	0	0	1	12837	1490	52	3		3	PUF60	8	144902839	Silent	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	34449243	144902839	1461183	69	44960										
VLDLR	7436	hgsc.bcm.edu;bcgsc.ca	37	chr9	2643309	2643310	+	In_Frame_Ins	INS	-	-	GCA													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tggcgcccatgagttccagtINSgcagcacctcctcctgcatc							TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr9:2643309_2643310insGCA	ENST00000382100.3	+	5	954_955	c.598_599insGCA	c.(598-600)tgc>tGCAgc	p.201_202insS	RP11-125B21.2_ENST00000599229.1_RNA|VLDLR_ENST00000382099.2_In_Frame_Ins_p.201_202insS	NM_003383.3	NP_003374.3	P98155	VLDLR_HUMAN	very low density lipoprotein receptor	201	LDL-receptor class A 5. {ECO:0000255|PROSITE-ProRule:PRU00124}.				cholesterol metabolic process (GO:0008203)|glycoprotein transport (GO:0034436)|lipid transport (GO:0006869)|memory (GO:0007613)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nervous system development (GO:0007399)|positive regulation of dendrite development (GO:1900006)|positive regulation of protein kinase activity (GO:0045860)|receptor-mediated endocytosis (GO:0006898)|reelin-mediated signaling pathway (GO:0038026)|signal transduction (GO:0007165)|ventral spinal cord development (GO:0021517)|very-low-density lipoprotein particle clearance (GO:0034447)	coated pit (GO:0005905)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|very-low-density lipoprotein particle (GO:0034361)	apolipoprotein binding (GO:0034185)|calcium ion binding (GO:0005509)|calcium-dependent protein binding (GO:0048306)|glycoprotein binding (GO:0001948)|glycoprotein transporter activity (GO:0034437)|low-density lipoprotein receptor activity (GO:0005041)|reelin receptor activity (GO:0038025)|very-low-density lipoprotein particle binding (GO:0034189)|very-low-density lipoprotein particle receptor activity (GO:0030229)			breast(1)|central_nervous_system(2)|endometrium(1)|kidney(3)|large_intestine(6)|lung(5)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(1)	24				GBM - Glioblastoma multiforme(50;0.0668)|Lung(218;0.123)		TGAGTTCCAGTGCAGCACCTCC	0.589																																																0																																										SO:0001652	inframe_insertion	7436				CCDS6446.1, CCDS34979.1	9p24	2014-01-24			ENSG00000147852	ENSG00000147852		"Low density lipoprotein receptors"	12698	protein-coding gene	gene with protein product		192977				8294473	Standard	XM_006716864		Approved	CARMQ1, CHRMQ1, VLDLRCH	uc003zhk.1	P98155	OTTHUMG00000019447	ENST00000382100.3:c.602_604dupGCA	9.37:g.2643313_2643315dupGCA	ENSP00000371532:p.Ser203_Ser204dup	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMZ7|D3DRH6|Q5VVF6	In_Frame_Ins	INS	ENST00000382100.3	37	CCDS6446.1																																																																																				0.589	VLDLR-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000051519.2	NM_003383		GCA	2643310	-	GCA	2643309	7	5	691	1	0	1	1	0	0	0	0	0	17186	1696	59	0	616	0	VLDLR	9	2643309	In_Frame_Ins	INS	-	TCGA-MH-A55Z-01A-11D-A26P-10		2643309	138570122	70	44961										
STOML2	30968	ucsc.edu;bcgsc.ca	37	chr9	35102144	35102144	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	atgacaatttccttgagactCtgcacatatcggatccggtc	8	11	1	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr9:35102144C>G	ENST00000356493.5	-	3	293	c.231G>C	c.(229-231)caG>caC	p.Q77H	STOML2_ENST00000452248.2_Missense_Mutation_p.Q77H|STOML2_ENST00000487490.1_5'UTR	NM_013442.1	NP_038470.1	Q9UJZ1	STML2_HUMAN	stomatin (EPB72)-like 2	77					CD4-positive, alpha-beta T cell activation (GO:0035710)|cellular calcium ion homeostasis (GO:0006874)|interleukin-2 production (GO:0032623)|lipid localization (GO:0010876)|mitochondrial ATP synthesis coupled proton transport (GO:0042776)|mitochondrial calcium ion transport (GO:0006851)|mitochondrial protein processing (GO:0034982)|mitochondrion organization (GO:0007005)|positive regulation of cardiolipin metabolic process (GO:1900210)|positive regulation of mitochondrial DNA replication (GO:0090297)|positive regulation of mitochondrial membrane potential (GO:0010918)|protein oligomerization (GO:0051259)|stress-induced mitochondrial fusion (GO:1990046)|T cell receptor signaling pathway (GO:0050852)	cytoskeleton (GO:0005856)|extrinsic component of plasma membrane (GO:0019897)|membrane raft (GO:0045121)|mitochondrial inner membrane (GO:0005743)|mitochondrial intermembrane space (GO:0005758)	cardiolipin binding (GO:1901612)|receptor binding (GO:0005102)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(6)|prostate(1)	16			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			CCTTGAGACTCTGCACATATC	0.532																																																0													102	93	96					9																	35102144		2203	4300	6503	SO:0001583	missense	30968			AF190167	CCDS6577.1, CCDS69588.1, CCDS75830.1	9p13.1	2008-02-05			ENSG00000165283	ENSG00000165283			14559	protein-coding gene	gene with protein product		608292				10713127, 17121834	Standard	NM_001287031		Approved	SLP-2, HSPC108	uc003zwi.3	Q9UJZ1	OTTHUMG00000019851	ENST00000356493.5:c.231G>C	9.37:g.35102144C>G	ENSP00000348886:p.Gln77His	Somatic		WXS	Illumina HiSeq		B4E1K7|D3DRN3|O60376|Q53G29|Q96FY2|Q9P042	Missense_Mutation	SNP	ENST00000356493.5	37	CCDS6577.1	.	.	.	.	.	.	.	.	.	.	C	5.880	0.346502	0.11126	.	.	ENSG00000165283	ENST00000356493;ENST00000452248	D;D	0.94457	-3.43;-3.43	5.56	4.66	0.58398	.	0.051019	0.85682	D	0.000000	D	0.89375	0.6697	N	0.21240	0.645	0.58432	D	0.999999	B;B	0.27700	0.002;0.186	B;B	0.37833	0.01;0.259	T	0.83332	-0.0012	10	0.06625	T	0.88	-15.0706	11.5082	0.50479	0.0:0.8569:0.0:0.1431	.	77;77	B4E1K7;Q9UJZ1	.;STML2_HUMAN	H	77	ENSP00000348886:Q77H;ENSP00000395743:Q77H	ENSP00000348886:Q77H	Q	-	3	2	STOML2	35092144	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	2.331000	0.43894	1.580000	0.49851	0.655000	0.94253	CAG		0.532	STOML2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052273.1	NM_013442		G	35102144	C	G	35102144	3	3	691	1	0	0	0	0	1	0	0	0	15326	912	32	4	871	4	STOML2	9	35102144	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	32458835	35102144	106111287	71	44962										
ALDH1B1	219	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	38397069	38397069	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	agagggccaacaacaccaggTatggcctggctgcggctgtg	15	11	0	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr9:38397069T>C	ENST00000377698.3	+	2	1477	c.1324T>C	c.(1324-1326)Tat>Cat	p.Y442H		NM_000692.4	NP_000683.3	P30837	AL1B1_HUMAN	aldehyde dehydrogenase 1 family, member B1	442					carbohydrate metabolic process (GO:0005975)|ethanol catabolic process (GO:0006068)	intracellular membrane-bounded organelle (GO:0043231)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	aldehyde dehydrogenase (NAD) activity (GO:0004029)			NS(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(11)|prostate(1)|skin(1)|stomach(2)|urinary_tract(2)	32				GBM - Glioblastoma multiforme(29;0.043)|Lung(182;0.115)		CAACACCAGGTATGGCCTGGC	0.552																																																0													69	66	67					9																	38397069		2203	4300	6503	SO:0001583	missense	219			M63967	CCDS6615.1	9p13	2008-02-05			ENSG00000137124	ENSG00000137124	1.2.1.3	"Aldehyde dehydrogenases"	407	protein-coding gene	gene with protein product		100670		ALDH5		2061311	Standard	NM_000692		Approved	ALDHX	uc004aay.3	P30837	OTTHUMG00000019938	ENST00000377698.3:c.1324T>C	9.37:g.38397069T>C	ENSP00000366927:p.Tyr442His	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8F0|Q8WX76|Q9BV45	Missense_Mutation	SNP	ENST00000377698.3	37	CCDS6615.1	.	.	.	.	.	.	.	.	.	.	T	17.07	3.294921	0.60086	.	.	ENSG00000137124	ENST00000377698;ENST00000540055	D	0.81659	-1.52	5.7	5.7	0.88788	Aldehyde dehydrogenase domain (1);Aldehyde dehydrogenase, C-terminal (1);Aldehyde/histidinol dehydrogenase (1);	0.000000	0.64402	D	0.000018	D	0.92485	0.7614	H	0.95816	3.725	0.54753	D	0.999985	D	0.89917	1.0	D	0.83275	0.996	D	0.94386	0.7609	10	0.87932	D	0	.	13.9161	0.63899	0.0:0.0:0.0:1.0	.	442	P30837	AL1B1_HUMAN	H	442;143	ENSP00000366927:Y442H	ENSP00000366927:Y442H	Y	+	1	0	ALDH1B1	38387069	1.000000	0.71417	0.927000	0.36925	0.539000	0.34962	7.743000	0.85020	2.169000	0.68431	0.533000	0.62120	TAT		0.552	ALDH1B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052492.1			C	38397069	T	C	38397069	3	2	691	1	0	0	0	0	1	0	0	0	493	1638	57	3	1326	3	ALDH1B1	9	38397069	Missense_Mutation	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	3294925	38397069	102816362	72	44963										
ZNF462	58499	broad.mit.edu	37	chr9	109689599	109689599	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tgcttgtccactaccagaaaAgacacccagaaataaaggtt	7	10	0	3			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr9:109689599A>G	ENST00000277225.5	+	3	3695	c.3406A>G	c.(3406-3408)Aga>Gga	p.R1136G	ZNF462_ENST00000441147.2_5'Flank|ZNF462_ENST00000457913.1_Missense_Mutation_p.R1136G			Q96JM2	ZN462_HUMAN	zinc finger protein 462	1136					chromatin organization (GO:0006325)|negative regulation of DNA binding (GO:0043392)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(2)|autonomic_ganglia(2)|breast(5)|central_nervous_system(4)|cervix(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(1)|kidney(17)|large_intestine(20)|lung(32)|ovary(5)|prostate(6)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	119						CTACCAGAAAAGACACCCAGA	0.537																																																0													92	96	95					9																	109689599		2203	4300	6503	SO:0001583	missense	58499			AB058706	CCDS35096.1	9q31.3	2008-02-05			ENSG00000148143	ENSG00000148143		"Zinc fingers, C2H2-type"	21684	protein-coding gene	gene with protein product							Standard	NM_021224		Approved	DKFZP762N2316, KIAA1803, Zfp462	uc004bcz.3	Q96JM2	OTTHUMG00000020438	ENST00000277225.5:c.3406A>G	9.37:g.109689599A>G	ENSP00000277225:p.Arg1136Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T0T4|Q8N408	Missense_Mutation	SNP	ENST00000277225.5	37	CCDS35096.1	.	.	.	.	.	.	.	.	.	.	A	15.28	2.786838	0.49997	.	.	ENSG00000148143	ENST00000277225;ENST00000457913;ENST00000374686	T;T;T	0.12147	2.71;3.1;3.6	5.37	5.37	0.77165	Zinc finger, C2H2-like (1);	0.000000	0.85682	D	0.000000	T	0.33323	0.0859	L	0.54323	1.7	0.80722	D	1	D;D	0.71674	0.996;0.998	D;D	0.77557	0.99;0.987	T	0.03403	-1.1040	10	0.72032	D	0.01	.	15.3692	0.74548	1.0:0.0:0.0:0.0	.	1136;1136	Q96JM2-3;Q96JM2	.;ZN462_HUMAN	G	1136;1136;19	ENSP00000277225:R1136G;ENSP00000414570:R1136G;ENSP00000363818:R19G	ENSP00000277225:R1136G	R	+	1	2	ZNF462	108729420	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	4.785000	0.62418	2.033000	0.60031	0.459000	0.35465	AGA		0.537	ZNF462-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000053532.2	NM_021224		G	109689599	A	G	109689599	3	3	691	1	0	0	0	0	1	0	0	0	17938	64	3	3	3412	3	ZNF462	9	109689599	Missense_Mutation	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	71292530	109689599	31523832	73	44964										
C9orf50	375759	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	132377793	132377793	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gcgctcccagtagcggagcgTtgtgtcctgcagggtctcgt	15	12	1	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr9:132377793T>C	ENST00000372478.4	-	4	1051	c.850A>G	c.(850-852)Acg>Gcg	p.T284A	NTMT1_ENST00000372486.1_Intron	NM_199350.3	NP_955382.3	Q5SZB4	CI050_HUMAN	chromosome 9 open reading frame 50	284										central_nervous_system(1)|endometrium(4)|large_intestine(2)|ovary(1)|skin(1)|urinary_tract(1)	10		Ovarian(14;0.00556)				TAGCGGAGCGTTGTGTCCTGC	0.642																																																0													65	56	59					9																	132377793		2203	4300	6503	SO:0001583	missense	375759			AK093122	CCDS35159.1	9q34.2	2012-03-15			ENSG00000179058	ENSG00000179058			23677	protein-coding gene	gene with protein product							Standard	NM_199350		Approved	FLJ35803	uc004byc.4	Q5SZB4	OTTHUMG00000020786	ENST00000372478.4:c.850A>G	9.37:g.132377793T>C	ENSP00000361556:p.Thr284Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M1I2|Q8NA65	Missense_Mutation	SNP	ENST00000372478.4	37	CCDS35159.1	.	.	.	.	.	.	.	.	.	.	t	0.001	-2.889554	0.00060	.	.	ENSG00000179058	ENST00000372478	T	0.10099	2.91	3.17	0.155	0.14906	.	0.496540	0.15341	N	0.267481	T	0.02380	0.0073	N	0.01168	-0.975	0.09310	N	1	B	0.11235	0.004	B	0.04013	0.001	T	0.44711	-0.9310	10	0.02654	T	1	-2.9125	5.3025	0.15785	0.0:0.4706:0.407:0.1224	.	284	Q5SZB4	CI050_HUMAN	A	284	ENSP00000361556:T284A	ENSP00000361556:T284A	T	-	1	0	C9orf50	131417614	0.003000	0.15002	0.001000	0.08648	0.108000	0.19459	0.323000	0.19593	0.038000	0.15604	-1.709000	0.00716	ACG		0.642	C9orf50-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054593.1	NM_199350		C	132377793	T	C	132377793	3	2	691	1	0	0	0	0	1	0	0	0	2489	1725	60	3	461	3	C9orf50	9	132377793	Missense_Mutation	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	22688194	132377793	8835638	74	44965										
TPRN	286262	hgsc.bcm.edu	37	chr9	140094091	140094091	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ggctcggggaggccgggcccAggtctccctttggcagctcc	16	15	1	0	rs60910563	byFrequency	TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr9:140094091A>G	ENST00000409012.4	-	1	1159	c.1073T>C	c.(1072-1074)cTg>cCg	p.L358P	TPRN_ENST00000541945.1_Intron|TPRN_ENST00000321773.2_Missense_Mutation_p.L297P	NM_001128228.2	NP_001121700.2	Q4KMQ1	TPRN_HUMAN	taperin	358					sensory perception of sound (GO:0007605)	stereocilium (GO:0032420)				breast(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(2)|prostate(2)	8						GGCCGGGCCCAGGTCTCCCTT	0.672													A|||	94	0.01877	0.0696	0.0029	5008	,	,		12735	0.0		0.0	False		,,,				2504	0.0															0								A	PRO/LEU	133,3959		1,131,1914	5	5	5		1073	-2.5	0	9	dbSNP_129	5	0,8162		0,0,4081	yes	missense	TPRN	NM_001128228.2	98	1,131,5995	GG,GA,AA		0.0,3.2502,1.0854	probably-damaging	358/712	140094091	133,12121	2046	4081	6127	SO:0001583	missense	286262			AK074735	CCDS56594.1	9q34.3	2011-01-06	2010-03-24	2010-03-24	ENSG00000176058	ENSG00000176058			26894	protein-coding gene	gene with protein product		613354	"chromosome 9 open reading frame 75", "deafness, autosomal recessive 79"	C9orf75, DFNB79		20170898, 20170899	Standard	NM_001128228		Approved	FLJ90254	uc004clu.3	Q4KMQ1	OTTHUMG00000020984	ENST00000409012.4:c.1073T>C	9.37:g.140094091A>G	ENSP00000387100:p.Leu358Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKU5|Q5VSG5|Q5VSG6|Q6IPP2|Q8NCH2	Missense_Mutation	SNP	ENST00000409012.4	37	CCDS56594.1	35	0.016025641025641024	34	0.06910569105691057	1	0.0027624309392265192	0	0.0	0	0.0	A	0.935	-0.711322	0.03230	0.032502	0.0	ENSG00000176058	ENST00000333046;ENST00000409012;ENST00000321773	.	.	.	3.47	-2.46	0.06461	.	1.261530	0.05899	N	0.629706	T	0.01189	0.0039	N	0.14661	0.345	0.09310	N	0.999999	B	0.24483	0.104	B	0.17433	0.018	T	0.17440	-1.0369	9	0.56958	D	0.05	.	0.3333	0.00322	0.3035:0.2092:0.282:0.2053	rs60910563	358	Q4KMQ1	TPRN_HUMAN	P	156;358;297	.	ENSP00000313704:L297P	L	-	2	0	TPRN	139213912	0.000000	0.05858	0.001000	0.08648	0.052000	0.14988	-0.236000	0.09003	-0.352000	0.08237	0.374000	0.22700	CTG		0.672	TPRN-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000055323.3	NM_173691		G	140094091	A	G	140094091	3	3	691	1	0	0	0	0	1	0	0	0	16433	188	7	3	1158	3	TPRN	9	140094091	Missense_Mutation	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	7716298	140094091	1119340	75	44966										
ZNF438	220929	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	31134006	31134006	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gtgcttccagtggtggaggaGgtcctctttccgtcccagca	13	12	1	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr10:31134006G>A	ENST00000361310.3	-	7	2700	c.2371C>T	c.(2371-2373)Ctc>Ttc	p.L791F	ZNF438_ENST00000452305.1_Missense_Mutation_p.L781F|ZNF438_ENST00000444692.2_Missense_Mutation_p.L781F|ZNF438_ENST00000436087.2_Missense_Mutation_p.L791F|ZNF438_ENST00000331737.6_Missense_Mutation_p.L781F|ZNF438_ENST00000442986.1_Missense_Mutation_p.L791F|ZNF438_ENST00000375311.1_Missense_Mutation_p.L355F|ZNF438_ENST00000538351.2_Missense_Mutation_p.L742F|ZNF438_ENST00000413025.1_Missense_Mutation_p.L791F			Q7Z4V0	ZN438_HUMAN	zinc finger protein 438	791					negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(3)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(3)|lung(15)|ovary(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	35		Prostate(175;0.0587)				TGGTGGAGGAGGTCCTCTTTC	0.537																																																0													188	181	184					10																	31134006		2203	4300	6503	SO:0001583	missense	220929			AK057323	CCDS7168.1, CCDS44369.1, CCDS53504.1	10p11.23	2006-02-15			ENSG00000183621	ENSG00000183621		"Zinc fingers, C2H2-type"	21029	protein-coding gene	gene with protein product							Standard	NM_182755		Approved	bA330O11.1	uc010qeb.2	Q7Z4V0	OTTHUMG00000017904	ENST00000361310.3:c.2371C>T	10.37:g.31134006G>A	ENSP00000354663:p.Leu791Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3J4|A8K9L5|Q5T426|Q658Q4|Q6ZN65	Missense_Mutation	SNP	ENST00000361310.3	37	CCDS7168.1	.	.	.	.	.	.	.	.	.	.	G	26.7	4.766477	0.90020	.	.	ENSG00000183621	ENST00000331737;ENST00000361310;ENST00000436087;ENST00000442986;ENST00000413025;ENST00000452305;ENST00000444692;ENST00000538351;ENST00000430896;ENST00000375311	T;T;T;T;T;T;T;T;T	0.17854	2.25;2.25;2.25;2.25;2.25;2.25;2.25;2.25;2.29	5.5	3.62	0.41486	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (2);	0.115961	0.64402	D	0.000014	T	0.37293	0.0998	M	0.68593	2.085	0.36439	D	0.865386	D;D	0.89917	1.0;1.0	D;D	0.77557	0.976;0.99	T	0.44498	-0.9324	10	0.87932	D	0	-20.022	11.0268	0.47748	0.0708:0.1293:0.7998:0.0	.	791;781	Q7Z4V0;Q7Z4V0-2	ZN438_HUMAN;.	F	781;791;791;791;791;781;781;742;510;355	ENSP00000333571:L781F;ENSP00000354663:L791F;ENSP00000406934:L791F;ENSP00000412363:L791F;ENSP00000387546:L791F;ENSP00000413060:L781F;ENSP00000410898:L781F;ENSP00000445461:L742F;ENSP00000364460:L355F	ENSP00000333571:L781F	L	-	1	0	ZNF438	31174012	1.000000	0.71417	0.008000	0.14137	0.846000	0.48090	3.398000	0.52579	0.770000	0.33336	0.655000	0.94253	CTC		0.537	ZNF438-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000277006.1	NM_182755		A	31134006	G	A	31134006	3	1	691	1	0	0	0	0	1	0	0	0	17922	1000	35	2	119	2	ZNF438	10	31134006	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10		31134006	104400741	76	44967										
ZNF33B	7582	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	43088357	43088357	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gtgctttctctcatgtaaaaTaagtcctgacttcacacaga	6	10	3	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr10:43088357T>C	ENST00000359467.3	-	5	2155	c.2041A>G	c.(2041-2043)Att>Gtt	p.I681V	ZNF33B_ENST00000486187.1_RNA	NM_006955.1	NP_008886.1	Q06732	ZN33B_HUMAN	zinc finger protein 33B	681					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(4)|kidney(1)|large_intestine(6)|lung(15)|skin(1)|stomach(1)	29						TCATGTAAAATAAGTCCTGAC	0.403																																					Melanoma(137;1247 1767 16772 25727 43810)											0													123	121	122					10																	43088357		2203	4300	6503	SO:0001583	missense	7582			X68688, AJ491697	CCDS7198.1	10q11.2	2013-01-08	2005-03-18		ENSG00000196693	ENSG00000196693		"Zinc fingers, C2H2-type", "-"	13097	protein-coding gene	gene with protein product		194522	"zinc finger protein 33b (KOX 31)", "zinc finger protein 11B"	ZNF11B		2014798	Standard	NM_006955		Approved	KOX31, KOX2	uc001jaf.1	Q06732	OTTHUMG00000018014	ENST00000359467.3:c.2041A>G	10.37:g.43088357T>C	ENSP00000352444:p.Ile681Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q06731|Q32MA2|Q86XY8|Q8NDW3	Missense_Mutation	SNP	ENST00000359467.3	37	CCDS7198.1	.	.	.	.	.	.	.	.	.	.	T	4.006	-0.001564	0.07819	.	.	ENSG00000196693	ENST00000359467;ENST00000395836	T	0.35605	1.3	2.54	0.118	0.14667	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.852537	0.09554	N	0.786508	T	0.12902	0.0313	N	0.02842	-0.48	0.19300	N	0.999972	B	0.09022	0.002	B	0.09377	0.004	T	0.23404	-1.0189	10	0.30854	T	0.27	.	2.2255	0.03983	0.2309:0.2698:0.0:0.4993	.	681	Q06732	ZN33B_HUMAN	V	681;647	ENSP00000352444:I681V	ENSP00000352444:I681V	I	-	1	0	ZNF33B	42408363	0.000000	0.05858	0.917000	0.36280	0.797000	0.45037	-1.573000	0.02134	0.016000	0.14998	0.336000	0.21669	ATT		0.403	ZNF33B-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_006955		C	43088357	T	C	43088357	3	2	691	1	0	0	0	0	1	0	0	0	17867	1406	49	3	299	3	ZNF33B	10	43088357	Missense_Mutation	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	11954351	43088357	92446390	77	44968										
RRP12	23223	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	99116859	99116859	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gggccctgggcctcagggtcGacgatcctttctgcggtttt	14	12	2	0	rs371319861		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr10:99116859G>A	ENST00000370992.4	-	34	3997	c.3886C>T	c.(3886-3888)Cga>Tga	p.R1296*	RRP12_ENST00000315563.6_Nonsense_Mutation_p.R1196*|RRP12_ENST00000536831.1_Nonsense_Mutation_p.R1014*|RRP12_ENST00000479481.1_5'UTR|RRP12_ENST00000414986.1_Nonsense_Mutation_p.R1235*	NM_015179.3	NP_055994.2	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog (S. cerevisiae)	1296						integral component of membrane (GO:0016021)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)			NS(1)|breast(2)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(5)|large_intestine(2)|lung(13)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	37		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		CCTCAGGGTCGACGATCCTTT	0.622																																																0								A	stop/ARG,stop/ARG	0,4406		0,0,2203	86	82	83		3703,3886	1.2	0	10		83	1,8599	1.2+/-3.3	0,1,4299	no	stop-gained,stop-gained	RRP12	NM_001145114.1,NM_015179.3	,	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	,	1235/1237,1296/1298	99116859	1,13005	2203	4300	6503	SO:0001587	stop_gained	23223				CCDS7457.1, CCDS44467.1, CCDS60605.1	10q24.2	2006-11-06	2006-11-06	2006-11-06	ENSG00000052749	ENSG00000052749			29100	protein-coding gene	gene with protein product			"KIAA0690"	KIAA0690		9734811	Standard	NM_015179		Approved		uc001knf.3	Q5JTH9	OTTHUMG00000018855	ENST00000370992.4:c.3886C>T	10.37:g.99116859G>A	ENSP00000360031:p.Arg1296*	Somatic		WXS	Illumina HiSeq	Phase_I	B4DK00|E9PCK7|Q5JTH8|Q69YK4|Q96E87|Q9BUH3|Q9Y4C7	Nonsense_Mutation	SNP	ENST00000370992.4	37	CCDS7457.1	.	.	.	.	.	.	.	.	.	.	g	37	6.020086	0.97205	0.0	1.16E-4	ENSG00000052749	ENST00000370992;ENST00000315563;ENST00000414986;ENST00000536831	.	.	.	5.4	1.22	0.21188	.	0.218072	0.37955	N	0.001863	.	.	.	.	.	.	0.22947	N	0.998522	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-7.913	5.2587	0.15561	0.0662:0.1203:0.4412:0.3724	.	.	.	.	X	1296;1196;1235;1014	.	ENSP00000324315:R1196X	R	-	1	2	RRP12	99106849	0.005000	0.15991	0.003000	0.11579	0.391000	0.30476	0.593000	0.23999	0.243000	0.21327	-0.215000	0.12644	CGA		0.622	RRP12-007	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049699.4	NM_015179		A	99116859	G	A	99116859	4	1	691	1	0	0	0	0	0	1	0	0	13699	1066	37	1	11	1	RRP12	10	99116859	Nonsense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	56028502	99116859	36417888	78	44969										
AFAP1L2	84632	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	116100456	116100456	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tcctggtcaagaatcttgagGaagtcatccaactctgtcag	9	10	5	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr10:116100456G>A	ENST00000304129.4	-	2	80	c.51C>T	c.(49-51)ttC>ttT	p.F17F	AFAP1L2_ENST00000369271.3_Silent_p.F17F|AFAP1L2_ENST00000545353.1_Silent_p.F17F			Q8N4X5	AF1L2_HUMAN	actin filament associated protein 1-like 2	17					inflammatory response (GO:0006954)|positive regulation of epidermal growth factor receptor signaling pathway (GO:0045742)|positive regulation of interleukin-8 production (GO:0032757)|positive regulation of protein tyrosine kinase activity (GO:0061098)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of interleukin-6 production (GO:0032675)|regulation of mitotic cell cycle (GO:0007346)	cytoplasm (GO:0005737)	protein tyrosine kinase activator activity (GO:0030296)|SH2 domain binding (GO:0042169)|SH3 domain binding (GO:0017124)			breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|liver(1)|lung(11)|ovary(1)|prostate(2)	21		Colorectal(252;0.175)|Breast(234;0.231)		Epithelial(162;0.0219)|all cancers(201;0.0561)		GAATCTTGAGGAAGTCATCCA	0.537																																																0													87	85	86					10																	116100456		2203	4300	6503	SO:0001819	synonymous_variant	84632			BC024314	CCDS31286.1, CCDS31287.1	10q26.11	2013-01-10	2007-02-07	2007-02-07	ENSG00000169129	ENSG00000169129		"Pleckstrin homology (PH) domain containing"	25901	protein-coding gene	gene with protein product		612420	"KIAA1914"	KIAA1914		11572484, 17412687	Standard	XM_005270239		Approved	FLJ14564, Em:AC005383.4, XB130	uc001lbn.3	Q8N4X5	OTTHUMG00000019086	ENST00000304129.4:c.51C>T	10.37:g.116100456G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6P7|B3KVQ8|Q2UZW3|Q8TB54|Q96PX4|Q96SY5	Silent	SNP	ENST00000304129.4	37	CCDS31286.1																																																																																				0.537	AFAP1L2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000050462.1	NM_032550		A	116100456	G	A	116100456	2	1	691	1	0	0	0	0	0	0	0	1	355	1165	41	2		2	AFAP1L2	10	116100456	Silent	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	16983597	116100456	19434291	79	44970										
MKI67	4288	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	129902143	129902143	+	Frame_Shift_Del	DEL	G	G	-													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gttcctcttctactgggtttGgtttcttctttgcacgttgc							TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr10:129902143delG	ENST00000368654.3	-	13	8336	c.7961delC	c.(7960-7962)ccafs	p.P2654fs	MKI67_ENST00000368653.3_Frame_Shift_Del_p.P2294fs	NM_002417.4	NP_002408.3	P46013	KI67_HUMAN	marker of proliferation Ki-67	2654	16 X 122 AA approximate repeats.				cell proliferation (GO:0008283)|cellular response to heat (GO:0034605)|DNA metabolic process (GO:0006259)|hyaluronan metabolic process (GO:0030212)|meiotic nuclear division (GO:0007126)|organ regeneration (GO:0031100)|response to organic cyclic compound (GO:0014070)	chromosome, centromeric region (GO:0000775)|condensed chromosome (GO:0000793)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|protein C-terminus binding (GO:0008022)			NS(2)|autonomic_ganglia(1)|breast(2)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(5)|kidney(7)|large_intestine(30)|lung(64)|ovary(4)|pancreas(1)|prostate(4)|skin(2)|soft_tissue(1)|stomach(10)|upper_aerodigestive_tract(4)|urinary_tract(4)	159		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TACTGGGTTTGGTTTCTTCTT	0.522																																																0													171	175	174					10																	129902143		2203	4300	6503	SO:0001589	frameshift_variant	4288			X65550	CCDS7659.1, CCDS53588.1	10q26.2	2014-06-12	2013-10-10		ENSG00000148773	ENSG00000148773			7107	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 105"	176741	"antigen identified by monoclonal antibody Ki-67"			2571566, 16206250	Standard	NM_002417		Approved	MIB-, PPP1R105	uc001lke.3	P46013	OTTHUMG00000019255	ENST00000368654.3:c.7961delC	10.37:g.129902143delG	ENSP00000357643:p.Pro2654fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VWH2	Frame_Shift_Del	DEL	ENST00000368654.3	37	CCDS7659.1																																																																																				0.522	MKI67-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000050999.1	NM_002417		-	129902143	G	-	129902143	7	5	691	1	0	1	0	1	0	0	0	0	9605	1348	47	0	1821	0	MKI67	10	129902143	Frame_Shift_Del	DEL	G	TCGA-MH-A55Z-01A-11D-A26P-10	13801687	129902143	5632604	80	44971										
OR51G2	81282	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	4936503	4936503	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	atagtgcaaggggtggcagaTagccacaaagcggtcaaagg	15	7	1	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr11:4936503T>C	ENST00000322013.3	-	1	419	c.391A>G	c.(391-393)Atc>Gtc	p.I131V	MMP26_ENST00000477339.1_Intron|MMP26_ENST00000380390.1_Intron	NM_001005238.1	NP_001005238.1	Q8NGK0	O51G2_HUMAN	olfactory receptor, family 51, subfamily G, member 2	131						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			autonomic_ganglia(1)|endometrium(1)|large_intestine(9)|lung(12)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29		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)		GGGTGGCAGATAGCCACAAAG	0.493																																																0													81	80	80					11																	4936503		2201	4298	6499	SO:0001583	missense	81282			AB065794	CCDS31365.1	11p15.4	2012-08-09			ENSG00000176893	ENSG00000176893		"GPCR / Class A : Olfactory receptors"	15198	protein-coding gene	gene with protein product							Standard	NM_001005238		Approved		uc001lzr.1	Q8NGK0	OTTHUMG00000066501	ENST00000322013.3:c.391A>G	11.37:g.4936503T>C	ENSP00000322593:p.Ile131Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFH7	Missense_Mutation	SNP	ENST00000322013.3	37	CCDS31365.1	.	.	.	.	.	.	.	.	.	.	T	16.52	3.145321	0.57044	.	.	ENSG00000176893	ENST00000322013	T	0.50813	0.73	5.58	5.58	0.84498	GPCR, rhodopsin-like superfamily (1);	0.000000	0.51477	D	0.000099	T	0.55097	0.1899	M	0.86573	2.825	0.44719	D	0.997717	B	0.29301	0.241	B	0.25987	0.065	T	0.60835	-0.7184	10	0.66056	D	0.02	.	14.7227	0.69320	0.0:0.0:0.0:1.0	.	131	Q8NGK0	O51G2_HUMAN	V	131	ENSP00000322593:I131V	ENSP00000322593:I131V	I	-	1	0	OR51G2	4893079	1.000000	0.71417	0.999000	0.59377	0.952000	0.60782	7.646000	0.83445	2.343000	0.79666	0.533000	0.62120	ATC		0.493	OR51G2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000142174.1	NM_001005238		C	4936503	T	C	4936503	3	2	691	1	0	0	0	0	1	0	0	0	11106	1406	49	3	557	3	OR51G2	11	4936503	Missense_Mutation	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10		4936503	130070013	81	44972										
BDNF	627	hgsc.bcm.edu;bcgsc.ca	37	chr11	27680049	27680056	+	Frame_Shift_Del	DEL	CATGGGGG	CATGGGGG	-													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	cctcggatgtttgcttctttCatgggggcagccttcatgca							TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	CATGGGGG	CATGGGGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr11:27680049_27680056delCATGGGGG	ENST00000525528.1	-	1	1149_1156	c.56_63delCCCCCATG	c.(55-63)gcccccatgfs	p.APM19fs	BDNF_ENST00000395980.2_Frame_Shift_Del_p.APM19fs|BDNF_ENST00000395986.2_Frame_Shift_Del_p.APM34fs|BDNF-AS_ENST00000500662.2_RNA|BDNF_ENST00000356660.4_Frame_Shift_Del_p.APM19fs|BDNF_ENST00000438929.1_Frame_Shift_Del_p.APM101fs|BDNF-AS_ENST00000532965.1_RNA|BDNF-AS_ENST00000499008.3_RNA|BDNF_ENST00000533131.1_Frame_Shift_Del_p.APM19fs|BDNF_ENST00000439476.2_Frame_Shift_Del_p.APM19fs|BDNF-AS_ENST00000501176.2_RNA|BDNF_ENST00000395978.3_Frame_Shift_Del_p.APM19fs|BDNF_ENST00000395981.3_Frame_Shift_Del_p.APM19fs|BDNF-AS_ENST00000502161.2_RNA|BDNF_ENST00000395983.3_Frame_Shift_Del_p.APM19fs|BDNF_ENST00000533246.1_Frame_Shift_Del_p.APM19fs|BDNF_ENST00000584049.1_5'UTR|BDNF_ENST00000418212.1_Frame_Shift_Del_p.APM19fs|BDNF_ENST00000530861.1_Frame_Shift_Del_p.APM19fs|BDNF-AS_ENST00000499568.2_RNA|BDNF_ENST00000532997.1_Frame_Shift_Del_p.APM19fs|BDNF_ENST00000525950.1_Frame_Shift_Del_p.APM19fs|BDNF_ENST00000314915.6_Frame_Shift_Del_p.APM27fs|BDNF_ENST00000420794.1_Frame_Shift_Del_p.APM19fs|BDNF-AS_ENST00000530313.1_RNA|BDNF-AS_ENST00000530686.1_RNA	NM_170735.5	NP_733931.1	P23560	BDNF_HUMAN	brain-derived neurotrophic factor	19					axon extension (GO:0048675)|axon guidance (GO:0007411)|axon target recognition (GO:0007412)|behavioral fear response (GO:0001662)|chronic inflammatory response (GO:0002544)|circadian rhythm (GO:0007623)|dendrite development (GO:0016358)|dendrite extension (GO:0097484)|feeding behavior (GO:0007631)|gamma-aminobutyric acid signaling pathway (GO:0007214)|glutamate secretion (GO:0014047)|inner ear development (GO:0048839)|learning or memory (GO:0007611)|mechanoreceptor differentiation (GO:0042490)|mitochondrial electron transport, NADH to ubiquinone (GO:0006120)|negative regulation of neuroblast proliferation (GO:0007406)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of striated muscle tissue development (GO:0045843)|negative regulation of synaptic transmission, GABAergic (GO:0032229)|nerve development (GO:0021675)|nervous system development (GO:0007399)|neuron recognition (GO:0008038)|positive regulation of long-term neuronal synaptic plasticity (GO:0048170)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of synapse assembly (GO:0051965)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of retinal cell programmed cell death (GO:0046668)|regulation of short-term neuronal synaptic plasticity (GO:0048172)|response to anesthetic (GO:0072347)|response to fluoxetine (GO:0014076)|response to hormone (GO:0009725)|response to hyperoxia (GO:0055093)|response to hypoxia (GO:0001666)|response to vitamin A (GO:0033189)|taste bud development (GO:0061193)|ureteric bud development (GO:0001657)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|perinuclear region of cytoplasm (GO:0048471)|synaptic vesicle (GO:0008021)	growth factor activity (GO:0008083)			breast(1)|large_intestine(3)|lung(2)	6						TTGCTTCTTTCATGGGGGCAGCCTTCAT	0.514																																																0																																										SO:0001589	frameshift_variant	627			AB038670	CCDS7865.1, CCDS7866.1, CCDS44558.1, CCDS41628.1	11p14.1	2014-01-30			ENSG00000176697	ENSG00000176697		"Endogenous ligands"	1033	protein-coding gene	gene with protein product	"neurotrophin"	113505				2236018, 1889806, 17942328, 17493809	Standard	NM_170731		Approved		uc009yje.3	P23560	OTTHUMG00000178797	ENST00000525528.1:c.56_63delCCCCCATG	11.37:g.27680049_27680056delCATGGGGG	ENSP00000437138:p.Ala19fs	Somatic		WXS	Illumina HiSeq	Phase_I	A7LA85|A7LA92|D3DQZ2|Q598Q1|Q6DN19|Q6YNR2|Q6YNR3|Q9BYY7|Q9UC24	Frame_Shift_Del	DEL	ENST00000525528.1	37	CCDS7866.1																																																																																				0.514	BDNF-016	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388135.1	NM_170735		-	27680056	CATGGGGG	-	27680049	7	5	691	1	0	1	0	1	0	0	0	0	1394	826	29	0	684	0	BDNF	11	27680049	Frame_Shift_Del	DEL	CATGGGGG	TCGA-MH-A55Z-01A-11D-A26P-10	22743546	27680049	107326467	82	44973										
SYT13	57586	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	45277229	45277229	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	acccctaccattctgagggaGgatgaacagctcctctgtga	10	12	2	3			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr11:45277229G>C	ENST00000020926.3	-	2	508	c.397C>G	c.(397-399)Ctc>Gtc	p.L133V	CTD-2560E9.5_ENST00000534342.1_RNA|CTD-2560E9.5_ENST00000531663.1_RNA	NM_001247987.1|NM_020826.2	NP_001234916.1|NP_065877.1	Q7L8C5	SYT13_HUMAN	synaptotagmin XIII	133					vesicle-mediated transport (GO:0016192)	integral component of plasma membrane (GO:0005887)|transport vesicle (GO:0030133)				breast(1)|large_intestine(3)|lung(16)|ovary(1)|skin(2)	23						TTCTGAGGGAGGATGAACAGC	0.592																																																0													53	47	49					11																	45277229		2203	4299	6502	SO:0001583	missense	57586			AB037848	CCDS31470.1	11p12-p11	2013-01-21			ENSG00000019505	ENSG00000019505		"Synaptotagmins"	14962	protein-coding gene	gene with protein product		607716				11171101	Standard	NM_020826		Approved	KIAA1427	uc001myq.2	Q7L8C5	OTTHUMG00000166504	ENST00000020926.3:c.397C>G	11.37:g.45277229G>C	ENSP00000020926:p.Leu133Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4P4|D3DQP1|Q9BQS3|Q9H041|Q9P2C0	Missense_Mutation	SNP	ENST00000020926.3	37	CCDS31470.1	.	.	.	.	.	.	.	.	.	.	G	15.36	2.810428	0.50421	.	.	ENSG00000019505	ENST00000020926	T	0.08370	3.1	5.39	5.39	0.77823	.	0.077197	0.52532	D	0.000067	T	0.06917	0.0176	N	0.24115	0.695	0.33493	D	0.588914	B	0.23650	0.089	B	0.21917	0.037	T	0.17501	-1.0367	10	0.30078	T	0.28	.	13.5218	0.61572	0.0:0.0:0.8444:0.1556	.	133	Q7L8C5	SYT13_HUMAN	V	133	ENSP00000020926:L133V	ENSP00000020926:L133V	L	-	1	0	SYT13	45233805	1.000000	0.71417	0.997000	0.53966	0.983000	0.72400	3.496000	0.53288	2.679000	0.91253	0.561000	0.74099	CTC		0.592	SYT13-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390110.1	NM_020826		C	45277229	G	C	45277229	3	2	691	1	0	0	0	0	1	0	0	0	15481	1000	35	4	903	4	SYT13	11	45277229	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	17597180	45277229	89729287	83	44974										
LTBP3	4054	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	65319017	65319017	+	Splice_Site	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ccatctgggttctcatactcActgagtccgtggtcacccct	8	15	4	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr11:65319017A>T	ENST00000301873.5	-	9	1817		c.e9+1		LTBP3_ENST00000322147.4_Splice_Site|LTBP3_ENST00000532932.1_5'Flank|LTBP3_ENST00000536982.1_Splice_Site	NM_001130144.2	NP_001123616.1	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding protein 3						bone morphogenesis (GO:0060349)|bone remodeling (GO:0046849)|extracellular matrix organization (GO:0030198)|lung saccule development (GO:0060430)|negative regulation of bone mineralization (GO:0030502)|negative regulation of chondrocyte differentiation (GO:0032331)|positive regulation of bone resorption (GO:0045780)|positive regulation of mesenchymal stem cell differentiation (GO:2000741)|positive regulation of mesenchymal stem cell proliferation (GO:1902462)|transforming growth factor beta activation (GO:0036363)|transforming growth factor beta receptor signaling pathway (GO:0007179)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	calcium ion binding (GO:0005509)|transforming growth factor beta binding (GO:0050431)			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(2)|lung(9)|prostate(2)|upper_aerodigestive_tract(3)	23						TCTCATACTCACTGAGTCCGT	0.592																																																0													68	58	62					11																	65319017		2201	4297	6498	SO:0001630	splice_region_variant	4054			AF135960	CCDS8103.1, CCDS44647.1	11q12	2011-10-20			ENSG00000168056	ENSG00000168056		"Latent transforming growth factor, beta binding proteins"	6716	protein-coding gene	gene with protein product		602090		LTBP2		7719025	Standard	NM_001164266		Approved		uc001oej.3	Q9NS15	OTTHUMG00000166575	ENST00000301873.5:c.1548+1T>A	11.37:g.65319017A>T		Somatic		WXS	Illumina HiSeq	Phase_I	O15107|Q96HB9|Q9H7K2|Q9UFN4	Splice_Site	SNP	ENST00000301873.5	37	CCDS44647.1	.	.	.	.	.	.	.	.	.	.	A	20.7	4.029156	0.75504	.	.	ENSG00000168056	ENST00000322147;ENST00000301873;ENST00000526927;ENST00000536982;ENST00000530866	.	.	.	4.96	4.96	0.65561	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	11.0038	0.47622	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	LTBP3	65075593	1.000000	0.71417	1.000000	0.80357	0.967000	0.64934	4.837000	0.62796	1.861000	0.53984	0.329000	0.21502	.		0.592	LTBP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390538.1	NM_021070	Intron	T	65319017	A	T	65319017	5	4	691	1	0	0	0	0	0	0	1	0	9082	173	6	5	2441	5	LTBP3	11	65319017	Splice_Site	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	20041788	65319017	69687499	84	44975										
SIPA1	6494	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	65412463	65412463	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ggtgggcatcctgtactgccGggcgggccagggctcggagg	20	11	0	0	rs146916012		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr11:65412463G>A	ENST00000394224.3	+	5	1318	c.1022G>A	c.(1021-1023)cGg>cAg	p.R341Q	SIPA1_ENST00000394227.3_Missense_Mutation_p.R341Q|SIPA1_ENST00000534313.1_Missense_Mutation_p.R341Q|SIPA1_ENST00000527525.1_Missense_Mutation_p.R341Q	NM_153253.29	NP_694985.29	Q96FS4	SIPA1_HUMAN	signal-induced proliferation-associated 1	341	Rap-GAP. {ECO:0000255|PROSITE- ProRule:PRU00165}.				cell proliferation (GO:0008283)|cellular response to water deprivation (GO:0042631)|cytoskeleton organization (GO:0007010)|intracellular signal transduction (GO:0035556)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell cycle (GO:0045786)|negative regulation of cell growth (GO:0030308)|positive regulation of GTPase activity (GO:0043547)|positive regulation of Rap GTPase activity (GO:0032854)|signal transduction (GO:0007165)	cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)|protein complex (GO:0043234)|transport vesicle (GO:0030133)	GTPase activator activity (GO:0005096)|Rap GTPase activator activity (GO:0046582)			cervix(1)|endometrium(2)|large_intestine(2)|lung(3)|prostate(1)|urinary_tract(1)	10						CTGTACTGCCGGGCGGGCCAG	0.622																																																0								G	GLN/ARG,GLN/ARG	0,4402		0,0,2201	86	88	87		1022,1022	4.8	1	11	dbSNP_134	87	2,8592	2.2+/-6.3	0,2,4295	yes	missense,missense	SIPA1	NM_006747.3,NM_153253.29	43,43	0,2,6496	AA,AG,GG		0.0233,0.0,0.0154	probably-damaging,probably-damaging	341/1043,341/1043	65412463	2,12994	2201	4297	6498	SO:0001583	missense	6494			AH006363, BC010492, BM677738	CCDS8108.1	11q13.3	2008-09-12	2008-09-12		ENSG00000213445	ENSG00000213445			10885	protein-coding gene	gene with protein product		602180				9027487	Standard	NM_006747		Approved	SPA1	uc001ofb.2	Q96FS4	OTTHUMG00000166541	ENST00000394224.3:c.1022G>A	11.37:g.65412463G>A	ENSP00000377771:p.Arg341Gln	Somatic		WXS	Illumina HiSeq	Phase_I	O14518|O60484|O60618|Q2YD83	Missense_Mutation	SNP	ENST00000394224.3	37	CCDS8108.1	.	.	.	.	.	.	.	.	.	.	G	27.9	4.872939	0.91664	0.0	2.33E-4	ENSG00000213445	ENST00000534313;ENST00000527525;ENST00000394224;ENST00000394227	D;D;D;D	0.93859	-3.3;-3.3;-3.3;-3.3	4.78	4.78	0.61160	Rap/ran-GAP (1);	0.123367	0.30667	U	0.009135	D	0.94499	0.8229	L	0.41027	1.25	0.47994	D	0.999563	D;D	0.89917	1.0;1.0	D;D	0.69824	0.966;0.926	D	0.94259	0.7500	10	0.45353	T	0.12	-21.0415	15.6687	0.77255	0.0:0.0:1.0:0.0	.	341;341	F6RY50;Q96FS4	.;SIPA1_HUMAN	Q	341	ENSP00000436269:R341Q;ENSP00000433686:R341Q;ENSP00000377771:R341Q;ENSP00000377774:R341Q	ENSP00000377771:R341Q	R	+	2	0	SIPA1	65169039	0.996000	0.38824	0.989000	0.46669	0.990000	0.78478	1.561000	0.36342	2.368000	0.80403	0.561000	0.74099	CGG		0.622	SIPA1-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390356.1	NM_006747		A	65412463	G	A	65412463	3	1	691	1	0	0	0	0	1	0	0	0	14341	1116	39	1	1036	1	SIPA1	11	65412463	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	93446	65412463	69594053	85	44976										
EXPH5	23086	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	108380539	108380539	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	aagtgacctctttacattttCtaagaaagctaactgttgtt	6	7	2	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr11:108380539C>T	ENST00000265843.4	-	6	5805	c.5695G>A	c.(5695-5697)Gaa>Aaa	p.E1899K	EXPH5_ENST00000443411.1_Missense_Mutation_p.E1711K|EXPH5_ENST00000525344.1_Missense_Mutation_p.E1892K|EXPH5_ENST00000428840.1_Missense_Mutation_p.E1823K	NM_015065.2	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5	1899					intracellular protein transport (GO:0006886)|keratinocyte development (GO:0003334)|multivesicular body sorting pathway (GO:0071985)|positive regulation of exocytosis (GO:0045921)|positive regulation of protein secretion (GO:0050714)	endosome (GO:0005768)	Rab GTPase binding (GO:0017137)			breast(3)|central_nervous_system(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(13)|liver(1)|lung(34)|ovary(3)|pancreas(2)|prostate(2)|skin(11)|stomach(3)|upper_aerodigestive_tract(1)	91		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)		TTTACATTTTCTAAGAAAGCT	0.413																																																0													74	78	77					11																	108380539		2201	4298	6499	SO:0001583	missense	23086				CCDS8341.1	11q22.3	2008-02-05			ENSG00000110723	ENSG00000110723			30578	protein-coding gene	gene with protein product	"synaptotagmin-like homologue lacking C2 domains b"	612878				9734811, 11773082	Standard	NM_015065		Approved	SLAC2-B	uc001pkk.3	Q8NEV8	OTTHUMG00000166536	ENST00000265843.4:c.5695G>A	11.37:g.108380539C>T	ENSP00000265843:p.Glu1899Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q2KHM1|Q9Y4D6	Missense_Mutation	SNP	ENST00000265843.4	37	CCDS8341.1	.	.	.	.	.	.	.	.	.	.	C	28.6	4.933160	0.92458	.	.	ENSG00000110723	ENST00000265843;ENST00000428840;ENST00000443411;ENST00000525344;ENST00000439956	T;T;T;T	0.56103	0.48;0.48;0.48;0.48	6.17	6.17	0.99709	.	0.000000	0.64402	D	0.000003	T	0.74535	0.3729	M	0.71581	2.175	0.44852	D	0.99786	D	0.89917	1.0	D	0.85130	0.997	T	0.74200	-0.3742	10	0.87932	D	0	-20.3741	20.8794	0.99867	0.0:1.0:0.0:0.0	.	1899	Q8NEV8	EXPH5_HUMAN	K	1899;1823;1711;1892;729	ENSP00000265843:E1899K;ENSP00000391966:E1823K;ENSP00000411390:E1711K;ENSP00000432546:E1892K	ENSP00000265843:E1899K	E	-	1	0	EXPH5	107885749	1.000000	0.71417	1.000000	0.80357	0.761000	0.43186	3.765000	0.55272	2.941000	0.99782	0.655000	0.94253	GAA		0.413	EXPH5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390279.1	NM_015065		T	108380539	C	T	108380539	3	4	691	1	0	0	0	0	1	0	0	0	5324	922	32	2	278	2	EXPH5	11	108380539	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	42968076	108380539	26625977	86	44977										
CHEK1	1111	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	125497532	125497532	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gctgtgaatagagtaactgaAgaagcagtcgcagtgaagat	13	5	0	6			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr11:125497532A>C	ENST00000534070.1	+	3	351	c.96A>C	c.(94-96)gaA>gaC	p.E32D	CHEK1_ENST00000438015.1_Missense_Mutation_p.E32D|CHEK1_ENST00000532449.1_Intron|CHEK1_ENST00000278916.3_Missense_Mutation_p.E32D|CHEK1_ENST00000428830.2_Missense_Mutation_p.E32D|CHEK1_ENST00000524737.1_Missense_Mutation_p.E32D|CHEK1_ENST00000544373.1_Missense_Mutation_p.E32D|CHEK1_ENST00000427383.2_Intron	NM_001274.5	NP_001265.2	O14757	CHK1_HUMAN	checkpoint kinase 1	32	Interaction with CLSPN. {ECO:0000250}.|Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				cellular response to caffeine (GO:0071313)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to mechanical stimulus (GO:0071260)|chromatin-mediated maintenance of transcription (GO:0048096)|DNA damage checkpoint (GO:0000077)|DNA damage induced protein phosphorylation (GO:0006975)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|G2 DNA damage checkpoint (GO:0031572)|G2/M transition of mitotic cell cycle (GO:0000086)|negative regulation of mitosis (GO:0045839)|peptidyl-threonine phosphorylation (GO:0018107)|regulation of cell proliferation (GO:0042127)|regulation of double-strand break repair via homologous recombination (GO:0010569)|regulation of histone H3-K9 acetylation (GO:2000615)|regulation of mitotic centrosome separation (GO:0046602)|regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage (GO:0010767)|replicative senescence (GO:0090399)	centrosome (GO:0005813)|chromatin (GO:0000785)|condensed nuclear chromosome (GO:0000794)|cytosol (GO:0005829)|extracellular space (GO:0005615)|intracellular membrane-bounded organelle (GO:0043231)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|replication fork (GO:0005657)	ATP binding (GO:0005524)|histone kinase activity (H3-T11 specific) (GO:0035402)|protein serine/threonine kinase activity (GO:0004674)			central_nervous_system(3)|endometrium(3)|large_intestine(2)|lung(16)|skin(1)|upper_aerodigestive_tract(1)	26	all_hematologic(175;0.228)	Breast(109;0.0021)|Lung NSC(97;0.0126)|all_lung(97;0.0132)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0748)		GAGTAACTGAAGAAGCAGTCG	0.328								Other conserved DNA damage response genes																																								0													50	54	52					11																	125497532		2201	4299	6500	SO:0001583	missense	1111			AF016582, BC017575	CCDS8459.1, CCDS58191.1	11q24.2	2011-11-11	2011-11-11		ENSG00000149554	ENSG00000149554			1925	protein-coding gene	gene with protein product		603078	"CHK1 (checkpoint, S.pombe) homolog", "CHK1 checkpoint homolog (S. pombe)"			9278511, 9382850	Standard	NM_001114121		Approved	CHK1	uc001qcg.4	O14757	OTTHUMG00000165853	ENST00000534070.1:c.96A>C	11.37:g.125497532A>C	ENSP00000435371:p.Glu32Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K934|B4DDD0|B4DSK3|B5BTY6|F5H7S4|H2BI51	Missense_Mutation	SNP	ENST00000534070.1	37	CCDS8459.1	.	.	.	.	.	.	.	.	.	.	A	10.22	1.289544	0.23478	.	.	ENSG00000149554	ENST00000438015;ENST00000525396;ENST00000428830;ENST00000544373;ENST00000527013;ENST00000526937;ENST00000534685;ENST00000533778;ENST00000534070;ENST00000524737;ENST00000278916	T;T;T;T;T;T;T;T;T;T;T	0.41400	1.9;1.9;1.9;1.9;1.9;1.9;1.9;1.0;1.9;1.9;1.9	5.21	4.09	0.47781	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.23171	0.0560	N	0.05383	-0.06	0.53688	D	0.999972	B;B;B	0.19200	0.027;0.034;0.034	B;B;B	0.25405	0.036;0.06;0.06	T	0.04537	-1.0944	10	0.37606	T	0.19	.	8.9327	0.35680	0.8441:0.0:0.1559:0.0	.	32;32;32	F5H7S4;B5BTY6;O14757	.;.;CHK1_HUMAN	D	32	ENSP00000388648:E32D;ENSP00000434141:E32D;ENSP00000412504:E32D;ENSP00000442317:E32D;ENSP00000431525:E32D;ENSP00000431815:E32D;ENSP00000432470:E32D;ENSP00000433103:E32D;ENSP00000435371:E32D;ENSP00000432890:E32D;ENSP00000278916:E32D	ENSP00000278916:E32D	E	+	3	2	CHEK1	125002742	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	0.843000	0.27640	0.957000	0.37930	0.477000	0.44152	GAA		0.328	CHEK1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386714.1	NM_001274		C	125497532	A	C	125497532	3	2	691	1	0	0	0	0	1	0	0	0	3336	69	3	5	102	5	CHEK1	11	125497532	Missense_Mutation	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	17116993	125497532	9508984	87	44978										
NFRKB	4798	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	129747271	129747271	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gtgctgggacgcaccacataGtcagttcttctggaatataa	10	9	3	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr11:129747271G>A	ENST00000446488.3	-	15	1624	c.1521C>T	c.(1519-1521)gaC>gaT	p.D507D	NFRKB_ENST00000524746.1_Silent_p.D507D|NFRKB_ENST00000524794.1_Silent_p.D532D|NFRKB_ENST00000304521.5_Silent_p.D507D	NM_001143835.1	NP_001137307.1	Q6P4R8	NFRKB_HUMAN	nuclear factor related to kappaB binding protein	507					DNA recombination (GO:0006310)|DNA repair (GO:0006281)|inflammatory response (GO:0006954)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	Ino80 complex (GO:0031011)|nucleus (GO:0005634)	DNA binding (GO:0003677)|protease binding (GO:0002020)			breast(1)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(2)|lung(13)|ovary(4)|skin(3)|urinary_tract(1)	32	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0167)|Lung(977;0.171)|LUSC - Lung squamous cell carcinoma(976;0.184)		GCACCACATAGTCAGTTCTTC	0.507																																																0													161	149	153					11																	129747271		2201	4297	6498	SO:0001819	synonymous_variant	4798				CCDS8483.1, CCDS44770.1	11q24-q25	2011-07-06			ENSG00000170322	ENSG00000170322		"INO80 complex subunits"	7802	protein-coding gene	gene with protein product	"nuclear factor related to kappa B binding protein", "DNA-binding protein R kappa B", "INO80 complex subunit G"	164013				1427843	Standard	NM_006165		Approved	DKFZp547B2013, INO80G	uc001qfg.3	Q6P4R8	OTTHUMG00000165761	ENST00000446488.3:c.1521C>T	11.37:g.129747271G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q12869|Q15312|Q9H048	Silent	SNP	ENST00000446488.3	37	CCDS44770.1																																																																																				0.507	NFRKB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386063.2	NM_006165		A	129747271	G	A	129747271	2	1	691	1	0	0	0	0	0	0	0	1	10391	1020	36	2		2	NFRKB	11	129747271	Silent	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	4249739	129747271	5259245	88	44979										
C12orf57	113246	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	7053729	7053729	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	taacgcctgcaacgacatggGtaagatgctgcaattcgtgc	11	10	0	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr12:7053729G>T	ENST00000229281.5	+	2	242	c.143G>T	c.(142-144)gGt>gTt	p.G48V	C12orf57_ENST00000544681.1_Missense_Mutation_p.G48V|RNU7-1_ENST00000458811.1_RNA|C12orf57_ENST00000542222.1_3'UTR|U47924.31_ENST00000607421.1_RNA|PTPN6_ENST00000447931.2_5'Flank|C12orf57_ENST00000537087.1_Splice_Site|PTPN6_ENST00000399448.1_5'Flank|C12orf57_ENST00000540506.2_Missense_Mutation_p.G13V	NM_138425.2	NP_612434.1	Q99622	C10_HUMAN	chromosome 12 open reading frame 57	48						cytoplasm (GO:0005737)				kidney(1)|large_intestine(1)	2						AACGACATGGGTAAGATGCTG	0.627											OREG0021642	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													90	66	74					12																	7053729		2203	4300	6503	SO:0001583	missense	113246			U47924	CCDS8571.1	12p13.31	2012-05-30			ENSG00000111678	ENSG00000111678			29521	protein-coding gene	gene with protein product		615140				9445485	Standard	NM_138425		Approved	GRCC10, C10	uc009zfj.2	Q99622	OTTHUMG00000169017	ENST00000229281.5:c.143G>T	12.37:g.7053729G>T	ENSP00000229281:p.Gly48Val	Somatic	638	WXS	Illumina HiSeq	Phase_I	B2R4Q6	Missense_Mutation	SNP	ENST00000229281.5	37	CCDS8571.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	24.6|24.6	4.552280|4.552280	0.86127|0.86127	.|.	.|.	ENSG00000111678|ENSG00000111678	ENST00000537087|ENST00000545581;ENST00000229281	.|T;T	.|0.75938	.|-0.98;-0.98	3.74|3.74	3.74|3.74	0.42951|0.42951	.|.	.|0.000000	.|0.85682	.|D	.|0.000000	.|T	.|0.74412	.|0.3713	L|L	0.31664|0.31664	0.95|0.95	0.80722|0.80722	D|D	1|1	.|D;B	.|0.76494	.|0.999;0.106	.|D;B	.|0.74023	.|0.982;0.013	.|T	.|0.67673	.|-0.5610	.|10	.|0.06625	.|T	.|0.88	.|-25.1478	14.5671|14.5671	0.68185|0.68185	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|48;48	.|F5GXW5;Q99622	.|.;C10_HUMAN	.|V	-1|48	.|ENSP00000440602:G48V;ENSP00000229281:G48V	.|ENSP00000229281:G48V	.|G	+|+	.|2	.|0	C12orf57|C12orf57	6923990|6923990	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.989000|0.989000	0.77384|0.77384	9.007000|9.007000	0.93597|0.93597	2.373000|2.373000	0.80994|0.80994	0.561000|0.561000	0.74099|0.74099	.|GGT		0.627	C12orf57-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401959.1	NM_138425		T	7053729	G	T	7053729	3	4	691	1	0	0	0	0	1	0	0	0	1703	1261	44	4	149	4	C12orf57	12	7053729	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10		7053729	126798166	89	44980										
TAS2R43	259289	hgsc.bcm.edu	37	chr12	11244149	11244149	+	Frame_Shift_Del	DEL	G	G	-													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	aggagatcacagtttgcaaaGcttttatgtggaccttggtg					rs73064964	byFrequency	TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr12:11244149delG	ENST00000531678.1	-	1	763	c.680delC	c.(679-681)gctfs	p.A227fs	PRR4_ENST00000536668.1_Intron|TAS2R14_ENST00000381852.4_Intron	NM_176884.2	NP_795365.2	P59537	T2R43_HUMAN	taste receptor, type 2, member 43	227					detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580)|G-protein coupled receptor signaling pathway (GO:0007186)	integral component of membrane (GO:0016021)|motile cilium (GO:0031514)|plasma membrane (GO:0005886)	bitter taste receptor activity (GO:0033038)|taste receptor activity (GO:0008527)			endometrium(1)|ovary(1)|prostate(2)|urinary_tract(1)	5			OV - Ovarian serous cystadenocarcinoma(49;0.0344)	BRCA - Breast invasive adenocarcinoma(232;0.196)		AGTTTGCAAAGCTTTTATGTG	0.393																																																0													137	119	125					12																	11244149		2179	4249	6428	SO:0001589	frameshift_variant	259289			AF494237	CCDS53749.1	12p13.2	2012-08-22				ENSG00000255374		"Taste receptors / Type 2", "GPCR / Unclassified : Taste receptors"	18875	protein-coding gene	gene with protein product		612668				12379855	Standard	NM_176884		Approved	T2R52	uc001qzq.1	P59537		ENST00000531678.1:c.680delC	12.37:g.11244149delG	ENSP00000431719:p.Ala227fs	Somatic		WXS	Illumina HiSeq	Phase_I	P59546|Q645X4	Frame_Shift_Del	DEL	ENST00000531678.1	37	CCDS53749.1																																																																																				0.393	TAS2R43-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383561.1	NM_176884		-	11244149	G	-	11244149	7	5	691	1	0	1	0	1	0	0	0	0	15593	971	34	0	253	0	TAS2R43	12	11244149	Frame_Shift_Del	DEL	G	TCGA-MH-A55Z-01A-11D-A26P-10	4190420	11244149	122607746	90	44981										
PLEKHA5	54477	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr12	19500042	19500042	+	Intron	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gctccttgctctgttatagcAggggcccagttcatctgcct	10	13	3	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr12:19500042A>G	ENST00000299275.6	+	18	2406				PLEKHA5_ENST00000317589.4_Missense_Mutation_p.R839G|PLEKHA5_ENST00000429027.2_Missense_Mutation_p.R942G|PLEKHA5_ENST00000538714.1_Intron|PLEKHA5_ENST00000543806.1_Missense_Mutation_p.R758G|PLEKHA5_ENST00000359180.3_Intron|PLEKHA5_ENST00000539256.1_Intron|PLEKHA5_ENST00000424268.1_Missense_Mutation_p.R765G|PLEKHA5_ENST00000355397.3_Intron	NM_019012.5	NP_061885.2	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A member 5						reproductive system development (GO:0061458)	cytosol (GO:0005829)|membrane (GO:0016020)	1-phosphatidylinositol binding (GO:0005545)|phosphatidylinositol-3,5-bisphosphate binding (GO:0080025)|phosphatidylinositol-3-phosphate binding (GO:0032266)|phosphatidylinositol-4-phosphate binding (GO:0070273)|phosphatidylinositol-5-phosphate binding (GO:0010314)			autonomic_ganglia(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(6)|lung(14)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	35	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					CTGTTATAGCAGGGGCCCAGT	0.498																																					Pancreas(196;329 2193 11246 14234 19524)											0													91	80	83					12																	19500042		692	1591	2283	SO:0001627	intron_variant	54477			AF302150	CCDS8682.1, CCDS44840.1, CCDS44840.2, CCDS55809.1, CCDS58213.1, CCDS58214.1	12p12	2013-01-10			ENSG00000052126	ENSG00000052126		"Pleckstrin homology (PH) domain containing"	30036	protein-coding gene	gene with protein product		607770				11214970, 11001876	Standard	NM_001143821		Approved	PEPP2, KIAA1686, FLJ10667	uc031qgo.1	Q9HAU0	OTTHUMG00000167921	ENST00000299275.6:c.2400+1220A>G	12.37:g.19500042A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0JP03|B4DGS1|E9PHQ3|F5H0I0|Q6NSF8|Q86ST7|Q8N3K6|Q96DY9|Q9BVR4|Q9C0H7|Q9H924|Q9NVK8	Missense_Mutation	SNP	ENST00000299275.6	37	CCDS8682.1	.	.	.	.	.	.	.	.	.	.	A	17.44	3.391185	0.62066	.	.	ENSG00000052126	ENST00000317589;ENST00000542828;ENST00000429027;ENST00000424268;ENST00000543806;ENST00000536974	T;T;T;T;T	0.10005	2.92;2.92;2.92;2.92;2.92	5.66	4.53	0.55603	.	0.154367	0.42420	D	0.000712	T	0.11196	0.0273	.	.	.	0.80722	D	1	B;B;B;B;B	0.27625	0.08;0.183;0.115;0.115;0.115	B;B;B;B;B	0.33690	0.12;0.168;0.081;0.081;0.031	T	0.06534	-1.0821	9	0.72032	D	0.01	-15.471	7.1521	0.25616	0.7782:0.1481:0.0737:0.0	.	839;758;765;937;942	Q9HAU0-4;F5H0I0;E7EME8;B4DHK5;E9PHQ3	.;.;.;.;.	G	839;938;942;765;758;731	ENSP00000325155:R839G;ENSP00000404296:R942G;ENSP00000400411:R765G;ENSP00000439837:R758G;ENSP00000440371:R731G	ENSP00000325155:R839G	R	+	1	2	PLEKHA5	19391309	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	4.764000	0.62264	2.137000	0.66172	0.528000	0.53228	AGG		0.498	PLEKHA5-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000397013.1	NM_019012		G	19500042	A	G	19500042	1	3	691	0	1	0	0	0	0	0	0	0	12066	179	7	3		3	PLEKHA5	12	19500042	Intron	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	8255893	19500042	114351853	91	44982										
KIF21A	55605	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	39709737	39709737	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ggcaggaaagaaagtacctgTgtacctccgagagagaggag	15	7	0	3			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr12:39709737T>C	ENST00000361418.5	-	30	3959	c.3944A>G	c.(3943-3945)cAc>cGc	p.H1315R	KIF21A_ENST00000395670.3_Missense_Mutation_p.H1315R|KIF21A_ENST00000361961.3_Missense_Mutation_p.H1302R|KIF21A_ENST00000541463.2_Intron|KIF21A_ENST00000544797.2_Intron|KIF21A_ENST00000547745.1_Intron			Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	1315					ATP catabolic process (GO:0006200)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(1)|breast(1)|central_nervous_system(1)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(14)|lung(41)|ovary(5)|pancreas(1)|prostate(1)|skin(4)|stomach(1)|urinary_tract(2)	86		Lung NSC(34;0.179)|all_lung(34;0.213)				AAAGTACCTGTGTACCTCCGA	0.393																																																0													129	130	130					12																	39709737		2203	4300	6503	SO:0001583	missense	55605			AK000059	CCDS31773.1, CCDS53774.1, CCDS53775.1, CCDS53776.1	12q12	2013-01-10						"Kinesins", "WD repeat domain containing"	19349	protein-coding gene	gene with protein product		608283	"fibrosis of the extraocular muscles, congenital, 1"	FEOM1		10225949	Standard	NM_017641		Approved	FLJ20052	uc001rly.3	Q7Z4S6	OTTHUMG00000169335	ENST00000361418.5:c.3944A>G	12.37:g.39709737T>C	ENSP00000354878:p.His1315Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8MX28|B0I1R9|B9EGE4|F5H0C3|F5H219|Q2UVF1|Q6UKL9|Q7Z668|Q86WZ5|Q8IVZ8|Q9C0F5|Q9NXU4|Q9Y590	Missense_Mutation	SNP	ENST00000361418.5	37	CCDS53776.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	9.099|9.099	1.003773|1.003773	0.19199|0.19199	.|.	.|.	ENSG00000139116|ENSG00000139116	ENST00000361961;ENST00000395670;ENST00000341813;ENST00000361418|ENST00000552961	T;T;T|.	0.69306|.	-0.39;-0.34;-0.31|.	5.29|5.29	5.29|5.29	0.74685|0.74685	.|.	0.000000|.	0.56097|.	D|.	0.000032|.	T|T	0.69895|0.69895	0.3162|0.3162	L|L	0.57536|0.57536	1.79|1.79	0.43841|0.43841	D|D	0.99642|0.99642	B;B;B|.	0.22983|.	0.025;0.078;0.05|.	B;B;B|.	0.23275|.	0.045;0.04;0.037|.	T|T	0.68777|0.68777	-0.5319|-0.5319	10|5	0.14656|.	T|.	0.56|.	.|.	15.2397|15.2397	0.73458|0.73458	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	1315;1302;1272|.	Q7Z4S6;Q7Z4S6-2;Q7Z4S6-3|.	KI21A_HUMAN;.;.|.	R|A	1302;1315;1272;1315|620	ENSP00000354851:H1302R;ENSP00000379029:H1315R;ENSP00000354878:H1315R|.	ENSP00000344501:H1272R|.	H|T	-|-	2|1	0|0	KIF21A|KIF21A	37996004|37996004	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.994000|0.994000	0.84299|0.84299	5.490000|5.490000	0.66881|0.66881	2.001000|2.001000	0.58596|0.58596	0.482000|0.482000	0.46254|0.46254	CAC|ACA		0.393	KIF21A-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403581.1	NM_017641		C	39709737	T	C	39709737	3	2	691	1	0	0	0	0	1	0	0	0	8295	1696	59	3	1116	3	KIF21A	12	39709737	Missense_Mutation	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	20209695	39709737	94142158	92	44983										
SPRYD4	283377	broad.mit.edu;bcgsc.ca	37	chr12	56862411	56862411	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gcacgttctttgcgcttgtgCcgctggggagccaaacgatt	13	11	1	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr12:56862411C>T	ENST00000338146.5	+	1	111	c.36C>T	c.(34-36)tgC>tgT	p.C12C	MIP_ENST00000555551.1_Intron	NM_207344.3	NP_997227	Q8WW59	SPRY4_HUMAN	SPRY domain containing 4	12	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.					mitochondrion (GO:0005739)|nucleus (GO:0005634)				kidney(1)|large_intestine(3)|lung(1)|ovary(1)|prostate(1)	7						TGCGCTTGTGCCGCTGGGGAG	0.567																																																0													136	125	129					12																	56862411		2203	4300	6503	SO:0001819	synonymous_variant	283377			AL832247	CCDS8920.1	12q13.3	2006-03-09				ENSG00000176422			27468	protein-coding gene	gene with protein product							Standard	NM_207344		Approved	DKFZp686N0877	uc001sli.4	Q8WW59		ENST00000338146.5:c.36C>T	12.37:g.56862411C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7A5	Silent	SNP	ENST00000338146.5	37	CCDS8920.1																																																																																				0.567	SPRYD4-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_207344		T	56862411	C	T	56862411	2	4	691	1	0	0	0	0	0	0	0	1	15122	747	26	2		2	SPRYD4	12	56862411	Silent	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	17152674	56862411	76989484	93	44984										
SLC5A8	160728	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	101588897	101588897	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gtgcagtagaatgtgcagacCacccccgttgccactaccgc	10	15	0	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr12:101588897C>T	ENST00000536262.2	-	4	1071	c.513G>A	c.(511-513)gtG>gtA	p.V171V		NM_145913.3	NP_666018.3			solute carrier family 5 (sodium/monocarboxylate cotransporter), member 8											breast(1)|endometrium(3)|kidney(1)|large_intestine(9)|lung(29)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	47						ATGTGCAGACCACCCCCGTTG	0.403																																					GBM(60;420 1056 13605 22380 47675)											0													99	86	90					12																	101588897		2203	4300	6503	SO:0001819	synonymous_variant	160728			AY081220	CCDS9080.1	12q23.1	2013-07-19	2013-07-19		ENSG00000256870	ENSG00000256870		"Solute carriers"	19119	protein-coding gene	gene with protein product		608044	"solute carrier family 5 (iodide transporter), member 8"			12107270, 12829793	Standard	NM_145913		Approved	AIT	uc001thz.4	Q8N695	OTTHUMG00000170499	ENST00000536262.2:c.513G>A	12.37:g.101588897C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000536262.2	37	CCDS9080.1																																																																																				0.403	SLC5A8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409401.1	NM_145913		T	101588897	C	T	101588897	2	4	691	1	0	0	0	0	0	0	0	1	14684	581	21	2		2	SLC5A8	12	101588897	Silent	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	44726486	101588897	32262998	94	44985										
BTBD11	121551	hgsc.bcm.edu	37	chr12	107713245	107713245	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ctgtcctggggcctggccgcGcactgtacggcggctgcgct	16	15	0	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr12:107713245G>A	ENST00000280758.5	+	1	1056	c.528G>A	c.(526-528)gcG>gcA	p.A176A	BTBD11_ENST00000490090.2_Silent_p.A176A|BTBD11_ENST00000420571.2_Silent_p.A176A	NM_001018072.1	NP_001018082.1	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11	176						integral component of membrane (GO:0016021)				NS(1)|breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(13)|lung(18)|ovary(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	53						GCCTGGCCGCGCACTGTACGG	0.697																																																0													11	10	10					12																	107713245		2095	4067	6162	SO:0001819	synonymous_variant	121551			AK091276	CCDS31893.1, CCDS41827.1	12q24.11	2013-10-02			ENSG00000151136	ENSG00000151136		"BTB/POZ domain containing", "Ankyrin repeat domain containing"	23844	protein-coding gene	gene with protein product							Standard	XM_005268645		Approved	FLJ33957, ABTB2B	uc001tmk.1	A6QL63	OTTHUMG00000150413	ENST00000280758.5:c.528G>A	12.37:g.107713245G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4FU41|B3KXG3|C9J019|C9JK80|E9PHS4|Q3ZTQ4|Q52M89|Q6ZV99|Q8N245	Silent	SNP	ENST00000280758.5	37	CCDS31893.1																																																																																				0.697	BTBD11-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318003.1	NM_152322		A	107713245	G	A	107713245	2	1	691	1	0	0	0	0	0	0	0	1	1541	1074	38	1		1	BTBD11	12	107713245	Silent	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	6124348	107713245	26138650	95	44986										
PHF11	51131	bcgsc.ca	37	chr13	50098263	50098272	+	Frame_Shift_Del	DEL	CAGGACTTCT	CAGGACTTCT	-													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tcttaagaaatgcaaggaagCaggacttcttaattacttac							TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	CAGGACTTCT	CAGGACTTCT	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr13:50098263_50098272delCAGGACTTCT	ENST00000378319.3	+	8	721_730	c.680_689delCAGGACTTCT	c.(679-690)gcaggacttcttfs	p.AGLL227fs	PHF11_ENST00000357596.3_Frame_Shift_Del_p.AGLL188fs|PHF11_ENST00000488958.1_Frame_Shift_Del_p.AGLL188fs	NM_001040443.1	NP_001035533.1	Q9UIL8	PHF11_HUMAN	PHD finger protein 11	227					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	zinc ion binding (GO:0008270)			large_intestine(3)|lung(1)	4		Lung NSC(96;2.1e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;2.38e-09)		TGCAAGGAAGCAGGACTTCTTAATTACTTA	0.329																																																0																																										SO:0001589	frameshift_variant	51131			AB011031	CCDS31975.1, CCDS41887.1	13q14.11	2014-05-20			ENSG00000136147	ENSG00000136147		"Zinc fingers, PHD-type"	17024	protein-coding gene	gene with protein product	"IgE responsiveness (atopic)"	607796				10508479, 15057823	Standard	XM_005266417		Approved	NY-REN-34, BCAP, IGER	uc001vdb.3	Q9UIL8	OTTHUMG00000016916	ENST00000378319.3:c.680_689delCAGGACTTCT	13.37:g.50098263_50098272delCAGGACTTCT	ENSP00000367570:p.Ala227fs	Somatic		WXS	Illumina HiSeq	Phase_1	Q5W0A4|Q5W0A6|Q9Y5A2	Frame_Shift_Del	DEL	ENST00000378319.3	37	CCDS31975.1																																																																																				0.329	PHF11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000044915.1	NM_016119		-	50098272	CAGGACTTCT	-	50098263	7	5	691	1	0	1	0	1	0	0	0	0	11829	710	25	0	710	0	PHF11	13	50098263	Frame_Shift_Del	DEL	CAGGACTTCT	TCGA-MH-A55Z-01A-11D-A26P-10		50098263	65071615	96	44987										
GPC6	10082	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	94197565	94197565	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tatacatgctgcaccacagaAatggaagacaagttaagcca	8	9	0	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr13:94197565A>T	ENST00000377047.4	+	2	825	c.210A>T	c.(208-210)gaA>gaT	p.E70D		NM_005708.3	NP_005699.1	Q9Y625	GPC6_HUMAN	glypican 6	70					carbohydrate metabolic process (GO:0005975)|cell migration (GO:0016477)|chondroitin sulfate metabolic process (GO:0030204)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|phototransduction, visible light (GO:0007603)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)	anchored component of membrane (GO:0031225)|Golgi lumen (GO:0005796)|integral component of plasma membrane (GO:0005887)|lysosomal lumen (GO:0043202)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|proteinaceous extracellular matrix (GO:0005578)				NS(1)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(13)|skin(2)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	38	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				GCACCACAGAAATGGAAGACA	0.408																																																0													154	142	146					13																	94197565		2203	4300	6503	SO:0001583	missense	10082			AF111178	CCDS9469.1	13q32	2008-02-05			ENSG00000183098	ENSG00000183098		"Proteoglycans / Cell Surface : Glypicans"	4454	protein-coding gene	gene with protein product	"glypican proteoglycan 6"	604404				10329016	Standard	NM_005708		Approved		uc001vlt.3	Q9Y625	OTTHUMG00000017205	ENST00000377047.4:c.210A>T	13.37:g.94197565A>T	ENSP00000366246:p.Glu70Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K279|Q96SG5|Q96SG8|Q9H1P4	Missense_Mutation	SNP	ENST00000377047.4	37	CCDS9469.1	.	.	.	.	.	.	.	.	.	.	A	14.65	2.598483	0.46318	.	.	ENSG00000183098	ENST00000377047	T	0.52983	0.64	5.0	3.82	0.43975	.	0.074354	0.51477	D	0.000081	T	0.43919	0.1269	L	0.51853	1.615	0.31140	N	0.706753	B;B	0.21452	0.031;0.056	B;B	0.30646	0.118;0.101	T	0.50110	-0.8866	10	0.46703	T	0.11	.	10.667	0.45736	0.9242:0.0:0.0758:0.0	.	70;70	B4E2M1;Q9Y625	.;GPC6_HUMAN	D	70	ENSP00000366246:E70D	ENSP00000366246:E70D	E	+	3	2	GPC6	92995566	0.997000	0.39634	1.000000	0.80357	0.999000	0.98932	0.672000	0.25187	0.867000	0.35654	0.524000	0.50904	GAA		0.408	GPC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045460.4	NM_005708		T	94197565	A	T	94197565	3	4	691	1	0	0	0	0	1	0	0	0	6609	11	1	5	216	5	GPC6	13	94197565	Missense_Mutation	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	44099302	94197565	20972313	97	44988										
LRFN5	145581	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	42360768	42360768	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	cacaaggtcaccaaggttagCaatgtttattcccaaactaa	6	10	1	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr14:42360768C>T	ENST00000298119.4	+	4	2890	c.1701C>T	c.(1699-1701)agC>agT	p.S567S	LRFN5_ENST00000554120.1_Intron|LRFN5_ENST00000554171.1_Intron	NM_152447.3	NP_689660.2	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III domain containing 5	567						integral component of membrane (GO:0016021)				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)		CCAAGGTTAGCAATGTTTATT	0.458										HNSCC(30;0.082)																																						0													103	99	100					14																	42360768		2203	4300	6503	SO:0001819	synonymous_variant	145581			AK055365	CCDS9678.1	14q21.1	2013-02-11	2004-02-02	2004-02-04	ENSG00000165379	ENSG00000165379		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	20360	protein-coding gene	gene with protein product	"fibronectin type III, immunoglobulin and leucine rich repeat domains 8"	612811	"chromosome 14 open reading frame 146"	C14orf146		16828986	Standard	NM_152447		Approved	FIGLER8, SALM5	uc001wvm.3	Q96NI6	OTTHUMG00000140261	ENST00000298119.4:c.1701C>T	14.37:g.42360768C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KU78|Q86XL2	Silent	SNP	ENST00000298119.4	37	CCDS9678.1																																																																																				0.458	LRFN5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276786.1	NM_152447		T	42360768	C	T	42360768	2	4	691	1	0	0	0	0	0	0	0	1	8948	709	25	2		2	LRFN5	14	42360768	Silent	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10		42360768	64988772	98	44989										
NEK9	91754	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	75558059	75558059	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gattaaaccttccattcctcGgtctgcttccattgttcctc	5	14	1	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr14:75558059G>A	ENST00000238616.5	-	19	2514	c.2356C>T	c.(2356-2358)Cga>Tga	p.R786*		NM_033116.4	NP_149107.4	Q8TD19	NEK9_HUMAN	NIMA-related kinase 9	786	Interaction with NEK6.|Pro/Ser/Thr-rich.				mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic nuclear envelope disassembly (GO:0007077)	cytosol (GO:0005829)|nucleus (GO:0005634)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)			endometrium(4)|kidney(2)|large_intestine(4)|lung(13)|ovary(1)|prostate(2)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)	31				BRCA - Breast invasive adenocarcinoma(234;0.00718)		TCCATTCCTCGGTCTGCTTCC	0.567																																																0													116	104	108					14																	75558059		2203	4300	6503	SO:0001587	stop_gained	91754			AY048580	CCDS9839.1	14q24.2	2012-11-15	2012-11-15		ENSG00000119638	ENSG00000119638			18591	protein-coding gene	gene with protein product		609798	"NIMA (never in mitosis gene a)- related kinase 9"			11864968	Standard	NM_033116		Approved	Nek8, NERCC, DKFZp434D0935, MGC16714	uc001xrl.3	Q8TD19	OTTHUMG00000171768	ENST00000238616.5:c.2356C>T	14.37:g.75558059G>A	ENSP00000238616:p.Arg786*	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LK6|Q8NCN0|Q8TCY4|Q9UPI4|Q9Y6S4|Q9Y6S5|Q9Y6S6	Nonsense_Mutation	SNP	ENST00000238616.5	37	CCDS9839.1	.	.	.	.	.	.	.	.	.	.	G	41	9.014481	0.99037	.	.	ENSG00000119638	ENST00000238616	.	.	.	5.66	5.66	0.87406	.	0.295996	0.31673	N	0.007256	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	19.752	0.96271	0.0:0.0:1.0:0.0	.	.	.	.	X	786	.	ENSP00000238616:R786X	R	-	1	2	NEK9	74627812	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	4.628000	0.61282	2.668000	0.90789	0.462000	0.41574	CGA		0.567	NEK9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415021.1	NM_033116		A	75558059	G	A	75558059	4	1	691	1	0	0	0	0	0	1	0	0	10338	1124	39	1	599	1	NEK9	14	75558059	Nonsense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	33197291	75558059	31791481	99	44990										
MTMR10	54893	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	31251264	31251264	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	cttctcccaacaaaagaatgGgaaaagatctttagatcttg	7	8	3	3			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr15:31251264G>C	ENST00000435680.1	-	8	916	c.819C>G	c.(817-819)tcC>tcG	p.S273S	RNU6-466P_ENST00000391224.1_RNA|MTMR10_ENST00000425768.1_3'UTR|MTMR10_ENST00000563714.1_Silent_p.S191S|MTMR10_ENST00000314404.8_Silent_p.S25S	NM_017762.2	NP_060232.2	Q9NXD2	MTMRA_HUMAN	myotubularin related protein 10	273	Myotubularin phosphatase. {ECO:0000255|PROSITE-ProRule:PRU00669}.						phosphatase activity (GO:0016791)			autonomic_ganglia(1)|breast(1)|endometrium(1)|kidney(2)|large_intestine(2)|ovary(1)|upper_aerodigestive_tract(1)	9		all_lung(180;2.81e-11)		all cancers(64;7.26e-15)|Epithelial(43;7.2e-11)|GBM - Glioblastoma multiforme(186;0.000158)|BRCA - Breast invasive adenocarcinoma(123;0.00426)|Lung(196;0.174)		CAAAAGAATGGGAAAAGATCT	0.383																																																0													67	63	64					15																	31251264		1866	4106	5972	SO:0001819	synonymous_variant	54893			AK000320	CCDS45204.1	15q13.3	2011-06-09				ENSG00000166912		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Myotubularins"	25999	protein-coding gene	gene with protein product						12495846	Standard	NM_017762		Approved	FLJ20313	uc001zfh.1	Q9NXD2		ENST00000435680.1:c.819C>G	15.37:g.31251264G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6P4Q6	Silent	SNP	ENST00000435680.1	37	CCDS45204.1																																																																																				0.383	MTMR10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000430747.1	NM_017762		C	31251264	G	C	31251264	2	2	691	1	0	0	0	0	0	0	0	1	9946	1219	43	4		4	MTMR10	15	31251264	Silent	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10		31251264	71280128	100	44991										
COPS2	9318	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	49421727	49421727	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	aggcttaattaattttataaGcacttgtgttctgatgtttc	7	5	1	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr15:49421727G>A	ENST00000388901.5	-	11	1148	c.1075C>T	c.(1075-1077)Ctt>Ttt	p.L359F	COPS2_ENST00000542928.1_Missense_Mutation_p.L295F|COPS2_ENST00000299259.6_Missense_Mutation_p.L366F	NM_001143887.1|NM_004236.3	NP_001137359.1|NP_004227.1	P61201	CSN2_HUMAN	COP9 signalosome subunit 2	359	PCI.				cell proliferation (GO:0008283)|cullin deneddylation (GO:0010388)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron differentiation (GO:0030182)|signal transduction (GO:0007165)|skeletal muscle cell differentiation (GO:0035914)|transcription from RNA polymerase II promoter (GO:0006366)	COP9 signalosome (GO:0008180)|cytoplasm (GO:0005737)	signal transducer activity (GO:0004871)|transcription corepressor activity (GO:0003714)			cervix(1)|endometrium(1)|kidney(3)|large_intestine(2)|lung(8)|prostate(1)|skin(2)	18		all_lung(180;0.0428)		all cancers(107;1.34e-07)|GBM - Glioblastoma multiforme(94;3.02e-05)		AATTTTATAAGCACTTGTGTT	0.229																																					NSCLC(36;322 1063 10349 30082 48062)|Esophageal Squamous(122;685 1633 15569 21293 52803)											0													24	25	24					15																	49421727		2132	4209	6341	SO:0001583	missense	9318			AF212227	CCDS32235.1, CCDS45257.1	15q21.2	2013-03-14	2013-03-14						30747	protein-coding gene	gene with protein product		604508	"COP9 constitutive photomorphogenic homolog subunit 2 (Arabidopsis)"			7776974, 9535219	Standard	NM_004236		Approved	TRIP15, ALIEN, CSN2	uc001zxh.3	P61201		ENST00000388901.5:c.1075C>T	15.37:g.49421727G>A	ENSP00000373553:p.Leu359Phe	Somatic		WXS	Illumina HiSeq	Phase_I	O88950|Q15647|Q6FGP4|Q9BY54|Q9R249|Q9UNI2|Q9UNQ5	Missense_Mutation	SNP	ENST00000388901.5	37	CCDS32235.1	.	.	.	.	.	.	.	.	.	.	G	27.8	4.868385	0.91587	.	.	ENSG00000166200	ENST00000299259;ENST00000388901;ENST00000542928	T;T;T	0.44083	0.93;0.93;0.93	5.05	5.05	0.67936	Winged helix-turn-helix transcription repressor DNA-binding (1);Proteasome component (PCI) domain (2);	0.000000	0.85682	D	0.000000	T	0.76737	0.4029	H	0.96208	3.785	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.995;0.995;0.998	D	0.84887	0.0834	10	0.72032	D	0.01	-18.1449	18.7719	0.91896	0.0:0.0:1.0:0.0	.	295;367;359	B4DIH5;Q59EL2;P61201	.;.;CSN2_HUMAN	F	366;359;295	ENSP00000299259:L366F;ENSP00000373553:L359F;ENSP00000443664:L295F	ENSP00000299259:L366F	L	-	1	0	COPS2	47209019	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.747000	0.98863	2.498000	0.84270	0.655000	0.94253	CTT		0.229	COPS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000417840.1	NM_004236		A	49421727	G	A	49421727	3	1	691	1	0	0	0	0	1	0	0	0	3735	971	34	2	268	2	COPS2	15	49421727	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	18170463	49421727	53109665	101	44992										
AP4E1	23431	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	51294808	51294808	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ttcagatcctcctgttctacTcttcctgactatttactgta	4	12	3	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr15:51294808T>G	ENST00000261842.5	+	21	3469	c.3363T>G	c.(3361-3363)acT>acG	p.T1121T	AP4E1_ENST00000561397.1_3'UTR|AP4E1_ENST00000560508.1_Silent_p.T1046T	NM_001252127.1|NM_007347.4	NP_001239056.1|NP_031373.2	Q9UPM8	AP4E1_HUMAN	adaptor-related protein complex 4, epsilon 1 subunit	1121					intracellular protein transport (GO:0006886)|vesicle-mediated transport (GO:0016192)	coated pit (GO:0005905)|Golgi apparatus (GO:0005794)|membrane coat (GO:0030117)				breast(1)|endometrium(6)|kidney(3)|large_intestine(10)|lung(5)|skin(2)	27				all cancers(107;0.000893)|GBM - Glioblastoma multiforme(94;0.00364)		CCTGTTCTACTCTTCCTGACT	0.463																																																0													275	213	234					15																	51294808		2196	4294	6490	SO:0001819	synonymous_variant	23431			AB030653	CCDS32240.1, CCDS58362.1	15q21.2	2014-09-17			ENSG00000081014	ENSG00000081014			573	protein-coding gene	gene with protein product		607244				10436028, 21620353	Standard	NM_007347		Approved	AP-4-EPSILON, SPG51	uc001zyx.2	Q9UPM8	OTTHUMG00000172458	ENST00000261842.5:c.3363T>G	15.37:g.51294808T>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0AVD6|A1L4A9|A6NNX7|H0YKX4|Q68D31|Q9Y588	Silent	SNP	ENST00000261842.5	37	CCDS32240.1																																																																																				0.463	AP4E1-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000418656.1			G	51294808	T	G	51294808	2	3	691	1	0	0	0	0	0	0	0	1	752	1538	54	5		5	AP4E1	15	51294808	Silent	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	1873081	51294808	51236584	102	44993										
ADCY9	115	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	4164714	4164714	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	cacccccagacacaaactcaGgtacaaaggtaagtgcatga	8	12	1	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr16:4164714G>A	ENST00000294016.3	-	2	1268	c.730C>T	c.(730-732)Ctg>Ttg	p.L244L		NM_001116.3	NP_001107.2	O60503	ADCY9_HUMAN	adenylate cyclase 9	244					activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-activating G-protein coupled receptor signaling pathway (GO:0007189)|adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|neurotrophin TRK receptor signaling pathway (GO:0048011)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	axon (GO:0030424)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	adenylate cyclase activity (GO:0004016)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)			breast(4)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(3)|large_intestine(11)|lung(9)|ovary(5)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	47						CACAAACTCAGGTACAAAGGT	0.552																																																0													58	46	50					16																	4164714		2196	4299	6495	SO:0001819	synonymous_variant	115			AF036927	CCDS32382.1	16p13.3	2013-02-04				ENSG00000162104	4.6.1.1	"Adenylate cyclases"	240	protein-coding gene	gene with protein product		603302				9628827	Standard	NM_001116		Approved	AC9	uc002cvx.3	O60503		ENST00000294016.3:c.730C>T	16.37:g.4164714G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A7E2V5|A7E2X2|D3DUD1|O60273|Q4ZHT9|Q4ZIR5|Q9BWT4|Q9UGP2	Silent	SNP	ENST00000294016.3	37	CCDS32382.1																																																																																				0.552	ADCY9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438076.1			A	4164714	G	A	4164714	2	1	691	1	0	0	0	0	0	0	0	1	301	991	35	2		2	ADCY9	16	4164714	Silent	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10		4164714	86190039	103	44994										
MAP2K4	6416	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	11998978	11998978	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	cggagtagtgattgcccataCattgttcagttttatggtgc	11	7	1	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr17:11998978C>T	ENST00000353533.5	+	4	543	c.480C>T	c.(478-480)taC>taT	p.Y160Y	MAP2K4_ENST00000581941.1_3'UTR|MAP2K4_ENST00000415385.3_Silent_p.Y171Y	NM_003010.2	NP_003001.1	P45985	MP2K4_HUMAN	mitogen-activated protein kinase kinase 4	160	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				apoptotic process (GO:0006915)|cellular response to mechanical stimulus (GO:0071260)|cellular response to sorbitol (GO:0072709)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|JNK cascade (GO:0007254)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|positive regulation of DNA replication (GO:0045740)|positive regulation of neuron apoptotic process (GO:0043525)|signal transduction (GO:0007165)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytosol (GO:0005829)|dendrite cytoplasm (GO:0032839)|nucleus (GO:0005634)|perikaryon (GO:0043204)	ATP binding (GO:0005524)|JUN kinase kinase activity (GO:0008545)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|protein tyrosine kinase activity (GO:0004713)	p.0?(10)|p.?(1)		NS(1)|biliary_tract(2)|breast(22)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(26)|lung(15)|ovary(8)|pancreas(11)|skin(3)|stomach(2)|testis(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	100		all_cancers(5;0.0413)|Breast(5;0.000625)|all_epithelial(5;0.00978)|all_lung(20;0.0449)|Lung NSC(33;0.163)		Epithelial(2;4.12e-09)|all cancers(2;6.86e-07)|BRCA - Breast invasive adenocarcinoma(2;8.74e-07)|Colorectal(4;5.32e-05)|COAD - Colon adenocarcinoma(4;0.0039)|READ - Rectum adenocarcinoma(10;0.0681)		ATTGCCCATACATTGTTCAGT	0.373			"D, Mis, N"		"pancreatic, breast, colorectal"																																		Rec	yes		17	17p11.2	6416	mitogen-activated protein kinase kinase 4		E	11	Whole gene deletion(10)|Unknown(1)	ovary(4)|breast(4)|biliary_tract(1)|large_intestine(1)|pancreas(1)											184	173	177					17																	11998978		2203	4300	6503	SO:0001819	synonymous_variant	6416			L36870	CCDS11162.1, CCDS62095.1	17p12	2012-03-23			ENSG00000065559	ENSG00000065559	2.7.12.2	"Mitogen-activated protein kinase cascade / Kinase kinases"	6844	protein-coding gene	gene with protein product		601335		SERK1		7716521	Standard	NM_003010		Approved	MEK4, JNKK1, PRKMK4, MKK4	uc002gnj.3	P45985		ENST00000353533.5:c.480C>T	17.37:g.11998978C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R7N7|B3KYB2|D3DTS5|Q5U0B8|Q6FHX4|Q6P9H2|Q6PIE6	Silent	SNP	ENST00000353533.5	37	CCDS11162.1																																																																																				0.373	MAP2K4-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000441226.1			T	11998978	C	T	11998978	2	4	691	1	0	0	0	0	0	0	0	1	9246	489	17	2		2	MAP2K4	17	11998978	Silent	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10		11998978	69196232	104	44995										
MPRIP	23164	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	17075111	17075111	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tctccagaggcagcaccagcGggagctagagaaacttcgag	13	11	1	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr17:17075111G>A	ENST00000341712.4	+	16	2243	c.2243G>A	c.(2242-2244)cGg>cAg	p.R748Q	MPRIP_ENST00000395811.5_Missense_Mutation_p.R748Q|RNU6-767P_ENST00000384132.1_RNA|MPRIP_ENST00000444976.1_Missense_Mutation_p.R710Q|MPRIP_ENST00000395804.3_Missense_Mutation_p.R748Q|RP11-45M22.3_ENST00000584203.1_RNA			Q6WCQ1	MPRIP_HUMAN	myosin phosphatase Rho interacting protein	748	Interaction with RHOA.					actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)				biliary_tract(1)|breast(1)|endometrium(4)|kidney(2)|large_intestine(6)|lung(9)|ovary(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	31						CAGCACCAGCGGGAGCTAGAG	0.572																																																0													71	85	80					17																	17075111		2203	4300	6503	SO:0001583	missense	23164			BC014102	CCDS32578.1, CCDS42268.1	17p11.2	2013-01-10			ENSG00000133030	ENSG00000133030		"Pleckstrin homology (PH) domain containing"	30321	protein-coding gene	gene with protein product	"Rho interacting protein 3"	612935				10048485	Standard	NM_201274		Approved	RHOIP3, M-RIP, p116Rip	uc002gqy.2	Q6WCQ1	OTTHUMG00000059276	ENST00000341712.4:c.2243G>A	17.37:g.17075111G>A	ENSP00000342379:p.Arg748Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q3KQZ5|Q5FB94|Q6DHW2|Q7Z5Y2|Q8N390|Q96G40	Missense_Mutation	SNP	ENST00000341712.4	37	CCDS32578.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	29.7|29.7	5.027583|5.027583	0.93518|0.93518	.|.	.|.	ENSG00000133030|ENSG00000133030	ENST00000414263|ENST00000444976;ENST00000395811;ENST00000395804;ENST00000341712	.|T;T;T;T	.|0.25579	.|1.79;2.12;2.13;2.13	5.79|5.79	5.79|5.79	0.91817|0.91817	.|.	.|0.126948	.|0.50627	.|D	.|0.000103	T|T	0.44307|0.44307	0.1287|0.1287	L|L	0.37850|0.37850	1.14|1.14	0.44373|0.44373	D|D	0.99727|0.99727	.|D;P;D	.|0.89917	.|1.0;0.777;1.0	.|D;B;D	.|0.79108	.|0.992;0.346;0.992	T|T	0.12941|0.12941	-1.0528|-1.0528	5|10	.|0.46703	.|T	.|0.11	-16.1602|-16.1602	20.032|20.032	0.97543|0.97543	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|1112;748;748	.|Q9Y6X7;Q6WCQ1-2;Q6WCQ1	.|.;.;MPRIP_HUMAN	R|Q	814|710;748;748;748	.|ENSP00000400189:R710Q;ENSP00000379156:R748Q;ENSP00000379149:R748Q;ENSP00000342379:R748Q	.|ENSP00000342379:R748Q	G|R	+|+	1|2	0|0	MPRIP|MPRIP	17015836|17015836	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.991000|0.991000	0.79684|0.79684	9.387000|9.387000	0.97232|0.97232	2.743000|2.743000	0.94032|0.94032	0.655000|0.655000	0.94253|0.94253	GGG|CGG		0.572	MPRIP-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000131587.1	NM_015134		A	17075111	G	A	17075111	3	1	691	1	0	0	0	0	1	0	0	0	9750	1116	39	1	2305	1	MPRIP	17	17075111	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	5076133	17075111	64120099	105	44996										
PCGF2	7703	broad.mit.edu	37	chr17	36891628	36891628	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	agtgggggaggtagggtgggTggctggaggcccatgggaac	23	5	0	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr17:36891628T>G	ENST00000580830.1	-	12	1584	c.883A>C	c.(883-885)Acc>Ccc	p.T295P	PCGF2_ENST00000581345.1_Missense_Mutation_p.T295P|PCGF2_ENST00000578109.1_3'UTR|PCGF2_ENST00000585100.1_3'UTR|PCGF2_ENST00000360797.2_Missense_Mutation_p.T295P|PCGF2_ENST00000579882.1_3'UTR			P35227	PCGF2_HUMAN	polycomb group ring finger 2	295	Pro/Ser-rich.				anterior/posterior pattern specification (GO:0009952)|cellular response to hydrogen peroxide (GO:0070301)|embryonic skeletal system morphogenesis (GO:0048704)|histone acetylation (GO:0016573)|in utero embryonic development (GO:0001701)|negative regulation of apoptotic signaling pathway (GO:2001234)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription, DNA-templated (GO:0006351)	nuclear body (GO:0016604)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|PcG protein complex (GO:0031519)|PRC1 complex (GO:0035102)|sex chromatin (GO:0001739)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(4)|skin(1)	10	Breast(7;9.07e-22)					GTAGGGTGGGTGGCTGGAGGC	0.682											OREG0024367	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													16	12	13					17																	36891628		2187	4280	6467	SO:0001583	missense	7703			D13969	CCDS32638.1	17q12	2013-01-09	2005-01-17	2005-01-19		ENSG00000277258		"RING-type (C3HC4) zinc fingers", "Polycomb group ring fingers"	12929	protein-coding gene	gene with protein product		600346	"ring finger protein 110"	ZNF144, RNF110		8325509	Standard	NM_007144		Approved	MEL-18	uc002hqp.1	P35227		ENST00000580830.1:c.883A>C	17.37:g.36891628T>G	ENSP00000461961:p.Thr295Pro	Somatic	866	WXS	Illumina HiSeq	Phase_I	A6NGD8	Missense_Mutation	SNP	ENST00000580830.1	37	CCDS32638.1	.	.	.	.	.	.	.	.	.	.	T	10.42	1.344960	0.24426	.	.	ENSG00000056661	ENST00000360797	T	0.31247	1.5	4.92	-0.193	0.13244	.	0.651897	0.15163	N	0.277024	T	0.13628	0.0330	N	0.04508	-0.205	0.26765	N	0.969921	B	0.02656	0.0	B	0.01281	0.0	T	0.23583	-1.0184	10	0.23891	T	0.37	-6.6811	12.5227	0.56069	0.0:0.0:0.6437:0.3563	.	295	P35227	PCGF2_HUMAN	P	295	ENSP00000354033:T295P	ENSP00000354033:T295P	T	-	1	0	PCGF2	34145154	0.004000	0.15560	0.536000	0.28039	0.978000	0.69477	-0.673000	0.05239	-0.232000	0.09811	0.459000	0.35465	ACC		0.682	PCGF2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000442246.2	NM_007144		G	36891628	T	G	36891628	3	3	691	1	0	0	0	0	1	0	0	0	11582	1696	59	5	155	5	PCGF2	17	36891628	Missense_Mutation	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	19816517	36891628	44303582	106	44997										
PSMC3IP	29893	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	40729246	40729246	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ctcacctgatccgcaaaataGatcttctgcttgccgtacat	6	13	3	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr17:40729246G>C	ENST00000393795.3	-	3	318	c.210C>G	c.(208-210)atC>atG	p.I70M	PSMC3IP_ENST00000590760.1_De_novo_Start_OutOfFrame|PSMC3IP_ENST00000587209.1_Missense_Mutation_p.I7M|PSMC3IP_ENST00000253789.5_Missense_Mutation_p.I70M	NM_001256015.1|NM_001256016.1|NM_016556.3	NP_001242944.1|NP_001242945.1|NP_057640.1	Q9P2W1	HOP2_HUMAN	PSMC3 interacting protein	70					DNA recombination (GO:0006310)|meiotic nuclear division (GO:0007126)|regulation of RNA biosynthetic process (GO:2001141)	nucleus (GO:0005634)	DNA binding (GO:0003677)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)			endometrium(2)|large_intestine(1)|lung(1)|skin(1)|upper_aerodigestive_tract(2)	7		all_cancers(22;0.00426)|Breast(137;0.00116)|all_epithelial(22;0.0395)		BRCA - Breast invasive adenocarcinoma(366;0.13)		CCGCAAAATAGATCTTCTGCT	0.532																																																0													163	113	130					17																	40729246		2203	4300	6503	SO:0001583	missense	29893			AB030304, NM_013290, BC008792	CCDS11431.1, CCDS45688.1, CCDS59289.1	17q21.2	2012-04-10				ENSG00000131470		"Proteasome (prosome, macropain) subunits"	17928	protein-coding gene	gene with protein product	"TBP-1 interacting protein"	608665				7490091, 10806355, 11739747	Standard	NM_016556		Approved	TBPIP, GT198, HUMGT198A	uc002iai.3	Q9P2W1		ENST00000393795.3:c.210C>G	17.37:g.40729246G>C	ENSP00000377384:p.Ile70Met	Somatic		WXS	Illumina HiSeq	Phase_I	C5ILB7|Q14458|Q8WXG2|Q96HA2	Missense_Mutation	SNP	ENST00000393795.3	37	CCDS45688.1	.	.	.	.	.	.	.	.	.	.	G	21.2	4.105854	0.77096	.	.	ENSG00000131470	ENST00000393795;ENST00000253789	T;T	0.60797	0.16;0.16	5.8	-1.78	0.07957	Winged helix-turn-helix transcription repressor DNA-binding (1);	0.051811	0.85682	D	0.000000	T	0.71753	0.3377	M	0.81802	2.56	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.79108	0.992;0.992	T	0.71738	-0.4502	10	0.72032	D	0.01	-11.3368	11.3412	0.49533	0.0598:0.0:0.3656:0.5746	.	70;70	Q9P2W1-2;Q9P2W1	.;HOP2_HUMAN	M	70	ENSP00000377384:I70M;ENSP00000253789:I70M	ENSP00000253789:I70M	I	-	3	3	PSMC3IP	37982772	0.947000	0.32204	0.954000	0.39281	0.978000	0.69477	-0.022000	0.12480	-0.533000	0.06323	0.655000	0.94253	ATC		0.532	PSMC3IP-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450427.1	NM_013290		C	40729246	G	C	40729246	3	2	691	1	0	0	0	0	1	0	0	0	12698	932	33	4	467	4	PSMC3IP	17	40729246	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	3837618	40729246	40465964	107	44998										
NPEPPS	9520	broad.mit.edu	37	chr17	45682709	45682709	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	cctatcccaggctcgagctgGaatcattagcactgtagagg	11	11	1	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr17:45682709G>A	ENST00000322157.4	+	17	2123	c.1886G>A	c.(1885-1887)gGa>gAa	p.G629E	NPEPPS_ENST00000530173.1_Missense_Mutation_p.G625E|NPEPPS_ENST00000544660.1_Missense_Mutation_p.G549E|RP11-580I16.2_ENST00000582389.1_RNA|RP11-580I16.2_ENST00000582066.1_RNA	NM_006310.3	NP_006301.3	P55786	PSA_HUMAN	aminopeptidase puromycin sensitive	629					antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cellular response to hypoxia (GO:0071456)|protein polyubiquitination (GO:0000209)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	aminopeptidase activity (GO:0004177)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(6)|lung(7)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	27						GCTCGAGCTGGAATCATTAGC	0.403																																																0													65	57	59					17																	45682709		1841	4087	5928	SO:0001583	missense	9520			Y07701	CCDS45721.1	17q12-q21	2008-07-18			ENSG00000141279	ENSG00000141279	3.4.11.2		7900	protein-coding gene	gene with protein product	"puromycin-sensitive aminopeptidase", "metalloproteinase MP100"	606793				9048733, 10329370	Standard	NM_006310		Approved	PSA, MP100	uc002ilr.4	P55786	OTTHUMG00000165471	ENST00000322157.4:c.1886G>A	17.37:g.45682709G>A	ENSP00000320324:p.Gly629Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z463|Q6P145|Q9NP16|Q9UEM2	Missense_Mutation	SNP	ENST00000322157.4	37	CCDS45721.1	.	.	.	.	.	.	.	.	.	.	G	29.9	5.044695	0.93685	.	.	ENSG00000141279	ENST00000530173;ENST00000322157;ENST00000544660	T;T;T	0.10860	2.83;2.83;2.83	6.16	6.16	0.99307	.	0.000000	0.85682	D	0.000000	T	0.43055	0.1230	M	0.86864	2.845	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.85130	0.997;0.997;0.997	T	0.32798	-0.9893	10	0.72032	D	0.01	.	20.8598	0.99761	0.0:0.0:1.0:0.0	.	625;312;629	E9PLK3;B7Z1H4;P55786	.;.;PSA_HUMAN	E	625;629;549	ENSP00000433287:G625E;ENSP00000320324:G629E;ENSP00000442461:G549E	ENSP00000320324:G629E	G	+	2	0	NPEPPS	43037708	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.869000	0.99810	2.937000	0.99478	0.650000	0.86243	GGA		0.403	NPEPPS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384269.1	NM_006310		A	45682709	G	A	45682709	3	1	691	1	0	0	0	0	1	0	0	0	10582	1174	41	2	1952	2	NPEPPS	17	45682709	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	4953463	45682709	35512501	108	44999										
SLC35B1	10237	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	47780367	47780367	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	atacacaaccgtcataaagaTgaagctctagagaaagataa	7	7	2	4			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr17:47780367T>G	ENST00000240333.6	-	8	890	c.769A>C	c.(769-771)Atc>Ctc	p.I257L	SLC35B1_ENST00000415270.2_Missense_Mutation_p.I294L			P78383	S35B1_HUMAN	solute carrier family 35, member B1	257					transport (GO:0006810)|UDP-galactose transmembrane transport (GO:0072334)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)	UDP-galactose transmembrane transporter activity (GO:0005459)			endometrium(1)|large_intestine(2)|lung(3)|urinary_tract(1)	7						GTCATAAAGATGAAGCTCTAG	0.468																																																0													119	120	120					17																	47780367		2203	4300	6503	SO:0001583	missense	10237			D16978	CCDS11552.1, CCDS11552.2	17q21.32	2013-05-22			ENSG00000121073	ENSG00000121073		"Solute carriers"	20798	protein-coding gene	gene with protein product		610790				9010752	Standard	NM_005827		Approved	UGTREL1	uc002iph.1	P78383	OTTHUMG00000161638	ENST00000240333.6:c.769A>C	17.37:g.47780367T>G	ENSP00000240333:p.Ile257Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DEC4|J3KQV4|Q96EW7	Missense_Mutation	SNP	ENST00000240333.6	37	CCDS11552.1	.	.	.	.	.	.	.	.	.	.	T	27.4	4.828281	0.90955	.	.	ENSG00000121073	ENST00000240333;ENST00000415270;ENST00000504260;ENST00000502406;ENST00000503334	T;T;T	0.39056	1.1;1.1;1.1	5.16	5.16	0.70880	.	0.000000	0.85682	D	0.000000	T	0.67458	0.2895	M	0.88570	2.965	0.80722	D	1	D;D	0.63880	0.993;0.993	D;D	0.63381	0.914;0.914	T	0.74604	-0.3610	10	0.62326	D	0.03	0.0724	14.8245	0.70101	0.0:0.0:0.0:1.0	.	190;257	D3DTX1;P78383	.;S35B1_HUMAN	L	257;294;133;133;190	ENSP00000240333:I257L;ENSP00000409548:I294L;ENSP00000423323:I190L	ENSP00000240333:I257L	I	-	1	0	SLC35B1	45135366	1.000000	0.71417	1.000000	0.80357	0.914000	0.54420	7.645000	0.83430	2.153000	0.67306	0.533000	0.62120	ATC		0.468	SLC35B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365564.2	NM_005827		G	47780367	T	G	47780367	3	3	691	1	0	0	0	0	1	0	0	0	14588	1464	51	5	207	5	SLC35B1	17	47780367	Missense_Mutation	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	2097658	47780367	33414843	109	45000										
TRIM25	7706	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	54969126	54969126	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ccagaaagccgggtacaaagCctcagtaaagtccaccctga	9	13	1	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr17:54969126C>G	ENST00000316881.4	-	9	1877	c.1828G>C	c.(1828-1830)Gct>Cct	p.A610P	MIR3614_ENST00000581261.1_RNA|TRIM25_ENST00000573108.1_5'Flank|RP11-670E13.5_ENST00000574826.1_RNA|TRIM25_ENST00000537230.1_Missense_Mutation_p.A610P	NM_005082.4	NP_005073.2	Q14258	TRI25_HUMAN	tripartite motif containing 25	610	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.				defense response to virus (GO:0051607)|innate immune response (GO:0045087)|negative regulation of type I interferon production (GO:0032480)|negative regulation of viral entry into host cell (GO:0046597)|negative regulation of viral release from host cell (GO:1902187)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|protein ubiquitination (GO:0016567)|regulation of viral entry into host cell (GO:0046596)|regulation of viral release from host cell (GO:1902186)|response to estrogen (GO:0043627)|response to vitamin D (GO:0033280)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	acid-amino acid ligase activity (GO:0016881)|poly(A) RNA binding (GO:0044822)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			breast(2)|endometrium(2)|kidney(4)|large_intestine(3)|lung(6)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	21	Breast(9;6.15e-08)					GGGTACAAAGCCTCAGTAAAG	0.547																																																0													58	50	53					17																	54969126		2203	4300	6503	SO:0001583	missense	7706			D21205	CCDS11591.1	17q23.1	2013-01-09	2011-01-25	2004-03-30				"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	12932	protein-coding gene	gene with protein product		600453	"zinc finger protein 147 (estrogen-responsive finger protein)", "tripartite motif-containing 25"	ZNF147		7789997	Standard	NM_005082		Approved	EFP, RNF147	uc002iut.3	Q14258		ENST00000316881.4:c.1828G>C	17.37:g.54969126C>G	ENSP00000323889:p.Ala610Pro	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000316881.4	37	CCDS11591.1	.	.	.	.	.	.	.	.	.	.	C	15.89	2.967214	0.53507	.	.	ENSG00000121060	ENST00000316881;ENST00000537230	T;T	0.56103	0.48;0.48	4.87	4.87	0.63330	Concanavalin A-like lectin/glucanase (1);SPla/RYanodine receptor subgroup (1);Butyrophylin-like (1);B30.2/SPRY domain (1);SPla/RYanodine receptor SPRY (1);	0.122762	0.36374	N	0.002631	T	0.44787	0.1310	N	0.02345	-0.59	0.58432	D	0.999993	D	0.89917	1.0	D	0.83275	0.996	T	0.43798	-0.9369	10	0.02654	T	1	.	18.0042	0.89205	0.0:1.0:0.0:0.0	.	610	Q14258	TRI25_HUMAN	P	610	ENSP00000323889:A610P;ENSP00000445961:A610P	ENSP00000323889:A610P	A	-	1	0	TRIM25	52324125	0.999000	0.42202	0.446000	0.26920	0.105000	0.19272	3.797000	0.55514	2.251000	0.74343	0.561000	0.74099	GCT		0.547	TRIM25-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440609.1	NM_005082		G	54969126	C	G	54969126	3	3	691	1	0	0	0	0	1	0	0	0	16511	739	26	4	68	4	TRIM25	17	54969126	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	7188759	54969126	26226084	110	45001										
LAMA3	3909	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	21508090	21508090	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tctgtgttcgtaatcagattTaacatttctacgcctgcttt	6	9	3	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr18:21508090T>C	ENST00000313654.9	+	63	8422	c.8181T>C	c.(8179-8181)ttT>ttC	p.F2727F	LAMA3_ENST00000399516.3_Silent_p.F2671F|LAMA3_ENST00000269217.6_Silent_p.F1118F|LAMA3_ENST00000587184.1_Silent_p.F1062F|LAMA3_ENST00000588770.1_3'UTR	NM_198129.1	NP_937762.1	Q16787	LAMA3_HUMAN	laminin, alpha 3	2727	Laminin G-like 2. {ECO:0000255|PROSITE- ProRule:PRU00122}.				cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|endodermal cell differentiation (GO:0035987)|epidermis development (GO:0008544)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of embryonic development (GO:0045995)	basement membrane (GO:0005604)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)|laminin-5 complex (GO:0005610)	structural molecule activity (GO:0005198)			NS(2)|breast(4)|central_nervous_system(3)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(24)|lung(54)|ovary(8)|prostate(6)|skin(7)|urinary_tract(4)	128	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)					TAATCAGATTTAACATTTCTA	0.408																																																0													114	97	103					18																	21508090		2203	4300	6503	SO:0001819	synonymous_variant	3909			L34155	CCDS11880.1, CCDS42419.1, CCDS45838.1, CCDS59307.1	18q11.2	2013-03-01	2002-08-29		ENSG00000053747	ENSG00000053747		"Laminins"	6483	protein-coding gene	gene with protein product		600805	"laminin, alpha 3 (nicein (150kD), kalinin (165kD), BM600 (150kD), epilegrin)"	LAMNA		8077230	Standard	NM_000227		Approved	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin	uc002kuq.3	Q16787	OTTHUMG00000131874	ENST00000313654.9:c.8181T>C	18.37:g.21508090T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ33|Q13679|Q13680|Q6VU67|Q6VU68|Q6VU69|Q76E14|Q96TG0	Silent	SNP	ENST00000313654.9	37	CCDS42419.1																																																																																				0.408	LAMA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254824.3	NM_000227, NM_198129		C	21508090	T	C	21508090	2	2	691	1	0	0	0	0	0	0	0	1	8614	1751	61	3		3	LAMA3	18	21508090	Silent	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10		21508090	56569158	111	45002										
ZNF407	55628	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	72345617	72345618	+	Missense_Mutation	DNP	GC	GC	AT													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tcaccagtatagttatttatGcaaagtgtgtaagtattaca							TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr18:72345617_72345618GC>AT	ENST00000299687.5	+	1	2642_2643	c.2642_2643GC>AT	c.(2641-2643)tGC>tAT	p.C881Y	ZNF407_ENST00000309902.6_Missense_Mutation_p.C881Y|ZNF407_ENST00000577538.1_Missense_Mutation_p.C881Y|ZNF407_ENST00000582337.1_Missense_Mutation_p.C881Y	NM_017757.2	NP_060227.2	Q9C0G0	ZN407_HUMAN	zinc finger protein 407	881					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(6)|kidney(7)|large_intestine(21)|lung(23)|ovary(4)|prostate(3)|upper_aerodigestive_tract(2)	67		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		AGTTATTTATGCAAAGTGTGTA	0.401																																																0																																										SO:0001583	missense	55628			AB051490	CCDS45885.1, CCDS54191.1, CCDS58634.1	18q23	2013-01-08			ENSG00000215421	ENSG00000215421		"Zinc fingers, C2H2-type"	19904	protein-coding gene	gene with protein product		615894				11214970	Standard	NM_017757		Approved	FLJ20307, FLJ13839, KIAA1703	uc002llw.2	Q9C0G0		Exception_encountered	18.37:g.72345617_72345618delinsAT	ENSP00000299687:p.Cys881Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B5MD54|Q96MY0|Q9H8A1|Q9NXD4|Q9NXD7	Missense_Mutation	DNP	ENST00000299687.5	37	CCDS45885.1																																																																																				0.401	ZNF407-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444903.1	NM_017757		AT	72345618	GC	AT	72345617	3	1	691	1	0	0	0	0	1	0	0	0	17899	1319	46	2	2644	2	ZNF407	18	72345617	Missense_Mutation	DNP	GC	TCGA-MH-A55Z-01A-11D-A26P-10	50837527	72345617	5731631	112	45003										
SMARCA4	6597	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	11134305	11134305	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tcgaggcccagttgcccgaaAaggtgatggagttttgaggg	16	7	0	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr19:11134305A>G	ENST00000429416.3	+	21	3252	c.2971A>G	c.(2971-2973)Aag>Gag	p.K991E	SMARCA4_ENST00000444061.3_Missense_Mutation_p.K991E|SMARCA4_ENST00000590574.1_Missense_Mutation_p.K991E|SMARCA4_ENST00000413806.3_Missense_Mutation_p.K991E|SMARCA4_ENST00000358026.2_Missense_Mutation_p.K991E|SMARCA4_ENST00000450717.3_Missense_Mutation_p.K991E|SMARCA4_ENST00000589677.1_Missense_Mutation_p.K991E|SMARCA4_ENST00000541122.2_Missense_Mutation_p.K991E|SMARCA4_ENST00000344626.4_Missense_Mutation_p.K991E	NM_001128844.1	NP_001122316.1	P51532	SMCA4_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4	991					aortic smooth muscle cell differentiation (GO:0035887)|ATP catabolic process (GO:0006200)|ATP-dependent chromatin remodeling (GO:0043044)|blastocyst growth (GO:0001832)|blastocyst hatching (GO:0001835)|cell morphogenesis (GO:0000902)|chromatin remodeling (GO:0006338)|definitive erythrocyte differentiation (GO:0060318)|DNA methylation on cytosine within a CG sequence (GO:0010424)|embryonic hindlimb morphogenesis (GO:0035116)|embryonic organ morphogenesis (GO:0048562)|epidermis morphogenesis (GO:0048730)|extracellular matrix organization (GO:0030198)|forebrain development (GO:0030900)|glial cell fate determination (GO:0007403)|heart trabecula formation (GO:0060347)|hindbrain development (GO:0030902)|histone H3 acetylation (GO:0043966)|keratinocyte differentiation (GO:0030216)|lens fiber cell development (GO:0070307)|liver development (GO:0001889)|methylation-dependent chromatin silencing (GO:0006346)|negative regulation of androgen receptor signaling pathway (GO:0060766)|negative regulation of cell growth (GO:0030308)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription from RNA polymerase II promoter during mitosis (GO:0007070)|negative regulation of transcription, DNA-templated (GO:0045892)|neural retina development (GO:0003407)|nucleosome disassembly (GO:0006337)|positive regulation by host of viral transcription (GO:0043923)|positive regulation of DNA binding (GO:0043388)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|stem cell maintenance (GO:0019827)|vasculogenesis (GO:0001570)	extracellular space (GO:0005615)|heterochromatin (GO:0000792)|membrane (GO:0016020)|nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nuclear euchromatin (GO:0005719)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perichromatin fibrils (GO:0005726)|protein complex (GO:0043234)|SWI/SNF complex (GO:0016514)	androgen receptor binding (GO:0050681)|ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA-dependent ATPase activity (GO:0008094)|helicase activity (GO:0004386)|lysine-acetylated histone binding (GO:0070577)|p53 binding (GO:0002039)|protein N-terminus binding (GO:0047485)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription coactivator activity (GO:0001105)|Tat protein binding (GO:0030957)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)	p.?(1)		adrenal_gland(1)|autonomic_ganglia(1)|breast(6)|central_nervous_system(23)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(16)|liver(4)|lung(60)|ovary(10)|pancreas(7)|prostate(3)|skin(8)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	163		all_lung(6;0.0512)|Lung NSC(9;0.0568)				GTTGCCCGAAAAGGTGATGGA	0.607			"F, N, Mis"		NSCLC																																		Rec	yes		19	19p13.2	6597	"SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4"		E	1	Unknown(1)	lung(1)											37	34	35					19																	11134305		2202	4299	6501	SO:0001583	missense	6597			D26156	CCDS12253.1, CCDS45972.1, CCDS45973.1, CCDS54217.1, CCDS54218.1	19p13.3	2014-09-17	2006-11-09		ENSG00000127616	ENSG00000127616			11100	protein-coding gene	gene with protein product	"SNF2-like 4", "global transcription activator homologous sequence", "sucrose nonfermenting-like 4", "mitotic growth and transcription activator", "BRM/SWI2-related gene 1", "homeotic gene regulator", "nuclear protein GRB1", "brahma protein-like 1", "ATP-dependent helicase SMARCA4"	603254		SNF2L4		8208605	Standard	NM_003072		Approved	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786	uc010dxo.3	P51532	OTTHUMG00000169272	ENST00000429416.3:c.2971A>G	19.37:g.11134305A>G	ENSP00000395654:p.Lys991Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B1A8Z4|B1A8Z5|B1A8Z6|B1A8Z7|E9PBR8|O95052|Q9HBD3	Missense_Mutation	SNP	ENST00000429416.3	37	CCDS12253.1	.	.	.	.	.	.	.	.	.	.	A	22.5	4.303884	0.81136	.	.	ENSG00000127616	ENST00000429416;ENST00000358026;ENST00000421844;ENST00000344626;ENST00000541122;ENST00000444061;ENST00000450717;ENST00000413806	D;D;D;D;D;D;D	0.94576	-3.46;-3.46;-3.46;-3.46;-3.46;-3.46;-3.46	4.9	4.9	0.64082	SNF2-related (1);	0.000000	0.85682	D	0.000000	D	0.98601	0.9532	H	0.99705	4.715	0.80722	D	1	D;D;D;D;D;D;D;D	0.89917	1.0;1.0;1.0;0.999;0.999;1.0;1.0;1.0	D;D;D;D;D;D;D;D	0.91635	0.996;0.996;0.996;0.992;0.981;0.999;0.996;0.996	D	0.99004	1.0812	10	0.87932	D	0	-39.7655	13.6333	0.62208	1.0:0.0:0.0:0.0	.	991;991;991;991;991;211;991;991	B1A8Z6;B1A8Z4;B1A8Z7;Q9HBD4;B1A8Z5;B4E0F1;A7E2E1;P51532	.;.;.;.;.;.;.;SMCA4_HUMAN	E	991;991;1055;991;991;991;991;991	ENSP00000395654:K991E;ENSP00000350720:K991E;ENSP00000343896:K991E;ENSP00000445036:K991E;ENSP00000392837:K991E;ENSP00000397783:K991E;ENSP00000414727:K991E	ENSP00000343896:K991E	K	+	1	0	SMARCA4	10995305	1.000000	0.71417	0.964000	0.40570	0.535000	0.34838	8.855000	0.92236	2.055000	0.61198	0.533000	0.62120	AAG		0.607	SMARCA4-007	KNOWN	alternative_5_UTR|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000452638.2	NM_003072		G	11134305	A	G	11134305	3	3	691	1	0	0	0	0	1	0	0	0	14783	15	1	3	3045	3	SMARCA4	19	11134305	Missense_Mutation	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10		11134305	47994678	113	45004										
CYP2A13	1553	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	41599643	41599643	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	gcaccaccctgcgctacggtTtcctgctgctcatgaagcac	9	16	1	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr19:41599643T>G	ENST00000330436.3	+	6	940	c.940T>G	c.(940-942)Ttc>Gtc	p.F314V		NM_000766.4	NP_000757.2	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A, polypeptide 13	314					small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)	aromatase activity (GO:0070330)|heme binding (GO:0020037)|iron ion binding (GO:0005506)			breast(3)|endometrium(6)|kidney(4)|large_intestine(8)|lung(13)|ovary(3)|prostate(3)|skin(2)	42					Methoxsalen(DB00553)|Nicotine(DB00184)|Testosterone(DB00624)	GCGCTACGGTTTCCTGCTGCT	0.567																																																0													89	77	81					19																	41599643		2203	4300	6503	SO:0001583	missense	1553			U22028	CCDS12571.1	19q13.2	2013-11-11	2003-01-14		ENSG00000197838	ENSG00000197838		"Cytochrome P450s"	2608	protein-coding gene	gene with protein product		608055	"cytochrome P450, subfamily IIA (phenobarbital-inducible), polypeptide 13"			7668294, 15128046	Standard	NM_000766		Approved	CPAD, CYP2A	uc002opt.4	Q16696	OTTHUMG00000182762	ENST00000330436.3:c.940T>G	19.37:g.41599643T>G	ENSP00000332679:p.Phe314Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q53YR8|Q6R569|Q6R570|Q9H2X2	Missense_Mutation	SNP	ENST00000330436.3	37	CCDS12571.1	.	.	.	.	.	.	.	.	.	.	.	12.81	2.049285	0.36181	.	.	ENSG00000197838	ENST00000330436	T	0.70045	-0.45	4.58	4.58	0.56647	.	0.157726	0.43919	D	0.000512	T	0.63698	0.2533	N	0.17082	0.46	0.29694	N	0.840704	P	0.51537	0.946	P	0.61003	0.882	T	0.62310	-0.6881	10	0.66056	D	0.02	.	8.6585	0.34077	0.1706:0.0:0.0:0.8293	.	314	Q16696	CP2AD_HUMAN	V	314	ENSP00000332679:F314V	ENSP00000332679:F314V	F	+	1	0	CYP2A13	46291483	0.124000	0.22315	0.995000	0.50966	0.015000	0.08874	0.497000	0.22514	1.945000	0.56424	0.397000	0.26171	TTC		0.567	CYP2A13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463505.1	NM_000766		G	41599643	T	G	41599643	3	3	691	1	0	0	0	0	1	0	0	0	4163	1841	64	5	962	5	CYP2A13	19	41599643	Missense_Mutation	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	30465338	41599643	17529340	114	45005										
C20orf117	140710	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	35438421	35438421	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ttgaaattgtcggcctcctcCtttcgtagctgccgctcctg	9	14	0	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr20:35438421C>G	ENST00000357779.3	-	7	2159	c.1833G>C	c.(1831-1833)aaG>aaC	p.K611N	SOGA1_ENST00000456801.2_Missense_Mutation_p.K452N|SOGA1_ENST00000279034.6_Missense_Mutation_p.K611N|SOGA1_ENST00000237536.4_Missense_Mutation_p.K849N			O94964	SOGA1_HUMAN	suppressor of glucose, autophagy associated 1	611					insulin receptor signaling pathway (GO:0008286)|negative regulation of gluconeogenesis (GO:0045721)|regulation of autophagy (GO:0010506)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)				endometrium(5)|kidney(1)|lung(21)|urinary_tract(1)	28						CGGCCTCCTCCTTTCGTAGCT	0.602																																																0													30	32	31					20																	35438421		1994	4177	6171	SO:0001583	missense	140710			AK126630	CCDS46598.1, CCDS54459.1	20q11.23	2012-03-01	2012-02-27	2012-02-27	ENSG00000149639	ENSG00000149639			16111	protein-coding gene	gene with protein product	"suppressor of glucose by autophagy", "suppressor of glucose from autophagy"		"chromosome 20 open reading frame 117", "KIAA0889"	C20orf117, KIAA0889		20813965	Standard	NM_080627		Approved	dJ132F21.1, FLJ44670, SOGA	uc021wcx.1	O94964	OTTHUMG00000032395	ENST00000357779.3:c.1833G>C	20.37:g.35438421C>G	ENSP00000350424:p.Lys611Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A6NK10|Q14DB2|Q5JW51|Q6ZTG8	Missense_Mutation	SNP	ENST00000357779.3	37		.	.	.	.	.	.	.	.	.	.	C	19.13	3.768785	0.69878	.	.	ENSG00000149639	ENST00000237536;ENST00000279034;ENST00000456801;ENST00000357779	T;T;T;T	0.40756	1.02;1.02;1.02;1.02	5.15	0.757	0.18427	.	0.174867	0.47852	D	0.000216	T	0.30417	0.0764	L	0.36672	1.1	0.34718	D	0.728409	P	0.51351	0.944	B	0.44163	0.443	T	0.38564	-0.9655	10	0.31617	T	0.26	-53.0208	8.3632	0.32372	0.0:0.5833:0.0:0.4167	.	611	O94964-4	.	N	849;611;452;611	ENSP00000237536:K849N;ENSP00000279034:K611N;ENSP00000413886:K452N;ENSP00000350424:K611N	ENSP00000237536:K849N	K	-	3	2	KIAA0889	34871835	1.000000	0.71417	1.000000	0.80357	0.898000	0.52572	0.612000	0.24283	0.319000	0.23209	0.561000	0.74099	AAG		0.602	SOGA1-201	KNOWN	basic	protein_coding	protein_coding		NM_199181		G	35438421	C	G	35438421	3	3	691	1	0	0	0	0	1	0	0	0	2085	680	24	4	2536	4	C20orf117	20	35438421	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10		35438421	27587099	115	45006										
NPEPL1	79716	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	57282247	57282247	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ctgggggccttcagagccgcAatcaagcaggtgagtgggcc	16	11	2	2			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr20:57282247A>C	ENST00000356091.6	+	7	1179	c.891A>C	c.(889-891)gcA>gcC	p.A297A	NPEPL1_ENST00000525817.1_Silent_p.A249A|STX16-NPEPL1_ENST00000530122.1_3'UTR|NPEPL1_ENST00000525967.1_Silent_p.A269A	NM_024663.3	NP_078939.3	Q8NDH3	PEPL1_HUMAN	aminopeptidase-like 1	297						cytoplasm (GO:0005737)|nucleus (GO:0005634)	aminopeptidase activity (GO:0004177)|manganese ion binding (GO:0030145)|metalloexopeptidase activity (GO:0008235)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(7)|prostate(1)	14	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;2.88e-09)|Colorectal(105;0.109)			TCAGAGCCGCAATCAAGCAGG	0.687																																																0													11	17	15					20																	57282247		1969	4059	6028	SO:0001819	synonymous_variant	79716			AK021645	CCDS46621.1, CCDS56200.1, CCDS56201.1	20q13.32	2008-07-02			ENSG00000215440	ENSG00000215440			16244	protein-coding gene	gene with protein product						14702039	Standard	NM_001204872		Approved	FLJ11583, bA261P9.2	uc010zzs.1	Q8NDH3	OTTHUMG00000033060	ENST00000356091.6:c.891A>C	20.37:g.57282247A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NGZ0|B4DMW7|B7ZBN0|E9PN47|G5EA34|Q53G37|Q5W083|Q8TF28|Q8WUI2|Q9H1T6|Q9HAI5	Silent	SNP	ENST00000356091.6	37	CCDS46621.1																																																																																				0.687	NPEPL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080402.6	NM_024663		C	57282247	A	C	57282247	2	2	691	1	0	0	0	0	0	0	0	1	10581	117	5	5		5	NPEPL1	20	57282247	Silent	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10	21843826	57282247	5743273	116	45007										
RRP1B	23076	broad.mit.edu	37	chr21	45107950	45107950	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	aacagccacaccacgctgccCcagcgcaggaggctgcagaa	11	16	0	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr21:45107950C>G	ENST00000340648.4	+	13	1812	c.1695C>G	c.(1693-1695)ccC>ccG	p.P565P		NM_015056.2	NP_055871.1	Q14684	RRP1B_HUMAN	ribosomal RNA processing 1B	565					negative regulation of phosphatase activity (GO:0010923)|rRNA processing (GO:0006364)	cytosol (GO:0005829)|euchromatin (GO:0000791)|heterochromatin (GO:0000792)|nucleolus (GO:0005730)|nucleus (GO:0005634)|preribosome, small subunit precursor (GO:0030688)	poly(A) RNA binding (GO:0044822)			cervix(1)|endometrium(1)|kidney(3)|large_intestine(4)|lung(3)|ovary(1)|pancreas(1)|prostate(3)|skin(3)|stomach(1)	21				STAD - Stomach adenocarcinoma(101;0.178)		CCACGCTGCCCCAGCGCAGGA	0.632																																																0													12	14	13					21																	45107950		2190	4292	6482	SO:0001819	synonymous_variant	23076			AK124620	CCDS33577.1	21q22.3	2014-06-13	2013-07-02	2007-03-26	ENSG00000160208	ENSG00000160208			23818	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 136"	610654	"KIAA0179", "ribosomal RNA processing 1 homolog B (S. cerevisiae)"	KIAA0179			Standard	NM_015056		Approved	Nnp1, RRP1, PPP1R136	uc002zdk.3	Q14684	OTTHUMG00000086872	ENST00000340648.4:c.1695C>G	21.37:g.45107950C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TBZ4	Silent	SNP	ENST00000340648.4	37	CCDS33577.1																																																																																				0.632	RRP1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195651.1	NM_015056		G	45107950	C	G	45107950	2	3	691	1	0	0	0	0	0	0	0	1	13701	610	22	4		4	RRP1B	21	45107950	Silent	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10		45107950	3021945	117	45008										
KRTAP10-11	386678	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	46066418	46066418	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tctgctccagcgcttactccGactcctggcaggtggacgac	11	15	1	0	rs371095766		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr21:46066418G>A	ENST00000334670.8	+	1	88	c.43G>A	c.(43-45)Gac>Aac	p.D15N	TSPEAR_ENST00000323084.4_Intron	NM_198692.2	NP_941965.2	P60412	KR10B_HUMAN	keratin associated protein 10-11	15						keratin filament (GO:0045095)				NS(1)|endometrium(1)|large_intestine(1)|lung(6)|ovary(2)|prostate(1)	12						CGCTTACTCCGACTCCTGGCA	0.677																																																0								G	ASN/ASP,	0,4400		0,0,2200	61	67	65		43,	3.7	0.2	21		65	2,8586	2.2+/-6.3	0,2,4292	no	missense,intron	TSPEAR,KRTAP10-11	NM_198692.2,NM_144991.2	23,	0,2,6492	AA,AG,GG		0.0233,0.0,0.0154	probably-damaging,	15/299,	46066418	2,12986	2200	4294	6494	SO:0001583	missense	386678			AB076359	CCDS42962.1	21q22.3	2006-03-13	2004-07-12	2004-07-14	ENSG00000243489	ENSG00000243489		"Keratin associated proteins"	20528	protein-coding gene	gene with protein product			"keratin associated protein 10-11"	KRTAP18-11			Standard	NM_198692		Approved	KRTAP18.11, KAP18.11, KAP10.11	uc002zfr.4	P60412	OTTHUMG00000057626	ENST00000334670.8:c.43G>A	21.37:g.46066418G>A	ENSP00000334197:p.Asp15Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRF9	Missense_Mutation	SNP	ENST00000334670.8	37	CCDS42962.1	.	.	.	.	.	.	.	.	.	.	g	5.038	0.192708	0.09599	0.0	2.33E-4	ENSG00000243489	ENST00000334670	T	0.02812	4.15	3.71	3.71	0.42584	.	.	.	.	.	T	0.03011	0.0089	L	0.53617	1.68	0.09310	N	1	D	0.53462	0.96	B	0.31390	0.129	T	0.48670	-0.9015	9	0.25106	T	0.35	.	12.9535	0.58413	0.0:0.0:1.0:0.0	.	15	P60412	KR10B_HUMAN	N	15	ENSP00000334197:D15N	ENSP00000334197:D15N	D	+	1	0	KRTAP10-11	44890846	0.000000	0.05858	0.176000	0.23000	0.039000	0.13416	0.005000	0.13129	1.614000	0.50241	0.462000	0.41574	GAC		0.677	KRTAP10-11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128029.1	NM_198692		A	46066418	G	A	46066418	3	1	691	1	0	0	0	0	1	0	0	0	8514	1058	37	1	45	1	KRTAP10-11	21	46066418	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	958468	46066418	2063477	118	45009										
BID	637	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	18226632	18226632	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	atcagtctgcagctcatcgtAgccctcccactggggagcca	10	15	3	0			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr22:18226632A>G	ENST00000399774.3	-	3	329	c.160T>C	c.(160-162)Tac>Cac	p.Y54H	BID_ENST00000399767.1_5'UTR|BID_ENST00000551952.1_Missense_Mutation_p.Y54H|BID_ENST00000473439.1_5'UTR|BID_ENST00000342111.5_Missense_Mutation_p.Y54H|BID_ENST00000399765.1_Intron|BID_ENST00000317361.7_Missense_Mutation_p.Y100H	NM_001196.3|NM_001244569.1	NP_001187.1|NP_001231498.1	P55957	BID_HUMAN	BH3 interacting domain death agonist	54					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic mitochondrial changes (GO:0008637)|apoptotic process (GO:0006915)|brain development (GO:0007420)|establishment of protein localization to membrane (GO:0090150)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|glial cell apoptotic process (GO:0034349)|intrinsic apoptotic signaling pathway (GO:0097193)|neuron apoptotic process (GO:0051402)|positive regulation of apoptotic process (GO:0043065)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|positive regulation of mitochondrial outer membrane permeabilization involved in apoptotic signaling pathway (GO:1901030)|positive regulation of protein homooligomerization (GO:0032464)|positive regulation of protein insertion into mitochondrial membrane involved in apoptotic signaling pathway (GO:1900740)|positive regulation of protein oligomerization (GO:0032461)|positive regulation of release of cytochrome c from mitochondria (GO:0090200)|protein homooligomerization (GO:0051260)|protein targeting to mitochondrion (GO:0006626)|regulation of cell proliferation (GO:0042127)|regulation of G1/S transition of mitotic cell cycle (GO:2000045)|regulation of mitochondrial membrane permeability involved in apoptotic process (GO:1902108)|release of cytochrome c from mitochondria (GO:0001836)|response to estradiol (GO:0032355)|signal transduction in response to DNA damage (GO:0042770)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|integral component of mitochondrial membrane (GO:0032592)|membrane (GO:0016020)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)	death receptor binding (GO:0005123)			large_intestine(2)|ovary(1)	3		all_epithelial(15;0.198)		Lung(27;0.0419)		AGCTCATCGTAGCCCTCCCAC	0.632																																																0													49	50	50					22																	18226632		2203	4300	6503	SO:0001583	missense	637			AF042083	CCDS13747.1, CCDS13748.1, CCDS13749.1	22q11.2	2014-03-07			ENSG00000015475	ENSG00000015475		"Endogenous ligands"	1050	protein-coding gene	gene with protein product		601997				8918887, 9721221	Standard	NM_001244567		Approved		uc002znc.2	P55957	OTTHUMG00000150087	ENST00000399774.3:c.160T>C	22.37:g.18226632A>G	ENSP00000382674:p.Tyr54His	Somatic		WXS	Illumina HiSeq	Phase_I	Q549M7|Q71T04|Q7Z4M9|Q8IY86	Missense_Mutation	SNP	ENST00000399774.3	37	CCDS13748.1	.	.	.	.	.	.	.	.	.	.	A	14.79	2.641884	0.47153	.	.	ENSG00000015475	ENST00000317361;ENST00000399774;ENST00000342111;ENST00000551952	T;T;T;T	0.21734	1.99;1.99;1.99;1.99	5.08	-10.2	0.00374	.	2.388480	0.01610	N	0.022462	T	0.11623	0.0283	L	0.29908	0.895	0.09310	N	0.999994	B;B	0.02656	0.0;0.0	B;B	0.10450	0.002;0.005	T	0.13818	-1.0495	10	0.14656	T	0.56	.	7.3234	0.26540	0.4392:0.3405:0.2203:0.0	.	54;100	P55957;P55957-2	BID_HUMAN;.	H	100;54;54;54	ENSP00000318822:Y100H;ENSP00000382674:Y54H;ENSP00000344594:Y54H;ENSP00000449236:Y54H	ENSP00000318822:Y100H	Y	-	1	0	BID	16606632	0.000000	0.05858	0.000000	0.03702	0.036000	0.12997	-2.197000	0.01240	-1.410000	0.02035	-0.429000	0.05907	TAC		0.632	BID-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316178.1	NM_197966		G	18226632	A	G	18226632	3	3	691	1	0	0	0	0	1	0	0	0	1430	420	15	3	443	3	BID	22	18226632	Missense_Mutation	SNP	A	TCGA-MH-A55Z-01A-11D-A26P-10		18226632	33077934	119	45010										
NEFH	4744	hgsc.bcm.edu	37	chr22	29885562	29885562	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ccaagtctccaacgaaggagGaagcaaagtcccctgagaag	11	11	1	1	rs370929798		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr22:29885562G>A	ENST00000310624.6	+	4	1966	c.1933G>A	c.(1933-1935)Gaa>Aaa	p.E645K		NM_021076.3	NP_066554.2	P12036	NFH_HUMAN	neurofilament, heavy polypeptide	645	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.				axon development (GO:0061564)|axonogenesis (GO:0007409)|cell death (GO:0008219)|cell projection assembly (GO:0030031)|microtubule cytoskeleton organization (GO:0000226)|neurofilament bundle assembly (GO:0033693)|peripheral nervous system neuron axonogenesis (GO:0048936)|regulation of organelle transport along microtubule (GO:1902513)	axon (GO:0030424)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|neurofibrillary tangle (GO:0097418)|neurofilament (GO:0005883)	dynein binding (GO:0045502)|kinesin binding (GO:0019894)|microtubule binding (GO:0008017)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(12)|ovary(2)|skin(3)	30						AACGAAGGAGGAAGCAAAGTC	0.562																																																0													82	88	86					22																	29885562		2203	4300	6503	SO:0001583	missense	4744				CCDS13858.1	22q12.2	2013-01-16	2008-09-19		ENSG00000100285	ENSG00000100285		"Intermediate filaments type IV"	7737	protein-coding gene	gene with protein product		162230	"neurofilament, heavy polypeptide 200kDa"				Standard	NM_021076		Approved		uc003afo.3	P12036	OTTHUMG00000151155	ENST00000310624.6:c.1933G>A	22.37:g.29885562G>A	ENSP00000311997:p.Glu645Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYY4|Q96HF8|Q9UJS7|Q9UQ14	Missense_Mutation	SNP	ENST00000310624.6	37	CCDS13858.1	.	.	.	.	.	.	.	.	.	.	G	9.212	1.031217	0.19590	.	.	ENSG00000100285	ENST00000328842;ENST00000310624	D	0.83914	-1.78	4.97	4.97	0.65823	.	0.115504	0.38778	N	0.001569	D	0.87783	0.6264	L	0.61218	1.895	0.29104	N	0.881289	P	0.36712	0.566	P	0.52267	0.694	D	0.83526	0.0088	10	0.44086	T	0.13	.	16.1111	0.81263	0.0:0.0:1.0:0.0	.	645	P12036	NFH_HUMAN	K	645	ENSP00000311997:E645K	ENSP00000311997:E645K	E	+	1	0	NEFH	28215562	0.001000	0.12720	0.367000	0.25926	0.091000	0.18340	0.923000	0.28757	2.745000	0.94114	0.491000	0.48974	GAA		0.562	NEFH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321553.2	NM_021076		A	29885562	G	A	29885562	3	1	691	1	0	0	0	0	1	0	0	0	10321	1175	41	2	1947	2	NEFH	22	29885562	Missense_Mutation	SNP	G	TCGA-MH-A55Z-01A-11D-A26P-10	11658930	29885562	21419004	120	45011			1	134		3	3	77	N	T_G_-	4.21061e-08
NEFH	4744	broad.mit.edu	37	chr22	29885622	29885623	+	In_Frame_Ins	INS	-	-	AGGAAG													0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	agaggccaagtcccctgagaINSaggccaagtccccagtgaag					rs267607534|rs267607535		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr22:29885622_29885623insAGGAAG	ENST00000310624.6	+	4	2026_2027	c.1993_1994insAGGAAG	c.(1993-1995)aag>aAGGAAGag	p.665_666insEE		NM_021076.3	NP_066554.2	P12036	NFH_HUMAN	neurofilament, heavy polypeptide	671	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.				axon development (GO:0061564)|axonogenesis (GO:0007409)|cell death (GO:0008219)|cell projection assembly (GO:0030031)|microtubule cytoskeleton organization (GO:0000226)|neurofilament bundle assembly (GO:0033693)|peripheral nervous system neuron axonogenesis (GO:0048936)|regulation of organelle transport along microtubule (GO:1902513)	axon (GO:0030424)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|neurofibrillary tangle (GO:0097418)|neurofilament (GO:0005883)	dynein binding (GO:0045502)|kinesin binding (GO:0019894)|microtubule binding (GO:0008017)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(12)|ovary(2)|skin(3)	30						GTCCCCTGAGAAGGCCAAGTCC	0.579																																																0																																										SO:0001652	inframe_insertion	4744				CCDS13858.1	22q12.2	2013-01-16	2008-09-19		ENSG00000100285	ENSG00000100285		"Intermediate filaments type IV"	7737	protein-coding gene	gene with protein product		162230	"neurofilament, heavy polypeptide 200kDa"				Standard	NM_021076		Approved		uc003afo.3	P12036	OTTHUMG00000151155	Exception_encountered	22.37:g.29885622_29885623insAGGAAG	ENSP00000311997:p.Lys665_Ala666insGluGlu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYY4|Q96HF8|Q9UJS7|Q9UQ14	In_Frame_Ins	INS	ENST00000310624.6	37	CCDS13858.1																																																																																				0.579	NEFH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321553.2	NM_021076		AGGAAG	29885623	-	AGGAAG	29885622	7	5	691	1	0	1	1	0	0	0	0	0	10321	247	9	0	2007	0	NEFH	22	29885622	In_Frame_Ins	INS	-	TCGA-MH-A55Z-01A-11D-A26P-10	60	29885622	21418944	121	45012			1	134		3	3	77	N	T_G_-	4.21061e-08
NEFH	4744	hgsc.bcm.edu	37	chr22	29885638	29885638	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	tgagaaggccaagtccccagTgaaggcagaagcaaagtccc	12	11	0	3	rs267607535|rs190692435		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chr22:29885638T>A	ENST00000310624.6	+	4	2042	c.2009T>A	c.(2008-2010)gTg>gAg	p.V670E		NM_021076.3	NP_066554.2	P12036	NFH_HUMAN	neurofilament, heavy polypeptide	676	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.				axon development (GO:0061564)|axonogenesis (GO:0007409)|cell death (GO:0008219)|cell projection assembly (GO:0030031)|microtubule cytoskeleton organization (GO:0000226)|neurofilament bundle assembly (GO:0033693)|peripheral nervous system neuron axonogenesis (GO:0048936)|regulation of organelle transport along microtubule (GO:1902513)	axon (GO:0030424)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|neurofibrillary tangle (GO:0097418)|neurofilament (GO:0005883)	dynein binding (GO:0045502)|kinesin binding (GO:0019894)|microtubule binding (GO:0008017)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(12)|ovary(2)|skin(3)	30						AAGTCCCCAGTGAAGGCAGAA	0.562																																																0													93	100	98					22																	29885638		2203	4299	6502	SO:0001583	missense	4744				CCDS13858.1	22q12.2	2013-01-16	2008-09-19		ENSG00000100285	ENSG00000100285		"Intermediate filaments type IV"	7737	protein-coding gene	gene with protein product		162230	"neurofilament, heavy polypeptide 200kDa"				Standard	NM_021076		Approved		uc003afo.3	P12036	OTTHUMG00000151155	ENST00000310624.6:c.2009T>A	22.37:g.29885638T>A	ENSP00000311997:p.Val670Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYY4|Q96HF8|Q9UJS7|Q9UQ14	Missense_Mutation	SNP	ENST00000310624.6	37	CCDS13858.1	.	.	.	.	.	.	.	.	.	.	T	0	-2.746577	0.00086	.	.	ENSG00000100285	ENST00000328842;ENST00000310624	D	0.82344	-1.6	4.7	1.26	0.21427	.	1.045180	0.07584	N	0.920821	T	0.75162	0.3812	N	0.24115	0.695	0.09310	N	1	B	0.31640	0.333	B	0.41202	0.35	T	0.64050	-0.6498	10	0.45353	T	0.12	.	3.8398	0.08909	0.1553:0.2981:0.0:0.5465	.	676	P12036	NFH_HUMAN	E	670	ENSP00000311997:V670E	ENSP00000311997:V670E	V	+	2	0	NEFH	28215638	0.968000	0.33430	0.005000	0.12908	0.183000	0.23260	0.000000	0.12993	-0.045000	0.13468	0.402000	0.26972	GTG		0.562	NEFH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321553.2	NM_021076		A	29885638	T	A	29885638	3	1	691	1	0	0	0	0	1	0	0	0	10321	1696	59	5	2023	5	NEFH	22	29885638	Missense_Mutation	SNP	T	TCGA-MH-A55Z-01A-11D-A26P-10	16	29885638	21418928	122	45013			1	134		3	3	77	N	T_G_-	4.21061e-08
SFRS17A	8227	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	1719998	1719998	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	agctcctgtcgtgtggtcccCgaggatggctctccagagaa	13	12	1	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chrX:1719998C>T	ENST00000313871.3	+	5	1795	c.1599C>T	c.(1597-1599)ccC>ccT	p.P533P		NM_005088.2	NP_005079.2	Q02040	AK17A_HUMAN	A kinase (PRKA) anchor protein 17A	533					B cell activation (GO:0042113)|mRNA processing (GO:0006397)|regulation of RNA splicing (GO:0043484)|regulation of transcription, DNA-templated (GO:0006355)|RNA splicing (GO:0008380)|signal transduction (GO:0007165)	nuclear speck (GO:0016607)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein kinase A binding (GO:0051018)			breast(2)|endometrium(5)|kidney(3)|large_intestine(1)|lung(12)|prostate(3)	26						GTGTGGTCCCCGAGGATGGCT	0.657													c|||	1	0.000199681	0.0	0.0	5008	,	,		14923	0.001		0.0	False		,,,				2504	0.0															0													57	56	56					X																	1719998		2203	4296	6499	SO:0001819	synonymous_variant	8227			L03426	CCDS14116.1	Xp22.33 and Yp11.32	2010-09-08	2010-09-08	2010-09-08	ENSG00000197976	ENSG00000197976		"Pseudoautosomal regions / PAR1", "A-kinase anchor proteins"	18783	protein-coding gene	gene with protein product		312095, 465000	"chromosome X and Y open reading frame 3", "splicing factor, arginine/serine-rich 17A"	CXYorf3, SFRS17A		9736779, 1438229, 19840947	Standard	NR_027383		Approved	XE7, XE7Y, DXYS155E, MGC39904, 721P, CCDC133	uc004cqa.3	Q02040	OTTHUMG00000021063	ENST00000313871.3:c.1599C>T	X.37:g.1719998C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q02832|Q2TB98|Q5JQ74|Q5JQ76|Q8N6U9	Silent	SNP	ENST00000313871.3	37	CCDS14116.1																																																																																				0.657	AKAP17A-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055609.2	NM_005088		T	1719998	C	T	1719998	2	4	691	1	0	0	0	0	0	0	0	1	14186	639	23	1		1	SFRS17A	23	1719998	Silent	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10		1719998	153550562	123	45014										
LPAR4	2846	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	78010716	78010716	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0672268907563025	8	1	0.950743099787686	1.78264331210191	0.648233931673422	1	1	0	ctgcaagatctctggaactgCattccttaccaacatctatg	6	12	2	1			TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	g.chrX:78010716C>A	ENST00000435339.3	+	2	736	c.350C>A	c.(349-351)gCa>gAa	p.A117E		NM_005296.2	NP_005287.1	Q99677	LPAR4_HUMAN	lysophosphatidic acid receptor 4	117					G-protein coupled receptor signaling pathway (GO:0007186)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|lipid binding (GO:0008289)			breast(3)|endometrium(3)|kidney(4)|large_intestine(4)|lung(16)|ovary(4)|pancreas(1)|skin(1)|upper_aerodigestive_tract(2)	38						TCTGGAACTGCATTCCTTACC	0.423																																																0													190	152	165					X																	78010716		2203	4299	6502	SO:0001583	missense	2846			U90322	CCDS14441.1	Xq21.1	2012-08-08	2008-04-11	2008-04-11	ENSG00000147145	ENSG00000147145		"GPCR / Class A : Lysophospholipid receptors : Lysophosphatidic acid"	4478	protein-coding gene	gene with protein product		300086	"G protein-coupled receptor 23"	GPR23			Standard	NM_005296		Approved	P2Y9, P2Y5-LIKE, P2RY9, LPA4	uc010nme.3	Q99677	OTTHUMG00000021895	ENST00000435339.3:c.350C>A	X.37:g.78010716C>A	ENSP00000408205:p.Ala117Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAC7|O15132|Q502U9|Q6NSP5	Missense_Mutation	SNP	ENST00000435339.3	37	CCDS14441.1	.	.	.	.	.	.	.	.	.	.	C	16.01	3.002367	0.54254	.	.	ENSG00000147145	ENST00000435339;ENST00000373301	T;T	0.38077	1.16;1.16	4.21	4.21	0.49690	GPCR, rhodopsin-like superfamily (1);	0.000000	0.85682	D	0.000000	T	0.59293	0.2183	M	0.80183	2.485	0.50171	D	0.999859	D	0.63880	0.993	D	0.63877	0.919	T	0.66771	-0.5839	10	0.72032	D	0.01	.	14.3969	0.67018	0.0:1.0:0.0:0.0	.	117	Q99677	LPAR4_HUMAN	E	117	ENSP00000408205:A117E;ENSP00000362398:A117E	ENSP00000362398:A117E	A	+	2	0	LPAR4	77897372	1.000000	0.71417	1.000000	0.80357	0.928000	0.56348	4.452000	0.60054	1.943000	0.56356	0.422000	0.28245	GCA		0.423	LPAR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057322.2	NM_005296		A	78010716	C	A	78010716	3	1	691	1	0	0	0	0	1	0	0	0	8914	710	25	4	352	4	LPAR4	23	78010716	Missense_Mutation	SNP	C	TCGA-MH-A55Z-01A-11D-A26P-10	76290718	78010716	77259844	124	45015										
MECR	51102	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	29557328	29557328	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	ggatgcggagtaggaggaggCggcaggtccgtgacagccag	20	8	0	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr1:29557328C>T	ENST00000263702.6	-	1	116	c.91G>A	c.(91-93)Gcc>Acc	p.A31T	MECR_ENST00000489248.1_5'UTR|MECR_ENST00000373791.3_5'UTR			Q9BV79	MECR_HUMAN	mitochondrial trans-2-enoyl-CoA reductase	31					fatty acid biosynthetic process (GO:0006633)|fatty acid metabolic process (GO:0006631)	mitochondrion (GO:0005739)	trans-2-enoyl-CoA reductase (NADPH) activity (GO:0019166)|zinc ion binding (GO:0008270)			NS(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(1)|ovary(2)|prostate(1)	11		Colorectal(325;0.000389)|Breast(348;0.00765)|Lung NSC(340;0.0081)|all_lung(284;0.00914)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.39e-07)|COAD - Colon adenocarcinoma(152;2.04e-05)|STAD - Stomach adenocarcinoma(196;0.0195)|BRCA - Breast invasive adenocarcinoma(304;0.053)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.137)		TAGGAGGAGGCGGCAGGTCCG	0.701																																																0													9	12	11					1																	29557328		2186	4279	6465	SO:0001583	missense	51102				CCDS30659.1, CCDS30660.1	1p35.3	2012-09-20			ENSG00000116353	ENSG00000116353	1.3.1.38		19691	protein-coding gene	gene with protein product	"nuclear receptor binding factor 1", "mitochondrial 2-enoyl thioester reductase"	608205				9795230, 12654921	Standard	XM_005245885		Approved	CGI-63, NRBF1, FASN2B	uc001brq.1	Q9BV79	OTTHUMG00000059082	ENST00000263702.6:c.91G>A	1.37:g.29557328C>T	ENSP00000263702:p.Ala31Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KT72|Q5SYU0|Q5SYU1|Q5SYU2|Q6IBU9|Q9Y373	Missense_Mutation	SNP	ENST00000263702.6	37	CCDS30659.1	.	.	.	.	.	.	.	.	.	.	C	13.00	2.106638	0.37145	.	.	ENSG00000116353	ENST00000263702	T	0.03496	3.91	4.92	-0.97	0.10306	.	1.626230	0.03313	N	0.190804	T	0.02807	0.0084	N	0.19112	0.55	0.09310	N	1	B	0.11235	0.004	B	0.04013	0.001	T	0.44817	-0.9303	9	.	.	.	.	4.5591	0.12151	0.5172:0.3021:0.0:0.1807	.	31	Q9BV79	MECR_HUMAN	T	31	ENSP00000263702:A31T	.	A	-	1	0	MECR	29429915	0.000000	0.05858	0.002000	0.10522	0.434000	0.31775	-1.074000	0.03427	-0.262000	0.09392	-0.140000	0.14226	GCC		0.701	MECR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130740.1	NM_016011		T	29557328	C	T	29557328	3	4	692	1	0	0	0	0	1	0	0	0	9431	768	27	1	1070	1	MECR	1	29557328	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10		29557328	219693293	1	45016										
EIF2C3	192669	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	36475164	36475164	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	caaggcaacagcaagatctgCaccagatagacaagaggaaa	10	9	1	4			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr1:36475164C>T	ENST00000373191.4	+	9	1467	c.1118C>T	c.(1117-1119)gCa>gTa	p.A373V	AGO3_ENST00000246314.6_Missense_Mutation_p.A139V|RP4-665N4.8_ENST00000479395.2_RNA|RP4-665N4.8_ENST00000466576.2_RNA	NM_024852.3	NP_079128.2	Q9H9G7	AGO3_HUMAN	argonaute RISC catalytic component 3	373					epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|innate immune response (GO:0045087)|mRNA catabolic process (GO:0006402)|negative regulation of translation involved in gene silencing by miRNA (GO:0035278)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch signaling pathway (GO:0007219)|phosphatidylinositol-mediated signaling (GO:0048015)|regulation of stem cell proliferation (GO:0072091)	cytosol (GO:0005829)|membrane (GO:0016020)|micro-ribonucleoprotein complex (GO:0035068)|RISC complex (GO:0016442)	miRNA binding (GO:0035198)|poly(A) RNA binding (GO:0044822)										GCAAGATCTGCACCAGATAGA	0.378																																																0													105	98	100					1																	36475164		2203	4300	6503	SO:0001583	missense	192669			AB046787	CCDS399.1, CCDS400.1	1p34	2013-06-03	2013-02-15	2013-02-15	ENSG00000126070	ENSG00000126070		"Argonaute/PIWI family"	18421	protein-coding gene	gene with protein product	"argonaute 3"	607355	"eukaryotic translation initiation factor 2C, 3"	EIF2C3		12906857	Standard	NM_024852		Approved	hAGO3, FLJ12765	uc001bzp.3	Q9H9G7	OTTHUMG00000184172	ENST00000373191.4:c.1118C>T	1.37:g.36475164C>T	ENSP00000362287:p.Ala373Val	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALI0|Q5TA55|Q9H1U6	Missense_Mutation	SNP	ENST00000373191.4	37	CCDS399.1	.	.	.	.	.	.	.	.	.	.	C	36	5.888335	0.97068	.	.	ENSG00000126070	ENST00000373191;ENST00000246314	T;T	0.10960	2.82;2.82	6.17	6.17	0.99709	Argonaute/Dicer protein, PAZ (1);	0.000000	0.85682	D	0.000000	T	0.45135	0.1327	M	0.93283	3.4	0.80722	D	1	D	0.71674	0.998	P	0.62491	0.903	T	0.55023	-0.8205	10	0.87932	D	0	-12.0124	20.8794	0.99867	0.0:1.0:0.0:0.0	.	373	Q9H9G7	AGO3_HUMAN	V	373;139	ENSP00000362287:A373V;ENSP00000246314:A139V	ENSP00000246314:A139V	A	+	2	0	EIF2C3	36247751	1.000000	0.71417	0.995000	0.50966	0.982000	0.71751	7.818000	0.86416	2.941000	0.99782	0.655000	0.94253	GCA		0.378	AGO3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019831.4	NM_024852		T	36475164	C	T	36475164	3	4	692	1	0	0	0	0	1	0	0	0	5009	710	25	2	1152	2	EIF2C3	1	36475164	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	6917836	36475164	212775457	2	45017										
INTS3	65123	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	153740253	153740253	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tggacatgaaggcctgccagGaggacgatgtgcggctcctg	16	10	0	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr1:153740253G>T	ENST00000318967.2	+	21	2762	c.2194G>T	c.(2194-2196)Gag>Tag	p.E732*	INTS3_ENST00000435409.2_Nonsense_Mutation_p.E732*|INTS3_ENST00000476843.1_3'UTR|INTS3_ENST00000512605.1_Nonsense_Mutation_p.E526*|INTS3_ENST00000456435.1_Nonsense_Mutation_p.E526*	NM_023015.3	NP_075391.3	Q68E01	INT3_HUMAN	integrator complex subunit 3	733					cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|mitotic cell cycle checkpoint (GO:0007093)|response to ionizing radiation (GO:0010212)|snRNA processing (GO:0016180)	integrator complex (GO:0032039)|nucleus (GO:0005634)|SOSS complex (GO:0070876)				breast(1)|cervix(4)|endometrium(10)|kidney(1)|large_intestine(6)|lung(9)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	38	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)			GGCCTGCCAGGAGGACGATGT	0.612																																																0													113	94	100					1																	153740253		2203	4300	6503	SO:0001587	stop_gained	65123			BX640950	CCDS1052.1	1q21.3	2012-03-16	2006-03-15	2006-03-15	ENSG00000143624	ENSG00000143624			26153	protein-coding gene	gene with protein product	"sensor of single-strand DNA complex subunit A"	611347	"chromosome 1 open reading frame 60"	C1orf60		16239144	Standard	NM_023015		Approved	FLJ21919, INT3, SOSS-A	uc001fct.3	Q68E01	OTTHUMG00000037089	ENST00000318967.2:c.2194G>T	1.37:g.153740253G>T	ENSP00000318641:p.Glu732*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1W0|B4DQC8|B4E3U9|D3DV57|Q4G0E5|Q5VUQ5|Q5VUQ6|Q5VUR0|Q5VUR1|Q68DJ1|Q69YR5|Q6AI57|Q6DKG7|Q6MZQ4|Q6MZZ9|Q8NC46|Q8TB23|Q9H6S9	Nonsense_Mutation	SNP	ENST00000318967.2	37	CCDS1052.1	.	.	.	.	.	.	.	.	.	.	G	42	9.404468	0.99161	.	.	ENSG00000143624	ENST00000318967;ENST00000456435;ENST00000435409;ENST00000512605	.	.	.	5.84	5.84	0.93424	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.20046	T	0.44	.	15.6279	0.76878	0.0:0.0:1.0:0.0	.	.	.	.	X	732;526;732;526	.	ENSP00000318641:E732X	E	+	1	0	INTS3	152006877	1.000000	0.71417	1.000000	0.80357	0.927000	0.56198	9.055000	0.93873	2.768000	0.95171	0.561000	0.74099	GAG		0.612	INTS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090045.2	NM_023015		T	153740253	G	T	153740253	4	4	692	1	0	0	0	0	0	1	0	0	7786	1175	41	4	2276	4	INTS3	1	153740253	Nonsense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	117265089	153740253	95510368	3	45018										
CFH	3075	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	196654324	196654324	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gcaacccggggaaatacagcAaaatgcacaagtactggctg	11	10	0	0	rs1061147	byFrequency	TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr1:196654324A>G	ENST00000359637.2	+	6	791	c.729A>G	c.(727-729)gcA>gcG	p.A243A	CFH_ENST00000367429.4_Silent_p.A307A|CFH_ENST00000439155.2_Silent_p.A307A			P08603	CFAH_HUMAN	complement factor H	307	Sushi 4. {ECO:0000255|PROSITE- ProRule:PRU00302}.				complement activation (GO:0006956)|complement activation, alternative pathway (GO:0006957)|innate immune response (GO:0045087)|regulation of complement activation (GO:0030449)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	heparan sulfate proteoglycan binding (GO:0043395)|heparin binding (GO:0008201)			NS(3)|breast(4)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(8)|large_intestine(24)|lung(33)|ovary(1)|prostate(5)|skin(9)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	101						GAAATACAGCAAAATGCACAA	0.393																																																0			GRCh37	CM057396	CFH	M	rs1061147						119	108	112					1																	196654324		2203	4300	6503	SO:0001819	synonymous_variant	3075			Y00716	CCDS1385.1	1q32	2014-09-17	2004-08-09	2004-08-12	ENSG00000000971	ENSG00000000971		"Complement system"	4883	protein-coding gene	gene with protein product	"beta-1H", "H factor 2 (complement)", "age-related maculopathy susceptibility 1"	134370	"H factor 1 (complement)"	HF, HF1, HF2		2889480, 2963625	Standard	NM_000186		Approved	HUS, FHL1, ARMS1, ARMD4	uc001gtj.4	P08603	OTTHUMG00000035607	ENST00000359637.2:c.729A>G	1.37:g.196654324A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A5PL14|P78435|Q14570|Q2TAZ5|Q38G77|Q5TFM3|Q8N708|Q9NU86	Silent	SNP	ENST00000359637.2	37																																																																																					0.393	CFH-002	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000087502.1	NM_000186		G	196654324	A	G	196654324	2	3	692	1	0	0	0	0	0	0	0	1	3285	117	5	3		3	CFH	1	196654324	Silent	SNP	A	TCGA-MH-A560-01A-11D-A26P-10	42914071	196654324	52596297	4	45019										
PTPRC	5788	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	198678922	198678922	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	aataaccacaagtttactaaCgcaagtaaaattattaaaac	3	7	0	0	rs200643724		TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr1:198678922C>T	ENST00000367376.2	+	11	1305	c.1134C>T	c.(1132-1134)aaC>aaT	p.N378N	PTPRC_ENST00000348564.6_Silent_p.N219N|PTPRC_ENST00000442510.2_Silent_p.N380N|PTPRC_ENST00000352140.3_Silent_p.N330N|PTPRC_ENST00000594404.1_Silent_p.N217N	NM_002838.4	NP_002829.3	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	378					axon guidance (GO:0007411)|B cell proliferation (GO:0042100)|B cell receptor signaling pathway (GO:0050853)|bone marrow development (GO:0048539)|cell cycle phase transition (GO:0044770)|cell surface receptor signaling pathway (GO:0007166)|defense response to virus (GO:0051607)|dephosphorylation (GO:0016311)|hematopoietic progenitor cell differentiation (GO:0002244)|immunoglobulin biosynthetic process (GO:0002378)|negative regulation of cell adhesion involved in substrate-bound cell migration (GO:0006933)|negative regulation of cytokine-mediated signaling pathway (GO:0001960)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of T cell mediated cytotoxicity (GO:0001915)|peptidyl-tyrosine dephosphorylation (GO:0035335)|positive regulation of antigen receptor-mediated signaling pathway (GO:0050857)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of hematopoietic stem cell migration (GO:2000473)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of stem cell proliferation (GO:2000648)|positive regulation of T cell proliferation (GO:0042102)|protein dephosphorylation (GO:0006470)|regulation of cell cycle (GO:0051726)|release of sequestered calcium ion into cytosol (GO:0051209)|stem cell development (GO:0048864)|T cell differentiation (GO:0030217)|T cell receptor signaling pathway (GO:0050852)	external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	protein kinase binding (GO:0019901)|protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			breast(7)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(22)|lung(41)|ovary(4)|pancreas(2)|prostate(1)|skin(13)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(3)	111						AGTTTACTAACGCAAGTAAAA	0.269																																																0								C	,	0,4398		0,0,2199	74	89	84		1134,651	-9	0	1		84	2,8534	2.2+/-6.3	0,2,4266	no	coding-synonymous,coding-synonymous	PTPRC	NM_002838.3,NM_080921.2	,	0,2,6465	TT,TC,CC		0.0234,0.0,0.0155	,	378/1305,217/1144	198678922	2,12932	2199	4268	6467	SO:0001819	synonymous_variant	5788			Y00062	CCDS1397.1, CCDS1398.1, CCDS44291.1, CCDS1397.2, CCDS1398.2, CCDS44291.2	1q31-q32	2014-09-17			ENSG00000081237	ENSG00000081237		"CD molecules", "Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Fibronectin type III domain containing"	9666	protein-coding gene	gene with protein product		151460		CD45		2169617	Standard	NM_001267798		Approved	LCA, T200, GP180	uc001gur.2	P08575	OTTHUMG00000035702	ENST00000367376.2:c.1134C>T	1.37:g.198678922C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7W6|Q16614|Q9H0Y6	Silent	SNP	ENST00000367376.2	37																																																																																					0.269	PTPRC-202	KNOWN	basic|appris_candidate	protein_coding	protein_coding				T	198678922	C	T	198678922	2	4	692	1	0	0	0	0	0	0	0	1	12810	535	19	1		1	PTPRC	1	198678922	Silent	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	2024598	198678922	50571699	5	45020										
GPR37L1	9283	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	202097357	202097357	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gtctacgccttctgcaccctCccagagaacgtctgcaacat	7	16	3	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr1:202097357C>T	ENST00000367282.5	+	2	1225	c.1119C>T	c.(1117-1119)ctC>ctT	p.L373L		NM_004767.3	NP_004758.3	O60883	ETBR2_HUMAN	G protein-coupled receptor 37 like 1	373					negative regulation of astrocyte differentiation (GO:0048712)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of smoothened signaling pathway (GO:0045879)|positive regulation of cerebellar granule cell precursor proliferation (GO:0021940)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	G-protein coupled receptor activity (GO:0004930)			central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(5)|ovary(1)|prostate(2)	18						TCTGCACCCTCCCAGAGAACG	0.622																																																0													157	139	145					1																	202097357		2203	4300	6503	SO:0001819	synonymous_variant	9283			AJ310210	CCDS1420.1	1q32	2012-08-21	2006-02-15		ENSG00000170075	ENSG00000170075		"GPCR / Class A : Orphans"	14923	protein-coding gene	gene with protein product						9539149	Standard	NM_004767		Approved	ETBR-LP-2	uc001gxj.3	O60883	OTTHUMG00000035924	ENST00000367282.5:c.1119C>T	1.37:g.202097357C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R7M9|Q5SXP7|Q86VP7	Silent	SNP	ENST00000367282.5	37	CCDS1420.1																																																																																				0.622	GPR37L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087496.2	NM_004767		T	202097357	C	T	202097357	2	4	692	1	0	0	0	0	0	0	0	1	6699	842	30	2		2	GPR37L1	1	202097357	Silent	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	3418435	202097357	47153264	6	45021										
RCOR3	55758	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	211449723	211449723	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	cctatttgaacaagcctttaGttttcatggaaagagctttc	7	8	1	2			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr1:211449723G>C	ENST00000367005.4	+	4	446	c.305G>C	c.(304-306)aGt>aCt	p.S102T	RCOR3_ENST00000452621.2_Missense_Mutation_p.S160T|RCOR3_ENST00000419091.2_Missense_Mutation_p.S160T|RCOR3_ENST00000367006.4_Missense_Mutation_p.S160T	NM_018254.3	NP_060724.1	Q9P2K3	RCOR3_HUMAN	REST corepressor 3	102	SANT 1. {ECO:0000255|PROSITE- ProRule:PRU00624}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			breast(1)|endometrium(1)|kidney(2)|large_intestine(6)|lung(6)|ovary(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	21				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)		CAAGCCTTTAGTTTTCATGGA	0.363																																																0													164	162	163					1																	211449723		2203	4300	6503	SO:0001583	missense	55758			AK001738	CCDS31016.1, CCDS44312.1, CCDS44313.1, CCDS44314.1	1q32.3	2008-02-05			ENSG00000117625	ENSG00000117625			25594	protein-coding gene	gene with protein product						10718198	Standard	NM_018254		Approved	FLJ10876	uc010psw.2	Q9P2K3	OTTHUMG00000036996	ENST00000367005.4:c.305G>C	1.37:g.211449723G>C	ENSP00000355972:p.Ser102Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KYA2|B4DYY7|Q5VT47|Q7L9I5|Q8N5U3|Q9NV83	Missense_Mutation	SNP	ENST00000367005.4	37	CCDS31016.1	.	.	.	.	.	.	.	.	.	.	G	23.6	4.435982	0.83885	.	.	ENSG00000117625	ENST00000533469;ENST00000367006;ENST00000452621;ENST00000419091;ENST00000367005	T;T;T;T;T	0.28666	1.6;1.6;1.6;1.6;1.6	5.02	5.02	0.67125	SANT domain, DNA binding (1);Homeodomain-like (1);SANT, eukarya (1);	0.000000	0.85682	D	0.000000	T	0.45377	0.1339	L	0.35542	1.07	0.80722	D	1	D;B;B;B	0.56035	0.974;0.065;0.364;0.389	D;B;B;B	0.70487	0.969;0.066;0.341;0.198	T	0.21177	-1.0253	9	.	.	.	-4.1499	18.6937	0.91593	0.0:0.0:1.0:0.0	.	160;102;160;160	Q9P2K3-3;Q9P2K3;Q9P2K3-2;Q9P2K3-4	.;RCOR3_HUMAN;.;.	T	102;160;160;160;102	ENSP00000436838:S102T;ENSP00000355973:S160T;ENSP00000398558:S160T;ENSP00000413929:S160T;ENSP00000355972:S102T	.	S	+	2	0	RCOR3	209516346	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.639000	0.98448	2.495000	0.84180	0.484000	0.47621	AGT		0.363	RCOR3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000089821.1	NM_018254		C	211449723	G	C	211449723	3	2	692	1	0	0	0	0	1	0	0	0	13197	1029	36	4	497	4	RCOR3	1	211449723	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	9352366	211449723	37800898	7	45022										
CENPF	1063	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	214815375	214815375	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	aggaaagtgagaaggagaagGagtgcctgcagcatgaatta	15	4	0	3			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr1:214815375G>T	ENST00000366955.3	+	12	3862	c.3694G>T	c.(3694-3696)Gag>Tag	p.E1232*		NM_016343.3	NP_057427.3	P49454	CENPF_HUMAN	centromere protein F, 350/400kDa	0					cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|chromosome segregation (GO:0007059)|DNA replication (GO:0006260)|G2/M transition of mitotic cell cycle (GO:0000086)|kinetochore assembly (GO:0051382)|metaphase plate congression (GO:0051310)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|muscle organ development (GO:0007517)|negative regulation of transcription, DNA-templated (GO:0045892)|protein transport (GO:0015031)|regulation of cell cycle (GO:0051726)|regulation of G2/M transition of mitotic cell cycle (GO:0010389)|regulation of striated muscle tissue development (GO:0016202)|response to drug (GO:0042493)	chromosome, centromeric region (GO:0000775)|condensed chromosome outer kinetochore (GO:0000940)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinetochore (GO:0000776)|midbody (GO:0030496)|nuclear envelope (GO:0005635)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)|pronucleus (GO:0045120)|spindle (GO:0005819)|spindle pole (GO:0000922)	chromatin binding (GO:0003682)|dynein binding (GO:0045502)|protein C-terminus binding (GO:0008022)|protein homodimerization activity (GO:0042803)|transcription factor binding (GO:0008134)	p.E1232*(1)		NS(2)|breast(2)|central_nervous_system(4)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(37)|lung(47)|ovary(7)|prostate(3)|skin(6)|stomach(1)|urinary_tract(1)	126				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		GAAGGAGAAGGAGTGCCTGCA	0.373																																					Colon(80;575 1284 11000 14801 43496)											1	Substitution - Nonsense(1)	lung(1)											42	46	45					1																	214815375		2203	4298	6501	SO:0001587	stop_gained	1063			U30872	CCDS31023.1	1q41	2013-11-05	2013-01-17		ENSG00000117724	ENSG00000117724			1857	protein-coding gene	gene with protein product	"mitosin"	600236	"centromere protein F, 350/400kDa (mitosin)"			7904902, 7851898	Standard	NM_016343		Approved	hcp-1	uc001hkm.3	P49454	OTTHUMG00000036955	ENST00000366955.3:c.3694G>T	1.37:g.214815375G>T	ENSP00000355922:p.Glu1232*	Somatic		WXS	Illumina HiSeq	Phase_I	Q13171|Q13246|Q5VVM7	Nonsense_Mutation	SNP	ENST00000366955.3	37	CCDS31023.1	.	.	.	.	.	.	.	.	.	.	G	42	9.517275	0.99193	.	.	ENSG00000117724	ENST00000366955	.	.	.	5.17	2.19	0.27852	.	1.270870	0.05898	N	0.629477	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.40728	T	0.16	.	6.3943	0.21603	0.1645:0.1498:0.6857:0.0	.	.	.	.	X	1232	.	ENSP00000355922:E1232X	E	+	1	0	CENPF	212881998	0.848000	0.29623	0.000000	0.03702	0.898000	0.52572	0.913000	0.28611	0.168000	0.19655	0.511000	0.50034	GAG		0.373	CENPF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089749.1	NM_016343		T	214815375	G	T	214815375	4	4	692	1	0	0	0	0	0	1	0	0	3233	1175	41	4	3736	4	CENPF	1	214815375	Nonsense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	3365652	214815375	34435246	8	45023										
CAPN2	824	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	223959597	223959597	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tcgattttgataattttgttCggtgtttggttcggctggaa	12	4	0	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr1:223959597C>G	ENST00000295006.5	+	19	2299	c.1990C>G	c.(1990-1992)Cgg>Ggg	p.R664G	CAPN2_ENST00000474026.1_3'UTR|CAPN2_ENST00000433674.2_Missense_Mutation_p.R586G	NM_001748.4	NP_001739	P17655	CAN2_HUMAN	calpain 2, (m/II) large subunit	664	Domain IV.				blastocyst development (GO:0001824)|cellular response to amino acid stimulus (GO:0071230)|myoblast fusion (GO:0007520)|protein autoprocessing (GO:0016540)|proteolysis (GO:0006508)|proteolysis involved in cellular protein catabolic process (GO:0051603)|regulation of cytoskeleton organization (GO:0051493)|response to hypoxia (GO:0001666)	chromatin (GO:0000785)|cortical actin cytoskeleton (GO:0030864)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi apparatus (GO:0005794)|membrane raft (GO:0045121)|nucleus (GO:0005634)|perinuclear endoplasmic reticulum (GO:0097038)|plasma membrane (GO:0005886)|pseudopodium (GO:0031143)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)|cysteine-type peptidase activity (GO:0008234)|cytoskeletal protein binding (GO:0008092)			breast(3)|endometrium(1)|kidney(1)|large_intestine(9)|lung(10)|prostate(1)|skin(1)|stomach(3)	29				GBM - Glioblastoma multiforme(131;0.109)		TAATTTTGTTCGGTGTTTGGT	0.443																																																0													239	216	224					1																	223959597		2203	4300	6503	SO:0001583	missense	824			J04700	CCDS31035.1, CCDS53478.1	1q41-q42	2013-01-10			ENSG00000162909	ENSG00000162909	3.4.22.52	"EF-hand domain containing"	1479	protein-coding gene	gene with protein product		114230				2852952, 2539381	Standard	NM_001748		Approved	mCANP, CANPml, CANPL2	uc001hob.4	P17655	OTTHUMG00000037376	ENST00000295006.5:c.1990C>G	1.37:g.223959597C>G	ENSP00000295006:p.Arg664Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDG7|B7ZA96|E7ES58|Q16738|Q6PJT3|Q8WU26|Q9HBB1	Missense_Mutation	SNP	ENST00000295006.5	37	CCDS31035.1	.	.	.	.	.	.	.	.	.	.	C	13.60	2.284324	0.40394	.	.	ENSG00000162909	ENST00000433674;ENST00000295006;ENST00000366869	T;T	0.30981	1.51;1.51	5.63	4.72	0.59763	EF-hand-like domain (1);	0.323633	0.33712	N	0.004621	T	0.21387	0.0515	L	0.27053	0.805	0.51767	D	0.999932	B;B;B	0.29955	0.058;0.151;0.263	B;B;B	0.31016	0.074;0.123;0.114	T	0.05733	-1.0867	10	0.35671	T	0.21	.	9.67	0.40006	0.1402:0.7874:0.0:0.0724	.	586;247;664	B7ZA96;B3KUH9;P17655	.;.;CAN2_HUMAN	G	586;664;693	ENSP00000413158:R586G;ENSP00000295006:R664G	ENSP00000295006:R664G	R	+	1	2	CAPN2	222026220	0.061000	0.20836	0.881000	0.34555	0.995000	0.86356	0.282000	0.18829	1.377000	0.46286	0.561000	0.74099	CGG		0.443	CAPN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090973.1	NM_001748		G	223959597	C	G	223959597	3	3	692	1	0	0	0	0	1	0	0	0	2629	875	31	4	2071	4	CAPN2	1	223959597	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	9144222	223959597	25291024	9	45024										
SNAP47	116841	hgsc.bcm.edu;bcgsc.ca	37	chr1	227946738	227946738	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	cctgcttggtggccctttagCtccaagctttggaagacacc	10	13	0	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr1:227946738C>A	ENST00000366759.4	+	3	1089	c.675C>A	c.(673-675)agC>agA	p.S225R	SNAP47_ENST00000366760.1_5'UTR|SNAP47_ENST00000315781.5_Missense_Mutation_p.S225R	NM_053052.3	NP_444280.2	Q5SQN1	SNP47_HUMAN	synaptosomal-associated protein, 47kDa	225					long-term synaptic potentiation (GO:0060291)	cytoplasm (GO:0005737)|dendrite (GO:0030425)|membrane (GO:0016020)|neuronal cell body (GO:0043025)				endometrium(1)|large_intestine(5)|liver(2)|lung(6)|ovary(1)|stomach(1)|upper_aerodigestive_tract(1)	17						GGCCCTTTAGCTCCAAGCTTT	0.433																																																0													86	94	91					1																	227946738		2203	4300	6503	SO:0001583	missense	116841			AY090635	CCDS1562.1	1q42.13	2013-10-11	2008-10-27	2008-10-27	ENSG00000143740	ENSG00000143740			30669	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 142"	C1orf142		16621800	Standard	NM_053052		Approved	SVAP1, SNAP-47	uc001hrf.2	Q5SQN1	OTTHUMG00000037697	ENST00000366759.4:c.675C>A	1.37:g.227946738C>A	ENSP00000355721:p.Ser225Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B6EDE0|Q5HYB5|Q5TBZ3|Q8N558|Q8TB31|Q8TCW8|Q8WV46|Q96CQ3|Q96FE1|Q96I66|Q96NU3|Q9BT10|Q9BVB2	Missense_Mutation	SNP	ENST00000366759.4	37	CCDS1562.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	10.74|10.74	1.434984|1.434984	0.25813|0.25813	.|.	.|.	ENSG00000143740|ENSG00000143740	ENST00000418653;ENST00000426344|ENST00000366759;ENST00000315781	.|T;T	.|0.17054	.|2.3;2.3	4.95|4.95	0.434|0.434	0.16539|0.16539	.|.	.|0.129162	.|0.64402	.|D	.|0.000001	T|T	0.31231|0.31231	0.0790|0.0790	M|M	0.78637|0.78637	2.42|2.42	0.30113|0.30113	N|N	0.8064|0.8064	.|D;D	.|0.67145	.|0.989;0.996	.|P;P	.|0.61201	.|0.885;0.885	T|T	0.20638|0.20638	-1.0269|-1.0269	5|10	.|0.26408	.|T	.|0.33	-7.4349|-7.4349	8.0504|8.0504	0.30575|0.30575	0.0:0.4696:0.0:0.5304|0.0:0.4696:0.0:0.5304	.|.	.|225;225	.|Q5SQN1;Q5SQN1-2	.|SNP47_HUMAN;.	I|R	38;217|225	.|ENSP00000355721:S225R;ENSP00000314157:S225R	.|ENSP00000314157:S225R	L|S	+|+	1|3	0|2	SNAP47|SNAP47	226013361|226013361	0.994000|0.994000	0.37717|0.37717	0.678000|0.678000	0.29963|0.29963	0.565000|0.565000	0.35776|0.35776	0.206000|0.206000	0.17375|0.17375	-0.047000|-0.047000	0.13423|0.13423	0.561000|0.561000	0.74099|0.74099	CTC|AGC		0.433	SNAP47-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091961.1	NM_053052		A	227946738	C	A	227946738	3	1	692	1	0	0	0	0	1	0	0	0	14845	796	28	4	685	4	SNAP47	1	227946738	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	3987141	227946738	21303883	10	45025										
SDCCAG8	10806	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	243419490	243419490	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gcgtgcatggcgaagtccccGgagaactctaccctggagga	14	12	1	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr1:243419490G>A	ENST00000366541.3	+	1	133	c.15G>A	c.(13-15)ccG>ccA	p.P5P	SDCCAG8_ENST00000391846.1_Silent_p.P5P|SDCCAG8_ENST00000343783.6_5'UTR|CEP170_ENST00000366544.1_5'Flank|SDCCAG8_ENST00000355875.4_Silent_p.P5P|CEP170_ENST00000366542.1_5'Flank|CEP170_ENST00000366543.1_5'Flank	NM_006642.3	NP_006633.1	Q86SQ7	SDCG8_HUMAN	serologically defined colon cancer antigen 8	5					establishment of cell polarity (GO:0030010)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|tube formation (GO:0035148)	cell-cell junction (GO:0005911)|centriole (GO:0005814)|centrosome (GO:0005813)|cytosol (GO:0005829)				breast(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(17)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29	all_cancers(71;0.000545)|all_epithelial(71;0.000509)|all_lung(81;0.0821)|Ovarian(71;0.0919)|all_neural(11;0.101)|Breast(184;0.218)	all_cancers(173;0.00395)	all cancers(7;1.58e-07)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00392)	COAD - Colon adenocarcinoma(196;0.145)		CGAAGTCCCCGGAGAACTCTA	0.617																																																0													78	79	78					1																	243419490		2203	4300	6503	SO:0001819	synonymous_variant	10806			AF039690	CCDS31075.1	1q43	2011-08-02			ENSG00000054282	ENSG00000054282			10671	protein-coding gene	gene with protein product		613524				9610721, 20835237	Standard	NM_006642		Approved	NY-CO-8, CCCAP, SLSN7, NPHP10, BBS16	uc001hzw.3	Q86SQ7	OTTHUMG00000039996	ENST00000366541.3:c.15G>A	1.37:g.243419490G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60527|Q3ZCR6|Q8N5F2|Q9P0F1	Silent	SNP	ENST00000366541.3	37	CCDS31075.1																																																																																				0.617	SDCCAG8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096485.1	NM_006642		A	243419490	G	A	243419490	2	1	692	1	0	0	0	0	0	0	0	1	13972	1103	39	1		1	SDCCAG8	1	243419490	Silent	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	15472752	243419490	5831131	11	45026										
MOGS	7841	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	74688599	74688599	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	ccgagcctggtgaggaccctCcagatgcccatagtggtgga	14	12	0	2			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr2:74688599C>T	ENST00000233616.4	-	4	2479	c.2317G>A	c.(2317-2319)Gag>Aag	p.E773K	MOGS_ENST00000409065.1_3'UTR|MOGS_ENST00000452063.2_Missense_Mutation_p.E667K|MOGS_ENST00000462443.1_5'Flank	NM_006302.2	NP_006293.2	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase	773					cellular protein metabolic process (GO:0044267)|oligosaccharide metabolic process (GO:0009311)|post-translational protein modification (GO:0043687)|protein folding (GO:0006457)|protein N-linked glycosylation (GO:0006487)|protein N-linked glycosylation via asparagine (GO:0018279)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	glucosidase activity (GO:0015926)|mannosyl-oligosaccharide glucosidase activity (GO:0004573)			cervix(1)|endometrium(6)|large_intestine(3)|lung(10)|prostate(1)|urinary_tract(2)	23						TGAGGACCCTCCAGATGCCCA	0.592																																																0													80	88	85					2																	74688599		2075	4200	6275	SO:0001583	missense	7841			X87237	CCDS42700.1, CCDS54370.1	2p13.1	2012-01-31			ENSG00000115275	ENSG00000115275	3.2.1.106		24862	protein-coding gene	gene with protein product	"glucosidase I", "processing A-glucosidase I"	601336				7635146, 8786151	Standard	NM_006302		Approved	GCS1, CWH41, DER7	uc010ffj.3	Q13724	OTTHUMG00000152886	ENST00000233616.4:c.2317G>A	2.37:g.74688599C>T	ENSP00000233616:p.Glu773Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K938|F5H6D0|Q17RN9|Q8TCT5	Missense_Mutation	SNP	ENST00000233616.4	37	CCDS42700.1	.	.	.	.	.	.	.	.	.	.	C	7.668	0.686371	0.14973	.	.	ENSG00000115275	ENST00000233616;ENST00000452063	T;T	0.48522	0.81;0.81	4.48	0.633	0.17712	Six-hairpin glycosidase-like (1);	0.109437	0.64402	N	0.000010	T	0.35508	0.0934	L	0.55103	1.725	0.80722	D	1	B	0.06786	0.001	B	0.14023	0.01	T	0.14008	-1.0488	10	0.11794	T	0.64	-2.6164	8.6268	0.33895	0.0:0.6721:0.0:0.3279	.	773	Q13724	MOGS_HUMAN	K	773;667	ENSP00000233616:E773K;ENSP00000388201:E667K	ENSP00000233616:E773K	E	-	1	0	MOGS	74542107	0.580000	0.26733	0.793000	0.32043	0.621000	0.37620	1.175000	0.31944	0.004000	0.14682	-0.244000	0.11960	GAG		0.592	MOGS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328382.1	NM_006302		T	74688599	C	T	74688599	3	4	692	1	0	0	0	0	1	0	0	0	9704	864	30	2	200	2	MOGS	2	74688599	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10		74688599	168510774	12	45027										
ACMSD	130013	hgsc.bcm.edu;broad.mit.edu	37	chr2	135621133	135621133	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tgaaagagctgggctttcccGgggtccaaattggcacccac	12	12	0	2			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr2:135621133G>A	ENST00000356140.5	+	5	554	c.418G>A	c.(418-420)Ggg>Agg	p.G140R	ACMSD_ENST00000283054.4_Missense_Mutation_p.G82R|AC016725.4_ENST00000392929.2_RNA|ACMSD_ENST00000392928.1_Missense_Mutation_p.G82R	NM_138326.2	NP_612199.2	Q8TDX5	ACMSD_HUMAN	aminocarboxymuconate semialdehyde decarboxylase	140					cellular nitrogen compound metabolic process (GO:0034641)|quinolinate metabolic process (GO:0046874)|small molecule metabolic process (GO:0044281)|tryptophan catabolic process (GO:0006569)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	aminocarboxymuconate-semialdehyde decarboxylase activity (GO:0001760)|metal ion binding (GO:0046872)			endometrium(3)|large_intestine(4)|lung(6)|skin(1)	14				BRCA - Breast invasive adenocarcinoma(221;0.115)		GGGCTTTCCCGGGGTCCAAAT	0.632																																																0													71	58	62					2																	135621133		2203	4300	6503	SO:0001583	missense	130013			AB071418	CCDS2173.2	2q21.3	2008-03-11			ENSG00000153086	ENSG00000153086	4.1.1.45		19288	protein-coding gene	gene with protein product		608889				12140278	Standard	NM_138326		Approved		uc002ttz.3	Q8TDX5	OTTHUMG00000131711	ENST00000356140.5:c.418G>A	2.37:g.135621133G>A	ENSP00000348459:p.Gly140Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q3B7X3|Q53SR5|Q96KY2	Missense_Mutation	SNP	ENST00000356140.5	37	CCDS2173.2	.	.	.	.	.	.	.	.	.	.	G	28.8	4.950082	0.92660	.	.	ENSG00000153086	ENST00000356140;ENST00000283054;ENST00000392928	.	.	.	5.6	5.6	0.85130	.	0.000000	0.85682	D	0.000000	D	0.90518	0.7029	H	0.97315	3.98	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.93490	0.6835	9	0.87932	D	0	-10.2027	19.6085	0.95589	0.0:0.0:1.0:0.0	.	82;140	Q53SR5;Q8TDX5	.;ACMSD_HUMAN	R	140;82;82	.	ENSP00000283054:G82R	G	+	1	0	ACMSD	135337603	1.000000	0.71417	0.959000	0.39883	0.755000	0.42902	9.463000	0.97652	2.618000	0.88619	0.561000	0.74099	GGG		0.632	ACMSD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254627.1			A	135621133	G	A	135621133	3	1	692	1	0	0	0	0	1	0	0	0	144	1116	39	1	436	1	ACMSD	2	135621133	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	60932534	135621133	107578240	13	45028										
SSFA2	6744	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	182774650	182774650	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	aaagtacggagggagaagctCctcatgttccagccacttac	10	11	1	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr2:182774650C>G	ENST00000431877.2	+	9	1617	c.1438C>G	c.(1438-1440)Cct>Gct	p.P480A	SSFA2_ENST00000320370.7_Missense_Mutation_p.P480A|SSFA2_ENST00000428267.2_Missense_Mutation_p.P327A|SSFA2_ENST00000409001.1_Missense_Mutation_p.P480A|SSFA2_ENST00000409136.1_5'Flank	NM_001130445.1	NP_001123917.1	P28290	SSFA2_HUMAN	sperm specific antigen 2	480						cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(2)|central_nervous_system(1)|endometrium(3)|kidney(5)|large_intestine(5)|lung(18)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	38			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			GGGAGAAGCTCCTCATGTTCC	0.368																																																0													71	62	65					2																	182774650		2203	4300	6503	SO:0001583	missense	6744			M61199	CCDS2284.1, CCDS46467.1, CCDS74611.1	2q32.1	2012-02-01			ENSG00000138434	ENSG00000138434			11319	protein-coding gene	gene with protein product	"cleavage signal-1 protein", "KRAS-induced actin-interacting protein", "sperm associated antigen 13"	118990				1555770	Standard	XM_005246812		Approved	CS-1, SPAG13, KRAP, KIAA1927	uc002uoh.3	P28290	OTTHUMG00000132584	ENST00000431877.2:c.1438C>G	2.37:g.182774650C>G	ENSP00000388731:p.Pro480Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6T0|Q68DA6|Q7Z7L2|Q8N1L3|Q8N263|Q8N7H2|Q8NEN5|Q96E36|Q96PW1	Missense_Mutation	SNP	ENST00000431877.2	37	CCDS46467.1	.	.	.	.	.	.	.	.	.	.	C	22.5	4.304280	0.81136	.	.	ENSG00000138434	ENST00000431877;ENST00000320370;ENST00000409001;ENST00000428267	T;T;T;T	0.15372	2.66;2.43;2.66;2.66	5.98	5.98	0.97165	.	0.175872	0.50627	D	0.000116	T	0.44138	0.1279	M	0.73598	2.24	0.58432	D	0.999993	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.87578	0.998;0.997;0.997;0.997	T	0.04946	-1.0916	10	0.33141	T	0.24	-18.1989	18.6367	0.91380	0.0:1.0:0.0:0.0	.	327;480;480;480	E7END2;E9PHV5;P28290;P28290-3	.;.;SSFA2_HUMAN;.	A	480;480;480;327	ENSP00000388731:P480A;ENSP00000314669:P480A;ENSP00000387319:P480A;ENSP00000409867:P327A	ENSP00000314669:P480A	P	+	1	0	SSFA2	182482895	0.994000	0.37717	1.000000	0.80357	0.889000	0.51656	3.435000	0.52849	2.847000	0.97988	0.591000	0.81541	CCT		0.368	SSFA2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000255793.2	NM_006751		G	182774650	C	G	182774650	3	3	692	1	0	0	0	0	1	0	0	0	15195	855	30	4	1472	4	SSFA2	2	182774650	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	47153517	182774650	60424723	14	45029										
NCKAP1	10787	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	183792879	183792879	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	taagacggtcttcaatgcttCctttgtgaattgtaaacaaa	7	7	2	2			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr2:183792879C>T	ENST00000361354.4	-	29	3518	c.3146G>A	c.(3145-3147)gGa>gAa	p.G1049E	NCKAP1_ENST00000478449.1_5'UTR|NCKAP1_ENST00000360982.2_Missense_Mutation_p.G1055E	NM_013436.3	NP_038464.1	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1	1049					apical protein localization (GO:0045176)|apoptotic process (GO:0006915)|basal protein localization (GO:0045175)|central nervous system development (GO:0007417)|embryonic body morphogenesis (GO:0010172)|embryonic foregut morphogenesis (GO:0048617)|embryonic heart tube development (GO:0035050)|endoderm development (GO:0007492)|establishment or maintenance of actin cytoskeleton polarity (GO:0030950)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|in utero embryonic development (GO:0001701)|innate immune response (GO:0045087)|lamellipodium assembly (GO:0030032)|mesodermal cell migration (GO:0008078)|neural tube closure (GO:0001843)|notochord morphogenesis (GO:0048570)|paraxial mesoderm morphogenesis (GO:0048340)|positive regulation of Arp2/3 complex-mediated actin nucleation (GO:2000601)|positive regulation of lamellipodium assembly (GO:0010592)|protein stabilization (GO:0050821)|Rac protein signal transduction (GO:0016601)|regulation of protein localization (GO:0032880)|somitogenesis (GO:0001756)|zygotic determination of anterior/posterior axis, embryo (GO:0007354)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|lamellipodium (GO:0030027)|plasma membrane (GO:0005886)|SCAR complex (GO:0031209)	protein complex binding (GO:0032403)			breast(3)|cervix(2)|endometrium(3)|kidney(4)|large_intestine(11)|lung(16)|ovary(2)|prostate(2)|upper_aerodigestive_tract(2)	45			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			TTCAATGCTTCCTTTGTGAAT	0.358																																																0													122	116	118					2																	183792879		2203	4300	6503	SO:0001583	missense	10787			AB014509	CCDS2287.1, CCDS2288.1	2q32	2009-08-14			ENSG00000061676	ENSG00000061676			7666	protein-coding gene	gene with protein product		604891				10673335, 12181570, 9344857	Standard	NM_013436		Approved	Nap1, HEM2, NAP125	uc002upb.4	Q9Y2A7	OTTHUMG00000132623	ENST00000361354.4:c.3146G>A	2.37:g.183792879C>T	ENSP00000355348:p.Gly1049Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O60329|Q53QN5|Q53S94|Q53Y35	Missense_Mutation	SNP	ENST00000361354.4	37	CCDS2287.1	.	.	.	.	.	.	.	.	.	.	C	17.94	3.511992	0.64522	.	.	ENSG00000061676	ENST00000361354;ENST00000360982	T;T	0.27557	1.66;1.66	5.68	5.68	0.88126	.	0.000000	0.85682	D	0.000000	T	0.24353	0.0590	L	0.29908	0.895	0.80722	D	1	B;B	0.20261	0.043;0.035	B;B	0.22152	0.038;0.023	T	0.09618	-1.0666	10	0.06099	T	0.92	-19.0359	19.8353	0.96655	0.0:1.0:0.0:0.0	.	1049;1055	Q9Y2A7;Q9Y2A7-2	NCKP1_HUMAN;.	E	1049;1055	ENSP00000355348:G1049E;ENSP00000354251:G1055E	ENSP00000354251:G1055E	G	-	2	0	NCKAP1	183501124	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.768000	0.85345	2.698000	0.92095	0.586000	0.80456	GGA		0.358	NCKAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255867.2	NM_205842		T	183792879	C	T	183792879	3	4	692	1	0	0	0	0	1	0	0	0	10228	855	30	2	252	2	NCKAP1	2	183792879	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	1018229	183792879	59406494	15	45030										
KCNH8	131096	broad.mit.edu;bcgsc.ca	37	chr3	19554559	19554559	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	ggaggaagaggaggcagtctCcctctctcccatctgcacaa	11	13	3	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr3:19554559C>T	ENST00000328405.2	+	13	2443	c.2177C>T	c.(2176-2178)tCc>tTc	p.S726F		NM_144633.2	NP_653234.2	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H (eag-related), member 8	726					potassium ion transmembrane transport (GO:0071805)|regulation of membrane potential (GO:0042391)|synaptic transmission (GO:0007268)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	phosphorelay sensor kinase activity (GO:0000155)|voltage-gated potassium channel activity (GO:0005249)			NS(1)|breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(12)|liver(3)|lung(37)|ovary(3)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	77						gaggCAGTCTCCCTCTCTCCC	0.532																																					NSCLC(124;1625 1765 8018 24930 42026)											0													67	55	59					3																	19554559		2203	4300	6503	SO:0001583	missense	131096			AY053503	CCDS2632.1	3p24.3	2012-07-05			ENSG00000183960	ENSG00000183960		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	18864	protein-coding gene	gene with protein product		608260				16382104	Standard	NM_144633		Approved	Kv12.1, elk3	uc003cbk.1	Q96L42	OTTHUMG00000129891	ENST00000328405.2:c.2177C>T	3.37:g.19554559C>T	ENSP00000328813:p.Ser726Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2I7|Q59GQ6	Missense_Mutation	SNP	ENST00000328405.2	37	CCDS2632.1	.	.	.	.	.	.	.	.	.	.	C	14.12	2.441905	0.43326	.	.	ENSG00000183960	ENST00000328405	D	0.98792	-5.14	5.44	5.44	0.79542	.	0.000000	0.31709	U	0.007193	D	0.97495	0.9180	L	0.47716	1.5	0.80722	D	1	P	0.37158	0.585	B	0.42188	0.379	D	0.97417	1.0006	9	.	.	.	.	17.4503	0.87590	0.0:1.0:0.0:0.0	.	726	Q96L42	KCNH8_HUMAN	F	726	ENSP00000328813:S726F	.	S	+	2	0	KCNH8	19529563	0.164000	0.22935	0.087000	0.20705	0.252000	0.25951	1.912000	0.39946	2.559000	0.86315	0.585000	0.79938	TCC		0.532	KCNH8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252139.2	NM_144633		T	19554559	C	T	19554559	3	4	692	1	0	0	0	0	1	0	0	0	8045	855	30	2	2227	2	KCNH8	3	19554559	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10		19554559	178467871	16	45031										
TRANK1	9881	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	36874430	36874430	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	ctaaacacttggcttcacaaCgccgcagaggcctgtgaaaa	9	12	1	2	rs370553712		TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr3:36874430C>T	ENST00000429976.2	-	21	6759	c.6512G>A	c.(6511-6513)cGt>cAt	p.R2171H	TRANK1_ENST00000428977.2_Missense_Mutation_p.R1621H|TRANK1_ENST00000301807.6_Missense_Mutation_p.R1621H	NM_014831.2	NP_055646.2	O15050	TRNK1_HUMAN	tetratricopeptide repeat and ankyrin repeat containing 1	2171							ATP binding (GO:0005524)|hydrolase activity (GO:0016787)			NS(2)|autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(18)|lung(20)|ovary(1)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(2)	73						GGCTTCACAACGCCGCAGAGG	0.438																																																0								C	HIS/ARG	0,3780		0,0,1890	32	32	32		6512	5.2	0.9	3		32	1,8203		0,1,4101	no	missense	TRANK1	NM_014831.2	29	0,1,5991	TT,TC,CC		0.0122,0.0,0.0083	probably-damaging	2171/2926	36874430	1,11983	1890	4102	5992	SO:0001583	missense	9881			AK096678	CCDS46789.1, CCDS46789.2	3p22.2	2013-01-11			ENSG00000168016	ENSG00000168016		"Ankyrin repeat domain containing", "Tetratricopeptide (TTC) repeat domain containing"	29011	protein-coding gene	gene with protein product	"lupus brain antigen 1", "KIAA0342"					9205841	Standard	NM_014831		Approved	LBA1, KIAA0342	uc003cgj.3	O15050	OTTHUMG00000155848	ENST00000429976.2:c.6512G>A	3.37:g.36874430C>T	ENSP00000416168:p.Arg2171His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N8K0	Missense_Mutation	SNP	ENST00000429976.2	37	CCDS46789.2	.	.	.	.	.	.	.	.	.	.	C	15.37	2.812080	0.50527	0.0	1.22E-4	ENSG00000168016	ENST00000428977;ENST00000429976;ENST00000301807	T;T;T	0.34667	1.35;1.76;1.35	5.16	5.16	0.70880	.	0.000000	0.48767	D	0.000162	T	0.40743	0.1129	L	0.34521	1.04	0.22156	N	0.999323	D	0.76494	0.999	P	0.57324	0.818	T	0.28459	-1.0043	10	0.72032	D	0.01	.	9.7288	0.40348	0.0:0.8452:0.0:0.1548	.	2171	O15050	TRNK1_HUMAN	H	1621;2171;1621	ENSP00000416826:R1621H;ENSP00000416168:R2171H;ENSP00000301807:R1621H	ENSP00000301807:R1621H	R	-	2	0	TRANK1	36849434	0.977000	0.34250	0.855000	0.33649	0.731000	0.41821	3.068000	0.50018	2.562000	0.86427	0.555000	0.69702	CGT		0.438	TRANK1-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_014831		T	36874430	C	T	36874430	3	4	692	1	0	0	0	0	1	0	0	0	16466	536	19	1	2277	1	TRANK1	3	36874430	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	17319871	36874430	161148000	17	45032										
KLHDC8B	200942	ucsc.edu;bcgsc.ca	37	chr3	49212587	49212587	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	ggggccacattgtggccattGggggccttggtaagtctcta	15	9	1	0			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr3:49212587G>A	ENST00000332780.2	+	5	1068	c.859G>A	c.(859-861)Ggg>Agg	p.G287R	C3orf84_ENST00000443990.1_5'Flank	NM_173546.2	NP_775817.1	Q8IXV7	KLD8B_HUMAN	kelch domain containing 8B	287						cytoplasm (GO:0005737)				endometrium(1)|kidney(1)|large_intestine(2)|lung(1)|skin(1)|stomach(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		TGTGGCCATTGGGGGCCTTGG	0.602																																																0													31	33	33					3																	49212587		2203	4300	6503	SO:0001583	missense	200942				CCDS2791.1	3p21.31	2008-02-05			ENSG00000185909	ENSG00000185909			28557	protein-coding gene	gene with protein product		613169					Standard	NM_173546		Approved	MGC35097	uc003cwh.3	Q8IXV7	OTTHUMG00000156814	ENST00000332780.2:c.859G>A	3.37:g.49212587G>A	ENSP00000327468:p.Gly287Arg	Somatic		WXS	Illumina HiSeq			Missense_Mutation	SNP	ENST00000332780.2	37	CCDS2791.1	.	.	.	.	.	.	.	.	.	.	G	27.8	4.859659	0.91433	.	.	ENSG00000185909	ENST00000332780;ENST00000538729	D	0.84370	-1.84	5.84	5.84	0.93424	Kelch-type beta propeller (1);	0.000000	0.85682	D	0.000000	D	0.95909	0.8668	H	0.98701	4.305	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.97368	0.9974	10	0.87932	D	0	-9.6158	17.2994	0.87178	0.0:0.0:1.0:0.0	.	287	Q8IXV7	KLD8B_HUMAN	R	287;38	ENSP00000327468:G287R	ENSP00000327468:G287R	G	+	1	0	KLHDC8B	49187591	1.000000	0.71417	0.999000	0.59377	0.986000	0.74619	8.455000	0.90355	2.769000	0.95229	0.563000	0.77884	GGG		0.602	KLHDC8B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345974.1	NM_173546		A	49212587	G	A	49212587	3	1	692	1	0	0	0	0	1	0	0	0	8370	1348	47	2	873	2	KLHDC8B	3	49212587	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	12338157	49212587	148809843	18	45033										
BAP1	8314	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	52439271	52439271	+	Frame_Shift_Del	DEL	G	G	-													0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tgttgggagggctgtgggatGgggcttgtgcgcatgaacca							TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr3:52439271delG	ENST00000460680.1	-	11	1442	c.971delC	c.(970-972)ccafs	p.P324fs	BAP1_ENST00000296288.5_Frame_Shift_Del_p.P306fs	NM_004656.2	NP_004647.1	Q99496	RING2_HUMAN	BRCA1 associated protein-1 (ubiquitin carboxy-terminal hydrolase)	0					anterior/posterior axis specification (GO:0009948)|gastrulation with mouth forming second (GO:0001702)|histone H2A monoubiquitination (GO:0035518)|histone H2A-K119 monoubiquitination (GO:0036353)|mitotic cell cycle (GO:0000278)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription, DNA-templated (GO:0006351)	euchromatin (GO:0000791)|MLL1 complex (GO:0071339)|nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PcG protein complex (GO:0031519)|PRC1 complex (GO:0035102)|sex chromatin (GO:0001739)|ubiquitin ligase complex (GO:0000151)	chromatin binding (GO:0003682)|ligase activity (GO:0016874)|RING-like zinc finger domain binding (GO:0071535)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)	p.P324fs*11(1)|p.A323fs*71(1)|p.P324fs*7(1)		NS(1)|breast(4)|endometrium(3)|eye(42)|kidney(60)|large_intestine(3)|lung(9)|ovary(4)|pleura(39)|prostate(4)|skin(9)|urinary_tract(2)	180				BRCA - Breast invasive adenocarcinoma(193;1.72e-05)|Kidney(197;0.0018)|KIRC - Kidney renal clear cell carcinoma(197;0.00203)|OV - Ovarian serous cystadenocarcinoma(275;0.0277)		GCTGTGGGATGGGGCTTGTGC	0.592			"N, Mis, F, S, O"		"uveal melanoma, breast, NSCLC, RCC"	"mesothelioma, uveal melanoma"																															GBM(101;493 1458 7992 21037 25532)		Rec	yes		3	3p21.31-p21.2	8314	BRCA1 associated protein-1 (ubiquitin carboxy-terminal hydrolase)		E	3	Deletion - Frameshift(3)	eye(1)|kidney(1)|pleura(1)											115	120	118					3																	52439271		2203	4300	6503	SO:0001589	frameshift_variant	8314			AF045581	CCDS2853.1	3p21.31-p21.2	2014-09-17			ENSG00000163930	ENSG00000163930			950	protein-coding gene	gene with protein product		603089				9528852	Standard	NM_004656		Approved	hucep-6, KIAA0272, UCHL2	uc003ddx.4	Q92560	OTTHUMG00000158392	ENST00000460680.1:c.971delC	3.37:g.52439271delG	ENSP00000417132:p.Pro324fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBS7|B3KRH1|Q5TEN1|Q5TEN2	Frame_Shift_Del	DEL	ENST00000460680.1	37	CCDS2853.1																																																																																				0.592	BAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350895.1			-	52439271	G	-	52439271	7	5	692	1	0	1	0	1	0	0	0	0	1311	1348	47	0	1246	0	BAP1	3	52439271	Frame_Shift_Del	DEL	G	TCGA-MH-A560-01A-11D-A26P-10	3226684	52439271	145583159	19	45034	487	2								
BAP1	8314	hgsc.bcm.edu;bcgsc.ca	37	chr3	52439275	52439275	+	Missense_Mutation	SNP	C	C	A													0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gggagggctgtgggatggggCttgtgcgcatgaaccagccg							TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr3:52439275C>A	ENST00000460680.1	-	11	1438	c.967G>T	c.(967-969)Gcc>Tcc	p.A323S	BAP1_ENST00000296288.5_Missense_Mutation_p.A305S	NM_004656.2	NP_004647.1	Q99496	RING2_HUMAN	BRCA1 associated protein-1 (ubiquitin carboxy-terminal hydrolase)	0					anterior/posterior axis specification (GO:0009948)|gastrulation with mouth forming second (GO:0001702)|histone H2A monoubiquitination (GO:0035518)|histone H2A-K119 monoubiquitination (GO:0036353)|mitotic cell cycle (GO:0000278)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription, DNA-templated (GO:0006351)	euchromatin (GO:0000791)|MLL1 complex (GO:0071339)|nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PcG protein complex (GO:0031519)|PRC1 complex (GO:0035102)|sex chromatin (GO:0001739)|ubiquitin ligase complex (GO:0000151)	chromatin binding (GO:0003682)|ligase activity (GO:0016874)|RING-like zinc finger domain binding (GO:0071535)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)	p.P324fs*7(1)		NS(1)|breast(4)|endometrium(3)|eye(42)|kidney(60)|large_intestine(3)|lung(9)|ovary(4)|pleura(39)|prostate(4)|skin(9)|urinary_tract(2)	180				BRCA - Breast invasive adenocarcinoma(193;1.72e-05)|Kidney(197;0.0018)|KIRC - Kidney renal clear cell carcinoma(197;0.00203)|OV - Ovarian serous cystadenocarcinoma(275;0.0277)		TGGGATGGGGCTTGTGCGCAT	0.592			"N, Mis, F, S, O"		"uveal melanoma, breast, NSCLC, RCC"	"mesothelioma, uveal melanoma"																															GBM(101;493 1458 7992 21037 25532)		Rec	yes		3	3p21.31-p21.2	8314	BRCA1 associated protein-1 (ubiquitin carboxy-terminal hydrolase)		E	1	Deletion - Frameshift(1)	pleura(1)											113	118	116					3																	52439275		2203	4300	6503	SO:0001583	missense	8314			AF045581	CCDS2853.1	3p21.31-p21.2	2014-09-17			ENSG00000163930	ENSG00000163930			950	protein-coding gene	gene with protein product		603089				9528852	Standard	NM_004656		Approved	hucep-6, KIAA0272, UCHL2	uc003ddx.4	Q92560	OTTHUMG00000158392	ENST00000460680.1:c.967G>T	3.37:g.52439275C>A	ENSP00000417132:p.Ala323Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBS7|B3KRH1|Q5TEN1|Q5TEN2	Missense_Mutation	SNP	ENST00000460680.1	37	CCDS2853.1	.	.	.	.	.	.	.	.	.	.	C	10.53	1.375375	0.24857	.	.	ENSG00000163930	ENST00000460680;ENST00000296288	T;T	0.55588	0.51;0.51	5.7	4.82	0.62117	Peptidase C12, ubiquitin carboxyl-terminal hydrolase 1 (1);	0.290995	0.39341	N	0.001388	T	0.41789	0.1174	L	0.44542	1.39	0.21782	N	0.999546	B	0.09022	0.002	B	0.14023	0.01	T	0.24512	-1.0158	10	0.24483	T	0.36	-12.9423	9.1237	0.36801	0.0:0.8178:0.0:0.1822	.	323	Q92560	BAP1_HUMAN	S	323;305	ENSP00000417132:A323S;ENSP00000296288:A305S	ENSP00000296288:A305S	A	-	1	0	BAP1	52414315	0.962000	0.33011	0.955000	0.39395	0.115000	0.19883	0.927000	0.28818	1.398000	0.46701	0.655000	0.94253	GCC		0.592	BAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350895.1			A	52439275	C	A	52439275	3	1	692	1	0	0	0	0	1	0	0	0	1311	797	28	4	1250	4	BAP1	3	52439275	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	4	52439275	145583155	20	45035	487	2								
COL8A1	1295	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	99514774	99514774	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	aggggggcaacgtgtgggttGctctattcaagaacaacgag	15	7	2	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr3:99514774G>A	ENST00000261037.3	+	5	2409	c.2029G>A	c.(2029-2031)Gct>Act	p.A677T	COL8A1_ENST00000273342.4_Missense_Mutation_p.A677T	NM_001850.4	NP_001841.2	P27658	CO8A1_HUMAN	collagen, type VIII, alpha 1	677	C1q. {ECO:0000255|PROSITE- ProRule:PRU00368}.|Nonhelical region (NC1).				angiogenesis (GO:0001525)|camera-type eye morphogenesis (GO:0048593)|cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|endodermal cell differentiation (GO:0035987)|epithelial cell proliferation (GO:0050673)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|positive regulation of cell-substrate adhesion (GO:0010811)	collagen type VIII trimer (GO:0005591)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|intracellular membrane-bounded organelle (GO:0043231)				breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(15)|skin(5)|upper_aerodigestive_tract(1)	27						CGTGTGGGTTGCTCTATTCAA	0.547																																																0													94	87	89					3																	99514774		2203	4300	6503	SO:0001583	missense	1295			AF170702	CCDS2934.1	3q11.1-q13.2	2013-01-16			ENSG00000144810	ENSG00000144810		"Collagens"	2215	protein-coding gene	gene with protein product		120251	"chromosome 3 open reading frame 7"	C3orf7		2029894	Standard	NM_001850		Approved	MGC9568	uc003dth.2	P27658	OTTHUMG00000148669	ENST00000261037.3:c.2029G>A	3.37:g.99514774G>A	ENSP00000261037:p.Ala677Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DN42|Q53XI6|Q96D07	Missense_Mutation	SNP	ENST00000261037.3	37	CCDS2934.1	.	.	.	.	.	.	.	.	.	.	G	19.48	3.835784	0.71373	.	.	ENSG00000144810	ENST00000261037;ENST00000273342	T;T	0.75260	-0.92;-0.92	6.08	6.08	0.98989	Tumour necrosis factor-like (2);Complement C1q protein (3);	0.051256	0.85682	D	0.000000	D	0.85423	0.5693	M	0.71581	2.175	0.58432	D	0.999998	D;D	0.76494	0.999;0.999	D;D	0.67548	0.952;0.952	D	0.85567	0.1231	10	0.66056	D	0.02	.	18.1659	0.89727	0.0:0.0:1.0:0.0	.	678;677	E7EPK9;P27658	.;CO8A1_HUMAN	T	677	ENSP00000261037:A677T;ENSP00000273342:A677T	ENSP00000261037:A677T	A	+	1	0	COL8A1	100997464	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.869000	0.99810	2.894000	0.99253	0.591000	0.81541	GCT		0.547	COL8A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000309001.1	NM_001850		A	99514774	G	A	99514774	3	1	692	1	0	0	0	0	1	0	0	0	3707	1319	46	2	2035	2	COL8A1	3	99514774	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	47075499	99514774	98507656	21	45036										
XRN1	54464	broad.mit.edu;bcgsc.ca	37	chr3	142030528	142030528	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	acttcaaagaagctgatgagCtctcccgtggacttactttg	9	10	2	3			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr3:142030528C>T	ENST00000264951.4	-	42	5063	c.4946G>A	c.(4945-4947)aGc>aAc	p.S1649N	XRN1_ENST00000392981.2_Missense_Mutation_p.S1637N	NM_019001.3	NP_061874.3	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1	1649					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay (GO:0043928)|gene expression (GO:0010467)|histone mRNA catabolic process (GO:0071044)|mRNA metabolic process (GO:0016071)|nuclear mRNA surveillance (GO:0071028)|nuclear-transcribed mRNA catabolic process (GO:0000956)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|RNA metabolic process (GO:0016070)|rRNA catabolic process (GO:0016075)	cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|membrane (GO:0016020)	5'-3' exonuclease activity (GO:0008409)|DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(3)|endometrium(6)|kidney(12)|large_intestine(11)|liver(1)|lung(17)|ovary(3)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	61						AGCTGATGAGCTCTCCCGTGG	0.448																																																0													152	153	153					3																	142030528		2203	4300	6503	SO:0001583	missense	54464			AY137776	CCDS3123.1, CCDS63801.1, CCDS75028.1	3q23	2008-02-05			ENSG00000114127	ENSG00000114127			30654	protein-coding gene	gene with protein product		607994				12515382	Standard	XM_005247544		Approved	SEP1	uc003eus.3	Q8IZH2	OTTHUMG00000159251	ENST00000264951.4:c.4946G>A	3.37:g.142030528C>T	ENSP00000264951:p.Ser1649Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0S3|Q68D88|Q6AI24|Q6MZS8|Q86WS7|Q8N8U4|Q9UF39	Missense_Mutation	SNP	ENST00000264951.4	37	CCDS3123.1	.	.	.	.	.	.	.	.	.	.	C	5.401	0.259143	0.10239	.	.	ENSG00000114127	ENST00000264951;ENST00000392981	T;T	0.31247	1.5;1.5	5.75	0.665	0.17896	.	1.065370	0.07165	N	0.851388	T	0.19406	0.0466	N	0.24115	0.695	0.09310	N	1	B;B	0.27416	0.178;0.112	B;B	0.18263	0.021;0.009	T	0.24048	-1.0171	10	0.49607	T	0.09	-0.0078	6.6837	0.23134	0.0:0.4384:0.3549:0.2066	.	1637;1649	Q8IZH2-2;Q8IZH2	.;XRN1_HUMAN	N	1649;1637	ENSP00000264951:S1649N;ENSP00000376707:S1637N	ENSP00000264951:S1649N	S	-	2	0	XRN1	143513218	0.000000	0.05858	0.001000	0.08648	0.218000	0.24690	0.337000	0.19841	-0.162000	0.10964	-0.345000	0.07892	AGC		0.448	XRN1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000354087.2	NM_019001		T	142030528	C	T	142030528	3	4	692	1	0	0	0	0	1	0	0	0	17471	797	28	2	178	2	XRN1	3	142030528	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	42515754	142030528	55991902	22	45037										
CLDN11	5010	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	170141043	170141043	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tgactgttcttccctgcatcCggatgggccaggagcccggt	13	13	1	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr3:170141043C>T	ENST00000064724.3	+	2	521	c.319C>T	c.(319-321)Cgg>Tgg	p.R107W	CLDN11_ENST00000486975.1_Missense_Mutation_p.R107W|CLDN11_ENST00000451576.1_Missense_Mutation_p.R107W|CLDN11_ENST00000489485.1_3'UTR	NM_005602.5	NP_005593.2	O75508	CLD11_HUMAN	claudin 11	107					axon ensheathment (GO:0008366)|calcium-independent cell-cell adhesion (GO:0016338)|spermatogenesis (GO:0007283)	basal part of cell (GO:0045178)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	identical protein binding (GO:0042802)|structural molecule activity (GO:0005198)			central_nervous_system(2)|endometrium(2)|large_intestine(1)|liver(2)|lung(3)|ovary(2)	12	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)			TCCCTGCATCCGGATGGGCCA	0.607																																																0													111	105	107					3																	170141043		2203	4300	6503	SO:0001583	missense	5010			AF068863	CCDS3213.1	3q26.2-q26.3	2008-08-01	2008-08-01		ENSG00000013297	ENSG00000013297		"Claudins"	8514	protein-coding gene	gene with protein product		601326	"oligodendrocyte transmembrane protein"	OTM		8661061, 8797478	Standard	NM_005602		Approved	OSP	uc003fgx.3	O75508	OTTHUMG00000158940	ENST00000064724.3:c.319C>T	3.37:g.170141043C>T	ENSP00000064724:p.Arg107Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7C1|D3DNQ5|Q5U0P3	Missense_Mutation	SNP	ENST00000064724.3	37	CCDS3213.1	.	.	.	.	.	.	.	.	.	.	C	21.3	4.128510	0.77549	.	.	ENSG00000013297	ENST00000064724;ENST00000486975;ENST00000451576	D;D;D	0.89681	-2.55;-2.55;-2.55	5.81	4.91	0.64330	.	0.175301	0.50627	D	0.000106	D	0.94265	0.8158	M	0.79123	2.44	0.47621	D	0.999477	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.949	D	0.94887	0.8044	10	0.87932	D	0	.	15.8994	0.79362	0.1364:0.8636:0.0:0.0	.	107;107	B4DFI2;O75508	.;CLD11_HUMAN	W	107	ENSP00000064724:R107W;ENSP00000417434:R107W;ENSP00000410185:R107W	ENSP00000064724:R107W	R	+	1	2	CLDN11	171623737	1.000000	0.71417	1.000000	0.80357	0.799000	0.45148	2.422000	0.44696	1.391000	0.46566	0.557000	0.71058	CGG		0.607	CLDN11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352403.1	NM_005602		T	170141043	C	T	170141043	3	4	692	1	0	0	0	0	1	0	0	0	3475	643	23	1	325	1	CLDN11	3	170141043	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	28110515	170141043	27881387	23	45038										
MFN1	55669	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	179082985	179082985	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	caataatcgttgggatgcctCtgcatcagagccagaatata	9	9	2	2			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr3:179082985C>G	ENST00000471841.1	+	7	851	c.725C>G	c.(724-726)tCt>tGt	p.S242C	MFN1_ENST00000280653.7_Missense_Mutation_p.S242C|MFN1_ENST00000263969.5_Missense_Mutation_p.S242C	NM_033540.2	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	242	Dynamin-type G.				mitochondrial fusion (GO:0008053)	integral component of membrane (GO:0016021)|mitochondrial outer membrane (GO:0005741)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(14)|ovary(3)|prostate(1)|urinary_tract(1)	31	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)			TGGGATGCCTCTGCATCAGAG	0.328																																																0													50	54	53					3																	179082985		2203	4300	6503	SO:0001583	missense	55669			AF054986	CCDS3228.1	3q26.32	2006-12-13			ENSG00000171109	ENSG00000171109			18262	protein-coding gene	gene with protein product		608506				8358434, 11181170	Standard	NM_033540		Approved	FLJ20693	uc003fjs.3	Q8IWA4	OTTHUMG00000157385	ENST00000471841.1:c.725C>G	3.37:g.179082985C>G	ENSP00000420617:p.Ser242Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAR1|D3DNR6|O15323|O60639|Q9BZB5|Q9NWQ2	Missense_Mutation	SNP	ENST00000471841.1	37	CCDS3228.1	.	.	.	.	.	.	.	.	.	.	C	19.98	3.927490	0.73327	.	.	ENSG00000171109	ENST00000471841;ENST00000280653;ENST00000539169;ENST00000263969;ENST00000489329;ENST00000474903	D;D;D;D;D	0.95447	-3.71;-3.71;-3.71;-3.66;-3.66	5.66	5.66	0.87406	.	0.000000	0.85682	D	0.000000	D	0.98128	0.9382	M	0.88241	2.94	0.80722	D	1	D;D;D	0.89917	1.0;0.999;0.998	D;P;P	0.87578	0.998;0.907;0.907	D	0.98003	1.0361	10	0.48119	T	0.1	-19.0836	19.7394	0.96219	0.0:1.0:0.0:0.0	.	242;270;242	Q8IWA4-3;Q4AEJ4;Q8IWA4	.;.;MFN1_HUMAN	C	242;242;242;242;95;105	ENSP00000420617:S242C;ENSP00000280653:S242C;ENSP00000263969:S242C;ENSP00000420148:S95C;ENSP00000419926:S105C	ENSP00000263969:S242C	S	+	2	0	MFN1	180565679	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.739000	0.68622	2.649000	0.89929	0.563000	0.77884	TCT		0.328	MFN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348654.2	NM_017927		G	179082985	C	G	179082985	3	3	692	1	0	0	0	0	1	0	0	0	9530	913	32	4	747	4	MFN1	3	179082985	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	8941942	179082985	18939445	24	45039										
DSPP	1834	hgsc.bcm.edu	37	chr4	88536475	88536475	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gatagcagtgacagcaacgaAagcagcaatagcagtgacag	12	8	0	2	rs576476534	byFrequency	TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr4:88536475A>C	ENST00000282478.7	+	4	2694	c.2661A>C	c.(2659-2661)gaA>gaC	p.E887D	RP11-742B18.1_ENST00000506480.1_RNA|DSPP_ENST00000399271.1_Missense_Mutation_p.E887D			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	887	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		acagcaacgaaagcagcaata	0.488													a|||	3	0.000599042	0.0008	0.0	5008	,	,		31731	0.001		0.001	False		,,,				2504	0.0															0													76	91	86					4																	88536475		1633	2927	4560	SO:0001583	missense	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.2661A>C	4.37:g.88536475A>C	ENSP00000282478:p.Glu887Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	Missense_Mutation	SNP	ENST00000282478.7	37	CCDS43248.1	.	.	.	.	.	.	.	.	.	.	a	0.030	-1.340968	0.01277	.	.	ENSG00000152591	ENST00000399271;ENST00000282478	D;D	0.87650	-2.28;-2.28	0.951	0.0257	0.14146	.	.	.	.	.	T	0.59404	0.2191	N	0.00621	-1.32	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.52852	-0.8520	9	0.44086	T	0.13	.	1.9373	0.03340	0.3085:0.4592:0.0:0.2323	.	887	Q9NZW4	DSPP_HUMAN	D	887	ENSP00000382213:E887D;ENSP00000282478:E887D	ENSP00000282478:E887D	E	+	3	2	DSPP	88755499	0.000000	0.05858	0.916000	0.36221	0.001000	0.01503	-1.876000	0.01633	-0.574000	0.05990	-3.628000	0.00027	GAA		0.488	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		C	88536475	A	C	88536475	3	2	692	1	0	0	0	0	1	0	0	0	4784	11	1	5	2675	5	DSPP	4	88536475	Missense_Mutation	SNP	A	TCGA-MH-A560-01A-11D-A26P-10		88536475	102617801	25	45040										
FGG	2266	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	155526043	155526043	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gtttccgcagggtgctctggTctgacctgtttggctccccc	12	14	2	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr4:155526043T>C	ENST00000336098.3	-	9	1343	c.1305A>G	c.(1303-1305)agA>agG	p.R435R	FGG_ENST00000407946.1_Silent_p.R443R|FGG_ENST00000404648.3_Intron|FGG_ENST00000405164.1_Intron	NM_021870.2	NP_068656.2	P02679	FIBG_HUMAN	fibrinogen gamma chain	435	Platelet aggregation and Staphylococcus clumping.			R -> Y (in Ref. 15; AA sequence). {ECO:0000305}.	blood coagulation (GO:0007596)|cell-matrix adhesion (GO:0007160)|cellular protein complex assembly (GO:0043623)|extracellular matrix organization (GO:0030198)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902042)|platelet activation (GO:0030168)|platelet aggregation (GO:0070527)|platelet degranulation (GO:0002576)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of exocytosis (GO:0045921)|positive regulation of heterotypic cell-cell adhesion (GO:0034116)|positive regulation of peptide hormone secretion (GO:0090277)|positive regulation of protein secretion (GO:0050714)|positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)|positive regulation of vasoconstriction (GO:0045907)|protein polymerization (GO:0051258)|response to calcium ion (GO:0051592)|signal transduction (GO:0007165)	blood microparticle (GO:0072562)|cell cortex (GO:0005938)|cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|fibrinogen complex (GO:0005577)|plasma membrane (GO:0005886)|platelet alpha granule (GO:0031091)|platelet alpha granule lumen (GO:0031093)	cell adhesion molecule binding (GO:0050839)|metal ion binding (GO:0046872)|receptor binding (GO:0005102)|structural molecule activity (GO:0005198)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(9)|prostate(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	27	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	GGTGCTCTGGTCTGACCTGTT	0.433																																																0													198	188	192					4																	155526043		2203	4300	6503	SO:0001819	synonymous_variant	2266				CCDS3788.1, CCDS47153.1	4q28	2014-09-17			ENSG00000171557	ENSG00000171557		"Fibrinogen C domain containing", "Endogenous ligands"	3694	protein-coding gene	gene with protein product		134850	"fibrinogen, gamma polypeptide"				Standard	NM_000509		Approved		uc003ioj.3	P02679	OTTHUMG00000150329	ENST00000336098.3:c.1305A>G	4.37:g.155526043T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K057|P04469|P04470|Q53Y18|Q96A14|Q96KJ3|Q9UC62|Q9UC63|Q9UCF3	Silent	SNP	ENST00000336098.3	37	CCDS3788.1																																																																																				0.433	FGG-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000317581.1	NM_021870		C	155526043	T	C	155526043	2	2	692	1	0	0	0	0	0	0	0	1	5877	1664	58	3		3	FGG	4	155526043	Silent	SNP	T	TCGA-MH-A560-01A-11D-A26P-10	66989568	155526043	35628233	26	45041										
CDH18	1016	broad.mit.edu;bcgsc.ca	37	chr5	19612631	19612631	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	agccctccaacttgcccagcCatgtctttggcttgaatgac	8	14	1	2			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr5:19612631C>T	ENST00000507958.1	-	8	1713	c.723G>A	c.(721-723)atG>atA	p.M241I	CDH18_ENST00000274170.4_Missense_Mutation_p.M241I|CDH18_ENST00000502796.1_Missense_Mutation_p.M241I|CDH18_ENST00000506372.1_Missense_Mutation_p.M241I|CDH18_ENST00000382275.1_Missense_Mutation_p.M241I|CDH18_ENST00000511273.1_Missense_Mutation_p.M241I			Q13634	CAD18_HUMAN	cadherin 18, type 2	241	Cadherin 2. {ECO:0000255|PROSITE- ProRule:PRU00043}.				adherens junction organization (GO:0034332)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)	p.M241I(2)		breast(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(24)|lung(76)|ovary(5)|prostate(4)|skin(6)|upper_aerodigestive_tract(1)	138	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CTTGCCCAGCCATGTCTTTGG	0.418																																																2	Substitution - Missense(2)	lung(2)											143	132	136					5																	19612631		2203	4300	6503	SO:0001583	missense	1016			U59325	CCDS3889.1, CCDS54835.1, CCDS75229.1	5p14.3	2010-01-26			ENSG00000145526	ENSG00000145526		"Cadherins / Major cadherins"	1757	protein-coding gene	gene with protein product		603019				9030594, 10191097	Standard	NM_004934		Approved	CDH14, EY-CADHERIN	uc003jgd.3	Q13634	OTTHUMG00000090578	ENST00000507958.1:c.723G>A	5.37:g.19612631C>T	ENSP00000425093:p.Met241Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0I2|B4DHG6|Q8N5Z2	Missense_Mutation	SNP	ENST00000507958.1	37	CCDS3889.1	.	.	.	.	.	.	.	.	.	.	C	33	5.199495	0.94997	.	.	ENSG00000145526	ENST00000382275;ENST00000507958;ENST00000542864;ENST00000274170;ENST00000506372;ENST00000502796;ENST00000515257;ENST00000511273	T;T;T;T;T;T;T	0.51817	0.69;0.69;0.69;0.69;0.69;0.69;0.69	5.95	5.95	0.96441	Cadherin (5);Cadherin-like (1);	0.000000	0.85682	D	0.000000	T	0.69405	0.3107	M	0.69823	2.125	0.58432	D	0.999999	D;D	0.89917	0.99;1.0	D;D	0.91635	0.972;0.999	T	0.66610	-0.5880	9	.	.	.	.	18.9386	0.92597	0.0:1.0:0.0:0.0	.	241;241	B4DHG6;Q13634	.;CAD18_HUMAN	I	241;241;241;241;241;241;187;241	ENSP00000371710:M241I;ENSP00000425093:M241I;ENSP00000274170:M241I;ENSP00000424931:M241I;ENSP00000422138:M241I;ENSP00000427383:M187I;ENSP00000425854:M241I	.	M	-	3	0	CDH18	19648388	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.672000	0.83956	2.817000	0.96982	0.563000	0.77884	ATG		0.418	CDH18-005	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366747.1	NM_004934		T	19612631	C	T	19612631	3	4	692	1	0	0	0	0	1	0	0	0	3105	594	21	2	1681	2	CDH18	5	19612631	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10		19612631	161302629	27	45042										
AMACR	23600	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	34004755	34004755	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	ttataatgcccagtgcacacAtaaggccaccaccagcaaag	7	13	0	0	rs147265006		TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr5:34004755A>G	ENST00000335606.6	-	3	564	c.476T>C	c.(475-477)aTg>aCg	p.M159T	RP11-1084J3.4_ENST00000382079.3_Intron|AMACR_ENST00000514195.1_Intron|AMACR_ENST00000382085.3_Missense_Mutation_p.M159T|AMACR_ENST00000502637.1_Missense_Mutation_p.M159T|AMACR_ENST00000426255.2_Missense_Mutation_p.M159T|AMACR_ENST00000382068.3_Intron|AMACR_ENST00000441713.2_Intron|AMACR_ENST00000512079.1_Missense_Mutation_p.M159T|AMACR_ENST00000382072.2_Intron	NM_001167595.1|NM_014324.5	NP_001161067.1|NP_055139.4	Q9UHK6	AMACR_HUMAN	alpha-methylacyl-CoA racemase	159					bile acid biosynthetic process (GO:0006699)|bile acid metabolic process (GO:0008206)|cellular lipid metabolic process (GO:0044255)|fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|peroxisomal matrix (GO:0005782)|peroxisome (GO:0005777)	alpha-methylacyl-CoA racemase activity (GO:0008111)|receptor binding (GO:0005102)			endometrium(3)|kidney(1)|large_intestine(4)|lung(9)|stomach(1)|urinary_tract(1)	19						CAGTGCACACATAAGGCCACC	0.463																																																0													127	112	117					5																	34004755		2203	4300	6503	SO:0001583	missense	23600			AF047020	CCDS3902.1, CCDS3903.1, CCDS54836.1	5p13.2	2012-05-16			ENSG00000242110	ENSG00000242110	5.1.99.4		451	protein-coding gene	gene with protein product		604489				9307041	Standard	NM_014324		Approved	RACE	uc003jij.3	Q9UHK6	OTTHUMG00000090734	ENST00000335606.6:c.476T>C	5.37:g.34004755A>G	ENSP00000334424:p.Met159Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A5YM47|B8Y916|B8Y918|F8W9N1|O43673|Q3KT79|Q96GH1|Q9Y3Q1	Missense_Mutation	SNP	ENST00000335606.6	37	CCDS3902.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	A	3.429	-0.116430	0.06881	.	.	ENSG00000242110	ENST00000335606;ENST00000382085;ENST00000502637	T;T;T	0.54071	0.59;0.59;0.59	5.92	3.25	0.37280	CoA-transferase family III domain (2);	0.285879	0.49305	D	0.000146	T	0.36552	0.0971	N	0.20845	0.615	0.80722	D	1	B;B;B;B	0.22146	0.016;0.065;0.044;0.044	B;B;B;B	0.25405	0.06;0.02;0.034;0.034	T	0.15838	-1.0423	10	0.37606	T	0.19	-16.8025	11.0712	0.48004	0.855:0.0:0.145:0.0	.	159;159;159;159	B3KMU8;F8W9N1;D6RB81;Q9UHK6	.;.;.;AMACR_HUMAN	T	159	ENSP00000334424:M159T;ENSP00000371517:M159T;ENSP00000424351:M159T	ENSP00000334424:M159T	M	-	2	0	AMACR	34040512	0.734000	0.28142	1.000000	0.80357	0.008000	0.06430	3.781000	0.55394	1.074000	0.40909	-0.250000	0.11733	ATG		0.463	AMACR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207467.1	NM_014324		G	34004755	A	G	34004755	3	3	692	1	0	0	0	0	1	0	0	0	562	217	8	3	1014	3	AMACR	5	34004755	Missense_Mutation	SNP	A	TCGA-MH-A560-01A-11D-A26P-10	14392124	34004755	146910505	28	45043										
PPWD1	23398	broad.mit.edu;bcgsc.ca	37	chr5	64867921	64867921	+	Frame_Shift_Del	DEL	C	C	-													0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	cctcctcatgaatataaattCcccaaaaatgtgaactggga							TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr5:64867921delC	ENST00000261308.5	+	5	849	c.777delC	c.(775-777)ttcfs	p.F259fs	PPWD1_ENST00000538977.1_Frame_Shift_Del_p.F103fs|PPWD1_ENST00000535264.1_Frame_Shift_Del_p.F229fs	NM_015342.3	NP_056157.1	Q96BP3	PPWD1_HUMAN	peptidylprolyl isomerase domain and WD repeat containing 1	259					mRNA splicing, via spliceosome (GO:0000398)|protein folding (GO:0006457)	catalytic step 2 spliceosome (GO:0071013)|nucleus (GO:0005634)	peptidyl-prolyl cis-trans isomerase activity (GO:0003755)			breast(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(6)|ovary(1)|prostate(1)	19		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		Lung(70;0.00451)		AATATAAATTCCCCAAAAATG	0.393																																																0													65	70	68					5																	64867921		2203	4300	6503	SO:0001589	frameshift_variant	23398			AK025679	CCDS3985.1, CCDS64161.1, CCDS64162.1	5q12.3	2013-01-09			ENSG00000113593	ENSG00000113593		"WD repeat domain containing"	28954	protein-coding gene	gene with protein product						7584044	Standard	NM_015342		Approved	KIAA0073	uc003jtv.5	Q96BP3	OTTHUMG00000131226	ENST00000261308.5:c.777delC	5.37:g.64867921delC	ENSP00000261308:p.Phe259fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DWR9|Q15002|Q7KZ89	Frame_Shift_Del	DEL	ENST00000261308.5	37	CCDS3985.1																																																																																				0.393	PPWD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253970.2	NM_015342		-	64867921	C	-	64867921	7	5	692	1	0	1	0	1	0	0	0	0	12424	854	30	0	795	0	PPWD1	5	64867921	Frame_Shift_Del	DEL	C	TCGA-MH-A560-01A-11D-A26P-10	30863166	64867921	116047339	29	45044										
TNXB	7148	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	32052212	32052212	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	atcttggcttcagccaccagCggaccatgcctcttcttgcc	8	16	4	0			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr6:32052212C>T	ENST00000375244.3	-	8	3624	c.3423G>A	c.(3421-3423)ccG>ccA	p.P1141P	TNXB_ENST00000375247.2_Silent_p.P1141P			P22105	TENX_HUMAN	tenascin XB	1228					actin cytoskeleton organization (GO:0030036)|cell adhesion (GO:0007155)|cell-matrix adhesion (GO:0007160)|collagen fibril organization (GO:0030199)|collagen metabolic process (GO:0032963)|elastic fiber assembly (GO:0048251)|extracellular fibril organization (GO:0043206)|fatty acid metabolic process (GO:0006631)|regulation of JUN kinase activity (GO:0043506)|single organismal cell-cell adhesion (GO:0016337)|triglyceride metabolic process (GO:0006641)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|proteinaceous extracellular matrix (GO:0005578)	heparin binding (GO:0008201)|integrin binding (GO:0005178)			endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|prostate(1)	8						CAGCCACCAGCGGACCATGCC	0.557																																																0													68	74	72					6																	32052212		1364	2608	3972	SO:0001819	synonymous_variant	7148			X71923	CCDS4736.1	6p21.3	2013-02-11			ENSG00000168477	ENSG00000168477		"Fibrinogen C domain containing", "Fibronectin type III domain containing"	11976	protein-coding gene	gene with protein product		600985		TNXB1, TNXB2		8530023	Standard	NM_019105		Approved	TNXBS, XBS, XB	uc021yvf.2	P22105	OTTHUMG00000031088	ENST00000375244.3:c.3423G>A	6.37:g.32052212C>T		Somatic		WXS	Illumina HiSeq	Phase_I	P78530|P78531|Q08424|Q08AM0|Q08AM1|Q59GU7|Q5SQD3|Q5ST74|Q7L8Q4|Q8N4R1|Q9NPK9|Q9UC10|Q9UC11|Q9UC12|Q9UC13|Q9UMG7	Silent	SNP	ENST00000375244.3	37																																																																																					0.557	TNXB-001	PUTATIVE	not_organism_supported|basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000268927.2	NM_019105		T	32052212	C	T	32052212	2	4	692	1	0	0	0	0	0	0	0	1	16358	755	27	1		1	TNXB	6	32052212	Silent	SNP	C	TCGA-MH-A560-01A-11D-A26P-10		32052212	139062855	30	45045										
THSD7A	221981	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	11675888	11675888	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	ctctttttcttaataagctcGcgggcttctggatcctttac	7	11	3	0	rs375820480		TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr7:11675888G>A	ENST00000423059.4	-	2	1142	c.891C>T	c.(889-891)cgC>cgT	p.R297R	THSD7A_ENST00000480061.1_5'Flank	NM_015204.2	NP_056019.1	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	297					angiogenesis (GO:0001525)|cell differentiation (GO:0030154)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(1)|autonomic_ganglia(1)|breast(5)|cervix(1)|endometrium(8)|kidney(2)|large_intestine(7)|lung(68)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(11)	113				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		TAATAAGCTCGCGGGCTTCTG	0.463										HNSCC(18;0.044)																																						0								G		0,3716		0,0,1858	137	131	133		891	-11.2	0.6	7		133	1,8219		0,1,4109	no	coding-synonymous	THSD7A	NM_015204.2		0,1,5967	AA,AG,GG		0.0122,0.0,0.0084		297/1658	11675888	1,11935	1858	4110	5968	SO:0001819	synonymous_variant	221981				CCDS47543.1	7p21.3	2006-10-16			ENSG00000005108	ENSG00000005108			22207	protein-coding gene	gene with protein product		612249					Standard	NM_015204		Approved	KIAA0960	uc021zzn.1	Q9UPZ6	OTTHUMG00000152346	ENST00000423059.4:c.891C>T	7.37:g.11675888G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000423059.4	37	CCDS47543.1																																																																																				0.463	THSD7A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000325944.4	XM_928187.2		A	11675888	G	A	11675888	2	1	692	1	0	0	0	0	0	0	0	1	15891	1074	38	1		1	THSD7A	7	11675888	Silent	SNP	G	TCGA-MH-A560-01A-11D-A26P-10		11675888	147462775	31	45046										
ZAN	7455	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	100352929	100352929	+	RNA	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	ccaggcctagctgtgggcccCtctgtcgggagggctgtgtc	16	13	1	0			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr7:100352929C>G	ENST00000348028.3	+	0	3370				ZAN_ENST00000546292.1_RNA|ZAN_ENST00000546213.1_RNA|ZAN_ENST00000349350.6_RNA|ZAN_ENST00000421100.1_RNA|ZAN_ENST00000427578.1_RNA|ZAN_ENST00000443370.1_RNA|ZAN_ENST00000538115.1_RNA|ZAN_ENST00000449052.1_RNA|ZAN_ENST00000542585.1_RNA			Q9Y493	ZAN_HUMAN	zonadhesin (gene/pseudogene)						binding of sperm to zona pellucida (GO:0007339)|single organismal cell-cell adhesion (GO:0016337)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(2)|breast(3)|central_nervous_system(3)|endometrium(21)|kidney(6)|large_intestine(18)|lung(60)|ovary(4)|pancreas(3)|prostate(5)|skin(8)|stomach(3)|upper_aerodigestive_tract(3)	139	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CTGTGGGCCCCTCTGTCGGGA	0.557																																																0													121	127	125					7																	100352929		1929	4130	6059			7455			U83191		7q22.1	2013-10-10	2013-10-10		ENSG00000146839	ENSG00000146839			12857	protein-coding gene	gene with protein product		602372	"zonadhesin"			9799793, 17033959	Standard	NM_003386		Approved		uc003uwk.3	Q9Y493	OTTHUMG00000157037		7.37:g.100352929C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0FKC8|D6W5W4|O00218|Q96L85|Q96L86|Q96L87|Q96L88|Q96L89|Q96L90|Q9BXN9|Q9BZ83|Q9BZ84|Q9BZ85|Q9BZ86|Q9BZ87|Q9BZ88	Missense_Mutation	SNP	ENST00000348028.3	37		.	.	.	.	.	.	.	.	.	.	c	5.830	0.337470	0.11013	.	.	ENSG00000146839	ENST00000546292;ENST00000538115;ENST00000542585	D;D;D	0.90324	-2.65;-2.65;-2.65	5.13	-0.258	0.12975	Protease inhibitor I8, cysteine-rich trypsin inhibitor-like (2);	1.663920	0.03653	N	0.241360	T	0.81470	0.4829	N	0.10645	0.015	0.09310	N	0.999999	B;B	0.18461	0.023;0.028	B;B	0.18263	0.012;0.021	T	0.67518	-0.5650	10	0.30078	T	0.28	.	10.313	0.43721	0.0:0.3794:0.5402:0.0803	.	1069;1069	F5H0T8;Q9Y493	.;ZAN_HUMAN	V	1069	ENSP00000445943:L1069V;ENSP00000445091:L1069V;ENSP00000444427:L1069V	ENSP00000423579:L1069V	L	+	1	0	ZAN	100190865	0.000000	0.05858	0.000000	0.03702	0.014000	0.08584	-0.012000	0.12699	-0.157000	0.11059	0.651000	0.88453	CTC		0.557	ZAN-006	KNOWN	basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000347214.1	NM_003386		G	100352929	C	G	100352929	1	3	692	0	1	0	0	0	0	0	0	0	17525	681	24	4		4	ZAN	7	100352929	RNA	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	88677041	100352929	58785734	32	45047										
IMMP2L	83943	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	111161447	111161447	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gccacaggcaccgccacaaaGaagcctttacaaaaggcctt	8	14	0	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr7:111161447G>A	ENST00000405709.2	-	2	499	c.57C>T	c.(55-57)ttC>ttT	p.F19F	IMMP2L_ENST00000331762.3_Silent_p.F19F|IMMP2L_ENST00000447215.1_Silent_p.F19F|IMMP2L_ENST00000452895.1_Silent_p.F19F|IMMP2L_ENST00000437687.1_Silent_p.F19F|IMMP2L_ENST00000415362.1_Silent_p.F19F	NM_032549.3	NP_115938.1	Q96T52	IMP2L_HUMAN	IMP2 inner mitochondrial membrane peptidase-like (S. cerevisiae)	19					ovarian follicle development (GO:0001541)|ovulation (GO:0030728)|protein processing involved in protein targeting to mitochondrion (GO:0006627)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)|mitochondrial inner membrane peptidase complex (GO:0042720)	peptidase activity (GO:0008233)|serine-type peptidase activity (GO:0008236)			endometrium(3)|large_intestine(6)|lung(5)	14				UCEC - Uterine corpus endometrioid carcinoma (4;0.053)|Epithelial(3;2.27e-07)|all cancers(3;1.36e-05)|STAD - Stomach adenocarcinoma(3;0.00148)|KIRC - Kidney renal clear cell carcinoma(11;0.0339)|Lung(3;0.0375)|Kidney(11;0.0415)|LUSC - Lung squamous cell carcinoma(290;0.173)		CCGCCACAAAGAAGCCTTTAC	0.433																																																0													107	106	106					7																	111161447		2203	4300	6503	SO:0001819	synonymous_variant	83943			AF359563	CCDS5753.1	7q31	2014-01-06	2005-08-17		ENSG00000184903	ENSG00000184903			14598	protein-coding gene	gene with protein product		605977	"IMP2 inner mitochondrial membrane protease-like (S. cerevisiae)", "IMMP2L intronic transcript 1 (non-protein coding)"	IMMP2L-IT1		11254443	Standard	NM_032549		Approved	IMP2	uc010ljr.2	Q96T52	OTTHUMG00000155023	ENST00000405709.2:c.57C>T	7.37:g.111161447G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q75MF1|Q75MN9|Q75MP0|Q75MS5|Q75MS8|Q96HJ2	Silent	SNP	ENST00000405709.2	37	CCDS5753.1																																																																																				0.433	IMMP2L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000338109.4	NM_032549		A	111161447	G	A	111161447	2	1	692	1	0	0	0	0	0	0	0	1	7724	933	33	2		2	IMMP2L	7	111161447	Silent	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	10808518	111161447	47977216	33	45048										
KIAA1147	57189	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	141365048	141365048	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gccacgttcacgtagaagaaAggtttggactcaggaatggt	13	7	2	2			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr7:141365048A>T	ENST00000536163.1	-	6	890	c.891T>A	c.(889-891)ccT>ccA	p.P297P	RP5-894A10.6_ENST00000602609.1_RNA|KIAA1147_ENST00000482493.1_Silent_p.P193P	NM_001080392.1	NP_001073861.1	A4D1U4	LCHN_HUMAN	KIAA1147	297										breast(3)|endometrium(4)|kidney(2)|large_intestine(1)|ovary(1)|skin(1)	12	Melanoma(164;0.0171)					CGTAGAAGAAAGGTTTGGACT	0.597																																																0													82	89	87					7																	141365048		2145	4228	6373	SO:0001819	synonymous_variant	57189			AB032973	CCDS47726.1	7q34	2012-10-04			ENSG00000257093	ENSG00000257093			29472	protein-coding gene	gene with protein product							Standard	NM_001080392		Approved	LCHN	uc003vwk.3	A4D1U4	OTTHUMG00000157539	ENST00000536163.1:c.891T>A	7.37:g.141365048A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9ULS3	Silent	SNP	ENST00000536163.1	37	CCDS47726.1																																																																																				0.597	KIAA1147-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349104.1			T	141365048	A	T	141365048	2	4	692	1	0	0	0	0	0	0	0	1	8217	59	3	5		5	KIAA1147	7	141365048	Silent	SNP	A	TCGA-MH-A560-01A-11D-A26P-10	30203601	141365048	17773615	34	45049										
CUL1	8454	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	148496376	148496376	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	ttgttgcataggcggccatcGtgagaatcatgaagatgagg	14	6	1	4			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr7:148496376G>A	ENST00000325222.4	+	21	2425	c.2146G>A	c.(2146-2148)Gtg>Atg	p.V716M	CUL1_ENST00000409469.1_Missense_Mutation_p.V716M|CUL1_ENST00000602748.1_Missense_Mutation_p.V716M	NM_003592.2	NP_003583.2	Q13616	CUL1_HUMAN	cullin 1	716					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|cell cycle arrest (GO:0007050)|cell proliferation (GO:0008283)|G1/S transition of mitotic cell cycle (GO:0000082)|G2/M transition of mitotic cell cycle (GO:0000086)|intrinsic apoptotic signaling pathway (GO:0097193)|mitotic cell cycle (GO:0000278)|negative regulation of cell proliferation (GO:0008285)|Notch signaling pathway (GO:0007219)|organ morphogenesis (GO:0009887)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein monoubiquitination (GO:0006513)|protein ubiquitination (GO:0016567)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146)|viral process (GO:0016032)	cullin-RING ubiquitin ligase complex (GO:0031461)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|Parkin-FBXW7-Cul1 ubiquitin ligase complex (GO:1990452)|SCF ubiquitin ligase complex (GO:0019005)				breast(2)|central_nervous_system(2)|endometrium(1)|kidney(5)|large_intestine(10)|liver(2)|lung(10)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(4)	40	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			GGCGGCCATCGTGAGAATCAT	0.478																																																0													139	106	117					7																	148496376		2203	4300	6503	SO:0001583	missense	8454			U58087	CCDS34772.1	7q36.1	2011-05-24			ENSG00000055130	ENSG00000055130			2551	protein-coding gene	gene with protein product		603134				8681378	Standard	NM_003592		Approved		uc003wey.3	Q13616	OTTHUMG00000152776	ENST00000325222.4:c.2146G>A	7.37:g.148496376G>A	ENSP00000326804:p.Val716Met	Somatic		WXS	Illumina HiSeq	Phase_I	D3DWG3|O60719|Q08AL6|Q8IYW1	Missense_Mutation	SNP	ENST00000325222.4	37	CCDS34772.1	.	.	.	.	.	.	.	.	.	.	.	28.3	4.905971	0.92107	.	.	ENSG00000055130	ENST00000409469;ENST00000325222;ENST00000433865	D;D	0.89270	-2.49;-2.49	5.3	5.3	0.74995	Cullin protein, neddylation domain (2);Winged helix-turn-helix transcription repressor DNA-binding (1);	0.000000	0.85682	D	0.000000	D	0.96417	0.8831	H	0.96633	3.855	0.80722	D	1	D;D	0.76494	0.999;0.999	D;P	0.65233	0.933;0.64	D	0.97776	1.0229	10	0.87932	D	0	-16.3531	18.9531	0.92647	0.0:0.0:1.0:0.0	.	643;716	E7EWR0;Q13616	.;CUL1_HUMAN	M	716;716;643	ENSP00000387160:V716M;ENSP00000326804:V716M	ENSP00000326804:V716M	V	+	1	0	CUL1	148127309	1.000000	0.71417	1.000000	0.80357	0.947000	0.59692	9.472000	0.97709	2.467000	0.83353	0.557000	0.71058	GTG		0.478	CUL1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467785.1	NM_003592		A	148496376	G	A	148496376	3	1	692	1	0	0	0	0	1	0	0	0	4056	1145	40	1	2224	1	CUL1	7	148496376	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	7131328	148496376	10642287	35	45050										
DEFA6	1671	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	6783427	6783427	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	cggcaaagtcctggtcatttGccccacgctgctcctgggca	11	15	1	0	rs371286175		TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr8:6783427G>A	ENST00000297436.2	-	1	171	c.131C>T	c.(130-132)gCa>gTa	p.A44V	GS1-24F4.3_ENST00000526235.1_RNA	NM_001926.3	NP_001917.1	Q01524	DEF6_HUMAN	defensin, alpha 6, Paneth cell-specific	44					antibacterial humoral response (GO:0019731)|defense response to fungus (GO:0050832)|innate immune response (GO:0045087)|killing of cells of other organism (GO:0031640)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi lumen (GO:0005796)				lung(4)	4			STAD - Stomach adenocarcinoma(24;0.0322)	COAD - Colon adenocarcinoma(149;0.0572)|READ - Rectum adenocarcinoma(644;0.121)		CTGGTCATTTGCCCCACGCTG	0.557																																																0								G	VAL/ALA	0,4406		0,0,2203	70	58	62		131	-3.3	0	8		62	1,8599		0,1,4299	no	missense	DEFA6	NM_001926.3	64	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	benign	44/101	6783427	1,13005	2203	4300	6503	SO:0001583	missense	1671			M98331	CCDS5960.1	8p23.1	2007-02-20			ENSG00000164822	ENSG00000164822		"Defensins, alpha"	2765	protein-coding gene	gene with protein product		600471				8417977	Standard	NM_001926		Approved	HD-6, DEF6	uc003wqt.3	Q01524	OTTHUMG00000149984	ENST00000297436.2:c.131C>T	8.37:g.6783427G>A	ENSP00000297436:p.Ala44Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6EZF9	Missense_Mutation	SNP	ENST00000297436.2	37	CCDS5960.1	.	.	.	.	.	.	.	.	.	.	.	2.180	-0.387804	0.04932	0.0	1.16E-4	ENSG00000164822	ENST00000297436	T	0.32023	1.47	1.85	-3.35	0.04928	Defensin propeptide (1);	2.198720	0.02497	N	0.090070	T	0.24624	0.0597	L	0.39245	1.2	0.09310	N	1	B	0.30763	0.294	B	0.29942	0.109	T	0.12293	-1.0553	10	0.44086	T	0.13	.	5.9699	0.19346	0.0:0.1529:0.3749:0.4722	.	44	Q01524	DEF6_HUMAN	V	44	ENSP00000297436:A44V	ENSP00000297436:A44V	A	-	2	0	DEFA6	6770837	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-0.753000	0.04792	-1.668000	0.01471	-1.471000	0.01009	GCA		0.557	DEFA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206739.1	NM_001926		A	6783427	G	A	6783427	3	1	692	1	0	0	0	0	1	0	0	0	4395	1319	46	2	179	2	DEFA6	8	6783427	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10		6783427	139580595	36	45051										
MFHAS1	9258	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	8655002	8655002	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gggctgactcagcaactcccCtgtaggaggagagagaaaaa	13	9	1	3			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr8:8655002C>A	ENST00000276282.6	-	2	3585		c.e2-1		MFHAS1_ENST00000520091.1_Splice_Site	NM_004225.2	NP_004216.2	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified sequence 1											endometrium(1)|kidney(3)|large_intestine(7)|lung(6)|ovary(1)|prostate(2)|stomach(1)	21		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)		AGCAACTCCCCTGTAGGAGGA	0.547																																					Melanoma(103;1201 2045 17515 28966)											0													78	66	70					8																	8655002		2203	4300	6503	SO:0001630	splice_region_variant	9258			AB016816	CCDS34844.1	8p23.1	2014-03-07			ENSG00000147324	ENSG00000147324			16982	protein-coding gene	gene with protein product	"leucine rich repeat containing 65", "malignant fibrous histiocytoma-amplified sequences with leucine-rich tandem repeats 1"	605352				9973190	Standard	NM_004225		Approved	MASL1, LRRC65	uc003wsj.1	Q9Y4C4	OTTHUMG00000163676	ENST00000276282.6:c.2999-1G>T	8.37:g.8655002C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q96CI0	Splice_Site	SNP	ENST00000276282.6	37	CCDS34844.1	.	.	.	.	.	.	.	.	.	.	C	26.6	4.752676	0.89753	.	.	ENSG00000147324	ENST00000276282	.	.	.	5.73	5.73	0.89815	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	18.882	0.92358	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	MFHAS1	8692412	1.000000	0.71417	1.000000	0.80357	0.966000	0.64601	7.251000	0.78297	2.703000	0.92315	0.551000	0.68910	.		0.547	MFHAS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374724.2	NM_004225	Intron	A	8655002	C	A	8655002	5	1	692	1	0	0	0	0	0	0	1	0	9528	695	24	4	168	4	MFHAS1	8	8655002	Splice_Site	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	1871575	8655002	137709020	37	45052										
PNMA2	10687	broad.mit.edu	37	chr8	26365721	26365721	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tctccgtggcctgttccaacCagacctcaaaggactcttcc	7	16	3	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr8:26365721C>T	ENST00000522362.2	-	3	1445	c.551G>A	c.(550-552)tGg>tAg	p.W184*	PNMA2_ENST00000522764.1_5'Flank	NM_007257.5	NP_009188.1	Q9UL42	PNMA2_HUMAN	paraneoplastic Ma antigen 2	184					positive regulation of apoptotic process (GO:0043065)	nucleus (GO:0005634)				NS(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(3)	11		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)		ctgttccaaccagacctcaaa	0.587																																																0													70	71	71					8																	26365721		2203	4300	6503	SO:0001587	stop_gained	10687				CCDS34868.1	8p21.1	2012-02-09	2012-02-09		ENSG00000240694	ENSG00000240694		"Paraneoplastic Ma antigens"	9159	protein-coding gene	gene with protein product		603970	"paraneoplastic antigen MA2"			10362822	Standard	NM_007257		Approved	MA2, RGAG2	uc003xez.2	Q9UL42	OTTHUMG00000163816	ENST00000522362.2:c.551G>A	8.37:g.26365721C>T	ENSP00000429344:p.Trp184*	Somatic		WXS	Illumina HiSeq	Phase_I	B3KNY9|O94959|O95145|Q49A18|Q9UL43	Nonsense_Mutation	SNP	ENST00000522362.2	37	CCDS34868.1	.	.	.	.	.	.	.	.	.	.	C	42	9.576920	0.99210	.	.	ENSG00000240694	ENST00000522362	.	.	.	4.22	4.22	0.49857	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-26.614	12.388	0.55343	0.0:1.0:0.0:0.0	.	.	.	.	X	184	.	ENSP00000429344:W184X	W	-	2	0	PNMA2	26421638	1.000000	0.71417	1.000000	0.80357	0.634000	0.38068	2.873000	0.48475	2.640000	0.89533	0.655000	0.94253	TGG		0.587	PNMA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000375709.2	NM_007257		T	26365721	C	T	26365721	4	4	692	1	0	0	0	0	0	1	0	0	12161	595	21	2	547	2	PNMA2	8	26365721	Nonsense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	17710719	26365721	119998301	38	45053										
ADAM9	8754	ucsc.edu	37	chr8	38871523	38871523	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tttgtggtttatacttacaaCaaggaagggactttaatcac	8	6	1	0			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr8:38871523C>T	ENST00000487273.2	+	4	372	c.294C>T	c.(292-294)aaC>aaT	p.N98N	ADAM9_ENST00000466936.1_Silent_p.N98N|ADAM9_ENST00000481513.1_Silent_p.N98N	NM_003816.2	NP_003807.1	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9	98				Missing (in Ref. 2; no nucleotide entry). {ECO:0000305}.	activation of MAPKK activity (GO:0000186)|cell adhesion (GO:0007155)|cell adhesion mediated by integrin (GO:0033627)|cell-cell adhesion mediated by integrin (GO:0033631)|cell-matrix adhesion (GO:0007160)|cellular response to lipopolysaccharide (GO:0071222)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|integrin-mediated signaling pathway (GO:0007229)|keratinocyte differentiation (GO:0030216)|membrane protein ectodomain proteolysis (GO:0006509)|monocyte activation (GO:0042117)|PMA-inducible membrane protein ectodomain proteolysis (GO:0051088)|positive regulation of cell adhesion mediated by integrin (GO:0033630)|positive regulation of keratinocyte migration (GO:0051549)|positive regulation of macrophage fusion (GO:0034241)|positive regulation of membrane protein ectodomain proteolysis (GO:0051044)|positive regulation of protein secretion (GO:0050714)|response to calcium ion (GO:0051592)|response to glucocorticoid (GO:0051384)|response to hydrogen peroxide (GO:0042542)|response to laminar fluid shear stress (GO:0034616)|response to manganese ion (GO:0010042)|response to tumor necrosis factor (GO:0034612)|transforming growth factor beta receptor signaling pathway (GO:0007179)	basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|intrinsic component of external side of plasma membrane (GO:0031233)	collagen binding (GO:0005518)|integrin binding (GO:0005178)|laminin binding (GO:0043236)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|protein kinase C binding (GO:0005080)|SH3 domain binding (GO:0017124)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(5)|lung(14)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	31		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			ATACTTACAACAAGGAAGGGA	0.308																																																0													135	140	139					8																	38871523		2203	4300	6503	SO:0001819	synonymous_variant	8754			U41766	CCDS6112.1	8p11.23	2011-03-18	2010-06-24		ENSG00000168615	ENSG00000168615		"ADAM metallopeptidase domain containing"	216	protein-coding gene	gene with protein product	"meltrin gamma"	602713	"a disintegrin and metalloproteinase domain 9 (meltrin gamma)", "cone rod dystrophy 9"	CORD9		8647900, 11581183, 19409519	Standard	NR_027638		Approved	MDC9, KIAA0021, MCMP, Mltng	uc003xmr.3	Q13443	OTTHUMG00000159783	ENST00000487273.2:c.294C>T	8.37:g.38871523C>T		Somatic		WXS	Illumina HiSeq		B7ZLN7|Q10718|Q8NFM6	Silent	SNP	ENST00000487273.2	37	CCDS6112.1																																																																																				0.308	ADAM9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357291.2			T	38871523	C	T	38871523	2	4	692	1	0	0	0	0	0	0	0	1	253	477	17	2		2	ADAM9	8	38871523	Silent	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	12505802	38871523	107492499	39	45054										
ZC3H3	23144	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	144522452	144522452	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gctgacccccctgggcagtgGggaggtgcagccacggcagc	17	14	0	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr8:144522452G>T	ENST00000262577.5	-	11	2605	c.2574C>A	c.(2572-2574)ccC>ccA	p.P858P		NM_015117.2	NP_055932.2	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	858					mRNA polyadenylation (GO:0006378)|poly(A)+ mRNA export from nucleus (GO:0016973)|regulation of mRNA export from nucleus (GO:0010793)	nucleus (GO:0005634)	metal ion binding (GO:0046872)			breast(1)|endometrium(2)|kidney(2)|large_intestine(1)|lung(13)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	23	all_cancers(97;8.64e-11)|all_epithelial(106;6.43e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.107)|BRCA - Breast invasive adenocarcinoma(115;0.107)			CTGGGCAGTGGGGAGGTGCAG	0.682																																																0													15	18	17					8																	144522452		2192	4293	6485	SO:0001819	synonymous_variant	23144			D63484	CCDS6402.1	8q24.3	2012-07-05	2005-06-02	2005-06-02	ENSG00000014164	ENSG00000014164		"Zinc fingers, CCCH-type domain containing"	28972	protein-coding gene	gene with protein product			"zinc finger CCCH-type domain containing 3"	ZC3HDC3		8590280	Standard	NM_015117		Approved	KIAA0150	uc003yyd.2	Q8IXZ2	OTTHUMG00000165127	ENST00000262577.5:c.2574C>A	8.37:g.144522452G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q14163|Q8N4E2|Q9BUS4	Silent	SNP	ENST00000262577.5	37	CCDS6402.1																																																																																				0.682	ZC3H3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382011.2	NM_015117		T	144522452	G	T	144522452	2	4	692	1	0	0	0	0	0	0	0	1	17581	1219	43	4		4	ZC3H3	8	144522452	Silent	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	105650929	144522452	1841570	40	45055										
SETX	23064	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	135163729	135163729	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tcgcctgaacatgagaaggtAactctttttctaataaaaat	6	7	2	2			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr9:135163729A>G	ENST00000224140.5	-	17	6400	c.6218T>C	c.(6217-6219)tTa>tCa	p.L2073S	SETX_ENST00000372169.2_Missense_Mutation_p.L2073S|SETX_ENST00000393220.1_Missense_Mutation_p.L2073S	NM_015046.5	NP_055861.3	Q7Z333	SETX_HUMAN	senataxin	2073					cell death (GO:0008219)|circadian rhythm (GO:0007623)|DNA duplex unwinding (GO:0032508)|double-strand break repair (GO:0006302)|RNA processing (GO:0006396)|termination of RNA polymerase II transcription (GO:0006369)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)			breast(7)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(25)|liver(1)|lung(36)|ovary(2)|prostate(2)|skin(1)|stomach(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	97		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		ATGAGAAGGTAACTCTTTTTC	0.358																																																0													33	32	32					9																	135163729		2203	4300	6503	SO:0001583	missense	23064			AB014525	CCDS6947.1	9q34	2014-09-17	2005-11-29	2005-11-29	ENSG00000107290	ENSG00000107290			445	protein-coding gene	gene with protein product		608465	"amyotrophic lateral sclerosis 4", "spinocerebellar ataxia, recessive, non-Friedreich type 1"	ALS4, SCAR1		9497266, 11022012	Standard	NM_015046		Approved	KIAA0625, AOA2	uc004cbk.3	Q7Z333	OTTHUMG00000020834	ENST00000224140.5:c.6218T>C	9.37:g.135163729A>G	ENSP00000224140:p.Leu2073Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A2A396|B2RPB2|B5ME16|C9JQ10|O75120|Q3KQX4|Q5JUJ1|Q68DW5|Q6AZD7|Q7Z3J6|Q8WX33|Q9H9D1|Q9NVP9	Missense_Mutation	SNP	ENST00000224140.5	37	CCDS6947.1	.	.	.	.	.	.	.	.	.	.	A	13.01	2.108442	0.37242	.	.	ENSG00000107290	ENST00000224140;ENST00000436441;ENST00000372169;ENST00000393220	D;D;D;D	0.90900	-2.18;-2.75;-2.26;-1.87	5.5	5.5	0.81552	.	0.381500	0.24779	N	0.035673	D	0.89406	0.6706	L	0.31476	0.935	0.39629	D	0.970154	B;D;D	0.76494	0.203;0.999;0.998	B;D;P	0.68483	0.075;0.958;0.876	D	0.85262	0.1051	10	0.09338	T	0.73	.	8.5286	0.33319	0.9131:0.0:0.0869:0.0	.	2073;2073;2073	Q7Z333-3;Q7Z333;Q7Z333-4	.;SETX_HUMAN;.	S	2073;315;2073;2073	ENSP00000224140:L2073S;ENSP00000409143:L315S;ENSP00000361242:L2073S;ENSP00000376913:L2073S	ENSP00000224140:L2073S	L	-	2	0	SETX	134153550	0.972000	0.33761	0.996000	0.52242	0.786000	0.44442	2.256000	0.43231	2.221000	0.72209	0.528000	0.53228	TTA		0.358	SETX-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054774.3	NM_015046		G	135163729	A	G	135163729	3	3	692	1	0	0	0	0	1	0	0	0	14154	372	13	3	1855	3	SETX	9	135163729	Missense_Mutation	SNP	A	TCGA-MH-A560-01A-11D-A26P-10		135163729	6049702	41	45056										
TAF3	83860	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	8007636	8007636	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gagaaggagaagaaggagaaGgaaagagagaaagagaagag	18	0	0	8			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr10:8007636G>C	ENST00000344293.5	+	3	2369	c.2163G>C	c.(2161-2163)aaG>aaC	p.K721N		NM_031923.3	NP_114129.1	Q5VWG9	TAF3_HUMAN	TAF3 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 140kDa	721	Lys-rich.				maintenance of protein location in nucleus (GO:0051457)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)|transcription factor TFIID complex (GO:0005669)	zinc ion binding (GO:0008270)			NS(2)|breast(4)|endometrium(2)|kidney(1)|large_intestine(6)|lung(16)|ovary(3)|prostate(4)|skin(2)	40						agaaggagaaggaaagagaga	0.383																																																0													18	18	18					10																	8007636		1856	4075	5931	SO:0001583	missense	83860			AJ292190	CCDS41487.1	10p15.1	2013-01-28	2002-08-29		ENSG00000165632	ENSG00000165632		"Zinc fingers, PHD-type"	17303	protein-coding gene	gene with protein product		606576	"TAF3 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 140 kD"			11438666, 18549481	Standard	NM_031923		Approved	TAF140, TAFII140	uc010qbd.3	Q5VWG9	OTTHUMG00000017643	ENST00000344293.5:c.2163G>C	10.37:g.8007636G>C	ENSP00000340271:p.Lys721Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q05DA0|Q6GMS5|Q6P6B5|Q86VY6|Q9BQS9|Q9UFI8	Missense_Mutation	SNP	ENST00000344293.5	37	CCDS41487.1	.	.	.	.	.	.	.	.	.	.	G	11.76	1.735163	0.30774	.	.	ENSG00000165632	ENST00000344293	T	0.08634	3.07	5.68	4.59	0.56863	.	0.459877	0.21158	N	0.079203	T	0.13798	0.0334	M	0.81802	2.56	0.49299	D	0.999772	P	0.46706	0.883	B	0.40375	0.327	T	0.02301	-1.1180	10	0.36615	T	0.2	-14.6137	13.0132	0.58743	0.1321:0.0:0.8679:0.0	.	721	Q5VWG9	TAF3_HUMAN	N	721	ENSP00000340271:K721N	ENSP00000340271:K721N	K	+	3	2	TAF3	8047642	1.000000	0.71417	1.000000	0.80357	0.798000	0.45092	2.385000	0.44371	2.689000	0.91719	0.655000	0.94253	AAG		0.383	TAF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046725.1	NM_031923		C	8007636	G	C	8007636	3	2	692	1	0	0	0	0	1	0	0	0	15537	991	35	4	2173	4	TAF3	10	8007636	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10		8007636	127527111	42	45057										
DHTKD1	55526	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	12139749	12139749	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	ggcggactcatgacgcaggaGgaggtgtctgaaataaaatc	14	7	2	2			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr10:12139749G>C	ENST00000263035.4	+	8	1487	c.1425G>C	c.(1423-1425)gaG>gaC	p.E475D	DHTKD1_ENST00000465617.1_3'UTR	NM_018706.5	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain containing 1	475					cell death (GO:0008219)|generation of precursor metabolites and energy (GO:0006091)|glycolytic process (GO:0006096)|hematopoietic progenitor cell differentiation (GO:0002244)|tricarboxylic acid cycle (GO:0006099)	mitochondrion (GO:0005739)	oxoglutarate dehydrogenase (succinyl-transferring) activity (GO:0004591)|thiamine pyrophosphate binding (GO:0030976)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(11)|liver(2)|lung(14)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|soft_tissue(1)|stomach(3)|upper_aerodigestive_tract(1)	44		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			TGACGCAGGAGGAGGTGTCTG	0.488																																																0													67	62	64					10																	12139749		2203	4300	6503	SO:0001583	missense	55526			BC002477	CCDS7087.1	10p14	2003-11-24			ENSG00000181192	ENSG00000181192			23537	protein-coding gene	gene with protein product		614984				10997877	Standard	NM_018706		Approved	KIAA1630, MGC3090, DKFZP762M115	uc001ild.5	Q96HY7	OTTHUMG00000017677	ENST00000263035.4:c.1425G>C	10.37:g.12139749G>C	ENSP00000263035:p.Glu475Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q68CU5|Q9BUM8|Q9HCE2	Missense_Mutation	SNP	ENST00000263035.4	37	CCDS7087.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	12.11|12.11	1.839538|1.839538	0.32513|0.32513	.|.	.|.	ENSG00000181192|ENSG00000181192	ENST00000263035|ENST00000448829	T|.	0.16196|.	2.36|.	5.35|5.35	1.27|1.27	0.21489|0.21489	Dehydrogenase, E1 component (1);|.	0.112246|.	0.64402|.	D|.	0.000014|.	T|T	0.35770|0.35770	0.0943|0.0943	N|N	0.25144|0.25144	0.715|0.715	0.41129|0.41129	D|D	0.985874|0.985874	B|.	0.14012|.	0.009|.	B|.	0.17979|.	0.02|.	T|T	0.07046|0.07046	-1.0793|-1.0793	10|5	0.24483|.	T|.	0.36|.	-13.3397|-13.3397	4.01|4.01	0.09618|0.09618	0.3596:0.0:0.3864:0.254|0.3596:0.0:0.3864:0.254	.|.	475|.	Q96HY7|.	DHTK1_HUMAN|.	D|R	475|27	ENSP00000263035:E475D|.	ENSP00000263035:E475D|.	E|G	+|+	3|1	2|0	DHTKD1|DHTKD1	12179755|12179755	0.982000|0.982000	0.34865|0.34865	1.000000|1.000000	0.80357|0.80357	0.863000|0.863000	0.49368|0.49368	0.093000|0.093000	0.15086|0.15086	0.264000|0.264000	0.21851|0.21851	0.462000|0.462000	0.41574|0.41574	GAG|GGA		0.488	DHTKD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046777.1	NM_018706		C	12139749	G	C	12139749	3	2	692	1	0	0	0	0	1	0	0	0	4502	991	35	4	1455	4	DHTKD1	10	12139749	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	4132113	12139749	123394998	43	45058										
CSGALNACT2	55454	broad.mit.edu	37	chr10	43659419	43659419	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tgggacaagggagaggtcttGatgtttttctgtgatgttga	15	3	2	4	rs79064394		TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr10:43659419G>T	ENST00000374466.3	+	5	1421	c.1086G>T	c.(1084-1086)ttG>ttT	p.L362F		NM_018590.3	NP_061060.3	Q8N6G5	CGAT2_HUMAN	chondroitin sulfate N-acetylgalactosaminyltransferase 2	362					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate metabolic process (GO:0030204)|chondroitin sulfate proteoglycan biosynthetic process (GO:0050650)|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050653)|dermatan sulfate proteoglycan biosynthetic process (GO:0050651)|dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process (GO:0050652)|glycosaminoglycan metabolic process (GO:0030203)|proteoglycan biosynthetic process (GO:0030166)|small molecule metabolic process (GO:0044281)	Golgi cisterna membrane (GO:0032580)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)|membrane (GO:0016020)	acetylgalactosaminyltransferase activity (GO:0008376)|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity (GO:0047237)|metal ion binding (GO:0046872)	p.L362F(5)		endometrium(12)|kidney(3)|large_intestine(5)|lung(16)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	42						GAGAGGTCTTGATGTTTTTCT	0.433																																																5	Substitution - Missense(5)	endometrium(4)|kidney(1)											223	221	222					10																	43659419		2203	4300	6503	SO:0001583	missense	55454			AF116646	CCDS7201.1	10q11.21	2013-02-19			ENSG00000169826	ENSG00000169826		"Beta 4-glycosyltransferases"	24292	protein-coding gene	gene with protein product	"chondroitin beta1,4 N-acetylgalactosaminyltransferase 2"					12446672	Standard	NM_018590		Approved	GALNACT2, MGC40204, PRO0082, GALNACT-2	uc001jan.4	Q8N6G5	OTTHUMG00000018023	ENST00000374466.3:c.1086G>T	10.37:g.43659419G>T	ENSP00000363590:p.Leu362Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWL7|Q6MZJ5|Q6MZP6|Q8TCH4|Q9P1I6	Missense_Mutation	SNP	ENST00000374466.3	37	CCDS7201.1	.	.	.	.	.	.	.	.	.	.	G	24.2	4.499782	0.85176	.	.	ENSG00000169826	ENST00000374466	T	0.27256	1.68	6.08	5.17	0.71159	.	0.064535	0.64402	D	0.000004	T	0.57359	0.2048	M	0.89095	3.005	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.63721	-0.6573	10	0.87932	D	0	-11.7375	14.8306	0.70146	0.0683:0.0:0.9317:0.0	.	362	Q8N6G5	CGAT2_HUMAN	F	362	ENSP00000363590:L362F	ENSP00000363590:L362F	L	+	3	2	CSGALNACT2	42979425	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.683000	0.37638	2.894000	0.99253	0.591000	0.81541	TTG		0.433	CSGALNACT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047693.1	NM_018590		T	43659419	G	T	43659419	3	4	692	1	0	0	0	0	1	0	0	0	3941	1281	45	4	1100	4	CSGALNACT2	10	43659419	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	31519670	43659419	91875328	44	45059										
NCOA4	8031	broad.mit.edu	37	chr10	51579175	51579175	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	aagaccagagtggcagctccAgtaatagagaaccccttttg	10	10	0	3			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr10:51579175A>C	ENST00000443446.1	+	2	263	c.34A>C	c.(34-36)Agt>Cgt	p.S12R	NCOA4_ENST00000430396.2_Intron|NCOA4_ENST00000374082.1_Missense_Mutation_p.S12R|NCOA4_ENST00000452682.1_Missense_Mutation_p.S28R|NCOA4_ENST00000438493.1_Missense_Mutation_p.S28R|NCOA4_ENST00000374087.4_Missense_Mutation_p.S12R|NCOA4_ENST00000498586.1_Intron|NCOA4_ENST00000344348.6_Missense_Mutation_p.S12R|NCOA4_ENST00000414907.2_Intron	NM_001145262.1	NP_001138734.1	Q13772	NCOA4_HUMAN	nuclear receptor coactivator 4	12					androgen receptor signaling pathway (GO:0030521)|male gonad development (GO:0008584)|positive regulation of transcription, DNA-templated (GO:0045893)|response to hormone (GO:0009725)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|transcription coactivator activity (GO:0003713)			NS(1)|central_nervous_system(1)|kidney(1)|large_intestine(1)|skin(1)	5						TGGCAGCTCCAGTAATAGAGA	0.408			T	RET	papillary thyroid																																		Dom	yes		10	10q11.2	8031	nuclear receptor coactivator 4 - PTC3 (ELE1)		E	0													48	55	53					10																	51579175		2203	4300	6503	SO:0001583	missense	8031			L49399	CCDS73092.1, CCDS73093.1, CCDS73094.1	10q11.2	2014-04-10			ENSG00000138293	ENSG00000266412			7671	protein-coding gene	gene with protein product	"RET-activating gene ELE1"	601984				8290261, 8643607, 24695223	Standard	NM_001145260		Approved	ARA70, RFG, ELE1, PTC3, DKFZp762E1112	uc009xon.3	Q13772	OTTHUMG00000188314	ENST00000443446.1:c.34A>C	10.37:g.51579175A>C	ENSP00000390713:p.Ser12Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8W5|B4E260|E9PAV7|J3KQN8|Q14239	Missense_Mutation	SNP	ENST00000443446.1	37	CCDS7237.1	.	.	.	.	.	.	.	.	.	.	A	19.95	3.921905	0.73213	.	.	ENSG00000138293	ENST00000438493;ENST00000452682;ENST00000374087;ENST00000330923;ENST00000344348;ENST00000374082;ENST00000443446	T;T;T;T;T;T	0.21191	2.36;2.34;2.34;2.34;2.02;2.34	5.79	5.79	0.91817	.	0.460516	0.24321	N	0.039555	T	0.23806	0.0576	L	0.32530	0.975	0.80722	D	1	P;D;P	0.53619	0.931;0.961;0.808	P;P;P	0.49752	0.621;0.621;0.467	T	0.01262	-1.1402	10	0.66056	D	0.02	-18.2451	11.0233	0.47730	0.8279:0.0:0.0:0.1721	.	28;28;12	B4E260;E9PAV7;Q13772	.;.;NCOA4_HUMAN	R	28;28;12;12;12;12;12	ENSP00000405146:S28R;ENSP00000395465:S28R;ENSP00000363200:S12R;ENSP00000344552:S12R;ENSP00000363195:S12R;ENSP00000390713:S12R	ENSP00000332421:S12R	S	+	1	0	NCOA4	51249181	0.809000	0.29036	0.998000	0.56505	0.989000	0.77384	0.888000	0.28268	2.212000	0.71576	0.533000	0.62120	AGT		0.408	NCOA4-204	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048052.1	NM_005437		C	51579175	A	C	51579175	3	2	692	1	0	0	0	0	1	0	0	0	10238	188	7	5	88	5	NCOA4	10	51579175	Missense_Mutation	SNP	A	TCGA-MH-A560-01A-11D-A26P-10	7919756	51579175	83955572	45	45060										
DNA2	1763	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	70182074	70182074	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gtcagcataaaattccagttCcagcttcacatctttaaagt	5	10	3	0	rs369018277		TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr10:70182074C>T	ENST00000358410.3	-	17	2655	c.2605G>A	c.(2605-2607)Gaa>Aaa	p.E869K	DNA2_ENST00000399180.2_Missense_Mutation_p.E955K|DNA2_ENST00000399179.2_Intron	NM_001080449.2	NP_001073918.2	P51530	DNA2_HUMAN	DNA replication helicase/nuclease 2	869	Helicase activity. {ECO:0000250}.				ATP catabolic process (GO:0006200)|base-excision repair (GO:0006284)|DNA catabolic process, endonucleolytic (GO:0000737)|DNA double-strand break processing (GO:0000729)|DNA duplex unwinding (GO:0032508)|DNA replication (GO:0006260)|DNA replication checkpoint (GO:0000076)|DNA replication, Okazaki fragment processing (GO:0033567)|DNA replication, removal of RNA primer (GO:0043137)|DNA strand elongation involved in DNA replication (GO:0006271)|mitochondrial DNA repair (GO:0043504)|mitochondrial DNA replication (GO:0006264)|mitotic cell cycle (GO:0000278)|positive regulation of DNA replication (GO:0045740)|telomere maintenance (GO:0000723)|telomere maintenance via recombination (GO:0000722)|telomere maintenance via semi-conservative replication (GO:0032201)	mitochondrial nucleoid (GO:0042645)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	4 iron, 4 sulfur cluster binding (GO:0051539)|5'-3' DNA helicase activity (GO:0043139)|5'-flap endonuclease activity (GO:0017108)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)|helicase activity (GO:0004386)|metal ion binding (GO:0046872)|nuclease activity (GO:0004518)|single-stranded DNA-dependent ATPase activity (GO:0043142)|site-specific endodeoxyribonuclease activity, specific for altered base (GO:0016890)			breast(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(7)|prostate(1)	20						AATTCCAGTTCCAGCTTCACA	0.393																																																0								C	LYS/GLU	0,3782		0,0,1891	90	87	88		2605	3	1	10		88	1,8241		0,1,4120	no	missense	DNA2	NM_001080449.2	56	0,1,6011	TT,TC,CC		0.0121,0.0,0.0083	possibly-damaging	869/1061	70182074	1,12023	1891	4121	6012	SO:0001583	missense	1763			D42046	CCDS44415.1, CCDS44415.2	10q21.3-q22.1	2013-05-13	2013-05-13	2008-01-08	ENSG00000138346	ENSG00000138346			2939	protein-coding gene	gene with protein product		601810	"DNA2 DNA replication helicase 2-like (yeast)", "DNA replication helicase 2 homolog (yeast)"	DNA2L		8938459, 17032657, 23352259	Standard	NM_001080449		Approved	KIAA0083	uc031pvh.1	P51530	OTTHUMG00000018352	ENST00000358410.3:c.2605G>A	10.37:g.70182074C>T	ENSP00000351185:p.Glu869Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NKM1|Q5TC49|Q5TC50|Q6P455|Q6PI80|Q7Z6H9|Q8N346	Missense_Mutation	SNP	ENST00000358410.3	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	16.14|16.14	3.040039|3.040039	0.55003|0.55003	0.0|0.0	1.21E-4|1.21E-4	ENSG00000138346|ENSG00000138346	ENST00000399180;ENST00000358410|ENST00000440722	D;D|.	0.91464|.	-2.85;-2.83|.	4.93|4.93	3.02|3.02	0.34903|0.34903	.|.	1.268580|.	0.05029|.	N|.	0.474288|.	T|T	0.58779|0.58779	0.2146|0.2146	L|L	0.49350|0.49350	1.555|1.555	0.80722|0.80722	D|D	1|1	P|.	0.49358|.	0.923|.	P|.	0.46796|.	0.527|.	T|T	0.54931|0.54931	-0.8219|-0.8219	10|5	0.11182|.	T|.	0.66|.	.|.	10.956|10.956	0.47358|0.47358	0.0:0.845:0.0:0.155|0.0:0.845:0.0:0.155	.|.	869|.	P51530|.	DNA2L_HUMAN|.	K|E	955;869|190	ENSP00000382133:E955K;ENSP00000351185:E869K|.	ENSP00000351185:E869K|.	E|G	-|-	1|2	0|0	DNA2|DNA2	69852080|69852080	1.000000|1.000000	0.71417|0.71417	0.999000|0.999000	0.59377|0.59377	0.905000|0.905000	0.53344|0.53344	2.929000|2.929000	0.48916|0.48916	1.035000|1.035000	0.39972|0.39972	0.655000|0.655000	0.94253|0.94253	GAA|GGA		0.393	DNA2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000048334.2			T	70182074	C	T	70182074	3	4	692	1	0	0	0	0	1	0	0	0	4598	864	30	2	597	2	DNA2	10	70182074	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	18602899	70182074	65352673	46	45061										
HELLS	3070	bcgsc.ca	37	chr10	96305697	96305697	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gcatgccagcggaacggcccGcgggcagcggcggtgagtga	19	12	0	2			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr10:96305697G>A	ENST00000348459.5	+	1	124	c.19G>A	c.(19-21)Gcg>Acg	p.A7T	HELLS_ENST00000394045.1_Missense_Mutation_p.A7T|HELLS_ENST00000394036.1_Missense_Mutation_p.A7T|HELLS_ENST00000394044.1_Missense_Mutation_p.A7T|HELLS_ENST00000371332.4_Missense_Mutation_p.A7T|HELLS_ENST00000239026.6_Missense_Mutation_p.A7T	NM_018063.3	NP_060533.2			helicase, lymphoid-specific											endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(7)|lung(4)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	22		Colorectal(252;0.0429)		all cancers(201;2.13e-05)		GGAACGGCCCGCGGGCAGCGG	0.692																																																0													12	13	13					10																	96305697		2121	4139	6260	SO:0001583	missense	3070			AF155827	CCDS7434.1, CCDS73162.1, CCDS73163.1, CCDS73164.1, CCDS73165.1	10q24.2	2008-08-01			ENSG00000119969	ENSG00000119969			4861	protein-coding gene	gene with protein product	"SWI/SNF2-related, matrix-associated, actin-dependent regulator of chromatin, subfamily A, member 6", "proliferation-associated SNF2-like protein"	603946				9878251, 10910076	Standard	NM_018063		Approved	PASG, SMARCA6, LSH, Nbla10143	uc001kjt.3	Q9NRZ9	OTTHUMG00000018793	ENST00000348459.5:c.19G>A	10.37:g.96305697G>A	ENSP00000239027:p.Ala7Thr	Somatic		WXS	Illumina HiSeq	Phase_1		Missense_Mutation	SNP	ENST00000348459.5	37	CCDS7434.1	.	.	.	.	.	.	.	.	.	.	G	11.90	1.777463	0.31411	.	.	ENSG00000119969	ENST00000348459;ENST00000394045;ENST00000394044;ENST00000394036;ENST00000371332;ENST00000239026	D;D;D;D	0.96200	-2.52;-2.2;-3.94;-2.7	4.41	3.43	0.39272	.	0.221844	0.36591	N	0.002517	D	0.89598	0.6761	L	0.29908	0.895	0.22866	N	0.998634	B;P;P;B	0.44946	0.382;0.82;0.846;0.382	B;B;B;B	0.36608	0.039;0.202;0.229;0.058	D	0.85080	0.0945	10	0.72032	D	0.01	-13.4778	9.7376	0.40397	0.0:0.211:0.789:0.0	.	7;7;7;7	Q6I7N8;Q9NRZ9-6;Q9NRZ9-5;Q9NRZ9	.;.;.;HELLS_HUMAN	T	7	ENSP00000239027:A7T;ENSP00000377609:A7T;ENSP00000377608:A7T;ENSP00000360383:A7T	ENSP00000239026:A7T	A	+	1	0	HELLS	96295687	0.218000	0.23608	0.996000	0.52242	0.025000	0.11179	1.648000	0.37271	2.450000	0.82876	0.591000	0.81541	GCG		0.692	HELLS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049475.1	NM_018063		A	96305697	G	A	96305697	3	1	692	1	0	0	0	0	1	0	0	0	7053	1087	38	1	21	1	HELLS	10	96305697	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	26123623	96305697	39229050	47	45062										
HPSE2	60495	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	100481443	100481443	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	agggcgatgacattcttcctCggccgcccaatattagggcc	11	13	1	1	rs200916817		TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr10:100481443C>T	ENST00000370552.3	-	5	986	c.927G>A	c.(925-927)ccG>ccA	p.P309P	HPSE2_ENST00000370546.1_Silent_p.P309P|HPSE2_ENST00000404542.1_Silent_p.P197P|HPSE2_ENST00000370549.1_Silent_p.P251P	NM_021828.4	NP_068600.4	Q8WWQ2	HPSE2_HUMAN	heparanase 2 (inactive)	309					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|small molecule metabolic process (GO:0044281)	intracellular (GO:0005622)|plasma membrane (GO:0005886)|proteinaceous extracellular matrix (GO:0005578)	heparan sulfate proteoglycan binding (GO:0043395)|heparanase activity (GO:0030305)			NS(1)|breast(1)|endometrium(3)|kidney(2)|large_intestine(14)|lung(15)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	40				Epithelial(162;1.8e-09)|all cancers(201;4.72e-07)		CATTCTTCCTCGGCCGCCCAA	0.438																																																0													55	54	54					10																	100481443		2203	4300	6503	SO:0001819	synonymous_variant	60495			AF282885	CCDS7477.1, CCDS53567.1, CCDS53568.1	10q23-q24	2014-05-09	2014-05-09		ENSG00000172987	ENSG00000172987			18374	protein-coding gene	gene with protein product		613469	"urofacial syndrome", "heparanase 2"	UFS		11027606, 20605132, 9199567, 20576607	Standard	NM_021828		Approved	HPA2, HPR2	uc001kpn.2	Q8WWQ2	OTTHUMG00000018880	ENST00000370552.3:c.927G>A	10.37:g.100481443C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUH4|Q5VUH5|Q5VUH6|Q8WWQ1|Q9HB37|Q9HB38|Q9HB39	Silent	SNP	ENST00000370552.3	37	CCDS7477.1																																																																																				0.438	HPSE2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049789.1	NM_021828		T	100481443	C	T	100481443	2	4	692	1	0	0	0	0	0	0	0	1	7352	871	31	1		1	HPSE2	10	100481443	Silent	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	4175746	100481443	35053304	48	45063										
GBF1	8729	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	104123472	104123472	+	Frame_Shift_Del	DEL	A	A	-													0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tcttcctactcctagctgacAaaaagtttgcccggaagcca							TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr10:104123472delA	ENST00000369983.3	+	17	2280	c.2020delA	c.(2020-2022)aaafs	p.K675fs		NM_001199378.1|NM_001199379.1|NM_004193.2	NP_001186307.1|NP_001186308.1|NP_004184.1	Q92538	GBF1_HUMAN	golgi brefeldin A resistant guanine nucleotide exchange factor 1	675					COPI coating of Golgi vesicle (GO:0048205)|membrane organization (GO:0061024)|positive regulation of GTPase activity (GO:0043547)|post-Golgi vesicle-mediated transport (GO:0006892)|regulation of ARF protein signal transduction (GO:0032012)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)|vesicle-mediated transport (GO:0016192)|viral process (GO:0016032)	cis-Golgi network (GO:0005801)|endoplasmic reticulum lumen (GO:0005788)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi stack (GO:0005795)|membrane (GO:0016020)|mitochondrion (GO:0005739)|peroxisome (GO:0005777)|trans-Golgi network (GO:0005802)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)			NS(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(14)|kidney(8)|large_intestine(15)|lung(19)|ovary(1)|pancreas(1)|prostate(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	71		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		CCTAGCTGACAAAAAGTTTGC	0.423																																																0													113	119	117					10																	104123472		2203	4300	6503	SO:0001589	frameshift_variant	8729			D87435	CCDS7533.1	10q24	2010-02-12	2010-02-12		ENSG00000107862	ENSG00000107862			4181	protein-coding gene	gene with protein product		603698	"golgi-specific brefeldin A resistance factor 1"			9828135	Standard	NM_004193		Approved	KIAA0248, ARF1GEF	uc001kux.2	Q92538	OTTHUMG00000018955	ENST00000369983.3:c.2020delA	10.37:g.104123472delA	ENSP00000359000:p.Lys675fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VXX3|Q96CK6|Q96HZ3|Q9H473	Frame_Shift_Del	DEL	ENST00000369983.3	37	CCDS7533.1																																																																																				0.423	GBF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050051.1			-	104123472	A	-	104123472	7	5	692	1	0	1	0	1	0	0	0	0	6278	131	5	0	2082	0	GBF1	10	104123472	Frame_Shift_Del	DEL	A	TCGA-MH-A560-01A-11D-A26P-10	3642029	104123472	31411275	49	45064										
ACADSB	36	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	124800167	124800167	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gaacaaaaggccacctatttGcctcagctcactacagaaaa	6	12	2	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr10:124800167G>A	ENST00000358776.4	+	4	503	c.489G>A	c.(487-489)ttG>ttA	p.L163L	ACADSB_ENST00000496730.2_3'UTR|ACADSB_ENST00000368869.4_Silent_p.L61L	NM_001609.3	NP_001600.1	P45954	ACDSB_HUMAN	acyl-CoA dehydrogenase, short/branched chain	163					branched-chain amino acid catabolic process (GO:0009083)|cellular nitrogen compound metabolic process (GO:0034641)|fatty acid metabolic process (GO:0006631)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	acyl-CoA dehydrogenase activity (GO:0003995)|flavin adenine dinucleotide binding (GO:0050660)			breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(6)|lung(2)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	17		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.0811)|COAD - Colon adenocarcinoma(40;0.0835)	L-Isoleucine(DB00167)|Valproic Acid(DB00313)	CCACCTATTTGCCTCAGCTCA	0.353																																																0													93	92	92					10																	124800167		2203	4300	6503	SO:0001819	synonymous_variant	36			U12778	CCDS7634.1	10q25-q26	2014-09-17	2010-04-30		ENSG00000196177	ENSG00000196177	1.3.99.-		91	protein-coding gene	gene with protein product		600301	"acyl-Coenzyme A dehydrogenase, short/branched chain"			7698750, 7759115	Standard	NM_001609		Approved	SBCAD, ACAD7	uc001lhb.3	P45954	OTTHUMG00000019200	ENST00000358776.4:c.489G>A	10.37:g.124800167G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DQ51|Q5SQN6|Q96CX7	Silent	SNP	ENST00000358776.4	37	CCDS7634.1	.	.	.	.	.	.	.	.	.	.	G	1.569	-0.534723	0.04082	.	.	ENSG00000196177	ENST00000411816	.	.	.	5.41	1.02	0.19986	.	.	.	.	.	T	0.51092	0.1654	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.33854	-0.9852	4	.	.	.	.	5.0983	0.14745	0.0737:0.1255:0.5425:0.2584	.	.	.	.	Y	169	.	.	C	+	2	0	ACADSB	124790157	0.743000	0.28239	0.081000	0.20488	0.482000	0.33219	1.056000	0.30480	-0.077000	0.12752	-0.345000	0.07892	TGC		0.353	ACADSB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050843.1	NM_001609		A	124800167	G	A	124800167	2	1	692	1	0	0	0	0	0	0	0	1	115	1310	46	2		2	ACADSB	10	124800167	Silent	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	20676695	124800167	10734580	50	45065										
FRG2B	441581	broad.mit.edu	37	chr10	135439107	135439107	+	Splice_Site	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	cactccttttctggacagttCcctgcaaagaaagcatgtga	8	11	1	2			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr10:135439107C>T	ENST00000425520.1	-	4	385	c.333G>A	c.(331-333)ggG>ggA	p.G111G	FRG2B_ENST00000443774.1_Splice_Site_p.G112G	NM_001080998.1	NP_001074467.1	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	111						nucleus (GO:0005634)				endometrium(2)|kidney(2)|lung(14)|ovary(1)|prostate(1)	20		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		CTGGACAGTTCCCTGCAAAGA	0.512																																																0													15	19	18					10																	135439107		1984	4077	6061	SO:0001630	splice_region_variant	441581			AY744466	CCDS44502.1	10q26.3	2012-10-02			ENSG00000225899	ENSG00000225899			33518	protein-coding gene	gene with protein product						15520407	Standard	NM_001080998		Approved		uc010qvg.2	Q96QU4	OTTHUMG00000019328	ENST00000425520.1:c.332-1G>A	10.37:g.135439107C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VSQ1	Silent	SNP	ENST00000425520.1	37	CCDS44502.1																																																																																				0.512	FRG2B-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000467780.1	NM_001080998	Silent	T	135439107	C	T	135439107	5	4	692	1	0	0	0	0	0	0	1	0	6054	869	30	2	506	2	FRG2B	10	135439107	Splice_Site	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	10638940	135439107	95640	51	45066										
CARNS1	57571	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	67186592	67186592	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	agccgccggggctgctgcggGgaggggatgccagcctaggg	21	11	0	0			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr11:67186592G>C	ENST00000307823.3	+	4	813	c.361G>C	c.(361-363)Gga>Cga	p.G121R	CARNS1_ENST00000531040.1_Missense_Mutation_p.G244R|CARNS1_ENST00000423745.2_Missense_Mutation_p.G121R|CARNS1_ENST00000445895.2_Missense_Mutation_p.G244R	NM_020811.1	NP_065862.1	A5YM72	CRNS1_HUMAN	carnosine synthase 1	121					ATP catabolic process (GO:0006200)|carnosine biosynthetic process (GO:0035499)		ATP binding (GO:0005524)|ATPase activity (GO:0016887)|carnosine synthase activity (GO:0047730)|metal ion binding (GO:0046872)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(7)	11						GCTGCTGCGGGGAGGGGATGC	0.652																																																0													5	7	6					11																	67186592		1871	3990	5861	SO:0001583	missense	57571				CCDS44658.1, CCDS53667.1	11q13.1	2010-03-25	2010-03-25	2010-03-25	ENSG00000172508	ENSG00000172508			29268	protein-coding gene	gene with protein product		613368	"ATP-grasp domain containing 1"	ATPGD1		20097752	Standard	NM_020811		Approved	KIAA1394	uc010rpr.2	A5YM72		ENST00000307823.3:c.361G>C	11.37:g.67186592G>C	ENSP00000308268:p.Gly121Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1M3|B4DFC6|E9PK38|F5H427|Q8N467|Q9P2F3	Missense_Mutation	SNP	ENST00000307823.3	37	CCDS44658.1	.	.	.	.	.	.	.	.	.	.	G	9.966	1.224062	0.22457	.	.	ENSG00000172508	ENST00000531040;ENST00000307823;ENST00000542831;ENST00000539452;ENST00000423745;ENST00000445895	T;T;T;T	0.32753	1.44;1.47;1.47;1.47	4.38	2.5	0.30297	.	.	.	.	.	T	0.31765	0.0807	N	0.19112	0.55	0.09310	N	1	D;P;D	0.62365	0.982;0.94;0.991	P;P;P	0.60068	0.868;0.605;0.868	T	0.09552	-1.0669	9	0.41790	T	0.15	.	7.4523	0.27246	0.2888:0.0:0.7112:0.0	.	244;121;260	F5H427;A5YM72;A5YM72-3	.;CRNS1_HUMAN;.	R	244;121;244;260;121;244	ENSP00000431670:G244R;ENSP00000308268:G121R;ENSP00000401519:G121R;ENSP00000389009:G244R	ENSP00000308268:G121R	G	+	1	0	CARNS1	66943168	0.111000	0.22076	0.569000	0.28460	0.012000	0.07955	2.541000	0.45735	0.487000	0.27698	0.561000	0.74099	GGA		0.652	CARNS1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000395501.1	NM_020811		C	67186592	G	C	67186592	3	2	692	1	0	0	0	0	1	0	0	0	2658	1233	43	4	744	4	CARNS1	11	67186592	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10		67186592	67819924	52	45067										
DYNC2H1	79659	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	103006543	103006543	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tcggcattccaaatcagtttAagggagtgggtgaggcagga	15	6	1	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr11:103006543A>G	ENST00000375735.2	+	17	2584	c.2440A>G	c.(2440-2442)Aag>Gag	p.K814E	DYNC2H1_ENST00000334267.7_Intron|DYNC2H1_ENST00000398093.3_Missense_Mutation_p.K814E	NM_001080463.1|NM_001377.2	NP_001073932.1|NP_001368.2	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	814	Stem. {ECO:0000250}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|asymmetric protein localization (GO:0008105)|cilium assembly (GO:0042384)|determination of left/right symmetry (GO:0007368)|dorsal/ventral pattern formation (GO:0009953)|embryonic limb morphogenesis (GO:0030326)|forebrain development (GO:0030900)|Golgi organization (GO:0007030)|intraciliary retrograde transport (GO:0035721)|positive regulation of smoothened signaling pathway (GO:0045880)|protein processing (GO:0016485)|spinal cord motor neuron differentiation (GO:0021522)	apical part of cell (GO:0045177)|axoneme (GO:0005930)|cytosol (GO:0005829)|dynein complex (GO:0030286)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|motile primary cilium (GO:0031512)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)|motor activity (GO:0003774)			NS(1)|endometrium(4)|kidney(5)|large_intestine(9)|lung(9)|ovary(1)|prostate(2)|upper_aerodigestive_tract(2)	33		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		AAATCAGTTTAAGGGAGTGGG	0.373																																																0													66	62	63					11																	103006543		1812	4068	5880	SO:0001583	missense	79659			AB082528	CCDS44717.1, CCDS53701.1	11q21-q22.1	2011-06-02	2005-11-24	2005-11-24	ENSG00000187240	ENSG00000187240		"Cytoplasmic dyneins"	2962	protein-coding gene	gene with protein product		603297	"dynein, cytoplasmic, heavy polypeptide 2"	DNCH2		9763680, 9373155	Standard	NM_001080463		Approved	hdhc11, DHC2, DHC1b, DYH1B	uc001phn.1	Q8NCM8	OTTHUMG00000165941	ENST00000375735.2:c.2440A>G	11.37:g.103006543A>G	ENSP00000364887:p.Lys814Glu	Somatic		WXS	Illumina HiSeq	Phase_I	O00432|Q16693|Q3C1U8|Q4AC93|Q6ZMX7|Q6ZUM6|Q7Z363|Q8N977|Q92815|Q9HAE4	Missense_Mutation	SNP	ENST00000375735.2	37	CCDS53701.1	.	.	.	.	.	.	.	.	.	.	A	17.80	3.479055	0.63849	.	.	ENSG00000187240	ENST00000375735;ENST00000398093	T;T	0.27720	1.65;1.65	5.3	5.3	0.74995	.	.	.	.	.	T	0.29190	0.0726	L	0.51422	1.61	0.42561	D	0.993144	B;B	0.17038	0.02;0.015	B;B	0.24701	0.04;0.055	T	0.10019	-1.0648	9	0.10111	T	0.7	.	15.2748	0.73734	1.0:0.0:0.0:0.0	.	814;814	Q8NCM8;Q8NCM8-2	DYHC2_HUMAN;.	E	814	ENSP00000364887:K814E;ENSP00000381167:K814E	ENSP00000364887:K814E	K	+	1	0	DYNC2H1	102511753	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	7.018000	0.76406	2.006000	0.58801	0.460000	0.39030	AAG		0.373	DYNC2H1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387196.1	XM_370652		G	103006543	A	G	103006543	3	3	692	1	0	0	0	0	1	0	0	0	4848	363	13	3	2506	3	DYNC2H1	11	103006543	Missense_Mutation	SNP	A	TCGA-MH-A560-01A-11D-A26P-10	35819951	103006543	31999973	53	45068										
C11orf53	341032	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	111156468	111156468	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tgaccttgccacccagcacgAgttgcctctcccagcttgag	9	16	1	2			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr11:111156468A>C	ENST00000280325.4	+	4	547	c.400A>C	c.(400-402)Agt>Cgt	p.S134R		NM_198498.1	NP_940900.1	Q8IXP5	CK053_HUMAN	chromosome 11 open reading frame 53	134										endometrium(1)|large_intestine(2)|lung(3)|skin(2)	8		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)		ACCCAGCACGAGTTGCCTCTC	0.632																																																0													76	69	71					11																	111156468		2201	4297	6498	SO:0001583	missense	341032			BC039669	CCDS31674.1	11q23.1	2012-05-31			ENSG00000150750	ENSG00000150750			30527	protein-coding gene	gene with protein product						12477932	Standard	NM_198498		Approved	MGC50104	uc001plc.3	Q8IXP5	OTTHUMG00000166656	ENST00000280325.4:c.400A>C	11.37:g.111156468A>C	ENSP00000280325:p.Ser134Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000280325.4	37	CCDS31674.1	.	.	.	.	.	.	.	.	.	.	A	15.69	2.908387	0.52333	.	.	ENSG00000150750	ENST00000280325	.	.	.	4.8	0.97	0.19692	.	0.382752	0.29198	N	0.012842	T	0.39009	0.1062	L	0.55481	1.735	0.09310	N	0.999997	P	0.43701	0.815	P	0.45681	0.49	T	0.21415	-1.0246	9	0.42905	T	0.14	-1.3318	7.5852	0.27989	0.7125:0.0:0.2875:0.0	.	134	Q8IXP5	CK053_HUMAN	R	134	.	ENSP00000280325:S134R	S	+	1	0	C11orf53	110661678	0.055000	0.20627	0.041000	0.18516	0.940000	0.58332	1.282000	0.33226	-0.088000	0.12506	0.459000	0.35465	AGT		0.632	C11orf53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390989.1	NM_198498		C	111156468	A	C	111156468	3	2	692	1	0	0	0	0	1	0	0	0	1650	304	11	5	410	5	C11orf53	11	111156468	Missense_Mutation	SNP	A	TCGA-MH-A560-01A-11D-A26P-10	8149925	111156468	23850048	54	45069										
FOXRED1	55572	broad.mit.edu	37	chr11	126146393	126146393	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	ggaaggattaggtagcaactAcctaggtggtcgtagcccca	13	9	0	0			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr11:126146393A>G	ENST00000263578.5	+	9	1150	c.1076A>G	c.(1075-1077)tAc>tGc	p.Y359C	FOXRED1_ENST00000532125.1_Missense_Mutation_p.Y345C|FOXRED1_ENST00000442061.2_Missense_Mutation_p.Y189C|FOXRED1_ENST00000534011.1_3'UTR	NM_017547.3	NP_060017.1	Q96CU9	FXRD1_HUMAN	FAD-dependent oxidoreductase domain containing 1	359						integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)	oxidoreductase activity (GO:0016491)			breast(1)|endometrium(2)|kidney(3)|large_intestine(1)|lung(6)|prostate(1)|urinary_tract(1)	15	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0729)		GGTAGCAACTACCTAGGTGGT	0.542																																																0													96	92	94					11																	126146393		2201	4298	6499	SO:0001583	missense	55572				CCDS8471.1	11q24.2	2006-02-03			ENSG00000110074	ENSG00000110074			26927	protein-coding gene	gene with protein product		613622				10497265	Standard	NM_017547		Approved	H17	uc001qdi.3	Q96CU9	OTTHUMG00000165827	ENST00000263578.5:c.1076A>G	11.37:g.126146393A>G	ENSP00000263578:p.Tyr359Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KN84|B4DHU2|Q71MG0|Q9BU39|Q9UKY9	Missense_Mutation	SNP	ENST00000263578.5	37	CCDS8471.1	.	.	.	.	.	.	.	.	.	.	a	26.7	4.764863	0.90020	.	.	ENSG00000110074	ENST00000263578;ENST00000442061;ENST00000532125	D;D;D	0.83075	-1.68;-1.68;-1.68	5.63	5.63	0.86233	FAD dependent oxidoreductase (1);	0.106801	0.64402	D	0.000003	D	0.92714	0.7684	M	0.91038	3.17	0.80722	D	1	D;D;D	0.76494	0.996;0.999;0.996	D;D;D	0.72075	0.923;0.976;0.969	D	0.94089	0.7351	9	.	.	.	-9.8756	15.9066	0.79436	1.0:0.0:0.0:0.0	.	345;226;359	Q96CU9-3;B4DI59;Q96CU9	.;.;FXRD1_HUMAN	C	359;189;345	ENSP00000263578:Y359C;ENSP00000404371:Y189C;ENSP00000434178:Y345C	.	Y	+	2	0	FOXRED1	125651603	1.000000	0.71417	0.995000	0.50966	0.982000	0.71751	6.418000	0.73341	2.161000	0.67846	0.468000	0.43344	TAC		0.542	FOXRED1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386434.1	NM_017547		G	126146393	A	G	126146393	3	3	692	1	0	0	0	0	1	0	0	0	6040	391	14	3	1110	3	FOXRED1	11	126146393	Missense_Mutation	SNP	A	TCGA-MH-A560-01A-11D-A26P-10	14989925	126146393	8860123	55	45070										
SLC6A13	6540	broad.mit.edu	37	chr12	347126	347126	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gacaggagaggtggcattctCagaggtaccattcagggagc	15	8	2	2			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr12:347126C>T	ENST00000343164.4	-	5	581	c.529G>A	c.(529-531)Gag>Aag	p.E177K	SLC6A13_ENST00000445055.2_Missense_Mutation_p.E85K	NM_016615.4	NP_057699.2	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter transporter), member 13	177					neurotransmitter secretion (GO:0007269)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	gamma-aminobutyric acid:sodium symporter activity (GO:0005332)|neurotransmitter:sodium symporter activity (GO:0005328)			NS(1)|autonomic_ganglia(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(7)|lung(11)|prostate(1)|urinary_tract(1)	28	all_cancers(10;0.0416)|all_epithelial(11;0.0537)|all_lung(10;0.0989)|Lung NSC(10;0.139)|Ovarian(42;0.142)		OV - Ovarian serous cystadenocarcinoma(31;0.00153)|BRCA - Breast invasive adenocarcinoma(9;0.239)			GTGGCATTCTCAGAGGTACCA	0.532																																																0													163	138	146					12																	347126		2203	4300	6503	SO:0001583	missense	6540			U76343	CCDS8502.1, CCDS53729.1, CCDS58198.1	12p13.33	2013-07-19	2013-07-19		ENSG00000010379	ENSG00000010379		"Solute carriers"	11046	protein-coding gene	gene with protein product	"GABA transporter 2"	615097	"solute carrier family 6 (neurotransmitter transporter, GABA), member 13"				Standard	NM_001243392		Approved	GAT2	uc001qic.2	Q9NSD5	OTTHUMG00000168053	ENST00000343164.4:c.529G>A	12.37:g.347126C>T	ENSP00000339260:p.Glu177Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DJL1|Q8TCC2|Q8WW56	Missense_Mutation	SNP	ENST00000343164.4	37	CCDS8502.1	.	.	.	.	.	.	.	.	.	.	C	8.909	0.958247	0.18507	.	.	ENSG00000010379	ENST00000445055;ENST00000313154;ENST00000343164;ENST00000546319	T;T;T	0.74106	-0.81;-0.81;-0.81	5.23	5.23	0.72850	.	0.158145	0.56097	D	0.000033	T	0.65811	0.2727	L	0.37897	1.145	0.46096	D	0.998866	B;B;B	0.18013	0.018;0.025;0.025	B;B;B	0.29524	0.021;0.103;0.014	T	0.59669	-0.7411	10	0.06494	T	0.89	.	17.3393	0.87291	0.0:1.0:0.0:0.0	.	85;156;177	B4DJL1;B4DJS3;Q9NSD5	.;.;S6A13_HUMAN	K	85;156;177;85	ENSP00000407104:E85K;ENSP00000339260:E177K;ENSP00000444606:E85K	ENSP00000318097:E156K	E	-	1	0	SLC6A13	217387	0.997000	0.39634	0.994000	0.49952	0.059000	0.15707	3.474000	0.53129	2.596000	0.87737	0.561000	0.74099	GAG		0.532	SLC6A13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397801.1	NM_016615		T	347126	C	T	347126	3	4	692	1	0	0	0	0	1	0	0	0	14689	835	29	2	1323	2	SLC6A13	12	347126	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10		347126	133504769	56	45071										
TPI1	7167	broad.mit.edu;bcgsc.ca	37	chr12	6976718	6976718	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gacactgaccttcagcgcctCggctccagcgccatggcgcc	11	18	1	1	rs375712848		TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr12:6976718C>T	ENST00000229270.4	+	1	436	c.99C>T	c.(97-99)ctC>ctT	p.L33L	TPI1_ENST00000396705.5_5'UTR|TPI1_ENST00000488464.2_5'Flank|TPI1_ENST00000535434.1_5'Flank	NM_001159287.1	NP_001152759.1	P60174	TPIS_HUMAN	triosephosphate isomerase 1	33					carbohydrate metabolic process (GO:0005975)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|glyceraldehyde-3-phosphate metabolic process (GO:0019682)|glycolytic process (GO:0006096)|multicellular organismal development (GO:0007275)|pentose-phosphate shunt (GO:0006098)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	triose-phosphate isomerase activity (GO:0004807)			endometrium(2)|kidney(2)|large_intestine(1)|lung(11)|prostate(1)|skin(2)	19						TTCAGCGCCTCGGCTCCAGCG	0.642																																																0								C	,	1,4387		0,1,2193	12	16	14		,99	-0.5	0	12		14	0,8590		0,0,4295	no	utr-5,coding-synonymous	TPI1	NM_000365.5,NM_001159287.1	,	0,1,6488	TT,TC,CC		0.0,0.0228,0.0077	,	,33/287	6976718	1,12977	2194	4295	6489	SO:0001819	synonymous_variant	7167				CCDS8566.1, CCDS53740.1, CCDS58206.1	12p13.31	2012-10-02			ENSG00000111669	ENSG00000111669	5.3.1.1		12009	protein-coding gene	gene with protein product		190450					Standard	NM_000365		Approved		uc001qrk.4	P60174	OTTHUMG00000133767	ENST00000229270.4:c.99C>T	12.37:g.6976718C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z5D8|D3DUS9|P00938|Q6FHP9|Q6IS07|Q8WWD0|Q96AG5	Silent	SNP	ENST00000229270.4	37	CCDS53740.1																																																																																				0.642	TPI1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000258252.1	NM_000365		T	6976718	C	T	6976718	2	4	692	1	0	0	0	0	0	0	0	1	16415	871	31	1		1	TPI1	12	6976718	Silent	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	6629592	6976718	126875177	57	45072										
C14orf39	317761	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	60921717	60921717	+	Splice_Site	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	aacttttggcttctcatattAcctgatctgatgagatttct	6	8	3	3			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr14:60921717A>T	ENST00000321731.3	-	16	1663		c.e16+1			NM_174978.2	NP_777638	Q8N1H7	S6OS1_HUMAN	chromosome 14 open reading frame 39						multicellular organismal development (GO:0007275)|regulation of sequence-specific DNA binding transcription factor activity (GO:0051090)					breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(5)|lung(7)|ovary(2)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	30				OV - Ovarian serous cystadenocarcinoma(108;0.0448)		TTCTCATATTACCTGATCTGA	0.313																																																0													36	39	38					14																	60921717		2198	4285	6483	SO:0001630	splice_region_variant	317761			AK098187	CCDS9746.1	14q23.1	2012-11-05	2012-11-05	2012-11-05	ENSG00000179008	ENSG00000179008			19849	protein-coding gene	gene with protein product							Standard	NM_174978		Approved	SIX6OS1	uc001xez.4	Q8N1H7	OTTHUMG00000140332	ENST00000321731.3:c.1503+1T>A	14.37:g.60921717A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q08AQ4	Splice_Site	SNP	ENST00000321731.3	37	CCDS9746.1	.	.	.	.	.	.	.	.	.	.	A	18.17	3.563953	0.65651	.	.	ENSG00000179008	ENST00000321731	.	.	.	5.84	5.84	0.93424	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.5881	0.61944	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	C14orf39	59991470	1.000000	0.71417	1.000000	0.80357	0.962000	0.63368	5.199000	0.65152	2.234000	0.73211	0.459000	0.35465	.		0.313	C14orf39-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276948.1	NM_174978	Intron	T	60921717	A	T	60921717	5	4	692	1	0	0	0	0	0	0	1	0	1774	405	14	5	270	5	C14orf39	14	60921717	Splice_Site	SNP	A	TCGA-MH-A560-01A-11D-A26P-10		60921717	46427823	58	45073										
ATAD5	79915	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	29162089	29162089	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gttcttgcacaggttcacccTattccgcccaaaaagacagg	8	13	2	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr17:29162089T>A	ENST00000321990.4	+	2	1368	c.990T>A	c.(988-990)ccT>ccA	p.P330P	CTD-2349P21.11_ENST00000580873.1_RNA	NM_024857.3	NP_079133.3	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	330					cellular response to DNA damage stimulus (GO:0006974)	nucleus (GO:0005634)	ATP binding (GO:0005524)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(8)|kidney(3)|large_intestine(18)|lung(13)|ovary(3)|pancreas(1)	51		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				AGGTTCACCCTATTCCGCCCA	0.378																																																0													49	51	50					17																	29162089		2139	4265	6404	SO:0001819	synonymous_variant	79915				CCDS11260.1	17q11.2	2010-04-21	2007-02-08	2007-02-08	ENSG00000176208	ENSG00000176208		"ATPases / AAA-type"	25752	protein-coding gene	gene with protein product	"enhanced level of genomic instability 1 homolog (S. cerevisiae)"	609534	"chromosome 17 open reading frame 41"	C17orf41		15983387, 11468690, 19755857	Standard	NM_024857		Approved	FLJ12735, FRAG1, ELG1	uc002hfs.1	Q96QE3	OTTHUMG00000132794	ENST00000321990.4:c.990T>A	17.37:g.29162089T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q05DH0|Q69YR6|Q9H9I1	Silent	SNP	ENST00000321990.4	37	CCDS11260.1																																																																																				0.378	ATAD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256206.2	NM_024857		A	29162089	T	A	29162089	2	1	692	1	0	0	0	0	0	0	0	1	1076	1509	53	5		5	ATAD5	17	29162089	Silent	SNP	T	TCGA-MH-A560-01A-11D-A26P-10		29162089	52033121	59	45074										
ORMDL3	94103	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	38078866	38078866	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	ggcagcttggggataagcacGctcatcagggacacggtgtt	15	9	2	0			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr17:38078866G>C	ENST00000394169.1	-	6	1893	c.399C>G	c.(397-399)agC>agG	p.S133R	ORMDL3_ENST00000584220.1_Missense_Mutation_p.S117R|ORMDL3_ENST00000579695.1_Missense_Mutation_p.S133R|ORMDL3_ENST00000304046.2_Missense_Mutation_p.S133R			Q8N138	ORML3_HUMAN	ORMDL sphingolipid biosynthesis regulator 3	133					ceramide metabolic process (GO:0006672)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|SPOTS complex (GO:0035339)				endometrium(3)|kidney(1)|lung(1)	5	Colorectal(19;0.000442)		Lung(15;0.0234)			GGATAAGCACGCTCATCAGGG	0.557																																																0													149	142	144					17																	38078866		2203	4300	6503	SO:0001583	missense	94103				CCDS11355.1	17q12	2014-06-16	2014-06-16		ENSG00000172057	ENSG00000172057			16038	protein-coding gene	gene with protein product		610075	"ORM1 (S. cerevisiae)-like 3", "ORM1-like 3 (S. cerevisiae)"			23066021	Standard	NM_139280		Approved		uc002htj.2	Q8N138	OTTHUMG00000133249	ENST00000394169.1:c.399C>G	17.37:g.38078866G>C	ENSP00000377724:p.Ser133Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B3KS83|Q6UY83	Missense_Mutation	SNP	ENST00000394169.1	37	CCDS11355.1	.	.	.	.	.	.	.	.	.	.	G	18.25	3.582713	0.65992	.	.	ENSG00000172057	ENST00000304046;ENST00000394169	.	.	.	5.39	-5.34	0.02705	.	0.110120	0.64402	D	0.000008	T	0.59432	0.2193	M	0.65975	2.015	0.34860	D	0.74254	P	0.37573	0.6	P	0.47744	0.556	T	0.65915	-0.6052	9	0.51188	T	0.08	-14.1116	13.4255	0.61022	0.658:0.0:0.342:0.0	.	133	Q8N138	ORML3_HUMAN	R	133	.	ENSP00000304858:S133R	S	-	3	2	ORMDL3	35332392	0.062000	0.20869	0.906000	0.35671	0.939000	0.58152	-0.588000	0.05774	-1.031000	0.03308	-0.345000	0.07892	AGC		0.557	ORMDL3-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257003.1	NM_139280		C	38078866	G	C	38078866	3	2	692	1	0	0	0	0	1	0	0	0	11278	1078	38	4	66	4	ORMDL3	17	38078866	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	8916777	38078866	43116344	60	45075										
CCDC46	201134	ucsc.edu	37	chr17	63923752	63923752	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gttgccataaaaactcctttGattgtttctcacgaagagat	7	8	1	2			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr17:63923752G>A	ENST00000392769.2	-	19	2146	c.1928C>T	c.(1927-1929)tCa>tTa	p.S643L	CEP112_ENST00000535342.2_Missense_Mutation_p.S643L|CEP112_ENST00000537949.1_Missense_Mutation_p.S601L|CEP112_ENST00000541355.1_Missense_Mutation_p.S278L	NM_145036.3	NP_659473.2	Q8N8E3	CE112_HUMAN	centrosomal protein 112kDa	643					receptor localization to synapse (GO:0097120)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|inhibitory synapse (GO:0060077)|plasma membrane (GO:0005886)				NS(1)|breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(8)|lung(11)|pancreas(1)|prostate(3)|upper_aerodigestive_tract(1)	28						AAACTCCTTTGATTGTTTCTC	0.303																																																0													102	97	98					17																	63923752		2203	4300	6503	SO:0001583	missense	201134			AF458591	CCDS32710.1, CCDS32711.1	17q24.2	2014-02-20	2011-05-06	2011-05-06	ENSG00000154240	ENSG00000154240			28514	protein-coding gene	gene with protein product			"coiled-coil domain containing 46"	CCDC46		21399614	Standard	NM_145036		Approved	MGC33887	uc002jfl.3	Q8N8E3		ENST00000392769.2:c.1928C>T	17.37:g.63923752G>A	ENSP00000376522:p.Ser643Leu	Somatic		WXS	Illumina HiSeq		Q6PIB5|Q8NCR4|Q8NFR4	Missense_Mutation	SNP	ENST00000392769.2	37	CCDS32710.1	.	.	.	.	.	.	.	.	.	.	G	15.44	2.834098	0.50951	.	.	ENSG00000154240	ENST00000535342;ENST00000392769;ENST00000541355;ENST00000537949	T;T;T;T	0.51574	0.7;0.7;0.7;0.7	4.93	4.93	0.64822	.	0.227463	0.36932	N	0.002336	T	0.52917	0.1764	L	0.51422	1.61	0.32590	N	0.527272	D;D;D	0.54964	0.969;0.969;0.969	P;P;P	0.53313	0.723;0.654;0.723	T	0.58440	-0.7636	10	0.22109	T	0.4	-6.2893	15.4349	0.75137	0.0:0.0:1.0:0.0	.	601;601;643	F5GYE8;A2RRR7;Q8N8E3	.;.;CE112_HUMAN	L	643;643;278;601	ENSP00000442784:S643L;ENSP00000376522:S643L;ENSP00000443711:S278L;ENSP00000440775:S601L	ENSP00000376522:S643L	S	-	2	0	CEP112	61354214	0.984000	0.35163	0.409000	0.26459	0.986000	0.74619	4.019000	0.57181	2.446000	0.82766	0.650000	0.86243	TCA		0.303	CEP112-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000446582.1	NM_145036		A	63923752	G	A	63923752	3	1	692	1	0	0	0	0	1	0	0	0	2819	1294	45	2	1141	2	CCDC46	17	63923752	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	25844886	63923752	17271458	61	45076										
HELZ	9931	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	65110487	65110487	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tggtgttcgaatcttattaaTttcaggtccggaattatttg	9	5	2	0			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr17:65110487T>G	ENST00000358691.5	-	28	4037	c.3871A>C	c.(3871-3873)Att>Ctt	p.I1291L	HELZ_ENST00000580168.1_Missense_Mutation_p.I1292L	NM_014877.3	NP_055692	P42694	HELZ_HUMAN	helicase with zinc finger	1291						membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(5)|endometrium(9)|kidney(3)|large_intestine(11)|liver(1)|lung(24)|ovary(1)|pancreas(1)|prostate(1)|skin(8)|upper_aerodigestive_tract(2)|urinary_tract(2)	69	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					ATCTTATTAATTTCAGGTCCG	0.348																																																0													152	136	141					17																	65110487		1802	4071	5873	SO:0001583	missense	9931			D29677	CCDS42374.1	17q24.2	2013-01-18			ENSG00000198265	ENSG00000198265		"Zinc fingers, CCCH-type domain containing"	16878	protein-coding gene	gene with protein product	"down-regulated in human cancers"	606699				10471385, 12691822	Standard	NM_014877		Approved	KIAA0054, HUMORF5, DHRC	uc002jfx.4	P42694	OTTHUMG00000179555	ENST00000358691.5:c.3871A>C	17.37:g.65110487T>G	ENSP00000351524:p.Ile1291Leu	Somatic		WXS	Illumina HiSeq	Phase_I	I6L9H4	Missense_Mutation	SNP	ENST00000358691.5	37	CCDS42374.1	.	.	.	.	.	.	.	.	.	.	T	12.72	2.022328	0.35701	.	.	ENSG00000198265	ENST00000358691	D	0.82344	-1.6	5.65	4.56	0.56223	.	0.541833	0.21875	N	0.067829	T	0.64283	0.2584	N	0.14661	0.345	0.28505	N	0.913814	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.50625	-0.8806	10	0.10111	T	0.7	-10.9431	7.073	0.25189	0.0:0.078:0.1469:0.7752	.	1292;1291	B7ZLW2;P42694	.;HELZ_HUMAN	L	1291	ENSP00000351524:I1291L	ENSP00000351524:I1291L	I	-	1	0	HELZ	62540949	1.000000	0.71417	1.000000	0.80357	0.932000	0.56968	2.522000	0.45572	2.154000	0.67381	0.445000	0.29226	ATT		0.348	HELZ-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000447068.1	NM_014877		G	65110487	T	G	65110487	3	3	692	1	0	0	0	0	1	0	0	0	7056	1493	52	5	1981	5	HELZ	17	65110487	Missense_Mutation	SNP	T	TCGA-MH-A560-01A-11D-A26P-10	1186735	65110487	16084723	62	45077										
LAMA3	3909	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr18	21511115	21511115	+	Frame_Shift_Del	DEL	G	G	-													0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	atttttaaatctccacagacGtatatggatggtttactgca					rs546328935		TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr18:21511115delG	ENST00000313654.9	+	65	8767	c.8526delG	c.(8524-8526)acgfs	p.T2842fs	LAMA3_ENST00000588770.1_3'UTR|LAMA3_ENST00000269217.6_Frame_Shift_Del_p.T1233fs|LAMA3_ENST00000587184.1_Frame_Shift_Del_p.T1177fs|LAMA3_ENST00000399516.3_Frame_Shift_Del_p.T2786fs	NM_198129.1	NP_937762.1	Q16787	LAMA3_HUMAN	laminin, alpha 3	2842	Laminin G-like 3. {ECO:0000255|PROSITE- ProRule:PRU00122}.				cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|endodermal cell differentiation (GO:0035987)|epidermis development (GO:0008544)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of embryonic development (GO:0045995)	basement membrane (GO:0005604)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)|laminin-5 complex (GO:0005610)	structural molecule activity (GO:0005198)			NS(2)|breast(4)|central_nervous_system(3)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(24)|lung(54)|ovary(8)|prostate(6)|skin(7)|urinary_tract(4)	128	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)					CTCCACAGACGTATATGGATG	0.428																																																0													110	110	110					18																	21511115		2203	4300	6503	SO:0001589	frameshift_variant	3909			L34155	CCDS11880.1, CCDS42419.1, CCDS45838.1, CCDS59307.1	18q11.2	2013-03-01	2002-08-29		ENSG00000053747	ENSG00000053747		"Laminins"	6483	protein-coding gene	gene with protein product		600805	"laminin, alpha 3 (nicein (150kD), kalinin (165kD), BM600 (150kD), epilegrin)"	LAMNA		8077230	Standard	NM_000227		Approved	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin	uc002kuq.3	Q16787	OTTHUMG00000131874	ENST00000313654.9:c.8526delG	18.37:g.21511115delG	ENSP00000324532:p.Thr2842fs	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ33|Q13679|Q13680|Q6VU67|Q6VU68|Q6VU69|Q76E14|Q96TG0	Frame_Shift_Del	DEL	ENST00000313654.9	37	CCDS42419.1																																																																																				0.428	LAMA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254824.3	NM_000227, NM_198129		-	21511115	G	-	21511115	7	5	692	1	0	1	0	1	0	0	0	0	8614	1132	40	0	8959	0	LAMA3	18	21511115	Frame_Shift_Del	DEL	G	TCGA-MH-A560-01A-11D-A26P-10		21511115	56566133	63	45078	488	2								
LAMA3	3909	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr18	21511118	21511118	+	Frame_Shift_Del	DEL	T	T	-													0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tttaaatctccacagacgtaTatggatggtttactgcatta							TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr18:21511118delT	ENST00000313654.9	+	65	8770	c.8529delT	c.(8527-8529)tatfs	p.Y2843fs	LAMA3_ENST00000588770.1_3'UTR|LAMA3_ENST00000269217.6_Frame_Shift_Del_p.Y1234fs|LAMA3_ENST00000587184.1_Frame_Shift_Del_p.Y1178fs|LAMA3_ENST00000399516.3_Frame_Shift_Del_p.Y2787fs	NM_198129.1	NP_937762.1	Q16787	LAMA3_HUMAN	laminin, alpha 3	2843	Laminin G-like 3. {ECO:0000255|PROSITE- ProRule:PRU00122}.				cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|endodermal cell differentiation (GO:0035987)|epidermis development (GO:0008544)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of embryonic development (GO:0045995)	basement membrane (GO:0005604)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)|laminin-5 complex (GO:0005610)	structural molecule activity (GO:0005198)			NS(2)|breast(4)|central_nervous_system(3)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(24)|lung(54)|ovary(8)|prostate(6)|skin(7)|urinary_tract(4)	128	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)					CACAGACGTATATGGATGGTT	0.428																																																0													112	111	111					18																	21511118		2203	4300	6503	SO:0001589	frameshift_variant	3909			L34155	CCDS11880.1, CCDS42419.1, CCDS45838.1, CCDS59307.1	18q11.2	2013-03-01	2002-08-29		ENSG00000053747	ENSG00000053747		"Laminins"	6483	protein-coding gene	gene with protein product		600805	"laminin, alpha 3 (nicein (150kD), kalinin (165kD), BM600 (150kD), epilegrin)"	LAMNA		8077230	Standard	NM_000227		Approved	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin	uc002kuq.3	Q16787	OTTHUMG00000131874	ENST00000313654.9:c.8529delT	18.37:g.21511118delT	ENSP00000324532:p.Tyr2843fs	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ33|Q13679|Q13680|Q6VU67|Q6VU68|Q6VU69|Q76E14|Q96TG0	Nonsense_Mutation	DEL	ENST00000313654.9	37	CCDS42419.1																																																																																				0.428	LAMA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254824.3	NM_000227, NM_198129		-	21511118	T	-	21511118	7	5	692	1	0	1	0	1	0	0	0	0	8614	1413	49	0	8962	0	LAMA3	18	21511118	Frame_Shift_Del	DEL	T	TCGA-MH-A560-01A-11D-A26P-10	3	21511118	56566130	64	45079	488	2								
DSC3	1825	bcgsc.ca	37	chr18	28598133	28598133	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	aaaatggtaaaattgactctCcaattggcagtgttaattaa	7	5	1	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr18:28598133C>T	ENST00000360428.4	-	9	1247	c.1167G>A	c.(1165-1167)tgG>tgA	p.W389*	DSC3_ENST00000434452.1_Nonsense_Mutation_p.W389*	NM_001941.3	NP_001932.2	Q14574	DSC3_HUMAN	desmocollin 3	389	Cadherin 3. {ECO:0000255|PROSITE- ProRule:PRU00043}.				cell adhesion (GO:0007155)|homophilic cell adhesion (GO:0007156)|in utero embryonic development (GO:0001701)|protein stabilization (GO:0050821)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|desmosome (GO:0030057)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|gamma-catenin binding (GO:0045295)			endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(6)|lung(29)|ovary(2)|prostate(1)|skin(5)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	56			OV - Ovarian serous cystadenocarcinoma(10;0.125)			AATTGACTCTCCAATTGGCAG	0.323																																																0													100	97	98					18																	28598133		2202	4294	6496	SO:0001587	stop_gained	1825			X83929	CCDS32810.1	18q12.1	2014-07-30			ENSG00000134762	ENSG00000134762		"Cadherins / Major cadherins"	3037	protein-coding gene	gene with protein product		600271		DSC4		7774948, 8486729	Standard	NM_001941		Approved	CDHF3, DSC, DSC1, DSC2	uc002kwj.4	Q14574	OTTHUMG00000179622	ENST00000360428.4:c.1167G>A	18.37:g.28598133C>T	ENSP00000353608:p.Trp389*	Somatic		WXS	Illumina HiSeq	Phase_1	A6NN35|Q14200|Q9HAZ9	Nonsense_Mutation	SNP	ENST00000360428.4	37	CCDS32810.1	.	.	.	.	.	.	.	.	.	.	C	38	6.731705	0.97796	.	.	ENSG00000134762	ENST00000360428;ENST00000434452	.	.	.	5.36	5.36	0.76844	.	0.784395	0.10265	N	0.695489	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	15.6188	0.76790	0.0:0.8623:0.1377:0.0	.	.	.	.	X	389	.	ENSP00000353608:W389X	W	-	3	0	DSC3	26852131	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	3.982000	0.56909	2.805000	0.96524	0.579000	0.79373	TGG		0.323	DSC3-001	KNOWN	non_canonical_genome_sequence_error|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000447384.1	NM_001941, NM_024423		T	28598133	C	T	28598133	4	4	692	1	0	0	0	0	0	1	0	0	4769	856	30	2	1586	2	DSC3	18	28598133	Nonsense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	7087015	28598133	49479115	65	45080										
CREB3L3	84699	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	4171149	4171149	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tgcagtccaccagcaagtcaGcccagacaggcacctgtgtc	10	15	1	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr19:4171149G>T	ENST00000078445.2	+	8	1099	c.952G>T	c.(952-954)Gcc>Tcc	p.A318S	CREB3L3_ENST00000602147.1_Missense_Mutation_p.S282I|CREB3L3_ENST00000602257.1_Missense_Mutation_p.A316S|CREB3L3_ENST00000252587.3_Intron|CREB3L3_ENST00000595923.1_Missense_Mutation_p.A317S	NM_001271995.1|NM_001271996.1|NM_032607.1	NP_001258924.1|NP_001258925.1|NP_115996.1	Q68CJ9	CR3L3_HUMAN	cAMP responsive element binding protein 3-like 3	318					positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|response to unfolded protein (GO:0006986)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)			breast(2)|kidney(1)|large_intestine(3)|lung(12)|ovary(1)|skin(2)|urinary_tract(3)	24				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0232)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGCAAGTCAGCCCAGACAGG	0.607																																																0													75	70	72					19																	4171149		2203	4300	6503	SO:0001583	missense	84699				CCDS12121.1, CCDS62498.1, CCDS62499.1, CCDS62500.1	19p13.3	2013-01-10				ENSG00000060566		"basic leucine zipper proteins"	18855	protein-coding gene	gene with protein product		611998				11353085	Standard	NM_032607		Approved	CREB-H	uc002lzl.4	Q68CJ9		ENST00000078445.2:c.952G>T	19.37:g.4171149G>T	ENSP00000078445:p.Ala318Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7S6|B7ZL69|M0QYW7|Q6ZMC5|Q96TB9	Missense_Mutation	SNP	ENST00000078445.2	37	CCDS12121.1	.	.	.	.	.	.	.	.	.	.	G	10.83	1.462217	0.26248	.	.	ENSG00000060566	ENST00000078445;ENST00000381943	D	0.84800	-1.9	4.58	4.58	0.56647	.	0.130552	0.51477	D	0.000098	D	0.87172	0.6111	M	0.67569	2.06	0.52099	D	0.999947	D;P;P	0.62365	0.991;0.712;0.589	P;B;B	0.57204	0.815;0.396;0.223	D	0.84697	0.0726	10	0.26408	T	0.33	-0.2402	8.6838	0.34225	0.1062:0.0:0.8938:0.0	.	316;317;318	B7ZL69;Q68CJ9-2;Q68CJ9	.;.;CR3L3_HUMAN	S	318;276	ENSP00000078445:A318S	ENSP00000078445:A318S	A	+	1	0	CREB3L3	4122149	0.995000	0.38212	0.954000	0.39281	0.235000	0.25334	4.071000	0.57556	2.093000	0.63338	0.561000	0.74099	GCC		0.607	CREB3L3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000457922.1	NM_032607		T	4171149	G	T	4171149	3	4	692	1	0	0	0	0	1	0	0	0	3860	971	34	4	982	4	CREB3L3	19	4171149	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10		4171149	54957834	66	45081										
OR7G3	390883	broad.mit.edu	37	chr19	9237432	9237432	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	cagatgtcgaccaaggacagGatagagaggaggaagtacat	14	6	0	2			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr19:9237432G>C	ENST00000305444.2	-	1	194	c.195C>G	c.(193-195)atC>atG	p.I65M		NM_001001958.1	NP_001001958.1	Q8NG95	OR7G3_HUMAN	olfactory receptor, family 7, subfamily G, member 3	65						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(2)|endometrium(1)|large_intestine(3)|liver(1)|lung(5)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	15						CCAAGGACAGGATAGAGAGGA	0.547																																																0													130	103	112					19																	9237432		2203	4300	6503	SO:0001583	missense	390883				CCDS32899.1	19p13.2	2013-09-24			ENSG00000170920	ENSG00000170920		"GPCR / Class A : Olfactory receptors"	8467	protein-coding gene	gene with protein product							Standard	NM_001001958		Approved	OST085	uc010xkl.2	Q8NG95	OTTHUMG00000165520	ENST00000305444.2:c.195C>G	19.37:g.9237432G>C	ENSP00000302867:p.Ile65Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IFJ6|Q96R99	Missense_Mutation	SNP	ENST00000305444.2	37	CCDS32899.1	.	.	.	.	.	.	.	.	.	.	G	5.991	0.366728	0.11352	.	.	ENSG00000170920	ENST00000305444	T	0.02974	4.09	4.02	-5.34	0.02705	GPCR, rhodopsin-like superfamily (1);	0.000000	0.45126	U	0.000383	T	0.01523	0.0049	N	0.12569	0.235	0.09310	N	1	B	0.27732	0.187	B	0.28385	0.089	T	0.39440	-0.9614	10	0.87932	D	0	.	7.1572	0.25645	0.4886:0.116:0.3955:0.0	.	65	Q8NG95	OR7G3_HUMAN	M	65	ENSP00000302867:I65M	ENSP00000302867:I65M	I	-	3	3	OR7G3	9098432	0.000000	0.05858	0.000000	0.03702	0.040000	0.13550	-0.199000	0.09491	-1.049000	0.03234	0.558000	0.71614	ATC		0.547	OR7G3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000384611.1			C	9237432	G	C	9237432	3	2	692	1	0	0	0	0	1	0	0	0	11231	1164	41	4	746	4	OR7G3	19	9237432	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	5066283	9237432	49891551	67	45082										
ZNF227	7770	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	44739325	44739325	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	agaaattacccttaggagagAaaccccatccatgtggtgag	10	9	0	3			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr19:44739325A>T	ENST00000313040.7	+	6	947	c.742A>T	c.(742-744)Aaa>Taa	p.K248*	ZNF227_ENST00000589005.1_Nonsense_Mutation_p.K197*|ZNF227_ENST00000391961.2_Nonsense_Mutation_p.K197*	NM_182490.1	NP_872296.1	Q86WZ6	ZN227_HUMAN	zinc finger protein 227	248					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|kidney(3)|large_intestine(4)|lung(12)|ovary(2)|stomach(1)|urinary_tract(1)	24		Prostate(69;0.0435)				CTTAGGAGAGAAACCCCATCC	0.428																																																0													50	52	51					19																	44739325		2203	4300	6503	SO:0001587	stop_gained	7770			AK092253	CCDS12636.1, CCDS74388.1	19q13.32	2013-01-08						"Zinc fingers, C2H2-type", "-"	13020	protein-coding gene	gene with protein product							Standard	XM_005259232		Approved		uc002oyu.3	Q86WZ6		ENST00000313040.7:c.742A>T	19.37:g.44739325A>T	ENSP00000321049:p.Lys248*	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRU7|B7Z5P9	Nonsense_Mutation	SNP	ENST00000313040.7	37	CCDS12636.1	.	.	.	.	.	.	.	.	.	.	A	37	6.426321	0.97559	.	.	ENSG00000131115	ENST00000313040;ENST00000328297;ENST00000391961;ENST00000418980	.	.	.	4.04	1.86	0.25419	.	.	.	.	.	.	.	.	.	.	.	0.23150	N	0.99822	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	6.6647	0.23035	0.7832:0.0:0.2168:0.0	.	.	.	.	X	248;205;197;227	.	ENSP00000321049:K248X	K	+	1	0	ZNF227	49431165	0.006000	0.16342	0.000000	0.03702	0.751000	0.42716	2.219000	0.42899	0.218000	0.20820	0.460000	0.39030	AAA		0.428	ZNF227-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460720.1	NM_182490		T	44739325	A	T	44739325	4	4	692	1	0	0	0	0	0	1	0	0	17793	247	9	5	756	5	ZNF227	19	44739325	Nonsense_Mutation	SNP	A	TCGA-MH-A560-01A-11D-A26P-10	35501893	44739325	14389658	68	45083										
C5AR1	728	broad.mit.edu	37	chr19	47823729	47823729	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	cctgctccggacgtggagccGcagggccacgcggtccacca	14	17	0	0	rs201394213		TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr19:47823729G>A	ENST00000355085.3	+	2	717	c.695G>A	c.(694-696)cGc>cAc	p.R232H		NM_001736.3	NP_001727.1	P21730	C5AR1_HUMAN	complement component 5a receptor 1	232					activation of MAPK activity (GO:0000187)|activation of phospholipase C activity (GO:0007202)|apoptotic process (GO:0006915)|cell proliferation in hindbrain (GO:0021534)|cellular defense response (GO:0006968)|chemotaxis (GO:0006935)|complement component C5a signaling pathway (GO:0038178)|defense response to Gram-positive bacterium (GO:0050830)|immune response (GO:0006955)|inflammatory response (GO:0006954)|mRNA transcription from RNA polymerase II promoter (GO:0042789)|negative regulation of neuron apoptotic process (GO:0043524)|neutrophil chemotaxis (GO:0030593)|organ regeneration (GO:0031100)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|response to lipopolysaccharide (GO:0032496)|response to peptidoglycan (GO:0032494)|sensory perception of chemical stimulus (GO:0007606)|signal transduction (GO:0007165)	apical part of cell (GO:0045177)|basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	C5a anaphylatoxin receptor activity (GO:0004944)|complement component C5a receptor activity (GO:0004878)			central_nervous_system(1)|endometrium(1)|large_intestine(3)|lung(11)|ovary(2)|prostate(1)|skin(1)	20		all_cancers(25;2e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000267)|OV - Ovarian serous cystadenocarcinoma(262;0.000618)|Epithelial(262;0.0142)|GBM - Glioblastoma multiforme(486;0.0242)		ACGTGGAGCCGCAGGGCCACG	0.597																																																0								G	HIS/ARG	0,4406		0,0,2203	91	88	89		695	4.8	1	19		89	1,8599	1.2+/-3.3	0,1,4299	no	missense	C5AR1	NM_001736.3	29	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	232/351	47823729	1,13005	2203	4300	6503	SO:0001583	missense	728				CCDS33063.1	19q13.3-q13.4	2012-08-10	2006-02-09	2006-02-09		ENSG00000197405		"CD molecules", "Complement system", "GPCR / Class A : Complement component receptors"	1338	protein-coding gene	gene with protein product		113995	"complement component 5 receptor 1 (C5a ligand)"	C5R1		1612600	Standard	NM_001736		Approved	C5A, C5AR, CD88	uc002pgj.1	P21730		ENST00000355085.3:c.695G>A	19.37:g.47823729G>A	ENSP00000347197:p.Arg232His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000355085.3	37	CCDS33063.1	.	.	.	.	.	.	.	.	.	.	g	28.0	4.881187	0.91740	0.0	1.16E-4	ENSG00000197405	ENST00000355085	T	0.38560	1.13	4.85	4.85	0.62838	GPCR, rhodopsin-like superfamily (1);	0.459330	0.21120	U	0.079828	T	0.57359	0.2048	M	0.81179	2.53	0.52099	D	0.999945	D	0.61080	0.989	P	0.52066	0.689	T	0.63470	-0.6630	10	0.51188	T	0.08	.	14.8986	0.70661	0.0:0.0:1.0:0.0	.	232	P21730	C5AR_HUMAN	H	232	ENSP00000347197:R232H	ENSP00000347197:R232H	R	+	2	0	C5AR1	52515569	0.000000	0.05858	0.976000	0.42696	0.893000	0.52053	0.899000	0.28417	2.221000	0.72209	0.472000	0.43445	CGC		0.597	C5AR1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466925.1	NM_001736		A	47823729	G	A	47823729	3	1	692	1	0	0	0	0	1	0	0	0	2283	1087	38	1	700	1	C5AR1	19	47823729	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	3084404	47823729	11305254	69	45084										
SIGLEC5	8778	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	52131213	52131213	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	cccggtattggagatgggggTggcgttcagggcaggggagc	21	7	1	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr19:52131213T>A	ENST00000534261.2	-	6	1270	c.871A>T	c.(871-873)Acc>Tcc	p.T291S	SIGLEC5_ENST00000429354.3_Missense_Mutation_p.T291S|SIGLEC5_ENST00000599649.1_Missense_Mutation_p.T291S|SIGLEC5_ENST00000222107.4_Missense_Mutation_p.T291S|SIGLEC5_ENST00000570106.2_Missense_Mutation_p.T291S			O15389	SIGL5_HUMAN	sialic acid binding Ig-like lectin 5	291	Ig-like C2-type 2.				cell adhesion (GO:0007155)	integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(3)|large_intestine(4)|lung(9)|prostate(2)|skin(4)|upper_aerodigestive_tract(1)	27		all_neural(266;0.0726)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0218)		GAGATGGGGGTGGCGTTCAGG	0.647																																																0													64	71	69					19																	52131213		2203	4300	6503	SO:0001583	missense	8778			U71383	CCDS33088.1	19q13.41	2013-01-29			ENSG00000105501	ENSG00000105501		"Sialic acid binding Ig-like lectins", "CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	10874	protein-coding gene	gene with protein product		604200		CD33L2		10343116	Standard	NM_003830		Approved	OB-BP2, SIGLEC-5, CD170	uc002pxe.4	O15389	OTTHUMG00000165510	ENST00000534261.2:c.871A>T	19.37:g.52131213T>A	ENSP00000473238:p.Thr291Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000534261.2	37	CCDS33088.1	.	.	.	.	.	.	.	.	.	.	T	3.867	-0.028769	0.07589	.	.	ENSG00000105501	ENST00000222107;ENST00000429354	T;T	0.13420	2.59;2.59	3.76	-6.36	0.01969	Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	1.943120	0.02702	N	0.111846	T	0.04952	0.0133	N	0.11560	0.145	0.09310	N	1	B	0.32829	0.386	B	0.35931	0.214	T	0.26883	-1.0090	10	0.02654	T	1	.	1.2256	0.01932	0.4652:0.1053:0.2382:0.1914	.	291	O15389	SIGL5_HUMAN	S	291	ENSP00000222107:T291S;ENSP00000415200:T291S	ENSP00000222107:T291S	T	-	1	0	SIGLEC5	56823025	0.000000	0.05858	0.000000	0.03702	0.023000	0.10783	-1.639000	0.02011	-1.347000	0.02208	0.383000	0.25322	ACC		0.647	SIGLEC5-001	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466897.2	NM_003830		A	52131213	T	A	52131213	3	1	692	1	0	0	0	0	1	0	0	0	14324	1696	59	5	804	5	SIGLEC5	19	52131213	Missense_Mutation	SNP	T	TCGA-MH-A560-01A-11D-A26P-10	4307484	52131213	6997770	70	45085										
TGIF2	60436	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	35219589	35219589	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	agctggagtctcccaagcccCtggtgacccctggtagcaca	11	15	1	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr20:35219589C>A	ENST00000373874.2	+	3	668	c.469C>A	c.(469-471)Ctg>Atg	p.L157M	TGIF2-C20orf24_ENST00000558530.1_Intron|TGIF2_ENST00000373872.4_Missense_Mutation_p.L157M|RP5-977B1.11_ENST00000561134.1_RNA	NM_001199514.1|NM_001199515.1	NP_001186443.1|NP_001186444.1	Q9GZN2	TGIF2_HUMAN	TGFB-induced factor homeobox 2	157	Repressive function.				gene expression (GO:0010467)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nodal signaling pathway (GO:0038092)|positive regulation of neuron differentiation (GO:0045666)|regulation of gastrulation (GO:0010470)|regulation of transcription, DNA-templated (GO:0006355)|retina development in camera-type eye (GO:0060041)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			cervix(3)|kidney(1)|large_intestine(3)|lung(3)|ovary(1)|pancreas(1)|prostate(1)|skin(1)	14	Breast(12;0.114)	Myeloproliferative disorder(115;0.00878)				TCCCAAGCCCCTGGTGACCCC	0.632																																																0													36	42	40					20																	35219589		2203	4300	6503	SO:0001583	missense	60436			AB042646	CCDS13278.1	20q11.23	2012-12-12	2007-02-07		ENSG00000118707	ENSG00000118707		"Homeoboxes / TALE class"	15764	protein-coding gene	gene with protein product		607294	"TGFB-induced factor 2 (TALE family homeobox)"			11006116	Standard	NM_021809		Approved		uc021wcv.1	Q9GZN2	OTTHUMG00000172332	ENST00000373874.2:c.469C>A	20.37:g.35219589C>A	ENSP00000362981:p.Leu157Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9U3|E1P5T9|H0YNI0	Missense_Mutation	SNP	ENST00000373874.2	37	CCDS13278.1	.	.	.	.	.	.	.	.	.	.	C	13.95	2.390012	0.42410	.	.	ENSG00000118707	ENST00000373874;ENST00000373872	T;T	0.65732	-0.17;-0.17	5.57	2.49	0.30216	.	3.072470	0.00622	N	0.000451	T	0.50718	0.1632	N	0.14661	0.345	0.80722	D	1	P	0.47106	0.89	P	0.44990	0.466	T	0.35822	-0.9773	10	0.46703	T	0.11	-14.2668	5.1002	0.14754	0.1452:0.6315:0.0:0.2233	.	157	Q9GZN2	TGIF2_HUMAN	M	157	ENSP00000362981:L157M;ENSP00000362979:L157M	ENSP00000362979:L157M	L	+	1	2	TGIF2	34653003	0.043000	0.20138	0.816000	0.32577	0.586000	0.36452	0.322000	0.19576	0.262000	0.21774	0.561000	0.74099	CTG		0.632	TGIF2-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079004.2	NM_021809		A	35219589	C	A	35219589	3	1	692	1	0	0	0	0	1	0	0	0	15838	680	24	4	475	4	TGIF2	20	35219589	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10		35219589	27805931	71	45086										
HNF4A	3172	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	43052875	43052876	+	Frame_Shift_Ins	INS	-	-	C													0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	ccaagattgacaacctgttgINScaggagatgctgctgggagg							TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr20:43052875_43052876insC	ENST00000316099.4	+	8	1199_1200	c.1110_1111insC	c.(1111-1113)cagfs	p.Q371fs	HNF4A_ENST00000457232.1_Frame_Shift_Ins_p.Q349fs|HNF4A_ENST00000443598.2_Frame_Shift_Ins_p.Q371fs|HNF4A_ENST00000609795.1_Frame_Shift_Ins_p.Q349fs|HNF4A_ENST00000415691.2_Frame_Shift_Ins_p.Q371fs|HNF4A_ENST00000316673.4_Frame_Shift_Ins_p.Q349fs|AL132772.1_ENST00000581483.1_RNA	NM_000457.4|NM_001258355.1|NM_178849.2	NP_000448.3|NP_001245284.1|NP_849180.1	P41235	HNF4A_HUMAN	hepatocyte nuclear factor 4, alpha	371					blood coagulation (GO:0007596)|endocrine pancreas development (GO:0031018)|gene expression (GO:0010467)|glucose homeostasis (GO:0042593)|lipid homeostasis (GO:0055088)|lipid metabolic process (GO:0006629)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|ornithine metabolic process (GO:0006591)|phospholipid homeostasis (GO:0055091)|positive regulation of cholesterol homeostasis (GO:2000189)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of gastrulation (GO:0010470)|regulation of growth hormone receptor signaling pathway (GO:0060398)|regulation of insulin secretion (GO:0050796)|regulation of lipid metabolic process (GO:0019216)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to glucose (GO:0009749)|sex differentiation (GO:0007548)|signal transduction involved in regulation of gene expression (GO:0023019)|SMAD protein signal transduction (GO:0060395)|transcription initiation from RNA polymerase II promoter (GO:0006367)|triglyceride homeostasis (GO:0070328)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|fatty acid binding (GO:0005504)|ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding transcription factor activity (GO:0003700)|steroid hormone receptor activity (GO:0003707)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)			endometrium(4)|large_intestine(7)|lung(17)|ovary(1)|pancreas(1)|skin(2)|urinary_tract(2)	34		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			ACAACCTGTTGCAGGAGATGCT	0.609																																					Colon(79;2 1269 8820 14841 52347)											0																																										SO:0001589	frameshift_variant	3172			X76930	CCDS13330.1, CCDS13331.1, CCDS42876.1, CCDS46604.1, CCDS46605.1, CCDS68131.1, CCDS74728.1	20q13.12	2014-09-17			ENSG00000101076	ENSG00000101076		"Nuclear hormone receptors"	5024	protein-coding gene	gene with protein product		600281		TCF14, MODY, MODY1		7926813, 9048927	Standard	NM_001030003		Approved	NR2A1, HNF4	uc010zwo.1	P41235	OTTHUMG00000032531	ENST00000316099.4:c.1111dupC	20.37:g.43052876_43052876dupC	ENSP00000312987:p.Gln371fs	Somatic		WXS	Illumina HiSeq	Phase_I	A5JW41|B2RPP8|O00659|O00723|Q14540|Q5QPB8|Q6B4V5|Q6B4V6|Q6B4V7|Q92653|Q92654|Q92655|Q99864|Q9NQH0	Frame_Shift_Ins	INS	ENST00000316099.4	37	CCDS13330.1																																																																																				0.609	HNF4A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079363.3			C	43052876	-	C	43052875	7	5	692	1	0	1	1	0	0	0	0	0	7260	1310	46	0	1193	0	HNF4A	20	43052875	Frame_Shift_Ins	INS	-	TCGA-MH-A560-01A-11D-A26P-10	7833286	43052875	19972645	72	45087										
SUSD2	56241	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	24583996	24583996	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	caacaggtacctggcgggttCcaccatctacttccactgtg	9	14	1	0			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr22:24583996C>A	ENST00000358321.3	+	13	2495	c.2234C>A	c.(2233-2235)tCc>tAc	p.S745Y		NM_019601.3	NP_062547.1	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2	745	Sushi. {ECO:0000255|PROSITE- ProRule:PRU00302}.				immune response (GO:0006955)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	polysaccharide binding (GO:0030247)|scavenger receptor activity (GO:0005044)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(8)|ovary(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	26						CTGGCGGGTTCCACCATCTAC	0.642																																																0													80	82	81					22																	24583996		2203	4300	6503	SO:0001583	missense	56241			AK026431	CCDS13824.1	22q11-q12	2005-08-16			ENSG00000099994	ENSG00000099994			30667	protein-coding gene	gene with protein product		615825				12477932	Standard	NM_019601		Approved	BK65A6.2, FLJ22778	uc002zzn.1	Q9UGT4	OTTHUMG00000150792	ENST00000358321.3:c.2234C>A	22.37:g.24583996C>A	ENSP00000351075:p.Ser745Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H5Y6	Missense_Mutation	SNP	ENST00000358321.3	37	CCDS13824.1	.	.	.	.	.	.	.	.	.	.	C	17.35	3.366350	0.61513	.	.	ENSG00000099994	ENST00000358321	T	0.68181	-0.31	4.75	4.75	0.60458	Complement control module (2);Sushi/SCR/CCP (3);	0.119454	0.64402	D	0.000016	D	0.83403	0.5247	M	0.89414	3.03	0.41536	D	0.988484	D	0.76494	0.999	D	0.77004	0.989	D	0.86729	0.1947	10	0.72032	D	0.01	-53.0137	13.6888	0.62533	0.0:1.0:0.0:0.0	.	745	Q9UGT4	SUSD2_HUMAN	Y	745	ENSP00000351075:S745Y	ENSP00000351075:S745Y	S	+	2	0	SUSD2	22913996	0.999000	0.42202	0.998000	0.56505	0.451000	0.32288	4.155000	0.58131	2.383000	0.81215	0.505000	0.49811	TCC		0.642	SUSD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320088.1	NM_019601		A	24583996	C	A	24583996	3	1	692	1	0	0	0	0	1	0	0	0	15420	855	30	4	2284	4	SUSD2	22	24583996	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10		24583996	26720570	73	45088										
RFPL1	5988	broad.mit.edu	37	chr22	29837996	29837996	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	ctctgctgaggagccactgcActtgttttttgctcctccaa	8	13	1	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr22:29837996A>G	ENST00000354373.2	+	2	1048	c.839A>G	c.(838-840)cAc>cGc	p.H280R	RFPL1S_ENST00000539579.1_RNA|RFPL1S_ENST00000461286.3_RNA	NM_021026.2	NP_066306.2	O75677	RFPL1_HUMAN	ret finger protein-like 1	280	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.						zinc ion binding (GO:0008270)			endometrium(3)|large_intestine(1)|lung(6)|prostate(2)|skin(2)|stomach(1)|urinary_tract(1)	16						GAGCCACTGCACTTGTTTTTT	0.463																																																0													104	89	94					22																	29837996		2203	4300	6503	SO:0001583	missense	5988			AJ010228	CCDS13857.2	22q12	2006-04-25			ENSG00000128250	ENSG00000128250		"RING-type (C3HC4) zinc fingers"	9977	protein-coding gene	gene with protein product		605968				10508838	Standard	NM_021026		Approved	RNF78	uc003afn.3	O75677	OTTHUMG00000150516	ENST00000354373.2:c.839A>G	22.37:g.29837996A>G	ENSP00000346342:p.His280Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IC06|Q9UJ97	Missense_Mutation	SNP	ENST00000354373.2	37	CCDS13857.2	.	.	.	.	.	.	.	.	.	.	G	3.480	-0.106045	0.06924	.	.	ENSG00000128250	ENST00000354373	T	0.67865	-0.29	1.42	0.296	0.15757	Concanavalin A-like lectin/glucanase (1);SPla/RYanodine receptor subgroup (1);Butyrophylin-like (1);B30.2/SPRY domain (1);SPla/RYanodine receptor SPRY (1);	.	.	.	.	T	0.23133	0.0559	N	0.00387	-1.565	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.33574	-0.9863	9	0.02654	T	1	.	4.6941	0.12795	0.6416:0.0:0.3584:0.0	.	280	O75677	RFPL1_HUMAN	R	280	ENSP00000346342:H280R	ENSP00000346342:H280R	H	+	2	0	RFPL1	28167996	0.000000	0.05858	0.003000	0.11579	0.009000	0.06853	-1.609000	0.02066	-0.124000	0.11724	-1.063000	0.02288	CAC		0.463	RFPL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318719.1	NM_021026		G	29837996	A	G	29837996	3	3	692	1	0	0	0	0	1	0	0	0	13266	159	6	3	845	3	RFPL1	22	29837996	Missense_Mutation	SNP	A	TCGA-MH-A560-01A-11D-A26P-10	5254000	29837996	21466570	74	45089										
NEFH	4744	hgsc.bcm.edu	37	chr22	29885562	29885562	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	ccaagtctccaacgaaggagGaagcaaagtcccctgagaag	11	11	1	1	rs370929798		TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr22:29885562G>A	ENST00000310624.6	+	4	1966	c.1933G>A	c.(1933-1935)Gaa>Aaa	p.E645K		NM_021076.3	NP_066554.2	P12036	NFH_HUMAN	neurofilament, heavy polypeptide	645	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.				axon development (GO:0061564)|axonogenesis (GO:0007409)|cell death (GO:0008219)|cell projection assembly (GO:0030031)|microtubule cytoskeleton organization (GO:0000226)|neurofilament bundle assembly (GO:0033693)|peripheral nervous system neuron axonogenesis (GO:0048936)|regulation of organelle transport along microtubule (GO:1902513)	axon (GO:0030424)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|neurofibrillary tangle (GO:0097418)|neurofilament (GO:0005883)	dynein binding (GO:0045502)|kinesin binding (GO:0019894)|microtubule binding (GO:0008017)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(12)|ovary(2)|skin(3)	30						AACGAAGGAGGAAGCAAAGTC	0.562																																																0													82	88	86					22																	29885562		2203	4300	6503	SO:0001583	missense	4744				CCDS13858.1	22q12.2	2013-01-16	2008-09-19		ENSG00000100285	ENSG00000100285		"Intermediate filaments type IV"	7737	protein-coding gene	gene with protein product		162230	"neurofilament, heavy polypeptide 200kDa"				Standard	NM_021076		Approved		uc003afo.3	P12036	OTTHUMG00000151155	ENST00000310624.6:c.1933G>A	22.37:g.29885562G>A	ENSP00000311997:p.Glu645Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYY4|Q96HF8|Q9UJS7|Q9UQ14	Missense_Mutation	SNP	ENST00000310624.6	37	CCDS13858.1	.	.	.	.	.	.	.	.	.	.	G	9.212	1.031217	0.19590	.	.	ENSG00000100285	ENST00000328842;ENST00000310624	D	0.83914	-1.78	4.97	4.97	0.65823	.	0.115504	0.38778	N	0.001569	D	0.87783	0.6264	L	0.61218	1.895	0.29104	N	0.881289	P	0.36712	0.566	P	0.52267	0.694	D	0.83526	0.0088	10	0.44086	T	0.13	.	16.1111	0.81263	0.0:0.0:1.0:0.0	.	645	P12036	NFH_HUMAN	K	645	ENSP00000311997:E645K	ENSP00000311997:E645K	E	+	1	0	NEFH	28215562	0.001000	0.12720	0.367000	0.25926	0.091000	0.18340	0.923000	0.28757	2.745000	0.94114	0.491000	0.48974	GAA		0.562	NEFH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321553.2	NM_021076		A	29885562	G	A	29885562	3	1	692	1	0	0	0	0	1	0	0	0	10321	1175	41	2	1947	2	NEFH	22	29885562	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	47566	29885562	21419004	75	45090										
NEFH	4744	broad.mit.edu	37	chr22	29885622	29885623	+	In_Frame_Ins	INS	-	-	AGGAAG													0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	agaggccaagtcccctgagaINSaggccaagtccccagtgaag					rs267607534|rs267607535		TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr22:29885622_29885623insAGGAAG	ENST00000310624.6	+	4	2026_2027	c.1993_1994insAGGAAG	c.(1993-1995)aag>aAGGAAGag	p.665_666insEE		NM_021076.3	NP_066554.2	P12036	NFH_HUMAN	neurofilament, heavy polypeptide	671	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.				axon development (GO:0061564)|axonogenesis (GO:0007409)|cell death (GO:0008219)|cell projection assembly (GO:0030031)|microtubule cytoskeleton organization (GO:0000226)|neurofilament bundle assembly (GO:0033693)|peripheral nervous system neuron axonogenesis (GO:0048936)|regulation of organelle transport along microtubule (GO:1902513)	axon (GO:0030424)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|neurofibrillary tangle (GO:0097418)|neurofilament (GO:0005883)	dynein binding (GO:0045502)|kinesin binding (GO:0019894)|microtubule binding (GO:0008017)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(12)|ovary(2)|skin(3)	30						GTCCCCTGAGAAGGCCAAGTCC	0.579																																																0																																										SO:0001652	inframe_insertion	4744				CCDS13858.1	22q12.2	2013-01-16	2008-09-19		ENSG00000100285	ENSG00000100285		"Intermediate filaments type IV"	7737	protein-coding gene	gene with protein product		162230	"neurofilament, heavy polypeptide 200kDa"				Standard	NM_021076		Approved		uc003afo.3	P12036	OTTHUMG00000151155	Exception_encountered	22.37:g.29885622_29885623insAGGAAG	ENSP00000311997:p.Lys665_Ala666insGluGlu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYY4|Q96HF8|Q9UJS7|Q9UQ14	In_Frame_Ins	INS	ENST00000310624.6	37	CCDS13858.1																																																																																				0.579	NEFH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321553.2	NM_021076		AGGAAG	29885623	-	AGGAAG	29885622	7	5	692	1	0	1	1	0	0	0	0	0	10321	247	9	0	2007	0	NEFH	22	29885622	In_Frame_Ins	INS	-	TCGA-MH-A560-01A-11D-A26P-10	60	29885622	21418944	76	45091										
CACNG2	10369	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	37098581	37098581	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	aggcagcgaaagcaccaacgGtggttaaaagcatttgaaca	11	8	0	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chr22:37098581G>T	ENST00000300105.6	-	1	1022	c.41C>A	c.(40-42)aCc>aAc	p.T14N	RP1-293L6.1_ENST00000430281.1_RNA	NM_006078.3	NP_006069.1	Q9Y698	CCG2_HUMAN	calcium channel, voltage-dependent, gamma subunit 2	14					membrane depolarization (GO:0051899)|membrane hyperpolarization (GO:0060081)|neuromuscular junction development (GO:0007528)|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:2000311)|synaptic transmission (GO:0007268)|transmission of nerve impulse (GO:0019226)|transport (GO:0006810)	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex (GO:0032281)|endocytic vesicle membrane (GO:0030666)|plasma membrane (GO:0005886)|voltage-gated calcium channel complex (GO:0005891)	voltage-gated calcium channel activity (GO:0005245)			breast(1)|endometrium(2)|kidney(1)|large_intestine(7)|lung(4)|prostate(1)|skin(1)|urinary_tract(1)	18						AGCACCAACGGTGGTTAAAAG	0.488																																																0													154	142	146					22																	37098581		2203	4300	6503	SO:0001583	missense	10369			AF096322	CCDS13931.1	22q13.1	2006-08-01			ENSG00000166862	ENSG00000166862		"Calcium channel subunits"	1406	protein-coding gene	gene with protein product		602911					Standard	NM_006078		Approved	stargazin, MGC138502, MGC138504	uc003aps.2	Q9Y698	OTTHUMG00000030612	ENST00000300105.6:c.41C>A	22.37:g.37098581G>T	ENSP00000300105:p.Thr14Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M1M1|Q5TGT3|Q9UGZ7	Missense_Mutation	SNP	ENST00000300105.6	37	CCDS13931.1	.	.	.	.	.	.	.	.	.	.	g	19.64	3.865847	0.71949	.	.	ENSG00000166862	ENST00000300105	D	0.89681	-2.55	4.77	4.77	0.60923	.	0.000000	0.85682	D	0.000000	D	0.94971	0.8373	M	0.84948	2.725	0.80722	D	1	D	0.62365	0.991	D	0.76071	0.987	D	0.95765	0.8804	10	0.72032	D	0.01	-20.8031	17.8661	0.88795	0.0:0.0:1.0:0.0	.	14	Q9Y698	CCG2_HUMAN	N	14	ENSP00000300105:T14N	ENSP00000300105:T14N	T	-	2	0	CACNG2	35428527	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.265000	0.95647	2.192000	0.70111	0.546000	0.68486	ACC		0.488	CACNG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075500.2			T	37098581	G	T	37098581	3	4	692	1	0	0	0	0	1	0	0	0	2559	1261	44	4	946	4	CACNG2	22	37098581	Missense_Mutation	SNP	G	TCGA-MH-A560-01A-11D-A26P-10	7212959	37098581	14205985	77	45092										
FAM47A	158724	hgsc.bcm.edu;broad.mit.edu	37	chrX	34148936	34148936	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	gcgagtggagactggacctcCgacgtgtcttgggatgttcc	15	10	1	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chrX:34148936C>T	ENST00000346193.3	-	1	1511	c.1460G>A	c.(1459-1461)cGg>cAg	p.R487Q		NM_203408.3	NP_981953.2	Q5JRC9	FA47A_HUMAN	family with sequence similarity 47, member A	487								p.R487Q(1)		NS(1)|biliary_tract(1)|breast(2)|central_nervous_system(1)|endometrium(9)|kidney(5)|large_intestine(17)|lung(44)|ovary(5)|prostate(2)|skin(4)|upper_aerodigestive_tract(4)|urinary_tract(2)	97						ACTGGACCTCCGACGTGTCTT	0.642																																																1	Substitution - Missense(1)	large_intestine(1)											47	54	51					X																	34148936		2192	4286	6478	SO:0001583	missense	158724			BC026171	CCDS43926.1	Xp21.1	2004-08-09			ENSG00000185448	ENSG00000185448			29962	protein-coding gene	gene with protein product	"similar to hypothetical protein FLJ35782"					12477932	Standard	NM_203408		Approved	MGC27003	uc004ddg.3	Q5JRC9	OTTHUMG00000021339	ENST00000346193.3:c.1460G>A	X.37:g.34148936C>T	ENSP00000345029:p.Arg487Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8I9|Q8TAA0	Missense_Mutation	SNP	ENST00000346193.3	37	CCDS43926.1	.	.	.	.	.	.	.	.	.	.	c	9.489	1.100058	0.20552	.	.	ENSG00000185448	ENST00000346193	T	0.16196	2.36	0.446	0.446	0.16602	.	.	.	.	.	T	0.10380	0.0254	N	0.24115	0.695	0.09310	N	1	D	0.62365	0.991	P	0.44811	0.461	T	0.23762	-1.0179	8	0.13470	T	0.59	.	.	.	.	.	487	Q5JRC9	FA47A_HUMAN	Q	487	ENSP00000345029:R487Q	ENSP00000345029:R487Q	R	-	2	0	FAM47A	34058857	0.022000	0.18835	0.006000	0.13384	0.016000	0.09150	0.010000	0.13242	0.435000	0.26365	0.183000	0.17082	CGG		0.642	FAM47A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056205.1	NM_203408		T	34148936	C	T	34148936	3	4	692	1	0	0	0	0	1	0	0	0	5576	652	23	1	919	1	FAM47A	23	34148936	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10		34148936	121121624	78	45093										
TMEM164	84187	bcgsc.ca	37	chrX	109352336	109352336	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0649350649350649	5	1	0.949099937926754	1.55307262569832	0.753697009530069	1	1	0	tgcacatgttgaatggagctCttctggcattgctgtttcct	10	9	2	1			TCGA-MH-A560-01A-11D-A26P-10	TCGA-MH-A560-10A-01D-A26P-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	cf5deb22-f7eb-409d-a0e4-882716199c39	8fa7c1a8-e64c-4ee8-9012-187aa9da1210	g.chrX:109352336C>G	ENST00000372073.1	+	4	805	c.469C>G	c.(469-471)Ctt>Gtt	p.L157V	TMEM164_ENST00000372068.2_Missense_Mutation_p.L157V|TMEM164_ENST00000288381.4_Intron|TMEM164_ENST00000372072.3_Missense_Mutation_p.L8V			Q5U3C3	TM164_HUMAN	transmembrane protein 164	157						integral component of membrane (GO:0016021)				cervix(1)|endometrium(1)|large_intestine(5)|lung(6)|skin(1)	14						GAATGGAGCTCTTCTGGCATT	0.453																																																0													231	186	201					X																	109352336		2203	4300	6503	SO:0001583	missense	84187			AK094127	CCDS14550.2, CCDS55475.1	Xq22.3	2008-02-05			ENSG00000157600	ENSG00000157600			26217	protein-coding gene	gene with protein product						12477932	Standard	NM_032227		Approved	FLJ22679, RP13-360B22.2	uc004eom.3	Q5U3C3	OTTHUMG00000022192	ENST00000372073.1:c.469C>G	X.37:g.109352336C>G	ENSP00000361143:p.Leu157Val	Somatic		WXS	Illumina HiSeq	Phase_1	B3KSQ8|F5H2P2	Missense_Mutation	SNP	ENST00000372073.1	37	CCDS14550.2	.	.	.	.	.	.	.	.	.	.	C	17.37	3.371759	0.61624	.	.	ENSG00000157600	ENST00000372072;ENST00000372073;ENST00000372068	T;T;T	0.48522	0.81;0.81;0.81	5.92	5.92	0.95590	.	0.058058	0.64402	D	0.000003	T	0.54334	0.1852	L	0.52266	1.64	0.53005	D	0.999965	D	0.55800	0.973	P	0.53593	0.73	T	0.49163	-0.8968	10	0.32370	T	0.25	-5.3101	14.484	0.67603	0.0:1.0:0.0:0.0	.	157	Q5U3C3	TM164_HUMAN	V	8;157;157	ENSP00000384075:L8V;ENSP00000361143:L157V;ENSP00000361138:L157V	ENSP00000361138:L157V	L	+	1	0	TMEM164	109238992	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.616000	0.61197	2.498000	0.84270	0.600000	0.82982	CTT		0.453	TMEM164-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057898.1	NM_032227		G	109352336	C	G	109352336	3	3	692	1	0	0	0	0	1	0	0	0	16091	913	32	4	479	4	TMEM164	23	109352336	Missense_Mutation	SNP	C	TCGA-MH-A560-01A-11D-A26P-10	75203400	109352336	45918224	79	45094										
NOL9	79707	broad.mit.edu	37	chr1	6610594	6610594	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gaagatgtcttgggcaggctGgccttggctgatggtaaaac	15	7	1	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:6610594G>A	ENST00000377705.5	-	2	510	c.478C>T	c.(478-480)Cag>Tag	p.Q160*		NM_024654.4	NP_078930	Q5SY16	NOL9_HUMAN	nucleolar protein 9	160					maturation of 5.8S rRNA (GO:0000460)	membrane (GO:0016020)|nucleolus (GO:0005730)	ATP binding (GO:0005524)|polynucleotide 5'-hydroxyl-kinase activity (GO:0051731)|RNA binding (GO:0003723)			central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(2)|lung(9)|skin(2)|urinary_tract(1)	19	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;2.46e-35)|all_epithelial(116;1.41e-22)|all_lung(118;7.59e-07)|Lung NSC(185;4.28e-06)|Colorectal(325;4.52e-05)|Breast(487;0.000353)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0443)		Colorectal(212;1.47e-07)|COAD - Colon adenocarcinoma(227;1.47e-05)|Kidney(185;5.27e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|BRCA - Breast invasive adenocarcinoma(365;0.00113)|STAD - Stomach adenocarcinoma(132;0.0017)|READ - Rectum adenocarcinoma(331;0.0649)		TGGGCAGGCTGGCCTTGGCTG	0.473																																																0													118	118	118					1																	6610594		2203	4300	6503	SO:0001587	stop_gained	79707			AK091284	CCDS80.1	1p36.31	2012-05-02			ENSG00000162408	ENSG00000162408			26265	protein-coding gene	gene with protein product	"polynucleotide 5'-kinase"					21063389	Standard	NM_024654		Approved	FLJ23323, NET6, Grc3	uc001ans.3	Q5SY16	OTTHUMG00000000904	ENST00000377705.5:c.478C>T	1.37:g.6610594G>A	ENSP00000366934:p.Gln160*	Somatic		WXS	Illumina HiSeq	Phase_I	Q2NL84|Q4VBY3|Q6P472|Q7L4D6|Q96EE0|Q9H5L4	Nonsense_Mutation	SNP	ENST00000377705.5	37	CCDS80.1	.	.	.	.	.	.	.	.	.	.	G	23.2	4.389690	0.82902	.	.	ENSG00000162408	ENST00000377705	.	.	.	5.37	5.37	0.77165	.	0.000000	0.64402	D	0.000008	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.07175	T	0.84	-21.4105	16.6621	0.85243	0.0:0.0:1.0:0.0	.	.	.	.	X	160	.	ENSP00000366934:Q160X	Q	-	1	0	NOL9	6533181	1.000000	0.71417	1.000000	0.80357	0.082000	0.17680	7.800000	0.85949	2.788000	0.95919	0.650000	0.86243	CAG		0.473	NOL9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000002625.1	NM_024654		A	6610594	G	A	6610594	4	1	693	1	0	0	0	0	0	1	0	0	10535	1357	47	2	1674	2	NOL9	1	6610594	Nonsense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10		6610594	242640027	1	45095										
RBP7	116362	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	10068242	10068242	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ttcatgcagagtttggttatCtgggacaatgacaggctcac	11	8	3	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:10068242C>G	ENST00000294435.7	+	3	307	c.264C>G	c.(262-264)atC>atG	p.I88M		NM_052960.2	NP_443192.1	Q96R05	RET7_HUMAN	retinol binding protein 7, cellular	88						cytoplasm (GO:0005737)	retinal binding (GO:0016918)|retinol binding (GO:0019841)|transporter activity (GO:0005215)			endometrium(1)|large_intestine(1)	2		all_lung(284;0.000407)|Renal(390;0.000469)|Lung NSC(185;0.000577)|Colorectal(325;0.0062)|Breast(348;0.00686)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.5e-08)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;0.000249)|BRCA - Breast invasive adenocarcinoma(304;0.000302)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00856)|READ - Rectum adenocarcinoma(331;0.0419)	Vitamin A(DB00162)	GTTTGGTTATCTGGGACAATG	0.468																																																0													112	104	107					1																	10068242		2203	4300	6503	SO:0001583	missense	116362			AF399927	CCDS109.1	1p36.22	2013-03-01			ENSG00000162444	ENSG00000162444		"Fatty acid binding protein family"	30316	protein-coding gene	gene with protein product		608604				12177003	Standard	NM_052960		Approved	CRBPIV	uc001aqq.3	Q96R05	OTTHUMG00000001798	ENST00000294435.7:c.264C>G	1.37:g.10068242C>G	ENSP00000294435:p.Ile88Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2R517|Q5SWJ4	Missense_Mutation	SNP	ENST00000294435.7	37	CCDS109.1	.	.	.	.	.	.	.	.	.	.	C	6.871	0.529995	0.13127	.	.	ENSG00000162444	ENST00000315901;ENST00000294435	T	0.07688	3.17	4.07	0.988	0.19796	Calycin-like (1);Lipocalin/cytosolic fatty-acid binding protein domain (1);Calycin (1);	0.599344	0.15592	N	0.254321	T	0.07143	0.0181	N	0.19112	0.55	0.09310	N	0.99999	B	0.23650	0.089	B	0.37601	0.254	T	0.37526	-0.9702	10	0.87932	D	0	.	6.2468	0.20823	0.1332:0.6539:0.1302:0.0827	.	88	Q96R05	RET7_HUMAN	M	135;88	ENSP00000294435:I88M	ENSP00000294435:I88M	I	+	3	3	RBP7	9990829	0.000000	0.05858	0.746000	0.31095	0.291000	0.27294	-1.010000	0.03656	0.945000	0.37605	0.644000	0.83932	ATC		0.468	RBP7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005027.2	NM_052960		G	10068242	C	G	10068242	3	3	693	1	0	0	0	0	1	0	0	0	13173	903	32	4	274	4	RBP7	1	10068242	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	3457648	10068242	239182379	2	45096										
PRDM2	7799	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	14108836	14108836	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gtaacagcaaccaccgcagaCggacagcggatgcggagatt	13	11	0	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:14108836C>T	ENST00000235372.7	+	8	5402	c.4546C>T	c.(4546-4548)Cgg>Tgg	p.R1516W	PRDM2_ENST00000343137.4_Missense_Mutation_p.R1315W|PRDM2_ENST00000413440.1_Missense_Mutation_p.R1315W|PRDM2_ENST00000311066.5_Missense_Mutation_p.R1516W|PRDM2_ENST00000505823.1_Intron|PRDM2_ENST00000376048.5_Intron|PRDM2_ENST00000503842.1_Intron	NM_012231.4	NP_036363.2	Q13029	PRDM2_HUMAN	PR domain containing 2, with ZNF domain	1516					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(16)|lung(20)|ovary(3)|prostate(3)|skin(1)|urinary_tract(2)	55	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		CCACCGCAGACGGACAGCGGA	0.512																																																0													72	82	79					1																	14108836		2203	4300	6503	SO:0001583	missense	7799			U17838	CCDS150.1, CCDS151.1, CCDS30603.1, CCDS44061.1	1p36	2011-07-01			ENSG00000116731	ENSG00000116731		"Chromatin-modifying enzymes / K-methyltransferases"	9347	protein-coding gene	gene with protein product	"retinoblastoma protein-binding zinc finger protein", "retinoblastoma protein-interacting zinc finger protein", "MTE-binding protein", "zinc-finger DNA-binding protein", "GATA-3 binding protein G3B"	601196				7538672	Standard	NM_012231		Approved	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1	uc001avi.3	Q13029	OTTHUMG00000007917	ENST00000235372.7:c.4546C>T	1.37:g.14108836C>T	ENSP00000235372:p.Arg1516Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B1AJZ4|B5MC68|Q13149|Q14550|Q5THJ1|Q5VUL9	Missense_Mutation	SNP	ENST00000235372.7	37	CCDS150.1	.	.	.	.	.	.	.	.	.	.	C	16.45	3.127315	0.56721	.	.	ENSG00000116731	ENST00000235372;ENST00000311066;ENST00000400800;ENST00000413440;ENST00000343137	T;T;T;T	0.02032	4.6;4.49;4.49;4.49	5.98	4.06	0.47325	.	0.060868	0.64402	D	0.000003	T	0.09598	0.0236	M	0.69823	2.125	0.49051	D	0.999741	D;B;B	0.89917	1.0;0.14;0.445	D;B;B	0.73708	0.981;0.015;0.034	T	0.00638	-1.1632	10	0.87932	D	0	.	8.67	0.34145	0.1498:0.7733:0.0:0.0769	.	1374;1516;1516	Q5THJ0;Q13029;Q13029-2	.;PRDM2_HUMAN;.	W	1516;1516;1516;1315;1315	ENSP00000235372:R1516W;ENSP00000312352:R1516W;ENSP00000411103:R1315W;ENSP00000341621:R1315W	ENSP00000235372:R1516W	R	+	1	2	PRDM2	13981423	0.364000	0.24997	0.793000	0.32043	0.983000	0.72400	0.980000	0.29513	0.815000	0.34398	0.591000	0.81541	CGG		0.512	PRDM2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000021792.2	NM_012231		T	14108836	C	T	14108836	3	4	693	1	0	0	0	0	1	0	0	0	12468	527	19	1	4572	1	PRDM2	1	14108836	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	4040594	14108836	235141785	3	45097										
PLEKHM2	23207	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	16054269	16054269	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gtctgagtagcgctgaggatTctggggtggatgagggacag	19	5	2	3			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:16054269T>G	ENST00000375799.3	+	9	1929	c.1702T>G	c.(1702-1704)Tct>Gct	p.S568A	RP11-288I21.1_ENST00000453804.1_RNA|PLEKHM2_ENST00000375793.2_Missense_Mutation_p.S548A	NM_015164.2	NP_055979.2	Q8IWE5	PKHM2_HUMAN	pleckstrin homology domain containing, family M (with RUN domain) member 2	568					Golgi organization (GO:0007030)	cytoplasm (GO:0005737)	kinesin binding (GO:0019894)			cervix(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(5)|ovary(2)|upper_aerodigestive_tract(1)	12		Colorectal(325;0.000259)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00057)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		CGCTGAGGATTCTGGGGTGGA	0.622																																																0													13	15	14					1																	16054269		2067	4198	6265	SO:0001583	missense	23207			AB020649	CCDS44063.1	1p36.13	2013-01-10			ENSG00000116786	ENSG00000116786		"Pleckstrin homology (PH) domain containing"	29131	protein-coding gene	gene with protein product		609613				10048485	Standard	NM_015164		Approved	KIAA0842	uc010obo.2	Q8IWE5	OTTHUMG00000003062	ENST00000375799.3:c.1702T>G	1.37:g.16054269T>G	ENSP00000364956:p.Ser568Ala	Somatic		WXS	Illumina HiSeq	Phase_I	O94928|Q5VT65|Q6NUH9|Q7L8G1|Q8IVT7|Q8N2T4|Q96AY0|Q9NTF7	Missense_Mutation	SNP	ENST00000375799.3	37	CCDS44063.1	.	.	.	.	.	.	.	.	.	.	T	19.73	3.882074	0.72294	.	.	ENSG00000116786	ENST00000375799;ENST00000375793	T;T	0.59502	0.33;0.26	5.55	5.55	0.83447	.	0.139273	0.51477	D	0.000089	T	0.48333	0.1494	L	0.29908	0.895	0.39619	D	0.970004	P	0.45396	0.857	B	0.41332	0.354	T	0.52689	-0.8542	10	0.41790	T	0.15	-13.0585	15.6894	0.77439	0.0:0.0:0.0:1.0	.	568	Q8IWE5	PKHM2_HUMAN	A	568;548	ENSP00000364956:S568A;ENSP00000364950:S548A	ENSP00000364950:S548A	S	+	1	0	PLEKHM2	15926856	1.000000	0.71417	0.997000	0.53966	0.988000	0.76386	5.910000	0.69931	2.106000	0.64143	0.533000	0.62120	TCT		0.622	PLEKHM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008463.1	NM_015164		G	16054269	T	G	16054269	3	3	693	1	0	0	0	0	1	0	0	0	12088	1783	62	5	1736	5	PLEKHM2	1	16054269	Missense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	1945433	16054269	233196352	4	45098										
E2F2	1870	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	23848337	23848337	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ccaggcactcacacccactgGatgttgttcttggccttctt	8	14	3	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:23848337G>C	ENST00000361729.2	-	3	996	c.570C>G	c.(568-570)atC>atG	p.I190M	E2F2_ENST00000487237.1_5'Flank	NM_004091.3	NP_004082.1	Q14209	E2F2_HUMAN	E2F transcription factor 2	190					intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|lens fiber cell apoptotic process (GO:1990086)|mitotic cell cycle (GO:0000278)|regulation of cell cycle (GO:0051726)|transcription initiation from RNA polymerase II promoter (GO:0006367)	nucleoplasm (GO:0005654)|transcription factor complex (GO:0005667)	core promoter binding (GO:0001047)|DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)			endometrium(4)|large_intestine(2)|lung(1)|ovary(3)|skin(2)|urinary_tract(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.52e-24)|Colorectal(126;6.25e-08)|COAD - Colon adenocarcinoma(152;3.42e-06)|GBM - Glioblastoma multiforme(114;8.98e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00102)|KIRC - Kidney renal clear cell carcinoma(1967;0.00366)|STAD - Stomach adenocarcinoma(196;0.0132)|READ - Rectum adenocarcinoma(331;0.0652)|Lung(427;0.0888)|LUSC - Lung squamous cell carcinoma(448;0.19)		ACACCCACTGGATGTTGTTCT	0.612																																																0													123	104	110					1																	23848337		2203	4300	6503	SO:0001583	missense	1870			L22846	CCDS236.1	1p36	2008-02-05			ENSG00000007968	ENSG00000007968			3114	protein-coding gene	gene with protein product		600426				8246995, 8246996	Standard	NM_004091		Approved	E2F-2	uc001bhe.2	Q14209	OTTHUMG00000003223	ENST00000361729.2:c.570C>G	1.37:g.23848337G>C	ENSP00000355249:p.Ile190Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9W1|Q7Z6H1	Missense_Mutation	SNP	ENST00000361729.2	37	CCDS236.1	.	.	.	.	.	.	.	.	.	.	G	17.41	3.382364	0.61845	.	.	ENSG00000007968	ENST00000361729	T	0.15256	2.44	5.35	4.42	0.53409	Transcription factor E2F/dimerisation partner (TDP) (1);Winged helix-turn-helix transcription repressor DNA-binding (1);	0.058637	0.64402	D	0.000003	T	0.48840	0.1522	M	0.93241	3.395	0.58432	D	0.999998	D	0.56968	0.978	D	0.65323	0.934	T	0.60865	-0.7178	10	0.87932	D	0	-24.1713	11.9214	0.52793	0.0:0.0:0.6839:0.3161	.	190	Q14209	E2F2_HUMAN	M	190	ENSP00000355249:I190M	ENSP00000355249:I190M	I	-	3	3	E2F2	23720924	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.406000	0.44557	1.212000	0.43366	0.591000	0.81541	ATC		0.612	E2F2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008885.1	NM_004091		C	23848337	G	C	23848337	3	2	693	1	0	0	0	0	1	0	0	0	4869	1164	41	4	763	4	E2F2	1	23848337	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	7794068	23848337	225402284	5	45099										
CD52	1043	hgsc.bcm.edu;bcgsc.ca	37	chr1	26646661	26646661	+	Splice_Site	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	atcccacttctcctcctacaGatacaaactggactctcagg	5	15	2	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:26646661G>T	ENST00000374213.2	+	2	115		c.e2-1		UBXN11_ENST00000374217.2_5'Flank|UBXN11_ENST00000374222.1_5'Flank	NM_001803.2	NP_001794.2	P31358	CD52_HUMAN	CD52 molecule						positive regulation of cytosolic calcium ion concentration (GO:0007204)|respiratory burst (GO:0045730)	anchored component of membrane (GO:0031225)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)				large_intestine(1)	1		all_cancers(24;5.02e-24)|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;7.56e-28)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.000946)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0137)|READ - Rectum adenocarcinoma(331;0.0649)	Alemtuzumab(DB00087)	TCCTCCTACAGATACAAACTG	0.488																																																0													108	108	108					1																	26646661		2203	4300	6503	SO:0001630	splice_region_variant	1043				CCDS30647.1	1p36	2008-02-05	2006-03-28	2005-02-07	ENSG00000169442	ENSG00000169442		"CD molecules"	1804	protein-coding gene	gene with protein product		114280	"CD52 antigen (CAMPATH-1 antigen)"	CDW52		1711975	Standard	NM_001803		Approved		uc001bmc.3	P31358	OTTHUMG00000003491	ENST00000374213.2:c.55-1G>T	1.37:g.26646661G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T138|Q9BW46	Splice_Site	SNP	ENST00000374213.2	37	CCDS30647.1	.	.	.	.	.	.	.	.	.	.	G	13.65	2.299548	0.40694	.	.	ENSG00000169442	ENST00000374213	.	.	.	3.6	3.6	0.41247	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	11.042	0.47835	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	CD52	26519248	0.969000	0.33509	0.935000	0.37517	0.213000	0.24496	3.220000	0.51207	2.312000	0.78011	0.655000	0.94253	.		0.488	CD52-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000009704.1	NM_001803	Intron	T	26646661	G	T	26646661	5	4	693	1	0	0	0	0	0	0	1	0	3024	956	33	4	60	4	CD52	1	26646661	Splice_Site	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	2798324	26646661	222603960	6	45100										
COL8A2	1296	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	36564106	36564106	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ctaggcccctggtcacctcgAatgccaggcactcctggggg	13	15	1	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:36564106A>G	ENST00000397799.1	-	4	1400	c.1176T>C	c.(1174-1176)atT>atC	p.I392I	COL8A2_ENST00000303143.4_Silent_p.I392I|COL8A2_ENST00000481785.1_Silent_p.I327I			P25067	CO8A2_HUMAN	collagen, type VIII, alpha 2	392	Triple-helical region.				angiogenesis (GO:0001525)|camera-type eye morphogenesis (GO:0048593)|collagen catabolic process (GO:0030574)|epithelial cell proliferation (GO:0050673)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|single organismal cell-cell adhesion (GO:0016337)	basement membrane (GO:0005604)|collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	extracellular matrix structural constituent (GO:0005201)|protein binding, bridging (GO:0030674)			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)				GGTCACCTCGAATGCCAGGCA	0.692																																																0													9	10	10					1																	36564106		2188	4274	6462	SO:0001819	synonymous_variant	1296			M60832	CCDS403.1, CCDS72756.1	1p34.2-p32.3	2014-02-14			ENSG00000171812	ENSG00000171812		"Collagens"	2216	protein-coding gene	gene with protein product		120252		FECD		11689488	Standard	XM_005270477		Approved	PPCD, FECD1, PPCD2	uc001bzv.2	P25067	OTTHUMG00000007665	ENST00000397799.1:c.1176T>C	1.37:g.36564106A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JV31|Q8TEJ5	Silent	SNP	ENST00000397799.1	37	CCDS403.1																																																																																				0.692	COL8A2-003	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313674.1	NM_005202		G	36564106	A	G	36564106	2	3	693	1	0	0	0	0	0	0	0	1	3708	242	9	3		3	COL8A2	1	36564106	Silent	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	9917445	36564106	212686515	7	45101										
CDC20	991	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	43826814	43826814	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gtagcatggtgtccctggcaGtccaatgtcctggcaacagg	13	11	0	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:43826814G>C	ENST00000372462.1	+	8	1304	c.1101G>C	c.(1099-1101)caG>caC	p.Q367H	ELOVL1_ENST00000470769.1_5'Flank|CDC20_ENST00000310955.6_Missense_Mutation_p.Q367H|RP1-92O14.3_ENST00000424948.1_RNA			Q12834	CDC20_HUMAN	cell division cycle 20	367					activation of anaphase-promoting complex activity (GO:0051488)|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031145)|cell cycle (GO:0007049)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051436)|positive regulation of cell proliferation (GO:0008284)|positive regulation of synapse maturation (GO:0090129)|positive regulation of synaptic plasticity (GO:0031915)|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051437)|protein ubiquitination (GO:0016567)|regulation of dendrite development (GO:0050773)|regulation of meiosis (GO:0040020)|regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle (GO:0051439)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|protein complex (GO:0043234)|spindle (GO:0005819)	enzyme binding (GO:0019899)|protein C-terminus binding (GO:0008022)			endometrium(2)|kidney(1)|large_intestine(3)|lung(7)|ovary(1)|prostate(1)	15	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GTCCCTGGCAGTCCAATGTCC	0.572																																					Esophageal Squamous(137;1154 1759 10362 10401 46925)											0													85	76	79					1																	43826814		2203	4300	6503	SO:0001583	missense	991			U05340	CCDS484.1	1p34.1	2013-01-17	2013-01-17		ENSG00000117399	ENSG00000117399		"WD repeat domain containing"	1723	protein-coding gene	gene with protein product		603618	"CDC20 (cell division cycle 20, S. cerevisiae, homolog)", "CDC20 cell division cycle 20 homolog (S. cerevisiae)", "cell division cycle 20 homolog (S. cerevisiae)"			7513050, 9353311	Standard	NM_001255		Approved	p55CDC, CDC20A	uc001cix.3	Q12834	OTTHUMG00000007420	ENST00000372462.1:c.1101G>C	1.37:g.43826814G>C	ENSP00000361540:p.Gln367His	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6Z6|D3DPJ1|Q5JUY4|Q9BW56|Q9UQI9	Missense_Mutation	SNP	ENST00000372462.1	37	CCDS484.1	.	.	.	.	.	.	.	.	.	.	G	15.62	2.886198	0.51908	.	.	ENSG00000117399	ENST00000437896;ENST00000310955;ENST00000372462	T;T	0.29397	1.57;1.57	5.73	0.649	0.17806	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.27098	0.0664	L	0.33668	1.02	0.58432	D	0.999997	P	0.38992	0.653	P	0.45099	0.469	T	0.04481	-1.0948	10	0.62326	D	0.03	-17.7133	9.4478	0.38708	0.4049:0.0:0.5951:0.0	.	367	Q12834	CDC20_HUMAN	H	343;367;367	ENSP00000308450:Q367H;ENSP00000361540:Q367H	ENSP00000308450:Q367H	Q	+	3	2	CDC20	43599401	1.000000	0.71417	0.997000	0.53966	0.993000	0.82548	3.104000	0.50306	0.090000	0.17273	-0.291000	0.09656	CAG		0.572	CDC20-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019488.1	NM_001255		C	43826814	G	C	43826814	3	2	693	1	0	0	0	0	1	0	0	0	3061	1020	36	4	1131	4	CDC20	1	43826814	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	7262708	43826814	205423807	8	45102										
GPBP1L1	60313	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	46124748	46124748	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	agccaagcaggaacaaaatcAtgctgcgccatttaggtcca	9	11	1	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:46124748A>G	ENST00000290795.3	-	3	1233	c.12T>C	c.(10-12)caT>caC	p.H4H	GPBP1L1_ENST00000355105.3_Silent_p.H4H			Q9HC44	GPBL1_HUMAN	GC-rich promoter binding protein 1-like 1	4					positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)		GPBP1L1/MAST2_ENST00000361297(2)	breast(1)|endometrium(2)|large_intestine(4)|lung(10)|ovary(1)|skin(2)|stomach(1)	21	Acute lymphoblastic leukemia(166;0.155)					GAACAAAATCATGCTGCGCCA	0.428																																																0													146	137	140					1																	46124748		2203	4300	6503	SO:0001819	synonymous_variant	60313				CCDS528.1	1p34.1	2008-02-05			ENSG00000159592	ENSG00000159592			28843	protein-coding gene	gene with protein product						12477932	Standard	NM_021639		Approved	SP192	uc001coq.3	Q9HC44	OTTHUMG00000040990	ENST00000290795.3:c.12T>C	1.37:g.46124748A>G		Somatic		WXS	Illumina HiSeq	Phase_I	D3DQ10|Q9H751	Silent	SNP	ENST00000290795.3	37	CCDS528.1																																																																																				0.428	GPBP1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098375.1	NM_021639		G	46124748	A	G	46124748	2	3	693	1	0	0	0	0	0	0	0	1	6603	214	8	3		3	GPBP1L1	1	46124748	Silent	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	2297934	46124748	203125873	9	45103										
AGBL4	84871	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	48999847	48999847	+	Nonstop_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tcccaggactccgtgtctttAaaaaggggttgaagggtctt	12	8	2	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:48999847A>G	ENST00000371839.1	-	14	1626	c.1510T>C	c.(1510-1512)Taa>Caa	p.*504Q	AGBL4_ENST00000334103.7_Nonstop_Mutation_p.*228Q	NM_032785.3	NP_116174.3	Q5VU57	CBPC6_HUMAN	ATP/GTP binding protein-like 4	0					C-terminal protein deglutamylation (GO:0035609)|protein side chain deglutamylation (GO:0035610)	cytosol (GO:0005829)	metallocarboxypeptidase activity (GO:0004181)|tubulin binding (GO:0015631)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(4)|ovary(1)|stomach(1)	15				Colorectal(2;0.00349)|COAD - Colon adenocarcinoma(2;0.0037)		CCGTGTCTTTAAAAAGGGGTT	0.507																																																0													168	152	157					1																	48999847		692	1591	2283	SO:0001578	stop_lost	84871			AK027348	CCDS44137.1	1p33	2014-06-23			ENSG00000186094	ENSG00000186094			25892	protein-coding gene	gene with protein product	"cytosolic carboxypeptidase 6"					21074048	Standard	NM_032785		Approved	FLJ14442, CCP6	uc001cru.2	Q5VU57	OTTHUMG00000007793	ENST00000371839.1:c.1510T>C	1.37:g.48999847A>G	ENSP00000360905:p.*504Gluext*27	Somatic		WXS	Illumina HiSeq	Phase_I	B3KT26|B4DG37	Missense_Mutation	SNP	ENST00000371839.1	37	CCDS44137.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	21.7|21.7	4.181371|4.181371	0.78677|0.78677	.|.	.|.	ENSG00000186094|ENSG00000186094	ENST00000411952|ENST00000371839;ENST00000334103	.|.	.|.	.|.	5.35|5.35	5.35|5.35	0.76521|0.76521	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	0.18873|0.18873	N|N	0.999988|0.999988	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	11.9|11.9	0.52678|0.52678	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	.|.	.|.	.|.	.|Q	-1|504;228	.|.	.|.	.|X	-|-	.|1	.|0	AGBL4|AGBL4	48772434|48772434	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.851000|0.851000	0.48451|0.48451	3.026000|3.026000	0.49689|0.49689	2.371000|2.371000	0.80710|0.80710	0.533000|0.533000	0.62120|0.62120	.|TAA		0.507	AGBL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000021346.4	NM_032785		G	48999847	A	G	48999847	4	3	693	1	0	0	0	0	0	0	0	0	377	375	13	3	5	3	AGBL4	1	48999847	Nonstop_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	2875099	48999847	200250774	10	45104										
NFIA	4774	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	61824902	61824902	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tacaggccaagggcgctcccCaggaagtggcagtcagtcaa	13	12	2	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:61824902C>A	ENST00000403491.3	+	6	1386	c.902C>A	c.(901-903)cCa>cAa	p.P301Q	NFIA_ENST00000485903.2_Missense_Mutation_p.P301Q|NFIA_ENST00000371191.1_Missense_Mutation_p.P324Q|NFIA_ENST00000371187.3_Missense_Mutation_p.P301Q|NFIA_ENST00000371189.4_Missense_Mutation_p.P346Q|NFIA_ENST00000407417.3_Missense_Mutation_p.P293Q|NFIA_ENST00000371185.2_Missense_Mutation_p.P279Q|NFIA_ENST00000479364.1_3'UTR|NFIA_ENST00000371184.2_Intron	NM_001134673.3|NM_005595.4	NP_001128145.1|NP_005586.1	Q12857	NFIA_HUMAN	nuclear factor I/A	301					DNA replication (GO:0006260)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|response to organic cyclic compound (GO:0014070)|viral genome replication (GO:0019079)	nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)		NFIA/EHF(2)	endometrium(1)|kidney(2)|large_intestine(8)|lung(20)|pancreas(1)|prostate(1)|skin(1)	34						GGGCGCTCCCCAGGAAGTGGC	0.527																																																0													99	97	98					1																	61824902		2203	4300	6503	SO:0001583	missense	4774			U07809	CCDS615.1, CCDS44156.1, CCDS53322.1, CCDS53321.1	1p31.3-p31.2	2008-02-05			ENSG00000162599	ENSG00000162599			7784	protein-coding gene	gene with protein product		600727				7590749	Standard	NM_001134673		Approved	NFI-L, KIAA1439	uc010oos.2	Q12857	OTTHUMG00000008618	ENST00000403491.3:c.902C>A	1.37:g.61824902C>A	ENSP00000384523:p.Pro301Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4DRJ3|B4DS53|F5H0R0|F8W8W3|Q8TA97|Q9H3X9|Q9P2A9	Missense_Mutation	SNP	ENST00000403491.3	37	CCDS44156.1	.	.	.	.	.	.	.	.	.	.	C	24.7	4.563486	0.86335	.	.	ENSG00000162599	ENST00000371191;ENST00000407417;ENST00000371189;ENST00000403491;ENST00000485903;ENST00000371185;ENST00000371187	T;T;T;T;T;T;T	0.63580	-0.05;-0.05;-0.05;-0.05;-0.05;-0.05;-0.05	6.17	5.26	0.73747	.	0.000000	0.85682	D	0.000000	T	0.79964	0.4537	M	0.80422	2.495	0.58432	D	0.999994	D;D;D;D	0.89917	1.0;0.999;0.999;0.999	D;D;D;D	0.85130	0.997;0.997;0.997;0.994	T	0.82226	-0.0562	10	0.54805	T	0.06	.	15.327	0.74172	0.0:0.9337:0.0:0.0663	.	346;324;301;301	F8W8W3;B1AKN8;Q12857;Q12857-2	.;.;NFIA_HUMAN;.	Q	324;293;346;301;301;279;301	ENSP00000360233:P324Q;ENSP00000384680:P293Q;ENSP00000360231:P346Q;ENSP00000384523:P301Q;ENSP00000419785:P301Q;ENSP00000360227:P279Q;ENSP00000360229:P301Q	ENSP00000360227:P279Q	P	+	2	0	NFIA	61597490	1.000000	0.71417	0.997000	0.53966	0.978000	0.69477	7.173000	0.77612	1.620000	0.50308	0.655000	0.94253	CCA		0.527	NFIA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023799.3	NM_005595		A	61824902	C	A	61824902	3	1	693	1	0	0	0	0	1	0	0	0	10377	594	21	4	1070	4	NFIA	1	61824902	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	12825055	61824902	187425719	11	45105										
FNBP1L	54874	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	93965136	93965136	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	aacagaactatgcgaaacaaTtgaggtaagttaattttttt	7	4	0	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:93965136T>A	ENST00000271234.7	+	2	287	c.136T>A	c.(136-138)Ttg>Atg	p.L46M	FNBP1L_ENST00000370253.2_Missense_Mutation_p.L46M|FNBP1L_ENST00000604705.1_Missense_Mutation_p.L46M|FNBP1L_ENST00000260506.8_Missense_Mutation_p.L46M|FNBP1L_ENST00000370256.4_Missense_Mutation_p.L46M	NM_001164473.2	NP_001157945.1	Q5T0N5	FBP1L_HUMAN	formin binding protein 1-like	46	F-BAR domain. {ECO:0000250}.|FCH. {ECO:0000255|PROSITE- ProRule:PRU00083}.				autophagy (GO:0006914)|clathrin-mediated endocytosis (GO:0072583)|membrane budding (GO:0006900)|membrane invagination (GO:0010324)|membrane tubulation (GO:0097320)|positive regulation of filopodium assembly (GO:0051491)|vesicle organization (GO:0016050)|vesicle transport along actin filament (GO:0030050)	cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	lipid binding (GO:0008289)			breast(2)|kidney(2)|large_intestine(4)|lung(2)|urinary_tract(1)	11		all_lung(203;0.00206)|Lung NSC(277;0.00902)|Melanoma(281;0.155)		all cancers(265;0.00666)|GBM - Glioblastoma multiforme(16;0.0378)|Epithelial(280;0.111)		TGCGAAACAATTGAGGTAAGT	0.308																																																0													46	44	45					1																	93965136		1815	4062	5877	SO:0001583	missense	54874				CCDS53343.1, CCDS53344.1, CCDS60192.1	1p22.1	2008-02-05	2004-11-16	2004-11-17	ENSG00000137942	ENSG00000137942			20851	protein-coding gene	gene with protein product		608848	"chromosome 1 open reading frame 39"	C1orf39		14654988	Standard	NM_017737		Approved	TOCA1, FLJ20275	uc010otk.2	Q5T0N5	OTTHUMG00000010863	ENST00000271234.7:c.136T>A	1.37:g.93965136T>A	ENSP00000271234:p.Leu46Met	Somatic		WXS	Illumina HiSeq	Phase_I	J3QSS4|Q5T0N6|Q6B097|Q6P653|Q6R4Q4|Q9NXG1	Missense_Mutation	SNP	ENST00000271234.7	37	CCDS53343.1	.	.	.	.	.	.	.	.	.	.	T	18.19	3.568848	0.65765	.	.	ENSG00000137942	ENST00000370256;ENST00000271234;ENST00000260506;ENST00000370253	T;T;T;T	0.66460	-0.21;-0.21;-0.21;-0.21	5.55	2.05	0.26809	.	0.000000	0.85682	D	0.000000	T	0.69223	0.3087	M	0.84326	2.69	0.80722	D	1	D;P	0.54207	0.965;0.938	P;P	0.61328	0.887;0.855	T	0.69847	-0.5034	10	0.54805	T	0.06	-7.6767	6.8376	0.23945	0.0:0.465:0.0:0.535	.	46;46	Q5T0N5-4;Q5T0N5-3	.;.	M	46	ENSP00000359278:L46M;ENSP00000271234:L46M;ENSP00000260506:L46M;ENSP00000359275:L46M	ENSP00000260506:L46M	L	+	1	2	FNBP1L	93737724	0.711000	0.27906	0.997000	0.53966	0.913000	0.54294	0.165000	0.16564	0.401000	0.25424	-0.605000	0.04089	TTG		0.308	FNBP1L-202	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding		NM_017737		A	93965136	T	A	93965136	3	1	693	1	0	0	0	0	1	0	0	0	5973	1490	52	5	142	5	FNBP1L	1	93965136	Missense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	32140234	93965136	155285485	12	45106										
ABCA4	24	hgsc.bcm.edu;bcgsc.ca	37	chr1	94522320	94522320	+	Frame_Shift_Del	DEL	A	A	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gcatgatggtggcagtggagAaagccaacaagaacaggaag							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:94522320delA	ENST00000370225.3	-	15	2305	c.2219delT	c.(2218-2220)ttcfs	p.F740fs	ABCA4_ENST00000535735.1_Intron	NM_000350.2	NP_000341.2	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 4	740					phospholipid transfer to membrane (GO:0006649)|photoreceptor cell maintenance (GO:0045494)|phototransduction, visible light (GO:0007603)|retinoid metabolic process (GO:0001523)|transmembrane transport (GO:0055085)|transport (GO:0006810)|visual perception (GO:0007601)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|photoreceptor disc membrane (GO:0097381)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|phospholipid-translocating ATPase activity (GO:0004012)|transporter activity (GO:0005215)			NS(2)|breast(6)|central_nervous_system(5)|endometrium(9)|haematopoietic_and_lymphoid_tissue(5)|kidney(10)|large_intestine(25)|lung(57)|ovary(4)|pancreas(1)|prostate(4)|skin(10)|stomach(4)|upper_aerodigestive_tract(3)|urinary_tract(2)	147		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		GGCAGTGGAGAAAGCCAACAA	0.517																																																0													111	98	102					1																	94522320		2203	4300	6503	SO:0001589	frameshift_variant	24			U88667	CCDS747.1	1p22	2013-01-23			ENSG00000198691	ENSG00000198691		"ATP binding cassette transporters / subfamily A"	34	protein-coding gene	gene with protein product	"Stargardt disease"	601691	"ATP-binding cassette transporter, retinal-specific"	STGD1, ABCR, RP19, STGD		9490294	Standard	NM_000350		Approved	FFM, ARMD2, CORD3	uc001dqh.3	P78363	OTTHUMG00000010622	ENST00000370225.3:c.2219delT	1.37:g.94522320delA	ENSP00000359245:p.Phe740fs	Somatic		WXS	Illumina HiSeq	Phase_I	O15112|O60438|O60915|Q0QD48|Q4LE31	Frame_Shift_Del	DEL	ENST00000370225.3	37	CCDS747.1																																																																																				0.517	ABCA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029320.1	NM_000350		-	94522320	A	-	94522320	7	5	693	1	0	1	0	1	0	0	0	0	34	246	9	0	4746	0	ABCA4	1	94522320	Frame_Shift_Del	DEL	A	TCGA-MH-A561-01A-11D-A26P-10	557184	94522320	154728301	13	45107										
AQP10	89872	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	154296801	154296801	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tgcctgtggtggcccctctgGtgggggccaccgttggcaca	16	13	1	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:154296801G>T	ENST00000324978.3	+	6	791	c.751G>T	c.(751-753)Gtg>Ttg	p.V251L	ATP8B2_ENST00000368487.3_5'Flank|AQP10_ENST00000484864.1_3'UTR	NM_080429.2	NP_536354.2	Q96PS8	AQP10_HUMAN	aquaporin 10	251					response to toxic substance (GO:0009636)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			central_nervous_system(1)|endometrium(1)|large_intestine(4)|lung(14)|stomach(2)|upper_aerodigestive_tract(1)	23	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			GGCCCCTCTGGTGGGGGCCAC	0.602											OREG0013832	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													32	35	34					1																	154296801		2201	4290	6491	SO:0001583	missense	89872			AF159174	CCDS1065.1	1q21.3	2008-02-05			ENSG00000143595	ENSG00000143595		"Ion channels / Aquaporins"	16029	protein-coding gene	gene with protein product		606578				11573934	Standard	NM_080429		Approved		uc001feu.3	Q96PS8	OTTHUMG00000035980	ENST00000324978.3:c.751G>T	1.37:g.154296801G>T	ENSP00000318355:p.Val251Leu	Somatic	1762	WXS	Illumina HiSeq	Phase_I	Q5VYD3|Q5VYD4|Q8NG70	Missense_Mutation	SNP	ENST00000324978.3	37	CCDS1065.1	.	.	.	.	.	.	.	.	.	.	G	5.726	0.318459	0.10845	.	.	ENSG00000143595	ENST00000324978	D	0.88124	-2.34	4.46	4.46	0.54185	Aquaporin-like (2);	0.142496	0.45126	D	0.000385	T	0.65688	0.2715	L	0.28608	0.87	0.80722	D	1	B	0.32939	0.391	B	0.34722	0.188	T	0.67345	-0.5694	10	0.02654	T	1	.	12.9205	0.58230	0.0:0.1648:0.8352:0.0	.	251	Q96PS8	AQP10_HUMAN	L	251	ENSP00000318355:V251L	ENSP00000318355:V251L	V	+	1	0	AQP10	152563425	1.000000	0.71417	1.000000	0.80357	0.871000	0.50021	1.571000	0.36450	2.510000	0.84645	0.555000	0.69702	GTG		0.602	AQP10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087661.1	NM_080429		T	154296801	G	T	154296801	3	4	693	1	0	0	0	0	1	0	0	0	822	1261	44	4	773	4	AQP10	1	154296801	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	59774481	154296801	94953820	14	45108										
CENPL	91687	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	173772297	173772298	+	Frame_Shift_Ins	INS	-	-	T													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ttttgcatcctctggatgtaINSttgcgaaagaaatgtccaga					rs139873333	byFrequency	TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:173772297_173772298insT	ENST00000345664.6	-	4	979_980	c.766_767insA	c.(766-768)atafs	p.I256fs	CENPL_ENST00000367710.3_Frame_Shift_Ins_p.I256fs|CENPL_ENST00000356198.2_Frame_Shift_Ins_p.I302fs	NM_001171182.1	NP_001164653.1	Q8N0S6	CENPL_HUMAN	centromere protein L	256					mitotic cell cycle (GO:0000278)	chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|nucleus (GO:0005634)				breast(1)|endometrium(4)|kidney(1)|large_intestine(2)|lung(3)	11						CTCTGGATGTATTGCGAAAGAA	0.45																																																0																																										SO:0001589	frameshift_variant	91687			BC033154, BC019022, AK055606	CCDS30938.1, CCDS44277.1	1q25.1	2013-11-05	2006-06-15	2006-06-15	ENSG00000120334	ENSG00000120334			17879	protein-coding gene	gene with protein product		611503	"chromosome 1 open reading frame 155"	C1orf155		16622420, 16622419	Standard	NM_033319		Approved	dJ383J4.3, FLJ31044	uc001gje.4	Q8N0S6	OTTHUMG00000034802	ENST00000345664.6:c.767dupA	1.37:g.173772299_173772299dupT	ENSP00000323543:p.Ile256fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TEL5|Q96ND4	Frame_Shift_Ins	INS	ENST00000345664.6	37	CCDS30938.1																																																																																				0.45	CENPL-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084213.1	NM_033319		T	173772298	-	T	173772297	7	5	693	1	0	1	1	0	0	0	0	0	3238	449	16	0	275	0	CENPL	1	173772297	Frame_Shift_Ins	INS	-	TCGA-MH-A561-01A-11D-A26P-10	19475496	173772297	75478324	15	45109	489	2								
CENPL	91687	hgsc.bcm.edu;bcgsc.ca	37	chr1	173772300	173772300	+	Missense_Mutation	SNP	G	G	T													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ttgcatcctctggatgtattGcgaaagaaatgtccagactt							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:173772300G>T	ENST00000345664.6	-	4	977	c.764C>A	c.(763-765)gCa>gAa	p.A255E	CENPL_ENST00000367710.3_Missense_Mutation_p.A255E|CENPL_ENST00000356198.2_Missense_Mutation_p.A301E	NM_001171182.1	NP_001164653.1	Q8N0S6	CENPL_HUMAN	centromere protein L	255					mitotic cell cycle (GO:0000278)	chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|nucleus (GO:0005634)				breast(1)|endometrium(4)|kidney(1)|large_intestine(2)|lung(3)	11						TGGATGTATTGCGAAAGAAAT	0.458																																																0													95	97	96					1																	173772300		2203	4300	6503	SO:0001583	missense	91687			BC033154, BC019022, AK055606	CCDS30938.1, CCDS44277.1	1q25.1	2013-11-05	2006-06-15	2006-06-15	ENSG00000120334	ENSG00000120334			17879	protein-coding gene	gene with protein product		611503	"chromosome 1 open reading frame 155"	C1orf155		16622420, 16622419	Standard	NM_033319		Approved	dJ383J4.3, FLJ31044	uc001gje.4	Q8N0S6	OTTHUMG00000034802	ENST00000345664.6:c.764C>A	1.37:g.173772300G>T	ENSP00000323543:p.Ala255Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TEL5|Q96ND4	Missense_Mutation	SNP	ENST00000345664.6	37	CCDS30938.1	.	.	.	.	.	.	.	.	.	.	G	18.51	3.640619	0.67244	.	.	ENSG00000120334	ENST00000356198;ENST00000345664;ENST00000367710	T;T;T	0.41758	1.58;0.99;0.99	5.24	5.24	0.73138	.	0.172946	0.50627	D	0.000109	T	0.47691	0.1459	L	0.43152	1.355	0.39487	D	0.967975	D;P	0.69078	0.997;0.896	D;P	0.63283	0.913;0.602	T	0.50882	-0.8775	10	0.72032	D	0.01	-5.8243	17.633	0.88114	0.0:0.0:1.0:0.0	.	301;255	Q8N0S6-2;Q8N0S6	.;CENPL_HUMAN	E	301;255;255	ENSP00000348527:A301E;ENSP00000323543:A255E;ENSP00000356683:A255E	ENSP00000323543:A255E	A	-	2	0	CENPL	172038923	1.000000	0.71417	1.000000	0.80357	0.932000	0.56968	5.635000	0.67841	2.456000	0.83038	0.655000	0.94253	GCA		0.458	CENPL-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084213.1	NM_033319		T	173772300	G	T	173772300	3	4	693	1	0	0	0	0	1	0	0	0	3238	1319	46	4	278	4	CENPL	1	173772300	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	3	173772300	75478321	16	45110	489	2								
RFWD2	64326	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	175996826	175996826	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ttggtagaccacagcttcacTaagggcaaaggacaataaaa	9	8	1	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:175996826T>C	ENST00000367669.3	-	15	2127		c.e15-2		RFWD2_ENST00000308769.8_Splice_Site	NM_022457.5	NP_071902.2	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2, E3 ubiquitin protein ligase						DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest (GO:0006977)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|response to ionizing radiation (GO:0010212)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|Golgi membrane (GO:0000139)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin protein ligase activity (GO:0061630)|zinc ion binding (GO:0008270)			endometrium(1)|kidney(2)|large_intestine(5)|lung(17)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	30						ACAGCTTCACTAAGGGCAAAG	0.388																																					Ovarian(134;1413 1765 5706 35534 51541)											0													63	54	57					1																	175996826		2203	4300	6503	SO:0001630	splice_region_variant	64326			AK001278	CCDS30944.1, CCDS44279.1	1q25.1-q25.2	2013-01-09	2012-02-23		ENSG00000143207	ENSG00000143207		"WD repeat domain containing", "RING-type (C3HC4) zinc fingers"	17440	protein-coding gene	gene with protein product		608067	"ring finger and WD repeat domain 2"			10395541	Standard	XM_005245447		Approved	FLJ10416, COP1, RNF200	uc001gku.1	Q8NHY2	OTTHUMG00000034986	ENST00000367669.3:c.1613-2A>G	1.37:g.175996826T>C		Somatic		WXS	Illumina HiSeq	Phase_I	E9PKI0|Q504W6|Q6H103|Q9H6L7|X5D9B4	Splice_Site	SNP	ENST00000367669.3	37	CCDS30944.1	.	.	.	.	.	.	.	.	.	.	T	24.9	4.586435	0.86851	.	.	ENSG00000143207	ENST00000367665;ENST00000367669;ENST00000367666;ENST00000308769	.	.	.	5.73	5.73	0.89815	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.6701	0.77267	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	RFWD2	174263449	1.000000	0.71417	0.986000	0.45419	0.994000	0.84299	7.563000	0.82314	2.174000	0.68829	0.528000	0.53228	.		0.388	RFWD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084672.2	NM_022457	Intron	C	175996826	T	C	175996826	5	2	693	1	0	0	0	0	0	0	1	0	13273	1536	53	3	608	3	RFWD2	1	175996826	Splice_Site	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	2224526	175996826	73253795	17	45111										
CEP350	9857	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	179959644	179959645	+	Frame_Shift_Del	DEL	GA	GA	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	atggtgtttaaactttagctGagacacattgaaaataaatt							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:179959644_179959645delGA	ENST00000367607.3	+	4	541_542	c.123_124delGA	c.(121-126)ctgagafs	p.R42fs		NM_014810.4	NP_055625.4	Q5VT06	CE350_HUMAN	centrosomal protein 350kDa	42					microtubule anchoring (GO:0034453)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)				central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(7)|lung(35)|ovary(4)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	66						AACTTTAGCTGAGACACATTGA	0.337																																																0																																										SO:0001589	frameshift_variant	9857			AF287356	CCDS1336.1	1q25.2	2014-02-20			ENSG00000135837	ENSG00000135837			24238	protein-coding gene	gene with protein product	"centrosome associated protein 350"					16314388, 15615782	Standard	NM_014810		Approved	KIAA0480, CAP350	uc001gnt.3	Q5VT06	OTTHUMG00000035269	ENST00000367607.3:c.123_124delGA	1.37:g.179959646_179959647delGA	ENSP00000356579:p.Arg42fs	Somatic		WXS	Illumina HiSeq	Phase_I	O75068|Q8TDK3|Q8WY20	Frame_Shift_Del	DEL	ENST00000367607.3	37	CCDS1336.1																																																																																				0.337	CEP350-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085315.2	NM_014810		-	179959645	GA	-	179959644	7	5	693	1	0	1	0	1	0	0	0	0	3256	1277	45	0	133	0	CEP350	1	179959644	Frame_Shift_Del	DEL	GA	TCGA-MH-A561-01A-11D-A26P-10	3962818	179959644	69290977	18	45112										
MR1	3140	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	181003148	181003148	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cggaaagagaaggactatggGggaactgatggcgttcctgt	16	6	0	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:181003148G>T	ENST00000367580.5	+	1	10	c.5G>T	c.(4-6)gGg>gTg	p.G2V	MR1_ENST00000367579.3_Missense_Mutation_p.G2V|MR1_ENST00000438435.2_3'UTR|MR1_ENST00000282990.6_Missense_Mutation_p.G2V|MR1_ENST00000434571.2_Missense_Mutation_p.G2V	NM_001531.2	NP_001522.1	Q95460	HMR1_HUMAN	major histocompatibility complex, class I-related	2					antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|immune response (GO:0006955)|innate immune response (GO:0045087)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|signal transduction (GO:0007165)	endoplasmic reticulum (GO:0005783)|extracellular region (GO:0005576)|integral component of membrane (GO:0016021)|MHC class I protein complex (GO:0042612)	MHC class I receptor activity (GO:0032393)|peptide antigen binding (GO:0042605)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(5)|lung(2)|prostate(1)|skin(2)|stomach(1)|urinary_tract(1)	18					Antithymocyte globulin(DB00098)	AGGACTATGGGGGAACTGATG	0.483																																					Colon(174;1412 1962 45296 46549 47110)											0													119	103	108					1																	181003148		2203	4300	6503	SO:0001583	missense	3140			AF010446	CCDS1342.1, CCDS53440.1, CCDS53441.1, CCDS53442.1	1q25.3	2013-01-11	2003-03-05	2003-03-07	ENSG00000153029	ENSG00000153029		"Immunoglobulin superfamily / C1-set domain containing"	4975	protein-coding gene	gene with protein product		600764	"major histocompatibility complex, class I-like sequence"	HLALS		7624800, 9784382	Standard	NM_001194999		Approved		uc001goq.2	Q95460	OTTHUMG00000035175	ENST00000367580.5:c.5G>T	1.37:g.181003148G>T	ENSP00000356552:p.Gly2Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2V9|B4E3B1|O97985|O97986|Q53GM1|Q95HB8|Q9MY23|Q9NPL2|Q9TQB3|Q9TQB9|Q9TQK3	Missense_Mutation	SNP	ENST00000367580.5	37	CCDS1342.1	.	.	.	.	.	.	.	.	.	.	G	12.82	2.053763	0.36277	.	.	ENSG00000153029	ENST00000434571;ENST00000367580;ENST00000282990;ENST00000367579	T;T;T;T	0.01126	5.89;5.88;5.69;5.3	3.89	-7.77	0.01227	.	3.121780	0.01415	N	0.014161	T	0.00875	0.0029	N	0.24115	0.695	0.24595	N	0.993809	B;B;B;B;B	0.06786	0.001;0.0;0.001;0.0;0.0	B;B;B;B;B	0.06405	0.001;0.002;0.002;0.001;0.002	T	0.46275	-0.9203	9	0.87932	D	0	.	0.3097	0.00286	0.3905:0.1981:0.1499:0.2615	.	2;2;2;2;2	B4E3B1;Q95460-3;Q95460-2;Q95460;Q95460-4	.;.;.;HMR1_HUMAN;.	V	2	ENSP00000388504:G2V;ENSP00000356552:G2V;ENSP00000282990:G2V;ENSP00000356551:G2V	ENSP00000282990:G2V	G	+	2	0	MR1	179269771	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-0.543000	0.06084	-2.077000	0.00874	-0.857000	0.03018	GGG		0.483	MR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085134.2	NM_001531		T	181003148	G	T	181003148	3	4	693	1	0	0	0	0	1	0	0	0	9759	1232	43	4	7	4	MR1	1	181003148	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	1043504	181003148	68247473	19	45113										
CACNA1S	779	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	201043744	201043744	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gccaggaagacattgagcagGatgtctgagcgggtttagct	15	7	1	3	rs561722889		TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:201043744G>C	ENST00000362061.3	-	14	2179	c.1953C>G	c.(1951-1953)atC>atG	p.I651M	CACNA1S_ENST00000367338.3_Missense_Mutation_p.I651M	NM_000069.2	NP_000060.2	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type, alpha 1S subunit	651					axon guidance (GO:0007411)|calcium ion import (GO:0070509)|calcium ion transport (GO:0006816)|endoplasmic reticulum organization (GO:0007029)|extraocular skeletal muscle development (GO:0002074)|membrane depolarization during action potential (GO:0086010)|muscle contraction (GO:0006936)|myoblast fusion (GO:0007520)|neuromuscular junction development (GO:0007528)|skeletal muscle adaptation (GO:0043501)|skeletal muscle fiber development (GO:0048741)|skeletal system development (GO:0001501)|striated muscle contraction (GO:0006941)	cytoplasm (GO:0005737)|I band (GO:0031674)|plasma membrane (GO:0005886)|sarcoplasmic reticulum (GO:0016529)|T-tubule (GO:0030315)|voltage-gated calcium channel complex (GO:0005891)	high voltage-gated calcium channel activity (GO:0008331)|metal ion binding (GO:0046872)|voltage-gated calcium channel activity (GO:0005245)			NS(2)|breast(4)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(13)|large_intestine(19)|lung(37)|ovary(6)|prostate(3)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(2)	102					Amlodipine(DB00381)|Cinnarizine(DB00568)|Clevidipine(DB04920)|Dronedarone(DB04855)|Felodipine(DB01023)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)|Nilvadipine(DB06712)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Spironolactone(DB00421)|Verapamil(DB00661)	CATTGAGCAGGATGTCTGAGC	0.587																																																0													63	51	55					1																	201043744		2203	4300	6503	SO:0001583	missense	779			L33798	CCDS1407.1	1q32	2012-03-07			ENSG00000081248	ENSG00000081248		"Calcium channel subunits", "Voltage-gated ion channels / Calcium channels"	1397	protein-coding gene	gene with protein product		114208		HOKPP, MHS5, CACNL1A3		7916735, 16382099	Standard	NM_000069		Approved	Cav1.1, hypoPP	uc001gvv.3	Q13698	OTTHUMG00000035784	ENST00000362061.3:c.1953C>G	1.37:g.201043744G>C	ENSP00000355192:p.Ile651Met	Somatic		WXS	Illumina HiSeq	Phase_I	A4IF51|B1ALM2|Q12896|Q13934	Missense_Mutation	SNP	ENST00000362061.3	37	CCDS1407.1	.	.	.	.	.	.	.	.	.	.	G	16.30	3.083422	0.55861	.	.	ENSG00000081248	ENST00000362061;ENST00000367338	D;D	0.98666	-5.06;-5.06	3.99	3.05	0.35203	Ion transport (1);	0.000000	0.85682	D	0.000000	D	0.98963	0.9647	M	0.84585	2.705	0.43787	D	0.996323	D	0.76494	0.999	D	0.78314	0.991	D	0.99482	1.0948	10	0.87932	D	0	.	11.1337	0.48362	0.0:0.0:0.6643:0.3357	.	651	Q13698	CAC1S_HUMAN	M	651	ENSP00000355192:I651M;ENSP00000356307:I651M	ENSP00000355192:I651M	I	-	3	3	CACNA1S	199310367	1.000000	0.71417	0.997000	0.53966	0.912000	0.54170	4.778000	0.62368	0.773000	0.33404	0.478000	0.44815	ATC		0.587	CACNA1S-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087049.1	NM_000069		C	201043744	G	C	201043744	3	2	693	1	0	0	0	0	1	0	0	0	2549	1164	41	4	3792	4	CACNA1S	1	201043744	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	20040596	201043744	48206877	20	45114										
ETNK2	55224	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	204101322	204101322	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gggtggctggtcactttggcAtctccaaggctgacgcttga	14	10	2	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:204101322A>T	ENST00000367202.4	-	8	1301	c.1151T>A	c.(1150-1152)aTg>aAg	p.M384K	ETNK2_ENST00000367201.3_3'UTR|RP11-74C13.4_ENST00000565388.1_RNA|ETNK2_ENST00000367199.2_Missense_Mutation_p.M315K|ETNK2_ENST00000367197.1_Missense_Mutation_p.M66K|ETNK2_ENST00000367198.2_Missense_Mutation_p.M206K	NM_018208.2	NP_060678.2	Q9NVF9	EKI2_HUMAN	ethanolamine kinase 2	384					glycerophospholipid biosynthetic process (GO:0046474)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|phosphatidylethanolamine biosynthetic process (GO:0006646)|phospholipid metabolic process (GO:0006644)|placenta development (GO:0001890)|post-embryonic development (GO:0009791)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	ATP binding (GO:0005524)|ethanolamine kinase activity (GO:0004305)			breast(1)|central_nervous_system(1)|large_intestine(4)|ovary(1)	7	all_cancers(21;0.032)|Breast(84;0.116)|all_epithelial(62;0.196)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)			TCACTTTGGCATCTCCAAGGC	0.557																																																0													80	77	78					1																	204101322		1564	3580	5144	SO:0001583	missense	55224			AK001623	CCDS1442.2, CCDS73006.1	1q32.1	2008-02-05			ENSG00000143845	ENSG00000143845			25575	protein-coding gene	gene with protein product		609859				12477932	Standard	XM_005245302		Approved	FLJ10761, EKI2	uc001hao.4	Q9NVF9	OTTHUMG00000036061	ENST00000367202.4:c.1151T>A	1.37:g.204101322A>T	ENSP00000356170:p.Met384Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7K1|Q5SXX5|Q68CK3|Q96G05	Missense_Mutation	SNP	ENST00000367202.4	37	CCDS1442.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	18.99|18.99	3.740600|3.740600	0.69304|0.69304	.|.	.|.	ENSG00000143845|ENSG00000143845	ENST00000422072|ENST00000367202;ENST00000367199;ENST00000455266;ENST00000367198;ENST00000367197	.|T;T;T;T	.|0.64260	.|0.34;-0.02;-0.02;-0.09	5.0|5.0	3.82|3.82	0.43975|0.43975	.|.	.|.	.|.	.|.	.|.	T|T	0.62780|0.62780	0.2456|0.2456	L|L	0.58669|0.58669	1.825|1.825	0.38499|0.38499	D|D	0.948185|0.948185	.|P;P	.|0.46859	.|0.877;0.885	.|P;B	.|0.50754	.|0.649;0.446	T|T	0.62305|0.62305	-0.6882|-0.6882	5|9	.|0.28530	.|T	.|0.3	.|.	8.0791|8.0791	0.30733|0.30733	0.7042:0.0:0.0:0.2958|0.7042:0.0:0.0:0.2958	.|.	.|343;384	.|Q9NVF9-3;Q9NVF9	.|.;EKI2_HUMAN	S|K	147|384;315;250;206;66	.|ENSP00000356170:M384K;ENSP00000356167:M315K;ENSP00000356166:M206K;ENSP00000356165:M66K	.|ENSP00000356165:M66K	C|M	-|-	1|2	0|0	ETNK2|ETNK2	202367945|202367945	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.878000|0.878000	0.50629|0.50629	6.504000|6.504000	0.73704|0.73704	1.880000|1.880000	0.54463|0.54463	0.533000|0.533000	0.62120|0.62120	TGC|ATG		0.557	ETNK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087893.1	NM_018208		T	204101322	A	T	204101322	3	4	693	1	0	0	0	0	1	0	0	0	5276	217	8	5	13	5	ETNK2	1	204101322	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	3057578	204101322	45149299	21	45115			1	135		2	2	15	N	C_A	6.376445e-05
ETNK2	55224	ucsc.edu;bcgsc.ca	37	chr1	204101336	204101336	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tttggcatctccaaggctgaCgcttgaggcttcaccttgaa	10	11	2	3			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:204101336C>T	ENST00000367202.4	-	8	1287	c.1137G>A	c.(1135-1137)gcG>gcA	p.A379A	ETNK2_ENST00000367201.3_3'UTR|RP11-74C13.4_ENST00000565388.1_RNA|ETNK2_ENST00000367199.2_Silent_p.A310A|ETNK2_ENST00000367197.1_Silent_p.A61A|ETNK2_ENST00000367198.2_Silent_p.A201A	NM_018208.2	NP_060678.2	Q9NVF9	EKI2_HUMAN	ethanolamine kinase 2	379					glycerophospholipid biosynthetic process (GO:0046474)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|phosphatidylethanolamine biosynthetic process (GO:0006646)|phospholipid metabolic process (GO:0006644)|placenta development (GO:0001890)|post-embryonic development (GO:0009791)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	ATP binding (GO:0005524)|ethanolamine kinase activity (GO:0004305)			breast(1)|central_nervous_system(1)|large_intestine(4)|ovary(1)	7	all_cancers(21;0.032)|Breast(84;0.116)|all_epithelial(62;0.196)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)			CCAAGGCTGACGCTTGAGGCT	0.562																																																0													84	80	81					1																	204101336		1563	3580	5143	SO:0001819	synonymous_variant	55224			AK001623	CCDS1442.2, CCDS73006.1	1q32.1	2008-02-05			ENSG00000143845	ENSG00000143845			25575	protein-coding gene	gene with protein product		609859				12477932	Standard	XM_005245302		Approved	FLJ10761, EKI2	uc001hao.4	Q9NVF9	OTTHUMG00000036061	ENST00000367202.4:c.1137G>A	1.37:g.204101336C>T		Somatic		WXS	Illumina HiSeq		B7Z7K1|Q5SXX5|Q68CK3|Q96G05	Silent	SNP	ENST00000367202.4	37	CCDS1442.2	.	.	.	.	.	.	.	.	.	.	C	3.487	-0.104679	0.06967	.	.	ENSG00000143845	ENST00000422072	.	.	.	5.11	3.06	0.35304	.	.	.	.	.	T	0.62768	0.2455	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.60984	-0.7154	4	.	.	.	.	12.2946	0.54838	0.0:0.6725:0.3275:0.0	.	.	.	.	H	142	.	.	R	-	2	0	ETNK2	202367959	0.991000	0.36638	0.728000	0.30774	0.219000	0.24729	0.564000	0.23563	1.113000	0.41760	0.655000	0.94253	CGT		0.562	ETNK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087893.1	NM_018208		T	204101336	C	T	204101336	2	4	693	1	0	0	0	0	0	0	0	1	5276	523	19	1		1	ETNK2	1	204101336	Silent	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	14	204101336	45149285	22	45116			1	135		2	2	15	N	C_A	6.376445e-05
C1orf107	27042	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	210006562	210006562	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ctgctgaccctgagggaaaaGaagatggggaagagccaccg	15	9	0	5			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:210006562G>T	ENST00000491415.2	+	4	478	c.421G>T	c.(421-423)Gaa>Taa	p.E141*		NM_014388.6	NP_055203.4	Q68CQ4	DIEXF_HUMAN	digestive organ expansion factor homolog (zebrafish)	141	Glu-rich.				multicellular organismal development (GO:0007275)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			breast(6)|central_nervous_system(2)|cervix(2)|endometrium(2)|kidney(15)|large_intestine(7)|lung(12)|ovary(1)|skin(3)|stomach(1)|urinary_tract(2)	53						TGAGGGAAAAGAAGATGGGGA	0.398																																																0													59	56	57					1																	210006562		2203	4300	6503	SO:0001587	stop_gained	27042			BC022964	CCDS1493.1	1q32.2	2011-08-12	2011-02-16	2011-02-16	ENSG00000117597	ENSG00000117597			28440	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 107"	C1orf107		16322560	Standard	NM_014388		Approved	MGC29875, DEF, UTP25	uc001hhr.2	Q68CQ4	OTTHUMG00000036654	ENST00000491415.2:c.421G>T	1.37:g.210006562G>T	ENSP00000419005:p.Glu141*	Somatic		WXS	Illumina HiSeq	Phase_I	O75992|Q4VY00|Q63HL9	Nonsense_Mutation	SNP	ENST00000491415.2	37	CCDS1493.1	.	.	.	.	.	.	.	.	.	.	G	23.1	4.380543	0.82792	.	.	ENSG00000117597	ENST00000491415	.	.	.	0.225	0.225	0.15325	.	1.807870	0.04544	U	0.388703	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.14252	T	0.57	.	.	.	.	.	.	.	.	X	141	.	ENSP00000419005:E141X	E	+	1	0	DIEXF	208073185	0.949000	0.32298	0.212000	0.23672	0.934000	0.57294	0.364000	0.20325	0.300000	0.22699	0.305000	0.20034	GAA		0.398	DIEXF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089127.2	NM_014388		T	210006562	G	T	210006562	4	4	693	1	0	0	0	0	0	1	0	0	1983	943	33	4	435	4	C1orf107	1	210006562	Nonsense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	5905226	210006562	39244059	23	45117										
CENPF	1063	broad.mit.edu	37	chr1	214816102	214816102	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cttggaggaggggctcgttcCatccctgtcatcctcttgtg	12	12	2	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:214816102C>T	ENST00000366955.3	+	12	4589	c.4421C>T	c.(4420-4422)cCa>cTa	p.P1474L		NM_016343.3	NP_057427.3	P49454	CENPF_HUMAN	centromere protein F, 350/400kDa	1570	2 X 96 AA approximate tandem repeats.				cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|chromosome segregation (GO:0007059)|DNA replication (GO:0006260)|G2/M transition of mitotic cell cycle (GO:0000086)|kinetochore assembly (GO:0051382)|metaphase plate congression (GO:0051310)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|muscle organ development (GO:0007517)|negative regulation of transcription, DNA-templated (GO:0045892)|protein transport (GO:0015031)|regulation of cell cycle (GO:0051726)|regulation of G2/M transition of mitotic cell cycle (GO:0010389)|regulation of striated muscle tissue development (GO:0016202)|response to drug (GO:0042493)	chromosome, centromeric region (GO:0000775)|condensed chromosome outer kinetochore (GO:0000940)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinetochore (GO:0000776)|midbody (GO:0030496)|nuclear envelope (GO:0005635)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)|pronucleus (GO:0045120)|spindle (GO:0005819)|spindle pole (GO:0000922)	chromatin binding (GO:0003682)|dynein binding (GO:0045502)|protein C-terminus binding (GO:0008022)|protein homodimerization activity (GO:0042803)|transcription factor binding (GO:0008134)			NS(2)|breast(2)|central_nervous_system(4)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(37)|lung(47)|ovary(7)|prostate(3)|skin(6)|stomach(1)|urinary_tract(1)	126				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		GGGCTCGTTCCATCCCTGTCA	0.473																																					Colon(80;575 1284 11000 14801 43496)											0													69	68	68					1																	214816102		2203	4300	6503	SO:0001583	missense	1063			U30872	CCDS31023.1	1q41	2013-11-05	2013-01-17		ENSG00000117724	ENSG00000117724			1857	protein-coding gene	gene with protein product	"mitosin"	600236	"centromere protein F, 350/400kDa (mitosin)"			7904902, 7851898	Standard	NM_016343		Approved	hcp-1	uc001hkm.3	P49454	OTTHUMG00000036955	ENST00000366955.3:c.4421C>T	1.37:g.214816102C>T	ENSP00000355922:p.Pro1474Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q13171|Q13246|Q5VVM7	Missense_Mutation	SNP	ENST00000366955.3	37	CCDS31023.1	.	.	.	.	.	.	.	.	.	.	C	0.283	-0.985033	0.02180	.	.	ENSG00000117724	ENST00000366955	T	0.37915	1.17	4.32	-2.65	0.06095	.	1.289640	0.06172	N	0.677842	T	0.10294	0.0252	N	0.01048	-1.04	0.09310	N	1	B	0.09022	0.002	B	0.04013	0.001	T	0.18745	-1.0327	10	0.25751	T	0.34	.	2.3529	0.04288	0.1187:0.3561:0.1342:0.3911	.	1474	P49454	CENPF_HUMAN	L	1474	ENSP00000355922:P1474L	ENSP00000355922:P1474L	P	+	2	0	CENPF	212882725	0.372000	0.25064	0.000000	0.03702	0.001000	0.01503	1.395000	0.34520	-0.107000	0.12088	-0.150000	0.13652	CCA		0.473	CENPF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089749.1	NM_016343		T	214816102	C	T	214816102	3	4	693	1	0	0	0	0	1	0	0	0	3233	594	21	2	4463	2	CENPF	1	214816102	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	4809540	214816102	34434519	24	45118										
CENPF	1063	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	214820696	214820696	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gttcttacaagaatctagagAatgagcttgaattgacaaaa	8	5	2	5			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr1:214820696A>T	ENST00000366955.3	+	13	7951	c.7783A>T	c.(7783-7785)Aat>Tat	p.N2595Y		NM_016343.3	NP_057427.3	P49454	CENPF_HUMAN	centromere protein F, 350/400kDa	2691	Sufficient for centromere localization.|Sufficient for self-association.				cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|chromosome segregation (GO:0007059)|DNA replication (GO:0006260)|G2/M transition of mitotic cell cycle (GO:0000086)|kinetochore assembly (GO:0051382)|metaphase plate congression (GO:0051310)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|muscle organ development (GO:0007517)|negative regulation of transcription, DNA-templated (GO:0045892)|protein transport (GO:0015031)|regulation of cell cycle (GO:0051726)|regulation of G2/M transition of mitotic cell cycle (GO:0010389)|regulation of striated muscle tissue development (GO:0016202)|response to drug (GO:0042493)	chromosome, centromeric region (GO:0000775)|condensed chromosome outer kinetochore (GO:0000940)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinetochore (GO:0000776)|midbody (GO:0030496)|nuclear envelope (GO:0005635)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)|pronucleus (GO:0045120)|spindle (GO:0005819)|spindle pole (GO:0000922)	chromatin binding (GO:0003682)|dynein binding (GO:0045502)|protein C-terminus binding (GO:0008022)|protein homodimerization activity (GO:0042803)|transcription factor binding (GO:0008134)			NS(2)|breast(2)|central_nervous_system(4)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(37)|lung(47)|ovary(7)|prostate(3)|skin(6)|stomach(1)|urinary_tract(1)	126				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		GAATCTAGAGAATGAGCTTGA	0.378																																					Colon(80;575 1284 11000 14801 43496)											0													37	37	37					1																	214820696		2203	4300	6503	SO:0001583	missense	1063			U30872	CCDS31023.1	1q41	2013-11-05	2013-01-17		ENSG00000117724	ENSG00000117724			1857	protein-coding gene	gene with protein product	"mitosin"	600236	"centromere protein F, 350/400kDa (mitosin)"			7904902, 7851898	Standard	NM_016343		Approved	hcp-1	uc001hkm.3	P49454	OTTHUMG00000036955	ENST00000366955.3:c.7783A>T	1.37:g.214820696A>T	ENSP00000355922:p.Asn2595Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q13171|Q13246|Q5VVM7	Missense_Mutation	SNP	ENST00000366955.3	37	CCDS31023.1	.	.	.	.	.	.	.	.	.	.	A	12.11	1.839067	0.32513	.	.	ENSG00000117724	ENST00000366955	T	0.03301	3.98	5.61	3.16	0.36331	.	0.728326	0.11309	N	0.577293	T	0.03608	0.0103	N	0.19112	0.55	0.25270	N	0.989526	P	0.51653	0.947	P	0.44732	0.459	T	0.45963	-0.9225	10	0.59425	D	0.04	.	7.1052	0.25360	0.777:0.1469:0.0761:0.0	.	2691	P49454	CENPF_HUMAN	Y	2595	ENSP00000355922:N2595Y	ENSP00000355922:N2595Y	N	+	1	0	CENPF	212887319	1.000000	0.71417	0.126000	0.21872	0.167000	0.22549	1.705000	0.37867	0.427000	0.26145	0.496000	0.49642	AAT		0.378	CENPF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089749.1	NM_016343		T	214820696	A	T	214820696	3	4	693	1	0	0	0	0	1	0	0	0	3233	246	9	5	7829	5	CENPF	1	214820696	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	4594	214820696	34429925	25	45119										
GREB1	9687	bcgsc.ca	37	chr2	11767087	11767100	+	Splice_Site	DEL	GACAGAGGGATGTC	GACAGAGGGATGTC	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	atcctggggaatttggtgcaGacagagggatgtcccggaag					rs538826695|rs201880234		TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	GACAGAGGGATGTC	GACAGAGGGATGTC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr2:11767087_11767100delGACAGAGGGATGTC	ENST00000381486.2	+	25	4606_4619	c.4306_4319delGACAGAGGGATGTC	c.(4306-4320)gacagagggatgtcc>c	p.DRGMS1436fs	GREB1_ENST00000396123.1_Splice_Site_p.DRGMS434fs|GREB1_ENST00000234142.5_Splice_Site_p.DRGMS1436fs	NM_014668.3	NP_055483.2	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1436						integral component of membrane (GO:0016021)		p.G1438E(1)		breast(3)|central_nervous_system(2)|endometrium(2)|kidney(4)|large_intestine(9)|lung(9)|ovary(1)	30	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		ATTTGGTGCAGACAGAGGGATGTCCCGGAAGCCG	0.519																																					Ovarian(39;850 945 2785 23371 33093)											1	Substitution - Missense(1)	lung(1)																																								SO:0001630	splice_region_variant	9687				CCDS33146.1, CCDS33147.1, CCDS42655.1	2p25.1	2010-02-17	2009-09-10		ENSG00000196208	ENSG00000196208			24885	protein-coding gene	gene with protein product	"gene regulated by estrogen in breast cancer"	611736				11103799	Standard	NM_014668		Approved	KIAA0575	uc002rbk.1	Q4ZG55	OTTHUMG00000141276	ENST00000381486.2:c.4307-1GACAGAGGGATGTC>-	2.37:g.11767087_11767100delGACAGAGGGATGTC		Somatic		WXS	Illumina HiSeq	Phase_1	A6NHD0|A6NKN0|B5MDA9|O60321|Q7Z5S2|Q9H2Q6|Q9H2Q7|Q9H2Q8	Frame_Shift_Del	DEL	ENST00000381486.2	37	CCDS42655.1																																																																																				0.519	GREB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000280490.1	NM_014668	Frame_Shift_Del	-	11767100	GACAGAGGGATGTC	-	11767087	8	5	693	1	0	1	0	1	0	0	1	0	6767	956	33	0	4508	0	GREB1	2	11767087	Splice_Site	DEL	GACAGAGGGATGTC	TCGA-MH-A561-01A-11D-A26P-10		11767087	231432286	26	45120										
FBXO11	80204	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	48040950	48040950	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cagaattataaactagaattCcaccattctgtcctccccag	4	13	1	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr2:48040950C>T	ENST00000403359.3	-	17	2135	c.2063G>A	c.(2062-2064)gGa>gAa	p.G688E	FBXO11_ENST00000402508.1_Missense_Mutation_p.G604E|FBXO11_ENST00000316377.4_Missense_Mutation_p.G604E|FBXO11_ENST00000434523.2_Missense_Mutation_p.G112E	NM_001190274.1	NP_001177203.1	Q86XK2	FBX11_HUMAN	F-box protein 11	688					cellular protein modification process (GO:0006464)|peptidyl-arginine N-methylation (GO:0035246)|protein ubiquitination (GO:0016567)|sensory perception of sound (GO:0007605)|ubiquitin-dependent protein catabolic process (GO:0006511)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)|ubiquitin ligase complex (GO:0000151)	protein-arginine N-methyltransferase activity (GO:0016274)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)	p.0?(2)		endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(11)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	26		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			AACTAGAATTCCACCATTCTG	0.388			"Mis, F, D"		DLBCL																																		Rec	yes		2	2p16.3	80204	F-box protein 11		L	2	Whole gene deletion(2)	haematopoietic_and_lymphoid_tissue(2)											118	116	117					2																	48040950		2202	4300	6502	SO:0001583	missense	80204			AF174599	CCDS1837.1, CCDS54357.1	2p16.3	2014-01-29	2008-06-23	2008-06-23	ENSG00000138081	ENSG00000138081		"Ubiquitin protein ligase E3 component n-recognins", "F-boxes /  "other""	13590	protein-coding gene	gene with protein product	"ubiquitin protein ligase E3 component n-recognin 6"	607871	"F-box only protein 11"			10531035, 16487488, 18162545	Standard	NM_025133		Approved	FBX11, UBR6	uc002rwe.3	Q86XK2	OTTHUMG00000129130	ENST00000403359.3:c.2063G>A	2.37:g.48040950C>T	ENSP00000384823:p.Gly688Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A1L491|Q52ZP1|Q53EP7|Q53RT5|Q8IXG3|Q96E90|Q9H6V8|Q9H9L1|Q9NR14|Q9UFK1|Q9UHI1|Q9UKC2	Missense_Mutation	SNP	ENST00000403359.3	37	CCDS54357.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	32|32	5.136371|5.136371	0.94517|0.94517	.|.	.|.	ENSG00000138081|ENSG00000138081	ENST00000402508;ENST00000403359;ENST00000316377;ENST00000434523|ENST00000493962	D;D;D;D|.	0.90133|.	-2.62;-2.62;-2.62;-2.62|.	5.43|5.43	5.43|5.43	0.79202|0.79202	Pectin lyase fold/virulence factor (2);Carbohydrate-binding/sugar hydrolysis domain (1);F-box domain, Skp2-like (1);Pectin lyase fold (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	D|.	0.86789|.	0.6017|.	M|M	0.92880|0.92880	3.355|3.355	0.80722|0.80722	D|D	1|1	D;D|.	0.89917|.	1.0;1.0|.	D;D|.	0.97110|.	0.998;1.0|.	D|.	0.89459|.	0.3735|.	10|.	0.66056|.	D|.	0.02|.	-12.1201|-12.1201	19.5994|19.5994	0.95554|0.95554	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	112;688|.	B3KUR1;Q86XK2|.	.;FBX11_HUMAN|.	E|X	604;688;604;112|479	ENSP00000385398:G604E;ENSP00000384823:G688E;ENSP00000323822:G604E;ENSP00000397359:G112E|.	ENSP00000323822:G604E|.	G|W	-|-	2|3	0|0	FBXO11|FBXO11	47894454|47894454	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.999000|0.999000	0.98932|0.98932	7.776000|7.776000	0.85560|0.85560	2.699000|2.699000	0.92147|0.92147	0.655000|0.655000	0.94253|0.94253	GGA|TGG		0.388	FBXO11-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000251181.3	NM_012167, NM_018693, NM_025133		T	48040950	C	T	48040950	3	4	693	1	0	0	0	0	1	0	0	0	5734	855	30	2	834	2	FBXO11	2	48040950	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	36273863	48040950	195158423	27	45121										
AAK1	22848	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	69757189	69757189	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cgagaattatcaggaattgtGaagtttccatcacaaattgc	8	7	2	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr2:69757189G>A	ENST00000409085.4	-	8	1198	c.822C>T	c.(820-822)ttC>ttT	p.F274F	AAK1_ENST00000409068.1_Silent_p.F274F|AAK1_ENST00000406297.3_Silent_p.F274F|AAK1_ENST00000470281.1_5'Flank	NM_014911.3	NP_055726	Q2M2I8	AAK1_HUMAN	AP2 associated kinase 1	274	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				endocytosis (GO:0006897)|positive regulation of Notch signaling pathway (GO:0045747)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|protein stabilization (GO:0050821)|regulation of clathrin-mediated endocytosis (GO:2000369)|regulation of protein localization (GO:0032880)	cell leading edge (GO:0031252)|clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|extrinsic component of plasma membrane (GO:0019897)|terminal bouton (GO:0043195)	AP-2 adaptor complex binding (GO:0035612)|ATP binding (GO:0005524)|Notch binding (GO:0005112)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(6)|prostate(1)	17						CAGGAATTGTGAAGTTTCCAT	0.313																																																0													58	54	55					2																	69757189		1830	4085	5915	SO:0001819	synonymous_variant	22848			AB028971	CCDS1893.2	2p13.3	2012-07-10			ENSG00000115977	ENSG00000115977			19679	protein-coding gene	gene with protein product						11877461, 12471243	Standard	NM_014911		Approved	KIAA1048, DKFZp686K16132	uc002sfp.2	Q2M2I8	OTTHUMG00000129648	ENST00000409085.4:c.822C>T	2.37:g.69757189G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZFZ3|Q53RX6|Q9UPV4	Silent	SNP	ENST00000409085.4	37	CCDS1893.2																																																																																				0.313	AAK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251847.4	NM_014911		A	69757189	G	A	69757189	2	1	693	1	0	0	0	0	0	0	0	1	16	1281	45	2		2	AAK1	2	69757189	Silent	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	21716239	69757189	173442184	28	45122										
RTKN	6242	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	74668862	74668862	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gtcgctgaagaggctgagtcGgaagcggccgcgtttgaact	16	9	0	4			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr2:74668862G>T	ENST00000272430.5	-	1	164	c.82C>A	c.(82-84)Cga>Aga	p.R28R	RTKN_ENST00000484453.1_5'UTR|RTKN_ENST00000233330.6_5'Flank|RTKN_ENST00000305557.5_5'Flank	NM_001015055.1	NP_001015055.1			rhotekin											endometrium(3)|large_intestine(5)|lung(5)|skin(2)|upper_aerodigestive_tract(1)	16						AGGCTGAGTCGGAAGCGGCCG	0.697																																																0													28	33	31					2																	74668862		2202	4300	6502	SO:0001819	synonymous_variant	6242			AF049227	CCDS1941.1, CCDS33226.1, CCDS42699.1	2p13.1	2013-01-10			ENSG00000114993	ENSG00000114993		"Pleckstrin homology (PH) domain containing"	10466	protein-coding gene	gene with protein product		602288				9073523, 10940294	Standard	XM_005264478		Approved	B5	uc002sle.3	Q9BST9	OTTHUMG00000129955	ENST00000272430.5:c.82C>A	2.37:g.74668862G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000272430.5	37	CCDS33226.1																																																																																				0.697	RTKN-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000328234.1	NM_001015055		T	74668862	G	T	74668862	2	4	693	1	0	0	0	0	0	0	0	1	13735	1124	39	4		4	RTKN	2	74668862	Silent	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	4911673	74668862	168530511	29	45123										
AUP1	165545	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	74755401	74755401	+	5'Flank	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tgatacaccgtgaaagggacGaaaagtgaccacagcagttc	11	9	0	3			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr2:74755401G>T	ENST00000404568.3	-	0	0				AUP1_ENST00000377526.3_Missense_Mutation_p.F215L|HTRA2_ENST00000352222.3_5'Flank|HTRA2_ENST00000258080.3_5'Flank|DQX1_ENST00000393951.2_5'Flank	NM_133637.2	NP_598376.2	Q8TE96	DQX1_HUMAN	DEAQ box RNA-dependent ATPase 1							nucleus (GO:0005634)	ATP binding (GO:0005524)|helicase activity (GO:0004386)			cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(7)|ovary(2)|skin(1)	18						TGAAAGGGACGAAAAGTGACC	0.537																																																0													74	80	78					2																	74755401		2044	4193	6237	SO:0001631	upstream_gene_variant	550			AK074337	CCDS1949.2	2p12	2010-04-20	2009-01-15		ENSG00000144045	ENSG00000144045			20410	protein-coding gene	gene with protein product			"DEAQ box polypeptide 1 (RNA-dependent ATPase)"				Standard	NM_133637		Approved	FLJ23757	uc010yrw.2	Q8TE96	OTTHUMG00000129965		2.37:g.74755401G>T	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	Q6B017|Q8NAM8	Missense_Mutation	SNP	ENST00000404568.3	37	CCDS1949.2	.	.	.	.	.	.	.	.	.	.	G	18.80	3.701042	0.68501	.	.	ENSG00000115307	ENST00000377526;ENST00000258081;ENST00000412627	D	0.92495	-3.05	5.1	3.01	0.34805	.	0.000000	0.85682	D	0.000000	D	0.94000	0.8078	M	0.66506	2.035	0.54753	D	0.999982	D;D;D	0.76494	0.999;0.999;0.999	D;D;D	0.85130	0.984;0.992;0.997	D	0.91236	0.5018	10	0.33940	T	0.23	-15.5435	8.4169	0.32676	0.226:0.0:0.774:0.0	.	272;281;215	E7EU18;Q9Y679;Q9Y679-2	.;AUP1_HUMAN;.	L	215;279;217	ENSP00000366748:F215L	ENSP00000258081:F279L	F	-	3	2	AUP1	74608909	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	1.450000	0.35134	0.528000	0.28580	0.462000	0.41574	TTC		0.537	DQX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252230.3	NM_133637		T	74755401	G	T	74755401	1	4	693	0	1	0	0	0	0	0	0	0	1220	1049	37	4		4	AUP1	2	74755401	5'Flank	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	86539	74755401	168443972	30	45124										
ANKRD57	65124	ucsc.edu;bcgsc.ca	37	chr2	110373074	110373074	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ctgccggtgaacatcgacgcCaggacgagcgggggttacac	15	12	0	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr2:110373074C>T	ENST00000356454.3	+	1	1164	c.1008C>T	c.(1006-1008)gcC>gcT	p.A336A	SEPT10_ENST00000334001.6_5'Flank|SEPT10_ENST00000415095.1_5'Flank|SEPT10_ENST00000437928.1_5'Flank|SEPT10_ENST00000356688.4_5'Flank|SEPT10_ENST00000397714.2_5'Flank|SEPT10_ENST00000545389.1_5'Flank|SEPT10_ENST00000397712.2_5'Flank	NM_023016.3	NP_075392.2	Q53LP3	SWAHC_HUMAN	sosondowah ankyrin repeat domain family member C	336																	ACATCGACGCCAGGACGAGCG	0.642																																																0													36	40	39					2																	110373074		2202	4299	6501	SO:0001819	synonymous_variant	65124			AK023346	CCDS33270.1	2q13	2013-01-10	2012-01-12	2012-01-12	ENSG00000198142	ENSG00000198142		"Ankyrin repeat domain containing"	26149	protein-coding gene	gene with protein product			"ankyrin repeat domain 57"	C2orf26, ANKRD57		22234889	Standard	NM_023016		Approved	FLJ21870	uc002tfb.3	Q53LP3	OTTHUMG00000153219	ENST00000356454.3:c.1008C>T	2.37:g.110373074C>T		Somatic		WXS	Illumina HiSeq		Q8NE15|Q9H6U1	Silent	SNP	ENST00000356454.3	37	CCDS33270.1																																																																																				0.642	SOWAHC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000330168.1	NM_023016		T	110373074	C	T	110373074	2	4	693	1	0	0	0	0	0	0	0	1	683	581	21	2		2	ANKRD57	2	110373074	Silent	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	35617673	110373074	132826299	31	45125										
LCT	3938	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	136555630	136555630	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gaggcctgcagccaagctccTgtcacggatccgcgtcttca	11	15	3	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr2:136555630T>G	ENST00000264162.2	-	13	4955	c.4945A>C	c.(4945-4947)Agg>Cgg	p.R1649R		NM_002299.2	NP_002290.2	P09848	LPH_HUMAN	lactase	1649	4 X approximate repeats.				carbohydrate metabolic process (GO:0005975)|polysaccharide digestion (GO:0044245)|small molecule metabolic process (GO:0044281)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	glycosylceramidase activity (GO:0017042)|lactase activity (GO:0000016)			breast(6)|central_nervous_system(3)|cervix(1)|endometrium(8)|kidney(2)|large_intestine(26)|lung(57)|ovary(7)|pancreas(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(4)	124				BRCA - Breast invasive adenocarcinoma(221;0.169)	Vitamin C(DB00126)	GCCAAGCTCCTGTCACGGATC	0.582											OREG0014998	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													113	103	106					2																	136555630		2203	4300	6503	SO:0001819	synonymous_variant	3938			X07994	CCDS2178.1	2q21	2014-09-17			ENSG00000115850	ENSG00000115850	3.2.1.108, 3.2.1.62		6530	protein-coding gene	gene with protein product		603202					Standard	NM_002299		Approved		uc002tuu.1	P09848	OTTHUMG00000131738	ENST00000264162.2:c.4945A>C	2.37:g.136555630T>G		Somatic	1626	WXS	Illumina HiSeq	Phase_I	Q4ZG58	Silent	SNP	ENST00000264162.2	37	CCDS2178.1																																																																																				0.582	LCT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254657.1	NM_002299		G	136555630	T	G	136555630	2	3	693	1	0	0	0	0	0	0	0	1	8700	1579	55	5		5	LCT	2	136555630	Silent	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	26182556	136555630	106643743	32	45126										
LRP2	4036	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	170136009	170136009	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ggtttccactagatagatttTattattaacccagtccacag	6	9	0	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr2:170136009T>A	ENST00000263816.3	-	12	1723	c.1438A>T	c.(1438-1440)Aaa>Taa	p.K480*	LRP2_ENST00000443831.1_Nonsense_Mutation_p.K480*	NM_004525.2	NP_004516.2	P98164	LRP2_HUMAN	low density lipoprotein receptor-related protein 2	480					cell proliferation (GO:0008283)|endocytosis (GO:0006897)|forebrain development (GO:0030900)|lipid metabolic process (GO:0006629)|phototransduction, visible light (GO:0007603)|protein glycosylation (GO:0006486)|receptor-mediated endocytosis (GO:0006898)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)|steroid metabolic process (GO:0008202)|vitamin D metabolic process (GO:0042359)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|coated pit (GO:0005905)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)			biliary_tract(1)|breast(16)|central_nervous_system(6)|cervix(2)|endometrium(24)|haematopoietic_and_lymphoid_tissue(2)|kidney(17)|large_intestine(70)|liver(1)|lung(117)|ovary(19)|pancreas(1)|prostate(2)|skin(17)|upper_aerodigestive_tract(7)|urinary_tract(13)	315				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	"""Insulin(DB00071)|Gentamicin(DB00798)|Insulin Regular(DB00030)|Urokinase(DB00013)"	AGATAGATTTTATTATTAACC	0.393																																																0													98	105	103					2																	170136009		2203	4300	6503	SO:0001587	stop_gained	4036				CCDS2232.1	2q31.1	2013-05-28	2010-01-26		ENSG00000081479	ENSG00000081479		"Low density lipoprotein receptors"	6694	protein-coding gene	gene with protein product	"megalin"	600073				7959795	Standard	NM_004525		Approved	gp330, DBS	uc002ues.3	P98164	OTTHUMG00000132179	ENST00000263816.3:c.1438A>T	2.37:g.170136009T>A	ENSP00000263816:p.Lys480*	Somatic		WXS	Illumina HiSeq	Phase_I	O00711|Q16215	Nonsense_Mutation	SNP	ENST00000263816.3	37	CCDS2232.1	.	.	.	.	.	.	.	.	.	.	T	39	7.557577	0.98358	.	.	ENSG00000081479	ENST00000263816;ENST00000443831	.	.	.	5.58	5.58	0.84498	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.7574	0.78046	0.0:0.0:0.0:1.0	.	.	.	.	X	480	.	.	K	-	1	0	LRP2	169844255	1.000000	0.71417	0.998000	0.56505	0.410000	0.31052	7.971000	0.88012	2.136000	0.66102	0.528000	0.53228	AAA		0.393	LRP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255231.2	NM_004525		A	170136009	T	A	170136009	4	1	693	1	0	0	0	0	0	1	0	0	8963	1763	61	5	12801	5	LRP2	2	170136009	Nonsense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	33580379	170136009	73063364	33	45127										
GAD1	2571	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	171700591	171700591	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gcaccagtgtttgtcctcatGgaacaaataacacttaagaa	7	9	1	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr2:171700591G>T	ENST00000358196.3	+	7	1225	c.675G>T	c.(673-675)atG>atT	p.M225I	GAD1_ENST00000429023.1_3'UTR	NM_000817.2	NP_000808.2	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 (brain, 67kDa)	225					gamma-aminobutyric acid biosynthetic process (GO:0009449)|glutamate catabolic process (GO:0006538)|glutamate decarboxylation to succinate (GO:0006540)|neurotransmitter biosynthetic process (GO:0042136)|neurotransmitter secretion (GO:0007269)|protein-pyridoxal-5-phosphate linkage (GO:0018352)|response to drug (GO:0042493)|synaptic transmission (GO:0007268)	clathrin-sculpted gamma-aminobutyric acid transport vesicle membrane (GO:0061202)|intracellular (GO:0005622)|plasma membrane (GO:0005886)|vesicle membrane (GO:0012506)	glutamate binding (GO:0016595)|glutamate decarboxylase activity (GO:0004351)|pyridoxal phosphate binding (GO:0030170)			endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(11)|lung(15)|ovary(1)|urinary_tract(2)	35						TTGTCCTCATGGAACAAATAA	0.368																																																0													210	215	213					2																	171700591		2203	4300	6503	SO:0001583	missense	2571				CCDS2239.1, CCDS2240.1	2q31	2008-02-05	2002-08-29		ENSG00000128683	ENSG00000128683	4.1.1.15		4092	protein-coding gene	gene with protein product		605363	"glutamate decarboxylase 1 (brain, 67kD)"	GAD		1549570	Standard	XM_005246443		Approved		uc002ugi.3	Q99259	OTTHUMG00000044175	ENST00000358196.3:c.675G>T	2.37:g.171700591G>T	ENSP00000350928:p.Met225Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q49AK1|Q53TQ7|Q9BU91|Q9UHH4	Missense_Mutation	SNP	ENST00000358196.3	37	CCDS2239.1	.	.	.	.	.	.	.	.	.	.	G	24.2	4.500461	0.85176	.	.	ENSG00000128683	ENST00000358196	T	0.36520	1.25	6.17	6.17	0.99709	Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (1);Pyridoxal phosphate-dependent transferase, major domain (1);	0.000000	0.85682	D	0.000000	T	0.37865	0.1019	L	0.33624	1.015	0.80722	D	1	B	0.30021	0.265	B	0.35312	0.2	T	0.15350	-1.0440	10	0.72032	D	0.01	-26.7667	20.8794	0.99867	0.0:0.0:1.0:0.0	.	225	Q99259	DCE1_HUMAN	I	225	ENSP00000350928:M225I	ENSP00000350928:M225I	M	+	3	0	GAD1	171408837	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.394000	0.97261	2.941000	0.99782	0.655000	0.94253	ATG		0.368	GAD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000102664.2			T	171700591	G	T	171700591	3	4	693	1	0	0	0	0	1	0	0	0	6186	1348	47	4	738	4	GAD1	2	171700591	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	1564582	171700591	71498782	34	45128										
MAP1D	254042	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	172930452	172930452	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ctgtttgtacctctgtaaacAacgtgctctgtcatggtatt	8	9	3	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr2:172930452A>G	ENST00000315796.4	+	4	856	c.469A>G	c.(469-471)Aac>Gac	p.N157D	METAP1D_ENST00000488581.1_Intron	NM_199227.1	NP_954697.1	Q6UB28	MAP12_HUMAN	methionyl aminopeptidase type 1D (mitochondrial)	157					N-terminal protein amino acid modification (GO:0031365)|peptidyl-methionine modification (GO:0018206)|protein initiator methionine removal (GO:0070084)	mitochondrion (GO:0005739)	aminopeptidase activity (GO:0004177)|metal ion binding (GO:0046872)|metalloaminopeptidase activity (GO:0070006)|metalloexopeptidase activity (GO:0008235)			NS(1)|endometrium(1)|large_intestine(2)|lung(3)|skin(1)	8						CTCTGTAAACAACGTGCTCTG	0.383																																																0													144	115	125					2																	172930452		2203	4300	6503	SO:0001583	missense	254042			AY374142, BC029123	CCDS2246.1	2q31.1	2010-09-21			ENSG00000172878	ENSG00000172878			32583	protein-coding gene	gene with protein product	"methionine aminopeptidase 1D"	610267				14532271, 16568094	Standard	NM_199227		Approved	MAP1D, Metap1l	uc002uhk.3	Q6UB28	OTTHUMG00000132283	ENST00000315796.4:c.469A>G	2.37:g.172930452A>G	ENSP00000315152:p.Asn157Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q1WNX3	Missense_Mutation	SNP	ENST00000315796.4	37	CCDS2246.1	.	.	.	.	.	.	.	.	.	.	A	15.77	2.930691	0.52866	.	.	ENSG00000172878	ENST00000315796	T	0.76060	-0.99	6.16	5.01	0.66863	Peptidase M24, structural domain (3);	0.000000	0.85682	D	0.000000	T	0.71239	0.3316	N	0.25789	0.76	0.58432	D	0.999999	P	0.43701	0.815	P	0.50109	0.631	T	0.73714	-0.3896	10	0.72032	D	0.01	-8.6915	12.3265	0.55013	0.9346:0.0:0.0654:0.0	.	157	Q6UB28	AMP1D_HUMAN	D	157	ENSP00000315152:N157D	ENSP00000315152:N157D	N	+	1	0	METAP1D	172638698	1.000000	0.71417	1.000000	0.80357	0.942000	0.58702	8.675000	0.91195	1.153000	0.42468	-0.263000	0.10527	AAC		0.383	METAP1D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255378.2	NM_199227		G	172930452	A	G	172930452	3	3	693	1	0	0	0	0	1	0	0	0	9236	130	5	3	483	3	MAP1D	2	172930452	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	1229861	172930452	70268921	35	45129										
SSFA2	6744	broad.mit.edu	37	chr2	182763639	182763639	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	atgaaagtgatgctcaaattGaaaactggtatgtagctgtt	10	4	1	3			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr2:182763639G>A	ENST00000431877.2	+	5	576	c.397G>A	c.(397-399)Gaa>Aaa	p.E133K	SSFA2_ENST00000409001.1_Missense_Mutation_p.E133K|SSFA2_ENST00000428267.2_5'UTR|SSFA2_ENST00000320370.7_Missense_Mutation_p.E133K	NM_001130445.1	NP_001123917.1	P28290	SSFA2_HUMAN	sperm specific antigen 2	133						cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(2)|central_nervous_system(1)|endometrium(3)|kidney(5)|large_intestine(5)|lung(18)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	38			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			TGCTCAAATTGAAAACTGGTA	0.284																																																0													149	158	155					2																	182763639		2203	4300	6503	SO:0001583	missense	6744			M61199	CCDS2284.1, CCDS46467.1, CCDS74611.1	2q32.1	2012-02-01			ENSG00000138434	ENSG00000138434			11319	protein-coding gene	gene with protein product	"cleavage signal-1 protein", "KRAS-induced actin-interacting protein", "sperm associated antigen 13"	118990				1555770	Standard	XM_005246812		Approved	CS-1, SPAG13, KRAP, KIAA1927	uc002uoh.3	P28290	OTTHUMG00000132584	ENST00000431877.2:c.397G>A	2.37:g.182763639G>A	ENSP00000388731:p.Glu133Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6T0|Q68DA6|Q7Z7L2|Q8N1L3|Q8N263|Q8N7H2|Q8NEN5|Q96E36|Q96PW1	Missense_Mutation	SNP	ENST00000431877.2	37	CCDS46467.1	.	.	.	.	.	.	.	.	.	.	G	17.12	3.308712	0.60305	.	.	ENSG00000138434	ENST00000431877;ENST00000320370;ENST00000409001	T;T;T	0.14516	2.73;2.5;2.73	5.85	5.85	0.93711	.	0.709072	0.13892	N	0.355534	T	0.18718	0.0449	M	0.63428	1.95	0.80722	D	1	B;B;B	0.22800	0.075;0.075;0.075	B;B;B	0.26864	0.074;0.074;0.074	T	0.01844	-1.1262	10	0.34782	T	0.22	-8.7439	13.0329	0.58854	0.0774:0.0:0.9226:0.0	.	133;133;133	E9PHV5;P28290;P28290-3	.;SSFA2_HUMAN;.	K	133	ENSP00000388731:E133K;ENSP00000314669:E133K;ENSP00000387319:E133K	ENSP00000314669:E133K	E	+	1	0	SSFA2	182471884	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	5.131000	0.64751	2.773000	0.95371	0.655000	0.94253	GAA		0.284	SSFA2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000255793.2	NM_006751		A	182763639	G	A	182763639	3	1	693	1	0	0	0	0	1	0	0	0	15195	1291	45	2	415	2	SSFA2	2	182763639	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	9833187	182763639	60435734	36	45130										
MSTN	2660	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	190927181	190927181	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ttctattcttgaagatttagTgttttgtctccaagtacatg	7	6	3	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr2:190927181T>C	ENST00000260950.4	-	1	274	c.142A>G	c.(142-144)Act>Gct	p.T48A	C2orf88_ENST00000478197.1_Intron	NM_005259.2	NP_005250.1	O14793	GDF8_HUMAN	myostatin	48					cellular response to dexamethasone stimulus (GO:0071549)|muscle organ development (GO:0007517)|negative regulation of muscle hypertrophy (GO:0014741)|negative regulation of skeletal muscle tissue growth (GO:0048632)|ovulation cycle process (GO:0022602)|positive regulation of transcription, DNA-templated (GO:0045893)|response to electrical stimulus (GO:0051602)|response to estrogen (GO:0043627)|response to ethanol (GO:0045471)|response to gravity (GO:0009629)|response to heat (GO:0009408)|response to muscle activity (GO:0014850)|response to testosterone (GO:0033574)|skeletal muscle atrophy (GO:0014732)|skeletal muscle tissue regeneration (GO:0043403)|transforming growth factor beta receptor signaling pathway (GO:0007179)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)	growth factor activity (GO:0008083)|heparin binding (GO:0008201)|identical protein binding (GO:0042802)|receptor binding (GO:0005102)			endometrium(1)|kidney(1)|large_intestine(1)|lung(8)|skin(1)	12			OV - Ovarian serous cystadenocarcinoma(117;0.000742)|Epithelial(96;0.0121)|all cancers(119;0.0395)			GAAGATTTAGTGTTTTGTCTC	0.378																																																0													198	194	195					2																	190927181		2203	4300	6503	SO:0001583	missense	2660			AF019627	CCDS2303.1	2q32.1	2014-09-17	2007-06-21	2007-06-21	ENSG00000138379	ENSG00000138379			4223	protein-coding gene	gene with protein product		601788	"growth differentiation factor 8"	GDF8		9288100, 10610713, 17003236	Standard	NM_005259		Approved		uc002urp.3	O14793	OTTHUMG00000132663	ENST00000260950.4:c.142A>G	2.37:g.190927181T>C	ENSP00000260950:p.Thr48Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A1C2J7|A1C2K0|Q6B0H2	Missense_Mutation	SNP	ENST00000260950.4	37	CCDS2303.1	.	.	.	.	.	.	.	.	.	.	T	13.67	2.307916	0.40895	.	.	ENSG00000138379	ENST00000260950	T	0.64085	-0.08	5.64	5.64	0.86602	Transforming growth factor-beta, N-terminal (1);	0.217803	0.48286	D	0.000186	T	0.51753	0.1693	L	0.29908	0.895	0.43195	D	0.995031	B	0.09022	0.002	B	0.15870	0.014	T	0.43877	-0.9364	10	0.30854	T	0.27	-11.9215	16.0238	0.80522	0.0:0.0:0.0:1.0	.	48	O14793	GDF8_HUMAN	A	48	ENSP00000260950:T48A	ENSP00000260950:T48A	T	-	1	0	MSTN	190635426	1.000000	0.71417	1.000000	0.80357	0.972000	0.66771	5.928000	0.70088	2.367000	0.80283	0.528000	0.53228	ACT		0.378	MSTN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255917.2	NM_005259		C	190927181	T	C	190927181	3	2	693	1	0	0	0	0	1	0	0	0	9900	1696	59	3	997	3	MSTN	2	190927181	Missense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	8163542	190927181	52272192	37	45131										
C2orf69	205327	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	200789854	200789854	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	actggagtctagaaaatgttGctaccattttagcccaccgg	9	10	1	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr2:200789854G>T	ENST00000319974.5	+	2	586	c.403G>T	c.(403-405)Gct>Tct	p.A135S	C2orf69_ENST00000491721.1_Intron	NM_153689.5	NP_710156.3	Q8N8R5	CB069_HUMAN	chromosome 2 open reading frame 69	135						extracellular region (GO:0005576)				central_nervous_system(1)|endometrium(3)|large_intestine(3)|lung(2)|stomach(1)|urinary_tract(1)	11						AGAAAATGTTGCTACCATTTT	0.353																																																0													51	48	48					2																	200789854		1819	4077	5896	SO:0001583	missense	205327				CCDS46482.1	2q33.1	2008-08-08			ENSG00000178074	ENSG00000178074			26799	protein-coding gene	gene with protein product	"hypothetical protein FLJ38973"					12477932	Standard	NM_153689		Approved	FLJ38973	uc010zhb.2	Q8N8R5	OTTHUMG00000154480	ENST00000319974.5:c.403G>T	2.37:g.200789854G>T	ENSP00000312770:p.Ala135Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NE30	Missense_Mutation	SNP	ENST00000319974.5	37	CCDS46482.1	.	.	.	.	.	.	.	.	.	.	G	25.7	4.667963	0.88348	.	.	ENSG00000178074	ENST00000319974	.	.	.	6.03	6.03	0.97812	.	0.049006	0.85682	D	0.000000	D	0.82600	0.5072	M	0.76328	2.33	0.80722	D	1	D	0.89917	1.0	D	0.79784	0.993	T	0.82600	-0.0377	9	0.62326	D	0.03	-10.3396	19.5548	0.95338	0.0:0.0:1.0:0.0	.	135	Q8N8R5	CB069_HUMAN	S	135	.	ENSP00000312770:A135S	A	+	1	0	C2orf69	200498099	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.827000	0.99397	2.854000	0.98071	0.655000	0.94253	GCT		0.353	C2orf69-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335446.1	NM_153689		T	200789854	G	T	200789854	3	4	693	1	0	0	0	0	1	0	0	0	2190	1319	46	4	409	4	C2orf69	2	200789854	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	9862673	200789854	42409519	38	45132										
DGKD	8527	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	234368926	234368926	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tgttccctgcacccggagatGctgtccgaggaggaggccac	14	13	0	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr2:234368926G>T	ENST00000264057.2	+	24	2928	c.2916G>T	c.(2914-2916)atG>atT	p.M972I	DGKD_ENST00000409813.3_Missense_Mutation_p.M928I	NM_152879.2	NP_690618.2	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa	972					blood coagulation (GO:0007596)|cell growth (GO:0016049)|diacylglycerol metabolic process (GO:0046339)|endocytosis (GO:0006897)|epidermal growth factor receptor signaling pathway (GO:0007173)|multicellular organismal development (GO:0007275)|platelet activation (GO:0030168)|protein homooligomerization (GO:0051260)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|protein transport (GO:0015031)|response to organic substance (GO:0010033)|second-messenger-mediated signaling (GO:0019932)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|diacylglycerol binding (GO:0019992)|diacylglycerol kinase activity (GO:0004143)|metal ion binding (GO:0046872)|NAD+ kinase activity (GO:0003951)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)			central_nervous_system(2)|endometrium(4)|kidney(1)|large_intestine(13)|lung(15)|ovary(1)|pancreas(1)|skin(1)	38		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	ACCCGGAGATGCTGTCCGAGG	0.617																																																0													87	79	81					2																	234368926		2203	4300	6503	SO:0001583	missense	8527			D63479	CCDS2504.1, CCDS46546.1	2q37	2013-01-10	2002-08-29		ENSG00000077044	ENSG00000077044		"Sterile alpha motif (SAM) domain containing", "Pleckstrin homology (PH) domain containing"	2851	protein-coding gene	gene with protein product	"diglyceride kinase"	601826	"diacylglycerol kinase, delta (130kD)"			8626538, 12810723	Standard	NM_003648		Approved	KIAA0145, DGKdelta	uc002vui.1	Q16760	OTTHUMG00000133290	ENST00000264057.2:c.2916G>T	2.37:g.234368926G>T	ENSP00000264057:p.Met972Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q14158|Q6PK55|Q8NG53	Missense_Mutation	SNP	ENST00000264057.2	37	CCDS2504.1	.	.	.	.	.	.	.	.	.	.	G	7.872	0.728341	0.15507	.	.	ENSG00000077044	ENST00000264057;ENST00000409813	T;T	0.78364	-0.99;-1.17	4.93	3.12	0.35913	.	0.425083	0.24007	N	0.042416	T	0.41419	0.1158	N	0.00652	-1.29	0.20403	N	0.999909	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.33214	-0.9877	10	0.21014	T	0.42	.	4.9917	0.14218	0.132:0.4809:0.3087:0.0784	.	928;972	Q16760-2;Q16760	.;DGKD_HUMAN	I	972;928	ENSP00000264057:M972I;ENSP00000386455:M928I	ENSP00000264057:M972I	M	+	3	0	DGKD	234033665	1.000000	0.71417	0.994000	0.49952	0.551000	0.35334	1.017000	0.29989	0.790000	0.33803	0.563000	0.77884	ATG		0.617	DGKD-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257072.2	NM_003648		T	234368926	G	T	234368926	3	4	693	1	0	0	0	0	1	0	0	0	4469	1319	46	4	3034	4	DGKD	2	234368926	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	33579072	234368926	8830447	39	45133										
SCLY	51540	hgsc.bcm.edu	37	chr2	239006933	239006933	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ggccgcagcaccaccagggcCgaggtggacctcgtcgtgca	15	15	0	0	rs78475597	byFrequency	TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr2:239006933C>T	ENST00000555827.1	+	12	1339	c.1275C>T	c.(1273-1275)gcC>gcT	p.A425A	ESPNL_ENST00000343063.3_5'Flank|SCLY_ENST00000254663.6_Silent_p.A433A|SCLY_ENST00000429612.2_Silent_p.A219A|ESPNL_ENST00000409169.1_5'Flank|SCLY_ENST00000422984.2_Silent_p.A331A			Q96I15	SCLY_HUMAN	selenocysteine lyase	425					cellular amino acid metabolic process (GO:0006520)	cytosol (GO:0005829)	pyridoxal phosphate binding (GO:0030170)|selenocysteine lyase activity (GO:0009000)|transferase activity (GO:0016740)			endometrium(1)|haematopoietic_and_lymphoid_tissue(4)|large_intestine(6)|lung(5)|ovary(2)|prostate(2)|stomach(1)|urinary_tract(1)	22		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_hematologic(139;0.158)|all_lung(227;0.198)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;1.37e-23)|OV - Ovarian serous cystadenocarcinoma(60;4.6e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;8.25e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000128)|Lung(119;0.0118)|LUSC - Lung squamous cell carcinoma(224;0.0285)		CCACCAGGGCCGAGGTGGACC	0.716													C|||	26	0.00519169	0.0	0.0288	5008	,	,		15051	0.006		0.0	False		,,,				2504	0.0				Melanoma(24;424 891 11947 32582 36034)|Ovarian(46;648 1065 26199 32764 45893)											0								C		1,4401		0,1,2200	28	27	27		1299	-9.5	0	2	dbSNP_131	27	1,8591		0,1,4295	no	coding-synonymous	SCLY	NM_016510.5		0,2,6495	TT,TC,CC		0.0116,0.0227,0.0154		433/454	239006933	2,12992	2201	4296	6497	SO:0001819	synonymous_variant	51540			AF175767	CCDS2524.1, CCDS2524.2	2q37.3	2008-02-05			ENSG00000132330	ENSG00000132330			18161	protein-coding gene	gene with protein product	"putative selenocysteine lyase"	611056				10692412	Standard	NM_016510		Approved	SCL	uc010fyv.4	Q96I15	OTTHUMG00000133336	ENST00000555827.1:c.1275C>T	2.37:g.239006933C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B9A068|J3KN06|Q53SN1|Q53SN8|Q7L670|Q9NVT7|Q9NZR7	Silent	SNP	ENST00000555827.1	37																																																																																					0.716	SCLY-204	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_016510		T	239006933	C	T	239006933	2	4	693	1	0	0	0	0	0	0	0	1	13920	639	23	1		1	SCLY	2	239006933	Silent	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	4638007	239006933	4192440	40	45134										
SATB1	6304	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	18390936	18390936	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cagacagagtctggatggccTcttcgtcagggtacaggccc	13	12	3	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr3:18390936T>C	ENST00000338745.6	-	11	3752	c.2018A>G	c.(2017-2019)gAg>gGg	p.E673G	SATB1_ENST00000417717.2_Missense_Mutation_p.E705G|TBC1D5_ENST00000414318.2_Intron|SATB1_ENST00000454909.2_Missense_Mutation_p.E673G	NM_002971.4	NP_002962.1	Q01826	SATB1_HUMAN	SATB homeobox 1	673					activated T cell proliferation (GO:0050798)|apoptotic process (GO:0006915)|CD4-positive, alpha-beta T cell differentiation (GO:0043367)|CD8-positive, alpha-beta T cell differentiation (GO:0043374)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|chromatin organization (GO:0006325)|chromatin remodeling (GO:0006338)|epidermis development (GO:0008544)|histone methylation (GO:0016571)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|reflex (GO:0060004)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	nuclear heterochromatin (GO:0005720)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)	chromatin binding (GO:0003682)|double-stranded DNA binding (GO:0003690)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(2)|breast(2)|endometrium(6)|large_intestine(4)|lung(10)|ovary(1)|skin(5)|upper_aerodigestive_tract(2)	32						CTGGATGGCCTCTTCGTCAGG	0.517																																																0													141	140	140					3																	18390936		2203	4300	6503	SO:0001583	missense	6304				CCDS2631.1, CCDS56242.1	3p24.3	2011-07-19	2007-02-15		ENSG00000182568	ENSG00000182568		"Homeoboxes / CUT class"	10541	protein-coding gene	gene with protein product		602075	"special AT-rich sequence binding protein 1 (binds to nuclear matrix/scaffold-associating DNA)"			1505028	Standard	NM_002971		Approved		uc003cbj.3	Q01826	OTTHUMG00000129890	ENST00000338745.6:c.2018A>G	3.37:g.18390936T>C	ENSP00000341024:p.Glu673Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B3KXF1|C9JTR6|Q59EQ0	Missense_Mutation	SNP	ENST00000338745.6	37	CCDS2631.1	.	.	.	.	.	.	.	.	.	.	T	17.36	3.370587	0.61624	.	.	ENSG00000182568	ENST00000338745;ENST00000454909;ENST00000417717	D;D;D	0.96745	-4.11;-4.11;-4.11	5.27	5.27	0.74061	Homeodomain-related (1);Homeobox (3);Homeodomain-like (1);	0.049242	0.85682	N	0.000000	D	0.96642	0.8904	L	0.32530	0.975	0.80722	D	1	B;D	0.89917	0.013;1.0	B;D	0.97110	0.004;1.0	D	0.97662	1.0161	10	0.87932	D	0	-15.8047	15.186	0.73002	0.0:0.0:0.0:1.0	.	705;673	Q01826-2;Q01826	.;SATB1_HUMAN	G	673;673;705	ENSP00000341024:E673G;ENSP00000399708:E673G;ENSP00000399518:E705G	ENSP00000341024:E673G	E	-	2	0	SATB1	18365940	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	7.911000	0.87458	1.993000	0.58246	0.460000	0.39030	GAG		0.517	SATB1-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252138.4	NM_001131010		C	18390936	T	C	18390936	3	2	693	1	0	0	0	0	1	0	0	0	13866	1551	54	3	277	3	SATB1	3	18390936	Missense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10		18390936	179631494	41	45135										
EPM2AIP1	9852	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	37033483	37033483	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gttgttgcccctactgaaacCaagaacgcttccatttcttt	6	12	1	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr3:37033483C>A	ENST00000322716.5	-	1	1312	c.1086G>T	c.(1084-1086)ttG>ttT	p.L362F	MLH1_ENST00000231790.2_5'Flank|MLH1_ENST00000455445.2_5'Flank|MLH1_ENST00000435176.1_5'Flank|MLH1_ENST00000536378.1_5'Flank|MLH1_ENST00000539477.1_5'Flank|MLH1_ENST00000458205.2_5'Flank	NM_014805.3	NP_055620.1	Q7L775	EPMIP_HUMAN	EPM2A (laforin) interacting protein 1	362					positive regulation of glycogen (starch) synthase activity (GO:2000467)|positive regulation of glycogen biosynthetic process (GO:0045725)|response to insulin (GO:0032868)	endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)				breast(1)|endometrium(3)|kidney(1)|large_intestine(7)|liver(1)|lung(12)|ovary(2)	27						CTACTGAAACCAAGAACGCTT	0.413																																																0													190	192	191					3																	37033483		1871	4110	5981	SO:0001583	missense	9852			AB018309	CCDS46790.1	3p22.1	2003-03-26							19735	protein-coding gene	gene with protein product		607911					Standard	NM_014805		Approved	KIAA0766, FLJ11207	uc003cgk.3	Q7L775		ENST00000322716.5:c.1086G>T	3.37:g.37033483C>A	ENSP00000406027:p.Leu362Phe	Somatic		WXS	Illumina HiSeq	Phase_I	O94866|Q9H3L3	Missense_Mutation	SNP	ENST00000322716.5	37	CCDS46790.1	.	.	.	.	.	.	.	.	.	.	C	17.00	3.275856	0.59649	.	.	ENSG00000178567	ENST00000322716	T	0.31247	1.5	4.71	4.71	0.59529	.	.	.	.	.	T	0.41834	0.1176	L	0.27053	0.805	0.47698	D	0.999499	D	0.76494	0.999	D	0.74674	0.984	T	0.29549	-1.0008	9	0.49607	T	0.09	-10.3057	15.1824	0.72968	0.0:1.0:0.0:0.0	.	362	Q7L775	EPMIP_HUMAN	F	362	ENSP00000406027:L362F	ENSP00000406027:L362F	L	-	3	2	EPM2AIP1	37008487	1.000000	0.71417	1.000000	0.80357	0.797000	0.45037	2.648000	0.46647	2.424000	0.82194	0.591000	0.81541	TTG		0.413	EPM2AIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000470593.1	NM_014805		A	37033483	C	A	37033483	3	1	693	1	0	0	0	0	1	0	0	0	5186	593	21	4	741	4	EPM2AIP1	3	37033483	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	18642547	37033483	160988947	42	45136										
SCN10A	6336	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	38740016	38740018	+	In_Frame_Del	DEL	ACT	ACT	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	aagagcgttggggagaagtaActttgaagtgacttaagaat					rs200063383	byFrequency	TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	ACT	ACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr3:38740016_38740018delACT	ENST00000449082.2	-	27	4692_4694	c.4693_4695delAGT	c.(4693-4695)agtdel	p.S1565del		NM_006514.2	NP_006505.2	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha subunit	1565					AV node cell to bundle of His cell communication (GO:0086067)|bundle of His cell to Purkinje myocyte communication (GO:0086069)|membrane depolarization during action potential (GO:0086010)|neuronal action potential (GO:0019228)|regulation of atrial cardiac muscle cell membrane depolarization (GO:0060371)|regulation of cardiac muscle contraction (GO:0055117)|regulation of heart rate (GO:0002027)|regulation of ion transmembrane transport (GO:0034765)|sensory perception (GO:0007600)|sensory perception of pain (GO:0019233)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	C-fiber (GO:0044299)|extracellular vesicular exosome (GO:0070062)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)			NS(5)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(14)|kidney(5)|large_intestine(33)|lung(54)|ovary(5)|pancreas(1)|prostate(5)|skin(13)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	150				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cinchocaine(DB00527)|Cocaine(DB00907)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Lacosamide(DB06218)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Orphenadrine(DB01173)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)|Valproic Acid(DB00313)	GGGAGAAGTAACTTTGAAGTGAC	0.478																																																0																																										SO:0001651	inframe_deletion	6336			AF117907	CCDS33736.1	3p22.2	2012-02-26	2007-01-23		ENSG00000185313	ENSG00000185313		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10582	protein-coding gene	gene with protein product		604427	"sodium channel, voltage-gated, type X, alpha polypeptide"			9839820, 10198179, 16382098	Standard	NM_006514		Approved	Nav1.8, hPN3, SNS, PN3	uc003ciq.3	Q9Y5Y9	OTTHUMG00000048245	ENST00000449082.2:c.4693_4695delAGT	3.37:g.38740016_38740018delACT	ENSP00000390600:p.Ser1565del	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDQ1	In_Frame_Del	DEL	ENST00000449082.2	37	CCDS33736.1																																																																																				0.478	SCN10A-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109745.3	NM_006514		-	38740018	ACT	-	38740016	7	5	693	1	0	1	0	1	0	0	0	0	13925	40	2	0	1179	0	SCN10A	3	38740016	In_Frame_Del	DEL	ACT	TCGA-MH-A561-01A-11D-A26P-10	1706533	38740016	159282414	43	45137	490	2								
SCN10A	6336	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	38740022	38740022	+	Frame_Shift_Del	DEL	A	A	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gttggggagaagtaactttgAagtgacttaagaattgcaga							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr3:38740022delA	ENST00000449082.2	-	27	4688	c.4689delT	c.(4687-4689)cttfs	p.L1563fs		NM_006514.2	NP_006505.2	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha subunit	1563					AV node cell to bundle of His cell communication (GO:0086067)|bundle of His cell to Purkinje myocyte communication (GO:0086069)|membrane depolarization during action potential (GO:0086010)|neuronal action potential (GO:0019228)|regulation of atrial cardiac muscle cell membrane depolarization (GO:0060371)|regulation of cardiac muscle contraction (GO:0055117)|regulation of heart rate (GO:0002027)|regulation of ion transmembrane transport (GO:0034765)|sensory perception (GO:0007600)|sensory perception of pain (GO:0019233)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	C-fiber (GO:0044299)|extracellular vesicular exosome (GO:0070062)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)			NS(5)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(14)|kidney(5)|large_intestine(33)|lung(54)|ovary(5)|pancreas(1)|prostate(5)|skin(13)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	150				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cinchocaine(DB00527)|Cocaine(DB00907)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Lacosamide(DB06218)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Orphenadrine(DB01173)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)|Valproic Acid(DB00313)	AGTAACTTTGAAGTGACTTAA	0.478																																																0													58	59	59					3																	38740022		2203	4300	6503	SO:0001589	frameshift_variant	6336			AF117907	CCDS33736.1	3p22.2	2012-02-26	2007-01-23		ENSG00000185313	ENSG00000185313		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10582	protein-coding gene	gene with protein product		604427	"sodium channel, voltage-gated, type X, alpha polypeptide"			9839820, 10198179, 16382098	Standard	NM_006514		Approved	Nav1.8, hPN3, SNS, PN3	uc003ciq.3	Q9Y5Y9	OTTHUMG00000048245	ENST00000449082.2:c.4689delT	3.37:g.38740022delA	ENSP00000390600:p.Leu1563fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDQ1	Frame_Shift_Del	DEL	ENST00000449082.2	37	CCDS33736.1																																																																																				0.478	SCN10A-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109745.3	NM_006514		-	38740022	A	-	38740022	7	5	693	1	0	1	0	1	0	0	0	0	13925	233	9	0	1185	0	SCN10A	3	38740022	Frame_Shift_Del	DEL	A	TCGA-MH-A561-01A-11D-A26P-10	6	38740022	159282408	44	45138	490	2								
LIMD1	8994	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	45637412	45637412	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cccaaatcttacctttccagTtctgccccgtcatcctcgcc	4	19	3	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr3:45637412T>G	ENST00000273317.4	+	1	1062	c.1041T>G	c.(1039-1041)agT>agG	p.S347R	LIMD1_ENST00000440097.1_Missense_Mutation_p.S347R|LIMD1_ENST00000465039.1_Intron	NM_014240.2	NP_055055.1	Q9UGP4	LIMD1_HUMAN	LIM domains containing 1	347					cell migration (GO:0016477)|cytoplasmic mRNA processing body assembly (GO:0033962)|cytoskeleton organization (GO:0007010)|gene silencing by miRNA (GO:0035195)|multicellular organismal development (GO:0007275)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of hippo signaling (GO:0035331)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of transcription, DNA-templated (GO:0045892)|osteoblast development (GO:0002076)|phosphorylation (GO:0016310)|positive regulation of gene silencing by miRNA (GO:2000637)|regulation of cell shape (GO:0008360)|regulation of transcription, DNA-templated (GO:0006355)|response to hypoxia (GO:0001666)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)	adherens junction (GO:0005912)|cytoplasm (GO:0005737)|cytoplasmic mRNA processing body (GO:0000932)|focal adhesion (GO:0005925)|nucleus (GO:0005634)|RISC complex (GO:0016442)	transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(1)|large_intestine(1)|lung(4)|ovary(1)|skin(1)	10				BRCA - Breast invasive adenocarcinoma(193;0.011)|KIRC - Kidney renal clear cell carcinoma(197;0.0264)|Kidney(197;0.0315)		ACCTTTCCAGTTCTGCCCCGT	0.622																																																0													78	78	78					3																	45637412		2203	4300	6503	SO:0001583	missense	8994			AJ132408	CCDS2729.1	3p21.31	2008-02-01			ENSG00000144791	ENSG00000144791			6612	protein-coding gene	gene with protein product		604543				10647888	Standard	NM_014240		Approved		uc003coq.3	Q9UGP4	OTTHUMG00000133453	ENST00000273317.4:c.1041T>G	3.37:g.45637412T>G	ENSP00000273317:p.Ser347Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RQ1|Q9BQQ9|Q9NQ47	Missense_Mutation	SNP	ENST00000273317.4	37	CCDS2729.1	.	.	.	.	.	.	.	.	.	.	T	9.543	1.113931	0.20795	.	.	ENSG00000144791	ENST00000440097;ENST00000273317	T;T	0.58506	0.33;0.53	4.73	1.1	0.20463	.	1.824180	0.02460	N	0.086523	T	0.44953	0.1318	L	0.29908	0.895	0.09310	N	1	B	0.15141	0.012	B	0.09377	0.004	T	0.14420	-1.0473	10	0.22706	T	0.39	.	6.3277	0.21253	0.0:0.4757:0.0:0.5243	.	347	Q9UGP4	LIMD1_HUMAN	R	347	ENSP00000394537:S347R;ENSP00000273317:S347R	ENSP00000273317:S347R	S	+	3	2	LIMD1	45612416	0.001000	0.12720	0.006000	0.13384	0.180000	0.23129	-0.032000	0.12266	0.203000	0.20529	0.533000	0.62120	AGT		0.622	LIMD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257327.1	NM_014240		G	45637412	T	G	45637412	3	3	693	1	0	0	0	0	1	0	0	0	8805	1722	60	5	1043	5	LIMD1	3	45637412	Missense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	6897390	45637412	152385018	45	45139										
ATRIP	84126	ucsc.edu	37	chr3	48488465	48488465	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ctcgcgtcacaggccctgagCcaatgtccggccgcggctcg	13	17	1	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr3:48488465C>T	ENST00000320211.3	+	1	329	c.216C>T	c.(214-216)agC>agT	p.S72S	ATRIP_ENST00000412052.1_5'Flank|ATRIP_ENST00000357105.6_Intron|RP11-24C3.2_ENST00000438872.1_RNA|RP11-24C3.2_ENST00000435578.1_RNA|ATRIP_ENST00000346691.4_Silent_p.S72S	NM_130384.2	NP_569055.1	Q8WXE1	ATRIP_HUMAN	ATR interacting protein	72					DNA damage checkpoint (GO:0000077)|DNA repair (GO:0006281)|DNA replication (GO:0006260)	microtubule cytoskeleton (GO:0015630)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				central_nervous_system(1)|cervix(2)|endometrium(1)|large_intestine(6)|lung(8)|ovary(3)|prostate(1)	22				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		AGGCCCTGAGCCAATGTCCGG	0.677								Other conserved DNA damage response genes																																								0													18	20	20					3																	48488465		2180	4262	6442	SO:0001819	synonymous_variant	84126			AF451323	CCDS2767.1, CCDS2768.1, CCDS59449.1, CCDS59450.1	3p24.3-p22.1	2007-06-20			ENSG00000164053	ENSG00000164053			33499	protein-coding gene	gene with protein product		606605				11721054	Standard	NM_130384		Approved	FLJ12343, MGC20625, MGC21482, MGC26740	uc003ctf.2	Q8WXE1	OTTHUMG00000133532	ENST00000320211.3:c.216C>T	3.37:g.48488465C>T		Somatic		WXS	Illumina HiSeq		A8K6A3|A8K714|B2RCE7|B4DU92|B5MEB7|Q69YK9|Q8NHQ2|Q8WUG7|Q96CL3|Q9HA30	Silent	SNP	ENST00000320211.3	37	CCDS2768.1																																																																																				0.677	ATRIP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257507.2	NM_130384		T	48488465	C	T	48488465	2	4	693	1	0	0	0	0	0	0	0	1	1205	738	26	2		2	ATRIP	3	48488465	Silent	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	2851053	48488465	149533965	46	45140										
GMPPB	29925	broad.mit.edu	37	chr3	49760823	49760823	+	Splice_Site	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gggccaagagtctgtgcctcAccctctgctcctgtgccttc	10	16	3	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr3:49760823A>C	ENST00000480687.1	-	3	327		c.e3+1		AMIGO3_ENST00000535833.1_Splice_Site|GMPPB_ENST00000308388.6_Splice_Site|GMPPB_ENST00000308375.6_Splice_Site			Q9Y5P6	GMPPB_HUMAN	GDP-mannose pyrophosphorylase B						cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|GDP-mannose biosynthetic process (GO:0009298)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	GTP binding (GO:0005525)|mannose-1-phosphate guanylyltransferase activity (GO:0004475)			endometrium(1)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		TCTGTGCCTCACCCTCTGCTC	0.607																																																0													124	116	119					3																	49760823		2203	4300	6503	SO:0001630	splice_region_variant	29925			AF135421	CCDS2802.1, CCDS2803.1	3p21.31	2008-02-05			ENSG00000173540	ENSG00000173540	2.7.7.22		22932	protein-coding gene	gene with protein product		615320					Standard	NM_013334		Approved	KIAA1851	uc003cxl.1	Q9Y5P6	OTTHUMG00000158151	ENST00000480687.1:c.210+1T>G	3.37:g.49760823A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6N5|Q9H7U3	Splice_Site	SNP	ENST00000480687.1	37	CCDS2803.1	.	.	.	.	.	.	.	.	.	.	A	19.01	3.743778	0.69418	.	.	ENSG00000173540	ENST00000480687;ENST00000308375;ENST00000308388	.	.	.	4.32	4.32	0.51571	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	12.7476	0.57289	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	GMPPB	49735827	1.000000	0.71417	1.000000	0.80357	0.941000	0.58515	8.493000	0.90474	1.949000	0.56562	0.374000	0.22700	.		0.607	GMPPB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350291.1	NM_013334	Intron	C	49760823	A	C	49760823	5	2	693	1	0	0	0	0	0	0	1	0	6502	173	6	5	979	5	GMPPB	3	49760823	Splice_Site	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	1272358	49760823	148261607	47	45141										
DNAH1	25981	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	52416419	52416419	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tgatgtgaagaaggtcctgcTcaaggcgggcctacagaacc	13	10	1	4			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr3:52416419T>C	ENST00000420323.2	+	50	8150	c.7889T>C	c.(7888-7890)cTc>cCc	p.L2630P		NM_015512.4	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2630	AAA 4. {ECO:0000250}.				cilium movement (GO:0003341)|cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|response to mechanical stimulus (GO:0009612)	axonemal dynein complex (GO:0005858)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			cervix(2)|endometrium(18)|kidney(6)|large_intestine(3)|lung(31)|prostate(1)|urinary_tract(1)	62				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)		AAGGTCCTGCTCAAGGCGGGC	0.582																																																0													169	177	175					3																	52416419		2125	4239	6364	SO:0001583	missense	25981			U61738	CCDS46842.1	3p21-p14	2008-02-05	2006-09-04		ENSG00000114841	ENSG00000114841		"Axonemal dyneins"	2940	protein-coding gene	gene with protein product		603332	"dynein, axonemal, heavy polypeptide 1"			8812413, 9256245	Standard	NM_015512		Approved	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11	uc011bef.2	Q9P2D7	OTTHUMG00000158378	ENST00000420323.2:c.7889T>C	3.37:g.52416419T>C	ENSP00000401514:p.Leu2630Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1R6|O00436|O15435|O95491|Q6ZU48|Q86YK7|Q8TEJ4|Q92863|Q9H8E6|Q9UFW6|Q9Y4Z7	Missense_Mutation	SNP	ENST00000420323.2	37	CCDS46842.1	.	.	.	.	.	.	.	.	.	.	T	18.02	3.529987	0.64860	.	.	ENSG00000114841	ENST00000420323	T	0.54279	0.58	4.49	4.49	0.54785	.	0.155058	0.30126	N	0.010343	T	0.76898	0.4052	M	0.93507	3.425	0.80722	D	1	D	0.61697	0.99	D	0.67725	0.953	T	0.80817	-0.1213	10	0.35671	T	0.21	.	13.9669	0.64213	0.0:0.0:0.0:1.0	.	2630	C9JXH6	.	P	2630	ENSP00000401514:L2630P	ENSP00000401514:L2630P	L	+	2	0	DNAH1	52391459	1.000000	0.71417	1.000000	0.80357	0.723000	0.41478	5.444000	0.66587	1.883000	0.54544	0.379000	0.24179	CTC		0.582	DNAH1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350816.1	NM_015512		C	52416419	T	C	52416419	3	2	693	1	0	0	0	0	1	0	0	0	4599	1551	54	3	8083	3	DNAH1	3	52416419	Missense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	2655596	52416419	145606011	48	45142										
IGSF10	285313	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	151166796	151166796	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gaccatgttagcttcatttcCagactgatctgtcatattca	6	10	4	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr3:151166796C>T	ENST00000282466.3	-	4	972	c.973G>A	c.(973-975)Gga>Aga	p.G325R		NM_001178145.1|NM_001178146.1|NM_178822.4	NP_001171616.1|NP_001171617.1|NP_849144.2	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10	325					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)	extracellular region (GO:0005576)				NS(1)|breast(1)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(24)|liver(4)|lung(43)|ovary(8)|prostate(4)|skin(9)|stomach(1)|urinary_tract(3)	116			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GCTTCATTTCCAGACTGATCT	0.433																																																0													108	109	109					3																	151166796		2203	4300	6503	SO:0001583	missense	285313			AY273815	CCDS3160.1	3q25.1	2013-01-11			ENSG00000152580	ENSG00000152580		"Immunoglobulin superfamily / I-set domain containing"	26384	protein-coding gene	gene with protein product						12477932	Standard	NM_178822		Approved	FLJ25972, CMF608	uc011bod.2	Q6WRI0	OTTHUMG00000159856	ENST00000282466.3:c.973G>A	3.37:g.151166796C>T	ENSP00000282466:p.Gly325Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q86YJ9|Q8N772|Q8NA84	Missense_Mutation	SNP	ENST00000282466.3	37	CCDS3160.1	.	.	.	.	.	.	.	.	.	.	C	13.46	2.243180	0.39697	.	.	ENSG00000152580	ENST00000282466	T	0.75260	-0.92	5.37	4.5	0.54988	.	0.000000	0.47093	D	0.000256	T	0.67915	0.2944	M	0.64997	1.995	0.38362	D	0.944634	B	0.34200	0.441	B	0.26094	0.066	T	0.72513	-0.4270	10	0.87932	D	0	.	10.7221	0.46046	0.0:0.7971:0.1309:0.072	.	325	Q6WRI0	IGS10_HUMAN	R	325	ENSP00000282466:G325R	ENSP00000282466:G325R	G	-	1	0	IGSF10	152649486	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.805000	0.38883	1.270000	0.44297	0.650000	0.86243	GGA		0.433	IGSF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357782.1	NM_178822		T	151166796	C	T	151166796	3	4	693	1	0	0	0	0	1	0	0	0	7604	603	21	2	6958	2	IGSF10	3	151166796	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	98750377	151166796	46855634	49	45143										
BOD1L	259282	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	13601745	13601745	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ggccctcacagtcttccaccGagctcgtagagatgatgcca	10	14	2	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr4:13601745G>A	ENST00000040738.5	-	10	6914	c.6779C>T	c.(6778-6780)tCg>tTg	p.S2260L		NM_148894.2	NP_683692.2	Q8NFC6	BD1L1_HUMAN	biorientation of chromosomes in cell division 1-like 1	2260						nucleus (GO:0005634)	DNA binding (GO:0003677)										GTCTTCCACCGAGCTCGTAGA	0.542																																																0													79	69	72					4																	13601745		2203	4300	6503	SO:0001583	missense	259282			AF528529	CCDS3411.2	4p16.1	2012-04-10	2012-04-10	2012-04-10	ENSG00000038219	ENSG00000038219			31792	protein-coding gene	gene with protein product			"family with sequence similarity 44, member A", "biorientation of chromosomes in cell division 1-like"	FAM44A, BOD1L			Standard	XM_005248150		Approved	FLJ33215, KIAA1327	uc003gmz.1	Q8NFC6	OTTHUMG00000090659	ENST00000040738.5:c.6779C>T	4.37:g.13601745G>A	ENSP00000040738:p.Ser2260Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6P0M8|Q96AL1|Q9H6G0|Q9NTD6|Q9P2L9	Missense_Mutation	SNP	ENST00000040738.5	37	CCDS3411.2	.	.	.	.	.	.	.	.	.	.	G	21.7	4.194306	0.78902	.	.	ENSG00000038219	ENST00000040738	T	0.12255	2.7	5.46	5.46	0.80206	.	0.000000	0.45126	D	0.000387	T	0.23727	0.0574	M	0.64997	1.995	0.30881	N	0.731467	D	0.63046	0.992	P	0.51055	0.657	T	0.15350	-1.0440	10	0.72032	D	0.01	-3.6924	11.8817	0.52579	0.0832:0.0:0.9168:0.0	.	2260	Q8NFC6	BOD1L_HUMAN	L	2260	ENSP00000040738:S2260L	ENSP00000040738:S2260L	S	-	2	0	BOD1L	13210843	0.993000	0.37304	0.944000	0.38274	0.889000	0.51656	2.414000	0.44627	2.573000	0.86826	0.650000	0.86243	TCG		0.542	BOD1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207321.1	NM_148894		A	13601745	G	A	13601745	3	1	693	1	0	0	0	0	1	0	0	0	1483	1059	37	1	2444	1	BOD1L	4	13601745	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10		13601745	177552531	50	45144										
RUFY3	22902	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	71588406	71588406	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	agtgtccatggatggagaatGgctctgcctgcgagagctgg	16	8	1	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr4:71588406G>T	ENST00000226328.4	+	1	679	c.116G>T	c.(115-117)tGg>tTg	p.W39L	RUFY3_ENST00000381006.3_Missense_Mutation_p.W39L|RUFY3_ENST00000536664.1_Missense_Mutation_p.W5L|RUFY3_ENST00000417478.2_Intron	NM_014961.3	NP_055776.1	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3	39					negative regulation of axonogenesis (GO:0050771)	filopodium (GO:0030175)|growth cone (GO:0030426)				endometrium(1)|kidney(3)|large_intestine(4)|lung(6)|prostate(1)|stomach(1)	16		all_hematologic(202;0.248)	Lung(101;0.235)			GATGGAGAATGGCTCTGCCTG	0.532																																																0													204	166	179					4																	71588406		2203	4300	6503	SO:0001583	missense	22902			AF112221	CCDS3547.1, CCDS34001.1, CCDS47068.1, CCDS75138.1	4q13.3	2009-05-29			ENSG00000018189	ENSG00000018189		"Zinc fingers, FYVE domain containing"	30285	protein-coding gene	gene with protein product	"single axon-related 1"	611194				17439943	Standard	NM_001130709		Approved	RIPx, KIAA0871, Singar1	uc003hfr.3	Q7L099	OTTHUMG00000129910	ENST00000226328.4:c.116G>T	4.37:g.71588406G>T	ENSP00000226328:p.Trp39Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KM25|B4DYW7|D9N163|O94948|Q9UI00	Missense_Mutation	SNP	ENST00000226328.4	37	CCDS3547.1	.	.	.	.	.	.	.	.	.	.	G	19.28	3.797286	0.70567	.	.	ENSG00000018189	ENST00000381006;ENST00000226328;ENST00000536664	T;T;T	0.35973	1.81;1.28;2.13	5.51	5.51	0.81932	.	0.200815	0.47852	D	0.000210	T	0.57227	0.2039	L	0.52011	1.625	0.58432	D	0.999999	B;D;D	0.67145	0.001;0.996;0.967	B;D;P	0.78314	0.002;0.991;0.901	T	0.58301	-0.7660	10	0.87932	D	0	0.0099	19.4131	0.94683	0.0:0.0:1.0:0.0	.	5;39;39	B4DKC2;Q7L099-3;Q7L099	.;.;RUFY3_HUMAN	L	39;39;5	ENSP00000370394:W39L;ENSP00000226328:W39L;ENSP00000443652:W5L	ENSP00000226328:W39L	W	+	2	0	RUFY3	71807270	1.000000	0.71417	1.000000	0.80357	0.972000	0.66771	9.476000	0.97823	2.590000	0.87494	0.555000	0.69702	TGG		0.532	RUFY3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000252161.2	NM_014961		T	71588406	G	T	71588406	3	4	693	1	0	0	0	0	1	0	0	0	13753	1357	47	4	480	4	RUFY3	4	71588406	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	57986661	71588406	119565870	51	45145										
GRID2	2895	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	94138031	94138031	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	aatatcttcaacattgtgtgAtccaaaggatccatttgctc	6	9	2	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr4:94138031A>G	ENST00000282020.4	+	6	1190	c.932A>G	c.(931-933)gAt>gGt	p.D311G	GRID2_ENST00000510992.1_Missense_Mutation_p.D216G|GRID2_ENST00000505687.1_3'UTR	NM_001510.2	NP_001501.2	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	311					cellular protein localization (GO:0034613)|cerebellar granule cell differentiation (GO:0021707)|glutamate receptor signaling pathway (GO:0007215)|heterophilic cell-cell adhesion (GO:0007157)|ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|prepulse inhibition (GO:0060134)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of neuron apoptotic process (GO:0043523)|regulation of neuron projection development (GO:0010975)|synaptic transmission, glutamatergic (GO:0035249)|transport (GO:0006810)	cell junction (GO:0030054)|dendrite (GO:0030425)|dendritic spine (GO:0043197)|integral component of plasma membrane (GO:0005887)|ionotropic glutamate receptor complex (GO:0008328)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|synapse (GO:0045202)	extracellular-glutamate-gated ion channel activity (GO:0005234)|glutamate receptor activity (GO:0008066)|ionotropic glutamate receptor activity (GO:0004970)|PDZ domain binding (GO:0030165)|scaffold protein binding (GO:0097110)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(6)|kidney(4)|large_intestine(18)|lung(45)|ovary(3)|prostate(6)|skin(9)|upper_aerodigestive_tract(3)|urinary_tract(1)	100		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)		ACATTGTGTGATCCAAAGGAT	0.413																																																0													145	145	145					4																	94138031		2203	4300	6503	SO:0001583	missense	2895			AF009014	CCDS3637.1, CCDS68758.1	4q22	2012-08-29			ENSG00000152208	ENSG00000152208		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4576	protein-coding gene	gene with protein product		602368				9465309	Standard	NM_001510		Approved	GluD2, GluR-delta-2	uc011cdt.2	O43424	OTTHUMG00000130975	ENST00000282020.4:c.932A>G	4.37:g.94138031A>G	ENSP00000282020:p.Asp311Gly	Somatic		WXS	Illumina HiSeq	Phase_I	E9PH24|Q4KKU8|Q4KKU9|Q4KKV0|Q59FZ1	Missense_Mutation	SNP	ENST00000282020.4	37	CCDS3637.1	.	.	.	.	.	.	.	.	.	.	A	22.7	4.329783	0.81690	.	.	ENSG00000152208	ENST00000282020;ENST00000510992	D;D	0.82433	-1.61;-1.61	4.76	4.76	0.60689	Extracellular ligand-binding receptor (1);	0.000000	0.85682	D	0.000000	D	0.87277	0.6137	L	0.46157	1.445	0.80722	D	1	D;D	0.69078	0.997;0.997	D;D	0.77004	0.989;0.989	D	0.86678	0.1915	10	0.40728	T	0.16	.	13.7424	0.62855	1.0:0.0:0.0:0.0	.	216;311	E9PH24;O43424	.;GRID2_HUMAN	G	311;216	ENSP00000282020:D311G;ENSP00000421257:D216G	ENSP00000282020:D311G	D	+	2	0	GRID2	94357054	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	8.754000	0.91642	1.909000	0.55274	0.482000	0.46254	GAT		0.413	GRID2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253588.2			G	94138031	A	G	94138031	3	3	693	1	0	0	0	0	1	0	0	0	6779	333	12	3	954	3	GRID2	4	94138031	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	22549625	94138031	97016245	52	45146										
NFKB1	4790	broad.mit.edu;bcgsc.ca	37	chr4	103501735	103501735	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	aaaattgtaagaatggacagGacagctggatgtgtgactgg	14	4	0	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr4:103501735G>T	ENST00000505458.1	+	9	1048	c.771G>T	c.(769-771)agG>agT	p.R257S	NFKB1_ENST00000600343.1_Missense_Mutation_p.R77S|NFKB1_ENST00000510638.1_3'UTR|NFKB1_ENST00000226574.4_Missense_Mutation_p.R258S|NFKB1_ENST00000394820.4_Missense_Mutation_p.R257S			P19838	NFKB1_HUMAN	nuclear factor of kappa light polypeptide gene enhancer in B-cells 1	257	RHD. {ECO:0000255|PROSITE- ProRule:PRU00265}.				apoptotic process (GO:0006915)|cellular response to interleukin-1 (GO:0071347)|cellular response to interleukin-6 (GO:0071354)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to mechanical stimulus (GO:0071260)|cellular response to nicotine (GO:0071316)|cellular response to peptide hormone stimulus (GO:0071375)|Fc-epsilon receptor signaling pathway (GO:0038095)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|membrane protein intracellular domain proteolysis (GO:0031293)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic process (GO:0043066)|negative regulation of calcidiol 1-monooxygenase activity (GO:0010956)|negative regulation of cellular protein metabolic process (GO:0032269)|negative regulation of cholesterol transport (GO:0032375)|negative regulation of cytokine production (GO:0001818)|negative regulation of inflammatory response (GO:0050728)|negative regulation of interleukin-12 biosynthetic process (GO:0045083)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of vitamin D biosynthetic process (GO:0010957)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of hyaluronan biosynthetic process (GO:1900127)|positive regulation of lipid storage (GO:0010884)|positive regulation of macrophage derived foam cell differentiation (GO:0010744)|positive regulation of miRNA metabolic process (GO:2000630)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of type I interferon production (GO:0032481)|response to copper ion (GO:0046688)|response to oxidative stress (GO:0006979)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transcription from RNA polymerase II promoter (GO:0006366)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|I-kappaB/NF-kappaB complex (GO:0033256)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	double-stranded DNA binding (GO:0003690)|nucleic acid binding transcription factor activity (GO:0001071)|regulatory region DNA binding (GO:0000975)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|transcription regulatory region sequence-specific DNA binding (GO:0000976)			biliary_tract(1)|breast(4)|endometrium(2)|large_intestine(6)|lung(7)|ovary(2)|skin(4)|upper_aerodigestive_tract(1)	27		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.59e-08)	Acetylsalicylic acid(DB00945)|Pranlukast(DB01411)|Thalidomide(DB01041)|Triflusal(DB08814)	GAATGGACAGGACAGCTGGAT	0.413																																																0													126	126	126					4																	103501735		2203	4300	6503	SO:0001583	missense	4790			M58603	CCDS3657.1, CCDS54783.1	4q24	2013-01-10	2008-07-28		ENSG00000109320	ENSG00000109320		"Ankyrin repeat domain containing"	7794	protein-coding gene	gene with protein product		164011				1992489	Standard	NM_003998		Approved	KBF1, p105, NFKB-p50, p50, NF-kappaB, NFkappaB, NF-kB1	uc011cep.2	P19838	OTTHUMG00000161080	ENST00000505458.1:c.771G>T	4.37:g.103501735G>T	ENSP00000424790:p.Arg257Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5Y5|B3KVE8|Q68D84|Q86V43|Q8N4X7|Q9NZC0	Missense_Mutation	SNP	ENST00000505458.1	37	CCDS54783.1	.	.	.	.	.	.	.	.	.	.	G	19.91	3.913709	0.72983	.	.	ENSG00000109320	ENST00000226574;ENST00000394820;ENST00000505458;ENST00000508584	T;T;T;T	0.26223	1.75;1.75;1.75;1.75	5.5	2.79	0.32731	Cell surface receptor IPT/TIG (1);Immunoglobulin E-set (1);Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	T	0.34279	0.0892	L	0.42581	1.335	0.46823	D	0.999212	D;D;D	0.71674	0.989;0.998;0.989	P;P;P	0.62089	0.868;0.82;0.898	T	0.06698	-1.0812	10	0.87932	D	0	.	6.915	0.24355	0.2731:0.1171:0.6098:0.0	.	77;257;258	B3KVE8;P19838;P19838-2	.;NFKB1_HUMAN;.	S	258;257;257;51	ENSP00000226574:R258S;ENSP00000378297:R257S;ENSP00000424790:R257S;ENSP00000424815:R51S	ENSP00000226574:R258S	R	+	3	2	NFKB1	103720773	0.999000	0.42202	1.000000	0.80357	0.998000	0.95712	0.650000	0.24858	0.677000	0.31305	0.650000	0.86243	AGG		0.413	NFKB1-003	KNOWN	alternative_5_UTR|non_canonical_polymorphism|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000363411.1			T	103501735	G	T	103501735	3	4	693	1	0	0	0	0	1	0	0	0	10382	1165	41	4	804	4	NFKB1	4	103501735	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	9363704	103501735	87652541	53	45147										
KIAA1109	84162	broad.mit.edu	37	chr4	123185457	123185457	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cagcctcagatttcaacactGtcttgtctagtgaccaaaat	6	11	4	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr4:123185457G>A	ENST00000264501.4	+	45	7565	c.7192G>A	c.(7192-7194)Gtc>Atc	p.V2398I	KIAA1109_ENST00000388738.3_Missense_Mutation_p.V2398I|KIAA1109_ENST00000455637.1_Missense_Mutation_p.V2398I			Q2LD37	K1109_HUMAN	KIAA1109	2398					regulation of cell growth (GO:0001558)|regulation of epithelial cell differentiation (GO:0030856)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)				breast(7)|central_nervous_system(1)|cervix(1)|endometrium(16)|kidney(6)|large_intestine(33)|liver(4)|lung(74)|ovary(9)|pancreas(1)|prostate(5)|skin(6)|upper_aerodigestive_tract(6)|urinary_tract(3)	172						TTTCAACACTGTCTTGTCTAG	0.403																																																0													101	100	101					4																	123185457		1929	4142	6071	SO:0001583	missense	84162			AL137384	CCDS43267.1	4q28.1	2012-07-09			ENSG00000138688	ENSG00000138688			26953	protein-coding gene	gene with protein product	"fragile site-associated"	611565				16386706	Standard	NM_015312		Approved	FLJ21404, FSA, KIAA1371, Tweek	uc003ieh.3	Q2LD37	OTTHUMG00000150116	ENST00000264501.4:c.7192G>A	4.37:g.123185457G>A	ENSP00000264501:p.Val2398Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W598|Q5CZA9|Q6ZS70|Q6ZV75|Q86XA5|Q8WVD8|Q9H742|Q9NT48|Q9NTC3|Q9NTI4|Q9P2H6|Q9UPP3	Missense_Mutation	SNP	ENST00000264501.4	37	CCDS43267.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	21.5|21.5	4.158765|4.158765	0.78226|0.78226	.|.	.|.	ENSG00000138688|ENSG00000138688	ENST00000419325|ENST00000264501;ENST00000388738;ENST00000455637	.|T;T;T	.|0.25414	.|2.43;2.43;1.8	5.92|5.92	5.08|5.08	0.68730|0.68730	.|.	.|0.127540	.|0.30126	.|N	.|0.010349	T|T	0.17323|0.17323	0.0416|0.0416	N|N	0.19112|0.19112	0.55|0.55	0.40902|0.40902	D|D	0.984167|0.984167	.|B;B;B	.|0.15141	.|0.001;0.003;0.012	.|B;B;B	.|0.11329	.|0.004;0.006;0.004	T|T	0.06499|0.06499	-1.0823|-1.0823	5|10	.|0.14656	.|T	.|0.56	.|.	15.1126|15.1126	0.72372|0.72372	0.0674:0.0:0.9326:0.0|0.0674:0.0:0.9326:0.0	.|.	.|2398;2397;2398	.|Q2LD37-6;Q2LD37-2;Q2LD37	.|.;.;K1109_HUMAN	Y|I	355|2398	.|ENSP00000264501:V2398I;ENSP00000373390:V2398I;ENSP00000389925:V2398I	.|ENSP00000264501:V2398I	C|V	+|+	2|1	0|0	KIAA1109|KIAA1109	123404907|123404907	1.000000|1.000000	0.71417|0.71417	0.928000|0.928000	0.36995|0.36995	0.998000|0.998000	0.95712|0.95712	7.792000|7.792000	0.85828|0.85828	1.525000|1.525000	0.49052|0.49052	0.650000|0.650000	0.86243|0.86243	TGT|GTC		0.403	KIAA1109-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316415.1	NM_020797		A	123185457	G	A	123185457	3	1	693	1	0	0	0	0	1	0	0	0	8215	1377	48	2	7362	2	KIAA1109	4	123185457	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	19683722	123185457	67968819	54	45148										
FBXW7	55294	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	153250883	153250883	+	Frame_Shift_Del	DEL	G	G	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	atcagaaccactaactattcGgttaccacaaaactgtaagc							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr4:153250883delG	ENST00000281708.4	-	8	2406	c.1177delC	c.(1177-1179)cgafs	p.R393fs	FBXW7_ENST00000296555.5_Frame_Shift_Del_p.R275fs|FBXW7_ENST00000263981.5_Frame_Shift_Del_p.R313fs|FBXW7_ENST00000603548.1_Frame_Shift_Del_p.R393fs|FBXW7_ENST00000603841.1_Frame_Shift_Del_p.R393fs|FBXW7_ENST00000393956.3_Frame_Shift_Del_p.R217fs	NM_033632.3	NP_361014.1	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7, E3 ubiquitin protein ligase	393					cellular response to DNA damage stimulus (GO:0006974)|cellular response to UV (GO:0034644)|lipid homeostasis (GO:0055088)|lung development (GO:0030324)|negative regulation of DNA endoreduplication (GO:0032876)|negative regulation of hepatocyte proliferation (GO:2000346)|negative regulation of Notch signaling pathway (GO:0045746)|negative regulation of SREBP signaling pathway (GO:2000639)|negative regulation of triglyceride biosynthetic process (GO:0010868)|Notch signaling pathway (GO:0007219)|positive regulation of epidermal growth factor-activated receptor activity (GO:0045741)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway (GO:1903378)|positive regulation of proteasomal protein catabolic process (GO:1901800)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of ubiquitin-protein transferase activity (GO:0051443)|protein stabilization (GO:0050821)|protein ubiquitination (GO:0016567)|regulation of cell cycle G1/S phase transition (GO:1902806)|regulation of lipid storage (GO:0010883)|regulation of protein localization (GO:0032880)|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146)|sister chromatid cohesion (GO:0007062)|vasculature development (GO:0001944)|vasculogenesis (GO:0001570)|viral process (GO:0016032)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|Parkin-FBXW7-Cul1 ubiquitin ligase complex (GO:1990452)|protein complex (GO:0043234)|SCF ubiquitin ligase complex (GO:0019005)	cyclin binding (GO:0030332)|identical protein binding (GO:0042802)|protein binding, bridging (GO:0030674)|sequence-specific DNA binding transcription factor activity (GO:0003700)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activator activity (GO:0097027)	p.R393*(7)|p.R313*(1)|p.R154*(1)|p.?(1)|p.R275*(1)		NS(1)|biliary_tract(8)|bone(1)|breast(5)|central_nervous_system(6)|cervix(2)|endometrium(36)|haematopoietic_and_lymphoid_tissue(159)|kidney(6)|large_intestine(155)|lung(31)|ovary(10)|pancreas(3)|prostate(2)|skin(6)|stomach(16)|upper_aerodigestive_tract(9)|urinary_tract(6)	462	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				CTAACTATTCGGTTACCACAA	0.343			"Mis, N, D, F"		"colorectal, endometrial, T-ALL"																																		Rec	yes		4	4q31.3	55294	"F-box and WD-40 domain protein 7 (archipelago homolog, Drosophila)"		"E, L"	11	Substitution - Nonsense(10)|Unknown(1)	endometrium(5)|large_intestine(4)|haematopoietic_and_lymphoid_tissue(1)|stomach(1)											118	107	111					4																	153250883		2203	4300	6503	SO:0001589	frameshift_variant	55294			AF411971	CCDS3777.1, CCDS3778.1, CCDS34078.1, CCDS64082.1	4q31.23	2013-01-09	2012-02-23					"F-boxes / WD-40 domains", "WD repeat domain containing"	16712	protein-coding gene	gene with protein product	"archipelago homolog (Drosophila)"	606278	"F-box and WD-40 domain protein 7 (archipelago homolog, Drosophila)", "F-box and WD repeat domain containing 7"			10531037, 11425854	Standard	NM_018315		Approved	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6	uc003ims.3	Q969H0		ENST00000281708.4:c.1177delC	4.37:g.153250883delG	ENSP00000281708:p.Arg393fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLP9|Q68DR0|Q96A16|Q96LE0|Q96RI2|Q9NUX6	Frame_Shift_Del	DEL	ENST00000281708.4	37	CCDS3777.1																																																																																				0.343	FBXW7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000469956.1			-	153250883	G	-	153250883	7	5	693	1	0	1	0	1	0	0	0	0	5776	1124	39	0	966	0	FBXW7	4	153250883	Frame_Shift_Del	DEL	G	TCGA-MH-A561-01A-11D-A26P-10	30065426	153250883	37903393	55	45149										
CENPK	64105	broad.mit.edu	37	chr5	64847424	64847424	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tttctgccattgactgagttCagcggttaaacattttactt	7	8	2	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr5:64847424C>T	ENST00000396679.1	-	5	422	c.208G>A	c.(208-210)Gaa>Aaa	p.E70K	CENPK_ENST00000508421.1_Missense_Mutation_p.E40K|CENPK_ENST00000514814.1_Missense_Mutation_p.E70K|CENPK_ENST00000506282.2_Intron|CENPK_ENST00000510693.1_Missense_Mutation_p.E40K|CENPK_ENST00000242872.3_Missense_Mutation_p.E70K|CENPK_ENST00000510354.1_Missense_Mutation_p.E70K	NM_022145.4	NP_071428.2	Q9BS16	CENPK_HUMAN	centromere protein K	70					CENP-A containing nucleosome assembly (GO:0034080)|mitotic cell cycle (GO:0000278)|nucleosome assembly (GO:0006334)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	cytosol (GO:0005829)|kinetochore (GO:0000776)|nucleoplasm (GO:0005654)				breast(1)|endometrium(1)|large_intestine(3)|lung(5)	10		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		Lung(70;0.00466)		TGACTGAGTTCAGCGGTTAAA	0.259																																																0													69	69	69					5																	64847424		2201	4295	6496	SO:0001583	missense	64105			BC008504	CCDS3984.1	5q12.3	2013-11-05			ENSG00000123219	ENSG00000123219			29479	protein-coding gene	gene with protein product		611502				8950979	Standard	NM_022145		Approved	FKSG14, SOLT, CENP-K	uc003jtu.3	Q9BS16	OTTHUMG00000131227	ENST00000396679.1:c.208G>A	5.37:g.64847424C>T	ENSP00000379911:p.Glu70Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H4L0	Missense_Mutation	SNP	ENST00000396679.1	37	CCDS3984.1	.	.	.	.	.	.	.	.	.	.	C	27.7	4.854522	0.91355	.	.	ENSG00000123219	ENST00000514814;ENST00000396679;ENST00000242872;ENST00000508421;ENST00000510693;ENST00000515497;ENST00000502997;ENST00000510354	.	.	.	6.05	6.05	0.98169	.	0.000000	0.85682	D	0.000000	T	0.78666	0.4319	M	0.70275	2.135	0.53005	D	0.999966	D	0.89917	1.0	D	0.87578	0.998	T	0.79339	-0.1844	9	0.72032	D	0.01	-22.078	16.1014	0.81175	0.0:1.0:0.0:0.0	.	70	Q9BS16	CENPK_HUMAN	K	70;70;70;40;40;72;70;70	.	ENSP00000242872:E70K	E	-	1	0	CENPK	64883180	1.000000	0.71417	1.000000	0.80357	0.879000	0.50718	3.891000	0.56227	2.878000	0.98634	0.650000	0.86243	GAA		0.259	CENPK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253971.2	NM_022145		T	64847424	C	T	64847424	3	4	693	1	0	0	0	0	1	0	0	0	3237	835	29	2	629	2	CENPK	5	64847424	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10		64847424	116067836	56	45150										
TAF7	6879	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	140699374	140699374	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gtaaaaagtttttttatcaaTggttttcaagctttccataa	5	5	2	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr5:140699374T>C	ENST00000313368.5	-	1	956	c.238A>G	c.(238-240)Att>Gtt	p.I80V		NM_005642.2	NP_005633.2	Q15545	TAF7_HUMAN	TAF7 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 55kDa	80					DNA-templated transcription, initiation (GO:0006352)|intracellular estrogen receptor signaling pathway (GO:0030520)|negative regulation of histone acetylation (GO:0035067)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|spermine transport (GO:0000296)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)	Golgi apparatus (GO:0005794)|MLL1 complex (GO:0071339)|nucleus (GO:0005634)|transcription factor TFIID complex (GO:0005669)|transcription factor TFTC complex (GO:0033276)	histone acetyltransferase binding (GO:0035035)|thyroid hormone receptor binding (GO:0046966)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)|vitamin D receptor binding (GO:0042809)			central_nervous_system(2)|endometrium(2)|large_intestine(2)|lung(5)|skin(1)	12			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTTTTATCAATGGTTTTCAAG	0.443																																																0													120	113	116					5																	140699374		2203	4300	6503	SO:0001583	missense	6879			AF349038	CCDS4259.1	5q31	2008-02-05	2002-08-29	2001-12-07	ENSG00000178913	ENSG00000178913			11541	protein-coding gene	gene with protein product		600573	"TATA box binding protein (TBP)-associated factor, RNA polymerase II, F, 55kD"	TAF2F		7824954	Standard	NM_005642		Approved	TAFII55	uc003ljg.3	Q15545	OTTHUMG00000129628	ENST00000313368.5:c.238A>G	5.37:g.140699374T>C	ENSP00000312709:p.Ile80Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBV9|Q13036	Missense_Mutation	SNP	ENST00000313368.5	37	CCDS4259.1	.	.	.	.	.	.	.	.	.	.	T	10.28	1.307342	0.23821	.	.	ENSG00000178913	ENST00000313368	T	0.23348	1.91	5.08	3.93	0.45458	TAFII55 protein, conserved region (1);	0.259807	0.37809	N	0.001931	T	0.13586	0.0329	N	0.17312	0.475	0.41194	D	0.986322	B	0.09022	0.002	B	0.12837	0.008	T	0.10567	-1.0624	10	0.19590	T	0.45	-6.4089	7.5444	0.27757	0.0:0.0947:0.0:0.9053	.	80	Q15545	TAF7_HUMAN	V	80	ENSP00000312709:I80V	ENSP00000312709:I80V	I	-	1	0	TAF7	140679558	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	4.373000	0.59537	1.092000	0.41356	0.533000	0.62120	ATT		0.443	TAF7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251823.2	NM_005642		C	140699374	T	C	140699374	3	2	693	1	0	0	0	0	1	0	0	0	15544	1464	51	3	815	3	TAF7	5	140699374	Missense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	75851950	140699374	40215886	57	45151										
TFAP2A	7020	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	10398689	10398689	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tctttgtcactgcttttggcGttgttgtccgtgtggctgtt	12	8	2	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr6:10398689G>C	ENST00000482890.1	-	8	1627	c.1275C>G	c.(1273-1275)aaC>aaG	p.N425K	TFAP2A_ENST00000379613.3_Missense_Mutation_p.N427K|TFAP2A_ENST00000379604.2_Missense_Mutation_p.N425K|TFAP2A_ENST00000319516.4_Missense_Mutation_p.N421K|TFAP2A_ENST00000379608.3_Missense_Mutation_p.N419K|TFAP2A_ENST00000497266.1_5'Flank			P05549	AP2A_HUMAN	transcription factor AP-2 alpha (activating enhancer binding protein 2 alpha)	425					anterior neuropore closure (GO:0021506)|basement membrane organization (GO:0071711)|bone morphogenesis (GO:0060349)|cellular response to iron ion (GO:0071281)|cornea development in camera-type eye (GO:0061303)|embryonic body morphogenesis (GO:0010172)|embryonic cranial skeleton morphogenesis (GO:0048701)|embryonic forelimb morphogenesis (GO:0035115)|embryonic pattern specification (GO:0009880)|epidermis morphogenesis (GO:0048730)|eyelid development in camera-type eye (GO:0061029)|face morphogenesis (GO:0060325)|forebrain neuron development (GO:0021884)|inner ear morphogenesis (GO:0042472)|keratinocyte development (GO:0003334)|kidney development (GO:0001822)|lens induction in camera-type eye (GO:0060235)|metanephric nephron development (GO:0072210)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of reactive oxygen species metabolic process (GO:2000378)|negative regulation of transcription by competitive promoter binding (GO:0010944)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neural crest cell development (GO:0014032)|oculomotor nerve formation (GO:0021623)|optic cup structural organization (GO:0003409)|optic vesicle morphogenesis (GO:0003404)|outflow tract morphogenesis (GO:0003151)|palate development (GO:0060021)|positive regulation of bone mineralization (GO:0030501)|positive regulation of cell migration (GO:0030335)|positive regulation of gene expression (GO:0010628)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of tooth mineralization (GO:0070172)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of cell differentiation (GO:0045595)|regulation of neuron differentiation (GO:0045664)|retina layer formation (GO:0010842)|sensory perception of sound (GO:0007605)|sympathetic nervous system development (GO:0048485)|transcription from RNA polymerase II promoter (GO:0006366)|trigeminal nerve development (GO:0021559)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|core promoter proximal region sequence-specific DNA binding (GO:0000987)|protein dimerization activity (GO:0046983)|protein homodimerization activity (GO:0042803)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity (GO:0000982)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II transcription coactivator activity (GO:0001105)|RNA polymerase II transcription corepressor activity (GO:0001106)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|transcription coactivator activity (GO:0003713)|transcription regulatory region DNA binding (GO:0044212)|transcription regulatory region sequence-specific DNA binding (GO:0000976)			breast(1)|endometrium(1)|large_intestine(5)|lung(5)|ovary(1)	13	Breast(50;0.0427)|Ovarian(93;0.0991)	all_hematologic(90;0.107)				TGCTTTTGGCGTTGTTGTCCG	0.637																																																0													303	314	310					6																	10398689		2203	4300	6503	SO:0001583	missense	7020			X52611	CCDS4510.1, CCDS34337.1, CCDS43422.1	6p24.3	2013-09-19	2001-11-28		ENSG00000137203	ENSG00000137203			11742	protein-coding gene	gene with protein product		107580	"transcription factor AP-2 alpha (activating enhancer-binding protein 2 alpha)"	TFAP2, AP2TF		1916817, 3063603	Standard	NM_001032280		Approved	AP-2	uc003myr.3	P05549	OTTHUMG00000014235	ENST00000482890.1:c.1275C>G	6.37:g.10398689G>C	ENSP00000418541:p.Asn425Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q13777|Q5TAV5|Q8N1C6	Missense_Mutation	SNP	ENST00000482890.1	37	CCDS4510.1	.	.	.	.	.	.	.	.	.	.	G	5.052	0.195211	0.09599	.	.	ENSG00000137203	ENST00000379613;ENST00000379604;ENST00000319516;ENST00000379608;ENST00000482890	D;D;D;D;D	0.96913	-4.17;-4.17;-4.17;-4.17;-4.17	5.41	5.41	0.78517	.	0.166295	0.64402	D	0.000003	T	0.82139	0.4972	N	0.02539	-0.55	0.34515	D	0.707504	B;B;B	0.06786	0.001;0.0;0.0	B;B;B	0.04013	0.0;0.0;0.001	T	0.74665	-0.3589	10	0.08381	T	0.77	-4.3896	19.197	0.93693	0.0:0.0:1.0:0.0	.	421;425;419	Q5TAV5;P05549;Q8N1C6	.;AP2A_HUMAN;.	K	427;425;421;419;425	ENSP00000368933:N427K;ENSP00000368924:N425K;ENSP00000316516:N421K;ENSP00000368928:N419K;ENSP00000418541:N425K	ENSP00000316516:N421K	N	-	3	2	TFAP2A	10506675	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	3.556000	0.53734	2.532000	0.85374	0.655000	0.94253	AAC		0.637	TFAP2A-007	KNOWN	not_organism_supported|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000353619.2	NM_003220		C	10398689	G	C	10398689	3	2	693	1	0	0	0	0	1	0	0	0	15799	1136	40	4	42	4	TFAP2A	6	10398689	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10		10398689	160716378	58	45152										
KIF13A	63971	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	17817447	17817447	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ttgtttctccaggacctgaaCcacattttgaactgggtcta	8	10	2	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr6:17817447C>T	ENST00000259711.6	-	17	1909	c.1804G>A	c.(1804-1806)Gtt>Att	p.V602I	KIF13A_ENST00000378826.2_Missense_Mutation_p.V602I|KIF13A_ENST00000378816.5_Missense_Mutation_p.V602I|KIF13A_ENST00000503342.1_5'Flank|KIF13A_ENST00000378843.2_Missense_Mutation_p.V602I|KIF13A_ENST00000378814.5_Missense_Mutation_p.V602I	NM_022113.5	NP_071396.4	Q9H1H9	KI13A_HUMAN	kinesin family member 13A	602					ATP catabolic process (GO:0006200)|cargo loading into vesicle (GO:0035459)|cytokinesis (GO:0000910)|endosome to lysosome transport (GO:0008333)|Golgi to plasma membrane protein transport (GO:0043001)|intracellular protein transport (GO:0006886)|melanosome organization (GO:0032438)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|plus-end-directed vesicle transport along microtubule (GO:0072383)	centrosome (GO:0005813)|endosome membrane (GO:0010008)|kinesin complex (GO:0005871)|microtubule (GO:0005874)|midbody (GO:0030496)|trans-Golgi network membrane (GO:0032588)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			breast(3)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(19)|lung(16)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	64	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			AGGACCTGAACCACATTTTGA	0.532																																																0													74	79	78					6																	17817447		2040	4210	6250	SO:0001583	missense	63971			AJ291578	CCDS47380.1, CCDS47381.1, CCDS54967.1, CCDS54968.1, CCDS58998.1	6p23	2008-10-21			ENSG00000137177	ENSG00000137177		"Kinesins"	14566	protein-coding gene	gene with protein product		605433				11106728	Standard	NM_022113		Approved	bA500C11.2	uc003ncg.4	Q9H1H9	OTTHUMG00000014313	ENST00000259711.6:c.1804G>A	6.37:g.17817447C>T	ENSP00000259711:p.Val602Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A0JP21|A0JP22|F2Z382|Q5THQ2|Q5THQ3|Q9H193|Q9H194|Q9H1H8	Missense_Mutation	SNP	ENST00000259711.6	37	CCDS47381.1	.	.	.	.	.	.	.	.	.	.	C	21.0	4.074673	0.76415	.	.	ENSG00000137177	ENST00000378814;ENST00000259711;ENST00000378826;ENST00000378843;ENST00000378816	T;T;T;T;T	0.71579	-0.58;-0.58;-0.58;-0.58;-0.58	5.92	5.92	0.95590	.	0.060329	0.64402	D	0.000003	T	0.43787	0.1263	L	0.27053	0.805	0.58432	D	0.99999	B;B;P;B;P	0.37731	0.112;0.094;0.48;0.112;0.607	B;B;B;B;B	0.34722	0.034;0.108;0.188;0.034;0.187	T	0.52064	-0.8625	10	0.08599	T	0.76	.	20.3248	0.98698	0.0:1.0:0.0:0.0	.	573;602;602;602;602	E7ER65;Q9H1H9-4;Q9H1H9-2;Q9H1H9;Q9H1H9-3	.;.;.;KI13A_HUMAN;.	I	602	ENSP00000368091:V602I;ENSP00000259711:V602I;ENSP00000368103:V602I;ENSP00000368120:V602I;ENSP00000368093:V602I	ENSP00000259711:V602I	V	-	1	0	KIF13A	17925426	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.432000	0.80349	2.818000	0.97014	0.655000	0.94253	GTT		0.532	KIF13A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000039954.4			T	17817447	C	T	17817447	3	4	693	1	0	0	0	0	1	0	0	0	8281	507	18	2	3730	2	KIF13A	6	17817447	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	7418758	17817447	153297620	59	45153										
UHRF1BP1	54887	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	34825520	34825520	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gttccttgtcctaatctctaCattcagttaaatggtctgac	6	10	3	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr6:34825520C>T	ENST00000192788.5	+	13	1764	c.1593C>T	c.(1591-1593)taC>taT	p.Y531Y	UHRF1BP1_ENST00000452449.2_Silent_p.Y531Y	NM_017754.3	NP_060224.3	Q6BDS2	URFB1_HUMAN	UHRF1 binding protein 1	531							histone deacetylase binding (GO:0042826)|identical protein binding (GO:0042802)			breast(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(11)|lung(24)|ovary(3)|prostate(4)|skin(1)|upper_aerodigestive_tract(2)	54						CTAATCTCTACATTCAGTTAA	0.398																																																0													158	148	151					6																	34825520		1859	4088	5947	SO:0001819	synonymous_variant	54887			AB126777	CCDS43455.1	6p21.31	2008-10-28	2008-08-15	2007-11-27	ENSG00000065060	ENSG00000065060			21216	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 107"	C6orf107			Standard	NM_017754		Approved	FLJ20302, dJ349A12.1, ICBP90	uc003oju.4	Q6BDS2	OTTHUMG00000014557	ENST00000192788.5:c.1593C>T	6.37:g.34825520C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NXE0	Silent	SNP	ENST00000192788.5	37	CCDS43455.1																																																																																				0.398	UHRF1BP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040260.1	NM_017754		T	34825520	C	T	34825520	2	4	693	1	0	0	0	0	0	0	0	1	16980	489	17	2		2	UHRF1BP1	6	34825520	Silent	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	17008073	34825520	136289547	60	45154										
PRIM2	5558	broad.mit.edu;bcgsc.ca	37	chr6	57467120	57467120	+	3'UTR	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gaacatccgtcacagctttgGaaaggaaggcaagaggacag	13	8	1	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr6:57467120G>T	ENST00000389488.2	+	0	1148				PRIM2_ENST00000607273.1_3'UTR			P49643	PRI2_HUMAN	primase, DNA, polypeptide 2 (58kDa)						DNA replication initiation (GO:0006270)|DNA replication, synthesis of RNA primer (GO:0006269)|DNA strand elongation involved in DNA replication (GO:0006271)|G1/S transition of mitotic cell cycle (GO:0000082)|mitotic cell cycle (GO:0000278)|telomere maintenance (GO:0000723)|telomere maintenance via recombination (GO:0000722)|telomere maintenance via semi-conservative replication (GO:0032201)	nucleoplasm (GO:0005654)|primosome complex (GO:1990077)	4 iron, 4 sulfur cluster binding (GO:0051539)|DNA binding (GO:0003677)|DNA primase activity (GO:0003896)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(7)|lung(34)|prostate(6)|stomach(4)|upper_aerodigestive_tract(1)	59				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		CACAGCTTTGGAAAGGAAGGC	0.418																																																0													122	113	116					6																	57467120		1980	4180	6160	SO:0001624	3_prime_UTR_variant	5558				CCDS75476.1, CCDS75477.1	6p12-p11.1	2013-01-31	2007-06-19	2007-06-19	ENSG00000146143	ENSG00000146143			9370	protein-coding gene	gene with protein product		176636	"primase, polypeptide 2A (58kD)", "primase, polypeptide 2A, 58kDa"	PRIM2A		8530050, 20675616	Standard	NM_001282487		Approved		uc003pdx.3	P49643	OTTHUMG00000016190	ENST00000389488.2:c.*1145G>T	6.37:g.57467120G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q53FJ8|Q6P1Q7|Q8WVL2|Q9H413	Missense_Mutation	SNP	ENST00000389488.2	37																																																																																					0.418	PRIM2-001	KNOWN	sequence_error|basic	processed_transcript	protein_coding	OTTHUMT00000043468.3	NM_000947		T	57467120	G	T	57467120	1	4	693	0	1	0	0	0	0	0	0	0	12501	1174	41	4		4	PRIM2	6	57467120	3'UTR	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	22641600	57467120	113647947	61	45155										
COL12A1	1303	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	75861881	75861881	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cctcctttgtacggcaagttTgccacagcttgcaacaagct	8	13	0	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr6:75861881T>C	ENST00000322507.8	-	19	4110	c.3801A>G	c.(3799-3801)gcA>gcG	p.A1267A	COL12A1_ENST00000345356.6_Silent_p.A103A|COL12A1_ENST00000416123.2_Silent_p.A1267A|COL12A1_ENST00000483888.2_Silent_p.A1267A	NM_004370.5	NP_004361.3	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1	1267	VWFA 3. {ECO:0000255|PROSITE- ProRule:PRU00219}.				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|skeletal system development (GO:0001501)	collagen type XII trimer (GO:0005595)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|vesicle (GO:0031982)	extracellular matrix structural constituent conferring tensile strength (GO:0030020)			breast(7)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(5)|kidney(5)|large_intestine(44)|liver(1)|lung(77)|ovary(7)|prostate(3)|skin(4)|stomach(2)|upper_aerodigestive_tract(4)|urinary_tract(2)	169						ACGGCAAGTTTGCCACAGCTT	0.473																																																0													102	99	100					6																	75861881		1976	4162	6138	SO:0001819	synonymous_variant	1303			U73779	CCDS43481.1, CCDS43482.1	6q12-q13	2013-02-11	2003-07-24		ENSG00000111799	ENSG00000111799		"Proteoglycans / Extracellular Matrix : Collagen proteoglycans", "Collagens", "Fibronectin type III domain containing"	2188	protein-coding gene	gene with protein product	"collagen type XII proteoglycan"	120320	"collagen, type XII, alpha 1-like"	COL12A1L		9143499	Standard	XM_006715334		Approved		uc003phs.3	Q99715	OTTHUMG00000015051	ENST00000322507.8:c.3801A>G	6.37:g.75861881T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O43853|Q15955|Q5VYK1|Q5VYK2|Q71UR3|Q99716	Silent	SNP	ENST00000322507.8	37	CCDS43482.1	.	.	.	.	.	.	.	.	.	.	T	4.645	0.119852	0.08881	.	.	ENSG00000111799	ENST00000419671	.	.	.	5.94	-10.2	0.00374	.	.	.	.	.	T	0.24851	0.0603	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.48570	-0.9024	4	.	.	.	.	5.2576	0.15555	0.078:0.3395:0.3536:0.2289	.	.	.	.	E	9	.	.	K	-	1	0	COL12A1	75918601	0.080000	0.21391	0.440000	0.26846	0.478000	0.33099	-0.719000	0.04974	-1.241000	0.02526	-1.293000	0.01348	AAA		0.473	COL12A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041249.3	NM_004370		C	75861881	T	C	75861881	2	2	693	1	0	0	0	0	0	0	0	1	3671	1799	63	3		3	COL12A1	6	75861881	Silent	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	18394761	75861881	95253186	62	45156										
TMEM30A	55754	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	75977367	75977367	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	aaacacagacctcaaatgacTtttccagtgtgaagttaatg	7	8	1	3			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr6:75977367T>A	ENST00000230461.6	-	2	664	c.335A>T	c.(334-336)aAg>aTg	p.K112M	TMEM30A_ENST00000370050.5_De_novo_Start_InFrame|TMEM30A_ENST00000475111.2_Intron	NM_018247.3	NP_060717.1	Q9NV96	CC50A_HUMAN	transmembrane protein 30A	112					drug transmembrane transport (GO:0006855)|phospholipid translocation (GO:0045332)|positive regulation of neuron projection development (GO:0010976)|positive regulation of protein exit from endoplasmic reticulum (GO:0070863)|protein localization to endosome (GO:0036010)	cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)				NS(1)|haematopoietic_and_lymphoid_tissue(8)|kidney(1)|large_intestine(4)|lung(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	21						CTCAAATGACTTTTCCAGTGT	0.363																																																0													130	135	133					6																	75977367		2203	4300	6503	SO:0001583	missense	55754			AK001718	CCDS4983.1, CCDS47453.1	6q14.1	2014-01-28	2004-06-17	2004-06-18	ENSG00000112697	ENSG00000112697			16667	protein-coding gene	gene with protein product		611028	"chromosome 6 open reading frame 67"	C6orf67		15375526	Standard	NM_001143958		Approved	FLJ10856, CDC50A	uc003phw.2	Q9NV96	OTTHUMG00000015050	ENST00000230461.6:c.335A>T	6.37:g.75977367T>A	ENSP00000230461:p.Lys112Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9V8|E1P539|Q658Z3|Q96H09|Q9NSL9	Missense_Mutation	SNP	ENST00000230461.6	37	CCDS4983.1	.	.	.	.	.	.	.	.	.	.	T	21.0	4.082970	0.76642	.	.	ENSG00000112697	ENST00000230461;ENST00000545449	.	.	.	5.28	5.28	0.74379	.	0.326351	0.37761	N	0.001944	T	0.77890	0.4198	M	0.84326	2.69	0.80722	D	1	B	0.27264	0.173	P	0.47251	0.542	T	0.80511	-0.1350	9	0.66056	D	0.02	.	14.8721	0.70465	0.0:0.0:0.0:1.0	.	112	Q9NV96	CC50A_HUMAN	M	112;96	.	ENSP00000230461:K112M	K	-	2	0	TMEM30A	76034087	1.000000	0.71417	0.998000	0.56505	0.886000	0.51366	7.596000	0.82721	1.997000	0.58415	0.454000	0.30748	AAG		0.363	TMEM30A-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041248.2	NM_018247		A	75977367	T	A	75977367	3	1	693	1	0	0	0	0	1	0	0	0	16165	1609	56	5	774	5	TMEM30A	6	75977367	Missense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	115486	75977367	95137700	63	45157										
MAP3K7	6885	hgsc.bcm.edu;bcgsc.ca	37	chr6	91226399	91226400	+	Splice_Site	DEL	GC	GC	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cagttctgcaactagttcttGcctacaaacaaataccacat							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr6:91226399_91226400delGC	ENST00000369329.3	-	17	1802_1803	c.1641_1642delGC	c.(1639-1644)aagcaa>aaaa	p.Q548fs	MAP3K7_ENST00000369327.3_Splice_Site_p.A482fs|MAP3K7_ENST00000369320.1_Splice_Site_p.Q202fs|MAP3K7_ENST00000479630.1_5'UTR|MAP3K7_ENST00000369332.3_Splice_Site_p.Q521fs|MAP3K7_ENST00000369325.3_Splice_Site_p.A509fs	NM_145331.2	NP_663304.1	O43318	M3K7_HUMAN	mitogen-activated protein kinase kinase kinase 7	548					activation of MAPK activity (GO:0000187)|activation of MAPKK activity (GO:0000186)|activation of NF-kappaB-inducing kinase activity (GO:0007250)|angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|Fc-epsilon receptor signaling pathway (GO:0038095)|histone H3 acetylation (GO:0043966)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|I-kappaB phosphorylation (GO:0007252)|innate immune response (GO:0045087)|JNK cascade (GO:0007254)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic signaling pathway (GO:2001234)|negative regulation of ripoptosome assembly involved in necroptotic process (GO:1902443)|neural tube formation (GO:0001841)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interleukin-2 production (GO:0032743)|positive regulation of JNK cascade (GO:0046330)|positive regulation of JUN kinase activity (GO:0043507)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of T cell activation (GO:0050870)|positive regulation of T cell cytokine production (GO:0002726)|regulation of reactive oxygen species metabolic process (GO:2000377)|stress-activated MAPK cascade (GO:0051403)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	Ada2/Gcn5/Ada3 transcription activator complex (GO:0005671)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome membrane (GO:0010008)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|MAP kinase kinase activity (GO:0004708)|MAP kinase kinase kinase activity (GO:0004709)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|scaffold protein binding (GO:0097110)			endometrium(4)|kidney(1)|large_intestine(5)|lung(10)|ovary(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	28		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)		ACTAGTTCTTGCCTACAAACAA	0.351																																																0																																										SO:0001630	splice_region_variant	6885			AB009356	CCDS5027.1, CCDS5028.1, CCDS5029.1, CCDS5030.1	6q15	2011-06-09			ENSG00000135341	ENSG00000135341		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6859	protein-coding gene	gene with protein product		602614		TAK1		9466656	Standard	NM_003188		Approved	MEKK7	uc003pnz.2	O43318	OTTHUMG00000015217	ENST00000369329.3:c.1641-1GC>-	6.37:g.91226399_91226400delGC		Somatic		WXS	Illumina HiSeq	Phase_I	B2RE27|E1P523|O43317|O43319|Q5TDN2|Q5TDN3|Q5TDT7|Q9NTR3|Q9NZ70	Frame_Shift_Del	DEL	ENST00000369329.3	37	CCDS5028.1																																																																																				0.351	MAP3K7-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000041530.1	NM_145331	Frame_Shift_Del	-	91226400	GC	-	91226399	8	5	693	1	0	1	0	1	0	0	1	0	9262	1333	46	0	182	0	MAP3K7	6	91226399	Splice_Site	DEL	GC	TCGA-MH-A561-01A-11D-A26P-10	15249032	91226399	79888668	64	45158	491	2								
MAP3K7	6885	bcgsc.ca	37	chr6	91226401	91226401	+	Splice_Site	SNP	C	C	T													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gttctgcaactagttcttgcCtacaaacaaataccacataa							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr6:91226401C>T	ENST00000369329.3	-	17	1802		c.e17-1		MAP3K7_ENST00000369327.3_Splice_Site|MAP3K7_ENST00000369320.1_Splice_Site|MAP3K7_ENST00000479630.1_Splice_Site|MAP3K7_ENST00000369332.3_Splice_Site|MAP3K7_ENST00000369325.3_Splice_Site	NM_145331.2	NP_663304.1	O43318	M3K7_HUMAN	mitogen-activated protein kinase kinase kinase 7						activation of MAPK activity (GO:0000187)|activation of MAPKK activity (GO:0000186)|activation of NF-kappaB-inducing kinase activity (GO:0007250)|angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|Fc-epsilon receptor signaling pathway (GO:0038095)|histone H3 acetylation (GO:0043966)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|I-kappaB phosphorylation (GO:0007252)|innate immune response (GO:0045087)|JNK cascade (GO:0007254)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of apoptotic signaling pathway (GO:2001234)|negative regulation of ripoptosome assembly involved in necroptotic process (GO:1902443)|neural tube formation (GO:0001841)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interleukin-2 production (GO:0032743)|positive regulation of JNK cascade (GO:0046330)|positive regulation of JUN kinase activity (GO:0043507)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of T cell activation (GO:0050870)|positive regulation of T cell cytokine production (GO:0002726)|regulation of reactive oxygen species metabolic process (GO:2000377)|stress-activated MAPK cascade (GO:0051403)|T cell receptor signaling pathway (GO:0050852)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	Ada2/Gcn5/Ada3 transcription activator complex (GO:0005671)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome membrane (GO:0010008)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|MAP kinase kinase activity (GO:0004708)|MAP kinase kinase kinase activity (GO:0004709)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|scaffold protein binding (GO:0097110)			endometrium(4)|kidney(1)|large_intestine(5)|lung(10)|ovary(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	28		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)		TAGTTCTTGCCTACAAACAAA	0.348																																																0													108	100	103					6																	91226401		2203	4300	6503	SO:0001630	splice_region_variant	6885			AB009356	CCDS5027.1, CCDS5028.1, CCDS5029.1, CCDS5030.1	6q15	2011-06-09			ENSG00000135341	ENSG00000135341		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6859	protein-coding gene	gene with protein product		602614		TAK1		9466656	Standard	NM_003188		Approved	MEKK7	uc003pnz.2	O43318	OTTHUMG00000015217	ENST00000369329.3:c.1641-1G>A	6.37:g.91226401C>T		Somatic		WXS	Illumina HiSeq	Phase_1	B2RE27|E1P523|O43317|O43319|Q5TDN2|Q5TDN3|Q5TDT7|Q9NTR3|Q9NZ70	Splice_Site	SNP	ENST00000369329.3	37	CCDS5028.1	.	.	.	.	.	.	.	.	.	.	C	20.1	3.939262	0.73557	.	.	ENSG00000135341	ENST00000369332;ENST00000369329;ENST00000369325;ENST00000369327;ENST00000369320;ENST00000450832	.	.	.	5.41	5.41	0.78517	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	19.5538	0.95333	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	MAP3K7	91283122	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.776000	0.85560	2.688000	0.91661	0.655000	0.94253	.		0.348	MAP3K7-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000041530.1	NM_145331	Intron	T	91226401	C	T	91226401	5	4	693	1	0	0	0	0	0	0	1	0	9262	695	24	2	184	2	MAP3K7	6	91226401	Splice_Site	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	2	91226401	79888666	65	45159	491	2								
GRIK2	2898	hgsc.bcm.edu;bcgsc.ca	37	chr6	102513771	102513771	+	Intron	DEL	T	T	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	catcaccatcttcatcatcaTtatcatcatgttcttaataa							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr6:102513771delT	ENST00000421544.1	+	16	3052				GRIK2_ENST00000413795.1_Intron|GRIK2_ENST00000369138.1_Frame_Shift_Del_p.L888fs|GRIK2_ENST00000369134.4_Intron|GRIK2_ENST00000369137.3_Intron	NM_021956.4	NP_068775.1	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2						behavioral fear response (GO:0001662)|cellular calcium ion homeostasis (GO:0006874)|glutamate receptor signaling pathway (GO:0007215)|intracellular protein transport (GO:0006886)|ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of synaptic transmission, glutamatergic (GO:0051967)|neuronal action potential (GO:0019228)|positive regulation of synaptic transmission (GO:0050806)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of inhibitory postsynaptic membrane potential (GO:0060080)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of short-term neuronal synaptic plasticity (GO:0048172)|regulation of synaptic transmission (GO:0050804)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transport (GO:0006810)	cell junction (GO:0030054)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|kainate selective glutamate receptor complex (GO:0032983)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)|presynaptic membrane (GO:0042734)	extracellular-glutamate-gated ion channel activity (GO:0005234)|kainate selective glutamate receptor activity (GO:0015277)			NS(1)|breast(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(18)|lung(37)|ovary(2)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	83		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)	Amobarbital(DB01351)|Aprobarbital(DB01352)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Heptabarbital(DB01354)|Hexobarbital(DB01355)|Methylphenobarbital(DB00849)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Primidone(DB00794)|Secobarbital(DB00418)|Talbutal(DB00306)|Thiopental(DB00599)	ttcatcatcattatcatcatG	0.363																																																0													287	228	246					6																	102513771		692	1590	2282	SO:0001627	intron_variant	2898				CCDS5048.1, CCDS5049.1, CCDS55045.1	6q16.3	2012-08-29			ENSG00000164418	ENSG00000164418		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4580	protein-coding gene	gene with protein product		138244		GLUR6		8034316	Standard	NM_021956		Approved	GluK2, MRT6	uc003pqp.4	Q13002	OTTHUMG00000016328	ENST00000421544.1:c.2563-2451T>-	6.37:g.102513771delT		Somatic		WXS	Illumina HiSeq	Phase_I	A6NMY9|B5MCV0|D7RWZ3|D7RWZ4|D7RWZ5|D7RWZ6|D7RWZ7|Q8WWS1|Q96KS6|Q96KS7|Q96KS8	Frame_Shift_Del	DEL	ENST00000421544.1	37	CCDS5048.1																																																																																				0.363	GRIK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043718.1			-	102513771	T	-	102513771	6	5	693	0	1	1	0	1	0	0	0	0	6781	1490	52	0		0	GRIK2	6	102513771	Intron	DEL	T	TCGA-MH-A561-01A-11D-A26P-10	11287370	102513771	68601296	66	45160										
HDAC2	3066	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr6	114264645	114264645	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tctgagaattcttcatcacaAgctatccgcttgtctgatgc	7	11	5	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr6:114264645A>C	ENST00000519065.1	-	12	1624	c.1248T>G	c.(1246-1248)gcT>gcG	p.A416A	HDAC2_ENST00000368632.2_Silent_p.A386A|HDAC2_ENST00000519108.1_Silent_p.A386A|HDAC2_ENST00000398283.2_Silent_p.A510A			Q92769	HDAC2_HUMAN	histone deacetylase 2	416					ATP-dependent chromatin remodeling (GO:0043044)|blood coagulation (GO:0007596)|cardiac muscle cell development (GO:0055013)|chromatin remodeling (GO:0006338)|circadian regulation of gene expression (GO:0032922)|dendrite development (GO:0016358)|embryonic digit morphogenesis (GO:0042733)|epidermal cell differentiation (GO:0009913)|eyelid development in camera-type eye (GO:0061029)|fungiform papilla formation (GO:0061198)|hair follicle placode formation (GO:0060789)|hippocampus development (GO:0021766)|histone deacetylation (GO:0016575)|histone H3 deacetylation (GO:0070932)|histone H4 deacetylation (GO:0070933)|maintenance of chromatin silencing (GO:0006344)|negative regulation of apoptotic process (GO:0043066)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cardiac muscle cell proliferation (GO:0060044)|negative regulation of cell cycle (GO:0045786)|negative regulation of intrinsic apoptotic signaling pathway (GO:2001243)|negative regulation of MHC class II biosynthetic process (GO:0045347)|negative regulation of neuron projection development (GO:0010977)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neurotrophin TRK receptor signaling pathway (GO:0048011)|odontogenesis of dentin-containing tooth (GO:0042475)|positive regulation of cell proliferation (GO:0008284)|positive regulation of collagen biosynthetic process (GO:0032967)|positive regulation of oligodendrocyte differentiation (GO:0048714)|positive regulation of proteolysis (GO:0045862)|positive regulation of receptor biosynthetic process (GO:0010870)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of protein deacetylation (GO:0090311)|regulation of protein kinase B signaling (GO:0051896)|regulation of sarcomere organization (GO:0060297)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|ESC/E(Z) complex (GO:0035098)|heterochromatin (GO:0000792)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|NuRD complex (GO:0016581)|protein complex (GO:0043234)|replication fork (GO:0005657)|Sin3 complex (GO:0016580)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|chromatin DNA binding (GO:0031490)|deacetylase activity (GO:0019213)|enzyme binding (GO:0019899)|histone deacetylase activity (GO:0004407)|NAD-dependent histone deacetylase activity (H3-K14 specific) (GO:0032041)|NAD-dependent histone deacetylase activity (H3-K18 specific) (GO:0097372)|NAD-dependent histone deacetylase activity (H3-K9 specific) (GO:0046969)|NAD-dependent histone deacetylase activity (H4-K16 specific) (GO:0046970)|poly(A) RNA binding (GO:0044822)|protein deacetylase activity (GO:0033558)|RNA polymerase II repressing transcription factor binding (GO:0001103)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)			biliary_tract(1)|central_nervous_system(5)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(11)|ovary(1)|prostate(1)|skin(2)	27		all_cancers(87;0.000629)|all_epithelial(87;0.00274)|Colorectal(196;0.0317)|all_lung(197;0.24)		all cancers(137;0.00318)|OV - Ovarian serous cystadenocarcinoma(136;0.00569)|Epithelial(106;0.0112)|GBM - Glioblastoma multiforme(226;0.0832)	Aminophylline(DB01223)|Lovastatin(DB00227)|Oxtriphylline(DB01303)|Theophylline(DB00277)|Valproic Acid(DB00313)|Vorinostat(DB02546)	CTTCATCACAAGCTATCCGCT	0.363																																																0													126	110	115					6																	114264645		1841	4082	5923	SO:0001819	synonymous_variant	3066			U31814	CCDS43493.1, CCDS43493.2	6q21	2008-08-29			ENSG00000196591	ENSG00000196591			4853	protein-coding gene	gene with protein product		605164				9782097	Standard	NM_001527		Approved	RPD3, YAF1	uc003pwd.2	Q92769	OTTHUMG00000015411	ENST00000519065.1:c.1248T>G	6.37:g.114264645A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KRS5|B4DL58|E1P561|Q5SRI8|Q5SZ86|Q8NEH4	Silent	SNP	ENST00000519065.1	37	CCDS43493.2																																																																																				0.363	HDAC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041909.2			C	114264645	A	C	114264645	2	2	693	1	0	0	0	0	0	0	0	1	7014	59	3	5		5	HDAC2	6	114264645	Silent	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	11750874	114264645	56850422	67	45161										
ELMO1	9844	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	37053037	37053037	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ggaagtcgttgcaggtctcaCtagctggaggaaagagatgg	16	6	1	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr7:37053037C>T	ENST00000310758.4	-	16	1951	c.1304G>A	c.(1303-1305)aGt>aAt	p.S435N	ELMO1-AS1_ENST00000419535.1_RNA|ELMO1_ENST00000448602.1_Missense_Mutation_p.S435N|ELMO1_ENST00000341056.3_Missense_Mutation_p.S137N|ELMO1_ENST00000442504.1_Missense_Mutation_p.S435N	NM_001206480.1|NM_014800.10	NP_001193409.1|NP_055615.8	Q92556	ELMO1_HUMAN	engulfment and cell motility 1	435	ELMO. {ECO:0000255|PROSITE- ProRule:PRU00664}.				actin cytoskeleton organization (GO:0030036)|apoptotic process (GO:0006915)|cellular component movement (GO:0006928)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|innate immune response (GO:0045087)|phagocytosis, engulfment (GO:0006911)|Rac protein signal transduction (GO:0016601)|regulation of defense response to virus by virus (GO:0050690)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|membrane (GO:0016020)|plasma membrane (GO:0005886)	SH3 domain binding (GO:0017124)			breast(2)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(11)|liver(2)|lung(28)|ovary(3)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	58						GCAGGTCTCACTAGCTGGAGG	0.458																																																0													79	75	76					7																	37053037		2203	4300	6503	SO:0001583	missense	9844			AF398885	CCDS5449.1, CCDS5450.1	7p14.1	2012-07-10	2006-01-20		ENSG00000155849	ENSG00000155849		"Engulfment and cell motility proteins"	16286	protein-coding gene	gene with protein product		606420	"engulfment and cell motility 1 (ced-12 homolog, C. elegans)"			11595183	Standard	NM_001039459		Approved	KIAA0281, CED12, ELMO-1, CED-12	uc003tfk.2	Q92556	OTTHUMG00000023701	ENST00000310758.4:c.1304G>A	7.37:g.37053037C>T	ENSP00000312185:p.Ser435Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1X6|Q29R79|Q6ZTJ0|Q96PB0|Q9H0I1	Missense_Mutation	SNP	ENST00000310758.4	37	CCDS5449.1	.	.	.	.	.	.	.	.	.	.	C	15.24	2.774299	0.49786	.	.	ENSG00000155849	ENST00000341056;ENST00000310758;ENST00000361912;ENST00000442504;ENST00000448602	T;T;T;T	0.30981	1.51;1.51;1.51;1.51	6.06	6.06	0.98353	Engulfment/cell motility, ELMO (2);	0.147484	0.64402	D	0.000020	T	0.21841	0.0526	N	0.12527	0.23	0.48571	D	0.999678	B	0.06786	0.001	B	0.12156	0.007	T	0.07366	-1.0776	10	0.22109	T	0.4	.	20.2348	0.98355	0.0:1.0:0.0:0.0	.	435	Q92556	ELMO1_HUMAN	N	137;435;339;435;435	ENSP00000342142:S137N;ENSP00000312185:S435N;ENSP00000406952:S435N;ENSP00000394458:S435N	ENSP00000312185:S435N	S	-	2	0	ELMO1	37019562	1.000000	0.71417	0.988000	0.46212	0.765000	0.43378	4.885000	0.63142	2.879000	0.98667	0.650000	0.86243	AGT		0.458	ELMO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219830.4	NM_130442		T	37053037	C	T	37053037	3	4	693	1	0	0	0	0	1	0	0	0	5067	565	20	2	907	2	ELMO1	7	37053037	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10		37053037	122085626	68	45162										
MLL5	55904	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	104717538	104717538	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	agtgagggtgttcagagggaGgcacaaagaatagctctgag	16	5	2	4			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr7:104717538G>C	ENST00000311117.3	+	10	1442	c.897G>C	c.(895-897)gaG>gaC	p.E299D	KMT2E_ENST00000476671.1_Missense_Mutation_p.E299D|KMT2E_ENST00000334914.7_5'UTR|KMT2E_ENST00000334877.4_Missense_Mutation_p.E299D|KMT2E_ENST00000257745.4_Missense_Mutation_p.E299D	NM_182931.2	NP_891847.1	Q8IZD2	KMT2E_HUMAN	lysine (K)-specific methyltransferase 2E	299					cell cycle arrest (GO:0007050)|cellular response to retinoic acid (GO:0071300)|DNA methylation (GO:0006306)|erythrocyte differentiation (GO:0030218)|histone H3-K4 methylation (GO:0051568)|neutrophil activation (GO:0042119)|neutrophil mediated immunity (GO:0002446)|positive regulation of granulocyte differentiation (GO:0030854)|positive regulation of transcription, DNA-templated (GO:0045893)|retinoic acid receptor signaling pathway (GO:0048384)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|MLL5-L complex (GO:0070688)|plasma membrane (GO:0005886)	enzyme binding (GO:0019899)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)										TTCAGAGGGAGGCACAAAGAA	0.393																																																0													125	115	118					7																	104717538		2203	4300	6503	SO:0001583	missense	55904			AF067804	CCDS34723.1	7q22.1	2013-05-09	2013-05-09	2013-05-09	ENSG00000005483	ENSG00000005483		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	18541	protein-coding gene	gene with protein product		608444	"myeloid/lymphoid or mixed-lineage leukemia 5 (trithorax homolog, Drosophila)"	MLL5		9218106, 7672722	Standard	XM_005250493		Approved	HDCMC04P		Q8IZD2	OTTHUMG00000157403	ENST00000311117.3:c.897G>C	7.37:g.104717538G>C	ENSP00000312379:p.Glu299Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B6ZDE4|B6ZDM3|M4K8J3|Q6P5Y2|Q6PKG4|Q6T316|Q86TI3|Q86W12|Q86WG0|Q86WL2|Q8IV78|Q8IWR5|Q8NFF8|Q9NWE7	Missense_Mutation	SNP	ENST00000311117.3	37	CCDS34723.1	.	.	.	.	.	.	.	.	.	.	G	18.22	3.576129	0.65878	.	.	ENSG00000005483	ENST00000311117;ENST00000393656;ENST00000334877;ENST00000351043;ENST00000257745;ENST00000478990;ENST00000476671;ENST00000537308	D;D;D;D;D	0.95756	-2.92;-2.54;-2.92;-3.8;-3.28	6.07	4.28	0.50868	.	0.000000	0.64402	D	0.000001	D	0.94185	0.8134	L	0.44542	1.39	0.80722	D	1	D;P	0.67145	0.996;0.943	P;P	0.54499	0.754;0.576	D	0.91766	0.5424	10	0.14656	T	0.56	.	12.3705	0.55252	0.1346:0.0:0.8654:0.0	.	299;299	Q8IZD2;Q8IZD2-3	MLL5_HUMAN;.	D	299;299;299;299;299;157;299;233	ENSP00000312379:E299D;ENSP00000335599:E299D;ENSP00000257745:E299D;ENSP00000419883:E157D;ENSP00000417888:E299D	ENSP00000257745:E299D	E	+	3	2	MLL5	104504774	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	6.197000	0.72100	1.587000	0.49959	-0.136000	0.14681	GAG		0.393	KMT2E-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348697.1			C	104717538	G	C	104717538	3	2	693	1	0	0	0	0	1	0	0	0	9631	991	35	4	927	4	MLL5	7	104717538	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	67664501	104717538	54421125	69	45163										
LAMB4	22798	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	107732109	107732120	+	In_Frame_Del	DEL	CCTCGTAGAGAT	CCTCGTAGAGAT	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gagtgttgtggcttcctctgCctcgtagagatagaaattca							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	CCTCGTAGAGAT	CCTCGTAGAGAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr7:107732109_107732120delCCTCGTAGAGAT	ENST00000388781.3	-	14	1735_1746	c.1652_1663delATCTCTACGAGG	c.(1651-1665)tatctctacgaggca>tca	p.551_555YLYEA>S	LAMB4_ENST00000418464.1_In_Frame_Del_p.551_555YLYEA>S|LAMB4_ENST00000414450.2_In_Frame_Del_p.551_555YLYEA>S|LAMB4_ENST00000388780.3_In_Frame_Del_p.551_555YLYEA>S|LAMB4_ENST00000205386.4_In_Frame_Del_p.551_555YLYEA>S	NM_007356.2	NP_031382.2	A4D0S4	LAMB4_HUMAN	laminin, beta 4	551	Laminin EGF-like 5; truncated. {ECO:0000255|PROSITE-ProRule:PRU00460}.|Laminin IV type B. {ECO:0000255|PROSITE- ProRule:PRU00462}.				cell adhesion (GO:0007155)	basement membrane (GO:0005604)		p.Y553D(1)		NS(1)|breast(5)|endometrium(8)|haematopoietic_and_lymphoid_tissue(3)|kidney(5)|large_intestine(22)|lung(40)|ovary(4)|prostate(5)|skin(4)	97						GCTTCCTCTGCCTCGTAGAGATAGAAATTCAA	0.491																																																1	Substitution - Missense(1)	prostate(1)																																								SO:0001651	inframe_deletion	22798			AF028816	CCDS34732.1	7q31	2013-03-01			ENSG00000091128	ENSG00000091128		"Laminins"	6491	protein-coding gene	gene with protein product							Standard	NM_007356		Approved		uc010ljo.1	A4D0S4	OTTHUMG00000154874	ENST00000388781.3:c.1652_1663delATCTCTACGAGG	7.37:g.107732109_107732120delCCTCGTAGAGAT	ENSP00000373433:p.Tyr551_Ala555delinsSer	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKU6|B2RTT3|B5MEB9|Q86TP7|Q86XN2|Q8NBX5	In_Frame_Del	DEL	ENST00000388781.3	37	CCDS34732.1																																																																																				0.491	LAMB4-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337442.1	XM_209857		-	107732120	CCTCGTAGAGAT	-	107732109	7	5	693	1	0	1	0	1	0	0	0	0	8620	739	26	0	3706	0	LAMB4	7	107732109	In_Frame_Del	DEL	CCTCGTAGAGAT	TCGA-MH-A561-01A-11D-A26P-10	3014571	107732109	51406554	70	45164										
MET	4233	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	116423474	116423474	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	aaagctgccagtgaagtggaTggctttggaaagtctgcaaa	13	6	1	1	rs121913245		TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr7:116423474T>C	ENST00000318493.6	+	19	3990	c.3803T>C	c.(3802-3804)aTg>aCg	p.M1268T	MET_ENST00000397752.3_Missense_Mutation_p.M1250T|MET_ENST00000539704.1_Missense_Mutation_p.M120T			Q9NWH9	SLTM_HUMAN	MET proto-oncogene, receptor tyrosine kinase	0					apoptotic process (GO:0006915)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)	p.M1268T(4)		NS(10)|breast(4)|central_nervous_system(4)|endometrium(5)|haematopoietic_and_lymphoid_tissue(5)|kidney(25)|large_intestine(8)|liver(3)|lung(70)|ovary(10)|pleura(2)|prostate(4)|skin(5)|stomach(6)|testis(1)|thyroid(4)|upper_aerodigestive_tract(64)|urinary_tract(3)	233	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			GTGAAGTGGATGGCTTTGGAA	0.393			Mis		"papillary renal, head-neck squamous cell "	papillary renal			Hereditary Papillary Renal Carcinoma (type 1)																														Dom	yes	Familial Papillary Renal Cancer	7	7q31	4233	met proto-oncogene (hepatocyte growth factor receptor)		E	4	Substitution - Missense(4)	kidney(4)	GRCh37	CM992181	MET	M	rs121913245						93	92	92					7																	116423474		1872	4102	5974	SO:0001583	missense	4233	Familial Cancer Database	HPRC, Hereditary Papillary Renal Cell Cancer	M35073	CCDS43636.1, CCDS47689.1	7q31	2014-09-17	2014-06-26		ENSG00000105976	ENSG00000105976	2.7.10.1		7029	protein-coding gene	gene with protein product	"hepatocyte growth factor receptor"	164860	"met proto-oncogene"			1846706, 1611909	Standard	NM_001127500		Approved	HGFR, RCCP2	uc010lkh.3	P08581	OTTHUMG00000023299	ENST00000318493.6:c.3803T>C	7.37:g.116423474T>C	ENSP00000317272:p.Met1268Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5V8|B2RTX3|Q2VPK7|Q52MB3|Q658J7|Q6ZNF2|Q86TK6|Q9H7C3|Q9H8U9	Missense_Mutation	SNP	ENST00000318493.6	37	CCDS47689.1	.	.	.	.	.	.	.	.	.	.	T	18.99	3.740165	0.69304	.	.	ENSG00000105976	ENST00000397752;ENST00000318493;ENST00000539704	T;T;T	0.37752	1.18;1.18;1.18	5.68	5.68	0.88126	Serine-threonine/tyrosine-protein kinase (2);Protein kinase-like domain (1);Tyrosine-protein kinase, catalytic domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.61714	0.2369	M	0.75264	2.295	0.80722	D	1	D;D	0.89917	1.0;0.998	D;D	0.97110	1.0;1.0	T	0.65734	-0.6096	10	0.87932	D	0	.	16.2225	0.82267	0.0:0.0:0.0:1.0	.	1268;1250	P08581-2;P08581	.;MET_HUMAN	T	1250;1268;120	ENSP00000380860:M1250T;ENSP00000317272:M1268T;ENSP00000445020:M120T	ENSP00000317272:M1268T	M	+	2	0	MET	116210710	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.997000	0.88414	2.289000	0.77006	0.460000	0.39030	ATG		0.393	MET-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059620.3			C	116423474	T	C	116423474	3	2	693	1	0	0	0	0	1	0	0	0	9492	1464	51	3	3873	3	MET	7	116423474	Missense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	8691365	116423474	42715189	71	45165										
GPR37	2861	hgsc.bcm.edu	37	chr7	124405027	124405027	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gagaagcgcgcccggggctcGcatggcttggtgagggcaca	18	11	0	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr7:124405027G>A	ENST00000303921.2	-	1	654	c.4C>T	c.(4-6)Cga>Tga	p.R2*		NM_005302.3	NP_005293.1	O15354	GPR37_HUMAN	G protein-coupled receptor 37 (endothelin receptor type B-like)	2					dopamine biosynthetic process (GO:0042416)|G-protein coupled receptor signaling pathway (GO:0007186)|locomotion involved in locomotory behavior (GO:0031987)|positive regulation of dopamine metabolic process (GO:0045964)	endoplasmic reticulum (GO:0005783)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|ubiquitin ligase complex (GO:0000151)	G-protein coupled receptor activity (GO:0004930)|heat shock protein binding (GO:0031072)|Hsp70 protein binding (GO:0030544)|ubiquitin protein ligase binding (GO:0031625)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(5)|large_intestine(8)|lung(11)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	36						CCCGGGGCTCGCATGGCTTGG	0.637																																																0													7	6	7					7																	124405027		2164	4249	6413	SO:0001587	stop_gained	2861				CCDS5792.1	7q31	2012-08-21			ENSG00000170775	ENSG00000170775		"GPCR / Class A : Orphans"	4494	protein-coding gene	gene with protein product		602583				9339362	Standard	NM_005302		Approved	EDNRBL, hET(B)R-LP, PAELR	uc003vli.4	O15354	OTTHUMG00000157197	ENST00000303921.2:c.4C>T	7.37:g.124405027G>A	ENSP00000306449:p.Arg2*	Somatic		WXS	Illumina HiSeq	Phase_I	A4D0Y6|O00348|O14768|Q8TD39	Nonsense_Mutation	SNP	ENST00000303921.2	37	CCDS5792.1	.	.	.	.	.	.	.	.	.	.	G	40	8.449312	0.98815	.	.	ENSG00000170775	ENST00000303921	.	.	.	5.31	3.45	0.39498	.	0.960325	0.08673	N	0.910555	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.05436	T	0.98	-4.8252	6.6615	0.23016	0.0898:0.0:0.7349:0.1753	.	.	.	.	X	2	.	ENSP00000306449:R2X	R	-	1	2	GPR37	124192263	0.983000	0.35010	0.703000	0.30354	0.397000	0.30659	1.951000	0.40333	0.767000	0.33267	0.655000	0.94253	CGA		0.637	GPR37-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347873.1	NM_005302		A	124405027	G	A	124405027	4	1	693	1	0	0	0	0	0	1	0	0	6698	1095	38	1	1845	1	GPR37	7	124405027	Nonsense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	7981553	124405027	34733636	72	45166										
NRG1	3084	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	32616873	32616873	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tgagcatattgttgagagagAagcagagacatccttttcca	10	7	0	4			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr8:32616873A>T	ENST00000405005.3	+	10	980	c.980A>T	c.(979-981)gAa>gTa	p.E327V	NRG1_ENST00000338921.4_Missense_Mutation_p.E335V|NRG1_ENST00000287842.3_Missense_Mutation_p.E324V|NRG1_ENST00000287845.5_Missense_Mutation_p.E298V|NRG1_ENST00000539990.1_Missense_Mutation_p.E170V|NRG1_ENST00000356819.4_Missense_Mutation_p.E332V|NRG1_ENST00000341377.5_3'UTR|NRG1_ENST00000523079.1_Missense_Mutation_p.E324V|NRG1_ENST00000519301.1_Missense_Mutation_p.E277V|NRG1_ENST00000521670.1_Missense_Mutation_p.E327V			Q02297	NRG1_HUMAN	neuregulin 1	327					activation of transmembrane receptor protein tyrosine kinase activity (GO:0007171)|cardiac conduction system development (GO:0003161)|cardiac muscle cell differentiation (GO:0055007)|cardiac muscle cell myoblast differentiation (GO:0060379)|cell communication (GO:0007154)|cell migration (GO:0016477)|cell morphogenesis (GO:0000902)|cell proliferation (GO:0008283)|cellular protein complex disassembly (GO:0043624)|embryo development (GO:0009790)|endocardial cell differentiation (GO:0060956)|epidermal growth factor receptor signaling pathway (GO:0007173)|ERBB signaling pathway (GO:0038127)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|glial cell fate commitment (GO:0021781)|innate immune response (GO:0045087)|locomotory behavior (GO:0007626)|mammary gland development (GO:0030879)|MAPK cascade (GO:0000165)|negative regulation of cardiac muscle cell apoptotic process (GO:0010667)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of protein catabolic process (GO:0042177)|negative regulation of secretion (GO:0051048)|negative regulation of transcription, DNA-templated (GO:0045892)|nervous system development (GO:0007399)|neural crest cell development (GO:0014032)|neuron fate commitment (GO:0048663)|neurotransmitter receptor metabolic process (GO:0045213)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peripheral nervous system development (GO:0007422)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cardiac muscle cell proliferation (GO:0060045)|positive regulation of cell adhesion (GO:0045785)|positive regulation of cell growth (GO:0030307)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of protein tyrosine kinase activity (GO:0061098)|positive regulation of Ras protein signal transduction (GO:0046579)|positive regulation of striated muscle cell differentiation (GO:0051155)|regulation of protein heterodimerization activity (GO:0043497)|regulation of protein homodimerization activity (GO:0043496)|synapse assembly (GO:0007416)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|ventricular cardiac muscle cell differentiation (GO:0055012)|ventricular trabecula myocardium morphogenesis (GO:0003222)|wound healing (GO:0042060)	apical plasma membrane (GO:0016324)|axon (GO:0030424)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|neuromuscular junction (GO:0031594)|nucleus (GO:0005634)	cytokine activity (GO:0005125)|ErbB-3 class receptor binding (GO:0043125)|growth factor activity (GO:0008083)|protein tyrosine kinase activator activity (GO:0030296)|receptor binding (GO:0005102)|receptor tyrosine kinase binding (GO:0030971)|transcription cofactor activity (GO:0003712)|transmembrane receptor protein tyrosine kinase activator activity (GO:0030297)			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(18)|ovary(1)|prostate(1)|skin(1)	39		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		GTTGAGAGAGAAGCAGAGACA	0.408																																																0													201	169	180					8																	32616873		2203	4300	6503	SO:0001583	missense	3084			L12261	CCDS6084.1, CCDS6085.1, CCDS6086.1, CCDS6087.1, CCDS47836.1, CCDS55218.1, CCDS55219.1, CCDS75727.1	8p21-p12	2014-06-23			ENSG00000157168	ENSG00000157168		"Immunoglobulin superfamily / I-set domain containing"	7997	protein-coding gene	gene with protein product		142445	"NRG1 intronic transcript 2 (non-protein coding)"	HGL, NRG1-IT2		1350381, 8095334	Standard	NM_013962		Approved	HRG, NDF, GGF	uc003xiu.2	Q02297	OTTHUMG00000163918	ENST00000405005.3:c.980A>T	8.37:g.32616873A>T	ENSP00000384620:p.Glu327Val	Somatic		WXS	Illumina HiSeq	Phase_I	A5YAK4|A5YAK5|A8K1L2|B7Z4Z3|E9PHH4|O14667|P98202|Q02298|Q02299|Q07110|Q07111|Q12779|Q12780|Q12781|Q12782|Q12783|Q12784|Q15491|Q7RTV9|Q7RTW0|Q7RTW1|Q7RTW2|Q8NFN1|Q8NFN2|Q8NFN3|Q9UPE3	Missense_Mutation	SNP	ENST00000405005.3	37	CCDS6085.1	.	.	.	.	.	.	.	.	.	.	A	22.5	4.300044	0.81136	.	.	ENSG00000157168	ENST00000518104;ENST00000519301;ENST00000523534;ENST00000523079;ENST00000338921;ENST00000356819;ENST00000287840;ENST00000287845;ENST00000287842;ENST00000405005;ENST00000521670;ENST00000539990	T;T;T;T;T;T;T;T;T;T;T;T	0.62364	0.03;0.03;0.03;0.03;0.03;0.03;0.03;0.03;0.03;0.03;0.03;0.03	6.16	6.16	0.99307	Neuregulin 1-related, C-terminal (1);	0.100274	0.64402	D	0.000002	T	0.70824	0.3268	L	0.41573	1.285	0.53688	D	0.999971	D;D;D;D;D;D;D;D;D;D;D	0.89917	0.996;1.0;1.0;1.0;1.0;1.0;0.983;0.999;0.999;1.0;1.0	D;D;D;D;D;D;P;D;D;D;D	0.97110	0.997;0.999;1.0;0.984;0.991;1.0;0.592;0.984;0.985;0.984;0.999	T	0.64694	-0.6347	10	0.14252	T	0.57	-8.3311	16.8061	0.85666	1.0:0.0:0.0:0.0	.	170;173;324;298;332;323;335;324;327;332;327	B7Z1E3;B7Z1D7;E9PHH4;F8W9E3;Q7RTW4;B0FYA9;Q02297-2;Q02297-7;Q02297;Q02297-6;Q02297-3	.;.;.;.;.;.;.;.;NRG1_HUMAN;.;.	V	294;277;400;324;335;332;327;298;324;327;327;170	ENSP00000430053:E294V;ENSP00000429582:E277V;ENSP00000429067:E400V;ENSP00000430120:E324V;ENSP00000343395:E335V;ENSP00000349275:E332V;ENSP00000287840:E327V;ENSP00000287845:E298V;ENSP00000287842:E324V;ENSP00000384620:E327V;ENSP00000428828:E327V;ENSP00000439276:E170V	ENSP00000287840:E327V	E	+	2	0	NRG1	32736415	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	5.312000	0.65792	2.367000	0.80283	0.528000	0.53228	GAA		0.408	NRG1-017	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000472504.1			T	32616873	A	T	32616873	3	4	693	1	0	0	0	0	1	0	0	0	10654	246	9	5	2614	5	NRG1	8	32616873	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10		32616873	113747149	73	45167										
NKX6-3	157848	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	41504065	41504065	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cgtccgagtcggggtccagcGgcttgttgtactcgtcgtcc	14	13	0	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr8:41504065G>T	ENST00000524115.2	-	2	314	c.311C>A	c.(310-312)cCg>cAg	p.P104Q		NM_152568.2	NP_689781.1	A6NJ46	NKX63_HUMAN	NK6 homeobox 3	234					cell fate determination (GO:0001709)|glandular epithelial cell differentiation (GO:0002067)|negative regulation of epithelial cell differentiation (GO:0030857)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)			lung(1)	1	Ovarian(28;0.00541)|Colorectal(14;0.0202)|Lung SC(25;0.211)	all_lung(54;0.0131)|Lung NSC(58;0.0363)|Esophageal squamous(32;0.0844)|Hepatocellular(245;0.154)	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)			GGGGTCCAGCGGCTTGTTGTA	0.731																																																0													43	38	39					8																	41504065		2201	4300	6501	SO:0001583	missense	157848			AK057898	CCDS6118.1	8p11.21	2014-08-12	2007-07-09		ENSG00000165066	ENSG00000165066		"Homeoboxes / ANTP class : NKL subclass"	26328	protein-coding gene	gene with protein product		610772	"NK6 transcription factor related, locus 3 (Drosophila)"			16326147	Standard	XM_005273422		Approved	FLJ25169	uc003xoa.2	A6NJ46	OTTHUMG00000164083	ENST00000524115.2:c.311C>A	8.37:g.41504065G>T	ENSP00000429553:p.Pro104Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q96LR0	Missense_Mutation	SNP	ENST00000524115.2	37	CCDS6118.1	.	.	.	.	.	.	.	.	.	.	G	32	5.124514	0.94429	.	.	ENSG00000165066	ENST00000524115;ENST00000425142;ENST00000518699	T;T	0.57907	0.37;0.37	4.9	4.02	0.46733	.	0.000000	0.85682	D	0.000000	T	0.70718	0.3256	.	.	.	0.80722	D	1	D	0.89917	1.0	D	0.78314	0.991	T	0.73170	-0.4067	9	0.56958	D	0.05	.	12.1998	0.54319	0.0832:0.0:0.9168:0.0	.	104	A6NJ46-2	.	Q	104;234;234	ENSP00000429553:P104Q;ENSP00000428361:P234Q	ENSP00000414183:P234Q	P	-	2	0	NKX6-3	41623222	1.000000	0.71417	0.999000	0.59377	0.989000	0.77384	7.856000	0.86956	1.066000	0.40716	0.491000	0.48974	CCG		0.731	NKX6-3-002	KNOWN	basic|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000377166.2	NM_152568		T	41504065	G	T	41504065	3	4	693	1	0	0	0	0	1	0	0	0	10466	1116	39	4	100	4	NKX6-3	8	41504065	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	8887192	41504065	104859957	74	45168										
NCOA2	10499	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	71053580	71053580	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ctctcacagccgaactctgcGgtgcccattctccagatggc	9	16	3	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr8:71053580G>A	ENST00000452400.2	-	14	3048	c.2867C>T	c.(2866-2868)cCg>cTg	p.P956L	NCOA2_ENST00000267974.4_Missense_Mutation_p.P44L	NM_006540.2	NP_006531.1	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	956					cellular lipid metabolic process (GO:0044255)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of glucose metabolic process (GO:0010906)|regulation of transcription, DNA-templated (GO:0006355)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)	chromatin binding (GO:0003682)|histone acetyltransferase activity (GO:0004402)|ligand-dependent nuclear receptor binding (GO:0016922)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|nuclear hormone receptor binding (GO:0035257)|signal transducer activity (GO:0004871)|thyroid hormone receptor coactivator activity (GO:0030375)|transcription coactivator activity (GO:0003713)		PAX3/NCOA2(4)|HEY1/NCOA2(10)	NS(1)|breast(4)|endometrium(7)|kidney(4)|large_intestine(10)|lung(25)|ovary(1)|pancreas(2)|prostate(2)|skin(4)	60	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			CGAACTCTGCGGTGCCCATTC	0.532			T	"RUNXBP2, HEY1"	"AML, Chondrosarcoma"																																		Dom	yes		8	8q13.1	10499	nuclear receptor coactivator 2 (TIF2)		L	0													57	60	59					8																	71053580		2052	4211	6263	SO:0001583	missense	10499			X97674	CCDS47872.1	8q13.3	2011-07-01			ENSG00000140396	ENSG00000140396		"Chromatin-modifying enzymes / K-acetyltransferases", "Basic helix-loop-helix proteins"	7669	protein-coding gene	gene with protein product		601993				9111344, 8670870	Standard	XM_005251128		Approved	TIF2, GRIP1, NCoA-2, KAT13C, bHLHe75	uc003xyn.1	Q15596	OTTHUMG00000164671	ENST00000452400.2:c.2867C>T	8.37:g.71053580G>A	ENSP00000399968:p.Pro956Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q14CD2	Missense_Mutation	SNP	ENST00000452400.2	37	CCDS47872.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	1.585|1.585	-0.530666|-0.530666	0.04112|0.04112	.|.	.|.	ENSG00000140396|ENSG00000140396	ENST00000452400;ENST00000267974|ENST00000518363	T;T|.	0.06849|.	4.9;3.25|.	5.64|5.64	5.64|5.64	0.86602|0.86602	.|.	0.483437|.	0.22937|.	N|.	0.053835|.	T|T	0.28532|0.28532	0.0706|0.0706	N|N	0.04880|0.04880	-0.145|-0.145	0.09310|0.09310	N|N	0.999999|0.999999	P;B|.	0.35192|.	0.489;0.059|.	B;B|.	0.24974|.	0.057;0.01|.	T|T	0.19289|0.19289	-1.0310|-1.0310	10|5	0.02654|.	T|.	1|.	.|.	16.5528|16.5528	0.84476|0.84476	0.0:0.1389:0.8611:0.0|0.0:0.1389:0.8611:0.0	.|.	44;956|.	F8WAJ2;Q15596|.	.;NCOA2_HUMAN|.	L|C	956;44|57	ENSP00000399968:P956L;ENSP00000267974:P44L|.	ENSP00000267974:P44L|.	P|R	-|-	2|1	0|0	NCOA2|NCOA2	71216134|71216134	0.778000|0.778000	0.28640|0.28640	0.149000|0.149000	0.22428|0.22428	0.831000|0.831000	0.47069|0.47069	4.231000|4.231000	0.58639|0.58639	2.820000|2.820000	0.97059|0.97059	0.650000|0.650000	0.86243|0.86243	CCG|CGC		0.532	NCOA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379696.1			A	71053580	G	A	71053580	3	1	693	1	0	0	0	0	1	0	0	0	10236	1116	39	1	1567	1	NCOA2	8	71053580	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	29549515	71053580	75310442	75	45169										
CSMD3	114788	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	113316994	113316994	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tccaactccaagtaccattaGgaagacattcgatggaggca	9	10	0	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr8:113316994G>A	ENST00000297405.5	-	52	8466	c.8222C>T	c.(8221-8223)cCt>cTt	p.P2741L	CSMD3_ENST00000455883.2_Intron|CSMD3_ENST00000352409.3_Missense_Mutation_p.P2671L|CSMD3_ENST00000343508.3_Missense_Mutation_p.P2701L	NM_198123.1	NP_937756.1	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3	2741	Sushi 16. {ECO:0000255|PROSITE- ProRule:PRU00302}.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(7)|central_nervous_system(6)|endometrium(44)|haematopoietic_and_lymphoid_tissue(8)|kidney(36)|large_intestine(72)|liver(5)|lung(389)|ovary(24)|prostate(6)|skin(23)|upper_aerodigestive_tract(19)|urinary_tract(7)	646						AGTACCATTAGGAAGACATTC	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)																																						0													133	118	123					8																	113316994		2203	4300	6503	SO:0001583	missense	114788			AY210419	CCDS6315.1, CCDS6316.2, CCDS6317.1	8q23.3	2007-01-06			ENSG00000164796	ENSG00000164796			19291	protein-coding gene	gene with protein product		608399					Standard	NM_052900		Approved		uc003ynu.3	Q7Z407	OTTHUMG00000157027	ENST00000297405.5:c.8222C>T	8.37:g.113316994G>A	ENSP00000297405:p.Pro2741Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q96PZ3	Missense_Mutation	SNP	ENST00000297405.5	37	CCDS6315.1	.	.	.	.	.	.	.	.	.	.	G	15.64	2.891954	0.52014	.	.	ENSG00000164796	ENST00000343508;ENST00000297405;ENST00000339701;ENST00000352409	T;T;T;T	0.64085	-0.08;-0.08;-0.08;-0.08	4.9	4.9	0.64082	Complement control module (2);Sushi/SCR/CCP (3);	0.178361	0.34200	N	0.004165	T	0.48259	0.1490	N	0.13272	0.32	0.54753	D	0.99998	B;B	0.30211	0.273;0.006	B;B	0.30105	0.111;0.026	T	0.47849	-0.9085	10	0.38643	T	0.18	.	18.4479	0.90691	0.0:0.0:1.0:0.0	.	2741;2701	Q7Z407;Q7Z407-2	CSMD3_HUMAN;.	L	2701;2741;2011;2671	ENSP00000345799:P2701L;ENSP00000297405:P2741L;ENSP00000341558:P2011L;ENSP00000343124:P2671L	ENSP00000297405:P2741L	P	-	2	0	CSMD3	113386170	1.000000	0.71417	1.000000	0.80357	0.427000	0.31564	9.775000	0.98995	2.385000	0.81259	0.561000	0.74099	CCT		0.388	CSMD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347141.1	NM_052900		A	113316994	G	A	113316994	3	1	693	1	0	0	0	0	1	0	0	0	3948	1000	35	2	2981	2	CSMD3	8	113316994	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	42263414	113316994	33047028	76	45170										
PHF20L1	51105	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	133806739	133806739	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ctggagtcatcgttatgatgAgtggatttactgggatagca	13	5	1	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr8:133806739A>G	ENST00000395386.2	+	3	466	c.167A>G	c.(166-168)gAg>gGg	p.E56G	PHF20L1_ENST00000395390.2_Missense_Mutation_p.E56G|PHF20L1_ENST00000395379.1_Missense_Mutation_p.E56G|PHF20L1_ENST00000395376.1_Missense_Mutation_p.E56G|PHF20L1_ENST00000337920.4_Missense_Mutation_p.E56G|PHF20L1_ENST00000220847.7_5'UTR	NM_016018.4	NP_057102.4	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1	56	Tudor 1.						zinc ion binding (GO:0008270)			breast(1)|endometrium(1)|large_intestine(1)|lung(10)|ovary(2)	15	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)			CGTTATGATGAGTGGATTTAC	0.408																																																0													134	122	126					8																	133806739		2203	4300	6503	SO:0001583	missense	51105			AF230666	CCDS6367.2, CCDS6368.1, CCDS75791.1	8q24.22	2014-03-24			ENSG00000129292	ENSG00000129292		"Tudor domain containing", "Zinc fingers, PHD-type"	24280	protein-coding gene	gene with protein product	"tudor domain containing 20B"					10810093, 24492612	Standard	NM_016018		Approved	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B	uc003ytt.3	A8MW92	OTTHUMG00000148656	ENST00000395386.2:c.167A>G	8.37:g.133806739A>G	ENSP00000378784:p.Glu56Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8MZC9|Q86U89|Q86W43|Q96BT0|Q9H702|Q9HBK3|Q9NYR3|Q9Y381	Missense_Mutation	SNP	ENST00000395386.2	37	CCDS6367.2	.	.	.	.	.	.	.	.	.	.	A	31	5.078557	0.94050	.	.	ENSG00000129292	ENST00000395383;ENST00000395379;ENST00000361997;ENST00000395386;ENST00000315808;ENST00000337920;ENST00000395376;ENST00000522580;ENST00000395390	T;T;T;T;T;T;T;T	0.56275	0.53;0.48;0.51;1.1;0.47;0.49;0.55;1.13	5.91	5.91	0.95273	Tudor-like, plant (1);Tudor domain (1);	0.000000	0.85682	D	0.000000	T	0.77942	0.4206	M	0.90759	3.145	0.80722	D	1	D;P;D;D;P	0.89917	1.0;0.735;1.0;1.0;0.714	D;P;D;D;P	0.91635	0.997;0.734;0.999;0.994;0.669	T	0.82833	-0.0262	10	0.87932	D	0	7.5356	15.5298	0.75948	1.0:0.0:0.0:0.0	.	56;56;56;56;56	F8W9L8;A8MW92;A8MW92-4;A8MW92-2;A8MUE8	.;P20L1_HUMAN;.;.;.	G	56;56;56;56;56;56;56;14;56	ENSP00000378781:E56G;ENSP00000378777:E56G;ENSP00000355301:E56G;ENSP00000378784:E56G;ENSP00000324519:E56G;ENSP00000338269:E56G;ENSP00000378775:E56G;ENSP00000378788:E56G	ENSP00000324519:E56G	E	+	2	0	PHF20L1	133875921	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	9.317000	0.96327	2.259000	0.74868	0.528000	0.53228	GAG		0.408	PHF20L1-008	PUTATIVE	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000308949.3	NM_016018		G	133806739	A	G	133806739	3	3	693	1	0	0	0	0	1	0	0	0	11839	304	11	3	173	3	PHF20L1	8	133806739	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	20489745	133806739	12557283	77	45171										
ZNF16	7564	bcgsc.ca	37	chr8	146156384	146156384	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	acaggtgtagggtttttcccCagtatgaactttctggtggt	12	7	1	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr8:146156384C>T	ENST00000276816.4	-	4	1975	c.1789G>A	c.(1789-1791)Ggg>Agg	p.G597R	ZNF16_ENST00000394909.2_Missense_Mutation_p.G597R	NM_001029976.2	NP_001025147.2	P17020	ZNF16_HUMAN	zinc finger protein 16	597					cell cycle (GO:0007049)|cell division (GO:0051301)|cellular response to sodium dodecyl sulfate (GO:0072707)|negative regulation of apoptotic process (GO:0043066)|positive regulation of cell cycle phase transition (GO:1901989)|positive regulation of cell division (GO:0051781)|positive regulation of cell proliferation (GO:0008284)|positive regulation of erythrocyte differentiation (GO:0045648)|positive regulation of kinase activity (GO:0033674)|positive regulation of megakaryocyte differentiation (GO:0045654)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|endometrium(1)|kidney(4)|large_intestine(5)|lung(9)|ovary(5)|prostate(1)|skin(1)|urinary_tract(1)	29	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)		GGTTTTTCCCCAGTATGAACT	0.488																																																0													102	93	96					8																	146156384		2203	4300	6503	SO:0001583	missense	7564			X52340	CCDS6437.1	8q24	2013-01-08	2006-05-10		ENSG00000170631	ENSG00000170631		"Zinc fingers, C2H2-type"	12947	protein-coding gene	gene with protein product		601262	"zinc finger protein 16 (KOX 9)"				Standard	NM_006958		Approved	KOX9	uc003zeu.3	P17020	OTTHUMG00000165253	ENST00000276816.4:c.1789G>A	8.37:g.146156384C>T	ENSP00000276816:p.Gly597Arg	Somatic		WXS	Illumina HiSeq	Phase_1	B3KXM4|D3DWP2|Q45SH7|Q96FG0|Q9NRA4	Missense_Mutation	SNP	ENST00000276816.4	37	CCDS6437.1	.	.	.	.	.	.	.	.	.	.	C	17.16	3.318705	0.60524	.	.	ENSG00000170631	ENST00000276816;ENST00000394909	T;T	0.26223	1.75;1.75	4.0	4.0	0.46444	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.46658	0.1404	L	0.55103	1.725	0.31838	N	0.623894	D	0.89917	1.0	D	0.97110	1.0	T	0.55270	-0.8167	9	0.72032	D	0.01	.	15.0179	0.71600	0.0:1.0:0.0:0.0	.	597	P17020	ZNF16_HUMAN	R	597	ENSP00000276816:G597R;ENSP00000378369:G597R	ENSP00000276816:G597R	G	-	1	0	ZNF16	146127188	0.869000	0.29996	1.000000	0.80357	0.924000	0.55760	3.212000	0.51145	2.058000	0.61347	0.462000	0.41574	GGG		0.488	ZNF16-002	KNOWN	alternative_5_UTR|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000382978.1	NM_006958		T	146156384	C	T	146156384	3	4	693	1	0	0	0	0	1	0	0	0	17750	594	21	2	263	2	ZNF16	8	146156384	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	12349645	146156384	207638	78	45172										
AQP3	360	bcgsc.ca	37	chr9	33447471	33447471	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cagcgcctgtcggagcagccGgtagcggatgtggagcatct	16	11	1	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr9:33447471G>A	ENST00000297991.4	-	1	138	c.58C>T	c.(58-60)Cgg>Tgg	p.R20W	AQP3_ENST00000493581.1_5'UTR	NM_004925.4	NP_004916.1	Q92482	AQP3_HUMAN	aquaporin 3 (Gill blood group)	20					excretion (GO:0007588)|odontogenesis (GO:0042476)|positive regulation of immune system process (GO:0002684)|regulation of keratinocyte differentiation (GO:0045616)|renal water absorption (GO:0070295)|response to calcium ion (GO:0051592)|response to retinoic acid (GO:0032526)|response to vitamin D (GO:0033280)|transmembrane transport (GO:0055085)|transport (GO:0006810)|urea transport (GO:0015840)|water transport (GO:0006833)	basolateral plasma membrane (GO:0016323)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	glycerol channel activity (GO:0015254)|transporter activity (GO:0005215)|water channel activity (GO:0015250)			endometrium(2)|large_intestine(3)|lung(2)|ovary(1)	8			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.0899)		CGGAGCAGCCGGTAGCGGATG	0.716																																																0													18	21	20					9																	33447471		2187	4290	6477	SO:0001583	missense	360				CCDS6542.1	9p13	2014-07-18	2006-02-23		ENSG00000165272	ENSG00000165272		"Ion channels / Aquaporins", "Blood group antigens"	636	protein-coding gene	gene with protein product	"Gill blood group"	600170	"aquaporin 3", "aquaporin 3 (GIL blood group)"			7558005	Standard	NM_004925		Approved	GIL	uc003zsx.3	Q92482	OTTHUMG00000019769	ENST00000297991.4:c.58C>T	9.37:g.33447471G>A	ENSP00000297991:p.Arg20Trp	Somatic		WXS	Illumina HiSeq	Phase_1	A8K843|B2RE16|D3DRL3|O00108|Q6FGT2|Q6FGW6	Missense_Mutation	SNP	ENST00000297991.4	37	CCDS6542.1	.	.	.	.	.	.	.	.	.	.	G	21.3	4.136024	0.77662	.	.	ENSG00000165272	ENST00000297991;ENST00000343952	D	0.85629	-2.01	5.74	4.79	0.61399	Aquaporin-like (2);	0.457287	0.23211	N	0.050673	D	0.87904	0.6295	L	0.42245	1.32	0.32753	N	0.506114	D;D;D	0.76494	0.999;0.99;0.999	D;P;P	0.69479	0.964;0.536;0.865	D	0.88979	0.3406	10	0.59425	D	0.04	-2.3009	11.196	0.48713	0.0:0.0:0.743:0.257	.	20;20;20	C9JAH5;Q92482;B4E034	.;AQP3_HUMAN;.	W	20	ENSP00000297991:R20W	ENSP00000297991:R20W	R	-	1	2	AQP3	33437471	0.999000	0.42202	1.000000	0.80357	0.566000	0.35808	0.585000	0.23879	2.712000	0.92718	0.561000	0.74099	CGG		0.716	AQP3-001	KNOWN	mRNA_start_NF|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052055.1	NM_004925		A	33447471	G	A	33447471	3	1	693	1	0	0	0	0	1	0	0	0	827	1115	39	1	844	1	AQP3	9	33447471	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10		33447471	107765960	79	45173										
SLC28A3	64078	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	86900438	86900438	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tcatgaaggaaaagggcatgAagatgtaggagcagattagc	14	4	1	4			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr9:86900438A>T	ENST00000376238.4	-	14	1518	c.1469T>A	c.(1468-1470)tTc>tAc	p.F490Y	RP11-380F14.2_ENST00000419815.1_RNA|SLC28A3_ENST00000537648.1_Missense_Mutation_p.F421Y	NM_001199633.1|NM_022127.2	NP_001186562.1|NP_071410.1	Q9HAS3	S28A3_HUMAN	solute carrier family 28 (concentrative nucleoside transporter), member 3	490					pyrimidine nucleoside transport (GO:0015864)|transmembrane transport (GO:0055085)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	nucleoside binding (GO:0001882)|purine-specific nucleoside:sodium symporter activity (GO:0015390)|pyrimidine- and adenine-specific:sodium symporter activity (GO:0015389)			endometrium(2)|large_intestine(6)|lung(17)|ovary(1)|pancreas(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	31					Adenosine(DB00640)|Cladribine(DB00242)|Fludarabine(DB01073)|Gemcitabine(DB00441)|Mercaptopurine(DB01033)|Ribavirin(DB00811)	AAAGGGCATGAAGATGTAGGA	0.413																																					Ovarian(106;425 1539 34835 42413 43572)											0													87	84	85					9																	86900438		2203	4300	6503	SO:0001583	missense	64078			AF305210	CCDS6670.1	9q21.33	2013-07-17	2013-07-17		ENSG00000197506	ENSG00000197506		"Solute carriers"	16484	protein-coding gene	gene with protein product		608269	"solute carrier family 28 (sodium-coupled nucleoside transporter), member 3"			11032837	Standard	NM_001199633		Approved	CNT3	uc010mpz.3	Q9HAS3	OTTHUMG00000020117	ENST00000376238.4:c.1469T>A	9.37:g.86900438A>T	ENSP00000365413:p.Phe490Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9Y4|B1AML0|B2RA51|B4E2S8|F5GYE3	Missense_Mutation	SNP	ENST00000376238.4	37	CCDS6670.1	.	.	.	.	.	.	.	.	.	.	A	28.4	4.918255	0.92249	.	.	ENSG00000197506	ENST00000376238;ENST00000537648	T;T	0.09911	2.93;2.93	5.74	5.74	0.90152	Na dependent nucleoside transporter, C-terminal (1);	0.000000	0.85682	D	0.000000	T	0.46210	0.1381	H	0.94771	3.58	0.58432	D	0.999999	D	0.89917	1.0	D	0.87578	0.998	T	0.61232	-0.7104	10	0.87932	D	0	-28.3331	16.3305	0.83010	1.0:0.0:0.0:0.0	.	490	Q9HAS3	S28A3_HUMAN	Y	490;421	ENSP00000365413:F490Y;ENSP00000446438:F421Y	ENSP00000365413:F490Y	F	-	2	0	SLC28A3	86090258	1.000000	0.71417	1.000000	0.80357	0.952000	0.60782	9.273000	0.95719	2.317000	0.78254	0.459000	0.35465	TTC		0.413	SLC28A3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000052874.1	NM_022127		T	86900438	A	T	86900438	3	4	693	1	0	0	0	0	1	0	0	0	14546	246	9	5	626	5	SLC28A3	9	86900438	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	53452967	86900438	54312993	80	45174										
PTPN3	5774	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	112219466	112219466	+	Frame_Shift_Del	DEL	C	C	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	caccaaccttttaactgcttCctgatggctttgcttgcttc							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr9:112219466delC	ENST00000374541.2	-	4	380	c.276delG	c.(274-276)aggfs	p.R92fs	PTPN3_ENST00000262539.3_Frame_Shift_Del_p.E10fs	NM_001145368.1|NM_002829.3	NP_001138840.1|NP_002820.3	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type 3	92	FERM. {ECO:0000255|PROSITE- ProRule:PRU00084}.				negative regulation of membrane protein ectodomain proteolysis (GO:0051045)|negative regulation of mitotic cell cycle (GO:0045930)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)|regulation of membrane depolarization during action potential (GO:0098902)|regulation of sodium ion transmembrane transporter activity (GO:2000649)	cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytoskeleton (GO:0005856)	ATPase binding (GO:0051117)|phosphotyrosine binding (GO:0001784)|protein tyrosine phosphatase activity (GO:0004725)|sodium channel regulator activity (GO:0017080)			breast(1)|endometrium(2)|kidney(2)|large_intestine(8)|liver(1)|lung(14)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	41						TTAACTGCTTCCTGATGGCTT	0.413																																																0													197	168	177					9																	112219466		2203	4300	6503	SO:0001589	frameshift_variant	5774				CCDS6776.1, CCDS48000.1, CCDS48001.1	9q31	2011-06-09			ENSG00000070159	ENSG00000070159		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Non-receptor"	9655	protein-coding gene	gene with protein product		176877				1648725	Standard	NM_002829		Approved	PTPH1	uc004bed.2	P26045	OTTHUMG00000020475	ENST00000374541.2:c.276delG	9.37:g.112219466delC	ENSP00000363667:p.Arg92fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0AUW9|E7EN99|E9PGU7	Frame_Shift_Del	DEL	ENST00000374541.2	37	CCDS6776.1																																																																																				0.413	PTPN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053598.4			-	112219466	C	-	112219466	7	5	693	1	0	1	0	1	0	0	0	0	12802	854	30	0	2557	0	PTPN3	9	112219466	Frame_Shift_Del	DEL	C	TCGA-MH-A561-01A-11D-A26P-10	25319028	112219466	28993965	81	45175										
PALM2	114299	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	112705604	112705604	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ggaggccggtctcagacaccAcagagccctcatccccagaa	10	16	2	3			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr9:112705604A>G	ENST00000374531.2	+	7	1113	c.1039A>G	c.(1039-1041)Aca>Gca	p.T347A	AKAP2_ENST00000555236.1_Intron|PALM2-AKAP2_ENST00000302798.7_Intron|PALM2_ENST00000483909.1_Missense_Mutation_p.T345A|AKAP2_ENST00000510514.5_Intron|PALM2_ENST00000314527.4_Missense_Mutation_p.T379A|PALM2_ENST00000448454.2_Missense_Mutation_p.T381A|PALM2-AKAP2_ENST00000374530.3_Intron	NM_001037293.2	NP_001032370.1	Q8IXS6	PALM2_HUMAN	paralemmin 2	347					regulation of cell shape (GO:0008360)	plasma membrane (GO:0005886)				breast(1)|endometrium(1)|large_intestine(3)|lung(5)|ovary(2)|pancreas(2)|skin(3)|upper_aerodigestive_tract(1)	18						CTCAGACACCACAGAGCCCTC	0.552																																																0													113	110	111					9																	112705604		2203	4300	6503	SO:0001583	missense	114299			AJ312216	CCDS35099.1, CCDS48002.1, CCDS48002.2	9q31.3	2009-10-16			ENSG00000243444	ENSG00000243444			15845	protein-coding gene	gene with protein product						11478809	Standard	NM_001037293		Approved			Q8IXS6	OTTHUMG00000020479	ENST00000374531.2:c.1039A>G	9.37:g.112705604A>G	ENSP00000363656:p.Thr347Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A9Z1X9|Q8N9D5|Q96DU1	Missense_Mutation	SNP	ENST00000374531.2	37	CCDS35099.1	.	.	.	.	.	.	.	.	.	.	A	15.03	2.711967	0.48517	.	.	ENSG00000243444;ENSG00000243444;ENSG00000243444;ENSG00000243444;ENSG00000157654	ENST00000374531;ENST00000448454;ENST00000483909;ENST00000314527;ENST00000413420	T;T;T;T;T	0.22945	2.36;2.36;2.36;2.36;1.93	5.86	5.86	0.93980	.	.	.	.	.	T	0.33498	0.0865	L	0.59436	1.845	0.80722	D	1	P;P	0.48503	0.788;0.911	P;P	0.51516	0.548;0.672	T	0.13710	-1.0499	9	0.05351	T	0.99	.	15.4456	0.75228	1.0:0.0:0.0:0.0	.	347;381	Q8IXS6;D3YTA4	PALM2_HUMAN;.	A	347;381;345;379;379	ENSP00000363656:T347A;ENSP00000400206:T381A;ENSP00000417525:T345A;ENSP00000323805:T379A;ENSP00000397839:T379A	ENSP00000397839:T379A	T	+	1	0	PALM2-AKAP2;PALM2	111745425	1.000000	0.71417	1.000000	0.80357	0.954000	0.61252	9.339000	0.96797	2.244000	0.73946	0.528000	0.53228	ACA		0.552	PALM2-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000053604.1	NM_001037293		G	112705604	A	G	112705604	3	3	693	1	0	0	0	0	1	0	0	0	11416	159	6	3	1171	3	PALM2	9	112705604	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	486138	112705604	28507827	82	45176										
FAM102A	399665	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	130707096	130707096	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gtgaaatcctggctctgcacGatcttctccacgatggcatc	9	13	3	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr9:130707096G>A	ENST00000373095.1	-	9	1374	c.999C>T	c.(997-999)atC>atT	p.I333I	FAM102A_ENST00000300434.3_5'UTR|FAM102A_ENST00000373084.4_Silent_p.I191I	NM_001035254.2	NP_001030331.1	Q5T9C2	F102A_HUMAN	family with sequence similarity 102, member A	333										breast(1)|cervix(1)|large_intestine(3)|lung(1)|ovary(4)	10						GGCTCTGCACGATCTTCTCCA	0.672																																																0													89	64	72					9																	130707096		2203	4300	6503	SO:0001819	synonymous_variant	399665				CCDS6888.1, CCDS35150.1	9q34.11	2012-11-05	2005-11-17	2005-11-17	ENSG00000167106	ENSG00000167106			31419	protein-coding gene	gene with protein product	"sym-3 homolog A (C. elegans)"	610891	"chromosome 9 open reading frame 132"	C9orf132			Standard	NM_001035254		Approved	Eeig1, bA203J24.7, SYM-3A	uc004bsx.2	Q5T9C2	OTTHUMG00000020720	ENST00000373095.1:c.999C>T	9.37:g.130707096G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A2A329|Q8TEL4	Silent	SNP	ENST00000373095.1	37	CCDS35150.1																																																																																				0.672	FAM102A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054298.2			A	130707096	G	A	130707096	2	1	693	1	0	0	0	0	0	0	0	1	5386	1048	37	1		1	FAM102A	9	130707096	Silent	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	18001492	130707096	10506335	83	45177										
NUP188	23511	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	131749966	131749966	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gggcattggcgtggacaccaTtgacatggtgatggctgctc	15	9	0	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr9:131749966T>C	ENST00000372577.2	+	23	2384	c.2363T>C	c.(2362-2364)aTt>aCt	p.I788T		NM_015354.1	NP_056169.1	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	788					carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|protein transport (GO:0015031)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	membrane (GO:0016020)|nuclear envelope (GO:0005635)|nuclear pore (GO:0005643)				breast(2)|central_nervous_system(3)|endometrium(6)|kidney(4)|large_intestine(9)|lung(20)|ovary(6)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(3)	60						GTGGACACCATTGACATGGTG	0.493																																																0													170	146	154					9																	131749966		2203	4300	6503	SO:0001583	missense	23511			D79991	CCDS35156.1	9q34.13	2014-01-28	2004-03-19	2004-03-24	ENSG00000095319	ENSG00000095319			17859	protein-coding gene	gene with protein product		615587	"KIAA0169"	KIAA0169		11029043	Standard	NM_015354		Approved		uc004bws.2	Q5SRE5	OTTHUMG00000020768	ENST00000372577.2:c.2363T>C	9.37:g.131749966T>C	ENSP00000361658:p.Ile788Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q14675|Q2TA87|Q7Z3K8|Q8IWF1	Missense_Mutation	SNP	ENST00000372577.2	37	CCDS35156.1	.	.	.	.	.	.	.	.	.	.	T	23.4	4.407163	0.83230	.	.	ENSG00000095319	ENST00000356693;ENST00000372577	T	0.32753	1.44	5.65	5.65	0.86999	.	0.045126	0.85682	D	0.000000	T	0.35219	0.0924	L	0.29908	0.895	0.58432	D	0.999999	P;P	0.51537	0.822;0.946	P;P	0.51550	0.493;0.673	T	0.13150	-1.0520	10	0.87932	D	0	-16.8028	15.3584	0.74448	0.0:0.0:0.0:1.0	.	121;788	E9PET9;Q5SRE5	.;NU188_HUMAN	T	677;788	ENSP00000361658:I788T	ENSP00000349125:I677T	I	+	2	0	NUP188	130789787	1.000000	0.71417	0.959000	0.39883	0.993000	0.82548	7.459000	0.80802	2.279000	0.76181	0.533000	0.62120	ATT		0.493	NUP188-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054529.2			C	131749966	T	C	131749966	3	2	693	1	0	0	0	0	1	0	0	0	10765	1493	52	3	2453	3	NUP188	9	131749966	Missense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	1042870	131749966	9463465	84	45178										
AKR1C2	1646	broad.mit.edu	37	chr10	5038014	5038014	+	Frame_Shift_Del	DEL	A	A	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	caatgtcttttgacttgcagAaatccagcagttttctctgg							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr10:5038014delA	ENST00000380753.4	-	6	801	c.614delT	c.(613-615)ttcfs	p.F205fs	AKR1C2_ENST00000421196.3_Frame_Shift_Del_p.F179fs|RP11-499O7.7_ENST00000440414.1_RNA|AKR1C2_ENST00000407674.1_Frame_Shift_Del_p.F205fs|RP11-499O7.7_ENST00000451575.2_RNA	NM_205845.2	NP_995317.1	P52895	AK1C2_HUMAN	aldo-keto reductase family 1, member C2	205					cellular response to jasmonic acid stimulus (GO:0071395)|daunorubicin metabolic process (GO:0044597)|digestion (GO:0007586)|doxorubicin metabolic process (GO:0044598)|epithelial cell differentiation (GO:0030855)|G-protein coupled receptor signaling pathway (GO:0007186)|oxidation-reduction process (GO:0055114)|positive regulation of cell proliferation (GO:0008284)|positive regulation of protein kinase B signaling (GO:0051897)|progesterone metabolic process (GO:0042448)|prostaglandin metabolic process (GO:0006693)|response to prostaglandin (GO:0034694)|steroid metabolic process (GO:0008202)	cytoplasm (GO:0005737)	alditol:NADP+ 1-oxidoreductase activity (GO:0004032)|bile acid binding (GO:0032052)|carboxylic acid binding (GO:0031406)|ketosteroid monooxygenase activity (GO:0047086)|oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor (GO:0016655)|phenanthrene 9,10-monooxygenase activity (GO:0018636)|prostaglandin F receptor activity (GO:0004958)|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity (GO:0047115)			breast(1)|large_intestine(5)|lung(3)|skin(1)	10					Ursodeoxycholic acid(DB01586)	TGACTTGCAGAAATCCAGCAG	0.393																																																0													62	57	59					10																	5038014		2203	4296	6499	SO:0001589	frameshift_variant	1646			L32592	CCDS7062.1, CCDS44350.1	10p15-p14	2014-01-29	2012-12-04		ENSG00000151632	ENSG00000151632	1.3.1.20, 1.1.1.213	"Aldo-keto reductases"	385	protein-coding gene	gene with protein product	"dihydrodiol dehydrogenase 2; bile acid binding protein; 3-alpha hydroxysteroid dehydrogenase, type III"	600450	"aldo-keto reductase family 1, member C2 (dihydrodiol dehydrogenase 2; bile acid binding protein; 3-alpha hydroxysteroid dehydrogenase, type III)", "testicular 17,20-desmolase deficiency"	DDH2, TDD		9716498, 21802064	Standard	NM_001354		Approved	DD, BABP, DD2, HAKRD, MCDR2	uc001iht.3	P52895	OTTHUMG00000017584	ENST00000380753.4:c.614delT	10.37:g.5038014delA	ENSP00000370129:p.Phe205fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2N9|B4DKR9|Q14133|Q5SR16|Q7M4N1|Q96A71	Frame_Shift_Del	DEL	ENST00000380753.4	37	CCDS7062.1																																																																																				0.393	AKR1C2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046531.1	NM_001354		-	5038014	A	-	5038014	7	5	693	1	0	1	0	1	0	0	0	0	470	246	9	0	373	0	AKR1C2	10	5038014	Frame_Shift_Del	DEL	A	TCGA-MH-A561-01A-11D-A26P-10		5038014	130496733	85	45179										
KIN	22944	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	7822115	7822115	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gctgatgtattcgttgtagaCaatgttgttgtggacccttt	11	6	0	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr10:7822115C>G	ENST00000379562.4	-	4	327	c.280G>C	c.(280-282)Gtc>Ctc	p.V94L	KIN_ENST00000535925.1_Missense_Mutation_p.V94L|KIN_ENST00000543003.1_5'UTR	NM_012311.3	NP_036443.1			Kin17 DNA and RNA binding protein											endometrium(1)|kidney(2)|large_intestine(3)|lung(9)|ovary(1)|pancreas(1)|skin(2)	19						TCGTTGTAGACAATGTTGTTG	0.403																																																0													274	240	252					10																	7822115		2203	4300	6503	SO:0001583	missense	22944			AJ005273	CCDS7080.1	10p15-p14	2014-07-15	2014-07-15		ENSG00000151657	ENSG00000151657			6327	protein-coding gene	gene with protein product		601720	"antigenic determinant of recA protein (mouse) homolog", "KIN, antigenic determinant of recA protein homolog (mouse)"			1923796, 24140279	Standard	NM_012311		Approved	KIN17, Rts2	uc001ijt.3	O60870	OTTHUMG00000017634	ENST00000379562.4:c.280G>C	10.37:g.7822115C>G	ENSP00000368881:p.Val94Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000379562.4	37	CCDS7080.1	.	.	.	.	.	.	.	.	.	.	C	16.81	3.225063	0.58668	.	.	ENSG00000151657	ENST00000535925;ENST00000379562	.	.	.	5.92	5.0	0.66597	DNA/RNA-binding protein Kin17, conserved domain (1);	0.122083	0.56097	D	0.000033	T	0.73434	0.3586	M	0.90705	3.14	0.80722	D	1	B;B	0.02656	0.0;0.0	B;B	0.10450	0.004;0.005	T	0.73729	-0.3891	9	0.66056	D	0.02	-21.4135	14.5956	0.68403	0.1459:0.8541:0.0:0.0	.	94;94	B4DX32;O60870	.;KIN17_HUMAN	L	94	.	ENSP00000368881:V94L	V	-	1	0	KIN	7862121	1.000000	0.71417	0.986000	0.45419	0.959000	0.62525	3.866000	0.56040	1.448000	0.47680	0.655000	0.94253	GTC		0.403	KIN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046683.2	NM_012311		G	7822115	C	G	7822115	3	3	693	1	0	0	0	0	1	0	0	0	8322	478	17	4	941	4	KIN	10	7822115	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	2784101	7822115	127712632	86	45180										
SORBS1	10580	broad.mit.edu;bcgsc.ca	37	chr10	97170380	97170388	+	Splice_Site	DEL	CCTCTCTTA	CCTCTCTTA	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ggctgggagtggggcacaagCctctcttacctcgattgtgt					rs376551293		TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	CCTCTCTTA	CCTCTCTTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr10:97170380_97170388delCCTCTCTTA	ENST00000361941.3	-	8	982		c.e8+1		SORBS1_ENST00000474353.2_Splice_Site|SORBS1_ENST00000306402.6_Splice_Site|SORBS1_ENST00000371241.1_Splice_Site|SORBS1_ENST00000277982.5_Splice_Site|SORBS1_ENST00000371246.2_Splice_Site|SORBS1_ENST00000371249.2_Splice_Site|SORBS1_ENST00000607232.1_Splice_Site|SORBS1_ENST00000371247.2_Splice_Site|SORBS1_ENST00000354106.3_Splice_Site|SORBS1_ENST00000371245.3_Splice_Site|SORBS1_ENST00000347291.4_Splice_Site|SORBS1_ENST00000371227.4_Splice_Site|SORBS1_ENST00000353505.5_Splice_Site|SORBS1_ENST00000393949.1_Splice_Site|SORBS1_ENST00000371239.1_Splice_Site	NM_001034954.1	NP_001030126			sorbin and SH3 domain containing 1											NS(1)|breast(3)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(7)|lung(19)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	42		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)		GGGGCACAAGCCTCTCTTACCTCGATTGT	0.45																																																0																																										SO:0001630	splice_region_variant	10580			AF136381	CCDS7442.1, CCDS31252.1, CCDS31253.1, CCDS31254.1, CCDS31255.1, CCDS31256.1, CCDS73169.1	10q23.33	2011-07-25	2002-05-08		ENSG00000095637	ENSG00000095637			14565	protein-coding gene	gene with protein product	"c-Cbl-associated protein"	605264	"SH3-domain protein 5 (ponsin)"	SH3D5		10085297, 11001060	Standard	XM_005269405		Approved	FLJ12406, CAP, sh3p12, ponsin, KIAA1296	uc001kkp.3	Q9BX66	OTTHUMG00000018812	ENST00000361941.3:c.955+1TAAGAGAGG>-	10.37:g.97170380_97170388delCCTCTCTTA		Somatic		WXS	Illumina HiSeq	Phase_I		Splice_Site	DEL	ENST00000361941.3	37	CCDS31255.1																																																																																				0.45	SORBS1-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049517.1		Intron	-	97170388	CCTCTCTTA	-	97170380	8	5	693	1	0	1	0	1	0	0	1	0	14940	754	26	0		0	SORBS1	10	97170380	Splice_Site	DEL	CCTCTCTTA	TCGA-MH-A561-01A-11D-A26P-10	89348265	97170380	38364367	87	45181										
MTG1	92170	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	135209749	135209750	+	Frame_Shift_Ins	INS	-	-	GC													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gtcctcaacaagatggacttINSggcggatcttacagagcagc							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr10:135209749_135209750insGC	ENST00000317502.6	+	3	310_311	c.260_261insGC	c.(259-264)ttggcgfs	p.A88fs	RP11-108K14.8_ENST00000468317.2_Frame_Shift_Ins_p.A93fs|MTG1_ENST00000477902.2_Frame_Shift_Ins_p.A47fs	NM_138384.2	NP_612393.2	Q9BT17	MTG1_HUMAN	mitochondrial ribosome-associated GTPase 1	88	CP-type G. {ECO:0000255|PROSITE- ProRule:PRU01058}.				GTP catabolic process (GO:0006184)|regulation of mitochondrial translation (GO:0070129)|regulation of respiratory system process (GO:0044065)|ribosome biogenesis (GO:0042254)	mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrial ribosome (GO:0005761)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)			endometrium(1)|large_intestine(5)|lung(5)|ovary(2)|skin(1)|urinary_tract(1)	15		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)		AAGATGGACTTGGCGGATCTTA	0.515																																																0																																										SO:0001589	frameshift_variant	92170				CCDS31320.1	10q26.3	2013-05-24	2013-05-24	2006-01-09	ENSG00000148824	ENSG00000148824			32159	protein-coding gene	gene with protein product			"GTP-binding protein 7", "GTP-binding protein 7 (putative)", "mitochondrial GTPase 1 homolog (S. cerevisiae)"	GTPBP7		12808030, 23396448	Standard	NM_138384		Approved		uc001lnd.3	Q9BT17	OTTHUMG00000166564	Exception_encountered	10.37:g.135209749_135209750insGC	ENSP00000323047:p.Ala88fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VWX8|Q6PIY9|Q8IYJ4|Q8NC48|Q9BVU8	Frame_Shift_Ins	INS	ENST00000317502.6	37	CCDS31320.1																																																																																				0.515	MTG1-001	KNOWN	non_canonical_U12|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051166.1	NM_138384		GC	135209750	-	GC	135209749	7	5	693	1	0	1	1	0	0	0	0	0	9933	1821	63	0	270	0	MTG1	10	135209749	Frame_Shift_Ins	INS	-	TCGA-MH-A561-01A-11D-A26P-10	38039369	135209749	324998	88	45182										
INS	3630	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	2181135	2181135	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gcagatgctggtacagcattGttccacaatgccacgcttct	9	12	1	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr11:2181135G>T	ENST00000397262.1	-	2	512	c.280C>A	c.(280-282)Caa>Aaa	p.Q94K	INS-IGF2_ENST00000481781.1_5'Flank|INS_ENST00000381330.4_Missense_Mutation_p.Q94K|INS-IGF2_ENST00000397270.1_Intron|INS_ENST00000512523.1_Missense_Mutation_p.Q82K|INS_ENST00000250971.3_Missense_Mutation_p.Q94K	NM_001185098.1	NP_001172027.1	P01308	INS_HUMAN	insulin	94					activation of protein kinase B activity (GO:0032148)|acute-phase response (GO:0006953)|alpha-beta T cell activation (GO:0046631)|cell-cell signaling (GO:0007267)|cellular protein metabolic process (GO:0044267)|endocrine pancreas development (GO:0031018)|energy reserve metabolic process (GO:0006112)|fatty acid homeostasis (GO:0055089)|G-protein coupled receptor signaling pathway (GO:0007186)|glucose homeostasis (GO:0042593)|glucose metabolic process (GO:0006006)|glucose transport (GO:0015758)|insulin receptor signaling pathway (GO:0008286)|MAPK cascade (GO:0000165)|negative regulation of acute inflammatory response (GO:0002674)|negative regulation of fatty acid metabolic process (GO:0045922)|negative regulation of feeding behavior (GO:2000252)|negative regulation of gluconeogenesis (GO:0045721)|negative regulation of glycogen catabolic process (GO:0045818)|negative regulation of lipid catabolic process (GO:0050995)|negative regulation of NAD(P)H oxidase activity (GO:0033861)|negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902176)|negative regulation of protein catabolic process (GO:0042177)|negative regulation of protein oligomerization (GO:0032460)|negative regulation of protein secretion (GO:0050709)|negative regulation of proteolysis (GO:0045861)|negative regulation of respiratory burst involved in inflammatory response (GO:0060266)|negative regulation of vasodilation (GO:0045908)|positive regulation of brown fat cell differentiation (GO:0090336)|positive regulation of cell differentiation (GO:0045597)|positive regulation of cell growth (GO:0030307)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cellular protein metabolic process (GO:0032270)|positive regulation of cytokine secretion (GO:0050715)|positive regulation of DNA replication (GO:0045740)|positive regulation of glucose import (GO:0046326)|positive regulation of glycogen biosynthetic process (GO:0045725)|positive regulation of glycolytic process (GO:0045821)|positive regulation of insulin receptor signaling pathway (GO:0046628)|positive regulation of lipid biosynthetic process (GO:0046889)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of mitosis (GO:0045840)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of nitric oxide biosynthetic process (GO:0045429)|positive regulation of nitric-oxide synthase activity (GO:0051000)|positive regulation of peptide hormone secretion (GO:0090277)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of protein autophosphorylation (GO:0031954)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation of respiratory burst (GO:0060267)|positive regulation of vasodilation (GO:0045909)|regulation of cellular amino acid metabolic process (GO:0006521)|regulation of insulin secretion (GO:0050796)|regulation of protein localization (GO:0032880)|regulation of protein secretion (GO:0050708)|regulation of transcription, DNA-templated (GO:0006355)|regulation of transmembrane transporter activity (GO:0022898)|small molecule metabolic process (GO:0044281)|wound healing (GO:0042060)	endoplasmic reticulum lumen (GO:0005788)|endosome lumen (GO:0031904)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi lumen (GO:0005796)|secretory granule lumen (GO:0034774)	hormone activity (GO:0005179)|identical protein binding (GO:0042802)|insulin receptor binding (GO:0005158)|insulin-like growth factor receptor binding (GO:0005159)|protease binding (GO:0002020)			haematopoietic_and_lymphoid_tissue(1)|lung(3)|prostate(1)	5		Lung NSC(207;8.94e-06)|all_epithelial(84;3.17e-05)|all_lung(207;3.67e-05)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)	Colorectal(5;0.00245)|COAD - Colon adenocarcinoma(6;0.0239)	BRCA - Breast invasive adenocarcinoma(625;0.0025)|LUSC - Lung squamous cell carcinoma(625;0.082)|Lung(200;0.14)		GTACAGCATTGTTCCACAATG	0.672																																																0													63	53	57					11																	2181135		2187	4293	6480	SO:0001583	missense	3630			X70508	CCDS7729.1	11p15.5	2014-02-03			ENSG00000254647	ENSG00000254647			6081	protein-coding gene	gene with protein product		176730	"insulin-dependent diabetes mellitus 2"	IDDM2, IDDM1		6243748, 7773291	Standard	NM_000207		Approved			P01308	OTTHUMG00000009558	ENST00000397262.1:c.280C>A	11.37:g.2181135G>T	ENSP00000380432:p.Gln94Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5EEX2	Missense_Mutation	SNP	ENST00000397262.1	37	CCDS7729.1	.	.	.	.	.	.	.	.	.	.	G	14.14	2.445461	0.43429	.	.	ENSG00000254647	ENST00000397262;ENST00000250971;ENST00000381330;ENST00000512523	D;D;D;D	0.88431	-2.38;-2.38;-2.38;-2.38	3.68	2.73	0.32206	Insulin-like (4);	.	.	.	.	D	0.94466	0.8219	M	0.89534	3.04	0.52501	D	0.999953	D;B	0.60160	0.987;0.437	D;P	0.69307	0.963;0.511	D	0.94552	0.7754	9	0.72032	D	0.01	.	11.9365	0.52876	0.0:0.1778:0.8222:0.0	.	82;94	A6XGL2;P01308	.;INS_HUMAN	K	94;94;94;82	ENSP00000380432:Q94K;ENSP00000250971:Q94K;ENSP00000370731:Q94K;ENSP00000424008:Q82K	ENSP00000250971:Q94K	Q	-	1	0	INS	2137711	1.000000	0.71417	0.918000	0.36340	0.079000	0.17450	4.878000	0.63093	0.860000	0.35481	0.462000	0.41574	CAA		0.672	INS-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026395.3	NM_000207		T	2181135	G	T	2181135	3	4	693	1	0	0	0	0	1	0	0	0	7769	1386	48	4	56	4	INS	11	2181135	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10		2181135	132825381	89	45183										
PDE3B	5140	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	14808189	14808189	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ggattttacccctgttctgaAatagaggacccagctgagaa	10	9	1	3			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr11:14808189A>T	ENST00000282096.4	+	3	1589	c.1236A>T	c.(1234-1236)gaA>gaT	p.E412D	PDE3B_ENST00000455098.2_Intron	NM_000922.3	NP_000913.2	Q13370	PDE3B_HUMAN	phosphodiesterase 3B, cGMP-inhibited	412					angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|cAMP catabolic process (GO:0006198)|cellular response to insulin stimulus (GO:0032869)|endocrine pancreas development (GO:0031018)|glucose homeostasis (GO:0042593)|insulin receptor signaling pathway (GO:0008286)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cAMP-mediated signaling (GO:0043951)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell adhesion mediated by integrin (GO:0033629)|negative regulation of lipid catabolic process (GO:0050995)|regulation of insulin secretion (GO:0050796)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|guanyl-nucleotide exchange factor complex (GO:0032045)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	3',5'-cyclic-nucleotide phosphodiesterase activity (GO:0004114)|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity (GO:0004119)|metal ion binding (GO:0046872)|protein kinase B binding (GO:0043422)			NS(1)|breast(1)|endometrium(5)|kidney(3)|large_intestine(6)|lung(15)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	39					Caffeine(DB00201)	CCTGTTCTGAAATAGAGGACC	0.373																																																0													120	130	126					11																	14808189		2200	4294	6494	SO:0001583	missense	5140			U38178	CCDS7817.1	11p15.2	2008-03-18			ENSG00000152270	ENSG00000152270	3.1.4.17	"Phosphodiesterases"	8779	protein-coding gene	gene with protein product		602047				8884271, 16395595	Standard	NM_000922		Approved	HcGIP1	uc001mln.3	Q13370	OTTHUMG00000165898	ENST00000282096.4:c.1236A>T	11.37:g.14808189A>T	ENSP00000282096:p.Glu412Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZM37|O00639|Q14408|Q6SEI4	Missense_Mutation	SNP	ENST00000282096.4	37	CCDS7817.1	.	.	.	.	.	.	.	.	.	.	a	14.21	2.468783	0.43839	.	.	ENSG00000152270	ENST00000282096	T	0.34275	1.37	5.72	3.42	0.39159	.	0.151781	0.27749	U	0.018012	T	0.36552	0.0971	N	0.20986	0.625	0.80722	D	1	D	0.69078	0.997	D	0.72625	0.978	T	0.22312	-1.0220	10	0.05959	T	0.93	.	9.8395	0.40991	0.8619:0.0:0.1381:0.0	.	412	Q13370	PDE3B_HUMAN	D	412	ENSP00000282096:E412D	ENSP00000282096:E412D	E	+	3	2	PDE3B	14764765	1.000000	0.71417	0.992000	0.48379	0.978000	0.69477	3.979000	0.56888	0.452000	0.26830	0.456000	0.33151	GAA		0.373	PDE3B-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000386974.1	NM_000922		T	14808189	A	T	14808189	3	4	693	1	0	0	0	0	1	0	0	0	11645	11	1	5	1246	5	PDE3B	11	14808189	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	12627054	14808189	120198327	90	45184										
CHRM1	1128	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	62677207	62677207	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ctatcagcattggcgggaggGagtgcggtgcacggagccag	18	9	1	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr11:62677207G>A	ENST00000306960.3	-	2	1907	c.1366C>T	c.(1366-1368)Ccc>Tcc	p.P456S	AP000438.2_ENST00000543624.1_RNA	NM_000738.2	NP_000729.2	P11229	ACM1_HUMAN	cholinergic receptor, muscarinic 1	456					cell proliferation (GO:0008283)|cellular protein modification process (GO:0006464)|cognition (GO:0050890)|G-protein coupled acetylcholine receptor signaling pathway (GO:0007213)|G-protein coupled receptor signaling pathway (GO:0007186)|nervous system development (GO:0007399)|neuromuscular synaptic transmission (GO:0007274)|phospholipase C-activating G-protein coupled acetylcholine receptor signaling pathway (GO:0007207)|positive regulation of cell proliferation (GO:0008284)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of ion transport (GO:0043270)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|regulation of locomotion (GO:0040012)|saliva secretion (GO:0046541)|signal transduction (GO:0007165)	asymmetric synapse (GO:0032279)|axon terminus (GO:0043679)|cell junction (GO:0030054)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)	drug binding (GO:0008144)|G-protein coupled acetylcholine receptor activity (GO:0016907)|phosphatidylinositol phospholipase C activity (GO:0004435)			large_intestine(5)|lung(3)|stomach(1)	9					Aclidinium(DB08897)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Anisotropine Methylbromide(DB00517)|Aripiprazole(DB01238)|Atropine(DB00572)|Benzatropine(DB00245)|Biperiden(DB00810)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbachol(DB00411)|Cevimeline(DB00185)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Citalopram(DB00215)|Clidinium(DB00771)|Clozapine(DB00363)|Cocaine(DB00907)|Cryptenamine(DB00785)|Cyclopentolate(DB00979)|Cycrimine(DB00942)|Cyproheptadine(DB00434)|Darifenacin(DB00496)|Desipramine(DB01151)|Dicyclomine(DB00804)|Diphenidol(DB01231)|Disopyramide(DB00280)|Doxepin(DB01142)|Doxylamine(DB00366)|Escitalopram(DB01175)|Ethopropazine(DB00392)|Fesoterodine(DB06702)|Flavoxate(DB01148)|Flupentixol(DB00875)|Glycopyrrolate(DB00986)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Imipramine(DB00458)|Ipratropium bromide(DB00332)|Ketamine(DB01221)|Loxapine(DB00408)|Maprotiline(DB00934)|Mepenzolate(DB04843)|Methantheline(DB00940)|Methotrimeprazine(DB01403)|Methylscopolamine bromide(DB00462)|Metixene(DB00340)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Nicardipine(DB00622)|Nortriptyline(DB00540)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Oxyphenonium(DB00219)|Paroxetine(DB00715)|Pethidine(DB00454)|Pilocarpine(DB01085)|Pirenzepine(DB00670)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propantheline(DB00782)|Propiomazine(DB00777)|Quetiapine(DB01224)|Scopolamine(DB00747)|Solifenacin(DB01591)|Succinylcholine(DB00202)|Tiotropium(DB01409)|Tolterodine(DB01036)|Triflupromazine(DB00508)|Trihexyphenidyl(DB00376)|Trimipramine(DB00726)|Tropicamide(DB00809)|Trospium(DB00209)|Ziprasidone(DB00246)	TGGCGGGAGGGAGTGCGGTGC	0.667																																																0													72	79	77					11																	62677207		2201	4298	6499	SO:0001583	missense	1128			Y00508	CCDS8040.1	11q12-q13	2012-08-08				ENSG00000168539		"Cholinergic receptors", "GPCR / Class A : Cholinergic receptors, muscarinic"	1950	protein-coding gene	gene with protein product	"acetylcholine receptor, muscarinic 1"	118510					Standard	NM_000738		Approved		uc001nwi.3	P11229		ENST00000306960.3:c.1366C>T	11.37:g.62677207G>A	ENSP00000306490:p.Pro456Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q96RH1	Missense_Mutation	SNP	ENST00000306960.3	37	CCDS8040.1	.	.	.	.	.	.	.	.	.	.	G	15.52	2.857391	0.51376	.	.	ENSG00000168539	ENST00000306960	T	0.57595	0.39	4.53	3.58	0.41010	.	0.211607	0.23760	N	0.044839	T	0.37892	0.1020	N	0.24115	0.695	0.35793	D	0.822568	B	0.12630	0.006	B	0.14578	0.011	T	0.40289	-0.9571	10	0.42905	T	0.14	-15.4337	11.7385	0.51780	0.0:0.2317:0.7683:0.0	.	456	P11229	ACM1_HUMAN	S	456	ENSP00000306490:P456S	ENSP00000306490:P456S	P	-	1	0	CHRM1	62433783	1.000000	0.71417	0.993000	0.49108	0.930000	0.56654	5.691000	0.68249	0.995000	0.38917	0.561000	0.74099	CCC		0.667	CHRM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396178.1	NM_000738		A	62677207	G	A	62677207	3	1	693	1	0	0	0	0	1	0	0	0	3378	1174	41	2	20	2	CHRM1	11	62677207	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	47869018	62677207	72329309	91	45185										
CHRM1	1128	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	62677510	62677510	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cttctccttgaccagcgagaAggtcttccgcttggccagct	10	14	2	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr11:62677510A>T	ENST00000306960.3	-	2	1604	c.1063T>A	c.(1063-1065)Ttc>Atc	p.F355I	AP000438.2_ENST00000543624.1_RNA	NM_000738.2	NP_000729.2	P11229	ACM1_HUMAN	cholinergic receptor, muscarinic 1	355					cell proliferation (GO:0008283)|cellular protein modification process (GO:0006464)|cognition (GO:0050890)|G-protein coupled acetylcholine receptor signaling pathway (GO:0007213)|G-protein coupled receptor signaling pathway (GO:0007186)|nervous system development (GO:0007399)|neuromuscular synaptic transmission (GO:0007274)|phospholipase C-activating G-protein coupled acetylcholine receptor signaling pathway (GO:0007207)|positive regulation of cell proliferation (GO:0008284)|positive regulation of intracellular protein transport (GO:0090316)|positive regulation of ion transport (GO:0043270)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|regulation of locomotion (GO:0040012)|saliva secretion (GO:0046541)|signal transduction (GO:0007165)	asymmetric synapse (GO:0032279)|axon terminus (GO:0043679)|cell junction (GO:0030054)|dendrite (GO:0030425)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)|postsynaptic membrane (GO:0045211)	drug binding (GO:0008144)|G-protein coupled acetylcholine receptor activity (GO:0016907)|phosphatidylinositol phospholipase C activity (GO:0004435)			large_intestine(5)|lung(3)|stomach(1)	9					Aclidinium(DB08897)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Anisotropine Methylbromide(DB00517)|Aripiprazole(DB01238)|Atropine(DB00572)|Benzatropine(DB00245)|Biperiden(DB00810)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbachol(DB00411)|Cevimeline(DB00185)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Citalopram(DB00215)|Clidinium(DB00771)|Clozapine(DB00363)|Cocaine(DB00907)|Cryptenamine(DB00785)|Cyclopentolate(DB00979)|Cycrimine(DB00942)|Cyproheptadine(DB00434)|Darifenacin(DB00496)|Desipramine(DB01151)|Dicyclomine(DB00804)|Diphenidol(DB01231)|Disopyramide(DB00280)|Doxepin(DB01142)|Doxylamine(DB00366)|Escitalopram(DB01175)|Ethopropazine(DB00392)|Fesoterodine(DB06702)|Flavoxate(DB01148)|Flupentixol(DB00875)|Glycopyrrolate(DB00986)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Imipramine(DB00458)|Ipratropium bromide(DB00332)|Ketamine(DB01221)|Loxapine(DB00408)|Maprotiline(DB00934)|Mepenzolate(DB04843)|Methantheline(DB00940)|Methotrimeprazine(DB01403)|Methylscopolamine bromide(DB00462)|Metixene(DB00340)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Nicardipine(DB00622)|Nortriptyline(DB00540)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Oxyphenonium(DB00219)|Paroxetine(DB00715)|Pethidine(DB00454)|Pilocarpine(DB01085)|Pirenzepine(DB00670)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propantheline(DB00782)|Propiomazine(DB00777)|Quetiapine(DB01224)|Scopolamine(DB00747)|Solifenacin(DB01591)|Succinylcholine(DB00202)|Tiotropium(DB01409)|Tolterodine(DB01036)|Triflupromazine(DB00508)|Trihexyphenidyl(DB00376)|Trimipramine(DB00726)|Tropicamide(DB00809)|Trospium(DB00209)|Ziprasidone(DB00246)	ACCAGCGAGAAGGTCTTCCGC	0.592																																																0													55	53	54					11																	62677510		2201	4298	6499	SO:0001583	missense	1128			Y00508	CCDS8040.1	11q12-q13	2012-08-08				ENSG00000168539		"Cholinergic receptors", "GPCR / Class A : Cholinergic receptors, muscarinic"	1950	protein-coding gene	gene with protein product	"acetylcholine receptor, muscarinic 1"	118510					Standard	NM_000738		Approved		uc001nwi.3	P11229		ENST00000306960.3:c.1063T>A	11.37:g.62677510A>T	ENSP00000306490:p.Phe355Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q96RH1	Missense_Mutation	SNP	ENST00000306960.3	37	CCDS8040.1	.	.	.	.	.	.	.	.	.	.	A	11.63	1.696730	0.30142	.	.	ENSG00000168539	ENST00000306960;ENST00000543973	T;T	0.72051	-0.62;-0.62	4.49	4.49	0.54785	GPCR, rhodopsin-like superfamily (1);	0.232532	0.26293	N	0.025212	T	0.43634	0.1256	N	0.04275	-0.24	0.36087	D	0.843175	B	0.14805	0.011	B	0.17098	0.017	T	0.45920	-0.9228	10	0.17369	T	0.5	-24.428	7.3553	0.26714	0.8052:0.0:0.0:0.1948	.	355	P11229	ACM1_HUMAN	I	355	ENSP00000306490:F355I;ENSP00000441188:F355I	ENSP00000306490:F355I	F	-	1	0	CHRM1	62434086	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	1.101000	0.31037	1.870000	0.54199	0.459000	0.35465	TTC		0.592	CHRM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396178.1	NM_000738		T	62677510	A	T	62677510	3	4	693	1	0	0	0	0	1	0	0	0	3378	72	3	5	323	5	CHRM1	11	62677510	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	303	62677510	72329006	92	45186										
C11orf2	738	broad.mit.edu	37	chr11	64875862	64875862	+	Frame_Shift_Del	DEL	G	G	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tgttagagttcaccgaccatGgaggcagtggcttcgtgggc							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr11:64875862delG	ENST00000279281.3	+	5	1011	c.919delG	c.(919-921)ggafs	p.G308fs	AP003068.9_ENST00000528887.1_RNA|VPS51_ENST00000527646.1_3'UTR	NM_013265.2	NP_037397.2	Q9UID3	VPS51_HUMAN	vacuolar protein sorting 51 homolog (S. cerevisiae)	308					autophagy (GO:0006914)|lipid transport (GO:0006869)|protein transport (GO:0015031)|retrograde transport, endosome to Golgi (GO:0042147)	GARP complex (GO:0000938)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)											CACCGACCATGGAGGCAGTGG	0.706																																																0													21	25	24					11																	64875862		2197	4295	6492	SO:0001589	frameshift_variant	738			AF024631	CCDS8093.1	11q13.1	2012-07-19	2012-07-19	2012-07-19	ENSG00000149823	ENSG00000149823			1172	protein-coding gene	gene with protein product	"fat-free homolog (zebrafish)"	615738	"chromosome 11 open reading frame 3", "chromosome 11 open reading frame 2"	C11orf3, C11orf2		9286704, 20685960	Standard	NM_013265		Approved	ANG2, ANG3, FFR	uc001ocr.2	Q9UID3	OTTHUMG00000165600	ENST00000279281.3:c.919delG	11.37:g.64875862delG	ENSP00000279281:p.Gly308fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PJV5|Q7L8A6|Q8WZ35|Q96DF4|Q96GR3	Frame_Shift_Del	DEL	ENST00000279281.3	37	CCDS8093.1																																																																																				0.706	VPS51-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385217.1	NM_013265		-	64875862	G	-	64875862	7	5	693	1	0	1	0	1	0	0	0	0	1635	1349	47	0	937	0	C11orf2	11	64875862	Frame_Shift_Del	DEL	G	TCGA-MH-A561-01A-11D-A26P-10	2198352	64875862	70130654	93	45187										
OVOL1	5017	broad.mit.edu	37	chr11	65562811	65562812	+	Nonstop_Mutation	DNP	GA	GA	TT													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gcagggcagcccccacctgtGagtggctcgagccctggggg							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr11:65562811_65562812GA>TT	ENST00000335987.3	+	4	1155_1156	c.803_804GA>TT	c.(802-804)tGA>tTT	p.*268F	OVOL1_ENST00000532448.1_Nonstop_Mutation_p.*206F|RP11-770G2.5_ENST00000531155.1_RNA	NM_004561.3	NP_004552.2	O14753	OVOL1_HUMAN	ovo-like zinc finger 1	0					cytoskeleton organization (GO:0007010)|epidermal cell differentiation (GO:0009913)|germline cell cycle switching, mitotic to meiotic cell cycle (GO:0051729)|kidney development (GO:0001822)|mesoderm development (GO:0007498)|negative regulation of meiotic cell cycle phase transition (GO:1901994)|spermatogenesis (GO:0007283)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)			central_nervous_system(1)|endometrium(1)|kidney(1)|lung(2)|upper_aerodigestive_tract(1)	6				READ - Rectum adenocarcinoma(159;0.17)		CCCCACCTGTGAGTGGCTCGAG	0.653																																																0																																										SO:0001578	stop_lost	5017			BC059408	CCDS8112.1	11q13	2013-10-17	2013-10-17		ENSG00000172818	ENSG00000172818		"Zinc fingers, C2H2-type"	8525	protein-coding gene	gene with protein product		602313	"ovo (Drosophila) homolog-like 1", "ovo-like 1(Drosophila)"			9383297	Standard	NM_004561		Approved	HOVO1	uc001ofp.3	O14753	OTTHUMG00000166600	Exception_encountered	11.37:g.65562811_65562812delinsTT	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	Q6PCB1	Nonstop_Mutation	DNP	ENST00000335987.3	37	CCDS8112.1																																																																																				0.653	OVOL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390690.1	NM_004561		TT	65562812	GA	TT	65562811	4	4	693	1	0	0	0	0	0	0	0	0	11333	1285	45	4	817	4	OVOL1	11	65562811	Nonstop_Mutation	DNP	GA	TCGA-MH-A561-01A-11D-A26P-10	686949	65562811	69443705	94	45188										
SYTL2	54843	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	85409045	85409045	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ttaacaaaagaatttagatgActtccccttagcagtggtag	8	7	0	3	rs554484063		TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr11:85409045A>C	ENST00000528231.1	-	16	2707	c.2430T>G	c.(2428-2430)agT>agG	p.S810R	SYTL2_ENST00000527523.1_Missense_Mutation_p.S778R|SYTL2_ENST00000525702.1_Missense_Mutation_p.S252R|SYTL2_ENST00000354566.3_Missense_Mutation_p.S1148R|SYTL2_ENST00000316356.4_Missense_Mutation_p.S811R|SYTL2_ENST00000359152.5_Missense_Mutation_p.S1656R|SYTL2_ENST00000525423.1_Missense_Mutation_p.S1132R|SYTL2_ENST00000389958.3_Missense_Mutation_p.S241R|SYTL2_ENST00000533892.1_Missense_Mutation_p.S212R|SYTL2_ENST00000529581.1_Missense_Mutation_p.S252R|SYTL2_ENST00000389960.4_Missense_Mutation_p.S786R|SYTL2_ENST00000524452.1_Missense_Mutation_p.S786R	NM_001162951.1|NM_001162953.1	NP_001156423.1|NP_001156425.1	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2	810	C2 2. {ECO:0000255|PROSITE- ProRule:PRU00041}.				exocytosis (GO:0006887)|intracellular protein transport (GO:0006886)|negative regulation of phosphatase activity (GO:0010923)|positive regulation of mucus secretion (GO:0070257)|vesicle docking involved in exocytosis (GO:0006904)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|exocytic vesicle (GO:0070382)|extrinsic component of plasma membrane (GO:0019897)|Golgi apparatus (GO:0005794)|melanosome (GO:0042470)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	neurexin family protein binding (GO:0042043)|phosphatase binding (GO:0019902)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|phosphatidylserine binding (GO:0001786)			breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(10)|lung(22)|ovary(2)|prostate(4)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	52		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		AATTTAGATGACTTCCCCTTA	0.393																																																0													96	87	90					11																	85409045		2203	4299	6502	SO:0001583	missense	54843			AJ303364	CCDS31649.1, CCDS31652.1, CCDS41698.1, CCDS53687.1, CCDS53688.1, CCDS53689.1	11q14.1	2014-06-13			ENSG00000137501	ENSG00000137501			15585	protein-coding gene	gene with protein product	"chromosome 11 synaptotagmin", "breast cancer-associated antigen SGA-72M", "protein phosphatase 1, regulatory subunit 151"	612880				10997877	Standard	XM_005274057		Approved	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768, PPP1R151	uc001pbb.3	Q9HCH5	OTTHUMG00000166977	ENST00000528231.1:c.2430T>G	11.37:g.85409045A>C	ENSP00000431701:p.Ser810Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRS3|B4DJT5|B4DKW3|B4DQ26|B7SA85|B7ZLX6|B7ZLX7|Q2YDA7|Q6TV07|Q6ZN59|Q6ZVC5|Q8ND34|Q96BJ2|Q9H768|Q9NXM1	Missense_Mutation	SNP	ENST00000528231.1	37	CCDS53688.1	.	.	.	.	.	.	.	.	.	.	A	14.92	2.679575	0.47886	.	.	ENSG00000137501	ENST00000389960;ENST00000359152;ENST00000354566;ENST00000316356;ENST00000525702;ENST00000525423;ENST00000529581;ENST00000389958;ENST00000530351;ENST00000528231;ENST00000533892;ENST00000527523;ENST00000524452	T;T;T;T;T;T;T;T;T;T;T;T;T	0.08193	3.12;3.12;3.12;3.12;3.12;3.12;3.12;3.12;3.12;3.12;3.12;3.12;3.12	5.93	4.98	0.66077	C2 membrane targeting protein (1);C2 calcium-dependent membrane targeting (2);C2 calcium/lipid-binding domain, CaLB (1);	0.357017	0.24240	N	0.040262	T	0.09335	0.0230	N	0.12637	0.245	0.30841	N	0.735693	B;B;B;B;B;D;P;D;B;B	0.54047	0.284;0.409;0.154;0.135;0.288;0.964;0.939;0.964;0.137;0.041	B;B;B;B;B;P;P;P;B;B	0.54346	0.091;0.091;0.148;0.091;0.091;0.749;0.681;0.749;0.091;0.023	T	0.10268	-1.0637	9	.	.	.	-1.3853	11.3673	0.49679	0.191:0.0:0.809:0.0	.	778;786;810;811;628;1108;1132;1148;241;212	Q9HCH5-14;Q9HCH5-6;Q9HCH5;Q9HCH5-13;Q9HCH5-15;Q9HCH5-11;Q9HCH5-7;Q9HCH5-8;Q9HCH5-9;Q9HCH5-4	.;.;SYTL2_HUMAN;.;.;.;.;.;.;.	R	786;1656;1148;811;252;1132;252;241;527;810;212;778;786	ENSP00000374610:S786R;ENSP00000352065:S1656R;ENSP00000346576:S1148R;ENSP00000318803:S811R;ENSP00000432996:S252R;ENSP00000432694:S1132R;ENSP00000435855:S252R;ENSP00000374608:S241R;ENSP00000435009:S527R;ENSP00000431701:S810R;ENSP00000432144:S212R;ENSP00000434010:S778R;ENSP00000435238:S786R	.	S	-	3	2	SYTL2	85086693	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	2.506000	0.45433	1.497000	0.48584	-0.177000	0.13119	AGT		0.393	SYTL2-007	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000392192.1	NM_206927		C	85409045	A	C	85409045	3	2	693	1	0	0	0	0	1	0	0	0	15495	272	10	5	386	5	SYTL2	11	85409045	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	19846234	85409045	49597471	95	45189										
ANKRD49	54851	broad.mit.edu	37	chr11	94231479	94231479	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ctgcagcatgatgcagatatCaatgcccaaacaaaaggcct	8	11	1	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr11:94231479C>T	ENST00000544612.1	+	3	998	c.501C>T	c.(499-501)atC>atT	p.I167I	ANKRD49_ENST00000302755.4_Silent_p.I167I|ANKRD49_ENST00000538535.1_3'UTR|ANKRD49_ENST00000544253.1_3'UTR	NM_017704.2	NP_060174.2	Q8WVL7	ANR49_HUMAN	ankyrin repeat domain 49	167					positive regulation of transcription, DNA-templated (GO:0045893)	nucleus (GO:0005634)				autonomic_ganglia(1)|central_nervous_system(1)|kidney(1)|large_intestine(3)|liver(1)|lung(4)|urinary_tract(1)	12		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				ATGCAGATATCAATGCCCAAA	0.498																																					Melanoma(113;823 1621 4352 9582 22033)											0													89	78	82					11																	94231479		2201	4298	6499	SO:0001819	synonymous_variant	54851			AF025354	CCDS8300.1	11q21	2013-01-10				ENSG00000168876		"Ankyrin repeat domain containing"	25970	protein-coding gene	gene with protein product						11162141	Standard	NM_017704		Approved	FLJ20189, FGIF, GBIF	uc001pew.3	Q8WVL7		ENST00000544612.1:c.501C>T	11.37:g.94231479C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NDF2|Q96JE5|Q9NXK7	Silent	SNP	ENST00000544612.1	37	CCDS8300.1																																																																																				0.498	ANKRD49-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000396314.2	NM_017704		T	94231479	C	T	94231479	2	4	693	1	0	0	0	0	0	0	0	1	675	816	29	2		2	ANKRD49	11	94231479	Silent	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	8822434	94231479	40775037	96	45190										
NCAPD3	23310	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	134063948	134063948	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gagactggagggcctgcttcCggacagacactgcagggtcc	15	12	0	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr11:134063948C>T	ENST00000534548.2	-	15	1851	c.1787G>A	c.(1786-1788)cGg>cAg	p.R596Q		NM_015261.2	NP_056076.1	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	596					mitotic cell cycle (GO:0000278)|mitotic chromosome condensation (GO:0007076)	germinal vesicle (GO:0042585)|membrane (GO:0016020)|nuclear condensin complex (GO:0000799)|nuclear pericentric heterochromatin (GO:0031618)|nucleoplasm (GO:0005654)	methylated histone binding (GO:0035064)			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(10)|kidney(5)|large_intestine(9)|liver(1)|lung(28)|ovary(3)|prostate(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	71	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		GGCCTGCTTCCGGACAGACAC	0.443																																																0													70	67	68					11																	134063948		2201	4297	6498	SO:0001583	missense	23310			AK124878	CCDS31723.1	11q25	2008-02-04			ENSG00000151503	ENSG00000151503			28952	protein-coding gene	gene with protein product		609276				7584044, 8619474, 14532007	Standard	NM_015261		Approved	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6	uc001qhd.1	P42695	OTTHUMG00000167172	ENST00000534548.2:c.1787G>A	11.37:g.134063948C>T	ENSP00000433681:p.Arg596Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFS2|Q4KMQ9	Missense_Mutation	SNP	ENST00000534548.2	37	CCDS31723.1	.	.	.	.	.	.	.	.	.	.	C	26.9	4.777630	0.90195	.	.	ENSG00000151503	ENST00000534548	T	0.75938	-0.98	5.55	5.55	0.83447	Armadillo-like helical (1);Armadillo-type fold (1);	0.110622	0.64402	D	0.000010	D	0.87795	0.6267	M	0.83118	2.625	0.80722	D	1	D	0.89917	1.0	D	0.74023	0.982	D	0.88588	0.3141	10	0.72032	D	0.01	-26.9521	19.8686	0.96842	0.0:1.0:0.0:0.0	.	596	P42695	CNDD3_HUMAN	Q	596	ENSP00000433681:R596Q	ENSP00000431612:R596Q	R	-	2	0	NCAPD3	133569158	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	3.278000	0.51662	2.768000	0.95171	0.655000	0.94253	CGG		0.443	NCAPD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393575.2	NM_015261		T	134063948	C	T	134063948	3	4	693	1	0	0	0	0	1	0	0	0	10213	652	23	1	2793	1	NCAPD3	11	134063948	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	39832469	134063948	942568	97	45191										
YARS2	51067	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	32908454	32908454	+	Frame_Shift_Del	DEL	G	G	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	acggccgctcgggtctcccaGgcgcgccgtggcgcctccca							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr12:32908454delG	ENST00000324868.8	-	1	382	c.355delC	c.(355-357)ctgfs	p.L119fs		NM_001040436.2	NP_001035526.1	Q9Y2Z4	SYYM_HUMAN	tyrosyl-tRNA synthetase 2, mitochondrial	119					gene expression (GO:0010467)|mitochondrial tyrosyl-tRNA aminoacylation (GO:0070184)|translation (GO:0006412)|tRNA aminoacylation (GO:0043039)|tRNA aminoacylation for protein translation (GO:0006418)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|protein homodimerization activity (GO:0042803)|tRNA binding (GO:0000049)|tyrosine binding (GO:0072545)|tyrosine-tRNA ligase activity (GO:0004831)			endometrium(1)|large_intestine(4)|lung(9)|prostate(1)|upper_aerodigestive_tract(1)	16	Lung NSC(5;2.43e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)				L-Tyrosine(DB00135)	GGGTCTCCCAGGCGCGCCGTG	0.682											OREG0021729	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													14	16	16					12																	32908454		2196	4290	6486	SO:0001589	frameshift_variant	51067			AF132939	CCDS31770.1	12p11.21	2014-03-19	2007-02-23		ENSG00000139131	ENSG00000139131	6.1.1.1	"Aminoacyl tRNA synthetases / Class I"	24249	protein-coding gene	gene with protein product	"tyrosine tRNA ligase 2, mitochondrial"	610957				15779907, 15840810	Standard	NM_001040436		Approved	FLJ13995, CGI-04, mt-TyrRS	uc001rli.3	Q9Y2Z4	OTTHUMG00000169454	ENST00000324868.8:c.355delC	12.37:g.32908454delG	ENSP00000320658:p.Leu119fs	Somatic	836	WXS	Illumina HiSeq	Phase_I	D3DUW8|Q9H817	Frame_Shift_Del	DEL	ENST00000324868.8	37	CCDS31770.1																																																																																				0.682	YARS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404153.1	NM_015936		-	32908454	G	-	32908454	7	5	693	1	0	1	0	1	0	0	0	0	17480	991	35	0	1098	0	YARS2	12	32908454	Frame_Shift_Del	DEL	G	TCGA-MH-A561-01A-11D-A26P-10		32908454	100943441	98	45192										
GALNT6	11226	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	51758021	51758021	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tggactctgcccctctggacGggcttggcgaactcaaaagt	12	12	3	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr12:51758021G>C	ENST00000543196.2	-	5	1138	c.933C>G	c.(931-933)ccC>ccG	p.P311P	GALNT6_ENST00000356317.3_Silent_p.P311P			Q8NCL4	GALT6_HUMAN	polypeptide N-acetylgalactosaminyltransferase 6	311					cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein O-linked glycosylation (GO:0006493)	Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)|polypeptide N-acetylgalactosaminyltransferase activity (GO:0004653)			endometrium(2)|large_intestine(6)|lung(7)|ovary(3)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	27						CCCTCTGGACGGGCTTGGCGA	0.577																																																0													97	90	92					12																	51758021		2203	4300	6503	SO:0001819	synonymous_variant	11226			Y08565	CCDS8813.1	12q13	2014-03-13	2014-03-13		ENSG00000139629	ENSG00000139629		"Glycosyltransferase family 2 domain containing"	4128	protein-coding gene	gene with protein product	"polypeptide GalNAc transferase 6"	605148	"UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 6 (GalNAc-T6)"			10464263	Standard	NM_007210		Approved	GalNAc-T6	uc001ryl.1	Q8NCL4		ENST00000543196.2:c.933C>G	12.37:g.51758021G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IYH4|Q9H6G2|Q9UIV5	Silent	SNP	ENST00000543196.2	37	CCDS8813.1																																																																																				0.577	GALNT6-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000469735.1	NM_007210		C	51758021	G	C	51758021	2	2	693	1	0	0	0	0	0	0	0	1	6224	1103	39	4		4	GALNT6	12	51758021	Silent	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	18849567	51758021	82093874	99	45193										
GCN1L1	10985	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	120569801	120569801	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cacacagttcccctaggcacCcggctgaggagatgcgagtg	13	13	0	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr12:120569801C>T	ENST00000300648.6	-	54	7355	c.7343G>A	c.(7342-7344)gGg>gAg	p.G2448E		NM_006836.1	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis 1-like 1 (yeast)	2448					regulation of translation (GO:0006417)|translation (GO:0006412)	cytoplasm (GO:0005737)|membrane (GO:0016020)|ribosome (GO:0005840)	poly(A) RNA binding (GO:0044822)|translation factor activity, nucleic acid binding (GO:0008135)			NS(2)|breast(2)|cervix(2)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(13)|liver(1)|lung(36)|ovary(4)|prostate(7)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	94	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CCCTAGGCACCCGGCTGAGGA	0.567																																																0													58	60	60					12																	120569801		2016	4171	6187	SO:0001583	missense	10985			U77700	CCDS41847.1	12q24.2	2008-07-03	2001-11-28						4199	protein-coding gene	gene with protein product		605614	"GCN1 (general control of amino-acid synthesis 1, yeast)-like 1"			9234705	Standard	NM_006836		Approved	KIAA0219, GCN1, GCN1L	uc001txo.3	Q92616	OTTHUMG00000169338	ENST00000300648.6:c.7343G>A	12.37:g.120569801C>T	ENSP00000300648:p.Gly2448Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAY1|O95001|O95651|Q6P2S3|Q86X65|Q8N5I5|Q8WU80|Q99736|Q9UE60	Missense_Mutation	SNP	ENST00000300648.6	37	CCDS41847.1	.	.	.	.	.	.	.	.	.	.	C	23.1	4.379586	0.82682	.	.	ENSG00000089154	ENST00000300648	T	0.61040	0.14	4.19	4.19	0.49359	Armadillo-like helical (1);Armadillo-type fold (1);	0.124142	0.53938	D	0.000052	T	0.75184	0.3815	M	0.77103	2.36	0.80722	D	1	D	0.71674	0.998	D	0.70935	0.971	T	0.76462	-0.2950	10	0.39692	T	0.17	-19.3318	17.0673	0.86562	0.0:1.0:0.0:0.0	.	2448	Q92616	GCN1L_HUMAN	E	2448	ENSP00000300648:G2448E	ENSP00000300648:G2448E	G	-	2	0	GCN1L1	119054184	1.000000	0.71417	0.969000	0.41365	0.975000	0.68041	6.918000	0.75788	2.330000	0.79161	0.655000	0.94253	GGG		0.567	GCN1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403592.1			T	120569801	C	T	120569801	3	4	693	1	0	0	0	0	1	0	0	0	6306	623	22	2	692	2	GCN1L1	12	120569801	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	68811780	120569801	13282094	100	45194										
PSPC1	55269	broad.mit.edu;bcgsc.ca	37	chr13	20277500	20277500	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ttgaggaaatctgtcattgtGctatgataccacacaataag	8	7	2	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr13:20277500G>A	ENST00000338910.4	-	9	1546	c.1387C>T	c.(1387-1389)Cac>Tac	p.H463Y		NM_001042414.2	NP_001035879.1	Q8WXF1	PSPC1_HUMAN	paraspeckle component 1	463	Gly-rich.				negative regulation of transcription, DNA-templated (GO:0045892)|regulation of circadian rhythm (GO:0042752)|rhythmic process (GO:0048511)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)|paraspeckles (GO:0042382)	core promoter binding (GO:0001047)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(1)|large_intestine(4)|lung(10)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	23		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		CTGTCATTGTGCTATGATACC	0.433																																																0													15	16	16					13																	20277500		1803	4037	5840	SO:0001630	splice_region_variant	55269			AK001817	CCDS41870.1	13q11	2013-02-12			ENSG00000121390	ENSG00000121390		"RNA binding motif (RRM) containing"	20320	protein-coding gene	gene with protein product		612408				11790299	Standard	NM_001042414		Approved	PSP1, FLJ10955	uc021rgx.1	Q8WXF1	OTTHUMG00000016502	ENST00000338910.4:c.1387-1C>T	13.37:g.20277500G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JTQ3|Q8NCZ9|Q8WXE8|Q9NV36	Missense_Mutation	SNP	ENST00000338910.4	37	CCDS41870.1	.	.	.	.	.	.	.	.	.	.	G	11.96	1.795081	0.31777	.	.	ENSG00000121390	ENST00000338910;ENST00000422828	T	0.13901	2.55	5.4	5.4	0.78164	.	0.109676	0.64402	D	0.000006	T	0.10937	0.0267	L	0.36672	1.1	0.43652	D	0.996064	P	0.43826	0.818	B	0.32090	0.14	T	0.20538	-1.0272	10	0.19147	T	0.46	-17.5429	19.1702	0.93574	0.0:0.0:1.0:0.0	.	463	Q8WXF1	PSPC1_HUMAN	Y	463;403	ENSP00000343966:H463Y	ENSP00000343966:H463Y	H	-	1	0	PSPC1	19175500	1.000000	0.71417	1.000000	0.80357	0.897000	0.52465	7.438000	0.80431	2.529000	0.85273	0.484000	0.47621	CAC		0.433	PSPC1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044037.2		Missense_Mutation	A	20277500	G	A	20277500	5	1	693	1	0	0	0	0	0	0	1	0	12726	1333	46	2	188	2	PSPC1	13	20277500	Splice_Site	SNP	G	TCGA-MH-A561-01A-11D-A26P-10		20277500	94892378	101	45195										
ATP11A	23250	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	113526110	113526110	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gatggtgttcacagttacacTaaaggtaagtggtctcgcgc	12	8	2	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr13:113526110T>C	ENST00000487903.1	+	26	3141	c.3053T>C	c.(3052-3054)cTa>cCa	p.L1018P	ATP11A_ENST00000375630.2_Missense_Mutation_p.L1018P|ATP11A_ENST00000375645.3_Missense_Mutation_p.L1018P|ATP11A_ENST00000283558.8_Missense_Mutation_p.L1018P			P98196	AT11A_HUMAN	ATPase, class VI, type 11A	1018					phospholipid translocation (GO:0045332)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|plasma membrane (GO:0005886)|recycling endosome (GO:0055037)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			NS(1)|central_nervous_system(3)|cervix(1)|endometrium(6)|kidney(4)|large_intestine(12)|lung(17)|ovary(4)|skin(1)|stomach(1)|urinary_tract(1)	51	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)				ACAGTTACACTAAAGGTAAGT	0.483																																																0													159	151	154					13																	113526110		2203	4300	6503	SO:0001583	missense	23250			AB028944	CCDS32011.1	13q34	2010-04-20	2007-09-19		ENSG00000068650	ENSG00000068650	3.6.3.1	"ATPases / P-type"	13552	protein-coding gene	gene with protein product	"potential phospholipid-transporting ATPase IH", "phospholipid-translocating ATPase"	605868	"ATPase, Class VI, type 11A"			11015572	Standard	NM_032189		Approved	ATPIH, ATPIS, KIAA1021	uc001vsj.4	P98196	OTTHUMG00000017371	ENST00000487903.1:c.3053T>C	13.37:g.113526110T>C	ENSP00000420387:p.Leu1018Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VXT2	Missense_Mutation	SNP	ENST00000487903.1	37	CCDS32011.1	.	.	.	.	.	.	.	.	.	.	T	16.06	3.016751	0.54468	.	.	ENSG00000068650	ENST00000487903;ENST00000375630;ENST00000375645;ENST00000283558;ENST00000419631	T;T;T;T;T	0.51325	0.71;0.71;0.71;0.71;0.71	4.15	4.15	0.48705	.	0.410679	0.24585	N	0.037266	T	0.75191	0.3816	H	0.96175	3.78	0.80722	D	1	D;D	0.67145	0.996;0.978	P;P	0.62014	0.897;0.841	D	0.83543	0.0097	10	0.66056	D	0.02	.	13.4786	0.61322	0.0:0.0:0.0:1.0	.	1018;1018	E9PEJ6;P98196	.;AT11A_HUMAN	P	1018;1018;1018;1018;10	ENSP00000420387:L1018P;ENSP00000364781:L1018P;ENSP00000364796:L1018P;ENSP00000283558:L1018P;ENSP00000410824:L10P	ENSP00000283558:L1018P	L	+	2	0	ATP11A	112574111	0.962000	0.33011	0.392000	0.26245	0.244000	0.25665	7.271000	0.78506	1.628000	0.50416	0.379000	0.24179	CTA		0.483	ATP11A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000045834.3	NM_015205		C	113526110	T	C	113526110	3	2	693	1	0	0	0	0	1	0	0	0	1119	1522	53	3	3155	3	ATP11A	13	113526110	Missense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	93248610	113526110	1643768	102	45196										
OR11H12	440153	broad.mit.edu;bcgsc.ca	37	chr14	19378076	19378076	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ctctgtgccaaactggtcatActgtgctgggtttgtggatt	12	8	2	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr14:19378076A>G	ENST00000550708.1	+	1	555	c.483A>G	c.(481-483)atA>atG	p.I161M		NM_001013354.1|NM_001197287.1	NP_001013372.1|NP_001184216.1	B2RN74	O11HC_HUMAN	olfactory receptor, family 11, subfamily H, member 12	161						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.I161I(1)		NS(2)|endometrium(1)|kidney(1)|large_intestine(1)|lung(13)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	22	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AACTGGTCATACTGTGCTGGG	0.473																																																1	Substitution - coding silent(1)	lung(1)											155	168	163					14																	19378076		2201	4294	6495	SO:0001583	missense	440153				CCDS32017.1	14q11.2	2013-01-25			ENSG00000257115	ENSG00000257115		"GPCR / Class A : Olfactory receptors"	30738	protein-coding gene	gene with protein product							Standard	NM_001013354		Approved		uc010tkp.2	B2RN74	OTTHUMG00000170298	ENST00000550708.1:c.483A>G	14.37:g.19378076A>G	ENSP00000449002:p.Ile161Met	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000550708.1	37	CCDS32017.1	.	.	.	.	.	.	.	.	.	.	a	1.849	-0.465596	0.04476	.	.	ENSG00000257115	ENST00000550708	T	0.38722	1.12	0.585	-1.17	0.09648	GPCR, rhodopsin-like superfamily (1);	0.551366	0.14814	N	0.296879	T	0.28665	0.0710	L	0.37697	1.125	0.22851	N	0.998651	B	0.28998	0.23	B	0.34346	0.18	T	0.23190	-1.0195	9	0.40728	T	0.16	.	3.7785	0.08671	0.6099:0.0:0.0:0.3901	.	161	B2RN74	O11HC_HUMAN	M	161	ENSP00000449002:I161M	ENSP00000449002:I161M	I	+	3	3	CR383656.1	18448076	0.000000	0.05858	0.739000	0.30968	0.212000	0.24457	-1.607000	0.02070	-0.821000	0.04312	0.055000	0.15244	ATA		0.473	OR11H12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408402.1	NM_001013354		G	19378076	A	G	19378076	3	3	693	1	0	0	0	0	1	0	0	0	10934	381	14	3	485	3	OR11H12	14	19378076	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10		19378076	87971464	103	45197										
CDH24	64403	broad.mit.edu;bcgsc.ca	37	chr14	23517629	23517629	+	Frame_Shift_Del	DEL	C	C	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ctctcggacgtcctcctcctCcagtaccatcagtgcttctt					rs138543733	byFrequency	TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr14:23517629delC	ENST00000267383.5	-	12	2112	c.2020delG	c.(2020-2022)gagfs	p.E676fs	CDH24_ENST00000487137.2_Frame_Shift_Del_p.E638fs|CDH24_ENST00000397359.3_Frame_Shift_Del_p.E676fs|CDH24_ENST00000554034.1_Frame_Shift_Del_p.E638fs|CDH24_ENST00000485922.1_5'UTR			Q86UP0	CAD24_HUMAN	cadherin 24, type 2	676					adherens junction organization (GO:0034332)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|homophilic cell adhesion (GO:0007156)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	alpha-catenin binding (GO:0045294)|beta-catenin binding (GO:0008013)|calcium ion binding (GO:0005509)|delta-catenin binding (GO:0070097)			breast(1)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(6)|lung(5)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	26	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00654)		TCCTCCTCCTCCAGTACCATC	0.662																																																0													74	78	76					14																	23517629		2202	4300	6502	SO:0001589	frameshift_variant	64403			AL137477	CCDS9585.1, CCDS9586.1	14q11.2	2010-08-20	2009-11-20		ENSG00000139880	ENSG00000139880		"Cadherins / Major cadherins"	14265	protein-coding gene	gene with protein product			"cadherin-like 24"			12734196	Standard	NM_022478		Approved	CDH11L	uc001wil.3	Q86UP0	OTTHUMG00000028715	ENST00000267383.5:c.2020delG	14.37:g.23517629delC	ENSP00000267383:p.Glu676fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DS44|Q86UP1|Q9NT84	Frame_Shift_Del	DEL	ENST00000267383.5	37	CCDS9585.1																																																																																				0.662	CDH24-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000257241.2	NM_022478		-	23517629	C	-	23517629	7	5	693	1	0	1	0	1	0	0	0	0	3111	864	30	0	443	0	CDH24	14	23517629	Frame_Shift_Del	DEL	C	TCGA-MH-A561-01A-11D-A26P-10	4139553	23517629	83831911	104	45198										
HOMEZ	57594	hgsc.bcm.edu	37	chr14	23744820	23744820	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	acatcatcatcatcatcatcAtcatcttcctcctcctcctc	0	18	8	0	rs200818825		TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr14:23744820A>T	ENST00000357460.5	-	2	1781	c.1617T>A	c.(1615-1617)gaT>gaA	p.D539E	HOMEZ_ENST00000561013.1_Missense_Mutation_p.D541E|HOMEZ_ENST00000431326.2_Missense_Mutation_p.D541E	NM_020834.2	NP_065885.2	Q8IX15	HOMEZ_HUMAN	homeobox and leucine zipper encoding	539	Poly-Asp.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)			endometrium(5)|lung(7)	12	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		catcatcatcatcatcttcct	0.468																																																0													38	38	38					14																	23744820		2192	4245	6437	SO:0001583	missense	57594			AB037864	CCDS45085.1	14q11.2	2011-06-20	2007-02-15	2007-02-15		ENSG00000215271		"Homeoboxes / ZF class"	20164	protein-coding gene	gene with protein product		608119	"KIAA1443"	KIAA1443		12925734	Standard	NM_020834		Approved		uc001wja.2	Q8IX15		ENST00000357460.5:c.1617T>A	14.37:g.23744820A>T	ENSP00000350049:p.Asp539Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A1L445|B4DZ80|F8WCA3|Q6P049|Q86XB6|Q9P2A5	Missense_Mutation	SNP	ENST00000357460.5	37	CCDS45085.1	.	.	.	.	.	.	.	.	.	.	-	0.013	-1.624939	0.00820	.	.	ENSG00000215271	ENST00000357460;ENST00000431326	T;T	0.61742	0.08;0.08	5.83	-11.7	0.00046	Armadillo-like helical (1);	.	.	.	.	T	0.24624	0.0597	N	0.08118	0	0.09310	N	0.999997	B;B	0.06786	0.001;0.0	B;B	0.08055	0.003;0.001	T	0.37572	-0.9700	9	0.33141	T	0.24	-1.9885	2.2937	0.04144	0.2718:0.3133:0.3242:0.0907	.	541;539	F8WCA3;Q8IX15	.;HOMEZ_HUMAN	E	539;541	ENSP00000350049:D539E;ENSP00000406579:D541E	ENSP00000350049:D539E	D	-	3	2	HOMEZ	22814660	0.000000	0.05858	0.000000	0.03702	0.035000	0.12851	-7.177000	0.00042	-5.316000	0.00017	-1.163000	0.01768	GAT		0.468	HOMEZ-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000416939.2	NM_020834		T	23744820	A	T	23744820	3	4	693	1	0	0	0	0	1	0	0	0	7288	214	8	5	39	5	HOMEZ	14	23744820	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	227191	23744820	83604720	105	45199										
GPHN	10243	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	67291218	67291218	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ctgatagattggtgtgatgaAaaggaacttaatttgatatt	10	2	0	5			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr14:67291218A>C	ENST00000315266.5	+	4	1349	c.228A>C	c.(226-228)gaA>gaC	p.E76D	GPHN_ENST00000305960.9_Intron|GPHN_ENST00000544752.2_3'UTR|GPHN_ENST00000478722.1_Missense_Mutation_p.E76D|GPHN_ENST00000459628.1_Intron|GPHN_ENST00000543237.1_Missense_Mutation_p.E76D	NM_001024218.1	NP_001019389.1	Q9NQX3	GEPH_HUMAN	gephyrin	76	MPT Mo-transferase.				establishment of synaptic specificity at neuromuscular junction (GO:0007529)|glycine receptor clustering (GO:0072579)|Mo-molybdopterin cofactor biosynthetic process (GO:0006777)|molybdopterin cofactor biosynthetic process (GO:0032324)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|inhibitory synapse (GO:0060077)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	ATP binding (GO:0005524)|metal ion binding (GO:0046872)|molybdopterin adenylyltransferase activity (GO:0061598)|molybdopterin molybdotransferase activity (GO:0061599)|transferase activity (GO:0016740)			large_intestine(8)|liver(1)|ovary(2)|stomach(1)	12		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		GGTGTGATGAAAAGGAACTTA	0.393			T	MLL	AL																																		Dom	yes		14	14q24	10243	gephyrin (GPH)		L	0													97	92	94					14																	67291218		2203	4300	6503	SO:0001583	missense	10243			AB037806	CCDS9777.1, CCDS32103.1	14q23.3	2008-04-22			ENSG00000171723	ENSG00000171723			15465	protein-coding gene	gene with protein product		603930				1319186, 10325225, 18403029	Standard	XM_005267250		Approved	KIAA1385	uc001xix.3	Q9NQX3	OTTHUMG00000029785	ENST00000315266.5:c.228A>C	14.37:g.67291218A>C	ENSP00000312771:p.Glu76Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H4E9|Q9P2G2	Missense_Mutation	SNP	ENST00000315266.5	37	CCDS32103.1	.	.	.	.	.	.	.	.	.	.	A	11.85	1.761655	0.31228	.	.	ENSG00000171723	ENST00000315266;ENST00000478722;ENST00000543237;ENST00000555456	T;T;T;T	0.77877	-1.13;-1.13;-1.13;-1.13	5.48	4.33	0.51752	Molybdenum cofactor synthesis (1);Molybdopterin binding (4);	0.046743	0.85682	D	0.000000	T	0.56572	0.1994	N	0.10664	0.02	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.04013	0.0;0.0;0.001	T	0.46721	-0.9171	10	0.16896	T	0.51	-9.6865	11.3654	0.49668	0.9283:0.0:0.0717:0.0	.	76;76;76	F5H039;Q9NQX3;Q9NQX3-2	.;GEPH_HUMAN;.	D	76;76;76;9	ENSP00000312771:E76D;ENSP00000417901:E76D;ENSP00000438404:E76D;ENSP00000450706:E9D	ENSP00000312771:E76D	E	+	3	2	GPHN	66360971	1.000000	0.71417	1.000000	0.80357	0.953000	0.61014	1.444000	0.35068	0.910000	0.36722	0.254000	0.18369	GAA		0.393	GPHN-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000074299.2	NM_020806		C	67291218	A	C	67291218	3	2	693	1	0	0	0	0	1	0	0	0	6617	11	1	5	242	5	GPHN	14	67291218	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	43546398	67291218	40058322	106	45200										
C14orf174	161394	broad.mit.edu	37	chr14	77846826	77846826	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	aaactttgaggacatgaaggTgagttgtgtccaaagtttcc	11	6	0	3			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr14:77846826T>C	ENST00000216471.4	+	2	2074		c.e2+2		SAMD15_ENST00000533095.2_Splice_Site	NM_001010860.1	NP_001010860.1	Q9P1V8	SAM15_HUMAN	sterile alpha motif domain containing 15											breast(2)|endometrium(3)|kidney(2)|large_intestine(4)|lung(10)|pancreas(1)|skin(1)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	28						GACATGAAGGTGAGTTGTGTC	0.463																																																0													113	86	96					14																	77846826		2203	4300	6503	SO:0001630	splice_region_variant	161394			AK093282	CCDS32126.1	14q24.3	2013-01-10	2010-10-20	2010-10-20	ENSG00000100583	ENSG00000100583		"Sterile alpha motif (SAM) domain containing"	18631	protein-coding gene	gene with protein product			"family with sequence similarity 15, member A", "chromosome 14 open reading frame 174"	FAM15A, C14orf174			Standard	XM_006720069		Approved	FLJ35963	uc001xtq.1	Q9P1V8		ENST00000216471.4:c.1788+2T>C	14.37:g.77846826T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3P3	Splice_Site	SNP	ENST00000216471.4	37	CCDS32126.1	.	.	.	.	.	.	.	.	.	.	T	20.1	3.936328	0.73442	.	.	ENSG00000100583	ENST00000533095;ENST00000216471	.	.	.	5.07	5.07	0.68467	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.7935	0.63157	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	SAMD15	76916579	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	4.841000	0.62824	1.888000	0.54679	0.459000	0.35465	.		0.463	SAMD15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394587.2	NM_001010860	Intron	C	77846826	T	C	77846826	5	2	693	1	0	0	0	0	0	0	1	0	1761	1710	59	3	1796	3	C14orf174	14	77846826	Splice_Site	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	10555608	77846826	29502714	107	45201										
PPIP5K1	9677	hgsc.bcm.edu	37	chr15	43863609	43863609	+	Splice_Site	DEL	C	C	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ttcccaaggccctctcattaCctccatggaaccagcttttc							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr15:43863609delC	ENST00000396923.3	-	24	3089		c.e24+1		PPIP5K1_ENST00000348806.6_Splice_Site|PPIP5K1_ENST00000360301.4_Splice_Site|PPIP5K1_ENST00000420765.1_Splice_Site|PPIP5K1_ENST00000432870.3_Splice_Site|PPIP5K1_ENST00000381879.4_Splice_Site|PPIP5K1_ENST00000360135.4_Splice_Site|PPIP5K1_ENST00000334933.4_Splice_Site|PPIP5K1_ENST00000381885.1_Splice_Site			Q6PFW1	VIP1_HUMAN	diphosphoinositol pentakisphosphate kinase 1						inositol metabolic process (GO:0006020)|inositol phosphate metabolic process (GO:0043647)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|plasma membrane (GO:0005886)	acid phosphatase activity (GO:0003993)|ATP binding (GO:0005524)|diphosphoinositol-pentakisphosphate kinase activity (GO:0033857)|inositol hexakisphosphate 1-kinase activity (GO:0052723)|inositol hexakisphosphate 3-kinase activity (GO:0052724)|inositol hexakisphosphate 5-kinase activity (GO:0000832)|inositol-1,3,4,5,6-pentakisphosphate kinase activity (GO:0000827)			large_intestine(1)	1						CCTCTCATTACCTCCATGGAA	0.557																																																0																																										SO:0001630	splice_region_variant	9677			AF502586	CCDS32215.1, CCDS45252.1, CCDS53937.1	15q15.3	2010-01-27	2010-01-26	2010-01-26	ENSG00000168781	ENSG00000168781	2.7.4.24		29023	protein-coding gene	gene with protein product		610979	"histidine acid phosphatase domain containing 2A"	HISPPD2A		17412958, 17690096, 18981179	Standard	NM_001190214		Approved	KIAA0377, IPS1, VIP1	uc001zrw.3	Q6PFW1	OTTHUMG00000059758	ENST00000396923.3:c.2967+1G>-	15.37:g.43863609delC		Somatic		WXS	Illumina HiSeq	Phase_I	O15082|Q5HYF8|Q7Z3A7|Q86TE7|Q86UV3|Q86UV4|Q86XW8|Q8IZN0	Splice_Site	DEL	ENST00000396923.3	37	CCDS45252.1																																																																																				0.557	PPIP5K1-002	NOVEL	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000132907.1	NM_014659	Intron	-	43863609	C	-	43863609	8	5	693	1	0	1	0	1	0	0	1	0	12342	521	18	0	1485	0	PPIP5K1	15	43863609	Splice_Site	DEL	C	TCGA-MH-A561-01A-11D-A26P-10		43863609	58667783	108	45202										
VPS13C	54832	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	62211634	62211634	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	agggatatttgcaacttctgTatatccatgaggtactaagg	10	6	1	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr15:62211634T>C	ENST00000261517.5	-	58	7565	c.7492A>G	c.(7492-7494)Aca>Gca	p.T2498A	VPS13C_ENST00000395896.4_Missense_Mutation_p.T2498A|VPS13C_ENST00000249837.3_Missense_Mutation_p.T2455A|VPS13C_ENST00000395898.3_Missense_Mutation_p.T2455A	NM_020821.2	NP_065872.1			vacuolar protein sorting 13 homolog C (S. cerevisiae)											NS(3)|breast(4)|endometrium(4)|kidney(9)|large_intestine(26)|lung(46)|ovary(5)|prostate(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	117						GCAACTTCTGTATATCCATGA	0.378																																																0													127	126	126					15																	62211634		2203	4299	6502	SO:0001583	missense	54832			AJ608770	CCDS10180.1, CCDS32257.1, CCDS45272.1, CCDS58367.1	15q21.3	2009-07-09	2006-04-04		ENSG00000129003	ENSG00000129003			23594	protein-coding gene	gene with protein product		608879	"vacuolar protein sorting 13C (yeast)"				Standard	NM_018080		Approved	FLJ20136, FLJ10381, KIAA1421	uc002agz.3	Q709C8	OTTHUMG00000132801	ENST00000261517.5:c.7492A>G	15.37:g.62211634T>C	ENSP00000261517:p.Thr2498Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000261517.5	37	CCDS32257.1	.	.	.	.	.	.	.	.	.	.	T	16.21	3.059562	0.55325	.	.	ENSG00000129003	ENST00000249837;ENST00000261517;ENST00000395896;ENST00000395898	T;T;T	0.44881	0.92;0.91;1.09	5.08	5.08	0.68730	.	0.343050	0.31071	N	0.008307	T	0.38585	0.1046	M	0.69823	2.125	0.36345	D	0.85969	B;B;B;P	0.35745	0.257;0.171;0.257;0.518	B;B;B;B	0.30316	0.089;0.089;0.089;0.114	T	0.49753	-0.8906	10	0.30078	T	0.28	.	11.1995	0.48733	0.0:0.0745:0.0:0.9255	.	2455;2498;2455;2498	Q709C8-4;Q709C8-2;Q709C8-3;Q709C8	.;.;.;VP13C_HUMAN	A	2455;2498;2498;2498	ENSP00000249837:T2455A;ENSP00000261517:T2498A;ENSP00000379233:T2498A	ENSP00000249837:T2455A	T	-	1	0	VPS13C	59998926	1.000000	0.71417	0.996000	0.52242	0.988000	0.76386	2.093000	0.41710	2.023000	0.59567	0.533000	0.62120	ACA		0.378	VPS13C-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000415997.1	NM_017684		C	62211634	T	C	62211634	3	2	693	1	0	0	0	0	1	0	0	0	17203	1638	57	3	3909	3	VPS13C	15	62211634	Missense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	18348025	62211634	40319758	109	45203										
ADAMTSL3	57188	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	84592737	84592737	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cttgtgtgatatggtccaccGtcctccagccatgagccagg	11	13	0	2	rs148020587		TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr15:84592737G>A	ENST00000286744.5	+	17	2293	c.2069G>A	c.(2068-2070)cGt>cAt	p.R690H	ADAMTSL3_ENST00000567476.1_Missense_Mutation_p.R690H	NM_207517.2	NP_997400.2	P82987	ATL3_HUMAN	ADAMTS-like 3	690						proteinaceous extracellular matrix (GO:0005578)	metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(2)|breast(7)|central_nervous_system(6)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(24)|lung(51)|ovary(7)|pancreas(2)|prostate(2)|skin(8)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(4)	130			BRCA - Breast invasive adenocarcinoma(143;0.211)			ATGGTCCACCGTCCTCCAGCC	0.537																																																0													114	81	92					15																	84592737		2203	4300	6503	SO:0001583	missense	57188			AF237652	CCDS10326.1, CCDS73773.1	15q25.2	2013-01-29			ENSG00000156218	ENSG00000156218		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	14633	protein-coding gene	gene with protein product		609199				9628581, 10574462	Standard	NM_207517		Approved	KIAA1233, punctin-2	uc002bjz.4	P82987	OTTHUMG00000147363	ENST00000286744.5:c.2069G>A	15.37:g.84592737G>A	ENSP00000286744:p.Arg690His	Somatic		WXS	Illumina HiSeq	Phase_I	A1A566|A1A567|Q9ULI7	Missense_Mutation	SNP	ENST00000286744.5	37	CCDS10326.1	.	.	.	.	.	.	.	.	.	.	G	18.39	3.614408	0.66672	.	.	ENSG00000156218	ENST00000286744	T	0.69040	-0.37	5.25	5.25	0.73442	.	0.071450	0.53938	D	0.000044	D	0.82453	0.5040	M	0.89478	3.035	0.39210	D	0.963298	D;D	0.89917	1.0;1.0	D;D	0.79108	0.992;0.945	D	0.85861	0.1410	10	0.72032	D	0.01	.	9.9604	0.41693	0.0927:0.0:0.9073:0.0	.	690;690	P82987-2;P82987	.;ATL3_HUMAN	H	690	ENSP00000286744:R690H	ENSP00000286744:R690H	R	+	2	0	ADAMTSL3	82383741	0.979000	0.34478	0.948000	0.38648	0.668000	0.39293	3.573000	0.53856	2.451000	0.82905	0.637000	0.83480	CGT		0.537	ADAMTSL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000304007.2	NM_207517		A	84592737	G	A	84592737	3	1	693	1	0	0	0	0	1	0	0	0	276	1145	40	1	2131	1	ADAMTSL3	15	84592737	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	22381103	84592737	17938655	110	45204										
C15orf32	145858	broad.mit.edu	37	chr15	93016234	93016234	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gtagctgatgtgtgtacagaTtgcaaattcaattgcggaag	12	5	1	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr15:93016234T>C	ENST00000333334.2	+	2	921	c.426T>C	c.(424-426)gaT>gaC	p.D142D	RP11-763K15.1_ENST00000554440.1_lincRNA|C15orf32_ENST00000556865.1_Silent_p.D142D	NM_153040.2	NP_694585.1	Q32M92	CO032_HUMAN	chromosome 15 open reading frame 32	142										endometrium(1)|large_intestine(2)|lung(5)|ovary(1)|prostate(1)|skin(2)	12	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0493)|OV - Ovarian serous cystadenocarcinoma(32;0.125)			TGTGTACAGATTGCAAATTCA	0.473																																																0													132	122	125					15																	93016234		2198	4298	6496	SO:0001819	synonymous_variant	145858				CCDS10373.1, CCDS73784.1	15q26.1	2014-09-10			ENSG00000183643	ENSG00000183643			26549	protein-coding gene	gene with protein product							Standard	NM_153040		Approved	FLJ32831	uc002brc.1	Q32M92	OTTHUMG00000149844	ENST00000333334.2:c.426T>C	15.37:g.93016234T>C		Somatic		WXS	Illumina HiSeq	Phase_I	C5HTZ8|Q96M45	Silent	SNP	ENST00000333334.2	37	CCDS10373.1																																																																																				0.473	C15orf32-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000313527.2	NM_153040		C	93016234	T	C	93016234	2	2	693	1	0	0	0	0	0	0	0	1	1792	1490	52	3		3	C15orf32	15	93016234	Silent	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	8423497	93016234	9515158	111	45205										
RPL3L	6123	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	1995508	1995508	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cggtgagctcaccatgaaggCcctcttctcttgggctgtct	11	13	4	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr16:1995508C>A	ENST00000268661.7	-	9	1253	c.1159G>T	c.(1159-1161)Gcc>Tcc	p.A387S	MSRB1_ENST00000361871.3_5'Flank|MSRB1_ENST00000399753.2_5'Flank|MSRB1_ENST00000564908.1_5'Flank	NM_005061.2	NP_005052.1	Q92901	RL3L_HUMAN	ribosomal protein L3-like	387					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|membrane (GO:0016020)|ribosome (GO:0005840)	RNA binding (GO:0003723)|structural constituent of ribosome (GO:0003735)			NS(1)|endometrium(5)|kidney(2)|large_intestine(2)|lung(5)|prostate(1)|upper_aerodigestive_tract(1)	17						ACCATGAAGGCCCTCTTCTCT	0.597																																																0													55	46	50					16																	1995508		2199	4300	6499	SO:0001583	missense	6123			U65581	CCDS10450.1	16p13.3	2008-02-05			ENSG00000140986	ENSG00000140986		"L ribosomal proteins"	10351	protein-coding gene	gene with protein product						8921388	Standard	NM_005061		Approved		uc002cnh.3	Q92901	OTTHUMG00000128685	ENST00000268661.7:c.1159G>T	16.37:g.1995508C>A	ENSP00000268661:p.Ala387Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000268661.7	37	CCDS10450.1	.	.	.	.	.	.	.	.	.	.	C	10.72	1.430672	0.25726	.	.	ENSG00000140986	ENST00000268661	T	0.32753	1.44	3.92	3.92	0.45320	.	0.259903	0.37178	N	0.002207	T	0.39384	0.1076	M	0.69248	2.105	0.50632	D	0.999888	P	0.44139	0.827	P	0.45856	0.495	T	0.40553	-0.9557	10	0.46703	T	0.11	-1.9802	15.4739	0.75461	0.0:1.0:0.0:0.0	.	387	Q92901	RL3L_HUMAN	S	387	ENSP00000268661:A387S	ENSP00000268661:A387S	A	-	1	0	RPL3L	1935509	1.000000	0.71417	0.999000	0.59377	0.185000	0.23345	4.700000	0.61803	2.185000	0.69588	0.563000	0.77884	GCC		0.597	RPL3L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250582.2	NM_005061		A	1995508	C	A	1995508	3	1	693	1	0	0	0	0	1	0	0	0	13607	739	26	4	72	4	RPL3L	16	1995508	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10		1995508	88359245	112	45206										
SCNN1B	6338	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	23360139	23360139	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tggggcatcttcatcaggacCtacttgagctgggaggtcag	14	9	4	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr16:23360139C>G	ENST00000343070.2	+	2	395	c.219C>G	c.(217-219)acC>acG	p.T73T	SCNN1B_ENST00000569789.1_3'UTR|SCNN1B_ENST00000307331.5_Silent_p.T118T|SCNN1B_ENST00000568923.1_Silent_p.T73T|SCNN1B_ENST00000568085.1_Silent_p.T73T	NM_000336.2	NP_000327.2	P51168	SCNNB_HUMAN	sodium channel, non-voltage-gated 1, beta subunit	73					excretion (GO:0007588)|ion transmembrane transport (GO:0034220)|multicellular organismal water homeostasis (GO:0050891)|response to stimulus (GO:0050896)|sensory perception of taste (GO:0050909)|sodium ion homeostasis (GO:0055078)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)	external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|sodium channel complex (GO:0034706)	ligand-gated sodium channel activity (GO:0015280)|WW domain binding (GO:0050699)			breast(2)|endometrium(3)|kidney(2)|large_intestine(5)|liver(2)|lung(8)|ovary(3)|pancreas(1)|prostate(3)|skin(1)|stomach(1)|urinary_tract(1)	32				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	TCATCAGGACCTACTTGAGCT	0.587																																																0													84	69	74					16																	23360139		2197	4300	6497	SO:0001819	synonymous_variant	6338			X87159	CCDS10609.1	16p12.2-p12.1	2012-02-28	2012-02-28		ENSG00000168447	ENSG00000168447		"Ion channels / Sodium channel, nonvoltage-gated", "Sodium channels"	10600	protein-coding gene	gene with protein product	"Liddle syndrome"	600760	"sodium channel, nonvoltage-gated 1, beta", "sodium channel, non-voltage-gated 1, beta"				Standard	NM_000336		Approved	ENaCbeta	uc002dln.3	P51168	OTTHUMG00000131608	ENST00000343070.2:c.219C>G	16.37:g.23360139C>G		Somatic		WXS	Illumina HiSeq	Phase_I	C5HTZ2|O60891|Q96KG2|Q9UJ32|Q9UMU5	Silent	SNP	ENST00000343070.2	37	CCDS10609.1																																																																																				0.587	SCNN1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254495.2			G	23360139	C	G	23360139	2	3	693	1	0	0	0	0	0	0	0	1	13941	668	24	4		4	SCNN1B	16	23360139	Silent	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	21364631	23360139	66994614	113	45207										
RBBP6	5930	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	24581493	24581493	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	aggcgtagataaagattttgAgtcttcttcaatgaaaatct	8	5	4	4			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr16:24581493A>T	ENST00000319715.4	+	17	3914	c.3482A>T	c.(3481-3483)gAg>gTg	p.E1161V	RBBP6_ENST00000381039.3_Intron|RBBP6_ENST00000348022.2_Missense_Mutation_p.E1127V	NM_006910.4	NP_008841.2	Q7Z6E9	RBBP6_HUMAN	retinoblastoma binding protein 6	1161					embryonic organ development (GO:0048568)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|somite development (GO:0061053)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)	ligase activity (GO:0016874)|poly(A) RNA binding (GO:0044822)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(10)|lung(17)|ovary(4)|pancreas(1)|prostate(2)|urinary_tract(1)	46				GBM - Glioblastoma multiforme(48;0.0518)		AAAGATTTTGAGTCTTCTTCA	0.348																																																0													56	63	61					16																	24581493		2197	4299	6496	SO:0001583	missense	5930				CCDS10621.1, CCDS10622.1, CCDS45444.1	16p12.2	2008-08-04	2001-11-28		ENSG00000122257	ENSG00000122257			9889	protein-coding gene	gene with protein product	"proliferation potential-related protein"	600938	"retinoblastoma-binding protein 6"			8595913, 16396680	Standard	NM_006910		Approved	P2P-R, PACT, SNAMA	uc002dmh.3	Q7Z6E9	OTTHUMG00000096991	ENST00000319715.4:c.3482A>T	16.37:g.24581493A>T	ENSP00000317872:p.Glu1161Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q147T5|Q15290|Q6DKH4|Q6P4C2|Q6YNC9|Q7Z6E8|Q8N0V2|Q96PH3|Q9H3I8|Q9H5M5|Q9NPX4	Missense_Mutation	SNP	ENST00000319715.4	37	CCDS10621.1	.	.	.	.	.	.	.	.	.	.	A	17.50	3.404459	0.62288	.	.	ENSG00000122257	ENST00000319715;ENST00000348022	T;T	0.18960	2.22;2.18	5.86	5.86	0.93980	.	0.091798	0.47093	D	0.000252	T	0.19805	0.0476	N	0.24115	0.695	0.37760	D	0.92627	B;B	0.34214	0.435;0.442	B;B	0.38755	0.281;0.146	T	0.10497	-1.0627	10	0.45353	T	0.12	-7.1997	16.2436	0.82429	1.0:0.0:0.0:0.0	.	1127;1161	Q7Z6E9-2;Q7Z6E9	.;RBBP6_HUMAN	V	1161;1127	ENSP00000317872:E1161V;ENSP00000316291:E1127V	ENSP00000317872:E1161V	E	+	2	0	RBBP6	24488994	1.000000	0.71417	0.976000	0.42696	0.991000	0.79684	5.840000	0.69402	2.232000	0.73038	0.533000	0.62120	GAG		0.348	RBBP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214067.2	NM_006910		T	24581493	A	T	24581493	3	4	693	1	0	0	0	0	1	0	0	0	13116	304	11	5	3602	5	RBBP6	16	24581493	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	1221354	24581493	65773260	114	45208										
MYLK3	91807	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	46781755	46781755	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gccctgtccaccgcagccacCatcctgaagagggcctccag	10	18	0	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr16:46781755C>A	ENST00000394809.4	-	1	466	c.351G>T	c.(349-351)atG>atT	p.M117I	MYLK3_ENST00000536476.1_Intron	NM_182493.2	NP_872299.2	Q32MK0	MYLK3_HUMAN	myosin light chain kinase 3	117					cardiac myofibril assembly (GO:0055003)|cellular response to interleukin-1 (GO:0071347)|positive regulation of sarcomere organization (GO:0060298)|protein phosphorylation (GO:0006468)|regulation of vascular permeability involved in acute inflammatory response (GO:0002528)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|cytosol (GO:0005829)	ATP binding (GO:0005524)|calmodulin-dependent protein kinase activity (GO:0004683)|myosin light chain kinase activity (GO:0004687)			central_nervous_system(2)|endometrium(1)|kidney(2)|large_intestine(7)|lung(11)|ovary(3)|prostate(3)|skin(5)|stomach(3)	37		all_cancers(37;0.00023)|all_epithelial(9;0.000543)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				CCGCAGCCACCATCCTGAAGA	0.657																																																0													45	40	42					16																	46781755		2203	4300	6503	SO:0001583	missense	91807			AJ247087	CCDS10723.2	16q11.2	2008-10-23			ENSG00000140795	ENSG00000140795			29826	protein-coding gene	gene with protein product	"MLC kinase"	612147				17885681	Standard	NM_182493		Approved	caMLCK, MLCK	uc002eei.4	Q32MK0	OTTHUMG00000132543	ENST00000394809.4:c.351G>T	16.37:g.46781755C>A	ENSP00000378288:p.Met117Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B5BUL9|B7Z5U8|Q32MK1|Q96DV1	Missense_Mutation	SNP	ENST00000394809.4	37	CCDS10723.2	.	.	.	.	.	.	.	.	.	.	C	14.42	2.530435	0.45073	.	.	ENSG00000140795	ENST00000394809	T	0.69435	-0.4	4.87	4.87	0.63330	.	0.000000	0.43260	D	0.000583	T	0.65101	0.2659	M	0.67953	2.075	0.80722	D	1	P	0.38922	0.651	B	0.33521	0.165	T	0.69942	-0.5008	10	0.46703	T	0.11	.	18.3666	0.90392	0.0:1.0:0.0:0.0	.	117	Q32MK0	MYLK3_HUMAN	I	117	ENSP00000378288:M117I	ENSP00000378288:M117I	M	-	3	0	MYLK3	45339256	1.000000	0.71417	1.000000	0.80357	0.273000	0.26683	2.195000	0.42677	2.394000	0.81467	0.491000	0.48974	ATG		0.657	MYLK3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255743.2	NM_182493		A	46781755	C	A	46781755	3	1	693	1	0	0	0	0	1	0	0	0	10065	594	21	4	2160	4	MYLK3	16	46781755	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	22200262	46781755	43572998	115	45209										
EDC4	23644	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	67910858	67910858	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tgctgtgtctaactccttctTggcctatgccattcggggtg	11	11	2	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr16:67910858T>G	ENST00000358933.5	+	4	673	c.434T>G	c.(433-435)tTg>tGg	p.L145W	AC040162.1_ENST00000408599.1_RNA|EDC4_ENST00000574770.1_3'UTR	NM_014329.4	NP_055144.3	Q6P2E9	EDC4_HUMAN	enhancer of mRNA decapping 4	145					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay (GO:0043928)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:0000288)|RNA metabolic process (GO:0016070)	cytoplasm (GO:0005737)|cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)				breast(3)|central_nervous_system(2)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(4)|lung(8)|ovary(4)|skin(2)|upper_aerodigestive_tract(4)|urinary_tract(2)	41		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		AACTCCTTCTTGGCCTATGCC	0.507																																																0													136	130	132					16																	67910858		2198	4300	6498	SO:0001583	missense	23644			U17474	CCDS10849.1	16q22.1	2008-02-05			ENSG00000038358	ENSG00000038358			17157	protein-coding gene	gene with protein product		606030				9067524	Standard	NM_014329		Approved	RCD-8, Ge-1, HEDLS	uc002eur.3	Q6P2E9	OTTHUMG00000137543	ENST00000358933.5:c.434T>G	16.37:g.67910858T>G	ENSP00000351811:p.Leu145Trp	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGM1|A8K4T4|Q13025|Q13826|Q6ZR12|Q7Z6H7	Missense_Mutation	SNP	ENST00000358933.5	37	CCDS10849.1	.	.	.	.	.	.	.	.	.	.	T	28.6	4.935710	0.92458	.	.	ENSG00000038358	ENST00000358933;ENST00000536072	T	0.42131	0.98	5.83	5.83	0.93111	WD40 repeat-like-containing domain (1);	0.081121	0.51477	D	0.000086	T	0.62901	0.2466	M	0.69823	2.125	0.58432	D	0.999996	D;D	0.71674	0.998;0.997	D;P	0.65140	0.932;0.903	T	0.66740	-0.5847	10	0.87932	D	0	-7.7554	15.8624	0.79035	0.0:0.0:0.0:1.0	.	77;145	B7Z7V8;Q6P2E9	.;EDC4_HUMAN	W	145;77	ENSP00000351811:L145W	ENSP00000351811:L145W	L	+	2	0	EDC4	66468359	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.997000	0.88414	2.235000	0.73313	0.533000	0.62120	TTG		0.507	EDC4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268874.2	NM_014329		G	67910858	T	G	67910858	3	3	693	1	0	0	0	0	1	0	0	0	4910	1821	63	5	448	5	EDC4	16	67910858	Missense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	21129103	67910858	22443895	116	45210										
AARS	16	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	70301662	70301662	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tgcacctcttcttcattaatGatgtccttcaccatgtctgg	6	12	5	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr16:70301662G>A	ENST00000261772.8	-	9	1265	c.1122C>T	c.(1120-1122)atC>atT	p.I374I	AARS_ENST00000564359.1_5'Flank	NM_001605.2	NP_001596.2			alanyl-tRNA synthetase											breast(3)|cervix(2)|endometrium(5)|large_intestine(7)|lung(7)|ovary(1)|pancreas(1)|prostate(1)	27		Ovarian(137;0.0365)		BRCA - Breast invasive adenocarcinoma(221;0.161)		CTTCATTAATGATGTCCTTCA	0.517											OREG0023913	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													150	133	138					16																	70301662		2198	4300	6498	SO:0001819	synonymous_variant	16			D32050	CCDS32474.1	16q22.1	2014-09-17			ENSG00000090861	ENSG00000090861	6.1.1.7	"Aminoacyl tRNA synthetases / Class II"	20	protein-coding gene	gene with protein product	"alanine tRNA ligase 1, cytoplasmic"	601065				8595897	Standard	NM_001605		Approved		uc002eyn.1	P49588	OTTHUMG00000177042	ENST00000261772.8:c.1122C>T	16.37:g.70301662G>A		Somatic	1121	WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000261772.8	37	CCDS32474.1																																																																																				0.517	AARS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000435021.2	NM_001605		A	70301662	G	A	70301662	2	1	693	1	0	0	0	0	0	0	0	1	19	1280	45	2		2	AARS	16	70301662	Silent	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	2390804	70301662	20053091	117	45211										
HYDIN	54768	bcgsc.ca	37	chr16	71127828	71127828	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ttgattcggaggggcagacgGatttctcggcctagaaaaac	13	8	1	3			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr16:71127828G>A	ENST00000393567.2	-	11	1488	c.1338C>T	c.(1336-1338)atC>atT	p.I446I	RP11-23E19.1_ENST00000563968.1_RNA|HYDIN_ENST00000288168.10_Silent_p.I463I|HYDIN_ENST00000448691.1_Silent_p.I446I|HYDIN_ENST00000393550.2_Silent_p.I446I|HYDIN_ENST00000541601.1_Silent_p.I463I|HYDIN_ENST00000448089.2_Silent_p.I446I|HYDIN_ENST00000321489.5_Silent_p.I446I|HYDIN_ENST00000538248.1_Silent_p.I473I	NM_001270974.1	NP_001257903.1	Q4G0P3	HYDIN_HUMAN	HYDIN, axonemal central pair apparatus protein	446					cilium assembly (GO:0042384)|cilium movement (GO:0003341)|epithelial cell development (GO:0002064)|trachea development (GO:0060438)|ventricular system development (GO:0021591)	cell projection (GO:0042995)				breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(17)|lung(12)|ovary(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)	43		Ovarian(137;0.0654)				GGGGCAGACGGATTTCTCGGC	0.408																																																0													58	58	58					16																	71127828		2198	4300	6498	SO:0001819	synonymous_variant	54768			AK074472	CCDS10897.1, CCDS56004.1, CCDS56005.1, CCDS59269.1	16q22.2	2014-02-05	2012-01-06		ENSG00000157423	ENSG00000157423		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	19368	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 31"	610812	"hydrocephalus inducing", "hydrocephalus inducing homolog (mouse)"			12719380, 23022101	Standard	NM_001198542		Approved	DKFZp434D0513, KIAA1864, PPP1R31, CILD5	uc031qwy.1	Q4G0P3	OTTHUMG00000137584	ENST00000393567.2:c.1338C>T	16.37:g.71127828G>A		Somatic		WXS	Illumina HiSeq	Phase_1	A6NC70|A6NLZ0|B4DQY4|B4DRN4|F5H6V3|Q8N3H8|Q8N3P6|Q8TC08|Q96JG3|Q96SS4|Q9H5U3|Q9H9B8|Q9NTI0|Q9UBE5	Silent	SNP	ENST00000393567.2	37	CCDS59269.1																																																																																				0.408	HYDIN-001	PUTATIVE	not_organism_supported|basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000398624.3			A	71127828	G	A	71127828	2	1	693	1	0	0	0	0	0	0	0	1	7474	1164	41	2		2	HYDIN	16	71127828	Silent	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	826166	71127828	19226925	118	45212										
USP10	9100	bcgsc.ca	37	chr16	84797744	84797744	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tcggtcaatgaagaagagcaGgaagaacaaggtgaaggaag	15	4	1	5			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr16:84797744G>A	ENST00000219473.7	+	10	1820	c.1707G>A	c.(1705-1707)caG>caA	p.Q569Q	USP10_ENST00000570191.1_Silent_p.Q573Q	NM_001272075.1|NM_005153.2	NP_001259004.1|NP_005144.2	Q14694	UBP10_HUMAN	ubiquitin specific peptidase 10	569	USP.				autophagy (GO:0006914)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA repair (GO:0006281)|protein deubiquitination (GO:0016579)|regulation of autophagy (GO:0010506)|ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|early endosome (GO:0005769)|intermediate filament cytoskeleton (GO:0045111)|nucleus (GO:0005634)	cysteine-type endopeptidase activity (GO:0004197)|ion channel binding (GO:0044325)|p53 binding (GO:0002039)|poly(A) RNA binding (GO:0044822)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)			endometrium(3)|kidney(1)|large_intestine(7)|lung(3)|prostate(1)|stomach(1)|urinary_tract(1)	17						AAGAAGAGCAGGAAGAACAAG	0.493																																																0													57	58	58					16																	84797744		1887	4097	5984	SO:0001819	synonymous_variant	9100			D80012	CCDS45537.1, CCDS62004.1	16q	2008-03-25	2005-08-08			ENSG00000103194		"Ubiquitin-specific peptidases"	12608	protein-coding gene	gene with protein product		609818	"ubiquitin specific protease 10"			12838346	Standard	NM_005153		Approved	UBPO, KIAA0190	uc002fii.3	Q14694		ENST00000219473.7:c.1707G>A	16.37:g.84797744G>A		Somatic		WXS	Illumina HiSeq	Phase_1	B2RDJ8|B4DS84|Q9BWG7|Q9NSL7	Silent	SNP	ENST00000219473.7	37	CCDS45537.1																																																																																				0.493	USP10-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000433660.1			A	84797744	G	A	84797744	2	1	693	1	0	0	0	0	0	0	0	1	17053	991	35	2		2	USP10	16	84797744	Silent	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	13669916	84797744	5557009	119	45213										
MYO15A	51168	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	18057182	18057182	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cttctacggctatcaggacgCcccctggaagatcttcctgc	9	15	3	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr17:18057182C>G	ENST00000205890.5	+	43	8398	c.8060C>G	c.(8059-8061)gCc>gGc	p.A2687G	MYO15A_ENST00000585180.1_5'Flank|MYO15A_ENST00000418233.3_5'UTR	NM_016239.3	NP_057323.3	Q9UKN7	MYO15_HUMAN	myosin XVA	2687	Tail.				inner ear morphogenesis (GO:0042472)|locomotory behavior (GO:0007626)|sensory perception of sound (GO:0007605)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|myosin complex (GO:0016459)|stereocilium (GO:0032420)	ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(5)|central_nervous_system(2)|endometrium(17)|kidney(3)|large_intestine(16)|lung(27)|ovary(3)|pancreas(1)|prostate(6)|skin(13)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	99	all_neural(463;0.228)					TATCAGGACGCCCCCTGGAAG	0.657																																																0													45	46	46					17																	18057182		1888	4114	6002	SO:0001583	missense	51168			AF144094	CCDS42271.1	17p11.2	2011-09-27			ENSG00000091536	ENSG00000091536		"Myosins / Myosin superfamily : Class XV"	7594	protein-coding gene	gene with protein product		602666		DFNB3, MYO15		9603736	Standard	NM_016239		Approved		uc021trl.1	Q9UKN7	OTTHUMG00000059390	ENST00000205890.5:c.8060C>G	17.37:g.18057182C>G	ENSP00000205890:p.Ala2687Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFC7	Missense_Mutation	SNP	ENST00000205890.5	37	CCDS42271.1	.	.	.	.	.	.	.	.	.	.	C	18.05	3.536404	0.65085	.	.	ENSG00000091536	ENST00000205890	D	0.88586	-2.4	5.07	2.79	0.32731	.	.	.	.	.	T	0.82263	0.4999	M	0.64997	1.995	0.80722	D	1	P	0.35433	0.501	B	0.27608	0.081	T	0.80400	-0.1398	9	0.87932	D	0	.	2.5033	0.04638	0.222:0.4596:0.0:0.3183	.	2687	Q9UKN7	MYO15_HUMAN	G	2687	ENSP00000205890:A2687G	ENSP00000205890:A2687G	A	+	2	0	MYO15A	17997907	1.000000	0.71417	0.800000	0.32199	0.904000	0.53231	2.694000	0.47035	1.107000	0.41642	0.563000	0.77884	GCC		0.657	MYO15A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132048.1	NM_016239		G	18057182	C	G	18057182	3	3	693	1	0	0	0	0	1	0	0	0	10070	739	26	4	8222	4	MYO15A	17	18057182	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10		18057182	63138028	120	45214										
KLHL11	55175	broad.mit.edu	37	chr17	40021223	40021223	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gcatctccacccgtcccgagCgggactcggaaaactggccc	11	17	1	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr17:40021223C>T	ENST00000319121.3	-	1	461	c.401G>A	c.(400-402)cGc>cAc	p.R134H	ACLY_ENST00000588779.1_5'Flank	NM_018143.1	NP_060613.1	Q9NVR0	KLH11_HUMAN	kelch-like family member 11	134	BTB. {ECO:0000255|PROSITE- ProRule:PRU00037}.									NS(2)|breast(2)|endometrium(1)|large_intestine(2)|lung(5)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	17		Breast(137;0.00156)				CCGTCCCGAGCGGGACTCGGA	0.692																																																0													27	29	28					17																	40021223		2201	4293	6494	SO:0001583	missense	55175				CCDS11411.1	17q21	2013-01-30	2013-01-30		ENSG00000178502	ENSG00000178502		"Kelch-like", "BTB/POZ domain containing"	19008	protein-coding gene	gene with protein product			"kelch-like 11 (Drosophila)"				Standard	NM_018143		Approved	FLJ10572	uc002hyf.1	Q9NVR0	OTTHUMG00000133506	ENST00000319121.3:c.401G>A	17.37:g.40021223C>T	ENSP00000314608:p.Arg134His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000319121.3	37	CCDS11411.1	.	.	.	.	.	.	.	.	.	.	c	29.2	4.988187	0.93106	.	.	ENSG00000178502	ENST00000319121	T	0.66638	-0.22	4.69	4.69	0.59074	BTB/POZ-like (2);BTB/POZ (1);BTB/POZ fold (2);	0.161290	0.42964	D	0.000627	T	0.61223	0.2330	L	0.36672	1.1	0.46437	D	0.999044	D	0.63046	0.992	B	0.43754	0.43	T	0.67562	-0.5639	10	0.56958	D	0.05	0.02	17.8294	0.88676	0.0:1.0:0.0:0.0	.	134	Q9NVR0	KLH11_HUMAN	H	134	ENSP00000314608:R134H	ENSP00000314608:R134H	R	-	2	0	KLHL11	37274749	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	5.550000	0.67268	2.437000	0.82529	0.645000	0.84053	CGC		0.692	KLHL11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257464.2	NM_018143		T	40021223	C	T	40021223	3	4	693	1	0	0	0	0	1	0	0	0	8374	768	27	1	1733	1	KLHL11	17	40021223	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	21964041	40021223	41173987	121	45215										
ITGA2B	3674	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr17	42449792	42449792	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ttccgcttgaagaagccgacCtgggggtacacgggggccaa	15	11	0	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr17:42449792C>T	ENST00000262407.5	-	30	3092		c.e30-1		ITGA2B_ENST00000353281.4_Splice_Site	NM_000419.3	NP_000410.2	P08514	ITA2B_HUMAN	integrin, alpha 2b (platelet glycoprotein IIb of IIb/IIIa complex, antigen CD41)						axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|cell-matrix adhesion (GO:0007160)|extracellular matrix organization (GO:0030198)|integrin-mediated signaling pathway (GO:0007229)|platelet activation (GO:0030168)|platelet aggregation (GO:0070527)|platelet degranulation (GO:0002576)|positive regulation of leukocyte migration (GO:0002687)	blood microparticle (GO:0072562)|cell surface (GO:0009986)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|integrin complex (GO:0008305)|plasma membrane (GO:0005886)|platelet alpha granule membrane (GO:0031092)	extracellular matrix binding (GO:0050840)|identical protein binding (GO:0042802)|metal ion binding (GO:0046872)			biliary_tract(1)|breast(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(7)|lung(8)|ovary(4)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	36		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Abciximab(DB00054)|Tirofiban(DB00775)	AGAAGCCGACCTGGGGGTACA	0.577																																																0													58	44	49					17																	42449792		2203	4300	6503	SO:0001630	splice_region_variant	3674				CCDS32665.1	17q21.32	2014-09-17	2006-02-22			ENSG00000005961		"CD molecules", "Integrins"	6138	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 93"	607759	"integrin, alpha 2b (platelet glycoprotein IIb of IIb/IIIa complex, antigen CD41B)"	GP2B			Standard	NM_000419		Approved	CD41B, CD41, PPP1R93	uc002igt.1	P08514		ENST00000262407.5:c.3061-1G>A	17.37:g.42449792C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RCY8|O95366|Q14443|Q17R67	Splice_Site	SNP	ENST00000262407.5	37	CCDS32665.1	.	.	.	.	.	.	.	.	.	.	C	17.11	3.306424	0.60305	.	.	ENSG00000005961	ENST00000262407;ENST00000353281	.	.	.	4.54	4.54	0.55810	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.8074	0.69968	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	ITGA2B	39805318	0.993000	0.37304	0.275000	0.24674	0.303000	0.27691	4.088000	0.57678	2.357000	0.79964	0.561000	0.74099	.		0.577	ITGA2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000439823.1		Intron	T	42449792	C	T	42449792	5	4	693	1	0	0	0	0	0	0	1	0	7883	695	24	2	63	2	ITGA2B	17	42449792	Splice_Site	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	2428569	42449792	38745418	122	45216										
C17orf104	284071	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	42744196	42744196	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tcttgaagcaccactacagcAaaaaagggcagagatgtttc	9	9	1	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr17:42744196A>T	ENST00000409122.2	+	5	1059	c.917A>T	c.(916-918)cAa>cTa	p.Q306L	C17orf104_ENST00000359945.3_Missense_Mutation_p.Q306L|C17orf104_ENST00000409464.1_Missense_Mutation_p.Q140L	NM_001145080.2	NP_001138552.2	A2RUB1	CQ104_HUMAN	chromosome 17 open reading frame 104	306										autonomic_ganglia(1)|breast(2)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(7)|ovary(2)|pancreas(1)|skin(1)	24						CCACTACAGCAAAAAAGGGCA	0.348																																																0													27	28	28					17																	42744196		2202	4298	6500	SO:0001583	missense	284071				CCDS45703.1, CCDS45703.2	17q21.31	2009-09-08			ENSG00000180336	ENSG00000180336			26670	protein-coding gene	gene with protein product							Standard	NM_001145080		Approved	FLJ35848	uc002iha.3	A2RUB1	OTTHUMG00000153039	ENST00000409122.2:c.917A>T	17.37:g.42744196A>T	ENSP00000386452:p.Gln306Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DXJ2|B5MD93|B9EGQ6|C4AM97|Q4G0Y1|Q8IVZ7|Q8NA45	Missense_Mutation	SNP	ENST00000409122.2	37	CCDS45703.2	.	.	.	.	.	.	.	.	.	.	A	1.742	-0.491410	0.04322	.	.	ENSG00000180336	ENST00000359945;ENST00000409122;ENST00000432494;ENST00000409464	T;T;T;T	0.35421	1.31;1.31;1.37;1.31	5.45	4.38	0.52667	.	0.063895	0.64402	D	0.000008	T	0.25975	0.0633	N	0.24115	0.695	0.24874	N	0.992265	B;B;B	0.31548	0.328;0.161;0.161	B;B;B	0.35413	0.202;0.202;0.202	T	0.19257	-1.0311	10	0.59425	D	0.04	-14.3041	8.5529	0.33462	0.8008:0.1303:0.0689:0.0	.	306;306;140	A2RUB1-5;A2RUB1;A2RUB1-1	.;CQ104_HUMAN;.	L	306;306;140;140	ENSP00000353028:Q306L;ENSP00000386452:Q306L;ENSP00000399809:Q140L;ENSP00000386586:Q140L	ENSP00000353028:Q306L	Q	+	2	0	C17orf104	40099722	1.000000	0.71417	0.998000	0.56505	0.014000	0.08584	4.646000	0.61411	1.017000	0.39495	-0.388000	0.06559	CAA		0.348	C17orf104-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329171.2	NM_001145080		T	42744196	A	T	42744196	3	4	693	1	0	0	0	0	1	0	0	0	1853	130	5	5	935	5	C17orf104	17	42744196	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	294404	42744196	38451014	123	45217										
SPAG9	9043	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	49067112	49067112	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gtaaagacatgctctgtgtaGacgccagtttgggagatgtc	13	7	1	3			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr17:49067112G>T	ENST00000262013.7	-	21	2947	c.2739C>A	c.(2737-2739)gtC>gtA	p.V913V	SPAG9_ENST00000505279.1_Silent_p.V903V|SPAG9_ENST00000357122.4_Silent_p.V899V|SPAG9_ENST00000510283.1_Silent_p.V756V	NM_001130528.2	NP_001124000.1	O60271	JIP4_HUMAN	sperm associated antigen 9	913					activation of JUN kinase activity (GO:0007257)|muscle cell differentiation (GO:0042692)|negative regulation of protein homodimerization activity (GO:0090074)|positive regulation of cell migration (GO:0030335)|positive regulation of muscle cell differentiation (GO:0051149)|positive regulation of neuron differentiation (GO:0045666)|protein homooligomerization (GO:0051260)|retrograde transport, endosome to Golgi (GO:0042147)|spermatogenesis (GO:0007283)|striated muscle cell differentiation (GO:0051146)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)				NS(1)|breast(3)|endometrium(3)|kidney(4)|large_intestine(8)|lung(14)|ovary(1)|prostate(1)|skin(1)|stomach(1)	37			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			GCTCTGTGTAGACGCCAGTTT	0.473																																																0													165	133	144					17																	49067112		2203	4300	6503	SO:0001819	synonymous_variant	9043			AB011088	CCDS11577.1, CCDS45740.1, CCDS58577.1, CCDS58578.1	17q21.33	2013-09-23			ENSG00000008294	ENSG00000008294			14524	protein-coding gene	gene with protein product	"sperm surface protein", "JNK/SAPK-associated protein", "JNK interacting protein", "sperm specific protein", "c-Jun NH2-terminal kinase-associated leucine zipper protein", "Max-binding protein", "JNK-associated leucine-zipper protein", "HLC-4 protein", "lung cancer oncogene 4", "proliferation-inducing gene 6", "cancer/testis antigen 89"	605430				9480848, 11106729	Standard	NM_003971		Approved	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89	uc002itc.3	O60271	OTTHUMG00000162316	ENST00000262013.7:c.2739C>A	17.37:g.49067112G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6H8U5|A8MSX0|B4DHH2|O60905|Q3KQU8|Q3MKM7|Q86WC7|Q86WC8|Q8IZX7|Q96II0|Q9H811	Silent	SNP	ENST00000262013.7	37	CCDS45740.1	.	.	.	.	.	.	.	.	.	.	G	9.197	1.027489	0.19512	.	.	ENSG00000008294	ENST00000513906	.	.	.	5.77	0.0229	0.14135	.	.	.	.	.	T	0.41627	0.1167	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.24548	-1.0157	4	.	.	.	-12.8707	1.4604	0.02394	0.2848:0.2293:0.3304:0.1555	.	.	.	.	Y	157	.	.	S	-	2	0	SPAG9	46422111	0.969000	0.33509	0.999000	0.59377	0.960000	0.62799	0.071000	0.14594	0.094000	0.17404	-1.467000	0.01014	TCT		0.473	SPAG9-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000368543.2	NM_003971		T	49067112	G	T	49067112	2	4	693	1	0	0	0	0	0	0	0	1	14998	929	33	4		4	SPAG9	17	49067112	Silent	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	6322916	49067112	32128098	124	45218										
C17orf95	124512	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	74729098	74729098	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cttccaggaattttggctgcCaaatgtggtgcagaagtaat	11	7	0	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr17:74729098C>A	ENST00000341249.6	+	3	455	c.123C>A	c.(121-123)gcC>gcA	p.A41A	METTL23_ENST00000590964.1_5'UTR|METTL23_ENST00000586752.1_5'UTR|METTL23_ENST00000586200.1_Intron|METTL23_ENST00000589977.1_Silent_p.A41A|METTL23_ENST00000591571.1_5'UTR|METTL23_ENST00000586738.1_Silent_p.A41A|METTL23_ENST00000588822.1_5'UTR|MFSD11_ENST00000586622.1_5'Flank|METTL23_ENST00000588783.1_Silent_p.A41A|RP11-318A15.7_ENST00000587459.1_Silent_p.A13A|METTL23_ENST00000588302.1_5'UTR	NM_001206984.1	NP_001193913.1	Q86XA0	MET23_HUMAN	methyltransferase like 23	41						cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)	methyltransferase activity (GO:0008168)			large_intestine(2)|lung(1)	3						TTTTGGCTGCCAAATGTGGTG	0.438																																																0													26	24	25					17																	74729098		1915	4132	6047	SO:0001819	synonymous_variant	124512				CCDS45787.1, CCDS59298.1	17q25.2	2011-03-03	2011-03-03	2011-03-03	ENSG00000181038	ENSG00000181038			26988	protein-coding gene	gene with protein product		615262	"chromosome 17 open reading frame 95"	C17orf95		12477932	Standard	NM_001080510		Approved	LOC124512	uc021udl.1	Q86XA0		ENST00000341249.6:c.123C>A	17.37:g.74729098C>A		Somatic		WXS	Illumina HiSeq	Phase_I	H9ZYJ0|K7EK32	Silent	SNP	ENST00000341249.6	37	CCDS45787.1																																																																																				0.438	METTL23-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451002.1	NM_001080510		A	74729098	C	A	74729098	2	1	693	1	0	0	0	0	0	0	0	1	1894	581	21	4		4	C17orf95	17	74729098	Silent	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	25661986	74729098	6466112	125	45219										
AATK	9625	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	79095314	79095314	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ggcctcctccgagggaagtgGggctccctcctgggatgggg	18	12	0	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr17:79095314G>T	ENST00000326724.4	-	11	2446	c.2422C>A	c.(2422-2424)Cca>Aca	p.P808T	AATK_ENST00000417379.1_Missense_Mutation_p.P705T	NM_001080395.2	NP_001073864.2	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	808	Pro-rich.				brain development (GO:0007420)|negative regulation of axon extension (GO:0030517)|neuron apoptotic process (GO:0051402)|peptidyl-tyrosine autophosphorylation (GO:0038083)|Rab protein signal transduction (GO:0032482)	axonal growth cone (GO:0044295)|endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)|recycling endosome (GO:0055037)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)|protein tyrosine kinase activity (GO:0004713)			endometrium(2)|kidney(2)|lung(8)|ovary(3)|prostate(1)|stomach(4)|upper_aerodigestive_tract(1)	21	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			GAGGGAAGTGGGGCTCCCTCC	0.701																																																0													16	21	19					17																	79095314		2062	4182	6244	SO:0001583	missense	9625			AB014541	CCDS45807.1, CCDS58607.1	17q25.3	2014-06-12			ENSG00000181409	ENSG00000181409			21	protein-coding gene	gene with protein product	"lemur tyrosine kinase 1", "protein phosphatase 1, regulatory subunit 77"	605276				9734811, 10083745	Standard	NM_001080395		Approved	AATYK, KIAA0641, LMTK1, LMR1, AATYK1, PPP1R77	uc010dia.3	Q6ZMQ8	OTTHUMG00000132717	ENST00000326724.4:c.2422C>A	17.37:g.79095314G>T	ENSP00000324196:p.Pro808Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O75136|Q6ZN31|Q86X28	Missense_Mutation	SNP	ENST00000326724.4	37	CCDS45807.1	.	.	.	.	.	.	.	.	.	.	G	7.050	0.564179	0.13498	.	.	ENSG00000181409	ENST00000326724;ENST00000374792	T;T	0.78246	-1.06;-1.16	4.36	2.21	0.28008	.	0.938651	0.08819	U	0.889000	T	0.66366	0.2782	L	0.43152	1.355	0.19575	N	0.999966	B	0.15141	0.012	B	0.09377	0.004	T	0.50276	-0.8847	10	0.22706	T	0.39	.	5.0003	0.14261	0.1085:0.0:0.552:0.3395	.	808	Q6ZMQ8	LMTK1_HUMAN	T	808;772	ENSP00000324196:P808T;ENSP00000363924:P772T	ENSP00000324196:P808T	P	-	1	0	AATK	76709909	0.000000	0.05858	0.647000	0.29507	0.154000	0.21943	0.726000	0.25984	0.801000	0.34066	0.561000	0.74099	CCA		0.701	AATK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256055.1	NM_004920		T	79095314	G	T	79095314	3	4	693	1	0	0	0	0	1	0	0	0	26	1232	43	4	1718	4	AATK	17	79095314	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	4366216	79095314	2099896	126	45220										
MALT1	10892	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr18	56400802	56400802	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tcttattggatatgtgtaggAaaaggtaagttttctaatct	9	3	3	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr18:56400802A>G	ENST00000348428.3	+	11	1654	c.1396A>G	c.(1396-1398)Aaa>Gaa	p.K466E	MALT1_ENST00000345724.3_Missense_Mutation_p.K455E|RP11-126O1.4_ENST00000588835.1_RNA	NM_006785.2|NM_173844.1	NP_006776.1|NP_776216.1	Q9UDY8	MALT1_HUMAN	mucosa associated lymphoid tissue lymphoma translocation gene 1	466	Caspase-like.				activation of NF-kappaB-inducing kinase activity (GO:0007250)|B-1 B cell differentiation (GO:0001923)|defense response (GO:0006952)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|negative regulation of apoptotic process (GO:0043066)|nuclear export (GO:0051168)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interleukin-2 production (GO:0032743)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of T cell activation (GO:0050870)|positive regulation of T cell cytokine production (GO:0002726)|protein oligomerization (GO:0051259)|protein ubiquitination (GO:0016567)|proteolysis (GO:0006508)|regulation of apoptotic process (GO:0042981)|regulation of T cell receptor signaling pathway (GO:0050856)|response to fungus (GO:0009620)|response to molecule of bacterial origin (GO:0002237)|T cell proliferation (GO:0042098)|T cell receptor signaling pathway (GO:0050852)	CBM complex (GO:0032449)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleolus (GO:0005730)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	cysteine-type endopeptidase activity (GO:0004197)|peptidase activity (GO:0008233)|protein self-association (GO:0043621)|signal transducer activity (GO:0004871)|ubiquitin-protein transferase activity (GO:0004842)			central_nervous_system(1)|large_intestine(7)|lung(1)|ovary(2)|skin(1)	12						TATGTGTAGGAAAAGGTAAGT	0.313			T	BIRC3	MALT																																		Dom	yes		18	18q21	10892	mucosa associated lymphoid tissue lymphoma translocation gene 1		L	0													59	66	64					18																	56400802		2203	4299	6502	SO:0001583	missense	10892				CCDS11967.1, CCDS11968.1	18q21	2013-01-11			ENSG00000172175	ENSG00000172175		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6819	protein-coding gene	gene with protein product	"paracaspase"	604860		MLT		10339464, 10406266, 10523859	Standard	NM_006785		Approved		uc002lhm.1	Q9UDY8	OTTHUMG00000132761	ENST00000348428.3:c.1396A>G	18.37:g.56400802A>G	ENSP00000319279:p.Lys466Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NTB7|Q9ULX4	Missense_Mutation	SNP	ENST00000348428.3	37	CCDS11967.1	.	.	.	.	.	.	.	.	.	.	A	25.1	4.599615	0.87055	.	.	ENSG00000172175	ENST00000348428;ENST00000345724	T;T	0.41400	1.0;1.0	5.52	5.52	0.82312	Peptidase C14, caspase catalytic (1);	0.000000	0.85682	D	0.000000	T	0.63390	0.2507	M	0.65975	2.015	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.997;0.998	T	0.66767	-0.5840	10	0.72032	D	0.01	.	15.304	0.73979	1.0:0.0:0.0:0.0	.	455;466	Q9UDY8-2;Q9UDY8	.;MALT1_HUMAN	E	466;455	ENSP00000319279:K466E;ENSP00000304161:K455E	ENSP00000304161:K455E	K	+	1	0	MALT1	54551782	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	7.153000	0.77428	2.106000	0.64143	0.528000	0.53228	AAA		0.313	MALT1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256132.2			G	56400802	A	G	56400802	3	3	693	1	0	0	0	0	1	0	0	0	9209	247	9	3	1438	3	MALT1	18	56400802	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10		56400802	21676446	127	45221										
CHAF1A	10036	broad.mit.edu	37	chr19	4433329	4433329	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	atgtgctggtacgtgcacccGcaggtgctacagagcttcca	12	12	0	1	rs368347266		TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr19:4433329G>A	ENST00000301280.5	+	13	2567	c.2466G>A	c.(2464-2466)ccG>ccA	p.P822P	CTB-50L17.5_ENST00000590159.1_RNA	NM_005483.2	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	822	Binds to p60.				cell cycle (GO:0007049)|chromatin assembly (GO:0031497)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|DNA replication-dependent nucleosome assembly (GO:0006335)|protein complex assembly (GO:0006461)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	CAF-1 complex (GO:0033186)|nuclear chromatin (GO:0000790)|protein complex (GO:0043234)	chromatin binding (GO:0003682)|chromo shadow domain binding (GO:0070087)|identical protein binding (GO:0042802)|unfolded protein binding (GO:0051082)			breast(1)|endometrium(4)|kidney(3)|large_intestine(5)|lung(6)|ovary(1)|pancreas(1)|prostate(2)|skin(3)|urinary_tract(1)	27		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		ACGTGCACCCGCAGGTGCTAC	0.617								Chromatin Structure																																								0								G		1,4405	2.1+/-5.4	0,1,2202	76	74	75		2466	-10.3	0.1	19		75	0,8600		0,0,4300	no	coding-synonymous	CHAF1A	NM_005483.2		0,1,6502	AA,AG,GG		0.0,0.0227,0.0077		822/957	4433329	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	10036			U20979	CCDS32875.1	19p13.3	2008-07-16				ENSG00000167670			1910	protein-coding gene	gene with protein product	"chromatin assembly factor I (150 kDa)"	601246				7600578	Standard	NM_005483		Approved	CAF1P150, CAF1B, CAF-1, CAF1, P150, MGC71229	uc002mal.3	Q13111		ENST00000301280.5:c.2466G>A	19.37:g.4433329G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6NXG5|Q7Z7K3|Q9UJY8	Silent	SNP	ENST00000301280.5	37	CCDS32875.1																																																																																				0.617	CHAF1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458310.2	NM_005483		A	4433329	G	A	4433329	2	1	693	1	0	0	0	0	0	0	0	1	3313	1074	38	1		1	CHAF1A	19	4433329	Silent	SNP	G	TCGA-MH-A561-01A-11D-A26P-10		4433329	54695654	128	45222										
SPC24	147841	broad.mit.edu	37	chr19	11259779	11259779	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	gaaaaggatataggaggctgGccttcagacgggtgtcctcc	14	9	1	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr19:11259779G>T	ENST00000592540.1	-	2	327	c.296C>A	c.(295-297)gCc>gAc	p.A99D		NM_182513.2	NP_872319.1	Q8NBT2	SPC24_HUMAN	SPC24, NDC80 kinetochore complex component	99	Interaction with the N-terminus of SPBC25.				mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)	cytosol (GO:0005829)|Ndc80 complex (GO:0031262)|nucleolus (GO:0005730)|nucleus (GO:0005634)				autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(1)|prostate(1)	5						TAGGAGGCTGGCCTTCAGACG	0.592																																																0													15	18	17					19																	11259779		1690	3413	5103	SO:0001583	missense	147841			AK075287	CCDS45974.1	19p13.2	2013-06-05	2013-06-05	2007-03-02		ENSG00000161888			26913	protein-coding gene	gene with protein product		609394	"spindle pole body component 24 homolog (S. cerevisiae)", "SPC24, NDC80 kinetochore complex component, homolog (S. cerevisiae)"	SPBC24			Standard	NM_182513		Approved	FLJ90806	uc002mql.2	Q8NBT2		ENST00000592540.1:c.296C>A	19.37:g.11259779G>T	ENSP00000465075:p.Ala99Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZZ7|C9JGC4	Missense_Mutation	SNP	ENST00000592540.1	37	CCDS45974.1	.	.	.	.	.	.	.	.	.	.	G	11.99	1.804761	0.31961	.	.	ENSG00000161888	ENST00000423327	.	.	.	4.2	1.97	0.26223	.	0.086068	0.47852	U	0.000206	T	0.62332	0.2419	M	0.64997	1.995	0.58432	D	0.999999	P	0.48998	0.918	P	0.51135	0.66	T	0.64377	-0.6422	9	0.72032	D	0.01	-0.9392	11.9287	0.52835	0.0:0.3382:0.6618:0.0	.	99	Q8NBT2	SPC24_HUMAN	D	99	.	ENSP00000397131:A99D	A	-	2	0	SPC24	11120779	0.995000	0.38212	0.982000	0.44146	0.032000	0.12392	3.051000	0.49885	0.239000	0.21243	-0.310000	0.09108	GCC		0.592	SPC24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453059.1	NM_182513		T	11259779	G	T	11259779	3	4	693	1	0	0	0	0	1	0	0	0	15033	1203	42	4	313	4	SPC24	19	11259779	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	6826450	11259779	47869204	129	45223										
SYDE1	85360	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	15220001	15220001	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	cacggggagcctacctgcaaAgcctggagcccagtagccgc	13	15	0	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr19:15220001A>T	ENST00000342784.2	+	2	254	c.223A>T	c.(223-225)Agc>Tgc	p.S75C	SYDE1_ENST00000600252.1_5'UTR|SYDE1_ENST00000600440.1_Intron	NM_033025.4	NP_149014.3	Q6ZW31	SYDE1_HUMAN	synapse defective 1, Rho GTPase, homolog 1 (C. elegans)	75	Pro-rich.				activation of Rho GTPase activity (GO:0032862)|positive regulation of synaptic transmission (GO:0050806)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)|synaptic vesicle docking involved in exocytosis (GO:0016081)|synaptonemal complex assembly (GO:0007130)	cerebellar mossy fiber (GO:0044300)|cytosol (GO:0005829)|synaptic membrane (GO:0097060)	Rho GTPase activator activity (GO:0005100)			endometrium(4)|kidney(1)|large_intestine(7)|lung(2)|ovary(1)|pancreas(1)|skin(1)	17						CTACCTGCAAAGCCTGGAGCC	0.706																																																0													13	13	13					19																	15220001		2148	4200	6348	SO:0001583	missense	85360			BC029926	CCDS12324.1, CCDS74299.1	19p13.12	2008-02-05				ENSG00000105137			25824	protein-coding gene	gene with protein product						12477932	Standard	XM_005260126		Approved	7h3, FLJ13511	uc002nah.1	Q6ZW31		ENST00000342784.2:c.223A>T	19.37:g.15220001A>T	ENSP00000341489:p.Ser75Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q7L2I8|Q8N6J2|Q9H8K4	Missense_Mutation	SNP	ENST00000342784.2	37	CCDS12324.1	.	.	.	.	.	.	.	.	.	.	A	20.2	3.951011	0.73787	.	.	ENSG00000105137	ENST00000342784	T	0.13778	2.56	4.32	4.32	0.51571	.	0.000000	0.85682	D	0.000000	T	0.26484	0.0647	L	0.47716	1.5	0.27009	N	0.964736	D	0.76494	0.999	D	0.80764	0.994	T	0.02781	-1.1111	10	0.87932	D	0	.	8.0008	0.30295	0.7926:0.2074:0.0:0.0	.	75	Q6ZW31	SYDE1_HUMAN	C	75	ENSP00000341489:S75C	ENSP00000341489:S75C	S	+	1	0	SYDE1	15081001	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	4.770000	0.62309	1.598000	0.50083	0.533000	0.62120	AGC		0.706	SYDE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465666.1	NM_033025		T	15220001	A	T	15220001	3	4	693	1	0	0	0	0	1	0	0	0	15447	72	3	5	229	5	SYDE1	19	15220001	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	3960222	15220001	43908982	130	45224										
PDCD5	9141	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	33077794	33077794	+	Frame_Shift_Del	DEL	A	A	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	aaggtttaatagaaatccttAaaaaagtaagccaacaaaca							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr19:33077794delA	ENST00000590247.2	+	5	483	c.289delA	c.(289-291)aaafs	p.K98fs	PDCD5_ENST00000592786.1_Stop_Codon_Del|PDCD5_ENST00000419343.3_3'UTR|PDCD5_ENST00000586035.1_Frame_Shift_Del_p.K60fs|PDCD5_ENST00000379316.3_Intron	NM_004708.3	NP_004699.1	O14737	PDCD5_HUMAN	programmed cell death 5	98					apoptotic process (GO:0006915)|positive regulation of apoptotic process (GO:0043065)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	DNA binding (GO:0003677)			breast(1)|large_intestine(2)|lung(1)|ovary(1)	5	Esophageal squamous(110;0.137)					AGAAATCCTTAAAAAAGTAAG	0.323																																																0													81	87	85					19																	33077794		2203	4300	6503	SO:0001589	frameshift_variant	9141			AF014955	CCDS12423.1	19q13.11	2012-10-15			ENSG00000105185	ENSG00000105185			8764	protein-coding gene	gene with protein product	"TFAR19 novel apoptosis-related", "TF1 cell apoptosis-related gene 19"	604583				9920759	Standard	NM_004708		Approved	TFAR19, MGC9294	uc002ntm.3	O14737	OTTHUMG00000180224	ENST00000590247.2:c.289delA	19.37:g.33077794delA	ENSP00000466214:p.Lys98fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DE64|Q53YC9|Q6IB70	Frame_Shift_Del	DEL	ENST00000590247.2	37	CCDS12423.1																																																																																				0.323	PDCD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450320.2	NM_004708		-	33077794	A	-	33077794	7	5	693	1	0	1	0	1	0	0	0	0	11629	363	13	0	307	0	PDCD5	19	33077794	Frame_Shift_Del	DEL	A	TCGA-MH-A561-01A-11D-A26P-10	17857793	33077794	26051189	131	45225										
ZNF792	126375	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	35450211	35450211	+	Frame_Shift_Del	DEL	T	T	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ttctgatagggttgtgtacgTtctgctgcacctgtttccgg							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr19:35450211delT	ENST00000404801.1	-	4	934	c.548delA	c.(547-549)aacfs	p.N183fs	ZNF792_ENST00000605484.1_Frame_Shift_Del_p.N116fs	NM_175872.4	NP_787068.3	Q3KQV3	ZN792_HUMAN	zinc finger protein 792	183					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			cervix(1)|endometrium(4)|kidney(1)|large_intestine(1)|lung(5)	12	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)			GTTGTGTACGTTCTGCTGCAC	0.542																																					GBM(1;7 183 21053 22581 22847)											0													256	248	251					19																	35450211		2203	4300	6503	SO:0001589	frameshift_variant	126375			AK095770	CCDS12440.2	19q13.11	2013-01-08			ENSG00000180884	ENSG00000180884		"Zinc fingers, C2H2-type", "-"	24751	protein-coding gene	gene with protein product						8889548	Standard	NM_175872		Approved	FLJ38451	uc002nxh.1	Q3KQV3	OTTHUMG00000150339	ENST00000404801.1:c.548delA	19.37:g.35450211delT	ENSP00000385099:p.Asn183fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4E333|Q495L1|Q495L3|Q8N932	Frame_Shift_Del	DEL	ENST00000404801.1	37	CCDS12440.2																																																																																				0.542	ZNF792-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317673.1	NM_175872		-	35450211	T	-	35450211	7	5	693	1	0	1	0	1	0	0	0	0	18176	1725	60	0	1354	0	ZNF792	19	35450211	Frame_Shift_Del	DEL	T	TCGA-MH-A561-01A-11D-A26P-10	2372417	35450211	23678772	132	45226										
ZNF256	10172	hgsc.bcm.edu;bcgsc.ca	37	chr19	58452565	58452565	+	Frame_Shift_Del	DEL	A	A	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tctccggtgtgacttctcctAtgtctaatgaggctggagct							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr19:58452565delA	ENST00000282308.3	-	3	1807	c.1611delT	c.(1609-1611)catfs	p.H537fs	ZNF256_ENST00000598928.1_3'UTR	NM_005773.2	NP_005764.2	Q9Y2P7	ZN256_HUMAN	zinc finger protein 256	537					multicellular organismal development (GO:0007275)|negative regulation of transcription, DNA-templated (GO:0045892)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(1)|kidney(3)|large_intestine(6)|lung(7)|skin(1)|upper_aerodigestive_tract(1)	19		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0155)		GACTTCTCCTATGTCTAATGA	0.468																																					NSCLC(55;1313 1552 8040 11996)											0													66	58	61					19																	58452565		2203	4300	6503	SO:0001589	frameshift_variant	10172			AF067165	CCDS12966.1	19q13	2013-01-08				ENSG00000152454		"Zinc fingers, C2H2-type", "-"	13049	protein-coding gene	gene with protein product		606956					Standard	NM_005773		Approved	BMZF-3	uc002qqu.3	Q9Y2P7		ENST00000282308.3:c.1611delT	19.37:g.58452565delA	ENSP00000282308:p.His537fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RA92|Q53Y85|Q9BV71	Frame_Shift_Del	DEL	ENST00000282308.3	37	CCDS12966.1																																																																																				0.468	ZNF256-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466702.1			-	58452565	A	-	58452565	7	5	693	1	0	1	0	1	0	0	0	0	17811	446	16	0	276	0	ZNF256	19	58452565	Frame_Shift_Del	DEL	A	TCGA-MH-A561-01A-11D-A26P-10	23002354	58452565	676418	133	45227										
PLTP	5360	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	44539886	44539886	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	agaaagcgcagcccctcctgCttcactgaagcagcagagaa	10	13	1	3			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr20:44539886C>T	ENST00000477313.1	-	2	699	c.105G>A	c.(103-105)aaG>aaA	p.K35K	PLTP_ENST00000372431.3_Silent_p.K35K|PLTP_ENST00000542937.1_Silent_p.K55K|PLTP_ENST00000354050.4_Silent_p.K35K|PLTP_ENST00000420868.2_Silent_p.K35K|PLTP_ENST00000372420.1_5'Flank			P55058	PLTP_HUMAN	phospholipid transfer protein	35					lipid metabolic process (GO:0006629)|lipid transport (GO:0006869)|sperm motility (GO:0030317)|vitamin E biosynthetic process (GO:0010189)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	lipid binding (GO:0008289)			endometrium(2)|kidney(2)|large_intestine(8)|lung(8)|ovary(1)	21		Myeloproliferative disorder(115;0.0122)				GCCCCTCCTGCTTCACTGAAG	0.602																																																0													70	71	71					20																	44539886		2203	4300	6503	SO:0001819	synonymous_variant	5360			L26232	CCDS13386.1, CCDS13387.1, CCDS56196.1, CCDS56197.1	20q13.12	2011-08-16			ENSG00000100979	ENSG00000100979		"BPI fold containing"	9093	protein-coding gene	gene with protein product	"BPI fold containing family E"	172425					Standard	NM_006227		Approved	BPIFE	uc002xqn.2	P55058	OTTHUMG00000033047	ENST00000477313.1:c.105G>A	20.37:g.44539886C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K006|B4DDD5|B4DRB4|E1P5N8|E7EV16|Q8WTT1|Q9BR07|Q9BSH8	Silent	SNP	ENST00000477313.1	37	CCDS13386.1																																																																																				0.602	PLTP-005	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354633.1	NM_006227		T	44539886	C	T	44539886	2	4	693	1	0	0	0	0	0	0	0	1	12121	796	28	2		2	PLTP	20	44539886	Silent	SNP	C	TCGA-MH-A561-01A-11D-A26P-10		44539886	18485634	134	45228										
ZNF831	128611	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	57782069	57782069	+	Frame_Shift_Del	DEL	A	A	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ctcccgcacttgagggactgAagccatgcaggacccctggg							TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr20:57782069delA	ENST00000371030.2	+	3	3985	c.3985delA	c.(3985-3987)aagfs	p.K1329fs		NM_178457.1	NP_848552.1	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1329							metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(15)|lung(71)|ovary(2)|pancreas(1)|prostate(4)|skin(16)|upper_aerodigestive_tract(2)|urinary_tract(3)	125	all_lung(29;0.0085)					TGAGGGACTGAAGCCATGCAG	0.577																																																0													68	73	71					20																	57782069		1968	4144	6112	SO:0001589	frameshift_variant	128611			AL121919	CCDS42894.1	20q13.32	2008-10-20	2008-03-25	2008-03-25	ENSG00000124203	ENSG00000124203			16167	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 174"	C20orf174			Standard	NM_178457		Approved	dJ492J12.1	uc002yan.3	Q5JPB2	OTTHUMG00000032864	ENST00000371030.2:c.3985delA	20.37:g.57782069delA	ENSP00000360069:p.Lys1329fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TDR4|Q8TCP0	Frame_Shift_Del	DEL	ENST00000371030.2	37	CCDS42894.1																																																																																				0.577	ZNF831-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000079916.2	NM_178457		-	57782069	A	-	57782069	7	5	693	1	0	1	0	1	0	0	0	0	18197	247	9	0	3995	0	ZNF831	20	57782069	Frame_Shift_Del	DEL	A	TCGA-MH-A561-01A-11D-A26P-10	13242183	57782069	5243451	135	45229										
C20orf11	54994	broad.mit.edu;bcgsc.ca	37	chr20	61574952	61574952	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	aggagagccgagagtgcctcAcagagatggagcgtaccctg	15	10	1	3			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr20:61574952A>G	ENST00000266069.3	+	4	568	c.421A>G	c.(421-423)Aca>Gca	p.T141A		NM_017896.2	NP_060366.1	Q9NWU2	GID8_HUMAN	GID complex subunit 8	141						cell junction (GO:0030054)|nucleus (GO:0005634)											AGAGTGCCTCACAGAGATGGA	0.642																																																0													58	48	51					20																	61574952		2203	4300	6503	SO:0001583	missense	54994			AK000609	CCDS13510.1	20q13.33	2013-07-31	2013-07-31	2012-07-20	ENSG00000101193	ENSG00000101193			15857	protein-coding gene	gene with protein product		611625	"chromosome 20 open reading frame 11", "GID complex subunit 8 homolog (S. cerevisiae)"	C20orf11		12559565	Standard	NM_017896		Approved	FLJ20602, bA305P22.1, TWA1	uc002ydy.3	Q9NWU2	OTTHUMG00000032949	ENST00000266069.3:c.421A>G	20.37:g.61574952A>G	ENSP00000266069:p.Thr141Ala	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5I3|Q8N5M5	Missense_Mutation	SNP	ENST00000266069.3	37	CCDS13510.1	.	.	.	.	.	.	.	.	.	.	A	6.461	0.453146	0.12283	.	.	ENSG00000101193	ENST00000266069	.	.	.	5.65	5.65	0.86999	Ran binding protein-like, CRA domain (1);Ran binding protein, CRA domain (1);	0.000000	0.85682	D	0.000000	T	0.40015	0.1100	N	0.10809	0.05	0.58432	D	0.999996	B	0.14012	0.009	B	0.16722	0.016	T	0.23332	-1.0191	9	0.22706	T	0.39	-29.1609	16.161	0.81712	1.0:0.0:0.0:0.0	.	141	Q9NWU2	CT011_HUMAN	A	141	.	ENSP00000266069:T141A	T	+	1	0	C20orf11	61045397	1.000000	0.71417	0.997000	0.53966	0.164000	0.22412	5.766000	0.68843	2.274000	0.75844	0.533000	0.62120	ACA		0.642	GID8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080097.2	NM_017896		G	61574952	A	G	61574952	3	3	693	1	0	0	0	0	1	0	0	0	2081	159	6	3	431	3	C20orf11	20	61574952	Missense_Mutation	SNP	A	TCGA-MH-A561-01A-11D-A26P-10	3792883	61574952	1450568	136	45230										
SAMSN1	64092	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	15889252	15889252	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ttgatgtactttttacccacTtttttcttcattgtccatga	4	9	2	2			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr21:15889252T>A	ENST00000400566.1	-	3	321	c.240A>T	c.(238-240)aaA>aaT	p.K80N	SAMSN1_ENST00000285670.2_Missense_Mutation_p.K148N|SAMSN1_ENST00000400564.1_Intron	NM_022136.4	NP_071419.3	Q9NSI8	SAMN1_HUMAN	SAM domain, SH3 domain and nuclear localization signals 1	80					negative regulation of adaptive immune response (GO:0002820)|negative regulation of B cell activation (GO:0050869)|negative regulation of peptidyl-tyrosine phosphorylation (GO:0050732)	cell projection (GO:0042995)|cytosol (GO:0005829)|nucleus (GO:0005634)	phosphotyrosine binding (GO:0001784)|poly(A) RNA binding (GO:0044822)			breast(2)|endometrium(1)|kidney(1)|large_intestine(3)|lung(9)|ovary(3)|pancreas(1)|prostate(3)|urinary_tract(1)	24				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)		TTTTACCCACTTTTTTCTTCA	0.328																																																0													124	109	114					21																	15889252		1797	4068	5865	SO:0001583	missense	64092			AF222927	CCDS42906.1, CCDS58786.1, CCDS74774.1	21q11	2013-01-10	2006-12-13		ENSG00000155307	ENSG00000155307		"SAM and SH3 domain containing", "Sterile alpha motif (SAM) domain containing"	10528	protein-coding gene	gene with protein product	"nuclear localization signals, SAM and SH3 domain containing 1", "SAM and SH3 domain containing 2", "hematopoietic adapter-containing SH3 and sterile &#945;-motif (SAM) domains 1", "Src homology domain 3 (SH3)-containing adapter protein SH3 lymphocyte protein 2"	607978				11536050, 11594764	Standard	NM_022136		Approved	NASH1, SASH2, SH3D6B, HACS1, SLy2	uc002yjv.1	Q9NSI8	OTTHUMG00000074317	ENST00000400566.1:c.240A>T	21.37:g.15889252T>A	ENSP00000383411:p.Lys80Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWJ3|F8WAA1|Q8NFF7|Q9C041	Missense_Mutation	SNP	ENST00000400566.1	37	CCDS42906.1	.	.	.	.	.	.	.	.	.	.	T	14.39	2.520541	0.44866	.	.	ENSG00000155307	ENST00000285670;ENST00000400566	T;T	0.57752	0.38;0.38	5.35	5.35	0.76521	.	0.100854	0.64402	D	0.000003	T	0.66076	0.2753	M	0.83953	2.67	0.43750	D	0.996253	D;D	0.56746	0.977;0.962	P;P	0.55923	0.787;0.688	T	0.71500	-0.4574	10	0.87932	D	0	-16.1663	7.6865	0.28544	0.0:0.1638:0.0:0.8362	.	148;80	F8WAA1;Q9NSI8	.;SAMN1_HUMAN	N	148;80	ENSP00000285670:K148N;ENSP00000383411:K80N	ENSP00000285670:K148N	K	-	3	2	SAMSN1	14811123	1.000000	0.71417	0.880000	0.34516	0.214000	0.24535	2.251000	0.43187	2.033000	0.60031	0.533000	0.62120	AAA		0.328	SAMSN1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000157914.1			A	15889252	T	A	15889252	3	1	693	1	0	0	0	0	1	0	0	0	13843	1606	56	5	905	5	SAMSN1	21	15889252	Missense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10		15889252	32240643	137	45231										
TRPM2	7226	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	45825794	45825794	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tgcccggcggccaggctcatCccggcgacgctgtaccccgg	14	18	1	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr21:45825794C>T	ENST00000397928.1	+	18	3109	c.2664C>T	c.(2662-2664)atC>atT	p.I888I	TRPM2_ENST00000397932.2_Silent_p.I888I|TRPM2_ENST00000300482.5_Silent_p.I888I|TRPM2_ENST00000498430.1_3'UTR|TRPM2_ENST00000300481.9_Silent_p.I868I	NM_003307.3	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel, subfamily M, member 2	888					calcium ion transmembrane transport (GO:0070588)|calcium ion transport (GO:0006816)|ion transmembrane transport (GO:0034220)|response to hydroperoxide (GO:0033194)|transmembrane transport (GO:0055085)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	ADP-ribose diphosphatase activity (GO:0047631)|calcium channel activity (GO:0005262)|manganese ion transmembrane transporter activity (GO:0005384)|sodium channel activity (GO:0005272)			breast(3)|central_nervous_system(2)|endometrium(4)|kidney(3)|large_intestine(15)|lung(29)|ovary(3)|pancreas(1)|prostate(5)|skin(7)|upper_aerodigestive_tract(3)|urinary_tract(1)	76						CCAGGCTCATCCCGGCGACGC	0.642																																																0													67	71	70					21																	45825794		2203	4297	6500	SO:0001819	synonymous_variant	7226			AB001535	CCDS13710.1	21q22.3	2011-12-14		2002-01-18	ENSG00000142185	ENSG00000142185		"Voltage-gated ion channels / Transient receptor potential cation channels", "Nudix motif containing"	12339	protein-coding gene	gene with protein product		603749		TRPC7		9806837, 11385575, 16382100	Standard	NR_038257		Approved	KNP3, LTRPC2, NUDT9L1, NUDT9H, EREG1	uc002zew.1	O94759	OTTHUMG00000040840	ENST00000397928.1:c.2664C>T	21.37:g.45825794C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DSL6|Q5KTC2|Q6J3P5|Q96KN6|Q96Q93	Silent	SNP	ENST00000397928.1	37	CCDS13710.1																																																																																				0.642	TRPM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098086.1	NM_003307		T	45825794	C	T	45825794	2	4	693	1	0	0	0	0	0	0	0	1	16598	845	30	2		2	TRPM2	21	45825794	Silent	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	29936542	45825794	2304101	138	45232										
ADORA2A	135	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	24836558	24836558	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ctcttctccccaggtacaatGgcttggtgaccggcacgagg	12	13	2	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr22:24836558G>T	ENST00000337539.7	+	3	799	c.340G>T	c.(340-342)Ggc>Tgc	p.G114C	ADORA2A-AS1_ENST00000326341.4_RNA|ADORA2A_ENST00000496497.1_3'UTR|SPECC1L-ADORA2A_ENST00000358654.2_3'UTR|ADORA2A-AS1_ENST00000543438.1_RNA|ADORA2A-AS1_ENST00000427813.2_RNA	NM_000675.4|NM_001278497.1|NM_001278498.1|NM_001278499.1|NM_001278500.1	NP_000666.2|NP_001265426.1|NP_001265427.1|NP_001265428.1|NP_001265429.1	P29274	AA2AR_HUMAN	adenosine A2a receptor	114					activation of adenylate cyclase activity (GO:0007190)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|apoptotic process (GO:0006915)|blood circulation (GO:0008015)|blood coagulation (GO:0007596)|cAMP biosynthetic process (GO:0006171)|cell-cell signaling (GO:0007267)|cellular defense response (GO:0006968)|central nervous system development (GO:0007417)|inflammatory response (GO:0006954)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phagocytosis (GO:0006909)|positive regulation of adenylate cyclase activity involved in G-protein coupled receptor signaling pathway (GO:0010579)|sensory perception (GO:0007600)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	enzyme binding (GO:0019899)|G-protein coupled adenosine receptor activity (GO:0001609)|identical protein binding (GO:0042802)			breast(1)|endometrium(2)|kidney(2)|large_intestine(7)|liver(1)|lung(7)|skin(1)	21	Colorectal(2;0.196)				Adenosine(DB00640)|Caffeine(DB00201)|Defibrotide(DB04932)|Dyphylline(DB00651)|Enprofylline(DB00824)|Mefloquine(DB00358)|Oxtriphylline(DB01303)|Pentoxifylline(DB00806)|Regadenoson(DB06213)|Theobromine(DB01412)|Theophylline(DB00277)	CAGGTACAATGGCTTGGTGAC	0.567																																																0													107	101	103					22																	24836558		2203	4300	6503	SO:0001583	missense	135			X68486	CCDS13826.1	22q11.23	2012-08-08			ENSG00000128271	ENSG00000128271		"GPCR / Class A : Adenosine receptors"	263	protein-coding gene	gene with protein product		102776		ADORA2		1662665, 2541503	Standard	NM_001278497		Approved	RDC8	uc002zzy.4	P29274	OTTHUMG00000150761	ENST00000337539.7:c.340G>T	22.37:g.24836558G>T	ENSP00000336630:p.Gly114Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7E0	Missense_Mutation	SNP	ENST00000337539.7	37	CCDS13826.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	15.71|15.71	2.914051|2.914051	0.52546|0.52546	.|.	.|.	ENSG00000128271|ENSG00000258555	ENST00000444262;ENST00000541988;ENST00000337539;ENST00000417596|ENST00000493440	T;T|.	0.20332|.	2.08;2.08|.	4.97|4.97	3.95|3.95	0.45737|0.45737	GPCR, rhodopsin-like superfamily (1);|.	0.205313|.	0.49305|.	D|.	0.000152|.	T|T	0.56217|0.56217	0.1970|0.1970	L|L	0.45470|0.45470	1.425|1.425	0.43814|0.43814	D|D	0.996375|0.996375	D|.	0.65815|.	0.995|.	P|.	0.62014|.	0.897|.	T|T	0.51872|0.51872	-0.8650|-0.8650	10|5	0.59425|.	D|.	0.04|.	-27.3119|-27.3119	9.0177|9.0177	0.36179|0.36179	0.1684:0.0:0.8316:0.0|0.1684:0.0:0.8316:0.0	.|.	114|.	P29274|.	AA2AR_HUMAN|.	C|I	114|46	ENSP00000414802:G114C;ENSP00000336630:G114C|.	ENSP00000336630:G114C|.	G|M	+|+	1|3	0|0	ADORA2A|KB-1896H10.1	23166558|23166558	1.000000|1.000000	0.71417|0.71417	0.999000|0.999000	0.59377|0.59377	0.973000|0.973000	0.67179|0.67179	3.477000|3.477000	0.53151|0.53151	1.213000|1.213000	0.43380|0.43380	0.563000|0.563000	0.77884|0.77884	GGC|ATG		0.567	ADORA2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319971.2	NM_000675		T	24836558	G	T	24836558	3	4	693	1	0	0	0	0	1	0	0	0	327	1348	47	4	346	4	ADORA2A	22	24836558	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10		24836558	26468008	139	45233										
CBX6	23466	broad.mit.edu;bcgsc.ca	37	chr22	39262330	39262330	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tgtgaccgtcaggaggttgcTggtgacatcggtgacgacca	15	9	1	3			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chr22:39262330T>G	ENST00000407418.3	-	5	1246	c.1123A>C	c.(1123-1125)Agc>Cgc	p.S375R	CBX6_ENST00000216083.6_Missense_Mutation_p.S357R			O95503	CBX6_HUMAN	chromobox homolog 6	375					chromatin modification (GO:0016568)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription, DNA-templated (GO:0006351)	heterochromatin (GO:0000792)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PcG protein complex (GO:0031519)	single-stranded RNA binding (GO:0003727)			large_intestine(1)|lung(3)|skin(1)|upper_aerodigestive_tract(1)	6	Melanoma(58;0.04)					AGGAGGTTGCTGGTGACATCG	0.657																																																0													56	57	57					22																	39262330		2203	4300	6503	SO:0001583	missense	23466				CCDS13980.1	22q13.1	2013-04-23			ENSG00000183741	ENSG00000183741			1556	protein-coding gene	gene with protein product							Standard	NM_014292		Approved		uc003awl.3	O95503	OTTHUMG00000150456	ENST00000407418.3:c.1123A>C	22.37:g.39262330T>G	ENSP00000384490:p.Ser375Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAH0|Q96EM5	Missense_Mutation	SNP	ENST00000407418.3	37	CCDS13980.1	.	.	.	.	.	.	.	.	.	.	T	18.12	3.554120	0.65425	.	.	ENSG00000183741	ENST00000407418;ENST00000216083	.	.	.	4.23	4.23	0.50019	.	0.240026	0.26899	N	0.021925	T	0.62588	0.2440	L	0.50333	1.59	0.40639	D	0.981929	D	0.59357	0.985	P	0.53360	0.724	T	0.68217	-0.5467	9	0.66056	D	0.02	.	13.4862	0.61366	0.0:0.0:0.0:1.0	.	375	O95503	CBX6_HUMAN	R	375;357	.	ENSP00000216083:S357R	S	-	1	0	CBX6	37592276	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	4.312000	0.59154	1.773000	0.52216	0.334000	0.21626	AGC		0.657	CBX6-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000318190.1	NM_014292		G	39262330	T	G	39262330	3	3	693	1	0	0	0	0	1	0	0	0	2724	1580	55	5	119	5	CBX6	22	39262330	Missense_Mutation	SNP	T	TCGA-MH-A561-01A-11D-A26P-10	14425772	39262330	12042236	140	45234										
FAM48B1	100130302	broad.mit.edu	37	chrX	24382371	24382373	+	IGR	DEL	TAT	TAT	-													0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ccattttctgctgctgctgcTattgctgctgctgctgctgc					rs371342199|rs35206911|rs2695489|rs201827126		TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	TAT	TAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chrX:24382371_24382373delTAT								AC004552.1 (15348 upstream) : PDK3 (100964 downstream)																							ctgctgctgctattgctgctgct	0.576																																																0										51,3098		12,21,6,1318,441						0.1	0		dbSNP_130	9	95,5572		7,39,42,2032,1469	no	coding	FAM48B1	NM_001136234.1		19,60,48,3350,1910	A1A1,A1R,A1,RR,R		1.6764,1.6196,1.6561				146,8670				SO:0001628	intergenic_variant	100130302																															X.37:g.24382371_24382373delTAT		Somatic		WXS	Illumina HiSeq	Phase_I		In_Frame_Del	DEL		37																																																																																				0	0.576									-	24382373	TAT	-	24382371	6	5	693	0	1	1	0	1	0	0	0	0	5580	1509	53	0		0	FAM48B1	23	24382371	IGR	DEL	TAT	TCGA-MH-A561-01A-11D-A26P-10		24382371	130888189	141	45235										
SMC1A	8243	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	53440302	53440302	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	tttcgcttgtcatactcctgCgccagctccccagaacgact	7	16	1	1			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chrX:53440302C>G	ENST00000322213.4	-	4	622	c.495G>C	c.(493-495)gcG>gcC	p.A165A	SMC1A_ENST00000375340.6_Intron	NM_006306.2	NP_006297.2	Q14683	SMC1A_HUMAN	structural maintenance of chromosomes 1A	165					DNA repair (GO:0006281)|gene expression (GO:0010467)|meiotic nuclear division (GO:0007126)|mitotic cell cycle (GO:0000278)|mitotic cell cycle checkpoint (GO:0007093)|mitotic sister chromatid cohesion (GO:0007064)|mitotic sister chromatid segregation (GO:0000070)|mitotic spindle organization (GO:0007052)|mRNA splicing, via spliceosome (GO:0000398)|negative regulation of DNA endoreduplication (GO:0032876)|response to radiation (GO:0009314)|RNA splicing (GO:0008380)|signal transduction in response to DNA damage (GO:0042770)|sister chromatid cohesion (GO:0007062)|stem cell maintenance (GO:0019827)	chromosome (GO:0005694)|chromosome, centromeric region (GO:0000775)|cohesin core heterodimer (GO:0008280)|condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinetochore (GO:0000776)|meiotic cohesin complex (GO:0030893)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|microtubule motor activity (GO:0003777)|poly(A) RNA binding (GO:0044822)|protein heterodimerization activity (GO:0046982)	p.A165A(1)		NS(1)|breast(3)|central_nervous_system(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(8)|ovary(5)|upper_aerodigestive_tract(2)	49						CATACTCCTGCGCCAGCTCCC	0.463																																																1	Substitution - coding silent(1)	lung(1)											138	124	129					X																	53440302		2203	4300	6503	SO:0001819	synonymous_variant	8243			S78271	CCDS14352.1, CCDS75985.1	Xp11.22-p11.21	2014-09-17	2006-07-06	2006-07-06	ENSG00000072501	ENSG00000072501		"Structural maintenance of chromosomes proteins"	11111	protein-coding gene	gene with protein product		300040	"SMC1 (structural maintenance of chromosomes 1, yeast)-like 1", "SMC1 structural maintenance of chromosomes 1-like 1 (yeast)"	SMC1L1		7757074	Standard	NM_006306		Approved	DXS423E, KIAA0178, SB1.8, Smcb	uc004dsg.3	Q14683	OTTHUMG00000021614	ENST00000322213.4:c.495G>C	X.37:g.53440302C>G		Somatic		WXS	Illumina HiSeq	Phase_I	O14995|Q16351|Q2M228	Silent	SNP	ENST00000322213.4	37	CCDS14352.1	.	.	.	.	.	.	.	.	.	.	C	5.699	0.313435	0.10789	.	.	ENSG00000072501	ENST00000428014	.	.	.	4.63	0.543	0.17179	.	.	.	.	.	T	0.41971	0.1182	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.20773	-1.0265	4	.	.	.	.	1.4228	0.02316	0.1701:0.1318:0.2791:0.419	.	.	.	.	P	170	.	.	R	-	2	0	SMC1A	53457027	0.002000	0.14202	0.996000	0.52242	0.942000	0.58702	-1.093000	0.03362	-0.226000	0.09899	-1.768000	0.00664	CGC		0.463	SMC1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056756.2	NM_006306		G	53440302	C	G	53440302	2	3	693	1	0	0	0	0	0	0	0	1	14794	755	27	4		4	SMC1A	23	53440302	Silent	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	29057931	53440302	101830258	142	45236										
LONRF3	79836	broad.mit.edu;bcgsc.ca	37	chrX	118151559	118151559	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	agttcttcccttggaaagccGagctcagctccccttcctag	8	15	2	0	rs143959775		TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chrX:118151559G>A	ENST00000371628.3	+	11	2217	c.2186G>A	c.(2185-2187)cGa>cAa	p.R729Q	LONRF3_ENST00000422289.2_Missense_Mutation_p.R473Q|LONRF3_ENST00000472173.1_3'UTR|LONRF3_ENST00000304778.7_Missense_Mutation_p.R688Q	NM_001031855.1	NP_001027026.1	Q496Y0	LONF3_HUMAN	LON peptidase N-terminal domain and ring finger 3	729	Lon.						ATP-dependent peptidase activity (GO:0004176)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(4)|lung(17)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	36						TTGGAAAGCCGAGCTCAGCTC	0.502																																																0								G	GLN/ARG,GLN/ARG	1,3834		0,1,1631,571	144	119	127		2186,2063	4.7	1	X	dbSNP_134	127	0,6728		0,0,2428,1872	no	missense,missense	LONRF3	NM_001031855.1,NM_024778.4	43,43	0,1,4059,2443	AA,AG,GG,G		0.0,0.0261,0.0095	probably-damaging,probably-damaging	729/760,688/719	118151559	1,10562	2203	4300	6503	SO:0001583	missense	79836			AK026265	CCDS14575.1, CCDS35374.1, CCDS76014.1	Xq24	2013-01-09	2005-08-19	2005-08-19	ENSG00000175556	ENSG00000175556		"RING-type (C3HC4) zinc fingers"	21152	protein-coding gene	gene with protein product			"ring finger protein 127"	RNF127			Standard	XM_005262476		Approved	FLJ22612	uc004eqw.3	Q496Y0	OTTHUMG00000022262	ENST00000371628.3:c.2186G>A	X.37:g.118151559G>A	ENSP00000360690:p.Arg729Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JPN6|Q8NB00|Q9H647	Missense_Mutation	SNP	ENST00000371628.3	37	CCDS35374.1	.	.	.	.	.	.	.	.	.	.	G	25.7	4.661769	0.88154	2.61E-4	0.0	ENSG00000175556	ENST00000365713;ENST00000304778;ENST00000371628;ENST00000422289	T;T;T;T	0.41758	0.99;0.99;0.99;0.99	5.56	4.69	0.59074	Peptidase S16, lon N-terminal (1);PUA-like domain (1);	0.000000	0.64402	D	0.000001	T	0.46444	0.1393	N	0.20766	0.605	0.35057	D	0.761236	D;P;D	0.89917	1.0;0.879;1.0	D;B;D	0.77004	0.971;0.358;0.989	T	0.53279	-0.8461	10	0.28530	T	0.3	-65.9818	13.0438	0.58915	0.0806:0.0:0.9194:0.0	.	473;688;729	B3KUN7;Q496Y0-2;Q496Y0	.;.;LONF3_HUMAN	Q	688;688;729;473	ENSP00000360691:R688Q;ENSP00000307732:R688Q;ENSP00000360690:R729Q;ENSP00000408894:R473Q	ENSP00000307732:R688Q	R	+	2	0	LONRF3	118035587	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.352000	0.66028	2.360000	0.80028	0.592000	0.82586	CGA		0.502	LONRF3-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355124.2	NM_024778		A	118151559	G	A	118151559	3	1	693	1	0	0	0	0	1	0	0	0	8903	1058	37	1	2228	1	LONRF3	23	118151559	Missense_Mutation	SNP	G	TCGA-MH-A561-01A-11D-A26P-10	64711257	118151559	37119001	143	45237										
UPF3B	65109	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	118985467	118985467	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.049645390070922	7	1	0.962936288088643	1.14635272391505	0.905015308353987	0.34984520123839	1	0	ccaggactcacctttattgtCaaggaatacataaccatcaa	5	11	3	0			TCGA-MH-A561-01A-11D-A26P-10	TCGA-MH-A561-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2e8ad1cd-d5d5-4bb4-8bbd-e9bef45088da	ebf9ee83-790d-43a8-ae04-e32e2f61bfa6	g.chrX:118985467C>G	ENST00000276201.2	-	3	430	c.361G>C	c.(361-363)Gac>Cac	p.D121H	UPF3B_ENST00000345865.2_Missense_Mutation_p.D121H	NM_080632.2	NP_542199.1	Q9BZI7	REN3B_HUMAN	UPF3 regulator of nonsense transcripts homolog B (yeast)	121	Necessary for interaction with UPF2.|Sufficient for association with EJC core.				gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA export from nucleus (GO:0006406)|mRNA metabolic process (GO:0016071)|mRNA splicing, via spliceosome (GO:0000398)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|positive regulation of translation (GO:0045727)|RNA metabolic process (GO:0016070)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|exon-exon junction complex (GO:0035145)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	mRNA binding (GO:0003729)|nucleocytoplasmic transporter activity (GO:0005487)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			breast(3)|endometrium(4)|kidney(1)|large_intestine(7)|lung(12)|ovary(2)|prostate(1)	30						CCTTTATTGTCAAGGAATACA	0.363																																																0													104	86	92					X																	118985467		2203	4300	6503	SO:0001583	missense	65109			AF318576	CCDS14587.1, CCDS14588.1	Xq25-q26	2014-01-31			ENSG00000125351	ENSG00000125351			20439	protein-coding gene	gene with protein product		300298	"mental retardation, X-linked 62"	MRX62		11113196, 11163187, 19238151	Standard	NM_023010		Approved	RENT3B, UPF3X, HUPF3B	uc004erz.2	Q9BZI7	OTTHUMG00000022282	ENST00000276201.2:c.361G>C	X.37:g.118985467C>G	ENSP00000276201:p.Asp121His	Somatic		WXS	Illumina HiSeq	Phase_I	D3DWI3|D3DWI4|Q0VAK8|Q9H1J0	Missense_Mutation	SNP	ENST00000276201.2	37	CCDS14588.1	.	.	.	.	.	.	.	.	.	.	C	20.7	4.031576	0.75504	.	.	ENSG00000125351	ENST00000276201;ENST00000345865;ENST00000439808	T;T	0.74526	-0.85;-0.85	5.1	5.1	0.69264	Regulator of nonsense-mediated decay, UPF3 (1);Nucleotide-binding, alpha-beta plait (1);	0.000000	0.85682	D	0.000000	D	0.90246	0.6950	H	0.95079	3.62	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	D	0.93290	0.6667	10	0.87932	D	0	.	16.142	0.81534	0.0:1.0:0.0:0.0	.	121;121	Q9BZI7-2;Q9BZI7	.;REN3B_HUMAN	H	121	ENSP00000276201:D121H;ENSP00000245418:D121H	ENSP00000276201:D121H	D	-	1	0	UPF3B	118869495	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.226000	0.78060	2.111000	0.64477	0.600000	0.82982	GAC		0.363	UPF3B-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000058068.1			G	118985467	C	G	118985467	3	3	693	1	0	0	0	0	1	0	0	0	17018	826	29	4	1126	4	UPF3B	23	118985467	Missense_Mutation	SNP	C	TCGA-MH-A561-01A-11D-A26P-10	833908	118985467	36285093	144	45238										
ZMPSTE24	10269	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	40724033	40724033	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ctgctcttttcctggacagtGtatctttgggagaccttcct	9	11	2	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr1:40724033G>C	ENST00000372759.3	+	1	255	c.90G>C	c.(88-90)gtG>gtC	p.V30V	ZMPSTE24_ENST00000479131.1_3'UTR|RP1-39G22.7_ENST00000567508.1_RNA	NM_005857.4	NP_005848.2	O75844	FACE1_HUMAN	zinc metallopeptidase STE24	30					CAAX-box protein processing (GO:0071586)|nuclear envelope organization (GO:0006998)|prenylated protein catabolic process (GO:0030327)|proteolysis (GO:0006508)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)	metal ion binding (GO:0046872)|metalloendopeptidase activity (GO:0004222)|metalloexopeptidase activity (GO:0008235)			endometrium(3)|kidney(3)|large_intestine(4)|lung(4)|prostate(1)|skin(1)	16	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;6.3e-18)			CCTGGACAGTGTATCTTTGGG	0.622																																																0													121	104	109					1																	40724033		2203	4300	6503	SO:0001819	synonymous_variant	10269			Y13834	CCDS449.1	1p34	2014-09-17	2012-12-10		ENSG00000084073	ENSG00000084073	3.4.24.84		12877	protein-coding gene	gene with protein product	"Hutchinson-Gilford progeria syndrome", "CAAX prenyl protease 1 homolog"	606480	"zinc metalloproteinase (STE24 homolog, yeast)", "zinc metallopeptidase (STE24 homolog, yeast)", "zinc metallopeptidase STE24 homolog (S. cerevisiae)"			10373325, 9700155, 16671095	Standard	NM_005857		Approved	FACE-1, Ste24p, STE24, HGPS, PRO1	uc001cfg.4	O75844	OTTHUMG00000005762	ENST00000372759.3:c.90G>C	1.37:g.40724033G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KQI7|D3DPU7|Q8NDZ8|Q9UBQ2	Silent	SNP	ENST00000372759.3	37	CCDS449.1																																																																																				0.622	ZMPSTE24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000015766.1			C	40724033	G	C	40724033	2	2	694	1	0	0	0	0	0	0	0	1	17710	1364	48	4		4	ZMPSTE24	1	40724033	Silent	SNP	G	TCGA-MH-A562-01A-11D-A26P-10		40724033	208526588	1	45239										
GSTM4	2948	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr1	110201466	110201466	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	agccagaatacttggaggaaCttcctacaatgatgcagcac	9	10	0	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr1:110201466C>A	ENST00000369836.4	+	6	700	c.391C>A	c.(391-393)Ctt>Att	p.L131I	GSTM4_ENST00000495742.1_3'UTR|GSTM4_ENST00000369833.1_Missense_Mutation_p.L90I|GSTM4_ENST00000326729.5_Missense_Mutation_p.L131I|GSTM4_ENST00000336075.5_Missense_Mutation_p.L70I	NM_000850.4	NP_000841.1	Q03013	GSTM4_HUMAN	glutathione S-transferase mu 4	131	GST C-terminal.				glutathione derivative biosynthetic process (GO:1901687)|glutathione metabolic process (GO:0006749)|small molecule metabolic process (GO:0044281)|xenobiotic catabolic process (GO:0042178)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|cytosol (GO:0005829)	enzyme binding (GO:0019899)|glutathione binding (GO:0043295)|glutathione transferase activity (GO:0004364)|protein homodimerization activity (GO:0042803)			endometrium(3)|large_intestine(2)|lung(5)|skin(1)|upper_aerodigestive_tract(1)	12		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		all cancers(265;0.0123)|Colorectal(144;0.0129)|Epithelial(280;0.0147)|Lung(183;0.0422)|COAD - Colon adenocarcinoma(174;0.0471)|LUSC - Lung squamous cell carcinoma(189;0.227)	Glutathione(DB00143)	CTTGGAGGAACTTCCTACAAT	0.517																																																0													164	158	160					1																	110201466		2203	4300	6503	SO:0001583	missense	2948			M96234	CCDS806.1, CCDS807.1	1p13.3	2012-06-22	2008-11-26		ENSG00000168765	ENSG00000168765	2.5.1.18	"Glutathione S-transferases / Soluble"	4636	protein-coding gene	gene with protein product		138333	"glutathione S-transferase M4"			8276420	Standard	NM_000850		Approved		uc001dyf.3	Q03013	OTTHUMG00000011642	ENST00000369836.4:c.391C>A	1.37:g.110201466C>A	ENSP00000358851:p.Leu131Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K765|Q05465|Q32NC1|Q4JNT8|Q6FH87	Missense_Mutation	SNP	ENST00000369836.4	37	CCDS807.1	.	.	.	.	.	.	.	.	.	.	C	15.16	2.750271	0.49257	.	.	ENSG00000168765	ENST00000369836;ENST00000336075;ENST00000326729;ENST00000369833	T;T;T;T	0.04603	3.59;4.46;3.59;3.59	4.0	-0.554	0.11811	Glutathione S-transferase, C-terminal-like (2);Glutathione S-transferase/chloride channel, C-terminal (1);Glutathione S-transferase, C-terminal (1);	0.201178	0.32473	N	0.006046	T	0.01940	0.0061	L	0.41961	1.31	0.38907	D	0.957449	B;B;B	0.17852	0.024;0.007;0.0	B;B;B	0.23716	0.035;0.048;0.009	T	0.40346	-0.9568	10	0.44086	T	0.13	-16.1138	11.7266	0.51712	0.6127:0.3873:0.0:0.0	.	70;131;131	Q4JNT8;Q03013-2;Q03013	.;.;GSTM4_HUMAN	I	131;70;131;90	ENSP00000358851:L131I;ENSP00000336744:L70I;ENSP00000316471:L131I;ENSP00000358848:L90I	ENSP00000316471:L131I	L	+	1	0	GSTM4	110002989	0.010000	0.17322	0.005000	0.12908	0.847000	0.48162	0.193000	0.17116	-0.165000	0.10908	-0.901000	0.02856	CTT		0.517	GSTM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032187.1	NM_000850		A	110201466	C	A	110201466	3	1	694	1	0	0	0	0	1	0	0	0	6847	565	20	4	413	4	GSTM4	1	110201466	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	69477433	110201466	139049155	2	45240										
IGSF3	3321	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	117120184	117120184	+	Splice_Site	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tgatggactggagggtgggaCctgaaaagaatcatgagaga	16	4	1	5			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr1:117120184C>G	ENST00000369486.3	-	11	4100	c.3335G>C	c.(3334-3336)aGt>aCt	p.S1112T	IGSF3_ENST00000369483.1_Splice_Site_p.S1132T|IGSF3_ENST00000318837.6_Splice_Site_p.S1132T	NM_001007237.1	NP_001007238.1	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3	1112					lacrimal gland development (GO:0032808)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)				NS(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|liver(1)|lung(31)|ovary(4)|prostate(1)|skin(4)|upper_aerodigestive_tract(2)	62	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		GAGGGTGGGACCTGAAAAGAA	0.493																																																0													98	102	101					1																	117120184		2203	4300	6503	SO:0001630	splice_region_variant	3321			AF031174	CCDS30813.1, CCDS30814.1	1p13	2013-01-29			ENSG00000143061	ENSG00000143061		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	5950	protein-coding gene	gene with protein product		603491				9790749	Standard	NM_001007237		Approved	V8, EWI-3, MGC117164	uc031pnr.1	O75054	OTTHUMG00000022751	ENST00000369486.3:c.3335-1G>C	1.37:g.117120184C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NJZ6|A6NMC7	Missense_Mutation	SNP	ENST00000369486.3	37	CCDS30813.1	.	.	.	.	.	.	.	.	.	.	C	7.587	0.670001	0.14776	.	.	ENSG00000143061	ENST00000369486;ENST00000369483;ENST00000318837	T;T;T	0.02890	4.12;4.13;4.13	4.88	4.88	0.63580	.	0.310318	0.31199	N	0.008076	T	0.00695	0.0023	N	0.08118	0	0.32760	N	0.505191	B;B	0.24368	0.084;0.102	B;B	0.22386	0.028;0.039	T	0.52845	-0.8521	10	0.31617	T	0.26	.	9.0162	0.36170	0.0:0.9027:0.0:0.0973	.	1112;1132	O75054;A6NJZ6	IGSF3_HUMAN;.	T	1112;1132;1132	ENSP00000358498:S1112T;ENSP00000358495:S1132T;ENSP00000321184:S1132T	ENSP00000321184:S1132T	S	-	2	0	IGSF3	116921707	0.997000	0.39634	1.000000	0.80357	0.699000	0.40488	3.210000	0.51129	2.536000	0.85505	0.655000	0.94253	AGT		0.493	IGSF3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000059040.1	NM_001542	Missense_Mutation	G	117120184	C	G	117120184	5	3	694	1	0	0	0	0	0	0	1	0	7608	521	18	4	253	4	IGSF3	1	117120184	Splice_Site	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	6918718	117120184	132130437	3	45241										
PBXIP1	57326	broad.mit.edu	37	chr1	154920116	154920116	+	Splice_Site	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ctctggagacattcacacatAcctgcctgtcccccacagct	6	17	2	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr1:154920116A>C	ENST00000368463.3	-	8	810		c.e8+1		PBXIP1_ENST00000368465.1_Splice_Site|PBXIP1_ENST00000542459.1_Splice_Site|PBXIP1_ENST00000539880.1_Splice_Site|PBXIP1_ENST00000368460.3_Splice_Site|PBXIP1_ENST00000498553.1_Splice_Site	NM_020524.2	NP_065385.2	Q96AQ6	PBIP1_HUMAN	pre-B-cell leukemia homeobox interacting protein 1						cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|negative regulation of transcription, DNA-templated (GO:0045892)	cytosol (GO:0005829)|microtubule (GO:0005874)|nucleus (GO:0005634)	transcription corepressor activity (GO:0003714)			breast(1)|kidney(2)|large_intestine(6)|lung(13)|prostate(1)|urinary_tract(1)	24	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			ATTCACACATACCTGCCTGTC	0.622																																																0													70	78	76					1																	154920116		2203	4300	6503	SO:0001630	splice_region_variant	57326			AF221521	CCDS1074.1	1q22	2008-02-05	2007-01-30		ENSG00000163346	ENSG00000163346			21199	protein-coding gene	gene with protein product			"pre-B-cell leukemia transcription factor interacting protein 1"			7505766, 10825160	Standard	NM_020524		Approved	HPIP	uc001ffr.3	Q96AQ6	OTTHUMG00000037369	ENST00000368463.3:c.738+1T>G	1.37:g.154920116A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T174|Q5T176|Q9H8X6|Q9HA02|Q9HD85	Splice_Site	SNP	ENST00000368463.3	37	CCDS1074.1	.	.	.	.	.	.	.	.	.	.	A	13.68	2.309902	0.40895	.	.	ENSG00000163346	ENST00000368465;ENST00000368463;ENST00000351146;ENST00000539880;ENST00000543593;ENST00000542459;ENST00000368460	.	.	.	4.25	1.91	0.25777	.	.	.	.	.	.	.	.	.	.	.	0.42929	D	0.994319	.	.	.	.	.	.	.	.	.	.	.	.	.	.	6.461	0.21956	0.7777:0.0:0.2223:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	PBXIP1	153186740	0.722000	0.28017	0.336000	0.25522	0.408000	0.30992	1.419000	0.34793	0.205000	0.20568	0.260000	0.18958	.		0.622	PBXIP1-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090943.1	NM_020524	Intron	C	154920116	A	C	154920116	5	2	694	1	0	0	0	0	0	0	1	0	11503	405	14	5	1471	5	PBXIP1	1	154920116	Splice_Site	SNP	A	TCGA-MH-A562-01A-11D-A26P-10	37799932	154920116	94330505	4	45242										
INSRR	3645	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	156824054	156824054	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gctgcagttctccagctgacGaagctctgccacctctgagc	10	15	3	2	rs140386495		TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr1:156824054G>A	ENST00000368195.3	-	2	523	c.127C>T	c.(127-129)Cgt>Tgt	p.R43C	NTRK1_ENST00000392302.2_Intron	NM_014215.2	NP_055030.1	P14616	INSRR_HUMAN	insulin receptor-related receptor	43					actin cytoskeleton reorganization (GO:0031532)|cellular response to alkaline pH (GO:0071469)|male sex determination (GO:0030238)|peptidyl-tyrosine phosphorylation (GO:0018108)|protein autophosphorylation (GO:0046777)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(13)|ovary(7)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)	42	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TCCAGCTGACGAAGCTCTGCC	0.622																																																0								G	,CYS/ARG	1,4405	2.1+/-5.4	0,1,2202	37	39	39		,127	3.1	1	1	dbSNP_134	39	2,8598	2.2+/-6.3	0,2,4298	yes	intron,missense	INSRR,NTRK1	NM_001007792.1,NM_014215.2	,180	0,3,6500	AA,AG,GG		0.0233,0.0227,0.0231	,probably-damaging	,43/1298	156824054	3,13003	2203	4300	6503	SO:0001583	missense	3645			J05046	CCDS1160.1	1q21-q23	2013-02-11			ENSG00000027644	ENSG00000027644		"Fibronectin type III domain containing"	6093	protein-coding gene	gene with protein product		147671				2768234, 2249481	Standard	NM_014215		Approved	IRR	uc010pht.2	P14616	OTTHUMG00000041291	ENST00000368195.3:c.127C>T	1.37:g.156824054G>A	ENSP00000357178:p.Arg43Cys	Somatic		WXS	Illumina HiSeq	Phase_I	O60724|Q5VZS3	Missense_Mutation	SNP	ENST00000368195.3	37	CCDS1160.1	.	.	.	.	.	.	.	.	.	.	G	15.00	2.703881	0.48412	2.27E-4	2.33E-4	ENSG00000027644	ENST00000368195	T	0.32272	1.46	5.06	3.13	0.36017	.	0.000000	0.43416	D	0.000563	T	0.19604	0.0471	.	.	.	0.48288	D	0.999626	D	0.67145	0.996	P	0.46885	0.53	T	0.03403	-1.1040	9	0.72032	D	0.01	.	7.1713	0.25721	0.0913:0.0:0.7361:0.1726	.	43	P14616	INSRR_HUMAN	C	43	ENSP00000357178:R43C	ENSP00000357178:R43C	R	-	1	0	INSRR	155090678	0.003000	0.15002	1.000000	0.80357	0.342000	0.28953	1.267000	0.33050	1.098000	0.41479	0.557000	0.71058	CGT		0.622	INSRR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098929.1	NM_014215		A	156824054	G	A	156824054	3	1	694	1	0	0	0	0	1	0	0	0	7781	1058	37	1	3849	1	INSRR	1	156824054	Missense_Mutation	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	1903938	156824054	92426567	5	45243										
KLHDC9	126823	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	161069269	161069269	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tagctgaaccagaagtagctGggcattggagtcatgggaaa	14	6	1	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr1:161069269G>A	ENST00000368011.4	+	2	803	c.661G>A	c.(661-663)Ggg>Agg	p.G221R	PFDN2_ENST00000468311.1_5'Flank|KLHDC9_ENST00000392192.2_Missense_Mutation_p.G221R|KLHDC9_ENST00000490724.2_3'UTR	NM_152366.4	NP_689579.3	Q8NEP7	KLDC9_HUMAN	kelch domain containing 9	221										lung(5)|upper_aerodigestive_tract(1)	6	all_cancers(52;1.28e-19)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			AGAAGTAGCTGGGCATTGGAG	0.498																																																0													120	122	121					1																	161069269		2203	4300	6503	SO:0001583	missense	126823			BC022077	CCDS30919.1, CCDS41425.1	1q23.3	2008-02-05			ENSG00000162755	ENSG00000162755			28489	protein-coding gene	gene with protein product	"kelch/ankyrin repeat containing cyclin A1 interacting protein"					15159402	Standard	NM_152366		Approved	KARCA1	uc001fxr.3	Q8NEP7	OTTHUMG00000031479	ENST00000368011.4:c.661G>A	1.37:g.161069269G>A	ENSP00000356990:p.Gly221Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SY56|Q6NXT9|Q6PKN4|Q8N5E1|Q8NA16	Missense_Mutation	SNP	ENST00000368011.4	37	CCDS30919.1	.	.	.	.	.	.	.	.	.	.	G	14.59	2.580835	0.46006	.	.	ENSG00000162755	ENST00000368011;ENST00000392192	T;T	0.59364	1.77;0.27	4.47	3.55	0.40652	Galactose oxidase/kelch, beta-propeller (1);	0.000000	0.64402	D	0.000018	T	0.64583	0.2611	M	0.72118	2.19	0.35694	D	0.815117	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;0.999	T	0.68500	-0.5392	10	0.46703	T	0.11	-6.0987	13.2992	0.60315	0.0878:0.0:0.9122:0.0	.	221;221	Q8NEP7-2;Q8NEP7	.;KLDC9_HUMAN	R	221	ENSP00000356990:G221R;ENSP00000376030:G221R	ENSP00000356990:G221R	G	+	1	0	KLHDC9	159335893	1.000000	0.71417	0.955000	0.39395	0.891000	0.51852	3.599000	0.54045	0.526000	0.28541	-0.797000	0.03246	GGG		0.498	KLHDC9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077092.1	NM_152366		A	161069269	G	A	161069269	3	1	694	1	0	0	0	0	1	0	0	0	8371	1348	47	2	667	2	KLHDC9	1	161069269	Missense_Mutation	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	4245215	161069269	88181352	6	45244										
IARS2	55699	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	220311360	220311360	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	aattggcccatccgtgctcaAtgctgccagagatgatatta	9	10	1	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr1:220311360A>G	ENST00000302637.5	+	17	2254	c.2150A>G	c.(2149-2151)aAt>aGt	p.N717S	IARS2_ENST00000366922.1_Missense_Mutation_p.N645S|snoU13_ENST00000459443.1_RNA	NM_018060.3	NP_060530.3	Q9NSE4	SYIM_HUMAN	isoleucyl-tRNA synthetase 2, mitochondrial	717					gene expression (GO:0010467)|isoleucyl-tRNA aminoacylation (GO:0006428)|tRNA aminoacylation for protein translation (GO:0006418)	cytoplasm (GO:0005737)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	aminoacyl-tRNA editing activity (GO:0002161)|ATP binding (GO:0005524)|isoleucine-tRNA ligase activity (GO:0004822)			NS(1)|breast(1)|cervix(2)|endometrium(7)|kidney(4)|large_intestine(7)|lung(17)|ovary(2)|prostate(4)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	51				GBM - Glioblastoma multiforme(131;0.0554)	L-Isoleucine(DB00167)	TCCGTGCTCAATGCTGCCAGA	0.408																																																0													141	126	131					1																	220311360		2203	4300	6503	SO:0001583	missense	55699			AK022665	CCDS1523.1	1q41	2011-07-01	2007-02-26		ENSG00000067704	ENSG00000067704	6.1.1.5	"Aminoacyl tRNA synthetases / Class I"	29685	protein-coding gene	gene with protein product	"isoleucine tRNA ligase 2, mitochondrial"	612801					Standard	NM_018060		Approved	FLJ10326	uc001hmc.3	Q9NSE4	OTTHUMG00000037287	ENST00000302637.5:c.2150A>G	1.37:g.220311360A>G	ENSP00000303279:p.Asn717Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPG8|Q1M2P9|Q6PI85|Q7L439|Q86WU9|Q96D91|Q9H9Q8|Q9NW42	Missense_Mutation	SNP	ENST00000302637.5	37	CCDS1523.1	.	.	.	.	.	.	.	.	.	.	A	15.56	2.868965	0.51588	.	.	ENSG00000067704	ENST00000366922;ENST00000302637	T;T	0.41758	0.99;0.99	5.94	-2.49	0.06403	.	0.500458	0.25060	N	0.033452	T	0.22820	0.0551	N	0.26162	0.8	0.29693	N	0.840771	B	0.06786	0.001	B	0.08055	0.003	T	0.05289	-1.0894	10	0.54805	T	0.06	-2.622	5.3859	0.16218	0.4679:0.2548:0.2773:0.0	.	717	Q9NSE4	SYIM_HUMAN	S	645;717	ENSP00000355889:N645S;ENSP00000303279:N717S	ENSP00000303279:N717S	N	+	2	0	IARS2	218377983	0.015000	0.18098	0.161000	0.22692	0.442000	0.32017	0.217000	0.17603	-0.335000	0.08451	-0.385000	0.06624	AAT		0.408	IARS2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_018060		G	220311360	A	G	220311360	3	3	694	1	0	0	0	0	1	0	0	0	7481	101	4	3	2216	3	IARS2	1	220311360	Missense_Mutation	SNP	A	TCGA-MH-A562-01A-11D-A26P-10	59242091	220311360	28939261	7	45245										
URB2	9816	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	229771821	229771821	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gctgctgaggcactgaggcaGcctgtgctggcctcgggccc	16	14	0	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr1:229771821G>A	ENST00000258243.2	+	4	1597	c.1461G>A	c.(1459-1461)caG>caA	p.Q487Q		NM_014777.2	NP_055592.2	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog (S. cerevisiae)	487						aggresome (GO:0016235)|nucleolus (GO:0005730)|nucleus (GO:0005634)				breast(1)|central_nervous_system(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(12)|lung(33)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(6)	73						CACTGAGGCAGCCTGTGCTGG	0.582																																																0													111	119	116					1																	229771821		2203	4300	6503	SO:0001819	synonymous_variant	9816			D50923	CCDS31052.1	1q42.13	2009-11-06	2008-10-01	2008-10-01	ENSG00000135763	ENSG00000135763			28967	protein-coding gene	gene with protein product	"nucleolar preribosomal-associated protein 1"		"KIAA0133"	KIAA0133		8590280	Standard	NM_014777		Approved	NPA2, NET10	uc001hts.1	Q14146	OTTHUMG00000039464	ENST00000258243.2:c.1461G>A	1.37:g.229771821G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VYC9	Silent	SNP	ENST00000258243.2	37	CCDS31052.1																																																																																				0.582	URB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000095232.1	NM_014777		A	229771821	G	A	229771821	2	1	694	1	0	0	0	0	0	0	0	1	17037	962	34	2		2	URB2	1	229771821	Silent	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	9460461	229771821	19478800	8	45246										
HNRNPU	3192	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	245018785	245018785	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gtagttccctctgtttgagtAactaccacggccaggaaaaa	9	10	1	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr1:245018785A>G	ENST00000283179.9	-	12	2456	c.2293T>C	c.(2293-2295)Tac>Cac	p.Y765H	HNRNPU-AS1_ENST00000489705.1_RNA|HNRNPU_ENST00000444376.2_Missense_Mutation_p.Y746H|HNRNPU-AS1_ENST00000475997.1_RNA			Q00839	HNRPU_HUMAN	heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A)	765	Gly-rich.				CRD-mediated mRNA stabilization (GO:0070934)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|osteoblast differentiation (GO:0001649)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|CRD-mediated mRNA stability complex (GO:0070937)|cytoplasmic ribonucleoprotein granule (GO:0036464)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			NS(1)|endometrium(2)|large_intestine(1)|lung(10)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	20	all_cancers(71;6.97e-06)|all_epithelial(71;0.000104)|all_neural(11;0.0269)|Breast(184;0.0545)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0989)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.00868)			CTGTTTGAGTAACTACCACGG	0.512																																					NSCLC(33;911 1010 3329 23631 49995)											0													169	168	168					1																	245018785		2203	4300	6503	SO:0001583	missense	3192			X65488	CCDS31081.1, CCDS41479.1	1q44	2011-10-24		2007-08-16	ENSG00000153187	ENSG00000153187			5048	protein-coding gene	gene with protein product		602869		HNRPU		7509195, 8068679	Standard	NM_031844		Approved	SAF-A, hnRNPU	uc001iaz.1	Q00839	OTTHUMG00000040396	ENST00000283179.9:c.2293T>C	1.37:g.245018785A>G	ENSP00000283179:p.Tyr765His	Somatic		WXS	Illumina HiSeq	Phase_I	O75507|Q8N174|Q96HY9|Q9BQ09	Missense_Mutation	SNP	ENST00000283179.9	37	CCDS41479.1	.	.	.	.	.	.	.	.	.	.	A	16.34	3.094744	0.56075	.	.	ENSG00000153187	ENST00000444376;ENST00000283179;ENST00000427948	T;T	0.47177	0.85;0.86	5.51	5.51	0.81932	.	0.337558	0.31936	N	0.006827	T	0.42177	0.1191	N	0.04508	-0.205	0.44289	D	0.997152	D;D;P	0.69078	0.997;0.995;0.919	P;P;P	0.62184	0.899;0.795;0.543	T	0.42732	-0.9434	10	0.15952	T	0.53	-5.3765	15.623	0.76824	1.0:0.0:0.0:0.0	.	746;765;489	Q00839-2;Q00839;Q5RI19	.;HNRPU_HUMAN;.	H	746;765;690	ENSP00000393151:Y746H;ENSP00000283179:Y765H	ENSP00000283179:Y765H	Y	-	1	0	HNRNPU	243085408	1.000000	0.71417	0.798000	0.32154	0.954000	0.61252	6.268000	0.72552	2.088000	0.63022	0.482000	0.46254	TAC		0.512	HNRNPU-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000097163.3	NM_031844		G	245018785	A	G	245018785	3	3	694	1	0	0	0	0	1	0	0	0	7280	362	13	3	196	3	HNRNPU	1	245018785	Missense_Mutation	SNP	A	TCGA-MH-A562-01A-11D-A26P-10	15246964	245018785	4231836	9	45247										
RAD51AP2	729475	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	17692220	17692220	+	Frame_Shift_Del	DEL	T	T	-													0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	aatgccatgtggaaagtgacTacctaaaaatataagacaat							TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr2:17692220delT	ENST00000399080.2	-	3	3354	c.3331delA	c.(3331-3333)agtfs	p.S1111fs		NM_001099218.2	NP_001092688.1	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	1111	Interaction with RAD51.									endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(10)|liver(1)|lung(17)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	49	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					GGAAAGTGACTACCTAAAAAT	0.313																																																0													82	72	75					2																	17692220		1815	4072	5887	SO:0001589	frameshift_variant	729475			AK310498	CCDS42656.1	2p24.2	2009-01-13			ENSG00000214842	ENSG00000214842			34417	protein-coding gene	gene with protein product						16990250	Standard	NM_001099218		Approved	FLJ17540	uc002rcl.1	Q09MP3	OTTHUMG00000151761	ENST00000399080.2:c.3331delA	2.37:g.17692220delT	ENSP00000382030:p.Ser1111fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000399080.2	37	CCDS42656.1																																																																																				0.313	RAD51AP2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323801.3	NM_001099218		-	17692220	T	-	17692220	7	5	694	1	0	1	0	1	0	0	0	0	13000	1522	53	0	152	0	RAD51AP2	2	17692220	Frame_Shift_Del	DEL	T	TCGA-MH-A562-01A-11D-A26P-10		17692220	225507153	10	45248										
OSR1	130497	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	19552164	19552164	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gaagggcttctctttggagtGaatatatctgagggcagaaa	13	5	2	3			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr2:19552164G>A	ENST00000272223.2	-	3	1017	c.673C>T	c.(673-675)Cac>Tac	p.H225Y	OSR1_ENST00000536433.1_Missense_Mutation_p.H225Y	NM_145260.2	NP_660303.1	Q8TAX0	OSR1_HUMAN	odd-skipped related transciption factor 1	225					cell differentiation (GO:0030154)|cell proliferation involved in kidney development (GO:0072111)|cellular response to retinoic acid (GO:0071300)|chondrocyte differentiation (GO:0002062)|embryonic digit morphogenesis (GO:0042733)|embryonic forelimb morphogenesis (GO:0035115)|embryonic hindlimb morphogenesis (GO:0035116)|embryonic skeletal joint development (GO:0072498)|embryonic skeletal joint morphogenesis (GO:0060272)|embryonic skeletal limb joint morphogenesis (GO:0036023)|gonad development (GO:0008406)|heart development (GO:0007507)|intermediate mesoderm development (GO:0048389)|mesangial cell development (GO:0072143)|mesonephric duct morphogenesis (GO:0072180)|mesonephros development (GO:0001823)|metanephric cap mesenchymal cell proliferation involved in metanephros development (GO:0090094)|metanephric epithelium development (GO:0072207)|metanephric glomerulus vasculature development (GO:0072239)|metanephric interstitial fibroblast development (GO:0072259)|metanephric mesenchymal cell differentiation (GO:0072162)|metanephric mesenchyme development (GO:0072075)|metanephric mesenchyme morphogenesis (GO:0072133)|metanephric nephron tubule development (GO:0072234)|metanephric smooth muscle tissue development (GO:0072208)|middle ear morphogenesis (GO:0042474)|negative regulation of apoptotic process (GO:0043066)|negative regulation of epithelial cell differentiation (GO:0030857)|negative regulation of nephron tubule epithelial cell differentiation (GO:0072183)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|odontogenesis (GO:0042476)|palate development (GO:0060021)|pattern specification involved in metanephros development (GO:0072268)|positive regulation of bone mineralization (GO:0030501)|positive regulation of epithelial cell proliferation (GO:0050679)|positive regulation of gastrulation (GO:2000543)|positive regulation of gene expression (GO:0010628)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|posterior mesonephric tubule development (GO:0072166)|pronephros development (GO:0048793)|renal vesicle progenitor cell differentiation (GO:0072184)|specification of anterior mesonephric tubule identity (GO:0072168)|specification of posterior mesonephric tubule identity (GO:0072169)|stem cell differentiation (GO:0048863)|transcription, DNA-templated (GO:0006351)|ureter urothelium development (GO:0072190)|ureteric bud development (GO:0001657)|urogenital system development (GO:0001655)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)			breast(1)|large_intestine(2)|lung(4)|ovary(1)	8	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	Acute lymphoblastic leukemia(84;0.221)				TCTTTGGAGTGAATATATCTG	0.493																																																0													119	109	112					2																	19552164		2203	4300	6503	SO:0001583	missense	130497			BC025712	CCDS1694.1	2p24.1	2013-10-17	2013-10-17	2004-11-26	ENSG00000143867	ENSG00000143867		"Zinc fingers, C2H2-type"	8111	protein-coding gene	gene with protein product		608891	"odd-skipped (Drosophila) homolog", "odd-skipped related 1 (Drosophila)"	ODD		2120051, 12119563	Standard	XM_006711942		Approved		uc002rdc.3	Q8TAX0	OTTHUMG00000088793	ENST00000272223.2:c.673C>T	2.37:g.19552164G>A	ENSP00000272223:p.His225Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KV97|D6W521	Missense_Mutation	SNP	ENST00000272223.2	37	CCDS1694.1	.	.	.	.	.	.	.	.	.	.	G	24.6	4.550306	0.86127	.	.	ENSG00000143867	ENST00000272223;ENST00000536433	D;D	0.88896	-2.44;-2.44	5.01	5.01	0.66863	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.049292	0.85682	D	0.000000	D	0.95245	0.8458	M	0.93283	3.4	0.58432	D	0.999996	P	0.38148	0.62	P	0.52758	0.708	D	0.95373	0.8466	9	.	.	.	-8.151	18.0945	0.89485	0.0:0.0:1.0:0.0	.	225	Q8TAX0	OSR1_HUMAN	Y	225	ENSP00000272223:H225Y;ENSP00000441801:H225Y	.	H	-	1	0	OSR1	19415645	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.595000	0.98260	2.606000	0.88127	0.561000	0.74099	CAC		0.493	OSR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000201432.2	NM_145260		A	19552164	G	A	19552164	3	1	694	1	0	0	0	0	1	0	0	0	11300	1290	45	2	131	2	OSR1	2	19552164	Missense_Mutation	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	1859944	19552164	223647209	11	45249										
PNO1	56902	broad.mit.edu	37	chr2	68385203	68385203	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	agagggcggggatgcgggccGcatggacacagaggaggcca	20	9	0	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr2:68385203G>A	ENST00000263657.2	+	1	228	c.137G>A	c.(136-138)cGc>cAc	p.R46H	WDR92_ENST00000492039.2_5'Flank|RP11-474G23.1_ENST00000406334.3_Missense_Mutation_p.R163W|WDR92_ENST00000409164.1_5'Flank|WDR92_ENST00000295121.6_5'Flank|WDR92_ENST00000406245.2_5'Flank	NM_020143.2	NP_064528.1	Q9NRX1	PNO1_HUMAN	partner of NOB1 homolog (S. cerevisiae)	46						nucleolus (GO:0005730)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			endometrium(1)|large_intestine(1)|lung(2)	4						GATGCGGGCCGCATGGACACA	0.677																																					NSCLC(83;642 1410 13044 32832 40058)											0													18	26	23					2																	68385203		2202	4297	6499	SO:0001583	missense	56902			AF164799	CCDS1885.1	2p14	2010-07-06			ENSG00000115946	ENSG00000115946			32790	protein-coding gene	gene with protein product	"RNA binding protein"		"KH-type RNA binding protein 1", "KH-type RNA-binding protein 1"	KHRBP1		15497447	Standard	NM_020143		Approved	RRP20	uc002seh.3	Q9NRX1	OTTHUMG00000129563	ENST00000263657.2:c.137G>A	2.37:g.68385203G>A	ENSP00000263657:p.Arg46His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6Q0|Q53G13|Q8WVB8	Missense_Mutation	SNP	ENST00000263657.2	37	CCDS1885.1	.	.	.	.	.	.	.	.	.	.	G	13.22	2.171546	0.38315	.	.	ENSG00000115946	ENST00000263657	T	0.41400	1.0	6.03	-1.94	0.07571	.	0.478698	0.19273	N	0.118341	T	0.15392	0.0371	N	0.08118	0	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.08868	-1.0701	10	0.52906	T	0.07	0.9051	0.011	0.00001	0.289:0.1962:0.2222:0.2926	.	46	Q9NRX1	PNO1_HUMAN	H	46	ENSP00000263657:R46H	ENSP00000263657:R46H	R	+	2	0	PNO1	68238707	0.014000	0.17966	0.015000	0.15790	0.004000	0.04260	0.190000	0.17057	-0.050000	0.13356	-1.832000	0.00591	CGC		0.677	PNO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251756.1	NM_020143		A	68385203	G	A	68385203	3	1	694	1	0	0	0	0	1	0	0	0	12168	1087	38	1	139	1	PNO1	2	68385203	Missense_Mutation	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	48833039	68385203	174814170	12	45250										
MPHOSPH10	10199	broad.mit.edu;bcgsc.ca	37	chr2	71368372	71368378	+	Frame_Shift_Del	DEL	ATGTAGT	ATGTAGT	-													0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tatgtttcaggcttgggatgAtgtagtacgtaaagaaaaac							TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	ATGTAGT	ATGTAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr2:71368372_71368378delATGTAGT	ENST00000244230.2	+	7	1671_1677	c.1319_1325delATGTAGT	c.(1318-1326)gatgtagtafs	p.DVV440fs		NM_005791.2	NP_005782.1	O00566	MPP10_HUMAN	M-phase phosphoprotein 10 (U3 small nucleolar ribonucleoprotein)	440					negative regulation of phosphatase activity (GO:0010923)|RNA processing (GO:0006396)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)|rRNA processing (GO:0006364)	chromosome (GO:0005694)|nucleolus (GO:0005730)|small nucleolar ribonucleoprotein complex (GO:0005732)	poly(A) RNA binding (GO:0044822)			breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(2)|pancreas(2)|skin(2)|stomach(1)	26						GCTTGGGATGATGTAGTACGTAAAGAA	0.324																																																0																																										SO:0001589	frameshift_variant	10199			X98494	CCDS1916.1	2p13.3	2014-06-12			ENSG00000124383	ENSG00000124383			7213	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 106"	605503				8885239, 9450966	Standard	NM_005791		Approved	MPP10, MPP10P, CT90, PPP1R106	uc002sht.2	O00566	OTTHUMG00000129715	ENST00000244230.2:c.1319_1325delATGTAGT	2.37:g.71368372_71368378delATGTAGT	ENSP00000244230:p.Asp440fs	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVJ8	Frame_Shift_Del	DEL	ENST00000244230.2	37	CCDS1916.1																																																																																				0.324	MPHOSPH10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251924.2	NM_005791		-	71368378	ATGTAGT	-	71368372	7	5	694	1	0	1	0	1	0	0	0	0	9732	333	12	0	1345	0	MPHOSPH10	2	71368372	Frame_Shift_Del	DEL	ATGTAGT	TCGA-MH-A562-01A-11D-A26P-10	2983169	71368372	171831001	13	45251										
IP6K2	51447	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	48728866	48728866	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	cttcttctctacagtgtagtAcaagacttcagatttcttta	5	9	4	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr3:48728866A>G	ENST00000328631.5	-	4	701	c.478T>C	c.(478-480)Tac>Cac	p.Y160H		NM_001005909.2|NM_016291.3	NP_001005909.1|NP_057375.2	Q9UHH9	IP6K2_HUMAN	inositol hexakisphosphate kinase 2	160					cytokine-mediated signaling pathway (GO:0019221)|inositol phosphate metabolic process (GO:0043647)|negative regulation of cell growth (GO:0030308)|phosphate ion transport (GO:0006817)|phosphatidylinositol phosphorylation (GO:0046854)|positive regulation of apoptotic process (GO:0043065)|small molecule metabolic process (GO:0044281)|type I interferon signaling pathway (GO:0060337)	intermediate filament cytoskeleton (GO:0045111)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|inositol hexakisphosphate 1-kinase activity (GO:0052723)|inositol hexakisphosphate 3-kinase activity (GO:0052724)|inositol hexakisphosphate 5-kinase activity (GO:0000832)|inositol-1,4,5-trisphosphate 3-kinase activity (GO:0008440)			biliary_tract(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(7)|ovary(1)	15						ACAGTGTAGTACAAGACTTCA	0.363																																																0													154	146	149					3																	48728866		2203	4300	6503	SO:0001583	missense	51447			AF177145	CCDS2777.1, CCDS33752.1, CCDS54579.1, CCDS54580.1, CCDS54581.1	3p21.31	2009-01-05	2009-01-05	2008-12-22	ENSG00000068745	ENSG00000068745			17313	protein-coding gene	gene with protein product		606992	"inositol hexaphosphate kinase 2"	IHPK2		10574768	Standard	NM_016291		Approved		uc003cup.3	Q9UHH9	OTTHUMG00000133543	ENST00000328631.5:c.478T>C	3.37:g.48728866A>G	ENSP00000331103:p.Tyr160His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3B1|B4E3G6|G8JLL6|Q6P0N8|Q9BSZ6|Q9BUW3|Q9H4P7|Q9NT63|Q9UFU6	Missense_Mutation	SNP	ENST00000328631.5	37	CCDS2777.1	.	.	.	.	.	.	.	.	.	.	A	21.2	4.109209	0.77096	.	.	ENSG00000068745	ENST00000328631	T	0.18657	2.2	5.6	5.6	0.85130	.	0.169966	0.53938	D	0.000049	T	0.23330	0.0564	L	0.58101	1.795	0.80722	D	1	P	0.49447	0.924	B	0.40782	0.34	T	0.03852	-1.0998	10	0.22706	T	0.39	-18.3925	15.8359	0.78796	1.0:0.0:0.0:0.0	.	160	Q9UHH9	IP6K2_HUMAN	H	160	ENSP00000331103:Y160H	ENSP00000331103:Y160H	Y	-	1	0	IP6K2	48703870	1.000000	0.71417	0.993000	0.49108	0.991000	0.79684	7.511000	0.81718	2.141000	0.66446	0.524000	0.50904	TAC		0.363	IP6K2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257521.2	NM_016291		G	48728866	A	G	48728866	3	3	694	1	0	0	0	0	1	0	0	0	7796	391	14	3	814	3	IP6K2	3	48728866	Missense_Mutation	SNP	A	TCGA-MH-A562-01A-11D-A26P-10		48728866	149293564	14	45252										
LAMB2	3913	broad.mit.edu	37	chr3	49158999	49158999	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	agggccttcaccgtctggtaCtgatcacccagaggaccgcg	12	14	3	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr3:49158999C>T	ENST00000418109.1	-	32	5291	c.5127G>A	c.(5125-5127)caG>caA	p.Q1709Q	USP19_ENST00000488993.1_5'Flank|LAMB2_ENST00000305544.4_Silent_p.Q1709Q|USP19_ENST00000434032.2_5'Flank|USP19_ENST00000398898.2_5'Flank|USP19_ENST00000398888.2_5'Flank|USP19_ENST00000453664.1_5'Flank|USP19_ENST00000417901.1_5'Flank|USP19_ENST00000398892.3_5'Flank	NM_002292.3	NP_002283.3	P55268	LAMB2_HUMAN	laminin, beta 2 (laminin S)	1709	Domain I.				astrocyte development (GO:0014002)|axon extension involved in regeneration (GO:0048677)|axon guidance (GO:0007411)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|metanephric glomerular basement membrane development (GO:0072274)|metanephric glomerular visceral epithelial cell development (GO:0072249)|neuromuscular junction development (GO:0007528)|retina development in camera-type eye (GO:0060041)|Schwann cell development (GO:0014044)|visual perception (GO:0007601)	basal lamina (GO:0005605)|basement membrane (GO:0005604)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|laminin-11 complex (GO:0043260)|laminin-3 complex (GO:0005608)|synapse (GO:0045202)	structural molecule activity (GO:0005198)			NS(1)|breast(1)|endometrium(15)|kidney(3)|large_intestine(6)|lung(21)|ovary(4)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	61				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CCGTCTGGTACTGATCACCCA	0.607																																																0													48	48	48					3																	49158999		2203	4300	6503	SO:0001819	synonymous_variant	3913				CCDS2789.1	3p21.3-p21.2	2013-03-01			ENSG00000172037	ENSG00000172037		"Laminins"	6487	protein-coding gene	gene with protein product	"laminin S"	150325		LAMS		2922051, 10393422	Standard	NM_002292		Approved		uc003cwe.3	P55268	OTTHUMG00000156807	ENST00000418109.1:c.5127G>A	3.37:g.49158999C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q16321	Silent	SNP	ENST00000418109.1	37	CCDS2789.1																																																																																				0.607	LAMB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345939.1	NM_002292		T	49158999	C	T	49158999	2	4	694	1	0	0	0	0	0	0	0	1	8618	564	20	2		2	LAMB2	3	49158999	Silent	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	430133	49158999	148863431	15	45253										
OR5H2	79310	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	98001882	98001882	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ttgtgtggaaccttggtctgAttgctcttatctggaatgac	11	7	3	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr3:98001882A>C	ENST00000355273.2	+	1	151	c.151A>C	c.(151-153)Att>Ctt	p.I51L	RP11-325B23.2_ENST00000508616.1_lincRNA	NM_001005482.1	NP_001005482.1	Q8NGV7	OR5H2_HUMAN	olfactory receptor, family 5, subfamily H, member 2	51						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(1)|large_intestine(5)|lung(13)|ovary(3)|upper_aerodigestive_tract(1)	24						CCTTGGTCTGATTGCTCTTAT	0.433																																																0													359	331	340					3																	98001882		2203	4300	6503	SO:0001583	missense	79310				CCDS33801.1	3q11.2	2013-09-23			ENSG00000197938	ENSG00000197938		"GPCR / Class A : Olfactory receptors"	14752	protein-coding gene	gene with protein product							Standard	NM_001005482		Approved		uc003dsj.1	Q8NGV7	OTTHUMG00000160080	ENST00000355273.2:c.151A>C	3.37:g.98001882A>C	ENSP00000347418:p.Ile51Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF87	Missense_Mutation	SNP	ENST00000355273.2	37	CCDS33801.1	.	.	.	.	.	.	.	.	.	.	A	9.652	1.141906	0.21205	.	.	ENSG00000197938	ENST00000355273	T	0.00614	6.21	3.2	3.2	0.36748	GPCR, rhodopsin-like superfamily (1);	0.180712	0.26582	U	0.023580	T	0.01061	0.0035	L	0.52905	1.665	0.09310	N	1	P	0.45768	0.866	P	0.46585	0.521	T	0.48864	-0.8997	10	0.72032	D	0.01	.	5.7492	0.18138	0.7608:0.0:0.0:0.2391	.	51	Q8NGV7	OR5H2_HUMAN	L	51	ENSP00000347418:I51L	ENSP00000347418:I51L	I	+	1	0	OR5H2	99484572	0.003000	0.15002	0.516000	0.27786	0.041000	0.13682	0.917000	0.28665	1.458000	0.47871	0.443000	0.29094	ATT		0.433	OR5H2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359113.2			C	98001882	A	C	98001882	3	2	694	1	0	0	0	0	1	0	0	0	11169	333	12	5	153	5	OR5H2	3	98001882	Missense_Mutation	SNP	A	TCGA-MH-A562-01A-11D-A26P-10	48842883	98001882	100020548	16	45254										
RG9MTD1	54931	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	101284160	101284160	+	Frame_Shift_Del	DEL	T	T	-													0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ataaacagaaaaactttctaTttttacgactttgggatagg							TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr3:101284160delT	ENST00000309922.6	+	2	689	c.535delT	c.(535-537)tttfs	p.F179fs		NM_017819.2	NP_060289.2	Q7L0Y3	MRRP1_HUMAN	tRNA methyltransferase 10 homolog C (S. cerevisiae)	179					mitochondrial RNA 5'-end processing (GO:0000964)|tRNA processing (GO:0008033)	mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	methyltransferase activity (GO:0008168)|poly(A) RNA binding (GO:0044822)										AAACTTTCTATTTTTACGACT	0.408																																																0													84	80	81					3																	101284160		1827	4080	5907	SO:0001589	frameshift_variant	54931			AK000439	CCDS43122.1	3q12.3	2012-06-28	2012-06-28	2012-06-28	ENSG00000174173	ENSG00000174173			26022	protein-coding gene	gene with protein product	"mitochondrial RNase P subunit 1"	615423	"RNA (guanine-9-) methyltransferase domain containing 1"	RG9MTD1		18984158	Standard	NM_017819		Approved	FLJ20432, MRPP1	uc003duz.4	Q7L0Y3	OTTHUMG00000159114	ENST00000309922.6:c.535delT	3.37:g.101284160delT	ENSP00000312356:p.Phe179fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NRG5|Q9NX54|Q9Y596	Frame_Shift_Del	DEL	ENST00000309922.6	37	CCDS43122.1																																																																																				0.408	TRMT10C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353400.2	NM_017819		-	101284160	T	-	101284160	7	5	694	1	0	1	0	1	0	0	0	0	13284	1493	52	0	537	0	RG9MTD1	3	101284160	Frame_Shift_Del	DEL	T	TCGA-MH-A562-01A-11D-A26P-10	3282278	101284160	96738270	17	45255										
TPRA1	131601	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	127292425	127292425	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tgatgctgccagtgtggcagGgcatggaagcgatgtcatcc	15	9	1	1	rs201165800	byFrequency	TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr3:127292425G>C	ENST00000355552.3	-	11	1437	c.1061C>G	c.(1060-1062)cCc>cGc	p.P354R	TPRA1_ENST00000296210.7_3'UTR|TPRA1_ENST00000465915.1_5'Flank|TPRA1_ENST00000450633.2_Missense_Mutation_p.P354R|TPRA1_ENST00000489960.1_Missense_Mutation_p.P354R	NM_001136053.1	NP_001129525.1	Q86W33	TPRA1_HUMAN	transmembrane protein, adipocyte asscociated 1	354					aging (GO:0007568)|G-protein coupled receptor signaling pathway (GO:0007186)|lipid metabolic process (GO:0006629)	integral component of membrane (GO:0016021)	G-protein coupled receptor activity (GO:0004930)			endometrium(2)|lung(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	9						AGTGTGGCAGGGCATGGAAGC	0.657																																																0													47	48	47					3																	127292425		2202	4300	6502	SO:0001583	missense	131601			AK056759	CCDS3042.1, CCDS46899.1	3q21.2	2012-08-22	2009-07-08	2009-07-08	ENSG00000163870	ENSG00000163870		"GPCR / Unclassified : 7TM orphan receptors"	30413	protein-coding gene	gene with protein product	"transmembrane protein 227"	608336	"G protein-coupled receptor 175"	GPR175		10342878	Standard	NM_001136053		Approved	TPRA40, FLJ32197, TMEM227	uc003ejn.3	Q86W33	OTTHUMG00000159639	ENST00000355552.3:c.1061C>G	3.37:g.127292425G>C	ENSP00000347748:p.Pro354Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8MVB8|D3DNA9|Q8WZ24|Q96AJ6|Q9P2R4	Missense_Mutation	SNP	ENST00000355552.3	37	CCDS3042.1	.	.	.	.	.	.	.	.	.	.	G	24.6	4.553183	0.86127	.	.	ENSG00000163870	ENST00000450633;ENST00000355552;ENST00000489960	.	.	.	4.98	4.98	0.66077	.	0.000000	0.85682	D	0.000000	T	0.66489	0.2794	L	0.27053	0.805	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.70135	-0.4955	9	0.56958	D	0.05	-26.1417	18.2482	0.89993	0.0:0.0:1.0:0.0	.	354	Q86W33	TPRA1_HUMAN	R	354	.	ENSP00000347748:P354R	P	-	2	0	TPRA1	128775115	1.000000	0.71417	1.000000	0.80357	0.954000	0.61252	9.058000	0.93896	2.305000	0.77605	0.491000	0.48974	CCC		0.657	TPRA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356624.1	NM_016372		C	127292425	G	C	127292425	3	2	694	1	0	0	0	0	1	0	0	0	16429	1232	43	4	64	4	TPRA1	3	127292425	Missense_Mutation	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	26008265	127292425	70730005	18	45256										
TNK2	10188	broad.mit.edu;bcgsc.ca	37	chr3	195615329	195615329	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tgccgatcttctccaggtccTcattcttgacgtactcaaag	7	13	5	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr3:195615329T>C	ENST00000333602.6	-	2	748	c.131A>G	c.(130-132)gAg>gGg	p.E44G	TNK2_ENST00000381916.2_Missense_Mutation_p.E107G|TNK2_ENST00000428187.1_Missense_Mutation_p.E76G|TNK2_ENST00000316664.3_Missense_Mutation_p.E44G|TNK2_ENST00000392400.1_Missense_Mutation_p.E44G|TNK2_ENST00000468819.1_5'UTR	NM_005781.4	NP_005772.3	Q07912	ACK1_HUMAN	tyrosine kinase, non-receptor, 2	44	SAM-like domain.				cell surface receptor signaling pathway (GO:0007166)|endocytosis (GO:0006897)|negative regulation of catalytic activity (GO:0043086)|peptidyl-tyrosine phosphorylation (GO:0018108)|phosphorylation (GO:0016310)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|regulation of clathrin-mediated endocytosis (GO:2000369)|small GTPase mediated signal transduction (GO:0007264)	axon (GO:0030424)|cell junction (GO:0030054)|clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|endosome (GO:0005768)|Grb2-EGFR complex (GO:0070436)|growth cone (GO:0030426)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|epidermal growth factor receptor binding (GO:0005154)|GTPase inhibitor activity (GO:0005095)|metal ion binding (GO:0046872)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein serine/threonine kinase activity (GO:0004674)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|protein tyrosine kinase activity (GO:0004713)|WW domain binding (GO:0050699)			central_nervous_system(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(11)|ovary(3)|prostate(4)|skin(2)|stomach(1)|urinary_tract(1)	29	all_cancers(143;6.48e-09)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;1.46e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.3e-19)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;0.000757)	Adenosine triphosphate(DB00171)	CTCCAGGTCCTCATTCTTGAC	0.597																																																0													137	118	125					3																	195615329		2203	4300	6503	SO:0001583	missense	10188			L13738	CCDS33927.1, CCDS33928.1	3q29	2013-09-02			ENSG00000061938	ENSG00000061938			19297	protein-coding gene	gene with protein product	"activated Cdc42-associated kinase 1"	606994				8497321, 14506255	Standard	XM_006713460		Approved	p21cdc42Hs, ACK, ACK1	uc003fvt.1	Q07912	OTTHUMG00000155737	ENST00000333602.6:c.131A>G	3.37:g.195615329T>C	ENSP00000329425:p.Glu44Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZMQ0|Q8N6U7|Q96H59	Missense_Mutation	SNP	ENST00000333602.6	37	CCDS33928.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	18.84|18.84	3.709073|3.709073	0.68615|0.68615	.|.	.|.	ENSG00000061938|ENSG00000061938	ENST00000333602;ENST00000381916;ENST00000428187;ENST00000392400;ENST00000316664;ENST00000433111;ENST00000427576|ENST00000438207	T;T;T;T;T;T;T|.	0.21543|.	2.0;2.0;2.0;2.0;2.0;2.0;2.0|.	5.21|5.21	5.21|5.21	0.72293|0.72293	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.72011|0.72011	0.3408|0.3408	M|M	0.78456|0.78456	2.415|2.415	0.49389|0.49389	D|D	0.999786|0.999786	D;D;D;D|.	0.89917|.	1.0;1.0;1.0;0.976|.	D;D;D;D|.	0.91635|.	0.997;0.997;0.999;0.909|.	T|T	0.73620|0.73620	-0.3925|-0.3925	10|5	0.72032|.	D|.	0.01|.	.|.	9.6494|9.6494	0.39888|0.39888	0.1553:0.0:0.0:0.8447|0.1553:0.0:0.0:0.8447	.|.	44;44;107;76|.	Q07912-2;Q07912;Q07912-3;C9J1X3|.	.;ACK1_HUMAN;.;.|.	G|G	44;107;76;44;44;44;108|43	ENSP00000329425:E44G;ENSP00000371341:E107G;ENSP00000392546:E76G;ENSP00000376201:E44G;ENSP00000323216:E44G;ENSP00000395154:E44G;ENSP00000390088:E108G|.	ENSP00000323216:E44G|.	E|R	-|-	2|1	0|2	TNK2|TNK2	197099726|197099726	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.480000|0.480000	0.33159|0.33159	5.977000|5.977000	0.70492|0.70492	1.975000|1.975000	0.57531|0.57531	0.383000|0.383000	0.25322|0.25322	GAG|AGG		0.597	TNK2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341437.3	NM_005781		C	195615329	T	C	195615329	3	2	694	1	0	0	0	0	1	0	0	0	16330	1551	54	3	3090	3	TNK2	3	195615329	Missense_Mutation	SNP	T	TCGA-MH-A562-01A-11D-A26P-10	68322904	195615329	2407101	19	45257										
SLC26A1	10861	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	982690	982690	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gtctgcacggcatcgtgcacActgaggaacagctgctcctc	11	14	1	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr4:982690A>G	ENST00000361661.2	-	4	2414	c.2037T>C	c.(2035-2037)agT>agC	p.S679S	SLC26A1_ENST00000513138.1_5'Flank|IDUA_ENST00000453894.1_Intron|IDUA_ENST00000509744.1_Intron|IDUA_ENST00000247933.4_Intron|SLC26A1_ENST00000398516.2_Silent_p.S679S|SLC26A1_ENST00000398520.2_Intron	NM_213613.2	NP_998778.1	Q9H2B4	S26A1_HUMAN	solute carrier family 26 (anion exchanger), member 1	679	STAS. {ECO:0000255|PROSITE- ProRule:PRU00198}.				3'-phosphoadenosine 5'-phosphosulfate biosynthetic process (GO:0050428)|3'-phosphoadenosine 5'-phosphosulfate metabolic process (GO:0050427)|carbohydrate metabolic process (GO:0005975)|chloride transport (GO:0006821)|glycosaminoglycan metabolic process (GO:0030203)|ion transport (GO:0006811)|oxalate transport (GO:0019532)|small molecule metabolic process (GO:0044281)|sulfate transmembrane transport (GO:1902358)|sulfate transport (GO:0008272)|transmembrane transport (GO:0055085)|xenobiotic metabolic process (GO:0006805)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	anion:anion antiporter activity (GO:0015301)|chloride transmembrane transporter activity (GO:0015108)|oxalate transmembrane transporter activity (GO:0019531)|secondary active sulfate transmembrane transporter activity (GO:0008271)|sulfate transmembrane transporter activity (GO:0015116)			central_nervous_system(1)|endometrium(4)|pancreas(1)|prostate(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			CATCGTGCACACTGAGGAACA	0.672																																																0													26	23	24					4																	982690		2188	4289	6477	SO:0001819	synonymous_variant	10861			AF297659	CCDS33933.1, CCDS33934.1	4p16.3	2013-07-18	2013-07-18		ENSG00000145217	ENSG00000145217		"Solute carriers"	10993	protein-coding gene	gene with protein product		610130	"solute carrier family 26 (sulfate transporter), member 1"				Standard	NM_213613		Approved	SAT-1, EDM4	uc003gcc.3	Q9H2B4	OTTHUMG00000160003	ENST00000361661.2:c.2037T>C	4.37:g.982690A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K9N2|Q7Z5R3|Q96BK0	Silent	SNP	ENST00000361661.2	37	CCDS33934.1																																																																																				0.672	SLC26A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358783.1	NM_022042, NM_134425		G	982690	A	G	982690	2	3	694	1	0	0	0	0	0	0	0	1	14527	156	6	3		3	SLC26A1	4	982690	Silent	SNP	A	TCGA-MH-A562-01A-11D-A26P-10		982690	190171586	20	45258										
ADD1	118	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	2883755	2883755	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	accaaatgtctacccagcagCtccgcaaggagggatggctg	12	12	1	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr4:2883755C>A	ENST00000398129.1	+	2	346	c.326C>A	c.(325-327)gCt>gAt	p.A109D	ADD1_ENST00000398123.2_Missense_Mutation_p.A109D|ADD1_ENST00000446856.1_Missense_Mutation_p.A109D|ADD1_ENST00000398125.1_Missense_Mutation_p.A109D|ADD1_ENST00000513328.2_Missense_Mutation_p.A109D|ADD1_ENST00000355842.3_Missense_Mutation_p.A109D|ADD1_ENST00000503455.2_Missense_Mutation_p.A109D|ADD1_ENST00000264758.7_Missense_Mutation_p.A109D			P35611	ADDA_HUMAN	adducin 1 (alpha)	109					actin cytoskeleton organization (GO:0030036)|actin filament bundle assembly (GO:0051017)|activation of signaling protein activity involved in unfolded protein response (GO:0006987)|apoptotic process (GO:0006915)|barbed-end actin filament capping (GO:0051016)|cell morphogenesis (GO:0000902)|cell volume homeostasis (GO:0006884)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular protein metabolic process (GO:0044267)|cellular response to retinoic acid (GO:0071300)|endoplasmic reticulum unfolded protein response (GO:0030968)|erythrocyte differentiation (GO:0030218)|hemoglobin metabolic process (GO:0020027)|homeostasis of number of cells within a tissue (GO:0048873)|in utero embryonic development (GO:0001701)|multicellular organism growth (GO:0035264)|positive regulation of angiogenesis (GO:0045766)|positive regulation of endocytosis (GO:0045807)|positive regulation of protein binding (GO:0032092)	cytosol (GO:0005829)|dendritic spine (GO:0043197)|F-actin capping protein complex (GO:0008290)|focal adhesion (GO:0005925)|intermediate filament cytoskeleton (GO:0045111)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|postsynaptic density (GO:0014069)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|poly(A) RNA binding (GO:0044822)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|spectrin binding (GO:0030507)|structural molecule activity (GO:0005198)|transcription factor binding (GO:0008134)			breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(8)|ovary(1)|prostate(2)	22				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TACCCAGCAGCTCCGCAAGGA	0.423																																					Esophageal Squamous(71;505 1201 20414 34538 37449)											0													152	144	147					4																	2883755		2203	4300	6503	SO:0001583	missense	118			L07261	CCDS3363.1, CCDS3364.1, CCDS43205.1, CCDS75094.1	4p16.3	2009-04-22			ENSG00000087274	ENSG00000087274			243	protein-coding gene	gene with protein product		102680				1840603	Standard	NM_001119		Approved		uc003gfq.3	P35611	OTTHUMG00000122080	ENST00000398129.1:c.326C>A	4.37:g.2883755C>A	ENSP00000381197:p.Ala109Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3N8|A2A3P0|B4DI79|D3DVR3|D3DVR4|D3DVR5|Q13734|Q14729|Q16156|Q86XM2|Q9UJB6	Missense_Mutation	SNP	ENST00000398129.1	37	CCDS43205.1	.	.	.	.	.	.	.	.	.	.	C	15.64	2.894195	0.52121	.	.	ENSG00000087274	ENST00000264758;ENST00000446856;ENST00000398125;ENST00000398124;ENST00000511797;ENST00000513328;ENST00000503455;ENST00000355842;ENST00000398123;ENST00000398129	T;T;T;T;T;T;T;T;T	0.31769	1.48;1.48;1.48;1.48;1.48;1.48;1.48;1.48;1.48	4.88	4.88	0.63580	.	0.000000	0.85682	D	0.000000	T	0.25717	0.0626	N	0.22421	0.69	0.80722	D	1	B;B;P;B;B;P;B	0.42556	0.003;0.0;0.783;0.005;0.014;0.741;0.19	B;B;B;B;B;B;B	0.40477	0.006;0.002;0.33;0.01;0.022;0.238;0.042	T	0.04386	-1.0955	10	0.45353	T	0.12	-22.0196	18.2285	0.89926	0.0:1.0:0.0:0.0	.	109;109;109;109;109;109;109	E7ENY0;B4DI79;Q86XM2;P35611;P35611-3;P35611-2;A2A3N8	.;.;.;ADDA_HUMAN;.;.;.	D	109	ENSP00000264758:A109D;ENSP00000399828:A109D;ENSP00000381193:A109D;ENSP00000421918:A109D;ENSP00000421907:A109D;ENSP00000423024:A109D;ENSP00000348100:A109D;ENSP00000381191:A109D;ENSP00000381197:A109D	ENSP00000264758:A109D	A	+	2	0	ADD1	2853553	1.000000	0.71417	0.863000	0.33907	0.601000	0.36947	5.634000	0.67833	2.540000	0.85666	0.491000	0.48974	GCT		0.423	ADD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000242840.1	NM_014189		A	2883755	C	A	2883755	3	1	694	1	0	0	0	0	1	0	0	0	304	797	28	4	332	4	ADD1	4	2883755	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	1901065	2883755	188270521	21	45259										
SLC34A2	10568	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	25676246	25676246	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gcaatgcattgaggagttcaCtccaggtcaggacttggggc	14	9	2	1	rs375377923		TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr4:25676246C>G	ENST00000382051.3	+	12	1503	c.1453C>G	c.(1453-1455)Ctc>Gtc	p.L485V	SLC34A2_ENST00000504570.1_Missense_Mutation_p.L484V|SLC34A2_ENST00000503434.1_Missense_Mutation_p.L484V	NM_001177998.1|NM_006424.2	NP_001171469.1|NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (type II sodium/phosphate contransporter), member 2	485					aging (GO:0007568)|cellular phosphate ion homeostasis (GO:0030643)|in utero embryonic development (GO:0001701)|ion transport (GO:0006811)|phosphate ion transmembrane transport (GO:0035435)|phosphate ion transport (GO:0006817)|response to estradiol (GO:0032355)|response to estrogen (GO:0043627)|response to fructose (GO:0009750)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|microvillus membrane (GO:0031528)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	phosphate ion binding (GO:0042301)|sodium ion binding (GO:0031402)|sodium-dependent phosphate transmembrane transporter activity (GO:0015321)|sodium:phosphate symporter activity (GO:0005436)		SLC34A2/ROS1(14)	breast(1)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(9)|lung(18)|ovary(1)|prostate(1)|skin(4)	41		Breast(46;0.0503)				GAGGAGTTCACTCCAGGTCAG	0.602			T	ROS1	NSCLC																																		Dom	yes		4	4p15.2	10568	"solute carrier family 34 (sodium phosphate), member 2"		E	0													69	74	72					4																	25676246		2203	4300	6503	SO:0001583	missense	10568			AF111856	CCDS3435.1, CCDS54750.1	4p15.2	2013-07-17	2013-07-17		ENSG00000157765	ENSG00000157765		"Solute carriers"	11020	protein-coding gene	gene with protein product		604217	"solute carrier family 34 (sodium phosphate), member 2"			10329428, 10610722	Standard	NM_006424		Approved	NAPI-3B	uc003grr.3	O95436	OTTHUMG00000097757	ENST00000382051.3:c.1453C>G	4.37:g.25676246C>G	ENSP00000371483:p.Leu485Val	Somatic		WXS	Illumina HiSeq	Phase_I	A5PL17|Q8N2K2|Q8WYA9|Q9P0V7	Missense_Mutation	SNP	ENST00000382051.3	37	CCDS3435.1	.	.	.	.	.	.	.	.	.	.	C	3.915	-0.019199	0.07634	.	.	ENSG00000157765	ENST00000504570;ENST00000382051;ENST00000503434	D;D;D	0.86497	-2.13;-2.13;-2.13	5.31	3.54	0.40534	.	0.068142	0.64402	D	0.000012	D	0.84079	0.5393	L	0.55103	1.725	0.42232	D	0.991895	P;P	0.35944	0.473;0.529	B;P	0.44696	0.336;0.458	T	0.78534	-0.2167	10	0.37606	T	0.19	-25.8301	2.7152	0.05185	0.3196:0.4244:0.1554:0.1006	.	484;485	O95436-2;O95436	.;NPT2B_HUMAN	V	484;485;484	ENSP00000425501:L484V;ENSP00000371483:L485V;ENSP00000423021:L484V	ENSP00000371483:L485V	L	+	1	0	SLC34A2	25285344	0.105000	0.21958	0.623000	0.29173	0.023000	0.10783	0.614000	0.24314	0.698000	0.31739	0.561000	0.74099	CTC		0.602	SLC34A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214990.1	NM_006424		G	25676246	C	G	25676246	3	3	694	1	0	0	0	0	1	0	0	0	14581	565	20	4	1495	4	SLC34A2	4	25676246	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	22792491	25676246	165478030	22	45260										
CWH43	80157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	49032879	49032879	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	attttggagagtgatgcttcTaagccctatatggggaacaa	11	6	1	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr4:49032879T>G	ENST00000226432.4	+	11	1593	c.1410T>G	c.(1408-1410)tcT>tcG	p.S470S	CWH43_ENST00000513409.1_Silent_p.S443S	NM_025087.2	NP_079363.2	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog (S. cerevisiae)	470					GPI anchor biosynthetic process (GO:0006506)	integral component of membrane (GO:0016021)				cervix(1)|endometrium(4)|kidney(1)|large_intestine(4)|lung(26)|ovary(1)|prostate(1)|skin(4)|urinary_tract(1)	43						GTGATGCTTCTAAGCCCTATA	0.403																																																0													130	131	130					4																	49032879		2203	4300	6503	SO:0001819	synonymous_variant	80157				CCDS3486.1, CCDS68697.1	4p12-p11	2010-09-21			ENSG00000109182	ENSG00000109182			26133	protein-coding gene	gene with protein product						17714445, 17761529	Standard	NM_025087		Approved	FLJ21511, CWH43-C	uc003gyv.3	Q9H720	OTTHUMG00000128627	ENST00000226432.4:c.1410T>G	4.37:g.49032879T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RPD7	Silent	SNP	ENST00000226432.4	37	CCDS3486.1																																																																																				0.403	CWH43-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250496.2	NM_025087		G	49032879	T	G	49032879	2	3	694	1	0	0	0	0	0	0	0	1	4075	1509	53	5		5	CWH43	4	49032879	Silent	SNP	T	TCGA-MH-A562-01A-11D-A26P-10	23356633	49032879	142121397	23	45261										
PRKG2	5593	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	82061797	82061797	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	cttatacacttcatagcaaaAgcaacattctcattttttac	2	10	2	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr4:82061797A>T	ENST00000395578.1	-	12	1550	c.1434T>A	c.(1432-1434)gcT>gcA	p.A478A	PRKG2_ENST00000264399.1_Silent_p.A478A|PRKG2_ENST00000509169.1_5'UTR|PRKG2_ENST00000545647.1_Silent_p.A58A|PRKG2_ENST00000418486.2_Silent_p.A449A			Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	478	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				blood coagulation (GO:0007596)|circadian regulation of gene expression (GO:0032922)|nitric oxide metabolic process (GO:0046209)|protein phosphorylation (GO:0006468)|regulation of nitric-oxide synthase activity (GO:0050999)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|cGMP binding (GO:0030553)|cGMP-dependent protein kinase activity (GO:0004692)|protein kinase activity (GO:0004672)			NS(1)|breast(4)|central_nervous_system(2)|endometrium(3)|kidney(3)|large_intestine(7)|lung(14)|ovary(1)|skin(2)	37						TCATAGCAAAAGCAACATTCT	0.353																																																0													130	116	121					4																	82061797		2203	4300	6503	SO:0001819	synonymous_variant	5593			X94612	CCDS3589.1, CCDS75150.1	4q13.1-q21.1	2009-07-10			ENSG00000138669	ENSG00000138669	2.7.11.1		9416	protein-coding gene	gene with protein product		601591				7498513	Standard	XM_005263126		Approved	cGKII, PRKGR2	uc003hmh.2	Q13237	OTTHUMG00000130296	ENST00000395578.1:c.1434T>A	4.37:g.82061797A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DMX3|E7EPE6|O00125|O60916	Silent	SNP	ENST00000395578.1	37	CCDS3589.1																																																																																				0.353	PRKG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252639.1	NM_006259		T	82061797	A	T	82061797	2	4	694	1	0	0	0	0	0	0	0	1	12533	59	3	5		5	PRKG2	4	82061797	Silent	SNP	A	TCGA-MH-A562-01A-11D-A26P-10	33028918	82061797	109092479	24	45262										
DSPP	1834	bcgsc.ca	37	chr4	88537018	88537018	+	Silent	SNP	T	T	C													0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gacagcagcgacagcagtgaTagcagtgacagcagtgacag					rs370264407		TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr4:88537018T>C	ENST00000282478.7	+	4	3237	c.3204T>C	c.(3202-3204)gaT>gaC	p.D1068D	DSPP_ENST00000399271.1_Silent_p.D1068D|RP11-742B18.1_ENST00000506480.1_RNA			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	1068	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		acagcagtgatagcagtgaca	0.532																																																0								T		27,3131		0,27,1552	54	66	62		3204	0.6	0.3	4	dbSNP_134	62	95,5593		2,91,2751	no	coding-synonymous	DSPP	NM_014208.3		2,118,4303	CC,CT,TT		1.6702,0.855,1.3792		1068/1302	88537018	122,8724	1579	2844	4423	SO:0001819	synonymous_variant	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.3204T>C	4.37:g.88537018T>C		Somatic		WXS	Illumina HiSeq	Phase_1	A8MUI0|O95815	Silent	SNP	ENST00000282478.7	37	CCDS43248.1																																																																																				0.532	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		C	88537018	T	C	88537018	2	2	694	1	0	0	0	0	0	0	0	1	4784	1403	49	3		3	DSPP	4	88537018	Silent	SNP	T	TCGA-MH-A562-01A-11D-A26P-10	6475221	88537018	102617258	25	45263	492	2								
DSPP	1834	bcgsc.ca	37	chr4	88537027	88537027	+	Missense_Mutation	SNP	C	C	A													0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gacagcagtgatagcagtgaCagcagtgacagcagcgacag							TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr4:88537027C>A	ENST00000282478.7	+	4	3246	c.3213C>A	c.(3211-3213)gaC>gaA	p.D1071E	DSPP_ENST00000399271.1_Missense_Mutation_p.D1071E|RP11-742B18.1_ENST00000506480.1_RNA			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	1071	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		atagcagtgacagcagtgaca	0.542																																																0													56	66	63					4																	88537027		1577	2848	4425	SO:0001583	missense	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.3213C>A	4.37:g.88537027C>A	ENSP00000282478:p.Asp1071Glu	Somatic		WXS	Illumina HiSeq	Phase_1	A8MUI0|O95815	Missense_Mutation	SNP	ENST00000282478.7	37	CCDS43248.1	.	.	.	.	.	.	.	.	.	.	c	2.636	-0.285341	0.05605	.	.	ENSG00000152591	ENST00000399271;ENST00000282478	D;D	0.88124	-2.34;-2.34	1.15	-2.31	0.06765	.	.	.	.	.	T	0.69196	0.3084	L	0.38175	1.15	0.09310	N	1	P	0.46952	0.887	B	0.36766	0.232	T	0.66364	-0.5942	9	0.02654	T	1	.	2.058	0.03586	0.2533:0.3578:0.0:0.3889	.	1071	Q9NZW4	DSPP_HUMAN	E	1071	ENSP00000382213:D1071E;ENSP00000282478:D1071E	ENSP00000282478:D1071E	D	+	3	2	DSPP	88756051	0.029000	0.19370	0.018000	0.16275	0.040000	0.13550	-0.117000	0.10708	-0.986000	0.03498	0.282000	0.19409	GAC		0.542	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		A	88537027	C	A	88537027	3	1	694	1	0	0	0	0	1	0	0	0	4784	477	17	4	3227	4	DSPP	4	88537027	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	9	88537027	102617249	26	45264	492	2								
FAT1	2195	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	187627969	187627969	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	agaaactggctttcccttgtCtttggccctcacagtgagat	9	11	2	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr4:187627969C>T	ENST00000441802.2	-	2	3222	c.3013G>A	c.(3013-3015)Gac>Aac	p.D1005N		NM_005245.3	NP_005236.2	Q14517	FAT1_HUMAN	FAT atypical cadherin 1	1005	Cadherin 8. {ECO:0000255|PROSITE- ProRule:PRU00043}.				actin filament organization (GO:0007015)|anatomical structure morphogenesis (GO:0009653)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|cell-cell signaling (GO:0007267)|establishment or maintenance of cell polarity (GO:0007163)|homophilic cell adhesion (GO:0007156)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(38)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(33)|lung(88)|ovary(13)|pancreas(2)|prostate(16)|skin(2)|upper_aerodigestive_tract(11)|urinary_tract(4)	228						TTTCCCTTGTCTTTGGCCCTC	0.458										HNSCC(5;0.00058)																											Colon(197;1040 2055 4143 4984 49344)											0													108	110	109					4																	187627969		1971	4147	6118	SO:0001583	missense	2195			X87241	CCDS47177.1	4q35.2	2013-05-31	2013-05-31	2008-10-30	ENSG00000083857	ENSG00000083857		"Cadherins / Cadherin-related"	3595	protein-coding gene	gene with protein product	"cadherin-related family member 8"	600976	"FAT tumor suppressor (Drosophila) homolog", "FAT tumor suppressor homolog 1 (Drosophila)"	FAT		8586420	Standard	XM_005262834		Approved	CDHF7, CDHR8	uc003izf.3	Q14517	OTTHUMG00000160320	ENST00000441802.2:c.3013G>A	4.37:g.187627969C>T	ENSP00000406229:p.Asp1005Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000441802.2	37	CCDS47177.1	.	.	.	.	.	.	.	.	.	.	C	23.1	4.374390	0.82573	.	.	ENSG00000083857	ENST00000441802;ENST00000260147	T	0.65364	-0.15	4.55	4.55	0.56014	Cadherin (5);Cadherin-like (1);	0.106734	0.64402	D	0.000008	T	0.79191	0.4404	M	0.82132	2.575	0.80722	D	1	D	0.59767	0.986	D	0.63703	0.917	T	0.82963	-0.0196	10	0.87932	D	0	.	17.8551	0.88760	0.0:1.0:0.0:0.0	.	1005	Q14517	FAT1_HUMAN	N	1005	ENSP00000406229:D1005N	ENSP00000260147:D1005N	D	-	1	0	FAT1	187864963	1.000000	0.71417	1.000000	0.80357	0.733000	0.41908	7.606000	0.82863	2.508000	0.84585	0.491000	0.48974	GAC		0.458	FAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360209.3	NM_005245		T	187627969	C	T	187627969	3	4	694	1	0	0	0	0	1	0	0	0	5696	913	32	2	10857	2	FAT1	4	187627969	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	99090942	187627969	3526307	27	45265										
SKIV2L2	23517	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	54635905	54635905	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ccagcccaattaaggctctgAgtaaccaaaaataccgtgaa	7	11	1	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr5:54635905A>G	ENST00000230640.5	+	6	837	c.583A>G	c.(583-585)Agt>Ggt	p.S195G	SKIV2L2_ENST00000545714.1_Missense_Mutation_p.S94G	NM_015360.4	NP_056175.3	P42285	SK2L2_HUMAN	superkiller viralicidic activity 2-like 2 (S. cerevisiae)	195	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				maturation of 5.8S rRNA (GO:0000460)|mRNA splicing, via spliceosome (GO:0000398)	catalytic step 2 spliceosome (GO:0071013)|nucleus (GO:0005634)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|poly(A) RNA binding (GO:0044822)			NS(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(5)|lung(12)|ovary(1)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	41		Lung NSC(810;0.000744)|Breast(144;0.181)|Prostate(74;0.194)				TAAGGCTCTGAGTAACCAAAA	0.363																																					Melanoma(2;92 134 23744 29976 33782)											0													141	137	139					5																	54635905		2203	4300	6503	SO:0001583	missense	23517			D29641	CCDS3967.1	5q11.2	2008-11-25	2005-02-18	2005-02-18	ENSG00000039123	ENSG00000039123			18734	protein-coding gene	gene with protein product	"functional spliceosome-associated protein 118"		"KIAA0052"	KIAA0052			Standard	NM_015360		Approved	Mtr4, Dob1, fSAP118	uc003jpy.4	P42285	OTTHUMG00000097019	ENST00000230640.5:c.583A>G	5.37:g.54635905A>G	ENSP00000230640:p.Ser195Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M386|Q6MZZ8|Q6P170|Q8N5R0|Q8TAG2	Missense_Mutation	SNP	ENST00000230640.5	37	CCDS3967.1	.	.	.	.	.	.	.	.	.	.	A	24.5	4.543682	0.86022	.	.	ENSG00000039123	ENST00000230640;ENST00000545714	T;T	0.15139	2.45;2.45	5.98	5.98	0.97165	DEAD-like helicase (2);DNA/RNA helicase, DEAD/DEAH box type, N-terminal (1);	0.088703	0.85682	D	0.000000	T	0.55289	0.1911	H	0.94345	3.525	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.993;0.999	T	0.68704	-0.5338	10	0.87932	D	0	-18.2935	16.4566	0.84019	1.0:0.0:0.0:0.0	.	94;195	F5H7E2;P42285	.;SK2L2_HUMAN	G	195;94	ENSP00000230640:S195G;ENSP00000442583:S94G	ENSP00000230640:S195G	S	+	1	0	SKIV2L2	54671662	1.000000	0.71417	0.999000	0.59377	0.970000	0.65996	7.102000	0.77005	2.293000	0.77203	0.477000	0.44152	AGT		0.363	SKIV2L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214108.1			G	54635905	A	G	54635905	3	3	694	1	0	0	0	0	1	0	0	0	14373	304	11	3	605	3	SKIV2L2	5	54635905	Missense_Mutation	SNP	A	TCGA-MH-A562-01A-11D-A26P-10		54635905	126279355	28	45266										
VCAN	1462	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	82815685	82815685	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	cctgtaactgaaacaccattGgtaactgcaagaatgatcct	7	10	0	3			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr5:82815685G>A	ENST00000265077.3	+	7	2125	c.1560G>A	c.(1558-1560)ttG>ttA	p.L520L	VCAN_ENST00000343200.5_Intron|VCAN_ENST00000502527.2_Intron|VCAN_ENST00000342785.4_Silent_p.L520L|VCAN_ENST00000512590.2_Silent_p.L472L	NM_004385.4	NP_004376.2	P13611	CSPG2_HUMAN	versican	520	GAG-alpha (glucosaminoglycan attachment domain).				carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|cell recognition (GO:0008037)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|extracellular matrix organization (GO:0030198)|glial cell migration (GO:0008347)|glycosaminoglycan metabolic process (GO:0030203)|heart development (GO:0007507)|multicellular organismal development (GO:0007275)|osteoblast differentiation (GO:0001649)|small molecule metabolic process (GO:0044281)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi lumen (GO:0005796)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|carbohydrate binding (GO:0030246)|glycosaminoglycan binding (GO:0005539)|hyaluronic acid binding (GO:0005540)			NS(2)|biliary_tract(1)|breast(3)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(52)|lung(64)|ovary(8)|pancreas(3)|prostate(13)|skin(14)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(5)	190		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)	Hyaluronan(DB08818)	AAACACCATTGGTAACTGCAA	0.393																																																0													127	127	127					5																	82815685		2203	4300	6503	SO:0001819	synonymous_variant	1462			X15998	CCDS4060.1, CCDS47242.1, CCDS54875.1, CCDS54876.1	5q14.2-q14.3	2013-05-07	2007-02-15	2007-02-15	ENSG00000038427	ENSG00000038427		"Immunoglobulin superfamily / V-set domain containing", "Proteoglycans / Extracellular Matrix : Hyalectans"	2464	protein-coding gene	gene with protein product	"versican proteoglycan"	118661	"chondroitin sulfate proteoglycan 2"	CSPG2		1478664, 21063030	Standard	NM_004385		Approved	PG-M	uc003kii.3	P13611	OTTHUMG00000131321	ENST00000265077.3:c.1560G>A	5.37:g.82815685G>A		Somatic		WXS	Illumina HiSeq	Phase_I	P20754|Q13010|Q13189|Q15123|Q9UCL9|Q9UNW5	Silent	SNP	ENST00000265077.3	37	CCDS4060.1																																																																																				0.393	VCAN-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000254092.3	NM_004385		A	82815685	G	A	82815685	2	1	694	1	0	0	0	0	0	0	0	1	17150	1339	47	2		2	VCAN	5	82815685	Silent	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	28179780	82815685	98099575	29	45267										
VCAN	1462	broad.mit.edu	37	chr5	82836607	82836608	+	Frame_Shift_Del	DEL	AG	AG	-													0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gacattcttggaatgcaaacAgatatagatacagaggtacc							TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr5:82836607_82836608delAG	ENST00000265077.3	+	8	8350_8351	c.7785_7786delAG	c.(7783-7788)acagatfs	p.D2596fs	VCAN_ENST00000343200.5_Frame_Shift_Del_p.D1609fs|VCAN-AS1_ENST00000513899.1_RNA|VCAN_ENST00000502527.2_Intron|VCAN_ENST00000342785.4_Intron|VCAN_ENST00000512590.2_Intron|VCAN-AS1_ENST00000512090.1_RNA|VCAN_ENST00000513016.1_3'UTR	NM_004385.4	NP_004376.2	P13611	CSPG2_HUMAN	versican	2596	GAG-beta.				carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|cell recognition (GO:0008037)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|extracellular matrix organization (GO:0030198)|glial cell migration (GO:0008347)|glycosaminoglycan metabolic process (GO:0030203)|heart development (GO:0007507)|multicellular organismal development (GO:0007275)|osteoblast differentiation (GO:0001649)|small molecule metabolic process (GO:0044281)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|Golgi lumen (GO:0005796)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal lumen (GO:0043202)|membrane (GO:0016020)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|carbohydrate binding (GO:0030246)|glycosaminoglycan binding (GO:0005539)|hyaluronic acid binding (GO:0005540)			NS(2)|biliary_tract(1)|breast(3)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(52)|lung(64)|ovary(8)|pancreas(3)|prostate(13)|skin(14)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(5)	190		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)	Hyaluronan(DB08818)	GAATGCAAACAGATATAGATAC	0.376																																																0																																										SO:0001589	frameshift_variant	1462			X15998	CCDS4060.1, CCDS47242.1, CCDS54875.1, CCDS54876.1	5q14.2-q14.3	2013-05-07	2007-02-15	2007-02-15	ENSG00000038427	ENSG00000038427		"Immunoglobulin superfamily / V-set domain containing", "Proteoglycans / Extracellular Matrix : Hyalectans"	2464	protein-coding gene	gene with protein product	"versican proteoglycan"	118661	"chondroitin sulfate proteoglycan 2"	CSPG2		1478664, 21063030	Standard	NM_004385		Approved	PG-M	uc003kii.3	P13611	OTTHUMG00000131321	ENST00000265077.3:c.7785_7786delAG	5.37:g.82836607_82836608delAG	ENSP00000265077:p.Asp2596fs	Somatic		WXS	Illumina HiSeq	Phase_I	P20754|Q13010|Q13189|Q15123|Q9UCL9|Q9UNW5	Frame_Shift_Del	DEL	ENST00000265077.3	37	CCDS4060.1																																																																																				0.376	VCAN-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000254092.3	NM_004385		-	82836608	AG	-	82836607	7	5	694	1	0	1	0	1	0	0	0	0	17150	175	7	0	7811	0	VCAN	5	82836607	Frame_Shift_Del	DEL	AG	TCGA-MH-A562-01A-11D-A26P-10	20922	82836607	98078653	30	45268										
CHD1	1105	ucsc.edu;bcgsc.ca	37	chr5	98238644	98238644	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gacctcacttgatgagtcatCggaatcttcactgctagagg	10	10	4	3	rs368581644		TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr5:98238644C>T	ENST00000284049.3	-	4	546	c.397G>A	c.(397-399)Gat>Aat	p.D133N		NM_001270.2	NP_001261.2	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	133	Ser-rich.				chromatin modification (GO:0016568)|DNA duplex unwinding (GO:0032508)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA binding (GO:0003677)|methylated histone binding (GO:0035064)			NS(1)|breast(4)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(11)|lung(12)|ovary(2)|pancreas(1)|prostate(7)|skin(3)|urinary_tract(2)	49		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	GATGAGTCATCGGAATCTTCA	0.294																																																0								C	ASN/ASP	1,4405	2.1+/-5.4	0,1,2202	77	74	75		397	4.8	1	5		75	0,8584		0,0,4292	no	missense	CHD1	NM_001270.2	23	0,1,6494	TT,TC,CC		0.0,0.0227,0.0077	possibly-damaging	133/1711	98238644	1,12989	2203	4292	6495	SO:0001583	missense	1105			AF006513	CCDS34204.1	5q15-q21	2008-07-18			ENSG00000153922	ENSG00000153922			1915	protein-coding gene	gene with protein product		602118				8460153, 9326634	Standard	XM_005271866		Approved		uc003knf.3	O14646	OTTHUMG00000162744	ENST00000284049.3:c.397G>A	5.37:g.98238644C>T	ENSP00000284049:p.Asp133Asn	Somatic		WXS	Illumina HiSeq		Q17RZ3	Missense_Mutation	SNP	ENST00000284049.3	37	CCDS34204.1	.	.	.	.	.	.	.	.	.	.	C	12.01	1.809530	0.31961	2.27E-4	0.0	ENSG00000153922	ENST00000284049;ENST00000540681	D	0.89746	-2.56	4.84	4.84	0.62591	.	0.000000	0.34460	U	0.003957	D	0.86674	0.5989	L	0.55481	1.735	0.58432	D	0.999995	B	0.10296	0.003	B	0.04013	0.001	T	0.81967	-0.0690	10	0.25751	T	0.34	.	18.4531	0.90711	0.0:1.0:0.0:0.0	.	133	O14646	CHD1_HUMAN	N	133	ENSP00000284049:D133N	ENSP00000284049:D133N	D	-	1	0	CHD1	98266544	0.998000	0.40836	0.998000	0.56505	0.887000	0.51463	4.282000	0.58971	2.632000	0.89209	0.462000	0.41574	GAT		0.294	CHD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370295.1	NM_001270		T	98238644	C	T	98238644	3	4	694	1	0	0	0	0	1	0	0	0	3325	884	31	1	4863	1	CHD1	5	98238644	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	15402037	98238644	82676616	31	45269										
BTNL8	79908	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	180338541	180338541	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tctctgaccgtccaagagaaCgccgggagcatatcctgttc	10	13	1	2	rs377605273		TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr5:180338541C>T	ENST00000340184.4	+	3	806	c.600C>T	c.(598-600)aaC>aaT	p.N200N	BTNL8_ENST00000508408.1_Silent_p.N200N|BTNL8_ENST00000533815.2_Silent_p.N16N|BTNL8_ENST00000511704.1_Silent_p.N84N|BTNL8_ENST00000231229.4_Silent_p.N200N|BTNL8_ENST00000400707.3_Silent_p.N75N|BTNL8_ENST00000505126.1_5'UTR|Y_RNA_ENST00000410920.1_RNA	NM_001040462.2	NP_001035552.1	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8	200	Ig-like V-type 2.				immune system process (GO:0002376)	integral component of membrane (GO:0016021)				breast(1)|endometrium(4)|kidney(2)|large_intestine(4)|lung(12)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)	28	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)			TCCAAGAGAACGCCGGGAGCA	0.537																																																0								C	,,,,,	0,4406		0,0,2203	82	80	80		600,252,600,225,48,600	-7.4	0	5		80	1,8591	1.2+/-3.3	0,1,4295	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	BTNL8	NM_001040462.2,NM_001159707.1,NM_001159708.1,NM_001159709.1,NM_001159710.1,NM_024850.2	,,,,,	0,1,6498	TT,TC,CC		0.0116,0.0,0.0077	,,,,,	200/501,84/385,200/341,75/376,16/317,200/348	180338541	1,12997	2203	4296	6499	SO:0001819	synonymous_variant	79908			AK025111	CCDS4459.1, CCDS43413.1, CCDS54956.1, CCDS54957.1, CCDS54958.1, CCDS54959.1	5q35.3	2014-01-14			ENSG00000113303	ENSG00000113303		"Immunoglobulin superfamily / V-set domain containing", "Butyrophilins"	26131	protein-coding gene	gene with protein product		615606				12975309	Standard	NM_024850		Approved	FLJ21458, BTN9.2	uc003mmp.3	Q6UX41	OTTHUMG00000130932	ENST00000340184.4:c.600C>T	5.37:g.180338541C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4QMZ8|A6NEX6|B7Z409|B7Z5B1|E9PEF6|E9PG07|F2Z2B2|F8W712|Q9H730	Silent	SNP	ENST00000340184.4	37	CCDS43413.1																																																																																				0.537	BTNL8-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000368440.1	NM_024850		T	180338541	C	T	180338541	2	4	694	1	0	0	0	0	0	0	0	1	1569	535	19	1		1	BTNL8	5	180338541	Silent	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	82099897	180338541	576719	32	45270										
PHACTR1	221692	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	13283687	13283687	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ccacggtggaagagcttcggGaaagaaagatcctcatccgc	12	11	1	3			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr6:13283687G>C	ENST00000379335.3	+	3	340	c.235G>C	c.(235-237)Gaa>Caa	p.E79Q	RP1-257A7.4_ENST00000606150.1_RNA|PHACTR1_ENST00000332995.7_Missense_Mutation_p.E515Q|PHACTR1_ENST00000457702.2_Missense_Mutation_p.E370Q|PHACTR1_ENST00000379329.1_Missense_Mutation_p.E79Q|RP1-257A7.4_ENST00000399446.2_RNA			Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	515					actin cytoskeleton reorganization (GO:0031532)|actomyosin structure organization (GO:0031032)|cell motility (GO:0048870)|stress fiber assembly (GO:0043149)	cell junction (GO:0030054)|cytosol (GO:0005829)|nucleus (GO:0005634)|synapse (GO:0045202)	actin binding (GO:0003779)|protein phosphatase inhibitor activity (GO:0004864)			breast(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(10)|ovary(1)|skin(2)|upper_aerodigestive_tract(3)	26	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			AGAGCTTCGGGAAAGAAAGAT	0.597																																																0													125	138	134					6																	13283687		2033	4200	6233	SO:0001583	missense	221692			AB051520	CCDS75401.1	6p23	2013-01-24	2004-05-20	2004-05-21	ENSG00000112137	ENSG00000112137		"Phosphatase and actin regulators"	20990	protein-coding gene	gene with protein product		608723	"RPEL repeat containing 1"	RPEL1		11214970, 15107502	Standard	NM_030948		Approved	KIAA1733, dJ257A7.2	uc010jpc.3	Q9C0D0	OTTHUMG00000014270	ENST00000379335.3:c.235G>C	6.37:g.13283687G>C	ENSP00000368639:p.Glu79Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1V2|Q3MJ93|Q5JSJ2	Missense_Mutation	SNP	ENST00000379335.3	37		.	.	.	.	.	.	.	.	.	.	G	21.1	4.095811	0.76870	.	.	ENSG00000112137	ENST00000332995;ENST00000457702;ENST00000379335;ENST00000379329	T;T	0.32988	1.43;1.43	5.78	5.78	0.91487	.	0.094270	0.64402	D	0.000001	T	0.32224	0.0822	N	0.21448	0.665	0.80722	D	1	D	0.63046	0.992	D	0.67548	0.952	T	0.03193	-1.1062	10	0.33940	T	0.23	-15.365	19.0064	0.92852	0.0:0.0:1.0:0.0	.	515	Q9C0D0	PHAR1_HUMAN	Q	515;370;79;79	ENSP00000329880:E515Q;ENSP00000397669:E370Q	ENSP00000329880:E515Q	E	+	1	0	PHACTR1	13391666	1.000000	0.71417	0.985000	0.45067	0.919000	0.55068	9.623000	0.98386	2.738000	0.93877	0.655000	0.94253	GAA		0.597	PHACTR1-003	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000039878.1	XM_166420		C	13283687	G	C	13283687	3	2	694	1	0	0	0	0	1	0	0	0	11816	1175	41	4	1585	4	PHACTR1	6	13283687	Missense_Mutation	SNP	G	TCGA-MH-A562-01A-11D-A26P-10		13283687	157831380	33	45271										
ZFP57	346171	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	29643249	29643249	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tggtgattagctctggcttaTgcagaaagattctggctgat	12	6	2	4			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr6:29643249T>C	ENST00000488757.1	-	3	416	c.266A>G	c.(265-267)cAt>cGt	p.H89R	ZFP57_ENST00000376881.3_Missense_Mutation_p.H69R|ZFP57_ENST00000376883.1_Missense_Mutation_p.H69R	NM_001109809.2	NP_001103279.2	Q9NU63	ZFP57_HUMAN	ZFP57 zinc finger protein	61					DNA methylation involved in embryo development (GO:0043045)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|peripheral nervous system development (GO:0007422)|regulation of gene expression by genetic imprinting (GO:0006349)|transcription, DNA-templated (GO:0006351)	nuclear heterochromatin (GO:0005720)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			NS(1)|autonomic_ganglia(1)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(2)|large_intestine(5)|liver(1)|lung(16)|ovary(4)|skin(4)|urinary_tract(5)	44						CTCTGGCTTATGCAGAAAGAT	0.483																																																0													221	207	212					6																	29643249		1947	4153	6100	SO:0001583	missense	346171			AL050328	CCDS43436.1, CCDS43436.2	6p22.1	2013-01-08	2012-11-27	2005-07-20	ENSG00000204644	ENSG00000204644		"Zinc fingers, C2H2-type", "-"	18791	protein-coding gene	gene with protein product		612192	"chromosome 6 open reading frame 40", "zinc finger protein 57 homolog (mouse)"	C6orf40			Standard	NM_001109809		Approved	ZNF698, bA145L22, bA145L22.2	uc011dlw.2	Q9NU63	OTTHUMG00000031158	ENST00000488757.1:c.266A>G	6.37:g.29643249T>C	ENSP00000418259:p.His89Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B0S894|B0V254|B2RXJ7|Q5SSB1	Missense_Mutation	SNP	ENST00000488757.1	37	CCDS43436.2	.	.	.	.	.	.	.	.	.	.	T	4.922	0.171264	0.09391	.	.	ENSG00000204644	ENST00000488757;ENST00000376881;ENST00000376883	T;T;T	0.00768	5.72;5.72;5.72	4.36	0.288	0.15719	.	0.866899	0.09598	N	0.780620	T	0.00210	0.0006	N	0.14661	0.345	0.09310	N	1	B;B	0.25169	0.119;0.119	B;B	0.23574	0.047;0.047	T	0.25152	-1.0140	10	0.34782	T	0.22	0.7587	4.8209	0.13390	0.173:0.0:0.599:0.2281	.	89;69	Q9NU63-3;Q9NU63-2	.;.	R	89;69;69	ENSP00000418259:H89R;ENSP00000366078:H69R;ENSP00000366080:H69R	ENSP00000366078:H69R	H	-	2	0	ZFP57	29751228	0.003000	0.15002	0.001000	0.08648	0.153000	0.21895	0.428000	0.21395	-0.071000	0.12886	-0.313000	0.08912	CAT		0.483	ZFP57-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355773.1	XM_294093		C	29643249	T	C	29643249	3	2	694	1	0	0	0	0	1	0	0	0	17663	1464	51	3	1352	3	ZFP57	6	29643249	Missense_Mutation	SNP	T	TCGA-MH-A562-01A-11D-A26P-10	16359562	29643249	141471818	34	45272										
BAT5	7920	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	31657863	31657863	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	agatggtctcaccgtgcttcCagcaaagcctggatgattcc	10	12	1	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr6:31657863C>T	ENST00000395952.3	-	11	1111	c.949G>A	c.(949-951)Gga>Aga	p.G317R	ABHD16A_ENST00000440843.2_Missense_Mutation_p.G284R|XXbac-BPG32J3.20_ENST00000461287.1_3'UTR|ABHD16A_ENST00000471644.1_5'UTR|ABHD16A_ENST00000375842.4_Missense_Mutation_p.G98R	NM_021160.2	NP_066983.1	O95870	ABHGA_HUMAN	abhydrolase domain containing 16A	317						integral component of membrane (GO:0016021)	hydrolase activity (GO:0016787)			endometrium(1)|large_intestine(3)|lung(3)|ovary(1)|pancreas(1)|prostate(1)	10						ACCGTGCTTCCAGCAAAGCCT	0.547																																																0													68	56	60					6																	31657863		1511	2709	4220	SO:0001583	missense	7920			AF129756	CCDS4713.1, CCDS54988.1	6p21.3	2013-01-17	2010-12-09	2010-12-09	ENSG00000204427	ENSG00000204427		"Abhydrolase domain containing"	13921	protein-coding gene	gene with protein product		142620	"HLA-B associated transcript 5"	BAT5		2911734, 2813433	Standard	NM_021160		Approved	NG26, D6S82E	uc003nvy.2	O95870	OTTHUMG00000031177	ENST00000395952.3:c.949G>A	6.37:g.31657863C>T	ENSP00000379282:p.Gly317Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A2BEY3|B7Z4R6|Q5SRR1|Q5SRR2|Q8WYH0|Q9NW33	Missense_Mutation	SNP	ENST00000395952.3	37	CCDS4713.1	.	.	.	.	.	.	.	.	.	.	C	26.4	4.733977	0.89482	.	.	ENSG00000204427	ENST00000395952;ENST00000375842;ENST00000440843	T;T;T	0.21191	2.02;2.02;2.02	5.4	5.4	0.78164	.	0.108527	0.64402	D	0.000008	T	0.30792	0.0776	L	0.55834	1.745	0.80722	D	1	D;D	0.76494	0.96;0.999	P;D	0.71656	0.772;0.974	T	0.00909	-1.1518	10	0.30078	T	0.28	-9.9061	16.6668	0.85255	0.0:1.0:0.0:0.0	.	284;317	B7Z4R6;O95870	.;ABHGA_HUMAN	R	317;98;284	ENSP00000379282:G317R;ENSP00000365002:G98R;ENSP00000410347:G284R	ENSP00000365002:G98R	G	-	1	0	ABHD16A	31765842	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.008000	0.63991	2.536000	0.85505	0.655000	0.94253	GGA		0.547	ABHD16A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076342.4			T	31657863	C	T	31657863	3	4	694	1	0	0	0	0	1	0	0	0	1324	603	21	2	767	2	BAT5	6	31657863	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	2014614	31657863	139457204	35	45273										
STXBP5	134957	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	147648298	147648298	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gcaatggcattgctatggttGactacctccagaaagcagtg	11	9	0	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr6:147648298G>C	ENST00000321680.6	+	18	1966	c.1966G>C	c.(1966-1968)Gac>Cac	p.D656H	STXBP5_ENST00000367480.3_Missense_Mutation_p.D656H|STXBP5_ENST00000367481.3_Missense_Mutation_p.D656H|STXBP5_ENST00000179882.6_Missense_Mutation_p.D327H	NM_001127715.2	NP_001121187.1	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn)	656					exocytosis (GO:0006887)|negative regulation of exocytosis (GO:0045920)|positive regulation of exocytosis (GO:0045921)|protein transport (GO:0015031)|regulation of blood coagulation (GO:0030193)|regulation of gene expression (GO:0010468)	acetylcholine-gated channel complex (GO:0005892)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|synapse (GO:0045202)	syntaxin-1 binding (GO:0017075)			breast(2)|endometrium(4)|kidney(3)|large_intestine(6)|lung(21)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	42		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		TGCTATGGTTGACTACCTCCA	0.403																																																0													147	139	142					6																	147648298		2203	4300	6503	SO:0001583	missense	134957			AK055484	CCDS5211.1, CCDS47499.1	6q24.3	2013-01-10			ENSG00000164506	ENSG00000164506		"WD repeat domain containing"	19665	protein-coding gene	gene with protein product		604586				9620695, 14767561	Standard	NM_139244		Approved	tomosyn, LLGL3	uc010khz.2	Q5T5C0	OTTHUMG00000015766	ENST00000321680.6:c.1966G>C	6.37:g.147648298G>C	ENSP00000321826:p.Asp656His	Somatic		WXS	Illumina HiSeq	Phase_I	Q14DF3|Q5T5C1|Q5T5C2|Q8NBG8|Q96NG9	Missense_Mutation	SNP	ENST00000321680.6	37	CCDS47499.1	.	.	.	.	.	.	.	.	.	.	G	29.6	5.016315	0.93404	.	.	ENSG00000164506	ENST00000367479;ENST00000367481;ENST00000321680;ENST00000367480;ENST00000179882	T;T;T;T	0.74737	0.99;1.31;0.85;-0.87	6.07	6.07	0.98685	.	0.000000	0.85682	D	0.000000	D	0.87014	0.6072	M	0.83774	2.66	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.998	D	0.87084	0.2168	10	0.87932	D	0	.	20.6525	0.99598	0.0:0.0:1.0:0.0	.	656;656;327	Q5T5C0-2;Q5T5C0;B3KXX0	.;STXB5_HUMAN;.	H	3;656;656;656;327	ENSP00000356451:D656H;ENSP00000321826:D656H;ENSP00000356450:D656H;ENSP00000179882:D327H	ENSP00000179882:D327H	D	+	1	0	STXBP5	147689991	1.000000	0.71417	0.994000	0.49952	0.998000	0.95712	9.813000	0.99286	2.890000	0.99128	0.585000	0.79938	GAC		0.403	STXBP5-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042606.1			C	147648298	G	C	147648298	3	2	694	1	0	0	0	0	1	0	0	0	15368	1290	45	4	2036	4	STXBP5	6	147648298	Missense_Mutation	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	115990435	147648298	23466769	36	45274										
GRB10	2887	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	50742288	50742288	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gtgtctgactgcatgctgcaGgccgagtacaggctctccag	13	12	2	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr7:50742288G>A	ENST00000401949.1	-	6	676	c.207C>T	c.(205-207)gcC>gcT	p.A69A	GRB10_ENST00000398812.2_Silent_p.A69A|GRB10_ENST00000398810.2_Silent_p.A11A|GRB10_ENST00000439599.1_Silent_p.A63A|GRB10_ENST00000357271.5_Silent_p.A69A|GRB10_ENST00000402497.1_Silent_p.A11A|GRB10_ENST00000402578.1_Silent_p.A11A|GRB10_ENST00000403097.1_Silent_p.A63A|GRB10_ENST00000335866.3_Silent_p.A11A|GRB10_ENST00000406641.1_Silent_p.A11A|GRB10_ENST00000407526.1_Silent_p.A11A			Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10	69					insulin receptor signaling pathway (GO:0008286)|insulin-like growth factor receptor signaling pathway (GO:0048009)|negative regulation of glucose import (GO:0046325)|negative regulation of glycogen biosynthetic process (GO:0045719)|negative regulation of insulin receptor signaling pathway (GO:0046627)|negative regulation of phosphorylation (GO:0042326)|negative regulation of Wnt signaling pathway (GO:0030178)|positive regulation of phosphorylation (GO:0042327)|positive regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030949)|response to insulin (GO:0032868)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|plasma membrane (GO:0005886)	insulin receptor binding (GO:0005158)|SH3/SH2 adaptor activity (GO:0005070)			NS(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(2)|lung(19)|ovary(3)|skin(3)|upper_aerodigestive_tract(2)	41	Glioma(55;0.08)|all_neural(89;0.245)					GCATGCTGCAGGCCGAGTACA	0.587									Russell-Silver syndrome																																							0													57	63	61					7																	50742288		2066	4214	6280	SO:0001819	synonymous_variant	2887	Familial Cancer Database	Silver-Russell Dwarfism, Silver-Russell syndrome, SRS, Russel-Silver Dwarfism		CCDS43582.1, CCDS43583.1, CCDS47586.1	7p12.2	2013-02-14			ENSG00000106070	ENSG00000106070		"Pleckstrin homology (PH) domain containing", "SH2 domain containing"	4564	protein-coding gene	gene with protein product		601523					Standard	NM_005311		Approved		uc003tpi.2	Q13322	OTTHUMG00000150622	ENST00000401949.1:c.207C>T	7.37:g.50742288G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D258|A7VJ95|A8K0E6|D3DVM9|O00427|O00701|O75222|Q92606|Q92907|Q92948	Silent	SNP	ENST00000401949.1	37	CCDS43582.1																																																																																				0.587	GRB10-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319157.1			A	50742288	G	A	50742288	2	1	694	1	0	0	0	0	0	0	0	1	6763	987	35	2		2	GRB10	7	50742288	Silent	SNP	G	TCGA-MH-A562-01A-11D-A26P-10		50742288	108396375	37	45275										
WDR91	29062	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	134893687	134893687	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	aaaccaatccttccactcagCctggttctggagttccgtgg	9	13	2	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr7:134893687C>A	ENST00000354475.4	-	3	398	c.367G>T	c.(367-369)Gct>Tct	p.A123S	WDR91_ENST00000485942.1_5'Flank|WDR91_ENST00000344400.5_Missense_Mutation_p.A123S|WDR91_ENST00000423565.1_Missense_Mutation_p.A88S	NM_014149.3	NP_054868.3	A4D1P6	WDR91_HUMAN	WD repeat domain 91	123										breast(3)|endometrium(2)|kidney(2)|large_intestine(12)|lung(14)|ovary(1)|pancreas(1)|skin(3)|upper_aerodigestive_tract(2)	40						TTCCACTCAGCCTGGTTCTGG	0.537																																																0													184	155	165					7																	134893687		2203	4300	6503	SO:0001583	missense	29062			AF161534	CCDS34758.1	7q33	2013-01-09			ENSG00000105875	ENSG00000105875		"WD repeat domain containing"	24997	protein-coding gene	gene with protein product						11042152, 11230166	Standard	NM_014149		Approved	HSPC049	uc003vsp.2	A4D1P6	OTTHUMG00000155414	ENST00000354475.4:c.367G>T	7.37:g.134893687C>A	ENSP00000346466:p.Ala123Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NK54|C9JMI4|Q6FI65|Q6MZQ1|Q6P4I1|Q96AE5|Q96G63|Q9H062|Q9H9B6|Q9NVG7|Q9NZY6	Missense_Mutation	SNP	ENST00000354475.4	37	CCDS34758.1	.	.	.	.	.	.	.	.	.	.	C	10.92	1.488114	0.26686	.	.	ENSG00000105875	ENST00000344400;ENST00000354475;ENST00000423565	D;D;D	0.91521	-2.86;-2.86;-2.86	5.77	4.89	0.63831	.	0.145674	0.64402	D	0.000009	D	0.82733	0.5101	N	0.25890	0.77	0.58432	D	0.999999	P	0.41524	0.753	B	0.35278	0.199	T	0.81028	-0.1118	10	0.18276	T	0.48	-19.4769	15.1712	0.72875	0.0:0.9322:0.0:0.0678	.	123	A4D1P6	WDR91_HUMAN	S	123;123;88	ENSP00000340877:A123S;ENSP00000346466:A123S;ENSP00000392555:A88S	ENSP00000340877:A123S	A	-	1	0	WDR91	134544227	1.000000	0.71417	0.998000	0.56505	0.041000	0.13682	4.739000	0.62080	1.587000	0.49959	-0.145000	0.13849	GCT		0.537	WDR91-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000340019.1	NM_014149		A	134893687	C	A	134893687	3	1	694	1	0	0	0	0	1	0	0	0	17350	739	26	4	1928	4	WDR91	7	134893687	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	84151399	134893687	24244976	38	45276										
CSMD1	64478	bcgsc.ca	37	chr8	2832127	2832127	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	acggcgttggcagggaccccTgggtgtccacacgatatagc	14	12	0	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr8:2832127T>C	ENST00000520002.1	-	57	9144	c.8589A>G	c.(8587-8589)ccA>ccG	p.P2863P	CSMD1_ENST00000537824.1_Silent_p.P2862P|CSMD1_ENST00000602723.1_Silent_p.P2805P|CSMD1_ENST00000400186.3_Silent_p.P2805P|CSMD1_ENST00000542608.1_Silent_p.P2804P|CSMD1_ENST00000602557.1_Silent_p.P2863P			Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1	2863	Sushi 21. {ECO:0000255|PROSITE- ProRule:PRU00302}.					integral component of membrane (GO:0016021)				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)		CAGGGACCCCTGGGTGTCCAC	0.502																																																0													32	34	34					8																	2832127		1949	4131	6080	SO:0001819	synonymous_variant	64478					8p23.2	2012-04-17			ENSG00000183117	ENSG00000183117		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	14026	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 24"	608397					Standard	NM_033225		Approved	KIAA1890, PPP1R24	uc022aqr.1	Q96PZ7	OTTHUMG00000163605	ENST00000520002.1:c.8589A>G	8.37:g.2832127T>C		Somatic		WXS	Illumina HiSeq	Phase_1	Q0H0J5|Q96QU9|Q96RM4	Silent	SNP	ENST00000520002.1	37		.	.	.	.	.	.	.	.	.	.	T	1.147	-0.647742	0.03506	.	.	ENSG00000183117	ENST00000335551	.	.	.	5.81	-9.87	0.00470	.	.	.	.	.	T	0.44180	0.1281	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.53514	-0.8428	4	.	.	.	.	7.2183	0.25971	0.374:0.3553:0.0:0.2707	.	.	.	.	G	2280	.	.	R	-	1	2	CSMD1	2819534	0.049000	0.20398	0.145000	0.22337	0.041000	0.13682	-0.674000	0.05233	-1.259000	0.02468	0.533000	0.62120	AGG		0.502	CSMD1-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000374500.2	NM_033225		C	2832127	T	C	2832127	2	2	694	1	0	0	0	0	0	0	0	1	3946	1567	55	3		3	CSMD1	8	2832127	Silent	SNP	T	TCGA-MH-A562-01A-11D-A26P-10		2832127	143531895	39	45277										
ZFHX4	79776	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	77616434	77616434	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gtgccagagaaagttgcaggGatggagcctgacagggaaaa	16	6	0	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr8:77616434G>A	ENST00000521891.2	+	2	559	c.111G>A	c.(109-111)ggG>ggA	p.G37G	ZFHX4_ENST00000517683.1_Intron|ZFHX4_ENST00000050961.6_Silent_p.G37G|ZFHX4_ENST00000455469.2_Silent_p.G37G|ZFHX4_ENST00000518282.1_Silent_p.G37G	NM_024721.4	NP_078997.4	Q86UP3	ZFHX4_HUMAN	zinc finger homeobox 4	37					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|zinc ion binding (GO:0008270)			NS(3)|breast(11)|central_nervous_system(1)|endometrium(36)|haematopoietic_and_lymphoid_tissue(2)|kidney(15)|large_intestine(66)|liver(2)|lung(245)|ovary(11)|pancreas(3)|prostate(11)|skin(7)|upper_aerodigestive_tract(13)|urinary_tract(6)	432			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AAGTTGCAGGGATGGAGCCTG	0.502										HNSCC(33;0.089)																																						0													64	67	66					8																	77616434		2025	4211	6236	SO:0001819	synonymous_variant	79776				CCDS47878.1, CCDS47878.2	8q21.11	2012-07-02	2007-07-16		ENSG00000091656	ENSG00000091656		"Homeoboxes / ZF class"	30939	protein-coding gene	gene with protein product		606940	"zinc finger homeodomain 4"			10873665, 11935336	Standard	NM_024721		Approved	ZFH4, FLJ20980	uc003yau.2	Q86UP3	OTTHUMG00000164557	ENST00000521891.2:c.111G>A	8.37:g.77616434G>A		Somatic		WXS	Illumina HiSeq	Phase_I	G3V138|Q18PS0|Q6ZN20	Silent	SNP	ENST00000521891.2	37	CCDS47878.2																																																																																				0.502	ZFHX4-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000379197.2	NM_024721		A	77616434	G	A	77616434	2	1	694	1	0	0	0	0	0	0	0	1	17647	1161	41	2		2	ZFHX4	8	77616434	Silent	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	74784307	77616434	68747588	40	45278										
NFKBIL2	4796	hgsc.bcm.edu	37	chr8	145654714	145654714	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gcccaggggaccctggacggCgcagcctgcggaggggaaga	19	12	0	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr8:145654714C>T	ENST00000409379.3	-	26	3978	c.3949G>A	c.(3949-3951)Gcc>Acc	p.A1317T	VPS28_ENST00000529182.1_5'Flank|VPS28_ENST00000526054.1_5'Flank|VPS28_ENST00000526734.1_5'Flank|VPS28_ENST00000377348.2_5'Flank|VPS28_ENST00000292510.4_5'Flank	NM_013432.4	NP_038460.4	Q96HA7	TONSL_HUMAN	tonsoku-like, DNA repair protein	1317					cytoplasmic sequestering of transcription factor (GO:0042994)|double-strand break repair via homologous recombination (GO:0000724)|regulation of RNA biosynthetic process (GO:2001141)|replication fork processing (GO:0031297)	cytoplasm (GO:0005737)|nuclear replication fork (GO:0043596)|nucleus (GO:0005634)	histone binding (GO:0042393)|transcription corepressor activity (GO:0003714)			biliary_tract(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|lung(14)|ovary(3)|prostate(1)|skin(1)	26						CCCTGGACGGCGCAGCCTGCG	0.706																																																0													5	5	5					8																	145654714		2056	4038	6094	SO:0001583	missense	4796				CCDS34968.2	8q24.3	2013-01-10	2010-12-02	2010-11-30	ENSG00000160949	ENSG00000160949		"Ankyrin repeat domain containing"	7801	protein-coding gene	gene with protein product		604546	"nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor-like 2"	NFKBIL2		7738005, 11246458	Standard	NM_013432		Approved	IKBR	uc011llg.2	Q96HA7	OTTHUMG00000153122	ENST00000409379.3:c.3949G>A	8.37:g.145654714C>T	ENSP00000386239:p.Ala1317Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDP0|C9JKB1|C9JNV8|Q13006|Q9UGJ2	Missense_Mutation	SNP	ENST00000409379.3	37	CCDS34968.2	.	.	.	.	.	.	.	.	.	.	c	8.974	0.973627	0.18736	.	.	ENSG00000160949	ENST00000409379;ENST00000422691	T	0.52983	0.64	5.39	0.26	0.15588	.	0.776034	0.12482	N	0.465083	T	0.35624	0.0938	L	0.47016	1.485	0.09310	N	1	B	0.20052	0.041	B	0.06405	0.002	T	0.28522	-1.0041	10	0.54805	T	0.06	-3.5453	5.4749	0.16690	0.5793:0.2411:0.0:0.1796	.	1317	Q96HA7	TONSL_HUMAN	T	1317;1316	ENSP00000386239:A1317T	ENSP00000386239:A1317T	A	-	1	0	TONSL	145625522	0.000000	0.05858	0.421000	0.26609	0.136000	0.21042	-0.691000	0.05133	0.097000	0.17492	0.511000	0.50034	GCC		0.706	TONSL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329668.2	NM_013432		T	145654714	C	T	145654714	3	4	694	1	0	0	0	0	1	0	0	0	10389	768	27	1	191	1	NFKBIL2	8	145654714	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	68038280	145654714	709308	41	45279										
CD274	29126	broad.mit.edu	37	chr9	5457410	5457410	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gactacaagcgaattactgtGaaagtcaatggtaagaatta	9	5	1	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr9:5457410G>A	ENST00000381577.3	+	3	470	c.384G>A	c.(382-384)gtG>gtA	p.V128V	CD274_ENST00000498261.1_3'UTR|CD274_ENST00000381573.4_Intron	NM_014143.3	NP_054862.1	Q9NZQ7	PD1L1_HUMAN	CD274 molecule	128					cell surface receptor signaling pathway (GO:0007166)|immune response (GO:0006955)|negative regulation of T cell proliferation (GO:0042130)|positive regulation of interleukin-10 secretion (GO:2001181)|positive regulation of T cell proliferation (GO:0042102)|signal transduction (GO:0007165)|T cell costimulation (GO:0031295)	external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				central_nervous_system(1)|kidney(1)|large_intestine(4)|lung(4)|ovary(1)	11	all_hematologic(13;0.158)	Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000742)|Lung(218;0.111)		GAATTACTGTGAAAGTCAATG	0.398			T	CIITA	"PMBL, Hodgkin Lymphona, "																																		Dom	yes		9	9p24	29126	CD274 molecule		L	0													38	41	40					9																	5457410		2203	4300	6503	SO:0001819	synonymous_variant	29126			AF177937	CCDS6464.1, CCDS59118.1	9p24.1	2014-01-30	2006-03-28	2005-02-25	ENSG00000120217	ENSG00000120217		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Endogenous ligands"	17635	protein-coding gene	gene with protein product	"B7 homolog 1"	605402	"programmed cell death 1 ligand 1", "CD274 antigen"	PDCD1LG1		11015443, 10581077	Standard	NM_014143		Approved	B7-H, B7H1, PD-L1, PDL1, B7-H1	uc003zje.3	Q9NZQ7	OTTHUMG00000019503	ENST00000381577.3:c.384G>A	9.37:g.5457410G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBA2|B4DU27|Q14CJ2|Q2V8D5|Q66RK1|Q6WEX4|Q9NUZ5	Silent	SNP	ENST00000381577.3	37	CCDS6464.1																																																																																				0.398	CD274-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051631.2	NM_014143		A	5457410	G	A	5457410	2	1	694	1	0	0	0	0	0	0	0	1	2993	1277	45	2		2	CD274	9	5457410	Silent	SNP	G	TCGA-MH-A562-01A-11D-A26P-10		5457410	135756021	42	45280										
FOXD4L5	653427	broad.mit.edu	37	chr9	70177822	70177822	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	acctgcagccccggctggagTgactgctctaggaactgctg	13	13	1	1	rs199878768	byFrequency	TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr9:70177822T>C	ENST00000377420.1	-	1	993	c.162A>G	c.(160-162)tcA>tcG	p.S54S		NM_001126334.1	NP_001119806.1	Q5VV16	FX4L5_HUMAN	forkhead box D4-like 5	54					transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(5)|lung(2)	7						CCGGCTGGAGTGACTGCTCTA	0.642													C|||	4144	0.827476	0.5461	0.9337	5008	,	,		2717	0.8869		0.9573	False		,,,				2504	0.9376															0													23	1	10					9																	70177822		359	613	972	SO:0001819	synonymous_variant	653427				CCDS47977.1	9q13	2008-07-21			ENSG00000204779	ENSG00000204779			18522	protein-coding gene	gene with protein product						12234674	Standard	NM_001126334		Approved	bA15J10.2, OTTHUMG00000013332	uc010moc.3	Q5VV16	OTTHUMG00000013332	ENST00000377420.1:c.162A>G	9.37:g.70177822T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000377420.1	37	CCDS47977.1																																																																																				0.642	FOXD4L5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000037122.1	NM_001126334		C	70177822	T	C	70177822	2	2	694	1	0	0	0	0	0	0	0	1	6009	1683	59	3		3	FOXD4L5	9	70177822	Silent	SNP	T	TCGA-MH-A562-01A-11D-A26P-10	64720412	70177822	71035609	43	45281										
NRP1	8829	ucsc.edu;bcgsc.ca	37	chr10	33543118	33543118	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	cccagagcttccatacatttGaaatctgaagggaaaaacag	8	9	1	3			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr10:33543118G>A	ENST00000265371.4	-	7	1344	c.819C>T	c.(817-819)ttC>ttT	p.F273F	NRP1_ENST00000374867.2_Silent_p.F273F|NRP1_ENST00000374822.4_Silent_p.F273F|NRP1_ENST00000374816.3_Silent_p.F273F|NRP1_ENST00000374821.5_Silent_p.F273F|NRP1_ENST00000374823.5_Silent_p.F273F|NRP1_ENST00000432372.2_Silent_p.F273F|NRP1_ENST00000395995.1_Silent_p.F273F|NRP1_ENST00000374875.1_Silent_p.F92F			O14786	NRP1_HUMAN	neuropilin 1	273					angiogenesis (GO:0001525)|angiogenesis involved in coronary vascular morphogenesis (GO:0060978)|artery morphogenesis (GO:0048844)|axon extension involved in axon guidance (GO:0048846)|axon guidance (GO:0007411)|axonal fasciculation (GO:0007413)|axonogenesis involved in innervation (GO:0060385)|branchiomotor neuron axon guidance (GO:0021785)|cell adhesion (GO:0007155)|cell migration involved in sprouting angiogenesis (GO:0002042)|cell-cell signaling (GO:0007267)|cellular response to hepatocyte growth factor stimulus (GO:0035729)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|commissural neuron axon guidance (GO:0071679)|coronary artery morphogenesis (GO:0060982)|dendrite development (GO:0016358)|dichotomous subdivision of terminal units involved in salivary gland branching (GO:0060666)|endothelial cell chemotaxis (GO:0035767)|endothelial tip cell fate specification (GO:0097102)|facial nerve structural organization (GO:0021612)|gonadotrophin-releasing hormone neuronal migration to the hypothalamus (GO:0021828)|hepatocyte growth factor receptor signaling pathway (GO:0048012)|negative regulation of axon extension involved in axon guidance (GO:0048843)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of neuron apoptotic process (GO:0043524)|nerve development (GO:0021675)|neural crest cell migration involved in autonomic nervous system development (GO:1901166)|neuron migration (GO:0001764)|organ morphogenesis (GO:0009887)|patterning of blood vessels (GO:0001569)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive chemotaxis (GO:0050918)|positive regulation of axon extension involved in axon guidance (GO:0048842)|positive regulation of cytokine activity (GO:0060301)|positive regulation of endothelial cell migration (GO:0010595)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|positive regulation of retinal ganglion cell axon guidance (GO:1902336)|positive regulation of smooth muscle cell migration (GO:0014911)|protein localization to early endosome (GO:1902946)|regulation of retinal ganglion cell axon guidance (GO:0090259)|regulation of vesicle-mediated transport (GO:0060627)|renal artery morphogenesis (GO:0061441)|response to wounding (GO:0009611)|retina vasculature morphogenesis in camera-type eye (GO:0061299)|retinal ganglion cell axon guidance (GO:0031290)|semaphorin-plexin signaling pathway (GO:0071526)|semaphorin-plexin signaling pathway involved in axon guidance (GO:1902287)|semaphorin-plexin signaling pathway involved in neuron projection guidance (GO:1902285)|signal transduction (GO:0007165)|sprouting angiogenesis (GO:0002040)|sympathetic ganglion development (GO:0061549)|sympathetic neuron projection extension (GO:0097490)|sympathetic neuron projection guidance (GO:0097491)|trigeminal nerve structural organization (GO:0021637)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)|VEGF-activated neuropilin signaling pathway (GO:0038190)|VEGF-activated neuropilin signaling pathway involved in axon guidance (GO:1902378)	axon (GO:0030424)|cell surface (GO:0009986)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|early endosome (GO:0005769)|extracellular space (GO:0005615)|focal adhesion (GO:0005925)|growth cone (GO:0030426)|integral component of membrane (GO:0016021)|neurofilament (GO:0005883)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)|semaphorin receptor complex (GO:0002116)|sorting endosome (GO:0097443)	coreceptor activity (GO:0015026)|cytokine binding (GO:0019955)|growth factor binding (GO:0019838)|heparin binding (GO:0008201)|metal ion binding (GO:0046872)|semaphorin receptor activity (GO:0017154)|vascular endothelial growth factor binding (GO:0038085)|vascular endothelial growth factor-activated receptor activity (GO:0005021)			NS(2)|breast(6)|central_nervous_system(4)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(16)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|stomach(2)	48					Palifermin(DB00039)|Pegaptanib(DB04895)	CCATACATTTGAAATCTGAAG	0.418																																					Melanoma(104;886 1489 44640 45944 51153)											0													69	67	68					10																	33543118		2203	4300	6503	SO:0001819	synonymous_variant	8829			AF016050	CCDS7177.1, CCDS31179.1, CCDS31180.1	10p12	2006-02-23			ENSG00000099250	ENSG00000099250		"CD molecules"	8004	protein-coding gene	gene with protein product		602069				9529250, 9331348	Standard	NM_003873		Approved	NRP, VEGF165R, CD304	uc001iwx.4	O14786	OTTHUMG00000019343	ENST00000265371.4:c.819C>T	10.37:g.33543118G>A		Somatic		WXS	Illumina HiSeq		B0LPG9|O60461|Q5T7F1|Q5T7F2|Q5T7F3|Q86T59|Q96I90|Q96IH5	Silent	SNP	ENST00000265371.4	37	CCDS7177.1	.	.	.	.	.	.	.	.	.	.	G	9.065	0.995376	0.19043	.	.	ENSG00000099250	ENST00000455749	.	.	.	5.28	2.14	0.27477	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-24.4103	8.6907	0.34264	0.3214:0.0:0.6786:0.0	.	.	.	.	X	74	.	.	Q	-	1	0	NRP1	33583124	1.000000	0.71417	0.999000	0.59377	0.954000	0.61252	1.436000	0.34980	0.214000	0.20742	0.650000	0.86243	CAA		0.418	NRP1-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051203.2			A	33543118	G	A	33543118	2	1	694	1	0	0	0	0	0	0	0	1	10667	1281	45	2		2	NRP1	10	33543118	Silent	SNP	G	TCGA-MH-A562-01A-11D-A26P-10		33543118	101991629	44	45282										
OPN4	94233	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	88419072	88419072	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	aggcgcctacgtgcccgaggGgttgctgacatcctgctcct	13	14	0	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr10:88419072G>A	ENST00000241891.5	+	5	814	c.647G>A	c.(646-648)gGg>gAg	p.G216E	OPN4_ENST00000372071.2_Missense_Mutation_p.G227E	NM_033282.3	NP_150598.1	Q9UHM6	OPN4_HUMAN	opsin 4	216					phototransduction (GO:0007602)|protein-chromophore linkage (GO:0018298)|regulation of circadian rhythm (GO:0042752)|rhodopsin mediated signaling pathway (GO:0016056)|rhythmic process (GO:0048511)|visual perception (GO:0007601)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	11-cis retinal binding (GO:0005502)|G-protein coupled photoreceptor activity (GO:0008020)	p.G227V(2)		breast(1)|endometrium(3)|kidney(2)|large_intestine(2)|liver(2)|lung(5)|ovary(3)	18						GTGCCCGAGGGGTTGCTGACA	0.612																																																2	Substitution - Missense(2)	liver(2)											167	135	146					10																	88419072		2203	4300	6503	SO:0001583	missense	94233			AF147788	CCDS7376.1, CCDS31237.1	10q22	2012-08-08	2008-04-16		ENSG00000122375	ENSG00000122375		"GPCR / Class A : Opsin receptors"	14449	protein-coding gene	gene with protein product	"melanopsin"	606665	"opsin 4 (melanopsin)"			10632589	Standard	NM_001030015		Approved	MOP, melanopsin	uc001kdp.3	Q9UHM6	OTTHUMG00000018654	ENST00000241891.5:c.647G>A	10.37:g.88419072G>A	ENSP00000241891:p.Gly216Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLB3|Q14D01|Q2PP22|Q8NGQ9	Missense_Mutation	SNP	ENST00000241891.5	37	CCDS7376.1	.	.	.	.	.	.	.	.	.	.	G	29.2	4.985781	0.93044	.	.	ENSG00000122375	ENST00000372071;ENST00000241891;ENST00000443292	T;T;T	0.70282	-0.47;-0.47;-0.47	5.15	5.15	0.70609	GPCR, rhodopsin-like superfamily (1);	0.000000	0.85682	D	0.000000	D	0.86694	0.5994	M	0.87269	2.87	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.89121	0.3503	10	0.87932	D	0	.	18.6376	0.91384	0.0:0.0:1.0:0.0	.	227;216;227	C9JWU6;Q9UHM6;Q9UHM6-2	.;OPN4_HUMAN;.	E	227;216;227	ENSP00000361141:G227E;ENSP00000241891:G216E;ENSP00000393132:G227E	ENSP00000241891:G216E	G	+	2	0	OPN4	88409052	1.000000	0.71417	1.000000	0.80357	0.948000	0.59901	9.705000	0.98719	2.397000	0.81536	0.655000	0.94253	GGG		0.612	OPN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049158.2	NM_033282		A	88419072	G	A	88419072	3	1	694	1	0	0	0	0	1	0	0	0	10889	1232	43	2	702	2	OPN4	10	88419072	Missense_Mutation	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	54875954	88419072	47115675	45	45283										
KCNA4	3739	hgsc.bcm.edu;broad.mit.edu	37	chr11	30034138	30034138	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ggagtgagcaagcctctcccGctcccgggcccgggcctggg	16	16	1	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr11:30034138G>A	ENST00000328224.6	-	2	1321	c.88C>T	c.(88-90)Cgg>Tgg	p.R30W	KCNA4_ENST00000526518.1_5'Flank	NM_002233.3	NP_002224.1	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related subfamily, member 4	30					potassium ion transport (GO:0006813)|protein homooligomerization (GO:0051260)|synaptic transmission (GO:0007268)	plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	potassium ion binding (GO:0030955)|voltage-gated potassium channel activity (GO:0005249)			central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(17)|lung(39)|ovary(3)|pancreas(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(4)|urinary_tract(1)	78					Dalfampridine(DB06637)	AGCCTCTCCCGCTCCCGGGCC	0.637																																																0													58	60	59					11																	30034138		1910	4113	6023	SO:0001583	missense	3739			M55514	CCDS41629.1	11p14	2012-07-05	2002-07-10			ENSG00000182255		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6222	protein-coding gene	gene with protein product		176266	"potassium voltage-gated channel, shaker-related subfamily, member 4-like"	KCNA4L		2263489, 16382104	Standard	NM_002233		Approved	Kv1.4, HK1, HPCN2	uc001msk.3	P22459		ENST00000328224.6:c.88C>T	11.37:g.30034138G>A	ENSP00000328511:p.Arg30Trp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000328224.6	37	CCDS41629.1	.	.	.	.	.	.	.	.	.	.	G	15.97	2.988463	0.53934	.	.	ENSG00000182255	ENST00000328224	D	0.98012	-4.66	4.97	2.88	0.33553	Potassium channel, voltage dependent, Kv1.4, tandem inactivation (2);	269.221000	0.00166	N	0.000002	D	0.95290	0.8472	N	0.24115	0.695	0.47276	D	0.999375	B	0.29671	0.254	B	0.21360	0.034	T	0.80362	-0.1414	10	0.87932	D	0	.	14.4391	0.67303	0.0:0.0:0.6478:0.3522	.	30	P22459	KCNA4_HUMAN	W	30	ENSP00000328511:R30W	ENSP00000328511:R30W	R	-	1	2	KCNA4	29990714	1.000000	0.71417	0.992000	0.48379	0.963000	0.63663	0.619000	0.24388	1.065000	0.40693	0.655000	0.94253	CGG		0.637	KCNA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388074.2	NM_002233		A	30034138	G	A	30034138	3	1	694	1	0	0	0	0	1	0	0	0	8012	1086	38	1	1877	1	KCNA4	11	30034138	Missense_Mutation	SNP	G	TCGA-MH-A562-01A-11D-A26P-10		30034138	104972378	46	45284										
API5	8539	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	43350300	43350300	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ccagaagaggcagaaaatggAgagaatgctggtaatgaaga	14	4	0	6			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr11:43350300A>T	ENST00000531273.1	+	9	1123	c.984A>T	c.(982-984)ggA>ggT	p.G328G	API5_ENST00000378852.3_Silent_p.G328G|API5_ENST00000455725.2_Silent_p.G317G|API5_ENST00000420461.2_Silent_p.G274G|API5_ENST00000534695.1_Intron|RP11-484D2.2_ENST00000526220.1_RNA|API5_ENST00000534600.1_Silent_p.G328G|Y_RNA_ENST00000516843.1_RNA			Q9BZZ5	API5_HUMAN	apoptosis inhibitor 5	328	ARM-like and Heat-like helical repeats.				apoptotic process (GO:0006915)|negative regulation of apoptotic process (GO:0043066)|negative regulation of fibroblast apoptotic process (GO:2000270)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)	fibroblast growth factor binding (GO:0017134)|poly(A) RNA binding (GO:0044822)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(2)|lung(8)|ovary(1)|prostate(2)|urinary_tract(1)	20						CAGAAAATGGAGAGAATGCTG	0.373																																					Pancreas(1;98 122 5625 20895 49453)											0													82	72	75					11																	43350300		2203	4300	6503	SO:0001819	synonymous_variant	8539			U83857	CCDS31465.1, CCDS44572.1, CCDS44573.1	11p12	2010-09-30			ENSG00000166181	ENSG00000166181			594	protein-coding gene	gene with protein product	"API5-like 1", "fibroblast growth factor 2-interacting factor 2", "migration-inducing protein MIG8"	609774				9307294	Standard	NR_024625		Approved	AAC-11, API5L1, AAC11	uc010rfh.1	Q9BZZ5	OTTHUMG00000166395	ENST00000531273.1:c.984A>T	11.37:g.43350300A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DGR0|B4DRJ2|D3DR21|O15441|Q9Y4J7	Silent	SNP	ENST00000531273.1	37	CCDS44572.1																																																																																				0.373	API5-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000389545.1	NM_006595		T	43350300	A	T	43350300	2	4	694	1	0	0	0	0	0	0	0	1	773	291	11	5		5	API5	11	43350300	Silent	SNP	A	TCGA-MH-A562-01A-11D-A26P-10	13316162	43350300	91656216	47	45285										
NRXN2	9379	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	64428553	64428553	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	agctcactctccaggtccagAatctcgctgtctccagtggc	9	15	4	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr11:64428553A>T	ENST00000377551.1	-	9	2068	c.1857T>A	c.(1855-1857)atT>atA	p.I619I	NRXN2_ENST00000377559.3_Silent_p.I588I|NRXN2_ENST00000265459.6_Silent_p.I619I|NRXN2_ENST00000409571.1_Silent_p.I612I|AP001092.4_ENST00000433606.1_RNA|NRXN2_ENST00000496291.1_5'UTR			Q9P2S2	NRX2A_HUMAN	neurexin 2	619	Laminin G-like 3. {ECO:0000255|PROSITE- ProRule:PRU00122}.				adult behavior (GO:0030534)|gephyrin clustering (GO:0097116)|neuroligin clustering (GO:0097118)|neuron cell-cell adhesion (GO:0007158)|neurotransmitter secretion (GO:0007269)|postsynaptic density protein 95 clustering (GO:0097119)|postsynaptic membrane assembly (GO:0097104)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)|vocal learning (GO:0042297)|vocalization behavior (GO:0071625)	integral component of membrane (GO:0016021)	calcium channel regulator activity (GO:0005246)|cell adhesion molecule binding (GO:0050839)|metal ion binding (GO:0046872)|neuroligin family protein binding (GO:0097109)			breast(2)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(6)|liver(1)|lung(34)|ovary(6)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(6)|urinary_tract(1)	71						CCAGGTCCAGAATCTCGCTGT	0.637																																																0													28	31	30					11																	64428553		2201	4297	6498	SO:0001819	synonymous_variant	9379				CCDS8077.1, CCDS31597.1, CCDS8078.1	11q13	2008-07-18			ENSG00000110076	ENSG00000110076			8009	protein-coding gene	gene with protein product	"neurexin II"	600566				1621094	Standard	NM_015080		Approved		uc021qkw.1	P58401	OTTHUMG00000045214	ENST00000377551.1:c.1857T>A	11.37:g.64428553A>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7E2C1|Q9Y2D6	Silent	SNP	ENST00000377551.1	37	CCDS8077.1																																																																																				0.637	NRXN2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000104967.3	NM_015080		T	64428553	A	T	64428553	2	4	694	1	0	0	0	0	0	0	0	1	10673	242	9	5		5	NRXN2	11	64428553	Silent	SNP	A	TCGA-MH-A562-01A-11D-A26P-10	21078253	64428553	70577963	48	45286										
MCAM	4162	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	119185945	119185945	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tccacctccaccagctcaggCgcaggctgctcagcctctcc	8	20	3	0	rs558009680		TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr11:119185945C>T	ENST00000264036.4	-	2	110	c.96G>A	c.(94-96)gcG>gcA	p.A32A	MCAM_ENST00000530144.2_5'UTR|MCAM_ENST00000392814.1_5'Flank	NM_006500.2	NP_006491.2	P43121	MUC18_HUMAN	melanoma cell adhesion molecule	32	Ig-like V-type 1.				anatomical structure morphogenesis (GO:0009653)|cell adhesion (GO:0007155)|glomerular filtration (GO:0003094)|vascular wound healing (GO:0061042)	external side of plasma membrane (GO:0009897)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(2)|central_nervous_system(2)|endometrium(2)|large_intestine(4)|lung(6)|ovary(2)|prostate(3)|skin(1)	22		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.78e-05)		CCAGCTCAGGCGCAGGCTGCT	0.682													C|||	1	0.000199681	0.0008	0.0	5008	,	,		15849	0.0		0.0	False		,,,				2504	0.0															0													41	37	38					11																	119185945		2199	4294	6493	SO:0001819	synonymous_variant	4162			X68264	CCDS31690.1	11q23.3	2013-01-29				ENSG00000076706		"CD molecules", "Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / C2-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6934	protein-coding gene	gene with protein product	"Gicerin"	155735				2602381, 10702685	Standard	XM_005271552		Approved	MUC18, CD146	uc001pwf.3	P43121		ENST00000264036.4:c.96G>A	11.37:g.119185945C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O95812|Q59E86|Q6PHR3|Q6ZTR2	Silent	SNP	ENST00000264036.4	37	CCDS31690.1																																																																																				0.682	MCAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388332.2			T	119185945	C	T	119185945	2	4	694	1	0	0	0	0	0	0	0	1	9375	755	27	1		1	MCAM	11	119185945	Silent	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	54757392	119185945	15820571	49	45287										
KIAA0528	9847	broad.mit.edu	37	chr12	22646273	22646273	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tctcgagtttctggttcatcTgaaaaataaattttaaatca	5	6	5	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr12:22646273T>A	ENST00000333957.4	-	11	1403		c.e11-2		C2CD5_ENST00000446597.1_Splice_Site|C2CD5_ENST00000536386.1_Splice_Site|C2CD5_ENST00000396028.2_Splice_Site|C2CD5_ENST00000545552.1_Splice_Site|C2CD5_ENST00000544930.1_Splice_Site|C2CD5_ENST00000542676.1_Splice_Site	NM_014802.1	NP_055617.1	Q86YS7	C2CD5_HUMAN	C2 calcium-dependent domain containing 5						cellular response to insulin stimulus (GO:0032869)|insulin receptor signaling pathway via phosphatidylinositol 3-kinase (GO:0038028)|intracellular protein transmembrane transport (GO:0065002)|positive regulation of glucose transport (GO:0010828)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of vesicle fusion (GO:0031340)	cell cortex (GO:0005938)|cytoplasmic vesicle membrane (GO:0030659)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)	calcium ion binding (GO:0005509)|calcium-dependent phospholipid binding (GO:0005544)										CTGGTTCATCTGAAAAATAAA	0.318																																																0													151	136	141					12																	22646273		2203	4300	6503	SO:0001630	splice_region_variant	9847			AB011100	CCDS31758.1, CCDS66337.1, CCDS66338.1, CCDS66339.1, CCDS66340.1	12p12.1	2012-12-13	2012-12-13	2012-12-13	ENSG00000111731	ENSG00000111731			29062	protein-coding gene	gene with protein product	"138 kDa C2 domain-containing phosphoprotein"		"KIAA0528"	KIAA0528		21907143	Standard	XM_005253538		Approved	CDP138	uc001rfq.3	Q86YS7	OTTHUMG00000169100	ENST00000333957.4:c.1148-2A>T	12.37:g.22646273T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DJ03|B4DRN7|B7ZLL0|F5H2A1|F5H5R1|O60280|Q17RY7|Q7Z619|Q86SU3	Splice_Site	SNP	ENST00000333957.4	37	CCDS31758.1	.	.	.	.	.	.	.	.	.	.	T	23.9	4.474467	0.84640	.	.	ENSG00000111731	ENST00000333957;ENST00000446597;ENST00000536386;ENST00000396028;ENST00000542676;ENST00000545552;ENST00000544930;ENST00000535555	.	.	.	5.71	5.71	0.89125	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.5538	0.68086	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	KIAA0528	22537540	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.895000	0.87343	2.176000	0.68965	0.477000	0.44152	.		0.318	C2CD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402257.1	NM_014802	Intron	A	22646273	T	A	22646273	5	1	694	1	0	0	0	0	0	0	1	0	8189	1594	55	5	1916	5	KIAA0528	12	22646273	Splice_Site	SNP	T	TCGA-MH-A562-01A-11D-A26P-10		22646273	111205622	50	45288										
GLI1	2735	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	57861257	57861257	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ccagtgaccgagccaagcacCagaatcggacccattccaat	8	15	0	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr12:57861257C>A	ENST00000228682.2	+	9	1145	c.1054C>A	c.(1054-1056)Cag>Aag	p.Q352K	GLI1_ENST00000543426.1_Missense_Mutation_p.Q224K|GLI1_ENST00000546141.1_Missense_Mutation_p.Q311K	NM_005269.2	NP_005260.1	P08151	GLI1_HUMAN	GLI family zinc finger 1	352					cerebellar cortex morphogenesis (GO:0021696)|digestive tract morphogenesis (GO:0048546)|dorsal/ventral pattern formation (GO:0009953)|epidermal cell differentiation (GO:0009913)|lung development (GO:0030324)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|notochord regression (GO:0060032)|osteoblast differentiation (GO:0001649)|pituitary gland development (GO:0021983)|positive regulation of cell proliferation (GO:0008284)|positive regulation of DNA replication (GO:0045740)|positive regulation of smoothened signaling pathway (GO:0045880)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|proximal/distal pattern formation (GO:0009954)|regulation of smoothened signaling pathway (GO:0008589)|smoothened signaling pathway (GO:0007224)|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation (GO:0021938)|spermatogenesis (GO:0007283)|ventral midline development (GO:0007418)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)|primary cilium (GO:0072372)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|transcription regulatory region DNA binding (GO:0044212)			NS(1)|breast(7)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(4)|kidney(2)|large_intestine(8)|lung(22)|ovary(6)|pancreas(2)|prostate(2)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	69			GBM - Glioblastoma multiforme(3;3.99e-32)			AGCCAAGCACCAGAATCGGAC	0.547																																					Pancreas(157;841 1936 10503 41495 50368)											0													120	80	94					12																	57861257		2203	4300	6503	SO:0001583	missense	2735				CCDS8940.1, CCDS53806.1, CCDS53807.1	12q13.2-q13.3	2013-01-25	2009-03-05	2005-01-14		ENSG00000111087		"Zinc fingers, C2H2-type"	4317	protein-coding gene	gene with protein product		165220	"glioma-associated oncogene homolog 1 (zinc finger protein)", "glioma-associated oncogene family zinc finger 1"	GLI		2850480	Standard	NM_005269		Approved		uc001snx.3	P08151		ENST00000228682.2:c.1054C>A	12.37:g.57861257C>A	ENSP00000228682:p.Gln352Lys	Somatic		WXS	Illumina HiSeq	Phase_I	D0EUY3|E9PQQ9|F5H6H8|Q8TDN9	Missense_Mutation	SNP	ENST00000228682.2	37	CCDS8940.1	.	.	.	.	.	.	.	.	.	.	C	29.4	5.001063	0.93227	.	.	ENSG00000111087	ENST00000543426;ENST00000228682;ENST00000546141;ENST00000528467;ENST00000443131	T;T;T;T	0.24151	1.87;1.87;1.87;1.87	4.77	4.77	0.60923	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.49916	D	0.000133	T	0.34454	0.0898	N	0.14661	0.345	0.80722	D	1	D	0.59357	0.985	D	0.68765	0.96	T	0.34601	-0.9822	10	0.87932	D	0	.	17.1156	0.86688	0.0:1.0:0.0:0.0	.	352	P08151	GLI1_HUMAN	K	224;352;311;311;224	ENSP00000437607:Q224K;ENSP00000228682:Q352K;ENSP00000441006:Q311K;ENSP00000434408:Q311K	ENSP00000228682:Q352K	Q	+	1	0	GLI1	56147524	1.000000	0.71417	1.000000	0.80357	0.973000	0.67179	7.578000	0.82498	2.644000	0.89710	0.655000	0.94253	CAG		0.547	GLI1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394197.1	NM_005269		A	57861257	C	A	57861257	3	1	694	1	0	0	0	0	1	0	0	0	6444	595	21	4	1084	4	GLI1	12	57861257	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	35214984	57861257	75990638	51	45289										
PAWR	5074	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	80083606	80083606	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ctttcctggcactggggcccGagctcttgcccttctctggg	12	15	2	0	rs369162125		TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr12:80083606G>A	ENST00000328827.4	-	2	791	c.419C>T	c.(418-420)tCg>tTg	p.S140L	RP11-530C5.1_ENST00000551995.1_lincRNA|PAWR_ENST00000547571.1_5'UTR	NM_002583.2	NP_002574.2	Q96IZ0	PAWR_HUMAN	PRKC, apoptosis, WT1, regulator	140					actin filament bundle assembly (GO:0051017)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|interleukin-2 biosynthetic process (GO:0042094)|negative regulation of B cell proliferation (GO:0030889)|negative regulation of cell proliferation (GO:0008285)|negative regulation of T cell proliferation (GO:0042130)|negative regulation of T cell receptor signaling pathway (GO:0050860)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of amyloid precursor protein biosynthetic process (GO:0042986)|positive regulation of apoptotic process (GO:0043065)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	actin binding (GO:0003779)|enzyme binding (GO:0019899)|leucine zipper domain binding (GO:0043522)|transcription corepressor activity (GO:0003714)			NS(1)|large_intestine(1)|lung(4)|ovary(1)|skin(1)	8						ACTGGGGCCCGAGCTCTTGCC	0.706																																																0								G	LEU/SER	0,4392		0,0,2196	11	11	11		419	2.6	1	12		11	1,8579		0,1,4289	no	missense	PAWR	NM_002583.2	145	0,1,6485	AA,AG,GG		0.0117,0.0,0.0077	possibly-damaging	140/341	80083606	1,12971	2196	4290	6486	SO:0001583	missense	5074			U63809	CCDS31863.1	12q21.2	2013-03-07			ENSG00000177425	ENSG00000177425			8614	protein-coding gene	gene with protein product	"prostate apoptosis response-4"	601936				8943350, 9790775	Standard	NM_002583		Approved	par-4, PAR4	uc001syx.3	Q96IZ0	OTTHUMG00000170080	ENST00000328827.4:c.419C>T	12.37:g.80083606G>A	ENSP00000328088:p.Ser140Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O75796|Q6FHY9|Q8N700	Missense_Mutation	SNP	ENST00000328827.4	37	CCDS31863.1	.	.	.	.	.	.	.	.	.	.	G	24.1	4.494262	0.85069	0.0	1.17E-4	ENSG00000177425	ENST00000328827	T	0.10192	2.9	3.48	2.59	0.31030	.	0.352131	0.26887	N	0.021991	T	0.08133	0.0203	L	0.50333	1.59	0.42430	D	0.992671	P	0.35944	0.529	B	0.28305	0.088	T	0.29274	-1.0017	9	.	.	.	-1.0638	6.7459	0.23460	0.0988:0.1793:0.7219:0.0	.	140	Q96IZ0	PAWR_HUMAN	L	140	ENSP00000328088:S140L	.	S	-	2	0	PAWR	78607737	1.000000	0.71417	1.000000	0.80357	0.788000	0.44548	6.058000	0.71126	0.650000	0.30769	0.563000	0.77884	TCG		0.706	PAWR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407175.1	NM_002583		A	80083606	G	A	80083606	3	1	694	1	0	0	0	0	1	0	0	0	11484	1059	37	1	627	1	PAWR	12	80083606	Missense_Mutation	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	22222349	80083606	53768289	52	45290										
P2RX2	22953	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	133197702	133197702	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	caagcacgtgcctgcctcgtCaggctacaacttcaggtgct	10	14	2	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr12:133197702C>T	ENST00000389110.3	+	8	927	c.890C>T	c.(889-891)tCa>tTa	p.S297L	P2RX2_ENST00000449132.2_Missense_Mutation_p.S263L|P2RX2_ENST00000343948.4_Missense_Mutation_p.S297L|P2RX2_ENST00000352418.4_Missense_Mutation_p.S225L|P2RX2_ENST00000348800.5_Missense_Mutation_p.S297L|P2RX2_ENST00000351222.4_Missense_Mutation_p.S205L|P2RX2_ENST00000350048.5_Missense_Mutation_p.S273L	NM_170682.2|NM_170683.2|NM_174873.1	NP_733782.1|NP_733783.1|NP_777362.1	Q9UBL9	P2RX2_HUMAN	purinergic receptor P2X, ligand-gated ion channel, 2	297					behavioral response to pain (GO:0048266)|cation transmembrane transport (GO:0098655)|cation transport (GO:0006812)|detection of hypoxic conditions in blood by carotid body chemoreceptor signaling (GO:0003029)|ion transmembrane transport (GO:0034220)|neuromuscular junction development (GO:0007528)|neuromuscular synaptic transmission (GO:0007274)|neuronal action potential (GO:0019228)|peristalsis (GO:0030432)|positive regulation of calcium ion transport into cytosol (GO:0010524)|positive regulation of calcium-mediated signaling (GO:0050850)|protein heterooligomerization (GO:0051291)|protein homooligomerization (GO:0051260)|purinergic nucleotide receptor signaling pathway (GO:0035590)|response to ATP (GO:0033198)|response to carbohydrate (GO:0009743)|response to hypoxia (GO:0001666)|sensory perception of sound (GO:0007605)|sensory perception of taste (GO:0050909)|skeletal muscle fiber development (GO:0048741)|urinary bladder smooth muscle contraction (GO:0014832)	apical plasma membrane (GO:0016324)|cell surface (GO:0009986)|dendritic spine (GO:0043197)|integral component of nuclear inner membrane (GO:0005639)|integral component of plasma membrane (GO:0005887)|neuronal cell body (GO:0043025)|postsynaptic density (GO:0014069)|presynaptic membrane (GO:0042734)|receptor complex (GO:0043235)|terminal bouton (GO:0043195)	ATP binding (GO:0005524)|cadmium ion binding (GO:0046870)|cobalt ion binding (GO:0050897)|copper ion binding (GO:0005507)|drug binding (GO:0008144)|extracellular ATP-gated cation channel activity (GO:0004931)|identical protein binding (GO:0042802)|ligand-gated ion channel activity (GO:0015276)|mercury ion binding (GO:0045340)|nickel cation binding (GO:0016151)|phosphatidylinositol binding (GO:0035091)|purinergic nucleotide receptor activity (GO:0001614)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|kidney(2)|large_intestine(2)|liver(2)|lung(8)|ovary(1)|prostate(3)	20	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)		CCTGCCTCGTCAGGCTACAAC	0.607																																																0													103	84	90					12																	133197702		2203	4300	6503	SO:0001583	missense	22953			AF109387	CCDS31930.1, CCDS31931.1, CCDS31932.1, CCDS31933.1, CCDS31934.1, CCDS31935.1, CCDS61286.1, CCDS73548.1	12q24.33	2013-03-22			ENSG00000187848	ENSG00000187848		"Purinergic receptors", "Ligand-gated ion channels / Purinergic receptors, ionotropic"	15459	protein-coding gene	gene with protein product		600844	"deafness, autosomal dominant 41"	DFNA41		10570044, 7523952, 23345450	Standard	XM_005266154		Approved	P2X2	uc001ukk.1	Q9UBL9	OTTHUMG00000168018	ENST00000389110.3:c.890C>T	12.37:g.133197702C>T	ENSP00000373762:p.Ser297Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGB4|A6NH93|A6NHC2|A6NHU3|A6NIG9|Q6V9R6|Q9NR37|Q9NR38|Q9UHD5|Q9UHD6|Q9UHD7|Q9Y637|Q9Y638	Missense_Mutation	SNP	ENST00000389110.3	37	CCDS31931.1	.	.	.	.	.	.	.	.	.	.	C	16.49	3.138279	0.56936	.	.	ENSG00000187848	ENST00000389110;ENST00000449132;ENST00000343948;ENST00000352418;ENST00000350048;ENST00000351222;ENST00000348800	T;T;T;T;T;T;T	0.04406	3.63;3.63;3.63;3.63;3.63;3.63;3.63	4.96	4.96	0.65561	.	0.120057	0.64402	D	0.000017	T	0.13628	0.0330	M	0.76002	2.32	0.28672	N	0.905593	P;P;P;D;P;P;P;P	0.53745	0.751;0.58;0.928;0.962;0.716;0.716;0.849;0.575	P;P;P;B;B;P;P;B	0.49887	0.527;0.476;0.625;0.341;0.407;0.487;0.622;0.392	T	0.01375	-1.1371	10	0.54805	T	0.06	-13.2945	16.1502	0.81611	0.0:1.0:0.0:0.0	.	297;263;205;225;273;297;297;297	Q32MC3;Q9UBL9-7;Q9UBL9-5;Q9UBL9-6;Q9UBL9-3;Q9UBL9-4;Q9UBL9;Q9UBL9-2	.;.;.;.;.;.;P2RX2_HUMAN;.	L	297;263;297;225;273;205;297	ENSP00000373762:S297L;ENSP00000405531:S263L;ENSP00000343339:S297L;ENSP00000341419:S225L;ENSP00000343904:S273L;ENSP00000344502:S205L;ENSP00000345095:S297L	ENSP00000343339:S297L	S	+	2	0	P2RX2	131707775	0.343000	0.24818	0.655000	0.29622	0.406000	0.30931	3.786000	0.55431	2.584000	0.87258	0.561000	0.74099	TCA		0.607	P2RX2-006	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000397542.1			T	133197702	C	T	133197702	3	4	694	1	0	0	0	0	1	0	0	0	11347	838	29	2	920	2	P2RX2	12	133197702	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	53114096	133197702	654193	53	45291										
POU4F1	5457	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	79175599	79175599	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tctgcttctgtctctggttgCaaaaccacacccgcaccacg	7	16	3	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr13:79175599C>A	ENST00000377208.5	-	2	1422	c.1211G>T	c.(1210-1212)tGc>tTc	p.C404F	RNF219-AS1_ENST00000560209.2_RNA|RNF219-AS1_ENST00000430549.2_RNA|RNF219-AS1_ENST00000607220.1_RNA|RNF219-AS1_ENST00000607860.1_RNA|RNF219-AS1_ENST00000606376.1_RNA|RNF219-AS1_ENST00000444769.3_RNA|RNF219-AS1_ENST00000606429.1_RNA|RNF219-AS1_ENST00000560584.2_RNA|RNF219-AS1_ENST00000606124.1_RNA|RNF219-AS1_ENST00000607205.1_RNA|RP11-52L5.6_ENST00000607269.1_RNA	NM_006237.3	NP_006228.3	Q01851	PO4F1_HUMAN	POU class 4 homeobox 1	404					axonogenesis (GO:0007409)|cell migration in hindbrain (GO:0021535)|central nervous system neuron differentiation (GO:0021953)|habenula development (GO:0021986)|innervation (GO:0060384)|mesoderm development (GO:0007498)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron fate specification (GO:0048665)|peripheral nervous system neuron development (GO:0048935)|positive regulation of apoptotic process (GO:0043065)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|proprioception involved in equilibrioception (GO:0051355)|regulation of neurogenesis (GO:0050767)|sensory system development (GO:0048880)|suckling behavior (GO:0001967)|synapse assembly (GO:0007416)|transcription from RNA polymerase II promoter (GO:0006366)|trigeminal nerve development (GO:0021559)|ventricular compact myocardium morphogenesis (GO:0003223)	neuron projection (GO:0043005)|nuclear chromatin (GO:0000790)	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001205)			central_nervous_system(1)|cervix(1)|endometrium(4)|large_intestine(4)|lung(5)|ovary(1)	16		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.129)		TCTCTGGTTGCAAAACCACAC	0.597																																					Melanoma(109;347 2166 14574 42843)|Ovarian(81;1394 1854 22417 48351)											0													91	88	89					13																	79175599		2203	4300	6503	SO:0001583	missense	5457			X64624	CCDS31996.1	13q31.1	2011-06-20	2007-07-13		ENSG00000152192	ENSG00000152192		"Homeoboxes / POU class"	9218	protein-coding gene	gene with protein product		601632	"POU domain class 4, transcription factor 1"	BRN3A		1357630	Standard	NM_006237		Approved	RDC-1	uc001vkv.3	Q01851	OTTHUMG00000017119	ENST00000377208.5:c.1211G>T	13.37:g.79175599C>A	ENSP00000366413:p.Cys404Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q14986|Q15318|Q5T227	Missense_Mutation	SNP	ENST00000377208.5	37	CCDS31996.1	.	.	.	.	.	.	.	.	.	.	C	16.94	3.260312	0.59431	.	.	ENSG00000152192	ENST00000377208	D	0.96232	-3.95	4.35	4.35	0.52113	Homeodomain-related (1);Homeobox (3);POU (1);Homeodomain-like (1);Homeobox, conserved site (1);	0.053289	0.85682	U	0.000000	D	0.98239	0.9417	M	0.87758	2.905	0.80722	D	1	D	0.76494	0.999	D	0.87578	0.998	D	0.99560	1.0968	10	0.87932	D	0	.	16.8947	0.86097	0.0:1.0:0.0:0.0	.	404	Q01851	PO4F1_HUMAN	F	404	ENSP00000366413:C404F	ENSP00000366413:C404F	C	-	2	0	POU4F1	78073600	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.629000	0.83207	2.159000	0.67721	0.499000	0.49734	TGC		0.597	POU4F1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045360.3			A	79175599	C	A	79175599	3	1	694	1	0	0	0	0	1	0	0	0	12285	710	25	4	52	4	POU4F1	13	79175599	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10		79175599	35994279	54	45292										
CTAGE5	4253	broad.mit.edu	37	chr14	39815176	39815179	+	Frame_Shift_Del	DEL	CTGT	CTGT	-													0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tttgttctaattctggtagaCtgtctggaccagcagaactc							TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	CTGT	CTGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr14:39815176_39815179delCTGT	ENST00000280083.3	+	21	2214_2217	c.1900_1903delCTGT	c.(1900-1905)ctgtctfs	p.LS634fs	CTAGE5_ENST00000557038.1_Frame_Shift_Del_p.LS554fs|CTAGE5_ENST00000341502.5_Frame_Shift_Del_p.LS634fs|RP11-407N17.3_ENST00000603904.1_Frame_Shift_Del_p.LS605fs|RP11-407N17.3_ENST00000553728.1_Frame_Shift_Del_p.LS1169fs|CTAGE5_ENST00000341749.3_Frame_Shift_Del_p.LS622fs|CTAGE5_ENST00000396165.4_Frame_Shift_Del_p.LS605fs|CTAGE5_ENST00000556148.1_Frame_Shift_Del_p.LS559fs|CTAGE5_ENST00000348007.3_Frame_Shift_Del_p.LS591fs|CTAGE5_ENST00000553352.1_Frame_Shift_Del_p.LS605fs|CTAGE5_ENST00000396158.2_Frame_Shift_Del_p.LS639fs			O15320	CTGE5_HUMAN	CTAGE family, member 5	634	Pro-rich.				positive regulation of catalytic activity (GO:0043085)	membrane (GO:0016020)	enzyme activator activity (GO:0008047)		CTAGE5/SIP1(2)	breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(5)|lung(11)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	28	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)		TTCTGGTAGACTGTCTGGACCAGC	0.353																																																0																																										SO:0001589	frameshift_variant	4253			U94780	CCDS9673.1, CCDS9674.1, CCDS9675.1, CCDS9676.1, CCDS58316.1, CCDS58317.1	14q21.1	2009-09-11	2004-08-24	2004-08-26	ENSG00000150527	ENSG00000150527			7057	protein-coding gene	gene with protein product		602132	"meningioma expressed antigen 6 (coiled-coil proline-rich)"	MGEA, MGEA6		9356211, 11149944	Standard	NM_203355		Approved	MEA6, cTAGE-5A, cTAGE-5B, cTAGE-5C, cTAGE-5D, MGEA11	uc001wvi.4	O15320	OTTHUMG00000140258	ENST00000280083.3:c.1900_1903delCTGT	14.37:g.39815176_39815179delCTGT	ENSP00000280083:p.Leu634fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRA6|B4DQS6|D3DSA6|G3XAC5|O00169|Q6MZN2|Q6P2R8|Q86TF6|Q8IX92|Q8IX93	Frame_Shift_Del	DEL	ENST00000280083.3	37	CCDS9674.1																																																																																				0.353	CTAGE5-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000276771.2	NM_005930		-	39815179	CTGT	-	39815176	7	5	694	1	0	1	0	1	0	0	0	0	3996	564	20	0	2013	0	CTAGE5	14	39815176	Frame_Shift_Del	DEL	CTGT	TCGA-MH-A562-01A-11D-A26P-10		39815176	67534364	55	45293										
DCAF5	8816	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	69521317	69521317	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tgggttgtctttgtggctggTtcctgctctcccttcatctg	11	11	4	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr14:69521317T>C	ENST00000341516.5	-	9	2233	c.2086A>G	c.(2086-2088)Acc>Gcc	p.T696A	DCAF5_ENST00000556847.1_Missense_Mutation_p.T614A|DCAF5_ENST00000554215.1_Missense_Mutation_p.T614A|DCAF5_ENST00000557386.1_Missense_Mutation_p.T695A|DCAF5_ENST00000553293.1_5'Flank	NM_001284206.1|NM_001284207.1|NM_003861.2	NP_001271135.1|NP_001271136.1|NP_003852.1	Q96JK2	DCAF5_HUMAN	DDB1 and CUL4 associated factor 5	696					protein ubiquitination (GO:0016567)	Cul4-RING E3 ubiquitin ligase complex (GO:0080008)|mitochondrion (GO:0005739)				breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(15)|ovary(2)|upper_aerodigestive_tract(2)	29						TTGTGGCTGGTTCCTGCTCTC	0.527																																																0													110	118	115					14																	69521317		2203	4300	6503	SO:0001583	missense	8816			AB058727	CCDS32106.1, CCDS61480.1, CCDS61481.1, CCDS73646.1	14q23-q24.1	2013-01-09	2009-07-17	2009-07-17				"WD repeat domain containing", "DDB1 and CUL4 associated factors"	20224	protein-coding gene	gene with protein product		603812	"WD repeat domain 22"	WDR22		9740667, 9521877	Standard	NM_003861		Approved	BCRP2, D14S1461E, BCRG2, KIAA1824	uc001xkp.3	Q96JK2		ENST00000341516.5:c.2086A>G	14.37:g.69521317T>C	ENSP00000341351:p.Thr696Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2RN31|G3V4J7|O60559|Q8N3V3|Q8N3V5	Missense_Mutation	SNP	ENST00000341516.5	37	CCDS32106.1	.	.	.	.	.	.	.	.	.	.	T	15.58	2.875191	0.51695	.	.	ENSG00000139990	ENST00000341516;ENST00000554215;ENST00000556847;ENST00000557386	T;T;T;T	0.71461	-0.57;-0.41;-0.41;0.08	4.99	3.83	0.44106	.	0.081881	0.51477	D	0.000095	T	0.56292	0.1975	L	0.29908	0.895	0.80722	D	1	P;P	0.37864	0.61;0.476	B;B	0.35114	0.196;0.096	T	0.53056	-0.8492	10	0.33141	T	0.24	-17.9216	11.9573	0.52988	0.0:0.0:0.1454:0.8546	.	695;696	G3V4J7;Q96JK2	.;DCAF5_HUMAN	A	696;614;614;695	ENSP00000341351:T696A;ENSP00000451551:T614A;ENSP00000452052:T614A;ENSP00000451845:T695A	ENSP00000341351:T696A	T	-	1	0	DCAF5	68591070	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	3.462000	0.53042	0.902000	0.36520	0.459000	0.35465	ACC		0.527	DCAF5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000414806.2	NM_003861		C	69521317	T	C	69521317	3	2	694	1	0	0	0	0	1	0	0	0	4275	1725	60	3	746	3	DCAF5	14	69521317	Missense_Mutation	SNP	T	TCGA-MH-A562-01A-11D-A26P-10	29706141	69521317	37828223	56	45294										
C14orf4	64207	hgsc.bcm.edu	37	chr14	77493794	77493794	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tgctgctgctgctgctgctgTtgctgctgctgctgctgctg	14	12	0	0	rs377151545|rs28718623|rs71125518	byFrequency	TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr14:77493794T>C	ENST00000238647.3	-	1	1240	c.342A>G	c.(340-342)caA>caG	p.Q114Q		NM_024496.3	NP_078772.1	Q9H1B7	I2BPL_HUMAN	interferon regulatory factor 2 binding protein-like	114	Poly-Gln.				development of secondary female sexual characteristics (GO:0046543)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	extracellular space (GO:0005615)|nucleus (GO:0005634)	metal ion binding (GO:0046872)			endometrium(2)|kidney(1)|lung(3)|ovary(1)|prostate(1)|skin(1)|urinary_tract(2)	11						gctgctgctgttgctgctgct	0.697													T|||	1146	0.228834	0.1649	0.1758	5008	,	,		5976	0.2659		0.2614	False		,,,				2504	0.2812															0								-		160,2330		6,148,1091	2	2	2		342	0.6	0	14	dbSNP_125	2	324,4012		7,310,1851	no	coding-synonymous	IRF2BPL	NM_024496.2		13,458,2942	CC,CT,TT		7.4723,6.4257,7.0905		114/797	77493794	484,6342	1245	2168	3413	SO:0001819	synonymous_variant	64207			AJ277365	CCDS9854.1	14q24.3	2011-02-23	2011-02-23	2011-02-23	ENSG00000119669	ENSG00000119669			14282	protein-coding gene	gene with protein product	"enhanced at puberty 1"	611720	"chromosome 14 open reading frame 4"	C14orf4		11095982, 17627301	Standard	NM_024496		Approved	EAP1, KIAA1865	uc001xsy.4	Q9H1B7		ENST00000238647.3:c.342A>G	14.37:g.77493794T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NDQ2|Q96JG2|Q9H3I7	Silent	SNP	ENST00000238647.3	37	CCDS9854.1																																																																																				0.697	IRF2BPL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414298.1	NM_024496		C	77493794	T	C	77493794	2	2	694	1	0	0	0	0	0	0	0	1	1775	1722	60	3		3	C14orf4	14	77493794	Silent	SNP	T	TCGA-MH-A562-01A-11D-A26P-10	7972477	77493794	29855746	57	45295										
IGDCC4	57722	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	65684246	65684246	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ggcgccttctccgtcttgccCttccacactgctgcatagcc	8	18	2	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr15:65684246C>G	ENST00000352385.2	-	12	2405	c.2196G>C	c.(2194-2196)aaG>aaC	p.K732N		NM_020962.1	NP_066013.1	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member 4	732	Fibronectin type-III 3. {ECO:0000255|PROSITE-ProRule:PRU00316}.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(1)|central_nervous_system(1)|endometrium(1)|large_intestine(7)|lung(24)|ovary(1)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)	44						CCGTCTTGCCCTTCCACACTG	0.612																																																0													122	120	121					15																	65684246		2201	4299	6500	SO:0001583	missense	57722				CCDS10206.1	15q22.31	2013-02-11			ENSG00000103742	ENSG00000103742		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	13770	protein-coding gene	gene with protein product	"likely ortholog of mouse neighbor of Punc E11"						Standard	NM_020962		Approved	NOPE, LOC57722	uc002aou.1	Q8TDY8	OTTHUMG00000133136	ENST00000352385.2:c.2196G>C	15.37:g.65684246C>G	ENSP00000319623:p.Lys732Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q9HCE4	Missense_Mutation	SNP	ENST00000352385.2	37	CCDS10206.1	.	.	.	.	.	.	.	.	.	.	C	23.4	4.416366	0.83449	.	.	ENSG00000103742	ENST00000352385;ENST00000356152	T	0.59638	0.25	5.15	4.22	0.49857	Fibronectin, type III (2);	0.055747	0.64402	D	0.000002	T	0.62708	0.2450	L	0.59436	1.845	0.48135	D	0.999599	D	0.65815	0.995	P	0.52856	0.711	T	0.64799	-0.6322	10	0.49607	T	0.09	-22.1714	12.3562	0.55176	0.0:0.9194:0.0:0.0806	.	732	Q8TDY8	IGDC4_HUMAN	N	732;461	ENSP00000319623:K732N	ENSP00000319623:K732N	K	-	3	2	IGDCC4	63471299	1.000000	0.71417	1.000000	0.80357	0.921000	0.55340	1.066000	0.30604	2.406000	0.81754	0.561000	0.74099	AAG		0.612	IGDCC4-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000256825.2	NM_020962		G	65684246	C	G	65684246	3	3	694	1	0	0	0	0	1	0	0	0	7576	680	24	4	1592	4	IGDCC4	15	65684246	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10		65684246	36847146	58	45296										
SLC24A1	9187	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	65942809	65942809	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gaaactgaagagaaaagtggAggtgaaactcaaccagaagg	13	5	1	4			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr15:65942809A>G	ENST00000261892.6	+	7	2609	c.2322A>G	c.(2320-2322)ggA>ggG	p.G774G	SLC24A1_ENST00000449142.2_3'UTR|SLC24A1_ENST00000546330.1_Silent_p.G756G|SLC24A1_ENST00000339868.6_Silent_p.G756G|SLC24A1_ENST00000544319.2_Silent_p.G660G|SLC24A1_ENST00000537259.1_Silent_p.G756G|SLC24A1_ENST00000399033.4_Silent_p.G774G	NM_001254740.1|NM_004727.2	NP_001241669.1|NP_004718.1	O60721	NCKX1_HUMAN	solute carrier family 24 (sodium/potassium/calcium exchanger), member 1	774					calcium ion transport (GO:0006816)|ion transport (GO:0006811)|phototransduction, visible light (GO:0007603)|response to light intensity (GO:0009642)|rhodopsin mediated signaling pathway (GO:0016056)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)|transport (GO:0006810)|visual perception (GO:0007601)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|outer membrane (GO:0019867)|plasma membrane (GO:0005886)	calcium, potassium:sodium antiporter activity (GO:0008273)|symporter activity (GO:0015293)			breast(2)|endometrium(7)|kidney(1)|large_intestine(4)|lung(6)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	23						agaaaagtggaggtgaaactc	0.463																																																0													79	84	82					15																	65942809		1489	2962	4451	SO:0001819	synonymous_variant	9187			AF062922	CCDS45284.1, CCDS73742.1, CCDS73743.1, CCDS73744.1	15q22.31	2014-01-28			ENSG00000074621	ENSG00000074621		"Solute carriers"	10975	protein-coding gene	gene with protein product		603617				9856482	Standard	NM_004727		Approved	NCKX1, NCKX, RODX, KIAA0702, HsT17412, CSNB1D	uc010ujf.2	O60721	OTTHUMG00000167960	ENST00000261892.6:c.2322A>G	15.37:g.65942809A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O43485|O75184|Q17RM9	Silent	SNP	ENST00000261892.6	37	CCDS45284.1																																																																																				0.463	SLC24A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000397304.1	NM_004727		G	65942809	A	G	65942809	2	3	694	1	0	0	0	0	0	0	0	1	14478	291	11	3		3	SLC24A1	15	65942809	Silent	SNP	A	TCGA-MH-A562-01A-11D-A26P-10	258563	65942809	36588583	59	45297										
SGK269	79834	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	77472613	77472613	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	acatttggtccagttccactAgtaattagttctactttagg	7	8	1	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr15:77472613A>T	ENST00000560626.2	-	4	2131	c.1656T>A	c.(1654-1656)acT>acA	p.T552T	PEAK1_ENST00000558305.1_Silent_p.T552T|PEAK1_ENST00000312493.4_Silent_p.T552T			Q9H792	PEAK1_HUMAN	pseudopodium-enriched atypical kinase 1	552					cell migration (GO:0016477)|peptidyl-tyrosine phosphorylation (GO:0018108)|protein autophosphorylation (GO:0046777)|substrate adhesion-dependent cell spreading (GO:0034446)	actin cytoskeleton (GO:0015629)|cytoplasm (GO:0005737)|focal adhesion (GO:0005925)	ATP binding (GO:0005524)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)										CAGTTCCACTAGTAATTAGTT	0.413																																																0													217	198	204					15																	77472613		1881	4115	5996	SO:0001819	synonymous_variant	0				CCDS42062.1	15q24.3	2013-09-27			ENSG00000173517	ENSG00000173517			29431	protein-coding gene	gene with protein product		614248				16879967, 20534451	Standard	NM_024776		Approved	KIAA2002, sgk269		Q9H792	OTTHUMG00000172618	ENST00000560626.2:c.1656T>A	15.37:g.77472613A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZS78|Q8NAZ4|Q8NCM3|Q8TEG7	Silent	SNP	ENST00000560626.2	37	CCDS42062.1																																																																																				0.413	PEAK1-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419483.3			T	77472613	A	T	77472613	2	4	694	1	0	0	0	0	0	0	0	1	14224	407	15	5		5	SGK269	15	77472613	Silent	SNP	A	TCGA-MH-A562-01A-11D-A26P-10	11529804	77472613	25058779	60	45298										
CARHSP1	23589	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	8953055	8953055	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	aggtcctcgtccggcgagtgGgcagtgggcttgggaccacg	18	11	0	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr16:8953055G>A	ENST00000396593.2	-	2	490	c.131C>T	c.(130-132)cCc>cTc	p.P44L	CARHSP1_ENST00000562843.1_Missense_Mutation_p.P44L|CARHSP1_ENST00000567626.1_5'Flank|RP11-77H9.2_ENST00000565934.1_RNA|CARHSP1_ENST00000561530.1_Missense_Mutation_p.P44L|CARHSP1_ENST00000567554.1_Missense_Mutation_p.P44L|CARHSP1_ENST00000311052.5_Missense_Mutation_p.P44L	NM_001042476.1|NM_001278260.1|NM_001278261.1|NM_001278262.1|NM_001278263.1|NM_001278264.1|NM_001278265.1|NM_001278266.1|NM_014316.3	NP_001035941.1|NP_001265189.1|NP_001265190.1|NP_001265191.1|NP_001265192.1|NP_001265193.1|NP_001265194.1|NP_001265195.1|NP_055131.2	Q9Y2V2	CHSP1_HUMAN	calcium regulated heat stable protein 1, 24kDa	44					intracellular signal transduction (GO:0035556)|regulation of mRNA stability (GO:0043488)|regulation of transcription, DNA-templated (GO:0006355)	cytoplasmic exosome (RNase complex) (GO:0000177)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|P granule (GO:0043186)	DNA binding (GO:0003677)|mRNA 3'-UTR binding (GO:0003730)|phosphatase binding (GO:0019902)			endometrium(2)|lung(1)	3						CCGGCGAGTGGGCAGTGGGCT	0.652																																																0													27	23	25					16																	8953055		2195	4300	6495	SO:0001583	missense	23589			AF115345	CCDS10537.1	16p13.2	2008-02-05	2002-08-29		ENSG00000153048	ENSG00000153048			17150	protein-coding gene	gene with protein product			"calcium regulated heat stable protein 1 (24kD)"			9712905	Standard	NM_014316		Approved	CRHSP-24, CSDC1	uc031quz.1	Q9Y2V2	OTTHUMG00000129695	ENST00000396593.2:c.131C>T	16.37:g.8953055G>A	ENSP00000379838:p.Pro44Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4C3|D3DUF5|Q2YDX5|Q9BQ53	Missense_Mutation	SNP	ENST00000396593.2	37	CCDS10537.1	.	.	.	.	.	.	.	.	.	.	G	22.5	4.292618	0.80914	.	.	ENSG00000153048	ENST00000396593;ENST00000311052	.	.	.	5.35	4.38	0.52667	.	0.000000	0.85682	D	0.000000	T	0.77811	0.4186	M	0.85299	2.745	0.80722	D	1	D	0.89917	1.0	D	0.64877	0.93	T	0.77389	-0.2606	9	0.19590	T	0.45	-3.558	14.7061	0.69191	0.0:0.1461:0.8539:0.0	.	44	Q9Y2V2	CHSP1_HUMAN	L	44	.	ENSP00000311847:P44L	P	-	2	0	CARHSP1	8860556	1.000000	0.71417	0.996000	0.52242	0.993000	0.82548	9.057000	0.93889	1.221000	0.43506	0.563000	0.77884	CCC		0.652	CARHSP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251902.1	NM_014316		A	8953055	G	A	8953055	3	1	694	1	0	0	0	0	1	0	0	0	2655	1232	43	2	324	2	CARHSP1	16	8953055	Missense_Mutation	SNP	G	TCGA-MH-A562-01A-11D-A26P-10		8953055	81401698	61	45299										
IL4R	3566	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	27374134	27374134	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	aacctgacttgcacagagacGcccctcgtcatcgcaggcaa	9	15	1	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr16:27374134G>A	ENST00000395762.2	+	11	1720	c.1461G>A	c.(1459-1461)acG>acA	p.T487T	IL4R_ENST00000543915.2_Silent_p.T487T|IL4R_ENST00000170630.2_Silent_p.T487T|IL4R_ENST00000380922.3_Silent_p.T472T	NM_000418.3	NP_000409.1	P24394	IL4RA_HUMAN	interleukin 4 receptor	487	Required for IRS1 activation and IL4- induced cell growth.				defense response to protozoan (GO:0042832)|immune response (GO:0006955)|interleukin-4-mediated signaling pathway (GO:0035771)|intracellular signal transduction (GO:0035556)|negative regulation of T-helper 1 cell differentiation (GO:0045626)|ovulation (GO:0030728)|positive regulation of chemokine secretion (GO:0090197)|positive regulation of macrophage activation (GO:0043032)|positive regulation of T-helper 2 cell differentiation (GO:0045630)|production of molecular mediator involved in inflammatory response (GO:0002532)|regulation of cell proliferation (GO:0042127)|response to estrogen (GO:0043627)|signal transduction (GO:0007165)	extracellular space (GO:0005615)|integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)	interleukin-4 receptor activity (GO:0004913)|receptor signaling protein activity (GO:0005057)			breast(3)|endometrium(2)|kidney(2)|large_intestine(2)|lung(15)|ovary(2)|prostate(2)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)	33						GCACAGAGACGCCCCTCGTCA	0.642																																																0													91	94	93					16																	27374134		2197	4300	6497	SO:0001819	synonymous_variant	3566			X52425	CCDS10629.1, CCDS58441.1	16p12.1-p11.2	2008-05-14			ENSG00000077238	ENSG00000077238		"Interleukins and interleukin receptors", "CD molecules"	6015	protein-coding gene	gene with protein product		147781				1679753	Standard	NM_000418		Approved	CD124	uc010bxy.4	P24394	OTTHUMG00000097015	ENST00000395762.2:c.1461G>A	16.37:g.27374134G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4E076|B9EKU8|H3BSY5|Q96P01|Q9H181|Q9H182|Q9H183|Q9H184|Q9H185|Q9H186|Q9H187|Q9H188	Silent	SNP	ENST00000395762.2	37	CCDS10629.1																																																																																				0.642	IL4R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214104.4			A	27374134	G	A	27374134	2	1	694	1	0	0	0	0	0	0	0	1	7705	1074	38	1		1	IL4R	16	27374134	Silent	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	18421079	27374134	62980619	62	45300										
SETD1A	9739	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	30970101	30970101	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	agaaggccccgagcttccagTggcggaactacaagctcatc	11	13	1	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr16:30970101T>C	ENST00000262519.8	+	2	735	c.49T>C	c.(49-51)Tgg>Cgg	p.W17R		NM_014712.1	NP_055527.1	O15047	SET1A_HUMAN	SET domain containing 1A	17					histone H3-K4 methylation (GO:0051568)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)|Set1C/COMPASS complex (GO:0048188)	histone methyltransferase activity (H3-K4 specific) (GO:0042800)|nucleotide binding (GO:0000166)|RNA binding (GO:0003723)			NS(2)|breast(2)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(9)|lung(21)|ovary(3)|prostate(2)|skin(4)|upper_aerodigestive_tract(4)|urinary_tract(1)	59						GAGCTTCCAGTGGCGGAACTA	0.557																																																0													109	105	107					16																	30970101		2197	4300	6497	SO:0001583	missense	9739			AB002337	CCDS32435.1	16p11.2	2013-02-12			ENSG00000099381	ENSG00000099381		"Chromatin-modifying enzymes / K-methyltransferases", "RNA binding motif (RRM) containing"	29010	protein-coding gene	gene with protein product		611052				9205841, 12670868	Standard	XM_005255723		Approved	KIAA0339, Set1, KMT2F	uc002ead.1	O15047	OTTHUMG00000150474	ENST00000262519.8:c.49T>C	16.37:g.30970101T>C	ENSP00000262519:p.Trp17Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NP62|Q6PIF3|Q8TAJ6	Missense_Mutation	SNP	ENST00000262519.8	37	CCDS32435.1	.	.	.	.	.	.	.	.	.	.	T	17.44	3.389372	0.61956	.	.	ENSG00000099381	ENST00000262519;ENST00000452917;ENST00000449974	D	0.94828	-3.53	5.1	5.1	0.69264	.	0.000000	0.64402	U	0.000001	D	0.96494	0.8856	M	0.68593	2.085	0.58432	D	0.999997	D	0.89917	1.0	D	0.87578	0.998	D	0.96642	0.9475	10	0.56958	D	0.05	.	13.8869	0.63714	0.0:0.0:0.0:1.0	.	17	O15047	SET1A_HUMAN	R	17	ENSP00000262519:W17R	ENSP00000262519:W17R	W	+	1	0	SETD1A	30877602	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.599000	0.82757	1.920000	0.55613	0.533000	0.62120	TGG		0.557	SETD1A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318244.2	NM_014712		C	30970101	T	C	30970101	3	2	694	1	0	0	0	0	1	0	0	0	14143	1696	59	3	51	3	SETD1A	16	30970101	Missense_Mutation	SNP	T	TCGA-MH-A562-01A-11D-A26P-10	3595967	30970101	59384652	63	45301										
SALL1	6299	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	51171349	51171349	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tgccgccaaatccttctggaAcatttctgggaacttgacgg	10	11	2	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr16:51171349A>C	ENST00000251020.4	-	3	3682	c.3649T>G	c.(3649-3651)Ttc>Gtc	p.F1217V	SALL1_ENST00000566102.1_3'UTR|SALL1_ENST00000440970.1_Missense_Mutation_p.F1120V|SALL1_ENST00000541611.1_Missense_Mutation_p.F40V	NM_002968.2	NP_002959.2	Q9NSC2	SALL1_HUMAN	spalt-like transcription factor 1	1217					adrenal gland development (GO:0030325)|branching involved in ureteric bud morphogenesis (GO:0001658)|embryonic digestive tract development (GO:0048566)|embryonic digit morphogenesis (GO:0042733)|forelimb morphogenesis (GO:0035136)|gonad development (GO:0008406)|heart development (GO:0007507)|hindlimb morphogenesis (GO:0035137)|histone deacetylation (GO:0016575)|inductive cell-cell signaling (GO:0031129)|kidney development (GO:0001822)|kidney epithelium development (GO:0072073)|limb development (GO:0060173)|mesenchymal to epithelial transition involved in metanephros morphogenesis (GO:0003337)|negative regulation of smoothened signaling pathway (GO:0045879)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|neural tube closure (GO:0001843)|olfactory bulb interneuron differentiation (GO:0021889)|olfactory bulb mitral cell layer development (GO:0061034)|olfactory nerve development (GO:0021553)|outer ear morphogenesis (GO:0042473)|pituitary gland development (GO:0021983)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of Wnt signaling pathway (GO:0030177)|regulation of neural precursor cell proliferation (GO:2000177)|transcription, DNA-templated (GO:0006351)|ureteric bud development (GO:0001657)|ureteric bud invasion (GO:0072092)|ventricular septum development (GO:0003281)	chromocenter (GO:0010369)|cytoplasm (GO:0005737)|heterochromatin (GO:0000792)|nucleus (GO:0005634)|NuRD complex (GO:0016581)	beta-catenin binding (GO:0008013)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(4)|breast(2)|central_nervous_system(2)|endometrium(3)|kidney(5)|large_intestine(25)|lung(61)|ovary(3)|prostate(6)|skin(12)|upper_aerodigestive_tract(3)	126		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TCCTTCTGGAACATTTCTGGG	0.562																																					GBM(103;1352 1446 1855 4775 8890)											0													54	51	52					16																	51171349		2198	4300	6498	SO:0001583	missense	6299			X98833	CCDS10747.1, CCDS45483.1	16q12.1	2014-09-17	2013-10-17		ENSG00000103449	ENSG00000103449		"Zinc fingers, C2H2-type"	10524	protein-coding gene	gene with protein product		602218	"sal (Drosophila)-like 1", "sal-like 1 (Drosophila)"	TBS		9425907	Standard	NM_002968		Approved	Hsal1, ZNF794	uc021tie.1	Q9NSC2	OTTHUMG00000133176	ENST00000251020.4:c.3649T>G	16.37:g.51171349A>C	ENSP00000251020:p.Phe1217Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q99881|Q9NSC3|Q9P1R0	Missense_Mutation	SNP	ENST00000251020.4	37	CCDS10747.1	.	.	.	.	.	.	.	.	.	.	A	15.45	2.837676	0.50951	.	.	ENSG00000103449	ENST00000251020;ENST00000440970;ENST00000457559;ENST00000541611	T;T;T	0.47869	3.22;3.21;0.83	5.53	5.53	0.82687	.	0.000000	0.85682	D	0.000000	T	0.66752	0.2821	M	0.76170	2.325	0.80722	D	1	D;B	0.76494	0.999;0.372	D;B	0.78314	0.991;0.083	T	0.64188	-0.6466	10	0.20046	T	0.44	.	15.6652	0.77225	1.0:0.0:0.0:0.0	.	1217;40	Q9NSC2;F5H733	SALL1_HUMAN;.	V	1217;1120;1181;40	ENSP00000251020:F1217V;ENSP00000407914:F1120V;ENSP00000442827:F40V	ENSP00000251020:F1217V	F	-	1	0	SALL1	49728850	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.311000	0.96282	2.104000	0.64026	0.523000	0.50628	TTC		0.562	SALL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256883.2	NM_002968		C	51171349	A	C	51171349	3	2	694	1	0	0	0	0	1	0	0	0	13823	43	2	5	329	5	SALL1	16	51171349	Missense_Mutation	SNP	A	TCGA-MH-A562-01A-11D-A26P-10	20201248	51171349	39183404	64	45302										
RANBP10	57610	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	67761787	67761787	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ccccgcagagctgccgccgaGgatgcctgtcatctgcatcc	11	17	2	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr16:67761787G>T	ENST00000317506.3	-	12	1602	c.1487C>A	c.(1486-1488)cCt>cAt	p.P496H	RANBP10_ENST00000536251.1_Missense_Mutation_p.P267H|RANBP10_ENST00000602677.1_Missense_Mutation_p.P526H|RANBP10_ENST00000448631.2_Missense_Mutation_p.P470H|RANBP10_ENST00000411657.2_Missense_Mutation_p.P409H	NM_020850.1	NP_065901.1	Q6VN20	RBP10_HUMAN	RAN binding protein 10	496					microtubule cytoskeleton organization (GO:0000226)	cytoplasmic microtubule (GO:0005881)|nucleus (GO:0005634)	Ran guanyl-nucleotide exchange factor activity (GO:0005087)			endometrium(5)|kidney(2)|large_intestine(3)|lung(10)|ovary(2)|skin(1)	23		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)		CTGCCGCCGAGGATGCCTGTC	0.622																																																0													34	31	32					16																	67761787		2198	4300	6498	SO:0001583	missense	57610			AB040897	CCDS32469.1	16q22	2008-02-05				ENSG00000141084			29285	protein-coding gene	gene with protein product		614031				14684163	Standard	NM_020850		Approved	KIAA1464	uc002eud.3	Q6VN20		ENST00000317506.3:c.1487C>A	16.37:g.67761787G>T	ENSP00000316589:p.Pro496His	Somatic		WXS	Illumina HiSeq	Phase_I	A4FTY2|B4DID0|B4DQH9|E7EW27|Q9P264	Missense_Mutation	SNP	ENST00000317506.3	37	CCDS32469.1	.	.	.	.	.	.	.	.	.	.	G	12.84	2.057947	0.36277	.	.	ENSG00000141084	ENST00000317506;ENST00000448631;ENST00000536251;ENST00000411657	.	.	.	5.93	5.93	0.95920	.	0.631540	0.17547	N	0.170307	T	0.69006	0.3063	M	0.62723	1.935	0.80722	D	1	P;B;B	0.37573	0.6;0.006;0.012	P;B;B	0.46110	0.504;0.007;0.02	T	0.67413	-0.5677	9	0.48119	T	0.1	-12.1716	15.4231	0.75028	0.0:0.1386:0.8614:0.0	.	409;470;496	B4DID0;B4DQH9;Q6VN20	.;.;RBP10_HUMAN	H	496;470;267;409	.	ENSP00000316589:P496H	P	-	2	0	RANBP10	66319288	0.996000	0.38824	0.997000	0.53966	0.794000	0.44872	4.807000	0.62576	2.814000	0.96858	0.563000	0.77884	CCT		0.622	RANBP10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000467896.1	NM_020850		T	67761787	G	T	67761787	3	4	694	1	0	0	0	0	1	0	0	0	13039	1000	35	4	387	4	RANBP10	16	67761787	Missense_Mutation	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	16590438	67761787	22592966	65	45303										
CDK10	8558	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	89760632	89760632	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	accacgcagaccaccagcatCgacatgtggtgaggagatac	11	12	0	3			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr16:89760632C>T	ENST00000353379.7	+	9	703	c.660C>T	c.(658-660)atC>atT	p.I220I	CDK10_ENST00000505473.1_Silent_p.I149I|CDK10_ENST00000331006.8_Silent_p.I173I	NM_001098533.2|NM_001160367.1|NM_052988.4	NP_001092003.2|NP_001153839.1|NP_443714.3	Q15131	CDK10_HUMAN	cyclin-dependent kinase 10	220	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				negative regulation of cell proliferation (GO:0008285)|traversing start control point of mitotic cell cycle (GO:0007089)		ATP binding (GO:0005524)|cyclin-dependent protein serine/threonine kinase activity (GO:0004693)			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)		CCACCAGCATCGACATGTGGT	0.632																																																0													102	78	86					16																	89760632		2198	4300	6498	SO:0001819	synonymous_variant	8558			L33264	CCDS10984.2, CCDS32514.1, CCDS32514.2	16q24.3	2011-11-08	2007-11-21		ENSG00000185324	ENSG00000185324		"Cyclin-dependent kinases"	1770	protein-coding gene	gene with protein product		603464	"cyclin-dependent kinase (CDC2-like) 10"			8208557, 8084611	Standard	NM_052988		Approved	PISSLRE	uc010cio.3	Q15131	OTTHUMG00000138049	ENST00000353379.7:c.660C>T	16.37:g.89760632C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K370|A8K8I6|A8MXU6|B3KQJ3|B7Z420|D3DX82|D3DX83|Q0VGZ7|Q15130|Q6PJC0	Silent	SNP	ENST00000353379.7	37	CCDS10984.2																																																																																				0.632	CDK10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269925.2			T	89760632	C	T	89760632	2	4	694	1	0	0	0	0	0	0	0	1	3127	874	31	1		1	CDK10	16	89760632	Silent	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	21998845	89760632	594121	66	45304										
CAMTA2	23125	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	4877742	4877742	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	agctgctgcgatctctgccaTccgcttctccatctgctcca	7	17	3	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr17:4877742T>G	ENST00000348066.3	-	12	2077	c.1954A>C	c.(1954-1956)Atg>Ctg	p.M652L	CAMTA2_ENST00000381311.5_Missense_Mutation_p.M654L|RP5-1050D4.2_ENST00000430920.1_RNA|CAMTA2_ENST00000572543.1_Missense_Mutation_p.M657L|CAMTA2_ENST00000358183.4_Missense_Mutation_p.M652L|CAMTA2_ENST00000361571.5_Missense_Mutation_p.M651L|CAMTA2_ENST00000414043.3_Missense_Mutation_p.M675L	NM_015099.3	NP_055914.2	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	652					cardiac muscle hypertrophy in response to stress (GO:0014898)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|histone deacetylase binding (GO:0042826)|transcription factor binding (GO:0008134)			breast(2)|central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(6)|lung(5)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	31						ATCTCTGCCATCCGCTTCTCC	0.597																																																0													155	119	132					17																	4877742		2203	4300	6503	SO:0001583	missense	23125			AB020716	CCDS11063.1, CCDS54071.1, CCDS54072.1, CCDS54073.1	17p13.3	2004-09-01			ENSG00000108509	ENSG00000108509			18807	protein-coding gene	gene with protein product		611508				11925432	Standard	NM_015099		Approved	KIAA0909	uc010cku.2	O94983	OTTHUMG00000099417	ENST00000348066.3:c.1954A>C	17.37:g.4877742T>G	ENSP00000321813:p.Met652Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGL0|D3DTL5|E7EWU5|Q7Z6M8|Q8N3V0|Q8NDG4|Q96G17	Missense_Mutation	SNP	ENST00000348066.3	37	CCDS11063.1	.	.	.	.	.	.	.	.	.	.	T	16.40	3.111402	0.56398	.	.	ENSG00000108509	ENST00000414043;ENST00000381311;ENST00000361571;ENST00000358183;ENST00000348066	T;T;T;T;T	0.27557	2.87;1.91;1.66;1.91;1.69	5.29	5.29	0.74685	.	0.000000	0.85682	D	0.000000	T	0.30885	0.0779	N	0.11560	0.145	0.44454	D	0.997389	B;B;P;B;P	0.43024	0.077;0.077;0.471;0.34;0.798	B;B;P;P;P	0.60236	0.045;0.152;0.65;0.448;0.871	T	0.11891	-1.0569	10	0.13108	T	0.6	-18.4138	13.2241	0.59905	0.0:0.0:0.0:1.0	.	628;675;654;652;651	B7ZM30;E7EWU5;O94983-3;O94983;O94983-4	.;.;.;CMTA2_HUMAN;.	L	675;654;651;652;652	ENSP00000412886:M675L;ENSP00000370712:M654L;ENSP00000354828:M651L;ENSP00000350910:M652L;ENSP00000321813:M652L	ENSP00000321813:M652L	M	-	1	0	CAMTA2	4818466	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	7.777000	0.85628	2.232000	0.73038	0.482000	0.46254	ATG		0.597	CAMTA2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000216876.1	NM_015099		G	4877742	T	G	4877742	3	3	694	1	0	0	0	0	1	0	0	0	2616	1435	50	5	1752	5	CAMTA2	17	4877742	Missense_Mutation	SNP	T	TCGA-MH-A562-01A-11D-A26P-10		4877742	76317468	67	45305										
SLC5A10	125206	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	18880267	18880267	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gctccccatgggcctgatcaTcatgccgggcatgatcagcc	11	15	3	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr17:18880267T>A	ENST00000395645.3	+	9	965	c.947T>A	c.(946-948)aTc>aAc	p.I316N	FAM83G_ENST00000585154.2_Intron|SLC5A10_ENST00000395642.1_Missense_Mutation_p.I233N|SLC5A10_ENST00000417251.2_Missense_Mutation_p.I316N|SLC5A10_ENST00000317977.6_Missense_Mutation_p.I233N|FAM83G_ENST00000388995.6_Intron|SLC5A10_ENST00000395647.2_Missense_Mutation_p.I316N|FAM83G_ENST00000345041.4_Intron|SLC5A10_ENST00000395643.2_Missense_Mutation_p.I289N	NM_001042450.2	NP_001035915.1	A0PJK1	SC5AA_HUMAN	solute carrier family 5 (sodium/sugar cotransporter), member 10	316					sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(3)|ovary(3)|prostate(3)|skin(3)	24						GGCCTGATCATCATGCCGGGC	0.637																																																0													112	91	98					17																	18880267		2203	4300	6503	SO:0001583	missense	125206				CCDS11201.2, CCDS42275.1, CCDS59277.1, CCDS59278.1, CCDS74008.1	17p11.2	2013-07-19	2013-07-19		ENSG00000154025	ENSG00000154025		"Solute carriers"	23155	protein-coding gene	gene with protein product			"solute carrier family 5 (sodium/glucose cotransporter), member 10"				Standard	NM_152351		Approved	SGLT5	uc002gut.2	A0PJK1	OTTHUMG00000178143	ENST00000395645.3:c.947T>A	17.37:g.18880267T>A	ENSP00000379007:p.Ile316Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8MUC9|B4DPI0|B7WPR4|Q6P5X0|Q8IXM4|Q96LQ1	Missense_Mutation	SNP	ENST00000395645.3	37	CCDS42275.1	.	.	.	.	.	.	.	.	.	.	T	25.4	4.632337	0.87660	.	.	ENSG00000154025	ENST00000317977;ENST00000395647;ENST00000395642;ENST00000417251;ENST00000395645;ENST00000395643	D;D;D;D;D;D	0.89196	-2.48;-2.48;-2.48;-2.48;-2.48;-2.48	5.97	5.97	0.96955	.	0.102615	0.64402	D	0.000004	D	0.93867	0.8038	M	0.82823	2.61	0.80722	D	1	D;D;D;D;D	0.58970	0.977;0.971;0.977;0.971;0.984	P;P;P;P;P	0.62089	0.898;0.771;0.853;0.847;0.894	D	0.94502	0.7710	10	0.87932	D	0	.	13.4408	0.61112	0.0:0.0:0.1303:0.8697	.	316;289;316;316;233	B4DPI0;A0PJK1-2;A0PJK1;A0PJK1-4;A0PJK1-3	.;.;SC5AA_HUMAN;.;.	N	233;316;233;316;316;289	ENSP00000324346:I233N;ENSP00000379008:I316N;ENSP00000379004:I233N;ENSP00000401875:I316N;ENSP00000379007:I316N;ENSP00000379005:I289N	ENSP00000324346:I233N	I	+	2	0	SLC5A10	18820992	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	6.173000	0.71937	2.288000	0.76882	0.533000	0.62120	ATC		0.637	SLC5A10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132129.2	NM_152351		A	18880267	T	A	18880267	3	1	694	1	0	0	0	0	1	0	0	0	14675	1435	50	5	981	5	SLC5A10	17	18880267	Missense_Mutation	SNP	T	TCGA-MH-A562-01A-11D-A26P-10	14002525	18880267	62314943	68	45306										
LGALS9B	284194	broad.mit.edu	37	chr17	20355185	20355185	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	cctcccggaatggtggtgatGaaaggcatcggctgtcagaa	14	9	1	3			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr17:20355185G>A	ENST00000423676.3	-	9	747	c.684C>T	c.(682-684)ttC>ttT	p.F228F	LGALS9B_ENST00000324290.5_Silent_p.F227F			Q3B8N2	LEG9B_HUMAN	lectin, galactoside-binding, soluble, 9B	228	Galectin 2. {ECO:0000255|PROSITE- ProRule:PRU00639}.						carbohydrate binding (GO:0030246)			central_nervous_system(1)|endometrium(1)|large_intestine(2)|lung(3)|skin(1)|upper_aerodigestive_tract(2)	10						TGGTGGTGATGAAAGGCATCG	0.572																																																0													23	17	19					17																	20355185		2192	4110	6302	SO:0001819	synonymous_variant	284194				CCDS42283.1	17p11.2	2011-08-04			ENSG00000170298	ENSG00000170298		"Lectins, galactoside-binding"	24842	protein-coding gene	gene with protein product						11997339	Standard	NM_001042685		Approved		uc002gwz.1	Q3B8N2	OTTHUMG00000130730	ENST00000423676.3:c.684C>T	17.37:g.20355185G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NLF8|A8K2J8	Silent	SNP	ENST00000423676.3	37																																																																																					0.572	LGALS9B-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000253230.2	NM_001042685		A	20355185	G	A	20355185	2	1	694	1	0	0	0	0	0	0	0	1	8756	1281	45	2		2	LGALS9B	17	20355185	Silent	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	1474918	20355185	60840025	69	45307										
EZH1	2145	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	40880917	40880920	+	Frame_Shift_Del	DEL	AGTA	AGTA	-													0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	agatttcacttttcttttccAgtaagtgatacatttggagg							TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	AGTA	AGTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr17:40880917_40880920delAGTA	ENST00000428826.2	-	3	161_164	c.40_43delTACT	c.(40-45)tactggfs	p.YW14fs	EZH1_ENST00000415827.2_Frame_Shift_Del_p.YW14fs|EZH1_ENST00000435174.1_5'UTR|EZH1_ENST00000585893.1_Frame_Shift_Del_p.YW14fs|EZH1_ENST00000590078.1_Intron|EZH1_ENST00000592743.1_Frame_Shift_Del_p.YW14fs			Q92800	EZH1_HUMAN	enhancer of zeste 1 polycomb repressive complex 2 subunit	14					anatomical structure morphogenesis (GO:0009653)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transcription, DNA-templated (GO:0006351)	ESC/E(Z) complex (GO:0035098)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|histone methyltransferase activity (H3-K27 specific) (GO:0046976)			breast(1)|endometrium(4)|large_intestine(6)|lung(9)|ovary(3)|prostate(1)|skin(1)|urinary_tract(2)	27		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0784)		TTTCTTTTCCAGTAAGTGATACAT	0.373																																																0																																										SO:0001589	frameshift_variant	2145				CCDS32659.1	17q21.1-q21.3	2014-05-28	2014-05-28			ENSG00000108799		"Chromatin-modifying enzymes / K-methyltransferases"	3526	protein-coding gene	gene with protein product		601674	"enhancer of zeste (Drosophila) homolog 1", "enhancer of zeste homolog 1 (Drosophila)"			8921387	Standard	NM_001991		Approved	KIAA0388, KMT6B	uc002iaz.3	Q92800		ENST00000428826.2:c.40_43delTACT	17.37:g.40880917_40880920delAGTA	ENSP00000404658:p.Tyr14fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NCH6|B4DIJ1|B4DIZ7|B4DSS2|B4E3R7|O43287|Q14459|Q53XP3	Frame_Shift_Del	DEL	ENST00000428826.2	37	CCDS32659.1																																																																																				0.373	EZH1-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452347.1	NM_001991		-	40880920	AGTA	-	40880917	7	5	694	1	0	1	0	1	0	0	0	0	5335	188	7	0	2276	0	EZH1	17	40880917	Frame_Shift_Del	DEL	AGTA	TCGA-MH-A562-01A-11D-A26P-10	20525732	40880917	40314293	70	45308										
ASB16	92591	broad.mit.edu	37	chr17	42255640	42255640	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	aaggcagctgcagcacctggCccgactagctgtgcgcgctc	13	15	0	0	rs192236945		TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr17:42255640C>G	ENST00000293414.1	+	5	1328	c.1244C>G	c.(1243-1245)gCc>gGc	p.A415G	ASB16-AS1_ENST00000588785.1_RNA|ASB16-AS1_ENST00000585457.1_RNA|ASB16-AS1_ENST00000591166.1_RNA|ASB16-AS1_ENST00000592897.1_RNA	NM_080863.4	NP_543139.4	Q96NS5	ASB16_HUMAN	ankyrin repeat and SOCS box containing 16	415	SOCS box. {ECO:0000255|PROSITE- ProRule:PRU00194}.				intracellular signal transduction (GO:0035556)|protein ubiquitination (GO:0016567)					central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(2)|liver(2)|lung(2)|prostate(1)	14		Breast(137;0.00765)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.114)		CAGCACCTGGCCCGACTAGCT	0.662																																																0													40	34	36					17																	42255640		2203	4300	6503	SO:0001583	missense	92591			AK054727	CCDS11478.1	17q21.31	2013-01-10	2011-01-25		ENSG00000161664	ENSG00000161664		"Ankyrin repeat domain containing"	19768	protein-coding gene	gene with protein product		615056	"ankyrin repeat and SOCS box-containing 16"			12076535	Standard	NM_080863		Approved	FLJ30165	uc002ifl.1	Q96NS5	OTTHUMG00000181809	ENST00000293414.1:c.1244C>G	17.37:g.42255640C>G	ENSP00000293414:p.Ala415Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBC0|Q8WXK0	Missense_Mutation	SNP	ENST00000293414.1	37	CCDS11478.1	.	.	.	.	.	.	.	.	.	.	C	19.29	3.798393	0.70567	.	.	ENSG00000161664	ENST00000293414	T	0.46451	0.87	5.36	5.36	0.76844	SOCS protein, C-terminal (3);	0.245753	0.42548	D	0.000691	T	0.61148	0.2324	M	0.69358	2.11	0.34275	D	0.681456	D	0.76494	0.999	D	0.72338	0.977	T	0.70479	-0.4860	10	0.52906	T	0.07	-19.0493	13.7126	0.62678	0.0:0.8453:0.1547:0.0	.	415	Q96NS5	ASB16_HUMAN	G	415	ENSP00000293414:A415G	ENSP00000293414:A415G	A	+	2	0	ASB16	39611166	0.992000	0.36948	1.000000	0.80357	0.682000	0.39822	2.768000	0.47645	2.793000	0.96121	0.561000	0.74099	GCC		0.662	ASB16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457703.1			G	42255640	C	G	42255640	3	3	694	1	0	0	0	0	1	0	0	0	1020	739	26	4	1262	4	ASB16	17	42255640	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	1374723	42255640	38939570	71	45309										
SCRN2	90507	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	45916860	45916860	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	cagctgtctccagcacccacGcctcagtgcggtcagccagc	10	18	3	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr17:45916860G>A	ENST00000290216.9	-	4	631	c.506C>T	c.(505-507)gCg>gTg	p.A169V	SCRN2_ENST00000407215.3_Missense_Mutation_p.A169V|SCRN2_ENST00000584123.1_Missense_Mutation_p.A177V	NM_001145023.1|NM_138355.3	NP_001138495.1|NP_612364.2	Q96FV2	SCRN2_HUMAN	secernin 2	169						extracellular vesicular exosome (GO:0070062)	dipeptidase activity (GO:0016805)			cervix(1)|kidney(2)|large_intestine(2)|lung(7)|ovary(1)|skin(1)	14						CAGCACCCACGCCTCAGTGCG	0.612																																																0													78	72	74					17																	45916860		2203	4300	6503	SO:0001583	missense	90507			BC002980	CCDS11519.1, CCDS45723.1	17q21	2008-02-05							30381	protein-coding gene	gene with protein product		614966				12221138	Standard	NM_001145023		Approved		uc002imd.3	Q96FV2		ENST00000290216.9:c.506C>T	17.37:g.45916860G>A	ENSP00000290216:p.Ala169Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3N1|B7Z8S7|E9PBV5|Q96AC3|Q9BU04	Missense_Mutation	SNP	ENST00000290216.9	37	CCDS11519.1	.	.	.	.	.	.	.	.	.	.	G	25.0	4.593412	0.86953	.	.	ENSG00000141295	ENST00000290216;ENST00000407215	T;T	0.17370	2.28;2.28	5.34	5.34	0.76211	.	0.000000	0.85682	D	0.000000	T	0.44705	0.1306	M	0.74258	2.255	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.999;0.999	T	0.42207	-0.9465	10	0.87932	D	0	-27.8264	17.8079	0.88607	0.0:0.0:1.0:0.0	.	169;169;169	E9PBV5;Q96FV2;B7Z8S7	.;SCRN2_HUMAN;.	V	169	ENSP00000290216:A169V;ENSP00000383935:A169V	ENSP00000290216:A169V	A	-	2	0	SCRN2	43271859	1.000000	0.71417	0.935000	0.37517	0.396000	0.30629	9.756000	0.98918	2.504000	0.84457	0.561000	0.74099	GCG		0.612	SCRN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441383.1	NM_138355		A	45916860	G	A	45916860	3	1	694	1	0	0	0	0	1	0	0	0	13952	1087	38	1	809	1	SCRN2	17	45916860	Missense_Mutation	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	3661220	45916860	35278350	72	45310										
NXPH3	11248	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	47656051	47656051	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ggccccgggtgcctcggaagCggggccacatctcacctaag	14	15	1	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr17:47656051C>T	ENST00000328741.5	+	2	510	c.148C>T	c.(148-150)Cgg>Tgg	p.R50W	RP5-1029K10.4_ENST00000503624.1_RNA|NXPH3_ENST00000513748.1_Missense_Mutation_p.R50W	NM_007225.2	NP_009156.2	O95157	NXPH3_HUMAN	neurexophilin 3	50	II.				neuropeptide signaling pathway (GO:0007218)	extracellular region (GO:0005576)				endometrium(2)|large_intestine(3)|lung(4)|pancreas(1)|skin(2)	12	all_cancers(4;7.45e-14)|Breast(4;1.08e-27)|all_epithelial(4;2.27e-17)					GCCTCGGAAGCGGGGCCACAT	0.677																																																0													35	39	37					17																	47656051		2203	4299	6502	SO:0001583	missense	11248			AF043468	CCDS11550.1	17q	2008-07-03				ENSG00000182575			8077	protein-coding gene	gene with protein product		604636				9570794	Standard	NM_007225		Approved	NPH3	uc002ipa.3	O95157		ENST00000328741.5:c.148C>T	17.37:g.47656051C>T	ENSP00000329295:p.Arg50Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NDC3|Q8TBF6|Q9ULR1	Missense_Mutation	SNP	ENST00000328741.5	37	CCDS11550.1	.	.	.	.	.	.	.	.	.	.	c	16.57	3.159520	0.57368	.	.	ENSG00000182575	ENST00000328741;ENST00000513748	.	.	.	4.55	3.56	0.40772	.	0.310331	0.31381	N	0.007749	T	0.34250	0.0891	N	0.08118	0	0.09310	N	1	D;D	0.89917	1.0;0.998	D;P	0.70935	0.971;0.834	T	0.07578	-1.0765	9	0.72032	D	0.01	-23.4594	7.973	0.30138	0.428:0.4299:0.1421:0.0	.	50;50	D6RGW2;O95157	.;NXPH3_HUMAN	W	50	.	ENSP00000329295:R50W	R	+	1	2	NXPH3	45011050	0.037000	0.19845	1.000000	0.80357	0.994000	0.84299	0.755000	0.26405	1.110000	0.41699	0.556000	0.70494	CGG		0.677	NXPH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365143.1			T	47656051	C	T	47656051	3	4	694	1	0	0	0	0	1	0	0	0	10799	759	27	1	154	1	NXPH3	17	47656051	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	1739191	47656051	33539159	73	45311										
SCN4A	6329	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	62045582	62045582	+	Silent	SNP	C	C	T													0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ggcgggggccagcgcacacaCttctgcctcaggtttcccat							TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr17:62045582C>T	ENST00000435607.1	-	6	913	c.837G>A	c.(835-837)aaG>aaA	p.K279K	SCN4A_ENST00000578147.1_Silent_p.K279K	NM_000334.4	NP_000325.4	P35499	SCN4A_HUMAN	sodium channel, voltage-gated, type IV, alpha subunit	279					membrane depolarization during action potential (GO:0086010)|muscle contraction (GO:0006936)|neuronal action potential (GO:0019228)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)			breast(4)|central_nervous_system(3)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(23)|lung(40)|ovary(3)|pancreas(1)|prostate(6)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	101					Diclofenac(DB00586)|Flecainide(DB01195)|Propofol(DB00818)|Valproic Acid(DB00313)|Zonisamide(DB00909)	AGCGCACACACTTCTGCCTCA	0.547																																																0																																										SO:0001819	synonymous_variant	6329			U24693		17q23.3	2012-02-26	2007-01-23					"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10591	protein-coding gene	gene with protein product		603967		HYKPP		1654742, 1659948, 16382098	Standard	XM_005257566		Approved	Nav1.4, HYPP, SkM1	uc002jds.1	P35499		ENST00000435607.1:c.837G>A	17.37:g.62045582C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q15478|Q16447|Q7Z6B1	Silent	SNP	ENST00000435607.1	37	CCDS45761.1																																																																																				0.547	SCN4A-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_000334		T	62045582	C	T	62045582	2	4	694	1	0	0	0	0	0	0	0	1	13933	564	20	2		2	SCN4A	17	62045582	Silent	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	14389531	62045582	19149628	74	45312	493	2								
SCN4A	6329	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	62045585	62045585	+	Silent	SNP	C	C	T													0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gggggccagcgcacacacttCtgcctcaggtttcccatgaa							TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr17:62045585C>T	ENST00000435607.1	-	6	910	c.834G>A	c.(832-834)caG>caA	p.Q278Q	SCN4A_ENST00000578147.1_Silent_p.Q278Q	NM_000334.4	NP_000325.4	P35499	SCN4A_HUMAN	sodium channel, voltage-gated, type IV, alpha subunit	278					membrane depolarization during action potential (GO:0086010)|muscle contraction (GO:0006936)|neuronal action potential (GO:0019228)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|voltage-gated sodium channel complex (GO:0001518)	voltage-gated sodium channel activity (GO:0005248)			breast(4)|central_nervous_system(3)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(23)|lung(40)|ovary(3)|pancreas(1)|prostate(6)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	101					Diclofenac(DB00586)|Flecainide(DB01195)|Propofol(DB00818)|Valproic Acid(DB00313)|Zonisamide(DB00909)	GCACACACTTCTGCCTCAGGT	0.542																																																0													136	140	139					17																	62045585		2180	4283	6463	SO:0001819	synonymous_variant	6329			U24693		17q23.3	2012-02-26	2007-01-23					"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10591	protein-coding gene	gene with protein product		603967		HYKPP		1654742, 1659948, 16382098	Standard	XM_005257566		Approved	Nav1.4, HYPP, SkM1	uc002jds.1	P35499		ENST00000435607.1:c.834G>A	17.37:g.62045585C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q15478|Q16447|Q7Z6B1	Silent	SNP	ENST00000435607.1	37	CCDS45761.1																																																																																				0.542	SCN4A-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_000334		T	62045585	C	T	62045585	2	4	694	1	0	0	0	0	0	0	0	1	13933	912	32	2		2	SCN4A	17	62045585	Silent	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	3	62045585	19149625	75	45313	493	2								
DENND1C	79958	hgsc.bcm.edu	37	chr19	6475944	6475944	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	aggacgcgtggacgcacgagGtcagctggggagcgatggcg	20	9	1	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr19:6475944G>A	ENST00000381480.2	-	11	795	c.683C>T	c.(682-684)aCc>aTc	p.T228I	DENND1C_ENST00000543576.1_Missense_Mutation_p.T184I|DENND1C_ENST00000591030.1_5'Flank	NM_024898.2	NP_079174.2	Q8IV53	DEN1C_HUMAN	DENN/MADD domain containing 1C	228	DENN. {ECO:0000255|PROSITE- ProRule:PRU00304}.				positive regulation of Rab GTPase activity (GO:0032851)	cytoplasmic vesicle (GO:0031410)	Rab guanyl-nucleotide exchange factor activity (GO:0017112)			endometrium(3)|kidney(3)|large_intestine(1)|lung(3)	10						GACGCACGAGGTCAGCTGGGG	0.672																																																0													8	10	9					19																	6475944		2158	4249	6407	SO:0001583	missense	79958			AL713770	CCDS45938.1	19p13.3	2014-02-06	2005-08-17	2005-08-17	ENSG00000205744	ENSG00000205744		"DENN/MADD domain containing"	26225	protein-coding gene	gene with protein product		613634	"family with sequence similarity 31, member C"	FAM31C		12477932	Standard	XM_005259646		Approved	FLJ22757	uc002mfe.3	Q8IV53	OTTHUMG00000180853	ENST00000381480.2:c.683C>T	19.37:g.6475944G>A	ENSP00000370889:p.Thr228Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B4E051|D3PFD4|Q8NDB1|Q9H5Z2	Missense_Mutation	SNP	ENST00000381480.2	37	CCDS45938.1	.	.	.	.	.	.	.	.	.	.	G	32	5.166750	0.94768	.	.	ENSG00000205744	ENST00000381480;ENST00000543576	T;T	0.13089	2.62;2.62	5.31	5.31	0.75309	DENN (3);	0.054596	0.64402	D	0.000001	T	0.47040	0.1424	M	0.90870	3.155	0.50171	D	0.999858	D	0.67145	0.996	D	0.79784	0.993	T	0.58211	-0.7676	10	0.87932	D	0	-9.2935	16.4592	0.84031	0.0:0.0:1.0:0.0	.	228	Q8IV53	DEN1C_HUMAN	I	228;184	ENSP00000370889:T228I;ENSP00000437805:T184I	ENSP00000370889:T228I	T	-	2	0	DENND1C	6426944	1.000000	0.71417	0.950000	0.38849	0.890000	0.51754	8.957000	0.93082	2.498000	0.84270	0.561000	0.74099	ACC		0.672	DENND1C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453332.2	NM_024898		A	6475944	G	A	6475944	3	1	694	1	0	0	0	0	1	0	0	0	4430	1261	44	2	1774	2	DENND1C	19	6475944	Missense_Mutation	SNP	G	TCGA-MH-A562-01A-11D-A26P-10		6475944	52653039	76	45314										
CYP4F22	126410	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	15651480	15651480	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gccgaggcctggcttaaggcCaagcaggggaagaccttgga	16	10	0	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr19:15651480C>T	ENST00000269703.3	+	8	1090	c.891C>T	c.(889-891)gcC>gcT	p.A297A	CYP4F22_ENST00000601005.2_Silent_p.A297A	NM_173483.3	NP_775754.2	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F, polypeptide 22	297						endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)	heme binding (GO:0020037)|iron ion binding (GO:0005506)|monooxygenase activity (GO:0004497)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen (GO:0016705)			endometrium(6)|large_intestine(9)|lung(16)|ovary(1)|pancreas(1)|prostate(1)|skin(2)|soft_tissue(1)	37						GGCTTAAGGCCAAGCAGGGGA	0.652																																																0													52	47	49					19																	15651480		2203	4300	6503	SO:0001819	synonymous_variant	126410				CCDS12331.1	19p13.12	2013-11-11			ENSG00000171954	ENSG00000171954		"Cytochrome P450s"	26820	protein-coding gene	gene with protein product		611495				16436457	Standard	NM_173483		Approved	FLJ39501	uc002nbh.4	Q6NT55	OTTHUMG00000182451	ENST00000269703.3:c.891C>T	19.37:g.15651480C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N8H4	Silent	SNP	ENST00000269703.3	37	CCDS12331.1																																																																																				0.652	CYP4F22-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000461338.2	NM_173483		T	15651480	C	T	15651480	2	4	694	1	0	0	0	0	0	0	0	1	4191	581	21	2		2	CYP4F22	19	15651480	Silent	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	9175536	15651480	43477503	77	45315										
NCAN	1463	broad.mit.edu	37	chr19	19338433	19338433	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gaggccaccgccacggctccAccctcccctgctgcagagac	10	20	0	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr19:19338433A>C	ENST00000252575.6	+	8	2103	c.2004A>C	c.(2002-2004)ccA>ccC	p.P668P	NCAN_ENST00000538881.1_Silent_p.P119P	NM_004386.2	NP_004377.2	O14594	NCAN_HUMAN	neurocan	668					axon guidance (GO:0007411)|carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|extracellular matrix organization (GO:0030198)|glycosaminoglycan metabolic process (GO:0030203)|regulation of synapse structural plasticity (GO:0051823)|small molecule metabolic process (GO:0044281)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|lysosomal lumen (GO:0043202)	calcium ion binding (GO:0005509)|carbohydrate binding (GO:0030246)|hyaluronic acid binding (GO:0005540)			breast(1)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(32)|ovary(5)|pancreas(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)	64			Epithelial(12;0.00544)		Hyaluronan(DB08818)	CCACGGCTCCACCCTCCCCTG	0.617																																																0													94	97	96					19																	19338433		2203	4300	6503	SO:0001819	synonymous_variant	1463			AF026547	CCDS12397.1	19p12	2014-01-30	2007-02-15	2007-02-15	ENSG00000130287	ENSG00000130287		"Immunoglobulin superfamily / V-set domain containing", "Proteoglycans / Extracellular Matrix : Hyalectans", "Endogenous ligands"	2465	protein-coding gene	gene with protein product	"neurocan proteoglycan"	600826	"chondroitin sulfate proteoglycan 3"	CSPG3		1326557, 21353194	Standard	NM_004386		Approved		uc002nlz.3	O14594		ENST00000252575.6:c.2004A>C	19.37:g.19338433A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9UPK6	Silent	SNP	ENST00000252575.6	37	CCDS12397.1																																																																																				0.617	NCAN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460111.2	NM_004386		C	19338433	A	C	19338433	2	2	694	1	0	0	0	0	0	0	0	1	10211	146	6	5		5	NCAN	19	19338433	Silent	SNP	A	TCGA-MH-A562-01A-11D-A26P-10	3686953	19338433	39790550	78	45316										
MLL4	9757	ucsc.edu;bcgsc.ca	37	chr19	36210764	36210764	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	cctagcagatgtggctcctaCccccccaaagacccctgccc	7	20	0	2	rs60207923	byFrequency	TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr19:36210764C>A	ENST00000222270.7	+	3	515	c.515C>A	c.(514-516)aCc>aAc	p.T172N	KMT2B_ENST00000607650.1_RNA|KMT2B_ENST00000341701.1_Missense_Mutation_p.T172N|KMT2B_ENST00000420124.1_Missense_Mutation_p.T172N	NM_014727.1	NP_055542.1	Q9UMN6	KMT2B_HUMAN	lysine (K)-specific methyltransferase 2B	172			T -> I (in dbSNP:rs60207923).		chromatin-mediated maintenance of transcription (GO:0048096)|gene silencing (GO:0016458)|histone H3-K4 methylation (GO:0051568)|histone H3-K4 trimethylation (GO:0080182)|oocyte differentiation (GO:0009994)|ovarian follicle development (GO:0001541)|ovulation (GO:0030728)|regulation of histone H3-K4 methylation (GO:0051569)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)										GTGGCTCCTACCCCCCCAAAG	0.632																																																0													44	52	50					19																	36210764		1952	4133	6085	SO:0001583	missense	8085			AJ007041	CCDS46055.1	19q13.1	2014-02-18			ENSG00000105663	ENSG00000272333		"Chromatin-modifying enzymes / K-methyltransferases"	15840	protein-coding gene	gene with protein product	"myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila) 4"	606834				10409430, 10637508	Standard	XM_006723513		Approved	KIAA0304, MLL2, TRX2, HRX2, WBP7, MLL1B, MLL4		Q9UMN6	OTTHUMG00000048119	ENST00000222270.7:c.515C>A	19.37:g.36210764C>A	ENSP00000222270:p.Thr172Asn	Somatic		WXS	Illumina HiSeq		O15022|O95836|Q96GP2|Q96IP3|Q9UK25|Q9Y668|Q9Y669	Missense_Mutation	SNP	ENST00000222270.7	37	CCDS46055.1	.	.	.	.	.	.	.	.	.	.	C	16.67	3.186587	0.57909	.	.	ENSG00000105663	ENST00000222270;ENST00000420124;ENST00000341701	D;D;T	0.84944	-1.92;-1.92;0.74	5.06	0.327	0.15913	.	1.012260	0.07944	N	0.979811	T	0.68540	0.3012	N	0.08118	0	0.23260	N	0.998024	B	0.02656	0.0	B	0.01281	0.0	T	0.56968	-0.7891	10	0.66056	D	0.02	.	4.2499	0.10689	0.1601:0.5853:0.0:0.2545	.	172	Q9UMN6	MLL4_HUMAN	N	172	ENSP00000222270:T172N;ENSP00000398837:T172N;ENSP00000345761:T172N	ENSP00000222270:T172N	T	+	2	0	AD000671.1	40902604	0.045000	0.20229	0.988000	0.46212	0.996000	0.88848	0.030000	0.13688	0.019000	0.15079	0.561000	0.74099	ACC		0.632	KMT2B-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_014727		A	36210764	C	A	36210764	3	1	694	1	0	0	0	0	1	0	0	0	9630	507	18	4	525	4	MLL4	19	36210764	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	16872331	36210764	22918219	79	45317										
CAPN12	147968	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	39226166	39226166	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	agagactgcaggtctgcgctGatcacgtcgtcgatctccct	11	13	3	2	rs267605468		TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr19:39226166G>T	ENST00000328867.4	-	13	1910	c.1602C>A	c.(1600-1602)atC>atA	p.I534I	CTD-2540F13.2_ENST00000602255.1_RNA|CAPN12_ENST00000601953.1_Silent_p.I385I	NM_144691.3	NP_653292.2	Q6ZSI9	CAN12_HUMAN	calpain 12	534	Domain III.				proteolysis (GO:0006508)	cytoplasm (GO:0005737)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)			central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(6)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	20	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			GGTCTGCGCTGATCACGTCGT	0.642																																																0													38	36	37					19																	39226166		2192	4295	6487	SO:0001819	synonymous_variant	147968			BC014027	CCDS12519.1	19q13.2	2014-08-12			ENSG00000182472	ENSG00000182472		"EF-hand domain containing"	13249	protein-coding gene	gene with protein product		608839					Standard	NM_144691		Approved		uc002ojd.1	Q6ZSI9	OTTHUMG00000182525	ENST00000328867.4:c.1602C>A	19.37:g.39226166G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000328867.4	37	CCDS12519.1																																																																																				0.642	CAPN12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462151.1			T	39226166	G	T	39226166	2	4	694	1	0	0	0	0	0	0	0	1	2627	1280	45	4		4	CAPN12	19	39226166	Silent	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	3015402	39226166	19902817	80	45318										
PSG5	5673	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	43689069	43689069	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tgcattggaatatactgtttCtcgtccagtgtatgcaggcc	10	9	1	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr19:43689069C>A	ENST00000366175.3	-	2	425	c.295G>T	c.(295-297)Gaa>Taa	p.E99*	PSG5_ENST00000342951.6_Nonsense_Mutation_p.E99*|PSG5_ENST00000407568.1_Nonsense_Mutation_p.E99*|PSG5_ENST00000401992.1_5'UTR|PSG5_ENST00000404580.1_Nonsense_Mutation_p.E99*|PSG5_ENST00000599812.1_Nonsense_Mutation_p.E99*|PSG5_ENST00000407356.1_Nonsense_Mutation_p.E99*			Q15238	PSG5_HUMAN	pregnancy specific beta-1-glycoprotein 5	99	Ig-like V-type.				female pregnancy (GO:0007565)	extracellular region (GO:0005576)				breast(1)|endometrium(2)|kidney(2)|large_intestine(1)|lung(18)|prostate(1)|skin(6)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	35		Prostate(69;0.00899)				TATACTGTTTCTCGTCCAGTG	0.438																																																0													331	309	317					19																	43689069		2203	4295	6498	SO:0001587	stop_gained	5673				CCDS12617.1	19q13.2	2013-01-29			ENSG00000204941	ENSG00000204941		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	9522	protein-coding gene	gene with protein product	"pregnancy-specific beta-1 glycoprotein", "pregnancy-specific beta 1 glycoprotein"	176394				2735907	Standard	NM_002781		Approved	FL-NCA-3, PSG	uc002ovx.3	Q15238	OTTHUMG00000151539	ENST00000366175.3:c.295G>T	19.37:g.43689069C>A	ENSP00000382334:p.Glu99*	Somatic		WXS	Illumina HiSeq	Phase_I	Q15239|Q96QJ1|Q9UQ75	Nonsense_Mutation	SNP	ENST00000366175.3	37	CCDS12617.1	.	.	.	.	.	.	.	.	.	.	N	17.25	3.342999	0.61073	.	.	ENSG00000204941	ENST00000366175;ENST00000407356;ENST00000407568;ENST00000342951;ENST00000404580;ENST00000401992	.	.	.	1.58	1.58	0.23477	.	.	.	.	.	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	.	6.6423	0.22917	0.0:1.0:0.0:0.0	.	.	.	.	X	99	.	ENSP00000344413:E99X	E	-	1	0	PSG5	48380909	0.000000	0.05858	0.161000	0.22692	0.021000	0.10359	-0.245000	0.08890	1.195000	0.43115	0.423000	0.28283	GAA		0.438	PSG5-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000323055.1	NM_002781		A	43689069	C	A	43689069	4	1	694	1	0	0	0	0	0	1	0	0	12668	922	32	4	728	4	PSG5	19	43689069	Nonsense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10	4462903	43689069	15439914	81	45319										
MYPOP	339344	broad.mit.edu	37	chr19	46394285	46394285	+	Frame_Shift_Del	DEL	G	G	-													0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ggcgttggcagtctcctgctGggcccgcaggaagtccaggg							TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr19:46394285delG	ENST00000322217.5	-	3	882	c.796delC	c.(796-798)cagfs	p.Q267fs		NM_001012643.2	NP_001012661.1	Q86VE0	MYPOP_HUMAN	Myb-related transcription factor, partner of profilin	267	Pro-rich.					nucleus (GO:0005634)	chromatin binding (GO:0003682)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)			large_intestine(2)|lung(1)|skin(1)	4						GTCTCCTGCTGGGCCCGCAGG	0.706																																																0													6	5	6					19																	46394285		2129	4163	6292	SO:0001589	frameshift_variant	339344			BC044311	CCDS33055.1	19q13.32	2014-06-13			ENSG00000176182	ENSG00000176182			20178	protein-coding gene	gene with protein product	"p42 Myb-related transcription factor, partner of profilin"					15615774	Standard	NM_001012643		Approved	P42pop	uc002pdt.3	Q86VE0	OTTHUMG00000182486	ENST00000322217.5:c.796delC	19.37:g.46394285delG	ENSP00000325402:p.Gln267fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000322217.5	37	CCDS33055.1																																																																																				0.706	MYPOP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000461684.1	NM_001012643		-	46394285	G	-	46394285	7	5	694	1	0	1	0	1	0	0	0	0	10106	1357	47	0	407	0	MYPOP	19	46394285	Frame_Shift_Del	DEL	G	TCGA-MH-A562-01A-11D-A26P-10	2705216	46394285	12734698	82	45320										
LILRB3	11025	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	54721052	54721052	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	tcagttgccttccgtctaagGgtcaagctgtgcagctgggc	13	11	3	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr19:54721052G>T	ENST00000391750.1	-	14	1942	c.1806C>A	c.(1804-1806)acC>acA	p.T602T	LILRA6_ENST00000419410.2_Silent_p.T603T|LILRB3_ENST00000245620.9_Silent_p.T603T|LILRB3_ENST00000469273.1_5'UTR|LILRA6_ENST00000440558.2_Silent_p.T602T|LILRB3_ENST00000407860.2_Silent_p.T619T|LILRA6_ENST00000270464.5_Silent_p.T603T|LILRB3_ENST00000424807.1_Silent_p.T602T|LILRB3_ENST00000346401.6_Silent_p.T614T|LILRA6_ENST00000391735.3_3'UTR			O75022	LIRB3_HUMAN	leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3	602					cell surface receptor signaling pathway (GO:0007166)|defense response (GO:0006952)|immune system process (GO:0002376)|negative regulation of osteoclast differentiation (GO:0045671)	integral component of plasma membrane (GO:0005887)	receptor activity (GO:0004872)|transmembrane signaling receptor activity (GO:0004888)			endometrium(3)|kidney(13)|large_intestine(1)|lung(6)|ovary(2)|prostate(5)|skin(2)|stomach(1)|urinary_tract(1)	34	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)		TCCGTCTAAGGGTCAAGCTGT	0.632																																																0													104	105	105					19																	54721052		2202	4300	6502	SO:0001819	synonymous_variant	11025			U91928	CCDS33105.1, CCDS46175.1	19q13.4	2013-01-11			ENSG00000204577	ENSG00000204577		"Leukocyte immunoglobulin-like receptors", "CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	6607	protein-coding gene	gene with protein product		604820				9278324, 9382880	Standard	NM_006864		Approved	LIR-3, HL9, ILT5, LIR3, CD85a	uc002qee.1	O75022	OTTHUMG00000066626	ENST00000391750.1:c.1806C>A	19.37:g.54721052G>T		Somatic		WXS	Illumina HiSeq	Phase_I	C9J1P3|C9JIP1|O15471|Q86U49	Silent	SNP	ENST00000391750.1	37	CCDS33105.1																																																																																				0.632	LILRB3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000142844.5	NM_006864		T	54721052	G	T	54721052	2	4	694	1	0	0	0	0	0	0	0	1	8799	1219	43	4		4	LILRB3	19	54721052	Silent	SNP	G	TCGA-MH-A562-01A-11D-A26P-10	8326767	54721052	4407931	83	45321										
BCL2L1	598	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	30253881	30253881	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ttgttcccatagagttccacAaaagtatcctgcagggagag	10	9	0	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr20:30253881A>G	ENST00000307677.4	-	3	983	c.573T>C	c.(571-573)ttT>ttC	p.F191F	BCL2L1_ENST00000376062.2_Silent_p.F191F|BCL2L1_ENST00000376055.4_Silent_p.F128F|BCL2L1_ENST00000420653.1_Silent_p.F191F	NM_138578.1	NP_612815.1	Q07817	B2CL1_HUMAN	BCL2-like 1	191					apoptotic mitochondrial changes (GO:0008637)|apoptotic process (GO:0006915)|apoptotic process in bone marrow (GO:0071839)|cell proliferation (GO:0008283)|cellular process regulating host cell cycle in response to virus (GO:0060154)|cellular response to alkaloid (GO:0071312)|cellular response to amino acid stimulus (GO:0071230)|cellular response to gamma radiation (GO:0071480)|cytokinesis (GO:0000910)|endocytosis (GO:0006897)|extrinsic apoptotic signaling pathway in absence of ligand (GO:0097192)|fertilization (GO:0009566)|germ cell development (GO:0007281)|growth (GO:0040007)|hepatocyte apoptotic process (GO:0097284)|in utero embryonic development (GO:0001701)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|male gonad development (GO:0008584)|mitochondrion morphogenesis (GO:0070584)|mitotic cell cycle checkpoint (GO:0007093)|negative regulation of anoikis (GO:2000811)|negative regulation of apoptotic process (GO:0043066)|negative regulation of autophagy (GO:0010507)|negative regulation of establishment of protein localization to plasma membrane (GO:0090005)|negative regulation of execution phase of apoptosis (GO:1900118)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of intrinsic apoptotic signaling pathway (GO:2001243)|negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage (GO:1902230)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of release of cytochrome c from mitochondria (GO:0090201)|neuron apoptotic process (GO:0051402)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|ovarian follicle development (GO:0001541)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cell proliferation (GO:0008284)|positive regulation of intrinsic apoptotic signaling pathway (GO:2001244)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane potential (GO:0051881)|release of cytochrome c from mitochondria (GO:0001836)|response to cycloheximide (GO:0046898)|response to cytokine (GO:0034097)|spermatogenesis (GO:0007283)|suppression by virus of host apoptotic process (GO:0019050)	Bcl-2 family protein complex (GO:0097136)|cell junction (GO:0030054)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|nucleus (GO:0005634)|synapse (GO:0045202)	BH3 domain binding (GO:0051434)|identical protein binding (GO:0042802)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|protein kinase binding (GO:0019901)			breast(1)|central_nervous_system(1)|large_intestine(2)|lung(4)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11	all_cancers(5;3.47e-06)|all_epithelial(3;1.83e-06)|Lung NSC(7;2.08e-06)|all_lung(7;3.63e-06)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Epithelial(4;2.97e-06)|all cancers(5;3.21e-05)|OV - Ovarian serous cystadenocarcinoma(3;0.00052)|Colorectal(19;0.0055)|COAD - Colon adenocarcinoma(19;0.0264)			AGAGTTCCACAAAAGTATCCT	0.567																																					Colon(51;693 1004 1401 20431 21026)											0													84	78	80					20																	30253881		2203	4300	6503	SO:0001819	synonymous_variant	598			Z23115	CCDS13188.1, CCDS13189.1	20q11.21	2014-03-07			ENSG00000171552	ENSG00000171552		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	992	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 52"	600039				8358789	Standard	NM_001191		Approved	BCLX, BCL2L, Bcl-X, bcl-xL, bcl-xS, PPP1R52	uc002wwl.3	Q07817	OTTHUMG00000032192	ENST00000307677.4:c.573T>C	20.37:g.30253881A>G		Somatic		WXS	Illumina HiSeq	Phase_I	E1P5L6|Q5CZ89|Q5TE65|Q92976	Silent	SNP	ENST00000307677.4	37	CCDS13189.1																																																																																				0.567	BCL2L1-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078575.1	NM_138578		G	30253881	A	G	30253881	2	3	694	1	0	0	0	0	0	0	0	1	1367	127	5	3		3	BCL2L1	20	30253881	Silent	SNP	A	TCGA-MH-A562-01A-11D-A26P-10		30253881	32771639	84	45322										
ADAMTS5	11096	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	28305272	28305272	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ttctgggagcagggttattaCagtgacgataggcaaactgc	13	7	1	1			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr21:28305272C>G	ENST00000284987.5	-	5	1902	c.1781G>C	c.(1780-1782)tGt>tCt	p.C594S	AP001601.2_ENST00000426771.1_RNA	NM_007038.3	NP_008969.2	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 5	594	TSP type-1 1. {ECO:0000255|PROSITE- ProRule:PRU00210}.				defense response to bacterium (GO:0042742)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|proteolysis (GO:0006508)	extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	integrin binding (GO:0005178)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(17)|lung(34)|ovary(3)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(3)	72						AGGGTTATTACAGTGACGATA	0.567																																					Esophageal Squamous(53;683 1080 10100 14424 45938)											0													152	105	121					21																	28305272		2203	4300	6503	SO:0001583	missense	11096			AF142099	CCDS13579.1	21q21.3	2008-07-31	2008-07-31		ENSG00000154736	ENSG00000154736		"ADAM metallopeptidases with thrombospondin type 1 motif"	221	protein-coding gene	gene with protein product	"aggrecanase-2"	605007	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 5 (aggrecanase-2)"			10438522	Standard	NM_007038		Approved	ADMP-2, ADAMTS11	uc002ymg.3	Q9UNA0	OTTHUMG00000078686	ENST00000284987.5:c.1781G>C	21.37:g.28305272C>G	ENSP00000284987:p.Cys594Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q52LV4|Q9UKP2	Missense_Mutation	SNP	ENST00000284987.5	37	CCDS13579.1	.	.	.	.	.	.	.	.	.	.	C	33	5.248311	0.95305	.	.	ENSG00000154736	ENST00000284987	T	0.69040	-0.37	6.03	6.03	0.97812	.	0.000000	0.85682	D	0.000000	D	0.91778	0.7399	H	0.99922	4.955	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	D	0.95071	0.8204	10	0.87932	D	0	.	20.5666	0.99351	0.0:1.0:0.0:0.0	.	594	Q9UNA0	ATS5_HUMAN	S	594	ENSP00000284987:C594S	ENSP00000284987:C594S	C	-	2	0	ADAMTS5	27227143	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.487000	0.81328	2.854000	0.98071	0.655000	0.94253	TGT		0.567	ADAMTS5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000171648.1			G	28305272	C	G	28305272	3	3	694	1	0	0	0	0	1	0	0	0	269	478	17	4	1027	4	ADAMTS5	21	28305272	Missense_Mutation	SNP	C	TCGA-MH-A562-01A-11D-A26P-10		28305272	19824623	85	45323										
SEZ6L	23544	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	26761491	26761491	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	gaccatccgctgcatcctggGacagccatcccactggaacg	10	16	0	0			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chr22:26761491G>A	ENST00000248933.6	+	13	2848	c.2753G>A	c.(2752-2754)gGa>gAa	p.G918E	SEZ6L_ENST00000529632.2_Missense_Mutation_p.G918E|SEZ6L_ENST00000404234.3_Missense_Mutation_p.G918E|SEZ6L_ENST00000343706.4_Intron|SEZ6L_ENST00000411842.2_Missense_Mutation_p.G115E|SEZ6L_ENST00000402979.1_Missense_Mutation_p.G691E|SEZ6L_ENST00000403121.1_Intron|SEZ6L_ENST00000360929.3_Missense_Mutation_p.G854E|SEZ6L_ENST00000494013.1_3'UTR			Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	918	Sushi 5. {ECO:0000255|PROSITE- ProRule:PRU00302}.				adult locomotory behavior (GO:0008344)|cerebellar Purkinje cell layer development (GO:0021680)|regulation of protein kinase C signaling (GO:0090036)|synapse maturation (GO:0060074)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)				breast(1)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(18)|lung(35)|ovary(4)|pancreas(1)|prostate(3)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	80						TGCATCCTGGGACAGCCATCC	0.582																																																0													82	73	76					22																	26761491		2203	4300	6503	SO:0001583	missense	23544			AL050253	CCDS13833.1, CCDS54508.1, CCDS54510.1, CCDS54511.1, CCDS74837.1	22q12.1	2008-05-14	2001-11-28		ENSG00000100095	ENSG00000100095			10763	protein-coding gene	gene with protein product		607021	"seizure related gene 6 (mouse)-like"				Standard	NM_021115		Approved		uc003acb.3	Q9BYH1	OTTHUMG00000150870	ENST00000248933.6:c.2753G>A	22.37:g.26761491G>A	ENSP00000248933:p.Gly918Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A0AUW7|B0QYG4|B0QYG5|B7ZLJ6|G8JLP3|O95917|Q5THY5|Q6IBZ4|Q6UXD4|Q9NUI3|Q9NUI4|Q9NUI5|Q9Y2E1|Q9Y3J6	Missense_Mutation	SNP	ENST00000248933.6	37	CCDS13833.1	.	.	.	.	.	.	.	.	.	.	G	25.1	4.605986	0.87157	.	.	ENSG00000100095	ENST00000404234;ENST00000529632;ENST00000360929;ENST00000248933;ENST00000402979;ENST00000411842	T;T;T;T;T;T	0.62941	-0.01;-0.01;-0.01;-0.01;-0.01;-0.01	5.27	5.27	0.74061	Complement control module (2);Sushi/SCR/CCP (3);	0.000000	0.53938	D	0.000046	T	0.80884	0.4709	M	0.80332	2.49	0.80722	D	1	D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0	D;D;D;D;D	0.97110	1.0;1.0;1.0;1.0;1.0	T	0.83060	-0.0148	10	0.87932	D	0	.	18.0747	0.89423	0.0:0.0:1.0:0.0	.	918;918;854;918;918	B7ZLJ8;B7ZLJ6;Q9BYH1-4;B0QYG3;Q9BYH1	.;.;.;.;SE6L1_HUMAN	E	918;918;854;918;691;115	ENSP00000384772:G918E;ENSP00000437037:G918E;ENSP00000354185:G854E;ENSP00000248933:G918E;ENSP00000384733:G691E;ENSP00000397274:G115E	ENSP00000248933:G918E	G	+	2	0	SEZ6L	25091491	1.000000	0.71417	0.997000	0.53966	0.731000	0.41821	8.973000	0.93428	2.735000	0.93741	0.655000	0.94253	GGA		0.582	SEZ6L-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000320359.3			A	26761491	G	A	26761491	3	1	694	1	0	0	0	0	1	0	0	0	14156	1174	41	2	2803	2	SEZ6L	22	26761491	Missense_Mutation	SNP	G	TCGA-MH-A562-01A-11D-A26P-10		26761491	24543075	86	45324										
PTCHD1	139411	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	23411325	23411325	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ggttttacatatatgagtctAtagaatactggaacactagt	8	5	1	2			TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chrX:23411325A>G	ENST00000379361.4	+	3	2550	c.1690A>G	c.(1690-1692)Ata>Gta	p.I564V		NM_173495.2	NP_775766.2	Q96NR3	PTHD1_HUMAN	patched domain containing 1	564					cognition (GO:0050890)|smoothened signaling pathway (GO:0007224)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	hedgehog receptor activity (GO:0008158)			NS(1)|breast(4)|endometrium(3)|kidney(3)|large_intestine(9)|lung(14)|ovary(4)|skin(2)|urinary_tract(2)	42						ATATGAGTCTATAGAATACTG	0.413																																																0													94	89	91					X																	23411325		2203	4300	6503	SO:0001583	missense	139411			AK054858	CCDS35215.2	Xp22.13	2008-02-05			ENSG00000165186	ENSG00000165186			26392	protein-coding gene	gene with protein product		300828					Standard	NM_173495		Approved	FLJ30296	uc004dal.4	Q96NR3	OTTHUMG00000021251	ENST00000379361.4:c.1690A>G	X.37:g.23411325A>G	ENSP00000368666:p.Ile564Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DQH0|Q0IJ60|Q6P6B8	Missense_Mutation	SNP	ENST00000379361.4	37	CCDS35215.2	.	.	.	.	.	.	.	.	.	.	A	6.272	0.418245	0.11870	.	.	ENSG00000165186	ENST00000379361	D	0.84800	-1.9	5.69	5.69	0.88448	.	0.106864	0.64402	D	0.000004	T	0.73009	0.3532	N	0.20685	0.6	0.33814	D	0.628248	B	0.17667	0.023	B	0.12837	0.008	T	0.71988	-0.4426	10	0.15066	T	0.55	.	10.9815	0.47497	0.8463:0.1537:0.0:0.0	.	564	Q96NR3	PTHD1_HUMAN	V	564	ENSP00000368666:I564V	ENSP00000368666:I564V	I	+	1	0	PTCHD1	23321246	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	6.967000	0.76079	1.904000	0.55121	0.486000	0.48141	ATA		0.413	PTCHD1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056047.2	NM_173495		G	23411325	A	G	23411325	3	3	694	1	0	0	0	0	1	0	0	0	12742	449	16	3	1700	3	PTCHD1	23	23411325	Missense_Mutation	SNP	A	TCGA-MH-A562-01A-11D-A26P-10		23411325	131859235	87	45325										
PLS3	5358	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	114880464	114880465	+	Frame_Shift_Ins	INS	-	-	A													0.0813953488372093	7	1	1.41366737238297	0.875127420998981	1.57522935779817	0.0497737556561086	0.945701357466063	0	ctgttgactggagtaaggttINSaataaacctccatacccgaa							TCGA-MH-A562-01A-11D-A26P-10	TCGA-MH-A562-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	dddea2e4-b8c3-4157-9d92-6de472e8375a	bd8aec5f-0589-436d-9c8e-eaf4e60046e2	g.chrX:114880464_114880465insA	ENST00000420625.2	+	12	1469_1470	c.1335_1336insA	c.(1336-1338)aatfs	p.N446fs	PLS3_ENST00000289290.3_Frame_Shift_Ins_p.N410fs|PLS3_ENST00000537301.1_Frame_Shift_Ins_p.N433fs|PLS3_ENST00000355899.3_Frame_Shift_Ins_p.N446fs|PLS3_ENST00000539310.1_Frame_Shift_Ins_p.N401fs|PLS3_ENST00000543070.1_Frame_Shift_Ins_p.N40fs	NM_001136025.3|NM_001172335.1|NM_001282338.1	NP_001129497.1|NP_001165806.1|NP_001269267.1	P13797	PLST_HUMAN	plastin 3	446	Actin-binding 2.|CH 3. {ECO:0000255|PROSITE- ProRule:PRU00044}.				bone development (GO:0060348)	cytoplasm (GO:0005737)	calcium ion binding (GO:0005509)			NS(2)|breast(4)|endometrium(2)|kidney(4)|large_intestine(3)|lung(11)	26						GGAGTAAGGTTAATAAACCTCC	0.322																																					Colon(160;1047 1864 8490 12969 29601)											0																																										SO:0001589	frameshift_variant	5358			L05491	CCDS14568.1, CCDS65312.1	Xq23	2013-01-10	2010-02-10		ENSG00000102024	ENSG00000102024		"EF-hand domain containing"	9091	protein-coding gene	gene with protein product		300131	"plastin 3 (T isoform)"			8428952	Standard	NM_005032		Approved	T-plastin	uc004eqe.3	P13797	OTTHUMG00000022237	ENST00000420625.2:c.1337dupA	X.37:g.114880466_114880466dupA	ENSP00000398945:p.Asn446fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K579|B1AQ09|B4DGB4|B7Z6M1|Q86YI6	Frame_Shift_Ins	INS	ENST00000420625.2	37	CCDS14568.1																																																																																				0.322	PLS3-201	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000057976.2			A	114880465	-	A	114880464	7	5	694	1	0	1	1	0	0	0	0	0	12115	1741	61	0	1377	0	PLS3	23	114880464	Frame_Shift_Ins	INS	-	TCGA-MH-A562-01A-11D-A26P-10	91469139	114880464	40390096	88	45326										
GNB1	2782	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	1720557	1720557	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cgtcgtacccagcaaggaggAggcgcccgctcttggagaag	15	12	1	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:1720557A>C	ENST00000378609.4	-	10	1182	c.851T>G	c.(850-852)cTc>cGc	p.L284R		NM_001282539.1|NM_002074.3	NP_001269468.1|NP_002065.1	P62873	GBB1_HUMAN	guanine nucleotide binding protein (G protein), beta polypeptide 1	284					adenylate cyclase-activating dopamine receptor signaling pathway (GO:0007191)|blood coagulation (GO:0007596)|cellular response to catecholamine stimulus (GO:0071870)|cellular response to glucagon stimulus (GO:0071377)|cellular response to prostaglandin E stimulus (GO:0071380)|energy reserve metabolic process (GO:0006112)|G-protein coupled acetylcholine receptor signaling pathway (GO:0007213)|GTP catabolic process (GO:0006184)|phototransduction, visible light (GO:0007603)|platelet activation (GO:0030168)|Ras protein signal transduction (GO:0007265)|regulation of rhodopsin mediated signaling pathway (GO:0022400)|rhodopsin mediated signaling pathway (GO:0016056)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)	extracellular vesicular exosome (GO:0070062)|heterotrimeric G-protein complex (GO:0005834)|intracellular (GO:0005622)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|photoreceptor disc membrane (GO:0097381)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	GTPase activity (GO:0003924)|GTPase binding (GO:0051020)|protein complex binding (GO:0032403)|signal transducer activity (GO:0004871)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(2)|lung(3)|skin(1)	12	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.62e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;1.14e-35)|OV - Ovarian serous cystadenocarcinoma(86;7.31e-23)|GBM - Glioblastoma multiforme(42;3.1e-07)|COAD - Colon adenocarcinoma(227;0.000323)|Colorectal(212;0.000374)|Kidney(185;0.00392)|BRCA - Breast invasive adenocarcinoma(365;0.00573)|STAD - Stomach adenocarcinoma(132;0.0072)|KIRC - Kidney renal clear cell carcinoma(229;0.0482)|Lung(427;0.236)		AGCAAGGAGGAGGCGCCCGCT	0.572											OREG0012998	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													100	94	96					1																	1720557		2203	4300	6503	SO:0001583	missense	2782			BC004186	CCDS34.1, CCDS72685.1	1p36.33	2013-01-10			ENSG00000078369	ENSG00000078369		"WD repeat domain containing"	4396	protein-coding gene	gene with protein product		139380					Standard	NM_002074		Approved		uc001aif.3	P62873	OTTHUMG00000000940	ENST00000378609.4:c.851T>G	1.37:g.1720557A>C	ENSP00000367872:p.Leu284Arg	Somatic	598	WXS	Illumina HiSeq	Phase_I	B1AJZ7|P04697|P04901|Q1RMY8	Missense_Mutation	SNP	ENST00000378609.4	37	CCDS34.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	22.4|22.4	4.290122|4.290122	0.80914|0.80914	.|.	.|.	ENSG00000078369|ENSG00000078369	ENST00000378609;ENST00000455156;ENST00000378606|ENST00000424622	T|.	0.62105|.	0.05|.	5.52|5.52	5.52|5.52	0.82312|0.82312	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.76528|0.76528	0.4000|0.4000	M|M	0.80847|0.80847	2.515|2.515	0.80722|0.80722	D|D	1|1	D|.	0.89917|.	1.0|.	D|.	0.81914|.	0.995|.	T|T	0.78219|0.78219	-0.2289|-0.2289	10|5	0.51188|.	T|.	0.08|.	-9.8798|-9.8798	14.8181|14.8181	0.70050|0.70050	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	284|.	P62873|.	GBB1_HUMAN|.	R|A	284;184;284|142	ENSP00000367872:L284R|.	ENSP00000367869:L284R|.	L|S	-|-	2|1	0|0	GNB1|GNB1	1710417|1710417	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.885000|0.885000	0.51271|0.51271	9.126000|9.126000	0.94411|0.94411	2.096000|2.096000	0.63516|0.63516	0.533000|0.533000	0.62120|0.62120	CTC|TCC		0.572	GNB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000002762.3	NM_002074		C	1720557	A	C	1720557	3	2	695	1	0	0	0	0	1	0	0	0	6522	304	11	5	179	5	GNB1	1	1720557	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10		1720557	247530064	1	45327										
HES3	390992	hgsc.bcm.edu	37	chr1	6305201	6305201	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gtgcccaggggagccgagcaAccgtcgggcttccgcagctg	16	14	0	0	rs188463518	byFrequency	TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:6305201A>C	ENST00000377898.3	+	4	260	c.195A>C	c.(193-195)caA>caC	p.Q65H		NM_001024598.3	NP_001019769.1	Q5TGS1	HES3_HUMAN	hes family bHLH transcription factor 3	65	Orange.				hindbrain morphogenesis (GO:0021575)|in utero embryonic development (GO:0001701)|midbrain development (GO:0030901)|midbrain-hindbrain boundary morphogenesis (GO:0021555)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|oculomotor nerve development (GO:0021557)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of timing of neuron differentiation (GO:0060164)|transcription, DNA-templated (GO:0006351)|trochlear nerve development (GO:0021558)	nucleus (GO:0005634)	DNA binding (GO:0003677)|transcription factor binding (GO:0008134)			lung(2)|skin(1)	3	Ovarian(185;0.0634)	all_cancers(23;2.48e-32)|all_epithelial(116;1.14e-17)|all_lung(118;2.85e-06)|all_neural(13;3.68e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;3.77e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.2e-37)|GBM - Glioblastoma multiforme(13;3.2e-29)|OV - Ovarian serous cystadenocarcinoma(86;2.52e-19)|Colorectal(212;1.19e-07)|COAD - Colon adenocarcinoma(227;1.3e-05)|Kidney(185;4.88e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000871)|BRCA - Breast invasive adenocarcinoma(365;0.00105)|STAD - Stomach adenocarcinoma(132;0.00308)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.241)		GAGCCGAGCAACCGTCGGGCT	0.721													C|||	221	0.0441294	0.0741	0.0159	5008	,	,		7481	0.0308		0.007	False		,,,				2504	0.0757															0								C	HIS/GLN	138,3116		2,134,1491	3	3	3		195	2.3	0.4	1		3	36,7122		0,36,3543	no	missense	HES3	NM_001024598.3	24	2,170,5034	CC,CA,AA		0.5029,4.2409,1.6711	benign	65/187	6305201	174,10238	1627	3579	5206	SO:0001583	missense	390992				CCDS41238.1	1p36.31	2013-10-17	2013-10-17		ENSG00000173673	ENSG00000173673		"Basic helix-loop-helix proteins"	26226	protein-coding gene	gene with protein product		609971	"hairy and enhancer of split 3 (Drosophila)"				Standard	NM_001024598		Approved	bHLHb43	uc009vly.2	Q5TGS1	OTTHUMG00000001271	ENST00000377898.3:c.195A>C	1.37:g.6305201A>C	ENSP00000367130:p.Gln65His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TGS0	Missense_Mutation	SNP	ENST00000377898.3	37	CCDS41238.1	73	0.033424908424908424	40	0.08130081300813008	7	0.019337016574585635	19	0.033216783216783216	7	0.009234828496042216	C	9.558	1.117756	0.20877	0.042409	0.005029	ENSG00000173673	ENST00000377898	T	0.31510	1.49	3.2	2.28	0.28536	.	0.393226	0.19492	N	0.112980	T	0.00580	0.0019	N	0.03608	-0.345	0.09310	N	1	B	0.02656	0.0	B	0.01281	0.0	T	0.18178	-1.0345	10	0.66056	D	0.02	-10.1808	4.0729	0.09891	0.2297:0.645:0.0:0.1253	.	65	Q5TGS1	HES3_HUMAN	H	65	ENSP00000367130:Q65H	ENSP00000367130:Q65H	Q	+	3	2	HES3	6227788	0.055000	0.20627	0.403000	0.26384	0.425000	0.31504	0.673000	0.25203	0.398000	0.25338	-0.763000	0.03452	CAA		0.721	HES3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000003716.3	NM_001024598		C	6305201	A	C	6305201	3	2	695	1	0	0	0	0	1	0	0	0	7074	40	2	5	205	5	HES3	1	6305201	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	4584644	6305201	242945420	2	45328										
DNAJC16	23341	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	15855696	15855696	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ttggattttgacccatacagAgtcctaggggtcagccgaac	11	10	1	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:15855696A>C	ENST00000375847.3	+	2	260	c.96A>C	c.(94-96)agA>agC	p.R32S	CASP9_ENST00000469637.1_5'Flank|DNAJC16_ENST00000375838.1_Missense_Mutation_p.R32S|DNAJC16_ENST00000375849.1_Missense_Mutation_p.R32S	NM_015291.2	NP_056106.1	Q9Y2G8	DJC16_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 16	32	J. {ECO:0000255|PROSITE- ProRule:PRU00286}.				cell redox homeostasis (GO:0045454)	integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(4)|lung(7)|urinary_tract(1)	18		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00173)|all_lung(284;0.00459)|Lung NSC(340;0.00499)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		ACCCATACAGAGTCCTAGGGG	0.443																																																0													109	107	108					1																	15855696		2203	4300	6503	SO:0001583	missense	23341			AB023179	CCDS30606.1, CCDS72710.1	1p36.1	2011-09-02			ENSG00000116138	ENSG00000116138		"Heat shock proteins / DNAJ (HSP40)"	29157	protein-coding gene	gene with protein product							Standard	NM_015291		Approved	KIAA0962	uc001aws.3	Q9Y2G8	OTTHUMG00000002358	ENST00000375847.3:c.96A>C	1.37:g.15855696A>C	ENSP00000365007:p.Arg32Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q68D57|Q86X32|Q8N5P4	Missense_Mutation	SNP	ENST00000375847.3	37	CCDS30606.1	.	.	.	.	.	.	.	.	.	.	A	14.92	2.678494	0.47886	.	.	ENSG00000116138	ENST00000375847;ENST00000375838;ENST00000375849;ENST00000546230	T;T;T	0.72282	-0.64;-0.64;-0.64	5.41	5.41	0.78517	Heat shock protein DnaJ, N-terminal (5);	0.092613	0.64402	D	0.000001	T	0.41465	0.1160	N	0.02111	-0.68	0.24628	N	0.99364	B;B	0.28208	0.166;0.203	B;B	0.24848	0.056;0.052	T	0.29518	-1.0009	10	0.38643	T	0.18	-23.0336	8.0421	0.30527	0.9101:0.0:0.0899:0.0	.	32;32	Q9Y2G8;Q5TDG9	DJC16_HUMAN;.	S	32	ENSP00000365007:R32S;ENSP00000364998:R32S;ENSP00000365009:R32S	ENSP00000364998:R32S	R	+	3	2	DNAJC16	15728283	1.000000	0.71417	1.000000	0.80357	0.863000	0.49368	3.233000	0.51311	2.060000	0.61445	0.460000	0.39030	AGA		0.443	DNAJC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006764.1	NM_015291		C	15855696	A	C	15855696	3	2	695	1	0	0	0	0	1	0	0	0	4637	301	11	5	98	5	DNAJC16	1	15855696	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	9550495	15855696	233394925	3	45329										
UBR4	23352	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	19500887	19500887	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	agctgcaagcagggctgtcaGtgcagcataaagctcatcat	11	10	3	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:19500887G>T	ENST00000375254.3	-	22	2935	c.2908C>A	c.(2908-2910)Ctg>Atg	p.L970M	UBR4_ENST00000375217.2_Missense_Mutation_p.L970M|UBR4_ENST00000375267.2_Missense_Mutation_p.L970M|UBR4_ENST00000375226.2_Missense_Mutation_p.L970M	NM_020765.2	NP_065816.2	Q5T4S7	UBR4_HUMAN	ubiquitin protein ligase E3 component n-recognin 4	970					protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|viral process (GO:0016032)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(7)|central_nervous_system(1)|cervix(2)|endometrium(23)|kidney(25)|large_intestine(25)|liver(2)|lung(47)|ovary(10)|pancreas(2)|prostate(7)|skin(5)|stomach(5)|upper_aerodigestive_tract(4)|urinary_tract(6)	171		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		AGGGCTGTCAGTGCAGCATAA	0.438																																																0													120	102	108					1																	19500887		2203	4300	6503	SO:0001583	missense	23352			AF348492	CCDS189.1	1p36.13	2008-06-23	2007-06-19	2007-06-19	ENSG00000127481	ENSG00000127481		"Ubiquitin protein ligase E3 component n-recognins"	30313	protein-coding gene	gene with protein product		609890	"zinc finger, UBR1 type 1"	ZUBR1		14702039, 10718198, 16055722	Standard	XM_005245802		Approved	KIAA1307, KIAA0462, RBAF600	uc001bbi.3	Q5T4S7	OTTHUMG00000002498	ENST00000375254.3:c.2908C>A	1.37:g.19500887G>T	ENSP00000364403:p.Leu970Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8MPT2|A8MQ33|A8MQB1|O60646|O75050|Q4QRK5|Q5T4S8|Q5T4S9|Q5TBN8|Q5TBP2|Q6DKH8|Q6P4A4|Q7L8P7|Q8IXJ4|Q8TDN5|Q8WV67|Q9HA46|Q9P2N9|Q9UG82	Missense_Mutation	SNP	ENST00000375254.3	37	CCDS189.1	.	.	.	.	.	.	.	.	.	.	G	15.95	2.982527	0.53827	.	.	ENSG00000127481	ENST00000375254;ENST00000375267;ENST00000375217;ENST00000375226;ENST00000419533	T;T;T;T	0.36699	1.26;1.26;1.24;1.24	5.76	-1.65	0.08291	.	0.000000	0.64402	D	0.000001	T	0.44371	0.1290	L	0.39898	1.24	0.80722	D	1	D	0.65815	0.995	D	0.70487	0.969	T	0.26467	-1.0102	10	0.87932	D	0	.	11.0624	0.47955	0.5235:0.0:0.4765:0.0	.	970	Q5T4S7	UBR4_HUMAN	M	970;970;970;970;186	ENSP00000364403:L970M;ENSP00000364416:L970M;ENSP00000364365:L970M;ENSP00000364374:L970M	ENSP00000364365:L970M	L	-	1	2	UBR4	19373474	0.850000	0.29656	0.011000	0.14972	0.823000	0.46562	1.167000	0.31847	-0.623000	0.05618	-0.768000	0.03414	CTG		0.438	UBR4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000007085.1	NM_020765		T	19500887	G	T	19500887	3	4	695	1	0	0	0	0	1	0	0	0	16916	1020	36	4	12983	4	UBR4	1	19500887	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	3645191	19500887	229749734	4	45330										
USP48	84196	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	22073615	22073615	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tctgagaagccaatgtaggtAttcagctttttcttatgtcc	8	8	3	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:22073615A>G	ENST00000308271.9	-	8	1584	c.936T>C	c.(934-936)aaT>aaC	p.N312N	USP48_ENST00000529637.1_Silent_p.N312N|USP48_ENST00000400301.1_Silent_p.N312N|USP48_ENST00000421625.2_Silent_p.N312N	NM_032236.5	NP_115612.4	Q86UV5	UBP48_HUMAN	ubiquitin specific peptidase 48	312	USP.				ubiquitin-dependent protein catabolic process (GO:0006511)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	ubiquitin-specific protease activity (GO:0004843)			NS(1)|endometrium(6)|kidney(2)|large_intestine(11)|lung(14)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	42		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		CAATGTAGGTATTCAGCTTTT	0.313																																																0													94	91	92					1																	22073615		2203	4300	6503	SO:0001819	synonymous_variant	84196			AF502942	CCDS30623.1, CCDS44084.1	1p36.12	2008-02-05	2005-08-08	2004-04-07	ENSG00000090686	ENSG00000090686		"Ubiquitin-specific peptidases"	18533	protein-coding gene	gene with protein product			"ubiquitin specific protease 31", "ubiquitin specific protease 48"	USP31		12838346	Standard	XM_005246009		Approved	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879	uc001bfb.3	Q86UV5	OTTHUMG00000007798	ENST00000308271.9:c.936T>C	1.37:g.22073615A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKS7|Q2M3I4|Q5SZI4|Q5T3T5|Q6NX53|Q8N3F6|Q96F64|Q96IQ3|Q9H5N3|Q9H5T7|Q9NUJ6|Q9NXR0	Silent	SNP	ENST00000308271.9	37	CCDS30623.1																																																																																				0.313	USP48-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000021372.1	NM_032236		G	22073615	A	G	22073615	2	3	695	1	0	0	0	0	0	0	0	1	17091	446	16	3		3	USP48	1	22073615	Silent	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	2572728	22073615	227177006	5	45331										
MECR	51102	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	29520638	29520638	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ggagcaggcaggggctgtgaGctggcctcggcggatgagat	20	8	0	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:29520638G>C	ENST00000263702.6	-	10	1043	c.1018C>G	c.(1018-1020)Ctc>Gtc	p.L340V	MECR_ENST00000373791.3_Missense_Mutation_p.L264V			Q9BV79	MECR_HUMAN	mitochondrial trans-2-enoyl-CoA reductase	340					fatty acid biosynthetic process (GO:0006633)|fatty acid metabolic process (GO:0006631)	mitochondrion (GO:0005739)	trans-2-enoyl-CoA reductase (NADPH) activity (GO:0019166)|zinc ion binding (GO:0008270)			NS(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(1)|ovary(2)|prostate(1)	11		Colorectal(325;0.000389)|Breast(348;0.00765)|Lung NSC(340;0.0081)|all_lung(284;0.00914)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.39e-07)|COAD - Colon adenocarcinoma(152;2.04e-05)|STAD - Stomach adenocarcinoma(196;0.0195)|BRCA - Breast invasive adenocarcinoma(304;0.053)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.137)		GGGGCTGTGAGCTGGCCTCGG	0.572																																																0													102	109	107					1																	29520638		2203	4300	6503	SO:0001583	missense	51102				CCDS30659.1, CCDS30660.1	1p35.3	2012-09-20			ENSG00000116353	ENSG00000116353	1.3.1.38		19691	protein-coding gene	gene with protein product	"nuclear receptor binding factor 1", "mitochondrial 2-enoyl thioester reductase"	608205				9795230, 12654921	Standard	XM_005245885		Approved	CGI-63, NRBF1, FASN2B	uc001brq.1	Q9BV79	OTTHUMG00000059082	ENST00000263702.6:c.1018C>G	1.37:g.29520638G>C	ENSP00000263702:p.Leu340Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3KT72|Q5SYU0|Q5SYU1|Q5SYU2|Q6IBU9|Q9Y373	Missense_Mutation	SNP	ENST00000263702.6	37	CCDS30659.1	.	.	.	.	.	.	.	.	.	.	G	18.13	3.554761	0.65425	.	.	ENSG00000116353	ENST00000373791;ENST00000263702	T;T	0.05199	3.48;3.49	5.48	5.48	0.80851	NAD(P)-binding domain (1);	0.133396	0.53938	D	0.000051	T	0.27169	0.0666	M	0.88181	2.935	0.58432	D	0.999999	P	0.45348	0.856	P	0.55749	0.783	T	0.01583	-1.1319	10	0.59425	D	0.04	.	16.849	0.85988	0.0:0.0:1.0:0.0	.	340	Q9BV79	MECR_HUMAN	V	264;340	ENSP00000362896:L264V;ENSP00000263702:L340V	ENSP00000263702:L340V	L	-	1	0	MECR	29393225	1.000000	0.71417	1.000000	0.80357	0.411000	0.31082	6.509000	0.73725	2.584000	0.87258	0.563000	0.77884	CTC		0.572	MECR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130740.1	NM_016011		C	29520638	G	C	29520638	3	2	695	1	0	0	0	0	1	0	0	0	9431	971	34	4	107	4	MECR	1	29520638	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	7447023	29520638	219729983	6	45332										
SMAP2	64744	ucsc.edu;bcgsc.ca	37	chr1	40839876	40839876	+	IGR	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gaggaggataacaagttttgTgcagattgccagtctaaagg	13	5	1	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:40839876T>A								COL9A2 (56910 upstream) : SMAP2 (22630 downstream)																							ACAAGTTTTGTGCAGATTGCC	0.642																																																0													79	67	71					1																	40839876		2203	4300	6503	SO:0001628	intergenic_variant	64744																															1.37:g.40839876T>A		Somatic		WXS	Illumina HiSeq			Nonsense_Mutation	SNP		37		.	.	.	.	.	.	.	.	.	.	T	42	9.178274	0.99091	.	.	ENSG00000084070	ENST00000435168;ENST00000372718	.	.	.	5.25	1.62	0.23740	.	0.313290	0.36002	N	0.002852	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-0.0719	3.5082	0.07699	0.1643:0.1819:0.0:0.6538	.	.	.	.	X	28	.	ENSP00000361803:C28X	C	+	3	2	SMAP2	40612463	0.999000	0.42202	0.988000	0.46212	0.991000	0.79684	0.291000	0.18994	0.015000	0.14971	0.460000	0.39030	TGT	0	0.642									A	40839876	T	A	40839876	1	1	695	0	1	0	0	0	0	0	0	0	14780	1702	59	5		5	SMAP2	1	40839876	IGR	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10	11319238	40839876	208410745	7	45333										
PTPRF	5792	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	44083552	44083552	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cagcgcacggccactgtggtCatgatgacacggctggagga	15	11	1	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:44083552C>T	ENST00000359947.4	+	25	4681	c.4341C>T	c.(4339-4341)gtC>gtT	p.V1447V	PTPRF_ENST00000372413.3_Silent_p.V1438V|PTPRF_ENST00000372414.3_Silent_p.V1447V|PTPRF_ENST00000422171.2_Silent_p.V806V|PTPRF_ENST00000438120.1_Silent_p.V1438V|PTPRF_ENST00000496447.1_3'UTR	NM_002840.3	NP_002831.2	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1447	Tyrosine-protein phosphatase 1. {ECO:0000255|PROSITE-ProRule:PRU00160}.				cell adhesion (GO:0007155)|cell migration (GO:0016477)|negative regulation of receptor binding (GO:1900121)|peptidyl-tyrosine dephosphorylation (GO:0035335)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	heparin binding (GO:0008201)|protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(2)|breast(4)|central_nervous_system(3)|endometrium(9)|kidney(4)|large_intestine(11)|liver(1)|lung(24)|ovary(4)|prostate(2)|skin(5)|upper_aerodigestive_tract(3)	72	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CCACTGTGGTCATGATGACAC	0.637																																																0													48	47	47					1																	44083552		2203	4300	6503	SO:0001819	synonymous_variant	5792			Y00815	CCDS489.2, CCDS490.2	1p34	2013-02-11			ENSG00000142949	ENSG00000142949		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	9670	protein-coding gene	gene with protein product		179590		LAR		7558042	Standard	NM_130440		Approved		uc001cjr.3	P10586	OTTHUMG00000007501	ENST00000359947.4:c.4341C>T	1.37:g.44083552C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DPX6|D3DPX7|Q5T021|Q5T022|Q5W9G2|Q86WS0	Silent	SNP	ENST00000359947.4	37	CCDS489.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	10.16|10.16	1.275097|1.275097	0.23307|0.23307	.|.	.|.	ENSG00000142949|ENSG00000142949	ENST00000412568;ENST00000414879|ENST00000429895	.|.	.|.	.|.	5.58|5.58	4.67|4.67	0.58626|0.58626	.|.	.|.	.|.	.|.	.|.	T|T	0.70509|0.70509	0.3232|0.3232	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	T|T	0.70256|0.70256	-0.4922|-0.4922	4|4	.|.	.|.	.|.	.|.	14.8271|14.8271	0.70122|0.70122	0.0:0.9307:0.0:0.0693|0.0:0.9307:0.0:0.0693	.|.	.|.	.|.	.|.	Y|L	831;872|1093	.|.	.|.	H|S	+|+	1|2	0|0	PTPRF|PTPRF	43856139|43856139	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.995000|0.995000	0.86356|0.86356	0.916000|0.916000	0.28651|0.28651	1.506000|1.506000	0.48736|0.48736	-0.140000|-0.140000	0.14226|0.14226	CAT|TCA		0.637	PTPRF-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000019710.1			T	44083552	C	T	44083552	2	4	695	1	0	0	0	0	0	0	0	1	12814	813	29	2		2	PTPRF	1	44083552	Silent	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	3243676	44083552	205167069	8	45334										
INADL	10207	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	62271194	62271194	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tgggtcctgattatgaagtaAtggtatgttaaaatgctcta	10	4	1	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:62271194A>G	ENST00000371158.2	+	13	1738	c.1624A>G	c.(1624-1626)Atg>Gtg	p.M542V	INADL_ENST00000316485.6_Missense_Mutation_p.M542V	NM_176877.2	NP_795352	Q8NI35	INADL_HUMAN	InaD-like (Drosophila)	542					cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|intracellular signal transduction (GO:0035556)|tight junction assembly (GO:0070830)	apical part of cell (GO:0045177)|extracellular vesicular exosome (GO:0070062)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|tight junction (GO:0005923)				breast(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(8)|liver(1)|lung(51)|ovary(3)|pancreas(1)|prostate(7)|skin(5)|stomach(1)|upper_aerodigestive_tract(3)	103						TTATGAAGTAATGGTATGTTA	0.358																																																0													93	99	97					1																	62271194		2203	4300	6503	SO:0001583	missense	10207			AB044807	CCDS617.2	1p31	2008-02-05			ENSG00000132849	ENSG00000132849			28881	protein-coding gene	gene with protein product		603199				9280290, 11374908	Standard	NM_176877		Approved	Cipp, PATJ	uc001dab.3	Q8NI35	OTTHUMG00000008560	ENST00000371158.2:c.1624A>G	1.37:g.62271194A>G	ENSP00000360200:p.Met542Val	Somatic		WXS	Illumina HiSeq	Phase_I	O15249|O43742|O60833|Q5VUA5|Q5VUA6|Q5VUA7|Q5VUA8|Q5VUA9|Q5VUB0|Q8WU78|Q9H3N9	Missense_Mutation	SNP	ENST00000371158.2	37	CCDS617.2	.	.	.	.	.	.	.	.	.	.	A	17.77	3.472247	0.63737	.	.	ENSG00000132849	ENST00000371158;ENST00000316485;ENST00000371156;ENST00000395513;ENST00000255202	T;T	0.08546	3.27;3.08	5.69	5.69	0.88448	PDZ/DHR/GLGF (1);	0.057835	0.64402	D	0.000002	T	0.21186	0.0510	M	0.62723	1.935	0.80722	D	1	D;D;P	0.67145	0.996;0.986;0.488	D;D;P	0.77557	0.99;0.965;0.508	T	0.08868	-1.0701	10	0.02654	T	1	.	14.5128	0.67800	1.0:0.0:0.0:0.0	.	542;542;542	F8W8T2;Q8NI35;Q8NI35-4	.;INADL_HUMAN;.	V	542	ENSP00000360200:M542V;ENSP00000326199:M542V	ENSP00000255202:M542V	M	+	1	0	INADL	62043782	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	3.401000	0.52601	2.174000	0.68829	0.528000	0.53228	ATG		0.358	INADL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023639.2	NM_170605		G	62271194	A	G	62271194	3	3	695	1	0	0	0	0	1	0	0	0	7738	101	4	3	1670	3	INADL	1	62271194	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	18187642	62271194	186979427	9	45335										
CCDC18	343099	broad.mit.edu;bcgsc.ca	37	chr1	93705010	93705043	+	Splice_Site	DEL	TAGAAAAGAAAACAAATGCTGGTAAGCAAGTGGT	TAGAAAAGAAAACAAATGCTGGTAAGCAAGTGGT	-													0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	agatcagacaaagacagagcTagaaaagaaaacaaatgctg					rs550574161		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	TAGAAAAGAAAACAAATGCTGGTAAGCAAGTGGT	TAGAAAAGAAAACAAATGCTGGTAAGCAAGTGGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:93705010_93705043delTAGAAAAGAAAACAAATGCTGGTAAGCAAGTGGT	ENST00000343253.7	+	20	3246_3266	c.2744_2764delTAGAAAAGAAAACAAATGCTGGTAAGCAAGTGGT	c.(2743-2766)ctagaaaagaaaacaaatgctggt>cgt	p.LEKKTNAG915fs	CCDC18_ENST00000401026.3_Splice_Site_p.LEKKTNAG916fs|CCDC18_ENST00000334652.5_Splice_Site_p.LEKKTNAG211fs|CCDC18_ENST00000557479.1_Splice_Site_p.LEKKTNAG1034fs|CCDC18_ENST00000421014.2_3'UTR|CCDC18_ENST00000338949.4_Splice_Site_p.LEKKTNAG671fs			Q5T9S5	CCD18_HUMAN	coiled-coil domain containing 18	915										breast(5)|endometrium(3)|kidney(1)|large_intestine(6)|lung(19)|ovary(3)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	42		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)		AAGACAGAGCTAGAAAAGAAAACAAATGCTGGTAAGCAAGTGGTTAGATGAGTA	0.363																																																0																																										SO:0001630	splice_region_variant	343099					1p22.1	2008-02-05			ENSG00000122483	ENSG00000122483			30370	protein-coding gene	gene with protein product						12601173	Standard	XM_006710609		Approved	NY-SAR-41	uc021opx.1	Q5T9S5	OTTHUMG00000010598	ENST00000343253.7:c.2764+1TAGAAAAGAAAACAAATGCTGGTAAGCAAGTGGT>-	1.37:g.93705010_93705043delTAGAAAAGAAAACAAATGCTGGTAAGCAAGTGGT		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZU17	In_Frame_Del	DEL	ENST00000343253.7	37																																																																																					0.363	CCDC18-008	PUTATIVE	basic|appris_principal|exp_conf	protein_coding	protein_coding	OTTHUMT00000382327.1	NM_206886	Frame_Shift_Del	-	93705043	TAGAAAAGAAAACAAATGCTGGTAAGCAAGTGGT	-	93705010	8	5	695	1	0	1	0	1	0	0	1	0	2796	1522	53	0	3179	0	CCDC18	1	93705010	Splice_Site	DEL	TAGAAAAGAAAACAAATGCTGGTAAGCAAGTGGT	TCGA-P4-A5E6-01A-11D-A28G-10	31433816	93705010	155545611	10	45336										
PRMT6	55170	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	107599742	107599742	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ctggaggaccgggtgcacgtCctgccgggaccagtggagac	17	12	0	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:107599742C>T	ENST00000370078.1	+	1	442	c.405C>T	c.(403-405)gtC>gtT	p.V135V	PRMT6_ENST00000361318.5_Silent_p.V76V			Q96LA8	ANM6_HUMAN	protein arginine methyltransferase 6	135	SAM-dependent MTase PRMT-type. {ECO:0000255|PROSITE-ProRule:PRU01015}.				base-excision repair (GO:0006284)|histone H3-R2 methylation (GO:0034970)|histone H4-R3 methylation (GO:0043985)|histone methylation (GO:0016571)|negative regulation of transcription, DNA-templated (GO:0045892)|peptidyl-arginine methylation, to asymmetrical-dimethyl arginine (GO:0019919)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	cytosol (GO:0005829)|nucleus (GO:0005634)	histone binding (GO:0042393)|histone methyltransferase activity (GO:0042054)|histone methyltransferase activity (H2A-R3 specific) (GO:0070612)|histone methyltransferase activity (H3-R2 specific) (GO:0070611)|histone methyltransferase activity (H4-R3 specific) (GO:0044020)|protein-arginine omega-N asymmetric methyltransferase activity (GO:0035242)|protein-arginine omega-N monomethyltransferase activity (GO:0035241)			biliary_tract(1)|breast(2)|kidney(1)|large_intestine(4)|lung(5)|urinary_tract(1)	14		all_epithelial(167;0.000429)|all_lung(203;0.00122)|Lung NSC(277;0.00185)		Lung(183;0.0305)|Epithelial(280;0.0765)|Colorectal(144;0.0998)|all cancers(265;0.14)|LUSC - Lung squamous cell carcinoma(189;0.173)|BRCA - Breast invasive adenocarcinoma(282;0.242)		GGGTGCACGTCCTGCCGGGAC	0.672																																																0													72	85	81					1																	107599742		2178	4281	6459	SO:0001819	synonymous_variant	55170			AK001421	CCDS41360.1, CCDS41360.2	1p13.2	2008-02-05	2006-02-16	2006-02-16	ENSG00000198890	ENSG00000198890		"Protein arginine methyltransferases"	18241	protein-coding gene	gene with protein product		608274	"HMT1 hnRNP methyltransferase-like 6 (S. cerevisiae)"	HRMT1L6		11724789	Standard	NM_018137		Approved	FLJ10559	uc010ous.2	Q96LA8	OTTHUMG00000010964	ENST00000370078.1:c.405C>T	1.37:g.107599742C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A3KME1|B4DID8|Q5T5Y5|Q6DKI4|Q9NVR8	Silent	SNP	ENST00000370078.1	37	CCDS41360.2	.	.	.	.	.	.	.	.	.	.	C	5.305	0.241690	0.10077	.	.	ENSG00000198890	ENST00000540389	.	.	.	5.75	1.4	0.22301	.	.	.	.	.	T	0.48537	0.1505	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.53753	-0.8394	5	0.87932	D	0	-18.1897	6.1728	0.20427	0.0:0.3898:0.4219:0.1884	.	.	.	.	S	29	.	ENSP00000440829:P29S	P	+	1	0	PRMT6	107401265	0.574000	0.26684	0.997000	0.53966	0.007000	0.05969	-0.426000	0.07008	0.714000	0.32081	0.544000	0.68410	CCT		0.672	PRMT6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000030185.1	NM_018137		T	107599742	C	T	107599742	2	4	695	1	0	0	0	0	0	0	0	1	12550	842	30	2		2	PRMT6	1	107599742	Silent	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	13894732	107599742	141650879	11	45337										
CRNN	49860	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	152384603	152384603	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cggcaaactcttgctccaagAgtcttttcagctcccctcgg	8	15	3	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:152384603A>G	ENST00000271835.3	-	2	169	c.107T>C	c.(106-108)cTc>cCc	p.L36P	RP1-91G5.3_ENST00000411804.1_RNA	NM_016190.2	NP_057274.1	Q9UBG3	CRNN_HUMAN	cornulin	36					response to heat (GO:0009408)|single organismal cell-cell adhesion (GO:0016337)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	calcium ion binding (GO:0005509)			breast(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(16)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	35	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTGCTCCAAGAGTCTTTTCAG	0.557																																																0													152	132	139					1																	152384603		2203	4300	6503	SO:0001583	missense	49860			AF077831	CCDS1010.1	1q21	2014-01-28	2005-06-13	2005-06-13	ENSG00000143536	ENSG00000143536		"EF-hand domain containing"	1230	protein-coding gene	gene with protein product		611312	"chromosome 1 open reading frame 10"	C1orf10		11056050, 15854041	Standard	NM_016190		Approved	SEP53	uc001ezx.2	Q9UBG3	OTTHUMG00000012383	ENST00000271835.3:c.107T>C	1.37:g.152384603A>G	ENSP00000271835:p.Leu36Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE60|Q8N613	Missense_Mutation	SNP	ENST00000271835.3	37	CCDS1010.1	.	.	.	.	.	.	.	.	.	.	A	17.97	3.518486	0.64634	.	.	ENSG00000143536	ENST00000271835;ENST00000451038	T	0.36340	1.26	4.78	3.65	0.41850	S100/CaBP-9k-type, calcium binding, subdomain (1);EF-hand-like domain (1);	0.164580	0.29021	N	0.013391	T	0.54175	0.1842	M	0.92507	3.315	0.51233	D	0.999918	D	0.89917	1.0	D	0.80764	0.994	T	0.61652	-0.7019	10	0.87932	D	0	.	7.0943	0.25301	0.8983:0.0:0.1017:0.0	.	36	Q9UBG3	CRNN_HUMAN	P	36	ENSP00000271835:L36P	ENSP00000271835:L36P	L	-	2	0	CRNN	150651227	0.903000	0.30736	0.739000	0.30968	0.985000	0.73830	3.133000	0.50531	0.861000	0.35504	0.482000	0.46254	CTC		0.557	CRNN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034503.1	NM_016190		G	152384603	A	G	152384603	3	3	695	1	0	0	0	0	1	0	0	0	3894	304	11	3	1388	3	CRNN	1	152384603	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	44784861	152384603	96866018	12	45338										
INTS3	65123	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	153735733	153735733	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gaagagggagtttcgcttccAccctatcaaggagacagttg	12	9	1	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:153735733A>T	ENST00000318967.2	+	16	2229	c.1661A>T	c.(1660-1662)cAc>cTc	p.H554L	INTS3_ENST00000456435.1_Missense_Mutation_p.H348L|INTS3_ENST00000435409.2_Missense_Mutation_p.H554L|INTS3_ENST00000512605.1_Missense_Mutation_p.H348L|INTS3_ENST00000476843.1_3'UTR	NM_023015.3	NP_075391.3	Q68E01	INT3_HUMAN	integrator complex subunit 3	555					cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|mitotic cell cycle checkpoint (GO:0007093)|response to ionizing radiation (GO:0010212)|snRNA processing (GO:0016180)	integrator complex (GO:0032039)|nucleus (GO:0005634)|SOSS complex (GO:0070876)				breast(1)|cervix(4)|endometrium(10)|kidney(1)|large_intestine(6)|lung(9)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	38	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)			TTTCGCTTCCACCCTATCAAG	0.493																																																0													162	160	161					1																	153735733		2203	4300	6503	SO:0001583	missense	65123			BX640950	CCDS1052.1	1q21.3	2012-03-16	2006-03-15	2006-03-15	ENSG00000143624	ENSG00000143624			26153	protein-coding gene	gene with protein product	"sensor of single-strand DNA complex subunit A"	611347	"chromosome 1 open reading frame 60"	C1orf60		16239144	Standard	NM_023015		Approved	FLJ21919, INT3, SOSS-A	uc001fct.3	Q68E01	OTTHUMG00000037089	ENST00000318967.2:c.1661A>T	1.37:g.153735733A>T	ENSP00000318641:p.His554Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1W0|B4DQC8|B4E3U9|D3DV57|Q4G0E5|Q5VUQ5|Q5VUQ6|Q5VUR0|Q5VUR1|Q68DJ1|Q69YR5|Q6AI57|Q6DKG7|Q6MZQ4|Q6MZZ9|Q8NC46|Q8TB23|Q9H6S9	Missense_Mutation	SNP	ENST00000318967.2	37	CCDS1052.1	.	.	.	.	.	.	.	.	.	.	A	12.83	2.054197	0.36277	.	.	ENSG00000143624	ENST00000318967;ENST00000456435;ENST00000435409;ENST00000512605	.	.	.	5.13	5.13	0.70059	.	0.055820	0.64402	D	0.000001	T	0.28830	0.0715	L	0.40543	1.245	0.54753	D	0.999987	B;B;B	0.27732	0.187;0.039;0.187	B;B;B	0.27500	0.08;0.017;0.038	T	0.13098	-1.0522	9	0.10636	T	0.68	.	12.941	0.58345	1.0:0.0:0.0:0.0	.	348;555;554	Q68E01-3;Q68E01;Q68E01-2	.;INT3_HUMAN;.	L	554;348;554;348	.	ENSP00000318641:H554L	H	+	2	0	INTS3	152002357	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	4.808000	0.62583	2.153000	0.67306	0.459000	0.35465	CAC		0.493	INTS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090045.2	NM_023015		T	153735733	A	T	153735733	3	4	695	1	0	0	0	0	1	0	0	0	7786	159	6	5	1723	5	INTS3	1	153735733	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	1351130	153735733	95514888	13	45339										
DENND4B	9909	hgsc.bcm.edu	37	chr1	153907287	153907287	+	Missense_Mutation	SNP	G	G	C													0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tgacacctgctcctgctgctGctgctgctgctgctgctgtt					rs3835302|rs199597671		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:153907287G>C	ENST00000361217.4	-	18	3140	c.2722C>G	c.(2722-2724)Cag>Gag	p.Q908E	DENND4B_ENST00000474386.1_5'Flank	NM_014856.2	NP_055671.2	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	908	Gln-rich.				positive regulation of Rab GTPase activity (GO:0032851)|regulation of Rab protein signal transduction (GO:0032483)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)	Rab guanyl-nucleotide exchange factor activity (GO:0017112)			NS(1)|breast(1)|cervix(1)|endometrium(7)|kidney(2)|large_intestine(6)|lung(9)|ovary(1)|prostate(5)|skin(2)|urinary_tract(1)	36	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			tcctgctgctgctgctgctgc	0.632																																																0													23	27	26					1																	153907287		2184	4281	6465	SO:0001583	missense	9909			AB007945	CCDS44228.1	1q21.3	2012-10-03	2006-01-27	2006-01-27	ENSG00000198837	ENSG00000198837		"DENN/MADD domain containing"	29044	protein-coding gene	gene with protein product			"KIAA0476"	KIAA0476		9455484, 12906859	Standard	NM_014856		Approved		uc001fdd.1	O75064	OTTHUMG00000037157	ENST00000361217.4:c.2722C>G	1.37:g.153907287G>C	ENSP00000354597:p.Gln908Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T4K0	Missense_Mutation	SNP	ENST00000361217.4	37	CCDS44228.1	.	.	.	.	.	.	.	.	.	.	G	1.785	-0.481073	0.04383	.	.	ENSG00000198837	ENST00000361217;ENST00000368646	T;T	0.06294	3.33;3.32	2.67	0.673	0.17941	.	5.053470	0.00166	N	0.000001	T	0.00815	0.0027	N	0.14661	0.345	0.19300	N	0.999977	B	0.02656	0.0	B	0.04013	0.001	T	0.26573	-1.0099	10	0.02654	T	1	-2.4288	3.3651	0.07201	0.1454:0.0:0.5849:0.2697	.	908	O75064	DEN4B_HUMAN	E	908;919	ENSP00000354597:Q908E;ENSP00000357635:Q919E	ENSP00000354597:Q908E	Q	-	1	0	DENND4B	152173911	0.943000	0.32029	0.986000	0.45419	0.760000	0.43138	0.537000	0.23144	0.194000	0.20326	0.271000	0.19318	CAG		0.632	DENND4B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090278.2	XM_375806		C	153907287	G	C	153907287	3	2	695	1	0	0	0	0	1	0	0	0	4436	1328	46	4	1812	4	DENND4B	1	153907287	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	171554	153907287	95343334	14	45340	494	2								
DENND4B	9909	broad.mit.edu	37	chr1	153907294	153907294	+	Silent	SNP	C	C	T													0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tgctcctgctgctgctgctgCtgctgctgctgttgctgctg							TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:153907294C>T	ENST00000361217.4	-	18	3133	c.2715G>A	c.(2713-2715)caG>caA	p.Q905Q	DENND4B_ENST00000474386.1_5'Flank	NM_014856.2	NP_055671.2	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	905	Gln-rich.				positive regulation of Rab GTPase activity (GO:0032851)|regulation of Rab protein signal transduction (GO:0032483)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)	Rab guanyl-nucleotide exchange factor activity (GO:0017112)			NS(1)|breast(1)|cervix(1)|endometrium(7)|kidney(2)|large_intestine(6)|lung(9)|ovary(1)|prostate(5)|skin(2)|urinary_tract(1)	36	all_lung(78;2.89e-32)|Lung NSC(65;2.27e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			gctgctgctgctgctgctgct	0.632																																																0													27	35	32					1																	153907294		2181	4275	6456	SO:0001819	synonymous_variant	9909			AB007945	CCDS44228.1	1q21.3	2012-10-03	2006-01-27	2006-01-27	ENSG00000198837	ENSG00000198837		"DENN/MADD domain containing"	29044	protein-coding gene	gene with protein product			"KIAA0476"	KIAA0476		9455484, 12906859	Standard	NM_014856		Approved		uc001fdd.1	O75064	OTTHUMG00000037157	ENST00000361217.4:c.2715G>A	1.37:g.153907294C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T4K0	Silent	SNP	ENST00000361217.4	37	CCDS44228.1																																																																																				0.632	DENND4B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090278.2	XM_375806		T	153907294	C	T	153907294	2	4	695	1	0	0	0	0	0	0	0	1	4436	796	28	2		2	DENND4B	1	153907294	Silent	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	7	153907294	95343327	15	45341	494	2								
KIAA0907	22889	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	155903553	155903553	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gtggtgcccccaggacttccCccactgctggtgacctcccc	10	19	0	1	rs147323254		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:155903553C>G	ENST00000368321.3	-	2	149	c.126G>C	c.(124-126)ggG>ggC	p.G42G	KIAA0907_ENST00000368320.3_Silent_p.G42G|KIAA0907_ENST00000368319.3_Silent_p.G42G|KIAA0907_ENST00000482337.1_5'UTR	NM_014949.2	NP_055764.2	Q7Z7F0	K0907_HUMAN	KIAA0907	42							RNA binding (GO:0003723)			breast(1)|endometrium(2)|kidney(1)|large_intestine(4)|liver(1)|lung(11)|urinary_tract(1)	21	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)			CAGGACTTCCCCCACTGCTGG	0.617													C|||	1	0.000199681	0.0008	0.0	5008	,	,		14922	0.0		0.0	False		,,,				2504	0.0															0								C		1,4405		0,1,2202	27	31	30		126	1	1	1	dbSNP_134	30	0,8600		0,0,4300	no	coding-synonymous	KIAA0907	NM_014949.2		0,1,6502	GG,GC,CC		0.0,0.0227,0.0077		42/615	155903553	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	22889			BC062637	CCDS30885.1	1q22	2012-11-30			ENSG00000132680	ENSG00000132680			29145	protein-coding gene	gene with protein product						10048485	Standard	NM_014949		Approved	BLOM7	uc001fmi.1	Q7Z7F0	OTTHUMG00000014103	ENST00000368321.3:c.126G>C	1.37:g.155903553C>G		Somatic		WXS	Illumina HiSeq	Phase_I	O94981|Q7L7Q2|Q7Z7E9|Q8TBQ0	Silent	SNP	ENST00000368321.3	37	CCDS30885.1																																																																																				0.617	KIAA0907-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039583.1	NM_014949		G	155903553	C	G	155903553	2	3	695	1	0	0	0	0	0	0	0	1	8206	610	22	4		4	KIAA0907	1	155903553	Silent	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	1996259	155903553	93347068	16	45342										
HDGF	3068	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	156713547	156713547	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gggaggcccccggccagagcCgggctcagagggggtgctat	19	12	1	2	rs375226201		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:156713547C>T	ENST00000357325.5	-	5	927	c.613G>A	c.(613-615)Ggc>Agc	p.G205S	HDGF_ENST00000368209.5_Missense_Mutation_p.G198S|MRPL24_ENST00000368211.4_5'Flank|HDGF_ENST00000537739.1_Missense_Mutation_p.G205S|HDGF_ENST00000368206.5_Missense_Mutation_p.G221S|HDGF_ENST00000416666.2_Missense_Mutation_p.G173S|HDGF_ENST00000465180.1_5'UTR|MRPL24_ENST00000361531.2_5'Flank	NM_004494.2	NP_004485.1	P51858	HDGF_HUMAN	hepatoma-derived growth factor	205	Glu-rich.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cell proliferation (GO:0008283)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein localization to nucleus (GO:0034504)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	DNA binding (GO:0003677)|heparin binding (GO:0008201)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|RNA polymerase II transcription corepressor activity (GO:0001106)|transcription corepressor binding (GO:0001222)			endometrium(1)|kidney(1)|large_intestine(1)|lung(6)	9	all_hematologic(923;0.088)|Hepatocellular(266;0.158)	Breast(1374;0.198)		Colorectal(1306;0.018)		CGGCCAGAGCCGGGCTCAGAG	0.587																																																0								C	SER/GLY,SER/GLY,SER/GLY	0,4406		0,0,2203	30	33	32		661,592,613	0.6	0.1	1		32	1,8599		0,1,4299	no	missense,missense,missense	HDGF	NM_001126050.1,NM_001126051.1,NM_004494.2	56,56,56	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign,benign,benign	221/257,198/234,205/241	156713547	1,13005	2203	4300	6503	SO:0001583	missense	3068			D16431	CCDS1156.1, CCDS44247.1, CCDS44248.1	1q23.1	2013-10-14	2010-03-19		ENSG00000143321	ENSG00000143321			4856	protein-coding gene	gene with protein product	"high-mobility group protein 1-like"	600339	"hepatoma-derived growth factor (high-mobility group protein 1-like)"			8833162	Standard	NM_004494		Approved	HMG1L2	uc001fpy.4	P51858	OTTHUMG00000041295	ENST00000357325.5:c.613G>A	1.37:g.156713547C>T	ENSP00000349878:p.Gly205Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KU21|D3DVC9|Q5SZ07|Q5SZ08|Q5SZ09	Missense_Mutation	SNP	ENST00000357325.5	37	CCDS1156.1	.	.	.	.	.	.	.	.	.	.	C	10.45	1.352591	0.24512	0.0	1.16E-4	ENSG00000143321	ENST00000357325;ENST00000368209;ENST00000537739;ENST00000416666;ENST00000368206;ENST00000406805	T;T;T;T;T	0.30448	2.05;1.56;2.05;1.6;1.53	4.55	0.546	0.17196	.	1.032050	0.07707	N	0.941443	T	0.06280	0.0162	L	0.34521	1.04	0.09310	N	1	B;B;B;B	0.28291	0.206;0.206;0.034;0.014	B;B;B;B	0.14023	0.01;0.01;0.004;0.002	T	0.38628	-0.9652	10	0.15952	T	0.53	-2.1192	6.8306	0.23907	0.0:0.6085:0.0:0.3915	.	180;221;198;205	B7Z958;Q5SZ07;Q5SZ08;P51858	.;.;.;HDGF_HUMAN	S	205;198;205;173;221;228	ENSP00000349878:G205S;ENSP00000357192:G198S;ENSP00000443120:G205S;ENSP00000416752:G173S;ENSP00000357189:G221S	ENSP00000349878:G205S	G	-	1	0	HDGF	154980171	0.000000	0.05858	0.089000	0.20774	0.788000	0.44548	-0.589000	0.05767	-0.053000	0.13289	0.456000	0.33151	GGC		0.587	HDGF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000098946.1	NM_004494		T	156713547	C	T	156713547	3	4	695	1	0	0	0	0	1	0	0	0	7025	652	23	1	117	1	HDGF	1	156713547	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	809994	156713547	92537074	17	45343										
IPO9	55705	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	201842054	201842054	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	agaggagatctacagcatggAtgagggcatccgcacccgct	13	11	1	3			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:201842054A>C	ENST00000361565.4	+	20	2744	c.2675A>C	c.(2674-2676)gAt>gCt	p.D892A		NM_018085.4	NP_060555.2	Q96P70	IPO9_HUMAN	importin 9	892					protein import into nucleus (GO:0006606)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	histone binding (GO:0042393)|protein transporter activity (GO:0008565)			cervix(1)|endometrium(5)|kidney(4)|large_intestine(5)|lung(16)|ovary(2)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	38						TACAGCATGGATGAGGGCATC	0.532																																																0													97	88	91					1																	201842054		2203	4300	6503	SO:0001583	missense	55705			AF410465	CCDS1415.1	1q31.3	2008-02-05			ENSG00000198700	ENSG00000198700		"Importins"	19425	protein-coding gene	gene with protein product						11823430, 10574461	Standard	NM_018085		Approved	Imp9, FLJ10402	uc001gwz.3	Q96P70	OTTHUMG00000035805	ENST00000361565.4:c.2675A>C	1.37:g.201842054A>C	ENSP00000354742:p.Asp892Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B1ASV5|Q8N1Y1|Q8N3I2|Q8NCG9|Q96SU6|Q9NW01|Q9P0A8|Q9ULM8	Missense_Mutation	SNP	ENST00000361565.4	37	CCDS1415.1	.	.	.	.	.	.	.	.	.	.	A	15.53	2.859721	0.51376	.	.	ENSG00000198700	ENST00000361565	.	.	.	5.23	5.23	0.72850	Armadillo-like helical (1);Armadillo-type fold (1);	0.136301	0.64402	D	0.000004	T	0.40498	0.1119	N	0.17723	0.515	0.80722	D	1	B	0.17038	0.02	B	0.16722	0.016	T	0.26677	-1.0096	9	0.12103	T	0.63	-31.3306	13.3919	0.60829	1.0:0.0:0.0:0.0	.	892	Q96P70	IPO9_HUMAN	A	892	.	ENSP00000354742:D892A	D	+	2	0	IPO9	200108677	1.000000	0.71417	0.990000	0.47175	0.998000	0.95712	8.726000	0.91474	2.107000	0.64212	0.533000	0.62120	GAT		0.532	IPO9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087088.1	NM_018085		C	201842054	A	C	201842054	3	2	695	1	0	0	0	0	1	0	0	0	7806	333	12	5	2753	5	IPO9	1	201842054	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	45128507	201842054	47408567	18	45344										
YOD1	55432	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	207222409	207222409	+	Frame_Shift_Del	DEL	C	C	-													0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gcctgtctccttggcatgttCccttgcttctgcttgtccag							TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:207222409delC	ENST00000315927.4	-	2	1049	c.1003delG	c.(1003-1005)gaafs	p.E335fs	PFKFB2_ENST00000411990.2_5'Flank|YOD1_ENST00000367084.1_Frame_Shift_Del_p.E291fs|YOD1_ENST00000391927.1_Frame_Shift_Del_p.E291fs	NM_018566.3	NP_061036.3	Q5VVQ6	OTU1_HUMAN	YOD1 deubiquitinase	335					cellular amino acid metabolic process (GO:0006520)|endoplasmic reticulum unfolded protein response (GO:0030968)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|protein K11-linked deubiquitination (GO:0035871)|protein K27-linked deubiquitination (GO:1990167)|protein K29-linked deubiquitination (GO:0035523)|protein K33-linked deubiquitination (GO:1990168)|protein K48-linked deubiquitination (GO:0071108)|protein K63-linked deubiquitination (GO:0070536)		Lys48-specific deubiquitinase activity (GO:1990380)|metal ion binding (GO:0046872)|ubiquitin-specific protease activity (GO:0004843)			cervix(1)|endometrium(3)|large_intestine(1)|lung(3)|ovary(3)	11	Prostate(682;0.19)					TTGGCATGTTCCCTTGCTTCT	0.478																																																0													271	251	257					1																	207222409		2203	4300	6503	SO:0001589	frameshift_variant	55432				CCDS31002.1, CCDS60402.1	1q32.2	2013-06-04	2013-06-04		ENSG00000180667	ENSG00000180667		"OTU domain containing"	25035	protein-coding gene	gene with protein product		612023	"YOD1 OTU deubiquinating enzyme 1 homolog ( yeast)", "YOD1 OTU deubiquinating enzyme 1 homolog (S. cerevisiae)"				Standard	NM_001276320		Approved	DKFZp451J1719, OTUD2, DUBA8	uc001hfe.1	Q5VVQ6	OTTHUMG00000036032	ENST00000315927.4:c.1003delG	1.37:g.207222409delC	ENSP00000326813:p.Glu335fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNX3|Q5VVQ5|Q6ZRS6|Q86T63|Q9P1L8	Frame_Shift_Del	DEL	ENST00000315927.4	37	CCDS31002.1																																																																																				0.478	YOD1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087837.1	NM_018566		-	207222409	C	-	207222409	7	5	695	1	0	1	0	1	0	0	0	0	17500	864	30	0	47	0	YOD1	1	207222409	Frame_Shift_Del	DEL	C	TCGA-P4-A5E6-01A-11D-A28G-10	5380355	207222409	42028212	19	45345										
CENPF	1063	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	214813548	214813548	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	aaactctgttttcttgttggAaaagtgaaaacgaaaaactt	7	5	2	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:214813548A>T	ENST00000366955.3	+	12	2035	c.1867A>T	c.(1867-1869)Aaa>Taa	p.K623*		NM_016343.3	NP_057427.3	P49454	CENPF_HUMAN	centromere protein F, 350/400kDa	0					cell differentiation (GO:0030154)|cell proliferation (GO:0008283)|chromosome segregation (GO:0007059)|DNA replication (GO:0006260)|G2/M transition of mitotic cell cycle (GO:0000086)|kinetochore assembly (GO:0051382)|metaphase plate congression (GO:0051310)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|muscle organ development (GO:0007517)|negative regulation of transcription, DNA-templated (GO:0045892)|protein transport (GO:0015031)|regulation of cell cycle (GO:0051726)|regulation of G2/M transition of mitotic cell cycle (GO:0010389)|regulation of striated muscle tissue development (GO:0016202)|response to drug (GO:0042493)	chromosome, centromeric region (GO:0000775)|condensed chromosome outer kinetochore (GO:0000940)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinetochore (GO:0000776)|midbody (GO:0030496)|nuclear envelope (GO:0005635)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)|pronucleus (GO:0045120)|spindle (GO:0005819)|spindle pole (GO:0000922)	chromatin binding (GO:0003682)|dynein binding (GO:0045502)|protein C-terminus binding (GO:0008022)|protein homodimerization activity (GO:0042803)|transcription factor binding (GO:0008134)			NS(2)|breast(2)|central_nervous_system(4)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(37)|lung(47)|ovary(7)|prostate(3)|skin(6)|stomach(1)|urinary_tract(1)	126				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TTCTTGTTGGAAAAGTGAAAA	0.333																																					Colon(80;575 1284 11000 14801 43496)											0													32	37	36					1																	214813548		2198	4298	6496	SO:0001587	stop_gained	1063			U30872	CCDS31023.1	1q41	2013-11-05	2013-01-17		ENSG00000117724	ENSG00000117724			1857	protein-coding gene	gene with protein product	"mitosin"	600236	"centromere protein F, 350/400kDa (mitosin)"			7904902, 7851898	Standard	NM_016343		Approved	hcp-1	uc001hkm.3	P49454	OTTHUMG00000036955	ENST00000366955.3:c.1867A>T	1.37:g.214813548A>T	ENSP00000355922:p.Lys623*	Somatic		WXS	Illumina HiSeq	Phase_I	Q13171|Q13246|Q5VVM7	Nonsense_Mutation	SNP	ENST00000366955.3	37	CCDS31023.1	.	.	.	.	.	.	.	.	.	.	A	40	8.443638	0.98813	.	.	ENSG00000117724	ENST00000366955	.	.	.	5.6	5.6	0.85130	.	0.000000	0.39407	N	0.001364	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	15.7907	0.78357	1.0:0.0:0.0:0.0	.	.	.	.	X	623	.	ENSP00000355922:K623X	K	+	1	0	CENPF	212880171	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.770000	0.85390	2.126000	0.65437	0.443000	0.29094	AAA		0.333	CENPF-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000089749.1	NM_016343		T	214813548	A	T	214813548	4	4	695	1	0	0	0	0	0	1	0	0	3233	247	9	5	1909	5	CENPF	1	214813548	Nonsense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	7591139	214813548	34437073	20	45346										
EPRS	2058	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	220154162	220154162	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cctgccaaagaaattcacgaGtacgtaggaaaggctgagga	12	8	1	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:220154162G>C	ENST00000366923.3	-	25	3760	c.3491C>G	c.(3490-3492)aCt>aGt	p.T1164S		NM_004446.2	NP_004437.2	P07814	SYEP_HUMAN	glutamyl-prolyl-tRNA synthetase	1164	Proline--tRNA ligase.				cellular response to interferon-gamma (GO:0071346)|gene expression (GO:0010467)|glutamyl-tRNA aminoacylation (GO:0006424)|negative regulation of translation (GO:0017148)|prolyl-tRNA aminoacylation (GO:0006433)|protein complex assembly (GO:0006461)|tRNA aminoacylation for protein translation (GO:0006418)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|GAIT complex (GO:0097452)|membrane (GO:0016020)|ribonucleoprotein complex (GO:0030529)	ATP binding (GO:0005524)|glutamate-tRNA ligase activity (GO:0004818)|proline-tRNA ligase activity (GO:0004827)|RNA stem-loop binding (GO:0035613)			breast(2)|endometrium(11)|kidney(2)|large_intestine(13)|lung(24)|ovary(1)|prostate(3)|skin(2)|stomach(2)|urinary_tract(3)	63				GBM - Glioblastoma multiforme(131;0.0735)	L-Proline(DB00172)	AAATTCACGAGTACGTAGGAA	0.388																																																0													64	60	61					1																	220154162		2203	4300	6503	SO:0001583	missense	2058			X54326	CCDS31027.1	1q41	2011-07-01			ENSG00000136628	ENSG00000136628	6.1.1.15, 6.1.1.17	"Aminoacyl tRNA synthetases / Class I", "Aminoacyl tRNA synthetases / Class II"	3418	protein-coding gene	gene with protein product	"glutamate tRNA ligase", "proline tRNA ligase"	138295		QPRS, QARS		1988429	Standard	NM_004446		Approved	EARS, PARS, GLUPRORS	uc001hly.1	P07814	OTTHUMG00000037433	ENST00000366923.3:c.3491C>G	1.37:g.220154162G>C	ENSP00000355890:p.Thr1164Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVA9|B9EGH3|Q05BP6|Q05DF8|Q5DSM1|Q5H9S5|Q6PD57|Q86X73	Missense_Mutation	SNP	ENST00000366923.3	37	CCDS31027.1	.	.	.	.	.	.	.	.	.	.	G	32	5.174061	0.94807	.	.	ENSG00000136628	ENST00000366923	T	0.68025	-0.3	6.06	6.06	0.98353	Aminoacyl-tRNA synthetase, class II (1);Aminoacyl-tRNA synthetase, class II (G/ H/ P/ S), conserved domain (1);	0.000000	0.85682	D	0.000000	T	0.78046	0.4222	L	0.39326	1.205	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.76865	-0.2801	10	0.56958	D	0.05	-28.6459	20.6397	0.99537	0.0:0.0:1.0:0.0	.	1164	P07814	SYEP_HUMAN	S	1164	ENSP00000355890:T1164S	ENSP00000355890:T1164S	T	-	2	0	EPRS	218220785	1.000000	0.71417	0.980000	0.43619	0.980000	0.70556	9.577000	0.98196	2.880000	0.98712	0.650000	0.86243	ACT		0.388	EPRS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091133.2	NM_004446		C	220154162	G	C	220154162	3	2	695	1	0	0	0	0	1	0	0	0	5193	1029	36	4	1079	4	EPRS	1	220154162	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	5340614	220154162	29096459	21	45347										
TLR5	7100	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	223285316	223285316	+	Frame_Shift_Del	DEL	C	C	-													0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gtagtccatagaaattcgaaCtgtaaagttcccccagaagg							TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:223285316delC	ENST00000540964.1	-	4	1519	c.1058delG	c.(1057-1059)agtfs	p.S354fs	TLR5_ENST00000342210.6_Frame_Shift_Del_p.S354fs			O60602	TLR5_HUMAN	toll-like receptor 5	354					cellular response to lipopolysaccharide (GO:0071222)|cellular response to mechanical stimulus (GO:0071260)|defense response to bacterium (GO:0042742)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|male gonad development (GO:0008584)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|positive regulation of interleukin-8 production (GO:0032757)|positive regulation of toll-like receptor signaling pathway (GO:0034123)|regulation of cytokine secretion (GO:0050707)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor signaling pathway (GO:0002224)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	interleukin-1 receptor binding (GO:0005149)|transmembrane signaling receptor activity (GO:0004888)			breast(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(4)|lung(8)|ovary(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	32				GBM - Glioblastoma multiforme(131;0.0851)		GAAATTCGAACTGTAAAGTTC	0.353																																																0													93	93	93					1																	223285316		2203	4300	6503	SO:0001589	frameshift_variant	7100				CCDS31033.1	1q32.3-q42	2014-01-29			ENSG00000187554	ENSG00000187554			11851	protein-coding gene	gene with protein product	"Toll/interleukin-1 receptor-like protein 3"	603031	"systemic lupus erythematosus susceptibility 1"	SLEB1		9435236, 16027372	Standard	NM_003268		Approved	TIL3, FLJ10052, MGC126430, MGC126431	uc001hnw.2	O60602	OTTHUMG00000037937	ENST00000540964.1:c.1058delG	1.37:g.223285316delC	ENSP00000440643:p.Ser354fs	Somatic		WXS	Illumina HiSeq	Phase_I	B1AZ05|B3Y633|B9VJ63|D1CS80|D3DTB8|O15456|Q32MI2|Q32MI3	Frame_Shift_Del	DEL	ENST00000540964.1	37	CCDS31033.1																																																																																				0.353	TLR5-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_003268		-	223285316	C	-	223285316	7	5	695	1	0	1	0	1	0	0	0	0	15966	565	20	0	1522	0	TLR5	1	223285316	Frame_Shift_Del	DEL	C	TCGA-P4-A5E6-01A-11D-A28G-10	3131154	223285316	25965305	22	45348										
C1orf65	164127	hgsc.bcm.edu	37	chr1	223567036	223567036	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	accccgcggcctcgcaggcgCgggtgctcagattcactgcg	14	16	2	1	rs369292167	byFrequency	TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:223567036C>T	ENST00000366875.3	+	1	322	c.219C>T	c.(217-219)cgC>cgT	p.R73R		NM_152610.2	NP_689823.2	Q8N715	CC185_HUMAN		73	Arg-rich.									breast(4)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(4)|lung(12)|skin(3)	29				GBM - Glioblastoma multiforme(131;0.0704)		CTCGCAGGCGCGGGTGCTCAG	0.736													C|||	6	0.00119808	0.0045	0.0	5008	,	,		13138	0.0		0.0	False		,,,				2504	0.0															0								C		15,3615		0,15,1800	4	6	5		219	0.3	0	1		5	0,7554		0,0,3777	no	coding-synonymous	C1orf65	NM_152610.2		0,15,5577	TT,TC,CC		0.0,0.4132,0.1341		73/624	223567036	15,11169	1815	3777	5592	SO:0001819	synonymous_variant	164127																														ENST00000366875.3:c.219C>T	1.37:g.223567036C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N746|Q8NA93	Silent	SNP	ENST00000366875.3	37	CCDS1537.1																																																																																				0.736	C1orf65-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000092718.1			T	223567036	C	T	223567036	2	4	695	1	0	0	0	0	0	0	0	1	2057	755	27	1		1	C1orf65	1	223567036	Silent	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	281720	223567036	25683585	23	45349										
ITPKB	3707	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	226924770	226924784	+	In_Frame_Del	DEL	CTTCCTCTTGGCCTC	CTTCCTCTTGGCCTC	-													0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tcgcgctgcaagatccgcagCttcctcttggcctcctccgg					rs140396711|rs144653273|rs531138740|rs563769960	byFrequency	TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	CTTCCTCTTGGCCTC	CTTCCTCTTGGCCTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:226924770_226924784delCTTCCTCTTGGCCTC	ENST00000272117.3	-	1	375_389	c.376_390delGAGGCCAAGAGGAAG	c.(376-390)gaggccaagaggaagdel	p.EAKRK126del	ITPKB_ENST00000429204.1_In_Frame_Del_p.EAKRK126del|ITPKB_ENST00000366784.1_In_Frame_Del_p.EAKRK126del			P27987	IP3KB_HUMAN	inositol-trisphosphate 3-kinase B	126					cell surface receptor signaling pathway (GO:0007166)|inositol phosphate metabolic process (GO:0043647)|MAPK cascade (GO:0000165)|positive regulation of alpha-beta T cell differentiation (GO:0046638)|positive regulation of Ras protein signal transduction (GO:0046579)|positive thymic T cell selection (GO:0045059)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	ATP binding (GO:0005524)|inositol-1,4,5-trisphosphate 3-kinase activity (GO:0008440)	p.A127A(1)		central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(4)|lung(13)|ovary(4)|prostate(1)|skin(1)	30		Prostate(94;0.0773)				AGATCCGCAGCTTCCTCTTGGCCTCCTCCGGCCCT	0.656																																					Colon(84;110 1851 5306 33547)											1	Substitution - coding silent(1)	large_intestine(1)																																								SO:0001651	inframe_deletion	3707			AJ242780	CCDS1555.1	1q42.12	2011-04-28	2011-04-28		ENSG00000143772	ENSG00000143772	2.7.1.127		6179	protein-coding gene	gene with protein product		147522	"inositol 1,4,5-trisphosphate 3-kinase B"			1654894, 1330886	Standard	NM_002221		Approved	IP3KB, IP3-3KB	uc010pvo.2	P27987	OTTHUMG00000037582	ENST00000272117.3:c.376_390delGAGGCCAAGAGGAAG	1.37:g.226924770_226924784delCTTCCTCTTGGCCTC	ENSP00000272117:p.Glu126_Lys130del	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VWL9|Q5VWM0|Q96BZ2|Q96JS1|Q9UH47	In_Frame_Del	DEL	ENST00000272117.3	37	CCDS1555.1																																																																																				0.656	ITPKB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091632.1	NM_002221		-	226924784	CTTCCTCTTGGCCTC	-	226924770	7	5	695	1	0	1	0	1	0	0	0	0	7925	796	28	0	2478	0	ITPKB	1	226924770	In_Frame_Del	DEL	CTTCCTCTTGGCCTC	TCGA-P4-A5E6-01A-11D-A28G-10	3357734	226924770	22325851	24	45350										
NLRP3	114548	ucsc.edu;bcgsc.ca	37	chr1	247588675	247588675	+	Nonsense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tgcaggaggaggacttcgtgCaaagggccatggactatttc	14	8	0	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:247588675C>T	ENST00000336119.3	+	3	2676	c.1930C>T	c.(1930-1932)Caa>Taa	p.Q644*	NLRP3_ENST00000348069.2_Nonsense_Mutation_p.Q644*|NLRP3_ENST00000366496.2_Nonsense_Mutation_p.Q644*|NLRP3_ENST00000474792.1_3'UTR|NLRP3_ENST00000366497.2_Nonsense_Mutation_p.Q644*|NLRP3_ENST00000391828.3_Nonsense_Mutation_p.Q644*|NLRP3_ENST00000391827.2_Nonsense_Mutation_p.Q644*	NM_001127462.2|NM_001243133.1|NM_004895.4	NP_001120934.1|NP_001230062.1|NP_004886.3	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3	644					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|apoptotic process (GO:0006915)|cellular response to lipopolysaccharide (GO:0071222)|defense response (GO:0006952)|defense response to virus (GO:0051607)|detection of biotic stimulus (GO:0009595)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|interleukin-1 beta production (GO:0032611)|interleukin-1 secretion (GO:0050701)|interleukin-18 production (GO:0032621)|negative regulation of acute inflammatory response (GO:0002674)|negative regulation of inflammatory response (GO:0050728)|negative regulation of interleukin-1 beta secretion (GO:0050713)|negative regulation of NF-kappaB import into nucleus (GO:0042347)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|NLRP3 inflammasome complex assembly (GO:0044546)|nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0035872)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of interleukin-1 beta secretion (GO:0050718)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|protein oligomerization (GO:0051259)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|NLRP3 inflammasome complex (GO:0072559)	ATP binding (GO:0005524)|peptidoglycan binding (GO:0042834)			NS(1)|breast(3)|endometrium(6)|kidney(1)|large_intestine(19)|lung(85)|ovary(9)|pancreas(2)|prostate(4)|skin(8)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	142	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)			GGACTTCGTGCAAAGGGCCAT	0.473																																																0													86	75	79					1																	247588675		2203	4300	6503	SO:0001587	stop_gained	114548			AF054176	CCDS1632.1, CCDS1633.1, CCDS44346.1, CCDS44347.1	1q44	2014-09-17	2006-12-08	2006-12-08	ENSG00000162711	ENSG00000162711		"Nucleotide-binding domain and leucine rich repeat containing"	16400	protein-coding gene	gene with protein product	"Cryopyrin", "nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 3"	606416	"cold autoinflammatory syndrome 1"	C1orf7, CIAS1		10741953	Standard	NM_183395		Approved	AGTAVPRL, AII, AVP, FCAS, FCU, NALP3, PYPAF1, MWS, CLR1.1	uc001icr.3	Q96P20	OTTHUMG00000040647	ENST00000336119.3:c.1930C>T	1.37:g.247588675C>T	ENSP00000337383:p.Gln644*	Somatic		WXS	Illumina HiSeq		B2RC97|B7ZKS9|B7ZKT2|B7ZKT3|O75434|Q17RS2|Q59H68|Q5JQS8|Q5JQS9|Q6TG35|Q8TCW0|Q8TEU9|Q8WXH9	Nonsense_Mutation	SNP	ENST00000336119.3	37	CCDS1632.1	.	.	.	.	.	.	.	.	.	.	C	43	10.352876	0.99389	.	.	ENSG00000162711	ENST00000391828;ENST00000366497;ENST00000336119;ENST00000348069;ENST00000366496;ENST00000391827	.	.	.	3.96	3.02	0.34903	.	0.689062	0.12788	N	0.439137	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	8.9426	0.35740	0.221:0.779:0.0:0.0	.	.	.	.	X	644	.	ENSP00000337383:Q644X	Q	+	1	0	NLRP3	245655298	0.000000	0.05858	0.802000	0.32245	0.910000	0.53928	0.449000	0.21744	1.210000	0.43336	0.655000	0.94253	CAA		0.473	NLRP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097740.1	NM_004895		T	247588675	C	T	247588675	4	4	695	1	0	0	0	0	0	1	0	0	10485	711	25	2	1940	2	NLRP3	1	247588675	Nonsense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	20663905	247588675	1661946	25	45351										
OR2M5	127059	broad.mit.edu;bcgsc.ca	37	chr1	248309355	248309355	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gaggtgaccagagcactcagGaaagtgttaggaaagggcaa	15	6	1	2	rs201158893	byFrequency	TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr1:248309355G>A	ENST00000366476.1	+	1	906	c.906G>A	c.(904-906)agG>agA	p.R302R		NM_001004690.1	NP_001004690.1	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M, member 5	302						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|endometrium(5)|kidney(2)|large_intestine(7)|liver(1)|lung(25)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	49	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;0.0388)			GAGCACTCAGGAAAGTGTTAG	0.453													g|||	3	0.000599042	0.0	0.0	5008	,	,		17536	0.0		0.0	False		,,,				2504	0.0031															0													62	58	59					1																	248309355		2203	4300	6503	SO:0001819	synonymous_variant	127059				CCDS31105.1	1q44	2012-08-09		2004-03-10	ENSG00000162727	ENSG00000162727		"GPCR / Class A : Olfactory receptors"	19576	protein-coding gene	gene with protein product				OR2M5P			Standard	NM_001004690		Approved		uc010pze.2	A3KFT3	OTTHUMG00000040447	ENST00000366476.1:c.906G>A	1.37:g.248309355G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000366476.1	37	CCDS31105.1																																																																																				0.453	OR2M5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097343.1	NM_001004690		A	248309355	G	A	248309355	2	1	695	1	0	0	0	0	0	0	0	1	11020	1165	41	2		2	OR2M5	1	248309355	Silent	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	720680	248309355	941266	26	45352										
MXD1	4084	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	70165384	70165384	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gcatcaagagaataaagctgCaggacagtcacaaggcgtgt	12	8	2	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr2:70165384C>G	ENST00000264444.2	+	6	894	c.634C>G	c.(634-636)Cag>Gag	p.Q212E	MXD1_ENST00000540449.1_Missense_Mutation_p.Q202E|MXD1_ENST00000465446.1_3'UTR	NM_001202513.1|NM_001202514.1|NM_002357.3	NP_001189442.1|NP_001189443.1|NP_002348.1	Q05195	MAD1_HUMAN	MAX dimerization protein 1	212					cell proliferation (GO:0008283)|multicellular organismal development (GO:0007275)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)	nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription cofactor activity (GO:0003712)|transcription corepressor activity (GO:0003714)			breast(1)|endometrium(1)|large_intestine(3)|lung(1)|upper_aerodigestive_tract(1)	7						AATAAAGCTGCAGGACAGTCA	0.547																																																0													103	101	101					2																	70165384		2203	4300	6503	SO:0001583	missense	4084				CCDS1896.1, CCDS56123.1	2p13-p12	2010-07-07		2005-02-11	ENSG00000059728	ENSG00000059728		"MAX dimerization proteins", "Basic helix-loop-helix proteins"	6761	protein-coding gene	gene with protein product		600021		MAD		7829091	Standard	NM_002357		Approved	MAD1, bHLHc58	uc002sfy.3	Q05195	OTTHUMG00000129646	ENST00000264444.2:c.634C>G	2.37:g.70165384C>G	ENSP00000264444:p.Gln212Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6V8|B7ZLI6|D6W5G2|Q6FI41	Missense_Mutation	SNP	ENST00000264444.2	37	CCDS1896.1	.	.	.	.	.	.	.	.	.	.	C	18.69	3.677983	0.68042	.	.	ENSG00000059728	ENST00000435990;ENST00000264444;ENST00000540449	T;T;T	0.45276	0.9;0.91;0.91	5.75	5.75	0.90469	.	0.527941	0.22156	N	0.063844	T	0.35537	0.0935	N	0.22421	0.69	0.47214	D	0.999358	B;B;B	0.23316	0.083;0.083;0.083	B;B;B	0.24006	0.05;0.05;0.05	T	0.13072	-1.0523	10	0.66056	D	0.02	.	18.875	0.92331	0.0:1.0:0.0:0.0	.	202;211;212	B7ZLI6;B7ZLI7;Q05195	.;.;MAD1_HUMAN	E	180;212;202	ENSP00000410672:Q180E;ENSP00000264444:Q212E;ENSP00000443935:Q202E	ENSP00000264444:Q212E	Q	+	1	0	MXD1	70018888	1.000000	0.71417	0.999000	0.59377	0.853000	0.48598	5.131000	0.64751	2.866000	0.98385	0.650000	0.86243	CAG		0.547	MXD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251845.3	NM_002357		G	70165384	C	G	70165384	3	3	695	1	0	0	0	0	1	0	0	0	10006	711	25	4	656	4	MXD1	2	70165384	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10		70165384	173033989	27	45353										
RGPD4	285190	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	108488583	108488583	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ataaagatgttggtcaatggAaagaaaggggcattggtgat	14	2	1	3			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr2:108488583A>G	ENST00000408999.3	+	20	4200	c.4123A>G	c.(4123-4125)Aaa>Gaa	p.K1375E	RGPD4_ENST00000354986.4_Missense_Mutation_p.K1375E	NM_182588.2	NP_872394.2	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	1375	RanBD1 2. {ECO:0000255|PROSITE- ProRule:PRU00164}.				protein targeting to Golgi (GO:0000042)					breast(1)|endometrium(7)|kidney(4)|lung(23)|pancreas(1)|prostate(1)|skin(3)|urinary_tract(3)	43						TGGTCAATGGAAAGAAAGGGG	0.353																																																0													3	3	3					2																	108488583		568	1292	1860	SO:0001583	missense	285190			BX537861	CCDS46381.1	2q12.3	2013-01-10			ENSG00000196862	ENSG00000196862		"Tetratricopeptide (TTC) repeat domain containing"	32417	protein-coding gene	gene with protein product		612707				15710750, 15815621	Standard	NM_182588		Approved	RGP4, DKFZp686P0288	uc010ywk.2	Q7Z3J3	OTTHUMG00000153208	ENST00000408999.3:c.4123A>G	2.37:g.108488583A>G	ENSP00000386810:p.Lys1375Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B9A029	Missense_Mutation	SNP	ENST00000408999.3	37	CCDS46381.1	.	.	.	.	.	.	.	.	.	.	-	12.87	2.068566	0.36470	.	.	ENSG00000196862	ENST00000354986;ENST00000408999	T;T	0.53423	0.62;0.62	2.33	2.33	0.28932	Pleckstrin homology-type (1);Ran binding protein 1 (3);	.	.	.	.	T	0.70745	0.3259	M	0.91406	3.205	0.37032	D	0.896721	D	0.76494	0.999	D	0.80764	0.994	T	0.77611	-0.2523	9	0.87932	D	0	-35.6834	9.2036	0.37275	1.0:0.0:0.0:0.0	.	1375	Q7Z3J3	RGPD4_HUMAN	E	1375	ENSP00000347081:K1375E;ENSP00000386810:K1375E	ENSP00000347081:K1375E	K	+	1	0	RGPD4	107855015	1.000000	0.71417	1.000000	0.80357	0.405000	0.30901	9.032000	0.93736	1.072000	0.40860	0.136000	0.15936	AAA		0.353	RGPD4-001	NOVEL	not_best_in_genome_evidence|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000330096.2	XM_496581		G	108488583	A	G	108488583	3	3	695	1	0	0	0	0	1	0	0	0	13301	247	9	3	4201	3	RGPD4	2	108488583	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	38323199	108488583	134710790	28	45354										
SP5	389058	hgsc.bcm.edu	37	chr2	171572792	171572792	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cgcacccccagcgcctccccGgacctgggcaagcactcgcc	10	22	0	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr2:171572792G>A	ENST00000375281.3	+	2	237	c.75G>A	c.(73-75)ccG>ccA	p.P25P	SP5_ENST00000487037.1_3'UTR|AC007405.2_ENST00000409786.1_5'Flank	NM_001003845.2	NP_001003845.1	Q6BEB4	SP5_HUMAN	Sp5 transcription factor	25					bone morphogenesis (GO:0060349)|post-anal tail morphogenesis (GO:0036342)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|sequence-specific DNA binding (GO:0043565)			NS(1)|endometrium(2)|lung(1)|prostate(1)	5						GCGCCTCCCCGGACCTGGGCA	0.736																																																0													16	22	20					2																	171572792		2004	3993	5997	SO:0001819	synonymous_variant	389058				CCDS33322.1	2q31	2013-01-08			ENSG00000204335	ENSG00000204335		"Specificity protein transcription factors", "Zinc fingers, C2H2-type"	14529	protein-coding gene	gene with protein product		609391					Standard	NM_001003845		Approved		uc002uge.3	Q6BEB4	OTTHUMG00000154053	ENST00000375281.3:c.75G>A	2.37:g.171572792G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000375281.3	37	CCDS33322.1																																																																																				0.736	SP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333670.1	XM_371581		A	171572792	G	A	171572792	2	1	695	1	0	0	0	0	0	0	0	1	14980	1103	39	1		1	SP5	2	171572792	Silent	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	63084209	171572792	71626581	29	45355										
FZD7	8324	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	202900342	202900342	+	Nonsense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cgcttctcggacgatggctaCcgcacggtggcgcagggcac	15	14	1	0	rs571062625		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr2:202900342C>G	ENST00000286201.1	+	1	1033	c.972C>G	c.(970-972)taC>taG	p.Y324*	RP11-107N15.1_ENST00000608741.1_lincRNA	NM_003507.1	NP_003498.1	O75084	FZD7_HUMAN	frizzled class receptor 7	324					axonogenesis (GO:0007409)|brain development (GO:0007420)|canonical Wnt signaling pathway (GO:0060070)|cellular response to retinoic acid (GO:0071300)|G-protein coupled receptor signaling pathway coupled to cGMP nucleotide second messenger (GO:0007199)|gonad development (GO:0008406)|mesenchymal to epithelial transition (GO:0060231)|negative regulation of cell-substrate adhesion (GO:0010812)|negative regulation of ectodermal cell fate specification (GO:0042666)|neuron differentiation (GO:0030182)|non-canonical Wnt signaling pathway via JNK cascade (GO:0038031)|positive regulation of epithelial cell proliferation involved in wound healing (GO:0060054)|positive regulation of JNK cascade (GO:0046330)|positive regulation of phosphorylation (GO:0042327)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of catenin import into nucleus (GO:0035412)|regulation of transcription, DNA-templated (GO:0006355)|skeletal muscle satellite cell maintenance involved in skeletal muscle regeneration (GO:0014834)|somatic stem cell division (GO:0048103)|stem cell maintenance (GO:0019827)|substrate adhesion-dependent cell spreading (GO:0034446)|T cell differentiation in thymus (GO:0033077)|vasculature development (GO:0001944)|Wnt signaling pathway, calcium modulating pathway (GO:0007223)	apical part of cell (GO:0045177)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|neuron projection membrane (GO:0032589)|plasma membrane (GO:0005886)	frizzled binding (GO:0005109)|G-protein coupled receptor activity (GO:0004930)|PDZ domain binding (GO:0030165)|Wnt-activated receptor activity (GO:0042813)|Wnt-protein binding (GO:0017147)			breast(1)|endometrium(6)|large_intestine(6)|lung(11)|ovary(2)|skin(3)|upper_aerodigestive_tract(2)	31						ACGATGGCTACCGCACGGTGG	0.632											OREG0015146	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													65	64	65					2																	202900342		2203	4300	6503	SO:0001587	stop_gained	8324			AB010881	CCDS2351.1	2q33	2014-01-29	2014-01-29		ENSG00000155760	ENSG00000155760		"GPCR / Class F : Frizzled receptors"	4045	protein-coding gene	gene with protein product		603410	"frizzled (Drosophila) homolog 7", "frizzled homolog 7 (Drosophila)", "frizzled 7, seven transmembrane spanning receptor", "frizzled family receptor 7"			9707618, 9813155	Standard	NM_003507		Approved	FzE3	uc002uyw.1	O75084	OTTHUMG00000132841	ENST00000286201.1:c.972C>G	2.37:g.202900342C>G	ENSP00000286201:p.Tyr324*	Somatic	2133	WXS	Illumina HiSeq	Phase_I	O94816|Q53S59|Q96B74	Nonsense_Mutation	SNP	ENST00000286201.1	37	CCDS2351.1	.	.	.	.	.	.	.	.	.	.	C	36	5.730939	0.96856	.	.	ENSG00000155760	ENST00000286201	.	.	.	5.54	5.54	0.83059	.	0.140083	0.49916	D	0.000138	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	19.4882	0.95039	0.0:1.0:0.0:0.0	.	.	.	.	X	324	.	ENSP00000286201:Y324X	Y	+	3	2	FZD7	202608587	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	4.927000	0.63440	2.618000	0.88619	0.563000	0.77884	TAC		0.632	FZD7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256314.1	NM_003507		G	202900342	C	G	202900342	4	3	695	1	0	0	0	0	0	1	0	0	6142	518	18	4	974	4	FZD7	2	202900342	Nonsense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	31327550	202900342	40299031	30	45356										
FAM117B	150864	hgsc.bcm.edu	37	chr2	203500481	203500481	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gccgaagctcgccggagaagAggagccccagcgccccggtt	15	15	0	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr2:203500481A>C	ENST00000392238.2	+	1	571	c.571A>C	c.(571-573)Agg>Cgg	p.R191R	FAM117B_ENST00000303116.6_5'UTR			Q6P1L5	F117B_HUMAN	family with sequence similarity 117, member B	191										breast(3)|central_nervous_system(1)|cervix(1)|endometrium(2)|large_intestine(4)|lung(5)|ovary(1)	17						GCCGGAGAAGAGGAGCCCCAG	0.731																																																0													2	2	2					2																	203500481		404	1189	1593	SO:0001819	synonymous_variant	150864			AB053315	CCDS33362.1, CCDS33362.2	2q33	2008-08-18	2008-08-18	2008-08-18	ENSG00000138439	ENSG00000138439			14440	protein-coding gene	gene with protein product			"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 13"	ALS2CR13		11586298	Standard	NM_173511		Approved	FLJ38771	uc010zhx.2	Q6P1L5	OTTHUMG00000154550	ENST00000392238.2:c.571A>C	2.37:g.203500481A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q53QZ5|Q585T9|Q8N8W1|Q96Q34	Silent	SNP	ENST00000392238.2	37	CCDS33362.2																																																																																				0.731	FAM117B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000335888.3	NM_173511		C	203500481	A	C	203500481	2	2	695	1	0	0	0	0	0	0	0	1	5414	295	11	5		5	FAM117B	2	203500481	Silent	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	600139	203500481	39698892	31	45357										
RPE	6120	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	210881324	210881324	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tggttatgacagtggaaccgGggtttggagggcagaaattc	16	5	0	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr2:210881324G>A	ENST00000359429.6	+	4	533	c.436G>A	c.(436-438)Ggg>Agg	p.G146R	RPE_ENST00000435437.2_Missense_Mutation_p.G146R|RPE_ENST00000452025.1_Missense_Mutation_p.G146R|RPE_ENST00000429907.1_Missense_Mutation_p.G78R|RPE_ENST00000354506.6_Missense_Mutation_p.G138R|RPE_ENST00000445268.1_Missense_Mutation_p.G78R|RPE_ENST00000411934.2_Missense_Mutation_p.G78R|RPE_ENST00000438204.2_Missense_Mutation_p.G78R|RPE_ENST00000436630.2_Missense_Mutation_p.G96R|RPE_ENST00000429921.1_Missense_Mutation_p.G96R|RPE_ENST00000454822.1_Missense_Mutation_p.G96R|RPE_ENST00000540255.1_Missense_Mutation_p.G146R	NM_199229.1	NP_954699.1	Q96AT9	RPE_HUMAN	ribulose-5-phosphate-3-epimerase	146	Substrate binding.				carbohydrate metabolic process (GO:0005975)|pentose-phosphate shunt (GO:0006098)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	identical protein binding (GO:0042802)|metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|ribulose-phosphate 3-epimerase activity (GO:0004750)			endometrium(1)|kidney(1)|large_intestine(2)|lung(3)|skin(2)	9				Epithelial(149;0.00241)|Lung(261;0.041)|all cancers(144;0.0429)|LUSC - Lung squamous cell carcinoma(261;0.0431)		AGTGGAACCGGGGTTTGGAGG	0.438																																																0													132	129	130					2																	210881324		2203	4300	6503	SO:0001583	missense	6120				CCDS2388.1, CCDS42810.1, CCDS63107.1, CCDS63108.1	2q32-q33.3	2012-10-02			ENSG00000197713	ENSG00000197713	5.1.3.1		10293	protein-coding gene	gene with protein product		180480					Standard	NM_199229		Approved		uc002vdn.4	Q96AT9	OTTHUMG00000154690	ENST00000359429.6:c.436G>A	2.37:g.210881324G>A	ENSP00000352401:p.Gly146Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4S0|B4E016|C9JPQ7|O43767|Q53TV9|Q8N215|Q96N34|Q9BSB5	Missense_Mutation	SNP	ENST00000359429.6	37	CCDS2388.1	.	.	.	.	.	.	.	.	.	.	G	34	5.304604	0.95601	.	.	ENSG00000197713	ENST00000359429;ENST00000436630;ENST00000408981;ENST00000454822;ENST00000429921;ENST00000540255;ENST00000438265;ENST00000429907;ENST00000441588;ENST00000445268;ENST00000452025;ENST00000438204;ENST00000411934;ENST00000435437;ENST00000354506	.	.	.	5.45	5.45	0.79879	Aldolase-type TIM barrel (1);Ribulose-phosphate binding barrel (1);	0.000000	0.85682	D	0.000000	D	0.85852	0.5793	M	0.90369	3.11	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	1.0;1.0;1.0;1.0	D	0.88209	0.2889	9	0.87932	D	0	-3.1604	19.2659	0.93985	0.0:0.0:1.0:0.0	.	146;138;146;146	B4E016;E7EW52;Q96AT9;C9J9T0	.;.;RPE_HUMAN;.	R	146;96;78;96;96;146;96;78;78;78;146;78;78;146;138	.	ENSP00000346501:G138R	G	+	1	0	RPE	210589569	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.777000	0.99008	2.725000	0.93324	0.655000	0.94253	GGG		0.438	RPE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000336574.2	NM_006916		A	210881324	G	A	210881324	3	1	695	1	0	0	0	0	1	0	0	0	13557	1232	43	2	508	2	RPE	2	210881324	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	7380843	210881324	32318049	32	45358										
CUL3	8452	hgsc.bcm.edu;bcgsc.ca	37	chr2	225449678	225449678	+	Frame_Shift_Del	DEL	G	G	-													0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	caccggaaaggcccggatccGcatcttggtgtccttccggc							TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr2:225449678delG	ENST00000264414.4	-	1	387	c.49delC	c.(49-51)cggfs	p.R17fs	CUL3_ENST00000344951.4_Frame_Shift_Del_p.R17fs	NM_003590.4	NP_003581.1	Q13618	CUL3_HUMAN	cullin 3	17					cell cycle arrest (GO:0007050)|cell migration (GO:0016477)|COPII vesicle coating (GO:0048208)|cyclin catabolic process (GO:0008054)|embryonic cleavage (GO:0040016)|ER to Golgi vesicle-mediated transport (GO:0006888)|G1/S transition of mitotic cell cycle (GO:0000082)|gastrulation (GO:0007369)|integrin-mediated signaling pathway (GO:0007229)|intrinsic apoptotic signaling pathway (GO:0097193)|mitotic metaphase plate congression (GO:0007080)|negative regulation of Rho protein signal transduction (GO:0035024)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cytokinesis (GO:0032467)|positive regulation of mitotic metaphase/anaphase transition (GO:0045842)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein monoubiquitination (GO:0006513)|protein polyubiquitination (GO:0000209)|protein ubiquitination (GO:0016567)|stem cell division (GO:0017145)|stress fiber assembly (GO:0043149)|trophectodermal cellular morphogenesis (GO:0001831)|Wnt signaling pathway (GO:0016055)	Cul3-RING ubiquitin ligase complex (GO:0031463)|extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|membrane (GO:0016020)|nucleus (GO:0005634)|polar microtubule (GO:0005827)	POZ domain binding (GO:0031208)			endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|large_intestine(2)|liver(1)|lung(19)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(3)	46		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		GCCCGGATCCGCATCTTGGTG	0.736																																																0													37	35	35					2																	225449678		2200	4300	6500	SO:0001589	frameshift_variant	8452			U58089	CCDS2462.1, CCDS58751.1	2q36.2	2011-05-24			ENSG00000036257	ENSG00000036257			2553	protein-coding gene	gene with protein product		603136				8681378, 17192413	Standard	NM_003590		Approved		uc002vny.3	Q13618	OTTHUMG00000133167	ENST00000264414.4:c.49delC	2.37:g.225449678delG	ENSP00000264414:p.Arg17fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K536|B8ZZC3|O75415|Q569L3|Q9UBI8|Q9UET7	Frame_Shift_Del	DEL	ENST00000264414.4	37	CCDS2462.1																																																																																				0.736	CUL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256871.2			-	225449678	G	-	225449678	7	5	695	1	0	1	0	1	0	0	0	0	4058	1086	38	0	2321	0	CUL3	2	225449678	Frame_Shift_Del	DEL	G	TCGA-P4-A5E6-01A-11D-A28G-10	14568354	225449678	17749695	33	45359	495	2								
CUL3	8452	bcgsc.ca	37	chr2	225449679	225449679	+	Missense_Mutation	SNP	C	C	T													0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	accggaaaggcccggatccgCatcttggtgtccttccggct							TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr2:225449679C>T	ENST00000264414.4	-	1	386	c.48G>A	c.(46-48)atG>atA	p.M16I	CUL3_ENST00000344951.4_Missense_Mutation_p.M16I	NM_003590.4	NP_003581.1	Q13618	CUL3_HUMAN	cullin 3	16					cell cycle arrest (GO:0007050)|cell migration (GO:0016477)|COPII vesicle coating (GO:0048208)|cyclin catabolic process (GO:0008054)|embryonic cleavage (GO:0040016)|ER to Golgi vesicle-mediated transport (GO:0006888)|G1/S transition of mitotic cell cycle (GO:0000082)|gastrulation (GO:0007369)|integrin-mediated signaling pathway (GO:0007229)|intrinsic apoptotic signaling pathway (GO:0097193)|mitotic metaphase plate congression (GO:0007080)|negative regulation of Rho protein signal transduction (GO:0035024)|positive regulation of cell proliferation (GO:0008284)|positive regulation of cytokinesis (GO:0032467)|positive regulation of mitotic metaphase/anaphase transition (GO:0045842)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein monoubiquitination (GO:0006513)|protein polyubiquitination (GO:0000209)|protein ubiquitination (GO:0016567)|stem cell division (GO:0017145)|stress fiber assembly (GO:0043149)|trophectodermal cellular morphogenesis (GO:0001831)|Wnt signaling pathway (GO:0016055)	Cul3-RING ubiquitin ligase complex (GO:0031463)|extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|membrane (GO:0016020)|nucleus (GO:0005634)|polar microtubule (GO:0005827)	POZ domain binding (GO:0031208)			endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|large_intestine(2)|liver(1)|lung(19)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(3)	46		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		CCCGGATCCGCATCTTGGTGT	0.736																																																0													37	35	35					2																	225449679		2200	4300	6500	SO:0001583	missense	8452			U58089	CCDS2462.1, CCDS58751.1	2q36.2	2011-05-24			ENSG00000036257	ENSG00000036257			2553	protein-coding gene	gene with protein product		603136				8681378, 17192413	Standard	NM_003590		Approved		uc002vny.3	Q13618	OTTHUMG00000133167	ENST00000264414.4:c.48G>A	2.37:g.225449679C>T	ENSP00000264414:p.Met16Ile	Somatic		WXS	Illumina HiSeq	Phase_1	A8K536|B8ZZC3|O75415|Q569L3|Q9UBI8|Q9UET7	Missense_Mutation	SNP	ENST00000264414.4	37	CCDS2462.1	.	.	.	.	.	.	.	.	.	.	C	12.27	1.887994	0.33348	.	.	ENSG00000036257	ENST00000264414;ENST00000344951	T;T	0.66995	-0.24;-0.15	2.95	1.93	0.25924	.	0.000000	0.85682	U	0.000000	T	0.40862	0.1134	N	0.14661	0.345	0.20196	N	0.999924	B;P	0.35077	0.011;0.483	B;B	0.27887	0.043;0.084	T	0.24225	-1.0166	10	0.22109	T	0.4	.	9.904	0.41364	0.0:0.7891:0.2109:0.0	.	16;16	Q13618-3;Q13618	.;CUL3_HUMAN	I	16	ENSP00000264414:M16I;ENSP00000343601:M16I	ENSP00000264414:M16I	M	-	3	0	CUL3	225157923	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	2.228000	0.42981	1.170000	0.42753	0.313000	0.20887	ATG		0.736	CUL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256871.2			T	225449679	C	T	225449679	3	4	695	1	0	0	0	0	1	0	0	0	4058	710	25	2	2322	2	CUL3	2	225449679	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	1	225449679	17749694	34	45360	495	2								
BHLHE40	8553	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	5024970	5024970	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tgggagaaaggatcggcgcaAttaagcaagagtccgaagaa	14	6	0	3			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr3:5024970A>C	ENST00000256495.3	+	5	1435	c.832A>C	c.(832-834)Att>Ctt	p.I278L		NM_003670.2	NP_003661.1	O14503	BHE40_HUMAN	basic helix-loop-helix family, member e40	278					circadian regulation of gene expression (GO:0032922)|entrainment of circadian clock by photoperiod (GO:0043153)|negative regulation of sequence-specific DNA binding transcription factor activity (GO:0043433)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	Golgi apparatus (GO:0005794)|nucleolus (GO:0005730)|nucleus (GO:0005634)	bHLH transcription factor binding (GO:0043425)|E-box binding (GO:0070888)|MRF binding (GO:0043426)|protein domain specific binding (GO:0019904)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(2)|large_intestine(1)|lung(2)|ovary(1)|skin(2)	12						GATCGGCGCAATTAAGCAAGA	0.537																																																0													76	77	77					3																	5024970		2203	4300	6503	SO:0001583	missense	8553			AB004066	CCDS2565.1	3p26	2009-01-12	2009-01-12	2009-01-12	ENSG00000134107	ENSG00000134107		"Basic helix-loop-helix proteins"	1046	protein-coding gene	gene with protein product	"differentially expressed in chondrocytes 1", " differentiated embryo chondrocyte expressed gene 1"	604256	"basic helix-loop-helix domain containing, class B, 2"	STRA13, BHLHB2		9240428, 10449910, 18557763	Standard	NM_003670		Approved	DEC1, bHLHe40	uc003bqf.3	O14503	OTTHUMG00000119035	ENST00000256495.3:c.832A>C	3.37:g.5024970A>C	ENSP00000256495:p.Ile278Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q96TD3	Missense_Mutation	SNP	ENST00000256495.3	37	CCDS2565.1	.	.	.	.	.	.	.	.	.	.	A	17.95	3.513068	0.64522	.	.	ENSG00000134107	ENST00000256495	T	0.79845	-1.31	5.62	4.47	0.54385	.	0.309371	0.35970	N	0.002872	D	0.85944	0.5815	M	0.75615	2.305	0.80722	D	1	D	0.56035	0.974	P	0.57911	0.829	D	0.85230	0.1032	10	0.46703	T	0.11	.	11.0922	0.48123	0.9283:0.0:0.0717:0.0	.	278	O14503	BHE40_HUMAN	L	278	ENSP00000256495:I278L	ENSP00000256495:I278L	I	+	1	0	BHLHE40	4999970	1.000000	0.71417	0.912000	0.35992	0.165000	0.22458	7.345000	0.79337	0.983000	0.38602	0.533000	0.62120	ATT		0.537	BHLHE40-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239244.2	NM_003670		C	5024970	A	C	5024970	3	2	695	1	0	0	0	0	1	0	0	0	1423	101	4	5	850	5	BHLHE40	3	5024970	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10		5024970	192997460	35	45361										
XPC	7508	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	14188804	14188804	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	actgaccttgggcccgtagcGacgcttcagcctctccctga	10	16	2	2	rs373301509		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr3:14188804G>C	ENST00000285021.7	-	15	2804	c.2590C>G	c.(2590-2592)Cgc>Ggc	p.R864G	AC093495.4_ENST00000428681.3_RNA|RP11-434D12.1_ENST00000608606.1_Intron|RP11-434D12.1_ENST00000601399.1_Intron|AC093495.4_ENST00000420253.1_RNA|XPC_ENST00000449060.2_Missense_Mutation_p.R827G	NM_001145769.1|NM_004628.4	NP_001139241.1|NP_004619.3	Q01831	XPC_HUMAN	xeroderma pigmentosum, complementation group C	864	Interaction with CETN2.|Interaction with ERCC2 and GTF2H1.				DNA repair (GO:0006281)|intra-S DNA damage checkpoint (GO:0031573)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair, DNA damage recognition (GO:0000715)|nucleotide-excision repair, DNA damage removal (GO:0000718)|regulation of mitotic cell cycle phase transition (GO:1901990)|response to drug (GO:0042493)|response to UV-B (GO:0010224)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|XPC complex (GO:0071942)	bubble DNA binding (GO:0000405)|damaged DNA binding (GO:0003684)|heteroduplex DNA loop binding (GO:0000404)|single-stranded DNA binding (GO:0003697)			NS(1)|breast(2)|endometrium(1)|kidney(3)|large_intestine(4)|lung(5)|ovary(3)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	22						GGCCCGTAGCGACGCTTCAGC	0.547			"Mis, N, F, S"			"skin basal cell, skin squamous cell, melanoma"		Nucleotide excision repair (NER)	Xeroderma Pigmentosum																													yes	Rec		Xeroderma pigmentosum (C)	3	3p25	7508	"xeroderma pigmentosum, complementation group C"		E	0													53	57	56					3																	14188804		1998	4157	6155	SO:0001583	missense	7508	Familial Cancer Database	incl. XPA, XPB, XPC, XPD, XPE, XPF, XPG, XP Variant, XPV		CCDS46763.1	3p25.1	2014-09-17			ENSG00000154767	ENSG00000154767			12816	protein-coding gene	gene with protein product	"xeroderma pigmentosum group C protein"	613208				1522891	Standard	NM_004628		Approved	XPCC, RAD4	uc011ave.2	Q01831	OTTHUMG00000155526	ENST00000285021.7:c.2590C>G	3.37:g.14188804G>C	ENSP00000285021:p.Arg864Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B4DIP3|E9PB96|E9PH69|Q53GT7|Q96AX0	Missense_Mutation	SNP	ENST00000285021.7	37	CCDS46763.1	.	.	.	.	.	.	.	.	.	.	G	19.14	3.770436	0.69992	.	.	ENSG00000154767	ENST00000285021;ENST00000449060	T;T	0.36157	1.27;1.29	5.18	4.3	0.51218	.	0.000000	0.85682	D	0.000000	T	0.59959	0.2232	M	0.78801	2.425	0.80722	D	1	D;D	0.76494	0.996;0.999	P;D	0.70716	0.903;0.97	T	0.64437	-0.6408	10	0.49607	T	0.09	-14.9319	15.159	0.72767	0.0:0.0:0.8577:0.1423	.	827;864	E9PH69;Q01831	.;XPC_HUMAN	G	864;827	ENSP00000285021:R864G;ENSP00000404002:R827G	ENSP00000285021:R864G	R	-	1	0	XPC	14163805	1.000000	0.71417	0.891000	0.34965	0.837000	0.47467	6.671000	0.74472	1.385000	0.46445	0.591000	0.81541	CGC		0.547	XPC-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000340517.3	NM_004628		C	14188804	G	C	14188804	3	2	695	1	0	0	0	0	1	0	0	0	17453	1058	37	4	240	4	XPC	3	14188804	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	9163834	14188804	183833626	36	45362										
DAG1	1605	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	49568609	49568609	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gagcttctcagaagtagagcTtcacaacatgaaattagtgc	9	8	2	3			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr3:49568609T>C	ENST00000539901.1	+	3	1223	c.665T>C	c.(664-666)cTt>cCt	p.L222P	DAG1_ENST00000545947.1_Missense_Mutation_p.L222P|DAG1_ENST00000538711.1_Missense_Mutation_p.L222P|DAG1_ENST00000515359.2_Missense_Mutation_p.L222P|DAG1_ENST00000308775.2_Missense_Mutation_p.L222P|DAG1_ENST00000541308.1_Missense_Mutation_p.L222P	NM_001177644.2	NP_001171115	Q14118	DAG1_HUMAN	dystroglycan 1 (dystrophin-associated glycoprotein 1)	222	Required for laminin recognition.				basement membrane organization (GO:0071711)|branching involved in salivary gland morphogenesis (GO:0060445)|calcium-dependent cell-matrix adhesion (GO:0016340)|commissural neuron axon guidance (GO:0071679)|cytoskeletal anchoring at plasma membrane (GO:0007016)|epithelial tube branching involved in lung morphogenesis (GO:0060441)|extracellular matrix organization (GO:0030198)|membrane protein ectodomain proteolysis (GO:0006509)|microtubule anchoring (GO:0034453)|modulation by virus of host morphology or physiology (GO:0019048)|morphogenesis of an epithelial sheet (GO:0002011)|myelination in peripheral nervous system (GO:0022011)|negative regulation of cell migration (GO:0030336)|negative regulation of MAPK cascade (GO:0043409)|negative regulation of protein kinase B signaling (GO:0051898)|nerve maturation (GO:0021682)|NLS-bearing protein import into nucleus (GO:0006607)|response to peptide hormone (GO:0043434)	basement membrane (GO:0005604)|basolateral plasma membrane (GO:0016323)|cell outer membrane (GO:0009279)|cell-cell adherens junction (GO:0005913)|contractile ring (GO:0070938)|costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|dystroglycan complex (GO:0016011)|dystrophin-associated glycoprotein complex (GO:0016010)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|lamellipodium (GO:0030027)|membrane raft (GO:0045121)|node of Ranvier (GO:0033268)|nucleoplasm (GO:0005654)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)	actin binding (GO:0003779)|alpha-actinin binding (GO:0051393)|calcium ion binding (GO:0005509)|laminin-1 binding (GO:0043237)|SH2 domain binding (GO:0042169)|structural constituent of muscle (GO:0008307)|tubulin binding (GO:0015631)|vinculin binding (GO:0017166)|virus receptor activity (GO:0001618)			NS(1)|autonomic_ganglia(2)|breast(2)|endometrium(1)|large_intestine(8)|lung(5)|ovary(2)|prostate(1)|skin(1)	23				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		GAAGTAGAGCTTCACAACATG	0.493																																																0													76	81	80					3																	49568609		2203	4300	6503	SO:0001583	missense	1605			L19711	CCDS2799.1	3p21	2014-09-17			ENSG00000173402	ENSG00000173402			2666	protein-coding gene	gene with protein product	"alpha-dystroglycan", "dystrophin-associated glycoprotein-1", "beta-dystroglycan"	128239				7774920, 1741056	Standard	NM_001177643		Approved	A3a, 156DAG, AGRNR, DAG	uc021wyd.1	Q14118	OTTHUMG00000156869	ENST00000539901.1:c.665T>C	3.37:g.49568609T>C	ENSP00000439334:p.Leu222Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6M7|Q969J9	Missense_Mutation	SNP	ENST00000539901.1	37	CCDS2799.1	.	.	.	.	.	.	.	.	.	.	T	11.97	1.798715	0.31777	.	.	ENSG00000173402	ENST00000515359;ENST00000308775;ENST00000545947;ENST00000541308;ENST00000539901;ENST00000538711;ENST00000415315	T;T;T;T;T;T	0.81163	-1.46;-1.46;-1.46;-1.46;-1.46;-1.46	5.92	3.55	0.40652	.	0.170769	0.52532	N	0.000062	T	0.76652	0.4017	M	0.65975	2.015	0.80722	D	1	B	0.06786	0.001	B	0.04013	0.001	T	0.70368	-0.4891	10	0.51188	T	0.08	-12.03	9.6231	0.39734	0.0:0.1436:0.0:0.8564	.	222	Q14118	DAG1_HUMAN	P	222;222;222;222;222;222;21	ENSP00000440705:L222P;ENSP00000312435:L222P;ENSP00000442600:L222P;ENSP00000440590:L222P;ENSP00000439334:L222P;ENSP00000438421:L222P	ENSP00000312435:L222P	L	+	2	0	DAG1	49543613	1.000000	0.71417	0.997000	0.53966	0.982000	0.71751	4.211000	0.58507	0.496000	0.27904	0.533000	0.62120	CTT		0.493	DAG1-203	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346326.1			C	49568609	T	C	49568609	3	2	695	1	0	0	0	0	1	0	0	0	4227	1609	56	3	671	3	DAG1	3	49568609	Missense_Mutation	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10	35379805	49568609	148453821	37	45363										
MAPKAPK3	7867	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	50685441	50685441	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	aggagaaaaaagcaggcaggCagctcctctgcctcacaggg	13	11	2	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr3:50685441C>G	ENST00000446044.1	+	13	1709	c.1113C>G	c.(1111-1113)ggC>ggG	p.G371G	MAPKAPK3_ENST00000357955.2_Silent_p.G371G	NM_001243926.1	NP_001230855.1	Q16644	MAPK3_HUMAN	mitogen-activated protein kinase-activated protein kinase 3	371					activation of MAPK activity (GO:0000187)|innate immune response (GO:0045087)|macropinocytosis (GO:0044351)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-serine phosphorylation (GO:0018105)|Ras protein signal transduction (GO:0007265)|response to cytokine (GO:0034097)|response to lipopolysaccharide (GO:0032496)|response to stress (GO:0006950)|signal transduction (GO:0007165)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nuclear membrane (GO:0031965)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|MAP kinase kinase activity (GO:0004708)|protein serine/threonine kinase activity (GO:0004674)			central_nervous_system(1)|ovary(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.0188)|Kidney(197;0.0223)		AGCAGGCAGGCAGCTCCTCTG	0.562																																																0													69	69	69					3																	50685441		2203	4300	6503	SO:0001819	synonymous_variant	7867			U43784	CCDS2832.1	3p21.3	2004-03-10			ENSG00000114738	ENSG00000114738			6888	protein-coding gene	gene with protein product		602130				8626550, 8622688	Standard	NM_004635		Approved	3pK, MAPKAP3, 3PK	uc003dba.2	Q16644	OTTHUMG00000156850	ENST00000446044.1:c.1113C>G	3.37:g.50685441C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B5BU67	Silent	SNP	ENST00000446044.1	37	CCDS2832.1	.	.	.	.	.	.	.	.	.	.	C	9.156	1.017372	0.19355	.	.	ENSG00000114738	ENST00000451680	.	.	.	5.73	2.59	0.31030	.	.	.	.	.	T	0.53626	0.1808	.	.	.	0.45733	D	0.998639	.	.	.	.	.	.	T	0.49194	-0.8965	4	.	.	.	-29.6661	6.4693	0.21999	0.2822:0.5832:0.0:0.1346	.	.	.	.	E	86	.	.	Q	+	1	0	MAPKAPK3	50660445	0.089000	0.21612	0.973000	0.42090	0.978000	0.69477	0.290000	0.18975	1.409000	0.46915	0.655000	0.94253	CAG		0.562	MAPKAPK3-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346237.1	NM_004635		G	50685441	C	G	50685441	2	3	695	1	0	0	0	0	0	0	0	1	9297	697	25	4		4	MAPKAPK3	3	50685441	Silent	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	1116832	50685441	147336989	38	45364										
MAGI1	9223	hgsc.bcm.edu	37	chr3	65425597	65425597	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tgctgctgctgctgttgctgCtgctgttgctgctgctgctg	14	11	0	0	rs571281009	byFrequency	TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr3:65425597C>T	ENST00000497477.2	-	9	1226	c.1227G>A	c.(1225-1227)caG>caA	p.Q409Q	MAGI1_ENST00000483466.1_Silent_p.Q409Q|MAGI1_ENST00000470990.1_5'UTR|MAGI1_ENST00000402939.2_Silent_p.Q409Q|MAGI1_ENST00000330909.8_Silent_p.Q409Q			Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ domain containing 1	409	Poly-Gln.				cell adhesion (GO:0007155)|cell surface receptor signaling pathway (GO:0007166)|neuron death (GO:0070997)|protein complex assembly (GO:0006461)	cell junction (GO:0030054)|cell projection (GO:0042995)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	alpha-actinin binding (GO:0051393)|ATP binding (GO:0005524)|protein C-terminus binding (GO:0008022)			breast(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|liver(1)|lung(21)|pancreas(1)|skin(5)	51		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		gctgttgctgctgctgttgct	0.532											OREG0015658	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	C|||	49	0.00978435	0.0325	0.0043	5008	,	,		14951	0.003		0.0	False		,,,				2504	0.0															0													68	64	65					3																	65425597		2202	4296	6498	SO:0001819	synonymous_variant	9223			AB010894	CCDS33780.1, CCDS33781.1, CCDS2904.1	3p14.1	2009-10-06	2005-05-10	2005-05-10	ENSG00000151276	ENSG00000151276			946	protein-coding gene	gene with protein product		602625	"BAI1-associated protein 1"	BAIAP1		9647739, 9225980	Standard	XM_005265563		Approved	BAP1, MAGI-1, TNRC19, AIP3, WWP3	uc003dmn.3	Q96QZ7	OTTHUMG00000157554	ENST00000497477.2:c.1227G>A	3.37:g.65425597C>T		Somatic	1084	WXS	Illumina HiSeq	Phase_I	A8K188|O00309|O43863|O75085|Q96QZ8|Q96QZ9	Silent	SNP	ENST00000497477.2	37		.	.	.	.	.	.	.	.	.	.	C	1.115	-0.657141	0.03480	.	.	ENSG00000151276	ENST00000460329	.	.	.	3.23	1.37	0.22104	.	.	.	.	.	T	0.23014	0.0556	.	.	.	0.09310	N	0.999998	.	.	.	.	.	.	T	0.22277	-1.0221	4	.	.	.	0.0018	2.6711	0.05067	0.2253:0.507:0.0:0.2677	.	.	.	.	N	290	.	.	S	-	2	0	MAGI1	65400637	0.651000	0.27340	0.048000	0.18961	0.002000	0.02628	-0.987000	0.03743	0.095000	0.17434	-0.850000	0.03035	AGC		0.532	MAGI1-007	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000349132.2	NM_004742		T	65425597	C	T	65425597	2	4	695	1	0	0	0	0	0	0	0	1	9197	796	28	2		2	MAGI1	3	65425597	Silent	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	14740156	65425597	132596833	39	45365										
MYH15	22989	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	108174686	108174687	+	Frame_Shift_Ins	INS	-	-	T													0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cttgctctttggaaaggtccINSttggattcagaatgcagtac							TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr3:108174686_108174687insT	ENST00000273353.3	-	21	2274_2275	c.2218_2219insA	c.(2218-2220)aggfs	p.R740fs	MYH15_ENST00000495753.2_5'UTR	NM_014981.1	NP_055796.1	Q9Y2K3	MYH15_HUMAN	myosin, heavy chain 15	740	Myosin motor.					cytoplasm (GO:0005737)|myosin filament (GO:0032982)	ATP binding (GO:0005524)|motor activity (GO:0003774)			NS(1)|breast(3)|central_nervous_system(2)|cervix(4)|endometrium(10)|kidney(4)|large_intestine(14)|lung(47)|ovary(5)|pancreas(2)|prostate(6)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	105						TGGAAAGGTCCTTGGATTCAGA	0.361																																																0																																										SO:0001589	frameshift_variant	22989			AB023217	CCDS43127.1	3q13	2011-09-27	2006-09-29		ENSG00000144821	ENSG00000144821		"Myosins / Myosin superfamily : Class II"	31073	protein-coding gene	gene with protein product		609929	"myosin, heavy polypeptide 15"			15014174, 15042088	Standard	NM_014981		Approved	KIAA1000	uc003dxa.1	Q9Y2K3	OTTHUMG00000159226	ENST00000273353.3:c.2219dupA	3.37:g.108174688_108174688dupT	ENSP00000273353:p.Arg740fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000273353.3	37	CCDS43127.1																																																																																				0.361	MYH15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353935.1	XM_036988		T	108174687	-	T	108174686	7	5	695	1	0	1	1	0	0	0	0	0	10041	681	24	0	3709	0	MYH15	3	108174686	Frame_Shift_Ins	INS	-	TCGA-P4-A5E6-01A-11D-A28G-10	42749089	108174686	89847744	40	45366										
ABHD10	55347	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	111710242	111710242	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	agctaaaaaaggaagtagagAtgaaaggtgtgtggagcatg	15	2	0	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr3:111710242A>C	ENST00000273359.3	+	5	622	c.595A>C	c.(595-597)Atg>Ctg	p.M199L	ABHD10_ENST00000494817.1_3'UTR|ABHD10_ENST00000534857.1_Missense_Mutation_p.M42L	NM_018394.2	NP_060864.1	Q9NUJ1	ABHDA_HUMAN	abhydrolase domain containing 10	199					glucuronoside catabolic process (GO:0019391)	cytosol (GO:0005829)|mitochondrion (GO:0005739)	hydrolase activity, hydrolyzing O-glycosyl compounds (GO:0004553)			large_intestine(2)|lung(7)|skin(1)	10						GGAAGTAGAGATGAAAGGTGT	0.323																																																0													79	75	76					3																	111710242		2203	4300	6503	SO:0001583	missense	55347			AL713726	CCDS2963.1, CCDS63718.1	3q13.2	2012-03-26			ENSG00000144827	ENSG00000144827		"Abhydrolase domain containing"	25656	protein-coding gene	gene with protein product						22294686	Standard	NM_018394		Approved	FLJ11342	uc003dyk.5	Q9NUJ1	OTTHUMG00000159280	ENST00000273359.3:c.595A>C	3.37:g.111710242A>C	ENSP00000273359:p.Met199Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6A8|C9IZX5|D3DN63|Q8TCF9	Missense_Mutation	SNP	ENST00000273359.3	37	CCDS2963.1	.	.	.	.	.	.	.	.	.	.	A	12.86	2.064132	0.36373	.	.	ENSG00000144827	ENST00000534857;ENST00000273359	T;T	0.66099	1.02;-0.19	5.47	-3.29	0.05017	.	0.598228	0.18438	N	0.141217	T	0.33585	0.0868	N	0.19112	0.55	0.23445	N	0.997665	B	0.02656	0.0	B	0.06405	0.002	T	0.06661	-1.0814	10	0.30078	T	0.28	-12.4265	1.0289	0.01533	0.3041:0.125:0.3257:0.2452	.	199	Q9NUJ1	ABHDA_HUMAN	L	42;199	ENSP00000442932:M42L;ENSP00000273359:M199L	ENSP00000273359:M199L	M	+	1	0	ABHD10	113192932	1.000000	0.71417	0.986000	0.45419	0.987000	0.75469	1.234000	0.32660	-0.436000	0.07254	0.443000	0.29094	ATG		0.323	ABHD10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354326.1	NM_018394		C	111710242	A	C	111710242	3	2	695	1	0	0	0	0	1	0	0	0	74	333	12	5	613	5	ABHD10	3	111710242	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	3535556	111710242	86312188	41	45367										
GP9	2815	broad.mit.edu	37	chr3	128780901	128780901	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tggaggaccgcacgcccgagGccctgctgcaggtccgctgt	15	15	0	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr3:128780901G>T	ENST00000307395.4	+	3	541	c.319G>T	c.(319-321)Gcc>Tcc	p.A107S		NM_000174.3	NP_000165.1	P14770	GPIX_HUMAN	glycoprotein IX (platelet)	107	LRRCT.				blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|cell adhesion (GO:0007155)|platelet activation (GO:0030168)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)				NS(1)|central_nervous_system(1)|lung(4)	6					Quinine(DB00468)	CACGCCCGAGGCCCTGCTGCA	0.701																																																0													20	20	20					3																	128780901		2199	4296	6495	SO:0001583	missense	2815				CCDS3055.1	3q21.3	2014-09-17				ENSG00000169704		"CD molecules"	4444	protein-coding gene	gene with protein product		173515				2253772	Standard	XM_005247374		Approved	CD42a, GPIX	uc003elm.2	P14770		ENST00000307395.4:c.319G>T	3.37:g.128780901G>T	ENSP00000303942:p.Ala107Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q14445|Q8N1D1|Q92525	Missense_Mutation	SNP	ENST00000307395.4	37	CCDS3055.1	.	.	.	.	.	.	.	.	.	.	G	6.262	0.416458	0.11870	.	.	ENSG00000169704	ENST00000307395	D	0.90069	-2.61	4.26	-0.227	0.13102	Cysteine-rich flanking region, C-terminal (1);	1.070780	0.07282	U	0.870998	T	0.72309	0.3444	N	0.05414	-0.055	0.09310	N	1	B	0.19445	0.036	B	0.18263	0.021	T	0.58211	-0.7676	10	0.17369	T	0.5	-0.9252	1.9494	0.03364	0.2082:0.1579:0.4733:0.1606	.	107	P14770	GPIX_HUMAN	S	107	ENSP00000303942:A107S	ENSP00000303942:A107S	A	+	1	0	GP9	130263591	0.000000	0.05858	0.002000	0.10522	0.150000	0.21749	0.045000	0.14013	0.051000	0.15978	0.462000	0.41574	GCC		0.701	GP9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358428.1			T	128780901	G	T	128780901	3	4	695	1	0	0	0	0	1	0	0	0	6592	1203	42	4	321	4	GP9	3	128780901	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	17070659	128780901	69241529	42	45368										
ARRDC3	57561	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	90669948	90669948	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	taccttcaggtctttcaggaAgtgataaactgagccagttc	9	9	3	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr5:90669948A>C	ENST00000265138.3	-	6	1282	c.1016T>G	c.(1015-1017)cTt>cGt	p.L339R	ARRDC3_ENST00000503192.1_5'Flank	NM_020801.2	NP_065852.1	Q96B67	ARRD3_HUMAN	arrestin domain containing 3	339					fat pad development (GO:0060613)|negative regulation of heat generation (GO:0031651)|negative regulation of locomotion involved in locomotory behavior (GO:0090327)|negative regulation of multicellular organismal metabolic process (GO:0044252)|positive regulation of adrenergic receptor signaling pathway (GO:0071879)|positive regulation of ubiquitin-protein transferase activity (GO:0051443)|skin development (GO:0043588)|temperature homeostasis (GO:0001659)	endosome (GO:0005768)|plasma membrane (GO:0005886)	beta-3 adrenergic receptor binding (GO:0031699)			breast(2)|endometrium(3)|large_intestine(3)|lung(7)|ovary(1)|prostate(1)|urinary_tract(1)	18		all_cancers(142;2.22e-05)|all_epithelial(76;1.58e-07)|all_lung(232;0.000521)|Lung NSC(167;0.000548)|Ovarian(174;0.0798)|Colorectal(57;0.207)		OV - Ovarian serous cystadenocarcinoma(54;4.56e-30)|Epithelial(54;7.55e-26)|all cancers(79;3.63e-22)		TCTTTCAGGAAGTGATAAACT	0.373																																																0													187	185	186					5																	90669948		2203	4300	6503	SO:0001583	missense	57561			AB037797	CCDS34202.1	5q14.3	2013-10-11			ENSG00000113369	ENSG00000113369			29263	protein-coding gene	gene with protein product	"alpha-arrestin 3"	612464				10718198, 19605364	Standard	NM_020801		Approved	KIAA1376	uc003kjz.2	Q96B67	OTTHUMG00000162616	ENST00000265138.3:c.1016T>G	5.37:g.90669948A>C	ENSP00000265138:p.Leu339Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6T8|Q9P2H1	Missense_Mutation	SNP	ENST00000265138.3	37	CCDS34202.1	.	.	.	.	.	.	.	.	.	.	A	22.2	4.263139	0.80358	.	.	ENSG00000113369	ENST00000265138	T	0.08984	3.03	5.77	5.77	0.91146	Immunoglobulin E-set (1);	0.000000	0.85682	D	0.000000	T	0.26085	0.0636	M	0.62723	1.935	0.80722	D	1	D	0.65815	0.995	D	0.72982	0.979	T	0.00473	-1.1718	10	0.34782	T	0.22	-10.2226	16.086	0.81049	1.0:0.0:0.0:0.0	.	339	Q96B67	ARRD3_HUMAN	R	339	ENSP00000265138:L339R	ENSP00000265138:L339R	L	-	2	0	ARRDC3	90705704	1.000000	0.71417	0.981000	0.43875	0.932000	0.56968	9.339000	0.96797	2.207000	0.71202	0.528000	0.53228	CTT		0.373	ARRDC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369763.2	NM_020801		C	90669948	A	C	90669948	3	2	695	1	0	0	0	0	1	0	0	0	984	72	3	5	240	5	ARRDC3	5	90669948	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10		90669948	90245312	43	45369										
PAM	5066	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	102285295	102285295	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ttatccaatgcatgtctttgCctatagagttcacactcacc	5	12	3	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr5:102285295C>T	ENST00000438793.3	+	9	1168	c.698C>T	c.(697-699)gCc>gTc	p.A233V	PAM_ENST00000304400.7_Missense_Mutation_p.A233V|PAM_ENST00000348126.2_Missense_Mutation_p.A233V|PAM_ENST00000379787.4_5'UTR|PAM_ENST00000455264.2_Missense_Mutation_p.A233V|PAM_ENST00000274392.9_Missense_Mutation_p.A136V|PAM_ENST00000346918.2_Missense_Mutation_p.A233V	NM_000919.3|NM_001177306.1|NM_138766.2	NP_000910.2|NP_001170777.1|NP_620121.1	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase	233	Peptidylglycine alpha-hydroxylating monooxygenase. {ECO:0000250}.				central nervous system development (GO:0007417)|heart development (GO:0007507)|lactation (GO:0007595)|limb development (GO:0060173)|long-chain fatty acid metabolic process (GO:0001676)|maternal process involved in female pregnancy (GO:0060135)|odontogenesis (GO:0042476)|ovulation cycle process (GO:0022602)|peptide amidation (GO:0001519)|protein amidation (GO:0018032)|protein homooligomerization (GO:0051260)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of protein secretion (GO:0050708)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to copper ion (GO:0046688)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to glucocorticoid (GO:0051384)|response to hypoxia (GO:0001666)|response to pH (GO:0009268)|toxin metabolic process (GO:0009404)	cell surface (GO:0009986)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|neuron projection (GO:0043005)|perikaryon (GO:0043204)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|secretory granule membrane (GO:0030667)|trans-Golgi network (GO:0005802)	calcium ion binding (GO:0005509)|copper ion binding (GO:0005507)|L-ascorbic acid binding (GO:0031418)|peptidylamidoglycolate lyase activity (GO:0004598)|peptidylglycine monooxygenase activity (GO:0004504)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(2)|large_intestine(10)|lung(8)|prostate(2)|upper_aerodigestive_tract(1)	25		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)	CATGTCTTTGCCTATAGAGTT	0.323																																																0													106	108	107					5																	102285295		2203	4297	6500	SO:0001583	missense	5066			AB095007	CCDS4092.1, CCDS4093.1, CCDS4094.1, CCDS43348.1, CCDS54885.1	5q	2008-02-05			ENSG00000145730	ENSG00000145730	1.14.17.3		8596	protein-coding gene	gene with protein product	"peptidyl-alpha-hydroxyglycine alpha-amidating lyase", "peptidylglycine alpha-hydroxylating monooxygenase"	170270				2357221	Standard	NM_000919		Approved	PAL, PHM	uc003knt.3	P19021	OTTHUMG00000128729	ENST00000438793.3:c.698C>T	5.37:g.102285295C>T	ENSP00000396493:p.Ala233Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMR0|A8K293|O43211|O95080|Q16252|Q16253|Q54A45|Q86U53|Q8WVC7|Q9UCG0	Missense_Mutation	SNP	ENST00000438793.3	37	CCDS54885.1	.	.	.	.	.	.	.	.	.	.	C	32	5.156388	0.94686	.	.	ENSG00000145730	ENST00000438793;ENST00000346918;ENST00000348126;ENST00000304400;ENST00000274392;ENST00000455264	T;T;T;T;T;T	0.78003	-1.14;-1.14;-1.14;-1.14;-1.14;-1.14	6.02	6.02	0.97574	Copper type II, ascorbate-dependent monooxygenase, histidine-cluster-2 conserved site (1);PHM/PNGase F domain (1);Copper type II, ascorbate-dependent monooxygenase-like, C-terminal (1);	0.000000	0.85682	D	0.000000	D	0.91036	0.7180	M	0.90650	3.135	0.80722	D	1	D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D	0.97110	1.0;1.0;1.0;1.0;1.0;1.0	D	0.91659	0.5341	10	0.87932	D	0	.	20.5373	0.99239	0.0:1.0:0.0:0.0	.	136;233;233;233;233;233	F8WE90;P19021;P19021-4;P19021-3;P19021-5;P19021-2	.;AMD_HUMAN;.;.;.;.	V	233;233;233;233;136;233	ENSP00000396493:A233V;ENSP00000282992:A233V;ENSP00000314638:A233V;ENSP00000306100:A233V;ENSP00000274392:A136V;ENSP00000403461:A233V	ENSP00000274392:A136V	A	+	2	0	PAM	102313194	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	6.290000	0.72712	2.857000	0.98124	0.650000	0.86243	GCC		0.323	PAM-004	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000250640.2	NM_000919		T	102285295	C	T	102285295	3	4	695	1	0	0	0	0	1	0	0	0	11419	739	26	2	732	2	PAM	5	102285295	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	11615347	102285295	78629965	44	45370										
PCDHGB6	56100	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	140788348	140788348	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gatggtggcaaatacccagaGttatctctggagaaactcct	10	9	1	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr5:140788348G>T	ENST00000520790.1	+	1	579	c.579G>T	c.(577-579)gaG>gaT	p.E193D	PCDHGA2_ENST00000394576.2_Intron|PCDHGA4_ENST00000571252.1_Intron|PCDHGA3_ENST00000253812.6_Intron|PCDHGA1_ENST00000517417.1_Intron|PCDHGB4_ENST00000519479.1_Intron|PCDHGB1_ENST00000523390.1_Intron|PCDHGB3_ENST00000576222.1_Intron|PCDHGA6_ENST00000517434.1_Intron|PCDHGA8_ENST00000398604.2_Intron|PCDHGA7_ENST00000518325.1_Intron|PCDHGA9_ENST00000573521.1_Intron|PCDHGB2_ENST00000522605.1_Intron|PCDHGA5_ENST00000518069.1_Intron	NM_018926.2|NM_032100.1	NP_061749.1|NP_115271.1	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6	193	Cadherin 2. {ECO:0000255|PROSITE- ProRule:PRU00043}.				homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(2)|central_nervous_system(2)|endometrium(9)|kidney(1)|large_intestine(10)|lung(16)|ovary(1)|prostate(3)|stomach(2)|upper_aerodigestive_tract(2)	48			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATACCCAGAGTTATCTCTGG	0.403																																																0													26	26	26					5																	140788348		1835	4088	5923	SO:0001583	missense	56100			AF152522	CCDS54929.1, CCDS75342.1	5q31	2010-01-26				ENSG00000253305		"Cadherins / Protocadherins : Clustered"	8713	other	protocadherin		606303				10380929	Standard	NM_018926		Approved	PCDH-GAMMA-B6		Q9Y5F9		ENST00000520790.1:c.579G>T	5.37:g.140788348G>T	ENSP00000428603:p.Glu193Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q9Y5C5	Missense_Mutation	SNP	ENST00000520790.1	37	CCDS54929.1	.	.	.	.	.	.	.	.	.	.	g	13.81	2.348524	0.41599	.	.	ENSG00000253305	ENST00000520790	T	0.21734	1.99	5.34	1.01	0.19927	Cadherin (4);Cadherin-like (1);	.	.	.	.	T	0.40909	0.1136	M	0.77616	2.38	0.09310	N	0.999999	D;D	0.71674	0.994;0.998	D;D	0.70016	0.948;0.967	T	0.12760	-1.0535	9	0.66056	D	0.02	.	6.0351	0.19702	0.382:0.0:0.4936:0.1244	.	193;193	Q9Y5F9;Q9Y5F9-2	PCDGI_HUMAN;.	D	193	ENSP00000428603:E193D	ENSP00000428603:E193D	E	+	3	2	PCDHGB6	140768532	0.000000	0.05858	0.987000	0.45799	0.966000	0.64601	-1.583000	0.02115	0.257000	0.21650	-0.373000	0.07131	GAG		0.403	PCDHGB6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374746.1	NM_018926		T	140788348	G	T	140788348	3	4	695	1	0	0	0	0	1	0	0	0	11574	1020	36	4	581	4	PCDHGB6	5	140788348	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	38503053	140788348	40126912	45	45371										
SPINK1	6690	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	147207646	147207646	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tccatcagtcccacagacagGgtcatatatcttggtgcatc	8	12	3	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr5:147207646G>A	ENST00000296695.5	-	3	341	c.133C>T	c.(133-135)Cct>Tct	p.P45S	SPINK1_ENST00000510027.2_Missense_Mutation_p.P45S	NM_003122.3	NP_003113.2	P00995	ISK1_HUMAN	serine peptidase inhibitor, Kazal type 1	45	Kazal-like. {ECO:0000255|PROSITE- ProRule:PRU00798}.				negative regulation of calcium ion import (GO:0090281)|negative regulation of nitric oxide mediated signal transduction (GO:0010751)|negative regulation of peptidyl-tyrosine phosphorylation (GO:0050732)|negative regulation of serine-type endopeptidase activity (GO:1900004)|regulation of acrosome reaction (GO:0060046)|regulation of store-operated calcium entry (GO:2001256)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)	endopeptidase inhibitor activity (GO:0004866)|serine-type endopeptidase inhibitor activity (GO:0004867)			endometrium(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCACAGACAGGGTCATATATC	0.328									Hereditary Pancreatitis																																							0													126	119	121					5																	147207646		2203	4300	6503	SO:0001583	missense	6690	Familial Cancer Database			CCDS4286.1	5q32	2011-08-31	2005-08-17		ENSG00000164266	ENSG00000164266		"Serine peptidase inhibitors, Kazal type"	11244	protein-coding gene	gene with protein product		167790	"serine protease inhibitor, Kazal type 1"				Standard	XM_005268501		Approved	Spink3, PCTT, PSTI, TATI	uc003los.2	P00995	OTTHUMG00000129730	ENST00000296695.5:c.133C>T	5.37:g.147207646G>A	ENSP00000296695:p.Pro45Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000296695.5	37	CCDS4286.1	.	.	.	.	.	.	.	.	.	.	G	16.15	3.042553	0.55003	.	.	ENSG00000164266	ENST00000296695;ENST00000510027	D;D	0.85339	-1.97;-1.97	4.9	4.9	0.64082	Proteinase inhibitor I1, Kazal (3);	0.000000	0.64402	D	0.000001	D	0.91991	0.7463	.	.	.	0.43708	D	0.996175	D	0.89917	1.0	D	0.97110	1.0	D	0.92165	0.5739	9	0.56958	D	0.05	-21.6312	15.9791	0.80094	0.0:0.0:1.0:0.0	.	45	P00995	ISK1_HUMAN	S	45	ENSP00000296695:P45S;ENSP00000427376:P45S	ENSP00000296695:P45S	P	-	1	0	SPINK1	147187839	1.000000	0.71417	0.938000	0.37757	0.224000	0.24922	4.936000	0.63506	2.725000	0.93324	0.655000	0.94253	CCT		0.328	SPINK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251940.2	NM_003122		A	147207646	G	A	147207646	3	1	695	1	0	0	0	0	1	0	0	0	15069	1232	43	2	114	2	SPINK1	5	147207646	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	6419298	147207646	33707614	46	45372										
C5orf40	408263	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	156770121	156770121	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cctgtaagaccatcgcggctCatggcaacggacacaccaga	10	14	1	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr5:156770121C>A	ENST00000312349.4	-	2	611	c.424G>T	c.(424-426)Gag>Tag	p.E142*	CYFIP2_ENST00000377576.3_Intron|CYFIP2_ENST00000521420.1_Intron|CYFIP2_ENST00000435847.2_Intron|CYFIP2_ENST00000541131.1_Intron|CYFIP2_ENST00000318218.6_Intron|CYFIP2_ENST00000442283.2_Intron|CYFIP2_ENST00000522463.1_Intron|CYFIP2_ENST00000347377.6_Intron	NM_001001343.3	NP_001001343.2	Q8TBE3	FNDC9_HUMAN	fibronectin type III domain containing 9	142						integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(1)|prostate(1)|skin(1)|urinary_tract(1)	9						CATCGCGGCTCATGGCAACGG	0.607											OREG0016977	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													64	62	63					5																	156770121		2203	4300	6503	SO:0001587	stop_gained	408263			BC022570	CCDS4337.1	5q33.3	2013-02-11	2011-01-25	2011-01-25	ENSG00000172568	ENSG00000172568		"Fibronectin type III domain containing"	33547	protein-coding gene	gene with protein product			"chromosome 5 open reading frame 40"	C5orf40			Standard	NM_001001343		Approved	MGC27121	uc003lwu.2	Q8TBE3	OTTHUMG00000130248	ENST00000312349.4:c.424G>T	5.37:g.156770121C>A	ENSP00000310594:p.Glu142*	Somatic	1781	WXS	Illumina HiSeq	Phase_I	A8K0Y6	Nonsense_Mutation	SNP	ENST00000312349.4	37	CCDS4337.1	.	.	.	.	.	.	.	.	.	.	C	19.32	3.805183	0.70682	.	.	ENSG00000172568	ENST00000312349;ENST00000520782	.	.	.	5.08	4.15	0.48705	.	0.241065	0.28784	N	0.014157	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.51188	T	0.08	-4.2189	9.3255	0.37990	0.16:0.6848:0.1551:0.0	.	.	.	.	X	142	.	ENSP00000310594:E142X	E	-	1	0	FNDC9	156702699	0.304000	0.24472	0.997000	0.53966	0.674000	0.39518	0.688000	0.25422	2.369000	0.80426	0.491000	0.48974	GAG		0.607	FNDC9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252573.2	NM_001001343		A	156770121	C	A	156770121	4	1	695	1	0	0	0	0	0	1	0	0	2301	835	29	4	254	4	C5orf40	5	156770121	Nonsense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	9562475	156770121	24145139	47	45373										
GABRB2	2561	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	160886718	160886718	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cacaaatgacttcttatcgtTcaggaaataggtatcaggca	8	8	3	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr5:160886718T>A	ENST00000393959.1	-	4	369	c.370A>T	c.(370-372)Aac>Tac	p.N124Y	GABRB2_ENST00000520240.1_Missense_Mutation_p.N124Y|GABRB2_ENST00000274547.2_Missense_Mutation_p.N124Y|GABRB2_ENST00000517901.1_Missense_Mutation_p.N61Y|GABRB2_ENST00000353437.6_Missense_Mutation_p.N124Y|GABRB2_ENST00000517547.1_Intron			P47870	GBRB2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta 2	124					cellular response to histamine (GO:0071420)|chloride transmembrane transport (GO:1902476)|cochlea development (GO:0090102)|gamma-aminobutyric acid signaling pathway (GO:0007214)|inner ear receptor cell development (GO:0060119)|innervation (GO:0060384)|ion transmembrane transport (GO:0034220)|negative regulation of neuron apoptotic process (GO:0043524)|sensory perception of sound (GO:0007605)|synaptic transmission (GO:0007268)|synaptic transmission, GABAergic (GO:0051932)|transmembrane transport (GO:0055085)|transport (GO:0006810)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|GABA-A receptor complex (GO:1902711)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	chloride channel activity (GO:0005254)|GABA-A receptor activity (GO:0004890)|inhibitory extracellular ligand-gated ion channel activity (GO:0005237)			breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(6)|liver(1)|lung(9)|soft_tissue(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	26	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)		Acamprosate(DB00659)|Adinazolam(DB00546)|Alprazolam(DB00404)|Amoxapine(DB00543)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Chlordiazepoxide(DB00475)|Cinolazepam(DB01594)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Clotiazepam(DB01559)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Fludiazepam(DB01567)|Flumazenil(DB01205)|Flurazepam(DB00690)|Fospropofol(DB06716)|Ginkgo biloba(DB01381)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Topiramate(DB00273)|Triazolam(DB00897)	TTCTTATCGTTCAGGAAATAG	0.478																																																0													105	94	97					5																	160886718		2203	4300	6503	SO:0001583	missense	2561				CCDS4354.1, CCDS4355.1	5q34	2012-06-22			ENSG00000145864	ENSG00000145864		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	4082	protein-coding gene	gene with protein product	"GABA(A) receptor, beta 2"	600232				7851879	Standard	NM_000813		Approved		uc003lys.1	P47870	OTTHUMG00000130349	ENST00000393959.1:c.370A>T	5.37:g.160886718T>A	ENSP00000377531:p.Asn124Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K115|A8K1A0|D1LYT0|D1LYT1|Q16323|Q4FZB2	Missense_Mutation	SNP	ENST00000393959.1	37	CCDS4355.1	.	.	.	.	.	.	.	.	.	.	T	26.1	4.702239	0.88924	.	.	ENSG00000145864	ENST00000393959;ENST00000274547;ENST00000353437;ENST00000520240;ENST00000517901	D;D;D;D;D	0.87256	-2.23;-2.23;-2.23;-2.23;-2.23	4.97	4.97	0.65823	Neurotransmitter-gated ion-channel ligand-binding (3);	0.096322	0.64402	D	0.000002	D	0.95698	0.8601	H	0.96662	3.86	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	1.0;1.0;1.0;1.0	D	0.97208	0.9869	10	0.87932	D	0	.	14.9655	0.71188	0.0:0.0:0.0:1.0	.	124;61;124;124	B7Z4P0;E7EV50;P47870;P47870-1	.;.;GBRB2_HUMAN;.	Y	124;124;124;124;61	ENSP00000377531:N124Y;ENSP00000274547:N124Y;ENSP00000274546:N124Y;ENSP00000429320:N124Y;ENSP00000430532:N61Y	ENSP00000274547:N124Y	N	-	1	0	GABRB2	160819296	1.000000	0.71417	0.994000	0.49952	0.982000	0.71751	7.867000	0.87062	1.988000	0.58038	0.533000	0.62120	AAC		0.478	GABRB2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252704.1			A	160886718	T	A	160886718	3	1	695	1	0	0	0	0	1	0	0	0	6174	1783	62	5	1196	5	GABRB2	5	160886718	Missense_Mutation	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10	4116597	160886718	20028542	48	45374										
FAM65B	9750	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	24843494	24843494	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ggcaggttttctgggctcctCtgggtcttcctccttcaggt	12	12	4	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr6:24843494C>G	ENST00000259698.4	-	14	1691	c.1516G>C	c.(1516-1518)Gag>Cag	p.E506Q	FAM65B_ENST00000540914.1_Missense_Mutation_p.E456Q|FAM65B_ENST00000510784.2_Missense_Mutation_p.E490Q|FAM65B_ENST00000473070.1_5'Flank|FAM65B_ENST00000538035.1_Missense_Mutation_p.E485Q|FAM65B_ENST00000378023.4_Missense_Mutation_p.E456Q	NM_014722.2	NP_055537.2	Q9Y4F9	FA65B_HUMAN	family with sequence similarity 65, member B	506					cell differentiation (GO:0030154)|muscle organ development (GO:0007517)	cell projection (GO:0042995)|cytoskeleton (GO:0005856)|mitochondrion (GO:0005739)				breast(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(5)|lung(10)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	25						CTGGGCTCCTCTGGGTCTTCC	0.577																																																0													86	82	83					6																	24843494		1916	4115	6031	SO:0001583	missense	9750			U49187	CCDS47383.1, CCDS47384.1, CCDS69057.1, CCDS69058.1, CCDS75410.1	6p22.3-p21.32	2012-11-30	2008-06-13	2008-06-13	ENSG00000111913	ENSG00000111913			13872	protein-coding gene	gene with protein product	"myogenesis-related and NCAM-associated protein homolog (chicken)"	611410	"chromosome 6 open reading frame 32"	C6orf32		9205841, 17150207, 17825087	Standard	NM_001286447		Approved	KIAA0386, DIFF48, MYONAP	uc003neo.1	Q9Y4F9	OTTHUMG00000014375	ENST00000259698.4:c.1516G>C	6.37:g.24843494C>G	ENSP00000259698:p.Glu506Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NHP2|Q13529|Q5VV37|Q5VV38|Q9BQ28	Missense_Mutation	SNP	ENST00000259698.4	37	CCDS47383.1	.	.	.	.	.	.	.	.	.	.	C	9.393	1.076084	0.20227	.	.	ENSG00000111913	ENST00000259698;ENST00000538035;ENST00000378023;ENST00000540914;ENST00000510784	T;T;T;T;T	0.32515	1.45;1.45;1.45;1.45;1.45	4.3	2.46	0.29980	.	1.536000	0.03262	N	0.183420	T	0.06917	0.0176	N	0.24115	0.695	0.09310	N	1	B;B;B;B	0.16396	0.017;0.004;0.009;0.004	B;B;B;B	0.11329	0.006;0.003;0.004;0.004	T	0.23404	-1.0189	10	0.13853	T	0.58	-0.5328	7.1945	0.25845	0.0:0.6914:0.1422:0.1664	.	490;485;456;506	B7Z6U4;F5GX51;Q9Y4F9-2;Q9Y4F9	.;.;.;FA65B_HUMAN	Q	506;485;456;456;490	ENSP00000259698:E506Q;ENSP00000441138:E485Q;ENSP00000367262:E456Q;ENSP00000438425:E456Q;ENSP00000441305:E490Q	ENSP00000259698:E506Q	E	-	1	0	FAM65B	24951473	0.000000	0.05858	0.000000	0.03702	0.033000	0.12548	0.333000	0.19768	0.417000	0.25871	0.655000	0.94253	GAG		0.577	FAM65B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040024.2			G	24843494	C	G	24843494	3	3	695	1	0	0	0	0	1	0	0	0	5607	922	32	4	1740	4	FAM65B	6	24843494	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10		24843494	146271573	49	45375										
HLA-E	3133	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	30459405	30459405	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tctggagctgtggttgctgcTgtgatatggaggaagaagag	17	4	1	3			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr6:30459405T>C	ENST00000376630.4	+	5	1043	c.978T>C	c.(976-978)gcT>gcC	p.A326A		NM_005516.5	NP_005507.3	P13747	HLAE_HUMAN	major histocompatibility complex, class I, E	326					antigen processing and presentation of endogenous peptide antigen via MHC class Ib (GO:0002476)|antigen processing and presentation of exogenous peptide antigen via MHC class I (GO:0042590)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent (GO:0002479)|antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent (GO:0002480)|antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|cytokine-mediated signaling pathway (GO:0019221)|innate immune response (GO:0045087)|interferon-gamma-mediated signaling pathway (GO:0060333)|positive regulation of natural killer cell mediated immunity (GO:0002717)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|protection from natural killer cell mediated cytotoxicity (GO:0042270)|regulation of immune response (GO:0050776)|type I interferon signaling pathway (GO:0060337)	cell surface (GO:0009986)|early endosome membrane (GO:0031901)|ER to Golgi transport vesicle membrane (GO:0012507)|extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of lumenal side of endoplasmic reticulum membrane (GO:0071556)|MHC class I protein complex (GO:0042612)|phagocytic vesicle membrane (GO:0030670)|plasma membrane (GO:0005886)	MHC class I protein binding (GO:0042288)|peptide antigen binding (GO:0042605)			breast(2)|central_nervous_system(4)|endometrium(1)|kidney(3)|large_intestine(2)|lung(1)|ovary(3)|skin(1)|urinary_tract(1)	18						TGGTTGCTGCTGTGATATGGA	0.557																																																0													153	162	159					6																	30459405		1509	2709	4218	SO:0001819	synonymous_variant	3133			M20022	CCDS34379.1	6p21.3	2013-01-11			ENSG00000204592	ENSG00000204592		"Histocompatibility complex", "Immunoglobulin superfamily / C1-set domain containing"	4962	protein-coding gene	gene with protein product		143010				3131426	Standard	NM_005516		Approved		uc003nqg.3	P13747	OTTHUMG00000031155	ENST00000376630.4:c.978T>C	6.37:g.30459405T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q30169|Q9BT83|Q9GIY7|Q9GIY8	Silent	SNP	ENST00000376630.4	37	CCDS34379.1																																																																																				0.557	HLA-E-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076282.2	NM_005516		C	30459405	T	C	30459405	2	2	695	1	0	0	0	0	0	0	0	1	7217	1567	55	3		3	HLA-E	6	30459405	Silent	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10	5615911	30459405	140655662	50	45376										
C6orf10	10665	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	32261299	32261299	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	agacaccagactgactcttcTttacttgggattcctgtctt	7	11	3	3			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr6:32261299T>G	ENST00000447241.2	-	23	1323	c.1151A>C	c.(1150-1152)aAg>aCg	p.K384T	C6orf10_ENST00000375007.4_Missense_Mutation_p.K382T|C6orf10_ENST00000527965.1_Missense_Mutation_p.K368T|C6orf10_ENST00000442822.2_Missense_Mutation_p.K375T|C6orf10_ENST00000375015.4_Missense_Mutation_p.K383T|C6orf10_ENST00000533191.1_Missense_Mutation_p.K382T	NM_006781.3	NP_006772.3	Q5SRN2	CF010_HUMAN	chromosome 6 open reading frame 10	384						integral component of membrane (GO:0016021)|nucleus (GO:0005634)				cervix(1)|endometrium(2)|kidney(1)|large_intestine(7)|lung(12)|ovary(1)|skin(1)	25						CTGACTCTTCTTTACTTGGGA	0.502																																																0													192	206	201					6																	32261299		1511	2709	4220	SO:0001583	missense	10665			U60665	CCDS34422.1, CCDS69082.1, CCDS75430.1	6p21.32	2012-11-20			ENSG00000204296	ENSG00000204296			13922	protein-coding gene	gene with protein product	"testis specific basic protein"					10803852	Standard	XM_005248810		Approved	TSBP	uc021yvs.1	Q5SRN2	OTTHUMG00000031107	ENST00000447241.2:c.1151A>C	6.37:g.32261299T>G	ENSP00000415517:p.Lys384Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A2BET1|A2BET2|A6NME2|B0S7R2|B0S7R3|E9PMB1|Q5SPI9|Q5SPJ0|Q5SPK9|Q5SPL0|Q5SRN3|Q5TG25|Q5TG26|Q8N4B6	Missense_Mutation	SNP	ENST00000447241.2	37	CCDS34422.1	.	.	.	.	.	.	.	.	.	.	T	13.39	2.223109	0.39300	.	.	ENSG00000204296	ENST00000442822;ENST00000447241;ENST00000375015;ENST00000533191;ENST00000527965;ENST00000375007;ENST00000375002;ENST00000305725	T;T;T;T;T;T	0.05081	3.5;3.58;3.55;3.56;3.56;3.59	3.83	1.33	0.21861	.	.	.	.	.	T	0.07818	0.0196	M	0.67397	2.05	0.09310	N	1	D;D	0.89917	0.991;1.0	P;D	0.87578	0.858;0.998	T	0.18116	-1.0347	9	0.59425	D	0.04	-1.1846	2.4408	0.04494	0.2053:0.224:0.0:0.5707	.	384;375	Q5SRN2;C9J9T8	CF010_HUMAN;.	T	375;384;383;382;368;382;381;381	ENSP00000411164:K375T;ENSP00000415517:K384T;ENSP00000364155:K383T;ENSP00000431199:K382T;ENSP00000435103:K368T;ENSP00000364146:K382T	ENSP00000303292:K381T	K	-	2	0	C6orf10	32369277	0.001000	0.12720	0.000000	0.03702	0.005000	0.04900	0.908000	0.28545	0.271000	0.22005	0.528000	0.53228	AAG		0.502	C6orf10-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000076178.4	NM_006781		G	32261299	T	G	32261299	3	3	695	1	0	0	0	0	1	0	0	0	2319	1609	56	5	544	5	C6orf10	6	32261299	Missense_Mutation	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10	1801894	32261299	138853768	51	45377										
PRICKLE4	29964	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	41751890	41751890	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gtcctgcagttctgagcttgGgttccctttgcctggacacc	11	13	1	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr6:41751890G>A	ENST00000394260.1	+	1	34	c.34G>A	c.(34-36)Ggt>Agt	p.G12S	PRICKLE4_ENST00000394263.1_Missense_Mutation_p.G52S|PRICKLE4_ENST00000359201.5_Missense_Mutation_p.G52S|PRICKLE4_ENST00000394259.1_Missense_Mutation_p.G12S|PRICKLE4_ENST00000458694.1_Missense_Mutation_p.G52S			Q2TBC4	PRIC4_HUMAN	prickle homolog 4 (Drosophila)	12	PET. {ECO:0000255|PROSITE- ProRule:PRU00636}.					nucleus (GO:0005634)	zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(2)|lung(2)|ovary(1)	13	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;8.38e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			TCTGAGCTTGGGTTCCCTTTG	0.542																																																0													140	115	123					6																	41751890		2203	4300	6503	SO:0001583	missense	29964			AF216754	CCDS34449.1	6p21.1	2010-08-05	2007-09-18	2007-09-18	ENSG00000124593	ENSG00000124593			16805	protein-coding gene	gene with protein product		611389	"chromosome 6 open reading frame 49"	C6orf49		15702247	Standard	NM_013397		Approved	OEBT, DKFZp761H221	uc011duf.1	Q2TBC4	OTTHUMG00000014685	ENST00000394260.1:c.34G>A	6.37:g.41751890G>A	ENSP00000377803:p.Gly12Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3M0|A6PVU1|B3KQ15|Q5T3D4|Q9NSV1	Missense_Mutation	SNP	ENST00000394260.1	37		.	.	.	.	.	.	.	.	.	.	G	15.41	2.826744	0.50739	.	.	ENSG00000124593	ENST00000458694;ENST00000359201;ENST00000394263;ENST00000394259;ENST00000394260	T;T;T;T;T	0.68624	-0.14;-0.33;-0.14;-0.34;-0.12	4.61	2.79	0.32731	.	0.160117	0.29892	N	0.010940	T	0.41442	0.1159	L	0.57536	1.79	0.09310	N	1	P	0.47910	0.902	P	0.46543	0.52	T	0.28650	-1.0037	10	0.15952	T	0.53	-8.6317	5.2819	0.15680	0.1041:0.0:0.6944:0.2015	.	52	Q2TBC4-3	.	S	52;52;52;12;12	ENSP00000404911:G52S;ENSP00000352128:G52S;ENSP00000377806:G52S;ENSP00000377802:G12S;ENSP00000377803:G12S	ENSP00000335185:G52S	G	+	1	0	PRICKLE4	41859868	0.041000	0.20044	0.003000	0.11579	0.193000	0.23685	1.999000	0.40806	0.540000	0.28808	0.491000	0.48974	GGT		0.542	PRICKLE4-007	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000303948.1	NM_013397		A	41751890	G	A	41751890	3	1	695	1	0	0	0	0	1	0	0	0	12499	1232	43	2	160	2	PRICKLE4	6	41751890	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	9490591	41751890	129363177	52	45378										
CASP8AP2	9994	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	90578032	90578032	+	RNA	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tggaagaaatctcacactctGttggggaacatcttccaaac	8	10	3	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr6:90578032G>C	ENST00000551025.1	+	0	6460									caspase 8 associated protein 2											NS(1)|endometrium(7)|kidney(6)|large_intestine(12)|lung(21)|ovary(2)|urinary_tract(2)	51		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		CTCACACTCTGTTGGGGAACA	0.378																																					Colon(187;1656 2025 17045 31481 39901)											0													49	50	49					6																	90578032		1888	4122	6010			9994			AB037736		6q15	2012-04-19	2008-10-30		ENSG00000118412	ENSG00000118412			1510	protein-coding gene	gene with protein product	"FLICE-associated huge protein"	606880	"CASP8 associated protein 2"			10235259, 17245429, 17003126	Standard	NM_001137668		Approved	FLASH, CED-4, RIP25, FLJ11208, KIAA1315	uc011dzz.2	Q9UKL3	OTTHUMG00000015212		6.37:g.90578032G>C		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000551025.1	37																																																																																					0.378	CASP8AP2-202	KNOWN	basic	processed_transcript	processed_transcript		NM_001137667		C	90578032	G	C	90578032	1	2	695	0	1	0	0	0	0	0	0	0	2680	1377	48	4		4	CASP8AP2	6	90578032	RNA	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	48826142	90578032	80537035	53	45379										
RFX6	222546	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	117203548	117203548	+	Frame_Shift_Del	DEL	C	C	-													0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	agacaattcgccagaagtttCccctcctaacaacaaggcgg							TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr6:117203548delC	ENST00000332958.2	+	4	539	c.523delC	c.(523-525)cccfs	p.P175fs		NM_173560.3	NP_775831.2	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	175					endocrine pancreas development (GO:0031018)|glucose homeostasis (GO:0042593)|pancreatic A cell differentiation (GO:0003310)|pancreatic D cell differentiation (GO:0003311)|pancreatic epsilon cell differentiation (GO:0090104)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of insulin secretion (GO:0050796)|transcription, DNA-templated (GO:0006351)|type B pancreatic cell differentiation (GO:0003309)	nucleus (GO:0005634)	transcription regulatory region DNA binding (GO:0044212)			cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(29)|ovary(1)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	59						CCAGAAGTTTCCCCTCCTAAC	0.413																																																0													105	92	96					6																	117203548		2203	4300	6503	SO:0001589	frameshift_variant	222546			BC039248	CCDS5113.1	6q22.31	2008-08-04	2008-08-04	2008-08-04	ENSG00000185002	ENSG00000185002			21478	protein-coding gene	gene with protein product		612659	"regulatory factor X domain containing 1"	RFXDC1			Standard	NM_173560		Approved	MGC33442, dJ955L16.1	uc003pxm.3	Q8HWS3	OTTHUMG00000015449	ENST00000332958.2:c.523delC	6.37:g.117203548delC	ENSP00000332208:p.Pro175fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T6B3	Frame_Shift_Del	DEL	ENST00000332958.2	37	CCDS5113.1																																																																																				0.413	RFX6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041970.2	NM_173560		-	117203548	C	-	117203548	7	5	695	1	0	1	0	1	0	0	0	0	13280	855	30	0	537	0	RFX6	6	117203548	Frame_Shift_Del	DEL	C	TCGA-P4-A5E6-01A-11D-A28G-10	26625516	117203548	53911519	54	45380										
NFE2L3	9603	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	26224503	26224503	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tttgatgagataaacttaatGtcattggccacagaagacaa	8	6	1	4			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr7:26224503G>T	ENST00000056233.3	+	4	1444	c.1185G>T	c.(1183-1185)atG>atT	p.M395I		NM_004289.6	NP_004280.5	Q9Y4A8	NF2L3_HUMAN	nuclear factor, erythroid 2-like 3	395					transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)			breast(2)|endometrium(1)|kidney(2)|large_intestine(4)|lung(5)|ovary(1)|prostate(2)|skin(5)|urinary_tract(7)	29						TAAACTTAATGTCATTGGCCA	0.363																																																0													89	93	92					7																	26224503		2203	4300	6503	SO:0001583	missense	9603			AB010812	CCDS5396.1	7p15.2	2013-08-23	2013-08-23		ENSG00000050344	ENSG00000050344		"basic leucine zipper proteins"	7783	protein-coding gene	gene with protein product		604135	"nuclear factor (erythroid-derived 2)-like 3"			10037736	Standard	NM_004289		Approved	Nrf3	uc003sxq.3	Q9Y4A8	OTTHUMG00000023882	ENST00000056233.3:c.1185G>T	7.37:g.26224503G>T	ENSP00000056233:p.Met395Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NUS0|Q7Z498|Q86UJ4|Q86VR5|Q9UQA4	Missense_Mutation	SNP	ENST00000056233.3	37	CCDS5396.1	.	.	.	.	.	.	.	.	.	.	G	11.69	1.714423	0.30413	.	.	ENSG00000050344	ENST00000056233;ENST00000398175	T	0.32988	1.43	5.12	1.16	0.20824	.	0.373144	0.32328	N	0.006247	T	0.33030	0.0849	M	0.78049	2.395	0.28293	N	0.923461	B	0.14805	0.011	B	0.13407	0.009	T	0.34950	-0.9808	10	0.54805	T	0.06	-0.9264	10.7382	0.46137	0.3412:0.0:0.6588:0.0	.	395	Q9Y4A8	NF2L3_HUMAN	I	395;101	ENSP00000056233:M395I	ENSP00000056233:M395I	M	+	3	0	NFE2L3	26191028	0.998000	0.40836	0.717000	0.30585	0.799000	0.45148	2.503000	0.45407	0.259000	0.21709	-0.229000	0.12294	ATG		0.363	NFE2L3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214088.1			T	26224503	G	T	26224503	3	4	695	1	0	0	0	0	1	0	0	0	10376	1377	48	4	1199	4	NFE2L3	7	26224503	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10		26224503	132914160	55	45381										
NAMPT	10135	broad.mit.edu	37	chr7	105903928	105903928	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	actattaaatgtcttagatcTtcaccccatattttctcaca	2	11	4	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr7:105903928T>G	ENST00000222553.3	-	7	1186	c.879A>C	c.(877-879)gaA>gaC	p.E293D	NAMPT_ENST00000354289.4_Missense_Mutation_p.E293D	NM_005746.2	NP_005737.1	P43490	NAMPT_HUMAN	nicotinamide phosphoribosyltransferase	293					cell-cell signaling (GO:0007267)|circadian regulation of gene expression (GO:0032922)|NAD biosynthetic process (GO:0009435)|NAD metabolic process (GO:0019674)|nicotinamide metabolic process (GO:0006769)|positive regulation of cell proliferation (GO:0008284)|positive regulation of nitric-oxide synthase biosynthetic process (GO:0051770)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	cytokine activity (GO:0005125)|nicotinamide phosphoribosyltransferase activity (GO:0047280)|nicotinate-nucleotide diphosphorylase (carboxylating) activity (GO:0004514)			endometrium(2)|kidney(1)|large_intestine(4)|lung(5)|prostate(1)|upper_aerodigestive_tract(1)	14						GTCTTAGATCTTCACCCCATA	0.368																																																0													104	94	98					7																	105903928		2203	4299	6502	SO:0001583	missense	10135			U02020	CCDS5737.1	7q22.3	2012-10-02	2008-03-27	2008-03-27	ENSG00000105835	ENSG00000105835			30092	protein-coding gene	gene with protein product	"visfatin"	608764	"pre-B-cell colony enhancing factor 1"	PBEF1		8289818	Standard	NM_005746		Approved	PBEF	uc003vdq.3	P43490	OTTHUMG00000140388	ENST00000222553.3:c.879A>C	7.37:g.105903928T>G	ENSP00000222553:p.Glu293Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A4D0Q9|A4D0R0|Q3KQV0|Q8WW95	Missense_Mutation	SNP	ENST00000222553.3	37	CCDS5737.1	.	.	.	.	.	.	.	.	.	.	T	9.068	0.996237	0.19043	.	.	ENSG00000105835	ENST00000222553;ENST00000354289	.	.	.	5.39	4.23	0.50019	Quinolinate phosphoribosyl transferase, C-terminal (1);	0.047647	0.85682	D	0.000000	T	0.32466	0.0830	N	0.21448	0.665	0.40718	D	0.982633	B;B;B	0.10296	0.003;0.0;0.0	B;B;B	0.09377	0.004;0.001;0.0	T	0.08994	-1.0695	9	0.15952	T	0.53	-10.4608	6.1952	0.20546	0.1046:0.0644:0.1083:0.7227	.	206;274;293	B7Z8W6;Q5SYT8;P43490	.;.;NAMPT_HUMAN	D	293	.	ENSP00000222553:E293D	E	-	3	2	NAMPT	105691164	0.999000	0.42202	1.000000	0.80357	0.971000	0.66376	0.564000	0.23563	0.426000	0.26116	-1.139000	0.01908	GAA		0.368	NAMPT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277146.1	NM_182790		G	105903928	T	G	105903928	3	3	695	1	0	0	0	0	1	0	0	0	10156	1606	56	5	616	5	NAMPT	7	105903928	Missense_Mutation	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10	79679425	105903928	53234735	56	45382										
FLNC	2318	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	128494117	128494117	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	acacccgcacggagcgcacgGagatcagcaagacgcggggc	15	14	1	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr7:128494117G>C	ENST00000325888.8	+	40	6835	c.6574G>C	c.(6574-6576)Gag>Cag	p.E2192Q	FLNC_ENST00000346177.6_Missense_Mutation_p.E2159Q|RP11-309L24.2_ENST00000469965.1_RNA	NM_001458.4	NP_001449.3	Q14315	FLNC_HUMAN	filamin C, gamma	2192	Intradomain insert; mediate targeting to Z lines.				cell junction assembly (GO:0034329)	costamere (GO:0043034)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|focal adhesion (GO:0005925)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcoplasm (GO:0016528)	ankyrin binding (GO:0030506)|cytoskeletal protein binding (GO:0008092)			biliary_tract(1)|breast(7)|central_nervous_system(1)|cervix(1)|endometrium(19)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(19)|lung(59)|ovary(2)|pancreas(2)|prostate(1)|skin(6)|upper_aerodigestive_tract(2)	128						GGAGCGCACGGAGATCAGCAA	0.652																																																0													20	25	23					7																	128494117		2098	4228	6326	SO:0001583	missense	2318			AB208865	CCDS43644.1, CCDS47705.1	7q32-q35	2014-09-17	2009-07-23		ENSG00000128591	ENSG00000128591			3756	protein-coding gene	gene with protein product	"actin binding protein 280"	102565	"filamin C, gamma (actin binding protein 280)"	FLN2		7689010, 8088838	Standard	NM_001458		Approved	ABP-280, ABPL	uc003vnz.4	Q14315	OTTHUMG00000023627	ENST00000325888.8:c.6574G>C	7.37:g.128494117G>C	ENSP00000327145:p.Glu2192Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B2ZZ88|O95303|Q07985|Q9NS12|Q9NYE5|Q9UMR8|Q9Y503	Missense_Mutation	SNP	ENST00000325888.8	37	CCDS43644.1	.	.	.	.	.	.	.	.	.	.	G	13.86	2.363533	0.41902	.	.	ENSG00000128591	ENST00000325888;ENST00000346177	D;D	0.85773	-2.03;-2.03	5.64	5.64	0.86602	.	0.000000	0.85682	D	0.000000	D	0.87537	0.6202	L	0.28192	0.835	0.54753	D	0.999988	D;P	0.67145	0.996;0.627	D;B	0.75484	0.986;0.198	D	0.86369	0.1722	10	0.34782	T	0.22	.	17.1975	0.86897	0.0:0.0:1.0:0.0	.	2159;2192	Q14315-2;Q14315	.;FLNC_HUMAN	Q	2192;2159	ENSP00000327145:E2192Q;ENSP00000344002:E2159Q	ENSP00000327145:E2192Q	E	+	1	0	FLNC	128281353	1.000000	0.71417	1.000000	0.80357	0.517000	0.34286	9.621000	0.98376	2.655000	0.90218	0.655000	0.94253	GAG		0.652	FLNC-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000059948.3			C	128494117	G	C	128494117	3	2	695	1	0	0	0	0	1	0	0	0	5942	1175	41	4	6732	4	FLNC	7	128494117	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	22590189	128494117	30644546	57	45383										
FAM40B	57464	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	129104562	129104562	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tactcctcaaacacttcaaaCtcaaccatatctaccaggtg	3	14	4	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr7:129104562C>G	ENST00000249344.2	+	16	1799	c.1759C>G	c.(1759-1761)Ctc>Gtc	p.L587V	STRIP2_ENST00000435494.2_Missense_Mutation_p.L587V	NM_020704.2	NP_065755.1	Q9ULQ0	STRP2_HUMAN	striatin interacting protein 2	587					cell migration (GO:0016477)|cytoskeleton organization (GO:0007010)|regulation of cell shape (GO:0008360)	cytoplasm (GO:0005737)											ACACTTCAAACTCAACCATAT	0.478																																																0													146	139	141					7																	129104562		2203	4300	6503	SO:0001583	missense	57464			AB032996	CCDS34752.1, CCDS47709.1	7q32.3	2012-11-05	2012-11-05	2012-11-05	ENSG00000128578	ENSG00000128578			22209	protein-coding gene	gene with protein product	"FAR11 factor arrest 11 homolog B (yeast)"		"family with sequence similarity 40, member B"	FAM40B		22782902, 22298706, 18782753	Standard	NM_020704		Approved	KIAA1170, FAR11B	uc011koy.2	Q9ULQ0	OTTHUMG00000157695	ENST00000249344.2:c.1759C>G	7.37:g.129104562C>G	ENSP00000249344:p.Leu587Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WUZ4	Missense_Mutation	SNP	ENST00000249344.2	37	CCDS34752.1	.	.	.	.	.	.	.	.	.	.	C	17.50	3.404795	0.62288	.	.	ENSG00000128578	ENST00000249344;ENST00000435494	T;T	0.49139	0.79;0.79	5.22	4.32	0.51571	.	0.000000	0.85682	D	0.000000	T	0.53270	0.1786	L	0.33792	1.035	0.80722	D	1	D;P	0.69078	0.997;0.815	D;P	0.79108	0.992;0.674	T	0.37384	-0.9708	10	0.20046	T	0.44	-16.1153	12.634	0.56673	0.0:0.9198:0.0:0.0802	.	587;587	Q9ULQ0;Q9ULQ0-2	FA40B_HUMAN;.	V	587	ENSP00000249344:L587V;ENSP00000392393:L587V	ENSP00000249344:L587V	L	+	1	0	FAM40B	128891798	1.000000	0.71417	1.000000	0.80357	0.958000	0.62258	4.948000	0.63590	2.620000	0.88729	0.655000	0.94253	CTC		0.478	STRIP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349418.1	NM_001134336		G	129104562	C	G	129104562	3	3	695	1	0	0	0	0	1	0	0	0	5568	565	20	4	1821	4	FAM40B	7	129104562	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	610445	129104562	30034101	58	45384										
HR	55806	hgsc.bcm.edu	37	chr8	21978269	21978269	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cctggaagaggtggaagccaCgccgagggcaaggctggggc	19	10	0	1	rs114871775	byFrequency	TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr8:21978269C>T	ENST00000381418.4	-	11	4050	c.2570G>A	c.(2569-2571)cGt>cAt	p.R857H	HR_ENST00000312841.8_Missense_Mutation_p.R857H	NM_005144.4	NP_005135.2	O43593	HAIR_HUMAN	hair growth associated	857					negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nuclear body (GO:0016604)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|oxidoreductase activity (GO:0016491)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)			central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(12)|ovary(2)|prostate(3)|upper_aerodigestive_tract(1)	27		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		GTGGAAGCCACGCCGAGGGCA	0.741													C|||	61	0.0121805	0.0454	0.0	5008	,	,		13295	0.0		0.001	False		,,,				2504	0.0															0								C	HIS/ARG,HIS/ARG	107,3239		0,107,1566	2	3	2		2570,2570	0.6	0	8	dbSNP_132	2	4,6868		0,4,3432	yes	missense,missense	HR	NM_005144.4,NM_018411.4	29,29	0,111,4998	TT,TC,CC		0.0582,3.1978,1.0863	benign,benign	857/1190,857/1135	21978269	111,10107	1673	3436	5109	SO:0001583	missense	55806			AF039196	CCDS6022.1, CCDS6023.1	8p12	2012-12-07	2012-12-07		ENSG00000168453	ENSG00000168453			5172	protein-coding gene	gene with protein product		602302	"hairless (mouse) homolog", "hairless homolog (mouse)"	ALUNC		10051399, 9463324	Standard	NM_018411		Approved	AU	uc003xas.3	O43593	OTTHUMG00000097089	ENST00000381418.4:c.2570G>A	8.37:g.21978269C>T	ENSP00000370826:p.Arg857His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GS30|Q96H33|Q9NPE1	Missense_Mutation	SNP	ENST00000381418.4	37	CCDS6022.1	22	0.010073260073260074	20	0.04065040650406504	1	0.0027624309392265192	0	0.0	1	0.0013192612137203166	C	7.312	0.615246	0.14129	0.031978	5.82E-4	ENSG00000168453	ENST00000381418;ENST00000312841;ENST00000517699	T;T;T	0.71461	-0.57;-0.57;0.94	5.06	0.547	0.17202	.	0.836181	0.10478	N	0.670017	T	0.12646	0.0307	N	0.02315	-0.6	0.09310	N	1	B;B	0.17667	0.023;0.007	B;B	0.13407	0.009;0.004	T	0.09862	-1.0655	10	0.23891	T	0.37	-0.1927	6.1814	0.20474	0.0:0.4668:0.0:0.5332	.	857;857	O43593-2;O43593	.;HAIR_HUMAN	H	857;857;80	ENSP00000370826:R857H;ENSP00000326765:R857H;ENSP00000430413:R80H	ENSP00000326765:R857H	R	-	2	0	HR	22034214	0.001000	0.12720	0.000000	0.03702	0.426000	0.31534	0.809000	0.27168	0.243000	0.21327	-0.339000	0.08088	CGT		0.741	HR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214213.1			T	21978269	C	T	21978269	3	4	695	1	0	0	0	0	1	0	0	0	7354	536	19	1	1035	1	HR	8	21978269	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10		21978269	124385753	59	45385										
SDC2	6383	ucsc.edu	37	chr8	97605816	97605816	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	actacgcttctgcgtctggcTcgggtaaggtggctgcttct	13	11	3	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr8:97605816T>A	ENST00000302190.4	+	2	1090	c.169T>A	c.(169-171)Tcg>Acg	p.S57T	SDC2_ENST00000518385.1_Intron|SDC2_ENST00000519914.1_Missense_Mutation_p.S28T|SDC2_ENST00000522911.1_Missense_Mutation_p.S28T	NM_002998.3	NP_002989.2	P34741	SDC2_HUMAN	syndecan 2	57					carbohydrate metabolic process (GO:0005975)|chondroitin sulfate metabolic process (GO:0030204)|dendrite morphogenesis (GO:0048813)|extracellular matrix organization (GO:0030198)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|phototransduction, visible light (GO:0007603)|regulation of dendrite morphogenesis (GO:0048814)|response to caffeine (GO:0031000)|response to hypoxia (GO:0001666)|retinoid metabolic process (GO:0001523)|small molecule metabolic process (GO:0044281)|wound healing (GO:0042060)	Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|lysosomal lumen (GO:0043202)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	PDZ domain binding (GO:0030165)			breast(1)|cervix(1)|large_intestine(5)|lung(4)|ovary(2)|prostate(1)|stomach(2)	16	Breast(36;3.41e-05)				Sargramostim(DB00020)	TGCGTCTGGCTCGGGTAAGGT	0.483																																																0													122	93	103					8																	97605816		2203	4300	6503	SO:0001583	missense	6383			BC030133	CCDS6272.1	8q22-q23	2011-08-11	2007-02-15		ENSG00000169439	ENSG00000169439		"Proteoglycans / Cell Surface : Syndecans", "CD molecules"	10659	protein-coding gene	gene with protein product	"syndecan proteoglycan 2"	142460	"heparan sulfate proteoglycan 1, cell surface-associated"	HSPG, HSPG1		8187643	Standard	NM_002998		Approved	fibroglycan, SYND2, CD362	uc003yhv.1	P34741	OTTHUMG00000164689	ENST00000302190.4:c.169T>A	8.37:g.97605816T>A	ENSP00000307046:p.Ser57Thr	Somatic		WXS	Illumina HiSeq		B3KQA3|Q6PIS6|Q9H6V1	Missense_Mutation	SNP	ENST00000302190.4	37	CCDS6272.1	.	.	.	.	.	.	.	.	.	.	T	20.1	3.939239	0.73557	.	.	ENSG00000169439	ENST00000302190;ENST00000545117;ENST00000546193;ENST00000522911;ENST00000519914;ENST00000521590;ENST00000523877	T;T;T;T	0.48201	0.82;0.82;0.82;0.82	5.75	5.75	0.90469	.	0.000000	0.85682	D	0.000000	T	0.53965	0.1829	M	0.71581	2.175	0.52099	D	0.999948	P	0.47253	0.892	P	0.45753	0.492	T	0.60576	-0.7236	10	0.72032	D	0.01	-11.9994	13.8671	0.63594	0.0:0.0:0.0:1.0	.	57	P34741	SDC2_HUMAN	T	57;57;47;28;28;28;28	ENSP00000307046:S57T;ENSP00000427784:S28T;ENSP00000428256:S28T;ENSP00000429121:S28T	ENSP00000307046:S57T	S	+	1	0	SDC2	97674992	1.000000	0.71417	1.000000	0.80357	0.687000	0.40016	4.485000	0.60279	2.320000	0.78422	0.528000	0.53228	TCG		0.483	SDC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379750.1	NM_002998		A	97605816	T	A	97605816	3	1	695	1	0	0	0	0	1	0	0	0	13965	1551	54	5	175	5	SDC2	8	97605816	Missense_Mutation	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10	75627547	97605816	48758206	60	45386										
COL14A1	7373	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	121357692	121357692	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ccggactgtccaagggcctcCtggggagcctgggaggccag	17	13	0	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr8:121357692C>T	ENST00000297848.3	+	45	5237	c.4967C>T	c.(4966-4968)cCt>cTt	p.P1656L	COL14A1_ENST00000309791.4_Missense_Mutation_p.P1656L|COL14A1_ENST00000247781.3_Missense_Mutation_p.P1561L	NM_021110.1	NP_066933.1			collagen, type XIV, alpha 1											NS(1)|autonomic_ganglia(1)|breast(11)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(9)|large_intestine(31)|lung(42)|ovary(5)|pancreas(1)|prostate(1)|skin(8)|stomach(2)|upper_aerodigestive_tract(2)	119	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)			CAAGGGCCTCCTGGGGAGCCT	0.622																																																0													59	58	58					8																	121357692		2203	4300	6503	SO:0001583	missense	7373				CCDS34938.1	8q23	2013-02-11	2008-02-04		ENSG00000187955	ENSG00000187955		"Collagens", "Fibronectin type III domain containing"	2191	protein-coding gene	gene with protein product		120324	"undulin"	UND		1716629, 9427527	Standard	NM_021110		Approved		uc003yox.4	Q05707	OTTHUMG00000149877	ENST00000297848.3:c.4967C>T	8.37:g.121357692C>T	ENSP00000297848:p.Pro1656Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000297848.3	37	CCDS34938.1	.	.	.	.	.	.	.	.	.	.	C	25.3	4.621078	0.87460	.	.	ENSG00000187955	ENST00000309791;ENST00000297848;ENST00000247781;ENST00000440844	D;D;D;D	0.98684	-3.87;-3.87;-3.87;-5.07	5.54	4.67	0.58626	.	0.048120	0.85682	D	0.000000	D	0.99032	0.9669	M	0.86502	2.82	0.80722	D	1	D	0.56746	0.977	D	0.69307	0.963	D	0.99226	1.0880	10	0.49607	T	0.09	.	12.3879	0.55343	0.0:0.9213:0.0:0.0787	.	1656	Q05707	COEA1_HUMAN	L	1656;1656;1561;3	ENSP00000311809:P1656L;ENSP00000297848:P1656L;ENSP00000247781:P1561L;ENSP00000403640:P3L	ENSP00000247781:P1561L	P	+	2	0	COL14A1	121426873	1.000000	0.71417	1.000000	0.80357	0.929000	0.56500	6.600000	0.74132	1.364000	0.46038	0.555000	0.69702	CCT		0.622	COL14A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313657.2	NM_021110		T	121357692	C	T	121357692	3	4	695	1	0	0	0	0	1	0	0	0	3673	681	24	2	5141	2	COL14A1	8	121357692	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	23751876	121357692	25006330	61	45387										
EIF2C2	27161	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	141557696	141557696	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cgcactgcgtggccatccccAgcaccgtgtctcccacgcgc	10	20	1	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr8:141557696A>G	ENST00000220592.5	-	13	1731	c.1619T>C	c.(1618-1620)cTg>cCg	p.L540P	AGO2_ENST00000519980.1_Missense_Mutation_p.L540P	NM_012154.3	NP_036286.2	Q9UKV8	AGO2_HUMAN	argonaute RISC catalytic component 2	540	Interaction with guide RNA.|Piwi. {ECO:0000255|HAMAP-Rule:MF_03031}.				epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|gene silencing by RNA (GO:0031047)|innate immune response (GO:0045087)|mRNA cleavage involved in gene silencing by miRNA (GO:0035279)|negative regulation of translation involved in gene silencing by miRNA (GO:0035278)|negative regulation of translational initiation (GO:0045947)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch signaling pathway (GO:0007219)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay (GO:1900153)|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening (GO:0060213)|post-embryonic development (GO:0009791)|pre-miRNA processing (GO:0031054)|regulation of transcription, DNA-templated (GO:0006355)|RNA phosphodiester bond hydrolysis, endonucleolytic (GO:0090502)|transcription, DNA-templated (GO:0006351)|translation (GO:0006412)|translational initiation (GO:0006413)	cytoplasm (GO:0005737)|cytoplasmic mRNA processing body (GO:0000932)|cytosol (GO:0005829)|membrane (GO:0016020)|micro-ribonucleoprotein complex (GO:0035068)|mRNA cap binding complex (GO:0005845)|nucleus (GO:0005634)|polysome (GO:0005844)|ribonucleoprotein complex (GO:0030529)|RISC complex (GO:0016442)	endoribonuclease activity (GO:0004521)|endoribonuclease activity, cleaving siRNA-paired mRNA (GO:0070551)|metal ion binding (GO:0046872)|miRNA binding (GO:0035198)|mRNA binding (GO:0003729)|poly(A) RNA binding (GO:0044822)|RNA 7-methylguanosine cap binding (GO:0000340)|siRNA binding (GO:0035197)|translation initiation factor activity (GO:0003743)										GGCCATCCCCAGCACCGTGTC	0.637																																																0													182	140	154					8																	141557696		2203	4300	6503	SO:0001583	missense	27161			AF121255	CCDS6380.1, CCDS55279.1	8q24.3	2013-02-15	2013-02-15	2013-02-15	ENSG00000123908	ENSG00000123908		"Argonaute/PIWI family"	3263	protein-coding gene	gene with protein product	"argonaute 2"	606229	"eukaryotic translation initiation factor 2C, 2"	EIF2C2		10534406, 12906857	Standard	NM_012154		Approved	hAGO2, Q10	uc003yvn.3	Q9UKV8	OTTHUMG00000164232	ENST00000220592.5:c.1619T>C	8.37:g.141557696A>G	ENSP00000220592:p.Leu540Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q8TCZ5|Q8WV58|Q96ID1	Missense_Mutation	SNP	ENST00000220592.5	37	CCDS6380.1	.	.	.	.	.	.	.	.	.	.	A	21.9	4.212273	0.79240	.	.	ENSG00000123908	ENST00000220592;ENST00000519980	T;T	0.35236	1.32;1.32	5.49	5.49	0.81192	Stem cell self-renewal protein Piwi (3);Ribonuclease H-like (1);	0.000000	0.85682	D	0.000000	T	0.69958	0.3169	M	0.94021	3.485	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.85130	0.995;0.997	T	0.79259	-0.1877	10	0.87932	D	0	-13.6154	15.5836	0.76465	1.0:0.0:0.0:0.0	.	540;540	Q9UKV8-2;Q9UKV8	.;AGO2_HUMAN	P	540	ENSP00000220592:L540P;ENSP00000430176:L540P	ENSP00000220592:L540P	L	-	2	0	EIF2C2	141626878	1.000000	0.71417	0.973000	0.42090	0.690000	0.40134	9.193000	0.94954	2.076000	0.62316	0.533000	0.62120	CTG		0.637	AGO2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377866.4			G	141557696	A	G	141557696	3	3	695	1	0	0	0	0	1	0	0	0	5008	188	7	3	988	3	EIF2C2	8	141557696	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	20200004	141557696	4806326	62	45388										
TRPM6	140803	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	77435298	77435298	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	agactaaagttgaaagtgttCtgaatcatgcagatgatctc	9	6	3	5			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr9:77435298C>G	ENST00000360774.1	-	9	1293	c.1056G>C	c.(1054-1056)caG>caC	p.Q352H	TRPM6_ENST00000451710.3_Missense_Mutation_p.Q352H|TRPM6_ENST00000376871.3_Missense_Mutation_p.Q352H|TRPM6_ENST00000376864.4_Missense_Mutation_p.Q352H|TRPM6_ENST00000376872.3_Missense_Mutation_p.Q352H|TRPM6_ENST00000483186.1_5'UTR|TRPM6_ENST00000361255.3_Missense_Mutation_p.Q347H|TRPM6_ENST00000449912.2_Missense_Mutation_p.Q347H	NM_017662.4	NP_060132.3	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel, subfamily M, member 6	352					calcium ion transmembrane transport (GO:0070588)|ion transmembrane transport (GO:0034220)|response to toxic substance (GO:0009636)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|calcium channel activity (GO:0005262)|metal ion binding (GO:0046872)|protein serine/threonine kinase activity (GO:0004674)			NS(2)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(22)|liver(1)|lung(53)|ovary(1)|prostate(7)|skin(12)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	126						TGAAAGTGTTCTGAATCATGC	0.438																																																0													148	135	140					9																	77435298		2203	4300	6503	SO:0001583	missense	140803			AK026281	CCDS6647.1, CCDS55318.1, CCDS55319.1	9q21.13	2011-12-14	2003-12-02		ENSG00000119121	ENSG00000119121		"Voltage-gated ion channels / Transient receptor potential cation channels"	17995	protein-coding gene	gene with protein product		607009	"hypomagnesemia, secondary hypocalcemia"	HOMG, HSH		10021370, 12032570, 16382100	Standard	NM_017662		Approved	CHAK2, FLJ22628	uc004ajk.1	Q9BX84	OTTHUMG00000020027	ENST00000360774.1:c.1056G>C	9.37:g.77435298C>G	ENSP00000354006:p.Gln352His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6VPR8|Q6VPR9|Q6VPS0|Q6VPS1|Q6VPS2	Missense_Mutation	SNP	ENST00000360774.1	37	CCDS6647.1	.	.	.	.	.	.	.	.	.	.	C	18.08	3.544685	0.65198	.	.	ENSG00000119121	ENST00000360774;ENST00000451710;ENST00000376872;ENST00000376871;ENST00000449912;ENST00000361255;ENST00000376864;ENST00000312449;ENST00000448641	T;T;T;T;T;T;T	0.66460	-0.21;-0.21;-0.21;-0.21;-0.21;-0.21;-0.21	5.37	4.36	0.52297	.	0.122952	0.64402	D	0.000020	T	0.79476	0.4452	M	0.78456	2.415	0.43617	D	0.995992	D;D;P;P	0.71674	0.998;0.998;0.951;0.896	D;D;P;P	0.67382	0.951;0.951;0.765;0.694	T	0.81861	-0.0738	10	0.87932	D	0	.	11.9834	0.53133	0.0:0.8466:0.0:0.1534	.	352;352;352;347	Q9BX84-6;Q9BX84-5;Q9BX84;Q9BX84-3	.;.;TRPM6_HUMAN;.	H	352;352;352;352;347;347;352;15;15	ENSP00000354006:Q352H;ENSP00000407341:Q352H;ENSP00000366068:Q352H;ENSP00000366067:Q352H;ENSP00000396672:Q347H;ENSP00000354962:Q347H;ENSP00000366060:Q352H	ENSP00000309693:Q15H	Q	-	3	2	TRPM6	76625118	0.998000	0.40836	1.000000	0.80357	0.997000	0.91878	0.737000	0.26144	2.500000	0.84329	0.655000	0.94253	CAG		0.438	TRPM6-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000052693.1	NM_017662		G	77435298	C	G	77435298	3	3	695	1	0	0	0	0	1	0	0	0	16602	912	32	4	5136	4	TRPM6	9	77435298	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10		77435298	63778133	63	45389										
GOLM1	51280	ucsc.edu	37	chr9	88692380	88692380	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cagctggaagttgtggctggActggattttgtcaagctgct	14	7	1	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr9:88692380A>G	ENST00000388712.3	-	3	424	c.256T>C	c.(256-258)Tcc>Ccc	p.S86P	GOLM1_ENST00000388711.3_Missense_Mutation_p.S86P|GOLM1_ENST00000257504.6_5'UTR	NM_016548.3	NP_057632.2	Q8NBJ4	GOLM1_HUMAN	golgi membrane protein 1	86					nucleus organization (GO:0006997)|regulation of lipid metabolic process (GO:0019216)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)				breast(1)|endometrium(1)|kidney(2)|large_intestine(4)|liver(1)|lung(4)|pancreas(1)|prostate(1)|skin(1)|stomach(1)	17						TTGTGGCTGGACTGGATTTTG	0.562																																																0													116	103	107					9																	88692380		2203	4300	6503	SO:0001583	missense	51280			AF236056	CCDS35054.1	9q21.33	2012-12-13	2007-07-30	2007-07-30	ENSG00000135052	ENSG00000135052			15451	protein-coding gene	gene with protein product		606804	"golgi phosphoprotein 2", "chromosome 9 open reading frame 155"	GOLPH2, C9orf155		10831838, 18953438, 22542941	Standard	NM_016548		Approved	GP73, FLJ23608, bA379P1.3	uc004aol.3	Q8NBJ4	OTTHUMG00000020130	ENST00000388712.3:c.256T>C	9.37:g.88692380A>G	ENSP00000373364:p.Ser86Pro	Somatic		WXS	Illumina HiSeq		Q6IAF4|Q9NRB9	Missense_Mutation	SNP	ENST00000388712.3	37	CCDS35054.1	.	.	.	.	.	.	.	.	.	.	A	22.2	4.258712	0.80246	.	.	ENSG00000135052	ENST00000388712;ENST00000388711;ENST00000486130	T;T;D	0.90732	0.91;0.91;-2.72	5.08	5.08	0.68730	.	0.273079	0.41294	D	0.000904	D	0.94165	0.8128	M	0.68593	2.085	0.38371	D	0.944862	D	0.76494	0.999	D	0.71656	0.974	D	0.95318	0.8418	10	0.59425	D	0.04	-11.2339	14.9684	0.71213	1.0:0.0:0.0:0.0	.	86	Q8NBJ4	GOLM1_HUMAN	P	86	ENSP00000373364:S86P;ENSP00000373363:S86P;ENSP00000419076:S86P	ENSP00000373363:S86P	S	-	1	0	GOLM1	87882200	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	5.159000	0.64923	2.263000	0.75096	0.379000	0.24179	TCC		0.562	GOLM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052904.2	NM_177937		G	88692380	A	G	88692380	3	3	695	1	0	0	0	0	1	0	0	0	6574	275	10	3	981	3	GOLM1	9	88692380	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	11257082	88692380	52521051	64	45390										
TEX10	54881	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	103109141	103109141	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cttcactttctctcaacctaCtggatccatctgccaaggcc	5	16	4	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr9:103109141C>G	ENST00000374902.4	-	3	904	c.728G>C	c.(727-729)aGt>aCt	p.S243T	TEX10_ENST00000535814.1_Missense_Mutation_p.S246T|TEX10_ENST00000537512.1_Missense_Mutation_p.S178T	NM_017746.3	NP_060216.2	Q9NXF1	TEX10_HUMAN	testis expressed 10	243						cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|MLL1 complex (GO:0071339)				NS(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(7)|lung(14)|ovary(1)|prostate(4)|skin(1)|upper_aerodigestive_tract(2)	38		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)		TCTCAACCTACTGGATCCATC	0.448																																																0													122	118	119					9																	103109141		2203	4300	6503	SO:0001583	missense	54881			AB060968	CCDS6748.1, CCDS55330.1	9q31.1	2012-05-02	2007-03-13		ENSG00000136891	ENSG00000136891			25988	protein-coding gene	gene with protein product			"testis expressed gene 10", "testis expressed sequence 10"			12477932	Standard	NM_017746		Approved	FLJ20287, bA208F1.2, Ipi1	uc004bas.3	Q9NXF1	OTTHUMG00000020366	ENST00000374902.4:c.728G>C	9.37:g.103109141C>G	ENSP00000364037:p.Ser243Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYV2|Q5T722|Q5T723|Q8NCN8|Q8TDY0	Missense_Mutation	SNP	ENST00000374902.4	37	CCDS6748.1	.	.	.	.	.	.	.	.	.	.	C	9.748	1.166577	0.21621	.	.	ENSG00000136891	ENST00000535814;ENST00000374902;ENST00000444730;ENST00000537512	.	.	.	5.26	4.31	0.51392	Armadillo-type fold (1);	0.430875	0.29932	N	0.010833	T	0.29288	0.0729	N	0.12182	0.205	0.38372	D	0.944907	B;B;B;B;B	0.29766	0.002;0.007;0.11;0.256;0.002	B;B;B;B;B	0.21360	0.003;0.004;0.011;0.034;0.003	T	0.20638	-1.0269	9	0.29301	T	0.29	-9.3945	9.3406	0.38079	0.0:0.7187:0.1367:0.1446	.	178;246;111;111;243	B7Z9D5;B4DYV2;E7ERG2;B4DQR0;Q9NXF1	.;.;.;.;TEX10_HUMAN	T	246;243;111;178	.	ENSP00000364037:S243T	S	-	2	0	TEX10	102148962	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	1.669000	0.37492	2.450000	0.82876	0.655000	0.94253	AGT		0.448	TEX10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053416.1	NM_017746		G	103109141	C	G	103109141	3	3	695	1	0	0	0	0	1	0	0	0	15784	565	20	4	2113	4	TEX10	9	103109141	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	14416761	103109141	38104290	65	45391										
EGFL7	51162	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	139564703	139564703	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	agttactggtgccagtgttgGgaggggcacagcctgtctgc	16	9	1	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr9:139564703G>C	ENST00000371699.1	+	7	1403	c.492G>C	c.(490-492)tgG>tgC	p.W164C	EGFL7_ENST00000406555.3_Missense_Mutation_p.W164C|EGFL7_ENST00000492002.1_3'UTR|EGFL7_ENST00000308874.7_Missense_Mutation_p.W164C|EGFL7_ENST00000371698.3_Missense_Mutation_p.W164C|MIR126_ENST00000362291.1_RNA			Q9UHF1	EGFL7_HUMAN	EGF-like-domain, multiple 7	164	EGF-like 2; calcium-binding. {ECO:0000255|PROSITE-ProRule:PRU00076}.				angiogenesis (GO:0001525)|blood vessel development (GO:0001568)|cell adhesion (GO:0007155)|negative regulation of cell migration (GO:0030336)|negative regulation of Notch signaling pathway (GO:0045746)|positive regulation of endothelial cell proliferation (GO:0001938)|vasculogenesis (GO:0001570)	extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)	calcium ion binding (GO:0005509)			kidney(2)|ovary(1)|prostate(2)|urinary_tract(1)	6	all_cancers(76;0.109)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;9.87e-06)|Epithelial(140;0.000123)		GCCAGTGTTGGGAGGGGCACA	0.652																																																0													28	30	29					9																	139564703		2198	4297	6495	SO:0001583	missense	51162			AF186111	CCDS7002.1	9q34.3	2008-02-05			ENSG00000172889	ENSG00000172889			20594	protein-coding gene	gene with protein product		608582					Standard	NM_016215		Approved	ZNEU1	uc004cih.3	Q9UHF1	OTTHUMG00000020938	ENST00000371699.1:c.492G>C	9.37:g.139564703G>C	ENSP00000360764:p.Trp164Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRP0|M9VTX9|Q5M7Y5|Q5VUD5|Q96EG0	Missense_Mutation	SNP	ENST00000371699.1	37	CCDS7002.1	.	.	.	.	.	.	.	.	.	.	G	15.33	2.802260	0.50315	.	.	ENSG00000172889	ENST00000371699;ENST00000308874;ENST00000406555;ENST00000371698	T;T;T;T	0.36157	1.27;1.27;1.27;1.27	5.26	2.31	0.28768	EGF-like calcium-binding (2);	1.149640	0.06146	N	0.673294	T	0.37785	0.1016	L	0.32530	0.975	0.45822	D	0.998694	D	0.56968	0.978	P	0.50754	0.649	T	0.04454	-1.0950	10	0.46703	T	0.11	-0.7885	7.8608	0.29509	0.1492:0.1325:0.7182:0.0	.	164	Q9UHF1	EGFL7_HUMAN	C	164	ENSP00000360764:W164C;ENSP00000307843:W164C;ENSP00000385639:W164C;ENSP00000360763:W164C	ENSP00000307843:W164C	W	+	3	0	EGFL7	138684524	0.247000	0.23920	0.257000	0.24404	0.612000	0.37316	0.439000	0.21575	0.188000	0.20168	0.561000	0.74099	TGG		0.652	EGFL7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055094.1	NM_016215		C	139564703	G	C	139564703	3	2	695	1	0	0	0	0	1	0	0	0	4966	1241	43	4	510	4	EGFL7	9	139564703	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	36455562	139564703	1648728	66	45392										
TRAF2	7186	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	139794876	139794876	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ggatattcctctccccaggcCttcccagataatgctgcccg	8	16	1	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr9:139794876C>G	ENST00000247668.2	+	4	322	c.270C>G	c.(268-270)gcC>gcG	p.A90A	TRAF2_ENST00000536468.1_Silent_p.A90A|TRAF2_ENST00000359662.3_Silent_p.A90A	NM_021138.3	NP_066961.2	Q12933	TRAF2_HUMAN	TNF receptor-associated factor 2	90					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|activation of NF-kappaB-inducing kinase activity (GO:0007250)|apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|cellular protein complex assembly (GO:0043623)|cellular response to nitric oxide (GO:0071732)|innate immune response (GO:0045087)|negative regulation of glial cell apoptotic process (GO:0034351)|negative regulation of neuron death (GO:1901215)|positive regulation of extrinsic apoptotic signaling pathway (GO:2001238)|positive regulation of interleukin-2 production (GO:0032743)|positive regulation of JUN kinase activity (GO:0043507)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of protein homodimerization activity (GO:0090073)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of T cell activation (GO:0050870)|positive regulation of T cell cytokine production (GO:0002726)|programmed necrotic cell death (GO:0097300)|protein autoubiquitination (GO:0051865)|protein catabolic process (GO:0030163)|protein complex assembly (GO:0006461)|protein heterooligomerization (GO:0051291)|protein homotrimerization (GO:0070207)|protein K63-linked ubiquitination (GO:0070534)|regulation of apoptotic process (GO:0042981)|regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001239)|regulation of immunoglobulin secretion (GO:0051023)|signal transduction (GO:0007165)|tumor necrosis factor-mediated signaling pathway (GO:0033209)	CD40 receptor complex (GO:0035631)|cell cortex (GO:0005938)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|membrane raft (GO:0045121)|ubiquitin ligase complex (GO:0000151)	CD40 receptor binding (GO:0005174)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|ligase activity (GO:0016874)|protein phosphatase binding (GO:0019903)|signal transducer activity (GO:0004871)|sphingolipid binding (GO:0046625)|thioesterase binding (GO:0031996)|tumor necrosis factor receptor binding (GO:0005164)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(3)|central_nervous_system(1)|endometrium(2)|large_intestine(3)|lung(4)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	17	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.229)	OV - Ovarian serous cystadenocarcinoma(145;4.48e-06)|Epithelial(140;9.55e-06)		CTCCCCAGGCCTTCCCAGATA	0.577																																																0													43	38	39					9																	139794876		2203	4300	6503	SO:0001819	synonymous_variant	7186			U12597	CCDS7013.1	9q34	2013-01-09			ENSG00000127191	ENSG00000127191		"RING-type (C3HC4) zinc fingers"	12032	protein-coding gene	gene with protein product		601895				7639698	Standard	NM_021138		Approved	TRAP3	uc004cjv.3	Q12933	OTTHUMG00000020952	ENST00000247668.2:c.270C>G	9.37:g.139794876C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K107|B4DPJ7|Q7Z337|Q96NT2	Silent	SNP	ENST00000247668.2	37	CCDS7013.1																																																																																				0.577	TRAF2-007	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055166.1	NM_021138		G	139794876	C	G	139794876	2	3	695	1	0	0	0	0	0	0	0	1	16450	668	24	4		4	TRAF2	9	139794876	Silent	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	230173	139794876	1418555	67	45393										
VIM	7431	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	17278345	17278345	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	acccactcaaaaaggacactTctgattaagacggttgaaac	7	10	2	3			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr10:17278345T>G	ENST00000224237.5	+	8	1471	c.1326T>G	c.(1324-1326)ctT>ctG	p.L442L	VIM_ENST00000544301.1_Silent_p.L442L|RP11-124N14.3_ENST00000456355.1_RNA			P08670	VIME_HUMAN	vimentin	442	Tail.			L -> F (in Ref. 1; AAA61279). {ECO:0000305}.	apoptotic process (GO:0006915)|astrocyte development (GO:0014002)|Bergmann glial cell differentiation (GO:0060020)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular component movement (GO:0006928)|intermediate filament organization (GO:0045109)|lens fiber cell development (GO:0070307)|muscle filament sliding (GO:0030049)|negative regulation of neuron projection development (GO:0010977)|positive regulation of gene expression (GO:0010628)|viral process (GO:0016032)	cell leading edge (GO:0031252)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|intermediate filament (GO:0005882)|intermediate filament cytoskeleton (GO:0045111)|neuron projection (GO:0043005)|peroxisome (GO:0005777)|plasma membrane (GO:0005886)	double-stranded RNA binding (GO:0003725)|glycoprotein binding (GO:0001948)|identical protein binding (GO:0042802)|protein C-terminus binding (GO:0008022)|scaffold protein binding (GO:0097110)|structural constituent of cytoskeleton (GO:0005200)|structural constituent of eye lens (GO:0005212)			NS(1)|autonomic_ganglia(1)|breast(1)|endometrium(3)|kidney(1)|large_intestine(4)|liver(2)|lung(18)|ovary(2)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	38						AAAGGACACTTCTGATTAAGA	0.348																																																0													150	165	160					10																	17278345		2203	4300	6503	SO:0001819	synonymous_variant	7431			M14144	CCDS7120.1	10p13	2013-01-16			ENSG00000026025	ENSG00000026025		"Intermediate filaments type III"	12692	protein-coding gene	gene with protein product		193060					Standard	NM_003380		Approved		uc001iou.2	P08670	OTTHUMG00000017744	ENST00000224237.5:c.1326T>G	10.37:g.17278345T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0YJC2|D3DRU4|Q15867|Q15868|Q15869|Q548L2|Q6LER9|Q8N850|Q96ML2|Q9NTM3	Silent	SNP	ENST00000224237.5	37	CCDS7120.1																																																																																				0.348	VIM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047015.1	NM_003380		G	17278345	T	G	17278345	2	3	695	1	0	0	0	0	0	0	0	1	17178	1770	62	5		5	VIM	10	17278345	Silent	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10		17278345	118256402	68	45394										
ARHGAP21	57584	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	24873742	24873742	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	aagttcagattctctctcccCgctctgctcatgcactttcc	5	16	5	1	rs370251256		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr10:24873742C>T	ENST00000396432.2	-	26	5962	c.5476G>A	c.(5476-5478)Ggg>Agg	p.G1826R		NM_020824.3	NP_065875.3	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	1825	Interaction with CTNNA1.				establishment of Golgi localization (GO:0051683)|Golgi organization (GO:0007030)|maintenance of Golgi location (GO:0051684)|organelle transport along microtubule (GO:0072384)|signal transduction (GO:0007165)	cell junction (GO:0030054)|cytoplasmic vesicle (GO:0031410)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)	GTPase activator activity (GO:0005096)			NS(1)|breast(4)|central_nervous_system(1)|cervix(1)|endometrium(11)|kidney(4)|large_intestine(17)|lung(21)|ovary(7)|pancreas(1)|prostate(5)|skin(2)|stomach(2)|urinary_tract(1)	78						TCTCTCTCCCCGCTCTGCTCA	0.498																																																0								C	ARG/GLY	0,4406		0,0,2203	62	63	63		5476	3.3	0	10		63	1,8599	1.2+/-3.3	0,1,4299	no	missense	ARHGAP21	NM_020824.3	125	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	benign	1826/1959	24873742	1,13005	2203	4300	6503	SO:0001583	missense	57584			AF480466	CCDS7144.2	10p12.31	2013-01-10			ENSG00000107863	ENSG00000107863		"Rho GTPase activating proteins", "Pleckstrin homology (PH) domain containing"	23725	protein-coding gene	gene with protein product		609870				12056806	Standard	NM_020824		Approved	KIAA1424, ARHGAP10	uc001isb.2	Q5T5U3	OTTHUMG00000017825	ENST00000396432.2:c.5476G>A	10.37:g.24873742C>T	ENSP00000379709:p.Gly1826Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VF98|Q7Z3P7|Q8N3A2|Q8NI19|Q8TBV5|Q9P2C3	Missense_Mutation	SNP	ENST00000396432.2	37	CCDS7144.2	.	.	.	.	.	.	.	.	.	.	C	1.589	-0.529652	0.04112	0.0	1.16E-4	ENSG00000107863	ENST00000396432;ENST00000447364	T	0.11712	2.75	5.13	3.27	0.37495	.	1.152260	0.06177	N	0.678642	T	0.06416	0.0165	N	0.16307	0.4	0.18873	N	0.999984	B	0.09022	0.002	B	0.04013	0.001	T	0.42207	-0.9465	10	0.18710	T	0.47	.	2.6596	0.05023	0.2147:0.4829:0.0:0.3023	.	1825	Q5T5U3	RHG21_HUMAN	R	1826;1275	ENSP00000379709:G1826R	ENSP00000379709:G1826R	G	-	1	0	ARHGAP21	24913748	0.000000	0.05858	0.002000	0.10522	0.007000	0.05969	0.682000	0.25335	1.139000	0.42245	0.655000	0.94253	GGG		0.498	ARHGAP21-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047229.4	NM_020824		T	24873742	C	T	24873742	3	4	695	1	0	0	0	0	1	0	0	0	871	652	23	1	404	1	ARHGAP21	10	24873742	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	7595397	24873742	110661005	69	45395										
RBP3	5949	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	48388918	48388918	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ggtctgccccacgacctctgGccgagcatagtgggcctcca	12	16	2	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr10:48388918G>C	ENST00000224600.4	-	1	2073	c.1960C>G	c.(1960-1962)Cca>Gca	p.P654A	AL731561.2_ENST00000581861.1_RNA	NM_002900.2	NP_002891.1	P10745	RET3_HUMAN	retinol binding protein 3, interstitial	654	4 X approximate tandem repeats.				lipid metabolic process (GO:0006629)|phototransduction, visible light (GO:0007603)|retinoid metabolic process (GO:0001523)|transport (GO:0006810)|visual perception (GO:0007601)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|interphotoreceptor matrix (GO:0033165)|vesicle (GO:0031982)	retinal binding (GO:0016918)|retinoid binding (GO:0005501)|retinol binding (GO:0019841)|serine-type peptidase activity (GO:0008236)			central_nervous_system(3)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(8)|lung(30)|ovary(1)|prostate(7)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	59					Vitamin A(DB00162)	ACGACCTCTGGCCGAGCATAG	0.672																																																0													16	18	17					10																	48388918		2197	4286	6483	SO:0001583	missense	5949			M22453	CCDS73119.1	10q11.2	2014-05-06	2001-11-28		ENSG00000107618	ENSG00000265203			9921	protein-coding gene	gene with protein product		180290	"retinol-binding protein 3, interstitial"				Standard	NM_002900		Approved	D10S64, D10S65, D10S66, RP66	uc001jez.3	P10745	OTTHUMG00000188321	ENST00000224600.4:c.1960C>G	10.37:g.48388918G>C	ENSP00000224600:p.Pro654Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q0QD34|Q5VSR0|Q8IXN0	Missense_Mutation	SNP	ENST00000224600.4	37	CCDS7218.1	.	.	.	.	.	.	.	.	.	.	G	7.421	0.636769	0.14386	.	.	ENSG00000107618	ENST00000224600	T	0.39997	1.05	5.53	5.53	0.82687	.	0.128692	0.53938	D	0.000058	T	0.47322	0.1439	M	0.76170	2.325	0.38359	D	0.944551	P	0.34562	0.457	B	0.31390	0.129	T	0.57894	-0.7732	10	0.87932	D	0	-14.2089	18.4586	0.90729	0.0:0.0:1.0:0.0	.	654	P10745	RET3_HUMAN	A	654	ENSP00000224600:P654A	ENSP00000224600:P654A	P	-	1	0	RBP3	48008924	1.000000	0.71417	0.047000	0.18901	0.002000	0.02628	5.637000	0.67854	2.628000	0.89032	0.561000	0.74099	CCA		0.672	RBP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047888.1	NM_002900		C	48388918	G	C	48388918	3	2	695	1	0	0	0	0	1	0	0	0	13170	1203	42	4	1799	4	RBP3	10	48388918	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	23515176	48388918	87145829	70	45396										
ERCC6	2074	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	50681040	50681040	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tgacacctaagccgcccaccCgcgtggtcagaagaaacaca	9	15	1	3			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr10:50681040C>T	ENST00000355832.5	-	15	2822	c.2744G>A	c.(2743-2745)cGg>cAg	p.R915Q	RP11-123B3.2_ENST00000423283.1_RNA|ERCC6_ENST00000542458.1_Missense_Mutation_p.R285Q|ERCC6_ENST00000465653.1_5'Flank	NM_000124.2	NP_000115.1	Q03468	ERCC6_HUMAN	excision repair cross-complementation group 6	915	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				activation of JNKK activity (GO:0007256)|activation of JUN kinase activity (GO:0007257)|ATP catabolic process (GO:0006200)|base-excision repair (GO:0006284)|DNA repair (GO:0006281)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|multicellular organism growth (GO:0035264)|nucleotide-excision repair (GO:0006289)|photoreceptor cell maintenance (GO:0045494)|positive regulation of DNA-templated transcription, elongation (GO:0032786)|positive regulation of protein tyrosine kinase activity (GO:0061098)|pyrimidine dimer repair (GO:0006290)|regulation of DNA-templated transcription, elongation (GO:0032784)|response to gamma radiation (GO:0010332)|response to oxidative stress (GO:0006979)|response to superoxide (GO:0000303)|response to toxic substance (GO:0009636)|response to UV (GO:0009411)|response to UV-B (GO:0010224)|response to X-ray (GO:0010165)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription from RNA polymerase II promoter (GO:0006366)|transcription-coupled nucleotide-excision repair (GO:0006283)	nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription elongation factor complex (GO:0008023)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding (GO:0003677)|DNA-dependent ATPase activity (GO:0008094)|helicase activity (GO:0004386)|protein C-terminus binding (GO:0008022)|protein complex binding (GO:0032403)|protein N-terminus binding (GO:0047485)|protein tyrosine kinase activator activity (GO:0030296)			breast(5)|central_nervous_system(1)|endometrium(6)|kidney(5)|large_intestine(15)|lung(19)|ovary(3)|pancreas(1)|prostate(2)|skin(1)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	64						GCCGCCCACCCGCGTGGTCAG	0.498								Direct reversal of damage;Nucleotide excision repair (NER)																																								0													66	61	63					10																	50681040		2203	4300	6503	SO:0001583	missense	2074			L04791	CCDS7229.1	10q11	2014-09-17	2014-03-07		ENSG00000225830	ENSG00000225830			3438	protein-coding gene	gene with protein product	"Cockayne syndrome B protein"	609413	"excision repair cross-complementing rodent repair deficiency, complementation group 6"	CKN2		1339317, 19179336	Standard	NM_000124		Approved	CSB, RAD26, ARMD5	uc001jhs.5	Q03468	OTTHUMG00000018195	ENST00000355832.5:c.2744G>A	10.37:g.50681040C>T	ENSP00000348089:p.Arg915Gln	Somatic		WXS	Illumina HiSeq	Phase_I	D3DX94|Q5W0L9	Missense_Mutation	SNP	ENST00000355832.5	37	CCDS7229.1	.	.	.	.	.	.	.	.	.	.	C	21.8	4.199652	0.79015	.	.	ENSG00000225830	ENST00000355832;ENST00000374129;ENST00000542458	T;T	0.74842	-0.88;-0.88	5.88	5.88	0.94601	Helicase, C-terminal (3);	.	.	.	.	D	0.88093	0.6344	M	0.83603	2.65	0.48341	D	0.999631	D;D	0.89917	1.0;0.999	D;D	0.76575	0.987;0.988	D	0.88520	0.3095	9	0.72032	D	0.01	-20.7418	20.2422	0.98381	0.0:1.0:0.0:0.0	.	915;292	Q03468;Q59FF6	ERCC6_HUMAN;.	Q	915;292;285	ENSP00000348089:R915Q;ENSP00000445134:R285Q	ENSP00000348089:R915Q	R	-	2	0	ERCC6	50351046	0.998000	0.40836	0.702000	0.30337	0.338000	0.28826	3.873000	0.56093	2.782000	0.95742	0.655000	0.94253	CGG		0.498	ERCC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047990.1	NM_000124		T	50681040	C	T	50681040	3	4	695	1	0	0	0	0	1	0	0	0	5219	652	23	1	1765	1	ERCC6	10	50681040	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	2292122	50681040	84853707	71	45397										
CSTF2T	23283	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	53458361	53458361	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	accaccaggagtcacgggtcCgcgaggtataggagctctag	14	11	2	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr10:53458361C>T	ENST00000331173.4	-	1	994	c.949G>A	c.(949-951)Gga>Aga	p.G317R	PRKG1_ENST00000373980.4_Intron|PRKG1_ENST00000401604.2_Intron|PRKG1_ENST00000373985.1_Intron	NM_015235.2	NP_056050.1	Q9H0L4	CSTFT_HUMAN	cleavage stimulation factor, 3' pre-RNA, subunit 2, 64kDa, tau variant	317	Gly-rich.				mRNA processing (GO:0006397)	intracellular (GO:0005622)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)	p.G317R(1)		NS(1)|breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(8)|lung(6)|ovary(1)|prostate(2)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	30				COAD - Colon adenocarcinoma(2;0.00736)|Colorectal(2;0.00898)|all cancers(4;0.0188)|GBM - Glioblastoma multiforme(4;0.0778)|Epithelial(53;0.122)		GTCACGGGTCCGCGAGGTATA	0.567																																																1	Substitution - Missense(1)	large_intestine(1)											72	68	70					10																	53458361		2203	4300	6503	SO:0001583	missense	23283			AB014589	CCDS7245.1	10q11	2013-02-12			ENSG00000177613	ENSG00000177613		"RNA binding motif (RRM) containing"	17086	protein-coding gene	gene with protein product		611968				12408968, 11113135	Standard	NM_015235		Approved	DKFZp434C1013, KIAA0689, CstF-64T	uc001jjp.3	Q9H0L4	OTTHUMG00000018246	ENST00000331173.4:c.949G>A	10.37:g.53458361C>T	ENSP00000332444:p.Gly317Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAR9|O75174|Q53HK6|Q7LGE8|Q8N6T1	Missense_Mutation	SNP	ENST00000331173.4	37	CCDS7245.1	.	.	.	.	.	.	.	.	.	.	C	21.6	4.169805	0.78452	.	.	ENSG00000177613	ENST00000331173	T	0.22539	1.95	4.7	4.7	0.59300	.	0.449653	0.22819	N	0.055255	T	0.41994	0.1183	L	0.55481	1.735	0.53688	D	0.999972	D	0.89917	1.0	D	0.97110	1.0	T	0.13737	-1.0498	10	0.52906	T	0.07	-7.9329	15.5353	0.75998	0.0:1.0:0.0:0.0	.	317	Q9H0L4	CSTFT_HUMAN	R	317	ENSP00000332444:G317R	ENSP00000332444:G317R	G	-	1	0	CSTF2T	53128367	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	6.116000	0.71571	2.613000	0.88420	0.655000	0.94253	GGA		0.567	CSTF2T-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048097.1	NM_015235		T	53458361	C	T	53458361	3	4	695	1	0	0	0	0	1	0	0	0	3987	661	23	1	905	1	CSTF2T	10	53458361	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	2777321	53458361	82076386	72	45398										
COL13A1	1305	hgsc.bcm.edu	37	chr10	71562297	71562297	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cggagcgcggcgcacggctgCcgagtccagggtcgtgcggg	20	13	0	0	rs561022104	byFrequency	TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr10:71562297C>T	ENST00000398978.3	+	1	610	c.118C>T	c.(118-120)Ccg>Tcg	p.P40S	COL13A1_ENST00000520267.1_Missense_Mutation_p.P40S|COL13A1_ENST00000517713.1_Missense_Mutation_p.P40S|COL13A1_ENST00000398966.3_Missense_Mutation_p.P40S|COL13A1_ENST00000398972.3_Missense_Mutation_p.P40S|COL13A1_ENST00000398971.3_Missense_Mutation_p.P40S|COL13A1_ENST00000398968.3_Missense_Mutation_p.P40S|COL13A1_ENST00000520133.1_Missense_Mutation_p.P40S|COL13A1_ENST00000398969.3_Missense_Mutation_p.P40S|COL13A1_ENST00000354547.3_Missense_Mutation_p.P40S|COL13A1_ENST00000398973.3_Missense_Mutation_p.P40S|COL13A1_ENST00000357811.3_Missense_Mutation_p.P40S|COL13A1_ENST00000398964.3_Missense_Mutation_p.P40S|COL13A1_ENST00000398974.3_Missense_Mutation_p.P40S|COL13A1_ENST00000356340.3_Missense_Mutation_p.P40S|COL13A1_ENST00000522165.1_Missense_Mutation_p.P40S	NM_001130103.1	NP_001123575.1			collagen, type XIII, alpha 1											endometrium(5)|large_intestine(3)|lung(15)|ovary(1)|prostate(2)|skin(1)|urinary_tract(1)	28						CGCACGGCTGCCGAGTCCAGG	0.766													C|||	2	0.000399361	0.0015	0.0	5008	,	,		8844	0.0		0.0	False		,,,				2504	0.0															0													12	14	13					10																	71562297		1839	3975	5814	SO:0001583	missense	1305			AJ293624	CCDS44419.1, CCDS44423.1, CCDS44424.1, CCDS44425.1, CCDS44427.1, CCDS44428.1, CCDS44423.2, CCDS44424.2, CCDS44425.2, CCDS44427.2, CCDS44428.2	10q22	2013-01-16			ENSG00000197467	ENSG00000197467		"Collagens"	2190	protein-coding gene	gene with protein product		120350					Standard	NM_001130103		Approved		uc001jql.3	Q5TAT6	OTTHUMG00000018394	ENST00000398978.3:c.118C>T	10.37:g.71562297C>T	ENSP00000381949:p.Pro40Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000398978.3	37	CCDS44419.1	.	.	.	.	.	.	.	.	.	.	C	16.09	3.024834	0.54683	.	.	ENSG00000197467	ENST00000398974;ENST00000398971;ENST00000398968;ENST00000398966;ENST00000398964;ENST00000398969;ENST00000356340;ENST00000398972;ENST00000398973;ENST00000398978;ENST00000354547;ENST00000357811;ENST00000520267;ENST00000517713;ENST00000522165;ENST00000520133	D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D	0.91686	-2.74;-2.66;-2.7;-2.79;-2.89;-2.7;-2.73;-2.6;-2.72;-2.72;-2.7;-2.71;-2.66;-2.61;-2.66;-2.61	5.24	5.24	0.73138	.	0.000000	0.42294	D	0.000732	D	0.92172	0.7518	N	0.22421	0.69	0.29823	N	0.830659	D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D;D	0.69078	0.993;0.996;0.997;0.993;0.994;0.994;0.994;0.997;0.994;0.994;0.997;0.997;0.997;0.996;0.997;0.997;0.994;0.996	D;D;P;D;P;P;P;D;P;P;P;P;D;D;P;P;P;D	0.78314	0.979;0.991;0.9;0.979;0.796;0.796;0.796;0.986;0.796;0.723;0.9;0.9;0.986;0.991;0.9;0.9;0.796;0.991	D	0.88496	0.3079	10	0.44086	T	0.13	-5.5417	13.2925	0.60278	0.0:0.9204:0.0:0.0796	.	40;40;40;40;40;40;40;40;40;40;40;40;40;40;40;40;40;40	Q5TAT6;Q5TAT6-5;Q5TAT6-6;E9PEG9;E7ES55;E7ES51;E7ES47;E7ES46;E7ES49;E7EWL8;Q5TAT6-3;Q5TAT6-4;E7EX21;Q5TAT6-7;Q5TAT6-8;Q5TAT6-2;E7ES56;G5E987	CODA1_HUMAN;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.;.	S	40	ENSP00000381946:P40S;ENSP00000381943:P40S;ENSP00000381940:P40S;ENSP00000381938:P40S;ENSP00000381936:P40S;ENSP00000381941:P40S;ENSP00000348695:P40S;ENSP00000381944:P40S;ENSP00000381945:P40S;ENSP00000381949:P40S;ENSP00000346553:P40S;ENSP00000350463:P40S;ENSP00000428057:P40S;ENSP00000430061:P40S;ENSP00000428342:P40S;ENSP00000430173:P40S	ENSP00000346553:P40S	P	+	1	0	COL13A1	71232303	1.000000	0.71417	1.000000	0.80357	0.837000	0.47467	3.084000	0.50143	2.462000	0.83206	0.456000	0.33151	CCG		0.766	COL13A1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048468.1	NM_005203		T	71562297	C	T	71562297	3	4	695	1	0	0	0	0	1	0	0	0	3672	739	26	2	120	2	COL13A1	10	71562297	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	18103936	71562297	63972450	73	45399										
ZMIZ1	57178	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	81037038	81037038	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gggaaactccccatgcagccCcctctcagctccatgagctc	8	18	1	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr10:81037038C>G	ENST00000334512.5	+	8	953	c.381C>G	c.(379-381)ccC>ccG	p.P127P	ZMIZ1_ENST00000478357.1_3'UTR	NM_020338.3	NP_065071.1	Q9ULJ6	ZMIZ1_HUMAN	zinc finger, MIZ-type containing 1	127					artery morphogenesis (GO:0048844)|cell aging (GO:0007569)|developmental growth (GO:0048589)|heart morphogenesis (GO:0003007)|in utero embryonic development (GO:0001701)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)|vasculogenesis (GO:0001570)|vitellogenesis (GO:0007296)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(14)|ovary(2)|prostate(3)|skin(1)	30	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			CCATGCAGCCCCCTCTCAGCT	0.622																																																0													57	55	55					10																	81037038		2203	4300	6503	SO:0001819	synonymous_variant	57178			AB033050	CCDS7357.1	10q22.3	2012-11-30	2006-10-24	2006-10-24	ENSG00000108175	ENSG00000108175		"Zinc fingers, MIZ-type"	16493	protein-coding gene	gene with protein product		607159	"retinoic acid induced 17"	RAI17		15626329	Standard	NM_020338		Approved	RP11-519K18.1, KIAA1224, FLJ13541, hZIMP10, Zimp10, MIZ	uc001kaf.2	Q9ULJ6	OTTHUMG00000018560	ENST00000334512.5:c.381C>G	10.37:g.81037038C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JSH9|Q7Z7E6	Silent	SNP	ENST00000334512.5	37	CCDS7357.1																																																																																				0.622	ZMIZ1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048944.2	NM_020338		G	81037038	C	G	81037038	2	3	695	1	0	0	0	0	0	0	0	1	17708	610	22	4		4	ZMIZ1	10	81037038	Silent	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	9474741	81037038	54497709	74	45400										
RNLS	55328	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	90342858	90342858	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tcagccttgtcccacacagcAaggtacaagggaccggacgt	11	13	1	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr10:90342858A>C	ENST00000331772.4	-	1	112	c.90T>G	c.(88-90)ctT>ctG	p.L30L	RNLS_ENST00000466945.1_5'UTR|RNLS_ENST00000371947.3_Silent_p.L30L|Y_RNA_ENST00000364678.1_RNA|RNLS_ENST00000437752.1_Silent_p.L30L	NM_001031709.2	NP_001026879.2	Q5VYX0	RNLS_HUMAN	renalase, FAD-dependent amine oxidase	30					cardiac left ventricle morphogenesis (GO:0003214)|dopamine metabolic process (GO:0042417)|epinephrine metabolic process (GO:0042414)|heart contraction (GO:0060047)|norepinephrine metabolic process (GO:0042415)|phosphate ion homeostasis (GO:0055062)|regulation of systemic arterial blood pressure (GO:0003073)|response to epinephrine (GO:0071871)|response to ischemia (GO:0002931)|response to norepinephrine (GO:0071873)|response to salt (GO:1902074)	extracellular space (GO:0005615)	oxidoreductase activity (GO:0016491)			breast(1)|kidney(1)|lung(3)|ovary(1)|prostate(1)	7						CCCACACAGCAAGGTACAAGG	0.632											OREG0020353	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													65	63	64					10																	90342858		2203	4300	6503	SO:0001819	synonymous_variant	55328			BC005364	CCDS7388.1, CCDS31239.1	10q23.31	2009-04-22	2009-04-22	2009-04-22	ENSG00000184719	ENSG00000184719			25641	protein-coding gene	gene with protein product		609360	"chromosome 10 open reading frame 59"	C10orf59		15841207, 17565281	Standard	NM_001031709		Approved	FLJ11218, renalase	uc001kfe.3	Q5VYX0	OTTHUMG00000018692	ENST00000331772.4:c.90T>G	10.37:g.90342858A>C		Somatic	1274	WXS	Illumina HiSeq	Phase_I	Q9BS33|Q9NUP8	Silent	SNP	ENST00000331772.4	37	CCDS31239.1																																																																																				0.632	RNLS-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049250.1	NM_018363		C	90342858	A	C	90342858	2	2	695	1	0	0	0	0	0	0	0	1	13518	117	5	5		5	RNLS	10	90342858	Silent	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	9305820	90342858	45191889	75	45401										
NOC3L	64318	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	96121495	96121495	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tctttcacagcttgccttagTttcctctgttcttttcggta	6	11	4	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr10:96121495T>C	ENST00000371361.3	-	2	244	c.144A>G	c.(142-144)aaA>aaG	p.K48K	NOC3L_ENST00000371350.1_Silent_p.K48K|NOC3L_ENST00000463649.1_5'UTR	NM_022451.9	NP_071896.8	Q8WTT2	NOC3L_HUMAN	nucleolar complex associated 3 homolog (S. cerevisiae)	48					fat cell differentiation (GO:0045444)	nuclear speck (GO:0016607)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)			endometrium(3)|large_intestine(17)|lung(5)|ovary(1)|skin(2)|stomach(1)	29		Colorectal(252;0.0897)				CTTGCCTTAGTTTCCTCTGTT	0.368																																																0													308	272	284					10																	96121495		2203	4300	6503	SO:0001819	synonymous_variant	64318			AL355341	CCDS7433.1	10q23.33	2004-04-20	2005-08-01	2005-08-01	ENSG00000173145	ENSG00000173145			24034	protein-coding gene	gene with protein product		610769	"chromosome 10 open reading frame 117"	C10orf117		15564382	Standard	NM_022451		Approved	AD24, FLJ12820, FAD24	uc001kjq.1	Q8WTT2	OTTHUMG00000018788	ENST00000371361.3:c.144A>G	10.37:g.96121495T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H5M6|Q9H9D8	Silent	SNP	ENST00000371361.3	37	CCDS7433.1																																																																																				0.368	NOC3L-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049466.1	NM_022451		C	96121495	T	C	96121495	2	2	695	1	0	0	0	0	0	0	0	1	10521	1722	60	3		3	NOC3L	10	96121495	Silent	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10	5778637	96121495	39413252	76	45402										
GPAM	57678	ucsc.edu;bcgsc.ca	37	chr10	113920407	113920407	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	atgaagtaccccattgctgtAgaagttgagttcgaagactg	11	7	0	4			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr10:113920407A>T	ENST00000348367.4	-	16	1911	c.1714T>A	c.(1714-1716)Tac>Aac	p.Y572N	GPAM_ENST00000423155.1_Missense_Mutation_p.Y572N|GPAM_ENST00000369425.1_Missense_Mutation_p.Y572N			Q9HCL2	GPAT1_HUMAN	glycerol-3-phosphate acyltransferase, mitochondrial	572					acyl-CoA metabolic process (GO:0006637)|CDP-diacylglycerol biosynthetic process (GO:0016024)|cellular lipid metabolic process (GO:0044255)|defense response to virus (GO:0051607)|fatty acid homeostasis (GO:0055089)|fatty acid metabolic process (GO:0006631)|glycerophospholipid biosynthetic process (GO:0046474)|interleukin-2 secretion (GO:0070970)|negative regulation of activation-induced cell death of T cells (GO:0070236)|phosphatidic acid biosynthetic process (GO:0006654)|phospholipid homeostasis (GO:0055091)|phospholipid metabolic process (GO:0006644)|positive regulation of activated T cell proliferation (GO:0042104)|positive regulation of multicellular organism growth (GO:0040018)|regulation of cytokine secretion (GO:0050707)|response to glucose (GO:0009749)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrial outer membrane (GO:0005741)|plasma membrane (GO:0005886)	glycerol-3-phosphate O-acyltransferase activity (GO:0004366)			breast(2)|central_nervous_system(2)|endometrium(8)|kidney(2)|large_intestine(5)|lung(8)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	31				Epithelial(162;0.0306)|all cancers(201;0.123)		CCATTGCTGTAGAAGTTGAGT	0.418																																					Ovarian(161;1017 2606 18293 52943)											0													128	113	118					10																	113920407		2203	4300	6503	SO:0001583	missense	57678			AL832464	CCDS7570.1	10q25.3	2009-07-15			ENSG00000119927	ENSG00000119927			24865	protein-coding gene	gene with protein product	"glycerol-3-phosphate acyltransferase 1, mitochondrial"	602395				10997877, 8369314	Standard	NM_020918		Approved	KIAA1560, MGC26846, GPAT1	uc001kzp.3	Q9HCL2	OTTHUMG00000019055	ENST00000348367.4:c.1714T>A	10.37:g.113920407A>T	ENSP00000265276:p.Tyr572Asn	Somatic		WXS	Illumina HiSeq		Q5VW51|Q86TA3	Missense_Mutation	SNP	ENST00000348367.4	37	CCDS7570.1	.	.	.	.	.	.	.	.	.	.	A	25.1	4.605939	0.87157	.	.	ENSG00000119927	ENST00000348367;ENST00000423155;ENST00000369425	T;T;T	0.76839	-1.05;-1.05;-0.99	5.86	5.86	0.93980	.	0.000000	0.85682	D	0.000000	D	0.85669	0.5750	L	0.56769	1.78	0.80722	D	1	D;D	0.76494	0.999;0.998	D;D	0.80764	0.994;0.991	D	0.86451	0.1773	10	0.59425	D	0.04	-19.1551	14.819	0.70055	1.0:0.0:0.0:0.0	.	572;572	Q5VW52;Q9HCL2	.;GPAT1_HUMAN	N	572	ENSP00000265276:Y572N;ENSP00000409242:Y572N;ENSP00000358433:Y572N	ENSP00000265276:Y572N	Y	-	1	0	GPAM	113910397	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.809000	0.91944	2.241000	0.73720	0.533000	0.62120	TAC		0.418	GPAM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050377.1	NM_020918		T	113920407	A	T	113920407	3	4	695	1	0	0	0	0	1	0	0	0	6595	420	15	5	800	5	GPAM	10	113920407	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	17798912	113920407	21614340	77	45403										
PDZD8	118987	hgsc.bcm.edu	37	chr10	119134718	119134718	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cccagcacggccgacgccagGatcatgagcagcagccccat	11	17	1	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr10:119134718G>T	ENST00000334464.5	-	1	260	c.21C>A	c.(19-21)atC>atA	p.I7I		NM_173791.3	NP_776152.1	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	7					cytoskeleton organization (GO:0007010)|intracellular signal transduction (GO:0035556)|regulation of cell morphogenesis (GO:0022604)|viral process (GO:0016032)	membrane (GO:0016020)	metal ion binding (GO:0046872)			kidney(3)|large_intestine(8)|lung(24)|upper_aerodigestive_tract(3)	38		Colorectal(252;0.19)		all cancers(201;0.0121)		CCGACGCCAGGATCATGAGCA	0.741																																																0																																										SO:0001819	synonymous_variant	118987			AL122051	CCDS7600.1	10q26.12	2006-01-24		2006-01-24	ENSG00000165650	ENSG00000165650			26974	protein-coding gene	gene with protein product		614235		PDZK8		12477932	Standard	NM_173791		Approved	bA129M16.2, FLJ34427	uc001lde.1	Q8NEN9	OTTHUMG00000019122	ENST00000334464.5:c.21C>A	10.37:g.119134718G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q86WE0|Q86WE5|Q9UFF1	Silent	SNP	ENST00000334464.5	37	CCDS7600.1																																																																																				0.741	PDZD8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050565.1	NM_173791		T	119134718	G	T	119134718	2	4	695	1	0	0	0	0	0	0	0	1	11712	1164	41	4		4	PDZD8	10	119134718	Silent	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	5214311	119134718	16400029	78	45404										
MUC2	4583	broad.mit.edu	37	chr11	1093099	1093099	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ccaccaccactacggtgaccCcaaccccaacacccaccggc	5	23	0	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr11:1093099C>A	ENST00000441003.2	+	30	4945	c.4918C>A	c.(4918-4920)Cca>Aca	p.P1640T	MUC2_ENST00000361558.6_Intron|MUC2_ENST00000359061.5_Missense_Mutation_p.P1607T|MUC2_ENST00000333592.6_5'Flank	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	tacggtgaccccaaccccaac	0.632																																																0													63	117	98					11																	1093099		1809	3438	5247	SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.4918C>A	11.37:g.1093099C>A	ENSP00000415183:p.Pro1640Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	C	2.382	-0.341784	0.05243	.	.	ENSG00000198788	ENST00000441003;ENST00000359061	T;T	0.12465	2.68;3.14	1.07	-2.15	0.07102	.	0.513936	0.13039	U	0.418649	T	0.05686	0.0149	.	.	.	0.09310	N	1	B	0.13145	0.007	B	0.04013	0.001	T	0.40496	-0.9560	9	0.15952	T	0.53	.	3.2486	0.06806	0.348:0.4185:0.2335:0.0	.	1640	E7EUV1	.	T	1640;1607	ENSP00000415183:P1640T;ENSP00000351956:P1607T	ENSP00000351956:P1607T	P	+	1	0	MUC2	1083099	0.000000	0.05858	0.000000	0.03702	0.149000	0.21700	-1.638000	0.02013	-1.307000	0.02321	0.121000	0.15741	CCA		0.632	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		A	1093099	C	A	1093099	3	1	695	1	0	0	0	0	1	0	0	0	9982	623	22	4	5036	4	MUC2	11	1093099	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10		1093099	133913417	79	45405										
MUC2	4583	broad.mit.edu	37	chr11	1093376	1093376	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	caccaccactacggtgacccCaaccccaacacccaccggca	5	22	0	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr11:1093376C>T	ENST00000441003.2	+	30	5222	c.5195C>T	c.(5194-5196)cCa>cTa	p.P1732L	MUC2_ENST00000361558.6_Intron|MUC2_ENST00000359061.5_Missense_Mutation_p.P1699L|MUC2_ENST00000333592.6_Missense_Mutation_p.P20L	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	acggtgaccccaaccccaaca	0.652																																																0													159	216	197					11																	1093376		1982	3848	5830	SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.5195C>T	11.37:g.1093376C>T	ENSP00000415183:p.Pro1732Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	C	4.814	0.151307	0.09185	.	.	ENSG00000198788	ENST00000441003;ENST00000359061;ENST00000333592	T;T;T	0.10668	3.06;3.09;2.85	1.24	-0.195	0.13236	.	498.391000	0.02047	U	0.049780	T	0.07234	0.0183	.	.	.	0.09310	N	1	B	0.20261	0.043	B	0.08055	0.003	T	0.33369	-0.9871	9	0.41790	T	0.15	.	2.831	0.05499	0.3014:0.3985:0.3:0.0	.	1732	E7EUV1	.	L	1732;1699;20	ENSP00000415183:P1732L;ENSP00000351956:P1699L;ENSP00000331373:P20L	ENSP00000331373:P20L	P	+	2	0	MUC2	1083376	0.002000	0.14202	0.001000	0.08648	0.006000	0.05464	0.947000	0.29082	0.612000	0.30071	0.195000	0.17529	CCA		0.652	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		T	1093376	C	T	1093376	3	4	695	1	0	0	0	0	1	0	0	0	9982	594	21	2	5313	2	MUC2	11	1093376	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	277	1093376	133913140	80	45406										
ZFP91	80829	hgsc.bcm.edu	37	chr11	58346868	58346868	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cggccccctgaggcggtcgcGgcggcgcctgcagggaccac	17	17	0	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr11:58346868G>A	ENST00000316059.6	+	1	285	c.114G>A	c.(112-114)gcG>gcA	p.A38A	LPXN_ENST00000528954.1_5'Flank|ZFP91-CNTF_ENST00000389919.4_Silent_p.A38A|LPXN_ENST00000528489.1_5'Flank	NM_001197051.1|NM_053023.4	NP_001183980.1|NP_444251.1	Q96JP5	ZFP91_HUMAN	ZFP91 zinc finger protein	38	Ala-rich.				activation of NF-kappaB-inducing kinase activity (GO:0007250)|protein K63-linked ubiquitination (GO:0070534)	nucleus (GO:0005634)	ligase activity (GO:0016874)|metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|ubiquitin-protein transferase activity (GO:0004842)			cervix(1)|endometrium(4)|kidney(4)|large_intestine(4)|lung(10)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	26		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				AGGCGGTCGCGGCGGCGCCTG	0.771																																																0													2	2	2					11																	58346868		1047	2260	3307	SO:0001819	synonymous_variant	80829			AB056107	CCDS31553.1	11q12	2012-11-27	2012-11-27		ENSG00000186660	ENSG00000186660		"Zinc fingers, C2H2-type"	14983	protein-coding gene	gene with protein product			"zinc finger protein homologous to Zfp91 in mouse", "zinc finger protein 91 homolog (mouse)"			12738986, 20682767	Standard	NM_053023		Approved	PZF, ZNF757	uc001nmx.4	Q96JP5	OTTHUMG00000137391	ENST00000316059.6:c.114G>A	11.37:g.58346868G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NHC4|A8MSG7|Q86V47|Q96JP4|Q96QA3	Silent	SNP	ENST00000316059.6	37	CCDS31553.1																																																																																				0.771	ZFP91-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268674.1	NM_053023		A	58346868	G	A	58346868	2	1	695	1	0	0	0	0	0	0	0	1	17667	1103	39	1		1	ZFP91	11	58346868	Silent	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	57253492	58346868	76659648	81	45407										
ATG2A	23130	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	64681557	64681557	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ggaggggcctgctcaccagtCtcaatggtctgggcaaacat	13	11	3	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr11:64681557C>A	ENST00000377264.3	-	3	595	c.483G>T	c.(481-483)gaG>gaT	p.E161D	ATG2A_ENST00000421419.2_Missense_Mutation_p.E161D	NM_015104.2	NP_055919.2	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	161					autophagic vacuole assembly (GO:0000045)|cellular response to nitrogen starvation (GO:0006995)|mitochondrion degradation (GO:0000422)|nucleophagy (GO:0044804)	extrinsic component of membrane (GO:0019898)|lipid particle (GO:0005811)|pre-autophagosomal structure (GO:0000407)				breast(3)|central_nervous_system(3)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(19)|ovary(3)|prostate(5)|skin(1)|stomach(1)|urinary_tract(3)	55						GCTCACCAGTCTCAATGGTCT	0.667																																																0													27	31	29					11																	64681557		2165	4236	6401	SO:0001583	missense	23130				CCDS31602.1	11q13.1	2014-02-12	2012-06-06		ENSG00000110046	ENSG00000110046			29028	protein-coding gene	gene with protein product			"ATG2 autophagy related 2 homolog A (S. cerevisiae)"			21887408	Standard	NM_015104		Approved	KIAA0404	uc001obx.3	Q2TAZ0	OTTHUMG00000066831	ENST00000377264.3:c.483G>T	11.37:g.64681557C>A	ENSP00000366475:p.Glu161Asp	Somatic		WXS	Illumina HiSeq	Phase_I	O43154|Q14DM2|Q6ZTV2|Q7Z6K8|Q8IVY5|Q8TAI8|Q96HH7	Missense_Mutation	SNP	ENST00000377264.3	37	CCDS31602.1	.	.	.	.	.	.	.	.	.	.	c	16.16	3.045338	0.55110	.	.	ENSG00000110046	ENST00000421419;ENST00000377264;ENST00000227459	T;T	0.56444	0.46;0.46	3.89	1.99	0.26369	.	0.000000	0.64402	D	0.000001	T	0.55449	0.1921	L	0.41236	1.265	0.44366	D	0.997264	D	0.63880	0.993	D	0.70016	0.967	T	0.49542	-0.8929	10	0.33940	T	0.23	.	5.9448	0.19213	0.0:0.666:0.0:0.334	.	161	Q2TAZ0	ATG2A_HUMAN	D	161	ENSP00000410522:E161D;ENSP00000366475:E161D	ENSP00000227459:E161D	E	-	3	2	ATG2A	64438133	1.000000	0.71417	0.998000	0.56505	0.950000	0.60333	0.697000	0.25556	0.439000	0.26476	0.457000	0.33378	GAG		0.667	ATG2A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000143224.1	NM_015104		A	64681557	C	A	64681557	3	1	695	1	0	0	0	0	1	0	0	0	1093	912	32	4	5489	4	ATG2A	11	64681557	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	6334689	64681557	70324959	82	45408										
FOLR2	2350	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	71931920	71931920	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tcttccccacccagtgcagtCcctggaagaagaatgcctgc	9	15	1	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr11:71931920C>A	ENST00000298223.6	+	3	344	c.157C>A	c.(157-159)Ccc>Acc	p.P53T	FOLR2_ENST00000454954.2_Missense_Mutation_p.P12T|FOLR2_ENST00000449475.2_Missense_Mutation_p.P70T	NM_000803.4|NM_001113534.1|NM_001113535.1|NM_001113536.1	NP_000794.3|NP_001107006.1|NP_001107007.1|NP_001107008.1	P14207	FOLR2_HUMAN	folate receptor 2 (fetal)	53					folic acid transport (GO:0015884)	anchored component of external side of plasma membrane (GO:0031362)|extracellular region (GO:0005576)|membrane (GO:0016020)	folic acid binding (GO:0005542)|folic acid transporter activity (GO:0008517)			breast(3)|large_intestine(3)|ovary(1)|skin(1)	8					Folic Acid(DB00158)	CCAGTGCAGTCCCTGGAAGAA	0.587																																																0													46	44	44					11																	71931920		2200	4293	6493	SO:0001583	missense	2350			AK222539	CCDS8212.1	11q13.3-q14.1	2010-04-08			ENSG00000165457	ENSG00000165457			3793	protein-coding gene	gene with protein product		136425				1133088, 7698003	Standard	NM_000803		Approved		uc009ytf.3	P14207	OTTHUMG00000150394	ENST00000298223.6:c.157C>A	11.37:g.71931920C>A	ENSP00000298223:p.Pro53Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q05CA5|Q6GTE8	Missense_Mutation	SNP	ENST00000298223.6	37	CCDS8212.1	.	.	.	.	.	.	.	.	.	.	c	17.57	3.422312	0.62622	.	.	ENSG00000165457	ENST00000449475;ENST00000298223;ENST00000413873;ENST00000454954;ENST00000541003;ENST00000539412;ENST00000536778;ENST00000535625;ENST00000321324;ENST00000538353	T;T;T;T;T;T;T;T;T	0.76448	-1.02;-1.02;-1.02;-1.02;-1.02;-1.02;-1.02;-1.02;-1.02	4.25	2.38	0.29361	Folate receptor-like (1);	0.000000	0.85682	D	0.000000	D	0.88976	0.6584	M	0.93678	3.445	0.39744	D	0.971793	D	0.89917	1.0	D	0.97110	1.0	D	0.88102	0.2820	10	0.56958	D	0.05	.	8.6185	0.33847	0.0:0.8112:0.0:0.1888	.	53	P14207	FOLR2_HUMAN	T	70;53;70;12;99;64;68;53;66;53	ENSP00000405638:P70T;ENSP00000298223:P53T;ENSP00000414094:P12T;ENSP00000443307:P99T;ENSP00000441547:P64T;ENSP00000438568:P68T;ENSP00000444794:P53T;ENSP00000321957:P66T;ENSP00000440337:P53T	ENSP00000298223:P53T	P	+	1	0	FOLR2	71609568	0.920000	0.31207	0.934000	0.37439	0.977000	0.68977	3.796000	0.55507	0.435000	0.26365	0.455000	0.32223	CCC		0.587	FOLR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317923.2	NM_000803		A	71931920	C	A	71931920	3	1	695	1	0	0	0	0	1	0	0	0	5989	855	30	4	163	4	FOLR2	11	71931920	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	7250363	71931920	63074596	83	45409										
BARX2	8538	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	129321185	129321185	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ctctcaggggcaggaggagcTctgtgaagcacaggaaccga	15	10	2	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr11:129321185T>A	ENST00000281437.4	+	4	824	c.728T>A	c.(727-729)cTc>cAc	p.L243H	BARX2_ENST00000526127.1_Missense_Mutation_p.L98H|BARX2_ENST00000531946.1_Missense_Mutation_p.L121H	NM_003658.4	NP_003649.2	Q9UMQ3	BARX2_HUMAN	BARX homeobox 2	243					cartilage condensation (GO:0001502)|catagen (GO:0042637)|myotube differentiation (GO:0014902)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)			breast(1)|central_nervous_system(1)|large_intestine(4)|lung(7)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	20	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)		CAGGAGGAGCTCTGTGAAGCA	0.582																																																0													72	66	68					11																	129321185		2201	4297	6498	SO:0001583	missense	8538			AF031924	CCDS8481.1	11q24.3	2011-06-20	2007-07-09		ENSG00000043039	ENSG00000043039		"Homeoboxes / ANTP class : NKL subclass"	956	protein-coding gene	gene with protein product		604823	"BarH-like homeobox 2"			10644443	Standard	NM_003658		Approved		uc001qfc.4	Q9UMQ3	OTTHUMG00000165776	ENST00000281437.4:c.728T>A	11.37:g.129321185T>A	ENSP00000281437:p.Leu243His	Somatic		WXS	Illumina HiSeq	Phase_I	O43518|Q6NT51	Missense_Mutation	SNP	ENST00000281437.4	37	CCDS8481.1	.	.	.	.	.	.	.	.	.	.	T	18.48	3.632445	0.67015	.	.	ENSG00000043039	ENST00000281437;ENST00000526127;ENST00000531946	D;D;D	0.90385	-2.66;-2.27;-2.27	5.51	-1.59	0.08453	.	0.906017	0.09601	N	0.780189	D	0.83769	0.5326	L	0.29908	0.895	0.09310	N	0.999999	P	0.45348	0.856	B	0.40101	0.319	T	0.72701	-0.4214	10	0.41790	T	0.15	.	12.1971	0.54303	0.0:0.6898:0.0:0.3102	.	243	Q9UMQ3	BARX2_HUMAN	H	243;98;121	ENSP00000281437:L243H;ENSP00000451113:L98H;ENSP00000450418:L121H	ENSP00000281437:L243H	L	+	2	0	BARX2	128826395	0.188000	0.23250	0.043000	0.18650	0.326000	0.28443	0.364000	0.20325	-0.288000	0.09051	0.533000	0.62120	CTC		0.582	BARX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386153.1	NM_003658		A	129321185	T	A	129321185	3	1	695	1	0	0	0	0	1	0	0	0	1316	1551	54	5	742	5	BARX2	11	129321185	Missense_Mutation	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10	57389265	129321185	5685331	84	45410										
GLS2	27165	ucsc.edu	37	chr12	56865334	56865334	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gctgcctcagcctgagtttcAgagagtgtgtaggagtcctg	14	9	2	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr12:56865334A>G	ENST00000311966.4	-	18	2024	c.1746T>C	c.(1744-1746)tcT>tcC	p.S582S	MIP_ENST00000555551.1_5'Flank|GLS2_ENST00000476991.1_5'Flank	NM_013267.2	NP_037399.2	Q9UI32	GLSL_HUMAN	glutaminase 2 (liver, mitochondrial)	582					cellular amino acid biosynthetic process (GO:0008652)|cellular amino acid metabolic process (GO:0006520)|cellular nitrogen compound metabolic process (GO:0034641)|glutamate secretion (GO:0014047)|glutamine metabolic process (GO:0006541)|neurotransmitter secretion (GO:0007269)|reactive oxygen species metabolic process (GO:0072593)|regulation of apoptotic process (GO:0042981)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	glutaminase activity (GO:0004359)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(4)|ovary(1)|stomach(1)|urinary_tract(1)	13					L-Glutamine(DB00130)	CCTGAGTTTCAGAGAGTGTGT	0.517																																																0													72	63	66					12																	56865334		2203	4300	6503	SO:0001819	synonymous_variant	27165				CCDS8921.1, CCDS73482.1	12q13	2013-01-10			ENSG00000135423	ENSG00000135423		"Ankyrin repeat domain containing"	29570	protein-coding gene	gene with protein product		606365				11130979, 10620514	Standard	NM_013267		Approved	GA, GLS, LGA, hLGA	uc001slj.3	Q9UI32	OTTHUMG00000140379	ENST00000311966.4:c.1746T>C	12.37:g.56865334A>G		Somatic		WXS	Illumina HiSeq		B7Z8Q9|Q8IX91|Q9NYY2|Q9UI31	Silent	SNP	ENST00000311966.4	37	CCDS8921.1																																																																																				0.517	GLS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277113.1	NM_013267		G	56865334	A	G	56865334	2	3	695	1	0	0	0	0	0	0	0	1	6471	175	7	3		3	GLS2	12	56865334	Silent	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10		56865334	76986561	85	45411										
SHMT2	6472	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	57624649	57624649	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ctcagcacagcaacgcagccCagactcagactggggaagca	11	14	2	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr12:57624649C>G	ENST00000328923.3	+	2	549	c.97C>G	c.(97-99)Cag>Gag	p.Q33E	SHMT2_ENST00000449049.3_Missense_Mutation_p.Q12E|SHMT2_ENST00000554600.1_3'UTR|SHMT2_ENST00000414700.3_Missense_Mutation_p.Q12E|SHMT2_ENST00000553474.1_Missense_Mutation_p.Q12E|SHMT2_ENST00000393827.4_5'UTR|SHMT2_ENST00000557487.1_Missense_Mutation_p.Q33E|Y_RNA_ENST00000365197.1_RNA	NM_001166356.1|NM_005412.5	NP_001159828.1|NP_005403.2	P34897	GLYM_HUMAN	serine hydroxymethyltransferase 2 (mitochondrial)	33					glycine biosynthetic process from serine (GO:0019264)|L-serine biosynthetic process (GO:0006564)|one-carbon metabolic process (GO:0006730)|positive regulation of cell proliferation (GO:0008284)|protein homotetramerization (GO:0051289)|tetrahydrofolate interconversion (GO:0035999)	extracellular vesicular exosome (GO:0070062)|microtubule cytoskeleton (GO:0015630)|mitochondrial inner membrane (GO:0005743)|mitochondrial intermembrane space (GO:0005758)|mitochondrial matrix (GO:0005759)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)	amino acid binding (GO:0016597)|chromatin binding (GO:0003682)|glycine hydroxymethyltransferase activity (GO:0004372)|L-allo-threonine aldolase activity (GO:0008732)|pyridoxal phosphate binding (GO:0030170)			breast(1)|central_nervous_system(1)|large_intestine(4)|liver(2)|lung(3)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	15					Glycine(DB00145)|Tetrahydrofolic acid(DB00116)	CAACGCAGCCCAGACTCAGAC	0.582																																					Esophageal Squamous(150;1369 2416 49071 49364)											0													92	77	82					12																	57624649		2203	4300	6503	SO:0001583	missense	6472			AK223555	CCDS8934.1, CCDS53805.1, CCDS55837.1	12q12-q14	2006-03-27				ENSG00000182199	2.1.2.1		10852	protein-coding gene	gene with protein product		138450		SHMT		8999870	Standard	NM_005412		Approved		uc001snf.2	P34897		ENST00000328923.3:c.97C>G	12.37:g.57624649C>G	ENSP00000333667:p.Gln33Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z9F1|E7EQ19|E7EU43|O00740|Q8N1A5	Missense_Mutation	SNP	ENST00000328923.3	37	CCDS8934.1	.	.	.	.	.	.	.	.	.	.	C	8.946	0.966931	0.18659	.	.	ENSG00000182199	ENST00000328923;ENST00000557487;ENST00000556689;ENST00000414700;ENST00000557703;ENST00000553529;ENST00000554310;ENST00000557427;ENST00000553474;ENST00000555773;ENST00000554975;ENST00000449049;ENST00000556737	T;T;T;T;T	0.28895	1.59;1.59;1.59;1.59;1.59	4.81	3.85	0.44370	.	0.335256	0.29537	N	0.011879	T	0.10551	0.0258	N	0.08118	0	0.80722	D	1	B;B	0.11235	0.004;0.002	B;B	0.12837	0.008;0.005	T	0.31586	-0.9938	10	0.02654	T	1	-12.6294	3.4496	0.07493	0.1727:0.5679:0.1666:0.0929	.	33;33	Q8N1A5;P34897	.;GLYM_HUMAN	E	33;33;33;12;12;12;12;12;12;12;12;12;12	ENSP00000333667:Q33E;ENSP00000452315:Q33E;ENSP00000406881:Q12E;ENSP00000452419:Q12E;ENSP00000413770:Q12E	ENSP00000333667:Q33E	Q	+	1	0	SHMT2	55910916	0.139000	0.22563	1.000000	0.80357	0.972000	0.66771	0.472000	0.22116	2.668000	0.90789	0.655000	0.94253	CAG		0.582	SHMT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412525.2	NM_005412		G	57624649	C	G	57624649	3	3	695	1	0	0	0	0	1	0	0	0	14299	595	21	4	103	4	SHMT2	12	57624649	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	759315	57624649	76227246	86	45412										
CCDC41	51134	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	94763803	94763804	+	Frame_Shift_Ins	INS	-	-	T													0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	agtttgtttgaatgtttaagINSttcttttacctgttgataat							TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr12:94763803_94763804insT	ENST00000397809.5	-	9	1491_1492	c.942_943insA	c.(940-945)gaacttfs	p.L315fs	CCDC41_ENST00000547575.1_Frame_Shift_Ins_p.L315fs|CCDC41_ENST00000549352.1_5'UTR|CCDC41_ENST00000397807.2_Frame_Shift_Ins_p.L282fs|CCDC41_ENST00000339839.5_Frame_Shift_Ins_p.L315fs	NM_016122.2	NP_057206.2	Q9Y592	CEP83_HUMAN		307					cilium assembly (GO:0042384)|protein localization to centrosome (GO:0071539)|vesicle docking (GO:0048278)	centriole (GO:0005814)|ciliary transition fiber (GO:0097539)|Golgi apparatus (GO:0005794)				breast(1)|central_nervous_system(3)|kidney(3)|large_intestine(8)|lung(8)|prostate(2)|skin(2)	27						GAATGTTTAAGTTCTTTTACCT	0.332																																																0																																										SO:0001589	frameshift_variant	51134																														ENST00000397809.5:c.943dupA	12.37:g.94763805_94763805dupT	ENSP00000380911:p.Leu315fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4FVB1|Q08AP1	Frame_Shift_Ins	INS	ENST00000397809.5	37	CCDS41820.1																																																																																				0.332	CCDC41-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408147.3			T	94763804	-	T	94763803	7	5	695	1	0	1	1	0	0	0	0	0	2815	1029	36	0	1198	0	CCDC41	12	94763803	Frame_Shift_Ins	INS	-	TCGA-P4-A5E6-01A-11D-A28G-10	37139154	94763803	39088092	87	45413										
C12orf24	29902	hgsc.bcm.edu	37	chr12	110906786	110906786	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	agcgtagctcttctgcagagCcgcccgctgtggccgggacc	14	15	2	1	rs202079205	byFrequency	TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr12:110906786C>T	ENST00000377673.5	+	1	618	c.106C>T	c.(106-108)Ccg>Tcg	p.P36S	GPN3_ENST00000537466.2_5'Flank|GPN3_ENST00000543199.1_5'Flank|GPN3_ENST00000552180.1_5'UTR|GPN3_ENST00000228827.3_5'Flank	NM_013300.2	NP_037432.2	Q8WUB2	F216A_HUMAN	family with sequence similarity 216, member A	36																	TTCTGCAGAGCCGCCCGCTGT	0.771													C|||	12	0.00239617	0.0091	0.0	5008	,	,		13111	0.0		0.0	False		,,,				2504	0.0															0								C	SER/PRO	24,3054		0,24,1515	2	2	2		106	3.3	0.1	12		2	0,6186		0,0,3093	yes	missense	C12orf24	NM_013300.2	74	0,24,4608	TT,TC,CC		0.0,0.7797,0.2591	probably-damaging	36/274	110906786	24,9240	1539	3093	4632	SO:0001583	missense	29902			U79274	CCDS31899.1	12q24.11	2012-02-07	2012-02-07	2012-02-07	ENSG00000204856	ENSG00000204856			30180	protein-coding gene	gene with protein product			"chromosome 12 open reading frame 24"	C12orf24			Standard	NM_013300		Approved	HSU79274	uc001tqu.4	Q8WUB2	OTTHUMG00000169526	ENST00000377673.5:c.106C>T	12.37:g.110906786C>T	ENSP00000366901:p.Pro36Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NH30|Q99776	Missense_Mutation	SNP	ENST00000377673.5	37	CCDS31899.1	.	.	.	.	.	.	.	.	.	.	C	21.6	4.171608	0.78452	0.007797	0.0	ENSG00000204856	ENST00000377673;ENST00000538285	T	0.51071	0.72	4.16	3.27	0.37495	.	0.000000	0.39544	N	0.001336	T	0.32645	0.0836	L	0.56769	1.78	0.27811	N	0.942126	B;B	0.30709	0.291;0.129	B;B	0.26693	0.072;0.031	T	0.41645	-0.9497	10	0.87932	D	0	-0.6948	9.2806	0.37727	0.0:0.8974:0.0:0.1026	.	36;36	F5GZE4;Q8WUB2	.;CL024_HUMAN	S	36	ENSP00000366901:P36S	ENSP00000366901:P36S	P	+	1	0	C12orf24	109391169	0.943000	0.32029	0.132000	0.22025	0.895000	0.52256	2.944000	0.49034	1.096000	0.41439	0.462000	0.41574	CCG		0.771	FAM216A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404616.1	NM_013300		T	110906786	C	T	110906786	3	4	695	1	0	0	0	0	1	0	0	0	1680	739	26	2	108	2	C12orf24	12	110906786	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	16142983	110906786	22945109	88	45414										
TPCN1	53373	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	113715129	113715129	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gtgccagggagcgctatcttAccttcaaggccctgaatcag	11	12	3	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr12:113715129A>C	ENST00000335509.6	+	12	1458	c.1144A>C	c.(1144-1146)Acc>Ccc	p.T382P	TPCN1_ENST00000541517.1_Missense_Mutation_p.T454P|TPCN1_ENST00000550785.1_Missense_Mutation_p.T454P|TPCN1_ENST00000392569.4_Missense_Mutation_p.T314P	NM_017901.4	NP_060371.2	Q9ULQ1	TPC1_HUMAN	two pore segment channel 1	382					calcium ion transport (GO:0006816)|ion transmembrane transport (GO:0034220)|membrane depolarization during action potential (GO:0086010)|transmembrane transport (GO:0055085)	endosome membrane (GO:0010008)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|plasma membrane (GO:0005886)	identical protein binding (GO:0042802)|NAADP-sensitive calcium-release channel activity (GO:0072345)|voltage-gated calcium channel activity (GO:0005245)			cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(16)|ovary(2)|prostate(3)|skin(3)|urinary_tract(1)	40						GCGCTATCTTACCTTCAAGGC	0.577																																																0													63	61	62					12																	113715129		2203	4300	6503	SO:0001583	missense	53373			AB032995	CCDS31908.1, CCDS44985.1	12q24.21	2011-07-05			ENSG00000186815	ENSG00000186815		"Voltage-gated ion channels / Two-pore channels"	18182	protein-coding gene	gene with protein product		609666				10574461, 10753632, 16382101	Standard	XM_005253905		Approved	KIAA1169, FLJ20612, TPC1	uc001tux.3	Q9ULQ1	OTTHUMG00000169625	ENST00000335509.6:c.1144A>C	12.37:g.113715129A>C	ENSP00000335300:p.Thr382Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A7E258|Q86XS9|Q8NC20	Missense_Mutation	SNP	ENST00000335509.6	37	CCDS31908.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	14.30|14.30	2.494445|2.494445	0.44352|0.44352	.|.	.|.	ENSG00000186815|ENSG00000186815	ENST00000335509;ENST00000550785;ENST00000541517;ENST00000392569|ENST00000546781	D;D;D;D|.	0.97066|.	-4.12;-4.23;-4.23;-4.17|.	5.25|5.25	4.11|4.11	0.48088|0.48088	.|.	0.051926|.	0.85682|.	D|.	0.000000|.	T|T	0.56834|0.56834	0.2012|0.2012	L|L	0.47716|0.47716	1.5|1.5	0.50813|0.50813	D|D	0.999894|0.999894	D;D;D|.	0.76494|.	0.999;0.999;0.994|.	D;D;P|.	0.66196|.	0.942;0.931;0.795|.	T|T	0.52170|0.52170	-0.8611|-0.8611	10|5	0.37606|.	T|.	0.19|.	-8.6888|-8.6888	9.5973|9.5973	0.39582|0.39582	0.9198:0.0:0.0802:0.0|0.9198:0.0:0.0802:0.0	.|.	382;454;382|.	A5PKY2;Q9ULQ1-3;Q9ULQ1|.	.;.;TPC1_HUMAN|.	P|S	382;454;454;314|68	ENSP00000335300:T382P;ENSP00000448083:T454P;ENSP00000438125:T454P;ENSP00000376350:T314P|.	ENSP00000335300:T382P|.	T|Y	+|+	1|2	0|0	TPCN1|TPCN1	112199512|112199512	1.000000|1.000000	0.71417|0.71417	0.133000|0.133000	0.22050|0.22050	0.178000|0.178000	0.23041|0.23041	7.773000|7.773000	0.85462|0.85462	1.010000|1.010000	0.39314|0.39314	-0.363000|-0.363000	0.07495|0.07495	ACC|TAC		0.577	TPCN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405156.3	NM_017901		C	113715129	A	C	113715129	3	2	695	1	0	0	0	0	1	0	0	0	16407	391	14	5	1406	5	TPCN1	12	113715129	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	2808343	113715129	20136766	89	45415										
CLYBL	171425	hgsc.bcm.edu	37	chr13	100258999	100258999	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gcgcggagctgcggcggcggCgctgctgaggctgtgagtgc	21	11	0	2	rs200020595		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr13:100258999C>T	ENST00000376360.1	+	1	77	c.50C>T	c.(49-51)gCg>gTg	p.A17V	CLYBL_ENST00000339105.4_Missense_Mutation_p.A17V|CLYBL_ENST00000376354.1_Missense_Mutation_p.A17V|CLYBL_ENST00000376355.3_Missense_Mutation_p.A17V|CLYBL_ENST00000444838.2_Missense_Mutation_p.A17V			Q8N0X4	CLYBL_HUMAN	citrate lyase beta like	17						mitochondrion (GO:0005739)	lyase activity (GO:0016829)|metal ion binding (GO:0046872)			NS(1)|kidney(6)|large_intestine(6)|lung(10)|skin(2)	25	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					GCGGCGGCGGCGCTGCTGAGG	0.776																																																0													6	8	7					13																	100258999		1843	3595	5438	SO:0001583	missense	171425			AF428253	CCDS32002.1	13q32.3	2011-04-08			ENSG00000125246	ENSG00000125246			18355	protein-coding gene	gene with protein product		609686					Standard	XM_005254030		Approved	CLB	uc001vok.3	Q8N0X4	OTTHUMG00000017278	ENST00000376360.1:c.50C>T	13.37:g.100258999C>T	ENSP00000365538:p.Ala17Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5W0F7|Q8TDH8	Missense_Mutation	SNP	ENST00000376360.1	37	CCDS32002.1	.	.	.	.	.	.	.	.	.	.	C	11.61	1.689931	0.29962	.	.	ENSG00000125246	ENST00000376355;ENST00000376360;ENST00000444838;ENST00000376354;ENST00000339105	T;T;T;T;T	0.24350	1.86;1.88;1.86;1.86;1.88	3.41	1.64	0.23874	.	0.599921	0.15592	N	0.254333	T	0.10766	0.0263	N	0.08118	0	0.22552	N	0.998997	B;B;B	0.15719	0.014;0.01;0.003	B;B;B	0.10450	0.002;0.005;0.001	T	0.30357	-0.9981	10	0.23302	T	0.38	.	5.6733	0.17735	0.0:0.7452:0.0:0.2548	.	17;17;17	B4DU60;Q8N0X4-2;Q8N0X4	.;.;CLYBL_HUMAN	V	17	ENSP00000365533:A17V;ENSP00000365538:A17V;ENSP00000404768:A17V;ENSP00000365532:A17V;ENSP00000342991:A17V	ENSP00000342991:A17V	A	+	2	0	CLYBL	99057000	0.995000	0.38212	1.000000	0.80357	0.521000	0.34408	0.074000	0.14662	0.436000	0.26393	0.313000	0.20887	GCG		0.776	CLYBL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045611.1			T	100258999	C	T	100258999	3	4	695	1	0	0	0	0	1	0	0	0	3575	768	27	1	52	1	CLYBL	13	100258999	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10		100258999	14910879	90	45416										
MYH7	4625	ucsc.edu;bcgsc.ca	37	chr14	23898982	23898982	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cccaagaatccctgcctcccAccttcagtgccgtctggctc	7	19	2	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr14:23898982A>G	ENST00000355349.3	-	12	1301		c.e12+1			NM_000257.2	NP_000248.2	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta						adult heart development (GO:0007512)|ATP catabolic process (GO:0006200)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|regulation of heart rate (GO:0002027)|regulation of the force of heart contraction (GO:0002026)|striated muscle contraction (GO:0006941)|ventricular cardiac muscle tissue morphogenesis (GO:0055010)	cytoplasm (GO:0005737)|focal adhesion (GO:0005925)|muscle myosin complex (GO:0005859)|myosin complex (GO:0016459)|myosin filament (GO:0032982)|nucleus (GO:0005634)|sarcomere (GO:0030017)|stress fiber (GO:0001725)|Z disc (GO:0030018)	actin-dependent ATPase activity (GO:0030898)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microfilament motor activity (GO:0000146)			NS(3)|breast(4)|central_nervous_system(2)|cervix(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(5)|large_intestine(19)|lung(57)|ovary(5)|prostate(9)|skin(5)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(5)	137	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		CCTGCCTCCCACCTTCAGTGC	0.502																																																0													74	70	71					14																	23898982		2203	4300	6503	SO:0001630	splice_region_variant	4625			M58018	CCDS9601.1	14q11.2-q13	2014-09-17	2006-09-29		ENSG00000092054	ENSG00000092054		"Myosins / Myosin superfamily : Class II"	7577	protein-coding gene	gene with protein product		160760	"myopathy, distal 1", "myosin, heavy polypeptide 7, cardiac muscle, beta"	CMH1, MPD1		2494889, 8483915, 15322983	Standard	XM_005267696		Approved	CMD1S	uc001wjx.3	P12883	OTTHUMG00000028755	ENST00000355349.3:c.1138+1T>C	14.37:g.23898982A>G		Somatic		WXS	Illumina HiSeq		A2TDB6|B6D424|Q14836|Q14837|Q14904|Q16579|Q2M1Y6|Q92679|Q9H1D5|Q9UDA2|Q9UMM8	Splice_Site	SNP	ENST00000355349.3	37	CCDS9601.1	.	.	.	.	.	.	.	.	.	.	a	19.39	3.817501	0.70912	.	.	ENSG00000092054	ENST00000355349;ENST00000544444	.	.	.	3.08	3.08	0.35506	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	11.4148	0.49945	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	MYH7	22968822	1.000000	0.71417	0.819000	0.32651	0.554000	0.35429	5.627000	0.67784	1.262000	0.44165	0.375000	0.23000	.		0.502	MYH7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071798.3	NM_000257	Intron	G	23898982	A	G	23898982	5	3	695	1	0	0	0	0	0	0	1	0	10046	173	6	3	4783	3	MYH7	14	23898982	Splice_Site	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10		23898982	83450558	91	45417										
LGALS3	3958	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	55604955	55604955	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ctggagcacctggagcttatCccggagcacctgcacctgga	12	14	0	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr14:55604955C>T	ENST00000254301.9	+	3	472	c.211C>T	c.(211-213)Ccc>Tcc	p.P71S	LGALS3_ENST00000554715.1_Missense_Mutation_p.P71S|LGALS3_ENST00000553755.1_3'UTR	NM_002306.3	NP_002297.2	P17931	LEG3_HUMAN	lectin, galactoside-binding, soluble, 3	71	8 X 9 AA tandem repeats of Y-P-G-X(3)-P- G-A.				eosinophil chemotaxis (GO:0048245)|epithelial cell differentiation (GO:0030855)|extracellular matrix organization (GO:0030198)|innate immune response (GO:0045087)|macrophage chemotaxis (GO:0048246)|monocyte chemotaxis (GO:0002548)|mononuclear cell migration (GO:0071674)|mRNA processing (GO:0006397)|negative regulation of endocytosis (GO:0045806)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of immunological synapse formation (GO:2000521)|negative regulation of T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell (GO:2001189)|negative regulation of T cell receptor signaling pathway (GO:0050860)|neutrophil chemotaxis (GO:0030593)|positive chemotaxis (GO:0050918)|positive regulation of calcium ion import (GO:0090280)|positive regulation of mononuclear cell migration (GO:0071677)|regulation of extrinsic apoptotic signaling pathway via death domain receptors (GO:1902041)|regulation of T cell apoptotic process (GO:0070232)|regulation of T cell proliferation (GO:0042129)|RNA splicing (GO:0008380)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|external side of plasma membrane (GO:0009897)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|immunological synapse (GO:0001772)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|proteinaceous extracellular matrix (GO:0005578)|spliceosomal complex (GO:0005681)	carbohydrate binding (GO:0030246)|chemoattractant activity (GO:0042056)|IgE binding (GO:0019863)|laminin binding (GO:0043236)|poly(A) RNA binding (GO:0044822)			central_nervous_system(1)|endometrium(1)|prostate(1)	3						TGGAGCTTATCCCGGAGCACC	0.682																																																0													21	24	23					14																	55604955		1813	4069	5882	SO:0001583	missense	3958			M64303	CCDS41956.1	14q22.3	2014-03-19	2007-02-01		ENSG00000131981	ENSG00000131981		"Lectins, galactoside-binding", "Endogenous ligands"	6563	protein-coding gene	gene with protein product	"galectin 3"	153619		LGALS2		2009535, 8063692	Standard	NR_003225		Approved	MAC-2, GALIG	uc001xbr.3	P17931	OTTHUMG00000171030	ENST00000254301.9:c.211C>T	14.37:g.55604955C>T	ENSP00000254301:p.Pro71Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RC38|Q16005|Q6IBA7|Q96J47	Missense_Mutation	SNP	ENST00000254301.9	37	CCDS41956.1	.	.	.	.	.	.	.	.	.	.	C	7.633	0.679349	0.14907	.	.	ENSG00000131981	ENST00000553493;ENST00000254301;ENST00000554715	T;T;T	0.74315	-0.83;3.24;2.45	5.35	4.45	0.53987	.	0.209237	0.50627	N	0.000111	T	0.77751	0.4177	M	0.86178	2.8	0.45662	D	0.998582	B	0.11235	0.004	B	0.16722	0.016	T	0.73830	-0.3859	10	0.62326	D	0.03	.	14.3618	0.66776	0.0:0.921:0.0:0.079	.	71	P17931	LEG3_HUMAN	S	71	ENSP00000451526:P71S;ENSP00000254301:P71S;ENSP00000451381:P71S	ENSP00000254301:P71S	P	+	1	0	LGALS3	54674708	0.991000	0.36638	0.823000	0.32752	0.087000	0.18053	2.632000	0.46511	0.647000	0.30713	-0.797000	0.03246	CCC		0.682	LGALS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411309.1	NM_002306		T	55604955	C	T	55604955	3	4	695	1	0	0	0	0	1	0	0	0	8750	855	30	2	217	2	LGALS3	14	55604955	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	31705973	55604955	51744585	92	45418										
ZFYVE26	23503	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	68268851	68268851	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gctgaggccaggtcctcagaGaggctgtctttgcagtcctg	14	11	2	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr14:68268851G>T	ENST00000347230.4	-	10	1722	c.1584C>A	c.(1582-1584)ctC>ctA	p.L528L	ZFYVE26_ENST00000555452.1_Silent_p.L528L	NM_015346.3	NP_056161.2	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	528					cell death (GO:0008219)|cytokinesis (GO:0000910)|double-strand break repair via homologous recombination (GO:0000724)	centrosome (GO:0005813)|lysosomal membrane (GO:0005765)|midbody (GO:0030496)	metal ion binding (GO:0046872)|phosphatidylinositol-3-phosphate binding (GO:0032266)			NS(1)|breast(3)|cervix(1)|endometrium(6)|kidney(8)|large_intestine(8)|lung(39)|ovary(12)|pancreas(1)|prostate(7)|skin(3)|stomach(1)|upper_aerodigestive_tract(4)	94				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		GGTCCTCAGAGAGGCTGTCTT	0.537																																																0													139	126	130					14																	68268851		2203	4300	6503	SO:0001819	synonymous_variant	23503			AB002319	CCDS9788.1	14q23.3	2012-11-23				ENSG00000072121		"Zinc fingers, FYVE domain containing"	20761	protein-coding gene	gene with protein product	"spastizin", "FYVE-CENT"	612012	"spastic paraplegia 15 (complicated, autosomal recessive)"	SPG15		9205841, 18394578	Standard	NM_015346		Approved	KIAA0321	uc001xka.2	Q68DK2		ENST00000347230.4:c.1584C>A	14.37:g.68268851G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B1B5Y3|B4E2U3|O15035|Q68DT9|Q6AW90|Q6ZR50|Q7Z3A4|Q7Z3I1|Q8N4W7	Silent	SNP	ENST00000347230.4	37	CCDS9788.1																																																																																				0.537	ZFYVE26-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412736.2	NM_015346		T	68268851	G	T	68268851	2	4	695	1	0	0	0	0	0	0	0	1	17680	929	33	4		4	ZFYVE26	14	68268851	Silent	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	12663896	68268851	39080689	93	45419										
GPR65	8477	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	88478074	88478074	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ttctgtactgttttgtaaccGaaacaggaagatatgatatg	9	5	1	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr14:88478074G>A	ENST00000267549.3	+	2	1441	c.883G>A	c.(883-885)Gaa>Aaa	p.E295K	RP11-300J18.2_ENST00000554433.1_RNA	NM_003608.3	NP_003599.2	Q8IYL9	PSYR_HUMAN	G protein-coupled receptor 65	295					actin cytoskeleton reorganization (GO:0031532)|activation of Rho GTPase activity (GO:0032862)|apoptotic process (GO:0006915)|G-protein coupled receptor signaling pathway (GO:0007186)|immune response (GO:0006955)|multicellular organismal development (GO:0007275)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of stress fiber assembly (GO:0051496)|response to acidic pH (GO:0010447)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(8)|prostate(1)	16						TTTTGTAACCGAAACAGGAAG	0.353																																																0													95	90	91					14																	88478074		2203	4300	6503	SO:0001583	missense	8477			U95218	CCDS9879.1	14q31-q32.1	2012-08-21			ENSG00000140030	ENSG00000140030		"GPCR / Class A : Orphans"	4517	protein-coding gene	gene with protein product		604620				9655242	Standard	NM_003608		Approved	hTDAG8, TDAG8	uc001xvv.3	Q8IYL9	OTTHUMG00000028648	ENST00000267549.3:c.883G>A	14.37:g.88478074G>A	ENSP00000267549:p.Glu295Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O75819	Missense_Mutation	SNP	ENST00000267549.3	37	CCDS9879.1	.	.	.	.	.	.	.	.	.	.	G	31	5.063367	0.93898	.	.	ENSG00000140030	ENST00000267549	T	0.30714	1.52	5.98	5.98	0.97165	.	0.000000	0.56097	D	0.000037	T	0.33556	0.0867	N	0.08118	0	0.44417	D	0.99733	D	0.71674	0.998	P	0.58820	0.846	T	0.20009	-1.0288	10	0.29301	T	0.29	.	20.4581	0.99154	0.0:0.0:1.0:0.0	.	295	Q8IYL9	PSYR_HUMAN	K	295	ENSP00000267549:E295K	ENSP00000267549:E295K	E	+	1	0	GPR65	87547827	1.000000	0.71417	0.654000	0.29608	0.919000	0.55068	6.201000	0.72124	2.835000	0.97688	0.650000	0.86243	GAA		0.353	GPR65-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071564.4			A	88478074	G	A	88478074	3	1	695	1	0	0	0	0	1	0	0	0	6713	1059	37	1	885	1	GPR65	14	88478074	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	20209223	88478074	18871466	94	45420										
PPP4R4	57718	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	94733352	94733352	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	agggttaggaaagacttctgTgctttcactagctggtaagt	12	6	2	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr14:94733352T>A	ENST00000304338.3	+	23	2589	c.2435T>A	c.(2434-2436)gTg>gAg	p.V812E		NM_058237.1	NP_478144.1	Q6NUP7	PP4R4_HUMAN	protein phosphatase 4, regulatory subunit 4	812					negative regulation of phosphoprotein phosphatase activity (GO:0032515)|regulation of protein serine/threonine phosphatase activity (GO:0080163)	cytoplasm (GO:0005737)|protein serine/threonine phosphatase complex (GO:0008287)	protein phosphatase regulator activity (GO:0019888)			NS(1)|breast(2)|central_nervous_system(1)|kidney(2)|large_intestine(15)|lung(10)|skin(7)|upper_aerodigestive_tract(2)	40						AAGACTTCTGTGCTTTCACTA	0.299																																																0													80	78	79					14																	94733352		2202	4295	6497	SO:0001583	missense	57718			AB046842, BC068491	CCDS9921.1, CCDS9922.1	14q32.2	2014-07-18	2008-09-16	2008-09-16	ENSG00000119698	ENSG00000119698		"Serine/threonine phosphatases / Protein phosphatase 4, regulatory subunits"	23788	protein-coding gene	gene with protein product	"cilia and flagella associated protein 14"		"KIAA1622"	KIAA1622		18715871	Standard	NM_020958		Approved	PP4R4, CFAP14	uc001ycs.1	Q6NUP7		ENST00000304338.3:c.2435T>A	14.37:g.94733352T>A	ENSP00000305924:p.Val812Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BUF8|Q9HCF0	Missense_Mutation	SNP	ENST00000304338.3	37	CCDS9921.1	.	.	.	.	.	.	.	.	.	.	T	10.60	1.395792	0.25205	.	.	ENSG00000119698	ENST00000304338	.	.	.	5.83	4.69	0.59074	.	1.582440	0.03220	N	0.177378	T	0.44871	0.1314	N	0.08118	0	0.80722	D	1	B	0.26258	0.145	B	0.29942	0.109	T	0.23583	-1.0184	9	0.59425	D	0.04	0.0344	9.9904	0.41868	0.0:0.076:0.0:0.924	.	812	Q6NUP7	PP4R4_HUMAN	E	812	.	ENSP00000305924:V812E	V	+	2	0	PPP4R4	93803105	0.906000	0.30813	0.249000	0.24280	0.367000	0.29736	3.233000	0.51311	2.225000	0.72522	0.383000	0.25322	GTG		0.299	PPP4R4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413056.1	NM_058237		A	94733352	T	A	94733352	3	1	695	1	0	0	0	0	1	0	0	0	12415	1696	59	5	2598	5	PPP4R4	14	94733352	Missense_Mutation	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10	6255278	94733352	12616188	95	45421										
KIAA0284	283638	hgsc.bcm.edu	37	chr14	105350539	105350539	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	agcgggagaagacagaggaaCggctgggcagcccctcgccc	16	13	0	3	rs373443985		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr14:105350539C>T	ENST00000414716.3	+	9	1651	c.1423C>T	c.(1423-1425)Cgg>Tgg	p.R475W	CEP170B_ENST00000453495.1_Missense_Mutation_p.R476W|CEP170B_ENST00000418279.1_Missense_Mutation_p.R405W|CEP170B_ENST00000556508.1_Missense_Mutation_p.R405W	NM_001112726.2	NP_001106197.1	Q9Y4F5	C170B_HUMAN	centrosomal protein 170B	475						cytoplasm (GO:0005737)|microtubule (GO:0005874)											GACAGAGGAACGGCTGGGCAG	0.736																																																0								C	TRP/ARG,TRP/ARG	2,3338		0,2,1668	4	7	6		1423,1213	4.1	1	14		6	1,7387		0,1,3693	no	missense,missense	KIAA0284	NM_001112726.2,NM_015005.2	101,101	0,3,5361	TT,TC,CC		0.0135,0.0599,0.028	probably-damaging,probably-damaging	475/1555,405/1520	105350539	3,10725	1670	3694	5364	SO:0001583	missense	283638			AB006622	CCDS45175.1, CCDS45176.1, CCDS45176.2	14q32.33	2014-02-20	2012-11-30	2012-11-30	ENSG00000099814	ENSG00000099814			20362	protein-coding gene	gene with protein product	"Cep170-related"		"KIAA0284"	KIAA0284		23087211	Standard	NM_015005		Approved	FAM68C, Cep170R	uc010axb.4	Q9Y4F5	OTTHUMG00000170763	ENST00000414716.3:c.1423C>T	14.37:g.105350539C>T	ENSP00000404151:p.Arg475Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q2KHR7|Q86TI7	Missense_Mutation	SNP	ENST00000414716.3	37	CCDS45175.1	.	.	.	.	.	.	.	.	.	.	C	18.77	3.695399	0.68386	5.99E-4	1.35E-4	ENSG00000099814	ENST00000556508;ENST00000414716;ENST00000453495;ENST00000418279	T;T;T;T	0.51574	0.71;0.7;0.71;0.71	4.09	4.09	0.47781	.	0.577739	0.16725	N	0.202119	T	0.61751	0.2372	L	0.49350	1.555	0.52501	D	0.999953	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.87578	0.998;0.995;0.989	T	0.62845	-0.6768	10	0.62326	D	0.03	-12.0906	12.3112	0.54929	0.1701:0.8299:0.0:0.0	.	475;475;405	Q9Y4F5-2;Q9Y4F5;E9PFC1	.;K0284_HUMAN;.	W	405;475;476;405	ENSP00000451249:R405W;ENSP00000404151:R475W;ENSP00000407238:R476W;ENSP00000415006:R405W	ENSP00000404151:R475W	R	+	1	2	KIAA0284	104421584	0.739000	0.28196	0.982000	0.44146	0.376000	0.30014	1.841000	0.39240	1.813000	0.52934	0.313000	0.20887	CGG		0.736	CEP170B-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000410289.2	NM_001112726		T	105350539	C	T	105350539	3	4	695	1	0	0	0	0	1	0	0	0	8173	527	19	1	1453	1	KIAA0284	14	105350539	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	10617187	105350539	1999001	96	45422										
C15orf2	23742	hgsc.bcm.edu	37	chr15	24923447	24923447	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	actttagtgagcagtgcctcTgcagcatcgttatccaagcc	9	12	1	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr15:24923447T>A	ENST00000329468.2	+	1	2907	c.2433T>A	c.(2431-2433)tcT>tcA	p.S811S		NM_018958.2	NP_061831.2	Q9NZP6	NPAP1_HUMAN	nuclear pore associated protein 1	811					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)											GCAGTGCCTCTGCAGCATCGT	0.522																																																0													138	133	135					15																	24923447		2203	4300	6503	SO:0001819	synonymous_variant	23742			AF179681	CCDS10015.1	15q11-q13	2012-07-19	2012-06-14	2012-06-14	ENSG00000185823	ENSG00000185823			1190	protein-coding gene	gene with protein product		610922	"chromosome 15 open reading frame 2"	C15orf2		10783265, 22694955	Standard	NM_018958		Approved		uc001ywo.3	Q9NZP6	OTTHUMG00000129179	ENST00000329468.2:c.2433T>A	15.37:g.24923447T>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000329468.2	37	CCDS10015.1																																																																																				0.522	NPAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251253.1	NM_018958		A	24923447	T	A	24923447	2	1	695	1	0	0	0	0	0	0	0	1	1786	1567	55	5		5	C15orf2	15	24923447	Silent	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10		24923447	77607945	97	45423										
OTUD7A	161725	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	31818596	31818596	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ctgaagtgtgtgcgcggctcGctggaggccagcttcagcag	16	11	1	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr15:31818596G>A	ENST00000307050.4	-	6	920	c.828C>T	c.(826-828)agC>agT	p.S276S	OTUD7A_ENST00000382902.1_Silent_p.S283S	NM_130901.1	NP_570971.1	Q8TE49	OTU7A_HUMAN	OTU deubiquitinase 7A	276	Catalytic. {ECO:0000250}.|OTU. {ECO:0000255|PROSITE- ProRule:PRU00139}.|TRAF-binding. {ECO:0000250}.				protein K11-linked deubiquitination (GO:0035871)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|ubiquitin-specific protease activity (GO:0004843)|zinc ion binding (GO:0008270)			endometrium(7)|large_intestine(4)|lung(11)|pancreas(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(4)	30		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		TGCGCGGCTCGCTGGAGGCCA	0.677																																																0													37	34	35					15																	31818596		2202	4300	6502	SO:0001819	synonymous_variant	161725			AJ430383	CCDS10026.1	15q13.1	2014-02-24	2014-02-24	2006-07-07	ENSG00000169918	ENSG00000169918		"OTU domain containing"	20718	protein-coding gene	gene with protein product		612024	"chromosome 15 open reading frame 16", "OTU domain containing 7", "OTU domain containing 7A"	C15orf16, OTUD7		23827681	Standard	NM_130901		Approved	CEZANNE2	uc001zfq.3	Q8TE49	OTTHUMG00000129275	ENST00000307050.4:c.828C>T	15.37:g.31818596G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IWK5	Silent	SNP	ENST00000307050.4	37	CCDS10026.1																																																																																				0.677	OTUD7A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251393.2	NM_130901		A	31818596	G	A	31818596	2	1	695	1	0	0	0	0	0	0	0	1	11325	1078	38	1		1	OTUD7A	15	31818596	Silent	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	6895149	31818596	70712796	98	45424										
C15orf53	400359	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	38988831	38988831	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ggagctacaaggggcccaagAggacctgggcatttccctct	13	12	1	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr15:38988831A>C	ENST00000318792.1	+	1	33	c.23A>C	c.(22-24)gAg>gCg	p.E8A		NM_207444.2	NP_997327.1	Q8NAA6	CO053_HUMAN	chromosome 15 open reading frame 53	8										endometrium(1)|large_intestine(1)|lung(2)|skin(1)|stomach(1)	6		all_cancers(109;1.75e-13)|all_epithelial(112;1.02e-11)|Lung NSC(122;1.9e-09)|all_lung(180;4.04e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)		GBM - Glioblastoma multiforme(113;8.39e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0321)		GGGGCCCAAGAGGACCTGGGC	0.562																																																0													96	91	93					15																	38988831		2200	4297	6497	SO:0001583	missense	400359				CCDS10048.1	15q14	2007-11-21			ENSG00000175779	ENSG00000175779			33796	protein-coding gene	gene with protein product							Standard	NM_207444		Approved	FLJ35695	uc001zkf.1	Q8NAA6	OTTHUMG00000129841	ENST00000318792.1:c.23A>C	15.37:g.38988831A>C	ENSP00000325144:p.Glu8Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000318792.1	37	CCDS10048.1	.	.	.	.	.	.	.	.	.	.	A	9.365	1.069014	0.20147	.	.	ENSG00000175779	ENST00000318792	T	0.34667	1.35	3.31	-1.66	0.08265	.	.	.	.	.	T	0.23330	0.0564	N	0.08118	0	0.09310	N	1	D	0.54207	0.965	P	0.52554	0.702	T	0.12477	-1.0546	9	0.87932	D	0	.	3.0108	0.06044	0.4664:0.0:0.3378:0.1958	.	8	Q8NAA6	CO053_HUMAN	A	8	ENSP00000325144:E8A	ENSP00000325144:E8A	E	+	2	0	C15orf53	36776123	0.001000	0.12720	0.000000	0.03702	0.074000	0.17049	0.566000	0.23593	-0.349000	0.08274	-0.415000	0.06103	GAG		0.562	C15orf53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252081.1	NM_207444		C	38988831	A	C	38988831	3	2	695	1	0	0	0	0	1	0	0	0	1803	304	11	5	25	5	C15orf53	15	38988831	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	7170235	38988831	63542561	99	45425										
DUOX1	53905	broad.mit.edu	37	chr15	45427438	45427438	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gtggtgctgcccttccagagAagccgctgggaccccgagac	14	14	0	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr15:45427438A>G	ENST00000321429.4	+	6	851	c.444A>G	c.(442-444)agA>agG	p.R148R	DUOX1_ENST00000389037.3_Silent_p.R148R	NM_017434.3	NP_059130.2	Q9NRD9	DUOX1_HUMAN	dual oxidase 1	148	Peroxidase-like; mediates peroxidase activity.				cuticle development (GO:0042335)|cytokine-mediated signaling pathway (GO:0019221)|hormone biosynthetic process (GO:0042446)|hydrogen peroxide biosynthetic process (GO:0050665)|hydrogen peroxide catabolic process (GO:0042744)|oxidation-reduction process (GO:0055114)|response to cAMP (GO:0051591)|superoxide anion generation (GO:0042554)|thyroid hormone generation (GO:0006590)	apical plasma membrane (GO:0016324)|integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)|heme binding (GO:0020037)|NAD(P)H oxidase activity (GO:0016174)|NADP binding (GO:0050661)|peroxidase activity (GO:0004601)			breast(2)|central_nervous_system(1)|endometrium(5)|kidney(5)|large_intestine(13)|lung(16)|ovary(6)|prostate(1)|skin(3)|stomach(4)|upper_aerodigestive_tract(1)	57		all_cancers(109;5.7e-11)|all_epithelial(112;4.65e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;5.77e-18)|GBM - Glioblastoma multiforme(94;5.11e-07)|COAD - Colon adenocarcinoma(120;0.071)|Colorectal(133;0.0717)		CCTTCCAGAGAAGCCGCTGGG	0.721																																																0													16	19	18					15																	45427438		2191	4286	6477	SO:0001819	synonymous_variant	53905			AF213465	CCDS32221.1	15q21	2013-01-10				ENSG00000137857		"EF-hand domain containing"	3062	protein-coding gene	gene with protein product	"NADPH thyroid oxidase 1", "flavoprotein NADPH oxidase", "nicotinamide adenine dinucleotide phosphate oxidase"	606758				10806195	Standard	XM_005254463		Approved	NOXEF1, THOX1, LNOX1	uc001zut.1	Q9NRD9		ENST00000321429.4:c.444A>G	15.37:g.45427438A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NH28|Q14C94|Q6ZMB3|Q6ZR09|Q9NZC1	Silent	SNP	ENST00000321429.4	37	CCDS32221.1																																																																																				0.721	DUOX1-006	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416251.1	NM_017434		G	45427438	A	G	45427438	2	3	695	1	0	0	0	0	0	0	0	1	4802	243	9	3		3	DUOX1	15	45427438	Silent	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	6438607	45427438	57103954	100	45426										
MYO5A	4644	hgsc.bcm.edu;broad.mit.edu	37	chr15	52680095	52680096	+	Missense_Mutation	DNP	AC	AC	CA													0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ttcttttcgagaaatccttcAcactggtattccacctgaaa							TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr15:52680095_52680096AC>CA	ENST00000399231.3	-	14	1925_1926	c.1682_1683GT>TG	c.(1681-1683)tGT>tTG	p.C561L	MYO5A_ENST00000553916.1_Missense_Mutation_p.C561L|MYO5A_ENST00000356338.6_Missense_Mutation_p.C561L|MYO5A_ENST00000399233.2_Missense_Mutation_p.C561L|MYO5A_ENST00000358212.6_Missense_Mutation_p.C561L	NM_000259.3	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA (heavy chain 12, myoxin)	561	Myosin motor.				actin filament-based movement (GO:0030048)|anagen (GO:0042640)|cellular protein metabolic process (GO:0044267)|cellular response to insulin stimulus (GO:0032869)|endoplasmic reticulum localization (GO:0051643)|exocytosis (GO:0006887)|insulin secretion (GO:0030073)|locomotion involved in locomotory behavior (GO:0031987)|long-chain fatty acid biosynthetic process (GO:0042759)|melanin biosynthetic process (GO:0042438)|melanocyte differentiation (GO:0030318)|melanosome transport (GO:0032402)|membrane organization (GO:0061024)|myelination (GO:0042552)|odontogenesis (GO:0042476)|post-Golgi vesicle-mediated transport (GO:0006892)|protein localization to plasma membrane (GO:0072659)|protein transport (GO:0015031)|regulation of inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0031585)|secretory granule localization (GO:0032252)|synapse organization (GO:0050808)|synaptic transmission (GO:0007268)|transport (GO:0006810)|vesicle transport along actin filament (GO:0030050)|vesicle-mediated transport (GO:0016192)|visual perception (GO:0007601)	actomyosin (GO:0042641)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|filopodium tip (GO:0032433)|Golgi apparatus (GO:0005794)|growth cone (GO:0030426)|insulin-responsive compartment (GO:0032593)|intermediate filament (GO:0005882)|melanosome (GO:0042470)|membrane (GO:0016020)|microtubule plus-end (GO:0035371)|myosin complex (GO:0016459)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|photoreceptor outer segment (GO:0001750)|ruffle (GO:0001726)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|microfilament motor activity (GO:0000146)|poly(A) RNA binding (GO:0044822)|Rab GTPase binding (GO:0017137)			breast(4)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(7)|large_intestine(12)|lung(19)|ovary(3)|skin(3)|stomach(1)	57				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		GAAATCCTTCACACTGGTATTC	0.307																																																0																																										SO:0001583	missense	4644				CCDS42037.1, CCDS45262.1	15q21	2014-09-17	2006-09-29		ENSG00000197535	ENSG00000197535		"Myosins / Myosin superfamily : Class V"	7602	protein-coding gene	gene with protein product	"myosin, heavy polypeptide kinase", "myosin heavy chain 12", "myoxin", "myosin V"	160777	"myosin VA (heavy polypeptide 12, myoxin)"	MYH12		8188282, 8022818	Standard	NM_000259		Approved	MYO5, GS1, MYR12	uc002aby.2	Q9Y4I1	OTTHUMG00000137383	ENST00000399231.3:c.1682_1683delinsCA	15.37:g.52680095_52680096delinsCA	ENSP00000382177:p.Cys561Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8MZC5|O60653|Q07902|Q16249|Q9UE30|Q9UE31	Missense_Mutation	DNP	ENST00000399231.3	37	CCDS42037.1																																																																																				0.307	MYO5A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000268102.1	NM_000259		CA	52680096	AC	CA	52680095	3	2	695	1	0	0	0	0	1	0	0	0	10085	157	6	5	3996	5	MYO5A	15	52680095	Missense_Mutation	DNP	AC	TCGA-P4-A5E6-01A-11D-A28G-10	7252657	52680095	49851297	101	45427										
SLCO3A1	28232	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	92647568	92647568	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gagcctggtggggtggctttCtgctctgcggtgccttactc	15	11	2	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr15:92647568C>A	ENST00000318445.6	+	4	1019	c.805C>A	c.(805-807)Ctg>Atg	p.L269M	SLCO3A1_ENST00000424469.2_Missense_Mutation_p.L269M|SLCO3A1_ENST00000555549.1_3'UTR	NM_013272.3	NP_037404.2	Q9UIG8	SO3A1_HUMAN	solute carrier organic anion transporter family, member 3A1	269					sodium-independent organic anion transport (GO:0043252)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			breast(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(6)|pancreas(1)|prostate(1)|skin(2)	25	Lung NSC(78;0.0158)|all_lung(78;0.0255)		BRCA - Breast invasive adenocarcinoma(143;0.0841)		Alprostadil(DB00770)|Aminohippurate(DB00345)|Benzylpenicillin(DB01053)|Conjugated Estrogens(DB00286)|Dinoprost Tromethamine(DB01160)|Dinoprostone(DB00917)|Iloprost(DB01088)|Methotrexate(DB00563)	GGGTGGCTTTCTGCTCTGCGG	0.577																																																0													226	203	211					15																	92647568		2198	4298	6496	SO:0001583	missense	28232			AB031050	CCDS10371.1, CCDS45354.1	15q26	2013-05-22	2003-11-25	2003-11-26	ENSG00000176463	ENSG00000176463		"Solute carriers"	10952	protein-coding gene	gene with protein product		612435	"solute carrier family 21 (organic anion transporter), member 11"	SLC21A11			Standard	NM_001145044		Approved	OATP-D, OATP3A1	uc002bqx.2	Q9UIG8	OTTHUMG00000149846	ENST00000318445.6:c.805C>A	15.37:g.92647568C>A	ENSP00000320634:p.Leu269Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4A7|B3KPY5|B3KUR7|C6G486|Q9BW73|Q9GZV2	Missense_Mutation	SNP	ENST00000318445.6	37	CCDS10371.1	.	.	.	.	.	.	.	.	.	.	C	21.1	4.091915	0.76756	.	.	ENSG00000176463	ENST00000318445;ENST00000424469;ENST00000556649	T;T	0.56444	0.46;0.46	5.12	5.12	0.69794	Major facilitator superfamily domain, general substrate transporter (1);	0.076624	0.53938	D	0.000045	T	0.69904	0.3163	M	0.71920	2.185	0.80722	D	1	P;D;D	0.76494	0.928;0.963;0.999	P;P;D	0.77004	0.668;0.715;0.989	T	0.72903	-0.4151	10	0.66056	D	0.02	.	12.9394	0.58333	0.0:0.9216:0.0:0.0784	.	211;269;269	Q9UIG8-3;Q9UIG8-2;Q9UIG8	.;.;SO3A1_HUMAN	M	269;269;62	ENSP00000320634:L269M;ENSP00000387846:L269M	ENSP00000320634:L269M	L	+	1	2	SLCO3A1	90448572	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.517000	0.53443	2.353000	0.79882	0.655000	0.94253	CTG		0.577	SLCO3A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313529.1	NM_013272		A	92647568	C	A	92647568	3	1	695	1	0	0	0	0	1	0	0	0	14741	912	32	4	819	4	SLCO3A1	15	92647568	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	39967473	92647568	9883824	102	45428										
WDR90	197335	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	707787	707787	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	atggtatgcccggatgccccCgcgagccccagcgccctggc	13	18	0	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr16:707787C>T	ENST00000293879.4	+	21	2499	c.2499C>T	c.(2497-2499)ccC>ccT	p.P833P	WDR90_ENST00000549091.1_Silent_p.P833P|LA16c-349E10.1_ENST00000573609.1_RNA			Q96KV7	WDR90_HUMAN	WD repeat domain 90	833										endometrium(4)|kidney(3)|large_intestine(2)|lung(22)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	37		Hepatocellular(780;0.0218)				CGGATGCCCCCGCGAGCCCCA	0.726																																																0													8	11	10					16																	707787		1929	4048	5977	SO:0001819	synonymous_variant	197335			AB067511	CCDS42092.1	16p13.3	2013-01-09			ENSG00000161996	ENSG00000161996		"WD repeat domain containing"	26960	protein-coding gene	gene with protein product			"chromosome 16 open reading frame 17", "chromosome 16 open reading frame 15", "chromosome 16 open reading frame 16", "chromosome 16 open reading frame 19", "chromosome 16 open reading frame 18"	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18		11572484, 11157797	Standard	XM_005255160		Approved	FLJ36483, KIAA1924	uc002cii.1	Q96KV7	OTTHUMG00000048040	ENST00000293879.4:c.2499C>T	16.37:g.707787C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q0VA87|Q0VA88|Q6P048|Q6ZMS1|Q6ZTH1|Q8N202|Q8N221|Q8NBB8|Q96PW4|Q96S18	Silent	SNP	ENST00000293879.4	37	CCDS42092.1																																																																																				0.726	WDR90-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000404335.1	NM_145294		T	707787	C	T	707787	2	4	695	1	0	0	0	0	0	0	0	1	17349	639	23	1		1	WDR90	16	707787	Silent	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10		707787	89646966	103	45429										
VASN	114990	hgsc.bcm.edu	37	chr16	4432672	4432672	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gcggtgggggcagcctactgTgtgcggcgggggcgggccat	22	10	0	0	rs370088997	byFrequency	TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr16:4432672T>C	ENST00000304735.3	+	2	1949	c.1794T>C	c.(1792-1794)tgT>tgC	p.C598C	CORO7_ENST00000537233.2_Intron|CORO7_ENST00000539968.1_Intron|CORO7-PAM16_ENST00000572467.1_Intron|CORO7_ENST00000574025.1_Intron|CORO7_ENST00000423908.2_Intron|CORO7_ENST00000251166.4_Intron	NM_138440.2	NP_612449.2	Q6EMK4	VASN_HUMAN	vasorin	598					cellular response to hypoxia (GO:0071456)|cellular response to redox state (GO:0071461)|negative regulation of epithelial to mesenchymal transition (GO:0010719)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)	cell surface (GO:0009986)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	transforming growth factor beta binding (GO:0050431)			breast(1)|lung(3)|prostate(1)|skin(1)	6						CAGCCTACTGTGTGCGGCGGG	0.741													T|||	5	0.000998403	0.0038	0.0	5008	,	,		13454	0.0		0.0	False		,,,				2504	0.0															0								T	,,,,	8,3802		0,8,1897	4	7	6		,,,,1794	-1.7	1	16		6	0,7642		0,0,3821	no	intron,intron,intron,intron,coding-synonymous	CORO7,VASN,CORO7-PAM16	NM_001201472.1,NM_001201473.1,NM_001201479.1,NM_024535.4,NM_138440.2	,,,,	0,8,5718	CC,CT,TT		0.0,0.21,0.0699	,,,,	,,,,598/674	4432672	8,11444	1905	3821	5726	SO:0001819	synonymous_variant	114990			AY358299	CCDS10514.1	16p13.3	2008-02-05	2006-03-30	2006-03-30	ENSG00000168140	ENSG00000168140			18517	protein-coding gene	gene with protein product		608843	"slit-like 2 (Drosophila)"	SLITL2		15247411	Standard	NM_138440		Approved		uc002cwj.1	Q6EMK4	OTTHUMG00000129469	ENST00000304735.3:c.1794T>C	16.37:g.4432672T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXL4|Q6UXL5|Q96CX1	Silent	SNP	ENST00000304735.3	37	CCDS10514.1																																																																																				0.741	VASN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251632.1	NM_138440		C	4432672	T	C	4432672	2	2	695	1	0	0	0	0	0	0	0	1	17139	1702	59	3		3	VASN	16	4432672	Silent	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10	3724885	4432672	85922081	104	45430										
ITGAD	3681	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	31414951	31414951	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cctgacgttcacggccacggGcatcctgacagtggtgtaag	13	12	1	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr16:31414951G>A	ENST00000389202.2	+	7	738	c.689G>A	c.(688-690)gGc>gAc	p.G230D	RP11-120K18.2_ENST00000567545.1_RNA	NM_005353.2	NP_005344.2	Q13349	ITAD_HUMAN	integrin, alpha D	230	VWFA. {ECO:0000255|PROSITE- ProRule:PRU00219}.				activated T cell proliferation (GO:0050798)|extracellular matrix organization (GO:0030198)|heterotypic cell-cell adhesion (GO:0034113)|immune response (GO:0006955)|integrin-mediated signaling pathway (GO:0007229)	cell surface (GO:0009986)|integrin complex (GO:0008305)|plasma membrane (GO:0005886)	metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|liver(2)|lung(43)|ovary(1)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	71						ACGGCCACGGGCATCCTGACA	0.607																																																0													96	78	84					16																	31414951		2197	4300	6497	SO:0001583	missense	3681			U40274	CCDS32438.1	16p13.1-p11	2010-03-23				ENSG00000156886		"CD molecules", "Integrins"	6146	protein-coding gene	gene with protein product		602453				8666289, 9598326	Standard	NM_005353		Approved	CD11d, ADB2	uc002ebv.1	Q13349		ENST00000389202.2:c.689G>A	16.37:g.31414951G>A	ENSP00000373854:p.Gly230Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q15575|Q15576	Missense_Mutation	SNP	ENST00000389202.2	37	CCDS32438.1	.	.	.	.	.	.	.	.	.	.	G	19.35	3.810704	0.70797	.	.	ENSG00000156886	ENST00000316569;ENST00000444228;ENST00000389202	D	0.86030	-2.06	4.7	3.7	0.42460	von Willebrand factor, type A (3);	.	.	.	.	D	0.92492	0.7616	M	0.86864	2.845	0.34300	D	0.684244	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.996;0.996	D	0.94979	0.8124	9	0.87932	D	0	.	12.6978	0.57014	0.0:0.1801:0.8199:0.0	.	230;246;230	B7Z6V7;Q59H14;Q13349	.;.;ITAD_HUMAN	D	94;246;230	ENSP00000373854:G230D	ENSP00000323325:G94D	G	+	2	0	ITGAD	31322452	1.000000	0.71417	0.706000	0.30403	0.134000	0.20937	1.683000	0.37638	2.434000	0.82447	0.508000	0.49915	GGC		0.607	ITGAD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000432836.1	NM_005353		A	31414951	G	A	31414951	3	1	695	1	0	0	0	0	1	0	0	0	7891	1203	42	2	715	2	ITGAD	16	31414951	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	26982279	31414951	58939802	105	45431										
ARMC5	79798	hgsc.bcm.edu	37	chr16	31475859	31475859	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cgggcaccacgcacccaacgCactccgggccgcagccccgc	11	22	0	0	rs115663676	byFrequency	TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr16:31475859C>T	ENST00000563544.1	+	5	2061	c.1515C>T	c.(1513-1515)cgC>cgT	p.R505R	ARMC5_ENST00000408912.3_Silent_p.R600R|ARMC5_ENST00000457010.2_Silent_p.R505R|ARMC5_ENST00000412665.2_Silent_p.R149R|ARMC5_ENST00000268314.4_Silent_p.R505R|ARMC5_ENST00000538189.1_Silent_p.R537R			Q96C12	ARMC5_HUMAN	armadillo repeat containing 5	505										central_nervous_system(1)|endometrium(4)|large_intestine(3)|liver(2)|lung(12)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	28						GCACCCAACGCACTCCGGGCC	0.741													C|||	36	0.0071885	0.025	0.0043	5008	,	,		9106	0.0		0.0	False		,,,				2504	0.0															0								C	,	68,3728		0,68,1830	6	8	8		1515,1515	2.7	0.5	16	dbSNP_132	8	1,7875		0,1,3937	no	coding-synonymous,coding-synonymous	ARMC5	NM_001105247.1,NM_024742.2	,	0,69,5767	TT,TC,CC		0.0127,1.7914,0.5912	,	505/936,505/726	31475859	69,11603	1898	3938	5836	SO:0001819	synonymous_variant	79798			AY217348	CCDS42155.1, CCDS45472.1, CCDS73874.1	16p11	2013-02-14			ENSG00000140691	ENSG00000140691		"Armadillo repeat containing"	25781	protein-coding gene	gene with protein product		615549					Standard	NM_024742		Approved	FLJ13063	uc002ecc.3	Q96C12	OTTHUMG00000176618	ENST00000563544.1:c.1515C>T	16.37:g.31475859C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q86WM9|Q9H7P8|Q9H925	Silent	SNP	ENST00000563544.1	37	CCDS45472.1																																																																																				0.741	ARMC5-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000432847.1	NM_024742		T	31475859	C	T	31475859	2	4	695	1	0	0	0	0	0	0	0	1	954	697	25	2		2	ARMC5	16	31475859	Silent	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	60908	31475859	58878894	106	45432										
PHKB	5257	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	47622955	47622955	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	taaacgtttcttgagagatgGgtatagaacatcattggaag	11	4	2	3			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr16:47622955G>A	ENST00000323584.5	+	10	1034	c.1010G>A	c.(1009-1011)gGg>gAg	p.G337E	PHKB_ENST00000455779.1_Missense_Mutation_p.G330E|PHKB_ENST00000567402.1_3'UTR|PHKB_ENST00000566044.1_Missense_Mutation_p.G330E|PHKB_ENST00000299167.8_Missense_Mutation_p.G337E	NM_000293.2	NP_000284.1	Q93100	KPBB_HUMAN	phosphorylase kinase, beta	337					carbohydrate metabolic process (GO:0005975)|generation of precursor metabolites and energy (GO:0006091)|glucose metabolic process (GO:0006006)|glycogen catabolic process (GO:0005980)|glycogen metabolic process (GO:0005977)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|phosphorylase kinase complex (GO:0005964)|plasma membrane (GO:0005886)	hydrolase activity, hydrolyzing O-glycosyl compounds (GO:0004553)|phosphorylase kinase activity (GO:0004689)			breast(2)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(10)|liver(1)|lung(18)|ovary(1)|skin(1)	41		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)				TTGAGAGATGGGTATAGAACA	0.353																																																0													70	74	73					16																	47622955		2201	4300	6501	SO:0001583	missense	5257				CCDS10729.1, CCDS42161.1	16q12-q13	2009-07-10			ENSG00000102893	ENSG00000102893	2.7.11.19		8927	protein-coding gene	gene with protein product		172490					Standard	NM_000293		Approved		uc002eev.4	Q93100	OTTHUMG00000133102	ENST00000323584.5:c.1010G>A	16.37:g.47622955G>A	ENSP00000313504:p.Gly337Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N4T5	Missense_Mutation	SNP	ENST00000323584.5	37	CCDS10729.1	.	.	.	.	.	.	.	.	.	.	G	31	5.099043	0.94197	.	.	ENSG00000102893	ENST00000299167;ENST00000455779;ENST00000323584	D;D	0.91792	-2.91;-2.91	5.83	5.83	0.93111	Six-hairpin glycosidase-like (1);Glycoside hydrolase 15-related (1);	0.000000	0.85682	D	0.000000	D	0.97232	0.9095	M	0.92923	3.36	0.80722	D	1	D;D	0.89917	1.0;0.998	D;D	0.79108	0.992;0.918	D	0.97532	1.0080	10	0.87932	D	0	-10.5585	20.127	0.97984	0.0:0.0:1.0:0.0	.	337;330	Q93100;Q93100-4	KPBB_HUMAN;.	E	330;330;337	ENSP00000414345:G330E;ENSP00000313504:G337E	ENSP00000299167:G330E	G	+	2	0	PHKB	46180456	1.000000	0.71417	0.964000	0.40570	0.946000	0.59487	9.717000	0.98755	2.775000	0.95449	0.585000	0.79938	GGG		0.353	PHKB-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000430413.1			A	47622955	G	A	47622955	3	1	695	1	0	0	0	0	1	0	0	0	11852	1232	43	2	1107	2	PHKB	16	47622955	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	16147096	47622955	42731798	107	45433										
RBL2	5934	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	53514563	53514563	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tgctcctcccacacctactcGcctcacaggtgccaacagtg	7	18	1	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr16:53514563G>A	ENST00000262133.6	+	20	3103	c.2966G>A	c.(2965-2967)cGc>cAc	p.R989H	RBL2_ENST00000544545.1_Intron|RBL2_ENST00000379935.4_3'UTR	NM_005611.3	NP_005602.3	Q08999	RBL2_HUMAN	retinoblastoma-like 2	989	Domain B.|Pocket; binds E1A.				chromatin modification (GO:0016568)|mitotic cell cycle (GO:0000278)|regulation of cell cycle (GO:0051726)|regulation of lipid kinase activity (GO:0043550)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)			breast(3)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(8)|lung(17)|ovary(4)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	45						ACACCTACTCGCCTCACAGGT	0.517																																																0													132	113	119					16																	53514563		2198	4300	6498	SO:0001583	missense	5934			X74594	CCDS10748.1	16q12.2	2014-03-11	2014-03-11		ENSG00000103479	ENSG00000103479			9894	protein-coding gene	gene with protein product		180203				8361765, 8643454	Standard	NM_005611		Approved	Rb2, p130	uc002ehi.4	Q08999	OTTHUMG00000133198	ENST00000262133.6:c.2966G>A	16.37:g.53514563G>A	ENSP00000262133:p.Arg989His	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z913|Q15073|Q16084|Q8NE70|Q92812	Missense_Mutation	SNP	ENST00000262133.6	37	CCDS10748.1	.	.	.	.	.	.	.	.	.	.	G	18.03	3.533269	0.64972	.	.	ENSG00000103479	ENST00000262133;ENST00000379935	D	0.90069	-2.61	5.67	3.48	0.39840	Retinoblastoma-associated protein, B-box (1);Cyclin-like (1);	0.232291	0.42548	N	0.000684	D	0.90841	0.7123	L	0.50333	1.59	0.49798	D	0.999827	D;D	0.76494	0.999;0.998	D;P	0.66351	0.943;0.905	D	0.88546	0.3113	10	0.41790	T	0.15	-4.2222	10.6092	0.45412	0.1771:0.0:0.8229:0.0	.	699;989	E9PG04;Q08999	.;RBL2_HUMAN	H	989;699	ENSP00000262133:R989H	ENSP00000262133:R989H	R	+	2	0	RBL2	52072064	0.993000	0.37304	0.216000	0.23742	0.932000	0.56968	2.600000	0.46240	0.564000	0.29238	0.650000	0.86243	CGC		0.517	RBL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256908.3	NM_005611		A	53514563	G	A	53514563	3	1	695	1	0	0	0	0	1	0	0	0	13123	1087	38	1	3044	1	RBL2	16	53514563	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	5891608	53514563	36840190	108	45434										
DBNDD1	79007	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	90075270	90075270	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ctcctggtccgacatgtcggTgagctcagtgaggtccagga	14	11	1	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr16:90075270T>A	ENST00000002501.6	-	3	372	c.241A>T	c.(241-243)Acc>Tcc	p.T81S	DBNDD1_ENST00000304733.3_Missense_Mutation_p.T101S|DBNDD1_ENST00000568838.1_Missense_Mutation_p.T201S|DBNDD1_ENST00000392973.3_Missense_Mutation_p.T87S	NM_001042610.1	NP_001036075.1	Q9H9R9	DBND1_HUMAN	dysbindin (dystrobrevin binding protein 1) domain containing 1	81						cytoplasm (GO:0005737)				kidney(1)|large_intestine(1)|lung(1)	3		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;0.0275)		GACATGTCGGTGAGCTCAGTG	0.642																																																0													32	37	35					16																	90075270		2016	4160	6176	SO:0001583	missense	79007			AK090696	CCDS10991.2, CCDS42223.1, CCDS73931.1	16q24.3	2008-02-05			ENSG00000003249	ENSG00000003249			28455	protein-coding gene	gene with protein product						12477932	Standard	NM_001288708		Approved	MGC3101, FLJ12582	uc002fqe.1	Q9H9R9	OTTHUMG00000138984	ENST00000002501.6:c.241A>T	16.37:g.90075270T>A	ENSP00000002501:p.Thr81Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DQS3|Q69YT2|Q9BW25	Missense_Mutation	SNP	ENST00000002501.6	37	CCDS42223.1	.	.	.	.	.	.	.	.	.	.	T	17.81	3.480743	0.63849	.	.	ENSG00000003249	ENST00000304733;ENST00000002501;ENST00000392973	T;T	0.34072	1.38;1.38	5.23	5.23	0.72850	.	0.000000	0.85682	D	0.000000	T	0.61274	0.2334	M	0.78637	2.42	0.49299	D	0.999773	D;D	0.76494	0.999;0.999	D;D	0.83275	0.996;0.994	T	0.64415	-0.6413	9	.	.	.	-34.7701	15.1222	0.72453	0.0:0.0:0.0:1.0	.	81;101	Q9H9R9;Q9H9R9-2	DBND1_HUMAN;.	S	101;81;201	ENSP00000306407:T101S;ENSP00000002501:T81S	.	T	-	1	0	DBNDD1	88602771	1.000000	0.71417	0.992000	0.48379	0.282000	0.26991	5.761000	0.68801	1.992000	0.58205	0.260000	0.18958	ACC		0.642	DBNDD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000272872.1	NM_024043		A	90075270	T	A	90075270	3	1	695	1	0	0	0	0	1	0	0	0	4255	1696	59	5	243	5	DBNDD1	16	90075270	Missense_Mutation	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10	36560707	90075270	279483	109	45435										
ZNF594	84622	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	5086862	5086862	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ttccccctactgtggattctCtggtgcaggacaaggtttga	11	10	1	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr17:5086862C>G	ENST00000399604.4	-	1	830	c.690G>C	c.(688-690)caG>caC	p.Q230H	ZNF594_ENST00000575779.1_Missense_Mutation_p.Q230H			Q96JF6	ZN594_HUMAN	zinc finger protein 594	230					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)	p.Q230H(1)		NS(1)|breast(1)|cervix(1)|endometrium(5)|kidney(4)|large_intestine(3)|lung(10)|ovary(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	33						TGTGGATTCTCTGGTGCAGGA	0.438																																																1	Substitution - Missense(1)	cervix(1)											104	107	106					17																	5086862		2051	4221	6272	SO:0001583	missense	84622			AB058774	CCDS42241.1	17p13	2013-01-08			ENSG00000180626	ENSG00000180626		"Zinc fingers, C2H2-type"	29392	protein-coding gene	gene with protein product						11347906	Standard	NM_032530		Approved	KIAA1871	uc010cla.1	Q96JF6	OTTHUMG00000132059	ENST00000399604.4:c.690G>C	17.37:g.5086862C>G	ENSP00000382513:p.Gln230His	Somatic		WXS	Illumina HiSeq	Phase_I	Q6RFS0	Missense_Mutation	SNP	ENST00000399604.4	37	CCDS42241.1	.	.	.	.	.	.	.	.	.	.	C	3.775	-0.046880	0.07407	.	.	ENSG00000180626	ENST00000399604	T	0.18502	2.21	2.36	1.36	0.22044	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.22859	0.0552	L	0.48986	1.54	0.20638	N	0.99988	D	0.57899	0.981	P	0.53035	0.716	T	0.08186	-1.0734	9	0.52906	T	0.07	.	6.6334	0.22869	0.0:0.8341:0.0:0.1659	.	230	Q96JF6	ZN594_HUMAN	H	230	ENSP00000382513:Q230H	ENSP00000382513:Q230H	Q	-	3	2	ZNF594	5027586	0.000000	0.05858	0.612000	0.29024	0.229000	0.25112	-0.361000	0.07612	1.314000	0.45095	0.462000	0.41574	CAG		0.438	ZNF594-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000438996.1	XM_290737		G	5086862	C	G	5086862	3	3	695	1	0	0	0	0	1	0	0	0	18036	912	32	4	1737	4	ZNF594	17	5086862	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10		5086862	76108348	110	45436										
KIAA0100	9703	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	26971163	26971163	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	atctttagctccgcctgcagCttccgctgacaccacttggt	8	15	1	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr17:26971163C>A	ENST00000528896.2	-	2	185	c.111G>T	c.(109-111)aaG>aaT	p.K37N	KIAA0100_ENST00000389003.3_5'UTR|KIAA0100_ENST00000544884.1_5'UTR	NM_014680.3	NP_055495.2	Q14667	K0100_HUMAN	KIAA0100	37						extracellular region (GO:0005576)				breast(3)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(13)|lung(23)|ovary(2)|prostate(2)|skin(6)|stomach(2)|urinary_tract(3)	68	Lung NSC(42;0.00431)					CCGCCTGCAGCTTCCGCTGAC	0.488											OREG0024280	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													59	69	65					17																	26971163		2203	4300	6503	SO:0001583	missense	9703			D43947	CCDS32595.1	17q11.2	2012-11-29			ENSG00000007202	ENSG00000007202			28960	protein-coding gene	gene with protein product	"cancer/testis antigen 101", "breast cancer overexpressed gene 1"	610664				16289875	Standard	NM_014680		Approved	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX	uc002hbu.3	Q14667	OTTHUMG00000166587	ENST00000528896.2:c.111G>T	17.37:g.26971163C>A	ENSP00000436773:p.Lys37Asn	Somatic	790	WXS	Illumina HiSeq	Phase_I	A6NCX3|Q3SYN5|Q49A07|Q5H9T4|Q6WG74|Q6ZP51|Q96HH8	Missense_Mutation	SNP	ENST00000528896.2	37	CCDS32595.1	.	.	.	.	.	.	.	.	.	.	C	11.55	1.673269	0.29693	.	.	ENSG00000007202	ENST00000005905;ENST00000389003;ENST00000528896	T	0.26373	1.74	5.18	4.2	0.49525	FMP27, N-terminal (1);	0.354102	0.32719	N	0.005740	T	0.19127	0.0459	L	0.27053	0.805	0.80722	D	1	B;B	0.15141	0.012;0.0	B;B	0.12156	0.007;0.002	T	0.03619	-1.1019	10	0.62326	D	0.03	.	11.8337	0.52309	0.1379:0.7294:0.1327:0.0	.	37;37	F6XS94;Q14667	.;K0100_HUMAN	N	37	ENSP00000436773:K37N	ENSP00000005905:K37N	K	-	3	2	KIAA0100	23995290	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	1.047000	0.30367	1.295000	0.44724	-0.310000	0.09108	AAG		0.488	KIAA0100-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390571.3	NM_014680		A	26971163	C	A	26971163	3	1	695	1	0	0	0	0	1	0	0	0	8161	796	28	4	6748	4	KIAA0100	17	26971163	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	21884301	26971163	54224047	111	45437										
NUFIP2	57532	hgsc.bcm.edu;bcgsc.ca	37	chr17	27614566	27614566	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gaatgaaattcttggttttaAttcctgctttcccaaaggtg	8	7	1	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr17:27614566A>G	ENST00000225388.4	-	2	504	c.446T>C	c.(445-447)aTt>aCt	p.I149T	NUFIP2_ENST00000579665.1_Intron	NM_020772.2	NP_065823.1	Q7Z417	NUFP2_HUMAN	nuclear fragile X mental retardation protein interacting protein 2	149						cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)|polysomal ribosome (GO:0042788)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)			breast(1)|endometrium(3)|kidney(1)|large_intestine(3)|liver(1)|lung(7)|ovary(1)|prostate(2)|skin(4)|urinary_tract(1)	24			BRCA - Breast invasive adenocarcinoma(11;0.000457)|Colorectal(6;0.0178)|COAD - Colon adenocarcinoma(6;0.0551)			CTTGGTTTTAATTCCTGCTTT	0.408																																																0													121	120	121					17																	27614566		2203	4300	6503	SO:0001583	missense	57532			AB037742	CCDS32600.1	17q11.1	2006-03-01				ENSG00000108256			17634	protein-coding gene	gene with protein product		609356				12837692, 16407062	Standard	NM_020772		Approved	KIAA1321, MGC117262, PIG1, 182-FIP, FIP-82, 82-FIP	uc002hdy.4	Q7Z417		ENST00000225388.4:c.446T>C	17.37:g.27614566A>G	ENSP00000225388:p.Ile149Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A1L3A6|Q9P2M5	Missense_Mutation	SNP	ENST00000225388.4	37	CCDS32600.1	.	.	.	.	.	.	.	.	.	.	A	12.71	2.020017	0.35606	.	.	ENSG00000108256	ENST00000225388	.	.	.	6.17	6.17	0.99709	.	0.134082	0.52532	D	0.000080	T	0.41328	0.1154	N	0.12182	0.205	0.80722	D	1	B	0.24721	0.11	B	0.25291	0.059	T	0.37384	-0.9708	9	0.56958	D	0.05	-12.34	12.6398	0.56702	0.8623:0.1377:0.0:0.0	.	149	Q7Z417	NUFP2_HUMAN	T	149	.	ENSP00000225388:I149T	I	-	2	0	NUFIP2	24638692	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	3.852000	0.55934	2.371000	0.80710	0.533000	0.62120	ATT		0.408	NUFIP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447015.2	NM_020772		G	27614566	A	G	27614566	3	3	695	1	0	0	0	0	1	0	0	0	10756	101	4	3	1653	3	NUFIP2	17	27614566	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	643403	27614566	53580644	112	45438										
KLHL11	55175	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	40011371	40011371	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	caaatctgaaagccagtctcTaatgagatggaaaggtaacg	10	7	2	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr17:40011371T>C	ENST00000319121.3	-	2	808	c.748A>G	c.(748-750)Aga>Gga	p.R250G		NM_018143.1	NP_060613.1	Q9NVR0	KLH11_HUMAN	kelch-like family member 11	250	BACK.									NS(2)|breast(2)|endometrium(1)|large_intestine(2)|lung(5)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	17		Breast(137;0.00156)				AGCCAGTCTCTAATGAGATGG	0.398																																																0													57	58	58					17																	40011371		2203	4300	6503	SO:0001583	missense	55175				CCDS11411.1	17q21	2013-01-30	2013-01-30		ENSG00000178502	ENSG00000178502		"Kelch-like", "BTB/POZ domain containing"	19008	protein-coding gene	gene with protein product			"kelch-like 11 (Drosophila)"				Standard	NM_018143		Approved	FLJ10572	uc002hyf.1	Q9NVR0	OTTHUMG00000133506	ENST00000319121.3:c.748A>G	17.37:g.40011371T>C	ENSP00000314608:p.Arg250Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000319121.3	37	CCDS11411.1	.	.	.	.	.	.	.	.	.	.	T	6.149	0.395748	0.11638	.	.	ENSG00000178502	ENST00000319121;ENST00000540254	T	0.69040	-0.37	4.99	4.01	0.46588	BTB/Kelch-associated (2);	0.068566	0.56097	D	0.000034	T	0.48892	0.1525	N	0.20986	0.625	0.50313	D	0.999866	P	0.46142	0.873	B	0.38264	0.269	T	0.41215	-0.9521	10	0.21540	T	0.41	-2.2119	13.3418	0.60549	0.0:0.0:0.5227:0.4773	.	250	Q9NVR0	KLH11_HUMAN	G	250;113	ENSP00000314608:R250G	ENSP00000314608:R250G	R	-	1	2	KLHL11	37264897	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	1.686000	0.37669	1.055000	0.40461	-0.452000	0.05504	AGA		0.398	KLHL11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257464.2	NM_018143		C	40011371	T	C	40011371	3	2	695	1	0	0	0	0	1	0	0	0	8374	1530	53	3	1382	3	KLHL11	17	40011371	Missense_Mutation	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10	12396805	40011371	41183839	113	45439										
KAT2A	2648	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	40269761	40269761	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ctcattgaccagctccatggGgatgtcacccatcacacgga	9	14	3	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr17:40269761G>C	ENST00000225916.5	-	9	1416	c.1363C>G	c.(1363-1365)Ccc>Gcc	p.P455A		NM_021078.2	NP_066564.2	Q92830	KAT2A_HUMAN	K(lysine) acetyltransferase 2A	455					cell proliferation (GO:0008283)|chromatin organization (GO:0006325)|chromatin remodeling (GO:0006338)|histone deubiquitination (GO:0016578)|histone H3 acetylation (GO:0043966)|histone H3-K14 acetylation (GO:0044154)|in utero embryonic development (GO:0001701)|metencephalon development (GO:0022037)|midbrain development (GO:0030901)|multicellular organism growth (GO:0035264)|neural tube closure (GO:0001843)|positive regulation of gluconeogenesis (GO:0045722)|regulation of protein stability (GO:0031647)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|somitogenesis (GO:0001756)|telencephalon development (GO:0021537)|transcription from RNA polymerase II promoter (GO:0006366)|viral process (GO:0016032)	Ada2/Gcn5/Ada3 transcription activator complex (GO:0005671)|extracellular space (GO:0005615)|mitotic spindle (GO:0072686)|nucleoplasm (GO:0005654)|STAGA complex (GO:0030914)|transcription factor TFTC complex (GO:0033276)	chromatin binding (GO:0003682)|H3 histone acetyltransferase activity (GO:0010484)|histone acetyltransferase activity (GO:0004402)|histone acetyltransferase activity (H4-K12 specific) (GO:0043997)|histone deacetylase binding (GO:0042826)|transcription coactivator activity (GO:0003713)			central_nervous_system(1)|endometrium(3)|large_intestine(1)|lung(4)|ovary(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	18						AGCTCCATGGGGATGTCACCC	0.627																																																0													43	36	39					17																	40269761		2203	4300	6503	SO:0001583	missense	2648			AF029777	CCDS11417.1	17q12-q21	2011-07-01	2008-07-04	2008-07-04	ENSG00000108773	ENSG00000108773		"Chromatin-modifying enzymes / K-acetyltransferases"	4201	protein-coding gene	gene with protein product		602301	"GCN5 general control of amino-acid synthesis 5-like 2 (yeast)"	GCN5L2		8552087	Standard	NM_021078		Approved	GCN5, PCAF-b	uc002hyx.2	Q92830	OTTHUMG00000133504	ENST00000225916.5:c.1363C>G	17.37:g.40269761G>C	ENSP00000225916:p.Pro455Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N1A2|Q9UCW1	Missense_Mutation	SNP	ENST00000225916.5	37	CCDS11417.1	.	.	.	.	.	.	.	.	.	.	G	23.9	4.470462	0.84533	.	.	ENSG00000108773	ENST00000225916	T	0.08634	3.07	4.7	4.7	0.59300	.	0.000000	0.85682	D	0.000000	T	0.31979	0.0814	M	0.84683	2.71	0.80722	D	1	D	0.61080	0.989	D	0.63192	0.912	T	0.28744	-1.0034	10	0.72032	D	0.01	-17.8967	17.6406	0.88135	0.0:0.0:1.0:0.0	.	455	Q92830	KAT2A_HUMAN	A	455	ENSP00000225916:P455A	ENSP00000225916:P455A	P	-	1	0	KAT2A	37523287	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	9.811000	0.99226	2.164000	0.68074	0.561000	0.74099	CCC		0.627	KAT2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257458.1	NM_021078		C	40269761	G	C	40269761	3	2	695	1	0	0	0	0	1	0	0	0	7988	1232	43	4	1190	4	KAT2A	17	40269761	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	258390	40269761	40925449	114	45440										
MYST2	11143	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	47869395	47869395	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ggctaagccagagttctcaaGgtaaaaaaaccttcattttt	7	8	2	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr17:47869395G>A	ENST00000259021.4	+	2	443	c.163G>A	c.(163-165)Gat>Aat	p.D55N	KAT7_ENST00000424009.2_Splice_Site_p.D55N|KAT7_ENST00000503935.2_5'UTR|KAT7_ENST00000454930.2_Splice_Site_p.G55R|KAT7_ENST00000510819.1_Splice_Site_p.G55R|KAT7_ENST00000509773.1_Splice_Site_p.D55N|KAT7_ENST00000435742.2_5'UTR	NM_007067.4	NP_008998.1	O95251	KAT7_HUMAN	K(lysine) acetyltransferase 7	55	Ser-rich.				chromatin organization (GO:0006325)|DNA replication (GO:0006260)|histone H3 acetylation (GO:0043966)|histone H4-K12 acetylation (GO:0043983)|histone H4-K5 acetylation (GO:0043981)|histone H4-K8 acetylation (GO:0043982)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|histone acetyltransferase complex (GO:0000123)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	histone acetyltransferase activity (GO:0004402)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)										GAGTTCTCAAGGTAAAAAAAC	0.493																																																0													72	69	70					17																	47869395		2203	4300	6503	SO:0001630	splice_region_variant	11143			AF074606	CCDS11554.1, CCDS56035.1, CCDS56036.1, CCDS56037.1, CCDS56038.1	17q21.32	2013-01-10	2011-07-21	2011-07-21	ENSG00000136504	ENSG00000136504	2.3.1.48	"Chromatin-modifying enzymes / K-acetyltransferases", "Zinc fingers, C2HC-type containing"	17016	protein-coding gene	gene with protein product	"histone acetyltransferase binding to ORC1"	609880	"MYST histone acetyltransferase 2"	MYST2		10438470, 10930412	Standard	NM_001199155		Approved	HBOA, HBO1, ZC2HC7	uc002ipm.3	O95251	OTTHUMG00000161770	ENST00000259021.4:c.163+1G>A	17.37:g.47869395G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KN74|B4DF85|B4DFB4|B4DFE0|B4DGY4|E7ER15|G5E9K7	Missense_Mutation	SNP	ENST00000259021.4	37	CCDS11554.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	33|33	5.224482|5.224482	0.95139|0.95139	.|.	.|.	ENSG00000136504|ENSG00000136504	ENST00000259021;ENST00000509773;ENST00000424009|ENST00000454930;ENST00000510819	.|.	.|.	.|.	5.56|5.56	5.56|5.56	0.83823|0.83823	.|.	0.153798|.	0.56097|.	D|.	0.000026|.	T|T	0.76385|0.76385	0.3980|0.3980	L|L	0.50333|0.50333	1.59|1.59	0.80722|0.80722	D|D	1|1	D;B;D|D;D	0.60575|0.89917	0.98;0.281;0.988|1.0;1.0	D;B;D|D;D	0.73708|0.97110	0.956;0.083;0.981|1.0;1.0	T|T	0.77747|0.77747	-0.2472|-0.2472	9|8	0.09843|0.87932	T|D	0.71|0	-15.7574|-15.7574	19.1747|19.1747	0.93599|0.93599	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	55;55;55|55;55	B4DFB4;O95251;G5E9K7|B4DFE0;E7ER15	.;KAT7_HUMAN;.|.;.	N|R	55|55	.|.	ENSP00000259021:D55N|ENSP00000413415:G55R	D|G	+|+	1|1	0|0	KAT7|KAT7	45224394|45224394	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.983000|0.983000	0.72400|0.72400	9.448000|9.448000	0.97600|0.97600	2.623000|2.623000	0.88846|0.88846	0.650000|0.650000	0.86243|0.86243	GAT|GGA		0.493	KAT7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366032.1	NM_007067	Missense_Mutation	A	47869395	G	A	47869395	5	1	695	1	0	0	0	0	0	0	1	0	10110	1014	35	2	169	2	MYST2	17	47869395	Splice_Site	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	7599634	47869395	33325815	115	45441										
FAM59A	64762	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr18	29867165	29867165	+	Frame_Shift_Del	DEL	A	A	-													0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	agagagcgagtgagaggctgAtggctgggcttgccttcctc							TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr18:29867165delA	ENST00000269209.6	-	4	1398	c.1395delT	c.(1393-1395)catfs	p.H465fs	RP11-344B2.2_ENST00000579580.1_RNA|GAREM_ENST00000399218.4_Frame_Shift_Del_p.H465fs|GAREM_ENST00000578619.1_5'Flank			Q9H706	GAREM_HUMAN	GRB2 associated, regulator of MAPK1	465					cellular response to epidermal growth factor stimulus (GO:0071364)|epidermal growth factor receptor signaling pathway (GO:0007173)|positive regulation of cell division (GO:0051781)|positive regulation of cell proliferation (GO:0008284)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)	plasma membrane (GO:0005886)	proline-rich region binding (GO:0070064)										TGAGAGGCTGATGGCTGGGCT	0.527																																																0													104	102	103					18																	29867165		2203	4300	6503	SO:0001589	frameshift_variant	64762			AK025263	CCDS11905.1, CCDS56057.1	18q12.1	2012-11-30	2012-11-30	2012-11-30	ENSG00000141441	ENSG00000141441			26136	protein-coding gene	gene with protein product	"Grb2-associated and regulator of Erk/MAPK"		"chromosome 18 open reading frame 11", "family with sequence similarity 59, member A"	C18orf11, FAM59A		19509291	Standard	NM_001242409		Approved	FLJ21610	uc002kxl.3	Q9H706	OTTHUMG00000132273	ENST00000269209.6:c.1395delT	18.37:g.29867165delA	ENSP00000269209:p.His465fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAG3|Q0VAG4|Q8ND03|Q9BSF5	Frame_Shift_Del	DEL	ENST00000269209.6	37	CCDS56057.1																																																																																				0.527	GAREM-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000255365.1	NM_022751		-	29867165	A	-	29867165	7	5	695	1	0	1	0	1	0	0	0	0	5599	330	12	0	1244	0	FAM59A	18	29867165	Frame_Shift_Del	DEL	A	TCGA-P4-A5E6-01A-11D-A28G-10		29867165	48210083	116	45442										
CELF5	60680	hgsc.bcm.edu	37	chr19	3285978	3285978	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	ccatcacgcccatcgcgcacAgcgtcccccagccgccgccc	8	24	1	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr19:3285978A>T	ENST00000292672.2	+	10	1178	c.1141A>T	c.(1141-1143)Agc>Tgc	p.S381C	CELF5_ENST00000541430.2_Missense_Mutation_p.S356C|CELF5_ENST00000588101.1_3'UTR	NM_021938.3	NP_068757.2	Q8N6W0	CELF5_HUMAN	CUGBP, Elav-like family member 5	381					mRNA processing (GO:0006397)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|RNA binding (GO:0003723)			kidney(1)|large_intestine(2)|lung(7)|ovary(2)|skin(1)	13						CATCGCGCACAGCGTCCCCCA	0.756																																																0													12	12	12					19																	3285978		2081	4145	6226	SO:0001583	missense	60680			AF248649	CCDS12106.1, CCDS54197.1	19p13	2013-02-12	2010-02-19	2010-02-19		ENSG00000161082		"RNA binding motif (RRM) containing"	14058	protein-coding gene	gene with protein product		612680	"Bruno (Drosophila) -like 5, RNA binding protein", "bruno-like 5, RNA binding protein (Drosophila)"	BRUNOL5		10893231	Standard	NM_001172673		Approved		uc002lxm.3	Q8N6W0		ENST00000292672.2:c.1141A>T	19.37:g.3285978A>T	ENSP00000292672:p.Ser381Cys	Somatic		WXS	Illumina HiSeq	Phase_I	D6W614|O75253|Q59GP2|Q86VW6|Q9BZC0|Q9NR86	Missense_Mutation	SNP	ENST00000292672.2	37	CCDS12106.1	.	.	.	.	.	.	.	.	.	.	A	24.1	4.488587	0.84854	.	.	ENSG00000161082	ENST00000292672;ENST00000541430;ENST00000334293	T;T;T	0.51071	0.72;1.66;1.56	4.15	4.15	0.48705	.	0.325407	0.28841	N	0.013971	T	0.53867	0.1823	L	0.36672	1.1	0.37559	D	0.919007	D;D;P	0.76494	0.985;0.999;0.944	P;D;P	0.63192	0.731;0.912;0.662	T	0.61451	-0.7060	10	0.62326	D	0.03	-4.5717	11.4083	0.49911	1.0:0.0:0.0:0.0	.	267;356;381	B4DFI3;Q8N6W0-2;Q8N6W0	.;.;CELF5_HUMAN	C	381;356;267	ENSP00000292672:S381C;ENSP00000443498:S356C;ENSP00000335182:S267C	ENSP00000292672:S381C	S	+	1	0	CELF5	3236978	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	2.948000	0.49066	1.666000	0.50821	0.402000	0.26972	AGC		0.756	CELF5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452574.1	NM_021938		T	3285978	A	T	3285978	3	4	695	1	0	0	0	0	1	0	0	0	3221	188	7	5	1179	5	CELF5	19	3285978	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10		3285978	55843005	117	45443										
ATP13A1	57130	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	19758062	19758062	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tgtaggccaggatgagggcaTtgagcgccaggatcttgaac	15	8	1	3			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr19:19758062T>C	ENST00000357324.6	-	22	3007	c.2981A>G	c.(2980-2982)aAt>aGt	p.N994S	ATP13A1_ENST00000291503.5_Missense_Mutation_p.N876S	NM_020410.2	NP_065143.2	Q9HD20	AT131_HUMAN	ATPase type 13A1	994						endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|metal ion binding (GO:0046872)			central_nervous_system(3)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|liver(2)|lung(7)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	29						GATGAGGGCATTGAGCGCCAG	0.632																																					Esophageal Squamous(142;920 1789 9047 14684 24777)											0													108	109	109					19																	19758062		2203	4300	6503	SO:0001583	missense	57130			AK056420	CCDS32970.2	19p13.11	2010-04-20	2005-01-12	2005-01-12	ENSG00000105726	ENSG00000105726		"ATPases / P-type"	24215	protein-coding gene	gene with protein product	"cation transporting ATPase"		"ATPase type 13A"	ATP13A		11347906	Standard	NM_020410		Approved	KIAA1825, FLJ31858, CGI-152	uc002nnh.4	Q9HD20	OTTHUMG00000153016	ENST00000357324.6:c.2981A>G	19.37:g.19758062T>C	ENSP00000349877:p.Asn994Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPJ2|B3KTA7|Q6NT90|Q6ZMG7|Q9H6C6	Missense_Mutation	SNP	ENST00000357324.6	37	CCDS32970.2	.	.	.	.	.	.	.	.	.	.	T	22.3	4.274546	0.80580	.	.	ENSG00000105726	ENST00000291503;ENST00000357324	D;D	0.88354	-2.37;-2.37	4.75	4.75	0.60458	.	0.000000	0.85682	D	0.000000	D	0.91784	0.7401	M	0.75264	2.295	0.80722	D	1	D;D	0.59357	0.974;0.985	P;P	0.61592	0.78;0.891	D	0.89608	0.3839	10	0.11794	T	0.64	-19.537	12.2865	0.54795	0.0:0.0:0.0:1.0	.	994;876	Q9HD20;Q9HD20-2	AT131_HUMAN;.	S	876;994	ENSP00000291503:N876S;ENSP00000349877:N994S	ENSP00000291503:N876S	N	-	2	0	ATP13A1	19619062	1.000000	0.71417	0.855000	0.33649	0.995000	0.86356	7.576000	0.82467	1.789000	0.52484	0.529000	0.55759	AAT		0.632	ATP13A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000329005.1	NM_020410		C	19758062	T	C	19758062	3	2	695	1	0	0	0	0	1	0	0	0	1123	1493	52	3	653	3	ATP13A1	19	19758062	Missense_Mutation	SNP	T	TCGA-P4-A5E6-01A-11D-A28G-10	16472084	19758062	39370921	118	45444										
GRAMD1A	57655	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	35506763	35506763	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tgcttcccgacctctccggcCgcctcctcatcaactctgtc	6	20	4	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr19:35506763C>T	ENST00000317991.5	+	11	1297	c.1105C>T	c.(1105-1107)Cgc>Tgc	p.R369C	CTD-2527I21.14_ENST00000605640.1_RNA|GRAMD1A_ENST00000599564.1_Missense_Mutation_p.R456C|GRAMD1A_ENST00000411896.2_Missense_Mutation_p.R362C|GRAMD1A_ENST00000504615.2_Missense_Mutation_p.R135C	NM_020895.3	NP_065946.2	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A	369						integral component of membrane (GO:0016021)				NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(10)|prostate(1)|upper_aerodigestive_tract(1)	19	all_lung(56;2.66e-08)|Lung NSC(56;4.13e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			CCTCTCCGGCCGCCTCCTCAT	0.642																																																0													39	44	42					19																	35506763		2115	4223	6338	SO:0001583	missense	57655			AK074864	CCDS42546.1, CCDS46046.1	19q13.13	2008-02-05	2005-11-02	2005-11-02		ENSG00000089351			29305	protein-coding gene	gene with protein product			"KIAA1533"	KIAA1533		10819331	Standard	NM_020895		Approved	FLJ90346	uc010xse.1	Q96CP6		ENST00000317991.5:c.1105C>T	19.37:g.35506763C>T	ENSP00000441032:p.Arg369Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKY7|Q8NC77|Q9P1Z5	Missense_Mutation	SNP	ENST00000317991.5	37	CCDS42546.1	.	.	.	.	.	.	.	.	.	.	C	21.3	4.127959	0.77549	.	.	ENSG00000089351	ENST00000453966;ENST00000504615;ENST00000317991;ENST00000411896	T;T;T	0.60548	0.18;1.34;1.3	5.01	5.01	0.66863	.	0.067735	0.64402	D	0.000013	T	0.75398	0.3844	M	0.82323	2.585	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.80764	0.96;0.994;0.917;0.975	T	0.78443	-0.2202	10	0.87932	D	0	.	10.8825	0.46946	0.1875:0.8125:0.0:0.0	.	369;369;135;362	Q96CP6-3;Q96CP6;B3KQF7;Q96CP6-2	.;GRM1A_HUMAN;.;.	C	455;135;369;362	ENSP00000423728:R135C;ENSP00000441032:R369C;ENSP00000439267:R362C	ENSP00000441032:R369C	R	+	1	0	GRAMD1A	40198603	1.000000	0.71417	0.997000	0.53966	0.988000	0.76386	3.193000	0.50997	2.615000	0.88500	0.555000	0.69702	CGC		0.642	GRAMD1A-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000461557.1	NM_020895		T	35506763	C	T	35506763	3	4	695	1	0	0	0	0	1	0	0	0	6754	652	23	1	1147	1	GRAMD1A	19	35506763	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	15748701	35506763	23622220	119	45445										
RSPH6A	81492	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	46305454	46305454	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	tctggcccctcatctgccttCtcttcctcctcccccaggtc	5	21	4	0			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr19:46305454C>G	ENST00000221538.3	-	4	1864	c.1722G>C	c.(1720-1722)gaG>gaC	p.E574D	RSPH6A_ENST00000597055.1_Missense_Mutation_p.E574D|RSPH6A_ENST00000600188.1_Missense_Mutation_p.E310D	NM_030785.3	NP_110412.1	Q9H0K4	RSH6A_HUMAN	radial spoke head 6 homolog A (Chlamydomonas)	574	Glu-rich.					intracellular (GO:0005622)				central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(6)|liver(1)|lung(14)|ovary(2)|prostate(1)|skin(1)|urinary_tract(2)	32						catctgccttctcttcctcct	0.622																																																0													111	73	86					19																	46305454		2203	4300	6503	SO:0001583	missense	81492			AL136761	CCDS12675.1	19q13.3	2010-02-17	2009-11-18	2009-11-18	ENSG00000104941	ENSG00000104941			14241	protein-coding gene	gene with protein product		607548	"radial spokehead-like 1"	RSHL1		11237735	Standard	NM_030785		Approved	RSP4, RSP6, RSPH4B	uc002pdm.3	Q9H0K4		ENST00000221538.3:c.1722G>C	19.37:g.46305454C>G	ENSP00000221538:p.Glu574Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q53FE2|Q6PEZ9	Missense_Mutation	SNP	ENST00000221538.3	37	CCDS12675.1	.	.	.	.	.	.	.	.	.	.	C	11.81	1.748680	0.30955	.	.	ENSG00000104941	ENST00000221538	T	0.19806	2.12	4.27	2.08	0.27032	.	0.108659	0.64402	D	0.000011	T	0.15912	0.0383	L	0.48986	1.54	0.27895	N	0.939171	P	0.41978	0.767	B	0.38985	0.287	T	0.08827	-1.0703	10	0.26408	T	0.33	-9.2878	6.3085	0.21151	0.0:0.764:0.0:0.236	.	574	Q9H0K4	RSH6A_HUMAN	D	574	ENSP00000221538:E574D	ENSP00000221538:E574D	E	-	3	2	RSPH6A	50997294	0.980000	0.34600	1.000000	0.80357	0.407000	0.30961	0.054000	0.14205	0.710000	0.31997	-0.390000	0.06520	GAG		0.622	RSPH6A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000461657.1			G	46305454	C	G	46305454	3	3	695	1	0	0	0	0	1	0	0	0	13720	912	32	4	443	4	RSPH6A	19	46305454	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	10798691	46305454	12823529	120	45446										
GLTSCR1	29998	hgsc.bcm.edu	37	chr19	48183660	48183660	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gcgggccagaacgtggtgctGtcgggcttccccgcgcctgc	16	15	0	1	rs145963832	byFrequency	TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr19:48183660G>A	ENST00000396720.3	+	6	1427	c.1233G>A	c.(1231-1233)ctG>ctA	p.L411L	CTD-2571L23.8_ENST00000599924.1_lincRNA	NM_015711.3	NP_056526.3	Q9NZM4	GSCR1_HUMAN	glioma tumor suppressor candidate region gene 1	411										breast(2)|endometrium(1)|kidney(1)|large_intestine(4)|lung(3)|pancreas(3)|prostate(4)|skin(2)	20		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)		ACGTGGTGCTGTCGGGCTTCC	0.741													G|||	75	0.014976	0.0469	0.0058	5008	,	,		9935	0.0		0.007	False		,,,				2504	0.002															0								G		101,3065		2,97,1484	5	8	7		1233	-4.3	0.6	19	dbSNP_134	7	28,6636		0,28,3304	no	coding-synonymous	GLTSCR1	NM_015711.3		2,125,4788	AA,AG,GG		0.4202,3.1901,1.3123		411/1561	48183660	129,9701	1583	3332	4915	SO:0001819	synonymous_variant	29998			AF182077	CCDS46134.1	19q13.3	2012-11-29			ENSG00000063169	ENSG00000063169			4332	protein-coding gene	gene with protein product		605690				10708517	Standard	NM_015711		Approved		uc002phh.4	Q9NZM4		ENST00000396720.3:c.1233G>A	19.37:g.48183660G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8MW01	Silent	SNP	ENST00000396720.3	37	CCDS46134.1																																																																																				0.741	GLTSCR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465846.1	NM_015711		A	48183660	G	A	48183660	2	1	695	1	0	0	0	0	0	0	0	1	6481	1364	48	2		2	GLTSCR1	19	48183660	Silent	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	1878206	48183660	10945323	121	45447										
GLTSCR1	29998	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	48183987	48183987	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	atcctcacaaaccagaacctGgcgggcccactgagcctggg	11	15	1	2	rs377326337		TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr19:48183987G>T	ENST00000396720.3	+	6	1754	c.1560G>T	c.(1558-1560)ctG>ctT	p.L520L	CTD-2571L23.8_ENST00000599924.1_lincRNA	NM_015711.3	NP_056526.3	Q9NZM4	GSCR1_HUMAN	glioma tumor suppressor candidate region gene 1	520										breast(2)|endometrium(1)|kidney(1)|large_intestine(4)|lung(3)|pancreas(3)|prostate(4)|skin(2)	20		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)		ACCAGAACCTGGCGGGCCCAC	0.726																																																0													26	32	30					19																	48183987		1884	4062	5946	SO:0001819	synonymous_variant	29998			AF182077	CCDS46134.1	19q13.3	2012-11-29			ENSG00000063169	ENSG00000063169			4332	protein-coding gene	gene with protein product		605690				10708517	Standard	NM_015711		Approved		uc002phh.4	Q9NZM4		ENST00000396720.3:c.1560G>T	19.37:g.48183987G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MW01	Silent	SNP	ENST00000396720.3	37	CCDS46134.1																																																																																				0.726	GLTSCR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465846.1	NM_015711		T	48183987	G	T	48183987	2	4	695	1	0	0	0	0	0	0	0	1	6481	1335	47	4		4	GLTSCR1	19	48183987	Silent	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	327	48183987	10944996	122	45448										
SBK2	646643	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	56047489	56047489	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	cttcctcgtagagctcgtccAcctcggctcggaccagggtc	11	16	0	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr19:56047489A>C	ENST00000413299.1	-	2	210	c.173T>G	c.(172-174)gTg>gGg	p.V58G	SBK2_ENST00000344158.3_Missense_Mutation_p.V58G	NM_001101401.2	NP_001094871.2	P0C263	SBK2_HUMAN	SH3 domain binding kinase family, member 2	58							ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			endometrium(1)|lung(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	9						GAGCTCGTCCACCTCGGCTCG	0.657																																																0													33	37	36					19																	56047489		2120	4212	6332	SO:0001583	missense	646643				CCDS42631.1	19q13.42	2013-09-27	2013-09-27		ENSG00000187550	ENSG00000187550			34416	protein-coding gene	gene with protein product			"SH3-binding domain kinase family, member 2"				Standard	NM_001101401		Approved	SGK069	uc010ygc.2	P0C263	OTTHUMG00000155830	ENST00000413299.1:c.173T>G	19.37:g.56047489A>C	ENSP00000389015:p.Val58Gly	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000413299.1	37	CCDS42631.1	.	.	.	.	.	.	.	.	.	.	A	18.86	3.714242	0.68730	.	.	ENSG00000187550	ENST00000413299;ENST00000344158	T;T	0.72615	-0.67;-0.67	4.44	3.42	0.39159	Protein kinase-like domain (1);	0.145674	0.45361	D	0.000372	T	0.55673	0.1935	N	0.24115	0.695	0.58432	D	0.999995	P	0.44659	0.84	B	0.42062	0.374	T	0.56649	-0.7944	10	0.72032	D	0.01	-26.5917	8.3241	0.32147	0.9021:0.0:0.0979:0.0	.	58	P0C263	SBK2_HUMAN	G	58	ENSP00000389015:V58G;ENSP00000345044:V58G	ENSP00000345044:V58G	V	-	2	0	SBK2	60739301	0.757000	0.28394	0.995000	0.50966	0.864000	0.49448	6.326000	0.72905	0.673000	0.31224	0.379000	0.24179	GTG		0.657	SBK2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341919.1	NM_001101401		C	56047489	A	C	56047489	3	2	695	1	0	0	0	0	1	0	0	0	13874	159	6	5	884	5	SBK2	19	56047489	Missense_Mutation	SNP	A	TCGA-P4-A5E6-01A-11D-A28G-10	7863502	56047489	3081494	123	45449										
VSX1	30813	hgsc.bcm.edu	37	chr20	25062342	25062342	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gctgtcgctgcgcttctggcGgccgagcgcaggcggcggac	18	14	1	0	rs6050307	byFrequency	TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr20:25062342G>T	ENST00000376709.4	-	1	654	c.391C>A	c.(391-393)Cgc>Agc	p.R131S	VSX1_ENST00000398332.1_Missense_Mutation_p.R131S|VSX1_ENST00000444511.2_Missense_Mutation_p.R131S|VSX1_ENST00000429762.3_Missense_Mutation_p.R131S|VSX1_ENST00000376707.3_Missense_Mutation_p.R131S|VSX1_ENST00000424574.1_Missense_Mutation_p.R131S|VSX1_ENST00000451258.1_Missense_Mutation_p.R131S	NM_014588.5	NP_055403.2	Q9NZR4	VSX1_HUMAN	visual system homeobox 1	131			R -> S (in dbSNP:rs6050307). {ECO:0000269|PubMed:15051220}.		neuron maturation (GO:0042551)|response to stimulus (GO:0050896)|retinal bipolar neuron differentiation (GO:0060040)|transcription, DNA-templated (GO:0006351)|visual perception (GO:0007601)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|large_intestine(3)|lung(2)	6						CGCTTCTGGCGGCCGAGCGCA	0.741													G|||	206	0.0411342	0.1483	0.0144	5008	,	,		11176	0.0		0.0	False		,,,				2504	0.0															0								G	SER/ARG,SER/ARG	328,3228		8,312,1458	4	4	4		391,391	-3.9	0	20	dbSNP_114	4	13,6761		0,13,3374	yes	missense,missense	VSX1	NM_014588.4,NM_199425.1	110,110	8,325,4832	TT,TG,GG		0.1919,9.2238,3.3011	benign,benign	131/366,131/240	25062342	341,9989	1778	3387	5165	SO:0001583	missense	30813			AF176797	CCDS13168.1, CCDS13169.1, CCDS58766.1, CCDS58767.1	20p11.21	2014-02-14	2007-07-12		ENSG00000100987	ENSG00000100987		"Homeoboxes / PRD class"	12723	protein-coding gene	gene with protein product		605020	"posterior polymorphous corneal dystrophy", "visual system homeobox 1 homolog, CHX10-like (zebrafish)"	PPCD		10673340	Standard	NM_001256272		Approved	PPD, PPCD1	uc002wuf.4	Q9NZR4	OTTHUMG00000032111	ENST00000376709.4:c.391C>A	20.37:g.25062342G>T	ENSP00000365899:p.Arg131Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGJ4|D1MF28|Q0GM60|Q0GM61|Q0GM62|Q0GM63|Q0GM64|Q0GM65|Q5TF40|Q5TF41|Q9HCU3|Q9NU27	Missense_Mutation	SNP	ENST00000376709.4	37	CCDS13168.1	90	0.04120879120879121	82	0.16666666666666666	8	0.022099447513812154	0	0.0	0	0.0	G	3.761	-0.049660	0.07407	0.092238	0.001919	ENSG00000100987	ENST00000429762;ENST00000444511;ENST00000424574;ENST00000451258;ENST00000376709;ENST00000376707;ENST00000398332	D;D;D;D;D;D;T	0.91792	-2.73;-2.91;-2.72;-2.77;-2.82;-2.83;-0.0	4.14	-3.91	0.04168	.	1.617690	0.02904	N	0.135773	T	0.00412	0.0013	N	0.00926	-1.1	0.80722	P	0.0	B;B;B;B	0.09022	0.001;0.0;0.002;0.0	B;B;B;B	0.06405	0.001;0.002;0.001;0.001	T	0.56992	-0.7887	9	0.06625	T	0.88	.	0.1523	0.00094	0.3252:0.149:0.2095:0.3163	rs6050307;rs61429181	131;131;131;131	Q9NZR4-7;Q9NZR4-8;Q9NZR4-2;Q9NZR4	.;.;.;VSX1_HUMAN	S	131	ENSP00000401690:R131S;ENSP00000387720:R131S;ENSP00000399496:R131S;ENSP00000389654:R131S;ENSP00000365899:R131S;ENSP00000365897:R131S;ENSP00000381376:R131S	ENSP00000365897:R131S	R	-	1	0	VSX1	25010342	0.000000	0.05858	0.000000	0.03702	0.543000	0.35085	-0.882000	0.04174	-0.591000	0.05859	0.563000	0.77884	CGC		0.741	VSX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078384.3			T	25062342	G	T	25062342	3	4	695	1	0	0	0	0	1	0	0	0	17243	1116	39	4	819	4	VSX1	20	25062342	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10		25062342	37963178	124	45450										
ZBTB46	140685	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	62378613	62378613	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gcggcggacatgaagacgcgGctgcacaccttgcacacata	12	13	0	2			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr20:62378613G>T	ENST00000245663.4	-	5	1590	c.1440C>A	c.(1438-1440)agC>agA	p.S480R	ZBTB46_ENST00000302995.2_Missense_Mutation_p.S480R|RP4-583P15.10_ENST00000447343.2_RNA|RP4-583P15.10_ENST00000433905.2_RNA|ZBTB46_ENST00000395104.1_Missense_Mutation_p.S480R	NM_025224.3	NP_079500.2	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	480					negative regulation of dendritic cell differentiation (GO:2001199)|negative regulation of granulocyte differentiation (GO:0030853)|negative regulation of macrophage differentiation (GO:0045650)|negative regulation of monocyte differentiation (GO:0045656)|positive regulation of dendritic cell differentiation (GO:2001200)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)			endometrium(2)|kidney(1)|large_intestine(9)|lung(9)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	24	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					TGAAGACGCGGCTGCACACCT	0.701																																																0													9	7	8					20																	62378613		2124	4163	6287	SO:0001583	missense	140685			AK131482	CCDS13538.1	20q13.33	2013-01-08	2006-09-19	2006-09-19	ENSG00000130584	ENSG00000130584		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	16094	protein-coding gene	gene with protein product	"BTB-ZF protein expressed in effector lymphocytes"	614639	"BTB (POZ) domain containing 4"	ZNF340, BTBD4			Standard	NM_025224		Approved	FLJ13502, RINZF, BZEL	uc002ygv.2	Q86UZ6	OTTHUMG00000033001	ENST00000245663.4:c.1440C>A	20.37:g.62378613G>T	ENSP00000245663:p.Ser480Arg	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5K9|Q5JWJ3|Q6GMV4|Q9BQK3|Q9H3Z8|Q9H3Z9	Missense_Mutation	SNP	ENST00000245663.4	37	CCDS13538.1	.	.	.	.	.	.	.	.	.	.	G	14.61	2.585999	0.46110	.	.	ENSG00000130584	ENST00000245663;ENST00000302995;ENST00000395104	T;T;T	0.15487	2.42;2.42;2.42	4.29	3.16	0.36331	Zinc finger, C2H2-like (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.174840	0.48767	D	0.000179	T	0.11793	0.0287	L	0.28504	0.86	0.46336	D	0.998998	P	0.38048	0.616	B	0.35278	0.199	T	0.09509	-1.0671	10	0.39692	T	0.17	.	10.1961	0.43056	0.1118:0.0:0.8882:0.0	.	480	Q86UZ6	ZBT46_HUMAN	R	480	ENSP00000245663:S480R;ENSP00000303102:S480R;ENSP00000378536:S480R	ENSP00000245663:S480R	S	-	3	2	ZBTB46	61849057	1.000000	0.71417	0.991000	0.47740	0.822000	0.46500	2.148000	0.42235	0.504000	0.28082	0.462000	0.41574	AGC		0.701	ZBTB46-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080232.2	NM_025224		T	62378613	G	T	62378613	3	4	695	1	0	0	0	0	1	0	0	0	17559	1194	42	4	333	4	ZBTB46	20	62378613	Missense_Mutation	SNP	G	TCGA-P4-A5E6-01A-11D-A28G-10	37316271	62378613	646907	125	45451										
MICAL3	57553	hgsc.bcm.edu;broad.mit.edu	37	chr22	18300505	18300505	+	Frame_Shift_Del	DEL	T	T	-													0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	caggccggcgctccttgcccTgggagggtgctgaggacgcc							TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr22:18300505delT	ENST00000441493.2	-	26	5274	c.4922delA	c.(4921-4923)cagfs	p.Q1641fs	MICAL3_ENST00000580469.1_5'Flank	NM_015241.2	NP_056056.2	Q7RTP6	MICA3_HUMAN	microtubule associated monooxygenase, calponin and LIM domain containing 3	1641					actin filament depolymerization (GO:0030042)|cytoskeleton organization (GO:0007010)|exocytosis (GO:0006887)|oxidation-reduction process (GO:0055114)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nucleus (GO:0005634)	actin binding (GO:0003779)|FAD binding (GO:0071949)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen (GO:0016709)|zinc ion binding (GO:0008270)			large_intestine(1)|lung(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	4		all_epithelial(15;0.198)		Lung(27;0.0427)		CTCCTTGCCCTGGGAGGGTGC	0.711																																																0													13	18	16					22																	18300505		1932	4104	6036	SO:0001589	frameshift_variant	57553			AB037785	CCDS46659.1, CCDS46660.1, CCDS46661.1	22q11.21	2013-03-26	2013-03-26		ENSG00000243156	ENSG00000243156			24694	protein-coding gene	gene with protein product		608882				12110185	Standard	NM_015241		Approved	KIAA0819	uc002zng.4	Q7RTP6	OTTHUMG00000150067	ENST00000441493.2:c.4922delA	22.37:g.18300505delT	ENSP00000416015:p.Gln1641fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RXJ5|E9PEF0|O94909|Q5U4P4|Q6ICK4|Q96DF2|Q9P2I3	Frame_Shift_Del	DEL	ENST00000441493.2	37	CCDS46659.1																																																																																				0.711	MICAL3-010	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000447351.1			-	18300505	T	-	18300505	7	5	695	1	0	1	0	1	0	0	0	0	9578	1580	55	0	1114	0	MICAL3	22	18300505	Frame_Shift_Del	DEL	T	TCGA-P4-A5E6-01A-11D-A28G-10		18300505	33004061	126	45452										
RRP7A	27341	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	42912080	42912080	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.04	5	1	0.807610993657505	1.6921373200443	0.261285909712722	0.294117647058823	1	0	gggctctcagccaggtccggCttctcctgcaactctacaga	10	15	3	1			TCGA-P4-A5E6-01A-11D-A28G-10	TCGA-P4-A5E6-11A-22D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8c543688-1b5c-4af6-806b-9c9e444a740f	5b0f01b3-0aee-4950-87e0-0a6c395d73a4	g.chr22:42912080C>A	ENST00000323013.6	-	3	294	c.279G>T	c.(277-279)aaG>aaT	p.K93N		NM_015703.4	NP_056518.2	Q9Y3A4	RRP7A_HUMAN	ribosomal RNA processing 7 homolog A (S. cerevisiae)	93							nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			central_nervous_system(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|liver(2)|lung(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	10						CCAGGTCCGGCTTCTCCTGCA	0.617																																																0													57	51	53					22																	42912080		2203	4300	6503	SO:0001583	missense	27341			BC035992	CCDS14036.1	22q13.2	2008-08-08			ENSG00000189306	ENSG00000189306			24286	protein-coding gene	gene with protein product						10810093, 12087473	Standard	NM_015703		Approved	CGI-96	uc003bcq.3	Q9Y3A4	OTTHUMG00000150891	ENST00000323013.6:c.279G>T	22.37:g.42912080C>A	ENSP00000321449:p.Lys93Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A4FTX2|B2RBG4|Q0VAD0|Q5JZ94|Q6P4B5|Q8IVR9|Q8IVY0|Q8N5Q3|Q8NEY6|Q9Y3H5	Missense_Mutation	SNP	ENST00000323013.6	37	CCDS14036.1	.	.	.	.	.	.	.	.	.	.	C	12.33	1.907011	0.33628	.	.	ENSG00000189306	ENST00000323013	T	0.15952	2.38	3.93	2.9	0.33743	Nucleotide-binding, alpha-beta plait (1);RNA recognition motif domain (1);	0.106611	0.64402	D	0.000007	T	0.30103	0.0754	M	0.72576	2.205	0.51012	D	0.999906	D	0.56035	0.974	P	0.55577	0.779	T	0.03818	-1.1001	10	0.72032	D	0.01	-34.7209	8.4778	0.33023	0.0:0.7373:0.0:0.2627	.	93	Q9Y3A4	RRP7A_HUMAN	N	93	ENSP00000321449:K93N	ENSP00000321449:K93N	K	-	3	2	RRP7A	41242024	1.000000	0.71417	0.993000	0.49108	0.007000	0.05969	0.731000	0.26058	0.946000	0.37632	-0.346000	0.07831	AAG		0.617	RRP7A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320451.1	NM_015703		A	42912080	C	A	42912080	3	1	695	1	0	0	0	0	1	0	0	0	13702	796	28	4	583	4	RRP7A	22	42912080	Missense_Mutation	SNP	C	TCGA-P4-A5E6-01A-11D-A28G-10	24611575	42912080	8392486	127	45453										
KIF1B	23095	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	10328310	10328310	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	acgataatgagaccaaccttTccactgagaaggtaggagag	11	8	0	3			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr1:10328310T>C	ENST00000377086.1	+	7	911	c.709T>C	c.(709-711)Tcc>Ccc	p.S237P	KIF1B_ENST00000263934.6_Missense_Mutation_p.S237P|KIF1B_ENST00000377093.4_Missense_Mutation_p.S237P|KIF1B_ENST00000377083.1_Missense_Mutation_p.S237P|KIF1B_ENST00000377081.1_Missense_Mutation_p.S237P			O60333	KIF1B_HUMAN	kinesin family member 1B	237	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.			NLSTE -> ILATV (in Ref. 3; AAK49332, 4; AAK85155 and 5; AAN17742). {ECO:0000305}.	anterograde axon cargo transport (GO:0008089)|apoptotic process (GO:0006915)|cytoskeleton-dependent intracellular transport (GO:0030705)|microtubule-based movement (GO:0007018)|mitochondrion transport along microtubule (GO:0047497)|neuromuscular synaptic transmission (GO:0007274)|neuron-neuron synaptic transmission (GO:0007270)|vesicle-mediated transport (GO:0016192)	cytoplasmic vesicle (GO:0031410)|cytoplasmic vesicle membrane (GO:0030659)|kinesin complex (GO:0005871)|microtubule (GO:0005874)|microtubule associated complex (GO:0005875)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|kinesin binding (GO:0019894)|microtubule motor activity (GO:0003777)|plus-end-directed microtubule motor activity (GO:0008574)			breast(2)|endometrium(7)|kidney(8)|large_intestine(9)|lung(29)|ovary(3)|prostate(3)|skin(5)|stomach(3)|upper_aerodigestive_tract(2)	71	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)		GACCAACCTTTCCACTGAGAA	0.448																																																0													81	71	74					1																	10328310		2203	4300	6503	SO:0001583	missense	23095			AF257176	CCDS111.1, CCDS112.1	1p36.22	2014-09-17			ENSG00000054523	ENSG00000054523		"Kinesins", "Pleckstrin homology (PH) domain containing"	16636	protein-coding gene	gene with protein product		605995		CMT2A, CMT2		11389829, 10762626	Standard	NM_015074		Approved	KIAA0591, KLP, HMSNII	uc001aqw.4	O60333	OTTHUMG00000001817	ENST00000377086.1:c.709T>C	1.37:g.10328310T>C	ENSP00000366290:p.Ser237Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFS8|A6NKQ4|Q4VXC3|Q4VXC4|Q4VXC5|Q4VXC6|Q96Q94|Q9BV80|Q9P280	Missense_Mutation	SNP	ENST00000377086.1	37		.	.	.	.	.	.	.	.	.	.	T	20.9	4.073545	0.76415	.	.	ENSG00000054523	ENST00000355249;ENST00000263934;ENST00000377093;ENST00000377086;ENST00000377083;ENST00000377081	D;D;D;D;D	0.88586	-2.4;-2.4;-2.4;-2.4;-2.4	5.94	4.8	0.61643	Kinesin, motor domain (4);	0.000000	0.85682	D	0.000000	D	0.86944	0.6055	N	0.20610	0.595	0.58432	D	0.999998	P;P;P;P;B;D;B	0.62365	0.62;0.62;0.853;0.736;0.032;0.991;0.142	P;P;P;P;B;P;B	0.56088	0.53;0.53;0.53;0.53;0.05;0.791;0.103	D	0.86389	0.1734	10	0.44086	T	0.13	.	12.4278	0.55557	0.126:0.0:0.0:0.874	.	237;237;237;237;237;237;237	Q4R9M9;Q4R9M7;Q4VXC4;Q4R9M8;O60333;O60333-2;O60333-3	.;.;.;.;KIF1B_HUMAN;.;.	P	237	ENSP00000263934:S237P;ENSP00000366297:S237P;ENSP00000366290:S237P;ENSP00000366287:S237P;ENSP00000366284:S237P	ENSP00000263934:S237P	S	+	1	0	KIF1B	10250897	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.719000	0.47244	1.040000	0.40099	0.528000	0.53228	TCC		0.448	KIF1B-001	NOVEL	basic	protein_coding	protein_coding	OTTHUMT00000005102.1			C	10328310	T	C	10328310	3	2	696	1	0	0	0	0	1	0	0	0	8291	1783	62	3	731	3	KIF1B	1	10328310	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10		10328310	238922311	1	45454										
VPS13D	55187	bcgsc.ca	37	chr1	12378145	12378145	+	Frame_Shift_Del	DEL	T	T	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	atagatctaccaaggattccTcctgctttacagtagttctc							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr1:12378145delT	ENST00000358136.3	+	31	7295	c.7165delT	c.(7165-7167)tccfs	p.S2389fs	VPS13D_ENST00000356315.4_Frame_Shift_Del_p.S2389fs	NM_015378.2	NP_056193.2			vacuolar protein sorting 13 homolog D (S. cerevisiae)											NS(1)|breast(6)|endometrium(11)|haematopoietic_and_lymphoid_tissue(2)|kidney(13)|large_intestine(28)|lung(44)|ovary(5)|pancreas(1)|prostate(8)|skin(4)|upper_aerodigestive_tract(3)|urinary_tract(4)	130	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)		CAAGGATTCCTCCTGCTTTAC	0.358																																																0													174	178	177					1																	12378145		2203	4300	6503	SO:0001589	frameshift_variant	55187			AJ608774	CCDS30588.1, CCDS30589.1	1p36.21	2008-02-05	2006-04-04		ENSG00000048707	ENSG00000048707			23595	protein-coding gene	gene with protein product		608877	"vacuolar protein sorting 13D (yeast)"				Standard	NM_015378		Approved	FLJ10619, KIAA0453	uc001atv.3	Q5THJ4	OTTHUMG00000013155	ENST00000358136.3:c.7165delT	1.37:g.12378145delT	ENSP00000350854:p.Ser2389fs	Somatic		WXS	Illumina HiSeq	Phase_1		Frame_Shift_Del	DEL	ENST00000358136.3	37	CCDS30588.1																																																																																				0.358	VPS13D-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000036897.2	NM_015378		-	12378145	T	-	12378145	7	5	696	1	0	1	0	1	0	0	0	0	17204	1551	54	0	7283	0	VPS13D	1	12378145	Frame_Shift_Del	DEL	T	TCGA-P4-A5E7-01A-31D-A28G-10	2049835	12378145	236872476	2	45455										
HMGCL	3155	hgsc.bcm.edu	37	chr1	24151846	24151846	+	Splice_Site	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cggcggctcggggcacttacAgcccggagggacgccaagcc	16	15	0	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr1:24151846A>G	ENST00000374490.3	-	1	103	c.60T>C	c.(58-60)gcT>gcC	p.A20A	HMGCL_ENST00000509389.1_5'UTR|HMGCL_ENST00000436439.2_Splice_Site_p.A20A|HMGCL_ENST00000374483.4_Intron	NM_000191.2	NP_000182.2	P35914	HMGCL_HUMAN	3-hydroxymethyl-3-methylglutaryl-CoA lyase	20					acyl-CoA metabolic process (GO:0006637)|cellular ketone body metabolic process (GO:0046950)|cellular lipid metabolic process (GO:0044255)|ketone body biosynthetic process (GO:0046951)|leucine catabolic process (GO:0006552)|liver development (GO:0001889)|mitochondrion organization (GO:0007005)|protein tetramerization (GO:0051262)|response to fatty acid (GO:0070542)|response to nutrient (GO:0007584)|response to starvation (GO:0042594)|small molecule metabolic process (GO:0044281)	mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|peroxisome (GO:0005777)	carboxylic acid binding (GO:0031406)|fatty-acyl-CoA binding (GO:0000062)|hydroxymethylglutaryl-CoA lyase activity (GO:0004419)|magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|metal ion binding (GO:0046872)|protein homodimerization activity (GO:0042803)|receptor binding (GO:0005102)			central_nervous_system(1)|endometrium(2)|large_intestine(2)|lung(3)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	12		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;0.0044)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;2.38e-24)|Colorectal(126;5.58e-08)|COAD - Colon adenocarcinoma(152;3.12e-06)|GBM - Glioblastoma multiforme(114;4.9e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000982)|KIRC - Kidney renal clear cell carcinoma(1967;0.0034)|STAD - Stomach adenocarcinoma(196;0.0128)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0856)|LUSC - Lung squamous cell carcinoma(448;0.188)		GGGCACTTACAGCCCGGAGGG	0.706																																																0													10	11	10					1																	24151846		2085	4077	6162	SO:0001630	splice_region_variant	3155			BC010570	CCDS243.1, CCDS53279.1	1p36.1-p35	2010-04-30	2010-04-30		ENSG00000117305	ENSG00000117305	4.1.3.4		5005	protein-coding gene	gene with protein product	"hydroxymethylglutaricaciduria"	613898	"3-hydroxymethyl-3-methylglutaryl-Coenzyme A lyase"			8102917, 8978493	Standard	NM_001166059		Approved	HL	uc001bib.3	P35914	OTTHUMG00000002963	ENST00000374490.3:c.60+1T>C	1.37:g.24151846A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DUP4|B7UCC6|D3Y5K7|Q6IBC0|Q96FP8	Silent	SNP	ENST00000374490.3	37	CCDS243.1	.	.	.	.	.	.	.	.	.	.	A	16.83	3.232145	0.58777	.	.	ENSG00000117305	ENST00000235958	.	.	.	5.66	2.13	0.27403	.	.	.	.	.	T	0.54549	0.1865	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.45483	-0.9258	4	.	.	.	-1.3076	6.689	0.23161	0.7318:0.0:0.2682:0.0	.	.	.	.	P	16	.	.	L	-	2	0	HMGCL	24024433	1.000000	0.71417	1.000000	0.80357	0.920000	0.55202	0.764000	0.26532	0.516000	0.28340	0.533000	0.62120	CTG		0.706	HMGCL-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008253.2	NM_000191	Silent	G	24151846	A	G	24151846	5	3	696	1	0	0	0	0	0	0	1	0	7236	202	7	3	953	3	HMGCL	1	24151846	Splice_Site	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	11773701	24151846	225098775	3	45456										
SYNC	81493	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	33161106	33161106	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cccggagcaatacaagctcaTggatgagctgatccctctcc	9	14	2	2	rs554437078		TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr1:33161106T>G	ENST00000409190.3	-	2	1051	c.593A>C	c.(592-594)cAt>cCt	p.H198P	SYNC_ENST00000373484.3_Missense_Mutation_p.H198P	NM_030786.2	NP_110413	Q9H7C4	SYNCI_HUMAN	syncoilin, intermediate filament protein	198	Coil 1A.				intermediate filament-based process (GO:0045103)	cytosol (GO:0005829)|intermediate filament (GO:0005882)|neuromuscular junction (GO:0031594)|sarcolemma (GO:0042383)|Z disc (GO:0030018)	structural molecule activity (GO:0005198)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(2)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	12						TACAAGCTCATGGATGAGCTG	0.567																																																0													89	78	82					1																	33161106		692	1591	2283	SO:0001583	missense	81493			AK024707	CCDS367.2, CCDS53294.1	1p35.1	2013-01-16	2008-09-19	2008-09-19	ENSG00000162520	ENSG00000162520		"Intermediate filaments type III"	28897	protein-coding gene	gene with protein product		611750	"syncoilin, intermediate filament 1"	SYNC1		11053421	Standard	NM_030786		Approved	SYNCOILIN	uc001bvt.2	Q9H7C4	OTTHUMG00000008087	ENST00000409190.3:c.593A>C	1.37:g.33161106T>G	ENSP00000386439:p.His198Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B4DNK8|B4DY58|C9IY41	Missense_Mutation	SNP	ENST00000409190.3	37	CCDS367.2	.	.	.	.	.	.	.	.	.	.	T	16.44	3.123508	0.56613	.	.	ENSG00000162520	ENST00000373484;ENST00000409190	T;T	0.24350	1.86;1.86	4.57	4.57	0.56435	Filament (1);	.	.	.	.	T	0.27559	0.0677	N	0.14661	0.345	0.31839	N	0.623691	D;D	0.76494	0.998;0.999	P;D	0.75020	0.905;0.985	T	0.17471	-1.0368	9	0.31617	T	0.26	-9.3582	5.8491	0.18683	0.0:0.0877:0.1689:0.7435	.	198;198	Q9H7C4-2;Q9H7C4	.;SYNCI_HUMAN	P	198	ENSP00000362583:H198P;ENSP00000386439:H198P	ENSP00000362583:H198P	H	-	2	0	SYNC	32933693	0.988000	0.35896	0.997000	0.53966	0.958000	0.62258	1.916000	0.39986	1.853000	0.53794	0.459000	0.35465	CAT		0.567	SYNC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000022129.3	NM_030786		G	33161106	T	G	33161106	3	3	696	1	0	0	0	0	1	0	0	0	15455	1464	51	5	933	5	SYNC	1	33161106	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10	9009260	33161106	216089515	4	45457										
ZC3H12A	80149	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	37949045	37949045	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ctggcaggagcccgtggggcAgggcaggcagcctggccaag	19	12	0	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr1:37949045A>T	ENST00000373087.6	+	6	1749	c.1633A>T	c.(1633-1635)Agg>Tgg	p.R545W		NM_025079.2	NP_079355.2			zinc finger CCCH-type containing 12A											NS(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(3)|lung(5)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	21		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CCCGTGGGGCAGGGCAGGCAG	0.647																																																0													48	58	55					1																	37949045		2203	4300	6503	SO:0001583	missense	80149				CCDS417.1	1p34.3	2012-07-05			ENSG00000163874	ENSG00000163874		"Zinc fingers, CCCH-type domain containing"	26259	protein-coding gene	gene with protein product	"MCP induced protein 1"	610562				18178554, 22055188	Standard	NM_025079		Approved	FLJ23231, MCPIP1	uc001cbb.4	Q5D1E8	OTTHUMG00000004221	ENST00000373087.6:c.1633A>T	1.37:g.37949045A>T	ENSP00000362179:p.Arg545Trp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000373087.6	37	CCDS417.1	.	.	.	.	.	.	.	.	.	.	A	12.75	2.033050	0.35893	.	.	ENSG00000163874	ENST00000373087;ENST00000373082	T	0.45668	0.89	5.15	2.9	0.33743	.	0.653715	0.14763	N	0.299862	T	0.37544	0.1007	N	0.22421	0.69	0.09310	N	0.999998	D;P	0.59767	0.986;0.923	P;B	0.52554	0.702;0.221	T	0.14868	-1.0457	10	0.66056	D	0.02	-9.4135	7.823	0.29298	0.2651:0.0:0.7349:0.0	.	340;545	B3KSD3;Q5D1E8	.;ZC12A_HUMAN	W	545	ENSP00000362179:R545W	ENSP00000362174:R545W	R	+	1	2	ZC3H12A	37721632	0.000000	0.05858	0.097000	0.21041	0.675000	0.39556	0.003000	0.13083	0.284000	0.22305	0.459000	0.35465	AGG		0.647	ZC3H12A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000012154.2	NM_025079		T	37949045	A	T	37949045	3	4	696	1	0	0	0	0	1	0	0	0	17573	179	7	5	1651	5	ZC3H12A	1	37949045	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	4787939	37949045	211301576	5	45458										
KTI12	112970	hgsc.bcm.edu	37	chr1	52499078	52499078	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ggttctcgttcgcgcccgccAcctgaggtcccgcgatcggg	14	16	1	1	rs563103084|rs377187997	byFrequency	TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr1:52499078A>G	ENST00000371614.1	-	1	410	c.356T>C	c.(355-357)gTg>gCg	p.V119A	RP11-91A18.4_ENST00000425802.1_RNA|TXNDC12_ENST00000371626.4_Intron	NM_138417.2	NP_612426.1	Q96EK9	KTI12_HUMAN	KTI12 homolog, chromatin associated (S. cerevisiae)	119							ATP binding (GO:0005524)			central_nervous_system(2)|endometrium(1)|kidney(1)|lung(4)|ovary(1)|stomach(2)|urinary_tract(1)	12						CGCGCCCGCCACCTGAGGTCC	0.721																																																0													28	34	32					1																	52499078		2194	4277	6471	SO:0001583	missense	112970				CCDS562.1	1p32.3	2008-02-05			ENSG00000198841	ENSG00000198841			25160	protein-coding gene	gene with protein product						11929532	Standard	NM_138417		Approved	TOT4, MGC20419, SBBI81	uc001ctj.1	Q96EK9	OTTHUMG00000008630	ENST00000371614.1:c.356T>C	1.37:g.52499078A>G	ENSP00000360676:p.Val119Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000371614.1	37	CCDS562.1	.	.	.	.	.	.	.	.	.	.	A	9.740	1.164503	0.21538	.	.	ENSG00000198841	ENST00000371614	T	0.39997	1.05	4.93	-9.87	0.00470	.	.	.	.	.	T	0.11750	0.0286	N	0.04880	-0.145	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.15150	-1.0447	9	0.05959	T	0.93	.	2.3401	0.04257	0.1327:0.1704:0.3566:0.3403	.	119	Q96EK9	KTI12_HUMAN	A	119	ENSP00000360676:V119A	ENSP00000360676:V119A	V	-	2	0	KTI12	52271666	0.000000	0.05858	0.000000	0.03702	0.044000	0.14063	-2.926000	0.00691	-2.213000	0.00735	-0.256000	0.11100	GTG		0.721	KTI12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023821.1	NM_138417		G	52499078	A	G	52499078	3	3	696	1	0	0	0	0	1	0	0	0	8591	159	6	3	712	3	KTI12	1	52499078	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	14550033	52499078	196751543	6	45459										
DHCR24	1718	broad.mit.edu	37	chr1	55317995	55317995	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tcgcagcttgtggtacaaggAgccatcaaacatctcccaga	9	12	2	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr1:55317995A>C	ENST00000371269.3	-	9	1560	c.1462T>G	c.(1462-1464)Tcc>Gcc	p.S488A	DHCR24_ENST00000535035.1_Missense_Mutation_p.S447A|DHCR24_ENST00000537443.1_Missense_Mutation_p.S272A	NM_014762.3	NP_055577.1	Q15392	DHC24_HUMAN	24-dehydrocholesterol reductase	488					amyloid precursor protein catabolic process (GO:0042987)|apoptotic process (GO:0006915)|cell cycle arrest (GO:0007050)|cholesterol biosynthetic process (GO:0006695)|male genitalia development (GO:0030539)|membrane organization (GO:0061024)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|oxidation-reduction process (GO:0055114)|plasminogen activation (GO:0031639)|protein localization (GO:0008104)|Ras protein signal transduction (GO:0007265)|regulation of neuron death (GO:1901214)|response to hormone (GO:0009725)|response to oxidative stress (GO:0006979)|skin development (GO:0043588)|small molecule metabolic process (GO:0044281)|tissue development (GO:0009888)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nucleus (GO:0005634)	delta24(24-1) sterol reductase activity (GO:0000246)|delta24-sterol reductase activity (GO:0050614)|enzyme binding (GO:0019899)|flavin adenine dinucleotide binding (GO:0050660)|oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor (GO:0016628)|peptide antigen binding (GO:0042605)|UDP-N-acetylmuramate dehydrogenase activity (GO:0008762)			large_intestine(2)|liver(1)|lung(1)|pancreas(1)|prostate(1)|skin(1)	7						TGGTACAAGGAGCCATCAAAC	0.597																																					Pancreas(39;516 1021 24601 30715 32780)											0													141	123	130					1																	55317995		2203	4300	6503	SO:0001583	missense	1718			AF261758	CCDS600.1	1p32.3	2008-02-05			ENSG00000116133	ENSG00000116133			2859	protein-coding gene	gene with protein product		606418				11519011	Standard	NM_014762		Approved	KIAA0018, seladin-1	uc001cyc.1	Q15392	OTTHUMG00000009989	ENST00000371269.3:c.1462T>G	1.37:g.55317995A>C	ENSP00000360316:p.Ser488Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z817|D3DQ51|Q9HBA8	Missense_Mutation	SNP	ENST00000371269.3	37	CCDS600.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	13.52|13.52	2.262766|2.262766	0.39995|0.39995	.|.	.|.	ENSG00000116133|ENSG00000116133	ENST00000436604|ENST00000539536;ENST00000371269;ENST00000537443;ENST00000535035	.|T;T;T	.|0.69306	.|-0.39;-0.39;-0.39	5.45|5.45	5.45|5.45	0.79879|0.79879	.|.	.|0.277164	.|0.40064	.|N	.|0.001199	T|T	0.47451|0.47451	0.1446|0.1446	N|N	0.16478|0.16478	0.41|0.41	0.36209|0.36209	D|D	0.851231|0.851231	.|B;B;B	.|0.16166	.|0.016;0.007;0.016	.|B;B;B	.|0.14023	.|0.01;0.004;0.007	T|T	0.51236|0.51236	-0.8731|-0.8731	5|10	.|0.14252	.|T	.|0.57	-42.9406|-42.9406	11.5029|11.5029	0.50448|0.50448	0.8501:0.1499:0.0:0.0|0.8501:0.1499:0.0:0.0	.|.	.|447;447;488	.|B7Z817;B7ZAV4;Q15392	.|.;.;DHC24_HUMAN	R|A	125|214;488;272;447	.|ENSP00000360316:S488A;ENSP00000439852:S272A;ENSP00000440191:S447A	.|ENSP00000360316:S488A	L|S	-|-	2|1	0|0	DHCR24|DHCR24	55090583|55090583	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.827000|0.827000	0.46813|0.46813	3.617000|3.617000	0.54181|0.54181	2.079000|2.079000	0.62486|0.62486	0.379000|0.379000	0.24179|0.24179	CTC|TCC		0.597	DHCR24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000027680.1	NM_014762		C	55317995	A	C	55317995	3	2	696	1	0	0	0	0	1	0	0	0	4478	304	11	5	92	5	DHCR24	1	55317995	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	2818917	55317995	193932626	7	45460										
NRAS	4893	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	115256491	115256491	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	acagaggaagccttcgcctgTcctcatgtattggtctctca	9	12	3	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr1:115256491T>A	ENST00000369535.4	-	3	473	c.220A>T	c.(220-222)Aca>Tca	p.T74S		NM_002524.4	NP_002515.1	P01111	RASN_HUMAN	neuroblastoma RAS viral (v-ras) oncogene homolog	74					actin cytoskeleton organization (GO:0030036)|activation of MAPKK activity (GO:0000186)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|epidermal growth factor receptor signaling pathway (GO:0007173)|epithelial tube branching involved in lung morphogenesis (GO:0060441)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|GTP catabolic process (GO:0006184)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|leukocyte migration (GO:0050900)|MAPK cascade (GO:0000165)|negative regulation of cell differentiation (GO:0045596)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of skeletal muscle tissue development (GO:0048642)|neurotrophin TRK receptor signaling pathway (GO:0048011)|positive regulation of cell proliferation (GO:0008284)|positive regulation of Rac protein signal transduction (GO:0035022)|Ras protein signal transduction (GO:0007265)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of synaptic transmission, GABAergic (GO:0032228)|small GTPase mediated signal transduction (GO:0007264)|striated muscle cell differentiation (GO:0051146)|visual learning (GO:0008542)	extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|plasma membrane (GO:0005886)	GTP binding (GO:0005525)|protein complex binding (GO:0032403)			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)		CCTTCGCCTGTCCTCATGTAT	0.418		50	Mis		"melanoma, MM, AML, thyroid"				Noonan syndrome	TSP Lung(23;0.16)|Multiple Myeloma(1;<1E-6)																													Dom	yes		1	1p13.2	4893	neuroblastoma RAS viral (v-ras) oncogene homolog		"L, E"	0													186	159	168					1																	115256491		2203	4300	6503	SO:0001583	missense	4893	Familial Cancer Database	Male Turner syndrome, Pterygium Colli syndrome, incl. Noonan-like/Multiple Giant Cell Lesion syndrome; Noonan s. with multiple lentigines/LEOPARD syndrome	BC005219	CCDS877.1	1p13.2	2014-09-17			ENSG00000213281	ENSG00000213281			7989	protein-coding gene	gene with protein product		164790					Standard	NM_002524		Approved	N-ras	uc009wgu.3	P01111	OTTHUMG00000012059	ENST00000369535.4:c.220A>T	1.37:g.115256491T>A	ENSP00000358548:p.Thr74Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q14971|Q15104|Q15282	Missense_Mutation	SNP	ENST00000369535.4	37	CCDS877.1	.	.	.	.	.	.	.	.	.	.	T	25.1	4.602254	0.87055	.	.	ENSG00000213281	ENST00000369535	T	0.76186	-1.0	5.08	5.08	0.68730	Small GTP-binding protein domain (1);	0.000000	0.56097	U	0.000022	T	0.46054	0.1373	N	0.04373	-0.215	0.80722	D	1	B	0.31640	0.333	B	0.37833	0.259	T	0.59209	-0.7497	10	0.51188	T	0.08	.	15.0132	0.71565	0.0:0.0:0.0:1.0	.	74	P01111	RASN_HUMAN	S	74	ENSP00000358548:T74S	ENSP00000358548:T74S	T	-	1	0	NRAS	115058014	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.787000	0.85759	2.120000	0.65058	0.533000	0.62120	ACA		0.418	NRAS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033395.2	NM_002524		A	115256491	T	A	115256491	3	1	696	1	0	0	0	0	1	0	0	0	10647	1667	58	5	361	5	NRAS	1	115256491	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10	59938496	115256491	133994130	8	45461										
GON4L	54856	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	155723012	155723012	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cacctgaaacaggcatctctCcctttctggtggtcctgaca	8	14	2	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr1:155723012C>G	ENST00000368331.1	-	29	5873	c.5825G>C	c.(5824-5826)gGa>gCa	p.G1942A	GON4L_ENST00000271883.5_Missense_Mutation_p.G1942A|GON4L_ENST00000437809.1_Missense_Mutation_p.G1942A	NM_001282858.1|NM_001282860.1	NP_001269787.1|NP_001269789.1	Q3T8J9	GON4L_HUMAN	gon-4-like (C. elegans)	1942					regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			NS(2)|breast(4)|cervix(1)|endometrium(7)|kidney(4)|large_intestine(7)|lung(10)|ovary(3)|prostate(3)|skin(2)|stomach(1)|urinary_tract(1)	45	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					AGGCATCTCTCCCTTTCTGGT	0.562																																																0													87	97	94					1																	155723012		2081	4197	6278	SO:0001583	missense	54856			AB046826	CCDS1121.1, CCDS44242.1, CCDS60296.1	1q22	2013-10-31	2006-11-08	2006-02-16	ENSG00000116580	ENSG00000116580			25973	protein-coding gene	gene with protein product		610393	"gon-4 homolog (C.elegans)"	GON4		16545939, 21454521	Standard	XM_005245283		Approved	FLJ20203, GON-4	uc001fly.1	Q3T8J9	OTTHUMG00000014106	ENST00000368331.1:c.5825G>C	1.37:g.155723012C>G	ENSP00000357315:p.Gly1942Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBL4|Q14C93|Q3T8J8|Q5VYZ5|Q5W0D5|Q6AWA6|Q6P1Q6|Q7Z3L3|Q8IY79|Q9BQI1|Q9HCG6	Missense_Mutation	SNP	ENST00000368331.1	37		.	.	.	.	.	.	.	.	.	.	C	16.55	3.155475	0.57259	.	.	ENSG00000116580	ENST00000437809;ENST00000368331;ENST00000271883	T;T;T	0.11385	2.78;2.78;2.78	5.19	3.29	0.37713	.	0.446861	0.22376	N	0.060873	T	0.05731	0.0150	L	0.34521	1.04	0.31285	N	0.690131	P;D	0.55385	0.952;0.971	B;P	0.50617	0.444;0.646	T	0.14337	-1.0476	10	0.62326	D	0.03	.	8.7526	0.34626	0.0:0.7683:0.1511:0.0806	.	1942;1942	Q3T8J9;Q3T8J9-3	GON4L_HUMAN;.	A	1942	ENSP00000396117:G1942A;ENSP00000357315:G1942A;ENSP00000271883:G1942A	ENSP00000271883:G1942A	G	-	2	0	GON4L	153989636	0.112000	0.22096	0.988000	0.46212	0.791000	0.44710	0.586000	0.23894	0.739000	0.32628	0.557000	0.71058	GGA		0.562	GON4L-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding		NM_032292		G	155723012	C	G	155723012	3	3	696	1	0	0	0	0	1	0	0	0	6579	855	30	4	913	4	GON4L	1	155723012	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	40466521	155723012	93527609	9	45462										
C1orf61	10485	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	156386616	156386616	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	caagttaaatgttatgagatCctcagtcaggaacatgccag	9	8	2	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr1:156386616C>A	ENST00000368243.1	-	3	132	c.16G>T	c.(16-18)Gat>Tat	p.D6Y		NM_006365.1	NP_006356.1	Q13536	CROC4_HUMAN	chromosome 1 open reading frame 61	6						nucleus (GO:0005634)				large_intestine(2)|lung(2)|skin(1)	5	Hepatocellular(266;0.158)					GTTATGAGATCCTCAGTCAGG	0.438																																																0													117	117	117					1																	156386616		2203	4300	6503	SO:0001583	missense	10485				CCDS1142.1	1q22	2014-03-17			ENSG00000125462	ENSG00000125462			30780	protein-coding gene	gene with protein product	"contingent replication of cDNA-4", "transcriptional activator of the c fos promoter"					10995546, 23012322	Standard	XM_005244832		Approved	CROC4	uc001fou.1	Q13536	OTTHUMG00000031022	ENST00000368243.1:c.16G>T	1.37:g.156386616C>A	ENSP00000357226:p.Asp6Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALL5|B1ALL8	Missense_Mutation	SNP	ENST00000368243.1	37	CCDS1142.1	.	.	.	.	.	.	.	.	.	.	C	11.61	1.690548	0.29962	.	.	ENSG00000125462	ENST00000368243	.	.	.	2.88	-0.293	0.12835	.	.	.	.	.	T	0.15435	0.0372	N	0.14661	0.345	0.09310	N	1	D	0.58268	0.982	P	0.58780	0.845	T	0.04678	-1.0934	8	0.87932	D	0	.	3.3	0.06979	0.0:0.5063:0.2219:0.2718	.	6	Q13536	CROC4_HUMAN	Y	6	.	ENSP00000357226:D6Y	D	-	1	0	C1orf61	154653240	0.000000	0.05858	0.008000	0.14137	0.014000	0.08584	-0.398000	0.07259	-0.056000	0.13221	0.491000	0.48974	GAT		0.438	C1orf61-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075988.1	NM_006365		A	156386616	C	A	156386616	3	1	696	1	0	0	0	0	1	0	0	0	2054	855	30	4	474	4	C1orf61	1	156386616	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	663604	156386616	92864005	10	45463										
DDR2	4921	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	162729664	162729664	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cagacccatgaataccacgtGtggcccggctatgactatgt	10	12	0	3			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr1:162729664G>A	ENST00000367922.3	+	9	1188	c.750G>A	c.(748-750)gtG>gtA	p.V250V	DDR2_ENST00000367921.3_Silent_p.V250V	NM_001014796.1	NP_001014796.1	Q16832	DDR2_HUMAN	discoidin domain receptor tyrosine kinase 2	250					biomineral tissue development (GO:0031214)|cell adhesion (GO:0007155)|chondrocyte proliferation (GO:0035988)|collagen fibril organization (GO:0030199)|collagen-activated tyrosine kinase receptor signaling pathway (GO:0038063)|endochondral bone growth (GO:0003416)|extracellular matrix organization (GO:0030198)|ossification (GO:0001503)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of extracellular matrix disassembly (GO:0090091)|positive regulation of fibroblast migration (GO:0010763)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|protein autophosphorylation (GO:0046777)|regulation of bone mineralization (GO:0030500)|regulation of extracellular matrix disassembly (GO:0010715)|signal transduction (GO:0007165)	apical plasma membrane (GO:0016324)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|collagen binding (GO:0005518)|protein tyrosine kinase collagen receptor activity (GO:0038062)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			central_nervous_system(2)|kidney(1)|lung(2)|ovary(1)|skin(1)	7	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)		Regorafenib(DB08896)	AATACCACGTGTGGCCCGGCT	0.532																																					NSCLC(161;314 2006 8283 19651 23192)											0													119	105	110					1																	162729664		2203	4300	6503	SO:0001819	synonymous_variant	4921			AK095975	CCDS1241.1	1q12-q23	2009-07-10	2008-01-23		ENSG00000162733	ENSG00000162733	2.7.10.1		2731	protein-coding gene	gene with protein product		191311	"discoidin domain receptor family, member 2"	TYRO10, NTRKR3		9659899	Standard	XM_005245221		Approved	TKT	uc001gcg.3	Q16832	OTTHUMG00000034423	ENST00000367922.3:c.750G>A	1.37:g.162729664G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z730	Silent	SNP	ENST00000367922.3	37	CCDS1241.1																																																																																				0.532	DDR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000083213.2	NM_006182		A	162729664	G	A	162729664	2	1	696	1	0	0	0	0	0	0	0	1	4339	1364	48	2		2	DDR2	1	162729664	Silent	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	6343048	162729664	86520957	11	45464										
C1orf114	57821	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	169390718	169390718	+	Frame_Shift_Del	DEL	A	A	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gcagactgtgtcctgtgattAgatttcccattccctttact							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr1:169390718delA	ENST00000367806.3	-	3	1103	c.951delT	c.(949-951)tctfs	p.S317fs	CCDC181_ENST00000545005.1_Frame_Shift_Del_p.S317fs|CCDC181_ENST00000491570.1_5'UTR|CCDC181_ENST00000367805.3_Frame_Shift_Del_p.S317fs	NM_021179.1	NP_067002.1	Q5TID7	CC181_HUMAN	coiled-coil domain containing 181	317						nucleus (GO:0005634)											TCCTGTGATTAGATTTCCCAT	0.463																																																0													159	145	150					1																	169390718		2203	4300	6503	SO:0001589	frameshift_variant	57821			AL049687	CCDS1279.1, CCDS72979.1	1q24	2013-03-14	2013-03-14	2013-03-14	ENSG00000117477	ENSG00000117477			28051	protein-coding gene	gene with protein product			"chromosome 1 open reading frame 114"	C1orf114			Standard	XM_005245381		Approved	FLJ25846	uc001gfz.1	Q5TID7	OTTHUMG00000035448	ENST00000367806.3:c.951delT	1.37:g.169390718delA	ENSP00000356780:p.Ser317fs	Somatic		WXS	Illumina HiSeq	Phase_I	O60780|Q53FD5|Q5TID9|Q8TC48	Frame_Shift_Del	DEL	ENST00000367806.3	37																																																																																					0.463	CCDC181-002	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000086099.1	NM_021179		-	169390718	A	-	169390718	7	5	696	1	0	1	0	1	0	0	0	0	1989	407	15	0	591	0	C1orf114	1	169390718	Frame_Shift_Del	DEL	A	TCGA-P4-A5E7-01A-31D-A28G-10	6661054	169390718	79859903	12	45465										
TTC27	55622	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	33002960	33002960	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tctttgcagctcggggtgtgGttttctctcggttgtgccta	13	9	2	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr2:33002960G>A	ENST00000317907.4	+	14	1923	c.1692G>A	c.(1690-1692)tgG>tgA	p.W564*		NM_001193509.1|NM_017735.4	NP_001180438.1|NP_060205.3	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	564										breast(1)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(9)|lung(14)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	38						TCGGGGTGTGGTTTTCTCTCG	0.403																																																0													225	214	218					2																	33002960		2203	4300	6503	SO:0001587	stop_gained	55622			BC063791, AK000279	CCDS33176.1	2p22.3	2013-01-10			ENSG00000018699	ENSG00000018699		"Tetratricopeptide (TTC) repeat domain containing"	25986	protein-coding gene	gene with protein product							Standard	NM_001193509		Approved	FLJ20272	uc002rom.3	Q6P3X3	OTTHUMG00000152134	ENST00000317907.4:c.1692G>A	2.37:g.33002960G>A	ENSP00000313953:p.Trp564*	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKJ0|Q96SS5|Q9BVF1|Q9NWR4|Q9NXG4	Nonsense_Mutation	SNP	ENST00000317907.4	37	CCDS33176.1	.	.	.	.	.	.	.	.	.	.	G	40	8.398930	0.98794	.	.	ENSG00000018699	ENST00000317907	.	.	.	5.46	5.46	0.80206	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-7.7926	19.3169	0.94218	0.0:0.0:1.0:0.0	.	.	.	.	X	564	.	ENSP00000313953:W564X	W	+	3	0	TTC27	32856464	1.000000	0.71417	1.000000	0.80357	0.256000	0.26092	9.537000	0.98070	2.553000	0.86117	0.557000	0.71058	TGG		0.403	TTC27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000325395.1	NM_017735		A	33002960	G	A	33002960	4	1	696	1	0	0	0	0	0	1	0	0	16707	1270	44	2	1746	2	TTC27	2	33002960	Nonsense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10		33002960	210196413	13	45466										
FAM98A	25940	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	33813426	33813426	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ttttcaatcccgctgaagaaTtggaacatagttatattggc	8	7	1	2	rs561820764		TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr2:33813426T>C	ENST00000238823.8	-	4	638	c.498A>G	c.(496-498)caA>caG	p.Q166Q	FAM98A_ENST00000441530.2_Intron|FAM98A_ENST00000403368.1_Silent_p.Q166Q|FAM98A_ENST00000498340.1_Intron			Q8NCA5	FA98A_HUMAN	family with sequence similarity 98, member A	166							poly(A) RNA binding (GO:0044822)			NS(1)|breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(12)|ovary(1)|prostate(1)|skin(1)	24	all_hematologic(175;0.115)					CGCTGAAGAATTGGAACATAG	0.363																																																0													173	175	174					2																	33813426		2203	4300	6503	SO:0001819	synonymous_variant	25940				CCDS33179.1	2p22.3	2006-11-29		2005-11-20	ENSG00000119812	ENSG00000119812			24520	protein-coding gene	gene with protein product						12477932	Standard	NM_015475		Approved	DKFZP564F0522	uc002rpa.1	Q8NCA5	OTTHUMG00000152152	ENST00000238823.8:c.498A>G	2.37:g.33813426T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RNA2|Q9Y3Y6	Silent	SNP	ENST00000238823.8	37	CCDS33179.1																																																																																				0.363	FAM98A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000325457.2	NM_015475		C	33813426	T	C	33813426	2	2	696	1	0	0	0	0	0	0	0	1	5663	1490	52	3		3	FAM98A	2	33813426	Silent	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10	810466	33813426	209385947	14	45467										
ANTXR1	84168	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	69409663	69409663	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ggctccacagaagaaggtgcTaagttggaaaaggcaaagaa	13	6	0	3	rs138963459	byFrequency	TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr2:69409663T>G	ENST00000303714.4	+	16	1546	c.1224T>G	c.(1222-1224)gcT>gcG	p.A408A	RNA5SP96_ENST00000516041.1_RNA|RNU6-1216P_ENST00000362590.2_RNA	NM_032208.2	NP_115584.1	Q9H6X2	ANTR1_HUMAN	anthrax toxin receptor 1	408					actin cytoskeleton reorganization (GO:0031532)|reproductive process (GO:0022414)|signal transduction (GO:0007165)|substrate adhesion-dependent cell spreading (GO:0034446)	cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|filopodium membrane (GO:0031527)|integral component of membrane (GO:0016021)|lamellipodium membrane (GO:0031258)	actin filament binding (GO:0051015)|collagen binding (GO:0005518)|metal ion binding (GO:0046872)|transmembrane signaling receptor activity (GO:0004888)			haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(16)|ovary(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	29						AAGAAGGTGCTAAGTTGGAAA	0.428									Familial Infantile Hemangioma				T|||	2	0.000399361	0.0	0.0	5008	,	,		20375	0.002		0.0	False		,,,				2504	0.0															0													119	112	114					2																	69409663		2203	4300	6503	SO:0001819	synonymous_variant	84168	Familial Cancer Database	Infantile Capillary Hemangioma, HCI, Hereditary Capillary Hemangioma	AF421380	CCDS1892.1, CCDS46313.1, CCDS46314.1	2p13.1	2006-04-12			ENSG00000169604	ENSG00000169604			21014	protein-coding gene	gene with protein product	"anthrax toxin receptor", "tumor endothelial marker 8 precursor"	606410				10947988, 11559528	Standard	NM_032208		Approved	TEM8, FLJ21776, FLJ10601, ATR	uc002sfg.3	Q9H6X2	OTTHUMG00000129575	ENST00000303714.4:c.1224T>G	2.37:g.69409663T>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7U8|J7K7G4|J7KF88|Q4ZFV6|Q53QD8|Q96P02|Q9NVP3	Silent	SNP	ENST00000303714.4	37	CCDS1892.1																																																																																				0.428	ANTXR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251770.2	NM_032208		G	69409663	T	G	69409663	2	3	696	1	0	0	0	0	0	0	0	1	711	1509	53	5		5	ANTXR1	2	69409663	Silent	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10	35596237	69409663	173789710	15	45468										
TTC31	64427	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	74718487	74718487	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ggaaacccagttcagggacaGtgtggtgaagaagaggtgag	17	5	1	4			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr2:74718487G>A	ENST00000233623.5	+	7	676	c.669G>A	c.(667-669)caG>caA	p.Q223Q	TTC31_ENST00000410003.1_Silent_p.Q223Q|TTC31_ENST00000442235.2_Silent_p.Q79Q|TTC31_ENST00000463189.1_3'UTR	NM_022492.4	NP_071937.4	Q49AM3	TTC31_HUMAN	tetratricopeptide repeat domain 31	223										breast(1)|endometrium(1)|large_intestine(4)|lung(2)|skin(1)	9						TTCAGGGACAGTGTGGTGAAG	0.537																																																0													127	138	134					2																	74718487		1930	4124	6054	SO:0001819	synonymous_variant	64427			AK026819	CCDS42701.1	2p13.1	2013-01-11			ENSG00000115282	ENSG00000115282		"Tetratricopeptide (TTC) repeat domain containing"	25759	protein-coding gene	gene with protein product						12477932	Standard	NM_022492		Approved	FLJ12788	uc002slt.2	Q49AM3	OTTHUMG00000152887	ENST00000233623.5:c.669G>A	2.37:g.74718487G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q4KN40|Q53FD4|Q9H9F7	Silent	SNP	ENST00000233623.5	37	CCDS42701.1																																																																																				0.537	TTC31-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000328422.1	NM_022492		A	74718487	G	A	74718487	2	1	696	1	0	0	0	0	0	0	0	1	16712	1020	36	2		2	TTC31	2	74718487	Silent	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	5308824	74718487	168480886	16	45469										
SUCLG1	8802	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	84652539	84652539	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gggccactgttggagctcacCttgtagatcgtggttcccag	13	11	1	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr2:84652539C>T	ENST00000393868.2	-	8	1224	c.1014G>A	c.(1012-1014)aaG>aaA	p.K338K	SUCLG1_ENST00000491123.1_5'UTR	NM_003849.3	NP_003840.2	P53597	SUCA_HUMAN	succinate-CoA ligase, alpha subunit	338					cellular metabolic process (GO:0044237)|small molecule metabolic process (GO:0044281)|succinate metabolic process (GO:0006105)|succinyl-CoA metabolic process (GO:0006104)|tricarboxylic acid cycle (GO:0006099)	extracellular vesicular exosome (GO:0070062)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|succinate-CoA ligase complex (GDP-forming) (GO:0045244)	ATP citrate synthase activity (GO:0003878)|cofactor binding (GO:0048037)|GDP binding (GO:0019003)|GTP binding (GO:0005525)|poly(A) RNA binding (GO:0044822)|succinate-CoA ligase (ADP-forming) activity (GO:0004775)|succinate-CoA ligase (GDP-forming) activity (GO:0004776)			kidney(4)|large_intestine(4)|lung(2)	10					Succinic acid(DB00139)	TGGAGCTCACCTTGTAGATCG	0.532																																					Ovarian(48;203 1101 37206 40305 50790)											0													77	69	71					2																	84652539		2203	4300	6503	SO:0001630	splice_region_variant	8802			Z68204	CCDS1967.2	2p11.3	2008-02-05	2008-01-08		ENSG00000163541	ENSG00000163541	6.2.1.4		11449	protein-coding gene	gene with protein product		611224	"succinate-CoA ligase, GDP-forming, alpha subunit"			9128182	Standard	NM_003849		Approved		uc002son.3	P53597	OTTHUMG00000130023	ENST00000393868.2:c.1014+1G>A	2.37:g.84652539C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BWB0|Q9UNP6	Silent	SNP	ENST00000393868.2	37	CCDS1967.2																																																																																				0.532	SUCLG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252298.2	NM_003849	Silent	T	84652539	C	T	84652539	5	4	696	1	0	0	0	0	0	0	1	0	15376	695	24	2	34	2	SUCLG1	2	84652539	Splice_Site	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	9934052	84652539	158546834	17	45470										
KCNIP3	30818	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	95976175	95976175	+	Missense_Mutation	SNP	A	A	G													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cacttagcaagaaggagggtAtcaagtggcagaggccgagg							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr2:95976175A>G	ENST00000295225.5	+	2	223	c.88A>G	c.(88-90)Atc>Gtc	p.I30V	KCNIP3_ENST00000377181.2_Intron|KCNIP3_ENST00000360990.3_Missense_Mutation_p.I30V	NM_013434.4	NP_038462.1	Q9Y2W7	CSEN_HUMAN	Kv channel interacting protein 3, calsenilin	30					apoptotic process (GO:0006915)|behavioral response to pain (GO:0048266)|intracellular protein transport (GO:0006886)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of neuron apoptotic process (GO:0043523)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|sensory perception of pain (GO:0019233)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)	axon terminus (GO:0043679)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein-DNA complex (GO:0032993)	calcium ion binding (GO:0005509)|DNA binding (GO:0003677)|potassium channel activity (GO:0005267)|potassium channel regulator activity (GO:0015459)|sequence-specific DNA binding (GO:0043565)|transcription corepressor activity (GO:0003714)|voltage-gated ion channel activity (GO:0005244)			NS(1)|breast(2)|endometrium(1)|large_intestine(2)|lung(3)|ovary(3)|prostate(2)|stomach(1)|upper_aerodigestive_tract(1)	16				READ - Rectum adenocarcinoma(193;0.13)		GAAGGAGGGTATCAAGTGGCA	0.622																																																0													79	86	84					2																	95976175		2203	4300	6503	SO:0001583	missense	30818			AF199599	CCDS2013.1, CCDS33245.1	2q21.1	2013-01-10	2006-02-11	2006-02-11	ENSG00000115041	ENSG00000115041		"EF-hand domain containing"	15523	protein-coding gene	gene with protein product		604662	"calsenilin, presenilin-binding protein, EF hand transcription factor"	CSEN		9771752, 10078534	Standard	NM_013434		Approved	DREAM, KCHIP3, calsenilin	uc002sup.3	Q9Y2W7	OTTHUMG00000130392	ENST00000295225.5:c.88A>G	2.37:g.95976175A>G	ENSP00000295225:p.Ile30Val	Somatic		WXS	Illumina HiSeq	Phase_I	H7BY46|Q3YAC3|Q3YAC4|Q53TJ5|Q96T40|Q9UJ84|Q9UJ85	Missense_Mutation	SNP	ENST00000295225.5	37	CCDS2013.1	.	.	.	.	.	.	.	.	.	.	A	0.862	-0.734899	0.03111	.	.	ENSG00000115041	ENST00000295225;ENST00000360990	T;T	0.69926	-0.27;-0.44	5.02	-2.69	0.06022	.	1.487590	0.04089	N	0.310881	T	0.38983	0.1061	N	0.01874	-0.695	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.23547	-1.0185	10	0.20519	T	0.43	.	11.1112	0.48235	0.6262:0.0:0.3738:0.0	.	30;30	Q9Y2W7;Q3YAC4	CSEN_HUMAN;.	V	30	ENSP00000295225:I30V;ENSP00000354261:I30V	ENSP00000295225:I30V	I	+	1	0	KCNIP3	95339902	0.154000	0.22792	0.361000	0.25849	0.847000	0.48162	0.311000	0.19380	-0.418000	0.07450	-0.810000	0.03169	ATC		0.622	KCNIP3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000252770.1	NM_013434		G	95976175	A	G	95976175	3	3	696	1	0	0	0	0	1	0	0	0	8048	449	16	3	94	3	KCNIP3	2	95976175	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	11323636	95976175	147223198	18	45471	496	2								
KCNIP3	30818	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	95976177	95976177	+	Silent	SNP	C	C	T													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cttagcaagaaggagggtatCaagtggcagaggccgaggct							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr2:95976177C>T	ENST00000295225.5	+	2	225	c.90C>T	c.(88-90)atC>atT	p.I30I	KCNIP3_ENST00000377181.2_Intron|KCNIP3_ENST00000360990.3_Silent_p.I30I	NM_013434.4	NP_038462.1	Q9Y2W7	CSEN_HUMAN	Kv channel interacting protein 3, calsenilin	30					apoptotic process (GO:0006915)|behavioral response to pain (GO:0048266)|intracellular protein transport (GO:0006886)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|regulation of neuron apoptotic process (GO:0043523)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|sensory perception of pain (GO:0019233)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)	axon terminus (GO:0043679)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein-DNA complex (GO:0032993)	calcium ion binding (GO:0005509)|DNA binding (GO:0003677)|potassium channel activity (GO:0005267)|potassium channel regulator activity (GO:0015459)|sequence-specific DNA binding (GO:0043565)|transcription corepressor activity (GO:0003714)|voltage-gated ion channel activity (GO:0005244)			NS(1)|breast(2)|endometrium(1)|large_intestine(2)|lung(3)|ovary(3)|prostate(2)|stomach(1)|upper_aerodigestive_tract(1)	16				READ - Rectum adenocarcinoma(193;0.13)		AGGAGGGTATCAAGTGGCAGA	0.627																																																0													79	86	83					2																	95976177		2203	4300	6503	SO:0001819	synonymous_variant	30818			AF199599	CCDS2013.1, CCDS33245.1	2q21.1	2013-01-10	2006-02-11	2006-02-11	ENSG00000115041	ENSG00000115041		"EF-hand domain containing"	15523	protein-coding gene	gene with protein product		604662	"calsenilin, presenilin-binding protein, EF hand transcription factor"	CSEN		9771752, 10078534	Standard	NM_013434		Approved	DREAM, KCHIP3, calsenilin	uc002sup.3	Q9Y2W7	OTTHUMG00000130392	ENST00000295225.5:c.90C>T	2.37:g.95976177C>T		Somatic		WXS	Illumina HiSeq	Phase_I	H7BY46|Q3YAC3|Q3YAC4|Q53TJ5|Q96T40|Q9UJ84|Q9UJ85	Silent	SNP	ENST00000295225.5	37	CCDS2013.1																																																																																				0.627	KCNIP3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000252770.1	NM_013434		T	95976177	C	T	95976177	2	4	696	1	0	0	0	0	0	0	0	1	8048	816	29	2		2	KCNIP3	2	95976177	Silent	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	2	95976177	147223196	19	45472	496	2								
SLC5A7	60482	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	108604763	108604763	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tggtggccgagatattggttTattggttggtggatttacca	14	4	0	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr2:108604763T>A	ENST00000264047.2	+	2	428	c.152T>A	c.(151-153)tTa>tAa	p.L51*	SLC5A7_ENST00000409059.1_Nonsense_Mutation_p.L51*|SLC5A7_ENST00000540517.1_Intron	NM_021815.2	NP_068587.1	Q9GZV3	SC5A7_HUMAN	solute carrier family 5 (sodium/choline cotransporter), member 7	51					acetylcholine biosynthetic process (GO:0008292)|cell death (GO:0008219)|neuromuscular synaptic transmission (GO:0007274)|neurotransmitter secretion (GO:0007269)|synaptic transmission (GO:0007268)|synaptic transmission, cholinergic (GO:0007271)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	choline binding (GO:0033265)|choline transmembrane transporter activity (GO:0015220)|choline:sodium symporter activity (GO:0005307)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(23)|ovary(2)|pancreas(1)|prostate(1)|skin(7)|upper_aerodigestive_tract(2)|urinary_tract(2)	49					Choline(DB00122)	GATATTGGTTTATTGGTTGGT	0.532																																																0													148	131	137					2																	108604763		2203	4300	6503	SO:0001587	stop_gained	60482			AF276871	CCDS2074.1	2q12	2013-07-19	2013-07-19		ENSG00000115665	ENSG00000115665		"Solute carriers"	14025	protein-coding gene	gene with protein product		608761	"solute carrier family 5 (choline transporter), member 7"			11027560	Standard	NM_021815		Approved	hCHT, CHT1	uc002tdv.3	Q9GZV3	OTTHUMG00000130959	ENST00000264047.2:c.152T>A	2.37:g.108604763T>A	ENSP00000264047:p.Leu51*	Somatic		WXS	Illumina HiSeq	Phase_I	Q53TF2	Nonsense_Mutation	SNP	ENST00000264047.2	37	CCDS2074.1	.	.	.	.	.	.	.	.	.	.	T	38	6.986976	0.97983	.	.	ENSG00000115665	ENST00000409059;ENST00000264047	.	.	.	5.76	5.76	0.90799	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.09338	T	0.73	-15.1779	16.3634	0.83296	0.0:0.0:0.0:1.0	.	.	.	.	X	51	.	ENSP00000264047:L51X	L	+	2	0	SLC5A7	107971195	1.000000	0.71417	0.256000	0.24389	0.386000	0.30323	7.655000	0.83696	2.324000	0.78689	0.533000	0.62120	TTA		0.532	SLC5A7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253562.1			A	108604763	T	A	108604763	4	1	696	1	0	0	0	0	0	1	0	0	14683	1764	61	5	154	5	SLC5A7	2	108604763	Nonsense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10	12628586	108604763	134594610	20	45473										
ZRANB3	84083	hgsc.bcm.edu;broad.mit.edu	37	chr2	135988115	135988115	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gaggagtctcacacatttcaCaataaggtaactctgaatta	7	8	3	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr2:135988115C>T	ENST00000264159.6	-	13	2038	c.1922G>A	c.(1921-1923)tGt>tAt	p.C641Y	ZRANB3_ENST00000536680.1_Missense_Mutation_p.C641Y|ZRANB3_ENST00000412849.1_5'UTR|ZRANB3_ENST00000401392.1_Missense_Mutation_p.C641Y	NM_032143.2	NP_115519.2	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	641					cellular response to DNA damage stimulus (GO:0006974)|DNA catabolic process, endonucleolytic (GO:0000737)|DNA repair (GO:0006281)|DNA rewinding (GO:0036292)|DNA strand renaturation (GO:0000733)|negative regulation of DNA recombination (GO:0045910)|replication fork processing (GO:0031297)|replication fork protection (GO:0048478)|response to UV (GO:0009411)	nuclear replication fork (GO:0043596)	annealing helicase activity (GO:0036310)|ATP binding (GO:0005524)|DNA binding (GO:0003677)|endodeoxyribonuclease activity (GO:0004520)|helicase activity (GO:0004386)|K63-linked polyubiquitin binding (GO:0070530)|zinc ion binding (GO:0008270)			NS(2)|endometrium(2)|kidney(2)|large_intestine(3)|lung(10)|upper_aerodigestive_tract(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.135)		ACACATTTCACAATAAGGTAA	0.473																																																0													111	103	105					2																	135988115		1967	4164	6131	SO:0001583	missense	84083			AL136824	CCDS46419.1, CCDS67963.1, CCDS74580.1	2q21.3	2013-05-13			ENSG00000121988	ENSG00000121988		"Zinc fingers, RAN-binding domain containing"	25249	protein-coding gene	gene with protein product						11230166	Standard	XM_005263809		Approved	DKFZP434B1727	uc002tum.3	Q5FWF4	OTTHUMG00000150475	ENST00000264159.6:c.1922G>A	2.37:g.135988115C>T	ENSP00000264159:p.Cys641Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B3KYA1|B4E375|B5MDI3|D3DP76|E9PBP0|Q53SM1|Q6P2C4|Q8N1P4|Q9H0E8	Missense_Mutation	SNP	ENST00000264159.6	37	CCDS46419.1	.	.	.	.	.	.	.	.	.	.	C	17.32	3.360568	0.61403	.	.	ENSG00000121988	ENST00000538542;ENST00000283060;ENST00000401392;ENST00000264159;ENST00000536680	D;D;D	0.99797	-6.79;-6.79;-6.79	5.61	5.61	0.85477	Zinc finger, RanBP2-type (4);	0.047816	0.85682	D	0.000000	D	0.99864	0.9936	H	0.96175	3.78	0.49213	D	0.999763	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.96707	0.9522	10	0.87932	D	0	-12.7436	17.4074	0.87477	0.0:1.0:0.0:0.0	.	641;641	Q5FWF4;Q5FWF4-3	ZRAB3_HUMAN;.	Y	106;106;641;641;641	ENSP00000383979:C641Y;ENSP00000264159:C641Y;ENSP00000441320:C641Y	ENSP00000264159:C641Y	C	-	2	0	ZRANB3	135704585	1.000000	0.71417	0.995000	0.50966	0.454000	0.32378	5.258000	0.65479	2.638000	0.89438	0.563000	0.77884	TGT		0.473	ZRANB3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318254.1	NM_032143		T	135988115	C	T	135988115	3	4	696	1	0	0	0	0	1	0	0	0	18236	478	17	2	1353	2	ZRANB3	2	135988115	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	27383352	135988115	107211258	21	45474										
SSB	6741	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	170667495	170667495	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	agaaggagaggtggaaaaagAagcactgaagaaaataatag	13	2	0	5			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr2:170667495A>C	ENST00000409333.1	+	10	1185	c.938A>C	c.(937-939)gAa>gCa	p.E313A	METTL5_ENST00000409837.1_Intron|SSB_ENST00000260956.4_Missense_Mutation_p.E313A			P05455	LA_HUMAN	Sjogren syndrome antigen B (autoantigen La)	313					histone mRNA metabolic process (GO:0008334)|tRNA modification (GO:0006400)	nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|tRNA binding (GO:0000049)			endometrium(3)|large_intestine(2)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	12						GTGGAAAAAGAAGCACTGAAG	0.348																																																0													66	68	67					2																	170667495		2203	4299	6502	SO:0001583	missense	6741				CCDS2237.1	2q31.1	2014-02-14		2005-06-16	ENSG00000138385	ENSG00000138385		"La ribonucleoprotein domain containing", "RNA binding motif (RRM) containing"	11316	protein-coding gene	gene with protein product	"La ribonucleoprotein domain family, member 3"	109090					Standard	NM_003142		Approved	LARP3, La, La/SSB	uc002ufk.3	P05455	OTTHUMG00000132212	ENST00000409333.1:c.938A>C	2.37:g.170667495A>C	ENSP00000386636:p.Glu313Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q15367|Q53XJ4	Missense_Mutation	SNP	ENST00000409333.1	37	CCDS2237.1	.	.	.	.	.	.	.	.	.	.	A	13.37	2.217202	0.39201	.	.	ENSG00000138385	ENST00000260956;ENST00000409005;ENST00000409333	T;T	0.47528	0.84;0.84	4.86	-0.881	0.10607	Nucleotide-binding, alpha-beta plait (1);RNA-binding motif (1);	0.493908	0.22411	N	0.060419	T	0.49508	0.1561	M	0.85710	2.77	0.80722	D	1	B;B	0.02656	0.0;0.0	B;B	0.12156	0.003;0.007	T	0.50285	-0.8846	10	0.31617	T	0.26	-0.5081	14.1431	0.65331	0.4664:0.5336:0.0:0.0	.	313;313	E9PFH8;P05455	.;LA_HUMAN	A	313	ENSP00000260956:E313A;ENSP00000386636:E313A	ENSP00000260956:E313A	E	+	2	0	SSB	170375741	1.000000	0.71417	0.890000	0.34922	0.989000	0.77384	1.295000	0.33377	-0.310000	0.08766	0.383000	0.25322	GAA		0.348	SSB-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333316.1	NM_003142		C	170667495	A	C	170667495	3	2	696	1	0	0	0	0	1	0	0	0	15190	246	9	5	972	5	SSB	2	170667495	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	34679380	170667495	72531878	22	45475										
TNS1	7145	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	218678511	218678511	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tcgcggatgatgaaggccccCggctcctggtccttgaggag	15	12	0	3			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr2:218678511C>G	ENST00000171887.4	-	26	4898	c.4446G>C	c.(4444-4446)ccG>ccC	p.P1482P	TNS1_ENST00000430930.1_Silent_p.P1461P|TNS1_ENST00000419504.1_Silent_p.P1469P	NM_022648.4	NP_072174.3	Q9HBL0	TENS1_HUMAN	tensin 1	1482	SH2. {ECO:0000255|PROSITE- ProRule:PRU00191}.				cell-substrate junction assembly (GO:0007044)|fibroblast migration (GO:0010761)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|focal adhesion (GO:0005925)	poly(A) RNA binding (GO:0044822)	p.P1482P(1)		breast(2)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(23)|liver(1)|lung(24)|ovary(3)|pancreas(1)|prostate(3)|skin(5)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	79		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		TGAAGGCCCCCGGCTCCTGGT	0.572																																																1	Substitution - coding silent(1)	large_intestine(1)											58	58	58					2																	218678511		2203	4300	6503	SO:0001819	synonymous_variant	7145			AB209238	CCDS2407.1	2q35-q36	2014-06-13	2005-05-13	2005-05-13	ENSG00000079308	ENSG00000079308		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs", "SH2 domain containing"	11973	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 155"	600076	"tensin", "matrix-remodelling associated 6"	TNS, MXRA6			Standard	NM_022648		Approved	DKFZp586K0617, PPP1R155	uc002vgt.2	Q9HBL0	OTTHUMG00000133056	ENST00000171887.4:c.4446G>C	2.37:g.218678511C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q4ZG71|Q6IPI5	Silent	SNP	ENST00000171887.4	37	CCDS2407.1																																																																																				0.572	TNS1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256672.2	NM_022648		G	218678511	C	G	218678511	2	3	696	1	0	0	0	0	0	0	0	1	16355	639	23	4		4	TNS1	2	218678511	Silent	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	48011016	218678511	24520862	23	45476										
PTPRN	5798	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	220164041	220164041	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	atttacctgcttgttgggtcAcatcagccaaagacaggttc	9	10	2	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr2:220164041A>T	ENST00000295718.2	-	11	1829	c.1589T>A	c.(1588-1590)gTg>gAg	p.V530E	AC114803.3_ENST00000417355.1_RNA|PTPRN_ENST00000497977.1_5'Flank|PTPRN_ENST00000423636.2_Missense_Mutation_p.V440E|PTPRN_ENST00000409251.3_Missense_Mutation_p.V501E	NM_002846.3	NP_002837.1	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	530					cytokine-mediated signaling pathway (GO:0019221)|peptidyl-tyrosine dephosphorylation (GO:0035335)|response to cAMP (GO:0051591)|response to estrogen (GO:0043627)|response to glucose (GO:0009749)|response to insulin (GO:0032868)|response to reactive oxygen species (GO:0000302)	integral component of plasma membrane (GO:0005887)	spectrin binding (GO:0030507)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			breast(3)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(28)|ovary(3)|prostate(4)|skin(11)|upper_aerodigestive_tract(1)|urinary_tract(1)	65		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		TTGTTGGGTCACATCAGCCAA	0.557											OREG0015221	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													167	161	163					2																	220164041		2203	4300	6503	SO:0001583	missense	5798				CCDS2440.1, CCDS56167.1, CCDS56168.1	2q35-q36.1	2011-06-09			ENSG00000054356	ENSG00000054356		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like"	9676	protein-coding gene	gene with protein product		601773				8024693	Standard	NM_001199763		Approved	IA-2	uc002vkz.3	Q16849	OTTHUMG00000133129	ENST00000295718.2:c.1589T>A	2.37:g.220164041A>T	ENSP00000295718:p.Val530Glu	Somatic	2264	WXS	Illumina HiSeq	Phase_I	B4DK12|F5GZS3|Q08319|Q53QD6|Q6NSL1	Missense_Mutation	SNP	ENST00000295718.2	37	CCDS2440.1	.	.	.	.	.	.	.	.	.	.	A	27.2	4.813832	0.90790	.	.	ENSG00000054356	ENST00000409251;ENST00000295718;ENST00000539342;ENST00000537666	T;T;T	0.07800	3.36;3.17;3.16	5.59	5.59	0.84812	.	0.198382	0.31834	N	0.006989	T	0.27098	0.0664	M	0.68952	2.095	0.58432	D	0.999996	D;D	0.76494	0.999;0.992	D;D	0.68483	0.958;0.958	T	0.00756	-1.1579	10	0.87932	D	0	.	15.4479	0.75248	1.0:0.0:0.0:0.0	.	501;530	Q6NSL1;Q16849	.;PTPRN_HUMAN	E	501;530;501;440	ENSP00000386638:V501E;ENSP00000295718:V530E;ENSP00000444244:V440E	ENSP00000295718:V530E	V	-	2	0	PTPRN	219872285	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	7.728000	0.84847	2.120000	0.65058	0.459000	0.35465	GTG		0.557	PTPRN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256819.2			T	220164041	A	T	220164041	3	4	696	1	0	0	0	0	1	0	0	0	12820	159	6	5	1402	5	PTPRN	2	220164041	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	1485530	220164041	23035332	24	45477										
PTPRN	5798	bcgsc.ca	37	chr2	220164916	220164916	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gggctggcagtggggtgtccAggcatgggggatgtgcgggc	23	7	0	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr2:220164916A>G	ENST00000295718.2	-	9	1467	c.1227T>C	c.(1225-1227)ccT>ccC	p.P409P	AC114803.3_ENST00000417355.1_RNA|PTPRN_ENST00000423636.2_Silent_p.P319P|PTPRN_ENST00000409251.3_Silent_p.P409P	NM_002846.3	NP_002837.1	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	409					cytokine-mediated signaling pathway (GO:0019221)|peptidyl-tyrosine dephosphorylation (GO:0035335)|response to cAMP (GO:0051591)|response to estrogen (GO:0043627)|response to glucose (GO:0009749)|response to insulin (GO:0032868)|response to reactive oxygen species (GO:0000302)	integral component of plasma membrane (GO:0005887)	spectrin binding (GO:0030507)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			breast(3)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(28)|ovary(3)|prostate(4)|skin(11)|upper_aerodigestive_tract(1)|urinary_tract(1)	65		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		TGGGGTGTCCAGGCATGGGGG	0.637																																																0													61	69	66					2																	220164916		2203	4300	6503	SO:0001819	synonymous_variant	5798				CCDS2440.1, CCDS56167.1, CCDS56168.1	2q35-q36.1	2011-06-09			ENSG00000054356	ENSG00000054356		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like"	9676	protein-coding gene	gene with protein product		601773				8024693	Standard	NM_001199763		Approved	IA-2	uc002vkz.3	Q16849	OTTHUMG00000133129	ENST00000295718.2:c.1227T>C	2.37:g.220164916A>G		Somatic		WXS	Illumina HiSeq	Phase_1	B4DK12|F5GZS3|Q08319|Q53QD6|Q6NSL1	Silent	SNP	ENST00000295718.2	37	CCDS2440.1																																																																																				0.637	PTPRN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256819.2			G	220164916	A	G	220164916	2	3	696	1	0	0	0	0	0	0	0	1	12820	175	7	3		3	PTPRN	2	220164916	Silent	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	875	220164916	23034457	25	45478										
ANKMY1	51281	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	241465102	241465102	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gtggccaccggggggcttacCtggggctcaggtatggtccg	18	11	1	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr2:241465102C>T	ENST00000272972.3	-	6	1282	c.1068G>A	c.(1066-1068)caG>caA	p.Q356Q	ANKMY1_ENST00000373318.2_Splice_Site_p.Q215Q|ANKMY1_ENST00000405523.3_Splice_Site_p.Q215Q|ANKMY1_ENST00000406958.1_Splice_Site_p.Q215Q|ANKMY1_ENST00000405002.1_Splice_Site_p.Q126Q|ANKMY1_ENST00000403283.1_Splice_Site_p.Q294Q|ANKMY1_ENST00000462004.1_5'Flank|ANKMY1_ENST00000401804.1_Splice_Site_p.Q445Q|ANKMY1_ENST00000391987.1_Splice_Site_p.Q356Q|ANKMY1_ENST00000536462.1_Splice_Site_p.Q168Q|ANKMY1_ENST00000373320.4_Splice_Site_p.Q126Q|ANKMY1_ENST00000361678.4_Splice_Site_p.Q215Q	NM_016552.2	NP_057636.2	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	356							metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(5)|large_intestine(4)|lung(14)|ovary(1)|prostate(2)|skin(1)|urinary_tract(2)	30		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)		GGGGGCTTACCTGGGGCTCAG	0.587																																																0													78	68	72					2																	241465102		2202	4300	6502	SO:0001630	splice_region_variant	51281			AB034636	CCDS2535.1, CCDS2536.1, CCDS63184.1, CCDS63185.1, CCDS74681.1	2q37.3	2013-01-10			ENSG00000144504	ENSG00000144504		"Zinc fingers, MYND-type", "Ankyrin repeat domain containing"	20987	protein-coding gene	gene with protein product							Standard	XM_005247020		Approved	FLJ20499, ZMYND13	uc002vyz.1	Q9P2S6	OTTHUMG00000133355	ENST00000272972.3:c.1068+1G>A	2.37:g.241465102C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RB78|Q4ZFV3|Q8IYX5|Q8NDK5|Q9H0V8|Q9NX10	Silent	SNP	ENST00000272972.3	37	CCDS2536.1																																																																																				0.587	ANKMY1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000257187.2	NM_017844	Silent	T	241465102	C	T	241465102	5	4	696	1	0	0	0	0	0	0	1	0	634	695	24	2	1805	2	ANKMY1	2	241465102	Splice_Site	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	21300186	241465102	1734271	26	45479										
CAMP	820	bcgsc.ca	37	chr3	48266885	48266885	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	agagaatcaaggattttttgCggaatcttgtacccaggaca	10	7	2	1	rs374668266		TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr3:48266885C>T	ENST00000576243.1	+	4	624	c.484C>T	c.(484-486)Cgg>Tgg	p.R162W	CAMP_ENST00000296435.2_Missense_Mutation_p.R165W			P49913	CAMP_HUMAN	cathelicidin antimicrobial peptide	162					antibacterial humoral response (GO:0019731)|cellular response to interleukin-1 (GO:0071347)|cellular response to interleukin-6 (GO:0071354)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to peptidoglycan (GO:0071224)|cellular response to tumor necrosis factor (GO:0071356)|defense response to bacterium (GO:0042742)|defense response to Gram-negative bacterium (GO:0050829)|defense response to Gram-positive bacterium (GO:0050830)|innate immune response in mucosa (GO:0002227)|interaction with host (GO:0051701)|killing by host of symbiont cells (GO:0051873)|negative regulation of growth of symbiont in host (GO:0044130)|negative regulation of growth of symbiont on or near host surface (GO:0044140)|phagosome maturation (GO:0090382)|positive regulation of angiogenesis (GO:0045766)|positive regulation of cell proliferation (GO:0008284)|positive regulation of protein phosphorylation (GO:0001934)	cell projection (GO:0042995)|cell wall (GO:0005618)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|specific granule (GO:0042581)		p.R162W(1)		endometrium(2)|large_intestine(1)|lung(1)|skin(1)|upper_aerodigestive_tract(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.000614)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		GGATTTTTTGCGGAATCTTGT	0.443																																																1	Substitution - Missense(1)	endometrium(1)						C	TRP/ARG	1,4405	2.1+/-5.4	0,1,2202	107	118	114		484	-9	0	3		114	0,8600		0,0,4300	no	missense	CAMP	NM_004345.4	101	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	probably-damaging	162/171	48266885	1,13005	2203	4300	6503	SO:0001583	missense	820			BC055089	CCDS2762.1, CCDS2762.2	3p21.3	2014-01-30			ENSG00000164047	ENSG00000164047		"Endogenous ligands"	1472	protein-coding gene	gene with protein product		600474				7624374	Standard	NM_004345		Approved	CAP18, FALL39, FALL-39, LL37	uc003csj.3	P49913	OTTHUMG00000133526	ENST00000576243.1:c.484C>T	3.37:g.48266885C>T	ENSP00000458149:p.Arg162Trp	Somatic		WXS	Illumina HiSeq	Phase_1	Q71SN9	Missense_Mutation	SNP	ENST00000576243.1	37		.	.	.	.	.	.	.	.	.	.	C	11.52	1.662538	0.29515	2.27E-4	0.0	ENSG00000164047	ENST00000296435	.	.	.	4.51	-9.01	0.00744	Cathelicidin, antimicrobial peptide, C-terminal (1);	4.491740	0.00397	N	0.000045	T	0.18173	0.0436	N	0.19112	0.55	0.09310	N	1	D	0.58620	0.983	P	0.44394	0.448	T	0.47799	-0.9089	9	0.66056	D	0.02	-7.4456	4.5323	0.12011	0.416:0.3384:0.1735:0.0721	.	162	P49913	CAMP_HUMAN	W	162	.	ENSP00000296435:R162W	R	+	1	2	CAMP	48241889	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.240000	0.02914	-1.762000	0.01308	-2.178000	0.00318	CGG		0.443	CAMP-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_004345		T	48266885	C	T	48266885	3	4	696	1	0	0	0	0	1	0	0	0	2612	759	27	1	498	1	CAMP	3	48266885	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10		48266885	149755545	27	45480										
C3orf54	7318	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	49842183	49842183	+	IGR	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ctgcctgagacagggagtgaAgggggtgacggaggtgggca	21	6	0	3			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr3:49842183A>C	ENST00000333486.3	-	0	3299				MIR5193_ENST00000584510.1_RNA|FAM212A_ENST00000333323.4_Missense_Mutation_p.E209D	NM_003335.2	NP_003326.2	P41226	UBA7_HUMAN	ubiquitin-like modifier activating enzyme 7						cellular protein modification process (GO:0006464)|cytokine-mediated signaling pathway (GO:0019221)|innate immune response (GO:0045087)|ISG15-protein conjugation (GO:0032020)|modification-dependent protein catabolic process (GO:0019941)|negative regulation of type I interferon production (GO:0032480)|protein ubiquitination (GO:0016567)	cytosol (GO:0005829)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ISG15 activating enzyme activity (GO:0019782)|ubiquitin activating enzyme activity (GO:0004839)|ubiquitin-protein transferase activity (GO:0004842)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(15)|large_intestine(4)|lung(7)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)	33				BRCA - Breast invasive adenocarcinoma(193;3.58e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		CAGGGAGTGAAGGGGGTGACG	0.652																																																0													78	78	78					3																	49842183		2203	4300	6503	SO:0001628	intergenic_variant	389119			BC006378	CCDS2805.1	3p21	2007-11-30	2007-11-30	2007-11-30	ENSG00000182179	ENSG00000182179		"Ubiquitin-like modifier activating enzymes"	12471	protein-coding gene	gene with protein product	"UBA1, ubiquitin-activating enzyme E1 homolog B (yeast)", "UBA7, ubiquitin-activating enzyme E1"	191325	"ubiquitin-activating enzyme E1-like"	UBE1L		8327486	Standard	NM_003335		Approved	D8, UBE2, UBA1B	uc003cxr.3	P41226	OTTHUMG00000158267		3.37:g.49842183A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BRB2	Missense_Mutation	SNP	ENST00000333486.3	37	CCDS2805.1	.	.	.	.	.	.	.	.	.	.	A	14.90	2.673205	0.47781	.	.	ENSG00000185614	ENST00000333323	.	.	.	5.64	-0.363	0.12556	.	0.000000	0.52532	D	0.000077	T	0.61627	0.2362	L	0.44542	1.39	0.39146	D	0.962132	D	0.71674	0.998	D	0.63488	0.915	T	0.62358	-0.6871	9	0.56958	D	0.05	.	10.7234	0.46052	0.5054:0.0:0.4946:0.0	.	207	Q96EL1	CC054_HUMAN	D	209	.	ENSP00000329735:E209D	E	+	3	2	C3orf54	49817187	1.000000	0.71417	0.885000	0.34714	0.348000	0.29142	0.471000	0.22100	-0.003000	0.14444	0.459000	0.35465	GAA		0.652	UBA7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350503.1	NM_003335		C	49842183	A	C	49842183	1	2	696	0	1	0	0	0	0	0	0	0	2235	69	3	5		5	C3orf54	3	49842183	IGR	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	1575298	49842183	148180247	28	45481										
ROBO1	6091	broad.mit.edu	37	chr3	79639003	79639003	+	Frame_Shift_Del	DEL	T	T	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gctgggccagaaacaggtgaTttggggataagctgaggagt							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr3:79639003delT	ENST00000464233.1	-	2	172	c.59delA	c.(58-60)aatfs	p.N20fs		NM_002941.3	NP_002932.1	Q9Y6N7	ROBO1_HUMAN	roundabout, axon guidance receptor, homolog 1 (Drosophila)	20					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|axon guidance (GO:0007411)|axon midline choice point recognition (GO:0016199)|cell adhesion (GO:0007155)|cell migration involved in sprouting angiogenesis (GO:0002042)|chemorepulsion involved in postnatal olfactory bulb interneuron migration (GO:0021836)|homophilic cell adhesion (GO:0007156)|mammary duct terminal end bud growth (GO:0060763)|negative regulation of chemokine-mediated signaling pathway (GO:0070100)|negative regulation of mammary gland epithelial cell proliferation (GO:0033600)|negative regulation of negative chemotaxis (GO:0050925)|nervous system development (GO:0007399)|positive regulation of axonogenesis (GO:0050772)|Roundabout signaling pathway (GO:0035385)	axolemma (GO:0030673)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	axon guidance receptor activity (GO:0008046)|identical protein binding (GO:0042802)|LRR domain binding (GO:0030275)			breast(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(2)|lung(25)|urinary_tract(1)	44		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		AAACAGGTGATTTGGGGATAA	0.393																																																0													165	164	164					3																	79639003		1916	4117	6033	SO:0001589	frameshift_variant	6091			AF040990	CCDS46872.1, CCDS46872.2, CCDS54610.1, CCDS54611.1	3p12.3	2013-02-11	2001-11-28		ENSG00000169855	ENSG00000169855		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	10249	protein-coding gene	gene with protein product		602430	"roundabout (axon guidance receptor, Drosophila) homolog 1"			9458045, 9608531	Standard	NM_002941		Approved	DUTT1, FLJ21882, SAX3	uc003dqe.2	Q9Y6N7	OTTHUMG00000158843	ENST00000464233.1:c.59delA	3.37:g.79639003delT	ENSP00000420321:p.Asn20fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RXI1|D3DU36|E9PD49|Q1RMC7|Q7Z300|Q9BUS7	Frame_Shift_Del	DEL	ENST00000464233.1	37	CCDS54611.1																																																																																				0.393	ROBO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352610.1	NM_002941		-	79639003	T	-	79639003	7	5	696	1	0	1	0	1	0	0	0	0	13526	1493	52	0	5088	0	ROBO1	3	79639003	Frame_Shift_Del	DEL	T	TCGA-P4-A5E7-01A-31D-A28G-10	29796820	79639003	118383427	29	45482										
ARHGAP31	57514	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	119099827	119099827	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ccaggagcttcctccatcccActataggtaagaatggttgg	10	11	0	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr3:119099827A>G	ENST00000264245.4	+	4	957	c.425A>G	c.(424-426)cAc>cGc	p.H142R		NM_020754.2	NP_065805.2	Q2M1Z3	RHG31_HUMAN	Rho GTPase activating protein 31	142	Rho-GAP. {ECO:0000255|PROSITE- ProRule:PRU00172}.				regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cell junction (GO:0030054)|cytosol (GO:0005829)|lamellipodium (GO:0030027)	GTPase activator activity (GO:0005096)			breast(5)|central_nervous_system(1)|cervix(1)|endometrium(10)|kidney(3)|large_intestine(11)|lung(29)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|stomach(1)|urinary_tract(1)	67						CCTCCATCCCACTATAGGTAA	0.493																																					Pancreas(7;176 297 5394 51128 51241)											0													84	84	84					3																	119099827		1967	4162	6129	SO:0001583	missense	57514				CCDS43135.1	3q13.33	2011-06-29			ENSG00000031081	ENSG00000031081		"Rho GTPase activating proteins"	29216	protein-coding gene	gene with protein product		610911				9786927, 12819203, 16519628	Standard	NM_020754		Approved	CDGAP	uc003ecj.4	Q2M1Z3	OTTHUMG00000159362	ENST00000264245.4:c.425A>G	3.37:g.119099827A>G	ENSP00000264245:p.His142Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q9ULL6	Missense_Mutation	SNP	ENST00000264245.4	37	CCDS43135.1	.	.	.	.	.	.	.	.	.	.	A	21.2	4.119225	0.77323	.	.	ENSG00000031081	ENST00000264245;ENST00000543280;ENST00000482743	T;T	0.24538	2.66;1.85	5.18	5.18	0.71444	Rho GTPase-activating protein domain (4);Rho GTPase activation protein (1);	0.000000	0.64402	D	0.000001	T	0.57460	0.2055	M	0.89840	3.065	0.58432	D	0.999999	D	0.89917	1.0	D	0.97110	1.0	T	0.66567	-0.5891	10	0.87932	D	0	.	12.9105	0.58177	1.0:0.0:0.0:0.0	.	142	Q2M1Z3	RHG31_HUMAN	R	142;142;113	ENSP00000264245:H142R;ENSP00000418429:H113R	ENSP00000264245:H142R	H	+	2	0	ARHGAP31	120582517	1.000000	0.71417	1.000000	0.80357	0.895000	0.52256	8.109000	0.89561	2.171000	0.68590	0.482000	0.46254	CAC		0.493	ARHGAP31-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354942.2			G	119099827	A	G	119099827	3	3	696	1	0	0	0	0	1	0	0	0	880	159	6	3	439	3	ARHGAP31	3	119099827	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	39460824	119099827	78922603	30	45483										
GOLGB1	2804	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	121415217	121415217	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	atgttctaggccagcaatttGtagttggctgctttccaatt	9	8	1	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr3:121415217G>A	ENST00000340645.5	-	13	4263	c.4138C>T	c.(4138-4140)Caa>Taa	p.Q1380*	GOLGB1_ENST00000393667.3_Nonsense_Mutation_p.Q1385*	NM_001256487.1|NM_001256488.1|NM_004487.4	NP_001243416.1|NP_001243417.1|NP_004478.3	Q14789	GOGB1_HUMAN	golgin B1	1380					Golgi organization (GO:0007030)	cis-Golgi network (GO:0005801)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|Golgi stack (GO:0005795)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)			NS(1)|autonomic_ganglia(1)|breast(7)|central_nervous_system(2)|cervix(2)|endometrium(12)|kidney(3)|large_intestine(26)|liver(2)|lung(36)|ovary(7)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(13)	119				GBM - Glioblastoma multiforme(114;0.0989)		CCAGCAATTTGTAGTTGGCTG	0.413																																																0													157	162	160					3																	121415217		2203	4299	6502	SO:0001587	stop_gained	2804			X75304	CCDS3004.1, CCDS58847.1, CCDS74989.1	3q13	2010-02-12	2010-02-12	2007-07-27	ENSG00000173230	ENSG00000173230			4429	protein-coding gene	gene with protein product	"macrogolgin", "golgi integral membrane protein 1"	602500	"golgi autoantigen, golgin subfamily b, macrogolgin (with transmembrane signal), 1", "golgin B1, golgi integral membrane protein"			7691276, 15004235	Standard	NM_001256486		Approved	GCP, GCP372, giantin, GOLIM1	uc010hrc.4	Q14789	OTTHUMG00000159411	ENST00000340645.5:c.4138C>T	3.37:g.121415217G>A	ENSP00000341848:p.Gln1380*	Somatic		WXS	Illumina HiSeq	Phase_I	B2ZZ91|D3DN92|E7EP74|Q14398	Nonsense_Mutation	SNP	ENST00000340645.5	37	CCDS3004.1	.	.	.	.	.	.	.	.	.	.	G	39	7.740962	0.98465	.	.	ENSG00000173230	ENST00000340645;ENST00000393667;ENST00000494517	.	.	.	6.17	3.41	0.39046	.	0.324362	0.26746	N	0.022716	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	5.993	0.19478	0.0:0.6622:0.1652:0.1726	.	.	.	.	X	1380;1385;1344	.	ENSP00000341848:Q1380X	Q	-	1	0	GOLGB1	122897907	0.273000	0.24181	0.748000	0.31131	0.666000	0.39218	0.959000	0.29240	0.464000	0.27142	-0.165000	0.13383	CAA		0.413	GOLGB1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000355159.1	NM_004487		A	121415217	G	A	121415217	4	1	696	1	0	0	0	0	0	1	0	0	6572	1386	48	2	5681	2	GOLGB1	3	121415217	Nonsense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	2315390	121415217	76607213	31	45484										
ARMC8	25852	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	137982982	137982982	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	attctttgtagatgtttgcaCagtttatccagatctgtgca	8	7	2	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr3:137982982C>T	ENST00000469044.1	+	14	1498	c.1227C>T	c.(1225-1227)caC>caT	p.H409H	ARMC8_ENST00000393058.3_Silent_p.H399H|ARMC8_ENST00000491704.1_Silent_p.H367H|ARMC8_ENST00000481646.1_Silent_p.H395H|NME9_ENST00000341790.5_Intron|NME9_ENST00000536478.1_Intron|NME9_ENST00000317876.4_Intron|NME9_ENST00000383180.2_Intron|NME9_ENST00000484930.1_Intron|ARMC8_ENST00000538260.1_Silent_p.H378H|ARMC8_ENST00000461822.1_Silent_p.H342H|ARMC8_ENST00000485396.1_Silent_p.H336H	NM_001267041.1|NM_001267042.1	NP_001253970.1|NP_001253971.1	Q8IUR7	ARMC8_HUMAN	armadillo repeat containing 8	409										endometrium(2)|kidney(1)|large_intestine(7)|lung(5)|upper_aerodigestive_tract(1)	16						GATGTTTGCACAGTTTATCCA	0.368																																																0													100	89	92					3																	137982982		1850	4099	5949	SO:0001819	synonymous_variant	25852				CCDS3098.1, CCDS54646.1, CCDS58853.1, CCDS58854.1, CCDS75020.1	3q22	2013-02-14			ENSG00000114098	ENSG00000114098		"Armadillo repeat containing"	24999	protein-coding gene	gene with protein product	"GID complex subunit 5, VID28 homolog (S. cerevisiae)"					11042152	Standard	NM_014154		Approved	HSPC056, DKFZP434A043, GID5, VID28	uc003esa.2	Q8IUR7	OTTHUMG00000159821	ENST00000469044.1:c.1227C>T	3.37:g.137982982C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0L2|B7Z441|B7Z453|D3DNE6|F5GWK4|Q6PIL2|Q96D19|Q96HZ5|Q9NV02|Q9NV94|Q9Y4R9	Silent	SNP	ENST00000469044.1	37																																																																																					0.368	ARMC8-003	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000357560.1	NM_015396		T	137982982	C	T	137982982	2	4	696	1	0	0	0	0	0	0	0	1	957	477	17	2		2	ARMC8	3	137982982	Silent	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	16567765	137982982	60039448	32	45485										
RBP1	5947	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	139237296	139237296	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tcaccctcgatccactgggtCcagccacgcccctccttctc	6	21	2	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr3:139237296C>A	ENST00000232219.2	-	3	617	c.507G>T	c.(505-507)tgG>tgT	p.W169C	RP11-319G6.1_ENST00000515247.1_RNA	NM_002899.3	NP_002890.2	P09455	RET1_HUMAN	retinol binding protein 1, cellular	107					phototransduction, visible light (GO:0007603)|retinoid metabolic process (GO:0001523)|vitamin A metabolic process (GO:0006776)	cytosol (GO:0005829)	retinal binding (GO:0016918)|retinoid binding (GO:0005501)|retinol binding (GO:0019841)|transporter activity (GO:0005215)			endometrium(1)|large_intestine(2)|lung(1)|prostate(1)	5					Acitretin(DB00459)|Vitamin A(DB00162)	TCCACTGGGTCCAGCCACGCC	0.592																																																0													120	95	104					3																	139237296		2203	4300	6503	SO:0001583	missense	5947				CCDS3110.2, CCDS46925.1, CCDS46926.1	3q21-q23	2013-03-01	2001-11-28		ENSG00000114115	ENSG00000114115		"Fatty acid binding protein family"	9919	protein-coding gene	gene with protein product		180260	"retinol-binding protein 1, cellular"			1654334, 9858824	Standard	NM_002899		Approved	CRABP-I, CRBP1, CRBP, RBPC, CRBPI	uc003eti.2	P09455	OTTHUMG00000155751	ENST00000232219.2:c.507G>T	3.37:g.139237296C>A	ENSP00000232219:p.Trp169Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2Q0|B7Z7A0|E7EWV0|F2Z2F2|Q6FGX8	Missense_Mutation	SNP	ENST00000232219.2	37	CCDS3110.2	.	.	.	.	.	.	.	.	.	.	C	24.1	4.491184	0.84962	.	.	ENSG00000114115	ENST00000232219	T	0.23147	1.92	5.93	5.93	0.95920	Calycin-like (1);Lipocalin/cytosolic fatty-acid binding protein domain (1);Calycin (1);	0.000000	0.85682	D	0.000000	T	0.54759	0.1878	M	0.77616	2.38	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.55477	-0.8135	10	0.72032	D	0.01	.	17.8376	0.88704	0.0:1.0:0.0:0.0	.	107	P09455	RET1_HUMAN	C	169	ENSP00000232219:W169C	ENSP00000232219:W169C	W	-	3	0	RBP1	140719986	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.088000	0.76901	2.815000	0.96918	0.561000	0.74099	TGG		0.592	RBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341495.1	NM_002899		A	139237296	C	A	139237296	3	1	696	1	0	0	0	0	1	0	0	0	13168	856	30	4	94	4	RBP1	3	139237296	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	1254314	139237296	58785134	33	45486										
LEPREL1	55214	ucsc.edu	37	chr3	189711953	189711953	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tcaaatctctgaggcccctcAcatagggtccggcattctgt	9	13	4	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr3:189711953A>G	ENST00000319332.5	-	3	950	c.753T>C	c.(751-753)tgT>tgC	p.C251C	LEPREL1_ENST00000427335.2_Silent_p.C70C	NM_018192.3	NP_060662.2	Q8IVL5	P3H2_HUMAN	leprecan-like 1	251					collagen metabolic process (GO:0032963)|extracellular matrix organization (GO:0030198)|negative regulation of cell proliferation (GO:0008285)|peptidyl-proline hydroxylation (GO:0019511)	basement membrane (GO:0005604)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum lumen (GO:0005788)|Golgi apparatus (GO:0005794)	iron ion binding (GO:0005506)|L-ascorbic acid binding (GO:0031418)|procollagen-proline 3-dioxygenase activity (GO:0019797)			NS(1)|breast(4)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(10)|liver(1)|lung(8)|ovary(2)|prostate(2)|skin(5)	41	all_cancers(143;4.01e-10)|Ovarian(172;0.0925)		Lung(62;4.35e-05)	GBM - Glioblastoma multiforme(93;0.02)	L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	GAGGCCCCTCACATAGGGTCC	0.378																																																0													78	79	78					3																	189711953		2203	4300	6503	SO:0001819	synonymous_variant	55214				CCDS3294.1, CCDS46981.1	3q29	2014-01-28			ENSG00000090530	ENSG00000090530	1.14.11.7		19317	protein-coding gene	gene with protein product	"prolyl 3-hydroxylase 2"	610341				15063763, 21885030	Standard	NM_018192		Approved	FLJ10718, MLAT4, P3H2	uc011bsk.2	Q8IVL5	OTTHUMG00000156312	ENST00000319332.5:c.753T>C	3.37:g.189711953A>G		Somatic		WXS	Illumina HiSeq		B3KPK0|B3KWI9|D3DNV8|Q9NVI2	Silent	SNP	ENST00000319332.5	37	CCDS3294.1																																																																																				0.378	LEPREL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000343855.1	NM_018192		G	189711953	A	G	189711953	2	3	696	1	0	0	0	0	0	0	0	1	8737	157	6	3		3	LEPREL1	3	189711953	Silent	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	50474657	189711953	8310477	34	45487										
EXOC1	55763	hgsc.bcm.edu	37	chr4	56738102	56738102	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ccggagactggccagtcaccTcaacaatgtttttgttcaac	8	12	3	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr4:56738102T>C	ENST00000381295.2	+	8	1400	c.1052T>C	c.(1051-1053)cTc>cCc	p.L351P	EXOC1_ENST00000346134.7_Missense_Mutation_p.L351P|EXOC1_ENST00000349598.6_Missense_Mutation_p.L351P	NM_001024924.1	NP_001020095.1	Q9NV70	EXOC1_HUMAN	exocyst complex component 1	351					cellular protein metabolic process (GO:0044267)|exocytosis (GO:0006887)|membrane organization (GO:0061024)|protein transport (GO:0015031)	exocyst (GO:0000145)|membrane (GO:0016020)|plasma membrane (GO:0005886)				breast(2)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(3)|lung(14)|ovary(2)|skin(4)|upper_aerodigestive_tract(1)	35	Glioma(25;0.08)|all_neural(26;0.101)					GCCAGTCACCTCAACAATGTT	0.393																																																0													76	76	76					4																	56738102		2203	4300	6503	SO:0001583	missense	55763			AK027047	CCDS3502.1, CCDS3503.1	4q12	2013-01-22	2005-11-01	2005-11-01	ENSG00000090989	ENSG00000090989			30380	protein-coding gene	gene with protein product		607879	"SEC3-like 1 (S. cerevisiae)"	SEC3L1		11042152, 11406615	Standard	XM_005265747		Approved	SEC3, FLJ10893, BM-102, Sec3p	uc003hbf.1	Q9NV70	OTTHUMG00000102165	ENST00000381295.2:c.1052T>C	4.37:g.56738102T>C	ENSP00000370695:p.Leu351Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q504V4|Q8WUE7|Q96T15|Q9NZE4	Missense_Mutation	SNP	ENST00000381295.2	37	CCDS3502.1	.	.	.	.	.	.	.	.	.	.	T	24.6	4.548026	0.86022	.	.	ENSG00000090989	ENST00000381295;ENST00000346134;ENST00000349598	.	.	.	6.06	6.06	0.98353	.	0.000000	0.85682	D	0.000000	T	0.80813	0.4695	M	0.81497	2.545	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.83261	-0.0048	9	0.87932	D	0	.	16.6245	0.84952	0.0:0.0:0.0:1.0	.	351;351	Q9NV70-2;Q9NV70	.;EXOC1_HUMAN	P	351	.	ENSP00000326514:L351P	L	+	2	0	EXOC1	56432859	1.000000	0.71417	1.000000	0.80357	0.943000	0.58893	7.546000	0.82137	2.323000	0.78572	0.528000	0.53228	CTC		0.393	EXOC1-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000361799.1	NM_018261		C	56738102	T	C	56738102	3	2	696	1	0	0	0	0	1	0	0	0	5303	1551	54	3	1078	3	EXOC1	4	56738102	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10		56738102	134416174	35	45488										
REST	5978	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	57797826	57797826	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	acgccagagggtgaaactttAaatggtaaacatcagactga	10	7	1	4			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr4:57797826A>C	ENST00000309042.7	+	4	3116	c.2802A>C	c.(2800-2802)ttA>ttC	p.L934F		NM_001193508.1|NM_005612.4	NP_001180437.1|NP_005603.3	Q13127	REST_HUMAN	RE1-silencing transcription factor	934					cardiac muscle cell myoblast differentiation (GO:0060379)|cellular response to drug (GO:0035690)|cellular response to electrical stimulus (GO:0071257)|cellular response to glucocorticoid stimulus (GO:0071385)|hematopoietic progenitor cell differentiation (GO:0002244)|histone H4 deacetylation (GO:0070933)|negative regulation by host of viral transcription (GO:0043922)|negative regulation of aldosterone biosynthetic process (GO:0032348)|negative regulation of amniotic stem cell differentiation (GO:2000798)|negative regulation of calcium ion-dependent exocytosis (GO:0045955)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cortisol biosynthetic process (GO:2000065)|negative regulation of dense core granule biogenesis (GO:2000706)|negative regulation of gene expression (GO:0010629)|negative regulation of insulin secretion (GO:0046676)|negative regulation of mesenchymal stem cell differentiation (GO:2000740)|negative regulation of neurogenesis (GO:0050768)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of transcription, DNA-templated (GO:0045893)|potassium ion transmembrane transport (GO:0071805)|regulation of transcription, DNA-templated (GO:0006355)	cytosol (GO:0005829)|nucleus (GO:0005634)|transcriptional repressor complex (GO:0017053)	chromatin binding (GO:0003682)|core promoter binding (GO:0001047)|core promoter sequence-specific DNA binding (GO:0001046)|metal ion binding (GO:0046872)|outward rectifier potassium channel activity (GO:0015271)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			central_nervous_system(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|liver(2)|lung(22)|ovary(1)|prostate(2)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	50	Glioma(25;0.08)|all_neural(26;0.181)					GTGAAACTTTAAATGGTAAAC	0.393																																																0													63	61	62					4																	57797826		2203	4300	6503	SO:0001583	missense	5978			U13879	CCDS3509.1	4q12	2008-02-05			ENSG00000084093	ENSG00000084093			9966	protein-coding gene	gene with protein product		600571				7871435, 7697725	Standard	NM_005612		Approved	NRSF, XBR	uc003hci.3	Q13127	OTTHUMG00000128770	ENST00000309042.7:c.2802A>C	4.37:g.57797826A>C	ENSP00000311816:p.Leu934Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A2RUE0|B9EGJ0|Q12956|Q12957|Q13134|Q59ER1|Q8IWI3	Missense_Mutation	SNP	ENST00000309042.7	37	CCDS3509.1	.	.	.	.	.	.	.	.	.	.	A	11.64	1.698194	0.30142	.	.	ENSG00000084093	ENST00000309042;ENST00000358605	T	0.09445	2.98	5.44	-0.433	0.12287	.	1.916850	0.03006	N	0.148774	T	0.10337	0.0253	L	0.44542	1.39	0.09310	N	1	B;B	0.22146	0.065;0.002	B;B	0.19946	0.027;0.003	T	0.36890	-0.9729	10	0.62326	D	0.03	3.7839	2.7257	0.05213	0.5094:0.2758:0.0816:0.1332	.	911;934	F8WAN5;Q13127	.;REST_HUMAN	F	934;911	ENSP00000311816:L934F	ENSP00000311816:L934F	L	+	3	2	REST	57492583	0.001000	0.12720	0.000000	0.03702	0.092000	0.18411	0.791000	0.26915	0.082000	0.17018	0.459000	0.35465	TTA		0.393	REST-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250691.2	NM_005612		C	57797826	A	C	57797826	3	2	696	1	0	0	0	0	1	0	0	0	13247	359	13	5	2812	5	REST	4	57797826	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	1059724	57797826	133356450	36	45489										
RAPGEF2	9693	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	160268070	160268070	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gccaccaccagcacataaaaTcaaccagggactacaggttc	7	14	1	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr4:160268070T>C	ENST00000264431.4	+	19	3568	c.3149T>C	c.(3148-3150)aTc>aCc	p.I1050T		NM_014247.2	NP_055062.1	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor (GEF) 2	1050					adenylate cyclase-activating adrenergic receptor signaling pathway (GO:0071880)|blood vessel development (GO:0001568)|brain-derived neurotrophic factor receptor signaling pathway (GO:0031547)|cAMP-mediated signaling (GO:0019933)|cellular response to cAMP (GO:0071320)|cellular response to cGMP (GO:0071321)|cellular response to nerve growth factor stimulus (GO:1990090)|establishment of endothelial barrier (GO:0061028)|forebrain neuron development (GO:0021884)|G-protein coupled receptor signaling pathway (GO:0007186)|intracellular signal transduction (GO:0035556)|MAPK cascade (GO:0000165)|negative regulation of cell proliferation (GO:0008285)|negative regulation of dendrite morphogenesis (GO:0050774)|negative regulation of melanin biosynthetic process (GO:0048022)|nerve growth factor signaling pathway (GO:0038180)|neuron migration (GO:0001764)|neuron projection development (GO:0031175)|neuropeptide signaling pathway (GO:0007218)|positive regulation of cAMP-dependent protein kinase activity (GO:2000481)|positive regulation of cAMP-mediated signaling (GO:0043950)|positive regulation of dendritic cell apoptotic process (GO:2000670)|positive regulation of ERK1 and ERK2 cascade (GO:0070374)|positive regulation of neuron migration (GO:2001224)|positive regulation of neuron projection development (GO:0010976)|positive regulation of protein binding (GO:0032092)|positive regulation of protein kinase activity (GO:0045860)|positive regulation of Rap GTPase activity (GO:0032854)|positive regulation of Ras GTPase activity (GO:0032320)|positive regulation of vasculogenesis (GO:2001214)|Rap protein signal transduction (GO:0032486)|regulation of cell junction assembly (GO:1901888)|regulation of synaptic plasticity (GO:0048167)|small GTPase mediated signal transduction (GO:0007264)|ventricular system development (GO:0021591)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|late endosome (GO:0005770)|membrane (GO:0016020)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|synapse (GO:0045202)	beta-1 adrenergic receptor binding (GO:0031697)|calcium ion binding (GO:0005509)|cAMP binding (GO:0030552)|diacylglycerol binding (GO:0019992)|PDZ domain binding (GO:0030165)|Rap GTPase activator activity (GO:0046582)|Rap guanyl-nucleotide exchange factor activity (GO:0017034)|Ras guanyl-nucleotide exchange factor activity (GO:0005088)|signal transducer activity (GO:0004871)|WW domain binding (GO:0050699)			breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(15)|liver(1)|lung(29)|ovary(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(3)	70	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		GCACATAAAATCAACCAGGGA	0.522																																																0													77	90	86					4																	160268070		2010	4186	6196	SO:0001583	missense	9693			AB002311	CCDS43277.1	4q32.1	2004-03-01	2004-03-01	2004-03-01					16854	protein-coding gene	gene with protein product	"Rap GEP"	609530	"PDZ domain containing guanine nucleotide exchange factor (GEF) 1"	PDZGEF1		9205841, 10934204	Standard	NM_014247		Approved	PDZ-GEF1, RA-GEF, DKFZP586O1422, KIAA0313	uc003iqg.4	Q9Y4G8		ENST00000264431.4:c.3149T>C	4.37:g.160268070T>C	ENSP00000264431:p.Ile1050Thr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DP27	Missense_Mutation	SNP	ENST00000264431.4	37	CCDS43277.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	7.351|7.351	0.622902|0.622902	0.14193|0.14193	.|.	.|.	ENSG00000109756|ENSG00000109756	ENST00000264431|ENST00000510253	T|.	0.36878|.	1.23|.	6.17|6.17	-4.18|-4.18	0.03846|0.03846	.|.	1.187630|.	0.05843|.	N|.	0.619694|.	T|T	0.15132|0.15132	0.0365|0.0365	N|N	0.08118|0.08118	0|0	0.09310|0.09310	N|N	1|1	B|.	0.02656|.	0.0|.	B|.	0.12156|.	0.007|.	T|T	0.30909|0.30909	-0.9962|-0.9962	10|5	0.10636|.	T|.	0.68|.	.|.	7.3539|7.3539	0.26709|0.26709	0.0:0.3427:0.2057:0.4516|0.0:0.3427:0.2057:0.4516	.|.	1050|.	Q9Y4G8|.	RPGF2_HUMAN|.	T|P	1050|82	ENSP00000264431:I1050T|.	ENSP00000264431:I1050T|.	I|S	+|+	2|1	0|0	RAPGEF2|RAPGEF2	160487520|160487520	0.005000|0.005000	0.15991|0.15991	0.000000|0.000000	0.03702|0.03702	0.300000|0.300000	0.27592|0.27592	-0.012000|-0.012000	0.12699|0.12699	-0.941000|-0.941000	0.03700|0.03700	-1.931000|-1.931000	0.00510|0.00510	ATC|TCA		0.522	RAPGEF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364980.2	NM_014247		C	160268070	T	C	160268070	3	2	696	1	0	0	0	0	1	0	0	0	13057	1435	50	3	3223	3	RAPGEF2	4	160268070	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10	102470244	160268070	30886206	37	45490										
UFSP2	55325	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	186334930	186334930	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gtaagtatgtggatttctaaTgtaaccatctttgtatggct	9	5	2	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr4:186334930T>C	ENST00000264689.6	-	7	897	c.781A>G	c.(781-783)Att>Gtt	p.I261V	UFSP2_ENST00000502282.1_5'Flank|Y_RNA_ENST00000384502.1_RNA	NM_018359.3	NP_060829.2	Q9NUQ7	UFSP2_HUMAN	UFM1-specific peptidase 2	261						cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)	small conjugating protein-specific protease activity (GO:0019783)|thiolester hydrolase activity (GO:0016790)			endometrium(3)|kidney(1)|large_intestine(3)|lung(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	12		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;3.4e-25)|Epithelial(43;2.23e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;8.1e-05)|GBM - Glioblastoma multiforme(59;0.000148)|STAD - Stomach adenocarcinoma(60;0.000782)|LUSC - Lung squamous cell carcinoma(40;0.00939)|COAD - Colon adenocarcinoma(29;0.0108)|READ - Rectum adenocarcinoma(43;0.166)		GGATTTCTAATGTAACCATCT	0.363																																																0													178	177	177					4																	186334930		2203	4300	6503	SO:0001583	missense	55325			AK002062	CCDS3842.1	4q35.1	2008-03-25	2008-03-25	2008-03-25	ENSG00000109775	ENSG00000109775			25640	protein-coding gene	gene with protein product		611482	"chromosome 4 open reading frame 20"	C4orf20		17182609	Standard	NM_018359		Approved	FLJ11200	uc003ixo.2	Q9NUQ7	OTTHUMG00000160441	ENST00000264689.6:c.781A>G	4.37:g.186334930T>C	ENSP00000264689:p.Ile261Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IA77|Q96FS3	Missense_Mutation	SNP	ENST00000264689.6	37	CCDS3842.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	14.46|14.46	2.540584|2.540584	0.45280|0.45280	.|.	.|.	ENSG00000109775|ENSG00000109775	ENST00000511485|ENST00000264689	.|T	.|0.30448	.|1.53	6.04|6.04	3.62|3.62	0.41486|0.41486	.|.	.|0.130647	.|0.52532	.|D	.|0.000066	T|T	0.24470|0.24470	0.0593|0.0593	L|L	0.44542|0.44542	1.39|1.39	0.36491|0.36491	D|D	0.86842|0.86842	.|B;B	.|0.15473	.|0.013;0.001	.|B;B	.|0.14023	.|0.006;0.01	T|T	0.14671|0.14671	-1.0464|-1.0464	5|10	.|0.49607	.|T	.|0.09	-25.5742|-25.5742	8.1278|8.1278	0.31010|0.31010	0.0:0.0717:0.3242:0.6041|0.0:0.0717:0.3242:0.6041	.|.	.|261;161	.|Q9NUQ7;B3KRI4	.|UFSP2_HUMAN;.	R|V	174|261	.|ENSP00000264689:I261V	.|ENSP00000264689:I261V	H|I	-|-	2|1	0|0	UFSP2|UFSP2	186571924|186571924	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.989000|0.989000	0.77384|0.77384	4.485000|4.485000	0.60279|0.60279	1.085000|1.085000	0.41206|0.41206	0.459000|0.459000	0.35465|0.35465	CAT|ATT		0.363	UFSP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360589.2	NM_018359		C	186334930	T	C	186334930	3	2	696	1	0	0	0	0	1	0	0	0	16950	1464	51	3	652	3	UFSP2	4	186334930	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10	26066860	186334930	4819346	38	45491										
PIK3R1	5295	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	67588157	67588158	+	Frame_Shift_Ins	INS	-	-	G													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ataacaatatgtccttacaaINSgatgctgaatggtactgggg							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr5:67588157_67588158insG	ENST00000521381.1	+	8	1603_1604	c.987_988insG	c.(988-990)gatfs	p.D330fs	PIK3R1_ENST00000523872.1_5'Flank|PIK3R1_ENST00000336483.5_Frame_Shift_Ins_p.D60fs|PIK3R1_ENST00000320694.8_Frame_Shift_Ins_p.D30fs|PIK3R1_ENST00000274335.5_Frame_Shift_Ins_p.D330fs|PIK3R1_ENST00000521657.1_Frame_Shift_Ins_p.D330fs|PIK3R1_ENST00000396611.1_Frame_Shift_Ins_p.D330fs	NM_181523.2	NP_852664.1	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1 (alpha)	330				D -> N (in Ref. 1; M61906). {ECO:0000305}.	B cell differentiation (GO:0030183)|blood coagulation (GO:0007596)|cellular response to UV (GO:0034644)|epidermal growth factor receptor signaling pathway (GO:0007173)|extrinsic apoptotic signaling pathway via death domain receptors (GO:0008625)|Fc-epsilon receptor signaling pathway (GO:0038095)|Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|fibroblast growth factor receptor signaling pathway (GO:0008543)|growth hormone receptor signaling pathway (GO:0060396)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|insulin-like growth factor receptor signaling pathway (GO:0048009)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|leukocyte migration (GO:0050900)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of osteoclast differentiation (GO:0045671)|neurotrophin TRK receptor signaling pathway (GO:0048011)|NFAT protein import into nucleus (GO:0051531)|phosphatidylinositol 3-kinase signaling (GO:0014065)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol phosphorylation (GO:0046854)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet activation (GO:0030168)|positive regulation of cell migration (GO:0030335)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of glucose import (GO:0046326)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of tumor necrosis factor production (GO:0032760)|protein phosphorylation (GO:0006468)|regulation of phosphatidylinositol 3-kinase activity (GO:0043551)|small molecule metabolic process (GO:0044281)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)|viral process (GO:0016032)	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex (GO:0005943)|cell-cell junction (GO:0005911)|cytosol (GO:0005829)|membrane (GO:0016020)|phosphatidylinositol 3-kinase complex (GO:0005942)|plasma membrane (GO:0005886)	ErbB-3 class receptor binding (GO:0043125)|insulin binding (GO:0043559)|insulin receptor binding (GO:0005158)|insulin receptor substrate binding (GO:0043560)|insulin-like growth factor receptor binding (GO:0005159)|neurotrophin TRKA receptor binding (GO:0005168)|phosphatidylinositol 3-kinase binding (GO:0043548)|phosphatidylinositol 3-kinase regulator activity (GO:0035014)|protein phosphatase binding (GO:0019903)|transmembrane receptor protein tyrosine kinase adaptor activity (GO:0005068)	p.0?(1)|p.?(1)		breast(12)|central_nervous_system(31)|cervix(1)|endometrium(68)|haematopoietic_and_lymphoid_tissue(5)|kidney(1)|large_intestine(32)|lung(10)|ovary(9)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	178		Lung NSC(167;1.99e-05)|Prostate(74;0.00308)|Ovarian(174;0.00473)|Colorectal(97;0.0176)		OV - Ovarian serous cystadenocarcinoma(47;3.76e-51)|Lung(70;0.0211)	Isoprenaline(DB01064)	TGTCCTTACAAGATGCTGAATG	0.396			"Mis, F, O"		"gliobastoma, ovarian, colorectal"					TCGA GBM(4;<1E-08)																													Rec	yes		5	5q13.1	5295	"phosphoinositide-3-kinase, regulatory subunit 1 (alpha)"		"E, O"	2	Whole gene deletion(1)|Unknown(1)	large_intestine(1)|lung(1)																																								SO:0001589	frameshift_variant	5295			M61906	CCDS3993.1, CCDS3994.1, CCDS3995.1, CCDS56374.1	5q13.1	2014-09-17	2008-02-04		ENSG00000145675	ENSG00000145675		"SH2 domain containing"	8979	protein-coding gene	gene with protein product		171833				1314371, 18387942	Standard	NM_181524		Approved	GRB1, p85-ALPHA, p85	uc003jva.3	P27986	OTTHUMG00000131251	ENST00000521381.1:c.988dupG	5.37:g.67588158_67588158dupG	ENSP00000428056:p.Asp330fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KT19|D3DWA0|E7EX19|Q15747|Q4VBZ7|Q53EM6|Q8IXA2|Q8N1C5	Frame_Shift_Ins	INS	ENST00000521381.1	37	CCDS3993.1																																																																																				0.396	PIK3R1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254013.2	NM_181504		G	67588158	-	G	67588157	7	5	696	1	0	1	1	0	0	0	0	0	11925	69	3	0	1143	0	PIK3R1	5	67588157	Frame_Shift_Ins	INS	-	TCGA-P4-A5E7-01A-31D-A28G-10		67588157	113327103	39	45492										
C5orf30	90355	ucsc.edu;bcgsc.ca	37	chr5	102611692	102611692	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ttccctggggctgaggccaaCtccccgggaaaggcggaggc	16	13	0	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr5:102611692C>T	ENST00000319933.2	+	3	380	c.72C>T	c.(70-72)aaC>aaT	p.N24N	C5orf30_ENST00000510890.1_Silent_p.N24N|C5orf30_ENST00000515669.1_Silent_p.N24N	NM_033211.2	NP_149988.1	Q96GV9	CE030_HUMAN	chromosome 5 open reading frame 30	24					cilium morphogenesis (GO:0060271)|protein transport (GO:0015031)	ciliary transition zone (GO:0035869)|cytoplasm (GO:0005737)				NS(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(2)|prostate(1)|upper_aerodigestive_tract(1)	9		all_cancers(142;2.22e-05)|all_epithelial(76;9.54e-08)|Prostate(80;0.0174)|Colorectal(57;0.0551)|Ovarian(225;0.11)|Lung NSC(167;0.136)|all_lung(232;0.18)		Epithelial(69;2.84e-14)|COAD - Colon adenocarcinoma(37;0.00762)		CTGAGGCCAACTCCCCGGGAA	0.567																																																0													41	42	42					5																	102611692		2203	4299	6502	SO:0001819	synonymous_variant	90355				CCDS4095.1	5q21.1	2012-02-23			ENSG00000181751	ENSG00000181751			25052	protein-coding gene	gene with protein product						22085962	Standard	NM_033211		Approved	FLJ25291	uc003kog.1	Q96GV9	OTTHUMG00000128738	ENST00000319933.2:c.72C>T	5.37:g.102611692C>T		Somatic		WXS	Illumina HiSeq			Silent	SNP	ENST00000319933.2	37	CCDS4095.1																																																																																				0.567	C5orf30-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250649.1	NM_033211		T	102611692	C	T	102611692	2	4	696	1	0	0	0	0	0	0	0	1	2292	564	20	2		2	C5orf30	5	102611692	Silent	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	35023535	102611692	78303568	40	45493										
NQO2	4835	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	3010268	3010268	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tcctgatttaggtaagaaagTactcattgtctatgcacacc	7	9	2	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr6:3010268T>C	ENST00000338130.2	+	6	729	c.17T>C	c.(16-18)gTa>gCa	p.V6A	NQO2_ENST00000380454.4_Missense_Mutation_p.V6A|NQO2_ENST00000380455.4_Missense_Mutation_p.V6A|NQO2_ENST00000380430.1_Missense_Mutation_p.V6A|NQO2_ENST00000606474.1_3'UTR|NQO2_ENST00000380441.1_Missense_Mutation_p.V6A			P16083	NQO2_HUMAN	NAD(P)H dehydrogenase, quinone 2	6					memory (GO:0007613)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	dihydronicotinamide riboside quinone reductase activity (GO:0001512)|electron carrier activity (GO:0009055)|metal ion binding (GO:0046872)|NADPH dehydrogenase (quinone) activity (GO:0008753)			endometrium(1)|large_intestine(1)|lung(2)|ovary(1)|prostate(1)|skin(1)	7	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Dabigatran etexilate(DB06695)|Flavin adenine dinucleotide(DB03147)|Melatonin(DB01065)|Menadione(DB00170)|Primaquine(DB01087)	GGTAAGAAAGTACTCATTGTC	0.423																																																0													97	87	90					6																	3010268		2203	4300	6503	SO:0001583	missense	4835			U07736	CCDS4481.1, CCDS75388.1	6p25.2	2012-09-20	2001-11-30	2001-12-07	ENSG00000124588	ENSG00000124588	1.6.5.2		7856	protein-coding gene	gene with protein product		160998	"NAD(P)H menadione oxidoreductase 2, dioxin-inducible"	NMOR2		1691923	Standard	XM_005249152		Approved	QR2, DHQV, DIA6	uc003mus.2	P16083	OTTHUMG00000014130	ENST00000338130.2:c.17T>C	6.37:g.3010268T>C	ENSP00000337773:p.Val6Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2R492|Q5TD04	Missense_Mutation	SNP	ENST00000338130.2	37	CCDS4481.1	.	.	.	.	.	.	.	.	.	.	T	12.76	2.034069	0.35893	.	.	ENSG00000124588	ENST00000426637;ENST00000380472;ENST00000538898;ENST00000397717;ENST00000338130;ENST00000380441;ENST00000380455;ENST00000380454;ENST00000380430	T;T;T;T;T;T;T;T	0.11930	2.81;2.73;2.73;2.81;2.81;2.81;2.81;2.81	5.63	5.63	0.86233	Flavodoxin-like fold (1);	0.123571	0.56097	D	0.000034	T	0.18800	0.0451	L	0.52823	1.66	0.44771	D	0.997777	P;D	0.89917	0.613;1.0	P;D	0.91635	0.851;0.999	T	0.06516	-1.0822	10	0.16896	T	0.51	-27.3633	13.5807	0.61901	0.0:0.0:0.0:1.0	.	6;53	P16083;Q59EN2	NQO2_HUMAN;.	A	6;6;53;6;6;6;6;6;6	ENSP00000406951:V6A;ENSP00000369839:V6A;ENSP00000380829:V6A;ENSP00000337773:V6A;ENSP00000369806:V6A;ENSP00000369822:V6A;ENSP00000369821:V6A;ENSP00000369795:V6A	ENSP00000337773:V6A	V	+	2	0	NQO2	2955267	0.985000	0.35326	1.000000	0.80357	0.371000	0.29859	1.927000	0.40094	2.140000	0.66376	0.460000	0.39030	GTA		0.423	NQO2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039651.1			C	3010268	T	C	3010268	3	2	696	1	0	0	0	0	1	0	0	0	10619	1638	57	3	23	3	NQO2	6	3010268	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10		3010268	168104799	41	45494										
PRPF4B	8899	bcgsc.ca	37	chr6	4032300	4032315	+	Frame_Shift_Del	DEL	AAGTAAAAGCAGATCC	AAGTAAAAGCAGATCC	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	aaaattactacaaagaaacgAagtaaaagcagatccaaaga							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	AAGTAAAAGCAGATCC	AAGTAAAAGCAGATCC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr6:4032300_4032315delAAGTAAAAGCAGATCC	ENST00000337659.6	+	2	649_664	c.549_564delAAGTAAAAGCAGATCC	c.(547-564)cgaagtaaaagcagatccfs	p.RSKSRS183fs	PRPF4B_ENST00000538861.1_Frame_Shift_Del_p.RSKSRS169fs	NM_003913.4	NP_003904.3	Q13523	PRP4B_HUMAN	pre-mRNA processing factor 4B	183	Arg/Lys-rich (basic).				mRNA splicing, via spliceosome (GO:0000398)|protein phosphorylation (GO:0006468)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|chromosome (GO:0005694)|nucleus (GO:0005634)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			breast(6)|endometrium(3)|large_intestine(5)|lung(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	22	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				CAAAGAAACGAAGTAAAAGCAGATCCAAAGAACGGA	0.356																																																0																																										SO:0001589	frameshift_variant	8899			U48736	CCDS4488.1	6p24.2	2013-10-03	2013-10-03		ENSG00000112739	ENSG00000112739			17346	protein-coding gene	gene with protein product		602338	"PRP4 pre-mRNA processing factor 4 homolog B (yeast)"			9628581, 11418604	Standard	XR_241936		Approved	Prp4, PR4H, KIAA0536	uc003mvv.3	Q13523	OTTHUMG00000014157	ENST00000337659.6:c.549_564delAAGTAAAAGCAGATCC	6.37:g.4032300_4032315delAAGTAAAAGCAGATCC	ENSP00000337194:p.Arg183fs	Somatic		WXS	Illumina HiSeq	Phase_1	A8K5C9|Q5D0F6|Q5TAY8|Q8IVC3|Q8TDP2|Q96QT7|Q9UEE6	Frame_Shift_Del	DEL	ENST00000337659.6	37	CCDS4488.1																																																																																				0.356	PRPF4B-011	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000314018.2			-	4032315	AAGTAAAAGCAGATCC	-	4032300	7	5	696	1	0	1	0	1	0	0	0	0	12583	233	9	0	555	0	PRPF4B	6	4032300	Frame_Shift_Del	DEL	AAGTAAAAGCAGATCC	TCGA-P4-A5E7-01A-31D-A28G-10	1022032	4032300	167082767	42	45495										
GABBR1	2550	hgsc.bcm.edu	37	chr6	29595420	29595420	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ccccgatgtacactgcgcgcCgttctgaggaggggtgcggg	17	12	1	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr6:29595420C>T	ENST00000377034.4	-	6	835	c.500G>A	c.(499-501)cGg>cAg	p.R167Q	GABBR1_ENST00000377012.4_Missense_Mutation_p.R50Q|GABBR1_ENST00000355973.3_Missense_Mutation_p.R50Q|GABBR1_ENST00000376977.3_Missense_Mutation_p.R167Q|GABBR1_ENST00000377016.4_Missense_Mutation_p.R105Q	NM_001470.2	NP_001461.1	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor, 1	167					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|gamma-aminobutyric acid signaling pathway (GO:0007214)|negative regulation of adenylate cyclase activity (GO:0007194)|synaptic transmission (GO:0007268)	cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|extracellular region (GO:0005576)|G-protein coupled receptor heterodimeric complex (GO:0038039)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|presynaptic membrane (GO:0042734)	G-protein coupled GABA receptor activity (GO:0004965)			endometrium(3)|kidney(1)|large_intestine(13)|liver(1)|lung(16)|ovary(5)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	47					Baclofen(DB00181)|Progabide(DB00837)|Vigabatrin(DB01080)	CACTGCGCGCCGTTCTGAGGA	0.716																																																0													5	5	5					6																	29595420		1961	3937	5898	SO:0001583	missense	2550			Y11044	CCDS4663.1, CCDS4664.1, CCDS4665.1	6p21.3	2012-08-29			ENSG00000204681	ENSG00000204681		"GABA receptors", "GPCR / Class C : GABA(B) receptors"	4070	protein-coding gene	gene with protein product	"GABA-B receptor"	603540				9753614, 9798068	Standard	NM_001470		Approved	hGB1a, GPRC3A	uc003nmt.4	Q9UBS5	OTTHUMG00000031095	ENST00000377034.4:c.500G>A	6.37:g.29595420C>T	ENSP00000366233:p.Arg167Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B0UXY7|O95375|O95468|O95975|O96022|Q5STL4|Q5SUJ8|Q5SUL3|Q71SG6|Q86W60|Q9UQQ0	Missense_Mutation	SNP	ENST00000377034.4	37	CCDS4663.1	.	.	.	.	.	.	.	.	.	.	C	17.14	3.313674	0.60414	.	.	ENSG00000204681	ENST00000355973;ENST00000376977;ENST00000377016;ENST00000377012;ENST00000377034	D;T;D;D;T	0.82984	-1.67;-0.98;-1.57;-1.67;-0.45	3.25	3.25	0.37280	.	0.279410	0.27912	U	0.017356	T	0.57257	0.2041	L	0.46157	1.445	0.33376	D	0.574201	B;B;B;B	0.28208	0.071;0.065;0.063;0.203	B;B;B;B	0.21151	0.033;0.01;0.011;0.028	T	0.49263	-0.8958	10	0.22109	T	0.4	-24.9114	6.2007	0.20575	0.0:0.8596:0.0:0.1404	.	167;105;167;50	Q9UBS5-5;Q9UBS5-3;Q9UBS5;Q5SUJ9	.;.;GABR1_HUMAN;.	Q	50;167;105;50;167	ENSP00000348248:R50Q;ENSP00000366176:R167Q;ENSP00000366215:R105Q;ENSP00000366211:R50Q;ENSP00000366233:R167Q	ENSP00000348248:R50Q	R	-	2	0	GABBR1	29703399	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	2.661000	0.46758	1.645000	0.50612	0.455000	0.32223	CGG		0.716	GABBR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076141.3			T	29595420	C	T	29595420	3	4	696	1	0	0	0	0	1	0	0	0	6162	652	23	1	2457	1	GABBR1	6	29595420	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	25563120	29595420	141519647	43	45496										
NFKBIL1	4795	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	31526116	31526116	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	accccagaggagcggggaggGgcagcctctggcgatttggt	18	10	1	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr6:31526116G>A	ENST00000376148.4	+	4	988	c.874G>A	c.(874-876)Ggc>Agc	p.G292S	NFKBIL1_ENST00000376145.4_Missense_Mutation_p.G277S	NM_005007.3	NP_004998.3	Q9UBC1	IKBL1_HUMAN	nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor-like 1	292					cellular response to lipopolysaccharide (GO:0071222)|cytoplasmic sequestering of transcription factor (GO:0042994)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|negative regulation of lipopolysaccharide-mediated signaling pathway (GO:0031665)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of toll-like receptor signaling pathway (GO:0034122)|negative regulation of tumor necrosis factor production (GO:0032720)	cytosol (GO:0005829)|intermediate filament cytoskeleton (GO:0045111)|nucleus (GO:0005634)				breast(1)|endometrium(2)|large_intestine(1)|lung(2)|skin(1)	7						AGCGGGGAGGGGCAGCCTCTG	0.711																																																0													7	7	7					6																	31526116		1474	2672	4146	SO:0001583	missense	4795			X77909	CCDS4700.1, CCDS47399.1, CCDS47400.1	6p21.3	2010-02-17			ENSG00000204498	ENSG00000204498			7800	protein-coding gene	gene with protein product		601022		NFKBIL		8081366	Standard	NM_005007		Approved	IKBL	uc003nub.3	Q9UBC1	OTTHUMG00000031038	ENST00000376148.4:c.874G>A	6.37:g.31526116G>A	ENSP00000365318:p.Gly292Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NL91|B4DUW1|Q14625|Q5HYU4|Q5RJ72|Q5ST96|Q5STV4|Q5STV5|Q9UBX4	Missense_Mutation	SNP	ENST00000376148.4	37	CCDS4700.1	.	.	.	.	.	.	.	.	.	.	G	13.38	2.218538	0.39201	.	.	ENSG00000204498	ENST00000376146;ENST00000376148;ENST00000376145	T;T;T	0.30448	1.53;1.53;1.53	5.95	3.09	0.35607	.	0.261597	0.36555	N	0.002538	T	0.04318	0.0119	N	0.11560	0.145	0.31038	N	0.71666	B;B;B	0.06786	0.0;0.001;0.0	B;B;B	0.04013	0.001;0.001;0.001	T	0.39820	-0.9595	10	0.17369	T	0.5	-13.1009	5.6448	0.17584	0.1708:0.1613:0.6679:0.0	.	269;277;292	Q5STV6;Q5STV4;Q9UBC1	.;.;IKBL1_HUMAN	S	269;292;277	ENSP00000365316:G269S;ENSP00000365318:G292S;ENSP00000365315:G277S	ENSP00000365315:G277S	G	+	1	0	NFKBIL1	31634095	0.998000	0.40836	0.997000	0.53966	0.980000	0.70556	0.920000	0.28705	0.863000	0.35553	0.563000	0.77884	GGC		0.711	NFKBIL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076036.3	NM_005007		A	31526116	G	A	31526116	3	1	696	1	0	0	0	0	1	0	0	0	10388	1232	43	2	888	2	NFKBIL1	6	31526116	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	1930696	31526116	139588951	44	45497										
ZBTB22	9278	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	33284267	33284267	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ttctcggagtagttcagtgcActtgtccacaatgtgccaca	9	11	2	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr6:33284267A>G	ENST00000431845.2	-	2	578	c.427T>C	c.(427-429)Tgc>Cgc	p.C143R	TAPBP_ENST00000434618.2_5'Flank|TAPBP_ENST00000475304.1_5'Flank|TAPBP_ENST00000426633.2_5'Flank|TAPBP_ENST00000489157.1_5'Flank|ZBTB22_ENST00000418724.1_Missense_Mutation_p.C143R|TAPBP_ENST00000456592.2_5'Flank	NM_005453.4	NP_005444.4	O15209	ZBT22_HUMAN	zinc finger and BTB domain containing 22	143					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(1)|endometrium(3)|large_intestine(1)|lung(9)|ovary(2)|prostate(1)|urinary_tract(3)	21						AGTTCAGTGCACTTGTCCACA	0.587																																																0													111	108	109					6																	33284267		2203	4300	6503	SO:0001583	missense	9278			Z97183	CCDS4775.1	6p21.3	2013-01-09	2006-04-12	2006-04-12	ENSG00000236104	ENSG00000236104		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	13085	protein-coding gene	gene with protein product		611439	"zinc finger protein 297"	ZNF297			Standard	NM_005453		Approved	BING1, ZNF297A, fruitless, fru, ZBTB22A	uc010juu.3	O15209	OTTHUMG00000031110	ENST00000431845.2:c.427T>C	6.37:g.33284267A>G	ENSP00000407545:p.Cys143Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B0V007|Q5HYV4|Q5STL0|Q5STR7|Q8WV82	Missense_Mutation	SNP	ENST00000431845.2	37	CCDS4775.1	.	.	.	.	.	.	.	.	.	.	A	16.56	3.158170	0.57368	.	.	ENSG00000236104	ENST00000418724;ENST00000431845;ENST00000441117	T;T;T	0.33438	1.41;1.41;1.41	4.24	4.24	0.50183	BTB/POZ-like (1);BTB/POZ (1);BTB/POZ fold (2);	0.000000	0.36555	N	0.002524	T	0.62270	0.2414	H	0.98218	4.175	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	T	0.75563	-0.3274	10	0.72032	D	0.01	.	11.3566	0.49620	1.0:0.0:0.0:0.0	.	143	O15209	ZBT22_HUMAN	R	143	ENSP00000404403:C143R;ENSP00000407545:C143R;ENSP00000413172:C143R	ENSP00000404403:C143R	C	-	1	0	ZBTB22	33392245	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.104000	0.94239	1.784000	0.52394	0.450000	0.29827	TGC		0.587	ZBTB22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076183.2			G	33284267	A	G	33284267	3	3	696	1	0	0	0	0	1	0	0	0	17542	159	6	3	1481	3	ZBTB22	6	33284267	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	1758151	33284267	137830800	45	45498										
HCRTR2	3062	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	55039411	55039411	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cggcaccaaattggaggactCccccccttgtcgcaactggt	10	15	0	0	rs76774128		TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr6:55039411C>G	ENST00000370862.3	+	1	362	c.26C>G	c.(25-27)tCc>tGc	p.S9C		NM_001526.3	NP_001517.2	O43614	OX2R_HUMAN	hypocretin (orexin) receptor 2	9					circadian sleep/wake cycle process (GO:0022410)|feeding behavior (GO:0007631)|neuropeptide signaling pathway (GO:0007218)|synaptic transmission (GO:0007268)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	neuropeptide receptor activity (GO:0008188)|orexin receptor activity (GO:0016499)	p.P11fs*11(1)		breast(3)|endometrium(2)|kidney(1)|large_intestine(7)|lung(23)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(1)	46	Lung NSC(77;0.107)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			TTGGAGGACTCCCCCCCTTGT	0.567																																																1	Deletion - Frameshift(1)	upper_aerodigestive_tract(1)											101	96	98					6																	55039411		2203	4300	6503	SO:0001583	missense	3062			AF041245	CCDS4956.1	6p12.1	2012-09-20			ENSG00000137252	ENSG00000137252		"GPCR / Class A : Hypocretin (orexin) receptors"	4849	protein-coding gene	gene with protein product		602393				9491897	Standard	NM_001526		Approved	OX2R	uc003pcl.3	O43614	OTTHUMG00000016150	ENST00000370862.3:c.26C>G	6.37:g.55039411C>G	ENSP00000359899:p.Ser9Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VTM0	Missense_Mutation	SNP	ENST00000370862.3	37	CCDS4956.1	.	.	.	.	.	.	.	.	.	.	C	12.39	1.922205	0.33908	.	.	ENSG00000137252	ENST00000370862	T	0.62232	0.04	4.81	3.94	0.45596	.	0.414369	0.27084	N	0.021005	T	0.30572	0.0769	L	0.36672	1.1	0.32083	N	0.592878	B	0.02656	0.0	B	0.04013	0.001	T	0.14227	-1.0480	10	0.42905	T	0.14	.	8.2548	0.31748	0.0:0.7582:0.1587:0.0831	.	9	O43614	OX2R_HUMAN	C	9	ENSP00000359899:S9C	ENSP00000359899:S9C	S	+	2	0	HCRTR2	55147370	0.019000	0.18553	1.000000	0.80357	0.907000	0.53573	0.521000	0.22893	1.246000	0.43901	-0.257000	0.10917	TCC		0.567	HCRTR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043392.1			G	55039411	C	G	55039411	3	3	696	1	0	0	0	0	1	0	0	0	7009	855	30	4	28	4	HCRTR2	6	55039411	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	21755144	55039411	116075656	46	45499										
COL12A1	1303	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	75848659	75848659	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cttcagtaatctttaagtttGttggggctggcacgggtcct	12	8	2	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr6:75848659G>T	ENST00000322507.8	-	28	5285	c.4976C>A	c.(4975-4977)aCa>aAa	p.T1659K	COL12A1_ENST00000345356.6_Missense_Mutation_p.T495K|COL12A1_ENST00000483888.2_Missense_Mutation_p.T1659K|COL12A1_ENST00000416123.2_Missense_Mutation_p.T1659K	NM_004370.5	NP_004361.3	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1	1659	Fibronectin type-III 12. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cell adhesion (GO:0007155)|collagen catabolic process (GO:0030574)|collagen fibril organization (GO:0030199)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|skeletal system development (GO:0001501)	collagen type XII trimer (GO:0005595)|endoplasmic reticulum lumen (GO:0005788)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|vesicle (GO:0031982)	extracellular matrix structural constituent conferring tensile strength (GO:0030020)			breast(7)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(5)|kidney(5)|large_intestine(44)|liver(1)|lung(77)|ovary(7)|prostate(3)|skin(4)|stomach(2)|upper_aerodigestive_tract(4)|urinary_tract(2)	169						CTTTAAGTTTGTTGGGGCTGG	0.403																																																0													102	102	102					6																	75848659		1847	4078	5925	SO:0001583	missense	1303			U73779	CCDS43481.1, CCDS43482.1	6q12-q13	2013-02-11	2003-07-24		ENSG00000111799	ENSG00000111799		"Proteoglycans / Extracellular Matrix : Collagen proteoglycans", "Collagens", "Fibronectin type III domain containing"	2188	protein-coding gene	gene with protein product	"collagen type XII proteoglycan"	120320	"collagen, type XII, alpha 1-like"	COL12A1L		9143499	Standard	XM_006715334		Approved		uc003phs.3	Q99715	OTTHUMG00000015051	ENST00000322507.8:c.4976C>A	6.37:g.75848659G>T	ENSP00000325146:p.Thr1659Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O43853|Q15955|Q5VYK1|Q5VYK2|Q71UR3|Q99716	Missense_Mutation	SNP	ENST00000322507.8	37	CCDS43482.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	0.188|0.188	-1.055736|-1.055736	0.01965|0.01965	.|.	.|.	ENSG00000111799|ENSG00000111799	ENST00000419671|ENST00000322507;ENST00000432784;ENST00000345356;ENST00000416123;ENST00000483888	.|T;T;T;T	.|0.57752	.|0.38;0.38;0.38;0.38	5.95|5.95	4.98|4.98	0.66077|0.66077	.|Fibronectin, type III (4);Immunoglobulin-like fold (1);	.|0.429258	.|0.26428	.|N	.|0.024432	T|T	0.11410|0.11410	0.0278|0.0278	N|N	0.20685|0.20685	0.6|0.6	0.09310|0.09310	N|N	0.999999|0.999999	.|B;B	.|0.06786	.|0.0;0.001	.|B;B	.|0.08055	.|0.002;0.003	T|T	0.34850|0.34850	-0.9812|-0.9812	5|10	.|0.02654	.|T	.|1	.|.	5.5016|5.5016	0.16831|0.16831	0.1314:0.0:0.661:0.2076|0.1314:0.0:0.661:0.2076	.|.	.|495;1659	.|Q99715-2;Q99715	.|.;COCA1_HUMAN	K|K	400|1659;1659;495;1659;1659	.|ENSP00000325146:T1659K;ENSP00000305147:T495K;ENSP00000412864:T1659K;ENSP00000421216:T1659K	.|ENSP00000325146:T1659K	N|T	-|-	3|2	2|0	COL12A1|COL12A1	75905379|75905379	1.000000|1.000000	0.71417|0.71417	0.986000|0.986000	0.45419|0.45419	0.021000|0.021000	0.10359|0.10359	2.434000|2.434000	0.44802|0.44802	2.827000|2.827000	0.97445|0.97445	0.650000|0.650000	0.86243|0.86243	AAC|ACA		0.403	COL12A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041249.3	NM_004370		T	75848659	G	T	75848659	3	4	696	1	0	0	0	0	1	0	0	0	3671	1377	48	4	4371	4	COL12A1	6	75848659	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	20809248	75848659	95266408	47	45500										
RSPH3	83861	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	159398820	159398821	+	Frame_Shift_Del	DEL	TG	TG	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cctcgggttctggagactgaTgtgtgtcttccccatgctca							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr6:159398820_159398821delTG	ENST00000252655.1	-	8	1621_1622	c.1432_1433delCA	c.(1432-1434)catfs	p.H478fs	RSPH3_ENST00000367069.2_Frame_Shift_Del_p.H336fs|RSPH3_ENST00000297262.3_Frame_Shift_Del_p.H382fs|RSPH3_ENST00000607398.1_5'Flank|RSPH3_ENST00000449822.1_Frame_Shift_Del_p.H240fs	NM_031924.4	NP_114130.3	Q86UC2	RSPH3_HUMAN	radial spoke 3 homolog (Chlamydomonas)	478										endometrium(3)|kidney(2)|large_intestine(1)|lung(7)|ovary(2)|skin(1)|stomach(7)	23		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.36e-16)|BRCA - Breast invasive adenocarcinoma(81;5.92e-06)		TGGAGACTGATGTGTGTCTTCC	0.48																																																0																																										SO:0001589	frameshift_variant	83861			AF353618	CCDS5260.1	6q25.3	2014-05-16	2008-07-04	2007-06-26	ENSG00000130363	ENSG00000130363			21054	protein-coding gene	gene with protein product		615876	"radial spokehead-like 2"	RSHL2		12477932	Standard	NM_031924		Approved	dJ111C20.1, RSP3	uc003qrx.3	Q86UC2	OTTHUMG00000015924	ENST00000252655.1:c.1432_1433delCA	6.37:g.159398824_159398825delTG	ENSP00000252655:p.His478fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q96LQ5|Q96LX2|Q9BX75	Frame_Shift_Del	DEL	ENST00000252655.1	37	CCDS5260.1																																																																																				0.48	RSPH3-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_031924		-	159398821	TG	-	159398820	7	5	696	1	0	1	0	1	0	0	0	0	13718	1464	51	0	253	0	RSPH3	6	159398820	Frame_Shift_Del	DEL	TG	TCGA-P4-A5E7-01A-31D-A28G-10	83550161	159398820	11716247	48	45501										
FOXK1	221937	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	4794196	4794196	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tggcagcagagtttgcagcaAaggccgcgtcggagcagcag	16	10	0	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr7:4794196A>C	ENST00000328914.4	+	3	853	c.853A>C	c.(853-855)Aag>Cag	p.K285Q	FOXK1_ENST00000446823.1_Missense_Mutation_p.K122Q	NM_001037165.1	NP_001032242.1			forkhead box K1											breast(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(9)|lung(7)|ovary(1)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	29		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;7.43e-15)		GTTTGCAGCAAAGGCCGCGTC	0.662																																																0													63	51	55					7																	4794196		2203	4300	6503	SO:0001583	missense	221937			BK004104	CCDS34591.1	7p22	2006-12-15			ENSG00000164916	ENSG00000164916		"Forkhead boxes"	23480	protein-coding gene	gene with protein product						15202027	Standard	NM_001037165		Approved	IMAGE:5164497	uc003snc.1	P85037	OTTHUMG00000151739	ENST00000328914.4:c.853A>C	7.37:g.4794196A>C	ENSP00000328720:p.Lys285Gln	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000328914.4	37	CCDS34591.1	.	.	.	.	.	.	.	.	.	.	A	17.23	3.336663	0.60963	.	.	ENSG00000164916	ENST00000446823;ENST00000450194;ENST00000328914;ENST00000545598	D;D	0.95918	-3.51;-3.85	5.23	5.23	0.72850	.	0.049490	0.85682	D	0.000000	D	0.88680	0.6502	L	0.29908	0.895	0.45342	D	0.998338	P;B;B	0.38922	0.651;0.053;0.045	B;B;B	0.30495	0.116;0.053;0.02	D	0.86192	0.1613	10	0.17832	T	0.49	.	8.9324	0.35680	0.9174:0.0:0.0826:0.0	.	285;168;122	P85037;F5H8G8;P85037-2	FOXK1_HUMAN;.;.	Q	122;49;285;168	ENSP00000394442:K122Q;ENSP00000328720:K285Q	ENSP00000328720:K285Q	K	+	1	0	FOXK1	4760722	1.000000	0.71417	0.901000	0.35422	0.980000	0.70556	7.413000	0.80104	1.977000	0.57605	0.528000	0.53228	AAG		0.662	FOXK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323729.2			C	4794196	A	C	4794196	3	2	696	1	0	0	0	0	1	0	0	0	6021	15	1	5	863	5	FOXK1	7	4794196	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10		4794196	154344467	49	45502										
THSD7A	221981	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	11486930	11486931	+	Frame_Shift_Ins	INS	-	-	T													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	aaaacttggaccagctggtcINSaattgacagtcatcctggca							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr7:11486930_11486931insT	ENST00000423059.4	-	12	2977_2978	c.2726_2727insA	c.(2725-2727)ttgfs	p.L909fs	AC004538.3_ENST00000445839.1_RNA	NM_015204.2	NP_056019.1	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	909	TSP type-1 9. {ECO:0000255|PROSITE- ProRule:PRU00210}.				angiogenesis (GO:0001525)|cell differentiation (GO:0030154)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(1)|autonomic_ganglia(1)|breast(5)|cervix(1)|endometrium(8)|kidney(2)|large_intestine(7)|lung(68)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(11)	113				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		ACCAGCTGGTCAATTGACAGTC	0.53										HNSCC(18;0.044)																																						0																																										SO:0001589	frameshift_variant	221981				CCDS47543.1	7p21.3	2006-10-16			ENSG00000005108	ENSG00000005108			22207	protein-coding gene	gene with protein product		612249					Standard	NM_015204		Approved	KIAA0960	uc021zzn.1	Q9UPZ6	OTTHUMG00000152346	ENST00000423059.4:c.2726_2727insA	7.37:g.11486930_11486931insT	ENSP00000406482:p.Leu909fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000423059.4	37	CCDS47543.1																																																																																				0.53	THSD7A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000325944.4	XM_928187.2		T	11486931	-	T	11486930	7	5	696	1	0	1	1	0	0	0	0	0	15891	825	29	0	2310	0	THSD7A	7	11486930	Frame_Shift_Ins	INS	-	TCGA-P4-A5E7-01A-31D-A28G-10	6692734	11486930	147651733	50	45503										
AHR	196	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	17375399	17375399	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gattatatcattgtaactcaGagaccactaacgtaagcaca	6	9	2	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr7:17375399G>C	ENST00000242057.4	+	9	1792	c.1149G>C	c.(1147-1149)caG>caC	p.Q383H	AHR_ENST00000492120.1_3'UTR	NM_001621.4	NP_001612.1	P35869	AHR_HUMAN	aryl hydrocarbon receptor	383	PAC.				apoptotic process (GO:0006915)|blood vessel development (GO:0001568)|cell cycle (GO:0007049)|circadian regulation of gene expression (GO:0032922)|intracellular receptor signaling pathway (GO:0030522)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of RNA polymerase II transcriptional preinitiation complex assembly (GO:0045899)|positive regulation of transcription, DNA-templated (GO:0045893)|prostate gland development (GO:0030850)|regulation of B cell proliferation (GO:0030888)|regulation of gene expression (GO:0010468)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|response to toxic substance (GO:0009636)|response to xenobiotic stimulus (GO:0009410)|transcription from RNA polymerase II promoter (GO:0006366)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|cytosolic aryl hydrocarbon receptor complex (GO:0034752)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	DNA binding (GO:0003677)|E-box binding (GO:0070888)|enhancer binding (GO:0035326)|Hsp90 protein binding (GO:0051879)|ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0004879)|protein dimerization activity (GO:0046983)|protein heterodimerization activity (GO:0046982)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)	p.Q383H(2)		NS(1)|central_nervous_system(1)|endometrium(3)|kidney(4)|large_intestine(8)|lung(11)|ovary(1)|pancreas(1)|urinary_tract(3)	33	Lung NSC(10;0.0392)|all_lung(11;0.0754)				Atorvastatin(DB01076)|Flutamide(DB00499)|Ginseng(DB01404)|Leflunomide(DB01097)|Mexiletine(DB00379)|Nimodipine(DB00393)	TTGTAACTCAGAGACCACTAA	0.348																																																2	Substitution - Missense(2)	lung(2)											71	63	66					7																	17375399		2202	4300	6502	SO:0001583	missense	196			L19872	CCDS5366.1	7p15	2013-05-21			ENSG00000106546	ENSG00000106546		"Basic helix-loop-helix proteins"	348	protein-coding gene	gene with protein product		600253				8125016	Standard	NM_001621		Approved	bHLHe76	uc011jxz.1	P35869	OTTHUMG00000149967	ENST00000242057.4:c.1149G>C	7.37:g.17375399G>C	ENSP00000242057:p.Gln383His	Somatic		WXS	Illumina HiSeq	Phase_I	A4D130|Q13728|Q13803|Q13804	Missense_Mutation	SNP	ENST00000242057.4	37	CCDS5366.1	.	.	.	.	.	.	.	.	.	.	G	15.77	2.930150	0.52759	.	.	ENSG00000106546	ENST00000242057	T	0.05447	3.44	5.98	-1.41	0.08941	.	0.000000	0.85682	D	0.000000	T	0.06917	0.0176	L	0.43152	1.355	0.44798	D	0.997802	B	0.28128	0.201	B	0.31390	0.129	T	0.22277	-1.0221	10	0.62326	D	0.03	.	12.8346	0.57765	0.6126:0.0:0.3874:0.0	.	383	P35869	AHR_HUMAN	H	383	ENSP00000242057:Q383H	ENSP00000242057:Q383H	Q	+	3	2	AHR	17341924	0.995000	0.38212	0.977000	0.42913	0.859000	0.49053	0.361000	0.20267	-0.292000	0.08999	0.591000	0.81541	CAG		0.348	AHR-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000314620.2	NM_001621		C	17375399	G	C	17375399	3	2	696	1	0	0	0	0	1	0	0	0	416	933	33	4	1183	4	AHR	7	17375399	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	5888469	17375399	141763264	51	45504										
AUTS2	26053	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	69364300	69364300	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	agcacttaagcctcaggaacGtgtggagaaacgccagacgc	12	11	1	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr7:69364300G>A	ENST00000342771.4	+	2	659	c.338G>A	c.(337-339)cGt>cAt	p.R113H	AUTS2_ENST00000403018.2_Missense_Mutation_p.R113H|AUTS2_ENST00000406775.2_Missense_Mutation_p.R113H	NM_015570.2	NP_056385.1	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2	113								p.R113L(1)		breast(2)|central_nervous_system(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(14)|ovary(4)|prostate(2)|skin(4)|urinary_tract(1)	50		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)		CCTCAGGAACGTGTGGAGAAA	0.473																																																1	Substitution - Missense(1)	lung(1)											86	79	81					7																	69364300		2203	4300	6503	SO:0001583	missense	26053			AF326917	CCDS5539.1, CCDS47601.1, CCDS47602.1	7q11.22	2014-01-06			ENSG00000158321	ENSG00000158321			14262	protein-coding gene	gene with protein product		607270				12160723	Standard	XM_005250257		Approved	KIAA0442, FBRSL2	uc003tvw.4	Q8WXX7	OTTHUMG00000023865	ENST00000342771.4:c.338G>A	7.37:g.69364300G>A	ENSP00000344087:p.Arg113His	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1Y9|L7QET3|L7QF75|Q5D049|Q6PJU5|Q9Y4F2	Missense_Mutation	SNP	ENST00000342771.4	37	CCDS5539.1	.	.	.	.	.	.	.	.	.	.	G	22.9	4.345953	0.82022	.	.	ENSG00000158321	ENST00000406775;ENST00000342771;ENST00000403018	T;T	0.39787	1.06;1.08	5.65	5.65	0.86999	.	0.000000	0.64402	D	0.000019	T	0.56187	0.1968	L	0.46157	1.445	0.23872	N	0.9966	D;D;D	0.89917	0.997;0.994;1.0	P;P;D	0.69824	0.862;0.754;0.966	T	0.48980	-0.8986	9	.	.	.	-11.4592	14.7871	0.69810	0.0:0.2577:0.7423:0.0	.	113;113;113	Q8WXX7-2;Q8WXX7;Q6PJU5	.;AUTS2_HUMAN;.	H	113	ENSP00000385263:R113H;ENSP00000344087:R113H	.	R	+	2	0	AUTS2	69002236	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	4.796000	0.62496	2.941000	0.99782	0.655000	0.94253	CGT		0.473	AUTS2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251971.2			A	69364300	G	A	69364300	3	1	696	1	0	0	0	0	1	0	0	0	1225	1145	40	1	344	1	AUTS2	7	69364300	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	51988901	69364300	89774363	52	45505										
BAZ1B	9031	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	72873963	72873963	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tcttttgcttgggagccatgAagccttggagaaatttcttt	10	7	2	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr7:72873963A>G	ENST00000339594.4	-	13	3673	c.3335T>C	c.(3334-3336)tTc>tCc	p.F1112S	BAZ1B_ENST00000404251.1_Missense_Mutation_p.F1112S	NM_032408.3	NP_115784.1	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	1112					cellular response to DNA damage stimulus (GO:0006974)|chromatin assembly or disassembly (GO:0006333)|chromatin-mediated maintenance of transcription (GO:0048096)|double-strand break repair (GO:0006302)|heart morphogenesis (GO:0003007)|histone phosphorylation (GO:0016572)|peptidyl-tyrosine phosphorylation (GO:0018108)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	condensed chromosome (GO:0000793)|nucleus (GO:0005634)|pericentric heterochromatin (GO:0005721)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|histone kinase activity (GO:0035173)|lysine-acetylated histone binding (GO:0070577)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)|protein tyrosine kinase activity (GO:0004713)|vitamin D receptor activator activity (GO:0071884)|zinc ion binding (GO:0008270)			NS(1)|breast(5)|cervix(1)|endometrium(5)|kidney(5)|large_intestine(12)|lung(20)|ovary(5)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	61		Lung NSC(55;0.0659)|all_lung(88;0.152)				GGGAGCCATGAAGCCTTGGAG	0.398																																					Esophageal Squamous(112;1167 1561 21085 43672 48228)											0													146	140	142					7																	72873963		2203	4300	6503	SO:0001583	missense	9031			AF084479	CCDS5549.1	7q11.23	2013-01-28			ENSG00000009954	ENSG00000009954		"Zinc fingers, PHD-type"	961	protein-coding gene	gene with protein product	"Williams-Beuren syndrome chromosome region 9", "Williams-Beuren syndrome chromosome region 10", "transcription factor WSTF"	605681		WBSCR9, WBSCR10		9858827, 9828126	Standard	NM_032408		Approved	WSTF	uc003tyc.3	Q9UIG0	OTTHUMG00000023847	ENST00000339594.4:c.3335T>C	7.37:g.72873963A>G	ENSP00000342434:p.Phe1112Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGK3|D3DXE9|O95039|O95247|O95277|Q6P1K4|Q86UJ6	Missense_Mutation	SNP	ENST00000339594.4	37	CCDS5549.1	.	.	.	.	.	.	.	.	.	.	A	28.2	4.902860	0.92035	.	.	ENSG00000009954	ENST00000339594;ENST00000404251	T;T	0.59364	0.27;0.27	5.6	5.6	0.85130	.	0.000000	0.85682	D	0.000000	T	0.64305	0.2586	L	0.32530	0.975	0.58432	D	0.999999	D	0.71674	0.998	D	0.71656	0.974	T	0.59963	-0.7355	10	0.22109	T	0.4	-20.6332	14.9627	0.71169	1.0:0.0:0.0:0.0	.	1112	Q9UIG0	BAZ1B_HUMAN	S	1112	ENSP00000342434:F1112S;ENSP00000385442:F1112S	ENSP00000342434:F1112S	F	-	2	0	BAZ1B	72511899	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.697000	0.91307	2.125000	0.65367	0.533000	0.62120	TTC		0.398	BAZ1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252123.4	NM_032408		G	72873963	A	G	72873963	3	3	696	1	0	0	0	0	1	0	0	0	1330	246	9	3	1144	3	BAZ1B	7	72873963	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	3509663	72873963	86264700	53	45506										
CUX1	1523	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	101882763	101882763	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	aaggaggcgctgaaacgagcGtatcagcaaaagccataccc	11	11	1	1	rs140169027		TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr7:101882763G>A	ENST00000292535.7	+	23	3824	c.3786G>A	c.(3784-3786)gcG>gcA	p.A1262A	CUX1_ENST00000437600.4_Intron|CUX1_ENST00000360264.3_Silent_p.A1273A|CUX1_ENST00000556210.1_Silent_p.A1104A|CUX1_ENST00000549414.2_Silent_p.A1240A|CUX1_ENST00000550008.2_Silent_p.A1206A|CUX1_ENST00000560541.1_Intron|CUX1_ENST00000425244.2_Intron|CUX1_ENST00000393824.3_Intron|CUX1_ENST00000546411.2_Silent_p.A1160A|CUX1_ENST00000292538.4_Intron|CUX1_ENST00000547394.2_Intron|AC005088.1_ENST00000580604.1_RNA	NM_181552.3	NP_853530.2	P39880	CUX1_HUMAN	cut-like homeobox 1	1262					auditory receptor cell differentiation (GO:0042491)|kidney development (GO:0001822)|lung development (GO:0030324)|multicellular organismal development (GO:0007275)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of dendrite morphogenesis (GO:0050775)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|retrograde transport, vesicle recycling within Golgi (GO:0000301)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi membrane (GO:0000139)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001205)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|sequence-specific DNA binding (GO:0043565)			breast(2)|central_nervous_system(1)|cervix(2)|endometrium(6)|kidney(3)|large_intestine(8)|lung(26)|ovary(7)|pancreas(1)|prostate(6)|skin(2)|stomach(1)|urinary_tract(5)	70						TGAAACGAGCGTATCAGCAAA	0.597																																																0								G	,,,,,,	0,4406		0,0,2203	113	109	110		3819,,,,,,3786	-9.8	0	7	dbSNP_134	110	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous,intron,intron,intron,intron,intron,coding-synonymous	CUX1	NM_001202543.1,NM_001202544.1,NM_001202545.1,NM_001202546.1,NM_001913.3,NM_181500.2,NM_181552.3	,,,,,,	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	,,,,,,	1273/1517,,,,,,1262/1506	101882763	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	1523			M74099	CCDS5720.1, CCDS5721.1, CCDS47672.1, CCDS56498.1, CCDS56499.1, CCDS56500.1, CCDS59071.1	7q22.1	2012-10-03	2007-11-07	2007-11-07	ENSG00000257923	ENSG00000257923		"Homeoboxes / CUT class"	2557	protein-coding gene	gene with protein product	"golgi integral membrane protein 6"	116896	"cut (Drosophila)-like 1 (CCAAT displacement protein)", "cut-like 1, CCAAT displacement protein (Drosophila)"	CUTL1		8468066, 9799793, 15004235	Standard	NM_001202543		Approved	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6	uc003uyx.4	P39880	OTTHUMG00000157129	ENST00000292535.7:c.3786G>A	7.37:g.101882763G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KV79|J3KQV9|Q6NYH4|Q75LE5|Q75MT2|Q75MT3|Q86UJ7|Q9UEV5	Silent	SNP	ENST00000292535.7	37	CCDS5721.1																																																																																				0.597	CUX1-004	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000347535.1	NM_001913		A	101882763	G	A	101882763	2	1	696	1	0	0	0	0	0	0	0	1	4066	1132	40	1		1	CUX1	7	101882763	Silent	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	29008800	101882763	57255900	54	45507										
MLL3	58508	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	151845991	151845991	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cggcctgcaatcttcaaaccCaccatggacagctcttagcc	7	16	3	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr7:151845991C>A	ENST00000262189.6	-	52	13239	c.13021G>T	c.(13021-13023)Ggg>Tgg	p.G4341W	KMT2C_ENST00000355193.2_Missense_Mutation_p.G4398W	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	4341					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)										TCTTCAAACCCACCATGGACA	0.493																																																0													63	59	60					7																	151845991		2203	4300	6503	SO:0001583	missense	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.13021G>T	7.37:g.151845991C>A	ENSP00000262189:p.Gly4341Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Missense_Mutation	SNP	ENST00000262189.6	37	CCDS5931.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	13.63|13.63	2.295838|2.295838	0.40594|0.40594	.|.	.|.	ENSG00000055609|ENSG00000055609	ENST00000262189;ENST00000355193;ENST00000424877|ENST00000360104	D;D;D|.	0.88975|.	-1.77;-1.77;-2.45|.	5.4|5.4	4.52|4.52	0.55395|0.55395	.|.	0.152286|.	0.29892|.	U|.	0.010923|.	T|T	0.64670|0.64670	0.2619|0.2619	M|M	0.65498|0.65498	2.005|2.005	0.80722|0.80722	D|D	1|1	D;D;D|.	0.69078|.	0.997;0.997;0.997|.	P;D;D|.	0.68483|.	0.907;0.958;0.958|.	T|T	0.63637|0.63637	-0.6592|-0.6592	10|5	0.49607|.	T|.	0.09|.	.|.	10.7105|10.7105	0.45980|0.45980	0.0:0.8351:0.0:0.1649|0.0:0.8351:0.0:0.1649	.|.	4341;3459;4398|.	Q8NEZ4;Q8NEZ4-2;Q8NEZ4-3|.	MLL3_HUMAN;.;.|.	W|L	4341;4398;958|1901	ENSP00000262189:G4341W;ENSP00000347325:G4398W;ENSP00000410411:G958W|.	ENSP00000262189:G4341W|.	G|W	-|-	1|2	0|0	MLL3|MLL3	151476924|151476924	0.007000|0.007000	0.16637|0.16637	0.015000|0.015000	0.15790|0.15790	0.970000|0.970000	0.65996|0.65996	1.934000|1.934000	0.40163|0.40163	1.273000|1.273000	0.44346|0.44346	0.650000|0.650000	0.86243|0.86243	GGG|TGG		0.493	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			A	151845991	C	A	151845991	3	1	696	1	0	0	0	0	1	0	0	0	9629	594	21	4	1746	4	MLL3	7	151845991	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	49963228	151845991	7292672	55	45508										
MLL3	58508	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	151873882	151873883	+	Frame_Shift_Del	DEL	TT	TT	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	atttgcactggggccagcagTttctcgattggttcttttct							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr7:151873882_151873883delTT	ENST00000262189.6	-	38	8873_8874	c.8655_8656delAA	c.(8653-8658)gaaactfs	p.ET2885fs	KMT2C_ENST00000355193.2_Frame_Shift_Del_p.ET2885fs	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	2885					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)										GGGCCAGCAGTTTCTCGATTGG	0.441																																																0																																										SO:0001589	frameshift_variant	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.8655_8656delAA	7.37:g.151873882_151873883delTT	ENSP00000262189:p.Glu2885fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Frame_Shift_Del	DEL	ENST00000262189.6	37	CCDS5931.1																																																																																				0.441	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			-	151873883	TT	-	151873882	7	5	696	1	0	1	0	1	0	0	0	0	9629	1725	60	0	6167	0	MLL3	7	151873882	Frame_Shift_Del	DEL	TT	TCGA-P4-A5E7-01A-31D-A28G-10	27891	151873882	7264781	56	45509										
VDAC3	7419	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	42259309	42259309	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ttgtttgtttattgcagaaaGaagagtgggaaattgaaggc	13	2	0	4			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr8:42259309G>C	ENST00000022615.4	+	7	395	c.327G>C	c.(325-327)aaG>aaC	p.K109N	VDAC3_ENST00000521158.1_Missense_Mutation_p.K110N|VDAC3_ENST00000522572.1_Missense_Mutation_p.K110N|VDAC3_ENST00000392935.3_Missense_Mutation_p.K110N			Q9Y277	VDAC3_HUMAN	voltage-dependent anion channel 3	109					adenine transport (GO:0015853)	extracellular vesicular exosome (GO:0070062)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|pore complex (GO:0046930)	nucleotide binding (GO:0000166)|porin activity (GO:0015288)|voltage-gated anion channel activity (GO:0008308)			cervix(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(1)|upper_aerodigestive_tract(1)	7	all_cancers(6;3.86e-23)|all_lung(13;6.47e-12)|Lung NSC(13;1.08e-10)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;3.48e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00266)|Lung(22;0.00849)|LUSC - Lung squamous cell carcinoma(45;0.024)		Dihydroxyaluminium(DB01375)	ATTGCAGAAAGAAGAGTGGGA	0.378																																																0													100	100	100					8																	42259309		2203	4300	6503	SO:0001583	missense	7419			AF038962	CCDS6131.1, CCDS47850.1	8p11.21	2011-11-15			ENSG00000078668	ENSG00000078668		"Voltage-dependent anion channels"	12674	protein-coding gene	gene with protein product		610029				9653160, 9781040	Standard	NM_001135694		Approved	HD-VDAC3	uc003xpc.3	Q9Y277	OTTHUMG00000164168	ENST00000022615.4:c.327G>C	8.37:g.42259309G>C	ENSP00000022615:p.Lys109Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UIS0	Missense_Mutation	SNP	ENST00000022615.4	37	CCDS6131.1	.	.	.	.	.	.	.	.	.	.	G	19.10	3.761925	0.69763	.	.	ENSG00000078668	ENST00000518563;ENST00000392935;ENST00000520115;ENST00000522069;ENST00000522572;ENST00000521158;ENST00000022615	T;T;T;T;T;T;T	0.46451	0.87;0.87;0.87;0.87;0.87;0.87;0.87	5.64	5.64	0.86602	.	0.000000	0.85682	D	0.000000	T	0.64713	0.2623	M	0.73962	2.25	0.80722	D	1	D	0.67145	0.996	D	0.70935	0.971	T	0.61936	-0.6960	10	0.40728	T	0.16	-12.3041	17.6115	0.88055	0.0:0.0:1.0:0.0	.	109	Q9Y277	VDAC3_HUMAN	N	77;110;109;109;110;110;109	ENSP00000428977:K77N;ENSP00000442811:K110N;ENSP00000428519:K109N;ENSP00000429006:K109N;ENSP00000428029:K110N;ENSP00000428845:K110N;ENSP00000022615:K109N	ENSP00000022615:K109N	K	+	3	2	VDAC3	42378466	1.000000	0.71417	1.000000	0.80357	0.980000	0.70556	6.582000	0.74049	2.832000	0.97577	0.650000	0.86243	AAG		0.378	VDAC3-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000377574.1			C	42259309	G	C	42259309	3	2	696	1	0	0	0	0	1	0	0	0	17160	933	33	4	348	4	VDAC3	8	42259309	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10		42259309	104104713	57	45510										
SLC7A13	157724	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	87235298	87235298	+	Frame_Shift_Del	DEL	T	T	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ggtaacgcagtaaatatgcaTttgggaattgttgttctggg							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr8:87235298delT	ENST00000297524.3	-	2	823	c.720delA	c.(718-720)aaafs	p.K240fs	SLC7A13_ENST00000520624.1_5'UTR|SLC7A13_ENST00000419776.2_Frame_Shift_Del_p.K231fs	NM_138817.2	NP_620172.2	Q8TCU3	S7A13_HUMAN	solute carrier family 7 (anionic amino acid transporter), member 13	240						integral component of membrane (GO:0016021)	amino acid transmembrane transporter activity (GO:0015171)			breast(3)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(24)|ovary(1)|pancreas(1)|prostate(1)|skin(3)	45						TAAATATGCATTTGGGAATTG	0.363																																																0													147	152	150					8																	87235298		2203	4300	6503	SO:0001589	frameshift_variant	157724			AJ417661	CCDS34917.1	8q21.3	2013-07-15	2011-07-12		ENSG00000164893	ENSG00000164893		"Solute carriers"	23092	protein-coding gene	gene with protein product						11907033, 11943479	Standard	XM_005250804		Approved	AGT-1, XAT2	uc003ydq.1	Q8TCU3	OTTHUMG00000163663	ENST00000297524.3:c.720delA	8.37:g.87235298delT	ENSP00000297524:p.Lys240fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q05C37|Q08AH9|Q96N84	Frame_Shift_Del	DEL	ENST00000297524.3	37	CCDS34917.1																																																																																				0.363	SLC7A13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374704.1	NM_138817		-	87235298	T	-	87235298	7	5	696	1	0	1	0	1	0	0	0	0	14708	1490	52	0	704	0	SLC7A13	8	87235298	Frame_Shift_Del	DEL	T	TCGA-P4-A5E7-01A-31D-A28G-10	44975989	87235298	59128724	58	45511										
KCNS2	3788	bcgsc.ca	37	chr8	99440470	99440470	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gctgcatttctatcacaccgGcaagcttcacgtcatggctg	9	13	4	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr8:99440470G>A	ENST00000287042.4	+	2	613	c.263G>A	c.(262-264)gGc>gAc	p.G88D	KCNS2_ENST00000521839.1_Missense_Mutation_p.G88D	NM_020697.2	NP_065748.1	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel, delayed-rectifier, subfamily S, member 2	88					protein homooligomerization (GO:0051260)|synaptic transmission (GO:0007268)	plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)	p.G88D(1)		autonomic_ganglia(1)|breast(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(6)|lung(11)|ovary(1)|prostate(1)|skin(1)|urinary_tract(2)	31	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			TATCACACCGGCAAGCTTCAC	0.542																																					Pancreas(138;844 2489 9202 24627)											1	Substitution - Missense(1)	lung(1)											135	109	118					8																	99440470		2203	4300	6503	SO:0001583	missense	3788			AB032970	CCDS6279.1	8q22	2011-07-05			ENSG00000156486	ENSG00000156486		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6301	protein-coding gene	gene with protein product		602906				9305895, 16382104	Standard	NM_020697		Approved	Kv9.2	uc003yin.3	Q9ULS6	OTTHUMG00000044337	ENST00000287042.4:c.263G>A	8.37:g.99440470G>A	ENSP00000287042:p.Gly88Asp	Somatic		WXS	Illumina HiSeq	Phase_1	A8KAN1	Missense_Mutation	SNP	ENST00000287042.4	37	CCDS6279.1	.	.	.	.	.	.	.	.	.	.	G	23.1	4.376631	0.82682	.	.	ENSG00000156486	ENST00000287042;ENST00000521839	T;T	0.55930	0.49;0.49	5.41	5.41	0.78517	BTB/POZ-like (1);BTB/POZ fold (2);Potassium channel, voltage dependent, Kv, tetramerisation (1);	0.055844	0.64402	D	0.000001	T	0.80864	0.4705	M	0.93638	3.44	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.85918	0.1444	10	0.87932	D	0	.	19.1973	0.93695	0.0:0.0:1.0:0.0	.	88	Q9ULS6	KCNS2_HUMAN	D	88	ENSP00000287042:G88D;ENSP00000430712:G88D	ENSP00000287042:G88D	G	+	2	0	KCNS2	99509646	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.869000	0.99810	2.527000	0.85204	0.563000	0.77884	GGC		0.542	KCNS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000103134.1	NM_020697		A	99440470	G	A	99440470	3	1	696	1	0	0	0	0	1	0	0	0	8096	1203	42	2	265	2	KCNS2	8	99440470	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	12205172	99440470	46923552	59	45512										
KIFC2	90990	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	145694989	145694989	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gggggcgccatcgtcgattcCgcctagactgggtcttccct	13	14	1	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr8:145694989C>A	ENST00000301332.2	+	12	1716	c.1339C>A	c.(1339-1341)Cgc>Agc	p.R447S	KIFC2_ENST00000301331.5_Missense_Mutation_p.R195S	NM_145754.2	NP_665697.1	Q96AC6	KIFC2_HUMAN	kinesin family member C2	447	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				ATP catabolic process (GO:0006200)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			central_nervous_system(1)|endometrium(1)|kidney(1)|lung(7)|ovary(3)|prostate(3)|skin(2)|urinary_tract(1)	19	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)			TCGTCGATTCCGCCTAGACTG	0.627																																																0													54	52	52					8																	145694989		2203	4300	6503	SO:0001583	missense	90990			AY007121	CCDS6427.1	8q24.3	2007-02-13			ENSG00000167702	ENSG00000167702		"Kinesins"	29530	protein-coding gene	gene with protein product						9115737	Standard	NM_145754		Approved		uc003zcz.3	Q96AC6	OTTHUMG00000165133	ENST00000301332.2:c.1339C>A	8.37:g.145694989C>A	ENSP00000301332:p.Arg447Ser	Somatic		WXS	Illumina HiSeq	Phase_I	E9PHB2|Q96NN6	Missense_Mutation	SNP	ENST00000301332.2	37	CCDS6427.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	15.86|15.86	2.956735|2.956735	0.53293|0.53293	.|.	.|.	ENSG00000167702|ENSG00000167702	ENST00000528415|ENST00000301332;ENST00000301331	.|T;T	.|0.74002	.|-0.8;-0.8	4.89|4.89	2.09|2.09	0.27110|0.27110	.|Kinesin, motor domain (4);	.|0.254051	.|0.20863	.|N	.|0.084308	T|T	0.43964|0.43964	0.1271|0.1271	N|N	0.04090|0.04090	-0.28|-0.28	0.25734|0.25734	N|N	0.985236|0.985236	.|B	.|0.17268	.|0.021	.|B	.|0.18871	.|0.023	T|T	0.22836|0.22836	-1.0205|-1.0205	5|10	.|0.11794	.|T	.|0.64	-4.4523|-4.4523	4.0973|4.0973	0.09996|0.09996	0.0:0.5439:0.1773:0.2788|0.0:0.5439:0.1773:0.2788	.|.	.|447	.|Q96AC6	.|KIFC2_HUMAN	Q|S	267|447;195	.|ENSP00000301332:R447S;ENSP00000301331:R195S	.|ENSP00000301331:R195S	P|R	+|+	2|1	0|0	KIFC2|KIFC2	145665797|145665797	0.995000|0.995000	0.38212|0.38212	0.990000|0.990000	0.47175|0.47175	0.988000|0.988000	0.76386|0.76386	1.369000|1.369000	0.34227|0.34227	0.481000|0.481000	0.27557|0.27557	0.591000|0.591000	0.81541|0.81541	CCG|CGC		0.627	KIFC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382052.2	NM_145754		A	145694989	C	A	145694989	3	1	696	1	0	0	0	0	1	0	0	0	8320	652	23	4	1385	4	KIFC2	8	145694989	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	46254519	145694989	669033	60	45513										
LINGO2	158038	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	27950499	27950499	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	aggtccaagattttggtttcGatgggaatgccctctgggat	13	7	1	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr9:27950499G>A	ENST00000379992.2	-	6	620	c.171C>T	c.(169-171)atC>atT	p.I57I	LINGO2_ENST00000308675.3_Silent_p.I57I	NM_152570.2	NP_689783.1	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	57	LRRNT.					integral component of membrane (GO:0016021)				autonomic_ganglia(1)|breast(2)|central_nervous_system(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|liver(1)|lung(13)|ovary(2)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)	44	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		TTTTGGTTTCGATGGGAATGC	0.488																																																0													171	173	172					9																	27950499		2203	4300	6503	SO:0001819	synonymous_variant	158038			AL353746	CCDS6524.1	9p21.2	2013-01-11	2007-02-01	2007-02-01	ENSG00000174482	ENSG00000174482		"Immunoglobulin superfamily / I-set domain containing"	21207	protein-coding gene	gene with protein product		609793	"leucine rich repeat neuronal 6C"	LRRN6C		14686891	Standard	NM_152570		Approved	LERN3	uc003zqu.2	Q7L985	OTTHUMG00000019721	ENST00000379992.2:c.171C>T	9.37:g.27950499G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K4K7|B2RPM5|Q6ZMD0	Silent	SNP	ENST00000379992.2	37	CCDS6524.1																																																																																				0.488	LINGO2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051978.2	NM_152570		A	27950499	G	A	27950499	2	1	696	1	0	0	0	0	0	0	0	1	8822	1048	37	1		1	LINGO2	9	27950499	Silent	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10		27950499	113262932	61	45514										
CEP78	84131	broad.mit.edu;bcgsc.ca	37	chr9	80856624	80856624	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cattttagttatttgtcaagGtataaagagctctatcactc	6	7	3	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr9:80856624G>T	ENST00000424347.2	+	4	801	c.512G>T	c.(511-513)gGt>gTt	p.G171V	CEP78_ENST00000376597.4_Missense_Mutation_p.G171V|CEP78_ENST00000376598.2_Missense_Mutation_p.G171V|CEP78_ENST00000415759.2_Missense_Mutation_p.G171V|CEP78_ENST00000277082.5_Missense_Mutation_p.G171V			Q5JTW2	CEP78_HUMAN	centrosomal protein 78kDa	171					G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)	centrosome (GO:0005813)|cytosol (GO:0005829)				breast(1)|cervix(1)|endometrium(5)|large_intestine(7)|lung(4)|ovary(1)|stomach(1)|urinary_tract(1)	21						ATTTGTCAAGGTATAAAGAGC	0.343																																																0													107	106	106					9																	80856624		1871	4098	5969	SO:0001583	missense	84131			BC058931	CCDS47984.1, CCDS47985.1	9q21.2	2014-02-20	2005-12-01	2005-12-01	ENSG00000148019	ENSG00000148019			25740	protein-coding gene	gene with protein product			"chromosome 9 open reading frame 81"	C9orf81		14654843	Standard	NM_001098802		Approved	FLJ12643	uc004aky.4	Q5JTW2	OTTHUMG00000020062	ENST00000424347.2:c.512G>T	9.37:g.80856624G>T	ENSP00000411284:p.Gly171Val	Somatic		WXS	Illumina HiSeq	Phase_I	A1A4S8|E9PHX5|Q5BJE3|Q5JTW0|Q5JTW1|Q9H9N3	Missense_Mutation	SNP	ENST00000424347.2	37		.	.	.	.	.	.	.	.	.	.	g	14.78	2.638860	0.47153	.	.	ENSG00000148019	ENST00000424347;ENST00000415085;ENST00000415759;ENST00000376597;ENST00000277082;ENST00000376598	T;T;T;T;T	0.54675	0.56;0.56;0.56;0.56;0.56	5.47	2.5	0.30297	.	0.389211	0.24111	N	0.041443	T	0.38348	0.1037	N	0.14661	0.345	0.51012	D	0.999906	B;P;P;B	0.52316	0.172;0.919;0.952;0.178	B;B;P;B	0.46543	0.05;0.321;0.52;0.035	T	0.26121	-1.0112	10	0.56958	D	0.05	-16.8963	10.0132	0.41999	0.0729:0.256:0.6711:0.0	.	84;171;171;171	B7Z8H9;E9PHX5;Q5JTW2-2;Q5JTW2	.;.;.;CEP78_HUMAN	V	171	ENSP00000411284:G171V;ENSP00000399286:G171V;ENSP00000365782:G171V;ENSP00000277082:G171V;ENSP00000365783:G171V	ENSP00000277082:G171V	G	+	2	0	CEP78	80046444	1.000000	0.71417	0.987000	0.45799	0.969000	0.65631	4.855000	0.62925	0.627000	0.30340	0.645000	0.84053	GGT		0.343	CEP78-001	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000052766.2	XM_095991		T	80856624	G	T	80856624	3	4	696	1	0	0	0	0	1	0	0	0	3264	1261	44	4	526	4	CEP78	9	80856624	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	52906125	80856624	60356807	62	45515										
KIAA0368	23392	broad.mit.edu	37	chr9	114125936	114125936	+	Frame_Shift_Del	DEL	T	T	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tcacagatgagtaggtcttaTtttctaaaaagaaatatcat							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr9:114125936delT	ENST00000338205.5	-	48	5531	c.5312delA	c.(5311-5313)aatfs	p.N1771fs	KIAA0368_ENST00000259335.4_Frame_Shift_Del_p.N1949fs|KIAA0368_ENST00000465499.1_5'Flank|KIAA0368_ENST00000374378.3_Intron			Q5VYK3	ECM29_HUMAN	KIAA0368	1777					ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)	centrosome (GO:0005813)|cytoplasmic membrane-bounded vesicle (GO:0016023)|early endosome (GO:0005769)|endocytic vesicle (GO:0030139)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle (GO:0030134)|late endosome (GO:0005770)|membrane (GO:0016020)|multivesicular body (GO:0005771)|nucleus (GO:0005634)|proteasome complex (GO:0000502)				NS(2)|breast(3)|cervix(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(14)|lung(23)|prostate(3)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	65						GTAGGTCTTATTTTCTAAAAA	0.358																																																0													64	62	63					9																	114125936		1812	4070	5882	SO:0001589	frameshift_variant	23392			AK025689	CCDS48006.1	9q32	2012-11-29	2006-11-23	2006-11-23	ENSG00000136813	ENSG00000136813			29020	protein-coding gene	gene with protein product	"ECM29 homolog (S. cerevisiae)"					9205841, 15496406, 20682791	Standard	NM_001080398		Approved	FLJ22036, ECM29	uc004bfe.1	Q5VYK3	OTTHUMG00000020489	ENST00000338205.5:c.5312delA	9.37:g.114125936delT	ENSP00000339889:p.Asn1771fs	Somatic		WXS	Illumina HiSeq	Phase_I	O15074|Q8WU82	Frame_Shift_Del	DEL	ENST00000338205.5	37																																																																																					0.358	KIAA0368-001	NOVEL	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000053637.2	NM_014686		-	114125936	T	-	114125936	7	5	696	1	0	1	0	1	0	0	0	0	8178	1493	52	0	215	0	KIAA0368	9	114125936	Frame_Shift_Del	DEL	T	TCGA-P4-A5E7-01A-31D-A28G-10	33269312	114125936	27087495	63	45516										
CRB2	286204	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	126125164	126125164	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ggacggtgccttcagagcccCccagtgcctgtgcctcagac	12	16	2	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr9:126125164C>T	ENST00000373631.3	+	2	116	c.115C>T	c.(115-117)Ccc>Tcc	p.P39S	CRB2_ENST00000359999.3_Missense_Mutation_p.P39S	NM_173689.5	NP_775960.4	Q5IJ48	CRUM2_HUMAN	crumbs family member 2	39					cardiovascular system development (GO:0072358)|maintenance of epithelial cell apical/basal polarity (GO:0045199)|mesoderm formation (GO:0001707)|negative regulation of endopeptidase activity (GO:0010951)|notochord formation (GO:0014028)|positive regulation of BMP signaling pathway (GO:0030513)|positive regulation of epithelial to mesenchymal transition (GO:0010718)|somitogenesis (GO:0001756)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)|protein complex (GO:0043234)	calcium ion binding (GO:0005509)|enzyme binding (GO:0019899)			NS(2)|breast(1)|cervix(1)|endometrium(2)|lung(11)|ovary(1)|prostate(2)|skin(3)	23						TTCAGAGCCCCCCAGTGCCTG	0.652																																																0													53	59	57					9																	126125164		2202	4294	6496	SO:0001583	missense	286204			AK095783	CCDS6852.2	9q33.2	2014-02-06	2014-02-06		ENSG00000148204	ENSG00000148204			18688	protein-coding gene	gene with protein product		609720	"crumbs homolog 2 (Drosophila)"			14767562	Standard	XM_005251934		Approved	FLJ38464, FLJ16786	uc004bnx.1	Q5IJ48	OTTHUMG00000020638	ENST00000373631.3:c.115C>T	9.37:g.126125164C>T	ENSP00000362734:p.Pro39Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3N4|Q0QD46|Q5JS41|Q5JS43|Q6ZTA9|Q6ZWI6	Missense_Mutation	SNP	ENST00000373631.3	37	CCDS6852.2	.	.	.	.	.	.	.	.	.	.	C	17.08	3.297123	0.60086	.	.	ENSG00000148204	ENST00000359999;ENST00000373631	D;D	0.85556	-2.0;-1.87	4.7	2.76	0.32466	.	1.331010	0.05353	N	0.532203	T	0.72293	0.3442	N	0.11064	0.09	0.09310	N	1	B;B	0.09022	0.001;0.002	B;B	0.06405	0.001;0.002	T	0.58434	-0.7637	10	0.25106	T	0.35	.	8.3197	0.32121	0.0:0.7535:0.1563:0.0903	.	39;39	Q5IJ48;Q5IJ48-2	CRUM2_HUMAN;.	S	39	ENSP00000353092:P39S;ENSP00000362734:P39S	ENSP00000353092:P39S	P	+	1	0	CRB2	125164985	0.036000	0.19791	0.005000	0.12908	0.812000	0.45895	2.227000	0.42972	1.208000	0.43306	0.448000	0.29417	CCC		0.652	CRB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053990.3	NM_173689		T	126125164	C	T	126125164	3	4	696	1	0	0	0	0	1	0	0	0	3851	623	22	2	121	2	CRB2	9	126125164	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	11999228	126125164	15088267	64	45517										
FIBCD1	84929	hgsc.bcm.edu	37	chr9	133813948	133813948	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gcttgtcgcgcggccggtccTcaagttgggcagcgccgccc	15	16	1	0	rs199804534	byFrequency	TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr9:133813948T>C	ENST00000372338.4	-	1	289	c.47A>G	c.(46-48)gAg>gGg	p.E16G	RP11-83J21.3_ENST00000421067.1_RNA|FIBCD1_ENST00000253018.4_5'UTR|FIBCD1_ENST00000448616.1_Missense_Mutation_p.E16G|FIBCD1_ENST00000486250.1_5'UTR|FIBCD1_ENST00000372337.2_5'Flank	NM_032843.4	NP_116232.3	Q8N539	FBCD1_HUMAN	fibrinogen C domain containing 1	16						integral component of membrane (GO:0016021)|membrane (GO:0016020)	chitin binding (GO:0008061)|metal ion binding (GO:0046872)			kidney(1)|large_intestine(3)|lung(2)|prostate(5)|urinary_tract(1)	12	all_hematologic(7;0.0028)			OV - Ovarian serous cystadenocarcinoma(145;3.52e-05)|Epithelial(140;0.00019)		CGGCCGGTCCTCAAGTTGGGC	0.771													T|||	2	0.000399361	0.0	0.0	5008	,	,		7809	0.0		0.002	False		,,,				2504	0.0															0								T	GLY/GLU,GLY/GLU	0,3824		0,0,1912	5	5	5		47,47	4	1	9		5	11,7363		0,11,3676	yes	missense,missense	FIBCD1	NM_001145106.1,NM_032843.4	98,98	0,11,5588	CC,CT,TT		0.1492,0.0,0.0982	probably-damaging,probably-damaging	16/462,16/462	133813948	11,11187	1912	3687	5599	SO:0001583	missense	84929			AK027716	CCDS6937.1	9q34.2	2013-02-06			ENSG00000130720	ENSG00000130720		"Fibrinogen C domain containing"	25922	protein-coding gene	gene with protein product		613357				12975309	Standard	NM_001145106		Approved	FLJ14810	uc004bzz.3	Q8N539	OTTHUMG00000020814	ENST00000372338.4:c.47A>G	9.37:g.133813948T>C	ENSP00000361413:p.Glu16Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A3KFK0|Q6UXK6|Q96SJ7	Missense_Mutation	SNP	ENST00000372338.4	37	CCDS6937.1	.	.	.	.	.	.	.	.	.	.	T	21.1	4.094138	0.76870	0.0	0.001492	ENSG00000130720	ENST00000448616;ENST00000454493;ENST00000372338;ENST00000451466	T;T;T	0.55413	0.52;0.52;1.07	4.01	4.01	0.46588	.	0.145716	0.45606	D	0.000357	T	0.50188	0.1601	L	0.32530	0.975	0.41099	D	0.985659	D;D	0.61080	0.989;0.989	P;P	0.52031	0.688;0.688	T	0.54655	-0.8261	10	0.72032	D	0.01	.	10.366	0.44024	0.0:0.0:0.0:1.0	.	16;16	A8K8X4;Q8N539	.;FBCD1_HUMAN	G	16	ENSP00000414501:E16G;ENSP00000361413:E16G;ENSP00000393894:E16G	ENSP00000361413:E16G	E	-	2	0	FIBCD1	132803769	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	3.841000	0.55850	1.460000	0.47911	0.358000	0.22013	GAG		0.771	FIBCD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054687.2	NM_032843		C	133813948	T	C	133813948	3	2	696	1	0	0	0	0	1	0	0	0	5891	1551	54	3	1366	3	FIBCD1	9	133813948	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10	7688784	133813948	7399483	65	45518										
SFMBT2	57713	hgsc.bcm.edu	37	chr10	7214001	7214001	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cgcagggtgacggccctccgGggccgggccgagggcacctc	18	16	0	1	rs370293109		TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr10:7214001G>A	ENST00000361972.4	-	19	2361	c.2271C>T	c.(2269-2271)ccC>ccT	p.P757P	SFMBT2_ENST00000397167.1_Silent_p.P757P	NM_001018039.1	NP_001018049.1	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	757					negative regulation of gene expression (GO:0010629)|regulation of transcription, DNA-templated (GO:0006355)	nucleus (GO:0005634)	histone binding (GO:0042393)			NS(2)|breast(3)|central_nervous_system(4)|endometrium(7)|kidney(2)|large_intestine(26)|lung(34)|ovary(5)|pancreas(2)|skin(9)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	99						CGGCCCTCCGGGGCCGGGCCG	0.746																																																0								G	,	0,4346		0,0,2173	12	15	14		2271,2271	0.9	1	10		14	1,8505		0,1,4252	no	coding-synonymous,coding-synonymous	SFMBT2	NM_001018039.1,NM_001029880.2	,	0,1,6425	AA,AG,GG		0.0118,0.0,0.0078	,	757/895,757/895	7214001	1,12851	2173	4253	6426	SO:0001819	synonymous_variant	57713			AB046837	CCDS31138.1	10p15.1	2013-01-10	2003-11-14		ENSG00000198879	ENSG00000198879		"Sterile alpha motif (SAM) domain containing"	20256	protein-coding gene	gene with protein product		615392	"Scm-related gene containing four mbt domains 2"			10997877	Standard	NM_001029880		Approved	KIAA1617	uc009xio.2	Q5VUG0	OTTHUMG00000017630	ENST00000361972.4:c.2271C>T	10.37:g.7214001G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A7MD09|Q9HCF5	Silent	SNP	ENST00000361972.4	37	CCDS31138.1																																																																																				0.746	SFMBT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046673.1	NM_001029880		A	7214001	G	A	7214001	2	1	696	1	0	0	0	0	0	0	0	1	14171	1219	43	2		2	SFMBT2	10	7214001	Silent	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10		7214001	128320746	66	45519										
PLXDC2	84898	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	20335920	20335920	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gtgaagattcatggaatattGtccaatactcatcggcaagc	9	8	2	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr10:20335920G>T	ENST00000377252.4	+	3	1288	c.447G>T	c.(445-447)ttG>ttT	p.L149F	PLXDC2_ENST00000377238.2_3'UTR|PLXDC2_ENST00000377242.3_Intron	NM_001282736.1|NM_032812.7	NP_001269665.1|NP_116201.7	Q6UX71	PXDC2_HUMAN	plexin domain containing 2	149					multicellular organismal development (GO:0007275)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)	receptor activity (GO:0004872)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(9)|liver(1)|lung(9)|ovary(2)|skin(3)|stomach(1)	34						ATGGAATATTGTCCAATACTC	0.373																																																0													95	93	93					10																	20335920		2203	4300	6503	SO:0001583	missense	84898			AF378757	CCDS7132.1, CCDS60497.1	10p12.33	2006-04-12			ENSG00000120594	ENSG00000120594			21013	protein-coding gene	gene with protein product	"tumor endothelial marker 7-related precursor"	606827				11559528	Standard	NM_001282736		Approved	TEM7R, FLJ14623	uc001iqg.1	Q6UX71	OTTHUMG00000017781	ENST00000377252.4:c.447G>T	10.37:g.20335920G>T	ENSP00000366460:p.Leu149Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q96E59|Q96PD9|Q96SU9	Missense_Mutation	SNP	ENST00000377252.4	37	CCDS7132.1	.	.	.	.	.	.	.	.	.	.	G	17.07	3.294191	0.60086	.	.	ENSG00000120594	ENST00000377252;ENST00000377238;ENST00000536022	T	0.78364	-1.17	5.61	0.195	0.15151	.	0.000000	0.85682	D	0.000000	D	0.82499	0.5050	M	0.79343	2.45	0.58432	D	0.999999	D	0.89917	1.0	D	0.71414	0.973	T	0.77335	-0.2626	10	0.87932	D	0	.	2.1328	0.03754	0.1312:0.2504:0.2267:0.3917	.	149	Q6UX71	PXDC2_HUMAN	F	149;12;135	ENSP00000366460:L149F	ENSP00000366446:L12F	L	+	3	2	PLXDC2	20375926	0.996000	0.38824	0.683000	0.30040	0.886000	0.51366	0.297000	0.19101	-0.233000	0.09797	-0.133000	0.14855	TTG		0.373	PLXDC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047101.2	NM_032812		T	20335920	G	T	20335920	3	4	696	1	0	0	0	0	1	0	0	0	12125	1368	48	4	457	4	PLXDC2	10	20335920	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	13121919	20335920	115198827	67	45520										
TET1	80312	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	70332130	70332130	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ccatgcaaggccttccagatTagtcaggaaggaagatgtaa	11	8	1	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr10:70332130T>C	ENST00000373644.4	+	2	244	c.35T>C	c.(34-36)tTa>tCa	p.L12S		NM_030625.2	NP_085128.2	Q8NFU7	TET1_HUMAN	tet methylcytosine dioxygenase 1	12					chromatin modification (GO:0016568)|DNA demethylation (GO:0080111)|inner cell mass cell differentiation (GO:0001826)|negative regulation of methylation-dependent chromatin silencing (GO:0090310)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein O-linked glycosylation (GO:0006493)|regulation of DNA methylation (GO:0044030)|stem cell maintenance (GO:0019827)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	iron ion binding (GO:0005506)|methylcytosine dioxygenase activity (GO:0070579)|structure-specific DNA binding (GO:0043566)|zinc ion binding (GO:0008270)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(9)|lung(2)|ovary(5)|prostate(1)|upper_aerodigestive_tract(2)	21						CCTTCCAGATTAGTCAGGAAG	0.433																																																0													38	38	38					10																	70332130		2199	4299	6498	SO:0001583	missense	80312			AF430147	CCDS7281.1	10q21	2014-02-18	2011-09-30	2008-03-12	ENSG00000138336	ENSG00000138336			29484	protein-coding gene	gene with protein product	"leukemia-associated protein with a CXXC domain", "ten-eleven translocation-1"	607790	"CXXC zinc finger 6", "tet oncogene 1"	CXXC6		12124344, 12646957	Standard	NM_030625		Approved	LCX, KIAA1676, bA119F7.1	uc001jok.4	Q8NFU7	OTTHUMG00000018359	ENST00000373644.4:c.35T>C	10.37:g.70332130T>C	ENSP00000362748:p.Leu12Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUP7|Q7Z6B6|Q8TCR1|Q9C0I7	Missense_Mutation	SNP	ENST00000373644.4	37	CCDS7281.1	.	.	.	.	.	.	.	.	.	.	T	13.35	2.210522	0.39102	.	.	ENSG00000138336	ENST00000373644	T	0.08458	3.09	5.24	0.299	0.15771	.	4.959980	0.00166	N	0.000012	T	0.06735	0.0172	N	0.19112	0.55	0.23501	N	0.997547	B	0.28512	0.214	B	0.21151	0.033	T	0.37502	-0.9703	10	0.28530	T	0.3	.	9.3061	0.37876	0.0:0.403:0.0:0.597	.	12	Q8NFU7	TET1_HUMAN	S	12	ENSP00000362748:L12S	ENSP00000362748:L12S	L	+	2	0	TET1	70002136	0.998000	0.40836	0.679000	0.29978	0.998000	0.95712	0.421000	0.21280	-0.188000	0.10499	0.460000	0.39030	TTA		0.433	TET1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048354.1	NM_030625		C	70332130	T	C	70332130	3	2	696	1	0	0	0	0	1	0	0	0	15781	1764	61	3	37	3	TET1	10	70332130	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10	49996210	70332130	65202617	68	45521										
OIT3	170392	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	74692266	74692266	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	aacaggcggcccgatccgcaTcgactgggaggactagttcg	14	12	0	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr10:74692266T>G	ENST00000334011.5	+	9	1840	c.1622T>G	c.(1621-1623)aTc>aGc	p.I541S		NM_152635.1	NP_689848.1	Q8WWZ8	OIT3_HUMAN	oncoprotein induced transcript 3	541						nucleus (GO:0005634)	calcium ion binding (GO:0005509)			autonomic_ganglia(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(9)|liver(2)|lung(14)|ovary(2)|prostate(1)|skin(2)	35	Prostate(51;0.0198)					CCGATCCGCATCGACTGGGAG	0.637																																					Colon(7;19 345 13446 17537)											0													53	50	51					10																	74692266		2203	4300	6503	SO:0001583	missense	170392				CCDS7318.1	10q22.2-q22.3	2004-04-21			ENSG00000138315	ENSG00000138315			29953	protein-coding gene	gene with protein product		609330				12975309, 12939600	Standard	NM_152635		Approved	LZP, FLJ39116	uc001jte.1	Q8WWZ8	OTTHUMG00000018444	ENST00000334011.5:c.1622T>G	10.37:g.74692266T>G	ENSP00000333900:p.Ile541Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A0AVP3|Q8N1M8	Missense_Mutation	SNP	ENST00000334011.5	37	CCDS7318.1	.	.	.	.	.	.	.	.	.	.	T	18.29	3.591915	0.66219	.	.	ENSG00000138315	ENST00000334011	D	0.84070	-1.8	6.06	6.06	0.98353	.	0.000000	0.56097	D	0.000026	D	0.90566	0.7043	M	0.71581	2.175	0.80722	D	1	D	0.76494	0.999	D	0.78314	0.991	D	0.91387	0.5132	10	0.87932	D	0	-21.1478	16.6093	0.84858	0.0:0.0:0.0:1.0	.	541	Q8WWZ8	OIT3_HUMAN	S	541	ENSP00000333900:I541S	ENSP00000333900:I541S	I	+	2	0	OIT3	74362272	1.000000	0.71417	0.984000	0.44739	0.036000	0.12997	6.791000	0.75120	2.324000	0.78689	0.533000	0.62120	ATC		0.637	OIT3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048596.1	NM_152635		G	74692266	T	G	74692266	3	3	696	1	0	0	0	0	1	0	0	0	10856	1435	50	5	1656	5	OIT3	10	74692266	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10	4360136	74692266	60842481	69	45522										
KCNMA1	3778	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	78651371	78651371	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gtgtctgcggggtgctgtagCcacctctaagggcgttttcc	14	11	2	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr10:78651371C>G	ENST00000286628.8	-	26	3253	c.3254G>C	c.(3253-3255)gGc>gCc	p.G1085A	KCNMA1_ENST00000286627.5_Missense_Mutation_p.G1027A|KCNMA1_ENST00000404857.1_Missense_Mutation_p.G1068A|RP11-443A13.5_ENST00000609102.1_RNA|RP11-443A13.5_ENST00000458661.2_RNA|KCNMA1_ENST00000372443.1_Missense_Mutation_p.G1054A|KCNMA1_ENST00000404771.3_Missense_Mutation_p.G1085A|KCNMA1_ENST00000372440.1_Missense_Mutation_p.G1027A|RP11-443A13.5_ENST00000595702.1_RNA|KCNMA1_ENST00000406533.3_Missense_Mutation_p.G1089A|RP11-443A13.5_ENST00000429850.2_RNA|KCNMA1_ENST00000354353.5_Missense_Mutation_p.G1088A	NM_001161352.1	NP_001154824.1	Q12791	KCMA1_HUMAN	potassium large conductance calcium-activated channel, subfamily M, alpha member 1	1085					blood coagulation (GO:0007596)|cellular potassium ion homeostasis (GO:0030007)|micturition (GO:0060073)|negative regulation of cell volume (GO:0045794)|positive regulation of apoptotic process (GO:0043065)|potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|regulation of membrane potential (GO:0042391)|response to calcium ion (GO:0051592)|response to carbon monoxide (GO:0034465)|response to hypoxia (GO:0001666)|response to osmotic stress (GO:0006970)|smooth muscle contraction involved in micturition (GO:0060083)|synaptic transmission (GO:0007268)	apical plasma membrane (GO:0016324)|caveola (GO:0005901)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	actin binding (GO:0003779)|calcium-activated potassium channel activity (GO:0015269)|large conductance calcium-activated potassium channel activity (GO:0060072)|metal ion binding (GO:0046872)|voltage-gated potassium channel activity (GO:0005249)			breast(1)|cervix(2)|endometrium(6)|kidney(3)|large_intestine(17)|lung(23)|ovary(2)|pancreas(2)|prostate(4)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	68	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Chlorzoxazone(DB00356)|Cromoglicic acid(DB01003)|Diazoxide(DB01119)|Halothane(DB01159)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Miconazole(DB01110)|Procaine(DB00721)	GGTGCTGTAGCCACCTCTAAG	0.602																																																0													53	51	52					10																	78651371		2203	4300	6503	SO:0001583	missense	3778			U11717	CCDS7352.1, CCDS60569.1, CCDS60571.1, CCDS60572.1, CCDS73156.1	10q22	2012-07-05			ENSG00000156113	ENSG00000156113		"Potassium channels", "Voltage-gated ion channels / Potassium channels, calcium-activated"	6284	protein-coding gene	gene with protein product	"BK channel alpha subunit"	600150		SLO		7987297, 16382103	Standard	NM_002247		Approved	KCa1.1, mSLO1	uc001jxn.3	Q12791	OTTHUMG00000018543	ENST00000286628.8:c.3254G>C	10.37:g.78651371C>G	ENSP00000286628:p.Gly1085Ala	Somatic		WXS	Illumina HiSeq	Phase_I	F8WA96|Q12886|Q12917|Q12921|Q12960|Q13150|Q5JQ23|Q5SQR9|Q96LG8|Q9UBB0|Q9UCX0|Q9UQK6	Missense_Mutation	SNP	ENST00000286628.8	37		.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	C|C|C	16.97|16.97|16.97	3.269439|3.269439|3.269439	0.59540|0.59540|0.59540	.|.|.	.|.|.	ENSG00000156113|ENSG00000156113|ENSG00000156113	ENST00000372403|ENST00000372440;ENST00000372408;ENST00000372437;ENST00000457953;ENST00000404771;ENST00000372443;ENST00000286627;ENST00000286628;ENST00000406533;ENST00000354353;ENST00000404857;ENST00000412708|ENST00000372421;ENST00000434208	.|D;D;D;D;D;D;D;D;D|.	.|0.85088|.	.|-1.87;-1.88;-1.9;-1.91;-1.84;-1.87;-1.94;-1.94;-1.88|.	5.52|5.52|5.52	5.52|5.52|5.52	0.82312|0.82312|0.82312	.|.|.	.|0.000000|.	.|0.85682|.	.|D|.	.|0.000000|.	T|T|T	0.69486|0.69486|0.69486	0.3116|0.3116|0.3116	L|L|L	0.46741|0.46741|0.46741	1.465|1.465|1.465	0.80722|0.80722|0.80722	D|D|D	1|1|1	.|P;B;B;P;B;B;B;B|.	.|0.47191|.	.|0.891;0.037;0.125;0.823;0.123;0.004;0.227;0.037|.	.|P;B;B;P;B;B;B;B|.	.|0.46144|.	.|0.453;0.037;0.109;0.505;0.081;0.023;0.168;0.051|.	T|T|T	0.64905|0.64905|0.64905	-0.6297|-0.6297|-0.6297	5|10|5	.|0.49607|.	.|T|.	.|0.09|.	-14.3897|-14.3897|-14.3897	19.4341|19.4341|19.4341	0.94783|0.94783|0.94783	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.|.	.|1056;1057;1068;1085;1027;838;1088;1054|.	.|Q12791-4;B7ZMF5;Q12791-2;Q12791;Q12791-5;C9JFZ9;F8WA96;Q5SVJ7|.	.|.;.;.;KCMA1_HUMAN;.;.;.;.|.	P|A|C	978|1027;964;1020;1059;1022;1054;1027;1059;1089;1088;1068;838|1015;734	.|ENSP00000361517:G1027A;ENSP00000361485:G964A;ENSP00000361514:G1020A;ENSP00000396608:G1059A;ENSP00000361520:G1054A;ENSP00000286627:G1027A;ENSP00000385552:G1089A;ENSP00000346321:G1088A;ENSP00000385806:G1068A|.	.|ENSP00000286627:G1027A|.	A|G|W	-|-|-	1|2|3	0|0|0	KCNMA1|KCNMA1|KCNMA1	78321377|78321377|78321377	1.000000|1.000000|1.000000	0.71417|0.71417|0.71417	1.000000|1.000000|1.000000	0.80357|0.80357|0.80357	0.757000|0.757000|0.757000	0.42996|0.42996|0.42996	7.487000|7.487000|7.487000	0.81328|0.81328|0.81328	2.607000|2.607000|2.607000	0.88179|0.88179|0.88179	0.585000|0.585000|0.585000	0.79938|0.79938|0.79938	GCT|GGC|TGG		0.602	KCNMA1-009	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000048885.3	NM_002247		G	78651371	C	G	78651371	3	3	696	1	0	0	0	0	1	0	0	0	8080	739	26	4	497	4	KCNMA1	10	78651371	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	3959105	78651371	56883376	70	45523										
PTEN	5728	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	89717690	89717690	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cacgacgggaagacaagttcAtgtactttgagttccctcag	10	10	2	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr10:89717690A>G	ENST00000371953.3	+	7	2072	c.715A>G	c.(715-717)Atg>Gtg	p.M239V	PTEN_ENST00000472832.1_3'UTR	NM_000314.4	NP_000305.3	P60484	PTEN_HUMAN	phosphatase and tensin homolog	239	C2 tensin-type. {ECO:0000255|PROSITE- ProRule:PRU00589}.				activation of mitotic anaphase-promoting complex activity (GO:0007092)|aging (GO:0007568)|angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|brain morphogenesis (GO:0048854)|canonical Wnt signaling pathway (GO:0060070)|cardiac muscle tissue development (GO:0048738)|cell migration (GO:0016477)|cell proliferation (GO:0008283)|central nervous system development (GO:0007417)|central nervous system myelin maintenance (GO:0032286)|central nervous system neuron axonogenesis (GO:0021955)|dendritic spine morphogenesis (GO:0060997)|dentate gyrus development (GO:0021542)|endothelial cell migration (GO:0043542)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|forebrain morphogenesis (GO:0048853)|heart development (GO:0007507)|innate immune response (GO:0045087)|inositol phosphate dephosphorylation (GO:0046855)|inositol phosphate metabolic process (GO:0043647)|learning or memory (GO:0007611)|locomotor rhythm (GO:0045475)|locomotory behavior (GO:0007626)|long term synaptic depression (GO:0060292)|long-term synaptic potentiation (GO:0060291)|male mating behavior (GO:0060179)|maternal behavior (GO:0042711)|memory (GO:0007613)|multicellular organismal response to stress (GO:0033555)|negative regulation of apoptotic process (GO:0043066)|negative regulation of axonogenesis (GO:0050771)|negative regulation of cell aging (GO:0090344)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell size (GO:0045792)|negative regulation of cyclin-dependent protein serine/threonine kinase activity involved in G1/S transition of mitotic cell cycle (GO:0031658)|negative regulation of dendritic spine morphogenesis (GO:0061002)|negative regulation of epithelial cell proliferation (GO:0050680)|negative regulation of excitatory postsynaptic membrane potential (GO:0090394)|negative regulation of focal adhesion assembly (GO:0051895)|negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|negative regulation of myelination (GO:0031642)|negative regulation of organ growth (GO:0046621)|negative regulation of phagocytosis (GO:0050765)|negative regulation of phosphatidylinositol 3-kinase signaling (GO:0014067)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of ribosome biogenesis (GO:0090071)|negative regulation of synaptic vesicle clustering (GO:2000808)|neuron-neuron synaptic transmission (GO:0007270)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphatidylinositol biosynthetic process (GO:0006661)|phosphatidylinositol dephosphorylation (GO:0046856)|phosphatidylinositol-mediated signaling (GO:0048015)|phospholipid metabolic process (GO:0006644)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of cell proliferation (GO:0008284)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000060)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|postsynaptic density assembly (GO:0097107)|prepulse inhibition (GO:0060134)|presynaptic membrane assembly (GO:0097105)|prostate gland growth (GO:0060736)|protein dephosphorylation (GO:0006470)|protein kinase B signaling (GO:0043491)|protein stabilization (GO:0050821)|regulation of B cell apoptotic process (GO:0002902)|regulation of cellular component size (GO:0032535)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of myeloid cell apoptotic process (GO:0033032)|regulation of neuron projection development (GO:0010975)|regulation of protein stability (GO:0031647)|response to arsenic-containing substance (GO:0046685)|response to ATP (GO:0033198)|response to drug (GO:0042493)|response to estradiol (GO:0032355)|response to ethanol (GO:0045471)|response to glucose (GO:0009749)|response to nutrient (GO:0007584)|response to zinc ion (GO:0010043)|rhythmic synaptic transmission (GO:0060024)|small molecule metabolic process (GO:0044281)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synapse maturation (GO:0060074)|T cell receptor signaling pathway (GO:0050852)	cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytosol (GO:0005829)|dendritic spine (GO:0043197)|extracellular region (GO:0005576)|mitochondrion (GO:0005739)|myelin sheath adaxonal region (GO:0035749)|neuron projection (GO:0043005)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|Schmidt-Lanterman incisure (GO:0043220)	anaphase-promoting complex binding (GO:0010997)|enzyme binding (GO:0019899)|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity (GO:0051717)|lipid binding (GO:0008289)|magnesium ion binding (GO:0000287)|PDZ domain binding (GO:0030165)|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity (GO:0016314)|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity (GO:0051800)|phosphatidylinositol-3-phosphatase activity (GO:0004438)|phosphoprotein phosphatase activity (GO:0004721)|protein serine/threonine phosphatase activity (GO:0004722)|protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)	p.0?(37)|p.R55fs*1(5)|p.N212fs*1(2)|p.Y27fs*1(2)|p.G165_*404del(1)|p.?(1)|p.R234fs*9(1)|p.K237_Y240>N(1)		NS(28)|autonomic_ganglia(2)|biliary_tract(6)|bone(5)|breast(92)|central_nervous_system(676)|cervix(26)|endometrium(1068)|eye(8)|haematopoietic_and_lymphoid_tissue(137)|kidney(24)|large_intestine(98)|liver(20)|lung(91)|meninges(2)|oesophagus(2)|ovary(82)|pancreas(6)|prostate(129)|salivary_gland(5)|skin(127)|soft_tissue(19)|stomach(30)|testis(1)|thyroid(29)|upper_aerodigestive_tract(29)|urinary_tract(12)|vulva(17)	2771		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		AGACAAGTTCATGTACTTTGA	0.418		31	"D, Mis, N, F, S"		"glioma,  prostate, endometrial"	"harmartoma, glioma,  prostate, endometrial"			Proteus syndrome;Juvenile Polyposis;Hereditary Mixed Polyposis Syndrome type 1;Cowden syndrome;Bannayan-Riley-Ruvalcaba syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)																												yes	Rec	yes	"Cowden Syndrome, Bannayan-Riley-Ruvalcaba syndrome"	10	10q23.3	5728	phosphatase and tensin homolog gene		"L, E, M, O"	50	Whole gene deletion(37)|Deletion - Frameshift(10)|Complex - deletion inframe(1)|Deletion - In frame(1)|Unknown(1)	prostate(16)|central_nervous_system(10)|skin(6)|haematopoietic_and_lymphoid_tissue(4)|lung(4)|breast(4)|ovary(3)|urinary_tract(2)|soft_tissue(1)											153	130	138					10																	89717690		2203	4300	6503	SO:0001583	missense	5728	Familial Cancer Database	Incl.: Encephalocraniocutaneous Lipomatosis, ECCL, Proteus-like s.;incl.: Juvenile Polyposis of the Stomach;HMPS1, Colorectal Adenoma Carcinoma syndrome, CRAC, CRAC1;CS, Cowden disease, Multiple Hamartoma Syndrome, incl.: Lhermitte-Duclos; part of PTEN hamartoma tumour syndrome (PHTS) / PTEN-MATCHS, Cowden-like syndrome;subset of PTEN-Hamartoma Tumor Syndrome; incl.: Ruvalcaba-Myhre-Smith s.	U92436	CCDS31238.1	10q23	2014-09-17	2008-07-31		ENSG00000171862	ENSG00000171862		"Protein tyrosine phosphatases / Class I Cys-based PTPs : PTENs"	9588	protein-coding gene	gene with protein product	"mutated in multiple advanced cancers 1"	601728		BZS, MHAM		9090379	Standard	NM_000314		Approved	MMAC1, TEP1, PTEN1	uc001kfb.3	P60484	OTTHUMG00000018688	ENST00000371953.3:c.715A>G	10.37:g.89717690A>G	ENSP00000361021:p.Met239Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R904|F2YHV0|O00633|O02679|Q6ICT7	Missense_Mutation	SNP	ENST00000371953.3	37	CCDS31238.1	.	.	.	.	.	.	.	.	.	.	A	12.58	1.980414	0.34942	.	.	ENSG00000171862	ENST00000371953	D	0.84660	-1.88	5.15	5.15	0.70609	Tensin phosphatase, C2 domain (2);C2 calcium/lipid-binding domain, CaLB (1);	0.038168	0.85682	D	0.000000	T	0.73567	0.3603	N	0.13352	0.335	0.80722	D	1	B	0.06786	0.001	B	0.10450	0.005	T	0.67983	-0.5529	9	.	.	.	-3.0578	14.9657	0.71193	1.0:0.0:0.0:0.0	.	239	P60484	PTEN_HUMAN	V	239	ENSP00000361021:M239V	.	M	+	1	0	PTEN	89707670	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	8.918000	0.92759	1.928000	0.55862	0.477000	0.44152	ATG		0.418	PTEN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049241.1	NM_000314		G	89717690	A	G	89717690	3	3	696	1	0	0	0	0	1	0	0	0	12748	217	8	3	741	3	PTEN	10	89717690	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	11066319	89717690	45817057	71	45524										
C10orf79	80217	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	105928500	105928500	+	Splice_Site	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tacctagggttctatctgttAccttaagagctcgacctttc	7	11	2	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr10:105928500A>T	ENST00000278064.2	-	21	2810		c.e21+1		WDR96_ENST00000357060.3_Splice_Site|WDR96_ENST00000428666.1_Splice_Site																NS(1)|breast(3)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|kidney(7)|large_intestine(14)|lung(21)|ovary(4)|prostate(2)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(3)	72						TCTATCTGTTACCTTAAGAGC	0.363																																																0													140	130	134					10																	105928500		2203	4300	6503	SO:0001630	splice_region_variant	80217																														ENST00000278064.2:c.2484+1T>A	10.37:g.105928500A>T		Somatic		WXS	Illumina HiSeq	Phase_I		Splice_Site	SNP	ENST00000278064.2	37		.	.	.	.	.	.	.	.	.	.	A	19.19	3.779896	0.70222	.	.	ENSG00000197748	ENST00000357060;ENST00000428666;ENST00000434629;ENST00000278064	.	.	.	5.43	5.43	0.79202	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.4421	0.75190	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	WDR96	105918490	1.000000	0.71417	0.998000	0.56505	0.747000	0.42532	6.878000	0.75567	2.170000	0.68504	0.533000	0.62120	.		0.363	WDR96-003	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000050200.1		Intron	T	105928500	A	T	105928500	5	4	696	1	0	0	0	0	0	0	1	0	1620	405	14	5	2376	5	C10orf79	10	105928500	Splice_Site	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	16210810	105928500	29606247	72	45525										
PDZD8	118987	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	119043959	119043959	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ttctagtgactatagccttaGgtgagggggcttccagtctc	12	9	2	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr10:119043959G>T	ENST00000334464.5	-	5	2524	c.2285C>A	c.(2284-2286)cCt>cAt	p.P762H	PDZD8_ENST00000482496.1_5'UTR	NM_173791.3	NP_776152.1	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	762					cytoskeleton organization (GO:0007010)|intracellular signal transduction (GO:0035556)|regulation of cell morphogenesis (GO:0022604)|viral process (GO:0016032)	membrane (GO:0016020)	metal ion binding (GO:0046872)			kidney(3)|large_intestine(8)|lung(24)|upper_aerodigestive_tract(3)	38		Colorectal(252;0.19)		all cancers(201;0.0121)		TATAGCCTTAGGTGAGGGGGC	0.403																																																0													125	111	116					10																	119043959		2203	4300	6503	SO:0001583	missense	118987			AL122051	CCDS7600.1	10q26.12	2006-01-24		2006-01-24	ENSG00000165650	ENSG00000165650			26974	protein-coding gene	gene with protein product		614235		PDZK8		12477932	Standard	NM_173791		Approved	bA129M16.2, FLJ34427	uc001lde.1	Q8NEN9	OTTHUMG00000019122	ENST00000334464.5:c.2285C>A	10.37:g.119043959G>T	ENSP00000334642:p.Pro762His	Somatic		WXS	Illumina HiSeq	Phase_I	Q86WE0|Q86WE5|Q9UFF1	Missense_Mutation	SNP	ENST00000334464.5	37	CCDS7600.1	.	.	.	.	.	.	.	.	.	.	G	21.0	4.075899	0.76415	.	.	ENSG00000165650	ENST00000334464	D	0.87256	-2.23	5.96	5.96	0.96718	.	0.000000	0.85682	D	0.000000	D	0.90889	0.7137	L	0.34521	1.04	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.90836	0.4720	10	0.59425	D	0.04	-12.5235	20.4116	0.99017	0.0:0.0:1.0:0.0	.	762	Q8NEN9	PDZD8_HUMAN	H	762	ENSP00000334642:P762H	ENSP00000334642:P762H	P	-	2	0	PDZD8	119033949	1.000000	0.71417	0.991000	0.47740	0.986000	0.74619	9.869000	0.99810	2.827000	0.97445	0.655000	0.94253	CCT		0.403	PDZD8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050565.1	NM_173791		T	119043959	G	T	119043959	3	4	696	1	0	0	0	0	1	0	0	0	11712	1000	35	4	1183	4	PDZD8	10	119043959	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	13115459	119043959	16490788	73	45526										
PWWP2B	170394	hgsc.bcm.edu	37	chr10	134218416	134218416	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ggctccgggacacgtacaagCtgtgggtgccccagccgccg	15	15	0	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr10:134218416C>T	ENST00000305233.5	+	2	471	c.412C>T	c.(412-414)Ctg>Ttg	p.L138L	PWWP2B_ENST00000368609.4_Silent_p.L138L	NM_138499.3	NP_612508.3	Q6NUJ5	PWP2B_HUMAN	PWWP domain containing 2B	138	Pro-rich.									central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(5)|urinary_tract(1)	9		all_cancers(35;6.69e-12)|all_epithelial(44;1.55e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)|all_hematologic(284;0.224)		OV - Ovarian serous cystadenocarcinoma(35;7.49e-05)|Epithelial(32;0.00016)|all cancers(32;0.000186)		CACGTACAAGCTGTGGGTGCC	0.731																																																0													11	10	10					10																	134218416		1839	3661	5500	SO:0001819	synonymous_variant	170394			AK128663	CCDS7667.2	10q26.3	2009-06-03	2007-10-22	2007-10-22	ENSG00000171813	ENSG00000171813			25150	protein-coding gene	gene with protein product			"PWWP domain containing 2"	PWWP2			Standard	NM_001098637		Approved	bA432J24.1, FLJ46823	uc001lll.4	Q6NUJ5	OTTHUMG00000019286	ENST00000305233.5:c.412C>T	10.37:g.134218416C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NM90|B5MDQ1|H9KV61|Q5SZI0|Q6ZQX5|Q96F43	Silent	SNP	ENST00000305233.5	37	CCDS7667.2																																																																																				0.731	PWWP2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051075.3	NM_138499		T	134218416	C	T	134218416	2	4	696	1	0	0	0	0	0	0	0	1	12859	796	28	2		2	PWWP2B	10	134218416	Silent	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	15174457	134218416	1316331	74	45527										
MUC6	4588	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	1018068	1018068	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	agggactgctccctgtaggtGgggagtgtgtggtgaagggt	20	5	0	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr11:1018068G>A	ENST00000421673.2	-	31	4783	c.4733C>T	c.(4732-4734)cCa>cTa	p.P1578L		NM_005961.2	NP_005952.2	Q6W4X9	MUC6_HUMAN	mucin 6, oligomeric mucus/gel-forming	1578	Pro-rich.|Thr-rich.		P -> S (in dbSNP:rs10736904).		cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)	extracellular matrix structural constituent (GO:0005201)			breast(1)|central_nervous_system(1)|cervix(2)|endometrium(8)|kidney(10)|large_intestine(6)|lung(43)|ovary(4)|prostate(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	80		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)		CCCTGTAGGTGGGGAGTGTGT	0.582																																																0													259	265	263					11																	1018068		2174	4263	6437	SO:0001583	missense	4588			U97698, AY312160	CCDS44513.1	11p15.5	2008-02-05	2006-03-14		ENSG00000184956	ENSG00000184956		"Mucins"	7517	protein-coding gene	gene with protein product		158374	"mucin 6, gastric"			7680650	Standard	NM_005961		Approved		uc001lsw.2	Q6W4X9	OTTHUMG00000165140	ENST00000421673.2:c.4733C>T	11.37:g.1018068G>A	ENSP00000406861:p.Pro1578Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O15329|Q14394|Q2TUQ5|Q4L207|Q8N8I1|Q8NAK1	Missense_Mutation	SNP	ENST00000421673.2	37	CCDS44513.1	.	.	.	.	.	.	.	.	.	.	G	9.977	1.227087	0.22542	.	.	ENSG00000184956	ENST00000421673	T	0.15603	2.41	2.31	1.29	0.21616	.	.	.	.	.	T	0.12689	0.0308	L	0.46157	1.445	0.09310	N	1	B	0.24963	0.115	B	0.19946	0.027	T	0.38520	-0.9657	9	0.10902	T	0.67	.	8.0503	0.30575	0.0:0.0:0.7368:0.2632	.	1578	Q6W4X9	MUC6_HUMAN	L	1578	ENSP00000406861:P1578L	ENSP00000406861:P1578L	P	-	2	0	MUC6	1008068	0.000000	0.05858	0.001000	0.08648	0.150000	0.21749	-0.194000	0.09559	0.226000	0.20979	0.297000	0.19635	CCA		0.582	MUC6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382120.2	XM_290540		A	1018068	G	A	1018068	3	1	696	1	0	0	0	0	1	0	0	0	9987	1348	47	2	2598	2	MUC6	11	1018068	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10		1018068	133988448	75	45528										
MUC5B	727897	hgsc.bcm.edu	37	chr11	1253980	1253980	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	caagggcgtacagctcagcgActggagggacggcgtctgca	16	11	2	0	rs202127660		TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr11:1253980A>G	ENST00000529681.1	+	17	2103	c.2045A>G	c.(2044-2046)gAc>gGc	p.D682G	MUC5B_ENST00000447027.1_Missense_Mutation_p.D685G	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	682					cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		CAGCTCAGCGACTGGAGGGAC	0.682																																																0													21	24	23					11																	1253980		2116	4228	6344	SO:0001583	missense	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.2045A>G	11.37:g.1253980A>G	ENSP00000436812:p.Asp682Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Missense_Mutation	SNP	ENST00000529681.1	37	CCDS44515.2	.	.	.	.	.	.	.	.	.	.	A	7.541	0.660740	0.14645	.	.	ENSG00000117983	ENST00000529681;ENST00000447027;ENST00000349637;ENST00000406844	T;T	0.76060	-0.99;-0.99	4.6	2.72	0.32119	Uncharacterised domain, cysteine-rich (2);	.	.	.	.	T	0.50103	0.1596	N	0.02960	-0.455	0.24874	N	0.992269	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.01281	0.0;0.0;0.0	T	0.45920	-0.9228	9	0.87932	D	0	.	8.6635	0.34108	0.2416:0.0:0.7584:0.0	.	682;1341;685	Q9HC84;A7Y9J9;E9PBJ0	MUC5B_HUMAN;.;.	G	682;685;683;718	ENSP00000436812:D682G;ENSP00000415793:D685G	ENSP00000343037:D683G	D	+	2	0	MUC5B	1210556	0.999000	0.42202	0.632000	0.29296	0.070000	0.16714	2.607000	0.46300	0.373000	0.24621	-1.983000	0.00453	GAC		0.682	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		G	1253980	A	G	1253980	3	3	696	1	0	0	0	0	1	0	0	0	9986	275	10	3	2120	3	MUC5B	11	1253980	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	235912	1253980	133752536	76	45529										
MUC5B	727897	bcgsc.ca	37	chr11	1267042	1267042	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gccccagcaccccggccaccAgctctacggccacgccctcc	8	24	1	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr11:1267042A>G	ENST00000529681.1	+	31	8990	c.8932A>G	c.(8932-8934)Agc>Ggc	p.S2978G	MUC5B_ENST00000447027.1_Missense_Mutation_p.S2981G|RP11-532E4.2_ENST00000532061.2_RNA	NM_002458.2	NP_002449.2	Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	2978	17 X approximate tandem repeats, Ser/Thr- rich.|7 X Cys-rich subdomain repeats.|Thr-rich.			Missing (in Ref. 6; AAB61398). {ECO:0000305}.	cellular protein metabolic process (GO:0044267)|cellular response to epidermal growth factor stimulus (GO:0071364)|cellular response to glucocorticoid stimulus (GO:0071385)|cellular response to retinoic acid (GO:0071300)|epithelial cell differentiation (GO:0030855)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|response to lipopolysaccharide (GO:0032496)|response to ozone (GO:0010193)|response to sulfur dioxide (GO:0010477)|response to vitamin A (GO:0033189)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi lumen (GO:0005796)				cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		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)		CCCGGCCACCAGCTCTACGGC	0.607																																																0													99	124	115					11																	1267042		2045	4175	6220	SO:0001583	missense	727897			U95031, AF086604	CCDS44515.1, CCDS44515.2	11p15.5	2007-01-19	2006-03-14			ENSG00000117983		"Mucins"	7516	protein-coding gene	gene with protein product		600770	"mucin 5, subtype B, tracheobronchial"	MUC5		9804771	Standard	NM_002458		Approved	MG1	uc001lta.3	Q9HC84		ENST00000529681.1:c.8932A>G	11.37:g.1267042A>G	ENSP00000436812:p.Ser2978Gly	Somatic		WXS	Illumina HiSeq	Phase_1	O00447|O00573|O14985|O15494|O95291|O95451|Q14881|Q7M4S5|Q99552|Q9UE28	Missense_Mutation	SNP	ENST00000529681.1	37	CCDS44515.2	.	.	.	.	.	.	.	.	.	.	-	1.432	-0.569998	0.03910	.	.	ENSG00000117983	ENST00000529681;ENST00000447027;ENST00000349637;ENST00000406844	T;T	0.17370	2.28;2.46	3.57	-7.15	0.01521	.	.	.	.	.	T	0.13114	0.0318	L	0.53249	1.67	0.09310	N	1	B;B	0.12630	0.006;0.006	B;B	0.10450	0.003;0.005	T	0.33420	-0.9869	9	0.87932	D	0	.	4.0918	0.09973	0.1277:0.4665:0.2229:0.1828	.	3561;2981	A7Y9J9;E9PBJ0	.;.	G	2978;2981;2950;2938	ENSP00000436812:S2978G;ENSP00000415793:S2981G	ENSP00000343037:S2950G	S	+	1	0	MUC5B	1223618	0.001000	0.12720	0.000000	0.03702	0.011000	0.07611	1.206000	0.32321	-5.261000	0.00018	-0.449000	0.05564	AGC		0.607	MUC5B-002	NOVEL	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000390041.2	XM_001126093		G	1267042	A	G	1267042	3	3	696	1	0	0	0	0	1	0	0	0	9986	188	7	3	9063	3	MUC5B	11	1267042	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	13062	1267042	133739474	77	45530										
AHNAK	79026	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	62297916	62297916	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	attcaggtccacatcaggcaTggagatcttgggggccttga	13	9	3	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr11:62297916T>C	ENST00000378024.4	-	5	4247	c.3973A>G	c.(3973-3975)Atg>Gtg	p.M1325V	AHNAK_ENST00000257247.7_Intron|AHNAK_ENST00000530124.1_Intron	NM_001620.1	NP_001611.1	Q09666	AHNK_HUMAN	AHNAK nucleoprotein	1325					protein oligomerization (GO:0051259)|regulation of RNA splicing (GO:0043484)|regulation of voltage-gated calcium channel activity (GO:1901385)	actin cytoskeleton (GO:0015629)|cell-cell contact zone (GO:0044291)|costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|vesicle (GO:0031982)	poly(A) RNA binding (GO:0044822)|S100 protein binding (GO:0044548)|structural molecule activity conferring elasticity (GO:0097493)			NS(3)|autonomic_ganglia(1)|breast(10)|central_nervous_system(5)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(33)|large_intestine(40)|liver(1)|lung(108)|ovary(13)|pancreas(4)|prostate(5)|skin(16)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(6)	268		Melanoma(852;0.155)				ACATCAGGCATGGAGATCTTG	0.507																																																0													178	183	181					11																	62297916		2202	4299	6501	SO:0001583	missense	79026			M80899	CCDS31584.1, CCDS44625.1	11q12-q13	2008-02-05	2007-03-30		ENSG00000124942	ENSG00000124942			347	protein-coding gene	gene with protein product	"desmoyokin"	103390	"AHNAK nucleoprotein (desmoyokin)"			7987395, 12153988	Standard	NM_024060		Approved	MGC5395	uc001ntl.3	Q09666	OTTHUMG00000167558	ENST00000378024.4:c.3973A>G	11.37:g.62297916T>C	ENSP00000367263:p.Met1325Val	Somatic		WXS	Illumina HiSeq	Phase_I	A1A586	Missense_Mutation	SNP	ENST00000378024.4	37	CCDS31584.1	.	.	.	.	.	.	.	.	.	.	t	12.65	2.001709	0.35320	.	.	ENSG00000124942	ENST00000378024	T	0.01745	4.66	4.63	3.5	0.40072	.	0.000000	0.38111	U	0.001806	T	0.03695	0.0105	M	0.81497	2.545	0.29409	N	0.861345	B	0.24675	0.109	B	0.33042	0.157	T	0.19224	-1.0312	10	0.12766	T	0.61	.	9.8561	0.41086	0.0:0.0827:0.0:0.9173	.	1325	Q09666	AHNK_HUMAN	V	1325	ENSP00000367263:M1325V	ENSP00000367263:M1325V	M	-	1	0	AHNAK	62054492	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	1.831000	0.39141	0.753000	0.32945	0.515000	0.50301	ATG		0.507	AHNAK-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395572.1	NM_024060		C	62297916	T	C	62297916	3	2	696	1	0	0	0	0	1	0	0	0	414	1464	51	3	13819	3	AHNAK	11	62297916	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10	61030874	62297916	72708600	78	45531										
EEF1G	1937	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	62334912	62334912	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cacacagtttcacttcgcccAagacagcccggaactggggc	10	15	1	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr11:62334912A>C	ENST00000329251.4	-	6	741	c.611T>G	c.(610-612)tTg>tGg	p.L204W	EEF1G_ENST00000378019.3_Missense_Mutation_p.L254W|MIR3654_ENST00000496634.2_3'UTR	NM_001404.4	NP_001395.1	P26641	EF1G_HUMAN	eukaryotic translation elongation factor 1 gamma	204	GST C-terminal.				cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|response to virus (GO:0009615)|translation (GO:0006412)|translational elongation (GO:0006414)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	translation elongation factor activity (GO:0003746)			breast(2)|endometrium(4)|kidney(1)|large_intestine(1)|lung(4)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	16						CACTTCGCCCAAGACAGCCCG	0.552																																																0													44	41	42					11																	62334912		1926	4135	6061	SO:0001583	missense	1937			X63526	CCDS44626.1	11q12.3	2008-02-05			ENSG00000254772	ENSG00000254772			3213	protein-coding gene	gene with protein product		130593				1598220, 1461723	Standard	NM_001404		Approved	EF1G	uc001ntm.1	P26641	OTTHUMG00000167567	ENST00000329251.4:c.611T>G	11.37:g.62334912A>C	ENSP00000331901:p.Leu204Trp	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTG2|Q6PJ62|Q6PK31|Q96CU2|Q9P196	Missense_Mutation	SNP	ENST00000329251.4	37	CCDS44626.1	.	.	.	.	.	.	.	.	.	.	A	25.7	4.662133	0.88251	.	.	ENSG00000254772	ENST00000329251;ENST00000378019	T;T	0.21932	1.98;1.98	4.8	4.8	0.61643	Glutathione S-transferase, C-terminal-like (2);Glutathione S-transferase/chloride channel, C-terminal (1);	0.000000	0.64402	D	0.000002	T	0.54159	0.1841	M	0.92459	3.31	0.53005	D	0.999968	D;P	0.89917	1.0;0.905	D;P	0.80764	0.994;0.703	T	0.65487	-0.6156	10	0.72032	D	0.01	.	12.5918	0.56447	1.0:0.0:0.0:0.0	.	254;204	B4DTG2;P26641	.;EF1G_HUMAN	W	204;254	ENSP00000331901:L204W;ENSP00000367258:L254W	ENSP00000331901:L204W	L	-	2	0	EEF1G	62091488	1.000000	0.71417	1.000000	0.80357	0.969000	0.65631	8.903000	0.92573	1.928000	0.55862	0.459000	0.35465	TTG		0.552	EEF1G-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395047.1	NM_001404		C	62334912	A	C	62334912	3	2	696	1	0	0	0	0	1	0	0	0	4930	131	5	5	722	5	EEF1G	11	62334912	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	36996	62334912	72671604	79	45532										
DGAT2	84649	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	75509414	75509414	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	catgcatcttccatggtcgaGgcctcttctcctccgacacc	7	17	3	0	rs145750206		TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr11:75509414G>C	ENST00000228027.7	+	7	1212	c.952G>C	c.(952-954)Ggc>Cgc	p.G318R	RP11-535A19.1_ENST00000534354.1_RNA|DGAT2_ENST00000376262.3_Missense_Mutation_p.G275R	NM_032564.4	NP_115953.2	Q96PD7	DGAT2_HUMAN	diacylglycerol O-acyltransferase 2	318					acylglycerol acyl-chain remodeling (GO:0036155)|cellular lipid metabolic process (GO:0044255)|cellular response to oleic acid (GO:0071400)|cellular triglyceride homeostasis (GO:0035356)|cholesterol homeostasis (GO:0042632)|diacylglycerol metabolic process (GO:0046339)|fat pad development (GO:0060613)|fatty acid homeostasis (GO:0055089)|glycerol metabolic process (GO:0006071)|glycerophospholipid biosynthetic process (GO:0046474)|lipid storage (GO:0019915)|long-chain fatty-acyl-CoA metabolic process (GO:0035336)|low-density lipoprotein particle clearance (GO:0034383)|phospholipid metabolic process (GO:0006644)|regulation of plasma lipoprotein particle levels (GO:0097006)|small molecule metabolic process (GO:0044281)|triglyceride biosynthetic process (GO:0019432)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of endoplasmic reticulum membrane (GO:0030176)|integral component of membrane (GO:0016021)|lipid particle (GO:0005811)|mitochondrion (GO:0005739)|perinuclear region of cytoplasm (GO:0048471)	2-acylglycerol O-acyltransferase activity (GO:0003846)|diacylglycerol O-acyltransferase activity (GO:0004144)|protein homodimerization activity (GO:0042803)|retinol O-fatty-acyltransferase activity (GO:0050252)			endometrium(3)|large_intestine(5)|lung(5)|prostate(2)|skin(2)	17	Ovarian(111;0.103)					CCATGGTCGAGGCCTCTTCTC	0.582																																					Melanoma(35;811 1096 8354 24009 39363)											0													84	72	76					11																	75509414		2200	4293	6493	SO:0001583	missense	84649				CCDS31642.1, CCDS58162.1	11q13.3	2010-06-24	2010-06-24		ENSG00000062282	ENSG00000062282			16940	protein-coding gene	gene with protein product		606983	"diacylglycerol O-acyltransferase homolog 2 (mouse)"			11481335, 14970677	Standard	NM_032564		Approved		uc001oxa.3	Q96PD7	OTTHUMG00000165338	ENST00000228027.7:c.952G>C	11.37:g.75509414G>C	ENSP00000228027:p.Gly318Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6ND76|Q5U810|Q68CL3|Q68DJ0|Q8NDB7|Q96BS0|Q9BYE5	Missense_Mutation	SNP	ENST00000228027.7	37	CCDS31642.1	.	.	.	.	.	.	.	.	.	.	G	22.1	4.248066	0.80024	.	.	ENSG00000062282	ENST00000228027;ENST00000376262;ENST00000525612	T;T	0.18960	2.18;2.18	5.59	4.68	0.58851	.	0.090338	0.85682	D	0.000000	T	0.44498	0.1296	M	0.78456	2.415	0.80722	D	1	D;D	0.89917	1.0;0.993	D;D	0.74674	0.984;0.955	T	0.44862	-0.9300	10	0.87932	D	0	-19.5496	9.867	0.41150	0.1582:0.0:0.8418:0.0	.	275;318	Q96PD7-2;Q96PD7	.;DGAT2_HUMAN	R	318;275;272	ENSP00000228027:G318R;ENSP00000365438:G275R	ENSP00000228027:G318R	G	+	1	0	DGAT2	75187062	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	5.726000	0.68515	1.501000	0.48654	0.655000	0.94253	GGC		0.582	DGAT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383506.1	NM_032564		C	75509414	G	C	75509414	3	2	696	1	0	0	0	0	1	0	0	0	4460	1000	35	4	978	4	DGAT2	11	75509414	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	13174502	75509414	59497102	80	45533										
KLRC3	3823	hgsc.bcm.edu;broad.mit.edu	37	chr12	10573086	10573086	+	Frame_Shift_Del	DEL	T	T	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tttattgcctttaggtttccTttgctgccactttgggtcct							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr12:10573086delT	ENST00000396439.2	-	1	108	c.64delA	c.(64-66)aggfs	p.R22fs	NKG2-E_ENST00000539033.1_Intron|KLRC3_ENST00000381903.2_Frame_Shift_Del_p.R22fs|KLRC3_ENST00000381904.2_Frame_Shift_Del_p.R22fs	NM_002261.2	NP_002252.2	Q07444	NKG2E_HUMAN	killer cell lectin-like receptor subfamily C, member 3	22					cellular defense response (GO:0006968)|signal transduction (GO:0007165)	integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)|transmembrane signaling receptor activity (GO:0004888)			large_intestine(2)|lung(5)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	11						TTAGGTTTCCTTTGCTGCCAC	0.438																																																0													98	96	97					12																	10573086		2203	4297	6500	SO:0001589	frameshift_variant	3823			L14542	CCDS31744.1, CCDS41755.1	12p13	2008-08-05			ENSG00000205810	ENSG00000205810		"Killer cell lectin-like receptors"	6376	protein-coding gene	gene with protein product		602892				9598306	Standard	NM_002261		Approved	NKG2-E	uc001qyi.1	Q07444	OTTHUMG00000167149	ENST00000396439.2:c.64delA	12.37:g.10573086delT	ENSP00000379716:p.Arg22fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WXA4|Q96RL0|Q9UP04	Frame_Shift_Del	DEL	ENST00000396439.2	37	CCDS41755.1																																																																																				0.438	KLRC3-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000393471.1	NM_002261		-	10573086	T	-	10573086	7	5	696	1	0	1	0	1	0	0	0	0	8424	1608	56	0	782	0	KLRC3	12	10573086	Frame_Shift_Del	DEL	T	TCGA-P4-A5E7-01A-31D-A28G-10		10573086	123278809	81	45534										
KLRC2	3823	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	10588522	10588522	+	Frame_Shift_Del	DEL	T	T	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tttattgcctttaggtttccTttgctgccgctttgggtcct							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr12:10588522delT	ENST00000539033.1	-	1	78	c.64delA	c.(64-66)aggfs	p.R22fs	KLRC2_ENST00000536833.2_Intron|KLRC2_ENST00000381902.2_Frame_Shift_Del_p.R22fs|KLRC2_ENST00000381901.1_Frame_Shift_Del_p.R22fs																							TTAGGTTTCCTTTGCTGCCGC	0.438																																																0													250	250	250					12																	10588522		2203	4300	6503	SO:0001589	frameshift_variant	3822																														ENST00000539033.1:c.64delA	12.37:g.10588522delT	ENSP00000437563:p.Arg22fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000539033.1	37																																																																																					0.438	NKG2-E-001	KNOWN	basic|appris_principal|readthrough_transcript	protein_coding	protein_coding	OTTHUMT00000400274.1			-	10588522	T	-	10588522	7	5	696	1	0	1	0	1	0	0	0	0	8423	1608	56	0	655	0	KLRC2	12	10588522	Frame_Shift_Del	DEL	T	TCGA-P4-A5E7-01A-31D-A28G-10	15436	10588522	123263373	82	45535										
DDX11	1663	ucsc.edu	37	chr12	31244689	31244689	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	atcagatgctgctgcatgcgGccactcggcaggccgcgggc	15	14	1	1	rs397842879		TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr12:31244689G>A	ENST00000407793.2	+	10	1377	c.1126G>A	c.(1126-1128)Gcc>Acc	p.A376T	DDX11_ENST00000350437.4_Missense_Mutation_p.A376T|DDX11_ENST00000545668.1_Missense_Mutation_p.A376T|DDX11_ENST00000542838.1_Missense_Mutation_p.A376T|DDX11_ENST00000251758.5_3'UTR|DDX11_ENST00000228264.6_Missense_Mutation_p.A350T	NM_030653.3|NM_152438.1	NP_085911.2|NP_689651.1	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11	376	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|ATP catabolic process (GO:0006200)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|sister chromatid cohesion (GO:0007062)|viral process (GO:0016032)	midbody (GO:0030496)|nuclear chromatin (GO:0000790)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle pole (GO:0000922)	4 iron, 4 sulfur cluster binding (GO:0051539)|ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA-dependent ATPase activity (GO:0008094)|double-stranded DNA binding (GO:0003690)|helicase activity (GO:0004386)|metal ion binding (GO:0046872)|RNA binding (GO:0003723)|single-stranded DNA binding (GO:0003697)			breast(4)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(11)|large_intestine(5)|lung(23)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	57	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					GCTGCATGCGGCCACTCGGCA	0.672										Multiple Myeloma(12;0.14)																																						0													26	25	26					12																	31244689		2194	4289	6483	SO:0001583	missense	1663			U75969	CCDS8721.1, CCDS41767.1, CCDS44856.1, CCDS58224.1	12p11.21	2012-02-23	2012-02-23		ENSG00000013573	ENSG00000013573		"DEAD-boxes"	2736	protein-coding gene	gene with protein product	"CHL1-like helicase homolog (S. cerevisiae)"	601150	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11 (S.cerevisiae CHL1-like helicase)", "DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11"				Standard	NM_030653		Approved	CHLR1, KRG2, CHL1, ChlR1, WABS	uc001rjv.2	Q96FC9	OTTHUMG00000168435	ENST00000407793.2:c.1126G>A	12.37:g.31244689G>A	ENSP00000384703:p.Ala376Thr	Somatic		WXS	Illumina HiSeq		Q13333|Q86VQ4|Q86W62|Q92498|Q92770|Q92998|Q92999	Missense_Mutation	SNP	ENST00000407793.2	37	CCDS44856.1	.	.	.	.	.	.	.	.	.	.	G	7.984	0.751761	0.15778	.	.	ENSG00000013573	ENST00000542838;ENST00000407793;ENST00000404673;ENST00000228264;ENST00000545668;ENST00000350437	T;T;T;T;T	0.71461	-0.57;1.0;-0.57;1.0;1.0	3.05	3.05	0.35203	DEAD2 (1);Helicase-like, DEXD box c2 type (1);Helicase, superfamily 1/2, ATP-binding domain, DinG/Rad3-type (1);	0.324166	0.32703	N	0.005754	T	0.68109	0.2965	L	0.55834	1.745	0.80722	D	1	P;P;D;P;P	0.59767	0.633;0.814;0.986;0.814;0.905	P;B;P;B;B	0.49799	0.507;0.313;0.622;0.294;0.392	T	0.69300	-0.5181	10	0.56958	D	0.05	.	7.318	0.26511	0.0:0.0:0.738:0.262	.	101;350;376;376;376	Q93000;Q96FC9-3;Q96FC9;Q96FC9-4;Q96FC9-2	.;.;DDX11_HUMAN;.;.	T	376;376;101;350;376;376	ENSP00000443426:A376T;ENSP00000384703:A376T;ENSP00000228264:A350T;ENSP00000440402:A376T;ENSP00000309965:A376T	ENSP00000228264:A350T	A	+	1	0	DDX11	31135956	0.935000	0.31712	0.573000	0.28510	0.048000	0.14542	1.665000	0.37449	1.535000	0.49220	0.505000	0.49811	GCC		0.672	DDX11-202	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000399728.1	NM_030653		A	31244689	G	A	31244689	3	1	696	1	0	0	0	0	1	0	0	0	4345	1203	42	2	1160	2	DDX11	12	31244689	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	20656167	31244689	102607206	83	45536										
DENND5B	160518	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	31551284	31551284	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	atgcctttccccagccaccgCccacatgggaatctggtagg	10	15	1	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr12:31551284C>T	ENST00000389082.5	-	17	3345	c.3081G>A	c.(3079-3081)ggG>ggA	p.G1027G	DENND5B_ENST00000306833.6_Silent_p.G1062G|RNU6-618P_ENST00000363518.1_RNA|DENND5B_ENST00000536562.1_Silent_p.G1062G	NM_144973.3	NP_659410.3	Q6ZUT9	DEN5B_HUMAN	DENN/MADD domain containing 5B	1027	PLAT. {ECO:0000255|PROSITE- ProRule:PRU00152}.				positive regulation of Rab GTPase activity (GO:0032851)	integral component of membrane (GO:0016021)|membrane (GO:0016020)	Rab guanyl-nucleotide exchange factor activity (GO:0017112)			NS(2)|central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(8)|lung(17)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	38						CCAGCCACCGCCCACATGGGA	0.453																																																0													45	41	42					12																	31551284		1778	3993	5771	SO:0001819	synonymous_variant	160518			AF086301	CCDS44857.1	12p11.21	2012-10-03			ENSG00000170456	ENSG00000170456		"DENN/MADD domain containing"	28338	protein-coding gene	gene with protein product						12477932	Standard	NM_144973		Approved	MGC24039	uc001rki.1	Q6ZUT9	OTTHUMG00000169034	ENST00000389082.5:c.3081G>A	12.37:g.31551284C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B5ME75|Q59FW8|Q68CZ7|Q6NUJ0|Q7Z3F9|Q8N973|Q8WUC8	Silent	SNP	ENST00000389082.5	37	CCDS44857.1																																																																																				0.453	DENND5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402040.1	NM_144973		T	31551284	C	T	31551284	2	4	696	1	0	0	0	0	0	0	0	1	4439	726	26	2		2	DENND5B	12	31551284	Silent	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	306595	31551284	102300611	84	45537										
PRPH	5630	hgsc.bcm.edu	37	chr12	49689459	49689459	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gcgagagctggagctgttggGccgcgagcgtgaccgggtgc	20	10	0	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr12:49689459G>A	ENST00000257860.4	+	1	1975	c.476G>A	c.(475-477)gGc>gAc	p.G159D	RP11-161H23.9_ENST00000553259.1_RNA	NM_006262.3	NP_006253.2	P23942	PRPH2_HUMAN	peripherin	0					cell adhesion (GO:0007155)|retina development in camera-type eye (GO:0060041)|visual perception (GO:0007601)	integral component of membrane (GO:0016021)				kidney(1)|large_intestine(2)|lung(8)|skin(1)	12						GAGCTGTTGGGCCGCGAGCGT	0.766																																																0													2	3	3					12																	49689459		1611	3196	4807	SO:0001583	missense	5630				CCDS8783.1	12q12-q13	2013-01-16						"Intermediate filaments type III"	9461	protein-coding gene	gene with protein product		170710		NEF4		1378416	Standard	XM_005269025		Approved	PRPH1	uc001rtu.3	P41219		ENST00000257860.4:c.476G>A	12.37:g.49689459G>A	ENSP00000257860:p.Gly159Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TFH5|Q6DK65	Missense_Mutation	SNP	ENST00000257860.4	37	CCDS8783.1	.	.	.	.	.	.	.	.	.	.	G	17.57	3.422107	0.62622	.	.	ENSG00000135406	ENST00000257860;ENST00000451891	D	0.88741	-2.42	4.51	2.61	0.31194	Filament (1);	0.000000	0.40554	N	0.001080	D	0.89022	0.6597	L	0.58669	1.825	0.46096	D	0.998869	P	0.46987	0.888	P	0.52109	0.69	D	0.84585	0.0663	10	0.18710	T	0.47	.	12.3528	0.55157	0.0:0.3262:0.6738:0.0	.	159	P41219	PERI_HUMAN	D	159;46	ENSP00000257860:G159D	ENSP00000257860:G159D	G	+	2	0	PRPH	47975726	0.835000	0.29415	0.999000	0.59377	0.608000	0.37181	1.757000	0.38400	0.501000	0.28013	0.462000	0.41574	GGC		0.766	PRPH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000393381.1	NM_006262		A	49689459	G	A	49689459	3	1	696	1	0	0	0	0	1	0	0	0	12586	1203	42	2	478	2	PRPH	12	49689459	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	18138175	49689459	84162436	85	45538										
KRT2	3849	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	53045499	53045499	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tgccaccagggtatcctccaGgcccaaagccaccaggaccc	9	18	0	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr12:53045499G>C	ENST00000309680.3	-	1	449	c.428C>G	c.(427-429)cCt>cGt	p.P143R		NM_000423.2	NP_000414.2	P35908	K22E_HUMAN	keratin 2	143	Head.				epidermis development (GO:0008544)|keratinization (GO:0031424)|keratinocyte activation (GO:0032980)|keratinocyte migration (GO:0051546)|keratinocyte proliferation (GO:0043616)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|intermediate filament (GO:0005882)|intermediate filament cytoskeleton (GO:0045111)|keratin filament (GO:0045095)|membrane (GO:0016020)|nucleus (GO:0005634)	structural constituent of cytoskeleton (GO:0005200)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|lung(18)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	32				BRCA - Breast invasive adenocarcinoma(357;0.19)		GTATCCTCCAGGCCCAAAGCC	0.597																																																0													82	83	83					12																	53045499		2203	4300	6503	SO:0001583	missense	3849				CCDS8835.1	12q13.13	2013-01-16	2008-08-01	2006-07-17	ENSG00000172867	ENSG00000172867		"-", "Intermediate filaments type II, keratins (basic)"	6439	protein-coding gene	gene with protein product	"epidermal ichthyosis bullosa of Siemens"	600194	"keratin 2A (epidermal ichthyosis bullosa of Siemens)"	KRT2A		7524919, 16831889	Standard	NM_000423		Approved	KRTE	uc001sat.3	P35908	OTTHUMG00000169748	ENST00000309680.3:c.428C>G	12.37:g.53045499G>C	ENSP00000310861:p.Pro143Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VAQ2	Missense_Mutation	SNP	ENST00000309680.3	37	CCDS8835.1	.	.	.	.	.	.	.	.	.	.	G	15.79	2.938619	0.52972	.	.	ENSG00000172867	ENST00000309680	D	0.85556	-2.0	5.54	5.54	0.83059	.	.	.	.	.	D	0.92296	0.7556	M	0.83603	2.65	0.38710	D	0.953191	D	0.76494	0.999	D	0.69307	0.963	D	0.93716	0.7028	9	0.87932	D	0	.	15.3671	0.74531	0.0:0.0:1.0:0.0	.	143	P35908	K22E_HUMAN	R	143	ENSP00000310861:P143R	ENSP00000310861:P143R	P	-	2	0	KRT2	51331766	0.164000	0.22935	0.998000	0.56505	0.983000	0.72400	-0.229000	0.09098	2.791000	0.96007	0.655000	0.94253	CCT		0.597	KRT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405704.1	NM_000423		C	53045499	G	C	53045499	3	2	696	1	0	0	0	0	1	0	0	0	8464	1000	35	4	1527	4	KRT2	12	53045499	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	3356040	53045499	80806396	86	45539										
MDM1	56890	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	68696605	68696605	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ggcagaggatcaactgttttTataccagcagctggagaagt	12	7	1	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr12:68696605T>A	ENST00000303145.7	-	12	1853	c.1767A>T	c.(1765-1767)atA>atT	p.I589I	MDM1_ENST00000540418.1_Silent_p.I309I|MDM1_ENST00000411698.2_Silent_p.I554I	NM_017440.4	NP_059136.2	Q8TC05	MDM1_HUMAN	Mdm1 nuclear protein homolog (mouse)	589					retina development in camera-type eye (GO:0060041)	nucleus (GO:0005634)				breast(1)|endometrium(4)|kidney(1)|large_intestine(4)|lung(10)|ovary(3)|pancreas(1)|prostate(2)|skin(7)	33			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000174)		CAACTGTTTTTATACCAGCAG	0.358																																																0													90	92	91					12																	68696605		2203	4300	6503	SO:0001819	synonymous_variant	56890			AF007130	CCDS8983.1, CCDS44938.1, CCDS55841.1, CCDS55842.1	12q15	2008-04-14	2008-04-14			ENSG00000111554			29917	protein-coding gene	gene with protein product		613813	"Mdm4, transformed 3T3 cell double minute 1, p53 binding protein (mouse)"			8619474, 9110174	Standard	NM_017440		Approved		uc001stz.2	Q8TC05		ENST00000303145.7:c.1767A>T	12.37:g.68696605T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DM65|E7EPQ3|O43406|Q8WTV9|Q9NR04	Silent	SNP	ENST00000303145.7	37	CCDS8983.1																																																																																				0.358	MDM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402402.1	NM_020128		A	68696605	T	A	68696605	2	1	696	1	0	0	0	0	0	0	0	1	9419	1744	61	5		5	MDM1	12	68696605	Silent	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10	15651106	68696605	65155290	87	45540										
BTBD11	121551	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	108035881	108035881	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gttcaggttcaaagcactccTctccagcaagccgacaaatg	8	13	3	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr12:108035881T>G	ENST00000280758.5	+	14	3383	c.2855T>G	c.(2854-2856)cTc>cGc	p.L952R	BTBD11_ENST00000490090.2_Missense_Mutation_p.L952R|BTBD11_ENST00000357167.4_Missense_Mutation_p.L489R|BTBD11_ENST00000420571.2_Missense_Mutation_p.L833R|BTBD11_ENST00000494235.2_Missense_Mutation_p.L31R	NM_001018072.1	NP_001018082.1	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11	952	BTB. {ECO:0000255|PROSITE- ProRule:PRU00037}.					integral component of membrane (GO:0016021)				NS(1)|breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(13)|lung(18)|ovary(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	53						AAAGCACTCCTCTCCAGCAAG	0.458																																																0													149	141	144					12																	108035881		2203	4300	6503	SO:0001583	missense	121551			AK091276	CCDS31893.1, CCDS41827.1	12q24.11	2013-10-02			ENSG00000151136	ENSG00000151136		"BTB/POZ domain containing", "Ankyrin repeat domain containing"	23844	protein-coding gene	gene with protein product							Standard	XM_005268645		Approved	FLJ33957, ABTB2B	uc001tmk.1	A6QL63	OTTHUMG00000150413	ENST00000280758.5:c.2855T>G	12.37:g.108035881T>G	ENSP00000280758:p.Leu952Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A4FU41|B3KXG3|C9J019|C9JK80|E9PHS4|Q3ZTQ4|Q52M89|Q6ZV99|Q8N245	Missense_Mutation	SNP	ENST00000280758.5	37	CCDS31893.1	.	.	.	.	.	.	.	.	.	.	T	20.7	4.034913	0.75617	.	.	ENSG00000151136	ENST00000280758;ENST00000420571;ENST00000490090;ENST00000357167;ENST00000494235	T;T;T;T;T	0.70869	-0.52;-0.52;-0.52;-0.52;-0.52	5.31	5.31	0.75309	BTB/POZ-like (2);BTB/POZ (1);BTB/POZ fold (2);	0.059561	0.64402	D	0.000002	D	0.87931	0.6302	M	0.94021	3.485	0.40862	D	0.983844	D;D;D	0.89917	0.997;1.0;1.0	D;D;D	0.83275	0.996;0.982;0.992	D	0.91528	0.5240	10	0.87932	D	0	.	15.2236	0.73333	0.0:0.0:0.0:1.0	.	489;952;952	E9PHS4;A6QL63;A6QL63-3	.;BTBDB_HUMAN;.	R	952;833;952;489;31	ENSP00000280758:L952R;ENSP00000413889:L833R;ENSP00000447319:L952R;ENSP00000349690:L489R;ENSP00000448322:L31R	ENSP00000280758:L952R	L	+	2	0	BTBD11	106560011	1.000000	0.71417	1.000000	0.80357	0.891000	0.51852	6.855000	0.75445	2.138000	0.66242	0.459000	0.35465	CTC		0.458	BTBD11-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318003.1	NM_152322		G	108035881	T	G	108035881	3	3	696	1	0	0	0	0	1	0	0	0	1541	1551	54	5	3014	5	BTBD11	12	108035881	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10	39339276	108035881	25816014	88	45541										
SRRM4	84530	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	119583229	119583229	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tgacctctttaccaaaacagCcagcccgctcaccacctcgc	5	19	2	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr12:119583229C>A	ENST00000267260.4	+	9	1203	c.815C>A	c.(814-816)gCc>gAc	p.A272D		NM_194286.3	NP_919262.2	A7MD48	SRRM4_HUMAN	serine/arginine repetitive matrix 4	272	Ser-rich.				cell differentiation (GO:0030154)|mRNA processing (GO:0006397)|nervous system development (GO:0007399)|regulation of alternative mRNA splicing, via spliceosome (GO:0000381)|regulation of RNA splicing (GO:0043484)|RNA splicing (GO:0008380)|sensory perception of sound (GO:0007605)	nucleus (GO:0005634)	mRNA binding (GO:0003729)			breast(2)|central_nervous_system(2)|endometrium(5)|kidney(1)|large_intestine(2)|lung(8)|ovary(3)|upper_aerodigestive_tract(1)	24						ACCAAAACAGCCAGCCCGCTC	0.597																																																0													27	29	29					12																	119583229		1987	4156	6143	SO:0001583	missense	84530			AB058756	CCDS44994.1	12q24.23	2009-09-22	2009-09-21	2009-09-21	ENSG00000139767	ENSG00000139767			29389	protein-coding gene	gene with protein product	"neural-specific SR-related protein of 100 kDa"	613103	"KIAA1853"	KIAA1853		19737518	Standard	NM_194286		Approved	nSR100	uc001txa.2	A7MD48	OTTHUMG00000168928	ENST00000267260.4:c.815C>A	12.37:g.119583229C>A	ENSP00000267260:p.Ala272Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5P6|B2RZH7|Q7Z5F0|Q96JH4	Missense_Mutation	SNP	ENST00000267260.4	37	CCDS44994.1	.	.	.	.	.	.	.	.	.	.	C	14.09	2.431158	0.43122	.	.	ENSG00000139767	ENST00000267260	T	0.23147	1.92	5.48	3.26	0.37387	.	0.608931	0.17277	N	0.180174	T	0.16854	0.0405	L	0.40543	1.245	0.33704	D	0.614946	B	0.12013	0.005	B	0.09377	0.004	T	0.13469	-1.0508	9	.	.	.	-16.4361	4.1827	0.10383	0.2661:0.5295:0.1154:0.089	.	272	A7MD48	SRRM4_HUMAN	D	272	ENSP00000267260:A272D	.	A	+	2	0	SRRM4	118067612	0.997000	0.39634	1.000000	0.80357	0.996000	0.88848	1.389000	0.34453	1.274000	0.44362	0.655000	0.94253	GCC		0.597	SRRM4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401640.2	NM_194286		A	119583229	C	A	119583229	3	1	696	1	0	0	0	0	1	0	0	0	15183	739	26	4	849	4	SRRM4	12	119583229	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	11547348	119583229	14268666	89	45542										
ATP12A	479	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	25265339	25265339	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ggactccatcatcttcctcaTtggcatcattgtggccaatg	8	12	4	0	rs372819883		TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr13:25265339T>C	ENST00000381946.3	+	8	1186	c.1019T>C	c.(1018-1020)aTt>aCt	p.I340T	ATP12A_ENST00000218548.6_Missense_Mutation_p.I346T			P54707	AT12A_HUMAN	ATPase, H+/K+ transporting, nongastric, alpha polypeptide	340					ATP biosynthetic process (GO:0006754)|ion transmembrane transport (GO:0034220)|potassium ion homeostasis (GO:0055075)|regulation of pH (GO:0006885)|transmembrane transport (GO:0055085)	basolateral plasma membrane (GO:0016323)|hydrogen:potassium-exchanging ATPase complex (GO:0005889)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|hydrogen:potassium-exchanging ATPase activity (GO:0008900)|metal ion binding (GO:0046872)			breast(6)|central_nervous_system(4)|endometrium(3)|kidney(5)|large_intestine(23)|lung(23)|ovary(2)|pancreas(1)|prostate(2)|skin(5)	74		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)		ATCTTCCTCATTGGCATCATT	0.547																																					Pancreas(156;1582 1935 18898 22665 26498)											0								T	THR/ILE,THR/ILE	1,4405	2.1+/-5.4	0,1,2202	106	79	88		1037,1019	5.2	1	13		88	0,8600		0,0,4300	no	missense,missense	ATP12A	NM_001185085.1,NM_001676.5	89,89	0,1,6502	CC,CT,TT		0.0,0.0227,0.0077	probably-damaging,probably-damaging	346/1046,340/1040	25265339	1,13005	2203	4300	6503	SO:0001583	missense	479			L42558	CCDS31948.1, CCDS53858.1	13q11-q12.1	2010-04-20	2002-02-25		ENSG00000075673	ENSG00000075673	3.6.3.10	"ATPases / P-type"	13816	protein-coding gene	gene with protein product	"ATPase, Na+K+ transporting, alpha-1 polypeptide-like", "potassium-transporting ATPase alpha chain 2", "proton pump", "non-gastric H(+)/K(+) ATPase alpha subunit", "sodium/potassium ATPase, alpha polypeptide-like"	182360	"ATPase, Na+/K+ transporting, alpha polypeptide-like 1"	ATP1AL1		8838794, 2842249	Standard	NM_001676		Approved		uc010aaa.3	P54707	OTTHUMG00000016588	ENST00000381946.3:c.1019T>C	13.37:g.25265339T>C	ENSP00000371372:p.Ile340Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q13816|Q13817|Q16734|Q5W035|Q8N5U2	Missense_Mutation	SNP	ENST00000381946.3	37	CCDS31948.1	.	.	.	.	.	.	.	.	.	.	T	21.1	4.104092	0.76983	2.27E-4	0.0	ENSG00000075673	ENST00000218548;ENST00000381946	D;D	0.92199	-2.99;-2.99	5.16	5.16	0.70880	ATPase, P-type, ATPase-associated domain (1);	0.000000	0.85682	D	0.000000	D	0.96962	0.9008	H	0.94503	3.545	0.80722	D	1	D;D	0.76494	0.994;0.999	D;D	0.91635	0.995;0.999	D	0.97789	1.0237	10	0.87932	D	0	.	12.9956	0.58644	0.0:0.0:0.0:1.0	.	346;340	P54707-2;P54707	.;AT12A_HUMAN	T	346;340	ENSP00000218548:I346T;ENSP00000371372:I340T	ENSP00000218548:I346T	I	+	2	0	ATP12A	24163339	1.000000	0.71417	1.000000	0.80357	0.851000	0.48451	7.649000	0.83500	2.170000	0.68504	0.379000	0.24179	ATT		0.547	ATP12A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044199.1	NM_001676		C	25265339	T	C	25265339	3	2	696	1	0	0	0	0	1	0	0	0	1122	1493	52	3	1067	3	ATP12A	13	25265339	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10		25265339	89904539	90	45543										
RABGGTA	5875	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	24734893	24734893	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	atgcccaccgcttggcacagCgggttaccctgcaggttgag	13	13	0	1	rs369935041		TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr14:24734893C>T	ENST00000399409.3	-	16	2115	c.1632G>A	c.(1630-1632)ccG>ccA	p.P544P	TGM1_ENST00000206765.6_5'Flank|RABGGTA_ENST00000560777.1_Silent_p.P153P|RABGGTA_ENST00000216840.6_Silent_p.P544P|TGM1_ENST00000544573.1_5'Flank	NM_004581.5	NP_004572.3	Q92696	PGTA_HUMAN	Rab geranylgeranyltransferase, alpha subunit	544					cellular protein modification process (GO:0006464)|protein geranylgeranylation (GO:0018344)|visual perception (GO:0007601)	Rab-protein geranylgeranyltransferase complex (GO:0005968)	Rab geranylgeranyltransferase activity (GO:0004663)|Rab GTPase binding (GO:0017137)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(6)	12				GBM - Glioblastoma multiforme(265;0.0184)		CTTGGCACAGCGGGTTACCCT	0.612																																																0								C	,	0,4034		0,0,2017	38	42	41		1632,1632	-4.9	0.9	14		41	1,8365		0,1,4182	no	coding-synonymous,coding-synonymous	RABGGTA	NM_004581.3,NM_182836.1	,	0,1,6199	TT,TC,CC		0.012,0.0,0.0081	,	544/568,544/568	24734893	1,12399	2017	4183	6200	SO:0001819	synonymous_variant	5875				CCDS45088.1	14q11.2	2011-06-27				ENSG00000100949		"Prenyltransferase alpha subunit repeat containing"	9795	protein-coding gene	gene with protein product	"protein prenyltransferase alpha subunit repeat containing 3"	601905				8954794	Standard	NM_182836		Approved	PTAR3	uc001wog.4	Q92696		ENST00000399409.3:c.1632G>A	14.37:g.24734893C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5N2|D3DS69	Silent	SNP	ENST00000399409.3	37	CCDS45088.1																																																																																				0.612	RABGGTA-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000415308.5	NM_182836		T	24734893	C	T	24734893	2	4	696	1	0	0	0	0	0	0	0	1	12980	755	27	1		1	RABGGTA	14	24734893	Silent	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10		24734893	82614647	91	45544										
RALGAPA1	253959	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	36143779	36143779	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	aaaacttgagcatgtatttcAggatccatgattgaatttac	7	6	1	3			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr14:36143779A>C	ENST00000389698.3	-	22	3633	c.3243T>G	c.(3241-3243)ccT>ccG	p.P1081P	RALGAPA1_ENST00000307138.6_Silent_p.P1081P|RALGAPA1_ENST00000382366.3_Silent_p.P1094P|RALGAPA1_ENST00000258840.6_Silent_p.P1128P	NM_014990.1	NP_055805.1	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1 (catalytic)	1081					activation of Ral GTPase activity (GO:0032859)|regulation of transcription, DNA-templated (GO:0006355)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	protein heterodimerization activity (GO:0046982)|Ral GTPase activator activity (GO:0017123)			breast(4)|central_nervous_system(2)|cervix(1)|endometrium(7)|kidney(7)|large_intestine(14)|lung(21)|ovary(3)|prostate(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	67						CATGTATTTCAGGATCCATGA	0.388																																																0													26	27	27					14																	36143779		2201	4288	6489	SO:0001819	synonymous_variant	253959			AK126975	CCDS32064.1, CCDS32065.1, CCDS61439.1	14q13.2	2012-01-26	2009-09-09	2009-09-09	ENSG00000174373	ENSG00000174373			17770	protein-coding gene	gene with protein product	"tuberin-like protein 1", "GAP-related interacting protein to E12"	608884	"GTPase activating RANGAP domain-like 1", "GTPase activating Rap/RanGAP domain-like 1"	GARNL1		19520869	Standard	NM_014990		Approved	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1	uc001wtj.3	Q6GYQ0	OTTHUMG00000170619	ENST00000389698.3:c.3243T>G	14.37:g.36143779A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6NMA4|B9EK38|C5NU19|O94960|Q6GYP9|Q6ZT23|Q86YF3|Q86YF5|Q8ND69	Silent	SNP	ENST00000389698.3	37	CCDS32065.1																																																																																				0.388	RALGAPA1-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000409829.1	XM_210022		C	36143779	A	C	36143779	2	2	696	1	0	0	0	0	0	0	0	1	13026	175	7	5		5	RALGAPA1	14	36143779	Silent	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	11408886	36143779	71205761	92	45545										
TTLL5	23093	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	76243163	76243163	+	Frame_Shift_Del	DEL	A	A	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ggaagatggggtgaatatggAaaactttcaggagttcatca					rs372279209		TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr14:76243163delA	ENST00000298832.9	+	23	2562	c.2357delA	c.(2356-2358)gaafs	p.E786fs	TTLL5_ENST00000555422.1_3'UTR|TTLL5_ENST00000556893.1_Frame_Shift_Del_p.E337fs|TTLL5_ENST00000557636.1_Frame_Shift_Del_p.E800fs|TTLL5_ENST00000554510.1_Frame_Shift_Del_p.E295fs	NM_015072.4	NP_055887.3	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	786					fertilization (GO:0009566)|protein polyglutamylation (GO:0018095)|sperm axoneme assembly (GO:0007288)|sperm motility (GO:0030317)|transcription, DNA-templated (GO:0006351)	centrosome (GO:0005813)|cilium (GO:0005929)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	ligase activity (GO:0016874)			NS(2)|breast(2)|central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(4)|kidney(1)|large_intestine(3)|lung(22)|ovary(2)|pancreas(1)|prostate(2)|skin(2)|urinary_tract(2)	50				BRCA - Breast invasive adenocarcinoma(234;0.029)		GTGAATATGGAAAACTTTCAG	0.403																																																0													130	127	128					14																	76243163		2203	4300	6503	SO:0001589	frameshift_variant	23093			AF107885	CCDS32124.1	14q24.3	2014-09-09	2005-07-29	2005-07-29	ENSG00000119685	ENSG00000119685		"Tubulin tyrosine ligase-like family"	19963	protein-coding gene	gene with protein product		612268	"KIAA0998"	KIAA0998		15890843	Standard	NM_015072		Approved		uc001xrx.3	Q6EMB2	OTTHUMG00000171611	ENST00000298832.9:c.2357delA	14.37:g.76243163delA	ENSP00000298832:p.Glu786fs	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGH8|B9EGH9|Q9BUB0|Q9H0G4|Q9H7W2|Q9P1V5|Q9UPZ4	Frame_Shift_Del	DEL	ENST00000298832.9	37	CCDS32124.1																																																																																				0.403	TTLL5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414453.1	NM_015072		-	76243163	A	-	76243163	7	5	696	1	0	1	0	1	0	0	0	0	16742	246	9	0	2443	0	TTLL5	14	76243163	Frame_Shift_Del	DEL	A	TCGA-P4-A5E7-01A-31D-A28G-10	40099384	76243163	31106377	93	45546										
C15orf2	23742	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	24923342	24923342	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cctcaacccaaatttggggcCcctgatgggccgcagcagaa	11	14	1	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr15:24923342C>T	ENST00000329468.2	+	1	2802	c.2328C>T	c.(2326-2328)gcC>gcT	p.A776A		NM_018958.2	NP_061831.2	Q9NZP6	NPAP1_HUMAN	nuclear pore associated protein 1	776					cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)		p.A776A(1)									AATTTGGGGCCCCTGATGGGC	0.552																																																1	Substitution - coding silent(1)	lung(1)											109	128	121					15																	24923342		2203	4300	6503	SO:0001819	synonymous_variant	23742			AF179681	CCDS10015.1	15q11-q13	2012-07-19	2012-06-14	2012-06-14	ENSG00000185823	ENSG00000185823			1190	protein-coding gene	gene with protein product		610922	"chromosome 15 open reading frame 2"	C15orf2		10783265, 22694955	Standard	NM_018958		Approved		uc001ywo.3	Q9NZP6	OTTHUMG00000129179	ENST00000329468.2:c.2328C>T	15.37:g.24923342C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000329468.2	37	CCDS10015.1																																																																																				0.552	NPAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251253.1	NM_018958		T	24923342	C	T	24923342	2	4	696	1	0	0	0	0	0	0	0	1	1786	610	22	2		2	C15orf2	15	24923342	Silent	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10		24923342	77608050	94	45547										
CILP	8483	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	65495764	65495764	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cagagacacgctctgcccagCtctccgtgcttttgtctcag	9	15	3	1	rs185181701	byFrequency	TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr15:65495764C>G	ENST00000261883.4	-	7	1130	c.964G>C	c.(964-966)Gct>Cct	p.A322P		NM_003613.3	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein, nucleotide pyrophosphohydrolase	322	Ig-like C2-type.				negative regulation of insulin-like growth factor receptor signaling pathway (GO:0043569)	extracellular matrix (GO:0031012)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)				breast(5)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(14)|lung(17)|ovary(4)|pancreas(2)|prostate(4)|skin(2)|urinary_tract(1)	55						CTCTGCCCAGCTCTCCGTGCT	0.498																																																0													115	101	106					15																	65495764		2201	4299	6500	SO:0001583	missense	8483			AY358904	CCDS10203.1	15q22	2013-01-14			ENSG00000138615	ENSG00000138615		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	1980	protein-coding gene	gene with protein product		603489				9722584, 9722583	Standard	NM_003613		Approved	HsT18872	uc002aon.2	O75339	OTTHUMG00000133140	ENST00000261883.4:c.964G>C	15.37:g.65495764C>G	ENSP00000261883:p.Ala322Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8F7|Q6UW99|Q8IYI5	Missense_Mutation	SNP	ENST00000261883.4	37	CCDS10203.1	.	.	.	.	.	.	.	.	.	.	C	24.3	4.511219	0.85389	.	.	ENSG00000138615	ENST00000261883	T	0.14391	2.51	5.24	4.12	0.48240	Immunoglobulin I-set (1);Immunoglobulin subtype 2 (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	0.166542	0.52532	D	0.000066	T	0.20455	0.0492	L	0.42581	1.335	0.39174	D	0.962657	P	0.52316	0.952	P	0.51701	0.677	T	0.01537	-1.1330	10	0.59425	D	0.04	-1.8098	13.8023	0.63208	0.0:0.912:0.0:0.088	.	322	O75339	CILP1_HUMAN	P	322	ENSP00000261883:A322P	ENSP00000261883:A322P	A	-	1	0	CILP	63282817	0.977000	0.34250	1.000000	0.80357	0.978000	0.69477	4.030000	0.57260	2.446000	0.82766	0.561000	0.74099	GCT		0.498	CILP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256829.1	NM_003613		G	65495764	C	G	65495764	3	3	696	1	0	0	0	0	1	0	0	0	3431	797	28	4	2602	4	CILP	15	65495764	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	40572422	65495764	37035628	95	45548										
ZNF75A	7627	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	3363138	3363138	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cagaaggccctctacaatgaTgtaatgcaggaaaactatga	9	8	1	3			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr16:3363138T>A	ENST00000574298.1	+	4	536	c.63T>A	c.(61-63)gaT>gaA	p.D21E	ZNF75A_ENST00000498240.2_Intron	NM_153028.2	NP_694573.1	Q96N20	ZN75A_HUMAN	zinc finger protein 75a	21	KRAB. {ECO:0000255|PROSITE- ProRule:PRU00119}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|large_intestine(3)|lung(7)|prostate(1)	12						TCTACAATGATGTAATGCAGG	0.408																																																0													131	118	122					16																	3363138		2197	4300	6497	SO:0001583	missense	7627			X91826	CCDS10501.1	16p13.11	2013-01-08			ENSG00000162086	ENSG00000162086		"Zinc fingers, C2H2-type", "-"	13146	protein-coding gene	gene with protein product		601473				8661144	Standard	NM_153028		Approved	FLJ31529	uc002cut.4	Q96N20	OTTHUMG00000129356	ENST00000574298.1:c.63T>A	16.37:g.3363138T>A	ENSP00000459566:p.Asp21Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VDI8|Q92669	Missense_Mutation	SNP	ENST00000574298.1	37	CCDS10501.1	.	.	.	.	.	.	.	.	.	.	T	14.16	2.452955	0.43531	.	.	ENSG00000162086	ENST00000293995	.	.	.	3.48	1.13	0.20643	Krueppel-associated box (4);	.	.	.	.	T	0.40694	0.1127	L	0.42487	1.325	0.80722	D	1	B	0.16603	0.018	B	0.16722	0.016	T	0.12760	-1.0535	8	0.22706	T	0.39	.	2.7142	0.05183	0.1927:0.2235:0.0:0.5838	.	21	Q96N20	ZN75A_HUMAN	E	21	.	ENSP00000293995:D21E	D	+	3	2	ZNF75A	3303139	0.292000	0.24362	0.996000	0.52242	0.996000	0.88848	-0.885000	0.04161	0.207000	0.20607	0.379000	0.24179	GAT		0.408	ZNF75A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251506.2	NM_153028		A	3363138	T	A	3363138	3	1	696	1	0	0	0	0	1	0	0	0	18145	1461	51	5	65	5	ZNF75A	16	3363138	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10		3363138	86991615	96	45549										
LOC81691	81691	broad.mit.edu;bcgsc.ca	37	chr16	20851720	20851720	+	Frame_Shift_Del	DEL	G	G	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tagcaaaaattgcaatctcaGggctctgaagaggctgttta							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr16:20851720delG	ENST00000261377.6	+	15	1765	c.1556delG	c.(1555-1557)aggfs	p.R519fs	ERI2_ENST00000564349.1_Intron|AC004381.6_ENST00000564274.1_Frame_Shift_Del_p.R519fs|AC004381.6_ENST00000348433.6_Frame_Shift_Del_p.R519fs	NM_001199053.1|NM_030941.2	NP_001185982.1|NP_112203.2																					TGCAATCTCAGGGCTCTGAAG	0.408																																																0													113	115	115					16																	20851720		2201	4300	6501	SO:0001589	frameshift_variant	0																														ENST00000261377.6:c.1556delG	16.37:g.20851720delG	ENSP00000261377:p.Arg519fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000261377.6	37	CCDS10591.1																																																																																				0.408	AC004381.6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254418.2			-	20851720	G	-	20851720	7	5	696	1	0	1	0	1	0	0	0	0	8897	1000	35	0	1610	0	LOC81691	16	20851720	Frame_Shift_Del	DEL	G	TCGA-P4-A5E7-01A-31D-A28G-10	17488582	20851720	69503033	97	45550										
IRX3	79191	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	54319068	54319068	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cgtcgtcagccaggccctcgCcccccgtgtcctcctcctcc	8	23	1	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr16:54319068C>T	ENST00000329734.3	-	2	1437	c.725G>A	c.(724-726)gGc>gAc	p.G242D		NM_024336.2	NP_077312.2	P78415	IRX3_HUMAN	iroquois homeobox 3	242	Asp/Glu-rich (acidic).				mesoderm development (GO:0007498)|metanephros development (GO:0001656)|negative regulation of neuron differentiation (GO:0045665)|positive regulation of neuron differentiation (GO:0045666)|regulation of transcription, DNA-templated (GO:0006355)|specification of loop of Henle identity (GO:0072086)|transcription, DNA-templated (GO:0006351)	axon (GO:0030424)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)			endometrium(2)|kidney(1)|large_intestine(5)|lung(3)|ovary(1)|soft_tissue(1)|urinary_tract(1)	14						caggccctcgccccccgtgtc	0.687																																					GBM(143;1830 1866 4487 4646 37383)											0													52	31	39					16																	54319068		2197	4299	6496	SO:0001583	missense	79191			U90308	CCDS10750.1	16q12.2	2011-06-20	2007-07-13		ENSG00000177508	ENSG00000177508		"Homeoboxes / TALE class"	14360	protein-coding gene	gene with protein product		612985					Standard	NM_024336		Approved	IRX-1	uc002eht.1	P78415	OTTHUMG00000133200	ENST00000329734.3:c.725G>A	16.37:g.54319068C>T	ENSP00000331608:p.Gly242Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z4A4|Q7Z4A5|Q8IVC6	Missense_Mutation	SNP	ENST00000329734.3	37	CCDS10750.1	.	.	.	.	.	.	.	.	.	.	C	10.37	1.330432	0.24167	.	.	ENSG00000177508	ENST00000329734	T	0.52295	0.67	4.3	4.3	0.51218	.	0.274240	0.31257	N	0.007970	T	0.33440	0.0863	L	0.36672	1.1	0.32156	N	0.583631	P	0.38504	0.634	B	0.33690	0.168	T	0.36962	-0.9726	10	0.11182	T	0.66	-12.5443	14.2989	0.66334	0.0:1.0:0.0:0.0	.	242	P78415	IRX3_HUMAN	D	242	ENSP00000331608:G242D	ENSP00000331608:G242D	G	-	2	0	IRX3	52876569	1.000000	0.71417	1.000000	0.80357	0.926000	0.56050	3.575000	0.53870	2.221000	0.72209	0.455000	0.32223	GGC		0.687	IRX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256910.2			T	54319068	C	T	54319068	3	4	696	1	0	0	0	0	1	0	0	0	7852	739	26	2	792	2	IRX3	16	54319068	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	33467348	54319068	36035685	98	45551										
ACADVL	37	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	7127679	7127679	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ggcctgagtctcagcggactTgtccacccggagttgagtcg	14	12	1	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr17:7127679T>C	ENST00000356839.5	+	16	1751	c.1572T>C	c.(1570-1572)ctT>ctC	p.L524L	ACADVL_ENST00000543245.2_Silent_p.L547L|ACADVL_ENST00000350303.5_Silent_p.L502L|MIR324_ENST00000362183.1_RNA	NM_000018.3|NM_001270448.1	NP_000009.1|NP_001257377.1	P49748	ACADV_HUMAN	acyl-CoA dehydrogenase, very long chain	524					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular lipid metabolic process (GO:0044255)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|energy derivation by oxidation of organic compounds (GO:0015980)|epithelial cell differentiation (GO:0030855)|fatty acid beta-oxidation (GO:0006635)|fatty acid beta-oxidation using acyl-CoA dehydrogenase (GO:0033539)|negative regulation of fatty acid biosynthetic process (GO:0045717)|negative regulation of fatty acid oxidation (GO:0046322)|regulation of cholesterol metabolic process (GO:0090181)|small molecule metabolic process (GO:0044281)|temperature homeostasis (GO:0001659)	cytoplasm (GO:0005737)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrial nucleoid (GO:0042645)|mitochondrion (GO:0005739)|nucleolus (GO:0005730)|nucleus (GO:0005634)	acyl-CoA dehydrogenase activity (GO:0003995)|flavin adenine dinucleotide binding (GO:0050660)|long-chain-acyl-CoA dehydrogenase activity (GO:0004466)			breast(2)|cervix(2)|endometrium(6)|kidney(1)|large_intestine(2)|liver(2)|lung(1)|ovary(4)|skin(1)	21						TCAGCGGACTTGTCCACCCGG	0.657																																																0													54	54	54					17																	7127679		2203	4300	6503	SO:0001819	synonymous_variant	37			BC012912	CCDS11090.1, CCDS42249.1, CCDS58509.1	17p13.1	2010-04-30	2010-04-30		ENSG00000072778	ENSG00000072778			92	protein-coding gene	gene with protein product		609575	"acyl-Coenzyme A dehydrogenase, very long chain"			8921384	Standard	NM_000018		Approved	VLCAD, LCACD, ACAD6	uc002gev.4	P49748	OTTHUMG00000102157	ENST00000356839.5:c.1572T>C	17.37:g.7127679T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DEB6|F5H2A9|O76056|Q8WUL0	Silent	SNP	ENST00000356839.5	37	CCDS11090.1																																																																																				0.657	ACADVL-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000220001.5	NM_000018		C	7127679	T	C	7127679	2	2	696	1	0	0	0	0	0	0	0	1	116	1799	63	3		3	ACADVL	17	7127679	Silent	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10		7127679	74067531	99	45552										
POLR2A	5430	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	7405000	7405000	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tctgaatacaataacttcaaGtctatggtcgtgtccggagc	9	9	3	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr17:7405000G>A	ENST00000322644.6	+	14	2700	c.2301G>A	c.(2299-2301)aaG>aaA	p.K767K		NM_000937.4	NP_000928	P24928	RPB1_HUMAN	polymerase (RNA) II (DNA directed) polypeptide A, 220kDa	767					7-methylguanosine mRNA capping (GO:0006370)|DNA repair (GO:0006281)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|nucleotide-excision repair (GO:0006289)|positive regulation of viral transcription (GO:0050434)|regulation of transcription, DNA-templated (GO:0006355)|RNA splicing (GO:0008380)|transcription elongation from RNA polymerase II promoter (GO:0006368)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription-coupled nucleotide-excision repair (GO:0006283)|viral process (GO:0016032)	DNA-directed RNA polymerase II, core complex (GO:0005665)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)|RNA-directed RNA polymerase activity (GO:0003968)|ubiquitin protein ligase binding (GO:0031625)			breast(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(8)|lung(17)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	50		Prostate(122;0.173)				ATAACTTCAAGTCTATGGTCG	0.488																																																0													71	67	68					17																	7405000		2203	4300	6503	SO:0001819	synonymous_variant	5430					17p13.1	2013-01-21	2002-08-29		ENSG00000181222	ENSG00000181222	2.7.7.6	"RNA polymerase subunits"	9187	protein-coding gene	gene with protein product	"DNA-directed RNA polymerase II largest subunit, RNA polymerase II 220 kd subunit", "RNA polymerase II subunit B1"	180660	"polymerase (RNA) II (DNA directed) polypeptide A (220kD)"	POLR2			Standard	NM_000937		Approved	POLRA, RPB1	uc002ghf.4	P24928	OTTHUMG00000177594	ENST00000322644.6:c.2301G>A	17.37:g.7405000G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NN93|B9EH88|Q6NX41	Silent	SNP	ENST00000322644.6	37	CCDS32548.1																																																																																				0.488	POLR2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000437967.1	NM_000937		A	7405000	G	A	7405000	2	1	696	1	0	0	0	0	0	0	0	1	12221	1020	36	2		2	POLR2A	17	7405000	Silent	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	277321	7405000	73790210	100	45553										
SLC46A1	113235	ucsc.edu;bcgsc.ca	37	chr17	26731871	26731871	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	taagatgtcctgggccccaaAgtgcacagtgatcaccacga	10	12	1	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr17:26731871A>C	ENST00000440501.1	-	2	939	c.844T>G	c.(844-846)Ttt>Gtt	p.F282V	CTD-2350C19.1_ENST00000583956.1_RNA|SLC46A1_ENST00000584729.1_5'UTR|SLC46A1_ENST00000321666.5_Missense_Mutation_p.F282V|CTD-2350C19.2_ENST00000580714.1_RNA	NM_080669.4	NP_542400.2	Q96NT5	PCFT_HUMAN	solute carrier family 46 (folate transporter), member 1	282					cellular iron ion homeostasis (GO:0006879)|folic acid metabolic process (GO:0046655)|folic acid transport (GO:0015884)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	apical plasma membrane (GO:0016324)|brush border membrane (GO:0031526)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	folic acid binding (GO:0005542)|folic acid transporter activity (GO:0008517)|heme transporter activity (GO:0015232)|methotrexate transporter activity (GO:0015350)			lung(5)	5	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Folic Acid(DB00158)|Methotrexate(DB00563)|Sulfasalazine(DB00795)	TGGGCCCCAAAGTGCACAGTG	0.532																																																0													110	118	115					17																	26731871		2016	4183	6199	SO:0001583	missense	113235			AK054669	CCDS74019.1, CCDS74020.1	17q11.2	2014-09-17	2007-09-24			ENSG00000076351		"Solute carriers"	30521	protein-coding gene	gene with protein product	"heme carrier protein 1", "proton-coupled folate transporter"	611672	"solute carrier family 46, member 1"			16143108, 17129779	Standard	XM_005277786		Approved	HCP1, MGC9564, PCFT	uc002hbf.2	Q96NT5		ENST00000440501.1:c.844T>G	17.37:g.26731871A>C	ENSP00000395653:p.Phe282Val	Somatic		WXS	Illumina HiSeq		Q1HE20|Q86T92|Q8TEG3|Q96FL0	Missense_Mutation	SNP	ENST00000440501.1	37		.	.	.	.	.	.	.	.	.	.	A	12.80	2.046796	0.36085	.	.	ENSG00000076351	ENST00000440501;ENST00000321666	T;T	0.81078	-1.45;-1.45	5.35	4.28	0.50868	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.461581	0.26262	N	0.025398	T	0.64972	0.2647	.	.	.	0.42947	D	0.994369	B;B;B	0.23249	0.009;0.082;0.026	B;B;B	0.25140	0.022;0.058;0.035	T	0.53823	-0.8384	9	0.16420	T	0.52	-7.2339	5.5623	0.17150	0.7666:0.0:0.0822:0.1512	.	282;282;282	B4DJ17;Q96NT5-2;Q96NT5	.;.;PCFT_HUMAN	V	282	ENSP00000395653:F282V;ENSP00000318828:F282V	ENSP00000318828:F282V	F	-	1	0	SLC46A1	23755998	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	3.341000	0.52151	0.893000	0.36288	0.460000	0.39030	TTT		0.532	SLC46A1-202	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_080669		C	26731871	A	C	26731871	3	2	696	1	0	0	0	0	1	0	0	0	14657	72	3	5	552	5	SLC46A1	17	26731871	Missense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10	19326871	26731871	54463339	101	45554										
MRPL45	84311	broad.mit.edu;bcgsc.ca	37	chr17	36478132	36478132	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cctatggaagctggagaatgCataccaagatcgttccccca	9	12	0	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr17:36478132C>T	ENST00000312513.5	+	7	945	c.784C>T	c.(784-786)Cat>Tat	p.H262Y		NM_032351.4	NP_115727.4	Q9BRJ2	RM45_HUMAN	mitochondrial ribosomal protein L45	262						mitochondrion (GO:0005739)|ribosome (GO:0005840)	poly(A) RNA binding (GO:0044822)			breast(3)|endometrium(2)|large_intestine(2)|lung(5)|skin(1)	13	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				CTGGAGAATGCATACCAAGAT	0.507											OREG0024353	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													127	105	112					17																	36478132		2203	4300	6503	SO:0001583	missense	84311			BC006235	CCDS11326.1, CCDS74047.1	17q21.2	2014-05-06			ENSG00000174100	ENSG00000278845		"Mitochondrial ribosomal proteins / large subunits"	16651	protein-coding gene	gene with protein product		611850				11551941, 12706105	Standard	XM_006725366		Approved	MGC11321	uc002hpy.3	Q9BRJ2	OTTHUMG00000188489	ENST00000312513.5:c.784C>T	17.37:g.36478132C>T	ENSP00000308901:p.His262Tyr	Somatic	863	WXS	Illumina HiSeq	Phase_I	A1L436|Q6ZMJ5	Missense_Mutation	SNP	ENST00000312513.5	37	CCDS11326.1	.	.	.	.	.	.	.	.	.	.	C	16.66	3.186161	0.57909	.	.	ENSG00000174100	ENST00000312513	T	0.18338	2.22	5.97	5.97	0.96955	.	0.094381	0.64402	N	0.000001	T	0.47154	0.1430	M	0.88181	2.935	0.80722	D	1	D	0.76494	0.999	D	0.83275	0.996	T	0.51212	-0.8734	10	0.06625	T	0.88	-14.6417	20.0942	0.97832	0.0:1.0:0.0:0.0	.	262	Q9BRJ2	RM45_HUMAN	Y	262	ENSP00000308901:H262Y	ENSP00000308901:H262Y	H	+	1	0	MRPL45	33731659	1.000000	0.71417	1.000000	0.80357	0.906000	0.53458	7.771000	0.85420	2.855000	0.98099	0.536000	0.68110	CAT		0.507	MRPL45-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256792.3	NM_032351		T	36478132	C	T	36478132	3	4	696	1	0	0	0	0	1	0	0	0	9816	710	25	2	740	2	MRPL45	17	36478132	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	9746261	36478132	44717078	102	45555										
GPR179	440435	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	36492994	36492994	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	acggtgtggcatccatgcagCtggtgcagccctcaggacat	13	12	1	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr17:36492994C>T	ENST00000342292.4	-	4	1114	c.1094G>A	c.(1093-1095)aGc>aAc	p.S365N		NM_001004334.2	NP_001004334.2	Q6PRD1	GP179_HUMAN	G protein-coupled receptor 179	365					visual perception (GO:0007601)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			breast(4)|cervix(2)|endometrium(9)|kidney(3)|large_intestine(16)|lung(15)|ovary(4)|pancreas(1)|prostate(1)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	60	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				ATCCATGCAGCTGGTGCAGCC	0.632																																																0													27	31	29					17																	36492994		2097	4237	6334	SO:0001583	missense	440435				CCDS42308.1	17q21.1	2014-05-06	2006-02-16	2006-02-16	ENSG00000188888	ENSG00000277399		"GPCR / Class C : Orphans"	31371	protein-coding gene	gene with protein product		614515	"GPR158-like 1", "GPR179"	GPR158L1			Standard	NM_001004334		Approved	CSNB1E	uc002hpz.3	Q6PRD1	OTTHUMG00000188545	ENST00000342292.4:c.1094G>A	17.37:g.36492994C>T	ENSP00000345060:p.Ser365Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000342292.4	37	CCDS42308.1	.	.	.	.	.	.	.	.	.	.	C	18.13	3.554853	0.65425	.	.	ENSG00000188888	ENST00000342292	T	0.52295	0.67	5.19	4.2	0.49525	.	0.000000	0.85682	D	0.000000	T	0.36248	0.0960	L	0.46157	1.445	0.32221	N	0.57526	B	0.34290	0.447	B	0.32149	0.141	T	0.46331	-0.9199	10	0.37606	T	0.19	-10.9887	7.967	0.30104	0.0:0.6539:0.2598:0.0863	.	365	Q6PRD1	GP179_HUMAN	N	365	ENSP00000345060:S365N	ENSP00000345060:S365N	S	-	2	0	GPR179	33746520	0.669000	0.27502	0.999000	0.59377	0.940000	0.58332	0.856000	0.27818	2.709000	0.92574	0.561000	0.74099	AGC		0.632	GPR179-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255329.2			T	36492994	C	T	36492994	3	4	696	1	0	0	0	0	1	0	0	0	6681	797	28	2	6041	2	GPR179	17	36492994	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	14862	36492994	44702216	103	45556										
KRTAP4-5	85289	hgsc.bcm.edu;broad.mit.edu	37	chr17	39305911	39305912	+	In_Frame_Ins	INS	-	-	GCAGCAGGTGGTCCT													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ggcttgcagcagctggggcgINSgcagcaggtggtcctgcagc					rs557154279|rs141058010	byFrequency	TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr17:39305911_39305912insGCAGCAGGTGGTCCT	ENST00000343246.4	-	1	142_143	c.108_109insAGGACCACCTGCTGC	c.(106-111)tgccgc>tgcAGGACCACCTGCTGCcgc	p.36_37CR>CRTTCCR		NM_033188.3	NP_149445.3	Q9BYR2	KRA45_HUMAN	keratin associated protein 4-5	36	26 X 5 AA repeats of C-C-[GRQVCHIEK]- [SPTR]-[VSTQYC].				aging (GO:0007568)|hair cycle (GO:0042633)	keratin filament (GO:0045095)				central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|lung(4)	6		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			CAGCTGGGGCGGCAGCAGGTGG	0.658														26	0.00519169	0.0	0.0115	5008	,	,		16446	0.0		0.0149	False		,,,				2504	0.0031															0										55,4055		3,49,2003						-1.8	0.7			27	192,7870		2,188,3841	no	coding	KRTAP4-5	NM_033188.3		5,237,5844	A1A1,A1R,RR		2.3815,1.3382,2.0292				247,11925				SO:0001652	inframe_insertion	85289			AJ406937	CCDS32650.1	17q21.2	2013-06-25			ENSG00000198271	ENSG00000198271		"Keratin associated proteins"	18899	protein-coding gene	gene with protein product						11279113	Standard	NM_033188		Approved	KAP4.5	uc002hwb.3	Q9BYR2	OTTHUMG00000133638	ENST00000343246.4:c.94_108dupAGGACCACCTGCTGC	17.37:g.39305911_39305912insGCAGCAGGTGGTCCT	ENSP00000340546:p.Arg32_Cys36dup	Somatic		WXS	Illumina HiSeq	Phase_I		In_Frame_Ins	INS	ENST00000343246.4	37	CCDS32650.1																																																																																				0.658	KRTAP4-5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257783.1			GCAGCAGGTGGTCCT	39305912	-	GCAGCAGGTGGTCCT	39305911	7	5	696	1	0	1	1	0	0	0	0	0	8561	1116	39	0	440	0	KRTAP4-5	17	39305911	In_Frame_Ins	INS	-	TCGA-P4-A5E7-01A-31D-A28G-10	2812917	39305911	41889299	104	45557										
GPATCH8	23131	hgsc.bcm.edu;bcgsc.ca	37	chr17	42475173	42475176	+	Frame_Shift_Del	DEL	TGAG	TGAG	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gcagggtggccagggatgatTgagtgagtgaggtgggacaa							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	TGAG	TGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr17:42475173_42475176delTGAG	ENST00000591680.1	-	8	4299_4302	c.4269_4272delCTCA	c.(4267-4272)cactcafs	p.HS1423fs	GPATCH8_ENST00000434000.1_Frame_Shift_Del_p.HS1345fs	NM_001002909.2	NP_001002909.1	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	1423							metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			breast(4)|endometrium(7)|kidney(6)|large_intestine(4)|liver(2)|lung(21)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	50		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		CAGGGATGATTGAGTGAGTGAGGT	0.588																																																0																																										SO:0001589	frameshift_variant	23131			AB011125	CCDS32666.1	17q21.31	2013-01-28	2006-08-22	2006-12-13	ENSG00000186566	ENSG00000186566		"G patch domain containing"	29066	protein-coding gene	gene with protein product		614396	"KIAA0553"	KIAA0553, GPATC8		9628581	Standard	NM_001002909		Approved		uc002igw.2	Q9UKJ3	OTTHUMG00000181818	ENST00000591680.1:c.4269_4272delCTCA	17.37:g.42475181_42475184delTGAG	ENSP00000467556:p.His1423fs	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGP9|O60300|Q8TB99	Frame_Shift_Del	DEL	ENST00000591680.1	37	CCDS32666.1																																																																																				0.588	GPATCH8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000457797.1	NM_001002909		-	42475176	TGAG	-	42475173	7	5	696	1	0	1	0	1	0	0	0	0	6601	1799	63	0	240	0	GPATCH8	17	42475173	Frame_Shift_Del	DEL	TGAG	TCGA-P4-A5E7-01A-31D-A28G-10	3169262	42475173	38720037	105	45558										
OTOP3	347741	broad.mit.edu	37	chr17	72942796	72942796	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ctgtgcctcaatgccaccgcGtgtgaagctttccggagagg	13	12	1	2	rs200903740		TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr17:72942796G>A	ENST00000328801.4	+	6	846	c.846G>A	c.(844-846)gcG>gcA	p.A282A		NM_178233.1	NP_839947.1	Q7RTS5	OTOP3_HUMAN	otopetrin 3	282						integral component of membrane (GO:0016021)	metal ion binding (GO:0046872)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(5)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	23	all_lung(278;0.151)|Lung NSC(278;0.185)					ATGCCACCGCGTGTGAAGCTT	0.567																																																0								G		0,4406		0,0,2203	132	125	127		846	2.1	0.1	17		127	1,8599	1.2+/-3.3	0,1,4299	no	coding-synonymous	OTOP3	NM_178233.1		0,1,6502	AA,AG,GG		0.0116,0.0,0.0077		282/597	72942796	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	347741			BK000568	CCDS11709.1	17q25	2004-01-19				ENSG00000182938			19658	protein-coding gene	gene with protein product		607828				12651873	Standard	NM_178233		Approved		uc010wrr.3	Q7RTS5		ENST00000328801.4:c.846G>A	17.37:g.72942796G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000328801.4	37	CCDS11709.1																																																																																				0.567	OTOP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445308.1	NM_178233		A	72942796	G	A	72942796	2	1	696	1	0	0	0	0	0	0	0	1	11314	1132	40	1		1	OTOP3	17	72942796	Silent	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	30467623	72942796	8252414	106	45559										
CCDC40	55036	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	78055491	78055491	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	actgctgcagaagctcaccaCccagtgcctgaccaagcagg	10	15	1	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr17:78055491C>A	ENST00000397545.4	+	11	1736	c.1709C>A	c.(1708-1710)aCc>aAc	p.T570N	CCDC40_ENST00000374877.3_Missense_Mutation_p.T570N	NM_017950.3	NP_060420.2	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	570					axonemal dynein complex assembly (GO:0070286)|determination of digestive tract left/right asymmetry (GO:0071907)|determination of liver left/right asymmetry (GO:0071910)|determination of pancreatic left/right asymmetry (GO:0035469)|epithelial cilium movement (GO:0003351)|epithelial cilium movement involved in determination of left/right asymmetry (GO:0060287)|heart looping (GO:0001947)|lung development (GO:0030324)|regulation of cilium beat frequency (GO:0003356)	cilium (GO:0005929)|cytoplasm (GO:0005737)				NS(1)|breast(1)|endometrium(4)|kidney(4)|large_intestine(7)|lung(12)|ovary(4)|prostate(1)|skin(2)|stomach(1)|urinary_tract(1)	38	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			AAGCTCACCACCCAGTGCCTG	0.562																																																0													40	47	45					17																	78055491		2110	4238	6348	SO:0001583	missense	55036			AB046860	CCDS42395.1, CCDS58604.1	17q25.3	2013-11-15			ENSG00000141519	ENSG00000141519			26090	protein-coding gene	gene with protein product		613799				21131974	Standard	NM_017950		Approved	FLJ20753, KIAA1640, FLJ32021, CILD15, FAP172	uc010dht.3	Q4G0X9	OTTHUMG00000132707	ENST00000397545.4:c.1709C>A	17.37:g.78055491C>A	ENSP00000380679:p.Thr570Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8MTD2|C9JTI9|C9JTJ0|C9JXW1|Q6PE47|Q9HCD2|Q9NWL5	Missense_Mutation	SNP	ENST00000397545.4	37	CCDS42395.1	.	.	.	.	.	.	.	.	.	.	C	7.817	0.716970	0.15372	.	.	ENSG00000141519	ENST00000374877;ENST00000397545	T;T	0.44482	0.92;0.94	5.35	3.24	0.37175	.	.	.	.	.	T	0.26991	0.0661	N	0.19112	0.55	0.09310	N	1	P;P	0.38767	0.514;0.646	B;B	0.33295	0.106;0.161	T	0.04737	-1.0930	9	0.20046	T	0.44	-8.4893	15.6447	0.77039	0.0:0.7408:0.2592:0.0	.	570;353	Q4G0X9;Q4G0X9-3	CCD40_HUMAN;.	N	570	ENSP00000364011:T570N;ENSP00000380679:T570N	ENSP00000364011:T570N	T	+	2	0	CCDC40	75670086	0.009000	0.17119	0.131000	0.22000	0.525000	0.34531	1.890000	0.39728	1.203000	0.43233	0.655000	0.94253	ACC		0.562	CCDC40-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256005.2	XM_371082		A	78055491	C	A	78055491	3	1	696	1	0	0	0	0	1	0	0	0	2814	507	18	4	1751	4	CCDC40	17	78055491	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	5112695	78055491	3139719	107	45560										
MYL12B	103910	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	3273023	3273023	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	aggccttcaacatgattgatCagaacagagatggcttcatc	9	9	3	4			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr18:3273023C>G	ENST00000581193.1	+	2	510	c.127C>G	c.(127-129)Cag>Gag	p.Q43E	MYL12B_ENST00000584539.1_Missense_Mutation_p.Q43E|MYL12B_ENST00000400175.5_Missense_Mutation_p.Q43E|MYL12B_ENST00000237500.5_Missense_Mutation_p.Q43E	NM_001144945.1	NP_001138417.1	O14950	ML12B_HUMAN	myosin, light chain 12B, regulatory	43	EF-hand 1. {ECO:0000255|PROSITE- ProRule:PRU00448}.				axon guidance (GO:0007411)|muscle contraction (GO:0006936)|regulation of cell shape (GO:0008360)	apical part of cell (GO:0045177)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|myosin II complex (GO:0016460)|stress fiber (GO:0001725)|Z disc (GO:0030018)	calcium ion binding (GO:0005509)			breast(1)|large_intestine(1)|lung(2)	4						CATGATTGATCAGAACAGAGA	0.403																																																0													202	190	194					18																	3273023		2203	4300	6503	SO:0001583	missense	103910			AY320408	CCDS11831.1	18p11.31	2013-01-10			ENSG00000118680	ENSG00000118680		"Myosins / Light chain", "EF-hand domain containing"	29827	protein-coding gene	gene with protein product	"myosin regulatory light chain 2"	609211				11942626	Standard	NM_033546		Approved	MRLC2	uc002klt.4	O14950	OTTHUMG00000131510	ENST00000581193.1:c.127C>G	18.37:g.3273023C>G	ENSP00000463559:p.Gln43Glu	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUH6|Q13182|Q7Z5Z4	Missense_Mutation	SNP	ENST00000581193.1	37	CCDS11831.1	.	.	.	.	.	.	.	.	.	.	C	33	5.221026	0.95139	.	.	ENSG00000118680	ENST00000237500;ENST00000400177;ENST00000400175;ENST00000400174	T;T	0.71103	-0.54;-0.54	5.66	5.66	0.87406	EF-hand-like domain (1);	0.000000	0.85682	D	0.000000	T	0.81837	0.4907	M	0.82433	2.59	0.80722	D	1	D	0.60160	0.987	P	0.51833	0.681	D	0.84469	0.0598	10	0.87932	D	0	.	20.1076	0.97898	0.0:1.0:0.0:0.0	.	43	O14950	ML12B_HUMAN	E	43	ENSP00000237500:Q43E;ENSP00000383037:Q43E	ENSP00000237500:Q43E	Q	+	1	0	MYL12B	3263023	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	7.760000	0.85248	2.823000	0.97156	0.650000	0.86243	CAG		0.403	MYL12B-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258908.1	NM_033546		G	3273023	C	G	3273023	3	3	696	1	0	0	0	0	1	0	0	0	10053	827	29	4	129	4	MYL12B	18	3273023	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10		3273023	74804225	108	45561										
HMHA1	23526	hgsc.bcm.edu	37	chr19	1081736	1081736	+	Splice_Site	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gcggcgggcgctgcgcaccaAggtgaggcgggggaggaagc	22	10	0	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr19:1081736A>C	ENST00000313093.2	+	18	2609	c.2378A>C	c.(2377-2379)aAg>aCg	p.K793T	HMHA1_ENST00000590214.1_Splice_Site_p.K820T|HMHA1_ENST00000539243.2_Splice_Site_p.K809T|HMHA1_ENST00000543365.1_Splice_Site_p.K676T|HMHA1_ENST00000586866.1_Splice_Site_p.K797T|HMHA1_ENST00000536472.1_Splice_Site_p.K661T|HMHA1_ENST00000590577.1_Splice_Site_p.K428T	NM_012292.3	NP_036424.2	Q92619	HMHA1_HUMAN	histocompatibility (minor) HA-1	793	Rho-GAP. {ECO:0000255|PROSITE- ProRule:PRU00172}.				regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|membrane (GO:0016020)	GTPase activator activity (GO:0005096)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|lung(7)|ovary(1)|prostate(2)	16		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGCGCACCAAGGTGAGGCGG	0.731																																																0													6	7	7					19																	1081736		2129	4218	6347	SO:0001630	splice_region_variant	23526			D86976	CCDS32863.1, CCDS58637.1, CCDS74242.1, CCDS74243.1	19p13.3	2011-09-07				ENSG00000180448		"Rho GTPase activating proteins"	17102	protein-coding gene	gene with protein product		601155				9820596, 9039502	Standard	NM_012292		Approved	KIAA0223, HA-1, ARHGAP45	uc010xgd.2	Q92619		ENST00000313093.2:c.2379+1A>C	19.37:g.1081736A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DTS4|F6QP70|Q6P189|Q7LE26|Q86WS1|Q8HX84|Q9GJN9|Q9GJP0|Q9GJP1|Q9MY24	Missense_Mutation	SNP	ENST00000313093.2	37	CCDS32863.1	.	.	.	.	.	.	.	.	.	.	a	22.3	4.273106	0.80580	.	.	ENSG00000180448	ENST00000539243;ENST00000313093;ENST00000544746;ENST00000536472;ENST00000412039;ENST00000543365	T;T;T;T	0.23147	1.92;1.92;1.92;1.92	4.55	4.55	0.56014	Rho GTPase-activating protein domain (4);Rho GTPase activation protein (1);	0.000000	0.85682	D	0.000000	T	0.43787	0.1263	L	0.49455	1.56	0.58432	D	0.999996	D;D;D;D;D	0.69078	0.997;0.993;0.996;0.993;0.995	D;D;D;P;D	0.74674	0.928;0.945;0.984;0.892;0.967	T	0.40421	-0.9564	10	0.87932	D	0	-45.2741	13.1017	0.59224	1.0:0.0:0.0:0.0	.	661;809;428;676;793	F5H4A3;F6QP70;B3KVA9;F5H1R4;Q92619	.;.;.;.;HMHA1_HUMAN	T	809;793;793;661;787;676	ENSP00000439601:K809T;ENSP00000316772:K793T;ENSP00000445109:K661T;ENSP00000438979:K676T	ENSP00000316772:K793T	K	+	2	0	HMHA1	1032736	1.000000	0.71417	1.000000	0.80357	0.579000	0.36224	8.654000	0.91092	1.684000	0.51022	0.449000	0.29647	AAG		0.731	HMHA1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458026.1		Missense_Mutation	C	1081736	A	C	1081736	5	2	696	1	0	0	0	0	0	0	1	0	7247	86	3	5	2448	5	HMHA1	19	1081736	Splice_Site	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10		1081736	58047247	109	45562										
EVI5L	115704	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	7917990	7917990	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	agtacttccagagagtgatcCcccaccagttcgacagctgc	9	14	0	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr19:7917990C>G	ENST00000270530.4	+	9	1202	c.1006C>G	c.(1006-1008)Ccc>Gcc	p.P336A	EVI5L_ENST00000538904.2_Missense_Mutation_p.P336A	NM_145245.3	NP_660288.1	Q96CN4	EVI5L_HUMAN	ecotropic viral integration site 5-like	336					negative regulation of cilium assembly (GO:1902018)|positive regulation of GTP catabolic process (GO:0033126)|positive regulation of Rab GTPase activity (GO:0032851)		Rab GTPase activator activity (GO:0005097)|Rab GTPase binding (GO:0017137)			breast(1)|lung(9)|ovary(1)|upper_aerodigestive_tract(1)	12						GAGAGTGATCCCCCACCAGTT	0.627											OREG0025211	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													123	122	123					19																	7917990		2203	4300	6503	SO:0001583	missense	115704			BC014111	CCDS12188.1, CCDS54209.1	19p13	2013-07-09				ENSG00000142459			30464	protein-coding gene	gene with protein product						23669355	Standard	NM_001159944		Approved		uc010xjz.2	Q96CN4		ENST00000270530.4:c.1006C>G	19.37:g.7917990C>G	ENSP00000270530:p.Pro336Ala	Somatic	645	WXS	Illumina HiSeq	Phase_I	B9A6I9	Missense_Mutation	SNP	ENST00000270530.4	37	CCDS12188.1	.	.	.	.	.	.	.	.	.	.	C	22.3	4.277895	0.80692	.	.	ENSG00000142459	ENST00000270530;ENST00000538904	T;T	0.23147	1.92;1.92	3.8	3.8	0.43715	Rab-GAP/TBC domain (1);	0.000000	0.85682	D	0.000000	T	0.46639	0.1403	M	0.64567	1.98	0.58432	D	0.999999	D;P	0.89917	1.0;0.951	D;P	0.91635	0.999;0.727	T	0.47497	-0.9113	10	0.59425	D	0.04	-42.9871	13.5149	0.61535	0.0:1.0:0.0:0.0	.	336;336	B9A6I9;Q96CN4	.;EVI5L_HUMAN	A	336	ENSP00000270530:P336A;ENSP00000445905:P336A	ENSP00000270530:P336A	P	+	1	0	EVI5L	7823990	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	7.584000	0.82572	2.124000	0.65301	0.462000	0.41574	CCC		0.627	EVI5L-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000461347.1	NM_145245		G	7917990	C	G	7917990	3	3	696	1	0	0	0	0	1	0	0	0	5292	623	22	4	1036	4	EVI5L	19	7917990	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	6836254	7917990	51210993	110	45563										
HOOK2	29911	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	12874398	12874398	+	Frame_Shift_Del	DEL	T	T	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ctgctcccgctgacttcggcTtttctcaaagtccatctgtc							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr19:12874398delT	ENST00000397668.3	-	22	2027	c.1954delA	c.(1954-1956)agcfs	p.S652fs	HOOK2_ENST00000264827.5_Frame_Shift_Del_p.S650fs|HOOK2_ENST00000589965.1_5'Flank	NM_013312.2	NP_037444.2	Q96ED9	HOOK2_HUMAN	hook microtubule-tethering protein 2	652	Required for localization to the centrosome and induction of aggresome formation.|Sufficient for interaction with CNTRL.				early endosome to late endosome transport (GO:0045022)|endocytosis (GO:0006897)|endosome organization (GO:0007032)|endosome to lysosome transport (GO:0008333)|lysosome organization (GO:0007040)|protein transport (GO:0015031)	centrosome (GO:0005813)|FHF complex (GO:0070695)|microtubule (GO:0005874)	identical protein binding (GO:0042802)			breast(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(7)|ovary(1)|prostate(5)|skin(1)	20						TGACTTCGGCTTTTCTCAAAG	0.522																																																0													185	194	191					19																	12874398		2203	4300	6503	SO:0001589	frameshift_variant	29911			AF044924	CCDS42507.1, CCDS42508.1	19p13.2	2013-08-21	2013-08-21						19885	protein-coding gene	gene with protein product		607824	"hook homolog 2 (Drosophila)"			9927460	Standard	NM_013312		Approved	HK2	uc002muy.2	Q96ED9		ENST00000397668.3:c.1954delA	19.37:g.12874398delT	ENSP00000380785:p.Ser652fs	Somatic		WXS	Illumina HiSeq	Phase_I	O60562	Frame_Shift_Del	DEL	ENST00000397668.3	37	CCDS42508.1																																																																																				0.522	HOOK2-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000451008.1	NM_013312		-	12874398	T	-	12874398	7	5	696	1	0	1	0	1	0	0	0	0	7290	1609	56	0	213	0	HOOK2	19	12874398	Frame_Shift_Del	DEL	T	TCGA-P4-A5E7-01A-31D-A28G-10	4956408	12874398	46254585	111	45564										
PGLYRP2	114770	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	15582776	15582776	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gcatgttggctgcgcagcgcGtgaagtccgtgcagggtggt	18	9	0	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr19:15582776G>A	ENST00000340880.4	-	3	1748	c.1268C>T	c.(1267-1269)aCg>aTg	p.T423M	PGLYRP2_ENST00000292609.4_Missense_Mutation_p.T423M	NM_052890.3	NP_443122.3	Q96PD5	PGRP2_HUMAN	peptidoglycan recognition protein 2	423					defense response to Gram-positive bacterium (GO:0050830)|detection of bacterium (GO:0016045)|growth of symbiont in host (GO:0044117)|innate immune response (GO:0045087)|negative regulation of interferon-gamma production (GO:0032689)|negative regulation of natural killer cell differentiation involved in immune response (GO:0032827)|pattern recognition receptor signaling pathway (GO:0002221)|peptide amidation (GO:0001519)|peptidoglycan catabolic process (GO:0009253)|regulation of inflammatory response (GO:0050727)	extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|membrane (GO:0016020)	N-acetylmuramoyl-L-alanine amidase activity (GO:0008745)|peptidoglycan binding (GO:0042834)|peptidoglycan receptor activity (GO:0016019)|zinc ion binding (GO:0008270)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(9)|ovary(3)|prostate(2)|skin(3)|stomach(2)|urinary_tract(1)	28						TGCGCAGCGCGTGAAGTCCGT	0.672																																																0													63	53	56					19																	15582776		2203	4300	6503	SO:0001583	missense	114770			AY358156	CCDS12330.2	19p13.12	2010-04-27			ENSG00000161031	ENSG00000161031	3.5.1.28		30013	protein-coding gene	gene with protein product	"peptidoglycan recognition protein L precursor", "peptidoglycan recognition protein-like", "N-acetylmuramoyl-L-alanine amidase"	608199				11461926, 12669421, 14506276	Standard	NM_052890		Approved	PGRP-L, PGLYRPL, TAGL-like, tagL, tagL-alpha, tagl-beta, PGRPL	uc002nbf.4	Q96PD5	OTTHUMG00000150690	ENST00000340880.4:c.1268C>T	19.37:g.15582776G>A	ENSP00000345968:p.Thr423Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K050|A8K8C7|B2RMZ2|B7ZM33|Q68CK1|Q96N74|Q9UC60	Missense_Mutation	SNP	ENST00000340880.4	37	CCDS12330.2	.	.	.	.	.	.	.	.	.	.	G	6.484	0.457468	0.12342	.	.	ENSG00000161031	ENST00000340880;ENST00000292609	T;T	0.14391	2.51;2.51	4.62	-7.33	0.01431	Peptidoglycan recognition protein family domain, metazoa/bacteria (1);N-acetylmuramoyl-L-alanine amidase domain (4);	2.474620	0.01368	N	0.012465	T	0.17704	0.0425	L	0.60455	1.87	0.09310	N	1	P;P	0.52316	0.952;0.889	P;P	0.49597	0.616;0.505	T	0.48068	-0.9067	10	0.52906	T	0.07	-14.711	4.6458	0.12572	0.0767:0.2083:0.1616:0.5534	.	423;423	Q96PD5-2;Q96PD5	.;PGRP2_HUMAN	M	423	ENSP00000345968:T423M;ENSP00000292609:T423M	ENSP00000292609:T423M	T	-	2	0	PGLYRP2	15443776	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.143000	0.10296	-1.075000	0.03129	-1.001000	0.02504	ACG		0.672	PGLYRP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319626.1	NM_052890		A	15582776	G	A	15582776	3	1	696	1	0	0	0	0	1	0	0	0	11801	1145	40	1	474	1	PGLYRP2	19	15582776	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	2708378	15582776	43546207	112	45565										
TMEM38A	79041	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	16793291	16793291	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tccgaggggtctggaagccaGagaccaacgagatcctgcac	13	12	1	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr19:16793291G>C	ENST00000187762.2	+	4	617	c.526G>C	c.(526-528)Gag>Cag	p.E176Q		NM_024074.1	NP_076979.1	Q9H6F2	TM38A_HUMAN	transmembrane protein 38A	176						extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|nuclear membrane (GO:0031965)|sarcoplasmic reticulum membrane (GO:0033017)	potassium channel activity (GO:0005267)			central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(6)|ovary(1)	15						CTGGAAGCCAGAGACCAACGA	0.582																																																0													149	123	132					19																	16793291		2203	4300	6503	SO:0001583	missense	79041			AK025981	CCDS12349.1	19p13.11	2013-05-23				ENSG00000072954			28462	protein-coding gene	gene with protein product		611235				17611541	Standard	NM_024074		Approved	MGC3169, TRIC-A	uc002nes.3	Q9H6F2		ENST00000187762.2:c.526G>C	19.37:g.16793291G>C	ENSP00000187762:p.Glu176Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9P9	Missense_Mutation	SNP	ENST00000187762.2	37	CCDS12349.1	.	.	.	.	.	.	.	.	.	.	g	24.0	4.482621	0.84747	.	.	ENSG00000072954	ENST00000187762	.	.	.	5.38	4.35	0.52113	.	0.053986	0.64402	D	0.000001	T	0.72835	0.3510	M	0.71206	2.165	0.58432	D	0.999998	D	0.57571	0.98	P	0.58130	0.833	T	0.74325	-0.3702	9	0.46703	T	0.11	-30.6059	13.1225	0.59336	0.077:0.0:0.923:0.0	.	176	Q9H6F2	TM38A_HUMAN	Q	176	.	ENSP00000187762:E176Q	E	+	1	0	TMEM38A	16654291	1.000000	0.71417	0.674000	0.29902	0.978000	0.69477	7.723000	0.84788	1.258000	0.44101	0.655000	0.94253	GAG		0.582	TMEM38A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462841.1	NM_024074		C	16793291	G	C	16793291	3	2	696	1	0	0	0	0	1	0	0	0	16171	943	33	4	540	4	TMEM38A	19	16793291	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	1210515	16793291	42335692	113	45566										
C19orf62	29086	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	17384931	17384931	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tgcagctgtctggcctgaccTccgacccccgcgagctctgt	11	17	2	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr19:17384931T>C	ENST00000359435.4	+	5	674	c.481T>C	c.(481-483)Tcc>Ccc	p.S161P	CTD-2278I10.6_ENST00000596542.1_Missense_Mutation_p.S83P|BABAM1_ENST00000595632.1_Intron|BABAM1_ENST00000601043.1_Missense_Mutation_p.S161P|BABAM1_ENST00000598188.1_Missense_Mutation_p.S161P|BABAM1_ENST00000447614.2_Missense_Mutation_p.S161P|BABAM1_ENST00000448635.2_Intron	NM_001033549.1	NP_001028721.1	Q9NWV8	BABA1_HUMAN	BRISC and BRCA1 A complex member 1	161	VWFA-like.				chromatin modification (GO:0016568)|double-strand break repair (GO:0006302)|G2 DNA damage checkpoint (GO:0031572)|positive regulation of DNA repair (GO:0045739)|protein K63-linked deubiquitination (GO:0070536)|response to ionizing radiation (GO:0010212)	BRCA1-A complex (GO:0070531)|BRISC complex (GO:0070552)|cytoplasm (GO:0005737)|nucleus (GO:0005634)				endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(1)	5						TGGCCTGACCTCCGACCCCCG	0.667																																																0													57	66	63					19																	17384931		2060	4203	6263	SO:0001583	missense	29086			AK000578	CCDS46012.1, CCDS74310.1	19p13.11	2011-02-21	2011-02-21	2011-01-31	ENSG00000105393	ENSG00000105393			25008	protein-coding gene	gene with protein product	"Mediator of Rap80 Interactions and Targeting 40 kD", "new component of the BRCA1 A complex"	612766	"chromosome 19 open reading frame 62"	C19orf62		11042152	Standard	NM_001288756		Approved	FLJ20571, HSPC142, NBA1, MERIT40	uc002nfv.3	Q9NWV8		ENST00000359435.4:c.481T>C	19.37:g.17384931T>C	ENSP00000352408:p.Ser161Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8MQT0|B4DRY9|B4DVR1|Q6FIA0|Q9P018	Missense_Mutation	SNP	ENST00000359435.4	37	CCDS46012.1	.	.	.	.	.	.	.	.	.	.	T	19.36	3.812432	0.70912	.	.	ENSG00000105393	ENST00000359435;ENST00000447614;ENST00000300965	.	.	.	5.76	5.76	0.90799	.	0.000000	0.85682	D	0.000000	T	0.76666	0.4019	M	0.66939	2.045	0.80722	D	1	D	0.71674	0.998	D	0.76575	0.988	T	0.77885	-0.2421	9	0.52906	T	0.07	-27.2018	14.0114	0.64498	0.0:0.0:0.0:1.0	.	161	Q9NWV8	BABA1_HUMAN	P	161;161;83	.	ENSP00000300965:S83P	S	+	1	0	BABAM1	17245931	1.000000	0.71417	0.979000	0.43373	0.276000	0.26787	5.510000	0.67018	2.192000	0.70111	0.533000	0.62120	TCC		0.667	BABAM1-005	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000463471.1	NM_014173		C	17384931	T	C	17384931	3	2	696	1	0	0	0	0	1	0	0	0	1946	1551	54	3	495	3	C19orf62	19	17384931	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10	591640	17384931	41744052	114	45567										
UNC13A	23025	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	17767189	17767189	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	agctccccggaagaggcataGcggctgctacccgtggggct	15	13	0	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr19:17767189G>T	ENST00000519716.2	-	10	785	c.786C>A	c.(784-786)cgC>cgA	p.R262R	UNC13A_ENST00000552293.1_Silent_p.R262R|UNC13A_ENST00000428389.2_Silent_p.R350R|UNC13A_ENST00000550896.1_Silent_p.R262R|UNC13A_ENST00000252773.7_Silent_p.R262R|UNC13A_ENST00000551649.1_Silent_p.R262R	NM_001080421.2	NP_001073890.2	Q9UPW8	UN13A_HUMAN	unc-13 homolog A (C. elegans)	262					beta-amyloid metabolic process (GO:0050435)|innervation (GO:0060384)|intracellular signal transduction (GO:0035556)|neuromuscular junction development (GO:0007528)|neurotransmitter secretion (GO:0007269)|positive regulation of neurotransmitter secretion (GO:0001956)|regulation of short-term neuronal synaptic plasticity (GO:0048172)|regulation of synaptic transmission, glutamatergic (GO:0051966)|synaptic transmission, glutamatergic (GO:0035249)|synaptic vesicle docking involved in exocytosis (GO:0016081)|synaptic vesicle maturation (GO:0016188)	axon (GO:0030424)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|neuromuscular junction (GO:0031594)|neuron projection (GO:0043005)|presynaptic active zone (GO:0048786)|presynaptic membrane (GO:0042734)	diacylglycerol binding (GO:0019992)|metal ion binding (GO:0046872)|protein N-terminus binding (GO:0047485)|syntaxin-1 binding (GO:0017075)			breast(2)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(11)|lung(31)|ovary(5)|prostate(2)	61						AAGAGGCATAGCGGCTGCTAC	0.632																																																0													8	8	8					19																	17767189		1983	4138	6121	SO:0001819	synonymous_variant	23025			AB028955	CCDS46013.1, CCDS46013.2	19p13.12	2008-02-05				ENSG00000130477			23150	protein-coding gene	gene with protein product		609894					Standard	NM_001080421		Approved	KIAA1032, Munc13-1	uc031rjv.1	Q9UPW8		ENST00000519716.2:c.786C>A	19.37:g.17767189G>T		Somatic		WXS	Illumina HiSeq	Phase_I	E5RHY9	Silent	SNP	ENST00000519716.2	37	CCDS46013.2																																																																																				0.632	UNC13A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000376169.2	XM_038604		T	17767189	G	T	17767189	2	4	696	1	0	0	0	0	0	0	0	1	16996	958	34	4		4	UNC13A	19	17767189	Silent	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	382258	17767189	41361794	115	45568										
SFRS14	10147	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	19106027	19106027	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ttccagcccatcttctgcagCatctggaagcccaggttctt	8	14	4	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr19:19106027C>T	ENST00000601879.1	-	9	3351	c.3054G>A	c.(3052-3054)atG>atA	p.M1018I	SUGP2_ENST00000337018.6_Missense_Mutation_p.M1018I|SUGP2_ENST00000456085.2_Missense_Mutation_p.M787I|AC004447.2_ENST00000594142.1_RNA|SUGP2_ENST00000600377.1_Missense_Mutation_p.M1032I|SUGP2_ENST00000452918.2_Missense_Mutation_p.M1018I			Q8IX01	SUGP2_HUMAN	SURP and G patch domain containing 2	1018	G-patch. {ECO:0000255|PROSITE- ProRule:PRU00092}.				mRNA processing (GO:0006397)|RNA splicing (GO:0008380)	nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			NS(1)|breast(1)|endometrium(8)|kidney(1)|large_intestine(9)|lung(13)|ovary(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	43						TCTTCTGCAGCATCTGGAAGC	0.627																																																0													64	53	57					19																	19106027		2203	4300	6503	SO:0001583	missense	10147			AB002363	CCDS12392.1	19p13	2013-01-28	2010-08-10	2010-08-10	ENSG00000064607	ENSG00000064607		"G patch domain containing"	18641	protein-coding gene	gene with protein product		607993	"splicing factor, arginine/serine-rich 14"	SFRS14		12594045	Standard	NM_014884		Approved	KIAA0365	uc002nkx.2	Q8IX01		ENST00000601879.1:c.3054G>A	19.37:g.19106027C>T	ENSP00000472286:p.Met1018Ile	Somatic		WXS	Illumina HiSeq	Phase_I	C9JI71|O15071|O60369|Q5JPH7|Q8WUF7	Missense_Mutation	SNP	ENST00000601879.1	37	CCDS12392.1	.	.	.	.	.	.	.	.	.	.	C	29.6	5.017731	0.93404	.	.	ENSG00000064607	ENST00000337018;ENST00000330854;ENST00000452918;ENST00000456085	T;T;T;T	0.37235	1.21;1.21;1.21;1.21	5.05	5.05	0.67936	D111/G-patch (3);	0.000000	0.85682	D	0.000000	T	0.61236	0.2331	M	0.73962	2.25	0.58432	D	0.999999	D;D;D	0.59357	0.969;0.985;0.969	D;D;D	0.72338	0.968;0.977;0.951	T	0.65627	-0.6122	10	0.72032	D	0.01	-26.6822	16.9459	0.86230	0.0:1.0:0.0:0.0	.	787;1018;1018	E7ETX7;A8K5G0;Q8IX01	.;.;SUGP2_HUMAN	I	1018;966;1018;787	ENSP00000337926:M1018I;ENSP00000332373:M966I;ENSP00000389380:M1018I;ENSP00000409603:M787I	ENSP00000332373:M966I	M	-	3	0	SUGP2	18967027	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	6.709000	0.74665	2.349000	0.79799	0.462000	0.41574	ATG		0.627	SUGP2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000464627.1	NM_001017392		T	19106027	C	T	19106027	3	4	696	1	0	0	0	0	1	0	0	0	14183	710	25	2	202	2	SFRS14	19	19106027	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	1338838	19106027	40022956	116	45569										
ETHE1	23474	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	44030496	44030497	+	Missense_Mutation	DNP	TA	TA	AT													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gtggtccgcgtggcagtgggTattcactgggagagagagga							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	TA	TA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr19:44030496_44030497TA>AT	ENST00000292147.2	-	3	297_298	c.231_232TA>AT	c.(229-234)aaTAcc>aaATcc	p.77_78NT>KS	ZNF575_ENST00000458714.2_Intron|ETHE1_ENST00000600651.1_Missense_Mutation_p.77_78NT>KS	NM_014297.3	NP_055112.2	O95571	ETHE1_HUMAN	ethylmalonic encephalopathy 1	77					cellular nitrogen compound metabolic process (GO:0034641)|glutathione metabolic process (GO:0006749)|hydrogen sulfide metabolic process (GO:0070813)|small molecule metabolic process (GO:0044281)|sulfide oxidation, using sulfide:quinone oxidoreductase (GO:0070221)|sulfur amino acid catabolic process (GO:0000098)|sulfur amino acid metabolic process (GO:0000096)	cytoplasm (GO:0005737)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	iron ion binding (GO:0005506)|sulfur dioxygenase activity (GO:0050313)			central_nervous_system(1)|liver(1)|lung(2)|upper_aerodigestive_tract(1)	5		Prostate(69;0.0153)				TGGCAGTGGGTATTCACTGGGA	0.634																																																0																																										SO:0001583	missense	23474				CCDS12622.1	19q13.32	2014-06-20				ENSG00000105755	1.13.11.18		23287	protein-coding gene	gene with protein product		608451				19136963	Standard	NM_014297		Approved	YF13H12, HSCO	uc002owp.3	O95571		ENST00000292147.2:c.231_232delinsAT	19.37:g.44030496_44030497delinsAT	ENSP00000292147:p.N77_T78delinsKS	Somatic		WXS	Illumina HiSeq	Phase_I	Q96HR0|Q9H001	Missense_Mutation	DNP	ENST00000292147.2	37	CCDS12622.1																																																																																				0.634	ETHE1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463184.1	NM_014297		AT	44030497	TA	AT	44030496	3	1	696	1	0	0	0	0	1	0	0	0	5274	1638	57	5	552	5	ETHE1	19	44030496	Missense_Mutation	DNP	TA	TCGA-P4-A5E7-01A-31D-A28G-10	24924469	44030496	15098487	117	45570										
NUP62	23636	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	50411616	50411633	+	In_Frame_Del	DEL	GTCCATGTGCGCATTGAG	GTCCATGTGCGCATTGAG	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tggtcgatccactgcagtgaGtccatgtgcgcattgaggat					rs139913264|rs61751953|rs151075180		TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	GTCCATGTGCGCATTGAG	GTCCATGTGCGCATTGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr19:50411616_50411633delGTCCATGTGCGCATTGAG	ENST00000596217.1	-	2	3319_3336	c.1432_1449delCTCAATGCGCACATGGAC	c.(1432-1449)ctcaatgcgcacatggacdel	p.LNAHMD478del	NUP62_ENST00000597723.1_In_Frame_Del_p.LNAHMD402del|NUP62_ENST00000413454.1_In_Frame_Del_p.LNAHMD478del|IL4I1_ENST00000595948.1_Intron|NUP62_ENST00000597029.1_In_Frame_Del_p.LNAHMD478del|NUP62_ENST00000600583.1_5'Flank|NUP62_ENST00000422090.2_In_Frame_Del_p.LNAHMD478del|NUP62_ENST00000352066.3_In_Frame_Del_p.LNAHMD478del|IL4I1_ENST00000341114.3_Intron			P37198	NUP62_HUMAN	nucleoporin 62kDa	478					carbohydrate metabolic process (GO:0005975)|cell aging (GO:0007569)|cell death (GO:0008219)|cell surface receptor signaling pathway (GO:0007166)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|hormone-mediated signaling pathway (GO:0009755)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of programmed cell death (GO:0043069)|negative regulation of Ras protein signal transduction (GO:0046580)|nucleocytoplasmic transport (GO:0006913)|positive regulation of epidermal growth factor receptor signaling pathway (GO:0045742)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of transcription, DNA-templated (GO:0045893)|protein transport (GO:0015031)|regulation of glucose transport (GO:0010827)|regulation of Ras protein signal transduction (GO:0046578)|regulation of signal transduction (GO:0009966)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|intracellular membrane-bounded organelle (GO:0043231)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nuclear pore (GO:0005643)|nucleocytoplasmic shuttling complex (GO:0031074)|pore complex (GO:0046930)|ribonucleoprotein complex (GO:0030529)	chromatin binding (GO:0003682)|receptor signaling complex scaffold activity (GO:0030159)|SH2 domain binding (GO:0042169)|structural constituent of nuclear pore (GO:0017056)|thyroid hormone receptor binding (GO:0046966)|ubiquitin binding (GO:0043130)	p.A480A(1)		breast(2)|endometrium(1)|kidney(1)|large_intestine(4)|lung(8)|stomach(1)|urinary_tract(2)	19		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00242)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		ACTGCAGTGAGTCCATGTGCGCATTGAGGATCTTGCAG	0.628																																																1	Substitution - coding silent(1)	lung(1)																																								SO:0001651	inframe_deletion	23636			X58521	CCDS12788.1	19q13.33	2013-09-20	2002-08-29		ENSG00000213024	ENSG00000213024			8066	protein-coding gene	gene with protein product	"nuclear pore glycoprotein p62"	605815	"nucleoporin 62kD"			1915414	Standard	NM_016553		Approved	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869	uc002pqx.3	P37198	OTTHUMG00000183077	ENST00000596217.1:c.1432_1449delCTCAATGCGCACATGGAC	19.37:g.50411616_50411633delGTCCATGTGCGCATTGAG	ENSP00000471191:p.Leu478_Asp483del	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWU5|Q503A4|Q6GTM2|Q96C43|Q9NSL1	In_Frame_Del	DEL	ENST00000596217.1	37	CCDS12788.1																																																																																				0.628	NUP62-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464991.1	NM_153719		-	50411633	GTCCATGTGCGCATTGAG	-	50411616	7	5	696	1	0	1	0	1	0	0	0	0	10775	1020	36	0	123	0	NUP62	19	50411616	In_Frame_Del	DEL	GTCCATGTGCGCATTGAG	TCGA-P4-A5E7-01A-31D-A28G-10	6381120	50411616	8717367	118	45571										
PRKCG	5582	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	54401854	54401854	+	Frame_Shift_Del	DEL	C	C	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	cggccggccccacttcctcaCccagctccactccaccttcc							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr19:54401854delC	ENST00000263431.3	+	11	1535	c.1253delC	c.(1252-1254)accfs	p.T418fs	PRKCG_ENST00000540413.1_Frame_Shift_Del_p.T418fs|PRKCG_ENST00000542049.1_Frame_Shift_Del_p.T305fs	NM_002739.3	NP_002730.1	P05129	KPCG_HUMAN	protein kinase C, gamma	418	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of phospholipase C activity (GO:0007202)|blood coagulation (GO:0007596)|cell death (GO:0008219)|chemosensory behavior (GO:0007635)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|innervation (GO:0060384)|intracellular signal transduction (GO:0035556)|learning or memory (GO:0007611)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of protein catabolic process (GO:0042177)|negative regulation of protein ubiquitination (GO:0031397)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphorylation (GO:0016310)|platelet activation (GO:0030168)|positive regulation of mismatch repair (GO:0032425)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|response to morphine (GO:0043278)|response to pain (GO:0048265)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)	cell-cell junction (GO:0005911)|cytosol (GO:0005829)|dendrite (GO:0030425)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|synaptic membrane (GO:0097060)	ATP binding (GO:0005524)|calcium-dependent protein kinase C activity (GO:0004698)|protein kinase activity (GO:0004672)|protein kinase C activity (GO:0004697)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|zinc ion binding (GO:0008270)			large_intestine(1)|lung(4)|ovary(2)|pancreas(2)|skin(1)	10	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)	Tamoxifen(DB00675)	CACTTCCTCACCCAGCTCCAC	0.662																																																0													12	13	13					19																	54401854		2200	4285	6485	SO:0001589	frameshift_variant	5582			M13977	CCDS12867.1	19q13.4	2014-09-17			ENSG00000126583	ENSG00000126583	2.7.11.1		9402	protein-coding gene	gene with protein product	"PKC-gamma"	176980		PKCG, SCA14		8432525, 3755548	Standard	NM_002739		Approved	PKCC, MGC57564	uc002qcq.1	P05129	OTTHUMG00000064846	ENST00000263431.3:c.1253delC	19.37:g.54401854delC	ENSP00000263431:p.Thr418fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8Q0	Frame_Shift_Del	DEL	ENST00000263431.3	37	CCDS12867.1																																																																																				0.662	PRKCG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000139233.3	NM_002739		-	54401854	C	-	54401854	7	5	696	1	0	1	0	1	0	0	0	0	12522	507	18	0	1295	0	PRKCG	19	54401854	Frame_Shift_Del	DEL	C	TCGA-P4-A5E7-01A-31D-A28G-10	3990238	54401854	4727129	119	45572										
JAG1	182	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	10653490	10653490	+	Nonsense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ccggccgtgacgcgggactgAtactccttgaggcacacttt	12	13	0	3			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr20:10653490A>C	ENST00000254958.5	-	2	761	c.246T>G	c.(244-246)taT>taG	p.Y82*	RP11-103J8.1_ENST00000605292.1_RNA	NM_000214.2	NP_000205.1	P78504	JAG1_HUMAN	jagged 1	82					angiogenesis (GO:0001525)|aorta morphogenesis (GO:0035909)|auditory receptor cell differentiation (GO:0042491)|blood vessel remodeling (GO:0001974)|cardiac neural crest cell development involved in outflow tract morphogenesis (GO:0061309)|cardiac right ventricle morphogenesis (GO:0003215)|cardiac septum morphogenesis (GO:0060411)|cell fate determination (GO:0001709)|ciliary body morphogenesis (GO:0061073)|distal tubule development (GO:0072017)|endocardial cushion cell development (GO:0061444)|endothelial cell differentiation (GO:0045446)|hemopoiesis (GO:0030097)|keratinocyte differentiation (GO:0030216)|loop of Henle development (GO:0072070)|morphogenesis of an epithelial sheet (GO:0002011)|myoblast differentiation (GO:0045445)|negative regulation of fat cell differentiation (GO:0045599)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of stem cell differentiation (GO:2000737)|nervous system development (GO:0007399)|neuronal stem cell maintenance (GO:0097150)|Notch receptor processing (GO:0007220)|Notch signaling involved in heart development (GO:0061314)|Notch signaling pathway (GO:0007219)|positive regulation of myeloid cell differentiation (GO:0045639)|positive regulation of Notch signaling pathway (GO:0045747)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|pulmonary artery morphogenesis (GO:0061156)|pulmonary valve morphogenesis (GO:0003184)|regulation of cell migration (GO:0030334)|regulation of cell proliferation (GO:0042127)|response to muramyl dipeptide (GO:0032495)|T cell mediated immunity (GO:0002456)	apical part of cell (GO:0045177)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|growth factor activity (GO:0008083)|Notch binding (GO:0005112)|structural molecule activity (GO:0005198)			biliary_tract(1)|breast(2)|central_nervous_system(3)|cervix(1)|endometrium(6)|kidney(3)|large_intestine(10)|lung(14)|ovary(2)|pancreas(1)|urinary_tract(1)	44						CGCGGGACTGATACTCCTTGA	0.662									Alagille Syndrome																																							0													51	50	51					20																	10653490		2203	4299	6502	SO:0001587	stop_gained	182	Familial Cancer Database	ALGS1, ALGS2.Alagille-Watson syndrome	U61276	CCDS13112.1	20p12.1-p11.23	2011-05-12	2010-06-24		ENSG00000101384	ENSG00000101384		"CD molecules"	6188	protein-coding gene	gene with protein product		601920	"Alagille syndrome"	AGS, JAGL1		7697721, 9207788	Standard	NM_000214		Approved	AHD, AWS, HJ1, CD339	uc002wnw.2	P78504	OTTHUMG00000031872	ENST00000254958.5:c.246T>G	20.37:g.10653490A>C	ENSP00000254958:p.Tyr82*	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV43|B4DYR1|E9PCF9|O14902|O15122|Q15816	Nonsense_Mutation	SNP	ENST00000254958.5	37	CCDS13112.1	.	.	.	.	.	.	.	.	.	.	A	41	8.923643	0.99004	.	.	ENSG00000101384	ENST00000254958	.	.	.	5.28	1.45	0.22620	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	9.9719	0.41759	0.4136:0.0:0.5864:0.0	.	.	.	.	X	82	.	ENSP00000254958:Y82X	Y	-	3	2	JAG1	10601490	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.053000	0.41326	0.554000	0.29061	0.459000	0.35465	TAT		0.662	JAG1-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_000214		C	10653490	A	C	10653490	4	2	696	1	0	0	0	0	0	1	0	0	7941	340	12	5	3510	5	JAG1	20	10653490	Nonsense_Mutation	SNP	A	TCGA-P4-A5E7-01A-31D-A28G-10		10653490	52372030	120	45573										
C20orf12	55184	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	18414380	18414380	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	atgggagtgttcatgggtacCaagcttctgcattctgcaca	11	9	3	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr20:18414380C>T	ENST00000358866.6	-	8	799	c.777G>A	c.(775-777)ttG>ttA	p.L259L	DZANK1_ENST00000357236.4_Silent_p.L145L|DZANK1_ENST00000262547.5_Silent_p.L259L|RNA5SP476_ENST00000516613.1_RNA|DZANK1_ENST00000329494.5_Silent_p.L261L|DZANK1_ENST00000487128.1_5'UTR			Q9NVP4	DZAN1_HUMAN	double zinc ribbon and ankyrin repeat domains 1	259							zinc ion binding (GO:0008270)			NS(1)|cervix(1)|endometrium(2)|large_intestine(5)|lung(10)	19						TCATGGGTACCAAGCTTCTGC	0.458																																																0													112	109	110					20																	18414380		2000	4182	6182	SO:0001819	synonymous_variant	55184			AK001462	CCDS46582.1	20p11.23	2013-01-11	2011-10-03	2011-10-03	ENSG00000089091	ENSG00000089091		"Ankyrin repeat domain containing"	15858	protein-coding gene	gene with protein product	"ankyrin repeat domain 64"		"chromosome 20 open reading frame 12"	C20orf84, C20orf12			Standard	NM_001099407		Approved	FLJ10600, dJ568F9.2, FLJ30892, bA189K21.8, ANKRD64	uc002wqq.4	Q9NVP4	OTTHUMG00000031968	ENST00000358866.6:c.777G>A	20.37:g.18414380C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZLZ4|Q4F7X1|Q5QPD9|Q5QPE0|Q68DN8|Q6ZMX9|Q96NF0|Q9H1E0|Q9H442	Silent	SNP	ENST00000358866.6	37	CCDS46582.1	.	.	.	.	.	.	.	.	.	.	C	0.837	-0.743265	0.03088	.	.	ENSG00000089091	ENST00000358866	.	.	.	4.97	4.02	0.46733	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	-0.6738	10.7045	0.45948	0.0:0.9065:0.0:0.0935	.	.	.	.	X	58	.	.	W	-	2	0	C20orf12	18362380	1.000000	0.71417	0.803000	0.32268	0.023000	0.10783	1.732000	0.38146	2.448000	0.82819	0.655000	0.94253	TGG		0.458	DZANK1-011	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000471926.1	NM_001099407		T	18414380	C	T	18414380	2	4	696	1	0	0	0	0	0	0	0	1	2087	593	21	2		2	C20orf12	20	18414380	Silent	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	7760890	18414380	44611140	121	45574										
PLUNC	51297	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	31829269	31829269	+	Frame_Shift_Del	DEL	G	G	-													0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gtcctgcctgagttggttcaGggcaacgtaagtaggcaagg							TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr20:31829269delG	ENST00000354297.4	+	6	731	c.660delG	c.(658-660)cagfs	p.Q220fs	BPIFA1_ENST00000375422.2_Frame_Shift_Del_p.Q220fs|BPIFA1_ENST00000375413.4_Frame_Shift_Del_p.Q220fs	NM_130852.2	NP_570913.1	Q9NP55	BPIA1_HUMAN	BPI fold containing family A, member 1	220				Q -> K (in Ref. 1; AAF70860). {ECO:0000305}.	antibacterial humoral response (GO:0019731)|innate immune response (GO:0045087)|multicellular organismal water homeostasis (GO:0050891)|negative regulation of single-species biofilm formation in or on host organism (GO:1900229)|regulation of liquid surface tension (GO:0050828)|regulation of sodium ion transmembrane transport (GO:1902305)	extracellular region (GO:0005576)|extracellular space (GO:0005615)	lipid binding (GO:0008289)										AGTTGGTTCAGGGCAACGTAA	0.512																																																0													164	158	160					20																	31829269		2203	4300	6503	SO:0001589	frameshift_variant	51297			AB024937	CCDS13217.1	20q11.21	2011-08-04	2011-07-29	2011-07-29	ENSG00000198183	ENSG00000198183		"BPI fold containing"	15749	protein-coding gene	gene with protein product		607412	"palate, lung and nasal epithelium carcinoma associated", "palate, lung and nasal epithelium associated"	PLUNC		11018263, 11251963, 21787333	Standard	NM_130852		Approved	LUNX, bA49G10.5, SPLUNC1	uc002wyv.3	Q9NP55	OTTHUMG00000032243	ENST00000354297.4:c.660delG	20.37:g.31829269delG	ENSP00000346251:p.Gln220fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9R3|E1P5M9|Q9NZT0	Frame_Shift_Del	DEL	ENST00000354297.4	37	CCDS13217.1																																																																																				0.512	BPIFA1-002	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078667.2	NM_130852		-	31829269	G	-	31829269	7	5	696	1	0	1	0	1	0	0	0	0	12122	991	35	0	678	0	PLUNC	20	31829269	Frame_Shift_Del	DEL	G	TCGA-P4-A5E7-01A-31D-A28G-10	13414889	31829269	31196251	122	45575										
TRPC4AP	26133	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	33622951	33622951	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ttgtgctctgactcctcattGgccactcgcatcagggcatc	9	14	3	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr20:33622951G>T	ENST00000252015.2	-	8	1115	c.1026C>A	c.(1024-1026)gcC>gcA	p.A342A	TRPC4AP_ENST00000432634.2_Silent_p.A303A|TRPC4AP_ENST00000539834.1_5'UTR|TRPC4AP_ENST00000451813.2_Silent_p.A342A			Q8TEL6	TP4AP_HUMAN	transient receptor potential cation channel, subfamily C, member 4 associated protein	342	Interaction with TNFRSF1A. {ECO:0000250}.				calcium ion transmembrane transport (GO:0070588)|ion transmembrane transport (GO:0034220)|protein ubiquitination (GO:0016567)|transmembrane transport (GO:0055085)|ubiquitin-dependent protein catabolic process (GO:0006511)	Cul4A-RING E3 ubiquitin ligase complex (GO:0031464)|plasma membrane (GO:0005886)	phosphatase binding (GO:0019902)			breast(3)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(13)|skin(1)|stomach(1)|urinary_tract(1)	32			BRCA - Breast invasive adenocarcinoma(18;0.00936)			ACTCCTCATTGGCCACTCGCA	0.537																																																0													141	123	129					20																	33622951		2203	4300	6503	SO:0001819	synonymous_variant	26133			AF055022	CCDS13246.1, CCDS46591.1	20q11.23	2014-06-13	2003-10-06	2003-10-08	ENSG00000100991	ENSG00000100991			16181	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 158"	608430	"chromosome 20 open reading frame 188"	C20orf188			Standard	NM_015638		Approved	DKFZP727M231, DKFZp586C1223, dJ756N5.2, TRRP4AP, PPP1R158	uc002xbk.3	Q8TEL6	OTTHUMG00000032319	ENST00000252015.2:c.1026C>A	20.37:g.33622951G>T		Somatic		WXS	Illumina HiSeq	Phase_I	E1P5Q0|E1P5Q1|Q96H82|Q9BVB8|Q9H429|Q9UFS6	Silent	SNP	ENST00000252015.2	37	CCDS13246.1																																																																																				0.537	TRPC4AP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078832.2	NM_015638		T	33622951	G	T	33622951	2	4	696	1	0	0	0	0	0	0	0	1	16593	1335	47	4		4	TRPC4AP	20	33622951	Silent	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	1793682	33622951	29402569	123	45576										
SS18L1	26039	hgsc.bcm.edu	37	chr20	60738629	60738629	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gggcagggcagccaggggagCagcatgatggggcagcggcc	21	10	0	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr20:60738629C>A	ENST00000331758.3	+	6	698	c.672C>A	c.(670-672)agC>agA	p.S224R	SS18L1_ENST00000370848.4_Missense_Mutation_p.S227R|SS18L1_ENST00000421564.1_Missense_Mutation_p.S224R	NM_198935.1	NP_945173.1	O75177	CREST_HUMAN	synovial sarcoma translocation gene on chromosome 18-like 1	224	Gln-rich.|Methionine-rich intra-molecular domain. {ECO:0000250}.				chromatin modification (GO:0016568)|dendrite development (GO:0016358)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of dendrite development (GO:0050773)|transcription, DNA-templated (GO:0006351)	condensed nuclear chromosome, centromeric region (GO:0000780)|kinetochore (GO:0000776)|nuclear body (GO:0016604)|nucleus (GO:0005634)			SS18L1/SSX1(2)	ovary(2)|skin(1)	3	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.92e-08)			GCCAGGGGAGCAGCATGATGG	0.731			T	SSX1	synovial sarcoma																																		Dom	yes		20	20q13.3	26039	synovial sarcoma translocation gene on chromosome 18-like 1		M	0													23	25	25					20																	60738629		2195	4294	6489	SO:0001583	missense	26039			AB014593	CCDS13491.1	20q13.3	2008-07-28			ENSG00000184402	ENSG00000184402			15592	protein-coding gene	gene with protein product		606472					Standard	XM_005260389		Approved	KIAA0693	uc002ycb.3	O75177	OTTHUMG00000032902	ENST00000331758.3:c.672C>A	20.37:g.60738629C>A	ENSP00000333012:p.Ser224Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A6NNE3|A8K620|B3KWR8|E1P5H7|Q5JXJ3|Q6MZV9|Q6NTH3|Q6XYD9|Q8NE69|Q9BR55|Q9H4K6	Missense_Mutation	SNP	ENST00000331758.3	37	CCDS13491.1	.	.	.	.	.	.	.	.	.	.	C	17.89	3.499248	0.64298	.	.	ENSG00000184402	ENST00000421564;ENST00000331758;ENST00000370848	T;T;T	0.32515	1.45;1.45;1.46	4.99	3.03	0.35002	.	0.269496	0.44483	D	0.000453	T	0.28499	0.0705	L	0.47716	1.5	0.25078	N	0.990947	P;P	0.45902	0.651;0.868	B;B	0.42319	0.198;0.383	T	0.11036	-1.0604	10	0.87932	D	0	-10.1574	11.0441	0.47849	0.0:0.8465:0.0:0.1535	.	224;224	B4DSR7;O75177	.;CREST_HUMAN	R	224;224;227	ENSP00000393999:S224R;ENSP00000333012:S224R;ENSP00000359885:S227R	ENSP00000333012:S224R	S	+	3	2	SS18L1	60172024	1.000000	0.71417	0.766000	0.31476	0.987000	0.75469	1.854000	0.39368	0.498000	0.27948	0.467000	0.42956	AGC		0.731	SS18L1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080004.2			A	60738629	C	A	60738629	3	1	696	1	0	0	0	0	1	0	0	0	15188	709	25	4	694	4	SS18L1	20	60738629	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	27115678	60738629	2286891	124	45577										
PWP2	5822	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	45534138	45534138	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	caagggctctgtgcacagtgTgtccttctcccctgatggca	11	13	2	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr21:45534138T>C	ENST00000291576.7	+	4	432	c.305T>C	c.(304-306)gTg>gCg	p.V102A		NM_005049.2	NP_005040.2	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog (yeast)	102					signal transduction (GO:0007165)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)|signal transducer activity (GO:0004871)			cervix(1)|endometrium(6)|large_intestine(6)|lung(4)|pancreas(1)|prostate(1)|stomach(1)|urinary_tract(1)	21				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		GTGCACAGTGTGTCCTTCTCC	0.652											OREG0026247	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													113	94	100					21																	45534138		2203	4300	6503	SO:0001583	missense	5822				CCDS33579.1	21q22.3	2013-01-10	2001-11-28	2006-11-24	ENSG00000241945	ENSG00000241945		"WD repeat domain containing"	9711	protein-coding gene	gene with protein product		601475	"PWP2 (periodic tryptophan protein, yeast) homolog"	PWP2H		8893822	Standard	NM_005049		Approved	EHOC-17, UTP1	uc002zeb.3	Q15269	OTTHUMG00000086893	ENST00000291576.7:c.305T>C	21.37:g.45534138T>C	ENSP00000291576:p.Val102Ala	Somatic	932	WXS	Illumina HiSeq	Phase_I	B2RAG8|Q96A77	Missense_Mutation	SNP	ENST00000291576.7	37	CCDS33579.1	.	.	.	.	.	.	.	.	.	.	T	17.88	3.498423	0.64298	.	.	ENSG00000241945	ENST00000291576	T	0.50001	0.76	4.8	4.8	0.61643	WD40/YVTN repeat-like-containing domain (1);Quinonprotein alcohol dehydrogenase-like (1);	0.213399	0.38720	N	0.001592	T	0.35451	0.0932	L	0.33624	1.015	0.46131	D	0.998884	B	0.31383	0.321	B	0.25506	0.061	T	0.21999	-1.0229	10	0.42905	T	0.14	-8.6121	12.8724	0.57972	0.0:0.0:0.0:1.0	.	102	Q15269	PWP2_HUMAN	A	102	ENSP00000291576:V102A	ENSP00000291576:V102A	V	+	2	0	PWP2	44358566	0.995000	0.38212	0.948000	0.38648	0.736000	0.42039	5.690000	0.68241	1.929000	0.55896	0.402000	0.26972	GTG		0.652	PWP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195736.3	NM_005049		C	45534138	T	C	45534138	3	2	696	1	0	0	0	0	1	0	0	0	12857	1696	59	3	319	3	PWP2	21	45534138	Missense_Mutation	SNP	T	TCGA-P4-A5E7-01A-31D-A28G-10		45534138	2595757	125	45578										
C22orf15	150248	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	24106287	24106287	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tccacagctggctgctcggtGctggtgaacacctcttgcag	12	13	1	1			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr22:24106287G>A	ENST00000402217.3	+	2	292	c.39G>A	c.(37-39)gtG>gtA	p.V13V	C22orf15_ENST00000382821.3_Silent_p.V13V|C22orf15_ENST00000305199.5_Silent_p.V13V	NM_182520.2	NP_872326.2	Q8WYQ4	CV015_HUMAN	chromosome 22 open reading frame 15	13										breast(1)|pancreas(1)	2		Medulloblastoma(6;6.27e-05)|all_neural(6;0.00518)				GCTGCTCGGTGCTGGTGAACA	0.602																																																0													86	90	89					22																	24106287		692	1591	2283	SO:0001819	synonymous_variant	150248			AB050773	CCDS13814.2	22q11.23	2012-11-13			ENSG00000169314	ENSG00000169314			15558	protein-coding gene	gene with protein product							Standard	NM_182520		Approved	FLJ36561, N27C7-3	uc011aja.2	Q8WYQ4	OTTHUMG00000150740	ENST00000402217.3:c.39G>A	22.37:g.24106287G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q6ICJ7	Silent	SNP	ENST00000402217.3	37	CCDS13814.2																																																																																				0.602	C22orf15-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319887.2	NM_182520		A	24106287	G	A	24106287	2	1	696	1	0	0	0	0	0	0	0	1	2138	1306	46	2		2	C22orf15	22	24106287	Silent	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10		24106287	27198279	126	45579										
GATSL3	652968	hgsc.bcm.edu	37	chr22	30685454	30685454	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ggacgggcgacgctcagcacCcgcacccggtgttctaggat	14	14	2	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr22:30685454C>T	ENST00000407689.3	-	1	162	c.33G>A	c.(31-33)cgG>cgA	p.R11R	GATSL3_ENST00000459785.1_5'Flank|GATSL3_ENST00000404953.3_Silent_p.R11R|RP1-130H16.18_ENST00000447976.1_Intron	NM_001037666.2	NP_001032755.1	Q8WTX7	GATL3_HUMAN	GATS protein-like 3	11										breast(1)|endometrium(1)|lung(1)	3						CGCTCAGCACCCGCACCCGGT	0.741																																																0													11	18	16					22																	30685454		1870	4079	5949	SO:0001819	synonymous_variant	652968				CCDS43001.1	22q12	2010-06-23			ENSG00000239282	ENSG00000239282			34423	protein-coding gene	gene with protein product							Standard	NM_001037666		Approved			Q8WTX7	OTTHUMG00000150929	ENST00000407689.3:c.33G>A	22.37:g.30685454C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O76052|Q96ND9|Q9UIE8	Silent	SNP	ENST00000407689.3	37	CCDS43001.1																																																																																				0.741	GATSL3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320581.2	NM_001037666		T	30685454	C	T	30685454	2	4	696	1	0	0	0	0	0	0	0	1	6272	610	22	2		2	GATSL3	22	30685454	Silent	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	6579167	30685454	20619112	127	45580										
CBY1	25776	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	39066951	39066951	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	ggatccccgactatgaacctGgcagggcaaagcctgaagtt	12	11	0	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr22:39066951G>A	ENST00000216029.3	+	3	275	c.141G>A	c.(139-141)ctG>ctA	p.L47L	RP3-508I15.9_ENST00000444381.1_RNA|RP3-508I15.9_ENST00000422408.2_RNA|RP3-508I15.10_ENST00000423346.1_RNA|RP3-508I15.9_ENST00000431924.2_RNA	NM_015373.3	NP_056188.1	Q9Y3M2	CBY1_HUMAN	chibby homolog 1 (Drosophila)	47					cardiac muscle cell differentiation (GO:0055007)|cilium assembly (GO:0042384)|fat cell differentiation (GO:0045444)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of transcription, DNA-templated (GO:0045892)|negative regulation of Wnt signaling pathway (GO:0030178)|protein localization (GO:0008104)	ciliary basal body (GO:0036064)|nucleus (GO:0005634)|trans-Golgi network (GO:0005802)	beta-catenin binding (GO:0008013)|identical protein binding (GO:0042802)			central_nervous_system(1)|endometrium(1)|large_intestine(1)|ovary(1)	4	Melanoma(58;0.04)					CTATGAACCTGGCAGGGCAAA	0.527																																																0													144	143	143					22																	39066951		2203	4300	6503	SO:0001819	synonymous_variant	25776			BK005534	CCDS13974.1, CCDS74861.1	22q12	2014-02-06	2007-01-26	2007-01-26	ENSG00000100211	ENSG00000100211			1307	protein-coding gene	gene with protein product	"chibby CTNNB1-mediated transcription inhibitor"	607757	"chromosome 22 open reading frame 2", "PKD2 interactor, golgi and endoplasmic reticulum associated 1"	C22orf2, PGEA1		10591208, 15194699	Standard	NM_015373		Approved	PIGEA14, PIGEA-14, Chibby, Cby	uc003awb.4	Q9Y3M2	OTTHUMG00000150990	ENST00000216029.3:c.141G>A	22.37:g.39066951G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R4S2|Q66GT6|Q9UIK9	Silent	SNP	ENST00000216029.3	37	CCDS13974.1																																																																																				0.527	CBY1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320832.1	NM_015373		A	39066951	G	A	39066951	2	1	696	1	0	0	0	0	0	0	0	1	2727	1335	47	2		2	CBY1	22	39066951	Silent	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10	8381497	39066951	12237615	128	45581										
C22orf9	23313	broad.mit.edu	37	chr22	45599044	45599044	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	gccaaacgacatcttctgtgCcatgcgggcggccacgctca	11	15	3	0			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chr22:45599044C>T	ENST00000336156.5	-	7	744	c.679G>A	c.(679-681)Gca>Aca	p.A227T	KIAA0930_ENST00000251993.7_Missense_Mutation_p.A232T|KIAA0930_ENST00000443310.3_Missense_Mutation_p.A209T|KIAA0930_ENST00000391627.2_Missense_Mutation_p.A193T|MIR1249_ENST00000408671.1_RNA|KIAA0930_ENST00000474515.1_5'Flank	NM_001009880.1	NP_001009880.1	Q6ICG6	K0930_HUMAN	KIAA0930	227										endometrium(1)|kidney(4)|large_intestine(2)|lung(7)|urinary_tract(1)	15						ATCTTCTGTGCCATGCGGGCG	0.667																																																0													93	99	97					22																	45599044		2203	4300	6503	SO:0001583	missense	23313			AK025608	CCDS33665.1, CCDS33666.1	22q13.31	2011-02-23	2011-02-23	2011-02-23	ENSG00000100364	ENSG00000100364			1314	protein-coding gene	gene with protein product			"chromosome 22 open reading frame 9"	C22orf9		10231032	Standard	NM_015264		Approved	bK268H5.C22.1	uc003bfw.1	Q6ICG6	OTTHUMG00000151263	ENST00000336156.5:c.679G>A	22.37:g.45599044C>T	ENSP00000336720:p.Ala227Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B0QY17|B0QY19|B3KT48|Q6ZVE5|Q7Z6K9|Q8IZ76|Q9Y2E2	Missense_Mutation	SNP	ENST00000336156.5	37	CCDS33665.1	.	.	.	.	.	.	.	.	.	.	C	19.96	3.924082	0.73213	.	.	ENSG00000100364	ENST00000336156;ENST00000423262;ENST00000251993;ENST00000391627;ENST00000443310	.	.	.	4.88	3.85	0.44370	.	0.279975	0.39985	N	0.001216	T	0.54159	0.1841	L	0.49350	1.555	0.58432	D	0.999999	B;B;P;B	0.36990	0.089;0.294;0.577;0.437	B;B;B;B	0.38264	0.094;0.206;0.269;0.235	T	0.58885	-0.7557	9	0.62326	D	0.03	-31.0172	14.6102	0.68510	0.1469:0.8531:0.0:0.0	.	209;227;232;298	B0AZU2;Q6ICG6;Q6ICG6-2;Q8IUY4	.;K0930_HUMAN;.;.	T	227;112;232;193;209	.	ENSP00000251993:A232T	A	-	1	0	KIAA0930	43977708	1.000000	0.71417	0.993000	0.49108	0.986000	0.74619	7.226000	0.78060	1.052000	0.40392	0.555000	0.69702	GCA		0.667	KIAA0930-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321975.2	NM_001009880		T	45599044	C	T	45599044	3	4	696	1	0	0	0	0	1	0	0	0	2153	739	26	2	551	2	C22orf9	22	45599044	Missense_Mutation	SNP	C	TCGA-P4-A5E7-01A-31D-A28G-10	6532093	45599044	5705522	129	45582										
SLC6A14	11254	broad.mit.edu	37	chrX	115568961	115568961	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0310077519379845	4	1	0.708201438848921	2.72385168788046	0	0.0285714285714286	0.717346938775511	0	tattttttcttccccagaaaGtgtcggcttcatcagagaat	7	9	3	2			TCGA-P4-A5E7-01A-31D-A28G-10	TCGA-P4-A5E7-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4b75f116-8565-4b91-8bbe-c053a72fad8c	4106b575-287e-4493-8e74-2a72b1b94591	g.chrX:115568961G>C	ENST00000371900.4	+	2	140	c.52G>C	c.(52-54)Gtg>Ctg	p.V18L		NM_007231.3	NP_009162.1	Q9UN76	S6A14_HUMAN	solute carrier family 6 (amino acid transporter), member 14	18					amino acid transmembrane transport (GO:0003333)|amino acid transport (GO:0006865)|cellular amino acid metabolic process (GO:0006520)|ion transport (GO:0006811)|response to toxic substance (GO:0009636)|transmembrane transport (GO:0055085)|transport (GO:0006810)	brush border membrane (GO:0031526)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)	amino acid transmembrane transporter activity (GO:0015171)|neurotransmitter:sodium symporter activity (GO:0005328)			breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(8)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(1)	23					L-Proline(DB00172)|Valaciclovir(DB00577)|Valganciclovir(DB01610)	TCCCCAGAAAGTGTCGGCTTC	0.393																																																0													172	184	180					X																	115568961		2203	4300	6503	SO:0001583	missense	11254			AF151978	CCDS14570.1	Xq23	2013-05-22			ENSG00000087916	ENSG00000268104		"Solute carriers"	11047	protein-coding gene	gene with protein product		300444	"solute carrier family 6 (neurotransmitter transporter), member 14"			10446133	Standard	NM_007231		Approved		uc004eqi.3	Q9UN76	OTTHUMG00000022245	ENST00000371900.4:c.52G>C	X.37:g.115568961G>C	ENSP00000360967:p.Val18Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q5H942	Missense_Mutation	SNP	ENST00000371900.4	37	CCDS14570.1	.	.	.	.	.	.	.	.	.	.	G	13.04	2.117382	0.37339	.	.	ENSG00000087916	ENST00000371900	T	0.72725	-0.68	5.17	5.17	0.71159	.	0.572600	0.16156	N	0.227033	T	0.46600	0.1401	N	0.08118	0	0.28155	N	0.929232	B	0.12013	0.005	B	0.09377	0.004	T	0.16600	-1.0397	10	0.05620	T	0.96	.	12.6956	0.57001	0.0:0.0:1.0:0.0	.	18	Q9UN76	S6A14_HUMAN	L	18	ENSP00000360967:V18L	ENSP00000360967:V18L	V	+	1	0	SLC6A14	115482989	0.995000	0.38212	0.976000	0.42696	0.957000	0.61999	2.073000	0.41519	2.393000	0.81446	0.544000	0.68410	GTG		0.393	SLC6A14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057986.1			C	115568961	G	C	115568961	3	2	696	1	0	0	0	0	1	0	0	0	14690	1029	36	4	58	4	SLC6A14	23	115568961	Missense_Mutation	SNP	G	TCGA-P4-A5E7-01A-31D-A28G-10		115568961	39701599	130	45583										
EIF4G3	8672	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	21133827	21133829	+	In_Frame_Del	DEL	CTC	CTC	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	aagttttagttatcctcagaCtcctcttctgcttcccgcag							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr1:21133827_21133829delCTC	ENST00000264211.8	-	31	4935_4937	c.4741_4743delGAG	c.(4741-4743)gagdel	p.E1581del	EIF4G3_ENST00000374935.3_In_Frame_Del_p.E1301del|EIF4G3_ENST00000536266.1_In_Frame_Del_p.E1185del|EIF4G3_ENST00000602326.1_In_Frame_Del_p.E1587del|EIF4G3_ENST00000374937.3_In_Frame_Del_p.E1587del|EIF4G3_ENST00000400422.1_In_Frame_Del_p.E1581del|EIF4G3_ENST00000537738.1_In_Frame_Del_p.E1071del	NM_003760.4	NP_003751.2	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4 gamma, 3	1581	EIF4A-binding. {ECO:0000250}.|Necessary but not sufficient for MKNK1- binding. {ECO:0000250}.|W2. {ECO:0000255|PROSITE- ProRule:PRU00695}.				cytokine-mediated signaling pathway (GO:0019221)|positive regulation of meiosis I (GO:0060903)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of translation (GO:0045727)|regulation of translational initiation (GO:0006446)|spermatogenesis (GO:0007283)|viral process (GO:0016032)	cytosol (GO:0005829)|eukaryotic translation initiation factor 4F complex (GO:0016281)	poly(A) RNA binding (GO:0044822)|RNA cap binding (GO:0000339)|translation factor activity, nucleic acid binding (GO:0008135)|translation initiation factor activity (GO:0003743)			endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(18)|lung(20)|ovary(1)|prostate(4)|skin(3)|stomach(1)|urinary_tract(3)	70		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		TATCCTCAGACTCCTCTTCTGCT	0.438																																																0																																										SO:0001651	inframe_deletion	8672			AF012072	CCDS214.1, CCDS55580.1, CCDS59192.1, CCDS72723.1	1p36.12	2008-02-05			ENSG00000075151	ENSG00000075151			3298	protein-coding gene	gene with protein product		603929				9418880	Standard	NM_001198801		Approved	eIF4GII	uc001bef.3	O43432	OTTHUMG00000002624	ENST00000264211.8:c.4741_4743delGAG	1.37:g.21133830_21133832delCTC	ENSP00000264211:p.Glu1581del	Somatic		WXS	Illumina HiSeq	Phase_I	B9EGQ7|Q15597|Q504Z1|Q5SWC3|Q8NEN1	In_Frame_Del	DEL	ENST00000264211.8	37	CCDS214.1																																																																																				0.438	EIF4G3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000007467.3	NM_003760		-	21133829	CTC	-	21133827	7	5	697	1	0	1	0	1	0	0	0	0	5040	564	20	0	18	0	EIF4G3	1	21133827	In_Frame_Del	DEL	CTC	TCGA-P4-A5E8-01A-11D-A28G-10		21133827	228116794	1	45584										
MSH4	4438	hgsc.bcm.edu	37	chr1	76346925	76346930	+	Splice_Site	DEL	TTTCAG	TTTCAG	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	acatgtcttaccaaacgtgtTttcaggatagtgtgcaaact							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	TTTCAG	TTTCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr1:76346925_76346930delTTTCAG	ENST00000263187.3	+	14	1885		c.e14-1			NM_002440.3	NP_002431.2	O15457	MSH4_HUMAN	mutS homolog 4						ATP catabolic process (GO:0006200)|chiasma assembly (GO:0051026)|female gamete generation (GO:0007292)|homologous chromosome segregation (GO:0045143)|mismatch repair (GO:0006298)|ovarian follicle development (GO:0001541)|reciprocal meiotic recombination (GO:0007131)|spermatogenesis (GO:0007283)	nucleus (GO:0005634)|synaptonemal complex (GO:0000795)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA-dependent ATPase activity (GO:0008094)|mismatched DNA binding (GO:0030983)			breast(1)|endometrium(2)|kidney(4)|large_intestine(9)|lung(26)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	47						CCAAACGTGTTTTCAGGATAGTGTGC	0.301								Mismatch excision repair (MMR)																																								0																																										SO:0001630	splice_region_variant	4438			U89293	CCDS670.1	1p31	2013-09-12	2013-09-12		ENSG00000057468	ENSG00000057468			7327	protein-coding gene	gene with protein product		602105	"mutS (E. coli) homolog 4", "mutS homolog 4 (E. coli)"			9299235	Standard	NM_002440		Approved		uc001dhd.2	O15457	OTTHUMG00000009788	ENST00000263187.3:c.1782-1TTTCAG>-	1.37:g.76346925_76346930delTTTCAG		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T4U6|Q8NEB3|Q9UNP8	Splice_Site	DEL	ENST00000263187.3	37	CCDS670.1																																																																																				0.301	MSH4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026983.1	NM_002440	Intron	-	76346930	TTTCAG	-	76346925	8	5	697	1	0	1	0	1	0	0	1	0	9879	1856	64	0		0	MSH4	1	76346925	Splice_Site	DEL	TTTCAG	TCGA-P4-A5E8-01A-11D-A28G-10	55213098	76346925	172903696	2	45585	497	2								
MSH4	4438	bcgsc.ca	37	chr1	76346930	76346930	+	Splice_Site	DEL	G	G	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	tcttaccaaacgtgttttcaGgatagtgtgcaaactgctta							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr1:76346930delG	ENST00000263187.3	+	14	1885		c.e14-1			NM_002440.3	NP_002431.2	O15457	MSH4_HUMAN	mutS homolog 4						ATP catabolic process (GO:0006200)|chiasma assembly (GO:0051026)|female gamete generation (GO:0007292)|homologous chromosome segregation (GO:0045143)|mismatch repair (GO:0006298)|ovarian follicle development (GO:0001541)|reciprocal meiotic recombination (GO:0007131)|spermatogenesis (GO:0007283)	nucleus (GO:0005634)|synaptonemal complex (GO:0000795)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA-dependent ATPase activity (GO:0008094)|mismatched DNA binding (GO:0030983)			breast(1)|endometrium(2)|kidney(4)|large_intestine(9)|lung(26)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	47						CGTGTTTTCAGGATAGTGTGC	0.303								Mismatch excision repair (MMR)																																								0													142	130	134					1																	76346930		2203	4299	6502	SO:0001630	splice_region_variant	4438			U89293	CCDS670.1	1p31	2013-09-12	2013-09-12		ENSG00000057468	ENSG00000057468			7327	protein-coding gene	gene with protein product		602105	"mutS (E. coli) homolog 4", "mutS homolog 4 (E. coli)"			9299235	Standard	NM_002440		Approved		uc001dhd.2	O15457	OTTHUMG00000009788	ENST00000263187.3:c.1782-1G>-	1.37:g.76346930delG		Somatic		WXS	Illumina HiSeq	Phase_1	Q5T4U6|Q8NEB3|Q9UNP8	Splice_Site	DEL	ENST00000263187.3	37	CCDS670.1																																																																																				0.303	MSH4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026983.1	NM_002440	Intron	-	76346930	G	-	76346930	8	5	697	1	0	1	0	1	0	0	1	0	9879	1014	35	0	1835	0	MSH4	1	76346930	Splice_Site	DEL	G	TCGA-P4-A5E8-01A-11D-A28G-10	5	76346930	172903691	3	45586	497	2								
LYSMD1	388695	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	151134570	151134570	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gcggtttgcacgtttaatctGttccatcttaaaaaaaaaag	7	7	2	0			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr1:151134570G>T	ENST00000368908.5	-	2	847	c.187C>A	c.(187-189)Cag>Aag	p.Q63K	LYSMD1_ENST00000440902.2_Missense_Mutation_p.Q15K	NM_212551.4	NP_997716.1	Q96S90	LYSM1_HUMAN	LysM, putative peptidoglycan-binding, domain containing 1	63										endometrium(2)|large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)	7	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)			CGTTTAATCTGTTCCATCTTA	0.378																																																0													50	51	51					1																	151134570		2203	4300	6503	SO:0001583	missense	388695			BX647911	CCDS986.1, CCDS44218.1	1q21.2	2008-02-05			ENSG00000163155	ENSG00000163155			32070	protein-coding gene	gene with protein product						12477932	Standard	NM_212551		Approved	SB145, MGC35223, RP11-68I18.5	uc001ewy.3	Q96S90	OTTHUMG00000012260	ENST00000368908.5:c.187C>A	1.37:g.151134570G>T	ENSP00000357904:p.Gln63Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DQA1|Q69YX9	Missense_Mutation	SNP	ENST00000368908.5	37	CCDS986.1	.	.	.	.	.	.	.	.	.	.	G	18.50	3.637942	0.67130	.	.	ENSG00000163155	ENST00000368908;ENST00000440902	T;T	0.40225	1.12;1.04	5.66	4.73	0.59995	Peptidoglycan-binding Lysin subgroup (1);Peptidoglycan-binding lysin domain (1);	0.000000	0.85682	D	0.000000	T	0.20210	0.0486	L	0.33189	0.99	0.49915	D	0.99983	P;B	0.41450	0.75;0.235	B;B	0.36766	0.232;0.103	T	0.07520	-1.0768	10	0.87932	D	0	-2.7477	14.7732	0.69696	0.0:0.0:0.8542:0.1457	.	15;63	Q96S90-2;Q96S90	.;LYSM1_HUMAN	K	63;15	ENSP00000357904:Q63K;ENSP00000404059:Q15K	ENSP00000357904:Q63K	Q	-	1	0	LYSMD1	149401194	1.000000	0.71417	1.000000	0.80357	0.969000	0.65631	9.056000	0.93881	1.345000	0.45676	0.467000	0.42956	CAG		0.378	LYSMD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034070.3	NM_212551		T	151134570	G	T	151134570	3	4	697	1	0	0	0	0	1	0	0	0	9131	1386	48	4	504	4	LYSMD1	1	151134570	Missense_Mutation	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10	74787640	151134570	98116051	4	45587										
SHC1	6464	broad.mit.edu	37	chr1	154938022	154938022	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	acctctgccacactcaccacAccctcagggtccaccagtag	6	19	3	0			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr1:154938022A>C	ENST00000368445.5	-	11	1834	c.1620T>G	c.(1618-1620)ggT>ggG	p.G540G	SHC1_ENST00000368450.1_Silent_p.G430G|SHC1_ENST00000448116.2_Silent_p.G541G|SHC1_ENST00000368453.4_Silent_p.G431G|SHC1_ENST00000368449.4_Silent_p.G311G|SHC1_ENST00000490667.1_Intron|PYGO2_ENST00000483463.1_5'Flank|RP11-307C12.12_ENST00000605085.1_RNA|SHC1_ENST00000606391.1_Silent_p.G341G	NM_183001.4	NP_892113.4	P29353	SHC1_HUMAN	SHC (Src homology 2 domain containing) transforming protein 1	540	SH2. {ECO:0000255|PROSITE- ProRule:PRU00191}.				actin cytoskeleton reorganization (GO:0031532)|activation of MAPK activity (GO:0000187)|activation of signaling protein activity involved in unfolded protein response (GO:0006987)|angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|cellular protein metabolic process (GO:0044267)|endoplasmic reticulum unfolded protein response (GO:0030968)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|heart development (GO:0007507)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|leukocyte migration (GO:0050900)|MAPK cascade (GO:0000165)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-tyrosine phosphorylation (GO:0018108)|platelet activation (GO:0030168)|positive regulation of cell proliferation (GO:0008284)|positive regulation of DNA replication (GO:0045740)|Ras protein signal transduction (GO:0007265)|regulation of epidermal growth factor-activated receptor activity (GO:0007176)|regulation of growth (GO:0040008)|single organismal cell-cell adhesion (GO:0016337)	cytosol (GO:0005829)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|Shc-EGFR complex (GO:0070435)	ephrin receptor binding (GO:0046875)|epidermal growth factor receptor binding (GO:0005154)|insulin receptor binding (GO:0005158)|insulin-like growth factor receptor binding (GO:0005159)|neurotrophin TRKA receptor binding (GO:0005168)|phospholipid binding (GO:0005543)|protein tyrosine kinase activity (GO:0004713)|transmembrane receptor protein tyrosine kinase adaptor activity (GO:0005068)			breast(1)|endometrium(5)|kidney(2)|large_intestine(2)|lung(8)|prostate(1)|skin(1)	20	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CACTCACCACACCCTCAGGGT	0.547																																					NSCLC(4;32 234 1864 2492 3259 13747 17376)											0													144	132	136					1																	154938022		2203	4300	6503	SO:0001819	synonymous_variant	6464			U73377	CCDS1076.1, CCDS30881.1, CCDS44233.1, CCDS44234.1	1q21	2013-02-14	2002-01-14		ENSG00000160691	ENSG00000160691		"SH2 domain containing"	10840	protein-coding gene	gene with protein product		600560	"SHC (Src homology 2 domain-containing) transforming protein 1"	SHC		1623525	Standard	NM_003029		Approved	p66	uc001ffw.3	P29353	OTTHUMG00000037295	ENST00000368445.5:c.1620T>G	1.37:g.154938022A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B5BU19|D3DV78|O15290|Q5T180|Q5T183|Q5T184|Q5T185|Q5T186|Q8N4K5|Q96CL1	Silent	SNP	ENST00000368445.5	37	CCDS30881.1	.	.	.	.	.	.	.	.	.	.	A	9.344	1.063853	0.20067	.	.	ENSG00000160691	ENST00000444664	.	.	.	4.76	1.06	0.20224	.	.	.	.	.	T	0.29190	0.0726	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.14755	-1.0461	4	.	.	.	.	3.707	0.08404	0.4984:0.0:0.2612:0.2404	.	.	.	.	G	204	.	.	C	-	1	0	SHC1	153204646	0.687000	0.27671	1.000000	0.80357	0.994000	0.84299	-0.117000	0.10708	0.324000	0.23333	0.455000	0.32223	TGT		0.547	SHC1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000090781.2	NM_183001		C	154938022	A	C	154938022	2	2	697	1	0	0	0	0	0	0	0	1	14283	146	6	5		5	SHC1	1	154938022	Silent	SNP	A	TCGA-P4-A5E8-01A-11D-A28G-10	3803452	154938022	94312599	5	45588										
TOR1AIP2	163590	hgsc.bcm.edu;broad.mit.edu	37	chr1	179815212	179815212	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	ctctgtgcttagctttagaaAaggcacccctgttcttctat	7	11	3	1			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr1:179815212A>C	ENST00000367612.3	-	6	1794	c.1407T>G	c.(1405-1407)ctT>ctG	p.L469L	TOR1AIP2_ENST00000609928.1_Silent_p.L469L	NM_145034.4	NP_659471.1	Q9H496	IFG15_HUMAN	torsin A interacting protein 2	0										cervix(1)|endometrium(3)|large_intestine(1)|lung(10)|ovary(1)|skin(2)	18						AGCTTTAGAAAAGGCACCCCT	0.423																																																0													90	88	89					1																	179815212		2203	4300	6503	SO:0001819	synonymous_variant	163590				CCDS1334.1	1q25.2	2012-02-09			ENSG00000169905	ENSG00000169905			24055	protein-coding gene	gene with protein product		614513				15767459	Standard	NM_145034		Approved	LULL1, NET9, IFRG15	uc001gnk.3	Q8NFQ8	OTTHUMG00000035265	ENST00000367612.3:c.1407T>G	1.37:g.179815212A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q05BU2	Silent	SNP	ENST00000367612.3	37	CCDS1334.1																																																																																				0.423	TOR1AIP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085304.1	NM_145034		C	179815212	A	C	179815212	2	2	697	1	0	0	0	0	0	0	0	1	16385	1	1	5		5	TOR1AIP2	1	179815212	Silent	SNP	A	TCGA-P4-A5E8-01A-11D-A28G-10	24877190	179815212	69435409	6	45589										
GPR37L1	9283	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	202097307	202097311	+	Frame_Shift_Del	DEL	CTCAA	CTCAA	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	acgagcagtgtgagagccagCtcaacagcaccgtggtgggc					rs76841249	byFrequency	TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	CTCAA	CTCAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr1:202097307_202097311delCTCAA	ENST00000367282.5	+	2	1175_1179	c.1069_1073delCTCAA	c.(1069-1074)ctcaacfs	p.LN357fs		NM_004767.3	NP_004758.3	O60883	ETBR2_HUMAN	G protein-coupled receptor 37 like 1	357					negative regulation of astrocyte differentiation (GO:0048712)|negative regulation of neuron differentiation (GO:0045665)|negative regulation of smoothened signaling pathway (GO:0045879)|positive regulation of cerebellar granule cell precursor proliferation (GO:0021940)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	G-protein coupled receptor activity (GO:0004930)			central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(5)|ovary(1)|prostate(2)	18						TGAGAGCCAGCTCAACAGCACCGTG	0.639																																																0																																										SO:0001589	frameshift_variant	9283			AJ310210	CCDS1420.1	1q32	2012-08-21	2006-02-15		ENSG00000170075	ENSG00000170075		"GPCR / Class A : Orphans"	14923	protein-coding gene	gene with protein product						9539149	Standard	NM_004767		Approved	ETBR-LP-2	uc001gxj.3	O60883	OTTHUMG00000035924	ENST00000367282.5:c.1069_1073delCTCAA	1.37:g.202097307_202097311delCTCAA	ENSP00000356251:p.Leu357fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7M9|Q5SXP7|Q86VP7	Frame_Shift_Del	DEL	ENST00000367282.5	37	CCDS1420.1																																																																																				0.639	GPR37L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000087496.2	NM_004767		-	202097311	CTCAA	-	202097307	7	5	697	1	0	1	0	1	0	0	0	0	6699	797	28	0	1075	0	GPR37L1	1	202097307	Frame_Shift_Del	DEL	CTCAA	TCGA-P4-A5E8-01A-11D-A28G-10	22282095	202097307	47153314	7	45590										
THUMPD2	80745	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	39964198	39964199	+	Splice_Site	DEL	CT	CT	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	ggttccgccaacatgaagcaCtctgtgacaaaaaaaaaatg							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr2:39964198_39964199delCT	ENST00000505747.1	-	10	1215_1216	c.1188_1189delAG	c.(1186-1191)agagtg>agtg	p.RV396fs	THUMPD2_ENST00000260619.6_Splice_Site_p.RV366fs	NM_025264.4	NP_079540.2	Q9BTF0	THUM2_HUMAN	THUMP domain containing 2	396							methyltransferase activity (GO:0008168)|RNA binding (GO:0003723)			endometrium(2)|kidney(1)|large_intestine(3)|lung(10)|skin(1)	17		all_hematologic(82;0.248)				ACATGAAGCACTCTGTGACAAA	0.356																																																0																																										SO:0001630	splice_region_variant	80745			AF380576	CCDS1805.1, CCDS1805.2	2p22.2	2004-06-04	2004-06-04	2004-06-04	ENSG00000138050	ENSG00000138050			14890	protein-coding gene	gene with protein product		611751	"chromosome 2 open reading frame 8"	C2orf8		12063391	Standard	NM_025264		Approved	MGC2454	uc002rru.2	Q9BTF0	OTTHUMG00000102149	ENST00000505747.1:c.1188-1AG>-	2.37:g.39964200_39964201delCT		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7I7|Q53TT8|Q53TV0	Frame_Shift_Del	DEL	ENST00000505747.1	37	CCDS1805.2																																																																																				0.356	THUMPD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219991.2	NM_025264	Frame_Shift_Del	-	39964199	CT	-	39964198	8	5	697	1	0	1	0	1	0	0	1	0	15895	579	20	0	326	0	THUMPD2	2	39964198	Splice_Site	DEL	CT	TCGA-P4-A5E8-01A-11D-A28G-10		39964198	203235175	8	45591	498	2								
THUMPD2	80745	hgsc.bcm.edu	37	chr2	39964200	39964200	+	Splice_Site	SNP	C	C	G													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	ttccgccaacatgaagcactCtgtgacaaaaaaaaaatggt							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr2:39964200C>G	ENST00000505747.1	-	10	1215		c.e10-1		THUMPD2_ENST00000260619.6_Splice_Site	NM_025264.4	NP_079540.2	Q9BTF0	THUM2_HUMAN	THUMP domain containing 2								methyltransferase activity (GO:0008168)|RNA binding (GO:0003723)			endometrium(2)|kidney(1)|large_intestine(3)|lung(10)|skin(1)	17		all_hematologic(82;0.248)				ATGAAGCACTCTGTGACAAAA	0.353																																																0													66	62	63					2																	39964200		2203	4300	6503	SO:0001630	splice_region_variant	80745			AF380576	CCDS1805.1, CCDS1805.2	2p22.2	2004-06-04	2004-06-04	2004-06-04	ENSG00000138050	ENSG00000138050			14890	protein-coding gene	gene with protein product		611751	"chromosome 2 open reading frame 8"	C2orf8		12063391	Standard	NM_025264		Approved	MGC2454	uc002rru.2	Q9BTF0	OTTHUMG00000102149	ENST00000505747.1:c.1188-1G>C	2.37:g.39964200C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7I7|Q53TT8|Q53TV0	Splice_Site	SNP	ENST00000505747.1	37	CCDS1805.2	.	.	.	.	.	.	.	.	.	.	C	15.08	2.726690	0.48833	.	.	ENSG00000138050	ENST00000505747;ENST00000260619	.	.	.	5.64	5.64	0.86602	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.2156	0.73264	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	THUMPD2	39817704	1.000000	0.71417	1.000000	0.80357	0.548000	0.35241	4.572000	0.60886	2.664000	0.90586	0.655000	0.94253	.		0.353	THUMPD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000219991.2	NM_025264	Intron	G	39964200	C	G	39964200	5	3	697	1	0	0	0	0	0	0	1	0	15895	927	32	4	328	4	THUMPD2	2	39964200	Splice_Site	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10	2	39964200	203235173	9	45592	498	2								
PPM1B	5495	broad.mit.edu	37	chr2	44429130	44429130	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gttaaatctaggcttgaggtAtctgatgacctggaaaatgt	11	5	2	3			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr2:44429130A>G	ENST00000282412.4	+	2	1204	c.792A>G	c.(790-792)gtA>gtG	p.V264V	PPM1B_ENST00000378551.2_Silent_p.V264V|PPM1B_ENST00000409895.4_Silent_p.V264V|PPM1B_ENST00000345249.4_Intron|PPM1B_ENST00000409432.3_Silent_p.V264V|PPM1B_ENST00000378540.4_3'UTR	NM_002706.4	NP_002697.1	O75688	PPM1B_HUMAN	protein phosphatase, Mg2+/Mn2+ dependent, 1B	264					cytokine-mediated signaling pathway (GO:0019221)|N-terminal protein myristoylation (GO:0006499)|negative regulation of defense response to virus (GO:0050687)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of interferon-beta production (GO:0032688)|negative regulation of NF-kappaB import into nucleus (GO:0042347)|peptidyl-threonine dephosphorylation (GO:0035970)|protein dephosphorylation (GO:0006470)	cytosol (GO:0005829)|membrane (GO:0016020)	magnesium ion binding (GO:0000287)|manganese ion binding (GO:0030145)|protein serine/threonine phosphatase activity (GO:0004722)			kidney(4)|large_intestine(3)|lung(7)|skin(2)	16		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GGCTTGAGGTATCTGATGACC	0.358																																																0													110	107	108					2																	44429130		2203	4300	6503	SO:0001819	synonymous_variant	5495			AJ005801	CCDS1816.1, CCDS1817.1, CCDS1818.1, CCDS46271.1	2p22.1	2012-04-17	2010-03-05		ENSG00000138032	ENSG00000138032	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatases, Mg2+/Mn2+ dependent"	9276	protein-coding gene	gene with protein product	"protein phosphatase 2C, beta isoform"	603770	"protein phosphatase 1B (formerly 2C), magnesium-dependent, beta isoform"			9684878	Standard	NM_002706		Approved	PPC2BETAX, PP2CB, PP2CBETA	uc002rtt.3	O75688	OTTHUMG00000128757	ENST00000282412.4:c.792A>G	2.37:g.44429130A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q461Q2|Q4J6C1|Q4J6C2|Q658R4|Q96ER6|Q9HAY8	Silent	SNP	ENST00000282412.4	37	CCDS1817.1																																																																																				0.358	PPM1B-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000250672.1	NM_002706		G	44429130	A	G	44429130	2	3	697	1	0	0	0	0	0	0	0	1	12346	436	16	3		3	PPM1B	2	44429130	Silent	SNP	A	TCGA-P4-A5E8-01A-11D-A28G-10	4464930	44429130	198770243	10	45593										
TEKT4	150483	broad.mit.edu	37	chr2	95539829	95539830	+	Frame_Shift_Ins	INS	-	-	G													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	accgaggtgcaggctcatccINSgtactccaccaccttccaag					rs149873671		TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr2:95539829_95539830insG	ENST00000295201.4	+	3	826_827	c.689_690insG	c.(688-693)ccgtacfs	p.Y231fs	AC097374.2_ENST00000568768.1_RNA	NM_144705.2	NP_653306.1	Q8WW24	TEKT4_HUMAN	tektin 4	231					cell projection organization (GO:0030030)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|motile cilium (GO:0031514)|nucleus (GO:0005634)		p.P230P(1)		NS(1)|breast(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(15)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	28						CAGGCTCATCCGTACTCCACCA	0.663																																																1	Substitution - coding silent(1)	lung(1)																																								SO:0001589	frameshift_variant	150483			AK097438	CCDS2005.1	2q11.2	2008-02-05			ENSG00000163060	ENSG00000163060			31012	protein-coding gene	gene with protein product							Standard	XM_005263876		Approved	MGC27019	uc002stw.1	Q8WW24	OTTHUMG00000130396	ENST00000295201.4:c.690dupG	2.37:g.95539830_95539830dupG	ENSP00000295201:p.Tyr231fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000295201.4	37	CCDS2005.1																																																																																				0.663	TEKT4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252777.1	NM_144705		G	95539830	-	G	95539829	7	5	697	1	0	1	1	0	0	0	0	0	15767	652	23	0	699	0	TEKT4	2	95539829	Frame_Shift_Ins	INS	-	TCGA-P4-A5E8-01A-11D-A28G-10	51110699	95539829	147659544	11	45594										
TSGA10	80705	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	99634687	99634687	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	ctaatgatcgatctaggcctCggtcaggagatcgatggtga	13	8	2	3			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr2:99634687C>T	ENST00000393483.3	-	20	2892	c.2048G>A	c.(2047-2049)cGa>cAa	p.R683Q	TSGA10_ENST00000539964.1_Missense_Mutation_p.R683Q|TSGA10_ENST00000355053.4_Missense_Mutation_p.R683Q|TSGA10_ENST00000410001.1_Missense_Mutation_p.R683Q	NM_025244.2	NP_079520.1	Q9BZW7	TSG10_HUMAN	testis specific, 10	683	Interaction with HIF1A. {ECO:0000250}.				cell projection assembly (GO:0030031)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|membrane (GO:0016020)|motile cilium (GO:0031514)|neuron projection (GO:0043005)|nucleus (GO:0005634)				NS(2)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(8)|lung(10)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	34						ATCTAGGCCTCGGTCAGGAGA	0.383																																																0													115	109	111					2																	99634687		2203	4300	6503	SO:0001583	missense	80705			AF254756	CCDS2037.1	2q11.2	2009-08-06			ENSG00000135951	ENSG00000135951			14927	protein-coding gene	gene with protein product	"cancer/testis antigen 79"	607166				11179690	Standard	NM_025244		Approved	CEP4L, CT79	uc002szi.4	Q9BZW7	OTTHUMG00000130637	ENST00000393483.3:c.2048G>A	2.37:g.99634687C>T	ENSP00000377123:p.Arg683Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z925|D3DVH7|Q8NEP0|Q9BWX0	Missense_Mutation	SNP	ENST00000393483.3	37	CCDS2037.1	.	.	.	.	.	.	.	.	.	.	C	25.1	4.604396	0.87157	.	.	ENSG00000135951	ENST00000393483;ENST00000410001;ENST00000355053;ENST00000539964;ENST00000409564;ENST00000393482	T;T;T;T;T;T	0.54071	0.66;0.66;0.66;0.66;0.59;0.72	5.04	4.16	0.48862	.	0.368291	0.23162	N	0.051240	T	0.39384	0.1076	L	0.27053	0.805	0.80722	D	1	B	0.18461	0.028	B	0.10450	0.005	T	0.21827	-1.0234	10	0.39692	T	0.17	-2.5563	12.49	0.55895	0.0:0.9177:0.0:0.0823	.	683	Q9BZW7	TSG10_HUMAN	Q	683;683;683;683;613;683	ENSP00000377123:R683Q;ENSP00000386956:R683Q;ENSP00000347161:R683Q;ENSP00000444419:R683Q;ENSP00000386508:R613Q;ENSP00000377122:R683Q	ENSP00000347161:R683Q	R	-	2	0	TSGA10	99001119	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.166000	0.64965	1.472000	0.48140	0.655000	0.94253	CGA		0.383	TSGA10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253125.1	NM_182911		T	99634687	C	T	99634687	3	4	697	1	0	0	0	0	1	0	0	0	16629	884	31	1	56	1	TSGA10	2	99634687	Missense_Mutation	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10	4094858	99634687	143564686	12	45595										
EPC2	26122	broad.mit.edu;bcgsc.ca	37	chr2	149519453	149519453	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	tgattaagagaagagagaaaAcaaaacgagaattattgcac	9	4	0	5			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr2:149519453A>T	ENST00000258484.6	+	5	803	c.769A>T	c.(769-771)Aca>Tca	p.T257S		NM_015630.3	NP_056445.3	Q52LR7	EPC2_HUMAN	enhancer of polycomb homolog 2 (Drosophila)	257					chromatin modification (GO:0016568)|DNA repair (GO:0006281)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	Piccolo NuA4 histone acetyltransferase complex (GO:0032777)				breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(5)|ovary(1)|pancreas(1)|prostate(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.0516)		AAGAGAGAAAACAAAACGAGA	0.343																																																0													79	73	75					2																	149519453		1825	4078	5903	SO:0001583	missense	26122			AF286904	CCDS46422.1	2q23	2008-02-05			ENSG00000135999	ENSG00000135999			24543	protein-coding gene	gene with protein product		611000					Standard	NM_015630		Approved	DKFZP566F2124	uc010zbt.2	Q52LR7	OTTHUMG00000153739	ENST00000258484.6:c.769A>T	2.37:g.149519453A>T	ENSP00000258484:p.Thr257Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWT7|D3DP89|Q7L9J1|Q96RR7|Q9NUT8|Q9NVR1|Q9UFM9	Missense_Mutation	SNP	ENST00000258484.6	37	CCDS46422.1	.	.	.	.	.	.	.	.	.	.	A	8.123	0.781269	0.16120	.	.	ENSG00000135999	ENST00000258484	.	.	.	5.6	5.6	0.85130	.	0.115719	0.56097	D	0.000030	T	0.27313	0.0670	N	0.03084	-0.415	0.80722	D	1	B	0.19073	0.033	B	0.10450	0.005	T	0.25641	-1.0126	9	0.02654	T	1	-4.0144	15.7881	0.78326	1.0:0.0:0.0:0.0	.	257	Q52LR7	EPC2_HUMAN	S	257	.	ENSP00000258484:T257S	T	+	1	0	EPC2	149235923	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	4.309000	0.59135	2.137000	0.66172	0.482000	0.46254	ACA		0.343	EPC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000332278.1	NM_015630		T	149519453	A	T	149519453	3	4	697	1	0	0	0	0	1	0	0	0	5163	43	2	5	787	5	EPC2	2	149519453	Missense_Mutation	SNP	A	TCGA-P4-A5E8-01A-11D-A28G-10	49884766	149519453	93679920	13	45596										
HOXD10	3236	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	176981597	176981599	+	In_Frame_Del	DEL	TTT	TTT	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	agctctcctgctgctaatacTtttttagtagattccttgat							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	TTT	TTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr2:176981597_176981599delTTT	ENST00000249501.4	+	1	291_293	c.36_38delTTT	c.(34-39)actttt>act	p.F13del	HOXD10_ENST00000490088.2_Intron	NM_002148.3	NP_002139.2	P28358	HXD10_HUMAN	homeobox D10	13					adult locomotory behavior (GO:0008344)|anterior/posterior pattern specification (GO:0009952)|embryonic limb morphogenesis (GO:0030326)|embryonic skeletal system morphogenesis (GO:0048704)|forelimb morphogenesis (GO:0035136)|hindlimb morphogenesis (GO:0035137)|neuromuscular process (GO:0050905)|peripheral nervous system neuron development (GO:0048935)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|proximal/distal pattern formation (GO:0009954)|single fertilization (GO:0007338)|skeletal muscle tissue development (GO:0007519)|spinal cord motor neuron cell fate specification (GO:0021520)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(2)|kidney(1)|large_intestine(2)|lung(8)|ovary(3)|upper_aerodigestive_tract(1)	17			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		CTGCTAATACTTTTTTAGTAGAT	0.453																																																0																																										SO:0001651	inframe_deletion	3236				CCDS2266.1	2q31.1	2014-09-17	2005-12-22		ENSG00000128710	ENSG00000128710		"Homeoboxes / ANTP class : HOXL subclass"	5133	protein-coding gene	gene with protein product		142984	"homeo box D10"	HOX4, HOX4D		1973146, 1358459	Standard	NM_002148		Approved		uc002ukj.3	P28358	OTTHUMG00000132511	ENST00000249501.4:c.36_38delTTT	2.37:g.176981600_176981602delTTT	ENSP00000249501:p.Phe13del	Somatic		WXS	Illumina HiSeq	Phase_I	Q6NT10	In_Frame_Del	DEL	ENST00000249501.4	37	CCDS2266.1																																																																																				0.453	HOXD10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255692.2			-	176981599	TTT	-	176981597	7	5	697	1	0	1	0	1	0	0	0	0	7326	1596	56	0	38	0	HOXD10	2	176981597	In_Frame_Del	DEL	TTT	TCGA-P4-A5E8-01A-11D-A28G-10	27462144	176981597	66217776	14	45597										
GLS	2744	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	191788697	191788701	+	Frame_Shift_Del	DEL	AAAAG	AAAAG	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	tttgcaataggatattacttAaaagaaaagaaggtttttaa							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	AAAAG	AAAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr2:191788697_191788701delAAAAG	ENST00000320717.3	+	10	1443_1447	c.1185_1189delAAAAG	c.(1183-1191)ttaaaagaafs	p.KE396fs	GLS_ENST00000338435.4_Frame_Shift_Del_p.KE396fs	NM_014905.4	NP_055720.3	O94925	GLSK_HUMAN	glutaminase	396					cellular amino acid biosynthetic process (GO:0008652)|cellular nitrogen compound metabolic process (GO:0034641)|glutamate biosynthetic process (GO:0006537)|glutamate secretion (GO:0014047)|glutamine catabolic process (GO:0006543)|neurotransmitter secretion (GO:0007269)|protein homotetramerization (GO:0051289)|regulation of respiratory gaseous exchange by neurological system process (GO:0002087)|small molecule metabolic process (GO:0044281)|suckling behavior (GO:0001967)|synaptic transmission (GO:0007268)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	glutaminase activity (GO:0004359)			breast(1)|cervix(1)|endometrium(1)|kidney(1)|lung(9)|ovary(1)|skin(1)|urinary_tract(1)	16			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamine(DB00130)	GATATTACTTAAAAGAAAAGAAGGT	0.259																																																0																																										SO:0001589	frameshift_variant	2744			AB020645	CCDS2308.1, CCDS58744.1	2q32-q34	2013-01-10			ENSG00000115419	ENSG00000115419	3.5.1.2	"Ankyrin repeat domain containing"	4331	protein-coding gene	gene with protein product		138280				10048485	Standard	NM_014905		Approved	KIAA0838, GLS1	uc002usf.3	O94925	OTTHUMG00000132701	ENST00000320717.3:c.1185_1189delAAAAG	2.37:g.191788702_191788706delAAAAG	ENSP00000317379:p.Lys396fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UL05|Q9UL06|Q9UL07|Q9UN40	Frame_Shift_Del	DEL	ENST00000320717.3	37	CCDS2308.1																																																																																				0.259	GLS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255999.2			-	191788701	AAAAG	-	191788697	7	5	697	1	0	1	0	1	0	0	0	0	6470	359	13	0	1223	0	GLS	2	191788697	Frame_Shift_Del	DEL	AAAAG	TCGA-P4-A5E8-01A-11D-A28G-10	14807100	191788697	51410676	15	45598										
BBS12	166379	ucsc.edu	37	chr4	123664664	123664664	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gaaaaggtcttccttggaggTggtgcagttgaatttttgtg	14	4	1	1			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr4:123664664T>C	ENST00000314218.3	+	2	1810	c.1617T>C	c.(1615-1617)ggT>ggC	p.G539G	BBS12_ENST00000542236.1_Silent_p.G539G	NM_152618.2	NP_689831.2	Q6ZW61	BBS12_HUMAN	Bardet-Biedl syndrome 12	539			G -> D (in BBS12). {ECO:0000269|PubMed:21344540}.		cellular protein metabolic process (GO:0044267)|chaperone-mediated protein complex assembly (GO:0051131)|eating behavior (GO:0042755)|intraciliary transport (GO:0042073)|negative regulation of fat cell differentiation (GO:0045599)|photoreceptor cell maintenance (GO:0045494)	cilium (GO:0005929)	ATP binding (GO:0005524)			cervix(1)|endometrium(1)|kidney(2)|large_intestine(5)|lung(6)|ovary(2)|prostate(4)	21						TCCTTGGAGGTGGTGCAGTTG	0.413									Bardet-Biedl syndrome																																							0													159	158	158					4																	123664664		2203	4300	6503	SO:0001819	synonymous_variant	166379	Familial Cancer Database	BBS, Bardet-Biedl syndrome, type 1-12: BBS1-12,Laurence-Moon-Biedl syndrome	AK123553	CCDS3728.1	4q27	2014-06-17	2006-12-13	2006-12-13	ENSG00000181004	ENSG00000181004		"Heat Shock Proteins / Chaperonins"	26648	protein-coding gene	gene with protein product		610683	"chromosome 4 open reading frame 24"	C4orf24		17160889	Standard	NM_001178007		Approved	FLJ35630, FLJ41559	uc003ieu.3	Q6ZW61	OTTHUMG00000133070	ENST00000314218.3:c.1617T>C	4.37:g.123664664T>C		Somatic		WXS	Illumina HiSeq		D3DNX5|Q7Z342|Q7Z482|Q8NAB8	Silent	SNP	ENST00000314218.3	37	CCDS3728.1																																																																																				0.413	BBS12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256710.1	NM_152618		C	123664664	T	C	123664664	2	2	697	1	0	0	0	0	0	0	0	1	1337	1683	59	3		3	BBS12	4	123664664	Silent	SNP	T	TCGA-P4-A5E8-01A-11D-A28G-10		123664664	67489612	16	45599										
TMEM184C	55751	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	148545023	148545023	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gcttggtttattgctggaatCtttttgctgttgactattcc	9	7	1	1			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr4:148545023C>G	ENST00000296582.3	+	2	736	c.162C>G	c.(160-162)atC>atG	p.I54M	TMEM184C_ENST00000508208.1_Missense_Mutation_p.I54M	NM_018241.2	NP_060711.2	Q9NVA4	T184C_HUMAN	transmembrane protein 184C	54						integral component of membrane (GO:0016021)				breast(2)|central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(4)|lung(2)|prostate(1)	16						TTGCTGGAATCTTTTTGCTGT	0.333																																																0													137	135	135					4																	148545023		2202	4299	6501	SO:0001583	missense	55751			AF305823	CCDS3770.1	4q31.22	2008-06-05	2008-06-05	2008-06-05		ENSG00000164168			25587	protein-coding gene	gene with protein product		613937	"transmembrane protein 34"	TMEM34			Standard	NM_018241		Approved	FLJ10846	uc003ila.4	Q9NVA4		ENST00000296582.3:c.162C>G	4.37:g.148545023C>G	ENSP00000296582:p.Ile54Met	Somatic		WXS	Illumina HiSeq	Phase_I	D3DP04|Q86X84|Q969I7|Q9NXM2	Missense_Mutation	SNP	ENST00000296582.3	37	CCDS3770.1	.	.	.	.	.	.	.	.	.	.	C	13.08	2.130269	0.37630	.	.	ENSG00000164168	ENST00000296582;ENST00000508208	T;T	0.45668	0.89;0.89	5.28	3.47	0.39725	.	0.000000	0.85682	D	0.000000	T	0.45994	0.1370	L	0.60904	1.88	0.50171	D	0.999858	P	0.42456	0.78	P	0.45138	0.471	T	0.45425	-0.9262	10	0.54805	T	0.06	-23.423	13.982	0.64310	0.54:0.46:0.0:0.0	.	54	Q9NVA4	T184C_HUMAN	M	54	ENSP00000296582:I54M;ENSP00000425940:I54M	ENSP00000296582:I54M	I	+	3	3	TMEM184C	148764473	0.945000	0.32115	1.000000	0.80357	0.993000	0.82548	0.073000	0.14640	0.644000	0.30656	0.455000	0.32223	ATC		0.333	TMEM184C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000364644.1	NM_018241		G	148545023	C	G	148545023	3	3	697	1	0	0	0	0	1	0	0	0	16118	903	32	4	168	4	TMEM184C	4	148545023	Missense_Mutation	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10	24880359	148545023	42609253	17	45600										
FAT1	2195	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	187629210	187629211	+	Frame_Shift_Del	DEL	AC	AC	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	catctgcatcaatagcagaaAcagtggttatttgctctccc					rs572691033	byFrequency	TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr4:187629210_187629211delAC	ENST00000441802.2	-	2	1980_1981	c.1771_1772delGT	c.(1771-1773)gttfs	p.V591fs		NM_005245.3	NP_005236.2	Q14517	FAT1_HUMAN	FAT atypical cadherin 1	591	Cadherin 5. {ECO:0000255|PROSITE- ProRule:PRU00043}.				actin filament organization (GO:0007015)|anatomical structure morphogenesis (GO:0009653)|cell adhesion (GO:0007155)|cell migration (GO:0016477)|cell-cell signaling (GO:0007267)|establishment or maintenance of cell polarity (GO:0007163)|homophilic cell adhesion (GO:0007156)|single organismal cell-cell adhesion (GO:0016337)	cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(38)|haematopoietic_and_lymphoid_tissue(2)|kidney(12)|large_intestine(33)|lung(88)|ovary(13)|pancreas(2)|prostate(16)|skin(2)|upper_aerodigestive_tract(11)|urinary_tract(4)	228						AATAGCAGAAACAGTGGTTATT	0.396										HNSCC(5;0.00058)																											Colon(197;1040 2055 4143 4984 49344)											0																																										SO:0001589	frameshift_variant	2195			X87241	CCDS47177.1	4q35.2	2013-05-31	2013-05-31	2008-10-30	ENSG00000083857	ENSG00000083857		"Cadherins / Cadherin-related"	3595	protein-coding gene	gene with protein product	"cadherin-related family member 8"	600976	"FAT tumor suppressor (Drosophila) homolog", "FAT tumor suppressor homolog 1 (Drosophila)"	FAT		8586420	Standard	XM_005262834		Approved	CDHF7, CDHR8	uc003izf.3	Q14517	OTTHUMG00000160320	ENST00000441802.2:c.1771_1772delGT	4.37:g.187629210_187629211delAC	ENSP00000406229:p.Val591fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000441802.2	37	CCDS47177.1																																																																																				0.396	FAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360209.3	NM_005245		-	187629211	AC	-	187629210	7	5	697	1	0	1	0	1	0	0	0	0	5696	43	2	0	12098	0	FAT1	4	187629210	Frame_Shift_Del	DEL	AC	TCGA-P4-A5E8-01A-11D-A28G-10	39084187	187629210	3525066	18	45601										
NIPBL	25836	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	36986201	36986204	+	Frame_Shift_Del	DEL	AAAG	AAAG	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	ggcaatgttactcaggagacAaagaaaatggaaatgaaagg							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	AAAG	AAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr5:36986201_36986204delAAAG	ENST00000282516.8	+	10	3418_3421	c.2919_2922delAAAG	c.(2917-2922)acaaagfs	p.TK973fs	NIPBL_ENST00000504430.1_3'UTR|NIPBL_ENST00000448238.2_Frame_Shift_Del_p.TK973fs	NM_015384.4|NM_133433.3	NP_056199.2|NP_597677.2	Q6KC79	NIPBL_HUMAN	Nipped-B homolog (Drosophila)	973					brain development (GO:0007420)|cellular protein localization (GO:0034613)|cellular response to DNA damage stimulus (GO:0006974)|cellular response to X-ray (GO:0071481)|cognition (GO:0050890)|developmental growth (GO:0048589)|ear morphogenesis (GO:0042471)|embryonic digestive tract morphogenesis (GO:0048557)|embryonic forelimb morphogenesis (GO:0035115)|embryonic viscerocranium morphogenesis (GO:0048703)|external genitalia morphogenesis (GO:0035261)|eye morphogenesis (GO:0048592)|face morphogenesis (GO:0060325)|fat cell differentiation (GO:0045444)|forelimb morphogenesis (GO:0035136)|gall bladder development (GO:0061010)|heart morphogenesis (GO:0003007)|maintenance of mitotic sister chromatid cohesion (GO:0034088)|metanephros development (GO:0001656)|mitotic cell cycle (GO:0000278)|mitotic sister chromatid cohesion (GO:0007064)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|outflow tract morphogenesis (GO:0003151)|positive regulation of histone deacetylation (GO:0031065)|positive regulation of multicellular organism growth (GO:0040018)|positive regulation of ossification (GO:0045778)|regulation of developmental growth (GO:0048638)|regulation of embryonic development (GO:0045995)|regulation of hair cycle (GO:0042634)|sensory perception of sound (GO:0007605)|stem cell maintenance (GO:0019827)|uterus morphogenesis (GO:0061038)	extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SMC loading complex (GO:0032116)	chromatin binding (GO:0003682)|chromo shadow domain binding (GO:0070087)|histone deacetylase binding (GO:0042826)|protein C-terminus binding (GO:0008022)|protein N-terminus binding (GO:0047485)			autonomic_ganglia(1)|breast(4)|endometrium(9)|kidney(22)|large_intestine(21)|liver(1)|lung(47)|ovary(7)|pancreas(1)|prostate(1)|skin(7)|upper_aerodigestive_tract(3)|urinary_tract(4)	128	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			CTCAGGAGACAAAGAAAATGGAAA	0.373																																																0			GRCh37	CD063575	NIPBL	D																																				SO:0001589	frameshift_variant	25836			AB019494	CCDS3920.1, CCDS47198.1	5p13.2	2009-08-28			ENSG00000164190	ENSG00000164190			28862	protein-coding gene	gene with protein product	"sister chromatid cohesion 2 homolog (yeast)"	608667				15146186, 15146185	Standard	NM_133433		Approved	IDN3, DKFZp434L1319, FLJ11203, FLJ12597, FLJ13354, FLJ13648, Scc2	uc003jkl.4	Q6KC79	OTTHUMG00000090795	ENST00000282516.8:c.2919_2922delAAAG	5.37:g.36986201_36986204delAAAG	ENSP00000282516:p.Thr973fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6KCD6|Q6N080|Q6ZT92|Q7Z2E6|Q8N4M5|Q9Y6Y3|Q9Y6Y4	Frame_Shift_Del	DEL	ENST00000282516.8	37	CCDS3920.1																																																																																				0.373	NIPBL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207582.1	NM_015384		-	36986204	AAAG	-	36986201	7	5	697	1	0	1	0	1	0	0	0	0	10435	117	5	0	2953	0	NIPBL	5	36986201	Frame_Shift_Del	DEL	AAAG	TCGA-P4-A5E8-01A-11D-A28G-10		36986201	143929059	19	45602										
C5orf35	133383	broad.mit.edu;bcgsc.ca	37	chr5	56210690	56210691	+	Frame_Shift_Del	DEL	AG	AG	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	tgatgtgcttgttcctagacAgagcagctaatgtctgttat							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr5:56210690_56210691delAG	ENST00000285947.2	+	5	1095_1096	c.709_710delAG	c.(709-711)agafs	p.R237fs	SETD9_ENST00000475908.1_3'UTR|SETD9_ENST00000541720.1_Frame_Shift_Del_p.R237fs	NM_153706.3	NP_714917.2	Q8NE22	SETD9_HUMAN	SET domain containing 9	237	SET. {ECO:0000255|PROSITE- ProRule:PRU00190}.						methyltransferase activity (GO:0008168)										GTTCCTAGACAGAGCAGCTAAT	0.356																																																0																																										SO:0001589	frameshift_variant	133383			BC036528	CCDS3972.1	5q11.2	2012-02-23	2012-02-23	2012-02-23	ENSG00000155542	ENSG00000155542			28508	protein-coding gene	gene with protein product			"chromosome 5 open reading frame 35"	C5orf35		20930037	Standard	NM_153706		Approved	MGC33648	uc003jqx.3	Q8NE22	OTTHUMG00000059485	ENST00000285947.2:c.709_710delAG	5.37:g.56210692_56210693delAG	ENSP00000285947:p.Arg237fs	Somatic		WXS	Illumina HiSeq	Phase_I	F5H713	Frame_Shift_Del	DEL	ENST00000285947.2	37	CCDS3972.1																																																																																				0.356	SETD9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132304.2	NM_153706		-	56210691	AG	-	56210690	7	5	697	1	0	1	0	1	0	0	0	0	2296	180	7	0	727	0	C5orf35	5	56210690	Frame_Shift_Del	DEL	AG	TCGA-P4-A5E8-01A-11D-A28G-10	19224489	56210690	124704570	20	45603										
MAST4	375449	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	66456396	66456396	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	ggtgaggcggagcaagaaatCcaagaagaaagaaagtctcg	14	6	1	5			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr5:66456396C>A	ENST00000403625.2	+	27	4056	c.3761C>A	c.(3760-3762)tCc>tAc	p.S1254Y	MAST4_ENST00000403666.1_Missense_Mutation_p.S1065Y|MAST4_ENST00000261569.7_Missense_Mutation_p.S1060Y|MAST4_ENST00000404260.3_Missense_Mutation_p.S1257Y|MAST4_ENST00000405643.1_Missense_Mutation_p.S1075Y	NM_001164664.1	NP_001158136.1	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase family member 4	1257						cytoplasm (GO:0005737)	ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|central_nervous_system(1)|kidney(2)|lung(6)|ovary(2)	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)		AGCAAGAAATCCAAGAAGAAA	0.393																																																0													104	106	106					5																	66456396		1862	4094	5956	SO:0001583	missense	375449			AY830839	CCDS47224.1, CCDS47225.1, CCDS54861.1, CCDS75254.1	5q12.3	2007-06-20			ENSG00000069020	ENSG00000069020			19037	protein-coding gene	gene with protein product						9205841	Standard	NM_198828		Approved	KIAA0303	uc021xzk.1	O15021	OTTHUMG00000152471	ENST00000403625.2:c.3761C>A	5.37:g.66456396C>A	ENSP00000385727:p.Ser1254Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NL49|B5ME48|Q05EE6|Q6ZN07|Q8N4X4|Q96LY3	Missense_Mutation	SNP	ENST00000403625.2	37	CCDS54861.1	.	.	.	.	.	.	.	.	.	.	C	20.7	4.031570	0.75504	.	.	ENSG00000069020	ENST00000404260;ENST00000403625;ENST00000403666;ENST00000405643;ENST00000380908;ENST00000261569;ENST00000432399	T;T;T;T;T	0.68331	-0.28;-0.28;-0.32;-0.32;-0.28	5.81	4.93	0.64822	.	0.234815	0.43260	D	0.000587	T	0.79106	0.4390	M	0.73217	2.22	0.34416	D	0.696926	D;D	0.69078	0.99;0.997	P;D	0.65443	0.862;0.935	D	0.85389	0.1124	10	0.72032	D	0.01	-19.186	14.3064	0.66386	0.0:0.9294:0.0:0.0706	.	1257;1065	O15021;O15021-3	MAST4_HUMAN;.	Y	1257;1254;1065;1075;1075;1060;993	ENSP00000385048:S1257Y;ENSP00000385727:S1254Y;ENSP00000384313:S1065Y;ENSP00000384099:S1075Y;ENSP00000261569:S1060Y	ENSP00000261569:S1060Y	S	+	2	0	MAST4	66492152	0.998000	0.40836	1.000000	0.80357	0.995000	0.86356	3.264000	0.51553	2.736000	0.93811	0.655000	0.94253	TCC		0.393	MAST4-001	NOVEL	not_organism_supported|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000326324.2			A	66456396	C	A	66456396	3	1	697	1	0	0	0	0	1	0	0	0	9334	855	30	4	3997	4	MAST4	5	66456396	Missense_Mutation	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10	10245706	66456396	114458864	21	45604										
EPB41L4A	64097	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	111506049	111506049	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gttcttcggacaatccggatGgatccacaagttcttttctg	9	10	3	0			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr5:111506049G>A	ENST00000261486.5	-	20	1964	c.1688C>T	c.(1687-1689)cCa>cTa	p.P563L	EPB41L4A_ENST00000507810.1_5'UTR	NM_022140.3	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte membrane protein band 4.1 like 4A	563						cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extrinsic component of membrane (GO:0019898)				breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(10)|ovary(1)|prostate(2)|skin(1)	34		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)		CAATCCGGATGGATCCACAAG	0.378																																																0													118	111	113					5																	111506049		1832	4086	5918	SO:0001583	missense	64097			AB030240	CCDS43350.1	5q21.3	2008-02-05			ENSG00000129595	ENSG00000129595			13278	protein-coding gene	gene with protein product		612141				10874211	Standard	XM_005272043		Approved	NBL4	uc003kpv.1	Q9HCS5	OTTHUMG00000162902	ENST00000261486.5:c.1688C>T	5.37:g.111506049G>A	ENSP00000261486:p.Pro563Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A4FUI6	Missense_Mutation	SNP	ENST00000261486.5	37	CCDS43350.1	.	.	.	.	.	.	.	.	.	.	G	24.5	4.543095	0.86022	.	.	ENSG00000129595	ENST00000261486	D	0.84070	-1.8	5.21	5.21	0.72293	.	0.131978	0.51477	D	0.000100	D	0.86703	0.5996	L	0.32530	0.975	0.58432	D	0.999998	D;D	0.89917	0.986;1.0	P;D	0.87578	0.655;0.998	D	0.85851	0.1404	10	0.36615	T	0.2	.	17.5611	0.87908	0.0:0.0:1.0:0.0	.	563;190	Q9HCS5;Q8N8X1	E41LA_HUMAN;.	L	563	ENSP00000261486:P563L	ENSP00000261486:P563L	P	-	2	0	EPB41L4A	111533948	1.000000	0.71417	1.000000	0.80357	0.878000	0.50629	7.409000	0.80053	2.415000	0.81967	0.563000	0.77884	CCA		0.378	EPB41L4A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370969.1			A	111506049	G	A	111506049	3	1	697	1	0	0	0	0	1	0	0	0	5157	1348	47	2	388	2	EPB41L4A	5	111506049	Missense_Mutation	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10	45049653	111506049	69409211	22	45605										
APC	324	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	112154880	112154880	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	agaggctcgggccagggccaGtgcagcactccacaacatca	12	14	1	1			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr5:112154880G>T	ENST00000457016.1	+	10	1531	c.1151G>T	c.(1150-1152)aGt>aTt	p.S384I	APC_ENST00000508376.2_Missense_Mutation_p.S384I|APC_ENST00000257430.4_Missense_Mutation_p.S384I			P25054	APC_HUMAN	adenomatous polyposis coli	384	Leu-rich.				anterior/posterior pattern specification (GO:0009952)|apoptotic process (GO:0006915)|axis specification (GO:0009798)|axonogenesis (GO:0007409)|canonical Wnt signaling pathway (GO:0060070)|canonical Wnt signaling pathway involved in negative regulation of apoptotic process (GO:0044336)|canonical Wnt signaling pathway involved in positive regulation of apoptotic process (GO:0044337)|cell adhesion (GO:0007155)|cell cycle arrest (GO:0007050)|cell migration (GO:0016477)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|cellular response to DNA damage stimulus (GO:0006974)|chromosome organization (GO:0051276)|cytoplasmic microtubule organization (GO:0031122)|dorsal/ventral pattern formation (GO:0009953)|hair follicle development (GO:0001942)|kidney development (GO:0001822)|metaphase/anaphase transition of mitotic cell cycle (GO:0007091)|mitotic cytokinesis (GO:0000281)|mitotic spindle assembly checkpoint (GO:0007094)|muscle cell cellular homeostasis (GO:0046716)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045736)|negative regulation of epithelial cell proliferation involved in prostate gland development (GO:0060770)|negative regulation of MAPK cascade (GO:0043409)|negative regulation of microtubule depolymerization (GO:0007026)|negative regulation of odontogenesis (GO:0042483)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cell adhesion (GO:0045785)|positive regulation of cell division (GO:0051781)|positive regulation of cell migration (GO:0030335)|positive regulation of epithelial cell differentiation (GO:0030858)|positive regulation of microtubule polymerization (GO:0031116)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of pseudopodium assembly (GO:0031274)|protein complex assembly (GO:0006461)|proximal/distal pattern formation (GO:0009954)|regulation of attachment of spindle microtubules to kinetochore (GO:0051988)|regulation of microtubule-based process (GO:0032886)|regulation of nitrogen compound metabolic process (GO:0051171)|regulation of osteoblast differentiation (GO:0045667)|regulation of osteoclast differentiation (GO:0045670)|retina development in camera-type eye (GO:0060041)|somatic stem cell maintenance (GO:0035019)|T cell differentiation in thymus (GO:0033077)|thymus development (GO:0048538)|tight junction assembly (GO:0070830)	axonal growth cone (GO:0044295)|beta-catenin destruction complex (GO:0030877)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytoplasmic microtubule (GO:0005881)|cytosol (GO:0005829)|kinetochore (GO:0000776)|lamellipodium (GO:0030027)|lateral plasma membrane (GO:0016328)|microtubule plus-end (GO:0035371)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)|tight junction (GO:0005923)	beta-catenin binding (GO:0008013)|gamma-catenin binding (GO:0045295)|microtubule binding (GO:0008017)|microtubule plus-end binding (GO:0051010)|protein kinase binding (GO:0019901)|protein kinase regulator activity (GO:0019887)			NS(7)|adrenal_gland(6)|biliary_tract(5)|bone(6)|breast(29)|central_nervous_system(12)|cervix(2)|endometrium(12)|haematopoietic_and_lymphoid_tissue(6)|kidney(8)|large_intestine(2768)|liver(15)|lung(39)|oesophagus(1)|ovary(12)|pancreas(27)|prostate(15)|salivary_gland(2)|skin(14)|small_intestine(34)|soft_tissue(55)|stomach(136)|thyroid(22)|upper_aerodigestive_tract(8)|urinary_tract(20)	3261		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		GCCAGGGCCAGTGCAGCACTC	0.507		12	"D, Mis, N, F, S"		"colorectal, pancreatic, desmoid, hepatoblastoma, glioma, other CNS"	"colorectal, pancreatic, desmoid, hepatoblastoma, glioma, other CNS"			Turcot syndrome;Hereditary Desmoid Disease;Familial Adenomatous Polyposis	TSP Lung(16;0.13)																											NSCLC(107;854 1218 9699 17025 28335 47076 52975)|Esophageal Squamous(32;282 584 32991 36563 39392 49665 50115)	yes	Rec	yes	Adenomatous polyposis coli; Turcot syndrome	5	5q21	324	adenomatous polyposis of the colon gene		"E, M, O"	0			GRCh37	CD021189	APC	D							58	54	55					5																	112154880		2202	4300	6502	SO:0001583	missense	324	Familial Cancer Database	Brain tumor-colorectal polyp(osis) syndrome;Familial Infiltrative Mesenteric Fibromatosis;FAP, incl.: Gardner s., Attenuated FAP, Flat Adenoma s., Oldfield s,	M74088	CCDS4107.1	5q21-q22	2014-09-17	2008-01-08		ENSG00000134982	ENSG00000134982		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits", "Armadillo repeat containing"	583	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 46"	611731	"adenomatosis polyposis coli"			1651563	Standard	NM_001127511		Approved	DP2, DP3, DP2.5, PPP1R46	uc003kpy.4	P25054	OTTHUMG00000128806	ENST00000457016.1:c.1151G>T	5.37:g.112154880G>T	ENSP00000413133:p.Ser384Ile	Somatic		WXS	Illumina HiSeq	Phase_I	D3DT03|Q15162|Q15163|Q93042	Missense_Mutation	SNP	ENST00000457016.1	37	CCDS4107.1	.	.	.	.	.	.	.	.	.	.	G	20.2	3.943910	0.73672	.	.	ENSG00000134982	ENST00000457016;ENST00000507379;ENST00000257430;ENST00000508376;ENST00000512211	T;T;T;T;T	0.64260	-0.09;-0.09;-0.09;-0.09;-0.09	5.94	5.94	0.96194	Armadillo-like helical (1);Armadillo-type fold (1);	0.183721	0.64402	D	0.000012	T	0.80127	0.4566	M	0.72894	2.215	0.51012	D	0.999907	D;D	0.76494	0.999;0.999	D;D	0.77557	0.971;0.99	T	0.80405	-0.1396	10	0.87932	D	0	-18.3668	20.419	0.99029	0.0:0.0:1.0:0.0	.	386;384	Q4LE70;P25054	.;APC_HUMAN	I	384;366;384;384;384	ENSP00000413133:S384I;ENSP00000423224:S366I;ENSP00000257430:S384I;ENSP00000427089:S384I;ENSP00000423828:S384I	ENSP00000257430:S384I	S	+	2	0	APC	112182779	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.632000	0.83247	2.832000	0.97577	0.650000	0.86243	AGT		0.507	APC-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250738.2	NM_000038		T	112154880	G	T	112154880	3	4	697	1	0	0	0	0	1	0	0	0	763	1029	36	4	1185	4	APC	5	112154880	Missense_Mutation	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10	648831	112154880	68760380	23	45606										
DMXL1	1657	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	118556763	118556765	+	In_Frame_Del	DEL	GAG	GAG	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	tggtagtacacagactggcaGaggagcatctgtggtatgta							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr5:118556763_118556765delGAG	ENST00000311085.8	+	36	8281_8283	c.8201_8203delGAG	c.(8200-8205)agagga>aga	p.G2735del	DMXL1_ENST00000505312.1_3'UTR|DMXL1_ENST00000539542.1_In_Frame_Del_p.G2756del	NM_005509.4	NP_005500.4	Q9Y485	DMXL1_HUMAN	Dmx-like 1	2735										breast(3)|central_nervous_system(1)|endometrium(14)|kidney(4)|large_intestine(20)|liver(6)|lung(28)|ovary(2)|prostate(5)|skin(2)|upper_aerodigestive_tract(1)	86		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)		CAGACTGGCAGAGGAGCATCTGT	0.35																																																0																																										SO:0001651	inframe_deletion	1657			AJ005821	CCDS4125.1, CCDS75289.1	5q22	2013-01-10			ENSG00000172869	ENSG00000172869		"WD repeat domain containing"	2937	protein-coding gene	gene with protein product		605671				10708522	Standard	NM_005509		Approved		uc003ksd.2	Q9Y485	OTTHUMG00000128898	ENST00000311085.8:c.8201_8203delGAG	5.37:g.118556766_118556768delGAG	ENSP00000309690:p.Gly2735del	Somatic		WXS	Illumina HiSeq	Phase_I		In_Frame_Del	DEL	ENST00000311085.8	37	CCDS4125.1																																																																																				0.35	DMXL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250862.1	NM_005509		-	118556765	GAG	-	118556763	7	5	697	1	0	1	0	1	0	0	0	0	4596	942	33	0	8343	0	DMXL1	5	118556763	In_Frame_Del	DEL	GAG	TCGA-P4-A5E8-01A-11D-A28G-10	6401883	118556763	62358497	24	45607										
TRIM39	56658	hgsc.bcm.edu;bcgsc.ca	37	chr6	30303731	30303752	+	Splice_Site	DEL	GTCAGGCTTCGAGATGCTTAAG	GTCAGGCTTCGAGATGCTTAAG	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gtggagggcaagtgcttacaGtcaggcttcgagatgcttaa							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	GTCAGGCTTCGAGATGCTTAAG	GTCAGGCTTCGAGATGCTTAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr6:30303731_30303752delGTCAGGCTTCGAGATGCTTAAG	ENST00000396547.1	+	4	919_940	c.759_780delGTCAGGCTTCGAGATGCTTAAG	c.(757-780)cagtcaggcttcgagatgcttaag>ca	p.QSGFEMLK253fs	TRIM39_ENST00000376656.4_Splice_Site_p.QSGFEMLK253fs|TRIM39_ENST00000540416.1_Splice_Site_p.QSGFEMLK253fs|TRIM39-RPP21_ENST00000513556.1_Splice_Site_p.QSGFEMLK165fs|TRIM39_ENST00000376659.5_Splice_Site_p.QSGFEMLK253fs|TRIM39_ENST00000396548.1_Splice_Site_p.QSGFEMLK253fs|TRIM39_ENST00000396551.3_Splice_Site_p.QSGFEMLK253fs			Q9HCM9	TRI39_HUMAN	tripartite motif containing 39	253					apoptotic process (GO:0006915)|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:2000059)|positive regulation of apoptotic signaling pathway (GO:2001235)|protein ubiquitination (GO:0016567)	cytosol (GO:0005829)|mitochondrion (GO:0005739)	identical protein binding (GO:0042802)|ligase activity (GO:0016874)|zinc ion binding (GO:0008270)	p.K260Q(1)		ovary(3)	3						AGTGCTTACAGTCAGGCTTCGAGATGCTTAAGGTTCGACCTT	0.577																																																1	Substitution - Missense(1)	lung(1)																																								SO:0001630	splice_region_variant	56658			BC034985	CCDS34377.1, CCDS34378.1	6p22.1	2013-01-09	2011-01-25	2002-06-07	ENSG00000204599	ENSG00000204599		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	10065	protein-coding gene	gene with protein product		605700	"ring finger protein 23", "tripartite motif-containing 39"	RNF23		11006080	Standard	NM_021253		Approved			Q9HCM9	OTTHUMG00000031066	ENST00000396547.1:c.780+1GTCAGGCTTCGAGATGCTTAAG>-	6.37:g.30303731_30303752delGTCAGGCTTCGAGATGCTTAAG		Somatic		WXS	Illumina HiSeq	Phase_I	Q5STG3|Q5STG4|Q76BL3|Q8IYT9|Q96IB6	Frame_Shift_Del	DEL	ENST00000396547.1	37	CCDS34377.1																																																																																				0.577	TRIM39-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000076086.2	NM_172016	Frame_Shift_Del	-	30303752	GTCAGGCTTCGAGATGCTTAAG	-	30303731	8	5	697	1	0	1	0	1	0	0	1	0	16525	1020	36	0	769	0	TRIM39	6	30303731	Splice_Site	DEL	GTCAGGCTTCGAGATGCTTAAG	TCGA-P4-A5E8-01A-11D-A28G-10		30303731	140811336	25	45608										
LAMA4	3910	broad.mit.edu	37	chr6	112463434	112463434	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gaaggcctttaagtcatccaTactggttctcgagtgcactt	9	10	2	0			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr6:112463434T>C	ENST00000230538.7	-	20	2951	c.2554A>G	c.(2554-2556)Atg>Gtg	p.M852V	LAMA4_ENST00000424408.2_Missense_Mutation_p.M845V|LAMA4_ENST00000522006.1_Missense_Mutation_p.M845V|LAMA4_ENST00000389463.4_Missense_Mutation_p.M845V	NM_001105206.2	NP_001098676.2	Q16363	LAMA4_HUMAN	laminin, alpha 4	852	Laminin G-like 1. {ECO:0000255|PROSITE- ProRule:PRU00122}.				blood vessel development (GO:0001568)|brown fat cell differentiation (GO:0050873)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of embryonic development (GO:0045995)	basal lamina (GO:0005605)|basement membrane (GO:0005604)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)	extracellular matrix structural constituent (GO:0005201)			NS(1)|breast(6)|central_nervous_system(2)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(18)|lung(42)|ovary(4)|pancreas(1)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(8)	100		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)		AAGTCATCCATACTGGTTCTC	0.493																																																0													141	127	132					6																	112463434		2203	4300	6503	SO:0001583	missense	3910				CCDS34514.1, CCDS43491.1, CCDS43492.1	6q21	2014-09-17			ENSG00000112769	ENSG00000112769		"Laminins"	6484	protein-coding gene	gene with protein product		600133				7959779	Standard	NM_001105206		Approved	LAMA3	uc003pvu.3	Q16363	OTTHUMG00000015386	ENST00000230538.7:c.2554A>G	6.37:g.112463434T>C	ENSP00000230538:p.Met852Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q14731|Q14735|Q15335|Q4LE44|Q5SZG8|Q9BTB8|Q9UE18|Q9UJN9	Missense_Mutation	SNP	ENST00000230538.7	37	CCDS43491.1	.	.	.	.	.	.	.	.	.	.	T	0.027	-1.359370	0.01245	.	.	ENSG00000112769	ENST00000230538;ENST00000522006;ENST00000389463;ENST00000424408	T;T;T;T	0.37411	1.2;1.2;1.2;1.2	6.07	-3.39	0.04868	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);Laminin G domain (1);Laminin II (1);	0.783647	0.12814	N	0.436927	T	0.02193	0.0068	N	0.00368	-1.59	0.20196	N	0.999921	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.43376	-0.9395	10	0.10111	T	0.7	.	13.534	0.61638	0.1124:0.7719:0.0:0.1157	.	852;845	Q16363;Q16363-2	LAMA4_HUMAN;.	V	852;845;845;845	ENSP00000230538:M852V;ENSP00000429488:M845V;ENSP00000374114:M845V;ENSP00000416470:M845V	ENSP00000230538:M852V	M	-	1	0	LAMA4	112570127	0.010000	0.17322	0.004000	0.12327	0.410000	0.31052	0.135000	0.15952	-1.093000	0.03058	-0.248000	0.11899	ATG		0.493	LAMA4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000041876.2	NM_001105206		C	112463434	T	C	112463434	3	2	697	1	0	0	0	0	1	0	0	0	8615	1406	49	3	2997	3	LAMA4	6	112463434	Missense_Mutation	SNP	T	TCGA-P4-A5E8-01A-11D-A28G-10	82159703	112463434	58651633	26	45609										
NMBR	4829	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	142396953	142396953	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	ccacagcagagttggctgttGaaatgcctcctgaagctttc	10	11	0	3			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr6:142396953G>A	ENST00000258042.1	-	3	1145	c.1005C>T	c.(1003-1005)ttC>ttT	p.F335F	NMBR_ENST00000480652.1_5'UTR	NM_002511.2	NP_002502.2	P28336	NMBR_HUMAN	neuromedin B receptor	335					G-protein coupled receptor signaling pathway (GO:0007186)|phospholipase C-activating G-protein coupled receptor signaling pathway (GO:0007200)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	bombesin receptor activity (GO:0004946)			breast(2)|central_nervous_system(3)|endometrium(3)|large_intestine(3)|lung(8)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	23	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;9.93e-06)|GBM - Glioblastoma multiforme(68;0.0013)		GTTGGCTGTTGAAATGCCTCC	0.473																																																0													109	104	106					6																	142396953		2203	4300	6503	SO:0001819	synonymous_variant	4829				CCDS5196.1	6q24.1	2014-02-21			ENSG00000135577	ENSG00000135577		"GPCR / Class A : Bombesin receptors"	7843	protein-coding gene	gene with protein product	"bombesin receptor 1"	162341					Standard	NM_002511		Approved	BB1	uc003qiu.3	P28336	OTTHUMG00000015704	ENST00000258042.1:c.1005C>T	6.37:g.142396953G>A		Somatic		WXS	Illumina HiSeq	Phase_I	E9KL38|Q5VUK8	Silent	SNP	ENST00000258042.1	37	CCDS5196.1																																																																																				0.473	NMBR-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042479.1			A	142396953	G	A	142396953	2	1	697	1	0	0	0	0	0	0	0	1	10494	1281	45	2		2	NMBR	6	142396953	Silent	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10	29933519	142396953	28718114	27	45610										
MEOX2	4223	hgsc.bcm.edu	37	chr7	15725800	15725800	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	tgctgctgatggtggtgatgGtggtggtggtggtggtggtg	23	2	0	2	rs113582077	byFrequency	TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr7:15725800G>A	ENST00000262041.5	-	1	637	c.228C>T	c.(226-228)caC>caT	p.H76H	AC005550.4_ENST00000442176.1_lincRNA|AC005550.5_ENST00000438923.1_lincRNA	NM_005924.4	NP_005915.2	P50222	MEOX2_HUMAN	mesenchyme homeobox 2	76	Poly-His.				angiogenesis (GO:0001525)|blood circulation (GO:0008015)|limb development (GO:0060173)|multicellular organismal development (GO:0007275)|neuron death (GO:0070997)|palate development (GO:0060021)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|skeletal muscle tissue development (GO:0007519)|somite specification (GO:0001757)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding (GO:0000980)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001205)|sequence-specific DNA binding (GO:0043565)	p.H80delH(1)		breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(11)|ovary(2)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	24				UCEC - Uterine corpus endometrioid carcinoma (126;0.0822)		ggtggtgatggtggtggtggt	0.612																																					Esophageal Squamous(140;197 1769 16409 18257 29929)											1	Deletion - In frame(1)	stomach(1)											11	13	13					7																	15725800		2192	4293	6485	SO:0001819	synonymous_variant	4223				CCDS34605.1	7p22.1-p21.3	2014-07-15	2005-12-22		ENSG00000106511	ENSG00000106511		"Homeoboxes / ANTP class : HOXL subclass"	7014	protein-coding gene	gene with protein product	"growth arrest-specific homeobox"	600535	"mesenchyme homeo box 2 (growth arrest-specific homeo box)", "mesenchyme homeobox 2 (growth arrest-specific homeo box)"	GAX		7713505	Standard	NM_005924		Approved	MOX2	uc003stc.3	P50222	OTTHUMG00000152390	ENST00000262041.5:c.228C>T	7.37:g.15725800G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R8I7|O75263|Q9UPL6	Silent	SNP	ENST00000262041.5	37	CCDS34605.1																																																																																				0.612	MEOX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000326058.2	NM_005924		A	15725800	G	A	15725800	2	1	697	1	0	0	0	0	0	0	0	1	9481	1252	44	2		2	MEOX2	7	15725800	Silent	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10		15725800	143412863	28	45611										
HOXA7	3204	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	27194707	27194707	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gaaccagatcttaatctggcGctcggtgaggcagagcgcgt	14	10	2	3			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr7:27194707G>A	ENST00000242159.3	-	2	647	c.514C>T	c.(514-516)Cgc>Tgc	p.R172C	HOXA-AS3_ENST00000521231.1_RNA|RP1-170O19.22_ENST00000467897.2_RNA|HOXA-AS3_ENST00000524304.1_RNA|RP1-170O19.23_ENST00000498652.1_RNA|HOXA-AS3_ENST00000518848.1_RNA|HOXA-AS3_ENST00000518947.2_RNA|HOXA7_ENST00000523796.2_5'UTR|HOXA-AS3_ENST00000521197.1_RNA	NM_006896.3	NP_008827.2	P31268	HXA7_HUMAN	homeobox A7	172					angiogenesis (GO:0001525)|anterior/posterior pattern specification (GO:0009952)|embryonic skeletal system morphogenesis (GO:0048704)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of keratinocyte differentiation (GO:0045617)|negative regulation of leukocyte migration (GO:0002686)|negative regulation of monocyte differentiation (GO:0045656)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|stem cell differentiation (GO:0048863)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)			endometrium(3)|large_intestine(1)|lung(10)|prostate(1)|urinary_tract(1)	16						TTAATCTGGCGCTCGGTGAGG	0.632																																																0													87	99	95					7																	27194707		2203	4300	6503	SO:0001583	missense	3204				CCDS5408.1	7p15.2	2011-06-20	2005-12-22		ENSG00000122592	ENSG00000122592		"Homeoboxes / ANTP class : HOXL subclass"	5108	protein-coding gene	gene with protein product		142950	"homeo box A7"	HOX1A, HOX1		1973146, 1358459	Standard	NM_006896		Approved		uc003sys.3	P31268	OTTHUMG00000023217	ENST00000242159.3:c.514C>T	7.37:g.27194707G>A	ENSP00000242159:p.Arg172Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A4D191|O43368|O43486|O95655|Q9NSC8|Q9UDM1	Missense_Mutation	SNP	ENST00000242159.3	37	CCDS5408.1	.	.	.	.	.	.	.	.	.	.	G	17.28	3.349382	0.61183	.	.	ENSG00000122592	ENST00000242159	D	0.96774	-4.12	4.96	3.98	0.46160	Homeobox, eukaryotic (1);Homeodomain-related (1);Homeobox (3);Homeodomain-like (1);Homeobox, conserved site (1);	0.000000	0.85682	D	0.000000	D	0.98365	0.9457	M	0.93854	3.465	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.98696	1.0698	10	0.87932	D	0	.	12.334	0.55056	0.0:0.0:0.6713:0.3287	.	172	P31268	HXA7_HUMAN	C	172	ENSP00000242159:R172C	ENSP00000242159:R172C	R	-	1	0	HOXA7	27161232	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	1.882000	0.39648	2.324000	0.78689	0.456000	0.33151	CGC		0.632	HOXA7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358695.1			A	27194707	G	A	27194707	3	1	697	1	0	0	0	0	1	0	0	0	7304	1087	38	1	182	1	HOXA7	7	27194707	Missense_Mutation	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10	11468907	27194707	131943956	29	45612										
SAMD9	54809	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	92731495	92731495	+	Frame_Shift_Del	DEL	T	T	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	ttcttctaagagacaaaataTatctacatatttcttaaaat							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr7:92731495delT	ENST00000379958.2	-	3	4185	c.3916delA	c.(3916-3918)atafs	p.I1306fs		NM_001193307.1|NM_017654.3	NP_001180236.1|NP_060124.2	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	1306						cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)				NS(1)|breast(4)|central_nervous_system(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(20)|lung(32)|ovary(4)|prostate(1)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(2)	88	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			AGACAAAATATATCTACATAT	0.373																																																0													73	81	78					7																	92731495		2197	4295	6492	SO:0001589	frameshift_variant	54809			AB095925	CCDS34680.1	7q21.2	2013-01-10	2004-07-15	2004-07-16	ENSG00000205413	ENSG00000205413		"Sterile alpha motif (SAM) domain containing"	1348	protein-coding gene	gene with protein product		610456	"chromosome 7 open reading frame 5"	C7orf5			Standard	NM_017654		Approved	KIAA2004, FLJ20073	uc003umg.3	Q5K651	OTTHUMG00000155809	ENST00000379958.2:c.3916delA	7.37:g.92731495delT	ENSP00000369292:p.Ile1306fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU68|Q5K649|Q6P080|Q75N21|Q8IVG6|Q9NXS8	Frame_Shift_Del	DEL	ENST00000379958.2	37	CCDS34680.1																																																																																				0.373	SAMD9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341761.1	NM_017654		-	92731495	T	-	92731495	7	5	697	1	0	1	0	1	0	0	0	0	13839	1406	49	0	857	0	SAMD9	7	92731495	Frame_Shift_Del	DEL	T	TCGA-P4-A5E8-01A-11D-A28G-10	65536788	92731495	66407168	30	45613										
PILRA	29992	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	99972037	99972037	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	tggcagtccatcgaggggacCaaactctccatcacccaggg	11	14	2	0			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr7:99972037C>T	ENST00000198536.2	+	2	647	c.435C>T	c.(433-435)acC>acT	p.T145T	PILRA_ENST00000350573.2_Silent_p.T145T|PILRA_ENST00000474013.1_3'UTR|PILRA_ENST00000453419.1_Silent_p.T145T|PILRA_ENST00000394000.2_Silent_p.T145T	NM_013439.2	NP_038467.2	Q9UKJ1	PILRA_HUMAN	paired immunoglobin-like type 2 receptor alpha	145	Ig-like V-type.				signal transduction (GO:0007165)|viral process (GO:0016032)	extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				endometrium(1)|kidney(2)|large_intestine(3)|lung(6)|pancreas(1)|skin(1)|urinary_tract(1)	15	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TCGAGGGGACCAAACTCTCCA	0.592																																																0													76	73	74					7																	99972037		2203	4300	6503	SO:0001819	synonymous_variant	29992			AF161080	CCDS5691.1, CCDS5692.1, CCDS47660.1	7q22.1	2013-01-11			ENSG00000085514	ENSG00000085514		"Immunoglobulin superfamily / V-set domain containing"	20396	protein-coding gene	gene with protein product		605341				10660620	Standard	NM_178272		Approved	FDF03	uc003uuo.1	Q9UKJ1	OTTHUMG00000155248	ENST00000198536.2:c.435C>T	7.37:g.99972037C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHI1	Silent	SNP	ENST00000198536.2	37	CCDS5691.1																																																																																				0.592	PILRA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000339016.1	NM_013439		T	99972037	C	T	99972037	2	4	697	1	0	0	0	0	0	0	0	1	11932	581	21	2		2	PILRA	7	99972037	Silent	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10	7240542	99972037	59166626	31	45614										
MLL5	55904	broad.mit.edu	37	chr7	104750955	104750955	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	ccatgtgtctcatgttcaccGagtcatgttcagtcttcacc	7	13	6	0	rs375343033		TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr7:104750955G>T	ENST00000311117.3	+	25	4421	c.3876G>T	c.(3874-3876)ccG>ccT	p.P1292P	SRPK2_ENST00000493638.1_5'Flank|KMT2E_ENST00000334914.7_Silent_p.P347P|KMT2E_ENST00000257745.4_Silent_p.P1292P|KMT2E_ENST00000334877.4_Intron	NM_182931.2	NP_891847.1	Q8IZD2	KMT2E_HUMAN	lysine (K)-specific methyltransferase 2E	1292					cell cycle arrest (GO:0007050)|cellular response to retinoic acid (GO:0071300)|DNA methylation (GO:0006306)|erythrocyte differentiation (GO:0030218)|histone H3-K4 methylation (GO:0051568)|neutrophil activation (GO:0042119)|neutrophil mediated immunity (GO:0002446)|positive regulation of granulocyte differentiation (GO:0030854)|positive regulation of transcription, DNA-templated (GO:0045893)|retinoic acid receptor signaling pathway (GO:0048384)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|MLL5-L complex (GO:0070688)|plasma membrane (GO:0005886)	enzyme binding (GO:0019899)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)										CATGTTCACCGAGTCATGTTC	0.463																																																0													267	253	257					7																	104750955		2203	4300	6503	SO:0001819	synonymous_variant	55904			AF067804	CCDS34723.1	7q22.1	2013-05-09	2013-05-09	2013-05-09	ENSG00000005483	ENSG00000005483		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	18541	protein-coding gene	gene with protein product		608444	"myeloid/lymphoid or mixed-lineage leukemia 5 (trithorax homolog, Drosophila)"	MLL5		9218106, 7672722	Standard	XM_005250493		Approved	HDCMC04P		Q8IZD2	OTTHUMG00000157403	ENST00000311117.3:c.3876G>T	7.37:g.104750955G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B6ZDE4|B6ZDM3|M4K8J3|Q6P5Y2|Q6PKG4|Q6T316|Q86TI3|Q86W12|Q86WG0|Q86WL2|Q8IV78|Q8IWR5|Q8NFF8|Q9NWE7	Silent	SNP	ENST00000311117.3	37	CCDS34723.1																																																																																				0.463	KMT2E-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348697.1			T	104750955	G	T	104750955	2	4	697	1	0	0	0	0	0	0	0	1	9631	1045	37	4		4	MLL5	7	104750955	Silent	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10	4778918	104750955	54387708	32	45615										
KIF13B	23303	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	28984749	28984749	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	taaagtcccagattcctgcaCtgacttcacttcgacttgaa	6	12	1	3			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr8:28984749C>G	ENST00000524189.1	-	25	3150	c.3112G>C	c.(3112-3114)Gtg>Ctg	p.V1038L	CTD-2647L4.1_ENST00000523661.1_RNA	NM_015254.3	NP_056069.2	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	1038					metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|protein targeting (GO:0006605)|regulation of axonogenesis (GO:0050770)|signal transduction (GO:0007165)|T cell activation (GO:0042110)	axon (GO:0030424)|cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	14-3-3 protein binding (GO:0071889)|ATP binding (GO:0005524)|microtubule motor activity (GO:0003777)|protein kinase binding (GO:0019901)			endometrium(6)|kidney(1)|lung(20)|urinary_tract(1)	28		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		GATTCCTGCACTGACTTCACT	0.443																																																0													149	147	148					8																	28984749		1920	4132	6052	SO:0001583	missense	23303			AB014539	CCDS55217.1	8p21	2008-07-30				ENSG00000197892		"Kinesins"	14405	protein-coding gene	gene with protein product		607350				9734811, 10859302, 16864656	Standard	NM_015254		Approved	GAKIN, KIAA0639	uc003xhh.4	Q9NQT8		ENST00000524189.1:c.3112G>C	8.37:g.28984749C>G	ENSP00000427900:p.Val1038Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DGY5|B5MC45|F8VPJ2|O75134|Q9BYJ6	Missense_Mutation	SNP	ENST00000524189.1	37	CCDS55217.1	.	.	.	.	.	.	.	.	.	.	C	19.36	3.812352	0.70912	.	.	ENSG00000197892	ENST00000524189	T	0.77620	-1.11	5.14	5.14	0.70334	.	0.000000	0.85682	D	0.000000	T	0.77665	0.4164	M	0.66939	2.045	0.80722	D	1	B	0.32620	0.378	B	0.38378	0.272	T	0.78155	-0.2314	10	0.54805	T	0.06	.	12.1601	0.54099	0.0:0.9224:0.0:0.0776	.	1038	F8VPJ2	.	L	1038	ENSP00000427900:V1038L	ENSP00000427900:V1038L	V	-	1	0	KIF13B	29040668	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	4.510000	0.60455	2.649000	0.89929	0.655000	0.94253	GTG		0.443	KIF13B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376878.1			G	28984749	C	G	28984749	3	3	697	1	0	0	0	0	1	0	0	0	8282	565	20	4	2432	4	KIF13B	8	28984749	Missense_Mutation	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10		28984749	117379273	33	45616										
DCAF13	25879	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	104432551	104432551	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	tcccacgagaatatataagaGctttaaatgctaccaaactg	6	9	0	2			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr8:104432551G>T	ENST00000297579.5	+	2	863	c.586G>T	c.(586-588)Gct>Tct	p.A196S	DCAF13_ENST00000521716.1_Missense_Mutation_p.A40S|DCAF13_ENST00000521999.1_Intron|DCAF13_ENST00000521971.1_Missense_Mutation_p.A40S|DCAF13_ENST00000519682.1_Missense_Mutation_p.A40S	NM_015420.6	NP_056235.4	Q9NV06	DCA13_HUMAN	DDB1 and CUL4 associated factor 13	44					protein ubiquitination (GO:0016567)|rRNA processing (GO:0006364)	Cul4-RING E3 ubiquitin ligase complex (GO:0080008)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	poly(A) RNA binding (GO:0044822)			NS(1)|breast(1)|kidney(2)|large_intestine(8)|lung(8)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	25						ATATATAAGAGCTTTAAATGC	0.388																																																0													102	96	98					8																	104432551		2203	4300	6503	SO:0001583	missense	25879			AK074725	CCDS34934.1	8q22.3	2013-01-09	2009-07-17	2009-07-17	ENSG00000164934	ENSG00000164934		"WD repeat domain containing", "DDB1 and CUL4 associated factors"	24535	protein-coding gene	gene with protein product			"WD repeats and SOF1 domain containing"	WDSOF1		11042152	Standard	NM_015420		Approved	DKFZP564O0463, Gm83, HSPC064	uc003yln.3	Q9NV06	OTTHUMG00000164888	ENST00000297579.5:c.586G>T	8.37:g.104432551G>T	ENSP00000297579:p.Ala196Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q3MII9|Q8NCH8|Q8TC51|Q96JY7|Q9NZX3	Missense_Mutation	SNP	ENST00000297579.5	37	CCDS34934.1	.	.	.	.	.	.	.	.	.	.	G	33	5.265050	0.95399	.	.	ENSG00000164934	ENST00000297579;ENST00000521716;ENST00000521971;ENST00000388778;ENST00000519682	T;T;T;T	0.01313	5.02;5.02;5.02;5.02	5.2	5.2	0.72013	.	0.050275	0.85682	N	0.000000	T	0.16128	0.0388	H	0.96489	3.83	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	T	0.13818	-1.0495	10	0.87932	D	0	-21.6277	18.7279	0.91722	0.0:0.0:1.0:0.0	.	44	B3KME9	.	S	196;40;40;44;40	ENSP00000297579:A196S;ENSP00000430645:A40S;ENSP00000430883:A40S;ENSP00000430411:A40S	ENSP00000297579:A196S	A	+	1	0	DCAF13	104501727	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.260000	0.95568	2.420000	0.82092	0.655000	0.94253	GCT		0.388	DCAF13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380797.2	NM_015420		T	104432551	G	T	104432551	3	4	697	1	0	0	0	0	1	0	0	0	4268	971	34	4	592	4	DCAF13	8	104432551	Missense_Mutation	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10	75447802	104432551	41931471	34	45617										
KIAA2026	158358	broad.mit.edu	37	chr9	5923077	5923078	+	Frame_Shift_Del	DEL	AC	AC	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gtatgctttgattcactgaaAcagtcaatctgcacatcact							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr9:5923077_5923078delAC	ENST00000399933.3	-	8	2917_2918	c.2918_2919delGT	c.(2917-2919)tgtfs	p.C973fs	KIAA2026_ENST00000381461.2_Frame_Shift_Del_p.C943fs	NM_001017969.2	NP_001017969.2	Q5HYC2	K2026_HUMAN	KIAA2026	973										breast(6)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(11)|lung(15)|ovary(2)|prostate(2)|skin(1)	46		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		ATTCACTGAAACAGTCAATCTG	0.426																																																0																																										SO:0001589	frameshift_variant	158358			AB095946		9p24.1	2014-01-10			ENSG00000183354	ENSG00000183354			23378	protein-coding gene	gene with protein product							Standard	NM_001017969		Approved	FLJ20375	uc003zjq.4	Q5HYC2	OTTHUMG00000019507	ENST00000399933.3:c.2918_2919delGT	9.37:g.5923077_5923078delAC	ENSP00000382815:p.Cys973fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8MTP2|B9EGW7|Q4VXA2|Q8IVE5	Frame_Shift_Del	DEL	ENST00000399933.3	37																																																																																					0.426	KIAA2026-002	NOVEL	not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000051652.2	NM_001017969		-	5923078	AC	-	5923077	7	5	697	1	0	1	0	1	0	0	0	0	8277	41	2	0	3396	0	KIAA2026	9	5923077	Frame_Shift_Del	DEL	AC	TCGA-P4-A5E8-01A-11D-A28G-10		5923077	135290354	35	45618										
C9orf93	203238	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	15745613	15745613	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	tctatggctgaattacaagaCgtcattggtaaagcaggtat	10	6	2	2			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr9:15745613C>T	ENST00000380701.3	+	18	2983	c.2655C>T	c.(2653-2655)gaC>gaT	p.D885D	CCDC171_ENST00000297641.3_Silent_p.D885D	NM_173550.2	NP_775821.2	Q6TFL3	CC171_HUMAN	coiled-coil domain containing 171	885								p.D152D(1)|p.D885D(1)									AATTACAAGACGTCATTGGTA	0.363																																																2	Substitution - coding silent(2)	lung(2)											222	221	221					9																	15745613		2203	4300	6503	SO:0001819	synonymous_variant	203238			AY422473	CCDS6481.1	9p22.2	2012-03-26	2012-03-26	2012-03-26	ENSG00000164989	ENSG00000164989			29828	protein-coding gene	gene with protein product	"myosin tail domain containing protein"		"chromosome 9 open reading frame 93"	C9orf93		14702039	Standard	NM_173550		Approved	FLJ39267, FLJ46740, Em:AL513423.1, bA778P13.1, bA536D16.1	uc003zmd.3	Q6TFL3	OTTHUMG00000019584	ENST00000380701.3:c.2655C>T	9.37:g.15745613C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZM22|Q5SU58|Q6P1W1|Q6ZR13|Q8N1Z4|Q8N8L3|Q8TBR2	Silent	SNP	ENST00000380701.3	37	CCDS6481.1	.	.	.	.	.	.	.	.	.	.	C	0.248	-1.008817	0.02112	.	.	ENSG00000164989	ENST00000449575	.	.	.	5.03	-4.4	0.03600	.	.	.	.	.	T	0.40297	0.1111	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.37641	-0.9697	4	.	.	.	-0.9084	3.9218	0.09247	0.3234:0.4014:0.0625:0.2128	.	.	.	.	M	125	.	.	T	+	2	0	C9orf93	15735613	0.998000	0.40836	0.941000	0.38009	0.154000	0.21943	0.535000	0.23114	-0.699000	0.05077	-1.604000	0.00809	ACG		0.363	CCDC171-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051768.4	NM_173550		T	15745613	C	T	15745613	2	4	697	1	0	0	0	0	0	0	0	1	2508	535	19	1		1	C9orf93	9	15745613	Silent	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10	9822536	15745613	125467818	36	45619										
ITIH5	80760	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	7621949	7621949	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	agacgatgagggacacgctcCggtctccaatgccactgtgg	13	12	1	2	rs368004189		TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr10:7621949C>T	ENST00000256861.6	-	9	1265	c.1187G>A	c.(1186-1188)cGg>cAg	p.R396Q	ITIH5_ENST00000434980.1_5'UTR|ITIH5_ENST00000397145.2_Missense_Mutation_p.R396Q|ITIH5_ENST00000298441.6_Missense_Mutation_p.R182Q|ITIH5_ENST00000397146.2_Missense_Mutation_p.R396Q|ITIH5_ENST00000446830.2_Missense_Mutation_p.R178Q	NM_030569.6	NP_085046.5	Q86UX2	ITIH5_HUMAN	inter-alpha-trypsin inhibitor heavy chain family, member 5	396	VWFA. {ECO:0000255|PROSITE- ProRule:PRU00219}.				hyaluronan metabolic process (GO:0030212)	extracellular region (GO:0005576)	serine-type endopeptidase inhibitor activity (GO:0004867)			NS(1)|breast(3)|central_nervous_system(3)|endometrium(5)|kidney(6)|large_intestine(21)|lung(25)|ovary(4)|pancreas(1)|skin(2)|stomach(1)|urinary_tract(3)	75						GGACACGCTCCGGTCTCCAAT	0.632																																																0								C	GLN/ARG,GLN/ARG,GLN/ARG	0,4406		0,0,2203	79	69	72		1187,1187,545	4.4	1	10		72	1,8599	1.2+/-3.3	0,1,4299	no	missense,missense,missense	ITIH5	NM_001001851.2,NM_030569.6,NM_032817.5	43,43,43	0,1,6502	TT,TC,CC		0.0116,0.0,0.0077	possibly-damaging,possibly-damaging,possibly-damaging	396/703,396/943,182/729	7621949	1,13005	2203	4300	6503	SO:0001583	missense	80760					10p14	2011-10-26	2011-10-26		ENSG00000123243	ENSG00000123243			21449	protein-coding gene	gene with protein product		609783	"inter-alpha (globulin) inhibitor H5"			14744536	Standard	NM_001001851		Approved	MGC10848	uc021pmv.1	Q86UX2	OTTHUMG00000017635	ENST00000256861.6:c.1187G>A	10.37:g.7621949C>T	ENSP00000256861:p.Arg396Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q5T664|Q5T665|Q5T666|Q6AI60|Q6UXB7|Q8TF48|Q8WYV2|Q96K70	Missense_Mutation	SNP	ENST00000256861.6	37		.	.	.	.	.	.	.	.	.	.	C	14.84	2.656967	0.47467	0.0	1.16E-4	ENSG00000123243	ENST00000256861;ENST00000397146;ENST00000298441;ENST00000446830;ENST00000397145	T;T;T;T;T	0.77750	-1.12;-1.12;-1.12;-1.12;-1.12	5.33	4.41	0.53225	von Willebrand factor, type A (3);	0.152288	0.64402	D	0.000015	D	0.83792	0.5331	.	.	.	0.31433	N	0.672876	P;D;D	0.69078	0.948;0.997;0.997	P;P;P	0.60886	0.745;0.88;0.809	D	0.84790	0.0778	9	0.72032	D	0.01	-30.2968	10.6617	0.45706	0.0:0.8514:0.0:0.1486	.	396;396;182	G5E9D8;Q86UX2;Q86UX2-3	.;ITIH5_HUMAN;.	Q	396;396;182;178;396	ENSP00000256861:R396Q;ENSP00000380333:R396Q;ENSP00000298441:R182Q;ENSP00000387969:R178Q;ENSP00000380332:R396Q	ENSP00000256861:R396Q	R	-	2	0	ITIH5	7661955	1.000000	0.71417	0.994000	0.49952	0.106000	0.19336	2.775000	0.47702	2.491000	0.84063	0.561000	0.74099	CGG		0.632	ITIH5-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000046688.1	NM_030569		T	7621949	C	T	7621949	3	4	697	1	0	0	0	0	1	0	0	0	7914	652	23	1	1788	1	ITIH5	10	7621949	Missense_Mutation	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10		7621949	127912798	37	45620										
KIAA1217	56243	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	24832228	24832229	+	Frame_Shift_Del	DEL	AG	AG	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gatcaagaggttatcacgacAgattttggccaagttgttct							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr10:24832228_24832229delAG	ENST00000376454.3	+	19	4059_4060	c.4029_4030delAG	c.(4027-4032)acagatfs	p.D1344fs	KIAA1217_ENST00000307544.6_Intron|KIAA1217_ENST00000458595.1_Intron|KIAA1217_ENST00000376462.1_Intron|KIAA1217_ENST00000396445.1_Intron|KIAA1217_ENST00000376451.2_Frame_Shift_Del_p.D1027fs|KIAA1217_ENST00000396446.1_Intron|KIAA1217_ENST00000376452.3_Intron	NM_019590.3	NP_062536.2	Q5T5P2	SKT_HUMAN	KIAA1217	1344					embryonic skeletal system development (GO:0048706)	cytoplasm (GO:0005737)				breast(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(19)|lung(19)|ovary(5)|prostate(3)|skin(3)|urinary_tract(1)	70						TTATCACGACAGATTTTGGCCA	0.411																																																0																																										SO:0001589	frameshift_variant	56243			BX640796	CCDS31165.1, CCDS41496.1, CCDS60501.1, CCDS60502.1, CCDS60504.1, CCDS60505.1	10p12.31	2009-09-16			ENSG00000120549	ENSG00000120549			25428	protein-coding gene	gene with protein product	"sickle tail"					10574462	Standard	XM_005252500		Approved	DKFZP761L0424, SKT	uc001iru.4	Q5T5P2	OTTHUMG00000017824	ENST00000376454.3:c.4029_4030delAG	10.37:g.24832228_24832229delAG	ENSP00000365637:p.Asp1344fs	Somatic		WXS	Illumina HiSeq	Phase_I	A5LHW9|A6NLF3|A6PVQ5|A6PVQ6|A6PVQ7|B9EGK4|Q4KMG4|Q5T5P3|Q5T7H3|Q6MZZ6|Q6ZUI4|Q8WV45|Q9NSR2|Q9ULK3	Frame_Shift_Del	DEL	ENST00000376454.3	37	CCDS31165.1																																																																																				0.411	KIAA1217-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000047223.2	NM_019590		-	24832229	AG	-	24832228	7	5	697	1	0	1	0	1	0	0	0	0	8223	175	7	0	4103	0	KIAA1217	10	24832228	Frame_Shift_Del	DEL	AG	TCGA-P4-A5E8-01A-11D-A28G-10	17210279	24832228	110702519	38	45621										
CPXM2	119587	broad.mit.edu	37	chr10	125651141	125651141	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	tcactgccaggagcaccaggGccagcgctggggtagcggtc	16	13	1	0	rs201350090		TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr10:125651141G>T	ENST00000241305.3	-	1	189	c.35C>A	c.(34-36)gCc>gAc	p.A12D	CPXM2_ENST00000368854.3_Intron	NM_198148.2	NP_937791.2	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	12					cell adhesion (GO:0007155)	extracellular space (GO:0005615)	metallocarboxypeptidase activity (GO:0004181)|zinc ion binding (GO:0008270)			NS(1)|autonomic_ganglia(1)|breast(1)|endometrium(7)|kidney(2)|large_intestine(13)|lung(15)|ovary(2)|prostate(2)|skin(3)	47		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)		GAGCACCAGGGCCAGCGCTGG	0.766																																																0													5	7	6					10																	125651141		1452	2778	4230	SO:0001583	missense	119587			AY358565	CCDS7637.1	10q26	2012-02-10			ENSG00000121898	ENSG00000121898			26977	protein-coding gene	gene with protein product	"cytosolic carboxypeptidase"					12975309	Standard	NM_198148		Approved	UNQ676, CPX2	uc001lhk.1	Q8N436	OTTHUMG00000019206	ENST00000241305.3:c.35C>A	10.37:g.125651141G>T	ENSP00000241305:p.Ala12Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3Q2	Missense_Mutation	SNP	ENST00000241305.3	37	CCDS7637.1	.	.	.	.	.	.	.	.	.	.	g	9.202	1.028774	0.19512	.	.	ENSG00000121898	ENST00000241305;ENST00000418782	D	0.96427	-4.01	3.45	1.48	0.22813	.	2.186560	0.02563	N	0.096968	D	0.90480	0.7018	N	0.08118	0	0.22424	N	0.999119	B	0.32160	0.358	B	0.30716	0.119	D	0.85783	0.1362	10	0.87932	D	0	0.2476	5.6694	0.17713	0.2726:0.0:0.7274:0.0	.	12	Q8N436	CPXM2_HUMAN	D	12	ENSP00000241305:A12D	ENSP00000241305:A12D	A	-	2	0	CPXM2	125641131	0.036000	0.19791	0.475000	0.27278	0.067000	0.16453	0.517000	0.22832	0.646000	0.30693	0.298000	0.19748	GCC		0.766	CPXM2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050853.1	NM_198148		T	125651141	G	T	125651141	3	4	697	1	0	0	0	0	1	0	0	0	3840	1203	42	4	2291	4	CPXM2	10	125651141	Missense_Mutation	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10	100818913	125651141	9883606	39	45622										
ACY3	91703	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	67413212	67413212	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	agacttcgtgggaggacttcGcgattaagcaggtgcccatg	14	9	0	1	rs368150084		TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr11:67413212G>A	ENST00000255082.3	-	4	553	c.383C>T	c.(382-384)gCg>gTg	p.A128V	ACY3_ENST00000529256.1_Missense_Mutation_p.A7V	NM_080658.1	NP_542389.1	Q96HD9	ACY3_HUMAN	aspartoacylase (aminocyclase) 3	128	Hydrolytic domain. {ECO:0000250}.				viral process (GO:0016032)	apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	aminoacylase activity (GO:0004046)|hydrolase activity, acting on ester bonds (GO:0016788)|metal ion binding (GO:0046872)			endometrium(1)|lung(5)|prostate(2)	8					L-Aspartic Acid(DB00128)	GGAGGACTTCGCGATTAAGCA	0.642																																					GBM(56;346 1011 27014 29495 46841)											0								G	VAL/ALA	2,4398	4.2+/-10.8	0,2,2198	170	152	158		383	0.6	0	11		158	0,8588		0,0,4294	no	missense	ACY3	NM_080658.1	64	0,2,6492	AA,AG,GG		0.0,0.0455,0.0154	benign	128/320	67413212	2,12986	2200	4294	6494	SO:0001583	missense	91703			BC008689	CCDS8175.1	11q13.2	2014-08-08			ENSG00000132744	ENSG00000132744			24104	protein-coding gene	gene with protein product		614413				14656720	Standard	NM_080658		Approved	HCBP1, MGC9740, ACY-3	uc001omq.3	Q96HD9	OTTHUMG00000167283	ENST00000255082.3:c.383C>T	11.37:g.67413212G>A	ENSP00000255082:p.Ala128Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000255082.3	37	CCDS8175.1	.	.	.	.	.	.	.	.	.	.	G	1.017	-0.686076	0.03328	4.55E-4	0.0	ENSG00000132744	ENST00000255082;ENST00000529256	D;D	0.97505	-4.41;-4.41	3.79	0.623	0.17654	.	2.785610	0.01103	N	0.005413	D	0.86049	0.5840	N	0.00347	-1.61	0.09310	N	1	B	0.09022	0.002	B	0.04013	0.001	T	0.82808	-0.0274	10	0.22109	T	0.4	.	4.3548	0.11172	0.2931:0.3178:0.3891:0.0	.	128	Q96HD9	ACY3_HUMAN	V	128;7	ENSP00000255082:A128V;ENSP00000434270:A7V	ENSP00000255082:A128V	A	-	2	0	ACY3	67169788	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.470000	0.06639	-0.081000	0.12662	-0.258000	0.10820	GCG		0.642	ACY3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394002.1	NM_080658		A	67413212	G	A	67413212	3	1	697	1	0	0	0	0	1	0	0	0	227	1087	38	1	596	1	ACY3	11	67413212	Missense_Mutation	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10		67413212	67593304	40	45623										
POU2AF1	5450	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	111228192	111228192	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	tgacattggtgatgagtggcGgagaggcataggtcaacact	15	6	1	4			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr11:111228192G>A	ENST00000393067.3	-	4	948	c.434C>T	c.(433-435)cCg>cTg	p.P145L		NM_006235.2	NP_006226.2	Q16633	OBF1_HUMAN	POU class 2 associating factor 1	145					humoral immune response (GO:0006959)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|transcription coactivator activity (GO:0003713)|transcription cofactor activity (GO:0003712)			breast(1)|kidney(2)|lung(2)	5		all_cancers(61;1.36e-12)|all_epithelial(67;1.87e-07)|Melanoma(852;1.46e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|all_neural(223;0.0146)|Medulloblastoma(222;0.0245)|Breast(348;0.0389)		Epithelial(105;1.01e-06)|BRCA - Breast invasive adenocarcinoma(274;3.12e-06)|all cancers(92;1.8e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0364)		GATGAGTGGCGGAGAGGCATA	0.572			T	BCL6	NHL																																		Dom	yes		11	11q23.1	5450	"POU domain, class 2, associating factor 1 (OBF1)"		L	0													81	70	73					11																	111228192		2201	4297	6498	SO:0001583	missense	5450				CCDS31675.1	11q23.1	2011-06-01	2007-07-13			ENSG00000110777			9211	protein-coding gene	gene with protein product		601206	"POU domain class 2, associating factor 1"			8617501	Standard	NM_006235		Approved	OBF1	uc001plg.4	Q16633		ENST00000393067.3:c.434C>T	11.37:g.111228192G>A	ENSP00000376786:p.Pro145Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R8Z9|Q14983	Missense_Mutation	SNP	ENST00000393067.3	37	CCDS31675.1	.	.	.	.	.	.	.	.	.	.	G	11.34	1.610386	0.28712	.	.	ENSG00000110777	ENST00000393067	T	0.28255	1.62	4.95	3.9	0.45041	.	0.326590	0.29376	N	0.012335	T	0.18718	0.0449	N	0.22421	0.69	0.44937	D	0.997956	B	0.28820	0.224	B	0.22601	0.04	T	0.05007	-1.0912	10	0.27082	T	0.32	-8.7718	10.5839	0.45271	0.0:0.0:0.2373:0.7627	.	145	Q16633	OBF1_HUMAN	L	145	ENSP00000376786:P145L	ENSP00000376786:P145L	P	-	2	0	POU2AF1	110733402	1.000000	0.71417	1.000000	0.80357	0.710000	0.40934	3.360000	0.52299	0.893000	0.36288	0.492000	0.49549	CCG		0.572	POU2AF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000391002.1	NM_006235		A	111228192	G	A	111228192	3	1	697	1	0	0	0	0	1	0	0	0	12277	1116	39	1	344	1	POU2AF1	11	111228192	Missense_Mutation	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10	43814980	111228192	23778324	41	45624										
HTR3A	3359	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	113846045	113846045	+	5'UTR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	ctcctatgcttggaaagctcGctatgctgctgtgggtccag	12	11	0	0	rs200513646		TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr11:113846045G>A	ENST00000504030.2	+	0	443				HTR3A_ENST00000299961.5_5'Flank|HTR3A_ENST00000375498.2_Missense_Mutation_p.A6T|HTR3A_ENST00000355556.2_Missense_Mutation_p.A6T|HTR3A_ENST00000506841.2_5'UTR|HTR3A_ENST00000535865.1_5'UTR			P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A, ionotropic						cation transmembrane transport (GO:0098655)|cation transport (GO:0006812)|cellular response to growth factor stimulus (GO:0071363)|digestion (GO:0007586)|ion transmembrane transport (GO:0034220)|response to cocaine (GO:0042220)|response to ethanol (GO:0045471)|serotonin receptor signaling pathway (GO:0007210)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|transport (GO:0006810)	axon (GO:0030424)|cell junction (GO:0030054)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	receptor activity (GO:0004872)|serotonin binding (GO:0051378)|serotonin receptor activity (GO:0004993)|serotonin-activated cation-selective channel activity (GO:0005232)|voltage-gated potassium channel activity (GO:0005249)			central_nervous_system(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(14)|prostate(1)|skin(4)|upper_aerodigestive_tract(3)	36		all_cancers(61;2.31e-17)|all_epithelial(67;2.1e-10)|all_hematologic(158;4.64e-05)|Melanoma(852;0.000312)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0294)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.71e-06)|Epithelial(105;2.58e-05)|all cancers(92;0.000238)|OV - Ovarian serous cystadenocarcinoma(223;0.191)	Alosetron(DB00969)|Amoxapine(DB00543)|Aripiprazole(DB01238)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Clozapine(DB00363)|Dolasetron(DB00757)|Ergoloid mesylate(DB01049)|Granisetron(DB00889)|Loxapine(DB00408)|Memantine(DB01043)|Methadone(DB00333)|Metoclopramide(DB01233)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Quetiapine(DB01224)|Rocuronium(DB00728)|Tapentadol(DB06204)|Trimipramine(DB00726)|Tubocurarine(DB01199)|Ziprasidone(DB00246)	TGGAAAGCTCGCTATGCTGCT	0.632													G|||	1	0.000199681	0.0008	0.0	5008	,	,		19934	0.0		0.0	False		,,,				2504	0.0															0								G	THR/ALA,THR/ALA	4,4398	8.1+/-20.4	0,4,2197	62	55	58		16,16	-5.2	0	11		58	0,8592		0,0,4296	yes	missense,missense	HTR3A	NM_213621.3,NM_000869.5	58,58	0,4,6493	AA,AG,GG		0.0,0.0909,0.0308	benign,benign	6/517,6/485	113846045	4,12990	2201	4296	6497	SO:0001623	5_prime_UTR_variant	3359			D49394	CCDS8365.1, CCDS8366.1, CCDS8365.2, CCDS8366.2, CCDS53710.1	11q23.1-q23.2	2012-05-22	2012-02-03					"5-HT (serotonin) receptors", "Ligand-gated ion channels / 5-HT (serotonin) receptors, ionotropic"	5297	protein-coding gene	gene with protein product		182139	"5-hydroxytryptamine (serotonin) receptor 3A"	HTR3		8530095, 12867984	Standard	NM_000869		Approved	5-HT3R, 5-HT3A	uc010rxb.2	P46098		ENST00000504030.2:c.-3G>A	11.37:g.113846045G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DSY6|G5E986|O60854|Q7KZM7|Q99918|Q9BSZ9	Missense_Mutation	SNP	ENST00000504030.2	37		.	.	.	.	.	.	.	.	.	.	G	9.618	1.133138	0.21041	9.09E-4	0.0	ENSG00000166736	ENST00000355556;ENST00000375498	T;T	0.77098	-0.99;-1.07	4.94	-5.23	0.02798	.	.	.	.	.	T	0.54615	0.1869	N	0.08118	0	0.29946	N	0.820675	B;B	0.10296	0.003;0.001	B;B	0.06405	0.002;0.001	T	0.33033	-0.9884	9	0.29301	T	0.29	.	12.1527	0.54059	0.5992:0.0:0.4008:0.0	.	6;6	G5E986;Q7KZM7	.;.	T	6	ENSP00000347754:A6T;ENSP00000364648:A6T	ENSP00000347754:A6T	A	+	1	0	HTR3A	113351255	0.000000	0.05858	0.000000	0.03702	0.240000	0.25518	-1.991000	0.01478	-1.239000	0.02532	-0.119000	0.15052	GCT		0.632	HTR3A-001	KNOWN	upstream_ATG|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000360822.2	NM_000869		A	113846045	G	A	113846045	1	1	697	0	1	0	0	0	0	0	0	0	7451	1087	38	1		1	HTR3A	11	113846045	5'UTR	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10	2617853	113846045	21160471	42	45625										
IGFBP6	3489	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	53494509	53494509	+	Frame_Shift_Del	DEL	T	T	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	cctccagttgcagaggagaaTcctaaggagagtaaacccca							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr12:53494509delT	ENST00000301464.3	+	2	621	c.348delT	c.(346-348)aatfs	p.N116fs	SOAT2_ENST00000301466.3_5'Flank|IGFBP6_ENST00000548547.1_Frame_Shift_Del_p.N114fs|IGFBP6_ENST00000549628.1_3'UTR	NM_002178.2	NP_002169.1	P24592	IBP6_HUMAN	insulin-like growth factor binding protein 6	116					cellular protein metabolic process (GO:0044267)|negative regulation of cell proliferation (GO:0008285)|regulation of cell growth (GO:0001558)|signal transduction (GO:0007165)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)				large_intestine(1)|lung(3)|ovary(1)|pancreas(1)	6						CAGAGGAGAATCCTAAGGAGA	0.567																																					Esophageal Squamous(83;1656 1718 30141 34380)											0													95	93	94					12																	53494509		2203	4300	6503	SO:0001589	frameshift_variant	3489				CCDS8846.1	12q13	2008-07-28				ENSG00000167779			5475	protein-coding gene	gene with protein product		146735				1850258, 10087296	Standard	NM_002178		Approved		uc001sbu.1	P24592	OTTHUMG00000169773	ENST00000301464.3:c.348delT	12.37:g.53494509delT	ENSP00000301464:p.Asn116fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q14492	Frame_Shift_Del	DEL	ENST00000301464.3	37	CCDS8846.1																																																																																				0.567	IGFBP6-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000405813.1			-	53494509	T	-	53494509	7	5	697	1	0	1	0	1	0	0	0	0	7590	1432	50	0	354	0	IGFBP6	12	53494509	Frame_Shift_Del	DEL	T	TCGA-P4-A5E8-01A-11D-A28G-10		53494509	80357386	43	45626										
FLT1	2321	broad.mit.edu	37	chr13	29008265	29008265	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gcttcacaggtcagaagcccTatttctttgtacgttgcatt	8	10	3	1			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr13:29008265T>C	ENST00000282397.4	-	5	857	c.606A>G	c.(604-606)atA>atG	p.I202M	FLT1_ENST00000541932.1_Missense_Mutation_p.I202M|FLT1_ENST00000539099.1_Missense_Mutation_p.I202M	NM_002019.4	NP_002010.2	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1	202	Ig-like C2-type 2.				blood vessel morphogenesis (GO:0048514)|cell differentiation (GO:0030154)|cell migration (GO:0016477)|cellular response to vascular endothelial growth factor stimulus (GO:0035924)|embryonic morphogenesis (GO:0048598)|monocyte chemotaxis (GO:0002548)|patterning of blood vessels (GO:0001569)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of angiogenesis (GO:0045766)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of MAPK cascade (GO:0043410)|positive regulation of phosphatidylinositol 3-kinase activity (GO:0043552)|positive regulation of phosphatidylinositol 3-kinase signaling (GO:0014068)|positive regulation of phospholipase C activity (GO:0010863)|positive regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030949)|protein autophosphorylation (GO:0046777)|sprouting angiogenesis (GO:0002040)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)|vascular endothelial growth factor receptor signaling pathway (GO:0048010)|vascular endothelial growth factor receptor-1 signaling pathway (GO:0036323)|vascular endothelial growth factor signaling pathway (GO:0038084)	endosome (GO:0005768)|extracellular space (GO:0005615)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	ATP binding (GO:0005524)|growth factor binding (GO:0019838)|placental growth factor-activated receptor activity (GO:0036332)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)|vascular endothelial growth factor-activated receptor activity (GO:0005021)|VEGF-A-activated receptor activity (GO:0036326)|VEGF-B-activated receptor activity (GO:0036327)			NS(1)|breast(2)|central_nervous_system(5)|endometrium(8)|kidney(3)|large_intestine(20)|lung(55)|ovary(3)|prostate(1)|skin(12)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	115	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)	Axitinib(DB06626)|Pazopanib(DB06589)|Regorafenib(DB08896)|Sorafenib(DB00398)|Sunitinib(DB01268)	TCAGAAGCCCTATTTCTTTGT	0.398																																																0													172	140	151					13																	29008265		2203	4300	6503	SO:0001583	missense	2321			AF063657	CCDS9330.1, CCDS53860.1, CCDS53861.1, CCDS73556.1	13q12	2014-09-17	2012-11-19		ENSG00000102755	ENSG00000102755	2.7.10.1	"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	3763	protein-coding gene	gene with protein product	"vascular endothelial growth factor receptor 1", "vascular permeability factor receptor"	165070	"fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor)"	FLT		2158038	Standard	NM_001159920		Approved	VEGFR1	uc001usb.3	P17948	OTTHUMG00000016648	ENST00000282397.4:c.606A>G	13.37:g.29008265T>C	ENSP00000282397:p.Ile202Met	Somatic		WXS	Illumina HiSeq	Phase_I	A3E342|A3E344|A8KA71|B0LPF1|B2BF46|B2BF47|B2BF48|B3FR89|B5A923|F5H5L6|O60722|P16057|Q12954	Missense_Mutation	SNP	ENST00000282397.4	37	CCDS9330.1	.	.	.	.	.	.	.	.	.	.	T	16.43	3.120898	0.56613	.	.	ENSG00000102755	ENST00000282397;ENST00000541932;ENST00000539099	T;T;T	0.12147	2.71;2.71;2.71	5.78	-4.6	0.03390	Immunoglobulin subtype (1);Immunoglobulin-like fold (1);	0.169796	0.49305	D	0.000151	T	0.18800	0.0451	L	0.52573	1.65	0.38449	D	0.946908	P;P;P;D	0.53745	0.773;0.773;0.773;0.962	P;P;P;D	0.65233	0.849;0.849;0.849;0.933	T	0.12243	-1.0555	10	0.54805	T	0.06	.	4.0105	0.09621	0.5245:0.058:0.1903:0.2273	.	202;202;202;202	P17948-4;P17948-3;P17948-2;P17948	.;.;.;VGFR1_HUMAN	M	202	ENSP00000282397:I202M;ENSP00000437631:I202M;ENSP00000442630:I202M	ENSP00000282397:I202M	I	-	3	3	FLT1	27906265	0.773000	0.28580	0.941000	0.38009	0.916000	0.54674	-0.246000	0.08878	-1.020000	0.03354	-0.341000	0.08007	ATA		0.398	FLT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044322.1			C	29008265	T	C	29008265	3	2	697	1	0	0	0	0	1	0	0	0	5948	1512	53	3	3777	3	FLT1	13	29008265	Missense_Mutation	SNP	T	TCGA-P4-A5E8-01A-11D-A28G-10		29008265	86161613	44	45627										
POSTN	10631	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	38166281	38166281	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	ccattctcatataaccagggCaacattcatataacacagtc	4	12	2	0			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr13:38166281C>A	ENST00000379747.4	-	3	356	c.239G>T	c.(238-240)tGc>tTc	p.C80F	POSTN_ENST00000541179.1_Missense_Mutation_p.C80F|POSTN_ENST00000379749.4_Missense_Mutation_p.C80F|POSTN_ENST00000541481.1_Missense_Mutation_p.C80F|POSTN_ENST00000379742.4_Missense_Mutation_p.C80F|POSTN_ENST00000379743.4_Missense_Mutation_p.C80F	NM_006475.2	NP_006466.2	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor	80	EMI. {ECO:0000255|PROSITE- ProRule:PRU00384}.				cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|regulation of Notch signaling pathway (GO:0008593)|skeletal system development (GO:0001501)|tissue development (GO:0009888)	proteinaceous extracellular matrix (GO:0005578)|trans-Golgi network (GO:0005802)	heparin binding (GO:0008201)			cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(16)|lung(22)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	59		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		ATAACCAGGGCAACATTCATA	0.294																																																0													65	63	64					13																	38166281		2203	4300	6503	SO:0001583	missense	10631			D13665	CCDS9364.1, CCDS45034.1, CCDS53864.1, CCDS66530.1, CCDS66531.1	13q13.3	2008-02-05			ENSG00000133110	ENSG00000133110			16953	protein-coding gene	gene with protein product		608777				8363580, 12235007	Standard	NM_006475		Approved	OSF-2, PN, periostin	uc001uwo.4	Q15063	OTTHUMG00000016751	ENST00000379747.4:c.239G>T	13.37:g.38166281C>A	ENSP00000369071:p.Cys80Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALD8|C0IMJ1|C0IMJ2|C0IMJ4|D2KRH7|F5H628|Q15064|Q29XZ0|Q3KPJ5|Q5VSY5|Q8IZF9	Missense_Mutation	SNP	ENST00000379747.4	37	CCDS9364.1	.	.	.	.	.	.	.	.	.	.	C	22.8	4.337174	0.81911	.	.	ENSG00000133110	ENST00000541179;ENST00000379749;ENST00000379747;ENST00000379743;ENST00000379742;ENST00000541481	D;D;D;D;D;D	0.91577	-2.87;-2.87;-2.87;-2.87;-2.87;-2.87	5.38	5.38	0.77491	EMI domain (1);FAS1 domain (1);	0.000000	0.85682	D	0.000000	D	0.95335	0.8486	M	0.74258	2.255	0.80722	D	1	D;D;D;D;D;D;D	0.89917	0.994;1.0;1.0;0.999;0.996;1.0;1.0	D;D;D;D;D;D;D	0.97110	0.988;0.998;0.999;0.998;0.995;1.0;0.999	D	0.95462	0.8544	10	0.87932	D	0	.	19.4972	0.95079	0.0:1.0:0.0:0.0	.	80;80;80;80;80;80;80	C0IMJ4;F5H628;B1ALD8;Q15063-3;Q15063-4;Q15063-2;Q15063	.;.;.;.;.;.;POSTN_HUMAN	F	80	ENSP00000437959:C80F;ENSP00000369073:C80F;ENSP00000369071:C80F;ENSP00000369067:C80F;ENSP00000369066:C80F;ENSP00000437953:C80F	ENSP00000369066:C80F	C	-	2	0	POSTN	37064281	1.000000	0.71417	0.999000	0.59377	0.925000	0.55904	7.421000	0.80204	2.668000	0.90789	0.563000	0.77884	TGC		0.294	POSTN-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000044566.2	NM_006475		A	38166281	C	A	38166281	3	1	697	1	0	0	0	0	1	0	0	0	12266	710	25	4	2355	4	POSTN	13	38166281	Missense_Mutation	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10	9158016	38166281	77003597	45	45628										
HIF1A	3091	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	62194216	62194223	+	Frame_Shift_Del	DEL	AACCAACC	AACCAACC	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	acgtatatgataccaacagtAaccaacctcagtgtgggtat					rs369217648		TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	AACCAACC	AACCAACC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr14:62194216_62194223delAACCAACC	ENST00000337138.4	+	6	881_888	c.616_623delAACCAACC	c.(616-624)aaccaacctfs	p.NQP206fs	HIF1A_ENST00000323441.6_Frame_Shift_Del_p.NQP206fs|HIF1A_ENST00000557538.1_Frame_Shift_Del_p.NQP147fs|HIF1A_ENST00000394997.1_Frame_Shift_Del_p.NQP207fs|HIF1A_ENST00000539097.1_Frame_Shift_Del_p.NQP230fs|HIF1A-AS2_ENST00000554254.1_lincRNA|HIF1A_ENST00000557206.1_3'UTR	NM_001530.3	NP_001521.1	Q16665	HIF1A_HUMAN	hypoxia inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor)	206	Interaction with TSGA10. {ECO:0000250}.				angiogenesis (GO:0001525)|axon transport of mitochondrion (GO:0019896)|B-1 B cell homeostasis (GO:0001922)|cardiac ventricle morphogenesis (GO:0003208)|cartilage development (GO:0051216)|cellular iron ion homeostasis (GO:0006879)|cellular response to hypoxia (GO:0071456)|cellular response to interleukin-1 (GO:0071347)|cerebral cortex development (GO:0021987)|collagen metabolic process (GO:0032963)|connective tissue replacement involved in inflammatory response wound healing (GO:0002248)|digestive tract morphogenesis (GO:0048546)|dopaminergic neuron differentiation (GO:0071542)|elastin metabolic process (GO:0051541)|embryonic hemopoiesis (GO:0035162)|embryonic placenta development (GO:0001892)|epithelial cell differentiation involved in mammary gland alveolus development (GO:0061030)|epithelial to mesenchymal transition (GO:0001837)|glucose homeostasis (GO:0042593)|heart looping (GO:0001947)|hemoglobin biosynthetic process (GO:0042541)|intestinal epithelial cell maturation (GO:0060574)|lactate metabolic process (GO:0006089)|lactation (GO:0007595)|mRNA transcription from RNA polymerase II promoter (GO:0042789)|muscle cell cellular homeostasis (GO:0046716)|negative regulation of bone mineralization (GO:0030502)|negative regulation of growth (GO:0045926)|negative regulation of mesenchymal cell apoptotic process (GO:2001054)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway (GO:1903377)|negative regulation of thymocyte apoptotic process (GO:0070244)|negative regulation of TOR signaling (GO:0032007)|neural crest cell migration (GO:0001755)|neural fold elevation formation (GO:0021502)|Notch signaling pathway (GO:0007219)|outflow tract morphogenesis (GO:0003151)|oxygen homeostasis (GO:0032364)|positive regulation of angiogenesis (GO:0045766)|positive regulation of chemokine production (GO:0032722)|positive regulation of chemokine-mediated signaling pathway (GO:0070101)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of epithelial cell migration (GO:0010634)|positive regulation of erythrocyte differentiation (GO:0045648)|positive regulation of glycolytic process (GO:0045821)|positive regulation of hormone biosynthetic process (GO:0046886)|positive regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0035774)|positive regulation of neuroblast proliferation (GO:0002052)|positive regulation of nitric-oxide synthase activity (GO:0051000)|positive regulation of receptor biosynthetic process (GO:0010870)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061419)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030949)|positive regulation vascular endothelial growth factor production (GO:0010575)|regulation of gene expression (GO:0010468)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of transcription from RNA polymerase II promoter in response to oxidative stress (GO:0043619)|regulation of transcription, DNA-templated (GO:0006355)|regulation of transforming growth factor beta2 production (GO:0032909)|response to hypoxia (GO:0001666)|response to muscle activity (GO:0014850)|retina vasculature development in camera-type eye (GO:0061298)|signal transduction (GO:0007165)|vascular endothelial growth factor production (GO:0010573)|visual learning (GO:0008542)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|motile cilium (GO:0031514)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|Hsp90 protein binding (GO:0051879)|nuclear hormone receptor binding (GO:0035257)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II transcription factor binding transcription factor activity (GO:0001076)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)|transcription factor binding (GO:0008134)|transcription factor binding transcription factor activity (GO:0000989)|ubiquitin protein ligase binding (GO:0031625)			breast(2)|endometrium(8)|kidney(6)|large_intestine(3)|lung(4)	23				OV - Ovarian serous cystadenocarcinoma(108;1.62e-09)|BRCA - Breast invasive adenocarcinoma(234;0.189)	Carvedilol(DB01136)	TACCAACAGTAACCAACCTCAGTGTGGG	0.385																																																0																																										SO:0001589	frameshift_variant	3091			U22431	CCDS9753.1, CCDS9754.1, CCDS58324.1	14q23.2	2013-05-21	2008-12-02		ENSG00000100644	ENSG00000100644		"Basic helix-loop-helix proteins"	4910	protein-coding gene	gene with protein product		603348				8786149, 9079689	Standard	NM_001530		Approved	MOP1, HIF-1alpha, PASD8, HIF1, bHLHe78	uc001xfq.2	Q16665	OTTHUMG00000140344	ENST00000337138.4:c.616_623delAACCAACC	14.37:g.62194216_62194223delAACCAACC	ENSP00000338018:p.Asn206fs	Somatic		WXS	Illumina HiSeq	Phase_I	C0LZJ3|Q53XP6|Q96PT9|Q9UPB1	Frame_Shift_Del	DEL	ENST00000337138.4	37	CCDS9753.1																																																																																				0.385	HIF1A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000276977.2	NM_001530		-	62194223	AACCAACC	-	62194216	7	5	697	1	0	1	0	1	0	0	0	0	7110	362	13	0	638	0	HIF1A	14	62194216	Frame_Shift_Del	DEL	AACCAACC	TCGA-P4-A5E8-01A-11D-A28G-10		62194216	45155324	46	45629	499	2								
HIF1A	3091	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	62194225	62194225	+	Frame_Shift_Del	DEL	C	C	-													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	ataccaacagtaaccaacctCagtgtgggtataagaaacca							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr14:62194225delC	ENST00000337138.4	+	6	890	c.625delC	c.(625-627)cagfs	p.Q209fs	HIF1A_ENST00000323441.6_Frame_Shift_Del_p.Q209fs|HIF1A_ENST00000557538.1_Frame_Shift_Del_p.Q150fs|HIF1A_ENST00000394997.1_Frame_Shift_Del_p.Q210fs|HIF1A_ENST00000539097.1_Frame_Shift_Del_p.Q233fs|HIF1A-AS2_ENST00000554254.1_lincRNA|HIF1A_ENST00000557206.1_3'UTR	NM_001530.3	NP_001521.1	Q16665	HIF1A_HUMAN	hypoxia inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor)	209	Interaction with TSGA10. {ECO:0000250}.				angiogenesis (GO:0001525)|axon transport of mitochondrion (GO:0019896)|B-1 B cell homeostasis (GO:0001922)|cardiac ventricle morphogenesis (GO:0003208)|cartilage development (GO:0051216)|cellular iron ion homeostasis (GO:0006879)|cellular response to hypoxia (GO:0071456)|cellular response to interleukin-1 (GO:0071347)|cerebral cortex development (GO:0021987)|collagen metabolic process (GO:0032963)|connective tissue replacement involved in inflammatory response wound healing (GO:0002248)|digestive tract morphogenesis (GO:0048546)|dopaminergic neuron differentiation (GO:0071542)|elastin metabolic process (GO:0051541)|embryonic hemopoiesis (GO:0035162)|embryonic placenta development (GO:0001892)|epithelial cell differentiation involved in mammary gland alveolus development (GO:0061030)|epithelial to mesenchymal transition (GO:0001837)|glucose homeostasis (GO:0042593)|heart looping (GO:0001947)|hemoglobin biosynthetic process (GO:0042541)|intestinal epithelial cell maturation (GO:0060574)|lactate metabolic process (GO:0006089)|lactation (GO:0007595)|mRNA transcription from RNA polymerase II promoter (GO:0042789)|muscle cell cellular homeostasis (GO:0046716)|negative regulation of bone mineralization (GO:0030502)|negative regulation of growth (GO:0045926)|negative regulation of mesenchymal cell apoptotic process (GO:2001054)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway (GO:1903377)|negative regulation of thymocyte apoptotic process (GO:0070244)|negative regulation of TOR signaling (GO:0032007)|neural crest cell migration (GO:0001755)|neural fold elevation formation (GO:0021502)|Notch signaling pathway (GO:0007219)|outflow tract morphogenesis (GO:0003151)|oxygen homeostasis (GO:0032364)|positive regulation of angiogenesis (GO:0045766)|positive regulation of chemokine production (GO:0032722)|positive regulation of chemokine-mediated signaling pathway (GO:0070101)|positive regulation of endothelial cell proliferation (GO:0001938)|positive regulation of epithelial cell migration (GO:0010634)|positive regulation of erythrocyte differentiation (GO:0045648)|positive regulation of glycolytic process (GO:0045821)|positive regulation of hormone biosynthetic process (GO:0046886)|positive regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0035774)|positive regulation of neuroblast proliferation (GO:0002052)|positive regulation of nitric-oxide synthase activity (GO:0051000)|positive regulation of receptor biosynthetic process (GO:0010870)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061419)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030949)|positive regulation vascular endothelial growth factor production (GO:0010575)|regulation of gene expression (GO:0010468)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of transcription from RNA polymerase II promoter in response to oxidative stress (GO:0043619)|regulation of transcription, DNA-templated (GO:0006355)|regulation of transforming growth factor beta2 production (GO:0032909)|response to hypoxia (GO:0001666)|response to muscle activity (GO:0014850)|retina vasculature development in camera-type eye (GO:0061298)|signal transduction (GO:0007165)|vascular endothelial growth factor production (GO:0010573)|visual learning (GO:0008542)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|motile cilium (GO:0031514)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	enzyme binding (GO:0019899)|histone acetyltransferase binding (GO:0035035)|Hsp90 protein binding (GO:0051879)|nuclear hormone receptor binding (GO:0035257)|protein heterodimerization activity (GO:0046982)|protein kinase binding (GO:0019901)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II transcription factor binding transcription factor activity (GO:0001076)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)|transcription factor binding (GO:0008134)|transcription factor binding transcription factor activity (GO:0000989)|ubiquitin protein ligase binding (GO:0031625)			breast(2)|endometrium(8)|kidney(6)|large_intestine(3)|lung(4)	23				OV - Ovarian serous cystadenocarcinoma(108;1.62e-09)|BRCA - Breast invasive adenocarcinoma(234;0.189)	Carvedilol(DB01136)	TAACCAACCTCAGTGTGGGTA	0.383																																																0													166	142	150					14																	62194225		2203	4300	6503	SO:0001589	frameshift_variant	3091			U22431	CCDS9753.1, CCDS9754.1, CCDS58324.1	14q23.2	2013-05-21	2008-12-02		ENSG00000100644	ENSG00000100644		"Basic helix-loop-helix proteins"	4910	protein-coding gene	gene with protein product		603348				8786149, 9079689	Standard	NM_001530		Approved	MOP1, HIF-1alpha, PASD8, HIF1, bHLHe78	uc001xfq.2	Q16665	OTTHUMG00000140344	ENST00000337138.4:c.625delC	14.37:g.62194225delC	ENSP00000338018:p.Gln209fs	Somatic		WXS	Illumina HiSeq	Phase_I	C0LZJ3|Q53XP6|Q96PT9|Q9UPB1	Frame_Shift_Del	DEL	ENST00000337138.4	37	CCDS9753.1																																																																																				0.383	HIF1A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000276977.2	NM_001530		-	62194225	C	-	62194225	7	5	697	1	0	1	0	1	0	0	0	0	7110	827	29	0	647	0	HIF1A	14	62194225	Frame_Shift_Del	DEL	C	TCGA-P4-A5E8-01A-11D-A28G-10	9	62194225	45155315	47	45630	499	2								
TP53BP1	7158	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	43748237	43748237	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	tttctcctgagtttggggctGctgcaactcctggtcaagtc	11	11	2	1			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr15:43748237G>A	ENST00000263801.3	-	12	2806	c.2554C>T	c.(2554-2556)Cag>Tag	p.Q852*	TP53BP1_ENST00000382044.4_Nonsense_Mutation_p.Q857*|TP53BP1_ENST00000450115.2_Nonsense_Mutation_p.Q857*|TP53BP1_ENST00000382039.3_Nonsense_Mutation_p.Q857*|TP53BP1_ENST00000605155.1_5'UTR	NM_005657.2	NP_005648.1	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1	852					cellular response to DNA damage stimulus (GO:0006974)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|kinetochore (GO:0000776)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|replication fork (GO:0005657)	damaged DNA binding (GO:0003684)|methylated histone binding (GO:0035064)|p53 binding (GO:0002039)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II transcription cofactor activity (GO:0001104)|telomeric DNA binding (GO:0042162)			breast(4)|endometrium(5)|kidney(7)|large_intestine(22)|lung(13)|ovary(4)|pancreas(2)|prostate(1)|skin(10)|upper_aerodigestive_tract(1)|urinary_tract(3)	72		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		GTTTGGGGCTGCTGCAACTCC	0.458								Other conserved DNA damage response genes																																								0													181	178	179					15																	43748237		2201	4298	6499	SO:0001587	stop_gained	7158			U09477	CCDS10096.1, CCDS45250.1, CCDS45251.1	15q15-q21	2007-08-02	2007-08-02		ENSG00000067369	ENSG00000067369			11999	protein-coding gene	gene with protein product		605230	"tumor protein p53-binding protein, 1"			8016121, 9748285	Standard	NM_005657		Approved	53BP1, p202	uc001zrr.4	Q12888	OTTHUMG00000059757	ENST00000263801.3:c.2554C>T	15.37:g.43748237G>A	ENSP00000263801:p.Gln852*	Somatic		WXS	Illumina HiSeq	Phase_I	F8VY86|Q2M1Z7|Q4LE46|Q5FWZ3|Q7Z3U4	Nonsense_Mutation	SNP	ENST00000263801.3	37	CCDS10096.1	.	.	.	.	.	.	.	.	.	.	G	37	6.362726	0.97507	.	.	ENSG00000067369	ENST00000263801;ENST00000382044;ENST00000382039;ENST00000450115;ENST00000413546	.	.	.	5.37	4.44	0.53790	.	0.405695	0.25091	N	0.033212	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.11182	T	0.66	-1.0009	12.5477	0.56210	0.0:0.1669:0.833:0.0	.	.	.	.	X	852;857;857;857;857	.	ENSP00000263801:Q852X	Q	-	1	0	TP53BP1	41535529	0.317000	0.24589	0.067000	0.19924	0.006000	0.05464	1.799000	0.38824	1.364000	0.46038	0.650000	0.86243	CAG		0.458	TP53BP1-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000132897.3			A	43748237	G	A	43748237	4	1	697	1	0	0	0	0	0	1	0	0	16395	1328	46	2	3432	2	TP53BP1	15	43748237	Nonsense_Mutation	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10		43748237	58783155	48	45631										
NOX5	79400	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	69339166	69339166	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gctctactccctgcagggctCtgagatacttttggagaaac	10	11	2	2			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr15:69339166C>A	ENST00000388866.3	+	11	1693	c.1652C>A	c.(1651-1653)tCt>tAt	p.S551Y	NOX5_ENST00000448182.3_Missense_Mutation_p.S505Y|NOX5_ENST00000530406.2_Missense_Mutation_p.S523Y|NOX5_ENST00000455873.3_Missense_Mutation_p.S516Y|NOX5_ENST00000525163.1_3'UTR|NOX5_ENST00000260364.5_Missense_Mutation_p.S533Y	NM_001184779.1|NM_024505.3	NP_001171708.1|NP_078781.3	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	551	C-terminal catalytic region.|FAD-binding FR-type. {ECO:0000255|PROSITE-ProRule:PRU00716}.				angiogenesis (GO:0001525)|apoptotic process (GO:0006915)|cell proliferation (GO:0008283)|cytokine secretion (GO:0050663)|cytokinesis (GO:0000910)|endothelial cell proliferation (GO:0001935)|oxidation-reduction process (GO:0055114)|positive regulation of reactive oxygen species metabolic process (GO:2000379)|proton transport (GO:0015992)|regulation of fusion of sperm to egg plasma membrane (GO:0043012)|regulation of proton transport (GO:0010155)|superoxide anion generation (GO:0042554)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)|flavin adenine dinucleotide binding (GO:0050660)|heme binding (GO:0020037)|hydrogen ion channel activity (GO:0015252)|NADP binding (GO:0050661)|superoxide-generating NADPH oxidase activity (GO:0016175)			breast(3)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|liver(2)|lung(18)|pancreas(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	35						CTGCAGGGCTCTGAGATACTT	0.468																																																0													110	108	109					15																	69339166		2200	4298	6498	SO:0001583	missense	79400			AF317889	CCDS32276.1, CCDS32276.2, CCDS53953.1, CCDS53954.1	15q22.31	2013-01-10			ENSG00000255346	ENSG00000255346		"EF-hand domain containing"	14874	protein-coding gene	gene with protein product		606572				11483596	Standard	NM_001184779		Approved	NOX5A, NOX5B	uc002ars.2	Q96PH1	OTTHUMG00000133320	ENST00000388866.3:c.1652C>A	15.37:g.69339166C>A	ENSP00000373518:p.Ser551Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBJ4|Q08AN2|Q08AN3|Q8TEQ1|Q8TER4|Q96PH2|Q96PJ8|Q96PJ9|Q9H6E0|Q9HAM8	Missense_Mutation	SNP	ENST00000388866.3	37	CCDS32276.2	.	.	.	.	.	.	.	.	.	.	C	12.47	1.947923	0.34377	.	.	ENSG00000255346	ENST00000455873;ENST00000448182;ENST00000388866;ENST00000530406	D;D;D	0.94138	-2.81;-3.36;-2.81	2.86	2.86	0.33363	Riboflavin synthase-like beta-barrel (1);FAD-binding 8 (1);Ferredoxin reductase-type FAD-binding domain (1);	0.767112	0.11794	N	0.528874	D	0.93766	0.8007	M	0.63843	1.955	0.35333	D	0.785795	P;D;P	0.53885	0.755;0.963;0.874	B;P;P	0.52267	0.444;0.694;0.568	D	0.94240	0.7484	10	0.62326	D	0.03	-0.7529	11.1896	0.48677	0.0:1.0:0.0:0.0	.	516;551;523	Q96PH1-6;Q96PH1;Q96PH1-3	.;NOX5_HUMAN;.	Y	516;533;551;523	ENSP00000416828:S516Y;ENSP00000373518:S551Y;ENSP00000432440:S523Y	ENSP00000373518:S551Y	S	+	2	0	NOX5	67126220	0.005000	0.15991	0.010000	0.14722	0.009000	0.06853	0.085000	0.14912	1.558000	0.49541	0.407000	0.27541	TCT		0.468	NOX5-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000257124.2	NM_024505		A	69339166	C	A	69339166	3	1	697	1	0	0	0	0	1	0	0	0	10566	913	32	4	1727	4	NOX5	15	69339166	Missense_Mutation	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10	25590929	69339166	33192226	49	45632										
VASN	114990	broad.mit.edu	37	chr16	4432543	4432543	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gcctgcggggaggcccatacAcccccagccgtccactccaa	10	19	0	0			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr16:4432543A>C	ENST00000304735.3	+	2	1820	c.1665A>C	c.(1663-1665)acA>acC	p.T555T	CORO7_ENST00000537233.2_Intron|CORO7_ENST00000539968.1_Intron|CORO7-PAM16_ENST00000572467.1_Intron|CORO7_ENST00000574025.1_Intron|CORO7_ENST00000423908.2_Intron|CORO7_ENST00000251166.4_Intron	NM_138440.2	NP_612449.2	Q6EMK4	VASN_HUMAN	vasorin	555	Fibronectin type-III. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cellular response to hypoxia (GO:0071456)|cellular response to redox state (GO:0071461)|negative regulation of epithelial to mesenchymal transition (GO:0010719)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)	cell surface (GO:0009986)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)	transforming growth factor beta binding (GO:0050431)			breast(1)|lung(3)|prostate(1)|skin(1)	6						AGGCCCATACACCCCCAGCCG	0.731																																																0													11	17	15					16																	4432543		2155	4252	6407	SO:0001819	synonymous_variant	114990			AY358299	CCDS10514.1	16p13.3	2008-02-05	2006-03-30	2006-03-30	ENSG00000168140	ENSG00000168140			18517	protein-coding gene	gene with protein product		608843	"slit-like 2 (Drosophila)"	SLITL2		15247411	Standard	NM_138440		Approved		uc002cwj.1	Q6EMK4	OTTHUMG00000129469	ENST00000304735.3:c.1665A>C	16.37:g.4432543A>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXL4|Q6UXL5|Q96CX1	Silent	SNP	ENST00000304735.3	37	CCDS10514.1																																																																																				0.731	VASN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251632.1	NM_138440		C	4432543	A	C	4432543	2	2	697	1	0	0	0	0	0	0	0	1	17139	146	6	5		5	VASN	16	4432543	Silent	SNP	A	TCGA-P4-A5E8-01A-11D-A28G-10		4432543	85922210	50	45633										
ABCC1	4363	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	16177358	16177358	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gtgccctcctcccagacctgGaaatcctgcccagtggggat	11	15	0	1			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr16:16177358G>A	ENST00000399410.3	+	17	2426	c.2251G>A	c.(2251-2253)Gaa>Aaa	p.E751K	ABCC1_ENST00000345148.5_Missense_Mutation_p.E751K|ABCC1_ENST00000349029.5_Intron|ABCC1_ENST00000346370.5_Missense_Mutation_p.E751K|ABCC1_ENST00000351154.5_Intron|ABCC1_ENST00000399408.2_Missense_Mutation_p.E751K	NM_004996.3	NP_004987.2	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 1	751	ABC transporter 1. {ECO:0000255|PROSITE- ProRule:PRU00434}.				arachidonic acid metabolic process (GO:0019369)|ATP catabolic process (GO:0006200)|cobalamin metabolic process (GO:0009235)|leukotriene metabolic process (GO:0006691)|response to drug (GO:0042493)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|transport (GO:0006810)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|transporter activity (GO:0005215)			breast(3)|endometrium(9)|kidney(3)|large_intestine(12)|lung(20)|ovary(5)|prostate(1)|skin(3)	56					Abiraterone(DB05812)|Aminohippurate(DB00345)|Amprenavir(DB00701)|Atazanavir(DB01072)|Atorvastatin(DB01076)|Colchicine(DB01394)|Conjugated Estrogens(DB00286)|Cyclosporine(DB00091)|Dactinomycin(DB00970)|Daunorubicin(DB00694)|Diclofenac(DB00586)|Docetaxel(DB01248)|Doxorubicin(DB00997)|Epirubicin(DB00445)|Erythromycin(DB00199)|Etoposide(DB00773)|Fluorescein(DB00693)|Glutathione(DB00143)|Glyburide(DB01016)|Ibuprofen(DB01050)|Idarubicin(DB01177)|Indinavir(DB00224)|Indomethacin(DB00328)|Irinotecan(DB00762)|Ivermectin(DB00602)|Lamivudine(DB00709)|Methotrexate(DB00563)|Mifepristone(DB00834)|Mitoxantrone(DB01204)|Ofloxacin(DB01165)|Paclitaxel(DB01229)|Phenobarbital(DB01174)|Probenecid(DB01032)|Progesterone(DB00396)|Rifampicin(DB01045)|Ritonavir(DB00503)|Rosuvastatin(DB01098)|Saquinavir(DB01232)|Saxagliptin(DB06335)|Sulfinpyrazone(DB01138)|Vandetanib(DB05294)|Vemurafenib(DB08881)|Verapamil(DB00661)|Vinblastine(DB00570)|Vincristine(DB00541)|Zoledronate(DB00399)	CCCAGACCTGGAAATCCTGCC	0.517																																																0													82	84	83					16																	16177358		2014	4202	6216	SO:0001583	missense	4363			L05628	CCDS42122.1	16p13.1	2012-03-14			ENSG00000103222	ENSG00000103222		"ATP binding cassette transporters / subfamily C"	51	protein-coding gene	gene with protein product		158343	"multidrug resistance associated protein 1"	MRP, MRP1		8098549, 1360704	Standard	NM_004996		Approved	GS-X	uc010bvi.3	P33527	OTTHUMG00000048267	ENST00000399410.3:c.2251G>A	16.37:g.16177358G>A	ENSP00000382342:p.Glu751Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A3RJX2|C9JPJ4|O14819|O43333|P78419|Q59GI9|Q9UQ97|Q9UQ99|Q9UQA0	Missense_Mutation	SNP	ENST00000399410.3	37	CCDS42122.1	.	.	.	.	.	.	.	.	.	.	G	22.8	4.334110	0.81801	.	.	ENSG00000103222	ENST00000399410;ENST00000399408;ENST00000346370;ENST00000345148;ENST00000536381	D;D;D;D	0.93906	-3.31;-3.31;-2.69;-3.31	5.29	5.29	0.74685	ATPase, AAA+ type, core (1);ABC transporter-like (2);	0.045819	0.85682	D	0.000000	D	0.94122	0.8115	N	0.25890	0.77	0.80722	D	1	P;D;P;P	0.71674	0.877;0.998;0.583;0.877	P;D;P;B	0.80764	0.538;0.994;0.455;0.438	D	0.94049	0.7316	10	0.41790	T	0.15	-18.2126	17.9191	0.88961	0.0:0.0:1.0:0.0	.	751;751;751;751	P33527-4;P33527-3;P33527;P33527-9	.;.;MRP1_HUMAN;.	K	751;751;751;751;425	ENSP00000382342:E751K;ENSP00000382340:E751K;ENSP00000263019:E751K;ENSP00000263014:E751K	ENSP00000263014:E751K	E	+	1	0	ABCC1	16084859	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	6.549000	0.73900	2.484000	0.83849	0.563000	0.77884	GAA		0.517	ABCC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000109701.1	NM_004996		A	16177358	G	A	16177358	3	1	697	1	0	0	0	0	1	0	0	0	49	1175	41	2	2317	2	ABCC1	16	16177358	Missense_Mutation	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10	11744815	16177358	74177395	51	45634										
RLTPR	146206	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	67683208	67683208	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gtccagctcatgcaggacgaCgattgtgtgagttcacggga	14	9	2	1			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr16:67683208C>T	ENST00000334583.6	+	19	2068	c.1740C>T	c.(1738-1740)gaC>gaT	p.D580D	RLTPR_ENST00000545661.1_Silent_p.D544D	NM_001013838.1	NP_001013860.1	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin domain and proline-rich containing	580	Tropomodulin-like.				cell migration (GO:0016477)|establishment of protein localization (GO:0045184)|homeostasis of number of cells (GO:0048872)|maintenance of cell polarity (GO:0030011)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of interferon-gamma secretion (GO:1902715)|positive regulation of interleukin-2 secretion (GO:1900042)|positive regulation of regulatory T cell differentiation (GO:0045591)|positive regulation of T cell proliferation (GO:0042102)|T cell receptor signaling pathway (GO:0050852)|thymus development (GO:0048538)	cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|F-actin capping protein complex (GO:0008290)|immunological synapse (GO:0001772)|membrane (GO:0016020)				breast(1)|cervix(1)|endometrium(4)|kidney(1)|lung(9)|urinary_tract(2)	18		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)		TGCAGGACGACGATTGTGTGA	0.612																																																0													64	71	69					16																	67683208		2055	4210	6265	SO:0001819	synonymous_variant	146206			AB113647	CCDS45513.1	16q22.1	2010-09-10				ENSG00000159753			27089	protein-coding gene	gene with protein product	"RGD, leucine-rich repeat, tropomodulin and proline-rich containing protein", "leucine rich repeat containing 16C"	610859				15588584, 19846667	Standard	XM_005255807		Approved	LRRC16C, CARMIL2	uc002etn.3	Q6F5E8		ENST00000334583.6:c.1740C>T	16.37:g.67683208C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B8X2Z3	Silent	SNP	ENST00000334583.6	37	CCDS45513.1																																																																																				0.612	RLTPR-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000467858.1	NM_001013838		T	67683208	C	T	67683208	2	4	697	1	0	0	0	0	0	0	0	1	13407	535	19	1		1	RLTPR	16	67683208	Silent	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10	51505850	67683208	22671545	52	45635										
CFDP1	10428	broad.mit.edu	37	chr16	75446511	75446512	+	Frame_Shift_Ins	INS	-	-	T													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	cccagagttcgtcctccttcINStttttcctggcatcctctga							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr16:75446511_75446512insT	ENST00000283882.3	-	3	455_456	c.323_324insA	c.(322-324)aagfs	p.K108fs	CFDP1_ENST00000564286.1_5'UTR|RP11-77K12.1_ENST00000561887.1_5'Flank	NM_006324.2	NP_006315.1	Q9UEE9	CFDP1_HUMAN	craniofacial development protein 1	108	Glu-rich.				cell adhesion (GO:0007155)|multicellular organismal development (GO:0007275)|negative regulation of fibroblast apoptotic process (GO:2000270)|regulation of cell proliferation (GO:0042127)|regulation of cell shape (GO:0008360)					endometrium(1)|kidney(1)|large_intestine(1)|lung(1)|upper_aerodigestive_tract(1)	5						CGTCCTCCTTCTTTTTCCTGGC	0.485																																																0																																										SO:0001589	frameshift_variant	10428			AB009285	CCDS10916.1	16q22.2-q22.3	2011-08-12			ENSG00000153774	ENSG00000153774			1873	protein-coding gene	gene with protein product	"Bucentaur", "centromere protein 29"	608108				9602175, 9006920, 11992732	Standard	NM_006324		Approved	BCNT, p97, CP27, SWC5, Yeti, CENP-29	uc002fdy.3	Q9UEE9	OTTHUMG00000137615	ENST00000283882.3:c.324dupA	16.37:g.75446516_75446516dupT	ENSP00000283882:p.Lys108fs	Somatic		WXS	Illumina HiSeq	Phase_I	O00393|O00404|Q9UEF0|Q9UEF1|Q9UEF8	Frame_Shift_Ins	INS	ENST00000283882.3	37	CCDS10916.1																																																																																				0.485	CFDP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269031.2	NM_006324		T	75446512	-	T	75446511	7	5	697	1	0	1	1	0	0	0	0	0	3284	912	32	0	595	0	CFDP1	16	75446511	Frame_Shift_Ins	INS	-	TCGA-P4-A5E8-01A-11D-A28G-10	7763303	75446511	14908242	53	45636										
MYO18A	399687	broad.mit.edu	37	chr17	27437604	27437604	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	ccagagagcaccgtggcactGcctgcgcggcccagaaacag	13	15	0	2			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr17:27437604G>T	ENST00000527372.1	-	18	3117	c.2937C>A	c.(2935-2937)ggC>ggA	p.G979G	MYO18A_ENST00000533112.1_Silent_p.G979G|MYO18A_ENST00000531253.1_Silent_p.G979G|MYO18A_ENST00000354329.4_Silent_p.G979G	NM_078471.3	NP_510880.2	Q92614	MY18A_HUMAN	myosin XVIIIA	979	Myosin motor.				actomyosin structure organization (GO:0031032)|cell migration (GO:0016477)|DNA metabolic process (GO:0006259)|Golgi organization (GO:0007030)|Golgi vesicle budding (GO:0048194)|negative regulation of apoptotic process (GO:0043066)|positive regulation of protein secretion (GO:0050714)	actomyosin (GO:0042641)|Golgi membrane (GO:0000139)|membrane (GO:0016020)|myosin complex (GO:0016459)|trans-Golgi network (GO:0005802)	actin filament binding (GO:0051015)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|DNA binding (GO:0003677)|motor activity (GO:0003774)|poly(A) RNA binding (GO:0044822)	p.G979G(2)		NS(1)|cervix(1)|endometrium(6)|kidney(6)|lung(20)|urinary_tract(2)	36			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			CCGTGGCACTGCCTGCGCGGC	0.627																																					Esophageal Squamous(182;472 2015 7001 15270 22562)											2	Substitution - coding silent(2)	endometrium(2)											39	43	42					17																	27437604		1981	4171	6152	SO:0001819	synonymous_variant	399687			D86970	CCDS45641.1, CCDS45642.1	17q11.2	2011-09-27			ENSG00000196535	ENSG00000196535		"Myosins / Myosin superfamily : Class XVIII"	31104	protein-coding gene	gene with protein product		610067				12761286	Standard	NM_078471		Approved	KIAA0216, MysPDZ	uc002hdt.1	Q92614	OTTHUMG00000166360	ENST00000527372.1:c.2937C>A	17.37:g.27437604G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5H9U3|Q5W9F9|Q5W9G1|Q8IXP8	Silent	SNP	ENST00000527372.1	37	CCDS45642.1																																																																																				0.627	MYO18A-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000389396.1	NM_078471		T	27437604	G	T	27437604	2	4	697	1	0	0	0	0	0	0	0	1	10072	1306	46	4		4	MYO18A	17	27437604	Silent	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10		27437604	53757606	54	45637										
KRTAP4-5	85289	hgsc.bcm.edu	37	chr17	39305774	39305775	+	Missense_Mutation	DNP	CT	CT	GC													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gtggtcctgcagcaggtggtCtggcagcagcaggggcggca					rs137947981|rs535144703|rs141265645|rs58117746	byFrequency	TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr17:39305774_39305775CT>GC	ENST00000343246.4	-	1	279_280	c.245_246AG>GC	c.(244-246)cAG>cGC	p.Q82R		NM_033188.3	NP_149445.3	Q9BYR2	KRA45_HUMAN	keratin associated protein 4-5	82	26 X 5 AA repeats of C-C-[GRQVCHIEK]- [SPTR]-[VSTQYC].				aging (GO:0007568)|hair cycle (GO:0042633)	keratin filament (GO:0045095)		p.Q82H(1)		central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|lung(4)	6		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			agcaggtggtctggcagcagca	0.653																																																1	Substitution - Missense(1)	lung(1)																																								SO:0001583	missense	85289			AJ406937	CCDS32650.1	17q21.2	2013-06-25			ENSG00000198271	ENSG00000198271		"Keratin associated proteins"	18899	protein-coding gene	gene with protein product						11279113	Standard	NM_033188		Approved	KAP4.5	uc002hwb.3	Q9BYR2	OTTHUMG00000133638	ENST00000343246.4:c.245_246delinsGC	17.37:g.39305774_39305775delinsGC	ENSP00000340546:p.Gln82Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	DNP	ENST00000343246.4	37	CCDS32650.1																																																																																				0.653	KRTAP4-5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257783.1			GC	39305775	CT	GC	39305774	3	3	697	1	0	0	0	0	1	0	0	0	8561	912	32	4	303	4	KRTAP4-5	17	39305774	Missense_Mutation	DNP	CT	TCGA-P4-A5E8-01A-11D-A28G-10	11868170	39305774	41889436	55	45638										
SP6	80320	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	45925061	45925061	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	tgcttcttcttgcccccatcGggcccacatggagcccccag	9	18	2	0			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr17:45925061G>A	ENST00000536300.1	-	2	1066	c.735C>T	c.(733-735)ccC>ccT	p.P245P	SP6_ENST00000342234.2_Silent_p.P245P	NM_001258248.1	NP_001245177.1	Q3SY56	SP6_HUMAN	Sp6 transcription factor	245					positive regulation of cell proliferation (GO:0008284)|regulation of odontogenesis (GO:0042481)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			large_intestine(1)|lung(5)|prostate(1)|skin(1)	8						TGCCCCCATCGGGCCCACATG	0.672																																																0													21	23	22					17																	45925061		2182	4251	6433	SO:0001819	synonymous_variant	80320				CCDS11520.1	17q21.32	2013-01-08			ENSG00000189120	ENSG00000189120		"Specificity protein transcription factors", "Zinc fingers, C2H2-type"	14530	protein-coding gene	gene with protein product	"epiprofin"	608613				11087666, 14551215	Standard	NM_001258248		Approved	KLF14, Epfn	uc002img.2	Q3SY56	OTTHUMG00000132067	ENST00000536300.1:c.735C>T	17.37:g.45925061G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KXS4	Silent	SNP	ENST00000536300.1	37	CCDS11520.1																																																																																				0.672	SP6-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000441395.1	NM_199262		A	45925061	G	A	45925061	2	1	697	1	0	0	0	0	0	0	0	1	14981	1103	39	1		1	SP6	17	45925061	Silent	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10	6619287	45925061	35270149	56	45639										
TANC2	26115	ucsc.edu;bcgsc.ca	37	chr17	61432303	61432303	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	atggcaaaatggacaatactAcatttggcaaactcagttct	7	8	2	0			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr17:61432303A>G	ENST00000424789.2	+	12	1916	c.1912A>G	c.(1912-1914)Aca>Gca	p.T638A	TANC2_ENST00000389520.4_Missense_Mutation_p.T638A	NM_025185.3	NP_079461.2	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 2	638					in utero embryonic development (GO:0001701)					breast(1)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(7)|lung(15)|ovary(2)|upper_aerodigestive_tract(3)	44						GGACAATACTACATTTGGCAA	0.428																																																0													181	171	174					17																	61432303		1917	4133	6050	SO:0001583	missense	26115			AB032974	CCDS45754.1	17q23.3	2013-01-11				ENSG00000170921		"Ankyrin repeat domain containing", "Tetratricopeptide (TTC) repeat domain containing"	30212	protein-coding gene	gene with protein product	"rolling pebbles homolog B (Drosophila)"	615047					Standard	NM_025185		Approved	DKFZP564D166, FLJ10215, FLJ11824, KIAA1148, KIAA1636, rols, ROLSA	uc002jal.4	Q9HCD6		ENST00000424789.2:c.1912A>G	17.37:g.61432303A>G	ENSP00000387593:p.Thr638Ala	Somatic		WXS	Illumina HiSeq		Q9HAC3|Q9NW88|Q9NXY9|Q9ULS2	Missense_Mutation	SNP	ENST00000424789.2	37	CCDS45754.1	.	.	.	.	.	.	.	.	.	.	A	6.277	0.419168	0.11870	.	.	ENSG00000170921	ENST00000389520;ENST00000424789	T;T	0.67865	-0.29;-0.29	5.93	3.7	0.42460	.	0.000000	0.85682	D	0.000000	T	0.43411	0.1246	N	0.15975	0.35	0.41042	D	0.985233	B;B;B	0.09022	0.002;0.001;0.001	B;B;B	0.08055	0.003;0.002;0.002	T	0.21348	-1.0248	10	0.07175	T	0.84	.	10.4681	0.44620	0.8681:0.0:0.1319:0.0	.	638;548;638	Q9HCD6-2;D3DU10;Q9HCD6	.;.;TANC2_HUMAN	A	638	ENSP00000374171:T638A;ENSP00000387593:T638A	ENSP00000374171:T638A	T	+	1	0	TANC2	58786035	1.000000	0.71417	0.998000	0.56505	0.916000	0.54674	5.351000	0.66022	0.488000	0.27723	-0.250000	0.11733	ACA		0.428	TANC2-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000444765.1			G	61432303	A	G	61432303	3	3	697	1	0	0	0	0	1	0	0	0	15557	391	14	3	1958	3	TANC2	17	61432303	Missense_Mutation	SNP	A	TCGA-P4-A5E8-01A-11D-A28G-10	15507242	61432303	19762907	57	45640										
DNAI2	64446	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	72306227	72306227	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	atcgcctgcggctcccagctGgggacaaccaccctgctgga	12	16	0	0			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr17:72306227G>T	ENST00000311014.6	+	11	1486	c.1419G>T	c.(1417-1419)ctG>ctT	p.L473L	AC103809.1_ENST00000516976.1_RNA|RP11-647F2.2_ENST00000585167.1_RNA|DNAI2_ENST00000446837.2_Silent_p.L473L|DNAI2_ENST00000579490.1_Silent_p.L530L|DNAI2_ENST00000307504.5_Silent_p.L330L|DNAI2_ENST00000582036.1_Silent_p.L461L			Q9GZS0	DNAI2_HUMAN	dynein, axonemal, intermediate chain 2	473					cilium assembly (GO:0042384)|metabolic process (GO:0008152)	axonemal dynein complex (GO:0005858)|axoneme (GO:0005930)|microtubule (GO:0005874)	microtubule motor activity (GO:0003777)			breast(1)|central_nervous_system(1)|endometrium(4)|large_intestine(6)|liver(2)|lung(19)|ovary(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	39						GCTCCCAGCTGGGGACAACCA	0.622									Kartagener syndrome																																							0													55	51	52					17																	72306227		2203	4300	6503	SO:0001819	synonymous_variant	64446	Familial Cancer Database	Ciliary Dyskinesia, Primary (CILD1 - CILD13), Immotile Cilia Syndrome	AF250288	CCDS11697.1, CCDS58589.1	17q25	2013-02-19	2006-09-04			ENSG00000171595		"Axonemal dyneins", "WD repeat domain containing"	18744	protein-coding gene	gene with protein product	"dynein intermediate chain 2"	605483	"dynein, axonemal, intermediate polypeptide 2"			11153919, 21953912	Standard	NM_023036		Approved	CILD9, DIC2	uc002jkf.3	Q9GZS0		ENST00000311014.6:c.1419G>T	17.37:g.72306227G>T		Somatic		WXS	Illumina HiSeq	Phase_I	C9J0S6|Q8IUW4|Q9H179|Q9NT53	Silent	SNP	ENST00000311014.6	37	CCDS11697.1																																																																																				0.622	DNAI2-001	KNOWN	NMD_exception|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000442537.1	NM_023036		T	72306227	G	T	72306227	2	4	697	1	0	0	0	0	0	0	0	1	4612	1335	47	4		4	DNAI2	17	72306227	Silent	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10	10873924	72306227	8888983	58	45641										
RAB40B	10966	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	80617514	80617514	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	aagaccagcggttcgcaatgTcatagaccaggatcacaccc	9	13	2	2			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr17:80617514T>A	ENST00000571995.1	-	4	415	c.284A>T	c.(283-285)gAc>gTc	p.D95V	RAB40B_ENST00000538809.2_Missense_Mutation_p.D95V|RAB40B_ENST00000269347.6_5'UTR|RAB40B_ENST00000571880.1_5'Flank	NM_006822.2	NP_006813.1	Q12829	RB40B_HUMAN	RAB40B, member RAS oncogene family	95					protein transport (GO:0015031)|protein ubiquitination (GO:0016567)|small GTPase mediated signal transduction (GO:0007264)	plasma membrane (GO:0005886)	GTP binding (GO:0005525)			central_nervous_system(1)|kidney(1)|large_intestine(1)|lung(4)|ovary(1)|urinary_tract(2)	10	Breast(20;0.00132)|all_neural(118;0.0952)	all_cancers(8;0.072)|all_epithelial(8;0.139)	BRCA - Breast invasive adenocarcinoma(99;0.0262)|OV - Ovarian serous cystadenocarcinoma(97;0.061)			GTTCGCAATGTCATAGACCAG	0.517																																																0													149	114	126					17																	80617514		2203	4300	6503	SO:0001583	missense	10966			U05227	CCDS11816.1	17q25.3	2014-08-12			ENSG00000141542	ENSG00000141542		"RAB, member RAS oncogene"	18284	protein-coding gene	gene with protein product						11697911	Standard	NM_006822		Approved	SEC4L, RAR	uc002kft.3	Q12829	OTTHUMG00000177806	ENST00000571995.1:c.284A>T	17.37:g.80617514T>A	ENSP00000461785:p.Asp95Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WVG3	Missense_Mutation	SNP	ENST00000571995.1	37	CCDS11816.1	.	.	.	.	.	.	.	.	.	.	T	22.2	4.259217	0.80246	.	.	ENSG00000141542	ENST00000269347;ENST00000538809	.	.	.	4.56	4.56	0.56223	Small GTP-binding protein domain (1);	0.000000	0.64402	D	0.000001	D	0.88093	0.6344	H	0.98155	4.16	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	D	0.92358	0.5895	9	0.87932	D	0	.	14.2775	0.66189	0.0:0.0:0.0:1.0	.	95	Q12829	RB40B_HUMAN	V	95;129	.	ENSP00000269347:D95V	D	-	2	0	RAB40B	78210803	1.000000	0.71417	0.997000	0.53966	0.803000	0.45373	7.768000	0.85345	1.992000	0.58205	0.533000	0.62120	GAC		0.517	RAB40B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000439007.1			A	80617514	T	A	80617514	3	1	697	1	0	0	0	0	1	0	0	0	12954	1667	58	5	564	5	RAB40B	17	80617514	Missense_Mutation	SNP	T	TCGA-P4-A5E8-01A-11D-A28G-10	8311287	80617514	577696	59	45642										
MBD1	4152	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	47802004	47802004	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gctggacacatttccactggCgcctgagaccagggcgggga	15	12	0	1			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr18:47802004C>T	ENST00000591416.1	-	8	1189	c.758G>A	c.(757-759)cGc>cAc	p.R253H	MBD1_ENST00000591535.1_Missense_Mutation_p.R253H|MBD1_ENST00000269471.5_Missense_Mutation_p.R253H|MBD1_ENST00000269468.5_Missense_Mutation_p.R253H|MBD1_ENST00000349085.2_Missense_Mutation_p.R253H|MBD1_ENST00000457839.2_Missense_Mutation_p.R253H|MBD1_ENST00000587605.1_Missense_Mutation_p.R253H|MBD1_ENST00000585595.1_Missense_Mutation_p.R253H|MBD1_ENST00000347968.3_Missense_Mutation_p.R253H|MBD1_ENST00000382948.5_Missense_Mutation_p.R253H|MBD1_ENST00000398488.1_Missense_Mutation_p.R253H|MBD1_ENST00000398495.2_Missense_Mutation_p.R253H|MBD1_ENST00000424334.2_Missense_Mutation_p.R279H|MBD1_ENST00000339998.6_Missense_Mutation_p.R253H|MBD1_ENST00000436910.1_Missense_Mutation_p.R253H|MBD1_ENST00000398493.1_Missense_Mutation_p.R253H|MBD1_ENST00000353909.3_Missense_Mutation_p.R204H|MBD1_ENST00000588937.1_Missense_Mutation_p.R253H|MBD1_ENST00000590208.1_Missense_Mutation_p.R253H|MBD1_ENST00000585672.1_Missense_Mutation_p.R204H			Q9UIS9	MBD1_HUMAN	methyl-CpG binding domain protein 1	253					negative regulation of transcription, DNA-templated (GO:0045892)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|heterochromatin (GO:0000792)|nuclear matrix (GO:0016363)|nuclear speck (GO:0016607)|nucleus (GO:0005634)	DNA binding (GO:0003677)|methyl-CpG binding (GO:0008327)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)	p.R253L(4)		breast(3)|central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(5)|lung(14)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	36						TTTCCACTGGCGCCTGAGACC	0.602																																																4	Substitution - Missense(4)	lung(4)											47	47	47					18																	47802004		2203	4300	6503	SO:0001583	missense	4152			Y10746	CCDS11941.1, CCDS11942.1, CCDS11943.1, CCDS11944.1, CCDS32832.1, CCDS56071.1, CCDS56072.1, CCDS56073.1, CCDS59318.1, CCDS59319.1, CCDS59320.1	18q21	2014-02-18			ENSG00000141644	ENSG00000141644			6916	protein-coding gene	gene with protein product		156535				9207790, 10441743	Standard	NM_015844		Approved	PCM1, CXXC3	uc002lem.4	Q9UIS9	OTTHUMG00000132669	ENST00000591416.1:c.758G>A	18.37:g.47802004C>T	ENSP00000467017:p.Arg253His	Somatic		WXS	Illumina HiSeq	Phase_I	A4UTZ0|B4DXJ5|E9PEC5|K7ELI2|K7EQZ4|K7ESN0|O15248|O95241|Q7Z7B5|Q8N4W4|Q9UNZ6|Q9UNZ7|Q9UNZ8|Q9UNZ9	Missense_Mutation	SNP	ENST00000591416.1	37	CCDS11943.1	.	.	.	.	.	.	.	.	.	.	C	21.4	4.144536	0.77888	.	.	ENSG00000141644	ENST00000382948;ENST00000353909;ENST00000349085;ENST00000269468;ENST00000347968;ENST00000436910;ENST00000269471;ENST00000424334;ENST00000339998;ENST00000398495;ENST00000457839;ENST00000398493;ENST00000398488	D;D;D;D;D;D;D;D;D;D;D;D;D	0.97232	-4.22;-3.92;-4.04;-4.22;-4.05;-4.18;-4.16;-4.3;-4.17;-4.06;-4.29;-4.05;-4.04	5.29	5.29	0.74685	Zinc finger, CXXC-type (2);	0.000000	0.56097	D	0.000023	D	0.97508	0.9184	L	0.56769	1.78	0.32700	N	0.513027	D;D;D;D;D;D;D;D;D;D;D;D	0.89917	1.0;1.0;1.0;1.0;1.0;1.0;1.0;1.0;1.0;1.0;1.0;1.0	D;D;D;D;D;D;D;D;D;D;D;D	0.97110	1.0;0.998;0.999;1.0;0.999;0.997;0.999;0.996;1.0;0.998;1.0;0.998	D	0.97757	1.0218	10	0.52906	T	0.07	-14.4062	10.2988	0.43639	0.0:0.9098:0.0:0.0902	.	253;279;253;253;253;253;204;253;253;253;253;253	B4DUR3;B4DI41;Q9UIS9-8;A8K654;Q9UIS9-6;Q9UIS9-2;Q9UIS9-5;Q9UIS9-4;Q9UIS9;Q9UIS9-7;B4DXJ5;Q9UIS9-3	.;.;.;.;.;.;.;.;MBD1_HUMAN;.;.;.	H	253;204;253;253;253;253;253;279;253;253;253;253;253	ENSP00000372407:R253H;ENSP00000269469:R204H;ENSP00000342531:R253H;ENSP00000269468:R253H;ENSP00000285102:R253H;ENSP00000409561:R253H;ENSP00000269471:R253H;ENSP00000408846:R279H;ENSP00000339546:R253H;ENSP00000381508:R253H;ENSP00000405268:R253H;ENSP00000381506:R253H;ENSP00000381502:R253H	ENSP00000269468:R253H	R	-	2	0	MBD1	46056002	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	2.576000	0.46033	2.653000	0.90120	0.655000	0.94253	CGC		0.602	MBD1-004	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000255926.3	NM_015846		T	47802004	C	T	47802004	3	4	697	1	0	0	0	0	1	0	0	0	9349	768	27	1	1289	1	MBD1	18	47802004	Missense_Mutation	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10		47802004	30275244	60	45643										
SPTBN4	57731	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	41076606	41076606	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	tcctactgcgcaagcgcgagCtcgacgctaaccgcaagtcg	11	15	0	0			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr19:41076606C>T	ENST00000352632.3	+	33	7377	c.7291C>T	c.(7291-7293)Ctc>Ttc	p.L2431F	SPTBN4_ENST00000598249.1_Missense_Mutation_p.L2431F|SPTBN4_ENST00000392025.1_Missense_Mutation_p.L1174F			Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4	2431	PH. {ECO:0000255|PROSITE- ProRule:PRU00145}.				actin filament capping (GO:0051693)|adult walking behavior (GO:0007628)|axon guidance (GO:0007411)|axonogenesis (GO:0007409)|cardiac conduction (GO:0061337)|central nervous system projection neuron axonogenesis (GO:0021952)|clustering of voltage-gated sodium channels (GO:0045162)|cytoskeletal anchoring at plasma membrane (GO:0007016)|establishment of protein localization to plasma membrane (GO:0090002)|fertilization (GO:0009566)|negative regulation of heart rate (GO:0010459)|positive regulation of multicellular organism growth (GO:0040018)|regulation of peptidyl-serine phosphorylation (GO:0033135)|regulation of sodium ion transport (GO:0002028)|sensory perception of sound (GO:0007605)|transmission of nerve impulse (GO:0019226)|vesicle-mediated transport (GO:0016192)	adherens junction (GO:0005912)|axon hillock (GO:0043203)|axon initial segment (GO:0043194)|cell body fiber (GO:0070852)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|node of Ranvier (GO:0033268)|nuclear matrix (GO:0016363)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)|PML body (GO:0016605)|spectrin (GO:0008091)	actin binding (GO:0003779)|ankyrin binding (GO:0030506)|phosphatase binding (GO:0019902)|phospholipid binding (GO:0005543)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)			breast(4)|central_nervous_system(1)|endometrium(6)|kidney(7)|large_intestine(9)|lung(32)|ovary(3)|prostate(2)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	73			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CAAGCGCGAGCTCGACGCTAA	0.711																																																0													13	13	13					19																	41076606		2130	4092	6222	SO:0001583	missense	57731			AF082075	CCDS12559.1, CCDS42569.1	19q13.13	2013-01-10				ENSG00000160460		"Pleckstrin homology (PH) domain containing"	14896	protein-coding gene	gene with protein product		606214				11086001	Standard	NM_020971		Approved	SPTBN3, KIAA1642	uc002onz.3	Q9H254		ENST00000352632.3:c.7291C>T	19.37:g.41076606C>T	ENSP00000263373:p.Leu2431Phe	Somatic		WXS	Illumina HiSeq	Phase_I	E9PGQ5|Q9H1K7|Q9H1K8|Q9H1K9|Q9H253|Q9H3G8|Q9HCD0	Missense_Mutation	SNP	ENST00000352632.3	37	CCDS12559.1	.	.	.	.	.	.	.	.	.	.	C	14.31	2.496244	0.44352	.	.	ENSG00000160460	ENST00000428507;ENST00000352632;ENST00000392025	T;T	0.31769	1.48;1.48	4.64	3.59	0.41128	Pleckstrin homology-type (1);Pleckstrin homology domain, spectrin-type (1);Pleckstrin homology domain (3);	0.111049	0.37623	U	0.002018	T	0.36441	0.0967	L	0.42245	1.32	0.80722	D	1	P;P	0.50943	0.94;0.94	P;P	0.51833	0.681;0.681	T	0.08973	-1.0696	10	0.39692	T	0.17	.	13.6768	0.62458	0.0:0.8434:0.1566:0.0	.	1174;2431	C9JY79;Q9H254	.;SPTN4_HUMAN	F	2431;2431;1174	ENSP00000263373:L2431F;ENSP00000375879:L1174F	ENSP00000263373:L2431F	L	+	1	0	SPTBN4	45768446	1.000000	0.71417	1.000000	0.80357	0.028000	0.11728	2.096000	0.41738	1.145000	0.42336	0.491000	0.48974	CTC		0.711	SPTBN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462559.2			T	41076606	C	T	41076606	3	4	697	1	0	0	0	0	1	0	0	0	15133	797	28	2	7511	2	SPTBN4	19	41076606	Missense_Mutation	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10		41076606	18052377	61	45644										
ZNF577	84765	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	52376124	52376124	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	gtctctcttatgtgagttttCtcatgtttaatgaggactga	9	6	3	3			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr19:52376124C>A	ENST00000301399.5	-	7	1484	c.1119G>T	c.(1117-1119)gaG>gaT	p.E373D	ZNF577_ENST00000485702.1_Intron|ZNF577_ENST00000420592.1_Missense_Mutation_p.E314D|ZNF577_ENST00000451628.2_Missense_Mutation_p.E314D|ZNF577_ENST00000412216.1_Intron	NM_032679.2	NP_116068.2	Q9BSK1	ZN577_HUMAN	zinc finger protein 577	373			E -> K (in dbSNP:rs10407547).		regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|kidney(1)|large_intestine(5)|lung(9)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	21		all_neural(266;0.0602)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		TGTGAGTTTTCTCATGTTTAA	0.448																																																0													89	94	92					19																	52376124		2203	4300	6503	SO:0001583	missense	84765			AL832871	CCDS12842.2, CCDS46160.1	19q13.41	2013-09-20			ENSG00000161551	ENSG00000161551		"Zinc fingers, C2H2-type", "-"	28673	protein-coding gene	gene with protein product						12477932	Standard	NM_032679		Approved	MGC4400	uc010yde.2	Q9BSK1	OTTHUMG00000157045	ENST00000301399.5:c.1119G>T	19.37:g.52376124C>A	ENSP00000301399:p.Glu373Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0B4|A8K6Z7|C9JFB9	Missense_Mutation	SNP	ENST00000301399.5	37	CCDS12842.2	.	.	.	.	.	.	.	.	.	.	.	7.724	0.697762	0.15106	.	.	ENSG00000161551	ENST00000301399;ENST00000420592;ENST00000451628;ENST00000458390	T;T;T;T	0.50277	0.75;0.75;0.75;0.75	3.06	2.02	0.26589	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.25419	0.0618	N	0.08118	0	0.09310	N	0.999994	B;B	0.25007	0.016;0.116	B;B	0.25884	0.007;0.064	T	0.20840	-1.0263	9	0.87932	D	0	.	4.8679	0.13618	0.0:0.6085:0.0:0.3915	.	373;314	Q9BSK1;Q9BSK1-2	ZN577_HUMAN;.	D	373;314;314;373	ENSP00000301399:E373D;ENSP00000413476:E314D;ENSP00000389652:E314D;ENSP00000404509:E373D	ENSP00000301399:E373D	E	-	3	2	ZNF577	57067936	0.000000	0.05858	0.007000	0.13788	0.327000	0.28475	0.103000	0.15292	0.592000	0.29728	0.655000	0.94253	GAG		0.448	ZNF577-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000347243.1	NM_032679		A	52376124	C	A	52376124	3	1	697	1	0	0	0	0	1	0	0	0	18021	912	32	4	342	4	ZNF577	19	52376124	Missense_Mutation	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10	11299518	52376124	6752859	62	45645										
NCOA6	23054	bcgsc.ca	37	chr20	33337464	33337464	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	acatcccatggcctgagaagTggtttcccgaggcactgttt	11	11	0	1			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr20:33337464T>C	ENST00000374796.2	-	10	5104	c.2534A>G	c.(2533-2535)cAc>cGc	p.H845R	NCOA6_ENST00000359003.2_Missense_Mutation_p.H845R			Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	845	CREBBP-binding region.|Gln-rich.|NCOA1-binding region.|NCOA6IP-binding region.|TBP/GTF2A-binding region.				brain development (GO:0007420)|cellular lipid metabolic process (GO:0044255)|cellular response to DNA damage stimulus (GO:0006974)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|DNA-templated transcription, initiation (GO:0006352)|glucocorticoid receptor signaling pathway (GO:0042921)|heart development (GO:0007507)|intracellular estrogen receptor signaling pathway (GO:0030520)|labyrinthine layer blood vessel development (GO:0060716)|myeloid cell differentiation (GO:0030099)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|response to hormone (GO:0009725)|small molecule metabolic process (GO:0044281)|transcription initiation from RNA polymerase II promoter (GO:0006367)	histone methyltransferase complex (GO:0035097)|intracellular membrane-bounded organelle (GO:0043231)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|enzyme binding (GO:0019899)|estrogen receptor binding (GO:0030331)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|retinoid X receptor binding (GO:0046965)|thyroid hormone receptor binding (GO:0046966)|transcription coactivator activity (GO:0003713)			NS(2)|breast(6)|central_nervous_system(3)|cervix(1)|endometrium(9)|kidney(8)|large_intestine(16)|lung(37)|ovary(4)|prostate(5)|skin(13)|upper_aerodigestive_tract(2)|urinary_tract(1)	107						GCCTGAGAAGTGGTTTCCCGA	0.493																																																0													130	122	125					20																	33337464		2203	4300	6503	SO:0001583	missense	23054			AF128458	CCDS13241.1, CCDS74720.1	20q11	2008-08-01			ENSG00000198646	ENSG00000198646			15936	protein-coding gene	gene with protein product	"nuclear receptor coactivator RAP250", "activating signal cointegrator-2", "peroxisome proliferator-activated receptor interacting protein"	605299				8724849, 8263591	Standard	NM_014071		Approved	KIAA0181, RAP250, ASC2, AIB3, PRIP, TRBP, NRC	uc002xaw.3	Q14686	OTTHUMG00000032311	ENST00000374796.2:c.2534A>G	20.37:g.33337464T>C	ENSP00000363929:p.His845Arg	Somatic		WXS	Illumina HiSeq	Phase_1	A6NLF1|B2RMN5|E1P5P7|Q9NTZ9|Q9UH74|Q9UK86	Missense_Mutation	SNP	ENST00000374796.2	37	CCDS13241.1	.	.	.	.	.	.	.	.	.	.	T	23.0	4.365448	0.82463	.	.	ENSG00000198646	ENST00000374796;ENST00000359003	T;T	0.31247	1.5;1.5	5.86	5.86	0.93980	.	0.000000	0.64402	D	0.000001	T	0.38348	0.1037	L	0.29908	0.895	0.58432	D	0.999999	D	0.69078	0.997	P	0.58520	0.84	T	0.06303	-1.0834	10	0.23302	T	0.38	-7.2245	16.2605	0.82541	0.0:0.0:0.0:1.0	.	845	Q14686	NCOA6_HUMAN	R	845	ENSP00000363929:H845R;ENSP00000351894:H845R	ENSP00000351894:H845R	H	-	2	0	NCOA6	32801125	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.698000	0.84413	2.237000	0.73441	0.460000	0.39030	CAC		0.493	NCOA6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078811.2	NM_014071		C	33337464	T	C	33337464	3	2	697	1	0	0	0	0	1	0	0	0	10240	1696	59	3	3685	3	NCOA6	20	33337464	Missense_Mutation	SNP	T	TCGA-P4-A5E8-01A-11D-A28G-10		33337464	29688056	63	45646										
EPB41L1	2036	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	34778710	34778710	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	ggtacaccatgtcccgcagcCttgatggaggtatggcccaa	12	12	0	1			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr20:34778710C>G	ENST00000338074.2	+	11	1452	c.1291C>G	c.(1291-1293)Ctt>Gtt	p.L431V	EPB41L1_ENST00000202028.5_Missense_Mutation_p.L369V|EPB41L1_ENST00000441639.1_Missense_Mutation_p.L369V|EPB41L1_ENST00000373946.3_Missense_Mutation_p.L400V|EPB41L1_ENST00000373950.2_Missense_Mutation_p.L334V|EPB41L1_ENST00000373941.1_Missense_Mutation_p.L431V	NM_001258329.1|NM_012156.2	NP_001245258.1|NP_036288.2	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	431					cortical actin cytoskeleton organization (GO:0030866)|synaptic transmission (GO:0007268)	cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extrinsic component of membrane (GO:0019898)|plasma membrane (GO:0005886)	structural molecule activity (GO:0005198)			breast(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(10)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	37	Breast(12;0.0239)					GTCCCGCAGCCTTGATGGAGG	0.602																																																0													47	42	43					20																	34778710		2203	4300	6503	SO:0001583	missense	2036			AB002336	CCDS13271.1, CCDS13272.1, CCDS58771.1	20q11.2-q12	2003-03-17			ENSG00000088367	ENSG00000088367			3378	protein-coding gene	gene with protein product		602879				9570967, 9828140	Standard	NM_012156		Approved	KIAA0338	uc002xfb.3	Q9H4G0	OTTHUMG00000032378	ENST00000338074.2:c.1291C>G	20.37:g.34778710C>G	ENSP00000337168:p.Leu431Val	Somatic		WXS	Illumina HiSeq	Phase_I	O15046|Q4VXM6|Q4VXM7|Q4VXM8|Q4VXN4|Q6ZT61|Q8IUU7|Q96CV5|Q96L65	Missense_Mutation	SNP	ENST00000338074.2	37	CCDS13271.1	.	.	.	.	.	.	.	.	.	.	C	17.89	3.499624	0.64298	.	.	ENSG00000088367	ENST00000202028;ENST00000373950;ENST00000397315;ENST00000373951;ENST00000441639;ENST00000373946;ENST00000344237;ENST00000338074;ENST00000373941	D;D;D;D;D;D	0.86297	-1.95;-1.92;-1.95;-1.94;-2.1;-2.1	5.48	5.48	0.80851	.	0.292495	0.38005	N	0.001858	D	0.84844	0.5562	N	0.24115	0.695	0.39057	D	0.960441	B;P;P;P;B;P	0.45569	0.249;0.861;0.539;0.794;0.3;0.783	B;P;B;P;B;P	0.47891	0.186;0.471;0.439;0.487;0.13;0.56	D	0.87969	0.2735	10	0.87932	D	0	-4.2264	17.9268	0.88986	0.0:1.0:0.0:0.0	.	431;431;400;334;334;369	B7Z653;Q9H4G0;Q9H4G0-4;Q9H4G0-3;B3KUB6;Q9H4G0-2	.;E41L1_HUMAN;.;.;.;.	V	369;334;431;334;369;400;5;431;431	ENSP00000202028:L369V;ENSP00000363061:L334V;ENSP00000399214:L369V;ENSP00000363057:L400V;ENSP00000337168:L431V;ENSP00000363052:L431V	ENSP00000202028:L369V	L	+	1	0	EPB41L1	34242124	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	1.048000	0.30379	2.556000	0.86216	0.561000	0.74099	CTT		0.602	EPB41L1-008	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000078978.3	NM_012156		G	34778710	C	G	34778710	3	3	697	1	0	0	0	0	1	0	0	0	5154	681	24	4	1329	4	EPB41L1	20	34778710	Missense_Mutation	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10	1441246	34778710	28246810	64	45647										
FAM83D	81610	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	37570604	37570604	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	tccctgtttcacctgtaggtGattgcagtggtcatggacgt	12	9	2	1			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr20:37570604G>A	ENST00000217429.4	+	2	617	c.576G>A	c.(574-576)gtG>gtA	p.V192V		NM_030919.2	NP_112181.2	Q9H4H8	FA83D_HUMAN	family with sequence similarity 83, member D	162					mitotic nuclear division (GO:0007067)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)				endometrium(2)|kidney(2)|large_intestine(7)|lung(12)|ovary(4)|stomach(1)	28		Myeloproliferative disorder(115;0.00878)				ACCTGTAGGTGATTGCAGTGG	0.483																																																0													149	152	151					20																	37570604		2058	4205	6263	SO:0001819	synonymous_variant	81610			AL023803	CCDS42872.1	20q11.23	2014-03-13	2006-03-23	2006-03-23	ENSG00000101447	ENSG00000101447			16122	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 129"	C20orf129		23205133	Standard	NM_030919		Approved	dJ616B8.3	uc002xjg.3	Q9H4H8	OTTHUMG00000032462	ENST00000217429.4:c.576G>A	20.37:g.37570604G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4E1I7|Q5THR2|Q68EN1|Q6P457|Q7Z6H0|Q96DF5|Q96N89|Q9BVM8	Silent	SNP	ENST00000217429.4	37	CCDS42872.1																																																																																				0.483	FAM83D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079211.1			A	37570604	G	A	37570604	2	1	697	1	0	0	0	0	0	0	0	1	5643	1277	45	2		2	FAM83D	20	37570604	Silent	SNP	G	TCGA-P4-A5E8-01A-11D-A28G-10	2791894	37570604	25454916	65	45648										
PLXNB2	23654	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	50728592	50728593	+	Missense_Mutation	DNP	TT	TT	AC													0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	cattgctggccacgaaagacTtctccccgctgccgtcctcg							TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chr22:50728592_50728593TT>AC	ENST00000449103.1	-	3	561_562	c.421_422AA>GT	c.(421-423)AAg>GTg	p.K141V	PLXNB2_ENST00000359337.4_Missense_Mutation_p.K141V			O15031	PLXB2_HUMAN	plexin B2	141	Sema. {ECO:0000255|PROSITE- ProRule:PRU00352}.				brain development (GO:0007420)|neural tube closure (GO:0001843)|neuroblast proliferation (GO:0007405)|positive regulation of axonogenesis (GO:0050772)|regulation of cell shape (GO:0008360)|regulation of neuron migration (GO:2001222)|regulation of protein phosphorylation (GO:0001932)|regulation of Rho GTPase activity (GO:0032319)|semaphorin-plexin signaling pathway (GO:0071526)	cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)	GTPase activator activity (GO:0005096)|semaphorin receptor activity (GO:0017154)			breast(2)|central_nervous_system(4)|cervix(2)|endometrium(11)|kidney(4)|large_intestine(3)|liver(1)|lung(20)|ovary(5)|prostate(6)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	66		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CACGAAAGACTTCTCCCCGCTG	0.644																																																0																																										SO:0001583	missense	23654				CCDS43035.1	22q13.33	2008-06-12			ENSG00000196576	ENSG00000196576		"Plexins"	9104	protein-coding gene	gene with protein product		604293				10520995, 12183458	Standard	NM_012401		Approved	MM1, KIAA0315, PLEXB2	uc003bkv.4	O15031	OTTHUMG00000150219	ENST00000449103.1:c.421_422delinsAC	22.37:g.50728592_50728593delinsAC	ENSP00000409171:p.Lys141Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6QRH0|Q7KZU3|Q9BSU7	Missense_Mutation	DNP	ENST00000449103.1	37	CCDS43035.1																																																																																				0.644	PLXNB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316874.3	NM_012401		AC	50728593	TT	AC	50728592	3	1	697	1	0	0	0	0	1	0	0	0	12131	1609	56	5	5234	5	PLXNB2	22	50728592	Missense_Mutation	DNP	TT	TCGA-P4-A5E8-01A-11D-A28G-10		50728592	575974	66	45649										
ARSE	415	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	2861169	2861169	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.046875	3	1	1.05709992486852	2.58402203856749	0.816006959547629	1	1	0	ttgattctctagggaaccgcCgtgatccgacgtaaaataaa	9	9	1	2			TCGA-P4-A5E8-01A-11D-A28G-10	TCGA-P4-A5E8-11A-12D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	2ca2f452-c444-436c-a256-a2e6c6d596d6	98665cdb-4732-42e2-9034-a7b233b8abb2	g.chrX:2861169C>T	ENST00000381134.3	-	8	1129	c.1063G>A	c.(1063-1065)Ggc>Agc	p.G355S	ARSE_ENST00000540563.1_Missense_Mutation_p.G310S|ARSE_ENST00000545496.1_Missense_Mutation_p.G380S	NM_000047.2	NP_000038.2	P51690	ARSE_HUMAN	arylsulfatase E (chondrodysplasia punctata 1)	355					cellular protein metabolic process (GO:0044267)|glycosphingolipid metabolic process (GO:0006687)|post-translational protein modification (GO:0043687)|skeletal system development (GO:0001501)|small molecule metabolic process (GO:0044281)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum lumen (GO:0005788)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)	arylsulfatase activity (GO:0004065)|metal ion binding (GO:0046872)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(2)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	17		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)				AGGGAACCGCCGTGATCCGAC	0.473																																																0													89	83	85					X																	2861169		2203	4300	6503	SO:0001583	missense	415			X83573	CCDS14122.1, CCDS75948.1, CCDS75949.1	Xp22.33	2013-02-14			ENSG00000157399	ENSG00000157399		"Arylsulfatase family"	719	protein-coding gene	gene with protein product		300180		CDPX, CDPX1		7720070	Standard	NM_000047		Approved		uc004crc.4	P51690	OTTHUMG00000137358	ENST00000381134.3:c.1063G>A	X.37:g.2861169C>T	ENSP00000370526:p.Gly355Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q53FT2|Q53FU8	Missense_Mutation	SNP	ENST00000381134.3	37	CCDS14122.1	.	.	.	.	.	.	.	.	.	.	C	18.74	3.687965	0.68271	.	.	ENSG00000157399	ENST00000540563;ENST00000545496;ENST00000381134	D;D;D	0.99809	-6.86;-6.86;-6.86	3.66	2.8	0.32819	Alkaline phosphatase-like, alpha/beta/alpha (1);Sulfatase (1);Alkaline-phosphatase-like, core domain (1);	0.109135	0.64402	D	0.000009	D	0.99887	0.9946	H	0.99929	4.97	0.51482	D	0.999923	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.96969	0.9707	10	0.87932	D	0	.	9.8836	0.41249	0.0:0.8911:0.0:0.1089	.	310;380;355	F5H324;F5GYY5;P51690	.;.;ARSE_HUMAN	S	310;380;355	ENSP00000438198:G310S;ENSP00000441417:G380S;ENSP00000370526:G355S	ENSP00000370526:G355S	G	-	1	0	ARSE	2871169	0.999000	0.42202	0.003000	0.11579	0.000000	0.00434	6.039000	0.70972	0.545000	0.28902	-0.191000	0.12829	GGC		0.473	ARSE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055643.1	NM_000047		T	2861169	C	T	2861169	3	4	697	1	0	0	0	0	1	0	0	0	990	652	23	1	722	1	ARSE	23	2861169	Missense_Mutation	SNP	C	TCGA-P4-A5E8-01A-11D-A28G-10		2861169	152409391	67	45650										
EPHA2	1969	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	16459720	16459721	+	Frame_Shift_Ins	INS	-	-	TG													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	atgatgttgtggtggctgaaINSctggcccatgatgccggcct							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr1:16459720_16459721insTG	ENST00000358432.5	-	11	2161_2162	c.2007_2008insCA	c.(2005-2010)cagttcfs	p.F670fs		NM_004431.3	NP_004422.2	P29317	EPHA2_HUMAN	EPH receptor A2	670	Mediates interaction with ARHGEF16 and ELMO2.|Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of Rac GTPase activity (GO:0032863)|angiogenesis (GO:0001525)|axial mesoderm formation (GO:0048320)|bone remodeling (GO:0046849)|branching involved in mammary gland duct morphogenesis (GO:0060444)|cell adhesion (GO:0007155)|cell chemotaxis (GO:0060326)|cell migration (GO:0016477)|ephrin receptor signaling pathway (GO:0048013)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|keratinocyte differentiation (GO:0030216)|lens fiber cell morphogenesis (GO:0070309)|mammary gland epithelial cell proliferation (GO:0033598)|multicellular organismal development (GO:0007275)|negative regulation of protein kinase B signaling (GO:0051898)|neural tube development (GO:0021915)|neuron differentiation (GO:0030182)|notochord cell development (GO:0060035)|notochord formation (GO:0014028)|osteoblast differentiation (GO:0001649)|osteoclast differentiation (GO:0030316)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|post-anal tail morphogenesis (GO:0036342)|protein kinase B signaling (GO:0043491)|regulation of angiogenesis (GO:0045765)|regulation of blood vessel endothelial cell migration (GO:0043535)|regulation of cell adhesion mediated by integrin (GO:0033628)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of lamellipodium assembly (GO:0010591)|response to growth factor (GO:0070848)|skeletal system development (GO:0001501)|vasculogenesis (GO:0001570)|viral process (GO:0016032)	cell projection (GO:0042995)|cell surface (GO:0009986)|focal adhesion (GO:0005925)|integral component of plasma membrane (GO:0005887)|leading edge membrane (GO:0031256)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ephrin receptor activity (GO:0005003)|transmembrane receptor protein tyrosine kinase activity (GO:0004714)			NS(1)|biliary_tract(1)|breast(3)|central_nervous_system(3)|cervix(2)|endometrium(1)|kidney(1)|large_intestine(6)|lung(12)|ovary(2)|pancreas(1)|prostate(3)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	42		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)|Regorafenib(DB08896)	TGGTGGCTGAACTGGCCCATGA	0.629																																																0																																										SO:0001589	frameshift_variant	1969			BC037166	CCDS169.1	1p36	2013-02-11	2004-10-28		ENSG00000142627	ENSG00000142627	2.7.10.1	"EPH receptors", "Sterile alpha motif (SAM) domain containing", "Fibronectin type III domain containing"	3386	protein-coding gene	gene with protein product		176946	"EphA2"	ECK		9119409	Standard	NM_004431		Approved		uc001aya.2	P29317	OTTHUMG00000009527	ENST00000358432.5:c.2007_2008insCA	1.37:g.16459720_16459721insTG	ENSP00000351209:p.Phe670fs	Somatic		WXS	Illumina HiSeq	Phase_I	B5A968|Q8N3Z2	Frame_Shift_Ins	INS	ENST00000358432.5	37	CCDS169.1																																																																																				0.629	EPHA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026322.1	NM_004431		TG	16459721	-	TG	16459720	7	5	698	1	0	1	1	0	0	0	0	0	5169	43	2	0	950	0	EPHA2	1	16459720	Frame_Shift_Ins	INS	-	TCGA-P4-A5EA-01A-11D-A28G-10		16459720	232790901	1	45651										
MAP3K6	9064	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	27687435	27687435	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	caacatctcccccgcgccctCcgcctcctccgcgggcgccg	9	24	1	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr1:27687435C>T	ENST00000493901.1	-	15	2136	c.1897G>A	c.(1897-1899)Gag>Aag	p.E633K	MAP3K6_ENST00000357582.2_Missense_Mutation_p.E633K|MAP3K6_ENST00000374040.3_Missense_Mutation_p.E625K	NM_004672.3	NP_004663.3	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase 6	633					activation of JUN kinase activity (GO:0007257)|activation of MAPKK activity (GO:0000186)|protein phosphorylation (GO:0006468)|signal transduction (GO:0007165)		ATP binding (GO:0005524)|magnesium ion binding (GO:0000287)|MAP kinase kinase kinase activity (GO:0004709)			breast(4)|central_nervous_system(2)|lung(3)|ovary(1)	10		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)		CCCGCGCCCTCCGCCTCCTCC	0.736																																																0													10	14	13					1																	27687435		2139	4246	6385	SO:0001583	missense	9064			AF100318	CCDS299.1, CCDS72738.1	1p36.11	2011-06-09			ENSG00000142733	ENSG00000142733		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6858	protein-coding gene	gene with protein product	"apoptosis signal regulating kinase 2"	604468				9875215	Standard	XM_005246029		Approved	MAPKKK6, ASK2, MEKK6	uc001bny.1	O95382	OTTHUMG00000004631	ENST00000493901.1:c.1897G>A	1.37:g.27687435C>T	ENSP00000419591:p.Glu633Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A2ACE8|A2VDG4|A2VDG5|Q59HF4|Q5SSD4|Q75PK3|Q96B75	Missense_Mutation	SNP	ENST00000493901.1	37	CCDS299.1	.	.	.	.	.	.	.	.	.	.	C	12.32	1.901459	0.33535	.	.	ENSG00000142733	ENST00000374040;ENST00000493901;ENST00000545447;ENST00000357582	T;T;T	0.68025	-0.3;-0.3;-0.3	4.67	3.73	0.42828	.	.	.	.	.	T	0.61999	0.2392	M	0.62723	1.935	0.09310	N	1	B;B	0.25609	0.13;0.079	B;B	0.24701	0.055;0.025	T	0.54860	-0.8230	9	0.48119	T	0.1	.	8.9619	0.35851	0.0:0.8957:0.0:0.1043	.	625;633	O95382-3;O95382	.;M3K6_HUMAN	K	625;633;356;633	ENSP00000363152:E625K;ENSP00000419591:E633K;ENSP00000350195:E633K	ENSP00000350195:E633K	E	-	1	0	MAP3K6	27560022	0.005000	0.15991	0.073000	0.20177	0.013000	0.08279	1.483000	0.35497	2.433000	0.82419	0.655000	0.94253	GAG		0.736	MAP3K6-001	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000013469.2	NM_004672		T	27687435	C	T	27687435	3	4	698	1	0	0	0	0	1	0	0	0	9261	864	30	2	2033	2	MAP3K6	1	27687435	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	11227715	27687435	221563186	2	45652										
ZSWIM5	57643	broad.mit.edu	37	chr1	45671664	45671664	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	cagcagcgccggcgccggggCcgccccggtactggaagctg	17	16	0	0	rs565101218		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr1:45671664C>A	ENST00000359600.5	-	1	564	c.359G>T	c.(358-360)gGc>gTc	p.G120V	ZSWIM5_ENST00000464588.1_Intron	NM_020883.1	NP_065934.1	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM-type containing 5	120						extracellular space (GO:0005615)	zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(3)|large_intestine(2)|liver(1)|lung(13)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	28	Acute lymphoblastic leukemia(166;0.155)					ggcgccggggccgccccggTA	0.781																																																0													6	7	7					1																	45671664		1628	3773	5401	SO:0001583	missense	57643			AB040944	CCDS41319.1	1p34.1	2010-06-16			ENSG00000162415	ENSG00000162415		"Zinc fingers, SWIM-type"	29299	protein-coding gene	gene with protein product						10819331	Standard	NM_020883		Approved	KIAA1511	uc001cnd.2	Q9P217	OTTHUMG00000008950	ENST00000359600.5:c.359G>T	1.37:g.45671664C>A	ENSP00000352614:p.Gly120Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SXQ9	Missense_Mutation	SNP	ENST00000359600.5	37	CCDS41319.1	.	.	.	.	.	.	.	.	.	.	C	7.574	0.667370	0.14710	.	.	ENSG00000162415	ENST00000359600	T	0.68765	-0.35	2.14	-0.388	0.12459	.	0.311011	0.20497	U	0.091165	T	0.46092	0.1375	L	0.34521	1.04	0.34312	D	0.685593	B	0.20780	0.048	B	0.15484	0.013	T	0.33214	-0.9877	10	0.30078	T	0.28	-0.8426	4.5086	0.11899	0.0:0.6055:0.2312:0.1633	.	120	Q9P217	ZSWM5_HUMAN	V	120	ENSP00000352614:G120V	ENSP00000352614:G120V	G	-	2	0	ZSWIM5	45444251	0.015000	0.18098	0.365000	0.25901	0.495000	0.33615	0.095000	0.15127	0.219000	0.20840	0.121000	0.15741	GGC		0.781	ZSWIM5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000024823.2	XM_046581		A	45671664	C	A	45671664	3	1	698	1	0	0	0	0	1	0	0	0	18256	739	26	4	3254	4	ZSWIM5	1	45671664	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	17984229	45671664	203578957	3	45653										
NASP	4678	broad.mit.edu;bcgsc.ca	37	chr1	46073053	46073073	+	In_Frame_Del	DEL	CCAAAAAAACAGAAGACAAGT	CCAAAAAAACAGAAGACAAGT	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	catgggagaaaaagaagaagCcaaaaaaacagaagacaagt							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	CCAAAAAAACAGAAGACAAGT	CCAAAAAAACAGAAGACAAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr1:46073053_46073073delCCAAAAAAACAGAAGACAAGT	ENST00000350030.3	+	6	557_577	c.470_490delCCAAAAAAACAGAAGACAAGT	c.(469-492)gccaaaaaaacagaagacaagtct>gct	p.KKTEDKS158del	NASP_ENST00000372052.4_Intron|NASP_ENST00000537798.1_In_Frame_Del_p.KKTEDKS94del|NASP_ENST00000402363.3_In_Frame_Del_p.KKTEDKS160del|NASP_ENST00000351223.3_Intron	NM_002482.3	NP_002473.2	P49321	NASP_HUMAN	nuclear autoantigenic sperm protein (histone-binding)	158	Glu-rich (acidic).				blastocyst development (GO:0001824)|cell cycle (GO:0007049)|cell proliferation (GO:0008283)|DNA replication (GO:0006260)|DNA replication-dependent nucleosome assembly (GO:0006335)|DNA replication-independent nucleosome assembly (GO:0006336)|histone exchange (GO:0043486)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|protein complex (GO:0043234)	Hsp90 protein binding (GO:0051879)			breast(1)|cervix(1)|endometrium(1)|large_intestine(2)|lung(6)|ovary(1)|pancreas(1)|prostate(3)|skin(1)	17	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.211)					AAAGAAGAAGCCAAAAAAACAGAAGACAAGTCTTTGGCAAA	0.412																																																0																																										SO:0001651	inframe_deletion	4678			M97856	CCDS524.1, CCDS525.1, CCDS55597.1	1p34.1	2013-01-10			ENSG00000132780	ENSG00000132780		"Tetratricopeptide (TTC) repeat domain containing"	7644	protein-coding gene	gene with protein product		603185				1426632	Standard	NM_002482		Approved	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999	uc001coi.2	P49321	OTTHUMG00000007826	ENST00000350030.3:c.470_490delCCAAAAAAACAGAAGACAAGT	1.37:g.46073053_46073073delCCAAAAAAACAGAAGACAAGT	ENSP00000255120:p.Lys158_Ser164del	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6H2|B4DQP3|D3DQ07|F5H3J2|Q53GW5|Q5T622|Q5T625|Q96A69|Q9BTW2	In_Frame_Del	DEL	ENST00000350030.3	37	CCDS524.1																																																																																				0.412	NASP-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000021533.2	NM_002482		-	46073073	CCAAAAAAACAGAAGACAAGT	-	46073053	7	5	698	1	0	1	0	1	0	0	0	0	10179	739	26	0	569	0	NASP	1	46073053	In_Frame_Del	DEL	CCAAAAAAACAGAAGACAAGT	TCGA-P4-A5EA-01A-11D-A28G-10	401389	46073053	203177568	4	45654										
PRKACB	5567	ucsc.edu	37	chr1	84663465	84663465	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ggcagaacttggacattatgTggaactccagagtatttggc	12	7	0	2			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr1:84663465T>C	ENST00000370689.2	+	7	864	c.600T>C	c.(598-600)tgT>tgC	p.C200C	PRKACB_ENST00000394838.2_Silent_p.C207C|PRKACB_ENST00000370685.3_Silent_p.C247C|PRKACB_ENST00000394839.2_Silent_p.C170C|PRKACB_ENST00000370688.3_Silent_p.C200C|PRKACB_ENST00000370682.3_Silent_p.C204C|PRKACB_ENST00000370680.1_Silent_p.C206C	NM_001242862.1|NM_002731.2	NP_001229791.1|NP_002722.1	P22694	KAPCB_HUMAN	protein kinase, cAMP-dependent, catalytic, beta	200	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|blood coagulation (GO:0007596)|carbohydrate metabolic process (GO:0005975)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|negative regulation of meiotic cell cycle (GO:0051447)|negative regulation of smoothened signaling pathway involved in dorsal/ventral neural tube patterning (GO:1901621)|neural tube closure (GO:0001843)|neurotrophin TRK receptor signaling pathway (GO:0048011)|protein phosphorylation (GO:0006468)|regulation of insulin secretion (GO:0050796)|regulation of protein processing (GO:0070613)|response to clozapine (GO:0097338)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)|transmembrane transport (GO:0055085)|triglyceride catabolic process (GO:0019433)|water transport (GO:0006833)	cAMP-dependent protein kinase complex (GO:0005952)|centrosome (GO:0005813)|ciliary base (GO:0097546)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleoplasm (GO:0005654)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|cAMP-dependent protein kinase activity (GO:0004691)|magnesium ion binding (GO:0000287)|ubiquitin protein ligase binding (GO:0031625)			breast(1)|endometrium(2)|kidney(1)|lung(11)|ovary(1)	16				all cancers(265;0.00536)|Epithelial(280;0.0161)|OV - Ovarian serous cystadenocarcinoma(397;0.141)		GGACATTATGTGGAACTCCAG	0.343																																																0													102	113	109					1																	84663465		2203	4299	6502	SO:0001819	synonymous_variant	5567			BC035058	CCDS691.1, CCDS692.1, CCDS693.1, CCDS55610.1, CCDS55611.1, CCDS72812.1, CCDS72813.1, CCDS72814.1, CCDS72815.1, CCDS72816.1	1p36.1	2012-10-02			ENSG00000142875	ENSG00000142875	2.7.11.1		9381	protein-coding gene	gene with protein product		176892					Standard	XM_005271016		Approved	PKACb	uc001djl.3	P22694	OTTHUMG00000009975	ENST00000370689.2:c.600T>C	1.37:g.84663465T>C		Somatic		WXS	Illumina HiSeq		B1APG4|B4DKB0|B4E2Q1|Q14VH1|Q59GC0|Q5BNE9|Q5BNF0|Q5BNF1|Q5BNF2|Q5BNF3|Q5CZ92|Q5T1K3|Q7Z3M1|Q8IYR5|Q8IZQ0|Q96B09	Silent	SNP	ENST00000370689.2	37	CCDS691.1																																																																																				0.343	PRKACB-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000027641.1	NM_182948		C	84663465	T	C	84663465	2	2	698	1	0	0	0	0	0	0	0	1	12508	1702	59	3		3	PRKACB	1	84663465	Silent	SNP	T	TCGA-P4-A5EA-01A-11D-A28G-10	38590412	84663465	164587156	5	45655										
PHTF1	10745	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	114255942	114255943	+	Frame_Shift_Del	DEL	TT	TT	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tgaaaattttgctttctctcTtgtttgccacattctaatct							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr1:114255942_114255943delTT	ENST00000369604.1	-	8	1224_1225	c.741_742delAA	c.(739-744)acaagafs	p.R248fs	PHTF1_ENST00000369598.1_Frame_Shift_Del_p.R203fs|PHTF1_ENST00000447664.2_Intron|PHTF1_ENST00000369596.2_Frame_Shift_Del_p.R195fs|PHTF1_ENST00000393357.2_Frame_Shift_Del_p.R248fs|PHTF1_ENST00000357783.2_Frame_Shift_Del_p.R248fs|PHTF1_ENST00000369600.1_Frame_Shift_Del_p.R195fs|PHTF1_ENST00000474926.1_5'UTR			Q9UMS5	PHTF1_HUMAN	putative homeodomain transcription factor 1	248					transcription, DNA-templated (GO:0006351)	cis-Golgi network (GO:0005801)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|endometrium(3)|kidney(2)|large_intestine(9)|liver(1)|lung(7)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	27	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCTTTCTCTCTTGTTTGCCACA	0.371																																																0																																										SO:0001589	frameshift_variant	10745			AJ011863	CCDS861.1	1p13-p11	2008-07-18			ENSG00000116793	ENSG00000116793			8939	protein-coding gene	gene with protein product		604950		PHTF		10395808	Standard	NM_006608		Approved		uc009wgp.1	Q9UMS5	OTTHUMG00000011800	ENST00000369604.1:c.741_742delAA	1.37:g.114255942_114255943delTT	ENSP00000358617:p.Arg248fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VWP7|Q5VWP8|Q9BUP2|Q9H1X8	Frame_Shift_Del	DEL	ENST00000369604.1	37	CCDS861.1																																																																																				0.371	PHTF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032666.1	NM_006608		-	114255943	TT	-	114255942	7	5	698	1	0	1	0	1	0	0	0	0	11869	1617	56	0	1594	0	PHTF1	1	114255942	Frame_Shift_Del	DEL	TT	TCGA-P4-A5EA-01A-11D-A28G-10	29592477	114255942	134994679	6	45656										
TUFT1	7286	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	151552139	151552139	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ttgcagctccagaattcaaaAgctgtgatccagtcaaagga	9	9	2	2	rs201062061		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr1:151552139A>G	ENST00000368849.3	+	11	1001	c.939A>G	c.(937-939)aaA>aaG	p.K313K	TUFT1_ENST00000368848.2_Silent_p.K288K|TUFT1_ENST00000392712.3_Silent_p.K258K|TUFT1_ENST00000538902.1_Silent_p.K332K|TUFT1_ENST00000353024.3_Silent_p.K254K	NM_020127.2	NP_064512.1	Q9NNX1	TUFT1_HUMAN	tuftelin 1	313					bone mineralization (GO:0030282)|odontogenesis (GO:0042476)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)	structural constituent of tooth enamel (GO:0030345)			cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(3)|prostate(1)|skin(1)	13	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)			AGAATTCAAAAGCTGTGATCC	0.547																																																0													58	53	55					1																	151552139		2203	4300	6503	SO:0001819	synonymous_variant	7286			AF254260	CCDS1000.1, CCDS44223.1	1q21	2008-02-05			ENSG00000143367	ENSG00000143367			12422	protein-coding gene	gene with protein product		600087				7919663	Standard	NM_020127		Approved		uc001eyl.3	Q9NNX1	OTTHUMG00000012536	ENST00000368849.3:c.939A>G	1.37:g.151552139A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2RD57|D3DV21|D3DV22|Q5T384|Q5T385|Q9BU28|Q9H5L1	Silent	SNP	ENST00000368849.3	37	CCDS1000.1																																																																																				0.547	TUFT1-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000035022.1	NM_020127		G	151552139	A	G	151552139	2	3	698	1	0	0	0	0	0	0	0	1	16784	69	3	3		3	TUFT1	1	151552139	Silent	SNP	A	TCGA-P4-A5EA-01A-11D-A28G-10	37296197	151552139	97698482	7	45657										
GATAD2B	57459	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	153792180	153792180	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	agacaaaacaatgatgtctgGtgagggagttagccttcctc	11	8	1	3			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr1:153792180G>C	ENST00000368655.4	-	3	610	c.367C>G	c.(367-369)Cca>Gca	p.P123A		NM_020699.2	NP_065750.1	Q8WXI9	P66B_HUMAN	GATA zinc finger domain containing 2B	123					ATP-dependent chromatin remodeling (GO:0043044)|transcription, DNA-templated (GO:0006351)	nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|protein complex (GO:0043234)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			breast(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(5)|lung(12)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(3)	38	all_lung(78;1.34e-32)|Lung NSC(65;1.04e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			ATGATGTCTGGTGAGGGAGTT	0.408																																																0													111	112	112					1																	153792180		2203	4300	6503	SO:0001583	missense	57459			AF411836	CCDS1054.1	1q21.3	2013-01-25			ENSG00000143614	ENSG00000143614		"GATA zinc finger domain containing"	30778	protein-coding gene	gene with protein product	"transcription repressor p66 beta component of the MeCP1 complex"	614998				10574461, 11756549	Standard	NM_020699		Approved	P66beta	uc001fdb.4	Q8WXI9	OTTHUMG00000037162	ENST00000368655.4:c.367C>G	1.37:g.153792180G>C	ENSP00000357644:p.Pro123Ala	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUZ2|Q5VUR2|Q7LG68|Q9ULS0	Missense_Mutation	SNP	ENST00000368655.4	37	CCDS1054.1	.	.	.	.	.	.	.	.	.	.	G	27.3	4.821458	0.90873	.	.	ENSG00000143614	ENST00000368655	T	0.41400	1.0	5.16	5.16	0.70880	.	0.000000	0.85682	D	0.000000	T	0.53029	0.1771	L	0.57536	1.79	0.80722	D	1	D	0.76494	0.999	D	0.75484	0.986	T	0.42982	-0.9419	10	0.35671	T	0.21	-15.871	17.5737	0.87942	0.0:0.0:1.0:0.0	.	123	Q8WXI9	P66B_HUMAN	A	123	ENSP00000357644:P123A	ENSP00000357644:P123A	P	-	1	0	GATAD2B	152058804	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	9.086000	0.94088	2.682000	0.91365	0.557000	0.71058	CCA		0.408	GATAD2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090305.1	NM_020699		C	153792180	G	C	153792180	3	2	698	1	0	0	0	0	1	0	0	0	6268	1261	44	4	1450	4	GATAD2B	1	153792180	Missense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	2240041	153792180	95458441	8	45658										
EFNA1	1942	ucsc.edu	37	chr1	155104060	155104060	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gaagttccagcgcttcacacCtttcaccctgggcaaggagt	10	13	2	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr1:155104060C>T	ENST00000368407.3	+	2	856	c.338C>T	c.(337-339)cCt>cTt	p.P113L	EFNA1_ENST00000469878.1_3'UTR|EFNA1_ENST00000368406.2_Missense_Mutation_p.P113L	NM_004428.2	NP_004419.2	P20827	EFNA1_HUMAN	ephrin-A1	113	Ephrin RBD. {ECO:0000255|PROSITE- ProRule:PRU00884}.				activation of MAPK activity (GO:0000187)|angiogenesis (GO:0001525)|aortic valve morphogenesis (GO:0003180)|axon guidance (GO:0007411)|cell migration (GO:0016477)|cell-cell signaling (GO:0007267)|endocardial cushion to mesenchymal transition involved in heart valve formation (GO:0003199)|ephrin receptor signaling pathway (GO:0048013)|mitral valve morphogenesis (GO:0003183)|negative regulation of dendritic spine morphogenesis (GO:0061002)|negative regulation of epithelial to mesenchymal transition (GO:0010719)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|notochord formation (GO:0014028)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|regulation of angiogenesis (GO:0045765)|regulation of axonogenesis (GO:0050770)|regulation of blood vessel endothelial cell migration (GO:0043535)|regulation of cell adhesion mediated by integrin (GO:0033628)|regulation of peptidyl-tyrosine phosphorylation (GO:0050730)|substrate adhesion-dependent cell spreading (GO:0034446)	anchored component of plasma membrane (GO:0046658)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	ephrin receptor binding (GO:0046875)|receptor binding (GO:0005102)			breast(1)|endometrium(1)|kidney(1)|lung(1)|skin(1)	5	all_epithelial(22;4.71e-30)|all_lung(78;3.15e-27)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;2.28e-10)|all cancers(21;6.16e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000395)|LUSC - Lung squamous cell carcinoma(543;0.193)			CGCTTCACACCTTTCACCCTG	0.547																																																0													54	48	50					1																	155104060		2203	4300	6503	SO:0001583	missense	1942				CCDS1091.1, CCDS1092.1	1q21-q22	2011-03-09			ENSG00000169242	ENSG00000169242		"Ephrins"	3221	protein-coding gene	gene with protein product		191164		TNFAIP4, EPLG1		2233719, 8660976	Standard	NM_182685		Approved	LERK1, ECKLG	uc001fhh.3	P20827	OTTHUMG00000035312	ENST00000368407.3:c.338C>T	1.37:g.155104060C>T	ENSP00000357392:p.Pro113Leu	Somatic		WXS	Illumina HiSeq		D3DV86|Q5SR60|Q5SR61|Q6I9T9|Q8N578	Missense_Mutation	SNP	ENST00000368407.3	37	CCDS1091.1	.	.	.	.	.	.	.	.	.	.	C	24.7	4.556530	0.86231	.	.	ENSG00000169242	ENST00000368407;ENST00000368406	T;T	0.73363	-0.74;-0.74	5.22	4.3	0.51218	Ephrin, conserved site (1);Cupredoxin (2);	0.154283	0.64402	D	0.000015	D	0.84969	0.5590	M	0.88640	2.97	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.998;0.999	D	0.88382	0.3002	10	0.87932	D	0	-7.7709	13.8904	0.63736	0.0:0.8459:0.1541:0.0	.	113;113	P20827-2;P20827	.;EFNA1_HUMAN	L	113	ENSP00000357392:P113L;ENSP00000357391:P113L	ENSP00000357391:P113L	P	+	2	0	EFNA1	153370684	1.000000	0.71417	0.999000	0.59377	0.998000	0.95712	5.710000	0.68392	1.314000	0.45095	0.655000	0.94253	CCT		0.547	EFNA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085428.1	NM_004428		T	155104060	C	T	155104060	3	4	698	1	0	0	0	0	1	0	0	0	4952	681	24	2	344	2	EFNA1	1	155104060	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	1311880	155104060	94146561	9	45659										
FAM82A1	151393	bcgsc.ca	37	chr2	38156861	38156861	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	aatagttcagaggaagcagaAagtgaaggagggtaagtttc	14	3	1	3			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr2:38156861A>G	ENST00000406384.1	+	2	635	c.441A>G	c.(439-441)gaA>gaG	p.E147E	RMDN2_ENST00000354545.2_Silent_p.E147E	NM_001170792.1	NP_001164263.1	Q96LZ7	RMD2_HUMAN	regulator of microtubule dynamics 2	147						cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|microtubule (GO:0005874)|mitochondrion (GO:0005739)											AGGAAGCAGAAAGTGAAGGAG	0.338																																																0													29	27	28					2																	38156861		692	1591	2283	SO:0001819	synonymous_variant	151393			AK057516	CCDS1792.1, CCDS54351.1, CCDS54352.1	2p22.2	2013-01-11	2013-01-11	2013-01-11	ENSG00000115841	ENSG00000115841			26567	protein-coding gene	gene with protein product		611872	"family with sequence similarity 82, member A1"	FAM82A, FAM82A1		12477932	Standard	XM_005264161		Approved	FLJ32954, RMD2	uc002rqn.2	Q96LZ7	OTTHUMG00000128487	ENST00000406384.1:c.441A>G	2.37:g.38156861A>G		Somatic		WXS	Illumina HiSeq	Phase_1	A9UMZ7|A9UN00|Q4ZG33|Q6UXN4|Q8N657|Q8N9A2|Q8NCV6|Q8NHM0	Silent	SNP	ENST00000406384.1	37	CCDS54351.1																																																																																				0.338	RMDN2-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000325577.1	NM_144713		G	38156861	A	G	38156861	2	3	698	1	0	0	0	0	0	0	0	1	5637	11	1	3		3	FAM82A1	2	38156861	Silent	SNP	A	TCGA-P4-A5EA-01A-11D-A28G-10		38156861	205042512	10	45660										
SOCS5	9655	broad.mit.edu	37	chr2	46987222	46987224	+	In_Frame_Del	DEL	ATT	ATT	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ggattttttaaaagagtatcAttataaacaaaaagttagag							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	ATT	ATT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr2:46987222_46987224delATT	ENST00000306503.5	+	2	1725_1727	c.1553_1555delATT	c.(1552-1557)cattat>cat	p.Y519del	SOCS5_ENST00000394861.2_In_Frame_Del_p.Y519del	NM_014011.4	NP_054730.1	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	519	SOCS box. {ECO:0000255|PROSITE- ProRule:PRU00194}.				cell growth (GO:0016049)|cytokine-mediated signaling pathway (GO:0019221)|epidermal growth factor receptor signaling pathway (GO:0007173)|JAK-STAT cascade (GO:0007259)|negative regulation of epidermal growth factor-activated receptor activity (GO:0007175)|negative regulation of signal transduction (GO:0009968)|negative regulation of T-helper 2 cell differentiation (GO:0045629)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of T-helper 1 cell differentiation (GO:0045627)|protein ubiquitination (GO:0016567)|regulation of growth (GO:0040008)		receptor tyrosine kinase binding (GO:0030971)			breast(1)|central_nervous_system(1)|endometrium(4)|large_intestine(5)|lung(9)|ovary(2)	22		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			AAAGAGTATCATTATAAACAAAA	0.433																																																0																																										SO:0001651	inframe_deletion	9655			AB014571	CCDS1830.1	2p21	2013-02-14			ENSG00000171150	ENSG00000171150		"Suppressors of cytokine signaling", "SH2 domain containing"	16852	protein-coding gene	gene with protein product		607094				9734811, 11230166	Standard	NM_014011		Approved	KIAA0671, SOCS-5, CIS6, CISH6, Cish5	uc002rvf.3	O75159	OTTHUMG00000128852	ENST00000306503.5:c.1553_1555delATT	2.37:g.46987222_46987224delATT	ENSP00000305133:p.Tyr519del	Somatic		WXS	Illumina HiSeq	Phase_I	Q53SD4|Q8IYZ4	In_Frame_Del	DEL	ENST00000306503.5	37	CCDS1830.1																																																																																				0.433	SOCS5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250791.2			-	46987224	ATT	-	46987222	7	5	698	1	0	1	0	1	0	0	0	0	14930	217	8	0	1555	0	SOCS5	2	46987222	In_Frame_Del	DEL	ATT	TCGA-P4-A5EA-01A-11D-A28G-10	8830361	46987222	196212151	11	45661										
ASPRV1	151516	broad.mit.edu	37	chr2	70188625	70188626	+	Frame_Shift_Del	DEL	AG	AG	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	cgccaagaagagaaacccacAgagcagtgtcggcgcaatca							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr2:70188625_70188626delAG	ENST00000320256.4	-	1	771_772	c.195_196delCT	c.(193-198)ctctgtfs	p.C66fs	PCBP1-AS1_ENST00000596259.1_RNA|PCBP1-AS1_ENST00000415222.1_RNA|PCBP1-AS1_ENST00000413436.1_RNA|PCBP1-AS1_ENST00000419542.1_RNA|PCBP1-AS1_ENST00000457076.1_RNA|PCBP1-AS1_ENST00000435880.2_RNA|PCBP1-AS1_ENST00000418564.1_RNA	NM_152792.2	NP_690005.2			aspartic peptidase, retroviral-like 1											endometrium(3)|large_intestine(4)|lung(6)|ovary(1)	14						AGAAACCCACAGAGCAGTGTCG	0.653																																																0																																										SO:0001589	frameshift_variant	151516			AK055994	CCDS1897.1	2p13.3	2008-02-20			ENSG00000244617	ENSG00000244617			26321	protein-coding gene	gene with protein product	"Skin ASpartic Protease"	611765				16098038, 16565508	Standard	NM_152792		Approved	Taps, SASPase, FLJ25084	uc002sfz.4	Q53RT3	OTTHUMG00000129647	ENST00000320256.4:c.195_196delCT	2.37:g.70188627_70188628delAG	ENSP00000315383:p.Cys66fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000320256.4	37	CCDS1897.1																																																																																				0.653	ASPRV1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000334161.1	NM_152792		-	70188626	AG	-	70188625	7	5	698	1	0	1	0	1	0	0	0	0	1058	188	7	0	839	0	ASPRV1	2	70188625	Frame_Shift_Del	DEL	AG	TCGA-P4-A5EA-01A-11D-A28G-10	23201403	70188625	173010748	12	45662										
ALMS1	7840	broad.mit.edu	37	chr2	73675809	73675809	+	Nonsense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tctctactccccactcacatAgagagaagcctggtattttt	6	12	2	2			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr2:73675809A>T	ENST00000264448.6	+	8	2263	c.2152A>T	c.(2152-2154)Aga>Tga	p.R718*	ALMS1_ENST00000409009.1_Nonsense_Mutation_p.R676*|ALMS1_ENST00000377715.1_Nonsense_Mutation_p.R718*	NM_015120.4	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	718	34 X 47 AA approximate tandem repeat.				endosomal transport (GO:0016197)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|regulation of stress fiber assembly (GO:0051492)	centrosome (GO:0005813)|cilium (GO:0005929)|cytoplasm (GO:0005737)|cytosol (GO:0005829)				breast(4)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(31)|lung(68)|ovary(4)|pancreas(4)|prostate(3)|skin(8)|upper_aerodigestive_tract(1)|urinary_tract(2)	147						CCACTCACATAGAGAGAAGCC	0.478																																																0													126	123	124					2																	73675809		1876	4104	5980	SO:0001587	stop_gained	7840			AB002326	CCDS42697.1	2p13.1	2014-09-17			ENSG00000116127	ENSG00000116127			428	protein-coding gene	gene with protein product		606844				9063741	Standard	NM_015120		Approved	KIAA0328	uc002sje.1	Q8TCU4	OTTHUMG00000152812	ENST00000264448.6:c.2152A>T	2.37:g.73675809A>T	ENSP00000264448:p.Arg718*	Somatic		WXS	Illumina HiSeq	Phase_I	Q53S05|Q580Q8|Q86VP9|Q9Y4G4	Nonsense_Mutation	SNP	ENST00000264448.6	37	CCDS42697.1	.	.	.	.	.	.	.	.	.	.	A	32	5.117870	0.94385	.	.	ENSG00000116127	ENST00000409009;ENST00000264448;ENST00000377715	.	.	.	4.11	-2.77	0.05877	.	0.983825	0.08315	N	0.964810	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.05959	T	0.93	.	5.0571	0.14539	0.4523:0.1607:0.387:0.0	.	.	.	.	X	676;718;718	.	ENSP00000264448:R718X	R	+	1	2	ALMS1	73529317	0.000000	0.05858	0.000000	0.03702	0.017000	0.09413	-0.167000	0.09940	-0.488000	0.06726	0.533000	0.62120	AGA		0.478	ALMS1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000327776.1	NM_015120		T	73675809	A	T	73675809	4	4	698	1	0	0	0	0	0	1	0	0	535	412	15	5	2182	5	ALMS1	2	73675809	Nonsense_Mutation	SNP	A	TCGA-P4-A5EA-01A-11D-A28G-10	3487184	73675809	169523564	13	45663										
TTL	150465	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	113260608	113260609	+	Frame_Shift_Del	DEL	AT	AT	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	caaaacctgccatttgaccaAtcactgcattcaaaaagagt							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr2:113260608_113260609delAT	ENST00000233336.6	+	5	916_917	c.725_726delAT	c.(724-726)aatfs	p.N242fs		NM_153712.4	NP_714923.1	Q8NG68	TTL_HUMAN	tubulin tyrosine ligase	242	TTL. {ECO:0000255|PROSITE- ProRule:PRU00568}.				cellular protein modification process (GO:0006464)|microtubule cytoskeleton organization (GO:0000226)|regulation of axon extension (GO:0030516)		ATP binding (GO:0005524)|tubulin-tyrosine ligase activity (GO:0004835)			breast(1)|large_intestine(2)|ovary(1)	4		Ovarian(717;0.024)		BRCA - Breast invasive adenocarcinoma(221;6.17e-07)|STAD - Stomach adenocarcinoma(1183;0.00644)		CATTTGACCAATCACTGCATTC	0.376			T	ETV6	ALL																																		Dom	yes		2	2q13	150465	tubulin tyrosine ligase		L	0																																										SO:0001589	frameshift_variant	150465				CCDS2096.1	2q13	2010-04-21			ENSG00000114999	ENSG00000114999	6.3.2.25		21586	protein-coding gene	gene with protein product		608291				11431336	Standard	NM_153712		Approved	MGC46235	uc002thu.3	Q8NG68	OTTHUMG00000131316	ENST00000233336.6:c.725_726delAT	2.37:g.113260608_113260609delAT	ENSP00000233336:p.Asn242fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q585T3|Q7Z302|Q8N426	Frame_Shift_Del	DEL	ENST00000233336.6	37	CCDS2096.1																																																																																				0.376	TTL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254085.2	NM_153712		-	113260609	AT	-	113260608	7	5	698	1	0	1	0	1	0	0	0	0	16733	101	4	0	743	0	TTL	2	113260608	Frame_Shift_Del	DEL	AT	TCGA-P4-A5EA-01A-11D-A28G-10	39584799	113260608	129938765	14	45664										
PHOSPHO2	493911	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	170557975	170557975	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	agaatttgtagataaacagtTacaacagggagtgaattata	9	3	0	3			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr2:170557975T>A	ENST00000359744.3	+	4	882	c.494T>A	c.(493-495)tTa>tAa	p.L165*	KLHL23_ENST00000602521.1_Intron|KLHL23_ENST00000272797.4_Intron	NM_001008489.3|NM_001199285.1|NM_001199286.1|NM_001199288.1	NP_001008489.1|NP_001186214.1|NP_001186215.1|NP_001186217.1	Q8TCD6	PHOP2_HUMAN	phosphatase, orphan 2	165							metal ion binding (GO:0046872)|pyridoxal phosphatase activity (GO:0033883)			breast(1)|large_intestine(1)|lung(6)|skin(2)	10						GATAAACAGTTACAACAGGGA	0.343																																																0													67	68	67					2																	170557975		2202	4299	6501	SO:0001587	stop_gained	493911			BC022324	CCDS33319.1	2q31.1	2008-02-05			ENSG00000144362	ENSG00000144362			28316	protein-coding gene	gene with protein product						16054448	Standard	NM_001199285		Approved	MGC22679	uc021vsh.1	Q8TCD6	OTTHUMG00000153981	ENST00000359744.3:c.494T>A	2.37:g.170557975T>A	ENSP00000352782:p.Leu165*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RC30|D3DPC7	Nonsense_Mutation	SNP	ENST00000359744.3	37	CCDS33319.1	.	.	.	.	.	.	.	.	.	.	T	13.88	2.368506	0.42003	.	.	ENSG00000144362	ENST00000359744	.	.	.	6.06	0.949	0.19566	.	0.731679	0.12670	U	0.448875	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.20046	T	0.44	.	9.8927	0.41300	0.0:0.3207:0.0:0.6793	.	.	.	.	X	165	.	ENSP00000352782:L165X	L	+	2	0	PHOSPHO2	170266221	0.716000	0.27956	0.041000	0.18516	0.050000	0.14768	1.014000	0.29950	0.172000	0.19760	-0.250000	0.11733	TTA		0.343	PHOSPHO2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333304.1	NM_001008489		A	170557975	T	A	170557975	4	1	698	1	0	0	0	0	0	1	0	0	11864	1764	61	5	496	5	PHOSPHO2	2	170557975	Nonsense_Mutation	SNP	T	TCGA-P4-A5EA-01A-11D-A28G-10	57297367	170557975	72641398	15	45665										
FARP2	9855	broad.mit.edu	37	chr2	242433486	242433487	+	Frame_Shift_Ins	INS	-	-	G													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ccccaagcatcgtgcaggatINSggcccccaaccctcctcagg							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr2:242433486_242433487insG	ENST00000264042.3	+	27	3281_3282	c.3111_3112insG	c.(3112-3114)ggcfs	p.G1038fs	STK25_ENST00000478403.1_5'Flank|STK25_ENST00000316586.4_3'UTR	NM_014808.2	NP_055623.1	O94887	FARP2_HUMAN	FERM, RhoGEF and pleckstrin domain protein 2	1038					actin cytoskeleton reorganization (GO:0031532)|axon guidance (GO:0007411)|cell adhesion (GO:0007155)|neuron remodeling (GO:0016322)|osteoclast differentiation (GO:0030316)|podosome assembly (GO:0071800)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of Rho GTPase activity (GO:0032321)|Rac protein signal transduction (GO:0016601)|regulation of integrin activation (GO:0033623)|regulation of Rac GTPase activity (GO:0032314)|semaphorin-plexin signaling pathway (GO:0071526)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extrinsic component of membrane (GO:0019898)	Rac guanyl-nucleotide exchange factor activity (GO:0030676)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(8)|lung(18)|ovary(2)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	43		all_cancers(19;4.88e-34)|all_epithelial(40;4.81e-14)|Breast(86;0.000141)|Renal(207;0.0143)|all_lung(227;0.0344)|Lung NSC(271;0.0886)|Ovarian(221;0.0905)|Esophageal squamous(248;0.131)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;1.81e-33)|all cancers(36;1.61e-30)|OV - Ovarian serous cystadenocarcinoma(60;6.83e-15)|Kidney(56;1.19e-08)|KIRC - Kidney renal clear cell carcinoma(57;8.98e-08)|BRCA - Breast invasive adenocarcinoma(100;1.49e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00125)|Colorectal(34;0.0199)|COAD - Colon adenocarcinoma(134;0.121)		TCGTGCAGGATGGCCCCCAACC	0.634																																																0																																										SO:0001589	frameshift_variant	9855			AB018336	CCDS33424.1, CCDS63197.1	2q37.3	2013-01-10			ENSG00000006607	ENSG00000006607		"Rho guanine nucleotide exchange factors", "Pleckstrin homology (PH) domain containing"	16460	protein-coding gene	gene with protein product						9872452, 12351724	Standard	NM_001282984		Approved	KIAA0793, FIR, PLEKHC3, FRG	uc002wbi.2	O94887	OTTHUMG00000151574	ENST00000264042.3:c.3113dupG	2.37:g.242433488_242433488dupG	ENSP00000264042:p.Gly1038fs	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6J8|F5GZ84|Q53QM5|Q8WU27|Q9UFE7	Frame_Shift_Ins	INS	ENST00000264042.3	37	CCDS33424.1																																																																																				0.634	FARP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323153.1			G	242433487	-	G	242433486	7	5	698	1	0	1	1	0	0	0	0	0	5684	1461	51	0	3213	0	FARP2	2	242433486	Frame_Shift_Ins	INS	-	TCGA-P4-A5EA-01A-11D-A28G-10	71875511	242433486	765887	16	45666										
IL17RC	84818	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	9959173	9959173	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ttggctcagcaaagccttagCctggctcctgtcactgctgc	10	14	2	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr3:9959173C>T	ENST00000295981.3	+	1	392	c.174C>T	c.(172-174)agC>agT	p.S58S	IL17RC_ENST00000413608.1_Intron|RNU6-882P_ENST00000391025.1_RNA|IL17RC_ENST00000498214.1_Intron|IL17RC_ENST00000416074.2_Intron|IL17RC_ENST00000383812.4_Intron|IL17RC_ENST00000455057.1_Intron|IL17RC_ENST00000403601.3_Intron	NM_153461.3	NP_703191	Q8NAC3	I17RC_HUMAN	interleukin 17 receptor C	58					cytokine-mediated signaling pathway (GO:0019221)|positive regulation of cytokine production involved in inflammatory response (GO:1900017)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	interleukin-17 receptor activity (GO:0030368)			breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(3)|ovary(3)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	22						AAAGCCTTAGCCTGGCTCCTG	0.592																																																0													81	85	84					3																	9959173		2203	4300	6503	SO:0001819	synonymous_variant	84818			BC006411	CCDS2590.1, CCDS2591.2, CCDS46746.1, CCDS56240.1, CCDS56241.1, CCDS74898.1	3p25.3	2008-02-05			ENSG00000163702	ENSG00000163702		"Interleukins and interleukin receptors"	18358	protein-coding gene	gene with protein product		610925				11706037	Standard	NM_153460		Approved	IL17-RL	uc003bua.3	Q8NAC3	OTTHUMG00000128648	ENST00000295981.3:c.174C>T	3.37:g.9959173C>T		Somatic		WXS	Illumina HiSeq	Phase_I	E9PHG1|E9PHJ6|Q6UVY3|Q6UWD4|Q8NFS1|Q9BR97	Silent	SNP	ENST00000295981.3	37	CCDS2590.1																																																																																				0.592	IL17RC-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000250526.2	NM_032732		T	9959173	C	T	9959173	2	4	698	1	0	0	0	0	0	0	0	1	7648	738	26	2		2	IL17RC	3	9959173	Silent	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10		9959173	188063257	17	45667										
GOLGA4	2803	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	37365077	37365078	+	Splice_Site	DEL	AG	AG	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tgcatctgtttttaattaacAgagaattcttgaattggaaa							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr3:37365077_37365078delAG	ENST00000361924.2	+	14	2075		c.e14-1		GOLGA4_ENST00000444882.1_Intron|GOLGA4_ENST00000356847.4_Splice_Site	NM_002078.4	NP_002069.2	Q13439	GOGA4_HUMAN	golgin A4						Golgi to plasma membrane protein transport (GO:0043001)|protein targeting to Golgi (GO:0000042)|vesicle-mediated transport (GO:0016192)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|nucleus (GO:0005634)|trans-Golgi network (GO:0005802)	GTPase binding (GO:0051020)			NS(2)|breast(3)|central_nervous_system(3)|endometrium(6)|kidney(2)|large_intestine(17)|liver(2)|lung(16)|ovary(4)|prostate(2)|skin(4)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	65						TTTAATTAACAGAGAATTCTTG	0.307																																																0																																										SO:0001630	splice_region_variant	2803			U31906	CCDS2666.1, CCDS54564.1	3p22-p21.3	2010-02-12	2010-02-12		ENSG00000144674	ENSG00000144674			4427	protein-coding gene	gene with protein product	"golgin 245"	602509	"golgi autoantigen, golgin subfamily a, 4"			8626529	Standard	NM_002078		Approved	GOLG, GCP2, p230, golgin-240	uc003cgw.3	Q13439	OTTHUMG00000130799	ENST00000361924.2:c.1702-1AG>-	3.37:g.37365079_37365080delAG		Somatic		WXS	Illumina HiSeq	Phase_I	F8W8Q7|Q13270|Q13654|Q14436|Q59EW8	Splice_Site	DEL	ENST00000361924.2	37	CCDS2666.1																																																																																				0.307	GOLGA4-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000253339.2	NM_002078	Intron	-	37365078	AG	-	37365077	8	5	698	1	0	1	0	1	0	0	1	0	6562	202	7	0	1824	0	GOLGA4	3	37365077	Splice_Site	DEL	AG	TCGA-P4-A5EA-01A-11D-A28G-10	27405904	37365077	160657353	18	45668										
ROBO1	6091	ucsc.edu	37	chr3	78685208	78685208	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	agttgactcagggagcatcaGatttgtttgtttgttatcca	10	6	2	2			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr3:78685208G>A	ENST00000464233.1	-	23	3201	c.3088C>T	c.(3088-3090)Ctg>Ttg	p.L1030L	ROBO1_ENST00000467549.1_Intron|ROBO1_ENST00000495273.1_Silent_p.L985L|ROBO1_ENST00000436010.2_Silent_p.L991L	NM_002941.3	NP_002932.1	Q9Y6N7	ROBO1_HUMAN	roundabout, axon guidance receptor, homolog 1 (Drosophila)	1030					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|axon guidance (GO:0007411)|axon midline choice point recognition (GO:0016199)|cell adhesion (GO:0007155)|cell migration involved in sprouting angiogenesis (GO:0002042)|chemorepulsion involved in postnatal olfactory bulb interneuron migration (GO:0021836)|homophilic cell adhesion (GO:0007156)|mammary duct terminal end bud growth (GO:0060763)|negative regulation of chemokine-mediated signaling pathway (GO:0070100)|negative regulation of mammary gland epithelial cell proliferation (GO:0033600)|negative regulation of negative chemotaxis (GO:0050925)|nervous system development (GO:0007399)|positive regulation of axonogenesis (GO:0050772)|Roundabout signaling pathway (GO:0035385)	axolemma (GO:0030673)|cell surface (GO:0009986)|cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	axon guidance receptor activity (GO:0008046)|identical protein binding (GO:0042802)|LRR domain binding (GO:0030275)			breast(1)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(2)|lung(25)|urinary_tract(1)	44		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		GGGAGCATCAGATTTGTTTGT	0.378																																																0													66	65	66					3																	78685208		1907	4115	6022	SO:0001819	synonymous_variant	6091			AF040990	CCDS46872.1, CCDS46872.2, CCDS54610.1, CCDS54611.1	3p12.3	2013-02-11	2001-11-28		ENSG00000169855	ENSG00000169855		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	10249	protein-coding gene	gene with protein product		602430	"roundabout (axon guidance receptor, Drosophila) homolog 1"			9458045, 9608531	Standard	NM_002941		Approved	DUTT1, FLJ21882, SAX3	uc003dqe.2	Q9Y6N7	OTTHUMG00000158843	ENST00000464233.1:c.3088C>T	3.37:g.78685208G>A		Somatic		WXS	Illumina HiSeq		B2RXI1|D3DU36|E9PD49|Q1RMC7|Q7Z300|Q9BUS7	Silent	SNP	ENST00000464233.1	37	CCDS54611.1																																																																																				0.378	ROBO1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000352610.1	NM_002941		A	78685208	G	A	78685208	2	1	698	1	0	0	0	0	0	0	0	1	13526	933	33	2		2	ROBO1	3	78685208	Silent	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	41320131	78685208	119337222	19	45669										
NFKBIZ	64332	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	101572345	101572345	+	Frame_Shift_Del	DEL	C	C	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tcccccgcttatgaaccaaaCctctttgatggtccagaatc							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr3:101572345delC	ENST00000326172.5	+	5	1090	c.975delC	c.(973-975)aacfs	p.N325fs	NFKBIZ_ENST00000394054.2_Frame_Shift_Del_p.N225fs|NFKBIZ_ENST00000326151.5_Intron	NM_031419.3	NP_113607.1	Q9BYH8	IKBZ_HUMAN	nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor, zeta	325	Required for transcriptional activity. {ECO:0000250}.				inflammatory response (GO:0006954)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)				breast(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(8)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	24						ATGAACCAAACCTCTTTGATG	0.468																																																0													128	124	125					3																	101572345		2203	4300	6503	SO:0001589	frameshift_variant	64332			AF548362	CCDS2946.1, CCDS43123.1	3p12-q12	2013-01-10			ENSG00000144802	ENSG00000144802		"Ankyrin repeat domain containing"	29805	protein-coding gene	gene with protein product	"IL-1 inducible nuclear ankyrin-repeat protein"	608004				12565889, 16513645	Standard	NM_031419		Approved	MAIL, FLJ34463, INAP	uc003dvp.3	Q9BYH8	OTTHUMG00000159194	ENST00000326172.5:c.975delC	3.37:g.101572345delC	ENSP00000325663:p.Asn325fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KNR2|D3DN54|Q8IUL4|Q8NAZ8	Frame_Shift_Del	DEL	ENST00000326172.5	37	CCDS2946.1																																																																																				0.468	NFKBIZ-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000353793.1	NM_031419		-	101572345	C	-	101572345	7	5	698	1	0	1	0	1	0	0	0	0	10390	506	18	0	993	0	NFKBIZ	3	101572345	Frame_Shift_Del	DEL	C	TCGA-P4-A5EA-01A-11D-A28G-10	22887137	101572345	96450085	20	45670										
CD96	10225	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	111297955	111297955	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tacttaaagatagagtcaagCttggtacagactacagactc	8	8	1	4			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr3:111297955C>T	ENST00000283285.5	+	5	804	c.673C>T	c.(673-675)Ctt>Ttt	p.L225F	CD96_ENST00000438817.2_Missense_Mutation_p.L209F|CD96_ENST00000352690.4_Missense_Mutation_p.L209F	NM_198196.2	NP_937839.1	P40200	TACT_HUMAN	CD96 molecule	225	Ig-like V-type 2.				cell adhesion (GO:0007155)|immune response (GO:0006955)|regulation of immune response (GO:0050776)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)				central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(4)|liver(2)|lung(14)|skin(5)	35						TAGAGTCAAGCTTGGTACAGA	0.423									Opitz Trigonocephaly syndrome																																							0													120	108	112					3																	111297955		2203	4300	6503	SO:0001583	missense	10225	Familial Cancer Database	C syndrome, Trigonocephaly syndrome	M88282	CCDS2958.1, CCDS2959.1	3p13-q13.2	2013-01-11	2006-03-28		ENSG00000153283	ENSG00000153283		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	16892	protein-coding gene	gene with protein product		606037	"CD96 antigen"			1313846	Standard	XR_241462		Approved	TACTILE	uc003dxx.3	P40200	OTTHUMG00000159275	ENST00000283285.5:c.673C>T	3.37:g.111297955C>T	ENSP00000283285:p.Leu225Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JPB3	Missense_Mutation	SNP	ENST00000283285.5	37	CCDS2959.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	5.734|5.734	0.319968|0.319968	0.10845|0.10845	.|.	.|.	ENSG00000153283|ENSG00000153283	ENST00000465428|ENST00000352690;ENST00000283285;ENST00000438817	.|T;T;T	.|0.73258	.|1.54;-0.73;1.54	5.18|5.18	1.28|1.28	0.21552|0.21552	.|Immunoglobulin subtype (1);	.|0.567715	.|0.14720	.|N	.|0.302408	T|T	0.59702|0.59702	0.2213|0.2213	L|L	0.29908|0.29908	0.895|0.895	0.09310|0.09310	N|N	1|1	.|P;P;P;P	.|0.44946	.|0.761;0.846;0.761;0.761	.|B;P;B;B	.|0.46585	.|0.322;0.521;0.443;0.322	T|T	0.50800|0.50800	-0.8785|-0.8785	5|10	.|0.51188	.|T	.|0.08	-0.8167|-0.8167	5.5178|5.5178	0.16916|0.16916	0.2453:0.5587:0.1213:0.0747|0.2453:0.5587:0.1213:0.0747	.|.	.|209;209;225;209	.|E9PEJ1;P40200-2;P40200;Q8WUE2	.|.;.;TACT_HUMAN;.	V|F	50|209;225;209	.|ENSP00000342040:L209F;ENSP00000283285:L225F;ENSP00000389801:L209F	.|ENSP00000283285:L225F	A|L	+|+	2|1	0|0	CD96|CD96	112780645|112780645	0.002000|0.002000	0.14202|0.14202	0.000000|0.000000	0.03702|0.03702	0.017000|0.017000	0.09413|0.09413	0.121000|0.121000	0.15667|0.15667	-0.203000|-0.203000	0.10251|0.10251	-1.886000|-1.886000	0.00541|0.00541	GCT|CTT		0.423	CD96-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000354312.2			T	111297955	C	T	111297955	3	4	698	1	0	0	0	0	1	0	0	0	3050	797	28	2	691	2	CD96	3	111297955	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	9725610	111297955	86724475	21	45671										
GSK3B	2932	bcgsc.ca	37	chr3	119642255	119642255	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	agggagcgtctgtttggctcGactatagtgtctggcaactc	13	9	2	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr3:119642255G>T	ENST00000264235.8	-	4	1424	c.442C>A	c.(442-444)Cga>Aga	p.R148R	GSK3B_ENST00000316626.5_Silent_p.R148R	NM_001146156.1|NM_002093.3	NP_001139628.1|NP_002084.2	P49841	GSK3B_HUMAN	glycogen synthase kinase 3 beta	148	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				axon guidance (GO:0007411)|canonical Wnt signaling pathway (GO:0060070)|canonical Wnt signaling pathway involved in positive regulation of apoptotic process (GO:0044337)|cell migration (GO:0016477)|cellular response to interleukin-3 (GO:0036016)|cellular response to mechanical stimulus (GO:0071260)|circadian rhythm (GO:0007623)|epidermal growth factor receptor signaling pathway (GO:0007173)|epithelial to mesenchymal transition (GO:0001837)|ER overload response (GO:0006983)|establishment of cell polarity (GO:0030010)|extrinsic apoptotic signaling pathway in absence of ligand (GO:0097192)|fat cell differentiation (GO:0045444)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|glycogen metabolic process (GO:0005977)|hippocampus development (GO:0021766)|hypermethylation of CpG island (GO:0044027)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|myoblast fusion (GO:0007520)|negative regulation of apoptotic process (GO:0043066)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cardiac muscle hypertrophy (GO:0010614)|negative regulation of dendrite morphogenesis (GO:0050774)|negative regulation of glycogen (starch) synthase activity (GO:2000466)|negative regulation of glycogen biosynthetic process (GO:0045719)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of neuron maturation (GO:0014043)|negative regulation of neuron projection development (GO:0010977)|negative regulation of NFAT protein import into nucleus (GO:0051534)|negative regulation of protein binding (GO:0032091)|negative regulation of protein complex assembly (GO:0031333)|negative regulation of type B pancreatic cell development (GO:2000077)|neurotrophin TRK receptor signaling pathway (GO:0048011)|organ morphogenesis (GO:0009887)|peptidyl-serine phosphorylation (GO:0018105)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of cell-matrix adhesion (GO:0001954)|positive regulation of mitochondrial outer membrane permeabilization involved in apoptotic signaling pathway (GO:1901030)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of peptidyl-threonine phosphorylation (GO:0010800)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein binding (GO:0032092)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of protein complex assembly (GO:0031334)|positive regulation of protein export from nucleus (GO:0046827)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of stem cell differentiation (GO:2000738)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein export from nucleus (GO:0006611)|protein localization to microtubule (GO:0035372)|protein phosphorylation (GO:0006468)|re-entry into mitotic cell cycle (GO:0000320)|regulation of gene expression by genetic imprinting (GO:0006349)|regulation of microtubule-based process (GO:0032886)|regulation of neuronal synaptic plasticity (GO:0048168)|response to drug (GO:0042493)|response to lithium ion (GO:0010226)|superior temporal gyrus development (GO:0071109)	beta-catenin destruction complex (GO:0030877)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendritic shaft (GO:0043198)|dendritic spine (GO:0043197)|growth cone (GO:0030426)|membrane raft (GO:0045121)|neuronal cell body (GO:0043025)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|ribonucleoprotein complex (GO:0030529)	ATP binding (GO:0005524)|beta-catenin binding (GO:0008013)|kinase activity (GO:0016301)|NF-kappaB binding (GO:0051059)|p53 binding (GO:0002039)|protein kinase A catalytic subunit binding (GO:0034236)|protein kinase binding (GO:0019901)|protein serine/threonine kinase activity (GO:0004674)|RNA polymerase II transcription factor binding (GO:0001085)|tau-protein kinase activity (GO:0050321)|ubiquitin protein ligase binding (GO:0031625)			endometrium(1)|large_intestine(8)|lung(7)|prostate(2)	18				GBM - Glioblastoma multiforme(114;0.24)	Lithium(DB01356)	TGTTTGGCTCGACTATAGTGT	0.358																																																0													62	59	60					3																	119642255		2203	4300	6503	SO:0001819	synonymous_variant	2932			BC012760	CCDS2996.1, CCDS54628.1	3q13.3	2008-02-15			ENSG00000082701	ENSG00000082701			4617	protein-coding gene	gene with protein product		605004				10486203	Standard	NM_002093		Approved		uc003edm.3	P49841	OTTHUMG00000133765	ENST00000264235.8:c.442C>A	3.37:g.119642255G>T		Somatic		WXS	Illumina HiSeq	Phase_1	D3DN89|Q9BWH3|Q9UL47	Silent	SNP	ENST00000264235.8	37	CCDS54628.1																																																																																				0.358	GSK3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258240.2			T	119642255	G	T	119642255	2	4	698	1	0	0	0	0	0	0	0	1	6831	1066	37	4		4	GSK3B	3	119642255	Silent	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	8344300	119642255	78380175	22	45672										
ZIC1	7545	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	147128794	147128794	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	acatccgcgtgcacacgggcGagaagccctttccctgcccc	10	18	0	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr3:147128794G>T	ENST00000282928.4	+	1	1624	c.895G>T	c.(895-897)Gag>Tag	p.E299*		NM_003412.3	NP_003403.2	Q15915	ZIC1_HUMAN	Zic family member 1	299					adult walking behavior (GO:0007628)|brain development (GO:0007420)|cell differentiation (GO:0030154)|inner ear morphogenesis (GO:0042472)|pattern specification process (GO:0007389)|positive regulation of protein import into nucleus (GO:0042307)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of smoothened signaling pathway (GO:0008589)|spinal cord development (GO:0021510)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(4)|cervix(1)|endometrium(2)|large_intestine(8)|lung(38)|ovary(1)|prostate(4)|upper_aerodigestive_tract(4)|urinary_tract(1)	63						GCACACGGGCGAGAAGCCCTT	0.562																																																0													91	94	93					3																	147128794		2203	4300	6503	SO:0001587	stop_gained	7545			D76435	CCDS3136.1	3q24	2013-01-08	2011-05-19		ENSG00000152977	ENSG00000152977		"Zinc fingers, C2H2-type"	12872	protein-coding gene	gene with protein product		600470	"Zic family member 1 (odd-paired Drosophila homolog)", "Zic family member 1 (odd-paired homolog, Drosophila)"			8542595	Standard	NM_003412		Approved	ZIC, ZNF201	uc003ewe.3	Q15915	OTTHUMG00000159456	ENST00000282928.4:c.895G>T	3.37:g.147128794G>T	ENSP00000282928:p.Glu299*	Somatic		WXS	Illumina HiSeq	Phase_I	Q2M3N1	Nonsense_Mutation	SNP	ENST00000282928.4	37	CCDS3136.1	.	.	.	.	.	.	.	.	.	.	G	43	9.911065	0.99294	.	.	ENSG00000152977	ENST00000282928	.	.	.	3.89	3.89	0.44902	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	.	16.2006	0.82071	0.0:0.0:1.0:0.0	.	.	.	.	X	299	.	ENSP00000282928:E299X	E	+	1	0	ZIC1	148611484	1.000000	0.71417	0.997000	0.53966	0.889000	0.51656	7.528000	0.81941	1.862000	0.54008	0.561000	0.74099	GAG		0.562	ZIC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355497.1	NM_003412		T	147128794	G	T	147128794	4	4	698	1	0	0	0	0	0	1	0	0	17690	1059	37	4	897	4	ZIC1	3	147128794	Nonsense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	27486539	147128794	50893636	23	45673										
MAEA	10296	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	1332242	1332242	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ggaggacggcagctccaagaGccctgactgccctgtgtgca	14	13	0	2			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr4:1332242G>A	ENST00000303400.4	+	8	995	c.932G>A	c.(931-933)aGc>aAc	p.S311N	MAEA_ENST00000452175.2_Missense_Mutation_p.S232N|MAEA_ENST00000510794.1_Missense_Mutation_p.S310N|MAEA_ENST00000264750.6_Missense_Mutation_p.S270N|MAEA_ENST00000512289.1_3'UTR|MAEA_ENST00000514708.1_Missense_Mutation_p.S243N|MAEA_ENST00000505177.2_Missense_Mutation_p.S349N|MAEA_ENST00000505839.1_Missense_Mutation_p.S263N	NM_001017405.1	NP_001017405.1	Q7L5Y9	MAEA_HUMAN	macrophage erythroblast attacher	311					cell adhesion (GO:0007155)|cell cycle (GO:0007049)|cell division (GO:0051301)|cytoskeleton organization (GO:0007010)|enucleate erythrocyte development (GO:0048822)|erythrocyte maturation (GO:0043249)|negative regulation of myeloid cell apoptotic process (GO:0033033)|regulation of mitotic cell cycle (GO:0007346)	actomyosin contractile ring (GO:0005826)|cytoskeleton (GO:0005856)|integral component of plasma membrane (GO:0005887)|nuclear matrix (GO:0016363)|nucleus (GO:0005634)|spindle (GO:0005819)	actin binding (GO:0003779)			NS(2)|central_nervous_system(1)|endometrium(2)|large_intestine(5)|lung(2)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	18			OV - Ovarian serous cystadenocarcinoma(23;0.0201)		WF10(DB05389)	AGCTCCAAGAGCCCTGACTGC	0.662																																																0													61	61	61					4																	1332242		2203	4300	6503	SO:0001583	missense	10296			AF084928	CCDS33936.1, CCDS33937.1, CCDS75090.1	4p16.3	2012-07-20			ENSG00000090316	ENSG00000090316			13731	protein-coding gene	gene with protein product	"GID complex subunit 9, FYV10 homolog (S. cerevisiae)"	606801				9763581	Standard	XM_005272243		Approved	EMP, GID9	uc003gda.3	Q7L5Y9	OTTHUMG00000160169	ENST00000303400.4:c.932G>A	4.37:g.1332242G>A	ENSP00000302830:p.Ser311Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O95285|Q5JB54|Q6ZRD6|Q9BQ11|Q9H9V6|Q9H9Z4|Q9NW84	Missense_Mutation	SNP	ENST00000303400.4	37	CCDS33936.1	.	.	.	.	.	.	.	.	.	.	G	7.811	0.715683	0.15306	.	.	ENSG00000090316	ENST00000303400;ENST00000505177;ENST00000264750;ENST00000382947;ENST00000539495;ENST00000452175;ENST00000514708;ENST00000510794;ENST00000505839	T;T;T;T;T;T;T	0.10763	2.84;2.84;2.84;2.84;2.84;2.84;2.84	5.41	4.44	0.53790	.	0.178095	0.64402	D	0.000005	T	0.04770	0.0129	N	0.20328	0.56	0.46260	D	0.998958	B;B;B;B;B;B	0.02656	0.0;0.0;0.0;0.0;0.0;0.0	B;B;B;B;B;B	0.04013	0.0;0.001;0.0;0.001;0.0;0.0	T	0.34254	-0.9836	10	0.05959	T	0.93	-33.7543	3.5266	0.07761	0.3654:0.0:0.6346:0.0	.	310;349;97;243;270;311	B4DVN3;E7ESC7;B3KRN7;D6RIB6;Q7L5Y9-3;Q7L5Y9	.;.;.;.;.;MAEA_HUMAN	N	311;349;270;243;290;232;243;310;263	ENSP00000302830:S311N;ENSP00000422215:S349N;ENSP00000264750:S270N;ENSP00000411415:S232N;ENSP00000427512:S243N;ENSP00000426807:S310N;ENSP00000424436:S263N	ENSP00000264750:S270N	S	+	2	0	MAEA	1322242	1.000000	0.71417	1.000000	0.80357	0.966000	0.64601	7.331000	0.79192	2.531000	0.85337	0.655000	0.94253	AGC		0.662	MAEA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359511.1	NM_005882		A	1332242	G	A	1332242	3	1	698	1	0	0	0	0	1	0	0	0	9160	971	34	2	962	2	MAEA	4	1332242	Missense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10		1332242	189822034	24	45674										
HTT	3064	broad.mit.edu	37	chr4	3076604	3076606	+	In_Frame_Del	DEL	CAG	CAG	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tcgagtccctcaagtccttcCagcagcagcagcagcagcag					rs71180116|rs374076986	byFrequency	TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	CAG	CAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr4:3076604_3076606delCAG	ENST00000355072.5	+	1	197_199	c.52_54delCAG	c.(52-54)cagdel	p.Q38del	HTT-AS_ENST00000503893.1_RNA	NM_002111.6	NP_002102	P42858	HD_HUMAN	huntingtin	38	Poly-Gln.				anterior/posterior pattern specification (GO:0009952)|axon cargo transport (GO:0008088)|cell aging (GO:0007569)|citrulline metabolic process (GO:0000052)|determination of adult lifespan (GO:0008340)|dopamine receptor signaling pathway (GO:0007212)|endoplasmic reticulum organization (GO:0007029)|endosomal transport (GO:0016197)|ER to Golgi vesicle-mediated transport (GO:0006888)|establishment of mitotic spindle orientation (GO:0000132)|Golgi organization (GO:0007030)|grooming behavior (GO:0007625)|hormone metabolic process (GO:0042445)|insulin secretion (GO:0030073)|iron ion homeostasis (GO:0055072)|L-glutamate import (GO:0051938)|lactate biosynthetic process from pyruvate (GO:0019244)|locomotory behavior (GO:0007626)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of neuron apoptotic process (GO:0043524)|neural plate formation (GO:0021990)|neuron apoptotic process (GO:0051402)|neuron development (GO:0048666)|olfactory lobe development (GO:0021988)|organ development (GO:0048513)|paraxial mesoderm formation (GO:0048341)|positive regulation of inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0031587)|protein import into nucleus (GO:0006606)|quinolinate biosynthetic process (GO:0019805)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane potential (GO:0051881)|regulation of protein phosphatase type 2A activity (GO:0034047)|regulation of synaptic plasticity (GO:0048167)|response to calcium ion (GO:0051592)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)|social behavior (GO:0035176)|spermatogenesis (GO:0007283)|striatum development (GO:0021756)|urea cycle (GO:0000050)|vesicle transport along microtubule (GO:0047496)|visual learning (GO:0008542)	autophagic vacuole (GO:0005776)|axon (GO:0030424)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|inclusion body (GO:0016234)|late endosome (GO:0005770)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|protein complex (GO:0043234)	beta-tubulin binding (GO:0048487)|diazepam binding (GO:0050809)|dynactin binding (GO:0034452)|dynein intermediate chain binding (GO:0045505)|identical protein binding (GO:0042802)|ion channel binding (GO:0044325)|p53 binding (GO:0002039)|transcription factor binding (GO:0008134)			breast(1)|cervix(2)|endometrium(14)|kidney(5)|large_intestine(23)|lung(28)|ovary(4)|prostate(2)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	87		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		CAAGTCCTTCcagcagcagcagc	0.704																																																0																																										SO:0001651	inframe_deletion	3064			L12392	CCDS43206.1	4p16.3	2014-09-17	2007-12-04	2007-12-04	ENSG00000197386	ENSG00000197386		"Endogenous ligands"	4851	protein-coding gene	gene with protein product		613004	"huntingtin (Huntington disease)"	HD		8458085	Standard	NM_002111		Approved	IT15	uc021xkv.1	P42858	OTTHUMG00000159916	ENST00000355072.5:c.52_54delCAG	4.37:g.3076613_3076615delCAG	ENSP00000347184:p.Gln38del	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UQB7	In_Frame_Del	DEL	ENST00000355072.5	37	CCDS43206.1																																																																																				0.704	HTT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358234.2	NM_002111		-	3076606	CAG	-	3076604	7	5	698	1	0	1	0	1	0	0	0	0	7464	595	21	0	54	0	HTT	4	3076604	In_Frame_Del	DEL	CAG	TCGA-P4-A5EA-01A-11D-A28G-10	1744362	3076604	188077672	25	45675										
SLC30A9	10463	ucsc.edu	37	chr4	42077746	42077746	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	aaggcagaagtagattttgaTgggcgagttgttacaagatc	13	4	0	4			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr4:42077746T>C	ENST00000264451.7	+	16	1671	c.1491T>C	c.(1489-1491)gaT>gaC	p.D497D		NM_006345.3	NP_006336.3	Q6PML9	ZNT9_HUMAN	solute carrier family 30 (zinc transporter), member 9	497					nucleotide-excision repair (GO:0006289)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|transcription, DNA-templated (GO:0006351)|zinc ion transport (GO:0006829)	cytoskeleton (GO:0005856)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)	cation transmembrane transporter activity (GO:0008324)|chromatin binding (GO:0003682)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(2)|endometrium(4)|kidney(2)|large_intestine(8)|lung(6)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	25						TAGATTTTGATGGGCGAGTTG	0.323																																																0													108	107	108					4																	42077746		2203	4300	6503	SO:0001819	synonymous_variant	10463			AF006621	CCDS3465.1	4p13	2013-05-22	2003-09-09	2003-09-10	ENSG00000014824	ENSG00000014824		"Solute carriers"	1329	protein-coding gene	gene with protein product	"GRIP1-dependent nuclear receptor coactivator"	604604	"chromosome 4 open reading frame 1"	C4orf1		10409434, 11906820	Standard	NM_006345		Approved	HUEL, ZNT9, GAC63	uc003gwl.3	Q6PML9	OTTHUMG00000099387	ENST00000264451.7:c.1491T>C	4.37:g.42077746T>C		Somatic		WXS	Illumina HiSeq		Q4W5B6|Q7Z5I7|Q8TBB2|Q9Y6R2	Silent	SNP	ENST00000264451.7	37	CCDS3465.1																																																																																				0.323	SLC30A9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216842.3			C	42077746	T	C	42077746	2	2	698	1	0	0	0	0	0	0	0	1	14575	1461	51	3		3	SLC30A9	4	42077746	Silent	SNP	T	TCGA-P4-A5EA-01A-11D-A28G-10	39001142	42077746	149076530	26	45676										
TLL1	7092	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	166996130	166996130	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	cgtaatggatttgtgctacaTgacaataaacatgattgcaa	8	6	0	2			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr4:166996130T>C	ENST00000061240.2	+	17	2936	c.2289T>C	c.(2287-2289)caT>caC	p.H763H	TLL1_ENST00000507499.1_Silent_p.H786H	NM_012464.4	NP_036596.3	O43897	TLL1_HUMAN	tolloid-like 1	763	EGF-like 2; calcium-binding. {ECO:0000255|PROSITE-ProRule:PRU00076}.				cell differentiation (GO:0030154)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|skeletal system development (GO:0001501)	extracellular region (GO:0005576)	calcium ion binding (GO:0005509)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(7)|kidney(4)|large_intestine(21)|lung(26)|ovary(2)|prostate(5)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	77	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		TTGTGCTACATGACAATAAAC	0.403																																																0													296	244	262					4																	166996130		2203	4300	6503	SO:0001819	synonymous_variant	7092			AF282732	CCDS3811.1, CCDS56342.1	4q32-q33	2008-07-29			ENSG00000038295	ENSG00000038295			11843	protein-coding gene	gene with protein product		606742				10516436	Standard	NM_012464		Approved		uc003irh.2	O43897	OTTHUMG00000161112	ENST00000061240.2:c.2289T>C	4.37:g.166996130T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RMU2|Q96AN3|Q9NQS4	Silent	SNP	ENST00000061240.2	37	CCDS3811.1																																																																																				0.403	TLL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363821.1			C	166996130	T	C	166996130	2	2	698	1	0	0	0	0	0	0	0	1	15957	1461	51	3		3	TLL1	4	166996130	Silent	SNP	T	TCGA-P4-A5EA-01A-11D-A28G-10	124918384	166996130	24158146	27	45677										
MAP3K1	4214	bcgsc.ca	37	chr5	56183244	56183245	+	Frame_Shift_Ins	INS	-	-	TA													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	agcactggtcagagactaagINSaattgcagattttggagctg							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr5:56183244_56183245insTA	ENST00000399503.3	+	18	4154_4155	c.4154_4155insTA	c.(4153-4158)agaattfs	p.RI1385fs		NM_005921.1	NP_005912.1	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase 1, E3 ubiquitin protein ligase	1385	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of MAPKK activity (GO:0000186)|apoptotic mitochondrial changes (GO:0008637)|cellular response to mechanical stimulus (GO:0071260)|epithelial cell morphogenesis (GO:0003382)|eyelid development in camera-type eye (GO:0061029)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|positive regulation of actin filament polymerization (GO:0030838)|protein phosphorylation (GO:0006468)|regulation of cell migration (GO:0030334)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transforming growth factor beta receptor signaling pathway (GO:0007179)|wound healing (GO:0042060)	cytosol (GO:0005829)	ATP binding (GO:0005524)|JUN kinase kinase activity (GO:0008545)|MAP kinase kinase kinase activity (GO:0004709)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|zinc ion binding (GO:0008270)			NS(1)|breast(19)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(8)|lung(11)|ovary(1)|skin(3)|urinary_tract(1)	57		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		CAGAGACTAAGAATTGCAGATT	0.421																																																0																																										SO:0001589	frameshift_variant	4214			U29671, AF042838	CCDS43318.1	5q11.2	2012-02-23	2012-02-23		ENSG00000095015	ENSG00000095015		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6848	protein-coding gene	gene with protein product		600982	"mitogen-activated protein kinase kinase kinase 1"	MEKK1		8597633	Standard	NM_005921		Approved	MEKK, MAPKKK1	uc003jqw.4	Q13233	OTTHUMG00000059486	Exception_encountered	5.37:g.56183244_56183245insTA	ENSP00000382423:p.Arg1385fs	Somatic		WXS	Illumina HiSeq	Phase_1		Frame_Shift_Ins	INS	ENST00000399503.3	37	CCDS43318.1																																																																																				0.421	MAP3K1-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000132309.2	XM_042066		TA	56183245	-	TA	56183244	7	5	698	1	0	1	1	0	0	0	0	0	9250	942	33	0	4224	0	MAP3K1	5	56183244	Frame_Shift_Ins	INS	-	TCGA-P4-A5EA-01A-11D-A28G-10		56183244	124732016	28	45678										
FCHO2	115548	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	72359736	72359736	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ggcctgcttccagaccaaagCttacttcaggcaaactcagt	8	13	2	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr5:72359736C>A	ENST00000430046.2	+	18	1530	c.1414C>A	c.(1414-1416)Ctt>Att	p.L472I	FCHO2_ENST00000512348.1_Missense_Mutation_p.L439I|FCHO2_ENST00000341845.6_Missense_Mutation_p.L472I	NM_001146032.1|NM_138782.2	NP_001139504.1|NP_620137.2	Q0JRZ9	FCHO2_HUMAN	FCH domain only 2	472	Ser-rich.				clathrin coat assembly (GO:0048268)|clathrin-mediated endocytosis (GO:0072583)|membrane invagination (GO:0010324)|protein localization to plasma membrane (GO:0072659)	clathrin-coated vesicle (GO:0030136)|coated pit (GO:0005905)|plasma membrane (GO:0005886)	phosphatidylinositol binding (GO:0035091)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|phosphatidylserine binding (GO:0001786)			cervix(1)|endometrium(2)|kidney(2)|large_intestine(6)|lung(4)|ovary(1)|prostate(1)	17		Lung NSC(167;0.0465)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;4.6e-53)		CAGACCAAAGCTTACTTCAGG	0.403																																																0													65	61	62					5																	72359736		1850	4087	5937	SO:0001583	missense	115548			AL831971	CCDS47230.1, CCDS54868.1	5q13.2	2005-08-15			ENSG00000157107	ENSG00000157107			25180	protein-coding gene	gene with protein product		613438				15254787	Standard	NM_138782		Approved		uc003kcl.3	Q0JRZ9	OTTHUMG00000162413	ENST00000430046.2:c.1414C>A	5.37:g.72359736C>A	ENSP00000393776:p.Leu472Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6W7|B2RNQ9|B4DHK0|E9PG79|Q0JTJ3|Q96CF5	Missense_Mutation	SNP	ENST00000430046.2	37	CCDS47230.1	.	.	.	.	.	.	.	.	.	.	C	20.3	3.967806	0.74131	.	.	ENSG00000157107	ENST00000430046;ENST00000341845;ENST00000512348	T;T;T	0.39056	1.1;1.11;3.55	5.62	5.62	0.85841	.	0.164332	0.40728	N	0.001021	T	0.52933	0.1765	L	0.56769	1.78	0.41260	D	0.986778	D;D	0.67145	0.99;0.996	P;P	0.60415	0.76;0.874	T	0.43956	-0.9359	10	0.18710	T	0.47	-12.133	12.5234	0.56073	0.0:0.8806:0.0:0.1194	.	439;472	E9PG79;Q0JRZ9	.;FCHO2_HUMAN	I	472;472;439	ENSP00000393776:L472I;ENSP00000344034:L472I;ENSP00000427296:L439I	ENSP00000344034:L472I	L	+	1	0	FCHO2	72395492	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.706000	0.47135	2.637000	0.89404	0.650000	0.86243	CTT		0.403	FCHO2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000368795.3	XM_291142		A	72359736	C	A	72359736	3	1	698	1	0	0	0	0	1	0	0	0	5795	797	28	4	1484	4	FCHO2	5	72359736	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	16176492	72359736	108555524	29	45679										
IQGAP2	10788	broad.mit.edu	37	chr5	75960882	75960882	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	acatagtaaaaagctgaacaAgaaaaaaggaggagaaatgg	11	3	0	3			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr5:75960882A>T	ENST00000274364.6	+	22	2858	c.2561A>T	c.(2560-2562)aAg>aTg	p.K854M	IQGAP2_ENST00000379730.3_Missense_Mutation_p.K356M|IQGAP2_ENST00000396234.3_Missense_Mutation_p.K350M|IQGAP2_ENST00000502745.1_Missense_Mutation_p.K350M	NM_006633.2	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	854					negative regulation of catalytic activity (GO:0043086)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	actin cytoskeleton (GO:0015629)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|microvillus (GO:0005902)	actin binding (GO:0003779)|GTPase inhibitor activity (GO:0005095)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|Ras GTPase activator activity (GO:0005099)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(15)|lung(23)|ovary(6)|prostate(1)|skin(3)|stomach(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	68		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		AAGCTGAACAAGAAAAAAGGA	0.328																																																0													87	84	85					5																	75960882		2203	4300	6503	SO:0001583	missense	10788			U51903	CCDS34188.1, CCDS68897.1, CCDS68898.1, CCDS75262.1	5q	2008-07-18			ENSG00000145703	ENSG00000145703			6111	protein-coding gene	gene with protein product		605401				8756646	Standard	XM_005248409		Approved		uc003kek.3	Q13576	OTTHUMG00000162432	ENST00000274364.6:c.2561A>T	5.37:g.75960882A>T	ENSP00000274364:p.Lys854Met	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4V1|B7Z8A4|J3KR91	Missense_Mutation	SNP	ENST00000274364.6	37	CCDS34188.1	.	.	.	.	.	.	.	.	.	.	A	24.4	4.530557	0.85706	.	.	ENSG00000145703	ENST00000274364;ENST00000379730;ENST00000505766;ENST00000514001;ENST00000396234;ENST00000502745	T;T;T;T;T;T	0.05717	4.11;4.02;4.09;3.4;4.02;4.02	5.3	5.3	0.74995	.	0.197976	0.52532	D	0.000072	T	0.25494	0.0620	M	0.78344	2.41	0.58432	D	0.999997	D;D;D;D	0.76494	0.999;0.999;0.998;0.997	D;D;D;P	0.70935	0.967;0.971;0.952;0.88	T	0.01165	-1.1431	10	0.72032	D	0.01	-31.5248	14.9093	0.70743	1.0:0.0:0.0:0.0	.	356;804;350;854	F5H7S7;E7EWC2;Q13576-2;Q13576	.;.;.;IQGA2_HUMAN	M	854;356;804;407;350;350	ENSP00000274364:K854M;ENSP00000442313:K356M;ENSP00000421097:K804M;ENSP00000422661:K407M;ENSP00000379535:K350M;ENSP00000426027:K350M	ENSP00000274364:K854M	K	+	2	0	IQGAP2	75996638	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	9.105000	0.94246	1.993000	0.58246	0.482000	0.46254	AAG		0.328	IQGAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368877.1	NM_006633		T	75960882	A	T	75960882	3	4	698	1	0	0	0	0	1	0	0	0	7822	72	3	5	2647	5	IQGAP2	5	75960882	Missense_Mutation	SNP	A	TCGA-P4-A5EA-01A-11D-A28G-10	3601146	75960882	104954378	30	45680										
RASA1	5921	hgsc.bcm.edu;bcgsc.ca	37	chr5	86564698	86564699	+	Frame_Shift_Del	DEL	CC	CC	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tgccccctcccccttacctgCcccctttgggggcgggcctc							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr5:86564698_86564699delCC	ENST00000274376.6	+	1	994_995	c.430_431delCC	c.(430-432)cccfs	p.P145fs	RASA1_ENST00000506290.1_5'Flank|RASA1_ENST00000456692.2_5'Flank|RASA1_ENST00000512763.1_5'Flank	NM_002890.2	NP_002881.1	P20936	RASA1_HUMAN	RAS p21 protein activator (GTPase activating protein) 1	145					blood vessel morphogenesis (GO:0048514)|embryo development (GO:0009790)|intracellular signal transduction (GO:0035556)|mitotic cytokinesis (GO:0000281)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of Ras protein signal transduction (GO:0046580)|positive regulation of Ras GTPase activity (GO:0032320)|regulation of actin filament polymerization (GO:0030833)|regulation of cell shape (GO:0008360)|regulation of RNA metabolic process (GO:0051252)|signal transduction (GO:0007165)|vasculogenesis (GO:0001570)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)|ruffle (GO:0001726)	glycoprotein binding (GO:0001948)|GTPase binding (GO:0051020)|potassium channel inhibitor activity (GO:0019870)|Ras GTPase activator activity (GO:0005099)|receptor binding (GO:0005102)			NS(1)|cervix(1)|endometrium(7)|kidney(4)|large_intestine(12)|lung(13)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	48		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		CCCTTACCTGCCCCCTTTGGGG	0.624																																																0																																										SO:0001589	frameshift_variant	5921				CCDS34200.1, CCDS47243.1	5q13	2013-02-14			ENSG00000145715	ENSG00000145715		"Pleckstrin homology (PH) domain containing", "SH2 domain containing"	9871	protein-coding gene	gene with protein product	"capillary malformation-arteriovenous malformation"	139150		RASA		15917201	Standard	NM_022650		Approved	GAP, CM-AVM, p120GAP, p120RASGAP	uc003kiw.3	P20936	OTTHUMG00000162605	ENST00000274376.6:c.430_431delCC	5.37:g.86564700_86564701delCC	ENSP00000274376:p.Pro145fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6W3|Q9UDI1	Frame_Shift_Del	DEL	ENST00000274376.6	37	CCDS34200.1																																																																																				0.624	RASA1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000369729.1	NM_002890		-	86564699	CC	-	86564698	7	5	698	1	0	1	0	1	0	0	0	0	13073	739	26	0	432	0	RASA1	5	86564698	Frame_Shift_Del	DEL	CC	TCGA-P4-A5EA-01A-11D-A28G-10	10603816	86564698	94350562	31	45681										
ANKHD1-EIF4EBP3	8637	broad.mit.edu;bcgsc.ca	37	chr5	139928645	139928646	+	Frame_Shift_Del	DEL	AG	AG	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gagctgaaggagcaggagacAgaggaagagatacccggtaa							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr5:139928645_139928646delAG	ENST00000310331.2	+	2	330_331	c.258_259delAG	c.(256-261)acagagfs	p.E89fs	ANKHD1_ENST00000297183.6_Frame_Shift_Del_p.R2612fs|ANKHD1-EIF4EBP3_ENST00000532219.1_Frame_Shift_Del_p.R2612fs|SRA1_ENST00000520427.1_5'Flank	NM_003732.2	NP_003723.1	O60516	4EBP3_HUMAN	eukaryotic translation initiation factor 4E binding protein 3	89					negative regulation of translational initiation (GO:0045947)	eukaryotic translation initiation factor 4F complex (GO:0016281)|membrane (GO:0016020)	translation repressor activity (GO:0030371)			endometrium(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCAGGAGACAGAGGAAGAGAT	0.564																																																0																																										SO:0001589	frameshift_variant	404734			AF038869	CCDS4226.1	5q31.3	2007-07-18			ENSG00000243056	ENSG00000243056			3290	protein-coding gene	gene with protein product		603483				9593750	Standard	NM_003732		Approved	4E-BP3	uc003lfy.1	O60516	OTTHUMG00000129498	ENST00000310331.2:c.258_259delAG	5.37:g.139928647_139928648delAG	ENSP00000308472:p.Glu89fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000310331.2	37	CCDS4226.1																																																																																				0.564	EIF4EBP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251668.2	NM_003732		-	139928646	AG	-	139928645	7	5	698	1	0	1	0	1	0	0	0	0	629	180	7	0	7972	0	ANKHD1-EIF4EBP3	5	139928645	Frame_Shift_Del	DEL	AG	TCGA-P4-A5EA-01A-11D-A28G-10	53363947	139928645	40986615	32	45682										
PCDHB5	26167	broad.mit.edu;bcgsc.ca	37	chr5	140515133	140515134	+	Frame_Shift_Del	DEL	AG	AG	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tattccataccagaagaaacAgaaagtggctattctgtggc							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr5:140515133_140515134delAG	ENST00000231134.5	+	1	334_335	c.117_118delAG	c.(115-120)acagaafs	p.E40fs		NM_015669.2	NP_056484.1	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5	40	Cadherin 1. {ECO:0000255|PROSITE- ProRule:PRU00043}.				calcium-dependent cell-cell adhesion (GO:0016339)|homophilic cell adhesion (GO:0007156)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(12)|kidney(1)|large_intestine(18)|lung(25)|ovary(3)|prostate(6)|skin(7)|upper_aerodigestive_tract(3)|urinary_tract(2)	81			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAGAAGAAACAGAAAGTGGCTA	0.49																																																0																																										SO:0001589	frameshift_variant	26167			AF152498	CCDS4247.1	5q31	2010-01-26			ENSG00000113209	ENSG00000113209		"Cadherins / Protocadherins : Clustered"	8690	other	protocadherin		606331				10380929	Standard	NM_015669		Approved	DKFZp586B0217, PCDH-BETA5	uc003liq.3	Q9Y5E4	OTTHUMG00000129616	ENST00000231134.5:c.117_118delAG	5.37:g.140515133_140515134delAG	ENSP00000231134:p.Glu40fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q549F4|Q9UFU9	Frame_Shift_Del	DEL	ENST00000231134.5	37	CCDS4247.1																																																																																				0.49	PCDHB5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251811.1	NM_015669		-	140515134	AG	-	140515133	7	5	698	1	0	1	0	1	0	0	0	0	11552	175	7	0	119	0	PCDHB5	5	140515133	Frame_Shift_Del	DEL	AG	TCGA-P4-A5EA-01A-11D-A28G-10	586488	140515133	40400127	33	45683										
NR3C1	2908	ucsc.edu	37	chr5	142680190	142680190	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	cttcaggttcaataacctccAacagtgacaccagggtaggg	10	11	2	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr5:142680190A>G	ENST00000343796.2	-	5	2600	c.1607T>C	c.(1606-1608)tTg>tCg	p.L536S	NR3C1_ENST00000504572.1_Missense_Mutation_p.L537S|NR3C1_ENST00000415690.2_Missense_Mutation_p.L536S|NR3C1_ENST00000504336.1_5'UTR|NR3C1_ENST00000503201.1_Missense_Mutation_p.L536S|NR3C1_ENST00000394466.2_Missense_Mutation_p.L537S|NR3C1_ENST00000394464.2_Missense_Mutation_p.L536S|NR3C1_ENST00000424646.2_Missense_Mutation_p.L510S|NR3C1_ENST00000231509.3_Missense_Mutation_p.L537S|NR3C1_ENST00000416954.2_Missense_Mutation_p.L139S	NM_001018074.1|NM_001018075.1|NM_001018077.1	NP_001018084.1|NP_001018085.1|NP_001018087.1	P04150	GCR_HUMAN	nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor)	536	Interaction with CLOCK.|Interaction with CRY1.|Steroid-binding.				adrenal gland development (GO:0030325)|chromatin modification (GO:0016568)|gene expression (GO:0010467)|glucocorticoid metabolic process (GO:0008211)|mammary gland duct morphogenesis (GO:0060603)|negative regulation of glucocorticoid mediated signaling pathway (GO:1900170)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of glucocorticoid biosynthetic process (GO:0031946)|regulation of gluconeogenesis (GO:0006111)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrial matrix (GO:0005759)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	glucocorticoid receptor activity (GO:0004883)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|steroid binding (GO:0005496)|zinc ion binding (GO:0008270)			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(10)|lung(7)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	35		Acute lymphoblastic leukemia(2;3.2e-05)|all_hematologic(2;0.000361)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)		Alclometasone(DB00240)|Amcinonide(DB00288)|Beclomethasone(DB00394)|Betamethasone(DB00443)|Budesonide(DB01222)|Ciclesonide(DB01410)|Clobetasol propionate(DB01013)|Clocortolone(DB00838)|Cortisone acetate(DB01380)|Desonide(DB01260)|Desoximetasone(DB00547)|Dexamethasone(DB01234)|Diflorasone(DB00223)|Difluprednate(DB06781)|Fludrocortisone(DB00687)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Fluoxymesterone(DB01185)|Flurandrenolide(DB00846)|Fluticasone furoate(DB08906)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol(DB00873)|Medrysone(DB00253)|Megestrol acetate(DB00351)|Methylprednisolone(DB00959)|Mifepristone(DB00834)|Mometasone(DB00764)|Paramethasone(DB01384)|Prednicarbate(DB01130)|Prednisolone(DB00860)|Prednisone(DB00635)|Rimexolone(DB00896)|Spironolactone(DB00421)|Triamcinolone(DB00620)	AATAACCTCCAACAGTGACAC	0.463																																																0													233	213	220					5																	142680190		2203	4300	6503	SO:0001583	missense	2908			X03225	CCDS4278.1, CCDS34258.1, CCDS47298.1	5q31-q32	2013-01-16	2002-08-27		ENSG00000113580	ENSG00000113580		"Nuclear hormone receptors"	7978	protein-coding gene	gene with protein product		138040	"nuclear receptor subfamily 3, group C, member 1"	GRL		2867473	Standard	NM_001204258		Approved	GR	uc003lnb.3	P04150	OTTHUMG00000129677	ENST00000343796.2:c.1607T>C	5.37:g.142680190A>G	ENSP00000343205:p.Leu536Ser	Somatic		WXS	Illumina HiSeq		A0ZXF9|B0LPG8|D3DQF4|P04151|Q53EP5|Q6N0A4	Missense_Mutation	SNP	ENST00000343796.2	37	CCDS4278.1	.	.	.	.	.	.	.	.	.	.	A	26.0	4.697339	0.88830	.	.	ENSG00000113580	ENST00000394464;ENST00000343796;ENST00000415690;ENST00000424646;ENST00000504572;ENST00000394466;ENST00000231509;ENST00000416954;ENST00000503201	D;D;T;D;D;D;D;D;D	0.96619	-4.07;-4.07;1.06;-4.07;-4.07;-4.07;-4.07;-4.07;-4.07	5.69	5.69	0.88448	Nuclear hormone receptor, ligand-binding (1);	0.000000	0.85682	D	0.000000	D	0.98595	0.9530	M	0.93763	3.455	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;0.999	D	0.99686	1.1000	10	0.72032	D	0.01	.	15.94	0.79747	1.0:0.0:0.0:0.0	.	536;536;537	E5KQF5;P04150;E5KQF6	.;GCR_HUMAN;.	S	536;536;536;510;537;537;537;139;536	ENSP00000377977:L536S;ENSP00000343205:L536S;ENSP00000387672:L536S;ENSP00000405282:L510S;ENSP00000422518:L537S;ENSP00000377979:L537S;ENSP00000231509:L537S;ENSP00000404218:L139S;ENSP00000427672:L536S	ENSP00000231509:L537S	L	-	2	0	NR3C1	142660383	1.000000	0.71417	0.963000	0.40424	0.919000	0.55068	6.979000	0.76154	2.156000	0.67533	0.533000	0.62120	TTG		0.463	NR3C1-201	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000370829.1			G	142680190	A	G	142680190	3	3	698	1	0	0	0	0	1	0	0	0	10637	131	5	3	798	3	NR3C1	5	142680190	Missense_Mutation	SNP	A	TCGA-P4-A5EA-01A-11D-A28G-10	2165057	142680190	38235070	34	45684										
C6orf145	221749	broad.mit.edu	37	chr6	3751742	3751742	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	aacatgttcacgagcgacgtGccctcaaacaccgccgaggc	10	15	2	0	rs199672547		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr6:3751742G>T	ENST00000380283.4	-	1	518	c.24C>A	c.(22-24)ggC>ggA	p.G8G	PXDC1_ENST00000477592.2_5'UTR|RP11-420L9.5_ENST00000603791.1_RNA	NM_183373.3	NP_899229.2	Q5TGL8	PXDC1_HUMAN	PX domain containing 1	8	PX.						phosphatidylinositol binding (GO:0035091)										CGAGCGACGTGCCCTCAAACA	0.726																																																0													14	13	13					6																	3751742		2177	4274	6451	SO:0001819	synonymous_variant	221749			AJ420534	CCDS4486.1	6p25.1	2011-11-25	2011-11-25	2011-11-25	ENSG00000168994	ENSG00000168994			21361	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 145"	C6orf145			Standard	NM_183373		Approved		uc003mvt.2	Q5TGL8	OTTHUMG00000014146	ENST00000380283.4:c.24C>A	6.37:g.3751742G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0N3|Q6PGP0|Q86XB7	Silent	SNP	ENST00000380283.4	37	CCDS4486.1																																																																																				0.726	PXDC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039688.1	NM_183373		T	3751742	G	T	3751742	2	4	698	1	0	0	0	0	0	0	0	1	2336	1306	46	4		4	C6orf145	6	3751742	Silent	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10		3751742	167363325	35	45685										
APOM	55937	broad.mit.edu	37	chr6	31625014	31625014	+	Silent	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ctctgcaggaaagatgggctCtgtgtgccccggaaatggat	14	9	2	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr6:31625014C>G	ENST00000375916.3	+	3	778	c.282C>G	c.(280-282)ctC>ctG	p.L94L	APOM_ENST00000375920.4_Silent_p.L22L|C6orf47-AS1_ENST00000422049.1_RNA|APOM_ENST00000375918.2_Silent_p.L22L	NM_019101.2	NP_061974.2	O95445	APOM_HUMAN	apolipoprotein M	94					cholesterol efflux (GO:0033344)|cholesterol homeostasis (GO:0042632)|high-density lipoprotein particle assembly (GO:0034380)|high-density lipoprotein particle clearance (GO:0034384)|high-density lipoprotein particle remodeling (GO:0034375)|lipoprotein metabolic process (GO:0042157)|negative regulation of plasma lipoprotein particle oxidation (GO:0034445)|response to glucose (GO:0009749)|reverse cholesterol transport (GO:0043691)	discoidal high-density lipoprotein particle (GO:0034365)|extracellular vesicular exosome (GO:0070062)|high-density lipoprotein particle (GO:0034364)|integral component of plasma membrane (GO:0005887)|low-density lipoprotein particle (GO:0034362)|spherical high-density lipoprotein particle (GO:0034366)|very-low-density lipoprotein particle (GO:0034361)	antioxidant activity (GO:0016209)|lipid transporter activity (GO:0005319)|phospholipid binding (GO:0005543)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|lung(1)	7						AAGATGGGCTCTGTGTGCCCC	0.507																																					Colon(39;129 858 13764 41453 42617)											0													117	106	110					6																	31625014		1510	2709	4219	SO:0001819	synonymous_variant	55937			AJ245434	CCDS4710.1, CCDS59004.1	6p21	2014-01-22			ENSG00000204444	ENSG00000204444		"Apolipoproteins", "Lipocalins"	13916	protein-coding gene	gene with protein product		606907				10531326, 11418126	Standard	NM_019101		Approved	ApoM, G3a, NG20	uc003nvl.3	O95445	OTTHUMG00000031250	ENST00000375916.3:c.282C>G	6.37:g.31625014C>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0UX98|Q5SRP4|Q9P046|Q9UMP6	Silent	SNP	ENST00000375916.3	37	CCDS4710.1																																																																																				0.507	APOM-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076527.3	NM_019101		G	31625014	C	G	31625014	2	3	698	1	0	0	0	0	0	0	0	1	812	900	32	4		4	APOM	6	31625014	Silent	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	27873272	31625014	139490053	36	45686										
RARS2	57038	ucsc.edu;bcgsc.ca	37	chr6	88299660	88299660	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ctggcaagcaatagcgcggcGaaagccgcacgccatgtcca	12	14	0	0	rs201899366	byFrequency	TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr6:88299660G>A	ENST00000369536.5	-	1	61	c.16C>T	c.(16-18)Cgc>Tgc	p.R6C	ORC3_ENST00000392844.3_5'Flank|ORC3_ENST00000546266.1_5'Flank|ORC3_ENST00000417380.2_5'Flank|ORC3_ENST00000257789.4_5'Flank	NM_020320.3	NP_064716.2	Q5T160	SYRM_HUMAN	arginyl-tRNA synthetase 2, mitochondrial	6					arginyl-tRNA aminoacylation (GO:0006420)|gene expression (GO:0010467)|tRNA aminoacylation for protein translation (GO:0006418)	mitochondrial matrix (GO:0005759)	arginine-tRNA ligase activity (GO:0004814)|ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)	p.R6C(1)		breast(1)|central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(7)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	22		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0456)		ATAGCGCGGCGAAAGCCGCAC	0.672											OREG0031911	type=REGULATORY REGION|TFbs=RELA|Dataset=RELA (p65) ChIP-PET Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with paired-end diTag sequencing (ChIP-PET)	G|||	2	0.000399361	0.0	0.0014	5008	,	,		12638	0.001		0.0	False		,,,				2504	0.0															1	Substitution - Missense(1)	breast(1)											26	32	30					6																	88299660		2202	4300	6502	SO:0001583	missense	57038			AK093934	CCDS5011.1	6q16.1	2011-07-01	2007-09-27	2007-02-23	ENSG00000146282	ENSG00000146282	6.1.1.19	"Aminoacyl tRNA synthetases / Class I"	21406	protein-coding gene	gene with protein product	"arginine tRNA ligase 2, mitochondrial (putative)"	611524	"arginyl-tRNA synthetase-like"	RARSL		17847012	Standard	NM_020320		Approved	MGC14993, MGC23778, PRO1992, dJ382I10.6, DALRD2	uc003pme.3	Q5T160	OTTHUMG00000015178	ENST00000369536.5:c.16C>T	6.37:g.88299660G>A	ENSP00000358549:p.Arg6Cys	Somatic	1258	WXS	Illumina HiSeq		B2RDT7|Q96FU5|Q9H8K8	Missense_Mutation	SNP	ENST00000369536.5	37	CCDS5011.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	G	17.34	3.364729	0.61513	.	.	ENSG00000146282	ENST00000369536	T	0.73897	-0.79	5.11	5.11	0.69529	Arginyl tRNA synthetase, class Ia, N-terminal (2);	0.101495	0.64402	D	0.000003	T	0.70753	0.3260	L	0.55481	1.735	0.80722	D	1	D	0.69078	0.997	P	0.50231	0.635	T	0.75277	-0.3374	10	0.87932	D	0	.	14.2251	0.65853	0.0:0.0:1.0:0.0	.	6	Q5T160	SYRM_HUMAN	C	6	ENSP00000358549:R6C	ENSP00000358549:R6C	R	-	1	0	RARS2	88356379	1.000000	0.71417	0.978000	0.43139	0.031000	0.12232	2.529000	0.45632	2.826000	0.97356	0.655000	0.94253	CGC		0.672	RARS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041448.1	NM_020320		A	88299660	G	A	88299660	3	1	698	1	0	0	0	0	1	0	0	0	13072	1058	37	1	1800	1	RARS2	6	88299660	Missense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	56674646	88299660	82815407	37	45687										
MTRF1L	54516	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	153315714	153315714	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	acgcggccttgcttttctgtCtttggcactctttgtactct	8	12	4	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr6:153315714C>G	ENST00000367233.5	-	4	620	c.621G>C	c.(619-621)aaG>aaC	p.K207N	MTRF1L_ENST00000367230.1_Missense_Mutation_p.K171N|MTRF1L_ENST00000367231.5_Missense_Mutation_p.K207N|MTRF1L_ENST00000464135.1_5'UTR	NM_019041.5	NP_061914.3	Q9UGC7	RF1ML_HUMAN	mitochondrial translational release factor 1-like	207						mitochondrion (GO:0005739)	translation release factor activity, codon specific (GO:0016149)			endometrium(2)|kidney(1)|large_intestine(2)|lung(3)|stomach(1)|upper_aerodigestive_tract(1)	10		Ovarian(120;0.125)		OV - Ovarian serous cystadenocarcinoma(155;4.24e-10)|BRCA - Breast invasive adenocarcinoma(81;0.0888)		GCTTTTCTGTCTTTGGCACTC	0.502																																																0													164	143	150					6																	153315714		2203	4300	6503	SO:0001583	missense	54516			BC011873	CCDS5243.1, CCDS47502.1, CCDS75540.1	6q25-q26	2008-02-05			ENSG00000112031	ENSG00000112031			21051	protein-coding gene	gene with protein product		613542					Standard	NM_019041		Approved		uc003qpi.4	Q9UGC7	OTTHUMG00000015857	ENST00000367233.5:c.621G>C	6.37:g.153315714C>G	ENSP00000356202:p.Lys207Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B3KTA0|Q3KR06|Q5TF44|Q5TF50|Q96CC5|Q96EX4|Q96K40	Missense_Mutation	SNP	ENST00000367233.5	37	CCDS5243.1	.	.	.	.	.	.	.	.	.	.	C	18.15	3.560810	0.65538	.	.	ENSG00000112031	ENST00000367233;ENST00000367231;ENST00000367230;ENST00000414771;ENST00000448966	T;T;T;T;T	0.11604	2.76;2.76;2.76;2.76;2.76	4.97	3.11	0.35812	.	0.096199	0.64402	D	0.000001	T	0.18718	0.0449	M	0.78801	2.425	0.40959	D	0.984603	D;D;D;D	0.89917	0.999;0.999;1.0;1.0	D;D;D;D	0.76071	0.964;0.973;0.987;0.974	T	0.01102	-1.1451	10	0.56958	D	0.05	-12.0679	8.928	0.35652	0.0:0.7454:0.0:0.2546	.	171;207;171;207	B4DMX1;Q9UGC7-2;Q9UGC7-4;Q9UGC7	.;.;.;RF1ML_HUMAN	N	207;207;171;58;71	ENSP00000356202:K207N;ENSP00000356200:K207N;ENSP00000356199:K171N;ENSP00000414383:K58N;ENSP00000415113:K71N	ENSP00000356199:K171N	K	-	3	2	MTRF1L	153357407	1.000000	0.71417	0.998000	0.56505	0.993000	0.82548	1.344000	0.33941	0.558000	0.29135	0.585000	0.79938	AAG		0.502	MTRF1L-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042764.1	NM_019041		G	153315714	C	G	153315714	3	3	698	1	0	0	0	0	1	0	0	0	9967	912	32	4	537	4	MTRF1L	6	153315714	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	65016054	153315714	17799353	38	45688										
CARD11	84433	broad.mit.edu	37	chr7	2956956	2956956	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gccaaaaaggaagcttgctcGcgagagacgggggctgaccc	15	11	0	2			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr7:2956956G>A	ENST00000396946.4	-	20	3074	c.2671C>T	c.(2671-2673)Cga>Tga	p.R891*		NM_032415.4	NP_115791.3	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	891					Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|nucleotide phosphorylation (GO:0046939)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of cytokine production (GO:0001819)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of interleukin-2 biosynthetic process (GO:0045086)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of T cell proliferation (GO:0042102)|regulation of apoptotic process (GO:0042981)|regulation of B cell differentiation (GO:0045577)|regulation of T cell differentiation (GO:0045580)|T cell costimulation (GO:0031295)|T cell receptor signaling pathway (GO:0050852)|thymic T cell selection (GO:0045061)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|immunological synapse (GO:0001772)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)	CARD domain binding (GO:0050700)|guanylate kinase activity (GO:0004385)			NS(1)|breast(3)|central_nervous_system(1)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(62)|kidney(11)|large_intestine(13)|lung(31)|ovary(4)|prostate(5)|skin(7)|upper_aerodigestive_tract(2)	150		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		AAGCTTGCTCGCGAGAGACGG	0.557			Mis		DLBCL																																		Dom	yes		7	7p22	84433	"caspase recruitment domain family, member 11"		L	0													39	52	47					7																	2956956		2203	4300	6503	SO:0001587	stop_gained	84433			AF322641	CCDS5336.2	7p22	2014-09-17			ENSG00000198286	ENSG00000198286			16393	protein-coding gene	gene with protein product	"card-maguk protein 1", "bcl10-interacting maguk protein 3"	607210				11278692, 11356195	Standard	NM_032415		Approved	CARMA1, BIMP3	uc003smv.3	Q9BXL7	OTTHUMG00000023023	ENST00000396946.4:c.2671C>T	7.37:g.2956956G>A	ENSP00000380150:p.Arg891*	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1Z7|Q2NKN7|Q548H3	Nonsense_Mutation	SNP	ENST00000396946.4	37	CCDS5336.2	.	.	.	.	.	.	.	.	.	.	G	37	6.455396	0.97581	.	.	ENSG00000198286	ENST00000396946	.	.	.	4.99	-2.13	0.07144	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-10.2197	16.1139	0.81289	0.0:0.0:0.3409:0.6591	.	.	.	.	X	891	.	ENSP00000380150:R891X	R	-	1	2	CARD11	2923482	0.094000	0.21725	0.016000	0.15963	0.402000	0.30811	0.308000	0.19314	-0.204000	0.10235	-0.314000	0.08810	CGA		0.557	CARD11-011	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000059344.4	NM_032415		A	2956956	G	A	2956956	4	1	698	1	0	0	0	0	0	1	0	0	2647	1095	38	1	817	1	CARD11	7	2956956	Nonsense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10		2956956	156181707	39	45689										
BZW2	28969	broad.mit.edu	37	chr7	16721024	16721024	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	atgaaaccatccgaaactatGctcaggtagagcctgtttga	9	9	1	3			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr7:16721024G>T	ENST00000433922.2	+	4	512	c.334G>T	c.(334-336)Gct>Tct	p.A112S	BZW2_ENST00000452975.2_Missense_Mutation_p.A112S|BZW2_ENST00000258761.3_Missense_Mutation_p.A112S|BZW2_ENST00000432311.1_3'UTR|BZW2_ENST00000405202.1_Missense_Mutation_p.A36S	NM_001159767.1	NP_001153239.1	Q9Y6E2	BZW2_HUMAN	basic leucine zipper and W2 domains 2	112					cell differentiation (GO:0030154)|nervous system development (GO:0007399)	membrane (GO:0016020)				cervix(1)|endometrium(1)|kidney(4)|large_intestine(3)|lung(2)|ovary(2)|skin(1)|urinary_tract(1)	15	Lung NSC(10;0.0367)|all_lung(11;0.0837)			UCEC - Uterine corpus endometrioid carcinoma (126;0.199)		CCGAAACTATGCTCAGGTAGA	0.438																																																0													109	96	100					7																	16721024		2203	4300	6503	SO:0001583	missense	28969			AF083246	CCDS5362.1	7p21.3	2008-07-18			ENSG00000136261	ENSG00000136261			18808	protein-coding gene	gene with protein product						11042152	Standard	NM_001159767		Approved	HSPC028, MST017, MSTP017	uc003stj.2	Q9Y6E2	OTTHUMG00000130755	ENST00000433922.2:c.334G>T	7.37:g.16721024G>T	ENSP00000397249:p.Ala112Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A4D123|Q3B779|Q96JW5|Q9H3F7	Missense_Mutation	SNP	ENST00000433922.2	37	CCDS5362.1	.	.	.	.	.	.	.	.	.	.	G	24.7	4.565035	0.86439	.	.	ENSG00000136261	ENST00000415365;ENST00000258761;ENST00000433922;ENST00000452975;ENST00000405202;ENST00000446596;ENST00000438834;ENST00000430000	T;T;T;T;T;T;T;T	0.41400	1.0;1.0;1.0;1.0;1.0;1.0;1.0;1.0	5.89	5.89	0.94794	.	0.000000	0.85682	D	0.000000	T	0.59528	0.2200	L	0.54908	1.71	0.80722	D	1	D;D;D	0.89917	0.993;1.0;0.993	D;D;D	0.83275	0.968;0.996;0.968	T	0.47114	-0.9142	10	0.10111	T	0.7	-6.5489	20.2527	0.98410	0.0:0.0:1.0:0.0	.	112;112;112	E7ETZ4;Q96JW5;Q9Y6E2	.;.;BZW2_HUMAN	S	112;112;112;112;36;112;112;112	ENSP00000403481:A112S;ENSP00000258761:A112S;ENSP00000397249:A112S;ENSP00000411715:A112S;ENSP00000385577:A36S;ENSP00000412750:A112S;ENSP00000415924:A112S;ENSP00000416531:A112S	ENSP00000258761:A112S	A	+	1	0	BZW2	16687549	1.000000	0.71417	1.000000	0.80357	0.942000	0.58702	9.810000	0.99221	2.788000	0.95919	0.557000	0.71058	GCT		0.438	BZW2-201	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000253256.2	NM_014038		T	16721024	G	T	16721024	3	4	698	1	0	0	0	0	1	0	0	0	1581	1319	46	4	344	4	BZW2	7	16721024	Missense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	13764068	16721024	142417639	40	45690										
AUTS2	26053	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	70231266	70231266	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	caccagcacaccttcacgccGttcccccacgccatcccacc	4	24	1	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr7:70231266G>A	ENST00000342771.4	+	9	1956	c.1635G>A	c.(1633-1635)ccG>ccA	p.P545P	AUTS2_ENST00000406775.2_Silent_p.P545P	NM_015570.2	NP_056385.1	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2	545	His-rich.									breast(2)|central_nervous_system(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(14)|ovary(4)|prostate(2)|skin(4)|urinary_tract(1)	50		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)		cCTTCACGCCGTTCCCCCACG	0.642																																																0													278	255	263					7																	70231266		2203	4300	6503	SO:0001819	synonymous_variant	26053			AF326917	CCDS5539.1, CCDS47601.1, CCDS47602.1	7q11.22	2014-01-06			ENSG00000158321	ENSG00000158321			14262	protein-coding gene	gene with protein product		607270				12160723	Standard	XM_005250257		Approved	KIAA0442, FBRSL2	uc003tvw.4	Q8WXX7	OTTHUMG00000023865	ENST00000342771.4:c.1635G>A	7.37:g.70231266G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4D1Y9|L7QET3|L7QF75|Q5D049|Q6PJU5|Q9Y4F2	Silent	SNP	ENST00000342771.4	37	CCDS5539.1	.	.	.	.	.	.	.	.	.	.	G	10.81	1.455200	0.26161	.	.	ENSG00000158321	ENST00000443672	.	.	.	5.56	-2.87	0.05700	.	.	.	.	.	T	0.50343	0.1610	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.45131	-0.9282	4	.	.	.	-11.6373	6.7468	0.23466	0.1273:0.5083:0.2255:0.1389	.	.	.	.	H	87	.	.	R	+	2	0	AUTS2	69869202	0.862000	0.29867	0.976000	0.42696	0.997000	0.91878	-0.056000	0.11787	-0.475000	0.06852	0.561000	0.74099	CGT		0.642	AUTS2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000251971.2			A	70231266	G	A	70231266	2	1	698	1	0	0	0	0	0	0	0	1	1225	1132	40	1		1	AUTS2	7	70231266	Silent	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	53510242	70231266	88907397	41	45691										
FASTK	10922	bcgsc.ca	37	chr7	150775936	150775938	+	In_Frame_Del	DEL	GCT	GCT	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ccccctccagcacctgccagGctgctgatcagatgctgccg							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	GCT	GCT	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr7:150775936_150775938delGCT	ENST00000297532.6	-	3	753_755	c.676_678delAGC	c.(676-678)agcdel	p.S226del	FASTK_ENST00000482571.1_Intron|FASTK_ENST00000489884.1_Intron|FASTK_ENST00000540185.1_Intron|FASTK_ENST00000353841.2_In_Frame_Del_p.S85del|RP11-148K1.12_ENST00000485974.1_RNA	NM_006712.4	NP_006703.1	Q14296	FASTK_HUMAN	Fas-activated serine/threonine kinase	226					apoptotic signaling pathway (GO:0097190)|protein phosphorylation (GO:0006468)|regulation of RNA splicing (GO:0043484)	mitochondrion (GO:0005739)	ATP binding (GO:0005524)|Fas-activated serine/threonine kinase activity (GO:0033867)|protein serine/threonine kinase activity (GO:0004674)			lung(4)|stomach(2)	6			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)|LUSC - Lung squamous cell carcinoma(290;0.0718)|Lung(243;0.138)		CACCTGCCAGGCTGCTGATCAGA	0.616																																																0																																										SO:0001651	inframe_deletion	10922				CCDS5918.1, CCDS5919.1, CCDS59088.1	7q35	2006-07-06			ENSG00000164896	ENSG00000164896			24676	protein-coding gene	gene with protein product		606965				7544399, 15572676	Standard	NM_006712		Approved	FAST	uc003wix.2	Q14296	OTTHUMG00000158694	ENST00000297532.6:c.676_678delAGC	7.37:g.150775939_150775941delGCT	ENSP00000297532:p.Ser226del	Somatic		WXS	Illumina HiSeq	Phase_1	A8K867|F8VTW9|Q59EM8|Q8IVA0	In_Frame_Del	DEL	ENST00000297532.6	37	CCDS5918.1																																																																																				0.616	FASTK-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351832.2	NM_006712		-	150775938	GCT	-	150775936	7	5	698	1	0	1	0	1	0	0	0	0	5691	1194	42	0	1003	0	FASTK	7	150775936	In_Frame_Del	DEL	GCT	TCGA-P4-A5EA-01A-11D-A28G-10	80544670	150775936	8362727	42	45692										
MLL3	58508	broad.mit.edu	37	chr7	151945198	151945198	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	catctgccttgcttatgtctGctgatgatgaaaatgatgac	9	8	2	5			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr7:151945198G>C	ENST00000262189.6	-	14	2539	c.2321C>G	c.(2320-2322)gCa>gGa	p.A774G	KMT2C_ENST00000355193.2_Missense_Mutation_p.A774G	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	774					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)										GCTTATGTCTGCTGATGATGA	0.423																																																0													184	163	170					7																	151945198		2203	4300	6503	SO:0001583	missense	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.2321C>G	7.37:g.151945198G>C	ENSP00000262189:p.Ala774Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Missense_Mutation	SNP	ENST00000262189.6	37	CCDS5931.1	.	.	.	.	.	.	.	.	.	.	G	1.692	-0.503696	0.04261	.	.	ENSG00000055609	ENST00000262189;ENST00000355193	D;D	0.83591	-1.74;-1.74	5.25	-0.131	0.13494	.	0.953037	0.08585	N	0.923914	T	0.66287	0.2774	N	0.17082	0.46	0.09310	N	1	B	0.02656	0.0	B	0.06405	0.002	T	0.48375	-0.9041	10	0.22109	T	0.4	.	5.4057	0.16320	0.3328:0.4327:0.2345:0.0	.	774	Q8NEZ4	MLL3_HUMAN	G	774	ENSP00000262189:A774G;ENSP00000347325:A774G	ENSP00000262189:A774G	A	-	2	0	MLL3	151576131	0.000000	0.05858	0.000000	0.03702	0.064000	0.16182	0.369000	0.20416	-0.035000	0.13691	-0.145000	0.13849	GCA		0.423	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			C	151945198	G	C	151945198	3	2	698	1	0	0	0	0	1	0	0	0	9629	1319	46	4	12598	4	MLL3	7	151945198	Missense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	1169262	151945198	7193465	43	45693										
WDR67	93594	broad.mit.edu;ucsc.edu	37	chr8	124094982	124094982	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	cagcacaagcttgcacagctCtggcctttaatcttcgtagg	9	12	2	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr8:124094982C>A	ENST00000287380.1	+	3	355	c.265C>A	c.(265-267)Ctg>Atg	p.L89M	TBC1D31_ENST00000521676.1_Intron|TBC1D31_ENST00000309336.3_Missense_Mutation_p.L89M|TBC1D31_ENST00000378080.2_Intron|TBC1D31_ENST00000327098.5_Missense_Mutation_p.L89M|TBC1D31_ENST00000522420.1_Intron	NM_145647.3	NP_663622.2	Q96DN5	TBC31_HUMAN	TBC1 domain family, member 31	89						centrosome (GO:0005813)	Rab GTPase activator activity (GO:0005097)										TTGCACAGCTCTGGCCTTTAA	0.343																																																0													111	103	106					8																	124094982		2203	4300	6503	SO:0001583	missense	93594			AK094612	CCDS6338.1, CCDS47916.1	8q24.13	2013-07-10	2013-07-10	2013-07-10	ENSG00000156787	ENSG00000156787		"WD repeat domain containing"	30888	protein-coding gene	gene with protein product			"WD repeat domain 67"	WDR67		12477932	Standard	NM_001145088		Approved	MGC21654, Gm85	uc003ypp.2	Q96DN5	OTTHUMG00000165081	ENST00000287380.1:c.265C>A	8.37:g.124094982C>A	ENSP00000287380:p.Leu89Met	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZL19|Q2M2J9|Q3MIR6|Q8TBP9	Missense_Mutation	SNP	ENST00000287380.1	37	CCDS6338.1	.	.	.	.	.	.	.	.	.	.	C	18.65	3.669778	0.67814	.	.	ENSG00000156787	ENST00000287380;ENST00000309336;ENST00000327098;ENST00000522276	T;T;T;T	0.74421	-0.51;1.29;1.29;-0.84	5.7	5.7	0.88788	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);	0.081913	0.51477	D	0.000088	T	0.80793	0.4691	M	0.70595	2.14	0.80722	D	1	D;D;D	0.67145	0.992;0.996;0.986	D;D;P	0.64410	0.919;0.925;0.796	T	0.79650	-0.1715	10	0.35671	T	0.21	-11.8875	5.9847	0.19428	0.1856:0.7013:0.0:0.1131	.	89;89;89	B7ZL19;Q96DN5;Q3KRB0	.;WDR67_HUMAN;.	M	89;89;89;79	ENSP00000287380:L89M;ENSP00000308358:L89M;ENSP00000312701:L89M;ENSP00000428891:L79M	ENSP00000287380:L89M	L	+	1	2	WDR67	124164163	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	2.479000	0.45197	2.689000	0.91719	0.591000	0.81541	CTG		0.343	TBC1D31-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000381721.1	NM_145647		A	124094982	C	A	124094982	3	1	698	1	0	0	0	0	1	0	0	0	17330	912	32	4	275	4	WDR67	8	124094982	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10		124094982	22269040	44	45694										
OPLAH	26873	broad.mit.edu	37	chr8	145111554	145111554	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ctgccccgaagtcccccgcaCggggcgagcgggctgtggct	16	16	0	0	rs200399200		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr8:145111554C>T	ENST00000426825.1	-	13	1892	c.1811G>A	c.(1810-1812)cGt>cAt	p.R604H	OPLAH_ENST00000534424.1_5'UTR	NM_017570.3	NP_060040.1	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	604					glutathione biosynthetic process (GO:0006750)|glutathione derivative biosynthetic process (GO:1901687)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)	5-oxoprolinase (ATP-hydrolyzing) activity (GO:0017168)|ATP binding (GO:0005524)			breast(1)|central_nervous_system(1)|endometrium(1)|lung(13)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	20	all_cancers(97;1.06e-10)|all_epithelial(106;1.5e-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;6.79e-41)|Epithelial(56;1.02e-39)|all cancers(56;2.24e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GTCCCCCGCACGGGGCGAGCG	0.667																																																0								C	HIS/ARG	0,4232		0,0,2116	20	27	24		1811	0.8	0	8		24	1,8449		0,1,4224	no	missense	OPLAH	NM_017570.3	29	0,1,6340	TT,TC,CC		0.0118,0.0,0.0079	possibly-damaging	604/1289	145111554	1,12681	2116	4225	6341	SO:0001583	missense	26873			AF024672, AB122018	CCDS75802.1	8q24.3	2010-11-23			ENSG00000178814	ENSG00000178814	3.5.2.9		8149	protein-coding gene	gene with protein product		614243				14993790	Standard	NM_017570		Approved	OPLA, 5-Opase	uc003zar.3	O14841		ENST00000426825.1:c.1811G>A	8.37:g.145111554C>T	ENSP00000475943:p.Arg604His	Somatic		WXS	Illumina HiSeq	Phase_I	A5PKY8|Q75W65|Q9Y4Q0	Missense_Mutation	SNP	ENST00000426825.1	37		.	.	.	.	.	.	.	.	.	.	C	5.999	0.368217	0.11352	0.0	1.18E-4	ENSG00000178814	ENST00000426825	.	.	.	4.69	0.788	0.18601	.	0.196928	0.44097	D	0.000484	T	0.22589	0.0545	.	.	.	0.40220	D	0.977721	P	0.43701	0.815	B	0.38712	0.28	T	0.19289	-1.0310	7	0.45353	T	0.12	.	4.0517	0.09798	0.1541:0.4819:0.0:0.364	.	604	O14841	OPLA_HUMAN	H	604	.	ENSP00000412071:R604H	R	-	2	0	OPLAH	145183542	0.007000	0.16637	0.012000	0.15200	0.255000	0.26057	0.188000	0.17018	0.093000	0.17368	0.514000	0.50259	CGT		0.667	OPLAH-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_017570		T	145111554	C	T	145111554	3	4	698	1	0	0	0	0	1	0	0	0	10883	536	19	1	2117	1	OPLAH	8	145111554	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	21016572	145111554	1252468	45	45695										
ZNF7	7553	broad.mit.edu	37	chr8	146066868	146066869	+	Frame_Shift_Del	DEL	TC	TC	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	atcctggctttggagacgttTctgattctgaggtctggtta							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr8:146066868_146066869delTC	ENST00000528372.1	+	5	616_617	c.376_377delTC	c.(376-378)tctfs	p.S126fs	ZNF7_ENST00000532393.1_3'UTR|ZNF7_ENST00000525266.1_Intron|ZNF7_ENST00000544249.1_Frame_Shift_Del_p.S30fs|ZNF7_ENST00000325217.5_Intron|ZNF7_ENST00000446747.2_Frame_Shift_Del_p.S137fs|ZNF7_ENST00000529819.1_Intron|ZNF7_ENST00000325241.6_Frame_Shift_Del_p.S126fs			P17097	ZNF7_HUMAN	zinc finger protein 7	126					multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(2)|kidney(1)|large_intestine(7)|lung(6)|ovary(5)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	25	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)	Breast(495;0.0812)|Ovarian(118;0.0822)|Acute lymphoblastic leukemia(644;0.143)	Epithelial(56;8.75e-39)|OV - Ovarian serous cystadenocarcinoma(54;1.13e-38)|all cancers(56;8.48e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;2.11e-07)		TGGAGACGTTTCTGATTCTGAG	0.485																																																0																																										SO:0001589	frameshift_variant	7553			AB209619	CCDS6435.1, CCDS64996.1, CCDS64998.1, CCDS64999.1	8q24	2013-01-08	2006-05-09		ENSG00000147789	ENSG00000147789		"Zinc fingers, C2H2-type", "-"	13139	protein-coding gene	gene with protein product		194531	"zinc finger protein 7 (KOX 4, clone HF.16)"			2106481, 1946370	Standard	NM_003416		Approved	KOX4, HF.16	uc003zeg.4	P17097	OTTHUMG00000165200	ENST00000528372.1:c.376_377delTC	8.37:g.146066868_146066869delTC	ENSP00000432724:p.Ser126fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DT08|D3DWN6|P17015|Q8N8Y4	Frame_Shift_Del	DEL	ENST00000528372.1	37	CCDS6435.1																																																																																				0.485	ZNF7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000382660.1	NM_003416		-	146066869	TC	-	146066868	7	5	698	1	0	1	0	1	0	0	0	0	18114	1783	62	0	390	0	ZNF7	8	146066868	Frame_Shift_Del	DEL	TC	TCGA-P4-A5EA-01A-11D-A28G-10	955314	146066868	297154	46	45696										
COL27A1	85301	broad.mit.edu	37	chr9	117052570	117052570	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gcctcgagggcatcgctggaCcagatgggcttcctggcagg	16	12	0	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr9:117052570C>A	ENST00000356083.3	+	47	4718	c.4327C>A	c.(4327-4329)Cca>Aca	p.P1443T		NM_032888.2	NP_116277.2	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1	1443	Collagen-like 14.|Pro-rich.|Triple-helical region.				extracellular matrix organization (GO:0030198)	endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|fibrillar collagen trimer (GO:0005583)	extracellular matrix structural constituent (GO:0005201)|metal ion binding (GO:0046872)			central_nervous_system(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(17)|lung(30)|ovary(4)|prostate(6)|skin(3)|soft_tissue(1)|stomach(1)|urinary_tract(3)	80						CATCGCTGGACCAGATGGGCT	0.637																																																0													30	24	26					9																	117052570		2193	4288	6481	SO:0001583	missense	85301			AB058773	CCDS6802.1	9q33.1	2013-01-16			ENSG00000196739	ENSG00000196739		"Collagens"	22986	protein-coding gene	gene with protein product		608461				12766169	Standard	NM_032888		Approved	KIAA1870, MGC11337, FLJ11895	uc011lxl.2	Q8IZC6	OTTHUMG00000020537	ENST00000356083.3:c.4327C>A	9.37:g.117052570C>A	ENSP00000348385:p.Pro1443Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q66K43|Q96JF7	Missense_Mutation	SNP	ENST00000356083.3	37	CCDS6802.1	.	.	.	.	.	.	.	.	.	.	C	9.195	1.027065	0.19512	.	.	ENSG00000196739	ENST00000356083;ENST00000357257	D	0.93133	-3.17	5.47	2.6	0.31112	.	.	.	.	.	D	0.86932	0.6052	L	0.31157	0.91	0.23425	N	0.99771	B	0.24186	0.099	B	0.22601	0.04	T	0.70070	-0.4973	9	0.15499	T	0.54	.	9.8448	0.41021	0.0:0.7351:0.1199:0.145	.	1443	Q8IZC6	CORA1_HUMAN	T	1443	ENSP00000348385:P1443T	ENSP00000348385:P1443T	P	+	1	0	COL27A1	116092391	0.676000	0.27567	0.993000	0.49108	0.959000	0.62525	0.352000	0.20113	0.020000	0.15106	-1.961000	0.00478	CCA		0.637	COL27A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053763.1	NM_032888		A	117052570	C	A	117052570	3	1	698	1	0	0	0	0	1	0	0	0	3687	507	18	4	4513	4	COL27A1	9	117052570	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10		117052570	24160861	47	45697										
TRIM32	22954	broad.mit.edu;bcgsc.ca	37	chr9	119461631	119461631	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ccagggcttaggcctcaatcTggagaatcggcagaatgagc	13	10	2	3			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr9:119461631T>A	ENST00000450136.1	+	2	1771	c.1610T>A	c.(1609-1611)cTg>cAg	p.L537Q	ASTN2_ENST00000313400.4_Intron|TRIM32_ENST00000373983.2_Missense_Mutation_p.L537Q|ASTN2_ENST00000373996.3_Intron|ASTN2_ENST00000361209.2_Intron|ASTN2_ENST00000361477.3_Intron	NM_001099679.1|NM_012210.3	NP_001093149.1|NP_036342.2	Q13049	TRI32_HUMAN	tripartite motif containing 32	537					fat cell differentiation (GO:0045444)|innate immune response (GO:0045087)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage (GO:1902230)|negative regulation of viral release from host cell (GO:1902187)|negative regulation of viral transcription (GO:0032897)|positive regulation of cell cycle (GO:0045787)|positive regulation of cell growth (GO:0030307)|positive regulation of cell migration (GO:0030335)|positive regulation of cell motility (GO:2000147)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of neurogenesis (GO:0050769)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of NF-kappaB transcription factor activity (GO:0051092)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of proteolysis (GO:0045862)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of type I interferon production (GO:0032481)|protein polyubiquitination (GO:0000209)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)|regulation of type I interferon production (GO:0032479)|response to tumor necrosis factor (GO:0034612)|response to UV (GO:0009411)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|striated muscle myosin thick filament (GO:0005863)	ligase activity (GO:0016874)|myosin binding (GO:0017022)|protein self-association (GO:0043621)|RNA binding (GO:0003723)|Tat protein binding (GO:0030957)|transcription coactivator activity (GO:0003713)|translation initiation factor binding (GO:0031369)|ubiquitin binding (GO:0043130)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|endometrium(4)|kidney(3)|large_intestine(5)|liver(1)|lung(6)|prostate(1)|skin(2)|urinary_tract(1)	26						GGCCTCAATCTGGAGAATCGG	0.557																																					Esophageal Squamous(92;212 1916 19711 26951)											0													71	66	67					9																	119461631		2203	4300	6503	SO:0001583	missense	22954			U18543	CCDS6817.1	9q33.1	2014-09-17	2011-01-25		ENSG00000119401	ENSG00000119401		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	16380	protein-coding gene	gene with protein product		602290	"limb girdle muscular dystrophy 2H (autosomal recessive)", "tripartite motif-containing 32"	LGMD2H		11331580, 7778269, 16606853	Standard	NM_001099679		Approved	HT2A, TATIP, BBS11	uc004bjx.2	Q13049	OTTHUMG00000021026	ENST00000450136.1:c.1610T>A	9.37:g.119461631T>A	ENSP00000408292:p.Leu537Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NQP8	Missense_Mutation	SNP	ENST00000450136.1	37	CCDS6817.1	.	.	.	.	.	.	.	.	.	.	T	15.49	2.849798	0.51270	.	.	ENSG00000119401	ENST00000450136;ENST00000373983	D;D	0.83419	-1.72;-1.72	5.56	5.56	0.83823	Six-bladed beta-propeller, TolB-like (1);	0.184376	0.35936	N	0.002883	T	0.71762	0.3378	N	0.08118	0	0.46823	D	0.999217	D	0.56968	0.978	P	0.45881	0.496	T	0.73341	-0.4013	9	.	.	.	-4.4367	15.6974	0.77512	0.0:0.0:0.0:1.0	.	537	Q13049	TRI32_HUMAN	Q	537	ENSP00000408292:L537Q;ENSP00000363095:L537Q	.	L	+	2	0	TRIM32	118501452	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.665000	0.83852	2.098000	0.63641	0.528000	0.53228	CTG		0.557	TRIM32-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055466.2	NM_012210		A	119461631	T	A	119461631	3	1	698	1	0	0	0	0	1	0	0	0	16518	1580	55	5	1612	5	TRIM32	9	119461631	Missense_Mutation	SNP	T	TCGA-P4-A5EA-01A-11D-A28G-10	2409061	119461631	21751800	48	45698										
LMX1B	4010	broad.mit.edu	37	chr9	129376780	129376780	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	agaggtgcttccctcgcgggCagacggactgcgccaagatg	15	12	0	3			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr9:129376780C>A	ENST00000373474.4	+	1	59	c.52C>A	c.(52-54)Cag>Aag	p.Q18K	LMX1B_ENST00000425646.2_5'UTR|RP11-123K19.1_ENST00000432418.1_RNA|RP11-123K19.1_ENST00000451449.2_RNA|LMX1B_ENST00000526117.1_Missense_Mutation_p.Q18K|LMX1B_ENST00000355497.5_Missense_Mutation_p.Q18K|RP11-123K19.1_ENST00000425370.1_RNA|LMX1B_ENST00000561065.1_5'UTR			O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	18					cell proliferation (GO:0008283)|central nervous system neuron development (GO:0021954)|cerebellum morphogenesis (GO:0021587)|collagen fibril organization (GO:0030199)|dopaminergic neuron differentiation (GO:0071542)|dorsal/ventral pattern formation (GO:0009953)|in utero embryonic development (GO:0001701)|limb morphogenesis (GO:0035108)|midbrain development (GO:0030901)|multicellular organismal development (GO:0007275)|neuron differentiation (GO:0030182)|neuron migration (GO:0001764)|organ growth (GO:0035265)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|trabecular meshwork development (GO:0002930)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			endometrium(1)|large_intestine(3)|lung(9)|ovary(1)|skin(1)	15						CCCTCGCGGGCAGACGGACTG	0.721									Nail-Patella Syndrome																												Pancreas(110;1796 2278 18357 20466)											0													19	17	18					9																	129376780		2195	4295	6490	SO:0001583	missense	4010	Familial Cancer Database	Osteo-Onychodysplasia, Turner-Kieser syndrome, Fong disease	U77457	CCDS6866.1, CCDS6866.2, CCDS55342.1, CCDS55343.1	9q33.3	2011-06-20			ENSG00000136944	ENSG00000136944		"Homeoboxes / LIM class"	6654	protein-coding gene	gene with protein product		602575		NPS1		9441763, 9590287	Standard	NM_002316		Approved		uc004bqj.3	O60663	OTTHUMG00000020692	ENST00000373474.4:c.52C>A	9.37:g.129376780C>A	ENSP00000362573:p.Gln18Lys	Somatic		WXS	Illumina HiSeq	Phase_I	F8W7W6|O75463|Q5JU95|Q6ISC9	Missense_Mutation	SNP	ENST00000373474.4	37	CCDS55342.1	.	.	.	.	.	.	.	.	.	.	c	12.88	2.070080	0.36566	.	.	ENSG00000136944	ENST00000526117;ENST00000373474;ENST00000355497	D;D;D	0.85258	-1.8;-1.79;-1.96	3.04	3.04	0.35103	.	0.120313	0.35262	U	0.003325	T	0.69771	0.3148	N	0.08118	0	0.80722	D	1	.	.	.	.	.	.	T	0.64859	-0.6308	8	0.07030	T	0.85	.	12.8315	0.57748	0.0:1.0:0.0:0.0	.	.	.	.	K	18	ENSP00000436930:Q18K;ENSP00000362573:Q18K;ENSP00000347684:Q18K	ENSP00000347684:Q18K	Q	+	1	0	LMX1B	128416601	0.998000	0.40836	1.000000	0.80357	0.948000	0.59901	1.351000	0.34022	1.569000	0.49696	0.388000	0.25769	CAG		0.721	LMX1B-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000054123.2			A	129376780	C	A	129376780	3	1	698	1	0	0	0	0	1	0	0	0	8869	711	25	4	54	4	LMX1B	9	129376780	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	9915149	129376780	11836651	49	45699										
LAMC3	10319	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	133914285	133914285	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ggccgctccgaggaatgcacGtttgatcgggagctcttccg	14	12	1	1	rs201170354	byFrequency	TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr9:133914285G>A	ENST00000361069.4	+	5	1144	c.1011G>A	c.(1009-1011)acG>acA	p.T337T	LAMC3_ENST00000480883.1_3'UTR	NM_006059.3	NP_006050.3	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3	337	Laminin EGF-like 2. {ECO:0000255|PROSITE- ProRule:PRU00460}.				astrocyte development (GO:0014002)|cell adhesion (GO:0007155)|cell morphogenesis involved in differentiation (GO:0000904)|extracellular matrix organization (GO:0030198)|retina development in camera-type eye (GO:0060041)|visual perception (GO:0007601)	basement membrane (GO:0005604)|extracellular region (GO:0005576)|membrane (GO:0016020)|proteinaceous extracellular matrix (GO:0005578)	structural molecule activity (GO:0005198)			endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(12)|lung(31)|ovary(3)|pancreas(1)|prostate(3)|upper_aerodigestive_tract(2)|urinary_tract(3)	69	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		AGGAATGCACGTTTGATCGGG	0.617													g|||	3	0.000599042	0.0015	0.0014	5008	,	,		19786	0.0		0.0	False		,,,				2504	0.0															0													77	80	79					9																	133914285		2203	4300	6503	SO:0001819	synonymous_variant	10319			AF041835	CCDS6938.1	9q31-q34	2013-03-01			ENSG00000050555	ENSG00000050555		"Laminins"	6494	protein-coding gene	gene with protein product		604349				10225960	Standard	NM_006059		Approved	DKFZp434E202	uc004caa.1	Q9Y6N6	OTTHUMG00000020819	ENST00000361069.4:c.1011G>A	9.37:g.133914285G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B1APX9|B1APY0|Q59H72	Silent	SNP	ENST00000361069.4	37	CCDS6938.1																																																																																				0.617	LAMC3-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054717.3	NM_006059		A	133914285	G	A	133914285	2	1	698	1	0	0	0	0	0	0	0	1	8623	1132	40	1		1	LAMC3	9	133914285	Silent	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	4537505	133914285	7299146	50	45700										
PFKP	5214	hgsc.bcm.edu	37	chr10	3150955	3150955	+	Frame_Shift_Del	DEL	A	A	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ctcgggcacgtgcagagaggAgggaccccttcggcattcga							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr10:3150955delA	ENST00000381125.4	+	9	1009	c.933delA	c.(931-933)ggafs	p.G312fs	PFKP_ENST00000381075.2_Frame_Shift_Del_p.G304fs	NM_002627.4	NP_002618.1	Q01813	PFKAP_HUMAN	phosphofructokinase, platelet	312	N-terminal catalytic PFK domain 1.				carbohydrate metabolic process (GO:0005975)|carbohydrate phosphorylation (GO:0046835)|fructose 6-phosphate metabolic process (GO:0006002)|glucose metabolic process (GO:0006006)|glycolytic process (GO:0006096)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|nucleus (GO:0005634)	6-phosphofructokinase activity (GO:0003872)|ATP binding (GO:0005524)|metal ion binding (GO:0046872)|protein complex binding (GO:0032403)			breast(2)|central_nervous_system(4)|endometrium(3)|large_intestine(3)|lung(10)|ovary(2)|prostate(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	31				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		TGCAGAGAGGAGGGACCCCTT	0.562																																																0													148	132	138					10																	3150955		2203	4300	6503	SO:0001589	frameshift_variant	5214			AK092597	CCDS7059.1, CCDS55698.1	10p15.3-p15.2	2006-08-25			ENSG00000067057	ENSG00000067057	2.7.1.11		8878	protein-coding gene	gene with protein product	"Phosphofructokinase, platelet type"	171840					Standard	NM_002627		Approved	PFK-C, PFKF	uc001igp.3	Q01813	OTTHUMG00000017556	ENST00000381125.4:c.933delA	10.37:g.3150955delA	ENSP00000370517:p.Gly312fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KS15|Q5VSR7|Q5VSR8	Frame_Shift_Del	DEL	ENST00000381125.4	37	CCDS7059.1																																																																																				0.562	PFKP-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046454.1	NM_002627		-	3150955	A	-	3150955	7	5	698	1	0	1	0	1	0	0	0	0	11773	291	11	0	967	0	PFKP	10	3150955	Frame_Shift_Del	DEL	A	TCGA-P4-A5EA-01A-11D-A28G-10		3150955	132383792	51	45701										
PITRM1	10531	broad.mit.edu;bcgsc.ca	37	chr10	3207428	3207429	+	Splice_Site	DEL	AC	AC	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ataaaaaaggaagaaaacttAcaaacgctcccttcatctca							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr10:3207428_3207429delAC	ENST00000224949.4	-	6	665		c.e6+1		PITRM1_ENST00000380989.2_Splice_Site|PITRM1-AS1_ENST00000601046.1_RNA|PITRM1_ENST00000451104.2_Splice_Site|PITRM1-AS1_ENST00000598280.1_RNA			Q5JRX3	PREP_HUMAN	pitrilysin metallopeptidase 1						positive regulation of catalytic activity (GO:0043085)|proteolysis (GO:0006508)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	enzyme activator activity (GO:0008047)|metal ion binding (GO:0046872)|metalloendopeptidase activity (GO:0004222)			breast(2)|cervix(1)|endometrium(2)|kidney(5)|large_intestine(5)|liver(1)|lung(5)|ovary(1)|pancreas(1)|prostate(4)|skin(1)|stomach(2)|urinary_tract(3)	33						AAGAAAACTTACAAACGCTCCC	0.411																																																0																																										SO:0001630	splice_region_variant	10531			AB029027	CCDS55699.1, CCDS55700.1, CCDS59208.1	10p15.2	2008-07-30	2005-08-17		ENSG00000107959	ENSG00000107959			17663	protein-coding gene	gene with protein product	"PreP peptidasome"		"pitrilysin metalloproteinase 1"			1036083, 10470851, 16849325	Standard	NM_014889		Approved	MP1, KIAA1104, hMP1, PreP	uc009xhv.2	Q5JRX3	OTTHUMG00000017557	ENST00000224949.4:c.630+1GT>-	10.37:g.3207428_3207429delAC		Somatic		WXS	Illumina HiSeq	Phase_I	B3KMJ6|B4E0J8|C9JSL2|E7ES23|O95204|Q2M2G6|Q4VBR1|Q5JRW7|Q7L5Z7|Q9BSI6|Q9BVJ5|Q9UPP8	Splice_Site	DEL	ENST00000224949.4	37	CCDS59208.1																																																																																				0.411	PITRM1-007	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000046469.2		Intron	-	3207429	AC	-	3207428	8	5	698	1	0	1	0	1	0	0	1	0	11960	405	14	0	2569	0	PITRM1	10	3207428	Splice_Site	DEL	AC	TCGA-P4-A5EA-01A-11D-A28G-10	56473	3207428	132327319	52	45702										
CAMK1D	57118	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	12856228	12856228	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ctcctttttatgatgaaaatGactccaagctctttgagcag	7	9	1	4			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr10:12856228G>A	ENST00000378847.3	+	7	1013	c.676G>A	c.(676-678)Gac>Aac	p.D226N	CAMK1D_ENST00000378845.1_Missense_Mutation_p.D226N	NM_153498.2	NP_705718.1	Q8IU85	KCC1D_HUMAN	calcium/calmodulin-dependent protein kinase ID	226	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				inflammatory response (GO:0006954)|positive regulation of CREB transcription factor activity (GO:0032793)|positive regulation of neuron projection development (GO:0010976)|positive regulation of neutrophil chemotaxis (GO:0090023)|positive regulation of phagocytosis (GO:0050766)|positive regulation of respiratory burst (GO:0060267)|regulation of dendrite development (GO:0050773)|regulation of granulocyte chemotaxis (GO:0071622)	calcium- and calmodulin-dependent protein kinase complex (GO:0005954)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|calmodulin-dependent protein kinase activity (GO:0004683)			endometrium(3)|kidney(2)|large_intestine(4)|lung(4)|ovary(1)|skin(1)|stomach(1)	16				GBM - Glioblastoma multiforme(1;3.16e-05)		TGATGAAAATGACTCCAAGCT	0.483																																																0													101	90	94					10																	12856228		2203	4300	6503	SO:0001583	missense	57118			AF286366	CCDS7091.1, CCDS7092.1	10p13	2003-11-05			ENSG00000183049	ENSG00000183049			19341	protein-coding gene	gene with protein product		607957				11050006	Standard	XM_006717481		Approved	CKLiK	uc001ilo.3	Q8IU85	OTTHUMG00000017683	ENST00000378847.3:c.676G>A	10.37:g.12856228G>A	ENSP00000368124:p.Asp226Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B0YIY0|Q9HD31	Missense_Mutation	SNP	ENST00000378847.3	37	CCDS7091.1	.	.	.	.	.	.	.	.	.	.	G	31	5.064215	0.93898	.	.	ENSG00000183049	ENST00000378847;ENST00000378845	T;T	0.65364	-0.15;-0.15	5.46	5.46	0.80206	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.70011	0.3175	L	0.35723	1.085	0.80722	D	1	D;B	0.54047	0.964;0.267	D;B	0.63703	0.917;0.344	T	0.68907	-0.5285	10	0.42905	T	0.14	-37.1453	16.7965	0.85603	0.0:0.0:1.0:0.0	.	226;226	Q8IU85;Q5SQQ7	KCC1D_HUMAN;.	N	226	ENSP00000368124:D226N;ENSP00000368122:D226N	ENSP00000368122:D226N	D	+	1	0	CAMK1D	12896234	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	9.517000	0.98020	2.556000	0.86216	0.555000	0.69702	GAC		0.483	CAMK1D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046820.1	NM_020397		A	12856228	G	A	12856228	3	1	698	1	0	0	0	0	1	0	0	0	2599	1290	45	2	702	2	CAMK1D	10	12856228	Missense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	9648800	12856228	122678519	53	45703										
ZNF33B	7582	ucsc.edu	37	chr10	43088083	43088083	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	attcataaggtttttctcctAtgtgtgttctctgatgtaca	7	7	3	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr10:43088083A>G	ENST00000359467.3	-	5	2429	c.2315T>C	c.(2314-2316)aTa>aCa	p.I772T	ZNF33B_ENST00000486187.1_RNA	NM_006955.1	NP_008886.1	Q06732	ZN33B_HUMAN	zinc finger protein 33B	772					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(4)|kidney(1)|large_intestine(6)|lung(15)|skin(1)|stomach(1)	29						TTTTTCTCCTATGTGTGTTCT	0.413																																					Melanoma(137;1247 1767 16772 25727 43810)											0													122	117	119					10																	43088083		2203	4300	6503	SO:0001583	missense	7582			X68688, AJ491697	CCDS7198.1	10q11.2	2013-01-08	2005-03-18		ENSG00000196693	ENSG00000196693		"Zinc fingers, C2H2-type", "-"	13097	protein-coding gene	gene with protein product		194522	"zinc finger protein 33b (KOX 31)", "zinc finger protein 11B"	ZNF11B		2014798	Standard	NM_006955		Approved	KOX31, KOX2	uc001jaf.1	Q06732	OTTHUMG00000018014	ENST00000359467.3:c.2315T>C	10.37:g.43088083A>G	ENSP00000352444:p.Ile772Thr	Somatic		WXS	Illumina HiSeq		Q06731|Q32MA2|Q86XY8|Q8NDW3	Missense_Mutation	SNP	ENST00000359467.3	37	CCDS7198.1	.	.	.	.	.	.	.	.	.	.	A	0.007	-1.955903	0.00470	.	.	ENSG00000196693	ENST00000359467;ENST00000395836	T	0.11712	2.75	2.5	-0.594	0.11664	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.829025	0.09911	N	0.739814	T	0.02156	0.0067	N	0.00496	-1.435	0.24656	N	0.993495	B	0.02656	0.0	B	0.01281	0.0	T	0.44711	-0.9310	10	0.02654	T	1	.	6.666	0.23041	0.3882:0.0:0.6118:0.0	.	772	Q06732	ZN33B_HUMAN	T	772;738	ENSP00000352444:I772T	ENSP00000352444:I772T	I	-	2	0	ZNF33B	42408089	0.175000	0.23083	0.845000	0.33349	0.880000	0.50808	0.511000	0.22739	-0.125000	0.11703	-0.537000	0.04273	ATA		0.413	ZNF33B-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_006955		G	43088083	A	G	43088083	3	3	698	1	0	0	0	0	1	0	0	0	17867	449	16	3	25	3	ZNF33B	10	43088083	Missense_Mutation	SNP	A	TCGA-P4-A5EA-01A-11D-A28G-10	30231855	43088083	92446664	54	45704										
IKZF5	64376	broad.mit.edu;bcgsc.ca	37	chr10	124754057	124754057	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	taaggaagacctagtaccttTaattggtaccattttatgct	7	7	0	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr10:124754057T>C	ENST00000368886.5	-	5	819	c.499A>G	c.(499-501)Aaa>Gaa	p.K167E	PSTK_ENST00000497219.1_Intron	NM_001271840.1	NP_001258769.1	Q9H5V7	IKZF5_HUMAN	IKAROS family zinc finger 5 (Pegasus)	167					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(2)|lung(3)|prostate(1)	6		all_neural(114;0.169)|Colorectal(57;0.178)|Glioma(114;0.222)		Colorectal(40;0.0701)|COAD - Colon adenocarcinoma(40;0.0754)		CTAGTACCTTTAATTGGTACC	0.408																																																0													144	132	136					10																	124754057		1925	4126	6051	SO:0001583	missense	64376			AF230808	CCDS41574.1	10q26	2011-05-31	2006-08-25	2006-08-25	ENSG00000095574	ENSG00000095574		"Zinc fingers, C2H2-type", "IKAROS zinc fingers"	14283	protein-coding gene	gene with protein product		606238	"zinc finger protein, subfamily 1A, 5", "zinc finger protein, subfamily 1A, 5 (Pegasus)"	ZNFN1A5		10978333	Standard	NM_001271840		Approved	Pegasus, FLJ22973	uc021qaj.2	Q9H5V7	OTTHUMG00000019192	ENST00000368886.5:c.499A>G	10.37:g.124754057T>C	ENSP00000357881:p.Lys167Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KVH7|D3DRE7|Q9H2T0	Missense_Mutation	SNP	ENST00000368886.5	37	CCDS41574.1	.	.	.	.	.	.	.	.	.	.	T	15.40	2.823756	0.50739	.	.	ENSG00000095574	ENST00000368886	T	0.05319	3.46	5.95	5.95	0.96441	.	0.000000	0.85682	D	0.000000	T	0.06234	0.0161	N	0.24115	0.695	0.80722	D	1	B	0.25719	0.132	B	0.17098	0.017	T	0.37430	-0.9706	10	0.45353	T	0.12	-14.6901	16.4237	0.83790	0.0:0.0:0.0:1.0	.	167	Q9H5V7	IKZF5_HUMAN	E	167	ENSP00000357881:K167E	ENSP00000357881:K167E	K	-	1	0	IKZF5	124744047	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.857000	0.69525	2.279000	0.76181	0.533000	0.62120	AAA		0.408	IKZF5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050820.2	NM_022466		C	124754057	T	C	124754057	3	2	698	1	0	0	0	0	1	0	0	0	7625	1763	61	3	764	3	IKZF5	10	124754057	Missense_Mutation	SNP	T	TCGA-P4-A5EA-01A-11D-A28G-10	81665974	124754057	10780690	55	45705										
MUC2	4583	bcgsc.ca	37	chr11	1093312	1093312	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ccactacggtgaccccaaccCcaacacccaccggcacacag	6	21	0	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr11:1093312C>G	ENST00000441003.2	+	30	5158	c.5131C>G	c.(5131-5133)Cca>Gca	p.P1711A	MUC2_ENST00000333592.6_5'Flank|MUC2_ENST00000361558.6_Intron|MUC2_ENST00000359061.5_Missense_Mutation_p.P1678A	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	0	Approximate repeats.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	gaccccaaccccaacacccac	0.637																																																0													145	191	175					11																	1093312		1907	3560	5467	SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.5131C>G	11.37:g.1093312C>G	ENSP00000415183:p.Pro1711Ala	Somatic		WXS	Illumina HiSeq	Phase_1	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	C	0.304	-0.972196	0.02215	.	.	ENSG00000198788	ENST00000441003;ENST00000359061	T;T	0.08458	3.09;3.11	1.4	-2.79	0.05841	.	0.190326	0.20108	U	0.099085	T	0.02533	0.0077	.	.	.	0.09310	N	1	B	0.14438	0.01	B	0.08055	0.003	T	0.41106	-0.9527	9	0.08179	T	0.78	.	2.4144	0.04432	0.4935:0.3028:0.0:0.2036	.	1711	E7EUV1	.	A	1711;1678	ENSP00000415183:P1711A;ENSP00000351956:P1678A	ENSP00000351956:P1678A	P	+	1	0	MUC2	1083312	0.000000	0.05858	0.002000	0.10522	0.017000	0.09413	-5.838000	0.00095	-0.673000	0.05259	-1.098000	0.02139	CCA		0.637	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		G	1093312	C	G	1093312	3	3	698	1	0	0	0	0	1	0	0	0	9982	623	22	4	5249	4	MUC2	11	1093312	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10		1093312	133913204	56	45706										
KCNQ1	3784	hgsc.bcm.edu	37	chr11	2466535	2466535	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ccccctgcgtccccggccgcGcccgccgcgcccccagttgc	11	25	0	0	rs587781009		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr11:2466535G>T	ENST00000155840.5	+	1	315	c.207G>T	c.(205-207)gcG>gcT	p.A69A		NM_000218.2	NP_000209.2	P51787	KCNQ1_HUMAN	potassium voltage-gated channel, KQT-like subfamily, member 1	69					atrial cardiac muscle cell action potential (GO:0086014)|cardiac muscle contraction (GO:0060048)|cardiovascular system development (GO:0072358)|cellular response to cAMP (GO:0071320)|cellular response to drug (GO:0035690)|cellular response to epinephrine stimulus (GO:0071872)|gene silencing (GO:0016458)|male gonad development (GO:0008584)|membrane repolarization during action potential (GO:0086011)|membrane repolarization during cardiac muscle cell action potential (GO:0086013)|negative regulation of insulin secretion (GO:0046676)|positive regulation of gastric acid secretion (GO:0060454)|positive regulation of potassium ion transmembrane transport (GO:1901381)|potassium ion export (GO:0071435)|potassium ion transmembrane transport (GO:0071805)|regulation of atrial cardiac muscle cell membrane repolarization (GO:0060372)|regulation of gene expression by genetic imprinting (GO:0006349)|regulation of heart contraction (GO:0008016)|regulation of heart rate by cardiac conduction (GO:0086091)|regulation of membrane repolarization (GO:0060306)|regulation of ventricular cardiac muscle cell membrane repolarization (GO:0060307)|sensory perception of sound (GO:0007605)|synaptic transmission (GO:0007268)|ventricular cardiac muscle cell action potential (GO:0086005)	basolateral plasma membrane (GO:0016323)|early endosome (GO:0005769)|late endosome (GO:0005770)|lysosome (GO:0005764)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|voltage-gated potassium channel complex (GO:0008076)|zymogen granule membrane (GO:0042589)	calmodulin binding (GO:0005516)|delayed rectifier potassium channel activity (GO:0005251)|ion channel binding (GO:0044325)|outward rectifier potassium channel activity (GO:0015271)|protein kinase A catalytic subunit binding (GO:0034236)|protein kinase A regulatory subunit binding (GO:0034237)|protein phosphatase 1 binding (GO:0008157)|scaffold protein binding (GO:0097110)|voltage-gated potassium channel activity (GO:0005249)|voltage-gated potassium channel activity involved in atrial cardiac muscle cell action potential repolarization (GO:0086089)|voltage-gated potassium channel activity involved in cardiac muscle cell action potential repolarization (GO:0086008)|voltage-gated potassium channel activity involved in ventricular cardiac muscle cell action potential repolarization (GO:1902282)			endometrium(1)|kidney(1)|large_intestine(2)|lung(9)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|stomach(2)	21		all_epithelial(84;3.26e-05)|Breast(177;0.001)|Medulloblastoma(188;0.00111)|Ovarian(85;0.00158)|all_neural(188;0.00725)|all_lung(207;0.11)|Lung NSC(207;0.159)		BRCA - Breast invasive adenocarcinoma(625;0.00251)|Lung(200;0.131)	Bepridil(DB01244)|Indapamide(DB00808)	ccccggccgcgcccgccgcgc	0.811																																																0													3	4	3					11																	2466535		1287	2827	4114	SO:0001819	synonymous_variant	3784			AF000571	CCDS7736.1	11p15.5	2014-09-17			ENSG00000053918	ENSG00000053918		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6294	protein-coding gene	gene with protein product	"Jervell and Lange-Nielsen syndrome 1"	607542		LQT, KCNA9		8528244, 16382104	Standard	NM_181798		Approved	Kv7.1, KCNA8, KVLQT1, JLNS1, LQT1	uc001lwn.3	P51787	OTTHUMG00000009900	ENST00000155840.5:c.207G>T	11.37:g.2466535G>T		Somatic		WXS	Illumina HiSeq	Phase_I	O00347|O60607|O94787|Q14D14|Q7Z6G9|Q92960|Q9UMN8|Q9UMN9	Silent	SNP	ENST00000155840.5	37	CCDS7736.1																																																																																				0.811	KCNQ1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000027382.2	NM_000218		T	2466535	G	T	2466535	2	4	698	1	0	0	0	0	0	0	0	1	8089	1074	38	4		4	KCNQ1	11	2466535	Silent	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	1373223	2466535	132539981	57	45707										
TRIM68	55128	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	4621750	4621750	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ggtactcatcggtgcctgctCggtactcatttcccttcctc	8	15	2	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr11:4621750C>T	ENST00000300747.5	-	7	1503	c.1214G>A	c.(1213-1215)cGa>cAa	p.R405Q		NM_018073.6	NP_060543.5	Q6AZZ1	TRI68_HUMAN	tripartite motif containing 68	405	B30.2/SPRY. {ECO:0000255|PROSITE- ProRule:PRU00548}.				protein autoubiquitination (GO:0051865)|regulation of androgen receptor signaling pathway (GO:0060765)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleolus (GO:0005730)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|histone acetyltransferase binding (GO:0035035)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|endometrium(2)|large_intestine(5)|liver(1)|lung(4)|ovary(1)|urinary_tract(1)	15		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;9.49e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0288)|LUSC - Lung squamous cell carcinoma(625;0.192)		GGTGCCTGCTCGGTACTCATT	0.517																																																0													100	84	89					11																	4621750		2201	4298	6499	SO:0001583	missense	55128			AF360739	CCDS31356.1	11p15.4	2013-01-09	2011-01-25	2004-11-17		ENSG00000167333		"RING-type (C3HC4) zinc fingers", "Tripartite motif containing / Tripartite motif containing"	21161	protein-coding gene	gene with protein product		613184	"ring finger protein 137", "tripartite motif-containing 68"	RNF137		11597395	Standard	NM_018073		Approved	SS-56, FLJ10369	uc001lzf.2	Q6AZZ1		ENST00000300747.5:c.1214G>A	11.37:g.4621750C>T	ENSP00000300747:p.Arg405Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NI19|A8K551|B3KPM5|B4DVK4|Q8WZ70|Q96LE5|Q96PF7|Q9H9C2|Q9NW18	Missense_Mutation	SNP	ENST00000300747.5	37	CCDS31356.1	.	.	.	.	.	.	.	.	.	.	C	17.78	3.473848	0.63737	.	.	ENSG00000167333	ENST00000300747;ENST00000544055	T	0.68181	-0.31	4.99	0.918	0.19386	Concanavalin A-like lectin/glucanase (1);SPla/RYanodine receptor subgroup (1);B30.2/SPRY domain (1);SPla/RYanodine receptor SPRY (1);	0.160187	0.29932	N	0.010838	T	0.44582	0.1300	L	0.33753	1.03	0.28223	N	0.926426	P	0.34837	0.472	B	0.34824	0.19	T	0.23762	-1.0179	10	0.12766	T	0.61	.	3.2819	0.06918	0.1772:0.4704:0.0:0.3524	.	405	Q6AZZ1	TRI68_HUMAN	Q	405;126	ENSP00000300747:R405Q	ENSP00000300747:R405Q	R	-	2	0	TRIM68	4578326	0.000000	0.05858	0.996000	0.52242	0.995000	0.86356	-0.456000	0.06754	0.351000	0.24027	0.561000	0.74099	CGA		0.517	TRIM68-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385948.1	NM_018073		T	4621750	C	T	4621750	3	4	698	1	0	0	0	0	1	0	0	0	16553	884	31	1	247	1	TRIM68	11	4621750	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	2155215	4621750	130384766	58	45708										
CD59	966	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	33731752	33731752	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ctctgataaggatgtcccacCattttcaagctgttcgttaa	7	10	2	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr11:33731752C>T	ENST00000395850.3	-	4	382	c.307G>A	c.(307-309)Ggt>Agt	p.G103S	CD59_ENST00000437761.2_Missense_Mutation_p.G103S|CD59_ENST00000528700.1_Missense_Mutation_p.G103S|CD59_ENST00000426650.2_Missense_Mutation_p.G103S|CD59_ENST00000445143.2_Missense_Mutation_p.G103S|CD59_ENST00000527577.1_Missense_Mutation_p.G103S|CD59_ENST00000534312.1_Splice_Site_p.D103N|CD59_ENST00000415002.2_Missense_Mutation_p.G103S|CD59_ENST00000533403.1_3'UTR|CD59_ENST00000351554.3_Missense_Mutation_p.G103S	NM_000611.5|NM_001127225.1|NM_001127226.1|NM_001127227.1|NM_203329.2|NM_203330.2|NM_203331.2	NP_000602.1|NP_001120697.1|NP_001120698.1|NP_001120699.1|NP_976074.1|NP_976075.1|NP_976076.1	P13987	CD59_HUMAN	CD59 molecule, complement regulatory protein	103	UPAR/Ly6.				blood coagulation (GO:0007596)|cell activation (GO:0001775)|cell surface receptor signaling pathway (GO:0007166)|innate immune response (GO:0045087)|negative regulation of activation of membrane attack complex (GO:0001971)|negative regulation of apoptotic process (GO:0043066)|positive regulation of T cell proliferation (GO:0042102)|regulation of complement activation (GO:0030449)	anchored component of external side of plasma membrane (GO:0031362)|cell surface (GO:0009986)|compact myelin (GO:0043218)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|vesicle (GO:0031982)	complement binding (GO:0001848)			endometrium(1)|lung(2)	3						GATGTCCCACCATTTTCAAGC	0.473																																																0													160	124	136					11																	33731752		2202	4298	6500	SO:0001583	missense	966				CCDS7886.1	11p13	2014-09-17	2006-03-28			ENSG00000085063		"CD molecules", "Complement system"	1689	protein-coding gene	gene with protein product		107271	"CD59 antigen p18-20 (antigen identified by monoclonal antibodies 16.3A5, EJ16, EJ30, EL32 and G344)", "CD59 antigen, complement regulatory protein"	MIC11, MIN1, MSK21, MIN2, MIN3		7691713	Standard	NM_001127223		Approved	16.3A5, EJ16, EJ30, EL32, G344, p18-20	uc001mus.4	P13987		ENST00000395850.3:c.307G>A	11.37:g.33731752C>T	ENSP00000379191:p.Gly103Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000395850.3	37	CCDS7886.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	11.01|11.01	1.513538|1.513538	0.27123|0.27123	.|.	.|.	ENSG00000085063|ENSG00000085063	ENST00000534312|ENST00000527926;ENST00000395850;ENST00000351554;ENST00000415002;ENST00000445143;ENST00000426650;ENST00000437761;ENST00000527577;ENST00000528700	D|D;T;T;T;T;T;T;T;T	0.92249|0.94184	-3.0|-3.37;2.89;2.89;2.89;2.89;2.89;2.89;2.89;2.89	1.71|1.71	-1.94|-1.94	0.07571|0.07571	.|Ly-6 antigen / uPA receptor -like (1);	.|1.089460	.|0.06889	.|N	.|0.803918	D|D	0.92609|0.92609	0.7652|0.7652	L|L	0.59436|0.59436	1.845|1.845	0.09310|0.09310	N|N	1|1	.|D	.|0.55385	.|0.971	.|P	.|0.54238	.|0.746	D|D	0.83396|0.83396	0.0020|0.0020	7|10	0.05620|0.38643	T|T	0.96|0.18	-12.9057|-12.9057	4.096|4.096	0.09991|0.09991	0.0:0.3422:0.4816:0.1762|0.0:0.3422:0.4816:0.1762	.|.	.|103	.|P13987	.|CD59_HUMAN	N|S	103|103	ENSP00000432362:D103N|ENSP00000437122:G103S;ENSP00000379191:G103S;ENSP00000340210:G103S;ENSP00000404822:G103S;ENSP00000403511:G103S;ENSP00000402425:G103S;ENSP00000410182:G103S;ENSP00000432942:G103S;ENSP00000434617:G103S	ENSP00000432362:D103N|ENSP00000340210:G103S	D|G	-|-	1|1	0|0	CD59|CD59	33688328|33688328	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.004000|0.004000	0.04260|0.04260	0.162000|0.162000	0.16501|0.16501	-0.554000|-0.554000	0.06150|0.06150	-0.304000|-0.304000	0.09214|0.09214	GAC|GGT		0.473	CD59-002	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000388809.1	NM_203329		T	33731752	C	T	33731752	3	4	698	1	0	0	0	0	1	0	0	0	3028	594	21	2	83	2	CD59	11	33731752	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	29110002	33731752	101274764	59	45709										
AHNAK	79026	broad.mit.edu;bcgsc.ca	37	chr11	62285795	62285796	+	Frame_Shift_Del	DEL	AG	AG	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	cctgcaggcttggtcccctcAgtgtcacatctggtgcccca							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr11:62285795_62285796delAG	ENST00000378024.4	-	5	16367_16368	c.16093_16094delCT	c.(16093-16095)ctgfs	p.L5365fs	AHNAK_ENST00000525875.1_5'Flank|AHNAK_ENST00000530124.1_Intron|AHNAK_ENST00000257247.7_Intron	NM_001620.1	NP_001611.1	Q09666	AHNK_HUMAN	AHNAK nucleoprotein	5365					protein oligomerization (GO:0051259)|regulation of RNA splicing (GO:0043484)|regulation of voltage-gated calcium channel activity (GO:1901385)	actin cytoskeleton (GO:0015629)|cell-cell contact zone (GO:0044291)|costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|T-tubule (GO:0030315)|vesicle (GO:0031982)	poly(A) RNA binding (GO:0044822)|S100 protein binding (GO:0044548)|structural molecule activity conferring elasticity (GO:0097493)			NS(3)|autonomic_ganglia(1)|breast(10)|central_nervous_system(5)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(33)|large_intestine(40)|liver(1)|lung(108)|ovary(13)|pancreas(4)|prostate(5)|skin(16)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(6)	268		Melanoma(852;0.155)				TGGTCCCCTCAGTGTCACATCT	0.545																																																0																																										SO:0001589	frameshift_variant	79026			M80899	CCDS31584.1, CCDS44625.1	11q12-q13	2008-02-05	2007-03-30		ENSG00000124942	ENSG00000124942			347	protein-coding gene	gene with protein product	"desmoyokin"	103390	"AHNAK nucleoprotein (desmoyokin)"			7987395, 12153988	Standard	NM_024060		Approved	MGC5395	uc001ntl.3	Q09666	OTTHUMG00000167558	ENST00000378024.4:c.16093_16094delCT	11.37:g.62285795_62285796delAG	ENSP00000367263:p.Leu5365fs	Somatic		WXS	Illumina HiSeq	Phase_I	A1A586	Frame_Shift_Del	DEL	ENST00000378024.4	37	CCDS31584.1																																																																																				0.545	AHNAK-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000395572.1	NM_024060		-	62285796	AG	-	62285795	7	5	698	1	0	1	0	1	0	0	0	0	414	188	7	0	1698	0	AHNAK	11	62285795	Frame_Shift_Del	DEL	AG	TCGA-P4-A5EA-01A-11D-A28G-10	28554043	62285795	72720721	60	45710										
MTA2	9219	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	62364175	62364176	+	Frame_Shift_Del	DEL	CT	CT	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gcctcctcaaatagcatggcCtctgaggctgaccattcctc							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr11:62364175_62364176delCT	ENST00000278823.2	-	9	1204_1205	c.815_816delAG	c.(814-816)gagfs	p.E272fs	MTA2_ENST00000524902.1_Frame_Shift_Del_p.E99fs|MTA2_ENST00000527204.1_Frame_Shift_Del_p.E99fs	NM_004739.3	NP_004730.2	O94776	MTA2_HUMAN	metastasis associated 1 family, member 2	272	SANT. {ECO:0000255|PROSITE- ProRule:PRU00624}.				ATP-dependent chromatin remodeling (GO:0043044)|chromatin assembly or disassembly (GO:0006333)|DNA methylation (GO:0006306)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	histone deacetylase complex (GO:0000118)|membrane (GO:0016020)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|NuRD complex (GO:0016581)|protein complex (GO:0043234)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|histone deacetylase activity (GO:0004407)|RNA polymerase II repressing transcription factor binding (GO:0001103)|RNA polymerase II transcription factor binding (GO:0001085)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding transcription factor activity (GO:0000989)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(2)|large_intestine(5)|lung(7)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(4)	26						ATAGCATGGCCTCTGAGGCTGA	0.55																																																0																																										SO:0001589	frameshift_variant	9219			AB016591	CCDS8022.1	11q12-q13.1	2013-01-25	2004-12-15	2003-12-17	ENSG00000149480	ENSG00000149480		"GATA zinc finger domain containing"	7411	protein-coding gene	gene with protein product		603947	"metastasis associated gene family, member 2"	MTA1L1		9929979	Standard	NM_004739		Approved	MTA1-L1	uc001ntq.2	O94776	OTTHUMG00000167684	ENST00000278823.2:c.815_816delAG	11.37:g.62364177_62364178delCT	ENSP00000278823:p.Glu272fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DB1|Q9UQB5	Frame_Shift_Del	DEL	ENST00000278823.2	37	CCDS8022.1																																																																																				0.55	MTA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395578.1	NM_004739		-	62364176	CT	-	62364175	7	5	698	1	0	1	0	1	0	0	0	0	9916	680	24	0	1230	0	MTA2	11	62364175	Frame_Shift_Del	DEL	CT	TCGA-P4-A5EA-01A-11D-A28G-10	78380	62364175	72642341	61	45711										
ZNHIT2	741	hgsc.bcm.edu	37	chr11	64884755	64884755	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	accaccacggccgccatggaGgcagcagccgcccggcctca	12	19	1	0	rs200126440		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr11:64884755G>A	ENST00000310597.4	-	1	415	c.371C>T	c.(370-372)cCt>cTt	p.P124L	AP003068.12_ENST00000527789.1_RNA	NM_014205.2	NP_055020.1	Q9UHR6	ZNHI2_HUMAN	zinc finger, HIT-type containing 2	124							metal ion binding (GO:0046872)			breast(1)|endometrium(1)|large_intestine(2)|lung(1)|urinary_tract(1)	6						CCGCCATGGAGGCAGCAGCCG	0.731													G|||	1	0.000199681	0.0	0.0	5008	,	,		11861	0.0		0.001	False		,,,				2504	0.0															0								G	LEU/PRO	0,3516		0,0,1758	6	8	7		371	4.6	1	11		7	3,7301		0,3,3649	no	missense	ZNHIT2	NM_014205.2	98	0,3,5407	AA,AG,GG		0.0411,0.0,0.0277	probably-damaging	124/404	64884755	3,10817	1758	3652	5410	SO:0001583	missense	741				CCDS8094.1	11q13	2012-08-08	2010-09-15	2004-07-14	ENSG00000174276	ENSG00000174276		"Zinc fingers, HIT-type"	1177	protein-coding gene	gene with protein product		604575	"chromosome 11 open reading frame 5", "zinc finger, HIT domain containing 2"	C11orf5			Standard	NM_014205		Approved	FON	uc001ocw.3	Q9UHR6	OTTHUMG00000165604	ENST00000310597.4:c.371C>T	11.37:g.64884755G>A	ENSP00000308548:p.Pro124Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q3SY14|Q8IUV0	Missense_Mutation	SNP	ENST00000310597.4	37	CCDS8094.1	.	.	.	.	.	.	.	.	.	.	G	21.3	4.129799	0.77549	0.0	4.11E-4	ENSG00000174276	ENST00000310597	T	0.34472	1.36	4.55	4.55	0.56014	.	0.142165	0.47455	U	0.000232	T	0.59959	0.2232	M	0.74881	2.28	0.53005	D	0.999966	D	0.89917	1.0	D	0.83275	0.996	T	0.64757	-0.6332	10	0.72032	D	0.01	-12.5655	14.8345	0.70172	0.0:0.0:1.0:0.0	.	124	Q9UHR6	ZNHI2_HUMAN	L	124	ENSP00000308548:P124L	ENSP00000308548:P124L	P	-	2	0	ZNHIT2	64641331	0.995000	0.38212	0.958000	0.39756	0.786000	0.44442	2.667000	0.46808	2.366000	0.80165	0.561000	0.74099	CCT		0.731	ZNHIT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385260.1	NM_014205		A	64884755	G	A	64884755	3	1	698	1	0	0	0	0	1	0	0	0	18219	1000	35	2	844	2	ZNHIT2	11	64884755	Missense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	2520580	64884755	70121761	62	45712										
DSCAML1	57453	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	117352683	117352683	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ggtgggggtgctcaccttcaGtgtggagacgacctcgtcgc	16	11	2	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr11:117352683G>C	ENST00000321322.6	-	12	2735	c.2734C>G	c.(2734-2736)Ctg>Gtg	p.L912V	DSCAML1_ENST00000527706.1_Missense_Mutation_p.L642V	NM_020693.2	NP_065744.2	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	852	Fibronectin type-III 1. {ECO:0000255|PROSITE-ProRule:PRU00316}.				axonogenesis (GO:0007409)|brain development (GO:0007420)|cell fate determination (GO:0001709)|central nervous system development (GO:0007417)|dendrite self-avoidance (GO:0070593)|dorsal/ventral pattern formation (GO:0009953)|embryonic skeletal system morphogenesis (GO:0048704)|homophilic cell adhesion (GO:0007156)|negative regulation of cell adhesion (GO:0007162)	cell surface (GO:0009986)|extracellular space (GO:0005615)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	protein homodimerization activity (GO:0042803)			breast(3)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(7)|large_intestine(24)|lung(49)|ovary(6)|pancreas(1)|prostate(2)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	110	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)		CTCACCTTCAGTGTGGAGACG	0.622																																																0													104	73	84					11																	117352683		2201	4296	6497	SO:0001583	missense	57453				CCDS8384.1	11q22.2-q22.3	2013-02-11			ENSG00000177103	ENSG00000177103		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	14656	protein-coding gene	gene with protein product		611782				11453658	Standard	NM_020693		Approved	KIAA1132	uc001prh.1	Q8TD84	OTTHUMG00000167071	ENST00000321322.6:c.2734C>G	11.37:g.117352683G>C	ENSP00000315465:p.Leu912Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q76MU9|Q8IZY3|Q8IZY4|Q8WXU7|Q9ULT7	Missense_Mutation	SNP	ENST00000321322.6	37	CCDS8384.1	.	.	.	.	.	.	.	.	.	.	G	13.98	2.397882	0.42512	.	.	ENSG00000177103	ENST00000527706;ENST00000321322;ENST00000446508	T;T	0.73681	-0.77;-0.77	3.89	2.97	0.34412	Immunoglobulin subtype (1);Immunoglobulin I-set (1);Immunoglobulin-like (1);Immunoglobulin-like fold (1);	.	.	.	.	D	0.85111	0.5622	M	0.83118	2.625	0.80722	D	1	D	0.89917	1.0	D	0.78314	0.991	D	0.85651	0.1282	9	0.62326	D	0.03	.	11.2591	0.49071	0.09:0.0:0.91:0.0	.	852	Q8TD84	DSCL1_HUMAN	V	642;912;619	ENSP00000434335:L642V;ENSP00000315465:L912V	ENSP00000315465:L912V	L	-	1	2	DSCAML1	116857893	1.000000	0.71417	0.934000	0.37439	0.083000	0.17756	4.754000	0.62191	0.844000	0.35094	0.485000	0.47835	CTG		0.622	DSCAML1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000392907.2	NM_020693		C	117352683	G	C	117352683	3	2	698	1	0	0	0	0	1	0	0	0	4771	1020	36	4	3695	4	DSCAML1	11	117352683	Missense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	52467928	117352683	17653833	63	45713										
IL10RA	3587	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	117869470	117869470	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	cttcatcttcatcagccagcGtccctccccagagacccaag	6	18	4	1	rs576666901	byFrequency	TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr11:117869470G>T	ENST00000227752.3	+	7	971	c.851G>T	c.(850-852)cGt>cTt	p.R284L	IL10RA_ENST00000533700.1_3'UTR|IL10RA_ENST00000541785.1_Missense_Mutation_p.R264L|IL10RA_ENST00000545409.1_Missense_Mutation_p.R135L	NM_001558.3	NP_001549.2	Q13651	I10R1_HUMAN	interleukin 10 receptor, alpha	284					cytokine-mediated signaling pathway (GO:0019221)|response to lipopolysaccharide (GO:0032496)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	interleukin-10 receptor activity (GO:0004920)|receptor activity (GO:0004872)|signal transducer activity (GO:0004871)			NS(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(10)|ovary(2)|prostate(1)	19	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.07e-05)|Epithelial(105;0.00108)		ATCAGCCAGCGTCCCTCCCCA	0.582																																																0													90	73	79					11																	117869470		2200	4296	6496	SO:0001583	missense	3587			U00672	CCDS8388.1	11q23	2014-09-17			ENSG00000110324	ENSG00000110324		"Interleukins and interleukin receptors", "CD molecules"	5964	protein-coding gene	gene with protein product		146933		IL10R		8120391	Standard	NR_026691		Approved	HIL-10R, CDW210A, CD210a, CD210	uc001prv.3	Q13651	OTTHUMG00000166523	ENST00000227752.3:c.851G>T	11.37:g.117869470G>T	ENSP00000227752:p.Arg284Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6I0|B0YJ27	Missense_Mutation	SNP	ENST00000227752.3	37	CCDS8388.1	.	.	.	.	.	.	.	.	.	.	G	8.140	0.784909	0.16189	.	.	ENSG00000110324	ENST00000227752;ENST00000541785;ENST00000545409;ENST00000536858	T;T;T	0.23950	1.88;1.88;1.88	5.26	-3.16	0.05217	.	4.015810	0.00166	N	0.000015	T	0.07052	0.0179	N	0.01267	-0.92	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.0	T	0.20505	-1.0273	10	0.10377	T	0.69	-0.0195	1.5109	0.02496	0.1162:0.2378:0.2516:0.3945	.	264;284	F5GYV8;Q13651	.;I10R1_HUMAN	L	284;264;135;264	ENSP00000227752:R284L;ENSP00000441397:R264L;ENSP00000443019:R135L	ENSP00000227752:R284L	R	+	2	0	IL10RA	117374680	0.000000	0.05858	0.000000	0.03702	0.289000	0.27227	-1.174000	0.03105	-0.149000	0.11215	-0.457000	0.05445	CGT		0.582	IL10RA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390167.1			T	117869470	G	T	117869470	3	4	698	1	0	0	0	0	1	0	0	0	7627	1145	40	4	877	4	IL10RA	11	117869470	Missense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	516787	117869470	17137046	64	45714										
OR8D1	283159	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	124180084	124180085	+	Frame_Shift_Del	DEL	GT	GT	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	aaaagtagaagctcattgagGtgtgtgttggagcaggagag							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr11:124180084_124180085delGT	ENST00000357821.2	-	1	648_649	c.578_579delAC	c.(577-579)cacfs	p.H193fs		NM_001002917.1	NP_001002917.1	Q8WZ84	OR8D1_HUMAN	olfactory receptor, family 8, subfamily D, member 1	193						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)	p.H193Q(1)		kidney(1)|large_intestine(1)|lung(7)|ovary(2)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(1)	16		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		GCTCATTGAGGTGTGTGTTGGA	0.46																																																1	Substitution - Missense(1)	ovary(1)																																								SO:0001589	frameshift_variant	283159			AF238489	CCDS31706.1	11q25	2012-08-09			ENSG00000196341	ENSG00000196341		"GPCR / Class A : Olfactory receptors"	8481	protein-coding gene	gene with protein product				OR8D3			Standard	NM_001002917		Approved	OST004	uc010sag.2	Q8WZ84	OTTHUMG00000165977	ENST00000357821.2:c.578_579delAC	11.37:g.124180090_124180091delGT	ENSP00000350474:p.His193fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNL4|Q6IEW1|Q8NGH0	Frame_Shift_Del	DEL	ENST00000357821.2	37	CCDS31706.1																																																																																				0.46	OR8D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000387285.1	NM_001002917		-	124180085	GT	-	124180084	7	5	698	1	0	1	0	1	0	0	0	0	11238	1252	44	0	350	0	OR8D1	11	124180084	Frame_Shift_Del	DEL	GT	TCGA-P4-A5EA-01A-11D-A28G-10	6310614	124180084	10826432	65	45715										
LRRK2	120892	broad.mit.edu	37	chr12	40742254	40742254	+	Frame_Shift_Del	DEL	G	G	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gccccatggcctatggttgaGaaattaattaaacagtgttt					rs10878405	byFrequency	TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr12:40742254delG	ENST00000298910.7	+	43	6382	c.6324delG	c.(6322-6324)gagfs	p.E2108fs		NM_198578.3	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2108	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of MAPK activity (GO:0000187)|activation of MAPKK activity (GO:0000186)|autophagy (GO:0006914)|cellular protein localization (GO:0034613)|cellular response to dopamine (GO:1903351)|cellular response to manganese ion (GO:0071287)|cellular response to oxidative stress (GO:0034599)|determination of adult lifespan (GO:0008340)|endocytosis (GO:0006897)|exploration behavior (GO:0035640)|GTP catabolic process (GO:0006184)|intracellular distribution of mitochondria (GO:0048312)|intracellular signal transduction (GO:0035556)|locomotory exploration behavior (GO:0035641)|MAPK cascade (GO:0000165)|negative regulation of GTPase activity (GO:0034260)|negative regulation of hydrogen peroxide-induced cell death (GO:1903206)|negative regulation of late endosome to lysosome transport (GO:1902823)|negative regulation of peroxidase activity (GO:2000469)|negative regulation of protein binding (GO:0032091)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of protein processing (GO:0010955)|negative regulation of protein processing involved in protein targeting to mitochondrion (GO:1903217)|negative regulation of protein targeting to mitochondrion (GO:1903215)|negative regulation of thioredoxin peroxidase activity by peptidyl-threonine phosphorylation (GO:1903125)|neuromuscular junction development (GO:0007528)|neuron death (GO:0070997)|neuron projection morphogenesis (GO:0048812)|olfactory bulb development (GO:0021772)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|positive regulation of autophagy (GO:0010508)|positive regulation of dopamine receptor signaling pathway (GO:0060161)|positive regulation of GTPase activity (GO:0043547)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of programmed cell death (GO:0043068)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein autoubiquitination (GO:1902499)|positive regulation of protein binding (GO:0032092)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein ubiquitination (GO:0031398)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|reactive oxygen species metabolic process (GO:0072593)|regulation of branching morphogenesis of a nerve (GO:2000172)|regulation of dendritic spine morphogenesis (GO:0061001)|regulation of dopamine receptor signaling pathway (GO:0060159)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of kidney size (GO:0035564)|regulation of locomotion (GO:0040012)|regulation of membrane potential (GO:0042391)|regulation of mitochondrial depolarization (GO:0051900)|regulation of neuroblast proliferation (GO:1902692)|regulation of neuron death (GO:1901214)|regulation of neuron maturation (GO:0014041)|regulation of protein kinase A signaling (GO:0010738)|regulation of synaptic transmission, glutamatergic (GO:0051966)|regulation of synaptic vesicle exocytosis (GO:2000300)|regulation of synaptic vesicle transport (GO:1902803)|response to oxidative stress (GO:0006979)|small GTPase mediated signal transduction (GO:0007264)|tangential migration from the subventricular zone to the olfactory bulb (GO:0022028)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytoplasmic side of mitochondrial outer membrane (GO:0032473)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|dendrite (GO:0030425)|dendrite cytoplasm (GO:0032839)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|inclusion body (GO:0016234)|lysosome (GO:0005764)|membrane raft (GO:0045121)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrial membrane (GO:0031966)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)|terminal bouton (GO:0043195)|trans-Golgi network (GO:0005802)	actin binding (GO:0003779)|ATP binding (GO:0005524)|clathrin binding (GO:0030276)|glycoprotein binding (GO:0001948)|GTP binding (GO:0005525)|GTP-dependent protein kinase activity (GO:0034211)|GTPase activator activity (GO:0005096)|GTPase activity (GO:0003924)|identical protein binding (GO:0042802)|ion channel binding (GO:0044325)|kinase activity (GO:0016301)|MAP kinase kinase activity (GO:0004708)|peroxidase inhibitor activity (GO:0036479)|protein homodimerization activity (GO:0042803)|protein kinase A binding (GO:0051018)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|Rho GTPase binding (GO:0017048)|SNARE binding (GO:0000149)|syntaxin-1 binding (GO:0017075)|tubulin binding (GO:0015631)			NS(3)|biliary_tract(1)|breast(6)|central_nervous_system(2)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(23)|large_intestine(31)|lung(55)|ovary(15)|pancreas(2)|prostate(4)|skin(4)|stomach(9)|upper_aerodigestive_tract(7)|urinary_tract(2)	181	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CTATGGTTGAGAAATTAATTA	0.308																																																0													87	86	86					12																	40742254		2203	4299	6502	SO:0001589	frameshift_variant	120892			AK026776	CCDS31774.1	12q12	2011-07-21			ENSG00000188906	ENSG00000188906		"Parkinson disease"	18618	protein-coding gene	gene with protein product		609007	"Parkinson disease (autosomal dominant) 8"	PARK8		15541308	Standard	NM_198578		Approved	ROCO2, DKFZp434H2111, FLJ45829, RIPK7	uc001rmg.4	Q5S007	OTTHUMG00000059742	ENST00000298910.7:c.6324delG	12.37:g.40742254delG	ENSP00000298910:p.Glu2108fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJU2|Q6ZS50|Q8NCX9	Frame_Shift_Del	DEL	ENST00000298910.7	37	CCDS31774.1																																																																																				0.308	LRRK2-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277179.1	XM_058513		-	40742254	G	-	40742254	7	5	698	1	0	1	0	1	0	0	0	0	9040	933	33	0	6494	0	LRRK2	12	40742254	Frame_Shift_Del	DEL	G	TCGA-P4-A5EA-01A-11D-A28G-10		40742254	93109641	66	45716	500	2								
LRRK2	120892	broad.mit.edu	37	chr12	40742257	40742259	+	In_Frame_Del	DEL	ATT	ATT	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ccatggcctatggttgagaaAttaattaaacagtgtttgaa							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	ATT	ATT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr12:40742257_40742259delATT	ENST00000298910.7	+	43	6385_6387	c.6327_6329delATT	c.(6325-6330)aaatta>aaa	p.L2110del		NM_198578.3	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2110	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of MAPK activity (GO:0000187)|activation of MAPKK activity (GO:0000186)|autophagy (GO:0006914)|cellular protein localization (GO:0034613)|cellular response to dopamine (GO:1903351)|cellular response to manganese ion (GO:0071287)|cellular response to oxidative stress (GO:0034599)|determination of adult lifespan (GO:0008340)|endocytosis (GO:0006897)|exploration behavior (GO:0035640)|GTP catabolic process (GO:0006184)|intracellular distribution of mitochondria (GO:0048312)|intracellular signal transduction (GO:0035556)|locomotory exploration behavior (GO:0035641)|MAPK cascade (GO:0000165)|negative regulation of GTPase activity (GO:0034260)|negative regulation of hydrogen peroxide-induced cell death (GO:1903206)|negative regulation of late endosome to lysosome transport (GO:1902823)|negative regulation of peroxidase activity (GO:2000469)|negative regulation of protein binding (GO:0032091)|negative regulation of protein phosphorylation (GO:0001933)|negative regulation of protein processing (GO:0010955)|negative regulation of protein processing involved in protein targeting to mitochondrion (GO:1903217)|negative regulation of protein targeting to mitochondrion (GO:1903215)|negative regulation of thioredoxin peroxidase activity by peptidyl-threonine phosphorylation (GO:1903125)|neuromuscular junction development (GO:0007528)|neuron death (GO:0070997)|neuron projection morphogenesis (GO:0048812)|olfactory bulb development (GO:0021772)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|positive regulation of autophagy (GO:0010508)|positive regulation of dopamine receptor signaling pathway (GO:0060161)|positive regulation of GTPase activity (GO:0043547)|positive regulation of MAP kinase activity (GO:0043406)|positive regulation of programmed cell death (GO:0043068)|positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein autoubiquitination (GO:1902499)|positive regulation of protein binding (GO:0032092)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of protein ubiquitination (GO:0031398)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|reactive oxygen species metabolic process (GO:0072593)|regulation of branching morphogenesis of a nerve (GO:2000172)|regulation of dendritic spine morphogenesis (GO:0061001)|regulation of dopamine receptor signaling pathway (GO:0060159)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of kidney size (GO:0035564)|regulation of locomotion (GO:0040012)|regulation of membrane potential (GO:0042391)|regulation of mitochondrial depolarization (GO:0051900)|regulation of neuroblast proliferation (GO:1902692)|regulation of neuron death (GO:1901214)|regulation of neuron maturation (GO:0014041)|regulation of protein kinase A signaling (GO:0010738)|regulation of synaptic transmission, glutamatergic (GO:0051966)|regulation of synaptic vesicle exocytosis (GO:2000300)|regulation of synaptic vesicle transport (GO:1902803)|response to oxidative stress (GO:0006979)|small GTPase mediated signal transduction (GO:0007264)|tangential migration from the subventricular zone to the olfactory bulb (GO:0022028)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytoplasmic side of mitochondrial outer membrane (GO:0032473)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|dendrite (GO:0030425)|dendrite cytoplasm (GO:0032839)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|inclusion body (GO:0016234)|lysosome (GO:0005764)|membrane raft (GO:0045121)|mitochondrial inner membrane (GO:0005743)|mitochondrial matrix (GO:0005759)|mitochondrial membrane (GO:0031966)|mitochondrial outer membrane (GO:0005741)|mitochondrion (GO:0005739)|neuron projection (GO:0043005)|neuronal cell body (GO:0043025)|perikaryon (GO:0043204)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)|terminal bouton (GO:0043195)|trans-Golgi network (GO:0005802)	actin binding (GO:0003779)|ATP binding (GO:0005524)|clathrin binding (GO:0030276)|glycoprotein binding (GO:0001948)|GTP binding (GO:0005525)|GTP-dependent protein kinase activity (GO:0034211)|GTPase activator activity (GO:0005096)|GTPase activity (GO:0003924)|identical protein binding (GO:0042802)|ion channel binding (GO:0044325)|kinase activity (GO:0016301)|MAP kinase kinase activity (GO:0004708)|peroxidase inhibitor activity (GO:0036479)|protein homodimerization activity (GO:0042803)|protein kinase A binding (GO:0051018)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|Rho GTPase binding (GO:0017048)|SNARE binding (GO:0000149)|syntaxin-1 binding (GO:0017075)|tubulin binding (GO:0015631)			NS(3)|biliary_tract(1)|breast(6)|central_nervous_system(2)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(23)|large_intestine(31)|lung(55)|ovary(15)|pancreas(2)|prostate(4)|skin(4)|stomach(9)|upper_aerodigestive_tract(7)|urinary_tract(2)	181	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				TGGTTGAGAAATTAATTAAACAG	0.315																																																0																																										SO:0001651	inframe_deletion	120892			AK026776	CCDS31774.1	12q12	2011-07-21			ENSG00000188906	ENSG00000188906		"Parkinson disease"	18618	protein-coding gene	gene with protein product		609007	"Parkinson disease (autosomal dominant) 8"	PARK8		15541308	Standard	NM_198578		Approved	ROCO2, DKFZp434H2111, FLJ45829, RIPK7	uc001rmg.4	Q5S007	OTTHUMG00000059742	ENST00000298910.7:c.6327_6329delATT	12.37:g.40742257_40742259delATT	ENSP00000298910:p.Leu2110del	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJU2|Q6ZS50|Q8NCX9	In_Frame_Del	DEL	ENST00000298910.7	37	CCDS31774.1																																																																																				0.315	LRRK2-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000277179.1	XM_058513		-	40742259	ATT	-	40742257	7	5	698	1	0	1	0	1	0	0	0	0	9040	98	4	0	6497	0	LRRK2	12	40742257	In_Frame_Del	DEL	ATT	TCGA-P4-A5EA-01A-11D-A28G-10	3	40742257	93109638	67	45717	500	2								
SOAT2	8435	broad.mit.edu;bcgsc.ca	37	chr12	53499371	53499372	+	Frame_Shift_Del	DEL	AG	AG	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ggagccatccctggggaaacAgaaagttttcatcatccgca							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr12:53499371_53499372delAG	ENST00000301466.3	+	4	362_363	c.302_303delAG	c.(301-303)cagfs	p.Q101fs		NM_003578.3	NP_003569.1	O75908	SOAT2_HUMAN	sterol O-acyltransferase 2	101					cholesterol efflux (GO:0033344)|cholesterol esterification (GO:0034435)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|intestinal cholesterol absorption (GO:0030299)|macrophage derived foam cell differentiation (GO:0010742)|very-low-density lipoprotein particle assembly (GO:0034379)	brush border (GO:0005903)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	cholesterol binding (GO:0015485)|cholesterol O-acyltransferase activity (GO:0034736)|fatty-acyl-CoA binding (GO:0000062)|transferase activity, transferring acyl groups (GO:0016746)			endometrium(5)|kidney(3)|large_intestine(2)|liver(1)|lung(5)|ovary(1)|skin(1)	18					Hesperetin(DB01094)	CTGGGGAAACAGAAAGTTTTCA	0.5																																																0																																										SO:0001589	frameshift_variant	8435			AF059203	CCDS8847.1	12q13.13	2012-09-20			ENSG00000167780	ENSG00000167780	2.3.1.26		11178	protein-coding gene	gene with protein product		601311				9756920	Standard	NM_003578		Approved	ACAT2	uc001sbv.3	O75908	OTTHUMG00000169774	ENST00000301466.3:c.302_303delAG	12.37:g.53499371_53499372delAG	ENSP00000301466:p.Gln101fs	Somatic		WXS	Illumina HiSeq	Phase_I	F5H7W4|I6L9H9|Q4VB99|Q4VBA1|Q96TD4|Q9UNR2	Frame_Shift_Del	DEL	ENST00000301466.3	37	CCDS8847.1																																																																																				0.5	SOAT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405817.1			-	53499372	AG	-	53499371	7	5	698	1	0	1	0	1	0	0	0	0	14924	188	7	0	316	0	SOAT2	12	53499371	Frame_Shift_Del	DEL	AG	TCGA-P4-A5EA-01A-11D-A28G-10	12757114	53499371	80352524	68	45718										
UTP20	27340	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	101720912	101720912	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gagtaaaactcaggggaaatCtgcttcaggcacccgcatgg	12	10	3	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr12:101720912C>A	ENST00000261637.4	+	26	3269	c.3095C>A	c.(3094-3096)tCt>tAt	p.S1032Y		NM_014503.2	NP_055318.2	O75691	UTP20_HUMAN	UTP20, small subunit (SSU) processome component, homolog (yeast)	1032					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000480)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000447)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000472)|negative regulation of cell proliferation (GO:0008285)|rRNA processing (GO:0006364)	90S preribosome (GO:0030686)|cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|preribosome, small subunit precursor (GO:0030688)|small-subunit processome (GO:0032040)	poly(A) RNA binding (GO:0044822)			NS(3)|biliary_tract(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(9)|kidney(2)|large_intestine(26)|lung(30)|ovary(2)|prostate(3)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	88						CAGGGGAAATCTGCTTCAGGC	0.453																																																0													103	103	103					12																	101720912		2203	4300	6503	SO:0001583	missense	27340			AJ006778	CCDS9081.1	12q23	2006-02-11				ENSG00000120800			17897	protein-coding gene	gene with protein product	"down regulated in metastasis"	612822				9673349, 15590835, 12837249	Standard	NM_014503		Approved	DRIM	uc001tia.1	O75691	OTTHUMG00000170270	ENST00000261637.4:c.3095C>A	12.37:g.101720912C>A	ENSP00000261637:p.Ser1032Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H3H4	Missense_Mutation	SNP	ENST00000261637.4	37	CCDS9081.1	.	.	.	.	.	.	.	.	.	.	C	24.2	4.501228	0.85176	.	.	ENSG00000120800	ENST00000261637	T	0.20881	2.04	5.02	5.02	0.67125	Down-regulated-in-metastasis protein (1);Armadillo-type fold (1);	0.112147	0.64402	D	0.000007	T	0.45637	0.1352	M	0.63843	1.955	0.58432	D	0.999997	D	0.89917	1.0	D	0.77557	0.99	T	0.33624	-0.9861	10	0.49607	T	0.09	-16.674	18.7119	0.91661	0.0:1.0:0.0:0.0	.	1032	O75691	UTP20_HUMAN	Y	1032	ENSP00000261637:S1032Y	ENSP00000261637:S1032Y	S	+	2	0	UTP20	100245043	0.999000	0.42202	0.997000	0.53966	0.758000	0.43043	7.357000	0.79456	2.491000	0.84063	0.305000	0.20034	TCT		0.453	UTP20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000408242.1	NM_014503		A	101720912	C	A	101720912	3	1	698	1	0	0	0	0	1	0	0	0	17111	913	32	4	3197	4	UTP20	12	101720912	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	48221541	101720912	32130983	69	45719										
PAH	5053	broad.mit.edu	37	chr12	103271308	103271308	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	aaatctgtccagctcttgaaTggttcttgggaaccagggca	11	9	3	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr12:103271308T>A	ENST00000553106.1	-	4	845	c.373A>T	c.(373-375)Att>Ttt	p.I125F	PAH_ENST00000307000.2_Missense_Mutation_p.I120F|PAH_ENST00000551988.1_5'UTR	NM_000277.1	NP_000268.1	P00439	PH4H_HUMAN	phenylalanine hydroxylase	125					catecholamine biosynthetic process (GO:0042423)|cellular amino acid biosynthetic process (GO:0008652)|cellular nitrogen compound metabolic process (GO:0034641)|L-phenylalanine catabolic process (GO:0006559)|neurotransmitter biosynthetic process (GO:0042136)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	amino acid binding (GO:0016597)|iron ion binding (GO:0005506)|phenylalanine 4-monooxygenase activity (GO:0004505)			endometrium(1)|kidney(3)|large_intestine(5)|lung(10)|ovary(5)|skin(2)|urinary_tract(1)	27					Droxidopa(DB06262)|Epinephrine(DB00668)|L-Phenylalanine(DB00120)|Norepinephrine(DB00368)|Tetrahydrobiopterin(DB00360)	AGCTCTTGAATGGTTCTTGGG	0.507																																																0													150	138	142					12																	103271308		2203	4300	6503	SO:0001583	missense	5053			U49897	CCDS9092.1	12q22-q24.2	2010-04-27				ENSG00000171759	1.14.16.1		8582	protein-coding gene	gene with protein product	"phenylalanine 4-monooxygenase"	612349				2063869	Standard	NM_000277		Approved	PH	uc001tjq.1	P00439		ENST00000553106.1:c.373A>T	12.37:g.103271308T>A	ENSP00000448059:p.Ile125Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q16717|Q8TC14	Missense_Mutation	SNP	ENST00000553106.1	37	CCDS9092.1	.	.	.	.	.	.	.	.	.	.	T	27.6	4.844247	0.91197	.	.	ENSG00000171759	ENST00000553106;ENST00000307000;ENST00000551337	D;D;D	0.99695	-6.43;-6.43;-5.58	5.86	5.86	0.93980	Aromatic amino acid hydroxylase, C-terminal (3);	0.095070	0.64402	D	0.000001	D	0.99834	0.9925	H	0.96604	3.85	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.85130	0.997;0.991	D	0.96686	0.9507	10	0.87932	D	0	-9.0062	16.2436	0.82429	0.0:0.0:0.0:1.0	.	125;125	B4DPN2;P00439	.;PH4H_HUMAN	F	125;120;125	ENSP00000448059:I125F;ENSP00000303500:I120F;ENSP00000447620:I125F	ENSP00000303500:I120F	I	-	1	0	PAH	101795438	1.000000	0.71417	0.997000	0.53966	0.863000	0.49368	5.866000	0.69590	2.232000	0.73038	0.533000	0.62120	ATT		0.507	PAH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406692.1			A	103271308	T	A	103271308	3	1	698	1	0	0	0	0	1	0	0	0	11401	1464	51	5	1025	5	PAH	12	103271308	Missense_Mutation	SNP	T	TCGA-P4-A5EA-01A-11D-A28G-10	1550396	103271308	30580587	70	45720										
GCN1L1	10985	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	120572149	120572149	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	acgatgtttttccggatgacGgcatccactttggcccctgc	10	13	0	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr12:120572149G>C	ENST00000300648.6	-	53	7275	c.7263C>G	c.(7261-7263)gcC>gcG	p.A2421A		NM_006836.1	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis 1-like 1 (yeast)	2421					regulation of translation (GO:0006417)|translation (GO:0006412)	cytoplasm (GO:0005737)|membrane (GO:0016020)|ribosome (GO:0005840)	poly(A) RNA binding (GO:0044822)|translation factor activity, nucleic acid binding (GO:0008135)			NS(2)|breast(2)|cervix(2)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(13)|liver(1)|lung(36)|ovary(4)|prostate(7)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	94	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCCGGATGACGGCATCCACTT	0.592																																																0													116	118	117					12																	120572149		2115	4229	6344	SO:0001819	synonymous_variant	10985			U77700	CCDS41847.1	12q24.2	2008-07-03	2001-11-28						4199	protein-coding gene	gene with protein product		605614	"GCN1 (general control of amino-acid synthesis 1, yeast)-like 1"			9234705	Standard	NM_006836		Approved	KIAA0219, GCN1, GCN1L	uc001txo.3	Q92616	OTTHUMG00000169338	ENST00000300648.6:c.7263C>G	12.37:g.120572149G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8KAY1|O95001|O95651|Q6P2S3|Q86X65|Q8N5I5|Q8WU80|Q99736|Q9UE60	Silent	SNP	ENST00000300648.6	37	CCDS41847.1																																																																																				0.592	GCN1L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403592.1			C	120572149	G	C	120572149	2	2	698	1	0	0	0	0	0	0	0	1	6306	1103	39	4		4	GCN1L1	12	120572149	Silent	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	17300841	120572149	13279746	71	45721										
TNFRSF19	55504	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	24167593	24167593	+	Splice_Site	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gccaggcatggagttgtctaAggtatattggatacatggca	13	6	1	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr13:24167593A>C	ENST00000382258.4	+	3	383	c.179A>C	c.(178-180)aAg>aCg	p.K60T	TNFRSF19_ENST00000248484.4_Splice_Site_p.K60T|TNFRSF19_ENST00000403372.2_Intron|TNFRSF19_ENST00000382263.3_Splice_Site_p.K60T|TNFRSF19_ENST00000464735.1_3'UTR	NM_018647.3	NP_061117.2	Q9NS68	TNR19_HUMAN	tumor necrosis factor receptor superfamily, member 19	60					apoptotic process (GO:0006915)|hair follicle development (GO:0001942)|JNK cascade (GO:0007254)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|tumor necrosis factor-mediated signaling pathway (GO:0033209)	integral component of membrane (GO:0016021)	tumor necrosis factor-activated receptor activity (GO:0005031)			breast(1)|endometrium(4)|kidney(1)|large_intestine(4)|liver(2)|lung(5)|prostate(1)|skin(2)|stomach(1)|urinary_tract(1)	22		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)		GAGTTGTCTAAGGTATATTGG	0.408																																																0													125	122	123					13																	24167593		2203	4300	6503	SO:0001630	splice_region_variant	55504			AB040434	CCDS9301.1, CCDS9302.1, CCDS55893.1	13q12.11-q12.3	2008-07-18			ENSG00000127863	ENSG00000127863		"Tumor necrosis factor receptor superfamily"	11915	protein-coding gene	gene with protein product	"toxicity and JNK inducer"	606122				10764796, 10809768	Standard	NM_018647		Approved	TAJ-alpha, TROY, TAJ, TRADE	uc001uov.2	Q9NS68	OTTHUMG00000016568	ENST00000382258.4:c.180+1A>C	13.37:g.24167593A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8KA09|A8KA26|B1AM40|B1AM41|B4E2I6|Q9BXZ9|Q9BY00|Q9NZV2	Missense_Mutation	SNP	ENST00000382258.4	37	CCDS9302.1	.	.	.	.	.	.	.	.	.	.	A	18.04	3.533748	0.64972	.	.	ENSG00000127863	ENST00000248484;ENST00000382258;ENST00000382263	T;T;T	0.21361	2.01;2.01;2.01	5.3	5.3	0.74995	TNFR/CD27/30/40/95 cysteine-rich region (3);	0.000000	0.85682	D	0.000000	T	0.42630	0.1211	M	0.62723	1.935	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.83275	0.996;0.996;0.996	T	0.21861	-1.0233	10	0.46703	T	0.11	-31.0155	13.0516	0.58958	1.0:0.0:0.0:0.0	.	60;60;60	Q9NS68;A8KA09;Q9NS68-2	TNR19_HUMAN;.;.	T	60	ENSP00000248484:K60T;ENSP00000371693:K60T;ENSP00000371698:K60T	ENSP00000248484:K60T	K	+	2	0	TNFRSF19	23065593	1.000000	0.71417	1.000000	0.80357	0.516000	0.34256	6.400000	0.73252	2.135000	0.66039	0.482000	0.46254	AAG		0.408	TNFRSF19-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000044156.2	NM_018647	Missense_Mutation	C	24167593	A	C	24167593	5	2	698	1	0	0	0	0	0	0	1	0	16304	86	3	5	185	5	TNFRSF19	13	24167593	Splice_Site	SNP	A	TCGA-P4-A5EA-01A-11D-A28G-10		24167593	91002285	72	45722										
HMGB1	3146	broad.mit.edu	37	chr13	31036768	31036768	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	cacatctctcccagtttcttCgcaacatcaccaatggacag	5	15	3	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr13:31036768C>T	ENST00000405805.1	-	4	1318	c.378G>A	c.(376-378)gcG>gcA	p.A126A	HMGB1_ENST00000399489.1_Silent_p.A126A|HMGB1_ENST00000339872.4_Silent_p.A126A|HMGB1_ENST00000326004.4_Silent_p.A126A|HMGB1_ENST00000341423.5_Silent_p.A126A|HMGB1_ENST00000399494.1_Silent_p.A126A|HMGB1_ENST00000468384.1_5'Flank			P09429	HMGB1_HUMAN	high mobility group box 1	126					apoptotic DNA fragmentation (GO:0006309)|apoptotic process (GO:0006915)|base-excision repair, DNA ligation (GO:0006288)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|dendritic cell chemotaxis (GO:0002407)|DNA ligation involved in DNA repair (GO:0051103)|DNA recombination (GO:0006310)|DNA topological change (GO:0006265)|inflammatory response to antigenic stimulus (GO:0002437)|innate immune response (GO:0045087)|myeloid dendritic cell activation (GO:0001773)|negative regulation of apoptotic cell clearance (GO:2000426)|negative regulation of RNA polymerase II transcriptional preinitiation complex assembly (GO:0017055)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron projection development (GO:0031175)|positive chemotaxis (GO:0050918)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of DNA binding (GO:0043388)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|V(D)J recombination (GO:0033151)	cell surface (GO:0009986)|condensed chromosome (GO:0000793)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chemoattractant activity (GO:0042056)|cytokine activity (GO:0005125)|damaged DNA binding (GO:0003684)|DNA binding, bending (GO:0008301)|double-stranded DNA binding (GO:0003690)|poly(A) RNA binding (GO:0044822)|RAGE receptor binding (GO:0050786)|repressing transcription factor binding (GO:0070491)|sequence-specific DNA binding transcription factor activity (GO:0003700)|single-stranded DNA binding (GO:0003697)|transcription factor binding (GO:0008134)	p.A126A(1)		endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(2)|lung(1)|ovary(1)	8		Lung SC(185;0.0257)		all cancers(112;0.072)|OV - Ovarian serous cystadenocarcinoma(117;0.177)|Lung(94;0.216)|GBM - Glioblastoma multiforme(144;0.232)		CCAGTTTCTTCGCAACATCAC	0.413																																																1	Substitution - coding silent(1)	large_intestine(1)											96	88	91					13																	31036768		2202	4280	6482	SO:0001819	synonymous_variant	3146			D63874	CCDS9335.1	13q12	2011-07-01	2011-04-05	2002-08-16	ENSG00000189403	ENSG00000189403		"High-mobility group / Canonical"	4983	protein-coding gene	gene with protein product	"high mobility group box 1", "Sulfoglucuronyl carbohydrate binding protein", "Amphoterin", "high mobility group protein 1"	163905	"high-mobility group (nonhistone chromosomal) protein 1", "high-mobility group box 1"	HMG1		8661151, 11279268	Standard	NM_002128		Approved	HMG3, SBP-1, DKFZp686A04236	uc001usx.3	P09429	OTTHUMG00000016670	ENST00000405805.1:c.378G>A	13.37:g.31036768C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A5D8W9|Q14321|Q5T7C3|Q6IBE1	Silent	SNP	ENST00000405805.1	37	CCDS9335.1																																																																																				0.413	HMGB1-012	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000303998.2	NM_002128		T	31036768	C	T	31036768	2	4	698	1	0	0	0	0	0	0	0	1	7232	871	31	1		1	HMGB1	13	31036768	Silent	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	6869175	31036768	84133110	73	45723										
C13orf18	80183	broad.mit.edu;bcgsc.ca	37	chr13	46946278	46946278	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tggggagaagcgctgccaacGgagtctgtggtatcctcaga	15	9	2	2			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr13:46946278G>A	ENST00000429979.1	-	3	937	c.333C>T	c.(331-333)tcC>tcT	p.S111S	KIAA0226L_ENST00000534925.1_5'UTR|RNU2-6P_ENST00000411404.1_RNA|KIAA0226L_ENST00000378781.3_Silent_p.S111S|KIAA0226L_ENST00000378797.2_Silent_p.S111S|KIAA0226L_ENST00000378784.4_Silent_p.S44S|KIAA0226L_ENST00000378787.3_Silent_p.S111S|KIAA0226L_ENST00000480935.1_5'UTR|KIAA0226L_ENST00000409879.2_Intron|KIAA0226L_ENST00000389908.3_Silent_p.S111S|KIAA0226L_ENST00000322896.6_Intron	NM_025113.2	NP_079389.2	Q9H714	K226L_HUMAN	KIAA0226-like	111	Ser-rich.									NS(2)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(8)|lung(7)|pancreas(1)	26						CGCTGCCAACGGAGTCTGTGG	0.572																																																0													92	88	89					13																	46946278		2203	4300	6503	SO:0001819	synonymous_variant	80183			AK025215	CCDS31970.2, CCDS66543.1, CCDS66544.1, CCDS66545.1, CCDS73569.1	13q14.11	2011-08-09	2011-08-09	2011-08-09	ENSG00000102445	ENSG00000102445			20420	protein-coding gene	gene with protein product			"chromosome 13 open reading frame 18"	C13orf18			Standard	NM_001286766		Approved	FLJ21562	uc010acl.3	Q9H714	OTTHUMG00000016868	ENST00000429979.1:c.333C>T	13.37:g.46946278G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8KAG9|A8XR19|B3KS87|Q5W051|Q5W053|Q6PJ74|Q6PK94|Q86XH7|Q8N5J6	Silent	SNP	ENST00000429979.1	37	CCDS31970.2																																																																																				0.572	KIAA0226L-204	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044809.2	NM_025113		A	46946278	G	A	46946278	2	1	698	1	0	0	0	0	0	0	0	1	1722	1103	39	1		1	C13orf18	13	46946278	Silent	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	15909510	46946278	68223600	74	45724										
TPP2	7174	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	103328750	103328750	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	aaaccaacaaaagaaaactgGaaaaattgtattcaagtaag	6	5	1	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr13:103328750G>T	ENST00000376065.4	+	28	3681	c.3645G>T	c.(3643-3645)tgG>tgT	p.W1215C	TPP2_ENST00000376052.3_Missense_Mutation_p.W1228C|TPP2_ENST00000466153.1_3'UTR	NM_003291.2	NP_003282.2	P29144	TPP2_HUMAN	tripeptidyl peptidase II	1215					antigen processing and presentation of peptide antigen via MHC class I (GO:0002474)|protein polyubiquitination (GO:0000209)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)	aminopeptidase activity (GO:0004177)|endopeptidase activity (GO:0004175)|serine-type endopeptidase activity (GO:0004252)|tripeptidyl-peptidase activity (GO:0008240)			breast(2)|endometrium(5)|kidney(2)|large_intestine(12)|lung(21)|ovary(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	52	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AAGAAAACTGGAAAAATTGTA	0.303																																																0													56	60	58					13																	103328750		2201	4290	6491	SO:0001583	missense	7174			M55169	CCDS9502.1	13q32-q33	2008-02-05			ENSG00000134900	ENSG00000134900	3.4.14.10		12016	protein-coding gene	gene with protein product		190470				1670990	Standard	NM_003291		Approved		uc001vpi.4	P29144	OTTHUMG00000017305	ENST00000376065.4:c.3645G>T	13.37:g.103328750G>T	ENSP00000365233:p.Trp1215Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VZU8	Missense_Mutation	SNP	ENST00000376065.4	37	CCDS9502.1	.	.	.	.	.	.	.	.	.	.	G	12.28	1.891078	0.33348	.	.	ENSG00000134900	ENST00000376065;ENST00000376052	.	.	.	5.8	5.8	0.92144	.	0.162876	0.56097	D	0.000022	T	0.39733	0.1089	N	0.22421	0.69	0.80722	D	1	P	0.41748	0.761	B	0.37780	0.258	T	0.28073	-1.0055	9	0.38643	T	0.18	.	15.1747	0.72901	0.0692:0.0:0.9308:0.0	.	1215	P29144	TPP2_HUMAN	C	1215;1228	.	ENSP00000365220:W1228C	W	+	3	0	TPP2	102126751	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	5.923000	0.70045	2.746000	0.94184	0.563000	0.77884	TGG		0.303	TPP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045683.2			T	103328750	G	T	103328750	3	4	698	1	0	0	0	0	1	0	0	0	16424	1183	41	4	3755	4	TPP2	13	103328750	Missense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	56382472	103328750	11841128	75	45725										
IRS2	8660	hgsc.bcm.edu	37	chr13	110435073	110435073	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tcccgacacctgctccatgaGgctcagcctcttcacgcccg	8	19	3	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr13:110435073G>A	ENST00000375856.3	-	1	3842	c.3328C>T	c.(3328-3330)Ctc>Ttc	p.L1110F		NM_003749.2	NP_003740.2	Q9Y4H2	IRS2_HUMAN	insulin receptor substrate 2	1110					brain development (GO:0007420)|cell proliferation (GO:0008283)|cellular response to glucose stimulus (GO:0071333)|cellular response to insulin stimulus (GO:0032869)|epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|glucose metabolic process (GO:0006006)|innate immune response (GO:0045087)|insulin receptor signaling pathway (GO:0008286)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|lipid homeostasis (GO:0055088)|mammary gland development (GO:0030879)|negative regulation of B cell apoptotic process (GO:0002903)|negative regulation of kinase activity (GO:0033673)|negative regulation of plasma membrane long-chain fatty acid transport (GO:0010748)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphatidylinositol-mediated signaling (GO:0048015)|positive regulation of B cell proliferation (GO:0030890)|positive regulation of cell migration (GO:0030335)|positive regulation of cell proliferation (GO:0008284)|positive regulation of fatty acid beta-oxidation (GO:0032000)|positive regulation of glucose import (GO:0046326)|positive regulation of glucose metabolic process (GO:0010907)|positive regulation of glycogen biosynthetic process (GO:0045725)|positive regulation of insulin secretion (GO:0032024)|positive regulation of mesenchymal cell proliferation (GO:0002053)|regulation of lipid metabolic process (GO:0019216)|response to glucose (GO:0009749)|signal transduction (GO:0007165)	cytosol (GO:0005829)|plasma membrane (GO:0005886)	signal transducer activity (GO:0004871)			kidney(2)|large_intestine(2)|lung(8)|ovary(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)	19	all_cancers(4;7.57e-15)|all_epithelial(4;5.91e-09)|all_lung(23;7.64e-07)|Lung NSC(43;0.000183)|Colorectal(4;0.00159)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0155)	Breast(118;0.159)	all cancers(43;0.00815)|BRCA - Breast invasive adenocarcinoma(86;0.11)|Epithelial(84;0.127)|GBM - Glioblastoma multiforme(44;0.147)			TGCTCCATGAGGCTCAGCCTC	0.731																																					Melanoma(100;613 2409 40847)											0													5	6	6					13																	110435073		2027	4070	6097	SO:0001583	missense	8660			AB000732	CCDS9510.1	13q34	2013-01-10			ENSG00000185950	ENSG00000185950		"Pleckstrin homology (PH) domain containing"	6126	protein-coding gene	gene with protein product		600797				9312143	Standard	NM_003749		Approved		uc001vqv.3	Q9Y4H2	OTTHUMG00000017338	ENST00000375856.3:c.3328C>T	13.37:g.110435073G>A	ENSP00000365016:p.Leu1110Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q96RR2|Q9BZG0|Q9Y6I5	Missense_Mutation	SNP	ENST00000375856.3	37	CCDS9510.1	.	.	.	.	.	.	.	.	.	.	G	11.01	1.514438	0.27123	.	.	ENSG00000185950	ENST00000375856	T	0.46063	0.88	3.92	2.96	0.34315	.	0.608901	0.14485	U	0.316713	T	0.58323	0.2114	M	0.64404	1.975	0.36281	D	0.855788	D	0.76494	0.999	D	0.75484	0.986	T	0.62324	-0.6878	10	0.35671	T	0.21	-24.5425	12.0667	0.53592	0.1011:0.0:0.8989:0.0	.	1110	Q9Y4H2	IRS2_HUMAN	F	1110	ENSP00000365016:L1110F	ENSP00000365016:L1110F	L	-	1	0	IRS2	109233074	1.000000	0.71417	0.997000	0.53966	0.010000	0.07245	3.062000	0.49971	2.039000	0.60335	0.644000	0.83932	CTC		0.731	IRS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045755.1	NM_003749		A	110435073	G	A	110435073	3	1	698	1	0	0	0	0	1	0	0	0	7848	1000	35	2	696	2	IRS2	13	110435073	Missense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	7106323	110435073	4734805	76	45726										
C14orf145	145508	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	81251281	81251284	+	Frame_Shift_Del	DEL	CTTA	CTTA	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tcagcctcactcttttctttCttaaagtgcttcataagctc							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	CTTA	CTTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr14:81251281_81251284delCTTA	ENST00000555265.1	-	15	2541_2544	c.2166_2169delTAAG	c.(2164-2169)tttaagfs	p.FK722fs	CEP128_ENST00000281129.3_Frame_Shift_Del_p.FK722fs			Q6ZU80	CE128_HUMAN	centrosomal protein 128kDa	722						centriole (GO:0005814)|cytoplasm (GO:0005737)|microtubule organizing center (GO:0005815)|spindle pole (GO:0000922)				NS(1)|breast(3)|central_nervous_system(2)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|lung(22)|ovary(2)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	51						TCTTTTCTTTCTTAAAGTGCTTCA	0.412																																																0																																										SO:0001589	frameshift_variant	145508			AK056756	CCDS32130.1	14q31.1	2014-02-20	2011-05-06	2011-05-06	ENSG00000100629	ENSG00000100629			20359	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 61", "chromosome 14 open reading frame 145"	C14orf61, C14orf145		21399614	Standard	NM_152446		Approved		uc001xux.2	Q6ZU80		ENST00000555265.1:c.2166_2169delTAAG	14.37:g.81251281_81251284delCTTA	ENSP00000451162:p.Phe722fs	Somatic		WXS	Illumina HiSeq	Phase_I	B9EK52|Q86X97|Q96ML4	Frame_Shift_Del	DEL	ENST00000555265.1	37	CCDS32130.1																																																																																				0.412	CEP128-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413415.1	NM_152446		-	81251284	CTTA	-	81251281	7	5	698	1	0	1	0	1	0	0	0	0	1751	912	32	0	1159	0	C14orf145	14	81251281	Frame_Shift_Del	DEL	CTTA	TCGA-P4-A5EA-01A-11D-A28G-10		81251281	26098259	77	45727										
KIAA1409	57578	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	94052953	94052953	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tcttcacagcagtaaagaatGataccgaaagaaaattttgc	7	7	2	3			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr14:94052953G>C	ENST00000393151.2	+	21	2815	c.2815G>C	c.(2815-2817)Gat>Cat	p.D939H	UNC79_ENST00000553484.1_Missense_Mutation_p.D939H|UNC79_ENST00000555664.1_Missense_Mutation_p.D939H|UNC79_ENST00000256339.4_Missense_Mutation_p.D762H			Q9P2D8	UNC79_HUMAN	unc-79 homolog (C. elegans)	939					behavioral response to ethanol (GO:0048149)|ion transmembrane transport (GO:0034220)|multicellular organism growth (GO:0035264)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(3)|cervix(2)|endometrium(10)|kidney(7)|large_intestine(18)|liver(1)|lung(64)|ovary(1)|prostate(5)|skin(3)|urinary_tract(4)	118						AGTAAAGAATGATACCGAAAG	0.333																																																0													51	51	51					14																	94052953		2202	4299	6501	SO:0001583	missense	57578			AB037830	CCDS9911.2	14q32.13	2011-08-18	2011-08-18	2011-08-18	ENSG00000133958	ENSG00000133958			19966	protein-coding gene	gene with protein product			"KIAA1409"	KIAA1409		20714347, 21040849	Standard	NM_020818		Approved		uc001ybs.1	Q9P2D8	OTTHUMG00000029783	ENST00000393151.2:c.2815G>C	14.37:g.94052953G>C	ENSP00000376858:p.Asp939His	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDL6|Q6ZUT7	Missense_Mutation	SNP	ENST00000393151.2	37		.	.	.	.	.	.	.	.	.	.	G	19.14	3.769262	0.69992	.	.	ENSG00000133958	ENST00000256339;ENST00000555664;ENST00000553484;ENST00000393151;ENST00000393153	T;T;T;T	0.18810	2.2;2.2;2.19;2.2	5.94	5.94	0.96194	.	0.110277	0.64402	D	0.000009	T	0.33235	0.0856	L	0.34521	1.04	0.42647	D	0.99343	D	0.57571	0.98	P	0.55965	0.788	T	0.00860	-1.1537	10	0.51188	T	0.08	-21.7402	20.3736	0.98901	0.0:0.0:1.0:0.0	.	939	C9JQL1	.	H	762;939;939;939;939	ENSP00000256339:D762H;ENSP00000450868:D939H;ENSP00000451360:D939H;ENSP00000376858:D939H	ENSP00000256339:D762H	D	+	1	0	KIAA1409	93122706	1.000000	0.71417	1.000000	0.80357	0.982000	0.71751	7.130000	0.77235	2.820000	0.97059	0.650000	0.86243	GAT		0.333	UNC79-006	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000412766.1	XM_028395		C	94052953	G	C	94052953	3	2	698	1	0	0	0	0	1	0	0	0	8237	1290	45	4	2354	4	KIAA1409	14	94052953	Missense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	12801672	94052953	13296587	78	45728										
GLCE	26035	hgsc.bcm.edu;bcgsc.ca	37	chr15	69553563	69553564	+	Frame_Shift_Del	DEL	AG	AG	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tatatgaaacagcagaagacAgagacaaaaacaagcctaat							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr15:69553563_69553564delAG	ENST00000261858.2	+	4	952_953	c.724_725delAG	c.(724-726)agafs	p.R242fs	GLCE_ENST00000559500.1_3'UTR|GLCE_ENST00000559420.2_Frame_Shift_Del_p.R178fs	NM_015554.1	NP_056369.1	O94923	GLCE_HUMAN	glucuronic acid epimerase	242					carbohydrate metabolic process (GO:0005975)|glycosaminoglycan biosynthetic process (GO:0006024)|glycosaminoglycan metabolic process (GO:0030203)|heparan sulfate proteoglycan biosynthetic process (GO:0015012)|heparin biosynthetic process (GO:0030210)|small molecule metabolic process (GO:0044281)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	heparosan-N-sulfate-glucuronate 5-epimerase activity (GO:0047464)|racemase and epimerase activity, acting on carbohydrates and derivatives (GO:0016857)|UDP-glucuronate 5'-epimerase activity (GO:0050379)	p.R242K(1)		NS(1)|breast(1)|kidney(2)|large_intestine(6)|lung(4)|ovary(2)|prostate(1)|upper_aerodigestive_tract(1)	18						AGCAGAAGACAGAGACAAAAAC	0.401																																																1	Substitution - Missense(1)	upper_aerodigestive_tract(1)																																								SO:0001589	frameshift_variant	26035			AB020643	CCDS32277.1	15q23	2007-01-30	2007-01-30			ENSG00000138604	5.1.3.12		17855	protein-coding gene	gene with protein product	"heparan sulfate epimerase"	612134	"D-glucuronyl C5-epimerase", "UDP-glucuronic acid epimerase"			15853773	Standard	NM_015554		Approved	KIAA0836, HSEPI	uc002ary.1	O94923		ENST00000261858.2:c.724_725delAG	15.37:g.69553565_69553566delAG	ENSP00000261858:p.Arg242fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q6GUQ2	Frame_Shift_Del	DEL	ENST00000261858.2	37	CCDS32277.1																																																																																				0.401	GLCE-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding		NM_015554		-	69553564	AG	-	69553563	7	5	698	1	0	1	0	1	0	0	0	0	6439	180	7	0	730	0	GLCE	15	69553563	Frame_Shift_Del	DEL	AG	TCGA-P4-A5EA-01A-11D-A28G-10		69553563	32977829	79	45729										
C15orf39	56905	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr15	75500838	75500838	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gtgtgcaggggctgctggccAagctgctgtctcagctgcag	16	11	1	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr15:75500838A>G	ENST00000360639.2	+	2	2769	c.2449A>G	c.(2449-2451)Aag>Gag	p.K817E	RP11-69H7.3_ENST00000563568.1_RNA|C15orf39_ENST00000567617.1_Missense_Mutation_p.K817E|C15orf39_ENST00000394987.4_Missense_Mutation_p.K817E			Q6ZRI6	CO039_HUMAN	chromosome 15 open reading frame 39	817						cytoplasm (GO:0005737)				autonomic_ganglia(1)|breast(2)|endometrium(3)|large_intestine(4)|lung(4)|skin(1)|upper_aerodigestive_tract(1)	16						GCTGCTGGCCAAGCTGCTGTC	0.667																																																0													22	18	19					15																	75500838		2188	4288	6476	SO:0001583	missense	56905			AK128205	CCDS10276.1	15q23	2013-03-14	2005-10-24		ENSG00000167173	ENSG00000167173			24497	protein-coding gene	gene with protein product			"chromosome 15 open reading frame 38~Name Same As HGNC:28782"				Standard	NM_015492		Approved	DKFZP434H132, FLJ46337	uc002azq.4	Q6ZRI6	OTTHUMG00000142820	ENST00000360639.2:c.2449A>G	15.37:g.75500838A>G	ENSP00000353854:p.Lys817Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWI3|C9J888|Q71JB1|Q7L3S0|Q8N3F2|Q96FB6|Q9NTU5	Missense_Mutation	SNP	ENST00000360639.2	37	CCDS10276.1	.	.	.	.	.	.	.	.	.	.	A	7.085	0.571051	0.13623	.	.	ENSG00000167173	ENST00000360639;ENST00000394987;ENST00000446981	T;T	0.16324	2.35;2.35	5.07	1.05	0.20165	.	0.591269	0.18433	N	0.141368	T	0.12178	0.0296	L	0.45581	1.43	0.09310	N	0.999999	B;P	0.37370	0.234;0.592	B;B	0.34652	0.14;0.187	T	0.14062	-1.0486	10	0.46703	T	0.11	-8.4875	4.778	0.13189	0.5116:0.3589:0.1295:0.0	.	379;817	Q2VPA3;Q6ZRI6	.;CO039_HUMAN	E	817;817;215	ENSP00000353854:K817E;ENSP00000378438:K817E	ENSP00000353854:K817E	K	+	1	0	C15orf39	73287891	0.993000	0.37304	0.863000	0.33907	0.025000	0.11179	2.862000	0.48388	0.735000	0.32537	0.459000	0.35465	AAG		0.667	C15orf39-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286410.1	NM_015492		G	75500838	A	G	75500838	3	3	698	1	0	0	0	0	1	0	0	0	1795	131	5	3	2451	3	C15orf39	15	75500838	Missense_Mutation	SNP	A	TCGA-P4-A5EA-01A-11D-A28G-10	5947275	75500838	27030554	80	45730										
UBE2I	7329	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	1370453	1370453	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gcacagatcctattaggaatAcaggaacttctaaatgaacc	7	9	1	2			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr16:1370453A>G	ENST00000355803.4	+	6	899	c.348A>G	c.(346-348)atA>atG	p.I116M	UBE2I_ENST00000397515.2_Missense_Mutation_p.I116M|LA16c-358B7.3_ENST00000567829.1_RNA|UBE2I_ENST00000397514.3_Missense_Mutation_p.I116M|UBE2I_ENST00000402301.1_Missense_Mutation_p.I116M|UBE2I_ENST00000403747.2_Missense_Mutation_p.I116M|LA16c-358B7.3_ENST00000568106.1_RNA|UBE2I_ENST00000566587.1_Missense_Mutation_p.I116M|UBE2I_ENST00000325437.5_Missense_Mutation_p.I116M|UBE2I_ENST00000406620.1_Missense_Mutation_p.I116M	NM_194260.2	NP_919236.1	P63279	UBC9_HUMAN	ubiquitin-conjugating enzyme E2I	116					cellular protein metabolic process (GO:0044267)|cellular protein modification process (GO:0006464)|chromosome segregation (GO:0007059)|mitotic nuclear division (GO:0007067)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of intracellular steroid hormone receptor signaling pathway (GO:0033145)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|post-translational protein modification (GO:0043687)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein sumoylation (GO:0016925)|regulation of receptor activity (GO:0010469)|ubiquitin-dependent protein catabolic process (GO:0006511)|viral process (GO:0016032)	cytoplasm (GO:0005737)|dendrite (GO:0030425)|fibrillar center (GO:0001650)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|synapse (GO:0045202)|synaptonemal complex (GO:0000795)	ATP binding (GO:0005524)|enzyme binding (GO:0019899)|poly(A) RNA binding (GO:0044822)|RING-like zinc finger domain binding (GO:0071535)|SUMO ligase activity (GO:0019789)|transcription factor binding (GO:0008134)|ubiquitin-protein transferase activity (GO:0004842)			breast(1)|large_intestine(2)|skin(1)|upper_aerodigestive_tract(1)	5		Hepatocellular(780;0.00369)				TATTAGGAATACAGGAACTTC	0.512																																																0													96	95	95					16																	1370453		2199	4300	6499	SO:0001583	missense	7329			D45050	CCDS10433.1	16p13.3	2011-05-19	2011-05-19		ENSG00000103275	ENSG00000103275	6.3.2.19	"Ubiquitin-conjugating enzymes E2"	12485	protein-coding gene	gene with protein product		601661	"ubiquitin-conjugating enzyme E2I (homologous to yeast UBC9)", "ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast)"			8565643	Standard	NM_003345		Approved	UBC9	uc002cld.2	P63279	OTTHUMG00000047845	ENST00000355803.4:c.348A>G	16.37:g.1370453A>G	ENSP00000348056:p.Ile116Met	Somatic		WXS	Illumina HiSeq	Phase_I	D3DU69|P50550|Q15698|Q59GX1|Q86VB3	Missense_Mutation	SNP	ENST00000355803.4	37	CCDS10433.1	.	.	.	.	.	.	.	.	.	.	A	16.92	3.254235	0.59212	.	.	ENSG00000103275	ENST00000325437;ENST00000355803;ENST00000397514;ENST00000397515;ENST00000406620;ENST00000403747;ENST00000402301	T;T;T;T;T;T;T	0.49139	0.79;0.79;0.79;0.79;0.79;0.79;0.79	5.13	2.85	0.33270	Ubiquitin-conjugating enzyme, E2 (2);Ubiquitin-conjugating enzyme/RWD-like (2);	0.000000	0.85682	D	0.000000	T	0.64427	0.2597	H	0.96805	3.885	0.80722	D	1	P;B	0.49961	0.93;0.326	P;B	0.47827	0.558;0.342	T	0.67856	-0.5562	10	0.87932	D	0	.	6.5449	0.22400	0.686:0.1604:0.0:0.1536	.	116;116	B0QYN7;P63279	.;UBC9_HUMAN	M	116	ENSP00000324897:I116M;ENSP00000348056:I116M;ENSP00000380649:I116M;ENSP00000380650:I116M;ENSP00000384568:I116M;ENSP00000385009:I116M;ENSP00000384361:I116M	ENSP00000324897:I116M	I	+	3	3	UBE2I	1310454	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	1.052000	0.30429	0.406000	0.25560	0.459000	0.35465	ATA		0.512	UBE2I-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250317.2	NM_003345		G	1370453	A	G	1370453	3	3	698	1	0	0	0	0	1	0	0	0	16871	381	14	3	366	3	UBE2I	16	1370453	Missense_Mutation	SNP	A	TCGA-P4-A5EA-01A-11D-A28G-10		1370453	88984300	81	45731										
CREBBP	1387	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	3817823	3817823	+	Nonsense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tttcacttcaggtttcttttCatccacttccattggttctg	5	11	5	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr16:3817823C>A	ENST00000262367.5	-	16	3957	c.3148G>T	c.(3148-3150)Gaa>Taa	p.E1050*	CREBBP_ENST00000382070.3_Nonsense_Mutation_p.E1012*	NM_004380.2	NP_004371.2	Q92793	CBP_HUMAN	CREB binding protein	1050					cellular lipid metabolic process (GO:0044255)|cellular response to hypoxia (GO:0071456)|chromatin organization (GO:0006325)|embryonic digit morphogenesis (GO:0042733)|gene expression (GO:0010467)|germ-line stem cell maintenance (GO:0030718)|histone acetylation (GO:0016573)|homeostatic process (GO:0042592)|innate immune response (GO:0045087)|N-terminal peptidyl-lysine acetylation (GO:0018076)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of type I interferon production (GO:0032481)|protein complex assembly (GO:0006461)|regulation of smoothened signaling pathway (GO:0008589)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of transcription, DNA-templated (GO:0006355)|response to hypoxia (GO:0001666)|rhythmic process (GO:0048511)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	condensed chromosome outer kinetochore (GO:0000940)|cytoplasm (GO:0005737)|histone acetyltransferase complex (GO:0000123)|nuclear body (GO:0016604)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	acetyltransferase activity (GO:0016407)|chromatin binding (GO:0003682)|core promoter proximal region sequence-specific DNA binding (GO:0000987)|histone acetyltransferase activity (GO:0004402)|MRF binding (GO:0043426)|p53 binding (GO:0002039)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II transcription coactivator activity (GO:0001105)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			NS(1)|breast(5)|central_nervous_system(4)|cervix(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(125)|kidney(5)|large_intestine(32)|lung(43)|ovary(18)|pancreas(2)|prostate(6)|skin(9)|soft_tissue(1)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(21)	295		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		GGTTTCTTTTCATCCACTTCC	0.433			"T, N, F, Mis, O"	"MLL, MORF, RUNXBP2"	"ALL, AML, DLBCL, B-NHL "		Rubinstein-Taybi syndrome																																Dom/Rec	yes		16	16p13.3	1387	CREB binding protein (CBP)	yes	L	0													250	223	232					16																	3817823		2197	4300	6497	SO:0001587	stop_gained	1387			U85962	CCDS10509.1, CCDS45399.1	16p13.3	2011-07-01	2008-08-01		ENSG00000005339	ENSG00000005339		"Chromatin-modifying enzymes / K-acetyltransferases"	2348	protein-coding gene	gene with protein product		600140	"Rubinstein-Taybi syndrome"	RSTS		8413673	Standard	NM_001079846		Approved	RTS, CBP, KAT3A	uc002cvv.3	Q92793	OTTHUMG00000129431	ENST00000262367.5:c.3148G>T	16.37:g.3817823C>A	ENSP00000262367:p.Glu1050*	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUC9|O00147|Q16376|Q4LE28	Nonsense_Mutation	SNP	ENST00000262367.5	37	CCDS10509.1	.	.	.	.	.	.	.	.	.	.	C	49	15.549454	0.99837	.	.	ENSG00000005339	ENST00000262367;ENST00000543883;ENST00000382070	.	.	.	5.61	5.61	0.85477	.	0.069937	0.64402	D	0.000018	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.31617	T	0.26	-12.7639	20.0086	0.97443	0.0:1.0:0.0:0.0	.	.	.	.	X	1050;1080;1012	.	ENSP00000262367:E1050X	E	-	1	0	CREBBP	3757824	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	5.451000	0.66632	2.808000	0.96608	0.655000	0.94253	GAA		0.433	CREBBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251591.2	NM_004380		A	3817823	C	A	3817823	4	1	698	1	0	0	0	0	0	1	0	0	3863	835	29	4	4244	4	CREBBP	16	3817823	Nonsense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	2447370	3817823	86536930	82	45732										
SRCAP	10847	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	30744761	30744761	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gatggatctactagagttgaAcagagacaggtaacccaggt	12	7	1	3			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr16:30744761A>G	ENST00000262518.4	+	28	6673	c.6288A>G	c.(6286-6288)gaA>gaG	p.E2096E	SRCAP_ENST00000395059.2_Silent_p.E2034E|SRCAP_ENST00000344771.4_Silent_p.E1938E	NM_006662.2	NP_006653.2	Q6ZRS2	SRCAP_HUMAN	Snf2-related CREBBP activator protein	2096	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				histone acetylation (GO:0016573)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|protein complex (GO:0043234)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|histone acetyltransferase activity (GO:0004402)|transcription coactivator activity (GO:0003713)			NS(1)|breast(3)|cervix(3)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(22)|liver(3)|lung(62)|ovary(6)|pancreas(1)|prostate(4)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(5)	136			Colorectal(24;0.198)			CTAGAGTTGAACAGAGACAGG	0.527																																																0													82	72	75					16																	30744761		2197	4300	6497	SO:0001819	synonymous_variant	10847			AB002307	CCDS10689.2	16p11.2	2009-08-06			ENSG00000080603	ENSG00000080603			16974	protein-coding gene	gene with protein product	"Swi2/Snf2-related ATPase homolog (S. cerevisiae)", "domino homolog 1 (Drosophila)"	611421				10347196, 9205841	Standard	NM_006662		Approved	KIAA0309, EAF1, SWR1, DOMO1	uc002dze.1	Q6ZRS2	OTTHUMG00000132393	ENST00000262518.4:c.6288A>G	16.37:g.30744761A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B0JZA6|O15026|Q7Z744|Q9Y5L9	Silent	SNP	ENST00000262518.4	37	CCDS10689.2																																																																																				0.527	SRCAP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255523.1	NM_006662		G	30744761	A	G	30744761	2	3	698	1	0	0	0	0	0	0	0	1	15147	40	2	3		3	SRCAP	16	30744761	Silent	SNP	A	TCGA-P4-A5EA-01A-11D-A28G-10	26926938	30744761	59609992	83	45733										
CDH8	1006	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	61823266	61823266	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ttactaatttcagtagcaatGattgttatgttgtgccatac	7	6	1	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr16:61823266G>C	ENST00000577390.1	-	8	2352	c.1398C>G	c.(1396-1398)atC>atG	p.I466M	CDH8_ENST00000299345.6_Missense_Mutation_p.I466M|CDH8_ENST00000584337.1_Missense_Mutation_p.I466M|CDH8_ENST00000577730.1_Missense_Mutation_p.I466M	NM_001796.4	NP_001787.2	P55286	CADH8_HUMAN	cadherin 8, type 2	466	Cadherin 4. {ECO:0000255|PROSITE- ProRule:PRU00043}.				adherens junction organization (GO:0034332)|cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|homophilic cell adhesion (GO:0007156)|response to cold (GO:0009409)|synaptic transmission, glutamatergic (GO:0035249)	axon terminus (GO:0043679)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|synaptic cleft (GO:0043083)	calcium ion binding (GO:0005509)			biliary_tract(1)|breast(3)|cervix(1)|endometrium(7)|kidney(6)|large_intestine(22)|liver(2)|lung(49)|ovary(6)|pancreas(2)|prostate(5)|skin(4)|urinary_tract(4)	112		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)		CAGTAGCAATGATTGTTATGT	0.403																																																0													234	196	209					16																	61823266		2203	4300	6503	SO:0001583	missense	1006			L34060	CCDS10802.1	16q22.1	2010-01-26			ENSG00000150394	ENSG00000150394		"Cadherins / Major cadherins"	1767	protein-coding gene	gene with protein product		603008				9615235, 2059658	Standard	NM_001796		Approved		uc002eog.2	P55286	OTTHUMG00000137493	ENST00000577390.1:c.1398C>G	16.37:g.61823266G>C	ENSP00000462701:p.Ile466Met	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWC1|Q14DC6|Q9ULB2	Missense_Mutation	SNP	ENST00000577390.1	37	CCDS10802.1	.	.	.	.	.	.	.	.	.	.	G	12.69	2.012887	0.35511	.	.	ENSG00000150394	ENST00000299345	T	0.68025	-0.3	5.44	5.44	0.79542	Cadherin (4);Cadherin-like (1);	0.056358	0.64402	D	0.000001	T	0.70404	0.3220	M	0.77486	2.375	0.36180	D	0.849374	B;B	0.26845	0.001;0.161	B;B	0.39152	0.01;0.292	T	0.76454	-0.2953	10	0.87932	D	0	.	7.413	0.27027	0.2018:0.0:0.7982:0.0	.	282;466	Q3LID3;P55286	.;CADH8_HUMAN	M	466	ENSP00000299345:I466M	ENSP00000299345:I466M	I	-	3	3	CDH8	60380767	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	2.084000	0.41625	2.716000	0.92895	0.491000	0.48974	ATC		0.403	CDH8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268754.3	NM_001796		C	61823266	G	C	61823266	3	2	698	1	0	0	0	0	1	0	0	0	3118	1280	45	4	1021	4	CDH8	16	61823266	Missense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	31078505	61823266	28531487	84	45734										
PKD1L2	114780	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	81197248	81197248	+	RNA	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tcacaggtatgagttgaccaCtagggctggtcacacggagg	14	9	2	2	rs200120814		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr16:81197248C>T	ENST00000525539.1	-	0	3433				PKD1L2_ENST00000533478.1_RNA	NM_052892.3	NP_443124.3	Q7Z442	PK1L2_HUMAN	polycystic kidney disease 1-like 2						ion transport (GO:0006811)|neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)	calcium ion binding (GO:0005509)|carbohydrate binding (GO:0030246)			breast(2)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(9)|lung(20)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	44						GAGTTGACCACTAGGGCTGGT	0.532																																																0								C	ASN/SER	0,3888		0,0,1944	52	49	50		3434	2.1	0.5	16		50	2,8290		0,2,4144	yes	missense	PKD1L2	NM_052892.3	46	0,2,6088	TT,TC,CC		0.0241,0.0,0.0164	benign	1145/2460	81197248	2,12178	1944	4146	6090			114780			AY164483	CCDS61998.1, CCDS61999.1	16q23.2	2014-09-11			ENSG00000166473	ENSG00000166473			21715	protein-coding gene	gene with protein product		607894				12782129	Standard	NM_052892		Approved	KIAA1879	uc002fgf.1	Q7Z442	OTTHUMG00000166126		16.37:g.81197248C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UEE1|Q6ZN46|Q6ZSP2|Q8N1H9|Q96CL2|Q96Q08	Missense_Mutation	SNP	ENST00000525539.1	37																																																																																					0.532	PKD1L2-001	KNOWN	non_canonical_polymorphism|basic	polymorphic_pseudogene	polymorphic_pseudogene	OTTHUMT00000387972.2			T	81197248	C	T	81197248	1	4	698	0	1	0	0	0	0	0	0	0	11972	565	20	2		2	PKD1L2	16	81197248	RNA	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	19373982	81197248	9157505	85	45735										
SPIRE2	84501	broad.mit.edu;bcgsc.ca	37	chr16	89924825	89924826	+	Frame_Shift_Del	DEL	AG	AG	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tgcatcaacctgtcagtcacAgatgctgggggcagcgccca							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr16:89924825_89924826delAG	ENST00000378247.3	+	8	1225_1226	c.1182_1183delAG	c.(1180-1185)acagatfs	p.D395fs	SPIRE2_ENST00000393062.2_Frame_Shift_Del_p.D395fs	NM_032451.1	NP_115827.1	Q8WWL2	SPIR2_HUMAN	spire-type actin nucleation factor 2	395					actin cytoskeleton organization (GO:0030036)|cleavage furrow formation (GO:0036089)|establishment of meiotic spindle localization (GO:0051295)|formin-nucleated actin cable assembly (GO:0070649)|intracellular transport (GO:0046907)|polar body extrusion after meiotic divisions (GO:0040038)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	cell cortex (GO:0005938)|cleavage furrow (GO:0032154)|cytoplasmic vesicle membrane (GO:0030659)|cytoskeleton (GO:0005856)|plasma membrane (GO:0005886)				central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(1)|lung(10)|upper_aerodigestive_tract(2)|urinary_tract(1)	21		Lung NSC(15;5.15e-06)|all_lung(18;8.38e-06)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0286)		TGTCAGTCACAGATGCTGGGGG	0.629																																																0																																										SO:0001589	frameshift_variant	84501			AL834408	CCDS32516.1	16q24	2013-08-27	2013-08-27			ENSG00000204991			30623	protein-coding gene	gene with protein product		609217	"spire homolog 2 (Drosophila)", "spire family actin nucleation factor 2"			11347906	Standard	NM_032451		Approved	spir-2, KIAA1832	uc002foz.1	Q8WWL2		ENST00000378247.3:c.1182_1183delAG	16.37:g.89924825_89924826delAG	ENSP00000367494:p.Asp395fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4QPB1|Q2TA98|Q6P433|Q8ND47|Q96JJ5	Frame_Shift_Del	DEL	ENST00000378247.3	37	CCDS32516.1																																																																																				0.629	SPIRE2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000421843.1	XM_047462		-	89924826	AG	-	89924825	7	5	698	1	0	1	0	1	0	0	0	0	15084	175	7	0	1212	0	SPIRE2	16	89924825	Frame_Shift_Del	DEL	AG	TCGA-P4-A5EA-01A-11D-A28G-10	8727577	89924825	429928	86	45736										
RPH3AL	9501	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	131631	131631	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ggggaggcctcgatcccacaTttggtgcagactttctacaa	11	11	1	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr17:131631T>A	ENST00000331302.7	-	6	673	c.366A>T	c.(364-366)aaA>aaT	p.K122N	RPH3AL_ENST00000576001.1_5'UTR|RPH3AL_ENST00000323434.8_Intron|RPH3AL_ENST00000536489.2_Intron	NM_001190411.1|NM_006987.3	NP_001177340.1|NP_008918.1	Q9UNE2	RPH3L_HUMAN	rabphilin 3A-like (without C2 domains)	122	RabBD. {ECO:0000255|PROSITE- ProRule:PRU00234}.				exocytosis (GO:0006887)|glucose homeostasis (GO:0042593)|intracellular protein transport (GO:0006886)|negative regulation of G-protein coupled receptor protein signaling pathway (GO:0045744)|positive regulation of protein secretion (GO:0050714)|regulation of calcium ion-dependent exocytosis (GO:0017158)|response to drug (GO:0042493)	cytoplasm (GO:0005737)|secretory granule membrane (GO:0030667)	cytoskeletal protein binding (GO:0008092)|metal ion binding (GO:0046872)			NS(2)|breast(1)|kidney(1)|large_intestine(1)|skin(1)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.023)|all cancers(1;4.96e-06)|Epithelial(1;2.86e-05)|BRCA - Breast invasive adenocarcinoma(1;0.00453)|OV - Ovarian serous cystadenocarcinoma(1;0.0716)|LUAD - Lung adenocarcinoma(1115;0.102)|COAD - Colon adenocarcinoma(4;0.107)		CGATCCCACATTTGGTGCAGA	0.587																																																0													81	81	81					17																	131631		2203	4300	6503	SO:0001583	missense	9501				CCDS10994.1, CCDS54059.1	17p13.3	2014-07-02			ENSG00000181031	ENSG00000181031		"Synaptotagmins"	10296	protein-coding gene	gene with protein product		604881				10395805	Standard	NM_006987		Approved	Noc2	uc021tmx.1	Q9UNE2	OTTHUMG00000090273	ENST00000331302.7:c.366A>T	17.37:g.131631T>A	ENSP00000328977:p.Lys122Asn	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTG7|Q9BSB3	Missense_Mutation	SNP	ENST00000331302.7	37	CCDS10994.1	.	.	.	.	.	.	.	.	.	.	T	15.21	2.767130	0.49574	.	.	ENSG00000181031	ENST00000323434	.	.	.	5.02	-8.63	0.00878	Zinc finger, RING/FYVE/PHD-type (1);Rab-binding domain (1);Zinc finger, FYVE-related (1);Zinc finger, FYVE/PHD-type (1);	0.000000	0.64402	D	0.000008	T	0.71426	0.3338	M	0.70903	2.155	0.80722	D	1	D	0.76494	0.999	D	0.74023	0.982	T	0.82818	-0.0269	9	0.87932	D	0	-14.7906	16.2241	0.82283	0.0:0.5791:0.0:0.4208	.	122	Q9UNE2	RPH3L_HUMAN	N	122	.	ENSP00000319210:K122N	K	-	3	2	RPH3AL	131631	0.328000	0.24687	0.618000	0.29105	0.943000	0.58893	-0.811000	0.04500	-2.189000	0.00758	-1.660000	0.00751	AAA		0.587	RPH3AL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206597.2	NM_006987		A	131631	T	A	131631	3	1	698	1	0	0	0	0	1	0	0	0	13565	1490	52	5	601	5	RPH3AL	17	131631	Missense_Mutation	SNP	T	TCGA-P4-A5EA-01A-11D-A28G-10		131631	81063579	87	45737										
TRPV3	162514	broad.mit.edu	37	chr17	3438998	3438998	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gctcgatggcgatgttcagcGccgtctgccctgcggagcgg	16	13	2	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr17:3438998G>T	ENST00000576742.1	-	7	974	c.653C>A	c.(652-654)gCg>gAg	p.A218E	TRPV3_ENST00000301365.4_Missense_Mutation_p.A218E|TRPV3_ENST00000572519.1_Missense_Mutation_p.A218E	NM_001258205.1|NM_145068.3	NP_001245134.1|NP_659505.1	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel, subfamily V, member 3	218					calcium ion transmembrane transport (GO:0070588)|ion transmembrane transport (GO:0034220)|negative regulation of hair cycle (GO:0042636)|positive regulation of calcium ion import (GO:0090280)|response to heat (GO:0009408)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	calcium channel activity (GO:0005262)			breast(1)|endometrium(4)|kidney(1)|large_intestine(6)|lung(12)|ovary(5)|prostate(1)|skin(2)|stomach(1)|urinary_tract(2)	35					Menthol(DB00825)	GATGTTCAGCGCCGTCTGCCC	0.736																																																0													8	9	9					17																	3438998		2163	4231	6394	SO:0001583	missense	162514			AF514998	CCDS11029.1, CCDS58500.1	17p13.3	2013-01-10			ENSG00000167723	ENSG00000167723		"Voltage-gated ion channels / Transient receptor potential cation channels", "Ankyrin repeat domain containing"	18084	protein-coding gene	gene with protein product		607066				12016205, 12077606, 16382100	Standard	NM_001258205		Approved	VRL3	uc002fvr.3	Q8NET8	OTTHUMG00000090695	ENST00000576742.1:c.653C>A	17.37:g.3438998G>T	ENSP00000461518:p.Ala218Glu	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NDW7|Q8NET9|Q8NFH2	Missense_Mutation	SNP	ENST00000576742.1	37	CCDS11029.1	.	.	.	.	.	.	.	.	.	.	G	36	5.688246	0.96784	.	.	ENSG00000167723	ENST00000381913;ENST00000301365;ENST00000430263	T	0.71341	-0.56	5.03	5.03	0.67393	Ankyrin repeat-containing domain (4);	0.000000	0.64402	D	0.000001	D	0.89491	0.6730	H	0.96111	3.77	0.80722	D	1	D;D;D;D;D;D;D	0.89917	0.998;0.999;0.997;0.999;1.0;1.0;0.997	D;D;D;D;D;D;P	0.91635	0.979;0.993;0.933;0.993;0.999;0.999;0.89	D	0.92506	0.6012	10	0.87932	D	0	-11.7793	18.2979	0.90153	0.0:0.0:1.0:0.0	.	202;202;218;202;218;218;218	E7EV24;B7ZKP9;Q2M3L1;B7ZKP6;Q8NET8-3;Q8NET8;Q8NET8-2	.;.;.;.;.;TRPV3_HUMAN;.	E	218;218;202	ENSP00000301365:A218E	ENSP00000301365:A218E	A	-	2	0	TRPV3	3385748	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	9.422000	0.97458	2.741000	0.93983	0.555000	0.69702	GCG		0.736	TRPV3-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000207379.2	NM_145068		T	3438998	G	T	3438998	3	4	698	1	0	0	0	0	1	0	0	0	16609	1087	38	4	1767	4	TRPV3	17	3438998	Missense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	3307367	3438998	77756212	88	45738										
RPL26	6154	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	8283223	8283223	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	aaacctggactactttgccaAtttgctgacctttatagtgt	7	9	0	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr17:8283223A>C	ENST00000584164.1	-	3	591	c.200T>G	c.(199-201)aTt>aGt	p.I67S	RPL26_ENST00000583011.1_Missense_Mutation_p.I67S|RP11-849F2.5_ENST00000579904.1_RNA|RPL26_ENST00000578812.1_Missense_Mutation_p.I67S|RPL26_ENST00000585176.1_5'UTR|RPL26_ENST00000293842.5_Missense_Mutation_p.I67S|RP11-849F2.5_ENST00000585181.1_RNA|RPL26_ENST00000582556.1_Missense_Mutation_p.I67S|RP11-849F2.7_ENST00000582471.1_Missense_Mutation_p.I67S			P61254	RL26_HUMAN	ribosomal protein L26	67					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|ribosomal large subunit biogenesis (GO:0042273)|RNA metabolic process (GO:0016070)|rRNA processing (GO:0006364)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|structural constituent of ribosome (GO:0003735)			skin(1)|urinary_tract(1)	2						TACTTTGCCAATTTGCTGACC	0.373																																																0													51	51	51					17																	8283223		2203	4300	6503	SO:0001583	missense	6154				CCDS11142.1	17p13	2011-04-06			ENSG00000161970	ENSG00000161970		"L ribosomal proteins"	10327	protein-coding gene	gene with protein product		603704				8479925	Standard	XM_005256749		Approved	L26	uc002glh.1	P61254	OTTHUMG00000108191	ENST00000584164.1:c.200T>G	17.37:g.8283223A>C	ENSP00000463784:p.Ile67Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2R4F0|D3DTR8|Q02877|Q6IPY2	Missense_Mutation	SNP	ENST00000584164.1	37	CCDS11142.1	.	.	.	.	.	.	.	.	.	.	A	13.87	2.367500	0.42003	.	.	ENSG00000161970	ENST00000293842	.	.	.	4.7	4.7	0.59300	KOW (2);Translation protein SH3-like (1);Ribosomal protein L24/L26, conserved site (1);Ribosomal protein L24, SH3-like (1);	0.000000	0.85682	D	0.000000	T	0.44582	0.1300	N	0.22421	0.69	0.58432	D	0.999995	B	0.13145	0.007	B	0.25506	0.061	T	0.36016	-0.9765	9	0.37606	T	0.19	-1.2756	12.4268	0.55551	1.0:0.0:0.0:0.0	.	67	P61254	RL26_HUMAN	S	67	.	ENSP00000293842:I67S	I	-	2	0	RPL26	8223948	1.000000	0.71417	1.000000	0.80357	0.966000	0.64601	9.239000	0.95389	1.871000	0.54225	0.523000	0.50628	ATT		0.373	RPL26-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000442322.1	NM_000987		C	8283223	A	C	8283223	3	2	698	1	0	0	0	0	1	0	0	0	13586	101	4	5	245	5	RPL26	17	8283223	Missense_Mutation	SNP	A	TCGA-P4-A5EA-01A-11D-A28G-10	4844225	8283223	72911987	89	45739										
CCDC45	90799	bcgsc.ca	37	chr17	62528114	62528114	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gcagagtctaagaggtggccTcccaaagccaaataaagcag	11	10	1	2			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr17:62528114T>C	ENST00000556440.2	+	14	2156	c.1646T>C	c.(1645-1647)cTc>cCc	p.L549P	CEP95_ENST00000553412.1_Missense_Mutation_p.L385P|AC009994.2_ENST00000579926.1_RNA	NM_138363.1	NP_612372.1	Q96GE4	CEP95_HUMAN	centrosomal protein 95kDa	549						centrosome (GO:0005813)|cytoplasm (GO:0005737)|spindle pole (GO:0000922)				endometrium(1)|kidney(3)|large_intestine(5)|lung(3)|ovary(1)	13						AGAGGTGGCCTCCCAAAGCCA	0.428																																																0													79	75	76					17																	62528114		1871	4096	5967	SO:0001583	missense	90799			AL832822	CCDS45763.1	17q24.1	2014-02-20	2011-05-06	2011-05-06	ENSG00000258890	ENSG00000258890			25141	protein-coding gene	gene with protein product			"coiled-coil domain containing 45"	CCDC45		21399614	Standard	NM_138363		Approved	DKFZp667E1824	uc002jem.3	Q96GE4	OTTHUMG00000179174	ENST00000556440.2:c.1646T>C	17.37:g.62528114T>C	ENSP00000450461:p.Leu549Pro	Somatic		WXS	Illumina HiSeq	Phase_1	B4DMD2|Q96M81	Missense_Mutation	SNP	ENST00000556440.2	37	CCDS45763.1	.	.	.	.	.	.	.	.	.	.	T	13.86	2.363258	0.41902	.	.	ENSG00000258890	ENST00000553956;ENST00000556440;ENST00000553412	T;T	0.34472	1.36;1.36	5.97	4.89	0.63831	.	0.942091	0.09055	N	0.855130	T	0.43809	0.1264	L	0.54323	1.7	0.28087	N	0.93197	D	0.56035	0.974	P	0.51135	0.66	T	0.20638	-1.0269	10	0.35671	T	0.21	0.0229	8.2179	0.31524	0.0:0.0693:0.1338:0.7969	.	549	Q96GE4	CEP95_HUMAN	P	484;549;385	ENSP00000450461:L549P;ENSP00000450906:L385P	ENSP00000438458:L484P	L	+	2	0	CEP95	59958576	0.101000	0.21875	0.994000	0.49952	0.384000	0.30261	0.957000	0.29215	1.048000	0.40298	0.533000	0.62120	CTC		0.428	CEP95-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445100.2	NM_138363		C	62528114	T	C	62528114	3	2	698	1	0	0	0	0	1	0	0	0	2818	1551	54	3	1700	3	CCDC45	17	62528114	Missense_Mutation	SNP	T	TCGA-P4-A5EA-01A-11D-A28G-10	54244891	62528114	18667096	90	45740										
C17orf80	55028	broad.mit.edu	37	chr17	71232036	71232037	+	Frame_Shift_Del	DEL	CA	CA	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tccaagaagaaaccaaggctCagttttacgcatcagagaaa					rs373362252|rs555089459		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr17:71232036_71232037delCA	ENST00000535032.2	+	2	528_529	c.415_416delCA	c.(415-417)cagfs	p.Q139fs	FAM104A_ENST00000583178.1_Intron|C17orf80_ENST00000426147.2_Frame_Shift_Del_p.Q139fs|C17orf80_ENST00000582793.1_Intron|C17orf80_ENST00000359042.2_Frame_Shift_Del_p.Q139fs|C17orf80_ENST00000577615.1_Frame_Shift_Del_p.Q139fs|C17orf80_ENST00000268942.8_Frame_Shift_Del_p.Q139fs|C17orf80_ENST00000255557.4_Frame_Shift_Del_p.Q139fs			Q9BSJ5	CQ080_HUMAN	chromosome 17 open reading frame 80	139						extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				kidney(1)|large_intestine(5)|lung(2)|skin(2)|stomach(2)|urinary_tract(2)	14			LUSC - Lung squamous cell carcinoma(166;0.197)			AACCAAGGCTCAGTTTTACGCA	0.381																																																0																																										SO:0001589	frameshift_variant	55028			AY163812	CCDS11694.1, CCDS42377.1, CCDS45767.1, CCDS74145.1	17q25.1	2012-02-24	2012-02-24	2012-02-24	ENSG00000141219	ENSG00000141219			29601	protein-coding gene	gene with protein product	"sperm-expressed protein 1", "migration-inducing protein 3"					12477932	Standard	NM_017941		Approved	HLC-8, MIG3, FLJ20721, SPEP1	uc002jjl.4	Q9BSJ5		ENST00000535032.2:c.415_416delCA	17.37:g.71232036_71232037delCA	ENSP00000440551:p.Gln139fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9X3|Q5JB45|Q6YAU3|Q9H0L9|Q9H5E6|Q9NWN5	Frame_Shift_Del	DEL	ENST00000535032.2	37	CCDS11694.1																																																																																				0.381	C17orf80-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000441893.1	NM_017941		-	71232037	CA	-	71232036	7	5	698	1	0	1	0	1	0	0	0	0	1887	827	29	0	417	0	C17orf80	17	71232036	Frame_Shift_Del	DEL	CA	TCGA-P4-A5EA-01A-11D-A28G-10	8703922	71232036	9963174	91	45741										
GGA3	23163	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	73239164	73239164	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	cttggacttctcctcatcatCaaaaacagggtttttgggac	8	10	4	0	rs35542883		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr17:73239164C>G	ENST00000245541.6	-	6	724	c.508G>C	c.(508-510)Gat>Cat	p.D170H	GGA3_ENST00000351904.7_Missense_Mutation_p.D137H|GGA3_ENST00000538886.1_Missense_Mutation_p.D48H|GGA3_ENST00000537686.1_Intron|GGA3_ENST00000582717.1_Missense_Mutation_p.D98H|GGA3_ENST00000582486.1_Missense_Mutation_p.D98H|GGA3_ENST00000579743.1_5'Flank|GGA3_ENST00000578348.1_Missense_Mutation_p.D48H	NM_138619.2	NP_619525.1	Q9NZ52	GGA3_HUMAN	golgi-associated, gamma adaptin ear containing, ARF binding protein 3	170	Binds to ARF1 (in long isoform).				intracellular protein transport (GO:0006886)|vesicle-mediated transport (GO:0016192)	clathrin adaptor complex (GO:0030131)|endosome (GO:0005768)|trans-Golgi network (GO:0005802)	ADP-ribosylation factor binding (GO:0030306)			breast(2)|endometrium(3)|large_intestine(4)|liver(1)|lung(4)|ovary(2)|prostate(2)|skin(1)|urinary_tract(1)	20			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			TCCTCATCATCAAAAACAGGG	0.547																																																0													161	149	153					17																	73239164		2203	4300	6503	SO:0001583	missense	23163			AF190864	CCDS11716.1, CCDS11717.1, CCDS54164.1, CCDS58597.1	17q25	2010-02-12	2010-02-12			ENSG00000125447			17079	protein-coding gene	gene with protein product		606006				10747089, 10749927	Standard	NR_033345		Approved	KIAA0154	uc002jni.2	Q9NZ52		ENST00000245541.6:c.508G>C	17.37:g.73239164C>G	ENSP00000245541:p.Asp170His	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7E2|B7Z7M9|J3KRN0|Q15017|Q6IS16|Q9UJY3	Missense_Mutation	SNP	ENST00000245541.6	37	CCDS11717.1	.	.	.	.	.	.	.	.	.	.	C	15.59	2.879725	0.51801	.	.	ENSG00000125447	ENST00000245541;ENST00000351904;ENST00000537584;ENST00000538886	T;T	0.52983	2.01;0.64	4.85	4.85	0.62838	.	0.000000	0.85682	D	0.000000	T	0.67449	0.2894	M	0.67397	2.05	0.80722	D	1	D;P;D	0.89917	1.0;0.522;1.0	D;P;D	0.72982	0.972;0.729;0.979	T	0.69465	-0.5138	10	0.54805	T	0.06	-21.0362	18.153	0.89682	0.0:1.0:0.0:0.0	.	48;137;170	B7Z7E2;Q9NZ52-2;Q9NZ52	.;.;GGA3_HUMAN	H	170;137;98;48	ENSP00000245541:D170H;ENSP00000326575:D137H	ENSP00000245541:D170H	D	-	1	0	GGA3	70750759	1.000000	0.71417	1.000000	0.80357	0.914000	0.54420	7.646000	0.83445	2.505000	0.84491	0.563000	0.77884	GAT		0.547	GGA3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000446645.1	NM_138619		G	73239164	C	G	73239164	3	3	698	1	0	0	0	0	1	0	0	0	6361	826	29	4	1799	4	GGA3	17	73239164	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	2007128	73239164	7956046	92	45742										
UTS2R	2837	broad.mit.edu	37	chr17	80333066	80333066	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gtaccaccaggccccgctggCgccgcggacggcgcgcatcg	15	18	0	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr17:80333066C>A	ENST00000313135.2	+	1	914	c.866C>A	c.(865-867)gCg>gAg	p.A289E		NM_018949.1	NP_061822.1	Q9UKP6	UR2R_HUMAN	urotensin 2 receptor	289					blood circulation (GO:0008015)|negative regulation of blood pressure (GO:0045776)|negative regulation of glomerular filtration (GO:0003105)|negative regulation of renal sodium excretion (GO:0035814)|negative regulation of urine volume (GO:0035811)|positive regulation of angiogenesis (GO:0045766)|positive regulation of blood pressure (GO:0045777)|positive regulation of cell growth (GO:0030307)|positive regulation of circadian sleep/wake cycle, REM sleep (GO:0046005)|positive regulation of circadian sleep/wake cycle, wakefulness (GO:0010841)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of vasoconstriction (GO:0045907)|regulation of vasodilation (GO:0042312)|response to drug (GO:0042493)|signal transduction (GO:0007165)	early endosome (GO:0005769)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|recycling endosome (GO:0055037)	G-protein coupled receptor activity (GO:0004930)|urotensin II receptor activity (GO:0001604)			breast(1)|endometrium(4)|kidney(1)|lung(2)	8	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.00928)|BRCA - Breast invasive adenocarcinoma(99;0.0833)			GCCCCGCTGGCGCCGCGGACG	0.672																																																0																																										SO:0001583	missense	2837			AF140631	CCDS11810.1	17q25.3	2013-04-30	2004-07-13	2004-07-13		ENSG00000181408			4468	protein-coding gene	gene with protein product		600896	"G protein-coupled receptor 14"	GPR14		8666380, 10499587	Standard	NM_018949		Approved		uc010wvl.2	Q9UKP6		ENST00000313135.2:c.866C>A	17.37:g.80333066C>A	ENSP00000323516:p.Ala289Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMV8	Missense_Mutation	SNP	ENST00000313135.2	37	CCDS11810.1	.	.	.	.	.	.	.	.	.	.	C	13.69	2.313287	0.40996	.	.	ENSG00000181408	ENST00000313135	T	0.72051	-0.62	4.95	1.39	0.22231	GPCR, rhodopsin-like superfamily (1);	0.338048	0.28257	U	0.016009	T	0.61375	0.2342	N	0.17723	0.515	0.09310	N	1	P	0.42973	0.796	P	0.50791	0.65	T	0.55711	-0.8098	10	0.07644	T	0.81	.	14.9821	0.71319	0.0:0.5448:0.4552:0.0	.	289	Q9UKP6	UR2R_HUMAN	E	289	ENSP00000323516:A289E	ENSP00000323516:A289E	A	+	2	0	UTS2R	77926355	0.000000	0.05858	0.001000	0.08648	0.052000	0.14988	0.380000	0.20602	0.518000	0.28383	0.637000	0.83480	GCG		0.672	UTS2R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443506.1	NM_018949		A	80333066	C	A	80333066	3	1	698	1	0	0	0	0	1	0	0	0	17118	768	27	4	868	4	UTS2R	17	80333066	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	7093902	80333066	862144	93	45743										
RNMT	8731	ucsc.edu	37	chr18	13746266	13746266	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	agtctacaaaaaaacatttcTggaattctacgaagaaaaga	6	6	3	2			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr18:13746266T>C	ENST00000383314.2	+	9	1427	c.1187T>C	c.(1186-1188)cTg>cCg	p.L396P	RNMT_ENST00000262173.3_Missense_Mutation_p.L396P|RNMT_ENST00000543302.2_Missense_Mutation_p.L396P|RNMT_ENST00000535051.1_Missense_Mutation_p.L154P|RNMT_ENST00000592764.1_Missense_Mutation_p.L396P|RNMT_ENST00000589866.1_Missense_Mutation_p.L396P			O43148	MCES_HUMAN	RNA (guanine-7-) methyltransferase	396	mRNA cap 0 methyltransferase. {ECO:0000255|PROSITE-ProRule:PRU00895}.				7-methylguanosine mRNA capping (GO:0006370)|gene expression (GO:0010467)|RNA (guanine-N7)-methylation (GO:0036265)|transcription from RNA polymerase II promoter (GO:0006366)|viral process (GO:0016032)	mRNA cap binding complex (GO:0005845)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|receptor complex (GO:0043235)	mRNA (guanine-N7-)-methyltransferase activity (GO:0004482)|RNA binding (GO:0003723)			central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(4)|lung(7)|skin(2)	18						AAAACATTTCTGGAATTCTAC	0.308																																					GBM(29;474 594 19092 36647 41529)											0													65	70	69					18																	13746266		2203	4300	6503	SO:0001583	missense	8731			AF067791	CCDS11867.1	18p11.21	2008-05-14			ENSG00000101654	ENSG00000101654	2.1.1.56		10075	protein-coding gene	gene with protein product		603514				9828141, 9705270	Standard	NM_003799		Approved	RG7MT1	uc002ksl.1	O43148	OTTHUMG00000131718	ENST00000383314.2:c.1187T>C	18.37:g.13746266T>C	ENSP00000372804:p.Leu396Pro	Somatic		WXS	Illumina HiSeq		B0YJ90|D3DUJ5|O94996|Q9UIJ9	Missense_Mutation	SNP	ENST00000383314.2	37	CCDS11867.1	.	.	.	.	.	.	.	.	.	.	T	8.940	0.965691	0.18583	.	.	ENSG00000101654	ENST00000383314;ENST00000535051;ENST00000543302;ENST00000262173	.	.	.	5.55	3.11	0.35812	.	0.418121	0.25935	N	0.027358	T	0.39682	0.1087	N	0.16307	0.4	0.48830	D	0.999714	B;B	0.26876	0.134;0.162	B;B	0.31495	0.108;0.131	T	0.09422	-1.0675	9	0.27082	T	0.32	-28.1696	9.4478	0.38708	0.1136:0.0:0.4992:0.3872	.	396;396	O43148-2;O43148	.;MCES_HUMAN	P	396;154;396;396	.	ENSP00000262173:L396P	L	+	2	0	RNMT	13736266	0.510000	0.26171	1.000000	0.80357	0.841000	0.47740	0.549000	0.23329	0.376000	0.24707	-0.680000	0.03767	CTG		0.308	RNMT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254636.1	NM_003799		C	13746266	T	C	13746266	3	2	698	1	0	0	0	0	1	0	0	0	13519	1580	55	3	1213	3	RNMT	18	13746266	Missense_Mutation	SNP	T	TCGA-P4-A5EA-01A-11D-A28G-10		13746266	64330982	94	45744										
CTAGE1	64693	broad.mit.edu	37	chr18	19995948	19995948	+	5'Flank	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gaaggcatattaaaacttctGagttctgctggtccagagag	11	7	2	2			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr18:19995948G>C	ENST00000525417.1	-	0	0				CTAGE1_ENST00000391403.2_Silent_p.L609L			Q9HC47	CTGE1_HUMAN	cutaneous T-cell lymphoma-associated antigen 1							integral component of membrane (GO:0016021)				cervix(1)|endometrium(2)|kidney(3)|large_intestine(1)|lung(19)|ovary(1)	27	all_cancers(21;0.000361)|all_epithelial(16;9.61e-06)|Colorectal(14;0.0533)|Lung NSC(20;0.0605)|Ovarian(2;0.116)|all_lung(20;0.135)					TAAAACTTCTGAGTTCTGCTG	0.388																																																0													89	97	94					18																	19995948		2190	4291	6481	SO:0001631	upstream_gene_variant	64693			AF177229	CCDS45837.1	18q11.2	2010-05-26			ENSG00000212710	ENSG00000212710			24346	protein-coding gene	gene with protein product	"cutaneous T-cell lymphoma-associated antigen 1", "cutaneous T-cell lymphoma-associated antigen 2", "cancer/testis antigen family 21, member 1", "cancer/testis antigen family 21, member 2"	608856				11149944, 12839582	Standard	NM_172241		Approved	cTAGE-1, cTAGE-2, CTAGE, CT21.1, CT21.2	uc002ktv.1	Q96RT6			18.37:g.19995948G>C	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	B0YIZ3	Silent	SNP	ENST00000525417.1	37																																																																																					0.388	CTAGE1-002	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000386767.1	NM_022663, NM_172241		C	19995948	G	C	19995948	1	2	698	0	1	0	0	0	0	0	0	0	3994	1277	45	4		4	CTAGE1	18	19995948	5'Flank	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	6249682	19995948	58081300	95	45745										
GRIN3B	116444	hgsc.bcm.edu	37	chr19	1003374	1003374	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	cgcctggccccgatggcggcGccagtggggggtgaagcacc	18	14	0	1	rs34585248	byFrequency	TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr19:1003374G>A	ENST00000234389.3	+	2	691	c.672G>A	c.(670-672)gcG>gcA	p.A224A	AC004528.4_ENST00000588380.1_RNA	NM_138690.1	NP_619635.1	O60391	NMD3B_HUMAN	glutamate receptor, ionotropic, N-methyl-D-aspartate 3B	224					ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|protein insertion into membrane (GO:0051205)|regulation of calcium ion transport (GO:0051924)|synaptic transmission, glutamatergic (GO:0035249)	cell junction (GO:0030054)|dendrite (GO:0030425)|N-methyl-D-aspartate selective glutamate receptor complex (GO:0017146)|neuronal cell body (GO:0043025)|postsynaptic membrane (GO:0045211)	calcium channel activity (GO:0005262)|cation channel activity (GO:0005261)|extracellular-glutamate-gated ion channel activity (GO:0005234)|glycine binding (GO:0016594)|N-methyl-D-aspartate selective glutamate receptor activity (GO:0004972)|neurotransmitter binding (GO:0042165)|neurotransmitter receptor activity (GO:0030594)			breast(1)|kidney(1)|lung(7)|prostate(1)|upper_aerodigestive_tract(1)	11		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)	Acamprosate(DB00659)|Atomoxetine(DB00289)|Gabapentin(DB00996)|Glycine(DB00145)|Halothane(DB01159)|Ketobemidone(DB06738)|Milnacipran(DB04896)|Orphenadrine(DB01173)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Secobarbital(DB00418)	CGATGGCGGCGCCAGTGGGGG	0.746													g|||	158	0.0315495	0.0015	0.0173	5008	,	,		11320	0.0754		0.0338	False		,,,				2504	0.0348															0								G		37,3905		0,37,1934	4	6	5		672	-8.1	0	19	dbSNP_126	5	211,7611		3,205,3703	no	coding-synonymous	GRIN3B	NM_138690.1		3,242,5637	AA,AG,GG		2.6975,0.9386,2.1081		224/1044	1003374	248,11516	1971	3911	5882	SO:0001819	synonymous_variant	116444				CCDS32861.1	19p13.3	2014-05-06			ENSG00000116032	ENSG00000116032		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	16768	protein-coding gene	gene with protein product		606651					Standard	XM_003403700		Approved	GluN3B	uc002lqo.1	O60391	OTTHUMG00000181904	ENST00000234389.3:c.672G>A	19.37:g.1003374G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5EAK7|Q7RTW9	Silent	SNP	ENST00000234389.3	37	CCDS32861.1																																																																																				0.746	GRIN3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000103923.2			A	1003374	G	A	1003374	2	1	698	1	0	0	0	0	0	0	0	1	6791	1074	38	1		1	GRIN3B	19	1003374	Silent	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10		1003374	58125609	96	45746										
MUC16	94025	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	9058716	9058716	+	Nonsense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	caggggtcagagatgacattGactctatctcaatccttgta	9	9	3	3			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr19:9058716G>C	ENST00000397910.4	-	3	28933	c.28730C>G	c.(28729-28731)tCa>tGa	p.S9577*		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	9579	Ser-rich.|Thr-rich.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						AGATGACATTGACTCTATCTC	0.488																																																0													90	84	86					19																	9058716		2003	4163	6166	SO:0001587	stop_gained	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.28730C>G	19.37:g.9058716G>C	ENSP00000381008:p.Ser9577*	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Nonsense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	g	60	44.522612	0.99986	.	.	ENSG00000181143	ENST00000397910	.	.	.	2.5	1.41	0.22369	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	.	6.6673	0.23047	0.0:0.0:0.7208:0.2792	.	.	.	.	X	9577	.	ENSP00000381008:S9577X	S	-	2	0	MUC16	8919716	0.000000	0.05858	0.001000	0.08648	0.005000	0.04900	-0.009000	0.12765	0.597000	0.29811	0.305000	0.20034	TCA		0.488	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		C	9058716	G	C	9058716	4	2	698	1	0	0	0	0	0	1	0	0	9980	1294	45	4	15121	4	MUC16	19	9058716	Nonsense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	8055342	9058716	50070267	97	45747										
KIAA0892	23383	hgsc.bcm.edu	37	chr19	19431690	19431704	+	In_Frame_Del	DEL	GCGGCCCAGGCGGCG	GCGGCCCAGGCGGCG	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tggcggctcaggcggcggcaGcggcccaggcggcggcggcc					rs553682593|rs375425486|rs550594758	byFrequency	TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	GCGGCCCAGGCGGCG	GCGGCCCAGGCGGCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr19:19431690_19431704delGCGGCCCAGGCGGCG	ENST00000392313.6	+	1	201_215	c.22_36delGCGGCCCAGGCGGCG	c.(22-36)gcggcccaggcggcgdel	p.AAQAA13del	SUGP1_ENST00000334782.5_5'Flank|SUGP1_ENST00000247001.5_5'Flank|SUGP1_ENST00000585763.1_5'Flank|MAU2_ENST00000262815.8_In_Frame_Del_p.AAQAA13del	NM_015329.3	NP_056144.3	Q9Y6X3	SCC4_HUMAN	MAU2 sister chromatid cohesion factor	13	Ala-rich.|Sufficient for interaction with NIPBL.				maintenance of mitotic sister chromatid cohesion (GO:0034088)|mitotic cell cycle (GO:0000278)	chromatin (GO:0000785)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SMC loading complex (GO:0032116)	protein N-terminus binding (GO:0047485)			NS(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(5)|skin(1)|upper_aerodigestive_tract(1)	18						ggcggcggcagcggcccaggcggcggcggcccagg	0.735																																																0										89,1901		39,11,945						-8.2	0.6			3	148,4936		53,42,2447	no	coding	MAU2	NM_015329.3		92,53,3392	A1A1,A1R,RR		2.9111,4.4724,3.3503				237,6837				SO:0001651	inframe_deletion	23383			AB020699	CCDS32969.2	19p13.11	2013-08-28	2013-08-28	2013-08-28	ENSG00000129933	ENSG00000129933			29140	protein-coding gene	gene with protein product	"sister chromatid cohesion 4"	614560	"KIAA0892", "MAU2 chromatid cohesion factor homolog (C. elegans)"	KIAA0892		10048485	Standard	NM_015329		Approved	MGC75361, mau-2, MAU2L, SCC4	uc002nmk.4	Q9Y6X3	OTTHUMG00000150188	ENST00000392313.6:c.22_36delGCGGCCCAGGCGGCG	19.37:g.19431690_19431704delGCGGCCCAGGCGGCG	ENSP00000376127:p.Ala13_Ala17del	Somatic		WXS	Illumina HiSeq	Phase_I	Q66PT1|Q6P3S7|Q6ZTT2|Q9UFX8	In_Frame_Del	DEL	ENST00000392313.6	37	CCDS32969.2																																																																																				0.735	MAU2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000316748.6	NM_015329		-	19431704	GCGGCCCAGGCGGCG	-	19431690	7	5	698	1	0	1	0	1	0	0	0	0	8203	971	34	0	24	0	KIAA0892	19	19431690	In_Frame_Del	DEL	GCGGCCCAGGCGGCG	TCGA-P4-A5EA-01A-11D-A28G-10	10372974	19431690	39697293	98	45748										
ZNF257	113835	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	22271296	22271296	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tcacaccttactcaacataaGgtaattcatactagagagaa	5	9	3	2			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr19:22271296G>A	ENST00000594947.1	+	4	888	c.744G>A	c.(742-744)aaG>aaA	p.K248K		NM_033468.2	NP_258429.2	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	248					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			haematopoietic_and_lymphoid_tissue(2)|lung(4)	6		all_lung(12;0.0961)|Lung NSC(12;0.103)				CTCAACATAAGGTAATTCATA	0.388																																																0													37	40	39					19																	22271296		2124	4259	6383	SO:0001819	synonymous_variant	113835			AF070651	CCDS46030.1	19p12	2014-02-14			ENSG00000197134	ENSG00000197134		"Zinc fingers, C2H2-type", "-"	13498	protein-coding gene	gene with protein product		606957				10585455	Standard	NM_033468		Approved	BMZF-4	uc010ecx.3	Q9Y2Q1	OTTHUMG00000182927	ENST00000594947.1:c.744G>A	19.37:g.22271296G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KPS4|E9PG34|Q8NE34	Silent	SNP	ENST00000594947.1	37	CCDS46030.1																																																																																				0.388	ZNF257-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464382.1			A	22271296	G	A	22271296	2	1	698	1	0	0	0	0	0	0	0	1	17812	991	35	2		2	ZNF257	19	22271296	Silent	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	2839606	22271296	36857687	99	45749										
PRKCG	5582	broad.mit.edu	37	chr19	54401866	54401866	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	cttcctcacccagctccactCcaccttccagaccccggtaa	4	21	1	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr19:54401866C>G	ENST00000263431.3	+	11	1547	c.1265C>G	c.(1264-1266)tCc>tGc	p.S422C	PRKCG_ENST00000542049.1_Missense_Mutation_p.S309C|PRKCG_ENST00000540413.1_Missense_Mutation_p.S422C	NM_002739.3	NP_002730.1	P05129	KPCG_HUMAN	protein kinase C, gamma	422	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of phospholipase C activity (GO:0007202)|blood coagulation (GO:0007596)|cell death (GO:0008219)|chemosensory behavior (GO:0007635)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|innervation (GO:0060384)|intracellular signal transduction (GO:0035556)|learning or memory (GO:0007611)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of protein catabolic process (GO:0042177)|negative regulation of protein ubiquitination (GO:0031397)|neurotrophin TRK receptor signaling pathway (GO:0048011)|phosphorylation (GO:0016310)|platelet activation (GO:0030168)|positive regulation of mismatch repair (GO:0032425)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|response to morphine (GO:0043278)|response to pain (GO:0048265)|signal transduction (GO:0007165)|synaptic transmission (GO:0007268)	cell-cell junction (GO:0005911)|cytosol (GO:0005829)|dendrite (GO:0030425)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|synaptic membrane (GO:0097060)	ATP binding (GO:0005524)|calcium-dependent protein kinase C activity (GO:0004698)|protein kinase activity (GO:0004672)|protein kinase C activity (GO:0004697)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|zinc ion binding (GO:0008270)			large_intestine(1)|lung(4)|ovary(2)|pancreas(2)|skin(1)	10	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)	Tamoxifen(DB00675)	CAGCTCCACTCCACCTTCCAG	0.657																																																0													10	11	10					19																	54401866		2188	4281	6469	SO:0001583	missense	5582			M13977	CCDS12867.1	19q13.4	2014-09-17			ENSG00000126583	ENSG00000126583	2.7.11.1		9402	protein-coding gene	gene with protein product	"PKC-gamma"	176980		PKCG, SCA14		8432525, 3755548	Standard	NM_002739		Approved	PKCC, MGC57564	uc002qcq.1	P05129	OTTHUMG00000064846	ENST00000263431.3:c.1265C>G	19.37:g.54401866C>G	ENSP00000263431:p.Ser422Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z8Q0	Missense_Mutation	SNP	ENST00000263431.3	37	CCDS12867.1	.	.	.	.	.	.	.	.	.	.	C	15.53	2.861903	0.51482	.	.	ENSG00000126583	ENST00000540413;ENST00000263431;ENST00000542049	T;T;T	0.25749	1.78;1.78;1.78	5.02	2.85	0.33270	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	.	.	.	.	T	0.20088	0.0483	N	0.21448	0.665	0.48040	D	0.999578	B;P;P	0.45531	0.0;0.86;0.732	B;P;P	0.46479	0.003;0.501;0.518	T	0.01863	-1.1258	9	0.34782	T	0.22	.	8.9808	0.35964	0.0:0.7671:0.1491:0.0838	.	309;422;422	B7Z8Q0;F5H5C4;P05129	.;.;KPCG_HUMAN	C	422;422;309	ENSP00000443493:S422C;ENSP00000263431:S422C;ENSP00000438090:S309C	ENSP00000263431:S422C	S	+	2	0	PRKCG	59093678	1.000000	0.71417	1.000000	0.80357	0.828000	0.46876	2.711000	0.47177	0.629000	0.30376	-0.291000	0.09656	TCC		0.657	PRKCG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000139233.3	NM_002739		G	54401866	C	G	54401866	3	3	698	1	0	0	0	0	1	0	0	0	12522	855	30	4	1307	4	PRKCG	19	54401866	Missense_Mutation	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	32130570	54401866	4727117	100	45750										
MBOAT7	79143	broad.mit.edu	37	chr19	54684811	54684811	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ctgccccggggaagggctgcTccagccagtccaggtaggtg	16	13	0	0	rs200188828		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr19:54684811T>C	ENST00000245615.1	-	6	1013	c.533A>G	c.(532-534)gAg>gGg	p.E178G	MBOAT7_ENST00000391754.1_Missense_Mutation_p.E178G|MBOAT7_ENST00000474910.1_5'Flank|MBOAT7_ENST00000338624.6_Missense_Mutation_p.E105G|MBOAT7_ENST00000431666.2_Missense_Mutation_p.E105G	NM_024298.3	NP_077274.3	Q96N66	MBOA7_HUMAN	membrane bound O-acyltransferase domain containing 7	178					glycerophospholipid biosynthetic process (GO:0046474)|layer formation in cerebral cortex (GO:0021819)|phosphatidylinositol acyl-chain remodeling (GO:0036149)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)|ventricular system development (GO:0021591)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	lysophospholipid acyltransferase activity (GO:0071617)			endometrium(4)|large_intestine(1)|lung(3)|prostate(1)|skin(1)	10	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GAAGGGCTGCTCCAGCCAGTC	0.721											OREG0003644	type=REGULATORY REGION|Gene=AK123290|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay																									NSCLC(97;826 2151 10470 22540)											0													2	4	3					19																	54684811		1737	3558	5295	SO:0001583	missense	79143			AF211969	CCDS12883.1, CCDS54315.1, CCDS54316.1	19q13.4	2008-12-15	2008-01-17	2008-01-17	ENSG00000125505	ENSG00000125505			15505	protein-coding gene	gene with protein product	"lysophosphatidylinositol acyltransferase"	606048	"leukocyte receptor cluster (LRC) member 4"	LENG4		10941842, 8702217, 18094042	Standard	NM_024298		Approved	BB1, hMBOA-7, LPIAT	uc002qdr.3	Q96N66	OTTHUMG00000066516	ENST00000245615.1:c.533A>G	19.37:g.54684811T>C	ENSP00000245615:p.Glu178Gly	Somatic	1002	WXS	Illumina HiSeq	Phase_I	A9C4B6|B0V3I5|B4DQ87|Q05DF0|Q7L5N2|Q99908|Q9BPV2|Q9BRE9	Missense_Mutation	SNP	ENST00000245615.1	37	CCDS12883.1	.	.	.	.	.	.	.	.	.	.	t	15.07	2.724382	0.48728	.	.	ENSG00000125505	ENST00000431666;ENST00000338624;ENST00000245615;ENST00000391754;ENST00000414665	T;T;T;T;T	0.74947	-0.89;-0.89;-0.89;-0.89;-0.89	4.06	4.06	0.47325	.	0.184664	0.23762	U	0.044815	T	0.65123	0.2661	L	0.46157	1.445	0.31189	N	0.701203	B;B;P	0.39576	0.351;0.302;0.679	B;B;B	0.35039	0.129;0.057;0.194	T	0.70410	-0.4879	10	0.42905	T	0.14	-18.9591	12.37	0.55250	0.0:0.0:0.0:1.0	.	160;105;178	B4DDH8;Q96N66-2;Q96N66	.;.;MBOA7_HUMAN	G	105;105;178;178;178	ENSP00000410503:E105G;ENSP00000344377:E105G;ENSP00000245615:E178G;ENSP00000375634:E178G;ENSP00000388250:E178G	ENSP00000245615:E178G	E	-	2	0	MBOAT7	59376623	0.351000	0.24887	1.000000	0.80357	0.817000	0.46193	0.664000	0.25068	1.646000	0.50622	0.446000	0.29264	GAG		0.721	MBOAT7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000142203.1	NM_024298		C	54684811	T	C	54684811	3	2	698	1	0	0	0	0	1	0	0	0	9365	1551	54	3	901	3	MBOAT7	19	54684811	Missense_Mutation	SNP	T	TCGA-P4-A5EA-01A-11D-A28G-10	282945	54684811	4444172	101	45751										
SAPS1	22870	broad.mit.edu	37	chr19	55743012	55743012	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tctgtggcttcctgaggtgcTgaggggggtgtggggtcctg	20	7	1	2			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr19:55743012T>G	ENST00000412770.2	-	20	2897	c.2331A>C	c.(2329-2331)tcA>tcC	p.S777S	AC010327.1_ENST00000581390.1_RNA|PPP6R1_ENST00000587283.1_Silent_p.S777S|TMEM86B_ENST00000327042.4_5'Flank	NM_014931.3	NP_055746.3	Q9UPN7	PP6R1_HUMAN	protein phosphatase 6, regulatory subunit 1	777	Pro-rich.				regulation of phosphoprotein phosphatase activity (GO:0043666)	cytoplasm (GO:0005737)	protein phosphatase binding (GO:0019903)			breast(1)	1						CCTGAGGTGCTGAGGGGGGTG	0.667																																																0													24	29	27					19																	55743012		1983	4161	6144	SO:0001819	synonymous_variant	22870			AB029038	CCDS46186.1	19q13.42	2012-04-17	2010-06-28	2010-06-28	ENSG00000105063	ENSG00000105063		"Serine/threonine phosphatases / Protein phosphatase 6, regulatory subunits"	29195	protein-coding gene	gene with protein product		610875	"KIAA1115", "SAPS domain family, member 1"	KIAA1115, SAPS1		16769727	Standard	NM_014931		Approved	SAP190	uc002qjw.4	Q9UPN7		ENST00000412770.2:c.2331A>C	19.37:g.55743012T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M2H3|Q504V2|Q6NVJ6|Q9BU97	Silent	SNP	ENST00000412770.2	37	CCDS46186.1																																																																																				0.667	PPP6R1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452663.1	NM_014931		G	55743012	T	G	55743012	2	3	698	1	0	0	0	0	0	0	0	1	13849	1567	55	5		5	SAPS1	19	55743012	Silent	SNP	T	TCGA-P4-A5EA-01A-11D-A28G-10	1058201	55743012	3385971	102	45752										
ZNF814	730051	ucsc.edu	37	chr19	58384712	58384712	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	acataaggtctttctccagtAtggccatgctggtgtagaat	10	8	2	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr19:58384712A>G	ENST00000435989.2	-	3	2280	c.2046T>C	c.(2044-2046)caT>caC	p.H682H	ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000597342.1_Intron|ZNF814_ENST00000596604.1_Intron|ZNF814_ENST00000595295.1_Intron|ZNF814_ENST00000597832.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	682					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						TTTCTCCAGTATGGCCATGCT	0.408																																																0													68	57	60					19																	58384712		692	1591	2283	SO:0001819	synonymous_variant	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.2046T>C	19.37:g.58384712A>G		Somatic		WXS	Illumina HiSeq		A6NF35	Silent	SNP	ENST00000435989.2	37	CCDS46212.1																																																																																				0.408	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		G	58384712	A	G	58384712	2	3	698	1	0	0	0	0	0	0	0	1	18188	446	16	3		3	ZNF814	19	58384712	Silent	SNP	A	TCGA-P4-A5EA-01A-11D-A28G-10	2641700	58384712	744271	103	45753										
TASP1	55617	broad.mit.edu	37	chr20	13561621	13561621	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ttggcaaccgagactgggttCttgattcctataaaaaaaaa	8	7	1	2			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr20:13561621C>T	ENST00000337743.4	-	6	531	c.411G>A	c.(409-411)aaG>aaA	p.K137K	TASP1_ENST00000480436.1_5'UTR|TASP1_ENST00000539805.1_Intron	NM_017714.2	NP_060184.2	Q9H6P5	TASP1_HUMAN	taspase, threonine aspartase, 1	137					positive regulation of transcription, DNA-templated (GO:0045893)		threonine-type endopeptidase activity (GO:0004298)			NS(1)|breast(1)|endometrium(2)|large_intestine(11)|liver(1)|lung(11)|stomach(2)|urinary_tract(2)	31						AGACTGGGTTCTTGATTCCta	0.408																																																0													78	77	77					20																	13561621		2203	4300	6503	SO:0001819	synonymous_variant	55617			AK000219	CCDS13116.1	20p12	2005-10-15	2005-10-15	2005-10-15	ENSG00000089123	ENSG00000089123	3.4.25.-		15859	protein-coding gene	gene with protein product		608270	"chromosome 20 open reading frame 13"	C20orf13		14636557	Standard	XR_430268		Approved	FLJ20212, dJ585I14.2	uc002woi.3	Q9H6P5	OTTHUMG00000031904	ENST00000337743.4:c.411G>A	20.37:g.13561621C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z690|B7Z963|Q5TDU9|Q9BQN0|Q9NQ08|Q9NTS6|Q9NXJ2	Silent	SNP	ENST00000337743.4	37	CCDS13116.1																																																																																				0.408	TASP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078041.2	NM_017714		T	13561621	C	T	13561621	2	4	698	1	0	0	0	0	0	0	0	1	15601	912	32	2		2	TASP1	20	13561621	Silent	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10		13561621	49463899	104	45754										
C22orf39	128977	broad.mit.edu	37	chr22	19435297	19435299	+	In_Frame_Del	DEL	AGA	AGA	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	gcacctcgtgatcgactgacAgaagaactaatgagcaccga							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr22:19435297_19435299delAGA	ENST00000399562.4	-	1	456_458	c.24_26delTCT	c.(22-27)cttctg>ctg	p.8_9LL>L	HIRA_ENST00000541063.1_5'Flank|C22orf39_ENST00000399568.1_5'Flank|AC000068.5_ENST00000431090.1_RNA|HIRA_ENST00000546308.1_5'Flank|C22orf39_ENST00000542103.1_In_Frame_Del_p.8_9LL>L|C22orf39_ENST00000333059.5_5'Flank	NM_173793.4	NP_776154.3	Q6P5X5	CV039_HUMAN	chromosome 22 open reading frame 39	8												Colorectal(54;0.0993)					ATCGACTGACAGAAGAACTAATG	0.591																																																0																																										SO:0001651	inframe_deletion	128977				CCDS33599.1, CCDS33599.2, CCDS54498.1	22q11.21	2008-10-31			ENSG00000242259	ENSG00000242259			27012	protein-coding gene	gene with protein product							Standard	NM_173793		Approved	MGC74441	uc002zpk.2	Q6P5X5	OTTHUMG00000150137	ENST00000399562.4:c.24_26delTCT	22.37:g.19435300_19435302delAGA	ENSP00000382474:p.Leu9del	Somatic		WXS	Illumina HiSeq	Phase_I	A8MTW6|D3DX18|F5H3A8|J3KNP9	In_Frame_Del	DEL	ENST00000399562.4	37	CCDS33599.2																																																																																				0.591	C22orf39-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000316494.3	NM_173793		-	19435299	AGA	-	19435297	7	5	698	1	0	1	0	1	0	0	0	0	2149	188	7	0	469	0	C22orf39	22	19435297	In_Frame_Del	DEL	AGA	TCGA-P4-A5EA-01A-11D-A28G-10		19435297	31869269	105	45755										
NF2	4771	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	30057329	30057329	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tctcgtacagtgacaaggagGtaggacatgtgtgtactgca	13	7	1	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr22:30057329G>A	ENST00000338641.4	+	8	1251		c.e8+1		NF2_ENST00000361452.4_Splice_Site|NF2_ENST00000353887.4_Splice_Site|NF2_ENST00000403999.3_Splice_Site|NF2_ENST00000361676.4_Splice_Site|NF2_ENST00000403435.1_Splice_Site|NF2_ENST00000334961.7_Splice_Site|NF2_ENST00000413209.2_Intron|NF2_ENST00000397789.3_Splice_Site|NF2_ENST00000347330.5_Splice_Site|NF2_ENST00000361166.4_Splice_Site	NM_000268.3|NM_016418.5|NM_181832.2	NP_000259.1|NP_057502.2|NP_861970.1	P35240	MERL_HUMAN	neurofibromin 2 (merlin)						actin cytoskeleton organization (GO:0030036)|cell-cell junction organization (GO:0045216)|ectoderm development (GO:0007398)|hippocampus development (GO:0021766)|lens fiber cell differentiation (GO:0070306)|mesoderm formation (GO:0001707)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of cell-cell adhesion (GO:0022408)|negative regulation of cell-matrix adhesion (GO:0001953)|negative regulation of DNA replication (GO:0008156)|negative regulation of JAK-STAT cascade (GO:0046426)|negative regulation of MAPK cascade (GO:0043409)|negative regulation of protein kinase activity (GO:0006469)|negative regulation of tyrosine phosphorylation of Stat3 protein (GO:0042518)|negative regulation of tyrosine phosphorylation of Stat5 protein (GO:0042524)|odontogenesis of dentin-containing tooth (GO:0042475)|positive regulation of cell differentiation (GO:0045597)|positive regulation of stress fiber assembly (GO:0051496)|regulation of hippo signaling (GO:0035330)|regulation of neural precursor cell proliferation (GO:2000177)|regulation of protein localization to nucleus (GO:1900180)|regulation of protein stability (GO:0031647)|Schwann cell proliferation (GO:0014010)	adherens junction (GO:0005912)|apical part of cell (GO:0045177)|cleavage furrow (GO:0032154)|cortical actin cytoskeleton (GO:0030864)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|early endosome (GO:0005769)|extrinsic component of membrane (GO:0019898)|filopodium (GO:0030175)|lamellipodium (GO:0030027)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|ruffle (GO:0001726)		p.?(5)		NS(1)|bone(2)|breast(5)|central_nervous_system(21)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(17)|large_intestine(9)|liver(1)|lung(9)|meninges(372)|ovary(2)|pituitary(1)|pleura(9)|prostate(1)|skin(7)|soft_tissue(303)|stomach(2)|thyroid(2)|upper_aerodigestive_tract(1)|urinary_tract(4)	776						TGACAAGGAGGTAGGACATGT	0.532			"D, Mis, N, F, S, O"		"meningioma, acoustic neuroma, renal "	"meningioma, acoustic neuroma"			Neurofibromatosis, type 2																													yes	Rec	yes	Neurofibromatosis type 2	22	22q12.2	4771	neurofibromatosis type 2 gene		O	5	Unknown(5)	meninges(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)											117	108	111					22																	30057329		2203	4300	6503	SO:0001630	splice_region_variant	4771	Familial Cancer Database	NF2, Central Neurofibromatosis, Bilateral Acoustic Neurofibromatosis	L11353	CCDS13861.1, CCDS13862.1, CCDS13863.1, CCDS13864.1, CCDS13865.1, CCDS54516.1	22q12.2	2014-09-17	2007-12-17		ENSG00000186575	ENSG00000186575		"A-kinase anchor proteins"	7773	protein-coding gene	gene with protein product	"moesin-ezrin-radixin like", "schwannomin"	607379	"neurofibromin 2 (bilateral acoustic neuroma)"			10591208	Standard	NM_000268		Approved	merlin	uc003age.4	P35240	OTTHUMG00000030727	ENST00000338641.4:c.810+1G>A	22.37:g.30057329G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O95683|Q8WUJ2|Q969N0|Q969Q3|Q96T30|Q96T31|Q96T32|Q96T33|Q9BTW3|Q9UNG9|Q9UNH3|Q9UNH4	Splice_Site	SNP	ENST00000338641.4	37	CCDS13861.1	.	.	.	.	.	.	.	.	.	.	G	33	5.287845	0.95517	.	.	ENSG00000186575	ENST00000347330;ENST00000338641;ENST00000403435;ENST00000361452;ENST00000397822;ENST00000403999;ENST00000334961;ENST00000353887;ENST00000397789;ENST00000361676;ENST00000361166	.	.	.	5.81	5.81	0.92471	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	20.0795	0.97766	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	NF2	28387329	1.000000	0.71417	1.000000	0.80357	0.968000	0.65278	9.864000	0.99589	2.747000	0.94245	0.650000	0.86243	.		0.532	NF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000075615.3	NM_000268	Intron	A	30057329	G	A	30057329	5	1	698	1	0	0	0	0	0	0	1	0	10364	1275	44	2	841	2	NF2	22	30057329	Splice_Site	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	10622032	30057329	21247237	106	45756										
TOM1	10043	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	35723290	35723291	+	Missense_Mutation	DNP	GA	GA	TC													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	aagctgcgcagtgagctggaGatggtgagtgggaacgtgag							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr22:35723290_35723291GA>TC	ENST00000449058.2	+	7	800_801	c.675_676GA>TC	c.(673-678)gaGAtg>gaTCtg	p.225_226EM>DL	TOM1_ENST00000436462.2_Missense_Mutation_p.187_188EM>DL|TOM1_ENST00000447733.1_Missense_Mutation_p.192_193EM>DL|TOM1_ENST00000425375.1_Missense_Mutation_p.180_181EM>DL|TOM1_ENST00000382034.5_Missense_Mutation_p.158_159EM>DL|TOM1_ENST00000411850.1_Missense_Mutation_p.225_226EM>DL	NM_005488.2	NP_005479.1	O60784	TOM1_HUMAN	target of myb1 (chicken)	225	GAT. {ECO:0000255|PROSITE- ProRule:PRU00373}.				endocytosis (GO:0006897)|endosomal transport (GO:0016197)|intracellular protein transport (GO:0006886)|protein transport (GO:0015031)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|early endosome (GO:0005769)|endosome (GO:0005768)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)	clathrin binding (GO:0030276)			NS(1)|breast(2)|kidney(2)|large_intestine(2)|lung(7)|ovary(3)|prostate(2)	19						GTGAGCTGGAGATGGTGAGTGG	0.604																																																0																																										SO:0001583	missense	10043			AJ006973	CCDS13913.1, CCDS46696.1, CCDS46697.1, CCDS46698.1	22q13.1	2011-01-31	2001-11-28		ENSG00000100284	ENSG00000100284			11982	protein-coding gene	gene with protein product		604700	"target of myb1 (chicken) homolog"			10329004, 15047686	Standard	NM_005488		Approved		uc003anp.3	O60784	OTTHUMG00000150958	Exception_encountered	22.37:g.35723290_35723291delinsTC	ENSP00000394466:p.E225_M226delinsDL	Somatic		WXS	Illumina HiSeq	Phase_I	B4DEL9|B4DNA1|Q5TIJ6|Q86X74	Missense_Mutation	DNP	ENST00000449058.2	37	CCDS13913.1																																																																																				0.604	TOM1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000320641.1	NM_005488		TC	35723291	GA	TC	35723290	3	4	698	1	0	0	0	0	1	0	0	0	16363	933	33	4	701	4	TOM1	22	35723290	Missense_Mutation	DNP	GA	TCGA-P4-A5EA-01A-11D-A28G-10	5665961	35723290	15581276	107	45757										
C22orf33	339669	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	37396006	37396008	+	In_Frame_Del	DEL	TCA	TCA	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ttttctggccctcgaagactTcatcaatagccttttgagcc							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	TCA	TCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chr22:37396006_37396008delTCA	ENST00000405091.2	-	5	758_760	c.507_509delTGA	c.(505-510)gatgaa>gaa	p.D169del	TEX33_ENST00000381821.1_In_Frame_Del_p.D169del|TEX33_ENST00000402860.3_In_Frame_Del_p.D84del			O43247	TEX33_HUMAN	testis expressed 33	169																	CTCGAAGACTTCATCAATAGCCT	0.542																																																0																																										SO:0001651	inframe_deletion	339669			BC042635	CCDS13937.1, CCDS54524.1	22q12.3	2013-10-11	2012-02-16	2012-02-16	ENSG00000185264	ENSG00000185264			28568	protein-coding gene	gene with protein product			"chromosome 22 open reading frame 33"	C22orf33		22332119	Standard	NM_178552		Approved	MGC35206, EAN57	uc003aqf.3	O43247	OTTHUMG00000150531	ENST00000405091.2:c.507_509delTGA	22.37:g.37396009_37396011delTCA	ENSP00000386118:p.Asp169del	Somatic		WXS	Illumina HiSeq	Phase_I	B1AH46|Q6ICF2|Q8IVQ2|Q9Y4V8	In_Frame_Del	DEL	ENST00000405091.2	37	CCDS54524.1																																																																																				0.542	TEX33-003	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318778.2	NM_178552		-	37396008	TCA	-	37396006	7	5	698	1	0	1	0	1	0	0	0	0	2147	1783	62	0	345	0	C22orf33	22	37396006	In_Frame_Del	DEL	TCA	TCGA-P4-A5EA-01A-11D-A28G-10	1672716	37396006	13908560	108	45758										
ZRSR2	8233	hgsc.bcm.edu	37	chrX	15841231	15841236	+	In_Frame_Del	DEL	AGCCGG	AGCCGG	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	accgcagccggggccggggcAgccggagccggagccggagc					rs199648317		TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AGCCGG	AGCCGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chrX:15841231_15841236delAGCCGG	ENST00000307771.7	+	11	1339_1344	c.1315_1320delAGCCGG	c.(1315-1320)agccggdel	p.SR447del		NM_005089.3	NP_005080.1	Q15696	U2AFM_HUMAN	zinc finger (CCCH type), RNA-binding motif and serine/arginine rich 2	447	Arg/Ser-rich (RS domain).				mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|spliceosomal complex assembly (GO:0000245)	U12-type spliceosomal complex (GO:0005689)	metal ion binding (GO:0046872)|nucleotide binding (GO:0000166)|pre-mRNA 3'-splice site binding (GO:0030628)			breast(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(38)|kidney(1)|large_intestine(2)|ovary(2)	48	Hepatocellular(33;0.183)					GGGCCGGGGCagccggagccggagcc	0.636			"F, S, Mis"		"MDS, CLL"																																NSCLC(197;1631 3042 5741 31152)		Rec	yes		X	Xp22.1	8233	"zinc finger (CCCH type), RNA-binding motif and serine/arginine rich 2"		L	0										17,138,2720		4,1,5,3,32,53,20,1147,368						3	0.1			9	24,75,5168		3,0,9,9,11,35,18,1934,1256	no	codingComplex	ZRSR2	NM_005089.3		7,1,14,12,43,88,38,3081,1624	A1A1,A1A2,A1R,A1,A2A2,A2R,A2,RR,R		1.8796,5.3913,3.1196				41,213,7888				SO:0001651	inframe_deletion	8233			BC050451	CCDS14172.1	Xp22.1	2014-09-17	2006-09-26	2006-09-26	ENSG00000169249	ENSG00000169249		"Zinc fingers, CCCH-type domain containing", "RNA binding motif (RRM) containing"	23019	protein-coding gene	gene with protein product		300028	"U2(RNU2) small nuclear RNA auxiliary factor 1-like 2", "U2 small nuclear RNA auxiliary factor 1-like 2"	U2AF1L2		8586425, 9237760, 15146077	Standard	NM_005089		Approved	U2AF1-RS2, URP	uc004cxg.4	Q15696	OTTHUMG00000021184	ENST00000307771.7:c.1315_1320delAGCCGG	X.37:g.15841237_15841242delAGCCGG	ENSP00000303015:p.Ser447_Arg448del	Somatic		WXS	Illumina HiSeq	Phase_I	Q14D69	In_Frame_Del	DEL	ENST00000307771.7	37	CCDS14172.1																																																																																				0.636	ZRSR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055889.1	NM_005089		-	15841236	AGCCGG	-	15841231	7	5	698	1	0	1	0	1	0	0	0	0	18237	188	7	0	1357	0	ZRSR2	23	15841231	In_Frame_Del	DEL	AGCCGG	TCGA-P4-A5EA-01A-11D-A28G-10		15841231	139429329	109	45759										
BCOR	54880	broad.mit.edu	37	chrX	39913206	39913207	+	Frame_Shift_Del	DEL	AC	AC	-													0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ctctgaaaattcaaattcaaAcacatcgctataggcatcgt							TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chrX:39913206_39913207delAC	ENST00000378444.4	-	14	5136_5137	c.4908_4909delGT	c.(4906-4911)gtgtttfs	p.F1637fs	BCOR_ENST00000378463.1_Frame_Shift_Del_p.F480fs|BCOR_ENST00000397354.3_Frame_Shift_Del_p.F1603fs|BCOR_ENST00000342274.4_Frame_Shift_Del_p.F1603fs|BCOR_ENST00000378455.4_Frame_Shift_Del_p.F1585fs	NM_001123385.1	NP_001116857.1	Q6W2J9	BCOR_HUMAN	BCL6 corepressor	1637	Necessary and sufficient for interaction with PCGF1.				heart development (GO:0007507)|histone H2A monoubiquitination (GO:0035518)|negative regulation of bone mineralization (GO:0030502)|negative regulation of histone H3-K36 methylation (GO:0000415)|negative regulation of histone H3-K4 methylation (GO:0051572)|negative regulation of tooth mineralization (GO:0070171)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|odontogenesis (GO:0042476)|palate development (GO:0060021)|specification of axis polarity (GO:0065001)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	heat shock protein binding (GO:0031072)|histone deacetylase binding (GO:0042826)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			breast(4)|central_nervous_system(11)|cervix(1)|endometrium(24)|eye(6)|haematopoietic_and_lymphoid_tissue(33)|kidney(2)|large_intestine(11)|lung(22)|ovary(2)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	126						TCAAATTCAAACACATCGCTAT	0.465			"F, N, S, T"	RARA	"retinoblastoma, AML, APL(translocation)"		oculo-facio-cardio-dental genetic																																Rec	yes		X	Xp11.4	54880	BCL6 corepressor	yes		0																																										SO:0001589	frameshift_variant	54880			AF317391	CCDS14250.1, CCDS48092.1, CCDS48093.1	Xp11.4	2014-09-17	2010-06-10		ENSG00000183337	ENSG00000183337		"Ankyrin repeat domain containing"	20893	protein-coding gene	gene with protein product		300485	"BCL6 co-repressor"			10898795	Standard	NM_017745		Approved	FLJ20285, KIAA1575	uc004den.4	Q6W2J9	OTTHUMG00000024100	ENST00000378444.4:c.4908_4909delGT	X.37:g.39913208_39913209delAC	ENSP00000367705:p.Phe1637fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DWB3|D3DWB4|Q29RF6|Q6P4B6|Q7Z2K7|Q8TEB4|Q96DB3|Q9H232|Q9H233|Q9HCJ7|Q9NXF2	Frame_Shift_Del	DEL	ENST00000378444.4	37	CCDS48093.1																																																																																				0.465	BCOR-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000060666.2	NM_017745		-	39913207	AC	-	39913206	7	5	698	1	0	1	0	1	0	0	0	0	1386	43	2	0	366	0	BCOR	23	39913206	Frame_Shift_Del	DEL	AC	TCGA-P4-A5EA-01A-11D-A28G-10	24071975	39913206	115357354	110	45760										
USP9X	8239	broad.mit.edu	37	chrX	41022128	41022128	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	caagaacggcttaacttcctTaggtttgttttatacagtta	7	7	0	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chrX:41022128T>C	ENST00000324545.8	+	15	2616	c.1983T>C	c.(1981-1983)ctT>ctC	p.L661L	USP9X_ENST00000378308.2_Silent_p.L661L	NM_001039590.2|NM_001039591.2	NP_001034679.2|NP_001034680.2	Q93008	USP9X_HUMAN	ubiquitin specific peptidase 9, X-linked	661					axon extension (GO:0048675)|BMP signaling pathway (GO:0030509)|cerebellar cortex structural organization (GO:0021698)|chromosome segregation (GO:0007059)|female gamete generation (GO:0007292)|gene expression (GO:0010467)|hippocampus development (GO:0021766)|in utero embryonic development (GO:0001701)|mitotic nuclear division (GO:0007067)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron migration (GO:0001764)|post-embryonic development (GO:0009791)|protein deubiquitination (GO:0016579)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)|ubiquitin-dependent protein catabolic process (GO:0006511)	apical part of cell (GO:0045177)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|growth cone (GO:0030426)|membrane (GO:0016020)	co-SMAD binding (GO:0070410)|cysteine-type endopeptidase activity (GO:0004197)|cysteine-type peptidase activity (GO:0008234)|ubiquitin thiolesterase activity (GO:0004221)			NS(3)|breast(6)|central_nervous_system(1)|endometrium(14)|haematopoietic_and_lymphoid_tissue(3)|kidney(6)|large_intestine(16)|lung(29)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	87						TTAACTTCCTTAGGTTTGTTT	0.368																																					Ovarian(172;1807 2695 35459 49286)											0													129	121	124					X																	41022128		2189	4297	6486	SO:0001819	synonymous_variant	8239			X98296	CCDS43930.1, CCDS55403.1	Xp11.4	2010-08-03	2006-02-14		ENSG00000124486	ENSG00000124486		"Ubiquitin-specific peptidases"	12632	protein-coding gene	gene with protein product		300072	"ubiquitin specific protease 9, X chromosome (fat facets-like Drosophila)", "ubiquitin specific protease 9, X-linked (fat facets-like, Drosophila)", "ubiquitin specific peptidase 9, X-linked (fat facets-like, Drosophila)"			8922996	Standard	NM_001039590		Approved	DFFRX, FAF	uc004dfb.3	Q93008	OTTHUMG00000021367	ENST00000324545.8:c.1983T>C	X.37:g.41022128T>C		Somatic		WXS	Illumina HiSeq	Phase_I	O75550|Q8WWT3|Q8WX12	Silent	SNP	ENST00000324545.8	37	CCDS43930.1																																																																																				0.368	USP9X-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000056250.4	NM_004652		C	41022128	T	C	41022128	2	2	698	1	0	0	0	0	0	0	0	1	17102	1741	61	3		3	USP9X	23	41022128	Silent	SNP	T	TCGA-P4-A5EA-01A-11D-A28G-10	1108922	41022128	114248432	111	45761										
TFE3	7030	broad.mit.edu	37	chrX	48888986	48888986	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ctccaggtctttggagcgctGctgctccttctgcagcttgc	11	14	2	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chrX:48888986G>A	ENST00000315869.7	-	9	1469	c.1210C>T	c.(1210-1212)Cag>Tag	p.Q404*	TFE3_ENST00000487451.1_5'UTR	NM_006521.4	NP_006512.2	P19532	TFE3_HUMAN	transcription factor binding to IGHM enhancer 3	404					humoral immune response (GO:0006959)|positive regulation of cell adhesion (GO:0045785)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of osteoclast differentiation (GO:0045670)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)		NONO/TFE3(2)|PRCC/TFE3(25)|SFPQ/TFE3(6)|CLTC/TFE3(2)|ASPSCR1/TFE3(167)	central_nervous_system(1)	1						TTGGAGCGCTGCTGCTCCTTC	0.602			T	"SFPQ, ASPSCR1, PRCC, NONO, CLTC"	"papillary renal, alveolar soft part sarcoma, renal"																																		Dom	yes		X	Xp11.22	7030	transcription factor binding to IGHM enhancer 3		E	0													33	30	31					X																	48888986		2202	4297	6499	SO:0001587	stop_gained	7030			X96717	CCDS14315.3	Xp11.22	2013-05-21			ENSG00000068323	ENSG00000068323		"Basic helix-loop-helix proteins"	11752	protein-coding gene	gene with protein product	transcription factor E family, member A	314310				1672758, 1685140	Standard	NM_006521		Approved	TFEA, bHLHe33	uc004dmb.3	P19532	OTTHUMG00000022690	ENST00000315869.7:c.1210C>T	X.37:g.48888986G>A	ENSP00000314129:p.Gln404*	Somatic		WXS	Illumina HiSeq	Phase_I	A8MZL6|Q5JU74|Q92757|Q92758|Q99964	Nonsense_Mutation	SNP	ENST00000315869.7	37	CCDS14315.3	.	.	.	.	.	.	.	.	.	.	g	39	7.717535	0.98450	.	.	ENSG00000068323	ENST00000315869	.	.	.	5.64	3.88	0.44766	.	0.056288	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.87932	D	0	-12.6987	10.5431	0.45045	0.1621:0.0:0.8379:0.0	.	.	.	.	X	404	.	ENSP00000314129:Q404X	Q	-	1	0	TFE3	48775930	1.000000	0.71417	0.249000	0.24280	0.956000	0.61745	7.905000	0.87416	0.549000	0.28973	0.462000	0.41574	CAG		0.602	TFE3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058872.2	NM_006521		A	48888986	G	A	48888986	4	1	698	1	0	0	0	0	0	1	0	0	15812	1328	46	2	525	2	TFE3	23	48888986	Nonsense_Mutation	SNP	G	TCGA-P4-A5EA-01A-11D-A28G-10	7866858	48888986	106381574	112	45762										
DGKK	139189	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	50144042	50144042	+	RNA	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tttaactactcaccatcgccTttggggtcgcttagagcagt	9	11	1	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chrX:50144042T>C	ENST00000376025.2	-	0	1463							Q5KSL6	DGKK_HUMAN	diacylglycerol kinase, kappa						blood coagulation (GO:0007596)|diacylglycerol metabolic process (GO:0046339)|intracellular signal transduction (GO:0035556)|platelet activation (GO:0030168)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|response to oxidative stress (GO:0006979)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|diacylglycerol kinase activity (GO:0004143)|metal ion binding (GO:0046872)|NAD+ kinase activity (GO:0003951)			central_nervous_system(1)|endometrium(12)|kidney(4)|large_intestine(5)|lung(18)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	45	Ovarian(276;0.236)					CACCATCGCCTTTGGGGTCGC	0.473																																																0													71	60	64					X																	50144042		1948	4121	6069			139189			AB183864	CCDS75980.1	Xp11.22	2006-02-08				ENSG00000274588			32395	protein-coding gene	gene with protein product		300837				16210324	Standard	NM_001013742		Approved		uc010njr.2	Q5KSL6			X.37:g.50144042T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RP91	Silent	SNP	ENST00000376025.2	37																																																																																					0.473	DGKK-001	KNOWN	basic	processed_transcript	processed_transcript	OTTHUMT00000368187.1	NM_001013742		C	50144042	T	C	50144042	1	2	698	0	1	0	0	0	0	0	0	0	4474	1606	56	3		3	DGKK	23	50144042	RNA	SNP	T	TCGA-P4-A5EA-01A-11D-A28G-10	1255056	50144042	105126518	113	45763										
ZXDB	158586	hgsc.bcm.edu	37	chrX	57618715	57618715	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	agcctgttggcgccgaggacCgatcaacctagcggcggcgg	16	13	1	0			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chrX:57618715C>T	ENST00000374888.1	+	1	447	c.234C>T	c.(232-234)acC>acT	p.T78T		NM_007157.3	NP_009088.1	P98169	ZXDB_HUMAN	zinc finger, X-linked, duplicated B	78					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)			NS(1)|central_nervous_system(2)|endometrium(5)|kidney(1)|large_intestine(1)|lung(7)|ovary(2)|prostate(2)|skin(6)	27						CGCCGAGGACCGATCAACCTA	0.756													C|||	1	0.000264901	0.0	0.0	3775	,	,		6694	0.0		0.001	False		,,,				2504	0.0															0													3	5	4					X																	57618715		1444	3093	4537	SO:0001819	synonymous_variant	158586			L14788	CCDS35313.1	Xp11.1	2013-01-08			ENSG00000198455	ENSG00000198455		"Zinc fingers, C2H2-type"	13199	protein-coding gene	gene with protein product		300236				8268913	Standard	NM_007157		Approved	ZNF905	uc004dvd.3	P98169	OTTHUMG00000021685	ENST00000374888.1:c.234C>T	X.37:g.57618715C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K151|Q9UBB3	Silent	SNP	ENST00000374888.1	37	CCDS35313.1																																																																																				0.756	ZXDB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056922.1	NM_007157		T	57618715	C	T	57618715	2	4	698	1	0	0	0	0	0	0	0	1	18263	639	23	1		1	ZXDB	23	57618715	Silent	SNP	C	TCGA-P4-A5EA-01A-11D-A28G-10	7474673	57618715	97651845	114	45764										
GLUD2	2747	ucsc.edu	37	chrX	120182480	120182480	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	ggatttggtaatgtgggcctAcactctatgagatatttaca	10	6	1	1			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chrX:120182480A>G	ENST00000328078.1	+	1	1019	c.942A>G	c.(940-942)ctA>ctG	p.L314L		NM_012084.3	NP_036216.2	P49448	DHE4_HUMAN	glutamate dehydrogenase 2	314					glutamate biosynthetic process (GO:0006537)|glutamate catabolic process (GO:0006538)|glutamate metabolic process (GO:0006536)|oxidation-reduction process (GO:0055114)	mitochondrion (GO:0005739)	ADP binding (GO:0043531)|glutamate dehydrogenase (NAD+) activity (GO:0004352)|glutamate dehydrogenase [NAD(P)+] activity (GO:0004353)|GTP binding (GO:0005525)|leucine binding (GO:0070728)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(9)|lung(15)|ovary(1)|pancreas(1)|urinary_tract(1)	38						ATGTGGGCCTACACTCTATGA	0.383																																																0													230	212	218					X																	120182480		2203	4300	6503	SO:0001819	synonymous_variant	2747			U08997	CCDS14603.1	Xq24-q25	2008-02-05	2003-02-24	2003-02-28	ENSG00000182890	ENSG00000182890			4336	protein-coding gene	gene with protein product		300144	"glutamate dehydrogenase pseudogene 1"	GLUDP1		8207021, 9109504	Standard	NM_012084		Approved		uc004eto.3	P49448	OTTHUMG00000022320	ENST00000328078.1:c.942A>G	X.37:g.120182480A>G		Somatic		WXS	Illumina HiSeq		B2R8G0|Q9UDQ4	Silent	SNP	ENST00000328078.1	37	CCDS14603.1																																																																																				0.383	GLUD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058133.1	NM_012084		G	120182480	A	G	120182480	2	3	698	1	0	0	0	0	0	0	0	1	6484	378	14	3		3	GLUD2	23	120182480	Silent	SNP	A	TCGA-P4-A5EA-01A-11D-A28G-10	62563765	120182480	35088080	115	45765										
THOC2	57187	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	122757675	122757675	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0869565217391304	10	1	2.07930139249469	4.25457054156606	0.948161434977578	0.226194642616772	1	0	tagatctggcctcttctcttTttcttcttggcagattttgt	7	9	5	2			TCGA-P4-A5EA-01A-11D-A28G-10	TCGA-P4-A5EA-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0451b7be-d503-4cad-88a1-322496cffb25	5d70fe2b-81f9-4b9e-8410-3ccf2035292a	g.chrX:122757675T>C	ENST00000245838.8	-	28	3497	c.3466A>G	c.(3466-3468)Aaa>Gaa	p.K1156E	THOC2_ENST00000491737.1_Missense_Mutation_p.K1041E|THOC2_ENST00000355725.4_Missense_Mutation_p.K1156E	NM_001081550.1	NP_001075019.1	Q8NI27	THOC2_HUMAN	THO complex 2	1156					mRNA export from nucleus (GO:0006406)|mRNA processing (GO:0006397)|poly(A)+ mRNA export from nucleus (GO:0016973)|RNA splicing (GO:0008380)|viral mRNA export from host cell nucleus (GO:0046784)	THO complex (GO:0000347)|THO complex part of transcription export complex (GO:0000445)|transcription export complex (GO:0000346)	RNA binding (GO:0003723)			breast(2)|endometrium(13)|kidney(4)|large_intestine(11)|lung(26)|ovary(3)|skin(1)|upper_aerodigestive_tract(3)	63						CTCTTCTCTTTTTCTTCTTGG	0.348																																																0													150	119	128					X																	122757675		1809	4080	5889	SO:0001583	missense	57187			AF441770	CCDS43988.1	Xq25-q26.3	2013-02-11	2004-08-09		ENSG00000125676	ENSG00000125676		"THO complex subunits"	19073	protein-coding gene	gene with protein product		300395	"chromosome X open reading frame 3"	CXorf3		11979277	Standard	NM_001081550		Approved	THO2, dJ506G2.1	uc004etu.3	Q8NI27	OTTHUMG00000022334	ENST00000245838.8:c.3466A>G	X.37:g.122757675T>C	ENSP00000245838:p.Lys1156Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NM50|Q5JZ12|Q6IN92|Q9H8I6	Missense_Mutation	SNP	ENST00000245838.8	37	CCDS43988.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	19.88|19.88	3.909495|3.909495	0.72868|0.72868	.|.	.|.	ENSG00000125676|ENSG00000125676	ENST00000245838;ENST00000355725;ENST00000491737|ENST00000438358	.|.	.|.	.|.	5.9|5.9	5.9|5.9	0.94986|0.94986	THO complex, subunitTHOC2, C-terminal (1);|.	0.000000|0.000000	0.64402|0.64402	D|D	0.000001|0.000001	T|T	0.72661|0.72661	0.3488|0.3488	M|M	0.67625|0.67625	2.065|2.065	0.80722|0.80722	D|D	1|1	D|.	0.89917|.	1.0|.	D|.	0.85130|.	0.997|.	T|T	0.72293|0.72293	-0.4336|-0.4336	9|6	0.13470|.	T|.	0.59|.	-17.2559|-17.2559	15.2657|15.2657	0.73660|0.73660	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	1156|.	Q8NI27|.	THOC2_HUMAN|.	E|R	1156;1156;1041|228	.|.	ENSP00000245838:K1156E|.	K|K	-|-	1|2	0|0	THOC2|THOC2	122585356|122585356	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	8.040000|8.040000	0.89188|0.89188	1.988000|1.988000	0.58038|0.58038	0.481000|0.481000	0.45027|0.45027	AAA|AAA		0.348	THOC2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058153.3			C	122757675	T	C	122757675	3	2	698	1	0	0	0	0	1	0	0	0	15877	1850	64	3	1359	3	THOC2	23	122757675	Missense_Mutation	SNP	T	TCGA-P4-A5EA-01A-11D-A28G-10	2575195	122757675	32512885	116	45766										
CASZ1	54897	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	10700024	10700024	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cagcatcttccgggaggacgCcgtcttccgccgcttgccga	12	16	2	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:10700024C>A	ENST00000377022.3	-	21	4572	c.4255G>T	c.(4255-4257)Gcg>Tcg	p.A1419S	RP4-734G22.3_ENST00000606802.1_RNA	NM_001079843.2	NP_001073312.1	Q86V15	CASZ1_HUMAN	castor zinc finger 1	1419					multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(9)|large_intestine(13)|lung(18)|ovary(2)|prostate(5)|skin(2)|urinary_tract(1)	54	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		CGGGAGGACGCCGTCTTCCGC	0.617																																																0													39	45	43					1																	10700024		2097	4204	6301	SO:0001583	missense	54897			AK000328	CCDS120.2, CCDS41246.1	1p36.22	2013-01-07	2007-02-02		ENSG00000130940	ENSG00000130940		"Zinc fingers, C2H2-type"	26002	protein-coding gene	gene with protein product	"zinc finger protein 693", "survival related gene"	609895	"castor homolog 1, zinc finger (Drosophila)"			16631614, 21252912	Standard	NM_001079843		Approved	FLJ20321, ZNF693, castor, cst, SRG	uc001aro.4	Q86V15	OTTHUMG00000002035	ENST00000377022.3:c.4255G>T	1.37:g.10700024C>A	ENSP00000366221:p.Ala1419Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q078S9|Q2EN02|Q5T9S1|Q6ZNM8|Q8WX49|Q8WX50|Q9BT16|Q9NXC6	Missense_Mutation	SNP	ENST00000377022.3	37	CCDS41246.1	.	.	.	.	.	.	.	.	.	.	C	24.3	4.513284	0.85389	.	.	ENSG00000130940	ENST00000377022	.	.	.	5.23	5.23	0.72850	.	0.000000	0.45606	U	0.000359	T	0.30039	0.0752	N	0.08118	0	0.80722	D	1	P	0.52316	0.952	B	0.43251	0.413	T	0.12734	-1.0536	9	0.08599	T	0.76	-17.5652	18.7817	0.91934	0.0:1.0:0.0:0.0	.	1419	Q86V15	CASZ1_HUMAN	S	1419	.	ENSP00000366221:A1419S	A	-	1	0	CASZ1	10622611	0.995000	0.38212	0.937000	0.37676	0.969000	0.65631	3.242000	0.51384	2.435000	0.82474	0.460000	0.39030	GCG		0.617	CASZ1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005673.2	NM_017766		A	10700024	C	A	10700024	3	1	699	1	0	0	0	0	1	0	0	0	2687	739	26	4	1028	4	CASZ1	1	10700024	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10		10700024	238550597	1	45767										
FBXO6	26270	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	11728776	11728776	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	acgagctgcccgagaacatcCtgctggagctgttcacgcac	11	14	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:11728776C>G	ENST00000376753.4	+	2	196	c.61C>G	c.(61-63)Ctg>Gtg	p.L21V		NM_018438.5	NP_060908.1	Q9NRD1	FBX6_HUMAN	F-box protein 6	21	F-box. {ECO:0000255|PROSITE- ProRule:PRU00080}.				DNA damage checkpoint (GO:0000077)|DNA repair (GO:0006281)|ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)|glycoprotein catabolic process (GO:0006516)|proteolysis (GO:0006508)|response to unfolded protein (GO:0006986)|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146)	cytoplasm (GO:0005737)|SCF ubiquitin ligase complex (GO:0019005)	carbohydrate binding (GO:0030246)|glycoprotein binding (GO:0001948)|ubiquitin-protein transferase activity (GO:0004842)			breast(1)|large_intestine(1)|lung(1)|ovary(1)|upper_aerodigestive_tract(2)	6	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.25e-06)|COAD - Colon adenocarcinoma(227;0.000251)|BRCA - Breast invasive adenocarcinoma(304;0.000297)|Kidney(185;0.000747)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0649)		CGAGAACATCCTGCTGGAGCT	0.632																																					NSCLC(54;506 1562 46490 51389)											0													54	57	56					1																	11728776		2203	4300	6503	SO:0001583	missense	26270			AF129536	CCDS133.1	1p36.22	2008-05-14	2004-06-15		ENSG00000116663	ENSG00000116663		"F-boxes /  "other""	13585	protein-coding gene	gene with protein product		605647	"F-box only protein 6"			10531035, 10945468	Standard	NM_018438		Approved	FBX6, FBG2, FBS2, Fbx6b	uc001aso.3	Q9NRD1	OTTHUMG00000002229	ENST00000376753.4:c.61C>G	1.37:g.11728776C>G	ENSP00000365944:p.Leu21Val	Somatic		WXS	Illumina HiSeq	Phase_I	B1AK42|B2RC88|Q9UKT3	Missense_Mutation	SNP	ENST00000376753.4	37	CCDS133.1	.	.	.	.	.	.	.	.	.	.	C	12.25	1.881321	0.33255	.	.	ENSG00000116663	ENST00000376753	T	0.68331	-0.32	5.15	3.27	0.37495	F-box domain, cyclin-like (2);F-box domain, Skp2-like (1);	0.244528	0.34435	N	0.003979	T	0.76212	0.3956	M	0.65677	2.01	0.37077	D	0.898797	D	0.76494	0.999	D	0.85130	0.997	T	0.76296	-0.3011	10	0.37606	T	0.19	-6.9754	8.6849	0.34232	0.0:0.821:0.0:0.179	.	21	Q9NRD1	FBX6_HUMAN	V	21	ENSP00000365944:L21V	ENSP00000365944:L21V	L	+	1	2	FBXO6	11651363	0.953000	0.32496	1.000000	0.80357	0.718000	0.41266	1.306000	0.33505	0.679000	0.31345	0.650000	0.86243	CTG		0.632	FBXO6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000006332.1	NM_018438		G	11728776	C	G	11728776	3	3	699	1	0	0	0	0	1	0	0	0	5766	680	24	4	63	4	FBXO6	1	11728776	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	1028752	11728776	237521845	2	45768										
AADACL4	343066	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	12711237	12711237	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	aaaaaggaccctgaacttgtGgtgaccgacctgcgttttgg	12	9	0	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:12711237G>T	ENST00000376221.1	+	2	264	c.264G>T	c.(262-264)gtG>gtT	p.V88V		NM_001013630.1	NP_001013652.1	Q5VUY2	ADCL4_HUMAN	arylacetamide deacetylase-like 4	88						integral component of membrane (GO:0016021)	carboxylic ester hydrolase activity (GO:0052689)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(6)|prostate(1)	17	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000937)|all_lung(284;0.00122)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.81e-07)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00217)|KIRC - Kidney renal clear cell carcinoma(229;0.00579)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0384)		CTGAACTTGTGGTGACCGACC	0.498																																																0													98	96	97					1																	12711237		2203	4300	6503	SO:0001819	synonymous_variant	343066				CCDS30590.1	1p36.21	2010-12-14			ENSG00000204518	ENSG00000204518			32038	protein-coding gene	gene with protein product							Standard	XM_006710608		Approved	OTTHUMG00000001889	uc001auf.3	Q5VUY2	OTTHUMG00000001889	ENST00000376221.1:c.264G>T	1.37:g.12711237G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000376221.1	37	CCDS30590.1																																																																																				0.498	AADACL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000005328.1	NM_001013630		T	12711237	G	T	12711237	2	4	699	1	0	0	0	0	0	0	0	1	13	1335	47	4		4	AADACL4	1	12711237	Silent	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	982461	12711237	236539384	3	45769										
RHD	6007	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	25628090	25628090	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	atcgaaaggaagaatgccgtGttcaacacctactatgctgt	9	9	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:25628090G>A	ENST00000328664.4	+	5	869	c.714G>A	c.(712-714)gtG>gtA	p.V238V	RHD_ENST00000454452.2_Silent_p.V238V|RHD_ENST00000568195.1_Silent_p.V238V|RHD_ENST00000342055.5_Silent_p.V238V|RHD_ENST00000423810.2_Silent_p.V238V|RHD_ENST00000423253.1_3'UTR|RHD_ENST00000357542.4_Silent_p.V238V|RHD_ENST00000417538.2_Silent_p.V238V	NM_001282867.1|NM_016124.3	NP_001269796.1|NP_057208	Q02161	RHD_HUMAN	Rh blood group, D antigen	238			V -> M (in RhDVa(TO) and RhDVa(TT); dbSNP:rs1053360). {ECO:0000269|Ref.9}.			integral component of plasma membrane (GO:0005887)	ammonium transmembrane transporter activity (GO:0008519)			breast(2)|large_intestine(4)|lung(7)|prostate(1)	14		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;7.39e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;6.43e-07)|STAD - Stomach adenocarcinoma(196;0.000332)|BRCA - Breast invasive adenocarcinoma(304;0.000438)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.000908)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		AGAATGCCGTGTTCAACACCT	0.562																																																0													199	154	171					1																	25628090		2122	3769	5891	SO:0001819	synonymous_variant	6007			AB012623	CCDS262.1, CCDS53285.1, CCDS60027.1, CCDS60028.1, CCDS60029.1, CCDS60030.1, CCDS60031.1	1p36.11	2014-07-19	2013-10-02		ENSG00000187010	ENSG00000187010		"CD molecules", "Blood group antigens"	10009	protein-coding gene	gene with protein product		111680	"Rhesus blood group, D antigen", "Rh blood group, D antigen"	RH		8220426	Standard	NM_016124		Approved	Rh30a, Rh4, RhPI, RhII, DIIIc, CD240D	uc001bjz.3	Q02161	OTTHUMG00000003476	ENST00000328664.4:c.714G>A	1.37:g.25628090G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q02162|Q07618|Q16147|Q16235|Q16355|Q5VSK0|Q5XLS9|Q5XLT1|Q5XLT2|Q9NPK0|Q9UQ20|Q9UQ21|Q9UQ22|Q9UQ23	Silent	SNP	ENST00000328664.4	37	CCDS262.1																																																																																				0.562	RHD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000009660.5	NM_016124		A	25628090	G	A	25628090	2	1	699	1	0	0	0	0	0	0	0	1	13340	1364	48	2		2	RHD	1	25628090	Silent	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	12916853	25628090	223622531	4	45770										
CSMD2	114784	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	34015918	34015918	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gtctccagacatctgggagtGaggcggggagcccggatggc	18	10	2	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:34015918G>T	ENST00000373381.4	-	56	8952	c.8776C>A	c.(8776-8778)Cac>Aac	p.H2926N		NM_001281956.1|NM_052896.3	NP_001268885.1|NP_443128.2	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2901	Sushi 21. {ECO:0000255|PROSITE- ProRule:PRU00302}.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				NS(5)|breast(5)|central_nervous_system(3)|cervix(2)|endometrium(20)|haematopoietic_and_lymphoid_tissue(4)|kidney(9)|large_intestine(43)|lung(114)|ovary(8)|pancreas(1)|prostate(6)|skin(20)|upper_aerodigestive_tract(5)|urinary_tract(1)	246		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				ATCTGGGAGTGAGGCGGGGAG	0.572																																																0													58	57	57					1																	34015918		2203	4300	6503	SO:0001583	missense	114784			AY210418	CCDS380.1, CCDS60082.1	1p34.3	2014-01-28			ENSG00000121904	ENSG00000121904			19290	protein-coding gene	gene with protein product		608398				11472063, 11572484	Standard	NM_001281956		Approved	KIAA1884	uc001bxn.1	Q7Z408	OTTHUMG00000011135	ENST00000373381.4:c.8776C>A	1.37:g.34015918G>T	ENSP00000362479:p.His2926Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B1AM50|E7EUA6|Q53TY4|Q5VT59|Q8N963|Q96Q03|Q9H4V7|Q9H4V8|Q9H4V9|Q9H4W0|Q9H4W1|Q9H4W2|Q9H4W3|Q9H4W4|Q9HCY5|Q9HCY6|Q9HCY7	Missense_Mutation	SNP	ENST00000373381.4	37		.	.	.	.	.	.	.	.	.	.	G	0.673	-0.801317	0.02841	.	.	ENSG00000121904	ENST00000373381	T	0.64618	-0.11	5.71	5.71	0.89125	Complement control module (2);Sushi/SCR/CCP (3);	0.060404	0.64402	D	0.000002	T	0.27241	0.0668	N	0.00661	-1.28	0.80722	D	1	B;B	0.09022	0.002;0.001	B;B	0.14023	0.01;0.01	T	0.43294	-0.9400	10	0.02654	T	1	.	13.8354	0.63406	0.0:0.0:0.8474:0.1526	.	2782;2926	Q7Z408;E7EUA6	CSMD2_HUMAN;.	N	2926	ENSP00000362479:H2926N	ENSP00000241312:H2782N	H	-	1	0	CSMD2	33788505	1.000000	0.71417	0.982000	0.44146	0.320000	0.28249	3.614000	0.54160	2.720000	0.93068	0.650000	0.86243	CAC		0.572	CSMD2-201	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_052896		T	34015918	G	T	34015918	3	4	699	1	0	0	0	0	1	0	0	0	3947	1290	45	4	2179	4	CSMD2	1	34015918	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	8387828	34015918	215234703	5	45771										
EIF2C3	192669	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	36479547	36479547	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	agcaacaccgagccatggagTatgggacatgcgagggaaac	14	9	0	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:36479547T>A	ENST00000373191.4	+	11	1653	c.1304T>A	c.(1303-1305)gTa>gAa	p.V435E	AGO3_ENST00000246314.6_Missense_Mutation_p.V201E|RP4-665N4.8_ENST00000466576.2_RNA|RP4-665N4.8_ENST00000479395.2_RNA	NM_024852.3	NP_079128.2	Q9H9G7	AGO3_HUMAN	argonaute RISC catalytic component 3	435					epidermal growth factor receptor signaling pathway (GO:0007173)|Fc-epsilon receptor signaling pathway (GO:0038095)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gene expression (GO:0010467)|innate immune response (GO:0045087)|mRNA catabolic process (GO:0006402)|negative regulation of translation involved in gene silencing by miRNA (GO:0035278)|neurotrophin TRK receptor signaling pathway (GO:0048011)|Notch signaling pathway (GO:0007219)|phosphatidylinositol-mediated signaling (GO:0048015)|regulation of stem cell proliferation (GO:0072091)	cytosol (GO:0005829)|membrane (GO:0016020)|micro-ribonucleoprotein complex (GO:0035068)|RISC complex (GO:0016442)	miRNA binding (GO:0035198)|poly(A) RNA binding (GO:0044822)										AGCCATGGAGTATGGGACATG	0.398																																																0													127	117	120					1																	36479547		2203	4300	6503	SO:0001583	missense	192669			AB046787	CCDS399.1, CCDS400.1	1p34	2013-06-03	2013-02-15	2013-02-15	ENSG00000126070	ENSG00000126070		"Argonaute/PIWI family"	18421	protein-coding gene	gene with protein product	"argonaute 3"	607355	"eukaryotic translation initiation factor 2C, 3"	EIF2C3		12906857	Standard	NM_024852		Approved	hAGO3, FLJ12765	uc001bzp.3	Q9H9G7	OTTHUMG00000184172	ENST00000373191.4:c.1304T>A	1.37:g.36479547T>A	ENSP00000362287:p.Val435Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALI0|Q5TA55|Q9H1U6	Missense_Mutation	SNP	ENST00000373191.4	37	CCDS399.1	.	.	.	.	.	.	.	.	.	.	T	18.81	3.703233	0.68501	.	.	ENSG00000126070	ENST00000373191;ENST00000246314	T;T	0.05447	3.44;3.44	5.65	5.65	0.86999	.	0.055978	0.64402	D	0.000001	T	0.16769	0.0403	M	0.90922	3.16	0.80722	D	1	B	0.23891	0.093	B	0.34452	0.183	T	0.28964	-1.0027	10	0.06891	T	0.86	-12.758	15.9324	0.79675	0.0:0.0:0.0:1.0	.	435	Q9H9G7	AGO3_HUMAN	E	435;201	ENSP00000362287:V435E;ENSP00000246314:V201E	ENSP00000246314:V201E	V	+	2	0	EIF2C3	36252134	1.000000	0.71417	1.000000	0.80357	0.702000	0.40608	8.031000	0.88826	2.169000	0.68431	0.529000	0.55759	GTA		0.398	AGO3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000019831.4	NM_024852		A	36479547	T	A	36479547	3	1	699	1	0	0	0	0	1	0	0	0	5009	1638	57	5	1346	5	EIF2C3	1	36479547	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	2463629	36479547	212771074	6	45772										
MACF1	23499	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	39853737	39853737	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	atctgaggaactttactcagGgtctggtagaagatgcccca	11	9	3	3			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:39853737G>C	ENST00000372915.3	+	57	15325	c.15238G>C	c.(15238-15240)Ggt>Cgt	p.G5080R	MACF1_ENST00000567887.1_Missense_Mutation_p.G5112R|MACF1_ENST00000545844.1_Missense_Mutation_p.G3013R|MACF1_ENST00000539005.1_Missense_Mutation_p.G2992R|MACF1_ENST00000317713.7_Missense_Mutation_p.G3013R|MACF1_ENST00000361689.2_Missense_Mutation_p.G3013R|MACF1_ENST00000289893.4_Missense_Mutation_p.G3515R|MACF1_ENST00000564288.1_Missense_Mutation_p.G5075R			Q9UPN3	MACF1_HUMAN	microtubule-actin crosslinking factor 1	5080					ATP catabolic process (GO:0006200)|cell cycle arrest (GO:0007050)|Golgi to plasma membrane protein transport (GO:0043001)|positive regulation of Wnt signaling pathway (GO:0030177)|regulation of epithelial cell migration (GO:0010632)|regulation of focal adhesion assembly (GO:0051893)|regulation of microtubule-based process (GO:0032886)|Wnt signaling pathway (GO:0016055)|wound healing (GO:0042060)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|microtubule (GO:0005874)|plasma membrane (GO:0005886)|ruffle membrane (GO:0032587)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|ATPase activity (GO:0016887)|calcium ion binding (GO:0005509)|poly(A) RNA binding (GO:0044822)			breast(11)|central_nervous_system(5)|endometrium(18)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(36)|lung(78)|ovary(12)|prostate(2)|skin(9)|stomach(2)|upper_aerodigestive_tract(8)|urinary_tract(10)	203	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)			CTTTACTCAGGGTCTGGTAGA	0.502																																																0													51	52	52					1																	39853737		2203	4300	6503	SO:0001583	missense	23499			AB007934	CCDS435.1	1p32-p31	2013-01-10			ENSG00000127603	ENSG00000127603		"EF-hand domain containing"	13664	protein-coding gene	gene with protein product	"actin cross-linking factor", "620 kDa actin binding protein", "macrophin 1", "trabeculin-alpha", "actin cross-linking family protein 7"	608271				7635207, 10529403	Standard	NM_012090		Approved	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776	uc031pmc.1	Q9UPN3	OTTHUMG00000007754	ENST00000372915.3:c.15238G>C	1.37:g.39853737G>C	ENSP00000362006:p.Gly5080Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALC5|E9PJT0|O75053|Q5VW20|Q8WXY1|Q8WXY2|Q96PK2|Q9H540|Q9UKP0|Q9ULG9	Missense_Mutation	SNP	ENST00000372915.3	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	17.13|17.13	3.311133|3.311133	0.60414|0.60414	.|.	.|.	ENSG00000127603|ENSG00000127603	ENST00000372925|ENST00000545844;ENST00000372915;ENST00000361689;ENST00000317713;ENST00000539005;ENST00000289893	.|T;T;T;T;T;T	.|0.32272	.|1.46;1.46;1.46;1.46;1.46;1.46	6.03|6.03	6.03|6.03	0.97812|0.97812	.|.	0.000000|0.000000	0.64402|0.64402	D|D	0.000005|0.000005	T|T	0.55273|0.55273	0.1910|0.1910	L|L	0.58101|0.58101	1.795|1.795	0.80722|0.80722	D|D	1|1	.|D;D;D	.|0.89917	.|1.0;0.99;0.991	.|D;D;D	.|0.97110	.|1.0;0.952;0.962	T|T	0.43475|0.43475	-0.9389|-0.9389	6|10	.|0.44086	.|T	.|0.13	.|.	20.5568|20.5568	0.99304|0.99304	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|5080;3013;2957	.|Q9UPN3;F8W8Q1;Q9UPN3-3	.|MACF1_HUMAN;.;.	A|R	2125|3013;5080;3013;3013;2992;3515	.|ENSP00000439537:G3013R;ENSP00000362006:G5080R;ENSP00000354573:G3013R;ENSP00000313438:G3013R;ENSP00000444364:G2992R;ENSP00000289893:G3515R	.|ENSP00000289893:G3515R	G|G	+|+	2|1	0|0	MACF1|MACF1	39626324|39626324	1.000000|1.000000	0.71417|0.71417	0.995000|0.995000	0.50966|0.50966	0.947000|0.947000	0.59692|0.59692	9.869000|9.869000	0.99810|0.99810	2.861000|2.861000	0.98227|0.98227	0.655000|0.655000	0.94253|0.94253	GGG|GGT		0.502	MACF1-028	NOVEL	not_organism_supported|basic|appris_candidate|exp_conf	protein_coding	protein_coding	OTTHUMT00000392096.1	NM_033044		C	39853737	G	C	39853737	3	2	699	1	0	0	0	0	1	0	0	0	9151	1232	43	4	15398	4	MACF1	1	39853737	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	3374190	39853737	209396884	7	45773										
MAST2	23139	hgsc.bcm.edu;bcgsc.ca	37	chr1	46496701	46496702	+	Frame_Shift_Del	DEL	TC	TC	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tacggaagcggctgtcggtgTctgagtcatcccacacagag							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:46496701_46496702delTC	ENST00000361297.2	+	23	3014_3015	c.2731_2732delTC	c.(2731-2733)tctfs	p.S911fs	MAST2_ENST00000372009.2_Frame_Shift_Del_p.S841fs	NM_015112.2	NP_055927.2			microtubule associated serine/threonine kinase 2											breast(1)|lung(3)|ovary(5)|stomach(2)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)					GCTGTCGGTGTCTGAGTCATCC	0.629																																																0																																										SO:0001589	frameshift_variant	23139			AB047005	CCDS41326.1	1p34.1	2008-02-05			ENSG00000086015	ENSG00000086015			19035	protein-coding gene	gene with protein product		612257					Standard	NM_015112		Approved	MAST205, KIAA0807	uc001cov.3	Q6P0Q8	OTTHUMG00000008007	ENST00000361297.2:c.2731_2732delTC	1.37:g.46496701_46496702delTC	ENSP00000354671:p.Ser911fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000361297.2	37	CCDS41326.1																																																																																				0.629	MAST2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000021977.1	NM_015112		-	46496702	TC	-	46496701	7	5	699	1	0	1	0	1	0	0	0	0	9332	1667	58	0	2821	0	MAST2	1	46496701	Frame_Shift_Del	DEL	TC	TCGA-P4-A5EB-01A-11D-A28G-10	6642964	46496701	202753920	8	45774										
PCSK9	255738	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	55529096	55529096	+	Frame_Shift_Del	DEL	G	G	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ctggctgcagtgccctccctGggacctcccacgtcctgggg							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:55529096delG	ENST00000302118.5	+	12	2208	c.1918delG	c.(1918-1920)gggfs	p.G640fs	PCSK9_ENST00000543384.1_3'UTR|PCSK9_ENST00000490692.1_3'UTR	NM_174936.3	NP_777596.2	Q8NBP7	PCSK9_HUMAN	proprotein convertase subtilisin/kexin type 9	640	C-terminal domain.				apoptotic process (GO:0006915)|cellular response to insulin stimulus (GO:0032869)|cellular response to starvation (GO:0009267)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|kidney development (GO:0001822)|lipoprotein metabolic process (GO:0042157)|liver development (GO:0001889)|low-density lipoprotein particle receptor catabolic process (GO:0032802)|lysosomal transport (GO:0007041)|negative regulation of low-density lipoprotein particle clearance (GO:0010989)|negative regulation of receptor recycling (GO:0001920)|neurogenesis (GO:0022008)|neuron differentiation (GO:0030182)|phospholipid metabolic process (GO:0006644)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of receptor internalization (GO:0002092)|protein autoprocessing (GO:0016540)|proteolysis (GO:0006508)|regulation of low-density lipoprotein particle receptor catabolic process (GO:0032803)|regulation of neuron apoptotic process (GO:0043523)|regulation of receptor activity (GO:0010469)|triglyceride metabolic process (GO:0006641)	cell surface (GO:0009986)|cytoplasm (GO:0005737)|early endosome (GO:0005769)|endoplasmic reticulum (GO:0005783)|ER to Golgi transport vesicle (GO:0030134)|extracellular space (GO:0005615)|extrinsic component of external side of plasma membrane (GO:0031232)|Golgi apparatus (GO:0005794)|late endosome (GO:0005770)|lysosome (GO:0005764)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|rough endoplasmic reticulum (GO:0005791)	apolipoprotein binding (GO:0034185)|apolipoprotein receptor binding (GO:0034190)|low-density lipoprotein particle binding (GO:0030169)|low-density lipoprotein particle receptor binding (GO:0050750)|poly(A) RNA binding (GO:0044822)|protein self-association (GO:0043621)|serine-type endopeptidase activity (GO:0004252)|sodium channel inhibitor activity (GO:0019871)|very-low-density lipoprotein particle binding (GO:0034189)|very-low-density lipoprotein particle receptor binding (GO:0070326)			NS(2)|breast(2)|central_nervous_system(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(1)|liver(2)|lung(4)|ovary(3)|prostate(3)|skin(1)|urinary_tract(1)	32						TGCCCTCCCTGGGACCTCCCA	0.662																																					Pancreas(137;1454 1827 5886 22361 42375)											0													34	34	34					1																	55529096		2203	4300	6503	SO:0001589	frameshift_variant	255738			AX207686	CCDS603.1	1p34.1-p32	2014-09-17	2003-05-13		ENSG00000169174	ENSG00000169174			20001	protein-coding gene	gene with protein product		607786	"hypercholesterolemia, autosomal dominant 3"	HCHOLA3		12552133, 12730697	Standard	NM_174936		Approved	NARC-1, FH3	uc001cyf.2	Q8NBP7	OTTHUMG00000008136	ENST00000302118.5:c.1918delG	1.37:g.55529096delG	ENSP00000303208:p.Gly640fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8T640|C0JYY9|Q5PSM5|Q5SZQ2	Frame_Shift_Del	DEL	ENST00000302118.5	37	CCDS603.1																																																																																				0.662	PCSK9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000022280.1	NM_174936		-	55529096	G	-	55529096	7	5	699	1	0	1	0	1	0	0	0	0	11613	1348	47	0	1964	0	PCSK9	1	55529096	Frame_Shift_Del	DEL	G	TCGA-P4-A5EB-01A-11D-A28G-10	9032395	55529096	193721525	9	45775										
ITGB3BP	23421	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	63974218	63974218	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cattttcttctaacagaccaTccaacttcagtgatctttta	3	11	4	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:63974218T>G	ENST00000271002.10	-	2	110	c.29A>C	c.(28-30)gAt>gCt	p.D10A	ITGB3BP_ENST00000283568.8_Missense_Mutation_p.D10A|ITGB3BP_ENST00000371092.3_Missense_Mutation_p.D49A	NM_014288.4	NP_055103.3	Q13352	CENPR_HUMAN	integrin beta 3 binding protein (beta3-endonexin)	10					apoptotic signaling pathway (GO:0097190)|cell adhesion (GO:0007155)|CENP-A containing nucleosome assembly (GO:0034080)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|neurotrophin TRK receptor signaling pathway (GO:0048011)|nucleosome assembly (GO:0006334)|positive regulation of apoptotic process (GO:0043065)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|kinetochore (GO:0000776)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	protein C-terminus binding (GO:0008022)|signal transducer activity (GO:0004871)	p.D10G(1)		breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(2)|upper_aerodigestive_tract(1)	9						TAACAGACCATCCAACTTCAG	0.259																																																1	Substitution - Missense(1)	upper_aerodigestive_tract(1)											28	28	28					1																	63974218		2149	4215	6364	SO:0001583	missense	23421			U37139	CCDS30736.1, CCDS55603.1	1p31.3	2013-11-05			ENSG00000142856	ENSG00000142856			6157	protein-coding gene	gene with protein product	"centromere protein R"	605494				7593198, 10490654	Standard	NM_014288		Approved	NRIF3, HSU37139, TAP20, CENPR	uc001dbb.2	Q13352	OTTHUMG00000013364	ENST00000271002.10:c.29A>C	1.37:g.63974218T>G	ENSP00000271002:p.Asp10Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7D8|Q13353|Q5RJ42|Q5RJ44|Q5RJ45|Q7KYX2|Q96CD5|Q9UKB6	Missense_Mutation	SNP	ENST00000271002.10	37	CCDS30736.1	.	.	.	.	.	.	.	.	.	.	T	3.341	-0.134587	0.06711	.	.	ENSG00000142856	ENST00000271002;ENST00000371092;ENST00000283568	T;T;T	0.67698	-0.27;0.25;-0.28	4.91	3.79	0.43588	.	0.260117	0.25997	N	0.026964	T	0.46073	0.1374	N	0.19112	0.55	0.38496	D	0.948093	P;P;P	0.51537	0.944;0.946;0.78	P;P;B	0.50825	0.651;0.592;0.265	T	0.53947	-0.8366	10	0.66056	D	0.02	-2.1447	10.3835	0.44125	0.0:0.0772:0.0:0.9228	.	10;49;10	Q13352-2;Q13352-5;Q13352	.;.;CENPR_HUMAN	A	10;49;10	ENSP00000271002:D10A;ENSP00000360133:D49A;ENSP00000283568:D10A	ENSP00000271002:D10A	D	-	2	0	ITGB3BP	63746806	1.000000	0.71417	0.469000	0.27204	0.029000	0.11900	5.252000	0.65445	0.732000	0.32470	-0.256000	0.11100	GAT		0.259	ITGB3BP-017	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000037242.2	NM_014288		G	63974218	T	G	63974218	3	3	699	1	0	0	0	0	1	0	0	0	7903	1435	50	5	532	5	ITGB3BP	1	63974218	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	8445122	63974218	185276403	10	45776										
GNG12	55970	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	68171150	68171150	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tccactataagatgatgcaaGtttttttatccttgaaaggg	8	6	0	3			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:68171150G>C	ENST00000370982.3	-	4	402	c.203C>G	c.(202-204)aCt>aGt	p.T68S		NM_018841.5	NP_061329.3	Q9UBI6	GBG12_HUMAN	guanine nucleotide binding protein (G protein), gamma 12	68					cellular response to glucagon stimulus (GO:0071377)|cerebral cortex development (GO:0021987)|energy reserve metabolic process (GO:0006112)|G-protein coupled receptor signaling pathway (GO:0007186)|response to lipopolysaccharide (GO:0032496)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)	extracellular vesicular exosome (GO:0070062)|heterotrimeric G-protein complex (GO:0005834)|plasma membrane (GO:0005886)	PDZ domain binding (GO:0030165)|phosphate ion binding (GO:0042301)|signal transducer activity (GO:0004871)			lung(3)	3						GATGATGCAAGTTTTTTTATC	0.433																																																0													173	163	167					1																	68171150		2203	4300	6503	SO:0001583	missense	55970			AF119663	CCDS30749.1	1p31.2	2008-02-05			ENSG00000172380	ENSG00000172380			19663	protein-coding gene	gene with protein product		615405				10819326	Standard	NM_018841		Approved		uc001dea.2	Q9UBI6	OTTHUMG00000009545	ENST00000370982.3:c.203C>G	1.37:g.68171150G>C	ENSP00000360021:p.Thr68Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q69YP5|Q9BRV5	Missense_Mutation	SNP	ENST00000370982.3	37	CCDS30749.1	.	.	.	.	.	.	.	.	.	.	G	17.02	3.282741	0.59867	.	.	ENSG00000172380	ENST00000370982	T	0.20200	2.09	5.79	5.79	0.91817	G-protein gamma domain (3);	0.054877	0.85682	D	0.000000	T	0.05502	0.0145	.	.	.	0.41685	D	0.98931	B	0.27625	0.183	B	0.31495	0.131	T	0.08146	-1.0736	9	0.02654	T	1	-5.209	18.8047	0.92032	0.0:0.0:1.0:0.0	.	68	Q9UBI6	GBG12_HUMAN	S	68	ENSP00000360021:T68S	ENSP00000360021:T68S	T	-	2	0	GNG12	67943738	1.000000	0.71417	0.993000	0.49108	0.993000	0.82548	7.072000	0.76777	2.749000	0.94314	0.491000	0.48974	ACT		0.433	GNG12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026355.2			C	68171150	G	C	68171150	3	2	699	1	0	0	0	0	1	0	0	0	6532	1029	36	4	19	4	GNG12	1	68171150	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	4196932	68171150	181079471	11	45777										
GNAI3	2773	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	110125084	110125084	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	taaatgatctggatagaataTcccagtctaactacattcca	5	9	2	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:110125084T>G	ENST00000369851.4	+	5	597	c.487T>G	c.(487-489)Tcc>Gcc	p.S163A		NM_006496.3	NP_006487.1	P08754	GNAI3_HUMAN	guanine nucleotide binding protein (G protein), alpha inhibiting activity polypeptide 3	163					adenylate cyclase-inhibiting G-protein coupled receptor signaling pathway (GO:0007193)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|blood coagulation (GO:0007596)|cell cycle (GO:0007049)|cell division (GO:0051301)|negative regulation of adenylate cyclase activity (GO:0007194)|platelet activation (GO:0030168)|synaptic transmission (GO:0007268)|transport (GO:0006810)|vesicle fusion (GO:0006906)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|heterotrimeric G-protein complex (GO:0005834)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)|membrane raft (GO:0045121)|midbody (GO:0030496)|plasma membrane (GO:0005886)|zymogen granule (GO:0042588)	G-protein beta/gamma-subunit complex binding (GO:0031683)|G-protein coupled serotonin receptor binding (GO:0031821)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|metal ion binding (GO:0046872)|signal transducer activity (GO:0004871)			NS(1)|endometrium(2)|kidney(1)|lung(4)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)	12		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.046)|Colorectal(144;0.119)|Epithelial(280;0.139)|all cancers(265;0.147)|LUSC - Lung squamous cell carcinoma(189;0.237)		GGATAGAATATCCCAGTCTAA	0.368																																																0													113	107	109					1																	110125084		2203	4300	6503	SO:0001583	missense	2773			M27543	CCDS802.1	1p13	2012-10-02			ENSG00000065135	ENSG00000065135			4387	protein-coding gene	gene with protein product		139370				3109953	Standard	NM_006496		Approved	87U6	uc001dxz.3	P08754	OTTHUMG00000011648	ENST00000369851.4:c.487T>G	1.37:g.110125084T>G	ENSP00000358867:p.Ser163Ala	Somatic		WXS	Illumina HiSeq	Phase_I	P17539|Q5TZX1	Missense_Mutation	SNP	ENST00000369851.4	37	CCDS802.1	.	.	.	.	.	.	.	.	.	.	T	7.473	0.646985	0.14516	.	.	ENSG00000065135	ENST00000369851	D	0.87412	-2.25	5.92	4.78	0.61160	G protein alpha subunit, helical insertion (2);	0.050812	0.85682	D	0.000000	T	0.47358	0.1441	N	0.03115	-0.41	0.47905	D	0.999546	B	0.02656	0.0	B	0.09377	0.004	T	0.53851	-0.8380	10	0.02654	T	1	.	7.964	0.30087	0.0:0.0706:0.1352:0.7942	.	163	P08754	GNAI3_HUMAN	A	163	ENSP00000358867:S163A	ENSP00000358867:S163A	S	+	1	0	GNAI3	109926607	1.000000	0.71417	1.000000	0.80357	0.967000	0.64934	3.446000	0.52928	2.255000	0.74692	0.533000	0.62120	TCC		0.368	GNAI3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032222.1	NM_006496		G	110125084	T	G	110125084	3	3	699	1	0	0	0	0	1	0	0	0	6513	1435	50	5	505	5	GNAI3	1	110125084	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	41953934	110125084	139125537	12	45778										
KCNA2	3737	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	111147091	111147091	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cttcagagaatatatctaagGgcacattcacaggtcgcctc	8	11	3	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:111147091G>C	ENST00000485317.1	-	3	987	c.314C>G	c.(313-315)cCc>cGc	p.P105R	KCNA2_ENST00000440270.1_Missense_Mutation_p.P105R|KCNA2_ENST00000525120.1_Intron|KCNA2_ENST00000369770.3_Missense_Mutation_p.P105R|KCNA2_ENST00000316361.4_Missense_Mutation_p.P105R			P16389	KCNA2_HUMAN	potassium voltage-gated channel, shaker-related subfamily, member 2	105					optic nerve structural organization (GO:0021633)|potassium ion transport (GO:0006813)|protein homooligomerization (GO:0051260)|synaptic transmission (GO:0007268)	juxtaparanode region of axon (GO:0044224)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|outward rectifier potassium channel activity (GO:0015271)|potassium channel activity (GO:0005267)|voltage-gated potassium channel activity (GO:0005249)			endometrium(1)|kidney(1)|large_intestine(6)|liver(1)|lung(18)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	32		all_cancers(81;5.55e-06)|all_epithelial(167;1.87e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Colorectal(144;0.00878)|Lung(183;0.0234)|all cancers(265;0.0492)|Epithelial(280;0.0529)|COAD - Colon adenocarcinoma(174;0.131)|LUSC - Lung squamous cell carcinoma(189;0.133)|READ - Rectum adenocarcinoma(129;0.191)	Dalfampridine(DB06637)	TATATCTAAGGGCACATTCAC	0.473																																					Pancreas(18;568 735 10587 23710 36357)											0													43	46	45					1																	111147091		2203	4300	6503	SO:0001583	missense	3737			L02752	CCDS827.1, CCDS55625.1	1p13	2012-07-05			ENSG00000177301	ENSG00000177301		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6220	protein-coding gene	gene with protein product		176262				16382104	Standard	NM_004974		Approved	Kv1.2, HK4	uc009wfw.3	P16389	OTTHUMG00000011567	ENST00000485317.1:c.314C>G	1.37:g.111147091G>C	ENSP00000433109:p.Pro105Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q86XG6	Missense_Mutation	SNP	ENST00000485317.1	37	CCDS827.1	.	.	.	.	.	.	.	.	.	.	G	16.13	3.035653	0.54896	.	.	ENSG00000177301	ENST00000369770;ENST00000485317;ENST00000440270;ENST00000316361	T;T;T;T	0.76316	-1.01;-1.01;-1.01;-1.01	6.02	5.11	0.69529	BTB/POZ-like (1);BTB/POZ fold (2);Potassium channel, voltage dependent, Kv, tetramerisation (1);	0.112102	0.64402	D	0.000009	D	0.90195	0.6935	H	0.96048	3.76	0.80722	D	1	D;D	0.76494	0.999;0.995	D;D	0.76071	0.987;0.913	D	0.93211	0.6600	10	0.66056	D	0.02	.	15.1629	0.72798	0.0674:0.0:0.9326:0.0	.	105;105	Q86XG6;P16389	.;KCNA2_HUMAN	R	105	ENSP00000358785:P105R;ENSP00000433109:P105R;ENSP00000415257:P105R;ENSP00000314520:P105R	ENSP00000314520:P105R	P	-	2	0	KCNA2	110948614	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.807000	0.99171	1.551000	0.49450	0.655000	0.94253	CCC		0.473	KCNA2-002	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128001.2	NM_004974		C	111147091	G	C	111147091	3	2	699	1	0	0	0	0	1	0	0	0	8010	1232	43	4	1189	4	KCNA2	1	111147091	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	1022007	111147091	138103530	13	45779										
KCNN3	3782	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	154841897	154841897	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gaggggcttcatgaccccacCgctatacttgcaggagctca	11	13	2	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:154841897C>T	ENST00000271915.4	-	1	859	c.544G>A	c.(544-546)Ggt>Agt	p.G182S	KCNN3_ENST00000358505.2_5'Flank	NM_001204087.1|NM_002249.5	NP_001191016.1|NP_002240.3	Q9UGI6	KCNN3_HUMAN	potassium intermediate/small conductance calcium-activated channel, subfamily N, member 3	187					potassium ion transmembrane transport (GO:0071805)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)	calmodulin binding (GO:0005516)|small conductance calcium-activated potassium channel activity (GO:0016286)			cervix(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(11)|prostate(4)|skin(1)	28	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)		Miconazole(DB01110)|Procaine(DB00721)	ATGACCCCACCGCTATACTTG	0.672																																																0													41	45	43					1																	154841897		2203	4300	6503	SO:0001583	missense	3782			AF031815	CCDS1072.1, CCDS30880.1, CCDS72928.1	1q21.3	2012-07-05			ENSG00000143603	ENSG00000143603		"Potassium channels", "Voltage-gated ion channels / Potassium channels, calcium-activated"	6292	protein-coding gene	gene with protein product		602983				9491810, 16382103	Standard	NM_002249		Approved	KCa2.3, hSK3, SKCA3	uc021pah.1	Q9UGI6	OTTHUMG00000037260	ENST00000271915.4:c.544G>A	1.37:g.154841897C>T	ENSP00000271915:p.Gly182Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B1ANX0|O43517|Q86VF9|Q8WXG7	Missense_Mutation	SNP	ENST00000271915.4	37	CCDS30880.1	.	.	.	.	.	.	.	.	.	.	C	24.6	4.553945	0.86231	.	.	ENSG00000143603	ENST00000271915	D	0.99578	-6.21	4.75	4.75	0.60458	.	0.315768	0.23144	N	0.051433	D	0.98896	0.9626	N	0.14661	0.345	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.87578	0.998;0.998	D	0.99894	1.1143	10	0.87932	D	0	-8.6442	15.2952	0.73898	0.0:1.0:0.0:0.0	.	188;187	Q6JXY2;Q9UGI6	.;KCNN3_HUMAN	S	182	ENSP00000271915:G182S	ENSP00000271915:G182S	G	-	1	0	KCNN3	153108521	1.000000	0.71417	0.989000	0.46669	0.993000	0.82548	7.464000	0.80887	2.461000	0.83175	0.563000	0.77884	GGT		0.672	KCNN3-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090688.3	NM_002249		T	154841897	C	T	154841897	3	4	699	1	0	0	0	0	1	0	0	0	8087	652	23	1	1705	1	KCNN3	1	154841897	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	43694806	154841897	94408724	14	45780										
ZBTB7B	51043	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	154987232	154987232	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gagcagcgccagctgggccaCctatgtgacctcaccatccg	11	16	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:154987232C>G	ENST00000368426.3	+	3	233	c.96C>G	c.(94-96)caC>caG	p.H32Q	ZBTB7B_ENST00000417934.2_Missense_Mutation_p.H66Q|ZBTB7B_ENST00000535420.1_Missense_Mutation_p.H32Q|ZBTB7B_ENST00000487542.1_3'UTR|ZBTB7B_ENST00000292176.2_Missense_Mutation_p.H32Q	NM_001256455.1	NP_001243384.1	O15156	ZBT7B_HUMAN	zinc finger and BTB domain containing 7B	32					cell differentiation (GO:0030154)|ectoderm development (GO:0007398)|multicellular organismal development (GO:0007275)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			endometrium(4)|kidney(1)|large_intestine(2)|liver(1)|lung(14)|ovary(1)|prostate(3)|skin(3)	29	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)			AGCTGGGCCACCTATGTGACC	0.587																																																0													68	69	69					1																	154987232		2203	4300	6503	SO:0001583	missense	51043			AF007833	CCDS1081.1, CCDS58030.1	1q21.2	2013-01-08		2005-04-07	ENSG00000160685	ENSG00000160685		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	18668	protein-coding gene	gene with protein product	"zinc finger and BTB domain containing 15"	607646	"zinc finger protein 67 homolog (mouse)"	ZFP67		9370309, 7937772	Standard	NR_045515		Approved	ZBTB15, c-Krox, hcKrox, ZNF857B	uc010peq.3	O15156	OTTHUMG00000037414	ENST00000368426.3:c.96C>G	1.37:g.154987232C>G	ENSP00000357411:p.His32Gln	Somatic		WXS	Illumina HiSeq	Phase_I	B4E3K5|D3DV83|J3KQQ3|Q68DR2|Q96EP2	Missense_Mutation	SNP	ENST00000368426.3	37	CCDS1081.1	.	.	.	.	.	.	.	.	.	.	C	10.76	1.439712	0.25900	.	.	ENSG00000160685	ENST00000535420;ENST00000368426;ENST00000417934;ENST00000292176	T;T;T;T	0.66280	-0.2;-0.2;-0.2;-0.2	3.59	-1.19	0.09585	BTB/POZ (1);BTB/POZ fold (2);	0.413847	0.21695	N	0.070510	T	0.12561	0.0305	N	0.02539	-0.55	0.27857	N	0.940546	B;B;B	0.09022	0.002;0.001;0.002	B;B;B	0.08055	0.003;0.002;0.003	T	0.21075	-1.0256	10	0.66056	D	0.02	.	5.0228	0.14370	0.0:0.4765:0.1713:0.3521	.	32;32;66	A8K6F4;O15156;B4E3K5	.;ZBT7B_HUMAN;.	Q	32;32;66;32	ENSP00000438647:H32Q;ENSP00000357411:H32Q;ENSP00000406286:H66Q;ENSP00000292176:H32Q	ENSP00000292176:H32Q	H	+	3	2	ZBTB7B	153253856	0.762000	0.28451	0.963000	0.40424	0.981000	0.71138	-0.185000	0.09684	-0.072000	0.12864	-0.379000	0.06801	CAC		0.587	ZBTB7B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091083.1	NM_015872		G	154987232	C	G	154987232	3	3	699	1	0	0	0	0	1	0	0	0	17566	506	18	4	98	4	ZBTB7B	1	154987232	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	145335	154987232	94263389	15	45781										
KLHDC8A	55220	bcgsc.ca	37	chr1	205306599	205306599	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	acacctcccacggcgaggagGcagttcttgacgactatgct	11	13	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:205306599G>T	ENST00000367156.3	-	9	1797	c.981C>A	c.(979-981)tgC>tgA	p.C327*	KLHDC8A_ENST00000537168.1_Nonsense_Mutation_p.C214*|KLHDC8A_ENST00000460687.1_Nonsense_Mutation_p.C193*|KLHDC8A_ENST00000539253.1_Nonsense_Mutation_p.C327*|KLHDC8A_ENST00000367155.3_Nonsense_Mutation_p.C327*	NM_001271863.1	NP_001258792.1	Q8IYD2	KLD8A_HUMAN	kelch domain containing 8A	327										breast(1)|endometrium(3)|large_intestine(1)|lung(4)|ovary(1)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	14	Breast(84;0.23)		BRCA - Breast invasive adenocarcinoma(75;0.117)			CGGCGAGGAGGCAGTTCTTGA	0.602																																																0													215	199	204					1																	205306599		2203	4300	6503	SO:0001587	stop_gained	55220				CCDS30985.1	1q32.1	2008-02-05			ENSG00000162873	ENSG00000162873			25573	protein-coding gene	gene with protein product		614503					Standard	NM_018203		Approved	FLJ10748	uc031prx.1	Q8IYD2	OTTHUMG00000037199	ENST00000367156.3:c.981C>A	1.37:g.205306599G>T	ENSP00000356124:p.Cys327*	Somatic		WXS	Illumina HiSeq	Phase_1	B3KU70|Q9NVG5	Nonsense_Mutation	SNP	ENST00000367156.3	37	CCDS30985.1	.	.	.	.	.	.	.	.	.	.	G	36	5.757579	0.96898	.	.	ENSG00000162873	ENST00000367155;ENST00000367156;ENST00000539253;ENST00000537168	.	.	.	5.43	3.46	0.39613	.	0.049173	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.33141	T	0.24	-27.1551	5.738	0.18077	0.1704:0.0:0.6798:0.1498	.	.	.	.	X	327;327;327;214	.	ENSP00000356123:C327X	C	-	3	2	KLHDC8A	203573222	1.000000	0.71417	1.000000	0.80357	0.948000	0.59901	1.937000	0.40193	1.185000	0.42971	0.591000	0.81541	TGC		0.602	KLHDC8A-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000090397.1	NM_018203		T	205306599	G	T	205306599	4	4	699	1	0	0	0	0	0	1	0	0	8369	1195	42	4	75	4	KLHDC8A	1	205306599	Nonsense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	50319367	205306599	43944022	16	45782										
RCOR3	55758	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	211462545	211462545	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tactgaacaacctgtccaaaCtagcaagattggacttggaa	8	9	0	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:211462545C>A	ENST00000367005.4	+	7	713	c.572C>A	c.(571-573)aCt>aAt	p.T191N	RCOR3_ENST00000452621.2_Missense_Mutation_p.T249N|RCOR3_ENST00000367006.4_Missense_Mutation_p.T249N|RCOR3_ENST00000419091.2_Missense_Mutation_p.T249N	NM_018254.3	NP_060724.1	Q9P2K3	RCOR3_HUMAN	REST corepressor 3	191					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			breast(1)|endometrium(1)|kidney(2)|large_intestine(6)|lung(6)|ovary(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	21				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)		CCTGTCCAAACTAGCAAGATT	0.378																																																0													127	113	118					1																	211462545		2203	4300	6503	SO:0001583	missense	55758			AK001738	CCDS31016.1, CCDS44312.1, CCDS44313.1, CCDS44314.1	1q32.3	2008-02-05			ENSG00000117625	ENSG00000117625			25594	protein-coding gene	gene with protein product						10718198	Standard	NM_018254		Approved	FLJ10876	uc010psw.2	Q9P2K3	OTTHUMG00000036996	ENST00000367005.4:c.572C>A	1.37:g.211462545C>A	ENSP00000355972:p.Thr191Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B3KYA2|B4DYY7|Q5VT47|Q7L9I5|Q8N5U3|Q9NV83	Missense_Mutation	SNP	ENST00000367005.4	37	CCDS31016.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	13.33|13.33	2.205841|2.205841	0.39003|0.39003	.|.	.|.	ENSG00000117625|ENSG00000117625	ENST00000534460|ENST00000367006;ENST00000452621;ENST00000419091;ENST00000367005;ENST00000529763	.|T;T;T;T	.|0.28454	.|1.61;1.61;1.61;1.61	5.62|5.62	4.7|4.7	0.59300|0.59300	.|.	.|0.488580	.|0.25119	.|N	.|0.032996	T|T	0.17874|0.17874	0.0429|0.0429	N|N	0.11201|0.11201	0.11|0.11	0.38814|0.38814	D|D	0.955493|0.955493	.|B;B;B;B	.|0.17268	.|0.002;0.0;0.021;0.018	.|B;B;B;B	.|0.15052	.|0.003;0.001;0.006;0.012	T|T	0.06250|0.06250	-1.0837|-1.0837	5|10	.|0.14252	.|T	.|0.57	-7.2822|-7.2822	16.1088|16.1088	0.81244|0.81244	0.0:0.8548:0.1452:0.0|0.0:0.8548:0.1452:0.0	.|.	.|249;191;249;249	.|Q9P2K3-3;Q9P2K3;Q9P2K3-2;Q9P2K3-4	.|.;RCOR3_HUMAN;.;.	K|N	35|249;249;249;191;9	.|ENSP00000355973:T249N;ENSP00000398558:T249N;ENSP00000413929:T249N;ENSP00000355972:T191N	.|ENSP00000355972:T191N	N|T	+|+	3|2	2|0	RCOR3|RCOR3	209529168|209529168	0.981000|0.981000	0.34729|0.34729	0.995000|0.995000	0.50966|0.50966	0.997000|0.997000	0.91878|0.91878	2.148000|2.148000	0.42235|0.42235	1.335000|1.335000	0.45486|0.45486	0.655000|0.655000	0.94253|0.94253	AAC|ACT		0.378	RCOR3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000089821.1	NM_018254		A	211462545	C	A	211462545	3	1	699	1	0	0	0	0	1	0	0	0	13197	565	20	4	776	4	RCOR3	1	211462545	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	6155946	211462545	37788076	17	45783										
AKT3	10000	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	243800913	243800913	+	Splice_Site	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	aactttaataaatcagttacCtttgcaataatgacttcttt	3	7	2	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:243800913C>T	ENST00000366539.1	-	6	761	c.561G>A	c.(559-561)aaG>aaA	p.K187K	AKT3_ENST00000366540.1_Splice_Site_p.K187K|AKT3_ENST00000336199.5_Splice_Site_p.K187K|AKT3_ENST00000263826.5_Splice_Site_p.K187K			Q9Y243	AKT3_HUMAN	v-akt murine thymoma viral oncogene homolog 3	187	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				mitochondrial genome maintenance (GO:0000002)|protein phosphorylation (GO:0006468)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(12)|prostate(1)|skin(3)|stomach(1)	26	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)			AATCAGTTACCTTTGCAATAA	0.328																																																0													81	81	81					1																	243800913		2202	4295	6497	SO:0001630	splice_region_variant	10000			AF124141	CCDS31076.1, CCDS31077.1	1q44	2013-07-09	2013-07-09		ENSG00000117020	ENSG00000117020	2.7.11.1	"Pleckstrin homology (PH) domain containing"	393	protein-coding gene	gene with protein product	"protein kinase B, gamma"	611223				10092583, 10208883	Standard	NM_005465		Approved	PKBG, RAC-gamma, PRKBG	uc001iab.2	Q9Y243	OTTHUMG00000039994	ENST00000366539.1:c.561+1G>A	1.37:g.243800913C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q0VAA6|Q5VTI1|Q5VTI2|Q96QV3|Q9UFP5	Silent	SNP	ENST00000366539.1	37	CCDS31077.1																																																																																				0.328	AKT3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000096479.1	NM_181690	Silent	T	243800913	C	T	243800913	5	4	699	1	0	0	0	0	0	0	1	0	481	695	24	2	962	2	AKT3	1	243800913	Splice_Site	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	32338368	243800913	5449708	18	45784										
OR2C3	81472	broad.mit.edu	37	chr1	247694872	247694872	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	taaatttgcgccagcttgccTgcagagccacagcagttctc	9	13	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr1:247694872T>A	ENST00000366487.3	-	2	1303	c.942A>T	c.(940-942)gcA>gcT	p.A314A	GCSAML_ENST00000463359.1_Intron|GCSAML_ENST00000366490.3_Intron|GCSAML_ENST00000527084.1_Intron|GCSAML_ENST00000366489.1_Intron|GCSAML_ENST00000527541.1_Intron|GCSAML_ENST00000366491.2_Intron|GCSAML_ENST00000531662.1_Intron	NM_198074.4	NP_932340	Q8N628	OR2C3_HUMAN	olfactory receptor, family 2, subfamily C, member 3	314						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			breast(1)|endometrium(5)|large_intestine(2)|lung(31)|ovary(1)|prostate(1)|skin(2)	43	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0242)	OV - Ovarian serous cystadenocarcinoma(106;0.0241)			CCAGCTTGCCTGCAGAGCCAC	0.517																																																0													58	54	56					1																	247694872		2203	4300	6503	SO:0001819	synonymous_variant	81472			BC030717	CCDS1634.2	1q44	2014-02-19	2002-02-28		ENSG00000196242	ENSG00000196242		"GPCR / Class A : Olfactory receptors"	15005	protein-coding gene	gene with protein product			"olfactory receptor, family 2, subfamily C, member 4"	OR2C4, OR2C5P			Standard	NM_198074		Approved	OST742	uc009xgy.3	Q8N628	OTTHUMG00000040579	ENST00000366487.3:c.942A>T	1.37:g.247694872T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JQS4|Q6IEZ1|Q8NGW7	Silent	SNP	ENST00000366487.3	37	CCDS1634.2																																																																																				0.517	OR2C3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097626.2	NM_198074		A	247694872	T	A	247694872	2	1	699	1	0	0	0	0	0	0	0	1	11000	1567	55	5		5	OR2C3	1	247694872	Silent	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	3893959	247694872	1555749	19	45785										
KCNS3	3790	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	18113163	18113163	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cagatcctacggcttatgagGattttccgaattctaaagct	8	9	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr2:18113163G>C	ENST00000403915.1	+	3	1339	c.888G>C	c.(886-888)agG>agC	p.R296S	KCNS3_ENST00000465292.1_Intron|KCNS3_ENST00000304101.4_Missense_Mutation_p.R296S	NM_001282428.1	NP_001269357.1	Q9BQ31	KCNS3_HUMAN	potassium voltage-gated channel, delayed-rectifier, subfamily S, member 3	296					energy reserve metabolic process (GO:0006112)|potassium ion transport (GO:0006813)|protein homooligomerization (GO:0051260)|regulation of insulin secretion (GO:0050796)|small molecule metabolic process (GO:0044281)|synaptic transmission (GO:0007268)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|plasma membrane (GO:0005886)|voltage-gated potassium channel complex (GO:0008076)	delayed rectifier potassium channel activity (GO:0005251)|potassium channel regulator activity (GO:0015459)			endometrium(5)|kidney(1)|large_intestine(7)|lung(11)|ovary(4)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	32	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					GGCTTATGAGGATTTTCCGAA	0.502																																																0													109	107	108					2																	18113163		2203	4300	6503	SO:0001583	missense	3790			AF043472	CCDS1692.1	2p24	2011-07-05			ENSG00000170745	ENSG00000170745		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6302	protein-coding gene	gene with protein product		603888				10484328, 16382104	Standard	NM_002252		Approved	Kv9.3	uc002rcw.3	Q9BQ31	OTTHUMG00000044150	ENST00000403915.1:c.888G>C	2.37:g.18113163G>C	ENSP00000385968:p.Arg296Ser	Somatic		WXS	Illumina HiSeq	Phase_I	D6W520|O43651|Q4ZFY1|Q96B56	Missense_Mutation	SNP	ENST00000403915.1	37	CCDS1692.1	.	.	.	.	.	.	.	.	.	.	G	15.35	2.808968	0.50421	.	.	ENSG00000170745	ENST00000403915;ENST00000304101	D;D	0.99594	-6.25;-6.25	5.86	1.98	0.26296	Ion transport (1);	0.000000	0.85682	D	0.000000	D	0.99638	0.9867	H	0.96301	3.8	0.52099	D	0.999942	D	0.76494	0.999	D	0.85130	0.997	D	0.99194	1.0871	10	0.87932	D	0	.	6.5286	0.22314	0.2607:0.1183:0.621:0.0	.	296	Q9BQ31	KCNS3_HUMAN	S	296	ENSP00000385968:R296S;ENSP00000305824:R296S	ENSP00000305824:R296S	R	+	3	2	KCNS3	17976644	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.263000	0.33004	0.374000	0.24650	0.655000	0.94253	AGG		0.502	KCNS3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000323808.1	NM_002252		C	18113163	G	C	18113163	3	2	699	1	0	0	0	0	1	0	0	0	8097	1165	41	4	890	4	KCNS3	2	18113163	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10		18113163	225086210	20	45786										
KHK	3795	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	27315218	27315218	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	aggtgtttgtcccagagatgGcagcgcggaggcaacgcgtc	16	10	0	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr2:27315218G>T	ENST00000260599.6	+	2	624	c.111G>T	c.(109-111)tgG>tgT	p.W37C	KHK_ENST00000260598.5_Missense_Mutation_p.W37C|KHK_ENST00000490823.1_3'UTR	NM_000221.2	NP_000212.1	P50053	KHK_HUMAN	ketohexokinase (fructokinase)	37					carbohydrate metabolic process (GO:0005975)|carbohydrate phosphorylation (GO:0046835)|fructose catabolic process (GO:0006001)|regulation of glycogen metabolic process (GO:0070873)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ketohexokinase activity (GO:0004454)			endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(2)|lung(4)|skin(1)|upper_aerodigestive_tract(1)	16	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCCAGAGATGGCAGCGCGGAG	0.607																																																0													91	80	84					2																	27315218		2203	4300	6503	SO:0001583	missense	3795				CCDS1734.1, CCDS1735.1	2p23.3-p23.2	2008-02-05			ENSG00000138030	ENSG00000138030	2.7.1.3		6315	protein-coding gene	gene with protein product		614058				7833921	Standard	NM_000221		Approved		uc002rim.2	P50053	OTTHUMG00000097077	ENST00000260599.6:c.111G>T	2.37:g.27315218G>T	ENSP00000260599:p.Trp37Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IBK2|Q99532|Q9BRJ3|Q9UMN1	Missense_Mutation	SNP	ENST00000260599.6	37	CCDS1734.1	.	.	.	.	.	.	.	.	.	.	G	15.16	2.750913	0.49257	.	.	ENSG00000138030	ENST00000260599;ENST00000260598;ENST00000429697	T;T;T	0.75938	-0.98;-0.98;-0.98	5.5	5.5	0.81552	Carbohydrate/purine kinase (1);	0.000000	0.85682	D	0.000000	D	0.88377	0.6420	M	0.90082	3.085	0.80722	D	1	D;P;D	0.76494	0.999;0.495;0.999	D;B;D	0.75020	0.985;0.122;0.985	D	0.89208	0.3562	10	0.46703	T	0.11	-18.2402	16.8828	0.86067	0.0:0.0:1.0:0.0	.	37;37;37	Q6IBK2;P50053-2;P50053	.;.;KHK_HUMAN	C	37	ENSP00000260599:W37C;ENSP00000260598:W37C;ENSP00000404741:W37C	ENSP00000260598:W37C	W	+	3	0	KHK	27168722	1.000000	0.71417	1.000000	0.80357	0.325000	0.28411	8.964000	0.93389	2.595000	0.87683	0.462000	0.41574	TGG		0.607	KHK-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000214196.1			T	27315218	G	T	27315218	3	4	699	1	0	0	0	0	1	0	0	0	8156	1212	42	4	117	4	KHK	2	27315218	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	9202055	27315218	215884155	21	45787										
ERLEC1	27248	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	54028861	54028861	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	actgaacaggttcagagcatCtcctgtgaatgacatatttt	8	8	2	4			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr2:54028861C>A	ENST00000185150.4	+	8	892	c.761C>A	c.(760-762)tCt>tAt	p.S254Y	ERLEC1_ENST00000378239.5_Missense_Mutation_p.S254Y|ASB3_ENST00000406625.2_Intron|ERLEC1_ENST00000405123.3_Missense_Mutation_p.S254Y|ASB3_ENST00000498475.2_Intron|GPR75-ASB3_ENST00000352846.3_Intron	NM_015701.4	NP_056516.2	Q96DZ1	ERLEC_HUMAN	endoplasmic reticulum lectin 1	254					ER-associated ubiquitin-dependent protein catabolic process (GO:0030433)	endoplasmic reticulum lumen (GO:0005788)	glycoprotein binding (GO:0001948)			endometrium(2)|large_intestine(4)|lung(8)|ovary(2)|stomach(1)|urinary_tract(1)	18						TTCAGAGCATCTCCTGTGAAT	0.418																																																0													102	92	96					2																	54028861		2203	4300	6503	SO:0001583	missense	27248			AF131849	CCDS1848.1, CCDS46283.1, CCDS46284.1	2p16	2010-03-19	2009-08-26	2009-08-26	ENSG00000068912	ENSG00000068912			25222	protein-coding gene	gene with protein product	"erlectin 1"	611229	"chromosome 2 open reading frame 30"	C2orf30		9110174, 8619474, 16531414, 18264092	Standard	NM_015701		Approved	CL25084, XTP3TPB, XTP3-B, ERLECTIN	uc002rxl.3	Q96DZ1	OTTHUMG00000129281	ENST00000185150.4:c.761C>A	2.37:g.54028861C>A	ENSP00000185150:p.Ser254Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDB4|B5MC72|O95901|Q6UWN7|Q9NUY7|Q9UQL4	Missense_Mutation	SNP	ENST00000185150.4	37	CCDS1848.1	.	.	.	.	.	.	.	.	.	.	C	28.3	4.909863	0.92107	.	.	ENSG00000068912	ENST00000405123;ENST00000185150;ENST00000378239	T;T	0.47528	0.84;0.84	5.95	5.95	0.96441	.	0.000000	0.85682	D	0.000000	T	0.71350	0.3329	.	.	.	0.80722	D	1	D;P;D	0.71674	0.997;0.756;0.998	D;B;D	0.69479	0.964;0.283;0.931	T	0.72567	-0.4254	9	0.72032	D	0.01	-13.4706	20.4024	0.99000	0.0:1.0:0.0:0.0	.	254;254;254	Q96DZ1-2;B5MC72;Q96DZ1	.;.;ERLEC_HUMAN	Y	254	ENSP00000385629:S254Y;ENSP00000185150:S254Y	ENSP00000185150:S254Y	S	+	2	0	ERLEC1	53882365	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.818000	0.86416	2.827000	0.97445	0.650000	0.86243	TCT		0.418	ERLEC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251404.1	NM_015701		A	54028861	C	A	54028861	3	1	699	1	0	0	0	0	1	0	0	0	5233	913	32	4	791	4	ERLEC1	2	54028861	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	26713643	54028861	189170512	22	45788										
NAGK	55577	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	71304704	71304704	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ccaggtcttgttccagggcaAgattggactccccatcctgt	10	13	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr2:71304704A>G	ENST00000244204.6	+	9	844	c.782A>G	c.(781-783)aAg>aGg	p.K261R	NAGK_ENST00000443872.2_Missense_Mutation_p.K113R|NAGK_ENST00000455662.2_Missense_Mutation_p.K307R|NAGK_ENST00000443938.2_Missense_Mutation_p.K257R|NAGK_ENST00000418807.3_Missense_Mutation_p.K210R			Q9UJ70	NAGK_HUMAN	N-acetylglucosamine kinase	261					carbohydrate phosphorylation (GO:0046835)|N-acetylglucosamine metabolic process (GO:0006044)|N-acetylmannosamine metabolic process (GO:0006051)|N-acetylneuraminate catabolic process (GO:0019262)	extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|N-acetylglucosamine kinase activity (GO:0045127)			breast(1)|endometrium(4)|kidney(2)|large_intestine(3)|lung(7)|urinary_tract(1)	18					N-Acetyl-D-glucosamine(DB00141)	TTCCAGGGCAAGATTGGACTC	0.602																																																0													66	53	57					2																	71304704		2203	4300	6503	SO:0001583	missense	55577			AJ242910	CCDS33220.1, CCDS33220.2	2p24.3-p24.1	2008-02-05			ENSG00000124357	ENSG00000124357	2.7.1.59		17174	protein-coding gene	gene with protein product		606828				10824116	Standard	NM_017567		Approved	GNK	uc002shp.4	Q9UJ70	OTTHUMG00000153239	ENST00000244204.6:c.782A>G	2.37:g.71304704A>G	ENSP00000244204:p.Lys261Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DLZ5|Q53HD5|Q6IA84|Q9BS29|Q9BVP0|Q9NV37	Missense_Mutation	SNP	ENST00000244204.6	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	11.73|11.73	1.724892|1.724892	0.30593|0.30593	.|.	.|.	ENSG00000124357|ENSG00000124357	ENST00000244204;ENST00000455662;ENST00000418807|ENST00000443938	T;T;T|.	0.44083|.	1.52;1.49;0.93|.	5.63|5.63	1.85|1.85	0.25348|0.25348	ATPase, BadF/BadG/BcrA/BcrD type (1);|.	0.811995|.	0.11191|.	N|.	0.589950|.	T|T	0.17619|0.17619	0.0423|0.0423	N|N	0.14661|0.14661	0.345|0.345	0.09310|0.09310	N|N	1|1	B|.	0.02656|.	0.0|.	B|.	0.04013|.	0.001|.	T|T	0.18398|0.18398	-1.0338|-1.0338	10|5	0.18276|.	T|.	0.48|.	-17.2471|-17.2471	2.0065|2.0065	0.03478|0.03478	0.4877:0.2795:0.0916:0.1411|0.4877:0.2795:0.0916:0.1411	.|.	261|.	Q9UJ70|.	NAGK_HUMAN|.	R|G	261;307;210|279	ENSP00000244204:K261R;ENSP00000389087:K307R;ENSP00000396070:K210R|.	ENSP00000244204:K261R|.	K|R	+|+	2|1	0|2	NAGK|NAGK	71158212|71158212	0.037000|0.037000	0.19845|0.19845	0.003000|0.003000	0.11579|0.11579	0.043000|0.043000	0.13939|0.13939	1.412000|1.412000	0.34714|0.34714	0.937000|0.937000	0.37394|0.37394	-0.336000|-0.336000	0.08194|0.08194	AAG|AGA		0.602	NAGK-032	NOVEL	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000471889.1			G	71304704	A	G	71304704	3	3	699	1	0	0	0	0	1	0	0	0	10149	72	3	3	954	3	NAGK	2	71304704	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	17275843	71304704	171894669	23	45789										
RANBP2	5903	bcgsc.ca	37	chr2	109382102	109382103	+	Missense_Mutation	DNP	AC	AC	GT													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	aaactacttctgcagtttcaAcacctgcctcttcagagaca							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	AC	AC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr2:109382102_109382103AC>GT	ENST00000283195.6	+	20	5233_5234	c.5107_5108AC>GT	c.(5107-5109)ACa>GTa	p.T1703V		NM_006267.4	NP_006258.3	P49792	RBP2_HUMAN	RAN binding protein 2	1703					carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|negative regulation of glucokinase activity (GO:0033132)|protein folding (GO:0006457)|protein import into nucleus (GO:0006606)|protein sumoylation (GO:0016925)|regulation of gluconeogenesis involved in cellular glucose homeostasis (GO:0090526)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrion (GO:0005739)|nuclear inclusion body (GO:0042405)|nuclear membrane (GO:0031965)|nuclear pore (GO:0005643)|nuclear pore nuclear basket (GO:0044615)	ligase activity (GO:0016874)|peptidyl-prolyl cis-trans isomerase activity (GO:0003755)|Ran GTPase binding (GO:0008536)|RNA binding (GO:0003723)|zinc ion binding (GO:0008270)		RANBP2/ALK(34)	NS(1)|biliary_tract(1)|breast(3)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(21)|large_intestine(19)|lung(51)|pancreas(1)|prostate(8)|skin(7)|upper_aerodigestive_tract(2)|urinary_tract(1)	129						TGCAGTTTCAACACCTGCCTCT	0.436																																																0																																										SO:0001583	missense	5903			D42063	CCDS2079.1	2q13	2013-11-14			ENSG00000153201	ENSG00000153201		"Tetratricopeptide (TTC) repeat domain containing"	9848	protein-coding gene	gene with protein product		601181	"acute necrotizing encephalopathy 1 (autosomal dominant)"	ANE1		7724562, 19118815	Standard	NM_006267		Approved	NUP358, ADANE	uc002tem.4	P49792	OTTHUMG00000130981	Exception_encountered	2.37:g.109382102_109382103delinsGT	ENSP00000283195:p.Thr1703Val	Somatic		WXS	Illumina HiSeq	Phase_1	Q13074|Q15280|Q53TE2|Q59FH7	Missense_Mutation	DNP	ENST00000283195.6	37	CCDS2079.1																																																																																				0.436	RANBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253594.1	NM_006267		GT	109382103	AC	GT	109382102	3	3	699	1	0	0	0	0	1	0	0	0	13041	43	2	3	5185	3	RANBP2	2	109382102	Missense_Mutation	DNP	AC	TCGA-P4-A5EB-01A-11D-A28G-10	38077398	109382102	133817271	24	45790										
UGGT1	56886	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	128941262	128941262	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tattcagtgcactatatgttGtggatctgaagaagtttagg	11	4	2	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr2:128941262G>T	ENST00000259253.6	+	38	4305	c.4258G>T	c.(4258-4260)Gtg>Ttg	p.V1420L	UGGT1_ENST00000375990.3_Missense_Mutation_p.V1396L	NM_020120.3	NP_064505.1	Q9NYU2	UGGG1_HUMAN	UDP-glucose glycoprotein glucosyltransferase 1	1420	Glucosyltransferase. {ECO:0000250}.				'de novo' posttranslational protein folding (GO:0051084)|cellular protein metabolic process (GO:0044267)|post-translational protein modification (GO:0043687)|protein folding (GO:0006457)|protein N-linked glycosylation via asparagine (GO:0018279)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum lumen (GO:0005788)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|extracellular vesicular exosome (GO:0070062)	UDP-glucose:glycoprotein glucosyltransferase activity (GO:0003980)|unfolded protein binding (GO:0051082)			NS(1)|breast(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(9)|large_intestine(14)|lung(20)|ovary(1)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	63						ACTATATGTTGTGGATCTGAA	0.438																																																0													107	102	104					2																	128941262		2203	4300	6503	SO:0001583	missense	56886			AF227905	CCDS2154.1	2q14.3	2009-07-23	2009-07-23	2009-07-23	ENSG00000136731	ENSG00000136731			15663	protein-coding gene	gene with protein product		605897	"UDP-glucose ceramide glucosyltransferase-like 1"	UGCGL1		10694380	Standard	NM_020120		Approved	HUGT1	uc002tps.3	Q9NYU2	OTTHUMG00000131570	ENST00000259253.6:c.4258G>T	2.37:g.128941262G>T	ENSP00000259253:p.Val1420Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q53QP2|Q53SL3|Q8IW30|Q9H8I4	Missense_Mutation	SNP	ENST00000259253.6	37	CCDS2154.1	.	.	.	.	.	.	.	.	.	.	G	26.4	4.733269	0.89482	.	.	ENSG00000136731	ENST00000375990;ENST00000259253	T;T	0.37411	1.2;1.2	4.66	4.66	0.58398	.	0.000000	0.85682	D	0.000000	T	0.71978	0.3404	H	0.96175	3.78	0.80722	D	1	D	0.71674	0.998	D	0.69307	0.963	T	0.82600	-0.0377	9	.	.	.	.	18.0955	0.89488	0.0:0.0:1.0:0.0	.	1420	Q9NYU2	UGGG1_HUMAN	L	1396;1420	ENSP00000365158:V1396L;ENSP00000259253:V1420L	.	V	+	1	0	UGGT1	128657732	1.000000	0.71417	0.994000	0.49952	0.844000	0.47949	9.090000	0.94144	2.577000	0.86979	0.563000	0.77884	GTG		0.438	UGGT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254435.2	NM_020120		T	128941262	G	T	128941262	3	4	699	1	0	0	0	0	1	0	0	0	16953	1377	48	4	4408	4	UGGT1	2	128941262	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	19559160	128941262	114258111	25	45791										
YSK4	80122	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	135744072	135744072	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ttcatggactgctcaggtgtCtgagccaagttcatgggatg	13	8	4	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr2:135744072C>G	ENST00000375845.3	-	7	2400	c.2370G>C	c.(2368-2370)caG>caC	p.Q790H	MAP3K19_ENST00000392915.1_Missense_Mutation_p.Q807H|MAP3K19_ENST00000392918.3_Intron|MAP3K19_ENST00000315513.3_5'UTR|MAP3K19_ENST00000358371.4_Missense_Mutation_p.Q677H|MAP3K19_ENST00000375844.3_Intron|MAP3K19_ENST00000392917.3_Intron	NM_001018044.2|NM_025052.3	NP_001018054.1|NP_079328.3	Q56UN5	M3K19_HUMAN	mitogen-activated protein kinase kinase kinase 19	790							ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)										GCTCAGGTGTCTGAGCCAAGT	0.398																																																0													65	65	65					2																	135744072		2203	4300	6503	SO:0001583	missense	80122			AK026727	CCDS2176.2, CCDS33293.1, CCDS63021.1, CCDS63020.1, CCDS63022.1	2q21.3	2012-10-16	2012-10-16	2012-10-16	ENSG00000176601	ENSG00000176601		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	26249	protein-coding gene	gene with protein product			"Yeast Sps1/Ste20-related kinase 4 (S. cerevisiae)", "yeast Sps1/Ste20-related kinase 4 (S. cerevisiae)", "YSK4 Sps1/Ste20-related kinase homolog (S. cerevisiae)"	YSK4		12477932	Standard	NM_001282883		Approved	FLJ23074	uc002tue.1	Q56UN5	OTTHUMG00000074083	ENST00000375845.3:c.2370G>C	2.37:g.135744072C>G	ENSP00000365005:p.Gln790His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP57|B7ZMH9|E2QRE3|Q56UN1|Q56UN2|Q56UN3|Q56UN4|Q8N4E9|Q9H5T2	Missense_Mutation	SNP	ENST00000375845.3	37	CCDS2176.2	.	.	.	.	.	.	.	.	.	.	C	0.926	-0.714163	0.03206	.	.	ENSG00000176601	ENST00000375845;ENST00000358371;ENST00000392915;ENST00000437365	T;T;T;T	0.72615	-0.53;-0.53;1.83;-0.67	4.61	0.257	0.15574	.	0.519636	0.16240	N	0.223204	T	0.48607	0.1509	N	0.17082	0.46	0.09310	N	0.999998	B;B;B	0.23854	0.023;0.092;0.014	B;B;B	0.22880	0.028;0.042;0.013	T	0.31971	-0.9924	10	0.35671	T	0.21	.	6.5935	0.22659	0.0:0.5532:0.2308:0.2159	.	677;807;790	Q56UN5-3;A8MWG7;Q56UN5	.;.;YSK4_HUMAN	H	790;677;807;180	ENSP00000365005:Q790H;ENSP00000351140:Q677H;ENSP00000376647:Q807H;ENSP00000392827:Q180H	ENSP00000351140:Q677H	Q	-	3	2	YSK4	135460542	0.000000	0.05858	0.005000	0.12908	0.148000	0.21650	-0.294000	0.08309	0.133000	0.18654	0.407000	0.27541	CAG		0.398	MAP3K19-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000158244.1	NM_025052		G	135744072	C	G	135744072	3	3	699	1	0	0	0	0	1	0	0	0	17507	912	32	4	1632	4	YSK4	2	135744072	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	6802810	135744072	107455301	26	45792										
GCA	25801	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	163208899	163208899	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gatgtttgacacagtctggaAttaatggaacttactctcgt	9	7	2	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr2:163208899A>C	ENST00000437150.2	+	3	405	c.244A>C	c.(244-246)Att>Ctt	p.I82L	GCA_ENST00000233612.4_Missense_Mutation_p.I63L|GCA_ENST00000429691.2_Missense_Mutation_p.I63L|GCA_ENST00000473240.1_3'UTR	NM_012198.3	NP_036330.1	P28676	GRAN_HUMAN	grancalcin, EF-hand calcium binding protein	82	EF-hand 1. {ECO:0000255|PROSITE- ProRule:PRU00448}.				membrane fusion (GO:0061025)|proteolysis (GO:0006508)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)			autonomic_ganglia(1)|central_nervous_system(1)|endometrium(2)|lung(4)|ovary(1)	9						ACAGTCTGGAATTAATGGAAC	0.308																																																0													175	175	175					2																	163208899		2203	4300	6503	SO:0001583	missense	25801			M81637	CCDS2218.1	2q24.2	2013-01-10	2001-11-28		ENSG00000115271	ENSG00000115271		"EF-hand domain containing"	15990	protein-coding gene	gene with protein product		607030	"grancalcin, EF-hand calcium-binding protein"			1737748, 1530588, 12804766	Standard	NM_012198		Approved	GCL	uc002ucg.3	P28676	OTTHUMG00000132057	ENST00000437150.2:c.244A>C	2.37:g.163208899A>C	ENSP00000394842:p.Ile82Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R5X3|Q53TB5|Q59EP3	Missense_Mutation	SNP	ENST00000437150.2	37	CCDS2218.1	.	.	.	.	.	.	.	.	.	.	A	15.48	2.845886	0.51164	.	.	ENSG00000115271	ENST00000446271;ENST00000429691;ENST00000437150;ENST00000453113;ENST00000233612	T;T;T;T;T	0.75260	-0.92;-0.92;-0.92;-0.92;-0.92	5.19	5.19	0.71726	EF-hand-like domain (1);	0.726139	0.12958	N	0.425264	T	0.77471	0.4135	M	0.72118	2.19	0.52501	D	0.999952	B	0.33940	0.433	B	0.43536	0.423	T	0.69892	-0.5022	10	0.09843	T	0.71	.	14.0628	0.64810	1.0:0.0:0.0:0.0	.	82	P28676	GRAN_HUMAN	L	108;63;82;63;63	ENSP00000393218:I108L;ENSP00000412899:I63L;ENSP00000394842:I82L;ENSP00000403805:I63L;ENSP00000233612:I63L	ENSP00000233612:I63L	I	+	1	0	GCA	162917145	1.000000	0.71417	1.000000	0.80357	0.797000	0.45037	6.473000	0.73572	1.951000	0.56629	0.528000	0.53228	ATT		0.308	GCA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255080.3	NM_012198		C	163208899	A	C	163208899	3	2	699	1	0	0	0	0	1	0	0	0	6290	101	4	5	254	5	GCA	2	163208899	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	27464827	163208899	79990474	27	45793										
XIRP2	129446	broad.mit.edu;bcgsc.ca	37	chr2	168102112	168102112	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	atcagatttctgaagaatcaCataatattatgcccagtatt	5	7	3	3			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr2:168102112C>G	ENST00000409195.1	+	9	4299	c.4210C>G	c.(4210-4212)Cat>Gat	p.H1404D	XIRP2_ENST00000420519.1_Intron|XIRP2_ENST00000409605.1_Intron|XIRP2_ENST00000409043.1_Intron|XIRP2_ENST00000409273.1_Missense_Mutation_p.H1182D|XIRP2_ENST00000295237.9_Missense_Mutation_p.H1404D|XIRP2_ENST00000409728.1_Intron|XIRP2_ENST00000409756.2_Intron	NM_152381.5	NP_689594.4	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2	1229					actin cytoskeleton organization (GO:0030036)|cardiac muscle tissue morphogenesis (GO:0055008)|cell-cell junction organization (GO:0045216)|ventricular septum development (GO:0003281)	cell junction (GO:0030054)|Z disc (GO:0030018)				NS(3)|biliary_tract(2)|breast(5)|cervix(3)|endometrium(16)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(51)|lung(160)|ovary(7)|pancreas(3)|prostate(11)|skin(14)|stomach(5)|upper_aerodigestive_tract(8)|urinary_tract(7)	315						TGAAGAATCACATAATATTAT	0.338																																																0													63	58	60					2																	168102112		1838	4095	5933	SO:0001583	missense	129446			AK056582	CCDS42768.1, CCDS42769.1, CCDS56143.1, CCDS56144.1, CCDS56145.1	2q31.1	2013-10-25	2007-06-27	2007-06-27	ENSG00000163092	ENSG00000163092			14303	protein-coding gene	gene with protein product	"myomaxin"	609778	"cardiomyopathy associated 3"	CMYA3		17046827, 12203715, 15454575	Standard	NM_001079810		Approved		uc002udx.3	A4UGR9	OTTHUMG00000154027	ENST00000409195.1:c.4210C>G	2.37:g.168102112C>G	ENSP00000386840:p.His1404Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A0PJ94|B2BBS0|B2BBS1|B2BBS4|B3KVH0|J3KNB1|Q53R52|Q5MJ67|Q702N7|Q86T36|Q86T38|Q86T46|Q86T51|Q86T53|Q86T55|Q86T79|Q86TB6|Q8N1M9|Q8N3R5|Q8TBV6	Missense_Mutation	SNP	ENST00000409195.1	37	CCDS42769.1	.	.	.	.	.	.	.	.	.	.	C	1.094	-0.663261	0.03428	.	.	ENSG00000163092	ENST00000409195;ENST00000295237;ENST00000409273	T;T;T	0.02395	4.31;4.31;4.31	5.67	3.71	0.42584	.	0.488681	0.22341	N	0.061335	T	0.02156	0.0067	L	0.34521	1.04	0.09310	N	1	P;P;B	0.37864	0.475;0.61;0.137	B;B;B	0.32864	0.073;0.154;0.037	T	0.48103	-0.9064	10	0.22109	T	0.4	-0.0519	6.3874	0.21568	0.3388:0.5672:0.0:0.094	.	1229;1229;1182	A4UGR9;A4UGR9-3;A4UGR9-2	XIRP2_HUMAN;.;.	D	1404;1404;1182	ENSP00000386840:H1404D;ENSP00000295237:H1404D;ENSP00000387255:H1182D	ENSP00000295237:H1404D	H	+	1	0	XIRP2	167810358	0.000000	0.05858	0.004000	0.12327	0.096000	0.18686	1.193000	0.32162	1.407000	0.46875	-0.253000	0.11424	CAT		0.338	XIRP2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000333547.1	NM_152381		G	168102112	C	G	168102112	3	3	699	1	0	0	0	0	1	0	0	0	17442	478	17	4	4240	4	XIRP2	2	168102112	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	4893213	168102112	75097261	28	45794										
SPC25	57405	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	169746011	169746011	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tatgcttttatcgaaaagtgCcagttcgtcctctaccatta	6	10	1	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr2:169746011C>G	ENST00000282074.2	-	2	160	c.19G>C	c.(19-21)Gca>Cca	p.A7P	SPC25_ENST00000472216.2_5'UTR	NM_020675.3	NP_065726.1	Q9HBM1	SPC25_HUMAN	SPC25, NDC80 kinetochore complex component	7	Interaction with the N-terminus of SPBC24.|Interaction with the NDC80-NUF2 subcomplex.				chromosome segregation (GO:0007059)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|mitotic spindle organization (GO:0007052)	condensed chromosome kinetochore (GO:0000777)|cytosol (GO:0005829)|Ndc80 complex (GO:0031262)|nucleus (GO:0005634)				central_nervous_system(1)|kidney(1)|large_intestine(3)|lung(3)|urinary_tract(1)	9						TCGAAAAGTGCCAGTTCGTCC	0.368																																																0													59	55	57					2																	169746011		2203	4300	6503	SO:0001583	missense	57405			AF225416	CCDS2229.1	2q31.1	2013-06-05	2013-06-05	2007-03-02	ENSG00000152253	ENSG00000152253			24031	protein-coding gene	gene with protein product		609395	"spindle pole body component 25 homolog (S. cerevisiae)", "SPC25, NDC80 kinetochore complex component, homolog (S. cerevisiae)"	SPBC25		12477932	Standard	NM_020675		Approved	MGC22228, AD024	uc002uel.3	Q9HBM1	OTTHUMG00000132181	ENST00000282074.2:c.19G>C	2.37:g.169746011C>G	ENSP00000282074:p.Ala7Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4X8|D3DPC0	Missense_Mutation	SNP	ENST00000282074.2	37	CCDS2229.1	.	.	.	.	.	.	.	.	.	.	C	8.902	0.956561	0.18507	.	.	ENSG00000152253	ENST00000282074;ENST00000451987	.	.	.	6.16	3.38	0.38709	.	0.449522	0.26963	N	0.021614	T	0.18257	0.0438	L	0.27053	0.805	0.26399	N	0.976457	P	0.43169	0.8	B	0.37943	0.261	T	0.08330	-1.0727	9	0.46703	T	0.11	0.0356	6.4946	0.22136	0.0:0.693:0.1487:0.1583	.	7	Q9HBM1	SPC25_HUMAN	P	7	.	ENSP00000282074:A7P	A	-	1	0	SPC25	169454257	0.107000	0.21998	0.161000	0.22692	0.012000	0.07955	0.142000	0.16096	0.469000	0.27268	-0.142000	0.14014	GCA		0.368	SPC25-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255233.2	NM_020675		G	169746011	C	G	169746011	3	3	699	1	0	0	0	0	1	0	0	0	15034	739	26	4	679	4	SPC25	2	169746011	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	1643899	169746011	73453362	29	45795										
METTL5	29081	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	170677784	170677784	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tgtcaaatccaacacacaacCtataaatacaaaacacatac	1	12	1	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr2:170677784C>A	ENST00000260953.5	-	3	541		c.e3-1		METTL5_ENST00000308099.3_Splice_Site|METTL5_ENST00000410097.1_Splice_Site|METTL5_ENST00000409340.1_Intron|METTL5_ENST00000409965.1_Splice_Site|METTL5_ENST00000409837.1_Splice_Site|METTL5_ENST00000392640.2_Splice_Site	NM_014168.2	NP_054887.2	Q9NRN9	METL5_HUMAN	methyltransferase like 5								methyltransferase activity (GO:0008168)|nucleic acid binding (GO:0003676)			breast(2)|central_nervous_system(1)|large_intestine(5)|lung(1)|prostate(1)	10						AACACACAACCTATAAATACA	0.299																																																0													75	75	75					2																	170677784		2203	4298	6501	SO:0001630	splice_region_variant	29081			AF201938	CCDS33320.1	2q31.1	2011-01-28			ENSG00000138382	ENSG00000138382			25006	protein-coding gene	gene with protein product						11042152	Standard	XM_005246478		Approved	HSPC133	uc002ufn.3	Q9NRN9	OTTHUMG00000154117	ENST00000260953.5:c.225-1G>T	2.37:g.170677784C>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DPC9|Q9NVX1	Splice_Site	SNP	ENST00000260953.5	37	CCDS33320.1	.	.	.	.	.	.	.	.	.	.	C	20.9	4.065087	0.76187	.	.	ENSG00000138382	ENST00000409837;ENST00000540464;ENST00000260953;ENST00000409965;ENST00000392640;ENST00000308099;ENST00000410097	.	.	.	5.04	5.04	0.67666	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	18.7542	0.91826	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	METTL5	170386030	1.000000	0.71417	0.932000	0.37286	0.983000	0.72400	7.590000	0.82653	2.490000	0.84030	0.655000	0.94253	.		0.299	METTL5-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000333957.1	NM_014168	Intron	A	170677784	C	A	170677784	5	1	699	1	0	0	0	0	0	0	1	0	9510	695	24	4	425	4	METTL5	2	170677784	Splice_Site	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	931773	170677784	72521589	30	45796										
RAPH1	65059	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	204304774	204304775	+	Frame_Shift_Del	DEL	AC	AC	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cagaacaggggcttttgctgAcacacacccttgttggagaa					rs201752703		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr2:204304774_204304775delAC	ENST00000319170.5	-	14	3437_3438	c.3138_3139delGT	c.(3136-3141)gtgtcafs	p.S1047fs	RAPH1_ENST00000457812.1_Intron|ABI2_ENST00000295851.5_3'UTR|RAPH1_ENST00000374493.3_Frame_Shift_Del_p.S1099fs	NM_213589.1	NP_998754.1	Q70E73	RAPH1_HUMAN	Ras association (RalGDS/AF-6) and pleckstrin homology domains 1	1047					axon extension (GO:0048675)|cell-matrix adhesion (GO:0007160)|signal transduction (GO:0007165)	cell leading edge (GO:0031252)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|plasma membrane (GO:0005886)				breast(5)|central_nervous_system(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(7)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	32						GCTTTTGCTGACACACACCCTT	0.545																																																0																																										SO:0001589	frameshift_variant	65059			AJ584699	CCDS2359.1, CCDS2360.1	2q33	2013-01-10	2003-11-25	2003-11-26	ENSG00000173166	ENSG00000173166		"Pleckstrin homology (PH) domain containing"	14436	protein-coding gene	gene with protein product	"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 18"	609035	"amyotrophic lateral sclerosis 2 (juvenile) chromosome region, candidate 9"	ALS2CR9, ALS2CR18			Standard	NM_203365		Approved	KIAA1681	uc002vad.3	Q70E73	OTTHUMG00000132876	ENST00000319170.5:c.3138_3139delGT	2.37:g.204304780_204304781delAC	ENSP00000316543:p.Ser1047fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q96Q37|Q9C0I2	Frame_Shift_Del	DEL	ENST00000319170.5	37	CCDS2359.1																																																																																				0.545	RAPH1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000256363.2	NM_025252		-	204304775	AC	-	204304774	7	5	699	1	0	1	0	1	0	0	0	0	13063	275	10	0	617	0	RAPH1	2	204304774	Frame_Shift_Del	DEL	AC	TCGA-P4-A5EB-01A-11D-A28G-10	33626990	204304774	38894599	31	45797										
NHEJ1	79840	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	220022946	220022946	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cacactagtgtccacctgttCatgccacacctgttgaagat	7	13	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr2:220022946C>T	ENST00000356853.5	-	2	272	c.139G>A	c.(139-141)Gaa>Aaa	p.E47K	NHEJ1_ENST00000409720.1_Missense_Mutation_p.E47K	NM_024782.2	NP_079058.1	Q9H9Q4	NHEJ1_HUMAN	nonhomologous end-joining factor 1	47	Globular head.				B cell differentiation (GO:0030183)|central nervous system development (GO:0007417)|DNA recombination (GO:0006310)|double-strand break repair via nonhomologous end joining (GO:0006303)|positive regulation of ligase activity (GO:0051351)|response to ionizing radiation (GO:0010212)|T cell differentiation (GO:0030217)	nonhomologous end joining complex (GO:0070419)|nucleus (GO:0005634)	DNA binding (GO:0003677)			kidney(1)|large_intestine(3)|lung(5)|prostate(1)|skin(2)	12		Renal(207;0.0915)		Epithelial(149;2.15e-06)|all cancers(144;0.000339)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(261;0.0112)		TCCACCTGTTCATGCCACACC	0.527								Non-homologous end-joining																																								0													158	135	143					2																	220022946		2203	4300	6503	SO:0001583	missense	79840			AJ972687	CCDS2432.1	2q35	2014-09-17			ENSG00000187736	ENSG00000187736			25737	protein-coding gene	gene with protein product		611290				16439204, 16439205	Standard	NM_024782		Approved	Cernunnos, XLF, FLJ12610	uc002vjp.4	Q9H9Q4	OTTHUMG00000133127	ENST00000356853.5:c.139G>A	2.37:g.220022946C>T	ENSP00000349313:p.Glu47Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B8ZZA4|Q4ZFW7|Q6IA64|Q96JS9	Missense_Mutation	SNP	ENST00000356853.5	37	CCDS2432.1	.	.	.	.	.	.	.	.	.	.	C	34	5.320702	0.95682	.	.	ENSG00000187736	ENST00000409720;ENST00000356853;ENST00000457600	T;T;T	0.71698	-0.59;-0.59;-0.59	5.7	5.7	0.88788	DNA double-strand break repair and VJ recombination XRCC4, N-terminal (1);	0.000000	0.85682	U	0.000000	D	0.85414	0.5691	M	0.77103	2.36	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.86392	0.1736	10	0.87932	D	0	0.2919	19.8022	0.96513	0.0:1.0:0.0:0.0	.	47	Q9H9Q4	NHEJ1_HUMAN	K	47	ENSP00000387290:E47K;ENSP00000349313:E47K;ENSP00000407201:E47K	ENSP00000349313:E47K	E	-	1	0	NHEJ1	219731190	0.998000	0.40836	1.000000	0.80357	0.994000	0.84299	4.959000	0.63666	2.683000	0.91414	0.655000	0.94253	GAA		0.527	NHEJ1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256817.2	NM_024782		T	220022946	C	T	220022946	3	4	699	1	0	0	0	0	1	0	0	0	10409	835	29	2	788	2	NHEJ1	2	220022946	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	15718172	220022946	23176427	32	45798										
SPEG	10290	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	220354060	220354064	+	Frame_Shift_Del	DEL	TCTTC	TCTTC	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	attttctctctctcttagatTcttcagctgtgccatctgct					rs78622154	byFrequency	TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	TCTTC	TCTTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr2:220354060_220354064delTCTTC	ENST00000312358.7	+	36	8452_8456	c.8320_8324delTCTTC	c.(8320-8325)tcttcafs	p.SS2774fs	AC053503.11_ENST00000429882.1_RNA|SPEG_ENST00000485813.1_3'UTR	NM_005876.4	NP_005867.3	Q15772	SPEG_HUMAN	SPEG complex locus	2774	Fibronectin type-III 2. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cardiac muscle cell development (GO:0055013)|in utero embryonic development (GO:0001701)|muscle organ development (GO:0007517)|negative regulation of cell proliferation (GO:0008285)|respiratory system development (GO:0060541)	nucleus (GO:0005634)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|central_nervous_system(3)|endometrium(10)|kidney(2)|large_intestine(9)|lung(42)|ovary(5)|pancreas(1)|prostate(8)|skin(1)|stomach(9)|upper_aerodigestive_tract(4)|urinary_tract(4)	100		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		TCTCTTAGATTCTTCAGCTGTGCCA	0.62																																																0																																										SO:0001589	frameshift_variant	10290			BC006346	CCDS42824.1, CCDS54432.1	2q35	2013-01-11	2006-04-27	2006-04-27	ENSG00000072195	ENSG00000072195		"Immunoglobulin superfamily / I-set domain containing"	16901	protein-coding gene	gene with protein product		615950	"aortic preferentially expressed gene 1"	APEG1		8663449, 10973969	Standard	NM_005876		Approved	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG	uc010fwg.3	Q15772	OTTHUMG00000058925	ENST00000312358.7:c.8320_8324delTCTTC	2.37:g.220354060_220354064delTCTTC	ENSP00000311684:p.Ser2774fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0G6|A8MRU0|Q27J74|Q695L1|Q6FGA6|Q6ZQW1|Q6ZTL8|Q9P2P9	Frame_Shift_Del	DEL	ENST00000312358.7	37	CCDS42824.1																																																																																				0.62	SPEG-004	NOVEL	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130252.2	NM_005876		-	220354064	TCTTC	-	220354060	7	5	699	1	0	1	0	1	0	0	0	0	15048	1783	62	0	8474	0	SPEG	2	220354060	Frame_Shift_Del	DEL	TCTTC	TCGA-P4-A5EB-01A-11D-A28G-10	331114	220354060	22845313	33	45799										
SETD5	55209	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	9475587	9475587	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	agagcgtgtattccactcatAattatgggaccactcagagg	10	9	2	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr3:9475587A>G	ENST00000406341.1	+	3	320	c.130A>G	c.(130-132)Aat>Gat	p.N44D	SETD5_ENST00000402466.1_5'UTR|SETD5_ENST00000407969.1_Missense_Mutation_p.N44D|SETD5_ENST00000402198.1_Missense_Mutation_p.N44D|SETD5_ENST00000302463.6_5'UTR			Q9C0A6	SETD5_HUMAN	SET domain containing 5	44										NS(2)|breast(3)|central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(10)|lung(11)|ovary(3)|prostate(7)|upper_aerodigestive_tract(1)|urinary_tract(1)	47	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		TTCCACTCATAATTATGGGAC	0.468																																																0													204	200	201					3																	9475587		2010	4171	6181	SO:0001583	missense	55209			BC020956	CCDS46741.1, CCDS74892.1	3p25.3	2011-12-13			ENSG00000168137	ENSG00000168137			25566	protein-coding gene	gene with protein product		615743				11214970	Standard	XM_005265299		Approved	FLJ10707	uc003brt.3	Q9C0A6	OTTHUMG00000150491	ENST00000406341.1:c.130A>G	3.37:g.9475587A>G	ENSP00000383939:p.Asn44Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q6AI17|Q8WUB6|Q9H3X4|Q9H6V7|Q9H7S3|Q9NVI9	Missense_Mutation	SNP	ENST00000406341.1	37	CCDS46741.1	.	.	.	.	.	.	.	.	.	.	A	11.09	1.537828	0.27475	.	.	ENSG00000168137	ENST00000450326;ENST00000402198;ENST00000406341;ENST00000407969	T;D;D;D	0.90261	1.45;-2.64;-2.64;-2.59	6.07	6.07	0.98685	.	.	.	.	.	D	0.82986	0.5156	L	0.47716	1.5	0.80722	D	1	P	0.38922	0.651	B	0.30401	0.115	T	0.79579	-0.1745	9	0.11485	T	0.65	-13.9018	9.0586	0.36421	0.8937:0.0:0.1063:0.0	.	44	Q9C0A6	SETD5_HUMAN	D	44	ENSP00000413786:N44D;ENSP00000385852:N44D;ENSP00000383939:N44D;ENSP00000384114:N44D	ENSP00000385852:N44D	N	+	1	0	SETD5	9450587	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	6.856000	0.75450	2.330000	0.79161	0.477000	0.44152	AAT		0.468	SETD5-001	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318425.1	XM_371614		G	9475587	A	G	9475587	3	3	699	1	0	0	0	0	1	0	0	0	14147	362	13	3	136	3	SETD5	3	9475587	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10		9475587	188546843	34	45800										
TWF2	11344	broad.mit.edu;bcgsc.ca	37	chr3	52265541	52265541	+	Frame_Shift_Del	DEL	C	C	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gcccgcgtggccgcgtacagCatcttcagccgcacctgaag							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr3:52265541delC	ENST00000305533.5	-	4	540	c.297delG	c.(295-297)atgfs	p.M99fs	TWF2_ENST00000499914.2_Frame_Shift_Del_p.M99fs|TLR9_ENST00000597542.1_5'UTR|TLR9_ENST00000494383.1_5'Flank	NM_007284.3	NP_009215.1	Q6IBS0	TWF2_HUMAN	twinfilin actin-binding protein 2	99	ADF-H 1. {ECO:0000255|PROSITE- ProRule:PRU00599}.				barbed-end actin filament capping (GO:0051016)|cell projection organization (GO:0030030)|cellular response to growth factor stimulus (GO:0071363)|cellular response to retinoic acid (GO:0071300)|negative regulation of actin filament polymerization (GO:0030837)|positive regulation of axon extension (GO:0045773)|positive regulation of lamellipodium assembly (GO:0010592)|positive regulation of neuron projection development (GO:0010976)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of microvillus length (GO:0032532)|sequestering of actin monomers (GO:0042989)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|growth cone (GO:0030426)|lamellipodium (GO:0030027)|myofibril (GO:0030016)|perinuclear region of cytoplasm (GO:0048471)|stereocilium (GO:0032420)	actin monomer binding (GO:0003785)|ATP binding (GO:0005524)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|poly(A) RNA binding (GO:0044822)|protein kinase C binding (GO:0005080)			breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(3)|lung(6)|ovary(1)|stomach(1)|urinary_tract(1)	15				BRCA - Breast invasive adenocarcinoma(193;2.43e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CCGCGTACAGCATCTTCAGCC	0.597											OREG0015610	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													101	94	96					3																	52265541		2203	4300	6503	SO:0001589	frameshift_variant	11344			Y17169	CCDS2849.1	3p21.1	2013-04-25	2013-04-25	2006-11-13	ENSG00000247596	ENSG00000247596			9621	protein-coding gene	gene with protein product		607433	"protein tyrosine kinase 9-like (A6-related protein)", "PTK9L protein tyrosine kinase 9-like (A6-related protein)", "twinfilin, actin-binding protein, homolog 2 (Drosophila)"	PTK9L		10406962, 12807912	Standard	NM_007284		Approved	A6RP, A6r		Q6IBS0	OTTHUMG00000158105	ENST00000305533.5:c.297delG	3.37:g.52265541delC	ENSP00000303908:p.Met99fs	Somatic	983	WXS	Illumina HiSeq	Phase_I	Q9Y3F5	Frame_Shift_Del	DEL	ENST00000305533.5	37	CCDS2849.1																																																																																				0.597	TWF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350199.2			-	52265541	C	-	52265541	7	5	699	1	0	1	0	1	0	0	0	0	16794	710	25	0	776	0	TWF2	3	52265541	Frame_Shift_Del	DEL	C	TCGA-P4-A5EB-01A-11D-A28G-10	42789954	52265541	145756889	35	45801	501	2								
TWF2	11344	broad.mit.edu;bcgsc.ca	37	chr3	52265543	52265555	+	Splice_Site	DEL	TCTTCAGCCGCAC	TCTTCAGCCGCAC	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ccgcgtggccgcgtacagcaTcttcagccgcacctgaaggg					rs199817219		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	TCTTCAGCCGCAC	TCTTCAGCCGCAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr3:52265543_52265555delTCTTCAGCCGCAC	ENST00000305533.5	-	4	526_538	c.283_295delGTGCGGCTGAAGA	c.(283-297)gtgcggctgaagatg>tg	p.VRLKM95fs	TWF2_ENST00000499914.2_Splice_Site_p.VRLKM95fs|TLR9_ENST00000597542.1_5'UTR|TLR9_ENST00000494383.1_5'Flank	NM_007284.3	NP_009215.1	Q6IBS0	TWF2_HUMAN	twinfilin actin-binding protein 2	95	ADF-H 1. {ECO:0000255|PROSITE- ProRule:PRU00599}.				barbed-end actin filament capping (GO:0051016)|cell projection organization (GO:0030030)|cellular response to growth factor stimulus (GO:0071363)|cellular response to retinoic acid (GO:0071300)|negative regulation of actin filament polymerization (GO:0030837)|positive regulation of axon extension (GO:0045773)|positive regulation of lamellipodium assembly (GO:0010592)|positive regulation of neuron projection development (GO:0010976)|regulation of actin cytoskeleton organization (GO:0032956)|regulation of microvillus length (GO:0032532)|sequestering of actin monomers (GO:0042989)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|growth cone (GO:0030426)|lamellipodium (GO:0030027)|myofibril (GO:0030016)|perinuclear region of cytoplasm (GO:0048471)|stereocilium (GO:0032420)	actin monomer binding (GO:0003785)|ATP binding (GO:0005524)|phosphatidylinositol-4,5-bisphosphate binding (GO:0005546)|poly(A) RNA binding (GO:0044822)|protein kinase C binding (GO:0005080)	p.R96G(1)		breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(3)|lung(6)|ovary(1)|stomach(1)|urinary_tract(1)	15				BRCA - Breast invasive adenocarcinoma(193;2.43e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GCGTACAGCATCTTCAGCCGCACCTGAAGGGCA	0.606											OREG0015610	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				1	Substitution - Missense(1)	lung(1)																																								SO:0001630	splice_region_variant	11344			Y17169	CCDS2849.1	3p21.1	2013-04-25	2013-04-25	2006-11-13	ENSG00000247596	ENSG00000247596			9621	protein-coding gene	gene with protein product		607433	"protein tyrosine kinase 9-like (A6-related protein)", "PTK9L protein tyrosine kinase 9-like (A6-related protein)", "twinfilin, actin-binding protein, homolog 2 (Drosophila)"	PTK9L		10406962, 12807912	Standard	NM_007284		Approved	A6RP, A6r		Q6IBS0	OTTHUMG00000158105	ENST00000305533.5:c.283-1GTGCGGCTGAAGA>-	3.37:g.52265543_52265555delTCTTCAGCCGCAC		Somatic	983	WXS	Illumina HiSeq	Phase_I	Q9Y3F5	Frame_Shift_Del	DEL	ENST00000305533.5	37	CCDS2849.1																																																																																				0.606	TWF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350199.2		Frame_Shift_Del	-	52265555	TCTTCAGCCGCAC	-	52265543	8	5	699	1	0	1	0	1	0	0	1	0	16794	1435	50	0	778	0	TWF2	3	52265543	Splice_Site	DEL	TCTTCAGCCGCAC	TCGA-P4-A5EB-01A-11D-A28G-10	2	52265543	145756887	36	45802	501	2								
DNAH1	25981	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	52428521	52428521	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gtctgggggctccatctcgaTcatgactgagaatccggcac	12	12	3	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr3:52428521T>C	ENST00000420323.2	+	67	10928	c.10667T>C	c.(10666-10668)aTc>aCc	p.I3556T		NM_015512.4	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	3621					cilium movement (GO:0003341)|cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|response to mechanical stimulus (GO:0009612)	axonemal dynein complex (GO:0005858)|dynein complex (GO:0030286)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			cervix(2)|endometrium(18)|kidney(6)|large_intestine(3)|lung(31)|prostate(1)|urinary_tract(1)	62				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)		TCCATCTCGATCATGACTGAG	0.622																																																0													72	79	77					3																	52428521		2065	4195	6260	SO:0001583	missense	25981			U61738	CCDS46842.1	3p21-p14	2008-02-05	2006-09-04		ENSG00000114841	ENSG00000114841		"Axonemal dyneins"	2940	protein-coding gene	gene with protein product		603332	"dynein, axonemal, heavy polypeptide 1"			8812413, 9256245	Standard	NM_015512		Approved	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11	uc011bef.2	Q9P2D7	OTTHUMG00000158378	ENST00000420323.2:c.10667T>C	3.37:g.52428521T>C	ENSP00000401514:p.Ile3556Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1R6|O00436|O15435|O95491|Q6ZU48|Q86YK7|Q8TEJ4|Q92863|Q9H8E6|Q9UFW6|Q9Y4Z7	Missense_Mutation	SNP	ENST00000420323.2	37	CCDS46842.1	.	.	.	.	.	.	.	.	.	.	T	1.598	-0.527373	0.04141	.	.	ENSG00000114841	ENST00000420323;ENST00000273600	D	0.87103	-2.21	5.27	-5.01	0.02991	.	1.697270	0.03317	N	0.191372	T	0.70996	0.3288	N	0.12569	0.235	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.04013	0.001;0.0	T	0.56721	-0.7932	10	0.33141	T	0.24	.	2.3064	0.04175	0.1418:0.4088:0.1794:0.27	.	3556;3621	C9JXH6;Q9P2D7-2	.;.	T	3556;309	ENSP00000401514:I3556T	ENSP00000273600:I309T	I	+	2	0	DNAH1	52403561	0.000000	0.05858	0.000000	0.03702	0.215000	0.24574	-0.451000	0.06795	-0.554000	0.06150	-0.274000	0.10170	ATC		0.622	DNAH1-004	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350816.1	NM_015512		C	52428521	T	C	52428521	3	2	699	1	0	0	0	0	1	0	0	0	4599	1435	50	3	10929	3	DNAH1	3	52428521	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	162978	52428521	145593909	37	45803										
ABHD6	57406	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	58242370	58242370	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ggcggcacgctggccatcccAatcctggcatttgtggcttc	12	14	0	0	rs11544005		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr3:58242370A>T	ENST00000478253.1	+	3	558	c.57A>T	c.(55-57)ccA>ccT	p.P19P	ABHD6_ENST00000295962.4_Silent_p.P19P			Q9BV23	ABHD6_HUMAN	abhydrolase domain containing 6	19					long term synaptic depression (GO:0060292)|negative regulation of cell migration (GO:0030336)|regulation of endocannabinoid signaling pathway (GO:2000124)	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex (GO:0032281)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	acylglycerol lipase activity (GO:0047372)			NS(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(5)|ovary(2)|prostate(1)|skin(1)	16				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)		TGGCCATCCCAATCCTGGCAT	0.463																																																0													174	165	168					3																	58242370		2203	4300	6503	SO:0001819	synonymous_variant	57406			AF225418	CCDS2887.1	3p21.2	2006-03-10			ENSG00000163686	ENSG00000163686		"Abhydrolase domain containing"	21398	protein-coding gene	gene with protein product							Standard	NM_020676		Approved		uc003djs.4	Q9BV23	OTTHUMG00000159150	ENST00000478253.1:c.57A>T	3.37:g.58242370A>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R7Y9|Q6ZMF7	Silent	SNP	ENST00000478253.1	37	CCDS2887.1																																																																																				0.463	ABHD6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353511.1	NM_020676		T	58242370	A	T	58242370	2	4	699	1	0	0	0	0	0	0	0	1	86	117	5	5		5	ABHD6	3	58242370	Silent	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	5813849	58242370	139780060	38	45804										
ZNF654	55279	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	88189810	88189810	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tcagatcctgctttgaaaatTgatacaaacagaatcaggac	7	8	2	4			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr3:88189810T>G	ENST00000309495.5	+	1	1557	c.1350T>G	c.(1348-1350)atT>atG	p.I450M	CGGBP1_ENST00000462901.1_Intron	NM_018293.2	NP_060763.2	Q8IZM8	ZN654_HUMAN	zinc finger protein 654	450					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(2)|endometrium(1)|large_intestine(2)|lung(1)|ovary(2)|pancreas(1)|prostate(3)	12		Lung NSC(201;0.0283)		UCEC - Uterine corpus endometrioid carcinoma (27;0.194)|LUSC - Lung squamous cell carcinoma(29;0.00353)|Lung(72;0.00661)		CTTTGAAAATTGATACAAACA	0.383																																																0													85	83	83					3																	88189810		1881	4102	5983	SO:0001583	missense	55279			AF543494	CCDS46874.1	3p11.1	2005-01-10			ENSG00000175105	ENSG00000175105			25612	protein-coding gene	gene with protein product							Standard	NM_018293		Approved	FLJ10997, FLJ21142	uc003dqv.3	Q8IZM8	OTTHUMG00000159097	ENST00000309495.5:c.1350T>G	3.37:g.88189810T>G	ENSP00000312141:p.Ile450Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H791|Q9NV14	Missense_Mutation	SNP	ENST00000309495.5	37	CCDS46874.1	.	.	.	.	.	.	.	.	.	.	t	0.623	-0.820178	0.02755	.	.	ENSG00000175105	ENST00000309495	T	0.10005	2.92	5.23	-2.35	0.06684	.	.	.	.	.	T	0.04907	0.0132	N	0.14661	0.345	0.09310	N	0.99999	B	0.02656	0.0	B	0.04013	0.001	T	0.39941	-0.9589	9	0.44086	T	0.13	.	2.3057	0.04173	0.233:0.0753:0.3389:0.3529	.	450	Q8IZM8	ZN654_HUMAN	M	450	ENSP00000312141:I450M	ENSP00000312141:I450M	I	+	3	3	ZNF654	88272500	0.029000	0.19370	0.803000	0.32268	0.354000	0.29330	0.080000	0.14802	-0.023000	0.13963	-0.420000	0.06012	ATT		0.383	ZNF654-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000353285.2	NM_018293		G	88189810	T	G	88189810	3	3	699	1	0	0	0	0	1	0	0	0	18079	1800	63	5	1352	5	ZNF654	3	88189810	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	29947440	88189810	109832620	39	45805										
CBLB	868	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	105572285	105572285	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gtgactgttcttcatacattCtctccttgccttctttaaag	5	11	4	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr3:105572285C>A	ENST00000264122.4	-	3	713	c.392G>T	c.(391-393)aGa>aTa	p.R131I	CBLB_ENST00000405772.1_Missense_Mutation_p.R131I|CBLB_ENST00000394027.3_Missense_Mutation_p.R153I|CBLB_ENST00000403724.1_Missense_Mutation_p.R131I|CBLB_ENST00000545639.1_Missense_Mutation_p.R153I	NM_170662.3	NP_733762.2	Q13191	CBLB_HUMAN	Cbl proto-oncogene B, E3 ubiquitin protein ligase	131	4H.|Cbl-PTB. {ECO:0000255|PROSITE- ProRule:PRU00839}.				cell surface receptor signaling pathway (GO:0007166)|immune response (GO:0006955)|intracellular signal transduction (GO:0035556)|negative regulation of alpha-beta T cell proliferation (GO:0046642)|negative regulation of T cell receptor signaling pathway (GO:0050860)|NLS-bearing protein import into nucleus (GO:0006607)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of T cell anergy (GO:0002669)|signal transduction (GO:0007165)|T cell activation (GO:0042110)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|ligase activity (GO:0016874)|signal transducer activity (GO:0004871)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(8)|liver(1)|lung(20)|ovary(3)|prostate(1)|skin(3)|stomach(2)|urinary_tract(2)	49						TTCATACATTCTCTCCTTGCC	0.343			Mis S		AML																																GBM(93;588 1337 9788 29341 43499)		Rec	yes		3	3q13.11	868	Cas-Br-M (murine) ecotropic retroviral transforming sequence b		L	0													240	242	241					3																	105572285		2203	4300	6503	SO:0001583	missense	868			U26710	CCDS2948.1	3q	2013-07-09	2013-07-09		ENSG00000114423	ENSG00000114423		"RING-type (C3HC4) zinc fingers"	1542	protein-coding gene	gene with protein product		604491	"Cas-Br-M (murine) ectropic retroviral transforming sequence b", "Cas-Br-M (murine) ecotropic retroviral transforming sequence b"			7784085	Standard	XM_005247853		Approved	RNF56, Cbl-b	uc003dwc.3	Q13191	OTTHUMG00000150654	ENST00000264122.4:c.392G>T	3.37:g.105572285C>A	ENSP00000264122:p.Arg131Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9S7|B7WNM4|Q13192|Q13193|Q3LIC0|Q63Z43|Q8IVC5	Missense_Mutation	SNP	ENST00000264122.4	37	CCDS2948.1	.	.	.	.	.	.	.	.	.	.	C	33	5.280158	0.95489	.	.	ENSG00000114423	ENST00000264122;ENST00000394027;ENST00000403724;ENST00000405772;ENST00000545639;ENST00000438603;ENST00000447441;ENST00000443752	T;T;T;T;T;T;T;T	0.78246	-1.16;-1.16;-1.16;-1.16;-1.16;-1.16;-1.16;-1.16	5.69	5.69	0.88448	Adaptor protein Cbl, N-terminal helical (3);Adaptor protein Cbl, PTB domain (1);	0.000000	0.85682	D	0.000000	D	0.85991	0.5826	L	0.50333	1.59	0.80722	D	1	D;D;D	0.69078	0.997;0.997;0.997	D;D;D	0.74348	0.983;0.972;0.937	D	0.86563	0.1842	10	0.87932	D	0	-13.8454	19.8034	0.96518	0.0:1.0:0.0:0.0	.	153;131;131	E7ENW2;Q13191-3;Q13191	.;.;CBLB_HUMAN	I	131;153;131;131;153;153;131;131	ENSP00000264122:R131I;ENSP00000377595:R153I;ENSP00000384816:R131I;ENSP00000384938:R131I;ENSP00000446116:R153I;ENSP00000409750:R153I;ENSP00000400949:R131I;ENSP00000393906:R131I	ENSP00000264122:R131I	R	-	2	0	CBLB	107054975	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	7.603000	0.82811	2.669000	0.90835	0.655000	0.94253	AGA		0.343	CBLB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319417.2	NM_170662		A	105572285	C	A	105572285	3	1	699	1	0	0	0	0	1	0	0	0	2703	913	32	4	2624	4	CBLB	3	105572285	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	17382475	105572285	92450145	40	45806										
EAF2	55840	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	121554190	121554190	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gcgagcgggttctcaagttaGgggagagtttcgagaagcag	17	6	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr3:121554190G>A	ENST00000273668.2	+	1	129	c.58G>A	c.(58-60)Ggg>Agg	p.G20R	EAF2_ENST00000451944.2_Missense_Mutation_p.G20R|IQCB1_ENST00000310864.6_5'Flank|IQCB1_ENST00000349820.6_5'Flank|EAF2_ENST00000465664.1_3'UTR	NM_018456.4	NP_060926.2	Q96CJ1	EAF2_HUMAN	ELL associated factor 2	20	Necessary for interaction with ELL.				apoptotic process (GO:0006915)|negative regulation of cell growth (GO:0030308)|negative regulation of epithelial cell proliferation involved in prostate gland development (GO:0060770)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	ELL-EAF complex (GO:0032783)|transcription elongation factor complex (GO:0008023)	RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)			endometrium(1)|kidney(2)|large_intestine(1)|lung(4)|prostate(1)	9				GBM - Glioblastoma multiforme(114;0.0972)		TCTCAAGTTAGGGGAGAGTTT	0.592																																					Esophageal Squamous(194;1942 2097 24663 29345 31866)											0													60	57	58					3																	121554190		2203	4300	6503	SO:0001583	missense	55840			AF517829	CCDS3006.1	3q21.1	2007-08-01			ENSG00000145088	ENSG00000145088			23115	protein-coding gene	gene with protein product		607659				12446457, 12907652	Standard	NM_018456		Approved	BM040, TRAITS, U19	uc003een.3	Q96CJ1	OTTHUMG00000159424	ENST00000273668.2:c.58G>A	3.37:g.121554190G>A	ENSP00000273668:p.Gly20Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NZ82	Missense_Mutation	SNP	ENST00000273668.2	37	CCDS3006.1	.	.	.	.	.	.	.	.	.	.	G	36	5.612769	0.96637	.	.	ENSG00000145088	ENST00000273668;ENST00000451944	.	.	.	5.95	5.95	0.96441	Transcription elognation factor  Eaf, N-terminal (1);	0.000000	0.85682	D	0.000000	D	0.84238	0.5428	M	0.85945	2.785	0.80722	D	1	D	0.89917	1.0	D	0.83275	0.996	D	0.85853	0.1405	9	0.87932	D	0	-12.3041	17.8686	0.88804	0.0:0.0:1.0:0.0	.	20	Q96CJ1	EAF2_HUMAN	R	20	.	ENSP00000273668:G20R	G	+	1	0	EAF2	123036880	1.000000	0.71417	1.000000	0.80357	0.971000	0.66376	7.606000	0.82863	2.817000	0.96982	0.563000	0.77884	GGG		0.592	EAF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355247.1	NM_018456		A	121554190	G	A	121554190	3	1	699	1	0	0	0	0	1	0	0	0	4878	1000	35	2	60	2	EAF2	3	121554190	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	15981905	121554190	76468240	41	45807										
PARP14	54625	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	122436993	122436993	+	Nonsense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	agactttgtccagaaaggatCagcccagtctgtgaaaaaag	10	8	2	3			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr3:122436993C>G	ENST00000474629.2	+	13	4342	c.4076C>G	c.(4075-4077)tCa>tGa	p.S1359*		NM_017554.2	NP_060024.2	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	1359	Macro 3. {ECO:0000255|PROSITE- ProRule:PRU00490}.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	NAD+ ADP-ribosyltransferase activity (GO:0003950)			NS(2)|breast(5)|cervix(2)|endometrium(7)|kidney(5)|large_intestine(8)|lung(14)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|urinary_tract(1)	50				GBM - Glioblastoma multiforme(114;0.0531)		CAGAAAGGATCAGCCCAGTCT	0.388																																																0													88	82	84					3																	122436993		1860	4108	5968	SO:0001587	stop_gained	54625			AB033094	CCDS46894.1	3q21	2010-02-16			ENSG00000173193	ENSG00000173193		"Poly (ADP-ribose) polymerases"	29232	protein-coding gene	gene with protein product		610028				15273990	Standard	NM_017554		Approved	KIAA1268, pART8	uc003efq.4	Q460N5	OTTHUMG00000159552	ENST00000474629.2:c.4076C>G	3.37:g.122436993C>G	ENSP00000418194:p.Ser1359*	Somatic		WXS	Illumina HiSeq	Phase_I	B4E2H0|Q460N4|Q8J027|Q9H9X9|Q9NV60|Q9ULF2	Nonsense_Mutation	SNP	ENST00000474629.2	37	CCDS46894.1	.	.	.	.	.	.	.	.	.	.	C	40	8.082615	0.98646	.	.	ENSG00000173193	ENST00000474629;ENST00000398162;ENST00000398157	.	.	.	5.28	-1.14	0.09741	.	1.436610	0.04490	N	0.379296	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.42905	T	0.14	.	5.3252	0.15903	0.1259:0.4927:0.0:0.3814	.	.	.	.	X	1359;1278;355	.	ENSP00000381224:S355X	S	+	2	0	PARP14	123919683	0.000000	0.05858	0.000000	0.03702	0.971000	0.66376	0.777000	0.26718	-0.442000	0.07190	0.650000	0.86243	TCA		0.388	PARP14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356173.2	NM_017554		G	122436993	C	G	122436993	4	3	699	1	0	0	0	0	0	1	0	0	11465	838	29	4	4126	4	PARP14	3	122436993	Nonsense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	882803	122436993	75585437	42	45808										
RBP2	5948	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	139195286	139195286	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ctccatctcccaggttccatTctggtcccttgtcatggtgg	9	14	3	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr3:139195286T>A	ENST00000232217.2	-	1	72	c.16A>T	c.(16-18)Aat>Tat	p.N6Y	RP11-319G6.1_ENST00000515247.1_RNA	NM_004164.2	NP_004155.2	P50120	RET2_HUMAN	retinol binding protein 2, cellular	6					epidermis development (GO:0008544)|phototransduction, visible light (GO:0007603)|retinoid metabolic process (GO:0001523)|vitamin A metabolic process (GO:0006776)	cytosol (GO:0005829)	retinal binding (GO:0016918)|retinoid binding (GO:0005501)|retinol binding (GO:0019841)|transporter activity (GO:0005215)			breast(1)|large_intestine(1)|lung(7)|prostate(1)|skin(1)|urinary_tract(1)	12					Vitamin A(DB00162)	CAGGTTCCATTCTGGTCCCTT	0.537																																																0													154	132	139					3																	139195286		2203	4300	6503	SO:0001583	missense	5948			U13831	CCDS3109.1	3q23	2013-03-01	2001-11-28		ENSG00000114113	ENSG00000114113		"Fatty acid binding protein family"	9920	protein-coding gene	gene with protein product		180280	"retinol-binding protein 2, cellular"			7657783, 10072590	Standard	NM_004164		Approved	CRBP2, RBPC2, CRBPII, CRABP-II	uc003eth.3	P50120	OTTHUMG00000159956	ENST00000232217.2:c.16A>T	3.37:g.139195286T>A	ENSP00000232217:p.Asn6Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7G3|Q6ISQ9|Q6ISS7	Missense_Mutation	SNP	ENST00000232217.2	37	CCDS3109.1	.	.	.	.	.	.	.	.	.	.	T	21.4	4.138577	0.77775	.	.	ENSG00000114113	ENST00000232217;ENST00000511956;ENST00000506825	T;T	0.08102	3.13;3.13	5.44	5.44	0.79542	Calycin-like (1);Cytosolic fatty-acid binding (1);Lipocalin/cytosolic fatty-acid binding protein domain (1);Calycin (1);	0.550372	0.21049	N	0.081028	T	0.17023	0.0409	L	0.29908	0.895	0.54753	D	0.999987	D	0.76494	0.999	D	0.68039	0.955	T	0.01666	-1.1300	10	0.44086	T	0.13	.	13.5403	0.61671	0.0:0.0:0.0:1.0	.	6	P50120	RET2_HUMAN	Y	6	ENSP00000232217:N6Y;ENSP00000424333:N6Y	ENSP00000232217:N6Y	N	-	1	0	RBP2	140677976	1.000000	0.71417	0.998000	0.56505	0.970000	0.65996	3.604000	0.54081	2.194000	0.70268	0.460000	0.39030	AAT		0.537	RBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358490.1	NM_004164		A	139195286	T	A	139195286	3	1	699	1	0	0	0	0	1	0	0	0	13169	1783	62	5	404	5	RBP2	3	139195286	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	16758293	139195286	58827144	43	45809										
ZBTB38	253461	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	141162052	141162058	+	Frame_Shift_Del	DEL	TTCGGAT	TTCGGAT	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	acattctccataccacaggaTtcggattcagccacagaaaa					rs549239683		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	TTCGGAT	TTCGGAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr3:141162052_141162058delTTCGGAT	ENST00000514251.1	+	4	1101_1107	c.822_828delTTCGGAT	c.(820-828)gattcggatfs	p.DSD274fs	ZBTB38_ENST00000321464.5_Frame_Shift_Del_p.DSD275fs|ZBTB38_ENST00000441582.2_Frame_Shift_Del_p.DSD274fs					zinc finger and BTB domain containing 38											breast(3)|cervix(4)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(3)|lung(14)|ovary(3)|prostate(2)|skin(3)|urinary_tract(1)	41						TACCACAGGATTCGGATTCAGCCACAG	0.459																																																0																																										SO:0001589	frameshift_variant	253461			BC015444	CCDS43157.1	3q23	2014-06-13			ENSG00000177311	ENSG00000177311		"-", "Zinc fingers, C2H2-type", "BTB/POZ domain containing"	26636	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 171"	612218				12477932	Standard	NM_001080412		Approved	FLJ35036, CIBZ, ZNF921, PPP1R171	uc003etw.3	Q8NAP3	OTTHUMG00000160128	ENST00000514251.1:c.822_828delTTCGGAT	3.37:g.141162052_141162058delTTCGGAT	ENSP00000426387:p.Asp274fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000514251.1	37	CCDS43157.1																																																																																				0.459	ZBTB38-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000359329.2			-	141162058	TTCGGAT	-	141162052	7	5	699	1	0	1	0	1	0	0	0	0	17551	1490	52	0	824	0	ZBTB38	3	141162052	Frame_Shift_Del	DEL	TTCGGAT	TCGA-P4-A5EB-01A-11D-A28G-10	1966766	141162052	56860378	44	45810										
SR140	23350	bcgsc.ca	37	chr3	142762057	142762057	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	caaagaagaaatgactgagtCtaagttctctaagtactctg	8	7	3	4			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr3:142762057C>T	ENST00000473835.2	+	24	2573	c.2483C>T	c.(2482-2484)tCt>tTt	p.S828F	U2SURP_ENST00000493598.2_Missense_Mutation_p.S827F|U2SURP_ENST00000397933.2_Missense_Mutation_p.S419F	NM_001080415.1	NP_001073884.1	O15042	SR140_HUMAN	U2 snRNP-associated SURP domain containing	828	Glu-rich.				RNA processing (GO:0006396)	nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(2)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(6)|lung(12)|ovary(2)|pancreas(1)|prostate(1)|skin(1)	31						ATGACTGAGTCTAAGTTCTCT	0.353																																																0													69	61	64					3																	142762057		1861	4102	5963	SO:0001583	missense	23350			BK000564	CCDS46928.1	3q23	2013-02-12			ENSG00000163714	ENSG00000163714		"RNA binding motif (RRM) containing"	30855	protein-coding gene	gene with protein product	"functional spliceosome-associated protein a", "Ser/Arg-rich domain protein, 140 kDa", "U2 associated SR140 protein"					9205841, 12234937	Standard	NM_001080415		Approved	fSAPa, SR140	uc003evh.1	O15042	OTTHUMG00000159323	ENST00000473835.2:c.2483C>T	3.37:g.142762057C>T	ENSP00000418563:p.Ser828Phe	Somatic		WXS	Illumina HiSeq	Phase_1	A0PJ60|Q0D2M1|Q2NKQ7|Q9BR70	Missense_Mutation	SNP	ENST00000473835.2	37	CCDS46928.1	.	.	.	.	.	.	.	.	.	.	C	14.64	2.595735	0.46318	.	.	ENSG00000163714	ENST00000473835;ENST00000319822;ENST00000397933;ENST00000493598;ENST00000480029	T;T;T;D	0.97505	0.89;0.89;0.89;-4.41	5.65	5.65	0.86999	.	0.107341	0.64402	D	0.000004	D	0.93331	0.7874	N	0.14661	0.345	0.52501	D	0.999956	B;B;B	0.10296	0.003;0.001;0.001	B;B;B	0.09377	0.004;0.002;0.001	D	0.88459	0.3054	10	0.37606	T	0.19	-8.4043	19.7129	0.96103	0.0:1.0:0.0:0.0	.	827;419;828	O15042-2;O15042-3;O15042	.;.;SR140_HUMAN	F	828;828;419;827;395	ENSP00000418563:S828F;ENSP00000381027:S419F;ENSP00000422011:S827F;ENSP00000417441:S395F	ENSP00000322376:S828F	S	+	2	0	U2SURP	144244747	0.991000	0.36638	1.000000	0.80357	0.981000	0.71138	3.465000	0.53064	2.658000	0.90341	0.650000	0.86243	TCT		0.353	U2SURP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354603.2	NM_001080415		T	142762057	C	T	142762057	3	4	699	1	0	0	0	0	1	0	0	0	15143	913	32	2	2577	2	SR140	3	142762057	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	1600005	142762057	55260373	45	45811										
HPS3	84343	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	148857880	148857881	+	Frame_Shift_Ins	INS	-	-	GT													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	taaaaggactgaaaactctcINSgtgtgtgtatccgaatgatt					rs541164156		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr3:148857880_148857881insGT	ENST00000296051.2	+	2	447_448	c.307_308insGT	c.(307-309)cgtfs	p.R103fs	HPS3_ENST00000460120.1_Intron	NM_032383.3	NP_115759.2	Q969F9	HPS3_HUMAN	Hermansky-Pudlak syndrome 3	103					organelle organization (GO:0006996)|pigmentation (GO:0043473)	BLOC-2 complex (GO:0031084)		p.R103S(1)		breast(2)|endometrium(2)|kidney(1)|large_intestine(7)|lung(12)|ovary(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)	34			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			TGAAAACTCTCGTGTGTGTATC	0.426									Hermansky-Pudlak syndrome																																							1	Substitution - Missense(1)	lung(1)																																								SO:0001589	frameshift_variant	84343	Familial Cancer Database	HPS, HPS1-8	AY033141	CCDS3140.1	3q24	2014-06-18			ENSG00000163755	ENSG00000163755			15597	protein-coding gene	gene with protein product		606118				11455388	Standard	NM_032383		Approved	SUTAL	uc003ewu.1	Q969F9	OTTHUMG00000159548	ENST00000296051.2:c.314_315dupGT	3.37:g.148857887_148857888dupGT	ENSP00000296051:p.Arg103fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6G6|Q8WTV6|Q96AP1|Q96MR3|Q9H608	Frame_Shift_Ins	INS	ENST00000296051.2	37	CCDS3140.1																																																																																				0.426	HPS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356151.1	NM_032383		GT	148857881	-	GT	148857880	7	5	699	1	0	1	1	0	0	0	0	0	7347	884	31	0	313	0	HPS3	3	148857880	Frame_Shift_Ins	INS	-	TCGA-P4-A5EB-01A-11D-A28G-10	6095823	148857880	49164550	46	45812										
PLD1	5337	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	171395429	171395429	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tcctttccatgccagaatctGgtttccccatgcagctctcc	6	16	2	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr3:171395429G>A	ENST00000351298.4	-	17	2049	c.1923C>T	c.(1921-1923)acC>acT	p.T641T	PLD1_ENST00000356327.5_Silent_p.T603T|PLD1_ENST00000340989.4_Silent_p.T641T|PLD1_ENST00000342215.6_Missense_Mutation_p.P532L	NM_002662.4	NP_002653.1	Q13393	PLD1_HUMAN	phospholipase D1, phosphatidylcholine-specific	641	Catalytic.				chemotaxis (GO:0006935)|defense response to Gram-positive bacterium (GO:0050830)|glycerophospholipid biosynthetic process (GO:0046474)|lipid catabolic process (GO:0016042)|phosphatidic acid biosynthetic process (GO:0006654)|phosphatidylglycerol biosynthetic process (GO:0006655)|phospholipid metabolic process (GO:0006644)|Ras protein signal transduction (GO:0007265)|small GTPase mediated signal transduction (GO:0007264)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum membrane (GO:0005789)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|lysosomal membrane (GO:0005765)|membrane (GO:0016020)	N-acylphosphatidylethanolamine-specific phospholipase D activity (GO:0070290)|phosphatidylinositol binding (GO:0035091)|phospholipase D activity (GO:0004630)			breast(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(15)|lung(27)|ovary(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	63	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	GCCAGAATCTGGTTTCCCCAT	0.498																																					NSCLC(149;2174 3517 34058)											0													169	150	157					3																	171395429		2203	4300	6503	SO:0001819	synonymous_variant	5337			U38545	CCDS3216.1, CCDS46957.1	3q26	2013-01-10	2006-02-17		ENSG00000075651	ENSG00000075651	3.1.4.4	"Pleckstrin homology (PH) domain containing"	9067	protein-coding gene	gene with protein product	"choline phosphatase 1"	602382				9858822, 8530346	Standard	NM_002662		Approved		uc003fhs.3	Q13393	OTTHUMG00000156947	ENST00000351298.4:c.1923C>T	3.37:g.171395429G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000351298.4	37	CCDS3216.1	.	.	.	.	.	.	.	.	.	.	G	13.30	2.196234	0.38806	.	.	ENSG00000075651	ENST00000342215	T	0.34072	1.38	6.16	0.406	0.16366	.	.	.	.	.	T	0.25827	0.0629	.	.	.	0.30550	N	0.765587	.	.	.	.	.	.	T	0.31110	-0.9955	6	0.27785	T	0.31	-24.3912	4.8638	0.13598	0.1371:0.3306:0.4295:0.1029	.	.	.	.	L	532	ENSP00000339936:P532L	ENSP00000339936:P532L	P	-	2	0	PLD1	172878123	0.948000	0.32251	0.748000	0.31131	0.981000	0.71138	0.123000	0.15708	0.117000	0.18138	0.650000	0.86243	CCA		0.498	PLD1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000346730.2	NM_002662		A	171395429	G	A	171395429	2	1	699	1	0	0	0	0	0	0	0	1	12052	1335	47	2		2	PLD1	3	171395429	Silent	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	22537549	171395429	26627001	47	45813										
RFC4	5984	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	186508173	186508173	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gacaggcagcaaatactccaTcaattttctcagctggtatt	7	10	2	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr3:186508173T>A	ENST00000392481.2	-	9	1105	c.824A>T	c.(823-825)gAt>gTt	p.D275V	RFC4_ENST00000296273.2_Missense_Mutation_p.D275V|SNORA4_ENST00000584302.1_RNA|SNORA63_ENST00000363450.1_RNA|RFC4_ENST00000433496.1_Intron	NM_181573.2	NP_853551.1	P35249	RFC4_HUMAN	replication factor C (activator 1) 4, 37kDa	275					DNA repair (GO:0006281)|DNA replication (GO:0006260)|DNA strand elongation involved in DNA replication (GO:0006271)|mitotic cell cycle (GO:0000278)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair, DNA gap filling (GO:0006297)|telomere maintenance (GO:0000723)|telomere maintenance via recombination (GO:0000722)|telomere maintenance via semi-conservative replication (GO:0032201)|transcription-coupled nucleotide-excision repair (GO:0006283)	DNA replication factor C complex (GO:0005663)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|DNA binding (GO:0003677)	p.D275G(1)		breast(3)|kidney(3)|large_intestine(5)|lung(9)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	26	all_cancers(143;2.92e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)	GBM - Glioblastoma multiforme(93;0.0739)		AAATACTCCATCAATTTTCTC	0.428																																																1	Substitution - Missense(1)	kidney(1)											112	112	112					3																	186508173		2203	4300	6503	SO:0001583	missense	5984				CCDS3283.1	3q27	2010-04-21	2002-08-29		ENSG00000163918	ENSG00000163918		"ATPases / AAA-type"	9972	protein-coding gene	gene with protein product	"A1 37 kDa subunit", "activator 1 37 kDa subunit", "RFC 37 kDa subunit"	102577	"replication factor C (activator 1) 4 (37kD)"			7774928	Standard	NM_181573		Approved	A1, RFC37	uc003fqz.3	P35249	OTTHUMG00000156515	ENST00000392481.2:c.824A>T	3.37:g.186508173T>A	ENSP00000376272:p.Asp275Val	Somatic		WXS	Illumina HiSeq	Phase_I	B4DM41|D3DNV2|Q6FHX7	Missense_Mutation	SNP	ENST00000392481.2	37	CCDS3283.1	.	.	.	.	.	.	.	.	.	.	T	11.55	1.670832	0.29693	.	.	ENSG00000163918	ENST00000392481;ENST00000296273;ENST00000417876	T;T;T	0.44083	0.93;0.93;0.93	5.32	2.79	0.32731	Replication factor C (1);DNA polymerase III, clamp loader complex, gamma/delta/delta subunit, C-terminal (1);	0.428568	0.30538	N	0.009405	T	0.44808	0.1311	M	0.84326	2.69	0.80722	D	1	B	0.18013	0.025	B	0.27887	0.084	T	0.46373	-0.9196	10	0.54805	T	0.06	.	6.9715	0.24652	0.0:0.0842:0.1493:0.7664	.	275	P35249	RFC4_HUMAN	V	275;275;50	ENSP00000376272:D275V;ENSP00000296273:D275V;ENSP00000401429:D50V	ENSP00000296273:D275V	D	-	2	0	RFC4	187990867	0.999000	0.42202	0.697000	0.30258	0.437000	0.31866	2.471000	0.45127	0.970000	0.38263	0.459000	0.35465	GAT		0.428	RFC4-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344471.1	NM_002916		A	186508173	T	A	186508173	3	1	699	1	0	0	0	0	1	0	0	0	13260	1435	50	5	279	5	RFC4	3	186508173	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	15112744	186508173	11514257	48	45814										
IDUA	3425	broad.mit.edu	37	chr4	996204	996204	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cgcgcttccaggtcaacaacAcccgcccgccgcacgtgcag	10	19	1	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr4:996204A>C	ENST00000247933.4	+	8	1208	c.1120A>C	c.(1120-1122)Acc>Ccc	p.T374P	IDUA_ENST00000514224.1_Missense_Mutation_p.T242P|IDUA_ENST00000453894.1_Missense_Mutation_p.T396P	NM_000203.3	NP_000194.2	P35475	IDUA_HUMAN	iduronidase, alpha-L-	374					carbohydrate metabolic process (GO:0005975)|cell morphogenesis (GO:0000902)|chemical homeostasis (GO:0048878)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate catabolic process (GO:0030209)|disaccharide metabolic process (GO:0005984)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|limb morphogenesis (GO:0035108)|lysosome organization (GO:0007040)|skeletal system morphogenesis (GO:0048705)|small molecule metabolic process (GO:0044281)	coated vesicle (GO:0030135)|extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)	L-iduronidase activity (GO:0003940)			breast(1)|endometrium(3)|kidney(1)|large_intestine(1)|lung(5)|upper_aerodigestive_tract(1)	12			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			GGTCAACAACACCCGCCCGCC	0.711																																																0													26	28	27					4																	996204		2185	4282	6467	SO:0001583	missense	3425			M74715	CCDS3343.1	4p16.3	2012-10-02			ENSG00000127415	ENSG00000127415	3.2.1.76		5391	protein-coding gene	gene with protein product		252800				1832239	Standard	NM_000203		Approved	MPS1	uc003gby.3	P35475	OTTHUMG00000088901	ENST00000247933.4:c.1120A>C	4.37:g.996204A>C	ENSP00000247933:p.Thr374Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWK6	Missense_Mutation	SNP	ENST00000247933.4	37	CCDS3343.1	.	.	.	.	.	.	.	.	.	.	A	21.2	4.117066	0.77323	.	.	ENSG00000127415	ENST00000247933;ENST00000453894;ENST00000514224	D;D;D	0.94280	-3.39;-3.39;-3.39	5.31	5.31	0.75309	Glycoside hydrolase, subgroup, catalytic domain (1);Glycoside hydrolase, superfamily (1);	0.156849	0.56097	D	0.000026	D	0.96611	0.8894	M	0.86178	2.8	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.995	D	0.96508	0.9376	10	0.46703	T	0.11	-7.29	13.2474	0.60029	1.0:0.0:0.0:0.0	.	396;374	B3KWK6;P35475	.;IDUA_HUMAN	P	374;396;242	ENSP00000247933:T374P;ENSP00000396458:T396P;ENSP00000425081:T242P	ENSP00000247933:T374P	T	+	1	0	IDUA	986204	1.000000	0.71417	0.995000	0.50966	0.426000	0.31534	5.967000	0.70403	2.024000	0.59613	0.454000	0.30748	ACC		0.711	IDUA-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000201812.1	NM_000203		C	996204	A	C	996204	3	2	699	1	0	0	0	0	1	0	0	0	7511	159	6	5	1150	5	IDUA	4	996204	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10		996204	190158072	49	45815										
HTT	3064	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	3162057	3162057	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	aaaagtttggagggtttctcCgctcagccttggatgttctt	11	8	3	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr4:3162057C>T	ENST00000355072.5	+	29	3947	c.3802C>T	c.(3802-3804)Cgc>Tgc	p.R1268C		NM_002111.6	NP_002102	P42858	HD_HUMAN	huntingtin	1268					anterior/posterior pattern specification (GO:0009952)|axon cargo transport (GO:0008088)|cell aging (GO:0007569)|citrulline metabolic process (GO:0000052)|determination of adult lifespan (GO:0008340)|dopamine receptor signaling pathway (GO:0007212)|endoplasmic reticulum organization (GO:0007029)|endosomal transport (GO:0016197)|ER to Golgi vesicle-mediated transport (GO:0006888)|establishment of mitotic spindle orientation (GO:0000132)|Golgi organization (GO:0007030)|grooming behavior (GO:0007625)|hormone metabolic process (GO:0042445)|insulin secretion (GO:0030073)|iron ion homeostasis (GO:0055072)|L-glutamate import (GO:0051938)|lactate biosynthetic process from pyruvate (GO:0019244)|locomotory behavior (GO:0007626)|negative regulation of extrinsic apoptotic signaling pathway (GO:2001237)|negative regulation of neuron apoptotic process (GO:0043524)|neural plate formation (GO:0021990)|neuron apoptotic process (GO:0051402)|neuron development (GO:0048666)|olfactory lobe development (GO:0021988)|organ development (GO:0048513)|paraxial mesoderm formation (GO:0048341)|positive regulation of inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity (GO:0031587)|protein import into nucleus (GO:0006606)|quinolinate biosynthetic process (GO:0019805)|regulation of mitochondrial membrane permeability (GO:0046902)|regulation of mitochondrial membrane potential (GO:0051881)|regulation of protein phosphatase type 2A activity (GO:0034047)|regulation of synaptic plasticity (GO:0048167)|response to calcium ion (GO:0051592)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)|social behavior (GO:0035176)|spermatogenesis (GO:0007283)|striatum development (GO:0021756)|urea cycle (GO:0000050)|vesicle transport along microtubule (GO:0047496)|visual learning (GO:0008542)	autophagic vacuole (GO:0005776)|axon (GO:0030424)|cytoplasm (GO:0005737)|cytoplasmic vesicle membrane (GO:0030659)|cytosol (GO:0005829)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|inclusion body (GO:0016234)|late endosome (GO:0005770)|mitochondrion (GO:0005739)|nucleus (GO:0005634)|protein complex (GO:0043234)	beta-tubulin binding (GO:0048487)|diazepam binding (GO:0050809)|dynactin binding (GO:0034452)|dynein intermediate chain binding (GO:0045505)|identical protein binding (GO:0042802)|ion channel binding (GO:0044325)|p53 binding (GO:0002039)|transcription factor binding (GO:0008134)			breast(1)|cervix(2)|endometrium(14)|kidney(5)|large_intestine(23)|lung(28)|ovary(4)|prostate(2)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	87		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		AGGGTTTCTCCGCTCAGCCTT	0.512																																																0																																										SO:0001583	missense	3064			L12392	CCDS43206.1	4p16.3	2014-09-17	2007-12-04	2007-12-04	ENSG00000197386	ENSG00000197386		"Endogenous ligands"	4851	protein-coding gene	gene with protein product		613004	"huntingtin (Huntington disease)"	HD		8458085	Standard	NM_002111		Approved	IT15	uc021xkv.1	P42858	OTTHUMG00000159916	ENST00000355072.5:c.3802C>T	4.37:g.3162057C>T	ENSP00000347184:p.Arg1268Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UQB7	Missense_Mutation	SNP	ENST00000355072.5	37	CCDS43206.1	.	.	.	.	.	.	.	.	.	.	C	11.56	1.674542	0.29693	.	.	ENSG00000197386	ENST00000355072	T	0.65916	-0.18	4.27	4.27	0.50696	.	0.000000	0.85682	D	0.000000	T	0.57740	0.2074	L	0.52364	1.645	0.80722	D	1	B	0.18166	0.026	B	0.11329	0.006	T	0.57946	-0.7723	10	0.44086	T	0.13	.	16.6252	0.84968	0.0:1.0:0.0:0.0	.	1268	P42858	HD_HUMAN	C	1268	ENSP00000347184:R1268C	ENSP00000347184:R1268C	R	+	1	0	HTT	3131855	1.000000	0.71417	1.000000	0.80357	0.221000	0.24807	4.125000	0.57931	2.069000	0.61940	0.563000	0.77884	CGC		0.512	HTT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000358234.2	NM_002111		T	3162057	C	T	3162057	3	4	699	1	0	0	0	0	1	0	0	0	7464	652	23	1	3916	1	HTT	4	3162057	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	2165853	3162057	187992219	50	45816										
CCDC149	91050	broad.mit.edu	37	chr4	24838061	24838061	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	catcatgattttgctaccttGtatttggcaatgtttgattt	7	6	1	2	rs189623642		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr4:24838061G>T	ENST00000389609.4	-	8	875	c.732C>A	c.(730-732)taC>taA	p.Y244*	CCDC149_ENST00000502801.1_Intron|CCDC149_ENST00000428116.2_Intron|CCDC149_ENST00000504487.1_Nonsense_Mutation_p.Y244*	NM_173463.4	NP_775734.2	Q6ZUS6	CC149_HUMAN	coiled-coil domain containing 149	189										cervix(1)|endometrium(1)|large_intestine(2)|lung(3)	7		Breast(46;0.173)				TTGCTACCTTGTATTTGGCAA	0.348																																																0													285	261	269					4																	24838061		2203	4300	6503	SO:0001587	stop_gained	91050				CCDS33967.1, CCDS47036.1, CCDS33967.2	4p15.2	2008-03-03				ENSG00000181982			25405	protein-coding gene	gene with protein product						17457313	Standard	NM_173463		Approved	DKFZp761B107	uc003grc.3	Q6ZUS6		ENST00000389609.4:c.732C>A	4.37:g.24838061G>T	ENSP00000374260:p.Tyr244*	Somatic		WXS	Illumina HiSeq	Phase_I	A6NJE7|B4DK90|B4DZG3|G5EA04|Q6NW41|Q8N3K8	Nonsense_Mutation	SNP	ENST00000389609.4	37	CCDS33967.2	.	.	.	.	.	.	.	.	.	.	G	21.9	4.213945	0.79352	.	.	ENSG00000181982	ENST00000504487;ENST00000389609;ENST00000382116;ENST00000503881	.	.	.	4.56	2.64	0.31445	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-15.9336	9.4249	0.38574	0.2483:0.0:0.7517:0.0	.	.	.	.	X	244;244;168;189	.	ENSP00000371550:Y168X	Y	-	3	2	CCDC149	24447159	1.000000	0.71417	1.000000	0.80357	0.985000	0.73830	3.292000	0.51772	1.119000	0.41883	0.650000	0.86243	TAC		0.348	CCDC149-002	PUTATIVE	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000360157.1	NM_173463		T	24838061	G	T	24838061	4	4	699	1	0	0	0	0	0	1	0	0	2785	1372	48	4	885	4	CCDC149	4	24838061	Nonsense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	21676004	24838061	166316215	51	45817										
PI4K2B	55300	hgsc.bcm.edu	37	chr4	25235821	25235821	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gagcccgaccggttggcgtcCgcggacggcgggagcccgga	19	14	0	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr4:25235821C>A	ENST00000264864.6	+	1	225	c.36C>A	c.(34-36)tcC>tcA	p.S12S	PI4K2B_ENST00000512921.1_Intron	NM_018323.3	NP_060793.2	Q8TCG2	P4K2B_HUMAN	phosphatidylinositol 4-kinase type 2 beta	12					phosphatidylinositol biosynthetic process (GO:0006661)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)	1-phosphatidylinositol 4-kinase activity (GO:0004430)|ATP binding (GO:0005524)			endometrium(2)|kidney(1)|large_intestine(3)|lung(3)|ovary(3)|skin(3)	15		Breast(46;0.173)				GGTTGGCGTCCGCGGACGGCG	0.731																																																0													3	3	3					4																	25235821		1446	3354	4800	SO:0001819	synonymous_variant	55300			AK001967	CCDS3433.1	4p15.31	2009-05-07			ENSG00000038210	ENSG00000038210			18215	protein-coding gene	gene with protein product		612101				11923287	Standard	NM_018323		Approved	PI4KIIB, FLJ11105, PIK42B	uc003grk.2	Q8TCG2	OTTHUMG00000128564	ENST00000264864.6:c.36C>A	4.37:g.25235821C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9NUW2	Silent	SNP	ENST00000264864.6	37	CCDS3433.1																																																																																				0.731	PI4K2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250415.1	NM_018323		A	25235821	C	A	25235821	2	1	699	1	0	0	0	0	0	0	0	1	11879	639	23	4		4	PI4K2B	4	25235821	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	397760	25235821	165918455	52	45818										
ARAP2	116984	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	36152575	36152575	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gccaggcagataacttcattGatattaatggtgccattagg	10	7	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr4:36152575G>T	ENST00000303965.4	-	16	3333	c.2844C>A	c.(2842-2844)atC>atA	p.I948I		NM_015230.3	NP_056045.2	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2	948	PH 3. {ECO:0000255|PROSITE- ProRule:PRU00145}.				regulation of ARF GTPase activity (GO:0032312)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)	ARF GTPase activator activity (GO:0008060)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(22)|liver(1)|lung(32)|ovary(2)|pancreas(1)|prostate(3)|skin(7)|urinary_tract(1)	82						TAACTTCATTGATATTAATGG	0.343																																																0													169	174	172					4																	36152575		2203	4298	6501	SO:0001819	synonymous_variant	116984			AF411982	CCDS3441.1	4p15.1	2013-01-11	2008-09-22	2008-09-22	ENSG00000047365	ENSG00000047365		"ADP-ribosylation factor GTPase activating proteins", "Sterile alpha motif (SAM) domain containing", "Pleckstrin homology (PH) domain containing", "Ankyrin repeat domain containing"	16924	protein-coding gene	gene with protein product		606645	"centaurin, delta 1"	CENTD1			Standard	NM_015230		Approved	PARX	uc003gsq.2	Q8WZ64	OTTHUMG00000097811	ENST00000303965.4:c.2844C>A	4.37:g.36152575G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5D2|Q7Z2L5|Q96L70|Q96P49|Q9Y4E4	Silent	SNP	ENST00000303965.4	37	CCDS3441.1																																																																																				0.343	ARAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215074.2	NM_015230		T	36152575	G	T	36152575	2	4	699	1	0	0	0	0	0	0	0	1	839	1280	45	4		4	ARAP2	4	36152575	Silent	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	10916754	36152575	155001701	53	45819										
RFC1	5981	bcgsc.ca	37	chr4	39306550	39306551	+	Splice_Site	INS	-	-	AAAAAA													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gtagctgtatcccaactcctINSaatcaaaatattggaaacca							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr4:39306550_39306551insAAAAAA	ENST00000381897.1	-	15	2132		c.e15-2		RFC1_ENST00000349703.2_Splice_Site	NM_001204747.1|NM_002913.4	NP_001191676.1|NP_002904.3	P35251	RFC1_HUMAN	replication factor C (activator 1) 1, 145kDa						DNA repair (GO:0006281)|DNA strand elongation involved in DNA replication (GO:0006271)|DNA-dependent DNA replication (GO:0006261)|mitotic cell cycle (GO:0000278)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|nucleotide-excision repair (GO:0006289)|nucleotide-excision repair, DNA gap filling (GO:0006297)|positive regulation of catalytic activity (GO:0043085)|positive regulation of transcription, DNA-templated (GO:0045893)|telomere maintenance (GO:0000723)|telomere maintenance via recombination (GO:0000722)|telomere maintenance via semi-conservative replication (GO:0032201)|telomere maintenance via telomerase (GO:0007004)|transcription, DNA-templated (GO:0006351)|transcription-coupled nucleotide-excision repair (GO:0006283)	cell junction (GO:0030054)|DNA replication factor C complex (GO:0005663)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|DNA clamp loader activity (GO:0003689)|double-stranded DNA binding (GO:0003690)|enzyme activator activity (GO:0008047)|sequence-specific DNA binding (GO:0043565)			haematopoietic_and_lymphoid_tissue(2)|large_intestine(9)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	16						TCCCAACTCCTAATCAAAATAT	0.426																																					Colon(109;59 1555 12203 17579 39824)|Esophageal Squamous(18;360 542 16186 28570 51157)											0																																										SO:0001630	splice_region_variant	5981			L23320	CCDS3450.1, CCDS56329.1	4p14-p13	2010-04-21	2002-08-29		ENSG00000035928	ENSG00000035928		"ATPases / AAA-type"	9969	protein-coding gene	gene with protein product		102579	"replication factor C (activator 1) 1 (145kD)"			8114700	Standard	NM_002913		Approved	A1, PO-GA, RFC140, MHCBFB	uc003gty.2	P35251	OTTHUMG00000099363	ENST00000381897.1:c.1999-2->TTTTTT	4.37:g.39306550_39306551insAAAAAA		Somatic		WXS	Illumina HiSeq	Phase_1	A8K6E7|Q5XKF5|Q6PKU0|Q86V41|Q86V46	Splice_Site	INS	ENST00000381897.1	37	CCDS56329.1																																																																																				0.426	RFC1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000216808.1	NM_002913	Intron	AAAAAA	39306551	-	AAAAAA	39306550	8	5	699	1	0	1	1	0	0	0	1	0	13257	1536	53	0	1493	0	RFC1	4	39306550	Splice_Site	INS	-	TCGA-P4-A5EB-01A-11D-A28G-10	3153975	39306550	151847726	54	45820										
RCHY1	25898	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr4	76416940	76416940	+	Frame_Shift_Del	DEL	A	A	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	agatgttactttacctatgtAaaagatgtccacatggcaag							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr4:76416940delA	ENST00000324439.5	-	6	901	c.503delT	c.(502-504)ttafs	p.L168fs	RCHY1_ENST00000513257.1_Frame_Shift_Del_p.L168fs|RCHY1_ENST00000451788.1_Frame_Shift_Del_p.L168fs|RCHY1_ENST00000380840.2_Frame_Shift_Del_p.L128fs|RCHY1_ENST00000512706.1_Frame_Shift_Del_p.L146fs|RCHY1_ENST00000514021.1_5'Flank	NM_001278536.1|NM_001278538.1|NM_001278539.1	NP_001265465.1|NP_001265467.1|NP_001265468.1	Q96PM5	ZN363_HUMAN	ring finger and CHY zinc finger domain containing 1, E3 ubiquitin protein ligase	168					positive regulation of proteasomal ubiquitin-dependent protein catabolic process (GO:0032436)|positive regulation of protein ubiquitination (GO:0031398)|protein autoubiquitination (GO:0051865)|protein ubiquitination (GO:0016567)|protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|ubiquitin ligase complex (GO:0000151)	ligase activity (GO:0016874)|p53 binding (GO:0002039)|protein homodimerization activity (GO:0042803)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			large_intestine(2)|pancreas(1)	3			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			TTACCTATGTAAAAGATGTCC	0.308																																																0													59	59	59					4																	76416940		2203	4297	6500	SO:0001589	frameshift_variant	25898			AF255666	CCDS3567.1, CCDS34012.1, CCDS63990.1, CCDS63991.1, CCDS63992.1	4q21.1-q21.3	2014-02-17	2012-02-23	2004-03-30	ENSG00000163743	ENSG00000163743		"RING-type (C3HC4) zinc fingers"	17479	protein-coding gene	gene with protein product	"androgen-receptor N-terminal-interacting protein", "p53-induced protein with a RING-H2 domain", "zinc finger, CHY-type"	607680	"zinc finger protein 363", "ring finger and CHY zinc finger domain containing 1"	ZNF363		12654245	Standard	NM_015436		Approved	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2, ZCHY	uc003hik.3	Q96PM5	OTTHUMG00000130105	ENST00000324439.5:c.503delT	4.37:g.76416940delA	ENSP00000321239:p.Leu168fs	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRG3|C7E541|C7E542|C7E543|D3YRV2|E7EMC8|E7ETW5|J3KPI0|Q2KN33|Q59GN7|Q86X26|Q96PR5	Frame_Shift_Del	DEL	ENST00000324439.5	37	CCDS3567.1																																																																																				0.308	RCHY1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252411.2	NM_015436		-	76416940	A	-	76416940	7	5	699	1	0	1	0	1	0	0	0	0	13190	372	13	0	298	0	RCHY1	4	76416940	Frame_Shift_Del	DEL	A	TCGA-P4-A5EB-01A-11D-A28G-10	37110390	76416940	114737336	55	45821										
DSPP	1834	bcgsc.ca	37	chr4	88536999	88536999	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	caatagcagtgacagcagtgAcagcagcgacagcagtgata	12	9	0	3	rs202222170		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr4:88536999A>G	ENST00000282478.7	+	4	3218	c.3185A>G	c.(3184-3186)gAc>gGc	p.D1062G	RP11-742B18.1_ENST00000506480.1_RNA|DSPP_ENST00000399271.1_Missense_Mutation_p.D1062G			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	1062	Asp/Ser-rich.			D -> G (in Ref. 1; AAF42472). {ECO:0000305}.	biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		gacagcagtgacagcagcgac	0.532																																																0													48	61	56					4																	88536999		1554	2803	4357	SO:0001583	missense	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.3185A>G	4.37:g.88536999A>G	ENSP00000282478:p.Asp1062Gly	Somatic		WXS	Illumina HiSeq	Phase_1	A8MUI0|O95815	Missense_Mutation	SNP	ENST00000282478.7	37	CCDS43248.1	.	.	.	.	.	.	.	.	.	.	a	6.732	0.503863	0.12822	.	.	ENSG00000152591	ENST00000399271;ENST00000282478	D;D	0.88975	-2.45;-2.45	1.51	1.51	0.23008	.	.	.	.	.	D	0.87716	0.6247	L	0.29908	0.895	0.21762	N	0.99955	D	0.76494	0.999	D	0.74023	0.982	T	0.76072	-0.3093	9	0.24483	T	0.36	.	5.1866	0.15187	1.0:0.0:0.0:0.0	.	1062	Q9NZW4	DSPP_HUMAN	G	1062	ENSP00000382213:D1062G;ENSP00000282478:D1062G	ENSP00000282478:D1062G	D	+	2	0	DSPP	88756023	0.386000	0.25180	0.936000	0.37596	0.006000	0.05464	2.307000	0.43682	0.963000	0.38082	0.242000	0.17961	GAC		0.532	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		G	88536999	A	G	88536999	3	3	699	1	0	0	0	0	1	0	0	0	4784	275	10	3	3199	3	DSPP	4	88536999	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	12120059	88536999	102617277	56	45822										
MMRN1	22915	broad.mit.edu;bcgsc.ca	37	chr4	90857474	90857474	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ccttattatatttcagttaaAaaaggcagtgtagttacaaa	6	5	1	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr4:90857474A>C	ENST00000394980.1	+	7	2962	c.2643A>C	c.(2641-2643)aaA>aaC	p.K881N	MMRN1_ENST00000394981.1_Intron|MMRN1_ENST00000508372.1_Missense_Mutation_p.K623N|MMRN1_ENST00000264790.2_Missense_Mutation_p.K881N			Q13201	MMRN1_HUMAN	multimerin 1	881					blood coagulation (GO:0007596)|cell adhesion (GO:0007155)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)	extracellular region (GO:0005576)|platelet alpha granule lumen (GO:0031093)				breast(2)|cervix(1)|endometrium(5)|kidney(1)|large_intestine(12)|liver(2)|lung(34)|ovary(5)|prostate(1)|skin(6)|stomach(1)|urinary_tract(2)	72		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		TTTCAGTTAAAAAAGGCAGTG	0.353																																																0													41	45	44					4																	90857474		2192	4293	6485	SO:0001583	missense	22915			U27109	CCDS3635.1	4q22	2008-02-05	2004-03-02	2004-03-02	ENSG00000138722	ENSG00000138722		"EMI domain containing"	7178	protein-coding gene	gene with protein product	"glycoprotein Ia*"	601456	"multimerin"	MMRN		7629143, 10828608	Standard	NM_007351		Approved	ECM, EMILIN4, GPIa*	uc003hst.3	Q13201	OTTHUMG00000130947	ENST00000394980.1:c.2643A>C	4.37:g.90857474A>C	ENSP00000378431:p.Lys881Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5L1|Q6P3T8|Q6ZUL9	Missense_Mutation	SNP	ENST00000394980.1	37	CCDS3635.1	.	.	.	.	.	.	.	.	.	.	A	10.47	1.358105	0.24598	.	.	ENSG00000138722	ENST00000394980;ENST00000264790;ENST00000508372	T;T;T	0.71103	-0.24;-0.24;-0.54	5.3	2.83	0.33086	.	0.063651	0.64402	D	0.000005	T	0.63745	0.2537	M	0.66939	2.045	0.80722	D	1	B	0.19583	0.037	B	0.17433	0.018	T	0.58381	-0.7646	10	0.46703	T	0.11	.	6.1628	0.20373	0.7239:0.1367:0.1393:0.0	.	881	Q13201	MMRN1_HUMAN	N	881;881;623	ENSP00000378431:K881N;ENSP00000264790:K881N;ENSP00000426461:K623N	ENSP00000264790:K881N	K	+	3	2	MMRN1	91076497	1.000000	0.71417	0.910000	0.35882	0.768000	0.43524	0.904000	0.28491	0.514000	0.28300	-0.291000	0.09656	AAA		0.353	MMRN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253546.2	NM_007351		C	90857474	A	C	90857474	3	2	699	1	0	0	0	0	1	0	0	0	9677	11	1	5	2665	5	MMRN1	4	90857474	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	2320475	90857474	100296802	57	45823										
SYNPO2	171024	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	119952707	119952707	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	acctcctcctgtggcctataAtcctatccactcgccgtctt	5	17	1	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr4:119952707A>T	ENST00000429713.2	+	4	2959	c.2777A>T	c.(2776-2778)aAt>aTt	p.N926I	SYNPO2_ENST00000307142.4_Missense_Mutation_p.N926I|SYNPO2_ENST00000448416.2_Intron|SYNPO2_ENST00000434046.2_Missense_Mutation_p.N926I	NM_001128933.1	NP_001122405.1	Q9UMS6	SYNP2_HUMAN	synaptopodin 2	926						actin cytoskeleton (GO:0015629)|focal adhesion (GO:0005925)|nucleus (GO:0005634)|Z disc (GO:0030018)	14-3-3 protein binding (GO:0071889)|muscle alpha-actinin binding (GO:0051371)			breast(3)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(20)|lung(18)|ovary(2)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	64						GTGGCCTATAATCCTATCCAC	0.572																																																0													87	83	84					4																	119952707		2203	4300	6503	SO:0001583	missense	171024			AJ010482	CCDS34054.1, CCDS47128.1, CCDS47129.1, CCDS75185.1, CCDS75186.1	4q26	2008-08-29			ENSG00000172403	ENSG00000172403			17732	protein-coding gene	gene with protein product						11673475, 17828378	Standard	NM_133477		Approved	MYOPODIN	uc010inb.3	Q9UMS6	OTTHUMG00000161165	ENST00000429713.2:c.2777A>T	4.37:g.119952707A>T	ENSP00000395143:p.Asn926Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RWP6|B2Y8J9|Q9UK89|S5XAM4	Missense_Mutation	SNP	ENST00000429713.2	37	CCDS47129.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	20.9|20.9	4.067512|4.067512	0.76301|0.76301	.|.	.|.	ENSG00000172403|ENSG00000172403	ENST00000307142;ENST00000429713;ENST00000434046|ENST00000504178	T;T;T|.	0.14893|.	2.47;2.58;2.47|.	5.66|5.66	5.66|5.66	0.87406|0.87406	.|.	0.000000|.	0.64402|.	D|.	0.000002|.	T|.	0.77239|.	0.4101|.	M|M	0.80982|0.80982	2.52|2.52	0.80722|0.80722	D|D	1|1	D;D;D;D|.	0.89917|.	1.0;1.0;0.999;0.997|.	D;D;D;D|.	0.91635|.	0.998;0.999;0.997;0.972|.	T|.	0.78874|.	-0.2032|.	9|.	.|.	.|.	.|.	-24.3416|-24.3416	15.8861|15.8861	0.79251|0.79251	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	926;926;926;926|.	B9EG60;Q9UMS6-2;E9PEM2;Q9UMS6|.	.;.;.;SYNP2_HUMAN|.	I|Y	926|877	ENSP00000306015:N926I;ENSP00000395143:N926I;ENSP00000390965:N926I|.	.|.	N|X	+|+	2|3	0|2	SYNPO2|SYNPO2	120172155|120172155	1.000000|1.000000	0.71417|0.71417	0.998000|0.998000	0.56505|0.56505	0.914000|0.914000	0.54420|0.54420	9.339000|9.339000	0.96797|0.96797	2.156000|2.156000	0.67533|0.67533	0.533000|0.533000	0.62120|0.62120	AAT|TAA		0.572	SYNPO2-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000364020.1			T	119952707	A	T	119952707	3	4	699	1	0	0	0	0	1	0	0	0	15469	101	4	5	2791	5	SYNPO2	4	119952707	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	29095233	119952707	71201569	58	45824										
IQGAP2	10788	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	75888702	75888702	+	Missense_Mutation	SNP	G	G	A													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	aagaaagagatgcttatgaaGaactgctgacacaagcagaa							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr5:75888702G>A	ENST00000274364.6	+	9	1156	c.859G>A	c.(859-861)Gaa>Aaa	p.E287K	IQGAP2_ENST00000379730.3_5'UTR	NM_006633.2	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	287					negative regulation of catalytic activity (GO:0043086)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	actin cytoskeleton (GO:0015629)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|microvillus (GO:0005902)	actin binding (GO:0003779)|GTPase inhibitor activity (GO:0005095)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|Ras GTPase activator activity (GO:0005099)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(15)|lung(23)|ovary(6)|prostate(1)|skin(3)|stomach(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	68		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		TGCTTATGAAGAACTGCTGAC	0.323																																																0													138	145	142					5																	75888702		2203	4300	6503	SO:0001583	missense	10788			U51903	CCDS34188.1, CCDS68897.1, CCDS68898.1, CCDS75262.1	5q	2008-07-18			ENSG00000145703	ENSG00000145703			6111	protein-coding gene	gene with protein product		605401				8756646	Standard	XM_005248409		Approved		uc003kek.3	Q13576	OTTHUMG00000162432	ENST00000274364.6:c.859G>A	5.37:g.75888702G>A	ENSP00000274364:p.Glu287Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4V1|B7Z8A4|J3KR91	Missense_Mutation	SNP	ENST00000274364.6	37	CCDS34188.1	.	.	.	.	.	.	.	.	.	.	G	32	5.141279	0.94560	.	.	ENSG00000145703	ENST00000274364;ENST00000514350;ENST00000505766	T;T;T	0.39787	4.12;1.06;4.13	5.83	5.83	0.93111	.	0.100666	0.64402	D	0.000002	T	0.54287	0.1849	M	0.80616	2.505	0.80722	D	1	P	0.42483	0.781	P	0.44732	0.459	T	0.50988	-0.8762	10	0.21540	T	0.41	-17.3562	20.1863	0.98216	0.0:0.0:1.0:0.0	.	287	Q13576	IQGA2_HUMAN	K	287;260;237	ENSP00000274364:E287K;ENSP00000423672:E260K;ENSP00000421097:E237K	ENSP00000274364:E287K	E	+	1	0	IQGAP2	75924458	1.000000	0.71417	0.998000	0.56505	0.979000	0.70002	9.798000	0.99111	2.781000	0.95711	0.650000	0.86243	GAA		0.323	IQGAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368877.1	NM_006633		A	75888702	G	A	75888702	3	1	699	1	0	0	0	0	1	0	0	0	7822	943	33	2	893	2	IQGAP2	5	75888702	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10		75888702	105026558	59	45825	502	2								
IQGAP2	10788	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	75888710	75888710	+	Silent	SNP	G	G	A													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gatgcttatgaagaactgctGacacaagcagaaatccaagg							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr5:75888710G>A	ENST00000274364.6	+	9	1164	c.867G>A	c.(865-867)ctG>ctA	p.L289L	IQGAP2_ENST00000379730.3_5'UTR	NM_006633.2	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	289					negative regulation of catalytic activity (GO:0043086)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	actin cytoskeleton (GO:0015629)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|microvillus (GO:0005902)	actin binding (GO:0003779)|GTPase inhibitor activity (GO:0005095)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|Ras GTPase activator activity (GO:0005099)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(15)|lung(23)|ovary(6)|prostate(1)|skin(3)|stomach(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	68		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		AAGAACTGCTGACACAAGCAG	0.333																																																0													145	152	149					5																	75888710		2203	4300	6503	SO:0001819	synonymous_variant	10788			U51903	CCDS34188.1, CCDS68897.1, CCDS68898.1, CCDS75262.1	5q	2008-07-18			ENSG00000145703	ENSG00000145703			6111	protein-coding gene	gene with protein product		605401				8756646	Standard	XM_005248409		Approved		uc003kek.3	Q13576	OTTHUMG00000162432	ENST00000274364.6:c.867G>A	5.37:g.75888710G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K4V1|B7Z8A4|J3KR91	Silent	SNP	ENST00000274364.6	37	CCDS34188.1																																																																																				0.333	IQGAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368877.1	NM_006633		A	75888710	G	A	75888710	2	1	699	1	0	0	0	0	0	0	0	1	7822	1277	45	2		2	IQGAP2	5	75888710	Silent	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	8	75888710	105026550	60	45826	502	2								
IQGAP2	10788	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	75973147	75973147	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	caaaccagtcatttatatttCaattgaagaaatcatcagca	4	8	4	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr5:75973147C>T	ENST00000274364.6	+	28	3929	c.3632C>T	c.(3631-3633)tCa>tTa	p.S1211L	IQGAP2_ENST00000502745.1_Missense_Mutation_p.S707L|IQGAP2_ENST00000379730.3_Missense_Mutation_p.S713L|IQGAP2_ENST00000396234.3_Missense_Mutation_p.S707L	NM_006633.2	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	1211					negative regulation of catalytic activity (GO:0043086)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	actin cytoskeleton (GO:0015629)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|microvillus (GO:0005902)	actin binding (GO:0003779)|GTPase inhibitor activity (GO:0005095)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|Ras GTPase activator activity (GO:0005099)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(15)|lung(23)|ovary(6)|prostate(1)|skin(3)|stomach(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	68		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		ATTTATATTTCAATTGAAGAA	0.393																																																0													65	66	65					5																	75973147		2203	4300	6503	SO:0001583	missense	10788			U51903	CCDS34188.1, CCDS68897.1, CCDS68898.1, CCDS75262.1	5q	2008-07-18			ENSG00000145703	ENSG00000145703			6111	protein-coding gene	gene with protein product		605401				8756646	Standard	XM_005248409		Approved		uc003kek.3	Q13576	OTTHUMG00000162432	ENST00000274364.6:c.3632C>T	5.37:g.75973147C>T	ENSP00000274364:p.Ser1211Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4V1|B7Z8A4|J3KR91	Missense_Mutation	SNP	ENST00000274364.6	37	CCDS34188.1	.	.	.	.	.	.	.	.	.	.	C	32	5.108409	0.94292	.	.	ENSG00000145703	ENST00000274364;ENST00000379730;ENST00000505766;ENST00000396234;ENST00000502745	T;T;T;T;T	0.54071	0.59;0.59;0.59;0.59;0.59	4.98	4.98	0.66077	Rho GTPase activation protein (1);Ras GTPase-activating protein (1);	0.329934	0.33144	N	0.005221	T	0.73094	0.3543	M	0.84326	2.69	0.80722	D	1	D;D;P	0.65815	0.995;0.995;0.792	P;P;B	0.60609	0.877;0.877;0.322	T	0.77910	-0.2411	10	0.72032	D	0.01	-12.9253	18.4229	0.90597	0.0:1.0:0.0:0.0	.	713;707;1211	F5H7S7;Q13576-2;Q13576	.;.;IQGA2_HUMAN	L	1211;713;1161;707;707	ENSP00000274364:S1211L;ENSP00000442313:S713L;ENSP00000421097:S1161L;ENSP00000379535:S707L;ENSP00000426027:S707L	ENSP00000274364:S1211L	S	+	2	0	IQGAP2	76008903	1.000000	0.71417	0.991000	0.47740	0.986000	0.74619	7.557000	0.82243	2.597000	0.87782	0.591000	0.81541	TCA		0.393	IQGAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368877.1	NM_006633		T	75973147	C	T	75973147	3	4	699	1	0	0	0	0	1	0	0	0	7822	838	29	2	3742	2	IQGAP2	5	75973147	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	84437	75973147	104942113	61	45827										
REEP5	7905	broad.mit.edu;bcgsc.ca	37	chr5	112257770	112257770	+	Splice_Site	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ggcgacccccggccacccacCaagagcgatgaagctcctgt	11	17	0	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr5:112257770C>A	ENST00000379638.4	-	1	466	c.118G>T	c.(118-120)Ggt>Tgt	p.G40C	REEP5_ENST00000545426.1_Splice_Site_p.G40C|REEP5_ENST00000513339.1_Splice_Site_p.G40C|REEP5_ENST00000474542.2_5'Flank|REEP5_ENST00000504247.1_Splice_Site_p.G40C	NM_005669.4	NP_005660.4	Q00765	REEP5_HUMAN	receptor accessory protein 5	40						extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)				endometrium(1)|large_intestine(2)|lung(1)|ovary(1)	5		all_cancers(142;4.41e-05)|all_epithelial(76;3.65e-07)|Colorectal(10;0.00115)|Prostate(80;0.00133)|Ovarian(225;0.0443)		Epithelial(69;1.3e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.26e-08)|all cancers(49;3.56e-07)|Colorectal(14;0.00778)|COAD - Colon adenocarcinoma(37;0.013)		GGCCACCCACCAAGAGCGATG	0.657																																																0													49	52	51					5																	112257770		2202	4300	6502	SO:0001630	splice_region_variant	7905			BC000232	CCDS4109.2	5q22-q23	2008-02-05	2006-02-07	2006-02-07	ENSG00000129625	ENSG00000129625		"Receptor accessory proteins"	30077	protein-coding gene	gene with protein product	"deleted in polyposis 1", "polyposis locus protein 1", "polyposis coli region hypothetical protein DP1"	125265	"chromosome 5 open reading frame 18"	C5orf18		16271481, 15550249	Standard	NM_005669		Approved	DP1, TB2, D5S346	uc003kqe.1	Q00765	OTTHUMG00000128807	ENST00000379638.4:c.118+1G>T	5.37:g.112257770C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z681|D3DT04|Q04198|Q5QGT0|Q9BWH9	Missense_Mutation	SNP	ENST00000379638.4	37	CCDS4109.2	.	.	.	.	.	.	.	.	.	.	C	17.63	3.436733	0.62955	.	.	ENSG00000129625	ENST00000379638;ENST00000513339;ENST00000545426;ENST00000504247	T;T;T;T	0.53423	0.62;0.62;0.62;0.62	4.17	4.17	0.49024	.	0.119316	0.53938	D	0.000045	T	0.73682	0.3618	M	0.89715	3.055	0.80722	D	1	D;D	0.89917	1.0;0.988	D;P	0.76575	0.988;0.843	T	0.80812	-0.1215	9	.	.	.	-39.0882	16.0678	0.80897	0.0:1.0:0.0:0.0	.	40;40	B7Z510;Q00765	.;REEP5_HUMAN	C	40	ENSP00000368959:G40C;ENSP00000425901:G40C;ENSP00000442940:G40C;ENSP00000421881:G40C	.	G	-	1	0	REEP5	112285669	1.000000	0.71417	0.997000	0.53966	0.043000	0.13939	6.323000	0.72891	1.861000	0.53984	0.563000	0.77884	GGT		0.657	REEP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250739.2	NM_005669	Missense_Mutation	A	112257770	C	A	112257770	5	1	699	1	0	0	0	0	0	0	1	0	13221	608	21	4	471	4	REEP5	5	112257770	Splice_Site	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	36284623	112257770	68657490	62	45828										
FNIP1	96459	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	131007961	131007961	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ttttttttccacaaccattcCtgtggatctcattgctttgc	5	11	1	0	rs367969091		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr5:131007961C>T	ENST00000510461.1	-	14	2271	c.2176G>A	c.(2176-2178)Gga>Aga	p.G726R	CTC-432M15.3_ENST00000514667.1_Intron|FNIP1_ENST00000307954.8_Missense_Mutation_p.G681R|FNIP1_ENST00000307968.7_Missense_Mutation_p.G698R	NM_133372.2	NP_588613	Q8TF40	FNIP1_HUMAN	folliculin interacting protein 1	726					cellular response to starvation (GO:0009267)|immature B cell differentiation (GO:0002327)|negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043154)|negative regulation of TOR signaling (GO:0032007)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of B cell apoptotic process (GO:0002904)|positive regulation of GTPase activity (GO:0043547)|positive regulation of peptidyl-serine phosphorylation (GO:0033138)|positive regulation of protein phosphorylation (GO:0001934)|regulation of pro-B cell differentiation (GO:2000973)|regulation of protein phosphorylation (GO:0001932)|TOR signaling (GO:0031929)	cytoplasm (GO:0005737)	guanyl-nucleotide exchange factor activity (GO:0005085)			NS(1)|breast(1)|endometrium(5)|kidney(3)|large_intestine(4)|lung(11)|ovary(2)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	34		all_cancers(142;0.00347)|Lung NSC(810;0.106)|all_lung(232;0.123)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0665)		ACAACCATTCCTGTGGATCTC	0.448																																																0								C	ARG/GLY,ARG/GLY	1,4405	2.1+/-5.4	0,1,2202	218	207	211		2092,2176	4.9	1	5		211	0,8600		0,0,4300	no	missense,missense	FNIP1	NM_001008738.2,NM_133372.2	125,125	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	,	698/1139,726/1167	131007961	1,13005	2203	4300	6503	SO:0001583	missense	96459			DQ145719	CCDS34226.1, CCDS34227.1	5q23.3	2014-01-28				ENSG00000217128			29418	protein-coding gene	gene with protein product		610594				11853319, 17028174	Standard	NM_001008738		Approved	KIAA1961		Q8TF40		ENST00000510461.1:c.2176G>A	5.37:g.131007961C>T	ENSP00000421985:p.Gly726Arg	Somatic		WXS	Illumina HiSeq	Phase_I	D6RJH5|Q86T47|Q9BUT0	Missense_Mutation	SNP	ENST00000510461.1	37	CCDS34227.1	.	.	.	.	.	.	.	.	.	.	C	16.76	3.212357	0.58452	2.27E-4	0.0	ENSG00000217128	ENST00000307968;ENST00000307954;ENST00000544351;ENST00000510461	T;T;T	0.42131	0.98;0.98;0.98	5.76	4.89	0.63831	.	.	.	.	.	T	0.45538	0.1347	L	0.43152	1.355	0.80722	D	1	P;P;P	0.46512	0.879;0.879;0.773	P;P;B	0.50708	0.648;0.494;0.414	T	0.31420	-0.9944	9	0.49607	T	0.09	-8.8964	12.306	0.54902	0.0:0.8667:0.0:0.1333	.	726;698;726	A8K8V8;Q8TF40-3;Q8TF40	.;.;FNIP1_HUMAN	R	698;681;478;726	ENSP00000309266:G698R;ENSP00000310453:G681R;ENSP00000421985:G726R	ENSP00000310453:G681R	G	-	1	0	FNIP1	131035860	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	4.191000	0.58372	2.726000	0.93360	0.655000	0.94253	GGA		0.448	FNIP1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000370077.1	NM_133372		T	131007961	C	T	131007961	3	4	699	1	0	0	0	0	1	0	0	0	5982	690	24	2	1344	2	FNIP1	5	131007961	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	18750191	131007961	49907299	63	45829										
NSD1	64324	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	176721020	176721020	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	aatcctctggaacctggggaGatccgtgagtatgtgcctcc	12	11	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr5:176721020G>T	ENST00000439151.2	+	23	6696	c.6651G>T	c.(6649-6651)gaG>gaT	p.E2217D	NSD1_ENST00000347982.4_Missense_Mutation_p.E1948D|NSD1_ENST00000354179.4_Missense_Mutation_p.E1948D|NSD1_ENST00000361032.4_Missense_Mutation_p.E2114D	NM_022455.4	NP_071900.2	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	2217	Pro-rich.				gastrulation with mouth forming second (GO:0001702)|histone H3-K36 methylation (GO:0010452)|histone H4-K20 methylation (GO:0034770)|histone methylation (GO:0016571)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of transcription, DNA-templated (GO:0045893)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|nucleus (GO:0005634)	androgen receptor binding (GO:0050681)|chromatin binding (GO:0003682)|estrogen receptor binding (GO:0030331)|histone methyltransferase activity (H3-K36 specific) (GO:0046975)|histone methyltransferase activity (H4-K20 specific) (GO:0042799)|retinoic acid receptor binding (GO:0042974)|retinoid X receptor binding (GO:0046965)|thyroid hormone receptor binding (GO:0046966)|transcription cofactor activity (GO:0003712)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(2)|kidney(13)|large_intestine(18)|lung(24)|ovary(2)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(7)|urinary_tract(3)	96	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)		AACCTGGGGAGATCCGTGAGT	0.562			T	NUP98	AML		Sotos Syndrome		Weaver syndrome;Sotos syndrome;Beckwith-Wiedemann syndrome	HNSCC(47;0.14)																													Dom	yes		5	5q35	64324	nuclear receptor binding SET domain protein 1	yes	L	0													81	80	81					5																	176721020		2203	4300	6503	SO:0001583	missense	64324	Familial Cancer Database	Weaver-Smith syndrome;Cerebral Gigantism;BWS, Exomphalos-Macroglossia-Gigantism (EMG) syndrome, Wiedemann-Beckwith syndrome, WBS	AK026066	CCDS4412.1, CCDS4413.1	5q35	2014-09-17	2003-03-12		ENSG00000165671	ENSG00000165671		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	14234	protein-coding gene	gene with protein product		606681	"Sotos syndrome"	STO		9628876, 11896389	Standard	NM_022455		Approved	ARA267, FLJ22263, KMT3B	uc003mfr.4	Q96L73	OTTHUMG00000130846	ENST00000439151.2:c.6651G>T	5.37:g.176721020G>T	ENSP00000395929:p.Glu2217Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q96PD8|Q96RN7	Missense_Mutation	SNP	ENST00000439151.2	37	CCDS4412.1	.	.	.	.	.	.	.	.	.	.	G	19.51	3.840800	0.71488	.	.	ENSG00000165671	ENST00000354179;ENST00000439151;ENST00000347982;ENST00000361032	D;D;D;D	0.81996	-1.56;-1.56;-1.56;-1.56	6.17	6.17	0.99709	.	0.000000	0.64402	D	0.000002	D	0.84419	0.5468	L	0.27053	0.805	0.53688	D	0.999975	D;D	0.76494	0.999;0.999	D;D	0.71870	0.975;0.933	D	0.84097	0.0393	10	0.51188	T	0.08	.	11.9775	0.53100	0.1325:0.0:0.8675:0.0	.	1948;2217	Q96L73-2;Q96L73	.;NSD1_HUMAN	D	1948;2217;1948;2114	ENSP00000346111:E1948D;ENSP00000395929:E2217D;ENSP00000343209:E1948D;ENSP00000354310:E2114D	ENSP00000343209:E1948D	E	+	3	2	NSD1	176653626	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	3.583000	0.53928	2.941000	0.99782	0.655000	0.94253	GAG		0.562	NSD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253412.2	NM_172349		T	176721020	G	T	176721020	3	4	699	1	0	0	0	0	1	0	0	0	10676	933	33	4	6737	4	NSD1	5	176721020	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	45713059	176721020	4194240	64	45830										
CLK4	57396	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	178050363	178050363	+	Nonsense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tccacgatagctttcatgtcCccagctttctctgctatccc	5	16	2	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr5:178050363C>A	ENST00000316308.4	-	2	223	c.55G>T	c.(55-57)Gga>Tga	p.G19*	CLK4_ENST00000520957.1_Nonsense_Mutation_p.G19*	NM_020666.2	NP_065717.1	Q9HAZ1	CLK4_HUMAN	CDC-like kinase 4	19					protein autophosphorylation (GO:0046777)|regulation of RNA splicing (GO:0043484)	nucleus (GO:0005634)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)|protein serine/threonine/tyrosine kinase activity (GO:0004712)|protein tyrosine kinase activity (GO:0004713)			breast(1)|endometrium(1)|kidney(2)|large_intestine(3)|lung(10)|ovary(1)|prostate(1)|skin(2)	21	all_cancers(89;0.000969)|Renal(175;0.000159)|all_epithelial(37;0.000451)|Lung NSC(126;0.00545)|all_lung(126;0.00918)	all_cancers(40;0.0272)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.235)		CTTTCATGTCCCCAGCTTTCT	0.438																																																0													207	181	190					5																	178050363		2203	4300	6503	SO:0001587	stop_gained	57396			AF294429	CCDS4437.1	5q35	2008-05-02			ENSG00000113240	ENSG00000113240		"CDC-like kinases"	13659	protein-coding gene	gene with protein product		607969				11170754	Standard	NM_020666		Approved		uc003mjf.1	Q9HAZ1	OTTHUMG00000130893	ENST00000316308.4:c.55G>T	5.37:g.178050363C>A	ENSP00000316948:p.Gly19*	Somatic		WXS	Illumina HiSeq	Phase_I		Nonsense_Mutation	SNP	ENST00000316308.4	37	CCDS4437.1	.	.	.	.	.	.	.	.	.	.	C	38	7.083910	0.98051	.	.	ENSG00000113240	ENST00000316308;ENST00000536763;ENST00000520957	.	.	.	5.83	4.97	0.65823	.	0.325167	0.32548	N	0.005960	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.23891	T	0.37	.	10.8916	0.46998	0.0:0.9136:0.0:0.0864	.	.	.	.	X	19	.	ENSP00000316948:G19X	G	-	1	0	CLK4	177982969	0.989000	0.36119	0.999000	0.59377	0.962000	0.63368	2.363000	0.44178	1.477000	0.48234	0.491000	0.48974	GGA		0.438	CLK4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253479.2			A	178050363	C	A	178050363	4	1	699	1	0	0	0	0	0	1	0	0	3541	632	22	4	1438	4	CLK4	5	178050363	Nonsense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	1329343	178050363	2864897	65	45831										
PRPF4B	8899	broad.mit.edu;bcgsc.ca	37	chr6	4060772	4060772	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ctaaaggacttgttggaccaGattctgatgttggacccagc	11	9	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr6:4060772G>T	ENST00000337659.6	+	15	3046	c.2946G>T	c.(2944-2946)caG>caT	p.Q982H	PRPF4B_ENST00000494674.1_3'UTR|PRPF4B_ENST00000538861.1_Missense_Mutation_p.Q968H	NM_003913.4	NP_003904.3	Q13523	PRP4B_HUMAN	pre-mRNA processing factor 4B	982	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				mRNA splicing, via spliceosome (GO:0000398)|protein phosphorylation (GO:0006468)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|chromosome (GO:0005694)|nucleus (GO:0005634)	ATP binding (GO:0005524)|poly(A) RNA binding (GO:0044822)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			breast(6)|endometrium(3)|large_intestine(5)|lung(4)|upper_aerodigestive_tract(3)|urinary_tract(1)	22	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				TGTTGGACCAGATTCTGATGT	0.448																																																0													74	65	68					6																	4060772		2203	4300	6503	SO:0001583	missense	8899			U48736	CCDS4488.1	6p24.2	2013-10-03	2013-10-03		ENSG00000112739	ENSG00000112739			17346	protein-coding gene	gene with protein product		602338	"PRP4 pre-mRNA processing factor 4 homolog B (yeast)"			9628581, 11418604	Standard	XR_241936		Approved	Prp4, PR4H, KIAA0536	uc003mvv.3	Q13523	OTTHUMG00000014157	ENST00000337659.6:c.2946G>T	6.37:g.4060772G>T	ENSP00000337194:p.Gln982His	Somatic		WXS	Illumina HiSeq	Phase_I	A8K5C9|Q5D0F6|Q5TAY8|Q8IVC3|Q8TDP2|Q96QT7|Q9UEE6	Missense_Mutation	SNP	ENST00000337659.6	37	CCDS4488.1	.	.	.	.	.	.	.	.	.	.	G	12.13	1.845731	0.32606	.	.	ENSG00000112739	ENST00000337659;ENST00000538861	T;T	0.66280	-0.2;-0.2	5.3	5.3	0.74995	Serine/threonine-protein kinase-like domain (1);Serine/threonine-protein kinase, catalytic  domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.64402	D	0.000008	T	0.59459	0.2195	L	0.35341	1.055	0.80722	D	1	D	0.61697	0.99	P	0.56343	0.796	T	0.61436	-0.7063	10	0.48119	T	0.1	.	18.9491	0.92635	0.0:0.0:1.0:0.0	.	982	Q13523	PRP4B_HUMAN	H	982;968	ENSP00000337194:Q982H;ENSP00000439331:Q968H	ENSP00000337194:Q982H	Q	+	3	2	PRPF4B	4005771	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	5.912000	0.69948	2.451000	0.82905	0.655000	0.94253	CAG		0.448	PRPF4B-011	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000314018.2			T	4060772	G	T	4060772	3	4	699	1	0	0	0	0	1	0	0	0	12583	933	33	4	3004	4	PRPF4B	6	4060772	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10		4060772	167054295	66	45832										
ZSCAN23	222696	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	28402345	28402345	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	attcataaggtctctctccaGtgtgaattctctgatgctta	7	9	4	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr6:28402345G>A	ENST00000289788.4	-	4	1212	c.1067C>T	c.(1066-1068)aCt>aTt	p.T356I	ZSCAN23_ENST00000486481.1_5'Flank	NM_001012455.1	NP_001012458.1	Q3MJ62	ZSC23_HUMAN	zinc finger and SCAN domain containing 23	356					transcription, DNA-templated (GO:0006351)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|prostate(1)|stomach(2)	4						TCTCTCTCCAGTGTGAATTCT	0.448																																																0													158	136	142					6																	28402345		692	1591	2283	SO:0001583	missense	222696			AK092117	CCDS47393.1	6p21.33	2013-01-08	2007-02-20	2007-02-20	ENSG00000187987	ENSG00000187987		"-", "Zinc fingers, C2H2-type"	21193	protein-coding gene	gene with protein product			"zinc finger protein 453", "zinc finger protein 390"	ZNF453, ZNF390			Standard	NM_001012455		Approved	dJ29K1.3.1	uc003nli.4	Q3MJ62	OTTHUMG00000016346	ENST00000289788.4:c.1067C>T	6.37:g.28402345G>A	ENSP00000289788:p.Thr356Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q96KV9	Missense_Mutation	SNP	ENST00000289788.4	37	CCDS47393.1	.	.	.	.	.	.	.	.	.	.	G	22.1	4.245900	0.80024	.	.	ENSG00000187987	ENST00000289788	T	0.25749	1.78	3.93	3.93	0.45458	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.39909	N	0.001229	T	0.36386	0.0965	M	0.80183	2.485	0.34741	D	0.730734	D	0.55385	0.971	P	0.56788	0.806	T	0.46541	-0.9184	10	0.87932	D	0	.	13.4765	0.61312	0.0:0.0:1.0:0.0	.	356	Q3MJ62	ZSC23_HUMAN	I	356	ENSP00000289788:T356I	ENSP00000289788:T356I	T	-	2	0	ZSCAN23	28510324	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	5.856000	0.69518	2.007000	0.58848	0.650000	0.86243	ACT		0.448	ZSCAN23-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043751.2	XM_167147		A	28402345	G	A	28402345	3	1	699	1	0	0	0	0	1	0	0	0	18247	1029	36	2	106	2	ZSCAN23	6	28402345	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	24341573	28402345	142712722	67	45833										
TNXB	7148	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	32016288	32016288	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	actgcctggggctgcccctgCgcgtccctgtactgtaccag	12	16	0	0	rs373655652		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr6:32016288C>T	ENST00000375244.3	-	29	10098	c.9897G>A	c.(9895-9897)gcG>gcA	p.A3299A	TNXB_ENST00000375247.2_Silent_p.A3297A|TNXB_ENST00000451343.1_5'Flank			P22105	TENX_HUMAN	tenascin XB	3344	Fibronectin type-III 24. {ECO:0000255|PROSITE-ProRule:PRU00316}.				actin cytoskeleton organization (GO:0030036)|cell adhesion (GO:0007155)|cell-matrix adhesion (GO:0007160)|collagen fibril organization (GO:0030199)|collagen metabolic process (GO:0032963)|elastic fiber assembly (GO:0048251)|extracellular fibril organization (GO:0043206)|fatty acid metabolic process (GO:0006631)|regulation of JUN kinase activity (GO:0043506)|single organismal cell-cell adhesion (GO:0016337)|triglyceride metabolic process (GO:0006641)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|proteinaceous extracellular matrix (GO:0005578)	heparin binding (GO:0008201)|integrin binding (GO:0005178)			endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|prostate(1)	8						GCTGCCCCTGCGCGTCCCTGT	0.687																																																0								C		0,3902		0,0,1951	17	21	19		9891	-7.3	0	6		19	3,8267		0,3,4132	no	coding-synonymous	TNXB	NM_019105.6		0,3,6083	TT,TC,CC		0.0363,0.0,0.0246		3297/4243	32016288	3,12169	1951	4135	6086	SO:0001819	synonymous_variant	7148			X71923	CCDS4736.1	6p21.3	2013-02-11			ENSG00000168477	ENSG00000168477		"Fibrinogen C domain containing", "Fibronectin type III domain containing"	11976	protein-coding gene	gene with protein product		600985		TNXB1, TNXB2		8530023	Standard	NM_019105		Approved	TNXBS, XBS, XB	uc021yvf.2	P22105	OTTHUMG00000031088	ENST00000375244.3:c.9897G>A	6.37:g.32016288C>T		Somatic		WXS	Illumina HiSeq	Phase_I	P78530|P78531|Q08424|Q08AM0|Q08AM1|Q59GU7|Q5SQD3|Q5ST74|Q7L8Q4|Q8N4R1|Q9NPK9|Q9UC10|Q9UC11|Q9UC12|Q9UC13|Q9UMG7	Silent	SNP	ENST00000375244.3	37																																																																																					0.687	TNXB-001	PUTATIVE	not_organism_supported|basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000268927.2	NM_019105		T	32016288	C	T	32016288	2	4	699	1	0	0	0	0	0	0	0	1	16358	755	27	1		1	TNXB	6	32016288	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	3613943	32016288	139098779	68	45834										
TNXB	7148	broad.mit.edu;bcgsc.ca	37	chr6	32063589	32063589	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ggcgctggctggaggctcttCctgcccgcagtcctcaccgc	13	17	2	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr6:32063589C>G	ENST00000479795.1	-	3	2181	c.2041G>C	c.(2041-2043)Gaa>Caa	p.E681Q	TNXB_ENST00000375247.2_Missense_Mutation_p.E681Q|TNXB_ENST00000375244.3_Missense_Mutation_p.E681Q			P22105	TENX_HUMAN	tenascin XB	681					actin cytoskeleton organization (GO:0030036)|cell adhesion (GO:0007155)|cell-matrix adhesion (GO:0007160)|collagen fibril organization (GO:0030199)|collagen metabolic process (GO:0032963)|elastic fiber assembly (GO:0048251)|extracellular fibril organization (GO:0043206)|fatty acid metabolic process (GO:0006631)|regulation of JUN kinase activity (GO:0043506)|single organismal cell-cell adhesion (GO:0016337)|triglyceride metabolic process (GO:0006641)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|proteinaceous extracellular matrix (GO:0005578)	heparin binding (GO:0008201)|integrin binding (GO:0005178)			endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|prostate(1)	8						GGAGGCTCTTCCTGCCCGCAG	0.701																																																0													16	20	18					6																	32063589		2114	4231	6345	SO:0001583	missense	7148			X71923	CCDS4736.1	6p21.3	2013-02-11			ENSG00000168477	ENSG00000168477		"Fibrinogen C domain containing", "Fibronectin type III domain containing"	11976	protein-coding gene	gene with protein product		600985		TNXB1, TNXB2		8530023	Standard	NM_019105		Approved	TNXBS, XBS, XB	uc021yvf.2	P22105	OTTHUMG00000031088	ENST00000479795.1:c.2041G>C	6.37:g.32063589C>G	ENSP00000418248:p.Glu681Gln	Somatic		WXS	Illumina HiSeq	Phase_I	P78530|P78531|Q08424|Q08AM0|Q08AM1|Q59GU7|Q5SQD3|Q5ST74|Q7L8Q4|Q8N4R1|Q9NPK9|Q9UC10|Q9UC11|Q9UC12|Q9UC13|Q9UMG7	Missense_Mutation	SNP	ENST00000479795.1	37		.	.	.	.	.	.	.	.	.	.	C	20.2	3.955354	0.73902	.	.	ENSG00000168477	ENST00000375244;ENST00000375247;ENST00000479795	T;T;T	0.08546	3.08;3.08;3.08	4.78	4.78	0.61160	.	0.000000	0.45126	D	0.000397	T	0.08088	0.0202	L	0.37750	1.13	0.26200	N	0.979459	D	0.65815	0.995	P	0.61477	0.889	T	0.19549	-1.0302	10	0.30078	T	0.28	.	13.3295	0.60479	0.0:1.0:0.0:0.0	.	681	P22105-3	.	Q	681	ENSP00000364393:E681Q;ENSP00000364396:E681Q;ENSP00000418248:E681Q	ENSP00000364393:E681Q	E	-	1	0	TNXB	32171567	0.970000	0.33590	0.850000	0.33497	0.919000	0.55068	0.746000	0.26275	2.198000	0.70561	0.563000	0.77884	GAA		0.701	TNXB-007	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000357059.1	NM_019105		G	32063589	C	G	32063589	3	3	699	1	0	0	0	0	1	0	0	0	16358	864	30	4	12840	4	TNXB	6	32063589	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	47301	32063589	139051478	69	45835										
DNAH8	1769	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	38818063	38818080	+	In_Frame_Del	DEL	ATAAAAATAATGCAGCGA	ATAAAAATAATGCAGCGA	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	agaatattgacaagtcttggAtaaaaataatgcagcgagct					rs200056261|rs201568629|rs547165959		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	ATAAAAATAATGCAGCGA	ATAAAAATAATGCAGCGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr6:38818063_38818080delATAAAAATAATGCAGCGA	ENST00000359357.3	+	36	4839_4856	c.4585_4602delATAAAAATAATGCAGCGA	c.(4585-4602)ataaaaataatgcagcgadel	p.IKIMQR1529del	DNAH8_ENST00000449981.2_In_Frame_Del_p.IKIMQR1746del|DNAH8_ENST00000441566.1_In_Frame_Del_p.IKIMQR1529del			Q96JB1	DYH8_HUMAN	dynein, axonemal, heavy chain 8	1529					cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)	p.I1529I(2)		NS(7)|breast(9)|central_nervous_system(4)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(3)|kidney(16)|large_intestine(44)|liver(4)|lung(101)|ovary(7)|pancreas(2)|prostate(8)|skin(28)|stomach(4)|upper_aerodigestive_tract(6)|urinary_tract(4)	260						CAAGTCTTGGATAAAAATAATGCAGCGAGCTCATGAGA	0.362																																																2	Substitution - coding silent(2)	lung(2)																																								SO:0001651	inframe_deletion	1769			Z83806	CCDS75447.1	6p21.2	2012-04-19	2006-09-04		ENSG00000124721	ENSG00000124721		"Axonemal dyneins"	2952	protein-coding gene	gene with protein product		603337	"dynein, axonemal, heavy polypeptide 8"			9373155	Standard	NM_001206927		Approved	hdhc9	uc021yzh.1	Q96JB1	OTTHUMG00000016253	ENST00000359357.3:c.4585_4602delATAAAAATAATGCAGCGA	6.37:g.38818063_38818080delATAAAAATAATGCAGCGA	ENSP00000352312:p.Ile1529_Arg1534del	Somatic		WXS	Illumina HiSeq	Phase_I	O00438|Q5JYI2|Q5T2M3|Q5T2M4|Q5TG00|Q9UEM4	In_Frame_Del	DEL	ENST00000359357.3	37																																																																																					0.362	DNAH8-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000043574.1	NM_001206927		-	38818080	ATAAAAATAATGCAGCGA	-	38818063	7	5	699	1	0	1	0	1	0	0	0	0	4609	333	12	0	4719	0	DNAH8	6	38818063	In_Frame_Del	DEL	ATAAAAATAATGCAGCGA	TCGA-P4-A5EB-01A-11D-A28G-10	6754474	38818063	132297004	70	45836										
CUL9	23113	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	43155541	43155541	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tcagtagtcgatttgagggcAgcactctcaatgacctgctc	10	11	2	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr6:43155541A>G	ENST00000252050.4	+	7	1756	c.1672A>G	c.(1672-1674)Agc>Ggc	p.S558G	CUL9_ENST00000354495.3_Missense_Mutation_p.S448G|CUL9_ENST00000372647.2_Missense_Mutation_p.S558G	NM_015089.2	NP_055904.1	Q8IWT3	CUL9_HUMAN	cullin 9	558					microtubule cytoskeleton organization (GO:0000226)|protein ubiquitination (GO:0016567)|regulation of mitosis (GO:0007088)|ubiquitin-dependent protein catabolic process (GO:0006511)	cullin-RING ubiquitin ligase complex (GO:0031461)|cytoplasm (GO:0005737)	ATP binding (GO:0005524)|zinc ion binding (GO:0008270)			breast(3)|central_nervous_system(1)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(18)|liver(1)|lung(30)|ovary(5)|prostate(3)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(4)	92						ATTTGAGGGCAGCACTCTCAA	0.517																																																0													122	121	121					6																	43155541		2203	4300	6503	SO:0001583	missense	23113			AB014608	CCDS4890.1	6p21.1	2011-05-24			ENSG00000112659	ENSG00000112659			15982	protein-coding gene	gene with protein product	"parkin-like cytoplasmic p53 binding protein", "p53-associated parkin-like cytoplasmic protein"	607489				17332328, 10521492, 12526791	Standard	NM_015089		Approved	H7AP1, KIAA0708, PARC	uc003ouk.3	Q8IWT3	OTTHUMG00000014723	ENST00000252050.4:c.1672A>G	6.37:g.43155541A>G	ENSP00000252050:p.Ser558Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O75188|Q5TCY3|Q68CP2|Q68D92|Q8N3W9|Q9BU56	Missense_Mutation	SNP	ENST00000252050.4	37	CCDS4890.1	.	.	.	.	.	.	.	.	.	.	A	13.47	2.245727	0.39697	.	.	ENSG00000112659	ENST00000252050;ENST00000354495;ENST00000372647	T;T;T	0.77489	-1.1;-0.91;-1.0	5.5	4.35	0.52113	.	0.665930	0.17251	N	0.181151	T	0.50343	0.1610	L	0.43152	1.355	0.27626	N	0.948198	B;B;B	0.16603	0.018;0.018;0.003	B;B;B	0.16722	0.016;0.016;0.002	T	0.40794	-0.9544	10	0.48119	T	0.1	-13.3974	4.4793	0.11759	0.702:0.0:0.1464:0.1516	.	558;558;558	E9PEZ1;Q8IWT3;Q05C85	.;CUL9_HUMAN;.	G	558;448;558	ENSP00000252050:S558G;ENSP00000346490:S448G;ENSP00000361730:S558G	ENSP00000252050:S558G	S	+	1	0	CUL9	43263519	0.994000	0.37717	1.000000	0.80357	0.943000	0.58893	1.801000	0.38843	2.090000	0.63153	0.383000	0.25322	AGC		0.517	CUL9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040582.2	NM_015089		G	43155541	A	G	43155541	3	3	699	1	0	0	0	0	1	0	0	0	4063	188	7	3	1694	3	CUL9	6	43155541	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	4337478	43155541	127959526	71	45837										
PKHD1	5314	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr6	51586795	51586795	+	Intron	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gctcctcctctattctgaaaTcttcaaagcctgctcagtgg	7	13	5	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr6:51586795T>G	ENST00000371117.3	-	60	10432				PKHD1_ENST00000340994.4_Missense_Mutation_p.I3394L	NM_138694.3	NP_619639.3	P08F94	PKHD1_HUMAN	polycystic kidney and hepatic disease 1 (autosomal recessive)						cellular calcium ion homeostasis (GO:0006874)|cilium assembly (GO:0042384)|homeostatic process (GO:0042592)|kidney development (GO:0001822)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cellular component movement (GO:0051271)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of protein kinase B signaling (GO:0051898)|positive regulation of cell proliferation (GO:0008284)|regulation of centrosome duplication (GO:0010824)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of TOR signaling (GO:0032006)|single organismal cell-cell adhesion (GO:0016337)	anchored component of external side of plasma membrane (GO:0031362)|apical plasma membrane (GO:0016324)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|mitotic spindle (GO:0072686)|perinuclear region of cytoplasm (GO:0048471)|primary cilium (GO:0072372)	receptor activity (GO:0004872)			NS(1)|autonomic_ganglia(1)|breast(8)|central_nervous_system(5)|cervix(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(59)|lung(139)|ovary(16)|prostate(8)|skin(20)|soft_tissue(1)|stomach(2)|upper_aerodigestive_tract(7)|urinary_tract(5)	304	Lung NSC(77;0.0605)					TATTCTGAAATCTTCAAAGCC	0.448																																																0													71	70	70					6																	51586795		2203	4300	6503	SO:0001627	intron_variant	5314			AF480064	CCDS4935.1, CCDS4936.1	6p21.2-p12	2012-11-26	2003-04-16		ENSG00000170927	ENSG00000170927			9016	protein-coding gene	gene with protein product	"tigmin", "polyductin", "fibrocystin"	606702	"TIG multiple domains 1"	TIGM1		9503014	Standard	NM_138694		Approved	ARPKD, FCYT	uc003pah.1	P08F94	OTTHUMG00000014841	ENST00000371117.3:c.10156+22387A>C	6.37:g.51586795T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUA2|Q5VUA3|Q5VWV1|Q86Z26|Q8TCZ9	Missense_Mutation	SNP	ENST00000371117.3	37	CCDS4935.1	.	.	.	.	.	.	.	.	.	.	T	11.62	1.692382	0.30052	.	.	ENSG00000170927	ENST00000340994	D	0.86627	-2.15	3.72	-0.352	0.12598	.	.	.	.	.	T	0.61949	0.2388	.	.	.	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.54275	-0.8318	8	0.54805	T	0.06	.	4.5853	0.12279	0.0:0.1103:0.3908:0.4988	.	3394	P08F94-2	.	L	3394	ENSP00000341097:I3394L	ENSP00000341097:I3394L	I	-	1	0	PKHD1	51694754	0.000000	0.05858	0.000000	0.03702	0.220000	0.24768	0.004000	0.13106	-0.046000	0.13446	0.379000	0.24179	ATT		0.448	PKHD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040893.1	NM_138694		G	51586795	T	G	51586795	1	3	699	0	1	0	0	0	0	0	0	0	11978	1435	50	5		5	PKHD1	6	51586795	Intron	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	8431254	51586795	119528272	72	45838										
COL21A1	81578	hgsc.bcm.edu;bcgsc.ca	37	chr6	55933890	55933890	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ccatgtatcctggttctcctGgggaacccgttgctcctggt	11	13	1	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr6:55933890G>T	ENST00000244728.5	-	22	2442	c.2045C>A	c.(2044-2046)cCa>cAa	p.P682Q	COL21A1_ENST00000370808.2_Missense_Mutation_p.P82Q|COL21A1_ENST00000370819.1_Missense_Mutation_p.P679Q|COL21A1_ENST00000467045.1_5'UTR|COL21A1_ENST00000535941.1_Missense_Mutation_p.P682Q	NM_030820.3	NP_110447.2	Q96P44	COLA1_HUMAN	collagen, type XXI, alpha 1	682	Collagen-like 4.				extracellular matrix organization (GO:0030198)	collagen trimer (GO:0005581)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)				breast(1)|endometrium(1)|kidney(3)|large_intestine(11)|lung(21)|ovary(2)|prostate(2)	41	Lung NSC(77;0.0483)		LUSC - Lung squamous cell carcinoma(124;0.181)			TGGTTCTCCTGGGGAACCCGT	0.423																																																0													62	62	62					6																	55933890		1831	4076	5907	SO:0001583	missense	81578			AF330693	CCDS55025.1	6p12.3-p11.2	2013-01-16			ENSG00000124749	ENSG00000124749		"Collagens"	17025	protein-coding gene	gene with protein product		610002				11566190	Standard	XR_241922		Approved		uc003pcs.3	Q96P44	OTTHUMG00000014907	ENST00000244728.5:c.2045C>A	6.37:g.55933890G>T	ENSP00000244728:p.Pro682Gln	Somatic		WXS	Illumina HiSeq	Phase_I	A6NIX5|B2R8J9|Q49A51|Q71RF4|Q8WXV8|Q9H0V3	Missense_Mutation	SNP	ENST00000244728.5	37	CCDS55025.1	.	.	.	.	.	.	.	.	.	.	G	13.12	2.143568	0.37825	.	.	ENSG00000124749	ENST00000244728;ENST00000370819;ENST00000535941;ENST00000370811;ENST00000370808	D;D;D;D	0.97752	-4.52;-4.52;-4.52;-4.52	4.38	3.48	0.39840	.	0.000000	0.49305	U	0.000144	D	0.95968	0.8687	L	0.28192	0.835	0.47407	D	0.999413	P;P;D	0.89917	0.886;0.77;1.0	B;P;D	0.97110	0.381;0.515;1.0	D	0.94500	0.7709	10	0.27785	T	0.31	.	12.3453	0.55118	0.0:0.0:0.8294:0.1705	.	82;682;682	Q96P44-2;B7ZLK3;Q96P44	.;.;COLA1_HUMAN	Q	682;679;682;679;82	ENSP00000244728:P682Q;ENSP00000359855:P679Q;ENSP00000444384:P682Q;ENSP00000359844:P82Q	ENSP00000244728:P682Q	P	-	2	0	COL21A1	56041849	1.000000	0.71417	0.163000	0.22734	0.829000	0.46940	4.396000	0.59684	0.905000	0.36596	0.557000	0.71058	CCA		0.423	COL21A1-001	KNOWN	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000041004.2			T	55933890	G	T	55933890	3	4	699	1	0	0	0	0	1	0	0	0	3682	1348	47	4	864	4	COL21A1	6	55933890	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	4347095	55933890	115181177	73	45839										
UBE2CBP	90025	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	83767555	83767555	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tattactcacttgtgcctaaTtttgcttgcgtctgcagtcg	8	10	2	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr6:83767555T>G	ENST00000369747.3	-	2	386	c.264A>C	c.(262-264)aaA>aaC	p.K88N		NM_198920.1	NP_944602.1	Q7Z6J8	UBE3D_HUMAN	ubiquitin protein ligase E3D	88					protein ubiquitination (GO:0016567)	cytoplasm (GO:0005737)	ligase activity (GO:0016874)										TTGTGCCTAATTTTGCTTGCG	0.443											OREG0017549	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													67	68	68					6																	83767555		2203	4300	6503	SO:0001583	missense	90025			AL137544	CCDS34491.1	6q15	2012-02-24	2012-02-24	2012-02-24	ENSG00000118420	ENSG00000118420			21381	protein-coding gene	gene with protein product	"UBCH10 binding protein with a hect-like domain"	612495	"chromosome 6 open reading frame 157", "ubiquitin-conjugating enzyme E2C binding protein"	C6orf157, UBE2CBP		15749827	Standard	NM_198920		Approved	DKFZp434A1520, H10BH, YJR141W	uc003pjp.2	Q7Z6J8	OTTHUMG00000015108	ENST00000369747.3:c.264A>C	6.37:g.83767555T>G	ENSP00000358762:p.Lys88Asn	Somatic	1224	WXS	Illumina HiSeq	Phase_I	B4DP63|Q5T4W2|Q6IPR4|Q75UG0|Q9NT42	Missense_Mutation	SNP	ENST00000369747.3	37	CCDS34491.1	.	.	.	.	.	.	.	.	.	.	T	10.93	1.490288	0.26686	.	.	ENSG00000118420	ENST00000369747	T	0.30714	1.52	5.27	-10.5	0.00291	.	0.631105	0.16070	N	0.231043	T	0.02767	0.0083	N	0.08118	0	0.09310	N	0.999998	B;B	0.20164	0.042;0.002	B;B	0.18871	0.023;0.002	T	0.20009	-1.0288	10	0.33141	T	0.24	-18.3097	5.2116	0.15320	0.1807:0.4793:0.1961:0.1438	.	88;88	D6RD24;Q7Z6J8	.;UB2CB_HUMAN	N	88	ENSP00000358762:K88N	ENSP00000358762:K88N	K	-	3	2	UBE2CBP	83824274	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	-1.412000	0.02476	-2.085000	0.00864	-0.911000	0.02809	AAA		0.443	UBE3D-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041347.7	NM_198920		G	83767555	T	G	83767555	3	3	699	1	0	0	0	0	1	0	0	0	16859	1490	52	5	941	5	UBE2CBP	6	83767555	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	27833665	83767555	87347512	74	45840										
COQ3	51805	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	99823846	99823846	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tgacagcagcactgtaaaaaTgtttctagatcaatcacatg	7	8	3	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr6:99823846T>A	ENST00000254759.3	-	5	723	c.699A>T	c.(697-699)acA>acT	p.T233T	COQ3_ENST00000369240.1_Intron|COQ3_ENST00000369242.1_Intron|COQ3_ENST00000479163.1_5'Flank	NM_017421.3	NP_059117.3	Q9NZJ6	COQ3_HUMAN	coenzyme Q3 methyltransferase	233					glycerol metabolic process (GO:0006071)|small molecule metabolic process (GO:0044281)|ubiquinone biosynthetic process (GO:0006744)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	2-polyprenyl-6-methoxy-1,4-benzoquinone methyltransferase activity (GO:0008425)|3-demethylubiquinone-9 3-O-methyltransferase activity (GO:0008689)|hexaprenyldihydroxybenzoate methyltransferase activity (GO:0004395)|O-methyltransferase activity (GO:0008171)			cervix(1)|lung(5)|upper_aerodigestive_tract(2)	8		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0625)		ACTGTAAAAATGTTTCTAGAT	0.368																																																0													154	149	151					6																	99823846		2203	4300	6503	SO:0001819	synonymous_variant	51805			AF193016	CCDS5042.1	6q21	2013-05-01	2013-05-01		ENSG00000132423	ENSG00000132423	2.1.1.114		18175	protein-coding gene	gene with protein product	"polyprenyldihydroxybenzoate methyltransferase"	605196	"coenzyme Q3 homolog, methyltransferase (yeast)", "coenzyme Q3 homolog, methyltransferase (S. cerevisiae)"			10777520	Standard	NM_017421		Approved	bA9819.1	uc003ppk.3	Q9NZJ6	OTTHUMG00000015264	ENST00000254759.3:c.699A>T	6.37:g.99823846T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B3KPX0|Q5T061|Q6P4F0|Q8IXG6|Q96BG1|Q9H0N1	Silent	SNP	ENST00000254759.3	37	CCDS5042.1																																																																																				0.368	COQ3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041602.1	NM_017421		A	99823846	T	A	99823846	2	1	699	1	0	0	0	0	0	0	0	1	3748	1451	51	5		5	COQ3	6	99823846	Silent	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	16056291	99823846	71291221	75	45841										
HECA	51696	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	139487930	139487930	+	Frame_Shift_Del	DEL	G	G	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cagtgggtgccgcagcctacGgtgcccgttcccccggtggc							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr6:139487930delG	ENST00000367658.2	+	2	1066	c.781delG	c.(781-783)ggtfs	p.G261fs	RP1-225E12.2_ENST00000589192.1_RNA|RP1-225E12.2_ENST00000587577.1_RNA|RP1-225E12.2_ENST00000590679.1_RNA|RP1-225E12.2_ENST00000588529.1_RNA|RP1-225E12.2_ENST00000588638.1_RNA|RP1-225E12.2_ENST00000586229.1_RNA|RP1-225E12.2_ENST00000591102.1_RNA|RP1-225E12.2_ENST00000415194.2_RNA|RP1-225E12.2_ENST00000586266.1_RNA|RP1-225E12.3_ENST00000585874.1_RNA	NM_016217.2	NP_057301.1	Q9UBI9	HDC_HUMAN	headcase homolog (Drosophila)	261					respiratory tube development (GO:0030323)	membrane (GO:0016020)				endometrium(4)|kidney(1)|large_intestine(3)|lung(4)|ovary(1)|prostate(1)|skin(1)	15				GBM - Glioblastoma multiforme(68;0.000252)|OV - Ovarian serous cystadenocarcinoma(155;0.000387)		CGCAGCCTACGGTGCCCGTTC	0.682																																																0													15	18	17					6																	139487930		2203	4297	6500	SO:0001589	frameshift_variant	51696			AB033492	CCDS5194.1	6q23-q24	2010-11-25			ENSG00000112406	ENSG00000112406			21041	protein-coding gene	gene with protein product		607977				11696983, 19643820	Standard	NM_016217		Approved	HDCL, hHDC, HDC, dJ225E12.1	uc003qin.3	Q9UBI9	OTTHUMG00000015686	ENST00000367658.2:c.781delG	6.37:g.139487930delG	ENSP00000356630:p.Gly261fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000367658.2	37	CCDS5194.1																																																																																				0.682	HECA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042456.1	NM_016217		-	139487930	G	-	139487930	7	5	699	1	0	1	0	1	0	0	0	0	7045	1116	39	0	787	0	HECA	6	139487930	Frame_Shift_Del	DEL	G	TCGA-P4-A5EB-01A-11D-A28G-10	39664084	139487930	31627137	76	45842										
LATS1	9113	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	149997827	149997827	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	catcgacagcttgagggatcCccccattcattactgaaatc	7	13	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr6:149997827C>G	ENST00000543571.1	-	6	3187	c.2640G>C	c.(2638-2640)ggG>ggC	p.G880G	LATS1_ENST00000542747.1_5'UTR|LATS1_ENST00000253339.5_Silent_p.G880G	NM_004690.3	NP_004681.1			large tumor suppressor kinase 1											central_nervous_system(1)|lung(5)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		TTGAGGGATCCCCCCATTCAT	0.473																																																0													73	63	66					6																	149997827		2203	4300	6503	SO:0001819	synonymous_variant	9113			AF104413	CCDS34551.1, CCDS59040.1	6q25.1	2013-04-25	2013-04-25		ENSG00000131023	ENSG00000131023			6514	protein-coding gene	gene with protein product		603473	"LATS (large tumor suppressor, Drosophila) homolog 1", "LATS, large tumor suppressor, homolog 1 (Drosophila)"			9988268, 15122335	Standard	NM_004690		Approved	WARTS	uc003qmu.2	O95835	OTTHUMG00000016437	ENST00000543571.1:c.2640G>C	6.37:g.149997827C>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000543571.1	37	CCDS34551.1																																																																																				0.473	LATS1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043923.4	NM_004690		G	149997827	C	G	149997827	2	3	699	1	0	0	0	0	0	0	0	1	8653	610	22	4		4	LATS1	6	149997827	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	10509897	149997827	21117240	77	45843										
RBAK	57786	hgsc.bcm.edu;bcgsc.ca	37	chr7	5104550	5104550	+	Frame_Shift_Del	DEL	G	G	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	agagaaatcccatgaatgtaGtgaatgtggaaagttctctc							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr7:5104550delG	ENST00000353796.3	+	6	1787	c.1463delG	c.(1462-1464)agtfs	p.S488fs	RBAK_ENST00000396912.1_Frame_Shift_Del_p.S488fs|RBAK-RBAKDN_ENST00000396904.2_Intron|RBAK-RBAKDN_ENST00000407184.1_Intron	NM_001204456.1	NP_001191385.1	Q9NYW8	RBAK_HUMAN	RB-associated KRAB zinc finger	488	Interaction with AR.				negative regulation of transcription, DNA-templated (GO:0045892)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)			NS(1)|kidney(1)|large_intestine(2)|ovary(4)|skin(1)|upper_aerodigestive_tract(1)	10		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)		CATGAATGTAGTGAATGTGGA	0.373																																																0													64	64	64					7																	5104550		2203	4299	6502	SO:0001589	frameshift_variant	57786			AF226869	CCDS5337.1	7p22.1	2013-01-08			ENSG00000146587	ENSG00000146587		"Zinc fingers, C2H2-type", "-"	17680	protein-coding gene	gene with protein product		608191					Standard	NM_021163		Approved	ZNF769	uc003sns.1	Q9NYW8	OTTHUMG00000121155	ENST00000353796.3:c.1463delG	7.37:g.5104550delG	ENSP00000275423:p.Ser488fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NDF2|A8KAK4|B2RN44|B9EGS1|F8W6M7	Frame_Shift_Del	DEL	ENST00000353796.3	37	CCDS5337.1																																																																																				0.373	RBAK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000241640.2	NM_021163		-	5104550	G	-	5104550	7	5	699	1	0	1	0	1	0	0	0	0	13113	1029	36	0	1477	0	RBAK	7	5104550	Frame_Shift_Del	DEL	G	TCGA-P4-A5EB-01A-11D-A28G-10		5104550	154034113	78	45844										
RNF216	54476	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	5781127	5781127	+	Nonsense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	agatgatgactttctgctctGatctggggttgacaatgtca	11	7	4	5			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr7:5781127G>C	ENST00000425013.2	-	4	574	c.350C>G	c.(349-351)tCa>tGa	p.S117*	RNF216_ENST00000389902.3_Nonsense_Mutation_p.S174*	NM_207111.3|NM_207116.2	NP_996994.1|NP_996999.1	Q9NWF9	RN216_HUMAN	ring finger protein 216	117					apoptotic process (GO:0006915)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein K48-linked ubiquitination (GO:0070936)|regulation of defense response to virus by host (GO:0050691)|regulation of interferon-beta production (GO:0032648)|viral process (GO:0016032)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	ligase activity (GO:0016874)|zinc ion binding (GO:0008270)		FBXL18/RNF216(2)	breast(3)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(11)|ovary(3)|prostate(1)|skin(1)|urinary_tract(4)	33		Ovarian(82;0.07)		UCEC - Uterine corpus endometrioid carcinoma (126;0.135)|OV - Ovarian serous cystadenocarcinoma(56;2.69e-13)		TTTCTGCTCTGATCTGGGGTT	0.463																																																0													267	250	256					7																	5781127		2203	4300	6503	SO:0001587	stop_gained	54476			AY062174	CCDS34594.1, CCDS34595.1	7p22.1	2014-02-12	2007-08-20		ENSG00000011275	ENSG00000011275		"RING-type (C3HC4) zinc fingers"	21698	protein-coding gene	gene with protein product		609948					Standard	NM_207111		Approved	TRIAD3, UBCE7IP1, ZIN	uc003sox.2	Q9NWF9	OTTHUMG00000155500	ENST00000425013.2:c.350C>G	7.37:g.5781127G>C	ENSP00000404602:p.Ser117*	Somatic		WXS	Illumina HiSeq	Phase_I	Q6Y691|Q75ML7|Q7Z2H7|Q7Z7C1|Q8NHW7|Q9NYT1	Nonsense_Mutation	SNP	ENST00000425013.2	37	CCDS34595.1	.	.	.	.	.	.	.	.	.	.	G	18.19	3.567910	0.65651	.	.	ENSG00000011275	ENST00000425013;ENST00000389902	.	.	.	5.97	3.93	0.45458	.	0.519284	0.17997	N	0.155007	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.19147	T	0.46	-4.5609	7.8068	0.29206	0.2458:0.0:0.7542:0.0	.	.	.	.	X	117;174	.	ENSP00000374550:S117X	S	-	2	0	RNF216	5747653	0.000000	0.05858	0.995000	0.50966	0.994000	0.84299	0.252000	0.18278	1.509000	0.48786	0.561000	0.74099	TCA		0.463	RNF216-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000340374.1	NM_207111		C	5781127	G	C	5781127	4	2	699	1	0	0	0	0	0	1	0	0	13493	1294	45	4	2306	4	RNF216	7	5781127	Nonsense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	676577	5781127	153357536	79	45845										
VSTM2A	222008	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	54612346	54612346	+	Frame_Shift_Del	DEL	G	G	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gagtttccgcggaacgtgacGgcgaccgaggggcagaatgt							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr7:54612346delG	ENST00000407838.3	+	2	517	c.111delG	c.(109-111)acgfs	p.T37fs	VSTM2A_ENST00000302287.3_Frame_Shift_Del_p.T37fs|VSTM2A_ENST00000402026.2_Frame_Shift_Del_p.T36fs|VSTM2A_ENST00000402613.3_Frame_Shift_Del_p.T37fs|VSTM2A_ENST00000404951.1_Frame_Shift_Del_p.T37fs	NM_182546.2	NP_872352.2	Q8TAG5	VTM2A_HUMAN	V-set and transmembrane domain containing 2A	37	Ig-like V-type.					extracellular region (GO:0005576)				endometrium(1)|large_intestine(2)|lung(12)|prostate(1)	16			STAD - Stomach adenocarcinoma(5;0.0525)			GGAACGTGACGGCGACCGAGG	0.577																																																0													61	60	60					7																	54612346		2203	4300	6503	SO:0001589	frameshift_variant	222008			BC028404	CCDS5512.2, CCDS75604.1	7p11.2	2013-01-11	2007-08-10	2007-08-10	ENSG00000170419	ENSG00000170419		"Immunoglobulin superfamily / V-set domain containing"	28499	protein-coding gene	gene with protein product			"V-set and transmembrane domain containing 2"	VSTM2		12477932	Standard	XM_006715663		Approved	MGC33530	uc010kzf.3	Q8TAG5	OTTHUMG00000129271	ENST00000407838.3:c.111delG	7.37:g.54612346delG	ENSP00000384967:p.Thr37fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2E9|B5MC94	Frame_Shift_Del	DEL	ENST00000407838.3	37	CCDS5512.2																																																																																				0.577	VSTM2A-003	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318694.1	NM_182546		-	54612346	G	-	54612346	7	5	699	1	0	1	0	1	0	0	0	0	17241	1103	39	0	117	0	VSTM2A	7	54612346	Frame_Shift_Del	DEL	G	TCGA-P4-A5EB-01A-11D-A28G-10	48831219	54612346	104526317	80	45846										
STAG3L4	64940	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	66774599	66774599	+	RNA	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	agttgccctccaactgagtcTgcacgaagatatcaatcagc	8	12	3	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr7:66774599T>G	ENST00000416602.2	+	0	616					NR_040586.1		Q8TBR4	ST3L4_HUMAN	stromal antigen 3-like 4 (pseudogene)											endometrium(2)|lung(5)	7		Lung NSC(55;0.0839)|all_lung(88;0.181)				CAACTGAGTCTGCACGAAGAT	0.483																																																0													131	138	136					7																	66774599		2203	4300	6503			64940					7q11.21	2013-06-26	2013-06-26		ENSG00000106610	ENSG00000106610			33887	pseudogene	pseudogene			"stromal antigen 3-like 4"				Standard	NR_040585		Approved	FLJ13195, STAG3L4P	uc010laj.3	Q8TBR4	OTTHUMG00000156920		7.37:g.66774599T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q9H8W0	RNA	SNP	ENST00000416602.2	37		.	.	.	.	.	.	.	.	.	.	t	7.912	0.736640	0.15574	.	.	ENSG00000106610	ENST00000416602;ENST00000437742	.	.	.	0.524	0.524	0.17066	STAG (1);	0.297117	0.24136	N	0.041215	T	0.45696	0.1355	.	.	.	.	.	.	P	0.47034	0.889	P	0.50270	0.636	T	0.53927	-0.8369	7	0.49607	T	0.09	.	5.3623	0.16095	0.0:2.0E-4:0.0:0.9998	.	114	Q8TBR4	STG34_HUMAN	R	114	.	ENSP00000408597:L114R	L	+	2	0	STAG3L4	66412034	0.998000	0.40836	0.719000	0.30619	0.035000	0.12851	5.174000	0.65015	0.472000	0.27344	0.113000	0.15668	CTG		0.483	STAG3L4-001	KNOWN	basic	processed_transcript	pseudogene	OTTHUMT00000346611.1	NM_022906		G	66774599	T	G	66774599	1	3	699	0	1	0	0	0	0	0	0	0	15259	1580	55	5		5	STAG3L4	7	66774599	RNA	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	12162253	66774599	92364064	81	45847										
SEMA3A	10371	broad.mit.edu	37	chr7	83739849	83739849	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	aaagcccccgttccacaggcGtacaagtgagtctgattata	9	11	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr7:83739849G>A	ENST00000265362.4	-	4	704	c.390C>T	c.(388-390)taC>taT	p.Y130Y	SEMA3A_ENST00000436949.1_Silent_p.Y130Y	NM_006080.2	NP_006071.1	Q14563	SEM3A_HUMAN	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3A	130	Sema. {ECO:0000255|PROSITE- ProRule:PRU00352}.				apoptotic process (GO:0006915)|axon extension involved in axon guidance (GO:0048846)|axon guidance (GO:0007411)|axonal fasciculation (GO:0007413)|axonogenesis involved in innervation (GO:0060385)|branchiomotor neuron axon guidance (GO:0021785)|dendrite morphogenesis (GO:0048813)|dichotomous subdivision of terminal units involved in salivary gland branching (GO:0060666)|facial nerve structural organization (GO:0021612)|gonadotrophin-releasing hormone neuronal migration to the hypothalamus (GO:0021828)|negative regulation of axon extension involved in axon guidance (GO:0048843)|negative regulation of epithelial cell migration (GO:0010633)|nerve development (GO:0021675)|neural crest cell migration involved in autonomic nervous system development (GO:1901166)|neural crest cell migration involved in sympathetic nervous system development (GO:1903045)|neuron migration (GO:0001764)|olfactory bulb development (GO:0021772)|positive regulation of male gonad development (GO:2000020)|positive regulation of neuron migration (GO:2001224)|regulation of axon extension involved in axon guidance (GO:0048841)|regulation of heart rate (GO:0002027)|semaphorin-plexin signaling pathway (GO:0071526)|semaphorin-plexin signaling pathway involved in axon guidance (GO:1902287)|semaphorin-plexin signaling pathway involved in neuron projection guidance (GO:1902285)|sensory system development (GO:0048880)|sympathetic ganglion development (GO:0061549)|sympathetic nervous system development (GO:0048485)|sympathetic neuron projection extension (GO:0097490)|sympathetic neuron projection guidance (GO:0097491)|trigeminal nerve structural organization (GO:0021637)	axon (GO:0030424)|dendrite (GO:0030425)|extracellular region (GO:0005576)|membrane (GO:0016020)	chemorepellent activity (GO:0045499)|neuropilin binding (GO:0038191)|receptor activity (GO:0004872)	p.Y130Y(1)		breast(3)|cervix(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(12)|liver(1)|lung(22)|ovary(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	53						TTCCACAGGCGTACAAGTGAG	0.383																																																1	Substitution - coding silent(1)	breast(1)											126	116	120					7																	83739849		2203	4300	6503	SO:0001819	synonymous_variant	10371			L26081	CCDS5599.1	7p12.1	2013-01-11			ENSG00000075213	ENSG00000075213		"Semaphorins", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	10723	protein-coding gene	gene with protein product	"sema III"	603961		SEMAD		8269517, 7748561	Standard	NM_006080		Approved	SEMA1, SemD, coll-1, Hsema-I	uc003uhz.3	Q14563	OTTHUMG00000023443	ENST00000265362.4:c.390C>T	7.37:g.83739849G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000265362.4	37	CCDS5599.1																																																																																				0.383	SEMA3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253355.2	NM_006080		A	83739849	G	A	83739849	2	1	699	1	0	0	0	0	0	0	0	1	14037	1140	40	1		1	SEMA3A	7	83739849	Silent	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	16965250	83739849	75398814	82	45848										
AKAP9	10142	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	91632281	91632281	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gtcatgtgatactcaagtaaGctctttattagatggagttg	10	5	3	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr7:91632281G>A	ENST00000359028.2	+	9	3311	c.3086G>A	c.(3085-3087)aGc>aAc	p.S1029N	AKAP9_ENST00000356239.3_Missense_Mutation_p.S1017N|AKAP9_ENST00000358100.2_Missense_Mutation_p.S1029N			Q99996	AKAP9_HUMAN	A kinase (PRKA) anchor protein 9	1029					G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|Sertoli cell development (GO:0060009)|signal transduction (GO:0007165)|spermatogenesis (GO:0007283)|synaptic transmission (GO:0007268)|transport (GO:0006810)	centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|pericentriolar material (GO:0000242)|voltage-gated potassium channel complex (GO:0008076)	ion channel binding (GO:0044325)|protein complex scaffold (GO:0032947)|receptor binding (GO:0005102)			NS(1)|autonomic_ganglia(2)|breast(14)|central_nervous_system(3)|cervix(1)|endometrium(13)|kidney(12)|large_intestine(35)|lung(49)|ovary(8)|prostate(6)|skin(8)|stomach(1)|urinary_tract(2)	155	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)			ACTCAAGTAAGCTCTTTATTA	0.358			T	BRAF	papillary thyroid																																		Dom	yes		7	7q21-q22	10142	A kinase (PRKA) anchor protein (yotiao) 9		E	0													86	86	86					7																	91632281		2202	4299	6501	SO:0001583	missense	10142			AF091711	CCDS5622.1	7q21-q22	2014-09-17	2013-09-25		ENSG00000127914	ENSG00000127914		"A-kinase anchor proteins", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	379	protein-coding gene	gene with protein product	"A-kinase anchoring protein 450", "AKAP9-BRAF fusion protein", "AKAP120-like protein", "centrosome- and golgi-localized protein kinase N-associated protein", "protein kinase A anchoring protein 9", "A-kinase anchor protein, 350kDa", "protein phosphatase 1, regulatory subunit 45", "yotiao"	604001				9482789, 10390370, 24475373	Standard	NM_147185		Approved	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11	uc003ulg.3	Q99996	OTTHUMG00000131127	ENST00000359028.2:c.3086G>A	7.37:g.91632281G>A	ENSP00000351922:p.Ser1029Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1F0|A4D1F2|A4D1F4|O14869|O43355|O94895|Q75N20|Q9UQH3|Q9UQQ4|Q9Y6B8|Q9Y6Y2	Missense_Mutation	SNP	ENST00000359028.2	37		.	.	.	.	.	.	.	.	.	.	G	8.175	0.792556	0.16258	.	.	ENSG00000127914	ENST00000356239;ENST00000359028;ENST00000358100;ENST00000413120;ENST00000394565	T;T;T	0.03441	3.94;3.93;3.93	5.72	2.61	0.31194	.	0.622892	0.14300	N	0.328352	T	0.04407	0.0121	L	0.54323	1.7	0.09310	N	1	B;B;B;B	0.13145	0.001;0.007;0.001;0.001	B;B;B;B	0.08055	0.001;0.003;0.002;0.003	T	0.45234	-0.9275	10	0.15499	T	0.54	.	9.0655	0.36460	0.423:0.0:0.577:0.0	.	1029;1017;1017;1029	Q99996;Q99996-2;Q99996-3;A4D1E4	AKAP9_HUMAN;.;.;.	N	1017;1029;1029;1029;1029	ENSP00000348573:S1017N;ENSP00000351922:S1029N;ENSP00000350813:S1029N	ENSP00000348573:S1017N	S	+	2	0	AKAP9	91470217	0.000000	0.05858	0.001000	0.08648	0.015000	0.08874	0.613000	0.24299	0.274000	0.22072	0.650000	0.86243	AGC		0.358	AKAP9-202	KNOWN	basic	protein_coding	protein_coding		NM_005751		A	91632281	G	A	91632281	3	1	699	1	0	0	0	0	1	0	0	0	459	971	34	2	3080	2	AKAP9	7	91632281	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	7892432	91632281	67506382	83	45849										
ZNF655	79027	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	99158261	99158261	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tggagacccagtctgagtgtCtgtccccagagcctcagttt	11	12	3	3			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr7:99158261C>T	ENST00000394163.2	+	2	262	c.79C>T	c.(79-81)Ctg>Ttg	p.L27L	GS1-259H13.10_ENST00000486324.1_3'UTR|ZNF655_ENST00000449244.1_Silent_p.L27L|GS1-259H13.10_ENST00000455905.1_Silent_p.L27L|ZNF655_ENST00000454654.1_Silent_p.L27L|ZNF655_ENST00000357864.2_Silent_p.L27L|ZNF655_ENST00000252713.4_Silent_p.L27L|ZNF655_ENST00000425063.1_Silent_p.L27L|ZNF655_ENST00000493277.1_Silent_p.L27L|ZNF655_ENST00000320583.5_Silent_p.L27L|ZNF655_ENST00000440391.1_Silent_p.L27L|ZNF655_ENST00000424881.1_Silent_p.L27L	NM_001009960.1|NM_138494.2	NP_001009960.1|NP_612503.1	Q8N720	ZN655_HUMAN	zinc finger protein 655	27					negative regulation of G1/S transition of mitotic cell cycle (GO:2000134)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|kidney(1)|large_intestine(3)|lung(5)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(4)	16	all_epithelial(64;3.19e-09)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					GTCTGAGTGTCTGTCCCCAGA	0.567																																																0													118	113	114					7																	99158261		2203	4300	6503	SO:0001819	synonymous_variant	79027			AY099353	CCDS5669.1, CCDS5670.1, CCDS34695.1, CCDS47655.1	7q22.1	2013-01-08			ENSG00000197343	ENSG00000197343		"Zinc fingers, C2H2-type", "-"	30899	protein-coding gene	gene with protein product						11179890, 15558030	Standard	NM_001083956		Approved	VIK-1, VIK	uc010lgc.3	Q8N720	OTTHUMG00000156637	ENST00000394163.2:c.79C>T	7.37:g.99158261C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4D291|A6NGD3|B4E3M4|B7Z9Q9|D6W5T4|Q8IV00|Q8TA89|Q96EZ3|Q9BQ85	Silent	SNP	ENST00000394163.2	37	CCDS5669.1																																																																																				0.567	ZNF655-009	KNOWN	alternative_5_UTR|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000344929.1	NM_138494		T	99158261	C	T	99158261	2	4	699	1	0	0	0	0	0	0	0	1	18080	912	32	2		2	ZNF655	7	99158261	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	7525980	99158261	59980402	84	45850										
DLD	1738	broad.mit.edu	37	chr7	107545820	107545820	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gtaaaggttgttcatgtcaaTggatatggaaagataactgg	12	3	2	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr7:107545820T>C	ENST00000205402.5	+	7	734	c.453T>C	c.(451-453)aaT>aaC	p.N151N	DLD_ENST00000440410.1_Silent_p.N128N|DLD_ENST00000537148.1_Silent_p.N52N|DLD_ENST00000494441.1_3'UTR|DLD_ENST00000437604.2_Intron	NM_000108.3	NP_000099.2	P09622	DLDH_HUMAN	dihydrolipoamide dehydrogenase	151					branched-chain amino acid catabolic process (GO:0009083)|cell redox homeostasis (GO:0045454)|cellular metabolic process (GO:0044237)|cellular nitrogen compound metabolic process (GO:0034641)|gastrulation (GO:0007369)|lysine catabolic process (GO:0006554)|mitochondrial electron transport, NADH to ubiquinone (GO:0006120)|proteolysis (GO:0006508)|pyruvate metabolic process (GO:0006090)|regulation of acetyl-CoA biosynthetic process from pyruvate (GO:0010510)|regulation of membrane potential (GO:0042391)|small molecule metabolic process (GO:0044281)|sperm capacitation (GO:0048240)|tricarboxylic acid cycle (GO:0006099)	acrosomal matrix (GO:0043159)|cilium (GO:0005929)|mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	dihydrolipoyl dehydrogenase activity (GO:0004148)|flavin adenine dinucleotide binding (GO:0050660)			NS(1)|breast(1)|central_nervous_system(1)|kidney(5)|large_intestine(1)|lung(10)|prostate(1)	20					Flavin adenine dinucleotide(DB03147)	TTCATGTCAATGGATATGGAA	0.313																																																0													79	76	77					7																	107545820		2203	4300	6503	SO:0001819	synonymous_variant	1738			AB209703	CCDS5749.1	7q31-q32	2006-05-22	2006-05-22		ENSG00000091140	ENSG00000091140	1.8.1.4		2898	protein-coding gene	gene with protein product	"E3 component of pyruvate dehydrogenase complex, 2-oxo-glutarate complex, branched chain keto acid dehydrogenase complex"	238331	"dihydrolipoamide dehydrogenase (E3 component of pyruvate dehydrogenase complex, 2-oxo-glutarate complex, branched chain keto acid dehydrogenase complex)"	LAD, GCSL			Standard	NM_000108		Approved	DLDH	uc003vet.3	P09622	OTTHUMG00000154813	ENST00000205402.5:c.453T>C	7.37:g.107545820T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2R5X0|B4DHG0|B4DT69|Q14131|Q14167|Q59EV8|Q8WTS4	Silent	SNP	ENST00000205402.5	37	CCDS5749.1																																																																																				0.313	DLD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000337194.3	NM_000108		C	107545820	T	C	107545820	2	2	699	1	0	0	0	0	0	0	0	1	4553	1461	51	3		3	DLD	7	107545820	Silent	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	8387559	107545820	51592843	85	45851										
C7orf45	136263	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	129856036	129856036	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tacggagtatggcagtgaagAgtctaactcagaagcctcct	11	9	2	3	rs144099660		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr7:129856036A>T	ENST00000297819.3	+	3	512	c.461A>T	c.(460-462)gAg>gTg	p.E154V		NM_145268.3	NP_660311.1	Q8WWF3	SSMM1_HUMAN	serine-rich single-pass membrane protein 1	154						integral component of membrane (GO:0016021)											GGCAGTGAAGAGTCTAACTCA	0.478																																																0													98	99	99					7																	129856036		2203	4300	6503	SO:0001583	missense	0			AK097635	CCDS5816.1	7q32.2	2013-03-08	2013-03-08	2013-03-08	ENSG00000165120	ENSG00000165120			29580	protein-coding gene	gene with protein product			"chromosome 7 open reading frame 45"	C7orf45		12477932	Standard	NM_145268		Approved	FLJ40316	uc003vpp.3	Q8WWF3	OTTHUMG00000157844	ENST00000297819.3:c.461A>T	7.37:g.129856036A>T	ENSP00000297819:p.Glu154Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000297819.3	37	CCDS5816.1	.	.	.	.	.	.	.	.	.	.	A	15.74	2.921732	0.52653	.	.	ENSG00000165120	ENST00000297819	T	0.55052	0.54	5.56	3.09	0.35607	.	0.365080	0.26103	N	0.026340	T	0.48589	0.1508	M	0.63428	1.95	0.32923	D	0.516117	B	0.20671	0.047	B	0.24541	0.054	T	0.56044	-0.8044	10	0.87932	D	0	-6.405	8.8929	0.35446	0.702:0.0:0.0:0.2979	.	154	Q8WWF3	CG045_HUMAN	V	154	ENSP00000297819:E154V	ENSP00000297819:E154V	E	+	2	0	C7orf45	129643272	0.962000	0.33011	0.961000	0.40146	0.396000	0.30629	2.242000	0.43106	0.352000	0.24053	0.402000	0.26972	GAG		0.478	SSMEM1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349768.1	NM_145268		T	129856036	A	T	129856036	3	4	699	1	0	0	0	0	1	0	0	0	2397	304	11	5	471	5	C7orf45	7	129856036	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	22310216	129856036	29282627	86	45852										
HIPK2	28996	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr7	139258060	139258060	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ctgttgtgcgggaaggagtaCggagcctgggccatggtggg	20	7	0	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr7:139258060C>A	ENST00000406875.3	-	15	3304	c.3210G>T	c.(3208-3210)ccG>ccT	p.P1070P	HIPK2_ENST00000428878.2_Silent_p.P1043P	NM_022740.4	NP_073577.3	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2	1070	Autoinhibitory domain (AID).				adult walking behavior (GO:0007628)|anterior/posterior pattern specification (GO:0009952)|cellular response to hypoxia (GO:0071456)|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator (GO:0006978)|embryonic camera-type eye morphogenesis (GO:0048596)|embryonic retina morphogenesis in camera-type eye (GO:0060059)|erythrocyte differentiation (GO:0030218)|eye development (GO:0001654)|intrinsic apoptotic signaling pathway (GO:0097193)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|iris morphogenesis (GO:0061072)|lens induction in camera-type eye (GO:0060235)|modulation by virus of host morphology or physiology (GO:0019048)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neuron differentiation (GO:0030182)|peptidyl-serine phosphorylation (GO:0018105)|peptidyl-threonine phosphorylation (GO:0018107)|PML body organization (GO:0030578)|positive regulation of angiogenesis (GO:0045766)|positive regulation of cell proliferation (GO:0008284)|positive regulation of DNA binding (GO:0043388)|positive regulation of JNK cascade (GO:0046330)|positive regulation of protein binding (GO:0032092)|positive regulation of protein phosphorylation (GO:0001934)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of transforming growth factor beta receptor signaling pathway (GO:0030511)|protein phosphorylation (GO:0006468)|regulation of cell cycle (GO:0051726)|retina layer formation (GO:0010842)|SMAD protein signal transduction (GO:0060395)|smoothened signaling pathway (GO:0007224)|transforming growth factor beta receptor signaling pathway (GO:0007179)|voluntary musculoskeletal movement (GO:0050882)	cytoplasm (GO:0005737)|nuclear body (GO:0016604)|nucleus (GO:0005634)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II transcription coactivator activity (GO:0001105)|SMAD binding (GO:0046332)|transcription corepressor activity (GO:0003714)|virion binding (GO:0046790)			breast(4)|central_nervous_system(4)|endometrium(7)|kidney(2)|large_intestine(5)|lung(11)|ovary(3)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	43	Melanoma(164;0.205)					GGAAGGAGTACGGAGCCTGGG	0.682																																																0													84	104	97					7																	139258060		2181	4276	6457	SO:0001819	synonymous_variant	28996			AF208291	CCDS75666.1, CCDS75667.1	7q32-q34	2004-01-29	2001-11-29		ENSG00000064393	ENSG00000064393			14402	protein-coding gene	gene with protein product		606868	"homeodomain-interacting protein kinase 2"			11120354	Standard	NM_001113239		Approved		uc003vvf.4	Q9H2X6	OTTHUMG00000157704	ENST00000406875.3:c.3210G>T	7.37:g.139258060C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q75MR7|Q8WWI4|Q9H2Y1	Silent	SNP	ENST00000406875.3	37																																																																																					0.682	HIPK2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000349430.3	NM_022740		A	139258060	C	A	139258060	2	1	699	1	0	0	0	0	0	0	0	1	7124	523	19	4		4	HIPK2	7	139258060	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	9402024	139258060	19880603	87	45853										
CRISPLD1	83690	ucsc.edu;bcgsc.ca	37	chr8	75932278	75932278	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tgaaacaactgtggaacagcTctgtccatttcataagcctg	8	10	2	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr8:75932278T>A	ENST00000262207.4	+	12	1676	c.1208T>A	c.(1207-1209)cTc>cAc	p.L403H	CRISPLD1_ENST00000523524.1_Missense_Mutation_p.L215H|CRISPLD1_ENST00000517786.1_Missense_Mutation_p.L217H	NM_031461.5	NP_113649.1	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain containing 1	403	LCCL 2. {ECO:0000255|PROSITE- ProRule:PRU00123}.				face morphogenesis (GO:0060325)	extracellular vesicular exosome (GO:0070062)				biliary_tract(1)|central_nervous_system(1)|endometrium(3)|kidney(7)|large_intestine(10)|lung(16)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	43	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			GTGGAACAGCTCTGTCCATTT	0.413																																																0													135	123	127					8																	75932278		2203	4300	6503	SO:0001583	missense	83690			AL834301	CCDS6219.1, CCDS69497.1, CCDS75754.1	8q21.13	2005-09-23	2005-02-16	2005-02-16	ENSG00000121005	ENSG00000121005			18206	protein-coding gene	gene with protein product			"LCCL domain containing cysteine-rich secretory protein 1"	LCRISP1			Standard	NM_031461		Approved	Cocoacrisp, DKFZp762F133	uc003yan.3	Q9H336	OTTHUMG00000164529	ENST00000262207.4:c.1208T>A	8.37:g.75932278T>A	ENSP00000262207:p.Leu403His	Somatic		WXS	Illumina HiSeq		B2RA60|B7Z929	Missense_Mutation	SNP	ENST00000262207.4	37	CCDS6219.1	.	.	.	.	.	.	.	.	.	.	T	25.2	4.610809	0.87258	.	.	ENSG00000121005	ENST00000262207;ENST00000523524;ENST00000517786	D;D;D	0.90004	-2.6;-2.6;-2.6	5.44	5.44	0.79542	LCCL (5);	0.074942	0.49305	D	0.000149	D	0.93367	0.7885	L	0.61387	1.9	0.52501	D	0.999953	D;D	0.89917	1.0;0.999	D;D	0.87578	0.998;0.934	D	0.94015	0.7287	10	0.87932	D	0	.	15.6638	0.77209	0.0:0.0:0.0:1.0	.	217;403	B7Z929;Q9H336	.;CRLD1_HUMAN	H	403;215;217	ENSP00000262207:L403H;ENSP00000430105:L215H;ENSP00000429746:L217H	ENSP00000262207:L403H	L	+	2	0	CRISPLD1	76094833	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.493000	0.81493	2.285000	0.76669	0.528000	0.53228	CTC		0.413	CRISPLD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000379117.1	NM_031461		A	75932278	T	A	75932278	3	1	699	1	0	0	0	0	1	0	0	0	3884	1551	54	5	1250	5	CRISPLD1	8	75932278	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10		75932278	70431744	88	45854										
LRRCC1	85444	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	86057651	86057651	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	aaattgaaaaagaaatgcgtGaacttttggaagaaacatgc	9	4	0	4			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr8:86057651G>T	ENST00000360375.3	+	19	3153	c.3004G>T	c.(3004-3006)Gaa>Taa	p.E1002*	LRRCC1_ENST00000414626.2_Nonsense_Mutation_p.E982*	NM_033402.4	NP_208325.3	Q9C099	LRCC1_HUMAN	leucine rich repeat and coiled-coil centrosomal protein 1	1002					mitotic nuclear division (GO:0007067)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|nucleus (GO:0005634)				breast(3)|central_nervous_system(1)|endometrium(4)|kidney(9)|large_intestine(7)|lung(16)|skin(1)|upper_aerodigestive_tract(2)	43						AGAAATGCGTGAACTTTTGGA	0.269																																																0													49	45	46					8																	86057651		1795	4056	5851	SO:0001587	stop_gained	85444			BC030701	CCDS43750.1	8q21.2	2012-04-10	2012-04-10		ENSG00000133739	ENSG00000133739			29373	protein-coding gene	gene with protein product	"centrosomal leucine-rich repeat and coiled-coil containing protein", "variable number of flagella 1 homolog (Chlamydomonas)"		"leucine rich repeat and coiled-coil domain containing 1"			11214970, 18728398	Standard	NM_033402		Approved	KIAA1764, CLERC, VFL1	uc003ycw.3	Q9C099	OTTHUMG00000164784	ENST00000360375.3:c.3004G>T	8.37:g.86057651G>T	ENSP00000353538:p.Glu1002*	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYX6|B5RI11|Q8N768|Q96DK7|Q96N01	Nonsense_Mutation	SNP	ENST00000360375.3	37	CCDS43750.1	.	.	.	.	.	.	.	.	.	.	G	38	6.807978	0.97853	.	.	ENSG00000133739	ENST00000360375;ENST00000414626	.	.	.	4.97	4.06	0.47325	.	0.467007	0.15962	N	0.236193	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.16896	T	0.51	-1.6865	14.481	0.67582	0.0:0.2766:0.7234:0.0	.	.	.	.	X	1002;982	.	ENSP00000353538:E1002X	E	+	1	0	LRRCC1	86244903	1.000000	0.71417	0.956000	0.39512	0.626000	0.37791	3.387000	0.52501	2.567000	0.86603	0.491000	0.48974	GAA		0.269	LRRCC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380267.1	NM_033402		T	86057651	G	T	86057651	4	4	699	1	0	0	0	0	0	1	0	0	9033	1291	45	4	3078	4	LRRCC1	8	86057651	Nonsense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	10125373	86057651	60306371	89	45855										
CSMD3	114788	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	113678545	113678545	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tagagtgtccaggttcagctTcaatcacccactcacaattc	6	13	4	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr8:113678545T>G	ENST00000297405.5	-	17	3021	c.2777A>C	c.(2776-2778)gAa>gCa	p.E926A	CSMD3_ENST00000455883.2_Missense_Mutation_p.E822A|CSMD3_ENST00000352409.3_Missense_Mutation_p.E926A|CSMD3_ENST00000343508.3_Missense_Mutation_p.E886A	NM_198123.1	NP_937756.1	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3	926	CUB 5. {ECO:0000255|PROSITE- ProRule:PRU00059}.					integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(7)|central_nervous_system(6)|endometrium(44)|haematopoietic_and_lymphoid_tissue(8)|kidney(36)|large_intestine(72)|liver(5)|lung(389)|ovary(24)|prostate(6)|skin(23)|upper_aerodigestive_tract(19)|urinary_tract(7)	646						AGGTTCAGCTTCAATCACCCA	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)																																						0													66	64	65					8																	113678545		2203	4300	6503	SO:0001583	missense	114788			AY210419	CCDS6315.1, CCDS6316.2, CCDS6317.1	8q23.3	2007-01-06			ENSG00000164796	ENSG00000164796			19291	protein-coding gene	gene with protein product		608399					Standard	NM_052900		Approved		uc003ynu.3	Q7Z407	OTTHUMG00000157027	ENST00000297405.5:c.2777A>C	8.37:g.113678545T>G	ENSP00000297405:p.Glu926Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q96PZ3	Missense_Mutation	SNP	ENST00000297405.5	37	CCDS6315.1	.	.	.	.	.	.	.	.	.	.	T	25.3	4.621461	0.87460	.	.	ENSG00000164796	ENST00000343508;ENST00000297405;ENST00000339701;ENST00000455883;ENST00000352409	T;T;T;T;T	0.18502	2.21;2.21;2.21;2.21;2.21	5.97	5.97	0.96955	CUB (5);	0.000000	0.64402	D	0.000001	T	0.38214	0.1032	L	0.58428	1.81	0.46028	D	0.998827	D;D;D	0.89917	0.999;0.999;1.0	D;D;D	0.91635	0.997;0.998;0.999	T	0.03374	-1.1043	10	0.25751	T	0.34	.	16.4523	0.83996	0.0:0.0:0.0:1.0	.	822;926;886	Q7Z407-3;Q7Z407;Q7Z407-2	.;CSMD3_HUMAN;.	A	886;926;266;822;926	ENSP00000345799:E886A;ENSP00000297405:E926A;ENSP00000341558:E266A;ENSP00000412263:E822A;ENSP00000343124:E926A	ENSP00000297405:E926A	E	-	2	0	CSMD3	113747721	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	8.040000	0.89188	2.286000	0.76751	0.455000	0.32223	GAA		0.388	CSMD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347141.1	NM_052900		G	113678545	T	G	113678545	3	3	699	1	0	0	0	0	1	0	0	0	3948	1783	62	5	8566	5	CSMD3	8	113678545	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	27620894	113678545	32685477	90	45856										
PLAA	9373	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	26925951	26925951	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gatctgtcctctgctgttgtCacaaagtctaaaattaatga	7	8	4	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr9:26925951C>A	ENST00000397292.3	-	6	1158	c.741G>T	c.(739-741)gtG>gtT	p.V247V	PLAA_ENST00000520884.1_Silent_p.V247V	NM_001031689.2	NP_001026859.1	Q9Y263	PLAP_HUMAN	phospholipase A2-activating protein	247					inflammatory response (GO:0006954)|phospholipid metabolic process (GO:0006644)|signal transduction (GO:0007165)	extracellular vesicular exosome (GO:0070062)	phospholipase A2 activator activity (GO:0016005)			breast(1)|endometrium(7)|kidney(2)|large_intestine(3)|lung(3)|prostate(1)	17		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(218;1.32e-05)|LUSC - Lung squamous cell carcinoma(38;0.00011)		CTGCTGTTGTCACAAAGTCTA	0.373																																					Melanoma(175;2670 2735 14091 35526)											0													90	80	83					9																	26925951		2203	4300	6503	SO:0001819	synonymous_variant	9373			AF083395	CCDS35000.1	9p21	2013-01-10			ENSG00000137055	ENSG00000137055		"WD repeat domain containing"	9043	protein-coding gene	gene with protein product	"DOA1 homolog (S. cerevisiae)"	603873				9931468, 10644453	Standard	NM_001031689		Approved	PLAP, PLA2P, FLJ11281, FLJ12699, DOA1	uc003zqd.3	Q9Y263	OTTHUMG00000019708	ENST00000397292.3:c.741G>T	9.37:g.26925951C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q53EU5|Q5VY33|Q9NUL8|Q9NVE9|Q9UF53|Q9Y5L1	Silent	SNP	ENST00000397292.3	37	CCDS35000.1	.	.	.	.	.	.	.	.	.	.	C	6.836	0.523440	0.13066	.	.	ENSG00000137055	ENST00000523212	.	.	.	4.07	3.16	0.36331	.	.	.	.	.	T	0.47710	0.1460	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.35871	-0.9771	4	.	.	.	-2.2178	4.411	0.11432	0.1594:0.5773:0.0:0.2632	.	.	.	.	Y	224	.	.	D	-	1	0	PLAA	26915951	0.997000	0.39634	1.000000	0.80357	0.994000	0.84299	0.336000	0.19823	0.817000	0.34445	0.585000	0.79938	GAC		0.373	PLAA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000051958.2	NM_001031689		A	26925951	C	A	26925951	2	1	699	1	0	0	0	0	0	0	0	1	12018	813	29	4		4	PLAA	9	26925951	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10		26925951	114287480	91	45857										
RUSC2	9853	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	35547875	35547875	+	Frame_Shift_Del	DEL	G	G	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	acctattccagaagccagaaGtccagccagaggaacaagaa					rs375840925		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr9:35547875delG	ENST00000455600.1	+	2	1926	c.1357delG	c.(1357-1359)gtcfs	p.V453fs		NM_001135999.1	NP_001129471	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	453						cytoplasmic vesicle (GO:0031410)|extracellular vesicular exosome (GO:0070062)	Rab GTPase binding (GO:0017137)			NS(1)|breast(3)|endometrium(4)|kidney(1)|large_intestine(9)|lung(4)|ovary(2)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	32			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			GAAGCCAGAAGTCCAGCCAGA	0.572																																																0													107	127	120					9																	35547875		2203	4300	6503	SO:0001589	frameshift_variant	9853			AB002373	CCDS35008.1	9p13.2	2003-12-02			ENSG00000198853	ENSG00000198853			23625	protein-coding gene	gene with protein product		611053				9205841	Standard	NM_001135999		Approved	KIAA0375	uc003zww.3	Q8N2Y8	OTTHUMG00000019861	ENST00000455600.1:c.1357delG	9.37:g.35547875delG	ENSP00000393922:p.Val453fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2RU62|A7E2A9|O15080|Q5W134|Q641Q6|Q6P1W7	Frame_Shift_Del	DEL	ENST00000455600.1	37	CCDS35008.1																																																																																				0.572	RUSC2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052309.1	XM_048462		-	35547875	G	-	35547875	7	5	699	1	0	1	0	1	0	0	0	0	13764	1029	36	0	1359	0	RUSC2	9	35547875	Frame_Shift_Del	DEL	G	TCGA-P4-A5EB-01A-11D-A28G-10	8621924	35547875	105665556	92	45858										
TLN1	7094	broad.mit.edu	37	chr9	35699091	35699097	+	Frame_Shift_Del	DEL	CAGCTCC	CAGCTCC	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tgcagcctcaatggcggctgCagctcccaggagctcattct					rs370191540		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	CAGCTCC	CAGCTCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr9:35699091_35699097delCAGCTCC	ENST00000314888.9	-	52	7284_7290	c.6931_6937delGGAGCTG	c.(6931-6939)ggagctgcafs	p.GAA2311fs	TLN1_ENST00000540444.1_Frame_Shift_Del_p.GAA2199fs	NM_006289.3	NP_006280.3	Q9Y490	TLN1_HUMAN	talin 1	2311	I/LWEQ. {ECO:0000255|PROSITE- ProRule:PRU00292}.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell-cell junction assembly (GO:0007043)|cell-substrate junction assembly (GO:0007044)|cellular component movement (GO:0006928)|cellular protein metabolic process (GO:0044267)|cortical actin cytoskeleton organization (GO:0030866)|cytoskeletal anchoring at plasma membrane (GO:0007016)|endoplasmic reticulum unfolded protein response (GO:0030968)|muscle contraction (GO:0006936)|platelet activation (GO:0030168)|platelet aggregation (GO:0070527)|platelet degranulation (GO:0002576)	actin cytoskeleton (GO:0015629)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|microtubule organizing center (GO:0005815)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	integrin binding (GO:0005178)|LIM domain binding (GO:0030274)|structural constituent of cytoskeleton (GO:0005200)|vinculin binding (GO:0017166)			NS(2)|breast(8)|central_nervous_system(2)|endometrium(10)|kidney(5)|large_intestine(9)|lung(32)|ovary(3)|prostate(5)|skin(3)|upper_aerodigestive_tract(6)	85	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			ATGGCGGCTGCAGCTCCCAGGAGCTCA	0.585																																																0																																										SO:0001589	frameshift_variant	7094			AB028950	CCDS35009.1	9p23-p21	2008-02-05			ENSG00000137076	ENSG00000137076			11845	protein-coding gene	gene with protein product		186745		TLN		7635475, 10610730	Standard	NM_006289		Approved	ILWEQ	uc003zxt.2	Q9Y490	OTTHUMG00000019874	ENST00000314888.9:c.6931_6937delGGAGCTG	9.37:g.35699091_35699097delCAGCTCC	ENSP00000316029:p.Gly2311fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMY0|Q86YD0|Q9NZQ2|Q9UHH8|Q9UPX3	Frame_Shift_Del	DEL	ENST00000314888.9	37	CCDS35009.1																																																																																				0.585	TLN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052353.2	NM_006289		-	35699097	CAGCTCC	-	35699091	7	5	699	1	0	1	0	1	0	0	0	0	15959	710	25	0	712	0	TLN1	9	35699091	Frame_Shift_Del	DEL	CAGCTCC	TCGA-P4-A5EB-01A-11D-A28G-10	151216	35699091	105514340	93	45859										
TLN1	7094	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	35711276	35711276	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cagctgcagccagctgactcTtgaggttaggggcagcaggg	16	10	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr9:35711276T>A	ENST00000314888.9	-	30	4348	c.3995A>T	c.(3994-3996)aAg>aTg	p.K1332M	TLN1_ENST00000540444.1_Missense_Mutation_p.K1332M	NM_006289.3	NP_006280.3	Q9Y490	TLN1_HUMAN	talin 1	1332	Interaction with SYNM.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|axon guidance (GO:0007411)|blood coagulation (GO:0007596)|cell-cell junction assembly (GO:0007043)|cell-substrate junction assembly (GO:0007044)|cellular component movement (GO:0006928)|cellular protein metabolic process (GO:0044267)|cortical actin cytoskeleton organization (GO:0030866)|cytoskeletal anchoring at plasma membrane (GO:0007016)|endoplasmic reticulum unfolded protein response (GO:0030968)|muscle contraction (GO:0006936)|platelet activation (GO:0030168)|platelet aggregation (GO:0070527)|platelet degranulation (GO:0002576)	actin cytoskeleton (GO:0015629)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|microtubule organizing center (GO:0005815)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	integrin binding (GO:0005178)|LIM domain binding (GO:0030274)|structural constituent of cytoskeleton (GO:0005200)|vinculin binding (GO:0017166)			NS(2)|breast(8)|central_nervous_system(2)|endometrium(10)|kidney(5)|large_intestine(9)|lung(32)|ovary(3)|prostate(5)|skin(3)|upper_aerodigestive_tract(6)	85	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CAGCTGACTCTTGAGGTTAGG	0.562																																																0													51	49	50					9																	35711276		2203	4300	6503	SO:0001583	missense	7094			AB028950	CCDS35009.1	9p23-p21	2008-02-05			ENSG00000137076	ENSG00000137076			11845	protein-coding gene	gene with protein product		186745		TLN		7635475, 10610730	Standard	NM_006289		Approved	ILWEQ	uc003zxt.2	Q9Y490	OTTHUMG00000019874	ENST00000314888.9:c.3995A>T	9.37:g.35711276T>A	ENSP00000316029:p.Lys1332Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NMY0|Q86YD0|Q9NZQ2|Q9UHH8|Q9UPX3	Missense_Mutation	SNP	ENST00000314888.9	37	CCDS35009.1	.	.	.	.	.	.	.	.	.	.	T	26.8	4.775730	0.90195	.	.	ENSG00000137076	ENST00000314888;ENST00000540444	T;T	0.18810	2.19;2.19	5.82	5.82	0.92795	Vinculin-binding site-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.44138	0.1279	M	0.83953	2.67	0.80722	D	1	P	0.52316	0.952	P	0.53954	0.738	T	0.48234	-0.9053	10	0.62326	D	0.03	-24.4418	16.1778	0.81874	0.0:0.0:0.0:1.0	.	1332	Q9Y490	TLN1_HUMAN	M	1332	ENSP00000316029:K1332M;ENSP00000442981:K1332M	ENSP00000316029:K1332M	K	-	2	0	TLN1	35701276	1.000000	0.71417	1.000000	0.80357	0.948000	0.59901	8.040000	0.89188	2.225000	0.72522	0.459000	0.35465	AAG		0.562	TLN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052353.2	NM_006289		A	35711276	T	A	35711276	3	1	699	1	0	0	0	0	1	0	0	0	15959	1609	56	5	3742	5	TLN1	9	35711276	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	12185	35711276	105502155	94	45860										
TJP2	9414	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	71869284	71869285	+	Frame_Shift_Ins	INS	-	-	T													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cccgataccgggacacagaaINSttatagatgtctgagcacgg							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr9:71869284_71869285insT	ENST00000377245.4	+	23	3775_3776	c.3567_3568insT	c.(3568-3570)ttafs	p.L1190fs	TJP2_ENST00000453658.2_Frame_Shift_Ins_p.L1020fs|TJP2_ENST00000535702.1_Frame_Shift_Ins_p.L1157fs|TJP2_ENST00000539225.1_Frame_Shift_Ins_p.L1221fs|TJP2_ENST00000348208.4_Frame_Shift_Ins_p.L1043fs	NM_004817.3	NP_004808.2	Q9UDY2	ZO2_HUMAN	tight junction protein 2	1190	Interaction with SCRIB.				apoptotic process (GO:0006915)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|hippo signaling (GO:0035329)|nucleotide phosphorylation (GO:0046939)|response to organic substance (GO:0010033)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|plasma membrane (GO:0005886)|tight junction (GO:0005923)	guanylate kinase activity (GO:0004385)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(8)|kidney(2)|large_intestine(5)|lung(9)|prostate(3)|skin(3)|soft_tissue(1)|upper_aerodigestive_tract(1)	35						GGGACACAGAATTATAGATGTC	0.579																																																0																																										SO:0001589	frameshift_variant	9414			L27476	CCDS6627.1, CCDS6628.1, CCDS55314.1, CCDS55315.1, CCDS55316.1, CCDS55317.1	9q13-q21	2012-07-12	2012-07-12		ENSG00000119139	ENSG00000119139			11828	protein-coding gene	gene with protein product	"Friedreich ataxia region gene X104 (tight junction protein ZO-2)", "zona occludens 2"	607709	"deafness, autosomal dominant 51"	DFNA51		7951235, 20602916	Standard	NM_001170630		Approved	ZO-2, X104, ZO2	uc011lrv.2	Q9UDY2	OTTHUMG00000019978	ENST00000377245.4:c.3569dupT	9.37:g.71869286_71869286dupT	ENSP00000366453:p.Leu1190fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2A3H9|B7Z2R8|B7Z7T6|F5H301|F5H886|Q15883|Q5VXL0|Q5VXL1|Q8N756|Q8NI14|Q99839|Q9UDY0|Q9UDY1	Frame_Shift_Ins	INS	ENST00000377245.4	37	CCDS6627.1																																																																																				0.579	TJP2-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000052572.2	NM_201629		T	71869285	-	T	71869284	7	5	699	1	0	1	1	0	0	0	0	0	15942	98	4	0	3916	0	TJP2	9	71869284	Frame_Shift_Ins	INS	-	TCGA-P4-A5EB-01A-11D-A28G-10	36158008	71869284	69344147	95	45861										
WNK2	65268	broad.mit.edu	37	chr9	96030146	96030146	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	agacgccgaccgtggctccgAcccagggaccagcccgccac	12	19	0	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr9:96030146A>C	ENST00000297954.4	+	16	3815	c.3815A>C	c.(3814-3816)gAc>gCc	p.D1272A	WNK2_ENST00000395475.2_3'UTR|WNK2_ENST00000356055.3_5'UTR|WNK2_ENST00000349097.3_Missense_Mutation_p.D884A|WNK2_ENST00000427277.2_Missense_Mutation_p.D884A|WNK2_ENST00000395477.2_Missense_Mutation_p.D1272A	NM_001282394.1	NP_001269323.1	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	1272					intracellular signal transduction (GO:0035556)|negative regulation of cell proliferation (GO:0008285)|negative regulation of ERK1 and ERK2 cascade (GO:0070373)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|protein autophosphorylation (GO:0046777)|protein phosphorylation (GO:0006468)|regulation of ion homeostasis (GO:2000021)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			breast(2)|central_nervous_system(1)|endometrium(11)|kidney(4)|large_intestine(5)|lung(17)|ovary(2)|prostate(3)|skin(4)|stomach(3)|upper_aerodigestive_tract(2)	54						CGTGGCTCCGACCCAGGGACC	0.647																																																0													37	34	35					9																	96030146		2203	4300	6503	SO:0001583	missense	65268			AJ242724	CCDS75858.1	9q22.3	2008-02-05	2003-06-23	2005-01-22	ENSG00000165238	ENSG00000165238			14542	protein-coding gene	gene with protein product		606249	"serologically defined colon cancer antigen 43"	SDCCAG43, PRKWNK2		9610721, 11571656	Standard	NM_006648		Approved	NY-CO-43, KIAA1760	uc004atj.3	Q9Y3S1	OTTHUMG00000020247	ENST00000297954.4:c.3815A>C	9.37:g.96030146A>C	ENSP00000297954:p.Asp1272Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VWF1|Q5VWF2|Q8IY36|Q9C0A3|Q9H3P4	Missense_Mutation	SNP	ENST00000297954.4	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	17.77|17.77	3.471405|3.471405	0.63737|0.63737	.|.	.|.	ENSG00000165238|ENSG00000165238	ENST00000297954;ENST00000395477;ENST00000349097;ENST00000427277|ENST00000432730;ENST00000448251	T;T;T;T|.	0.33216|.	1.42;1.42;1.42;1.42|.	5.47|5.47	5.47|5.47	0.80525|0.80525	.|.	0.119947|.	0.53938|.	D|.	0.000041|.	T|T	0.63022|0.63022	0.2476|0.2476	L|L	0.47716|0.47716	1.5|1.5	0.80722|0.80722	D|D	1|1	D;D;D;D|.	0.89917|.	1.0;1.0;1.0;0.999|.	D;D;D;D|.	0.87578|.	0.998;0.965;0.984;0.994|.	T|T	0.60301|0.60301	-0.7290|-0.7290	10|5	0.59425|.	D|.	0.04|.	.|.	15.846|15.846	0.78890|0.78890	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	1272;875;1272;1272|.	Q9Y3S1-2;A6PVR4;F8W9F9;Q9Y3S1|.	.;.;.;WNK2_HUMAN|.	A|P	1272;1272;884;884|1268;69	ENSP00000297954:D1272A;ENSP00000378860:D1272A;ENSP00000297876:D884A;ENSP00000411181:D884A|.	ENSP00000297954:D1272A|.	D|T	+|+	2|1	0|0	WNK2|WNK2	95069967|95069967	1.000000|1.000000	0.71417|0.71417	0.956000|0.956000	0.39512|0.39512	0.086000|0.086000	0.17979|0.17979	7.075000|7.075000	0.76798|0.76798	2.190000|2.190000	0.69967|0.69967	0.528000|0.528000	0.53228|0.53228	GAC|ACC		0.647	WNK2-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000317359.1	NM_006648		C	96030146	A	C	96030146	3	2	699	1	0	0	0	0	1	0	0	0	17390	275	10	5	3877	5	WNK2	9	96030146	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	24160862	96030146	45183285	96	45862										
RNF20	56254	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	104302538	104302538	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	aatcgcaagctggcagaaatGttggatcagcggcaggccat	13	9	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr9:104302538G>C	ENST00000389120.3	+	3	273	c.183G>C	c.(181-183)atG>atC	p.M61I	RNF20_ENST00000481046.1_3'UTR	NM_019592.5	NP_062538.5	Q5VTR2	BRE1A_HUMAN	ring finger protein 20, E3 ubiquitin protein ligase	61					histone H2B ubiquitination (GO:0033523)|histone monoubiquitination (GO:0010390)|negative regulation of cell migration (GO:0030336)|positive regulation of histone methylation (GO:0031062)|positive regulation of transcription, DNA-templated (GO:0045893)|protein polyubiquitination (GO:0000209)|regulation of transcription, DNA-templated (GO:0006355)|ubiquitin-dependent protein catabolic process (GO:0006511)	HULC complex (GO:0033503)|nucleolus (GO:0005730)|nucleus (GO:0005634)|ubiquitin ligase complex (GO:0000151)	chromatin binding (GO:0003682)|histone binding (GO:0042393)|ligase activity (GO:0016874)|p53 binding (GO:0002039)|transcription coactivator activity (GO:0003713)|ubiquitin protein ligase binding (GO:0031625)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(3)|endometrium(3)|kidney(6)|large_intestine(7)|lung(23)|ovary(4)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	54		all_hematologic(171;8.99e-06)|Acute lymphoblastic leukemia(62;0.000365)|Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.88e-19)|STAD - Stomach adenocarcinoma(157;0.00311)		TGGCAGAAATGTTGGATCAGC	0.438																																																0													98	88	92					9																	104302538		2203	4300	6503	SO:0001583	missense	56254			AF265230	CCDS35084.1	9q22	2012-02-23	2012-02-23	2008-12-12	ENSG00000155827	ENSG00000155827		"RING-type (C3HC4) zinc fingers"	10062	protein-coding gene	gene with protein product	"BRE1 E3 ubiquitin ligase homolog (S. cerevisiae)"	607699	"ring finger protein 20"			16337599, 12876294, 18832071, 19037095	Standard	NM_019592		Approved	FLJ20382, FLJ11189, KAIA2779, BRE1A, hBRE1, BRE1	uc004bbn.3	Q5VTR2	OTTHUMG00000020385	ENST00000389120.3:c.183G>C	9.37:g.104302538G>C	ENSP00000373772:p.Met61Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A7MCT5|Q2TB34|Q69YL5|Q6P527|Q8N3J4|Q96JD3|Q9H9Y7|Q9HA51|Q9NUR4|Q9NWQ3|Q9NX83	Missense_Mutation	SNP	ENST00000389120.3	37	CCDS35084.1	.	.	.	.	.	.	.	.	.	.	G	13.05	2.120440	0.37436	.	.	ENSG00000155827	ENST00000389120;ENST00000478347;ENST00000488264;ENST00000374819;ENST00000479306;ENST00000466817	T	0.29655	1.56	4.17	3.28	0.37604	.	0.193183	0.56097	D	0.000035	T	0.21387	0.0515	N	0.22421	0.69	0.36185	D	0.849654	B	0.02656	0.0	B	0.01281	0.0	T	0.16453	-1.0402	10	0.87932	D	0	-19.2966	11.9251	0.52814	0.0866:0.0:0.9134:0.0	.	61	Q5VTR2	BRE1A_HUMAN	I	61;49;47;61;61;61	ENSP00000373772:M61I	ENSP00000363952:M61I	M	+	3	0	RNF20	103342359	1.000000	0.71417	1.000000	0.80357	0.812000	0.45895	4.058000	0.57463	1.125000	0.41998	-0.379000	0.06801	ATG		0.438	RNF20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000356402.1	NM_019592		C	104302538	G	C	104302538	3	2	699	1	0	0	0	0	1	0	0	0	13486	1377	48	4	189	4	RNF20	9	104302538	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	8272392	104302538	36910893	97	45863										
ABCA1	19	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	107573100	107573100	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cctgacaaatgtgtactgttCgttgtacatccagggctgaa	10	9	0	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr9:107573100C>G	ENST00000374736.3	-	29	4550	c.4156G>C	c.(4156-4158)Gaa>Caa	p.E1386Q		NM_005502.3	NP_005493.2	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 1	1386					apolipoprotein A-I-mediated signaling pathway (GO:0038027)|cellular lipid metabolic process (GO:0044255)|cellular response to cholesterol (GO:0071397)|cellular response to lipopolysaccharide (GO:0071222)|cellular response to retinoic acid (GO:0071300)|cholesterol efflux (GO:0033344)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|endosomal transport (GO:0016197)|G-protein coupled receptor signaling pathway (GO:0007186)|high-density lipoprotein particle assembly (GO:0034380)|interleukin-1 beta secretion (GO:0050702)|intracellular cholesterol transport (GO:0032367)|lipoprotein metabolic process (GO:0042157)|lysosome organization (GO:0007040)|negative regulation of cholesterol storage (GO:0010887)|negative regulation of macrophage derived foam cell differentiation (GO:0010745)|peptide secretion (GO:0002790)|phagocytosis, engulfment (GO:0006911)|phospholipid efflux (GO:0033700)|phospholipid homeostasis (GO:0055091)|phospholipid translocation (GO:0045332)|platelet dense granule organization (GO:0060155)|positive regulation of cAMP biosynthetic process (GO:0030819)|positive regulation of cholesterol efflux (GO:0010875)|protein lipidation (GO:0006497)|regulation of Cdc42 protein signal transduction (GO:0032489)|response to drug (GO:0042493)|response to laminar fluid shear stress (GO:0034616)|response to low-density lipoprotein particle (GO:0055098)|response to nutrient (GO:0007584)|reverse cholesterol transport (GO:0043691)|small molecule metabolic process (GO:0044281)	endocytic vesicle (GO:0030139)|external side of plasma membrane (GO:0009897)|Golgi apparatus (GO:0005794)|integral component of plasma membrane (GO:0005887)|membrane raft (GO:0045121)|perinuclear region of cytoplasm (GO:0048471)|phagocytic vesicle (GO:0045335)|plasma membrane (GO:0005886)	anion transmembrane transporter activity (GO:0008509)|apolipoprotein A-I binding (GO:0034186)|apolipoprotein A-I receptor activity (GO:0034188)|apolipoprotein binding (GO:0034185)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase binding (GO:0051117)|cholesterol binding (GO:0015485)|cholesterol transporter activity (GO:0017127)|phospholipid binding (GO:0005543)|phospholipid transporter activity (GO:0005548)|receptor binding (GO:0005102)|small GTPase binding (GO:0031267)|syntaxin binding (GO:0019905)			NS(1)|autonomic_ganglia(1)|breast(5)|central_nervous_system(2)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(31)|liver(1)|lung(40)|ovary(5)|pancreas(2)|prostate(4)|skin(3)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	115				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glyburide(DB01016)|Probucol(DB01599)	GTGTACTGTTCGTTGTACATC	0.507																																																0													198	175	183					9																	107573100		2203	4300	6503	SO:0001583	missense	19			AJ012376	CCDS6762.1	9q31	2014-03-14			ENSG00000165029	ENSG00000165029		"ATP binding cassette transporters / subfamily A"	29	protein-coding gene	gene with protein product	"Tangier disease"	600046		ABC1, HDLDT1		8088782, 10431236, 10431237, 10431238	Standard	NM_005502		Approved	TGD	uc004bcl.3	O95477	OTTHUMG00000020417	ENST00000374736.3:c.4156G>C	9.37:g.107573100C>G	ENSP00000363868:p.Glu1386Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VX33|Q96S56|Q96T85|Q9NQV4|Q9UN06|Q9UN07|Q9UN08|Q9UN09	Missense_Mutation	SNP	ENST00000374736.3	37	CCDS6762.1	.	.	.	.	.	.	.	.	.	.	C	12.90	2.077801	0.36662	.	.	ENSG00000165029	ENST00000374736	D	0.92299	-3.01	5.55	5.55	0.83447	.	0.095616	0.64402	D	0.000001	D	0.88840	0.6546	L	0.37466	1.105	0.80722	D	1	B	0.21309	0.054	B	0.26416	0.069	D	0.83736	0.0201	10	0.15499	T	0.54	.	19.8667	0.96806	0.0:1.0:0.0:0.0	.	1386	O95477	ABCA1_HUMAN	Q	1386	ENSP00000363868:E1386Q	ENSP00000363868:E1386Q	E	-	1	0	ABCA1	106612921	1.000000	0.71417	0.988000	0.46212	0.947000	0.59692	6.015000	0.70791	2.773000	0.95371	0.655000	0.94253	GAA		0.507	ABCA1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053491.1	NM_005502		G	107573100	C	G	107573100	3	3	699	1	0	0	0	0	1	0	0	0	28	893	31	4	2717	4	ABCA1	9	107573100	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	3270562	107573100	33640331	98	45864										
RPL7A	6130	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	136216489	136216489	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tgcagcggcagagagccatcCtctataagcggctgaaagtg	13	10	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr9:136216489C>A	ENST00000323345.6	+	3	238	c.208C>A	c.(208-210)Ctc>Atc	p.L70I	MED22_ENST00000471524.1_5'Flank|SNORD24_ENST00000383884.1_RNA|MED22_ENST00000491289.1_5'Flank|MED22_ENST00000343730.5_5'Flank|RPL7A_ENST00000315731.4_Intron|RPL7A_ENST00000463740.1_3'UTR|SNORD36B_ENST00000363961.1_RNA|SNORD36A_ENST00000362874.1_RNA|MED22_ENST00000371999.1_5'Flank|SNORD36C_ENST00000516733.1_RNA|MED22_ENST00000344469.5_5'Flank|MED22_ENST00000476080.1_5'Flank|SURF1_ENST00000495952.1_5'Flank	NM_000972.2	NP_000963.1	P62424	RL7A_HUMAN	ribosomal protein L7a	70					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|ribosome biogenesis (GO:0042254)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|membrane (GO:0016020)|nucleus (GO:0005634)|polysomal ribosome (GO:0042788)	poly(A) RNA binding (GO:0044822)|RNA binding (GO:0003723)|structural constituent of ribosome (GO:0003735)			cervix(1)|endometrium(1)|kidney(1)|lung(3)|upper_aerodigestive_tract(1)	7				OV - Ovarian serous cystadenocarcinoma(145;4.93e-07)|Epithelial(140;4.09e-06)|all cancers(34;3.78e-05)		GAGAGCCATCCTCTATAAGCG	0.552																																																0													43	48	46					9																	136216489		2203	4294	6497	SO:0001583	missense	6130			BC005128	CCDS6965.1	9q34	2011-04-06			ENSG00000148303	ENSG00000148303		"L ribosomal proteins"	10364	protein-coding gene	gene with protein product	"surfeit 3", "PLA-X polypeptide", "surfeit locus protein 3", "60S ribosomal protein L7a", ";", "thyroid hormone receptor uncoupling protein"	185640				2403926, 2966065	Standard	NM_000972		Approved	SURF3, TRUP, L7A	uc004cde.1	P62424	OTTHUMG00000020864	ENST00000323345.6:c.208C>A	9.37:g.136216489C>A	ENSP00000361076:p.Leu70Ile	Somatic		WXS	Illumina HiSeq	Phase_I	P11518|Q5T8U4	Missense_Mutation	SNP	ENST00000323345.6	37	CCDS6965.1	.	.	.	.	.	.	.	.	.	.	C	16.56	3.158547	0.57368	.	.	ENSG00000148303	ENST00000323345;ENST00000426651	T;T	0.70164	-0.46;-0.13	4.03	4.03	0.46877	.	0.000000	0.85682	D	0.000000	T	0.75539	0.3863	M	0.89287	3.02	0.80722	D	1	B	0.22604	0.072	B	0.34346	0.18	T	0.78841	-0.2045	10	0.66056	D	0.02	.	15.1827	0.72972	0.0:1.0:0.0:0.0	.	70	P62424	RL7A_HUMAN	I	70;97	ENSP00000361076:L70I;ENSP00000416638:L97I	ENSP00000361076:L70I	L	+	1	0	RPL7A	135206310	1.000000	0.71417	0.648000	0.29521	0.115000	0.19883	5.276000	0.65580	1.816000	0.52996	0.313000	0.20887	CTC		0.552	RPL7A-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054869.1	NM_000972		A	136216489	C	A	136216489	3	1	699	1	0	0	0	0	1	0	0	0	13613	681	24	4	218	4	RPL7A	9	136216489	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	28643389	136216489	4996942	99	45865										
LHX3	8022	hgsc.bcm.edu	37	chr9	139089398	139089398	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gccagggaggctctgcggggCggcgggggatggggggacac	24	9	1	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr9:139089398C>T	ENST00000371748.5	-	6	1063	c.967G>A	c.(967-969)Gcc>Acc	p.A323T	LHX3_ENST00000371746.3_Missense_Mutation_p.A328T	NM_178138.4	NP_835258.1	Q9UBR4	LHX3_HUMAN	LIM homeobox 3	323					inner ear development (GO:0048839)|lung development (GO:0030324)|medial motor column neuron differentiation (GO:0021526)|motor neuron axon guidance (GO:0008045)|negative regulation of apoptotic process (GO:0043066)|organ morphogenesis (GO:0009887)|pituitary gland development (GO:0021983)|placenta development (GO:0001890)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|spinal cord association neuron differentiation (GO:0021527)|spinal cord motor neuron cell fate specification (GO:0021520)|ventral spinal cord interneuron specification (GO:0021521)	nucleus (GO:0005634)|transcription factor complex (GO:0005667)	RNA polymerase II transcription factor binding transcription factor activity (GO:0001076)|sequence-specific DNA binding (GO:0043565)|zinc ion binding (GO:0008270)			large_intestine(2)|lung(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	8		Myeloproliferative disorder(178;0.0511)		Epithelial(140;8.43e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.26e-07)		CTCTGCGGGGCGGCGGGGGAT	0.736																																																0													2	2	2					9																	139089398		1495	3217	4712	SO:0001583	missense	8022			AF096169	CCDS6994.1, CCDS6995.1	9q34.3	2011-06-20			ENSG00000107187	ENSG00000107187		"Homeoboxes / LIM class"	6595	protein-coding gene	gene with protein product		600577				10598593, 10717474	Standard	NM_178138		Approved		uc004cgz.3	Q9UBR4	OTTHUMG00000020924	ENST00000371748.5:c.967G>A	9.37:g.139089398C>T	ENSP00000360813:p.Ala323Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TB39|Q5TB40|Q9NZB5|Q9P0I8|Q9P0I9	Missense_Mutation	SNP	ENST00000371748.5	37	CCDS6994.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	6.336|6.336	0.430180|0.430180	0.12045|0.12045	.|.	.|.	ENSG00000107187|ENSG00000107187	ENST00000371748;ENST00000371746|ENST00000325195	D;D|.	0.88818|.	-2.27;-2.43|.	4.04|4.04	1.96|1.96	0.26148|0.26148	.|.	0.152719|.	0.45361|.	N|.	0.000361|.	T|T	0.28433|0.28433	0.0703|0.0703	L|L	0.36672|0.36672	1.1|1.1	0.22961|0.22961	N|N	0.998502|0.998502	B;P|.	0.34462|.	0.308;0.454|.	B;B|.	0.29942|.	0.109;0.075|.	T|T	0.20371|0.20371	-1.0277|-1.0277	10|6	0.17369|0.33940	T|T	0.5|0.23	.|.	4.7565|4.7565	0.13086|0.13086	0.3922:0.4882:0.0:0.1196|0.3922:0.4882:0.0:0.1196	.|.	323;328|.	Q9UBR4;F1T0D9|.	LHX3_HUMAN;.|.	T|H	323;328|324	ENSP00000360813:A323T;ENSP00000360811:A328T|.	ENSP00000360811:A328T|ENSP00000319224:R324H	A|R	-|-	1|2	0|0	LHX3|LHX3	138229219|138229219	0.831000|0.831000	0.29352|0.29352	0.042000|0.042000	0.18584|0.18584	0.173000|0.173000	0.22820|0.22820	1.670000|1.670000	0.37502|0.37502	0.891000|0.891000	0.36235|0.36235	0.491000|0.491000	0.48974|0.48974	GCC|CGC		0.736	LHX3-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000055048.3			T	139089398	C	T	139089398	3	4	699	1	0	0	0	0	1	0	0	0	8779	768	27	1	230	1	LHX3	9	139089398	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	2872909	139089398	2124033	100	45866										
OPTN	10133	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	13160994	13160994	+	Nonsense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tgtgcctaagggaagggaatCagaaggtggagagacttgaa	16	4	1	3			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr10:13160994C>T	ENST00000378748.3	+	8	1095	c.733C>T	c.(733-735)Cag>Tag	p.Q245*	OPTN_ENST00000378757.2_Nonsense_Mutation_p.Q245*|OPTN_ENST00000378764.2_Nonsense_Mutation_p.Q239*|OPTN_ENST00000263036.5_Nonsense_Mutation_p.Q245*|OPTN_ENST00000378747.3_Nonsense_Mutation_p.Q245*|OPTN_ENST00000378752.3_Nonsense_Mutation_p.Q239*	NM_001008211.1|NM_001008213.1	NP_001008212|NP_001008214	Q96CV9	OPTN_HUMAN	optineurin	245					cell death (GO:0008219)|defense response to Gram-negative bacterium (GO:0050829)|G2/M transition of mitotic cell cycle (GO:0000086)|Golgi organization (GO:0007030)|Golgi ribbon formation (GO:0090161)|Golgi to plasma membrane protein transport (GO:0043001)|macroautophagy (GO:0016236)|mitotic cell cycle (GO:0000278)|negative regulation of receptor recycling (GO:0001920)|protein targeting to Golgi (GO:0000042)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|nucleoplasm (GO:0005654)|perinuclear region of cytoplasm (GO:0048471)|trans-Golgi network (GO:0005802)	polyubiquitin binding (GO:0031593)|protein C-terminus binding (GO:0008022)|Rab GTPase binding (GO:0017137)			breast(1)|endometrium(2)|large_intestine(5)|lung(9)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	22						GGAAGGGAATCAGAAGGTGGA	0.428																																																0													93	91	91					10																	13160994		2203	4300	6503	SO:0001587	stop_gained	10133			AF420371	CCDS7094.1	10p14	2014-01-28	2003-09-08		ENSG00000123240	ENSG00000123240			17142	protein-coding gene	gene with protein product		602432	"glaucoma 1, open angle, E (adult-onset)"	GLC1E		11834836, 9488477	Standard	NM_001008211		Approved	FIP2, HYPL, FIP-2, TFIIIA-INTP, NRP, HIP7	uc001ilx.1	Q96CV9	OTTHUMG00000017690	ENST00000378748.3:c.733C>T	10.37:g.13160994C>T	ENSP00000368022:p.Gln245*	Somatic		WXS	Illumina HiSeq	Phase_I	B3KP00|D3DRS4|D3DRS8|Q5T672|Q5T673|Q5T674|Q5T675|Q7LDL9|Q8N562|Q9UET9|Q9UEV4|Q9Y218	Nonsense_Mutation	SNP	ENST00000378748.3	37	CCDS7094.1	.	.	.	.	.	.	.	.	.	.	C	39	7.381482	0.98248	.	.	ENSG00000123240	ENST00000263036;ENST00000378764;ENST00000378757;ENST00000378752;ENST00000378748;ENST00000378747	.	.	.	6.16	6.16	0.99307	.	0.099240	0.64402	D	0.000001	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.32370	T	0.25	-22.7994	19.6313	0.95704	0.0:1.0:0.0:0.0	.	.	.	.	X	245;239;245;239;245;245	.	ENSP00000263036:Q245X	Q	+	1	0	OPTN	13201000	1.000000	0.71417	1.000000	0.80357	0.935000	0.57460	2.672000	0.46850	2.937000	0.99478	0.650000	0.86243	CAG		0.428	OPTN-005	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000046834.1	NM_021980		T	13160994	C	T	13160994	4	4	699	1	0	0	0	0	0	1	0	0	10896	827	29	2	751	2	OPTN	10	13160994	Nonsense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10		13160994	122373753	101	45867										
KIAA1462	57608	broad.mit.edu;bcgsc.ca	37	chr10	30336674	30336674	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gccccttggggttatcctcgCgtgatgctggggggtctctt	15	11	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr10:30336674C>T	ENST00000375377.1	-	2	169	c.68G>A	c.(67-69)cGc>cAc	p.R23H		NM_020848.2	NP_065899.1	Q9P266	JCAD_HUMAN	KIAA1462	23					cell adhesion (GO:0007155)	cell-cell junction (GO:0005911)				breast(3)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(17)|lung(23)|ovary(6)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)	75						GTTATCCTCGCGTGATGCTGG	0.607																																																0													73	79	77					10																	30336674		2036	4192	6228	SO:0001583	missense	57608			AB040895	CCDS41500.1	10p12.1	2013-04-23			ENSG00000165757	ENSG00000165757			29283	protein-coding gene	gene with protein product	"junctional protein associated with coronary artery disease"	614398				10819331, 21884682	Standard	NM_020848		Approved	JCAD	uc001iux.3	Q9P266	OTTHUMG00000017885	ENST00000375377.1:c.68G>A	10.37:g.30336674C>T	ENSP00000364526:p.Arg23His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5HYA7|Q5T992|Q86WZ9|Q9BYJ2	Missense_Mutation	SNP	ENST00000375377.1	37	CCDS41500.1	.	.	.	.	.	.	.	.	.	.	C	7.772	0.707679	0.15239	.	.	ENSG00000165757	ENST00000375377	T	0.11604	2.76	5.3	-1.25	0.09405	.	0.823638	0.10809	N	0.631817	T	0.03434	0.0099	N	0.03115	-0.41	0.09310	N	1	B	0.11235	0.004	B	0.08055	0.003	T	0.46992	-0.9151	10	0.11794	T	0.64	-5.5506	5.0393	0.14451	0.0:0.4095:0.1523:0.4382	.	23	Q9P266	K1462_HUMAN	H	23	ENSP00000364526:R23H	ENSP00000364526:R23H	R	-	2	0	KIAA1462	30376680	0.000000	0.05858	0.000000	0.03702	0.002000	0.02628	-0.154000	0.10130	-0.048000	0.13401	-0.373000	0.07131	CGC		0.607	KIAA1462-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047409.1	NM_020848		T	30336674	C	T	30336674	3	4	699	1	0	0	0	0	1	0	0	0	8241	768	27	1	4023	1	KIAA1462	10	30336674	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	17175680	30336674	105198073	102	45868										
TYSND1	219743	hgsc.bcm.edu	37	chr10	71905802	71905819	+	In_Frame_Del	DEL	CTCTCAGTTGATCCGCCT	CTCTCAGTTGATCCGCCT	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cagcgcaaaccagcccagcgCtctcagttgatccgcctcct					rs370610523|rs572542997|rs562289648|rs553877350	byFrequency	TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	CTCTCAGTTGATCCGCCT	CTCTCAGTTGATCCGCCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr10:71905802_71905819delCTCTCAGTTGATCCGCCT	ENST00000287078.6	-	1	523_540	c.524_541delAGGCGGATCAACTGAGAG	c.(523-543)gaggcggatcaactgagagcg>gcg	p.EADQLR175del	TYSND1_ENST00000494143.1_5'Flank|TYSND1_ENST00000335494.5_In_Frame_Del_p.EADQLR175del	NM_173555.2	NP_775826.2	Q2T9J0	TYSD1_HUMAN	trypsin domain containing 1	175					protein homooligomerization (GO:0051260)|protein processing (GO:0016485)|proteolysis (GO:0006508)|regulation of fatty acid beta-oxidation (GO:0031998)	membrane (GO:0016020)|peroxisome (GO:0005777)	identical protein binding (GO:0042802)|protease binding (GO:0002020)|serine-type endopeptidase activity (GO:0004252)			endometrium(2)|large_intestine(2)|liver(1)|lung(3)|prostate(1)	9						CAGCCCAGCGCTCTCAGTTGATCCGCCTCCTCGTCCTC	0.711														5	0.000998403	0.0008	0.0	5008	,	,		14648	0.002		0.0	False		,,,				2504	0.002															0									,	1,4251		0,1,2125					,	3.9	1			26	18,8216		0,18,4099	no	coding,coding	TYSND1	NM_173555.2,NM_001040273.1	,	0,19,6224	A1A1,A1R,RR		0.2186,0.0235,0.1522	,	,		19,12467				SO:0001651	inframe_deletion	219743			BC016840	CCDS31213.1, CCDS31214.1	10q22.1	2009-11-06		2006-09-21	ENSG00000156521	ENSG00000156521			28531	protein-coding gene	gene with protein product		611017				17255948	Standard	NM_173555		Approved	MGC34695, NET41	uc001jqr.4	Q2T9J0	OTTHUMG00000018397	ENST00000287078.6:c.524_541delAGGCGGATCAACTGAGAG	10.37:g.71905802_71905819delCTCTCAGTTGATCCGCCT	ENSP00000287078:p.Glu175_Arg180del	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SQT4|Q5SQU1|Q8N6H2|Q96AR5	In_Frame_Del	DEL	ENST00000287078.6	37	CCDS31213.1																																																																																				0.711	TYSND1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048483.1	NM_173555		-	71905819	CTCTCAGTTGATCCGCCT	-	71905802	7	5	699	1	0	1	0	1	0	0	0	0	16829	797	28	0	1175	0	TYSND1	10	71905802	In_Frame_Del	DEL	CTCTCAGTTGATCCGCCT	TCGA-P4-A5EB-01A-11D-A28G-10	41569128	71905802	63628945	103	45869										
ZNF518A	9849	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	97917491	97917491	+	RNA	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	acaaaatgtatgttcaccagGctcacagtcaggtgctgcaa	9	10	3	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr10:97917491G>T	ENST00000534948.1	+	0	2269							Q6AHZ1	Z518A_HUMAN	zinc finger protein 518A						transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(4)|lung(8)|ovary(1)|prostate(2)|urinary_tract(2)	24		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		TGTTCACCAGGCTCACAGTCA	0.398																																																0													115	114	114					10																	97917491		1879	4103	5982			9849			AB002333	CCDS73170.1	10q23.33	2012-08-08	2007-12-07	2007-12-07	ENSG00000177853	ENSG00000177853		"Zinc fingers, C2H2-type"	29009	protein-coding gene	gene with protein product			"zinc finger protein 518"	ZNF518		9205841	Standard	NM_014803		Approved	KIAA0335	uc001klp.3	Q6AHZ1	OTTHUMG00000018828		10.37:g.97917491G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJI5|O15044|Q32MP4	Missense_Mutation	SNP	ENST00000534948.1	37																																																																																					0.398	ZNF518A-202	KNOWN	basic	processed_transcript	processed_transcript		NM_014803		T	97917491	G	T	97917491	1	4	699	0	1	0	0	0	0	0	0	0	17974	1203	42	4		4	ZNF518A	10	97917491	RNA	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	26011689	97917491	37617256	104	45870										
KNDC1	85442	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr10	135013012	135013012	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cctttgccactttctgtggcGccatttccgagaagttctgt	9	12	2	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr10:135013012G>A	ENST00000304613.3	+	15	2830	c.2809G>A	c.(2809-2811)Gcc>Acc	p.A937T	KNDC1_ENST00000368572.2_Missense_Mutation_p.A939T|KNDC1_ENST00000368571.2_Missense_Mutation_p.A872T			Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND) containing 1	937					cerebellar granule cell differentiation (GO:0021707)|positive regulation of protein phosphorylation (GO:0001934)|regulation of dendrite morphogenesis (GO:0048814)|small GTPase mediated signal transduction (GO:0007264)	dendrite (GO:0030425)|guanyl-nucleotide exchange factor complex (GO:0032045)|neuronal cell body (GO:0043025)	protein serine/threonine kinase activity (GO:0004674)|Ras guanyl-nucleotide exchange factor activity (GO:0005088)	p.A937T(1)		NS(4)|breast(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(27)|ovary(1)|prostate(5)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	60		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)		TTTCTGTGGCGCCATTTCCGA	0.532																																																1	Substitution - Missense(1)	large_intestine(1)											177	150	159					10																	135013012		2203	4300	6503	SO:0001583	missense	85442			AK074179	CCDS7674.1	10q26.3	2004-09-14	2004-04-07		ENSG00000171798	ENSG00000171798			29374	protein-coding gene	gene with protein product			"RasGEF domain family, member 2"	RASGEF2, C10orf23		11214970	Standard	NM_152643		Approved	KIAA1768, bB439H18.3, FLJ25027	uc001llz.1	Q76NI1	OTTHUMG00000019303	ENST00000304613.3:c.2809G>A	10.37:g.135013012G>A	ENSP00000304437:p.Ala937Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B0QZC5|Q5T233|Q6ZNH8|Q8TEE5|Q96LV7|Q9C095	Missense_Mutation	SNP	ENST00000304613.3	37	CCDS7674.1	.	.	.	.	.	.	.	.	.	.	G	16.88	3.244556	0.59103	.	.	ENSG00000171798	ENST00000304613;ENST00000368572;ENST00000368571	T;T;T	0.12984	2.63;2.63;2.63	3.99	3.99	0.46301	.	0.479232	0.18727	N	0.132851	T	0.34571	0.0902	M	0.66939	2.045	0.41003	D	0.984944	D;D;D	0.89917	0.993;1.0;0.997	D;D;P	0.72338	0.919;0.977;0.74	T	0.18116	-1.0347	10	0.72032	D	0.01	-25.397	13.9012	0.63804	0.0:0.0:1.0:0.0	.	937;872;937	Q76NI1-4;Q76NI1-2;Q76NI1	.;.;VKIND_HUMAN	T	937;939;872	ENSP00000304437:A937T;ENSP00000357561:A939T;ENSP00000357560:A872T	ENSP00000304437:A937T	A	+	1	0	KNDC1	134863002	0.937000	0.31787	0.821000	0.32701	0.124000	0.20399	2.706000	0.47135	1.957000	0.56846	0.313000	0.20887	GCC		0.532	KNDC1-006	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000277044.3	NM_152643		A	135013012	G	A	135013012	3	1	699	1	0	0	0	0	1	0	0	0	8433	1087	38	1	2867	1	KNDC1	10	135013012	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	37095521	135013012	521735	105	45871										
OR51D1	390038	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	4661643	4661643	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ctgtactgacaccagggtcaAtgtggtttatggactcttca	10	9	3	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr11:4661643A>T	ENST00000357605.2	+	1	699	c.623A>T	c.(622-624)aAt>aTt	p.N208I		NM_001004751.2	NP_001004751.1	Q8NGF3	O51D1_HUMAN	olfactory receptor, family 51, subfamily D, member 1	208						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			autonomic_ganglia(1)|breast(2)|central_nervous_system(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|liver(2)|lung(14)|prostate(1)|skin(2)|urinary_tract(1)	27		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;2.74e-13)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|GBM - Glioblastoma multiforme(2;0.0841)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACCAGGGTCAATGTGGTTTAT	0.468																																																0													290	242	259					11																	4661643		2201	4298	6499	SO:0001583	missense	390038			AB065855	CCDS31357.1	11p15.4	2012-08-09			ENSG00000197428	ENSG00000197428		"GPCR / Class A : Olfactory receptors"	15193	protein-coding gene	gene with protein product							Standard	NM_001004751		Approved	OR51D1Q	uc010qyk.2	Q8NGF3	OTTHUMG00000165724	ENST00000357605.2:c.623A>T	11.37:g.4661643A>T	ENSP00000350222:p.Asn208Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B9EIK4	Missense_Mutation	SNP	ENST00000357605.2	37	CCDS31357.1	.	.	.	.	.	.	.	.	.	.	A	11.92	1.781247	0.31502	.	.	ENSG00000197428	ENST00000357605	T	0.00231	8.49	4.29	3.13	0.36017	GPCR, rhodopsin-like superfamily (1);	0.000000	0.48286	D	0.000197	T	0.00580	0.0019	M	0.88906	2.99	0.43330	D	0.995366	P	0.44877	0.845	D	0.63793	0.918	T	0.66272	-0.5965	10	0.87932	D	0	.	9.16	0.37016	0.9102:0.0:0.0898:0.0	.	208	Q8NGF3	O51D1_HUMAN	I	208	ENSP00000350222:N208I	ENSP00000350222:N208I	N	+	2	0	OR51D1	4618219	0.644000	0.27277	0.752000	0.31206	0.008000	0.06430	1.567000	0.36407	0.752000	0.32923	0.460000	0.39030	AAT		0.468	OR51D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385956.1	NM_001004751		T	4661643	A	T	4661643	3	4	699	1	0	0	0	0	1	0	0	0	11100	101	4	5	625	5	OR51D1	11	4661643	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10		4661643	130344873	106	45872										
EIF4G2	1982	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	10820842	10820842	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tcaacgtgatcatgaagaaaTttctgcattactggcttgaa	8	7	3	4			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr11:10820842T>G	ENST00000526148.1	-	20	2964	c.2454A>C	c.(2452-2454)aaA>aaC	p.K818N	EIF4G2_ENST00000396525.2_Missense_Mutation_p.K780N|SNORD97_ENST00000459187.1_RNA|EIF4G2_ENST00000339995.5_Missense_Mutation_p.K818N|EIF4G2_ENST00000525681.1_Missense_Mutation_p.K818N|RP11-685M7.5_ENST00000532365.1_RNA	NM_001172705.1	NP_001166176			eukaryotic translation initiation factor 4 gamma, 2											NS(1)|breast(2)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(7)|lung(14)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(6)	43				all cancers(16;2.8e-07)|Epithelial(150;4.18e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		CATGAAGAAATTTCTGCATTA	0.443																																																0													154	144	148					11																	10820842		2201	4294	6495	SO:0001583	missense	1982			U73824	CCDS31428.1, CCDS41618.1	11p15	2005-09-29			ENSG00000110321	ENSG00000110321			3297	protein-coding gene	gene with protein product		602325				9030685, 9032289	Standard	NM_001042559		Approved	DAP5, NAT1, p97	uc001mjc.3	P78344	OTTHUMG00000165823	ENST00000526148.1:c.2454A>C	11.37:g.10820842T>G	ENSP00000433664:p.Lys818Asn	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000526148.1	37	CCDS31428.1	.	.	.	.	.	.	.	.	.	.	T	19.81	3.896251	0.72639	.	.	ENSG00000110321	ENST00000526148;ENST00000525681;ENST00000339995;ENST00000396525;ENST00000429377;ENST00000528839;ENST00000379653	T;T;T;T	0.22743	1.94;1.94;1.94;1.96	6.07	0.912	0.19349	eIF4-gamma/eIF5/eIF2-epsilon (2);Armadillo-type fold (1);MIF4-like, type 1/2/3 (1);	0.000000	0.85682	D	0.000000	T	0.31040	0.0784	M	0.76727	2.345	0.53005	D	0.999965	P;D	0.63880	0.949;0.993	P;P	0.52109	0.493;0.69	T	0.47086	-0.9144	9	0.59425	D	0.04	-9.3023	8.4006	0.32583	0.0:0.5799:0.0:0.4201	.	818;891	P78344;B4DZF2	IF4G2_HUMAN;.	N	818;818;818;780;891;166;200	ENSP00000433664:K818N;ENSP00000433371:K818N;ENSP00000340281:K818N;ENSP00000379778:K780N	ENSP00000340281:K818N	K	-	3	2	EIF4G2	10777418	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	0.781000	0.26774	0.149000	0.19098	0.533000	0.62120	AAA		0.443	EIF4G2-006	KNOWN	alternative_5_UTR|non_ATG_start|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000386603.1	NM_001418		G	10820842	T	G	10820842	3	3	699	1	0	0	0	0	1	0	0	0	5039	1490	52	5	281	5	EIF4G2	11	10820842	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	6159199	10820842	124185674	107	45873										
SPON1	10418	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	14063070	14063070	+	RNA	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cccactggttttccgtagatCatagacgaagaagaaactca	8	10	2	4			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr11:14063070C>T	ENST00000310358.7	+	0	886							Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein						cell adhesion (GO:0007155)	extracellular space (GO:0005615)|proteinaceous extracellular matrix (GO:0005578)				NS(1)|endometrium(1)|large_intestine(5)|lung(11)|prostate(2)|upper_aerodigestive_tract(1)	21				Epithelial(150;0.00898)		TTCCGTAGATCATAGACGAAG	0.418																																																0													174	172	173					11																	14063070		1901	4123	6024			10418			AB018305	CCDS73262.1	11p15.2	2014-05-06	2004-03-05		ENSG00000152268	ENSG00000262655			11252	protein-coding gene	gene with protein product		604989	"spondin 1, (f-spondin) extracellular matrix protein"			9872452	Standard	NM_006108		Approved	KIAA0762, f-spondin	uc001mle.3	Q9HCB6	OTTHUMG00000181576		11.37:g.14063070C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6W5|O94862|Q8NCD7|Q8WUR5	Silent	SNP	ENST00000310358.7	37																																																																																					0.418	SPON1-201	KNOWN	basic	processed_transcript	processed_transcript		NM_145584		T	14063070	C	T	14063070	1	4	699	0	1	0	0	0	0	0	0	0	15094	816	29	2		2	SPON1	11	14063070	RNA	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	3242228	14063070	120943446	108	45874										
CKAP5	9793	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	46799004	46799004	+	Silent	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tttaccttgctgtctccaagGactgtgatgatagggatgcc	11	9	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr11:46799004G>C	ENST00000529230.1	-	23	2893	c.2847C>G	c.(2845-2847)gtC>gtG	p.V949V	CKAP5_ENST00000354558.3_Silent_p.V949V|CKAP5_ENST00000415402.1_Silent_p.V949V|CKAP5_ENST00000312055.5_Silent_p.V949V			Q14008	CKAP5_HUMAN	cytoskeleton associated protein 5	949					centrosome organization (GO:0051297)|establishment or maintenance of microtubule cytoskeleton polarity (GO:0030951)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|RNA transport (GO:0050658)|spindle organization (GO:0007051)	centrosome (GO:0005813)|cytosol (GO:0005829)|membrane (GO:0016020)|protein complex (GO:0043234)|spindle pole (GO:0000922)				breast(1)|cervix(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(7)|lung(13)|ovary(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	43						TGTCTCCAAGGACTGTGATGA	0.413																																					Ovarian(4;85 273 2202 4844 13323)											0													137	125	129					11																	46799004		2201	4299	6500	SO:0001819	synonymous_variant	9793				CCDS7924.1, CCDS31477.1	11p11.2	2006-09-20			ENSG00000175216	ENSG00000175216			28959	protein-coding gene	gene with protein product		611142				7788527, 8536682	Standard	NM_014756		Approved	ch-TOG, KIAA0097, TOG, TOGp	uc001ndi.2	Q14008	OTTHUMG00000166599	ENST00000529230.1:c.2847C>G	11.37:g.46799004G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q05D70|Q0VAX7|Q0VAX8|Q14668|Q2TA89|Q6NSH4	Silent	SNP	ENST00000529230.1	37	CCDS31477.1																																																																																				0.413	CKAP5-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390679.1	NM_014756		C	46799004	G	C	46799004	2	2	699	1	0	0	0	0	0	0	0	1	3447	1161	41	4		4	CKAP5	11	46799004	Silent	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	32735934	46799004	88207512	109	45875										
NUP160	23279	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	47837537	47837537	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gtaacttctttcttcagttcActccaggaaagatccaaatt	5	10	4	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr11:47837537A>G	ENST00000378460.2	-	12	1522	c.1476T>C	c.(1474-1476)agT>agC	p.S492S	NUP160_ENST00000531016.1_5'UTR|NUP160_ENST00000530326.1_Silent_p.S378S|NUP160_ENST00000528501.1_Silent_p.S56S|NUP160_ENST00000528071.1_Silent_p.S378S	NM_015231.1	NP_056046.1	Q12769	NU160_HUMAN	nucleoporin 160kDa	492					carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA export from nucleus (GO:0006406)|protein transport (GO:0015031)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytosol (GO:0005829)|nuclear envelope (GO:0005635)|nuclear pore (GO:0005643)|nuclear pore outer ring (GO:0031080)	nucleocytoplasmic transporter activity (GO:0005487)			NS(1)|biliary_tract(2)|breast(7)|central_nervous_system(1)|endometrium(3)|kidney(4)|large_intestine(8)|lung(15)|ovary(6)|prostate(2)|skin(2)|urinary_tract(2)	53						TCTTCAGTTCACTCCAGGAAA	0.363																																																0													92	89	90					11																	47837537		2201	4298	6499	SO:0001819	synonymous_variant	23279			D83781	CCDS31484.1	11p11.12	2008-07-21	2002-08-29		ENSG00000030066	ENSG00000030066			18017	protein-coding gene	gene with protein product		607614	"nucleoporin 160kD"			11684705	Standard	NM_015231		Approved	KIAA0197, FLJ22583	uc001ngm.3	Q12769	OTTHUMG00000166534	ENST00000378460.2:c.1476T>C	11.37:g.47837537A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DYE8|B4E2J9|Q08AD3|Q7Z5X6|Q96GB3|Q9H660	Silent	SNP	ENST00000378460.2	37	CCDS31484.1																																																																																				0.363	NUP160-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390239.2	NM_015231		G	47837537	A	G	47837537	2	3	699	1	0	0	0	0	0	0	0	1	10764	156	6	3		3	NUP160	11	47837537	Silent	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	1038533	47837537	87168979	110	45876										
PTPRJ	5795	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	48142728	48142728	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	catggtgtaacatcacaggcTtacgtccagcgacttcatat	8	11	2	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr11:48142728T>G	ENST00000418331.2	+	4	878	c.526T>G	c.(526-528)Tta>Gta	p.L176V	PTPRJ_ENST00000440289.2_Missense_Mutation_p.L176V	NM_002843.3	NP_002834.3	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	176	Fibronectin type-III 1. {ECO:0000255|PROSITE-ProRule:PRU00316}.				contact inhibition (GO:0060242)|heart development (GO:0007507)|negative regulation of cell growth (GO:0030308)|negative regulation of cell migration (GO:0030336)|negative regulation of cell proliferation (GO:0008285)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of platelet-derived growth factor receptor signaling pathway (GO:0010642)|negative regulation of protein kinase B signaling (GO:0051898)|negative regulation of T cell receptor signaling pathway (GO:0050860)|negative regulation of vascular permeability (GO:0043116)|oligodendrocyte differentiation (GO:0048709)|peptidyl-tyrosine dephosphorylation (GO:0035335)|platelet-derived growth factor receptor signaling pathway (GO:0048008)|positive chemotaxis (GO:0050918)|positive regulation of cell adhesion (GO:0045785)|positive regulation of focal adhesion assembly (GO:0051894)|positive regulation of protein kinase B signaling (GO:0051897)|regulation of cell adhesion (GO:0030155)|vasculogenesis (GO:0001570)	cell projection (GO:0042995)|cell surface (GO:0009986)|cell-cell junction (GO:0005911)|extracellular vesicular exosome (GO:0070062)|immunological synapse (GO:0001772)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	beta-catenin binding (GO:0008013)|delta-catenin binding (GO:0070097)|gamma-catenin binding (GO:0045295)|mitogen-activated protein kinase binding (GO:0051019)|phosphatase activity (GO:0016791)|platelet-derived growth factor receptor binding (GO:0005161)|protein kinase binding (GO:0019901)|protein tyrosine phosphatase activity (GO:0004725)			breast(3)|endometrium(7)|kidney(7)|large_intestine(5)|lung(15)|ovary(1)|prostate(2)|skin(6)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	52						CATCACAGGCTTACGTCCAGC	0.423																																																0													163	147	153					11																	48142728		2201	4298	6499	SO:0001583	missense	5795			U10886	CCDS7945.1, CCDS44596.1	11p11.2	2013-02-11			ENSG00000149177	ENSG00000149177		"CD molecules", "Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Fibronectin type III domain containing"	9673	protein-coding gene	gene with protein product		600925				7937872, 7994032	Standard	NM_001098503		Approved	DEP1, HPTPeta, CD148	uc001ngp.4	Q12913	OTTHUMG00000166573	ENST00000418331.2:c.526T>G	11.37:g.48142728T>G	ENSP00000400010:p.Leu176Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q15255|Q6P4H4|Q8NHM2|Q9UDA9	Missense_Mutation	SNP	ENST00000418331.2	37	CCDS7945.1	.	.	.	.	.	.	.	.	.	.	T	16.53	3.149018	0.57151	.	.	ENSG00000149177	ENST00000278456;ENST00000418331;ENST00000440289;ENST00000534219	D;D;D	0.84800	-1.9;-1.9;-1.9	5.41	1.8	0.24995	Fibronectin, type III (4);Immunoglobulin-like fold (1);	.	.	.	.	D	0.89894	0.6847	M	0.75615	2.305	0.09310	N	1	D;D	0.71674	0.992;0.998	P;D	0.72338	0.908;0.977	T	0.78858	-0.2038	9	0.72032	D	0.01	.	6.633	0.22867	0.0:0.2796:0.0:0.7204	.	176;176	Q12913;Q6P4H4	PTPRJ_HUMAN;.	V	176;176;176;97	ENSP00000400010:L176V;ENSP00000409733:L176V;ENSP00000432686:L97V	ENSP00000278456:L176V	L	+	1	2	PTPRJ	48099304	0.000000	0.05858	0.014000	0.15608	0.075000	0.17131	-0.197000	0.09518	0.346000	0.23899	0.482000	0.46254	TTA		0.423	PTPRJ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390525.1			G	48142728	T	G	48142728	3	3	699	1	0	0	0	0	1	0	0	0	12817	1606	56	5	540	5	PTPRJ	11	48142728	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	305191	48142728	86863788	111	45877										
ANKK1	255239	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	113265705	113265705	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	agtccacccggatgcagtacAtcgagaggtcggctctgcgg	14	12	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr11:113265705A>C	ENST00000303941.3	+	3	629	c.535A>C	c.(535-537)Atc>Ctc	p.I179L		NM_178510.1	NP_848605.1	Q8NFD2	ANKK1_HUMAN	ankyrin repeat and kinase domain containing 1	179	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.						ATP binding (GO:0005524)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(2)|large_intestine(3)|liver(2)|lung(14)|ovary(1)|stomach(1)	29		all_cancers(61;1.53e-11)|all_epithelial(67;3e-06)|Melanoma(852;4.04e-05)|all_hematologic(158;0.000315)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0461)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Prostate(24;0.194)		BRCA - Breast invasive adenocarcinoma(274;4.82e-06)|Epithelial(105;5.41e-05)|all cancers(92;0.000442)|OV - Ovarian serous cystadenocarcinoma(223;0.238)		GATGCAGTACATCGAGAGGTC	0.552																																																0													52	51	51					11																	113265705		2003	4170	6173	SO:0001583	missense	255239			AJ541797	CCDS44734.1	11q23.2	2013-01-10			ENSG00000170209	ENSG00000170209		"Ankyrin repeat domain containing"	21027	protein-coding gene	gene with protein product		608774				15146457	Standard	NM_178510		Approved	X-kinase	uc001pny.3	Q8NFD2	OTTHUMG00000167715	ENST00000303941.3:c.535A>C	11.37:g.113265705A>C	ENSP00000306678:p.Ile179Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000303941.3	37	CCDS44734.1	.	.	.	.	.	.	.	.	.	.	A	7.078	0.569692	0.13560	.	.	ENSG00000170209	ENST00000303941	D	0.82167	-1.58	4.25	3.11	0.35812	Serine-threonine/tyrosine-protein kinase (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.52532	U	0.000079	T	0.76786	0.4036	L	0.27053	0.805	0.42141	D	0.991513	P	0.43231	0.801	P	0.48089	0.566	T	0.72301	-0.4334	10	0.34782	T	0.22	-24.2177	9.4598	0.38778	0.8415:0.0:0.0:0.1585	.	179	Q8NFD2	ANKK1_HUMAN	L	179	ENSP00000306678:I179L	ENSP00000306678:I179L	I	+	1	0	ANKK1	112770915	0.995000	0.38212	0.250000	0.24296	0.020000	0.10135	3.696000	0.54757	0.654000	0.30846	-1.026000	0.02426	ATC		0.552	ANKK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395830.1	NM_178510		C	113265705	A	C	113265705	3	2	699	1	0	0	0	0	1	0	0	0	631	217	8	5	545	5	ANKK1	11	113265705	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	65122977	113265705	21740811	112	45878										
B4GALNT3	283358	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	660177	660177	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tggatgggcttcctctgcagCgctaccagggactccggttt	13	12	1	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr12:660177C>T	ENST00000266383.5	+	11	1100	c.1087C>T	c.(1087-1089)Cgc>Tgc	p.R363C		NM_173593.3	NP_775864.3	Q6L9W6	B4GN3_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 3	363					metabolic process (GO:0008152)	Golgi cisterna membrane (GO:0032580)|integral component of membrane (GO:0016021)	acetylgalactosaminyltransferase activity (GO:0008376)|N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity (GO:0033842)			breast(1)|central_nervous_system(1)|endometrium(6)|kidney(3)|large_intestine(1)|lung(10)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	26	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			TCCTCTGCAGCGCTACCAGGG	0.607																																																0													172	151	158					12																	660177		2203	4300	6503	SO:0001583	missense	283358			AB089940	CCDS8504.1	12p13.33	2013-02-19			ENSG00000139044	ENSG00000139044	2.4.1.-	"Beta 4-glycosyltransferases"	24137	protein-coding gene	gene with protein product		612220				12966086	Standard	NM_173593		Approved	B4GalNac-T3, FLJ16224, FLJ40362	uc001qii.1	Q6L9W6	OTTHUMG00000129283	ENST00000266383.5:c.1087C>T	12.37:g.660177C>T	ENSP00000266383:p.Arg363Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZNC1|Q8N7T6	Missense_Mutation	SNP	ENST00000266383.5	37	CCDS8504.1	.	.	.	.	.	.	.	.	.	.	C	31	5.064455	0.93898	.	.	ENSG00000139044	ENST00000266383;ENST00000322843	T;T	0.72725	-0.68;-0.68	5.22	5.22	0.72569	.	0.107194	0.64402	D	0.000004	D	0.84428	0.5470	M	0.77313	2.365	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.68621	0.959;0.926	D	0.86089	0.1549	10	0.87932	D	0	-22.1916	18.9627	0.92682	0.0:1.0:0.0:0.0	.	265;363	E9PHD9;Q6L9W6	.;B4GN3_HUMAN	C	363;265	ENSP00000266383:R363C;ENSP00000322953:R265C	ENSP00000266383:R363C	R	+	1	0	B4GALNT3	530438	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.267000	0.65530	2.715000	0.92844	0.655000	0.94253	CGC		0.607	B4GALNT3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251406.2	NM_173593		T	660177	C	T	660177	3	4	699	1	0	0	0	0	1	0	0	0	1268	768	27	1	1129	1	B4GALNT3	12	660177	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10		660177	133191718	113	45879										
LRTM2	654429	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	1940301	1940301	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tgccaagctgggctttcgccAacctctccagcctgcagcgg	11	16	1	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr12:1940301A>T	ENST00000543818.1	+	4	1110	c.268A>T	c.(268-270)Aac>Tac	p.N90Y	LRTM2_ENST00000543730.1_Intron|CACNA2D4_ENST00000585708.1_Intron|CACNA2D4_ENST00000588077.1_Intron|LRTM2_ENST00000299194.1_Missense_Mutation_p.N90Y|LRTM2_ENST00000535041.1_Missense_Mutation_p.N90Y|CACNA2D4_ENST00000585732.1_Intron|CACNA2D4_ENST00000586184.1_Intron|CACNA2D4_ENST00000587995.1_Intron|CACNA2D4_ENST00000382722.5_Intron	NM_001039029.2|NM_001163925.1|NM_001163926.1	NP_001034118.1|NP_001157397.1|NP_001157398.1	Q8N967	LRTM2_HUMAN	leucine-rich repeats and transmembrane domains 2	90						integral component of membrane (GO:0016021)				NS(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(10)|ovary(1)|skin(1)|urinary_tract(1)	20	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000834)			GGCTTTCGCCAACCTCTCCAG	0.617																																																0													57	65	62					12																	1940301		2203	4300	6503	SO:0001583	missense	654429			AK095610	CCDS31726.1	12p13.33	2008-02-05				ENSG00000166159			32443	protein-coding gene	gene with protein product							Standard	NM_001039029		Approved		uc010sdx.1	Q8N967		ENST00000543818.1:c.268A>T	12.37:g.1940301A>T	ENSP00000446278:p.Asn90Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2U6	Missense_Mutation	SNP	ENST00000543818.1	37	CCDS31726.1	.	.	.	.	.	.	.	.	.	.	A	17.40	3.379726	0.61845	.	.	ENSG00000166159	ENST00000543818;ENST00000299194;ENST00000535041;ENST00000546167;ENST00000543694	T;T;T;D;D	0.85013	0.52;0.52;0.52;-1.93;-1.93	5.04	3.87	0.44632	.	0.000000	0.85682	D	0.000000	D	0.88224	0.6379	L	0.54323	1.7	0.58432	D	0.999996	D	0.59357	0.985	P	0.61328	0.887	D	0.87459	0.2406	10	0.62326	D	0.03	.	10.9074	0.47088	0.925:0.0:0.075:0.0	.	90	Q8N967	LRTM2_HUMAN	Y	90	ENSP00000446278:N90Y;ENSP00000299194:N90Y;ENSP00000444737:N90Y;ENSP00000438678:N90Y;ENSP00000444104:N90Y	ENSP00000299194:N90Y	N	+	1	0	LRTM2	1810562	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	4.182000	0.58310	0.748000	0.32831	0.459000	0.35465	AAC		0.617	LRTM2-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398055.1			T	1940301	A	T	1940301	3	4	699	1	0	0	0	0	1	0	0	0	9052	130	5	5	274	5	LRTM2	12	1940301	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	1280124	1940301	131911594	114	45880										
MANSC1	54682	broad.mit.edu	37	chr12	12483849	12483849	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tgtaagagagaatcttcctgGggtaactcttggcttggcaa	12	7	2	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr12:12483849G>T	ENST00000535902.1	-	4	971	c.408C>A	c.(406-408)ccC>ccA	p.P136P	MANSC1_ENST00000545735.1_Silent_p.P55P|MANSC1_ENST00000396349.3_Silent_p.P102P			Q9H8J5	MANS1_HUMAN	MANSC domain containing 1	136						integral component of membrane (GO:0016021)				breast(2)|endometrium(1)|kidney(2)|large_intestine(4)|lung(9)|skin(1)|stomach(4)	23		Prostate(47;0.0865)		BRCA - Breast invasive adenocarcinoma(232;0.185)		AATCTTCCTGGGGTAACTCTT	0.423																																																0													101	97	99					12																	12483849		2203	4300	6503	SO:0001819	synonymous_variant	54682			AK001160	CCDS8648.1	12p13.2	2006-04-12				ENSG00000111261			25505	protein-coding gene	gene with protein product						12975309	Standard	NM_018050		Approved	FLJ10298, LOH12CR3	uc001rai.1	Q9H8J5		ENST00000535902.1:c.408C>A	12.37:g.12483849G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q8NEC1|Q9NW60	Silent	SNP	ENST00000535902.1	37	CCDS8648.1																																																																																				0.423	MANSC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400144.1	NM_018050		T	12483849	G	T	12483849	2	4	699	1	0	0	0	0	0	0	0	1	9231	1219	43	4		4	MANSC1	12	12483849	Silent	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	10543548	12483849	121368046	115	45881										
WBP11	51729	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	14943406	14943406	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ttacctggaggtggaccaggAggaaggcctgtaggtggccc	17	9	0	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr12:14943406A>G	ENST00000261167.2	-	10	1526	c.1293T>C	c.(1291-1293)ccT>ccC	p.P431P		NM_016312.2	NP_057396.1	Q9Y2W2	WBP11_HUMAN	WW domain binding protein 11	431	Pro-rich.				mRNA processing (GO:0006397)|RNA splicing (GO:0008380)|rRNA processing (GO:0006364)	cytoplasm (GO:0005737)|nuclear speck (GO:0016607)|nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)|protein phosphatase type 1 regulator activity (GO:0008599)|single-stranded DNA binding (GO:0003697)|WW domain binding (GO:0050699)			endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(16)|ovary(1)|prostate(1)	30						GTGGACCAGGAGGAAGGCCTG	0.473																																																0													99	103	102					12																	14943406		2203	4300	6503	SO:0001819	synonymous_variant	51729			AB029309	CCDS8666.1	12p12.3	2014-06-13			ENSG00000084463	ENSG00000084463			16461	protein-coding gene	gene with protein product	"splicing factor, PQBP1 and PP1 interacting", "protein phosphatase 1, regulatory subunit 165"					10593949	Standard	NM_016312		Approved	NPWBP, SIPP1, PPP1R165	uc001rci.3	Q9Y2W2	OTTHUMG00000168737	ENST00000261167.2:c.1293T>C	12.37:g.14943406A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q96AY8	Silent	SNP	ENST00000261167.2	37	CCDS8666.1																																																																																				0.473	WBP11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400850.1	NM_016312		G	14943406	A	G	14943406	2	3	699	1	0	0	0	0	0	0	0	1	17270	291	11	3		3	WBP11	12	14943406	Silent	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	2459557	14943406	118908489	116	45882										
KCNH3	23416	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr12	49944077	49944077	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tgtctgctctggctccatggAggtgctcaagggtggcaccg	15	11	3	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr12:49944077A>C	ENST00000257981.6	+	10	2143	c.1883A>C	c.(1882-1884)gAg>gCg	p.E628A		NM_012284.1	NP_036416.1	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H (eag-related), member 3	628					potassium ion transmembrane transport (GO:0071805)|potassium ion transport (GO:0006813)|regulation of membrane potential (GO:0042391)|synaptic transmission (GO:0007268)	integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	phosphorelay sensor kinase activity (GO:0000155)|voltage-gated potassium channel activity (GO:0005249)			NS(2)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(20)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	36						GGCTCCATGGAGGTGCTCAAG	0.647																																																0													73	66	68					12																	49944077		2203	4300	6503	SO:0001583	missense	23416			AB022696	CCDS8786.1	12q13	2012-07-05				ENSG00000135519		"Potassium channels", "Voltage-gated ion channels / Potassium channels"	6252	protein-coding gene	gene with protein product		604527				10455180, 16382104	Standard	NM_012284		Approved	Kv12.2, BEC1, elk2	uc001ruh.1	Q9ULD8	OTTHUMG00000169517	ENST00000257981.6:c.1883A>C	12.37:g.49944077A>C	ENSP00000257981:p.Glu628Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UQ06	Missense_Mutation	SNP	ENST00000257981.6	37	CCDS8786.1	.	.	.	.	.	.	.	.	.	.	A	31	5.069017	0.93950	.	.	ENSG00000135519	ENST00000257981	D	0.93307	-3.2	5.48	5.48	0.80851	Cyclic nucleotide-binding-like (1);RmlC-like jelly roll fold (1);Cyclic nucleotide-binding domain (3);	0.000000	0.48767	D	0.000161	D	0.96620	0.8897	M	0.84219	2.685	0.58432	D	0.999997	D	0.76494	0.999	D	0.87578	0.998	D	0.97133	0.9819	10	0.87932	D	0	.	13.8224	0.63331	1.0:0.0:0.0:0.0	.	628	Q9ULD8	KCNH3_HUMAN	A	628	ENSP00000257981:E628A	ENSP00000257981:E628A	E	+	2	0	KCNH3	48230344	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.339000	0.96797	2.224000	0.72417	0.533000	0.62120	GAG		0.647	KCNH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404571.2	NM_012284		C	49944077	A	C	49944077	3	2	699	1	0	0	0	0	1	0	0	0	8040	304	11	5	1921	5	KCNH3	12	49944077	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	35000671	49944077	83907818	117	45883										
CSAD	51380	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	53554015	53554015	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ggcggccacactgcaccaccTtgtctcccgtgtccagagcc	10	18	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr12:53554015T>C	ENST00000444623.1	-	14	1322	c.1055A>G	c.(1054-1056)aAg>aGg	p.K352R	CSAD_ENST00000453446.2_Missense_Mutation_p.K352R|CSAD_ENST00000379846.1_Missense_Mutation_p.K205R|CSAD_ENST00000267085.4_Missense_Mutation_p.K379R|CSAD_ENST00000379843.3_Missense_Mutation_p.K205R|RP11-1136G11.8_ENST00000550908.1_lincRNA	NM_001244705.1	NP_001231634.1	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	352					cellular nitrogen compound metabolic process (GO:0034641)|small molecule metabolic process (GO:0044281)|sulfur amino acid catabolic process (GO:0000098)|sulfur amino acid metabolic process (GO:0000096)|taurine biosynthetic process (GO:0042412)		pyridoxal phosphate binding (GO:0030170)|sulfinoalanine decarboxylase activity (GO:0004782)			kidney(1)|large_intestine(2)|lung(6)|ovary(1)|prostate(4)	14					L-Cysteine(DB00151)	CTGCACCACCTTGTCTCCCGT	0.612																																					Ovarian(109;252 1546 16882 28524 44645)											0													117	104	108					12																	53554015		2203	4300	6503	SO:0001583	missense	51380			AB044561	CCDS8848.2, CCDS58235.1	12q13.11-q14.3	2008-08-04			ENSG00000139631	ENSG00000139631			18966	protein-coding gene	gene with protein product	"P-selectin cytoplasmic tail-associated protein"					15489334	Standard	NM_015989		Approved	PCAP, CSD	uc001sbz.3	Q9Y600	OTTHUMG00000048076	ENST00000444623.1:c.1055A>G	12.37:g.53554015T>C	ENSP00000415485:p.Lys352Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0U4|Q4QQH9|Q9UNJ5|Q9Y601	Missense_Mutation	SNP	ENST00000444623.1	37	CCDS58235.1	.	.	.	.	.	.	.	.	.	.	T	33	5.207752	0.95033	.	.	ENSG00000139631	ENST00000308926;ENST00000379843;ENST00000267085;ENST00000379846;ENST00000444623;ENST00000398047;ENST00000453446	T;T;T;T;T	0.40225	1.04;1.04;1.04;1.04;1.04	4.67	4.67	0.58626	Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (1);Pyridoxal phosphate-dependent transferase, major domain (1);	0.047421	0.85682	D	0.000000	T	0.59376	0.2189	L	0.61387	1.9	0.80722	D	1	D;D;P	0.69078	0.997;0.994;0.871	D;D;B	0.68765	0.96;0.96;0.247	T	0.62062	-0.6933	10	0.56958	D	0.05	-26.8125	13.5402	0.61671	0.0:0.0:0.0:1.0	.	379;352;205	Q9Y600-3;Q9Y600;Q9Y600-2	.;CSAD_HUMAN;.	R	441;205;379;205;352;313;352	ENSP00000369172:K205R;ENSP00000267085:K379R;ENSP00000369175:K205R;ENSP00000415485:K352R;ENSP00000410648:K352R	ENSP00000267085:K379R	K	-	2	0	CSAD	51840282	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.430000	0.80321	2.100000	0.63781	0.533000	0.62120	AAG		0.612	CSAD-017	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000343697.1	NM_015989		C	53554015	T	C	53554015	3	2	699	1	0	0	0	0	1	0	0	0	3927	1609	56	3	442	3	CSAD	12	53554015	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	3609938	53554015	80297880	118	45884										
GPR84	53831	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	54756649	54756649	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	aagaaggggatgtagctcagGgcaaagcagaggaacacagc	15	7	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr12:54756649G>A	ENST00000551809.1	-	1	1622	c.987C>T	c.(985-987)gcC>gcT	p.A329A	GPR84_ENST00000267015.3_Silent_p.A329A|RP11-753H16.3_ENST00000550474.1_RNA|RP11-753H16.5_ENST00000552785.1_RNA			Q9NQS5	GPR84_HUMAN	G protein-coupled receptor 84	329						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	G-protein coupled receptor activity (GO:0004930)			NS(1)|breast(2)|kidney(2)|large_intestine(6)|lung(5)|skin(1)|urinary_tract(1)	18						TGTAGCTCAGGGCAAAGCAGA	0.537																																																0													139	138	138					12																	54756649		2203	4300	6503	SO:0001819	synonymous_variant	53831			AF237762	CCDS8878.1	12q13.13	2012-08-20						"GPCR / Class A : Fatty acid receptors"	4535	protein-coding gene	gene with protein product		606383				11273702	Standard	NM_020370		Approved	EX33	uc001sfu.3	Q9NQS5		ENST00000551809.1:c.987C>T	12.37:g.54756649G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B6V9G7	Silent	SNP	ENST00000551809.1	37	CCDS8878.1																																																																																				0.537	GPR84-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406156.1			A	54756649	G	A	54756649	2	1	699	1	0	0	0	0	0	0	0	1	6721	1219	43	2		2	GPR84	12	54756649	Silent	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	1202634	54756649	79095246	119	45885										
SMARCC2	6601	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	56578005	56578005	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tacacaacatgggaggcattGttcttatcctcagtgactgt	9	9	2	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr12:56578005G>T	ENST00000267064.4	-	6	602	c.516C>A	c.(514-516)aaC>aaA	p.N172K	SMARCC2_ENST00000550164.1_Missense_Mutation_p.N172K|RP11-977G19.5_ENST00000553176.1_RNA|SMARCC2_ENST00000347471.4_Missense_Mutation_p.N172K|SMARCC2_ENST00000394023.3_Missense_Mutation_p.N172K|SMARCC2_ENST00000550859.1_5'UTR	NM_003075.3	NP_003066.2	Q8TAQ2	SMRC2_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2	172					ATP-dependent chromatin remodeling (GO:0043044)|chromatin remodeling (GO:0006338)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|nucleosome disassembly (GO:0006337)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription from RNA polymerase II promoter involved in forebrain neuron fate commitment (GO:0021882)|transcription, DNA-templated (GO:0006351)	nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|protein complex (GO:0043234)|SWI/SNF complex (GO:0016514)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|transcription coactivator activity (GO:0003713)			breast(1)|central_nervous_system(3)|endometrium(6)|kidney(3)|large_intestine(3)|lung(20)|ovary(1)|skin(2)|soft_tissue(1)|upper_aerodigestive_tract(1)	41			OV - Ovarian serous cystadenocarcinoma(18;0.123)			GGGAGGCATTGTTCTTATCCT	0.498																																																0													116	94	101					12																	56578005		2203	4300	6503	SO:0001583	missense	6601			U66616	CCDS8907.1, CCDS8908.1, CCDS55835.1	12q13.2	2008-05-14				ENSG00000139613			11105	protein-coding gene	gene with protein product		601734				8804307, 9693044	Standard	NM_001130420		Approved	BAF170, Rsc8, CRACC2	uc001skb.3	Q8TAQ2	OTTHUMG00000170288	ENST00000267064.4:c.516C>A	12.37:g.56578005G>T	ENSP00000267064:p.Asn172Lys	Somatic		WXS	Illumina HiSeq	Phase_I	F8VTJ5|Q59GV3|Q92923|Q96E12|Q96GY4	Missense_Mutation	SNP	ENST00000267064.4	37	CCDS8907.1	.	.	.	.	.	.	.	.	.	.	G	12.74	2.028067	0.35797	.	.	ENSG00000139613	ENST00000394023;ENST00000550164;ENST00000347471;ENST00000267064	T;T;T;T	0.56941	0.43;0.43;0.43;0.43	5.38	4.49	0.54785	BRCT (1);	0.717108	0.14170	N	0.336810	T	0.28067	0.0692	N	0.04508	-0.205	0.22610	N	0.998937	B;B;B;B;B	0.18310	0.016;0.027;0.016;0.016;0.027	B;B;B;B;B	0.17098	0.007;0.017;0.007;0.007;0.017	T	0.14504	-1.0470	10	0.25751	T	0.34	-3.7705	7.6019	0.28081	0.2492:0.0:0.7508:0.0	.	61;172;177;172;172	B4DF22;F8VTJ5;Q59G16;Q8TAQ2;Q8TAQ2-2	.;.;.;SMRC2_HUMAN;.	K	172	ENSP00000377591:N172K;ENSP00000449396:N172K;ENSP00000302919:N172K;ENSP00000267064:N172K	ENSP00000267064:N172K	N	-	3	2	SMARCC2	54864272	0.956000	0.32656	0.998000	0.56505	0.994000	0.84299	1.519000	0.35888	1.412000	0.46977	0.561000	0.74099	AAC		0.498	SMARCC2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000408370.1			T	56578005	G	T	56578005	3	4	699	1	0	0	0	0	1	0	0	0	14789	1368	48	4	3317	4	SMARCC2	12	56578005	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	1821356	56578005	77273890	120	45886										
R3HDM2	22864	ucsc.edu;bcgsc.ca	37	chr12	57674168	57674168	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	atcatgtgattattcaagggTggctgttgctgaggcgtggg	16	5	2	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr12:57674168T>C	ENST00000347140.3	-	14	1665	c.1275A>G	c.(1273-1275)ccA>ccG	p.P425P	R3HDM2_ENST00000413953.2_Silent_p.P152P|R3HDM2_ENST00000403821.2_Silent_p.P425P|RP11-123K3.4_ENST00000548184.1_3'UTR|R3HDM2_ENST00000402412.1_Silent_p.P439P|R3HDM2_ENST00000441731.2_Silent_p.P86P|R3HDM2_ENST00000358907.2_Silent_p.P425P			Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2	425	Gln-rich.					nucleus (GO:0005634)	poly(A) RNA binding (GO:0044822)			breast(2)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(3)|ovary(3)|pancreas(1)|prostate(1)|skin(1)|urinary_tract(1)	22						TATTCAAGGGTGGCTGTTGCT	0.542																																																0													197	177	184					12																	57674168		2203	4300	6503	SO:0001819	synonymous_variant	22864			AB023219	CCDS8937.2	12q13.3	2012-11-19			ENSG00000179912	ENSG00000179912			29167	protein-coding gene	gene with protein product							Standard	NM_014925		Approved	KIAA1002	uc009zpm.1	Q9Y2K5	OTTHUMG00000171568	ENST00000347140.3:c.1275A>G	12.37:g.57674168T>C		Somatic		WXS	Illumina HiSeq		Q2M1T9|Q3ZCT5	Silent	SNP	ENST00000347140.3	37	CCDS8937.2	.	.	.	.	.	.	.	.	.	.	T	14.23	2.472998	0.43942	.	.	ENSG00000179912	ENST00000466401	.	.	.	4.8	0.768	0.18487	.	.	.	.	.	T	0.42359	0.1199	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.21999	-1.0229	4	.	.	.	-6.0267	1.5745	0.02621	0.1636:0.1072:0.1705:0.5587	.	.	.	.	R	23	.	.	H	-	2	0	R3HDM2	55960435	0.998000	0.40836	0.998000	0.56505	0.998000	0.95712	0.140000	0.16056	-0.023000	0.13963	0.459000	0.35465	CAC		0.542	R3HDM2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000326570.2	NM_014925		C	57674168	T	C	57674168	2	2	699	1	0	0	0	0	0	0	0	1	12901	1683	59	3		3	R3HDM2	12	57674168	Silent	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	1096163	57674168	76177727	121	45887										
METTL1	25895	broad.mit.edu;bcgsc.ca	37	chr12	58165807	58165807	+	5'Flank	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gagtgagcacgttgccggtaGtagcgcttctggggcggtgg	19	8	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr12:58165807G>A	ENST00000300209.8	+	0	0				METTL1_ENST00000324871.7_Silent_p.Y20Y|METTL21B_ENST00000551420.1_5'Flank|AC025165.1_ENST00000582738.1_RNA|METTL1_ENST00000257848.7_Silent_p.Y20Y|RP11-571M6.15_ENST00000471530.1_5'Flank|METTL1_ENST00000548681.1_5'UTR|METTL21B_ENST00000548256.1_Intron|METTL21B_ENST00000333012.5_5'Flank	NM_015433.2	NP_056248.2	Q96AZ1	MT21B_HUMAN	methyltransferase like 21B							cytoplasm (GO:0005737)|intracellular (GO:0005622)	methyltransferase activity (GO:0008168)			endometrium(1)|lung(1)	2						GTTGCCGGTAGTAGCGCTTCT	0.642																																																0													71	69	70					12																	58165807		2203	4300	6503	SO:0001631	upstream_gene_variant	4234			AL050100, AF455816	CCDS8957.1, CCDS31848.1	12q14.1	2011-03-03	2011-03-03	2011-03-03	ENSG00000123427	ENSG00000123427			24936	protein-coding gene	gene with protein product		615258	"family with sequence similarity 119, member B"	FAM119B		12477932	Standard	NM_015433		Approved	DKFZP586D0919	uc001sqg.3	Q96AZ1	OTTHUMG00000170459		12.37:g.58165807G>A	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H749|Q9Y3W2	Silent	SNP	ENST00000300209.8	37	CCDS8957.1																																																																																				0.642	METTL21B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409268.1	NM_015433		A	58165807	G	A	58165807	1	1	699	0	1	0	0	0	0	0	0	0	9500	1024	36	2		2	METTL1	12	58165807	5'Flank	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	491639	58165807	75686088	122	45888										
APAF1	317	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	99093184	99093184	+	Splice_Site	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tttttattactttaattcaaAgctttgggatgcgacatcag	7	6	2	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr12:99093184A>C	ENST00000551964.1	+	17	3040		c.e17-1		APAF1_ENST00000333991.1_Intron|APAF1_ENST00000339433.3_Splice_Site|APAF1_ENST00000357310.1_Splice_Site|APAF1_ENST00000547045.1_Splice_Site|APAF1_ENST00000552268.1_Intron|APAF1_ENST00000550527.1_Splice_Site|APAF1_ENST00000549007.1_Splice_Site|APAF1_ENST00000359972.2_Splice_Site	NM_181861.1	NP_863651.1	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1						activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|activation of cysteine-type endopeptidase activity involved in apoptotic process by cytochrome c (GO:0008635)|apoptotic process (GO:0006915)|forebrain development (GO:0030900)|intrinsic apoptotic signaling pathway (GO:0097193)|nervous system development (GO:0007399)|neural tube closure (GO:0001843)|neuron apoptotic process (GO:0051402)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|regulation of apoptotic DNA fragmentation (GO:1902510)|regulation of apoptotic process (GO:0042981)|response to G1 DNA damage checkpoint signaling (GO:0072432)	apoptosome (GO:0043293)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	ADP binding (GO:0043531)|ATP binding (GO:0005524)|cysteine-type endopeptidase activator activity involved in apoptotic process (GO:0008656)|nucleotide binding (GO:0000166)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(13)|liver(1)|lung(15)|ovary(2)|prostate(2)|skin(1)	42					Adenosine triphosphate(DB00171)	TTTAATTCAAAGCTTTGGGAT	0.323																																																0													52	51	51					12																	99093184		2203	4300	6503	SO:0001630	splice_region_variant	317			AF013263	CCDS9069.1, CCDS9070.1, CCDS9071.1, CCDS55862.1, CCDS55863.1	12q23	2013-01-10	2006-10-23			ENSG00000120868		"WD repeat domain containing"	576	protein-coding gene	gene with protein product		602233	"apoptotic protease activating factor", "apoptotic peptidase activating factor"			9267021, 10702682	Standard	NM_181861		Approved	CED4, APAF-1	uc001tfz.3	O14727	OTTHUMG00000170214	ENST00000551964.1:c.2305-1A>C	12.37:g.99093184A>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RMX8|O43297|Q7Z438|Q9BXZ6|Q9UBZ5|Q9UGN8|Q9UGN9|Q9UGP0|Q9UJ58|Q9UJ59|Q9UJ60|Q9UJ61|Q9UJ62|Q9UJ63|Q9UJ64|Q9UJ65|Q9UJ66|Q9UJ67|Q9UNC9	Splice_Site	SNP	ENST00000551964.1	37	CCDS9069.1	.	.	.	.	.	.	.	.	.	.	A	14.65	2.598135	0.46318	.	.	ENSG00000120868	ENST00000551964;ENST00000359972;ENST00000357310;ENST00000339433;ENST00000550527;ENST00000547045;ENST00000549007	.	.	.	5.74	5.74	0.90152	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.5583	0.61773	1.0:0.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	APAF1	97617315	1.000000	0.71417	0.949000	0.38748	0.676000	0.39594	7.031000	0.76491	2.186000	0.69663	0.533000	0.62120	.		0.323	APAF1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000408006.1	NM_181861.1	Intron	C	99093184	A	C	99093184	5	2	699	1	0	0	0	0	0	0	1	0	755	86	3	5	2365	5	APAF1	12	99093184	Splice_Site	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	40927377	99093184	34758711	123	45889										
DAO	1610	broad.mit.edu	37	chr12	109290784	109290784	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cctgccctgaatcaacaggtGgacgccccttggatgaagca	11	13	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr12:109290784G>T	ENST00000228476.3	+	8	819	c.615G>T	c.(613-615)gtG>gtT	p.V205V	DAO_ENST00000551281.1_Silent_p.V139V	NM_001917.4	NP_001908.3	P14920	OXDA_HUMAN	D-amino-acid oxidase	205					cellular nitrogen compound metabolic process (GO:0034641)|D-alanine catabolic process (GO:0055130)|D-serine catabolic process (GO:0036088)|D-serine metabolic process (GO:0070178)|dopamine biosynthetic process (GO:0042416)|glyoxylate metabolic process (GO:0046487)|leucine metabolic process (GO:0006551)|proline catabolic process (GO:0006562)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|peroxisomal matrix (GO:0005782)|peroxisomal membrane (GO:0005778)|peroxisome (GO:0005777)	cofactor binding (GO:0048037)|D-amino-acid oxidase activity (GO:0003884)|FAD binding (GO:0071949)|protein dimerization activity (GO:0046983)|receptor binding (GO:0005102)			NS(1)|breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(9)|ovary(1)|prostate(2)|skin(1)	26					Flavin adenine dinucleotide(DB03147)	ATCAACAGGTGGACGCCCCTT	0.542																																																0													134	104	115					12																	109290784		2203	4300	6503	SO:0001819	synonymous_variant	1610			D11370	CCDS9122.1	12q24.11	2013-09-20			ENSG00000110887	ENSG00000110887	1.4.3.3		2671	protein-coding gene	gene with protein product		124050				1356107, 8182053	Standard	NM_001917		Approved	DAMOX	uc001tnr.4	P14920	OTTHUMG00000169360	ENST00000228476.3:c.615G>T	12.37:g.109290784G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2R7I5|Q16758|Q8N6R2	Silent	SNP	ENST00000228476.3	37	CCDS9122.1																																																																																				0.542	DAO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403682.1			T	109290784	G	T	109290784	2	4	699	1	0	0	0	0	0	0	0	1	4233	1335	47	4		4	DAO	12	109290784	Silent	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	10197600	109290784	24561111	124	45890										
LHX5	64211	hgsc.bcm.edu	37	chr12	113901232	113901232	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gcgagcggcggttccagcgcTcccagcggcgtcgagccggg	18	15	0	0	rs202131487	byFrequency	TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr12:113901232T>C	ENST00000261731.3	-	5	1545	c.972A>G	c.(970-972)ggA>ggG	p.G324G		NM_022363.2	NP_071758.1	Q9H2C1	LHX5_HUMAN	LIM homeobox 5	324					cell proliferation in forebrain (GO:0021846)|cerebellar Purkinje cell differentiation (GO:0021702)|cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation (GO:0021937)|forebrain neuron differentiation (GO:0021879)|hippocampus development (GO:0021766)|positive regulation of transcription, DNA-templated (GO:0045893)|spinal cord association neuron differentiation (GO:0021527)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)|zinc ion binding (GO:0008270)			NS(1)|endometrium(2)|large_intestine(1)|lung(4)|prostate(1)|skin(1)	10						GTTCCAGCGCTCCCAGCGGCG	0.736													G|||	18	0.00359425	0.0008	0.0029	5008	,	,		9203	0.001		0.0099	False		,,,				2504	0.0041															0								G		3,4059		0,3,2028	7	10	9		972	-1	1	12		9	56,7872		0,56,3908	no	coding-synonymous	LHX5	NM_022363.2		0,59,5936	CC,CT,TT		0.7064,0.0739,0.4921		324/403	113901232	59,11931	2031	3964	5995	SO:0001819	synonymous_variant	64211			AF291181	CCDS9171.1	12q24.13	2014-01-15			ENSG00000089116	ENSG00000089116		"Homeoboxes / LIM class"	14216	protein-coding gene	gene with protein product		605992					Standard	NM_022363		Approved		uc001tvj.1	Q9H2C1	OTTHUMG00000169552	ENST00000261731.3:c.972A>G	12.37:g.113901232T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q32MA4	Silent	SNP	ENST00000261731.3	37	CCDS9171.1																																																																																				0.736	LHX5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404788.3	NM_022363		C	113901232	T	C	113901232	2	2	699	1	0	0	0	0	0	0	0	1	8781	1538	54	3		3	LHX5	12	113901232	Silent	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	4610448	113901232	19950663	125	45891										
MLEC	9761	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	121132908	121132908	+	Frame_Shift_Del	DEL	A	A	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cttttcctaggggtactatgAcaatcccaaggtctgtgcac							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr12:121132908delA	ENST00000228506.3	+	4	1030	c.602delA	c.(601-603)gacfs	p.D201fs	RP11-173P15.3_ENST00000541383.1_RNA|MLEC_ENST00000412616.2_Intron	NM_014730.2	NP_055545.1	Q14165	MLEC_HUMAN	malectin	201					cellular protein metabolic process (GO:0044267)|post-translational protein modification (GO:0043687)|protein folding (GO:0006457)|protein N-linked glycosylation via asparagine (GO:0018279)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	carbohydrate binding (GO:0030246)|enzyme binding (GO:0019899)	p.D201G(1)		breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(8)|ovary(1)|prostate(1)	16						GGGTACTATGACAATCCCAAG	0.498																																																1	Substitution - Missense(1)	lung(1)											381	352	362					12																	121132908		2203	4300	6503	SO:0001589	frameshift_variant	9761			BC000371	CCDS9206.1	12q24.31	2013-03-06	2008-11-05	2008-11-05	ENSG00000110917	ENSG00000110917			28973	protein-coding gene	gene with protein product	"oligosaccharyltransferase complex subunit (non-catalytic)"	613802	"KIAA0152"	KIAA0152		18524852	Standard	NM_014730		Approved		uc001tyy.1	Q14165	OTTHUMG00000169187	ENST00000228506.3:c.602delA	12.37:g.121132908delA	ENSP00000228506:p.Asp201fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000228506.3	37	CCDS9206.1																																																																																				0.498	MLEC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402781.2	NM_014730		-	121132908	A	-	121132908	7	5	699	1	0	1	0	1	0	0	0	0	9620	275	10	0	616	0	MLEC	12	121132908	Frame_Shift_Del	DEL	A	TCGA-P4-A5EB-01A-11D-A28G-10	7231676	121132908	12718987	126	45892										
CHFR	55743	broad.mit.edu	37	chr12	133430112	133430112	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ggcagtggggaggctgcgccGcctgccttctgtactcagga	16	12	2	0	rs374229656		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr12:133430112G>T	ENST00000432561.2	-	11	1386	c.1313C>A	c.(1312-1314)gCg>gAg	p.A438E	CHFR_ENST00000315585.7_Missense_Mutation_p.A397E|CHFR_ENST00000541837.2_5'UTR|CHFR_ENST00000537522.1_Missense_Mutation_p.A60E|CHFR_ENST00000443047.2_Missense_Mutation_p.A346E|CHFR_ENST00000450056.2_Missense_Mutation_p.A426E|CHFR_ENST00000266880.7_Missense_Mutation_p.A438E			Q96EP1	CHFR_HUMAN	checkpoint with forkhead and ring finger domains, E3 ubiquitin protein ligase	438					mitotic cell cycle checkpoint (GO:0007093)|mitotic nuclear division (GO:0007067)|modification-dependent protein catabolic process (GO:0019941)|protein polyubiquitination (GO:0000209)|ubiquitin-dependent protein catabolic process (GO:0006511)	nucleus (GO:0005634)|PML body (GO:0016605)	ligase activity (GO:0016874)|nucleotide binding (GO:0000166)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(10)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	26	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)		AGGCTGCGCCGCCTGCCTTCT	0.682																																																0													16	16	16					12																	133430112		2126	4164	6290	SO:0001583	missense	55743			AK001658	CCDS31937.1, CCDS53847.1, CCDS53848.1, CCDS53849.1	12q24.33	2012-02-23	2012-02-23			ENSG00000072609		"RING-type (C3HC4) zinc fingers"	20455	protein-coding gene	gene with protein product		605209	"checkpoint with forkhead and ring finger domains"			10935642, 11807090	Standard	NM_001161344		Approved	FLJ10796, RNF196	uc001ulf.2	Q96EP1		ENST00000432561.2:c.1313C>A	12.37:g.133430112G>T	ENSP00000392395:p.Ala438Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEN5|B4DZ77|B4E2L6|Q96SL3|Q9NRT4|Q9NT32|Q9NVD5	Missense_Mutation	SNP	ENST00000432561.2	37	CCDS53849.1	.	.	.	.	.	.	.	.	.	.	G	3.829	-0.036126	0.07497	.	.	ENSG00000072609	ENST00000315585;ENST00000443047;ENST00000450056;ENST00000266880;ENST00000537522;ENST00000541228;ENST00000432561	T;T;T;T;T;T	0.31247	2.47;2.21;2.49;2.19;1.5;2.5	4.39	-5.95	0.02241	.	1.192850	0.05624	N	0.580503	T	0.19967	0.0480	L	0.36672	1.1	0.09310	N	1	B;B;B;B;P	0.35124	0.403;0.009;0.005;0.009;0.485	B;B;B;B;B	0.37692	0.256;0.019;0.009;0.007;0.244	T	0.16571	-1.0398	10	0.27082	T	0.32	-12.7448	3.1221	0.06395	0.367:0.1758:0.3682:0.089	.	346;438;438;426;397	Q96EP1-5;Q96EP1-4;Q96EP1;Q96EP1-2;Q96EP1-3	.;.;CHFR_HUMAN;.;.	E	397;346;426;438;60;238;438	ENSP00000320557:A397E;ENSP00000416431:A346E;ENSP00000398735:A426E;ENSP00000266880:A438E;ENSP00000442327:A60E;ENSP00000392395:A438E	ENSP00000266880:A438E	A	-	2	0	CHFR	131940185	0.000000	0.05858	0.001000	0.08648	0.016000	0.09150	0.254000	0.18314	-1.584000	0.01636	-2.048000	0.00412	GCG		0.682	CHFR-002	NOVEL	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000397130.2			T	133430112	G	T	133430112	3	4	699	1	0	0	0	0	1	0	0	0	3339	1087	38	4	713	4	CHFR	12	133430112	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	12297204	133430112	421783	127	45893										
DCLK1	9201	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	36383187	36383187	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gggaaaccacacagcaggatAtaagtgattacacctgctgc	10	10	0	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr13:36383187A>G	ENST00000360631.3	-	13	1945	c.1734T>C	c.(1732-1734)taT>taC	p.Y578Y	DCLK1_ENST00000255448.4_Silent_p.Y578Y|DCLK1_ENST00000379893.1_Silent_p.Y271Y			O15075	DCLK1_HUMAN	doublecortin-like kinase 1	578	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				axon extension (GO:0048675)|central nervous system development (GO:0007417)|central nervous system projection neuron axonogenesis (GO:0021952)|dendrite morphogenesis (GO:0048813)|endosomal transport (GO:0016197)|forebrain development (GO:0030900)|nervous system development (GO:0007399)|neuron migration (GO:0001764)|protein phosphorylation (GO:0006468)|response to virus (GO:0009615)	integral component of plasma membrane (GO:0005887)	ATP binding (GO:0005524)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)|receptor signaling protein activity (GO:0005057)			breast(2)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(18)|lung(17)|ovary(2)|prostate(3)|skin(4)|stomach(6)|urinary_tract(1)	64		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)		ACAGCAGGATATAAGTGATTA	0.473																																																0													101	88	92					13																	36383187		2203	4300	6503	SO:0001819	synonymous_variant	9201			AB002367	CCDS9354.1, CCDS55895.1, CCDS73561.1	13q13.3	2008-02-05	2007-04-02	2007-04-02	ENSG00000133083	ENSG00000133083			2700	protein-coding gene	gene with protein product		604742	"doublecortin and CaM kinase-like 1"	DCAMKL1		9747029, 10036192	Standard	NM_004734		Approved	KIAA0369, DCLK, DCDC3A	uc001uvf.3	O15075	OTTHUMG00000016729	ENST00000360631.3:c.1734T>C	13.37:g.36383187A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3E9|Q5VZY8|Q5VZZ0|Q5VZZ1	Silent	SNP	ENST00000360631.3	37																																																																																					0.473	DCLK1-010	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000044487.1	NM_004734		G	36383187	A	G	36383187	2	3	699	1	0	0	0	0	0	0	0	1	4293	456	16	3		3	DCLK1	13	36383187	Silent	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10		36383187	78786691	128	45894										
UGGT2	55757	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	96684163	96684163	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ctgtttgcttataaattgctAattcttgcacagtttccaaa	5	8	1	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr13:96684163A>G	ENST00000376747.3	-	2	291	c.221T>C	c.(220-222)tTa>tCa	p.L74S	UGGT2_ENST00000376712.4_Missense_Mutation_p.L74S|UGGT2_ENST00000376714.3_Missense_Mutation_p.L74S|UGGT2_ENST00000397618.3_Missense_Mutation_p.L74S	NM_020121.3	NP_064506.3	Q9NYU1	UGGG2_HUMAN	UDP-glucose glycoprotein glucosyltransferase 2	74					cellular protein metabolic process (GO:0044267)|post-translational protein modification (GO:0043687)|protein folding (GO:0006457)|protein N-linked glycosylation via asparagine (GO:0018279)|UDP-glucosylation (GO:0097359)	endoplasmic reticulum lumen (GO:0005788)	UDP-glucose:glycoprotein glucosyltransferase activity (GO:0003980)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(17)|lung(20)|ovary(3)|pancreas(1)|prostate(4)|urinary_tract(2)	60						ATAAATTGCTAATTCTTGCAC	0.259																																																0													59	62	61					13																	96684163		2198	4277	6475	SO:0001583	missense	55757			AF227906	CCDS9480.1	13q32.1	2009-07-23	2009-07-23	2009-07-23	ENSG00000102595	ENSG00000102595			15664	protein-coding gene	gene with protein product	"UDP-glucose:glycoprotein glucosyltransferase 2"	605898	"UDP-glucose ceramide glucosyltransferase-like 2"	UGCGL2		10694380	Standard	NM_020121		Approved	FLJ11485, HUGT2, FLJ10873, MGC150689, MGC87276, MGC117360	uc001vmt.3	Q9NYU1	OTTHUMG00000017230	ENST00000376747.3:c.221T>C	13.37:g.96684163A>G	ENSP00000365938:p.Leu74Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKL4|Q08AD0|Q5JQR8|Q8N5K0|Q9UFC4	Missense_Mutation	SNP	ENST00000376747.3	37	CCDS9480.1	.	.	.	.	.	.	.	.	.	.	A	18.23	3.578856	0.65878	.	.	ENSG00000102595	ENST00000376747;ENST00000376722;ENST00000376714;ENST00000397618;ENST00000376712	T;T	0.32272	3.07;1.46	5.93	5.93	0.95920	.	0.075675	0.56097	D	0.000039	T	0.61565	0.2357	M	0.84683	2.71	0.53688	D	0.999975	D;D;P	0.89917	1.0;1.0;0.937	D;D;P	0.91635	0.999;0.999;0.512	T	0.67772	-0.5584	10	0.87932	D	0	-7.6383	16.3943	0.83563	1.0:0.0:0.0:0.0	.	74;74;74	Q2TAA6;E7EMU6;Q9NYU1	.;.;UGGG2_HUMAN	S	74	ENSP00000365938:L74S;ENSP00000380743:L74S	ENSP00000365902:L74S	L	-	2	0	UGGT2	95482164	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.701000	0.84566	2.281000	0.76405	0.533000	0.62120	TTA		0.259	UGGT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045507.1	NM_020121		G	96684163	A	G	96684163	3	3	699	1	0	0	0	0	1	0	0	0	16954	372	13	3	4481	3	UGGT2	13	96684163	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	60300976	96684163	18485715	129	45895										
RPGRIP1	57096	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	21769308	21769308	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ttccactgcgtcggccctgcCagcccccgccgcgcccagcc	10	23	0	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr14:21769308C>T	ENST00000400017.2	+	3	402	c.402C>T	c.(400-402)gcC>gcT	p.A134A	RPGRIP1_ENST00000556336.1_Silent_p.A134A|RPGRIP1_ENST00000557771.1_Silent_p.A134A|RPGRIP1_ENST00000206660.6_Silent_p.A134A	NM_020366.3	NP_065099.3	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator interacting protein 1	134					eye photoreceptor cell development (GO:0042462)|response to stimulus (GO:0050896)|retina development in camera-type eye (GO:0060041)|visual perception (GO:0007601)	axoneme (GO:0005930)|nonmotile primary cilium (GO:0031513)				breast(3)|endometrium(2)|kidney(4)|large_intestine(11)|lung(10)|ovary(4)|pancreas(1)|prostate(3)|stomach(1)	39	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		TCGGCCCTGCCAGCCCCCGCC	0.682																																																0													10	14	13					14																	21769308		1990	4127	6117	SO:0001819	synonymous_variant	57096			AF227257	CCDS45080.1	14q11.2	2013-06-06			ENSG00000092200	ENSG00000092200			13436	protein-coding gene	gene with protein product		605446		RPGRIP		10958647, 10958648	Standard	NM_020366		Approved	RGI1, LCA6, CORD13	uc001wag.3	Q96KN7	OTTHUMG00000170758	ENST00000400017.2:c.402C>T	14.37:g.21769308C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z2W6|Q8IXV5|Q96QA8|Q9HB94|Q9HB95|Q9HBK6|Q9NR40	Silent	SNP	ENST00000400017.2	37	CCDS45080.1																																																																																				0.682	RPGRIP1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410258.1	NM_020366		T	21769308	C	T	21769308	2	4	699	1	0	0	0	0	0	0	0	1	13562	581	21	2		2	RPGRIP1	14	21769308	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10		21769308	85580232	130	45896										
OXA1L	9056	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	23240479	23240479	+	IGR	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ttgcttctctttacacaggcTggaaaaatgctgaaatgacg	9	8	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr14:23240479T>A	ENST00000397532.3	-	0	2447				OXA1L_ENST00000604262.1_Missense_Mutation_p.W369R|OXA1L_ENST00000358043.5_Missense_Mutation_p.W353R|OXA1L_ENST00000412791.1_Intron|OXA1L_ENST00000285848.5_Missense_Mutation_p.W429R|SLC7A7_ENST00000554061.1_5'Flank			Q9UM01	YLAT1_HUMAN	solute carrier family 7 (amino acid transporter light chain, y+L system), member 7						amino acid transport (GO:0006865)|blood coagulation (GO:0007596)|cellular amino acid metabolic process (GO:0006520)|ion transport (GO:0006811)|leukocyte migration (GO:0050900)|protein complex assembly (GO:0006461)|transmembrane transport (GO:0055085)|transport (GO:0006810)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	amino acid transmembrane transporter activity (GO:0015171)			breast(2)|central_nervous_system(2)|endometrium(1)|kidney(1)|large_intestine(3)|lung(8)|ovary(1)|skin(2)	20	all_cancers(95;8.44e-05)			GBM - Glioblastoma multiforme(265;0.00741)		TTACACAGGCTGGAAAAATGC	0.473																																																0													61	64	63					14																	23240479		2203	4300	6503	SO:0001628	intergenic_variant	5018			AF092032	CCDS9574.1	14q11.2	2014-09-17	2011-07-12		ENSG00000155465	ENSG00000155465		"Solute carriers"	11065	protein-coding gene	gene with protein product		603593		LPI		9829974	Standard	NM_001126106		Approved	y+LAT-1	uc001wgs.4	Q9UM01	OTTHUMG00000028692		14.37:g.23240479T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RAU0|D3DS26|O95984|Q53XC1|Q86U07|Q9P2V5	Missense_Mutation	SNP	ENST00000397532.3	37	CCDS9574.1	.	.	.	.	.	.	.	.	.	.	T	24.8	4.565970	0.86439	.	.	ENSG00000155463	ENST00000285848;ENST00000358043	T;T	0.34667	1.35;1.4	5.71	5.71	0.89125	.	0.112616	0.64402	D	0.000004	T	0.58750	0.2144	M	0.83012	2.62	0.80722	D	1	P;D	0.65815	0.942;0.995	P;P	0.59012	0.818;0.85	T	0.65619	-0.6124	10	0.87932	D	0	-9.9776	13.4947	0.61419	0.0:0.0:0.0:1.0	.	369;429	Q15070;Q2M1J6	OXA1L_HUMAN;.	R	429;353	ENSP00000285848:W429R;ENSP00000350740:W353R	ENSP00000285848:W429R	W	+	1	0	OXA1L	22310319	1.000000	0.71417	1.000000	0.80357	0.971000	0.66376	5.969000	0.70422	2.162000	0.67917	0.496000	0.49642	TGG		0.473	SLC7A7-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071636.3			A	23240479	T	A	23240479	1	1	699	0	1	0	0	0	0	0	0	0	11335	1580	55	5		5	OXA1L	14	23240479	IGR	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	1471171	23240479	84109061	131	45897										
EFS	10278	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	23828918	23828918	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gggagcctctggccccagcaGaggcacatcgtagatcccct	12	15	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr14:23828918G>A	ENST00000216733.3	-	4	1376	c.769C>T	c.(769-771)Ctg>Ttg	p.L257L	EFS_ENST00000429593.2_Intron|RP11-124D2.3_ENST00000554010.1_RNA|EFS_ENST00000351354.3_Silent_p.L164L	NM_005864.2	NP_005855.1	O43281	EFS_HUMAN	embryonal Fyn-associated substrate	257	Pro-rich.				cell adhesion (GO:0007155)|intracellular signal transduction (GO:0035556)	cytoplasm (GO:0005737)	protein domain specific binding (GO:0019904)			endometrium(2)|kidney(1)|large_intestine(1)|liver(1)|lung(5)|pancreas(1)|prostate(3)|upper_aerodigestive_tract(2)	16	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00649)		GGCCCCAGCAGAGGCACATCG	0.642																																																0													37	45	42					14																	23828918		2203	4300	6503	SO:0001819	synonymous_variant	10278			AB001466	CCDS9595.1, CCDS9596.1, CCDS61404.1	14q11.2-q12	2011-04-13			ENSG00000100842	ENSG00000100842		"Cas scaffolding proteins"	16898	protein-coding gene	gene with protein product	"Cas scaffolding protein family member 3"	609906				9349509	Standard	NM_005864		Approved	EFS2, EFS1, HEFS, SIN, CASS3	uc001wjo.4	O43281	OTTHUMG00000028741	ENST00000216733.3:c.769C>T	14.37:g.23828918G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RAJ7|B4DJ56|E9PGU2|O43282	Silent	SNP	ENST00000216733.3	37	CCDS9595.1																																																																																				0.642	EFS-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000071770.2			A	23828918	G	A	23828918	2	1	699	1	0	0	0	0	0	0	0	1	4961	933	33	2		2	EFS	14	23828918	Silent	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	588439	23828918	83520622	132	45898										
PPIL5	122769	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	50081041	50081041	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tggataccgcaaaaatttgtGtttgtggaagattctgtctg	11	5	2	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr14:50081041G>T	ENST00000298288.6	+	4	1396	c.1072G>T	c.(1072-1074)Gtt>Ttt	p.V358F	LRR1_ENST00000318317.4_Missense_Mutation_p.C117F	NM_152329.3	NP_689542.2	Q96L50	LLR1_HUMAN	leucine rich repeat protein 1	358					protein ubiquitination (GO:0016567)					kidney(2)|large_intestine(1)|lung(5)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11						AAAAATTTGTGTTTGTGGAAG	0.368																																																0													117	111	113					14																	50081041		2203	4300	6503	SO:0001583	missense	122769			BC030142	CCDS9686.1, CCDS9687.1	14q21.3	2011-02-02	2011-02-02	2011-02-02	ENSG00000165501	ENSG00000165501			19742	protein-coding gene	gene with protein product	"LRR-repeat protein 1"	609193	"peptidylprolyl isomerase (cyclophilin)-like 5"	PPIL5		11804328, 21074724	Standard	NR_037792		Approved	MGC20689, LRR-1	uc001wwn.3	Q96L50	OTTHUMG00000140273	ENST00000298288.6:c.1072G>T	14.37:g.50081041G>T	ENSP00000298288:p.Val358Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A5D6X3|B4DDE0|Q52M24|Q86SZ1|Q8N6H9	Missense_Mutation	SNP	ENST00000298288.6	37	CCDS9686.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	12.98|12.98	2.100514|2.100514	0.37048|0.37048	.|.	.|.	ENSG00000165501|ENSG00000165501	ENST00000318317|ENST00000298288	.|T	.|0.42513	.|0.97	5.55|5.55	3.74|3.74	0.42951|0.42951	.|.	.|0.342603	.|0.30820	.|N	.|0.008808	T|T	0.29850|0.29850	0.0746|0.0746	L|L	0.48642|0.48642	1.525|1.525	0.23050|0.23050	N|N	0.998374|0.998374	P|P	0.48503|0.37864	0.911|0.61	B|B	0.42282|0.30646	0.382|0.118	T|T	0.12785|0.12785	-1.0534|-1.0534	7|10	.|0.33940	.|T	.|0.23	-1.8537|-1.8537	8.4558|8.4558	0.32899|0.32899	0.149:0.1617:0.6893:0.0|0.149:0.1617:0.6893:0.0	.|.	117|358	Q96L50-2|Q96L50	.|LLR1_HUMAN	F|F	117|358	.|ENSP00000298288:V358F	.|ENSP00000298288:V358F	C|V	+|+	2|1	0|0	LRR1|LRR1	49150791|49150791	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.566000|0.566000	0.35808|0.35808	4.799000|4.799000	0.62517|0.62517	0.839000|0.839000	0.34971|0.34971	-0.142000|-0.142000	0.14014|0.14014	TGT|GTT		0.368	LRR1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000410790.1	NM_203467		T	50081041	G	T	50081041	3	4	699	1	0	0	0	0	1	0	0	0	12340	1377	48	4	1086	4	PPIL5	14	50081041	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	26252123	50081041	57268499	133	45899										
PPP2R5E	5529	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	63881922	63881922	+	Frame_Shift_Del	DEL	A	A	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gttggaattcttggctttccAaaaatcgtatgaaaaattca							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr14:63881922delA	ENST00000337537.3	-	5	1087	c.485delT	c.(484-486)ttgfs	p.L162fs	PPP2R5E_ENST00000555899.1_Frame_Shift_Del_p.L162fs|PPP2R5E_ENST00000553266.1_5'UTR|PPP2R5E_ENST00000422769.2_Frame_Shift_Del_p.L86fs	NM_001282179.1|NM_001282180.1|NM_001282181.1|NM_001282182.1|NM_006246.2	NP_001269108.1|NP_001269109.1|NP_001269110.1|NP_001269111.1|NP_006237.1	Q16537	2A5E_HUMAN	protein phosphatase 2, regulatory subunit B', epsilon isoform	162					regulation of catalytic activity (GO:0050790)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|protein phosphatase type 2A complex (GO:0000159)	protein phosphatase type 2A regulator activity (GO:0008601)			endometrium(1)|large_intestine(2)|lung(5)|ovary(1)|pancreas(1)|prostate(3)|skin(1)|soft_tissue(1)	15				OV - Ovarian serous cystadenocarcinoma(108;0.00197)|all cancers(60;0.0153)|BRCA - Breast invasive adenocarcinoma(234;0.128)		TTGGCTTTCCAAAAATCGTAT	0.313																																																0													87	91	90					14																	63881922		2202	4298	6500	SO:0001589	frameshift_variant	5529			L76703	CCDS9758.1, CCDS61467.1, CCDS61468.1	14q23.2	2010-06-18	2007-01-22		ENSG00000154001	ENSG00000154001		"Serine/threonine phosphatases / Protein phosphatase 2, regulatory subunits"	9313	protein-coding gene	gene with protein product		601647	"protein phosphatase 2, regulatory subunit B (B56), epsilon isoform"			7592815	Standard	NM_006246		Approved		uc001xgd.1	Q16537	OTTHUMG00000140341	ENST00000337537.3:c.485delT	14.37:g.63881922delA	ENSP00000337641:p.Leu162fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4FU37|B7ZAW5|B7ZKK8|B7ZKK9|J3KQN6|Q52LW4	Frame_Shift_Del	DEL	ENST00000337537.3	37	CCDS9758.1																																																																																				0.313	PPP2R5E-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000276973.1	NM_006246		-	63881922	A	-	63881922	7	5	699	1	0	1	0	1	0	0	0	0	12406	131	5	0	958	0	PPP2R5E	14	63881922	Frame_Shift_Del	DEL	A	TCGA-P4-A5EB-01A-11D-A28G-10	13800881	63881922	43467618	134	45900										
FAM164C	79696	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	75537677	75537677	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ctttacaaagaaacgagttgGagtggaccgggcgttcccat	12	9	0	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr14:75537677G>T	ENST00000524913.1	+	2	890	c.401G>T	c.(400-402)gGa>gTa	p.G134V	ZC2HC1C_ENST00000526748.1_Intron|ZC2HC1C_ENST00000439583.2_Missense_Mutation_p.G134V|ZC2HC1C_ENST00000238686.8_Missense_Mutation_p.G134V|ACYP1_ENST00000555463.1_5'Flank	NM_024643.2	NP_078919.2	Q53FD0	ZC21C_HUMAN	zinc finger, C2HC-type containing 1C	134							metal ion binding (GO:0046872)										AAACGAGTTGGAGTGGACCGG	0.522																																																0													98	96	97					14																	75537677		1869	4100	5969	SO:0001583	missense	79696			AK026746	CCDS41972.1, CCDS45138.1	14q24.3	2013-01-10	2012-02-03	2012-02-03	ENSG00000119703	ENSG00000119703		"Zinc fingers, C2HC-type containing"	20354	protein-coding gene	gene with protein product			"chromosome 14 open reading frame 140", "family with sequence similarity 164, member C"	C14orf140, FAM164C			Standard	XM_005268062		Approved		uc001xrh.3	Q53FD0	OTTHUMG00000167439	ENST00000524913.1:c.401G>T	14.37:g.75537677G>T	ENSP00000435550:p.Gly134Val	Somatic		WXS	Illumina HiSeq	Phase_I	E9PJQ0|Q9BTA8|Q9H5S9	Missense_Mutation	SNP	ENST00000524913.1	37	CCDS41972.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	15.02|15.02	2.709290|2.709290	0.48517|0.48517	.|.	.|.	ENSG00000119703|ENSG00000119703	ENST00000532198|ENST00000524913;ENST00000238686;ENST00000554763;ENST00000439583;ENST00000526130	.|T	.|0.76578	.|-1.03	4.53|4.53	4.53|4.53	0.55603|0.55603	.|.	.|0.080328	.|0.49916	.|D	.|0.000121	.|D	.|0.87111	.|0.6096	M|M	0.72118|0.72118	2.19|2.19	0.80722|0.80722	D|D	1|1	.|D;D	.|0.89917	.|1.0;1.0	.|D;D	.|0.97110	.|1.0;0.997	.|D	.|0.87264	.|0.2281	.|9	.|.	.|.	.|.	-17.5211|-17.5211	17.4741|17.4741	0.87655|0.87655	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|134;134	.|Q53FD0;E9PJQ0	.|F164C_HUMAN;.	X|V	1|134	.|ENSP00000435550:G134V	.|.	E|G	+|+	1|2	0|0	FAM164C|FAM164C	74607430|74607430	1.000000|1.000000	0.71417|0.71417	0.996000|0.996000	0.52242|0.52242	0.325000|0.325000	0.28411|0.28411	6.888000|6.888000	0.75622|0.75622	2.356000|2.356000	0.79943|0.79943	0.557000|0.557000	0.71058|0.71058	GAG|GGA		0.522	ZC2HC1C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000394616.4	NM_001042430		T	75537677	G	T	75537677	3	4	699	1	0	0	0	0	1	0	0	0	5483	1174	41	4	403	4	FAM164C	14	75537677	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	11655755	75537677	31811863	135	45901										
KIAA1737	85457	broad.mit.edu	37	chr14	77580242	77580242	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ctcccagtctgaccttcgctTcccccgccagtcctgtctgc	7	20	2	1	rs74069038		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr14:77580242T>C	ENST00000361786.2	+	4	1098	c.781T>C	c.(781-783)Tcc>Ccc	p.S261P	RP11-463C8.4_ENST00000557752.1_Intron	NM_033426.2	NP_219494.2	Q9C0C6	CIPC_HUMAN		261					negative regulation of circadian rhythm (GO:0042754)|negative regulation of transcription, DNA-templated (GO:0045892)|rhythmic process (GO:0048511)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)				endometrium(2)|lung(4)|prostate(3)	9			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0284)		GACCTTCGCTTCCCCCGCCAG	0.562																																																0													88	74	79					14																	77580242		2203	4300	6503	SO:0001583	missense	85457																														ENST00000361786.2:c.781T>C	14.37:g.77580242T>C	ENSP00000355319:p.Ser261Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RCI1|Q8N389|Q8NDZ1	Missense_Mutation	SNP	ENST00000361786.2	37	CCDS9855.1	.	.	.	.	.	.	.	.	.	.	T	15.35	2.807816	0.50421	.	.	ENSG00000198894	ENST00000361786	T	0.32988	1.43	5.58	2.99	0.34606	.	0.707769	0.14711	N	0.302928	T	0.30103	0.0754	L	0.51422	1.61	0.19300	N	0.999979	P;P	0.34757	0.467;0.467	B;B	0.37888	0.26;0.133	T	0.13710	-1.0499	10	0.42905	T	0.14	-7.2446	10.5458	0.45060	0.0:0.0:0.3101:0.6899	.	261;163	Q9C0C6;B3KU75	K1737_HUMAN;.	P	261	ENSP00000355319:S261P	ENSP00000355319:S261P	S	+	1	0	KIAA1737	76649995	0.055000	0.20627	0.472000	0.27241	0.974000	0.67602	1.196000	0.32198	1.019000	0.39547	0.454000	0.30748	TCC		0.562	KIAA1737-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414278.1			C	77580242	T	C	77580242	3	2	699	1	0	0	0	0	1	0	0	0	8262	1783	62	3	791	3	KIAA1737	14	77580242	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	2042565	77580242	29769298	136	45902										
DYNC1H1	1778	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	102478240	102478240	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gctctatcagatcacccagaTcaatcatggcctgatgatgg	9	11	5	4			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr14:102478240T>C	ENST00000360184.4	+	33	6811	c.6647T>C	c.(6646-6648)aTc>aCc	p.I2216T		NM_001376.4	NP_001367.2	Q14204	DYHC1_HUMAN	dynein, cytoplasmic 1, heavy chain 1	2216	AAA 2. {ECO:0000250}.				antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|cell death (GO:0008219)|cytoplasmic mRNA processing body assembly (GO:0033962)|G2/M transition of mitotic cell cycle (GO:0000086)|microtubule-based movement (GO:0007018)|mitotic cell cycle (GO:0000278)|mitotic spindle organization (GO:0007052)|stress granule assembly (GO:0034063)|transport (GO:0006810)	centrosome (GO:0005813)|cytoplasmic dynein complex (GO:0005868)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|filopodium (GO:0030175)|membrane (GO:0016020)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)|poly(A) RNA binding (GO:0044822)			NS(1)|biliary_tract(1)|breast(4)|central_nervous_system(5)|cervix(1)|endometrium(21)|haematopoietic_and_lymphoid_tissue(3)|kidney(10)|large_intestine(28)|lung(60)|ovary(9)|pancreas(1)|prostate(6)|skin(7)|stomach(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	166						ATCACCCAGATCAATCATGGC	0.602																																																0													86	74	78					14																	102478240		2203	4300	6503	SO:0001583	missense	1778			AB002323	CCDS9966.1	14q32.31	2006-12-21	2005-11-24	2005-11-24		ENSG00000197102		"Cytoplasmic dyneins"	2961	protein-coding gene	gene with protein product		600112	"dynein, cytoplasmic, heavy polypeptide 1"	DNECL, DNCL, DNCH1		16260502, 8666668	Standard	NM_001376		Approved	Dnchc1, HL-3, p22, DHC1	uc001yks.2	Q14204		ENST00000360184.4:c.6647T>C	14.37:g.102478240T>C	ENSP00000348965:p.Ile2216Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B0I1R0|Q6DKQ7|Q8WU28|Q92814|Q9Y4G5	Missense_Mutation	SNP	ENST00000360184.4	37	CCDS9966.1	.	.	.	.	.	.	.	.	.	.	T	18.82	3.705776	0.68615	.	.	ENSG00000197102	ENST00000360184	T	0.27402	1.67	5.8	5.8	0.92144	ATPase, AAA+ type, core (1);	0.000000	0.85682	D	0.000000	T	0.33265	0.0857	L	0.44542	1.39	0.80722	D	1	P	0.45348	0.856	P	0.44394	0.448	T	0.03423	-1.1038	10	0.40728	T	0.16	.	16.1547	0.81649	0.0:0.0:0.0:1.0	.	2216	Q14204	DYHC1_HUMAN	T	2216	ENSP00000348965:I2216T	ENSP00000348965:I2216T	I	+	2	0	DYNC1H1	101547993	1.000000	0.71417	0.998000	0.56505	0.984000	0.73092	7.991000	0.88244	2.221000	0.72209	0.528000	0.53228	ATC		0.602	DYNC1H1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414574.1	NM_001376		C	102478240	T	C	102478240	3	2	699	1	0	0	0	0	1	0	0	0	4843	1435	50	3	6777	3	DYNC1H1	14	102478240	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	24897998	102478240	4871300	137	45903										
PACS2	23241	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	105833603	105833603	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ctgagcctctgcagcagcatCaaggaggcccccgtcaaggc	12	15	3	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr14:105833603C>T	ENST00000325438.8	+	5	981	c.477C>T	c.(475-477)atC>atT	p.I159I	PACS2_ENST00000430725.2_Silent_p.I92I|PACS2_ENST00000547217.1_Silent_p.I129I|PACS2_ENST00000458164.2_Silent_p.I159I|PACS2_ENST00000447393.1_Silent_p.I159I			Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	159					apoptotic process (GO:0006915)|autophagic vacuole assembly (GO:0000045)|protein localization to pre-autophagosomal structure (GO:0034497)|protein targeting to plasma membrane (GO:0072661)|viral process (GO:0016032)	endoplasmic reticulum (GO:0005783)|mitochondrion (GO:0005739)				endometrium(2)|kidney(2)|lung(7)|ovary(3)|pancreas(1)|prostate(2)|skin(3)|urinary_tract(1)	21		all_cancers(154;0.0351)|all_epithelial(191;0.153)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)|Epithelial(46;0.036)	Epithelial(152;0.138)		GCAGCAGCATCAAGGAGGCCC	0.647																																																0													51	56	54					14																	105833603		2203	4300	6503	SO:0001819	synonymous_variant	23241			AB011174	CCDS32168.1, CCDS45178.1, CCDS45178.2, CCDS58339.1	14q32	2005-02-15	2005-02-15	2005-02-15		ENSG00000179364			23794	protein-coding gene	gene with protein product		610423	"phosphofurin acidic cluster sorting protein 1-like"	PACS1L		15692567	Standard	NM_001100913		Approved	KIAA0602	uc001yqu.3	Q86VP3	OTTHUMG00000170450	ENST00000325438.8:c.477C>T	14.37:g.105833603C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2VDJ9|G8JLK3|O60342|Q6P191|Q96FL7	Silent	SNP	ENST00000325438.8	37	CCDS32168.1																																																																																				0.647	PACS2-003	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000409209.1	XM_377355		T	105833603	C	T	105833603	2	4	699	1	0	0	0	0	0	0	0	1	11380	816	29	2		2	PACS2	14	105833603	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	3355363	105833603	1515937	138	45904										
HERC2	8924	broad.mit.edu;ucsc.edu	37	chr15	28437274	28437274	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cttcagctgttttccagaacGgccacaaaataccgcagact	7	13	1	2	rs543946257		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr15:28437274G>C	ENST00000261609.7	-	53	8392	c.8284C>G	c.(8284-8286)Cgt>Ggt	p.R2762G		NM_004667.5	NP_004658.3			HECT and RLD domain containing E3 ubiquitin protein ligase 2									p.R2762G(3)		NS(1)|autonomic_ganglia(1)|breast(3)|central_nervous_system(3)|cervix(3)|endometrium(20)|kidney(11)|large_intestine(33)|lung(95)|ovary(7)|prostate(8)|skin(7)|upper_aerodigestive_tract(8)|urinary_tract(4)	204		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)		TTTCCAGAACGGCCACAAAAT	0.493											OREG0022997	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	G|||	1	0.000199681	0.0008	0.0	5008	,	,		17962	0.0		0.0	False		,,,				2504	0.0															3	Substitution - Missense(3)	ovary(1)|NS(1)|central_nervous_system(1)											97	96	96					15																	28437274		2203	4300	6503	SO:0001583	missense	8924			AF071172	CCDS10021.1	15q13	2012-02-23	2012-02-23		ENSG00000128731	ENSG00000128731			4868	protein-coding gene	gene with protein product		605837	"hect domain and RLD 2"			9949213	Standard	NM_004667		Approved	jdf2, p528, D15F37S1	uc001zbj.4	O95714	OTTHUMG00000129251	ENST00000261609.7:c.8284C>G	15.37:g.28437274G>C	ENSP00000261609:p.Arg2762Gly	Somatic	801	WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000261609.7	37	CCDS10021.1	.	.	.	.	.	.	.	.	.	.	G	19.69	3.874685	0.72180	.	.	ENSG00000128731	ENST00000261609	T	0.62788	0.0	5.67	5.67	0.87782	Anaphase-promoting complex, subunit 10/DOC domain (1);Galactose-binding domain-like (1);	0.054132	0.85682	D	0.000000	T	0.77157	0.4089	L	0.53249	1.67	0.80722	D	1	D;D	0.69078	0.997;0.987	D;D	0.76071	0.987;0.953	T	0.77861	-0.2430	10	0.72032	D	0.01	.	19.7646	0.96335	0.0:0.0:1.0:0.0	.	229;2762	A8KAQ8;O95714	.;HERC2_HUMAN	G	2762	ENSP00000261609:R2762G	ENSP00000261609:R2762G	R	-	1	0	HERC2	26110869	1.000000	0.71417	1.000000	0.80357	0.978000	0.69477	9.808000	0.99193	2.675000	0.91044	0.471000	0.43371	CGT		0.493	HERC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251358.2	NM_004667		C	28437274	G	C	28437274	3	2	699	1	0	0	0	0	1	0	0	0	7065	1116	39	4	6384	4	HERC2	15	28437274	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10		28437274	74094118	139	45905										
TRIM69	140691	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	45048565	45048565	+	Splice_Site	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	aattctatttgatattcccaGgaggagcttgccatccaaca	7	10	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr15:45048565G>C	ENST00000559390.1	+	4	1411		c.e4-1		TRIM69_ENST00000558173.1_Splice_Site|TRIM69_ENST00000558329.1_Splice_Site|TRIM69_ENST00000329464.4_Splice_Site|TRIM69_ENST00000560442.1_Splice_Site|TRIM69_ENST00000561043.1_Splice_Site|TRIM69_ENST00000338264.4_Splice_Site			Q86WT6	TRI69_HUMAN	tripartite motif containing 69						apoptotic process (GO:0006915)	cytoplasm (GO:0005737)|nuclear speck (GO:0016607)|nucleus (GO:0005634)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(6)|lung(9)|skin(1)	20		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)		GATATTCCCAGGAGGAGCTTG	0.488																																					Pancreas(84;519 1450 1802 20427 34706)											0													41	39	40					15																	45048565		1927	3624	5551	SO:0001630	splice_region_variant	140691			AF302088	CCDS10114.1, CCDS32220.1, CCDS73719.1	15q15-q21	2013-01-09	2011-01-25	2006-09-26	ENSG00000185880	ENSG00000185880		"RING-type (C3HC4) zinc fingers", "Tripartite motif containing / Tripartite motif containing"	17857	protein-coding gene	gene with protein product			"ring finger protein 36", "tripartite motif-containing 69"	RNF36			Standard	XM_005254162		Approved	Trif, TRIMLESS	uc001zug.1	Q86WT6	OTTHUMG00000131246	ENST00000559390.1:c.484-1G>C	15.37:g.45048565G>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8MX03|Q309B0|Q4G1A5|Q6W897|Q8IYY3|Q8WY16|Q8WY17	Splice_Site	SNP	ENST00000559390.1	37	CCDS32220.1	.	.	.	.	.	.	.	.	.	.	G	10.44	1.350808	0.24512	.	.	ENSG00000185880	ENST00000329464;ENST00000338264	.	.	.	5.34	4.43	0.53597	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	11.9849	0.53142	0.0847:0.0:0.9153:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	TRIM69	42835857	1.000000	0.71417	0.995000	0.50966	0.200000	0.23975	4.849000	0.62882	1.391000	0.46566	0.655000	0.94253	.		0.488	TRIM69-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416171.1		Intron	C	45048565	G	C	45048565	5	2	699	1	0	0	0	0	0	0	1	0	16554	1014	35	4	493	4	TRIM69	15	45048565	Splice_Site	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	16611291	45048565	57482827	140	45906										
FBN1	2200	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	48748937	48748937	+	Silent	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ccattttcacagacccctggGatctcccggcactcatcaat	6	16	4	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr15:48748937G>T	ENST00000316623.5	-	44	5774	c.5319C>A	c.(5317-5319)atC>atA	p.I1773I		NM_000138.4	NP_000129	P35555	FBN1_HUMAN	fibrillin 1	1773	EGF-like 29; calcium-binding. {ECO:0000255|PROSITE-ProRule:PRU00076}.				extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|heart development (GO:0007507)|kidney development (GO:0001822)|sequestering of BMP in extracellular matrix (GO:0035582)|sequestering of TGFbeta in extracellular matrix (GO:0035583)|skeletal system development (GO:0001501)	basement membrane (GO:0005604)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|microfibril (GO:0001527)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|extracellular matrix structural constituent (GO:0005201)			NS(1)|breast(5)|cervix(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(4)|kidney(6)|large_intestine(43)|liver(1)|lung(49)|ovary(4)|pancreas(1)|prostate(9)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	139		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		AGACCCCTGGGATCTCCCGGC	0.468																																																0													112	99	103					15																	48748937		2198	4296	6494	SO:0001819	synonymous_variant	2200			X63556	CCDS32232.1	15q21.1	2014-09-17	2006-04-25			ENSG00000166147			3603	protein-coding gene	gene with protein product	"Marfan syndrome"	134797	"fibrillin 1 (Marfan syndrome)"	FBN, MFS1, WMS		10036187, 12525539	Standard	NM_000138		Approved	MASS, OCTD, SGS	uc001zwx.2	P35555		ENST00000316623.5:c.5319C>A	15.37:g.48748937G>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RUU0|D2JYH6|Q15972|Q75N87	Silent	SNP	ENST00000316623.5	37	CCDS32232.1																																																																																				0.468	FBN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000417355.1			T	48748937	G	T	48748937	2	4	699	1	0	0	0	0	0	0	0	1	5709	1164	41	4		4	FBN1	15	48748937	Silent	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	3700372	48748937	53782455	141	45907										
CILP	8483	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	65494241	65494241	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	agctgggcaaccttggacttCacagccccagcatcactctg	9	15	3	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr15:65494241C>A	ENST00000261883.4	-	8	1321	c.1155G>T	c.(1153-1155)gtG>gtT	p.V385V		NM_003613.3	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein, nucleotide pyrophosphohydrolase	385	Ig-like C2-type.				negative regulation of insulin-like growth factor receptor signaling pathway (GO:0043569)	extracellular matrix (GO:0031012)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|proteinaceous extracellular matrix (GO:0005578)				breast(5)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(14)|lung(17)|ovary(4)|pancreas(2)|prostate(4)|skin(2)|urinary_tract(1)	55						CCTTGGACTTCACAGCCCCAG	0.587																																																0													74	66	68					15																	65494241		2202	4299	6501	SO:0001819	synonymous_variant	8483			AY358904	CCDS10203.1	15q22	2013-01-14			ENSG00000138615	ENSG00000138615		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	1980	protein-coding gene	gene with protein product		603489				9722584, 9722583	Standard	NM_003613		Approved	HsT18872	uc002aon.2	O75339	OTTHUMG00000133140	ENST00000261883.4:c.1155G>T	15.37:g.65494241C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R8F7|Q6UW99|Q8IYI5	Silent	SNP	ENST00000261883.4	37	CCDS10203.1																																																																																				0.587	CILP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256829.1	NM_003613		A	65494241	C	A	65494241	2	1	699	1	0	0	0	0	0	0	0	1	3431	813	29	4		4	CILP	15	65494241	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	16745304	65494241	37037151	142	45908										
SV2B	9899	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr15	91811781	91811781	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gcatgtgtacggcgccacaaTcaacttcacgatggaaaatc	9	11	2	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr15:91811781T>A	ENST00000394232.1	+	9	1789	c.1319T>A	c.(1318-1320)aTc>aAc	p.I440N	SV2B_ENST00000545111.2_Missense_Mutation_p.I289N|SV2B_ENST00000330276.4_Missense_Mutation_p.I440N	NM_014848.4	NP_055663.1	Q7L1I2	SV2B_HUMAN	synaptic vesicle glycoprotein 2B	440					neurotransmitter transport (GO:0006836)	cell junction (GO:0030054)|integral component of membrane (GO:0016021)|synaptic vesicle (GO:0008021)	transmembrane transporter activity (GO:0022857)			NS(1)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(10)|lung(17)|ovary(4)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	42	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)			GGCGCCACAATCAACTTCACG	0.428																																																0													139	136	137					15																	91811781		2198	4298	6496	SO:0001583	missense	9899			AB018278	CCDS10370.1, CCDS53972.1	15q26.1	2005-01-10			ENSG00000185518	ENSG00000185518			16874	protein-coding gene	gene with protein product		185861				9872452, 7681585	Standard	NM_014848		Approved	KIAA0735, HsT19680	uc002bqv.3	Q7L1I2	OTTHUMG00000149833	ENST00000394232.1:c.1319T>A	15.37:g.91811781T>A	ENSP00000377779:p.Ile440Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B4DH30|C6G489|O94840|Q6IAR8	Missense_Mutation	SNP	ENST00000394232.1	37	CCDS10370.1	.	.	.	.	.	.	.	.	.	.	T	24.7	4.561903	0.86335	.	.	ENSG00000185518	ENST00000545111;ENST00000394232;ENST00000330276	T;T;T	0.61980	0.06;0.06;0.06	5.49	5.49	0.81192	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.043947	0.85682	D	0.000000	T	0.55273	0.1910	L	0.34521	1.04	0.43761	D	0.99627	P	0.41159	0.74	B	0.43386	0.418	T	0.52260	-0.8599	10	0.24483	T	0.36	-35.1417	14.7146	0.69257	0.0:0.0:0.0:1.0	.	440	Q7L1I2	SV2B_HUMAN	N	289;440;440	ENSP00000443243:I289N;ENSP00000377779:I440N;ENSP00000332818:I440N	ENSP00000332818:I440N	I	+	2	0	SV2B	89612785	1.000000	0.71417	1.000000	0.80357	0.906000	0.53458	7.750000	0.85110	2.212000	0.71576	0.533000	0.62120	ATC		0.428	SV2B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313494.3	NM_014848		A	91811781	T	A	91811781	3	1	699	1	0	0	0	0	1	0	0	0	15430	1435	50	5	1349	5	SV2B	15	91811781	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	26317540	91811781	10719611	143	45909										
PGPEP1L	145814	hgsc.bcm.edu	37	chr15	99544418	99544418	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	aagaactgtaacactcaccaCgagagtccgcggcttcattc	8	13	2	2	rs149174294	byFrequency	TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr15:99544418C>T	ENST00000378919.6	-	2	224	c.19G>A	c.(19-21)Gtg>Atg	p.V7M	PGPEP1L_ENST00000535714.1_Intron|RP11-654A16.3_ENST00000559468.1_RNA	NM_001102612.2	NP_001096082.2	A6NFU8	PGPIL_HUMAN	pyroglutamyl-peptidase I-like	7							cysteine-type peptidase activity (GO:0008234)			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(2)|skin(1)|stomach(1)	14						acactcaccacgagagtccgc	0.458													C|||	773	0.154353	0.0469	0.17	5008	,	,		20819	0.3502		0.0457	False		,,,				2504	0.1984															0													1	1	1					15																	99544418		193	151	344	SO:0001583	missense	145814				CCDS53977.1, CCDS58400.1	15q26.3	2010-02-16			ENSG00000183571	ENSG00000183571			27080	protein-coding gene	gene with protein product							Standard	NM_001102612		Approved		uc002bum.3	A6NFU8		ENST00000378919.6:c.19G>A	15.37:g.99544418C>T	ENSP00000368199:p.Val7Met	Somatic		WXS	Illumina HiSeq	Phase_I	H0YF86	Missense_Mutation	SNP	ENST00000378919.6	37	CCDS53977.1	325	0.1488095238095238	28	0.056910569105691054	49	0.13535911602209943	211	0.3688811188811189	37	0.048812664907651716	C	1.763	-0.486281	0.04352	.	.	ENSG00000183571	ENST00000378919	T	0.31510	1.49	.	.	.	.	.	.	.	.	T	0.00012	0.0000	N	0.08118	0	0.80722	P	0.0	B	0.09022	0.002	B	0.01281	0.0	T	0.45190	-0.9278	6	0.49607	T	0.09	-8.6959	.	.	.	.	7	A6NFU8	PGPIL_HUMAN	M	7	ENSP00000368199:V7M	ENSP00000368199:V7M	V	-	1	0	PGPEP1L	97361941	0.007000	0.16637	0.018000	0.16275	0.019000	0.09904	0.145000	0.16157	0.119000	0.18210	0.121000	0.15741	GTG		0.458	PGPEP1L-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000415703.1	NM_001102612.2		T	99544418	C	T	99544418	3	4	699	1	0	0	0	0	1	0	0	0	11811	536	19	1	587	1	PGPEP1L	15	99544418	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	7732637	99544418	2986974	144	45910										
WFIKKN1	117166	broad.mit.edu	37	chr16	683832	683832	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	atgggcctcaagttcttgggCaccaagtacctggaggtgac	13	10	2	1	rs541743223		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr16:683832C>A	ENST00000319070.2	+	2	1744	c.1422C>A	c.(1420-1422)ggC>ggA	p.G474G		NM_053284.2	NP_444514.1	Q96NZ8	WFKN1_HUMAN	WAP, follistatin/kazal, immunoglobulin, kunitz and netrin domain containing 1	474	NTR. {ECO:0000255|PROSITE- ProRule:PRU00295}.				muscle fiber development (GO:0048747)|negative regulation of DNA binding (GO:0043392)|negative regulation of protein binding (GO:0032091)|palate development (GO:0060021)|skeletal system development (GO:0001501)	extracellular region (GO:0005576)	metalloendopeptidase inhibitor activity (GO:0008191)|serine-type endopeptidase inhibitor activity (GO:0004867)			breast(1)|endometrium(1)|prostate(1)|upper_aerodigestive_tract(1)	4		Hepatocellular(780;0.00335)				AGTTCTTGGGCACCAAGTACC	0.677																																																0													76	42	53					16																	683832		2178	4291	6469	SO:0001819	synonymous_variant	117166			AK075356	CCDS10414.1	16p13	2013-01-21			ENSG00000127578	ENSG00000127578		"Immunoglobulin superfamily / I-set domain containing", "WAP four-disulfide core domain containing"	30912	protein-coding gene	gene with protein product	"WAP four-disulfide core domain 20A"	608021	"chromosome 16 open reading frame 12"	C16orf12		11274388, 11928817	Standard	NM_053284		Approved	RJD2, WFIKKN, WFDC20A	uc002cht.1	Q96NZ8	OTTHUMG00000090359	ENST00000319070.2:c.1422C>A	16.37:g.683832C>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q7LDW0|Q8NBQ1|Q96S20	Silent	SNP	ENST00000319070.2	37	CCDS10414.1																																																																																				0.677	WFIKKN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206731.2	NM_053284		A	683832	C	A	683832	2	1	699	1	0	0	0	0	0	0	0	1	17370	697	25	4		4	WFIKKN1	16	683832	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10		683832	89670921	145	45911										
RPL3L	6123	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	1995884	1995884	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gtaccagcaatacaacccttCagcatgacgaagtcgttgtt	8	11	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr16:1995884C>T	ENST00000268661.7	-	8	1093	c.999G>A	c.(997-999)ctG>ctA	p.L333L	MSRB1_ENST00000399753.2_5'Flank|MSRB1_ENST00000361871.3_5'Flank|MSRB1_ENST00000564908.1_5'Flank	NM_005061.2	NP_005052.1	Q92901	RL3L_HUMAN	ribosomal protein L3-like	333					cellular protein metabolic process (GO:0044267)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)|RNA metabolic process (GO:0016070)|SRP-dependent cotranslational protein targeting to membrane (GO:0006614)|translation (GO:0006412)|translational elongation (GO:0006414)|translational initiation (GO:0006413)|translational termination (GO:0006415)|viral life cycle (GO:0019058)|viral process (GO:0016032)|viral transcription (GO:0019083)	cytosol (GO:0005829)|cytosolic large ribosomal subunit (GO:0022625)|membrane (GO:0016020)|ribosome (GO:0005840)	RNA binding (GO:0003723)|structural constituent of ribosome (GO:0003735)			NS(1)|endometrium(5)|kidney(2)|large_intestine(2)|lung(5)|prostate(1)|upper_aerodigestive_tract(1)	17						TACAACCCTTCAGCATGACGA	0.602																																																0													164	138	147					16																	1995884		2199	4300	6499	SO:0001819	synonymous_variant	6123			U65581	CCDS10450.1	16p13.3	2008-02-05			ENSG00000140986	ENSG00000140986		"L ribosomal proteins"	10351	protein-coding gene	gene with protein product						8921388	Standard	NM_005061		Approved		uc002cnh.3	Q92901	OTTHUMG00000128685	ENST00000268661.7:c.999G>A	16.37:g.1995884C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000268661.7	37	CCDS10450.1																																																																																				0.602	RPL3L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250582.2	NM_005061		T	1995884	C	T	1995884	2	4	699	1	0	0	0	0	0	0	0	1	13607	813	29	2		2	RPL3L	16	1995884	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	1312052	1995884	88358869	146	45912										
PKMYT1	9088	hgsc.bcm.edu	37	chr16	3025761	3025761	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ggtccttggggccccggaatGgtgacatggaacgctttacc	14	11	0	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr16:3025761G>A	ENST00000262300.8	-	4	939	c.431C>T	c.(430-432)cCa>cTa	p.P144L	PKMYT1_ENST00000431515.2_Missense_Mutation_p.P144L|PKMYT1_ENST00000573944.1_Missense_Mutation_p.P135L|PKMYT1_ENST00000440027.2_Missense_Mutation_p.P144L|PKMYT1_ENST00000574730.1_Missense_Mutation_p.P75L|PKMYT1_ENST00000574385.1_Missense_Mutation_p.P135L	NM_001258450.1|NM_004203.4|NM_182687.2	NP_001245379.1|NP_004194.3|NP_872629.1	Q99640	PMYT1_HUMAN	protein kinase, membrane associated tyrosine/threonine 1	144	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				G1/S transition of mitotic cell cycle (GO:0000082)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of phosphatase activity (GO:0010923)|regulation of cell cycle (GO:0051726)|regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0000079)|regulation of mitosis (GO:0007088)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|membrane (GO:0016020)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|kinase activity (GO:0016301)|metal ion binding (GO:0046872)|protein kinase activity (GO:0004672)|protein serine/threonine kinase activity (GO:0004674)			NS(1)|endometrium(1)|large_intestine(1)|lung(3)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	10						GCCCCGGAATGGTGACATGGA	0.667																																																0													25	27	26					16																	3025761		2153	4235	6388	SO:0001583	missense	9088			AK097642	CCDS10486.1, CCDS45391.1, CCDS58414.1, CCDS58415.1	16p13.3	2014-06-13			ENSG00000127564	ENSG00000127564			29650	protein-coding gene	gene with protein product	"membrane-associated tyrosine- and threonine-specific cdc2-inhibitory kinase", "protein phosphatase 1, regulatory subunit 126"	602474				9001210, 12606722	Standard	NM_004203		Approved	MYT1, PPP1R126	uc002csn.3	Q99640	OTTHUMG00000128975	ENST00000262300.8:c.431C>T	16.37:g.3025761G>A	ENSP00000262300:p.Pro144Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KUN8|B4DXD4|D3DUA4|F8W164|I3L1V2|O14731|Q7LE24|Q8TCM9	Missense_Mutation	SNP	ENST00000262300.8	37	CCDS10486.1	.	.	.	.	.	.	.	.	.	.	G	15.79	2.938404	0.52972	.	.	ENSG00000127564	ENST00000431515;ENST00000262300;ENST00000440027;ENST00000402679;ENST00000382240	T;T;T;T	0.65364	-0.15;-0.15;-0.15;-0.15	5.69	5.69	0.88448	Serine/threonine-protein kinase-like domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.059815	0.64402	D	0.000002	T	0.47266	0.1436	N	0.11818	0.18	0.80722	D	1	P;P;P;P	0.43701	0.56;0.704;0.56;0.815	B;B;B;B	0.39068	0.217;0.217;0.217;0.289	T	0.56498	-0.7969	10	0.66056	D	0.02	-14.3456	17.2983	0.87175	0.0:0.0:1.0:0.0	.	135;75;144;144	A6NHV6;B4DXD4;Q99640;F8W164	.;.;PMYT1_HUMAN;.	L	144;144;144;144;135	ENSP00000392855:P144L;ENSP00000262300:P144L;ENSP00000397739:P144L;ENSP00000371675:P135L	ENSP00000262300:P144L	P	-	2	0	PKMYT1	2965762	1.000000	0.71417	0.237000	0.24090	0.956000	0.61745	4.915000	0.63355	2.676000	0.91093	0.655000	0.94253	CCA		0.667	PKMYT1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000250963.2	NM_004203		A	3025761	G	A	3025761	3	1	699	1	0	0	0	0	1	0	0	0	11985	1348	47	2	1130	2	PKMYT1	16	3025761	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	1029877	3025761	87328992	147	45913										
NLRC3	197358	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	3614323	3614323	+	RNA	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gctgggactgccaccgccagGctgggctccccgacgtgcgg	16	16	0	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr16:3614323G>C	ENST00000301749.7	-	0	1020				NLRC3_ENST00000448023.2_RNA|NLRC3_ENST00000419350.2_RNA|NLRC3_ENST00000324659.8_RNA|NLRC3_ENST00000359128.5_RNA|NLRC3_ENST00000603507.1_RNA	NM_178844.2	NP_849172.2	Q7RTR2	NLRC3_HUMAN	NLR family, CARD domain containing 3						I-kappaB kinase/NF-kappaB signaling (GO:0007249)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|regulation of protein ubiquitination (GO:0031396)|response to lipopolysaccharide (GO:0032496)|T cell activation (GO:0042110)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)			breast(1)|central_nervous_system(2)|endometrium(1)|kidney(3)|large_intestine(1)|liver(1)|lung(16)|ovary(2)|pancreas(2)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	34						CCACCGCCAGGCTGGGCTCCC	0.662																																																0													31	37	35					16																	3614323		2003	4170	6173			197358			BK001112	CCDS73817.1	16p13.3	2014-03-25			ENSG00000167984	ENSG00000167984		"Nucleotide-binding domain and leucine rich repeat containing"	29889	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and CARD domain containing 3", "NOD-like receptor C3"	615648				15705585, 12766759	Standard	NM_178844		Approved	CLR16.2, FLJ00348, NOD3	uc010btn.3	Q7RTR2	OTTHUMG00000177561		16.37:g.3614323G>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q5EY36|Q8NF48|Q8NI01|Q8NI02|Q8TEL3	Missense_Mutation	SNP	ENST00000301749.7	37		.	.	.	.	.	.	.	.	.	.	G	1.295	-0.606481	0.03717	.	.	ENSG00000167984	ENST00000419350;ENST00000301749;ENST00000359128;ENST00000448023;ENST00000324659	T;T;T;T	0.79033	-1.23;-1.23;-1.23;-1.23	4.84	0.17	0.15021	.	0.625501	0.16533	N	0.210300	T	0.55625	0.1932	.	.	.	0.09310	N	1	B	0.10296	0.003	B	0.15870	0.014	T	0.32107	-0.9919	9	0.17832	T	0.49	.	4.5952	0.12325	0.0829:0.2788:0.4949:0.1434	.	252	C9JLH9	.	R	205;205;205;252;187	ENSP00000301749:S205R;ENSP00000352039:S205R;ENSP00000414415:S252R;ENSP00000323897:S187R	ENSP00000301749:S205R	S	-	3	2	NLRC3	3554324	0.000000	0.05858	0.004000	0.12327	0.008000	0.06430	0.471000	0.22100	0.074000	0.16767	0.655000	0.94253	AGC		0.662	NLRC3-201	KNOWN	basic|appris_principal	protein_coding	polymorphic_pseudogene		NM_178844		C	3614323	G	C	3614323	1	2	699	0	1	0	0	0	0	0	0	0	10475	1194	42	4		4	NLRC3	16	3614323	RNA	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	588562	3614323	86740430	148	45914										
CREBBP	1387	hgsc.bcm.edu;broad.mit.edu	37	chr16	3779018	3779018	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ggcatgctgggcatgacgggCccgctcacctggttgggtcg	17	12	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr16:3779018C>T	ENST00000262367.5	-	31	6839	c.6030G>A	c.(6028-6030)ggG>ggA	p.G2010G	CREBBP_ENST00000382070.3_Silent_p.G1972G	NM_004380.2	NP_004371.2	Q92793	CBP_HUMAN	CREB binding protein	2010					cellular lipid metabolic process (GO:0044255)|cellular response to hypoxia (GO:0071456)|chromatin organization (GO:0006325)|embryonic digit morphogenesis (GO:0042733)|gene expression (GO:0010467)|germ-line stem cell maintenance (GO:0030718)|histone acetylation (GO:0016573)|homeostatic process (GO:0042592)|innate immune response (GO:0045087)|N-terminal peptidyl-lysine acetylation (GO:0018076)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of type I interferon production (GO:0032481)|protein complex assembly (GO:0006461)|regulation of smoothened signaling pathway (GO:0008589)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|regulation of transcription, DNA-templated (GO:0006355)|response to hypoxia (GO:0001666)|rhythmic process (GO:0048511)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|transcription initiation from RNA polymerase II promoter (GO:0006367)|viral process (GO:0016032)	condensed chromosome outer kinetochore (GO:0000940)|cytoplasm (GO:0005737)|histone acetyltransferase complex (GO:0000123)|nuclear body (GO:0016604)|nuclear chromatin (GO:0000790)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	acetyltransferase activity (GO:0016407)|chromatin binding (GO:0003682)|core promoter proximal region sequence-specific DNA binding (GO:0000987)|histone acetyltransferase activity (GO:0004402)|MRF binding (GO:0043426)|p53 binding (GO:0002039)|RNA polymerase II activating transcription factor binding (GO:0001102)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)|RNA polymerase II transcription coactivator activity (GO:0001105)|RNA polymerase II transcription factor binding (GO:0001085)|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription (GO:0001191)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)|transcription coactivator activity (GO:0003713)|transcription factor binding (GO:0008134)|zinc ion binding (GO:0008270)			NS(1)|breast(5)|central_nervous_system(4)|cervix(3)|endometrium(12)|haematopoietic_and_lymphoid_tissue(125)|kidney(5)|large_intestine(32)|lung(43)|ovary(18)|pancreas(2)|prostate(6)|skin(9)|soft_tissue(1)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(21)	295		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		GCATGACGGGCCCGCTCACCT	0.692			"T, N, F, Mis, O"	"MLL, MORF, RUNXBP2"	"ALL, AML, DLBCL, B-NHL "		Rubinstein-Taybi syndrome																																Dom/Rec	yes		16	16p13.3	1387	CREB binding protein (CBP)	yes	L	0													12	14	13					16																	3779018		2185	4287	6472	SO:0001819	synonymous_variant	1387			U85962	CCDS10509.1, CCDS45399.1	16p13.3	2011-07-01	2008-08-01		ENSG00000005339	ENSG00000005339		"Chromatin-modifying enzymes / K-acetyltransferases"	2348	protein-coding gene	gene with protein product		600140	"Rubinstein-Taybi syndrome"	RSTS		8413673	Standard	NM_001079846		Approved	RTS, CBP, KAT3A	uc002cvv.3	Q92793	OTTHUMG00000129431	ENST00000262367.5:c.6030G>A	16.37:g.3779018C>T		Somatic		WXS	Illumina HiSeq	Phase_I	D3DUC9|O00147|Q16376|Q4LE28	Silent	SNP	ENST00000262367.5	37	CCDS10509.1																																																																																				0.692	CREBBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251591.2	NM_004380		T	3779018	C	T	3779018	2	4	699	1	0	0	0	0	0	0	0	1	3863	726	26	2		2	CREBBP	16	3779018	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	164695	3779018	86575735	149	45915										
C16orf68	79091	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	8736394	8736394	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cccacagattgaaaaatgccTgcacagccatactgtcggtg	9	12	0	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr16:8736394T>C	ENST00000381920.3	+	9	1240	c.982T>C	c.(982-984)Tgc>Cgc	p.C328R	METTL22_ENST00000568967.1_3'UTR|METTL22_ENST00000561758.1_Missense_Mutation_p.C272R	NM_024109.2	NP_077014.2	Q9BUU2	MET22_HUMAN	methyltransferase like 22	328						nucleus (GO:0005634)	methyltransferase activity (GO:0008168)			large_intestine(5)|lung(4)	9						GAAAAATGCCTGCACAGCCAT	0.532																																																0													124	139	134					16																	8736394		2055	4190	6245	SO:0001583	missense	79091			AK022495	CCDS10533.2	16p13.2	2014-07-15	2011-03-03	2011-03-03	ENSG00000067365	ENSG00000067365			28368	protein-coding gene	gene with protein product		615261	"chromosome 16 open reading frame 68"	C16orf68		24140279	Standard	XM_005255570		Approved	FLJ12433,MGC2654	uc002cyz.3	Q9BUU2	OTTHUMG00000129694	ENST00000381920.3:c.982T>C	16.37:g.8736394T>C	ENSP00000371345:p.Cys328Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RD29|D3DUF2|Q6XYB4|Q9HA03	Missense_Mutation	SNP	ENST00000381920.3	37	CCDS10533.2	.	.	.	.	.	.	.	.	.	.	T	10.28	1.307330	0.23821	.	.	ENSG00000067365	ENST00000381920	T	0.40756	1.02	5.18	5.18	0.71444	.	0.177884	0.49305	D	0.000145	T	0.43590	0.1254	L	0.41710	1.295	0.80722	D	1	D;P	0.53462	0.96;0.752	P;P	0.54312	0.748;0.469	T	0.19976	-1.0289	10	0.14252	T	0.57	-39.2838	11.4298	0.50034	0.0:0.0:0.0:1.0	.	103;328	Q9BUU2-3;Q9BUU2	.;MET22_HUMAN	R	328	ENSP00000371345:C328R	ENSP00000371345:C328R	C	+	1	0	METTL22	8643895	1.000000	0.71417	1.000000	0.80357	0.286000	0.27126	2.384000	0.44362	1.956000	0.56807	0.533000	0.62120	TGC		0.532	METTL22-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251901.1	NM_024109		C	8736394	T	C	8736394	3	2	699	1	0	0	0	0	1	0	0	0	1829	1580	55	3	1012	3	C16orf68	16	8736394	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	4957376	8736394	81618359	150	45916										
ERN2	10595	broad.mit.edu;ucsc.edu	37	chr16	23713536	23713536	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gtctctgcagttccactcccCagggtgggatggaccctcag	12	14	2	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr16:23713536C>T	ENST00000457008.2	-	11	1178	c.1140G>A	c.(1138-1140)ctG>ctA	p.L380L	ERN2_ENST00000256797.4_Silent_p.L428L					endoplasmic reticulum to nucleus signaling 2											large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		TTCCACTCCCCAGGGTGGGAT	0.607																																																0													90	95	94					16																	23713536		2197	4300	6497	SO:0001819	synonymous_variant	10595			AA527544	CCDS32407.1	16p12.2	2008-02-05	2007-08-14			ENSG00000134398			16942	protein-coding gene	gene with protein product		604034	"ER to nucleus signalling 2"			9755171, 11175748	Standard	NM_033266		Approved	IRE1b	uc002dma.4	Q76MJ5		ENST00000457008.2:c.1140G>A	16.37:g.23713536C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000457008.2	37																																																																																					0.607	ERN2-002	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000434886.1			T	23713536	C	T	23713536	2	4	699	1	0	0	0	0	0	0	0	1	5240	581	21	2		2	ERN2	16	23713536	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	14977142	23713536	66641217	151	45917										
CETP	1071	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	57012127	57012127	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ggtgaaattcctctttccacGcccagaccagcaacattctg	7	14	2	2	rs144949752		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr16:57012127G>A	ENST00000566128.1	+	11	1178	c.911G>A	c.(910-912)cGc>cAc	p.R304H	CETP_ENST00000200676.3_Missense_Mutation_p.R369H|CETP_ENST00000379780.2_Missense_Mutation_p.R309H					cholesteryl ester transfer protein, plasma											NS(1)|breast(3)|central_nervous_system(1)|endometrium(3)|large_intestine(8)|lung(4)|skin(3)	23						CTCTTTCCACGCCCAGACCAG	0.542																																																0								G	HIS/ARG	1,4395	2.1+/-5.4	0,1,2197	165	149	155		1106	-6.8	0	16	dbSNP_134	155	0,8600		0,0,4300	no	missense	CETP	NM_000078.2	29	0,1,6497	AA,AG,GG		0.0,0.0227,0.0077	benign	369/494	57012127	1,12995	2198	4300	6498	SO:0001583	missense	1071			M30185	CCDS10772.1, CCDS67032.1	16q13	2012-10-02			ENSG00000087237	ENSG00000087237		"BPI fold containing"	1869	protein-coding gene	gene with protein product	"BPI fold containing family F"	118470				3600759, 2334701	Standard	NM_000078		Approved	BPIFF	uc002eki.2	P11597	OTTHUMG00000133279	ENST00000566128.1:c.911G>A	16.37:g.57012127G>A	ENSP00000456276:p.Arg304His	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000566128.1	37		.	.	.	.	.	.	.	.	.	.	G	7.501	0.652743	0.14580	2.27E-4	0.0	ENSG00000087237	ENST00000200676;ENST00000379780	T;T	0.09445	2.98;2.98	4.23	-6.83	0.01693	Lipid-binding serum glycoprotein, C-terminal (2);Bactericidal permeability-increasing protein, alpha/beta domain (1);	1.648930	0.03515	N	0.220082	T	0.05410	0.0143	N	0.08118	0	0.09310	N	1	B;B	0.06786	0.001;0.0	B;B	0.04013	0.001;0.001	T	0.36456	-0.9747	10	0.35671	T	0.21	-6.9101	9.1715	0.37083	0.5114:0.0989:0.3897:0.0	.	309;369	P11597-2;P11597	.;CETP_HUMAN	H	369;309	ENSP00000200676:R369H;ENSP00000369106:R309H	ENSP00000200676:R369H	R	+	2	0	CETP	55569628	0.000000	0.05858	0.000000	0.03702	0.161000	0.22273	-1.331000	0.02672	-1.478000	0.01869	-0.252000	0.11476	CGC		0.542	CETP-003	PUTATIVE	not_organism_supported|basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000432305.1	NM_000078		A	57012127	G	A	57012127	3	1	699	1	0	0	0	0	1	0	0	0	3279	1087	38	1	1148	1	CETP	16	57012127	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	33298591	57012127	33342626	152	45918										
DHRS7C	201140	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	9683157	9683157	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gagacctttcgtcaatgtgaTggggccaaagtaattggcat	12	7	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr17:9683157T>A	ENST00000330255.5	-	3	478	c.466A>T	c.(466-468)Atc>Ttc	p.I156F	DHRS7C_ENST00000571134.1_Missense_Mutation_p.I155F	NM_001105571.2|NM_001220493.1	NP_001099041.1|NP_001207422.1	A6NNS2	DRS7C_HUMAN	dehydrogenase/reductase (SDR family) member 7C	156					regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0010880)	extracellular region (GO:0005576)|longitudinal sarcoplasmic reticulum (GO:0014801)|sarcoplasmic reticulum membrane (GO:0033017)	retinol dehydrogenase activity (GO:0004745)			NS(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(9)	15						GTCAATGTGATGGGGCCAAAG	0.478																																																0													49	47	47					17																	9683157		1906	4125	6031	SO:0001583	missense	201140				CCDS56020.1, CCDS58517.1	17p13.1	2011-09-20				ENSG00000184544		"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 3"	32423	protein-coding gene	gene with protein product	"short chain dehydrogenase/reductase family 32C, member 2"					19027726	Standard	NM_001105571		Approved	SDR32C2	uc010vvb.2	A6NNS2		ENST00000330255.5:c.466A>T	17.37:g.9683157T>A	ENSP00000327975:p.Ile156Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZW74|B9EJH3	Missense_Mutation	SNP	ENST00000330255.5	37	CCDS56020.1	.	.	.	.	.	.	.	.	.	.	T	13.39	2.223879	0.39300	.	.	ENSG00000184544	ENST00000330255	D	0.86865	-2.18	5.75	5.75	0.90469	NAD(P)-binding domain (1);	0.045861	0.85682	D	0.000000	D	0.90000	0.6878	L	0.37630	1.12	0.47511	D	0.999443	D;D	0.71674	0.998;0.998	D;D	0.71184	0.972;0.94	D	0.91167	0.4965	10	0.87932	D	0	.	15.0365	0.71751	0.0:0.0:0.0:1.0	.	156;152	A6NNS2;B9EJH3	DRS7C_HUMAN;.	F	156	ENSP00000327975:I156F	ENSP00000327975:I156F	I	-	1	0	DHRS7C	9623882	1.000000	0.71417	1.000000	0.80357	0.975000	0.68041	5.823000	0.69272	2.193000	0.70182	0.533000	0.62120	ATC		0.478	DHRS7C-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000439863.1	XM_113912		A	9683157	T	A	9683157	3	1	699	1	0	0	0	0	1	0	0	0	4499	1464	51	5	488	5	DHRS7C	17	9683157	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10		9683157	71512053	153	45919										
COX10	1352	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	13980322	13980322	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ggaaagagatgaagctgcaaGtgtatgatttgccaggaatt	13	4	0	3			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr17:13980322G>C	ENST00000261643.3	+	3	525	c.448G>C	c.(448-450)Gtg>Ctg	p.V150L	COX10_ENST00000429152.2_Missense_Mutation_p.V150L|COX10_ENST00000536205.1_5'UTR|COX10_ENST00000537334.1_Intron	NM_001303.3	NP_001294.2	Q12887	COX10_HUMAN	cytochrome c oxidase assembly homolog 10 (yeast)	150					aerobic respiration (GO:0009060)|cellular respiration (GO:0045333)|heme a biosynthetic process (GO:0006784)|heme biosynthetic process (GO:0006783)|heme O biosynthetic process (GO:0048034)|hydrogen ion transmembrane transport (GO:1902600)|mitochondrial electron transport, cytochrome c to oxygen (GO:0006123)|mitochondrial fission (GO:0000266)|porphyrin-containing compound metabolic process (GO:0006778)|respiratory chain complex IV assembly (GO:0008535)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	farnesyltranstransferase activity (GO:0004311)|protoheme IX farnesyltransferase activity (GO:0008495)			cervix(1)|endometrium(3)|large_intestine(2)|lung(5)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	14		all_lung(20;0.06)|Lung SC(565;0.168)		UCEC - Uterine corpus endometrioid carcinoma (92;0.106)		GAAGCTGCAAGTGTATGATTT	0.368																																																0													83	88	87					17																	13980322		2203	4300	6503	SO:0001583	missense	1352			U09466	CCDS11166.1	17p12	2013-05-24	2012-10-15		ENSG00000006695	ENSG00000006695		"Mitochondrial respiratory chain complex assembly factors"	2260	protein-coding gene	gene with protein product	"heme A: farnesyltransferase", "protoheme IX farnesyltransferase, mitochondrial", "heme O synthase"	602125	"COX10 (yeast) homolog, cytochrome c oxidase assembly protein (heme A: farnesyltransferase)", "COX10 homolog, cytochrome c oxidase assembly protein, heme A: farnesyltransferase (yeast)"			9177788, 12928484	Standard	NM_001303		Approved		uc002gof.4	Q12887	OTTHUMG00000058814	ENST00000261643.3:c.448G>C	17.37:g.13980322G>C	ENSP00000261643:p.Val150Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6U5|B4DJ50|O15334|Q969F7	Missense_Mutation	SNP	ENST00000261643.3	37	CCDS11166.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	0.143|0.143	-1.100268|-1.100268	0.01843|0.01843	.|.	.|.	ENSG00000006695|ENSG00000006695	ENST00000429152|ENST00000261643	T|T	0.37235|0.61980	1.21|0.06	5.35|5.35	-6.73|-6.73	0.01749|0.01749	.|.	.|1.554890	.|0.03407	.|N	.|0.204147	T|T	0.36880|0.36880	0.0983|0.0983	N|N	0.25890|0.25890	0.77|0.77	0.34746|0.34746	D|D	0.731242|0.731242	.|B	.|0.02656	.|0.0	.|B	.|0.04013	.|0.001	T|T	0.49978|0.49978	-0.8881|-0.8881	6|10	.|0.02654	.|T	.|1	0.0067|0.0067	3.698|3.698	0.08372|0.08372	0.2638:0.4606:0.1338:0.1418|0.2638:0.4606:0.1338:0.1418	.|.	.|150	.|Q12887	.|COX10_HUMAN	T|L	110|150	ENSP00000397750:S110T|ENSP00000261643:V150L	.|ENSP00000261643:V150L	S|V	+|+	2|1	0|0	COX10|COX10	13921047|13921047	0.000000|0.000000	0.05858|0.05858	0.000000|0.000000	0.03702|0.03702	0.223000|0.223000	0.24884|0.24884	-0.888000|-0.888000	0.04148|0.04148	-0.666000|-0.666000	0.05310|0.05310	0.655000|0.655000	0.94253|0.94253	AGT|GTG		0.368	COX10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130003.1	NM_001303		C	13980322	G	C	13980322	3	2	699	1	0	0	0	0	1	0	0	0	3764	1029	36	4	458	4	COX10	17	13980322	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	4297165	13980322	67214888	154	45920										
FAM18B2	201158	ucsc.edu	37	chr17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tgagcaactcacagagaagaCagacgatgattgcactgact	10	9	1	6			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr17:15457087C>T	ENST00000225576.3	-	3	247	c.152G>A	c.(151-153)tGt>tAt	p.C51Y	TVP23C_ENST00000519970.1_Intron|TVP23C_ENST00000518321.1_Missense_Mutation_p.C51Y|TVP23C_ENST00000584811.1_5'UTR|TVP23C_ENST00000438826.3_Missense_Mutation_p.C51Y|TVP23C_ENST00000428082.2_Missense_Mutation_p.C51Y|TVP23C-CDRT4_ENST00000522212.2_Missense_Mutation_p.C51Y	NM_145301.2	NP_660344.2	Q96ET8	TV23C_HUMAN	trans-golgi network vesicle protein 23 homolog C (S. cerevisiae)	51						integral component of membrane (GO:0016021)											ACAGAGAAGACAGACGATGAT	0.373																																																0													274	265	268					17																	15457087		2203	4300	6503	SO:0001583	missense	201158			BC011952	CCDS11170.1, CCDS45617.1	17p12	2012-11-29	2012-11-29	2012-11-29	ENSG00000175106	ENSG00000175106			30453	protein-coding gene	gene with protein product			"family with sequence similarity 18, member B2"	FAM18B2			Standard	NM_001135036		Approved	MGC8763	uc002goq.2	Q96ET8	OTTHUMG00000171461	ENST00000225576.3:c.152G>A	17.37:g.15457087C>T	ENSP00000225576:p.Cys51Tyr	Somatic		WXS	Illumina HiSeq		Q3LIC7	Missense_Mutation	SNP	ENST00000225576.3	37	CCDS11170.1	.	.	.	.	.	.	.	.	.	.	.	2.368	-0.344949	0.05208	.	.	ENSG00000259024;ENSG00000175106;ENSG00000175106;ENSG00000175106	ENST00000522212;ENST00000225576;ENST00000428082;ENST00000438826	T;T;T;T	0.25749	1.78;1.78;1.78;1.78	4.47	4.47	0.54385	.	0.000000	0.85682	N	0.000000	T	0.02571	0.0078	N	0.00004	-3.335	0.80722	D	1	B;B;B	0.02656	0.0;0.0;0.0	B;B;B	0.06405	0.0;0.0;0.002	T	0.38457	-0.9660	10	0.02654	T	1	-3.8701	9.492	0.38965	0.0:0.0877:0.0:0.9123	.	51;51;51	Q96ET8-2;Q96ET8-3;Q96ET8	.;.;F18B2_HUMAN	Y	51	ENSP00000429865:C51Y;ENSP00000225576:C51Y;ENSP00000406387:C51Y;ENSP00000413355:C51Y	ENSP00000225576:C51Y	C	-	2	0	RP11-726O12.1;FAM18B2	15397812	1.000000	0.71417	1.000000	0.80357	0.703000	0.40648	6.178000	0.71968	0.670000	0.31165	-0.442000	0.05670	TGT		0.373	TVP23C-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000130705.2	NM_145301		T	15457087	C	T	15457087	3	4	699	1	0	0	0	0	1	0	0	0	5524	478	17	2	848	2	FAM18B2	17	15457087	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	1476765	15457087	65738123	155	45921										
SLFN12L	100506736	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	33807110	33807110	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ttctattgttctctccaagaGtgactcttcccacatttaga	5	11	3	3			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr17:33807110G>A	ENST00000260908.7	-	2	236	c.119C>T	c.(118-120)aCt>aTt	p.T40I	SLFN12L_ENST00000449046.1_Missense_Mutation_p.T71I|SLFN12L_ENST00000361112.4_Missense_Mutation_p.T69I|RP11-686D22.9_ENST00000587076.1_RNA	NM_001195790.1	NP_001182719.1	Q6IEE8	SN12L_HUMAN	schlafen family member 12-like	40						integral component of membrane (GO:0016021)	ATP binding (GO:0005524)			breast(1)|endometrium(4)|kidney(5)|large_intestine(2)|lung(3)|ovary(1)	16						CTCTCCAAGAGTGACTCTTCC	0.403																																																0													57	44	48					17																	33807110		692	1591	2283	SO:0001583	missense	100506736			AK172761	CCDS56026.1	17q12	2011-05-24				ENSG00000205045			33920	protein-coding gene	gene with protein product		614956				9846487	Standard	NM_001195790		Approved		uc021tuy.1	Q6IEE8		ENST00000260908.7:c.119C>T	17.37:g.33807110G>A	ENSP00000437635:p.Thr40Ile	Somatic		WXS	Illumina HiSeq	Phase_I	F5H6G3	Missense_Mutation	SNP	ENST00000260908.7	37	CCDS56026.1	.	.	.	.	.	.	.	.	.	.	G	15.90	2.968021	0.53507	.	.	ENSG00000205045	ENST00000260908;ENST00000361112;ENST00000449046	T;T;T	0.06528	3.32;3.64;3.29	2.72	2.72	0.32119	.	.	.	.	.	T	0.16599	0.0399	L	0.57536	1.79	0.09310	N	1	D	0.65815	0.995	D	0.63703	0.917	T	0.03993	-1.0986	9	0.48119	T	0.1	.	8.9486	0.35773	0.0:0.0:1.0:0.0	.	69	Q6IEE8-2	.	I	40;69;71	ENSP00000437635:T40I;ENSP00000354412:T69I;ENSP00000389348:T71I	ENSP00000437635:T40I	T	-	2	0	SLFN12L	30831223	0.000000	0.05858	0.017000	0.16124	0.662000	0.39071	-0.169000	0.09911	1.504000	0.48704	0.205000	0.17691	ACT		0.403	SLFN12L-004	NOVEL	not_organism_supported|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000395748.2	XM_496206		A	33807110	G	A	33807110	3	1	699	1	0	0	0	0	1	0	0	0	14748	1029	36	2	1659	2	SLFN12L	17	33807110	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	18350023	33807110	47388100	156	45922										
KRT38	8687	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	39596920	39596920	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	agattccaatgttgccaggaAtgtggcaggtccctggcaag	13	9	0	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr17:39596920A>C	ENST00000246646.3	-	1	253	c.254T>G	c.(253-255)aTt>aGt	p.I85S		NM_006771.3	NP_006762.3	O76015	KRT38_HUMAN	keratin 38	85	Head.					extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)	structural molecule activity (GO:0005198)			breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(11)|ovary(1)|pancreas(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	29		Breast(137;0.000496)				GTTGCCAGGAATGTGGCAGGT	0.607																																																0													73	68	70					17																	39596920		2203	4300	6503	SO:0001583	missense	8687			Y16794	CCDS11392.1	17q21.2	2013-06-20	2006-07-17	2006-07-17	ENSG00000171360	ENSG00000171360		"-", "Intermediate filaments type I, keratins (acidic)"	6456	protein-coding gene	gene with protein product		604542	"keratin, hair, acidic, 8"	KRTHA8		9756910, 16831889	Standard	NM_006771		Approved		uc002hwq.1	O76015	OTTHUMG00000133439	ENST00000246646.3:c.254T>G	17.37:g.39596920A>C	ENSP00000246646:p.Ile85Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRM5|Q6A164	Missense_Mutation	SNP	ENST00000246646.3	37	CCDS11392.1	.	.	.	.	.	.	.	.	.	.	A	13.77	2.337461	0.41398	.	.	ENSG00000171360	ENST00000246646	D	0.82167	-1.58	4.89	3.82	0.43975	.	0.130125	0.34460	N	0.003941	D	0.84511	0.5488	L	0.50333	1.59	0.09310	N	1	D	0.89917	1.0	D	0.69307	0.963	T	0.72830	-0.4174	10	0.28530	T	0.3	.	5.4631	0.16627	0.6239:0.2845:0.0915:0.0	.	85	O76015	KRT38_HUMAN	S	85	ENSP00000246646:I85S	ENSP00000246646:I85S	I	-	2	0	KRT38	36850446	0.089000	0.21612	0.031000	0.17742	0.359000	0.29487	1.205000	0.32308	0.906000	0.36621	0.528000	0.53228	ATT		0.607	KRT38-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257307.2	NM_006771		C	39596920	A	C	39596920	3	2	699	1	0	0	0	0	1	0	0	0	8482	101	4	5	1144	5	KRT38	17	39596920	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	5789810	39596920	41598290	157	45923										
JUP	3728	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	39925817	39925817	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tgcaggttggtggcctgcccCtccacctgggtggccagcag	15	14	0	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr17:39925817C>G	ENST00000393931.3	-	3	439	c.321G>C	c.(319-321)gaG>gaC	p.E107D	JUP_ENST00000310706.5_Missense_Mutation_p.E107D|JUP_ENST00000540235.1_Missense_Mutation_p.E107D|JUP_ENST00000393930.1_Missense_Mutation_p.E107D	NM_002230.2	NP_002221.1	P14923	PLAK_HUMAN	junction plakoglobin	107					adherens junction organization (GO:0034332)|atrioventricular valve morphogenesis (GO:0003181)|bundle of His cell to Purkinje myocyte communication (GO:0086069)|cell junction assembly (GO:0034329)|cell migration (GO:0016477)|cell morphogenesis (GO:0000902)|cell-cell junction organization (GO:0045216)|cellular response to indole-3-methanol (GO:0071681)|cytoskeletal anchoring at plasma membrane (GO:0007016)|desmosome assembly (GO:0002159)|detection of mechanical stimulus (GO:0050982)|ectoderm development (GO:0007398)|endothelial cell-cell adhesion (GO:0071603)|establishment of protein localization to plasma membrane (GO:0090002)|gastrulation (GO:0007369)|morphogenesis of embryonic epithelium (GO:0016331)|negative regulation of heart induction by canonical Wnt signaling pathway (GO:0003136)|negative regulation of Wnt signaling pathway involved in heart development (GO:0003308)|nervous system development (GO:0007399)|oocyte development (GO:0048599)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of protein import into nucleus (GO:0042307)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|protein heterooligomerization (GO:0051291)|regulation of cell proliferation (GO:0042127)|regulation of heart rate by cardiac conduction (GO:0086091)|single organismal cell-cell adhesion (GO:0016337)|skin development (GO:0043588)|ventricular cardiac muscle cell action potential (GO:0086005)	actin cytoskeleton (GO:0015629)|apicolateral plasma membrane (GO:0016327)|basolateral plasma membrane (GO:0016323)|catenin complex (GO:0016342)|cell-cell adherens junction (GO:0005913)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|cytoplasmic side of plasma membrane (GO:0009898)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|desmosome (GO:0030057)|extracellular vesicular exosome (GO:0070062)|fascia adherens (GO:0005916)|focal adhesion (GO:0005925)|gamma-catenin-TCF7L2 complex (GO:0071665)|intercalated disc (GO:0014704)|intermediate filament (GO:0005882)|lateral plasma membrane (GO:0016328)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein-DNA complex (GO:0032993)|Z disc (GO:0030018)|zonula adherens (GO:0005915)	alpha-catenin binding (GO:0045294)|cadherin binding (GO:0045296)|protein homodimerization activity (GO:0042803)|protein kinase binding (GO:0019901)|protein phosphatase binding (GO:0019903)|structural constituent of cell wall (GO:0005199)|structural molecule activity (GO:0005198)|transcription coactivator activity (GO:0003713)			breast(1)|central_nervous_system(1)|endometrium(5)|kidney(2)|large_intestine(4)|lung(6)|ovary(3)|upper_aerodigestive_tract(1)	23		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		TGGCCTGCCCCTCCACCTGGG	0.647																																					Colon(16;42 520 6044 17852 28530)											0													31	29	29					17																	39925817		2201	4297	6498	SO:0001583	missense	3728			AF233882	CCDS11407.1	17q21	2014-09-17	2004-08-09		ENSG00000173801	ENSG00000173801		"Armadillo repeat containing"	6207	protein-coding gene	gene with protein product		173325	"catenin (cadherin-associated protein), gamma 80kDa"	CTNNG		1889810, 7604000	Standard	NM_021991		Approved	DP3, PDGB, PKGB, DPIII	uc002hxs.2	P14923	OTTHUMG00000133494	ENST00000393931.3:c.321G>C	17.37:g.39925817C>G	ENSP00000377508:p.Glu107Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q15093|Q15151|Q7L3S5|Q86W21|Q9BWC4|Q9HCX9	Missense_Mutation	SNP	ENST00000393931.3	37	CCDS11407.1	.	.	.	.	.	.	.	.	.	.	c	8.550	0.875277	0.17395	.	.	ENSG00000173801	ENST00000540235;ENST00000393930;ENST00000310706;ENST00000393931;ENST00000449889;ENST00000437187;ENST00000420370;ENST00000424457	T;T;T;T;T;T;T;T	0.63744	-0.06;-0.06;-0.06;-0.06;-0.06;-0.06;-0.06;-0.06	5.52	-7.03	0.01584	.	0.239681	0.42053	D	0.000764	T	0.27454	0.0674	N	0.08118	0	0.22591	N	0.998951	D;B	0.54207	0.965;0.001	B;B	0.43950	0.437;0.003	T	0.51663	-0.8677	10	0.22109	T	0.4	-21.4947	1.588	0.02648	0.2613:0.236:0.089:0.4138	.	107;107	B4DE59;P14923	.;PLAK_HUMAN	D	107	ENSP00000441751:E107D;ENSP00000377507:E107D;ENSP00000311113:E107D;ENSP00000377508:E107D;ENSP00000389886:E107D;ENSP00000394146:E107D;ENSP00000411449:E107D;ENSP00000401034:E107D	ENSP00000311113:E107D	E	-	3	2	JUP	37179343	0.000000	0.05858	0.979000	0.43373	0.992000	0.81027	-4.131000	0.00289	-0.505000	0.06568	0.556000	0.70494	GAG		0.647	JUP-008	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257406.1			G	39925817	C	G	39925817	3	3	699	1	0	0	0	0	1	0	0	0	7979	680	24	4	1964	4	JUP	17	39925817	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	328897	39925817	41269393	158	45924										
STAT5A	6776	broad.mit.edu	37	chr17	40452261	40452262	+	Frame_Shift_Ins	INS	-	-	G													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	agcagctggccgggaacggcINSgggccccccgagggcagcct							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr17:40452261_40452262insG	ENST00000345506.4	+	8	1437_1438	c.795_796insG	c.(796-798)gggfs	p.G266fs	STAT5A_ENST00000588868.1_Frame_Shift_Ins_p.G266fs|STAT5A_ENST00000590949.1_Frame_Shift_Ins_p.G266fs|STAT5A_ENST00000546010.2_Frame_Shift_Ins_p.G236fs|STAT5A_ENST00000452307.2_Frame_Shift_Ins_p.G266fs	NM_003152.3	NP_003143.2	P42229	STA5A_HUMAN	signal transducer and activator of transcription 5A	266					2-oxoglutarate metabolic process (GO:0006103)|allantoin metabolic process (GO:0000255)|cellular response to granulocyte macrophage colony-stimulating factor stimulus (GO:0097011)|citrate metabolic process (GO:0006101)|creatine metabolic process (GO:0006600)|creatinine metabolic process (GO:0046449)|development of secondary female sexual characteristics (GO:0046543)|development of secondary male sexual characteristics (GO:0046544)|epithelial cell differentiation involved in prostate gland development (GO:0060742)|fatty acid metabolic process (GO:0006631)|female pregnancy (GO:0007565)|isoleucine metabolic process (GO:0006549)|JAK-STAT cascade (GO:0007259)|JAK-STAT cascade involved in growth hormone signaling pathway (GO:0060397)|lactation (GO:0007595)|lipid storage (GO:0019915)|luteinization (GO:0001553)|mammary gland epithelium development (GO:0061180)|natural killer cell differentiation (GO:0001779)|negative regulation of erythrocyte differentiation (GO:0045647)|negative regulation of mast cell apoptotic process (GO:0033026)|oxaloacetate metabolic process (GO:0006107)|peptidyl-tyrosine phosphorylation (GO:0018108)|Peyer's patch development (GO:0048541)|positive regulation of activated T cell proliferation (GO:0042104)|positive regulation of B cell differentiation (GO:0045579)|positive regulation of gamma-delta T cell differentiation (GO:0045588)|positive regulation of inflammatory response (GO:0050729)|positive regulation of interleukin-2 biosynthetic process (GO:0045086)|positive regulation of mast cell differentiation (GO:0060376)|positive regulation of mast cell proliferation (GO:0070668)|positive regulation of mitotic cell cycle (GO:0045931)|positive regulation of multicellular organism growth (GO:0040018)|positive regulation of natural killer cell differentiation (GO:0032825)|positive regulation of natural killer cell mediated cytotoxicity (GO:0045954)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|prolactin signaling pathway (GO:0038161)|prostate gland epithelium morphogenesis (GO:0060740)|regulation of cell adhesion (GO:0030155)|regulation of epithelial cell differentiation (GO:0030856)|regulation of multicellular organism growth (GO:0040014)|regulation of steroid metabolic process (GO:0019218)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|succinate metabolic process (GO:0006105)|T cell differentiation in thymus (GO:0033077)|T cell homeostasis (GO:0043029)|taurine metabolic process (GO:0019530)|transcription, DNA-templated (GO:0006351)|valine metabolic process (GO:0006573)	cytosol (GO:0005829)|nucleoplasm (GO:0005654)	calcium ion binding (GO:0005509)|RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)|sequence-specific DNA binding transcription factor activity (GO:0003700)|signal transducer activity (GO:0004871)			central_nervous_system(1)|kidney(2)|large_intestine(1)|lung(8)|ovary(1)|upper_aerodigestive_tract(1)	14		all_cancers(22;1.56e-06)|all_epithelial(22;3.17e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.128)		CCGGGAACGGCGGGCCCCCCGA	0.688																																																0										24,266		11,2,132						-4.4	0.9			1	96,1048		28,40,504	no	frameshift	STAT5A	NM_003152.3		39,42,636	A1A1,A1R,RR		8.3916,8.2759,8.3682				120,1314				SO:0001589	frameshift_variant	6776			U43185	CCDS11424.1, CCDS74066.1, CCDS74067.1	17q11.2	2013-02-14			ENSG00000126561	ENSG00000126561		"SH2 domain containing"	11366	protein-coding gene	gene with protein product		601511		STAT5		7719937, 8631883	Standard	NM_003152		Approved	MGF	uc002hzj.2	P42229	OTTHUMG00000150725	ENST00000345506.4:c.798dupG	17.37:g.40452264_40452264dupG	ENSP00000341208:p.Gly266fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q1KLZ6	Frame_Shift_Ins	INS	ENST00000345506.4	37	CCDS11424.1																																																																																				0.688	STAT5A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319804.1	NM_003152		G	40452262	-	G	40452261	7	5	699	1	0	1	1	0	0	0	0	0	15280	755	27	0	817	0	STAT5A	17	40452261	Frame_Shift_Ins	INS	-	TCGA-P4-A5EB-01A-11D-A28G-10	526444	40452261	40742949	159	45925										
ERN1	2081	broad.mit.edu	37	chr17	62152600	62152600	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ccaattctgggatggtaaaaGgaagtttctttaaaaaaaaa	8	4	2	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr17:62152600G>A	ENST00000433197.3	-	5	385	c.290C>T	c.(289-291)cCt>cTt	p.P97L	ERN1_ENST00000577567.1_5'UTR	NM_001433.3	NP_001424.3			endoplasmic reticulum to nucleus signaling 1											central_nervous_system(4)|kidney(1)|lung(2)|ovary(1)|stomach(1)	9						GATGGTAAAAGGAAGTTTCTT	0.358																																																0													15	14	14					17																	62152600		1561	3443	5004	SO:0001583	missense	2081			AF059198	CCDS45762.1	17q23	2011-08-12	2007-08-14			ENSG00000178607			3449	protein-coding gene	gene with protein product	"inositol-requiring enzyme 1"	604033	"ER to nucleus signalling 1"			9637683	Standard	NM_001433		Approved	IRE1, IRE1P	uc002jdz.2	O75460		ENST00000433197.3:c.290C>T	17.37:g.62152600G>A	ENSP00000401445:p.Pro97Leu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000433197.3	37	CCDS45762.1	.	.	.	.	.	.	.	.	.	.	G	27.8	4.859641	0.91433	.	.	ENSG00000178607	ENST00000433197	T	0.29397	1.57	5.87	5.87	0.94306	Quinonprotein alcohol dehydrogenase-like (2);	0.000000	0.85682	D	0.000000	T	0.64382	0.2593	M	0.86651	2.83	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.68108	-0.5496	10	0.66056	D	0.02	-24.3325	20.1991	0.98252	0.0:0.0:1.0:0.0	.	97	O75460	ERN1_HUMAN	L	97	ENSP00000401445:P97L	ENSP00000401445:P97L	P	-	2	0	ERN1	59506332	1.000000	0.71417	1.000000	0.80357	0.883000	0.51084	9.476000	0.97823	2.775000	0.95449	0.650000	0.86243	CCT		0.358	ERN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443734.2	NM_001433		A	62152600	G	A	62152600	3	1	699	1	0	0	0	0	1	0	0	0	5239	1000	35	2	2715	2	ERN1	17	62152600	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	21700339	62152600	19042610	160	45926										
HELZ	9931	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	65105385	65105385	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ctgctccggaattacagcttCtgcaggaggagactgtggcc	13	11	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr17:65105385C>T	ENST00000358691.5	-	29	4502	c.4336G>A	c.(4336-4338)Gaa>Aaa	p.E1446K	HELZ_ENST00000580168.1_Missense_Mutation_p.E1447K	NM_014877.3	NP_055692	P42694	HELZ_HUMAN	helicase with zinc finger	1446						membrane (GO:0016020)|nucleus (GO:0005634)	ATP binding (GO:0005524)|helicase activity (GO:0004386)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)			NS(1)|breast(5)|endometrium(9)|kidney(3)|large_intestine(11)|liver(1)|lung(24)|ovary(1)|pancreas(1)|prostate(1)|skin(8)|upper_aerodigestive_tract(2)|urinary_tract(2)	69	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					ATTACAGCTTCTGCAGGAGGA	0.547																																																0													65	73	70					17																	65105385		2028	4202	6230	SO:0001583	missense	9931			D29677	CCDS42374.1	17q24.2	2013-01-18			ENSG00000198265	ENSG00000198265		"Zinc fingers, CCCH-type domain containing"	16878	protein-coding gene	gene with protein product	"down-regulated in human cancers"	606699				10471385, 12691822	Standard	NM_014877		Approved	KIAA0054, HUMORF5, DHRC	uc002jfx.4	P42694	OTTHUMG00000179555	ENST00000358691.5:c.4336G>A	17.37:g.65105385C>T	ENSP00000351524:p.Glu1446Lys	Somatic		WXS	Illumina HiSeq	Phase_I	I6L9H4	Missense_Mutation	SNP	ENST00000358691.5	37	CCDS42374.1	.	.	.	.	.	.	.	.	.	.	C	14.99	2.701438	0.48307	.	.	ENSG00000198265	ENST00000358691	D	0.83419	-1.72	5.9	4.92	0.64577	.	0.199043	0.53938	D	0.000060	T	0.74801	0.3764	N	0.19112	0.55	0.43777	D	0.996308	B;B	0.20261	0.043;0.043	B;B	0.19391	0.025;0.025	T	0.70945	-0.4734	10	0.62326	D	0.03	-11.4842	16.9692	0.86294	0.0:0.8723:0.1277:0.0	.	1447;1446	B7ZLW2;P42694	.;HELZ_HUMAN	K	1446	ENSP00000351524:E1446K	ENSP00000351524:E1446K	E	-	1	0	HELZ	62535847	0.991000	0.36638	0.996000	0.52242	0.966000	0.64601	2.728000	0.47319	1.460000	0.47911	0.549000	0.68633	GAA		0.547	HELZ-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000447068.1	NM_014877		T	65105385	C	T	65105385	3	4	699	1	0	0	0	0	1	0	0	0	7056	922	32	2	1512	2	HELZ	17	65105385	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	2952785	65105385	16089825	161	45927										
EXOC7	23265	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr17	74081440	74081440	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gctcaatgtgctcccggtagGagcgctcagcagtcttctgt	12	12	4	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr17:74081440G>A	ENST00000335146.7	-	16	1873	c.1820C>T	c.(1819-1821)tCc>tTc	p.S607F	EXOC7_ENST00000607838.1_Missense_Mutation_p.S579F|EXOC7_ENST00000411744.2_Missense_Mutation_p.S548F|EXOC7_ENST00000589210.1_Missense_Mutation_p.S556F|EXOC7_ENST00000591724.1_5'Flank|EXOC7_ENST00000467929.2_Missense_Mutation_p.S528F|EXOC7_ENST00000405575.4_Missense_Mutation_p.S579F|EXOC7_ENST00000332065.5_Missense_Mutation_p.S525F			Q9UPT5	EXOC7_HUMAN	exocyst complex component 7	607					cellular protein metabolic process (GO:0044267)|exocytosis (GO:0006887)|membrane organization (GO:0061024)|protein transport (GO:0015031)	centriolar satellite (GO:0034451)|exocyst (GO:0000145)|growth cone membrane (GO:0032584)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)|plasma membrane (GO:0005886)				NS(1)|breast(2)|endometrium(1)|kidney(1)|large_intestine(4)|lung(4)|skin(1)	14			LUSC - Lung squamous cell carcinoma(166;0.187)			CTCCCGGTAGGAGCGCTCAGC	0.637																																																0													57	47	50					17																	74081440		2202	4300	6502	SO:0001583	missense	23265			BC029432	CCDS11741.1, CCDS32738.1, CCDS45781.1, CCDS45782.1, CCDS45784.1, CCDS74164.1	17q25.3	2013-01-22			ENSG00000182473	ENSG00000182473			23214	protein-coding gene	gene with protein product		608163				12477932	Standard	NM_001013839		Approved	EXO70, KIAA1067, YJL085W, Exo70p	uc010wsw.2	Q9UPT5	OTTHUMG00000150720	ENST00000335146.7:c.1820C>T	17.37:g.74081440G>A	ENSP00000334100:p.Ser607Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B5MC69|B8XXP2|Q8ND93|Q8WV91|Q96FF0|Q9H8C3|Q9H9X3|Q9HA32	Missense_Mutation	SNP	ENST00000335146.7	37	CCDS45782.1	.	.	.	.	.	.	.	.	.	.	g	11.91	1.778418	0.31502	.	.	ENSG00000182473	ENST00000332065;ENST00000351709;ENST00000405575;ENST00000335146;ENST00000357231;ENST00000425372;ENST00000411744	.	.	.	4.43	4.43	0.53597	Cullin repeat-like-containing domain (1);	0.133958	0.50627	D	0.000114	T	0.54615	0.1869	L	0.40543	1.245	0.80722	D	1	P;B;P;B;P;P;P	0.51653	0.947;0.006;0.844;0.059;0.918;0.809;0.578	B;B;P;B;B;B;B	0.46389	0.283;0.028;0.515;0.028;0.384;0.317;0.129	T	0.54200	-0.8329	9	0.30078	T	0.28	-19.663	17.099	0.86644	0.0:0.0:1.0:0.0	.	548;579;528;493;607;525;556	Q9UPT5-5;Q9UPT5-6;B4DJ07;F5H1P1;Q9UPT5;Q9UPT5-2;Q9UPT5-1	.;.;.;.;EXOC7_HUMAN;.;.	F	525;445;579;607;556;493;548	.	ENSP00000333806:S525F	S	-	2	0	EXOC7	71593035	1.000000	0.71417	1.000000	0.80357	0.878000	0.50629	6.700000	0.74619	2.035000	0.60131	0.479000	0.44913	TCC		0.637	EXOC7-006	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000319768.2	NM_015219		A	74081440	G	A	74081440	3	1	699	1	0	0	0	0	1	0	0	0	5312	1174	41	2	407	2	EXOC7	17	74081440	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	8976055	74081440	7113770	162	45928										
RNF138	51444	broad.mit.edu	37	chr18	29709106	29709106	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ttcagctagatgaagaaaccCaataccaaactgctgttgaa	7	9	1	4			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr18:29709106C>A	ENST00000261593.3	+	8	1152	c.694C>A	c.(694-696)Caa>Aaa	p.Q232K	RNF138_ENST00000257190.5_Missense_Mutation_p.Q138K	NM_001191324.1|NM_016271.4	NP_001178253.2|NP_057355.2	Q8WVD3	RN138_HUMAN	ring finger protein 138, E3 ubiquitin protein ligase	232					protein ubiquitination (GO:0016567)|Wnt signaling pathway (GO:0016055)	nucleus (GO:0005634)	ligase activity (GO:0016874)|protein kinase binding (GO:0019901)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|kidney(1)|large_intestine(2)|lung(6)|skin(1)	12						TGAAGAAACCCAATACCAAAC	0.358																																																0													151	148	149					18																	29709106		2203	4300	6503	SO:0001583	missense	51444			AF162680	CCDS11903.1, CCDS11904.1	18q12.1	2013-01-28	2012-02-23		ENSG00000134758	ENSG00000134758		"RING-type (C3HC4) zinc fingers"	17765	protein-coding gene	gene with protein product	"nemo-like kinase associated ring finger protein"		"ring finger protein 138"			22155992, 16714285	Standard	NM_016271		Approved	STRIN, NARF	uc021uip.2	Q8WVD3	OTTHUMG00000132265	ENST00000261593.3:c.694C>A	18.37:g.29709106C>A	ENSP00000261593:p.Gln232Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2RE17|Q9H8K2|Q9UF87|Q9UKI6	Missense_Mutation	SNP	ENST00000261593.3	37	CCDS11903.1	.	.	.	.	.	.	.	.	.	.	C	16.42	3.119150	0.56505	.	.	ENSG00000134758	ENST00000261593;ENST00000257190	D	0.87491	-2.26	5.37	5.37	0.77165	.	0.000000	0.64402	D	0.000001	D	0.89928	0.6857	M	0.64997	1.995	0.80722	D	1	D;D	0.61697	0.99;0.976	P;P	0.53146	0.719;0.629	D	0.87443	0.2396	10	0.25751	T	0.34	-4.4744	19.4797	0.95005	0.0:1.0:0.0:0.0	.	138;232	Q8WVD3-2;Q8WVD3	.;RN138_HUMAN	K	232;138	ENSP00000261593:Q232K	ENSP00000257190:Q138K	Q	+	1	0	RNF138	27963104	0.997000	0.39634	0.993000	0.49108	0.845000	0.48019	4.841000	0.62824	2.684000	0.91462	0.650000	0.86243	CAA		0.358	RNF138-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255352.2	NM_016271		A	29709106	C	A	29709106	3	1	699	1	0	0	0	0	1	0	0	0	13454	595	21	4	720	4	RNF138	18	29709106	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10		29709106	48368142	163	45929										
SETBP1	26040	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	42533244	42533244	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ggaacgtacagggaaaaggaCatccaagccttcaagatgaa	11	8	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr18:42533244C>T	ENST00000282030.5	+	4	4235	c.3939C>T	c.(3937-3939)gaC>gaT	p.D1313D		NM_015559.2	NP_056374.2	Q9Y6X0	SETBP_HUMAN	SET binding protein 1	1313						nucleus (GO:0005634)	DNA binding (GO:0003677)			NS(1)|breast(2)|endometrium(9)|kidney(9)|large_intestine(20)|lung(47)|prostate(4)|skin(4)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	104				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GGGAAAAGGACATCCAAGCCT	0.443									Schinzel-Giedion syndrome																																							0													130	120	123					18																	42533244		2203	4300	6503	SO:0001819	synonymous_variant	26040	Familial Cancer Database	SGC, Schinzel-Giedion Midface Retraction syndrome	AB022660	CCDS11923.2, CCDS45859.1	18q21.1	2008-08-01			ENSG00000152217	ENSG00000152217			15573	protein-coding gene	gene with protein product		611060				11231286	Standard	NM_015559		Approved	SEB, KIAA0437	uc010dni.3	Q9Y6X0	OTTHUMG00000132613	ENST00000282030.5:c.3939C>T	18.37:g.42533244C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6H8W5|Q6P6C3|Q9UEF3	Silent	SNP	ENST00000282030.5	37	CCDS11923.2																																																																																				0.443	SETBP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255854.4	NM_001130110		T	42533244	C	T	42533244	2	4	699	1	0	0	0	0	0	0	0	1	14142	477	17	2		2	SETBP1	18	42533244	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	12824138	42533244	35544004	164	45930										
PTPRS	5802	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	5286082	5286082	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ttctgctgcacagcctccaaCgagcaggaccacaaggaggc	11	14	1	0	rs200430287	byFrequency	TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr19:5286082C>A	ENST00000587303.1	-	1	169	c.70G>T	c.(70-72)Gtt>Ttt	p.V24F	PTPRS_ENST00000588552.1_5'UTR|PTPRS_ENST00000262963.6_Missense_Mutation_p.V24F|PTPRS_ENST00000372412.4_Missense_Mutation_p.V24F|PTPRS_ENST00000588012.1_Missense_Mutation_p.V24F|PTPRS_ENST00000353284.2_Missense_Mutation_p.V24F|PTPRS_ENST00000592099.1_Missense_Mutation_p.V24F|PTPRS_ENST00000348075.2_Missense_Mutation_p.V24F|PTPRS_ENST00000590509.1_Missense_Mutation_p.V24F|PTPRS_ENST00000357368.4_Missense_Mutation_p.V24F			Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type, S	24					cell adhesion (GO:0007155)|cerebellum development (GO:0021549)|cerebral cortex development (GO:0021987)|corpus callosum development (GO:0022038)|extracellular matrix organization (GO:0030198)|hippocampus development (GO:0021766)|peptidyl-tyrosine dephosphorylation (GO:0035335)|spinal cord development (GO:0021510)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(1)|biliary_tract(1)|central_nervous_system(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(12)|liver(1)|lung(9)|ovary(4)|prostate(1)|skin(12)|stomach(2)|upper_aerodigestive_tract(1)	61				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)	Alendronate(DB00630)|Etidronic acid(DB01077)	CAGCCTCCAACGAGCAGGACC	0.617																																																0													52	46	48					19																	5286082		2203	4299	6502	SO:0001583	missense	5802			U35234	CCDS12139.1, CCDS12140.1, CCDS45930.1, CCDS74265.1	19p13.3	2013-02-11				ENSG00000105426		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	9681	protein-coding gene	gene with protein product		601576				8954782, 8524829	Standard	NM_002850		Approved		uc002mbv.3	Q13332		ENST00000587303.1:c.70G>T	19.37:g.5286082C>A	ENSP00000467537:p.Val24Phe	Somatic		WXS	Illumina HiSeq	Phase_I	O75255|O75870|Q15718|Q16341|Q2M3R7	Missense_Mutation	SNP	ENST00000587303.1	37	CCDS45930.1	.	.	.	.	.	.	.	.	.	.	C	6.878	0.531372	0.13127	.	.	ENSG00000105426	ENST00000536396;ENST00000372412;ENST00000357368;ENST00000355005;ENST00000356037;ENST00000262963;ENST00000348075;ENST00000355322;ENST00000544524;ENST00000353284	T;T;T;T;T	0.56776	0.62;0.61;0.57;0.44;0.53	4.14	1.83	0.25207	.	1.741500	0.04678	U	0.411808	T	0.32971	0.0847	N	0.08118	0	0.09310	N	0.999997	B;B;B;B;P;B;B	0.34462	0.275;0.207;0.275;0.275;0.454;0.089;0.18	B;B;B;B;B;B;B	0.34138	0.091;0.176;0.091;0.091;0.045;0.017;0.025	T	0.35251	-0.9796	10	0.59425	D	0.04	.	5.1867	0.15187	0.0:0.6502:0.2297:0.1202	.	24;24;24;24;24;24;50	F8W800;Q8NHS7;Q13332-7;F5H2T4;Q13332-6;Q13332;Q59FX6	.;.;.;.;.;PTPRS_HUMAN;.	F	50;24;24;24;24;24;24;24;24;24	ENSP00000361489:V24F;ENSP00000349932:V24F;ENSP00000262963:V24F;ENSP00000269907:V24F;ENSP00000327313:V24F	ENSP00000262963:V24F	V	-	1	0	PTPRS	5237082	0.861000	0.29849	0.878000	0.34440	0.011000	0.07611	1.123000	0.31308	0.973000	0.38340	-0.362000	0.07510	GTT		0.617	PTPRS-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000450762.2			A	5286082	C	A	5286082	3	1	699	1	0	0	0	0	1	0	0	0	12824	536	19	4	5924	4	PTPRS	19	5286082	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10		5286082	53842901	165	45931										
KEAP1	9817	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	10610178	10610178	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ggcattgctggggtccagctGctgcaccaggaagtcactgc	14	12	1	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr19:10610178G>A	ENST00000171111.5	-	2	1079	c.532C>T	c.(532-534)Cag>Tag	p.Q178*	KEAP1_ENST00000588024.1_5'UTR|KEAP1_ENST00000393623.2_Nonsense_Mutation_p.Q178*	NM_203500.1	NP_987096.1	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	178					cellular response to interleukin-4 (GO:0071353)|in utero embryonic development (GO:0001701)|proteasomal ubiquitin-independent protein catabolic process (GO:0010499)|protein ubiquitination (GO:0016567)|regulation of epidermal cell differentiation (GO:0045604)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	Cul3-RING ubiquitin ligase complex (GO:0031463)|cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|microtubule organizing center (GO:0005815)|midbody (GO:0030496)|nucleus (GO:0005634)				breast(3)|endometrium(2)|kidney(4)|large_intestine(4)|liver(2)|lung(69)|ovary(2)|pancreas(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	92			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)		Dimethyl fumarate(DB08908)	GGGTCCAGCTGCTGCACCAGG	0.572																																																0													137	109	118					19																	10610178		2203	4300	6503	SO:0001587	stop_gained	9817			AF361886	CCDS12239.1	19p13.2	2013-01-30				ENSG00000079999		"Kelch-like", "BTB/POZ domain containing"	23177	protein-coding gene	gene with protein product	"kelch-like family member 19"	606016					Standard	NM_012289		Approved	KIAA0132, MGC10630, MGC1114, MGC20887, MGC4407, MGC9454, INrf2, KLHL19	uc002mor.1	Q14145		ENST00000171111.5:c.532C>T	19.37:g.10610178G>A	ENSP00000171111:p.Gln178*	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPD5|Q6LEP0|Q8WTX1|Q9BPY9	Nonsense_Mutation	SNP	ENST00000171111.5	37	CCDS12239.1	.	.	.	.	.	.	.	.	.	.	G	38	6.966030	0.97967	.	.	ENSG00000079999	ENST00000171111;ENST00000393623	.	.	.	4.81	4.81	0.61882	.	0.116198	0.64402	D	0.000012	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.72032	D	0.01	.	15.3825	0.74669	0.0:0.0:1.0:0.0	.	.	.	.	X	178	.	ENSP00000171111:Q178X	Q	-	1	0	KEAP1	10471178	1.000000	0.71417	1.000000	0.80357	0.987000	0.75469	7.704000	0.84595	2.232000	0.73038	0.561000	0.74099	CAG		0.572	KEAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452000.1	NM_012289		A	10610178	G	A	10610178	4	1	699	1	0	0	0	0	0	1	0	0	8148	1328	46	2	1362	2	KEAP1	19	10610178	Nonsense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	5324096	10610178	48518805	166	45932										
BRD4	23476	bcgsc.ca	37	chr19	15353721	15353721	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gaccacttaccggttgagtaGgggtccgacttgtggtgccg	15	10	0	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr19:15353721G>T	ENST00000263377.2	-	14	3380	c.3159C>A	c.(3157-3159)ccC>ccA	p.P1053P		NM_058243.2	NP_490597.1	O60885	BRD4_HUMAN	bromodomain containing 4	1053	C-terminal (CTD) region.				cellular response to DNA damage stimulus (GO:0006974)|chromatin remodeling (GO:0006338)|chromosome segregation (GO:0007059)|histone H3-K14 acetylation (GO:0044154)|histone H4-K12 acetylation (GO:0043983)|inner cell mass cell proliferation (GO:0001833)|negative regulation of DNA damage checkpoint (GO:2000002)|positive regulation of DNA binding (GO:0043388)|positive regulation of G2/M transition of mitotic cell cycle (GO:0010971)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of transcription elongation from RNA polymerase II promoter (GO:0032968)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein phosphorylation (GO:0006468)|regulation of inflammatory response (GO:0050727)|regulation of phosphorylation of RNA polymerase II C-terminal domain (GO:1901407)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	chromosome (GO:0005694)|condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|positive transcription elongation factor complex b (GO:0008024)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|lysine-acetylated histone binding (GO:0070577)|p53 binding (GO:0002039)			breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(2)|lung(7)|ovary(2)|urinary_tract(1)	21			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			CGGTTGAGTAGGGGTCCGACT	0.622			T	C15orf55	lethal midline carcinoma of young people																																		Dom	yes		19	19p13.1	23476	bromodomain containing 4		E	0													42	31	35					19																	15353721		2194	4299	6493	SO:0001819	synonymous_variant	23476			Y12059	CCDS12328.1, CCDS46004.1	19p13.12	2013-09-20	2002-01-14		ENSG00000141867	ENSG00000141867			13575	protein-coding gene	gene with protein product	"chromosome-associated protein"	608749	"bromodomain-containing 4"			10938129	Standard	NM_058243		Approved	HUNKI, MCAP, CAP, HUNK1	uc002nar.3	O60885	OTTHUMG00000183252	ENST00000263377.2:c.3159C>A	19.37:g.15353721G>T		Somatic		WXS	Illumina HiSeq	Phase_1	O60433|Q4G0X8|Q86YS8|Q96PD3	Silent	SNP	ENST00000263377.2	37	CCDS12328.1																																																																																				0.622	BRD4-001	KNOWN	overlapping_uORF|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000465800.3	NM_058243		T	15353721	G	T	15353721	2	4	699	1	0	0	0	0	0	0	0	1	1506	987	35	4		4	BRD4	19	15353721	Silent	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	4743543	15353721	43775262	167	45933										
TSHZ3	57616	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	31769094	31769094	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ggagtgccgttctgggccttGttgattgcggatgtcactgt	15	8	2	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr19:31769094G>T	ENST00000240587.4	-	2	1932	c.1605C>A	c.(1603-1605)aaC>aaA	p.N535K		NM_020856.2	NP_065907.2	Q63HK5	TSH3_HUMAN	teashirt zinc finger homeobox 3	535					in utero embryonic development (GO:0001701)|kidney morphogenesis (GO:0060993)|kidney smooth muscle cell differentiation (GO:0072195)|lung development (GO:0030324)|metanephros development (GO:0001656)|musculoskeletal movement (GO:0050881)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of smooth muscle cell differentiation (GO:0051152)|regulation of respiratory gaseous exchange by neurological system process (GO:0002087)|sensory perception of touch (GO:0050975)|transcription, DNA-templated (GO:0006351)|ureter smooth muscle cell differentiation (GO:0072193)|ureteric bud development (GO:0001657)|ureteric peristalsis (GO:0072105)	growth cone (GO:0030426)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|metal ion binding (GO:0046872)			breast(4)|endometrium(15)|kidney(9)|large_intestine(20)|lung(60)|ovary(4)|pancreas(2)|prostate(4)|skin(5)	123	Esophageal squamous(110;0.226)					TCTGGGCCTTGTTGATTGCGG	0.522																																																0													138	137	138					19																	31769094		2203	4300	6503	SO:0001583	missense	57616			AL136805	CCDS12421.2	19q13.11	2013-11-20	2007-07-16	2006-03-14	ENSG00000121297	ENSG00000121297		"Teashirt zinc fingers", "Homeoboxes / ZF class", "Zinc fingers, C2H2-type"	30700	protein-coding gene	gene with protein product	"teashirt 3"	614119	"zinc finger protein 537", "teashirt family zinc finger 3"	ZNF537			Standard	NM_020856		Approved	KIAA1474, TSH3	uc002nsy.4	Q63HK5	OTTHUMG00000150184	ENST00000240587.4:c.1605C>A	19.37:g.31769094G>T	ENSP00000240587:p.Asn535Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H0G6|Q9P254	Missense_Mutation	SNP	ENST00000240587.4	37	CCDS12421.2	.	.	.	.	.	.	.	.	.	.	G	15.18	2.755931	0.49362	.	.	ENSG00000121297	ENST00000240587	T	0.47177	0.85	5.4	2.05	0.26809	.	0.000000	0.85682	D	0.000000	T	0.60599	0.2281	M	0.64404	1.975	0.58432	D	0.999998	D	0.63880	0.993	D	0.72982	0.979	T	0.57533	-0.7795	10	0.52906	T	0.07	-48.9465	9.5255	0.39162	0.3438:0.0:0.6562:0.0	.	535	Q63HK5	TSH3_HUMAN	K	535	ENSP00000240587:N535K	ENSP00000240587:N535K	N	-	3	2	TSHZ3	36460934	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	2.160000	0.42348	0.245000	0.21373	0.655000	0.94253	AAC		0.522	TSHZ3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316743.2	NM_020856		T	31769094	G	T	31769094	3	4	699	1	0	0	0	0	1	0	0	0	16637	1368	48	4	1644	4	TSHZ3	19	31769094	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	16415373	31769094	27359889	168	45934										
SLC7A9	11136	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	33350841	33350841	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	agcacgccgtcaccagggggAtcccgatgataatggccaaa	12	12	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr19:33350841A>G	ENST00000023064.4	-	8	970	c.779T>C	c.(778-780)aTc>aCc	p.I260T	RN7SKP22_ENST00000365097.1_RNA|SLC7A9_ENST00000587772.1_Missense_Mutation_p.I260T|SLC7A9_ENST00000590341.1_Missense_Mutation_p.I260T	NM_001126335.1|NM_001243036.1|NM_014270.4	NP_001119807.1|NP_001229965.1|NP_055085.1	P82251	BAT1_HUMAN	solute carrier family 7 (amino acid transporter light chain, bo,+ system), member 9	260					amino acid transport (GO:0006865)|blood coagulation (GO:0007596)|cellular amino acid metabolic process (GO:0006520)|ion transport (GO:0006811)|L-cystine transport (GO:0015811)|leukocyte migration (GO:0050900)|neutral amino acid transport (GO:0015804)|protein complex assembly (GO:0006461)|transmembrane transport (GO:0055085)|transport (GO:0006810)	brush border membrane (GO:0031526)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	amino acid transmembrane transporter activity (GO:0015171)|L-cystine transmembrane transporter activity (GO:0015184)|neutral amino acid transmembrane transporter activity (GO:0015175)|peptide antigen binding (GO:0042605)			breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(8)|lung(12)|ovary(1)|prostate(1)|skin(3)|urinary_tract(1)	32	Esophageal squamous(110;0.137)				L-Cystine(DB00138)	CACCAGGGGGATCCCGATGAT	0.607																																					GBM(181;1335 2108 9644 44178 46689)											0													100	82	88					19																	33350841		2203	4300	6503	SO:0001583	missense	11136			AF141289	CCDS12425.1	19q13.11	2013-07-19	2013-07-19		ENSG00000021488	ENSG00000021488		"Solute carriers"	11067	protein-coding gene	gene with protein product		604144		CSNU3		10471498	Standard	NM_014270		Approved		uc021usa.1	P82251	OTTHUMG00000180287	ENST00000023064.4:c.779T>C	19.37:g.33350841A>G	ENSP00000023064:p.Ile260Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9A6	Missense_Mutation	SNP	ENST00000023064.4	37	CCDS12425.1	.	.	.	.	.	.	.	.	.	.	A	19.17	3.776707	0.70107	.	.	ENSG00000021488	ENST00000023064	D	0.90620	-2.7	5.64	5.64	0.86602	Amino acid permease domain (1);	0.000000	0.85682	D	0.000000	D	0.95799	0.8633	M	0.87547	2.89	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.81914	0.995;0.995	D	0.96469	0.9347	10	0.87932	D	0	.	15.8639	0.79047	1.0:0.0:0.0:0.0	.	260;260	Q53FY4;P82251	.;BAT1_HUMAN	T	260	ENSP00000023064:I260T	ENSP00000023064:I260T	I	-	2	0	SLC7A9	38042681	1.000000	0.71417	1.000000	0.80357	0.388000	0.30384	9.192000	0.94947	2.161000	0.67846	0.379000	0.24179	ATC		0.607	SLC7A9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450585.1			G	33350841	A	G	33350841	3	3	699	1	0	0	0	0	1	0	0	0	14718	333	12	3	708	3	SLC7A9	19	33350841	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	1581747	33350841	25778142	169	45935										
CEBPA	1050	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	33793108	33793108	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	aggaactcgtcgttgaaggcGgccgggtcgatgtaggcgct	17	9	0	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr19:33793108G>T	ENST00000498907.2	-	1	362	c.213C>A	c.(211-213)gcC>gcA	p.A71A	CEBPA-AS1_ENST00000592982.2_RNA|CTD-2540B15.9_ENST00000593041.1_lincRNA|CTD-2540B15.7_ENST00000587312.1_RNA|CTD-2540B15.11_ENST00000589932.1_RNA	NM_004364.3	NP_004355.2	P49715	CEBPA_HUMAN	CCAAT/enhancer binding protein (C/EBP), alpha	71					acute-phase response (GO:0006953)|brown fat cell differentiation (GO:0050873)|cell maturation (GO:0048469)|cellular response to lithium ion (GO:0071285)|cellular response to organic cyclic compound (GO:0071407)|cholesterol metabolic process (GO:0008203)|cytokine-mediated signaling pathway (GO:0019221)|embryonic placenta development (GO:0001892)|generation of precursor metabolites and energy (GO:0006091)|inner ear development (GO:0048839)|liver development (GO:0001889)|lung development (GO:0030324)|macrophage differentiation (GO:0030225)|mitochondrion organization (GO:0007005)|myeloid cell differentiation (GO:0030099)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|organ regeneration (GO:0031100)|positive regulation of fat cell differentiation (GO:0045600)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|response to glucocorticoid (GO:0051384)|response to vitamin B2 (GO:0033274)|transcription from RNA polymerase II promoter (GO:0006366)|transcription, DNA-templated (GO:0006351)|urea cycle (GO:0000050)|viral process (GO:0016032)|white fat cell differentiation (GO:0050872)	nuclear matrix (GO:0016363)|nucleus (GO:0005634)|Rb-E2F complex (GO:0035189)	DNA binding (GO:0003677)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)	p.A72fs*89(1)|p.Y7_G130del(1)|p.A72fs*90(1)|p.A72fs*37(1)|p.S61fs*88(1)		cervix(1)|haematopoietic_and_lymphoid_tissue(912)|lung(5)|prostate(1)|stomach(1)	920	Esophageal squamous(110;0.137)					CGTTGAAGGCGGCCGGGTCGA	0.751			"Mis, N, F"		"AML, MDS"				Acute Myeloid Leukemia, Familial, associated with CEBPA germline mutation																														Dom	yes		19	19q13.1	1050	"CCAAT/enhancer binding protein (C/EBP), alpha"		L	5	Insertion - Frameshift(3)|Deletion - Frameshift(1)|Deletion - In frame(1)	haematopoietic_and_lymphoid_tissue(5)											4	5	4					19																	33793108		1229	2522	3751	SO:0001819	synonymous_variant	1050	Familial Cancer Database	Familial AML	M37197	CCDS54243.1	19q13.1	2014-09-17				ENSG00000245848		"basic leucine zipper proteins"	1833	protein-coding gene	gene with protein product		116897		CEBP		1535333, 1840554	Standard	NM_004364		Approved	C/EBP-alpha	uc002nun.3	P49715		ENST00000498907.2:c.213C>A	19.37:g.33793108G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7LNP2|P78319|Q05CA4	Silent	SNP	ENST00000498907.2	37	CCDS54243.1																																																																																				0.751	CEBPA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365012.1	NM_004364		T	33793108	G	T	33793108	2	4	699	1	0	0	0	0	0	0	0	1	3201	1103	39	4		4	CEBPA	19	33793108	Silent	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	442267	33793108	25335875	170	45936			1	136		2	2	13	G		7.36486e-05
CEBPA	1050	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	33793120	33793120	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ttgaaggcggccgggtcgatGtaggcgctgatgtcgatgga	18	7	0	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr19:33793120G>T	ENST00000498907.2	-	1	350	c.201C>A	c.(199-201)taC>taA	p.Y67*	CEBPA-AS1_ENST00000592982.2_RNA|CTD-2540B15.9_ENST00000593041.1_lincRNA|CTD-2540B15.7_ENST00000587312.1_RNA|CTD-2540B15.11_ENST00000589932.1_RNA	NM_004364.3	NP_004355.2	P49715	CEBPA_HUMAN	CCAAT/enhancer binding protein (C/EBP), alpha	67					acute-phase response (GO:0006953)|brown fat cell differentiation (GO:0050873)|cell maturation (GO:0048469)|cellular response to lithium ion (GO:0071285)|cellular response to organic cyclic compound (GO:0071407)|cholesterol metabolic process (GO:0008203)|cytokine-mediated signaling pathway (GO:0019221)|embryonic placenta development (GO:0001892)|generation of precursor metabolites and energy (GO:0006091)|inner ear development (GO:0048839)|liver development (GO:0001889)|lung development (GO:0030324)|macrophage differentiation (GO:0030225)|mitochondrion organization (GO:0007005)|myeloid cell differentiation (GO:0030099)|negative regulation of cell proliferation (GO:0008285)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|organ regeneration (GO:0031100)|positive regulation of fat cell differentiation (GO:0045600)|positive regulation of osteoblast differentiation (GO:0045669)|positive regulation of transcription from RNA polymerase III promoter (GO:0045945)|response to glucocorticoid (GO:0051384)|response to vitamin B2 (GO:0033274)|transcription from RNA polymerase II promoter (GO:0006366)|transcription, DNA-templated (GO:0006351)|urea cycle (GO:0000050)|viral process (GO:0016032)|white fat cell differentiation (GO:0050872)	nuclear matrix (GO:0016363)|nucleus (GO:0005634)|Rb-E2F complex (GO:0035189)	DNA binding (GO:0003677)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)	p.I68fs*41(4)|p.Y67fs*92(2)|p.S61fs*88(1)|p.Y67fs*95(1)|p.I68fs*39(1)|p.Y7_G130del(1)|p.Y67fs*42(1)|p.Y67fs*37(1)		cervix(1)|haematopoietic_and_lymphoid_tissue(912)|lung(5)|prostate(1)|stomach(1)	920	Esophageal squamous(110;0.137)					CCGGGTCGATGTAGGCGCTGA	0.751			"Mis, N, F"		"AML, MDS"				Acute Myeloid Leukemia, Familial, associated with CEBPA germline mutation																														Dom	yes		19	19q13.1	1050	"CCAAT/enhancer binding protein (C/EBP), alpha"		L	12	Insertion - Frameshift(6)|Deletion - Frameshift(5)|Deletion - In frame(1)	haematopoietic_and_lymphoid_tissue(12)											4	5	5					19																	33793120		1255	2546	3801	SO:0001587	stop_gained	1050	Familial Cancer Database	Familial AML	M37197	CCDS54243.1	19q13.1	2014-09-17				ENSG00000245848		"basic leucine zipper proteins"	1833	protein-coding gene	gene with protein product		116897		CEBP		1535333, 1840554	Standard	NM_004364		Approved	C/EBP-alpha	uc002nun.3	P49715		ENST00000498907.2:c.201C>A	19.37:g.33793120G>T	ENSP00000427514:p.Tyr67*	Somatic		WXS	Illumina HiSeq	Phase_I	A7LNP2|P78319|Q05CA4	Nonsense_Mutation	SNP	ENST00000498907.2	37	CCDS54243.1	.	.	.	.	.	.	.	.	.	.	g	33	5.204863	0.95033	.	.	ENSG00000245848	ENST00000498907	.	.	.	3.93	2.89	0.33648	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	7.1768	0.25749	0.2127:0.0:0.7873:0.0	.	.	.	.	X	67	.	ENSP00000427514:Y67X	Y	-	3	2	CEBPA	38484960	1.000000	0.71417	1.000000	0.80357	0.663000	0.39108	5.273000	0.65564	0.631000	0.30412	0.282000	0.19409	TAC		0.751	CEBPA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365012.1	NM_004364		T	33793120	G	T	33793120	4	4	699	1	0	0	0	0	0	1	0	0	3201	1372	48	4	879	4	CEBPA	19	33793120	Nonsense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	12	33793120	25335863	171	45937			1	136		2	2	13	G		7.36486e-05
WTIP	126374	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	34991065	34991065	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gcagctgagcggggaggaggGacgccgttgctatcccctgg	18	11	0	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr19:34991065G>A	ENST00000590071.2	+	8	1521	c.1184G>A	c.(1183-1185)gGa>gAa	p.G395E	WTIP_ENST00000270288.6_Missense_Mutation_p.G619E	NM_001080436.1	NP_001073905.1	A6NIX2	WTIP_HUMAN	Wilms tumor 1 interacting protein	395	LIM zinc-binding 3. {ECO:0000255|PROSITE- ProRule:PRU00125}.				cytoskeleton organization (GO:0007010)|gene silencing by miRNA (GO:0035195)|negative regulation of hippo signaling (GO:0035331)|positive regulation of gene silencing by miRNA (GO:2000637)|regulation of cell morphogenesis (GO:0022604)|regulation of transcription, DNA-templated (GO:0006355)|response to hypoxia (GO:0001666)|transcription, DNA-templated (GO:0006351)	cell junction (GO:0030054)|cytoplasmic mRNA processing body (GO:0000932)|nucleus (GO:0005634)	transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			NS(1)|large_intestine(2)|lung(1)	4	all_lung(56;5.94e-07)|Lung NSC(56;9.35e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			GGGGAGGAGGGACGCCGTTGC	0.667																																																0													32	40	38					19																	34991065		2142	4235	6377	SO:0001583	missense	126374			AK130059	CCDS59375.1	19q13.11	2012-03-16			ENSG00000142279	ENSG00000142279			20964	protein-coding gene	gene with protein product	"WT1-interacting protein"	614790				14736876	Standard	NM_001080436		Approved		uc002nvm.3	A6NIX2		ENST00000590071.2:c.1184G>A	19.37:g.34991065G>A	ENSP00000466953:p.Gly395Glu	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000590071.2	37	CCDS59375.1	.	.	.	.	.	.	.	.	.	.	G	17.23	3.337153	0.60963	.	.	ENSG00000142279	ENST00000270288	T	0.63580	-0.05	4.35	4.35	0.52113	Zinc finger, LIM-type (4);	0.000000	0.85682	D	0.000000	T	0.72835	0.3510	M	0.76838	2.35	0.80722	D	1	P	0.37370	0.592	P	0.47528	0.549	T	0.77760	-0.2467	10	0.66056	D	0.02	.	15.9833	0.80130	0.0:0.0:1.0:0.0	.	619	A6NIX2	WTIP_HUMAN	E	619	ENSP00000270288:G619E	ENSP00000270288:G619E	G	+	2	0	WTIP	39682905	1.000000	0.71417	0.991000	0.47740	0.294000	0.27393	9.098000	0.94202	2.101000	0.63845	0.305000	0.20034	GGA		0.667	WTIP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459381.3	XM_059037		A	34991065	G	A	34991065	3	1	699	1	0	0	0	0	1	0	0	0	17422	1174	41	2	1214	2	WTIP	19	34991065	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	1197945	34991065	24137918	172	45938										
LSR	51599	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	35758028	35758028	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gcagccatgagtgaagtcacCtccctccacgaggacgactg	11	14	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr19:35758028C>A	ENST00000361790.3	+	9	1464	c.1305C>A	c.(1303-1305)acC>acA	p.T435T	AD000684.2_ENST00000602262.1_RNA|LSR_ENST00000360798.3_Silent_p.T367T|USF2_ENST00000222305.3_5'Flank|LSR_ENST00000427250.1_Silent_p.T279T|LSR_ENST00000347609.4_Silent_p.T377T|LSR_ENST00000354900.3_Silent_p.T416T|USF2_ENST00000594064.1_5'Flank|USF2_ENST00000343550.5_5'Flank|USF2_ENST00000379134.3_5'Flank|USF2_ENST00000595068.1_5'Flank|LSR_ENST00000602122.1_Silent_p.T415T	NM_205834.3	NP_991403.1	Q86X29	LSR_HUMAN	lipolysis stimulated lipoprotein receptor	435					embryo development (GO:0009790)|liver development (GO:0001889)	chylomicron (GO:0042627)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|low-density lipoprotein particle (GO:0034362)|plasma membrane (GO:0005886)|very-low-density lipoprotein particle (GO:0034361)				breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(1)|lung(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	13	all_lung(56;3.91e-09)|Lung NSC(56;5.64e-09)|Esophageal squamous(110;0.162)		Epithelial(14;1.33e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.29e-18)|all cancers(14;7.11e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)			GTGAAGTCACCTCCCTCCACG	0.677																																																0													31	40	37					19																	35758028		2134	4246	6380	SO:0001819	synonymous_variant	51599			AF130366	CCDS12449.1, CCDS12450.1, CCDS12451.1, CCDS59376.1	19q13.12	2013-01-11			ENSG00000105699	ENSG00000105699		"Immunoglobulin superfamily / Immunoglobulin-like domain containing"	29572	protein-coding gene	gene with protein product	"lipolysis-stimulated remnant", "immunoglobulin-like domain containing receptor 3"					10224102	Standard	NM_015925		Approved	LISCH7, ILDR3	uc002nyl.3	Q86X29		ENST00000361790.3:c.1305C>A	19.37:g.35758028C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NDW3|B4DKL4|E9PHD4|O00112|O00426|Q6ZT80|Q8NBM0|Q9BT33|Q9UQL3	Silent	SNP	ENST00000361790.3	37	CCDS12450.1																																																																																				0.677	LSR-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465513.2	NM_015925		A	35758028	C	A	35758028	2	1	699	1	0	0	0	0	0	0	0	1	9071	668	24	4		4	LSR	19	35758028	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	766963	35758028	23370955	173	45939										
ARHGAP33	115703	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr19	36279064	36279064	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ccccgaagccgttcagatccCggtcccccagtcccccgcct	8	22	1	1	rs182833371		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr19:36279064C>T	ENST00000007510.4	+	21	3741	c.3597C>T	c.(3595-3597)ccC>ccT	p.P1199P	ARHGAP33_ENST00000314737.5_Silent_p.P1038P|AC002398.5_ENST00000433059.1_lincRNA|ARHGAP33_ENST00000378944.5_Silent_p.P1035P			O14559	RHG33_HUMAN	Rho GTPase activating protein 33	1199					protein transport (GO:0015031)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|plasma membrane (GO:0005886)	phosphatidylinositol binding (GO:0035091)|Rac GTPase activator activity (GO:0030675)			endometrium(7)|large_intestine(8)|lung(13)|ovary(1)|pancreas(1)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	37						GTTCAGATCCCGGTCCCCCAG	0.687													C|||	0	0.0	0.0	0.0	5008	,	,		10087	0.0		0.0	False		,,,				2504	0.0															0													23	30	27					19																	36279064		2187	4285	6472	SO:0001819	synonymous_variant	115703			AY044864	CCDS12477.1, CCDS54254.1	19q13.13	2011-06-29	2010-02-19	2010-02-19		ENSG00000004777		"Rho GTPase activating proteins"	23085	protein-coding gene	gene with protein product		614902	"sorting nexin 26"	SNX26		12297274, 12461558	Standard	NM_052948		Approved	FLJ39019, TCGAP	uc002obs.2	O14559		ENST00000007510.4:c.3597C>T	19.37:g.36279064C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O14552|O14560|Q6ZSP6|Q96CP3|Q9NT23	Silent	SNP	ENST00000007510.4	37																																																																																					0.687	ARHGAP33-201	KNOWN	basic	protein_coding	protein_coding		NM_052948		T	36279064	C	T	36279064	2	4	699	1	0	0	0	0	0	0	0	1	882	639	23	1		1	ARHGAP33	19	36279064	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	521036	36279064	22849919	174	45940										
FCGBP	8857	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	40357745	40357745	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ctcgctgcagtctgaggtcaGcagggaggagtttacctgtg	15	9	2	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr19:40357745G>T	ENST00000221347.6	-	34	15575	c.15568C>A	c.(15568-15570)Ctg>Atg	p.L5190M		NM_003890.2	NP_003881.2	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein	5190	Cys-rich.					extracellular vesicular exosome (GO:0070062)				NS(3)|autonomic_ganglia(1)|breast(7)|central_nervous_system(5)|endometrium(13)|kidney(9)|large_intestine(27)|lung(49)|ovary(8)|pancreas(3)|prostate(13)|skin(9)|stomach(9)|upper_aerodigestive_tract(6)|urinary_tract(3)	165	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)			TCTGAGGTCAGCAGGGAGGAG	0.577																																																0													52	48	49					19																	40357745		2203	4300	6503	SO:0001583	missense	8857			D84239		19q13.2	2013-09-20			ENSG00000090920	ENSG00000275395			13572	protein-coding gene	gene with protein product	"IgG Fc binding protein", "Human Fc gamma BP"					9182547	Standard	NM_003890		Approved	FC(GAMMA)BP	uc002omp.4	Q9Y6R7	OTTHUMG00000182580	ENST00000221347.6:c.15568C>A	19.37:g.40357745G>T	ENSP00000221347:p.Leu5190Met	Somatic		WXS	Illumina HiSeq	Phase_I	O95784	Missense_Mutation	SNP	ENST00000221347.6	37	CCDS12546.1	.	.	.	.	.	.	.	.	.	.	G	13.72	2.321017	0.41096	.	.	ENSG00000090920	ENST00000221347	T	0.05649	3.41	4.69	1.09	0.20402	.	0.754197	0.11458	N	0.562013	T	0.07728	0.0194	L	0.28694	0.88	0.22796	N	0.99872	P	0.46395	0.877	P	0.51016	0.656	T	0.39702	-0.9601	10	0.23302	T	0.38	.	7.3143	0.26491	0.0:0.3807:0.4452:0.1741	.	5190	Q9Y6R7	FCGBP_HUMAN	M	5190	ENSP00000221347:L5190M	ENSP00000221347:L5190M	L	-	1	2	FCGBP	45049585	0.892000	0.30473	0.997000	0.53966	0.846000	0.48090	0.111000	0.15458	0.563000	0.29222	0.655000	0.94253	CTG		0.577	FCGBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462507.1	NM_003890		T	40357745	G	T	40357745	3	4	699	1	0	0	0	0	1	0	0	0	5785	962	34	4	661	4	FCGBP	19	40357745	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	4078681	40357745	18771238	175	45941										
NUP62	23636	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	50412996	50412996	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	gtagcaggtgtggttgttgcCgtctttgcagtgccaaacgt	14	8	1	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr19:50412996C>T	ENST00000596217.1	-	2	1956	c.69G>A	c.(67-69)acG>acA	p.T23T	IL4I1_ENST00000595948.1_Intron|NUP62_ENST00000422090.2_Silent_p.T23T|NUP62_ENST00000413454.1_Silent_p.T23T|CTC-326K19.6_ENST00000451973.1_3'UTR|NUP62_ENST00000597723.1_Silent_p.T23T|NUP62_ENST00000597029.1_Silent_p.T23T|NUP62_ENST00000352066.3_Silent_p.T23T|NUP62_ENST00000600583.1_5'UTR|IL4I1_ENST00000341114.3_Intron			P37198	NUP62_HUMAN	nucleoporin 62kDa	23	15 X 9 AA approximate repeats.|Thr-rich.				carbohydrate metabolic process (GO:0005975)|cell aging (GO:0007569)|cell death (GO:0008219)|cell surface receptor signaling pathway (GO:0007166)|cytokine-mediated signaling pathway (GO:0019221)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|hormone-mediated signaling pathway (GO:0009755)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cell proliferation (GO:0008285)|negative regulation of epidermal growth factor receptor signaling pathway (GO:0042059)|negative regulation of MAP kinase activity (GO:0043407)|negative regulation of programmed cell death (GO:0043069)|negative regulation of Ras protein signal transduction (GO:0046580)|nucleocytoplasmic transport (GO:0006913)|positive regulation of epidermal growth factor receptor signaling pathway (GO:0045742)|positive regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043123)|positive regulation of transcription, DNA-templated (GO:0045893)|protein transport (GO:0015031)|regulation of glucose transport (GO:0010827)|regulation of Ras protein signal transduction (GO:0046578)|regulation of signal transduction (GO:0009966)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|intracellular membrane-bounded organelle (GO:0043231)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)|nuclear pore (GO:0005643)|nucleocytoplasmic shuttling complex (GO:0031074)|pore complex (GO:0046930)|ribonucleoprotein complex (GO:0030529)	chromatin binding (GO:0003682)|receptor signaling complex scaffold activity (GO:0030159)|SH2 domain binding (GO:0042169)|structural constituent of nuclear pore (GO:0017056)|thyroid hormone receptor binding (GO:0046966)|ubiquitin binding (GO:0043130)			breast(2)|endometrium(1)|kidney(1)|large_intestine(4)|lung(8)|stomach(1)|urinary_tract(2)	19		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00242)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		TGGTTGTTGCCGTCTTTGCAG	0.567																																																0													48	55	53					19																	50412996		2203	4300	6503	SO:0001819	synonymous_variant	23636			X58521	CCDS12788.1	19q13.33	2013-09-20	2002-08-29		ENSG00000213024	ENSG00000213024			8066	protein-coding gene	gene with protein product	"nuclear pore glycoprotein p62"	605815	"nucleoporin 62kD"			1915414	Standard	NM_016553		Approved	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869	uc002pqx.3	P37198	OTTHUMG00000183077	ENST00000596217.1:c.69G>A	19.37:g.50412996C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B3KWU5|Q503A4|Q6GTM2|Q96C43|Q9NSL1	Silent	SNP	ENST00000596217.1	37	CCDS12788.1																																																																																				0.567	NUP62-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000464991.1	NM_153719		T	50412996	C	T	50412996	2	4	699	1	0	0	0	0	0	0	0	1	10775	639	23	1		1	NUP62	19	50412996	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	10055251	50412996	8715987	176	45942										
MBOAT7	79143	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	54687463	54687463	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tctccatcagggagggcacgTcgggcagcagccccagggtg	16	13	2	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr19:54687463T>A	ENST00000245615.1	-	5	914	c.434A>T	c.(433-435)gAc>gTc	p.D145V	MBOAT7_ENST00000474910.1_5'UTR|MBOAT7_ENST00000338624.6_Missense_Mutation_p.D72V|MBOAT7_ENST00000431666.2_Missense_Mutation_p.D72V|MBOAT7_ENST00000391754.1_Missense_Mutation_p.D145V	NM_024298.3	NP_077274.3	Q96N66	MBOA7_HUMAN	membrane bound O-acyltransferase domain containing 7	145					glycerophospholipid biosynthetic process (GO:0046474)|layer formation in cerebral cortex (GO:0021819)|phosphatidylinositol acyl-chain remodeling (GO:0036149)|phospholipid metabolic process (GO:0006644)|small molecule metabolic process (GO:0044281)|ventricular system development (GO:0021591)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	lysophospholipid acyltransferase activity (GO:0071617)			endometrium(4)|large_intestine(1)|lung(3)|prostate(1)|skin(1)	10	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GGAGGGCACGTCGGGCAGCAG	0.617																																					NSCLC(97;826 2151 10470 22540)											0													105	84	91					19																	54687463		2203	4300	6503	SO:0001583	missense	79143			AF211969	CCDS12883.1, CCDS54315.1, CCDS54316.1	19q13.4	2008-12-15	2008-01-17	2008-01-17	ENSG00000125505	ENSG00000125505			15505	protein-coding gene	gene with protein product	"lysophosphatidylinositol acyltransferase"	606048	"leukocyte receptor cluster (LRC) member 4"	LENG4		10941842, 8702217, 18094042	Standard	NM_024298		Approved	BB1, hMBOA-7, LPIAT	uc002qdr.3	Q96N66	OTTHUMG00000066516	ENST00000245615.1:c.434A>T	19.37:g.54687463T>A	ENSP00000245615:p.Asp145Val	Somatic		WXS	Illumina HiSeq	Phase_I	A9C4B6|B0V3I5|B4DQ87|Q05DF0|Q7L5N2|Q99908|Q9BPV2|Q9BRE9	Missense_Mutation	SNP	ENST00000245615.1	37	CCDS12883.1	.	.	.	.	.	.	.	.	.	.	T	8.074	0.770996	0.15983	.	.	ENSG00000125505	ENST00000431666;ENST00000338624;ENST00000245615;ENST00000449249;ENST00000391754;ENST00000414665;ENST00000453320	T;T;T;T;T	0.72835	-0.69;-0.69;-0.69;-0.69;-0.69	4.2	1.95	0.26073	.	0.659654	0.15733	N	0.247337	T	0.46718	0.1407	N	0.20685	0.6	0.09310	N	1	B;B;B	0.30973	0.033;0.302;0.033	B;B;B	0.21917	0.023;0.037;0.023	T	0.28650	-1.0037	10	0.40728	T	0.16	-2.1121	4.0508	0.09795	0.0:0.1914:0.1877:0.6209	.	127;72;145	B4DDH8;Q96N66-2;Q96N66	.;.;MBOA7_HUMAN	V	72;72;145;97;145;145;145	ENSP00000410503:D72V;ENSP00000344377:D72V;ENSP00000245615:D145V;ENSP00000375634:D145V;ENSP00000388250:D145V	ENSP00000245615:D145V	D	-	2	0	MBOAT7	59379275	0.001000	0.12720	0.058000	0.19502	0.792000	0.44763	1.025000	0.30090	1.714000	0.51371	0.363000	0.22086	GAC		0.617	MBOAT7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000142203.1	NM_024298		A	54687463	T	A	54687463	3	1	699	1	0	0	0	0	1	0	0	0	9365	1667	58	5	1004	5	MBOAT7	19	54687463	Missense_Mutation	SNP	T	TCGA-P4-A5EB-01A-11D-A28G-10	4274467	54687463	4441520	177	45943										
PTPRH	5794	broad.mit.edu	37	chr19	55716805	55716805	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	atccacggtgatgttagtgtGtgctgtgcttcgagtccctg	13	9	0	1	rs200319382		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr19:55716805G>A	ENST00000376350.3	-	4	530	c.508C>T	c.(508-510)Cac>Tac	p.H170Y	PTPRH_ENST00000263434.5_Intron|PTPRH_ENST00000588559.1_5'UTR	NM_002842.3	NP_002833.3	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	170	Fibronectin type-III 2. {ECO:0000255|PROSITE-ProRule:PRU00316}.				apoptotic process (GO:0006915)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)	cytoplasm (GO:0005737)|integral component of plasma membrane (GO:0005887)	transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			breast(2)|central_nervous_system(3)|endometrium(4)|kidney(3)|large_intestine(8)|lung(27)|ovary(2)|prostate(5)|skin(10)|upper_aerodigestive_tract(1)|urinary_tract(2)	67		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)		ATGTTAGTGTGTGCTGTGCTT	0.567													t|||	1	0.000199681	0.0	0.0	5008	,	,		19765	0.001		0.0	False		,,,				2504	0.0															0													162	144	150					19																	55716805		2203	4299	6502	SO:0001583	missense	5794				CCDS33110.1, CCDS54321.1	19q13.4	2013-02-11				ENSG00000080031		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Fibronectin type III domain containing"	9672	protein-coding gene	gene with protein product		602510				8294459	Standard	XM_006723312		Approved	SAP-1	uc002qjq.3	Q9HD43		ENST00000376350.3:c.508C>T	19.37:g.55716805G>A	ENSP00000365528:p.His170Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	C9JCH2|Q15426|Q2NKN9|Q2NKP0	Missense_Mutation	SNP	ENST00000376350.3	37	CCDS33110.1	.	.	.	.	.	.	.	.	.	.	t	14.77	2.635065	0.47049	.	.	ENSG00000080031	ENST00000376350	T	0.57436	0.4	3.93	-1.55	0.08558	Fibronectin, type III (4);Immunoglobulin-like fold (1);	3.173960	0.01664	N	0.025272	T	0.37046	0.0989	N	0.14661	0.345	0.09310	N	1	B	0.31519	0.327	B	0.35607	0.206	T	0.21759	-1.0236	10	0.51188	T	0.08	.	4.2695	0.10780	0.0:0.3384:0.3199:0.3416	.	170	Q9HD43	PTPRH_HUMAN	Y	170	ENSP00000365528:H170Y	ENSP00000365528:H170Y	H	-	1	0	PTPRH	60408617	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-2.994000	0.00656	-0.644000	0.05465	-2.191000	0.00312	CAC		0.567	PTPRH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000452649.1			A	55716805	G	A	55716805	3	1	699	1	0	0	0	0	1	0	0	0	12816	1377	48	2	2907	2	PTPRH	19	55716805	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	1029342	55716805	3412178	178	45944										
ZNF814	730051	bcgsc.ca	37	chr19	58385280	58385281	+	Frame_Shift_Del	DEL	TG	TG	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	atttcccacattctccacacTgataaggtctttctccactg							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	TG	TG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr19:58385280_58385281delTG	ENST00000435989.2	-	3	1711_1712	c.1477_1478delCA	c.(1477-1479)cagfs	p.Q493fs	ZNF814_ENST00000597342.1_Intron|ZNF814_ENST00000600634.1_Intron|ZNF814_ENST00000597832.1_Intron|ZNF814_ENST00000596604.1_Intron|ZNF814_ENST00000595295.1_Intron	NM_001144989.1	NP_001138461.1	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	493					regulation of transcription, DNA-templated (GO:0006355)	intracellular (GO:0005622)	metal ion binding (GO:0046872)|nucleic acid binding (GO:0003676)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(9)|lung(2)|prostate(4)|skin(1)|urinary_tract(3)	25						TTCTCCACACTGATAAGGTCTT	0.47																																																0																																										SO:0001589	frameshift_variant	730051				CCDS46212.1	19q13.43	2013-01-08			ENSG00000204514	ENSG00000204514		"Zinc fingers, C2H2-type", "-"	33258	protein-coding gene	gene with protein product							Standard	NM_001144989		Approved		uc002qqo.2	B7Z6K7		ENST00000435989.2:c.1477_1478delCA	19.37:g.58385280_58385281delTG	ENSP00000410545:p.Gln493fs	Somatic		WXS	Illumina HiSeq	Phase_1	A6NF35	Frame_Shift_Del	DEL	ENST00000435989.2	37	CCDS46212.1																																																																																				0.47	ZNF814-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466976.1	XM_001725708		-	58385281	TG	-	58385280	7	5	699	1	0	1	0	1	0	0	0	0	18188	1580	55	0	1093	0	ZNF814	19	58385280	Frame_Shift_Del	DEL	TG	TCGA-P4-A5EB-01A-11D-A28G-10	2668475	58385280	743703	179	45945										
KCNK15	140730	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	43378853	43378853	+	IGR	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tgggcatcccgctgacgctgGtcactttccagagcctgggc	13	14	1	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr20:43378853G>A	ENST00000372851.3	-	0	5203				KCNK15_ENST00000372861.3_Missense_Mutation_p.V123I	NM_001205317.1|NM_182970.3	NP_001192246.1|NP_892015.1	Q9H426	RIMS4_HUMAN	regulating synaptic membrane exocytosis 4						exocytosis (GO:0006887)|neurotransmitter transport (GO:0006836)|regulation of membrane potential (GO:0042391)	cell junction (GO:0030054)|presynaptic active zone (GO:0048786)|synaptic membrane (GO:0097060)				central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(11)|ovary(5)|urinary_tract(1)	29		Myeloproliferative disorder(115;0.0122)				GCTGACGCTGGTCACTTTCCA	0.682																																																0													35	31	33					20																	43378853		2203	4300	6503	SO:0001628	intergenic_variant	60598				CCDS13338.1, CCDS56191.1	20q13.12	2005-02-03	2003-06-18	2003-06-20	ENSG00000101098	ENSG00000101098			16183	protein-coding gene	gene with protein product		611601	"chromosome 20 open reading frame 190"	C20orf190		12620390	Standard	NM_182970		Approved	dJ781B1.3	uc010ggu.3	Q9H426	OTTHUMG00000032546		20.37:g.43378853G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A4FU94|E1P613|Q3MI44|Q5JWT7	Missense_Mutation	SNP	ENST00000372851.3	37	CCDS13338.1	.	.	.	.	.	.	.	.	.	.	G	23.5	4.418600	0.83559	.	.	ENSG00000124249	ENST00000372861	T	0.28454	1.61	4.08	4.08	0.47627	Ion transport 2 (1);	0.000000	0.64402	U	0.000004	T	0.43100	0.1232	L	0.31578	0.945	0.54753	D	0.999989	D	0.69078	0.997	D	0.72075	0.976	T	0.38351	-0.9665	10	0.45353	T	0.12	.	16.4786	0.84151	0.0:0.0:1.0:0.0	.	123	Q9H427	KCNKF_HUMAN	I	123	ENSP00000361952:V123I	ENSP00000361952:V123I	V	+	1	0	KCNK15	42812267	1.000000	0.71417	0.999000	0.59377	0.904000	0.53231	6.347000	0.73004	2.095000	0.63458	0.655000	0.94253	GTC		0.682	RIMS4-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000101027.2	NM_182970		A	43378853	G	A	43378853	1	1	699	0	1	0	0	0	0	0	0	0	8069	1261	44	2		2	KCNK15	20	43378853	IGR	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10		43378853	19646667	180	45946										
EYA2	2139	bcgsc.ca	37	chr20	45801422	45801422	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ccaacctgtgcctgggctctGgcgtgcacggcggcgtggac	16	14	1	0			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr20:45801422G>C	ENST00000327619.5	+	12	1479	c.1105G>C	c.(1105-1107)Ggc>Cgc	p.G369R	EYA2_ENST00000357410.3_Missense_Mutation_p.G369R|EYA2_ENST00000317304.6_Missense_Mutation_p.G339R	NM_005244.4	NP_005235.3	O00167	EYA2_HUMAN	EYA transcriptional coactivator and phosphatase 2	369					DNA repair (GO:0006281)|extrinsic apoptotic signaling pathway in absence of ligand (GO:0097192)|histone dephosphorylation (GO:0016576)|mesodermal cell fate specification (GO:0007501)|mitochondrial outer membrane permeabilization (GO:0097345)|peptidyl-tyrosine dephosphorylation (GO:0035335)|regulation of transcription, DNA-templated (GO:0006355)|striated muscle tissue development (GO:0014706)|transcription, DNA-templated (GO:0006351)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|nucleus (GO:0005634)	magnesium ion binding (GO:0000287)|protein tyrosine phosphatase activity (GO:0004725)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(7)|lung(11)|ovary(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	32		Myeloproliferative disorder(115;0.0241)				CCTGGGCTCTGGCGTGCACGG	0.597																																					Pancreas(120;56 1725 18501 25218 43520)											0													116	94	101					20																	45801422		2203	4300	6503	SO:0001583	missense	2139				CCDS13403.1, CCDS54471.1	20q13.1	2014-06-19	2014-06-19		ENSG00000064655	ENSG00000064655		"Protein tyrosine phosphatases / Asp-based PTPs"	3520	protein-coding gene	gene with protein product		601654	"eyes absent (Drosophila) homolog 2", "eyes absent homolog 2 (Drosophila)"			9020840	Standard	NM_005244		Approved	EAB1	uc002xsm.3	O00167	OTTHUMG00000033041	ENST00000327619.5:c.1105G>C	20.37:g.45801422G>C	ENSP00000333640:p.Gly369Arg	Somatic		WXS	Illumina HiSeq	Phase_1	Q5JSW8|Q86U84|Q96CV6|Q96H97|Q99503|Q99812|Q9BWF6|Q9H4S3|Q9H4S9|Q9NPZ4|Q9UIX7	Missense_Mutation	SNP	ENST00000327619.5	37	CCDS13403.1	.	.	.	.	.	.	.	.	.	.	G	20.5	4.006264	0.74932	.	.	ENSG00000064655	ENST00000327619;ENST00000357410;ENST00000484200;ENST00000317304	D;D;D	0.82081	-1.57;-1.57;-1.57	5.59	3.66	0.41972	EYA (1);Haloacid dehalogenase-like hydrolase (1);	0.052802	0.85682	N	0.000000	D	0.91150	0.7213	M	0.86864	2.845	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	1.0;1.0;1.0;1.0	D	0.91363	0.5113	10	0.87932	D	0	-14.6465	11.6637	0.51363	0.1423:0.0:0.8577:0.0	.	369;339;369;369	O00167-3;E7ETN2;A8KAG7;O00167	.;.;.;EYA2_HUMAN	R	369;369;339;339	ENSP00000333640:G369R;ENSP00000349986:G369R;ENSP00000321590:G339R	ENSP00000321590:G339R	G	+	1	0	EYA2	45234829	1.000000	0.71417	0.016000	0.15963	0.779000	0.44077	9.719000	0.98760	0.733000	0.32492	0.655000	0.94253	GGC		0.597	EYA2-005	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080326.2	NM_005244		C	45801422	G	C	45801422	3	2	699	1	0	0	0	0	1	0	0	0	5331	1348	47	4	1147	4	EYA2	20	45801422	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	2422569	45801422	17224098	181	45947										
LIPI	149998	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	15554119	15554119	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	acatccacaaactttgcatcCgtgtaatctaatctgctata	4	11	2	0	rs368826576		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr21:15554119C>T	ENST00000536861.1	-	4	602	c.603G>A	c.(601-603)acG>acA	p.T201T	LIPI_ENST00000344577.2_Silent_p.T222T			Q6XZB0	LIPI_HUMAN	lipase, member I	201					lipid catabolic process (GO:0016042)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|membrane (GO:0016020)|plasma membrane (GO:0005886)	heparin binding (GO:0008201)|phospholipase activity (GO:0004620)			endometrium(1)|kidney(13)|large_intestine(9)|liver(3)|lung(24)|ovary(3)|urinary_tract(1)	54				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		ACTTTGCATCCGTGTAATCTA	0.388																																																0								A		0,4406		0,0,2203	104	98	100		666	-5.4	0.9	21		100	1,8599		0,1,4299	no	coding-synonymous	LIPI	NM_198996.2		0,1,6502	TT,TC,CC		0.0116,0.0,0.0077		222/482	15554119	1,13005	2203	4300	6503	SO:0001819	synonymous_variant	149998			BC028732	CCDS13564.1	21q11.2	2012-07-31			ENSG00000188992	ENSG00000188992			18821	protein-coding gene	gene with protein product	"membrane-associated phospholipase A1 beta", "cancer/testis antigen 17"	609252				12719377	Standard	XM_005260924		Approved	PRED5, LPDL, CT17, mPA-PLA1beta, PLA1C	uc002yjm.3	Q6XZB0	OTTHUMG00000074258	ENST00000536861.1:c.603G>A	21.37:g.15554119C>T		Somatic		WXS	Illumina HiSeq	Phase_I	G1JSG3|G1JSG4|G1JSG5|G1JSG6|G1JSG7|G1JSG8|G1JSG9	Silent	SNP	ENST00000536861.1	37		.	.	.	.	.	.	.	.	.	.	A	8.536	0.872084	0.17322	0.0	1.16E-4	ENSG00000188992	ENST00000400211	.	.	.	5.46	-5.41	0.02648	.	.	.	.	.	T	0.35508	0.0934	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.36648	-0.9739	4	.	.	.	.	1.1112	0.01704	0.2909:0.094:0.2357:0.3795	.	.	.	.	R	81	.	.	G	-	1	0	LIPI	14475990	0.021000	0.18746	0.905000	0.35620	0.056000	0.15407	-0.820000	0.04457	-1.108000	0.03000	-4.655000	0.00004	GGA		0.388	LIPI-201	KNOWN	basic|appris_candidate	protein_coding	protein_coding		NM_198996		T	15554119	C	T	15554119	2	4	699	1	0	0	0	0	0	0	0	1	8832	639	23	1		1	LIPI	21	15554119	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10		15554119	32575776	182	45948										
NCAM2	4685	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	22906941	22906941	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cgaagatgggagcccagtaaAtgagccaaatgaaaccacac	10	10	0	3			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr21:22906941A>T	ENST00000400546.1	+	17	2615	c.2366A>T	c.(2365-2367)aAt>aTt	p.N789I	NCAM2_ENST00000284894.7_Missense_Mutation_p.N647I	NM_004540.3	NP_004531.2	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2	789					axonal fasciculation (GO:0007413)|neuron cell-cell adhesion (GO:0007158)|sensory perception of smell (GO:0007608)	axon (GO:0030424)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(4)|cervix(2)|endometrium(8)|kidney(6)|large_intestine(22)|liver(4)|lung(49)|ovary(4)|prostate(4)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	108		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)		AGCCCAGTAAATGAGCCAAAT	0.393																																																0													113	108	109					21																	22906941		1920	4124	6044	SO:0001583	missense	4685				CCDS42910.1	21q21	2013-02-11			ENSG00000154654	ENSG00000154654		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	7657	protein-coding gene	gene with protein product		602040				9226371	Standard	NM_004540		Approved	NCAM21, MGC51008	uc002yld.2	O15394	OTTHUMG00000078121	ENST00000400546.1:c.2366A>T	21.37:g.22906941A>T	ENSP00000383392:p.Asn789Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8MQ06|B7Z841|Q7Z7F2	Missense_Mutation	SNP	ENST00000400546.1	37	CCDS42910.1	.	.	.	.	.	.	.	.	.	.	A	20.1	3.935591	0.73442	.	.	ENSG00000154654	ENST00000400546;ENST00000284894	T;T	0.44083	0.93;0.93	5.49	5.49	0.81192	.	0.210687	0.48286	D	0.000186	T	0.49729	0.1574	L	0.41236	1.265	0.80722	D	1	D;D	0.61697	0.99;0.985	P;P	0.56398	0.797;0.724	T	0.49978	-0.8881	10	0.54805	T	0.06	-29.9197	14.4086	0.67101	1.0:0.0:0.0:0.0	.	647;789	B7Z5K2;O15394	.;NCAM2_HUMAN	I	789;647	ENSP00000383392:N789I;ENSP00000284894:N647I	ENSP00000284894:N647I	N	+	2	0	NCAM2	21828812	1.000000	0.71417	1.000000	0.80357	0.962000	0.63368	6.778000	0.75043	2.088000	0.63022	0.377000	0.23210	AAT		0.393	NCAM2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000170915.1	NM_004540		T	22906941	A	T	22906941	3	4	699	1	0	0	0	0	1	0	0	0	10210	101	4	5	2432	5	NCAM2	21	22906941	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	7352822	22906941	25222954	183	45949										
PLAC4	25825	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	42551431	42551431	+	Intron	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	agggtgaggagtgacggtgtCtggggtgagtgagggtgtcc	22	4	1	4			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr21:42551431C>T	ENST00000330333.6	+	1	775				BACE2_ENST00000328735.6_Intron|PLAC4_ENST00000414699.1_RNA|PLAC4_ENST00000430327.2_RNA|BACE2-IT1_ENST00000433378.1_RNA|BACE2_ENST00000347667.5_Intron|PLAC4_ENST00000440221.2_RNA|PLAC4_ENST00000536486.1_RNA	NM_012105.3	NP_036237.2	Q9Y5Z0	BACE2_HUMAN	beta-site APP-cleaving enzyme 2						membrane protein ectodomain proteolysis (GO:0006509)|negative regulation of amyloid precursor protein biosynthetic process (GO:0042985)|peptide hormone processing (GO:0016486)|proteolysis (GO:0006508)	endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	aspartic-type endopeptidase activity (GO:0004190)			endometrium(2)|large_intestine(3)|lung(4)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	14		Prostate(19;1.57e-07)|all_epithelial(19;0.0251)				GTGACGGTGTCTGGGGTGAGT	0.607																																																0													125	109	114					21																	42551431		2196	4274	6470	SO:0001627	intron_variant	191585			AF117892	CCDS13668.1, CCDS13669.1, CCDS13670.1	21q22.3	2011-08-11			ENSG00000182240	ENSG00000182240			934	protein-coding gene	gene with protein product		605668		AEPLC		10965118, 10830953	Standard	NM_138991		Approved	CEAP1, DRAP, ALP56	uc002yyw.3	Q9Y5Z0	OTTHUMG00000086742	ENST00000330333.6:c.312+10929C>T	21.37:g.42551431C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K7P1|Q5DIH8|Q8N2D4|Q9H2V8|Q9NZL1|Q9NZL2|Q9UJT6	Missense_Mutation	SNP	ENST00000330333.6	37	CCDS13668.1																																																																																				0.607	BACE2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000195056.1			T	42551431	C	T	42551431	1	4	699	0	1	0	0	0	0	0	0	0	12021	913	32	2		2	PLAC4	21	42551431	Intron	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	19644490	42551431	5578464	184	45950										
NEFH	4744	hgsc.bcm.edu	37	chr22	29885562	29885562	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ccaagtctccaacgaaggagGaagcaaagtcccctgagaag	11	11	1	1	rs370929798		TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr22:29885562G>A	ENST00000310624.6	+	4	1966	c.1933G>A	c.(1933-1935)Gaa>Aaa	p.E645K		NM_021076.3	NP_066554.2	P12036	NFH_HUMAN	neurofilament, heavy polypeptide	645	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.				axon development (GO:0061564)|axonogenesis (GO:0007409)|cell death (GO:0008219)|cell projection assembly (GO:0030031)|microtubule cytoskeleton organization (GO:0000226)|neurofilament bundle assembly (GO:0033693)|peripheral nervous system neuron axonogenesis (GO:0048936)|regulation of organelle transport along microtubule (GO:1902513)	axon (GO:0030424)|cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|neurofibrillary tangle (GO:0097418)|neurofilament (GO:0005883)	dynein binding (GO:0045502)|kinesin binding (GO:0019894)|microtubule binding (GO:0008017)|protein binding, bridging (GO:0030674)|protein kinase binding (GO:0019901)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(12)|ovary(2)|skin(3)	30						AACGAAGGAGGAAGCAAAGTC	0.562																																																0													82	88	86					22																	29885562		2203	4300	6503	SO:0001583	missense	4744				CCDS13858.1	22q12.2	2013-01-16	2008-09-19		ENSG00000100285	ENSG00000100285		"Intermediate filaments type IV"	7737	protein-coding gene	gene with protein product		162230	"neurofilament, heavy polypeptide 200kDa"				Standard	NM_021076		Approved		uc003afo.3	P12036	OTTHUMG00000151155	ENST00000310624.6:c.1933G>A	22.37:g.29885562G>A	ENSP00000311997:p.Glu645Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B4DYY4|Q96HF8|Q9UJS7|Q9UQ14	Missense_Mutation	SNP	ENST00000310624.6	37	CCDS13858.1	.	.	.	.	.	.	.	.	.	.	G	9.212	1.031217	0.19590	.	.	ENSG00000100285	ENST00000328842;ENST00000310624	D	0.83914	-1.78	4.97	4.97	0.65823	.	0.115504	0.38778	N	0.001569	D	0.87783	0.6264	L	0.61218	1.895	0.29104	N	0.881289	P	0.36712	0.566	P	0.52267	0.694	D	0.83526	0.0088	10	0.44086	T	0.13	.	16.1111	0.81263	0.0:0.0:1.0:0.0	.	645	P12036	NFH_HUMAN	K	645	ENSP00000311997:E645K	ENSP00000311997:E645K	E	+	1	0	NEFH	28215562	0.001000	0.12720	0.367000	0.25926	0.091000	0.18340	0.923000	0.28757	2.745000	0.94114	0.491000	0.48974	GAA		0.562	NEFH-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321553.2	NM_021076		A	29885562	G	A	29885562	3	1	699	1	0	0	0	0	1	0	0	0	10321	1175	41	2	1947	2	NEFH	22	29885562	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10		29885562	21419004	185	45951										
SHANK3	85358	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	51160316	51160316	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	accccctgcccctgagtctgCagccgactctggggtggagg	14	15	2	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chr22:51160316C>T	ENST00000414786.2	+	21	4240	c.4013C>T	c.(4012-4014)gCa>gTa	p.A1338V	SHANK3_ENST00000262795.3_Missense_Mutation_p.A1368V|SHANK3_ENST00000445220.2_Missense_Mutation_p.A1354V			Q9BYB0	SHAN3_HUMAN	SH3 and multiple ankyrin repeat domains 3	1352	Pro-rich.				adult behavior (GO:0030534)|alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor clustering (GO:0097113)|brain morphogenesis (GO:0048854)|dendritic spine morphogenesis (GO:0060997)|guanylate kinase-associated protein clustering (GO:0097117)|learning (GO:0007612)|MAPK cascade (GO:0000165)|memory (GO:0007613)|N-methyl-D-aspartate receptor clustering (GO:0097114)|negative regulation of actin filament bundle assembly (GO:0032232)|negative regulation of cell volume (GO:0045794)|positive regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:2000969)|positive regulation of dendritic spine development (GO:0060999)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of glutamate receptor signaling pathway (GO:1900451)|positive regulation of long-term neuronal synaptic plasticity (GO:0048170)|positive regulation of synapse structural plasticity (GO:0051835)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|postsynaptic density assembly (GO:0097107)|regulation of dendritic spine morphogenesis (GO:0061001)|regulation of long term synaptic depression (GO:1900452)|regulation of long-term synaptic potentiation (GO:1900271)|social behavior (GO:0035176)|striatal medium spiny neuron differentiation (GO:0021773)|synapse assembly (GO:0007416)|vocal learning (GO:0042297)|vocalization behavior (GO:0071625)	cell junction (GO:0030054)|ciliary membrane (GO:0060170)|cytoplasm (GO:0005737)|neuron projection (GO:0043005)|neuron spine (GO:0044309)|neuronal postsynaptic density (GO:0097481)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)	GKAP/Homer scaffold activity (GO:0030160)|identical protein binding (GO:0042802)|ionotropic glutamate receptor binding (GO:0035255)|protein C-terminus binding (GO:0008022)|scaffold protein binding (GO:0097110)|SH3 domain binding (GO:0017124)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(1)|kidney(1)|lung(5)	8		all_cancers(38;3.75e-11)|all_epithelial(38;1.82e-09)|Breast(42;0.000448)|all_lung(38;0.000665)|Lung NSC(38;0.0104)|Ovarian(80;0.104)|Lung SC(80;0.162)|Hepatocellular(38;0.178)		BRCA - Breast invasive adenocarcinoma(115;0.22)		CCTGAGTCTGCAGCCGACTCT	0.701																																																0													9	11	10					22																	51160316		1919	4032	5951	SO:0001583	missense	85358			AB051437		22q13.3	2013-11-14			ENSG00000251322	ENSG00000251322		"Sterile alpha motif (SAM) domain containing", "Ankyrin repeat domain containing"	14294	protein-coding gene	gene with protein product	"proline rich synapse associated protein 2", "shank postsynaptic density protein"	606230				11258795, 11431708, 10806096, 17173049	Standard	NM_033517		Approved	SPANK-2, prosap2, KIAA1650, PSAP2	uc031ryd.1	Q9BYB0	OTTHUMG00000150169	ENST00000414786.2:c.4013C>T	22.37:g.51160316C>T	ENSP00000464552:p.Ala1338Val	Somatic		WXS	Illumina HiSeq	Phase_I	D7UT47|Q8TET3	Missense_Mutation	SNP	ENST00000414786.2	37		.	.	.	.	.	.	.	.	.	.	C	8.474	0.858312	0.17178	.	.	ENSG00000251322	ENST00000262795;ENST00000445220	T;T	0.13089	2.62;2.62	5.11	5.11	0.69529	.	0.000000	0.85682	D	0.000000	T	0.13543	0.0328	N	0.24115	0.695	0.27140	N	0.961671	D;P;D	0.56521	0.97;0.941;0.976	P;B;B	0.51895	0.683;0.43;0.441	T	0.12837	-1.0532	10	0.02654	T	1	.	16.0382	0.80645	0.0:1.0:0.0:0.0	.	1352;1353;1368	D7UT47;Q9BYB0;F2Z3L0	.;SHAN3_HUMAN;.	V	1368;1354	ENSP00000442518:A1368V;ENSP00000446078:A1354V	ENSP00000442518:A1368V	A	+	2	0	SHANK3	49507182	1.000000	0.71417	0.900000	0.35374	0.856000	0.48823	5.501000	0.66950	2.381000	0.81170	0.462000	0.41574	GCA		0.701	SHANK3-001	KNOWN	non_canonical_polymorphism|basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000316674.2	NM_001080420		T	51160316	C	T	51160316	3	4	699	1	0	0	0	0	1	0	0	0	14279	710	25	2	4189	2	SHANK3	22	51160316	Missense_Mutation	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	21274754	51160316	144250	186	45952										
OFD1	8481	hgsc.bcm.edu;bcgsc.ca	37	chrX	13762547	13762547	+	Frame_Shift_Del	DEL	T	T	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	tttttaggttttcttatgcaTtttttaaaagaattggcaga							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chrX:13762547delT	ENST00000340096.6	+	6	753	c.426delT	c.(424-426)catfs	p.H142fs	OFD1_ENST00000398395.3_Frame_Shift_Del_p.H142fs|OFD1_ENST00000490265.1_3'UTR|OFD1_ENST00000380567.1_Frame_Shift_Del_p.H2fs|OFD1_ENST00000380550.3_Frame_Shift_Del_p.H142fs	NM_003611.2	NP_003602.1	O75665	OFD1_HUMAN	oral-facial-digital syndrome 1	142					axoneme assembly (GO:0035082)|cilium morphogenesis (GO:0060271)|embryonic body morphogenesis (GO:0010172)|epithelial cilium movement involved in determination of left/right asymmetry (GO:0060287)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic cell cycle (GO:0000278)|negative regulation of fibroblast growth factor receptor signaling pathway involved in neural plate anterior/posterior pattern formation (GO:2000314)	centriolar satellite (GO:0034451)|centriole (GO:0005814)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cilium (GO:0005929)|cytosol (GO:0005829)|membrane (GO:0016020)|microtubule cytoskeleton (GO:0015630)|nucleus (GO:0005634)	alpha-tubulin binding (GO:0043014)|gamma-tubulin binding (GO:0043015)			breast(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(5)|lung(7)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	25						TTCTTATGCATTTTTTAAAAG	0.308																																																0													66	59	61					X																	13762547		2203	4299	6502	SO:0001589	frameshift_variant	8481			Y15164	CCDS14157.1	Xp22	2014-06-18			ENSG00000046651	ENSG00000046651			2567	protein-coding gene	gene with protein product		300170	"retinitis pigmentosa 23 (X-linked recessive)"	CXorf5, RP23		9722947, 9215688, 22619378	Standard	NM_003611		Approved	71-7A, JBTS10	uc004cvp.4	O75665	OTTHUMG00000021159	ENST00000340096.6:c.426delT	X.37:g.13762547delT	ENSP00000344314:p.His142fs	Somatic		WXS	Illumina HiSeq	Phase_I	B9ZVU5|O75666|Q4VAK4	Frame_Shift_Del	DEL	ENST00000340096.6	37	CCDS14157.1																																																																																				0.308	OFD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000055808.1	NM_003611		-	13762547	T	-	13762547	7	5	699	1	0	1	0	1	0	0	0	0	10845	1490	52	0	448	0	OFD1	23	13762547	Frame_Shift_Del	DEL	T	TCGA-P4-A5EB-01A-11D-A28G-10		13762547	141508013	187	45953										
DMD	1756	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	32305751	32305751	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	caggcgttgcactttgcaatGctgctgtcttcttgctatga	10	10	2	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chrX:32305751G>T	ENST00000357033.4	-	43	6391	c.6185C>A	c.(6184-6186)gCa>gAa	p.A2062E	DMD_ENST00000378677.2_Missense_Mutation_p.A2058E	NM_000109.3|NM_004006.2|NM_004011.3|NM_004012.3|NM_004014.2	NP_000100.2|NP_003997|NP_004002.2|NP_004003.1|NP_004005.1	P11532	DMD_HUMAN	dystrophin	2062					cardiac muscle cell action potential (GO:0086001)|cardiac muscle contraction (GO:0060048)|cellular protein complex assembly (GO:0043623)|cellular protein localization (GO:0034613)|extracellular matrix organization (GO:0030198)|motile cilium assembly (GO:0044458)|muscle filament sliding (GO:0030049)|muscle organ development (GO:0007517)|negative regulation of peptidyl-cysteine S-nitrosylation (GO:1902083)|negative regulation of peptidyl-serine phosphorylation (GO:0033137)|peptide biosynthetic process (GO:0043043)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of neuron projection development (GO:0010976)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion (GO:0010881)|regulation of cellular response to growth factor stimulus (GO:0090287)|regulation of heart rate (GO:0002027)|regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0010880)|regulation of ryanodine-sensitive calcium-release channel activity (GO:0060314)|regulation of skeletal muscle contraction (GO:0014819)|regulation of skeletal muscle contraction by regulation of release of sequestered calcium ion (GO:0014809)|regulation of voltage-gated calcium channel activity (GO:1901385)	cell junction (GO:0030054)|cell surface (GO:0009986)|costamere (GO:0043034)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|dystrophin-associated glycoprotein complex (GO:0016010)|filopodium (GO:0030175)|filopodium membrane (GO:0031527)|membrane raft (GO:0045121)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|protein complex (GO:0043234)|sarcolemma (GO:0042383)|syntrophin complex (GO:0016013)	actin binding (GO:0003779)|calcium ion binding (GO:0005509)|dystroglycan binding (GO:0002162)|myosin binding (GO:0017022)|nitric-oxide synthase binding (GO:0050998)|structural constituent of cytoskeleton (GO:0005200)|structural constituent of muscle (GO:0008307)|vinculin binding (GO:0017166)|zinc ion binding (GO:0008270)			NS(2)|breast(3)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(17)|liver(1)|lung(25)|ovary(3)|pancreas(3)|prostate(2)|skin(1)|urinary_tract(2)	77		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)				ACTTTGCAATGCTGCTGTCTT	0.368																																																0													131	105	114					X																	32305751		2202	4300	6502	SO:0001583	missense	1756			AF047505	CCDS14231.1, CCDS14232.1, CCDS14233.1, CCDS14234.1, CCDS48091.1, CCDS55394.1, CCDS55395.1, CCDS75965.1	Xp21.2	2014-09-17	2008-08-01		ENSG00000198947	ENSG00000198947			2928	protein-coding gene	gene with protein product	"muscular dystrophy, Duchenne and Becker types"	300377	"dystrophin (muscular dystrophy, Duchenne and Becker types), includes DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272", "mental retardation, X-linked 85"	MRX85		3282674, 3607877, 23900271	Standard	NM_004019		Approved	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272	uc004dda.1	P11532	OTTHUMG00000021336	ENST00000357033.4:c.6185C>A	X.37:g.32305751G>T	ENSP00000354923:p.Ala2062Glu	Somatic		WXS	Illumina HiSeq	Phase_I	E9PDN1|Q02295|Q14169|Q14170|Q5JYU0|Q6NSJ9|Q7KZ48|Q8N754|Q9UCW3|Q9UCW4	Missense_Mutation	SNP	ENST00000357033.4	37	CCDS14233.1	.	.	.	.	.	.	.	.	.	.	G	8.237	0.805865	0.16467	.	.	ENSG00000198947	ENST00000534884;ENST00000378682;ENST00000378684;ENST00000378677;ENST00000357033;ENST00000542849;ENST00000535280	T;T	0.35048	1.33;1.33	4.36	2.59	0.31030	.	0.000000	0.36778	U	0.002408	T	0.28830	0.0715	L	0.53249	1.67	0.80722	D	1	B;P;B;B;B	0.38677	0.275;0.642;0.322;0.259;0.44	B;B;B;B;B	0.34418	0.088;0.182;0.144;0.138;0.096	T	0.05835	-1.0861	10	0.72032	D	0.01	.	7.2118	0.25937	0.3674:0.0:0.6326:0.0	.	2054;2062;2058;721;718	P11532-4;P11532;E9PDN5;E7EQS7;E7EQS6	.;DMD_HUMAN;.;.;.	E	2054;721;718;2058;2062;2062;1939	ENSP00000367948:A2058E;ENSP00000354923:A2062E	ENSP00000354923:A2062E	A	-	2	0	DMD	32215672	0.996000	0.38824	0.224000	0.23877	0.172000	0.22775	2.060000	0.41394	0.416000	0.25844	-0.191000	0.12829	GCA		0.368	DMD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056182.2	NM_004006		T	32305751	G	T	32305751	3	4	699	1	0	0	0	0	1	0	0	0	4582	1319	46	4	5168	4	DMD	23	32305751	Missense_Mutation	SNP	G	TCGA-P4-A5EB-01A-11D-A28G-10	18543204	32305751	122964809	188	45954										
BMP15	9210	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	50658768	50658768	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	cttctgcaggtacctggcatAtacagatcctgggctttcct	9	12	1	1			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chrX:50658768A>T	ENST00000252677.3	+	2	340	c.340A>T	c.(340-342)Ata>Tta	p.I114L		NM_005448.2	NP_005439.2	O95972	BMP15_HUMAN	bone morphogenetic protein 15	114					female gamete generation (GO:0007292)|granulosa cell development (GO:0060016)|ovarian follicle development (GO:0001541)|positive regulation of transcription, DNA-templated (GO:0045893)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)				NS(1)|breast(2)|endometrium(4)|kidney(1)|large_intestine(5)|lung(10)|ovary(2)|skin(1)	26	Ovarian(276;0.236)					TACCTGGCATATACAGATCCT	0.438																																																0													95	90	91					X																	50658768		2203	4299	6502	SO:0001583	missense	9210			AF082349	CCDS14334.1	Xp11.2	2013-02-06			ENSG00000130385	ENSG00000130385		"Bone morphogenetic proteins"	1068	protein-coding gene	gene with protein product		300247				9849956	Standard	NM_005448		Approved	GDF9B	uc011mnw.2	O95972	OTTHUMG00000021525	ENST00000252677.3:c.340A>T	X.37:g.50658768A>T	ENSP00000252677:p.Ile114Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q17RM6|Q5JST1|Q9UMS1	Missense_Mutation	SNP	ENST00000252677.3	37	CCDS14334.1	.	.	.	.	.	.	.	.	.	.	a	2.291	-0.362548	0.05103	.	.	ENSG00000130385	ENST00000252677	T	0.77489	-1.1	5.42	-3.73	0.04398	.	1.153060	0.05985	N	0.645013	T	0.69006	0.3063	M	0.65975	2.015	0.09310	N	1	B	0.19583	0.037	B	0.16289	0.015	T	0.49214	-0.8963	10	0.10377	T	0.69	.	6.9598	0.24591	0.3592:0.0:0.4995:0.1413	.	114	O95972	BMP15_HUMAN	L	114	ENSP00000252677:I114L	ENSP00000252677:I114L	I	+	1	0	BMP15	50675508	0.000000	0.05858	0.000000	0.03702	0.003000	0.03518	-0.129000	0.10515	-0.754000	0.04715	-0.670000	0.03821	ATA		0.438	BMP15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056572.1	NM_005448		T	50658768	A	T	50658768	3	4	699	1	0	0	0	0	1	0	0	0	1458	449	16	5	346	5	BMP15	23	50658768	Missense_Mutation	SNP	A	TCGA-P4-A5EB-01A-11D-A28G-10	18353017	50658768	104611792	189	45955										
UBQLN2	29978	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	56592091	56592092	+	Frame_Shift_Del	DEL	AA	AA	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ctcaacgcaatggggttcttAaaccgtgaagcaaacttgca							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chrX:56592091_56592092delAA	ENST00000338222.5	+	1	2066_2067	c.1785_1786delAA	c.(1783-1788)ttaaacfs	p.N596fs		NM_013444.3	NP_038472.2	Q9UHD9	UBQL2_HUMAN	ubiquilin 2	596	UBA. {ECO:0000255|PROSITE- ProRule:PRU00212}.				cell death (GO:0008219)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				breast(2)|endometrium(3)|large_intestine(4)|lung(8)|ovary(2)|prostate(1)|skin(1)	21						TGGGGTTCTTAAACCGTGAAGC	0.515																																					Esophageal Squamous(104;218 1492 6022 10838 28884)											0																																										SO:0001589	frameshift_variant	29978			AF189009	CCDS14374.1	Xp11.21	2014-09-17			ENSG00000188021	ENSG00000188021		"Ubiquilin family"	12509	protein-coding gene	gene with protein product	"NEDD4 binding protein 4"	300264				10675567	Standard	NM_013444		Approved	Chap1, Dsk2, RIHFB2157, LIC-2, CHAP1/DSK2, PLIC-2, N4BP4, PLIC2	uc004dus.3	Q9UHD9	OTTHUMG00000021669	ENST00000338222.5:c.1785_1786delAA	X.37:g.56592091_56592092delAA	ENSP00000345195:p.Asn596fs	Somatic		WXS	Illumina HiSeq	Phase_I	O94798|Q5D027|Q9H3W6|Q9HAZ4	Frame_Shift_Del	DEL	ENST00000338222.5	37	CCDS14374.1																																																																																				0.515	UBQLN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000056891.1	NM_013444		-	56592092	AA	-	56592091	7	5	699	1	0	1	0	1	0	0	0	0	16909	359	13	0	1787	0	UBQLN2	23	56592091	Frame_Shift_Del	DEL	AA	TCGA-P4-A5EB-01A-11D-A28G-10	5933323	56592091	98678469	190	45956										
UPRT	139596	hgsc.bcm.edu;bcgsc.ca	37	chrX	74494317	74494318	+	Frame_Shift_Del	DEL	AG	AG	-													0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ggcggctccagcctcaactcAgagggcaacagtggtagtgg							TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chrX:74494317_74494318delAG	ENST00000373383.4	+	1	395_396	c.228_229delAG	c.(226-231)tcagagfs	p.E77fs	UPRT_ENST00000531704.1_3'UTR|UPRT_ENST00000373379.1_Frame_Shift_Del_p.E77fs|UPRT_ENST00000530743.1_5'Flank	NM_145052.3	NP_659489.1	Q96BW1	UPP_HUMAN	uracil phosphoribosyltransferase (FUR1) homolog (S. cerevisiae)	77					female pregnancy (GO:0007565)|lactation (GO:0007595)|response to insulin (GO:0032868)|UMP biosynthetic process (GO:0006222)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				breast(1)|endometrium(7)|kidney(2)|large_intestine(4)|lung(4)	18						GCCTCAACTCAGAGGGCAACAG	0.639																																																0																																										SO:0001589	frameshift_variant	139596			BC015116	CCDS14429.1	Xq13.3	2009-01-14			ENSG00000094841	ENSG00000094841			28334	protein-coding gene	gene with protein product		300656				12477932	Standard	NM_145052		Approved	DKFZp781E1243, MGC23937, FUR1, RP11-311P8.3	uc004ecb.2	Q96BW1	OTTHUMG00000021864	ENST00000373383.4:c.228_229delAG	X.37:g.74494319_74494320delAG	ENSP00000362481:p.Glu77fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JRL1|Q5JRL3|Q68DN0|Q96MW2	Frame_Shift_Del	DEL	ENST00000373383.4	37	CCDS14429.1																																																																																				0.639	UPRT-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057278.1	NM_145052		-	74494318	AG	-	74494317	7	5	699	1	0	1	0	1	0	0	0	0	17026	175	7	0	230	0	UPRT	23	74494317	Frame_Shift_Del	DEL	AG	TCGA-P4-A5EB-01A-11D-A28G-10	17902226	74494317	80776243	191	45957										
ATRX	546	bcgsc.ca	37	chrX	76777834	76777834	+	Silent	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0736842105263158	14	1	1.48541226215645	1.01278108783394	1.70203488372093	0.0230428954195262	0.717346938775511	0	ctgacagggggtaaattggtCccagttggtatgttgaaacg	14	6	0	2			TCGA-P4-A5EB-01A-11D-A28G-10	TCGA-P4-A5EB-11A-11D-A28G-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	e6cf6557-09fb-4516-af87-39037f809609	fa076b69-fed9-4164-af20-7592bff142fd	g.chrX:76777834C>A	ENST00000373344.5	-	32	7096	c.6882G>T	c.(6880-6882)ggG>ggT	p.G2294G	ATRX_ENST00000480283.1_5'UTR|ATRX_ENST00000395603.3_Silent_p.G2256G	NM_000489.3	NP_000480.3	P46100	ATRX_HUMAN	alpha thalassemia/mental retardation syndrome X-linked	2294					ATP catabolic process (GO:0006200)|cellular response to hydroxyurea (GO:0072711)|chromatin remodeling (GO:0006338)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA duplex unwinding (GO:0032508)|DNA methylation (GO:0006306)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|DNA replication-independent nucleosome assembly (GO:0006336)|forebrain development (GO:0030900)|negative regulation of telomeric RNA transcription from RNA pol II promoter (GO:1901581)|nucleosome assembly (GO:0006334)|positive regulation of nuclear cell cycle DNA replication (GO:0010571)|positive regulation of telomere maintenance (GO:0032206)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of transcription, DNA-templated (GO:0006355)|replication fork processing (GO:0031297)|seminiferous tubule development (GO:0072520)|Sertoli cell development (GO:0060009)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)|nuclear heterochromatin (GO:0005720)|nucleolus (GO:0005730)|nucleus (GO:0005634)|SWI/SNF superfamily-type complex (GO:0070603)|telomeric heterochromatin (GO:0031933)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|chromo shadow domain binding (GO:0070087)|DNA binding (GO:0003677)|DNA helicase activity (GO:0003678)|DNA translocase activity (GO:0015616)|helicase activity (GO:0004386)|histone binding (GO:0042393)|methylated histone binding (GO:0035064)|zinc ion binding (GO:0008270)			bone(1)|breast(6)|central_nervous_system(31)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(15)|kidney(14)|large_intestine(1)|liver(1)|lung(40)|ovary(2)|pancreas(13)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	145						GTAAATTGGTCCCAGTTGGTA	0.388			"Mis, F, N"		"Pancreatic neuroendocrine tumors, paediatric GBM"		ATR-X (alpha thalassemia/mental retardation) syndrome																																Rec	yes		X	Xq21.1	546	alpha thalassemia/mental retardation syndrome X-linked	yes	E	0													90	85	87					X																	76777834		2203	4296	6499	SO:0001819	synonymous_variant	546			U72937	CCDS14434.1, CCDS14435.1	Xq21.1	2014-06-17	2010-06-24		ENSG00000085224	ENSG00000085224			886	protein-coding gene	gene with protein product	"RAD54 homolog (S. cerevisiae)"	300032	"alpha thalassemia/mental retardation syndrome X-linked (RAD54 (S. cerevisiae) homolog)", "Juberg-Marsidi syndrome"	RAD54, JMS		7874112, 1415255, 8503439, 8630485	Standard	NM_000489		Approved	XH2, XNP	uc004ecp.4	P46100	OTTHUMG00000022686	ENST00000373344.5:c.6882G>T	X.37:g.76777834C>A		Somatic		WXS	Illumina HiSeq	Phase_1	D3DTE2|P51068|Q15886|Q59FB5|Q59H31|Q5H9A2|Q5JWI4|Q7Z2J1|Q9H0Z1|Q9NTS3	Silent	SNP	ENST00000373344.5	37	CCDS14434.1																																																																																				0.388	ATRX-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000058860.2	NM_000489		A	76777834	C	A	76777834	2	1	699	1	0	0	0	0	0	0	0	1	1208	842	30	4		4	ATRX	23	76777834	Silent	SNP	C	TCGA-P4-A5EB-01A-11D-A28G-10	2283517	76777834	78492726	192	45958										
TNFRSF25	8718	broad.mit.edu	37	chr1	6522060	6522060	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	ctgatgtcccttaccaagagCtctgctgggcaactggtccc	10	14	1	2			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr1:6522060C>A	ENST00000356876.3	-	9	1006	c.919G>T	c.(919-921)Gct>Tct	p.A307S	TNFRSF25_ENST00000348333.3_Missense_Mutation_p.A262S|TNFRSF25_ENST00000377782.3_Missense_Mutation_p.A316S|TNFRSF25_ENST00000351748.3_Missense_Mutation_p.A124S|TNFRSF25_ENST00000461703.2_5'Flank|TNFRSF25_ENST00000351959.5_Missense_Mutation_p.A270S	NM_003790.2|NM_148967.1	NP_003781.1|NP_683868.1	Q93038	TNR25_HUMAN	tumor necrosis factor receptor superfamily, member 25	307					apoptotic process (GO:0006915)|apoptotic signaling pathway (GO:0097190)|cell surface receptor signaling pathway (GO:0007166)|regulation of apoptotic process (GO:0042981)|signal transduction (GO:0007165)|tumor necrosis factor-mediated signaling pathway (GO:0033209)	cytosol (GO:0005829)|extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	receptor activity (GO:0004872)|tumor necrosis factor-activated receptor activity (GO:0005031)			breast(1)|central_nervous_system(2)|endometrium(1)|lung(4)|prostate(1)|stomach(1)	10	Ovarian(185;0.0386)|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)|Acute lymphoblastic leukemia(12;0.00157)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;4.58e-35)|GBM - Glioblastoma multiforme(13;3.06e-27)|Colorectal(212;6.01e-08)|COAD - Colon adenocarcinoma(227;1.3e-05)|Kidney(185;4.88e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000871)|BRCA - Breast invasive adenocarcinoma(365;0.00105)|STAD - Stomach adenocarcinoma(132;0.00158)|READ - Rectum adenocarcinoma(331;0.0419)		TTACCAAGAGCTCTGCTGGGC	0.607																																																0													70	68	69					1																	6522060		2203	4300	6503	SO:0001583	missense	8718			U72763	CCDS71.1, CCDS72.1, CCDS73.1, CCDS74.1, CCDS75.1	1p36.2	2008-02-05	2002-12-20	2002-12-20	ENSG00000215788	ENSG00000215788		"Tumor necrosis factor receptor superfamily"	11910	protein-coding gene	gene with protein product		603366	"tumor necrosis factor receptor superfamily, member 12 (translocating chain-association membrane protein)"	TNFRSF12		9052839, 8934525	Standard	NM_003790		Approved	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3	uc001anh.3	Q93038	OTTHUMG00000000831	ENST00000356876.3:c.919G>T	1.37:g.6522060C>A	ENSP00000349341:p.Ala307Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALX2|B1ALX3|B7ZLL7|O00275|O00276|O00277|O00278|O00279|O00280|O14865|O14866|P78507|P78515|Q17RU4|Q92983|Q93036|Q93037|Q99722|Q99830|Q99831|Q9BY86|Q9UME0|Q9UME1|Q9UME5	Missense_Mutation	SNP	ENST00000356876.3	37	CCDS71.1	.	.	.	.	.	.	.	.	.	.	C	9.902	1.207079	0.22205	.	.	ENSG00000215788	ENST00000356876;ENST00000377782;ENST00000351959;ENST00000351748;ENST00000348333	D;D;D;T;D	0.92699	-2.92;-3.09;-2.98;2.53;-2.01	4.71	2.8	0.32819	.	529.136000	0.00541	U	0.000220	D	0.89901	0.6849	M	0.65975	2.015	0.23685	N	0.997118	B;B;B;B;B;P	0.43938	0.138;0.112;0.228;0.04;0.138;0.822	B;B;B;B;B;B	0.38264	0.044;0.032;0.121;0.02;0.044;0.269	T	0.74337	-0.3698	10	0.13470	T	0.59	-0.2417	6.9581	0.24582	0.0:0.7774:0.0:0.2226	.	316;262;270;307;308;124	Q93038-11;Q93038-9;Q93038-10;Q93038;Q93038-2;Q93038-8	.;.;.;TNR25_HUMAN;.;.	S	307;316;270;124;262	ENSP00000349341:A307S;ENSP00000367013:A316S;ENSP00000337713:A270S;ENSP00000326762:A124S;ENSP00000314451:A262S	ENSP00000314451:A262S	A	-	1	0	TNFRSF25	6444647	0.001000	0.12720	0.902000	0.35471	0.897000	0.52465	-0.227000	0.09126	0.476000	0.27440	0.655000	0.94253	GCT		0.607	TNFRSF25-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000002259.1	NM_148965		A	6522060	C	A	6522060	3	1	700	1	0	0	0	0	1	0	0	0	16308	797	28	4	342	4	TNFRSF25	1	6522060	Missense_Mutation	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10		6522060	242728561	1	45959										
DCLRE1B	64858	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	114454514	114454514	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	ccccactgggattttcagtgCacttaaggtctacagatgag	10	10	2	2			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr1:114454514C>T	ENST00000369563.3	+	4	1746	c.1300C>T	c.(1300-1302)Cac>Tac	p.H434Y	DCLRE1B_ENST00000466480.1_Intron	NM_022836.3	NP_073747.1	Q9H816	DCR1B_HUMAN	DNA cross-link repair 1B	434					cell cycle checkpoint (GO:0000075)|DNA repair (GO:0006281)|nucleic acid phosphodiester bond hydrolysis (GO:0090305)|protection from non-homologous end joining at telomere (GO:0031848)|telomere maintenance (GO:0000723)|telomeric 3' overhang formation (GO:0031860)|telomeric loop formation (GO:0031627)	centrosome (GO:0005813)|chromosome, telomeric region (GO:0000781)|cytoplasm (GO:0005737)|nucleus (GO:0005634)	5'-3' exonuclease activity (GO:0008409)			breast(1)|endometrium(4)|kidney(2)|large_intestine(2)|liver(2)|lung(6)|stomach(1)	18	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)		ATTTTCAGTGCACTTAAGGTC	0.473								Other identified genes with known or suspected DNA repair function																																								0													168	186	180					1																	114454514		2203	4300	6503	SO:0001583	missense	64858			BC029687	CCDS866.1	1p11.1	2010-06-24	2010-06-24		ENSG00000118655	ENSG00000118655			17641	protein-coding gene	gene with protein product	"APOLLO", "PSO2 homolog (S. cerevisiae)"	609683	"DNA cross-link repair 1B (PSO2 homolog, S. cerevisiae)"				Standard	NM_022836		Approved	SNM1B, FLJ12810, FLJ13998	uc001eeg.3	Q9H816	OTTHUMG00000011937	ENST00000369563.3:c.1300C>T	1.37:g.114454514C>T	ENSP00000358576:p.His434Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H9E5	Missense_Mutation	SNP	ENST00000369563.3	37	CCDS866.1	.	.	.	.	.	.	.	.	.	.	C	16.27	3.075166	0.55646	.	.	ENSG00000118655	ENST00000369563	T	0.75260	-0.92	5.75	2.18	0.27775	.	1.219440	0.05575	N	0.571775	T	0.42086	0.1187	L	0.27053	0.805	0.09310	N	1	B	0.09022	0.002	B	0.04013	0.001	T	0.42241	-0.9463	10	0.66056	D	0.02	-11.1736	5.1932	0.15220	0.2671:0.6065:0.0:0.1264	.	434	Q9H816	DCR1B_HUMAN	Y	434	ENSP00000358576:H434Y	ENSP00000358576:H434Y	H	+	1	0	DCLRE1B	114256037	0.002000	0.14202	0.004000	0.12327	0.624000	0.37722	0.606000	0.24194	1.186000	0.42985	0.655000	0.94253	CAC		0.473	DCLRE1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000033020.2	NM_022836		T	114454514	C	T	114454514	3	4	700	1	0	0	0	0	1	0	0	0	4297	710	25	2	1314	2	DCLRE1B	1	114454514	Missense_Mutation	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10	107932454	114454514	134796107	2	45960										
ACP6	51205	broad.mit.edu	37	chr1	147142085	147142085	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	cctgcagctcggccagggccAcccgccgctggtgcaggcag	15	17	0	0	rs201678741		TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr1:147142085A>C	ENST00000369238.6	-	1	533	c.86T>G	c.(85-87)gTg>gGg	p.V29G	ACP6_ENST00000392988.2_Missense_Mutation_p.V29G	NM_016361.3	NP_057445.4	Q9NPH0	PPA6_HUMAN	acid phosphatase 6, lysophosphatidic	29					dephosphorylation (GO:0016311)|lysobisphosphatidic acid metabolic process (GO:2001311)|phospholipid metabolic process (GO:0006644)	cytoplasm (GO:0005737)|mitochondrion (GO:0005739)	acid phosphatase activity (GO:0003993)|lysophosphatidic acid phosphatase activity (GO:0052642)			breast(1)|cervix(2)|endometrium(1)|kidney(1)|large_intestine(2)|lung(4)|ovary(4)|prostate(1)	16	all_hematologic(923;0.0276)					GGCCAGGGCCACCCGCCGCTG	0.657																																																0													12	10	11					1																	147142085		2053	4027	6080	SO:0001583	missense	51205			BC009965	CCDS928.1	1q21	2008-02-05			ENSG00000162836	ENSG00000162836			29609	protein-coding gene	gene with protein product		611471				12010880, 10506173	Standard	NM_016361		Approved	LPAP, ACPL1	uc001epr.2	Q9NPH0	OTTHUMG00000014019	ENST00000369238.6:c.86T>G	1.37:g.147142085A>C	ENSP00000358241:p.Val29Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q59G61|Q5T490|Q6IAQ3|Q7LG81|Q9UIG6	Missense_Mutation	SNP	ENST00000369238.6	37	CCDS928.1	.	.	.	.	.	.	.	.	.	.	A	13.14	2.149393	0.37923	.	.	ENSG00000162836	ENST00000369238;ENST00000392988	T;T	0.48522	2.65;0.81	5.28	-5.16	0.02857	.	0.609019	0.16327	N	0.219309	T	0.09555	0.0235	L	0.34521	1.04	0.43385	D	0.99549	B;B	0.06786	0.001;0.0	B;B	0.09377	0.004;0.001	T	0.22730	-1.0208	10	0.19147	T	0.46	.	1.0577	0.01593	0.2021:0.3491:0.2212:0.2275	.	29;29	Q9NPH0-2;Q9NPH0	.;PPA6_HUMAN	G	29	ENSP00000358241:V29G;ENSP00000376714:V29G	ENSP00000358241:V29G	V	-	2	0	ACP6	145608709	0.001000	0.12720	0.927000	0.36925	0.947000	0.59692	-0.635000	0.05471	-0.919000	0.03803	-0.460000	0.05396	GTG		0.657	ACP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000039420.2	NM_016361		C	147142085	A	C	147142085	3	2	700	1	0	0	0	0	1	0	0	0	165	159	6	5	1240	5	ACP6	1	147142085	Missense_Mutation	SNP	A	TCGA-P4-A5ED-01A-11D-A28G-10	32687571	147142085	102108536	3	45961										
MTA3	57504	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	42886918	42886918	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	ttcagtgctgttgggacattCgccagagccctggattgcag	13	10	1	1			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr2:42886918C>A	ENST00000405094.1	+	8	618	c.618C>A	c.(616-618)ttC>ttA	p.F206L	MTA3_ENST00000407270.3_Missense_Mutation_p.F206L|MTA3_ENST00000405592.1_Missense_Mutation_p.F150L|MTA3_ENST00000406652.1_Missense_Mutation_p.F150L|MTA3_ENST00000406911.1_Missense_Mutation_p.F206L			Q9BTC8	MTA3_HUMAN	metastasis associated 1 family, member 3	206	ELM2. {ECO:0000255|PROSITE- ProRule:PRU00512}.					intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)			endometrium(1)|large_intestine(2)|lung(9)|ovary(2)|stomach(1)	15						TTGGGACATTCGCCAGAGCCC	0.413																																																0													78	70	72					2																	42886918		1938	4145	6083	SO:0001583	missense	57504			AB033092	CCDS46267.1, CCDS62900.1	2p22.1	2013-01-25	2004-12-15		ENSG00000057935	ENSG00000057935		"GATA zinc finger domain containing"	23784	protein-coding gene	gene with protein product		609050	"metastasis associated gene family, member 3"			12705869, 14613024	Standard	NM_001282755		Approved	KIAA1266	uc002rsq.3	Q9BTC8	OTTHUMG00000150452	ENST00000405094.1:c.618C>A	2.37:g.42886918C>A	ENSP00000385823:p.Phe206Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NSP2|Q9ULF4	Missense_Mutation	SNP	ENST00000405094.1	37		.	.	.	.	.	.	.	.	.	.	C	16.73	3.205367	0.58234	.	.	ENSG00000057935	ENST00000405592;ENST00000406652;ENST00000407270;ENST00000282366;ENST00000406911;ENST00000405094	T;T;T;T;T	0.54866	0.55;0.55;0.61;0.59;0.57	4.96	-7.42	0.01388	.	0.000000	0.85682	D	0.000000	T	0.72645	0.3486	M	0.88105	2.93	0.50171	D	0.999857	D;D;D	0.89917	1.0;0.999;1.0	D;D;D	0.91635	0.988;0.994;0.999	T	0.80522	-0.1345	10	0.54805	T	0.06	-18.0256	20.3549	0.98835	0.0:0.0897:0.0:0.9103	.	206;206;150	E7EQY4;Q9BTC8-2;D6W5A2	.;.;.	L	150;150;206;206;206;206	ENSP00000383973:F150L;ENSP00000384249:F150L;ENSP00000385045:F206L;ENSP00000385241:F206L;ENSP00000385823:F206L	ENSP00000282366:F206L	F	+	3	2	MTA3	42740422	0.997000	0.39634	0.147000	0.22382	0.489000	0.33432	0.317000	0.19487	-1.514000	0.01786	-0.252000	0.11476	TTC		0.413	MTA3-017	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000318159.1	NM_020744		A	42886918	C	A	42886918	3	1	700	1	0	0	0	0	1	0	0	0	9917	883	31	4	648	4	MTA3	2	42886918	Missense_Mutation	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10		42886918	200312455	4	45962										
WDSUB1	151525	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	160139417	160139417	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	aacagcagcagtggacagcaTaggtatgaaacttcaatgga	11	7	1	1			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr2:160139417T>C	ENST00000409990.3	-	2	420	c.164A>G	c.(163-165)tAt>tGt	p.Y55C	WDSUB1_ENST00000392796.3_Missense_Mutation_p.Y55C|WDSUB1_ENST00000359774.4_Missense_Mutation_p.Y55C|WDSUB1_ENST00000358147.4_Missense_Mutation_p.Y55C|WDSUB1_ENST00000409124.1_Missense_Mutation_p.Y55C	NM_001128213.1	NP_001121685	Q8N9V3	WSDU1_HUMAN	WD repeat, sterile alpha motif and U-box domain containing 1	55							ubiquitin-protein transferase activity (GO:0004842)			breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(3)|prostate(1)|stomach(3)	16						GTGGACAGCATAGGTATGAAA	0.443																																																0													138	135	136					2																	160139417		2203	4300	6503	SO:0001583	missense	151525			AK093494	CCDS2208.1	2q24.2	2013-01-28	2006-02-17	2005-03-25	ENSG00000196151	ENSG00000196151		"WD repeat domain containing", "Sterile alpha motif (SAM) domain containing", "U-box domain containing"	26697	protein-coding gene	gene with protein product			"WD repeat and SAM domain containing 1", "WD repeat, SAM and U-box domain containing 1"	WDSAM1		12477932	Standard	NM_152528		Approved	UBOX6, FLJ36175	uc002ual.4	Q8N9V3	OTTHUMG00000132028	ENST00000409990.3:c.164A>G	2.37:g.160139417T>C	ENSP00000387078:p.Tyr55Cys	Somatic		WXS	Illumina HiSeq	Phase_I	Q53TI9|Q8N6N8	Missense_Mutation	SNP	ENST00000409990.3	37	CCDS2208.1	.	.	.	.	.	.	.	.	.	.	T	23.0	4.360032	0.82353	.	.	ENSG00000196151	ENST00000359774;ENST00000358147;ENST00000392796;ENST00000409990;ENST00000409124	T;T;T;T;T	0.60299	0.2;0.2;0.2;0.2;0.2	5.54	5.54	0.83059	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.000000	0.85682	D	0.000000	T	0.74359	0.3706	M	0.69185	2.1	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	0.999;1.0;1.0	T	0.76353	-0.2990	10	0.56958	D	0.05	.	15.6902	0.77446	0.0:0.0:0.0:1.0	.	55;55;55	Q8N9V3-2;B8ZZF2;Q8N9V3	.;.;WSDU1_HUMAN	C	55	ENSP00000352820:Y55C;ENSP00000350866:Y55C;ENSP00000376545:Y55C;ENSP00000387078:Y55C;ENSP00000386891:Y55C	ENSP00000350866:Y55C	Y	-	2	0	WDSUB1	159847663	1.000000	0.71417	0.989000	0.46669	0.987000	0.75469	7.910000	0.87451	2.115000	0.64714	0.528000	0.53228	TAT		0.443	WDSUB1-005	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000333339.1	NM_152528		C	160139417	T	C	160139417	3	2	700	1	0	0	0	0	1	0	0	0	17353	1406	49	3	1306	3	WDSUB1	2	160139417	Missense_Mutation	SNP	T	TCGA-P4-A5ED-01A-11D-A28G-10	117252499	160139417	83059956	5	45963										
SF3B1	23451	ucsc.edu	37	chr2	198270048	198270048	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	caggttttaaaaatggaagaTttccagatggctggtcatta	10	5	1	2			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr2:198270048T>C	ENST00000335508.6	-	10	1479	c.1388A>G	c.(1387-1389)aAt>aGt	p.N463S	SNORA4_ENST00000365564.1_RNA|SF3B1_ENST00000462613.1_5'Flank	NM_012433.2	NP_036565.2	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1, 155kDa	463	Interaction with PPP1R8.				anterior/posterior pattern specification (GO:0009952)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|RNA splicing, via transesterification reactions (GO:0000375)	catalytic step 2 spliceosome (GO:0071013)|intracellular membrane-bounded organelle (GO:0043231)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spliceosomal complex (GO:0005681)|U12-type spliceosomal complex (GO:0005689)	chromatin binding (GO:0003682)|poly(A) RNA binding (GO:0044822)			NS(35)|breast(10)|central_nervous_system(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(524)|kidney(4)|large_intestine(10)|lung(19)|ovary(1)|pancreas(4)|prostate(6)|salivary_gland(1)|skin(4)|testis(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	633			OV - Ovarian serous cystadenocarcinoma(117;0.246)			AAATGGAAGATTTCCAGATGG	0.343			Mis		myelodysplastic syndrome																																		Dom	yes		2	2q33.1	23451	"splicing factor 3b, subunit 1, 155kDa"		L	0													53	56	55					2																	198270048		2203	4300	6503	SO:0001583	missense	23451			AF054284	CCDS33356.1, CCDS46479.1	2q33.1	2014-09-17	2002-08-29		ENSG00000115524	ENSG00000115524			10768	protein-coding gene	gene with protein product		605590	"splicing factor 3b, subunit 1, 155kD"			9585501	Standard	XM_005246428		Approved	SAP155, SF3b155, PRPF10, Prp10, Hsh155	uc002uue.3	O75533	OTTHUMG00000154447	ENST00000335508.6:c.1388A>G	2.37:g.198270048T>C	ENSP00000335321:p.Asn463Ser	Somatic		WXS	Illumina HiSeq		E9PCH3	Missense_Mutation	SNP	ENST00000335508.6	37	CCDS33356.1	.	.	.	.	.	.	.	.	.	.	T	14.87	2.663572	0.47572	.	.	ENSG00000115524	ENST00000335508	.	.	.	5.44	5.44	0.79542	.	0.000000	0.85682	D	0.000000	T	0.26666	0.0652	N	0.01109	-1.01	0.80722	D	1	B	0.09022	0.002	B	0.14023	0.01	T	0.13953	-1.0490	9	0.41790	T	0.15	.	15.7937	0.78388	0.0:0.0:0.0:1.0	.	463	O75533	SF3B1_HUMAN	S	463	.	ENSP00000335321:N463S	N	-	2	0	SF3B1	197978293	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	7.883000	0.87264	2.188000	0.69820	0.533000	0.62120	AAT		0.343	SF3B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335245.2			C	198270048	T	C	198270048	3	2	700	1	0	0	0	0	1	0	0	0	14162	1493	52	3	2590	3	SF3B1	2	198270048	Missense_Mutation	SNP	T	TCGA-P4-A5ED-01A-11D-A28G-10	38130631	198270048	44929325	6	45964										
ING5	84289	broad.mit.edu	37	chr2	242664404	242664404	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	ctgcgcctttcttgtcacagGttctgtccacggtgtgtcca	10	13	3	0			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr2:242664404G>T	ENST00000313552.6	+	8	707	c.681G>T	c.(679-681)tgG>tgT	p.W227C	AC114730.11_ENST00000435195.1_RNA	NM_032329.4	NP_115705.2	Q8WYH8	ING5_HUMAN	inhibitor of growth family, member 5	227					chromatin organization (GO:0006325)|DNA replication (GO:0006260)|histone H3 acetylation (GO:0043966)|negative regulation of cell proliferation (GO:0008285)|negative regulation of growth (GO:0045926)|positive regulation of apoptotic process (GO:0043065)|positive regulation of apoptotic signaling pathway (GO:2001235)|positive regulation of transcription, DNA-templated (GO:0045893)|protein acetylation (GO:0006473)|transcription, DNA-templated (GO:0006351)	MOZ/MORF histone acetyltransferase complex (GO:0070776)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|methylated histone binding (GO:0035064)|zinc ion binding (GO:0008270)			large_intestine(1)|lung(1)|skin(1)	3		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;2.16e-33)|all cancers(36;4.99e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.6e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.65e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0839)		CTTGTCACAGGTTCTGTCCAC	0.622																																																0													104	100	102					2																	242664404		2203	4296	6499	SO:0001630	splice_region_variant	84289			AF189286	CCDS33425.1	2q37.3	2013-01-28			ENSG00000168395	ENSG00000168395		"Zinc fingers, PHD-type"	19421	protein-coding gene	gene with protein product		608525				12750254	Standard	NM_032329		Approved	FLJ23842, p28ING5	uc002wcd.3	Q8WYH8	OTTHUMG00000151501	ENST00000313552.6:c.681-1G>T	2.37:g.242664404G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1P3|Q53NU6|Q57Z54|Q9BS30	Missense_Mutation	SNP	ENST00000313552.6	37	CCDS33425.1	.	.	.	.	.	.	.	.	.	.	G	20.7	4.039152	0.75617	.	.	ENSG00000168395	ENST00000313552	D	0.92348	-3.02	4.8	4.8	0.61643	Zinc finger, PHD-finger (2);Zinc finger, RING/FYVE/PHD-type (1);Zinc finger, PHD-type, conserved site (1);Zinc finger, PHD-type (1);Zinc finger, FYVE/PHD-type (1);	0.000000	0.85682	U	0.000000	D	0.98112	0.9377	H	0.99820	4.81	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.99327	1.0908	9	.	.	.	.	15.0483	0.71844	0.0:0.0:1.0:0.0	.	227	Q8WYH8	ING5_HUMAN	C	227	ENSP00000322142:W227C	.	W	+	3	0	ING5	242313077	1.000000	0.71417	1.000000	0.80357	0.888000	0.51559	6.130000	0.71663	2.217000	0.71921	0.551000	0.68910	TGG		0.622	ING5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000322901.3	NM_032329	Missense_Mutation	T	242664404	G	T	242664404	5	4	700	1	0	0	0	0	0	0	1	0	7746	1275	44	4	711	4	ING5	2	242664404	Splice_Site	SNP	G	TCGA-P4-A5ED-01A-11D-A28G-10	44394356	242664404	534969	7	45965										
C3orf39	84892	broad.mit.edu	37	chr3	43121560	43121560	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	gtatggtttgaatgagggacGggatgtccaccttggtgtcc	15	7	0	2	rs368757710		TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr3:43121560G>A	ENST00000344697.2	-	2	1709	c.1364C>T	c.(1363-1365)cCg>cTg	p.P455L	POMGNT2_ENST00000441964.1_Missense_Mutation_p.P455L	NM_032806.5	NP_116195.2	Q8NAT1	PMGT2_HUMAN	protein O-linked mannose N-acetylglucosaminyltransferase 2 (beta 1,4-)	455					protein O-linked glycosylation (GO:0006493)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	acetylglucosaminyltransferase activity (GO:0008375)|protein O-GlcNAc transferase activity (GO:0097363)										AATGAGGGACGGGATGTCCAC	0.612																																																0								G	LEU/PRO	0,4406		0,0,2203	40	40	40		1364	4.6	0.3	3		40	1,8599	1.2+/-3.3	0,1,4299	no	missense	C3orf39	NM_032806.4	98	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	benign	455/581	43121560	1,13005	2203	4300	6503	SO:0001583	missense	84892			AK092147	CCDS2709.1	3p22.1	2014-07-15	2013-08-22	2013-08-22	ENSG00000144647	ENSG00000144647			25902	protein-coding gene	gene with protein product		614828	"chromosome 3 open reading frame 39", "glycosyltransferase-like domain containing 2"	C3orf39, GTDC2		12477932	Standard	NM_032806		Approved	FLJ14566, AGO61	uc003cmr.2	Q8NAT1	OTTHUMG00000133038	ENST00000344697.2:c.1364C>T	3.37:g.43121560G>A	ENSP00000344125:p.Pro455Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWC3|Q96SY3	Missense_Mutation	SNP	ENST00000344697.2	37	CCDS2709.1	.	.	.	.	.	.	.	.	.	.	G	14.37	2.514589	0.44763	0.0	1.16E-4	ENSG00000144647	ENST00000441964;ENST00000344697	T;T	0.78003	-1.14;-1.14	5.53	4.56	0.56223	.	0.180058	0.49916	D	0.000134	T	0.77505	0.4140	M	0.78456	2.415	0.58432	D	0.999992	B	0.22003	0.063	B	0.19148	0.024	T	0.75091	-0.3440	10	0.52906	T	0.07	-28.5664	13.1243	0.59344	0.083:0.0:0.917:0.0	.	455	Q8NAT1	AGO61_HUMAN	L	455	ENSP00000408992:P455L;ENSP00000344125:P455L	ENSP00000344125:P455L	P	-	2	0	C3orf39	43096564	1.000000	0.71417	0.317000	0.25265	0.982000	0.71751	5.425000	0.66470	1.184000	0.42957	0.650000	0.86243	CCG		0.612	POMGNT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256643.1	NM_032806		A	43121560	G	A	43121560	3	1	700	1	0	0	0	0	1	0	0	0	2231	1116	39	1	382	1	C3orf39	3	43121560	Missense_Mutation	SNP	G	TCGA-P4-A5ED-01A-11D-A28G-10		43121560	154900870	8	45966										
ETV5	2119	broad.mit.edu	37	chr3	185797720	185797720	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	gtccaggctctggaagcgaaTggggggcgggggcggggccc	22	10	1	0			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr3:185797720T>G	ENST00000306376.5	-	7	782	c.536A>C	c.(535-537)cAt>cCt	p.H179P	ETV5_ENST00000434744.1_Missense_Mutation_p.H179P|ETV5_ENST00000537818.1_Missense_Mutation_p.H221P|ETV5-AS1_ENST00000453370.1_RNA	NM_004454.2	NP_004445.1	P41161	ETV5_HUMAN	ets variant 5	179					cell differentiation (GO:0030154)|cellular response to oxidative stress (GO:0034599)|locomotory behavior (GO:0007626)|male germ-line stem cell asymmetric division (GO:0048133)|neuromuscular synaptic transmission (GO:0007274)|positive regulation of glial cell proliferation (GO:0060252)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of branching involved in mammary gland duct morphogenesis (GO:0060762)|regulation of synapse organization (GO:0050807)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|skeletal muscle acetylcholine-gated channel clustering (GO:0071340)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	DNA binding (GO:0003677)|RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001228)|sequence-specific DNA binding RNA polymerase II transcription factor activity (GO:0000981)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|cervix(1)|large_intestine(7)|lung(9)|ovary(2)|prostate(1)|skin(4)|upper_aerodigestive_tract(2)	28	all_cancers(143;4.06e-12)|Ovarian(172;0.0386)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.62e-24)			TGGAAGCGAATGGGGGGCGGG	0.617			T	"TMPRSS2, SCL45A3"	Prostate																																		Dom	yes		3	3q28	2119	ets variant gene 5		E	0													54	61	59					3																	185797720		2203	4300	6503	SO:0001583	missense	2119			BC007333	CCDS33906.1	3q28	2008-09-12	2008-09-12		ENSG00000244405	ENSG00000244405			3494	protein-coding gene	gene with protein product	"ets-related molecule"	601600	"ets variant gene 5 (ets-related molecule)"			8152800	Standard	NM_004454		Approved	ERM	uc003fpz.3	P41161	OTTHUMG00000156639	ENST00000306376.5:c.536A>C	3.37:g.185797720T>G	ENSP00000306894:p.His179Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A6NH46|B7Z7D7|Q6IBN5	Missense_Mutation	SNP	ENST00000306376.5	37	CCDS33906.1	.	.	.	.	.	.	.	.	.	.	T	11.00	1.509461	0.27036	.	.	ENSG00000244405	ENST00000306376;ENST00000434744;ENST00000537818	T;T;T	0.10860	2.86;2.86;2.83	5.32	5.32	0.75619	PEA3-type ETS-domain transcription factor, N-terminal (1);	0.445754	0.24894	N	0.034741	T	0.12135	0.0295	N	0.25647	0.755	0.44123	D	0.996905	B;D	0.54207	0.0;0.965	B;P	0.49451	0.001;0.611	T	0.15206	-1.0445	10	0.28530	T	0.3	.	12.7886	0.57520	0.0:0.0:0.0:1.0	.	179;221	P41161;B7Z7D7	ETV5_HUMAN;.	P	179;179;221	ENSP00000306894:H179P;ENSP00000413755:H179P;ENSP00000441737:H221P	ENSP00000306894:H179P	H	-	2	0	ETV5	187280414	0.997000	0.39634	0.611000	0.29010	0.524000	0.34500	3.006000	0.49529	2.009000	0.58944	0.460000	0.39030	CAT		0.617	ETV5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344947.1	NM_004454		G	185797720	T	G	185797720	3	3	700	1	0	0	0	0	1	0	0	0	5284	1464	51	5	1024	5	ETV5	3	185797720	Missense_Mutation	SNP	T	TCGA-P4-A5ED-01A-11D-A28G-10	142676160	185797720	12224710	9	45967										
DOK7	285489	broad.mit.edu	37	chr4	3494664	3494664	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	atggtgggtgcctcaaggccAccccccaagccgctgcgtcc	12	17	1	0			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr4:3494664A>C	ENST00000340083.5	+	7	1016	c.951A>C	c.(949-951)ccA>ccC	p.P317P	DOK7_ENST00000512714.1_3'UTR|DOK7_ENST00000507039.1_3'UTR|DOK7_ENST00000389653.2_Silent_p.P317P	NM_173660.4	NP_775931.3	Q18PE1	DOK7_HUMAN	docking protein 7	317	Ser-rich.				neuromuscular junction development (GO:0007528)|positive regulation of protein tyrosine kinase activity (GO:0061098)|receptor clustering (GO:0043113)	cell junction (GO:0030054)|neuromuscular junction (GO:0031594)|plasma membrane (GO:0005886)	phosphatidylinositol binding (GO:0035091)|protein kinase binding (GO:0019901)			kidney(1)|large_intestine(1)|skin(2)|upper_aerodigestive_tract(1)	5				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		CCTCAAGGCCACCCCCCAAGC	0.692																																																0													7	8	7					4																	3494664		2122	4167	6289	SO:0001819	synonymous_variant	285489			AK091037	CCDS3370.2, CCDS54717.1	4p16.2	2014-09-17	2006-08-24	2006-08-24	ENSG00000175920	ENSG00000175920			26594	protein-coding gene	gene with protein product		610285	"chromosome 4 open reading frame 25"	C4orf25		16794080	Standard	NM_173660		Approved	FLJ33718, FLJ39137, Dok-7	uc003ghd.3	Q18PE1	OTTHUMG00000122087	ENST00000340083.5:c.951A>C	4.37:g.3494664A>C		Somatic		WXS	Illumina HiSeq	Phase_I	A2A499|A2RRD4|E9PB56|Q6P6A6|Q86XG5|Q8N2J3|Q8NBC1	Silent	SNP	ENST00000340083.5	37	CCDS3370.2																																																																																				0.692	DOK7-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000313538.1	NM_173660		C	3494664	A	C	3494664	2	2	700	1	0	0	0	0	0	0	0	1	4704	146	6	5		5	DOK7	4	3494664	Silent	SNP	A	TCGA-P4-A5ED-01A-11D-A28G-10		3494664	187659612	10	45968										
BST1	683	hgsc.bcm.edu	37	chr4	15704874	15704874	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	ggcgcgcgcgcggtggcgcgGggagggcaccagcgcacact	20	14	0	0	rs2302468	byFrequency	TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr4:15704874G>C	ENST00000265016.4	+	1	302	c.107G>C	c.(106-108)gGg>gCg	p.G36A	BST1_ENST00000382346.3_Missense_Mutation_p.G36A	NM_004334.2	NP_004325.2	Q10588	BST1_HUMAN	bone marrow stromal cell antigen 1	36				G -> A (in Ref. 1; BAA04885). {ECO:0000305}.	humoral immune response (GO:0006959)|multicellular organismal development (GO:0007275)	anchored component of membrane (GO:0031225)|extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|plasma membrane (GO:0005886)	NAD(P)+ nucleosidase activity (GO:0050135)|NAD+ nucleosidase activity (GO:0003953)|transferase activity (GO:0016740)			central_nervous_system(1)|large_intestine(1)|lung(2)|stomach(3)|urinary_tract(1)	8						cggtggcgcggggAGGGCACC	0.736													G|||	381	0.0760783	0.0212	0.0389	5008	,	,		9714	0.2103		0.008	False		,,,				2504	0.1084															0								G	ALA/GLY	23,3787		0,23,1882	3	4	4		107	3.4	1	4	dbSNP_100	4	19,7693		0,19,3837	no	missense	BST1	NM_004334.2	60	0,42,5719	CC,CG,GG		0.2464,0.6037,0.3645	possibly-damaging	36/319	15704874	42,11480	1905	3856	5761	SO:0001583	missense	683			D21878	CCDS3416.1	4p15	2010-05-04			ENSG00000109743	ENSG00000109743	3.2.2.5	"CD molecules"	1118	protein-coding gene	gene with protein product	"NAD(+) nucleosidase", "ADP-ribosyl cyclase 2"	600387				8202488	Standard	NM_004334		Approved	CD157	uc003goh.4	Q10588	OTTHUMG00000097739	ENST00000265016.4:c.107G>C	4.37:g.15704874G>C	ENSP00000265016:p.Gly36Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B2R6A2|Q1XII0|Q5U0K0|Q96EN3	Missense_Mutation	SNP	ENST00000265016.4	37	CCDS3416.1	141	0.06456043956043957	13	0.026422764227642278	10	0.027624309392265192	112	0.1958041958041958	6	0.0079155672823219	G	14.40	2.524166	0.44866	0.006037	0.002464	ENSG00000109743	ENST00000265016;ENST00000382346	T;T	0.17370	2.28;2.28	3.39	3.39	0.38822	.	0.510528	0.20699	N	0.087320	T	0.00039	0.0001	M	0.63843	1.955	0.36618	P	0.12441999999999998	D	0.76494	0.999	D	0.80764	0.994	T	0.04005	-1.0985	9	0.62326	D	0.03	-9.3919	10.4016	0.44233	0.0:0.0:1.0:0.0	rs2302468	36	Q10588	BST1_HUMAN	A	36	ENSP00000265016:G36A;ENSP00000371783:G36A	ENSP00000265016:G36A	G	+	2	0	BST1	15313972	0.859000	0.29813	0.955000	0.39395	0.020000	0.10135	2.992000	0.49417	1.879000	0.54435	0.462000	0.41574	GGG		0.736	BST1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000214968.2	NM_004334		C	15704874	G	C	15704874	3	2	700	1	0	0	0	0	1	0	0	0	1535	1232	43	4	109	4	BST1	4	15704874	Missense_Mutation	SNP	G	TCGA-P4-A5ED-01A-11D-A28G-10	12210210	15704874	175449402	11	45969										
WDFY3	23001	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	85675021	85675021	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	caagatccctcttcttctgaTtgccaaggctgttatgggga	10	10	3	2			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr4:85675021T>C	ENST00000295888.4	-	35	5975	c.5568A>G	c.(5566-5568)caA>caG	p.Q1856Q	WDFY3_ENST00000322366.6_Silent_p.Q1856Q	NM_014991.4	NP_055806.2	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3	1856					aggrephagy (GO:0035973)|positive regulation of macroautophagy (GO:0016239)	autophagic vacuole (GO:0005776)|cytoplasm (GO:0005737)|extrinsic component of membrane (GO:0019898)|inclusion body (GO:0016234)|nuclear envelope (GO:0005635)|PML body (GO:0016605)	1-phosphatidylinositol binding (GO:0005545)|beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity (GO:0003831)|metal ion binding (GO:0046872)			breast(5)|central_nervous_system(5)|endometrium(15)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(32)|lung(50)|ovary(3)|prostate(5)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	134		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CTTCTTCTGATTGCCAAGGCT	0.403																																																0													89	80	83					4																	85675021		2203	4300	6503	SO:0001819	synonymous_variant	23001			AB023210	CCDS3609.1	4q21.3	2013-01-09			ENSG00000163625	ENSG00000163625		"Zinc fingers, FYVE domain containing", "WD repeat domain containing"	20751	protein-coding gene	gene with protein product						10231032	Standard	NM_014991		Approved	KIAA0993, ALFY, ZFYVE25	uc003hpd.3	Q8IZQ1	OTTHUMG00000130424	ENST00000295888.4:c.5568A>G	4.37:g.85675021T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q4W5K5|Q6P0Q5|Q8N1T2|Q8NAV6|Q96BS7|Q96D33|Q96N85|Q9Y2J7	Silent	SNP	ENST00000295888.4	37	CCDS3609.1																																																																																				0.403	WDFY3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252811.2	NM_014991		C	85675021	T	C	85675021	2	2	700	1	0	0	0	0	0	0	0	1	17282	1490	52	3		3	WDFY3	4	85675021	Silent	SNP	T	TCGA-P4-A5ED-01A-11D-A28G-10	69970147	85675021	105479255	12	45970										
MTRR	4552	broad.mit.edu	37	chr5	7878351	7878351	+	Silent	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	tcctcacttacccgttcggtAcccccactctcacaagcctc	4	20	2	0			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr5:7878351A>C	ENST00000264668.2	+	5	807	c.777A>C	c.(775-777)gtA>gtC	p.V259V	MTRR_ENST00000341013.6_3'UTR|MTRR_ENST00000440940.2_Silent_p.V232V	NM_002454.2|NM_024010.2	NP_002445.2|NP_076915.2	Q9UBK8	MTRR_HUMAN	5-methyltetrahydrofolate-homocysteine methyltransferase reductase	259	Hinge.				cellular nitrogen compound metabolic process (GO:0034641)|cobalamin metabolic process (GO:0009235)|DNA methylation (GO:0006306)|folic acid metabolic process (GO:0046655)|methionine biosynthetic process (GO:0009086)|methionine metabolic process (GO:0006555)|methylation (GO:0032259)|oxidation-reduction process (GO:0055114)|small molecule metabolic process (GO:0044281)|sulfur amino acid metabolic process (GO:0000096)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)|xenobiotic metabolic process (GO:0006805)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|intermediate filament cytoskeleton (GO:0045111)|nucleus (GO:0005634)	[methionine synthase] reductase activity (GO:0030586)|flavin adenine dinucleotide binding (GO:0050660)|FMN binding (GO:0010181)|iron ion binding (GO:0005506)|NADP binding (GO:0050661)|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen (GO:0016709)|oxidoreductase activity, oxidizing metal ions, NAD or NADP as acceptor (GO:0016723)			NS(1)|breast(3)|endometrium(2)|kidney(1)|large_intestine(4)|liver(1)|lung(14)|ovary(1)|prostate(3)|stomach(1)	31					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	CCCGTTCGGTACCCCCACTCT	0.443																																																0													130	134	133					5																	7878351		2203	4300	6503	SO:0001819	synonymous_variant	4552			AF025794	CCDS3874.1, CCDS47190.1	5p15.31	2011-05-12			ENSG00000124275	ENSG00000124275	1.16.1.8		7473	protein-coding gene	gene with protein product		602568				9501215	Standard	NM_024010		Approved	cblE	uc003jed.3	Q9UBK8	OTTHUMG00000090477	ENST00000264668.2:c.777A>C	5.37:g.7878351A>C		Somatic		WXS	Illumina HiSeq	Phase_I	O60471|Q32MA9|Q7Z4M8	Silent	SNP	ENST00000264668.2	37	CCDS3874.1																																																																																				0.443	MTRR-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000206931.1			C	7878351	A	C	7878351	2	2	700	1	0	0	0	0	0	0	0	1	9968	378	14	5		5	MTRR	5	7878351	Silent	SNP	A	TCGA-P4-A5ED-01A-11D-A28G-10		7878351	173036909	13	45971										
SNX2	6643	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	122154607	122154607	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	tctagagctttgtctcagctTgcagaggttgaggagaagat	13	6	2	5			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr5:122154607T>G	ENST00000379516.2	+	11	1209	c.1101T>G	c.(1099-1101)ctT>ctG	p.L367L	SNX2_ENST00000510372.1_3'UTR|SNX2_ENST00000514949.1_Silent_p.L250L	NM_003100.2	NP_003091.2	O60749	SNX2_HUMAN	sorting nexin 2	367					endocytosis (GO:0006897)|intracellular protein transport (GO:0006886)|protein oligomerization (GO:0051259)	cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|endosome membrane (GO:0010008)|extracellular vesicular exosome (GO:0070062)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|protein complex (GO:0043234)|retromer complex (GO:0030904)	epidermal growth factor receptor binding (GO:0005154)|insulin receptor binding (GO:0005158)|leptin receptor binding (GO:1990460)|phosphatidylinositol binding (GO:0035091)|transferrin receptor binding (GO:1990459)			NS(1)|breast(1)|endometrium(4)|kidney(3)|large_intestine(6)|lung(2)|prostate(1)|skin(1)	19		all_cancers(142;1.14e-44)|all_lung(232;1.03e-13)|Lung NSC(810;2.5e-13)|Breast(839;0.000812)|Myeloproliferative disorder(839;0.0122)|Prostate(80;0.0235)|all_hematologic(541;0.0592)|all_neural(839;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.0897)|Kidney(363;0.137)	all cancers(49;2.13e-24)|Epithelial(69;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(64;5.6e-11)|BRCA - Breast invasive adenocarcinoma(61;0.00013)|GBM - Glioblastoma multiforme(465;0.000357)|COAD - Colon adenocarcinoma(49;0.000887)|Lung(113;0.0109)		TGTCTCAGCTTGCAGAGGTTG	0.393																																																0													124	117	119					5																	122154607		2203	4300	6503	SO:0001819	synonymous_variant	6643			AF043453	CCDS34217.1, CCDS64234.1	5q23.2	2011-05-03			ENSG00000205302	ENSG00000205302		"Sorting nexins"	11173	protein-coding gene	gene with protein product		605929				9819414	Standard	NM_003100		Approved		uc003kte.4	O60749	OTTHUMG00000163020	ENST00000379516.2:c.1101T>G	5.37:g.122154607T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KN44|B4DEK4|B7Z408|O43650|P82862|Q53XK8|Q597H6|Q9BTS8	Silent	SNP	ENST00000379516.2	37	CCDS34217.1																																																																																				0.393	SNX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000371392.1	NM_003100		G	122154607	T	G	122154607	2	3	700	1	0	0	0	0	0	0	0	1	14904	1799	63	5		5	SNX2	5	122154607	Silent	SNP	T	TCGA-P4-A5ED-01A-11D-A28G-10	114276256	122154607	58760653	14	45972										
ARHGAP26	23092	broad.mit.edu	37	chr5	142281554	142281554	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	atcaccatggttacgaactgGccaaggatttcggggacttc	11	10	1	0			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr5:142281554G>A	ENST00000274498.4	+	7	1030	c.652G>A	c.(652-654)Gcc>Acc	p.A218T	ARHGAP26_ENST00000378004.3_Missense_Mutation_p.A218T	NM_015071.4	NP_055886.1	Q9UNA1	RHG26_HUMAN	Rho GTPase activating protein 26	218					actin cytoskeleton organization (GO:0030036)|filopodium assembly (GO:0046847)|nervous system development (GO:0007399)|positive regulation of Rho GTPase activity (GO:0032321)|regulation of small GTPase mediated signal transduction (GO:0051056)|small GTPase mediated signal transduction (GO:0007264)	cell junction (GO:0030054)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)	phospholipid binding (GO:0005543)|Rho GTPase activator activity (GO:0005100)			autonomic_ganglia(1)|breast(1)|central_nervous_system(2)|endometrium(4)|kidney(3)|large_intestine(6)|lung(7)|ovary(1)	25		all_hematologic(541;0.0416)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TTACGAACTGGCCAAGGATTT	0.443																																																0													161	138	146					5																	142281554		2203	4300	6503	SO:0001583	missense	23092			AB014521	CCDS4277.1, CCDS47297.1	5q31	2011-06-29			ENSG00000145819	ENSG00000145819		"Rho GTPase activating proteins"	17073	protein-coding gene	gene with protein product	"GTPase regulator associated with the focal adhesion kinase pp125"	605370				9858476, 8649427	Standard	NM_001135608		Approved	GRAF, KIAA0621, OPHN1L, OPHN1L1	uc011dbj.2	Q9UNA1	OTTHUMG00000059705	ENST00000274498.4:c.652G>A	5.37:g.142281554G>A	ENSP00000274498:p.Ala218Thr	Somatic		WXS	Illumina HiSeq	Phase_I	O75117|Q5D035|Q9BYS6|Q9BYS7|Q9UJ00	Missense_Mutation	SNP	ENST00000274498.4	37	CCDS4277.1	.	.	.	.	.	.	.	.	.	.	G	32	5.135201	0.94517	.	.	ENSG00000145819	ENST00000274498;ENST00000378004	T;T	0.04275	3.66;3.66	5.79	5.79	0.91817	.	0.000000	0.85682	D	0.000000	T	0.19287	0.0463	M	0.66506	2.035	0.80722	D	1	D;P	0.63880	0.993;0.729	D;P	0.67103	0.949;0.544	T	0.01334	-1.1382	10	0.21540	T	0.41	.	19.6157	0.95633	0.0:0.0:1.0:0.0	.	218;218	Q9UNA1;Q9UNA1-2	RHG26_HUMAN;.	T	218	ENSP00000274498:A218T;ENSP00000367243:A218T	ENSP00000274498:A218T	A	+	1	0	ARHGAP26	142261738	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	9.476000	0.97823	2.739000	0.93911	0.563000	0.77884	GCC		0.443	ARHGAP26-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000132744.3	NM_015071		A	142281554	G	A	142281554	3	1	700	1	0	0	0	0	1	0	0	0	875	1203	42	2	678	2	ARHGAP26	5	142281554	Missense_Mutation	SNP	G	TCGA-P4-A5ED-01A-11D-A28G-10	20126947	142281554	38633706	15	45973										
NKX2-5	1482	broad.mit.edu	37	chr5	172659730	172659730	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	ggaaggcccggcggggtaagCggcagtgcagctgtagccag	19	10	0	0			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr5:172659730C>A	ENST00000329198.4	-	2	1090	c.817G>T	c.(817-819)Gct>Tct	p.A273S		NM_001166175.1|NM_001166176.1|NM_004387.3	NP_001159647.1|NP_001159648.1|NP_004378.1	P52952	NKX25_HUMAN	NK2 homeobox 5	273	Ala/Pro-rich.				adult heart development (GO:0007512)|apoptotic process involved in heart morphogenesis (GO:0003278)|atrial cardiac muscle cell development (GO:0055014)|atrial septum morphogenesis (GO:0060413)|atrioventricular node cell development (GO:0060928)|atrioventricular node cell fate commitment (GO:0060929)|BMP signaling pathway (GO:0030509)|bundle of His development (GO:0003166)|canonical Wnt signaling pathway (GO:0060070)|cardiac conduction system development (GO:0003161)|cardiac muscle cell differentiation (GO:0055007)|cardiac muscle cell proliferation (GO:0060038)|cardiac muscle contraction (GO:0060048)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac ventricle formation (GO:0003211)|cell differentiation (GO:0030154)|embryonic heart tube development (GO:0035050)|embryonic heart tube left/right pattern formation (GO:0060971)|heart looping (GO:0001947)|heart morphogenesis (GO:0003007)|heart trabecula formation (GO:0060347)|hemopoiesis (GO:0030097)|negative regulation of apoptotic process (GO:0043066)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cardiac muscle cell apoptotic process (GO:0010667)|negative regulation of myotube differentiation (GO:0010832)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|outflow tract septum morphogenesis (GO:0003148)|pharyngeal system development (GO:0060037)|positive regulation of cardioblast differentiation (GO:0051891)|positive regulation of cell proliferation (GO:0008284)|positive regulation of heart contraction (GO:0045823)|positive regulation of neuron differentiation (GO:0045666)|positive regulation of sodium ion transport (GO:0010765)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription initiation from RNA polymerase II promoter (GO:0060261)|positive regulation of transcription via serum response element binding (GO:0010735)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of voltage-gated calcium channel activity (GO:1901387)|proepicardium development (GO:0003342)|pulmonary myocardium development (GO:0003350)|Purkinje myocyte differentiation (GO:0003168)|regulation of cardiac muscle cell proliferation (GO:0060043)|regulation of cardiac muscle contraction (GO:0055117)|right ventricular cardiac muscle tissue morphogenesis (GO:0003221)|sarcomere organization (GO:0045214)|septum secundum development (GO:0003285)|spleen development (GO:0048536)|thyroid gland development (GO:0030878)|vasculogenesis (GO:0001570)|ventricular cardiac muscle cell development (GO:0055015)|ventricular cardiac myofibril assembly (GO:0055005)|ventricular septum morphogenesis (GO:0060412)|ventricular trabecula myocardium morphogenesis (GO:0003222)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|protein heterodimerization activity (GO:0046982)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|RNA polymerase II transcription cofactor activity (GO:0001104)|RNA polymerase II transcription factor binding transcription factor activity involved in positive regulation of transcription (GO:0001190)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|serum response element binding (GO:0010736)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			breast(1)|central_nervous_system(1)|large_intestine(2)|lung(7)|prostate(1)	12	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			GCGGGGTAAGCGGCAGTGCAG	0.672																																					Esophageal Squamous(72;810 1219 2387 13420 44943)											0													11	13	12					5																	172659730		2196	4286	6482	SO:0001583	missense	1482			AB021133	CCDS4387.1, CCDS54949.1, CCDS54950.1	5q34	2014-09-17	2011-06-01	2002-10-04	ENSG00000183072	ENSG00000183072		"Homeoboxes / ANTP class : NKL subclass"	2488	protein-coding gene	gene with protein product	"tinman paralog (Drosophila)"	600584	"cardiac-specific homeo box", "NK2 transcription factor related, locus 5 (Drosophila)"	CSX, NKX2E		7665173, 8900537	Standard	NM_004387		Approved	CSX1, NKX2.5, NKX4-1	uc003mcm.2	P52952	OTTHUMG00000130522	ENST00000329198.4:c.817G>T	5.37:g.172659730C>A	ENSP00000327758:p.Ala273Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K3K0|B4DNB6|E9PBU6	Missense_Mutation	SNP	ENST00000329198.4	37	CCDS4387.1	.	.	.	.	.	.	.	.	.	.	C	6.919	0.539183	0.13250	.	.	ENSG00000183072	ENST00000329198	D	0.89810	-2.57	4.07	4.07	0.47477	.	.	.	.	.	T	0.70535	0.3235	N	0.02960	-0.455	0.80722	D	1	B	0.25743	0.133	B	0.19391	0.025	T	0.68062	-0.5508	9	0.06625	T	0.88	.	11.6143	0.51080	0.0:1.0:0.0:0.0	.	273	P52952	NKX25_HUMAN	S	273	ENSP00000327758:A273S	ENSP00000327758:A273S	A	-	1	0	NKX2-5	172592336	0.895000	0.30542	0.787000	0.31911	0.085000	0.17905	1.416000	0.34759	2.083000	0.62718	0.542000	0.68232	GCT		0.672	NKX2-5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252942.2			A	172659730	C	A	172659730	3	1	700	1	0	0	0	0	1	0	0	0	10460	768	27	4	161	4	NKX2-5	5	172659730	Missense_Mutation	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10	30378176	172659730	8255530	16	45974										
SERPINB6	5269	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	2955761	2955761	+	Silent	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	gagcaagtatgacttactgaGaggaaatcacaagacttttc	9	7	1	3			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr6:2955761G>C	ENST00000380520.1	-	2	2303	c.309C>G	c.(307-309)ctC>ctG	p.L103L	SERPINB6_ENST00000380529.1_Silent_p.L103L|SERPINB6_ENST00000380524.1_Silent_p.L103L|SERPINB6_ENST00000380539.1_Silent_p.L103L|SERPINB6_ENST00000335686.5_Silent_p.L103L|SERPINB6_ENST00000380546.3_Silent_p.L103L			P35237	SPB6_HUMAN	serpin peptidase inhibitor, clade B (ovalbumin), member 6	103					negative regulation of endopeptidase activity (GO:0010951)|regulation of proteolysis (GO:0030162)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|protein complex (GO:0043234)	protease binding (GO:0002020)|serine-type endopeptidase inhibitor activity (GO:0004867)			breast(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(8)|stomach(1)|upper_aerodigestive_tract(2)	17	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Drotrecogin alfa(DB00055)	GACTTACTGAGAGGAAATCAC	0.493																																																0													78	78	78					6																	2955761		2203	4300	6503	SO:0001819	synonymous_variant	5269			Z22658	CCDS4479.1, CCDS75386.1, CCDS75387.1	6p25.2	2014-02-18	2005-08-18		ENSG00000124570	ENSG00000124570		"Serine (or cysteine) peptidase inhibitors"	8950	protein-coding gene	gene with protein product	"cytoplasmic antiproteinase"	173321	"serine (or cysteine) proteinase inhibitor, clade B (ovalbumin), member 6", "deafness, autosomal recessive 91"	PI6, DFNB91		8415716, 9858835, 20451170, 24172014	Standard	NM_004568		Approved	PTI, CAP	uc031smo.1	P35237	OTTHUMG00000016170	ENST00000380520.1:c.309C>G	6.37:g.2955761G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B2RBA8|Q59F97|Q5TD06|Q7Z2Y7|Q96J44|Q9UDI7	Silent	SNP	ENST00000380520.1	37	CCDS4479.1																																																																																				0.493	SERPINB6-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043422.1			C	2955761	G	C	2955761	2	2	700	1	0	0	0	0	0	0	0	1	14118	929	33	4		4	SERPINB6	6	2955761	Silent	SNP	G	TCGA-P4-A5ED-01A-11D-A28G-10		2955761	168159306	17	45975										
SRRT	51593	broad.mit.edu	37	chr7	100482130	100482130	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	aggcctaggggacggggagcGcaaaaccaacgacaaggatg	16	9	0	0	rs140745082		TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr7:100482130G>A	ENST00000347433.4	+	7	1057	c.899G>A	c.(898-900)cGc>cAc	p.R300H	SRRT_ENST00000457580.2_Missense_Mutation_p.R300H|SRRT_ENST00000388793.4_Missense_Mutation_p.R300H|SRRT_ENST00000432932.1_Missense_Mutation_p.R300H			Q9BXP5	SRRT_HUMAN	serrate, RNA effector molecule	300	Glu-rich.				cell proliferation (GO:0008283)|neuronal stem cell maintenance (GO:0097150)|primary miRNA processing (GO:0031053)|regulation of transcription, DNA-templated (GO:0006355)|response to arsenic-containing substance (GO:0046685)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(5)|ovary(3)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	40						GACGGGGAGCGCAAAACCAAC	0.637																																																0								G	HIS/ARG,HIS/ARG,HIS/ARG,HIS/ARG	0,4404		0,0,2202	49	51	51		899,899,899,899	3.9	1	7	dbSNP_134	51	3,8595	3.0+/-9.4	0,3,4296	yes	missense,missense,missense,missense	SRRT	NM_001128852.1,NM_001128853.1,NM_001128854.1,NM_015908.5	29,29,29,29	0,3,6498	AA,AG,GG		0.0349,0.0,0.0231	possibly-damaging,possibly-damaging,possibly-damaging,possibly-damaging	300/876,300/873,300/872,300/877	100482130	3,12999	2202	4299	6501	SO:0001583	missense	51593				CCDS34709.1, CCDS47665.1, CCDS47666.1, CCDS47667.1	7q21	2014-04-14	2014-04-14		ENSG00000087087	ENSG00000087087			24101	protein-coding gene	gene with protein product	"arsenite resistance protein"	614469	"serrate RNA effector molecule homolog (Arabidopsis)"			11239002, 11230166	Standard	NM_015908		Approved	Asr2, serrate, ARS2	uc003uwy.2	Q9BXP5	OTTHUMG00000157031	ENST00000347433.4:c.899G>A	7.37:g.100482130G>A	ENSP00000314491:p.Arg300His	Somatic		WXS	Illumina HiSeq	Phase_I	A4D2E5|A4D2E6|A6NK22|B4DJL4|B4DZA6|O95808|Q32MI4|Q6NT74|Q8TDQ5|Q9BWP6|Q9BXP4|Q9Y4S4	Missense_Mutation	SNP	ENST00000347433.4	37	CCDS34709.1	.	.	.	.	.	.	.	.	.	.	G	12.72	2.021553	0.35701	0.0	3.49E-4	ENSG00000087087	ENST00000457580;ENST00000388793;ENST00000432932;ENST00000347433	T;T	0.17691	2.26;2.26	3.91	3.91	0.45181	.	0.231821	0.36555	N	0.002525	T	0.17831	0.0428	N	0.14661	0.345	0.38836	D	0.955963	D;D;D;D	0.69078	0.997;0.997;0.997;0.995	P;P;P;P	0.56343	0.796;0.796;0.796;0.63	T	0.04885	-1.0920	10	0.42905	T	0.14	.	11.5862	0.50920	0.0:0.0:1.0:0.0	.	300;300;300;300	Q9BXP5-3;Q9BXP5-4;Q9BXP5-2;Q9BXP5	.;.;.;SRRT_HUMAN	H	300	ENSP00000416553:R300H;ENSP00000314491:R300H	ENSP00000314491:R300H	R	+	2	0	SRRT	100320066	0.917000	0.31117	0.999000	0.59377	0.004000	0.04260	4.689000	0.61723	2.203000	0.70933	0.491000	0.48974	CGC		0.637	SRRT-004	NOVEL	non_canonical_conserved|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000347168.1	NM_015908		A	100482130	G	A	100482130	3	1	700	1	0	0	0	0	1	0	0	0	15184	1087	38	1	921	1	SRRT	7	100482130	Missense_Mutation	SNP	G	TCGA-P4-A5ED-01A-11D-A28G-10		100482130	58656533	18	45976										
SGK223	157285	broad.mit.edu	37	chr8	8239069	8239069	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	tccaggcggcagttctcaggCctgggaggcaggcgcggtgg	19	11	1	0			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr8:8239069C>A	ENST00000520004.1	-	2	453	c.189G>T	c.(187-189)agG>agT	p.R63S	SGK223_ENST00000330777.4_Missense_Mutation_p.R63S			Q86YV5	SG223_HUMAN		63							ATP binding (GO:0005524)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)										AGTTCTCAGGCCTGGGAGGCA	0.657																																					GBM(34;731 755 10259 33573 33867)											0													48	49	49					8																	8239069		2004	4157	6161	SO:0001583	missense	0																														ENST00000520004.1:c.189G>T	8.37:g.8239069C>A	ENSP00000428054:p.Arg63Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3N5	Missense_Mutation	SNP	ENST00000520004.1	37	CCDS43706.1	.	.	.	.	.	.	.	.	.	.	C	13.44	2.236881	0.39498	.	.	ENSG00000182319	ENST00000330777;ENST00000520004	T;T	0.59083	0.29;0.29	4.49	2.69	0.31865	.	0.226672	0.30658	N	0.009160	T	0.41696	0.1170	L	0.38531	1.155	0.27832	N	0.941416	B	0.31968	0.349	B	0.24701	0.055	T	0.44802	-0.9304	10	0.72032	D	0.01	.	8.2345	0.31618	0.0:0.7459:0.0:0.2541	.	63	Q86YV5	SG223_HUMAN	S	63	ENSP00000330930:R63S;ENSP00000428054:R63S	ENSP00000330930:R63S	R	-	3	2	AC068353.1	8276479	1.000000	0.71417	0.887000	0.34795	0.775000	0.43874	0.980000	0.29513	1.272000	0.44329	-0.230000	0.12252	AGG		0.657	SGK223-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374864.1			A	8239069	C	A	8239069	3	1	700	1	0	0	0	0	1	0	0	0	14223	738	26	4	4039	4	SGK223	8	8239069	Missense_Mutation	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10		8239069	138124953	19	45977										
TERF1	7013	broad.mit.edu;bcgsc.ca	37	chr8	73926211	73926211	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	gtttttgacaagaattgcagCaggaaaaacccttggtaaat	9	6	0	2			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr8:73926211C>G	ENST00000276603.5	+	2	424	c.401C>G	c.(400-402)gCa>gGa	p.A134G	TERF1_ENST00000276602.6_Missense_Mutation_p.A134G	NM_017489.2	NP_059523.2	P54274	TERF1_HUMAN	telomeric repeat binding factor (NIMA-interacting) 1	134	TRFH dimerization.				age-dependent telomere shortening (GO:0001309)|G2/M transition of mitotic cell cycle (GO:0000086)|mitotic nuclear division (GO:0007067)|mitotic spindle assembly checkpoint (GO:0007094)|negative regulation of DNA replication (GO:0008156)|negative regulation of telomerase activity (GO:0051974)|negative regulation of telomere maintenance via semi-conservative replication (GO:0032214)|negative regulation of telomere maintenance via telomerase (GO:0032211)|positive regulation of apoptotic process (GO:0043065)|positive regulation of microtubule polymerization (GO:0031116)|positive regulation of mitosis (GO:0045840)|positive regulation of mitotic cell cycle (GO:0045931)|protein homooligomerization (GO:0051260)|response to drug (GO:0042493)|telomere maintenance (GO:0000723)|telomere maintenance via telomerase (GO:0007004)|telomere maintenance via telomere shortening (GO:0010834)	chromosome, telomeric region (GO:0000781)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|nuclear telomere cap complex (GO:0000783)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|DNA binding, bending (GO:0008301)|double-stranded telomeric DNA binding (GO:0003691)|microtubule binding (GO:0008017)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|telomeric DNA binding (GO:0042162)			central_nervous_system(1)|large_intestine(1)|lung(5)|ovary(1)|skin(1)	9	Breast(64;0.218)		Epithelial(68;0.0984)			AGAATTGCAGCAGGAAAAACC	0.318																																																0													57	61	60					8																	73926211		2200	4298	6498	SO:0001583	missense	7013			U74382	CCDS6210.1, CCDS6211.1	8q21.11	2011-05-24			ENSG00000147601	ENSG00000147601			11728	protein-coding gene	gene with protein product		600951		TRBF1		9391075	Standard	NM_003218		Approved	PIN2, TRF1, TRF	uc003xzd.2	P54274	OTTHUMG00000164522	ENST00000276603.5:c.401C>G	8.37:g.73926211C>G	ENSP00000276603:p.Ala134Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A7XP29|Q15553|Q8NHT6|Q93029	Missense_Mutation	SNP	ENST00000276603.5	37	CCDS6211.1	.	.	.	.	.	.	.	.	.	.	C	12.33	1.904898	0.33628	.	.	ENSG00000147601	ENST00000276603;ENST00000276602;ENST00000517390;ENST00000538958	.	.	.	5.24	3.15	0.36227	Telomere repeat-binding factor, dimerisation domain (4);	0.401124	0.26840	N	0.022235	T	0.30572	0.0769	L	0.44542	1.39	0.23198	N	0.998131	P;P	0.49090	0.701;0.919	B;P	0.45753	0.205;0.492	T	0.12682	-1.0538	9	0.51188	T	0.08	.	5.681	0.17776	0.2799:0.6202:0.0:0.0999	.	134;134	P54274-2;P54274	.;TERF1_HUMAN	G	134;134;30;30	.	ENSP00000276602:A134G	A	+	2	0	TERF1	74088765	1.000000	0.71417	0.942000	0.38095	0.753000	0.42808	2.151000	0.42263	1.353000	0.45828	0.313000	0.20887	GCA		0.318	TERF1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000379093.1	NM_017489		G	73926211	C	G	73926211	3	3	700	1	0	0	0	0	1	0	0	0	15773	710	25	4	407	4	TERF1	8	73926211	Missense_Mutation	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10	65687142	73926211	72437811	20	45978										
NBN	4683	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	90967743	90967743	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	cattctgaatttttgttccaTtttggagactttgatttctt	6	6	2	3			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr8:90967743T>C	ENST00000265433.3	-	10	1319	c.1165A>G	c.(1165-1167)Atg>Gtg	p.M389V	NBN_ENST00000409330.1_Missense_Mutation_p.M307V	NM_002485.4	NP_002476.2	O60934	NBN_HUMAN	nibrin	389	Interaction with MTOR, MAPKAP1 and RICTOR.				blastocyst growth (GO:0001832)|cell cycle arrest (GO:0007050)|cell proliferation (GO:0008283)|DNA damage checkpoint (GO:0000077)|DNA damage response, signal transduction by p53 class mediator (GO:0030330)|DNA duplex unwinding (GO:0032508)|DNA repair (GO:0006281)|double-strand break repair (GO:0006302)|double-strand break repair via homologous recombination (GO:0000724)|intrinsic apoptotic signaling pathway (GO:0097193)|isotype switching (GO:0045190)|meiotic nuclear division (GO:0007126)|mitotic cell cycle checkpoint (GO:0007093)|mitotic G2 DNA damage checkpoint (GO:0007095)|neuromuscular process controlling balance (GO:0050885)|positive regulation of kinase activity (GO:0033674)|positive regulation of protein autophosphorylation (GO:0031954)|regulation of DNA-dependent DNA replication initiation (GO:0030174)|telomere maintenance (GO:0000723)	Mre11 complex (GO:0030870)|nuclear chromosome, telomeric region (GO:0000784)|nuclear inclusion body (GO:0042405)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|replication fork (GO:0005657)|site of double-strand break (GO:0035861)	damaged DNA binding (GO:0003684)|protein N-terminus binding (GO:0047485)|transcription factor binding (GO:0008134)			autonomic_ganglia(1)|central_nervous_system(3)|endometrium(4)|kidney(3)|large_intestine(2)|lung(7)|prostate(2)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	27			BRCA - Breast invasive adenocarcinoma(11;0.0344)			TTTTGTTCCATTTTGGAGACT	0.338								Homologous recombination																																								0													104	98	100					8																	90967743		2203	4300	6503	SO:0001583	missense	4683			AF058696	CCDS6249.1	8q21-q24	2014-09-17	2005-06-02	2005-06-02	ENSG00000104320	ENSG00000104320			7652	protein-coding gene	gene with protein product		602667	"Nijmegen breakage syndrome 1 (nibrin)"	NBS, NBS1		9590181, 9590180	Standard	XM_005250923		Approved	ATV, AT-V2, AT-V1	uc003yej.1	O60934	OTTHUMG00000153546	ENST00000265433.3:c.1165A>G	8.37:g.90967743T>C	ENSP00000265433:p.Met389Val	Somatic		WXS	Illumina HiSeq	Phase_I	B2R626|B2RNC5|O60672|Q32NF7|Q53FM6|Q63HR6|Q7LDM2	Missense_Mutation	SNP	ENST00000265433.3	37	CCDS6249.1	.	.	.	.	.	.	.	.	.	.	T	0.019	-1.453422	0.01071	.	.	ENSG00000104320	ENST00000265433;ENST00000409330;ENST00000452387	T;T	0.56941	2.1;0.43	5.45	-1.76	0.08006	.	0.952676	0.09006	N	0.862316	T	0.20659	0.0497	N	0.05383	-0.06	0.09310	N	1	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.24119	-1.0169	10	0.02654	T	1	3.3137	1.3277	0.02128	0.1323:0.1639:0.2892:0.4145	.	389;389	A6H8Y5;O60934	.;NBN_HUMAN	V	389;307;389	ENSP00000265433:M389V;ENSP00000386924:M307V	ENSP00000265433:M389V	M	-	1	0	NBN	91036919	0.001000	0.12720	0.000000	0.03702	0.000000	0.00434	0.078000	0.14761	-0.233000	0.09797	-0.321000	0.08615	ATG		0.338	NBN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331583.3	NM_001024688		C	90967743	T	C	90967743	3	2	700	1	0	0	0	0	1	0	0	0	10198	1493	52	3	1127	3	NBN	8	90967743	Missense_Mutation	SNP	T	TCGA-P4-A5ED-01A-11D-A28G-10	17041532	90967743	55396279	21	45979										
FREM1	158326	broad.mit.edu	37	chr9	14770686	14770686	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	cgtcctcagtgtcagggtctGatgccttcaacacgcgggaa	12	12	4	1			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr9:14770686G>T	ENST00000380880.3	-	26	5759	c.4976C>A	c.(4975-4977)tCa>tAa	p.S1659*	FREM1_ENST00000380894.1_Nonsense_Mutation_p.S195*|FREM1_ENST00000422223.2_Nonsense_Mutation_p.S1659*|FREM1_ENST00000486223.1_5'UTR|FREM1_ENST00000380881.4_Nonsense_Mutation_p.S1660*			Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1	1659					cell communication (GO:0007154)|cell-matrix adhesion (GO:0007160)|craniofacial suture morphogenesis (GO:0097094)	basement membrane (GO:0005604)|integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)|metal ion binding (GO:0046872)			breast(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(23)|lung(40)|ovary(4)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	100				GBM - Glioblastoma multiforme(50;3.53e-06)		GTCAGGGTCTGATGCCTTCAA	0.478																																																0													145	137	139					9																	14770686		1971	4155	6126	SO:0001587	stop_gained	158326			AK058190	CCDS47952.1, CCDS55293.1	9p22.3	2010-06-04	2004-12-15	2004-12-15	ENSG00000164946	ENSG00000164946			23399	protein-coding gene	gene with protein product		608944	"chromosome 9 open reading frame 154"	C9orf154		12838346, 15345741	Standard	NM_144966		Approved	FLJ25461, C9orf145, C9orf143, DKFZp686M16108, TILRR	uc003zlm.3	Q5H8C1	OTTHUMG00000019575	ENST00000380880.3:c.4976C>A	9.37:g.14770686G>T	ENSP00000370262:p.Ser1659*	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBX4|Q5VV00|Q5VV01|Q6MZI4|Q8NEG9|Q96LI3	Nonsense_Mutation	SNP	ENST00000380880.3	37	CCDS47952.1	.	.	.	.	.	.	.	.	.	.	G	16.68	3.189900	0.57909	.	.	ENSG00000164946	ENST00000380881;ENST00000422223;ENST00000380894;ENST00000380880;ENST00000380892	.	.	.	5.8	4.9	0.64082	.	0.372091	0.28712	N	0.014390	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.15066	T	0.55	-3.8618	11.5807	0.50889	0.136:0.0:0.864:0.0	.	.	.	.	X	1660;1659;195;1659;72	.	ENSP00000370262:S1659X	S	-	2	0	FREM1	14760686	0.648000	0.27313	0.054000	0.19295	0.348000	0.29142	2.486000	0.45259	2.743000	0.94032	0.650000	0.86243	TCA		0.478	FREM1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000339474.2	NM_144966		T	14770686	G	T	14770686	4	4	700	1	0	0	0	0	0	1	0	0	6051	1294	45	4	1611	4	FREM1	9	14770686	Nonsense_Mutation	SNP	G	TCGA-P4-A5ED-01A-11D-A28G-10		14770686	126442745	22	45980										
TAF1L	138474	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	32633310	32633310	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	tcaagtgcctgcagtaattgGccaggatggagagagcccaa	13	9	1	1			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr9:32633310G>A	ENST00000242310.4	-	1	2357	c.2268C>T	c.(2266-2268)ggC>ggT	p.G756G	RP11-555J4.4_ENST00000430787.1_RNA	NM_153809.2	NP_722516.1	Q8IZX4	TAF1L_HUMAN	TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 210kDa-like	756					DNA-templated transcription, initiation (GO:0006352)|histone acetylation (GO:0016573)|male meiosis (GO:0007140)|positive regulation of transcription, DNA-templated (GO:0045893)|protein phosphorylation (GO:0006468)|regulation of transcription from RNA polymerase II promoter (GO:0006357)	transcription factor TFIID complex (GO:0005669)	DNA binding (GO:0003677)|histone acetyltransferase activity (GO:0004402)|lysine-acetylated histone binding (GO:0070577)|protein serine/threonine kinase activity (GO:0004674)|TBP-class protein binding (GO:0017025)			breast(6)|central_nervous_system(4)|endometrium(14)|kidney(11)|large_intestine(32)|liver(2)|lung(68)|ovary(2)|pancreas(2)|prostate(7)|skin(9)|stomach(1)|upper_aerodigestive_tract(1)	159			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		GCAGTAATTGGCCAGGATGGA	0.443																																																0													184	180	182					9																	32633310		2203	4300	6503	SO:0001819	synonymous_variant	138474			AF390562	CCDS35003.1	9p12	2007-07-27	2007-07-27		ENSG00000122728	ENSG00000122728			18056	protein-coding gene	gene with protein product		607798	"TAF1-like RNA polymerase II, TATA box binding protein (TBP)-associated factor, 210kDa"			12217962	Standard	NM_153809		Approved		uc003zrg.1	Q8IZX4	OTTHUMG00000019747	ENST00000242310.4:c.2268C>T	9.37:g.32633310G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q0VG57	Silent	SNP	ENST00000242310.4	37	CCDS35003.1																																																																																				0.443	TAF1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052012.2			A	32633310	G	A	32633310	2	1	700	1	0	0	0	0	0	0	0	1	15535	1190	42	2		2	TAF1L	9	32633310	Silent	SNP	G	TCGA-P4-A5ED-01A-11D-A28G-10	17862624	32633310	108580121	23	45981										
DCAF10	79269	hgsc.bcm.edu	37	chr9	37800965	37800965	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	caggcagcagccaccgggccGccctcgccactacatcccgg	11	20	0	0	rs373032176		TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr9:37800965G>T	ENST00000377724.3	+	1	467	c.102G>T	c.(100-102)ccG>ccT	p.P34P	RP11-613M10.9_ENST00000540557.1_Intron|DCAF10_ENST00000242323.7_Silent_p.P34P	NM_024345.3	NP_077321.3	Q5QP82	DCA10_HUMAN	DDB1 and CUL4 associated factor 10	34	Pro-rich.				protein ubiquitination (GO:0016567)	Cul4-RING E3 ubiquitin ligase complex (GO:0080008)				central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(4)|skin(1)	12						CCACCGGGCCGCCCTCGCCAC	0.761													G|||	1	0.000199681	0.0	0.0	5008	,	,		10350	0.0		0.001	False		,,,				2504	0.0															0								G		2,2882		0,2,1440	3	4	3		102	-2.9	0.1	9		3	5,6809		0,5,3402	no	coding-synonymous	DCAF10	NM_024345.3		0,7,4842	TT,TG,GG		0.0734,0.0693,0.0722		34/560	37800965	7,9691	1442	3407	4849	SO:0001819	synonymous_variant	79269			BC003520	CCDS6613.2, CCDS75835.1	9p13.2	2013-01-09	2009-07-17	2009-07-17	ENSG00000122741	ENSG00000122741		"WD repeat domain containing", "DDB1 and CUL4 associated factors"	23686	protein-coding gene	gene with protein product			"WD repeat domain 32"	WDR32			Standard	NM_001286810		Approved	MGC10765, FLJ23201	uc004aao.3	Q5QP82	OTTHUMG00000019934	ENST00000377724.3:c.102G>T	9.37:g.37800965G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A4VCJ5|Q32NE2|Q8N2Q5|Q96ET5|Q9BTQ5|Q9H5P6	Silent	SNP	ENST00000377724.3	37	CCDS6613.2																																																																																				0.761	DCAF10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052485.2	NM_024345		T	37800965	G	T	37800965	2	4	700	1	0	0	0	0	0	0	0	1	4263	1074	38	4		4	DCAF10	9	37800965	Silent	SNP	G	TCGA-P4-A5ED-01A-11D-A28G-10	5167655	37800965	103412466	24	45982										
STX17	55014	broad.mit.edu	37	chr9	102730843	102730843	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	agctgcacttggtggtggggTgttgggcttcacaggtggaa	18	6	1	0			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr9:102730843T>G	ENST00000259400.6	+	8	933	c.797T>G	c.(796-798)gTg>gGg	p.V266G	STX17_ENST00000525847.1_3'UTR|STX17_ENST00000525640.1_Missense_Mutation_p.V266G|STX17_ENST00000534052.1_Missense_Mutation_p.V266G	NM_017919.2	NP_060389.2	P56962	STX17_HUMAN	syntaxin 17	266	Necessary and sufficient for localization to autophagosome.				autophagic vacuole fusion (GO:0000046)|endoplasmic reticulum-Golgi intermediate compartment organization (GO:0097111)|ER to Golgi vesicle-mediated transport (GO:0006888)|exocytosis (GO:0006887)|Golgi organization (GO:0007030)|intracellular protein transport (GO:0006886)|protein localization to pre-autophagosomal structure (GO:0034497)	autophagic vacuole membrane (GO:0000421)|cytosol (GO:0005829)|endoplasmic reticulum membrane (GO:0005789)|endoplasmic reticulum-Golgi intermediate compartment (GO:0005793)|ER to Golgi transport vesicle (GO:0030134)|ER-mitochondrion membrane contact site (GO:0044233)|integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)|smooth endoplasmic reticulum membrane (GO:0030868)|SNARE complex (GO:0031201)	protein phosphatase binding (GO:0019903)|SNAP receptor activity (GO:0005484)|SNARE binding (GO:0000149)			endometrium(2)|large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)	7		Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				GGTGGTGGGGTGTTGGGCTTC	0.517																																																0													60	67	65					9																	102730843		2203	4300	6503	SO:0001583	missense	55014			AL834371	CCDS6745.1	9q31.1	2008-02-05			ENSG00000136874	ENSG00000136874			11432	protein-coding gene	gene with protein product		604204				9852078	Standard	NM_017919		Approved	FLJ20651	uc004bal.4	P56962	OTTHUMG00000020359	ENST00000259400.6:c.797T>G	9.37:g.102730843T>G	ENSP00000259400:p.Val266Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VXC2	Missense_Mutation	SNP	ENST00000259400.6	37	CCDS6745.1	.	.	.	.	.	.	.	.	.	.	T	13.39	2.222238	0.39300	.	.	ENSG00000136874	ENST00000259400;ENST00000525640;ENST00000534052	.	.	.	5.28	5.28	0.74379	.	0.347306	0.27130	N	0.020792	T	0.48943	0.1528	L	0.34521	1.04	0.58432	D	0.999998	B	0.34214	0.442	B	0.34991	0.193	T	0.54761	-0.8245	9	0.87932	D	0	-7.5824	13.8021	0.63206	0.0:0.0:0.0:1.0	.	266	P56962	STX17_HUMAN	G	266	.	ENSP00000259400:V266G	V	+	2	0	STX17	101770664	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	3.856000	0.55964	1.999000	0.58509	0.533000	0.62120	GTG		0.517	STX17-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000053398.3	NM_017919		G	102730843	T	G	102730843	3	3	700	1	0	0	0	0	1	0	0	0	15352	1696	59	5	823	5	STX17	9	102730843	Missense_Mutation	SNP	T	TCGA-P4-A5ED-01A-11D-A28G-10	64929878	102730843	38482588	25	45983										
TM7SF2	7108	hgsc.bcm.edu	37	chr11	64880061	64880061	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	cggcccgttcgggccccgcgCgcctgctgggtccacccgcg	15	20	0	0	rs371186990	byFrequency	TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr11:64880061C>T	ENST00000279263.7	+	2	289	c.127C>T	c.(127-129)Cgc>Tgc	p.R43C	TM7SF2_ENST00000345348.5_Missense_Mutation_p.R43C|TM7SF2_ENST00000540748.1_5'UTR|AP003068.9_ENST00000528887.1_RNA	NM_003273.2	NP_003264.2	O76062	ERG24_HUMAN	transmembrane 7 superfamily member 2	43					cholesterol biosynthetic process (GO:0006695)|small molecule metabolic process (GO:0044281)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)	delta14-sterol reductase activity (GO:0050613)			lung(14)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	18						GGGCCCCGCGCGCCTGCTGGG	0.761													C|||	2	0.000399361	0.0	0.0	5008	,	,		9764	0.0		0.001	False		,,,				2504	0.001															0								C	CYS/ARG	0,2736		0,0,1368	2	2	2		127	3.8	1	11		2	1,6125		0,1,3062	no	missense	TM7SF2	NM_003273.2	180	0,1,4430	TT,TC,CC		0.0163,0.0,0.0113	probably-damaging	43/419	64880061	1,8861	1368	3063	4431	SO:0001583	missense	7108			BC012857	CCDS41669.1, CCDS60846.1	11q13.1	2013-05-23			ENSG00000149809	ENSG00000149809	1.3.1.70		11863	protein-coding gene	gene with protein product	"delta(14)-sterol reductase"	603414				9615229, 9286704	Standard	NM_003273		Approved	ANG1, DHCR14A, NET47	uc001oct.4	O76062	OTTHUMG00000165603	ENST00000279263.7:c.127C>T	11.37:g.64880061C>T	ENSP00000279263:p.Arg43Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4H0|O95982|Q8IY06|Q96E64|Q96GZ1	Missense_Mutation	SNP	ENST00000279263.7	37	CCDS41669.1	.	.	.	.	.	.	.	.	.	.	c	18.67	3.674356	0.67928	0.0	1.63E-4	ENSG00000149809	ENST00000526809;ENST00000279263;ENST00000524986;ENST00000534371;ENST00000525385;ENST00000345348;ENST00000531321;ENST00000529414;ENST00000530750	D;D;D;D;D;D;D;D;T	0.99014	-4.71;-4.76;-4.18;-5.17;-4.38;-4.9;-5.33;-4.27;-1.08	4.77	3.78	0.43462	.	1.425240	0.04660	N	0.408682	D	0.98416	0.9473	N	0.22421	0.69	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.66847	0.911;0.947	D	0.95356	0.8451	10	0.56958	D	0.05	-14.5223	9.5491	0.39299	0.3109:0.6891:0.0:0.0	.	43;43	O76062-2;O76062	.;ERG24_HUMAN	C	43;43;14;43;14;43;14;43;43	ENSP00000432171:R43C;ENSP00000279263:R43C;ENSP00000435972:R14C;ENSP00000432187:R43C;ENSP00000433325:R14C;ENSP00000329520:R43C;ENSP00000431300:R14C;ENSP00000433275:R43C;ENSP00000432413:R43C	ENSP00000279263:R43C	R	+	1	0	TM7SF2	64636637	1.000000	0.71417	1.000000	0.80357	0.384000	0.30261	1.094000	0.30951	2.484000	0.83849	0.556000	0.70494	CGC		0.761	TM7SF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385234.1	NM_003273		T	64880061	C	T	64880061	3	4	700	1	0	0	0	0	1	0	0	0	15986	768	27	1	133	1	TM7SF2	11	64880061	Missense_Mutation	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10		64880061	70126455	26	45984										
B3GNT6	192134	hgsc.bcm.edu	37	chr11	76751497	76751497	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	cctgcgcgcggccgcccgccAcaccccgctcttccccatcg	9	24	1	0	rs559157215	byFrequency	TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr11:76751497A>G	ENST00000533140.1	+	2	1040	c.902A>G	c.(901-903)cAc>cGc	p.H301R	B3GNT6_ENST00000421061.1_Intron|B3GNT6_ENST00000354301.5_Missense_Mutation_p.H301R			O43505	B3GN1_HUMAN	UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 6 (core 3 synthase)	0					axon guidance (GO:0007411)|carbohydrate metabolic process (GO:0005975)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate metabolic process (GO:0042339)|poly-N-acetyllactosamine biosynthetic process (GO:0030311)|protein glycosylation (GO:0006486)|small molecule metabolic process (GO:0044281)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)	N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase activity (GO:0008532)			central_nervous_system(1)|kidney(2)|lung(4)|prostate(1)	8						gccgcccgccACACCCCGCTC	0.756													A|||	21	0.00419329	0.0008	0.0288	5008	,	,		10513	0.0		0.0	False		,,,				2504	0.0															0																																										SO:0001583	missense	192134			AB073740	CCDS53681.1	11q13.4	2013-02-19			ENSG00000198488	ENSG00000198488		"Beta 3-glycosyltransferases"	24141	protein-coding gene	gene with protein product		615315				11821425	Standard	NM_138706		Approved	B3Gn-T6	uc021qnp.1	Q6ZMB0		ENST00000533140.1:c.902A>G	11.37:g.76751497A>G	ENSP00000435352:p.His301Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q4TTN0	Missense_Mutation	SNP	ENST00000533140.1	37	CCDS53681.1	.	.	.	.	.	.	.	.	.	.	A	1.535	-0.543236	0.04053	.	.	ENSG00000198488	ENST00000533140;ENST00000354301	T;T	0.44083	0.93;0.93	2.89	0.53	0.17102	.	0.656353	0.15442	N	0.262162	T	0.21921	0.0528	N	0.21097	0.63	0.09310	N	0.999997	B	0.02656	0.0	B	0.09377	0.004	T	0.24368	-1.0162	10	0.11794	T	0.64	.	6.0489	0.19775	0.753:0.0:0.247:0.0	.	301	Q6ZMB0	B3GN6_HUMAN	R	301	ENSP00000435352:H301R;ENSP00000346256:H301R	ENSP00000346256:H301R	H	+	2	0	B3GNT6	76429145	0.000000	0.05858	0.007000	0.13788	0.109000	0.19521	-0.871000	0.04223	0.080000	0.16959	0.374000	0.22700	CAC		0.756	B3GNT6-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000382740.2	NM_138706		G	76751497	A	G	76751497	3	3	700	1	0	0	0	0	1	0	0	0	1261	159	6	3	904	3	B3GNT6	11	76751497	Missense_Mutation	SNP	A	TCGA-P4-A5ED-01A-11D-A28G-10	11871436	76751497	58255019	27	45985										
GRAMD1B	57476	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	123476178	123476178	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	ccacagggagcagtgaggccCccgtctcggtatgggcagtc	15	13	1	1			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr11:123476178C>T	ENST00000529750.1	+	9	1213	c.886C>T	c.(886-888)Ccc>Tcc	p.P296S	GRAMD1B_ENST00000450171.2_5'Flank|GRAMD1B_ENST00000322282.7_Missense_Mutation_p.P296S|GRAMD1B_ENST00000456860.2_Missense_Mutation_p.P303S	NM_020716.1	NP_065767.1	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	296						integral component of membrane (GO:0016021)|membrane (GO:0016020)				NS(1)|breast(1)|endometrium(1)|large_intestine(5)|lung(17)|ovary(2)|prostate(1)|upper_aerodigestive_tract(2)	30		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)		CAGTGAGGCCCCCGTCTCGGT	0.557																																																0													142	149	147					11																	123476178		2083	4200	6283	SO:0001583	missense	57476			AB033027	CCDS53720.1, CCDS66253.1, CCDS66254.1	11q24.1	2005-11-02				ENSG00000023171			29214	protein-coding gene	gene with protein product						10574462	Standard	NM_001286564		Approved	KIAA1201	uc001pyx.2	Q3KR37		ENST00000529750.1:c.886C>T	11.37:g.123476178C>T	ENSP00000436500:p.Pro296Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UW85|Q9ULL9	Missense_Mutation	SNP	ENST00000529750.1	37	CCDS53720.1	.	.	.	.	.	.	.	.	.	.	C	19.90	3.911935	0.72983	.	.	ENSG00000023171	ENST00000539133;ENST00000456860;ENST00000322282;ENST00000529750;ENST00000529432;ENST00000534764	T;T;T;T;T	0.30714	1.92;1.93;1.93;1.92;1.52	5.03	4.11	0.48088	.	0.000000	0.85682	D	0.000000	T	0.31009	0.0783	L	0.34521	1.04	0.58432	D	0.999998	P;P;D;B	0.57899	0.913;0.734;0.981;0.027	B;B;P;B	0.52109	0.424;0.356;0.69;0.065	T	0.02431	-1.1160	10	0.13470	T	0.59	.	13.3208	0.60432	0.0:0.9228:0.0:0.0772	.	256;303;296;303	B7Z4N9;F5H572;Q3KR37;E7EPH8	.;.;GRM1B_HUMAN;.	S	303;303;296;296;256;292	ENSP00000402457:P303S;ENSP00000325628:P296S;ENSP00000436500:P296S;ENSP00000432987:P256S;ENSP00000434214:P292S	ENSP00000325628:P296S	P	+	1	0	GRAMD1B	122981388	0.994000	0.37717	0.842000	0.33263	0.898000	0.52572	3.919000	0.56439	1.112000	0.41740	0.305000	0.20034	CCC		0.557	GRAMD1B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000387404.2	XM_370660		T	123476178	C	T	123476178	3	4	700	1	0	0	0	0	1	0	0	0	6755	623	22	2	920	2	GRAMD1B	11	123476178	Missense_Mutation	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10	46724681	123476178	11530338	28	45986										
CLEC2D	29121	broad.mit.edu;bcgsc.ca	37	chr12	9840539	9840539	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	aagagccatcagtatgtcttCaagctgcatgcccagaaagc	9	11	3	2			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr12:9840539C>G	ENST00000290855.6	+	3	236	c.214C>G	c.(214-216)Caa>Gaa	p.Q72E	CLEC2D_ENST00000543300.1_Missense_Mutation_p.Q72E|CLEC2D_ENST00000261340.7_Missense_Mutation_p.Q72E|CLEC2D_ENST00000261339.6_Missense_Mutation_p.Q35E|CLEC2D_ENST00000545918.1_Missense_Mutation_p.Q35E	NM_013269.5	NP_037401.1	Q9UHP7	CLC2D_HUMAN	C-type lectin domain family 2, member D	72					cell surface receptor signaling pathway (GO:0007166)	cell surface (GO:0009986)|endoplasmic reticulum (GO:0005783)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)	carbohydrate binding (GO:0030246)|transmembrane signaling receptor activity (GO:0004888)			endometrium(2)|kidney(1)|large_intestine(1)|lung(2)|prostate(2)|stomach(1)	9						AGTATGTCTTCAAGCTGCATG	0.323																																																0													85	84	84					12																	9840539		2203	4300	6503	SO:0001583	missense	29121			AF133299	CCDS8602.1, CCDS31741.1, CCDS55800.1, CCDS55801.1, CCDS55802.1	12p13.31	2011-05-24	2005-09-29		ENSG00000069493	ENSG00000069493		"C-type lectin domain containing"	14351	protein-coding gene	gene with protein product	"C-type lectin related f", "lectin-like transcript 1"	605659	"C-type lectin superfamily 2, member D"				Standard	NM_013269		Approved	LLT1, CLAX, OCIL	uc001qwf.3	Q9UHP7	OTTHUMG00000168369	ENST00000290855.6:c.214C>G	12.37:g.9840539C>G	ENSP00000290855:p.Gln72Glu	Somatic		WXS	Illumina HiSeq	Phase_I	D6CI39|D6CI40|D6CI41|Q6YID5|Q8WUP7|Q9HD37|Q9HD38	Missense_Mutation	SNP	ENST00000290855.6	37	CCDS8602.1	.	.	.	.	.	.	.	.	.	.	C	0.008	-1.928952	0.00493	.	.	ENSG00000069493	ENST00000479410;ENST00000261340;ENST00000290855;ENST00000545918;ENST00000543300;ENST00000261339;ENST00000466035;ENST00000430909;ENST00000544322;ENST00000460309	T;T;T;T;T;T;T;T;T;T	0.16897	2.31;2.31;2.31;2.31;2.31;4.61;4.47;4.49;2.31;4.39	3.49	-3.81	0.04294	C-type lectin-like (1);	5.044330	0.01431	N	0.014751	T	0.03959	0.0111	N	0.00707	-1.245	0.09310	N	1	B;B;B	0.13145	0.004;0.007;0.004	B;B;B	0.13407	0.004;0.009;0.003	T	0.22591	-1.0212	9	.	.	.	-1.5275	1.3511	0.02173	0.3326:0.3404:0.1947:0.1323	.	72;72;72	Q9UHP7-5;Q9UHP7;Q9UHP7-3	.;CLC2D_HUMAN;.	E	30;72;72;35;72;35;29;51;46;15	ENSP00000442252:Q30E;ENSP00000261340:Q72E;ENSP00000290855:Q72E;ENSP00000444818:Q35E;ENSP00000443065:Q72E;ENSP00000261339:Q35E;ENSP00000446028:Q29E;ENSP00000413045:Q51E;ENSP00000437861:Q46E;ENSP00000443177:Q15E	.	Q	+	1	0	CLEC2D	9731806	0.000000	0.05858	0.000000	0.03702	0.021000	0.10359	-0.558000	0.05978	-0.753000	0.04721	-0.450000	0.05554	CAA		0.323	CLEC2D-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000335424.2	NM_013269		G	9840539	C	G	9840539	3	3	700	1	0	0	0	0	1	0	0	0	3510	827	29	4	224	4	CLEC2D	12	9840539	Missense_Mutation	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10		9840539	124011356	29	45987										
B4GALNT1	2583	broad.mit.edu	37	chr12	58021430	58021430	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	ccacgcggctgaggcgggggTcgaaaccgacctcgcgcacc	15	16	0	1			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr12:58021430T>G	ENST00000341156.4	-	10	1939	c.1355A>C	c.(1354-1356)gAc>gCc	p.D452A	B4GALNT1_ENST00000418555.2_Missense_Mutation_p.D397A	NM_001478.3	NP_001469.1	Q00973	B4GN1_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 1	452					carbohydrate metabolic process (GO:0005975)|cell death (GO:0008219)|ganglioside biosynthetic process (GO:0001574)|glycosphingolipid metabolic process (GO:0006687)|lipid glycosylation (GO:0030259)|lipid storage (GO:0019915)|protein glycosylation (GO:0006486)|spermatogenesis (GO:0007283)	integral component of Golgi membrane (GO:0030173)|membrane (GO:0016020)|plasma membrane (GO:0005886)	(N-acetylneuraminyl)-galactosylglucosylceramide N-acetylgalactosaminyltransferase activity (GO:0003947)			breast(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(4)|lung(6)|prostate(1)|stomach(1)|urinary_tract(1)	20	Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)			GAGGCGGGGGTCGAAACCGAC	0.697																																																0													17	20	19					12																	58021430		2182	4277	6459	SO:0001583	missense	2583			M83651	CCDS8950.1, CCDS61170.1, CCDS61171.1	12q13.3	2013-09-11	2006-01-08	2006-01-08	ENSG00000135454	ENSG00000135454	2.4.1.92	"Beta 4-glycosyltransferases", "Glycosyltransferase family 2 domain containing"	4117	protein-coding gene	gene with protein product	"GD2 synthase, GM2 synthase"	601873	"UDP-N-acetyl-alpha-D-galactosamine:(N-acetylneuraminyl)-galactosylglucosylceramide N-acetylgalactosaminyltransferase (GalNAc-T)", "UDP-Gal:betaGlcNAc beta-1,4-N-acetylgalactosaminyltransferase transferase 1", "spastic paraplegia 26"	GALGT, SPG26		1601877, 23746551	Standard	NM_001478		Approved	beta1-4GalNAc-T	uc001spg.2	Q00973	OTTHUMG00000170190	ENST00000341156.4:c.1355A>C	12.37:g.58021430T>G	ENSP00000341562:p.Asp452Ala	Somatic		WXS	Illumina HiSeq	Phase_I	B4DE26|Q8N636	Silent	SNP	ENST00000341156.4	37	CCDS8950.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	25.8|25.8	4.671033|4.671033	0.88348|0.88348	.|.	.|.	ENSG00000135454|ENSG00000135454	ENST00000341156;ENST00000418555|ENST00000547741	T;T|.	0.27104|.	1.69;1.69|.	4.5|4.5	4.5|4.5	0.54988|0.54988	.|.	0.117831|.	0.64402|.	D|.	0.000009|.	T|T	0.75824|0.75824	0.3902|0.3902	M|M	0.83223|0.83223	2.63|2.63	0.80722|0.80722	D|D	1|1	D;D|.	0.89917|.	0.997;1.0|.	P;D|.	0.71870|.	0.888;0.975|.	T|T	0.78555|0.78555	-0.2159|-0.2159	10|5	0.87932|.	D|.	0|.	-12.617|-12.617	12.9089|12.9089	0.58169|0.58169	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	397;452|.	B4DE26;Q00973|.	.;B4GN1_HUMAN|.	A|P	452;397|135	ENSP00000341562:D452A;ENSP00000401601:D397A|.	ENSP00000341562:D452A|.	D|T	-|-	2|1	0|0	B4GALNT1|B4GALNT1	56307697|56307697	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.819000|0.819000	0.46315|0.46315	7.338000|7.338000	0.79269|0.79269	1.902000|1.902000	0.55061|0.55061	0.379000|0.379000	0.24179|0.24179	GAC|ACC		0.697	B4GALNT1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407853.1	NM_001478		G	58021430	T	G	58021430	3	3	700	1	0	0	0	0	1	0	0	0	1266	1667	58	5	254	5	B4GALNT1	12	58021430	Missense_Mutation	SNP	T	TCGA-P4-A5ED-01A-11D-A28G-10	48180891	58021430	75830465	30	45988										
CUX2	23316	broad.mit.edu	37	chr12	111757856	111757856	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	gccccgctgagcatcgccaaCggcacgacccccgccagcac	10	21	0	1			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr12:111757856C>T	ENST00000261726.6	+	17	2197	c.2043C>T	c.(2041-2043)aaC>aaT	p.N681N		NM_015267.3	NP_056082.2	O14529	CUX2_HUMAN	cut-like homeobox 2	681					cellular response to organic substance (GO:0071310)|cognition (GO:0050890)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of dendrite morphogenesis (GO:0050775)|positive regulation of dendritic spine morphogenesis (GO:0061003)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of gene expression (GO:0010628)|positive regulation of synapse assembly (GO:0051965)|short-term memory (GO:0007614)|transcription, DNA-templated (GO:0006351)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|sequence-specific DNA binding (GO:0043565)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(2)|large_intestine(9)|lung(24)|ovary(5)|prostate(4)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	55						GCATCGCCAACGGCACGACCC	0.711																																																0													3	4	4					12																	111757856		1882	3888	5770	SO:0001819	synonymous_variant	23316			AB006631	CCDS41837.1	12q24.12	2011-06-20	2007-11-07	2007-11-07	ENSG00000111249	ENSG00000111249		"Homeoboxes / CUT class"	19347	protein-coding gene	gene with protein product		610648	"cut-like 2 (Drosophila)"	CUTL2			Standard	NM_015267		Approved	KIAA0293, CDP2	uc001tsa.2	O14529	OTTHUMG00000169546	ENST00000261726.6:c.2043C>T	12.37:g.111757856C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A7E2Y4	Silent	SNP	ENST00000261726.6	37	CCDS41837.1																																																																																				0.711	CUX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404765.1	NM_015267		T	111757856	C	T	111757856	2	4	700	1	0	0	0	0	0	0	0	1	4067	535	19	1		1	CUX2	12	111757856	Silent	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10	53736426	111757856	22094039	31	45989										
BRAP	8315	hgsc.bcm.edu;broad.mit.edu	37	chr12	112096635	112096635	+	Nonsense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	tgttttacttgcaaccagtcGatgaacatagttatctacag	7	8	1	1			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr12:112096635G>A	ENST00000327551.6	-	9	1176	c.1036C>T	c.(1036-1038)Cga>Tga	p.R346*	BRAP_ENST00000539060.1_Nonsense_Mutation_p.R197*|BRAP_ENST00000419234.4_Nonsense_Mutation_p.R376*			Q6UWU4	CF089_HUMAN	BRCA1 associated protein	0					epithelial cell proliferation (GO:0050673)|positive regulation of cell cycle (GO:0045787)|wound healing (GO:0042060)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				cervix(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(5)|prostate(2)|skin(1)|stomach(1)|urinary_tract(1)	20						GCAACCAGTCGATGAACATAG	0.353																																					Pancreas(146;846 1904 7830 25130 26065)											0													129	119	122					12																	112096635		2203	4300	6503	SO:0001587	stop_gained	8315			AF035620	CCDS9154.1	12q24.12	2014-09-11			ENSG00000089234	ENSG00000089234		"RING-type (C3HC4) zinc fingers"	1099	protein-coding gene	gene with protein product	"impedes mitogenic signal propagation", "galectin-2-binding protein"	604986				9497340, 19198608	Standard	XM_005253944		Approved	BRAP2, RNF52, IMP	uc001tsn.4	Q7Z569	OTTHUMG00000169600	ENST00000327551.6:c.1036C>T	12.37:g.112096635G>A	ENSP00000330813:p.Arg346*	Somatic		WXS	Illumina HiSeq	Phase_I	B4DTT1|F4NAR0|F4NAR1|Q6ZMG5|Q7Z356|Q8IZ35	Nonsense_Mutation	SNP	ENST00000327551.6	37		.	.	.	.	.	.	.	.	.	.	G	36	5.951877	0.97139	.	.	ENSG00000089234	ENST00000419234;ENST00000539060;ENST00000327551;ENST00000547043	.	.	.	5.52	5.52	0.82312	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	-7.1227	19.4174	0.94706	0.0:0.0:1.0:0.0	.	.	.	.	X	376;197;346;158	.	ENSP00000330813:R346X	R	-	1	2	BRAP	110581018	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	9.147000	0.94646	2.606000	0.88127	0.650000	0.86243	CGA		0.353	BRAP-002	PUTATIVE	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000404994.2			A	112096635	G	A	112096635	4	1	700	1	0	0	0	0	0	1	0	0	1499	1066	37	1	668	1	BRAP	12	112096635	Nonsense_Mutation	SNP	G	TCGA-P4-A5ED-01A-11D-A28G-10	338779	112096635	21755260	32	45990										
MED13L	23389	ucsc.edu	37	chr12	116428913	116428913	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	gggttatccacatactgccgCccctgctccaacgcattaaa	7	15	0	0			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr12:116428913C>T	ENST00000281928.3	-	17	4052	c.3846G>A	c.(3844-3846)ggG>ggA	p.G1282G		NM_015335.4	NP_056150.1	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	1282						mediator complex (GO:0016592)	RNA polymerase II transcription cofactor activity (GO:0001104)			NS(2)|breast(1)|endometrium(9)|kidney(3)|large_intestine(18)|lung(34)|ovary(4)|prostate(4)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	85	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		CATACTGCCGCCCCTGCTCCA	0.512																																																0													115	110	112					12																	116428913		2203	4300	6503	SO:0001819	synonymous_variant	23389			AB028948	CCDS9177.1	12q24.22	2010-07-29	2007-07-30	2007-07-30	ENSG00000123066	ENSG00000123066			22962	protein-coding gene	gene with protein product		608771	"thyroid hormone receptor associated protein 2"	THRAP2			Standard	NM_015335		Approved	KIAA1025, TRAP240L	uc001tvw.3	Q71F56	OTTHUMG00000169404	ENST00000281928.3:c.3846G>A	12.37:g.116428913C>T		Somatic		WXS	Illumina HiSeq		A1L469|Q68DN4|Q9H8C0|Q9NSY9|Q9UFD8|Q9UPX5	Silent	SNP	ENST00000281928.3	37	CCDS9177.1																																																																																				0.512	MED13L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000403879.3			T	116428913	C	T	116428913	2	4	700	1	0	0	0	0	0	0	0	1	9438	726	26	2		2	MED13L	12	116428913	Silent	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10	4332278	116428913	17422982	33	45991										
SEL1L	6400	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	81969202	81969202	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	tttggtatggttcatgcttgCtgccttttggagataccgat	11	7	1	1			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr14:81969202C>T	ENST00000336735.4	-	6	756	c.640G>A	c.(640-642)Gca>Aca	p.A214T	SEL1L_ENST00000555824.1_Missense_Mutation_p.A214T	NM_005065.5	NP_005056.3	Q9UBV2	SE1L1_HUMAN	sel-1 suppressor of lin-12-like (C. elegans)	214	Interaction with ERLEC1, OS9 and SYVN1.				Notch signaling pathway (GO:0007219)|response to endoplasmic reticulum stress (GO:0034976)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)				breast(2)|central_nervous_system(1)|endometrium(4)|large_intestine(7)|lung(7)|ovary(1)|pancreas(1)|prostate(2)|urinary_tract(3)	28				BRCA - Breast invasive adenocarcinoma(234;0.0299)		TTCATGCTTGCTGCCTTTTGG	0.363																																																0													146	139	142					14																	81969202		2203	4300	6503	SO:0001583	missense	6400				CCDS9876.1, CCDS58333.1	14q31	2011-03-31	2001-11-28		ENSG00000071537	ENSG00000071537			10717	protein-coding gene	gene with protein product	"sel-1 suppressor of lin-12-like 1 (C. elegans)"	602329	"sel-1 (suppressor of lin-12, C.elegans)-like"			9417916, 10051412, 16331677	Standard	NM_005065		Approved	IBD2, SEL1L1	uc010tvv.2	Q9UBV2		ENST00000336735.4:c.640G>A	14.37:g.81969202C>T	ENSP00000337053:p.Ala214Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UWT6|Q9P1T9|Q9UHK7	Missense_Mutation	SNP	ENST00000336735.4	37	CCDS9876.1	.	.	.	.	.	.	.	.	.	.	C	21.7	4.191863	0.78902	.	.	ENSG00000071537	ENST00000336735;ENST00000555824	T;T	0.58940	0.35;0.3	5.45	5.45	0.79879	Tetratricopeptide-like helical (1);	0.104952	0.64402	D	0.000004	T	0.71937	0.3399	M	0.66939	2.045	0.80722	D	1	D;D	0.67145	0.985;0.996	D;D	0.64042	0.92;0.921	T	0.74450	-0.3661	10	0.87932	D	0	.	14.4932	0.67665	0.1468:0.8532:0.0:0.0	.	214;214	Q9UBV2;Q9UBV2-2	SE1L1_HUMAN;.	T	214	ENSP00000337053:A214T;ENSP00000450709:A214T	ENSP00000337053:A214T	A	-	1	0	SEL1L	81038955	1.000000	0.71417	0.999000	0.59377	0.746000	0.42486	4.282000	0.58971	2.719000	0.93026	0.655000	0.94253	GCA		0.363	SEL1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413325.1	NM_005065		T	81969202	C	T	81969202	3	4	700	1	0	0	0	0	1	0	0	0	14023	797	28	2	1808	2	SEL1L	14	81969202	Missense_Mutation	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10		81969202	25380338	34	45992										
IGDCC3	9543	broad.mit.edu	37	chr15	65628245	65628245	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	cactggaagcgggccacaccAccctcctcacccacggtggc	10	19	1	0			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr15:65628245A>G	ENST00000327987.4	-	3	710	c.459T>C	c.(457-459)ggT>ggC	p.G153G	IGDCC3_ENST00000559231.1_5'Flank	NM_004884.3	NP_004875.2	Q8IVU1	IGDC3_HUMAN	immunoglobulin superfamily, DCC subclass, member 3	153	Ig-like C2-type 2.				neuromuscular process controlling balance (GO:0050885)	integral component of plasma membrane (GO:0005887)				breast(1)|endometrium(3)|kidney(3)|large_intestine(7)|lung(9)|ovary(4)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	30						GGGCCACACCACCCTCCTCAC	0.582																																																0													117	102	107					15																	65628245		2201	4299	6500	SO:0001819	synonymous_variant	9543			AF063936	CCDS10205.1	15q22.3-q23	2013-02-11	2009-01-08	2009-01-08	ENSG00000174498	ENSG00000174498		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	9700	protein-coding gene	gene with protein product		604184	"putative neuronal cell adhesion molecule"	PUNC		9922388	Standard	NM_004884		Approved	HsT18880	uc002aos.2	Q8IVU1	OTTHUMG00000133137	ENST00000327987.4:c.459T>C	15.37:g.65628245A>G		Somatic		WXS	Illumina HiSeq	Phase_I	O95215	Silent	SNP	ENST00000327987.4	37	CCDS10205.1																																																																																				0.582	IGDCC3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256826.1	NM_004884		G	65628245	A	G	65628245	2	3	700	1	0	0	0	0	0	0	0	1	7575	146	6	3		3	IGDCC3	15	65628245	Silent	SNP	A	TCGA-P4-A5ED-01A-11D-A28G-10		65628245	36903147	35	45993										
ACAN	176	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	89398215	89398215	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	attcccctcagaggagccatCcccctcagaggaaccattcc	7	17	2	2			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr15:89398215C>T	ENST00000561243.1	+	11	2399	c.2399C>T	c.(2398-2400)tCc>tTc	p.S800F	ACAN_ENST00000439576.2_Missense_Mutation_p.S800F|ACAN_ENST00000352105.7_Missense_Mutation_p.S800F|ACAN_ENST00000559004.1_Missense_Mutation_p.S800F			P16112	PGCA_HUMAN	aggrecan	799	12 X 6 AA approximate tandem repeats of E-[GVE]-P-[SFY]-[APT]-[TSP].|KS.				carbohydrate metabolic process (GO:0005975)|cell adhesion (GO:0007155)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|glycosaminoglycan metabolic process (GO:0030203)|keratan sulfate biosynthetic process (GO:0018146)|keratan sulfate catabolic process (GO:0042340)|keratan sulfate metabolic process (GO:0042339)|proteolysis (GO:0006508)|skeletal system development (GO:0001501)|small molecule metabolic process (GO:0044281)	extracellular region (GO:0005576)|Golgi lumen (GO:0005796)|lysosomal lumen (GO:0043202)|proteinaceous extracellular matrix (GO:0005578)	carbohydrate binding (GO:0030246)|extracellular matrix structural constituent (GO:0005201)|hyaluronic acid binding (GO:0005540)|metal ion binding (GO:0046872)			NS(1)|central_nervous_system(4)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(15)|liver(2)|lung(40)|ovary(2)|prostate(5)|skin(5)|stomach(8)|upper_aerodigestive_tract(1)|urinary_tract(2)	93	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			GAGGAGCCATCCCCCTCAGAG	0.597																																																0													31	35	34					15																	89398215		1944	4139	6083	SO:0001583	missense	176			M55172	CCDS53970.1, CCDS53971.1	15q26.1	2013-05-07	2007-02-16	2007-02-16	ENSG00000157766	ENSG00000157766		"Immunoglobulin superfamily / V-set domain containing", "Proteoglycans / Extracellular Matrix : Hyalectans"	319	protein-coding gene	gene with protein product	"aggrecan proteoglycan"	155760	"chondroitin sulfate proteoglycan 1", "aggrecan 1"	MSK16, CSPG1, AGC1		1985970	Standard	NM_013227		Approved	CSPGCP	uc010upo.1	P16112	OTTHUMG00000171989	ENST00000561243.1:c.2399C>T	15.37:g.89398215C>T	ENSP00000453342:p.Ser800Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q13650|Q9UCD3|Q9UCP4|Q9UCP5|Q9UDE0	Missense_Mutation	SNP	ENST00000561243.1	37	CCDS53970.1	.	.	.	.	.	.	.	.	.	.	C	4.981	0.182251	0.09495	.	.	ENSG00000157766	ENST00000439576;ENST00000352105;ENST00000268134	T;T	0.02258	4.6;4.37	3.46	0.239	0.15484	.	.	.	.	.	T	0.01124	0.0037	N	0.04880	-0.145	0.09310	N	1	B;B	0.09022	0.002;0.002	B;B	0.06405	0.002;0.002	T	0.49380	-0.8946	9	0.18710	T	0.47	.	4.3783	0.11281	0.0:0.3872:0.1663:0.4465	.	800;800	E7ENV9;E7EX88	.;.	F	800	ENSP00000387356:S800F;ENSP00000341615:S800F	ENSP00000268134:S800F	S	+	2	0	ACAN	87199219	0.000000	0.05858	0.000000	0.03702	0.195000	0.23768	-0.135000	0.10420	-0.205000	0.10219	0.411000	0.27672	TCC		0.597	ACAN-006	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000416267.2	NM_001135		T	89398215	C	T	89398215	3	4	700	1	0	0	0	0	1	0	0	0	117	855	30	2	2441	2	ACAN	15	89398215	Missense_Mutation	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10	23769970	89398215	13133177	36	45994										
HS3ST4	9951	broad.mit.edu;bcgsc.ca	37	chr16	26147018	26147018	+	Frame_Shift_Del	DEL	A	A	-													0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	caaatgaggctcccaagcgcAttcactccatggccaaggac							TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr16:26147018delA	ENST00000331351.5	+	2	1212	c.820delA	c.(820-822)attfs	p.I274fs	HS3ST4_ENST00000475436.1_3'UTR	NM_006040.2	NP_006031.2	Q9Y661	HS3S4_HUMAN	heparan sulfate (glucosamine) 3-O-sulfotransferase 4	274					heparan sulfate proteoglycan metabolic process (GO:0030201)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity (GO:0008467)			breast(2)|endometrium(3)|large_intestine(1)|lung(9)	15				GBM - Glioblastoma multiforme(48;0.0988)		TCCCAAGCGCATTCACTCCAT	0.498																																																0													122	111	115					16																	26147018		1568	3582	5150	SO:0001589	frameshift_variant	9951			AF105378	CCDS53995.1	16p11.2	2008-03-12			ENSG00000182601	ENSG00000182601	2.8.2.23	"Sulfotransferases, membrane-bound"	5200	protein-coding gene	gene with protein product		604059				9988767	Standard	NM_006040		Approved	3OST4	uc002dof.3	Q9Y661	OTTHUMG00000059978	ENST00000331351.5:c.820delA	16.37:g.26147018delA	ENSP00000330606:p.Ile274fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5QI42|Q8NDC2	Frame_Shift_Del	DEL	ENST00000331351.5	37	CCDS53995.1																																																																																				0.498	HS3ST4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000133286.2	NM_006040		-	26147018	A	-	26147018	7	5	700	1	0	1	0	1	0	0	0	0	7374	217	8	0	826	0	HS3ST4	16	26147018	Frame_Shift_Del	DEL	A	TCGA-P4-A5ED-01A-11D-A28G-10		26147018	64207735	37	45995	503	2								
HS3ST4	9951	broad.mit.edu;bcgsc.ca	37	chr16	26147021	26147023	+	In_Frame_Del	DEL	CAC	CAC	-													0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	atgaggctcccaagcgcattCactccatggccaaggacatc							TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	CAC	CAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr16:26147021_26147023delCAC	ENST00000331351.5	+	2	1215_1217	c.823_825delCAC	c.(823-825)cacdel	p.H275del	HS3ST4_ENST00000475436.1_3'UTR	NM_006040.2	NP_006031.2	Q9Y661	HS3S4_HUMAN	heparan sulfate (glucosamine) 3-O-sulfotransferase 4	275					heparan sulfate proteoglycan metabolic process (GO:0030201)	Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity (GO:0008467)			breast(2)|endometrium(3)|large_intestine(1)|lung(9)	15				GBM - Glioblastoma multiforme(48;0.0988)		CAAGCGCATTCACTCCATGGCCA	0.498																																																0																																										SO:0001651	inframe_deletion	9951			AF105378	CCDS53995.1	16p11.2	2008-03-12			ENSG00000182601	ENSG00000182601	2.8.2.23	"Sulfotransferases, membrane-bound"	5200	protein-coding gene	gene with protein product		604059				9988767	Standard	NM_006040		Approved	3OST4	uc002dof.3	Q9Y661	OTTHUMG00000059978	ENST00000331351.5:c.823_825delCAC	16.37:g.26147021_26147023delCAC	ENSP00000330606:p.His275del	Somatic		WXS	Illumina HiSeq	Phase_I	Q5QI42|Q8NDC2	In_Frame_Del	DEL	ENST00000331351.5	37	CCDS53995.1																																																																																				0.498	HS3ST4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000133286.2	NM_006040		-	26147023	CAC	-	26147021	7	5	700	1	0	1	0	1	0	0	0	0	7374	826	29	0	829	0	HS3ST4	16	26147021	In_Frame_Del	DEL	CAC	TCGA-P4-A5ED-01A-11D-A28G-10	3	26147021	64207732	38	45996	503	2								
MYBBP1A	10514	broad.mit.edu	37	chr17	4445773	4445773	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	tctcacctgatgacggggccGcaccgggcccgtgatatgct	13	14	1	3	rs369018364		TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr17:4445773G>A	ENST00000254718.4	-	22	3379	c.3073C>T	c.(3073-3075)Cgg>Tgg	p.R1025W	MYBBP1A_ENST00000381556.2_Missense_Mutation_p.R1025W			Q9BQG0	MBB1A_HUMAN	MYB binding protein (P160) 1a	1025					cellular response to glucose starvation (GO:0042149)|intrinsic apoptotic signaling pathway by p53 class mediator (GO:0072332)|negative regulation of transcription, DNA-templated (GO:0045892)|nucleocytoplasmic transport (GO:0006913)|osteoblast differentiation (GO:0001649)|positive regulation of cell cycle arrest (GO:0071158)|regulation of transcription, DNA-templated (GO:0006355)|respiratory electron transport chain (GO:0022904)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|membrane (GO:0016020)|NLS-dependent protein nuclear import complex (GO:0042564)|nucleolus (GO:0005730)|nucleus (GO:0005634)	DNA-directed DNA polymerase activity (GO:0003887)|poly(A) RNA binding (GO:0044822)|sequence-specific DNA binding (GO:0043565)|transcription factor binding (GO:0008134)			breast(1)|endometrium(1)|kidney(1)|large_intestine(6)|lung(7)|ovary(3)|prostate(2)|skin(2)|stomach(1)	24						TGACGGGGCCGCACCGGGCCC	0.617																																																0								G	TRP/ARG,TRP/ARG	1,4405	2.1+/-5.4	0,1,2202	70	79	76		3073,3073	3.2	0.5	17		76	0,8600		0,0,4300	no	missense,missense	MYBBP1A	NM_001105538.1,NM_014520.3	101,101	0,1,6502	AA,AG,GG		0.0,0.0227,0.0077	probably-damaging,probably-damaging	1025/1333,1025/1329	4445773	1,13005	2203	4300	6503	SO:0001583	missense	10514			AF147709	CCDS11046.1, CCDS42238.1	17p13.3	2008-07-18			ENSG00000132382	ENSG00000132382			7546	protein-coding gene	gene with protein product	"p53-activated protein-2"	604885				10644447	Standard	NM_014520		Approved	P160, PAP2, FLJ37886	uc002fxz.4	Q9BQG0	OTTHUMG00000090747	ENST00000254718.4:c.3073C>T	17.37:g.4445773G>A	ENSP00000254718:p.Arg1025Trp	Somatic		WXS	Illumina HiSeq	Phase_I	Q86VM3|Q9BW49|Q9P0V5|Q9UF99	Missense_Mutation	SNP	ENST00000254718.4	37	CCDS11046.1	.	.	.	.	.	.	.	.	.	.	G	13.20	2.165834	0.38217	2.27E-4	0.0	ENSG00000132382	ENST00000381556;ENST00000254718	T;T	0.68331	-0.32;-0.32	5.3	3.25	0.37280	Armadillo-type fold (1);	0.054052	0.64402	D	0.000001	T	0.77579	0.4151	M	0.67953	2.075	0.38604	D	0.950742	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	T	0.77832	-0.2441	10	0.49607	T	0.09	-39.9853	10.7458	0.46179	0.0:0.0:0.6537:0.3463	.	1025;1025	Q9BQG0;Q9BQG0-2	MBB1A_HUMAN;.	W	1025	ENSP00000370968:R1025W;ENSP00000254718:R1025W	ENSP00000254718:R1025W	R	-	1	2	MYBBP1A	4392522	0.575000	0.26692	0.542000	0.28115	0.003000	0.03518	1.047000	0.30367	0.578000	0.29487	0.561000	0.74099	CGG		0.617	MYBBP1A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000207488.2	NM_014520		A	4445773	G	A	4445773	3	1	700	1	0	0	0	0	1	0	0	0	10015	1086	38	1	973	1	MYBBP1A	17	4445773	Missense_Mutation	SNP	G	TCGA-P4-A5ED-01A-11D-A28G-10		4445773	76749437	39	45997										
SUPT6H	6830	ucsc.edu	37	chr17	27002024	27002024	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	tcaaaaaaatgtcagatgacGaggacgatgacgaggaggaa	13	5	2	3			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr17:27002024G>C	ENST00000314616.6	+	5	665	c.382G>C	c.(382-384)Gag>Cag	p.E128Q	SUPT6H_ENST00000347486.4_Missense_Mutation_p.E128Q|AC010761.13_ENST00000578819.1_RNA	NM_003170.3	NP_003161.2	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog (S. cerevisiae)	128	Asp/Glu-rich.|Interaction with IWS1. {ECO:0000250}.|Interaction with PAAF1.				chromatin remodeling (GO:0006338)|mRNA processing (GO:0006397)|mRNA transport (GO:0051028)|negative regulation of histone H3-K27 methylation (GO:0061086)|positive regulation of transcription elongation from RNA polymerase II promoter (GO:0032968)|regulation of isotype switching (GO:0045191)|regulation of mRNA export from nucleus (GO:0010793)|regulation of mRNA processing (GO:0050684)|regulation of muscle cell differentiation (GO:0051147)|regulation of transcription, DNA-templated (GO:0006355)|RNA splicing (GO:0008380)|transcription, DNA-templated (GO:0006351)|viral process (GO:0016032)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone binding (GO:0042393)|hydrolase activity, acting on ester bonds (GO:0016788)|poly(A) RNA binding (GO:0044822)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(4)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(9)|kidney(2)|large_intestine(15)|lung(21)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	64	Lung NSC(42;0.00431)					GTCAGATGACGAGGACGATGA	0.498																																																0													84	78	80					17																	27002024		2203	4300	6503	SO:0001583	missense	6830			U38658	CCDS32596.1	17q11.2	2013-02-14	2001-11-28			ENSG00000109111		"SH2 domain containing"	11470	protein-coding gene	gene with protein product		601333	"suppressor of Ty (S.cerevisiae) 6 homolog"			8786132	Standard	XM_005258026		Approved	KIAA0162, SPT6H	uc002hby.3	Q7KZ85		ENST00000314616.6:c.382G>C	17.37:g.27002024G>C	ENSP00000319104:p.Glu128Gln	Somatic		WXS	Illumina HiSeq		A7E2B4|Q15737|Q6GMQ4|Q7KYW9|Q7LDK4|Q8N526|Q92775|Q96AH3|Q9BTH9|Q9BTI2	Missense_Mutation	SNP	ENST00000314616.6	37	CCDS32596.1	.	.	.	.	.	.	.	.	.	.	G	16.57	3.160827	0.57368	.	.	ENSG00000109111	ENST00000314616;ENST00000347486	.	.	.	5.41	5.41	0.78517	.	0.098602	0.64402	D	0.000002	T	0.57446	0.2054	M	0.63843	1.955	0.53688	D	0.999971	P	0.49090	0.919	B	0.39503	0.301	T	0.63260	-0.6677	9	0.48119	T	0.1	-16.8028	19.558	0.95361	0.0:0.0:1.0:0.0	.	128	Q7KZ85	SPT6H_HUMAN	Q	128	.	ENSP00000319104:E128Q	E	+	1	0	SUPT6H	24026151	1.000000	0.71417	0.994000	0.49952	0.573000	0.36030	8.702000	0.91338	2.697000	0.92050	0.655000	0.94253	GAG		0.498	SUPT6H-001	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000446422.2	NM_003170		C	27002024	G	C	27002024	3	2	700	1	0	0	0	0	1	0	0	0	15412	1059	37	4	396	4	SUPT6H	17	27002024	Missense_Mutation	SNP	G	TCGA-P4-A5ED-01A-11D-A28G-10	22556251	27002024	54193186	40	45998										
KIF19	124602	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	72340927	72340927	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	agctgctgatgaaggggaacCggcagaggacccaggagccc	16	11	0	3	rs146234533		TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr17:72340927C>A	ENST00000389916.4	+	7	748	c.610C>A	c.(610-612)Cgg>Agg	p.R204R		NM_153209.3	NP_694941.2	Q2TAC6	KIF19_HUMAN	kinesin family member 19	204	Kinesin motor. {ECO:0000255|PROSITE- ProRule:PRU00283}.				ATP catabolic process (GO:0006200)|axonemal microtubule depolymerization (GO:0060404)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)|plus-end specific microtubule depolymerization (GO:0070462)	cilium (GO:0005929)|cytoplasm (GO:0005737)|kinesin complex (GO:0005871)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|plus-end-directed microtubule motor activity (GO:0008574)			autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(6)|large_intestine(3)|lung(16)|ovary(1)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	41						GAAGGGGAACCGGCAGAGGAC	0.672																																																0													34	38	37					17																	72340927		2199	4294	6493	SO:0001819	synonymous_variant	124602			AK094619	CCDS32718.2	17q25	2007-02-13			ENSG00000196169	ENSG00000196169		"Kinesins"	26735	protein-coding gene	gene with protein product						11416179	Standard	NM_153209		Approved	FLJ37300, KIF19A	uc031rei.1	Q2TAC6	OTTHUMG00000150694	ENST00000389916.4:c.610C>A	17.37:g.72340927C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NLG2|B7ZKR1|Q52M87|Q8N1X8|Q8TAB6	Silent	SNP	ENST00000389916.4	37	CCDS32718.2																																																																																				0.672	KIF19-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000319644.2	NM_153209		A	72340927	C	A	72340927	2	1	700	1	0	0	0	0	0	0	0	1	8289	643	23	4		4	KIF19	17	72340927	Silent	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10	45338903	72340927	8854283	41	45999										
BTBD2	55643	broad.mit.edu	37	chr19	1986958	1986958	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	ttctggcccaagacggtgttGctatcggtgtgaataatctg	12	8	2	2			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr19:1986958G>A	ENST00000255608.4	-	8	1303	c.1287C>T	c.(1285-1287)agC>agT	p.S429S	AC005306.3_ENST00000587498.1_RNA|AC005306.3_ENST00000588480.1_RNA	NM_017797.3	NP_060267.2	Q9BX70	BTBD2_HUMAN	BTB (POZ) domain containing 2	429						cytoplasmic mRNA processing body (GO:0000932)				endometrium(5)|kidney(1)|large_intestine(1)|lung(2)|ovary(1)|skin(1)|stomach(1)	12		Ovarian(11;2.11e-07)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGACGGTGTTGCTATCGGTGT	0.662																																																0													73	83	80					19																	1986958		2203	4300	6503	SO:0001819	synonymous_variant	55643			AF355797	CCDS12078.1	19p13.3	2013-10-02			ENSG00000133243	ENSG00000133243		"BTB/POZ domain containing"	15504	protein-coding gene	gene with protein product		608531				11179693	Standard	XM_005259593		Approved		uc002lup.1	Q9BX70	OTTHUMG00000180017	ENST00000255608.4:c.1287C>T	19.37:g.1986958G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60418|O75248|Q4VBZ1|Q6IAC5|Q7Z5W0|Q96SX8|Q9NPS1|Q9NX81	Silent	SNP	ENST00000255608.4	37	CCDS12078.1																																																																																				0.662	BTBD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449300.2			A	1986958	G	A	1986958	2	1	700	1	0	0	0	0	0	0	0	1	1545	1310	46	2		2	BTBD2	19	1986958	Silent	SNP	G	TCGA-P4-A5ED-01A-11D-A28G-10		1986958	57142025	42	46000										
LSM14A	26065	broad.mit.edu	37	chr19	34710315	34710315	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	gctccaggtgctccttcagcTccaaggagagggcgtggggg	17	11	1	1	rs201741862		TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr19:34710315T>G	ENST00000433627.5	+	7	876	c.801T>G	c.(799-801)gcT>gcG	p.A267A	LSM14A_ENST00000544216.3_Silent_p.A267A|LSM14A_ENST00000540746.2_Silent_p.A226A	NM_001114093.1	NP_001107565.1	Q8ND56	LS14A_HUMAN	LSM14A, SCD6 homolog A (S. cerevisiae)	267					cytoplasmic mRNA processing body assembly (GO:0033962)|multicellular organismal development (GO:0007275)|positive regulation of type I interferon-mediated signaling pathway (GO:0060340)|regulation of translation (GO:0006417)|RIG-I signaling pathway (GO:0039529)	cytoplasm (GO:0005737)|cytoplasmic mRNA processing body (GO:0000932)|cytoplasmic stress granule (GO:0010494)|intracellular membrane-bounded organelle (GO:0043231)	double-stranded DNA binding (GO:0003690)|double-stranded RNA binding (GO:0003725)|poly(A) RNA binding (GO:0044822)|single-stranded RNA binding (GO:0003727)	p.A267A(2)		breast(1)|endometrium(4)|kidney(1)|large_intestine(8)|lung(7)|skin(1)	22	Esophageal squamous(110;0.162)					CTCCTTCAGCTCCAAGGAGAG	0.438																																																2	Substitution - coding silent(2)	endometrium(1)|kidney(1)											64	74	71					19																	34710315		2203	4300	6503	SO:0001819	synonymous_variant	26065			AL834398	CCDS12435.1, CCDS46040.1	19q13.12	2010-01-27	2006-12-21	2006-01-24		ENSG00000257103			24489	protein-coding gene	gene with protein product		610677	"chromosome 19 open reading frame 13", "family with sequence similarity 61, member A", "LSM14 homolog A (SCD6, S. cerevisiae)"	C19orf13, FAM61A		12477932	Standard	NM_015578		Approved	DKFZP434D1335, RAP55A, RAP55	uc002nva.4	Q8ND56		ENST00000433627.5:c.801T>G	19.37:g.34710315T>G		Somatic		WXS	Illumina HiSeq	Phase_I	B4DTG6|Q76LX7|Q96AR3|Q96K73|Q96SN5|Q9UFR3	Silent	SNP	ENST00000433627.5	37	CCDS46040.1																																																																																				0.438	LSM14A-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000451576.3	NM_015578		G	34710315	T	G	34710315	2	3	700	1	0	0	0	0	0	0	0	1	9061	1538	54	5		5	LSM14A	19	34710315	Silent	SNP	T	TCGA-P4-A5ED-01A-11D-A28G-10	32723357	34710315	24418668	43	46001										
RYR1	6261	broad.mit.edu	37	chr19	38995663	38995663	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	tgtgatcatcccggagaagcTggactccttcattaacaagt	9	10	2	2			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr19:38995663T>C	ENST00000359596.3	+	52	8252	c.8252T>C	c.(8251-8253)cTg>cCg	p.L2751P	RYR1_ENST00000355481.4_Missense_Mutation_p.L2751P|RYR1_ENST00000360985.3_Missense_Mutation_p.L2751P			P21817	RYR1_HUMAN	ryanodine receptor 1 (skeletal)	2751	6 X approximate repeats.				calcium ion transport (GO:0006816)|cellular response to caffeine (GO:0071313)|cytosolic calcium ion homeostasis (GO:0051480)|ion transmembrane transport (GO:0034220)|muscle contraction (GO:0006936)|ossification involved in bone maturation (GO:0043931)|outflow tract morphogenesis (GO:0003151)|release of sequestered calcium ion into cytosol (GO:0051209)|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum (GO:0014808)|response to caffeine (GO:0031000)|response to hypoxia (GO:0001666)|skeletal muscle fiber development (GO:0048741)|skin development (GO:0043588)|transmembrane transport (GO:0055085)	cell cortex (GO:0005938)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|I band (GO:0031674)|integral component of plasma membrane (GO:0005887)|junctional membrane complex (GO:0030314)|junctional sarcoplasmic reticulum membrane (GO:0014701)|plasma membrane (GO:0005886)|sarcoplasmic reticulum (GO:0016529)|sarcoplasmic reticulum membrane (GO:0033017)|smooth endoplasmic reticulum (GO:0005790)|T-tubule (GO:0030315)|terminal cisterna (GO:0014802)	calcium channel activity (GO:0005262)|calcium ion binding (GO:0005509)|calcium-release channel activity (GO:0015278)|calmodulin binding (GO:0005516)|ryanodine-sensitive calcium-release channel activity (GO:0005219)|voltage-gated calcium channel activity (GO:0005245)			NS(4)|autonomic_ganglia(2)|breast(3)|central_nervous_system(5)|endometrium(26)|haematopoietic_and_lymphoid_tissue(3)|kidney(34)|large_intestine(42)|liver(1)|lung(106)|ovary(11)|pancreas(5)|prostate(9)|skin(12)|stomach(11)|upper_aerodigestive_tract(4)|urinary_tract(7)	285	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Caffeine(DB00201)|Dantrolene(DB01219)|Suramin(DB04786)	CCGGAGAAGCTGGACTCCTTC	0.562																																																0													87	83	85					19																	38995663		2203	4300	6503	SO:0001583	missense	6261			J05200	CCDS33011.1, CCDS42563.1	19q13.1	2014-09-17				ENSG00000196218		"Ion channels / Ryanodine receptors"	10483	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 137"	180901	"central core disease of muscle"	MHS, MHS1, CCO		1862346, 16621918	Standard	NM_000540		Approved	RYR, PPP1R137	uc002oit.3	P21817		ENST00000359596.3:c.8252T>C	19.37:g.38995663T>C	ENSP00000352608:p.Leu2751Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q16314|Q16368|Q9NPK1|Q9P1U4	Missense_Mutation	SNP	ENST00000359596.3	37	CCDS33011.1	.	.	.	.	.	.	.	.	.	.	T	16.85	3.236978	0.58886	.	.	ENSG00000196218	ENST00000359596;ENST00000355481;ENST00000360985	D;D;D	0.93247	-3.19;-3.19;-3.19	4.38	4.38	0.52667	Ryanodine receptor Ryr (1);	0.000000	0.52532	U	0.000075	D	0.96956	0.9006	M	0.90542	3.125	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.97601	1.0123	10	0.87932	D	0	.	12.8832	0.58028	0.0:0.0:0.0:1.0	.	2751;2751	P21817-2;P21817	.;RYR1_HUMAN	P	2751	ENSP00000352608:L2751P;ENSP00000347667:L2751P;ENSP00000354254:L2751P	ENSP00000347667:L2751P	L	+	2	0	RYR1	43687503	1.000000	0.71417	0.993000	0.49108	0.996000	0.88848	7.890000	0.87313	1.744000	0.51775	0.402000	0.26972	CTG		0.562	RYR1-010	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000462137.1			C	38995663	T	C	38995663	3	2	700	1	0	0	0	0	1	0	0	0	13781	1580	55	3	8458	3	RYR1	19	38995663	Missense_Mutation	SNP	T	TCGA-P4-A5ED-01A-11D-A28G-10	4285348	38995663	20133320	44	46002										
ZNF628	89887	hgsc.bcm.edu	37	chr19	55993264	55993264	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	cgcccccgccccgggtaccgCctccgcggccccgccccccc	10	28	0	0			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr19:55993264C>T	ENST00000598519.1	+	3	1257	c.704C>T	c.(703-705)gCc>gTc	p.A235V	ZNF628_ENST00000391718.2_Missense_Mutation_p.A231V			Q5EBL2	ZN628_HUMAN	zinc finger protein 628	235	Pro-rich.				transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			endometrium(4)|kidney(1)|lung(2)	7	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0531)		ccgggtaccgcctccgcggcc	0.766																																																0													3	4	3					19																	55993264		1658	3351	5009	SO:0001583	missense	89887			AF367249	CCDS33116.3	19q13.43	2013-01-08			ENSG00000197483	ENSG00000197483		"Zinc fingers, C2H2-type"	28054	protein-coding gene	gene with protein product	"Zinc finger expressed in Embryonal cells and Certain adult organs"	610671					Standard	NM_033113		Approved	ZEC, Zfp628	uc002qld.3	Q5EBL2	OTTHUMG00000150396	ENST00000598519.1:c.704C>T	19.37:g.55993264C>T	ENSP00000469591:p.Ala235Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q86X34	Missense_Mutation	SNP	ENST00000598519.1	37	CCDS33116.3	.	.	.	.	.	.	.	.	.	.	.	7.048	0.563911	0.13498	.	.	ENSG00000197483	ENST00000391718	T	0.08807	3.05	3.0	1.93	0.25924	.	.	.	.	.	T	0.06325	0.0163	N	0.19112	0.55	0.09310	N	1	B	0.19445	0.036	B	0.24701	0.055	T	0.35919	-0.9769	9	0.54805	T	0.06	-3.6893	8.11	0.30909	0.0:0.7504:0.2496:0.0	.	231	Q5EBL2	ZN628_HUMAN	V	231	ENSP00000375598:A231V	ENSP00000375598:A231V	A	+	2	0	ZNF628	60685076	0.734000	0.28142	0.009000	0.14445	0.152000	0.21847	0.878000	0.28126	0.836000	0.34901	0.459000	0.35465	GCC		0.766	ZNF628-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000317934.2	XM_058964		T	55993264	C	T	55993264	3	4	700	1	0	0	0	0	1	0	0	0	18064	739	26	2	694	2	ZNF628	19	55993264	Missense_Mutation	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10	16997601	55993264	3135719	45	46003										
SLCO4A1	28231	broad.mit.edu	37	chr20	61288357	61288357	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	gctgcttatgggcacggggtCgctggtgttcgcgctgcccc	16	13	0	0	rs559448067		TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr20:61288357C>T	ENST00000370507.1	+	1	647	c.551C>T	c.(550-552)tCg>tTg	p.S184L	SLCO4A1_ENST00000217159.1_Missense_Mutation_p.S184L			Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family, member 4A1	184					sodium-independent organic anion transport (GO:0043252)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	transporter activity (GO:0005215)			endometrium(6)|kidney(2)|large_intestine(1)|lung(7)|ovary(3)|prostate(2)	21	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)		Benzylpenicillin(DB01053)|Conjugated Estrogens(DB00286)|Dextrothyroxine(DB00509)|Digoxin(DB00390)|Dinoprostone(DB00917)|Estradiol(DB00783)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Liotrix(DB01583)	GGCACGGGGTCGCTGGTGTTC	0.692													C|||	1	0.000199681	0.0	0.0	5008	,	,		16738	0.0		0.001	False		,,,				2504	0.0				Pancreas(168;741 2006 10379 40139 45334)											0													44	40	41					20																	61288357		2202	4298	6500	SO:0001583	missense	28231			AB031051	CCDS13501.1	20q13.1	2013-05-22	2003-11-25	2003-11-26	ENSG00000101187	ENSG00000101187		"Solute carriers"	10953	protein-coding gene	gene with protein product		612436	"solute carrier family 21 (organic anion transporter), member 12"	SLC21A12		10873595	Standard	NM_016354		Approved	OATP-E, OATP4A1	uc002ydb.1	Q96BD0	OTTHUMG00000032923	ENST00000370507.1:c.551C>T	20.37:g.61288357C>T	ENSP00000359538:p.Ser184Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9H4T7|Q9H4T8|Q9H8P2|Q9NWX8|Q9UI35|Q9UIG7	Missense_Mutation	SNP	ENST00000370507.1	37	CCDS13501.1	.	.	.	.	.	.	.	.	.	.	C	19.03	3.748817	0.69533	.	.	ENSG00000101187	ENST00000217159;ENST00000370512;ENST00000370507;ENST00000342674	T;T	0.44881	0.91;0.91	4.58	4.58	0.56647	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.000000	0.85682	D	0.000000	T	0.67373	0.2886	M	0.89840	3.065	0.80722	D	1	D	0.56968	0.978	P	0.58077	0.832	T	0.77062	-0.2727	10	0.66056	D	0.02	.	17.3394	0.87291	0.0:1.0:0.0:0.0	.	184	Q96BD0	SO4A1_HUMAN	L	184	ENSP00000217159:S184L;ENSP00000359538:S184L	ENSP00000217159:S184L	S	+	2	0	SLCO4A1	60758802	1.000000	0.71417	0.689000	0.30133	0.027000	0.11550	5.827000	0.69300	2.085000	0.62840	0.462000	0.41574	TCG		0.692	SLCO4A1-006	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080048.2	NM_016354		T	61288357	C	T	61288357	3	4	700	1	0	0	0	0	1	0	0	0	14742	893	31	1	553	1	SLCO4A1	20	61288357	Missense_Mutation	SNP	C	TCGA-P4-A5ED-01A-11D-A28G-10		61288357	1737163	46	46004										
TOP3B	8940	broad.mit.edu	37	chr22	22318552	22318552	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	ccgtgtcggcccagtaggggTggttggcctgctgccgcaga	17	12	0	1			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chr22:22318552T>G	ENST00000398793.2	-	10	1513	c.1079A>C	c.(1078-1080)cAc>cCc	p.H360P	TOP3B_ENST00000413067.2_Missense_Mutation_p.H89P|TOP3B_ENST00000357179.5_Missense_Mutation_p.H360P	NM_003935.3	NP_003926.1	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	360					chromosome segregation (GO:0007059)|DNA topological change (GO:0006265)	condensed chromosome (GO:0000793)|nucleus (GO:0005634)	DNA binding (GO:0003677)|DNA topoisomerase activity (GO:0003916)|DNA topoisomerase type I activity (GO:0003917)|poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(4)|lung(9)|ovary(1)	26	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		CCAGTAGGGGTGGTTGGCCTG	0.622																																																0													107	91	96					22																	22318552		2203	4300	6503	SO:0001583	missense	8940			AF017146	CCDS13797.1	22q11.22	2011-05-24			ENSG00000100038	ENSG00000100038			11993	protein-coding gene	gene with protein product		603582				9786842, 9074928	Standard	XM_005261811		Approved		uc002zvs.3	O95985	OTTHUMG00000167438	ENST00000398793.2:c.1079A>C	22.37:g.22318552T>G	ENSP00000381773:p.His360Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A0M8Q3|Q9BUP5	Missense_Mutation	SNP	ENST00000398793.2	37	CCDS13797.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	17.23|17.23	3.336332|3.336332	0.60963|0.60963	.|.	.|.	ENSG00000100038|ENSG00000100038	ENST00000357179;ENST00000398793;ENST00000413067|ENST00000457270	T;T;T|.	0.21932|.	1.98;1.98;1.98|.	5.05|5.05	5.05|5.05	0.67936|0.67936	DNA topoisomerase, type IA, core domain (1);DNA topoisomerase, type IA, central region, subdomain 3 (1);DNA topoisomerase, type IA, central (1);DNA topoisomerase, type IA, DNA-binding (1);|.	0.134123|.	0.64402|.	D|.	0.000003|.	T|T	0.79387|0.79387	0.4437|0.4437	M|M	0.86864|0.86864	2.845|2.845	0.41223|0.41223	D|D	0.986527|0.986527	P;P|.	0.38565|.	0.637;0.584|.	B;B|.	0.40101|.	0.319;0.213|.	T|T	0.83056|0.83056	-0.0150|-0.0150	10|5	0.52906|.	T|.	0.07|.	.|.	14.9623|14.9623	0.71166|0.71166	0.0:0.0:0.0:1.0|0.0:0.0:0.0:1.0	.|.	360;360|.	O95985;O95985-2|.	TOP3B_HUMAN;.|.	P|P	360;360;89|155	ENSP00000349705:H360P;ENSP00000381773:H360P;ENSP00000393118:H89P|.	ENSP00000349705:H360P|.	H|T	-|-	2|1	0|0	TOP3B|TOP3B	20648552|20648552	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.922000|0.922000	0.55478|0.55478	2.975000|2.975000	0.49281|0.49281	2.122000|2.122000	0.65172|0.65172	0.459000|0.459000	0.35465|0.35465	CAC|ACC		0.622	TOP3B-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000320251.1	NM_003935		G	22318552	T	G	22318552	3	3	700	1	0	0	0	0	1	0	0	0	16380	1696	59	5	1545	5	TOP3B	22	22318552	Missense_Mutation	SNP	T	TCGA-P4-A5ED-01A-11D-A28G-10		22318552	28986014	47	46005										
RNF128	79589	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	106034465	106034465	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0425531914893617	2	1	1.02	4.488	0	0.4	1	0	ggaacacgtgcagtcaacaaGtaagcatcatactaaaggtt	9	8	2	0			TCGA-P4-A5ED-01A-11D-A28G-10	TCGA-P4-A5ED-11A-11D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	79d11c73-74ff-468d-b0e9-b8ddc72de15a	1bc9f60c-2dc6-4bfe-9965-6014f49dc9ac	g.chrX:106034465G>A	ENST00000255499.2	+	6	1403		c.e6+1		RNF128_ENST00000324342.3_Splice_Site	NM_194463.1	NP_919445.1	Q8TEB7	RN128_HUMAN	ring finger protein 128, E3 ubiquitin protein ligase						negative regulation of cytokine biosynthetic process (GO:0042036)	cytoskeleton (GO:0005856)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|late endosome (GO:0005770)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			central_nervous_system(1)|endometrium(2)|large_intestine(1)|lung(6)|ovary(1)	11						CAGTCAACAAGTAAGCATCAT	0.453																																																0													172	148	156					X																	106034465		2203	4300	6503	SO:0001630	splice_region_variant	79589			AK027169	CCDS14520.1, CCDS14521.1	Xq22.3	2013-01-09	2012-02-23		ENSG00000133135	ENSG00000133135		"RING-type (C3HC4) zinc fingers"	21153	protein-coding gene	gene with protein product		300439	"ring finger protein 128"				Standard	NM_024539		Approved	FLJ23516, GRAIL	uc004eml.3	Q8TEB7	OTTHUMG00000022151	ENST00000255499.2:c.1153+1G>A	X.37:g.106034465G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A0PJI4|Q6PH80|Q6ZTJ8|Q96RF3|Q9H5E4	Splice_Site	SNP	ENST00000255499.2	37	CCDS14521.1	.	.	.	.	.	.	.	.	.	.	G	19.20	3.781964	0.70222	.	.	ENSG00000133135	ENST00000324342;ENST00000255499	.	.	.	5.26	5.26	0.73747	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.497	0.67694	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	RNF128	105921121	1.000000	0.71417	1.000000	0.80357	0.893000	0.52053	6.181000	0.71988	2.165000	0.68154	0.506000	0.49869	.		0.453	RNF128-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057804.1	NM_024539	Intron	A	106034465	G	A	106034465	5	1	700	1	0	0	0	0	0	0	1	0	13449	1043	36	2	1586	2	RNF128	23	106034465	Splice_Site	SNP	G	TCGA-P4-A5ED-01A-11D-A28G-10		106034465	49236095	48	46006										
SKI	6497	hgsc.bcm.edu	37	chr1	2238153	2238153	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	caggaacagctgtggccgcgGgcccgccccgaggctgcggg	18	15	0	0			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr1:2238153G>A	ENST00000378536.4	+	7	2208	c.2136G>A	c.(2134-2136)cgG>cgA	p.R712R		NM_003036.3	NP_003027.1	P12755	SKI_HUMAN	SKI proto-oncogene	712					anterior/posterior axis specification (GO:0009948)|BMP signaling pathway (GO:0030509)|bone morphogenesis (GO:0060349)|camera-type eye development (GO:0043010)|camera-type eye morphogenesis (GO:0048593)|cell motility (GO:0048870)|cell proliferation (GO:0008283)|embryonic limb morphogenesis (GO:0030326)|face morphogenesis (GO:0060325)|gene expression (GO:0010467)|lens morphogenesis in camera-type eye (GO:0002089)|myelination in peripheral nervous system (GO:0022011)|myotube differentiation (GO:0014902)|negative regulation of activin receptor signaling pathway (GO:0032926)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of cell proliferation (GO:0008285)|negative regulation of fibroblast proliferation (GO:0048147)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of Schwann cell proliferation (GO:0010626)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transforming growth factor beta receptor signaling pathway (GO:0030512)|neural tube closure (GO:0001843)|nose morphogenesis (GO:0043585)|olfactory bulb development (GO:0021772)|palate development (GO:0060021)|positive regulation of DNA binding (GO:0043388)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of Wnt signaling pathway (GO:0030177)|protein homotrimerization (GO:0070207)|regulation of apoptotic process (GO:0042981)|retina development in camera-type eye (GO:0060041)|skeletal muscle fiber development (GO:0048741)|SMAD protein signal transduction (GO:0060395)|somatic stem cell maintenance (GO:0035019)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)|transforming growth factor beta receptor signaling pathway (GO:0007179)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)|protein complex (GO:0043234)|transcription factor complex (GO:0005667)|transcriptional repressor complex (GO:0017053)	chromatin binding (GO:0003682)|histone deacetylase inhibitor activity (GO:0046811)|protein domain specific binding (GO:0019904)|protein kinase binding (GO:0019901)|repressing transcription factor binding (GO:0070491)|SMAD binding (GO:0046332)|transcription corepressor activity (GO:0003714)|ubiquitin protein ligase binding (GO:0031625)|zinc ion binding (GO:0008270)			central_nervous_system(1)|kidney(2)|lung(5)|prostate(1)|stomach(1)	10	all_cancers(77;0.000139)|all_epithelial(69;4.45e-05)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)			Epithelial(90;2.14e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.72e-29)|GBM - Glioblastoma multiforme(42;2.45e-08)|Colorectal(212;5.33e-05)|COAD - Colon adenocarcinoma(227;0.000228)|Kidney(185;0.00268)|BRCA - Breast invasive adenocarcinoma(365;0.00471)|STAD - Stomach adenocarcinoma(132;0.0147)|KIRC - Kidney renal clear cell carcinoma(229;0.0385)|Lung(427;0.207)		TGTGGCCGCGGGCCCGCCCCG	0.761																																					Ovarian(177;144 1678 13697 20086 27838 40755)											0													5	6	6					1																	2238153		1501	2825	4326	SO:0001819	synonymous_variant	6497			X15218	CCDS39.1	1p36.33	2014-06-25	2014-06-25		ENSG00000157933	ENSG00000157933		"SKI transcriptional corepressors"	10896	protein-coding gene	gene with protein product		164780	"v-ski avian sarcoma viral oncogene homolog"			2762147	Standard	NM_003036		Approved		uc001aja.4	P12755	OTTHUMG00000001407	ENST00000378536.4:c.2136G>A	1.37:g.2238153G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5SYT7	Silent	SNP	ENST00000378536.4	37	CCDS39.1																																																																																				0.761	SKI-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004070.1	NM_003036		A	2238153	G	A	2238153	2	1	701	1	0	0	0	0	0	0	0	1	14370	1219	43	2		2	SKI	1	2238153	Silent	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10		2238153	247012468	1	46007										
ARID1A	8289	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	27101241	27101241	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	taatgacatgacctataattAtgccaacaggcagagcacgg	9	9	0	3			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr1:27101241A>G	ENST00000324856.7	+	18	4894	c.4523A>G	c.(4522-4524)tAt>tGt	p.Y1508C	ARID1A_ENST00000540690.1_Intron|ARID1A_ENST00000374152.2_Missense_Mutation_p.Y1125C|ARID1A_ENST00000457599.2_Intron	NM_006015.4	NP_006006.3	O14497	ARI1A_HUMAN	AT rich interactive domain 1A (SWI-like)	1508					androgen receptor signaling pathway (GO:0030521)|ATP-dependent chromatin remodeling (GO:0043044)|cardiac chamber development (GO:0003205)|chromatin remodeling (GO:0006338)|chromatin-mediated maintenance of transcription (GO:0048096)|forebrain development (GO:0030900)|glucocorticoid receptor signaling pathway (GO:0042921)|intracellular estrogen receptor signaling pathway (GO:0030520)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|neural tube closure (GO:0001843)|nucleosome disassembly (GO:0006337)|nucleosome mobilization (GO:0042766)|optic cup formation involved in camera-type eye development (GO:0003408)|placenta blood vessel development (GO:0060674)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|transcription, DNA-templated (GO:0006351)	nBAF complex (GO:0071565)|npBAF complex (GO:0071564)|nuclear chromatin (GO:0000790)|nucleus (GO:0005634)|SWI/SNF complex (GO:0016514)	DNA binding (GO:0003677)|ligand-dependent nuclear receptor binding (GO:0016922)|transcription coactivator activity (GO:0003713)		ARID1A/MAST2_ENST00000361297(2)	NS(1)|autonomic_ganglia(1)|biliary_tract(1)|breast(13)|central_nervous_system(6)|cervix(2)|endometrium(56)|haematopoietic_and_lymphoid_tissue(8)|kidney(10)|large_intestine(41)|liver(31)|lung(34)|ovary(130)|pancreas(18)|prostate(8)|skin(9)|stomach(14)|upper_aerodigestive_tract(4)|urinary_tract(24)	411		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)		ACCTATAATTATGCCAACAGG	0.572			"Mis, N, F, S, D"		"clear cell ovarian carcinoma, RCC"																																		Rec	yes		1	1p35.3	8289	AT rich interactive domain 1A (SWI-like)		E	0													68	72	71					1																	27101241		2203	4300	6503	SO:0001583	missense	8289			AB001895	CCDS285.1, CCDS44091.1	1p36.1-p35	2014-09-17	2006-11-08	2004-01-30	ENSG00000117713	ENSG00000117713		"-"	11110	protein-coding gene	gene with protein product		603024	"SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily f, member 1", "AT rich interactive domain 1A (SWI- like)"	C1orf4, SMARCF1		9630625, 9434167	Standard	NM_139135		Approved	B120, P270, C10rf4, BAF250, BAF250a	uc001bmv.1	O14497	OTTHUMG00000004004	ENST00000324856.7:c.4523A>G	1.37:g.27101241A>G	ENSP00000320485:p.Tyr1508Cys	Somatic		WXS	Illumina HiSeq	Phase_I	D3DPL1|Q53FK9|Q5T0W1|Q5T0W2|Q5T0W3|Q8NFD6|Q96T89|Q9BY33|Q9HBJ5|Q9UPZ1	Missense_Mutation	SNP	ENST00000324856.7	37	CCDS285.1	.	.	.	.	.	.	.	.	.	.	A	18.56	3.650090	0.67472	.	.	ENSG00000117713	ENST00000324856;ENST00000374152	T;T	0.05996	3.53;3.36	5.54	5.54	0.83059	.	0.000000	0.85682	D	0.000000	T	0.22666	0.0547	M	0.61703	1.905	0.80722	D	1	D;D;D	0.89917	1.0;0.999;1.0	D;D;D	0.83275	0.991;0.99;0.996	T	0.00175	-1.1954	10	0.44086	T	0.13	-5.0146	15.8453	0.78883	1.0:0.0:0.0:0.0	.	1125;1508;1161	O14497-3;O14497;Q4LE49	.;ARI1A_HUMAN;.	C	1508;1125	ENSP00000320485:Y1508C;ENSP00000363267:Y1125C	ENSP00000320485:Y1508C	Y	+	2	0	ARID1A	26973828	1.000000	0.71417	0.999000	0.59377	0.998000	0.95712	6.707000	0.74654	2.330000	0.79161	0.528000	0.53228	TAT		0.572	ARID1A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000011437.2	NM_139135		G	27101241	A	G	27101241	3	3	701	1	0	0	0	0	1	0	0	0	913	449	16	3	4593	3	ARID1A	1	27101241	Missense_Mutation	SNP	A	TCGA-PJ-A5Z8-01A-11D-A28G-10	24863088	27101241	222149380	2	46008										
DLGAP3	58512	hgsc.bcm.edu	37	chr1	35331687	35331687	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tgggcgggccggaccggtcaCagcctggtctgggcctcggg	19	13	2	0			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr1:35331687C>T	ENST00000373347.1	-	12	3205	c.2937G>A	c.(2935-2937)ctG>ctA	p.L979L	DLGAP3_ENST00000235180.4_Silent_p.L979L			O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated protein 3	979					cell-cell signaling (GO:0007267)	cell junction (GO:0030054)|postsynaptic membrane (GO:0045211)	beta-amyloid binding (GO:0001540)			central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(6)|lung(23)|ovary(4)|prostate(3)|skin(3)|urinary_tract(1)	46		Myeloproliferative disorder(586;0.0393)				ggaccggtcacagcctggtct	0.731																																																0													11	13	12					1																	35331687		2181	4267	6448	SO:0001819	synonymous_variant	58512			AF131778	CCDS30670.1	1p35.3-p34.1	2008-02-05			ENSG00000116544	ENSG00000116544			30368	protein-coding gene	gene with protein product		611413				8619474, 9110174	Standard	NM_001080418		Approved	SAPAP3, DAP3	uc001byc.3	O95886	OTTHUMG00000004049	ENST00000373347.1:c.2937G>A	1.37:g.35331687C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TDD5|Q9H3X7	Silent	SNP	ENST00000373347.1	37	CCDS30670.1																																																																																				0.731	DLGAP3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000011554.1	NM_021234		T	35331687	C	T	35331687	2	4	701	1	0	0	0	0	0	0	0	1	4563	465	17	2		2	DLGAP3	1	35331687	Silent	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	8230446	35331687	213918934	3	46009										
INADL	10207	broad.mit.edu	37	chr1	62271195	62271195	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	gggtcctgattatgaagtaaTggtatgttaaaatgctctaa	10	4	1	2			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr1:62271195T>A	ENST00000371158.2	+	13	1739	c.1625T>A	c.(1624-1626)aTg>aAg	p.M542K	INADL_ENST00000316485.6_Splice_Site_p.M542K	NM_176877.2	NP_795352	Q8NI35	INADL_HUMAN	InaD-like (Drosophila)	542					cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|intracellular signal transduction (GO:0035556)|tight junction assembly (GO:0070830)	apical part of cell (GO:0045177)|extracellular vesicular exosome (GO:0070062)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|tight junction (GO:0005923)				breast(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(8)|liver(1)|lung(51)|ovary(3)|pancreas(1)|prostate(7)|skin(5)|stomach(1)|upper_aerodigestive_tract(3)	103						TATGAAGTAATGGTATGTTAA	0.363																																																0													93	99	97					1																	62271195		2203	4300	6503	SO:0001630	splice_region_variant	10207			AB044807	CCDS617.2	1p31	2008-02-05			ENSG00000132849	ENSG00000132849			28881	protein-coding gene	gene with protein product		603199				9280290, 11374908	Standard	NM_176877		Approved	Cipp, PATJ	uc001dab.3	Q8NI35	OTTHUMG00000008560	ENST00000371158.2:c.1626+1T>A	1.37:g.62271195T>A		Somatic		WXS	Illumina HiSeq	Phase_I	O15249|O43742|O60833|Q5VUA5|Q5VUA6|Q5VUA7|Q5VUA8|Q5VUA9|Q5VUB0|Q8WU78|Q9H3N9	Missense_Mutation	SNP	ENST00000371158.2	37	CCDS617.2	.	.	.	.	.	.	.	.	.	.	T	19.31	3.802160	0.70682	.	.	ENSG00000132849	ENST00000371158;ENST00000316485;ENST00000371156;ENST00000395513;ENST00000255202	T;T	0.13657	2.69;2.57	5.69	5.69	0.88448	PDZ/DHR/GLGF (1);	0.057835	0.64402	D	0.000002	T	0.36744	0.0978	M	0.74881	2.28	0.80722	D	1	D;D;D	0.89917	1.0;0.998;0.998	D;D;D	0.85130	0.997;0.99;0.968	T	0.06516	-1.0822	10	0.30854	T	0.27	.	14.5128	0.67800	0.0:0.0:0.0:1.0	.	542;542;542	F8W8T2;Q8NI35;Q8NI35-4	.;INADL_HUMAN;.	K	542	ENSP00000360200:M542K;ENSP00000326199:M542K	ENSP00000255202:M542K	M	+	2	0	INADL	62043783	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.172000	0.65003	2.174000	0.68829	0.528000	0.53228	ATG		0.363	INADL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000023639.2	NM_170605	Missense_Mutation	A	62271195	T	A	62271195	5	1	701	1	0	0	0	0	0	0	1	0	7738	1478	51	5	1671	5	INADL	1	62271195	Splice_Site	SNP	T	TCGA-PJ-A5Z8-01A-11D-A28G-10	26939508	62271195	186979426	4	46010										
ANKRD35	148741	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	145567075	145567075	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tcatctccacctacaggaatCatctactgaatgctgctcgg	7	13	4	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr1:145567075C>T	ENST00000355594.4	+	12	3010	c.2923C>T	c.(2923-2925)Cat>Tat	p.H975Y		NM_144698.3	NP_653299.4	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	975										NS(1)|biliary_tract(1)|central_nervous_system(1)|endometrium(7)|kidney(2)|large_intestine(9)|lung(16)|ovary(4)|prostate(3)|skin(2)|urinary_tract(1)	47	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CTACAGGAATCATCTACTGAA	0.473																																					Melanoma(9;127 754 22988 51047)											0													168	155	160					1																	145567075		2203	4300	6503	SO:0001583	missense	148741			AK091120	CCDS72867.1, CCDS72868.1	1q21.1	2013-01-10			ENSG00000198483	ENSG00000198483		"Ankyrin repeat domain containing"	26323	protein-coding gene	gene with protein product							Standard	NM_144698		Approved	FLJ25124	uc001eob.1	Q8N283	OTTHUMG00000013743	ENST00000355594.4:c.2923C>T	1.37:g.145567075C>T	ENSP00000347802:p.His975Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A6NEU0|B4DL62|Q3MJ10|Q96LS3	Missense_Mutation	SNP	ENST00000355594.4	37	CCDS919.1	.	.	.	.	.	.	.	.	.	.	C	15.26	2.780583	0.49891	.	.	ENSG00000198483	ENST00000453670;ENST00000355594	T	0.58652	0.32	5.12	5.12	0.69794	.	0.000000	0.47852	D	0.000209	T	0.69878	0.3160	M	0.74881	2.28	0.80722	D	1	D	0.71674	0.998	D	0.78314	0.991	T	0.73266	-0.4037	10	0.87932	D	0	-3.866	13.9259	0.63961	0.0:1.0:0.0:0.0	.	975	Q8N283	ANR35_HUMAN	Y	884;975	ENSP00000347802:H975Y	ENSP00000347802:H975Y	H	+	1	0	ANKRD35	144278432	0.991000	0.36638	0.888000	0.34837	0.244000	0.25665	2.767000	0.47637	2.679000	0.91253	0.655000	0.94253	CAT		0.473	ANKRD35-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000038515.1	NM_144698		T	145567075	C	T	145567075	3	4	701	1	0	0	0	0	1	0	0	0	664	826	29	2	2969	2	ANKRD35	1	145567075	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	83295880	145567075	103683546	5	46011										
PKP1	5317	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	201285751	201285751	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tgcagtacctgagctcccagGatgagaaataccaggccatt	10	11	0	2			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr1:201285751G>A	ENST00000352845.3	+	4	772	c.772G>A	c.(772-774)Gat>Aat	p.D258N	PKP1_ENST00000367324.3_Missense_Mutation_p.D258N|PKP1_ENST00000263946.3_Missense_Mutation_p.D258N|PKP1_ENST00000475988.1_3'UTR			Q13835	PKP1_HUMAN	plakophilin 1	258					apoptotic process (GO:0006915)|cell adhesion (GO:0007155)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|intermediate filament bundle assembly (GO:0045110)|multicellular organismal development (GO:0007275)|signal transduction (GO:0007165)|single organismal cell-cell adhesion (GO:0016337)	desmosome (GO:0030057)|extracellular vesicular exosome (GO:0070062)|intermediate filament (GO:0005882)|intracellular membrane-bounded organelle (GO:0043231)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	intermediate filament binding (GO:0019215)|lamin binding (GO:0005521)|signal transducer activity (GO:0004871)|structural constituent of epidermis (GO:0030280)			NS(2)|breast(1)|cervix(1)|endometrium(4)|kidney(1)|large_intestine(3)|lung(4)|ovary(5)|prostate(1)	22						GAGCTCCCAGGATGAGAAATA	0.537																																																0													83	62	69					1																	201285751		2203	4300	6503	SO:0001583	missense	5317			X79293	CCDS30966.1, CCDS30967.1	1q32	2014-06-18	2014-06-18		ENSG00000081277	ENSG00000081277		"Armadillo repeat containing"	9023	protein-coding gene	gene with protein product	"ectodermal dysplasia/skin fragility syndrome"	601975	"plakophilin 1 (ectodermal dysplasia/skin fragility syndrome)"			9272178	Standard	NM_001005337		Approved	B6P	uc001gwd.3	Q13835	OTTHUMG00000035729	ENST00000352845.3:c.772G>A	1.37:g.201285751G>A	ENSP00000295597:p.Asp258Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O00645|Q14CA0|Q15152	Missense_Mutation	SNP	ENST00000352845.3	37	CCDS30966.1	.	.	.	.	.	.	.	.	.	.	G	15.47	2.844590	0.51164	.	.	ENSG00000081277	ENST00000367324;ENST00000263946;ENST00000352845	T;T;T	0.55588	0.51;0.51;0.51	4.91	3.96	0.45880	Armadillo-like helical (1);Armadillo-type fold (1);	0.200242	0.51477	D	0.000089	T	0.45397	0.1340	L	0.49778	1.585	0.53688	D	0.99997	P;P	0.49253	0.741;0.921	B;B	0.40940	0.344;0.33	T	0.34428	-0.9829	10	0.19147	T	0.46	-15.2438	14.2686	0.66138	0.0:0.0:0.8497:0.1502	.	258;258	Q13835-2;Q13835	.;PKP1_HUMAN	N	258	ENSP00000356293:D258N;ENSP00000263946:D258N;ENSP00000295597:D258N	ENSP00000263946:D258N	D	+	1	0	PKP1	199552374	1.000000	0.71417	0.998000	0.56505	0.975000	0.68041	7.782000	0.85680	1.008000	0.39264	0.591000	0.81541	GAT		0.537	PKP1-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000086897.1	NM_000299		A	201285751	G	A	201285751	3	1	701	1	0	0	0	0	1	0	0	0	11991	1174	41	2	786	2	PKP1	1	201285751	Missense_Mutation	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	55718676	201285751	47964870	6	46012										
LEFTY1	10637	broad.mit.edu;bcgsc.ca	37	chr1	226075306	226075306	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	cggcctcggtcacgtcgaagGccttccagccgctctcgtgg	13	16	2	0			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr1:226075306G>T	ENST00000272134.5	-	3	609	c.530C>A	c.(529-531)gCc>gAc	p.A177D	RP4-559A3.7_ENST00000432920.2_Silent_p.G285G|LEFTY1_ENST00000492457.1_5'Flank	NM_020997.3	NP_066277.1	O75610	LFTY1_HUMAN	left-right determination factor 1	177					cell growth (GO:0016049)|determination of left/right symmetry (GO:0007368)|heart morphogenesis (GO:0003007)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|transforming growth factor beta receptor signaling pathway (GO:0007179)	extracellular space (GO:0005615)				cervix(1)|endometrium(1)|large_intestine(1)|lung(4)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	10	Breast(184;0.197)					CACGTCGAAGGCCTTCCAGCC	0.701																																																0													12	15	14					1																	226075306		2139	4187	6326	SO:0001583	missense	10637			AF081507	CCDS1548.1	1q42.1	2008-02-05	2004-11-17	2004-11-17	ENSG00000243709	ENSG00000243709			6552	protein-coding gene	gene with protein product		603037	"left-right determination, factor B"	LEFTB		10053005, 10886363	Standard	NM_020997		Approved	LEFTYB	uc001hpo.3	O75610	OTTHUMG00000037443	ENST00000272134.5:c.530C>A	1.37:g.226075306G>T	ENSP00000272134:p.Ala177Asp	Somatic		WXS	Illumina HiSeq	Phase_I	B2R7U0|Q53H67|Q5TE94	Missense_Mutation	SNP	ENST00000272134.5	37	CCDS1548.1	.	.	.	.	.	.	.	.	.	.	G	9.819	1.185166	0.21870	.	.	ENSG00000243709	ENST00000272134	T	0.65732	-0.17	3.9	-0.769	0.11009	Transforming growth factor-beta, N-terminal (1);	0.381216	0.31392	N	0.007739	T	0.48295	0.1492	L	0.50919	1.6	0.26170	N	0.979875	B	0.09022	0.002	B	0.14578	0.011	T	0.34800	-0.9814	10	0.52906	T	0.07	.	4.8949	0.13746	0.1491:0.3794:0.3732:0.0983	.	177	O75610	LFTY1_HUMAN	D	177	ENSP00000272134:A177D	ENSP00000272134:A177D	A	-	2	0	LEFTY1	224141929	1.000000	0.71417	0.730000	0.30809	0.571000	0.35966	0.567000	0.23608	-0.793000	0.04475	-1.786000	0.00637	GCC		0.701	LEFTY1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000091155.1	NM_020997		T	226075306	G	T	226075306	3	4	701	1	0	0	0	0	1	0	0	0	8722	1203	42	4	578	4	LEFTY1	1	226075306	Missense_Mutation	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	24789555	226075306	23175315	7	46013										
TAF5L	27097	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	229730727	229730727	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ccagtatctgatggacatgtCttcagaacaagagagcaacc	9	10	3	3			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr1:229730727C>T	ENST00000366676.1	-	4	1086	c.1087G>A	c.(1087-1089)Gac>Aac	p.D363N	TAF5L_ENST00000258281.2_Missense_Mutation_p.D363N			O75529	TAF5L_HUMAN	TAF5-like RNA polymerase II, p300/CBP-associated factor (PCAF)-associated factor, 65kDa	363					chromatin organization (GO:0006325)|histone H3 acetylation (GO:0043966)|transcription from RNA polymerase II promoter (GO:0006366)	STAGA complex (GO:0030914)|transcription factor TFTC complex (GO:0033276)	sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)			breast(2)|central_nervous_system(1)|endometrium(1)|kidney(2)|lung(4)|ovary(1)	11	Breast(184;0.193)|Ovarian(103;0.249)	Prostate(94;0.167)				ATGGACATGTCTTCAGAACAA	0.527																																																0													121	102	108					1																	229730727		2203	4300	6503	SO:0001583	missense	27097			AF069736	CCDS1581.1, CCDS31051.1	1q42.11-q42.3	2013-01-10	2002-08-29		ENSG00000135801	ENSG00000135801		"WD repeat domain containing"	17304	protein-coding gene	gene with protein product	"PCAF associated factor 65 beta"		"TAF5-like RNA polymerase II, p300/CBP-associated factor (PCAF)-associated factor, 65 kD"			9674425, 11124703	Standard	XM_005273100		Approved	PAF65B	uc001htq.3	O75529	OTTHUMG00000039463	ENST00000366676.1:c.1087G>A	1.37:g.229730727C>T	ENSP00000355636:p.Asp363Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TDI5|Q5TDI6|Q8IW31	Missense_Mutation	SNP	ENST00000366676.1	37	CCDS1581.1	.	.	.	.	.	.	.	.	.	.	C	33	5.238803	0.95240	.	.	ENSG00000135801	ENST00000366676;ENST00000258281	D;D	0.88975	-2.45;-2.45	5.88	5.88	0.94601	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);WD40-repeat-containing domain (1);	0.000000	0.85682	D	0.000000	D	0.96027	0.8706	M	0.91920	3.255	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.96166	0.9119	10	0.87932	D	0	-34.0939	20.2422	0.98381	0.0:1.0:0.0:0.0	.	363	O75529	TAF5L_HUMAN	N	363	ENSP00000355636:D363N;ENSP00000258281:D363N	ENSP00000258281:D363N	D	-	1	0	TAF5L	227797350	1.000000	0.71417	1.000000	0.80357	0.965000	0.64279	7.811000	0.86092	2.782000	0.95742	0.655000	0.94253	GAC		0.527	TAF5L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000095229.1	NM_014409		T	229730727	C	T	229730727	3	4	701	1	0	0	0	0	1	0	0	0	15541	913	32	2	686	2	TAF5L	1	229730727	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	3655421	229730727	19519894	8	46014										
SH3BP5L	80851	hgsc.bcm.edu	37	chr1	249106348	249106348	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tcctccagccccgcaccctcGgccccctcaatcccgctgtc	6	24	1	0	rs202116012	byFrequency	TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr1:249106348G>C	ENST00000366472.5	-	7	2162	c.933C>G	c.(931-933)gcC>gcG	p.A311A	SH3BP5L_ENST00000411742.2_Silent_p.A279A|SH3BP5L_ENST00000475978.1_5'UTR	NM_030645.1	NP_085148.1	Q7L8J4	3BP5L_HUMAN	SH3-binding domain protein 5-like	311										endometrium(1)|kidney(1)|large_intestine(5)|lung(13)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	23	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			CCGCACCCTCGGCCCCCTCAA	0.746													G|||	23	0.00459265	0.0008	0.0144	5008	,	,		12601	0.0		0.0119	False		,,,				2504	0.0															0								G		17,4377		0,17,2180	13	16	15		933	-8.6	0.4	1		15	135,8433		2,131,4151	no	coding-synonymous	SH3BP5L	NM_030645.1		2,148,6331	CC,CG,GG		1.5756,0.3869,1.1727		311/394	249106348	152,12810	2197	4284	6481	SO:0001819	synonymous_variant	80851			AB051507	CCDS31126.1	1q44	2008-02-05			ENSG00000175137	ENSG00000175137			29360	protein-coding gene	gene with protein product							Standard	NM_030645		Approved	KIAA1720	uc001iew.1	Q7L8J4	OTTHUMG00000040389	ENST00000366472.5:c.933C>G	1.37:g.249106348G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B4DQ94|Q96FI5|Q9BQH8|Q9C0E3	Silent	SNP	ENST00000366472.5	37	CCDS31126.1																																																																																				0.746	SH3BP5L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000097140.1	NM_030645		C	249106348	G	C	249106348	2	2	701	1	0	0	0	0	0	0	0	1	14261	1103	39	4		4	SH3BP5L	1	249106348	Silent	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	19375621	249106348	144273	9	46015										
HEATR5B	54497	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	37286106	37286107	+	Frame_Shift_Ins	INS	-	-	A													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ttcagttagtagctcaggacINSaatgtgcaacgaagctcctc							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr2:37286106_37286107insA	ENST00000233099.5	-	13	1968_1969	c.1873_1874insT	c.(1873-1875)tgtfs	p.C625fs	HEATR5B_ENST00000354531.2_Frame_Shift_Ins_p.C625fs	NM_019024.1	NP_061897.1	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	625						extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)				breast(3)|cervix(3)|endometrium(3)|kidney(3)|large_intestine(11)|lung(31)|ovary(5)|pancreas(1)|prostate(1)|skin(10)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(3)	77		all_hematologic(82;0.21)				TAGCTCAGGACAATGTGCAACG	0.347																																																0																																										SO:0001589	frameshift_variant	54497			AB037835	CCDS33181.1	2p22.2	2007-01-02			ENSG00000008869	ENSG00000008869			29273	protein-coding gene	gene with protein product						10718198	Standard	XM_005264379		Approved	KIAA1414, DKFZp686P15184	uc002rpp.1	Q9P2D3	OTTHUMG00000152158	ENST00000233099.5:c.1874dupT	2.37:g.37286108_37286108dupA	ENSP00000233099:p.Cys625fs	Somatic		WXS	Illumina HiSeq	Phase_I	B5MDU8|Q7Z3B2|Q9NVL7	Frame_Shift_Ins	INS	ENST00000233099.5	37	CCDS33181.1																																																																																				0.347	HEATR5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000325492.1	NM_019024		A	37286107	-	A	37286106	7	5	701	1	0	1	1	0	0	0	0	0	7039	478	17	0	4437	0	HEATR5B	2	37286106	Frame_Shift_Ins	INS	-	TCGA-PJ-A5Z8-01A-11D-A28G-10		37286106	205913267	10	46016										
GKN1	56287	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	69207170	69207170	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	atgtgtcgtgggattccaacAtacatggctgaggagatgca	13	7	0	2			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr2:69207170A>G	ENST00000377938.2	+	5	546	c.483A>G	c.(481-483)acA>acG	p.T161T		NM_019617.3	NP_062563.3	Q9NS71	GKN1_HUMAN	gastrokine 1	161	BRICHOS. {ECO:0000255|PROSITE- ProRule:PRU00255}.				digestion (GO:0007586)|positive regulation of cell division (GO:0051781)|positive regulation of cell proliferation (GO:0008284)	extracellular region (GO:0005576)|secretory granule (GO:0030141)				breast(2)|large_intestine(4)|lung(5)	11						GGATTCCAACATACATGGCTG	0.507																																																0													156	111	126					2																	69207170		2203	4300	6503	SO:0001819	synonymous_variant	56287			AY139182	CCDS1891.2	2p13.3	2012-10-10			ENSG00000169605	ENSG00000169605		"BRICHOS domain containing"	23217	protein-coding gene	gene with protein product	"BRICHOS domain containing 1"	606402				12851218, 11562744	Standard	NM_019617		Approved	AMP18, CA11, BRICD1	uc002sfc.3	Q9NS71	OTTHUMG00000129574	ENST00000377938.2:c.483A>G	2.37:g.69207170A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUA9	Silent	SNP	ENST00000377938.2	37	CCDS1891.2																																																																																				0.507	GKN1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251769.2	NM_019617		G	69207170	A	G	69207170	2	3	701	1	0	0	0	0	0	0	0	1	6431	204	8	3		3	GKN1	2	69207170	Silent	SNP	A	TCGA-PJ-A5Z8-01A-11D-A28G-10	31921064	69207170	173992203	11	46017										
SMYD5	10322	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	73447218	73447218	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ggcactagagaaggcagaggAgaatgcccagaggctgaccg	16	9	0	5			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr2:73447218A>G	ENST00000389501.4	+	3	290	c.245A>G	c.(244-246)gAg>gGg	p.E82G	SMYD5_ENST00000474652.1_3'UTR	NM_006062.2	NP_006053.2	Q6GMV2	SMYD5_HUMAN	SMYD family member 5	82	SET. {ECO:0000255|PROSITE- ProRule:PRU00190}.						metal ion binding (GO:0046872)|methyltransferase activity (GO:0008168)			NS(1)|breast(1)|endometrium(1)|large_intestine(3)|lung(5)|pancreas(1)|upper_aerodigestive_tract(1)	13						AAGGCAGAGGAGAATGCCCAG	0.562																																																0													68	69	69					2																	73447218		2036	4187	6223	SO:0001583	missense	10322			U50383	CCDS33221.2	2p12	2007-02-09	2003-05-14	2003-05-16	ENSG00000135632	ENSG00000135632		"Zinc fingers, MYND-type"	16258	protein-coding gene	gene with protein product			"retinoic acid induced 15"	RAI15		8754834	Standard	NM_006062		Approved	RRG1, NN8-4AG, ZMYND23	uc002siw.2	Q6GMV2	OTTHUMG00000150482	ENST00000389501.4:c.245A>G	2.37:g.73447218A>G	ENSP00000374152:p.Glu82Gly	Somatic		WXS	Illumina HiSeq	Phase_I	D6W5H3|Q13558	Missense_Mutation	SNP	ENST00000389501.4	37	CCDS33221.2	.	.	.	.	.	.	.	.	.	.	A	19.48	3.835850	0.71373	.	.	ENSG00000135632	ENST00000389501;ENST00000443900	T	0.50277	0.75	5.38	5.38	0.77491	SET domain (2);	0.227351	0.44483	D	0.000455	T	0.48205	0.1487	M	0.66939	2.045	0.80722	D	1	B	0.14438	0.01	B	0.19391	0.025	T	0.42531	-0.9446	10	0.34782	T	0.22	-17.1101	14.5273	0.67897	1.0:0.0:0.0:0.0	.	82	Q6GMV2	SMYD5_HUMAN	G	82;55	ENSP00000374152:E82G	ENSP00000374152:E82G	E	+	2	0	SMYD5	73300726	1.000000	0.71417	1.000000	0.80357	0.992000	0.81027	6.660000	0.74417	2.169000	0.68431	0.533000	0.62120	GAG		0.562	SMYD5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318301.1	NM_006062		G	73447218	A	G	73447218	3	3	701	1	0	0	0	0	1	0	0	0	14838	304	11	3	255	3	SMYD5	2	73447218	Missense_Mutation	SNP	A	TCGA-PJ-A5Z8-01A-11D-A28G-10	4240048	73447218	169752155	12	46018										
IMMT	10989	broad.mit.edu;bcgsc.ca	37	chr2	86371928	86371928	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	gtttctgcagatgaggtcttCatgctgtactttaatgcctc	9	9	3	2			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr2:86371928C>A	ENST00000410111.3	-	15	2127	c.1740G>T	c.(1738-1740)atG>atT	p.M580I	IMMT_ENST00000254636.5_Missense_Mutation_p.M481I|IMMT_ENST00000442664.2_Missense_Mutation_p.M579I|IMMT_ENST00000409051.2_Missense_Mutation_p.M533I|IMMT_ENST00000449247.2_Missense_Mutation_p.M569I	NM_001100169.1|NM_001100170.1|NM_006839.2	NP_001093639.1|NP_001093640.1|NP_006830.2	Q16891	MIC60_HUMAN	inner membrane protein, mitochondrial	580					mitochondrial calcium ion homeostasis (GO:0051560)|response to cold (GO:0009409)	integral component of membrane (GO:0016021)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	poly(A) RNA binding (GO:0044822)			breast(1)|endometrium(1)|kidney(3)|large_intestine(9)|lung(12)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	30						ATGAGGTCTTCATGCTGTACT	0.473																																																0													74	71	72					2																	86371928		1917	4125	6042	SO:0001583	missense	10989			D21094	CCDS46355.1, CCDS46356.1, CCDS46357.1	2p11.2	2011-10-04	2010-04-29		ENSG00000132305	ENSG00000132305			6047	protein-coding gene	gene with protein product	"mitofilin", "mitochondrial inner membrane organizing system 2"	600378	"inner membrane protein, mitochondrial (mitofilin)"			9168817, 8039717	Standard	NM_001100169		Approved	P87, P89, HMP, MINOS2	uc002sqz.4	Q16891	OTTHUMG00000153170	ENST00000410111.3:c.1740G>T	2.37:g.86371928C>A	ENSP00000387262:p.Met580Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B1H0U5|B2R5N6|Q14539|Q15092|Q68D41|Q69HW5|Q6IBL0|Q7Z3X1|Q8TAJ5|Q9P0V2	Missense_Mutation	SNP	ENST00000410111.3	37	CCDS46355.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	13.62|13.62	2.291316|2.291316	0.40494|0.40494	.|.	.|.	ENSG00000132305|ENSG00000132305	ENST00000419070|ENST00000254636;ENST00000449247;ENST00000410111;ENST00000442664;ENST00000409051;ENST00000545283;ENST00000377310;ENST00000409715	.|T;T;T;T;T	.|0.26518	.|1.73;1.73;1.73;1.73;1.73	5.27|5.27	5.27|5.27	0.74061|0.74061	.|.	.|0.093246	.|0.64402	.|D	.|0.000001	.|T	.|0.23171	.|0.0560	L|L	0.27053|0.27053	0.805|0.805	0.52099|0.52099	D|D	0.999945|0.999945	.|B;B;B;B;B	.|0.15141	.|0.008;0.009;0.012;0.012;0.008	.|B;B;B;B;B	.|0.23419	.|0.022;0.029;0.027;0.027;0.046	.|T	.|0.03000	.|-1.1084	.|10	.|0.35671	.|T	.|0.21	-19.915|-19.915	19.1497|19.1497	0.93482|0.93482	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|533;568;569;548;580	.|B9A067;B4DKR1;Q16891-2;Q16891-3;Q16891	.|.;.;.;.;IMMT_HUMAN	X|I	435|481;569;580;579;533;569;548;481	.|ENSP00000254636:M481I;ENSP00000396899:M569I;ENSP00000387262:M580I;ENSP00000407788:M579I;ENSP00000387227:M533I	.|ENSP00000254636:M481I	E|M	-|-	1|3	0|0	IMMT|IMMT	86225439|86225439	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.986000|0.986000	0.74619|0.74619	3.829000|3.829000	0.55760|0.55760	2.761000|2.761000	0.94854|0.94854	0.650000|0.650000	0.86243|0.86243	GAA|ATG		0.473	IMMT-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000329909.2	NM_006839		A	86371928	C	A	86371928	3	1	701	1	0	0	0	0	1	0	0	0	7725	826	29	4	540	4	IMMT	2	86371928	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	12924710	86371928	156827445	13	46019										
LYG2	254773	broad.mit.edu	37	chr2	99861727	99861727	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	aagtttctagctaaatacctGcatcaagccaaatttaagtc	5	9	2	0			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr2:99861727G>T	ENST00000409238.1	-	3	399	c.379C>A	c.(379-381)Cag>Aag	p.Q127K	LYG2_ENST00000423800.1_Missense_Mutation_p.Q127K|LYG2_ENST00000409679.1_Missense_Mutation_p.Q127K|LYG2_ENST00000333017.2_Missense_Mutation_p.Q127K			Q86SG7	LYG2_HUMAN	lysozyme G-like 2	127					cell wall macromolecule catabolic process (GO:0016998)|peptidoglycan catabolic process (GO:0009253)	extracellular region (GO:0005576)	lysozyme activity (GO:0003796)			large_intestine(3)|lung(4)|ovary(1)|prostate(2)|skin(1)|stomach(1)	12						CTAAATACCTGCATCAAGCCA	0.517																																																0													94	88	90					2																	99861727		2203	4300	6503	SO:0001583	missense	254773			AF323919	CCDS2042.1	2q11.2	2008-02-05			ENSG00000185674	ENSG00000185674			29615	protein-coding gene	gene with protein product						8889548, 12574869	Standard	NM_175735		Approved	LYGH	uc002szw.1	Q86SG7	OTTHUMG00000130643	ENST00000409238.1:c.379C>A	2.37:g.99861727G>T	ENSP00000386939:p.Gln127Lys	Somatic		WXS	Illumina HiSeq	Phase_I	Q496G2|Q53RW0	Missense_Mutation	SNP	ENST00000409238.1	37	CCDS2042.1	.	.	.	.	.	.	.	.	.	.	G	26.1	4.700644	0.88924	.	.	ENSG00000185674	ENST00000409238;ENST00000333017;ENST00000409679;ENST00000423306	.	.	.	5.78	5.78	0.91487	Lytic transglycosylase-like, catalytic (1);Lysozyme-like domain (1);	0.000000	0.64402	D	0.000014	T	0.81143	0.4761	M	0.86178	2.8	0.53005	D	0.999963	D;D;D	0.76494	0.999;0.999;0.997	D;D;D	0.85130	0.997;0.997;0.996	T	0.82694	-0.0330	8	.	.	.	-10.5867	15.5051	0.75731	0.0:0.0:1.0:0.0	.	127;127;127	Q496G2;C9J4J0;Q86SG7	.;.;LYG2_HUMAN	K	127	.	.	Q	-	1	0	LYG2	99228159	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	7.108000	0.77055	2.745000	0.94114	0.555000	0.69702	CAG		0.517	LYG2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000330307.1	NM_175735		T	99861727	G	T	99861727	3	4	701	1	0	0	0	0	1	0	0	0	9112	1328	46	4	271	4	LYG2	2	99861727	Missense_Mutation	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	13489799	99861727	143337646	14	46020										
POLR1B	84172	broad.mit.edu;bcgsc.ca	37	chr2	113330280	113330285	+	In_Frame_Del	DEL	CCAATG	CCAATG	-													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ggataactatccaattgggaCcaatgccatcgttgctgtga							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	CCAATG	CCAATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr2:113330280_113330285delCCAATG	ENST00000263331.5	+	13	2796_2801	c.2216_2221delCCAATG	c.(2215-2223)accaatgcc>acc	p.NA740del	POLR1B_ENST00000409894.3_In_Frame_Del_p.NA557del|POLR1B_ENST00000417433.2_In_Frame_Del_p.NA684del|POLR1B_ENST00000537335.1_In_Frame_Del_p.NA529del|POLR1B_ENST00000541869.1_In_Frame_Del_p.NA778del	NM_019014.4	NP_061887.2	Q9H9Y6	RPA2_HUMAN	polymerase (RNA) I polypeptide B, 128kDa	740					gene expression (GO:0010467)|termination of RNA polymerase I transcription (GO:0006363)|transcription elongation from RNA polymerase I promoter (GO:0006362)|transcription from RNA polymerase I promoter (GO:0006360)|transcription initiation from RNA polymerase I promoter (GO:0006361)	cytoplasm (GO:0005737)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)	DNA binding (GO:0003677)|DNA-directed RNA polymerase activity (GO:0003899)|metal ion binding (GO:0046872)|ribonucleoside binding (GO:0032549)			breast(3)|endometrium(9)|kidney(2)|large_intestine(9)|lung(14)|ovary(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	42						CCAATTGGGACCAATGCCATCGTTGC	0.393																																					Ovarian(16;256 576 9537 23969 41147)											0																																										SO:0001651	inframe_deletion	84172			AK001678	CCDS2097.1, CCDS46395.1, CCDS62988.1, CCDS62989.1, CCDS62990.1	2q13	2013-01-21			ENSG00000125630	ENSG00000125630		"RNA polymerase subunits"	20454	protein-coding gene	gene with protein product		602000					Standard	NM_001137604		Approved	Rpo1-2, FLJ21921, FLJ10816, RPA2	uc002thw.2	Q9H9Y6	OTTHUMG00000131314	ENST00000263331.5:c.2216_2221delCCAATG	2.37:g.113330280_113330285delCCAATG	ENSP00000263331:p.Asn740_Ala741del	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z6Y7|B7Z823|F5GZX4|F8W898|Q2TAM4|Q585T5|Q6ZRR2|Q9H9D3	In_Frame_Del	DEL	ENST00000263331.5	37	CCDS2097.1																																																																																				0.393	POLR1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254083.1	NM_019014		-	113330285	CCAATG	-	113330280	7	5	701	1	0	1	0	1	0	0	0	0	12217	507	18	0	2266	0	POLR1B	2	113330280	In_Frame_Del	DEL	CCAATG	TCGA-PJ-A5Z8-01A-11D-A28G-10	13468553	113330280	129869093	15	46021										
DCAF17	80067	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	172333421	172333421	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	agttctcagcatcagatctcTgaagattttgtcattttggc	8	8	4	3			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr2:172333421T>A	ENST00000375255.3	+	11	1470	c.1143T>A	c.(1141-1143)tcT>tcA	p.S381S	DCAF17_ENST00000468592.1_3'UTR|DCAF17_ENST00000539783.1_Intron	NM_025000.3	NP_079276.2	Q5H9S7	DCA17_HUMAN	DDB1 and CUL4 associated factor 17	381					protein ubiquitination (GO:0016567)	Cul4-RING E3 ubiquitin ligase complex (GO:0080008)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)				endometrium(1)|kidney(2)|large_intestine(3)|lung(10)|prostate(1)	17						ATCAGATCTCTGAAGATTTTG	0.323																																																0													70	72	71					2																	172333421		2203	4300	6503	SO:0001819	synonymous_variant	80067			AK023158	CCDS2243.2, CCDS54419.1	2q31.1	2014-01-28	2009-07-17	2009-07-17	ENSG00000115827	ENSG00000115827		"DDB1 and CUL4 associated factors"	25784	protein-coding gene	gene with protein product	"Woodhouse-Sakati syndrome"	612515	"chromosome 2 open reading frame 37"	C2orf37			Standard	NM_001164821		Approved	FLJ13096	uc002ugx.3	Q5H9S7	OTTHUMG00000132259	ENST00000375255.3:c.1143T>A	2.37:g.172333421T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RTW5|Q53TN3|Q9H908	Silent	SNP	ENST00000375255.3	37	CCDS2243.2	.	.	.	.	.	.	.	.	.	.	T	10.52	1.373792	0.24857	.	.	ENSG00000115827	ENST00000339506;ENST00000431110	.	.	.	5.55	4.37	0.52481	.	.	.	.	.	T	0.46405	0.1391	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.43015	-0.9417	4	.	.	.	-6.982	2.2645	0.04075	0.1969:0.0804:0.1334:0.5893	.	.	.	.	Q	132;83	.	.	L	+	2	0	DCAF17	172041667	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.499000	0.35671	0.913000	0.36797	0.472000	0.43445	CTG		0.323	DCAF17-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000255342.2	NM_025000		A	172333421	T	A	172333421	2	1	701	1	0	0	0	0	0	0	0	1	4271	1567	55	5		5	DCAF17	2	172333421	Silent	SNP	T	TCGA-PJ-A5Z8-01A-11D-A28G-10	59003141	172333421	70865952	16	46022										
SLC40A1	30061	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	190437577	190437577	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tcattgagaacttacgagaaCccatccatggtacatggtca	8	10	2	2			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr2:190437577C>A	ENST00000261024.2	-	4	808	c.382G>T	c.(382-384)Gtt>Ttt	p.V128F	SLC40A1_ENST00000418714.1_5'Flank	NM_014585.5	NP_055400.1	Q9NP59	S40A1_HUMAN	solute carrier family 40 (iron-regulated transporter), member 1	128					anatomical structure morphogenesis (GO:0009653)|cellular iron ion homeostasis (GO:0006879)|endothelium development (GO:0003158)|iron ion transmembrane transport (GO:0034755)|lymphocyte homeostasis (GO:0002260)|multicellular organismal iron ion homeostasis (GO:0060586)|negative regulation of apoptotic process (GO:0043066)|regulation of transcription from RNA polymerase II promoter in response to iron (GO:0034395)|spleen trabecula formation (GO:0060345)|transmembrane transport (GO:0055085)	basolateral plasma membrane (GO:0016323)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)|multivesicular body (GO:0005771)|plasma membrane (GO:0005886)|synaptic vesicle (GO:0008021)	iron ion transmembrane transporter activity (GO:0005381)			endometrium(3)|large_intestine(1)|lung(6)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	14			OV - Ovarian serous cystadenocarcinoma(117;0.000917)|Epithelial(96;0.014)|all cancers(119;0.0491)			CTTACGAGAACCCATCCATGG	0.393																																																0													83	78	80					2																	190437577		2203	4300	6503	SO:0001583	missense	30061			AF215636	CCDS2299.1	2q32	2014-09-17	2003-06-04	2003-06-05	ENSG00000138449	ENSG00000138449		"Solute carriers"	10909	protein-coding gene	gene with protein product	"ferroportin 1"	604653	"solute carrier family 11 (proton-coupled divalent metal ion transporters), member 3"	SLC11A3		10828623	Standard	NM_014585		Approved	MTP1, IREG1, FPN1, HFE4	uc002uqp.4	Q9NP59	OTTHUMG00000132662	ENST00000261024.2:c.382G>T	2.37:g.190437577C>A	ENSP00000261024:p.Val128Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q6FI62|Q7Z4F8|Q8IVB2|Q9NRL0	Missense_Mutation	SNP	ENST00000261024.2	37	CCDS2299.1	.	.	.	.	.	.	.	.	.	.	C	12.35	1.911373	0.33721	.	.	ENSG00000138449	ENST00000261024;ENST00000427241	D;D	0.94280	-3.39;-3.39	6.03	1.03	0.20045	Major facilitator superfamily domain, general substrate transporter (1);	0.604283	0.17891	N	0.158506	D	0.83848	0.5343	N	0.17474	0.49	0.42059	D	0.991157	B;B	0.09022	0.002;0.002	B;B	0.14578	0.011;0.011	T	0.70040	-0.4981	10	0.20519	T	0.43	-3.6976	7.1323	0.25508	0.0:0.3425:0.3929:0.2646	.	128;128	A8K7Y1;Q9NP59	.;S40A1_HUMAN	F	128	ENSP00000261024:V128F;ENSP00000390005:V128F	ENSP00000261024:V128F	V	-	1	0	SLC40A1	190145822	1.000000	0.71417	0.997000	0.53966	0.993000	0.82548	0.700000	0.25601	0.124000	0.18369	0.655000	0.94253	GTT		0.393	SLC40A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255916.2			A	190437577	C	A	190437577	3	1	701	1	0	0	0	0	1	0	0	0	14641	507	18	4	1353	4	SLC40A1	2	190437577	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	18104156	190437577	52761796	17	46023										
GLS	2744	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	191795284	191795284	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	caacagtgttaagggaattcActtttgtcacgtaagcatat	8	7	2	0			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr2:191795284A>G	ENST00000320717.3	+	13	1805	c.1547A>G	c.(1546-1548)cAc>cGc	p.H516R	GLS_ENST00000409428.1_Missense_Mutation_p.H21R|GLS_ENST00000409215.1_Missense_Mutation_p.H21R|GLS_ENST00000409626.1_Missense_Mutation_p.H87R|GLS_ENST00000338435.4_Missense_Mutation_p.H516R	NM_014905.4	NP_055720.3	O94925	GLSK_HUMAN	glutaminase	516					cellular amino acid biosynthetic process (GO:0008652)|cellular nitrogen compound metabolic process (GO:0034641)|glutamate biosynthetic process (GO:0006537)|glutamate secretion (GO:0014047)|glutamine catabolic process (GO:0006543)|neurotransmitter secretion (GO:0007269)|protein homotetramerization (GO:0051289)|regulation of respiratory gaseous exchange by neurological system process (GO:0002087)|small molecule metabolic process (GO:0044281)|suckling behavior (GO:0001967)|synaptic transmission (GO:0007268)	mitochondrial matrix (GO:0005759)|mitochondrion (GO:0005739)	glutaminase activity (GO:0004359)			breast(1)|cervix(1)|endometrium(1)|kidney(1)|lung(9)|ovary(1)|skin(1)|urinary_tract(1)	16			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamine(DB00130)	AAGGGAATTCACTTTTGTCAC	0.383																																																0													128	119	122					2																	191795284		2203	4300	6503	SO:0001583	missense	2744			AB020645	CCDS2308.1, CCDS58744.1	2q32-q34	2013-01-10			ENSG00000115419	ENSG00000115419	3.5.1.2	"Ankyrin repeat domain containing"	4331	protein-coding gene	gene with protein product		138280				10048485	Standard	NM_014905		Approved	KIAA0838, GLS1	uc002usf.3	O94925	OTTHUMG00000132701	ENST00000320717.3:c.1547A>G	2.37:g.191795284A>G	ENSP00000317379:p.His516Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UL05|Q9UL06|Q9UL07|Q9UN40	Missense_Mutation	SNP	ENST00000320717.3	37	CCDS2308.1	.	.	.	.	.	.	.	.	.	.	A	13.95	2.388942	0.42308	.	.	ENSG00000115419	ENST00000320717;ENST00000338435;ENST00000409626;ENST00000457316;ENST00000409428;ENST00000409215;ENST00000412247	T;T;T;T;T;T;T	0.39787	1.06;1.06;1.06;1.06;1.06;1.06;1.06	5.84	5.84	0.93424	Beta-lactamase/transpeptidase-like (1);	0.049755	0.85682	D	0.000000	T	0.26195	0.0639	N	0.10664	0.02	0.54753	D	0.999986	B;B;B;B;B	0.12013	0.003;0.003;0.001;0.003;0.005	B;B;B;B;B	0.12156	0.004;0.006;0.003;0.006;0.007	T	0.06972	-1.0797	10	0.27082	T	0.32	-4.505	16.2233	0.82274	1.0:0.0:0.0:0.0	.	87;516;170;516;516	B7Z2P1;A8K132;Q68D38;O94925;O94925-3	.;.;.;GLSK_HUMAN;.	R	516;516;87;87;21;21;37	ENSP00000317379:H516R;ENSP00000340689:H516R;ENSP00000386417:H87R;ENSP00000395596:H87R;ENSP00000387177:H21R;ENSP00000387135:H21R;ENSP00000403329:H37R	ENSP00000317379:H516R	H	+	2	0	GLS	191503529	1.000000	0.71417	1.000000	0.80357	0.986000	0.74619	9.339000	0.96797	2.243000	0.73865	0.482000	0.46254	CAC		0.383	GLS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255999.2			G	191795284	A	G	191795284	3	3	701	1	0	0	0	0	1	0	0	0	6470	159	6	3	1597	3	GLS	2	191795284	Missense_Mutation	SNP	A	TCGA-PJ-A5Z8-01A-11D-A28G-10	1357707	191795284	51404089	18	46024										
PGAP1	80055	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	197791195	197791195	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ggagagggcagaaccttaccTgatactccgggtactcaaac	11	11	1	3			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr2:197791195T>A	ENST00000354764.4	-	1	260	c.146A>T	c.(145-147)cAg>cTg	p.Q49L	PGAP1_ENST00000409188.1_Intron|PGAP1_ENST00000409475.1_Splice_Site_p.Q49L|PGAP1_ENST00000485830.1_Intron	NM_024989.3	NP_079265.2	Q75T13	PGAP1_HUMAN	post-GPI attachment to proteins 1	49					anterior/posterior axis specification (GO:0009948)|attachment of GPI anchor to protein (GO:0016255)|C-terminal protein lipidation (GO:0006501)|cellular protein metabolic process (GO:0044267)|embryonic pattern specification (GO:0009880)|forebrain regionalization (GO:0021871)|head development (GO:0060322)|intracellular protein transport (GO:0006886)|myo-inositol transport (GO:0015798)|post-translational protein modification (GO:0043687)|sensory perception of sound (GO:0007605)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	nuclease activity (GO:0004518)|phosphoric ester hydrolase activity (GO:0042578)			breast(4)|central_nervous_system(2)|endometrium(4)|kidney(2)|large_intestine(9)|lung(11)|ovary(6)|stomach(1)|urinary_tract(1)	40						GAACCTTACCTGATACTCCGG	0.562																																																0													184	203	197					2																	197791195		2203	4300	6503	SO:0001630	splice_region_variant	80055				CCDS2318.1	2q33.1	2014-03-03			ENSG00000197121	ENSG00000197121			25712	protein-coding gene	gene with protein product	"GPI inositol-deacylase"	611655				14734546, 17711852, 24482476	Standard	XM_005246866		Approved	FLJ12377, Bst1, SPG67	uc002utw.3	Q75T13	OTTHUMG00000132743	ENST00000354764.4:c.147+1A>T	2.37:g.197791195T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q4G0R8|Q4ZG47|Q53SM0|Q6AW92|Q6UWV4|Q9HA24	Missense_Mutation	SNP	ENST00000354764.4	37	CCDS2318.1	.	.	.	.	.	.	.	.	.	.	T	14.06	2.422748	0.43020	.	.	ENSG00000197121	ENST00000422382;ENST00000354764;ENST00000409475;ENST00000374738	D	0.83673	-1.75	4.16	4.16	0.48862	.	0.069665	0.64402	D	0.000011	T	0.70745	0.3259	N	0.15975	0.35	0.80722	D	1	B;P	0.48764	0.001;0.915	B;P	0.49361	0.001;0.608	T	0.66284	-0.5962	10	0.11485	T	0.65	-4.6463	6.88	0.24168	0.2059:0.0:0.0:0.7941	.	49;49	Q75T13-3;Q75T13	.;PGAP1_HUMAN	L	49	ENSP00000363870:Q49L	ENSP00000346809:Q49L	Q	-	2	0	PGAP1	197499440	1.000000	0.71417	1.000000	0.80357	0.911000	0.54048	2.730000	0.47335	1.752000	0.51891	0.260000	0.18958	CAG		0.562	PGAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256103.5	NM_024989	Missense_Mutation	A	197791195	T	A	197791195	5	1	701	1	0	0	0	0	0	0	1	0	11784	1594	55	5	2730	5	PGAP1	2	197791195	Splice_Site	SNP	T	TCGA-PJ-A5Z8-01A-11D-A28G-10	5995911	197791195	45408178	19	46025										
SGOL2	151246	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	201438489	201438489	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	aaggcatttagatctttgtcTgagatacattcacctaacat	6	8	3	2			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr2:201438489T>G	ENST00000357799.4	+	7	3518	c.3420T>G	c.(3418-3420)tcT>tcG	p.S1140S		NM_001160033.1|NM_001160046.1|NM_152524.5	NP_001153505.1|NP_001153518.1|NP_689737.4	Q562F6	SGOL2_HUMAN	shugoshin-like 2 (S. pombe)	1140					meiotic sister chromatid cohesion, centromeric (GO:0051754)|mitotic cell cycle (GO:0000278)	chromosome, centromeric region (GO:0000775)|cytosol (GO:0005829)|kinetochore (GO:0000776)|mitotic cohesin complex (GO:0030892)|nucleus (GO:0005634)				NS(2)|breast(2)|cervix(3)|endometrium(1)|kidney(2)|large_intestine(7)|lung(20)|ovary(2)|prostate(2)|skin(2)|stomach(1)|urinary_tract(2)	46						GATCTTTGTCTGAGATACATT	0.343																																																0													109	101	103					2																	201438489		1844	4087	5931	SO:0001819	synonymous_variant	151246			AY094614	CCDS42796.1	2q33.2	2008-02-05			ENSG00000163535	ENSG00000163535			30812	protein-coding gene	gene with protein product		612425					Standard	NM_001160046		Approved	TRIPIN, FLJ25211	uc002uvw.2	Q562F6	OTTHUMG00000154535	ENST00000357799.4:c.3420T>G	2.37:g.201438489T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q53RR9|Q53T20|Q86XY4|Q8IWK2|Q8IZK1|Q8N1Q5|Q96LQ3	Silent	SNP	ENST00000357799.4	37	CCDS42796.1																																																																																				0.343	SGOL2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335834.1	NM_152524		G	201438489	T	G	201438489	2	3	701	1	0	0	0	0	0	0	0	1	14230	1567	55	5		5	SGOL2	2	201438489	Silent	SNP	T	TCGA-PJ-A5Z8-01A-11D-A28G-10	3647294	201438489	41760884	20	46026										
COPG	22820	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	128993744	128993745	+	Nonsense_Mutation	DNP	GC	GC	TA													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tcatgaaactgaacttcgaaGcagcctgggatgaggtaggg							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr3:128993744_128993745GC>TA	ENST00000314797.6	+	22	2424_2425	c.2320_2321GC>TA	c.(2320-2322)GCa>TAa	p.A774*		NM_016128.3	NP_057212.1	Q9Y678	COPG1_HUMAN	coatomer protein complex, subunit gamma 1	774	Interaction with ZNF289/ARFGAP2.				COPI coating of Golgi vesicle (GO:0048205)|establishment of Golgi localization (GO:0051683)|intracellular protein transport (GO:0006886)|membrane organization (GO:0061024)|organelle transport along microtubule (GO:0072384)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)	COPI vesicle coat (GO:0030126)|cytosol (GO:0005829)|Golgi membrane (GO:0000139)	structural molecule activity (GO:0005198)										GAACTTCGAAGCAGCCTGGGAT	0.46																																																0																																										SO:0001587	stop_gained	22820			AB047846	CCDS33851.1	3q21.3	2012-02-23	2012-02-23	2012-02-23	ENSG00000181789	ENSG00000181789			2236	protein-coding gene	gene with protein product	"coat protein gamma-cop"	615525	"coatomer protein complex, subunit gamma"	COPG		11056392	Standard	NM_016128		Approved		uc003els.3	Q9Y678	OTTHUMG00000159451	Exception_encountered	3.37:g.128993744_128993745delinsTA	ENSP00000325002:p.Ala774*	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6M8|B3KMF6|Q54AC4	Nonsense_Mutation	DNP	ENST00000314797.6	37	CCDS33851.1																																																																																				0.46	COPG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000355456.1	NM_016128		TA	128993745	GC	TA	128993744	4	4	701	1	0	0	0	0	0	1	0	0	3733	971	34	4	2406	4	COPG	3	128993744	Nonsense_Mutation	DNP	GC	TCGA-PJ-A5Z8-01A-11D-A28G-10		128993744	69028686	21	46027										
VPS8	23355	broad.mit.edu;bcgsc.ca	37	chr3	184612489	184612503	+	Splice_Site	DEL	AGGGATCTTTTATTT	AGGGATCTTTTATTT	-													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tctccccccctttctgttacAgggatcttttatttagtcag					rs200319292		TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	AGGGATCTTTTATTT	AGGGATCTTTTATTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr3:184612489_184612503delAGGGATCTTTTATTT	ENST00000437079.3	+	23	1952_1965	c.1781_1794delAGGGATCTTTTATTT	c.(1780-1794)aagggatcttttatt>a	p.KGSFI594del	VPS8_ENST00000436792.2_Splice_Site_p.KGSFI592del|VPS8_ENST00000446204.2_Intron|VPS8_ENST00000287546.4_Splice_Site_p.KGSFI594del	NM_001009921.2	NP_001009921.1	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog (S. cerevisiae)	594							zinc ion binding (GO:0008270)			NS(1)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(6)|kidney(4)|large_intestine(11)|lung(19)|ovary(1)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	54	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			TTTCTGTTACAGGGATCTTTTATTTAGTCAGATGT	0.344																																																0																																										SO:0001630	splice_region_variant	23355			AK056661	CCDS46972.1	3q27.2	2006-07-07	2006-07-07	2006-07-07	ENSG00000156931	ENSG00000156931			29122	protein-coding gene	gene with protein product			"KIAA0804"	KIAA0804		9872452	Standard	NM_001009921		Approved	FLJ32099	uc003fpb.1	Q8N3P4	OTTHUMG00000156707	ENST00000437079.3:c.1782-1AGGGATCTTTTATTT>-	3.37:g.184612489_184612503delAGGGATCTTTTATTT		Somatic		WXS	Illumina HiSeq	Phase_I	A8K8Q8|B9EIQ1|C9JB61|O94896|Q63HP2|Q9BVP9|Q9H9B0	Frame_Shift_Del	DEL	ENST00000437079.3	37	CCDS46971.1																																																																																				0.344	VPS8-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_015303	In_Frame_Del	-	184612503	AGGGATCTTTTATTT	-	184612489	8	5	701	1	0	1	0	1	0	0	1	0	17230	202	7	0	1862	0	VPS8	3	184612489	Splice_Site	DEL	AGGGATCTTTTATTT	TCGA-PJ-A5Z8-01A-11D-A28G-10	55618745	184612489	13409941	22	46028										
CPN2	1370	broad.mit.edu	37	chr3	194062032	194062032	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	cctgcacagccagatcccagCtgccccctgccttgctttcg	8	19	0	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr3:194062032C>A	ENST00000323830.3	-	2	1489	c.1400G>T	c.(1399-1401)aGc>aTc	p.S467I	CPN2_ENST00000429275.1_Missense_Mutation_p.S467I	NM_001080513.2	NP_001073982	P22792	CPN2_HUMAN	carboxypeptidase N, polypeptide 2	467					protein stabilization (GO:0050821)|regulation of catalytic activity (GO:0050790)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	enzyme regulator activity (GO:0030234)			breast(1)|endometrium(4)|kidney(1)|large_intestine(4)|lung(11)|ovary(5)|prostate(1)	27	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.65e-05)		CAGATCCCAGCTGCCCCCTGC	0.667																																																0													59	61	60					3																	194062032		2203	4300	6503	SO:0001583	missense	1370			J05158	CCDS33920.1	3q29	2012-02-10	2007-02-23		ENSG00000178772	ENSG00000178772	3.4.17.3		2313	protein-coding gene	gene with protein product		603104	"carboxypeptidase N, polypeptide 2, 83kD"	ACBP		2378615, 9628828	Standard	XM_005269280		Approved		uc003fts.3	P22792	OTTHUMG00000156047	ENST00000323830.3:c.1400G>T	3.37:g.194062032C>A	ENSP00000319464:p.Ser467Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B2RPE7|Q86SU4|Q8N5V4	Missense_Mutation	SNP	ENST00000323830.3	37	CCDS33920.1	.	.	.	.	.	.	.	.	.	.	C	12.19	1.864966	0.32977	.	.	ENSG00000178772	ENST00000323830;ENST00000429275	T;T	0.54675	0.56;0.56	5.56	-1.39	0.08997	.	0.701597	0.11887	N	0.519997	T	0.31949	0.0813	N	0.24115	0.695	0.19775	N	0.999959	B	0.18013	0.025	B	0.15052	0.012	T	0.15925	-1.0420	10	0.36615	T	0.2	.	5.7982	0.18399	0.2148:0.3055:0.4123:0.0674	.	467	P22792	CPN2_HUMAN	I	467	ENSP00000319464:S467I;ENSP00000402232:S467I	ENSP00000319464:S467I	S	-	2	0	CPN2	195543727	0.000000	0.05858	0.024000	0.17045	0.890000	0.51754	-2.048000	0.01406	-0.146000	0.11274	0.655000	0.94253	AGC		0.667	CPN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000342856.2	NM_001080513		A	194062032	C	A	194062032	3	1	701	1	0	0	0	0	1	0	0	0	3812	797	28	4	241	4	CPN2	3	194062032	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	9449543	194062032	3960398	23	46029										
HPSE	10855	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	84240579	84240579	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tagggccattccaaccgtaaCttctcctccacatcaggagg	8	14	2	0			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr4:84240579C>G	ENST00000405413.2	-	4	553	c.417G>C	c.(415-417)aaG>aaC	p.K139N	HPSE_ENST00000513463.1_Missense_Mutation_p.K139N|HPSE_ENST00000311412.5_Missense_Mutation_p.K139N|HPSE_ENST00000512196.1_Missense_Mutation_p.K139N	NM_006665.5	NP_006656.2	Q9Y251	HPSE_HUMAN	heparanase	139					carbohydrate metabolic process (GO:0005975)|cell-matrix adhesion (GO:0007160)|glycosaminoglycan catabolic process (GO:0006027)|glycosaminoglycan metabolic process (GO:0030203)|heparan sulfate proteoglycan catabolic process (GO:0030200)|positive regulation of blood coagulation (GO:0030194)|positive regulation of hair follicle development (GO:0051798)|positive regulation of osteoblast proliferation (GO:0033690)|positive regulation of protein kinase B signaling (GO:0051897)|positive regulation vascular endothelial growth factor production (GO:0010575)|proteoglycan metabolic process (GO:0006029)|regulation of hair follicle development (GO:0051797)|small molecule metabolic process (GO:0044281)|vascular wound healing (GO:0061042)	extracellular region (GO:0005576)|intracellular membrane-bounded organelle (GO:0043231)|lysosomal lumen (GO:0043202)|lysosome (GO:0005764)|membrane raft (GO:0045121)|nucleus (GO:0005634)	beta-glucuronidase activity (GO:0004566)|heparanase activity (GO:0030305)|protein dimerization activity (GO:0046983)|syndecan binding (GO:0045545)			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(6)|ovary(1)|prostate(2)|skin(1)|urinary_tract(2)	20		Hepatocellular(203;0.114)		COAD - Colon adenocarcinoma(81;0.141)	Dalteparin(DB06779)|Heparin(DB01109)	CCAACCGTAACTTCTCCTCCA	0.438																																																0													148	137	141					4																	84240579		2203	4300	6503	SO:0001583	missense	10855			AF144325	CCDS3602.1, CCDS54774.1, CCDS56337.1	4q21.3	2008-02-05			ENSG00000173083	ENSG00000173083			5164	protein-coding gene	gene with protein product		604724				10395325, 10395326	Standard	NM_006665		Approved	HPA, HSE1, HPSE1	uc003hoj.4	Q9Y251	OTTHUMG00000130425	ENST00000405413.2:c.417G>C	4.37:g.84240579C>G	ENSP00000384262:p.Lys139Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A9JIG7|C7F7I3|C7F7I4|E9PCA9|E9PGR1|Q53GE5|Q9UL39	Missense_Mutation	SNP	ENST00000405413.2	37	CCDS3602.1	.	.	.	.	.	.	.	.	.	.	C	2.151	-0.394512	0.04899	.	.	ENSG00000173083	ENST00000311412;ENST00000405413;ENST00000512196;ENST00000513463	T;T;T;T	0.44482	0.94;0.94;0.92;2.02	5.14	0.358	0.16084	Glycoside hydrolase, superfamily (1);	0.691254	0.14121	N	0.340021	T	0.28863	0.0716	L	0.36672	1.1	0.09310	N	1	B;P;P	0.36465	0.0;0.551;0.554	B;B;B	0.40782	0.001;0.34;0.146	T	0.14531	-1.0469	10	0.27082	T	0.32	-4.5686	2.1168	0.03715	0.1217:0.3938:0.1188:0.3657	.	139;139;139	E9PCA9;E9PGR1;Q9Y251	.;.;HPSE_HUMAN	N	139	ENSP00000308107:K139N;ENSP00000384262:K139N;ENSP00000423265:K139N;ENSP00000421365:K139N	ENSP00000308107:K139N	K	-	3	2	HPSE	84459603	0.000000	0.05858	0.002000	0.10522	0.016000	0.09150	-0.862000	0.04263	-0.150000	0.11195	-0.293000	0.09583	AAG		0.438	HPSE-001	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000252812.2	NM_006665		G	84240579	C	G	84240579	3	3	701	1	0	0	0	0	1	0	0	0	7351	564	20	4	1254	4	HPSE	4	84240579	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10		84240579	106913697	24	46030										
GRID2	2895	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	94436380	94436380	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	aatcaaggtctctccaggacCtttccaagcaaacagaaatc	6	12	2	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr4:94436380C>T	ENST00000282020.4	+	13	2269	c.2011C>T	c.(2011-2013)Ctt>Ttt	p.L671F	GRID2_ENST00000510992.1_Missense_Mutation_p.L576F	NM_001510.2	NP_001501.2	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	671					cellular protein localization (GO:0034613)|cerebellar granule cell differentiation (GO:0021707)|glutamate receptor signaling pathway (GO:0007215)|heterophilic cell-cell adhesion (GO:0007157)|ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|prepulse inhibition (GO:0060134)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of neuron apoptotic process (GO:0043523)|regulation of neuron projection development (GO:0010975)|synaptic transmission, glutamatergic (GO:0035249)|transport (GO:0006810)	cell junction (GO:0030054)|dendrite (GO:0030425)|dendritic spine (GO:0043197)|integral component of plasma membrane (GO:0005887)|ionotropic glutamate receptor complex (GO:0008328)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|synapse (GO:0045202)	extracellular-glutamate-gated ion channel activity (GO:0005234)|glutamate receptor activity (GO:0008066)|ionotropic glutamate receptor activity (GO:0004970)|PDZ domain binding (GO:0030165)|scaffold protein binding (GO:0097110)	p.L671I(1)		NS(2)|breast(2)|central_nervous_system(1)|endometrium(6)|kidney(4)|large_intestine(18)|lung(45)|ovary(3)|prostate(6)|skin(9)|upper_aerodigestive_tract(3)|urinary_tract(1)	100		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)		TCTCCAGGACCTTTCCAAGCA	0.418																																																1	Substitution - Missense(1)	lung(1)											45	44	44					4																	94436380		2203	4300	6503	SO:0001583	missense	2895			AF009014	CCDS3637.1, CCDS68758.1	4q22	2012-08-29			ENSG00000152208	ENSG00000152208		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4576	protein-coding gene	gene with protein product		602368				9465309	Standard	NM_001510		Approved	GluD2, GluR-delta-2	uc011cdt.2	O43424	OTTHUMG00000130975	ENST00000282020.4:c.2011C>T	4.37:g.94436380C>T	ENSP00000282020:p.Leu671Phe	Somatic		WXS	Illumina HiSeq	Phase_I	E9PH24|Q4KKU8|Q4KKU9|Q4KKV0|Q59FZ1	Missense_Mutation	SNP	ENST00000282020.4	37	CCDS3637.1	.	.	.	.	.	.	.	.	.	.	C	19.43	3.826524	0.71143	.	.	ENSG00000152208	ENST00000282020;ENST00000510992	T;T	0.52754	0.65;0.65	4.96	4.96	0.65561	Extracellular solute-binding protein, family 3 (1);Ionotropic glutamate receptor (2);	0.062472	0.64402	D	0.000006	T	0.74038	0.3664	M	0.86651	2.83	0.80722	D	1	D;D	0.89917	0.999;1.0	D;D	0.85130	0.992;0.997	T	0.79757	-0.1669	10	0.87932	D	0	.	18.5496	0.91058	0.0:1.0:0.0:0.0	.	576;671	E9PH24;O43424	.;GRID2_HUMAN	F	671;576	ENSP00000282020:L671F;ENSP00000421257:L576F	ENSP00000282020:L671F	L	+	1	0	GRID2	94655403	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	2.534000	0.45676	2.448000	0.82819	0.585000	0.79938	CTT		0.418	GRID2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253588.2			T	94436380	C	T	94436380	3	4	701	1	0	0	0	0	1	0	0	0	6779	681	24	2	2061	2	GRID2	4	94436380	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	10195801	94436380	96717896	25	46031										
ADH6	130	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	100129912	100129912	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	acttcttgaatgggtttcttTaagtcctgagggttgaggca	12	6	2	3			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr4:100129912T>A	ENST00000237653.7	-	6	1125	c.741A>T	c.(739-741)ttA>ttT	p.L247F	ADH6_ENST00000394897.1_Missense_Mutation_p.L247F|ADH6_ENST00000504257.1_5'UTR|ADH6_ENST00000407820.2_Missense_Mutation_p.L38F|RP11-696N14.1_ENST00000506160.1_RNA|ADH6_ENST00000394899.2_Missense_Mutation_p.L247F|RP11-696N14.1_ENST00000500358.2_RNA|RP11-696N14.1_ENST00000506454.1_RNA	NM_000672.3	NP_000663	P28332	ADH6_HUMAN	alcohol dehydrogenase 6 (class V)	247					ethanol oxidation (GO:0006069)|response to ethanol (GO:0045471)|small molecule metabolic process (GO:0044281)|xenobiotic metabolic process (GO:0006805)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)	alcohol dehydrogenase (NAD) activity (GO:0004022)|alcohol dehydrogenase activity, zinc-dependent (GO:0004024)|ethanol binding (GO:0035276)|zinc ion binding (GO:0008270)			breast(1)|kidney(1)|large_intestine(6)|lung(9)|ovary(1)|skin(2)	20				OV - Ovarian serous cystadenocarcinoma(123;3.58e-08)	Abacavir(DB01048)	TGGGTTTCTTTAAGTCCTGAG	0.443																																																0													286	298	294					4																	100129912		2203	4300	6503	SO:0001583	missense	130			AK092768	CCDS3647.1, CCDS43255.1	4q23	2008-02-05			ENSG00000172955	ENSG00000172955	1.1.1.1	"Alcohol dehydrogenases"	255	protein-coding gene	gene with protein product		103735				1881901	Standard	NM_000672		Approved	ADH-5	uc003huo.2	P28332	OTTHUMG00000131024	ENST00000237653.7:c.741A>T	4.37:g.100129912T>A	ENSP00000237653:p.Leu247Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B3KS45|Q58F53	Missense_Mutation	SNP	ENST00000237653.7	37	CCDS3647.1	.	.	.	.	.	.	.	.	.	.	T	2.163	-0.391751	0.04932	.	.	ENSG00000172955	ENST00000394897;ENST00000394899;ENST00000407820;ENST00000237653;ENST00000508558	T;T;T;T;T	0.04156	3.69;3.69;3.69;3.69;3.69	4.56	-4.66	0.03329	Alcohol dehydrogenase, C-terminal (1);NAD(P)-binding domain (1);	0.483471	0.25219	N	0.032258	T	0.01523	0.0049	N	0.11651	0.15	0.22001	N	0.999427	B;B;B;B	0.14012	0.0;0.0;0.0;0.009	B;B;B;B	0.09377	0.004;0.002;0.002;0.004	T	0.42015	-0.9476	10	0.09338	T	0.73	-7.7887	1.7843	0.03038	0.3579:0.2092:0.3238:0.1091	.	124;247;247;247	B4DPD8;E9PBI1;P28332;P28332-2	.;.;ADH6_HUMAN;.	F	247;247;38;247;183	ENSP00000378358:L247F;ENSP00000378359:L247F;ENSP00000384997:L38F;ENSP00000237653:L247F;ENSP00000426187:L183F	ENSP00000237653:L247F	L	-	3	2	ADH6	100348935	0.000000	0.05858	0.004000	0.12327	0.597000	0.36814	0.028000	0.13644	-1.027000	0.03325	-0.294000	0.09567	TTA		0.443	ADH6-003	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000253665.1	NM_000672		A	100129912	T	A	100129912	3	1	701	1	0	0	0	0	1	0	0	0	312	1751	61	5	406	5	ADH6	4	100129912	Missense_Mutation	SNP	T	TCGA-PJ-A5Z8-01A-11D-A28G-10	5693532	100129912	91024364	26	46032										
LARP7	51574	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	113568519	113568519	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	agtccactgaaccccaaaagCagtgctcaaagaaaaagaaa	7	10	1	3			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr4:113568519C>A	ENST00000344442.5	+	7	1089	c.811C>A	c.(811-813)Cag>Aag	p.Q271K	LARP7_ENST00000509061.1_Missense_Mutation_p.Q278K|MIR302C_ENST00000362232.1_RNA|MIR302B_ENST00000505215.1_RNA|MIR302B_ENST00000510655.1_RNA|MIR367_ENST00000362299.1_RNA|MIR302A_ENST00000385192.1_RNA|MIR302B_ENST00000362188.1_RNA|MIR302D_ENST00000362275.1_RNA|LARP7_ENST00000324052.6_Missense_Mutation_p.Q271K|MIR302B_ENST00000509938.1_RNA	NM_016648.3	NP_057732.2	Q4G0J3	LARP7_HUMAN	La ribonucleoprotein domain family, member 7	271	Lys-rich.				RNA processing (GO:0006396)	cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|nucleus (GO:0005634)|ribonucleoprotein complex (GO:0030529)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			endometrium(2)|large_intestine(2)|lung(8)|ovary(4)|skin(1)	17		Ovarian(17;0.0443)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		ACCCCAAAAGCAGTGCTCAAA	0.448																																																0													104	102	102					4																	113568519		1871	4114	5985	SO:0001583	missense	51574			AF068284	CCDS3701.2, CCDS58924.1	4q25	2013-02-12			ENSG00000174720	ENSG00000174720		"La ribonucleoprotein domain containing", "RNA binding motif (RRM) containing"	24912	protein-coding gene	gene with protein product	"P-TEFb-interaction protein for 7SK stability"	612026				18191186, 18249148, 18281698, 22865833, 22488152	Standard	NM_016648		Approved	HDCMA18P, PIP7S, DKFZP564K112	uc003ibb.4	Q4G0J3	OTTHUMG00000132909	ENST00000344442.5:c.811C>A	4.37:g.113568519C>A	ENSP00000344950:p.Gln271Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2ZHN6|Q3B7A9|Q9P1S7|Q9Y3Z8	Missense_Mutation	SNP	ENST00000344442.5	37	CCDS3701.2	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	0.204|0.204	-1.041899|-1.041899	0.01997|0.01997	.|.	.|.	ENSG00000174720|ENSG00000174720	ENST00000344442;ENST00000509061;ENST00000505034;ENST00000324052|ENST00000511529	T;T;T;T|.	0.17528|.	2.27;2.27;2.27;2.27|.	5.86|5.86	5.01|5.01	0.66863|0.66863	.|.	0.366809|.	0.30126|.	N|.	0.010347|.	T|T	0.56485|0.56485	0.1988|0.1988	L|L	0.56769|0.56769	1.78|1.78	0.32446|0.32446	N|N	0.546025|0.546025	B;B|.	0.18013|.	0.025;0.025|.	B;B|.	0.18561|.	0.022;0.022|.	T|T	0.65162|0.65162	-0.6235|-0.6235	10|5	0.06236|.	T|.	0.91|.	-6.7457|-6.7457	10.0804|10.0804	0.42386|0.42386	0.0:0.7892:0.1388:0.072|0.0:0.7892:0.1388:0.072	.|.	271;271|.	D6RFF0;Q4G0J3|.	.;LARP7_HUMAN|.	K|R	271;278;271;271|51	ENSP00000344950:Q271K;ENSP00000422626:Q278K;ENSP00000421541:Q271K;ENSP00000314311:Q271K|.	ENSP00000314311:Q271K|.	Q|S	+|+	1|3	0|2	LARP7|LARP7	113787968|113787968	0.865000|0.865000	0.29922|0.29922	0.907000|0.907000	0.35723|0.35723	0.117000|0.117000	0.20001|0.20001	1.026000|1.026000	0.30103|0.30103	1.453000|1.453000	0.47775|0.47775	0.563000|0.563000	0.77884|0.77884	CAG|AGC		0.448	LARP7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256417.2	NM_016648		A	113568519	C	A	113568519	3	1	701	1	0	0	0	0	1	0	0	0	8640	711	25	4	833	4	LARP7	4	113568519	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	13438607	113568519	77585757	27	46033										
CDH12	1010	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr5	21751876	21751876	+	Frame_Shift_Del	DEL	T	T	-													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ttatcagggttataactctcTtcttcgccaaacatgtctgc							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr5:21751876delT	ENST00000382254.1	-	15	3441	c.2355delA	c.(2353-2355)gaafs	p.E786fs	CDH12_ENST00000504376.2_Frame_Shift_Del_p.E786fs|CDH12_ENST00000522262.1_Frame_Shift_Del_p.E746fs|CDH12_ENST00000521384.1_5'UTR|RP11-804N13.1_ENST00000522350.1_RNA	NM_004061.3	NP_004052.2	P55289	CAD12_HUMAN	cadherin 12, type 2 (N-cadherin 2)	786					adherens junction organization (GO:0034332)|cell junction assembly (GO:0034329)|cell-cell junction organization (GO:0045216)|homophilic cell adhesion (GO:0007156)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(2)|breast(2)|cervix(1)|endometrium(6)|kidney(4)|large_intestine(19)|lung(75)|ovary(2)|prostate(3)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	120						TATAACTCTCTTCTTCGCCAA	0.428										HNSCC(59;0.17)																																						0													81	83	82					5																	21751876		2203	4300	6503	SO:0001589	frameshift_variant	1010			L33477	CCDS3890.1	5p14.3	2010-01-26			ENSG00000154162	ENSG00000154162		"Cadherins / Major cadherins"	1751	protein-coding gene	gene with protein product		600562				7731968	Standard	NM_004061		Approved	Br-cadherin, CDHB	uc003jgk.2	P55289	OTTHUMG00000090591	ENST00000382254.1:c.2355delA	5.37:g.21751876delT	ENSP00000371689:p.Glu786fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBT1|B7Z2U6|Q86UD2	Frame_Shift_Del	DEL	ENST00000382254.1	37	CCDS3890.1																																																																																				0.428	CDH12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207139.1	NM_004061		-	21751876	T	-	21751876	7	5	701	1	0	1	0	1	0	0	0	0	3100	1606	56	0	33	0	CDH12	5	21751876	Frame_Shift_Del	DEL	T	TCGA-PJ-A5Z8-01A-11D-A28G-10		21751876	159163384	28	46034										
IQGAP2	10788	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	75902074	75902074	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	aagataacttaagctggaatGaaattcagaattgtattgat	8	3	1	4			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr5:75902074G>A	ENST00000274364.6	+	12	1600	c.1303G>A	c.(1303-1305)Gaa>Aaa	p.E435K	IQGAP2_ENST00000396234.3_5'Flank|IQGAP2_ENST00000379730.3_5'UTR|CTD-2236F14.1_ENST00000511327.1_RNA|IQGAP2_ENST00000502745.1_5'Flank	NM_006633.2	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	435					negative regulation of catalytic activity (GO:0043086)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	actin cytoskeleton (GO:0015629)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|microvillus (GO:0005902)	actin binding (GO:0003779)|GTPase inhibitor activity (GO:0005095)|phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547)|Ras GTPase activator activity (GO:0005099)			NS(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(15)|lung(23)|ovary(6)|prostate(1)|skin(3)|stomach(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	68		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		AAGCTGGAATGAAATTCAGAA	0.343																																																0													100	99	100					5																	75902074		2203	4300	6503	SO:0001583	missense	10788			U51903	CCDS34188.1, CCDS68897.1, CCDS68898.1, CCDS75262.1	5q	2008-07-18			ENSG00000145703	ENSG00000145703			6111	protein-coding gene	gene with protein product		605401				8756646	Standard	XM_005248409		Approved		uc003kek.3	Q13576	OTTHUMG00000162432	ENST00000274364.6:c.1303G>A	5.37:g.75902074G>A	ENSP00000274364:p.Glu435Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A8K4V1|B7Z8A4|J3KR91	Missense_Mutation	SNP	ENST00000274364.6	37	CCDS34188.1	.	.	.	.	.	.	.	.	.	.	G	20.9	4.060330	0.76074	.	.	ENSG00000145703	ENST00000274364;ENST00000514350;ENST00000505766	T;T;T	0.06849	3.25;3.25;3.25	5.63	4.76	0.60689	.	0.158913	0.56097	N	0.000036	T	0.11879	0.0289	M	0.68952	2.095	0.80722	D	1	P	0.39404	0.672	B	0.35607	0.206	T	0.02526	-1.1146	10	0.49607	T	0.09	-26.3168	14.1512	0.65387	0.0728:0.0:0.9272:0.0	.	435	Q13576	IQGA2_HUMAN	K	435;408;385	ENSP00000274364:E435K;ENSP00000423672:E408K;ENSP00000421097:E385K	ENSP00000274364:E435K	E	+	1	0	IQGAP2	75937830	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	8.250000	0.89835	1.370000	0.46153	0.650000	0.86243	GAA		0.343	IQGAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000368877.1	NM_006633		A	75902074	G	A	75902074	3	1	701	1	0	0	0	0	1	0	0	0	7822	1291	45	2	1349	2	IQGAP2	5	75902074	Missense_Mutation	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	54150198	75902074	105013186	29	46035										
DDX41	51428	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	176940458	176940458	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	aatcttcttcggcatggtggCactgaagagcagggtctgtc	13	9	3	2			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr5:176940458C>G	ENST00000507955.1	-	11	1649	c.1126G>C	c.(1126-1128)Gcc>Ccc	p.A376P	DDX41_ENST00000506965.1_5'Flank	NM_016222.2	NP_057306.2	Q9UJV9	DDX41_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 41	376	Helicase ATP-binding. {ECO:0000255|PROSITE-ProRule:PRU00541}.				apoptotic process (GO:0006915)|cellular response to interferon-beta (GO:0035458)|defense response to virus (GO:0051607)|innate immune response (GO:0045087)|mRNA splicing, via spliceosome (GO:0000398)|multicellular organismal development (GO:0007275)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of type I interferon production (GO:0032481)|regulation of type I interferon production (GO:0032479)|RNA processing (GO:0006396)	catalytic step 2 spliceosome (GO:0071013)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|membrane (GO:0016020)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)					all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			GGCATGGTGGCACTGAAGAGC	0.612																																																0													129	139	136					5																	176940458		2203	4300	6503	SO:0001583	missense	51428			AF195417	CCDS4427.1	5q35.3	2008-02-05			ENSG00000183258	ENSG00000183258		"DEAD-boxes"	18674	protein-coding gene	gene with protein product		608170				10607561	Standard	NM_016222		Approved	ABS, MGC8828	uc003mho.3	Q9UJV9	OTTHUMG00000130858	ENST00000507955.1:c.1126G>C	5.37:g.176940458C>G	ENSP00000422753:p.Ala376Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RDC8|Q96BK6|Q96K05|Q9NT96|Q9NW04	Missense_Mutation	SNP	ENST00000507955.1	37	CCDS4427.1	.	.	.	.	.	.	.	.	.	.	C	34	5.359401	0.95854	.	.	ENSG00000183258	ENST00000330503;ENST00000507955	T;T	0.59772	0.24;0.24	5.25	5.25	0.73442	DEAD-like helicase (2);DNA/RNA helicase, DEAD/DEAH box type, N-terminal (1);	0.055575	0.64402	D	0.000001	D	0.84705	0.5531	H	0.96777	3.88	0.80722	D	1	D;D	0.76494	0.999;0.999	D;D	0.79108	0.988;0.992	D	0.89650	0.3869	10	0.87932	D	0	-29.9388	19.0273	0.92937	0.0:1.0:0.0:0.0	.	250;376	B3KRK2;Q9UJV9	.;DDX41_HUMAN	P	394;376	ENSP00000330349:A394P;ENSP00000422753:A376P	ENSP00000330349:A394P	A	-	1	0	DDX41	176873064	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	7.595000	0.82710	2.721000	0.93114	0.655000	0.94253	GCC		0.612	DDX41-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253432.2	NM_016222		G	176940458	C	G	176940458	3	3	701	1	0	0	0	0	1	0	0	0	4363	710	25	4	770	4	DDX41	5	176940458	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	101038384	176940458	3974802	30	46036										
KDM1B	221656	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	18218101	18218101	+	Frame_Shift_Del	DEL	C	C	-													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	gaagacattcaaggaaccgtCtttttcgctggtgaggtatg							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr6:18218101delC	ENST00000297792.5	+	17	1851	c.1674delC	c.(1672-1674)gtcfs	p.V558fs	KDM1B_ENST00000388870.2_Frame_Shift_Del_p.V791fs|KDM1B_ENST00000546309.2_Frame_Shift_Del_p.V81fs|KDM1B_ENST00000397244.1_Frame_Shift_Del_p.V559fs			Q8NB78	KDM1B_HUMAN	lysine (K)-specific demethylase 1B	790					DNA methylation involved in gamete generation (GO:0043046)|histone H3-K4 demethylation (GO:0034720)|multicellular organismal development (GO:0007275)|regulation of DNA methylation (GO:0044030)|regulation of gene expression by genetic imprinting (GO:0006349)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|flavin adenine dinucleotide binding (GO:0050660)|histone demethylase activity (H3-dimethyl-K4 specific) (GO:0034648)|histone demethylase activity (H3-monomethyl-K4 specific) (GO:0034649)|oxidoreductase activity (GO:0016491)|zinc ion binding (GO:0008270)			breast(2)|endometrium(5)|large_intestine(6)|lung(8)|skin(3)|upper_aerodigestive_tract(1)	25						AAGGAACCGTCTTTTTCGCTG	0.418																																																0													216	181	193					6																	18218101		2203	4300	6503	SO:0001589	frameshift_variant	221656			AK125318	CCDS34343.1	6p22.3	2011-07-01	2009-09-29	2009-09-29	ENSG00000165097	ENSG00000165097		"Chromatin-modifying enzymes / K-demethylases"	21577	protein-coding gene	gene with protein product		613081	"amine oxidase, flavin containing 1", "chromosome 6 open reading frame 193", "amine oxidase (flavin containing) domain 1"	C6orf193, AOF1		19407342, 19727073	Standard	NM_153042		Approved	FLJ34109, FLJ33898, dJ298J15.2, bA204B7.3, FLJ43328, LSD2	uc003ncn.1	Q8NB78	OTTHUMG00000014316	ENST00000297792.5:c.1674delC	6.37:g.18218101delC	ENSP00000297792:p.Val558fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2C5|A2A2C6|Q5TGV3|Q6AI15|Q6ZUU4|Q8N258|Q96EL7	Frame_Shift_Del	DEL	ENST00000297792.5	37	CCDS34343.1																																																																																				0.418	KDM1B-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000277080.1	NM_153042		-	18218101	C	-	18218101	7	5	701	1	0	1	0	1	0	0	0	0	8130	900	32	0	1732	0	KDM1B	6	18218101	Frame_Shift_Del	DEL	C	TCGA-PJ-A5Z8-01A-11D-A28G-10		18218101	152896966	31	46037										
FHL5	9457	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	97053903	97053904	+	Frame_Shift_Del	DEL	TG	TG	-													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	gtggcaattattgtgtgccaTgttttgagaaggagtttgct							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr6:97053903_97053904delTG	ENST00000326771.2	+	5	840_841	c.460_461delTG	c.(460-462)tgtfs	p.C154fs	FHL5_ENST00000541107.1_Frame_Shift_Del_p.C154fs	NM_020482.4	NP_065228.4	Q5TD97	FHL5_HUMAN	four and a half LIM domains 5	154	LIM zinc-binding 2. {ECO:0000255|PROSITE- ProRule:PRU00125}.				positive regulation of transcription from RNA polymerase II promoter (GO:0045944)	nucleus (GO:0005634)	transcription coactivator activity (GO:0003713)|zinc ion binding (GO:0008270)			endometrium(1)|kidney(2)|large_intestine(4)|lung(17)|ovary(2)|urinary_tract(1)	27		all_cancers(76;1.57e-07)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00266)|Colorectal(196;0.0341)|Lung NSC(302;0.204)		BRCA - Breast invasive adenocarcinoma(108;0.0948)		TTGTGTGCCATGTTTTGAGAAG	0.396																																																0																																										SO:0001589	frameshift_variant	9457			AF278541	CCDS5035.1	6q16.1-q16.3	2008-02-05			ENSG00000112214	ENSG00000112214			17371	protein-coding gene	gene with protein product		605126					Standard	NM_020482		Approved	FLJ33049, ACT, dJ393D12.2	uc003pot.2	Q5TD97	OTTHUMG00000015239	ENST00000326771.2:c.460_461delTG	6.37:g.97053903_97053904delTG	ENSP00000326022:p.Cys154fs	Somatic		WXS	Illumina HiSeq	Phase_I	B2RBD1|E1P526|Q5TD98|Q8WW21|Q9NQU2	Frame_Shift_Del	DEL	ENST00000326771.2	37	CCDS5035.1																																																																																				0.396	FHL5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041559.1	NM_020482		-	97053904	TG	-	97053903	7	5	701	1	0	1	0	1	0	0	0	0	5888	1464	51	0	470	0	FHL5	6	97053903	Frame_Shift_Del	DEL	TG	TCGA-PJ-A5Z8-01A-11D-A28G-10	78835802	97053903	74061164	32	46038										
SKAP2	8935	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	26894415	26894415	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	gtgacttacatagactttacAtcttttatcttcttaataag	4	7	3	2			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr7:26894415A>G	ENST00000345317.2	-	2	475	c.162T>C	c.(160-162)gaT>gaC	p.D54D	SKAP2_ENST00000539623.1_5'UTR	NM_003930.3	NP_003921.2	O75563	SKAP2_HUMAN	src kinase associated phosphoprotein 2	54	Homodimerization. {ECO:0000250}.				B cell activation (GO:0042113)|negative regulation of cell proliferation (GO:0008285)|positive regulation of signal transduction (GO:0009967)|protein complex assembly (GO:0006461)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	SH3/SH2 adaptor activity (GO:0005070)			haematopoietic_and_lymphoid_tissue(2)|large_intestine(3)|lung(7)|ovary(1)|pancreas(1)|skin(3)	17						TAGACTTTACATCTTTTATCT	0.284																																																0													83	84	84					7																	26894415		2196	4278	6474	SO:0001819	synonymous_variant	8935				CCDS5400.1	7p15.2	2013-01-10	2006-09-28	2006-09-28	ENSG00000005020	ENSG00000005020		"Pleckstrin homology (PH) domain containing"	15687	protein-coding gene	gene with protein product		605215	"src family associated phosphoprotein 2"	SCAP2		9837776, 9755858	Standard	NM_003930		Approved	RA70, SKAP-HOM, SKAP55R, SAPS	uc003syc.3	O75563	OTTHUMG00000023495	ENST00000345317.2:c.162T>C	7.37:g.26894415A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A4D173|Q53GP6|Q75MK6|Q75MZ4|Q9UBZ3|Q9UED8	Silent	SNP	ENST00000345317.2	37	CCDS5400.1																																																																																				0.284	SKAP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000214128.1			G	26894415	A	G	26894415	2	3	701	1	0	0	0	0	0	0	0	1	14369	214	8	3		3	SKAP2	7	26894415	Silent	SNP	A	TCGA-PJ-A5Z8-01A-11D-A28G-10		26894415	132244248	33	46039										
HECW1	23072	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	43484075	43484075	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	gggcatggtctctgtgggacCtgaaggggctggggagctcc	19	9	1	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr7:43484075C>A	ENST00000395891.2	+	11	1909	c.1304C>A	c.(1303-1305)cCt>cAt	p.P435H	HECW1_ENST00000453890.1_Missense_Mutation_p.P435H	NM_015052.3	NP_055867.3	Q76N89	HECW1_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin protein ligase 1	435					protein ubiquitination involved in ubiquitin-dependent protein catabolic process (GO:0042787)	cytoplasm (GO:0005737)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)			NS(2)|breast(10)|central_nervous_system(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(17)|lung(57)|ovary(8)|pancreas(2)|prostate(2)|skin(6)|urinary_tract(3)	125						TCTGTGGGACCTGAAGGGGCT	0.627																																																0													22	25	24					7																	43484075		2079	4213	6292	SO:0001583	missense	23072			AB048365	CCDS5469.2, CCDS69286.1	7p13	2004-12-13			ENSG00000002746	ENSG00000002746			22195	protein-coding gene	gene with protein product		610384				12690205, 14684739	Standard	XM_005249665		Approved	KIAA0322, NEDL1	uc003tid.1	Q76N89	OTTHUMG00000128917	ENST00000395891.2:c.1304C>A	7.37:g.43484075C>A	ENSP00000379228:p.Pro435His	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2X0|A8MYS3|B4DH42|O15036|Q9HCC7	Missense_Mutation	SNP	ENST00000395891.2	37	CCDS5469.2	.	.	.	.	.	.	.	.	.	.	C	12.99	2.102929	0.37145	.	.	ENSG00000002746	ENST00000395891;ENST00000453890;ENST00000265522	T;T	0.33654	1.45;1.4	4.77	3.89	0.44902	.	15.800300	0.00906	N	0.002403	T	0.34221	0.0890	L	0.40543	1.245	0.09310	N	1	P;P	0.51791	0.612;0.948	B;B	0.39185	0.219;0.293	T	0.38564	-0.9655	10	0.52906	T	0.07	.	10.3123	0.43716	0.0:0.844:0.0:0.156	.	435;435	B4DH42;Q76N89	.;HECW1_HUMAN	H	435	ENSP00000379228:P435H;ENSP00000407774:P435H	ENSP00000265522:P435H	P	+	2	0	HECW1	43450600	0.000000	0.05858	0.008000	0.14137	0.181000	0.23173	0.250000	0.18235	1.311000	0.45024	0.591000	0.81541	CCT		0.627	HECW1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250893.2	NM_015052		A	43484075	C	A	43484075	3	1	701	1	0	0	0	0	1	0	0	0	7049	681	24	4	1338	4	HECW1	7	43484075	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	16589660	43484075	115654588	34	46040										
ABCA13	154664	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	48563956	48563956	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	gagacattcttgtgttatacAaccttagtaaacattatcga	6	7	1	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr7:48563956A>C	ENST00000435803.1	+	54	14188	c.14164A>C	c.(14164-14166)Aac>Cac	p.N4722H	ABCA13_ENST00000544596.1_Missense_Mutation_p.N452H	NM_152701.3	NP_689914.2	Q86UQ4	ABCAD_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 13	4722	ABC transporter 2. {ECO:0000255|PROSITE- ProRule:PRU00434}.				transport (GO:0006810)	integral component of membrane (GO:0016021)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)			breast(13)|central_nervous_system(8)|endometrium(25)|haematopoietic_and_lymphoid_tissue(4)|kidney(20)|large_intestine(51)|lung(100)|ovary(5)|pancreas(2)|prostate(22)|skin(10)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(4)	270						TGTGTTATACAACCTTAGTAA	0.363																																																0													129	128	128					7																	48563956		1842	4094	5936	SO:0001583	missense	154664			AY204751	CCDS47584.1	7p12.3	2012-03-14			ENSG00000179869	ENSG00000179869		"ATP binding cassette transporters / subfamily A"	14638	protein-coding gene	gene with protein product		607807				12697998	Standard	NM_152701		Approved	FLJ33876, FLJ33951	uc003toq.2	Q86UQ4	OTTHUMG00000155840	ENST00000435803.1:c.14164A>C	7.37:g.48563956A>C	ENSP00000411096:p.Asn4722His	Somatic		WXS	Illumina HiSeq	Phase_I	K9LC76|K9LC79|K9LCX7|K9LDK8|K9LDY4|Q6ZTT7|Q86WI2|Q8N248	Missense_Mutation	SNP	ENST00000435803.1	37	CCDS47584.1	.	.	.	.	.	.	.	.	.	.	A	7.655	0.683805	0.14907	.	.	ENSG00000179869	ENST00000435803;ENST00000411975;ENST00000544596	T;T;T	0.47869	0.83;0.83;0.83	5.59	3.08	0.35506	ABC transporter-like (1);	0.227351	0.30850	N	0.008743	T	0.30448	0.0765	L	0.31526	0.94	0.22127	N	0.999341	B;B;B	0.28760	0.007;0.013;0.221	B;B;B	0.23716	0.017;0.009;0.048	T	0.16070	-1.0415	10	0.45353	T	0.12	.	6.4339	0.21813	0.7623:0.1574:0.0803:0.0	.	452;2424;4722	F5H7B7;Q86UQ4-3;Q86UQ4	.;.;ABCAD_HUMAN	H	4722;495;452	ENSP00000411096:N4722H;ENSP00000391042:N495H;ENSP00000442634:N452H	ENSP00000391042:N495H	N	+	1	0	ABCA13	48534502	0.928000	0.31464	0.072000	0.20136	0.450000	0.32258	2.185000	0.42584	1.050000	0.40346	0.533000	0.62120	AAC		0.363	ABCA13-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341964.2	NM_152701		C	48563956	A	C	48563956	3	2	701	1	0	0	0	0	1	0	0	0	31	130	5	5	14207	5	ABCA13	7	48563956	Missense_Mutation	SNP	A	TCGA-PJ-A5Z8-01A-11D-A28G-10	5079881	48563956	110574707	35	46041										
LAMB1	3912	broad.mit.edu;bcgsc.ca	37	chr7	107592551	107592555	+	Frame_Shift_Del	DEL	TCACA	TCACA	-													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	aggtattgggcgcacagcggTcacagttctgcccgatcaca					rs376884310		TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	TCACA	TCACA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr7:107592551_107592555delTCACA	ENST00000222399.6	-	23	3423_3427	c.3193_3197delTGTGA	c.(3193-3198)tgtgacfs	p.CD1065fs	LAMB1_ENST00000393561.1_Frame_Shift_Del_p.CD1089fs	NM_002291.2	NP_002282.2	P07942	LAMB1_HUMAN	laminin, beta 1	1065	Laminin EGF-like 11. {ECO:0000255|PROSITE-ProRule:PRU00460}.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|embryo implantation (GO:0007566)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|negative regulation of cell adhesion (GO:0007162)|neuron projection development (GO:0031175)|neuronal-glial interaction involved in cerebral cortex radial glia guided migration (GO:0021812)|odontogenesis (GO:0042476)|positive regulation of cell migration (GO:0030335)|positive regulation of epithelial cell proliferation (GO:0050679)|substrate adhesion-dependent cell spreading (GO:0034446)	basement membrane (GO:0005604)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)|laminin-10 complex (GO:0043259)|laminin-2 complex (GO:0005607)|laminin-8 complex (GO:0043257)|perinuclear region of cytoplasm (GO:0048471)	extracellular matrix structural constituent (GO:0005201)|glycosphingolipid binding (GO:0043208)|structural molecule activity (GO:0005198)			NS(3)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(4)|large_intestine(11)|lung(37)|ovary(6)|prostate(5)|skin(5)|upper_aerodigestive_tract(3)	82						CGCACAGCGGTCACAGTTCTGCCCG	0.571																																																0																																										SO:0001589	frameshift_variant	3912			M61916	CCDS5750.1	7q22	2013-03-01			ENSG00000091136	ENSG00000091136		"Laminins"	6486	protein-coding gene	gene with protein product		150240	"cutis laxa with marfanoid phenotype"	CLM		2563160, 2704655, 1864606	Standard	NM_002291		Approved		uc003vew.2	P07942	OTTHUMG00000149966	ENST00000222399.6:c.3193_3197delTGTGA	7.37:g.107592551_107592555delTCACA	ENSP00000222399:p.Cys1065fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q14D91	Frame_Shift_Del	DEL	ENST00000222399.6	37	CCDS5750.1																																																																																				0.571	LAMB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000314584.1	NM_002291		-	107592555	TCACA	-	107592551	7	5	701	1	0	1	0	1	0	0	0	0	8617	1667	58	0	2211	0	LAMB1	7	107592551	Frame_Shift_Del	DEL	TCACA	TCGA-PJ-A5Z8-01A-11D-A28G-10	59028595	107592551	51546112	36	46042	504	2								
LAMB1	3912	broad.mit.edu;bcgsc.ca	37	chr7	107592557	107592562	+	In_Frame_Del	DEL	TTCTGC	TTCTGC	-													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tgggcgcacagcggtcacagTtctgcccgatcacattagga							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	TTCTGC	TTCTGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr7:107592557_107592562delTTCTGC	ENST00000222399.6	-	23	3416_3421	c.3186_3191delGCAGAA	c.(3184-3192)gggcagaac>ggc	p.QN1063del	LAMB1_ENST00000393561.1_In_Frame_Del_p.QN1087del	NM_002291.2	NP_002282.2	P07942	LAMB1_HUMAN	laminin, beta 1	1063	Laminin EGF-like 11. {ECO:0000255|PROSITE-ProRule:PRU00460}.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|embryo implantation (GO:0007566)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|negative regulation of cell adhesion (GO:0007162)|neuron projection development (GO:0031175)|neuronal-glial interaction involved in cerebral cortex radial glia guided migration (GO:0021812)|odontogenesis (GO:0042476)|positive regulation of cell migration (GO:0030335)|positive regulation of epithelial cell proliferation (GO:0050679)|substrate adhesion-dependent cell spreading (GO:0034446)	basement membrane (GO:0005604)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)|laminin-10 complex (GO:0043259)|laminin-2 complex (GO:0005607)|laminin-8 complex (GO:0043257)|perinuclear region of cytoplasm (GO:0048471)	extracellular matrix structural constituent (GO:0005201)|glycosphingolipid binding (GO:0043208)|structural molecule activity (GO:0005198)			NS(3)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(4)|large_intestine(11)|lung(37)|ovary(6)|prostate(5)|skin(5)|upper_aerodigestive_tract(3)	82						GCGGTCACAGTTCTGCCCGATCACAT	0.558																																																0																																										SO:0001651	inframe_deletion	3912			M61916	CCDS5750.1	7q22	2013-03-01			ENSG00000091136	ENSG00000091136		"Laminins"	6486	protein-coding gene	gene with protein product		150240	"cutis laxa with marfanoid phenotype"	CLM		2563160, 2704655, 1864606	Standard	NM_002291		Approved		uc003vew.2	P07942	OTTHUMG00000149966	ENST00000222399.6:c.3186_3191delGCAGAA	7.37:g.107592557_107592562delTTCTGC	ENSP00000222399:p.Gln1063_Asn1064del	Somatic		WXS	Illumina HiSeq	Phase_I	Q14D91	In_Frame_Del	DEL	ENST00000222399.6	37	CCDS5750.1																																																																																				0.558	LAMB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000314584.1	NM_002291		-	107592562	TTCTGC	-	107592557	7	5	701	1	0	1	0	1	0	0	0	0	8617	1725	60	0	2217	0	LAMB1	7	107592557	In_Frame_Del	DEL	TTCTGC	TCGA-PJ-A5Z8-01A-11D-A28G-10	6	107592557	51546106	37	46043	504	2								
SSPO	23145	hgsc.bcm.edu;broad.mit.edu	37	chr7	149518182	149518182	+	RNA	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	agtccctgcagccactcatgCgggcccagagggcagcagag	14	14	1	2	rs199773714	byFrequency	TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr7:149518182C>T	ENST00000378016.2	+	0	12525							A2VEC9	SSPO_HUMAN	SCO-spondin						cell adhesion (GO:0007155)	extracellular space (GO:0005615)	peptidase inhibitor activity (GO:0030414)					Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GCCACTCATGCGGGCCCAGAG	0.692													C|||	2	0.000399361	0.0	0.0	5008	,	,		17614	0.002		0.0	False		,,,				2504	0.0															0																																												23145			AK093431		7q36.1	2013-08-07	2013-08-06		ENSG00000197558	ENSG00000197558			21998	protein-coding gene	gene with protein product	"subcommissural organ spondin", "SCO protein, thrombospondin domain containing"		"SCO-spondin homolog (Bos taurus)"			8743952, 11008217	Standard	NM_198455		Approved	SCO-spondin, KIAA0543, FLJ36112	uc010lpk.3	A2VEC9	OTTHUMG00000157884		7.37:g.149518182C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q76B61	Silent	SNP	ENST00000378016.2	37																																																																																					0.692	SSPO-202	KNOWN	basic	processed_transcript	processed_transcript				T	149518182	C	T	149518182	1	4	701	0	1	0	0	0	0	0	0	0	15201	776	27	1		1	SSPO	7	149518182	RNA	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	41925625	149518182	9620481	38	46044										
MLL3	58508	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	151919708	151919708	+	Frame_Shift_Del	DEL	T	T	-													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tgctacaatcaaaaccaatgTctgctacattttccacttct							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr7:151919708delT	ENST00000262189.6	-	21	3601	c.3383delA	c.(3382-3384)gacfs	p.D1128fs	KMT2C_ENST00000355193.2_Frame_Shift_Del_p.D1128fs	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	1128					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)										AAAACCAATGTCTGCTACATT	0.358																																																0													62	50	54					7																	151919708		2203	4296	6499	SO:0001589	frameshift_variant	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.3383delA	7.37:g.151919708delT	ENSP00000262189:p.Asp1128fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Frame_Shift_Del	DEL	ENST00000262189.6	37	CCDS5931.1																																																																																				0.358	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			-	151919708	T	-	151919708	7	5	701	1	0	1	0	1	0	0	0	0	9629	1667	58	0	11508	0	MLL3	7	151919708	Frame_Shift_Del	DEL	T	TCGA-PJ-A5Z8-01A-11D-A28G-10	2401526	151919708	7218955	39	46045										
OSGIN2	734	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	90936735	90936736	+	Frame_Shift_Ins	INS	-	-	T													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	cttttccttttttaggagccINStaaaaggggatcgagttatg							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr8:90936735_90936736insT	ENST00000297438.2	+	6	848_849	c.493_494insT	c.(493-495)ctafs	p.L165fs	OSGIN2_ENST00000451899.2_Frame_Shift_Ins_p.L209fs	NM_004337.2	NP_004328.1	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family member 2	165					meiotic nuclear division (GO:0007126)					breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(5)|urinary_tract(1)	17			BRCA - Breast invasive adenocarcinoma(11;0.0344)			TTTTAGGAGCCTAAAAGGGGAT	0.322																																																0																																										SO:0001589	frameshift_variant	734			AF061326	CCDS6248.1, CCDS47888.1	8q21	2006-10-05	2006-10-05	2006-10-05	ENSG00000164823	ENSG00000164823			1355	protein-coding gene	gene with protein product		604598	"chromosome 8 open reading frame 1"	C8orf1		9933573	Standard	NM_004337		Approved	hT41	uc003yeh.3	Q9Y236	OTTHUMG00000163811	ENST00000297438.2:c.494dupT	8.37:g.90936736_90936736dupT	ENSP00000297438:p.Leu165fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Ins	INS	ENST00000297438.2	37	CCDS6248.1																																																																																				0.322	OSGIN2-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000375691.1	NM_004337		T	90936736	-	T	90936735	7	5	701	1	0	1	1	0	0	0	0	0	11297	680	24	0	647	0	OSGIN2	8	90936735	Frame_Shift_Ins	INS	-	TCGA-PJ-A5Z8-01A-11D-A28G-10		90936735	55427287	40	46046										
EFR3A	23167	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	132996502	132996502	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ataactattgaactggctaaTgaagaagtagttattgatct	8	4	1	4			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr8:132996502T>G	ENST00000254624.5	+	15	1917	c.1692T>G	c.(1690-1692)aaT>aaG	p.N564K	EFR3A_ENST00000334503.4_Missense_Mutation_p.N564K|EFR3A_ENST00000519656.1_Missense_Mutation_p.N528K	NM_015137.4	NP_055952.2	Q14156	EFR3A_HUMAN	EFR3 homolog A (S. cerevisiae)	564						extracellular vesicular exosome (GO:0070062)|intracellular (GO:0005622)|plasma membrane (GO:0005886)				breast(2)|central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(6)|lung(14)|ovary(3)|skin(1)|stomach(2)	35	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)|LUAD - Lung adenocarcinoma(14;0.102)			AACTGGCTAATGAAGAAGTAG	0.348																																																0													132	132	132					8																	132996502		2203	4300	6503	SO:0001583	missense	23167			D63477	CCDS34942.2	8q24.22	2008-10-23			ENSG00000132294	ENSG00000132294			28970	protein-coding gene	gene with protein product		611798				15363888	Standard	NM_015137		Approved	KIAA0143	uc003yte.3	Q14156	OTTHUMG00000150552	ENST00000254624.5:c.1692T>G	8.37:g.132996502T>G	ENSP00000254624:p.Asn564Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A7MD19|Q2VPK2|Q63HL7|Q68DX1|Q6IQ18	Missense_Mutation	SNP	ENST00000254624.5	37	CCDS34942.2	.	.	.	.	.	.	.	.	.	.	T	19.05	3.752706	0.69533	.	.	ENSG00000132294	ENST00000254624;ENST00000377917;ENST00000334503;ENST00000519656	T;T;T	0.30182	1.54;1.54;1.54	6.02	3.6	0.41247	Armadillo-type fold (1);	0.000000	0.85682	D	0.000000	T	0.42698	0.1214	M	0.70275	2.135	0.80722	D	1	P	0.45902	0.868	P	0.51415	0.669	T	0.23084	-1.0198	10	0.51188	T	0.08	-34.8449	10.0781	0.42373	0.0:0.1369:0.0:0.8631	.	564	Q14156	EFR3A_HUMAN	K	564;564;564;528	ENSP00000254624:N564K;ENSP00000334769:N564K;ENSP00000428086:N528K	ENSP00000254624:N564K	N	+	3	2	EFR3A	133065684	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	0.821000	0.27338	0.491000	0.27793	0.528000	0.53228	AAT		0.348	EFR3A-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318886.1	NM_015137		G	132996502	T	G	132996502	3	3	701	1	0	0	0	0	1	0	0	0	4960	1461	51	5	1750	5	EFR3A	8	132996502	Missense_Mutation	SNP	T	TCGA-PJ-A5Z8-01A-11D-A28G-10	42059767	132996502	13367520	41	46047										
OC90	729330	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	133041425	133041426	+	Splice_Site	DNP	AC	AC	TT													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	gcagtgatgggacaagcagcAcctaagaccaaggaaaaccc							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr8:133041425_133041426AC>TT	ENST00000443356.2	-	14	1166_1167	c.1080_1081GT>AA	c.(1078-1083)agGTgc>agAAgc	p.C361S	OC90_ENST00000254627.3_Splice_Site_p.C345S|OC90_ENST00000603859.1_Splice_Site_p.C345S|OC90_ENST00000262283.5_Splice_Site_p.C557S			Q02509	OC90_HUMAN	otoconin 90	361	Phospholipase A2-like 2.				lipid catabolic process (GO:0016042)|phospholipid metabolic process (GO:0006644)	extracellular region (GO:0005576)	calcium ion binding (GO:0005509)|phospholipase A2 activity (GO:0004623)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(1)|kidney(1)|large_intestine(3)|lung(23)|ovary(2)|prostate(1)|skin(1)	37	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			GACAAGCAGCACCTAAGACCAA	0.554																																																0																																										SO:0001630	splice_region_variant	729330			Z14310	CCDS47919.1	8q24.22	2011-03-01			ENSG00000253117	ENSG00000253117			8100	protein-coding gene	gene with protein product		601658		PLA2L		10329003, 9860971	Standard	NM_001080399		Approved		uc011lix.1	Q02509	OTTHUMG00000164672	ENST00000443356.2:c.1080_1081delinsTT	8.37:g.133041425_133041426delinsTT		Somatic		WXS	Illumina HiSeq	Phase_I	B4DNG8	Missense_Mutation	DNP	ENST00000443356.2	37																																																																																					0.554	OC90-201	KNOWN	basic	protein_coding	protein_coding		NM_001080399	Missense_Mutation	TT	133041426	AC	TT	133041425	5	4	701	1	0	0	0	0	0	0	1	0	10821	173	6	5	408	5	OC90	8	133041425	Splice_Site	DNP	AC	TCGA-PJ-A5Z8-01A-11D-A28G-10	44923	133041425	13322597	42	46048										
ABCA2	20	hgsc.bcm.edu;bcgsc.ca	37	chr9	139907277	139907277	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	atctggggcgggtgcccgccCacactgctggggcaggagaa	17	12	1	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr9:139907277C>G	ENST00000371605.3	-	30	5112	c.4965G>C	c.(4963-4965)gtG>gtC	p.V1655V	ABCA2_ENST00000265662.5_Silent_p.V1656V|ABCA2_ENST00000341511.6_Silent_p.V1656V			Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 2	1655					ATP catabolic process (GO:0006200)|cholesterol homeostasis (GO:0042632)|lipid metabolic process (GO:0006629)|regulation of intracellular cholesterol transport (GO:0032383)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|response to drug (GO:0042493)|response to steroid hormone (GO:0048545)|transmembrane transport (GO:0055085)|transport (GO:0006810)	ATP-binding cassette (ABC) transporter complex (GO:0043190)|cytoplasmic membrane-bounded vesicle (GO:0016023)|endosome (GO:0005768)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|lysosome (GO:0005764)|membrane (GO:0016020)|microtubule organizing center (GO:0005815)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|nucleotide binding (GO:0000166)			central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|liver(1)|lung(25)|prostate(2)|skin(1)|stomach(1)|urinary_tract(1)	41	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GGTGCCCGCCCACACTGCTGG	0.677																																																0													10	14	13					9																	139907277		1886	3995	5881	SO:0001819	synonymous_variant	20			U18235	CCDS43909.1	9q34	2012-03-14			ENSG00000107331	ENSG00000107331		"ATP binding cassette transporters / subfamily A"	32	protein-coding gene	gene with protein product		600047		ABC2		8088782	Standard	NM_212533		Approved		uc022bpy.1	Q9BZC7	OTTHUMG00000020958	ENST00000371605.3:c.4965G>C	9.37:g.139907277C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NED5|Q5SPY5|Q5W9G5|Q76MW7|Q9HC28	Silent	SNP	ENST00000371605.3	37		.	.	.	.	.	.	.	.	.	.	C	9.881	1.201473	0.22121	.	.	ENSG00000107331	ENST00000477420	.	.	.	4.15	3.22	0.36961	.	.	.	.	.	T	0.48150	0.1484	.	.	.	0.80722	D	1	.	.	.	.	.	.	T	0.43798	-0.9369	4	.	.	.	.	4.4915	0.11815	0.1537:0.609:0.1497:0.0876	.	.	.	.	R	68	.	.	G	-	1	0	ABCA2	139027098	0.859000	0.29813	1.000000	0.80357	0.989000	0.77384	-0.084000	0.11268	2.142000	0.66516	0.491000	0.48974	GGG		0.677	ABCA2-202	KNOWN	basic	protein_coding	protein_coding		NM_001606		G	139907277	C	G	139907277	2	3	701	1	0	0	0	0	0	0	0	1	32	581	21	4		4	ABCA2	9	139907277	Silent	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10		139907277	1306154	43	46049										
ANK3	288	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	61833342	61833342	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	cttcaatgttttataagagtCatcagatatgagttgagcag	9	5	3	4			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr10:61833342C>A	ENST00000280772.2	-	37	7488	c.7297G>T	c.(7297-7299)Gac>Tac	p.D2433Y	ANK3_ENST00000503366.1_Intron|ANK3_ENST00000373827.2_Intron|ANK3_ENST00000355288.2_Intron	NM_020987.3	NP_066267.2	Q12955	ANK3_HUMAN	ankyrin 3, node of Ranvier (ankyrin G)	2433					axon guidance (GO:0007411)|axonogenesis (GO:0007409)|cytoskeletal anchoring at plasma membrane (GO:0007016)|establishment of protein localization (GO:0045184)|Golgi to plasma membrane protein transport (GO:0043001)|maintenance of protein location in plasma membrane (GO:0072660)|membrane assembly (GO:0071709)|mitotic cytokinesis (GO:0000281)|neuromuscular junction development (GO:0007528)|neuronal action potential (GO:0019228)|plasma membrane organization (GO:0007009)|positive regulation of cell communication by electrical coupling (GO:0010650)|positive regulation of gene expression (GO:0010628)|positive regulation of homotypic cell-cell adhesion (GO:0034112)|positive regulation of membrane depolarization during cardiac muscle cell action potential (GO:1900827)|positive regulation of membrane potential (GO:0045838)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|positive regulation of sodium ion transport (GO:0010765)|protein localization to plasma membrane (GO:0072659)|protein targeting to plasma membrane (GO:0072661)|regulation of potassium ion transport (GO:0043266)|signal transduction (GO:0007165)	axon initial segment (GO:0043194)|basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|costamere (GO:0043034)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|intercalated disc (GO:0014704)|lateral plasma membrane (GO:0016328)|lysosome (GO:0005764)|neuromuscular junction (GO:0031594)|node of Ranvier (GO:0033268)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|sarcoplasmic reticulum (GO:0016529)|spectrin-associated cytoskeleton (GO:0014731)|T-tubule (GO:0030315)|Z disc (GO:0030018)	cadherin binding (GO:0045296)|cytoskeletal protein binding (GO:0008092)|ion channel binding (GO:0044325)|protein binding, bridging (GO:0030674)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)			NS(4)|breast(7)|central_nervous_system(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(5)|kidney(14)|large_intestine(30)|liver(2)|lung(59)|ovary(8)|pancreas(2)|prostate(5)|skin(26)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(7)	196						TTATAAGAGTCATCAGATATG	0.418																																																0													79	80	80					10																	61833342		2203	4300	6503	SO:0001583	missense	288			U13616	CCDS7258.1, CCDS7259.1, CCDS55711.1, CCDS55712.1	10q21	2013-01-10			ENSG00000151150	ENSG00000151150		"Ankyrin repeat domain containing"	494	protein-coding gene	gene with protein product	"ankyrin-3, node of Ranvier", "ankyrin-G"	600465				7665168	Standard	NM_020987		Approved		uc001jky.3	Q12955	OTTHUMG00000018288	ENST00000280772.2:c.7297G>T	10.37:g.61833342C>A	ENSP00000280772:p.Asp2433Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B1AQT2|B4DIL1|E9PE32|Q13484|Q5CZH9|Q5VXD5|Q7Z3G4|Q9H0P5	Missense_Mutation	SNP	ENST00000280772.2	37	CCDS7258.1	.	.	.	.	.	.	.	.	.	.	C	17.39	3.377882	0.61735	.	.	ENSG00000151150	ENST00000280772	T	0.70986	-0.53	5.8	5.8	0.92144	.	0.000000	0.44688	D	0.000436	T	0.81894	0.4919	L	0.53249	1.67	0.80722	D	1	D	0.89917	1.0	D	0.67231	0.95	T	0.82252	-0.0549	10	0.72032	D	0.01	.	20.0591	0.97667	0.0:1.0:0.0:0.0	.	2433	Q12955	ANK3_HUMAN	Y	2433	ENSP00000280772:D2433Y	ENSP00000280772:D2433Y	D	-	1	0	ANK3	61503348	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.810000	0.86072	2.747000	0.94245	0.462000	0.41574	GAC		0.418	ANK3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048201.4	NM_020987		A	61833342	C	A	61833342	3	1	701	1	0	0	0	0	1	0	0	0	622	826	29	4	6177	4	ANK3	10	61833342	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10		61833342	73701405	44	46050										
ZMYND17	118490	broad.mit.edu;bcgsc.ca	37	chr10	75185982	75185982	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ccgggtctggccttggccgtCctacactggcccataaggtg	13	14	1	0			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr10:75185982C>T	ENST00000372912.1	-	4	658	c.656G>A	c.(655-657)gGa>gAa	p.G219E	MSS51_ENST00000299432.2_Missense_Mutation_p.G219E|AL353731.1_ENST00000584907.1_RNA			Q4VC12	MSS51_HUMAN	MSS51 mitochondrial translational activator	219					social behavior (GO:0035176)		metal ion binding (GO:0046872)										CCTTGGCCGTCCTACACTGGC	0.552																																																0													77	73	74					10																	75185982		2203	4300	6503	SO:0001583	missense	118490			AK096884	CCDS31221.1	10q22.3	2013-01-10	2013-01-10	2012-02-24	ENSG00000166343	ENSG00000166343		"Zinc fingers, MYND-type"	21000	protein-coding gene	gene with protein product		614773	"zinc finger, MYND-type containing 17", "MSS51 mitochondrial translational activator homolog (S. cerevisiae)"	ZMYND17		19710419	Standard	NM_001024593		Approved	FLJ39565	uc001jud.3	Q4VC12	OTTHUMG00000018464	ENST00000372912.1:c.656G>A	10.37:g.75185982C>T	ENSP00000362003:p.Gly219Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A6NGH6|Q2VP95|Q5F2H5|Q7Z3M9|Q8N8G0	Missense_Mutation	SNP	ENST00000372912.1	37	CCDS31221.1	.	.	.	.	.	.	.	.	.	.	C	25.4	4.639367	0.87760	.	.	ENSG00000166343	ENST00000299432;ENST00000372912	T;T	0.47177	0.85;0.85	5.21	5.21	0.72293	.	0.293286	0.37136	N	0.002233	T	0.47116	0.1428	L	0.58101	1.795	0.49051	D	0.999742	P	0.46706	0.883	B	0.41571	0.36	T	0.45760	-0.9239	9	.	.	.	-0.2459	16.3115	0.82873	0.0:1.0:0.0:0.0	.	219	Q4VC12	ZMY17_HUMAN	E	219	ENSP00000299432:G219E;ENSP00000362003:G219E	.	G	-	2	0	ZMYND17	74855988	0.981000	0.34729	0.304000	0.25085	0.948000	0.59901	2.946000	0.49050	2.708000	0.92522	0.585000	0.79938	GGA		0.552	MSS51-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048652.3	NM_178451		T	75185982	C	T	75185982	3	4	701	1	0	0	0	0	1	0	0	0	17721	855	30	2	738	2	ZMYND17	10	75185982	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	13352640	75185982	60348765	45	46051										
ENTPD7	57089	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	101421214	101421214	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	taatttcaggatcagtttttCctacctctgcccagcctcct	5	14	3	0			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr10:101421214C>A	ENST00000370489.4	+	3	198	c.20C>A	c.(19-21)tCc>tAc	p.S7Y		NM_020354.3	NP_065087.1	Q9NQZ7	ENTP7_HUMAN	ectonucleoside triphosphate diphosphohydrolase 7	7						cytoplasmic vesicle (GO:0031410)|integral component of membrane (GO:0016021)	hydrolase activity (GO:0016787)|metal ion binding (GO:0046872)			breast(1)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(6)|ovary(1)|prostate(2)|urinary_tract(1)	18		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.75e-08)		ATCAGTTTTTCCTACCTCTGC	0.428																																																0													133	125	128					10																	101421214		2203	4300	6503	SO:0001583	missense	57089			AF269255	CCDS7480.1	10q23-q24	2004-07-01			ENSG00000198018	ENSG00000198018			19745	protein-coding gene	gene with protein product						11278936	Standard	NM_020354		Approved	LALP1, FLJ30978	uc001kqa.4	Q9NQZ7	OTTHUMG00000018888	ENST00000370489.4:c.20C>A	10.37:g.101421214C>A	ENSP00000359520:p.Ser7Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	B2RB83|B3KP21|D3DR64	Missense_Mutation	SNP	ENST00000370489.4	37	CCDS7480.1	.	.	.	.	.	.	.	.	.	.	C	21.1	4.094777	0.76870	.	.	ENSG00000198018	ENST00000370489	T	0.17691	2.26	5.67	5.67	0.87782	.	0.127291	0.53938	D	0.000047	T	0.21631	0.0521	L	0.32530	0.975	0.48040	D	0.999575	P	0.49696	0.927	P	0.47251	0.542	T	0.00348	-1.1799	10	0.54805	T	0.06	-18.4355	18.5275	0.90978	0.0:1.0:0.0:0.0	.	7	Q9NQZ7	ENTP7_HUMAN	Y	7	ENSP00000359520:S7Y	ENSP00000359520:S7Y	S	+	2	0	ENTPD7	101411204	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	4.312000	0.59154	2.664000	0.90586	0.555000	0.69702	TCC		0.428	ENTPD7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049809.2	NM_020354		A	101421214	C	A	101421214	3	1	701	1	0	0	0	0	1	0	0	0	5146	855	30	4	26	4	ENTPD7	10	101421214	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	26235232	101421214	34113533	46	46052										
DNMBP	23268	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	101715503	101715503	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ttaaagtccatgattgaaaaGtggcgtaaaattttatctgg	9	4	1	2			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr10:101715503G>T	ENST00000324109.4	-	4	1819	c.1728C>A	c.(1726-1728)caC>caA	p.H576Q	DNMBP-AS1_ENST00000434409.1_RNA|DNMBP_ENST00000342239.3_Missense_Mutation_p.H576Q	NM_015221.2	NP_056036.1	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	576					intracellular signal transduction (GO:0035556)	cell junction (GO:0030054)|cytoskeleton (GO:0005856)|Golgi apparatus (GO:0005794)|synapse (GO:0045202)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			central_nervous_system(1)|cervix(4)|endometrium(9)|large_intestine(14)|lung(19)|ovary(5)|prostate(1)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)	61		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		TGATTGAAAAGTGGCGTAAAA	0.507																																																0													53	57	56					10																	101715503		2203	4300	6503	SO:0001583	missense	23268			AL833283	CCDS7485.1	10q24.31	2012-07-24			ENSG00000107554	ENSG00000107554		"Rho guanine nucleotide exchange factors"	30373	protein-coding gene	gene with protein product	"scaffold protein TUBA"	611282				10231032, 14506234	Standard	NM_015221		Approved	KIAA1010, Tuba, ARHGEF36	uc001kqj.2	Q6XZF7	OTTHUMG00000018897	ENST00000324109.4:c.1728C>A	10.37:g.101715503G>T	ENSP00000315659:p.His576Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IVY3|Q9Y2L3	Missense_Mutation	SNP	ENST00000324109.4	37	CCDS7485.1	.	.	.	.	.	.	.	.	.	.	G	15.85	2.953459	0.53293	.	.	ENSG00000107554	ENST00000342239;ENST00000324109	T;T	0.16897	2.35;2.31	6.04	1.56	0.23342	.	0.248667	0.28647	N	0.014613	T	0.14960	0.0361	M	0.71581	2.175	0.80722	D	1	P	0.43477	0.808	B	0.39419	0.299	T	0.16364	-1.0405	10	0.13108	T	0.6	-7.645	6.0919	0.19999	0.3777:0.1336:0.4887:0.0	.	576	Q6XZF7	DNMBP_HUMAN	Q	576	ENSP00000344914:H576Q;ENSP00000315659:H576Q	ENSP00000315659:H576Q	H	-	3	2	DNMBP	101705493	0.999000	0.42202	1.000000	0.80357	0.974000	0.67602	0.487000	0.22356	0.365000	0.24400	0.561000	0.74099	CAC		0.507	DNMBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049832.2	NM_015221		T	101715503	G	T	101715503	3	4	701	1	0	0	0	0	1	0	0	0	4676	1020	36	4	3061	4	DNMBP	10	101715503	Missense_Mutation	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	294289	101715503	33819244	47	46053										
CYP17A1	1586	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	104590667	104590667	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ggatctcacctatacaggagCgaggtcctgctccgaagggc	13	12	1	0			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr10:104590667C>T	ENST00000369887.3	-	8	1490	c.1319G>A	c.(1318-1320)cGc>cAc	p.R440H	CYP17A1-AS1_ENST00000369884.4_RNA|CYP17A1_ENST00000489268.1_5'Flank	NM_000102.3	NP_000093.1	P05093	CP17A_HUMAN	cytochrome P450, family 17, subfamily A, polypeptide 1	440			R -> H (in AH5). {ECO:0000269|PubMed:8027220}.		adrenal gland development (GO:0030325)|androgen biosynthetic process (GO:0006702)|biphenyl metabolic process (GO:0018879)|cellular response to antibiotic (GO:0071236)|cellular response to gonadotropin stimulus (GO:0071371)|cellular response to lipopolysaccharide (GO:0071222)|dibenzo-p-dioxin metabolic process (GO:0018894)|glucocorticoid biosynthetic process (GO:0006704)|hippocampus development (GO:0021766)|hormone biosynthetic process (GO:0042446)|Leydig cell differentiation (GO:0033327)|ovulation (GO:0030728)|phenol-containing compound metabolic process (GO:0018958)|phthalate metabolic process (GO:0018963)|positive regulation of steroid hormone biosynthetic process (GO:0090031)|progesterone metabolic process (GO:0042448)|response to acetate (GO:0010034)|response to cAMP (GO:0051591)|response to cytokine (GO:0034097)|response to drug (GO:0042493)|response to fungicide (GO:0060992)|response to herbicide (GO:0009635)|response to insecticide (GO:0017085)|response to ionizing radiation (GO:0010212)|response to methylmercury (GO:0051597)|response to nutrient levels (GO:0031667)|response to retinoic acid (GO:0032526)|response to steroid hormone (GO:0048545)|sex differentiation (GO:0007548)|small molecule metabolic process (GO:0044281)|steroid biosynthetic process (GO:0006694)|steroid metabolic process (GO:0008202)|sterol metabolic process (GO:0016125)|xenobiotic metabolic process (GO:0006805)	axon (GO:0030424)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|mitochondrion (GO:0005739)|neuronal cell body (GO:0043025)	17-alpha-hydroxyprogesterone aldolase activity (GO:0047442)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|oxygen binding (GO:0019825)|steroid 17-alpha-monooxygenase activity (GO:0004508)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(2)|lung(8)|ovary(1)|upper_aerodigestive_tract(2)	18		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)	Abiraterone(DB05812)|Aminophenazone(DB01424)|Dexamethasone(DB01234)|Metoclopramide(DB01233)|Progesterone(DB00396)	TATACAGGAGCGAGGTCCTGC	0.597																																																0			GRCh37	CM940326	CYP17A1	M							34	28	30					10																	104590667		2203	4299	6502	SO:0001583	missense	1586			M19489	CCDS7541.1	10q24.3	2010-05-04	2003-02-14	2003-02-28	ENSG00000148795	ENSG00000148795	1.14.99.9	"Cytochrome P450s"	2593	protein-coding gene	gene with protein product	"Steroid 17-alpha-monooxygenase"	609300	"cytochrome P450, subfamily XVII (steroid 17-alpha-hydroxylase), adrenal hyperplasia"	CYP17		1347802	Standard	NM_000102		Approved	P450C17, CPT7, S17AH	uc001kwg.3	P05093	OTTHUMG00000018969	ENST00000369887.3:c.1319G>A	10.37:g.104590667C>T	ENSP00000358903:p.Arg440His	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TZV7	Missense_Mutation	SNP	ENST00000369887.3	37	CCDS7541.1	.	.	.	.	.	.	.	.	.	.	C	35	5.529855	0.96446	.	.	ENSG00000148795	ENST00000369887	D	0.92805	-3.11	5.62	5.62	0.85841	Cytochrome P450, conserved site (1);	0.000000	0.85682	D	0.000000	D	0.97195	0.9083	M	0.92784	3.345	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	D	0.97779	1.0231	10	0.87932	D	0	.	19.259	0.93959	0.0:1.0:0.0:0.0	.	440	P05093	CP17A_HUMAN	H	440	ENSP00000358903:R440H	ENSP00000358903:R440H	R	-	2	0	CYP17A1	104580657	1.000000	0.71417	0.996000	0.52242	0.970000	0.65996	7.281000	0.78621	2.650000	0.89964	0.555000	0.69702	CGC		0.597	CYP17A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050101.1	NM_000102		T	104590667	C	T	104590667	3	4	701	1	0	0	0	0	1	0	0	0	4149	768	27	1	211	1	CYP17A1	10	104590667	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	2875164	104590667	30944080	48	46054										
CYP17A1	1586	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	104592776	104592776	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	attgtgcagcaggaaggccaGggtccatttaaccacagagg	13	9	0	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr10:104592776G>T	ENST00000369887.3	-	5	1114	c.943C>A	c.(943-945)Ctg>Atg	p.L315M	CYP17A1-AS1_ENST00000369884.4_RNA|CYP17A1_ENST00000489268.1_5'Flank	NM_000102.3	NP_000093.1	P05093	CP17A_HUMAN	cytochrome P450, family 17, subfamily A, polypeptide 1	315					adrenal gland development (GO:0030325)|androgen biosynthetic process (GO:0006702)|biphenyl metabolic process (GO:0018879)|cellular response to antibiotic (GO:0071236)|cellular response to gonadotropin stimulus (GO:0071371)|cellular response to lipopolysaccharide (GO:0071222)|dibenzo-p-dioxin metabolic process (GO:0018894)|glucocorticoid biosynthetic process (GO:0006704)|hippocampus development (GO:0021766)|hormone biosynthetic process (GO:0042446)|Leydig cell differentiation (GO:0033327)|ovulation (GO:0030728)|phenol-containing compound metabolic process (GO:0018958)|phthalate metabolic process (GO:0018963)|positive regulation of steroid hormone biosynthetic process (GO:0090031)|progesterone metabolic process (GO:0042448)|response to acetate (GO:0010034)|response to cAMP (GO:0051591)|response to cytokine (GO:0034097)|response to drug (GO:0042493)|response to fungicide (GO:0060992)|response to herbicide (GO:0009635)|response to insecticide (GO:0017085)|response to ionizing radiation (GO:0010212)|response to methylmercury (GO:0051597)|response to nutrient levels (GO:0031667)|response to retinoic acid (GO:0032526)|response to steroid hormone (GO:0048545)|sex differentiation (GO:0007548)|small molecule metabolic process (GO:0044281)|steroid biosynthetic process (GO:0006694)|steroid metabolic process (GO:0008202)|sterol metabolic process (GO:0016125)|xenobiotic metabolic process (GO:0006805)	axon (GO:0030424)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|mitochondrion (GO:0005739)|neuronal cell body (GO:0043025)	17-alpha-hydroxyprogesterone aldolase activity (GO:0047442)|heme binding (GO:0020037)|iron ion binding (GO:0005506)|oxygen binding (GO:0019825)|steroid 17-alpha-monooxygenase activity (GO:0004508)			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(2)|lung(8)|ovary(1)|upper_aerodigestive_tract(2)	18		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)	Abiraterone(DB05812)|Aminophenazone(DB01424)|Dexamethasone(DB01234)|Metoclopramide(DB01233)|Progesterone(DB00396)	AGGAAGGCCAGGGTCCATTTA	0.547																																																0													130	106	114					10																	104592776		2203	4300	6503	SO:0001583	missense	1586			M19489	CCDS7541.1	10q24.3	2010-05-04	2003-02-14	2003-02-28	ENSG00000148795	ENSG00000148795	1.14.99.9	"Cytochrome P450s"	2593	protein-coding gene	gene with protein product	"Steroid 17-alpha-monooxygenase"	609300	"cytochrome P450, subfamily XVII (steroid 17-alpha-hydroxylase), adrenal hyperplasia"	CYP17		1347802	Standard	NM_000102		Approved	P450C17, CPT7, S17AH	uc001kwg.3	P05093	OTTHUMG00000018969	ENST00000369887.3:c.943C>A	10.37:g.104592776G>T	ENSP00000358903:p.Leu315Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TZV7	Missense_Mutation	SNP	ENST00000369887.3	37	CCDS7541.1	.	.	.	.	.	.	.	.	.	.	G	9.265	1.044304	0.19748	.	.	ENSG00000148795	ENST00000369887	D	0.82711	-1.64	5.74	-0.0757	0.13725	.	0.546667	0.20030	N	0.100723	T	0.73644	0.3613	N	0.26162	0.8	0.19775	N	0.999952	B	0.30605	0.287	B	0.39935	0.314	T	0.66101	-0.6007	10	0.62326	D	0.03	.	7.1648	0.25685	0.0:0.5142:0.2368:0.249	.	315	P05093	CP17A_HUMAN	M	315	ENSP00000358903:L315M	ENSP00000358903:L315M	L	-	1	2	CYP17A1	104582766	0.001000	0.12720	0.133000	0.22050	0.195000	0.23768	-0.097000	0.11042	0.072000	0.16694	-0.228000	0.12330	CTG		0.547	CYP17A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050101.1	NM_000102		T	104592776	G	T	104592776	3	4	701	1	0	0	0	0	1	0	0	0	4149	991	35	4	599	4	CYP17A1	10	104592776	Missense_Mutation	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	2109	104592776	30941971	49	46055										
GRK5	2869	broad.mit.edu;ucsc.edu	37	chr10	121212789	121212789	+	Splice_Site	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	agagactcttcaagcggcagGtgagacacccatgcctggcc	12	13	2	2			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr10:121212789G>A	ENST00000392870.2	+	15	2003		c.e15+1		GRK5_ENST00000369108.3_Splice_Site	NM_005308.2	NP_005299.1	P34947	GRK5_HUMAN	G protein-coupled receptor kinase 5						adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|apoptotic process (GO:0006915)|negative regulation of apoptotic process (GO:0043066)|protein autophosphorylation (GO:0046777)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|tachykinin receptor signaling pathway (GO:0007217)|termination of G-protein coupled receptor signaling pathway (GO:0038032)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|G-protein coupled receptor kinase activity (GO:0004703)|phospholipid binding (GO:0005543)|protein kinase C binding (GO:0005080)|protein serine/threonine kinase activity (GO:0004674)			endometrium(2)|large_intestine(5)|lung(15)|skin(3)|stomach(1)|urinary_tract(1)	27		Lung NSC(174;0.0971)|all_lung(145;0.127)|Ovarian(717;0.249)		all cancers(201;0.0227)		CAAGCGGCAGGTGAGACACCC	0.587																																																0													64	66	65					10																	121212789		2203	4300	6503	SO:0001630	splice_region_variant	2869			L15388	CCDS7612.1	10q26.11	2013-09-19	2004-02-04	2004-02-06	ENSG00000198873	ENSG00000198873			4544	protein-coding gene	gene with protein product		600870		GPRK5		7685906	Standard	NM_005308		Approved		uc001led.3	P34947	OTTHUMG00000019149	ENST00000392870.2:c.1674+1G>A	10.37:g.121212789G>A		Somatic		WXS	Illumina HiSeq	Phase_I	D3DRD0|Q5T059	Splice_Site	SNP	ENST00000392870.2	37	CCDS7612.1	.	.	.	.	.	.	.	.	.	.	G	19.48	3.835668	0.71373	.	.	ENSG00000198873	ENST00000392870;ENST00000457057;ENST00000369108	.	.	.	4.67	4.67	0.58626	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	17.5825	0.87972	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	GRK5	121202779	1.000000	0.71417	1.000000	0.80357	0.721000	0.41392	9.793000	0.99091	2.162000	0.67917	0.655000	0.94253	.		0.587	GRK5-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050652.2	NM_005308	Intron	A	121212789	G	A	121212789	5	1	701	1	0	0	0	0	0	0	1	0	6799	1275	44	2	1733	2	GRK5	10	121212789	Splice_Site	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	16620013	121212789	14321958	50	46056										
NLRP6	171389	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	284253	284253	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	gtcccactgcaaactccctgAcgcggtctgccgagaccttt	9	16	1	2	rs150530901		TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr11:284253A>G	ENST00000312165.5	+	6	2225	c.2225A>G	c.(2224-2226)gAc>gGc	p.D742G	NLRP6_ENST00000534750.1_Missense_Mutation_p.D741G	NM_138329.1	NP_612202.2	P59044	NALP6_HUMAN	NLR family, pyrin domain containing 6	742					G-protein coupled receptor signaling pathway (GO:0007186)|negative regulation of I-kappaB kinase/NF-kappaB signaling (GO:0043124)|negative regulation of immune response (GO:0050777)|negative regulation of MAPK cascade (GO:0043409)|negative regulation of toll-like receptor signaling pathway (GO:0034122)|regulation of inflammatory response (GO:0050727)|response to bacterium (GO:0009617)|wound healing (GO:0042060)	cytoplasm (GO:0005737)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|vasopressin receptor activity (GO:0005000)			breast(1)|skin(1)|upper_aerodigestive_tract(2)	4		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;4.28e-28)|Epithelial(43;2.47e-27)|OV - Ovarian serous cystadenocarcinoma(40;4.66e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.0485)|LUSC - Lung squamous cell carcinoma(625;0.122)		AAACTCCCTGACGCGGTCTGC	0.627																																																0								A	GLY/ASP	1,4405	2.1+/-5.4	0,1,2202	43	42	42		2225	1.4	0	11	dbSNP_134	42	0,8600		0,0,4300	no	missense	NLRP6	NM_138329.1	94	0,1,6502	GG,GA,AA		0.0,0.0227,0.0077	benign	742/893	284253	1,13005	2203	4300	6503	SO:0001583	missense	171389			AF479748	CCDS7693.1, CCDS60680.1	11p15	2006-12-08	2006-12-08	2006-12-08	ENSG00000174885	ENSG00000174885		"Nucleotide-binding domain and leucine rich repeat containing"	22944	protein-coding gene	gene with protein product	"nucleotide-binding oligomerization domain, leucine rich repeat and pyrin domain containing 6"	609650	"NACHT, leucine rich repeat and PYD containing 6"	NALP6		12563287, 12019269	Standard	NM_138329		Approved	PYPAF5, PAN3, CLR11.4	uc010qvs.3	P59044	OTTHUMG00000119070	ENST00000312165.5:c.2225A>G	11.37:g.284253A>G	ENSP00000309767:p.Asp742Gly	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9F3|E9PJZ8	Missense_Mutation	SNP	ENST00000312165.5	37	CCDS7693.1	.	.	.	.	.	.	.	.	.	.	A	3.343	-0.134159	0.06711	2.27E-4	0.0	ENSG00000174885	ENST00000534750;ENST00000312165	T;T	0.57273	0.41;0.41	2.61	1.44	0.22558	.	0.174398	0.23650	U	0.045934	T	0.59018	0.2163	L	0.58354	1.805	0.09310	N	1	D;D	0.63880	0.972;0.993	P;D	0.72338	0.689;0.977	T	0.48222	-0.9054	10	0.19590	T	0.45	.	5.8126	0.18475	0.7241:0.2759:0.0:0.0	.	741;742	E9PJZ8;P59044	.;NALP6_HUMAN	G	741;742	ENSP00000433617:D741G;ENSP00000309767:D742G	ENSP00000309767:D742G	D	+	2	0	NLRP6	274253	0.000000	0.05858	0.013000	0.15412	0.149000	0.21700	0.094000	0.15107	0.419000	0.25927	0.374000	0.22700	GAC		0.627	NLRP6-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000239283.1	NM_138329		G	284253	A	G	284253	3	3	701	1	0	0	0	0	1	0	0	0	10488	275	10	3	2247	3	NLRP6	11	284253	Missense_Mutation	SNP	A	TCGA-PJ-A5Z8-01A-11D-A28G-10		284253	134722263	51	46057										
CTSD	1509	hgsc.bcm.edu	37	chr11	1785082	1785082	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	cgagcggcagaaggctggagGgctgcatggcggcggcggcc	21	11	0	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr11:1785082G>A	ENST00000236671.2	-	1	140	c.8C>T	c.(7-9)cCc>cTc	p.P3L	AC068580.5_ENST00000446489.1_RNA|AC068580.6_ENST00000449248.1_RNA|AC068580.1_ENST00000580120.1_RNA	NM_001909.4	NP_001900.1	P07339	CATD_HUMAN	cathepsin D	3					antigen processing and presentation of exogenous peptide antigen via MHC class II (GO:0019886)|autophagic vacuole assembly (GO:0000045)|cell death (GO:0008219)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	extracellular region (GO:0005576)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|lysosomal lumen (GO:0043202)|lysosome (GO:0005764)|mitochondrion (GO:0005739)	aspartic-type endopeptidase activity (GO:0004190)			endometrium(1)|large_intestine(4)|lung(8)	13		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)	"""Insulin(DB00071)|Insulin Regular(DB00030)"	AAGGCTGGAGGGCTGCATGGC	0.736																																																0																																										SO:0001583	missense	1509			M11233	CCDS7725.1	11p15.5	2009-06-26	2006-12-05		ENSG00000117984	ENSG00000117984	3.4.23.5	"Cathepsins"	2529	protein-coding gene	gene with protein product	"ceroid-lipofuscinosis, neuronal 10"	116840	"cathepsin D (lysosomal aspartyl protease)"	CPSD		3927292	Standard	NM_001909		Approved	CLN10	uc001luc.2	P07339	OTTHUMG00000044760	ENST00000236671.2:c.8C>T	11.37:g.1785082G>A	ENSP00000236671:p.Pro3Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IB57	Missense_Mutation	SNP	ENST00000236671.2	37	CCDS7725.1	.	.	.	.	.	.	.	.	.	.	g	8.700	0.909609	0.17833	.	.	ENSG00000117984	ENST00000236671	T	0.52295	0.67	3.51	1.34	0.21922	.	3.791350	0.01307	N	0.010510	T	0.26231	0.0640	N	0.08118	0	0.09310	N	0.999999	B	0.02656	0.0	B	0.04013	0.001	T	0.19289	-1.0310	10	0.12103	T	0.63	.	4.9541	0.14031	0.122:0.0:0.6694:0.2087	.	3	P07339	CATD_HUMAN	L	3	ENSP00000236671:P3L	ENSP00000236671:P3L	P	-	2	0	CTSD	1741658	0.001000	0.12720	0.258000	0.24420	0.029000	0.11900	0.135000	0.15952	0.769000	0.33313	0.549000	0.68633	CCC		0.736	CTSD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000104272.5	NM_001909		A	1785082	G	A	1785082	3	1	701	1	0	0	0	0	1	0	0	0	4034	1232	43	2	1266	2	CTSD	11	1785082	Missense_Mutation	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	1500829	1785082	133221434	52	46058										
NUP98	4928	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr11	3789956	3789956	+	Frame_Shift_Del	DEL	G	G	-													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	caaagagaccacctggatttGttccaaatccagttgtacct							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr11:3789956delG	ENST00000324932.7	-	8	1223	c.803delC	c.(802-804)acafs	p.T268fs	NUP98_ENST00000397007.4_Frame_Shift_Del_p.T268fs|NUP98_ENST00000397004.4_Frame_Shift_Del_p.T268fs|NUP98_ENST00000355260.3_Frame_Shift_Del_p.T268fs|NUP98_ENST00000359171.4_Frame_Shift_Del_p.T268fs	NM_016320.4|NM_139132.3	NP_057404.2|NP_624358.2	P52948	NUP98_HUMAN	nucleoporin 98kDa	268	FG repeats 2.|Gly/Thr-rich.				carbohydrate metabolic process (GO:0005975)|cytokine-mediated signaling pathway (GO:0019221)|DNA replication (GO:0006260)|glucose transport (GO:0015758)|hexose transport (GO:0008645)|mitotic cell cycle (GO:0000278)|mitotic nuclear envelope disassembly (GO:0007077)|mRNA transport (GO:0051028)|nuclear pore complex assembly (GO:0051292)|nuclear pore organization (GO:0006999)|nucleocytoplasmic transport (GO:0006913)|protein import into nucleus, docking (GO:0000059)|regulation of glucose transport (GO:0010827)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|viral process (GO:0016032)	cytosol (GO:0005829)|nuclear envelope (GO:0005635)|nuclear inclusion body (GO:0042405)|nuclear membrane (GO:0031965)|nuclear periphery (GO:0034399)|nuclear pore (GO:0005643)|nuclear pore nuclear basket (GO:0044615)|nuclear pore outer ring (GO:0031080)|nucleoplasm (GO:0005654)	peptide binding (GO:0042277)|structural constituent of nuclear pore (GO:0017056)|transporter activity (GO:0005215)			NS(1)|autonomic_ganglia(1)|breast(8)|central_nervous_system(1)|endometrium(5)|kidney(5)|large_intestine(13)|liver(1)|lung(15)|ovary(2)|prostate(2)|skin(9)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	66		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		ACCTGGATTTGTTCCAAATCC	0.378			T	"HOXA9, NSD1, WHSC1L1, DDX10, TOP1, HOXD13, PMX1, HOXA13, HOXD11, HOXA11, RAP1GDS1, HOXC11"	AML																																		Dom	yes		11	11p15	4928	nucleoporin 98kDa		L	0													121	116	118					11																	3789956		2201	4298	6499	SO:0001589	frameshift_variant	4928			AF071076, AF231130, BC012906, BG773331	CCDS7746.1, CCDS31347.1, CCDS41605.1, CCDS41606.1	11p15	2008-02-26	2002-08-29		ENSG00000110713	ENSG00000110713			8068	protein-coding gene	gene with protein product		601021	"nucleoporin 98kD"			9166830	Standard	NM_139131		Approved	NUP96	uc001lyh.3	P52948	OTTHUMG00000011846	ENST00000324932.7:c.803delC	11.37:g.3789956delG	ENSP00000316032:p.Thr268fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IUT2|Q8WYB0|Q96E54|Q9H3Q4|Q9NT02|Q9UF57|Q9UHX0|Q9Y6J4|Q9Y6J5	Frame_Shift_Del	DEL	ENST00000324932.7	37	CCDS7746.1																																																																																				0.378	NUP98-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032766.3	NM_016320		-	3789956	G	-	3789956	7	5	701	1	0	1	0	1	0	0	0	0	10780	1377	48	0	4775	0	NUP98	11	3789956	Frame_Shift_Del	DEL	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	2004874	3789956	131216560	53	46059										
MRGPRX4	117196	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	18195097	18195097	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	catctcatccgcaaaatcctCgtttctgtgatgacctttcc	5	14	2	2	rs267602809		TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr11:18195097C>T	ENST00000314254.3	+	1	714	c.294C>T	c.(292-294)ctC>ctT	p.L98L	RP11-113D6.6_ENST00000527671.1_Intron	NM_054032.3	NP_473373.2	Q96LA9	MRGX4_HUMAN	MAS-related GPR, member X4	98						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(18)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	32						GCAAAATCCTCGTTTCTGTGA	0.527																																																0													129	103	112					11																	18195097		2199	4293	6492	SO:0001819	synonymous_variant	117196			AY042216	CCDS7831.1	11p15.1	2013-10-10			ENSG00000179817	ENSG00000179817		"GPCR / Class A : Orphans"	17617	protein-coding gene	gene with protein product		607230				11551509	Standard	NM_054032		Approved	MRGX4	uc001mnv.1	Q96LA9	OTTHUMG00000166442	ENST00000314254.3:c.294C>T	11.37:g.18195097C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q3KNU3|Q3KNU4|Q502W0|Q8TDD6|Q8TDD7	Silent	SNP	ENST00000314254.3	37	CCDS7831.1																																																																																				0.527	MRGPRX4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389788.1	NM_054032		T	18195097	C	T	18195097	2	4	701	1	0	0	0	0	0	0	0	1	9776	871	31	1		1	MRGPRX4	11	18195097	Silent	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	14405141	18195097	116811419	54	46060										
LGALS12	85329	broad.mit.edu;bcgsc.ca	37	chr11	63283171	63283171	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	cccccttcctcttttaccccCagagattctttgaggtaggt	7	14	2	2			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr11:63283171C>A	ENST00000394618.3	+	8	1141	c.850C>A	c.(850-852)Cag>Aag	p.Q284K	LGALS12_ENST00000415491.2_Missense_Mutation_p.Q223K|LGALS12_ENST00000255684.5_Missense_Mutation_p.Q275K|LGALS12_ENST00000425950.2_Missense_Mutation_p.Q214K|LGALS12_ENST00000340246.5_Missense_Mutation_p.Q285K	NM_001142535.1|NM_033101.3	NP_001136007.1|NP_149092.2	Q96DT0	LEG12_HUMAN	lectin, galactoside-binding, soluble, 12	284	Galectin 2. {ECO:0000255|PROSITE- ProRule:PRU00639}.				intrinsic apoptotic signaling pathway (GO:0097193)	nucleus (GO:0005634)	lactose binding (GO:0030395)			breast(1)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(5)|ovary(2)|upper_aerodigestive_tract(1)	16						CTTTTACCCCCAGAGATTCTT	0.552																																																0													48	49	49					11																	63283171		2201	4298	6499	SO:0001583	missense	85329			AF222695	CCDS8045.1, CCDS44633.1, CCDS44634.1, CCDS44635.1, CCDS53648.1	11q13	2011-08-04	2008-07-25		ENSG00000133317	ENSG00000133317		"Lectins, galactoside-binding"	15788	protein-coding gene	gene with protein product	"galectin 12"	606096				11283015, 11435439	Standard	NM_033101		Approved	GRIP1	uc001nxc.2	Q96DT0	OTTHUMG00000167807	ENST00000394618.3:c.850C>A	11.37:g.63283171C>A	ENSP00000378116:p.Gln284Lys	Somatic		WXS	Illumina HiSeq	Phase_I	B2R9N2|G5E970|Q96DS9|Q96PR9|Q9H258|Q9H259|Q9NZ02	Missense_Mutation	SNP	ENST00000394618.3	37	CCDS8045.1	.	.	.	.	.	.	.	.	.	.	C	14.09	2.432768	0.43224	.	.	ENSG00000133317	ENST00000255684;ENST00000394618;ENST00000340246;ENST00000415491;ENST00000425950	T;T;T;T;T	0.16457	2.34;2.34;2.34;2.34;2.34	5.78	5.78	0.91487	Concanavalin A-like lectin/glucanase (1);Galectin, carbohydrate recognition domain (3);Concanavalin A-like lectin/glucanase, subgroup (1);	0.106561	0.42172	D	0.000760	T	0.21145	0.0509	L	0.57536	1.79	0.31596	N	0.653297	B;B;B;B	0.18166	0.026;0.021;0.01;0.026	B;B;B;B	0.18561	0.022;0.011;0.004;0.015	T	0.05289	-1.0894	10	0.46703	T	0.11	-21.8306	15.5052	0.75731	0.0:1.0:0.0:0.0	.	244;285;275;284	Q9NZ03;G5E970;Q96DT0-3;Q96DT0	.;.;.;LEG12_HUMAN	K	275;284;285;223;214	ENSP00000255684:Q275K;ENSP00000378116:Q284K;ENSP00000339374:Q285K;ENSP00000394659:Q223K;ENSP00000399093:Q214K	ENSP00000255684:Q275K	Q	+	1	0	LGALS12	63039747	0.797000	0.28877	0.998000	0.56505	0.952000	0.60782	1.250000	0.32850	2.739000	0.93911	0.561000	0.74099	CAG		0.552	LGALS12-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000396378.1	NM_033101		A	63283171	C	A	63283171	3	1	701	1	0	0	0	0	1	0	0	0	8746	595	21	4	883	4	LGALS12	11	63283171	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	45088074	63283171	71723345	55	46061										
LRP5	4041	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	68181318	68181318	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tccagggccacctggacttcGtgatggacatcctggtgttc	12	12	0	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr11:68181318G>T	ENST00000294304.7	+	12	2771	c.2665G>T	c.(2665-2667)Gtg>Ttg	p.V889L		NM_002335.2	NP_002326.2	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein 5	889	Beta-propeller 3.				adipose tissue development (GO:0060612)|anatomical structure regression (GO:0060033)|anterior/posterior pattern specification (GO:0009952)|apoptotic process involved in patterning of blood vessels (GO:1902262)|bone marrow development (GO:0048539)|bone morphogenesis (GO:0060349)|bone remodeling (GO:0046849)|branching involved in mammary gland duct morphogenesis (GO:0060444)|canonical Wnt signaling pathway (GO:0060070)|cell migration involved in gastrulation (GO:0042074)|cell-cell signaling involved in mammary gland development (GO:0060764)|cholesterol homeostasis (GO:0042632)|cholesterol metabolic process (GO:0008203)|embryonic camera-type eye morphogenesis (GO:0048596)|embryonic digit morphogenesis (GO:0042733)|embryonic limb morphogenesis (GO:0030326)|embryonic retina morphogenesis in camera-type eye (GO:0060059)|endocytosis (GO:0006897)|extracellular matrix-cell signaling (GO:0035426)|gastrulation with mouth forming second (GO:0001702)|glucose catabolic process (GO:0006007)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of protein serine/threonine kinase activity (GO:0071901)|osteoblast development (GO:0002076)|positive regulation of cell proliferation (GO:0008284)|positive regulation of fat cell differentiation (GO:0045600)|positive regulation of mesenchymal cell proliferation (GO:0002053)|positive regulation of mitosis (GO:0045840)|positive regulation of osteoblast proliferation (GO:0033690)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of apoptotic process (GO:0042981)|regulation of blood pressure (GO:0008217)|regulation of bone remodeling (GO:0046850)|regulation of canonical Wnt signaling pathway (GO:0060828)|regulation of insulin secretion involved in cellular response to glucose stimulus (GO:0061178)|response to peptide hormone (GO:0043434)|retina morphogenesis in camera-type eye (GO:0060042)|retinal blood vessel morphogenesis (GO:0061304)|somatic stem cell maintenance (GO:0035019)|Wnt signaling pathway (GO:0016055)|Wnt signaling pathway involved in dorsal/ventral axis specification (GO:0044332)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|mitochondrion (GO:0005739)|plasma membrane (GO:0005886)|receptor complex (GO:0043235)	coreceptor activity (GO:0015026)|Wnt-activated receptor activity (GO:0042813)|Wnt-protein binding (GO:0017147)			autonomic_ganglia(1)|breast(3)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|lung(24)|ovary(5)|pancreas(1)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	63						CCTGGACTTCGTGATGGACAT	0.592																																																0													87	76	79					11																	68181318		2200	4294	6494	SO:0001583	missense	4041			AF064548	CCDS8181.1	11q13.4	2014-01-28	2003-03-12		ENSG00000162337	ENSG00000162337		"Low density lipoprotein receptors"	6697	protein-coding gene	gene with protein product		603506	"osteoporosis pseudoglioma syndrome", "exudative vitreoretinopathy 1"	LRP7, OPPG, EVR1		9714764, 10049586	Standard	XM_005273994		Approved	LR3, BMND1, HBM, OPS, OPTA1, VBCH2, EVR4	uc001ont.3	O75197	OTTHUMG00000167570	ENST00000294304.7:c.2665G>T	11.37:g.68181318G>T	ENSP00000294304:p.Val889Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q96TD6|Q9UES7|Q9UP66	Missense_Mutation	SNP	ENST00000294304.7	37	CCDS8181.1	.	.	.	.	.	.	.	.	.	.	G	26.1	4.708228	0.89018	.	.	ENSG00000162337	ENST00000294304	D	0.91407	-2.84	5.02	5.02	0.67125	Six-bladed beta-propeller, TolB-like (1);	0.000000	0.43579	U	0.000546	D	0.88815	0.6539	N	0.25957	0.775	0.58432	D	0.999999	P;P	0.39759	0.687;0.687	P;P	0.48368	0.575;0.575	D	0.86093	0.1551	10	0.21540	T	0.41	.	18.5313	0.90993	0.0:0.0:1.0:0.0	.	889;889	Q9UES7;O75197	.;LRP5_HUMAN	L	889	ENSP00000294304:V889L	ENSP00000294304:V889L	V	+	1	0	LRP5	67937894	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	3.610000	0.54125	2.601000	0.87937	0.561000	0.74099	GTG		0.592	LRP5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000395088.1	NM_002335		T	68181318	G	T	68181318	3	4	701	1	0	0	0	0	1	0	0	0	8967	1145	40	4	2711	4	LRP5	11	68181318	Missense_Mutation	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	4898147	68181318	66825198	56	46062										
VWF	7450	ucsc.edu;bcgsc.ca	37	chr12	6090996	6090996	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ggtacagccacagtcattggTggcagttgaggccaagtacc	13	10	1	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr12:6090996T>G	ENST00000261405.5	-	42	7497	c.7243A>C	c.(7243-7245)Acc>Ccc	p.T2415P		NM_000552.3	NP_000543	P04275	VWF_HUMAN	von Willebrand factor	2415					blood coagulation (GO:0007596)|blood coagulation, intrinsic pathway (GO:0007597)|cell adhesion (GO:0007155)|cell-substrate adhesion (GO:0031589)|extracellular matrix organization (GO:0030198)|hemostasis (GO:0007599)|liver development (GO:0001889)|placenta development (GO:0001890)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|protein homooligomerization (GO:0051260)|response to wounding (GO:0009611)	endoplasmic reticulum (GO:0005783)|external side of plasma membrane (GO:0009897)|extracellular matrix (GO:0031012)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|platelet alpha granule (GO:0031091)|platelet alpha granule lumen (GO:0031093)|proteinaceous extracellular matrix (GO:0005578)|Weibel-Palade body (GO:0033093)	chaperone binding (GO:0051087)|collagen binding (GO:0005518)|glycoprotein binding (GO:0001948)|identical protein binding (GO:0042802)|immunoglobulin binding (GO:0019865)|integrin binding (GO:0005178)|protease binding (GO:0002020)|protein homodimerization activity (GO:0042803)|protein N-terminus binding (GO:0047485)			NS(1)|breast(6)|central_nervous_system(5)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(25)|lung(41)|ovary(7)|pancreas(2)|prostate(6)|skin(15)|stomach(1)|upper_aerodigestive_tract(5)	129					Antihemophilic Factor(DB00025)	CAGTCATTGGTGGCAGTTGAG	0.488																																																0													138	111	120					12																	6090996		2203	4300	6503	SO:0001583	missense	7450				CCDS8539.1	12p13.3	2014-09-17			ENSG00000110799	ENSG00000110799		"Endogenous ligands"	12726	protein-coding gene	gene with protein product		613160		F8VWF		2251280	Standard	NM_000552		Approved		uc001qnn.1	P04275	OTTHUMG00000168265	ENST00000261405.5:c.7243A>C	12.37:g.6090996T>G	ENSP00000261405:p.Thr2415Pro	Somatic		WXS	Illumina HiSeq		Q8TCE8|Q99806	Missense_Mutation	SNP	ENST00000261405.5	37	CCDS8539.1	.	.	.	.	.	.	.	.	.	.	T	20.2	3.955414	0.73902	.	.	ENSG00000110799	ENST00000261405	T	0.37411	1.2	5.51	5.51	0.81932	.	0.000000	0.42053	D	0.000776	T	0.62122	0.2402	M	0.83012	2.62	0.80722	D	1	D	0.89917	1.0	D	0.71870	0.975	T	0.65504	-0.6152	10	0.45353	T	0.12	.	14.81	0.69989	0.0:0.0:0.0:1.0	.	2415	P04275	VWF_HUMAN	P	2415	ENSP00000261405:T2415P	ENSP00000261405:T2415P	T	-	1	0	VWF	5961257	1.000000	0.71417	0.972000	0.41901	0.834000	0.47266	5.313000	0.65798	2.088000	0.63022	0.454000	0.30748	ACC		0.488	VWF-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399020.1	NM_000552		G	6090996	T	G	6090996	3	3	701	1	0	0	0	0	1	0	0	0	17258	1696	59	5	1242	5	VWF	12	6090996	Missense_Mutation	SNP	T	TCGA-PJ-A5Z8-01A-11D-A28G-10		6090996	127760899	57	46063										
DNAJC14	85406	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	56217194	56217194	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tctccaacttacatctcataCtcctttcgcttttcagcatt	2	14	3	0	rs541345798		TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr12:56217194C>G	ENST00000357606.3	-	4	1795	c.1506G>C	c.(1504-1506)gaG>gaC	p.E502D	RP11-762I7.5_ENST00000552719.1_5'Flank|RP11-762I7.5_ENST00000546837.1_Missense_Mutation_p.V132L|DNAJC14_ENST00000317269.3_Missense_Mutation_p.E502D|DNAJC14_ENST00000317287.5_Missense_Mutation_p.E502D			Q6Y2X3	DJC14_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 14	502	J. {ECO:0000255|PROSITE- ProRule:PRU00286}.				protein transport (GO:0015031)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|membrane (GO:0016020)				breast(2)|kidney(1)|large_intestine(8)|lung(7)|ovary(3)|prostate(1)|skin(1)	23						ACATCTCATACTCCTTTCGCT	0.463																																																0													95	84	87					12																	56217194		2203	4300	6503	SO:0001583	missense	85406			AF141342	CCDS8894.1	12q12	2011-09-02				ENSG00000135392		"Heat shock proteins / DNAJ (HSP40)"	24581	protein-coding gene	gene with protein product		606092				11331877, 11984006	Standard	NM_032364		Approved	DNAJ, DRIP78, HDJ3, LIP6, FLJ32792	uc001shu.2	Q6Y2X3		ENST00000357606.3:c.1506G>C	12.37:g.56217194C>G	ENSP00000350223:p.Glu502Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A5YM67|Q17RY2|Q66K17|Q96N59|Q96T63	Missense_Mutation	SNP	ENST00000357606.3	37	CCDS8894.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	17.64|17.64	3.439259|3.439259	0.63067|0.63067	.|.	.|.	ENSG00000135392|ENSG00000257390	ENST00000357606;ENST00000317269;ENST00000537962;ENST00000317287|ENST00000546837	T;T;T|.	0.32023|.	1.47;1.47;1.47|.	5.85|5.85	4.7|4.7	0.59300|0.59300	Heat shock protein DnaJ, N-terminal (3);|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.45657|0.45657	0.1353|0.1353	L|L	0.35542|0.35542	1.07|1.07	0.49483|0.49483	D|D	0.999795|0.999795	B;B|.	0.29766|.	0.256;0.256|.	P;P|.	0.50231|.	0.635;0.635|.	T|T	0.33240|0.33240	-0.9876|-0.9876	10|5	0.42905|.	T|.	0.14|.	-16.2803|-16.2803	7.9219|7.9219	0.29850|0.29850	0.0:0.1589:0.0:0.8411|0.0:0.1589:0.0:0.8411	.|.	502;502|.	Q6Y2X3;A8K5A7|.	DJC14_HUMAN;.|.	D|L	502;502;212;502|132	ENSP00000350223:E502D;ENSP00000316240:E502D;ENSP00000317500:E502D|.	ENSP00000316240:E502D|.	E|V	-|-	3|1	2|0	DNAJC14|RP11-762I7.5	54503461|54503461	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.986000|0.986000	0.74619|0.74619	2.807000|2.807000	0.47955|0.47955	1.141000|1.141000	0.42275|0.42275	-0.294000|-0.294000	0.09567|0.09567	GAG|GTA		0.463	DNAJC14-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000409095.1	NM_032364		G	56217194	C	G	56217194	3	3	701	1	0	0	0	0	1	0	0	0	4635	564	20	4	622	4	DNAJC14	12	56217194	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	50126198	56217194	77634701	58	46064										
RDH16	8608	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	57346721	57346721	+	Frame_Shift_Del	DEL	A	A	-													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tactggtcacagcagtcttgAaatagccaggttcaatcata							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr12:57346721delA	ENST00000398138.3	-	3	1482	c.626delT	c.(625-627)ttcfs	p.F209fs	RDH16_ENST00000360752.4_5'UTR	NM_003708.3	NP_003699.3	O75452	RDH16_HUMAN	retinol dehydrogenase 16 (all-trans)	209					lipid metabolic process (GO:0006629)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|intracellular membrane-bounded organelle (GO:0043231)	electron carrier activity (GO:0009055)|retinol dehydrogenase activity (GO:0004745)			haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(9)	16						AGCAGTCTTGAAATAGCCAGG	0.507																																					GBM(179;741 2921 43105 45298)											0													128	124	125					12																	57346721		1873	4112	5985	SO:0001589	frameshift_variant	8608				CCDS41797.1	12q13.3	2011-09-14	2006-05-09			ENSG00000139547		"Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 2"	29674	protein-coding gene	gene with protein product	"microsomal NAD+ dependent retinol dehydrogenase 4", "short chain dehydrogenase/reductase family 9C, member 8"		"retinol dehydrogenase 16 (all-trans and 13-cis)"			9677409, 10329026, 19027726	Standard	NM_003708		Approved	RODH-4, SDR9C8	uc001smi.4	O75452		ENST00000398138.3:c.626delT	12.37:g.57346721delA	ENSP00000381206:p.Phe209fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q9UNV2	Frame_Shift_Del	DEL	ENST00000398138.3	37	CCDS41797.1																																																																																				0.507	RDH16-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000410898.1	NM_003708		-	57346721	A	-	57346721	7	5	701	1	0	1	0	1	0	0	0	0	13207	246	9	0	335	0	RDH16	12	57346721	Frame_Shift_Del	DEL	A	TCGA-PJ-A5Z8-01A-11D-A28G-10	1129527	57346721	76505174	59	46065										
MON2	23041	hgsc.bcm.edu;broad.mit.edu	37	chr12	62954348	62954349	+	Frame_Shift_Ins	INS	-	-	T													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	caaaaacaatgaagtatctcINStggctgctctgaaaagcttc							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr12:62954348_62954349insT	ENST00000393632.2	+	26	3878_3879	c.3487_3488insT	c.(3487-3489)ctgfs	p.L1163fs	MON2_ENST00000552738.1_Frame_Shift_Ins_p.L1140fs|MON2_ENST00000393630.3_Frame_Shift_Ins_p.L1164fs|MON2_ENST00000546600.1_Frame_Shift_Ins_p.L1163fs|MON2_ENST00000393629.2_Frame_Shift_Ins_p.L1163fs|MON2_ENST00000280379.6_Frame_Shift_Ins_p.L1164fs	NM_015026.2	NP_055841.2	Q7Z3U7	MON2_HUMAN	MON2 homolog (S. cerevisiae)	1163					actin cytoskeleton organization (GO:0030036)|Golgi to endosome transport (GO:0006895)|positive regulation of GTPase activity (GO:0043547)|protein transport (GO:0015031)|vesicle-mediated transport (GO:0016192)	extracellular vesicular exosome (GO:0070062)|trans-Golgi network (GO:0005802)	ARF guanyl-nucleotide exchange factor activity (GO:0005086)			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(5)|kidney(3)|large_intestine(15)|lung(21)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	57			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		TGAAGTATCTCTGGCTGCTCTG	0.411																																																0																																										SO:0001589	frameshift_variant	23041				CCDS31849.1, CCDS61175.1, CCDS61177.1, CCDS61178.1	12q14.1	2014-08-12	2006-04-04		ENSG00000061987	ENSG00000061987			29177	protein-coding gene	gene with protein product			"MON2 homolog (yeast)"			16301316, 24285343	Standard	NM_015026		Approved	KIAA1040	uc001sre.3	Q7Z3U7	OTTHUMG00000169992	ENST00000393632.2:c.3488dupT	12.37:g.62954349_62954349dupT	ENSP00000377252:p.Leu1163fs	Somatic		WXS	Illumina HiSeq	Phase_I	A5D8U7|A7E2Y0|B9EGP5|F8VWA6|F8W1Z6|Q86TA2|Q8N3I5|Q8NAI0|Q8NHE2|Q9UPW1	Frame_Shift_Ins	INS	ENST00000393632.2	37	CCDS31849.1																																																																																				0.411	MON2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000406767.3	NM_015026		T	62954349	-	T	62954348	7	5	701	1	0	1	1	0	0	0	0	0	9707	912	32	0	3589	0	MON2	12	62954348	Frame_Shift_Ins	INS	-	TCGA-PJ-A5Z8-01A-11D-A28G-10	5607627	62954348	70897547	60	46066										
DDX54	79039	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	113610195	113610195	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	agtttgcccttggcggggaaGctgtagttgatgacattgtc	14	7	0	2			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr12:113610195G>A	ENST00000306014.5	-	11	1269	c.1242C>T	c.(1240-1242)agC>agT	p.S414S	DDX54_ENST00000314045.7_Silent_p.S414S	NM_024072.3	NP_076977.3	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	414	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				ATP catabolic process (GO:0006200)|intracellular estrogen receptor signaling pathway (GO:0030520)|regulation of transcription, DNA-templated (GO:0006355)|RNA metabolic process (GO:0016070)|RNA processing (GO:0006396)|transcription, DNA-templated (GO:0006351)	membrane (GO:0016020)|nucleolus (GO:0005730)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent RNA helicase activity (GO:0004004)|estrogen receptor binding (GO:0030331)|poly(A) RNA binding (GO:0044822)|receptor binding (GO:0005102)|transcription corepressor activity (GO:0003714)			breast(1)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(8)|lung(8)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	31						TGGCGGGGAAGCTGTAGTTGA	0.637																																																0													82	67	72					12																	113610195		2203	4300	6503	SO:0001819	synonymous_variant	79039			AF144056	CCDS31907.1, CCDS44984.1	12q24.11	2006-01-30				ENSG00000123064		"DEAD-boxes"	20084	protein-coding gene	gene with protein product		611665				12466272	Standard	NM_001111322		Approved	MGC2835, APR-5, DP97	uc001tuq.4	Q8TDD1	OTTHUMG00000169676	ENST00000306014.5:c.1242C>T	12.37:g.113610195G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q86YT8|Q9BRZ1	Silent	SNP	ENST00000306014.5	37	CCDS31907.1																																																																																				0.637	DDX54-002	KNOWN	NAGNAG_splice_site|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000405435.1	NM_024072		A	113610195	G	A	113610195	2	1	701	1	0	0	0	0	0	0	0	1	4374	962	34	2		2	DDX54	12	113610195	Silent	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	50655847	113610195	20241700	61	46067										
RIMBP2	23504	broad.mit.edu	37	chr12	130926698	130926698	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	cgtccttgcccaccagcagcGtgcactgcagctcatccgag	10	17	1	0			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr12:130926698G>A	ENST00000261655.4	-	8	1311	c.1148C>T	c.(1147-1149)aCg>aTg	p.T383M	RIMBP2_ENST00000535703.1_Missense_Mutation_p.T291M|RIMBP2_ENST00000536002.1_Missense_Mutation_p.T291M	NM_015347.4	NP_056162.4	O15034	RIMB2_HUMAN	RIMS binding protein 2	383	Fibronectin type-III 1. {ECO:0000255|PROSITE-ProRule:PRU00316}.				negative regulation of phosphatase activity (GO:0010923)	cell junction (GO:0030054)|plasma membrane (GO:0005886)|synapse (GO:0045202)		p.T383M(1)		NS(2)|breast(1)|central_nervous_system(5)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(23)|lung(33)|ovary(3)|pancreas(1)|prostate(3)|skin(6)|upper_aerodigestive_tract(5)|urinary_tract(1)	96	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)		CACCAGCAGCGTGCACTGCAG	0.637																																																1	Substitution - Missense(1)	kidney(1)											114	102	106					12																	130926698		2203	4300	6503	SO:0001583	missense	23504			AB002316	CCDS31925.1	12q24.33	2014-06-13				ENSG00000060709			30339	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 133"	611602				10748113	Standard	NM_015347		Approved	KIAA0318, RBP2, MGC15831, RIM-BP2, PPP1R133	uc001uil.2	O15034		ENST00000261655.4:c.1148C>T	12.37:g.130926698G>A	ENSP00000261655:p.Thr383Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q96ID2	Missense_Mutation	SNP	ENST00000261655.4	37	CCDS31925.1	.	.	.	.	.	.	.	.	.	.	g	17.47	3.398389	0.62177	.	.	ENSG00000060709	ENST00000261655;ENST00000392375;ENST00000535703;ENST00000536002	T;T;T	0.55052	0.54;0.54;0.54	4.23	4.23	0.50019	Fibronectin, type III (2);	0.000000	0.85682	D	0.000000	T	0.74680	0.3748	M	0.83953	2.67	0.58432	D	0.999996	D;D;D	0.89917	0.999;1.0;1.0	P;D;D	0.83275	0.826;0.972;0.996	T	0.80491	-0.1359	10	0.72032	D	0.01	-24.31	16.6129	0.84899	0.0:0.0:1.0:0.0	.	291;291;383	C9JWN3;O15034-2;O15034	.;.;RIMB2_HUMAN	M	383;291;291;291	ENSP00000261655:T383M;ENSP00000440347:T291M;ENSP00000439159:T291M	ENSP00000261655:T383M	T	-	2	0	RIMBP2	129492651	1.000000	0.71417	1.000000	0.80357	0.631000	0.37964	4.555000	0.60767	1.867000	0.54127	0.537000	0.68136	ACG		0.637	RIMBP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000399520.1	NM_015347		A	130926698	G	A	130926698	3	1	701	1	0	0	0	0	1	0	0	0	13376	1145	40	1	2058	1	RIMBP2	12	130926698	Missense_Mutation	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	17316503	130926698	2925197	62	46068										
C14orf106	55320	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	45693181	45693181	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	cctgaattaaaccaggtaagCattctaagggatgcctattt	8	8	1	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr14:45693181C>T	ENST00000310806.4	-	11	3067	c.2609G>A	c.(2608-2610)tGc>tAc	p.C870Y		NM_018353.4	NP_060823.3	Q6P0N0	M18BP_HUMAN	MIS18 binding protein 1	870					CENP-A containing nucleosome assembly (GO:0034080)|mitotic nuclear division (GO:0007067)|nucleosome assembly (GO:0006334)	chromosome, centromeric region (GO:0000775)|nucleoplasm (GO:0005654)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)			NS(1)|breast(2)|cervix(1)|endometrium(2)|kidney(3)|large_intestine(10)|liver(1)|lung(13)|ovary(2)|pancreas(1)|prostate(1)|skin(2)	39						ACCAGGTAAGCATTCTAAGGG	0.388																																																0													95	90	91					14																	45693181		2203	4300	6503	SO:0001583	missense	55320			AB067490	CCDS9684.1	14q21.1	2011-06-03	2011-02-23	2011-02-23	ENSG00000129534	ENSG00000129534			20190	protein-coding gene	gene with protein product	"kinetochore null 2 homolog (C. elegans)"		"chromosome 14 open reading frame 106"	C14orf106		17339379, 17199038	Standard	NM_018353		Approved	M18BP1, FLJ11186, KIAA1903, KNL2	uc001wwf.3	Q6P0N0	OTTHUMG00000140266	ENST00000310806.4:c.2609G>A	14.37:g.45693181C>T	ENSP00000309790:p.Cys870Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DSA7|Q86V14|Q96PY4|Q9NUR5|Q9Y4X9	Missense_Mutation	SNP	ENST00000310806.4	37	CCDS9684.1	.	.	.	.	.	.	.	.	.	.	C	0.005	-2.229082	0.00280	.	.	ENSG00000129534	ENST00000310806	T	0.17691	2.26	5.72	2.87	0.33458	Homeodomain-like (1);	0.719999	0.14355	N	0.324833	T	0.12220	0.0297	L	0.57536	1.79	0.09310	N	1	P	0.51351	0.944	B	0.40165	0.321	T	0.10590	-1.0623	10	0.02654	T	1	0.5125	5.2769	0.15655	0.162:0.665:0.0:0.173	.	870	Q6P0N0	M18BP_HUMAN	Y	870	ENSP00000309790:C870Y	ENSP00000309790:C870Y	C	-	2	0	MIS18BP1	44762931	0.000000	0.05858	0.007000	0.13788	0.137000	0.21094	0.035000	0.13797	0.413000	0.25759	0.655000	0.94253	TGC		0.388	MIS18BP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276795.2			T	45693181	C	T	45693181	3	4	701	1	0	0	0	0	1	0	0	0	1740	710	25	2	817	2	C14orf106	14	45693181	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10		45693181	61656359	63	46069										
ZBTB1	22890	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	64989255	64989256	+	Frame_Shift_Ins	INS	-	-	T													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	actgaaagactttaacattaINSttaaagttactgataaagac							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr14:64989255_64989256insT	ENST00000554015.1	+	4	1464_1465	c.1033_1034insT	c.(1033-1035)attfs	p.I345fs	RP11-973N13.4_ENST00000554918.1_RNA|ZBTB1_ENST00000394712.2_Frame_Shift_Ins_p.I345fs|ZBTB1_ENST00000358738.3_Frame_Shift_Ins_p.I345fs			Q9Y2K1	ZBTB1_HUMAN	zinc finger and BTB domain containing 1	345					B cell differentiation (GO:0030183)|innate immune response (GO:0045087)|mRNA transcription from RNA polymerase II promoter (GO:0042789)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of natural killer cell differentiation (GO:0032825)|positive regulation of pro-T cell differentiation (GO:2000176)|positive regulation of T cell differentiation (GO:0045582)|positive regulation of T cell mediated immunity (GO:0002711)|protein homooligomerization (GO:0051260)|T cell differentiation in thymus (GO:0033077)|thymus development (GO:0048538)	nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)			kidney(1)|large_intestine(3)|lung(7)|prostate(1)|skin(1)	13		all_lung(585;0.000567)|Myeloproliferative disorder(585;0.0255)|all_neural(303;0.0294)		UCEC - Uterine corpus endometrioid carcinoma (185;0.0182)|all cancers(60;3.78e-43)|OV - Ovarian serous cystadenocarcinoma(108;1.22e-20)|BRCA - Breast invasive adenocarcinoma(234;6.75e-06)|KIRC - Kidney renal clear cell carcinoma(182;0.00269)|STAD - Stomach adenocarcinoma(64;0.012)		CTTTAACATTATTAAAGTTACT	0.347																																																0																																										SO:0001589	frameshift_variant	22890			AB023214	CCDS32097.1, CCDS45126.1	14q23.3	2013-01-09			ENSG00000126804	ENSG00000126804		"-", "BTB/POZ domain containing", "Zinc fingers, C2H2-type"	20259	protein-coding gene	gene with protein product						10231032	Standard	NM_014950		Approved	KIAA0997, ZNF909	uc010aqg.3	Q9Y2K1		ENST00000554015.1:c.1035dupT	14.37:g.64989257_64989257dupT	ENSP00000451000:p.Ile345fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K6S8|Q86SW8	Frame_Shift_Ins	INS	ENST00000554015.1	37	CCDS45126.1																																																																																				0.347	ZBTB1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000411912.1			T	64989256	-	T	64989255	7	5	701	1	0	1	1	0	0	0	0	0	17534	449	16	0	1035	0	ZBTB1	14	64989255	Frame_Shift_Ins	INS	-	TCGA-PJ-A5Z8-01A-11D-A28G-10	19296074	64989255	42360285	64	46070										
MTA1	9112	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr14	105936238	105936239	+	Frame_Shift_Ins	INS	-	-	G													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	caccaaagtgcgcctgatccINSgggggggctccctgccccca							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr14:105936238_105936239insG	ENST00000331320.7	+	20	2120_2121	c.1906_1907insG	c.(1906-1908)cggfs	p.R636fs	MTA1_ENST00000435036.2_Frame_Shift_Ins_p.R176fs|MTA1_ENST00000406191.1_Frame_Shift_Ins_p.R624fs|RP11-521B24.5_ENST00000552675.1_RNA|MTA1_ENST00000405646.1_Frame_Shift_Ins_p.R619fs	NM_001203258.1|NM_004689.3	NP_001190187.1|NP_004680.2	Q13330	MTA1_HUMAN	metastasis associated 1	636					circadian regulation of gene expression (GO:0032922)|double-strand break repair (GO:0006302)|entrainment of circadian clock by photoperiod (GO:0043153)|locomotor rhythm (GO:0045475)|positive regulation of protein autoubiquitination (GO:1902499)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|regulation of gene expression, epigenetic (GO:0040029)|regulation of inflammatory response (GO:0050727)|response to ionizing radiation (GO:0010212)|response to lipopolysaccharide (GO:0032496)|secretory granule organization (GO:0033363)|signal transduction (GO:0007165)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|endoplasmic reticulum (GO:0005783)|intracellular membrane-bounded organelle (GO:0043231)|microtubule (GO:0005874)|nuclear envelope (GO:0005635)|nucleus (GO:0005634)|NuRD complex (GO:0016581)	chromatin binding (GO:0003682)|core promoter binding (GO:0001047)|core promoter sequence-specific DNA binding (GO:0001046)|RNA polymerase II repressing transcription factor binding (GO:0001103)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription corepressor activity (GO:0003714)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(1)|lung(5)|stomach(1)	14		all_cancers(154;0.0293)|all_epithelial(191;0.128)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.19)		GCGCCTGATCCGGGGGGGCTCC	0.663																																																0																																										SO:0001589	frameshift_variant	9112			U35113	CCDS32169.1, CCDS55954.1	14q32.33	2013-01-25			ENSG00000182979	ENSG00000182979		"GATA zinc finger domain containing"	7410	protein-coding gene	gene with protein product		603526				8083195, 7607577	Standard	NM_004689		Approved		uc001yqx.3	Q13330	OTTHUMG00000150362	ENST00000331320.7:c.1913dupG	14.37:g.105936245_105936245dupG	ENSP00000333633:p.Arg636fs	Somatic		WXS	Illumina HiSeq	Phase_I	A5PLK4|Q86SW2|Q8NFI8|Q96GI8	Frame_Shift_Ins	INS	ENST00000331320.7	37	CCDS32169.1																																																																																				0.663	MTA1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000317849.15			G	105936239	-	G	105936238	7	5	701	1	0	1	1	0	0	0	0	0	9915	643	23	0	1984	0	MTA1	14	105936238	Frame_Shift_Ins	INS	-	TCGA-PJ-A5Z8-01A-11D-A28G-10	40946983	105936238	1413302	65	46071										
STOML1	9399	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	74281093	74281093	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	agcaccgggtcccagatgcgAaactggacatcggctcccac	11	15	0	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr15:74281093A>G	ENST00000316900.5	-	4	565	c.441T>C	c.(439-441)ttT>ttC	p.F147F	STOML1_ENST00000359750.4_Silent_p.F147F|STOML1_ENST00000561656.1_Silent_p.F60F|STOML1_ENST00000541638.1_Silent_p.F105F|STOML1_ENST00000316911.6_Silent_p.F97F|STOML1_ENST00000564777.1_Silent_p.F97F	NM_001256672.1|NM_001256675.1|NM_001256677.1|NM_004809.4	NP_001243601.1|NP_001243604.1|NP_001243606.1|NP_004800.2	Q9UBI4	STML1_HUMAN	stomatin (EPB72)-like 1	147						integral component of membrane (GO:0016021)				endometrium(1)|large_intestine(1)|lung(4)|ovary(1)|skin(1)	8						CCCAGATGCGAAACTGGACAT	0.612																																																0													108	100	103					15																	74281093		2198	4297	6495	SO:0001819	synonymous_variant	9399			Y16522	CCDS10254.1, CCDS58381.1, CCDS58382.1, CCDS58383.1, CCDS58384.1, CCDS58385.1	15q24-q25	2008-07-18			ENSG00000067221	ENSG00000067221			14560	protein-coding gene	gene with protein product	"stomatin-like 1", "stomatin (EBP72)-like 1"	608326				9931417	Standard	NM_004809		Approved	hUNC-24, SLP-1, STORP, FLJ36370	uc002awe.4	Q9UBI4	OTTHUMG00000137608	ENST00000316900.5:c.441T>C	15.37:g.74281093A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KQN0|B4DUU5|B4DXM9|E7ESC0|H3BRP3|O95675|Q4PNR4|Q6FGL8|Q8WYI7|Q9UMB9|Q9UMC0|Q9Y6H9	Silent	SNP	ENST00000316900.5	37	CCDS10254.1																																																																																				0.612	STOML1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269022.1	NM_004809		G	74281093	A	G	74281093	2	3	701	1	0	0	0	0	0	0	0	1	15325	243	9	3		3	STOML1	15	74281093	Silent	SNP	A	TCGA-PJ-A5Z8-01A-11D-A28G-10		74281093	28250299	66	46072										
LMAN1L	79748	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	75111060	75111060	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	1	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	atgaacaaactgcccacaggGatggagctagccaagggctg	13	10	0	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr15:75111060G>T	ENST00000309664.5	+	5	638	c.499G>T	c.(499-501)Gat>Tat	p.D167Y	RP11-414J4.2_ENST00000564823.1_RNA|LMAN1L_ENST00000379709.3_Splice_Site_p.D167Y	NM_021819.2	NP_068591.2	Q9HAT1	LMA1L_HUMAN	lectin, mannose-binding, 1 like	167	L-type lectin-like. {ECO:0000255|PROSITE- ProRule:PRU00658}.					integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)			NS(2)|breast(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(8)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	19						TGCCCACAGGGATGGAGCTAG	0.577																																																0													38	32	34					15																	75111060		2197	4295	6492	SO:0001630	splice_region_variant	79748			AF303398	CCDS10270.1	15q24.1	2005-08-05			ENSG00000140506	ENSG00000140506			6632	protein-coding gene	gene with protein product		609548				11255007	Standard	NM_021819		Approved	ERGL, ERGIC-53L	uc002ayt.1	Q9HAT1	OTTHUMG00000142813	ENST00000309664.5:c.498-1G>T	15.37:g.75111060G>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UWN2	Missense_Mutation	SNP	ENST00000309664.5	37	CCDS10270.1	.	.	.	.	.	.	.	.	.	.	G	9.914	1.210396	0.22289	.	.	ENSG00000140506	ENST00000309664;ENST00000456603;ENST00000379709	T;T	0.69685	-0.42;-0.42	4.89	0.74	0.18330	Concanavalin A-like lectin/glucanase (1);Concanavalin A-like lectin/glucanase, subgroup (1);	0.786555	0.11191	N	0.589939	T	0.75752	0.3892	M	0.87456	2.885	0.53005	D	0.999961	B;D;B;B	0.59767	0.009;0.986;0.009;0.271	B;P;B;B	0.54100	0.018;0.742;0.018;0.121	T	0.71790	-0.4486	10	0.87932	D	0	.	5.9881	0.19446	0.1621:0.0:0.5719:0.266	.	59;167;95;167	B4DGW5;Q9HAT1-3;B4DU67;Q9HAT1	.;.;.;LMA1L_HUMAN	Y	167;59;167	ENSP00000310431:D167Y;ENSP00000369031:D167Y	ENSP00000310431:D167Y	D	+	1	0	LMAN1L	72898113	1.000000	0.71417	0.051000	0.19133	0.011000	0.07611	1.479000	0.35453	-0.273000	0.09246	-2.281000	0.00270	GAT		0.577	LMAN1L-001	KNOWN	upstream_ATG|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286397.4		Missense_Mutation	T	75111060	G	T	75111060	5	4	701	1	0	0	0	0	0	0	1	0	8844	1188	41	4	517	4	LMAN1L	15	75111060	Splice_Site	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	829967	75111060	27420332	67	46073										
ST8SIA2	8128	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	93007416	93007417	+	Missense_Mutation	DNP	TC	TC	AT													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	cacacgtttctgcaaacaaaTctacctctacggcttctggc							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr15:93007416_93007417TC>AT	ENST00000268164.3	+	6	1166_1167	c.929_930TC>AT	c.(928-930)aTC>aAT	p.I310N	ST8SIA2_ENST00000539113.1_Missense_Mutation_p.I289N	NM_006011.3	NP_006002.1	Q92186	SIA8B_HUMAN	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 2	310					axon guidance (GO:0007411)|carbohydrate metabolic process (GO:0005975)|cellular protein metabolic process (GO:0044267)|cellular protein modification process (GO:0006464)|ganglioside biosynthetic process (GO:0001574)|N-glycan processing (GO:0006491)|nervous system development (GO:0007399)|oligosaccharide metabolic process (GO:0009311)|post-translational protein modification (GO:0043687)|protein glycosylation (GO:0006486)|protein N-linked glycosylation via asparagine (GO:0018279)|sialylation (GO:0097503)	early endosome (GO:0005769)|Golgi membrane (GO:0000139)|integral component of Golgi membrane (GO:0030173)|recycling endosome (GO:0055037)	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity (GO:0003828)|sialic acid binding (GO:0033691)			endometrium(2)|large_intestine(6)|lung(9)|skin(2)|urinary_tract(1)	20	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0355)|OV - Ovarian serous cystadenocarcinoma(32;0.203)			TGCAAACAAATCTACCTCTACG	0.49																																																0																																										SO:0001583	missense	8128			U33551	CCDS10372.1	15q26	2013-03-01	2003-01-14	2005-02-07	ENSG00000140557	ENSG00000140557		"Sialyltransferases"	10870	protein-coding gene	gene with protein product		602546	"sialyltransferase 8 (alpha-2, 8-sialytransferase) B"	SIAT8B		7559389	Standard	NM_006011		Approved	STX, ST8SIA-II, HsT19690	uc002bra.3	Q92186	OTTHUMG00000149843	Exception_encountered	15.37:g.93007416_93007417delinsAT	ENSP00000268164:p.Ile310Asn	Somatic		WXS	Illumina HiSeq	Phase_I	Q4VAZ0|Q92470|Q92746	Missense_Mutation	DNP	ENST00000268164.3	37	CCDS10372.1																																																																																				0.49	ST8SIA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000313526.1	NM_006011		AT	93007417	TC	AT	93007416	3	1	701	1	0	0	0	0	1	0	0	0	15244	1435	50	5	951	5	ST8SIA2	15	93007416	Missense_Mutation	DNP	TC	TCGA-PJ-A5Z8-01A-11D-A28G-10	17896356	93007416	9523976	68	46074										
ARMC5	79798	broad.mit.edu	37	chr16	31471290	31471290	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	aaggggcgtgccggaccgaaGtgcgcagactcggaggcata	17	10	0	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr16:31471290G>T	ENST00000563544.1	+	2	991	c.445G>T	c.(445-447)Gtg>Ttg	p.V149L	ARMC5_ENST00000412665.2_5'UTR|ARMC5_ENST00000457010.2_Missense_Mutation_p.V149L|ARMC5_ENST00000268314.4_Missense_Mutation_p.V149L|ARMC5_ENST00000538189.1_Missense_Mutation_p.V181L|ARMC5_ENST00000408912.3_Missense_Mutation_p.V244L|RP11-452L6.5_ENST00000564629.1_RNA			Q96C12	ARMC5_HUMAN	armadillo repeat containing 5	149										central_nervous_system(1)|endometrium(4)|large_intestine(3)|liver(2)|lung(12)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	28						CCGGACCGAAGTGCGCAGACT	0.607																																																0													53	56	55					16																	31471290		2027	4186	6213	SO:0001583	missense	79798			AY217348	CCDS42155.1, CCDS45472.1, CCDS73874.1	16p11	2013-02-14			ENSG00000140691	ENSG00000140691		"Armadillo repeat containing"	25781	protein-coding gene	gene with protein product		615549					Standard	NM_024742		Approved	FLJ13063	uc002ecc.3	Q96C12	OTTHUMG00000176618	ENST00000563544.1:c.445G>T	16.37:g.31471290G>T	ENSP00000456877:p.Val149Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q86WM9|Q9H7P8|Q9H925	Missense_Mutation	SNP	ENST00000563544.1	37	CCDS45472.1	.	.	.	.	.	.	.	.	.	.	G	19.54	3.846415	0.71603	.	.	ENSG00000140691	ENST00000408912;ENST00000538189;ENST00000268314;ENST00000457010	T;T;T;T	0.58797	0.31;0.31;0.31;0.31	4.67	4.67	0.58626	Armadillo-like helical (1);Armadillo-type fold (1);	.	.	.	.	T	0.70859	0.3272	L	0.55481	1.735	0.80722	D	1	D;D;D;D;D	0.61697	0.986;0.986;0.986;0.986;0.99	P;P;P;P;D	0.73380	0.876;0.876;0.876;0.876;0.98	T	0.73132	-0.4079	9	0.62326	D	0.03	13.2405	15.0988	0.72256	0.0:0.0:1.0:0.0	.	181;181;244;149;149	B4DH27;F5H156;B4DIU9;Q96C12;Q96C12-4	.;.;.;ARMC5_HUMAN;.	L	244;181;149;149	ENSP00000386125:V244L;ENSP00000443995:V181L;ENSP00000268314:V149L;ENSP00000399561:V149L	ENSP00000268314:V149L	V	+	1	0	ARMC5	31378791	1.000000	0.71417	1.000000	0.80357	0.573000	0.36030	5.373000	0.66162	2.435000	0.82474	0.561000	0.74099	GTG		0.607	ARMC5-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000432847.1	NM_024742		T	31471290	G	T	31471290	3	4	701	1	0	0	0	0	1	0	0	0	954	1029	36	4	447	4	ARMC5	16	31471290	Missense_Mutation	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10		31471290	58883463	69	46075										
NKD1	85407	broad.mit.edu;bcgsc.ca	37	chr16	50583404	50583404	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ggatcgggagacagcgctgcCcgggcggtgtctcgggaccc	18	13	1	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr16:50583404C>T	ENST00000268459.3	+	3	354	c.130C>T	c.(130-132)Ccg>Tcg	p.P44S	NKD1_ENST00000564336.1_3'UTR|RP11-401P9.1_ENST00000569940.2_RNA	NM_033119.4	NP_149110.1	Q969G9	NKD1_HUMAN	naked cuticle homolog 1 (Drosophila)	44					eye photoreceptor cell differentiation (GO:0001754)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of convergent extension involved in axis elongation (GO:1901233)|positive regulation of non-canonical Wnt signaling pathway via JNK cascade (GO:1901231)|positive regulation of protein catabolic process (GO:0045732)|positive regulation of Wnt signaling pathway, planar cell polarity pathway (GO:2000096)|regulation of cell motility involved in somitogenic axis elongation (GO:0090249)|somatic muscle development (GO:0007525)|Wnt signaling pathway (GO:0016055)	cytoplasm (GO:0005737)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(5)|lung(9)|prostate(1)|urinary_tract(2)	23		all_cancers(37;0.229)		GBM - Glioblastoma multiforme(240;0.243)		ACAGCGCTGCCCGGGCGGTGT	0.692																																																0													25	27	26					16																	50583404		2196	4299	6495	SO:0001583	missense	85407			AF358135	CCDS10743.1	16q12.1	2013-01-10			ENSG00000140807	ENSG00000140807		"EF-hand domain containing"	17045	protein-coding gene	gene with protein product		607851				11356022	Standard	NM_033119		Approved		uc002egg.2	Q969G9	OTTHUMG00000133169	ENST00000268459.3:c.130C>T	16.37:g.50583404C>T	ENSP00000268459:p.Pro44Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B2RC39|Q8WZ08	Missense_Mutation	SNP	ENST00000268459.3	37	CCDS10743.1	.	.	.	.	.	.	.	.	.	.	C	14.53	2.563863	0.45694	.	.	ENSG00000140807	ENST00000268459	T	0.62232	0.04	4.39	2.38	0.29361	.	0.283128	0.35096	N	0.003445	T	0.45438	0.1342	L	0.51422	1.61	0.31422	N	0.674165	B	0.20052	0.041	B	0.20955	0.032	T	0.35051	-0.9804	10	0.07990	T	0.79	-5.5362	3.7264	0.08476	0.0:0.544:0.1991:0.2569	.	44	Q969G9	NKD1_HUMAN	S	44	ENSP00000268459:P44S	ENSP00000268459:P44S	P	+	1	0	NKD1	49140905	0.753000	0.28349	0.778000	0.31720	0.730000	0.41778	0.870000	0.28010	0.465000	0.27167	0.313000	0.20887	CCG		0.692	NKD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256873.1			T	50583404	C	T	50583404	3	4	701	1	0	0	0	0	1	0	0	0	10448	623	22	2	140	2	NKD1	16	50583404	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	19112114	50583404	39771349	70	46076										
MMP15	4324	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	58079023	58079023	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	gacttcatgggctgccaggaGcacgtggagccaggcccccg	15	14	1	0			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr16:58079023G>C	ENST00000219271.3	+	10	2468	c.1683G>C	c.(1681-1683)gaG>gaC	p.E561D		NM_002428.2	NP_002419.1	P51511	MMP15_HUMAN	matrix metallopeptidase 15 (membrane-inserted)	561					cellular protein modification process (GO:0006464)|collagen catabolic process (GO:0030574)|endodermal cell differentiation (GO:0035987)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|positive regulation of catalytic activity (GO:0043085)|response to estradiol (GO:0032355)	extracellular matrix (GO:0031012)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|enzyme activator activity (GO:0008047)|metalloendopeptidase activity (GO:0004222)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|endometrium(4)|large_intestine(4)|lung(3)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	18					Marimastat(DB00786)	GCTGCCAGGAGCACGTGGAGC	0.682																																																0													15	15	15					16																	58079023		2197	4298	6495	SO:0001583	missense	4324			Z48482	CCDS10792.1	16q13	2008-05-14	2005-08-08		ENSG00000102996	ENSG00000102996			7161	protein-coding gene	gene with protein product		602261	"matrix metalloproteinase 15 (membrane-inserted)"			9070935, 9119382	Standard	NM_002428		Approved	MT2-MMP, MTMMP2, SMCP-2	uc002ena.3	P51511	OTTHUMG00000133466	ENST00000219271.3:c.1683G>C	16.37:g.58079023G>C	ENSP00000219271:p.Glu561Asp	Somatic		WXS	Illumina HiSeq	Phase_I	A0A2U6|Q14111	Missense_Mutation	SNP	ENST00000219271.3	37	CCDS10792.1	.	.	.	.	.	.	.	.	.	.	G	10.32	1.316412	0.23908	.	.	ENSG00000102996	ENST00000219271	T	0.15952	2.38	4.5	1.48	0.22813	Hemopexin/matrixin (1);	0.444889	0.25380	N	0.031083	T	0.07324	0.0185	N	0.08118	0	0.36663	D	0.878058	P	0.49185	0.92	P	0.45232	0.474	T	0.41662	-0.9496	10	0.15952	T	0.53	.	3.3205	0.07048	0.2891:0.0:0.5282:0.1827	.	561	P51511	MMP15_HUMAN	D	561	ENSP00000219271:E561D	ENSP00000219271:E561D	E	+	3	2	MMP15	56636524	1.000000	0.71417	0.967000	0.41034	0.905000	0.53344	1.330000	0.33781	0.167000	0.19631	-0.277000	0.10078	GAG		0.682	MMP15-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257342.1	NM_002428		C	58079023	G	C	58079023	3	2	701	1	0	0	0	0	1	0	0	0	9661	962	34	4	1721	4	MMP15	16	58079023	Missense_Mutation	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	7495619	58079023	32275730	71	46077										
CLEC18B	497190	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	74447559	74447559	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	cccacagcccagctggcttgAggtggcccacacgagctaca	11	16	0	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr16:74447559A>T	ENST00000339953.5	-	4	593	c.472T>A	c.(472-474)Tca>Aca	p.S158T		NM_001011880.2	NP_001011880.2	Q6UXF7	CL18B_HUMAN	C-type lectin domain family 18, member B	158	SCP.					extracellular region (GO:0005576)	carbohydrate binding (GO:0030246)			endometrium(3)|kidney(9)|large_intestine(3)|lung(7)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	27						AGCTGGCTTGAGGTGGCCCAC	0.607																																																0													99	99	99					16																	74447559		2198	4298	6496	SO:0001583	missense	497190			AY358373	CCDS32484.1	16q22.3	2010-04-27	2009-03-10	2009-03-10		ENSG00000140839		"C-type lectin domain containing"	33849	protein-coding gene	gene with protein product							Standard	NM_001011880		Approved		uc002fct.3	Q6UXF7		ENST00000339953.5:c.472T>A	16.37:g.74447559A>T	ENSP00000341051:p.Ser158Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DF90	Missense_Mutation	SNP	ENST00000339953.5	37	CCDS32484.1	.	.	.	.	.	.	.	.	.	.	a	14.17	2.454450	0.43634	.	.	ENSG00000140839	ENST00000429489;ENST00000339953;ENST00000268492;ENST00000425714	T	0.08807	3.05	3.1	3.1	0.35709	CAP domain (3);	0.000000	0.64402	D	0.000001	T	0.12390	0.0301	N	0.21545	0.675	0.42457	D	0.992777	D;P;D	0.63880	0.993;0.95;0.983	D;P;D	0.77557	0.99;0.871;0.928	T	0.22871	-1.0204	10	0.23891	T	0.37	.	7.6588	0.28392	1.0:0.0:0.0:0.0	.	78;158;158	Q6UXF7-2;C9JSV1;Q6UXF7	.;.;CL18B_HUMAN	T	158;158;158;78	ENSP00000341051:S158T	ENSP00000268492:S158T	S	-	1	0	CLEC18B	73005060	1.000000	0.71417	0.998000	0.56505	0.995000	0.86356	6.560000	0.73950	1.286000	0.44565	0.438000	0.28831	TCA		0.607	CLEC18B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000434697.1	NM_001011880		T	74447559	A	T	74447559	3	4	701	1	0	0	0	0	1	0	0	0	3505	304	11	5	935	5	CLEC18B	16	74447559	Missense_Mutation	SNP	A	TCGA-PJ-A5Z8-01A-11D-A28G-10	16368536	74447559	15907194	72	46078										
CTRB1	1504	broad.mit.edu	37	chr16	75257061	75257061	+	Frame_Shift_Del	DEL	G	G	-													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	cctccgacgtggtcgtggctGgggagtttgaccagggctct							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr16:75257061delG	ENST00000361017.4	+	4	267	c.259delG	c.(259-261)gggfs	p.G87fs	RP11-331F4.4_ENST00000489723.1_RNA	NM_001906.4	NP_001897.4	P17538	CTRB1_HUMAN	chymotrypsinogen B1	87	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.				cobalamin metabolic process (GO:0009235)|digestion (GO:0007586)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|small molecule metabolic process (GO:0044281)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)			central_nervous_system(1)|lung(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.166)	Aprotinin(DB06692)	GGTCGTGGCTGGGGAGTTTGA	0.672																																																0													2	2	2					16																	75257061		1322	2744	4066	SO:0001589	frameshift_variant	1504				CCDS32490.1	16q23.1	2008-02-05			ENSG00000168925	ENSG00000168925	3.4.21.1		2521	protein-coding gene	gene with protein product		118890		CTRB		2917002, 8186414	Standard	NM_001906		Approved		uc002fds.3	P17538	OTTHUMG00000159272	ENST00000361017.4:c.259delG	16.37:g.75257061delG	ENSP00000354294:p.Gly87fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000361017.4	37	CCDS32490.1																																																																																				0.672	CTRB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354300.2	NM_001906		-	75257061	G	-	75257061	7	5	701	1	0	1	0	1	0	0	0	0	4027	1348	47	0	273	0	CTRB1	16	75257061	Frame_Shift_Del	DEL	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	809502	75257061	15097692	73	46079										
ZZEF1	23140	broad.mit.edu	37	chr17	3910206	3910207	+	Frame_Shift_Ins	INS	-	-	G													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	acactccacattccagaggcINSgggtggccttgtttgggtag					rs528609855		TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr17:3910206_3910207insG	ENST00000381638.2	-	55	8987_8988	c.8863_8864insC	c.(8863-8865)cgcfs	p.R2955fs		NM_015113.3	NP_055928.3	O43149	ZZEF1_HUMAN	zinc finger, ZZ-type with EF-hand domain 1	2955							calcium ion binding (GO:0005509)|zinc ion binding (GO:0008270)			central_nervous_system(1)|cervix(2)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(17)|lung(19)|ovary(3)|pancreas(1)|prostate(3)|skin(8)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(3)	84						ATTCCAGAGGCGGGTGGCCTTG	0.53																																																0																																										SO:0001589	frameshift_variant	23140			BC035319	CCDS11043.1	17p13.3	2013-01-10	2004-11-03		ENSG00000074755	ENSG00000074755		"Zinc fingers, ZZ-type", "EF-hand domain containing"	29027	protein-coding gene	gene with protein product			"zinc finger, ZZ-type with EF hand domain 1"			9455477	Standard	XM_005256560		Approved	KIAA0399, ZZZ4, FLJ10821	uc002fxe.3	O43149	OTTHUMG00000090741	ENST00000381638.2:c.8864dupC	17.37:g.3910209_3910209dupG	ENSP00000371051:p.Arg2955fs	Somatic		WXS	Illumina HiSeq	Phase_I	A7MBM5|Q6NXG0|Q6ZRA1|Q6ZSF4|Q9NVB9	Frame_Shift_Ins	INS	ENST00000381638.2	37	CCDS11043.1																																																																																				0.53	ZZEF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207480.1	NM_015113		G	3910207	-	G	3910206	7	5	701	1	0	1	1	0	0	0	0	0	18267	768	27	0	25	0	ZZEF1	17	3910206	Frame_Shift_Ins	INS	-	TCGA-PJ-A5Z8-01A-11D-A28G-10		3910206	77285004	74	46080										
DULLARD	23399	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	7147902	7147902	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	agcattgggagcaggttgagAagggctgtgtcgctggggtc	19	6	0	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr17:7147902A>G	ENST00000573600.1	-	8	1063	c.642T>C	c.(640-642)ctT>ctC	p.L214L	CTDNEP1_ENST00000574322.1_Silent_p.L214L|CTD-2545G14.7_ENST00000570760.2_Missense_Mutation_p.F18S|GABARAP_ENST00000571253.1_5'Flank|GABARAP_ENST00000302386.5_5'Flank|CTDNEP1_ENST00000572043.1_Silent_p.L81L|GABARAP_ENST00000577035.1_5'Flank|GABARAP_ENST00000571129.1_5'Flank|GABARAP_ENST00000573928.1_5'Flank|CTDNEP1_ENST00000318988.6_Silent_p.L214L			O95476	CNEP1_HUMAN	CTD nuclear envelope phosphatase 1	214	FCP1 homology. {ECO:0000255|PROSITE- ProRule:PRU00336}.				gamete generation (GO:0007276)|mesoderm development (GO:0007498)|nuclear envelope organization (GO:0006998)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of triglyceride biosynthetic process (GO:0010867)|protein dephosphorylation (GO:0006470)|protein localization to nucleus (GO:0034504)	cytoplasm (GO:0005737)|endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|Nem1-Spo7 phosphatase complex (GO:0071595)|nuclear envelope (GO:0005635)|nuclear membrane (GO:0031965)	protein serine/threonine phosphatase activity (GO:0004722)			central_nervous_system(9)|kidney(1)|large_intestine(2)|lung(1)|skin(1)|upper_aerodigestive_tract(1)	15						GCAGGTTGAGAAGGGCTGTGT	0.522																																																0													70	67	68					17																	7147902		2203	4300	6503	SO:0001819	synonymous_variant	23399			AJ011916	CCDS11093.1	17p13	2012-11-27	2010-10-27	2010-10-27	ENSG00000175826	ENSG00000175826		"Serine/threonine phosphatases / CTD aspartate-based phosphatases"	19085	protein-coding gene	gene with protein product	"C-terminal domain nuclear envelope phosphatase 1"	610684	"dullard homolog (Xenopus laevis)"	DULLARD		12083771, 17141153	Standard	NM_015343		Approved	HSA011916, NET56	uc002gfd.2	O95476	OTTHUMG00000102180	ENST00000573600.1:c.642T>C	17.37:g.7147902A>G		Somatic		WXS	Illumina HiSeq	Phase_I	D3DTN7|Q96GQ9	Silent	SNP	ENST00000573600.1	37	CCDS11093.1																																																																																				0.522	CTDNEP1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440215.1	NM_015343		G	7147902	A	G	7147902	2	3	701	1	0	0	0	0	0	0	0	1	4801	233	9	3		3	DULLARD	17	7147902	Silent	SNP	A	TCGA-PJ-A5Z8-01A-11D-A28G-10	3237696	7147902	74047308	75	46081										
CHD3	1107	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	7794342	7794342	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tgttctctgaggaggattacCacacgctcaccaactacaaa	7	12	2	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr17:7794342C>G	ENST00000330494.7	+	4	619	c.469C>G	c.(469-471)Cac>Gac	p.H157D	CHD3_ENST00000380358.4_Missense_Mutation_p.H216D|CHD3_ENST00000358181.4_Missense_Mutation_p.H157D	NM_001005273.2	NP_001005273.1	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	157					centrosome organization (GO:0051297)|chromatin assembly or disassembly (GO:0006333)|chromatin modification (GO:0016568)|DNA duplex unwinding (GO:0032508)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|regulation of transcription, DNA-templated (GO:0006355)|spindle organization (GO:0007051)|transcription, DNA-templated (GO:0006351)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|intermediate filament cytoskeleton (GO:0045111)|nucleolus (GO:0005730)|nucleus (GO:0005634)|NuRD complex (GO:0016581)	ATP binding (GO:0005524)|ATP-dependent DNA helicase activity (GO:0004003)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)			breast(2)|central_nervous_system(1)|cervix(2)|endometrium(11)|kidney(6)|large_intestine(13)|liver(2)|lung(14)|ovary(1)|pancreas(1)|prostate(7)|skin(3)|urinary_tract(2)	65		Prostate(122;0.202)				GGAGGATTACCACACGCTCAC	0.527																																																0													166	142	150					17																	7794342		2203	4300	6503	SO:0001583	missense	1107			U08379	CCDS32553.2, CCDS32554.1, CCDS32555.1	17p13	2013-01-28			ENSG00000170004	ENSG00000170004		"Zinc fingers, PHD-type"	1918	protein-coding gene	gene with protein product		602120				9326634, 7560064	Standard	NM_001005271		Approved	Mi-2a, ZFH, Mi2-ALPHA	uc002gjd.2	Q12873	OTTHUMG00000150427	ENST00000330494.7:c.469C>G	17.37:g.7794342C>G	ENSP00000332628:p.His157Asp	Somatic		WXS	Illumina HiSeq	Phase_I	D3DTQ9|E9PG89|Q9Y4I0	Missense_Mutation	SNP	ENST00000330494.7	37	CCDS32554.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	15.56|15.56	2.869301|2.869301	0.51588|0.51588	.|.	.|.	ENSG00000170004|ENSG00000170004	ENST00000380358;ENST00000358181;ENST00000330494|ENST00000452447	D;D;D|.	0.89746|.	-2.56;-2.49;-2.49|.	4.54|4.54	4.54|4.54	0.55810|0.55810	High mobility group, HMG1/HMG2 (1);CHD, N-terminal (1);|.	0.000000|.	0.48286|.	D|.	0.000185|.	T|T	0.46833|0.46833	0.1413|0.1413	N|N	0.11427|0.11427	0.14|0.14	0.46061|0.46061	D|D	0.998847|0.998847	P;P;P|.	0.42584|.	0.531;0.586;0.784|.	B;B;P|.	0.45753|.	0.275;0.396;0.492|.	T|T	0.43048|0.43048	-0.9415|-0.9415	10|5	0.33940|.	T|.	0.23|.	-20.7739|-20.7739	17.4864|17.4864	0.87689|0.87689	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	157;157;216|.	Q12873-2;Q12873;E9PG89|.	.;CHD3_HUMAN;.|.	D|R	216;157;157|31	ENSP00000369716:H216D;ENSP00000350907:H157D;ENSP00000332628:H157D|.	ENSP00000332628:H157D|.	H|P	+|+	1|2	0|0	CHD3|CHD3	7735067|7735067	0.997000|0.997000	0.39634|0.39634	1.000000|1.000000	0.80357|0.80357	0.996000|0.996000	0.88848|0.88848	3.592000|3.592000	0.53993|0.53993	2.349000|2.349000	0.79799|0.79799	0.557000|0.557000	0.71058|0.71058	CAC|CCA		0.527	CHD3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000318050.1	NM_001005273		G	7794342	C	G	7794342	3	3	701	1	0	0	0	0	1	0	0	0	3328	594	21	4	764	4	CHD3	17	7794342	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	646440	7794342	73400868	76	46082										
MYH3	4621	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	10558280	10558281	+	Frame_Shift_Del	DEL	GG	GG	-													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	accacgaagcaatacgtcttGgcatcaaagggctggttctg							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr17:10558280_10558281delGG	ENST00000583535.1	-	3	188_189	c.101_102delCC	c.(100-102)gccfs	p.A34fs	MYH3_ENST00000226209.7_Frame_Shift_Del_p.A34fs	NM_002470.3	NP_002461.2	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle, embryonic	34					actin filament-based movement (GO:0030048)|ATP catabolic process (GO:0006200)|embryonic limb morphogenesis (GO:0030326)|face morphogenesis (GO:0060325)|muscle filament sliding (GO:0030049)|muscle organ development (GO:0007517)|sarcomere organization (GO:0045214)|skeletal muscle contraction (GO:0003009)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|muscle myosin complex (GO:0005859)|myosin filament (GO:0032982)|sarcomere (GO:0030017)	actin filament binding (GO:0051015)|ATP binding (GO:0005524)|ATPase activity, coupled (GO:0042623)|calmodulin binding (GO:0005516)|microfilament motor activity (GO:0000146)			breast(2)|central_nervous_system(2)|cervix(1)|endometrium(8)|kidney(5)|large_intestine(18)|lung(30)|ovary(4)|pancreas(1)|prostate(4)|skin(2)|upper_aerodigestive_tract(5)|urinary_tract(1)	83						AATACGTCTTGGCATCAAAGGG	0.485																																																0																																										SO:0001589	frameshift_variant	4621				CCDS11157.1	17p13.1	2013-09-19	2006-09-29		ENSG00000109063	ENSG00000109063		"Myosins / Myosin superfamily : Class II"	7573	protein-coding gene	gene with protein product	"myosin, skeletal, heavy chain, embryonic 1", "muscle embryonic myosin heavy chain 3"	160720	"myosin, heavy polypeptide 3, skeletal muscle, embryonic"			2726495	Standard	NM_002470		Approved	MYHC-EMB, MYHSE1, HEMHC, SMHCE	uc002gmq.2	P11055	OTTHUMG00000130367	ENST00000583535.1:c.101_102delCC	17.37:g.10558280_10558281delGG	ENSP00000464317:p.Ala34fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q15492	Frame_Shift_Del	DEL	ENST00000583535.1	37	CCDS11157.1																																																																																				0.485	MYH3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252734.2	NM_002470		-	10558281	GG	-	10558280	7	5	701	1	0	1	0	1	0	0	0	0	10043	1335	47	0	5876	0	MYH3	17	10558280	Frame_Shift_Del	DEL	GG	TCGA-PJ-A5Z8-01A-11D-A28G-10	2763938	10558280	70636930	77	46083										
COX10	1352	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	13980321	13980321	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tggaaagagatgaagctgcaAgtgtatgatttgccaggaat	13	4	0	3			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr17:13980321A>G	ENST00000261643.3	+	3	524	c.447A>G	c.(445-447)caA>caG	p.Q149Q	COX10_ENST00000429152.2_Silent_p.Q149Q|COX10_ENST00000536205.1_5'UTR|COX10_ENST00000537334.1_Intron	NM_001303.3	NP_001294.2	Q12887	COX10_HUMAN	cytochrome c oxidase assembly homolog 10 (yeast)	149					aerobic respiration (GO:0009060)|cellular respiration (GO:0045333)|heme a biosynthetic process (GO:0006784)|heme biosynthetic process (GO:0006783)|heme O biosynthetic process (GO:0048034)|hydrogen ion transmembrane transport (GO:1902600)|mitochondrial electron transport, cytochrome c to oxygen (GO:0006123)|mitochondrial fission (GO:0000266)|porphyrin-containing compound metabolic process (GO:0006778)|respiratory chain complex IV assembly (GO:0008535)|small molecule metabolic process (GO:0044281)	integral component of membrane (GO:0016021)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)	farnesyltranstransferase activity (GO:0004311)|protoheme IX farnesyltransferase activity (GO:0008495)			cervix(1)|endometrium(3)|large_intestine(2)|lung(5)|ovary(1)|skin(1)|upper_aerodigestive_tract(1)	14		all_lung(20;0.06)|Lung SC(565;0.168)		UCEC - Uterine corpus endometrioid carcinoma (92;0.106)		TGAAGCTGCAAGTGTATGATT	0.368																																																0													82	88	86					17																	13980321		2203	4300	6503	SO:0001819	synonymous_variant	1352			U09466	CCDS11166.1	17p12	2013-05-24	2012-10-15		ENSG00000006695	ENSG00000006695		"Mitochondrial respiratory chain complex assembly factors"	2260	protein-coding gene	gene with protein product	"heme A: farnesyltransferase", "protoheme IX farnesyltransferase, mitochondrial", "heme O synthase"	602125	"COX10 (yeast) homolog, cytochrome c oxidase assembly protein (heme A: farnesyltransferase)", "COX10 homolog, cytochrome c oxidase assembly protein, heme A: farnesyltransferase (yeast)"			9177788, 12928484	Standard	NM_001303		Approved		uc002gof.4	Q12887	OTTHUMG00000058814	ENST00000261643.3:c.447A>G	17.37:g.13980321A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B2R6U5|B4DJ50|O15334|Q969F7	Silent	SNP	ENST00000261643.3	37	CCDS11166.1	.	.	.	.	.	.	.	.	.	.	A	0.588	-0.834196	0.02713	.	.	ENSG00000006695	ENST00000429152	T	0.37752	1.18	5.35	-10.7	0.00240	.	.	.	.	.	T	0.15089	0.0364	.	.	.	0.09310	N	1	.	.	.	.	.	.	T	0.09574	-1.0668	5	.	.	.	0.3183	3.0923	0.06297	0.1393:0.3394:0.3056:0.2157	.	.	.	.	G	110	ENSP00000397750:S110G	.	S	+	1	0	COX10	13921046	0.000000	0.05858	0.000000	0.03702	0.207000	0.24258	-2.964000	0.00671	-2.362000	0.00609	-1.831000	0.00592	AGT		0.368	COX10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130003.1	NM_001303		G	13980321	A	G	13980321	2	3	701	1	0	0	0	0	0	0	0	1	3764	69	3	3		3	COX10	17	13980321	Silent	SNP	A	TCGA-PJ-A5Z8-01A-11D-A28G-10	3422041	13980321	67214889	78	46084										
MAPK7	5598	broad.mit.edu	37	chr17	19285118	19285118	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ccccagcgcacccctggaggCtcctgagcctcggaagccgg	13	18	0	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr17:19285118C>A	ENST00000308406.5	+	5	1888	c.1502C>A	c.(1501-1503)gCt>gAt	p.A501D	MAPK7_ENST00000395604.3_Missense_Mutation_p.A501D|MFAP4_ENST00000574313.2_5'Flank|MAPK7_ENST00000571657.1_Intron|MAPK7_ENST00000395602.4_Missense_Mutation_p.A501D|MAPK7_ENST00000299612.7_Missense_Mutation_p.A362D	NM_139033.2	NP_620602.2	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7	501	May not be required for kinase activity; required to stimulate MEF2C activity. {ECO:0000250}.|Pro-rich.				cAMP-mediated signaling (GO:0019933)|cell cycle (GO:0007049)|cell differentiation (GO:0030154)|cellular response to growth factor stimulus (GO:0071363)|cellular response to hydrogen peroxide (GO:0070301)|cellular response to laminar fluid shear stress (GO:0071499)|cellular response to transforming growth factor beta stimulus (GO:0071560)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of cAMP catabolic process (GO:0030821)|negative regulation of cyclic-nucleotide phosphodiesterase activity (GO:0051344)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of heterotypic cell-cell adhesion (GO:0034115)|negative regulation of inflammatory response (GO:0050728)|negative regulation of NFAT protein import into nucleus (GO:0051534)|negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902176)|negative regulation of response to cytokine stimulus (GO:0060761)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-serine phosphorylation (GO:0018105)|positive regulation of protein metabolic process (GO:0051247)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription from RNA polymerase II promoter in response to stress (GO:0036003)|regulation of angiogenesis (GO:0045765)|signal transduction (GO:0007165)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)	ATP binding (GO:0005524)|MAP kinase activity (GO:0004707)|mitogen-activated protein kinase binding (GO:0051019)	p.A501D(1)		autonomic_ganglia(1)|central_nervous_system(4)|endometrium(5)|kidney(2)|large_intestine(4)|lung(9)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	30	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					CCCCTGGAGGCTCCTGAGCCT	0.672																																																1	Substitution - Missense(1)	endometrium(1)											10	17	15					17																	19285118		2162	4232	6394	SO:0001583	missense	5598			U25278	CCDS11206.1, CCDS11207.1	17p11.2	2011-06-09			ENSG00000166484	ENSG00000166484	2.7.11.24	"Mitogen-activated protein kinase cascade / Kinases"	6880	protein-coding gene	gene with protein product	"BMK1 kinase", "extracellular-signal-regulated kinase 5"	602521		PRKM7		10072598, 7759517	Standard	NM_139032		Approved	BMK1, ERK5	uc002gvp.3	Q13164	OTTHUMG00000059587	ENST00000308406.5:c.1502C>A	17.37:g.19285118C>A	ENSP00000311005:p.Ala501Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q16634|Q59F50|Q6QLU7|Q7L4P4|Q969G1|Q96G51	Missense_Mutation	SNP	ENST00000308406.5	37	CCDS11206.1	.	.	.	.	.	.	.	.	.	.	C	16.89	3.248312	0.59103	.	.	ENSG00000166484	ENST00000308406;ENST00000299612;ENST00000395604;ENST00000395602	T;T;T;T	0.74209	-0.57;-0.82;-0.57;-0.57	4.36	3.39	0.38822	.	0.278335	0.34291	N	0.004097	T	0.62792	0.2457	N	0.22421	0.69	0.33339	D	0.569546	P	0.50943	0.94	P	0.47299	0.543	T	0.71846	-0.4469	10	0.87932	D	0	-7.5638	6.6062	0.22726	0.0:0.7883:0.0:0.2117	.	501	Q13164	MK07_HUMAN	D	501;362;501;501	ENSP00000311005:A501D;ENSP00000299612:A362D;ENSP00000378968:A501D;ENSP00000378966:A501D	ENSP00000299612:A362D	A	+	2	0	MAPK7	19225711	0.988000	0.35896	0.980000	0.43619	0.970000	0.65996	1.704000	0.37857	1.055000	0.40461	0.561000	0.74099	GCT		0.672	MAPK7-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132506.1	NM_139033		A	19285118	C	A	19285118	3	1	701	1	0	0	0	0	1	0	0	0	9289	797	28	4	1516	4	MAPK7	17	19285118	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	5304797	19285118	61910092	79	46085										
SLC47A1	55244	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	19449787	19449787	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tctcagtgggattcggcttaTcttctgcctgtgacaccctc	9	13	3	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr17:19449787T>C	ENST00000270570.4	+	3	363	c.277T>C	c.(277-279)Tct>Cct	p.S93P	SLC47A1_ENST00000575023.1_Missense_Mutation_p.S93P|SLC47A1_ENST00000436810.2_Intron|SLC47A1_ENST00000457293.1_Missense_Mutation_p.S93P|SLC47A1_ENST00000584348.1_3'UTR|SLC47A1_ENST00000571335.1_5'UTR|SLC47A1_ENST00000395585.1_Missense_Mutation_p.S93P|SLC47A1_ENST00000542886.1_Missense_Mutation_p.S93P	NM_018242.2	NP_060712.2	Q96FL8	S47A1_HUMAN	solute carrier family 47 (multidrug and toxin extrusion), member 1	93					organic cation transport (GO:0015695)|transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|membrane-bounded vesicle (GO:0031988)|plasma membrane (GO:0005886)	drug transmembrane transporter activity (GO:0015238)|monovalent cation:proton antiporter activity (GO:0005451)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(4)|lung(5)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)	23	all_cancers(12;2.49e-05)|all_epithelial(12;0.00263)|Hepatocellular(7;0.00345)				Aciclovir(DB00787)|Bromodiphenhydramine(DB01237)|Cephalexin(DB00567)|Cimetidine(DB00501)|Metformin(DB00331)|Sirolimus(DB00877)	ATTCGGCTTATCTTCTGCCTG	0.453																																																0													201	160	174					17																	19449787		2203	4300	6503	SO:0001583	missense	55244				CCDS11209.1	17p11.2	2013-07-17	2013-07-17		ENSG00000142494	ENSG00000142494		"Solute carriers"	25588	protein-coding gene	gene with protein product	"multidrug and toxin extrusion 1"	609832				16330770, 16996621, 16928787	Standard	NM_018242		Approved	FLJ10847, MATE1	uc002gvy.1	Q96FL8	OTTHUMG00000059466	ENST00000270570.4:c.277T>C	17.37:g.19449787T>C	ENSP00000270570:p.Ser93Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q53HF5|Q6PD77|Q86VL4|Q9NVA3	Missense_Mutation	SNP	ENST00000270570.4	37	CCDS11209.1	.	.	.	.	.	.	.	.	.	.	T	15.29	2.790304	0.50102	.	.	ENSG00000142494	ENST00000270570;ENST00000457293;ENST00000542886;ENST00000395585	T;T;T;T	0.35605	1.3;1.3;1.3;1.3	5.32	4.17	0.49024	.	0.175212	0.49305	D	0.000151	T	0.65554	0.2702	M	0.91300	3.195	0.39743	D	0.971774	D;D;D	0.71674	0.998;0.984;0.957	D;D;P	0.76575	0.988;0.944;0.906	T	0.75167	-0.3413	10	0.72032	D	0.01	-17.7724	12.3905	0.55356	0.0:0.0:0.1831:0.8169	.	93;93;93	B4DYV3;Q96FL8;Q96FL8-3	.;S47A1_HUMAN;.	P	93	ENSP00000270570:S93P;ENSP00000415586:S93P;ENSP00000440435:S93P;ENSP00000378951:S93P	ENSP00000270570:S93P	S	+	1	0	SLC47A1	19390379	0.016000	0.18221	1.000000	0.80357	0.472000	0.32918	0.078000	0.14761	2.027000	0.59764	0.454000	0.30748	TCT		0.453	SLC47A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132250.1	NM_018242		C	19449787	T	C	19449787	3	2	701	1	0	0	0	0	1	0	0	0	14660	1435	50	3	287	3	SLC47A1	17	19449787	Missense_Mutation	SNP	T	TCGA-PJ-A5Z8-01A-11D-A28G-10	164669	19449787	61745423	80	46086										
ACACA	31	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	35602012	35602012	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tcacctgctgaaccttgctgGggttgtccagttgcattttg	11	10	1	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr17:35602012G>T	ENST00000394406.2	-	20	2658	c.2468C>A	c.(2467-2469)cCc>cAc	p.P823H	ACACA_ENST00000353139.5_Missense_Mutation_p.P860H|ACACA_ENST00000335166.5_Missense_Mutation_p.P745H|ACACA_ENST00000360679.3_Missense_Mutation_p.P765H	NM_198836.1	NP_942133.1	Q13085	ACACA_HUMAN	acetyl-CoA carboxylase alpha	823					acetyl-CoA metabolic process (GO:0006084)|biotin metabolic process (GO:0006768)|carnitine shuttle (GO:0006853)|cellular lipid metabolic process (GO:0044255)|energy reserve metabolic process (GO:0006112)|fatty acid biosynthetic process (GO:0006633)|lipid homeostasis (GO:0055088)|long-chain fatty-acyl-CoA biosynthetic process (GO:0035338)|malonyl-CoA biosynthetic process (GO:2001295)|multicellular organismal protein metabolic process (GO:0044268)|positive regulation of cellular metabolic process (GO:0031325)|protein homotetramerization (GO:0051289)|small molecule metabolic process (GO:0044281)|tissue homeostasis (GO:0001894)|triglyceride biosynthetic process (GO:0019432)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	acetyl-CoA carboxylase activity (GO:0003989)|ATP binding (GO:0005524)|biotin carboxylase activity (GO:0004075)|metal ion binding (GO:0046872)			NS(2)|breast(5)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(24)|lung(23)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	83		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	AACCTTGCTGGGGTTGTCCAG	0.498																																					Colon(23;82 258 739 2117 10493 24037 27661 34815 35438 36249)											0													247	237	241					17																	35602012		2203	4300	6503	SO:0001583	missense	31			U19822	CCDS11317.1, CCDS11318.1, CCDS42302.1, CCDS42303.1	17q21	2014-05-06	2010-04-30		ENSG00000132142	ENSG00000278540	6.4.1.2		84	protein-coding gene	gene with protein product	"acetyl-CoA carboxylase 1"	200350	"acetyl-Coenzyme A carboxylase alpha"	ACAC, ACC			Standard	NM_198837		Approved	ACC1	uc002hno.3	Q13085	OTTHUMG00000188463	ENST00000394406.2:c.2468C>A	17.37:g.35602012G>T	ENSP00000377928:p.Pro823His	Somatic		WXS	Illumina HiSeq	Phase_I	B2RP68|Q6KEV6|Q6XDA8|Q7Z2G8|Q7Z561|Q7Z563|Q7Z564|Q86WB2|Q86WB3	Missense_Mutation	SNP	ENST00000394406.2	37	CCDS11317.1	.	.	.	.	.	.	.	.	.	.	G	21.2	4.120820	0.77436	.	.	ENSG00000132142	ENST00000353139;ENST00000360679;ENST00000394406;ENST00000452074;ENST00000335166	T;T;T;T	0.61274	0.12;0.12;0.12;0.12	4.84	3.88	0.44766	Acetyl-CoA carboxylase, central domain (1);	0.000000	0.85682	D	0.000000	T	0.75034	0.3795	M	0.80847	2.515	0.80722	D	1	D;D;D	0.89917	1.0;0.988;1.0	D;D;D	0.77557	0.99;0.934;0.986	T	0.78685	-0.2108	10	0.87932	D	0	-4.7173	12.2513	0.54599	0.0813:0.0:0.9187:0.0	.	860;823;765	Q13085-4;Q13085;Q13085-2	.;ACACA_HUMAN;.	H	860;765;823;847;745	ENSP00000344789:P860H;ENSP00000353898:P765H;ENSP00000377928:P823H;ENSP00000335323:P745H	ENSP00000335323:P745H	P	-	2	0	ACACA	32676125	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	9.631000	0.98424	1.271000	0.44313	0.655000	0.94253	CCC		0.498	ACACA-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256696.1	NM_198836		T	35602012	G	T	35602012	3	4	701	1	0	0	0	0	1	0	0	0	106	1232	43	4	4720	4	ACACA	17	35602012	Missense_Mutation	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	16152225	35602012	45593198	81	46087										
ACSF2	80221	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	48539795	48539795	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ccccaggctcccagatctgaCcacagtcatctcggtggatg	10	15	3	2			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr17:48539795C>G	ENST00000300441.4	+	6	745	c.641C>G	c.(640-642)aCc>aGc	p.T214S	ACSF2_ENST00000541920.1_Missense_Mutation_p.T54S|ACSF2_ENST00000427954.2_Missense_Mutation_p.T239S|ACSF2_ENST00000502667.1_Missense_Mutation_p.T201S|ACSF2_ENST00000504392.1_Missense_Mutation_p.T171S	NM_025149.4	NP_079425.3	Q96CM8	ACSF2_HUMAN	acyl-CoA synthetase family member 2	214					fatty acid metabolic process (GO:0006631)	mitochondrion (GO:0005739)	ATP binding (GO:0005524)|ligase activity (GO:0016874)			endometrium(7)|kidney(3)|large_intestine(1)|lung(1)|stomach(1)	13	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			CCAGATCTGACCACAGTCATC	0.617																																																0													67	65	66					17																	48539795		2203	4300	6503	SO:0001583	missense	80221			AK024573, BC012053	CCDS11567.1, CCDS74103.1, CCDS74104.1, CCDS74105.1	17q21.33	2007-10-17			ENSG00000167107	ENSG00000167107		"Acyl-CoA synthetase family"	26101	protein-coding gene	gene with protein product		610465				17762044	Standard	NM_001288968		Approved	FLJ20920, ACSMW	uc002iqu.2	Q96CM8	OTTHUMG00000162128	ENST00000300441.4:c.641C>G	17.37:g.48539795C>G	ENSP00000300441:p.Thr214Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DFQ6|B4DHT5|B4DUF5|Q9H7G2	Missense_Mutation	SNP	ENST00000300441.4	37	CCDS11567.1	.	.	.	.	.	.	.	.	.	.	C	14.18	2.457499	0.43634	.	.	ENSG00000167107	ENST00000300441;ENST00000541920;ENST00000504392;ENST00000427954;ENST00000502667	T;T;T;T;T	0.41065	1.01;1.01;1.01;1.01;1.01	5.57	5.57	0.84162	AMP-dependent synthetase/ligase (1);	0.433445	0.24249	N	0.040200	T	0.29945	0.0749	N	0.17872	0.535	0.29725	N	0.83833	B;B;B;B	0.32968	0.146;0.392;0.146;0.146	B;B;B;B	0.30401	0.101;0.115;0.101;0.101	T	0.31752	-0.9932	10	0.52906	T	0.07	-26.9977	14.3982	0.67025	0.1477:0.8523:0.0:0.0	.	201;239;171;214	B4DHT5;B4DFQ6;E9PF16;Q96CM8	.;.;.;ACSF2_HUMAN	S	214;54;171;239;201	ENSP00000300441:T214S;ENSP00000437987:T54S;ENSP00000425964:T171S;ENSP00000401831:T239S;ENSP00000421884:T201S	ENSP00000300441:T214S	T	+	2	0	ACSF2	45894794	0.958000	0.32768	1.000000	0.80357	0.695000	0.40330	1.695000	0.37763	2.618000	0.88619	0.563000	0.77884	ACC		0.617	ACSF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367423.3	NM_025149		G	48539795	C	G	48539795	3	3	701	1	0	0	0	0	1	0	0	0	175	507	18	4	663	4	ACSF2	17	48539795	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	12937783	48539795	32655415	82	46088										
MRC2	9902	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	60753774	60753774	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	gccttcgtcagcagcctcatCtacaactgggagggcgagta	12	12	3	0			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr17:60753774C>A	ENST00000303375.5	+	11	2118	c.1716C>A	c.(1714-1716)atC>atA	p.I572I		NM_006039.4	NP_006030.2	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	572	C-type lectin 3. {ECO:0000255|PROSITE- ProRule:PRU00040}.				collagen catabolic process (GO:0030574)|endocytosis (GO:0006897)|osteoblast differentiation (GO:0001649)	focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	carbohydrate binding (GO:0030246)|collagen binding (GO:0005518)			NS(1)|breast(1)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(11)|lung(28)|ovary(2)|prostate(1)|skin(3)	53						GCAGCCTCATCTACAACTGGG	0.607																																																0													94	77	83					17																	60753774		2203	4300	6503	SO:0001819	synonymous_variant	9902			AB014609	CCDS11634.1	17q23	2011-08-30				ENSG00000011028		"CD molecules", "C-type lectin domain containing"	16875	protein-coding gene	gene with protein product		612264				9734811, 8702911	Standard	NM_006039		Approved	KIAA0709, ENDO180, CLEC13E, CD280	uc002jad.4	Q9UBG0		ENST00000303375.5:c.1716C>A	17.37:g.60753774C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6H8K4|D3DU08|Q7LGE7|Q9Y5P9	Silent	SNP	ENST00000303375.5	37	CCDS11634.1																																																																																				0.607	MRC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445152.1			A	60753774	C	A	60753774	2	1	701	1	0	0	0	0	0	0	0	1	9765	903	32	4		4	MRC2	17	60753774	Silent	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	12213979	60753774	20441436	83	46089										
LRRC37A3	374819	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr17	62855782	62855782	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	aaggtccggataacatgagcAatgagccttctcacattgtt	9	9	1	2			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr17:62855782A>T	ENST00000584306.1	-	11	5012	c.4482T>A	c.(4480-4482)atT>atA	p.I1494I	LRRC37A3_ENST00000334962.5_Silent_p.I471I|LRRC37A3_ENST00000319651.5_Silent_p.I1494I|LRRC37A3_ENST00000400877.3_Silent_p.I532I|LRRC37A3_ENST00000339474.5_Silent_p.I612I	NM_199340.2	NP_955372.2	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	1494						integral component of membrane (GO:0016021)				NS(1)|breast(3)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(6)|liver(1)|lung(10)|pancreas(2)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	40						TAACATGAGCAATGAGCCTTC	0.522																																																0													186	189	188					17																	62855782		2203	4300	6503	SO:0001819	synonymous_variant	374819			AB011135	CCDS32708.1	17q24.1	2008-10-22			ENSG00000176809	ENSG00000176809			32427	protein-coding gene	gene with protein product							Standard	NM_199340		Approved	FLJ34306, KIAA0563	uc031rbi.1	O60309	OTTHUMG00000132307	ENST00000584306.1:c.4482T>A	17.37:g.62855782A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q49A01|Q49A80|Q8NB33	Silent	SNP	ENST00000584306.1	37	CCDS32708.1																																																																																				0.522	LRRC37A3-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000445377.1	NM_199340		T	62855782	A	T	62855782	2	4	701	1	0	0	0	0	0	0	0	1	9000	126	5	5		5	LRRC37A3	17	62855782	Silent	SNP	A	TCGA-PJ-A5Z8-01A-11D-A28G-10	2102008	62855782	18339428	84	46090										
MC5R	4161	broad.mit.edu;bcgsc.ca	37	chr18	13826448	13826448	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ctgcccggggccagctctgcGcggcagaggaccagcatgca	15	15	1	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr18:13826448G>A	ENST00000324750.3	+	1	906	c.684G>A	c.(682-684)gcG>gcA	p.A228A	AP001525.1_ENST00000390194.2_RNA	NM_005913.2	NP_005904.1	P33032	MC5R_HUMAN	melanocortin 5 receptor	228				ALPGASSARQRTSM -> LCPGPALRGRGPAW (in Ref. 1). {ECO:0000305}.	G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger (GO:0007187)|positive regulation of cAMP biosynthetic process (GO:0030819)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	hormone binding (GO:0042562)|melanocortin receptor activity (GO:0004977)			NS(1)|breast(2)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(6)|lung(23)|ovary(4)|upper_aerodigestive_tract(1)	41						CCAGCTCTGCGCGGCAGAGGA	0.617																																																0													210	180	190					18																	13826448		2203	4300	6503	SO:0001819	synonymous_variant	4161			AY268429	CCDS11868.1	18p11.2	2012-08-10			ENSG00000176136	ENSG00000176136		"GPCR / Class A : Melanocortin receptors"	6933	protein-coding gene	gene with protein product		600042				8396929	Standard	NM_005913		Approved		uc010xaf.2	P33032	OTTHUMG00000131720	ENST00000324750.3:c.684G>A	18.37:g.13826448G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ34|Q502V1	Silent	SNP	ENST00000324750.3	37	CCDS11868.1																																																																																				0.617	MC5R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254638.1	NM_005913		A	13826448	G	A	13826448	2	1	701	1	0	0	0	0	0	0	0	1	9374	1074	38	1		1	MC5R	18	13826448	Silent	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10		13826448	64250800	85	46091										
LAMA3	3909	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr18	21508155	21508158	+	Frame_Shift_Del	DEL	GATT	GATT	-													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	gaaaaccagtggtgtcgttaGattgaatgatactgtgggag							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	GATT	GATT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr18:21508155_21508158delGATT	ENST00000313654.9	+	63	8487_8490	c.8246_8249delGATT	c.(8245-8250)agattgfs	p.RL2749fs	LAMA3_ENST00000269217.6_Frame_Shift_Del_p.RL1140fs|LAMA3_ENST00000588770.1_3'UTR|LAMA3_ENST00000587184.1_Frame_Shift_Del_p.RL1084fs|LAMA3_ENST00000399516.3_Frame_Shift_Del_p.RL2693fs	NM_198129.1	NP_937762.1	Q16787	LAMA3_HUMAN	laminin, alpha 3	2749	Laminin G-like 2. {ECO:0000255|PROSITE- ProRule:PRU00122}.				cell adhesion (GO:0007155)|cell junction assembly (GO:0034329)|endodermal cell differentiation (GO:0035987)|epidermis development (GO:0008544)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of embryonic development (GO:0045995)	basement membrane (GO:0005604)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)|laminin-5 complex (GO:0005610)	structural molecule activity (GO:0005198)			NS(2)|breast(4)|central_nervous_system(3)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(24)|lung(54)|ovary(8)|prostate(6)|skin(7)|urinary_tract(4)	128	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)					GGTGTCGTTAGATTGAATGATACT	0.436																																																0																																										SO:0001589	frameshift_variant	3909			L34155	CCDS11880.1, CCDS42419.1, CCDS45838.1, CCDS59307.1	18q11.2	2013-03-01	2002-08-29		ENSG00000053747	ENSG00000053747		"Laminins"	6483	protein-coding gene	gene with protein product		600805	"laminin, alpha 3 (nicein (150kD), kalinin (165kD), BM600 (150kD), epilegrin)"	LAMNA		8077230	Standard	NM_000227		Approved	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin	uc002kuq.3	Q16787	OTTHUMG00000131874	ENST00000313654.9:c.8246_8249delGATT	18.37:g.21508155_21508158delGATT	ENSP00000324532:p.Arg2749fs	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ33|Q13679|Q13680|Q6VU67|Q6VU68|Q6VU69|Q76E14|Q96TG0	Frame_Shift_Del	DEL	ENST00000313654.9	37	CCDS42419.1																																																																																				0.436	LAMA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254824.3	NM_000227, NM_198129		-	21508158	GATT	-	21508155	7	5	701	1	0	1	0	1	0	0	0	0	8614	942	33	0	8671	0	LAMA3	18	21508155	Frame_Shift_Del	DEL	GATT	TCGA-PJ-A5Z8-01A-11D-A28G-10	7681707	21508155	56569093	86	46092										
HNRNPM	4670	ucsc.edu	37	chr19	8527467	8527467	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	cgctgaaggaaagtcaagggTaagtgtctgagagaatttct	13	5	3	3			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr19:8527467T>G	ENST00000325495.4	+	3	377		c.e3+2		HNRNPM_ENST00000348943.3_Splice_Site	NM_005968.4	NP_005959.2	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M						alternative mRNA splicing, via spliceosome (GO:0000380)|gene expression (GO:0010467)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)	catalytic step 2 spliceosome (GO:0071013)|extracellular matrix (GO:0031012)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|nuclear matrix (GO:0016363)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|paraspeckles (GO:0042382)|spliceosomal complex (GO:0005681)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein domain specific binding (GO:0019904)|RNA binding (GO:0003723)			endometrium(5)|kidney(2)|large_intestine(7)|lung(10)|ovary(1)	25						AAGTCAAGGGTAAGTGTCTGA	0.428																																																0													241	220	227					19																	8527467		2203	4300	6503	SO:0001630	splice_region_variant	4670			L03532	CCDS12203.1, CCDS12204.1	19p13.2	2013-06-12		2008-04-18	ENSG00000099783	ENSG00000099783		"RNA binding motif (RRM) containing"	5046	protein-coding gene	gene with protein product	"CEA receptor"	160994		NAGR1, HNRPM		8441656, 7558047	Standard	NM_005968		Approved	HTGR1, HNRNPM4, HNRPM4, CEAR	uc010dwe.3	P52272	OTTHUMG00000182383	ENST00000325495.4:c.336+2T>G	19.37:g.8527467T>G		Somatic		WXS	Illumina HiSeq		Q15584|Q8WZ44|Q96H56|Q9BWL9|Q9Y492	Splice_Site	SNP	ENST00000325495.4	37	CCDS12203.1	.	.	.	.	.	.	.	.	.	.	T	18.24	3.580056	0.65992	.	.	ENSG00000099783	ENST00000325495;ENST00000348943	.	.	.	5.82	5.82	0.92795	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	15.0018	0.71479	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	HNRNPM	8433467	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.698000	0.84413	2.225000	0.72522	0.459000	0.35465	.		0.428	HNRNPM-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000460894.1		Intron	G	8527467	T	G	8527467	5	3	701	1	0	0	0	0	0	0	1	0	7278	1652	57	5	348	5	HNRNPM	19	8527467	Splice_Site	SNP	T	TCGA-PJ-A5Z8-01A-11D-A28G-10		8527467	50601516	87	46093										
MAP1S	55201	hgsc.bcm.edu	37	chr19	17837417	17837417	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tccgccggcgccgagcgcacGctggcctctgtgtgcgccct	14	18	1	0	rs138676223	byFrequency	TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr19:17837417G>A	ENST00000324096.4	+	5	1375	c.1224G>A	c.(1222-1224)acG>acA	p.T408T	CTD-3149D2.4_ENST00000595363.1_RNA|MAP1S_ENST00000597681.1_Intron|MAP1S_ENST00000544059.2_Silent_p.T382T	NM_018174.4	NP_060644.4	Q66K74	MAP1S_HUMAN	microtubule-associated protein 1S	408	Necessary for the microtubule-organizing center localization.				apoptotic DNA fragmentation (GO:0006309)|brain development (GO:0007420)|execution phase of apoptosis (GO:0097194)|microtubule bundle formation (GO:0001578)|mitochondrion transport along microtubule (GO:0047497)|nervous system development (GO:0007399)|neuron projection morphogenesis (GO:0048812)	cell junction (GO:0030054)|cell projection (GO:0042995)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|dendrite (GO:0030425)|microtubule (GO:0005874)|neuronal cell body (GO:0043025)|nucleolus (GO:0005730)|nucleus (GO:0005634)|perinuclear region of cytoplasm (GO:0048471)|synapse (GO:0045202)	actin filament binding (GO:0051015)|beta-tubulin binding (GO:0048487)|DNA binding (GO:0003677)|microtubule binding (GO:0008017)|tubulin binding (GO:0015631)			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(3)|large_intestine(4)|lung(5)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	25						CCGAGCGCACGCTGGCCTCTG	0.736													G|||	45	0.00898562	0.0015	0.0144	5008	,	,		12480	0.0		0.0268	False		,,,				2504	0.0061															0								G		21,4095		0,21,2037	5	5	5		1224	-2.1	0	19	dbSNP_134	5	121,7915		1,119,3898	no	coding-synonymous	MAP1S	NM_018174.4		1,140,5935	AA,AG,GG		1.5057,0.5102,1.1685		408/1060	17837417	142,12010	2058	4018	6076	SO:0001819	synonymous_variant	55201			BC067115	CCDS32954.1	19p13.12	2008-02-05	2006-07-04	2006-07-04		ENSG00000130479			15715	protein-coding gene	gene with protein product		607573	"chromosome 19 open reading frame 5", "VCY2 interacting protein 1", "BPY2 interacting protein 1"	C19orf5, VCY2IP1, BPY2IP1		11827465, 15528209, 16297881, 14627543	Standard	NM_018174		Approved	FLJ10669, MAP8	uc002nhe.1	Q66K74		ENST00000324096.4:c.1224G>A	19.37:g.17837417G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DH53|Q27QB1|Q6NXF1|Q8N3L8|Q8N3W5|Q8NI88|Q96H94|Q96IT4|Q96SP8|Q9BRC6|Q9H928|Q9NVK7	Silent	SNP	ENST00000324096.4	37	CCDS32954.1																																																																																				0.736	MAP1S-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466027.1	NM_018174		A	17837417	G	A	17837417	2	1	701	1	0	0	0	0	0	0	0	1	9241	1074	38	1		1	MAP1S	19	17837417	Silent	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	9309950	17837417	41291566	88	46094										
IL12RB1	3594	broad.mit.edu	37	chr19	18194264	18194265	+	Frame_Shift_Ins	INS	-	-	G													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	agtctgcatccggatatggcINSgggtcctgaaaacagcactc					rs113524129|rs146978336	byFrequency	TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr19:18194264_18194265insG	ENST00000600835.2	-	3	399_400	c.101_102insC	c.(100-102)ccgfs	p.P34fs	IL12RB1_ENST00000322153.7_Frame_Shift_Ins_p.P34fs|IL12RB1_ENST00000593993.2_Frame_Shift_Ins_p.P34fs			P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1	34					cellular response to interferon-gamma (GO:0071346)|cytokine-mediated signaling pathway (GO:0019221)|interleukin-12-mediated signaling pathway (GO:0035722)|interleukin-23-mediated signaling pathway (GO:0038155)|peptidyl-tyrosine phosphorylation (GO:0018108)|positive regulation of activated T cell proliferation (GO:0042104)|positive regulation of defense response to virus by host (GO:0002230)|positive regulation of interferon-gamma production (GO:0032729)|positive regulation of memory T cell differentiation (GO:0043382)|positive regulation of T cell mediated cytotoxicity (GO:0001916)|positive regulation of T-helper 1 type immune response (GO:0002827)|positive regulation of T-helper 17 cell lineage commitment (GO:2000330)|positive regulation of T-helper 17 type immune response (GO:2000318)|signal transduction (GO:0007165)	external side of plasma membrane (GO:0009897)|interleukin-12 receptor complex (GO:0042022)|interleukin-23 receptor complex (GO:0072536)	cytokine receptor activity (GO:0004896)			endometrium(1)|kidney(1)|lung(3)|pancreas(1)|skin(2)	8						CCGGATATGGCGGGTCCTGAAA	0.564																																																0																																										SO:0001589	frameshift_variant	3594			U03187	CCDS32957.1, CCDS54232.1	19p13.1	2014-09-17						"Interleukins and interleukin receptors", "CD molecules", "Fibronectin type III domain containing"	5971	protein-coding gene	gene with protein product		601604		IL12RB		9284929	Standard	XM_005259893		Approved	CD212	uc002nhw.1	P42701		ENST00000600835.2:c.102dupC	19.37:g.18194267_18194267dupG	ENSP00000470788:p.Pro34fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K308|B2RPF1|B7ZKK3|Q8N6Q7	Frame_Shift_Ins	INS	ENST00000600835.2	37	CCDS54232.1																																																																																				0.564	IL12RB1-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466525.3			G	18194265	-	G	18194264	7	5	701	1	0	1	1	0	0	0	0	0	7633	755	27	0	2079	0	IL12RB1	19	18194264	Frame_Shift_Ins	INS	-	TCGA-PJ-A5Z8-01A-11D-A28G-10	356847	18194264	40934719	89	46095										
GPATCH1	55094	broad.mit.edu	37	chr19	33603471	33603471	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	agacacgtttgagtggcaccCtgacaagcttctatgtaaga	10	9	1	4			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr19:33603471C>A	ENST00000170564.2	+	13	2158	c.1844C>A	c.(1843-1845)cCt>cAt	p.P615H		NM_018025.2	NP_060495.2	Q9BRR8	GPTC1_HUMAN	G patch domain containing 1	615					mRNA splicing, via spliceosome (GO:0000398)	catalytic step 2 spliceosome (GO:0071013)	nucleic acid binding (GO:0003676)			breast(4)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(7)|lung(15)|prostate(4)|skin(4)	40	Esophageal squamous(110;0.137)					GAGTGGCACCCTGACAAGCTT	0.413																																					Pancreas(67;88 1713 4567 18227)											0													159	142	148					19																	33603471		2203	4300	6503	SO:0001583	missense	55094			AF434677	CCDS12428.1	19q13.12	2013-01-28		2006-12-13		ENSG00000076650		"G patch domain containing"	24658	protein-coding gene	gene with protein product	"evolutionarily conserved G patch domain containing"			GPATC1		12477932	Standard	NM_018025		Approved	ECGP, FLJ10206, FLJ38686	uc002nug.1	Q9BRR8		ENST00000170564.2:c.1844C>A	19.37:g.33603471C>A	ENSP00000170564:p.Pro615His	Somatic		WXS	Illumina HiSeq	Phase_I	Q8IZV6|Q8N3B7|Q9NW94	Missense_Mutation	SNP	ENST00000170564.2	37	CCDS12428.1	.	.	.	.	.	.	.	.	.	.	C	26.5	4.748457	0.89753	.	.	ENSG00000076650	ENST00000170564	T	0.37058	1.22	5.62	5.62	0.85841	.	0.047492	0.85682	D	0.000000	T	0.67363	0.2885	M	0.87097	2.86	0.80722	D	1	D	0.89917	1.0	D	0.97110	1.0	T	0.72830	-0.4174	10	0.87932	D	0	-15.72	18.6704	0.91508	0.0:1.0:0.0:0.0	.	615	Q9BRR8	GPTC1_HUMAN	H	615	ENSP00000170564:P615H	ENSP00000170564:P615H	P	+	2	0	GPATCH1	38295311	1.000000	0.71417	1.000000	0.80357	0.977000	0.68977	6.937000	0.75898	2.640000	0.89533	0.655000	0.94253	CCT		0.413	GPATCH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450834.1	NM_018025		A	33603471	C	A	33603471	3	1	701	1	0	0	0	0	1	0	0	0	6597	681	24	4	1894	4	GPATCH1	19	33603471	Missense_Mutation	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	15409207	33603471	25525512	90	46096										
ZNF780A	284323	hgsc.bcm.edu	37	chr19	40578806	40578806	+	IGR	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tacactaaagagagataaccAaatgcaatgcagattctgca	7	8	1	3	rs528950544		TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr19:40578806A>T	ENST00000595687.2	-	0	3472				ZNF780A_ENST00000450241.2_3'UTR|AC005614.5_ENST00000595508.1_RNA|ZNF780A_ENST00000414720.2_Missense_Mutation_p.F145L	NM_001010880.2	NP_001010880.2	O75290	Z780A_HUMAN	zinc finger protein 780A						regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|endometrium(1)|kidney(1)|large_intestine(7)|lung(16)|upper_aerodigestive_tract(3)|urinary_tract(1)	31	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					agagataaccaaatgcaatgc	0.353																																																0													112	98	103					19																	40578806		692	1591	2283	SO:0001628	intergenic_variant	284323			AK091274	CCDS33026.2, CCDS46078.1, CCDS46079.1	19q13.2	2014-02-12	2006-08-15		ENSG00000197782	ENSG00000197782		"Zinc fingers, C2H2-type", "-"	27603	protein-coding gene	gene with protein product							Standard	NM_001142577		Approved	ZNF780	uc010xvh.2	O75290	OTTHUMG00000155119		19.37:g.40578806A>T		Somatic		WXS	Illumina HiSeq	Phase_I	E9PB48|Q6ZN87	Missense_Mutation	SNP	ENST00000595687.2	37	CCDS33026.2	.	.	.	.	.	.	.	.	.	.	A	11.53	1.666731	0.29604	.	.	ENSG00000197782	ENST00000414720	T	0.00620	6.17	0.516	0.516	0.17019	.	.	.	.	.	T	0.00998	0.0033	.	.	.	0.21256	N	0.999747	P	0.46395	0.877	P	0.51866	0.682	T	0.55341	-0.8156	7	0.25751	T	0.34	.	.	.	.	.	145	O75290-2	.	L	145	ENSP00000416294:F145L	ENSP00000416294:F145L	F	-	3	2	ZNF780A	45270646	0.004000	0.15560	0.096000	0.21009	0.182000	0.23217	0.148000	0.16224	0.452000	0.26830	0.254000	0.18369	TTT		0.353	ZNF780A-009	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000470066.1	NM_001010880		T	40578806	A	T	40578806	1	4	701	0	1	0	0	0	0	0	0	0	18164	127	5	5		5	ZNF780A	19	40578806	IGR	SNP	A	TCGA-PJ-A5Z8-01A-11D-A28G-10	6975335	40578806	18550177	91	46097										
ZNF320	162967	ucsc.edu	37	chr19	53384827	53384827	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	catttgtatggtttctctccAgtatgaattatcctatgtat	6	7	1	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr19:53384827A>G	ENST00000595635.1	-	8	1053	c.552T>C	c.(550-552)acT>acC	p.T184T	ZNF320_ENST00000597909.1_Intron|ZNF320_ENST00000600930.1_Intron|ZNF320_ENST00000391781.2_Silent_p.T184T	NM_207333.2	NP_997216.2	A2RRD8	ZN320_HUMAN	zinc finger protein 320	184					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(1)|endometrium(2)|kidney(4)|large_intestine(5)|liver(1)|lung(10)|urinary_tract(1)	24				GBM - Glioblastoma multiforme(134;0.0534)		GTTTCTCTCCAGTATGAATTA	0.358																																																0													67	64	65					19																	53384827		2203	4300	6503	SO:0001819	synonymous_variant	162967			AF086262	CCDS33095.1	19q13.41	2014-09-04			ENSG00000182986	ENSG00000182986		"Zinc fingers, C2H2-type", "-"	13842	protein-coding gene	gene with protein product		606427				11536051	Standard	XM_006723059		Approved	ZFPL, DKFZp686G16228	uc002qag.3	A2RRD8	OTTHUMG00000182797	ENST00000595635.1:c.552T>C	19.37:g.53384827A>G		Somatic		WXS	Illumina HiSeq		Q8NDR6	Silent	SNP	ENST00000595635.1	37	CCDS33095.1																																																																																				0.358	ZNF320-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463771.1	NM_207333		G	53384827	A	G	53384827	2	3	701	1	0	0	0	0	0	0	0	1	17851	175	7	3		3	ZNF320	19	53384827	Silent	SNP	A	TCGA-PJ-A5Z8-01A-11D-A28G-10	12806021	53384827	5744156	92	46098										
EPS8L1	54869	ucsc.edu;bcgsc.ca	37	chr19	55591878	55591878	+	Intron	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ggacatgaacagaacatggcCaagaaggatctgggggagca	15	7	1	3			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr19:55591878C>G	ENST00000201647.6	+	6	485				EPS8L1_ENST00000588359.1_Missense_Mutation_p.P6R|EPS8L1_ENST00000592824.1_Intron|EPS8L1_ENST00000245618.5_Missense_Mutation_p.P6R|EPS8L1_ENST00000586329.1_Intron|EPS8L1_ENST00000540810.1_Intron	NM_133180.2	NP_573441.2	Q8TE68	ES8L1_HUMAN	EPS8-like 1						positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of Rho GTPase activity (GO:0032321)|positive regulation of ruffle assembly (GO:1900029)|regulation of Rho protein signal transduction (GO:0035023)|Rho protein signal transduction (GO:0007266)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|protein complex (GO:0043234)|ruffle membrane (GO:0032587)	actin binding (GO:0003779)|T cell receptor binding (GO:0042608)			NS(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|liver(2)|lung(3)|ovary(1)|prostate(1)	12			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		AGAACATGGCCAAGAAGGATC	0.597																																					Ovarian(149;255 1863 3636 27051 29647)											0													77	64	69					19																	55591878		2203	4299	6502	SO:0001627	intron_variant	54869			AK057052	CCDS12914.1, CCDS12915.1	19q13.42	2008-02-05				ENSG00000131037			21295	protein-coding gene	gene with protein product		614987				12620401	Standard	NM_133180		Approved	FLJ20258, DRC3, MGC23164, MGC4642	uc002qis.4	Q8TE68		ENST00000201647.6:c.429+232C>G	19.37:g.55591878C>G		Somatic		WXS	Illumina HiSeq		Q71RE2|Q8NC10|Q96BB7|Q9BSQ2|Q9GZQ2|Q9NXH0	Missense_Mutation	SNP	ENST00000201647.6	37	CCDS12914.1	.	.	.	.	.	.	.	.	.	.	C	4.831	0.154443	0.09236	.	.	ENSG00000131037	ENST00000245618;ENST00000539118	T	0.05649	3.41	2.3	-2.0	0.07433	.	.	.	.	.	T	0.04363	0.0120	.	.	.	0.09310	N	0.999995	B	0.02656	0.0	B	0.01281	0.0	T	0.40553	-0.9557	8	0.62326	D	0.03	.	3.2435	0.06789	0.4533:0.2805:0.2662:0.0	.	6	Q8TE68-2	.	R	6	ENSP00000245618:P6R	ENSP00000245618:P6R	P	+	2	0	EPS8L1	60283690	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-2.491000	0.00974	-0.646000	0.05452	-0.302000	0.09304	CCA		0.597	EPS8L1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000451713.1	NM_017729		G	55591878	C	G	55591878	1	3	701	0	1	0	0	0	0	0	0	0	5197	594	21	4		4	EPS8L1	19	55591878	Intron	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10	2207051	55591878	3537105	93	46099										
UBOX5	22888	bcgsc.ca	37	chr20	3102507	3102507	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	gggatccaggaactcctcagGcacatcctgaatgatctcgg	11	12	2	2			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr20:3102507G>A	ENST00000217173.2	-	3	1249	c.778C>T	c.(778-780)Cct>Tct	p.P260S	UBOX5-AS1_ENST00000446537.1_RNA|UBOX5_ENST00000348031.2_Missense_Mutation_p.P260S	NM_001267584.1|NM_014948.3	NP_001254513.1|NP_055763.1			U-box domain containing 5											endometrium(1)|kidney(2)|large_intestine(8)|lung(5)|ovary(2)|prostate(1)|skin(1)	20						AACTCCTCAGGCACATCCTGA	0.587																																																0													47	45	46					20																	3102507		2203	4300	6503	SO:0001583	missense	22888			AB020667	CCDS13046.1, CCDS13047.1	20p13	2013-01-28			ENSG00000185019	ENSG00000185019		"RING-type (C3HC4) zinc fingers", "U-box domain containing"	17777	protein-coding gene	gene with protein product						11274149	Standard	NM_014948		Approved	UIP5, KIAA0860, Ubce7ip5, RNF37	uc002whw.4	O94941	OTTHUMG00000031731	ENST00000217173.2:c.778C>T	20.37:g.3102507G>A	ENSP00000217173:p.Pro260Ser	Somatic		WXS	Illumina HiSeq	Phase_1		Missense_Mutation	SNP	ENST00000217173.2	37	CCDS13046.1	.	.	.	.	.	.	.	.	.	.	G	24.8	4.566214	0.86439	.	.	ENSG00000185019	ENST00000217173;ENST00000348031	T;T	0.65732	-0.17;-0.12	5.42	5.42	0.78866	Zinc finger, RING/FYVE/PHD-type (1);U box domain (1);	0.061903	0.64402	U	0.000003	D	0.86096	0.5851	H	0.95504	3.68	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.97110	1.0;1.0;1.0	D	0.90141	0.4213	10	0.87932	D	0	-11.3099	19.2336	0.93849	0.0:0.0:1.0:0.0	.	260;260;260	Q53GQ5;Q86X87;O94941	.;.;RNF37_HUMAN	S	260	ENSP00000217173:P260S;ENSP00000311726:P260S	ENSP00000217173:P260S	P	-	1	0	UBOX5	3050507	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	8.246000	0.89828	2.534000	0.85438	0.563000	0.77884	CCT		0.587	UBOX5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077706.2	NM_014948		A	3102507	G	A	3102507	3	1	701	1	0	0	0	0	1	0	0	0	16906	1203	42	2	859	2	UBOX5	20	3102507	Missense_Mutation	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10		3102507	59923013	94	46100										
TRPC4AP	26133	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	33603843	33603844	+	Frame_Shift_Ins	INS	-	-	AA													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	cagttctggttgtgaccatgINSgaggacaagggcagatgctg							TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr20:33603843_33603844insAA	ENST00000252015.2	-	10	1406_1407	c.1317_1318insTT	c.(1315-1320)ctccatfs	p.H440fs	TRPC4AP_ENST00000432634.2_Frame_Shift_Ins_p.H401fs|TRPC4AP_ENST00000451813.2_Frame_Shift_Ins_p.H432fs|TRPC4AP_ENST00000539834.1_Frame_Shift_Ins_p.H42fs			Q8TEL6	TP4AP_HUMAN	transient receptor potential cation channel, subfamily C, member 4 associated protein	440					calcium ion transmembrane transport (GO:0070588)|ion transmembrane transport (GO:0034220)|protein ubiquitination (GO:0016567)|transmembrane transport (GO:0055085)|ubiquitin-dependent protein catabolic process (GO:0006511)	Cul4A-RING E3 ubiquitin ligase complex (GO:0031464)|plasma membrane (GO:0005886)	phosphatase binding (GO:0019902)			breast(3)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(13)|skin(1)|stomach(1)|urinary_tract(1)	32			BRCA - Breast invasive adenocarcinoma(18;0.00936)			TTGTGACCATGGAGGACAAGGG	0.5																																																0																																										SO:0001589	frameshift_variant	26133			AF055022	CCDS13246.1, CCDS46591.1	20q11.23	2014-06-13	2003-10-06	2003-10-08	ENSG00000100991	ENSG00000100991			16181	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 158"	608430	"chromosome 20 open reading frame 188"	C20orf188			Standard	NM_015638		Approved	DKFZP727M231, DKFZp586C1223, dJ756N5.2, TRRP4AP, PPP1R158	uc002xbk.3	Q8TEL6	OTTHUMG00000032319	ENST00000252015.2:c.1317_1318insTT	20.37:g.33603843_33603844insAA	ENSP00000252015:p.His440fs	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5Q0|E1P5Q1|Q96H82|Q9BVB8|Q9H429|Q9UFS6	Frame_Shift_Ins	INS	ENST00000252015.2	37	CCDS13246.1																																																																																				0.5	TRPC4AP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000078832.2	NM_015638		AA	33603844	-	AA	33603843	7	5	701	1	0	1	1	0	0	0	0	0	16593	1348	47	0	1115	0	TRPC4AP	20	33603843	Frame_Shift_Ins	INS	-	TCGA-PJ-A5Z8-01A-11D-A28G-10	30501336	33603843	29421677	95	46101										
DLGAP4	22839	hgsc.bcm.edu	37	chr20	35064566	35064566	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tgctgtccccacgcgagacgGatgccgcggccgagggccct	15	16	0	1	rs199988815		TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr20:35064566G>A	ENST00000373907.2	+	3	1253	c.1054G>A	c.(1054-1056)Gat>Aat	p.D352N	DLGAP4_ENST00000373913.3_Missense_Mutation_p.D352N|DLGAP4_ENST00000401952.2_Missense_Mutation_p.D352N|DLGAP4_ENST00000339266.5_Missense_Mutation_p.D352N			Q9Y2H0	DLGP4_HUMAN	discs, large (Drosophila) homolog-associated protein 4	352					cell-cell signaling (GO:0007267)	membrane (GO:0016020)|synapse (GO:0045202)				breast(2)|central_nervous_system(1)|cervix(1)|endometrium(2)|large_intestine(3)|lung(20)|ovary(2)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	37	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				ACGCGAGACGGATGCCGCGGC	0.721																																																0								G	ASN/ASP	0,4334		0,0,2167	9	11	10		1054	4.2	0.2	20		10	2,8418		0,2,4208	no	missense	DLGAP4	NM_014902.4	23	0,2,6375	AA,AG,GG		0.0238,0.0,0.0157	benign	352/990	35064566	2,12752	2167	4210	6377	SO:0001583	missense	22839			AF088030	CCDS13274.1, CCDS13275.1	20q11.23	2010-02-05			ENSG00000080845	ENSG00000080845			24476	protein-coding gene	gene with protein product						9115257	Standard	XM_005260329		Approved	DAP4, KIAA0964, SAPAP4	uc010zvp.2	Q9Y2H0	OTTHUMG00000032390	ENST00000373907.2:c.1054G>A	20.37:g.35064566G>A	ENSP00000363014:p.Asp352Asn	Somatic		WXS	Illumina HiSeq	Phase_I	E1P5T5|Q5QPG4|Q5T2Y4|Q5T2Y5|Q9H137|Q9H138|Q9H1L7	Missense_Mutation	SNP	ENST00000373907.2	37		.	.	.	.	.	.	.	.	.	.	G	15.46	2.840492	0.51057	0.0	2.38E-4	ENSG00000080845	ENST00000373913;ENST00000401952;ENST00000373907;ENST00000339266	T;T;T;T	0.13538	2.58;2.58;2.58;2.58	4.22	4.22	0.49857	.	1.057480	0.07332	N	0.879344	T	0.12178	0.0296	N	0.22421	0.69	0.09310	N	1	B	0.19200	0.034	B	0.18871	0.023	T	0.22591	-1.0212	10	0.27082	T	0.32	.	13.7551	0.62933	0.0:0.0:1.0:0.0	.	352	Q9Y2H0-1	.	N	352	ENSP00000363023:D352N;ENSP00000384954:D352N;ENSP00000363014:D352N;ENSP00000341633:D352N	ENSP00000341633:D352N	D	+	1	0	DLGAP4	34497980	0.998000	0.40836	0.243000	0.24186	0.629000	0.37895	3.978000	0.56881	1.913000	0.55393	0.555000	0.69702	GAT		0.721	DLGAP4-007	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000079025.2	NM_014902		A	35064566	G	A	35064566	3	1	701	1	0	0	0	0	1	0	0	0	4564	1174	41	2	1060	2	DLGAP4	20	35064566	Missense_Mutation	SNP	G	TCGA-PJ-A5Z8-01A-11D-A28G-10	1460723	35064566	27960954	96	46102										
PRDM15	63977	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	43241557	43241557	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	tgcacctccatgatgtgcttCaggtactccttcccccggcc	8	17	1	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr21:43241557C>T	ENST00000269844.3	-	23	3134	c.3024G>A	c.(3022-3024)ctG>ctA	p.L1008L	PRDM15_ENST00000422911.1_Silent_p.L699L|PRDM15_ENST00000447207.2_Silent_p.L642L|PRDM15_ENST00000398548.1_Silent_p.L679L|PRDM15_ENST00000538201.1_Silent_p.L662L	NM_022115.3	NP_071398.3	P57071	PRD15_HUMAN	PR domain containing 15	1008					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|methyltransferase activity (GO:0008168)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|lung(11)|ovary(3)|skin(2)|stomach(2)|urinary_tract(1)	43						TGATGTGCTTCAGGTACTCCT	0.612																																																0													171	113	132					21																	43241557		2203	4300	6503	SO:0001819	synonymous_variant	63977			AF276513	CCDS13676.1, CCDS42932.1, CCDS63370.1	21q22.3	2013-01-08	2002-07-31		ENSG00000141956	ENSG00000141956		"Zinc fingers, C2H2-type"	13999	protein-coding gene	gene with protein product			"chromosome 21 open reading frame 83"	ZNF298, C21orf83		12036297, 12036298	Standard	NM_022115		Approved		uc002yzq.1	P57071	OTTHUMG00000086781	ENST00000269844.3:c.3024G>A	21.37:g.43241557C>T		Somatic		WXS	Illumina HiSeq	Phase_I	E9PDJ6|E9PF37|E9PGL3|Q4W8S0|Q4W8S3|Q4W8S4|Q4W8S5|Q8N0X3|Q8NEX0|Q9NQV3	Silent	SNP	ENST00000269844.3	37	CCDS13676.1																																																																																				0.612	PRDM15-201	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_022115		T	43241557	C	T	43241557	2	4	701	1	0	0	0	0	0	0	0	1	12466	813	29	2		2	PRDM15	21	43241557	Silent	SNP	C	TCGA-PJ-A5Z8-01A-11D-A28G-10		43241557	4888338	97	46103										
PLXNB2	23654	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr22	50716444	50716444	+	Splice_Site	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	caaactgctgcagtgtgcccTgtgggggggagggtctcagc	17	10	1	0			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chr22:50716444T>C	ENST00000449103.1	-	32	5028		c.e32-2		PLXNB2_ENST00000359337.4_Splice_Site			O15031	PLXB2_HUMAN	plexin B2						brain development (GO:0007420)|neural tube closure (GO:0001843)|neuroblast proliferation (GO:0007405)|positive regulation of axonogenesis (GO:0050772)|regulation of cell shape (GO:0008360)|regulation of neuron migration (GO:2001222)|regulation of protein phosphorylation (GO:0001932)|regulation of Rho GTPase activity (GO:0032319)|semaphorin-plexin signaling pathway (GO:0071526)	cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|intracellular (GO:0005622)	GTPase activator activity (GO:0005096)|semaphorin receptor activity (GO:0017154)			breast(2)|central_nervous_system(4)|cervix(2)|endometrium(11)|kidney(4)|large_intestine(3)|liver(1)|lung(20)|ovary(5)|prostate(6)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	66		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CAGTGTGCCCTGTGGGGGGGA	0.682																																																0													32	37	35					22																	50716444		2093	4223	6316	SO:0001630	splice_region_variant	23654				CCDS43035.1	22q13.33	2008-06-12			ENSG00000196576	ENSG00000196576		"Plexins"	9104	protein-coding gene	gene with protein product		604293				10520995, 12183458	Standard	NM_012401		Approved	MM1, KIAA0315, PLEXB2	uc003bkv.4	O15031	OTTHUMG00000150219	ENST00000449103.1:c.4888-2A>G	22.37:g.50716444T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A6QRH0|Q7KZU3|Q9BSU7	Splice_Site	SNP	ENST00000449103.1	37	CCDS43035.1	.	.	.	.	.	.	.	.	.	.	T	15.43	2.831563	0.50845	.	.	ENSG00000196576	ENST00000449103;ENST00000359337;ENST00000399991;ENST00000399964;ENST00000411680	.	.	.	4.08	4.08	0.47627	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	13.4923	0.61402	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	-	.	.	PLXNB2	49058571	1.000000	0.71417	0.983000	0.44433	0.517000	0.34286	7.524000	0.81866	1.827000	0.53221	0.402000	0.26972	.		0.682	PLXNB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316874.3	NM_012401	Intron	C	50716444	T	C	50716444	5	2	701	1	0	0	0	0	0	0	1	0	12131	1594	55	3	654	3	PLXNB2	22	50716444	Splice_Site	SNP	T	TCGA-PJ-A5Z8-01A-11D-A28G-10		50716444	588122	98	46104										
COL4A6	1288	bcgsc.ca	37	chrX	107430496	107430496	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	ccttttcacctgggaagcccTgtccaccatcaccctagaca	6	17	2	1			TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chrX:107430496T>A	ENST00000372216.4	-	23	1884	c.1784A>T	c.(1783-1785)cAg>cTg	p.Q595L	COL4A6_ENST00000538570.1_Missense_Mutation_p.Q594L|COL4A6_ENST00000394872.2_Missense_Mutation_p.Q595L|COL4A6_ENST00000334504.7_Missense_Mutation_p.Q594L|COL4A6_ENST00000545689.1_Missense_Mutation_p.Q594L	NM_001847.2	NP_001838.2	Q14031	CO4A6_HUMAN	collagen, type IV, alpha 6	595	Triple-helical region.				cell adhesion (GO:0007155)|cellular response to amino acid stimulus (GO:0071230)|collagen catabolic process (GO:0030574)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)	collagen type IV trimer (GO:0005587)|endoplasmic reticulum lumen (GO:0005788)|extracellular region (GO:0005576)	extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(20)|lung(41)|ovary(7)|prostate(1)|skin(1)|stomach(1)|urinary_tract(2)	92						TGGGAAGCCCTGTCCACCATC	0.488									Alport syndrome with Diffuse Leiomyomatosis																												Melanoma(87;1895 1945 2589 7165)											0													83	75	78					X																	107430496		2203	4300	6503	SO:0001583	missense	1288	Familial Cancer Database		U04845	CCDS14541.1, CCDS14542.1, CCDS76008.1, CCDS76009.1, CCDS76010.1	Xq22	2014-09-17			ENSG00000197565	ENSG00000197565		"Collagens"	2208	protein-coding gene	gene with protein product		303631				8356449	Standard	NM_033641		Approved		uc004env.4	Q14031	OTTHUMG00000022179	ENST00000372216.4:c.1784A>T	X.37:g.107430496T>A	ENSP00000361290:p.Gln595Leu	Somatic		WXS	Illumina HiSeq	Phase_1	Q12823|Q14053|Q5JYH6|Q5JYH8|Q9NQM5|Q9NTX3|Q9UJ76|Q9UMG6|Q9Y4L4	Missense_Mutation	SNP	ENST00000372216.4	37	CCDS14541.1	.	.	.	.	.	.	.	.	.	.	T	11.98	1.801554	0.31869	.	.	ENSG00000197565	ENST00000372216;ENST00000334504;ENST00000394872;ENST00000541389;ENST00000545689;ENST00000538570	D;D;D;D;D	0.94138	-3.36;-3.36;-3.24;-3.36;-3.24	5.2	-0.678	0.11353	.	0.455403	0.16593	N	0.207690	D	0.90920	0.7146	L	0.33339	1.005	0.09310	N	1	P;P;D;P	0.53885	0.955;0.955;0.963;0.955	P;P;P;P	0.57425	0.725;0.725;0.82;0.636	T	0.83084	-0.0136	10	0.46703	T	0.11	.	6.0005	0.19517	0.5972:0.0:0.1297:0.2731	.	594;594;595;594	F5H851;F5H3Q5;Q14031;Q14031-2	.;.;CO4A6_HUMAN;.	L	595;594;595;594;594;594	ENSP00000361290:Q595L;ENSP00000334733:Q594L;ENSP00000378340:Q595L;ENSP00000443707:Q594L;ENSP00000445236:Q594L	ENSP00000334733:Q594L	Q	-	2	0	COL4A6	107317152	0.009000	0.17119	0.015000	0.15790	0.791000	0.44710	0.903000	0.28475	-0.009000	0.14296	0.430000	0.28490	CAG		0.488	COL4A6-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000057875.2			A	107430496	T	A	107430496	3	1	701	1	0	0	0	0	1	0	0	0	3697	1580	55	5	3383	5	COL4A6	23	107430496	Missense_Mutation	SNP	T	TCGA-PJ-A5Z8-01A-11D-A28G-10		107430496	47840064	99	46105										
AVPR2	554	broad.mit.edu	37	chrX	153171162	153171163	+	Frame_Shift_Ins	INS	-	-	G													0.0404040404040404	4	1	0.992463069038288	0	1.39847068819031	0.06993006993007	1	0	cctagctcggcggggccggcINSggggccactgggcacccata					rs61733408	byFrequency	TCGA-PJ-A5Z8-01A-11D-A28G-10	TCGA-PJ-A5Z8-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8661bd12-fa20-4263-b1ab-034a4b225560	32a7ff68-4d91-4377-bc04-dd8688d15196	g.chrX:153171162_153171163insG	ENST00000358927.2	+	3	411_412	c.202_203insG	c.(202-204)cggfs	p.R68fs	AVPR2_ENST00000370049.1_Frame_Shift_Ins_p.R68fs|AVPR2_ENST00000337474.5_Frame_Shift_Ins_p.R68fs			P30518	V2R_HUMAN	arginine vasopressin receptor 2	68					activation of adenylate cyclase activity (GO:0007190)|adenylate cyclase-modulating G-protein coupled receptor signaling pathway (GO:0007188)|excretion (GO:0007588)|hemostasis (GO:0007599)|I-kappaB kinase/NF-kappaB signaling (GO:0007249)|interferon-gamma production (GO:0032609)|negative regulation of renal sodium excretion (GO:0035814)|negative regulation of urine volume (GO:0035811)|positive regulation of cell proliferation (GO:0008284)|positive regulation of gene expression (GO:0010628)|positive regulation of protein ubiquitination (GO:0031398)|positive regulation of systemic arterial blood pressure (GO:0003084)|response to cytokine (GO:0034097)|telencephalon development (GO:0021537)|transmembrane transport (GO:0055085)|water transport (GO:0006833)	endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	vasopressin receptor activity (GO:0005000)	p.R68W(1)		breast(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(12)|ovary(1)|skin(1)	26	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Conivaptan(DB00872)|Desmopressin(DB00035)|Terlipressin(DB02638)|Tolvaptan(DB06212)|Vasopressin(DB00067)	GCGGGGCCGGCGGGGCCACTGG	0.688																																																1	Substitution - Missense(1)	endometrium(1)																																								SO:0001589	frameshift_variant	554			Z11687	CCDS14735.1, CCDS55539.1	Xq28	2014-09-17	2008-08-01		ENSG00000126895	ENSG00000126895		"GPCR / Class A : Vasopressin and oxytocin receptors"	897	protein-coding gene	gene with protein product	"nephrogenic diabetes insipidus"	300538		DIR3, DIR		1324225	Standard	NM_000054		Approved	V2R	uc004fjh.4	P30518	OTTHUMG00000024227	ENST00000358927.2:c.206dupG	X.37:g.153171166_153171166dupG	ENSP00000351805:p.Arg68fs	Somatic		WXS	Illumina HiSeq	Phase_I	C5HF20|O43192|Q3MJD3|Q9UCV9	Frame_Shift_Ins	INS	ENST00000358927.2	37	CCDS14735.1																																																																																				0.688	AVPR2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000061127.2			G	153171163	-	G	153171162	7	5	701	1	0	1	1	0	0	0	0	0	1233	759	27	0	208	0	AVPR2	23	153171162	Frame_Shift_Ins	INS	-	TCGA-PJ-A5Z8-01A-11D-A28G-10	45740666	153171162	2099398	100	46106										
IL22RA1	58985	broad.mit.edu	37	chr1	24465122	24465122	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ggggtgccctccggcccgctGtcccacgtcaggatgttttc	13	15	1	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr1:24465122G>T	ENST00000270800.1	-	2	164	c.126C>A	c.(124-126)gaC>gaA	p.D42E		NM_021258.3	NP_067081.2	Q8N6P7	I22R1_HUMAN	interleukin 22 receptor, alpha 1	42	Fibronectin type-III 1. {ECO:0000255|PROSITE-ProRule:PRU00316}.				cytokine-mediated signaling pathway (GO:0019221)|defense response to Gram-negative bacterium (GO:0050829)	integral component of membrane (GO:0016021)	interferon receptor activity (GO:0004904)			breast(2)|endometrium(2)|large_intestine(4)|lung(7)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	19		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)		CCGGCCCGCTGTCCCACGTCA	0.592																																																0													95	90	91					1																	24465122		2203	4300	6503	SO:0001583	missense	58985			AF286095	CCDS247.1	1p36.11	2009-10-06	2002-12-02	2002-12-06	ENSG00000142677	ENSG00000142677		"Interleukins and interleukin receptors"	13700	protein-coding gene	gene with protein product		605457	"interleukin 22 receptor"	IL22R		10875937	Standard	NM_021258		Approved	CRF2-9	uc001biq.2	Q8N6P7	OTTHUMG00000003041	ENST00000270800.1:c.126C>A	1.37:g.24465122G>T	ENSP00000270800:p.Asp42Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K839|B2R9Y9|Q9HB22	Missense_Mutation	SNP	ENST00000270800.1	37	CCDS247.1	.	.	.	.	.	.	.	.	.	.	G	11.71	1.720222	0.30503	.	.	ENSG00000142677	ENST00000270800	T	0.72051	-0.62	5.11	-4.84	0.03151	Fibronectin, type III (2);Immunoglobulin-like fold (1);	0.653399	0.15693	N	0.249302	T	0.40743	0.1129	N	0.21545	0.675	0.18873	N	0.999988	B	0.02656	0.0	B	0.06405	0.002	T	0.44097	-0.9350	10	0.02654	T	1	-26.1547	4.4884	0.11801	0.0834:0.4551:0.2255:0.2361	.	42	Q8N6P7	I22R1_HUMAN	E	42	ENSP00000270800:D42E	ENSP00000270800:D42E	D	-	3	2	IL22RA1	24337709	0.000000	0.05858	0.105000	0.21289	0.781000	0.44180	-0.962000	0.03841	-0.414000	0.07495	-0.234000	0.12200	GAC		0.592	IL22RA1-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000008412.1			T	24465122	G	T	24465122	3	4	702	1	0	0	0	0	1	0	0	0	7680	1368	48	4	1622	4	IL22RA1	1	24465122	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10		24465122	224785499	1	46107										
TEKT2	27285	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	36552574	36552574	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	gatgacttcagtcggttcaaCaaggaccgagcggaggctga	14	9	2	2			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr1:36552574C>T	ENST00000207457.3	+	6	802	c.675C>T	c.(673-675)aaC>aaT	p.N225N	ADPRHL2_ENST00000373178.4_5'Flank	NM_014466.2	NP_055281.2	Q9UIF3	TEKT2_HUMAN	tektin 2 (testicular)	225					cell projection organization (GO:0030030)|inner dynein arm assembly (GO:0036159)|sperm motility (GO:0030317)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|motile cilium (GO:0031514)|nucleus (GO:0005634)				breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(1)|lung(2)|pancreas(1)|skin(2)	13		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GTCGGTTCAACAAGGACCGAG	0.592																																																0													58	54	55					1																	36552574		2203	4300	6503	SO:0001819	synonymous_variant	27285			AB033823	CCDS401.1	1p34.3	2008-02-05			ENSG00000092850	ENSG00000092850			11725	protein-coding gene	gene with protein product		608953				12029069, 11751288	Standard	NM_014466		Approved	TEKTB1	uc001bzr.3	Q9UIF3	OTTHUMG00000007629	ENST00000207457.3:c.675C>T	1.37:g.36552574C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NIS6|O60638	Silent	SNP	ENST00000207457.3	37	CCDS401.1																																																																																				0.592	TEKT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000020200.1	NM_014466		T	36552574	C	T	36552574	2	4	702	1	0	0	0	0	0	0	0	1	15765	477	17	2		2	TEKT2	1	36552574	Silent	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	12087452	36552574	212698047	2	46108										
SLC35D1	23169	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	67519574	67519574	+	Silent	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	aagccggcggccagcagcttCagaaacacggtcagcgtttc	12	13	2	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr1:67519574C>A	ENST00000235345.5	-	1	208	c.123G>T	c.(121-123)ctG>ctT	p.L41L	SLC35D1_ENST00000506472.2_5'Flank	NM_015139.2	NP_055954.1	Q9NTN3	S35D1_HUMAN	solute carrier family 35 (UDP-GlcA/UDP-GalNAc transporter), member D1	41					carbohydrate transport (GO:0008643)|cellular glucuronidation (GO:0052695)|chondroitin sulfate biosynthetic process (GO:0030206)|embryonic skeletal system development (GO:0048706)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)|UDP-glucuronate biosynthetic process (GO:0006065)|UDP-glucuronic acid transport (GO:0015787)|xenobiotic metabolic process (GO:0006805)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)	UDP-glucuronic acid transmembrane transporter activity (GO:0005461)			endometrium(2)|kidney(1)|large_intestine(3)|lung(4)	10						CCAGCAGCTTCAGAAACACGG	0.612																																																0													47	50	49					1																	67519574		2203	4300	6503	SO:0001819	synonymous_variant	23169			AB044343	CCDS636.1	1p32-p31	2013-07-17	2013-07-17		ENSG00000116704	ENSG00000116704		"Solute carriers"	20800	protein-coding gene	gene with protein product		610804	"solute carrier family 35 (UDP-glucuronic acid/UDP-N-acetylgalactosamine dual transporter), member D1"			11322953	Standard	NM_015139		Approved	UGTREL7, KIAA0260	uc001ddk.2	Q9NTN3	OTTHUMG00000009360	ENST00000235345.5:c.123G>T	1.37:g.67519574C>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K185|B7Z3X2|Q52LU5|Q92548	Silent	SNP	ENST00000235345.5	37	CCDS636.1																																																																																				0.612	SLC35D1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000025948.1	NM_015139		A	67519574	C	A	67519574	2	1	702	1	0	0	0	0	0	0	0	1	14594	813	29	4		4	SLC35D1	1	67519574	Silent	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	30967000	67519574	181731047	3	46109										
C1orf173	127254	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	75037280	75037280	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	aaaggaggaggctttatttgCtattgttttctcctcggctg	11	7	1	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr1:75037280C>A	ENST00000326665.5	-	14	4332	c.4114G>T	c.(4114-4116)Gca>Tca	p.A1372S	C1orf173_ENST00000433746.2_5'UTR	NM_001002912.4	NP_001002912.4	Q5RHP9	ERIC3_HUMAN		1372	Glu-rich.									NS(1)|breast(1)|central_nervous_system(1)|endometrium(3)|kidney(3)|large_intestine(23)|lung(123)|ovary(3)|prostate(10)|skin(10)|stomach(1)|upper_aerodigestive_tract(5)	184						GCTTTATTTGCTATTGTTTTC	0.522																																																0													130	133	132					1																	75037280		2203	4300	6503	SO:0001583	missense	127254																														ENST00000326665.5:c.4114G>T	1.37:g.75037280C>A	ENSP00000322609:p.Ala1372Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q68DL8|Q6GMR8|Q6ZSF9|Q8ND41	Missense_Mutation	SNP	ENST00000326665.5	37	CCDS30755.1	.	.	.	.	.	.	.	.	.	.	C	8.132	0.783370	0.16189	.	.	ENSG00000178965	ENST00000326665	T	0.14516	2.5	5.0	3.1	0.35709	.	.	.	.	.	T	0.02688	0.0081	N	0.24115	0.695	0.09310	N	1	B	0.15473	0.013	B	0.16289	0.015	T	0.45789	-0.9237	9	0.18710	T	0.47	-4.6121	10.2042	0.43103	0.0:0.7597:0.0:0.2403	.	1372	Q5RHP9	CA173_HUMAN	S	1372	ENSP00000322609:A1372S	ENSP00000322609:A1372S	A	-	1	0	C1orf173	74809868	0.148000	0.22702	0.009000	0.14445	0.260000	0.26232	0.903000	0.28475	0.528000	0.28580	-1.134000	0.01955	GCA		0.522	C1orf173-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000026516.1			A	75037280	C	A	75037280	3	1	702	1	0	0	0	0	1	0	0	0	2016	797	28	4	482	4	C1orf173	1	75037280	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	7517706	75037280	174213341	4	46110										
USP33	23032	broad.mit.edu;bcgsc.ca	37	chr1	78194350	78194350	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tccatgacttgctctttcaaTtcttcatgaagcaaatccat	4	11	4	2			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr1:78194350T>C	ENST00000370793.1	-	11	1204	c.858A>G	c.(856-858)gaA>gaG	p.E286E	USP33_ENST00000370792.3_Silent_p.E286E|USP33_ENST00000357428.1_Silent_p.E286E|USP33_ENST00000370794.3_Silent_p.E255E	NM_015017.4	NP_055832.3	Q8TEY7	UBP33_HUMAN	ubiquitin specific peptidase 33	286	USP.				axon guidance (GO:0007411)|cell migration (GO:0016477)|centrosome duplication (GO:0051298)|endocytosis (GO:0006897)|protein deubiquitination (GO:0016579)|protein K48-linked deubiquitination (GO:0071108)|protein K63-linked deubiquitination (GO:0070536)|regulation of G-protein coupled receptor protein signaling pathway (GO:0008277)|ubiquitin-dependent protein catabolic process (GO:0006511)	cell body (GO:0044297)|centrosome (GO:0005813)|cytoplasm (GO:0005737)|Golgi apparatus (GO:0005794)|VCB complex (GO:0030891)	cysteine-type endopeptidase activity (GO:0004197)|G-protein coupled receptor binding (GO:0001664)|ubiquitin thiolesterase activity (GO:0004221)|ubiquitin-specific protease activity (GO:0004843)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|endometrium(4)|kidney(4)|large_intestine(10)|lung(19)|ovary(1)|prostate(2)|urinary_tract(1)	44						GCTCTTTCAATTCTTCATGAA	0.368																																					Melanoma(152;72 1870 11110 26780 42647)											0													125	110	115					1																	78194350		2203	4300	6503	SO:0001819	synonymous_variant	23032			AF383173	CCDS678.1, CCDS679.1, CCDS680.1	1p31	2008-02-05	2005-08-08		ENSG00000077254	ENSG00000077254		"Ubiquitin-specific peptidases"	20059	protein-coding gene	gene with protein product		615146	"ubiquitin specific protease 33"			12838346	Standard	NM_015017		Approved	KIAA1097, VDU1	uc001dht.4	Q8TEY7	OTTHUMG00000009651	ENST00000370793.1:c.858A>G	1.37:g.78194350T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q8TEY6|Q96AV6|Q9H9F0|Q9UPQ5	Silent	SNP	ENST00000370793.1	37	CCDS678.1																																																																																				0.368	USP33-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000026923.2	NM_015017		C	78194350	T	C	78194350	2	2	702	1	0	0	0	0	0	0	0	1	17076	1490	52	3		3	USP33	1	78194350	Silent	SNP	T	TCGA-PJ-A5Z9-01A-11D-A28G-10	3157070	78194350	171056271	5	46111										
ABCA4	24	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	94546179	94546179	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ccacacaggaggtcagacagGatgcccatcagctttgtaaa	10	11	2	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr1:94546179G>A	ENST00000370225.3	-	8	1040	c.954C>T	c.(952-954)atC>atT	p.I318I	ABCA4_ENST00000535735.1_Silent_p.I318I	NM_000350.2	NP_000341.2	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 4	318					phospholipid transfer to membrane (GO:0006649)|photoreceptor cell maintenance (GO:0045494)|phototransduction, visible light (GO:0007603)|retinoid metabolic process (GO:0001523)|transmembrane transport (GO:0055085)|transport (GO:0006810)|visual perception (GO:0007601)	integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|photoreceptor disc membrane (GO:0097381)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)|phospholipid-translocating ATPase activity (GO:0004012)|transporter activity (GO:0005215)			NS(2)|breast(6)|central_nervous_system(5)|endometrium(9)|haematopoietic_and_lymphoid_tissue(5)|kidney(10)|large_intestine(25)|lung(57)|ovary(4)|pancreas(1)|prostate(4)|skin(10)|stomach(4)|upper_aerodigestive_tract(3)|urinary_tract(2)	147		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		GGTCAGACAGGATGCCCATCA	0.542																																																0													99	91	94					1																	94546179		2203	4300	6503	SO:0001819	synonymous_variant	24			U88667	CCDS747.1	1p22	2013-01-23			ENSG00000198691	ENSG00000198691		"ATP binding cassette transporters / subfamily A"	34	protein-coding gene	gene with protein product	"Stargardt disease"	601691	"ATP-binding cassette transporter, retinal-specific"	STGD1, ABCR, RP19, STGD		9490294	Standard	NM_000350		Approved	FFM, ARMD2, CORD3	uc001dqh.3	P78363	OTTHUMG00000010622	ENST00000370225.3:c.954C>T	1.37:g.94546179G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O15112|O60438|O60915|Q0QD48|Q4LE31	Silent	SNP	ENST00000370225.3	37	CCDS747.1																																																																																				0.542	ABCA4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000029320.1	NM_000350		A	94546179	G	A	94546179	2	1	702	1	0	0	0	0	0	0	0	1	34	1164	41	2		2	ABCA4	1	94546179	Silent	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	16351829	94546179	154704442	6	46112										
SLC30A7	148867	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	101387350	101387350	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	caaaattttggtctgatgatAgcagatcctatctgttcaat	7	7	3	3			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr1:101387350A>G	ENST00000370112.4	+	8	982	c.795A>G	c.(793-795)atA>atG	p.I265M	SLC30A7_ENST00000357650.4_Missense_Mutation_p.I265M	NM_001144884.1|NM_133496.4	NP_001138356.1|NP_598003.2	Q8NEW0	ZNT7_HUMAN	solute carrier family 30 (zinc transporter), member 7	265					cellular protein metabolic process (GO:0044267)|sequestering of zinc ion (GO:0032119)|transmembrane transport (GO:0055085)|zinc ion transport (GO:0006829)	cytoplasm (GO:0005737)|cytoplasmic membrane-bounded vesicle (GO:0016023)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|Golgi membrane (GO:0000139)|integral component of membrane (GO:0016021)|perinuclear region of cytoplasm (GO:0048471)|vesicle (GO:0031982)	cation transmembrane transporter activity (GO:0008324)			endometrium(3)|large_intestine(2)|lung(10)	15		all_epithelial(167;0.000445)|all_lung(203;0.00645)|Lung NSC(277;0.0119)		Epithelial(280;0.0437)|all cancers(265;0.0498)|COAD - Colon adenocarcinoma(174;0.162)|Colorectal(144;0.19)|Lung(183;0.201)		GTCTGATGATAGCAGATCCTA	0.328																																					NSCLC(91;473 1491 3102 16827 21633)											0													166	157	160					1																	101387350		2202	4299	6501	SO:0001583	missense	148867			AF233345	CCDS776.1	1p21.1	2013-05-22			ENSG00000162695	ENSG00000162695		"Solute carriers"	19306	protein-coding gene	gene with protein product		611149				12446736	Standard	NM_133496		Approved	ZnTL2, ZNT7	uc001dto.2	Q8NEW0	OTTHUMG00000011815	ENST00000370112.4:c.795A>G	1.37:g.101387350A>G	ENSP00000359130:p.Ile265Met	Somatic		WXS	Illumina HiSeq	Phase_I	B2R949|D3DT61|Q8TCH2	Missense_Mutation	SNP	ENST00000370112.4	37	CCDS776.1	.	.	.	.	.	.	.	.	.	.	A	18.12	3.552196	0.65311	.	.	ENSG00000162695	ENST00000370112;ENST00000357650	T;T	0.64803	-0.12;-0.12	5.62	4.46	0.54185	.	0.000000	0.85682	D	0.000000	T	0.69477	0.3115	M	0.83692	2.655	0.80722	D	1	D	0.76494	0.999	D	0.74023	0.982	T	0.72232	-0.4353	10	0.48119	T	0.1	-9.0402	7.9394	0.29950	0.721:0.1427:0.0:0.1363	.	265	Q8NEW0	ZNT7_HUMAN	M	265	ENSP00000359130:I265M;ENSP00000350278:I265M	ENSP00000350278:I265M	I	+	3	3	SLC30A7	101159938	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	1.388000	0.34442	0.920000	0.36970	0.533000	0.62120	ATA		0.328	SLC30A7-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000032711.1	NM_133496		G	101387350	A	G	101387350	3	3	702	1	0	0	0	0	1	0	0	0	14573	410	15	3	825	3	SLC30A7	1	101387350	Missense_Mutation	SNP	A	TCGA-PJ-A5Z9-01A-11D-A28G-10	6841171	101387350	147863271	7	46113										
FCGR2C	2214	broad.mit.edu	37	chr1	161559585	161559585	+	Intron	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	gccagaccagcctcagcgacCctgtgcatctgactgtgctt	10	15	2	2			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr1:161559585C>T	ENST00000540048.1	-	2	94				FCGR2C_ENST00000473530.2_RNA|FCGR2B_ENST00000367960.5_Intron|FCGR2C_ENST00000466542.2_RNA|FCGR2B_ENST00000428605.2_Intron|FCGR2B_ENST00000403078.3_Intron|RP11-25K21.6_ENST00000537821.2_RNA|FCGR2B_ENST00000367962.4_Intron			P08637	FCG3A_HUMAN	Fc fragment of IgG, low affinity IIIa, receptor (CD16a)						Fc-gamma receptor signaling pathway involved in phagocytosis (GO:0038096)|immune response (GO:0006955)|innate immune response (GO:0045087)|regulation of immune response (GO:0050776)	external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(14)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	24	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Intravenous Immunoglobulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CCTCAGCGACCCTGTGCATCT	0.587																																																0													27	28	28					1																	161559585		2149	4150	6299	SO:0001627	intron_variant	9103			BC036723	CCDS1232.1, CCDS44266.1	1q23	2014-09-17	2005-02-02		ENSG00000203747	ENSG00000203747		"CD molecules", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	3619	protein-coding gene	gene with protein product		146740	"Fc fragment of IgG, low affinity IIIa, receptor for (CD16)"	FCGR3, FCG3		2139735	Standard	NM_001127592		Approved	CD16, CD16a	uc001gar.3	P08637	OTTHUMG00000034466	ENST00000540048.1:c.61+40572G>A	1.37:g.161559585C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A2N6W9|Q53FJ0|Q53FL6|Q5EBR4|Q65ZM6|Q6PIJ0	RNA	SNP	ENST00000540048.1	37																																																																																					0.587	FCGR3A-203	KNOWN	basic|appris_principal	protein_coding	protein_coding		NM_000569		T	161559585	C	T	161559585	1	4	702	0	1	0	0	0	0	0	0	0	5790	623	22	2		2	FCGR2C	1	161559585	Intron	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	60172235	161559585	87691036	8	46114										
MIA3	375056	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr1	222803477	222803477	+	Frame_Shift_Del	DEL	A	A	-													0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	gagcctgccctataatatggAaaaagtcctagataaggtct							TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr1:222803477delA	ENST00000344922.5	+	4	2940	c.2915delA	c.(2914-2916)gaafs	p.E972fs	MIA3_ENST00000344441.6_Frame_Shift_Del_p.E972fs|MIA3_ENST00000344507.1_Intron|MIA3_ENST00000470521.1_3'UTR	NM_198551.2	NP_940953.2	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	972					chondrocyte development (GO:0002063)|collagen fibril organization (GO:0030199)|exocytosis (GO:0006887)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell migration (GO:0030336)|positive regulation of bone mineralization (GO:0030501)|positive regulation of leukocyte migration (GO:0002687)|protein transport (GO:0015031)|wound healing (GO:0042060)	endoplasmic reticulum membrane (GO:0005789)|integral component of membrane (GO:0016021)|membrane (GO:0016020)		p.V974fs*4(1)		breast(5)|central_nervous_system(2)|endometrium(3)|kidney(2)|large_intestine(15)|lung(37)|ovary(5)|pancreas(2)|prostate(2)|skin(2)|stomach(4)|urinary_tract(1)	80				GBM - Glioblastoma multiforme(131;0.0199)		TATAATATGGAAAAAGTCCTA	0.428																																																1	Insertion - Frameshift(1)	large_intestine(1)											74	72	73					1																	222803477		1967	4169	6136	SO:0001589	frameshift_variant	375056				CCDS41470.1, CCDS73035.1	1p36.33	2012-12-13		2006-07-25	ENSG00000154305	ENSG00000154305			24008	protein-coding gene	gene with protein product	"C219 reactive peptide", "transport and golgi organization"	613455				15183315	Standard	XM_005273121		Approved	UNQ6077, FLJ39207, KIAA0268, TANGO	uc001hnl.3	Q5JRA6	OTTHUMG00000037543	ENST00000344922.5:c.2915delA	1.37:g.222803477delA	ENSP00000340900:p.Glu972fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K2S0|A8MT05|A8MT13|B7Z430|Q14083|Q3S4X3|Q5JRA5|Q5JRB0|Q5JRB1|Q5JRB2|Q6UVY8|Q86Y60|Q8N8M5|Q92580	Frame_Shift_Del	DEL	ENST00000344922.5	37	CCDS41470.1																																																																																				0.428	MIA3-001	NOVEL	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000091489.4	NM_198551		-	222803477	A	-	222803477	7	5	702	1	0	1	0	1	0	0	0	0	9572	246	9	0	2929	0	MIA3	1	222803477	Frame_Shift_Del	DEL	A	TCGA-PJ-A5Z9-01A-11D-A28G-10	61243892	222803477	26447144	9	46115										
IRF2BP2	359948	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	234743060	234743060	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tgtctggagcaagggaagcaGaacttgtgcgaagggacgga	17	6	1	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr1:234743060G>A	ENST00000366609.3	-	2	1617	c.1587C>T	c.(1585-1587)ttC>ttT	p.F529F	IRF2BP2_ENST00000366610.3_Silent_p.F513F|IRF2BP2_ENST00000491430.1_5'UTR|RP4-781K5.2_ENST00000436039.1_RNA	NM_182972.2	NP_892017.2	Q7Z5L9	I2BP2_HUMAN	interferon regulatory factor 2 binding protein 2	529	Cys-rich.				regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(5)|skin(1)|upper_aerodigestive_tract(1)	11	Ovarian(103;0.0303)	all_cancers(173;0.0236)|Prostate(94;0.0115)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)|Epithelial(3;6.2e-05)			AAGGGAAGCAGAACTTGTGCG	0.587																																																0													81	87	85					1																	234743060		2203	4300	6503	SO:0001819	synonymous_variant	359948			AY278023	CCDS1602.1, CCDS41475.1	1q42.3	2008-02-05			ENSG00000168264	ENSG00000168264			21729	protein-coding gene	gene with protein product		615332				12799427	Standard	NM_182972		Approved	IRF-2BP2	uc001hwg.3	Q7Z5L9	OTTHUMG00000037981	ENST00000366609.3:c.1587C>T	1.37:g.234743060G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B1AM35|B1AM36|Q6P083|Q7Z5L8|Q8N351|Q8WUH8	Silent	SNP	ENST00000366609.3	37	CCDS1602.1																																																																																				0.587	IRF2BP2-002	NOVEL	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000092705.1	NM_182972		A	234743060	G	A	234743060	2	1	702	1	0	0	0	0	0	0	0	1	7837	933	33	2		2	IRF2BP2	1	234743060	Silent	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	11939583	234743060	14507561	10	46116										
LRP1B	53353	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	141771172	141771172	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	gaagcccaaataggggtggtCtttcatgcctcagcaatgtc	11	10	3	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr2:141771172C>A	ENST00000389484.3	-	14	3304	c.2333G>T	c.(2332-2334)aGa>aTa	p.R778I		NM_018557.2	NP_061027.2	Q9NZR2	LRP1B_HUMAN	low density lipoprotein receptor-related protein 1B	778					protein transport (GO:0015031)|receptor-mediated endocytosis (GO:0006898)	integral component of membrane (GO:0016021)|receptor complex (GO:0043235)	calcium ion binding (GO:0005509)|low-density lipoprotein receptor activity (GO:0005041)			NS(5)|autonomic_ganglia(1)|biliary_tract(1)|breast(3)|central_nervous_system(7)|endometrium(25)|haematopoietic_and_lymphoid_tissue(10)|kidney(27)|large_intestine(98)|liver(4)|lung(337)|ovary(15)|pancreas(6)|prostate(11)|skin(30)|stomach(2)|upper_aerodigestive_tract(19)|urinary_tract(5)	606		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)		TAGGGGTGGTCTTTCATGCCT	0.343										TSP Lung(27;0.18)																											Colon(99;50 2074 2507 20106)											0													143	136	138					2																	141771172		2203	4300	6503	SO:0001583	missense	53353			AF176832	CCDS2182.1	2q21.2	2013-05-29	2010-01-26		ENSG00000168702	ENSG00000168702		"Low density lipoprotein receptors"	6693	protein-coding gene	gene with protein product	"LRP-deleted in tumors"	608766				10766186	Standard	NM_018557		Approved	LRP-DIT, LRPDIT	uc002tvj.1	Q9NZR2	OTTHUMG00000131799	ENST00000389484.3:c.2333G>T	2.37:g.141771172C>A	ENSP00000374135:p.Arg778Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q8WY29|Q8WY30|Q8WY31	Missense_Mutation	SNP	ENST00000389484.3	37	CCDS2182.1	.	.	.	.	.	.	.	.	.	.	C	21.6	4.167516	0.78339	.	.	ENSG00000168702	ENST00000389484;ENST00000544579	D	0.90732	-2.72	5.64	5.64	0.86602	Six-bladed beta-propeller, TolB-like (1);	0.000000	0.85682	U	0.000000	D	0.93103	0.7804	L	0.41961	1.31	0.80722	D	1	D	0.76494	0.999	D	0.80764	0.994	D	0.90084	0.4172	10	0.18710	T	0.47	.	19.7014	0.96054	0.0:1.0:0.0:0.0	.	778	Q9NZR2	LRP1B_HUMAN	I	778;716	ENSP00000374135:R778I	ENSP00000374135:R778I	R	-	2	0	LRP1B	141487642	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	5.938000	0.70170	2.660000	0.90430	0.563000	0.77884	AGA		0.343	LRP1B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254736.2	NM_018557		A	141771172	C	A	141771172	3	1	702	1	0	0	0	0	1	0	0	0	8962	913	32	4	11778	4	LRP1B	2	141771172	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10		141771172	101428201	11	46117										
GRB14	2888	hgsc.bcm.edu	37	chr2	165477654	165477654	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tgcagcacagccgcgggtccCgtccggaaggggcaggagcg	18	13	0	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr2:165477654C>G	ENST00000263915.3	-	1	704	c.166G>C	c.(166-168)Ggg>Cgg	p.G56R		NM_004490.2	NP_004481.2	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14	56					blood coagulation (GO:0007596)|leukocyte migration (GO:0050900)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|endosome (GO:0005768)|Golgi apparatus (GO:0005794)|intracellular membrane-bounded organelle (GO:0043231)|plasma membrane (GO:0005886)	SH3/SH2 adaptor activity (GO:0005070)			breast(3)|endometrium(2)|large_intestine(6)|lung(10)|ovary(7)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	32						CCGCGGGTCCCGTCCGGAAGG	0.771																																																0													2	3	3					2																	165477654		1387	3094	4481	SO:0001583	missense	2888				CCDS2222.1	2q22-q24	2013-02-14			ENSG00000115290	ENSG00000115290		"Pleckstrin homology (PH) domain containing", "SH2 domain containing"	4565	protein-coding gene	gene with protein product		601524				8812444	Standard	XM_005246477		Approved		uc002ucl.3	Q14449	OTTHUMG00000132135	ENST00000263915.3:c.166G>C	2.37:g.165477654C>G	ENSP00000263915:p.Gly56Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z7F9|Q7Z6I1	Missense_Mutation	SNP	ENST00000263915.3	37	CCDS2222.1	.	.	.	.	.	.	.	.	.	.	C	14.78	2.638721	0.47153	.	.	ENSG00000115290	ENST00000263915	T	0.23552	1.9	3.52	3.52	0.40303	.	0.650759	0.12693	N	0.447067	T	0.14570	0.0352	N	0.08118	0	0.80722	D	1	B	0.28055	0.199	B	0.28139	0.086	T	0.10660	-1.0620	10	0.66056	D	0.02	-0.5305	10.4807	0.44691	0.0:1.0:0.0:0.0	.	56	Q14449	GRB14_HUMAN	R	56	ENSP00000263915:G56R	ENSP00000263915:G56R	G	-	1	0	GRB14	165185900	0.128000	0.22383	0.967000	0.41034	0.993000	0.82548	1.792000	0.38754	1.822000	0.53115	0.585000	0.79938	GGG		0.771	GRB14-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255180.2			G	165477654	C	G	165477654	3	3	702	1	0	0	0	0	1	0	0	0	6764	652	23	4	1512	4	GRB14	2	165477654	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	23706482	165477654	77721719	12	46118										
RNF25	64320	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	219536685	219536685	+	Silent	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	cctgcagctgcagacgcagaCgccgccatatcttcaccggc	10	17	2	2			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr2:219536685C>G	ENST00000295704.2	-	1	449	c.9G>C	c.(7-9)gcG>gcC	p.A3A	STK36_ENST00000440309.1_5'Flank|STK36_ENST00000295709.3_5'Flank|STK36_ENST00000392106.2_5'Flank|STK36_ENST00000392105.3_5'Flank	NM_022453.2	NP_071898.2	Q96BH1	RNF25_HUMAN	ring finger protein 25	3					positive regulation of NF-kappaB transcription factor activity (GO:0051092)|protein ubiquitination (GO:0016567)	cytosol (GO:0005829)|nucleus (GO:0005634)	ligase activity (GO:0016874)|NF-kappaB binding (GO:0051059)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(2)|lung(6)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	24		Renal(207;0.0474)		Epithelial(149;6.99e-07)|all cancers(144;0.000129)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CAGACGCAGACGCCGCCATAT	0.612																																																0													33	35	34					2																	219536685		2203	4300	6503	SO:0001819	synonymous_variant	64320				CCDS2420.1	2q35	2008-02-05			ENSG00000163481	ENSG00000163481		"RING-type (C3HC4) zinc fingers"	14662	protein-coding gene	gene with protein product						12748188	Standard	NM_022453		Approved	AO7, FLJ13906	uc002vit.3	Q96BH1	OTTHUMG00000133077	ENST00000295704.2:c.9G>C	2.37:g.219536685C>G		Somatic		WXS	Illumina HiSeq	Phase_I	A8K0D6|Q53HQ5|Q9H874	Silent	SNP	ENST00000295704.2	37	CCDS2420.1																																																																																				0.612	RNF25-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256721.1	NM_022453		G	219536685	C	G	219536685	2	3	702	1	0	0	0	0	0	0	0	1	13498	523	19	4		4	RNF25	2	219536685	Silent	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	54059031	219536685	23662688	13	46119										
ATG9A	79065	hgsc.bcm.edu	37	chr2	220085516	220085516	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ctccgagccctcttcgggcaCgggctcagggtgccttgatg	14	14	2	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr2:220085516C>T	ENST00000409618.1	-	15	2906	c.2467G>A	c.(2467-2469)Gtg>Atg	p.V823M	ABCB6_ENST00000439002.2_5'Flank|ATG9A_ENST00000409422.1_Missense_Mutation_p.V762M|ATG9A_ENST00000361242.4_Missense_Mutation_p.V823M|ABCB6_ENST00000265316.3_5'Flank|ATG9A_ENST00000396761.2_Missense_Mutation_p.V823M			Q7Z3C6	ATG9A_HUMAN	autophagy related 9A	823					autophagic vacuole assembly (GO:0000045)|late nucleophagy (GO:0044805)|mitochondrion degradation (GO:0000422)|piecemeal microautophagy of nucleus (GO:0034727)|protein localization to pre-autophagosomal structure (GO:0034497)|protein transport (GO:0015031)	autophagic vacuole (GO:0005776)|cytoplasmic vesicle (GO:0031410)|endoplasmic reticulum (GO:0005783)|endosome (GO:0005768)|integral component of membrane (GO:0016021)|late endosome (GO:0005770)|membrane (GO:0016020)|pre-autophagosomal structure (GO:0000407)|recycling endosome (GO:0055037)|trans-Golgi network (GO:0005802)				endometrium(2)|large_intestine(5)|lung(3)|prostate(1)|skin(1)|stomach(1)	13		Renal(207;0.0474)		Epithelial(149;1.37e-06)|all cancers(144;0.000222)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCTTCGGGCACGGGCTCAGGG	0.607																																																0													46	47	47					2																	220085516		1899	4124	6023	SO:0001583	missense	79065			AK021732	CCDS42820.1	2q35	2014-02-12	2012-06-06	2005-09-11	ENSG00000198925	ENSG00000198925			22408	protein-coding gene	gene with protein product		612204	"APG9 autophagy 9-like 1 (S. cerevisiae)", "ATG9 autophagy related 9 homolog A (S. cerevisiae)"	APG9L1			Standard	NM_024085		Approved	FLJ22169	uc002vkf.1	Q7Z3C6	OTTHUMG00000154557	ENST00000409618.1:c.2467G>A	2.37:g.220085516C>T	ENSP00000386710:p.Val823Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q3ZAQ6|Q6P0N7|Q7Z317|Q7Z320|Q8NDK6|Q8WU65|Q9BVL5|Q9H6L1|Q9HAG7	Missense_Mutation	SNP	ENST00000409618.1	37	CCDS42820.1	.	.	.	.	.	.	.	.	.	.	C	16.25	3.071397	0.55646	.	.	ENSG00000198925	ENST00000396761;ENST00000409618;ENST00000361242;ENST00000409422	T;T;T;T	0.72725	-0.68;-0.68;-0.68;-0.68	5.06	5.06	0.68205	.	0.064569	0.64402	D	0.000010	T	0.65984	0.2744	L	0.34521	1.04	0.46874	D	0.999238	D	0.58268	0.982	P	0.44732	0.459	T	0.70722	-0.4794	10	0.56958	D	0.05	-11.0302	18.6114	0.91286	0.0:1.0:0.0:0.0	.	823	Q7Z3C6	ATG9A_HUMAN	M	823;823;823;762	ENSP00000379983:V823M;ENSP00000386710:V823M;ENSP00000355173:V823M;ENSP00000386535:V762M	ENSP00000355173:V823M	V	-	1	0	ATG9A	219793760	0.997000	0.39634	0.956000	0.39512	0.708000	0.40852	3.656000	0.54467	2.627000	0.88993	0.655000	0.94253	GTG		0.607	ATG9A-004	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335930.1	NM_024085		T	220085516	C	T	220085516	3	4	702	1	0	0	0	0	1	0	0	0	1102	536	19	1	60	1	ATG9A	2	220085516	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	548831	220085516	23113857	14	46120										
DES	1674	hgsc.bcm.edu	37	chr2	220283244	220283245	+	Missense_Mutation	DNP	GG	GG	AT													0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	taccgccgcaccttcggcggGgccccgggcttcccactcgg					rs1058253		TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr2:220283244_220283245GG>AT	ENST00000373960.3	+	1	146_147	c.60_61GG>AT	c.(58-63)ggGGcc>ggATcc	p.A21S		NM_001927.3	NP_001918.3	P17661	DESM_HUMAN	desmin	21	Head.				cytoskeleton organization (GO:0007010)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|regulation of heart contraction (GO:0008016)	cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|fascia adherens (GO:0005916)|intermediate filament (GO:0005882)|neuromuscular junction (GO:0031594)|sarcolemma (GO:0042383)|Z disc (GO:0030018)	cytoskeletal protein binding (GO:0008092)|identical protein binding (GO:0042802)|structural constituent of cytoskeleton (GO:0005200)			breast(1)|central_nervous_system(2)|endometrium(2)|large_intestine(2)|lung(10)|skin(1)	18		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)		CCTTCGGCGGGGCCCCGGGCTT	0.733																																																0																																										SO:0001583	missense	1674			AF521879	CCDS33383.1	2q35	2014-09-17			ENSG00000175084	ENSG00000175084		"Intermediate filaments type III"	2770	protein-coding gene	gene with protein product	"intermediate filament protein"	125660				2673923, 9736733	Standard	NM_001927		Approved	CMD1I, CSM1, CSM2	uc002vll.3	P17661	OTTHUMG00000058924	Exception_encountered	2.37:g.220283244_220283245delinsAT	ENSP00000363071:p.Ala21Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q15787|Q549R7|Q549R8|Q549R9|Q8IZR1|Q8IZR6|Q8NES2|Q8NEU6|Q8TAC4|Q8TCX2|Q8TD99|Q9UHN5|Q9UJ80	Missense_Mutation	DNP	ENST00000373960.3	37	CCDS33383.1																																																																																				0.733	DES-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000130240.1	NM_001927		AT	220283245	GG	AT	220283244	3	1	702	1	0	0	0	0	1	0	0	0	4451	1219	43	2	62	2	DES	2	220283244	Missense_Mutation	DNP	GG	TCGA-PJ-A5Z9-01A-11D-A28G-10	197728	220283244	22916129	15	46121										
TOP2B	7155	hgsc.bcm.edu	37	chr3	25705758	25705758	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	gttgccgccgcccacgccggCtcccgcgccgcagccacccg	12	23	0	0	rs145455403	byFrequency	TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr3:25705758C>T	ENST00000264331.4	-	1	30	c.31G>A	c.(31-33)Gcc>Acc	p.A11T	TOP2B_ENST00000435706.2_Missense_Mutation_p.A11T|MIR4442_ENST00000583412.1_RNA	NM_001068.2	NP_001059.2	Q02880	TOP2B_HUMAN	topoisomerase (DNA) II beta 180kDa	11					ATP catabolic process (GO:0006200)|axonogenesis (GO:0007409)|DNA topological change (GO:0006265)|DNA unwinding involved in DNA replication (GO:0006268)|forebrain development (GO:0030900)|mitotic DNA integrity checkpoint (GO:0044774)|mitotic recombination (GO:0006312)|neuron migration (GO:0001764)|resolution of meiotic recombination intermediates (GO:0000712)|sister chromatid segregation (GO:0000819)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|DNA topoisomerase complex (ATP-hydrolyzing) (GO:0009330)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|chromatin binding (GO:0003682)|DNA binding, bending (GO:0008301)|DNA topoisomerase type II (ATP-hydrolyzing) activity (GO:0003918)|enzyme binding (GO:0019899)|histone deacetylase binding (GO:0042826)|metal ion binding (GO:0046872)|protein C-terminus binding (GO:0008022)|protein heterodimerization activity (GO:0046982)|protein kinase C binding (GO:0005080)			breast(2)|endometrium(5)|kidney(1)|large_intestine(10)|lung(14)|ovary(1)|skin(2)|stomach(1)	36					Dactinomycin(DB00970)|Daunorubicin(DB00694)|Dexrazoxane(DB00380)|Etoposide(DB00773)	CCCACGCCGGCTCCCGCGCCG	0.771													C|||	45	0.00898562	0.0008	0.0231	5008	,	,		6677	0.0		0.0199	False		,,,				2504	0.0082															0								C	THR/ALA	8,3016		0,8,1504	4	8	7		31	-1.1	0.3	3	dbSNP_134	7	129,6473		1,127,3173	no	missense	TOP2B	NM_001068.2	58	1,135,4677	TT,TC,CC		1.954,0.2646,1.4232	possibly-damaging	11/1622	25705758	137,9489	1512	3301	4813	SO:0001583	missense	7155			X68060	CCDS46776.1	3p24.2	2012-08-30	2002-08-29		ENSG00000077097	ENSG00000077097	5.99.1.3		11990	protein-coding gene	gene with protein product		126431	"topoisomerase (DNA) II beta (180kD)"			1309226, 1333583	Standard	NM_001068		Approved		uc003cdj.3	Q02880	OTTHUMG00000155596	ENST00000264331.4:c.31G>A	3.37:g.25705758C>T	ENSP00000264331:p.Ala11Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q13600|Q9UMG8|Q9UQP8	Missense_Mutation	SNP	ENST00000264331.4	37		36	0.016483516483516484	6	0.012195121951219513	11	0.03038674033149171	6	0.01048951048951049	13	0.017150395778364115	c	16.12	3.034111	0.54896	0.002646	0.01954	ENSG00000077097	ENST00000435706;ENST00000264331;ENST00000424225	T;T	0.44083	0.93;0.93	2.62	-1.06	0.10002	.	0.994270	0.08145	U	0.990988	T	0.09949	0.0244	N	0.08118	0	0.30757	N	0.744492	P	0.46395	0.877	P	0.51866	0.682	T	0.13899	-1.0492	10	0.29301	T	0.29	.	1.1455	0.01774	0.2237:0.407:0.22:0.1492	.	11	Q02880-2	.	T	11	ENSP00000396704:A11T;ENSP00000264331:A11T	ENSP00000264331:A11T	A	-	1	0	TOP2B	25680762	0.194000	0.23325	0.294000	0.24946	0.849000	0.48306	0.298000	0.19120	-0.467000	0.06932	0.457000	0.33378	GCC		0.771	TOP2B-201	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding				T	25705758	C	T	25705758	3	4	702	1	0	0	0	0	1	0	0	0	16378	797	28	2	4978	2	TOP2B	3	25705758	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10		25705758	172316672	16	46122										
SETD2	29072	hgsc.bcm.edu	37	chr3	47164505	47164505	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	cttagaatatgatgaccctcGtcggaatcccagttcattag	8	10	1	3			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr3:47164505G>T	ENST00000409792.3	-	3	1663	c.1621C>A	c.(1621-1623)Cga>Aga	p.R541R		NM_014159.6	NP_054878.5	Q9BYW2	SETD2_HUMAN	SET domain containing 2	541					angiogenesis (GO:0001525)|cell migration involved in vasculogenesis (GO:0035441)|coronary vasculature morphogenesis (GO:0060977)|embryonic cranial skeleton morphogenesis (GO:0048701)|embryonic placenta morphogenesis (GO:0060669)|forebrain development (GO:0030900)|histone H3-K36 trimethylation (GO:0097198)|mesoderm morphogenesis (GO:0048332)|mismatch repair (GO:0006298)|morphogenesis of a branching structure (GO:0001763)|neural tube closure (GO:0001843)|nucleosome organization (GO:0034728)|pericardium development (GO:0060039)|regulation of mRNA export from nucleus (GO:0010793)|regulation of transcription, DNA-templated (GO:0006355)|stem cell development (GO:0048864)|transcription elongation from RNA polymerase II promoter (GO:0006368)	chromosome (GO:0005694)|nucleus (GO:0005634)	histone-lysine N-methyltransferase activity (GO:0018024)			breast(6)|central_nervous_system(5)|endometrium(4)|kidney(63)|large_intestine(18)|lung(26)|ovary(6)|prostate(2)|skin(3)|soft_tissue(1)|stomach(2)|urinary_tract(5)	141		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		GATGACCCTCGTCGGAATCCC	0.358			"N, F, S, Mis"		clear cell renal carcinoma																																		Rec	yes		3	3p21.31	29072	SET domain containing 2		E	0													100	100	100					3																	47164505		2200	4292	6492	SO:0001819	synonymous_variant	29072			AJ238403	CCDS2749.2	3p21.31	2014-09-17			ENSG00000181555	ENSG00000181555		"Chromatin-modifying enzymes / K-methyltransferases"	18420	protein-coding gene	gene with protein product		612778				16118227, 11461154	Standard	NM_014159		Approved	HYPB, HIF-1, KIAA1732, FLJ23184, KMT3A	uc003cqs.3	Q9BYW2	OTTHUMG00000133514	ENST00000409792.3:c.1621C>A	3.37:g.47164505G>T		Somatic		WXS	Illumina HiSeq	Phase_I	O75397|O75405|Q17RW8|Q5BKS9|Q5QGN2|Q69YI5|Q6IN64|Q6ZN53|Q6ZS25|Q8N3R0|Q8TCN0|Q9C0D1|Q9H696|Q9NZW9	Silent	SNP	ENST00000409792.3	37	CCDS2749.2																																																																																				0.358	SETD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257479.2	NM_014159		T	47164505	G	T	47164505	2	4	702	1	0	0	0	0	0	0	0	1	14144	1153	40	4		4	SETD2	3	47164505	Silent	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	21458747	47164505	150857925	17	46123										
GMPPB	29925	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	49759370	49759370	+	Intron	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ggcacactccccgcccctctCcccacccagcccagcccaca	5	26	1	0	rs71324991		TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr3:49759370C>T	ENST00000480687.1	-	9	1068				GMPPB_ENST00000308375.6_Missense_Mutation_p.E327K|AMIGO3_ENST00000320431.7_5'Flank|AMIGO3_ENST00000535833.1_Intron|GMPPB_ENST00000308388.6_Intron			Q9Y5P6	GMPPB_HUMAN	GDP-mannose pyrophosphorylase B						cellular protein metabolic process (GO:0044267)|dolichol-linked oligosaccharide biosynthetic process (GO:0006488)|GDP-mannose biosynthetic process (GO:0009298)|post-translational protein modification (GO:0043687)|protein N-linked glycosylation via asparagine (GO:0018279)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|mitochondrion (GO:0005739)	GTP binding (GO:0005525)|mannose-1-phosphate guanylyltransferase activity (GO:0004475)			endometrium(1)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CCGCCCCTCTCCCCACCCAGC	0.632																																																0													52	52	52					3																	49759370		2203	4300	6503	SO:0001627	intron_variant	29925			AF135421	CCDS2802.1, CCDS2803.1	3p21.31	2008-02-05			ENSG00000173540	ENSG00000173540	2.7.7.22		22932	protein-coding gene	gene with protein product		615320					Standard	NM_013334		Approved	KIAA1851	uc003cxl.1	Q9Y5P6	OTTHUMG00000158151	ENST00000480687.1:c.951+27G>A	3.37:g.49759370C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6N5|Q9H7U3	Missense_Mutation	SNP	ENST00000480687.1	37	CCDS2803.1	.	.	.	.	.	.	.	.	.	.	C	4.938	0.174300	0.09391	.	.	ENSG00000173540	ENST00000308375	T	0.72942	-0.7	4.7	1.73	0.24493	.	1.157320	0.06701	N	0.771475	T	0.53722	0.1814	.	.	.	0.32702	N	0.512756	B	0.02656	0.0	B	0.01281	0.0	T	0.51988	-0.8635	9	0.24483	T	0.36	-2.0563	5.6606	0.17667	0.0:0.442:0.3934:0.1645	.	327	Q9Y5P6-2	.	K	327	ENSP00000309092:E327K	ENSP00000309092:E327K	E	-	1	0	GMPPB	49734374	0.000000	0.05858	0.023000	0.16930	0.167000	0.22549	-0.551000	0.06027	0.524000	0.28502	0.655000	0.94253	GAG		0.632	GMPPB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350291.1	NM_013334		T	49759370	C	T	49759370	1	4	702	0	1	0	0	0	0	0	0	0	6502	864	30	2		2	GMPPB	3	49759370	Intron	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	2594865	49759370	148263060	18	46124										
UBA7	7318	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	49847782	49847782	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tgtgctctgtggtgggatccAgtgggtaggtgagcgggatc	19	6	1	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr3:49847782A>T	ENST00000333486.3	-	13	1705	c.1547T>A	c.(1546-1548)cTg>cAg	p.L516Q	UBA7_ENST00000494212.1_5'Flank	NM_003335.2	NP_003326.2	P41226	UBA7_HUMAN	ubiquitin-like modifier activating enzyme 7	516	2 approximate repeats.				cellular protein modification process (GO:0006464)|cytokine-mediated signaling pathway (GO:0019221)|innate immune response (GO:0045087)|ISG15-protein conjugation (GO:0032020)|modification-dependent protein catabolic process (GO:0019941)|negative regulation of type I interferon production (GO:0032480)|protein ubiquitination (GO:0016567)	cytosol (GO:0005829)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ISG15 activating enzyme activity (GO:0019782)|ubiquitin activating enzyme activity (GO:0004839)|ubiquitin-protein transferase activity (GO:0004842)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(15)|large_intestine(4)|lung(7)|ovary(2)|pancreas(1)|upper_aerodigestive_tract(1)	33				BRCA - Breast invasive adenocarcinoma(193;3.58e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		GGTGGGATCCAGTGGGTAGGT	0.587																																																0													102	104	103					3																	49847782		2203	4300	6503	SO:0001583	missense	7318			BC006378	CCDS2805.1	3p21	2007-11-30	2007-11-30	2007-11-30	ENSG00000182179	ENSG00000182179		"Ubiquitin-like modifier activating enzymes"	12471	protein-coding gene	gene with protein product	"UBA1, ubiquitin-activating enzyme E1 homolog B (yeast)", "UBA7, ubiquitin-activating enzyme E1"	191325	"ubiquitin-activating enzyme E1-like"	UBE1L		8327486	Standard	NM_003335		Approved	D8, UBE2, UBA1B	uc003cxr.3	P41226	OTTHUMG00000158267	ENST00000333486.3:c.1547T>A	3.37:g.49847782A>T	ENSP00000333266:p.Leu516Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BRB2	Missense_Mutation	SNP	ENST00000333486.3	37	CCDS2805.1	.	.	.	.	.	.	.	.	.	.	A	22.1	4.249400	0.80024	.	.	ENSG00000182179	ENST00000333486	T	0.67345	-0.26	5.67	5.67	0.87782	UBA/THIF-type NAD/FAD binding fold (1);Molybdenum cofactor biosynthesis, MoeB (1);NAD(P)-binding domain (1);	0.331674	0.29631	N	0.011601	D	0.86180	0.5871	M	0.93854	3.465	0.52501	D	0.999951	D	0.76494	0.999	D	0.74674	0.984	D	0.89830	0.3995	10	0.87932	D	0	-8.7204	15.9043	0.79412	1.0:0.0:0.0:0.0	.	516	P41226	UBA7_HUMAN	Q	516	ENSP00000333266:L516Q	ENSP00000333266:L516Q	L	-	2	0	UBA7	49822786	1.000000	0.71417	0.352000	0.25734	0.711000	0.40976	8.947000	0.93000	2.169000	0.68431	0.459000	0.35465	CTG		0.587	UBA7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350503.1	NM_003335		T	49847782	A	T	49847782	3	4	702	1	0	0	0	0	1	0	0	0	16845	188	7	5	1539	5	UBA7	3	49847782	Missense_Mutation	SNP	A	TCGA-PJ-A5Z9-01A-11D-A28G-10	88412	49847782	148174648	19	46125										
ACTR8	93973	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	53913972	53913972	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	cgtttttgacttacatttagTccctcccttaggagccaact	6	12	0	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr3:53913972T>C	ENST00000335754.3	-	2	388	c.288A>G	c.(286-288)ggA>ggG	p.G96G	AC012467.1_ENST00000410956.1_RNA|ACTR8_ENST00000231909.7_5'Flank|ACTR8_ENST00000482349.1_5'UTR	NM_022899.4	NP_075050.3	Q9H981	ARP8_HUMAN	ARP8 actin-related protein 8 homolog (yeast)	96					chromatin remodeling (GO:0006338)|DNA recombination (GO:0006310)|DNA repair (GO:0006281)|mitotic nuclear division (GO:0007067)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	Ino80 complex (GO:0031011)|nucleus (GO:0005634)	ATP binding (GO:0005524)			autonomic_ganglia(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(6)|ovary(2)|prostate(1)	19				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)		TTACATTTAGTCCCTCCCTTA	0.478																																																0													164	157	159					3																	53913972		2203	4300	6503	SO:0001819	synonymous_variant	93973				CCDS2875.1	3p21.31	2011-07-06	2001-11-28		ENSG00000113812	ENSG00000113812		"INO80 complex subunits"	14672	protein-coding gene	gene with protein product	"INO80 complex subunit N"		"ARP8 (actin-related protein 8, yeast) homolog"			18163988, 16230350	Standard	NM_022899		Approved	INO80N	uc003dhd.3	Q9H981	OTTHUMG00000158279	ENST00000335754.3:c.288A>G	3.37:g.53913972T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KSW7|Q8N566|Q9H663	Silent	SNP	ENST00000335754.3	37	CCDS2875.1																																																																																				0.478	ACTR8-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350562.2	NM_022899		C	53913972	T	C	53913972	2	2	702	1	0	0	0	0	0	0	0	1	217	1654	58	3		3	ACTR8	3	53913972	Silent	SNP	T	TCGA-PJ-A5Z9-01A-11D-A28G-10	4066190	53913972	144108458	20	46126										
ERC2	26059	broad.mit.edu	37	chr3	56114913	56114913	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tttcatgtcacgaatttcacCggccagtgtccccttctctt	6	14	4	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr3:56114913C>T	ENST00000288221.6	-	7	1828	c.1573G>A	c.(1573-1575)Ggt>Agt	p.G525S		NM_015576.1	NP_056391.1	O15083	ERC2_HUMAN	ELKS/RAB6-interacting/CAST family member 2	525						cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|growth cone (GO:0030426)|presynaptic active zone (GO:0048786)|presynaptic membrane (GO:0042734)				breast(2)|endometrium(5)|large_intestine(6)|liver(1)|lung(14)|ovary(2)|urinary_tract(1)	31				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		CGAATTTCACCGGCCAGTGTC	0.408																																																0													146	130	135					3																	56114913		1865	4101	5966	SO:0001583	missense	26059			AB002376	CCDS46851.1	3p14.3	2006-08-14			ENSG00000187672	ENSG00000187672			31922	protein-coding gene	gene with protein product							Standard	NM_015576		Approved	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL	uc003dhr.1	O15083	OTTHUMG00000158390	ENST00000288221.6:c.1573G>A	3.37:g.56114913C>T	ENSP00000288221:p.Gly525Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q2T9F6|Q86TK4	Missense_Mutation	SNP	ENST00000288221.6	37	CCDS46851.1	.	.	.	.	.	.	.	.	.	.	C	21.4	4.147764	0.78001	.	.	ENSG00000187672	ENST00000288221	T	0.77358	-1.09	5.81	5.81	0.92471	.	0.000000	0.85682	D	0.000000	D	0.85017	0.5601	L	0.43646	1.37	0.80722	D	1	D	0.89917	1.0	D	0.85130	0.997	T	0.82969	-0.0193	10	0.39692	T	0.17	-17.3627	20.0714	0.97726	0.0:1.0:0.0:0.0	.	525	O15083	ERC2_HUMAN	S	525	ENSP00000288221:G525S	ENSP00000288221:G525S	G	-	1	0	ERC2	56089953	1.000000	0.71417	0.991000	0.47740	0.877000	0.50540	7.818000	0.86416	2.750000	0.94351	0.585000	0.79938	GGT		0.408	ERC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350884.2	NM_015576		T	56114913	C	T	56114913	3	4	702	1	0	0	0	0	1	0	0	0	5213	652	23	1	1334	1	ERC2	3	56114913	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	2200941	56114913	141907517	21	46127										
IGF2BP2	10644	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr3	185542743	185542743	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ttcccgatgtaaagcttgttCatcatccgtctcttccccga	6	14	3	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr3:185542743C>G	ENST00000382199.2	-	1	101	c.6G>C	c.(4-6)atG>atC	p.M2I	IGF2BP2_ENST00000346192.3_Missense_Mutation_p.M2I|IGF2BP2_ENST00000457616.2_Missense_Mutation_p.M2I	NM_006548.4	NP_006539.3	Q9Y6M1	IF2B2_HUMAN	insulin-like growth factor 2 mRNA binding protein 2	2					anatomical structure morphogenesis (GO:0009653)|gene expression (GO:0010467)|mRNA transport (GO:0051028)|negative regulation of translation (GO:0017148)|regulation of cytokine biosynthetic process (GO:0042035)	cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|nucleus (GO:0005634)	mRNA 3'-UTR binding (GO:0003730)|mRNA 5'-UTR binding (GO:0048027)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|translation regulator activity (GO:0045182)			breast(3)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(2)|lung(7)|prostate(1)|skin(3)	20	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			AAAGCTTGTTCATCATCCGTC	0.706																																																0													22	24	24					3																	185542743		2202	4300	6502	SO:0001583	missense	10644			BC021290	CCDS3273.2, CCDS33903.1	3q27.2	2013-02-12			ENSG00000073792	ENSG00000073792		"RNA binding motif (RRM) containing"	28867	protein-coding gene	gene with protein product	"IGF II mRNA binding protein 2"	608289				10190901, 9891060	Standard	NM_001007225		Approved	IMP-2	uc003fpo.3	Q9Y6M1	OTTHUMG00000074025	ENST00000382199.2:c.6G>C	3.37:g.185542743C>G	ENSP00000371634:p.Met2Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A0A4Z0|B3FTN2|B3FTN3|B3FTN4	Missense_Mutation	SNP	ENST00000382199.2	37	CCDS3273.2	.	.	.	.	.	.	.	.	.	.	C	25.2	4.612112	0.87258	.	.	ENSG00000073792	ENST00000382199;ENST00000457616;ENST00000346192	T;T;T	0.20332	2.11;2.31;2.08	2.43	2.43	0.29744	.	0.000000	0.64402	U	0.000001	T	0.47358	0.1441	M	0.85197	2.74	0.80722	D	1	D;D;D	0.76494	0.999;0.999;0.998	D;D;D	0.77557	0.978;0.99;0.965	T	0.56914	-0.7900	10	0.87932	D	0	-7.2297	11.9545	0.52974	0.0:1.0:0.0:0.0	.	2;2;2	F8W930;Q9Y6M1-1;Q9Y6M1	.;.;IF2B2_HUMAN	I	2	ENSP00000371634:M2I;ENSP00000410242:M2I;ENSP00000320204:M2I	ENSP00000320204:M2I	M	-	3	0	IGF2BP2	187025437	1.000000	0.71417	1.000000	0.80357	0.991000	0.79684	6.717000	0.74707	1.354000	0.45846	0.393000	0.25936	ATG		0.706	IGF2BP2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000157087.2	NM_006548		G	185542743	C	G	185542743	3	3	702	1	0	0	0	0	1	0	0	0	7581	826	29	4	1857	4	IGF2BP2	3	185542743	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	129427830	185542743	12479687	22	46128										
NKX3-2	579	hgsc.bcm.edu	37	chr4	13545664	13545664	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	agctcacagaccggctggccGaggctcaaggatccccccgc	12	17	2	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr4:13545664G>A	ENST00000382438.5	-	1	1010	c.375C>T	c.(373-375)ctC>ctT	p.L125L	AC006445.8_ENST00000501050.1_lincRNA	NM_001189.3	NP_001180.1	P78367	NKX32_HUMAN	NK3 homeobox 2	125					determination of left/right symmetry (GO:0007368)|embryonic skeletal system development (GO:0048706)|intestinal epithelial cell development (GO:0060576)|middle ear morphogenesis (GO:0042474)|negative regulation of apoptotic process (GO:0043066)|negative regulation of chondrocyte differentiation (GO:0032331)|organ formation (GO:0048645)|pancreas development (GO:0031016)|skeletal system development (GO:0001501)|skeletal system morphogenesis (GO:0048705)|spleen development (GO:0048536)|transcription from RNA polymerase II promoter (GO:0006366)	nucleus (GO:0005634)	RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (GO:0001078)			breast(1)|large_intestine(1)|lung(4)|prostate(1)	7						CCGGCTGGCCGAGGCTCAAGG	0.721																																																0													3	4	4					4																	13545664		1713	3631	5344	SO:0001819	synonymous_variant	579			AF009801	CCDS3410.1	4p16.3	2012-03-09	2007-07-26	2007-07-26	ENSG00000109705	ENSG00000109705		"Homeoboxes / ANTP class : NKL subclass"	951	protein-coding gene	gene with protein product		602183	"bagpipe homeobox homolog 1 (Drosophila)"	BAPX1		9344671	Standard	NM_001189		Approved	NKX3B, NKX3.2	uc003gmx.2	P78367	OTTHUMG00000090657	ENST00000382438.5:c.375C>T	4.37:g.13545664G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2M2I7	Silent	SNP	ENST00000382438.5	37	CCDS3410.1																																																																																				0.721	NKX3-2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207317.3			A	13545664	G	A	13545664	2	1	702	1	0	0	0	0	0	0	0	1	10463	1045	37	1		1	NKX3-2	4	13545664	Silent	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10		13545664	177608612	23	46129										
NIPAL1	152519	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	48037862	48037862	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	aaggcactggacacctttaaTacctctcttgtgacacccat	6	13	1	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr4:48037862T>C	ENST00000295461.5	+	6	972	c.906T>C	c.(904-906)aaT>aaC	p.N302N		NM_207330.1	NP_997213.1	Q6NVV3	NIPA3_HUMAN	NIPA-like domain containing 1	302						integral component of membrane (GO:0016021)	magnesium ion transmembrane transporter activity (GO:0015095)			endometrium(2)|large_intestine(1)|lung(3)|skin(2)	8						ACACCTTTAATACCTCTCTTG	0.423																																																0													138	122	127					4																	48037862		2203	4300	6503	SO:0001819	synonymous_variant	152519			BC067881	CCDS3479.1	4p12	2009-03-24		2009-03-24	ENSG00000163293	ENSG00000163293			27194	protein-coding gene	gene with protein product				NPAL1			Standard	NM_207330		Approved	DKFZp686A06115	uc003gxw.3	Q6NVV3	OTTHUMG00000128622	ENST00000295461.5:c.906T>C	4.37:g.48037862T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KTB0|Q68DA9	Silent	SNP	ENST00000295461.5	37	CCDS3479.1																																																																																				0.423	NIPAL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250491.4	NM_207330		C	48037862	T	C	48037862	2	2	702	1	0	0	0	0	0	0	0	1	10431	1403	49	3		3	NIPAL1	4	48037862	Silent	SNP	T	TCGA-PJ-A5Z9-01A-11D-A28G-10	34492198	48037862	143116414	24	46130										
DSPP	1834	bcgsc.ca	37	chr4	88537018	88537018	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	gacagcagcgacagcagtgaTagcagtgacagcagtgacag	14	9	0	3	rs370264407		TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr4:88537018T>C	ENST00000282478.7	+	4	3237	c.3204T>C	c.(3202-3204)gaT>gaC	p.D1068D	RP11-742B18.1_ENST00000506480.1_RNA|DSPP_ENST00000399271.1_Silent_p.D1068D			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	1068	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		acagcagtgatagcagtgaca	0.532																																																0								T		27,3131		0,27,1552	54	66	62		3204	0.6	0.3	4	dbSNP_134	62	95,5593		2,91,2751	no	coding-synonymous	DSPP	NM_014208.3		2,118,4303	CC,CT,TT		1.6702,0.855,1.3792		1068/1302	88537018	122,8724	1579	2844	4423	SO:0001819	synonymous_variant	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.3204T>C	4.37:g.88537018T>C		Somatic		WXS	Illumina HiSeq	Phase_1	A8MUI0|O95815	Silent	SNP	ENST00000282478.7	37	CCDS43248.1																																																																																				0.532	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		C	88537018	T	C	88537018	2	2	702	1	0	0	0	0	0	0	0	1	4784	1403	49	3		3	DSPP	4	88537018	Silent	SNP	T	TCGA-PJ-A5Z9-01A-11D-A28G-10	40499156	88537018	102617258	25	46131										
IRX2	153572	broad.mit.edu;bcgsc.ca	37	chr5	2748624	2748624	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	accctggccctgcagcgccgCgttcaagttcccgtagtttg	11	15	1	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr5:2748624C>T	ENST00000382611.6	-	3	1446	c.1198G>A	c.(1198-1200)Gcg>Acg	p.A400T	IRX2_ENST00000302057.5_Missense_Mutation_p.A400T|IRX2_ENST00000502957.1_5'Flank	NM_001134222.1	NP_001127694.1	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	400					proximal/distal pattern formation involved in metanephric nephron development (GO:0072272)|regulation of transcription, DNA-templated (GO:0006355)|specification of loop of Henle identity (GO:0072086)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)			breast(1)|central_nervous_system(3)|endometrium(4)|kidney(1)|large_intestine(2)|lung(12)|prostate(1)|skin(2)	26				GBM - Glioblastoma multiforme(108;0.204)		TGCAGCGCCGCGTTCAAGTTC	0.706																																																0													37	38	38					5																	2748624		2189	4286	6475	SO:0001583	missense	153572			AF319967	CCDS3868.1	5p15.33	2011-06-20	2007-07-13		ENSG00000170561	ENSG00000170561		"Homeoboxes / TALE class"	14359	protein-coding gene	gene with protein product		606198				11435706	Standard	NM_033267		Approved		uc003jdb.3	Q9BZI1	OTTHUMG00000090377	ENST00000382611.6:c.1198G>A	5.37:g.2748624C>T	ENSP00000372056:p.Ala400Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q68A19|Q7Z2I7	Missense_Mutation	SNP	ENST00000382611.6	37	CCDS3868.1	.	.	.	.	.	.	.	.	.	.	C	15.26	2.780307	0.49891	.	.	ENSG00000170561	ENST00000382611;ENST00000302057	T;T	0.65178	-0.14;-0.14	4.43	4.43	0.53597	.	0.067153	0.64402	D	0.000011	T	0.53077	0.1774	L	0.39898	1.24	0.37331	D	0.909994	D	0.57899	0.981	B	0.40134	0.32	T	0.61950	-0.6957	10	0.33940	T	0.23	-19.73	17.4343	0.87547	0.0:1.0:0.0:0.0	.	400	Q9BZI1	IRX2_HUMAN	T	400	ENSP00000372056:A400T;ENSP00000307006:A400T	ENSP00000307006:A400T	A	-	1	0	IRX2	2801624	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.982000	0.70532	2.184000	0.69523	0.561000	0.74099	GCG		0.706	IRX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206749.2			T	2748624	C	T	2748624	3	4	702	1	0	0	0	0	1	0	0	0	7851	768	27	1	225	1	IRX2	5	2748624	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10		2748624	178166636	26	46132										
PRDM9	56979	bcgsc.ca	37	chr5	23527640	23527640	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	agtgtgggcggggctttagcAataagtcacacctcctcaga	12	10	2	1	rs202203985	byFrequency	TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr5:23527640A>T	ENST00000296682.3	+	11	2625	c.2443A>T	c.(2443-2445)Aat>Tat	p.N815Y		NM_020227.2	NP_064612.2	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	815					meiotic gene conversion (GO:0006311)|positive regulation of meiosis I (GO:0060903)|positive regulation of reciprocal meiotic recombination (GO:0010845)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	chromosome (GO:0005694)|nucleoplasm (GO:0005654)	histone methyltransferase activity (H3-K4 specific) (GO:0042800)|metal ion binding (GO:0046872)|recombination hotspot binding (GO:0010844)|sequence-specific DNA binding (GO:0043565)			NS(1)|breast(1)|central_nervous_system(3)|endometrium(15)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(27)|lung(87)|ovary(6)|pancreas(2)|prostate(4)|skin(10)|upper_aerodigestive_tract(11)	172						GGGCTTTAGCAATAAGTCACA	0.567										HNSCC(3;0.000094)			a|||	116	0.0231629	0.0643	0.0043	5008	,	,		22804	0.0099		0.005	False		,,,				2504	0.0133															0																																										SO:0001583	missense	56979			AF275816	CCDS43307.1	5p14.2	2014-06-03			ENSG00000164256	ENSG00000164256		"-", "Zinc fingers, C2H2-type"	13994	protein-coding gene	gene with protein product	"PR-domain containing protein 9"	609760	"minisatellite binding protein 3, 115kDa", "minisatellite binding protein 3 (115kD)"	MSBP3		10668202, 2062643, 24634223	Standard	NM_020227		Approved	PFM6, ZNF899	uc003jgo.3	Q9NQV7	OTTHUMG00000161918	ENST00000296682.3:c.2443A>T	5.37:g.23527640A>T	ENSP00000296682:p.Asn815Tyr	Somatic		WXS	Illumina HiSeq	Phase_1	B4DX22|Q27Q50	Missense_Mutation	SNP	ENST00000296682.3	37	CCDS43307.1	.	.	.	.	.	.	.	.	.	.	a	0.525	-0.860379	0.02610	.	.	ENSG00000164256	ENST00000296682	T	0.19532	2.14	3.02	-6.05	0.02172	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.13713	0.0332	N	0.25245	0.725	0.09310	N	1	B	0.26400	0.148	B	0.35770	0.21	T	0.32613	-0.9900	9	0.37606	T	0.19	16.5357	7.1248	0.25465	0.093:0.115:0.5628:0.2292	.	815	Q9NQV7	PRDM9_HUMAN	Y	815	ENSP00000296682:N815Y	ENSP00000296682:N815Y	N	+	1	0	PRDM9	23563397	0.000000	0.05858	0.000000	0.03702	0.001000	0.01503	-11.912000	0.00002	-4.540000	0.00043	-3.331000	0.00043	AAT		0.567	PRDM9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000366375.1	NM_020227		T	23527640	A	T	23527640	3	4	702	1	0	0	0	0	1	0	0	0	12473	130	5	5	2481	5	PRDM9	5	23527640	Missense_Mutation	SNP	A	TCGA-PJ-A5Z9-01A-11D-A28G-10	20779016	23527640	157387620	27	46133										
FYB	2533	bcgsc.ca	37	chr5	39202408	39202408	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ggacccttttgatgaagacaCattcttcatggggctttcgt	10	9	2	3			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr5:39202408C>G	ENST00000351578.6	-	2	845	c.655G>C	c.(655-657)Gtg>Ctg	p.V219L	FYB_ENST00000515010.1_Missense_Mutation_p.V219L|FYB_ENST00000505428.1_Missense_Mutation_p.V219L|FYB_ENST00000540520.1_Missense_Mutation_p.V229L|FYB_ENST00000512982.1_Missense_Mutation_p.V219L	NM_199335.3	NP_955367.1	O15117	FYB_HUMAN	FYN binding protein	219					immune response (GO:0006955)|intracellular signal transduction (GO:0035556)|NLS-bearing protein import into nucleus (GO:0006607)|protein phosphorylation (GO:0006468)|signal transduction (GO:0007165)|T cell receptor signaling pathway (GO:0050852)	actin cytoskeleton (GO:0015629)|cytosol (GO:0005829)|nucleus (GO:0005634)	receptor binding (GO:0005102)			endometrium(2)|kidney(4)|large_intestine(6)|liver(1)|lung(29)|ovary(2)|upper_aerodigestive_tract(1)	45	all_lung(31;0.000343)		Epithelial(62;0.235)			GATGAAGACACATTCTTCATG	0.532																																																0													66	66	66					5																	39202408		1841	4077	5918	SO:0001583	missense	2533			U93049	CCDS47200.1, CCDS54848.1	5p13.1	2012-05-04	2010-05-04		ENSG00000082074	ENSG00000082074			4036	protein-coding gene	gene with protein product		602731	"FYN-binding protein (FYB-120/130)"			9115214, 9207119	Standard	NM_001465		Approved	SLAP-130, FYB-120/130	uc011cpl.2	O15117	OTTHUMG00000162071	ENST00000351578.6:c.655G>C	5.37:g.39202408C>G	ENSP00000316460:p.Val219Leu	Somatic		WXS	Illumina HiSeq	Phase_1	A8K2Y8|B4DLN2|E9PBV9|O00359|Q9NZI9	Missense_Mutation	SNP	ENST00000351578.6	37	CCDS47200.1	.	.	.	.	.	.	.	.	.	.	C	6.014	0.370969	0.11409	.	.	ENSG00000082074	ENST00000351578;ENST00000515010;ENST00000512982;ENST00000505428;ENST00000540520;ENST00000542542	T;T;T;T;T	0.24908	1.83;1.83;1.84;1.84;1.87	6.07	-3.59	0.04583	.	2.202910	0.01678	N	0.025958	T	0.16769	0.0403	L	0.34521	1.04	0.09310	N	1	B;B	0.24483	0.104;0.001	B;B	0.18871	0.023;0.001	T	0.10405	-1.0631	10	0.28530	T	0.3	3.1834	3.5355	0.07793	0.089:0.4575:0.1745:0.2791	.	229;219	B4DLN2;O15117	.;FYB_HUMAN	L	219;219;219;219;229;219	ENSP00000316460:V219L;ENSP00000426346:V219L;ENSP00000425845:V219L;ENSP00000427114:V219L;ENSP00000442840:V229L	ENSP00000316460:V219L	V	-	1	0	FYB	39238165	0.000000	0.05858	0.000000	0.03702	0.000000	0.00434	0.158000	0.16422	-0.608000	0.05731	-1.261000	0.01458	GTG		0.532	FYB-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000367098.1	NM_001465		G	39202408	C	G	39202408	3	3	702	1	0	0	0	0	1	0	0	0	6131	478	17	4	1906	4	FYB	5	39202408	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	15674768	39202408	141712852	28	46134										
MAP3K1	4214	hgsc.bcm.edu	37	chr5	56170960	56170960	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	gatgtcagtggggccctgctGttggcaaatggggagagcac	17	8	1	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr5:56170960G>T	ENST00000399503.3	+	10	1788	c.1788G>T	c.(1786-1788)ctG>ctT	p.L596L		NM_005921.1	NP_005912.1	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase 1, E3 ubiquitin protein ligase	596					activation of MAPKK activity (GO:0000186)|apoptotic mitochondrial changes (GO:0008637)|cellular response to mechanical stimulus (GO:0071260)|epithelial cell morphogenesis (GO:0003382)|eyelid development in camera-type eye (GO:0061029)|Fc-epsilon receptor signaling pathway (GO:0038095)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|positive regulation of actin filament polymerization (GO:0030838)|protein phosphorylation (GO:0006468)|regulation of cell migration (GO:0030334)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|transforming growth factor beta receptor signaling pathway (GO:0007179)|wound healing (GO:0042060)	cytosol (GO:0005829)	ATP binding (GO:0005524)|JUN kinase kinase activity (GO:0008545)|MAP kinase kinase kinase activity (GO:0004709)|protein kinase activity (GO:0004672)|protein kinase binding (GO:0019901)|zinc ion binding (GO:0008270)			NS(1)|breast(19)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(8)|lung(11)|ovary(1)|skin(3)|urinary_tract(1)	57		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		GGGCCCTGCTGTTGGCAAATG	0.552																																																0													88	87	87					5																	56170960		1908	4114	6022	SO:0001819	synonymous_variant	4214			U29671, AF042838	CCDS43318.1	5q11.2	2012-02-23	2012-02-23		ENSG00000095015	ENSG00000095015		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6848	protein-coding gene	gene with protein product		600982	"mitogen-activated protein kinase kinase kinase 1"	MEKK1		8597633	Standard	NM_005921		Approved	MEKK, MAPKKK1	uc003jqw.4	Q13233	OTTHUMG00000059486	ENST00000399503.3:c.1788G>T	5.37:g.56170960G>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000399503.3	37	CCDS43318.1																																																																																				0.552	MAP3K1-001	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000132309.2	XM_042066		T	56170960	G	T	56170960	2	4	702	1	0	0	0	0	0	0	0	1	9250	1364	48	4		4	MAP3K1	5	56170960	Silent	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	16968552	56170960	124744300	29	46135										
TRIM23	373	broad.mit.edu;bcgsc.ca	37	chr5	64892965	64892965	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	accatccaatcctaacgtaaCgacccgaatttccatttttg	4	13	0	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr5:64892965C>T	ENST00000231524.9	-	8	1593	c.1222G>A	c.(1222-1224)Gtt>Att	p.V408I	TRIM23_ENST00000274327.7_Missense_Mutation_p.V408I|TRIM23_ENST00000381018.3_Missense_Mutation_p.V408I	NM_001656.3	NP_001647.1	P36406	TRI23_HUMAN	tripartite motif containing 23	408	ARF-like.				GTP catabolic process (GO:0006184)|positive regulation of catalytic activity (GO:0043085)|protein ubiquitination (GO:0016567)|small GTPase mediated signal transduction (GO:0007264)|viral process (GO:0016032)	extracellular vesicular exosome (GO:0070062)|Golgi membrane (GO:0000139)|lysosomal membrane (GO:0005765)|nucleus (GO:0005634)	enzyme activator activity (GO:0008047)|GDP binding (GO:0019003)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|identical protein binding (GO:0042802)|ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)	p.V408I(1)		breast(1)|endometrium(2)|kidney(2)|large_intestine(9)|lung(5)|ovary(4)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	28		Lung NSC(167;3.24e-06)|Prostate(74;0.0138)|Breast(144;0.0433)|Ovarian(174;0.0545)|Colorectal(97;0.234)		Lung(70;0.00473)		CCTAACGTAACGACCCGAATT	0.323																																																1	Substitution - Missense(1)	kidney(1)											119	113	115					5																	64892965		2203	4300	6503	SO:0001583	missense	373			L04510	CCDS3986.1, CCDS3987.1, CCDS43322.1	5q12.3	2013-01-09	2011-01-25	2004-06-04	ENSG00000113595	ENSG00000113595		"Tripartite motif containing / Tripartite motif containing", "RING-type (C3HC4) zinc fingers"	660	protein-coding gene	gene with protein product		601747	"ADP-ribosylation factor domain protein 1, 64kDa", "tripartite motif-containing 23"	ARFD1		8473324	Standard	NM_001656		Approved	ARD1, RNF46	uc003jty.3	P36406	OTTHUMG00000097802	ENST00000231524.9:c.1222G>A	5.37:g.64892965C>T	ENSP00000231524:p.Val408Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q9BZY4|Q9BZY5	Missense_Mutation	SNP	ENST00000231524.9	37	CCDS3987.1	.	.	.	.	.	.	.	.	.	.	C	24.0	4.483114	0.84747	.	.	ENSG00000113595	ENST00000231524;ENST00000381018;ENST00000274327	T;T;T	0.63744	-0.06;-0.06;-0.06	5.97	5.97	0.96955	Small GTP-binding protein domain (1);	0.000000	0.85682	D	0.000000	T	0.66257	0.2771	L	0.28608	0.87	0.80722	D	1	D;D;D	0.61697	0.975;0.99;0.989	P;P;P	0.54100	0.742;0.525;0.674	T	0.67469	-0.5663	10	0.62326	D	0.03	.	20.4324	0.99085	0.0:1.0:0.0:0.0	.	408;408;408	P36406;P36406-2;P36406-3	TRI23_HUMAN;.;.	I	408	ENSP00000231524:V408I;ENSP00000370406:V408I;ENSP00000274327:V408I	ENSP00000231524:V408I	V	-	1	0	TRIM23	64928721	1.000000	0.71417	1.000000	0.80357	0.826000	0.46750	5.920000	0.70017	2.833000	0.97629	0.585000	0.79938	GTT		0.323	TRIM23-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000215058.2	NM_001656		T	64892965	C	T	64892965	3	4	702	1	0	0	0	0	1	0	0	0	16509	536	19	1	585	1	TRIM23	5	64892965	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	8722005	64892965	116022295	30	46136										
MSH3	4437	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	79970928	79970928	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tagggacaaaaaaaagggcaAcatttttattggcattgtgg	11	4	0	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr5:79970928A>T	ENST00000265081.6	+	7	1234	c.1154A>T	c.(1153-1155)aAc>aTc	p.N385I		NM_002439.4	NP_002430.3	P20585	MSH3_HUMAN	mutS homolog 3	385					ATP catabolic process (GO:0006200)|DNA repair (GO:0006281)|maintenance of DNA repeat elements (GO:0043570)|meiotic mismatch repair (GO:0000710)|mismatch repair (GO:0006298)|negative regulation of DNA recombination (GO:0045910)|positive regulation of helicase activity (GO:0051096)|reciprocal meiotic recombination (GO:0007131)|somatic recombination of immunoglobulin gene segments (GO:0016447)	membrane (GO:0016020)|MutSbeta complex (GO:0032302)|nuclear chromosome (GO:0000228)|nucleus (GO:0005634)	ATP binding (GO:0005524)|centromeric DNA binding (GO:0019237)|damaged DNA binding (GO:0003684)|DNA-dependent ATPase activity (GO:0008094)|double-strand/single-strand DNA junction binding (GO:0000406)|enzyme binding (GO:0019899)|heteroduplex DNA loop binding (GO:0000404)|Y-form DNA binding (GO:0000403)			NS(1)|breast(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(12)|ovary(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	29		Lung NSC(167;0.00479)|all_lung(232;0.00507)|Ovarian(174;0.0261)|Breast(144;0.244)		OV - Ovarian serous cystadenocarcinoma(54;2.38e-45)|Epithelial(54;1.58e-38)|all cancers(79;4.93e-33)		AAAAAGGGCAACATTTTTATT	0.333								Mismatch excision repair (MMR)																													Melanoma(88;1010 1399 13793 26548 36275)											0													148	152	151					5																	79970928		2203	4300	6503	SO:0001583	missense	4437			U61981	CCDS34195.1	5q11-q12	2013-09-12	2013-09-12		ENSG00000113318	ENSG00000113318			7326	protein-coding gene	gene with protein product	"Divergent upstream protein", "Mismatch repair protein 1"	600887	"mutS (E. coli) homolog 3", "mutS homolog 3 (E. coli)"				Standard	NM_002439		Approved	DUP, MRP1	uc003kgz.4	P20585	OTTHUMG00000162540	ENST00000265081.6:c.1154A>T	5.37:g.79970928A>T	ENSP00000265081:p.Asn385Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A1L480|A1L482|A6NMM6|Q6PJT5|Q86UQ6|Q92867	Missense_Mutation	SNP	ENST00000265081.6	37	CCDS34195.1	.	.	.	.	.	.	.	.	.	.	A	8.987	0.976749	0.18812	.	.	ENSG00000113318	ENST00000265081;ENST00000535995	D	0.88664	-2.41	5.6	-5.6	0.02497	DNA mismatch repair protein MutS, connector (2);	0.642828	0.16451	N	0.213870	T	0.79405	0.4440	L	0.53249	1.67	0.09310	N	1	B	0.33318	0.408	B	0.34138	0.176	T	0.67783	-0.5581	9	.	.	.	-1.1852	2.0942	0.03664	0.3478:0.3369:0.2064:0.1089	.	385	P20585	MSH3_HUMAN	I	385;376	ENSP00000265081:N385I	.	N	+	2	0	MSH3	80006684	0.010000	0.17322	0.000000	0.03702	0.294000	0.27393	0.093000	0.15086	-0.822000	0.04306	-0.367000	0.07326	AAC		0.333	MSH3-001	KNOWN	non_canonical_conserved|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369471.1	NM_002439		T	79970928	A	T	79970928	3	4	702	1	0	0	0	0	1	0	0	0	9878	43	2	5	1180	5	MSH3	5	79970928	Missense_Mutation	SNP	A	TCGA-PJ-A5Z9-01A-11D-A28G-10	15077963	79970928	100944332	31	46137										
KDM3B	51780	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	137717257	137717257	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	aatccatgtgatgctgatggAtaattcagcgcctcaaagcg	10	9	2	2			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr5:137717257A>C	ENST00000314358.5	+	6	958	c.758A>C	c.(757-759)gAt>gCt	p.D253A		NM_016604.3	NP_057688	Q7LBC6	KDM3B_HUMAN	lysine (K)-specific demethylase 3B	253					chromatin modification (GO:0016568)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	dioxygenase activity (GO:0051213)|metal ion binding (GO:0046872)			breast(2)|central_nervous_system(2)|cervix(1)|endometrium(8)|kidney(4)|large_intestine(15)|liver(2)|lung(18)|ovary(4)|pancreas(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	65						ATGCTGATGGATAATTCAGCG	0.433																																																0													134	117	123					5																	137717257		2203	4300	6503	SO:0001583	missense	51780			AF251039	CCDS34242.1	5q31	2011-07-01	2009-04-06	2009-04-06	ENSG00000120733	ENSG00000120733		"Chromatin-modifying enzymes / K-demethylases"	1337	protein-coding gene	gene with protein product		609373	"chromosome 5 open reading frame 7", "jumonji domain containing 1B"	C5orf7, JMJD1B		15138608	Standard	NM_016604		Approved	KIAA1082, NET22	uc003lcy.1	Q7LBC6	OTTHUMG00000163469	ENST00000314358.5:c.758A>C	5.37:g.137717257A>C	ENSP00000326563:p.Asp253Ala	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8X7|Q9BVH6|Q9BW93|Q9BZ52|Q9NYF4|Q9UPS0	Missense_Mutation	SNP	ENST00000314358.5	37	CCDS34242.1	.	.	.	.	.	.	.	.	.	.	A	22.2	4.253034	0.80135	.	.	ENSG00000120733	ENST00000314358;ENST00000545151	T	0.68025	-0.3	4.79	4.79	0.61399	.	0.104922	0.64402	D	0.000006	T	0.70876	0.3274	N	0.24115	0.695	0.80722	D	1	D	0.71674	0.998	D	0.75484	0.986	T	0.75357	-0.3346	10	0.72032	D	0.01	-8.6271	14.278	0.66194	1.0:0.0:0.0:0.0	.	253	Q7LBC6	KDM3B_HUMAN	A	253;43	ENSP00000326563:D253A	ENSP00000326563:D253A	D	+	2	0	KDM3B	137745156	1.000000	0.71417	0.996000	0.52242	0.876000	0.50452	6.004000	0.70709	1.905000	0.55150	0.460000	0.39030	GAT		0.433	KDM3B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000373597.1	NM_016604		C	137717257	A	C	137717257	3	2	702	1	0	0	0	0	1	0	0	0	8134	333	12	5	780	5	KDM3B	5	137717257	Missense_Mutation	SNP	A	TCGA-PJ-A5Z9-01A-11D-A28G-10	57746329	137717257	43198003	32	46138										
ZNF354B	117608	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr5	178310106	178310106	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	gaaacgctataaatgcagtaCatgtgaaaaagccttcattc	7	8	1	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr5:178310106C>T	ENST00000322434.3	+	5	879	c.653C>T	c.(652-654)aCa>aTa	p.T218I	RNU1-39P_ENST00000383897.1_RNA	NM_058230.2	NP_478137.1	Q96LW1	Z354B_HUMAN	zinc finger protein 354B	218					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(2)|kidney(2)|large_intestine(7)|liver(2)|lung(2)|ovary(2)|stomach(3)|urinary_tract(1)	21	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AAATGCAGTACATGTGAAAAA	0.299																																																0													72	80	77					5																	178310106		2201	4295	6496	SO:0001583	missense	117608			AK057737	CCDS4439.1	5q35.3	2013-01-08			ENSG00000178338	ENSG00000178338		"Zinc fingers, C2H2-type", "-"	17197	protein-coding gene	gene with protein product							Standard	NM_058230		Approved	KID2, FLJ25008	uc003mjl.3	Q96LW1	OTTHUMG00000130896	ENST00000322434.3:c.653C>T	5.37:g.178310106C>T	ENSP00000327143:p.Thr218Ile	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0V2|Q5U5Z4	Missense_Mutation	SNP	ENST00000322434.3	37	CCDS4439.1	.	.	.	.	.	.	.	.	.	.	C	4.307	0.056302	0.08291	.	.	ENSG00000178338	ENST00000322434	T	0.26810	1.71	3.53	-2.54	0.06307	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.09905	0.0243	N	0.04959	-0.14	0.09310	N	1	B	0.02656	0.0	B	0.04013	0.001	T	0.25950	-1.0117	9	0.52906	T	0.07	-33.0293	3.159	0.06514	0.3538:0.1876:0.0:0.4585	.	218	Q96LW1	Z354B_HUMAN	I	218	ENSP00000327143:T218I	ENSP00000327143:T218I	T	+	2	0	ZNF354B	178242712	0.000000	0.05858	0.447000	0.26932	0.752000	0.42762	-0.127000	0.10547	-0.216000	0.10048	-0.291000	0.09656	ACA		0.299	ZNF354B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253482.1	NM_058230		T	178310106	C	T	178310106	3	4	702	1	0	0	0	0	1	0	0	0	17877	478	17	2	667	2	ZNF354B	5	178310106	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	40592849	178310106	2605154	33	46139										
ZNF184	7738	ucsc.edu;bcgsc.ca	37	chr6	27420593	27420593	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	acattcattacatttgtaggGtttttctccagtatgtgttc	7	7	2	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr6:27420593G>T	ENST00000211936.6	-	6	1029	c.745C>A	c.(745-747)Ccc>Acc	p.P249T	ZNF184_ENST00000377419.1_Missense_Mutation_p.P249T	NM_007149.2	NP_009080.2	Q99676	ZN184_HUMAN	zinc finger protein 184	249					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|zinc ion binding (GO:0008270)			breast(1)|cervix(1)|endometrium(4)|kidney(9)|large_intestine(13)|lung(14)|ovary(1)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	48						CATTTGTAGGGTTTTTCTCCA	0.348																																																0													121	127	125					6																	27420593		2203	4300	6503	SO:0001583	missense	7738			U66561	CCDS4624.1	6p21.3	2013-01-08	2006-06-28		ENSG00000096654	ENSG00000096654		"Zinc fingers, C2H2-type", "-"	12975	protein-coding gene	gene with protein product		602277	"zinc finger protein 184 (Kruppel-like)"				Standard	NM_007149		Approved		uc003nji.3	Q99676	OTTHUMG00000014478	ENST00000211936.6:c.745C>A	6.37:g.27420593G>T	ENSP00000211936:p.Pro249Thr	Somatic		WXS	Illumina HiSeq		B2R715|O60792|Q8TBA9	Missense_Mutation	SNP	ENST00000211936.6	37	CCDS4624.1	.	.	.	.	.	.	.	.	.	.	G	14.86	2.660854	0.47572	.	.	ENSG00000096654	ENST00000211936;ENST00000377419;ENST00000341087	T;T	0.28895	1.59;1.59	5.12	5.12	0.69794	Zinc finger, C2H2 (1);Zinc finger, C2H2-type/integrase, DNA-binding (1);	0.000000	0.47093	D	0.000247	T	0.50257	0.1605	M	0.86573	2.825	0.40341	D	0.979033	D	0.64830	0.994	D	0.65323	0.934	T	0.51060	-0.8753	10	0.33940	T	0.23	.	16.0902	0.81086	0.0:0.0:1.0:0.0	.	249	Q99676	ZN184_HUMAN	T	249	ENSP00000211936:P249T;ENSP00000366636:P249T	ENSP00000211936:P249T	P	-	1	0	ZNF184	27528572	1.000000	0.71417	1.000000	0.80357	0.827000	0.46813	6.225000	0.72271	2.660000	0.90430	0.555000	0.69702	CCC		0.348	ZNF184-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040146.1	NM_007149		T	27420593	G	T	27420593	3	4	702	1	0	0	0	0	1	0	0	0	17763	1261	44	4	1514	4	ZNF184	6	27420593	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10		27420593	143694474	34	46140										
C4A	720	broad.mit.edu;bcgsc.ca	37	chr6	31962347	31962347	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ggctggcccagcaggtgctgGtgcctgcgggctctgcccgg	18	14	1	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr6:31962347G>A	ENST00000428956.2	+	21	2749	c.2665G>A	c.(2665-2667)Gtg>Atg	p.V889M	C4A_ENST00000498271.1_Missense_Mutation_p.V889M	NM_007293.2	NP_009224.2	P0C0L4	CO4A_HUMAN	complement component 4A (Rodgers blood group)	889					complement activation (GO:0006956)|complement activation, classical pathway (GO:0006958)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|positive regulation of apoptotic cell clearance (GO:2000427)|regulation of complement activation (GO:0030449)	blood microparticle (GO:0072562)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)	complement component C1q binding (GO:0001849)|endopeptidase inhibitor activity (GO:0004866)									Intravenous Immunoglobulin(DB00028)	GCAGGTGCTGGTGCCTGCGGG	0.687																																																0													9	12	11					6																	31962347		1943	3861	5804	SO:0001583	missense	720			L26261, M14823, X77491, AY224378	CCDS47404.1, CCDS59005.1	6p21.3	2014-09-17	2006-01-19		ENSG00000244731	ENSG00000244731		"Blood group antigens", "Complement system"	1323	protein-coding gene	gene with protein product		120810	"complement component 4A"				Standard	NM_001252204		Approved	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG		P0C0L4	OTTHUMG00000031186	ENST00000428956.2:c.2665G>A	6.37:g.31962347G>A	ENSP00000396688:p.Val889Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6H8M8|A6NHJ5|A7E2V2|B0QZR6|B0V2C8|B2RUT6|B7ZVZ6|P01028|P78445|Q13160|Q13906|Q14033|Q14835|Q4LE82|Q5JNX2|Q5JQM8|Q6P4R1|Q6U2E5|Q6U2E8|Q6U2F0|Q6U2F3|Q6U2F4|Q6U2F6|Q6U2F8|Q6U2G0|Q96EG2|Q96SA8|Q9NPK5|Q9UIP5	Missense_Mutation	SNP	ENST00000428956.2	37	CCDS47404.1	.	.	.	.	.	.	.	.	.	.	G	14.52	2.561139	0.45590	.	.	ENSG00000244731	ENST00000428956;ENST00000498271	T;T	0.46063	0.88;0.88	3.22	2.22	0.28083	.	0.583336	0.16838	N	0.197448	T	0.47154	0.1430	M	0.74258	2.255	0.58432	D	0.999994	D;D	0.71674	0.998;0.998	D;D	0.65684	0.916;0.937	T	0.49021	-0.8982	10	0.51188	T	0.08	.	7.0474	0.25052	0.0:0.0:0.7297:0.2703	.	889;889	A6H8M8;P0C0L4	.;CO4A_HUMAN	M	889	ENSP00000396688:V889M;ENSP00000420212:V889M	ENSP00000396688:V889M	V	+	1	0	C4A	32070326	0.999000	0.42202	0.872000	0.34217	0.722000	0.41435	2.548000	0.45794	1.846000	0.53633	0.121000	0.15741	GTG		0.687	C4A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076364.3	NM_007293		A	31962347	G	A	31962347	3	1	702	1	0	0	0	0	1	0	0	0	2249	1261	44	2	2747	2	C4A	6	31962347	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	4541754	31962347	139152720	35	46141										
SYNGAP1	8831	broad.mit.edu;bcgsc.ca	37	chr6	33393615	33393615	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ggaccggaggagcgagtccaGtcgcaacaaactgctgagac	14	11	0	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr6:33393615G>C	ENST00000418600.2	+	3	331	c.230G>C	c.(229-231)aGt>aCt	p.S77T	SYNGAP1_ENST00000496374.1_3'UTR|SYNGAP1_ENST00000293748.5_Missense_Mutation_p.S77T	NM_006772.2	NP_006763.2	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	77					dendrite development (GO:0016358)|negative regulation of axonogenesis (GO:0050771)|negative regulation of neuron apoptotic process (GO:0043524)|negative regulation of Ras protein signal transduction (GO:0046580)|pattern specification process (GO:0007389)|positive regulation of Ras GTPase activity (GO:0032320)|Ras protein signal transduction (GO:0007265)|receptor clustering (GO:0043113)|regulation of long-term neuronal synaptic plasticity (GO:0048169)|regulation of MAPK cascade (GO:0043408)|regulation of synapse structure and activity (GO:0050803)|regulation of synaptic plasticity (GO:0048167)|visual learning (GO:0008542)	cytoplasm (GO:0005737)|dendritic shaft (GO:0043198)|intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)	Rab GTPase activator activity (GO:0005097)|Ras GTPase activator activity (GO:0005099)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(9)|lung(15)|ovary(7)|pancreas(1)|stomach(1)|urinary_tract(1)	43						AGCGAGTCCAGTCGCAACAAA	0.682																																																0													54	46	48					6																	33393615		2203	4300	6503	SO:0001583	missense	8831			AB067525	CCDS34434.2	6p21.3	2010-06-25	2010-06-25		ENSG00000197283	ENSG00000197283			11497	protein-coding gene	gene with protein product		603384	"synaptic Ras GTPase activating protein 1 homolog (rat)"			9581761, 18323856	Standard	NM_006772		Approved	SYNGAP, RASA5, KIAA1938	uc011dri.2	Q96PV0	OTTHUMG00000031096	ENST00000418600.2:c.230G>C	6.37:g.33393615G>C	ENSP00000403636:p.Ser77Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A2AB17|A2BEL6|A2BEL7|A8MQC4|Q8TCS2|Q9UGE2	Missense_Mutation	SNP	ENST00000418600.2	37	CCDS34434.2	.	.	.	.	.	.	.	.	.	.	g	2.923	-0.222722	0.06061	.	.	ENSG00000197283	ENST00000293748;ENST00000418600;ENST00000449372	T;T	0.16324	2.35;2.44	2.75	2.75	0.32379	Pleckstrin homology domain (1);	0.269330	0.27787	U	0.017849	T	0.01695	0.0054	N	0.12182	0.205	0.25547	N	0.987124	B;B;B	0.26445	0.092;0.149;0.0	B;B;B	0.17098	0.007;0.017;0.0	T	0.45527	-0.9255	10	0.02654	T	1	.	5.7389	0.18081	0.1499:0.0:0.8501:0.0	.	77;77;77	Q96PV0;Q96PV0-4;B7ZCA0	SYGP1_HUMAN;.;.	T	77	ENSP00000293748:S77T;ENSP00000403636:S77T	ENSP00000293748:S77T	S	+	2	0	SYNGAP1	33501593	1.000000	0.71417	1.000000	0.80357	0.966000	0.64601	2.565000	0.45939	1.874000	0.54306	0.281000	0.19383	AGT		0.682	SYNGAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076151.4	XM_166407		C	33393615	G	C	33393615	3	2	702	1	0	0	0	0	1	0	0	0	15459	1029	36	4	240	4	SYNGAP1	6	33393615	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	1431268	33393615	137721452	36	46142										
CASP8AP2	9994	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	90573643	90573643	+	RNA	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	aaagaaatgataattcagatTattgtggtatttctgaaggt	9	2	2	4			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr6:90573643T>C	ENST00000551025.1	+	0	3652									caspase 8 associated protein 2											NS(1)|endometrium(7)|kidney(6)|large_intestine(12)|lung(21)|ovary(2)|urinary_tract(2)	51		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		TAATTCAGATTATTGTGGTAT	0.403																																					Colon(187;1656 2025 17045 31481 39901)											0													69	67	67					6																	90573643		1866	4106	5972			9994			AB037736		6q15	2012-04-19	2008-10-30		ENSG00000118412	ENSG00000118412			1510	protein-coding gene	gene with protein product	"FLICE-associated huge protein"	606880	"CASP8 associated protein 2"			10235259, 17245429, 17003126	Standard	NM_001137668		Approved	FLASH, CED-4, RIP25, FLJ11208, KIAA1315	uc011dzz.2	Q9UKL3	OTTHUMG00000015212		6.37:g.90573643T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000551025.1	37																																																																																					0.403	CASP8AP2-202	KNOWN	basic	processed_transcript	processed_transcript		NM_001137667		C	90573643	T	C	90573643	1	2	702	0	1	0	0	0	0	0	0	0	2680	1754	61	3		3	CASP8AP2	6	90573643	RNA	SNP	T	TCGA-PJ-A5Z9-01A-11D-A28G-10	57180028	90573643	80541424	37	46143										
LAMA2	3908	bcgsc.ca	37	chr6	129573388	129573388	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tgacagtgcttgcgaatttgAagagagtcctcctacaaatc	9	9	0	3	rs202247790		TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr6:129573388A>G	ENST00000421865.2	+	14	2093	c.2044A>G	c.(2044-2046)Aag>Gag	p.K682E		NM_000426.3|NM_001079823.1	NP_000417|NP_001073291.1	P24043	LAMA2_HUMAN	laminin, alpha 2	682	Laminin IV type A 1. {ECO:0000255|PROSITE-ProRule:PRU00458}.				axon guidance (GO:0007411)|cell adhesion (GO:0007155)|extracellular matrix organization (GO:0030198)|muscle organ development (GO:0007517)|myelination in peripheral nervous system (GO:0022011)|positive regulation of synaptic transmission, cholinergic (GO:0032224)|regulation of cell adhesion (GO:0030155)|regulation of cell migration (GO:0030334)|regulation of embryonic development (GO:0045995)	basement membrane (GO:0005604)|dendritic spine (GO:0043197)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|laminin-1 complex (GO:0005606)|sarcolemma (GO:0042383)	structural molecule activity (GO:0005198)			NS(2)|biliary_tract(2)|breast(10)|central_nervous_system(1)|endometrium(18)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(35)|lung(84)|ovary(10)|prostate(4)|skin(9)|stomach(1)|upper_aerodigestive_tract(7)|urinary_tract(2)	194				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TGCGAATTTGAAGAGAGTCCT	0.393																																																0													96	91	93					6																	129573388		2203	4300	6503	SO:0001583	missense	3908			Z26653	CCDS5138.1	6q22-q23	2014-09-17	2008-08-01		ENSG00000196569	ENSG00000196569		"Laminins"	6482	protein-coding gene	gene with protein product	"merosin", "congenital muscular dystrophy"	156225		LAMM		2185464, 8294519	Standard	NM_000426		Approved		uc003qbn.3	P24043	OTTHUMG00000015545	ENST00000421865.2:c.2044A>G	6.37:g.129573388A>G	ENSP00000400365:p.Lys682Glu	Somatic		WXS	Illumina HiSeq	Phase_1	Q14736|Q5VUM2|Q93022	Missense_Mutation	SNP	ENST00000421865.2	37	CCDS5138.1	.	.	.	.	.	.	.	.	.	.	A	5.993	0.367107	0.11352	.	.	ENSG00000196569	ENST00000358023;ENST00000354729;ENST00000421865	T	0.32988	1.43	5.53	-3.2	0.05156	Laminin B type IV (2);Laminin B, subgroup (1);	0.195277	0.44483	N	0.000442	T	0.03053	0.0090	N	0.16266	0.395	0.09310	N	0.999995	B;B	0.06786	0.001;0.001	B;B	0.09377	0.004;0.004	T	0.40098	-0.9581	10	0.02654	T	1	.	7.0643	0.25143	0.5637:0.1131:0.3232:0.0	.	682;682	A6NF00;P24043	.;LAMA2_HUMAN	E	682	ENSP00000400365:K682E	ENSP00000346769:K682E	K	+	1	0	LAMA2	129615081	0.996000	0.38824	0.003000	0.11579	0.784000	0.44337	1.676000	0.37565	-0.713000	0.04981	-0.334000	0.08254	AAG		0.393	LAMA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042180.1			G	129573388	A	G	129573388	3	3	702	1	0	0	0	0	1	0	0	0	8613	247	9	3	2098	3	LAMA2	6	129573388	Missense_Mutation	SNP	A	TCGA-PJ-A5Z9-01A-11D-A28G-10	38999745	129573388	41541679	38	46144										
REPS1	85021	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	139262487	139262487	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	cttacctgctgaatcttccaAatcaatcagtttgggcatta	6	10	3	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr6:139262487A>T	ENST00000450536.2	-	8	1694	c.1120T>A	c.(1120-1122)Ttg>Atg	p.L374M	REPS1_ENST00000258062.5_Missense_Mutation_p.L374M|REPS1_ENST00000415951.2_Missense_Mutation_p.L374M|REPS1_ENST00000367663.4_Missense_Mutation_p.L374M|REPS1_ENST00000409812.2_Missense_Mutation_p.L374M			Q96D71	REPS1_HUMAN	RALBP1 associated Eps domain containing 1	374	EH 2. {ECO:0000255|PROSITE- ProRule:PRU00077}.				receptor-mediated endocytosis (GO:0006898)	coated pit (GO:0005905)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)|SH3 domain binding (GO:0017124)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(5)|lung(8)|upper_aerodigestive_tract(2)	19				GBM - Glioblastoma multiforme(68;0.000434)|OV - Ovarian serous cystadenocarcinoma(155;0.000548)		GAATCTTCCAAATCAATCAGT	0.388																																																0													167	170	169					6																	139262487		2203	4300	6503	SO:0001583	missense	85021				CCDS5193.2, CCDS47488.1, CCDS69212.1, CCDS69213.1	6q24.1	2013-01-10			ENSG00000135597	ENSG00000135597		"EF-hand domain containing"	15578	protein-coding gene	gene with protein product		614825					Standard	XM_005267177		Approved		uc011edr.2	Q96D71	OTTHUMG00000015685	ENST00000450536.2:c.1120T>A	6.37:g.139262487A>T	ENSP00000392065:p.Leu374Met	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZBZ8|B7ZBZ9|B7ZC00|J3KP76|Q5JWJ5|Q5JWJ6|Q5JWJ7|Q8NDR7|Q8WU62|Q9BXY9	Missense_Mutation	SNP	ENST00000450536.2	37		.	.	.	.	.	.	.	.	.	.	A	18.47	3.630297	0.67015	.	.	ENSG00000135597	ENST00000450536;ENST00000367663;ENST00000529597;ENST00000409812;ENST00000258062;ENST00000415951;ENST00000367668	T;T;T;T;T;T	0.35789	1.31;1.35;1.33;1.34;1.29;1.36	5.91	4.76	0.60689	.	0.000000	0.85682	D	0.000000	T	0.23014	0.0556	N	0.08118	0	0.80722	D	1	D;D;D;P;P	0.89917	1.0;1.0;1.0;0.82;0.872	D;D;D;P;B	0.80764	0.992;0.981;0.994;0.451;0.393	T	0.23904	-1.0175	10	0.45353	T	0.12	-6.2792	8.9289	0.35657	0.8584:0.0:0.1416:0.0	.	374;322;374;374;374	Q96D71-3;B2R7D3;Q96D71-2;Q96D71;E9PMG1	.;.;.;REPS1_HUMAN;.	M	374;374;360;374;374;374;322	ENSP00000392065:L374M;ENSP00000356635:L374M;ENSP00000434251:L360M;ENSP00000386699:L374M;ENSP00000258062:L374M;ENSP00000397941:L374M	ENSP00000258062:L374M	L	-	1	2	REPS1	139304180	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	2.783000	0.47766	1.074000	0.40909	0.533000	0.62120	TTG		0.388	REPS1-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000042447.3			T	139262487	A	T	139262487	3	4	702	1	0	0	0	0	1	0	0	0	13241	11	1	5	1322	5	REPS1	6	139262487	Missense_Mutation	SNP	A	TCGA-PJ-A5Z9-01A-11D-A28G-10	9689099	139262487	31852580	39	46145										
PDE1C	5137	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	31862809	31862809	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tcggggcacttccctctgaaCcagaggtcttgacacctgat	10	13	2	4			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr7:31862809C>A	ENST00000396191.1	-	14	1915	c.1460G>T	c.(1459-1461)gGt>gTt	p.G487V	PDE1C_ENST00000321453.7_Missense_Mutation_p.G487V|PDE1C_ENST00000479980.1_5'Flank|PDE1C_ENST00000396182.2_Missense_Mutation_p.G487V|PDE1C_ENST00000396193.1_Missense_Mutation_p.G547V|PDE1C_ENST00000396184.3_Missense_Mutation_p.G487V	NM_001191057.1	NP_001177986.1	Q14123	PDE1C_HUMAN	phosphodiesterase 1C, calmodulin-dependent 70kDa	487	Catalytic. {ECO:0000250}.				activation of phospholipase C activity (GO:0007202)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|innate immune response (GO:0045087)|metabolic process (GO:0008152)|neurotrophin TRK receptor signaling pathway (GO:0048011)|signal transduction (GO:0007165)	cytosol (GO:0005829)	calmodulin-dependent cyclic-nucleotide phosphodiesterase activity (GO:0004117)|metal ion binding (GO:0046872)			NS(1)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(38)|prostate(4)|skin(8)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	81			GBM - Glioblastoma multiforme(11;0.216)		Caffeine(DB00201)	TCCCTCTGAACCAGAGGTCTT	0.443																																																0													107	96	100					7																	31862809		2203	4300	6503	SO:0001583	missense	5137			U40371	CCDS5437.1, CCDS55099.1, CCDS55100.1	7p15.1-p14.3	2008-05-15	2002-08-29		ENSG00000154678	ENSG00000154678	3.1.4.17	"Phosphodiesterases"	8776	protein-coding gene	gene with protein product		602987	"phosphodiesterase 1C, calmodulin-dependent (70kD)"			8557689	Standard	XM_005249769		Approved	Hcam3	uc003tco.2	Q14123	OTTHUMG00000023836	ENST00000396191.1:c.1460G>T	7.37:g.31862809C>A	ENSP00000379494:p.Gly487Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPC6|E9PE92|Q14124|Q8NB10	Missense_Mutation	SNP	ENST00000396191.1	37	CCDS55099.1	.	.	.	.	.	.	.	.	.	.	C	17.54	3.415990	0.62511	.	.	ENSG00000154678	ENST00000396193;ENST00000396191;ENST00000321453;ENST00000396184;ENST00000396182	T;T;T;T;T	0.72505	-0.66;-0.66;-0.66;-0.63;-0.63	5.91	5.91	0.95273	.	0.634852	0.16753	N	0.200964	T	0.76730	0.4028	L	0.29908	0.895	0.80722	D	1	B;B;D	0.65815	0.081;0.23;0.995	B;B;P	0.60949	0.056;0.082;0.881	T	0.76537	-0.2923	10	0.54805	T	0.06	.	19.9003	0.96983	0.0:1.0:0.0:0.0	.	487;547;487	Q14123-2;E9PE92;Q14123	.;.;PDE1C_HUMAN	V	547;487;487;487;487	ENSP00000379496:G547V;ENSP00000379494:G487V;ENSP00000318105:G487V;ENSP00000379487:G487V;ENSP00000379485:G487V	ENSP00000318105:G487V	G	-	2	0	PDE1C	31829334	1.000000	0.71417	1.000000	0.80357	0.979000	0.70002	7.060000	0.76692	2.808000	0.96608	0.655000	0.94253	GGT		0.443	PDE1C-006	KNOWN	alternative_5_UTR|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000328458.1			A	31862809	C	A	31862809	3	1	702	1	0	0	0	0	1	0	0	0	11642	507	18	4	460	4	PDE1C	7	31862809	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10		31862809	127275854	40	46146										
CSMD1	64478	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	2824167	2824167	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	catgagccctgaggtcttgtAgccttcccagcaggcataga	11	12	1	3			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr8:2824167A>G	ENST00000520002.1	-	59	9583	c.9028T>C	c.(9028-9030)Tac>Cac	p.Y3010H	CSMD1_ENST00000602557.1_Missense_Mutation_p.Y3010H|CSMD1_ENST00000542608.1_Intron|CSMD1_ENST00000537824.1_Missense_Mutation_p.Y3009H|CSMD1_ENST00000602723.1_Intron|CSMD1_ENST00000400186.3_Intron			Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1	3010	Sushi 23. {ECO:0000255|PROSITE- ProRule:PRU00302}.					integral component of membrane (GO:0016021)				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)		GAGGTCTTGTAGCCTTCCCAG	0.547																																																0													72	76	75					8																	2824167		2071	4221	6292	SO:0001583	missense	64478					8p23.2	2012-04-17			ENSG00000183117	ENSG00000183117		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	14026	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 24"	608397					Standard	NM_033225		Approved	KIAA1890, PPP1R24	uc022aqr.1	Q96PZ7	OTTHUMG00000163605	ENST00000520002.1:c.9028T>C	8.37:g.2824167A>G	ENSP00000430733:p.Tyr3010His	Somatic		WXS	Illumina HiSeq	Phase_I	Q0H0J5|Q96QU9|Q96RM4	Missense_Mutation	SNP	ENST00000520002.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	18.86|18.86	3.714217|3.714217	0.68730|0.68730	.|.	.|.	ENSG00000183117|ENSG00000183117	ENST00000335551|ENST00000520002;ENST00000318252;ENST00000537824	.|T;T	.|0.40756	.|1.02;1.02	5.46|5.46	5.46|5.46	0.80206|0.80206	.|Complement control module (2);Sushi/SCR/CCP (3);	.|0.079141	.|0.53938	.|D	.|0.000060	T|T	0.69495|0.69495	0.3117|0.3117	M|M	0.87827|0.87827	2.91|2.91	0.80722|0.80722	D|D	1|1	.|D;D	.|0.76494	.|0.999;0.999	.|D;D	.|0.83275	.|0.996;0.992	T|T	0.76113|0.76113	-0.3078|-0.3078	5|10	.|0.87932	.|D	.|0	.|.	15.5456|15.5456	0.76097|0.76097	1.0:0.0:0.0:0.0|1.0:0.0:0.0:0.0	.|.	.|3010;3010	.|E5RIG2;Q96PZ7	.|.;CSMD1_HUMAN	P|H	2426|3010;2871;3009	.|ENSP00000430733:Y3010H;ENSP00000441462:Y3009H	.|ENSP00000320445:Y2871H	L|Y	-|-	2|1	0|0	CSMD1|CSMD1	2811574|2811574	1.000000|1.000000	0.71417|0.71417	0.807000|0.807000	0.32361|0.32361	0.329000|0.329000	0.28539|0.28539	9.116000|9.116000	0.94341|0.94341	2.068000|2.068000	0.61886|0.61886	0.533000|0.533000	0.62120|0.62120	CTA|TAC		0.547	CSMD1-001	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000374500.2	NM_033225		G	2824167	A	G	2824167	3	3	702	1	0	0	0	0	1	0	0	0	3946	420	15	3	1721	3	CSMD1	8	2824167	Missense_Mutation	SNP	A	TCGA-PJ-A5Z9-01A-11D-A28G-10		2824167	143539855	41	46147										
NEFL	4747	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr8	24813800	24813800	+	RNA	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tgaggtcgttgctgatggcgGctacctggctcaggtcgagg	17	9	1	2			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr8:24813800G>A	ENST00000221169.5	-	0	824				CTD-2168K21.2_ENST00000607735.1_RNA			P07196	NFL_HUMAN	neurofilament, light polypeptide						anterograde axon cargo transport (GO:0008089)|axon transport of mitochondrion (GO:0019896)|cell death (GO:0008219)|intermediate filament organization (GO:0045109)|locomotion (GO:0040011)|microtubule cytoskeleton organization (GO:0000226)|negative regulation of neuron apoptotic process (GO:0043524)|neurofilament bundle assembly (GO:0033693)|neuromuscular process controlling balance (GO:0050885)|neuron projection morphogenesis (GO:0048812)|peripheral nervous system axon regeneration (GO:0014012)|positive regulation of axonogenesis (GO:0050772)|protein polymerization (GO:0051258)|regulation of axon diameter (GO:0031133)|response to corticosterone (GO:0051412)|response to peptide hormone (GO:0043434)|response to toxic substance (GO:0009636)|retrograde axon cargo transport (GO:0008090)|synaptic transmission (GO:0007268)	axon (GO:0030424)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|growth cone (GO:0030426)|neurofilament (GO:0005883)	identical protein binding (GO:0042802)|protein binding, bridging (GO:0030674)|protein C-terminus binding (GO:0008022)|structural constituent of cytoskeleton (GO:0005200)			central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(5)|ovary(1)|prostate(1)|skin(2)	21		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)		GCTGATGGCGGCTACCTGGCT	0.637																																																0													30	33	32					8																	24813800		2172	4272	6444			4747				CCDS75712.1	8p21.2	2014-09-17	2008-09-19		ENSG00000104725	ENSG00000277586		"Intermediate filaments type IV"	7739	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 110"	162280	"neurofilament, light polypeptide 68kDa"			17620486, 3145240	Standard	NM_006158		Approved	NFL, CMT1F, CMT2E, NF68, PPP1R110	uc003xee.4	P07196	OTTHUMG00000134284		8.37:g.24813800G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B9ZVN2|Q16154|Q8IU72	Missense_Mutation	SNP	ENST00000221169.5	37																																																																																					0.637	NEFL-001	KNOWN	sequence_error|basic	processed_transcript	processed_transcript	OTTHUMT00000258943.4	NM_006158		A	24813800	G	A	24813800	1	1	702	0	1	0	0	0	0	0	0	0	10322	1203	42	2		2	NEFL	8	24813800	RNA	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	21989633	24813800	121550222	42	46148										
MATN2	4147	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	99039960	99039960	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	acccaaggagaaggggccagGcccctttccacaagggtgcc	13	14	0	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr8:99039960G>T	ENST00000520016.1	+	13	2383	c.2259G>T	c.(2257-2259)agG>agT	p.R753S	MATN2_ENST00000524308.1_Missense_Mutation_p.R712S|MATN2_ENST00000522025.2_Missense_Mutation_p.R469S|MATN2_ENST00000521689.1_Missense_Mutation_p.R753S|RPL30_ENST00000518164.1_Intron|MATN2_ENST00000254898.5_Missense_Mutation_p.R753S			O00339	MATN2_HUMAN	matrilin 2	753	VWFA 2. {ECO:0000255|PROSITE- ProRule:PRU00219}.					proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)			breast(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(17)|ovary(2)|urinary_tract(1)	31	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			AAGGGGCCAGGCCCCTTTCCA	0.562																																																0													41	42	42					8																	99039960		1887	4109	5996	SO:0001583	missense	4147			U69263	CCDS55264.1, CCDS55265.1	8q22.1-q22.2	2008-05-15							6908	protein-coding gene	gene with protein product		602108				9083061, 11852232	Standard	XM_005250920		Approved		uc003yic.3	O00339		ENST00000520016.1:c.2259G>T	8.37:g.99039960G>T	ENSP00000430487:p.Arg753Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8K106|E7EW74|E9PD48|E9PGL2|Q6UWA5|Q7Z5X1|Q8NDE6|Q96FT5|Q9NSZ1	Missense_Mutation	SNP	ENST00000520016.1	37	CCDS55264.1	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	.|.|.	G|G|G	18.65|18.65|18.65	3.670245|3.670245|3.670245	0.67814|0.67814|0.67814	.|.|.	.|.|.	ENSG00000132561|ENSG00000132561|ENSG00000132561	ENST00000518154|ENST00000519582|ENST00000521689;ENST00000254898;ENST00000378716;ENST00000524308;ENST00000522025;ENST00000520016	.|.|D;D;D;D;D	.|.|0.87571	.|.|-2.27;-2.27;-2.27;-2.27;-2.27	5.24|5.24|5.24	4.34|4.34|4.34	0.51931|0.51931|0.51931	.|.|von Willebrand factor, type A (3);	.|.|0.000000	.|.|0.64402	.|.|D	.|.|0.000002	D|D|D	0.94548|0.94548|0.94548	0.8244|0.8244|0.8244	H|H|H	0.95187|0.95187|0.95187	3.635|3.635|3.635	0.80722|0.80722|0.80722	D|D|D	1|1|1	.|.|D;D;D	.|.|0.89917	.|.|1.0;1.0;1.0	.|.|D;D;D	.|.|0.91635	.|.|0.999;0.999;0.999	D|D|D	0.94271|0.94271|0.94271	0.7511|0.7511|0.7511	5|5|10	.|.|0.87932	.|.|D	.|.|0	-23.5915|-23.5915|-23.5915	8.2515|8.2515|8.2515	0.31724|0.31724|0.31724	0.2672:0.0:0.7328:0.0|0.2672:0.0:0.7328:0.0|0.2672:0.0:0.7328:0.0	.|.|.	.|.|753;753;753	.|.|E9PF03;O00339-2;O00339	.|.|.;.;MATN2_HUMAN	S|V|S	536|9|753;753;712;712;469;753	.|.|ENSP00000429977:R753S;ENSP00000254898:R753S;ENSP00000430221:R712S;ENSP00000429010:R469S;ENSP00000430487:R753S	.|.|ENSP00000254898:R753S	A|G|R	+|+|+	1|2|3	0|0|2	MATN2|MATN2|MATN2	99109136|99109136|99109136	1.000000|1.000000|1.000000	0.71417|0.71417|0.71417	1.000000|1.000000|1.000000	0.80357|0.80357|0.80357	0.934000|0.934000|0.934000	0.57294|0.57294|0.57294	3.500000|3.500000|3.500000	0.53318|0.53318|0.53318	1.272000|1.272000|1.272000	0.44329|0.44329|0.44329	0.555000|0.555000|0.555000	0.69702|0.69702|0.69702	GCC|GGC|AGG		0.562	MATN2-004	KNOWN	non_canonical_conserved|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000380332.1			T	99039960	G	T	99039960	3	4	702	1	0	0	0	0	1	0	0	0	9341	1194	42	4	2309	4	MATN2	8	99039960	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	74226160	99039960	47324062	43	46149										
GPR20	2843	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	142367789	142367789	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	cttggcccgggtgcggcagcAgaagacgtacagcgccagcc	15	14	0	2			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr8:142367789A>T	ENST00000377741.3	-	2	325	c.235T>A	c.(235-237)Tgc>Agc	p.C79S	CTD-3064M3.3_ENST00000562459.1_RNA	NM_005293.2	NP_005284.2	Q99678	GPR20_HUMAN	G protein-coupled receptor 20	79					G-protein coupled receptor signaling pathway (GO:0007186)	integral component of plasma membrane (GO:0005887)|receptor complex (GO:0043235)	G-protein coupled receptor activity (GO:0004930)			NS(1)|endometrium(3)|lung(4)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	15	all_cancers(97;4.32e-16)|all_epithelial(106;6.61e-14)|Lung NSC(106;9.4e-06)|all_lung(105;1.35e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0415)			GTGCGGCAGCAGAAGACGTAC	0.647																																																0													86	86	86					8																	142367789		2203	4300	6503	SO:0001583	missense	2843			U66579	CCDS34949.1	8q24.3	2012-08-21				ENSG00000204882		"GPCR / Class A : Orphans"	4475	protein-coding gene	gene with protein product		601908				18347022	Standard	NM_005293		Approved		uc003ywf.3	Q99678		ENST00000377741.3:c.235T>A	8.37:g.142367789A>T	ENSP00000366970:p.Cys79Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q17R96	Missense_Mutation	SNP	ENST00000377741.3	37	CCDS34949.1	.	.	.	.	.	.	.	.	.	.	A	17.87	3.493963	0.64186	.	.	ENSG00000204882	ENST00000377741	T	0.36520	1.25	4.62	2.09	0.27110	GPCR, rhodopsin-like superfamily (1);	0.180691	0.48767	D	0.000162	T	0.38268	0.1034	M	0.61703	1.905	0.45995	D	0.998809	P	0.42010	0.768	P	0.46026	0.501	T	0.12451	-1.0547	10	0.66056	D	0.02	-18.3354	6.7304	0.23381	0.6853:0.1674:0.0:0.1472	.	79	Q99678	GPR20_HUMAN	S	79	ENSP00000366970:C79S	ENSP00000366970:C79S	C	-	1	0	GPR20	142436971	1.000000	0.71417	0.999000	0.59377	0.714000	0.41099	1.841000	0.39240	0.131000	0.18576	0.459000	0.35465	TGC		0.647	GPR20-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000378968.1	NM_005293		T	142367789	A	T	142367789	3	4	702	1	0	0	0	0	1	0	0	0	6687	188	7	5	845	5	GPR20	8	142367789	Missense_Mutation	SNP	A	TCGA-PJ-A5Z9-01A-11D-A28G-10	43327829	142367789	3996233	44	46150										
PLEC	5339	hgsc.bcm.edu	37	chr8	145024821	145024825	+	Frame_Shift_Del	DEL	CACCT	CACCT	-													0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	atcacgccctcgcggaagagCacctcatagatggcccgcag							TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	CACCT	CACCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr8:145024821_145024825delCACCT	ENST00000322810.4	-	1	219_223	c.50_54delAGGTG	c.(49-54)gaggtgfs	p.EV17fs	PLEC_ENST00000354958.2_Intron|PLEC_ENST00000356346.3_Intron|PLEC_ENST00000436759.2_Intron|PLEC_ENST00000527096.1_Intron	NM_201380.2	NP_958782.1	Q15149	PLEC_HUMAN	plectin	17	Globular 1.				apoptotic process (GO:0006915)|cell junction assembly (GO:0034329)|cellular component disassembly involved in execution phase of apoptosis (GO:0006921)|extracellular matrix organization (GO:0030198)|hemidesmosome assembly (GO:0031581)	costamere (GO:0043034)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|hemidesmosome (GO:0030056)|intermediate filament cytoskeleton (GO:0045111)|plasma membrane (GO:0005886)|sarcolemma (GO:0042383)|sarcoplasm (GO:0016528)	ankyrin binding (GO:0030506)|poly(A) RNA binding (GO:0044822)|structural constituent of muscle (GO:0008307)			NS(1)|breast(3)|central_nervous_system(4)|cervix(7)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(9)|large_intestine(8)|lung(57)|ovary(4)|pancreas(2)|prostate(11)|skin(9)|stomach(2)|upper_aerodigestive_tract(10)	137						CGCGGAAGAGCACCTCATAGATGGC	0.683																																																0																																										SO:0001589	frameshift_variant	5339			U53204	CCDS43769.1, CCDS43770.1, CCDS43771.1, CCDS43772.1, CCDS43773.1, CCDS43774.1, CCDS43775.1, CCDS47936.1	8q24	2010-02-04	2010-02-04	2010-02-04	ENSG00000178209	ENSG00000178209			9069	protein-coding gene	gene with protein product		601282	"plectin 1, intermediate filament binding protein, 500kD", "epidermolysis bullosa simplex 1 (Ogna)", "plectin 1, intermediate filament binding protein 500kDa"	EBS1, PLEC1		8633055, 8696340	Standard	XM_005250976		Approved	PCN, PLTN	uc003zaf.1	Q15149	OTTHUMG00000165291	ENST00000322810.4:c.50_54delAGGTG	8.37:g.145024821_145024825delCACCT	ENSP00000323856:p.Glu17fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q15148|Q16640|Q6S376|Q6S377|Q6S378|Q6S379|Q6S380|Q6S381|Q6S382|Q6S383	Frame_Shift_Del	DEL	ENST00000322810.4	37	CCDS43772.1																																																																																				0.683	PLEC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383281.1	NM_000445		-	145024825	CACCT	-	145024821	7	5	702	1	0	1	0	1	0	0	0	0	12059	697	25	0	14508	0	PLEC	8	145024821	Frame_Shift_Del	DEL	CACCT	TCGA-PJ-A5Z9-01A-11D-A28G-10	2657032	145024821	1339201	45	46151										
KIAA1797	54914	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	20988333	20988333	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	atacccttttcatttcaggcGttttgaagagaatggagtgg	11	6	2	2			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr9:20988333G>A	ENST00000380249.1	+	43	5273	c.4909G>A	c.(4909-4911)Gtt>Att	p.V1637I	FOCAD_ENST00000605086.1_Missense_Mutation_p.V1073I|FOCAD_ENST00000338382.6_Missense_Mutation_p.V1637I	NM_017794.3	NP_060264.3	Q5VW36	FOCAD_HUMAN	focadhesin	1637						focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)											CATTTCAGGCGTTTTGAAGAG	0.378																																																0													144	133	137					9																	20988333		2203	4300	6503	SO:0001583	missense	54914			AB058700	CCDS34993.1	9p21	2012-03-23	2012-03-23	2012-03-23	ENSG00000188352	ENSG00000188352			23377	protein-coding gene	gene with protein product		614606	"KIAA1797"	KIAA1797		22427331	Standard	XM_006716794		Approved	FLJ20375	uc003zog.1	Q5VW36	OTTHUMG00000066930	ENST00000380249.1:c.4909G>A	9.37:g.20988333G>A	ENSP00000369599:p.Val1637Ile	Somatic		WXS	Illumina HiSeq	Phase_I	D3DRJ9|Q6ZME1|Q8IZG0|Q96JM8|Q96MS9|Q9BVF3|Q9NX87	Missense_Mutation	SNP	ENST00000380249.1	37	CCDS34993.1	.	.	.	.	.	.	.	.	.	.	G	17.54	3.415680	0.62511	.	.	ENSG00000188352	ENST00000380249;ENST00000338382	T;T	0.22945	1.93;1.93	6.17	6.17	0.99709	.	0.000000	0.85682	D	0.000000	T	0.52597	0.1744	M	0.72118	2.19	0.80722	D	1	D	0.76494	0.999	D	0.67382	0.951	T	0.36383	-0.9750	10	0.45353	T	0.12	-28.3855	20.8794	0.99867	0.0:0.0:1.0:0.0	.	1637	Q5VW36	K1797_HUMAN	I	1637	ENSP00000369599:V1637I;ENSP00000344307:V1637I	ENSP00000344307:V1637I	V	+	1	0	KIAA1797	20978333	1.000000	0.71417	0.317000	0.25265	0.044000	0.14063	5.911000	0.69939	2.941000	0.99782	0.655000	0.94253	GTT		0.378	FOCAD-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000143442.1	NM_017794		A	20988333	G	A	20988333	3	1	702	1	0	0	0	0	1	0	0	0	8265	1145	40	1	5067	1	KIAA1797	9	20988333	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10		20988333	120225098	46	46152										
TOPORS	10210	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	32541932	32541932	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	aaactatctctacacttaggCtccgggtcttcctttttctc	5	13	3	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr9:32541932C>T	ENST00000360538.2	-	3	2707	c.2591G>A	c.(2590-2592)aGc>aAc	p.S864N	TOPORS_ENST00000379858.1_Missense_Mutation_p.S799N	NM_005802.4	NP_005793.2	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich, E3 ubiquitin protein ligase	864	Interaction with TOP1.|Interaction with UBE2I.|Lys-rich.				cellular response to DNA damage stimulus (GO:0006974)|intrinsic apoptotic signaling pathway in response to DNA damage (GO:0008630)|intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator (GO:0042771)|maintenance of protein location in nucleus (GO:0051457)|negative regulation of apoptotic process (GO:0043066)|photoreceptor cell outer segment organization (GO:0035845)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of ubiquitin-protein transferase activity (GO:0051443)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein K48-linked ubiquitination (GO:0070936)|protein localization to nucleus (GO:0034504)|protein monoubiquitination (GO:0006513)|protein sumoylation (GO:0016925)|regulation of cell proliferation (GO:0042127)|retina layer formation (GO:0010842)|retinal cone cell development (GO:0046549)|retinal rod cell development (GO:0046548)|transcription, DNA-templated (GO:0006351)|ubiquitin-dependent protein catabolic process (GO:0006511)	centriole (GO:0005814)|ciliary basal body (GO:0036064)|gamma-tubulin complex (GO:0000930)|midbody (GO:0030496)|nuclear speck (GO:0016607)|nucleus (GO:0005634)|photoreceptor connecting cilium (GO:0032391)|PML body (GO:0016605)|spindle pole (GO:0000922)|ubiquitin ligase complex (GO:0000151)	antigen binding (GO:0003823)|DNA binding (GO:0003677)|DNA topoisomerase binding (GO:0044547)|SUMO ligase activity (GO:0019789)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			large_intestine(6)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)	12			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		TACACTTAGGCTCCGGGTCTT	0.358																																																0													203	207	205					9																	32541932		2203	4300	6503	SO:0001583	missense	10210			AF098300	CCDS6527.1, CCDS56566.1	9p21	2013-01-09	2010-09-17		ENSG00000197579	ENSG00000197579		"RING-type (C3HC4) zinc fingers"	21653	protein-coding gene	gene with protein product		609507	"retinitis pigmentosa 31 (autosomal dominant)", "topoisomerase I binding, arginine/serine-rich"	RP31		10352183, 12083797, 17924349	Standard	NM_005802		Approved	TP53BPL, LUN	uc003zrb.3	Q9NS56	OTTHUMG00000019743	ENST00000360538.2:c.2591G>A	9.37:g.32541932C>T	ENSP00000353735:p.Ser864Asn	Somatic		WXS	Illumina HiSeq	Phase_I	O43273|Q6P987|Q9NS55|Q9UNR9	Missense_Mutation	SNP	ENST00000360538.2	37	CCDS6527.1	.	.	.	.	.	.	.	.	.	.	C	16.72	3.202662	0.58234	.	.	ENSG00000197579	ENST00000360538;ENST00000379858	T;T	0.34072	1.38;1.44	5.91	5.91	0.95273	.	0.000000	0.64402	D	0.000011	T	0.52468	0.1736	L	0.32530	0.975	0.39310	D	0.965069	D	0.89917	1.0	D	0.83275	0.996	T	0.53982	-0.8361	10	0.87932	D	0	-9.414	19.0572	0.93070	0.0:1.0:0.0:0.0	.	864	Q9NS56	TOPRS_HUMAN	N	864;799	ENSP00000353735:S864N;ENSP00000369187:S799N	ENSP00000353735:S864N	S	-	2	0	TOPORS	32531932	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	4.479000	0.60236	2.803000	0.96430	0.650000	0.86243	AGC		0.358	TOPORS-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000052007.1	NM_005802		T	32541932	C	T	32541932	3	4	702	1	0	0	0	0	1	0	0	0	16382	797	28	2	550	2	TOPORS	9	32541932	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	11553599	32541932	108671499	47	46153										
BAT2L1	84726	broad.mit.edu	37	chr9	134351684	134351685	+	Frame_Shift_Ins	INS	-	-	G													0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	cagcgagcggcgggagcggcINSgggaaggccctgggtccgag					rs376130854		TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr9:134351684_134351685insG	ENST00000357304.4	+	15	4223_4224	c.4168_4169insG	c.(4168-4170)cggfs	p.R1390fs	PRRC2B_ENST00000372249.1_5'UTR|PRRC2B_ENST00000405995.1_Intron|PRRC2B_ENST00000458550.1_Intron	NM_013318.3	NP_037450.2	Q5JSZ5	PRC2B_HUMAN	proline-rich coiled-coil 2B	1390							poly(A) RNA binding (GO:0044822)			cervix(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(7)|lung(20)|ovary(2)	44						GCGGGAGCGGCGGGAAGGCCCT	0.649											OREG0019561	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0										25,3565		0,25,1770						5.9	1			12	73,7729		0,73,3828	no	frameshift	PRRC2B	NM_013318.3		0,98,5598	A1A1,A1R,RR		0.9357,0.6964,0.8603				98,11294				SO:0001589	frameshift_variant	84726			AB011087	CCDS48044.1	9q34.13	2010-12-09	2010-12-09	2010-12-09	ENSG00000130723	ENSG00000130723			28121	protein-coding gene	gene with protein product			"KIAA0515", "HLA-B associated transcript 2-like", "HLA-B associated transcript 2-like 1"	KIAA0515, BAT2L, BAT2L1		9628581	Standard	NM_013318		Approved	MGC10526, LQFBS-1	uc004can.4	Q5JSZ5	OTTHUMG00000020827	ENST00000357304.4:c.4171dupG	9.37:g.134351687_134351687dupG	ENSP00000349856:p.Arg1390fs	Somatic	1610	WXS	Illumina HiSeq	Phase_I	O60270|Q5JSZ7|Q66VZ2|Q68CR0|Q96EI9|Q9H683	Frame_Shift_Ins	INS	ENST00000357304.4	37	CCDS48044.1																																																																																				0.649	PRRC2B-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding				G	134351685	-	G	134351684	7	5	702	1	0	1	1	0	0	0	0	0	1320	759	27	0	4226	0	BAT2L1	9	134351684	Frame_Shift_Ins	INS	-	TCGA-PJ-A5Z9-01A-11D-A28G-10	101809752	134351684	6861747	48	46154										
FCN2	2220	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	137777085	137777085	+	Splice_Site	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tccccgggttcccttcccagGcccgcgtacctgcaaggacc	10	19	0	0	rs529779645	byFrequency	TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr9:137777085G>T	ENST00000291744.6	+	5	312	c.302G>T	c.(301-303)gGc>gTc	p.G101V	FCN2_ENST00000350339.2_Splice_Site_p.G63V	NM_004108.2	NP_004099.2	Q15485	FCN2_HUMAN	ficolin (collagen/fibrinogen domain containing lectin) 2	101	Fibrinogen C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00739}.				complement activation (GO:0006956)|complement activation, lectin pathway (GO:0001867)|innate immune response (GO:0045087)|opsonization (GO:0008228)	blood microparticle (GO:0072562)|collagen trimer (GO:0005581)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)	antigen binding (GO:0003823)|calcium ion binding (GO:0005509)|calcium-dependent protein binding (GO:0048306)|carbohydrate binding (GO:0030246)			breast(2)|central_nervous_system(1)|large_intestine(4)|lung(8)|ovary(1)|prostate(2)|urinary_tract(2)	20		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.58e-08)|Epithelial(140;6.41e-08)|all cancers(34;3.96e-07)		CCCTTCCCAGGCCCGCGTACC	0.667																																																0													53	52	52					9																	137777085		2203	4300	6503	SO:0001630	splice_region_variant	2220			D49353	CCDS6983.1	9q34	2013-09-12	2013-09-12		ENSG00000160339	ENSG00000160339		"Fibrinogen C domain containing"	3624	protein-coding gene	gene with protein product	"hucolin", "collagen/fibrinogen domain-containing protein 2", "ficolin B", "serum lectin p35", "L-ficolin"	601624	"ficolin (collagen/fibrinogen domain-containing lectin) 2 (hucolin)"			8884275	Standard	XM_006717015		Approved	P35, FCNL, EBP-37, ficolin-2	uc004cfg.1	Q15485	OTTHUMG00000020892	ENST00000291744.6:c.302-1G>T	9.37:g.137777085G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A6NFG7|A8K478|Q6IS69|Q7M4P4|Q9UC57	Missense_Mutation	SNP	ENST00000291744.6	37	CCDS6983.1	.	.	.	.	.	.	.	.	.	.	G	6.759	0.508916	0.12883	.	.	ENSG00000160339	ENST00000350339;ENST00000291744	T;T	0.19394	2.15;2.15	3.59	2.66	0.31614	Fibrinogen, alpha/beta/gamma chain, C-terminal globular (3);	.	.	.	.	T	0.40815	0.1132	M	0.89353	3.025	0.30440	N	0.776243	P;P	0.49696	0.927;0.763	P;P	0.51701	0.462;0.677	T	0.48258	-0.9051	8	.	.	.	.	9.7179	0.40284	0.0:0.4147:0.5853:0.0	.	63;101	Q15485-2;Q15485	.;FCN2_HUMAN	V	63;101	ENSP00000291741:G63V;ENSP00000291744:G101V	.	G	+	2	0	FCN2	136916906	0.229000	0.23729	0.063000	0.19743	0.018000	0.09664	0.409000	0.21082	0.444000	0.26612	0.462000	0.41574	GGC		0.667	FCN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054960.1	NM_004108	Missense_Mutation	T	137777085	G	T	137777085	5	4	702	1	0	0	0	0	0	0	1	0	5799	1217	42	4	320	4	FCN2	9	137777085	Splice_Site	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	3425401	137777085	3436346	49	46155										
KCNT1	402381	hgsc.bcm.edu	37	chr9	138594140	138594140	+	5'Flank	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ggggcgcggaccccggggggCgtctgccgggaggcgcgcgg	24	13	1	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr9:138594140C>G	ENST00000298466.5	-	0	0				KCNT1_ENST00000487664.1_Silent_p.G12G|SOHLH1_ENST00000425225.1_5'Flank|KCNT1_ENST00000298480.5_Silent_p.G12G|KCNT1_ENST00000371757.2_Silent_p.G12G	NM_001012415.2	NP_001012415	Q5JUK2	SOLH1_HUMAN	spermatogenesis and oogenesis specific basic helix-loop-helix 1						oogenesis (GO:0048477)|ovarian follicle development (GO:0001541)|positive regulation of transcription, DNA-templated (GO:0045893)|spermatogenesis (GO:0007283)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(1)|lung(5)|prostate(1)	12		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.66e-07)|Epithelial(140;1.11e-06)|all cancers(34;6.45e-05)		ccccggggggcgtctgccggg	0.731																																																0													12	16	15					9																	138594140		2168	4247	6415	SO:0001631	upstream_gene_variant	57582			BC031861	CCDS35174.1, CCDS48054.1	9q34.3	2013-05-21	2006-03-16	2006-03-16	ENSG00000165643	ENSG00000165643		"Basic helix-loop-helix proteins"	27845	protein-coding gene	gene with protein product	"spermatogenesis associated 27"	610224	"chromosome 9 open reading frame 157"	C9orf157		12477932	Standard	NM_001012415		Approved	NOHLH, TEB2, bA100C15.3, bHLHe80, SPATA27	uc010nbe.3	Q5JUK2	OTTHUMG00000020915		9.37:g.138594140C>G	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	C9JG81|Q5EE14|Q5EGC2|Q8NEE3	Silent	SNP	ENST00000298466.5	37	CCDS35174.1																																																																																				0.731	SOHLH1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000055018.2	NM_001012415		G	138594140	C	G	138594140	1	3	702	0	1	0	0	0	0	0	0	0	8098	755	27	4		4	KCNT1	9	138594140	5'Flank	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	817055	138594140	2619291	50	46156										
DHTKD1	55526	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	12160902	12160902	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tacagcaagagatgagcaaaTacaaacatgttaaaggtaag	9	5	0	2			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr10:12160902T>C	ENST00000263035.4	+	15	2619	c.2557T>C	c.(2557-2559)Tac>Cac	p.Y853H	U6_ENST00000606801.1_RNA	NM_018706.5	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain containing 1	853					cell death (GO:0008219)|generation of precursor metabolites and energy (GO:0006091)|glycolytic process (GO:0006096)|hematopoietic progenitor cell differentiation (GO:0002244)|tricarboxylic acid cycle (GO:0006099)	mitochondrion (GO:0005739)	oxoglutarate dehydrogenase (succinyl-transferring) activity (GO:0004591)|thiamine pyrophosphate binding (GO:0030976)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(11)|liver(2)|lung(14)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|soft_tissue(1)|stomach(3)|upper_aerodigestive_tract(1)	44		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			GATGAGCAAATACAAACATGT	0.433																																																0													124	119	121					10																	12160902		2203	4300	6503	SO:0001583	missense	55526			BC002477	CCDS7087.1	10p14	2003-11-24			ENSG00000181192	ENSG00000181192			23537	protein-coding gene	gene with protein product		614984				10997877	Standard	NM_018706		Approved	KIAA1630, MGC3090, DKFZP762M115	uc001ild.5	Q96HY7	OTTHUMG00000017677	ENST00000263035.4:c.2557T>C	10.37:g.12160902T>C	ENSP00000263035:p.Tyr853His	Somatic		WXS	Illumina HiSeq	Phase_I	Q68CU5|Q9BUM8|Q9HCE2	Missense_Mutation	SNP	ENST00000263035.4	37	CCDS7087.1	.	.	.	.	.	.	.	.	.	.	T	20.8	4.049542	0.75846	.	.	ENSG00000181192	ENST00000263035	T	0.09538	2.97	4.88	4.88	0.63580	.	0.000000	0.85682	D	0.000000	T	0.35451	0.0932	M	0.92169	3.28	0.80722	D	1	D	0.57571	0.98	P	0.54856	0.762	T	0.51466	-0.8702	10	0.87932	D	0	-7.7955	14.7709	0.69679	0.0:0.0:0.0:1.0	.	853	Q96HY7	DHTK1_HUMAN	H	853	ENSP00000263035:Y853H	ENSP00000263035:Y853H	Y	+	1	0	DHTKD1	12200908	1.000000	0.71417	0.699000	0.30290	0.831000	0.47069	7.619000	0.83057	1.955000	0.56771	0.379000	0.24179	TAC		0.433	DHTKD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000046777.1	NM_018706		C	12160902	T	C	12160902	3	2	702	1	0	0	0	0	1	0	0	0	4502	1406	49	3	2615	3	DHTKD1	10	12160902	Missense_Mutation	SNP	T	TCGA-PJ-A5Z9-01A-11D-A28G-10		12160902	123373845	51	46157										
PTPLA	9200	broad.mit.edu	37	chr10	17636308	17636308	+	Missense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	acattcctgttttcttcacaTgcggcaaggcagcgtatatt	8	10	2	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr10:17636308T>A	ENST00000361271.3	-	6	717	c.680A>T	c.(679-681)cAt>cTt	p.H227L		NM_014241.3	NP_055056.3	B0YJ81	HACD1_HUMAN	protein tyrosine phosphatase-like (proline instead of catalytic arginine), member A	227			H -> Y (in dbSNP:rs1053926). {ECO:0000269|PubMed:10644438, ECO:0000269|PubMed:11054553}.		fatty acid biosynthetic process (GO:0006633)|multicellular organismal development (GO:0007275)|myotube differentiation (GO:0014902)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)|regulation of G1/S transition of mitotic cell cycle (GO:2000045)|regulation of G2/M transition of mitotic cell cycle (GO:0010389)|signal transduction (GO:0007165)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)	lyase activity (GO:0016829)|protein tyrosine phosphatase activity (GO:0004725)			breast(1)|central_nervous_system(1)|cervix(1)|endometrium(1)|large_intestine(2)|lung(6)|skin(1)	13						TTTCTTCACATGCGGCAAGGC	0.323																																																0													69	70	70					10																	17636308		2203	4294	6497	SO:0001583	missense	9200			AF114494	CCDS7121.1	10p14-p13	2008-08-01	2005-11-11		ENSG00000165996	ENSG00000165996			9639	protein-coding gene	gene with protein product	"cementum attachment protein"	610467	"protein tyrosine phosphatase-like (proline instead of catalytic arginine), member a"			10644438	Standard	XM_005252641		Approved	CAP	uc001ipg.3	B0YJ81	OTTHUMG00000017750	ENST00000361271.3:c.680A>T	10.37:g.17636308T>A	ENSP00000355308:p.His227Leu	Somatic		WXS	Illumina HiSeq	Phase_I	B0YJ80|Q6JIC5|Q96FW7|Q9HB93|Q9UHX2	Missense_Mutation	SNP	ENST00000361271.3	37	CCDS7121.1	.	.	.	.	.	.	.	.	.	.	T	14.46	2.540937	0.45280	.	.	ENSG00000165996	ENST00000361271	T	0.28255	1.62	5.72	5.72	0.89469	.	0.165083	0.56097	D	0.000036	T	0.26702	0.0653	L	0.31752	0.955	0.80722	D	1	B	0.06786	0.001	B	0.01281	0.0	T	0.02877	-1.1099	10	0.62326	D	0.03	-17.2091	16.2962	0.82776	0.0:0.0:0.0:1.0	.	227	B0YJ81	HACD1_HUMAN	L	227	ENSP00000355308:H227L	ENSP00000355308:H227L	H	-	2	0	PTPLA	17676314	0.998000	0.40836	0.703000	0.30354	0.544000	0.35116	2.640000	0.46579	2.304000	0.77564	0.528000	0.53228	CAT		0.323	PTPLA-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047046.1	NM_014241		A	17636308	T	A	17636308	3	1	702	1	0	0	0	0	1	0	0	0	12785	1464	51	5	194	5	PTPLA	10	17636308	Missense_Mutation	SNP	T	TCGA-PJ-A5Z9-01A-11D-A28G-10	5475406	17636308	117898439	52	46158										
ANK3	288	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	61829169	61829169	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ttttcctgatgagactttcaCtgggttatctttctctgtgg	9	8	3	2			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr10:61829169C>T	ENST00000280772.2	-	37	11661	c.11470G>A	c.(11470-11472)Gtg>Atg	p.V3824M	ANK3_ENST00000503366.1_Intron|ANK3_ENST00000373827.2_Intron|ANK3_ENST00000355288.2_Intron	NM_020987.3	NP_066267.2	Q12955	ANK3_HUMAN	ankyrin 3, node of Ranvier (ankyrin G)	3824					axon guidance (GO:0007411)|axonogenesis (GO:0007409)|cytoskeletal anchoring at plasma membrane (GO:0007016)|establishment of protein localization (GO:0045184)|Golgi to plasma membrane protein transport (GO:0043001)|maintenance of protein location in plasma membrane (GO:0072660)|membrane assembly (GO:0071709)|mitotic cytokinesis (GO:0000281)|neuromuscular junction development (GO:0007528)|neuronal action potential (GO:0019228)|plasma membrane organization (GO:0007009)|positive regulation of cell communication by electrical coupling (GO:0010650)|positive regulation of gene expression (GO:0010628)|positive regulation of homotypic cell-cell adhesion (GO:0034112)|positive regulation of membrane depolarization during cardiac muscle cell action potential (GO:1900827)|positive regulation of membrane potential (GO:0045838)|positive regulation of protein targeting to membrane (GO:0090314)|positive regulation of sodium ion transmembrane transporter activity (GO:2000651)|positive regulation of sodium ion transport (GO:0010765)|protein localization to plasma membrane (GO:0072659)|protein targeting to plasma membrane (GO:0072661)|regulation of potassium ion transport (GO:0043266)|signal transduction (GO:0007165)	axon initial segment (GO:0043194)|basolateral plasma membrane (GO:0016323)|cell surface (GO:0009986)|costamere (GO:0043034)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|intercalated disc (GO:0014704)|lateral plasma membrane (GO:0016328)|lysosome (GO:0005764)|neuromuscular junction (GO:0031594)|node of Ranvier (GO:0033268)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|sarcolemma (GO:0042383)|sarcoplasmic reticulum (GO:0016529)|spectrin-associated cytoskeleton (GO:0014731)|T-tubule (GO:0030315)|Z disc (GO:0030018)	cadherin binding (GO:0045296)|cytoskeletal protein binding (GO:0008092)|ion channel binding (GO:0044325)|protein binding, bridging (GO:0030674)|spectrin binding (GO:0030507)|structural constituent of cytoskeleton (GO:0005200)			NS(4)|breast(7)|central_nervous_system(5)|endometrium(19)|haematopoietic_and_lymphoid_tissue(5)|kidney(14)|large_intestine(30)|liver(2)|lung(59)|ovary(8)|pancreas(2)|prostate(5)|skin(26)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(7)	196						GAGACTTTCACTGGGTTATCT	0.378																																																0													241	236	238					10																	61829169		2203	4300	6503	SO:0001583	missense	288			U13616	CCDS7258.1, CCDS7259.1, CCDS55711.1, CCDS55712.1	10q21	2013-01-10			ENSG00000151150	ENSG00000151150		"Ankyrin repeat domain containing"	494	protein-coding gene	gene with protein product	"ankyrin-3, node of Ranvier", "ankyrin-G"	600465				7665168	Standard	NM_020987		Approved		uc001jky.3	Q12955	OTTHUMG00000018288	ENST00000280772.2:c.11470G>A	10.37:g.61829169C>T	ENSP00000280772:p.Val3824Met	Somatic		WXS	Illumina HiSeq	Phase_I	B1AQT2|B4DIL1|E9PE32|Q13484|Q5CZH9|Q5VXD5|Q7Z3G4|Q9H0P5	Missense_Mutation	SNP	ENST00000280772.2	37	CCDS7258.1	.	.	.	.	.	.	.	.	.	.	C	12.81	2.048577	0.36181	.	.	ENSG00000151150	ENST00000280772	T	0.43688	0.94	4.99	3.09	0.35607	.	0.226364	0.22221	N	0.062959	T	0.22666	0.0547	N	0.14661	0.345	0.80722	D	1	B	0.06786	0.001	B	0.06405	0.002	T	0.04537	-1.0944	10	0.45353	T	0.12	.	5.5172	0.16914	0.0:0.6224:0.1464:0.2312	.	3824	Q12955	ANK3_HUMAN	M	3824	ENSP00000280772:V3824M	ENSP00000280772:V3824M	V	-	1	0	ANK3	61499175	0.975000	0.34042	1.000000	0.80357	0.979000	0.70002	0.968000	0.29357	0.581000	0.29539	0.650000	0.86243	GTG		0.378	ANK3-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000048201.4	NM_020987		T	61829169	C	T	61829169	3	4	702	1	0	0	0	0	1	0	0	0	622	565	20	2	2004	2	ANK3	10	61829169	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	44192861	61829169	73705578	53	46159										
MMRN2	79812	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	88703695	88703695	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	agctcctggaagtcagccctGgccacggcactgtcctggac	12	15	1	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr10:88703695G>A	ENST00000372027.5	-	6	1167	c.846C>T	c.(844-846)gcC>gcT	p.A282A	MMRN2_ENST00000488950.1_5'UTR	NM_024756.2	NP_079032.2	Q9H8L6	MMRN2_HUMAN	multimerin 2	282					angiogenesis (GO:0001525)|negative regulation of cell migration involved in sprouting angiogenesis (GO:0090051)|negative regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030948)	basement membrane (GO:0005604)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)				breast(1)|kidney(1)|large_intestine(6)|lung(7)|prostate(2)|skin(1)|stomach(1)	19						AGTCAGCCCTGGCCACGGCAC	0.602																																																0													62	58	59					10																	88703695		2203	4300	6503	SO:0001819	synonymous_variant	79812			AK023527	CCDS7379.1	10q23.31	2004-03-10	2004-03-02	2004-03-02	ENSG00000173269	ENSG00000173269		"EMI domain containing"	19888	protein-coding gene	gene with protein product		608925	"elastin microfibril interfacer 3"	EMILIN3		11559704	Standard	NM_024756		Approved	EndoGlyx-1, FLJ13465	uc001kea.3	Q9H8L6	OTTHUMG00000018663	ENST00000372027.5:c.846C>T	10.37:g.88703695G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q504V7|Q6P2N2	Silent	SNP	ENST00000372027.5	37	CCDS7379.1																																																																																				0.602	MMRN2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049179.2	NM_024756		A	88703695	G	A	88703695	2	1	702	1	0	0	0	0	0	0	0	1	9678	1335	47	2		2	MMRN2	10	88703695	Silent	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	26874526	88703695	46831052	54	46160										
RRP12	23223	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	99160073	99160073	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	cgcccctacctccttgtgggCagccgagttggactcccaga	11	16	0	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr10:99160073C>T	ENST00000370992.4	-	2	469	c.358G>A	c.(358-360)Gcc>Acc	p.A120T	RRP12_ENST00000414986.1_Missense_Mutation_p.A120T|RP11-452K12.7_ENST00000422848.1_RNA|RRP12_ENST00000315563.6_Missense_Mutation_p.A120T	NM_015179.3	NP_055994.2	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog (S. cerevisiae)	120						integral component of membrane (GO:0016021)|nucleolus (GO:0005730)	poly(A) RNA binding (GO:0044822)			NS(1)|breast(2)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(5)|large_intestine(2)|lung(13)|ovary(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)	37		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		TCCTTGTGGGCAGCCGAGTTG	0.582																																																0													119	119	119					10																	99160073		2203	4300	6503	SO:0001583	missense	23223				CCDS7457.1, CCDS44467.1, CCDS60605.1	10q24.2	2006-11-06	2006-11-06	2006-11-06	ENSG00000052749	ENSG00000052749			29100	protein-coding gene	gene with protein product			"KIAA0690"	KIAA0690		9734811	Standard	NM_015179		Approved		uc001knf.3	Q5JTH9	OTTHUMG00000018855	ENST00000370992.4:c.358G>A	10.37:g.99160073C>T	ENSP00000360031:p.Ala120Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DK00|E9PCK7|Q5JTH8|Q69YK4|Q96E87|Q9BUH3|Q9Y4C7	Missense_Mutation	SNP	ENST00000370992.4	37	CCDS7457.1	.	.	.	.	.	.	.	.	.	.	C	14.00	2.406058	0.42715	.	.	ENSG00000052749	ENST00000370992;ENST00000315563;ENST00000414986	T;T;T	0.64260	-0.09;1.52;1.51	5.7	4.8	0.61643	Armadillo-type fold (1);	0.208574	0.49916	D	0.000127	T	0.51295	0.1666	L	0.40543	1.245	0.80722	D	1	P;P;B	0.45715	0.787;0.865;0.001	B;B;B	0.39503	0.158;0.301;0.005	T	0.48246	-0.9052	10	0.13108	T	0.6	-11.1652	15.9236	0.79592	0.1366:0.8634:0.0:0.0	.	120;120;120	E9PCK7;Q5JTH9-2;Q5JTH9	.;.;RRP12_HUMAN	T	120	ENSP00000360031:A120T;ENSP00000324315:A120T;ENSP00000414863:A120T	ENSP00000324315:A120T	A	-	1	0	RRP12	99150063	0.992000	0.36948	0.983000	0.44433	0.965000	0.64279	3.045000	0.49838	1.429000	0.47314	-0.361000	0.07541	GCC		0.582	RRP12-007	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000049699.4	NM_015179		T	99160073	C	T	99160073	3	4	702	1	0	0	0	0	1	0	0	0	13699	710	25	2	3667	2	RRP12	10	99160073	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	10456378	99160073	36374674	55	46161										
STK32C	282974	hgsc.bcm.edu	37	chr10	134036392	134036392	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	acgaagcccggctccaccctCttctcgctcaggtggtccca	9	18	3	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr10:134036392C>T	ENST00000368622.1	-	9	1122	c.741G>A	c.(739-741)aaG>aaA	p.K247K	STK32C_ENST00000368625.4_Silent_p.K377K					serine/threonine kinase 32C											breast(1)|endometrium(2)|large_intestine(2)|lung(15)|ovary(2)|skin(1)	23		all_cancers(35;2.72e-11)|all_epithelial(44;2.33e-08)|Lung NSC(174;0.000855)|all_lung(145;0.00146)|all_neural(114;0.0299)|Breast(234;0.106)|Colorectal(31;0.112)|Melanoma(40;0.124)|Glioma(114;0.203)		Epithelial(32;3.99e-05)|all cancers(32;5.58e-05)|OV - Ovarian serous cystadenocarcinoma(35;9.96e-05)|BRCA - Breast invasive adenocarcinoma(275;0.222)		GCTCCACCCTCTTCTCGCTCA	0.711																																																0													20	22	21					10																	134036392		2183	4281	6464	SO:0001819	synonymous_variant	282974			AK057849	CCDS7666.1	10q26.3	2004-07-22			ENSG00000165752	ENSG00000165752			21332	protein-coding gene	gene with protein product							Standard	NM_173575		Approved	PKE, MGC23665, YANK3	uc001lle.1	Q86UX6	OTTHUMG00000019285	ENST00000368622.1:c.741G>A	10.37:g.134036392C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000368622.1	37																																																																																					0.711	STK32C-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000051068.2	NM_173575		T	134036392	C	T	134036392	2	4	702	1	0	0	0	0	0	0	0	1	15311	912	32	2		2	STK32C	10	134036392	Silent	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	34876319	134036392	1498355	56	46162										
SLC22A18	5002	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	2937874	2937874	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ttcagtgcccggccatcctgGctgccctggccaccctcctg	10	19	1	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr11:2937874G>T	ENST00000380574.1	+	6	990	c.559G>T	c.(559-561)Gct>Tct	p.A187S	SLC22A18_ENST00000312221.5_Missense_Mutation_p.A187S|SLC22A18_ENST00000449793.2_Missense_Mutation_p.A89S|SLC22A18_ENST00000347936.2_Missense_Mutation_p.A187S			Q96BI1	S22AI_HUMAN	solute carrier family 22, member 18	187					drug transmembrane transport (GO:0006855)|drug transport (GO:0015893)|excretion (GO:0007588)|organic cation transport (GO:0015695)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|cytoplasm (GO:0005737)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|nuclear envelope (GO:0005635)|plasma membrane (GO:0005886)	drug transmembrane transporter activity (GO:0015238)|symporter activity (GO:0015293)|ubiquitin protein ligase binding (GO:0031625)			central_nervous_system(2)|large_intestine(1)|lung(3)|ovary(1)|prostate(1)	8		all_epithelial(84;0.000124)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)|all_lung(207;0.198)		BRCA - Breast invasive adenocarcinoma(625;0.00256)|LUSC - Lung squamous cell carcinoma(625;0.192)		GGCCATCCTGGCTGCCCTGGC	0.687																																																0													41	44	43					11																	2937874		2202	4299	6501	SO:0001583	missense	5002			AF028738	CCDS7740.1	11p15.5	2013-05-22	2008-01-11	2004-01-21	ENSG00000110628	ENSG00000110628		"Solute carriers"	10964	protein-coding gene	gene with protein product		602631	"solute carrier family 22 (organic cation transporter), member 1-like"	ORCTL2, BWSCR1A, IMPT1, SLC22A1L		9499412, 9520460	Standard	NM_183233		Approved	BWR1A, TSSC5, ITM	uc001lwx.3	Q96BI1	OTTHUMG00000010037	ENST00000380574.1:c.559G>T	11.37:g.2937874G>T	ENSP00000369948:p.Ala187Ser	Somatic		WXS	Illumina HiSeq	Phase_I	O14906|O43562|O60485|O60680|Q7LDS5|Q7LGF7	Missense_Mutation	SNP	ENST00000380574.1	37	CCDS7740.1	.	.	.	.	.	.	.	.	.	.	G	14.16	2.451570	0.43531	.	.	ENSG00000110628	ENST00000347936;ENST00000312221;ENST00000449793;ENST00000380574	T;T;T;T	0.81163	0.34;0.34;-1.46;0.34	3.77	2.8	0.32819	Major facilitator superfamily domain, general substrate transporter (1);Major facilitator superfamily domain (1);	0.460037	0.20295	N	0.095157	D	0.84316	0.5445	M	0.62723	1.935	0.09310	N	1	D;D	0.59357	0.97;0.985	P;P	0.61070	0.681;0.883	T	0.74343	-0.3696	10	0.59425	D	0.04	-12.6812	8.7536	0.34633	0.0:0.0:0.7726:0.2273	.	89;187	E9PRM7;Q96BI1	.;S22AI_HUMAN	S	187;187;89;187	ENSP00000307859:A187S;ENSP00000311139:A187S;ENSP00000392072:A89S;ENSP00000369948:A187S	ENSP00000311139:A187S	A	+	1	0	SLC22A18	2894450	0.031000	0.19500	0.002000	0.10522	0.012000	0.07955	1.338000	0.33873	0.814000	0.34374	0.491000	0.48974	GCT		0.687	SLC22A18-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000027770.1	NM_183233		T	2937874	G	T	2937874	3	4	702	1	0	0	0	0	1	0	0	0	14462	1203	42	4	577	4	SLC22A18	11	2937874	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10		2937874	132068642	57	46163										
PAMR1	25891	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	35454107	35454107	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	gatatcagaaggggcagtggGttcccagctggcacagaaca	14	9	1	2			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr11:35454107G>A	ENST00000378880.2	-	11	2405	c.1960C>T	c.(1960-1962)Ccc>Tcc	p.P654S	PAMR1_ENST00000378878.3_Missense_Mutation_p.P543S|PAMR1_ENST00000532848.1_Missense_Mutation_p.P614S|PAMR1_ENST00000278360.3_Missense_Mutation_p.P671S	NM_001001991.1	NP_001001991.1	Q6UXH9	PAMR1_HUMAN	peptidase domain containing associated with muscle regeneration 1	654	Peptidase S1. {ECO:0000255|PROSITE- ProRule:PRU00274}.					extracellular region (GO:0005576)	serine-type endopeptidase activity (GO:0004252)			breast(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(8)|ovary(3)|upper_aerodigestive_tract(1)	26						GGGGCAGTGGGTTCCCAGCTG	0.592																																																0													83	71	75					11																	35454107		2202	4298	6500	SO:0001583	missense	25891				CCDS7898.1, CCDS31460.1, CCDS60759.1, CCDS60760.1	11p13	2009-09-30			ENSG00000149090	ENSG00000149090			24554	protein-coding gene	gene with protein product	"regeneration-associated muscle protease"					15111323	Standard	NM_001282675		Approved	RAMP, DKFZP586H2123	uc001mwf.3	Q6UXH9	OTTHUMG00000166328	ENST00000378880.2:c.1960C>T	11.37:g.35454107G>A	ENSP00000368158:p.Pro654Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A8MQ58|B7ZA73|Q5EBL7|Q5JPI4|Q6N062|Q71RE9|Q96JW2|Q9Y432	Missense_Mutation	SNP	ENST00000378880.2	37	CCDS31460.1	.	.	.	.	.	.	.	.	.	.	G	15.26	2.779438	0.49891	.	.	ENSG00000149090	ENST00000278360;ENST00000378880;ENST00000378878;ENST00000532848;ENST00000527605	D;D;D;D;D	0.92595	-3.07;-3.07;-3.07;-3.07;-3.07	5.34	3.31	0.37934	Peptidase cysteine/serine, trypsin-like (1);Peptidase S1/S6, chymotrypsin/Hap (3);	0.101061	0.64402	D	0.000002	D	0.89458	0.6721	L	0.46157	1.445	0.45930	D	0.998768	P;P;P	0.45126	0.851;0.811;0.465	B;B;B	0.43838	0.253;0.433;0.124	D	0.89858	0.4014	10	0.87932	D	0	.	12.0084	0.53272	0.0:0.1315:0.732:0.1366	.	543;654;671	A8MQ58;Q6UXH9;Q6UXH9-2	.;PAMR1_HUMAN;.	S	671;654;543;614;631	ENSP00000278360:P671S;ENSP00000368158:P654S;ENSP00000368156:P543S;ENSP00000433868:P614S;ENSP00000432591:P631S	ENSP00000278360:P671S	P	-	1	0	PAMR1	35410683	1.000000	0.71417	0.982000	0.44146	0.289000	0.27227	3.841000	0.55850	1.361000	0.45981	0.561000	0.74099	CCC		0.592	PAMR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000389177.1	NM_015430		A	35454107	G	A	35454107	3	1	702	1	0	0	0	0	1	0	0	0	11420	1261	44	2	206	2	PAMR1	11	35454107	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	32516233	35454107	99552409	58	46164										
CLSTN3	9746	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	7295575	7295575	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	agtgcctctatgcatgtcggGaggggctggactatagggat	16	7	1	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr12:7295575G>C	ENST00000266546.6	+	11	2101	c.1651G>C	c.(1651-1653)Gag>Cag	p.E551Q	CLSTN3_ENST00000537408.1_Missense_Mutation_p.E563Q	NM_014718.3	NP_055533.2	Q9BQT9	CSTN3_HUMAN	calsyntenin 3	551					homophilic cell adhesion (GO:0007156)	endoplasmic reticulum (GO:0005783)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)|postsynaptic membrane (GO:0045211)	calcium ion binding (GO:0005509)			NS(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(12)|lung(7)|prostate(1)|skin(1)	33						TGCATGTCGGGAGGGGCTGGA	0.602																																																0													78	64	69					12																	7295575		2203	4300	6503	SO:0001583	missense	9746			AB018269	CCDS8575.1	12p13.31	2011-07-01			ENSG00000139182	ENSG00000139182		"Cadherins / Cadherin-related"	18371	protein-coding gene	gene with protein product	"cadherin-related family member 14"	611324				12498782	Standard	NM_014718		Approved	CSTN3, KIAA0726, CDHR14	uc001qsr.3	Q9BQT9	OTTHUMG00000168167	ENST00000266546.6:c.1651G>C	12.37:g.7295575G>C	ENSP00000266546:p.Glu551Gln	Somatic		WXS	Illumina HiSeq	Phase_I	D3DUT6|O94831|Q2T9J5|Q5UE57	Missense_Mutation	SNP	ENST00000266546.6	37	CCDS8575.1	.	.	.	.	.	.	.	.	.	.	G	28.7	4.941192	0.92526	.	.	ENSG00000139182	ENST00000266546;ENST00000537408	T;T	0.37058	1.22;1.22	5.08	5.08	0.68730	.	0.105878	0.64402	D	0.000007	T	0.63522	0.2518	M	0.79475	2.455	0.80722	D	1	D;D	0.89917	0.993;1.0	D;D	0.97110	0.979;1.0	T	0.68804	-0.5312	10	0.87932	D	0	-30.0082	18.4777	0.90799	0.0:0.0:1.0:0.0	.	563;551	Q5UE57;Q9BQT9	.;CSTN3_HUMAN	Q	551;563	ENSP00000266546:E551Q;ENSP00000440679:E563Q	ENSP00000266546:E551Q	E	+	1	0	CLSTN3	7186842	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	9.455000	0.97625	2.353000	0.79882	0.442000	0.29010	GAG		0.602	CLSTN3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000398560.2	NM_014718		C	7295575	G	C	7295575	3	2	702	1	0	0	0	0	1	0	0	0	3565	1175	41	4	1693	4	CLSTN3	12	7295575	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10		7295575	126556320	59	46165										
MARS	4141	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	57894254	57894254	+	Silent	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tgtggctatgaggaggctcgGggtgaccagtgtgacaagtg	18	6	0	3			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr12:57894254G>C	ENST00000262027.5	+	10	1376	c.1242G>C	c.(1240-1242)cgG>cgC	p.R414R	MARS_ENST00000315473.5_Silent_p.R180R|MARS_ENST00000447721.2_3'UTR	NM_004990.3	NP_004981.2	P56192	SYMC_HUMAN	methionyl-tRNA synthetase	414					gene expression (GO:0010467)|methionyl-tRNA aminoacylation (GO:0006431)|tRNA aminoacylation for protein translation (GO:0006418)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|mitochondrion (GO:0005739)	ATP binding (GO:0005524)|methionine-tRNA ligase activity (GO:0004825)|tRNA binding (GO:0000049)			breast(1)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(8)|lung(8)|ovary(3)|pancreas(1)|prostate(2)|skin(1)	33			GBM - Glioblastoma multiforme(3;4.27e-41)		L-Methionine(DB00134)	AGGAGGCTCGGGGTGACCAGT	0.562																																																0													147	115	126					12																	57894254		2203	4300	6503	SO:0001819	synonymous_variant	4141			X94754	CCDS8942.1	12q13.3	2014-05-06	2007-02-26		ENSG00000166986	ENSG00000166986	6.1.1.10	"Aminoacyl tRNA synthetases / Class I"	6898	protein-coding gene	gene with protein product	"methionine tRNA ligase 1, cytoplasmic"	156560				10448063, 24482476	Standard	NM_004990		Approved	MetRS, SPG70	uc001sog.3	P56192	OTTHUMG00000169996	ENST00000262027.5:c.1242G>C	12.37:g.57894254G>C		Somatic		WXS	Illumina HiSeq	Phase_I	B3KVK7|Q14895|Q53H14|Q96A15|Q96BZ0|Q9NSE0	Silent	SNP	ENST00000262027.5	37	CCDS8942.1																																																																																				0.562	MARS-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407014.1	NM_004990		C	57894254	G	C	57894254	2	2	702	1	0	0	0	0	0	0	0	1	9323	1219	43	4		4	MARS	12	57894254	Silent	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	50598679	57894254	75957641	60	46166										
NBEA	26960	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	35770159	35770159	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	cagaattagaaacaagtacaGgccctgatgccatgagtgaa	10	8	0	5			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr13:35770159G>T	ENST00000400445.3	+	31	5620	c.5086G>T	c.(5086-5088)Ggc>Tgc	p.G1696C	NBEA_ENST00000540320.1_Missense_Mutation_p.G1696C|NBEA_ENST00000379939.2_Missense_Mutation_p.G1693C|NBEA_ENST00000310336.4_Missense_Mutation_p.G1696C	NM_015678.4	NP_056493.3	Q8NFP9	NBEA_HUMAN	neurobeachin	1696					protein localization (GO:0008104)	cytosol (GO:0005829)|endomembrane system (GO:0012505)|plasma membrane (GO:0005886)|trans-Golgi network (GO:0005802)				NS(1)|breast(1)|endometrium(14)|kidney(4)|large_intestine(29)|lung(40)|ovary(9)|prostate(3)|skin(1)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	108		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)		AACAAGTACAGGCCCTGATGC	0.433																																																0													79	78	78					13																	35770159		1906	4130	6036	SO:0001583	missense	26960			AF467288	CCDS45026.1, CCDS55894.1	13q13	2014-09-17			ENSG00000172915	ENSG00000172915		"A-kinase anchor proteins", "WD repeat domain containing"	7648	protein-coding gene	gene with protein product		604889				10501977	Standard	NM_015678		Approved	KIAA1544, BCL8B, FLJ10197	uc021ric.1	Q8NFP9	OTTHUMG00000016724	ENST00000400445.3:c.5086G>T	13.37:g.35770159G>T	ENSP00000383295:p.Gly1696Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z2H9|Q5T320|Q9HCM8|Q9NSU1|Q9NW98|Q9Y6J1	Missense_Mutation	SNP	ENST00000400445.3	37	CCDS45026.1	.	.	.	.	.	.	.	.	.	.	G	23.1	4.376162	0.82682	.	.	ENSG00000172915	ENST00000540320;ENST00000400445;ENST00000379939;ENST00000310336;ENST00000422518	T;T;T;T	0.64085	-0.08;-0.08;-0.08;-0.08	5.98	5.98	0.97165	.	0.000000	0.85682	D	0.000000	T	0.76688	0.4022	M	0.68317	2.08	0.80722	D	1	D;D	0.89917	0.999;1.0	P;D	0.80764	0.846;0.994	T	0.77742	-0.2474	10	0.72032	D	0.01	.	13.6145	0.62099	0.0706:0.0:0.9294:0.0	.	1696;1693	Q8NFP9;Q5T321	NBEA_HUMAN;.	C	1696;1696;1693;1696;323	ENSP00000440951:G1696C;ENSP00000383295:G1696C;ENSP00000369271:G1693C;ENSP00000308534:G1696C	ENSP00000308534:G1696C	G	+	1	0	NBEA	34668159	1.000000	0.71417	1.000000	0.80357	0.981000	0.71138	7.455000	0.80726	2.843000	0.97960	0.585000	0.79938	GGC		0.433	NBEA-202	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding		NM_015678		T	35770159	G	T	35770159	3	4	702	1	0	0	0	0	1	0	0	0	10194	1000	35	4	5208	4	NBEA	13	35770159	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10		35770159	79399719	61	46167										
FSIP1	161835	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	40056080	40056080	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ttttttgtattttccatctcCtctttactttgccaagcttc	3	11	2	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr15:40056080C>T	ENST00000350221.3	-	5	710	c.501G>A	c.(499-501)gaG>gaA	p.E167E		NM_152597.4	NP_689810.3	Q8NA03	FSIP1_HUMAN	fibrous sheath interacting protein 1	167										NS(1)|breast(1)|endometrium(2)|kidney(2)|large_intestine(4)|lung(4)|ovary(2)|skin(4)|stomach(2)|urinary_tract(1)	23		all_cancers(109;2.66e-19)|all_epithelial(112;2.66e-16)|Lung NSC(122;1.5e-11)|all_lung(180;4.03e-10)|Melanoma(134;0.0575)|Ovarian(310;0.0827)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;8.22e-06)|BRCA - Breast invasive adenocarcinoma(123;0.142)		TTTCCATCTCCTCTTTACTTT	0.299																																																0													51	57	55					15																	40056080		2201	4293	6494	SO:0001819	synonymous_variant	161835			BC045191	CCDS10050.1	15q14	2012-11-19			ENSG00000150667	ENSG00000150667			21674	protein-coding gene	gene with protein product		615795				14702039	Standard	NM_152597		Approved	FLJ35989	uc001zki.3	Q8NA03	OTTHUMG00000172456	ENST00000350221.3:c.501G>A	15.37:g.40056080C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6X2C8|Q86Y89	Silent	SNP	ENST00000350221.3	37	CCDS10050.1																																																																																				0.299	FSIP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252118.2	NM_152597		T	40056080	C	T	40056080	2	4	702	1	0	0	0	0	0	0	0	1	6081	680	24	2		2	FSIP1	15	40056080	Silent	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10		40056080	62475312	62	46168										
NDUFAF1	51103	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	41689069	41689069	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tccaaagcaacttctttctgGtgatctccttgcaaatcccc	5	14	3	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr15:41689069G>A	ENST00000260361.4	-	2	570	c.189C>T	c.(187-189)caC>caT	p.H63H		NM_016013.3	NP_057097.2	Q9Y375	CIA30_HUMAN	NADH dehydrogenase (ubiquinone) complex I, assembly factor 1	63					mitochondrial electron transport, NADH to ubiquinone (GO:0006120)|protein complex assembly (GO:0006461)	cytoplasm (GO:0005737)|mitochondrial respiratory chain complex I (GO:0005747)	unfolded protein binding (GO:0051082)			endometrium(2)|kidney(1)|large_intestine(1)|lung(5)|ovary(1)|prostate(1)|skin(1)	12		all_cancers(109;5.07e-19)|all_epithelial(112;2.43e-16)|Lung NSC(122;1.81e-11)|all_lung(180;4.81e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;8e-17)|GBM - Glioblastoma multiforme(113;1.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.114)		CTTCTTTCTGGTGATCTCCTT	0.423																																																0													118	121	120					15																	41689069		2203	4300	6503	SO:0001819	synonymous_variant	51103			AF151823	CCDS10075.1	15q11.2-q21.3	2012-10-12	2012-05-08		ENSG00000137806	ENSG00000137806		"Mitochondrial respiratory chain complex assembly factors"	18828	protein-coding gene	gene with protein product		606934				11935339, 10810093	Standard	NM_016013		Approved	CIA30, CGI-65	uc001znx.3	Q9Y375	OTTHUMG00000130340	ENST00000260361.4:c.189C>T	15.37:g.41689069G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BVZ5	Silent	SNP	ENST00000260361.4	37	CCDS10075.1																																																																																				0.423	NDUFAF1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000252692.2	NM_016013		A	41689069	G	A	41689069	2	1	702	1	0	0	0	0	0	0	0	1	10281	1252	44	2		2	NDUFAF1	15	41689069	Silent	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	1632989	41689069	60842323	63	46169										
SPG11	80208	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	44855441	44855441	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	caggtaaacatcttcacaatAtgtgagtaatttcttcaggt	7	7	4	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr15:44855441A>T	ENST00000261866.7	-	40	7226	c.7210T>A	c.(7210-7212)Tat>Aat	p.Y2404N	SPG11_ENST00000535302.2_Missense_Mutation_p.Y2291N|SPG11_ENST00000427534.2_3'UTR	NM_025137.3	NP_079413.3	Q96JI7	SPTCS_HUMAN	spastic paraplegia 11 (autosomal recessive)	2404					cell death (GO:0008219)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|nucleolus (GO:0005730)|plasma membrane (GO:0005886)				autonomic_ganglia(1)|breast(5)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(4)|large_intestine(16)|lung(24)|ovary(5)|prostate(3)|skin(3)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	72		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)		TCTTCACAATATGTGAGTAAT	0.348																																																0													132	122	126					15																	44855441		2198	4298	6496	SO:0001583	missense	80208				CCDS10112.1, CCDS53939.1	15q13-q15	2007-11-13			ENSG00000104133	ENSG00000104133			11226	protein-coding gene	gene with protein product	"spatacsin"	610844	"KIAA1840"	KIAA1840		10408536, 17322883	Standard	NM_001160227		Approved	FLJ21439	uc001ztx.3	Q96JI7	OTTHUMG00000131199	ENST00000261866.7:c.7210T>A	15.37:g.44855441A>T	ENSP00000261866:p.Tyr2404Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A8KAX9|B9EK60|F5H3N6|Q4VC11|Q58G86|Q69YG6|Q6NW01|Q8N270|Q8TBU9|Q9H734	Missense_Mutation	SNP	ENST00000261866.7	37	CCDS10112.1	.	.	.	.	.	.	.	.	.	.	A	15.36	2.809037	0.50421	.	.	ENSG00000104133	ENST00000261866;ENST00000535302	T;T	0.77098	-1.07;-0.75	5.95	5.95	0.96441	.	0.182785	0.48767	D	0.000161	D	0.86280	0.5895	M	0.73598	2.24	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.77004	0.989;0.989;0.989	D	0.85452	0.1161	10	0.35671	T	0.21	.	12.2098	0.54373	0.9321:0.0:0.0679:0.0	.	2291;2404;2404	F5H3N6;C4B7M4;Q96JI7	.;.;SPTCS_HUMAN	N	2404;2291	ENSP00000261866:Y2404N;ENSP00000445278:Y2291N	ENSP00000261866:Y2404N	Y	-	1	0	SPG11	42642733	0.998000	0.40836	0.961000	0.40146	0.958000	0.62258	3.705000	0.54823	2.276000	0.75962	0.528000	0.53228	TAT		0.348	SPG11-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000253927.1			T	44855441	A	T	44855441	3	4	702	1	0	0	0	0	1	0	0	0	15053	449	16	5	125	5	SPG11	15	44855441	Missense_Mutation	SNP	A	TCGA-PJ-A5Z9-01A-11D-A28G-10	3166372	44855441	57675951	64	46170										
C15orf42	90381	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	90167321	90167321	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	gcagcagccttcatgggcacGcctcagaatcaaacacacca	8	15	3	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr15:90167321G>A	ENST00000268138.7	+	20	3885	c.3780G>A	c.(3778-3780)acG>acA	p.T1260T	KIF7_ENST00000558928.1_Intron|TICRR_ENST00000560985.1_Silent_p.T1259T			Q7Z2Z1	TICRR_HUMAN	TOPBP1-interacting checkpoint and replication regulator	1260	Pro-rich.				cell cycle checkpoint (GO:0000075)|DNA repair (GO:0006281)|DNA replication (GO:0006260)|formation of translation preinitiation complex (GO:0001731)|mitotic DNA replication checkpoint (GO:0033314)|regulation of DNA-dependent DNA replication initiation (GO:0030174)|response to ionizing radiation (GO:0010212)	nucleus (GO:0005634)	chromatin binding (GO:0003682)										TCATGGGCACGCCTCAGAATC	0.542																																																0													66	70	69					15																	90167321		2200	4299	6499	SO:0001819	synonymous_variant	90381			AK123612	CCDS10352.2	15q26.1	2012-07-11	2012-07-11	2012-07-11	ENSG00000140534	ENSG00000140534			28704	protein-coding gene	gene with protein product	"TOPBP1-interacting replication-stimulating protein", "SLD3 homolog (S. cerevisiae)"	613298	"chromosome 15 open reading frame 42"	C15orf42		20116089, 20080954	Standard	NM_152259		Approved	MGC45866, FLJ41618, Treslin, SLD3	uc002boe.3	Q7Z2Z1	OTTHUMG00000149648	ENST00000268138.7:c.3780G>A	15.37:g.90167321G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2RE07|B3KVV9|D3IUT4|Q8N4X8|Q8NCH6|Q9BU55	Silent	SNP	ENST00000268138.7	37	CCDS10352.2																																																																																				0.542	TICRR-001	KNOWN	NAGNAG_splice_site|basic|appris_candidate_longest|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000312856.1	NM_152259		A	90167321	G	A	90167321	2	1	702	1	0	0	0	0	0	0	0	1	1798	1074	38	1		1	C15orf42	15	90167321	Silent	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	45311880	90167321	12364071	65	46171										
ANKS3	124401	hgsc.bcm.edu	37	chr16	4748510	4748510	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ctggaggtcctcgcgggcgcGgtcctgctccagcaggcagc	16	15	0	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr16:4748510G>T	ENST00000304283.4	-	14	1936	c.1642C>A	c.(1642-1644)Cgc>Agc	p.R548S	ANKS3_ENST00000446014.2_Missense_Mutation_p.R419S|ANKS3_ENST00000585773.1_Missense_Mutation_p.R475S	NM_133450.3	NP_597707.1	Q6ZW76	ANKS3_HUMAN	ankyrin repeat and sterile alpha motif domain containing 3	548										endometrium(5)|kidney(4)|large_intestine(3)|lung(5)|prostate(1)|stomach(1)	19						TCGCGGGCGCGGTCCTGCTCC	0.736																																																0													6	7	6					16																	4748510		2086	4135	6221	SO:0001583	missense	124401			AK057329	CCDS10520.1, CCDS73820.1	16p13.3	2013-01-10			ENSG00000168096	ENSG00000168096		"Sterile alpha motif (SAM) domain containing", "Ankyrin repeat domain containing"	29422	protein-coding gene	gene with protein product						11853319	Standard	NM_133450		Approved	KIAA1977, FLJ32345, FLJ32767	uc002cxj.2	Q6ZW76	OTTHUMG00000129478	ENST00000304283.4:c.1642C>A	16.37:g.4748510G>T	ENSP00000304586:p.Arg548Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DWU4|D3DUE2|Q8TF25	Missense_Mutation	SNP	ENST00000304283.4	37	CCDS10520.1	.	.	.	.	.	.	.	.	.	.	G	13.71	2.318757	0.41096	.	.	ENSG00000168096	ENST00000304283;ENST00000446014	T;T	0.31510	1.49;3.24	5.46	-6.97	0.01616	.	1.035280	0.07528	N	0.911661	T	0.04815	0.0130	N	0.00289	-1.7	0.09310	N	0.999993	B	0.02656	0.0	B	0.01281	0.0	T	0.30001	-0.9993	10	0.08837	T	0.75	0.351	3.7451	0.08545	0.0874:0.2626:0.181:0.469	.	548	Q6ZW76	ANKS3_HUMAN	S	548;419	ENSP00000304586:R548S;ENSP00000406796:R419S	ENSP00000304586:R548S	R	-	1	0	ANKS3	4688511	0.000000	0.05858	0.001000	0.08648	0.091000	0.18340	-0.450000	0.06803	-1.265000	0.02449	-0.371000	0.07208	CGC		0.736	ANKS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251642.3	NM_133450		T	4748510	G	T	4748510	3	4	702	1	0	0	0	0	1	0	0	0	690	1116	39	4	344	4	ANKS3	16	4748510	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10		4748510	85606243	66	46172										
GRIN2A	2903	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	10273887	10273887	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	gatcatagatgcgcccccatGaatgcccaagatggggacga	12	11	1	3			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr16:10273887G>C	ENST00000396573.2	-	3	691	c.382C>G	c.(382-384)Cat>Gat	p.H128D	GRIN2A_ENST00000396575.2_Missense_Mutation_p.H128D|GRIN2A_ENST00000562109.1_Missense_Mutation_p.H128D|GRIN2A_ENST00000404927.2_Missense_Mutation_p.H128D|GRIN2A_ENST00000330684.3_Missense_Mutation_p.H128D	NM_000833.3	NP_000824.1	Q12879	NMDE1_HUMAN	glutamate receptor, ionotropic, N-methyl D-aspartate 2A	128					directional locomotion (GO:0033058)|dopamine metabolic process (GO:0042417)|glutamate receptor signaling pathway (GO:0007215)|ion transmembrane transport (GO:0034220)|ionotropic glutamate receptor signaling pathway (GO:0035235)|learning or memory (GO:0007611)|memory (GO:0007613)|negative regulation of protein catabolic process (GO:0042177)|neurogenesis (GO:0022008)|positive regulation of apoptotic process (GO:0043065)|protein localization (GO:0008104)|regulation of excitatory postsynaptic membrane potential (GO:0060079)|regulation of sensory perception of pain (GO:0051930)|regulation of synaptic plasticity (GO:0048167)|response to amphetamine (GO:0001975)|response to drug (GO:0042493)|response to ethanol (GO:0045471)|response to wounding (GO:0009611)|sensory perception of pain (GO:0019233)|serotonin metabolic process (GO:0042428)|sleep (GO:0030431)|startle response (GO:0001964)|synaptic transmission (GO:0007268)|synaptic transmission, glutamatergic (GO:0035249)|transport (GO:0006810)|visual learning (GO:0008542)	cell junction (GO:0030054)|cell surface (GO:0009986)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|integral component of plasma membrane (GO:0005887)|N-methyl-D-aspartate selective glutamate receptor complex (GO:0017146)|neuronal postsynaptic density (GO:0097481)|plasma membrane (GO:0005886)|postsynaptic membrane (GO:0045211)|presynaptic membrane (GO:0042734)|synaptic vesicle (GO:0008021)	calcium channel activity (GO:0005262)|extracellular-glutamate-gated ion channel activity (GO:0005234)|N-methyl-D-aspartate selective glutamate receptor activity (GO:0004972)|zinc ion binding (GO:0008270)			NS(7)|breast(5)|cervix(1)|endometrium(11)|kidney(6)|large_intestine(36)|lung(71)|ovary(4)|prostate(9)|skin(45)|upper_aerodigestive_tract(2)|urinary_tract(1)	198					Acamprosate(DB00659)|Acetylcysteine(DB06151)|Atomoxetine(DB00289)|Felbamate(DB00949)|Gabapentin(DB00996)|Glycine(DB00145)|Halothane(DB01159)|Ketobemidone(DB06738)|Memantine(DB01043)|Milnacipran(DB04896)|Pentobarbital(DB00312)|Pethidine(DB00454)|Phenobarbital(DB01174)|Secobarbital(DB00418)	GCGCCCCCATGAATGCCCAAG	0.597																																																0													56	52	53					16																	10273887		2197	4300	6497	SO:0001583	missense	2903				CCDS10539.1, CCDS45407.1	16p13.2	2012-08-29			ENSG00000183454	ENSG00000183454		"Ligand-gated ion channels / Glutamate receptors, ionotropic", "Glutamate receptors"	4585	protein-coding gene	gene with protein product		138253		NMDAR2A		9480759	Standard	XM_005255267		Approved	GluN2A	uc002czo.4	Q12879	OTTHUMG00000129721	ENST00000396573.2:c.382C>G	16.37:g.10273887G>C	ENSP00000379818:p.His128Asp	Somatic		WXS	Illumina HiSeq	Phase_I	O00669|Q17RZ6	Missense_Mutation	SNP	ENST00000396573.2	37	CCDS10539.1	.	.	.	.	.	.	.	.	.	.	G	19.62	3.862300	0.71949	.	.	ENSG00000183454	ENST00000396573;ENST00000404927;ENST00000330684;ENST00000396575	D;D;D;D	0.85861	-2.04;-2.04;-2.04;-2.04	4.54	4.54	0.55810	Extracellular ligand-binding receptor (1);	0.062818	0.64402	D	0.000007	D	0.91068	0.7189	M	0.75447	2.3	0.80722	D	1	D;P;P	0.67145	0.996;0.879;0.803	D;P;P	0.64776	0.929;0.677;0.479	D	0.91402	0.5144	9	.	.	.	.	16.2901	0.82747	0.0:0.0:1.0:0.0	.	128;128;128	Q547U9;Q17RZ6;Q12879	.;.;NMDE1_HUMAN	D	128	ENSP00000379818:H128D;ENSP00000385872:H128D;ENSP00000332549:H128D;ENSP00000379820:H128D	.	H	-	1	0	GRIN2A	10181388	1.000000	0.71417	1.000000	0.80357	0.948000	0.59901	7.938000	0.87678	2.088000	0.63022	0.561000	0.74099	CAT		0.597	GRIN2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251930.3			C	10273887	G	C	10273887	3	2	702	1	0	0	0	0	1	0	0	0	6786	1290	45	4	4060	4	GRIN2A	16	10273887	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	5525377	10273887	80080866	67	46173										
DBNDD1	79007	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	90072805	90072805	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	gactgtggcctgccgctcggGgtcgcctaggggctgcttct	16	13	1	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr16:90072805G>T	ENST00000002501.6	-	4	546	c.415C>A	c.(415-417)Ccc>Acc	p.P139T	DBNDD1_ENST00000568838.1_Missense_Mutation_p.P259T|DBNDD1_ENST00000392973.3_Missense_Mutation_p.P145T|DBNDD1_ENST00000304733.3_Missense_Mutation_p.P159T	NM_001042610.1	NP_001036075.1	Q9H9R9	DBND1_HUMAN	dysbindin (dystrobrevin binding protein 1) domain containing 1	139						cytoplasm (GO:0005737)				kidney(1)|large_intestine(1)|lung(1)	3		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;0.0275)		TGCCGCTCGGGGTCGCCTAGG	0.677																																																0													35	45	42					16																	90072805		2023	4188	6211	SO:0001583	missense	79007			AK090696	CCDS10991.2, CCDS42223.1, CCDS73931.1	16q24.3	2008-02-05			ENSG00000003249	ENSG00000003249			28455	protein-coding gene	gene with protein product						12477932	Standard	NM_001288708		Approved	MGC3101, FLJ12582	uc002fqe.1	Q9H9R9	OTTHUMG00000138984	ENST00000002501.6:c.415C>A	16.37:g.90072805G>T	ENSP00000002501:p.Pro139Thr	Somatic		WXS	Illumina HiSeq	Phase_I	B4DQS3|Q69YT2|Q9BW25	Missense_Mutation	SNP	ENST00000002501.6	37	CCDS42223.1	.	.	.	.	.	.	.	.	.	.	G	12.61	1.990417	0.35131	.	.	ENSG00000003249	ENST00000304733;ENST00000002501;ENST00000392973	T;T	0.30448	1.53;1.53	5.64	0.925	0.19424	.	0.270724	0.37577	N	0.002024	T	0.18002	0.0432	L	0.46157	1.445	0.25250	N	0.989681	B;B	0.20052	0.023;0.041	B;B	0.15052	0.012;0.011	T	0.13098	-1.0522	10	0.16420	T	0.52	-4.1737	1.4458	0.02364	0.2704:0.1553:0.4171:0.1571	.	139;159	Q9H9R9;Q9H9R9-2	DBND1_HUMAN;.	T	159;139;259	ENSP00000306407:P159T;ENSP00000002501:P139T	ENSP00000002501:P139T	P	-	1	0	DBNDD1	88600306	1.000000	0.71417	0.003000	0.11579	0.131000	0.20780	1.604000	0.36804	0.321000	0.23259	0.491000	0.48974	CCC		0.677	DBNDD1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000272872.1	NM_024043		T	90072805	G	T	90072805	3	4	702	1	0	0	0	0	1	0	0	0	4255	1232	43	4	65	4	DBNDD1	16	90072805	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	79798918	90072805	281948	68	46174										
DNAH2	146754	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	7727530	7727530	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	cctgctgcagctggcagagcAcatgggcatggcccagcgct	14	14	0	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr17:7727530A>T	ENST00000572933.1	+	76	13030	c.11570A>T	c.(11569-11571)cAc>cTc	p.H3857L	DNAH2_ENST00000389173.2_Missense_Mutation_p.H3857L			Q9P225	DYH2_HUMAN	dynein, axonemal, heavy chain 2	3857	AAA 6. {ECO:0000250}.				cilium or flagellum-dependent cell motility (GO:0001539)|metabolic process (GO:0008152)|microtubule-based movement (GO:0007018)	axonemal dynein complex (GO:0005858)|microtubule (GO:0005874)	ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microtubule motor activity (GO:0003777)			NS(3)|breast(11)|central_nervous_system(1)|cervix(3)|endometrium(18)|haematopoietic_and_lymphoid_tissue(2)|kidney(16)|large_intestine(53)|liver(2)|lung(49)|ovary(7)|prostate(7)|skin(15)|upper_aerodigestive_tract(1)|urinary_tract(1)	189		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CTGGCAGAGCACATGGGCATG	0.662																																																0													63	56	59					17																	7727530		2203	4300	6503	SO:0001583	missense	146754			U83570, AK128517	CCDS32551.1	17p13.1	2007-10-05	2006-09-04			ENSG00000183914		"Axonemal dyneins"	2948	protein-coding gene	gene with protein product		603333	"dynein, axonemal, heavy polypeptide 2", "dynein heavy chain domain 3"	DNHD3		9256245	Standard	XM_005256470		Approved	KIAA1503, FLJ46675	uc002giu.1	Q9P225		ENST00000572933.1:c.11570A>T	17.37:g.7727530A>T	ENSP00000458355:p.His3857Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K992|B5MDX5|O15434|Q6PIH3|Q6ZR42	Missense_Mutation	SNP	ENST00000572933.1	37	CCDS32551.1	.	.	.	.	.	.	.	.	.	.	A	13.72	2.321206	0.41096	.	.	ENSG00000183914	ENST00000360606;ENST00000389173	T	0.08193	3.12	4.9	4.9	0.64082	Dynein heavy chain (1);	0.564059	0.19257	N	0.118766	T	0.05731	0.0150	N	0.11201	0.11	0.80722	D	1	B;B	0.14012	0.007;0.009	B;B	0.12156	0.004;0.007	T	0.38802	-0.9644	10	0.40728	T	0.16	.	13.4924	0.61405	1.0:0.0:0.0:0.0	.	3818;3857	Q9P225-2;Q9P225	.;DYH2_HUMAN	L	3818;3857	ENSP00000373825:H3857L	ENSP00000353818:H3818L	H	+	2	0	DNAH2	7668255	1.000000	0.71417	1.000000	0.80357	0.951000	0.60555	4.869000	0.63028	1.848000	0.53677	0.334000	0.21626	CAC		0.662	DNAH2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440241.1	NM_020877		T	7727530	A	T	7727530	3	4	702	1	0	0	0	0	1	0	0	0	4604	159	6	5	11868	5	DNAH2	17	7727530	Missense_Mutation	SNP	A	TCGA-PJ-A5Z9-01A-11D-A28G-10		7727530	73467680	69	46175										
MAPK7	5598	broad.mit.edu	37	chr17	19285118	19285118	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ccccagcgcacccctggaggCtcctgagcctcggaagccgg	13	18	0	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr17:19285118C>A	ENST00000308406.5	+	5	1888	c.1502C>A	c.(1501-1503)gCt>gAt	p.A501D	MAPK7_ENST00000299612.7_Missense_Mutation_p.A362D|MFAP4_ENST00000574313.2_5'Flank|MAPK7_ENST00000395602.4_Missense_Mutation_p.A501D|MAPK7_ENST00000395604.3_Missense_Mutation_p.A501D|MAPK7_ENST00000571657.1_Intron	NM_139033.2	NP_620602.2	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7	501	May not be required for kinase activity; required to stimulate MEF2C activity. {ECO:0000250}.|Pro-rich.				cAMP-mediated signaling (GO:0019933)|cell cycle (GO:0007049)|cell differentiation (GO:0030154)|cellular response to growth factor stimulus (GO:0071363)|cellular response to hydrogen peroxide (GO:0070301)|cellular response to laminar fluid shear stress (GO:0071499)|cellular response to transforming growth factor beta stimulus (GO:0071560)|innate immune response (GO:0045087)|MyD88-dependent toll-like receptor signaling pathway (GO:0002755)|MyD88-independent toll-like receptor signaling pathway (GO:0002756)|negative regulation of cAMP catabolic process (GO:0030821)|negative regulation of cyclic-nucleotide phosphodiesterase activity (GO:0051344)|negative regulation of endothelial cell apoptotic process (GO:2000352)|negative regulation of extrinsic apoptotic signaling pathway in absence of ligand (GO:2001240)|negative regulation of heterotypic cell-cell adhesion (GO:0034115)|negative regulation of inflammatory response (GO:0050728)|negative regulation of NFAT protein import into nucleus (GO:0051534)|negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway (GO:1902176)|negative regulation of response to cytokine stimulus (GO:0060761)|neurotrophin TRK receptor signaling pathway (GO:0048011)|peptidyl-serine phosphorylation (GO:0018105)|positive regulation of protein metabolic process (GO:0051247)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription from RNA polymerase II promoter in response to stress (GO:0036003)|regulation of angiogenesis (GO:0045765)|signal transduction (GO:0007165)|stress-activated MAPK cascade (GO:0051403)|toll-like receptor 10 signaling pathway (GO:0034166)|toll-like receptor 2 signaling pathway (GO:0034134)|toll-like receptor 3 signaling pathway (GO:0034138)|toll-like receptor 4 signaling pathway (GO:0034142)|toll-like receptor 5 signaling pathway (GO:0034146)|toll-like receptor 9 signaling pathway (GO:0034162)|toll-like receptor signaling pathway (GO:0002224)|toll-like receptor TLR1:TLR2 signaling pathway (GO:0038123)|toll-like receptor TLR6:TLR2 signaling pathway (GO:0038124)|TRIF-dependent toll-like receptor signaling pathway (GO:0035666)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|PML body (GO:0016605)	ATP binding (GO:0005524)|MAP kinase activity (GO:0004707)|mitogen-activated protein kinase binding (GO:0051019)	p.A501D(1)		autonomic_ganglia(1)|central_nervous_system(4)|endometrium(5)|kidney(2)|large_intestine(4)|lung(9)|skin(2)|stomach(1)|upper_aerodigestive_tract(2)	30	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					CCCCTGGAGGCTCCTGAGCCT	0.672																																																1	Substitution - Missense(1)	endometrium(1)											10	17	15					17																	19285118		2162	4232	6394	SO:0001583	missense	5598			U25278	CCDS11206.1, CCDS11207.1	17p11.2	2011-06-09			ENSG00000166484	ENSG00000166484	2.7.11.24	"Mitogen-activated protein kinase cascade / Kinases"	6880	protein-coding gene	gene with protein product	"BMK1 kinase", "extracellular-signal-regulated kinase 5"	602521		PRKM7		10072598, 7759517	Standard	NM_139032		Approved	BMK1, ERK5	uc002gvp.3	Q13164	OTTHUMG00000059587	ENST00000308406.5:c.1502C>A	17.37:g.19285118C>A	ENSP00000311005:p.Ala501Asp	Somatic		WXS	Illumina HiSeq	Phase_I	Q16634|Q59F50|Q6QLU7|Q7L4P4|Q969G1|Q96G51	Missense_Mutation	SNP	ENST00000308406.5	37	CCDS11206.1	.	.	.	.	.	.	.	.	.	.	C	16.89	3.248312	0.59103	.	.	ENSG00000166484	ENST00000308406;ENST00000299612;ENST00000395604;ENST00000395602	T;T;T;T	0.74209	-0.57;-0.82;-0.57;-0.57	4.36	3.39	0.38822	.	0.278335	0.34291	N	0.004097	T	0.62792	0.2457	N	0.22421	0.69	0.33339	D	0.569546	P	0.50943	0.94	P	0.47299	0.543	T	0.71846	-0.4469	10	0.87932	D	0	-7.5638	6.6062	0.22726	0.0:0.7883:0.0:0.2117	.	501	Q13164	MK07_HUMAN	D	501;362;501;501	ENSP00000311005:A501D;ENSP00000299612:A362D;ENSP00000378968:A501D;ENSP00000378966:A501D	ENSP00000299612:A362D	A	+	2	0	MAPK7	19225711	0.988000	0.35896	0.980000	0.43619	0.970000	0.65996	1.704000	0.37857	1.055000	0.40461	0.561000	0.74099	GCT		0.672	MAPK7-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000132506.1	NM_139033		A	19285118	C	A	19285118	3	1	702	1	0	0	0	0	1	0	0	0	9289	797	28	4	1516	4	MAPK7	17	19285118	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	11557588	19285118	61910092	70	46176										
SPAG5	10615	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	26912886	26912886	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	atgcctgtcaccttaccgcaTccttgcctctgagagccatt	7	15	2	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr17:26912886T>C	ENST00000321765.5	-	7	2068	c.1736A>G	c.(1735-1737)gAt>gGt	p.D579G		NM_006461.3	NP_006452.3	Q96R06	SPAG5_HUMAN	sperm associated antigen 5	579	Interaction with KNSTRN.				chromosome segregation (GO:0007059)|mitotic sister chromatid segregation (GO:0000070)|regulation of attachment of spindle microtubules to kinetochore (GO:0051988)|spindle organization (GO:0007051)	cytoplasm (GO:0005737)|kinetochore (GO:0000776)|microtubule plus-end (GO:0035371)|mitotic spindle (GO:0072686)				NS(1)|breast(3)|central_nervous_system(1)|endometrium(5)|kidney(4)|large_intestine(8)|lung(17)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	43	Lung NSC(42;0.00431)					CCTTACCGCATCCTTGCCTCT	0.498																																																0													225	197	206					17																	26912886		2203	4300	6503	SO:0001583	missense	10615			AF063308	CCDS32594.1	17q11.2	2008-07-18			ENSG00000076382	ENSG00000076382			13452	protein-coding gene	gene with protein product	"mitotic spindle coiled-coil related protein", "astrin", "mitotic spindle associated protein p126"	615562				11549262	Standard	NM_006461		Approved	DEEPEST, MAP126, hMAP126	uc002hbq.3	Q96R06	OTTHUMG00000166586	ENST00000321765.5:c.1736A>G	17.37:g.26912886T>C	ENSP00000323300:p.Asp579Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O95213|Q9BWE8|Q9NT17|Q9UFE6	Missense_Mutation	SNP	ENST00000321765.5	37	CCDS32594.1	.	.	.	.	.	.	.	.	.	.	T	15.69	2.907625	0.52333	.	.	ENSG00000076382	ENST00000321765;ENST00000536674	.	.	.	5.82	3.52	0.40303	.	0.549745	0.17799	N	0.161643	T	0.25827	0.0629	L	0.29908	0.895	0.22096	N	0.999364	P	0.48294	0.908	B	0.39660	0.306	T	0.05099	-1.0906	9	0.56958	D	0.05	-1.7343	10.252	0.43375	0.0:0.0:0.3183:0.6817	.	579	Q96R06	SPAG5_HUMAN	G	579;76	.	ENSP00000323300:D579G	D	-	2	0	SPAG5	23937013	0.989000	0.36119	0.994000	0.49952	0.917000	0.54804	1.208000	0.32345	0.414000	0.25790	0.533000	0.62120	GAT		0.498	SPAG5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390564.2	NM_006461		C	26912886	T	C	26912886	3	2	702	1	0	0	0	0	1	0	0	0	14994	1435	50	3	1917	3	SPAG5	17	26912886	Missense_Mutation	SNP	T	TCGA-PJ-A5Z9-01A-11D-A28G-10	7627768	26912886	54282324	71	46177										
KRT13	3860	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	39658844	39658844	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	accgtgttctccagccccgcTttctggtggagcgacagaca	11	14	2	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr17:39658844T>C	ENST00000246635.3	-	6	1072	c.1026A>G	c.(1024-1026)aaA>aaG	p.K342K	AC019349.5_ENST00000411759.1_RNA|KRT13_ENST00000587118.1_5'Flank|KRT13_ENST00000587544.1_Silent_p.K342K|KRT13_ENST00000336861.3_Silent_p.K342K	NM_153490.2	NP_705694	P13646	K1C13_HUMAN	keratin 13	342	Coil 2.|Rod.				cellular response to retinoic acid (GO:0071300)|cytoskeleton organization (GO:0007010)|response to radiation (GO:0009314)|tongue morphogenesis (GO:0043587)	extracellular vesicular exosome (GO:0070062)|intermediate filament cytoskeleton (GO:0045111)|keratin filament (GO:0045095)|nucleus (GO:0005634)	structural molecule activity (GO:0005198)			NS(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(6)|lung(10)|ovary(2)|pancreas(1)|prostate(2)|skin(4)|urinary_tract(1)	33		Breast(137;0.000286)				CCAGCCCCGCTTTCTGGTGGA	0.627																																																0													70	66	67					17																	39658844		2203	4300	6503	SO:0001819	synonymous_variant	3860				CCDS11396.1, CCDS11397.1	17q21.2	2013-06-20			ENSG00000171401	ENSG00000171401		"-", "Intermediate filaments type I, keratins (acidic)"	6415	protein-coding gene	gene with protein product	"keratin, type I cytoskeletal 13", "cytokeratin 13"	148065				16831889	Standard	NM_153490		Approved	K13, CK13, MGC3781, MGC161462	uc002hwu.1	P13646	OTTHUMG00000133434	ENST00000246635.3:c.1026A>G	17.37:g.39658844T>C		Somatic		WXS	Illumina HiSeq	Phase_I	Q53G54|Q6AZK5|Q8N240	Silent	SNP	ENST00000246635.3	37	CCDS11396.1																																																																																				0.627	KRT13-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000257297.1	NM_153490		C	39658844	T	C	39658844	2	2	702	1	0	0	0	0	0	0	0	1	8457	1606	56	3		3	KRT13	17	39658844	Silent	SNP	T	TCGA-PJ-A5Z9-01A-11D-A28G-10	12745958	39658844	41536366	72	46178										
SLC14A1	6563	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr18	43316457	43316458	+	Frame_Shift_Ins	INS	-	-	A													0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	cattgaattccatgctcagcINSaaatgggacctccccgtctt							TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr18:43316457_43316458insA	ENST00000321925.4	+	6	739_740	c.507_508insA	c.(508-510)aaafs	p.K170fs	SLC14A1_ENST00000402943.2_Frame_Shift_Ins_p.K65fs|RP11-116O18.3_ENST00000589510.1_RNA|RP11-116O18.3_ENST00000586213.1_RNA|SLC14A1_ENST00000589700.1_Frame_Shift_Ins_p.K170fs|SLC14A1_ENST00000415427.3_Frame_Shift_Ins_p.K226fs|SLC14A1_ENST00000436407.3_Frame_Shift_Ins_p.K226fs|SLC14A1_ENST00000502059.2_Frame_Shift_Ins_p.K62fs|SLC14A1_ENST00000586142.1_Frame_Shift_Ins_p.K170fs|SLC14A1_ENST00000535474.1_Frame_Shift_Ins_p.K38fs|SLC14A1_ENST00000591943.1_Intron	NM_001128588.3|NM_001146036.2|NM_015865.6	NP_001122060.3|NP_001139508.2|NP_056949.4	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter), member 1 (Kidd blood group)	170					transmembrane transport (GO:0055085)|urea transmembrane transport (GO:0071918)|urea transport (GO:0015840)	integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	urea channel activity (GO:0015265)|urea transmembrane transporter activity (GO:0015204)|water transmembrane transporter activity (GO:0005372)			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(11)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	21						CCATGCTCAGCAAATGGGACCT	0.455																																																0																																										SO:0001589	frameshift_variant	6563			BC040128	CCDS11925.1, CCDS45860.1	18q11-q12	2014-07-19	2014-01-02		ENSG00000141469	ENSG00000141469		"Blood group antigens", "Solute carriers"	10918	protein-coding gene	gene with protein product		613868	"Kidd blood group", "solute carrier family 14 (urea transporter), member 1"	JK		7797558	Standard	NM_001146037		Approved	HsT1341, RACH1, RACH2	uc010dnk.3	Q13336	OTTHUMG00000132617	ENST00000321925.4:c.510dupA	18.37:g.43316460_43316460dupA	ENSP00000318546:p.Lys170fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K0P3|B3KR62|B3KVX3|C9EHF2|Q86VM5	Frame_Shift_Ins	INS	ENST00000321925.4	37	CCDS11925.1																																																																																				0.455	SLC14A1-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000255860.2	NM_015865		A	43316458	-	A	43316457	7	5	702	1	0	1	1	0	0	0	0	0	14409	709	25	0	693	0	SLC14A1	18	43316457	Frame_Shift_Ins	INS	-	TCGA-PJ-A5Z9-01A-11D-A28G-10		43316457	34760791	73	46179										
ZNF516	9658	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr18	74091620	74091620	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	caccgagggcaggcggggggCccgtgcgtccgctccgggaa	19	14	0	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr18:74091620C>G	ENST00000443185.2	-	4	2767	c.2450G>C	c.(2449-2451)gGc>gCc	p.G817A	RP11-504I13.3_ENST00000583287.1_RNA|ZNF516_ENST00000524431.2_5'UTR	NM_014643.3	NP_055458.1	Q92618	ZN516_HUMAN	zinc finger protein 516	817					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(2)|endometrium(3)|kidney(2)|large_intestine(7)|lung(11)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	32		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		AGGCGGGGGGCCCGTGCGTCC	0.622																																																0													38	46	43					18																	74091620		1946	4125	6071	SO:0001583	missense	9658			D86975	CCDS74234.1	18q23	2013-01-08				ENSG00000101493		"Zinc fingers, C2H2-type"	28990	protein-coding gene	gene with protein product		615114				9039502	Standard	NM_014643		Approved	HsT287, KIAA0222	uc021ulp.1	Q92618		ENST00000443185.2:c.2450G>C	18.37:g.74091620C>G	ENSP00000394757:p.Gly817Ala	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000443185.2	37		.	.	.	.	.	.	.	.	.	.	C	17.81	3.481490	0.63849	.	.	ENSG00000101493	ENST00000443185	T	0.63580	-0.05	4.31	4.31	0.51392	.	0.000000	0.51477	D	0.000095	T	0.79015	0.4375	.	.	.	0.80722	D	1	D	0.89917	1.0	D	0.87578	0.998	T	0.82412	-0.0470	9	0.87932	D	0	-15.9958	15.5252	0.75898	0.0:1.0:0.0:0.0	.	817	Q92618	ZN516_HUMAN	A	817	ENSP00000394757:G817A	ENSP00000394757:G817A	G	-	2	0	ZNF516	72220608	1.000000	0.71417	0.844000	0.33320	0.431000	0.31685	6.499000	0.73683	2.387000	0.81309	0.561000	0.74099	GGC		0.622	ZNF516-201	KNOWN	basic|appris_principal|exp_conf	protein_coding	protein_coding		NM_014643		G	74091620	C	G	74091620	3	3	702	1	0	0	0	0	1	0	0	0	17972	739	26	4	1058	4	ZNF516	18	74091620	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	30775163	74091620	3985628	74	46180										
ELAVL1	1994	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	8038748	8038748	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ttgatcacctctgagctcggGcgagcatacgacaccttggg	12	12	2	2			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr19:8038748G>A	ENST00000407627.2	-	4	420	c.291C>T	c.(289-291)cgC>cgT	p.R97R	ELAVL1_ENST00000593807.1_Silent_p.R97R|ELAVL1_ENST00000351593.5_Silent_p.R124R|ELAVL1_ENST00000596459.1_Silent_p.R97R	NM_001419.2	NP_001410.2	Q15717	ELAV1_HUMAN	ELAV like RNA binding protein 1	97	RRM 1. {ECO:0000255|PROSITE- ProRule:PRU00176}.				3'-UTR-mediated mRNA stabilization (GO:0070935)|gene expression (GO:0010467)|mRNA metabolic process (GO:0016071)|mRNA stabilization (GO:0048255)|multicellular organismal development (GO:0007275)|positive regulation of translation (GO:0045727)|regulation of stem cell maintenance (GO:2000036)|RNA metabolic process (GO:0016070)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	AU-rich element binding (GO:0017091)|double-stranded RNA binding (GO:0003725)|mRNA 3'-UTR AU-rich region binding (GO:0035925)|mRNA 3'-UTR binding (GO:0003730)|mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)|protein kinase binding (GO:0019901)|RNA binding (GO:0003723)			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(5)|lung(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	20						CTGAGCTCGGGCGAGCATACG	0.542																																																0													138	105	116					19																	8038748		2203	4300	6503	SO:0001819	synonymous_variant	1994			U38175	CCDS12193.1	19p13.2	2013-10-03	2013-10-03			ENSG00000066044		"RNA binding motif (RRM) containing"	3312	protein-coding gene	gene with protein product	"embryonic lethal, abnormal vision, drosophila, homolog-like 1", "Hu antigen R"	603466	"ELAV (embryonic lethal, abnormal vision, Drosophila)-like 1 (Hu antigen R)"	HUR		8626503, 9003489	Standard	NM_001419		Approved	HuR, Hua, MelG	uc002mjb.3	Q15717		ENST00000407627.2:c.291C>T	19.37:g.8038748G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DVB8|Q53XN6|Q9BTT1	Silent	SNP	ENST00000407627.2	37	CCDS12193.1																																																																																				0.542	ELAVL1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000461494.3	NM_001419		A	8038748	G	A	8038748	2	1	702	1	0	0	0	0	0	0	0	1	5051	1190	42	2		2	ELAVL1	19	8038748	Silent	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10		8038748	51090235	75	46181										
MUC16	94025	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	9077779	9077779	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ccaaggagaatttctcacagTggacctgatctctgggctga	11	10	2	3			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr19:9077779T>G	ENST00000397910.4	-	3	9870	c.9667A>C	c.(9667-9669)Act>Cct	p.T3223P		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	3224	Thr-rich.				cell adhesion (GO:0007155)|cellular protein metabolic process (GO:0044267)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	extracellular vesicular exosome (GO:0070062)|extrinsic component of membrane (GO:0019898)|Golgi lumen (GO:0005796)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|vesicle (GO:0031982)				NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TTTCTCACAGTGGACCTGATC	0.512																																																0													144	141	142					19																	9077779		1972	4160	6132	SO:0001583	missense	94025			AF414442	CCDS54212.1	19p13.2	2008-02-05	2006-03-14			ENSG00000181143		"Mucins"	15582	protein-coding gene	gene with protein product		606154				11369781	Standard	XM_006722941		Approved	CA125, FLJ14303	uc002mkp.3	Q8WXI7		ENST00000397910.4:c.9667A>C	19.37:g.9077779T>G	ENSP00000381008:p.Thr3223Pro	Somatic		WXS	Illumina HiSeq	Phase_I	Q6ZQW5|Q96RK2	Missense_Mutation	SNP	ENST00000397910.4	37	CCDS54212.1	.	.	.	.	.	.	.	.	.	.	t	4.351	0.064560	0.08388	.	.	ENSG00000181143	ENST00000397910	T	0.02579	4.24	2.1	2.1	0.27182	.	.	.	.	.	T	0.04407	0.0121	N	0.08118	0	.	.	.	D	0.71674	0.998	D	0.80764	0.994	T	0.40646	-0.9552	8	0.87932	D	0	.	6.1843	0.20488	0.0:0.0:0.0:1.0	.	3223	B5ME49	.	P	3223	ENSP00000381008:T3223P	ENSP00000381008:T3223P	T	-	1	0	MUC16	8938779	0.000000	0.05858	0.003000	0.11579	0.005000	0.04900	-1.277000	0.02812	1.204000	0.43247	0.260000	0.18958	ACT		0.512	MUC16-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402806.1	NM_024690		G	9077779	T	G	9077779	3	3	702	1	0	0	0	0	1	0	0	0	9980	1696	59	5	34184	5	MUC16	19	9077779	Missense_Mutation	SNP	T	TCGA-PJ-A5Z9-01A-11D-A28G-10	1039031	9077779	50051204	76	46182										
ILVBL	10994	broad.mit.edu	37	chr19	15227275	15227275	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	agctcctccacccagtctggGgcccaggtctggccctgaag	12	16	2	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr19:15227275G>T	ENST00000263383.3	-	11	1384	c.1245C>A	c.(1243-1245)gcC>gcA	p.A415A	ILVBL_ENST00000531635.1_5'Flank|ILVBL_ENST00000534378.1_Silent_p.A308A	NM_006844.3	NP_006835.2	A1L0T0	ILVBL_HUMAN	ilvB (bacterial acetolactate synthase)-like	415						integral component of membrane (GO:0016021)|membrane (GO:0016020)	magnesium ion binding (GO:0000287)|thiamine pyrophosphate binding (GO:0030976)|transferase activity (GO:0016740)			NS(3)|breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(5)|ovary(2)|skin(1)	26						CCCAGTCTGGGGCCCAGGTCT	0.647																																																0													53	55	54					19																	15227275		2203	4300	6503	SO:0001819	synonymous_variant	10994			U61263	CCDS12325.1	19p13.1	2008-07-16			ENSG00000105135	ENSG00000105135			6041	protein-coding gene	gene with protein product	"acetolactate synthase homolog"	605770				8954801	Standard	NM_006844		Approved	209L8, AHAS, ILV2H, MGC1269, FLJ39061, MGC19535	uc002nam.3	A1L0T0	OTTHUMG00000165630	ENST00000263383.3:c.1245C>A	19.37:g.15227275G>T		Somatic		WXS	Illumina HiSeq	Phase_I	O43341|Q96F08|Q99651|Q9BWN5|Q9UEB2	Silent	SNP	ENST00000263383.3	37	CCDS12325.1																																																																																				0.647	ILVBL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000385439.1	NM_006844		T	15227275	G	T	15227275	2	4	702	1	0	0	0	0	0	0	0	1	7722	1219	43	4		4	ILVBL	19	15227275	Silent	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	6149496	15227275	43901708	77	46183										
TMEM149	79713	hgsc.bcm.edu	37	chr19	36230984	36230986	+	In_Frame_Del	DEL	CGG	CGG	-													0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	cagtgccccttggcagggacCggcctctggggataaggggt					rs200340760		TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	CGG	CGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr19:36230984_36230986delCGG	ENST00000592537.1	-	4	446_448	c.346_348delCCG	c.(346-348)ccgdel	p.P116del	IGFLR1_ENST00000588992.1_Intron|IGFLR1_ENST00000587101.1_5'UTR|IGFLR1_ENST00000344990.3_Intron|IGFLR1_ENST00000592889.1_Intron|IGFLR1_ENST00000246532.1_In_Frame_Del_p.P116del|AD000671.6_ENST00000589807.1_3'UTR|KMT2B_ENST00000607650.1_RNA			Q9H665	IGFR1_HUMAN	IGF-like family receptor 1	116						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				endometrium(2)|kidney(3)|large_intestine(1)|lung(8)|prostate(1)	15						TGGCAGGGACCGGCCTCTGGGGA	0.621																																																0																																										SO:0001651	inframe_deletion	79713			AK026226	CCDS12472.1	19q13.12	2012-10-02	2011-04-04	2011-04-04	ENSG00000126246	ENSG00000126246			23620	protein-coding gene	gene with protein product		614143	"U2(RNU2) small nuclear RNA auxiliary factor 1-like 4", "transmembrane protein 149"	U2AF1L4, TMEM149		21454693	Standard	NM_024660		Approved	FLJ22573	uc002obd.4	Q9H665		ENST00000592537.1:c.346_348delCCG	19.37:g.36230984_36230986delCGG	ENSP00000466181:p.Pro116del	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N5X0	In_Frame_Del	DEL	ENST00000592537.1	37	CCDS12472.1																																																																																				0.621	IGFLR1-002	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000459077.1	NM_024660		-	36230986	CGG	-	36230984	7	5	702	1	0	1	0	1	0	0	0	0	16074	639	23	0	727	0	TMEM149	19	36230984	In_Frame_Del	DEL	CGG	TCGA-PJ-A5Z9-01A-11D-A28G-10	21003709	36230984	22897999	78	46184										
TMC2	117532	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	2592879	2592879	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	agaacatcactcactggactCtgtttaactattacaactct	4	11	4	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr20:2592879C>G	ENST00000358864.1	+	13	1651	c.1636C>G	c.(1636-1638)Ctg>Gtg	p.L546V	TMC2_ENST00000496948.1_3'UTR	NM_080751.2	NP_542789.2	Q8TDI7	TMC2_HUMAN	transmembrane channel-like 2	546					detection of mechanical stimulus involved in sensory perception of sound (GO:0050910)|vestibular reflex (GO:0060005)	integral component of membrane (GO:0016021)|stereocilium bundle tip (GO:0032426)	voltage-gated calcium channel activity (GO:0005245)			NS(1)|breast(3)|cervix(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(14)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	35						TCACTGGACTCTGTTTAACTA	0.512																																																0													155	134	141					20																	2592879		2203	4300	6503	SO:0001583	missense	117532			AF417580	CCDS13029.2	20p13	2010-08-05	2003-02-23		ENSG00000149488	ENSG00000149488			16527	protein-coding gene	gene with protein product		606707	"transmembrane, cochlear expressed, 2"	C20orf145		11850618, 12906855	Standard	XM_005260660		Approved	dJ686C3.3	uc002wgf.1	Q8TDI7	OTTHUMG00000031698	ENST00000358864.1:c.1636C>G	20.37:g.2592879C>G	ENSP00000351732:p.Leu546Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JXT0|Q5JXT1|Q6UWW4|Q6ZS41|Q8N9F3|Q9BYN2|Q9BYN3|Q9BYN4|Q9BYN5	Missense_Mutation	SNP	ENST00000358864.1	37	CCDS13029.2	.	.	.	.	.	.	.	.	.	.	C	14.67	2.603805	0.46423	.	.	ENSG00000149488	ENST00000358864	T	0.66099	-0.19	5.85	5.85	0.93711	.	0.076272	0.53938	D	0.000052	T	0.69540	0.3122	M	0.73962	2.25	0.49051	D	0.999745	B;P;P;P	0.41524	0.382;0.563;0.753;0.638	B;B;P;B	0.46299	0.091;0.139;0.511;0.313	T	0.64609	-0.6367	10	0.22706	T	0.39	-10.7732	18.0364	0.89305	0.0:1.0:0.0:0.0	.	377;378;546;546	B4DFB3;B7ZAE6;Q8TDI7-3;Q8TDI7	.;.;.;TMC2_HUMAN	V	546	ENSP00000351732:L546V	ENSP00000351732:L546V	L	+	1	2	TMC2	2540879	0.933000	0.31639	1.000000	0.80357	0.997000	0.91878	1.970000	0.40520	2.941000	0.99782	0.655000	0.94253	CTG		0.512	TMC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077601.2			G	2592879	C	G	2592879	3	3	702	1	0	0	0	0	1	0	0	0	15997	912	32	4	1686	4	TMC2	20	2592879	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10		2592879	60432641	79	46185										
PANK2	80025	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	3869791	3869791	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	cccacgcgtccattgggcggCgccgccatcactctcttctg	10	18	3	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr20:3869791C>T	ENST00000316562.4	+	1	50	c.44C>T	c.(43-45)gCg>gTg	p.A15V	RP11-119B16.2_ENST00000451507.1_RNA|PANK2_ENST00000610179.1_5'Flank|PANK2_ENST00000497424.1_Intron	NM_153638.2	NP_705902.2	Q9BZ23	PANK2_HUMAN	pantothenate kinase 2	15					aerobic respiration (GO:0009060)|cell death (GO:0008219)|coenzyme A biosynthetic process (GO:0015937)|coenzyme biosynthetic process (GO:0009108)|mitochondrion morphogenesis (GO:0070584)|pantothenate metabolic process (GO:0015939)|regulation of mitochondrial membrane potential (GO:0051881)|small molecule metabolic process (GO:0044281)|spermatid development (GO:0007286)|vitamin metabolic process (GO:0006766)|water-soluble vitamin metabolic process (GO:0006767)	cytosol (GO:0005829)|mitochondrial intermembrane space (GO:0005758)	ATP binding (GO:0005524)|pantothenate kinase activity (GO:0004594)			breast(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(5)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	15						CATTGGGCGGCGCCGCCATCA	0.701																																																0													19	14	16					20																	3869791		2183	4282	6465	SO:0001583	missense	80025			AK021791	CCDS13071.2, CCDS13072.1	20p13	2008-07-31	2008-07-31	2002-09-06	ENSG00000125779	ENSG00000125779	2.7.1.33		15894	protein-coding gene	gene with protein product	"Hallervorden-Spatz syndrome"	606157	"neurodegeneration with brain iron accumulation 1 (Hallervorden-Spatz syndrome)"	C20orf48, NBIA1		8944032, 11479594	Standard	XM_005260835		Approved	HSS, FLJ11729, PKAN, HARP	uc002wkc.3	Q9BZ23	OTTHUMG00000031768	ENST00000316562.4:c.44C>T	20.37:g.3869791C>T	ENSP00000313377:p.Ala15Val	Somatic		WXS	Illumina HiSeq	Phase_I	B1AK33|B2Z3X0|D3DVZ0|Q5T7I2|Q5T7I4|Q7RTX5|Q8N7Q4|Q8TCR5|Q9BYW5|Q9HAF2	Missense_Mutation	SNP	ENST00000316562.4	37	CCDS13071.2	.	.	.	.	.	.	.	.	.	.	C	6.152	0.396211	0.11638	.	.	ENSG00000125779	ENST00000316562	D	0.97455	-4.39	4.57	-1.13	0.09775	.	0.546626	0.15407	N	0.263980	D	0.88691	0.6505	N	0.08118	0	0.21933	N	0.99946	B	0.06786	0.001	B	0.04013	0.001	T	0.80320	-0.1432	10	0.30854	T	0.27	-4.0E-4	4.3121	0.10976	0.0:0.4:0.1682:0.4318	.	15	Q9BZ23	PANK2_HUMAN	V	15	ENSP00000313377:A15V	ENSP00000313377:A15V	A	+	2	0	PANK2	3817791	0.959000	0.32827	0.677000	0.29947	0.004000	0.04260	-0.096000	0.11059	-0.135000	0.11495	-0.175000	0.13238	GCG		0.701	PANK2-007	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000077793.2	NM_024960		T	3869791	C	T	3869791	3	4	702	1	0	0	0	0	1	0	0	0	11424	768	27	1	46	1	PANK2	20	3869791	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	1276912	3869791	59155729	80	46186										
VAPB	9217	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr20	57009683	57009684	+	Frame_Shift_Ins	INS	-	-	C													0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tacagcctttcgattatgatINScccaatgagaaaagtaaaca							TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr20:57009683_57009684insC	ENST00000475243.1	+	3	575_576	c.237_238insC	c.(238-240)cccfs	p.P80fs	VAPB_ENST00000265619.2_Intron|VAPB_ENST00000395802.3_Intron	NM_004738.4	NP_004729.1	O95292	VAPB_HUMAN	VAMP (vesicle-associated membrane protein)-associated protein B and C	80	MSP. {ECO:0000255|PROSITE- ProRule:PRU00132}.				activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cell death (GO:0008219)|cellular calcium ion homeostasis (GO:0006874)|endoplasmic reticulum unfolded protein response (GO:0030968)|modulation by virus of host morphology or physiology (GO:0019048)|positive regulation of viral genome replication (GO:0045070)|small molecule metabolic process (GO:0044281)|sphingolipid biosynthetic process (GO:0030148)|sphingolipid metabolic process (GO:0006665)	endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|Golgi apparatus (GO:0005794)|integral component of membrane (GO:0016021)	beta-tubulin binding (GO:0048487)|enzyme binding (GO:0019899)|protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|structural molecule activity (GO:0005198)			kidney(2)|lung(3)|prostate(1)	6	Lung NSC(12;0.000615)|all_lung(29;0.00186)		BRCA - Breast invasive adenocarcinoma(13;6.2e-12)|Epithelial(14;3.7e-08)|all cancers(14;3.88e-07)			TCGATTATGATCCCAATGAGAA	0.361																																																0																																										SO:0001589	frameshift_variant	9217			AF086628	CCDS33498.1, CCDS56198.1	20q13	2014-09-17			ENSG00000124164	ENSG00000124164			12649	protein-coding gene	gene with protein product		605704				9920726	Standard	NM_004738		Approved	VAP-B, VAP-C, ALS8	uc002xza.3	O95292	OTTHUMG00000032840	ENST00000475243.1:c.240dupC	20.37:g.57009686_57009686dupC	ENSP00000417175:p.Pro80fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2F2|O95293|Q9P0H0	Frame_Shift_Ins	INS	ENST00000475243.1	37	CCDS33498.1																																																																																				0.361	VAPB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000079875.2			C	57009684	-	C	57009683	7	5	702	1	0	1	1	0	0	0	0	0	17134	1432	50	0	247	0	VAPB	20	57009683	Frame_Shift_Ins	INS	-	TCGA-PJ-A5Z9-01A-11D-A28G-10	53139892	57009683	6015837	81	46187										
KRTAP19-5	337972	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr21	31874285	31874285	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	agagccgtatccgtagcctcCgtagccaccgccatagccca	9	17	0	1	rs370535457		TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr21:31874285C>T	ENST00000334151.2	-	1	150	c.124G>A	c.(124-126)Gga>Aga	p.G42R		NM_181611.1	NP_853642.1	Q3LI72	KR195_HUMAN	keratin associated protein 19-5	42						intermediate filament (GO:0005882)				endometrium(1)|large_intestine(5)|lung(4)|pancreas(1)|prostate(1)	12						CCGTAGCCTCCGTAGCCACCG	0.572													C|||	1	0.000199681	0.0008	0.0	5008	,	,		17165	0.0		0.0	False		,,,				2504	0.0															0								C	ARG/GLY	1,4405	2.1+/-5.4	0,1,2202	128	122	124		124	-0.3	0	21		124	0,8600		0,0,4300	no	missense	KRTAP19-5	NM_181611.1	125	0,1,6502	TT,TC,CC		0.0,0.0227,0.0077	possibly-damaging	42/73	31874285	1,13005	2203	4300	6503	SO:0001583	missense	337972			AP001708	CCDS13597.1	21q22.1	2006-03-13			ENSG00000186977	ENSG00000186977		"Keratin associated proteins"	18940	protein-coding gene	gene with protein product						12359730	Standard	NM_181611		Approved	KAP19.5	uc011ada.2	Q3LI72	OTTHUMG00000057774	ENST00000334151.2:c.124G>A	21.37:g.31874285C>T	ENSP00000334985:p.Gly42Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A4IF22	Missense_Mutation	SNP	ENST00000334151.2	37	CCDS13597.1	.	.	.	.	.	.	.	.	.	.	C	12.38	1.920297	0.33908	2.27E-4	0.0	ENSG00000186977	ENST00000334151	T	0.11495	2.77	5.06	-0.26	0.12967	.	0.758211	0.10161	U	0.708309	T	0.07279	0.0184	.	.	.	0.09310	N	0.999999	P	0.48089	0.905	B	0.37480	0.251	T	0.30001	-0.9993	9	0.87932	D	0	-0.8878	4.9837	0.14180	0.0:0.5363:0.1489:0.3148	.	42	Q3LI72	KR195_HUMAN	R	42	ENSP00000334985:G42R	ENSP00000334985:G42R	G	-	1	0	KRTAP19-5	30796156	0.001000	0.12720	0.021000	0.16686	0.458000	0.32498	0.145000	0.16157	0.018000	0.15052	0.591000	0.81541	GGA		0.572	KRTAP19-5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000128226.2			T	31874285	C	T	31874285	3	4	702	1	0	0	0	0	1	0	0	0	8539	661	23	1	97	1	KRTAP19-5	21	31874285	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10		31874285	16255610	82	46188										
MYH9	4627	broad.mit.edu	37	chr22	36702092	36702092	+	Silent	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	acgagatgcgggtccagcttGccggcctggagaagaaaaca	14	10	0	3			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr22:36702092G>T	ENST00000216181.5	-	17	2273	c.2043C>A	c.(2041-2043)ggC>ggA	p.G681G		NM_002473.4	NP_002464.1	P35579	MYH9_HUMAN	myosin, heavy chain 9, non-muscle	681	Myosin motor.				actin cytoskeleton reorganization (GO:0031532)|actin filament-based movement (GO:0030048)|actomyosin structure organization (GO:0031032)|angiogenesis (GO:0001525)|ATP catabolic process (GO:0006200)|axon guidance (GO:0007411)|blood vessel endothelial cell migration (GO:0043534)|cytokinesis (GO:0000910)|establishment of meiotic spindle localization (GO:0051295)|establishment of T cell polarity (GO:0001768)|in utero embryonic development (GO:0001701)|integrin-mediated signaling pathway (GO:0007229)|leukocyte migration (GO:0050900)|meiotic spindle organization (GO:0000212)|membrane protein ectodomain proteolysis (GO:0006509)|monocyte differentiation (GO:0030224)|myoblast fusion (GO:0007520)|platelet aggregation (GO:0070527)|platelet formation (GO:0030220)|protein transport (GO:0015031)|regulation of cell shape (GO:0008360)|termination of G-protein coupled receptor signaling pathway (GO:0038032)|uropod organization (GO:0032796)	actin cytoskeleton (GO:0015629)|actomyosin (GO:0042641)|actomyosin contractile ring (GO:0005826)|cell leading edge (GO:0031252)|cell-cell adherens junction (GO:0005913)|cleavage furrow (GO:0032154)|cortical cytoskeleton (GO:0030863)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|immunological synapse (GO:0001772)|membrane (GO:0016020)|myosin II complex (GO:0016460)|myosin II filament (GO:0097513)|neuromuscular junction (GO:0031594)|nucleus (GO:0005634)|plasma membrane (GO:0005886)|protein complex (GO:0043234)|ruffle (GO:0001726)|spindle (GO:0005819)|stress fiber (GO:0001725)|uropod (GO:0001931)	actin binding (GO:0003779)|actin filament binding (GO:0051015)|actin-dependent ATPase activity (GO:0030898)|ADP binding (GO:0043531)|ATP binding (GO:0005524)|ATPase activity (GO:0016887)|microfilament motor activity (GO:0000146)|motor activity (GO:0003774)|poly(A) RNA binding (GO:0044822)|protein anchor (GO:0043495)|protein homodimerization activity (GO:0042803)	p.G681G(1)		NS(1)|breast(8)|central_nervous_system(3)|cervix(2)|endometrium(5)|kidney(4)|large_intestine(16)|lung(29)|ovary(4)|pancreas(1)|prostate(3)|skin(1)|upper_aerodigestive_tract(6)|urinary_tract(3)	86						GGTCCAGCTTGCCGGCCTGGA	0.597			T	ALK	ALCL		"Deafness, autosomal dominant 17, Epstein syndrome, Fechtner syndrome, May-Hegglin anomaly, Sebastian syndrome"		Hereditary Macrothrombocytopenia, MYH9-associated																														Dom	yes		22	22q13.1	4627	"myosin, heavy polypeptide 9, non-muscle"	yes	L	1	Substitution - coding silent(1)	kidney(1)											61	58	59					22																	36702092		2203	4300	6503	SO:0001819	synonymous_variant	4627	Familial Cancer Database	MYHIIA syndrome, incl. Fechtner Syndrome, FTNS, and May-Hegglin Anomaly, MHA		CCDS13927.1	22q13.1	2014-09-17	2006-09-29		ENSG00000100345	ENSG00000100345		"Myosins / Myosin superfamily : Class II"	7579	protein-coding gene	gene with protein product	"nonmuscle myosin heavy chain II-A"	160775	"myosin, heavy polypeptide 9, non-muscle"	DFNA17		1860190, 11023810	Standard	NM_002473		Approved	NMMHCA, NMHC-II-A, MHA, FTNS, EPSTS	uc003apg.3	P35579	OTTHUMG00000030429	ENST00000216181.5:c.2043C>A	22.37:g.36702092G>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8K6E4|O60805|Q60FE2|Q86T83	Silent	SNP	ENST00000216181.5	37	CCDS13927.1																																																																																				0.597	MYH9-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000259110.3	NM_002473		T	36702092	G	T	36702092	2	4	702	1	0	0	0	0	0	0	0	1	10049	1306	46	4		4	MYH9	22	36702092	Silent	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10		36702092	14602474	83	46189										
SREBF2	6721	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr22	42289217	42289217	+	Frame_Shift_Del	DEL	T	T	-													0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	gccaccccctgggccagaagTttttcatggagcggagctgg							TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chr22:42289217delT	ENST00000361204.4	+	12	2471	c.2305delT	c.(2305-2307)tttfs	p.F770fs	SREBF2_ENST00000491541.1_3'UTR	NM_004599.2	NP_004590.2	Q12772	SRBP2_HUMAN	sterol regulatory element binding transcription factor 2	770					cellular lipid metabolic process (GO:0044255)|cellular response to laminar fluid shear stress (GO:0071499)|cholesterol metabolic process (GO:0008203)|lipid metabolic process (GO:0006629)|negative regulation of cholesterol efflux (GO:0090370)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of cholesterol storage (GO:0010886)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of cholesterol homeostasis (GO:2000188)|regulation of lipid transport by negative regulation of transcription from RNA polymerase II promoter (GO:0072368)|response to low-density lipoprotein particle (GO:0055098)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytoplasmic vesicle (GO:0031410)|cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|endoplasmic reticulum membrane (GO:0005789)|Golgi membrane (GO:0000139)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|SREBP-SCAP-Insig complex (GO:0032937)	E-box binding (GO:0070888)|protein C-terminus binding (GO:0008022)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|sequence-specific DNA binding transcription factor activity (GO:0003700)			NS(2)|breast(6)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(9)|ovary(1)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	38						GGGCCAGAAGTTTTTCATGGA	0.582																																																0													55	58	57					22																	42289217		2203	4300	6503	SO:0001589	frameshift_variant	6721			U02031	CCDS14023.1	22q13.2	2013-05-21			ENSG00000198911	ENSG00000198911		"Basic helix-loop-helix proteins"	11290	protein-coding gene	gene with protein product		600481				7903453	Standard	NM_004599		Approved	SREBP2, bHLHd2	uc003bbi.3	Q12772	OTTHUMG00000151261	ENST00000361204.4:c.2305delT	22.37:g.42289217delT	ENSP00000354476:p.Phe770fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q05BD5|Q6GTH7|Q86V36|Q9UH04	Frame_Shift_Del	DEL	ENST00000361204.4	37	CCDS14023.1																																																																																				0.582	SREBF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000321956.1	NM_004599		-	42289217	T	-	42289217	7	5	702	1	0	1	0	1	0	0	0	0	15154	1725	60	0	2351	0	SREBF2	22	42289217	Frame_Shift_Del	DEL	T	TCGA-PJ-A5Z9-01A-11D-A28G-10	5587125	42289217	9015349	84	46190										
TBL1X	6907	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	9683003	9683003	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	cttcgaggtgtgctggaacgCccgaggagacaaagtgggtg	17	8	0	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chrX:9683003C>T	ENST00000217964.7	+	17	2307	c.1667C>T	c.(1666-1668)gCc>gTc	p.A556V	TBL1X_ENST00000536365.1_Missense_Mutation_p.A505V|TBL1X_ENST00000407597.2_Missense_Mutation_p.A556V|TBL1X_ENST00000424279.1_Missense_Mutation_p.A505V|TBL1X_ENST00000380961.1_Missense_Mutation_p.A505V	NM_005647.3	NP_005638.1	O60907	TBL1X_HUMAN	transducin (beta)-like 1X-linked	556					canonical Wnt signaling pathway (GO:0060070)|cellular lipid metabolic process (GO:0044255)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|Notch signaling pathway (GO:0007219)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|proteolysis (GO:0006508)|sensory perception of sound (GO:0007605)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	nucleoplasm (GO:0005654)|nucleus (GO:0005634)|spindle microtubule (GO:0005876)|transcriptional repressor complex (GO:0017053)	beta-catenin binding (GO:0008013)|histone binding (GO:0042393)|protein C-terminus binding (GO:0008022)|protein domain specific binding (GO:0019904)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)|transcription regulatory region DNA binding (GO:0044212)			breast(2)|cervix(1)|endometrium(5)|large_intestine(7)|lung(2)|ovary(1)|skin(2)	20		Hepatocellular(5;0.000888)				TGCTGGAACGCCCGAGGAGAC	0.592																																																0													86	62	70					X																	9683003		2203	4300	6503	SO:0001583	missense	6907			Y12781	CCDS14133.1, CCDS48078.1	Xp22.3	2013-01-10	2002-05-22	2002-05-24	ENSG00000101849	ENSG00000101849		"WD repeat domain containing"	11585	protein-coding gene	gene with protein product		300196	"transducin (beta)-like 1"	TBL1		10330347	Standard	NM_005647		Approved	EBI	uc004csr.3	O60907	OTTHUMG00000021117	ENST00000217964.7:c.1667C>T	X.37:g.9683003C>T	ENSP00000217964:p.Ala556Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K044|A8K4J7|Q86UY2	Missense_Mutation	SNP	ENST00000217964.7	37	CCDS14133.1	.	.	.	.	.	.	.	.	.	.	C	17.08	3.297142	0.60086	.	.	ENSG00000101849	ENST00000407597;ENST00000424279;ENST00000536365;ENST00000380961;ENST00000217964	T;T;T;T;T	0.81247	-1.47;-1.47;-1.47;-1.47;-1.47	3.8	3.8	0.43715	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);	0.116908	0.56097	D	0.000024	T	0.77994	0.4214	L	0.58101	1.795	0.44852	D	0.997864	B;B	0.29955	0.263;0.263	B;B	0.29598	0.104;0.104	T	0.80054	-0.1543	10	0.72032	D	0.01	.	15.6252	0.76851	0.0:1.0:0.0:0.0	.	519;556	Q59F53;O60907	.;TBL1X_HUMAN	V	556;505;505;505;556	ENSP00000385988:A556V;ENSP00000394097:A505V;ENSP00000445317:A505V;ENSP00000370348:A505V;ENSP00000217964:A556V	ENSP00000217964:A556V	A	+	2	0	TBL1X	9643003	1.000000	0.71417	0.958000	0.39756	0.937000	0.57800	4.399000	0.59703	1.667000	0.50832	0.429000	0.28392	GCC		0.592	TBL1X-003	KNOWN	alternative_5_UTR|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000055709.1	NM_005647		T	9683003	C	T	9683003	3	4	702	1	0	0	0	0	1	0	0	0	15651	739	26	2	1721	2	TBL1X	23	9683003	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10		9683003	145587557	85	46191										
SSX5	6758	broad.mit.edu;bcgsc.ca	37	chrX	48053577	48053578	+	Missense_Mutation	DNP	GG	GG	TT													0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	ctactcaccctgattcccacGgttagggtcattatcaaaat					rs146748651	byFrequency	TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chrX:48053577_48053578GG>TT	ENST00000376923.1	-	3	266_267	c.267_268CC>AA	c.(265-270)aaCCgt>aaAAgt	p.89_90NR>KS	SSX5_ENST00000347757.1_Missense_Mutation_p.89_90NR>KS|SSX5_ENST00000311798.1_Missense_Mutation_p.130_131NR>KS			O60225	SSX5_HUMAN	synovial sarcoma, X breakpoint 5	89					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	nucleic acid binding (GO:0003676)			endometrium(3)|kidney(1)|large_intestine(6)|lung(7)|skin(1)	18						TGATTCCCACGGTTAGGGTCAT	0.5																																																0																																										SO:0001583	missense	6758			BC016640	CCDS14288.1, CCDS14289.1	Xp11.23	2008-02-05			ENSG00000165583	ENSG00000165583			11339	protein-coding gene	gene with protein product		300327					Standard	NM_021015		Approved		uc004diz.1	O60225	OTTHUMG00000021471	ENST00000376923.1:c.267_268delinsTT	X.37:g.48053577_48053578delinsTT	ENSP00000366122:p.N89_R90delinsKS	Somatic		WXS	Illumina HiSeq	Phase_I	Q5JQ59|Q5JQ60|Q96AW3	Missense_Mutation	DNP	ENST00000376923.1	37	CCDS14289.1																																																																																				0.5	SSX5-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000056466.1	NM_021015		TT	48053578	GG	TT	48053577	3	4	702	1	0	0	0	0	1	0	0	0	15220	1116	39	4	314	4	SSX5	23	48053577	Missense_Mutation	DNP	GG	TCGA-PJ-A5Z9-01A-11D-A28G-10	38370574	48053577	107216983	86	46192										
PHKA1	5255	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	71802352	71802352	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tgccagcatggtgaggacaaGgatggcttcaaccagcagct	13	10	1	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chrX:71802352G>A	ENST00000373542.4	-	31	3553	c.3394C>T	c.(3394-3396)Ctt>Ttt	p.L1132F	PHKA1_ENST00000373545.3_Missense_Mutation_p.L1090F|PHKA1_ENST00000339490.3_Missense_Mutation_p.L1119F|PHKA1_ENST00000373539.3_Missense_Mutation_p.L1149F|PHKA1_ENST00000541944.1_Missense_Mutation_p.L1060F	NM_002637.3	NP_002628.2	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle)	1132					carbohydrate metabolic process (GO:0005975)|generation of precursor metabolites and energy (GO:0006091)|glucose metabolic process (GO:0006006)|glycogen catabolic process (GO:0005980)|glycogen metabolic process (GO:0005977)|protein phosphorylation (GO:0006468)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|plasma membrane (GO:0005886)	hydrolase activity, hydrolyzing O-glycosyl compounds (GO:0004553)|phosphorylase kinase activity (GO:0004689)			NS(1)|breast(1)|central_nervous_system(2)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(9)|liver(2)|lung(18)|ovary(3)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	52	Renal(35;0.156)					GTGAGGACAAGGATGGCTTCA	0.448																																																0													114	86	96					X																	71802352		2203	4300	6503	SO:0001583	missense	5255				CCDS14421.1, CCDS48137.1, CCDS55453.1	Xq12-q13	2009-07-10			ENSG00000067177	ENSG00000067177	2.7.11.19		8925	protein-coding gene	gene with protein product		311870		PHKA			Standard	NM_002637		Approved		uc004eax.4	P46020	OTTHUMG00000022696	ENST00000373542.4:c.3394C>T	X.37:g.71802352G>A	ENSP00000362643:p.Leu1132Phe	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZL05|B7ZL07|Q2M3D7	Missense_Mutation	SNP	ENST00000373542.4	37	CCDS14421.1	.	.	.	.	.	.	.	.	.	.	G	15.39	2.819920	0.50633	.	.	ENSG00000067177	ENST00000373545;ENST00000373542;ENST00000541944;ENST00000339490;ENST00000373539	D;D;D;D;D	0.91464	-2.84;-2.85;-2.83;-2.82;-2.83	5.12	5.12	0.69794	.	0.000000	0.64402	D	0.000001	D	0.93216	0.7839	M	0.63428	1.95	0.48901	D	0.999723	D;P;P;D	0.76494	0.999;0.913;0.794;0.975	D;P;P;P	0.87578	0.998;0.459;0.66;0.835	D	0.92493	0.6002	10	0.46703	T	0.11	-11.3305	8.8082	0.34952	0.1046:0.0:0.8954:0.0	.	1060;1090;1119;1132	B7ZL07;A6NIT2;P46020-2;P46020	.;.;.;KPB1_HUMAN	F	1090;1132;1060;1119;1149	ENSP00000362646:L1090F;ENSP00000362643:L1132F;ENSP00000441251:L1060F;ENSP00000342469:L1119F;ENSP00000362640:L1149F	ENSP00000342469:L1119F	L	-	1	0	PHKA1	71719077	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	1.085000	0.30840	2.132000	0.65825	0.594000	0.82650	CTT		0.448	PHKA1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000058896.1			A	71802352	G	A	71802352	3	1	702	1	0	0	0	0	1	0	0	0	11850	1000	35	2	285	2	PHKA1	23	71802352	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	23748775	71802352	83468208	87	46193										
PCDH11X	27328	broad.mit.edu;bcgsc.ca	37	chrX	91873700	91873700	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	cacaggttattgccctccatCgtagtcaggcccaatcatca	7	14	3	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chrX:91873700C>T	ENST00000373094.1	+	7	4650	c.3805C>T	c.(3805-3807)Cgt>Tgt	p.R1269C	PCDH11X_ENST00000373088.1_Missense_Mutation_p.R1232C|PCDH11X_ENST00000504220.2_3'UTR|PCDH11X_ENST00000406881.1_Missense_Mutation_p.R1261C|PCDH11X_ENST00000373097.1_Missense_Mutation_p.R1259C|PCDH11X_ENST00000361655.2_Missense_Mutation_p.R1251C|PCDH11X_ENST00000298274.8_Missense_Mutation_p.R1232C	NM_032968.3	NP_116750.1	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked	1269					homophilic cell adhesion (GO:0007156)|negative regulation of phosphatase activity (GO:0010923)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	calcium ion binding (GO:0005509)			NS(1)|autonomic_ganglia(1)|biliary_tract(1)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(30)|liver(4)|lung(92)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(5)|urinary_tract(1)	159						TGCCCTCCATCGTAGTCAGGC	0.552																																					NSCLC(38;925 1092 2571 38200 45895)											0													227	202	211					X																	91873700		2203	4300	6503	SO:0001583	missense	27328			AB026187	CCDS14461.1, CCDS14462.1, CCDS55458.1, CCDS55459.1, CCDS55460.1, CCDS55461.1	Xq21.3	2014-06-13	2002-05-22	2002-05-24	ENSG00000102290	ENSG00000102290		"Cadherins / Protocadherins : Non-clustered"	8656	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 119"	300246	"protocadherin 11"	PCDH11		10644456	Standard	NM_001168360		Approved	PCDH-X, PCDHX, PPP1R119	uc004efm.2	Q9BZA7	OTTHUMG00000021965	ENST00000373094.1:c.3805C>T	X.37:g.91873700C>T	ENSP00000362186:p.Arg1269Cys	Somatic		WXS	Illumina HiSeq	Phase_I	A6NIQ4|Q2TJH0|Q2TJH1|Q2TJH3|Q5JVZ0|Q70LR8|Q70LS7|Q70LS8|Q70LS9|Q70LT7|Q70LT8|Q70LT9|Q70LU0|Q70LU1|Q96RV4|Q96RW0|Q9BZA6|Q9H4E0|Q9P2M0|Q9P2X5	Missense_Mutation	SNP	ENST00000373094.1	37	CCDS14461.1	.	.	.	.	.	.	.	.	.	.	C	4.743	0.138075	0.09083	.	.	ENSG00000102290	ENST00000373094;ENST00000373097;ENST00000373088;ENST00000361655;ENST00000406881;ENST00000356934;ENST00000298274	T;T;T;T;T;T	0.56444	0.49;0.5;0.47;0.48;0.5;0.46	3.85	1.88	0.25563	.	.	.	.	.	T	0.34716	0.0907	N	0.19112	0.55	0.09310	N	1	B;B;B;B;B	0.10296	0.003;0.003;0.003;0.003;0.002	B;B;B;B;B	0.04013	0.001;0.001;0.001;0.001;0.001	T	0.21895	-1.0232	9	0.46703	T	0.11	.	7.3756	0.26827	0.0:0.7432:0.0:0.2568	.	1232;1251;1261;1259;1269	Q9BZA7-5;Q9BZA7-4;Q9BZA7-8;Q9BZA7-3;Q9BZA7	.;.;.;.;PC11X_HUMAN	C	1269;1259;1232;1251;1261;1269;1232	ENSP00000362186:R1269C;ENSP00000362189:R1259C;ENSP00000362180:R1232C;ENSP00000355105:R1251C;ENSP00000384758:R1261C;ENSP00000298274:R1232C	ENSP00000298274:R1232C	R	+	1	0	PCDH11X	91760356	0.000000	0.05858	0.019000	0.16419	0.198000	0.23893	0.113000	0.15499	0.171000	0.19730	0.466000	0.42574	CGT		0.552	PCDH11X-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000057436.1	NM_032969		T	91873700	C	T	91873700	3	4	702	1	0	0	0	0	1	0	0	0	11515	884	31	1	3953	1	PCDH11X	23	91873700	Missense_Mutation	SNP	C	TCGA-PJ-A5Z9-01A-11D-A28G-10	20071348	91873700	63396860	88	46194										
GPR50	9248	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	150348665	150348665	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	tcgtcctccctctcctcatcGtgggtttctgctacgtgagg	10	14	3	1			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chrX:150348665G>A	ENST00000218316.3	+	2	679	c.610G>A	c.(610-612)Gtg>Atg	p.V204M	GPR50-AS1_ENST00000454196.1_RNA|AF003625.3_ENST00000602313.1_lincRNA	NM_004224.3	NP_004215.2	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	204					cell-cell signaling (GO:0007267)|G-protein coupled receptor signaling pathway (GO:0007186)	integral component of plasma membrane (GO:0005887)	G-protein coupled receptor activity (GO:0004930)|identical protein binding (GO:0042802)|melatonin receptor activity (GO:0008502)			breast(4)|central_nervous_system(1)|endometrium(8)|kidney(1)|large_intestine(6)|lung(14)|ovary(1)|pancreas(1)|prostate(1)|stomach(1)	38	Acute lymphoblastic leukemia(192;6.56e-05)					TCTCCTCATCGTGGGTTTCTG	0.532																																																0													230	203	212					X																	150348665		2123	4223	6346	SO:0001583	missense	9248			U52219	CCDS44012.1	Xq28	2012-08-21			ENSG00000102195	ENSG00000102195		"GPCR / Class A : Orphans"	4506	protein-coding gene	gene with protein product		300207				9933574, 18400093	Standard	NM_004224		Approved	H9, Mel1c	uc010ntg.2	Q13585	OTTHUMG00000024166	ENST00000218316.3:c.610G>A	X.37:g.150348665G>A	ENSP00000218316:p.Val204Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VGG3|Q3ZAR0	Missense_Mutation	SNP	ENST00000218316.3	37	CCDS44012.1	.	.	.	.	.	.	.	.	.	.	G	17.71	3.456799	0.63401	.	.	ENSG00000102195	ENST00000535473;ENST00000218316	T	0.35048	1.33	4.33	4.33	0.51752	GPCR, rhodopsin-like superfamily (1);	0.000000	0.85682	D	0.000000	T	0.50684	0.1630	L	0.53729	1.69	0.47547	D	0.999454	D;P	0.69078	0.997;0.819	D;P	0.64321	0.924;0.668	T	0.47018	-0.9149	10	0.36615	T	0.2	-12.9108	13.7644	0.62986	0.0:0.0:1.0:0.0	.	157;204	F5H1S3;Q13585	.;MTR1L_HUMAN	M	157;204	ENSP00000218316:V204M	ENSP00000218316:V204M	V	+	1	0	GPR50	150099323	1.000000	0.71417	0.981000	0.43875	0.745000	0.42441	9.754000	0.98908	1.903000	0.55091	0.529000	0.55759	GTG		0.532	GPR50-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000060874.1	NM_004224		A	150348665	G	A	150348665	3	1	702	1	0	0	0	0	1	0	0	0	6704	1145	40	1	616	1	GPR50	23	150348665	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	58474965	150348665	4921895	89	46195										
RENBP	5973	hgsc.bcm.edu	37	chrX	153200791	153200791	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0555555555555556	5	1	1.05788761002031	2.42352434295562	0.573306833817459	1	1	0	cgggggagggggcgggggcgGggcggctcagcagggcgccc	26	11	1	0			TCGA-PJ-A5Z9-01A-11D-A28G-10	TCGA-PJ-A5Z9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	0040144d-5bfe-4476-b511-2fa1fed81583	32635493-96c3-4fed-a9f7-85537363c7f0	g.chrX:153200791G>T	ENST00000393700.3	-	11	1312	c.1232C>A	c.(1231-1233)cCc>cAc	p.P411H	NAA10_ENST00000370009.1_5'Flank|NAA10_ENST00000464845.1_5'Flank|NAA10_ENST00000370015.4_5'Flank|RENBP_ENST00000369997.3_Missense_Mutation_p.P397H|NAA10_ENST00000393712.3_5'Flank|RENBP_ENST00000412763.1_3'UTR|NAA10_ENST00000393710.3_5'Flank	NM_002910.5	NP_002901.2	P51606	RENBP_HUMAN	renin binding protein	411					N-acetylglucosamine metabolic process (GO:0006044)|N-acetylmannosamine metabolic process (GO:0006051)|N-acetylneuraminate catabolic process (GO:0019262)|regulation of blood pressure (GO:0008217)	extracellular vesicular exosome (GO:0070062)	ATP binding (GO:0005524)|endopeptidase inhibitor activity (GO:0004866)|N-acylglucosamine 2-epimerase activity (GO:0050121)			breast(1)|endometrium(3)|kidney(2)|large_intestine(1)|lung(7)|ovary(2)|pancreas(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	20	all_cancers(53;6.72e-15)|all_epithelial(53;3.19e-09)|all_lung(58;3.39e-06)|all_hematologic(71;4.25e-06)|Lung NSC(58;4.7e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				N-Acetyl-D-glucosamine(DB00141)	ggcgggggcggggCGGCTCAG	0.751																																																0													2	3	2					X																	153200791		1563	2987	4550	SO:0001583	missense	5973				CCDS14738.2	Xq28	2013-09-23	2001-11-28		ENSG00000102032	ENSG00000102032			9959	protein-coding gene	gene with protein product	"N-acylglucosamine 2-epimerase", "GlcNAc 2-epimerase", "N-acetyl-D-glucosamine 2-epimerase"	312420	"renin-binding protein"			1618798	Standard	NM_002910		Approved	RNBP, RBP	uc004fjo.2	P51606	OTTHUMG00000024224	ENST00000393700.3:c.1232C>A	X.37:g.153200791G>T	ENSP00000377303:p.Pro411His	Somatic		WXS	Illumina HiSeq	Phase_I	B4DNZ3|Q96BI6	Missense_Mutation	SNP	ENST00000393700.3	37	CCDS14738.2	.	.	.	.	.	.	.	.	.	.	g	13.98	2.398865	0.42512	.	.	ENSG00000102032	ENST00000393700;ENST00000369997;ENST00000451114	T;T	0.32988	1.43;1.43	3.76	-6.35	0.01975	Six-hairpin glycosidase-like (1);	2.963070	0.01364	U	0.012354	T	0.24890	0.0604	L	0.44542	1.39	0.09310	N	0.99999	B	0.02656	0.0	B	0.01281	0.0	T	0.19353	-1.0308	10	0.45353	T	0.12	1.1156	7.9104	0.29787	0.1647:0.1371:0.6982:0.0	.	411	P51606	RENBP_HUMAN	H	411;397;124	ENSP00000377303:P411H;ENSP00000359014:P397H	ENSP00000359014:P397H	P	-	2	0	RENBP	152853985	0.000000	0.05858	0.000000	0.03702	0.698000	0.40448	-1.269000	0.02834	-1.762000	0.01308	0.445000	0.29226	CCC		0.751	RENBP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000061103.3	NM_002910		T	153200791	G	T	153200791	3	4	702	1	0	0	0	0	1	0	0	0	13238	1232	43	4	55	4	RENBP	23	153200791	Missense_Mutation	SNP	G	TCGA-PJ-A5Z9-01A-11D-A28G-10	2852126	153200791	2069769	90	46196										
RERE	473	hgsc.bcm.edu	37	chr1	8419867	8419868	+	Missense_Mutation	DNP	CG	CG	TT													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	cccgctctcgctcccgctccCgctccttctccttctccttc					rs538667090|rs147985313|rs557606465	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	CG	CG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr1:8419867_8419868CG>TT	ENST00000337907.3	-	20	4208_4209	c.3574_3575CG>AA	c.(3574-3576)CGg>AAg	p.R1192K	RERE_ENST00000377464.1_Missense_Mutation_p.R924K|RERE_ENST00000476556.1_Missense_Mutation_p.R638K|RERE_ENST00000400907.2_Intron|RERE_ENST00000400908.2_Missense_Mutation_p.R1192K	NM_012102.3	NP_036234.3	Q9P2R6	RERE_HUMAN	arginine-glutamic acid dipeptide (RE) repeats	1192	Arg/Glu-rich (mixed charge).				chromatin remodeling (GO:0006338)|multicellular organismal development (GO:0007275)|NLS-bearing protein import into nucleus (GO:0006607)|transcription, DNA-templated (GO:0006351)	histone deacetylase complex (GO:0000118)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|poly-glutamine tract binding (GO:0008267)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|zinc ion binding (GO:0008270)	p.E1191_R1192insKE(1)		central_nervous_system(1)|cervix(2)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(5)|liver(1)|lung(16)|ovary(3)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	49	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)		ctcccgctcccgctccttctcc	0.683																																																1	Insertion - In frame(1)	ovary(1)																																								SO:0001583	missense	473			AF016005	CCDS95.1, CCDS41243.1	1p36.23	2013-01-25			ENSG00000142599	ENSG00000142599		"GATA zinc finger domain containing"	9965	protein-coding gene	gene with protein product		605226		ATN1L		10814707, 10729226	Standard	NM_012102		Approved	KIAA0458, ARP, ARG, DNB1	uc001apf.3	Q9P2R6	OTTHUMG00000001765	ENST00000337907.3:c.3574_3575delinsTT	1.37:g.8419867_8419868delinsTT	ENSP00000338629:p.Arg1192Lys	Somatic		WXS	Illumina HiSeq	Phase_I	O43393|O75046|O75359|Q5VXL9|Q6P6B9|Q9Y2W4	Missense_Mutation	DNP	ENST00000337907.3	37	CCDS95.1																																																																																				0.683	RERE-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000004916.1			TT	8419868	CG	TT	8419867	3	4	703	1	0	0	0	0	1	0	0	0	13244	652	23	1	1145	1	RERE	1	8419867	Missense_Mutation	DNP	CG	TCGA-Q2-A5QZ-01A-11D-A28G-10		8419867	240830754	1	46197										
NBPF1	55672	broad.mit.edu	37	chr1	16891326	16891326	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ggcatggtgggttttgatctTcttccccttcttttcttccc	8	12	4	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr1:16891326T>C	ENST00000430580.2	-	28	4039	c.3152A>G	c.(3151-3153)gAa>gGa	p.E1051G		NM_017940.3	NP_060410.2	Q3BBV0	NBPF1_HUMAN	neuroblastoma breakpoint family, member 1	1031	NBPF 7. {ECO:0000255|PROSITE- ProRule:PRU00647}.					cytoplasm (GO:0005737)									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)		GTTTTGAtcttcttccccttc	0.433																																																0													56	26	40					1																	16891326		617	655	1272	SO:0001583	missense	55672			AB051480		1p36.13	2013-01-30			ENSG00000219481	ENSG00000219481		"neuroblastoma breakpoint family"	26088	protein-coding gene	gene with protein product		610501				11214970, 16079250	Standard	NM_017940		Approved	FLJ20719, KIAA1693	uc001ayw.4	Q3BBV0	OTTHUMG00000002487	ENST00000430580.2:c.3152A>G	1.37:g.16891326T>C	ENSP00000474456:p.Glu1051Gly	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N4E8|Q9C0H0	Missense_Mutation	SNP	ENST00000430580.2	37																																																																																					0.433	NBPF1-005	NOVEL	upstream_uORF|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000106436.3	NM_017940		C	16891326	T	C	16891326	3	2	703	1	0	0	0	0	1	0	0	0	10199	1783	62	3	275	3	NBPF1	1	16891326	Missense_Mutation	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	8471459	16891326	232359295	2	46198										
CLCA1	1179	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	86934706	86934706	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tgattcttcaccttctagaaGgggccctgagtaattcactc	8	11	4	3	rs377703691		TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr1:86934706G>A	ENST00000234701.3	+	2	403	c.52G>A	c.(52-54)Ggg>Agg	p.G18R	CLCA1_ENST00000394711.1_Missense_Mutation_p.G18R			A8K7I4	CLCA1_HUMAN	chloride channel accessory 1	18					calcium ion transport (GO:0006816)|cellular response to hypoxia (GO:0071456)|chloride transmembrane transport (GO:1902476)|chloride transport (GO:0006821)|transport (GO:0006810)	extracellular region (GO:0005576)|integral component of plasma membrane (GO:0005887)|microvillus (GO:0005902)|zymogen granule membrane (GO:0042589)	chloride channel activity (GO:0005254)			NS(1)|breast(3)|endometrium(1)|kidney(3)|large_intestine(9)|lung(14)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	38		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		CCTTCTAGAAGGGGCCCTGAG	0.443																																																0								G	ARG/GLY	0,4406		0,0,2203	139	134	136		52	6	0.8	1		136	1,8599	1.2+/-3.3	0,1,4299	no	missense	CLCA1	NM_001285.3	125	0,1,6502	AA,AG,GG		0.0116,0.0,0.0077	probably-damaging	18/915	86934706	1,13005	2203	4300	6503	SO:0001583	missense	1179				CCDS709.1	1p22.3	2012-02-26	2009-01-29		ENSG00000016490	ENSG00000016490			2015	protein-coding gene	gene with protein product		603906	"chloride channel, calcium activated, family member 1", "chloride channel regulator 1"			9828122	Standard	NM_001285		Approved	CaCC, CLCRG1	uc001dlt.3	A8K7I4	OTTHUMG00000010254	ENST00000234701.3:c.52G>A	1.37:g.86934706G>A	ENSP00000234701:p.Gly18Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B2RAV5|O95151|Q5TDF4|Q9UNF6|Q9UPC6	Missense_Mutation	SNP	ENST00000234701.3	37	CCDS709.1	.	.	.	.	.	.	.	.	.	.	G	18.23	3.577478	0.65878	0.0	1.16E-4	ENSG00000016490	ENST00000234701;ENST00000394711	T;T	0.11821	2.74;2.74	5.96	5.96	0.96718	Chloride channel calcium-activated (1);	0.298342	0.31415	N	0.007685	T	0.28995	0.0720	M	0.77486	2.375	0.36444	D	0.865661	D	0.89917	1.0	D	0.81914	0.995	T	0.02307	-1.1179	10	0.25106	T	0.35	-15.6633	17.336	0.87281	0.0:0.0:1.0:0.0	.	18	A8K7I4	CLCA1_HUMAN	R	18	ENSP00000234701:G18R;ENSP00000378200:G18R	ENSP00000234701:G18R	G	+	1	0	CLCA1	86707294	0.978000	0.34361	0.836000	0.33094	0.545000	0.35147	2.435000	0.44811	2.831000	0.97527	0.650000	0.86243	GGG		0.443	CLCA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000028277.1	NM_001285		A	86934706	G	A	86934706	3	1	703	1	0	0	0	0	1	0	0	0	3459	1000	35	2	54	2	CLCA1	1	86934706	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	70043380	86934706	162315915	3	46199										
LCE1C	353133	hgsc.bcm.edu	37	chr1	152777877	152777877	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	cactttgggggacactttggGgtggggcacttgggagggca	19	7	0	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr1:152777877G>A	ENST00000607093.1	-	1	77	c.78C>T	c.(76-78)acC>acT	p.T26T	LCE1C_ENST00000368768.1_Silent_p.T26T			Q5T751	LCE1C_HUMAN	late cornified envelope 1C	26	Pro-rich.				keratinization (GO:0031424)					NS(1)|lung(4)|prostate(1)|skin(2)|urinary_tract(1)	9	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			gacactttggggTGgggcact	0.647																																																0													45	46	46					1																	152777877		2203	4300	6503	SO:0001819	synonymous_variant	353133				CCDS1026.1	1q21.3	2008-02-05			ENSG00000197084	ENSG00000197084		"Late cornified envelopes"	29464	protein-coding gene	gene with protein product		612605				11698679	Standard	NM_001276331		Approved	LEP3	uc001fap.1	Q5T751	OTTHUMG00000012445	ENST00000607093.1:c.78C>T	1.37:g.152777877G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000607093.1	37	CCDS1026.1																																																																																				0.647	LCE1C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034658.2	NM_178351		A	152777877	G	A	152777877	2	1	703	1	0	0	0	0	0	0	0	1	8668	1219	43	2		2	LCE1C	1	152777877	Silent	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	65843171	152777877	96472744	4	46200										
IVL	3713	broad.mit.edu	37	chr1	152883269	152883269	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ctggagcagcaggaggggcaActggagcagctggaggagca	19	8	0	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr1:152883269A>G	ENST00000368764.3	+	2	1060	c.996A>G	c.(994-996)caA>caG	p.Q332Q	IVL_ENST00000392667.2_Silent_p.Q186Q			P07476	INVO_HUMAN	involucrin	332	39 X 10 AA approximate tandem repeats of [LP]-[EKG]-[LHVYQEK]-[PLSQE]-[EQDV]- [QHEKRGA]-Q-[EMVQLP]-[GKLE]-[QHVNLD].				isopeptide cross-linking via N6-(L-isoglutamyl)-L-lysine (GO:0018153)|keratinization (GO:0031424)|keratinocyte differentiation (GO:0030216)|peptide cross-linking (GO:0018149)|response to UV-B (GO:0010224)	cornified envelope (GO:0001533)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)	protein binding, bridging (GO:0030674)|structural molecule activity (GO:0005198)	p.Q332Q(3)		breast(1)|endometrium(6)|kidney(1)|large_intestine(5)|lung(11)|ovary(3)|skin(1)|upper_aerodigestive_tract(1)	29	Lung NSC(65;3.97e-29)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			aggaggggcaactggagcagc	0.662																																																3	Substitution - coding silent(3)	endometrium(3)											17	17	17					1																	152883269		2117	4166	6283	SO:0001819	synonymous_variant	3713			BC046391	CCDS1030.1	1q21	2008-02-05			ENSG00000163207	ENSG00000163207			6187	protein-coding gene	gene with protein product		147360				2873896	Standard	NM_005547		Approved		uc001fau.3	P07476	OTTHUMG00000012451	ENST00000368764.3:c.996A>G	1.37:g.152883269A>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q5T7P4	Silent	SNP	ENST00000368764.3	37	CCDS1030.1																																																																																				0.662	IVL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000034664.1	NM_005547		G	152883269	A	G	152883269	2	3	703	1	0	0	0	0	0	0	0	1	7936	40	2	3		3	IVL	1	152883269	Silent	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	105392	152883269	96367352	5	46201										
DUSP23	54935	hgsc.bcm.edu	37	chr1	159751066	159751066	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ctgccccggcctcaccctgcAccgcctgcgcatccccgact	8	23	1	0	rs141314838		TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr1:159751066A>T	ENST00000368107.1	+	1	274	c.176A>T	c.(175-177)cAc>cTc	p.H59L	DUSP23_ENST00000368109.1_Missense_Mutation_p.H59L|DUSP23_ENST00000368108.3_Missense_Mutation_p.H59L			Q9BVJ7	DUS23_HUMAN	dual specificity phosphatase 23	59						cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	protein tyrosine phosphatase activity (GO:0004725)|protein tyrosine/serine/threonine phosphatase activity (GO:0008138)			lung(1)	1	all_hematologic(112;0.0537)					CTCACCCTGCACCGCCTGCGC	0.716																																																0													4	4	4					1																	159751066		1795	3557	5352	SO:0001583	missense	54935				CCDS1187.1	1q23.1	2011-06-09			ENSG00000158716	ENSG00000158716		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Atypical dual specificity phosphatases"	21480	protein-coding gene	gene with protein product						15147733	Standard	XM_005245289		Approved	FLJ20442, DUSP25	uc001ftz.1	Q9BVJ7	OTTHUMG00000022795	ENST00000368107.1:c.176A>T	1.37:g.159751066A>T	ENSP00000357087:p.His59Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q9NX48	Missense_Mutation	SNP	ENST00000368107.1	37	CCDS1187.1	.	.	.	.	.	.	.	.	.	.	A	9.461	1.093071	0.20471	.	.	ENSG00000158716	ENST00000368109;ENST00000368108;ENST00000368107	D;D;D	0.82711	-1.64;-1.64;-1.64	4.89	3.76	0.43208	Dual specificity phosphatase, catalytic domain (1);	0.000000	0.85682	D	0.000000	T	0.56062	0.1960	L	0.48935	1.535	0.58432	D	0.999997	B	0.24186	0.099	B	0.17433	0.018	T	0.53521	-0.8427	10	0.07644	T	0.81	-38.779	8.8034	0.34923	0.9101:0.0:0.0899:0.0	.	59	Q9BVJ7	DUS23_HUMAN	L	59	ENSP00000357089:H59L;ENSP00000357088:H59L;ENSP00000357087:H59L	ENSP00000357087:H59L	H	+	2	0	DUSP23	158017690	1.000000	0.71417	0.997000	0.53966	0.010000	0.07245	8.405000	0.90213	0.877000	0.35895	-0.441000	0.05720	CAC		0.716	DUSP23-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000085552.1	NM_017823		T	159751066	A	T	159751066	3	4	703	1	0	0	0	0	1	0	0	0	4824	159	6	5	178	5	DUSP23	1	159751066	Missense_Mutation	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	6867797	159751066	89499555	6	46202										
FAM5B	57795	broad.mit.edu;bcgsc.ca	37	chr1	177242681	177242690	+	Frame_Shift_Del	DEL	GTCAGTTCTG	GTCAGTTCTG	-													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	actatgacaatctggactcaGtcagttctgtcttggtacag					rs138487282		TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	GTCAGTTCTG	GTCAGTTCTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr1:177242681_177242690delGTCAGTTCTG	ENST00000361539.4	+	5	1039_1048	c.727_736delGTCAGTTCTG	c.(727-738)gtcagttctgtcfs	p.VSSV243fs	BRINP2_ENST00000478325.1_3'UTR	NM_021165.2	NP_066988.1	Q9C0B6	BRNP2_HUMAN	bone morphogenetic protein/retinoic acid inducible neural-specific 2	243	MACPF.				cell cycle arrest (GO:0007050)|cellular response to retinoic acid (GO:0071300)|negative regulation of mitotic cell cycle (GO:0045930)|positive regulation of neuron differentiation (GO:0045666)	extracellular region (GO:0005576)											TCTGGACTCAGTCAGTTCTGTCTTGGTACA	0.443																																																0																																										SO:0001589	frameshift_variant	57795				CCDS1320.1	1q24	2013-08-06	2013-08-06	2013-07-31	ENSG00000198797	ENSG00000198797			13746	protein-coding gene	gene with protein product			"family with sequence similarity 5, member B"	FAM5B		15193423	Standard	NM_021165		Approved	DBCCR1L2	uc001glf.3	Q9C0B6	OTTHUMG00000034953	ENST00000361539.4:c.727_736delGTCAGTTCTG	1.37:g.177242681_177242690delGTCAGTTCTG	ENSP00000354481:p.Val243fs	Somatic		WXS	Illumina HiSeq	Phase_I	O95560|Q6ZWC1|Q7LCZ9|Q8N360	Frame_Shift_Del	DEL	ENST00000361539.4	37	CCDS1320.1																																																																																				0.443	BRINP2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084599.1	NM_021165		-	177242690	GTCAGTTCTG	-	177242681	7	5	703	1	0	1	0	1	0	0	0	0	5600	1029	36	0	741	0	FAM5B	1	177242681	Frame_Shift_Del	DEL	GTCAGTTCTG	TCGA-Q2-A5QZ-01A-11D-A28G-10	17491615	177242681	72007940	7	46203										
NFASC	23114	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr1	204985554	204985554	+	Nonsense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gtggcgagggtcagttcaatGaagacggctccttcatcggc	14	10	3	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr1:204985554G>T	ENST00000401399.1	+	29	3809	c.3610G>T	c.(3610-3612)Gaa>Taa	p.E1204*	NFASC_ENST00000338515.6_Nonsense_Mutation_p.E1221*|NFASC_ENST00000367172.4_Nonsense_Mutation_p.E1311*|NFASC_ENST00000367170.4_Nonsense_Mutation_p.E1232*|NFASC_ENST00000367169.4_Nonsense_Mutation_p.E1035*|NFASC_ENST00000360049.4_Nonsense_Mutation_p.E1133*|NFASC_ENST00000539706.1_Nonsense_Mutation_p.E1138*|NFASC_ENST00000338586.6_Nonsense_Mutation_p.E1188*|NFASC_ENST00000495396.1_3'UTR|NFASC_ENST00000513543.1_Nonsense_Mutation_p.E1133*|NFASC_ENST00000404076.1_Nonsense_Mutation_p.E1121*|NFASC_ENST00000339876.6_Nonsense_Mutation_p.E1204*|NFASC_ENST00000367171.4_Nonsense_Mutation_p.E1296*|NFASC_ENST00000404907.1_Nonsense_Mutation_p.E1138*			O94856	NFASC_HUMAN	neurofascin	1311	Fibronectin type-III 5. {ECO:0000255|PROSITE-ProRule:PRU00316}.				axon guidance (GO:0007411)|clustering of voltage-gated sodium channels (GO:0045162)|heterotypic cell-cell adhesion (GO:0034113)|myelination (GO:0042552)|paranodal junction assembly (GO:0030913)|peripheral nervous system development (GO:0007422)|protein localization to juxtaparanode region of axon (GO:0071205)|protein localization to paranode region of axon (GO:0002175)|synapse organization (GO:0050808)|transmission of nerve impulse (GO:0019226)	axon initial segment (GO:0043194)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|integral component of membrane (GO:0016021)|intracellular (GO:0005622)|node of Ranvier (GO:0033268)|paranodal junction (GO:0033010)|paranode region of axon (GO:0033270)|plasma membrane (GO:0005886)				NS(1)|breast(4)|central_nervous_system(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(22)|liver(1)|lung(24)|ovary(3)|pancreas(1)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)	81	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			TCAGTTCAATGAAGACGGCTC	0.562																																																0													197	175	182					1																	204985554		2203	4300	6503	SO:0001587	stop_gained	23114			AK027553	CCDS30982.1, CCDS53460.1, CCDS53461.1, CCDS53462.1	1q32.1	2013-02-11	2010-06-24		ENSG00000163531	ENSG00000163531		"Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	29866	protein-coding gene	gene with protein product		609145	"neurofascin homolog (chicken)"			1377696, 8672144	Standard	NM_015090		Approved	NRCAML, KIAA0756, FLJ46866, NF	uc001hbj.3	O94856	OTTHUMG00000151697	ENST00000401399.1:c.3610G>T	1.37:g.204985554G>T	ENSP00000385637:p.Glu1204*	Somatic		WXS	Illumina HiSeq	Phase_I	B2RNN8|B3KQZ1|B5MDP6|B5MDR6|B7ZMD8|Q149P5|Q5T2F0|Q5T2F1|Q5T2F2|Q5T2F3|Q5T2F4|Q5T2F5|Q5T2F6|Q5T2F7|Q5T2F9|Q5T2G0|Q5W9F8|Q68DH3|Q6ZQV6|Q7Z3K1|Q96HT1|Q96K50	Nonsense_Mutation	SNP	ENST00000401399.1	37	CCDS53460.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	45|45	11.626230|11.626230	0.99583|0.99583	.|.	.|.	ENSG00000163531|ENSG00000163531	ENST00000367172;ENST00000367171;ENST00000367170;ENST00000338515;ENST00000339876;ENST00000338586;ENST00000295776;ENST00000539706;ENST00000360049;ENST00000367169;ENST00000404076;ENST00000401399;ENST00000404907;ENST00000513543;ENST00000430393;ENST00000447819|ENST00000367173;ENST00000425360	.|.	.|.	.|.	5.34|5.34	5.34|5.34	0.76211|0.76211	.|.	0.000000|.	0.51477|.	D|.	0.000096|.	.|T	.|0.74718	.|0.3753	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	.|T	.|0.73553	.|-0.3946	.|4	0.87932|.	D|.	0|.	.|.	18.6493|18.6493	0.91425|0.91425	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|.	.|.	.|.	X|I	1311;1296;1232;1221;1204;1188;1153;1138;1133;1035;1121;1204;1138;1133;1129;182|1004;261	.|.	ENSP00000295776:E1153X|.	E|M	+|+	1|3	0|0	NFASC|NFASC	203252177|203252177	1.000000|1.000000	0.71417|0.71417	0.966000|0.966000	0.40874|0.40874	0.941000|0.941000	0.58515|0.58515	9.835000|9.835000	0.99442|0.99442	2.484000|2.484000	0.83849|0.83849	0.563000|0.563000	0.77884|0.77884	GAA|ATG		0.562	NFASC-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000131237.1	NM_001005388		T	204985554	G	T	204985554	4	4	703	1	0	0	0	0	0	1	0	0	10366	1291	45	4	4133	4	NFASC	1	204985554	Nonsense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	27742873	204985554	44265067	8	46204										
NRXN1	9378	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	50850682	50850682	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tatttcatcactgctgctttGaatggggttttgagacaagt	10	6	2	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr2:50850682G>T	ENST00000406316.2	-	6	2380	c.904C>A	c.(904-906)Caa>Aaa	p.Q302K	NRXN1_ENST00000406859.3_Missense_Mutation_p.Q302K|NRXN1_ENST00000404971.1_Missense_Mutation_p.Q335K|NRXN1_ENST00000402717.3_Missense_Mutation_p.Q302K|NRXN1_ENST00000405472.3_Missense_Mutation_p.Q302K|NRXN1_ENST00000331040.5_5'UTR|NRXN1_ENST00000401669.2_Missense_Mutation_p.Q302K	NM_004801.4	NP_004792.1	Q9ULB1	NRX1A_HUMAN	neurexin 1	302	Laminin G-like 2. {ECO:0000255|PROSITE- ProRule:PRU00122}.				adult behavior (GO:0030534)|axon guidance (GO:0007411)|calcium-dependent cell-cell adhesion (GO:0016339)|cerebellar granule cell differentiation (GO:0021707)|establishment of protein localization (GO:0045184)|extracellular matrix organization (GO:0030198)|gamma-aminobutyric acid receptor clustering (GO:0097112)|gephyrin clustering (GO:0097116)|guanylate kinase-associated protein clustering (GO:0097117)|heterophilic cell-cell adhesion (GO:0007157)|learning (GO:0007612)|N-methyl-D-aspartate receptor clustering (GO:0097114)|negative regulation of filopodium assembly (GO:0051490)|neuroligin clustering (GO:0097118)|neuromuscular process controlling balance (GO:0050885)|neuron cell-cell adhesion (GO:0007158)|neuron maturation (GO:0042551)|neurotransmitter secretion (GO:0007269)|positive regulation of establishment of protein localization to plasma membrane (GO:0090004)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of synapse assembly (GO:0051965)|positive regulation of synapse maturation (GO:0090129)|positive regulation of synaptic transmission, glutamatergic (GO:0051968)|postsynaptic density protein 95 clustering (GO:0097119)|postsynaptic membrane assembly (GO:0097104)|presynaptic membrane assembly (GO:0097105)|receptor localization to synapse (GO:0097120)|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity (GO:2000311)|regulation of N-methyl-D-aspartate selective glutamate receptor activity (GO:2000310)|social behavior (GO:0035176)|synapse assembly (GO:0007416)|synaptic transmission (GO:0007268)|synaptic vesicle clustering (GO:0097091)|vocal learning (GO:0042297)|vocalization behavior (GO:0071625)	axonal growth cone (GO:0044295)|cell junction (GO:0030054)|cell surface (GO:0009986)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)|presynaptic membrane (GO:0042734)	acetylcholine receptor binding (GO:0033130)|calcium channel regulator activity (GO:0005246)|calcium ion binding (GO:0005509)|cell adhesion molecule binding (GO:0050839)|neuroligin family protein binding (GO:0097109)|receptor activity (GO:0004872)			breast(1)|endometrium(3)|kidney(3)|large_intestine(10)|lung(33)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	58		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CTGCTGCTTTGAATGGGGTTT	0.393																																																0													138	129	132					2																	50850682		1869	4095	5964	SO:0001583	missense	9378			AB011150	CCDS1845.1, CCDS46282.1, CCDS54360.1	2p16.3	2008-05-15			ENSG00000179915	ENSG00000179915			8008	protein-coding gene	gene with protein product		600565					Standard	NM_001135659		Approved	KIAA0578, Hs.22998	uc021vhj.1	P58400	OTTHUMG00000129263	ENST00000406316.2:c.904C>A	2.37:g.50850682G>T	ENSP00000384311:p.Gln302Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A7KRL9|O60323|Q53TJ9|Q53TQ1|Q9C079|Q9C080|Q9C081|Q9H3M2|Q9UDM6	Missense_Mutation	SNP	ENST00000406316.2	37	CCDS54360.1	.	.	.	.	.	.	.	.	.	.	G	17.39	3.378078	0.61735	.	.	ENSG00000179915	ENST00000404971;ENST00000406316;ENST00000405472;ENST00000401669;ENST00000536085;ENST00000402717;ENST00000406859	T;T;T;T;T;T	0.79141	-1.24;-1.24;-1.19;-1.24;-1.19;-1.24	5.34	5.34	0.76211	.	0.000000	0.85682	D	0.000000	T	0.81545	0.4845	L	0.38175	1.15	0.49389	D	0.999783	D;P	0.56035	0.974;0.946	P;D	0.68353	0.793;0.957	T	0.73933	-0.3826	10	0.09084	T	0.74	.	19.2231	0.93806	0.0:0.0:1.0:0.0	.	335;302	Q9ULB1-3;F8WB18	.;.	K	335;302;302;302;336;302;302	ENSP00000385142:Q335K;ENSP00000384311:Q302K;ENSP00000434015:Q302K;ENSP00000385017:Q302K;ENSP00000385434:Q302K;ENSP00000385681:Q302K	ENSP00000385017:Q302K	Q	-	1	0	NRXN1	50704186	1.000000	0.71417	1.000000	0.80357	0.999000	0.98932	9.657000	0.98554	2.776000	0.95493	0.650000	0.86243	CAA		0.393	NRXN1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000325291.2			T	50850682	G	T	50850682	3	4	703	1	0	0	0	0	1	0	0	0	10672	1299	45	4	3975	4	NRXN1	2	50850682	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10		50850682	192348691	9	46205										
SPOPL	339745	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	139322375	139322375	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ccttgtccttgcagatttgcAcagtgcagaacagttgaaag	10	9	0	3			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr2:139322375A>G	ENST00000280098.4	+	9	1314	c.935A>G	c.(934-936)cAc>cGc	p.H312R		NM_001001664.2	NP_001001664.1	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	312					negative regulation of protein ubiquitination (GO:0031397)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein ubiquitination (GO:0016567)	Cul3-RING ubiquitin ligase complex (GO:0031463)|nucleus (GO:0005634)				breast(2)|cervix(2)|endometrium(2)|large_intestine(2)|lung(11)|skin(2)	21				BRCA - Breast invasive adenocarcinoma(221;0.0296)		GCAGATTTGCACAGTGCAGAA	0.413																																																0													170	161	164					2																	139322375		2203	4300	6503	SO:0001583	missense	339745				CCDS33298.1	2q22.1	2013-01-09			ENSG00000144228	ENSG00000144228		"BTB/POZ domain containing"	27934	protein-coding gene	gene with protein product	"HIB homolog 2", "roadkill homolog 2"						Standard	NM_001001664		Approved	BTBD33	uc002tvh.3	Q6IQ16	OTTHUMG00000153635	ENST00000280098.4:c.935A>G	2.37:g.139322375A>G	ENSP00000280098:p.His312Arg	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000280098.4	37	CCDS33298.1	.	.	.	.	.	.	.	.	.	.	A	24.6	4.545679	0.86022	.	.	ENSG00000144228	ENST00000280098	T	0.76316	-1.01	5.36	5.36	0.76844	.	0.000000	0.85682	D	0.000000	D	0.88749	0.6521	M	0.89353	3.025	0.80722	D	1	D	0.71674	0.998	P	0.62813	0.907	D	0.90622	0.4560	9	.	.	.	-9.3536	15.6521	0.77104	1.0:0.0:0.0:0.0	.	312	Q6IQ16	SPOPL_HUMAN	R	312	ENSP00000280098:H312R	.	H	+	2	0	SPOPL	139038845	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	9.287000	0.95975	2.161000	0.67846	0.533000	0.62120	CAC		0.413	SPOPL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000331897.1			G	139322375	A	G	139322375	3	3	703	1	0	0	0	0	1	0	0	0	15097	159	6	3	965	3	SPOPL	2	139322375	Missense_Mutation	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	88471693	139322375	103876998	10	46206										
SCN9A	6335	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr2	167055820	167055820	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	atagaacatctcaaagtcatCctcactcagaggttcagtac	6	11	5	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr2:167055820C>T	ENST00000409435.1	-	26	5328	c.5329G>A	c.(5329-5331)Gat>Aat	p.D1777N	SCN9A_ENST00000409672.1_Missense_Mutation_p.D1766N|SCN9A_ENST00000375387.4_Missense_Mutation_p.D1778N|SCN9A_ENST00000303354.6_Missense_Mutation_p.D1778N|AC010127.3_ENST00000447809.2_RNA			Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha subunit	1777					behavioral response to pain (GO:0048266)|inflammatory response (GO:0006954)|membrane depolarization during action potential (GO:0086010)|neuronal action potential (GO:0019228)|post-embryonic development (GO:0009791)|response to toxic substance (GO:0009636)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)	plasma membrane (GO:0005886)|voltage-gated sodium channel complex (GO:0001518)	sodium ion binding (GO:0031402)|voltage-gated sodium channel activity (GO:0005248)			NS(1)|breast(5)|central_nervous_system(6)|endometrium(6)|kidney(3)|large_intestine(27)|lung(38)|ovary(6)|prostate(8)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(2)	108					Lacosamide(DB06218)|Lidocaine(DB00281)|Ranolazine(DB00243)|Rufinamide(DB06201)|Valproic Acid(DB00313)|Zonisamide(DB00909)	TCAAAGTCATCCTCACTCAGA	0.428																																																0													121	125	123					2																	167055820		2203	4300	6503	SO:0001583	missense	6335			X82835	CCDS46441.1	2q24	2014-09-17	2007-01-23		ENSG00000169432	ENSG00000169432		"Sodium channels", "Voltage-gated ion channels / Sodium channels"	10597	protein-coding gene	gene with protein product		603415	"sodium channel, voltage-gated, type IX, alpha polypeptide"			7720699, 10198179, 16382098	Standard	NM_002977		Approved	Nav1.7, PN1, NE-NA, NENA, ETHA	uc010fpl.3	Q15858	OTTHUMG00000154044	ENST00000409435.1:c.5329G>A	2.37:g.167055820C>T	ENSP00000386330:p.Asp1777Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A1BUH5|Q6B4R9|Q6B4S0|Q6B4S1|Q70HX1|Q70HX2|Q8WTU1|Q8WWN4	Missense_Mutation	SNP	ENST00000409435.1	37	CCDS46441.1	.	.	.	.	.	.	.	.	.	.	C	27.5	4.837192	0.91117	.	.	ENSG00000169432	ENST00000409672;ENST00000375387;ENST00000303354;ENST00000409435	T;T;T;T	0.10005	2.92;2.92;2.92;2.92	5.86	5.86	0.93980	.	0.000000	0.64402	D	0.000006	T	0.48169	0.1485	H	0.94847	3.59	0.80722	D	1	D	0.76494	0.999	D	0.79108	0.992	T	0.61028	-0.7145	10	0.87932	D	0	.	20.1802	0.98196	0.0:1.0:0.0:0.0	.	1766	E7EUN6	.	N	1766;1778;1778;1777	ENSP00000386306:D1766N;ENSP00000364536:D1778N;ENSP00000304748:D1778N;ENSP00000386330:D1777N	ENSP00000304748:D1778N	D	-	1	0	SCN9A	166764066	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.689000	0.84165	2.777000	0.95525	0.655000	0.94253	GAT		0.428	SCN9A-004	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000333639.1	NM_002977		T	167055820	C	T	167055820	3	4	703	1	0	0	0	0	1	0	0	0	13938	855	30	2	641	2	SCN9A	2	167055820	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	27733445	167055820	76143553	11	46207										
TTN	7273	broad.mit.edu	37	chr2	179499952	179499952	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ccaggaatgtctgcctctgaGatttctgcatcaaagcttgc	9	11	4	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr2:179499952G>C	ENST00000591111.1	-	178	37265	c.37041C>G	c.(37039-37041)atC>atG	p.I12347M	TTN-AS1_ENST00000589830.1_RNA|TTN-AS1_ENST00000418062.1_RNA|TTN_ENST00000589042.1_Missense_Mutation_p.I13988M|TTN-AS1_ENST00000590807.1_RNA|TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000589487.1_RNA|TTN_ENST00000359218.5_Missense_Mutation_p.I5048M|TTN_ENST00000342992.6_Missense_Mutation_p.I11420M|TTN-AS1_ENST00000431752.1_RNA|TTN_ENST00000342175.6_Missense_Mutation_p.I5115M|TTN_ENST00000460472.2_Missense_Mutation_p.I4923M|TTN-AS1_ENST00000589907.1_RNA|TTN-AS1_ENST00000592630.1_RNA			Q8WZ42	TITIN_HUMAN	titin	12347					adult heart development (GO:0007512)|blood coagulation (GO:0007596)|cardiac muscle contraction (GO:0060048)|cardiac muscle fiber development (GO:0048739)|cardiac muscle hypertrophy (GO:0003300)|cardiac muscle tissue morphogenesis (GO:0055008)|cardiac myofibril assembly (GO:0055003)|detection of muscle stretch (GO:0035995)|forward locomotion (GO:0043056)|in utero embryonic development (GO:0001701)|mitotic chromosome condensation (GO:0007076)|muscle contraction (GO:0006936)|muscle filament sliding (GO:0030049)|platelet activation (GO:0030168)|platelet degranulation (GO:0002576)|regulation of catalytic activity (GO:0050790)|regulation of protein kinase activity (GO:0045859)|regulation of relaxation of cardiac muscle (GO:1901897)|response to calcium ion (GO:0051592)|sarcomere organization (GO:0045214)|sarcomerogenesis (GO:0048769)|skeletal muscle myosin thick filament assembly (GO:0030241)|skeletal muscle thin filament assembly (GO:0030240)|somitogenesis (GO:0001756)|striated muscle contraction (GO:0006941)	condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|Golgi apparatus (GO:0005794)|I band (GO:0031674)|M band (GO:0031430)|nucleus (GO:0005634)|striated muscle thin filament (GO:0005865)|Z disc (GO:0030018)	actin filament binding (GO:0051015)|actinin binding (GO:0042805)|ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|calmodulin binding (GO:0005516)|enzyme binding (GO:0019899)|identical protein binding (GO:0042802)|muscle alpha-actinin binding (GO:0051371)|protease binding (GO:0002020)|protein kinase binding (GO:0019901)|protein self-association (GO:0043621)|protein serine/threonine kinase activity (GO:0004674)|structural constituent of muscle (GO:0008307)|structural molecule activity conferring elasticity (GO:0097493)|telethonin binding (GO:0031433)			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGCCTCTGAGATTTCTGCAT	0.388																																																0													183	168	172					2																	179499952		1877	4107	5984	SO:0001583	missense	7273			X90568	CCDS54421.1, CCDS54422.1, CCDS54423.1, CCDS54424.1, CCDS33337.1, CCDS59435.1, CCDS74610.1	2q31	2014-09-17	2004-02-13		ENSG00000155657	ENSG00000155657		"Immunoglobulin superfamily / I-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing", "Fibronectin type III domain containing"	12403	protein-coding gene	gene with protein product		188840	"cardiomyopathy, dilated 1G (autosomal dominant)"	CMD1G		2129545, 10051295	Standard	NM_003319		Approved	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5	uc031rqd.1	Q8WZ42	OTTHUMG00000154448	ENST00000591111.1:c.37041C>G	2.37:g.179499952G>C	ENSP00000465570:p.Ile12347Met	Somatic		WXS	Illumina HiSeq	Phase_I	A6NKB1|E7EQE6|E7ET18|K7ENY1|Q10465|Q10466|Q15598|Q2XUS3|Q32Q60|Q4U1Z6|Q4ZG20|Q6NSG0|Q6PDB1|Q6PJP0|Q7KYM2|Q7KYN4|Q7KYN5|Q7LDM3|Q7Z2X3|Q8TCG8|Q8WZ42|Q8WZ51|Q8WZ52|Q8WZ53|Q8WZB3|Q92761|Q92762|Q9UD97|Q9UP84|Q9Y6L9	Missense_Mutation	SNP	ENST00000591111.1	37		.	.	.	.	.	.	.	.	.	.	G	8.922	0.961252	0.18583	.	.	ENSG00000155657	ENST00000342992;ENST00000460472;ENST00000342175;ENST00000359218;ENST00000356127	T;T;T;T	0.37058	1.22;1.22;1.22;1.22	5.85	3.71	0.42584	Peptidase C2, calpain, large subunit, domain III (1);Ribonuclease H-like (1);Immunoglobulin-like fold (1);	.	.	.	.	T	0.56455	0.1986	M	0.83603	2.65	0.39403	D	0.966611	D;D;D;D	0.76494	0.999;0.999;0.999;0.999	D;D;D;D	0.80764	0.994;0.994;0.994;0.994	T	0.61118	-0.7127	9	0.87932	D	0	.	5.0	0.14259	0.2192:0.0:0.5207:0.2601	.	4923;5048;5115;12347	D3DPF9;E7EQE6;E7ET18;Q8WZ42	.;.;.;TITIN_HUMAN	M	11420;4923;5115;5048;4923	ENSP00000343764:I11420M;ENSP00000434586:I4923M;ENSP00000340554:I5115M;ENSP00000352154:I5048M	ENSP00000340554:I5115M	I	-	3	3	TTN	179208197	0.996000	0.38824	1.000000	0.80357	0.996000	0.88848	0.435000	0.21510	1.453000	0.47775	0.655000	0.94253	ATC		0.388	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	NM_133378		C	179499952	G	C	179499952	3	2	703	1	0	0	0	0	1	0	0	0	16747	932	33	4	66269	4	TTN	2	179499952	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	12444132	179499952	63699421	12	46208										
GIGYF2	26058	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	233671361	233671361	+	Silent	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ccaggtccagctccccctccTcatatggtaagtacctttca	6	16	2	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr2:233671361T>A	ENST00000409547.1	+	17	2111	c.1800T>A	c.(1798-1800)ccT>ccA	p.P600P	GIGYF2_ENST00000409451.3_Silent_p.P621P|GIGYF2_ENST00000409196.3_Silent_p.P594P|GIGYF2_ENST00000373563.4_Silent_p.P600P|GIGYF2_ENST00000373566.3_Silent_p.P622P|GIGYF2_ENST00000409480.1_Silent_p.P622P|GIGYF2_ENST00000452341.2_Silent_p.P431P	NM_015575.3	NP_056390.2	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2	600					adult locomotory behavior (GO:0008344)|cell death (GO:0008219)|cellular protein metabolic process (GO:0044267)|feeding behavior (GO:0007631)|homeostasis of number of cells within a tissue (GO:0048873)|insulin-like growth factor receptor signaling pathway (GO:0048009)|mitotic G1 DNA damage checkpoint (GO:0031571)|multicellular organism growth (GO:0035264)|musculoskeletal movement (GO:0050881)|negative regulation of translation (GO:0017148)|neuromuscular process controlling balance (GO:0050885)|post-embryonic development (GO:0009791)|spinal cord motor neuron differentiation (GO:0021522)	membrane (GO:0016020)	poly(A) RNA binding (GO:0044822)			NS(1)|biliary_tract(1)|breast(3)|central_nervous_system(4)|cervix(1)|endometrium(11)|kidney(2)|large_intestine(17)|lung(11)|ovary(5)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)	63		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		CTCCCCCTCCTCATATGGTAA	0.433																																																0													111	108	109					2																	233671361		2203	4300	6503	SO:0001819	synonymous_variant	26058			U80751	CCDS33401.1, CCDS46542.1, CCDS46543.1	2q37.1	2011-07-06	2008-02-11	2008-02-11	ENSG00000204120	ENSG00000204120		"Trinucleotide (CAG) repeat containing"	11960	protein-coding gene	gene with protein product	"GYF domain containing 2"	612003	"PERQ amino acid rich, with GYF domain 2", "PERQ amino acid rich, with GYF domain 3", "trinucleotide repeat containing 15", "Parkinson disease (autosomal recessive, early onset) 11"	PERQ2, PERQ3, TNRC15, PARK11		9225980, 9734811, 12771153, 18358451, 19279319	Standard	NM_015575		Approved	KIAA0642, GYF2	uc002vtk.4	Q6Y7W6	OTTHUMG00000153237	ENST00000409547.1:c.1800T>A	2.37:g.233671361T>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6H8W4|B9EG55|E9PBB0|O75137|Q7Z2Z8|Q7Z3I2|Q96HU4|Q9NV82	Silent	SNP	ENST00000409547.1	37	CCDS33401.1																																																																																				0.433	GIGYF2-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000330316.2	NM_001103146		A	233671361	T	A	233671361	2	1	703	1	0	0	0	0	0	0	0	1	6385	1538	54	5		5	GIGYF2	2	233671361	Silent	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	54171409	233671361	9528012	13	46209										
IQCA1	79781	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr2	237272540	237272540	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tcggtgcagatggcatggacCagcattttcttccctacccc	9	14	1	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr2:237272540C>T	ENST00000409907.3	-	15	2026	c.1752G>A	c.(1750-1752)ctG>ctA	p.L584L	IQCA1_ENST00000431676.2_Silent_p.L543L|IQCA1_ENST00000309507.5_Silent_p.L581L	NM_024726.4	NP_079002.3	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1	584							ATP binding (GO:0005524)			cervix(1)|endometrium(3)|kidney(2)|large_intestine(7)|lung(12)|ovary(1)	26						TGGCATGGACCAGCATTTTCT	0.512																																																0													167	165	166					2																	237272540		1994	4155	6149	SO:0001819	synonymous_variant	79781			AK026180	CCDS46549.1, CCDS59441.1, CCDS74677.1	2q37.3	2014-07-18	2008-07-02	2008-07-02	ENSG00000132321	ENSG00000132321		"ATPases / AAA-type"	26195	protein-coding gene	gene with protein product	"dynein regulatory complex subunit 11"		"IQ motif containing with AAA domain"	IQCA		23427265	Standard	NM_024726		Approved	FLJ22527, DRC11	uc002vwb.3	Q86XH1	OTTHUMG00000153058	ENST00000409907.3:c.1752G>A	2.37:g.237272540C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B4DFH9|E7EWQ0|Q4G164|Q53R37|Q53RV3|Q96NS7|Q9H680	Silent	SNP	ENST00000409907.3	37	CCDS46549.1																																																																																				0.512	IQCA1-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000329266.1	NM_024726		T	237272540	C	T	237272540	2	4	703	1	0	0	0	0	0	0	0	1	7809	581	21	2		2	IQCA1	2	237272540	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	3601179	237272540	5926833	14	46210										
PTPRG	5793	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	62189090	62189090	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ggcccacgcgcctcccgacgGccgcctcagccagcaagcag	12	20	1	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr3:62189090G>C	ENST00000474889.1	+	12	1998	c.1621G>C	c.(1621-1623)Gcc>Ccc	p.A541P	PTPRG_ENST00000295874.10_Missense_Mutation_p.A541P	NM_002841.3	NP_002832.3	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	541					brain development (GO:0007420)|negative regulation of epithelial cell migration (GO:0010633)|negative regulation of neuron projection development (GO:0010977)|peptidyl-tyrosine dephosphorylation (GO:0035335)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	identical protein binding (GO:0042802)|protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(1)|breast(4)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(12)|liver(2)|lung(15)|ovary(7)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	62				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		CCTCCCGACGGCCGCCTCAGC	0.687																																																0													17	15	16					3																	62189090		2203	4297	6500	SO:0001583	missense	5793			L09247	CCDS2895.1	3p21-p14	2013-02-11			ENSG00000144724	ENSG00000144724		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Fibronectin type III domain containing"	9671	protein-coding gene	gene with protein product		176886		PTPG		1711217	Standard	NM_002841		Approved	RPTPG	uc003dlb.3	P23470	OTTHUMG00000158660	ENST00000474889.1:c.1621G>C	3.37:g.62189090G>C	ENSP00000418112:p.Ala541Pro	Somatic		WXS	Illumina HiSeq	Phase_I	B2RU12|B7ZLX5|Q15623|Q59EE0|Q68DU5	Missense_Mutation	SNP	ENST00000474889.1	37	CCDS2895.1	.	.	.	.	.	.	.	.	.	.	G	9.459	1.092688	0.20471	.	.	ENSG00000144724	ENST00000474889;ENST00000295874	T;T	0.55760	0.57;0.5	4.39	3.51	0.40186	.	0.179080	0.48286	D	0.000192	T	0.58836	0.2150	L	0.57536	1.79	0.09310	N	1	D;P	0.61080	0.989;0.93	P;P	0.58266	0.836;0.462	T	0.50750	-0.8791	10	0.59425	D	0.04	.	6.385	0.21556	0.0862:0.0:0.5861:0.3277	.	541;541	P23470-2;P23470	.;PTPRG_HUMAN	P	541	ENSP00000418112:A541P;ENSP00000295874:A541P	ENSP00000295874:A541P	A	+	1	0	PTPRG	62164130	0.995000	0.38212	0.010000	0.14722	0.036000	0.12997	4.014000	0.57145	0.959000	0.37980	0.591000	0.81541	GCC		0.687	PTPRG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000351674.1	NM_002841		C	62189090	G	C	62189090	3	2	703	1	0	0	0	0	1	0	0	0	12815	1203	42	4	1667	4	PTPRG	3	62189090	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10		62189090	135833340	15	46211										
KIAA2018	205717	hgsc.bcm.edu;ucsc.edu	37	chr3	113376122	113376122	+	Silent	SNP	C	C	T													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tgttgctgttgctgctgctgCtgctgctgctgctgctgctg							TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr3:113376122C>T	ENST00000478658.1	-	5	4424	c.4407G>A	c.(4405-4407)caG>caA	p.Q1469Q	KIAA2018_ENST00000316407.4_Silent_p.Q1469Q|KIAA2018_ENST00000491165.1_Intron			Q68DE3	K2018_HUMAN	KIAA2018	1469	Gln-rich.					membrane (GO:0016020)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|DNA binding (GO:0003677)|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity (GO:0004571)			NS(1)|breast(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(13)|liver(1)|lung(30)|ovary(8)|skin(5)|upper_aerodigestive_tract(4)|urinary_tract(2)	80						gctgctgctgctgctgctgct	0.498																																																0													55	66	62					3																	113376122		2188	4278	6466	SO:0001819	synonymous_variant	205717			AB095938	CCDS43133.1	3q13.2	2014-01-02			ENSG00000176542	ENSG00000176542			30494	protein-coding gene	gene with protein product							Standard	XM_005247208		Approved		uc003eam.3	Q68DE3	OTTHUMG00000159322	ENST00000478658.1:c.4407G>A	3.37:g.113376122C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z3L9|Q8IVF3|Q9H8T4	Silent	SNP	ENST00000478658.1	37	CCDS43133.1																																																																																				0.498	KIAA2018-003	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000354591.1	NM_001009899		T	113376122	C	T	113376122	2	4	703	1	0	0	0	0	0	0	0	1	8275	796	28	2		2	KIAA2018	3	113376122	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	51187032	113376122	84646308	16	46212	505	2								
KIAA2018	205717	hgsc.bcm.edu	37	chr3	113376128	113376128	+	Silent	SNP	C	C	T													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tgttgctgctgctgctgctgCtgctgctgctgctgctgctt							TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr3:113376128C>T	ENST00000478658.1	-	5	4418	c.4401G>A	c.(4399-4401)caG>caA	p.Q1467Q	KIAA2018_ENST00000316407.4_Silent_p.Q1467Q|KIAA2018_ENST00000491165.1_Intron			Q68DE3	K2018_HUMAN	KIAA2018	1467	Gln-rich.					membrane (GO:0016020)|nucleus (GO:0005634)	calcium ion binding (GO:0005509)|DNA binding (GO:0003677)|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity (GO:0004571)			NS(1)|breast(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(13)|liver(1)|lung(30)|ovary(8)|skin(5)|upper_aerodigestive_tract(4)|urinary_tract(2)	80						gctgctgctgctgctgctgct	0.493																																																0													52	61	58					3																	113376128		2177	4283	6460	SO:0001819	synonymous_variant	205717			AB095938	CCDS43133.1	3q13.2	2014-01-02			ENSG00000176542	ENSG00000176542			30494	protein-coding gene	gene with protein product							Standard	XM_005247208		Approved		uc003eam.3	Q68DE3	OTTHUMG00000159322	ENST00000478658.1:c.4401G>A	3.37:g.113376128C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q7Z3L9|Q8IVF3|Q9H8T4	Silent	SNP	ENST00000478658.1	37	CCDS43133.1																																																																																				0.493	KIAA2018-003	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000354591.1	NM_001009899		T	113376128	C	T	113376128	2	4	703	1	0	0	0	0	0	0	0	1	8275	796	28	2		2	KIAA2018	3	113376128	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	6	113376128	84646302	17	46213	505	2								
ROPN1B	152015	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	125690910	125690910	+	Missense_Mutation	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	accaatcaatggctcagacaGataagccaacatgcatcccg	7	13	2	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr3:125690910G>T	ENST00000514116.1	+	3	328	c.13G>T	c.(13-15)Gat>Tat	p.D5Y	ROPN1B_ENST00000511862.1_3'UTR|ROPN1B_ENST00000504401.1_Missense_Mutation_p.D5Y|ROPN1B_ENST00000251776.4_Missense_Mutation_p.D5Y			Q9BZX4	ROP1B_HUMAN	rhophilin associated tail protein 1B	5					acrosome reaction (GO:0007340)|cytokinesis (GO:0000910)|fusion of sperm to egg plasma membrane (GO:0007342)|Rho protein signal transduction (GO:0007266)|single organismal cell-cell adhesion (GO:0016337)|sperm motility (GO:0030317)|spermatogenesis (GO:0007283)	cytoplasm (GO:0005737)|motile cilium (GO:0031514)	protein heterodimerization activity (GO:0046982)|protein homodimerization activity (GO:0042803)|receptor signaling complex scaffold activity (GO:0030159)			endometrium(1)|kidney(1)|large_intestine(2)|lung(3)|stomach(1)	8				GBM - Glioblastoma multiforme(114;0.151)		GGCTCAGACAGATAAGCCAAC	0.517																																																0													54	56	56					3																	125690910		2203	4300	6503	SO:0001583	missense	152015			AF231410	CCDS33841.1	3q21.2	2011-01-20	2011-01-20		ENSG00000114547	ENSG00000114547			31927	protein-coding gene	gene with protein product			"ropporin, rhophilin associated protein 1B"				Standard	XM_005247137		Approved		uc003eih.3	Q9BZX4	OTTHUMG00000162651	ENST00000514116.1:c.13G>T	3.37:g.125690910G>T	ENSP00000426271:p.Asp5Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	D3DNA6|Q96BM7	Missense_Mutation	SNP	ENST00000514116.1	37	CCDS33841.1	.	.	.	.	.	.	.	.	.	.	G	12.60	1.986274	0.35036	.	.	ENSG00000114547	ENST00000514116;ENST00000251776;ENST00000504401;ENST00000513830;ENST00000508088;ENST00000509879	T;T;T;T	0.50548	1.7;1.7;1.3;0.74	3.37	2.48	0.30137	cAMP-dependent protein kinase, regulatory subunit, type I/II alpha/beta (1);	0.169791	0.40222	N	0.001160	T	0.59224	0.2178	L	0.60455	1.87	0.80722	D	1	D;D	0.89917	0.999;1.0	D;D	0.87578	0.995;0.998	T	0.57900	-0.7731	10	0.87932	D	0	-2.9193	7.0352	0.24989	0.1362:0.0:0.8638:0.0	.	5;5	B7Z7H1;Q9BZX4	.;ROP1B_HUMAN	Y	5	ENSP00000426271:D5Y;ENSP00000251776:D5Y;ENSP00000425548:D5Y;ENSP00000423058:D5Y	ENSP00000251776:D5Y	D	+	1	0	ROPN1B	127173600	0.992000	0.36948	0.966000	0.40874	0.278000	0.26855	2.272000	0.43373	0.510000	0.28216	0.305000	0.20034	GAT		0.517	ROPN1B-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369931.1	NM_001012337		T	125690910	G	T	125690910	3	4	703	1	0	0	0	0	1	0	0	0	13537	942	33	4	15	4	ROPN1B	3	125690910	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	12314782	125690910	72331520	18	46214										
PPP2R3A	5523	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	135825108	135825108	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gactgggaccggtttgccgcTgaggagtatgagacgcttgt	16	8	0	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr3:135825108T>C	ENST00000264977.3	+	13	3890	c.3273T>C	c.(3271-3273)gcT>gcC	p.A1091A	PPP2R3A_ENST00000490467.1_Silent_p.A355A|PPP2R3A_ENST00000334546.2_Silent_p.A470A|PPP2R3A_ENST00000469270.1_3'UTR	NM_001190447.1|NM_002718.4	NP_001177376.1|NP_002709.2	Q06190	P2R3A_HUMAN	protein phosphatase 2, regulatory subunit B'', alpha	1091					eye photoreceptor cell differentiation (GO:0001754)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|positive regulation of canonical Wnt signaling pathway (GO:0090263)|positive regulation of protein catabolic process (GO:0045732)|protein dephosphorylation (GO:0006470)|regulation of catalytic activity (GO:0050790)|regulation of cell motility involved in somitogenic axis elongation (GO:0090249)|somatic muscle development (GO:0007525)|somite development (GO:0061053)|Wnt signaling pathway involved in somitogenesis (GO:0090244)	protein phosphatase type 2A complex (GO:0000159)	calcium ion binding (GO:0005509)|protein phosphatase type 2A regulator activity (GO:0008601)			breast(2)|cervix(1)|endometrium(2)|large_intestine(7)|lung(10)|ovary(3)|pancreas(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	31						GGTTTGCCGCTGAGGAGTATG	0.453																																																0													74	76	75					3																	135825108		2203	4300	6503	SO:0001819	synonymous_variant	5523			L12146	CCDS3087.1, CCDS3088.1, CCDS54642.1	3q22.2-q22.3	2013-01-10	2010-06-18	2002-04-26	ENSG00000073711	ENSG00000073711	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatase 2, regulatory subunits", "EF-hand domain containing"	9307	protein-coding gene	gene with protein product		604944	"protein phosphatase 2 (formerly 2A), regulatory subunit B'' (PR 72), alpha isoform and (PR 130), beta isoform", "protein phosphatase 2 (formerly 2A), regulatory subunit B'', alpha"	PPP2R3		8392071	Standard	NM_002718		Approved		uc003eqv.2	Q06190	OTTHUMG00000159766	ENST00000264977.3:c.3273T>C	3.37:g.135825108T>C		Somatic		WXS	Illumina HiSeq	Phase_I	A8KAE7|B4DNU1|B7ZAE3|Q06189|Q9NPQ5	Silent	SNP	ENST00000264977.3	37	CCDS3087.1																																																																																				0.453	PPP2R3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000357232.1	NM_002718		C	135825108	T	C	135825108	2	2	703	1	0	0	0	0	0	0	0	1	12398	1567	55	3		3	PPP2R3A	3	135825108	Silent	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	10134198	135825108	62197322	19	46215										
FAM194A	131831	broad.mit.edu	37	chr3	150421590	150421590	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tcctcctcctcctccacctcTtcctcctcctcctcctcctc	0	26	1	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr3:150421590T>C	ENST00000295910.6	-	1	148	c.96A>G	c.(94-96)gaA>gaG	p.E32E	RP11-103G8.2_ENST00000471093.1_RNA|FAM194A_ENST00000491361.1_5'UTR|RP11-103G8.2_ENST00000475393.1_RNA	NM_152394.3	NP_689607.2														NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(3)|kidney(1)|large_intestine(10)|lung(14)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	38						cctccacctcttcctcctcct	0.632																																																0													71	65	67					3																	150421590		2203	4300	6503	SO:0001819	synonymous_variant	131831																														ENST00000295910.6:c.96A>G	3.37:g.150421590T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000295910.6	37	CCDS3151.2																																																																																				0.632	FAM194A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257666.1			C	150421590	T	C	150421590	2	2	703	1	0	0	0	0	0	0	0	1	5530	1606	56	3		3	FAM194A	3	150421590	Silent	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	14596482	150421590	47600840	20	46216										
YEATS2	55689	broad.mit.edu	37	chr3	183525842	183525842	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ggatcaccctgcagcccgtgGcactccacaggaacgtgtat	11	14	1	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr3:183525842G>T	ENST00000305135.5	+	29	4231	c.4036G>T	c.(4036-4038)Gca>Tca	p.A1346S	YEATS2-AS1_ENST00000425008.3_RNA|YEATS2-AS1_ENST00000609195.1_RNA|YEATS2-AS1_ENST00000609871.1_RNA	NM_018023.4	NP_060493.3	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	1346					chromatin organization (GO:0006325)|histone H3 acetylation (GO:0043966)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)	Ada2/Gcn5/Ada3 transcription activator complex (GO:0005671)|mitotic spindle (GO:0072686)	TBP-class protein binding (GO:0017025)			NS(1)|breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(24)|ovary(3)|prostate(2)|skin(3)	49	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)			GCAGCCCGTGGCACTCCACAG	0.572																																																0													44	46	45					3																	183525842		2006	4162	6168	SO:0001583	missense	55689			AB033023	CCDS43175.1	3q27.3	2004-08-18			ENSG00000163872	ENSG00000163872			25489	protein-coding gene	gene with protein product		613373				10574462	Standard	NM_018023		Approved	FLJ10201, FLJ12841, FLJ13308, KIAA1197	uc003fly.2	Q9ULM3	OTTHUMG00000156898	ENST00000305135.5:c.4036G>T	3.37:g.183525842G>T	ENSP00000306983:p.Ala1346Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2B9|D3DNS9|Q641P6|Q9NW96	Missense_Mutation	SNP	ENST00000305135.5	37	CCDS43175.1	.	.	.	.	.	.	.	.	.	.	G	18.95	3.732056	0.69189	.	.	ENSG00000163872	ENST00000421660;ENST00000305135	T	0.22134	1.97	5.53	4.63	0.57726	.	0.290196	0.31347	N	0.007819	T	0.12817	0.0311	N	0.08118	0	0.32028	N	0.599863	B	0.20368	0.044	B	0.15870	0.014	T	0.04991	-1.0913	10	0.59425	D	0.04	-14.0042	15.0579	0.71930	0.0:0.1431:0.8569:0.0	.	1346	Q9ULM3	YETS2_HUMAN	S	1346	ENSP00000306983:A1346S	ENSP00000306983:A1346S	A	+	1	0	YEATS2	185008536	1.000000	0.71417	0.918000	0.36340	0.889000	0.51656	5.256000	0.65468	1.291000	0.44653	0.561000	0.74099	GCA		0.572	YEATS2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000346507.2	NM_018023		T	183525842	G	T	183525842	3	4	703	1	0	0	0	0	1	0	0	0	17484	1203	42	4	4146	4	YEATS2	3	183525842	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	33104252	183525842	14496588	21	46217										
DGKG	1608	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr3	185960324	185960324	+	Nonsense_Mutation	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tttttcaggatgtttctctcTcatcacatggaatctgtgtg	8	8	5	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr3:185960324T>A	ENST00000265022.3	-	20	2334	c.1795A>T	c.(1795-1797)Aga>Tga	p.R599*	DGKG_ENST00000382164.4_Nonsense_Mutation_p.R560*|DGKG_ENST00000544847.1_Nonsense_Mutation_p.R540*|DGKG_ENST00000344484.4_Nonsense_Mutation_p.R574*	NM_001080744.1|NM_001080745.1|NM_001346.2	NP_001074213.1|NP_001074214.1|NP_001337.2	P49619	DGKG_HUMAN	diacylglycerol kinase, gamma 90kDa	599					blood coagulation (GO:0007596)|intracellular signal transduction (GO:0035556)|neuron development (GO:0048666)|platelet activation (GO:0030168)|protein kinase C-activating G-protein coupled receptor signaling pathway (GO:0007205)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|intracellular membrane-bounded organelle (GO:0043231)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|calcium ion binding (GO:0005509)|diacylglycerol kinase activity (GO:0004143)|NAD+ kinase activity (GO:0003951)			breast(3)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(8)|lung(17)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)	42	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)	TGTTTCTCTCTCATCACATGG	0.547											OREG0015965	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													100	87	92					3																	185960324		2203	4300	6503	SO:0001587	stop_gained	1608			AF020945	CCDS3274.1, CCDS43181.1, CCDS43182.1	3q27-q28	2013-01-10	2002-08-29		ENSG00000058866	ENSG00000058866	2.7.1.107	"EF-hand domain containing"	2853	protein-coding gene	gene with protein product		601854	"diacylglycerol kinase, gamma (90kD)"	DAGK3		8034597	Standard	NM_001080744		Approved		uc003fqa.3	P49619	OTTHUMG00000156617	ENST00000265022.3:c.1795A>T	3.37:g.185960324T>A	ENSP00000265022:p.Arg599*	Somatic	2003	WXS	Illumina HiSeq	Phase_I	B2RAH4|Q2M1H4|Q5FWG1	Nonsense_Mutation	SNP	ENST00000265022.3	37	CCDS3274.1	.	.	.	.	.	.	.	.	.	.	T	46	12.295792	0.99654	.	.	ENSG00000058866	ENST00000265022;ENST00000344484;ENST00000382164;ENST00000544847;ENST00000538691	.	.	.	5.38	-0.167	0.13347	.	0.000000	0.85682	D	0.000000	.	.	.	.	.	.	0.80722	A	1	.	.	.	.	.	.	.	.	.	.	0.02654	T	1	.	14.3395	0.66617	0.0:0.0:0.4781:0.5218	.	.	.	.	X	599;574;560;540;563	.	ENSP00000265022:R599X	R	-	1	2	DGKG	187443018	0.993000	0.37304	1.000000	0.80357	0.992000	0.81027	0.192000	0.17096	0.099000	0.17552	0.533000	0.62120	AGA		0.547	DGKG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344800.3			A	185960324	T	A	185960324	4	1	703	1	0	0	0	0	0	1	0	0	4471	1559	54	5	604	5	DGKG	3	185960324	Nonsense_Mutation	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	2434482	185960324	12062106	22	46218										
MUC20	200958	broad.mit.edu	37	chr3	195447900	195447900	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tgggctgtctctggggtctgGctctgccccttttcttcttc	11	13	5	0	rs397844010	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr3:195447900G>A	ENST00000447234.2	+	1	148	c.22G>A	c.(22-24)Gct>Act	p.A8T	MUC20_ENST00000436408.1_Missense_Mutation_p.A8T|MUC20_ENST00000485430.1_3'UTR|MUC20_ENST00000320736.6_Missense_Mutation_p.A8T	NM_001282506.1	NP_001269435.1	Q8N307	MUC20_HUMAN	mucin 20, cell surface associated	8					activation of MAPK activity (GO:0000187)|cellular protein metabolic process (GO:0044267)|hepatocyte growth factor receptor signaling pathway (GO:0048012)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)|protein homooligomerization (GO:0051260)	basal plasma membrane (GO:0009925)|cell projection (GO:0042995)|extracellular region (GO:0005576)|Golgi lumen (GO:0005796)				NS(1)|breast(1)|endometrium(3)|kidney(3)|large_intestine(3)|lung(4)|skin(4)|stomach(3)|upper_aerodigestive_tract(1)	23	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.191)	Epithelial(36;1e-21)|all cancers(36;9.02e-20)|OV - Ovarian serous cystadenocarcinoma(49;1.6e-18)|Lung(62;0.000104)|LUSC - Lung squamous cell carcinoma(58;0.000128)	GBM - Glioblastoma multiforme(46;1.66e-05)		CTGGGGTCTGGCTCTGCCCCT	0.622																																																0																																										SO:0001583	missense	200958			AB037780	CCDS63877.1	3q29	2008-08-07	2006-03-14		ENSG00000176945	ENSG00000176945		"Mucins"	23282	protein-coding gene	gene with protein product		610360				14565953	Standard	NM_001282506		Approved	FLJ14408, KIAA1359	uc010hzo.3	Q8N307	OTTHUMG00000155823	ENST00000447234.2:c.22G>A	3.37:g.195447900G>A	ENSP00000414350:p.Ala8Thr	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UX97|Q76I83|Q76I85|Q86ST8|Q8NBY6|Q96KA1|Q9P2I8	Missense_Mutation	SNP	ENST00000447234.2	37		.	.	.	.	.	.	.	.	.	.	G	13.78	2.339003	0.41398	.	.	ENSG00000176945	ENST00000447234;ENST00000320736;ENST00000436408	T;T;T	0.23552	1.9;2.15;2.03	2.77	0.921	0.19403	.	.	.	.	.	T	0.17195	0.0413	L	0.29908	0.895	0.09310	N	0.999999	P	0.40332	0.713	B	0.40410	0.328	T	0.14090	-1.0485	9	0.52906	T	0.07	-6.0E-4	4.005	0.09597	0.1435:0.2477:0.6088:0.0	.	8	E9PH32	.	T	8	ENSP00000414350:A8T;ENSP00000325431:A8T;ENSP00000396774:A8T	ENSP00000325431:A8T	A	+	1	0	MUC20	196933571	0.005000	0.15991	0.270000	0.24601	0.793000	0.44817	0.154000	0.16343	0.221000	0.20879	0.462000	0.41574	GCT		0.622	MUC20-001	KNOWN	basic|appris_candidate	protein_coding	protein_coding	OTTHUMT00000341835.1	NM_152673		A	195447900	G	A	195447900	3	1	703	1	0	0	0	0	1	0	0	0	9983	1203	42	2	24	2	MUC20	3	195447900	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	9487576	195447900	2574530	23	46219										
PPP2R2C	5522	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr4	6335365	6335365	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ggtagtcccgggtgagcatgTagcggccgctgtggctgaac	17	10	0	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr4:6335365T>C	ENST00000382599.4	-	7	1100	c.884A>G	c.(883-885)tAc>tGc	p.Y295C	PPP2R2C_ENST00000507294.1_Missense_Mutation_p.Y288C|PPP2R2C_ENST00000335585.5_Missense_Mutation_p.Y295C|PPP2R2C_ENST00000515571.1_Missense_Mutation_p.Y278C|PPP2R2C_ENST00000506140.1_Missense_Mutation_p.Y288C			Q9Y2T4	2ABG_HUMAN	protein phosphatase 2, regulatory subunit B, gamma	295					regulation of catalytic activity (GO:0050790)|signal transduction (GO:0007165)	protein phosphatase type 2A complex (GO:0000159)	protein phosphatase type 2A regulator activity (GO:0008601)			central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(7)|lung(7)|ovary(2)|prostate(2)|skin(3)|urinary_tract(1)	28						GGTGAGCATGTAGCGGCCGCT	0.572											OREG0016071	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													110	105	107					4																	6335365		2203	4300	6503	SO:0001583	missense	5522			AF086924	CCDS3388.1, CCDS56304.1, CCDS56305.1, CCDS3387.1	4p16.1	2013-01-10	2010-04-14		ENSG00000074211	ENSG00000074211	3.1.3.16	"Serine/threonine phosphatases / Protein phosphatase 2, regulatory subunits", "WD repeat domain containing"	9306	protein-coding gene	gene with protein product	"PP2A subunit B isoform gamma"	605997	"protein phosphatase 2 (formerly 2A), regulatory subunit B (PR 52), gamma isoform", "protein phosphatase 2 (formerly 2A), regulatory subunit B, gamma isoform"			10574460, 10945473	Standard	NM_020416		Approved	PR52, IMYPNO, MGC33570, PR55G	uc003gja.3	Q9Y2T4	OTTHUMG00000090445	ENST00000382599.4:c.884A>G	4.37:g.6335365T>C	ENSP00000372042:p.Tyr295Cys	Somatic	633	WXS	Illumina HiSeq	Phase_I	A8MSY7|B7Z3Y1|Q7Z4V7|Q8NEC4|Q9H3G7	Missense_Mutation	SNP	ENST00000382599.4	37		.	.	.	.	.	.	.	.	.	.	T	16.16	3.044169	0.55110	.	.	ENSG00000074211	ENST00000335585;ENST00000506140;ENST00000515571;ENST00000382599;ENST00000507294	T;T;T;T;T	0.32753	1.44;1.44;1.44;1.44;1.44	4.11	1.24	0.21308	WD40/YVTN repeat-like-containing domain (1);WD40 repeat-like-containing domain (1);	0.286388	0.35320	N	0.003299	T	0.59636	0.2208	H	0.94222	3.51	0.80722	D	1	D;D;D;D	0.67145	0.994;0.987;0.996;0.977	D;D;D;P	0.67900	0.933;0.926;0.954;0.87	T	0.66228	-0.5976	10	0.87932	D	0	.	9.1465	0.36937	0.3036:0.0:0.0:0.6964	.	288;295;278;295	B7Z3Y1;Q9Y2T4;Q9Y2T4-3;Q9Y2T4-2	.;2ABG_HUMAN;.;.	C	295;288;278;295;288	ENSP00000335083:Y295C;ENSP00000423649:Y288C;ENSP00000422374:Y278C;ENSP00000372042:Y295C;ENSP00000425247:Y288C	ENSP00000335083:Y295C	Y	-	2	0	PPP2R2C	6386266	1.000000	0.71417	0.995000	0.50966	0.715000	0.41141	5.431000	0.66507	0.586000	0.29626	0.402000	0.26972	TAC		0.572	PPP2R2C-001	NOVEL	overlapping_uORF|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000206889.2	NM_181876		C	6335365	T	C	6335365	3	2	703	1	0	0	0	0	1	0	0	0	12396	1638	57	3	471	3	PPP2R2C	4	6335365	Missense_Mutation	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10		6335365	184818911	24	46220										
ATP10D	57205	broad.mit.edu	37	chr4	47593174	47593174	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ctctcaagaagtggagagggGctggaaagatgaatcaagtg	15	5	2	4			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr4:47593174G>T	ENST00000273859.3	+	23	4326	c.4057G>T	c.(4057-4059)Gct>Tct	p.A1353S		NM_020453.3	NP_065186.3	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	1353					cation transport (GO:0006812)|ion transmembrane transport (GO:0034220)|phospholipid translocation (GO:0045332)|transmembrane transport (GO:0055085)	endoplasmic reticulum (GO:0005783)|integral component of membrane (GO:0016021)|nucleus (GO:0005634)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|cation-transporting ATPase activity (GO:0019829)|magnesium ion binding (GO:0000287)|phospholipid-translocating ATPase activity (GO:0004012)			NS(2)|endometrium(5)|kidney(5)|large_intestine(14)|liver(2)|lung(26)|ovary(2)|pancreas(1)|prostate(5)|skin(2)|stomach(1)|urinary_tract(1)	66						GTGGAGAGGGGCTGGAAAGAT	0.468																																																0													107	108	108					4																	47593174		2203	4300	6503	SO:0001583	missense	57205			AB040920	CCDS3476.1	4p12	2010-04-20	2007-09-19		ENSG00000145246	ENSG00000145246		"ATPases / P-type"	13549	protein-coding gene	gene with protein product			"ATPase, Class V, type 10D"			12532265	Standard	NM_020453		Approved	ATPVD, KIAA1487	uc003gxk.1	Q9P241	OTTHUMG00000160784	ENST00000273859.3:c.4057G>T	4.37:g.47593174G>T	ENSP00000273859:p.Ala1353Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A2RRC8|D6REN2|Q8NC70|Q96SR3	Missense_Mutation	SNP	ENST00000273859.3	37	CCDS3476.1	.	.	.	.	.	.	.	.	.	.	G	13.67	2.305821	0.40795	.	.	ENSG00000145246	ENST00000273859	T	0.38401	1.14	4.62	-2.03	0.07365	.	0.657993	0.13943	N	0.352047	T	0.20981	0.0505	L	0.51422	1.61	0.19775	N	0.999953	B	0.13145	0.007	B	0.08055	0.003	T	0.34576	-0.9823	10	0.09590	T	0.72	-0.9921	1.5641	0.02601	0.337:0.1313:0.3977:0.1341	.	1353	Q9P241	AT10D_HUMAN	S	1353	ENSP00000273859:A1353S	ENSP00000273859:A1353S	A	+	1	0	ATP10D	47287931	0.000000	0.05858	0.000000	0.03702	0.410000	0.31052	-0.016000	0.12613	-0.789000	0.04498	0.460000	0.39030	GCT		0.468	ATP10D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000216900.1	NM_020453		T	47593174	G	T	47593174	3	4	703	1	0	0	0	0	1	0	0	0	1118	1203	42	4	4143	4	ATP10D	4	47593174	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	41257809	47593174	143561102	25	46221										
DSPP	1834	bcgsc.ca	37	chr4	88536238	88536238	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gatagcagcaacagcagtgaTagcagtgatagcagtgacag	13	7	0	3	rs555978267	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr4:88536238T>C	ENST00000282478.7	+	4	2457	c.2424T>C	c.(2422-2424)gaT>gaC	p.D808D	DSPP_ENST00000399271.1_Silent_p.D808D|RP11-742B18.1_ENST00000506480.1_RNA			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	808	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		acagcagtgatagcagtgata	0.488																																																0													98	115	109					4																	88536238		1660	2960	4620	SO:0001819	synonymous_variant	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.2424T>C	4.37:g.88536238T>C		Somatic		WXS	Illumina HiSeq	Phase_1	A8MUI0|O95815	Silent	SNP	ENST00000282478.7	37	CCDS43248.1																																																																																				0.488	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		C	88536238	T	C	88536238	2	2	703	1	0	0	0	0	0	0	0	1	4784	1403	49	3		3	DSPP	4	88536238	Silent	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	40943064	88536238	102618038	26	46222										
DSPP	1834	hgsc.bcm.edu	37	chr4	88536436	88536436	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	agcgatagcagtgacagcagCaacagcagtgacagcagtga	13	9	0	3			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr4:88536436C>T	ENST00000282478.7	+	4	2655	c.2622C>T	c.(2620-2622)agC>agT	p.S874S	DSPP_ENST00000399271.1_Silent_p.S874S|RP11-742B18.1_ENST00000506480.1_RNA			Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein	874	Asp/Ser-rich.				biomineral tissue development (GO:0031214)|cellular response to cell-matrix adhesion (GO:0071460)|extracellular matrix organization (GO:0030198)|multicellular organismal development (GO:0007275)|ossification (GO:0001503)|skeletal system development (GO:0001501)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	calcium ion binding (GO:0005509)|collagen binding (GO:0005518)|extracellular matrix structural constituent (GO:0005201)			breast(2)|central_nervous_system(1)|endometrium(9)|kidney(4)|large_intestine(8)|lung(13)|ovary(1)|skin(3)|stomach(3)|upper_aerodigestive_tract(2)|urinary_tract(1)	47		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		gtgacagcagcaacagcagtg	0.502																																																0													70	85	79					4																	88536436		1641	2936	4577	SO:0001819	synonymous_variant	1834			AF163151	CCDS43248.1	4q21.3	2008-02-05			ENSG00000152591	ENSG00000152591			3054	protein-coding gene	gene with protein product		125485		DFNA39, DGI1		8995371, 9533027	Standard	NM_014208		Approved	DMP3	uc003hqu.3	Q9NZW4	OTTHUMG00000161061	ENST00000282478.7:c.2622C>T	4.37:g.88536436C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MUI0|O95815	Silent	SNP	ENST00000282478.7	37	CCDS43248.1																																																																																				0.502	DSPP-001	KNOWN	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000363616.3	NM_014208		T	88536436	C	T	88536436	2	4	703	1	0	0	0	0	0	0	0	1	4784	709	25	2		2	DSPP	4	88536436	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	198	88536436	102617840	27	46223										
PLEKHG4B	153478	broad.mit.edu	37	chr5	169688	169688	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gcactgccccttggccgtggGccgcagtttcctgagacacg	13	15	0	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr5:169688G>T	ENST00000283426.6	+	12	2692	c.2642G>T	c.(2641-2643)gGc>gTc	p.G881V		NM_052909.3	NP_443141.3	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G (with RhoGef domain) member 4B	881	DH. {ECO:0000255|PROSITE- ProRule:PRU00062}.						Rho guanyl-nucleotide exchange factor activity (GO:0005089)			endometrium(1)|large_intestine(2)|lung(2)|prostate(3)|skin(3)	11			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		TTGGCCGTGGGCCGCAGTTTC	0.647																																																0													54	56	55					5																	169688		2203	4300	6503	SO:0001583	missense	153478			BC008352	CCDS34124.1	5p15.33	2013-01-11			ENSG00000153404	ENSG00000153404		"Pleckstrin homology (PH) domain containing"	29399	protein-coding gene	gene with protein product						11572484	Standard	NM_052909		Approved	KIAA1909	uc003jak.2	Q96PX9	OTTHUMG00000161570	ENST00000283426.6:c.2642G>T	5.37:g.169688G>T	ENSP00000283426:p.Gly881Val	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000283426.6	37	CCDS34124.1	.	.	.	.	.	.	.	.	.	.	G	15.48	2.847182	0.51164	.	.	ENSG00000153404	ENST00000283426	T	0.38401	1.14	3.55	3.55	0.40652	Dbl homology (DH) domain (5);	.	.	.	.	T	0.70245	0.3202	H	0.97465	4.01	0.58432	D	0.999997	D	0.67145	0.996	D	0.67231	0.95	T	0.81243	-0.1021	9	0.87932	D	0	.	12.6189	0.56592	0.0:0.0:1.0:0.0	.	881	Q96PX9	PKH4B_HUMAN	V	881	ENSP00000283426:G881V	ENSP00000283426:G881V	G	+	2	0	PLEKHG4B	222688	1.000000	0.71417	0.059000	0.19551	0.536000	0.34869	6.237000	0.72345	1.514000	0.48869	0.467000	0.42956	GGC		0.647	PLEKHG4B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000365359.1	NM_052909		T	169688	G	T	169688	3	4	703	1	0	0	0	0	1	0	0	0	12079	1203	42	4	2688	4	PLEKHG4B	5	169688	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10		169688	180745572	28	46224										
SLC9A3	6550	broad.mit.edu	37	chr5	475168	475168	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gaggggaccaccgtctccccGggagacagccagggcggcag	17	14	1	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr5:475168G>A	ENST00000264938.3	-	16	2340	c.2331C>T	c.(2329-2331)ccC>ccT	p.P777P	SLC9A3_ENST00000514375.1_Silent_p.P768P|CTD-2228K2.7_ENST00000607005.1_RNA|CTD-2228K2.5_ENST00000510714.1_5'Flank|CTD-2228K2.7_ENST00000607286.1_RNA|CTD-2228K2.7_ENST00000606288.1_RNA|CTD-2228K2.7_ENST00000606319.1_RNA|CTD-2228K2.5_ENST00000510604.1_5'Flank|CTD-2228K2.5_ENST00000342584.3_5'Flank	NM_004174.2	NP_004165.2	P48764	SL9A3_HUMAN	solute carrier family 9, subfamily A (NHE3, cation proton antiporter 3), member 3	777					ion transport (GO:0006811)|regulation of pH (GO:0006885)|sodium ion transmembrane transport (GO:0035725)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|brush border (GO:0005903)|brush border membrane (GO:0031526)|cell surface (GO:0009986)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	PDZ domain binding (GO:0030165)|sodium:proton antiporter activity (GO:0015385)			NS(2)|biliary_tract(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(4)|liver(2)|lung(16)|prostate(3)|skin(2)|urinary_tract(1)	37			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			CCGTCTCCCCGGGAGACAGCC	0.677																																																0													25	32	30					5																	475168		2202	4298	6500	SO:0001819	synonymous_variant	6550				CCDS3855.1, CCDS64116.1	5p15.3	2013-05-22	2012-03-22		ENSG00000066230	ENSG00000066230		"Solute carriers"	11073	protein-coding gene	gene with protein product		182307	"solute carrier family 9 (sodium/hydrogen exchanger), isoform 3", "solute carrier family 9 (sodium/hydrogen exchanger), member 3"	NHE3		8096830	Standard	NM_004174		Approved		uc003jbe.2	P48764	OTTHUMG00000090315	ENST00000264938.3:c.2331C>T	5.37:g.475168G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B7ZKR2|E9PF67|Q3MIW3	Silent	SNP	ENST00000264938.3	37	CCDS3855.1																																																																																				0.677	SLC9A3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000206677.2	NM_004174		A	475168	G	A	475168	2	1	703	1	0	0	0	0	0	0	0	1	14726	1103	39	1		1	SLC9A3	5	475168	Silent	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	305480	475168	180440092	29	46225										
FAM105A	54491	broad.mit.edu;bcgsc.ca	37	chr5	14601482	14601482	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	aacctcagtgtggaggcagaGgttgatttactcagttattg	12	6	2	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr5:14601482G>A	ENST00000274217.3	+	4	399	c.279G>A	c.(277-279)gaG>gaA	p.E93E		NM_019018.2	NP_061891.1	Q9NUU6	F105A_HUMAN	family with sequence similarity 105, member A	93										large_intestine(3)|lung(5)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	11	Lung NSC(4;0.00592)					TGGAGGCAGAGGTTGATTTAC	0.423																																																0													90	85	87					5																	14601482		2203	4300	6503	SO:0001819	synonymous_variant	54491				CCDS3884.1	5p15.2	2014-02-24			ENSG00000145569	ENSG00000145569		"OTU domain containing"	25629	protein-coding gene	gene with protein product						12477932	Standard	NM_019018		Approved	FLJ11127, NET20	uc003jfj.3	Q9NUU6	OTTHUMG00000131056	ENST00000274217.3:c.279G>A	5.37:g.14601482G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q53H50|Q9H037	Silent	SNP	ENST00000274217.3	37	CCDS3884.1																																																																																				0.423	FAM105A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000253710.1	NM_019018		A	14601482	G	A	14601482	2	1	703	1	0	0	0	0	0	0	0	1	5391	991	35	2		2	FAM105A	5	14601482	Silent	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	14126314	14601482	166313778	30	46226										
SHROOM1	134549	hgsc.bcm.edu	37	chr5	132161622	132161622	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	agcgtcgggcggggcggggcCcgggccgccccaaaccacac	17	17	0	0	rs201865788	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr5:132161622C>G	ENST00000378679.3	-	4	1015	c.211G>C	c.(211-213)Ggc>Cgc	p.G71R	SHROOM1_ENST00000319854.3_Missense_Mutation_p.G71R|SHROOM1_ENST00000378676.1_Missense_Mutation_p.G71R|SHROOM1_ENST00000488072.1_5'Flank	NM_001172700.1	NP_001166171.1	Q2M3G4	SHRM1_HUMAN	shroom family member 1	71					actin filament bundle assembly (GO:0051017)|cell morphogenesis (GO:0000902)	cytoplasm (GO:0005737)|microtubule (GO:0005874)|myosin II complex (GO:0016460)	actin filament binding (GO:0051015)			endometrium(1)|kidney(4)|large_intestine(2)|lung(4)|pancreas(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	17			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			ggggcggggcccgggccgccc	0.761													C|||	30	0.00599042	0.0197	0.0058	5008	,	,		9659	0.0		0.0	False		,,,				2504	0.0															0								C	ARG/GLY,ARG/GLY	47,3713		0,47,1833	3	5	4		211,211	-0.3	0	5		4	6,7770		0,6,3882	yes	missense,missense	SHROOM1	NM_001172700.1,NM_133456.2	125,125	0,53,5715	GG,GC,CC		0.0772,1.25,0.4594	probably-damaging,probably-damaging	71/853,71/848	132161622	53,11483	1880	3888	5768	SO:0001583	missense	134549			AF314142	CCDS4161.1, CCDS54902.1	5q31.1	2007-05-03			ENSG00000164403	ENSG00000164403			24084	protein-coding gene	gene with protein product		611179				11853319, 16615870	Standard	NM_133456		Approved	APXL2, KIAA1960	uc003kxy.2	Q2M3G4	OTTHUMG00000059835	ENST00000378679.3:c.211G>C	5.37:g.132161622C>G	ENSP00000367950:p.Gly71Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7WP40|B7ZL01|Q8TDP0|Q8TF41	Missense_Mutation	SNP	ENST00000378679.3	37	CCDS54902.1	.	.	.	.	.	.	.	.	.	.	C	9.057	0.993651	0.19043	0.0125	7.72E-4	ENSG00000164403	ENST00000378679;ENST00000319854;ENST00000378676;ENST00000440118	T;T;T;T	0.46063	1.88;1.88;1.88;0.88	3.95	-0.277	0.12898	.	1.015780	0.07909	N	0.973959	T	0.18841	0.0452	N	0.19112	0.55	0.09310	N	1	P;P	0.47677	0.899;0.838	B;B	0.42522	0.39;0.218	T	0.12451	-1.0547	10	0.54805	T	0.06	-0.006	2.8428	0.05534	0.2105:0.4294:0.0:0.3601	.	71;71	Q2M3G4-2;Q2M3G4	.;SHRM1_HUMAN	R	71	ENSP00000367950:G71R;ENSP00000324245:G71R;ENSP00000367947:G71R;ENSP00000388049:G71R	ENSP00000324245:G71R	G	-	1	0	SHROOM1	132189521	0.000000	0.05858	0.000000	0.03702	0.046000	0.14306	-0.865000	0.04250	0.025000	0.15241	0.407000	0.27541	GGC		0.761	SHROOM1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000133033.1	NM_133456		G	132161622	C	G	132161622	3	3	703	1	0	0	0	0	1	0	0	0	14306	623	22	4	2375	4	SHROOM1	5	132161622	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	117560140	132161622	48753638	31	46227										
NR3C1	2908	broad.mit.edu	37	chr5	142678363	142678363	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ggtcatttggtcatccaggtGtaagttcctgaaacctgaat	10	8	2	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr5:142678363G>T	ENST00000343796.2	-	6	2755	c.1762C>A	c.(1762-1764)Cac>Aac	p.H588N	NR3C1_ENST00000231509.3_Missense_Mutation_p.H589N|NR3C1_ENST00000503201.1_Missense_Mutation_p.H588N|NR3C1_ENST00000415690.2_Missense_Mutation_p.H588N|NR3C1_ENST00000504572.1_Missense_Mutation_p.H589N|NR3C1_ENST00000504336.1_5'Flank|NR3C1_ENST00000416954.2_Missense_Mutation_p.H191N|NR3C1_ENST00000394466.2_Missense_Mutation_p.H589N|NR3C1_ENST00000394464.2_Missense_Mutation_p.H588N|NR3C1_ENST00000424646.2_Missense_Mutation_p.H562N	NM_001018074.1|NM_001018075.1|NM_001018077.1	NP_001018084.1|NP_001018085.1|NP_001018087.1	P04150	GCR_HUMAN	nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor)	588	Interaction with CLOCK.|Interaction with CRY1.|Steroid-binding.				adrenal gland development (GO:0030325)|chromatin modification (GO:0016568)|gene expression (GO:0010467)|glucocorticoid metabolic process (GO:0008211)|mammary gland duct morphogenesis (GO:0060603)|negative regulation of glucocorticoid mediated signaling pathway (GO:1900170)|positive regulation of neuron apoptotic process (GO:0043525)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of glucocorticoid biosynthetic process (GO:0031946)|regulation of gluconeogenesis (GO:0006111)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)|transcription from RNA polymerase II promoter (GO:0006366)|transcription initiation from RNA polymerase II promoter (GO:0006367)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|membrane (GO:0016020)|mitochondrial matrix (GO:0005759)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	glucocorticoid receptor activity (GO:0004883)|RNA polymerase II core promoter proximal region sequence-specific DNA binding (GO:0000978)|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription (GO:0001077)|sequence-specific DNA binding transcription factor activity (GO:0003700)|steroid binding (GO:0005496)|zinc ion binding (GO:0008270)			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(10)|lung(7)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	35		Acute lymphoblastic leukemia(2;3.2e-05)|all_hematologic(2;0.000361)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)		Alclometasone(DB00240)|Amcinonide(DB00288)|Beclomethasone(DB00394)|Betamethasone(DB00443)|Budesonide(DB01222)|Ciclesonide(DB01410)|Clobetasol propionate(DB01013)|Clocortolone(DB00838)|Cortisone acetate(DB01380)|Desonide(DB01260)|Desoximetasone(DB00547)|Dexamethasone(DB01234)|Diflorasone(DB00223)|Difluprednate(DB06781)|Fludrocortisone(DB00687)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Fluoxymesterone(DB01185)|Flurandrenolide(DB00846)|Fluticasone furoate(DB08906)|Fluticasone Propionate(DB00588)|Halobetasol Propionate(DB00596)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol(DB00873)|Medrysone(DB00253)|Megestrol acetate(DB00351)|Methylprednisolone(DB00959)|Mifepristone(DB00834)|Mometasone(DB00764)|Paramethasone(DB01384)|Prednicarbate(DB01130)|Prednisolone(DB00860)|Prednisone(DB00635)|Rimexolone(DB00896)|Spironolactone(DB00421)|Triamcinolone(DB00620)	TCATCCAGGTGTAAGTTCCTG	0.423																																																0													103	95	98					5																	142678363		2203	4300	6503	SO:0001583	missense	2908			X03225	CCDS4278.1, CCDS34258.1, CCDS47298.1	5q31-q32	2013-01-16	2002-08-27		ENSG00000113580	ENSG00000113580		"Nuclear hormone receptors"	7978	protein-coding gene	gene with protein product		138040	"nuclear receptor subfamily 3, group C, member 1"	GRL		2867473	Standard	NM_001204258		Approved	GR	uc003lnb.3	P04150	OTTHUMG00000129677	ENST00000343796.2:c.1762C>A	5.37:g.142678363G>T	ENSP00000343205:p.His588Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A0ZXF9|B0LPG8|D3DQF4|P04151|Q53EP5|Q6N0A4	Missense_Mutation	SNP	ENST00000343796.2	37	CCDS4278.1	.	.	.	.	.	.	.	.	.	.	G	22.9	4.350242	0.82132	.	.	ENSG00000113580	ENST00000394464;ENST00000343796;ENST00000415690;ENST00000424646;ENST00000504572;ENST00000394466;ENST00000231509;ENST00000416954;ENST00000503201	D;D;D;D;D;D;D;D;D	0.96427	-4.01;-4.01;-4.01;-4.01;-4.01;-4.01;-4.01;-4.01;-4.01	5.88	5.88	0.94601	Nuclear hormone receptor, ligand-binding (2);Nuclear hormone receptor, ligand-binding, core (2);	0.045994	0.85682	D	0.000000	D	0.97458	0.9168	M	0.76938	2.355	0.80722	D	1	P;P;P	0.39782	0.632;0.559;0.688	P;B;P	0.49683	0.619;0.257;0.563	D	0.97432	1.0016	10	0.66056	D	0.02	.	20.2314	0.98350	0.0:0.0:1.0:0.0	.	588;588;589	E5KQF5;P04150;E5KQF6	.;GCR_HUMAN;.	N	588;588;588;562;589;589;589;191;588	ENSP00000377977:H588N;ENSP00000343205:H588N;ENSP00000387672:H588N;ENSP00000405282:H562N;ENSP00000422518:H589N;ENSP00000377979:H589N;ENSP00000231509:H589N;ENSP00000404218:H191N;ENSP00000427672:H588N	ENSP00000231509:H589N	H	-	1	0	NR3C1	142658556	1.000000	0.71417	1.000000	0.80357	0.963000	0.63663	7.967000	0.87967	2.789000	0.95967	0.591000	0.81541	CAC		0.423	NR3C1-201	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000370829.1			T	142678363	G	T	142678363	3	4	703	1	0	0	0	0	1	0	0	0	10637	1377	48	4	639	4	NR3C1	5	142678363	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	10516741	142678363	38236897	32	46228										
TLX3	30012	hgsc.bcm.edu	37	chr5	170736390	170736390	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	atggaggcgcccgccagcgcGcagaccccgcacccgcacga	13	19	0	1	rs537348276		TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr5:170736390G>A	ENST00000296921.5	+	1	103	c.21G>A	c.(19-21)gcG>gcA	p.A7A		NM_021025.2	NP_066305.2	O43711	TLX3_HUMAN	T-cell leukemia homeobox 3	7					central nervous system development (GO:0007417)|negative regulation of neuron differentiation (GO:0045665)|neuron fate specification (GO:0048665)|neuron migration (GO:0001764)|regulation of respiratory gaseous exchange by neurological system process (GO:0002087)|regulation of transcription, DNA-templated (GO:0006355)|respiratory gaseous exchange (GO:0007585)	nucleus (GO:0005634)	sequence-specific DNA binding (GO:0043565)			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00576)|all_lung(126;0.00963)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CCGCCAGCGCGCAGACCCCGC	0.771			T	BCL11B	T-ALL																																Esophageal Squamous(33;43 807 3116 3348 30094)		Dom	yes		5	5q35.1	30012	"T-cell leukemia, homeobox 3 (HOX11L2)"		L	0													11	13	12					5																	170736390		2176	4263	6439	SO:0001819	synonymous_variant	30012			AJ223798	CCDS34288.1	5q35.1	2011-06-20	2005-12-22	2002-05-31	ENSG00000164438	ENSG00000164438		"Homeoboxes / ANTP class : NKL subclass"	13532	protein-coding gene	gene with protein product		604640	"homeo box 11-like 2", "T-cell leukemia, homeobox 3"	HOX11L2		11435718, 11435716	Standard	NM_021025		Approved	RNX	uc003mbf.3	O43711	OTTHUMG00000163207	ENST00000296921.5:c.21G>A	5.37:g.170736390G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q96AD3	Silent	SNP	ENST00000296921.5	37	CCDS34288.1																																																																																				0.771	TLX3-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000372076.3			A	170736390	G	A	170736390	2	1	703	1	0	0	0	0	0	0	0	1	15974	1074	38	1		1	TLX3	5	170736390	Silent	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	28058027	170736390	10178870	33	46229										
DBN1	1627	broad.mit.edu	37	chr5	176885609	176885609	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tgcctggcccccggggaggcGcctgtgcctgagggggctcc	18	15	0	1	rs369597152		TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr5:176885609G>A	ENST00000309007.5	-	12	1445	c.1226C>T	c.(1225-1227)gCg>gTg	p.A409V	DBN1_ENST00000393565.1_Missense_Mutation_p.A455V|DBN1_ENST00000292385.5_Missense_Mutation_p.A411V|DBN1_ENST00000393563.4_Missense_Mutation_p.A141V|DBN1_ENST00000512501.1_Missense_Mutation_p.A141V	NM_004395.3	NP_004386	Q16643	DREB_HUMAN	drebrin 1	409					actin filament organization (GO:0007015)|cell communication by chemical coupling (GO:0010643)|cell communication by electrical coupling (GO:0010644)|maintenance of protein location in cell (GO:0032507)|neural precursor cell proliferation (GO:0061351)|regulation of dendrite development (GO:0050773)|regulation of neuronal synaptic plasticity (GO:0048168)	actin cytoskeleton (GO:0015629)|actomyosin (GO:0042641)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|gap junction (GO:0005921)|plasma membrane (GO:0005886)	actin binding (GO:0003779)|profilin binding (GO:0005522)			breast(3)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(1)|lung(12)|ovary(1)|skin(2)	25	all_cancers(89;2.17e-05)|Renal(175;0.000269)|Lung NSC(126;0.0014)|all_lung(126;0.0025)	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)			CCGGGGAGGCGCCTGTGCCTG	0.687																																																0								G	VAL/ALA,VAL/ALA	0,4390		0,0,2195	18	22	21		1232,1226	-2	0	5		21	1,8593		0,1,4296	no	missense,missense	DBN1	NM_080881.2,NM_004395.3	64,64	0,1,6491	AA,AG,GG		0.0116,0.0,0.0077	benign,benign	411/652,409/650	176885609	1,12983	2195	4297	6492	SO:0001583	missense	1627				CCDS4420.1, CCDS4421.1	5q35.3	2008-02-05			ENSG00000113758	ENSG00000113758			2695	protein-coding gene	gene with protein product		126660		D0S117E		8216329	Standard	NM_004395		Approved		uc003mgy.2	Q16643	OTTHUMG00000130856	ENST00000309007.5:c.1226C>T	5.37:g.176885609G>A	ENSP00000308532:p.Ala409Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8MV58|B2RBG0|Q9UFZ5	Missense_Mutation	SNP	ENST00000309007.5	37	CCDS4420.1	.	.	.	.	.	.	.	.	.	.	G	2.283	-0.364221	0.05103	0.0	1.16E-4	ENSG00000113758	ENST00000309007;ENST00000292385;ENST00000393565;ENST00000512501;ENST00000393563	T;T;T;T;T	0.32753	1.49;1.48;1.49;1.44;1.49	4.77	-2.02	0.07388	.	1.821730	0.02661	N	0.107568	T	0.14830	0.0358	N	0.08118	0	0.09310	N	1	B;B;B;B	0.09022	0.0;0.002;0.0;0.0	B;B;B;B	0.04013	0.0;0.001;0.0;0.0	T	0.20538	-1.0272	10	0.49607	T	0.09	-6.766	2.1505	0.03798	0.4484:0.0767:0.133:0.3419	.	359;455;409;411	B3KSQ7;A8MV58;Q16643;Q16643-2	.;.;DREB_HUMAN;.	V	409;411;455;141;141	ENSP00000308532:A409V;ENSP00000292385:A411V;ENSP00000377195:A455V;ENSP00000423208:A141V;ENSP00000377193:A141V	ENSP00000292385:A411V	A	-	2	0	DBN1	176818215	0.000000	0.05858	0.015000	0.15790	0.035000	0.12851	-0.219000	0.09228	-0.099000	0.12263	-1.744000	0.00683	GCG		0.687	DBN1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000253429.2	NM_080881		A	176885609	G	A	176885609	3	1	703	1	0	0	0	0	1	0	0	0	4254	1087	38	1	735	1	DBN1	5	176885609	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	6149219	176885609	4029651	34	46230										
OR10C1	442194	hgsc.bcm.edu;broad.mit.edu	37	chr6	29408232	29408232	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tctacagctagctgggtcggCgtgggcctgtggggtgctgg	19	9	1	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr6:29408232C>T	ENST00000444197.2	+	1	1150	c.440C>T	c.(439-441)gCg>gTg	p.A147V	OR11A1_ENST00000377149.1_Intron	NM_013941.3	NP_039229.3	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C, member 1 (gene/pseudogene)	147						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|breast(2)|kidney(1)|large_intestine(3)|liver(2)|lung(14)|ovary(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	27						GCTGGGTCGGCGTGGGCCTGT	0.622																																																0													80	91	87					6																	29408232		1509	2709	4218	SO:0001583	missense	442194				CCDS34364.1	6p22.2-p21.31	2013-10-10	2013-10-10		ENSG00000206474	ENSG00000206474		"GPCR / Class A : Olfactory receptors"	8165	protein-coding gene	gene with protein product			"olfactory receptor, family 10, subfamily C, member 2", "olfactory receptor, family 10, subfamily C, member 1"	OR10C2			Standard	NM_013941		Approved	hs6M1-17, OR10C1P	uc011dlp.2	Q96KK4	OTTHUMG00000031207	ENST00000444197.2:c.440C>T	6.37:g.29408232C>T	ENSP00000419119:p.Ala147Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q5SUN7|Q96R18	Missense_Mutation	SNP	ENST00000444197.2	37	CCDS34364.1	.	.	.	.	.	.	.	.	.	.	C	14.10	2.434952	0.43224	.	.	ENSG00000206474	ENST00000444197	T	0.34859	1.34	3.53	3.53	0.40419	GPCR, rhodopsin-like superfamily (1);	0.000000	0.38897	N	0.001526	T	0.29028	0.0721	N	0.16708	0.43	0.09310	N	1	D	0.67145	0.996	D	0.67725	0.953	T	0.18650	-1.0330	10	0.87932	D	0	.	14.9009	0.70678	0.0:1.0:0.0:0.0	.	147	Q96KK4	O10C1_HUMAN	V	147	ENSP00000419119:A147V	ENSP00000419119:A147V	A	+	2	0	OR10C1	29516211	0.000000	0.05858	0.027000	0.17364	0.033000	0.12548	-1.281000	0.02802	1.805000	0.52779	0.508000	0.49915	GCG		0.622	OR10C1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076415.2			T	29408232	C	T	29408232	3	4	703	1	0	0	0	0	1	0	0	0	10905	768	27	1	442	1	OR10C1	6	29408232	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10		29408232	141706835	35	46231										
TUBB	203068	broad.mit.edu	37	chr6	30692075	30692075	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	atggagttcaccgaggctgaGagcaacatgaacgacctcgt	12	10	1	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr6:30692075G>C	ENST00000327892.8	+	4	1542	c.1236G>C	c.(1234-1236)gaG>gaC	p.E412D	XXbac-BPG252P9.9_ENST00000607476.1_RNA|TUBB_ENST00000435534.1_Missense_Mutation_p.E211D|TUBB_ENST00000396384.1_Missense_Mutation_p.E340D|TUBB_ENST00000330914.3_Missense_Mutation_p.E340D|TUBB_ENST00000396389.1_Missense_Mutation_p.E394D	NM_178014.2	NP_821133.1	P07437	TBB5_HUMAN	tubulin, beta class I	412					cell division (GO:0051301)|cellular component movement (GO:0006928)|cellular process (GO:0009987)|cytoskeleton-dependent intracellular transport (GO:0030705)|G2/M transition of mitotic cell cycle (GO:0000086)|microtubule-based process (GO:0007017)|mitotic cell cycle (GO:0000278)|natural killer cell mediated cytotoxicity (GO:0042267)|protein polymerization (GO:0051258)|spindle assembly (GO:0051225)	cell body (GO:0044297)|cytoplasmic ribonucleoprotein granule (GO:0036464)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|microtubule (GO:0005874)|nuclear envelope lumen (GO:0005641)|nucleus (GO:0005634)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|MHC class I protein binding (GO:0042288)|structural constituent of cytoskeleton (GO:0005200)|structural molecule activity (GO:0005198)			breast(1)|endometrium(1)|kidney(8)|large_intestine(3)|lung(1)|ovary(1)|urinary_tract(1)	16					Colchicine(DB01394)|Podofilox(DB01179)|Vinblastine(DB00570)|Vincristine(DB00541)|Vinorelbine(DB00361)	CCGAGGCTGAGAGCAACATGA	0.587																																																0													78	71	74					6																	30692075		2202	4300	6502	SO:0001583	missense	203068			AB062393	CCDS4687.1	6p21.33	2011-10-10	2011-10-10		ENSG00000196230	ENSG00000196230		"Tubulins"	20778	protein-coding gene	gene with protein product	"class I beta-tubulin", "beta1-tubulin"	191130	"tubulin, beta polypeptide", "tubulin, beta"			11504633, 8270253	Standard	NM_001293212		Approved	OK/SW-cl.56, MGC16435, M40, Tubb5	uc003nrl.3	P07437	OTTHUMG00000031059	ENST00000327892.8:c.1236G>C	6.37:g.30692075G>C	ENSP00000339001:p.Glu412Asp	Somatic		WXS	Illumina HiSeq	Phase_I	P05218|Q8WUC1|Q9CY33	Missense_Mutation	SNP	ENST00000327892.8	37	CCDS4687.1	.	.	.	.	.	.	.	.	.	.	G	17.20	3.329595	0.60743	.	.	ENSG00000196230	ENST00000327892;ENST00000422827;ENST00000435534;ENST00000330914;ENST00000396389;ENST00000396384	T;T;T;T;T	0.74421	-0.84;-0.84;-0.84;-0.84;-0.84	4.62	3.75	0.43078	Tubulin, C-terminal (1);Tubulin/FtsZ, C-terminal (1);	0.000000	0.85682	D	0.000000	T	0.80476	0.4630	M	0.80332	2.49	0.25294	N	0.989331	D;B	0.62365	0.991;0.418	D;B	0.83275	0.996;0.346	T	0.74112	-0.3770	10	0.87932	D	0	.	11.9247	0.52812	0.0:0.0:0.8249:0.1751	.	412;412	P07437;F8VW92	TBB5_HUMAN;.	D	412;321;211;340;394;340	ENSP00000339001:E412D;ENSP00000391672:E211D;ENSP00000365578:E340D;ENSP00000379672:E394D;ENSP00000379668:E340D	ENSP00000339001:E412D	E	+	3	2	TUBB	30800054	1.000000	0.71417	1.000000	0.80357	0.988000	0.76386	6.175000	0.71949	1.166000	0.42689	-0.230000	0.12252	GAG		0.587	TUBB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000076074.2	NM_178014		C	30692075	G	C	30692075	3	2	703	1	0	0	0	0	1	0	0	0	16764	933	33	4	1250	4	TUBB	6	30692075	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	1283843	30692075	140422992	36	46232										
ABCC10	89845	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	43412898	43412898	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	actgcccaaagctgcccccaAtggctcctcagacatccgtt	7	17	1	1	rs200602946	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr6:43412898A>G	ENST00000372530.4	+	14	3091	c.2876A>G	c.(2875-2877)aAt>aGt	p.N959S	ABCC10_ENST00000244533.3_Missense_Mutation_p.N931S	NM_001198934.1	NP_001185863.1	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP), member 10	959	ABC transmembrane type-1 2. {ECO:0000255|PROSITE-ProRule:PRU00441}.				transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)|lysosomal membrane (GO:0005765)|plasma membrane (GO:0005886)	ATP binding (GO:0005524)|ATPase activity, coupled to transmembrane movement of substances (GO:0042626)			NS(1)|breast(3)|central_nervous_system(1)|endometrium(6)|kidney(4)|large_intestine(8)|lung(21)|ovary(7)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	56	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)		Cyclosporine(DB00091)|Cytarabine(DB00987)|Daunorubicin(DB00694)|Docetaxel(DB01248)|Doxorubicin(DB00997)|Estradiol(DB00783)|Etoposide(DB00773)|Gemcitabine(DB00441)|Methotrexate(DB00563)|Paclitaxel(DB01229)|Sildenafil(DB00203)|Tenofovir(DB00300)|Verapamil(DB00661)|Vincristine(DB00541)	GCTGCCCCCAATGGCTCCTCA	0.592													A|||	2	0.000399361	0.0008	0.0	5008	,	,		17616	0.0		0.0	False		,,,				2504	0.001															0								A	SER/ASN,SER/ASN	3,4403	6.2+/-15.9	0,3,2200	120	98	105		2876,2792	5.1	1	6		105	0,8600		0,0,4300	no	missense,missense	ABCC10	NM_001198934.1,NM_033450.2	46,46	0,3,6500	GG,GA,AA		0.0,0.0681,0.0231	benign,benign	959/1493,931/1465	43412898	3,13003	2203	4300	6503	SO:0001583	missense	89845			U66684	CCDS4896.1, CCDS56430.1	6p12.3	2012-03-14			ENSG00000124574	ENSG00000124574		"ATP binding cassette transporters / subfamily C"	52	protein-coding gene	gene with protein product		612509				8894702	Standard	NM_033450		Approved	EST182763, MRP7, SIMRP7	uc003ouy.1	Q5T3U5	OTTHUMG00000014733	ENST00000372530.4:c.2876A>G	6.37:g.43412898A>G	ENSP00000361608:p.Asn959Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHX7|Q9H7N2|Q9NXY3|Q9UF48	Missense_Mutation	SNP	ENST00000372530.4	37	CCDS56430.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	A	19.68	3.873050	0.72180	6.81E-4	0.0	ENSG00000124574	ENST00000372530;ENST00000244533	D;D	0.89875	-2.58;-2.58	5.08	5.08	0.68730	ABC transporter, transmembrane domain, type 1 (1);ABC transporter, integral membrane type 1 (1);ABC transporter, transmembrane domain (1);	0.055422	0.64402	D	0.000002	T	0.80454	0.4626	N	0.21373	0.66	0.53005	D	0.999967	B;P	0.52170	0.39;0.951	B;P	0.54544	0.257;0.755	T	0.80099	-0.1524	10	0.07813	T	0.8	-0.0074	14.8585	0.70359	1.0:0.0:0.0:0.0	.	931;959	Q5T3U5-2;Q5T3U5	.;MRP7_HUMAN	S	959;931	ENSP00000361608:N959S;ENSP00000244533:N931S	ENSP00000244533:N931S	N	+	2	0	ABCC10	43520876	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	4.580000	0.60942	1.911000	0.55334	0.379000	0.24179	AAT		0.592	ABCC10-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040603.2	NM_033450		G	43412898	A	G	43412898	3	3	703	1	0	0	0	0	1	0	0	0	50	101	4	3	2838	3	ABCC10	6	43412898	Missense_Mutation	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	12720823	43412898	127702169	37	46233										
CD2AP	23607	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	47471115	47471115	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tgtgaaaaagctacaggaggAagggtggctggaaggagaac	17	4	0	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr6:47471115A>T	ENST00000359314.5	+	2	560	c.104A>T	c.(103-105)gAa>gTa	p.E35V		NM_012120.2	NP_036252.1	Q9Y5K6	CD2AP_HUMAN	CD2-associated protein	35	Interaction with ANLN and localization to the midbody.|SH3 1; truncated. {ECO:0000255|PROSITE- ProRule:PRU00192}.				mitotic nuclear division (GO:0007067)|negative regulation of transforming growth factor beta1 production (GO:0032911)|positive regulation of protein localization to nucleus (GO:1900182)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein complex assembly (GO:0006461)|regulation of actin cytoskeleton reorganization (GO:2000249)|regulation of receptor-mediated endocytosis (GO:0048259)|signal transduction (GO:0007165)|single organismal cell-cell adhesion (GO:0016337)|substrate-dependent cell migration, cell extension (GO:0006930)|vesicle organization (GO:0016050)	actin cytoskeleton (GO:0015629)|cell-cell junction (GO:0005911)|cytoplasm (GO:0005737)|endocytic vesicle (GO:0030139)|extracellular vesicular exosome (GO:0070062)|filamentous actin (GO:0031941)|perinuclear region of cytoplasm (GO:0048471)|plasma membrane (GO:0005886)|ruffle (GO:0001726)	SH3 domain binding (GO:0017124)|structural constituent of cytoskeleton (GO:0005200)			kidney(1)|large_intestine(9)|lung(5)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	20			Lung(136;0.105)|LUSC - Lung squamous cell carcinoma(51;0.138)			CTACAGGAGGAAGGGTGGCTG	0.378																																																0													139	134	135					6																	47471115		2203	4300	6503	SO:0001583	missense	23607			AF146277	CCDS34472.1	6p12	2008-02-05			ENSG00000198087	ENSG00000198087			14258	protein-coding gene	gene with protein product		604241				10339567	Standard	NM_012120		Approved	CMS	uc003oyw.3	Q9Y5K6	OTTHUMG00000014799	ENST00000359314.5:c.104A>T	6.37:g.47471115A>T	ENSP00000352264:p.Glu35Val	Somatic		WXS	Illumina HiSeq	Phase_I	A6NL34|Q5VYA3|Q9UG97	Missense_Mutation	SNP	ENST00000359314.5	37	CCDS34472.1	.	.	.	.	.	.	.	.	.	.	A	20.6	4.024553	0.75390	.	.	ENSG00000198087	ENST00000359314	T	0.54071	0.59	4.68	4.68	0.58851	Src homology-3 domain (4);	0.560263	0.21123	N	0.079786	T	0.63698	0.2533	M	0.75264	2.295	0.48452	D	0.999652	D	0.89917	1.0	D	0.83275	0.996	T	0.64935	-0.6290	10	0.38643	T	0.18	-17.8438	14.1476	0.65360	1.0:0.0:0.0:0.0	.	35	Q9Y5K6	CD2AP_HUMAN	V	35	ENSP00000352264:E35V	ENSP00000352264:E35V	E	+	2	0	CD2AP	47579074	1.000000	0.71417	1.000000	0.80357	0.990000	0.78478	6.530000	0.73816	1.735000	0.51646	0.533000	0.62120	GAA		0.378	CD2AP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040817.2			T	47471115	A	T	47471115	3	4	703	1	0	0	0	0	1	0	0	0	2996	246	9	5	110	5	CD2AP	6	47471115	Missense_Mutation	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	4058217	47471115	123643952	38	46234										
C6orf138	442213	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	48036108	48036108	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	agagctggcttttggactggTccagggggaaaaggctgctg	17	7	0	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr6:48036108T>C	ENST00000339488.4	-	1	317	c.284A>G	c.(283-285)gAc>gGc	p.D95G	PTCHD4_ENST00000543600.1_Missense_Mutation_p.D78G	NM_001013732.3	NP_001013754.3	Q6ZW05	PTHD4_HUMAN	patched domain containing 4	95						integral component of membrane (GO:0016021)	hedgehog receptor activity (GO:0008158)										TTTGGACTGGTCCAGGGGGAA	0.627																																																0													72	79	77					6																	48036108		1946	4139	6085	SO:0001583	missense	442213				CCDS34473.2	6p12.3	2012-02-06	2012-02-06	2012-02-06	ENSG00000244694	ENSG00000244694			21345	protein-coding gene	gene with protein product			"chromosome 6 open reading frame 138"	C6orf138			Standard	NM_001013732		Approved	dJ402H5.2, FLJ41841	uc011dwm.2	Q6ZW05	OTTHUMG00000150404	ENST00000339488.4:c.284A>G	6.37:g.48036108T>C	ENSP00000341914:p.Asp95Gly	Somatic		WXS	Illumina HiSeq	Phase_I	B0QZ29|B4DRK3|Q5T884	Missense_Mutation	SNP	ENST00000339488.4	37	CCDS34473.2	.	.	.	.	.	.	.	.	.	.	T	18.19	3.569479	0.65765	.	.	ENSG00000244694	ENST00000339488;ENST00000543600	D;T	0.92397	-3.03;0.62	4.88	4.88	0.63580	.	0.103230	0.64402	D	0.000006	D	0.91088	0.7195	L	0.51422	1.61	0.80722	D	1	P;D	0.67145	0.826;0.996	B;P	0.57620	0.438;0.824	D	0.90227	0.4276	10	0.34782	T	0.22	.	14.4665	0.67488	0.0:0.0:0.0:1.0	.	95;78	Q6ZW05;B0QZ29	CF138_HUMAN;.	G	95;78	ENSP00000341914:D95G;ENSP00000439864:D78G	ENSP00000341914:D95G	D	-	2	0	C6orf138	48144067	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.602000	0.82796	1.813000	0.52934	0.460000	0.39030	GAC		0.627	PTCHD4-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000317987.2	NM_001013732		C	48036108	T	C	48036108	3	2	703	1	0	0	0	0	1	0	0	0	2334	1667	58	3	2268	3	C6orf138	6	48036108	Missense_Mutation	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	564993	48036108	123078959	39	46235										
PKHD1	5314	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	51890186	51890186	+	Frame_Shift_Del	DEL	C	C	-													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	cttatgaaaagagtgcaattCccctgacactcgctggttag							TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr6:51890186delC	ENST00000371117.3	-	32	4697	c.4422delG	c.(4420-4422)gggfs	p.G1474fs	PKHD1_ENST00000340994.4_Frame_Shift_Del_p.G1474fs	NM_138694.3	NP_619639.3	P08F94	PKHD1_HUMAN	polycystic kidney and hepatic disease 1 (autosomal recessive)	1474	IPT/TIG 9.				cellular calcium ion homeostasis (GO:0006874)|cilium assembly (GO:0042384)|homeostatic process (GO:0042592)|kidney development (GO:0001822)|negative regulation of apoptotic process (GO:0043066)|negative regulation of cellular component movement (GO:0051271)|negative regulation of NF-kappaB transcription factor activity (GO:0032088)|negative regulation of protein kinase B signaling (GO:0051898)|positive regulation of cell proliferation (GO:0008284)|regulation of centrosome duplication (GO:0010824)|regulation of ERK1 and ERK2 cascade (GO:0070372)|regulation of TOR signaling (GO:0032006)|single organismal cell-cell adhesion (GO:0016337)	anchored component of external side of plasma membrane (GO:0031362)|apical plasma membrane (GO:0016324)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of membrane (GO:0016021)|mitotic spindle (GO:0072686)|perinuclear region of cytoplasm (GO:0048471)|primary cilium (GO:0072372)	receptor activity (GO:0004872)			NS(1)|autonomic_ganglia(1)|breast(8)|central_nervous_system(5)|cervix(1)|endometrium(16)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(59)|lung(139)|ovary(16)|prostate(8)|skin(20)|soft_tissue(1)|stomach(2)|upper_aerodigestive_tract(7)|urinary_tract(5)	304	Lung NSC(77;0.0605)					GAGTGCAATTCCCCTGACACT	0.542																																																0													57	52	54					6																	51890186		2203	4300	6503	SO:0001589	frameshift_variant	5314			AF480064	CCDS4935.1, CCDS4936.1	6p21.2-p12	2012-11-26	2003-04-16		ENSG00000170927	ENSG00000170927			9016	protein-coding gene	gene with protein product	"tigmin", "polyductin", "fibrocystin"	606702	"TIG multiple domains 1"	TIGM1		9503014	Standard	NM_138694		Approved	ARPKD, FCYT	uc003pah.1	P08F94	OTTHUMG00000014841	ENST00000371117.3:c.4422delG	6.37:g.51890186delC	ENSP00000360158:p.Gly1474fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUA2|Q5VUA3|Q5VWV1|Q86Z26|Q8TCZ9	Frame_Shift_Del	DEL	ENST00000371117.3	37	CCDS4935.1																																																																																				0.542	PKHD1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000040893.1	NM_138694		-	51890186	C	-	51890186	7	5	703	1	0	1	0	1	0	0	0	0	11978	842	30	0	7985	0	PKHD1	6	51890186	Frame_Shift_Del	DEL	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	3854078	51890186	119224881	40	46236										
LRRC1	55227	broad.mit.edu	37	chr6	53764574	53764575	+	Frame_Shift_Del	DEL	TT	TT	-													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	aatctgaagaacctgctgtgTttagatgtctctgaaaacag					rs550591899		TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr6:53764574_53764575delTT	ENST00000370888.1	+	8	949_950	c.672_673delTT	c.(670-675)tgtttafs	p.L225fs		NM_018214.4	NP_060684.4	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1	225						cytoplasm (GO:0005737)|membrane (GO:0016020)				cervix(1)|endometrium(3)|large_intestine(5)|lung(6)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	20	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		ACCTGCTGTGTTTAGATGTCTC	0.391																																																0																																										SO:0001589	frameshift_variant	55227			AF332199	CCDS4953.2	6p12.2	2014-07-30	2003-11-19		ENSG00000137269	ENSG00000137269			14307	protein-coding gene	gene with protein product		608195	"leucine-rich repeat-containing 1"				Standard	NM_018214		Approved	dJ523E19.1, LANO, FLJ10775, FLJ11834	uc003pcd.1	Q9BTT6	OTTHUMG00000014885	ENST00000370888.1:c.672_673delTT	6.37:g.53764574_53764575delTT	ENSP00000359925:p.Leu225fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q5TGN3|Q9HAC0|Q9NVF1	Frame_Shift_Del	DEL	ENST00000370888.1	37	CCDS4953.2																																																																																				0.391	LRRC1-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040970.2	NM_025168		-	53764575	TT	-	53764574	7	5	703	1	0	1	0	1	0	0	0	0	8973	1731	60	0	702	0	LRRC1	6	53764574	Frame_Shift_Del	DEL	TT	TCGA-Q2-A5QZ-01A-11D-A28G-10	1874388	53764574	117350493	41	46237										
ZNF451	26036	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr6	56989656	56989656	+	Splice_Site	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	agagaagaatagagcattcaGagtatgtgctattttaattg	10	3	1	4			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr6:56989656G>A	ENST00000370706.4	+	4	555	c.311G>A	c.(310-312)aGa>aAa	p.R104K	RP11-203B9.4_ENST00000586432.1_RNA|ZNF451_ENST00000357489.3_Splice_Site_p.R104K|RP11-203B9.4_ENST00000587815.1_RNA|ZNF451_ENST00000491832.2_Splice_Site_p.R104K|RP11-203B9.4_ENST00000586668.1_RNA|RP11-203B9.4_ENST00000416069.2_RNA|RP11-203B9.4_ENST00000586053.1_RNA|RP11-203B9.4_ENST00000591553.1_RNA|RP11-203B9.4_ENST00000585792.1_RNA|RP11-203B9.4_ENST00000588811.1_RNA|RP11-203B9.4_ENST00000592038.1_RNA|RP11-203B9.4_ENST00000592500.1_RNA	NM_001031623.2	NP_001026794.1	Q9Y4E5	ZN451_HUMAN	zinc finger protein 451	104					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)			central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(12)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	32	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			AGAGCATTCAGAGTATGTGCT	0.289																																																0													35	33	34					6																	56989656		2203	4298	6501	SO:0001630	splice_region_variant	26036			AB011148	CCDS4960.1, CCDS43477.1, CCDS59026.1	6p12.1	2012-08-08			ENSG00000112200	ENSG00000112200		"Zinc fingers, C2H2-type"	21091	protein-coding gene	gene with protein product		615708				9628581	Standard	NM_001031623		Approved	KIAA0576, COASTER, dJ417I1.1, KIAA1702	uc003pdm.2	Q9Y4E5	OTTHUMG00000014916	ENST00000370706.4:c.312+1G>A	6.37:g.56989656G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5VVE9|Q5VVF1|Q86YE4|Q8N380|Q8TD15|Q9C0G1|Q9NQM1	Missense_Mutation	SNP	ENST00000370706.4	37	CCDS43477.1	.	.	.	.	.	.	.	.	.	.	G	10.81	1.456326	0.26161	.	.	ENSG00000112200	ENST00000510483;ENST00000370706;ENST00000357489;ENST00000491832	T;T;T;T	0.05996	3.36;3.36;3.36;3.36	5.37	5.37	0.77165	.	0.061002	0.64402	D	0.000003	T	0.01156	0.0038	N	0.17082	0.46	0.80722	D	1	B;B;B;B	0.20887	0.049;0.037;0.027;0.037	B;B;B;B	0.15484	0.013;0.008;0.008;0.008	T	0.43360	-0.9396	10	0.06625	T	0.88	-16.7164	7.7021	0.28630	0.2013:0.0:0.7987:0.0	.	104;104;104;104	Q9Y4E5-2;Q9Y4E5;E9PH99;Q4KMR5	.;ZN451_HUMAN;.;.	K	76;104;104;104	ENSP00000427558:R76K;ENSP00000359740:R104K;ENSP00000350083:R104K;ENSP00000421645:R104K	ENSP00000350083:R104K	R	+	2	0	ZNF451	57097615	1.000000	0.71417	1.000000	0.80357	0.804000	0.45430	4.870000	0.63035	2.665000	0.90641	0.655000	0.94253	AGA		0.289	ZNF451-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041035.2	NM_015555	Missense_Mutation	A	56989656	G	A	56989656	5	1	703	1	0	0	0	0	0	0	1	0	17934	956	33	2	325	2	ZNF451	6	56989656	Splice_Site	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	3225082	56989656	114125411	42	46238										
PHF3	23469	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	64394128	64394128	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ctgggaagactgtatctactGctaaagcaggagtgaaacaa	11	7	1	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr6:64394128G>A	ENST00000262043.3	+	4	845	c.505G>A	c.(505-507)Gct>Act	p.A169T	PHF3_ENST00000393387.1_Missense_Mutation_p.A169T|PHF3_ENST00000509330.1_Missense_Mutation_p.A169T			Q92576	PHF3_HUMAN	PHD finger protein 3	169					multicellular organismal development (GO:0007275)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	zinc ion binding (GO:0008270)			breast(7)|cervix(2)|endometrium(8)|kidney(7)|large_intestine(18)|lung(21)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(6)	75	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)			TGTATCTACTGCTAAAGCAGG	0.418																																					GBM(135;136 1820 29512 34071 46235)											0													176	182	180					6																	64394128		2203	4300	6503	SO:0001583	missense	23469			AF091622	CCDS4966.1	6q12	2013-09-24			ENSG00000118482	ENSG00000118482		"Zinc fingers, PHD-type"	8921	protein-coding gene	gene with protein product		607789				11856869	Standard	XM_005248701		Approved		uc003pep.1	Q92576	OTTHUMG00000014952	ENST00000262043.3:c.505G>A	6.37:g.64394128G>A	ENSP00000262043:p.Ala169Thr	Somatic		WXS	Illumina HiSeq	Phase_I	A3KFI8|Q14CR5|Q5CZI1|Q5T1T6|Q9NQ16|Q9UI45	Missense_Mutation	SNP	ENST00000262043.3	37	CCDS4966.1	.	.	.	.	.	.	.	.	.	.	G	7.135	0.580718	0.13686	.	.	ENSG00000118482	ENST00000481385;ENST00000262043;ENST00000494284;ENST00000509330;ENST00000393387;ENST00000514822	T;T;T;T;T	0.41758	2.0;2.31;1.99;0.99;2.31	5.92	2.2	0.27929	.	1.243890	0.06006	N	0.648726	T	0.05686	0.0149	N	0.03608	-0.345	0.09310	N	0.999998	B;B	0.02656	0.0;0.0	B;B	0.01281	0.0;0.0	T	0.29941	-0.9995	10	0.21540	T	0.41	-2.6584	2.9393	0.05825	0.1274:0.5534:0.1251:0.1941	.	169;169	Q92576;D6R9X2	PHF3_HUMAN;.	T	81;169;122;169;169;99	ENSP00000425227:A81T;ENSP00000262043:A169T;ENSP00000424078:A122T;ENSP00000422841:A169T;ENSP00000377048:A169T	ENSP00000262043:A169T	A	+	1	0	PHF3	64452087	0.066000	0.20996	0.643000	0.29450	0.707000	0.40811	0.935000	0.28924	0.120000	0.18254	-0.139000	0.14373	GCT		0.418	PHF3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041086.2			A	64394128	G	A	64394128	3	1	703	1	0	0	0	0	1	0	0	0	11843	1319	46	2	515	2	PHF3	6	64394128	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	7404472	64394128	106720939	43	46239										
IBTK	25998	hgsc.bcm.edu;broad.mit.edu	37	chr6	82883139	82883139	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gttgccttctggtcctggggTaccatgggtagagcatctgc	14	10	2	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr6:82883139T>C	ENST00000306270.7	-	27	4291	c.3742A>G	c.(3742-3744)Acc>Gcc	p.T1248A	IBTK_ENST00000503631.1_Missense_Mutation_p.T1047A|IBTK_ENST00000510291.1_Missense_Mutation_p.T1233A	NM_015525.2	NP_056340.2	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton agammaglobulinemia tyrosine kinase	1248					negative regulation of protein phosphorylation (GO:0001933)|negative regulation of protein tyrosine kinase activity (GO:0061099)|release of sequestered calcium ion into cytosol (GO:0051209)	cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	protein kinase binding (GO:0019901)|protein tyrosine kinase inhibitor activity (GO:0030292)			central_nervous_system(2)|endometrium(9)|kidney(3)|large_intestine(10)|lung(19)|ovary(3)|pancreas(1)|prostate(2)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	54		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		GGTCCTGGGGTACCATGGGTA	0.373																																																0													126	126	126					6																	82883139		2203	4300	6503	SO:0001583	missense	25998			AF235049	CCDS34490.1, CCDS75486.1	6q14.3	2013-01-10	2003-10-06	2003-10-08	ENSG00000005700	ENSG00000005700		"BTB/POZ domain containing", "Ankyrin repeat domain containing"	17853	protein-coding gene	gene with protein product		606457	"Bruton agammaglobulinemia tyrosine kinase inhibitor"	BTKI		11577348	Standard	XM_006715453		Approved	DKFZP564B116, BTBD26	uc003pjl.1	Q9P2D0	OTTHUMG00000015102	ENST00000306270.7:c.3742A>G	6.37:g.82883139T>C	ENSP00000305721:p.Thr1248Ala	Somatic		WXS	Illumina HiSeq	Phase_I	Q2QKU2|Q2QKU3|Q2QKU4|Q5TFD7|Q5TFD9|Q8IUQ9|Q8IUY7|Q8TAI4|Q9HBI8|Q9Y3T8	Missense_Mutation	SNP	ENST00000306270.7	37	CCDS34490.1	.	.	.	.	.	.	.	.	.	.	T	0.007	-1.994795	0.00435	.	.	ENSG00000005700	ENST00000306270;ENST00000503631;ENST00000510291	T;T;T	0.26518	2.06;1.73;2.06	5.41	0.249	0.15531	.	0.949376	0.08860	N	0.883161	T	0.06826	0.0174	L	0.46157	1.445	0.09310	N	1	B;B;B;B	0.13145	0.007;0.0;0.004;0.0	B;B;B;B	0.15484	0.007;0.0;0.013;0.0	T	0.42207	-0.9465	10	0.22109	T	0.4	1.4624	5.9681	0.19336	0.1213:0.1927:0.0:0.686	.	1047;1233;199;1248	E9PDR5;E7EPI0;B3KX60;Q9P2D0	.;.;.;IBTK_HUMAN	A	1248;1047;1233	ENSP00000305721:T1248A;ENSP00000422762:T1047A;ENSP00000426405:T1233A	ENSP00000305721:T1248A	T	-	1	0	IBTK	82939858	0.180000	0.23148	0.001000	0.08648	0.009000	0.06853	1.043000	0.30316	-0.339000	0.08401	-1.937000	0.00501	ACC		0.373	IBTK-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000041337.2	NM_015525		C	82883139	T	C	82883139	3	2	703	1	0	0	0	0	1	0	0	0	7483	1638	57	3	331	3	IBTK	6	82883139	Missense_Mutation	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	18489011	82883139	88231928	44	46240										
MAP3K5	4217	hgsc.bcm.edu	37	chr6	137113272	137113272	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ggtggcacagagaaagtgatGccctcgtccgcctccgtgct	13	13	0	2	rs142989545	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr6:137113272G>A	ENST00000359015.4	-	1	384	c.24C>T	c.(22-24)ggC>ggT	p.G8G		NM_005923.3	NP_005914.1	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase 5	8					activation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0006919)|activation of JUN kinase activity (GO:0007257)|activation of MAPKK activity (GO:0000186)|apoptotic signaling pathway (GO:0097190)|cellular response to hydrogen peroxide (GO:0070301)|cellular response to reactive nitrogen species (GO:1902170)|innate immune response (GO:0045087)|intrinsic apoptotic signaling pathway in response to oxidative stress (GO:0008631)|JNK cascade (GO:0007254)|MAPK cascade (GO:0000165)|positive regulation of apoptotic process (GO:0043065)|positive regulation of cysteine-type endopeptidase activity involved in apoptotic process (GO:0043280)|positive regulation of neuron death (GO:1901216)|programmed necrotic cell death (GO:0097300)|protein phosphorylation (GO:0006468)|response to ischemia (GO:0002931)|viral process (GO:0016032)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|protein kinase complex (GO:1902911)	ATP binding (GO:0005524)|cysteine-type endopeptidase activator activity involved in apoptotic process (GO:0008656)|magnesium ion binding (GO:0000287)|MAP kinase kinase kinase activity (GO:0004709)|protein homodimerization activity (GO:0042803)|protein kinase activity (GO:0004672)|protein phosphatase binding (GO:0019903)			NS(1)|breast(1)|cervix(1)|endometrium(8)|kidney(6)|large_intestine(6)|lung(24)|ovary(2)|prostate(1)|skin(4)|urinary_tract(4)	58	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		AGAAAGTGATGCCCTCGTCCG	0.751													G|||	47	0.00938498	0.0325	0.0058	5008	,	,		8970	0.0		0.0	False		,,,				2504	0.0															0								G		74,3452		1,72,1690	4	5	5		24	3.8	1	6	dbSNP_134	5	2,6840		0,2,3419	no	coding-synonymous	MAP3K5	NM_005923.3		1,74,5109	AA,AG,GG		0.0292,2.0987,0.733		8/1375	137113272	76,10292	1763	3421	5184	SO:0001819	synonymous_variant	4217			U67156	CCDS5179.1	6q22.33	2011-06-09			ENSG00000197442	ENSG00000197442		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6857	protein-coding gene	gene with protein product	"apoptosis signal regulating kinase 1"	602448		MEKK5		9465908	Standard	NM_005923		Approved	MAPKKK5, ASK1	uc003qhc.3	Q99683	OTTHUMG00000015647	ENST00000359015.4:c.24C>T	6.37:g.137113272G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6NIA0|B4DGB2|Q5THN3|Q99461	Silent	SNP	ENST00000359015.4	37	CCDS5179.1																																																																																				0.751	MAP3K5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000042383.1			A	137113272	G	A	137113272	2	1	703	1	0	0	0	0	0	0	0	1	9260	1306	46	2		2	MAP3K5	6	137113272	Silent	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	54230133	137113272	34001795	45	46241										
GPR126	57211	broad.mit.edu	37	chr6	142741042	142741042	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tttctgaacattgccatgttCattgtggtaatggtgcagat	10	6	2	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr6:142741042C>T	ENST00000230173.6	+	22	3596	c.3120C>T	c.(3118-3120)ttC>ttT	p.F1040F	GPR126_ENST00000296932.8_Silent_p.F1012F|GPR126_ENST00000367608.2_Silent_p.F1012F|GPR126_ENST00000367609.3_Silent_p.F1040F	NM_020455.5	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126	1040					G-protein coupled receptor signaling pathway (GO:0007186)|neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			cervix(1)|endometrium(1)|kidney(3)|large_intestine(12)|lung(10)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(3)	36	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		TTGCCATGTTCATTGTGGTAA	0.428																																																0													259	237	244					6																	142741042		1927	4143	6070	SO:0001819	synonymous_variant	57211			AK027843	CCDS47489.1, CCDS47490.1, CCDS47491.1, CCDS55064.1	6q23.1-q24.3	2014-08-08			ENSG00000112414	ENSG00000112414		"-", "GPCR / Class B : Orphans"	13841	protein-coding gene	gene with protein product		612243				12565841	Standard	NM_001032395		Approved	FLJ14937	uc010khe.3	Q86SQ4	OTTHUMG00000015709	ENST00000230173.6:c.3120C>T	6.37:g.142741042C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q5TGN7|Q6DHZ4|Q6F3F5|Q6F3F6|Q6F3F7|Q6F3F8|Q6MZU7|Q8IXA4|Q8NC14|Q96JW0	Silent	SNP	ENST00000230173.6	37	CCDS47490.1																																																																																				0.428	GPR126-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000042487.2			T	142741042	C	T	142741042	2	4	703	1	0	0	0	0	0	0	0	1	6647	825	29	2		2	GPR126	6	142741042	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	5627770	142741042	28374025	46	46242										
MAP3K4	4216	hgsc.bcm.edu	37	chr6	161413041	161413041	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gccgccatggaggagccgccGccaccgccgccgccgccacc	13	22	0	0	rs78823261	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr6:161413041G>A	ENST00000392142.4	+	1	226	c.78G>A	c.(76-78)ccG>ccA	p.P26P	MAP3K4_ENST00000366920.2_Silent_p.P26P|MAP3K4_ENST00000348824.7_Silent_p.P26P|RP3-428L16.2_ENST00000608721.1_RNA|MAP3K4_ENST00000366919.2_Silent_p.P26P	NM_005922.2	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	26	Poly-Pro.				activation of MAPKK activity (GO:0000186)|chorionic trophoblast cell differentiation (GO:0060718)|intracellular signal transduction (GO:0035556)|male germ-line sex determination (GO:0019100)|MAPK cascade (GO:0000165)|placenta development (GO:0001890)|positive regulation of JUN kinase activity (GO:0043507)|positive regulation of p38MAPK cascade (GO:1900745)|regulation of gene expression (GO:0010468)|response to UV-C (GO:0010225)	cytoplasm (GO:0005737)	ATP binding (GO:0005524)|MAP kinase kinase kinase activity (GO:0004709)|metal ion binding (GO:0046872)			breast(6)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(20)|lung(28)|ovary(3)|skin(2)|stomach(1)	77		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)		AGGAgccgccgccaccgccgc	0.741													G|||	94	0.01877	0.0303	0.0202	5008	,	,		9039	0.004		0.0129	False		,,,				2504	0.0235															0													2	4	3					6																	161413041		1452	3068	4520	SO:0001819	synonymous_variant	4216			AF002715	CCDS34565.1, CCDS34566.1, CCDS75544.1	6q26	2012-10-02			ENSG00000085511	ENSG00000085511		"Mitogen-activated protein kinase cascade / Kinase kinase kinases"	6856	protein-coding gene	gene with protein product		602425		MEKK4		9305639	Standard	XM_005266988		Approved	MTK1, MAPKKK4, KIAA0213	uc003qtn.3	Q9Y6R4	OTTHUMG00000015968	ENST00000392142.4:c.78G>A	6.37:g.161413041G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A6H8W0|B7ZLD3|B9EG75|Q5VTT8|Q5VTT9|Q92612|Q9H408	Silent	SNP	ENST00000392142.4	37	CCDS34565.1																																																																																				0.741	MAP3K4-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000042988.3			A	161413041	G	A	161413041	2	1	703	1	0	0	0	0	0	0	0	1	9259	1074	38	1		1	MAP3K4	6	161413041	Silent	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	18671999	161413041	9702026	47	46243										
UNC93A	54346	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr6	167709627	167709627	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	aaacacacatgcagagaaggCgggaaagcgtggcaaagaca	13	8	0	2	rs538293568		TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr6:167709627C>T	ENST00000230256.3	+	3	552	c.377C>T	c.(376-378)gCg>gTg	p.A126V	UNC93A_ENST00000366830.2_3'UTR|UNC93A_ENST00000366829.2_Missense_Mutation_p.A126V	NM_018974.3	NP_061847.2	Q86WB7	UN93A_HUMAN	unc-93 homolog A (C. elegans)	126						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)				breast(2)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(7)|lung(20)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)	40		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		GCAGAGAAGGCGGGAAAGCGT	0.547													C|||	1	0.000199681	0.0	0.0	5008	,	,		22340	0.001		0.0	False		,,,				2504	0.0															0													224	203	210					6																	167709627		2203	4300	6503	SO:0001583	missense	54346			AJ508812	CCDS5300.1, CCDS47515.1	6q27	2014-05-16	2001-11-28		ENSG00000112494	ENSG00000112494			12570	protein-coding gene	gene with protein product		607995	"unc93 (C.elegans) homolog A"			12381271	Standard	NM_001143947		Approved	dJ366N23.2, dJ366N23.1	uc003qvq.3	Q86WB7	OTTHUMG00000016021	ENST00000230256.3:c.377C>T	6.37:g.167709627C>T	ENSP00000230256:p.Ala126Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3KRP5|Q4QQJ4|Q5JZD6	Missense_Mutation	SNP	ENST00000230256.3	37	CCDS5300.1	.	.	.	.	.	.	.	.	.	.	C	5.524	0.281564	0.10458	.	.	ENSG00000112494	ENST00000503433;ENST00000230256;ENST00000366829	T;T;T	0.30981	1.51;3.54;3.52	5.53	-3.43	0.04810	Major facilitator superfamily domain, general substrate transporter (1);	1.006790	0.07968	N	0.983528	T	0.04634	0.0126	N	0.17723	0.515	0.09310	N	1	B;B	0.16166	0.016;0.006	B;B	0.13407	0.009;0.009	T	0.37244	-0.9714	10	0.25106	T	0.35	-1.2474	4.3328	0.11071	0.3325:0.2722:0.0:0.3953	.	126;126	Q4QQJ4;Q86WB7	.;UN93A_HUMAN	V	126	ENSP00000421484:A126V;ENSP00000230256:A126V;ENSP00000355794:A126V	ENSP00000230256:A126V	A	+	2	0	UNC93A	167629617	0.020000	0.18652	0.000000	0.03702	0.018000	0.09664	1.103000	0.31062	-1.274000	0.02421	-0.890000	0.02929	GCG		0.547	UNC93A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043125.2	NM_018974		T	167709627	C	T	167709627	3	4	703	1	0	0	0	0	1	0	0	0	17008	768	27	1	387	1	UNC93A	6	167709627	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	6296586	167709627	3405440	48	46244										
PDCD2	5134	hgsc.bcm.edu	37	chr6	170893454	170893454	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	atgcagcggtggaaggcgtcCgggcggccaggcagcggcgc	20	12	0	0	rs200023629	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr6:170893454C>T	ENST00000541970.1	-	1	294	c.216G>A	c.(214-216)ccG>ccA	p.P72P	PDCD2_ENST00000542896.1_Silent_p.P72P|PDCD2_ENST00000392090.2_Silent_p.P39P|PDCD2_ENST00000453163.2_Silent_p.P72P|PDCD2_ENST00000443345.2_Silent_p.P39P|PDCD2_ENST00000537445.1_Silent_p.P39P	NM_001199462.1|NM_002598.3	NP_001186391.1|NP_002589.2	Q16342	PDCD2_HUMAN	programmed cell death 2	72					apoptotic process (GO:0006915)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	DNA binding (GO:0003677)|enzyme binding (GO:0019899)|metal ion binding (GO:0046872)			breast(1)|endometrium(2)|large_intestine(1)|lung(5)	9		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|BRCA - Breast invasive adenocarcinoma(81;4.82e-06)|GBM - Glioblastoma multiforme(31;0.142)		GGAAGGCGTCCGGGCGGCCAG	0.751													.|||	27	0.00539137	0.0204	0.0	5008	,	,		10592	0.0		0.0	False		,,,				2504	0.0				Colon(60;1476 1726 39478)											0								C	,,,,,	21,3659		0,21,1819	13	15	14		216,117,117,117,216,216	-6.7	0	6		14	0,7658		0,0,3829	no	coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous,coding-synonymous	PDCD2	NM_001199461.1,NM_001199462.1,NM_001199463.1,NM_001199464.1,NM_002598.3,NM_144781.2	,,,,,	0,21,5648	TT,TC,CC		0.0,0.5707,0.1852	,,,,,	72/222,39/312,39/196,39/189,72/345,72/229	170893454	21,11317	1840	3829	5669	SO:0001819	synonymous_variant	5134			AJ420535	CCDS5316.1, CCDS47521.1, CCDS56460.1, CCDS56461.1, CCDS56462.1, CCDS75557.1	6q27	2008-02-05			ENSG00000071994	ENSG00000071994		"Zinc fingers, MYND-type"	8762	protein-coding gene	gene with protein product		600866				7606924	Standard	NM_002598		Approved	ZMYND7, RP8	uc003qxw.3	Q16342	OTTHUMG00000016083	ENST00000541970.1:c.216G>A	6.37:g.170893454C>T		Somatic		WXS	Illumina HiSeq	Phase_I	E9PCU7|F5GYS7|Q58HM9|Q58HN0|Q9UH12	Silent	SNP	ENST00000541970.1	37	CCDS5316.1																																																																																				0.751	PDCD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000043269.2	NM_002598		T	170893454	C	T	170893454	2	4	703	1	0	0	0	0	0	0	0	1	11626	639	23	1		1	PDCD2	6	170893454	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	3183827	170893454	221613	49	46245										
AGR3	155465	broad.mit.edu	37	chr7	16901068	16901068	+	Frame_Shift_Del	DEL	C	C	-													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	taaattcttatcagtggtttCatgctagcaggagaagaaaa							TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr7:16901068delC	ENST00000310398.2	-	6	377	c.307delG	c.(307-309)gaafs	p.E103fs	AGR3_ENST00000402239.3_Frame_Shift_Del_p.E103fs	NM_176813.3	NP_789783.1	Q8TD06	AGR3_HUMAN	anterior gradient 3	103						extracellular region (GO:0005576)	dystroglycan binding (GO:0002162)			central_nervous_system(1)|kidney(8)|lung(2)|skin(1)|stomach(1)	13	Lung NSC(10;0.0376)|all_lung(11;0.0721)|all_epithelial(12;0.202)			UCEC - Uterine corpus endometrioid carcinoma (126;0.184)		TCAGTGGTTTCATGCTAGCAG	0.323																																																0													110	109	109					7																	16901068		2203	4295	6498	SO:0001589	frameshift_variant	155465			AY069977	CCDS5365.1	7p21.1	2013-07-31	2013-07-31		ENSG00000173467	ENSG00000173467		"Protein disulfide isomerases"	24167	protein-coding gene	gene with protein product	"breast cancer membrane protein 11", "protein disulfide isomerase family A, member 18"	609482	"anterior gradient 3 homolog (Xenopus laevis)"			12592373, 12477722	Standard	NM_176813		Approved	HAG3, hAG-3, BCMP11, PDIA18	uc003sts.3	Q8TD06	OTTHUMG00000128411	ENST00000310398.2:c.307delG	7.37:g.16901068delC	ENSP00000308606:p.Glu103fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4D120	Frame_Shift_Del	DEL	ENST00000310398.2	37	CCDS5365.1																																																																																				0.323	AGR3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250191.2	NM_176813		-	16901068	C	-	16901068	7	5	703	1	0	1	0	1	0	0	0	0	396	835	29	0	205	0	AGR3	7	16901068	Frame_Shift_Del	DEL	C	TCGA-Q2-A5QZ-01A-11D-A28G-10		16901068	142237595	50	46246										
TRA2A	29896	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	23547073	23547073	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	catgtagatgcctggtgttgGtgtgtgcgctctcttggtta	14	7	1	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr7:23547073G>A	ENST00000297071.4	-	5	823	c.607C>T	c.(607-609)Cca>Tca	p.P203S	TRA2A_ENST00000474586.1_5'UTR|TRA2A_ENST00000392502.4_Missense_Mutation_p.P102S|TRA2A_ENST00000538367.1_Missense_Mutation_p.P102S	NM_013293.3	NP_037425.1	Q13595	TRA2A_HUMAN	transformer 2 alpha homolog (Drosophila)	203	Linker.				mRNA splicing, via spliceosome (GO:0000398)	intracellular membrane-bounded organelle (GO:0043231)|nucleolus (GO:0005730)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			endometrium(1)|large_intestine(1)|lung(6)|ovary(1)|prostate(1)	10						CCTGGTGTTGGTGTGTGCGCT	0.413																																					Pancreas(121;2137 2973 46590)											0													249	237	241					7																	23547073		2203	4300	6503	SO:0001583	missense	29896			U53209	CCDS5383.1, CCDS64609.1, CCDS75569.1	7p15.3	2014-02-12			ENSG00000164548	ENSG00000164548		"RNA binding motif (RRM) containing"	16645	protein-coding gene	gene with protein product		602718				8799144, 9546399	Standard	XM_005249725		Approved	htra-2-alpha, tra2a, AWMS1	uc003swi.3	Q13595	OTTHUMG00000128459	ENST00000297071.4:c.607C>T	7.37:g.23547073G>A	ENSP00000297071:p.Pro203Ser	Somatic		WXS	Illumina HiSeq	Phase_I	B4DUA9	Missense_Mutation	SNP	ENST00000297071.4	37	CCDS5383.1	.	.	.	.	.	.	.	.	.	.	G	34	5.300909	0.95601	.	.	ENSG00000164548	ENST00000297071;ENST00000392502;ENST00000538367	T;T;T	0.74106	-0.81;-0.81;-0.81	5.52	5.52	0.82312	.	0.000000	0.85682	D	0.000000	D	0.87293	0.6141	M	0.88906	2.99	0.80722	D	1	D	0.55800	0.973	P	0.58577	0.841	D	0.88826	0.3302	10	0.59425	D	0.04	-12.1484	19.5178	0.95171	0.0:0.0:1.0:0.0	.	203	Q13595	TRA2A_HUMAN	S	203;102;102	ENSP00000297071:P203S;ENSP00000376290:P102S;ENSP00000441116:P102S	ENSP00000297071:P203S	P	-	1	0	TRA2A	23513598	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	9.831000	0.99420	2.615000	0.88500	0.650000	0.86243	CCA		0.413	TRA2A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250257.1	NM_013293		A	23547073	G	A	23547073	3	1	703	1	0	0	0	0	1	0	0	0	16445	1261	44	2	257	2	TRA2A	7	23547073	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	6646005	23547073	135591590	51	46247										
VWC2	375567	hgsc.bcm.edu	37	chr7	49815181	49815181	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ggccaggagaagcgtgagcaCgcctctcgggacggcccggg	18	13	1	2	rs201551578	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr7:49815181C>T	ENST00000340652.4	+	2	706	c.150C>T	c.(148-150)caC>caT	p.H50H		NM_198570.3	NP_940972.2	Q2TAL6	VWC2_HUMAN	von Willebrand factor C domain containing 2	50					negative regulation of BMP signaling pathway (GO:0030514)|positive regulation of cell-substrate adhesion (GO:0010811)|positive regulation of neuron differentiation (GO:0045666)	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex (GO:0032281)|basement membrane (GO:0005604)|cell junction (GO:0030054)|extracellular space (GO:0005615)|interstitial matrix (GO:0005614)|synapse (GO:0045202)				cervix(1)|endometrium(2)|large_intestine(1)|lung(3)|prostate(1)	8						AGCGTGAGCACGCCTCTCGGG	0.726													C|||	32	0.00638978	0.0227	0.0029	5008	,	,		8632	0.0		0.0	False		,,,				2504	0.0															0								C		89,4175		1,87,2044	9	8	8		150	4.8	1	7		8	3,8303		0,3,4150	no	coding-synonymous	VWC2	NM_198570.3		1,90,6194	TT,TC,CC		0.0361,2.0872,0.7319		50/326	49815181	92,12478	2132	4153	6285	SO:0001819	synonymous_variant	375567			AY358393	CCDS5508.1	7p12.3-p12.2	2007-07-19			ENSG00000188730	ENSG00000188730			30200	protein-coding gene	gene with protein product	"brorin", "brain-specific chordin-like"	611108				17400546	Standard	NM_198570		Approved	PSST739, UNQ739	uc003tot.1	Q2TAL6	OTTHUMG00000129265	ENST00000340652.4:c.150C>T	7.37:g.49815181C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6UXE2	Silent	SNP	ENST00000340652.4	37	CCDS5508.1																																																																																				0.726	VWC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251375.2	NM_198570		T	49815181	C	T	49815181	2	4	703	1	0	0	0	0	0	0	0	1	17255	535	19	1		1	VWC2	7	49815181	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	26268108	49815181	109323482	52	46248										
KIAA1324L	222223	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	86577110	86577110	+	Frame_Shift_Del	DEL	A	A	-													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	catgaatgttgcgatgttagAaaatcctgccggcaattcat					rs536741266		TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr7:86577110delA	ENST00000450689.2	-	3	624	c.439delT	c.(439-441)tctfs	p.S147fs	KIAA1324L_ENST00000444627.1_Frame_Shift_Del_p.S147fs|KIAA1324L_ENST00000416314.1_Intron	NM_001142749.2	NP_001136221.1	A8MWY0	K132L_HUMAN	KIAA1324-like	147						integral component of membrane (GO:0016021)				breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(11)|lung(14)|ovary(6)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)	44	Esophageal squamous(14;0.0058)					GCGATGTTAGAAAATCCTGCC	0.473																																																0													124	101	108					7																	86577110		692	1591	2283	SO:0001589	frameshift_variant	222223			AK055902	CCDS34677.1, CCDS47632.1, CCDS34677.2	7q21.12	2008-09-18			ENSG00000164659	ENSG00000164659			21945	protein-coding gene	gene with protein product	"EIG121-like"	614048					Standard	NM_001142749		Approved	FLJ31340, EIG121L	uc011kha.2	A8MWY0	OTTHUMG00000153995	ENST00000450689.2:c.439delT	7.37:g.86577110delA	ENSP00000413445:p.Ser147fs	Somatic		WXS	Illumina HiSeq	Phase_I	A4D1C9|B4DJV3|Q17RI6|Q96DP2	Frame_Shift_Del	DEL	ENST00000450689.2	37	CCDS47632.1																																																																																				0.473	KIAA1324L-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000333372.3	NM_152748		-	86577110	A	-	86577110	7	5	703	1	0	1	0	1	0	0	0	0	8231	246	9	0	2730	0	KIAA1324L	7	86577110	Frame_Shift_Del	DEL	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	36761929	86577110	72561553	53	46249										
ARPC1B	10095	hgsc.bcm.edu	37	chr7	98990335	98990335	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ctgttcacctatgacgccgcCgcggggatgctgagcttcgg	14	13	1	2	rs530272604	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr7:98990335C>T	ENST00000451682.1	+	10	1134	c.825C>T	c.(823-825)gcC>gcT	p.A275A	PDAP1_ENST00000496335.1_5'UTR|ARPC1B_ENST00000252725.5_Silent_p.A275A			O15143	ARC1B_HUMAN	actin related protein 2/3 complex, subunit 1B, 41kDa	275					Arp2/3 complex-mediated actin nucleation (GO:0034314)|cellular component movement (GO:0006928)	actin cytoskeleton (GO:0015629)|Arp2/3 protein complex (GO:0005885)|cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)	structural constituent of cytoskeleton (GO:0005200)			central_nervous_system(1)|endometrium(2)|large_intestine(5)|liver(2)|lung(1)	11	all_cancers(62;3.49e-09)|all_epithelial(64;2.57e-10)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)		STAD - Stomach adenocarcinoma(171;0.215)			ATGACGCCGCCGCGGGGATGC	0.697													C|||	4	0.000798722	0.003	0.0	5008	,	,		13061	0.0		0.0	False		,,,				2504	0.0															0													4	5	4					7																	98990335		1777	3378	5155	SO:0001819	synonymous_variant	10095			AF006084	CCDS5661.1	7q22.1	2013-03-14	2002-08-29		ENSG00000130429	ENSG00000130429		"Actin related protein 2/3 complex subunits", "WD repeat domain containing"	704	protein-coding gene	gene with protein product	"ARP2/3 protein complex subunit p41", "actin related protein 2/3 complex, subunit 1A (41 kD)"	604223	"actin related protein 2/3 complex, subunit 1B (41 kD)"			9230079, 9359840	Standard	NM_005720		Approved	ARC41, p40-ARC, p41-ARC	uc003upz.3	O15143	OTTHUMG00000154552	ENST00000451682.1:c.825C>T	7.37:g.98990335C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BU00	Silent	SNP	ENST00000451682.1	37	CCDS5661.1																																																																																				0.697	ARPC1B-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335894.1	NM_005720		T	98990335	C	T	98990335	2	4	703	1	0	0	0	0	0	0	0	1	970	639	23	1		1	ARPC1B	7	98990335	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	12413225	98990335	60148328	54	46250										
OPN1SW	611	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	128415147	128415147	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	aagcggaagttgccgaagggCttacagatgacaatgtagcg	14	7	0	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr7:128415147C>T	ENST00000249389.2	-	2	413	c.414G>A	c.(412-414)aaG>aaA	p.K138K		NM_001708.2	NP_001699.1	P03999	OPSB_HUMAN	opsin 1 (cone pigments), short-wave-sensitive	138					phototransduction (GO:0007602)|phototransduction, visible light (GO:0007603)|protein-chromophore linkage (GO:0018298)|retinoid metabolic process (GO:0001523)|signal transduction (GO:0007165)|visual perception (GO:0007601)	integral component of plasma membrane (GO:0005887)|photoreceptor outer segment membrane (GO:0042622)	G-protein coupled receptor activity (GO:0004930)|photoreceptor activity (GO:0009881)|receptor activity (GO:0004872)			NS(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(10)|stomach(1)	19						TGCCGAAGGGCTTACAGATGA	0.547																																																0													96	75	82					7																	128415147		2203	4300	6503	SO:0001819	synonymous_variant	611			U53874	CCDS5806.1	7q31.3-q32	2013-01-08	2008-04-16		ENSG00000128617	ENSG00000128617		"GPCR / Class A : Opsin receptors"	1012	protein-coding gene	gene with protein product	"color blindness, tritan", "blue-sensitive opsin"	613522	"blue cone photoreceptor pigment"	BCP		2937147, 8270261	Standard	NM_001708		Approved	BOP, CBT	uc003vnt.4	P03999	OTTHUMG00000158311	ENST00000249389.2:c.414G>A	7.37:g.128415147C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q13877	Silent	SNP	ENST00000249389.2	37	CCDS5806.1																																																																																				0.547	OPN1SW-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000350655.1	NM_001708		T	128415147	C	T	128415147	2	4	703	1	0	0	0	0	0	0	0	1	10887	796	28	2		2	OPN1SW	7	128415147	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	29424812	128415147	30723516	55	46251										
CLEC2L	154790	hgsc.bcm.edu	37	chr7	139208786	139208786	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ttcgcccgcagaggctgaggCccgcggccccgaggggctgc	17	16	0	2	rs111447865	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr7:139208786C>A	ENST00000422142.2	+	1	185	c.113C>A	c.(112-114)gCc>gAc	p.A38D		NM_001080511.2	NP_001073980.2	P0C7M8	CLC2L_HUMAN	C-type lectin domain family 2, member L	38						integral component of membrane (GO:0016021)	carbohydrate binding (GO:0030246)			NS(1)|endometrium(1)|kidney(2)|lung(1)	5	Melanoma(164;0.233)					GAGGCTGAGGCCCGCGGCCCC	0.831													C|||	64	0.0127796	0.0454	0.0043	5008	,	,		4163	0.0		0.001	False		,,,				2504	0.0															0													1	3	2					7																	139208786		285	1021	1306	SO:0001583	missense	154790			AK057548	CCDS47724.1	7q34	2011-05-18			ENSG00000236279	ENSG00000236279		"C-type lectin domain containing"	21969	protein-coding gene	gene with protein product							Standard	NM_001080511		Approved	FLJ32986	uc010lnd.3	P0C7M8	OTTHUMG00000164900	ENST00000422142.2:c.113C>A	7.37:g.139208786C>A	ENSP00000390661:p.Ala38Asp	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000422142.2	37	CCDS47724.1	.	.	.	.	.	.	.	.	.	.	c	11.60	1.686495	0.29962	.	.	ENSG00000236279	ENST00000422142	T	0.03889	3.77	2.96	-1.4	0.08968	.	.	.	.	.	T	0.02571	0.0078	N	0.08118	0	0.28054	N	0.933269	B	0.22414	0.069	B	0.14023	0.01	T	0.46541	-0.9184	9	0.18710	T	0.47	.	11.9064	0.52715	0.0:0.7171:0.2829:0.0	.	38	P0C7M8	CLC2L_HUMAN	D	38	ENSP00000390661:A38D	ENSP00000390661:A38D	A	+	2	0	CLEC2L	138859326	1.000000	0.71417	0.768000	0.31515	0.245000	0.25701	0.831000	0.27476	-0.490000	0.06707	0.283000	0.19423	GCC		0.831	CLEC2L-001	NOVEL	not_organism_supported|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380878.1	NM_001080511		A	139208786	C	A	139208786	3	1	703	1	0	0	0	0	1	0	0	0	3511	739	26	4	115	4	CLEC2L	7	139208786	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	10793639	139208786	19929877	56	46252										
AGAP3	116988	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr7	150839014	150839014	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	agtcgtttgaatttgtggtgGtgtccctcactgggcagacg	14	8	1	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr7:150839014G>A	ENST00000463381.1	+	12	1337	c.841G>A	c.(841-843)Gtg>Atg	p.V281M	AGAP3_ENST00000397238.2_Missense_Mutation_p.V612M	NM_001281300.1	NP_001268229.1	Q96P47	AGAP3_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH domain 3	576	Small GTPase-like.				cellular response to reactive oxygen species (GO:0034614)|proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)|protein import into nucleus, translocation (GO:0000060)|regulation of ARF GTPase activity (GO:0032312)|small GTPase mediated signal transduction (GO:0007264)	cell periphery (GO:0071944)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleus (GO:0005634)	ARF GTPase activator activity (GO:0008060)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|zinc ion binding (GO:0008270)			central_nervous_system(2)|endometrium(3)|kidney(3)|large_intestine(3)|liver(2)|lung(9)|ovary(2)|prostate(3)|urinary_tract(1)	28						ATTTGTGGTGGTGTCCCTCAC	0.612																																																0													94	112	106					7																	150839014		2150	4240	6390	SO:0001583	missense	116988			AF413079	CCDS43681.1, CCDS55185.1, CCDS64802.1	7q36.1	2013-01-11	2008-09-22	2008-09-22	ENSG00000133612	ENSG00000133612		"ADP-ribosylation factor GTPase activating proteins", "Pleckstrin homology (PH) domain containing", "Ankyrin repeat domain containing"	16923	protein-coding gene	gene with protein product			"centaurin, gamma 3"	CENTG3			Standard	NM_001042535		Approved		uc003wjg.1	Q96P47	OTTHUMG00000158724	ENST00000463381.1:c.841G>A	7.37:g.150839014G>A	ENSP00000418016:p.Val281Met	Somatic		WXS	Illumina HiSeq	Phase_I	B3KNZ8|E9PAL8|Q59EN0|Q96RK3	Missense_Mutation	SNP	ENST00000463381.1	37		.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	24.6|24.6	4.553104|4.553104	0.86127|0.86127	.|.	.|.	ENSG00000133612|ENSG00000133612	ENST00000463381;ENST00000397232;ENST00000397238;ENST00000335355|ENST00000461065	T;T|.	0.19394|.	2.15;2.15|.	4.24|4.24	4.24|4.24	0.50183|0.50183	Pleckstrin homology-type (1);Pleckstrin homology domain (3);|.	0.000000|.	0.64402|.	D|.	0.000008|.	T|.	0.74558|.	0.3732|.	M|M	0.75085|0.75085	2.285|2.285	0.80722|0.80722	D|D	1|1	D;D;D;P|.	0.89917|.	1.0;0.999;0.999;0.95|.	D;D;D;P|.	0.97110|.	1.0;0.981;0.964;0.755|.	T|.	0.75977|.	-0.3127|.	10|.	0.72032|.	D|.	0.01|.	.|.	16.1835|16.1835	0.81929|0.81929	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	576;111;612;281|.	Q96P47;E7ETI2;Q96P47-4;B3KNZ8|.	AGAP3_HUMAN;.;.;.|.	M|X	281;111;612;576|104	ENSP00000418016:V281M;ENSP00000380413:V612M|.	ENSP00000334157:V576M|.	V|W	+|+	1|3	0|0	AGAP3|AGAP3	150469947|150469947	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.983000|0.983000	0.72400|0.72400	7.458000|7.458000	0.80787|0.80787	2.346000|2.346000	0.79739|0.79739	0.655000|0.655000	0.94253|0.94253	GTG|TGG		0.612	AGAP3-002	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000351909.2	NM_031946		A	150839014	G	A	150839014	3	1	703	1	0	0	0	0	1	0	0	0	369	1261	44	2	1955	2	AGAP3	7	150839014	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	11630228	150839014	8299649	57	46253										
RHEB	6009	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	151188050	151188050	+	Missense_Mutation	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gttttctatggttggatcgtAggagtccacaaattggcctt	11	7	1	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr7:151188050A>T	ENST00000262187.5	-	2	515	c.103T>A	c.(103-105)Tac>Aac	p.Y35N	RHEB_ENST00000496004.1_5'UTR|RHEB_ENST00000472642.1_5'UTR	NM_005614.3	NP_005605.1	Q15382	RHEB_HUMAN	Ras homolog enriched in brain	35					cell cycle arrest (GO:0007050)|insulin receptor signaling pathway (GO:0008286)|positive regulation of TOR signaling (GO:0032008)|signal transduction (GO:0007165)|small GTPase mediated signal transduction (GO:0007264)	cytosol (GO:0005829)|dendrite (GO:0030425)|extracellular vesicular exosome (GO:0070062)|membrane (GO:0016020)|neuronal cell body (GO:0043025)|plasma membrane (GO:0005886)|spliceosomal complex (GO:0005681)	GDP binding (GO:0019003)|GTP binding (GO:0005525)|GTPase activity (GO:0003924)|metal ion binding (GO:0046872)	p.Y35N(1)		breast(3)|endometrium(1)|kidney(2)|large_intestine(1)|lung(7)	14			OV - Ovarian serous cystadenocarcinoma(82;0.00306)	UCEC - Uterine corpus endometrioid carcinoma (81;0.174)		GTTGGATCGTAGGAGTCCACA	0.358																																					Pancreas(98;671 892 8111 15140 36556 39178 39939 44184)											1	Substitution - Missense(1)	kidney(1)											103	100	101					7																	151188050		2203	4300	6503	SO:0001583	missense	6009			D78132	CCDS5927.1	7q36	2014-05-09	2003-07-14	2003-07-14	ENSG00000106615	ENSG00000106615			10011	protein-coding gene	gene with protein product		601293	"Ras homolog enriched in brain 2"	RHEB2		8661031	Standard	NM_005614		Approved		uc003wkh.1	Q15382	OTTHUMG00000157330	ENST00000262187.5:c.103T>A	7.37:g.151188050A>T	ENSP00000262187:p.Tyr35Asn	Somatic		WXS	Illumina HiSeq	Phase_I	B3KWN6|D3DX13|Q53Y56|Q99444	Missense_Mutation	SNP	ENST00000262187.5	37	CCDS5927.1	.	.	.	.	.	.	.	.	.	.	A	26.1	4.708820	0.89018	.	.	ENSG00000106615	ENST00000262187	T	0.81247	-1.47	5.42	5.42	0.78866	Small GTP-binding protein domain (1);	0.000000	0.85682	D	0.000000	D	0.91841	0.7418	M	0.93283	3.4	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.93659	0.6980	10	0.87932	D	0	.	13.3975	0.60863	1.0:0.0:0.0:0.0	.	35	Q15382	RHEB_HUMAN	N	35	ENSP00000262187:Y35N	ENSP00000262187:Y35N	Y	-	1	0	RHEB	150818983	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	8.143000	0.89621	2.051000	0.60960	0.533000	0.62120	TAC		0.358	RHEB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000348468.2	NM_005614		T	151188050	A	T	151188050	3	4	703	1	0	0	0	0	1	0	0	0	13341	420	15	5	479	5	RHEB	7	151188050	Missense_Mutation	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	349036	151188050	7950613	58	46254										
MLL3	58508	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr7	152012386	152012386	+	Frame_Shift_Del	DEL	T	T	-													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gtctccttgtcctaaggaacTtttttccccacagtaacaaa							TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr7:152012386delT	ENST00000262189.6	-	4	645	c.427delA	c.(427-429)agtfs	p.S144fs	KMT2C_ENST00000355193.2_Frame_Shift_Del_p.S144fs	NM_170606.2	NP_733751.2	Q8NEZ4	KMT2C_HUMAN	lysine (K)-specific methyltransferase 2C	144					histone H3-K4 methylation (GO:0051568)|intracellular signal transduction (GO:0035556)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	histone methyltransferase complex (GO:0035097)|nucleus (GO:0005634)	DNA binding (GO:0003677)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|poly(A) RNA binding (GO:0044822)|zinc ion binding (GO:0008270)										CCTAAGGAACTTTTTTCCCCA	0.378																																																0													136	126	129					7																	152012386		2203	4300	6503	SO:0001589	frameshift_variant	58508			AF264750	CCDS5931.1	7q36	2013-05-09	2013-05-09	2013-05-09	ENSG00000055609	ENSG00000055609		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	13726	protein-coding gene	gene with protein product		606833	"myeloid/lymphoid or mixed-lineage leukemia 3"	MLL3		10819331	Standard	XM_005250026		Approved	KIAA1506, HALR		Q8NEZ4	OTTHUMG00000150553	ENST00000262189.6:c.427delA	7.37:g.152012386delT	ENSP00000262189:p.Ser144fs	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NC02|Q8NDF6|Q9H9P4|Q9NR13|Q9P222|Q9UDR7	Frame_Shift_Del	DEL	ENST00000262189.6	37	CCDS5931.1																																																																																				0.378	KMT2C-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000318887.3			-	152012386	T	-	152012386	7	5	703	1	0	1	0	1	0	0	0	0	9629	1609	56	0	14532	0	MLL3	7	152012386	Frame_Shift_Del	DEL	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	824336	152012386	7126277	59	46255										
SGK223	157285	broad.mit.edu	37	chr8	8239069	8239069	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tccaggcggcagttctcaggCctgggaggcaggcgcggtgg	19	11	1	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr8:8239069C>A	ENST00000520004.1	-	2	453	c.189G>T	c.(187-189)agG>agT	p.R63S	SGK223_ENST00000330777.4_Missense_Mutation_p.R63S			Q86YV5	SG223_HUMAN		63							ATP binding (GO:0005524)|non-membrane spanning protein tyrosine kinase activity (GO:0004715)										AGTTCTCAGGCCTGGGAGGCA	0.657																																					GBM(34;731 755 10259 33573 33867)											0													48	49	49					8																	8239069		2004	4157	6161	SO:0001583	missense	0																														ENST00000520004.1:c.189G>T	8.37:g.8239069C>A	ENSP00000428054:p.Arg63Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q8N3N5	Missense_Mutation	SNP	ENST00000520004.1	37	CCDS43706.1	.	.	.	.	.	.	.	.	.	.	C	13.44	2.236881	0.39498	.	.	ENSG00000182319	ENST00000330777;ENST00000520004	T;T	0.59083	0.29;0.29	4.49	2.69	0.31865	.	0.226672	0.30658	N	0.009160	T	0.41696	0.1170	L	0.38531	1.155	0.27832	N	0.941416	B	0.31968	0.349	B	0.24701	0.055	T	0.44802	-0.9304	10	0.72032	D	0.01	.	8.2345	0.31618	0.0:0.7459:0.0:0.2541	.	63	Q86YV5	SG223_HUMAN	S	63	ENSP00000330930:R63S;ENSP00000428054:R63S	ENSP00000330930:R63S	R	-	3	2	AC068353.1	8276479	1.000000	0.71417	0.887000	0.34795	0.775000	0.43874	0.980000	0.29513	1.272000	0.44329	-0.230000	0.12252	AGG		0.657	SGK223-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374864.1			A	8239069	C	A	8239069	3	1	703	1	0	0	0	0	1	0	0	0	14223	738	26	4	4039	4	SGK223	8	8239069	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10		8239069	138124953	60	46256										
ADAM18	8749	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr8	39550201	39550201	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	aaaatgcaaagggaaaggggTaagtcacttttgtatctgaa	11	4	2	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr8:39550201T>A	ENST00000265707.5	+	17	1947		c.e17+2		ADAM18_ENST00000541111.1_Splice_Site|ADAM18_ENST00000379866.1_Splice_Site|ADAM18_ENST00000523755.1_Splice_Site	NM_014237.2	NP_055052.1	Q9Y3Q7	ADA18_HUMAN	ADAM metallopeptidase domain 18						cell differentiation (GO:0030154)|multicellular organismal development (GO:0007275)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)|membrane (GO:0016020)	metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			NS(2)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(31)|ovary(1)|prostate(1)|skin(12)|stomach(1)|upper_aerodigestive_tract(3)	71		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)			GGGAAAGGGGTAAGTCACTTT	0.348																																																0													93	96	95					8																	39550201		2203	4299	6502	SO:0001630	splice_region_variant	8749			AJ133004	CCDS6113.1, CCDS55225.1	8p11.22	2008-08-07	2005-08-18		ENSG00000168619	ENSG00000168619		"ADAM metallopeptidase domain containing"	196	protein-coding gene	gene with protein product			"a disintegrin and metalloproteinase domain 18"			12200459	Standard	NM_014237		Approved	tMDCIII, ADAM27	uc003xni.3	Q9Y3Q7	OTTHUMG00000164040	ENST00000265707.5:c.1902+2T>A	8.37:g.39550201T>A		Somatic		WXS	Illumina HiSeq	Phase_I	B2R9Y0|Q0VAI4|Q6IRW9|Q6UXJ9	Splice_Site	SNP	ENST00000265707.5	37	CCDS6113.1	.	.	.	.	.	.	.	.	.	.	T	15.32	2.798603	0.50208	.	.	ENSG00000168619	ENST00000265707;ENST00000379866;ENST00000541111	.	.	.	3.95	3.95	0.45737	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	9.5062	0.39048	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	ADAM18	39669358	1.000000	0.71417	1.000000	0.80357	0.729000	0.41735	3.170000	0.50816	2.023000	0.59567	0.455000	0.32223	.		0.348	ADAM18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000376916.1	NM_014237	Intron	A	39550201	T	A	39550201	5	1	703	1	0	0	0	0	0	0	1	0	239	1652	57	5	1970	5	ADAM18	8	39550201	Splice_Site	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	31311132	39550201	106813821	61	46257										
LRRCC1	85444	ucsc.edu	37	chr8	86057688	86057688	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	atgcaagaacaaaaaaacaaTggaagcaaaaattaagcaac	6	6	0	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr8:86057688T>C	ENST00000360375.3	+	19	3190	c.3041T>C	c.(3040-3042)aTg>aCg	p.M1014T	LRRCC1_ENST00000414626.2_Missense_Mutation_p.M994T	NM_033402.4	NP_208325.3	Q9C099	LRCC1_HUMAN	leucine rich repeat and coiled-coil centrosomal protein 1	1014					mitotic nuclear division (GO:0007067)	centrosome (GO:0005813)|cytoplasm (GO:0005737)|nucleus (GO:0005634)				breast(3)|central_nervous_system(1)|endometrium(4)|kidney(9)|large_intestine(7)|lung(16)|skin(1)|upper_aerodigestive_tract(2)	43						AAAAAAACAATGGAAGCAAAA	0.299																																																0													53	51	51					8																	86057688		1810	4061	5871	SO:0001583	missense	85444			BC030701	CCDS43750.1	8q21.2	2012-04-10	2012-04-10		ENSG00000133739	ENSG00000133739			29373	protein-coding gene	gene with protein product	"centrosomal leucine-rich repeat and coiled-coil containing protein", "variable number of flagella 1 homolog (Chlamydomonas)"		"leucine rich repeat and coiled-coil domain containing 1"			11214970, 18728398	Standard	NM_033402		Approved	KIAA1764, CLERC, VFL1	uc003ycw.3	Q9C099	OTTHUMG00000164784	ENST00000360375.3:c.3041T>C	8.37:g.86057688T>C	ENSP00000353538:p.Met1014Thr	Somatic		WXS	Illumina HiSeq		B4DYX6|B5RI11|Q8N768|Q96DK7|Q96N01	Missense_Mutation	SNP	ENST00000360375.3	37	CCDS43750.1	.	.	.	.	.	.	.	.	.	.	T	14.71	2.618150	0.46736	.	.	ENSG00000133739	ENST00000360375;ENST00000414626	T;T	0.35048	1.33;1.33	5.12	5.12	0.69794	.	0.000000	0.43260	D	0.000600	T	0.50360	0.1611	M	0.65498	2.005	0.80722	D	1	D;D;P	0.62365	0.991;0.989;0.841	P;P;B	0.58266	0.805;0.836;0.313	T	0.45234	-0.9275	10	0.13470	T	0.59	-9.9528	15.0645	0.71983	0.0:0.0:0.0:1.0	.	994;921;1014	Q9C099-2;E9PE41;Q9C099	.;.;LRCC1_HUMAN	T	1014;994	ENSP00000353538:M1014T;ENSP00000394695:M994T	ENSP00000353538:M1014T	M	+	2	0	LRRCC1	86244940	1.000000	0.71417	1.000000	0.80357	0.748000	0.42578	6.443000	0.73447	2.138000	0.66242	0.402000	0.26972	ATG		0.299	LRRCC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000380267.1	NM_033402		C	86057688	T	C	86057688	3	2	703	1	0	0	0	0	1	0	0	0	9033	1464	51	3	3115	3	LRRCC1	8	86057688	Missense_Mutation	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	46507487	86057688	60306334	62	46258										
TRAPPC9	83696	hgsc.bcm.edu	37	chr8	140744445	140744445	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gctgtccgtccaccagcacaTctgtaagggacacgagactg	11	13	1	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr8:140744445T>G	ENST00000438773.2	-	22	3189	c.3056A>C	c.(3055-3057)gAt>gCt	p.D1019A	TRAPPC9_ENST00000389327.3_Splice_Site_p.D1010A|TRAPPC9_ENST00000522504.1_5'UTR|TRAPPC9_ENST00000389328.4_Splice_Site_p.D1117A	NM_001160372.1	NP_001153844.1	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9	1019					cell differentiation (GO:0030154)	endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)				breast(4)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(7)|liver(1)|lung(16)|ovary(2)|prostate(1)|skin(4)|upper_aerodigestive_tract(3)	47						CACCAGCACATCTGTAAGGGA	0.677																																																0													13	15	14					8																	140744445		2197	4283	6480	SO:0001630	splice_region_variant	83696			BC006206	CCDS34946.1, CCDS55278.1	8q24.3	2010-10-22			ENSG00000167632	ENSG00000167632		"Trafficking protein particle complex"	30832	protein-coding gene	gene with protein product	"TRAPP 120 kDa subunit", "tularik gene 1"	611966				11572484	Standard	NM_031466		Approved	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13	uc003yvh.2	Q96Q05	OTTHUMG00000164187	ENST00000438773.2:c.3056-1A>C	8.37:g.140744445T>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q4VTT3|Q658K7|Q6P149|Q6ZQT3|Q7L5C4|Q86Y21|Q96SL2|Q9BQA2	Missense_Mutation	SNP	ENST00000438773.2	37	CCDS55278.1	.	.	.	.	.	.	.	.	.	.	T	17.56	3.420212	0.62622	.	.	ENSG00000167632	ENST00000389328;ENST00000389327;ENST00000438773	.	.	.	4.8	4.8	0.61643	.	0.000000	0.85682	D	0.000000	T	0.64360	0.2591	L	0.29908	0.895	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.83275	0.995;0.996	T	0.64241	-0.6454	9	0.39692	T	0.17	.	13.8481	0.63479	0.0:0.0:0.0:1.0	.	1019;1117	Q96Q05;Q96Q05-2	TPPC9_HUMAN;.	A	1117;1010;1019	.	ENSP00000373978:D1010A	D	-	2	0	TRAPPC9	140813627	1.000000	0.71417	0.999000	0.59377	0.853000	0.48598	7.220000	0.78008	1.911000	0.55334	0.533000	0.62120	GAT		0.677	TRAPPC9-002	PUTATIVE	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000377749.1	NM_031466	Missense_Mutation	G	140744445	T	G	140744445	5	3	703	1	0	0	0	0	0	0	1	0	16477	1449	50	5	398	5	TRAPPC9	8	140744445	Splice_Site	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	54686757	140744445	5619577	63	46259										
C9orf66	157983	hgsc.bcm.edu	37	chr9	214741	214741	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	cgctgggcccacgccctcctCgcccgccgctgcctgcgcgc	12	23	0	0	rs200440314	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr9:214741C>T	ENST00000382387.2	-	1	1152	c.656G>A	c.(655-657)cGa>cAa	p.R219Q	DOCK8_ENST00000432829.2_5'Flank|DOCK8_ENST00000453981.1_5'Flank	NM_152569.2	NP_689782.2	Q5T8R8	CI066_HUMAN	chromosome 9 open reading frame 66	219	Arg-rich.									central_nervous_system(1)|cervix(1)|kidney(1)|skin(1)	4	all_lung(41;0.218)	all_cancers(5;2.09e-12)|all_epithelial(5;6.16e-09)|all_lung(10;1.15e-08)|Lung NSC(10;1.91e-08)|Acute lymphoblastic leukemia(5;0.00457)|all_hematologic(5;0.0332)|Breast(48;0.0646)|Prostate(43;0.137)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		ACGCCCTCCTCGCCCGCCGCT	0.766													C|||	3	0.000599042	0.0023	0.0	5008	,	,		10580	0.0		0.0	False		,,,				2504	0.0															0													2	3	3					9																	214741		1384	2827	4211	SO:0001583	missense	157983			AK055720	CCDS6439.1	9p24.3	2008-02-05			ENSG00000183784	ENSG00000183784			26436	protein-coding gene	gene with protein product							Standard	NM_152569		Approved	FLJ31158	uc003zge.4	Q5T8R8	OTTHUMG00000021017	ENST00000382387.2:c.656G>A	9.37:g.214741C>T	ENSP00000371824:p.Arg219Gln	Somatic		WXS	Illumina HiSeq	Phase_I	Q96NB0	Missense_Mutation	SNP	ENST00000382387.2	37	CCDS6439.1	7	0.003205128205128205	7	0.014227642276422764	0	0.0	0	0.0	0	0.0	.	10.68	1.417416	0.25552	.	.	ENSG00000183784	ENST00000382387	T	0.23147	1.92	3.25	1.33	0.21861	.	.	.	.	.	T	0.06872	0.0175	N	0.08118	0	0.09310	N	1	P	0.42649	0.786	B	0.33620	0.167	T	0.15065	-1.0450	9	0.87932	D	0	.	4.4837	0.11780	0.0:0.637:0.2315:0.1315	.	219	Q5T8R8	CI066_HUMAN	Q	219	ENSP00000371824:R219Q	ENSP00000371824:R219Q	R	-	2	0	C9orf66	204741	0.003000	0.15002	0.054000	0.19295	0.561000	0.35649	0.910000	0.28571	0.367000	0.24454	0.484000	0.47621	CGA		0.766	C9orf66-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055436.1	NM_152569		T	214741	C	T	214741	3	4	703	1	0	0	0	0	1	0	0	0	2492	884	31	1	235	1	C9orf66	9	214741	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10		214741	140998690	64	46260										
PTPRD	5789	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	8504321	8504321	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	acccaggccttgaggggagcGtgcagccagacggaaatagt	15	10	0	2	rs200847027	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr9:8504321G>A	ENST00000381196.4	-	20	2305	c.1762C>T	c.(1762-1764)Cgc>Tgc	p.R588C	PTPRD_ENST00000397611.3_Missense_Mutation_p.R585C|PTPRD_ENST00000358503.5_Missense_Mutation_p.R575C|PTPRD_ENST00000540109.1_Missense_Mutation_p.R588C|PTPRD_ENST00000355233.5_Missense_Mutation_p.R588C|PTPRD_ENST00000356435.5_Missense_Mutation_p.R588C|PTPRD_ENST00000486161.1_Missense_Mutation_p.R588C|PTPRD_ENST00000360074.4_Missense_Mutation_p.R575C|PTPRD_ENST00000397617.3_Missense_Mutation_p.R578C|PTPRD_ENST00000397606.3_Missense_Mutation_p.R578C|PTPRD_ENST00000537002.1_Missense_Mutation_p.R585C	NM_002839.3	NP_002830.1	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	588	Fibronectin type-III 3. {ECO:0000255|PROSITE-ProRule:PRU00316}.				heterophilic cell-cell adhesion (GO:0007157)|neuron differentiation (GO:0030182)|peptidyl-tyrosine dephosphorylation (GO:0035335)|phosphate-containing compound metabolic process (GO:0006796)|positive regulation of dendrite morphogenesis (GO:0050775)|presynaptic membrane assembly (GO:0097105)|protein dephosphorylation (GO:0006470)|transmembrane receptor protein tyrosine phosphatase signaling pathway (GO:0007185)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)	cell adhesion molecule binding (GO:0050839)|receptor binding (GO:0005102)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)			NS(1)|breast(7)|central_nervous_system(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(22)|liver(1)|lung(83)|ovary(4)|pancreas(1)|prostate(7)|skin(19)|stomach(3)|upper_aerodigestive_tract(5)|urinary_tract(1)	168		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)		TGAGGGGAGCGTGCAGCCAGA	0.458										TSP Lung(15;0.13)			G|||	2	0.000399361	0.0	0.0	5008	,	,		19317	0.001		0.001	False		,,,				2504	0.0															0													253	220	231					9																	8504321		2203	4300	6503	SO:0001583	missense	5789			X54133	CCDS6472.1, CCDS43786.1, CCDS6472.2, CCDS55288.1, CCDS55289.1, CCDS55290.1, CCDS75813.1	9p24.1-p23	2013-02-11			ENSG00000153707	ENSG00000153707		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Immunoglobulin superfamily / I-set domain containing", "Fibronectin type III domain containing"	9668	protein-coding gene	gene with protein product		601598				7896816, 8355697	Standard	NM_002839		Approved	PTPD, HPTP	uc003zkk.3	P23468	OTTHUMG00000021005	ENST00000381196.4:c.1762C>T	9.37:g.8504321G>A	ENSP00000370593:p.Arg588Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B1ALA0|F5GWT7|Q3KPJ0|Q3KPJ1|Q3KPJ2	Missense_Mutation	SNP	ENST00000381196.4	37	CCDS43786.1	1	4.578754578754579E-4	0	0.0	0	0.0	1	0.0017482517482517483	0	0.0	G	20.8	4.057013	0.76074	.	.	ENSG00000153707	ENST00000381196;ENST00000356435;ENST00000360074;ENST00000358503;ENST00000355233;ENST00000397617;ENST00000397611;ENST00000537002;ENST00000346816;ENST00000540109;ENST00000486161;ENST00000397606	T;T;T;T;T;T;T;T;T;T;T	0.58506	0.33;0.33;0.33;0.33;0.33;0.33;0.33;0.33;0.33;0.33;0.33	5.53	5.53	0.82687	Fibronectin, type III (4);Immunoglobulin-like fold (1);	0.000000	0.85682	D	0.000000	T	0.74550	0.3731	M	0.62154	1.92	0.80722	D	1	D;D;D;D;B;D;D;D;D	0.89917	0.997;0.999;1.0;0.999;0.052;0.998;1.0;1.0;1.0	P;D;D;P;B;P;D;D;D	0.79784	0.849;0.959;0.993;0.892;0.055;0.886;0.96;0.969;0.976	T	0.72653	-0.4228	9	.	.	.	.	19.4728	0.94969	0.0:0.0:1.0:0.0	.	578;582;588;588;585;585;575;588;588	Q3KPJ2;Q3KPI9;Q3KPJ0;Q3KPJ1;F5GWT7;F5GWY7;G3XAE2;Q2HXI4;P23468	.;.;.;.;.;.;.;.;PTPRD_HUMAN	C	588;588;575;575;588;578;585;585;588;588;588;578	ENSP00000370593:R588C;ENSP00000348812:R588C;ENSP00000353187:R575C;ENSP00000351293:R575C;ENSP00000347373:R588C;ENSP00000380741:R578C;ENSP00000380735:R585C;ENSP00000440515:R585C;ENSP00000438164:R588C;ENSP00000417093:R588C;ENSP00000380731:R578C	.	R	-	1	0	PTPRD	8494321	1.000000	0.71417	0.998000	0.56505	0.974000	0.67602	6.250000	0.72435	2.602000	0.87976	0.467000	0.42956	CGC		0.458	PTPRD-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055395.3			A	8504321	G	A	8504321	3	1	703	1	0	0	0	0	1	0	0	0	12812	1145	40	1	4140	1	PTPRD	9	8504321	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	8289580	8504321	132709110	65	46261										
FRMPD1	22844	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	37745145	37745145	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	actaaataatgtctctcaagGagacacactagagctccagt	7	10	2	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr9:37745145G>A	ENST00000539465.1	+	16	3709	c.3116G>A	c.(3115-3117)gGa>gAa	p.G1039E	RP11-613M10.9_ENST00000540557.1_Intron|FRMPD1_ENST00000377765.3_Missense_Mutation_p.G1039E			Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	1039						cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|extracellular vesicular exosome (GO:0070062)|plasma membrane (GO:0005886)				NS(3)|breast(2)|central_nervous_system(2)|endometrium(5)|kidney(4)|large_intestine(22)|lung(34)|ovary(5)|prostate(3)|skin(8)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(3)	93				GBM - Glioblastoma multiforme(29;0.00655)		GTCTCTCAAGGAGACACACTA	0.488																																																0													75	81	79					9																	37745145		2202	4299	6501	SO:0001583	missense	22844			AB023184	CCDS6612.1	9p13.1	2008-02-05			ENSG00000070601	ENSG00000070601			29159	protein-coding gene	gene with protein product						10231032	Standard	NM_014907		Approved	KIAA0967, FRMD2	uc004aag.1	Q5SYB0	OTTHUMG00000019927	ENST00000539465.1:c.3116G>A	9.37:g.37745145G>A	ENSP00000444411:p.Gly1039Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B4DZC8|B7Z807|D3DRQ3|Q14C73|Q5HY96|Q9Y2H3	Missense_Mutation	SNP	ENST00000539465.1	37	CCDS6612.1	.	.	.	.	.	.	.	.	.	.	G	18.81	3.702580	0.68501	.	.	ENSG00000070601	ENST00000377765;ENST00000539465	T;T	0.07908	3.15;3.15	5.17	3.32	0.38043	.	3.748350	0.00496	N	0.000156	T	0.08358	0.0208	N	0.24115	0.695	0.80722	D	1	B	0.12630	0.006	B	0.15052	0.012	T	0.17592	-1.0364	10	0.46703	T	0.11	-5.6669	7.1991	0.25871	0.0943:0.1842:0.7215:0.0	.	1039	Q5SYB0	FRPD1_HUMAN	E	1039	ENSP00000366995:G1039E;ENSP00000444411:G1039E	ENSP00000366995:G1039E	G	+	2	0	FRMPD1	37735145	0.009000	0.17119	0.861000	0.33841	0.973000	0.67179	0.191000	0.17076	0.557000	0.29117	0.462000	0.41574	GGA		0.488	FRMPD1-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000402969.1	NM_014907		A	37745145	G	A	37745145	3	1	703	1	0	0	0	0	1	0	0	0	6064	1174	41	2	3174	2	FRMPD1	9	37745145	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	29240824	37745145	103468286	66	46262										
PRKACG	5568	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	71628295	71628295	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	atgggctggtcggcgtagaaGggtgggaagcccacggccat	18	9	0	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr9:71628295G>A	ENST00000377276.2	-	1	744	c.714C>T	c.(712-714)ccC>ccT	p.P238P		NM_002732.3	NP_002723.2	P22612	KAPCG_HUMAN	protein kinase, cAMP-dependent, catalytic, gamma	238	Protein kinase. {ECO:0000255|PROSITE- ProRule:PRU00159}.				activation of phospholipase C activity (GO:0007202)|activation of protein kinase A activity (GO:0034199)|blood coagulation (GO:0007596)|carbohydrate metabolic process (GO:0005975)|cellular response to glucagon stimulus (GO:0071377)|energy reserve metabolic process (GO:0006112)|epidermal growth factor receptor signaling pathway (GO:0007173)|fibroblast growth factor receptor signaling pathway (GO:0008543)|gluconeogenesis (GO:0006094)|glucose metabolic process (GO:0006006)|innate immune response (GO:0045087)|intracellular signal transduction (GO:0035556)|male gonad development (GO:0008584)|neurotrophin TRK receptor signaling pathway (GO:0048011)|regulation of insulin secretion (GO:0050796)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)|spermatogenesis (GO:0007283)|transmembrane transport (GO:0055085)|triglyceride catabolic process (GO:0019433)|water transport (GO:0006833)	cytosol (GO:0005829)	ATP binding (GO:0005524)|cAMP-dependent protein kinase activity (GO:0004691)			central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(3)|ovary(1)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	22						CGGCGTAGAAGGGTGGGAAGC	0.597																																					Esophageal Squamous(110;2236 2623 32146)											0													70	68	69					9																	71628295		2203	4300	6503	SO:0001819	synonymous_variant	5568			M34182	CCDS6625.1	9q13	2012-10-02			ENSG00000165059	ENSG00000165059	2.7.11.1		9382	protein-coding gene	gene with protein product		176893				2342480, 9598317	Standard	NM_002732		Approved	PKACg	uc004agy.3	P22612	OTTHUMG00000019974	ENST00000377276.2:c.714C>T	9.37:g.71628295G>A		Somatic		WXS	Illumina HiSeq	Phase_I	O60850|Q5VZ02|Q86YI1	Silent	SNP	ENST00000377276.2	37	CCDS6625.1																																																																																				0.597	PRKACG-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052559.1			A	71628295	G	A	71628295	2	1	703	1	0	0	0	0	0	0	0	1	12509	987	35	2		2	PRKACG	9	71628295	Silent	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	33883150	71628295	69585136	67	46263										
FAM75C1	441452	hgsc.bcm.edu;ucsc.edu	37	chr9	90534184	90534184	+	RNA	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tcccagcgtcatcttgtctcCcagcgtcatcttgtctccca	6	17	6	0	rs374457389|rs368404840	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr9:90534184C>T	ENST00000602681.1	+	0	930							P0DKV0	S31C1_HUMAN	SPATA31 subfamily C, member 1						cell differentiation (GO:0030154)|spermatogenesis (GO:0007283)	integral component of membrane (GO:0016021)											ATCTTGTCTCCCAGCGTCATC	0.612													.|||	47	0.00938498	0.0348	0.0014	5008	,	,		14138	0.0		0.0	False		,,,				2504	0.0															0								C		44,1340		0,44,648	140	113	121		204	0.1	0	9		121	0,3182		0,0,1591	no	coding-synonymous	FAM75C1	NM_001145124.1		0,44,2239	TT,TC,CC		0.0,3.1792,0.9636		68/1189	90534184	44,4522	692	1591	2283			441452			AK093374		9q22.1	2014-03-18	2012-10-12	2012-10-12	ENSG00000230246	ENSG00000230246			27846	other	unknown			"family with sequence similarity 75, member C1"	FAM75C1			Standard	NM_001145124		Approved	FLJ36055	uc010mqi.3	P0DKV0	OTTHUMG00000020160		9.37:g.90534184C>T		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000602681.1	37																																																																																					0.612	SPATA31C1-002	KNOWN	basic	processed_transcript	pseudogene	OTTHUMT00000467313.1	NM_001145124		T	90534184	C	T	90534184	1	4	703	0	1	0	0	0	0	0	0	0	5630	610	22	2		2	FAM75C1	9	90534184	RNA	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	18905889	90534184	50679247	68	46264										
NIPSNAP3A	25934	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	107521616	107521616	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	acatcgttttcaccactgaaAtagttttctactgaaataca	4	9	2	2	rs546236502	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr9:107521616A>C	ENST00000374767.4	+	6	846	c.741A>C	c.(739-741)aaA>aaC	p.K247N		NM_015469.1	NP_056284.1	Q9UFN0	NPS3A_HUMAN	nipsnap homolog 3A (C. elegans)	247						cytoplasm (GO:0005737)|nucleus (GO:0005634)				autonomic_ganglia(1)|endometrium(1)|large_intestine(3)|lung(1)|stomach(1)|upper_aerodigestive_tract(1)	8						CACCACTGAAATAGTTTTCTA	0.358																																																0													105	97	100					9																	107521616		2203	4300	6503	SO:0001583	missense	25934			BC005935	CCDS6760.1	9q31.3	2003-11-27			ENSG00000136783	ENSG00000136783			23619	protein-coding gene	gene with protein product		608871				12477932	Standard	NM_015469		Approved	DKFZp564D177, FLJ13953, HSPC299, MGC14553		Q9UFN0	OTTHUMG00000020413	ENST00000374767.4:c.741A>C	9.37:g.107521616A>C	ENSP00000363899:p.Lys247Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A6NM55|Q5VX32|Q9BRV7|Q9H843|Q9P083	Missense_Mutation	SNP	ENST00000374767.4	37	CCDS6760.1	.	.	.	.	.	.	.	.	.	.	A	17.18	3.325054	0.60634	.	.	ENSG00000136783	ENST00000374767	T	0.73047	-0.71	3.97	2.82	0.32997	Dimeric alpha-beta barrel (1);	0.047557	0.85682	D	0.000000	T	0.80166	0.4573	M	0.81239	2.535	0.37125	D	0.901004	D	0.76494	0.999	D	0.71656	0.974	T	0.80739	-0.1248	10	0.87932	D	0	.	4.8972	0.13757	0.6882:0.0:0.3118:0.0	.	247	Q9UFN0	NPS3A_HUMAN	N	247	ENSP00000363899:K247N	ENSP00000363899:K247N	K	+	3	2	NIPSNAP3A	106561437	0.997000	0.39634	1.000000	0.80357	0.978000	0.69477	0.441000	0.21611	0.697000	0.31718	0.482000	0.46254	AAA		0.358	NIPSNAP3A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000053484.1	NM_015469		C	107521616	A	C	107521616	3	2	703	1	0	0	0	0	1	0	0	0	10437	98	4	5	763	5	NIPSNAP3A	9	107521616	Missense_Mutation	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	16987432	107521616	33691815	69	46265										
SVEP1	79987	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	113233740	113233740	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ggctataagtatttctgatgCaagctgaaaggaatacatgg	11	5	1	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr9:113233740C>A	ENST00000401783.2	-	16	3238	c.2902G>T	c.(2902-2904)Gca>Tca	p.A968S	SVEP1_ENST00000302728.8_Missense_Mutation_p.A968S|SVEP1_ENST00000467821.1_5'UTR|SVEP1_ENST00000374469.1_Missense_Mutation_p.A945S	NM_153366.3	NP_699197.3	Q4LDE5	SVEP1_HUMAN	sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1	968					cell adhesion (GO:0007155)	cytoplasm (GO:0005737)|extracellular region (GO:0005576)|membrane (GO:0016020)	calcium ion binding (GO:0005509)|chromatin binding (GO:0003682)			NS(1)|autonomic_ganglia(1)|breast(5)|central_nervous_system(1)|cervix(2)|endometrium(19)|kidney(8)|large_intestine(24)|lung(58)|ovary(7)|prostate(7)|skin(1)|stomach(4)|upper_aerodigestive_tract(5)|urinary_tract(4)	147						ATTTCTGATGCAAGCTGAAAG	0.428																																																0													122	112	115					9																	113233740		1855	4107	5962	SO:0001583	missense	79987			AK027870		9q31-q32	2008-02-05	2005-03-15	2005-03-17	ENSG00000165124	ENSG00000165124			15985	protein-coding gene	gene with protein product		611691	"chromosome 9 open reading frame 13"	C9orf13			Standard	NM_153366		Approved	bA427L11.3, POLYDOM, FLJ13529	uc010mtz.3	Q4LDE5	OTTHUMG00000020482	ENST00000401783.2:c.2902G>T	9.37:g.113233740C>A	ENSP00000384917:p.Ala968Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q0P675|Q5D213|Q5T938|Q5VTE4|Q5VTE5|Q7Z387|Q7Z3G3|Q8NBT9|Q96JU7|Q9H284|Q9H8J9	Missense_Mutation	SNP	ENST00000401783.2	37	CCDS48004.1	.	.	.	.	.	.	.	.	.	.	C	7.630	0.678635	0.14841	.	.	ENSG00000165124	ENST00000401783;ENST00000374469;ENST00000302728	T;T;T	0.78246	-1.01;-1.02;-1.16	5.49	5.49	0.81192	.	0.158375	0.56097	D	0.000024	T	0.56834	0.2012	N	0.08118	0	0.27524	N	0.951309	B;B	0.17268	0.021;0.012	B;B	0.15052	0.012;0.012	T	0.37033	-0.9723	10	0.10902	T	0.67	.	12.9639	0.58473	0.283:0.717:0.0:0.0	.	968;968	E9PBN8;Q4LDE5	.;SVEP1_HUMAN	S	968;945;968	ENSP00000384917:A968S;ENSP00000363593:A945S;ENSP00000304118:A968S	ENSP00000304118:A968S	A	-	1	0	SVEP1	112273561	1.000000	0.71417	0.854000	0.33618	0.607000	0.37147	2.741000	0.47426	2.583000	0.87209	0.650000	0.86243	GCA		0.428	SVEP1-202	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding				A	113233740	C	A	113233740	3	1	703	1	0	0	0	0	1	0	0	0	15432	710	25	4	7945	4	SVEP1	9	113233740	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	5712124	113233740	27979691	70	46266										
CIZ1	25792	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr9	130947865	130947865	+	Frame_Shift_Del	DEL	T	T	-													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gaggaggaggtccgggcctgTttctgggggttccgtcctga							TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr9:130947865delT	ENST00000393608.1	-	5	751	c.549delA	c.(547-549)aaafs	p.K183fs	CIZ1_ENST00000325721.8_Frame_Shift_Del_p.K159fs|CIZ1_ENST00000357558.5_Frame_Shift_Del_p.K183fs|CIZ1_ENST00000372954.1_Frame_Shift_Del_p.K159fs|CIZ1_ENST00000372948.3_Frame_Shift_Del_p.K183fs|CIZ1_ENST00000372938.5_Frame_Shift_Del_p.K183fs|CIZ1_ENST00000277465.4_Frame_Shift_Del_p.K183fs|CIZ1_ENST00000476727.2_5'UTR|CIZ1_ENST00000538431.1_Frame_Shift_Del_p.K183fs|CIZ1_ENST00000541172.1_Frame_Shift_Del_p.K82fs	NM_012127.2	NP_036259.2	Q9ULV3	CIZ1_HUMAN	CDKN1A interacting zinc finger protein 1	183					maintenance of protein location in nucleus (GO:0051457)|positive regulation of DNA-dependent DNA replication initiation (GO:0032298)	nucleus (GO:0005634)	nucleic acid binding (GO:0003676)|zinc ion binding (GO:0008270)			NS(1)|breast(2)|central_nervous_system(2)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(8)|liver(1)|lung(9)|ovary(3)|prostate(2)|urinary_tract(2)	35						TCCGGGCCTGTTTCTGGGGGT	0.637																																																0													67	68	68					9																	130947865		2203	4300	6503	SO:0001589	frameshift_variant	25792			AB030835	CCDS6894.1, CCDS48033.1, CCDS48034.1, CCDS75910.1	9q34.1	2012-10-05			ENSG00000148337	ENSG00000148337			16744	protein-coding gene	gene with protein product		611420				10529385	Standard	NM_001131015		Approved	LSFR1, ZNF356	uc011mas.2	Q9ULV3	OTTHUMG00000020735	ENST00000393608.1:c.549delA	9.37:g.130947865delT	ENSP00000377232:p.Lys183fs	Somatic		WXS	Illumina HiSeq	Phase_I	A8K9J8|B4E131|B7ZAS8|Q5SYW3|Q5SYW5|Q8WU72|Q9H868|Q9NYM8|Q9UHK4|Q9Y3F9|Q9Y3G0	Frame_Shift_Del	DEL	ENST00000393608.1	37	CCDS6894.1																																																																																				0.637	CIZ1-203	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000054399.1	NM_012127		-	130947865	T	-	130947865	7	5	703	1	0	1	0	1	0	0	0	0	3443	1722	60	0	2199	0	CIZ1	9	130947865	Frame_Shift_Del	DEL	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	17714125	130947865	10265566	71	46267										
MED27	9442	hgsc.bcm.edu;broad.mit.edu	37	chr9	134735980	134735980	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ttcggaaatccctccatgtcGggggaaggccgtcctgcaga	13	12	0	1	rs557626461	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr9:134735980G>A	ENST00000292035.5	-	8	944	c.881C>T	c.(880-882)cCg>cTg	p.P294L	MED27_ENST00000357028.2_Missense_Mutation_p.P258L	NM_004269.3	NP_004260.2	Q6P2C8	MED27_HUMAN	mediator complex subunit 27	294					gene expression (GO:0010467)|regulation of transcription from RNA polymerase II promoter (GO:0006357)|stem cell maintenance (GO:0019827)|transcription initiation from RNA polymerase II promoter (GO:0006367)	cytoplasm (GO:0005737)|mediator complex (GO:0016592)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	transcription coactivator activity (GO:0003713)	p.P294L(4)|p.P294fs*>18(1)		breast(1)|endometrium(4)|kidney(3)|large_intestine(3)|lung(5)|skin(1)|urinary_tract(1)	18		Myeloproliferative disorder(178;0.206)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000193)		CCTCCATGTCGGGGGAAGGCC	0.597													G|||	40	0.00798722	0.003	0.0072	5008	,	,		18345	0.0		0.0169	False		,,,				2504	0.0143				Colon(41;784 923 6932 42329 52483)											5	Substitution - Missense(4)|Deletion - Frameshift(1)	endometrium(2)|kidney(2)|large_intestine(1)											30	29	29					9																	134735980		2203	4300	6503	SO:0001583	missense	9442			AF104252	CCDS6945.1, CCDS59153.1, CCDS69689.1	9q34.13	2008-02-05	2007-07-30	2007-07-30	ENSG00000160563	ENSG00000160563			2377	protein-coding gene	gene with protein product		605044	"cofactor required for Sp1 transcriptional activation, subunit 8, 34kDa"	CRSP8		9989412	Standard	NM_004269		Approved	TRAP37, CRSP34	uc004cbe.2	Q6P2C8	OTTHUMG00000020833	ENST00000292035.5:c.881C>T	9.37:g.134735980G>A	ENSP00000292035:p.Pro294Leu	Somatic		WXS	Illumina HiSeq	Phase_I	O95401|Q4F964|Q5VTA4|Q5VTA5|Q9BU57|Q9NYR4|V9GYV9	Missense_Mutation	SNP	ENST00000292035.5	37	CCDS6945.1	.	.	.	.	.	.	.	.	.	.	G	31	5.095595	0.94197	.	.	ENSG00000160563	ENST00000292035;ENST00000357028;ENST00000372184	.	.	.	5.3	5.3	0.74995	.	0.000000	0.85682	D	0.000000	D	0.84014	0.5379	M	0.87180	2.865	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	0.992;1.0	D	0.86894	0.2050	9	0.87932	D	0	-0.1478	16.105	0.81213	0.0:0.0:1.0:0.0	.	258;294	Q6P2C8-2;Q6P2C8	.;MED27_HUMAN	L	294;220;258	.	ENSP00000292035:P294L	P	-	2	0	MED27	133725801	1.000000	0.71417	0.949000	0.38748	0.987000	0.75469	7.762000	0.85270	2.472000	0.83506	0.655000	0.94253	CCG		0.597	MED27-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054770.2	NM_004269		A	134735980	G	A	134735980	3	1	703	1	0	0	0	0	1	0	0	0	9452	1116	39	1	58	1	MED27	9	134735980	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	3788115	134735980	6477451	72	46268										
SDCCAG3	10807	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr9	139302279	139302279	+	Splice_Site	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	cacagtgccgtggatttaccTttgcataaattctgctggcc	9	11	1	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr9:139302279T>G	ENST00000357365.3	-	4	530	c.401A>C	c.(400-402)aAg>aCg	p.K134T	PMPCA_ENST00000371717.3_5'Flank|PMPCA_ENST00000371720.1_5'Flank|PMPCA_ENST00000399219.3_5'Flank|SDCCAG3_ENST00000461693.1_5'Flank|SDCCAG3_ENST00000371725.3_Splice_Site_p.K61T|SDCCAG3_ENST00000298537.7_Splice_Site_p.K111T	NM_001039707.1	NP_001034796.1	Q96C92	SDCG3_HUMAN	serologically defined colon cancer antigen 3	134						cytoplasm (GO:0005737)				NS(1)|breast(2)|cervix(1)|endometrium(2)|large_intestine(1)|lung(9)	16		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;8.18e-06)|Epithelial(140;9.31e-06)		TGGATTTACCTTTGCATAAAT	0.522																																																0													117	127	124					9																	139302279		1996	4158	6154	SO:0001630	splice_region_variant	10807			AF039688	CCDS6999.2, CCDS43903.1, CCDS43904.1	9q34.3	2010-10-27			ENSG00000165689	ENSG00000165689			10667	protein-coding gene	gene with protein product						9610721	Standard	XM_005266050		Approved	NY-CO-3	uc004chi.3	Q96C92	OTTHUMG00000020928	ENST00000357365.3:c.402+1A>C	9.37:g.139302279T>G		Somatic		WXS	Illumina HiSeq	Phase_I	A6NCP1|O60525|Q5SXN1|Q5SXN2|Q5SXN3|Q5SXN4|Q5SXN8|Q6V704|Q9NVY5	Missense_Mutation	SNP	ENST00000357365.3	37	CCDS43904.1	.	.	.	.	.	.	.	.	.	.	T	14.76	2.632253	0.46944	.	.	ENSG00000165689	ENST00000357365;ENST00000298537;ENST00000371725;ENST00000371723	T;T;T;T	0.39406	2.24;2.31;2.29;1.08	5.34	5.34	0.76211	.	0.221148	0.38837	N	0.001555	T	0.58366	0.2117	M	0.63843	1.955	0.42845	D	0.994066	D;D;D	0.76494	0.99;0.997;0.999	P;D;D	0.68353	0.864;0.928;0.957	T	0.59627	-0.7419	10	0.45353	T	0.12	-23.4229	11.7031	0.51581	0.0:0.0:0.0:1.0	.	61;111;134	Q96C92-4;Q96C92-2;Q96C92	.;.;SDCG3_HUMAN	T	134;111;61;84	ENSP00000349929:K134T;ENSP00000298537:K111T;ENSP00000360790:K61T;ENSP00000360788:K84T	ENSP00000298537:K111T	K	-	2	0	SDCCAG3	138422100	1.000000	0.71417	0.628000	0.29241	0.117000	0.20001	4.054000	0.57434	2.012000	0.59069	0.528000	0.53228	AAG		0.522	SDCCAG3-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000055060.2	NM_006643	Missense_Mutation	G	139302279	T	G	139302279	5	3	703	1	0	0	0	0	0	0	1	0	13971	1623	56	5	934	5	SDCCAG3	9	139302279	Splice_Site	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	4566299	139302279	1911152	73	46269										
CUL2	8453	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	35360197	35360197	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ggcttttattgtcgtcaaaaGtttgttccatgtttcatcaa	7	7	3	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr10:35360197G>C	ENST00000374748.1	-	3	362	c.49C>G	c.(49-51)Ctt>Gtt	p.L17V	CUL2_ENST00000374749.3_Missense_Mutation_p.L17V|CUL2_ENST00000602371.1_5'UTR|CUL2_ENST00000478044.1_5'UTR|CUL2_ENST00000374751.3_Missense_Mutation_p.L17V|CUL2_ENST00000374742.1_Missense_Mutation_p.L17V|CUL2_ENST00000374746.1_Missense_Mutation_p.L17V|CUL2_ENST00000537177.1_Missense_Mutation_p.L36V			Q13617	CUL2_HUMAN	cullin 2	17					cell cycle arrest (GO:0007050)|cellular response to hypoxia (GO:0071456)|G1/S transition of mitotic cell cycle (GO:0000082)|intrinsic apoptotic signaling pathway (GO:0097193)|negative regulation of cell proliferation (GO:0008285)|protein ubiquitination (GO:0016567)|regulation of transcription from RNA polymerase II promoter in response to hypoxia (GO:0061418)|ubiquitin-dependent protein catabolic process (GO:0006511)|viral process (GO:0016032)	Cul2-RING ubiquitin ligase complex (GO:0031462)|cytosol (GO:0005829)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)|VCB complex (GO:0030891)	ubiquitin protein ligase binding (GO:0031625)			breast(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(11)|ovary(3)|prostate(2)|skin(1)|urinary_tract(2)	31						GTCGTCAAAAGTTTGTTCCAT	0.358																																																0													148	122	131					10																	35360197		2203	4300	6503	SO:0001583	missense	8453			U83410	CCDS7179.1, CCDS73086.1	10p11.2	2011-05-24			ENSG00000108094	ENSG00000108094			2552	protein-coding gene	gene with protein product		603135				8681378	Standard	NM_003591		Approved		uc021ppa.1	Q13617	OTTHUMG00000017950	ENST00000374748.1:c.49C>G	10.37:g.35360197G>C	ENSP00000363880:p.Leu17Val	Somatic		WXS	Illumina HiSeq	Phase_I	B3KT95|B7Z6K8|D3DRY6|G3V1S2|O00200|Q5T2B6|Q9UNF9	Missense_Mutation	SNP	ENST00000374748.1	37	CCDS7179.1	.	.	.	.	.	.	.	.	.	.	G	18.26	3.585575	0.66105	.	.	ENSG00000108094	ENST00000374751;ENST00000374748;ENST00000374746;ENST00000374749;ENST00000374742;ENST00000537177;ENST00000421317	T;T;T;T;T;T;T	0.55052	0.54;0.54;0.54;0.54;0.54;0.54;0.54	5.92	4.06	0.47325	Cullin, N-terminal (1);Cullin repeat-like-containing domain (1);	0.058793	0.64402	N	0.000001	T	0.65491	0.2696	L	0.58101	1.795	0.80722	D	1	D;D;D	0.71674	0.998;0.997;0.998	D;P;D	0.66497	0.944;0.875;0.923	T	0.67150	-0.5743	10	0.87932	D	0	-7.8946	11.7589	0.51890	0.0663:0.1241:0.8097:0.0	.	17;36;17	Q5T2B5;G3V1S2;Q13617	.;.;CUL2_HUMAN	V	17;17;17;17;17;36;17	ENSP00000363883:L17V;ENSP00000363880:L17V;ENSP00000363878:L17V;ENSP00000363881:L17V;ENSP00000363874:L17V;ENSP00000444856:L36V;ENSP00000414095:L17V	ENSP00000363874:L17V	L	-	1	0	CUL2	35400203	1.000000	0.71417	0.282000	0.24776	0.833000	0.47200	6.391000	0.73208	0.824000	0.34613	0.655000	0.94253	CTT		0.358	CUL2-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047538.1	NM_003591		C	35360197	G	C	35360197	3	2	703	1	0	0	0	0	1	0	0	0	4057	1029	36	4	2268	4	CUL2	10	35360197	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10		35360197	100174550	74	46270										
TET1	80312	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	70404893	70404893	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	acactgcaaaccataaaaacGctatgagctctgttgctact	6	11	1	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr10:70404893G>T	ENST00000373644.4	+	4	2616	c.2407G>T	c.(2407-2409)Gct>Tct	p.A803S		NM_030625.2	NP_085128.2	Q8NFU7	TET1_HUMAN	tet methylcytosine dioxygenase 1	803					chromatin modification (GO:0016568)|DNA demethylation (GO:0080111)|inner cell mass cell differentiation (GO:0001826)|negative regulation of methylation-dependent chromatin silencing (GO:0090310)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|protein O-linked glycosylation (GO:0006493)|regulation of DNA methylation (GO:0044030)|stem cell maintenance (GO:0019827)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	iron ion binding (GO:0005506)|methylcytosine dioxygenase activity (GO:0070579)|structure-specific DNA binding (GO:0043566)|zinc ion binding (GO:0008270)	p.A803T(1)		breast(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(9)|lung(2)|ovary(5)|prostate(1)|upper_aerodigestive_tract(2)	21						CCATAAAAACGCTATGAGCTC	0.353																																																1	Substitution - Missense(1)	endometrium(1)											100	100	100					10																	70404893		2203	4300	6503	SO:0001583	missense	80312			AF430147	CCDS7281.1	10q21	2014-02-18	2011-09-30	2008-03-12	ENSG00000138336	ENSG00000138336			29484	protein-coding gene	gene with protein product	"leukemia-associated protein with a CXXC domain", "ten-eleven translocation-1"	607790	"CXXC zinc finger 6", "tet oncogene 1"	CXXC6		12124344, 12646957	Standard	NM_030625		Approved	LCX, KIAA1676, bA119F7.1	uc001jok.4	Q8NFU7	OTTHUMG00000018359	ENST00000373644.4:c.2407G>T	10.37:g.70404893G>T	ENSP00000362748:p.Ala803Ser	Somatic		WXS	Illumina HiSeq	Phase_I	Q5VUP7|Q7Z6B6|Q8TCR1|Q9C0I7	Missense_Mutation	SNP	ENST00000373644.4	37	CCDS7281.1	.	.	.	.	.	.	.	.	.	.	G	14.69	2.609899	0.46527	.	.	ENSG00000138336	ENST00000373644	T	0.08458	3.09	5.92	4.93	0.64822	.	0.759080	0.12137	N	0.496237	T	0.05318	0.0141	L	0.27053	0.805	0.27338	N	0.956599	P	0.44429	0.835	B	0.38056	0.264	T	0.21449	-1.0245	10	0.24483	T	0.36	.	4.6605	0.12639	0.2192:0.0:0.7808:0.0	.	803	Q8NFU7	TET1_HUMAN	S	803	ENSP00000362748:A803S	ENSP00000362748:A803S	A	+	1	0	TET1	70074899	1.000000	0.71417	1.000000	0.80357	0.721000	0.41392	1.045000	0.30341	2.822000	0.97130	0.650000	0.86243	GCT		0.353	TET1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048354.1	NM_030625		T	70404893	G	T	70404893	3	4	703	1	0	0	0	0	1	0	0	0	15781	1087	38	4	2417	4	TET1	10	70404893	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	35044696	70404893	65129854	75	46271										
C10orf129	142827	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr10	96967018	96967018	+	Missense_Mutation	SNP	C	C	A	0	1	1	0	1	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ctgccaagaaaattcgctatCaattacgcatgtctaaggcc	7	11	2	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr10:96967018C>A	ENST00000394005.3	+	3	466	c.457C>A	c.(457-459)Caa>Aaa	p.Q153K	C10orf129_ENST00000430183.1_5'UTR|C10orf129_ENST00000341686.3_Missense_Mutation_p.Q153K			Q6P461	ACSM6_HUMAN		153					fatty acid metabolic process (GO:0006631)	mitochondrion (GO:0005739)	ATP binding (GO:0005524)|butyrate-CoA ligase activity (GO:0047760)|GTP binding (GO:0005525)|metal ion binding (GO:0046872)			breast(1)|kidney(2)|lung(1)|pancreas(1)|prostate(1)|skin(1)	7		Colorectal(252;0.083)		Epithelial(162;1.64e-06)|all cancers(201;3.71e-05)		AATTCGCTATCAATTACGCAT	0.468																																																0													82	76	78					10																	96967018		2203	4300	6503	SO:0001583	missense	142827																														ENST00000394005.3:c.457C>A	10.37:g.96967018C>A	ENSP00000377573:p.Gln153Lys	Somatic		WXS	Illumina HiSeq	Phase_I	A4FU95|A4IF38|Q5VZX2|Q6ZTX1	Missense_Mutation	SNP	ENST00000394005.3	37	CCDS7440.2	.	.	.	.	.	.	.	.	.	.	C	6.282	0.420077	0.11928	.	.	ENSG00000173124	ENST00000539707;ENST00000341686;ENST00000394005	T;T	0.41065	1.01;1.01	1.2	0.259	0.15583	AMP-dependent synthetase/ligase (1);	.	.	.	.	T	0.23249	0.0562	N	0.14661	0.345	0.09310	N	0.999999	B	0.02656	0.0	B	0.09377	0.004	T	0.21586	-1.0241	9	0.87932	D	0	.	5.4913	0.16777	0.0:0.7911:0.0:0.2089	.	153	Q6P461	ACSM6_HUMAN	K	179;153;153	ENSP00000340296:Q153K;ENSP00000377573:Q153K	ENSP00000340296:Q153K	Q	+	1	0	C10orf129	96957008	0.001000	0.12720	0.001000	0.08648	0.002000	0.02628	-1.319000	0.02702	0.134000	0.18681	0.579000	0.79373	CAA		0.468	C10orf129-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049506.2			A	96967018	C	A	96967018	3	1	703	1	0	0	0	0	1	0	0	0	1595	827	29	4	467	4	C10orf129	10	96967018	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	26562125	96967018	38567729	76	46272										
PDZD7	79955	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr10	102783355	102783355	+	Missense_Mutation	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tgatcttgtcccccacgcacAggccagcccgctctgcacca	8	19	2	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr10:102783355A>G	ENST00000370215.3	-	4	605	c.380T>C	c.(379-381)cTg>cCg	p.L127P	PDZD7_ENST00000470414.1_Missense_Mutation_p.L127P	NM_024895.4	NP_079171.1	Q9H5P4	PDZD7_HUMAN	PDZ domain containing 7	127	PDZ 1. {ECO:0000255|PROSITE- ProRule:PRU00143}.					cilium (GO:0005929)|extracellular space (GO:0005615)|nucleus (GO:0005634)				breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(5)|lung(7)|ovary(2)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	22				Epithelial(162;6.98e-09)|all cancers(201;3.55e-07)		CCCCACGCACAGGCCAGCCCG	0.657																																																0													62	54	57					10																	102783355		2203	4300	6503	SO:0001583	missense	79955			AK026862	CCDS31269.1, CCDS73182.1	10q24.32	2006-01-24		2006-01-24	ENSG00000186862	ENSG00000186862			26257	protein-coding gene	gene with protein product		612971		PDZK7		12477932	Standard	NM_024895		Approved	FLJ23209, bA108L7.8	uc021pxc.1	Q9H5P4	OTTHUMG00000018916	ENST00000370215.3:c.380T>C	10.37:g.102783355A>G	ENSP00000359234:p.Leu127Pro	Somatic		WXS	Illumina HiSeq	Phase_I	D5FJ77|Q8N321	Missense_Mutation	SNP	ENST00000370215.3	37	CCDS31269.1	.	.	.	.	.	.	.	.	.	.	A	23.3	4.403886	0.83230	.	.	ENSG00000186862	ENST00000393462;ENST00000370215	T	0.50548	0.74	5.05	5.05	0.67936	PDZ/DHR/GLGF (4);	0.000000	0.64402	D	0.000001	T	0.79581	0.4470	H	0.97315	3.98	0.80722	D	1	D;D	0.89917	1.0;0.999	D;D	0.91635	0.999;0.961	D	0.87162	0.2215	10	0.87932	D	0	.	14.7786	0.69749	1.0:0.0:0.0:0.0	.	127;127	Q9H5P4;Q9H5P4-2	PDZD7_HUMAN;.	P	127	ENSP00000359234:L127P	ENSP00000359234:L127P	L	-	2	0	PDZD7	102773345	1.000000	0.71417	1.000000	0.80357	0.971000	0.66376	9.224000	0.95209	1.893000	0.54813	0.459000	0.35465	CTG		0.657	PDZD7-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049883.1	NM_024895		G	102783355	A	G	102783355	3	3	703	1	0	0	0	0	1	0	0	0	11711	188	7	3	1201	3	PDZD7	10	102783355	Missense_Mutation	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	5816337	102783355	32751392	77	46273										
MUC2	4583	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	1078339	1078339	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	cgatgtggtgtgtgaggatcCcgaggaggaggtggcccccg	19	9	0	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr11:1078339C>T	ENST00000441003.2	+	5	653	c.626C>T	c.(625-627)cCc>cTc	p.P209L	MUC2_ENST00000359061.5_Missense_Mutation_p.P209L	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	209	VWFD 1. {ECO:0000255|PROSITE- ProRule:PRU00580}.				cellular protein metabolic process (GO:0044267)|maintenance of gastrointestinal epithelium (GO:0030277)|O-glycan processing (GO:0016266)|post-translational protein modification (GO:0043687)	Golgi lumen (GO:0005796)|inner mucus layer (GO:0070702)|outer mucus layer (GO:0070703)				NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		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)	TGTGAGGATCCCGAGGAGGAG	0.642																																																0													76	90	86					11																	1078339		2086	4194	6280	SO:0001583	missense	4583			L21998		11p15.5	2011-01-28	2006-03-14		ENSG00000198788	ENSG00000198788		"Mucins"	7512	protein-coding gene	gene with protein product		158370	"mucin 2, intestinal/tracheal"			15081123	Standard	NM_002457		Approved		uc001lsx.1	Q02817	OTTHUMG00000156800	ENST00000441003.2:c.626C>T	11.37:g.1078339C>T	ENSP00000415183:p.Pro209Leu	Somatic		WXS	Illumina HiSeq	Phase_I	Q14878	Missense_Mutation	SNP	ENST00000441003.2	37		.	.	.	.	.	.	.	.	.	.	C	12.34	1.909914	0.33721	.	.	ENSG00000198788	ENST00000441003;ENST00000359061	T;T	0.14766	2.54;2.48	4.08	4.08	0.47627	.	0.567974	0.14666	U	0.305646	T	0.21881	0.0527	L	0.53729	1.69	0.45554	D	0.998508	P	0.37525	0.598	B	0.43386	0.418	T	0.04454	-1.0950	10	0.48119	T	0.1	.	16.2743	0.82636	0.0:1.0:0.0:0.0	.	209	E7EUV1	.	L	209	ENSP00000415183:P209L;ENSP00000351956:P209L	ENSP00000351956:P209L	P	+	2	0	MUC2	1068339	0.995000	0.38212	0.394000	0.26270	0.046000	0.14306	2.838000	0.48199	1.818000	0.53035	0.561000	0.74099	CCC		0.642	MUC2-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000345894.2	NM_002457		T	1078339	C	T	1078339	3	4	703	1	0	0	0	0	1	0	0	0	9982	623	22	2	644	2	MUC2	11	1078339	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10		1078339	133928177	78	46274										
PDE3B	5140	hgsc.bcm.edu	37	chr11	14666027	14666027	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tcttcttcctcacctgcttcCtcacccggaccaagcgggga	8	17	4	0	rs373522381	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr11:14666027C>G	ENST00000282096.4	+	1	759	c.406C>G	c.(406-408)Ctc>Gtc	p.L136V	PDE3B_ENST00000455098.2_Missense_Mutation_p.L136V|PDE3B_ENST00000534317.1_3'UTR|PSMA1_ENST00000418988.2_5'Flank	NM_000922.3	NP_000913.2	Q13370	PDE3B_HUMAN	phosphodiesterase 3B, cGMP-inhibited	136					angiogenesis (GO:0001525)|blood coagulation (GO:0007596)|cAMP catabolic process (GO:0006198)|cellular response to insulin stimulus (GO:0032869)|endocrine pancreas development (GO:0031018)|glucose homeostasis (GO:0042593)|insulin receptor signaling pathway (GO:0008286)|negative regulation of angiogenesis (GO:0016525)|negative regulation of cAMP-mediated signaling (GO:0043951)|negative regulation of cell adhesion (GO:0007162)|negative regulation of cell adhesion mediated by integrin (GO:0033629)|negative regulation of lipid catabolic process (GO:0050995)|regulation of insulin secretion (GO:0050796)	cytosol (GO:0005829)|endoplasmic reticulum (GO:0005783)|Golgi apparatus (GO:0005794)|guanyl-nucleotide exchange factor complex (GO:0032045)|integral component of membrane (GO:0016021)|membrane (GO:0016020)	3',5'-cyclic-nucleotide phosphodiesterase activity (GO:0004114)|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity (GO:0004119)|metal ion binding (GO:0046872)|protein kinase B binding (GO:0043422)			NS(1)|breast(1)|endometrium(5)|kidney(3)|large_intestine(6)|lung(15)|prostate(1)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	39					Caffeine(DB00201)	CACCTGCTTCCTCACCCGGAC	0.692													C|||	2	0.000399361	0.0015	0.0	5008	,	,		14055	0.0		0.0	False		,,,				2504	0.0															0													29	32	31					11																	14666027		2199	4294	6493	SO:0001583	missense	5140			U38178	CCDS7817.1	11p15.2	2008-03-18			ENSG00000152270	ENSG00000152270	3.1.4.17	"Phosphodiesterases"	8779	protein-coding gene	gene with protein product		602047				8884271, 16395595	Standard	NM_000922		Approved	HcGIP1	uc001mln.3	Q13370	OTTHUMG00000165898	ENST00000282096.4:c.406C>G	11.37:g.14666027C>G	ENSP00000282096:p.Leu136Val	Somatic		WXS	Illumina HiSeq	Phase_I	B7ZM37|O00639|Q14408|Q6SEI4	Missense_Mutation	SNP	ENST00000282096.4	37	CCDS7817.1	.	.	.	.	.	.	.	.	.	.	C	16.61	3.170982	0.57584	.	.	ENSG00000152270	ENST00000282096;ENST00000455098	T;T	0.74842	-0.72;-0.88	3.78	0.801	0.18679	.	8.111930	0.00166	N	0.000000	T	0.73953	0.3653	L	0.40543	1.245	0.31630	N	0.649153	P;P;P	0.52842	0.884;0.884;0.956	B;B;P	0.50659	0.358;0.358;0.647	T	0.62058	-0.6934	10	0.45353	T	0.12	.	6.7026	0.23232	0.0:0.5775:0.0:0.4225	.	136;136;136	B7ZM37;Q13370;A7E2E5	.;PDE3B_HUMAN;.	V	136	ENSP00000282096:L136V;ENSP00000388644:L136V	ENSP00000282096:L136V	L	+	1	0	PDE3B	14622603	1.000000	0.71417	0.998000	0.56505	0.834000	0.47266	1.686000	0.37669	0.130000	0.18549	0.313000	0.20887	CTC		0.692	PDE3B-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000386974.1	NM_000922		G	14666027	C	G	14666027	3	3	703	1	0	0	0	0	1	0	0	0	11645	681	24	4	408	4	PDE3B	11	14666027	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	13587688	14666027	120340489	79	46275										
OR4X1	390113	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	48285602	48285602	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tgtatttctttctcagctacTtatcctttgtggagatctgc	7	9	3	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr11:48285602T>G	ENST00000320048.1	+	1	190	c.190T>G	c.(190-192)Tta>Gta	p.L64V		NM_001004726.1	NP_001004726.1	Q8NH49	OR4X1_HUMAN	olfactory receptor, family 4, subfamily X, member 1 (gene/pseudogene)	64						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			NS(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(11)|ovary(1)|pancreas(1)|prostate(1)|skin(5)|stomach(1)	28						TCTCAGCTACTTATCCTTTGT	0.493																																																0													148	135	139					11																	48285602		2201	4298	6499	SO:0001583	missense	390113			AB065544	CCDS31487.1	11p11.2	2013-10-10	2013-10-10		ENSG00000176567	ENSG00000176567		"GPCR / Class A : Olfactory receptors"	14854	protein-coding gene	gene with protein product			"olfactory receptor, family 4, subfamily X, member 1"				Standard	NM_001004726		Approved		uc010rht.2	Q8NH49	OTTHUMG00000165301	ENST00000320048.1:c.190T>G	11.37:g.48285602T>G	ENSP00000321506:p.Leu64Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q6IF74	Missense_Mutation	SNP	ENST00000320048.1	37	CCDS31487.1	.	.	.	.	.	.	.	.	.	.	T	10.30	1.313474	0.23908	.	.	ENSG00000176567	ENST00000320048	T	0.00507	6.92	4.29	-3.51	0.04696	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.01976	0.0062	H	0.97540	4.025	0.20403	N	0.999903	D	0.57571	0.98	P	0.56960	0.81	T	0.01084	-1.1457	9	0.87932	D	0	.	8.1735	0.31268	0.0:0.4875:0.1294:0.3831	.	64	Q8NH49	OR4X1_HUMAN	V	64	ENSP00000321506:L64V	ENSP00000321506:L64V	L	+	1	2	OR4X1	48242178	0.000000	0.05858	0.901000	0.35422	0.022000	0.10575	-2.554000	0.00926	-1.009000	0.03400	-2.821000	0.00108	TTA		0.493	OR4X1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000383373.1	NM_001004726		G	48285602	T	G	48285602	3	3	703	1	0	0	0	0	1	0	0	0	11091	1606	56	5	192	5	OR4X1	11	48285602	Missense_Mutation	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	33619575	48285602	86720914	80	46276										
SLC43A3	29015	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	57182149	57182149	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tccatgagcaggccattccaGggggcacacagcactccgaa	11	14	0	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr11:57182149G>A	ENST00000395123.2	-	11	1303	c.999C>T	c.(997-999)ccC>ccT	p.P333P	SLC43A3_ENST00000529554.1_Silent_p.P333P|SLC43A3_ENST00000352187.1_Silent_p.P333P|SLC43A3_ENST00000528098.1_5'Flank|SLC43A3_ENST00000395124.1_Silent_p.P333P|SLC43A3_ENST00000533524.1_Silent_p.P346P	NM_001278201.1|NM_014096.2	NP_001265130.1|NP_054815.2	Q8NBI5	S43A3_HUMAN	solute carrier family 43, member 3	333					transmembrane transport (GO:0055085)	integral component of membrane (GO:0016021)				central_nervous_system(1)|endometrium(1)|large_intestine(10)|lung(4)|ovary(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(3)|urinary_tract(2)	27						GGCCATTCCAGGGGGCACACA	0.537																																																0													209	206	207					11																	57182149		2201	4296	6497	SO:0001819	synonymous_variant	29015			AL157431	CCDS7956.1, CCDS60784.1	11q11	2013-05-22			ENSG00000134802	ENSG00000134802		"Solute carriers"	17466	protein-coding gene	gene with protein product	"likely ortholog of mouse embryonic epithelial gene 1"					7531438, 11704567	Standard	NM_017611		Approved	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659	uc001nki.3	Q8NBI5	OTTHUMG00000167113	ENST00000395123.2:c.999C>T	11.37:g.57182149G>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DNR8|E7EQD2|Q9NSS4	Silent	SNP	ENST00000395123.2	37	CCDS7956.1																																																																																				0.537	SLC43A3-005	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000393057.1	NM_017611		A	57182149	G	A	57182149	2	1	703	1	0	0	0	0	0	0	0	1	14647	987	35	2		2	SLC43A3	11	57182149	Silent	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	8896547	57182149	77824367	81	46277										
MLL	4297	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr11	118373932	118373932	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ctgtaaagaaactttcaaagAaaagcattccagtaaatctt	5	7	2	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr11:118373932A>C	ENST00000389506.5	+	27	7316	c.7316A>C	c.(7315-7317)gAa>gCa	p.E2439A	KMT2A_ENST00000354520.4_Missense_Mutation_p.E2401A|KMT2A_ENST00000534358.1_Missense_Mutation_p.E2442A			Q03164	KMT2A_HUMAN	lysine (K)-specific methyltransferase 2A	2439					anterior/posterior pattern specification (GO:0009952)|apoptotic process (GO:0006915)|DNA methylation (GO:0006306)|embryonic hemopoiesis (GO:0035162)|histone H3-K4 methylation (GO:0051568)|histone H3-K4 trimethylation (GO:0080182)|histone H4-K16 acetylation (GO:0043984)|negative regulation of cell proliferation (GO:0008285)|positive regulation of cellular response to drug (GO:2001040)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|positive regulation of transcription, DNA-templated (GO:0045893)|positive regulation of transporter activity (GO:0032411)|protein complex assembly (GO:0006461)|regulation of histone H3-K4 methylation (GO:0051569)|transcription from RNA polymerase II promoter (GO:0006366)	cytoplasm (GO:0005737)|histone methyltransferase complex (GO:0035097)|MLL1 complex (GO:0071339)|nucleus (GO:0005634)	AT DNA binding (GO:0003680)|chromatin binding (GO:0003682)|histone methyltransferase activity (H3-K4 specific) (GO:0042800)|identical protein binding (GO:0042802)|lysine-acetylated histone binding (GO:0070577)|protein homodimerization activity (GO:0042803)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)|unmethylated CpG binding (GO:0045322)|zinc ion binding (GO:0008270)										ACTTTCAAAGAAAAGCATTCC	0.403																																																0													62	65	64					11																	118373932		2199	4296	6495	SO:0001583	missense	4297			L04284	CCDS31686.1, CCDS55791.1	11q23	2014-09-17	2013-05-09	2013-05-09	ENSG00000118058	ENSG00000118058		"Chromatin-modifying enzymes / K-methyltransferases", "Zinc fingers, PHD-type"	7132	protein-coding gene	gene with protein product		159555	"myeloid/lymphoid or mixed-lineage leukemia (trithorax (Drosophila) homolog)", "myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila)"	MLL		1720549	Standard	NM_001197104		Approved	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A		Q03164	OTTHUMG00000166337	ENST00000389506.5:c.7316A>C	11.37:g.118373932A>C	ENSP00000374157:p.Glu2439Ala	Somatic		WXS	Illumina HiSeq	Phase_I	E9PQG7|Q13743|Q13744|Q14845|Q16364|Q59FF2|Q6UBD1|Q9HBJ3|Q9UD94|Q9UMA3	Missense_Mutation	SNP	ENST00000389506.5	37	CCDS31686.1	.	.	.	.	.	.	.	.	.	.	A	11.96	1.794138	0.31777	.	.	ENSG00000118058	ENST00000534358;ENST00000389506;ENST00000354520;ENST00000359313	D;D;D	0.83591	-1.74;-1.74;-1.71	5.85	5.85	0.93711	.	0.109676	0.64402	D	0.000008	T	0.70064	0.3181	N	0.19112	0.55	0.49915	D	0.999833	P;P	0.49090	0.919;0.919	B;B	0.33339	0.162;0.162	T	0.76889	-0.2792	10	0.72032	D	0.01	.	16.2303	0.82332	1.0:0.0:0.0:0.0	.	2442;2439	E9PQG7;Q03164	.;MLL1_HUMAN	A	2442;2439;2401;1349	ENSP00000436786:E2442A;ENSP00000374157:E2439A;ENSP00000346516:E2401A	ENSP00000346516:E2401A	E	+	2	0	MLL	117879142	1.000000	0.71417	1.000000	0.80357	0.994000	0.84299	6.414000	0.73318	2.233000	0.73108	0.533000	0.62120	GAA		0.403	KMT2A-015	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000399085.2	NM_005933		C	118373932	A	C	118373932	3	2	703	1	0	0	0	0	1	0	0	0	9627	246	9	5	7422	5	MLL	11	118373932	Missense_Mutation	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	61191783	118373932	16632584	82	46278										
HINFP	25988	broad.mit.edu;bcgsc.ca	37	chr11	119001447	119001447	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	1	0	1	1	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ttctacagaggaagaattctCctgcttgtggcaggaatgtg	12	7	2	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr11:119001447C>G	ENST00000350777.2	+	3	257	c.194C>G	c.(193-195)tCc>tGc	p.S65C	HINFP_ENST00000527410.1_Missense_Mutation_p.S65C|HINFP_ENST00000527354.1_3'UTR	NM_001243259.1|NM_015517.4|NM_198971.2	NP_001230188.1|NP_056332.2|NP_945322.1	Q9BQA5	HINFP_HUMAN	histone H4 transcription factor	65					DNA damage checkpoint (GO:0000077)|DNA repair (GO:0006281)|establishment of protein localization (GO:0045184)|G1/S transition of mitotic cell cycle (GO:0000082)|in utero embryonic development (GO:0001701)|myoblast differentiation (GO:0045445)|negative regulation of gene expression (GO:0010629)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of gene expression (GO:0010628)|positive regulation of transcription, DNA-templated (GO:0045893)|regulation of gene expression (GO:0010468)|regulation of transcription involved in G1/S transition of mitotic cell cycle (GO:0000083)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	Cajal body (GO:0015030)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	chromatin binding (GO:0003682)|DNA binding (GO:0003677)|enzyme binding (GO:0019899)|histone binding (GO:0042393)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription coactivator activity (GO:0003713)|transcription regulatory region DNA binding (GO:0044212)			endometrium(2)|kidney(1)|large_intestine(4)|lung(7)|ovary(1)|pancreas(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	23						GAAGAATTCTCCTGCTTGTGG	0.498																																																0													94	92	93					11																	119001447		2200	4295	6495	SO:0001583	missense	25988			AL080201	CCDS8414.1, CCDS58188.1	11q23.3	2013-01-08	2009-01-22	2009-01-22	ENSG00000172273	ENSG00000172273		"Zinc fingers, C2H2-type"	17850	protein-coding gene	gene with protein product	"histone nuclear factor P"	607099	"MBD2-interacting zinc finger 1", "MBD2-interacting zinc finger"	MIZF		11553631	Standard	NM_015517		Approved	DKFZP434F162, HiNF-P, ZNF743	uc001pvq.3	Q9BQA5	OTTHUMG00000166168	ENST00000350777.2:c.194C>G	11.37:g.119001447C>G	ENSP00000318085:p.Ser65Cys	Somatic		WXS	Illumina HiSeq	Phase_I	B3KPH6|B4DWB4|E9PQF4|Q96E65|Q9Y4M7	Missense_Mutation	SNP	ENST00000350777.2	37	CCDS8414.1	.	.	.	.	.	.	.	.	.	.	C	13.51	2.259891	0.39995	.	.	ENSG00000172273	ENST00000350777;ENST00000529988;ENST00000527410;ENST00000532312	T;T;T;T	0.34667	1.35;1.35;1.35;1.35	5.84	5.84	0.93424	Zinc finger, C2H2-like (1);	0.196552	0.53938	D	0.000047	T	0.28566	0.0707	N	0.22421	0.69	0.39422	D	0.966933	B;B	0.18610	0.029;0.013	B;B	0.17433	0.018;0.007	T	0.06006	-1.0851	10	0.54805	T	0.06	-29.6023	15.5998	0.76616	0.0:0.8631:0.1369:0.0	.	65;65	B4DTN3;Q9BQA5	.;HINFP_HUMAN	C	65	ENSP00000318085:S65C;ENSP00000431468:S65C;ENSP00000436815:S65C;ENSP00000434574:S65C	ENSP00000318085:S65C	S	+	2	0	HINFP	118506657	1.000000	0.71417	1.000000	0.80357	0.995000	0.86356	2.044000	0.41241	2.779000	0.95612	0.655000	0.94253	TCC		0.498	HINFP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000388201.2	NM_015517		G	119001447	C	G	119001447	3	3	703	1	0	0	0	0	1	0	0	0	7117	855	30	4	200	4	HINFP	11	119001447	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	627515	119001447	16005069	83	46279										
SCNN1A	6337	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	6457064	6457064	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gcccccccagaggacaggtgGaggaactggcccctgcagag	15	14	0	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr12:6457064G>A	ENST00000228916.2	-	13	2083	c.1985C>T	c.(1984-1986)tCc>tTc	p.S662F	SCNN1A_ENST00000543768.1_Missense_Mutation_p.S685F|SCNN1A_ENST00000540037.1_Missense_Mutation_p.S362F|SCNN1A_ENST00000396966.2_3'UTR|SCNN1A_ENST00000360168.3_Missense_Mutation_p.S721F|SCNN1A_ENST00000358945.3_Missense_Mutation_p.S684F	NM_001038.5	NP_001029.1	P37088	SCNNA_HUMAN	sodium channel, non-voltage-gated 1 alpha subunit	662					excretion (GO:0007588)|ion transmembrane transport (GO:0034220)|multicellular organismal water homeostasis (GO:0050891)|response to stimulus (GO:0050896)|sensory perception of taste (GO:0050909)|sodium ion homeostasis (GO:0055078)|sodium ion transmembrane transport (GO:0035725)|sodium ion transport (GO:0006814)|transmembrane transport (GO:0055085)	apical plasma membrane (GO:0016324)|ciliary membrane (GO:0060170)|cortical actin cytoskeleton (GO:0030864)|cytosol (GO:0005829)|external side of plasma membrane (GO:0009897)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|motile cilium (GO:0031514)|plasma membrane (GO:0005886)|sodium channel complex (GO:0034706)	ligand-gated sodium channel activity (GO:0015280)|WW domain binding (GO:0050699)			central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|liver(2)|lung(6)|prostate(1)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	27					Amiloride(DB00594)|Triamterene(DB00384)	AGGACAGGTGGAGGAACTGGC	0.672																																																0													7	8	7					12																	6457064		2098	4115	6213	SO:0001583	missense	6337			Z92978	CCDS8543.1, CCDS53738.1, CCDS53739.1	12p13	2012-02-28	2012-02-28		ENSG00000111319	ENSG00000111319		"Ion channels / Sodium channel, nonvoltage-gated", "Sodium channels"	10599	protein-coding gene	gene with protein product		600228	"sodium channel, nonvoltage-gated 1 alpha", "sodium channel, non-voltage-gated 1 alpha"	SCNN1		7896277	Standard	NM_001038		Approved	ENaCalpha	uc001qnw.3	P37088	OTTHUMG00000168268	ENST00000228916.2:c.1985C>T	12.37:g.6457064G>A	ENSP00000228916:p.Ser662Phe	Somatic		WXS	Illumina HiSeq	Phase_I	A5X2U9|B4E2Q5|C5HTZ0|O43271|Q6GSQ6|Q9UM64	Missense_Mutation	SNP	ENST00000228916.2	37	CCDS8543.1	.	.	.	.	.	.	.	.	.	.	G	13.93	2.383587	0.42207	.	.	ENSG00000111319	ENST00000360168;ENST00000358945;ENST00000540037;ENST00000228916;ENST00000543768	T;T;T;T;T	0.73258	-0.73;-0.69;-0.44;-0.63;-0.67	3.95	1.82	0.25136	.	1.972990	0.02819	N	0.125281	T	0.70090	0.3184	M	0.63428	1.95	0.09310	N	1	B;B;B	0.32693	0.38;0.38;0.226	B;B;B	0.29267	0.085;0.085;0.1	T	0.60627	-0.7226	10	0.72032	D	0.01	-0.3348	11.2996	0.49298	0.0:0.3534:0.6466:0.0	.	685;662;721	B4E2Q5;P37088;P37088-2	.;SCNNA_HUMAN;.	F	721;684;362;662;685	ENSP00000353292:S721F;ENSP00000351825:S684F;ENSP00000440876:S362F;ENSP00000228916:S662F;ENSP00000438739:S685F	ENSP00000228916:S662F	S	-	2	0	SCNN1A	6327325	0.000000	0.05858	0.001000	0.08648	0.001000	0.01503	0.471000	0.22100	0.933000	0.37291	0.555000	0.69702	TCC		0.672	SCNN1A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000399055.1			A	6457064	G	A	6457064	3	1	703	1	0	0	0	0	1	0	0	0	13940	1174	41	2	28	2	SCNN1A	12	6457064	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10		6457064	127394831	84	46280										
KLRK1	22914	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	10539523	10539523	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	attttctctacatttgctttTgactactggacatctttgct	5	9	2	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr12:10539523T>C	ENST00000240618.6	-	3	267	c.127A>G	c.(127-129)Aaa>Gaa	p.K43E	RP11-277P12.20_ENST00000500682.1_RNA|KLRC4-KLRK1_ENST00000539300.1_3'UTR|KLRK1_ENST00000540818.1_Missense_Mutation_p.K43E	NM_001199805.1|NM_007360.3	NP_001186734.1|NP_031386.2	P26718	NKG2D_HUMAN	killer cell lectin-like receptor subfamily K, member 1	43					cell differentiation (GO:0030154)|innate immune response (GO:0045087)|natural killer cell activation (GO:0030101)|positive regulation of natural killer cell mediated cytotoxicity (GO:0045954)|regulation of immune response (GO:0050776)|signal transduction (GO:0007165)|T cell costimulation (GO:0031295)	cell surface (GO:0009986)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|plasma membrane (GO:0005886)	carbohydrate binding (GO:0030246)|receptor activity (GO:0004872)			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(3)|skin(1)	9						CATTTGCTTTTGACTACTGGA	0.323																																																0													207	186	193					12																	10539523		2203	4298	6501	SO:0001583	missense	0			AJ001687	CCDS8623.1	12p13.2-p12.3	2010-02-17	2003-02-19		ENSG00000213809	ENSG00000213809		"Killer cell lectin-like receptors", "CD molecules"	18788	protein-coding gene	gene with protein product		611817	"DNA segment on chromosome 12 (unique) 2489 expressed sequence"	D12S2489E		9683661, 2007850	Standard	NM_007360		Approved	NKG2D, KLR, NKG2-D, CD314	uc009zhj.3	P26718	OTTHUMG00000168574	ENST00000240618.6:c.127A>G	12.37:g.10539523T>C	ENSP00000240618:p.Lys43Glu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7K5|A8K7P4|Q9NR41	Missense_Mutation	SNP	ENST00000240618.6	37	CCDS8623.1	.	.	.	.	.	.	.	.	.	.	T	10.78	1.445773	0.25987	.	.	ENSG00000213809	ENST00000240618;ENST00000540818	T;T	0.01474	4.85;4.85	4.24	1.81	0.25067	.	0.304503	0.23859	N	0.043877	T	0.01661	0.0053	L	0.36672	1.1	0.09310	N	1	B;B;B	0.26775	0.056;0.159;0.081	B;B;B	0.29524	0.029;0.103;0.028	T	0.46527	-0.9185	10	0.34782	T	0.22	.	4.666	0.12666	0.1788:0.0:0.2431:0.5781	.	43;24;43	Q8WZ67;Q1HEA1;P26718	.;.;NKG2D_HUMAN	E	43	ENSP00000240618:K43E;ENSP00000446003:K43E	ENSP00000240618:K43E	K	-	1	0	KLRK1	10430790	0.005000	0.15991	0.001000	0.08648	0.025000	0.11179	0.895000	0.28363	0.250000	0.21479	0.455000	0.32223	AAA		0.323	KLRK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400269.1	NM_007360		C	10539523	T	C	10539523	3	2	703	1	0	0	0	0	1	0	0	0	8430	1821	63	3	547	3	KLRK1	12	10539523	Missense_Mutation	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	4082459	10539523	123312372	85	46281										
PTPRO	5800	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	15673198	15673198	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ttaccatggtgacgtggggaGatccagaattgagctgctgt	14	7	0	4			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr12:15673198G>A	ENST00000281171.4	+	10	2173	c.1843G>A	c.(1843-1845)Gat>Aat	p.D615N	PTPRO_ENST00000348962.2_Missense_Mutation_p.D615N	NM_030667.2	NP_109592.1	Q16827	PTPRO_HUMAN	protein tyrosine phosphatase, receptor type, O	615	Fibronectin type-III 6. {ECO:0000255|PROSITE-ProRule:PRU00316}.				axon guidance (GO:0007411)|cell morphogenesis (GO:0000902)|glomerular visceral epithelial cell differentiation (GO:0072112)|glomerulus development (GO:0032835)|lamellipodium assembly (GO:0030032)|monocyte chemotaxis (GO:0002548)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of cell-substrate adhesion (GO:0010812)|negative regulation of glomerular filtration (GO:0003105)|negative regulation of neuron projection development (GO:0010977)|negative regulation of retinal ganglion cell axon guidance (GO:0090260)|peptidyl-tyrosine dephosphorylation (GO:0035335)|protein dephosphorylation (GO:0006470)|regulation of glomerular filtration (GO:0003093)|slit diaphragm assembly (GO:0036060)	apical plasma membrane (GO:0016324)|axon (GO:0030424)|dendritic spine (GO:0043197)|extracellular vesicular exosome (GO:0070062)|growth cone (GO:0030426)|integral component of membrane (GO:0016021)|integral component of plasma membrane (GO:0005887)|lamellipodium (GO:0030027)|lateral plasma membrane (GO:0016328)|neuron projection (GO:0043005)|plasma membrane (GO:0005886)	phosphatase activity (GO:0016791)|protein homodimerization activity (GO:0042803)|protein tyrosine phosphatase activity (GO:0004725)|transmembrane receptor protein tyrosine phosphatase activity (GO:0005001)|Wnt-protein binding (GO:0017147)			NS(2)|central_nervous_system(1)|endometrium(7)|kidney(2)|large_intestine(11)|lung(30)|ovary(2)|prostate(1)|skin(17)|upper_aerodigestive_tract(1)	74		Hepatocellular(102;0.244)				GACGTGGGGAGATCCAGAATT	0.478																																																0													138	124	129					12																	15673198		2203	4300	6503	SO:0001583	missense	5800			U20489	CCDS8674.1, CCDS8675.1, CCDS44837.1, CCDS53754.1	12p13-p12	2013-02-11			ENSG00000151490	ENSG00000151490		"Protein tyrosine phosphatases / Class I Cys-based PTPs : Transmembrane receptor-like", "Fibronectin type III domain containing"	9678	protein-coding gene	gene with protein product	"osteoclastic transmembrane protein-tyrosine phosphatase"	600579				7519601, 7665166, 21722858	Standard	NM_030667		Approved	PTPU2, GLEPP1, PTP-U2, PTP-oc, NPHS6	uc001rcv.2	Q16827	OTTHUMG00000168786	ENST00000281171.4:c.1843G>A	12.37:g.15673198G>A	ENSP00000281171:p.Asp615Asn	Somatic		WXS	Illumina HiSeq	Phase_I	A0AV39|Q13101|Q8IYG3|Q9UBF0|Q9UBT5	Missense_Mutation	SNP	ENST00000281171.4	37	CCDS8675.1	.	.	.	.	.	.	.	.	.	.	G	28.9	4.956744	0.92726	.	.	ENSG00000151490	ENST00000281171;ENST00000348962	T;T	0.53640	3.8;0.61	5.2	5.2	0.72013	Fibronectin, type III (3);Immunoglobulin-like fold (1);	0.249218	0.27922	N	0.017316	T	0.41558	0.1164	N	0.19112	0.55	0.80722	D	1	P;P	0.41188	0.741;0.624	B;B	0.43658	0.426;0.245	T	0.44952	-0.9294	10	0.72032	D	0.01	.	17.0929	0.86627	0.0:0.0:1.0:0.0	.	615;615	Q16827-2;Q16827	.;PTPRO_HUMAN	N	615	ENSP00000281171:D615N;ENSP00000343434:D615N	ENSP00000281171:D615N	D	+	1	0	PTPRO	15564465	1.000000	0.71417	1.000000	0.80357	0.984000	0.73092	8.851000	0.92205	2.689000	0.91719	0.655000	0.94253	GAT		0.478	PTPRO-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000401079.1			A	15673198	G	A	15673198	3	1	703	1	0	0	0	0	1	0	0	0	12822	942	33	2	1881	2	PTPRO	12	15673198	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	5133675	15673198	118178697	86	46282										
DDN	23109	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	49391677	49391677	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ttggggatggctgtcgctacCactgttcaggtcagcagcag	14	10	2	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr12:49391677C>T	ENST00000421952.2	-	2	1003	c.982G>A	c.(982-984)Ggt>Agt	p.G328S	RP11-386G11.5_ENST00000547395.1_RNA|RP11-386G11.5_ENST00000552284.1_RNA|RP11-386G11.5_ENST00000552933.1_RNA|RP11-386G11.5_ENST00000547866.1_RNA|RP11-386G11.3_ENST00000549516.1_RNA	NM_015086.1	NP_055901.2	O94850	DEND_HUMAN	dendrin	328						cell projection (GO:0042995)|cytoplasm (GO:0005737)|dendrite (GO:0030425)|endoplasmic reticulum (GO:0005783)|nucleus (GO:0005634)|plasma membrane (GO:0005886)				NS(1)|kidney(1)|large_intestine(1)|lung(3)|prostate(1)|stomach(1)	8						CTGTCGCTACCACTGTTCAGG	0.677																																																0													46	53	51					12																	49391677		2203	4299	6502	SO:0001583	missense	23109			AB018292	CCDS31791.2	12q13	2008-02-05			ENSG00000181418	ENSG00000181418			24458	protein-coding gene	gene with protein product		610588					Standard	NM_015086		Approved	KIAA0749	uc001rsv.1	O94850	OTTHUMG00000156183	ENST00000421952.2:c.982G>A	12.37:g.49391677C>T	ENSP00000390590:p.Gly328Ser	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000421952.2	37	CCDS31791.2	.	.	.	.	.	.	.	.	.	.	C	18.60	3.658359	0.67586	.	.	ENSG00000181418	ENST00000421952	T	0.44881	0.91	3.88	2.05	0.26809	.	0.148751	0.31601	N	0.007378	T	0.21387	0.0515	N	0.24115	0.695	0.09310	N	1	P	0.40909	0.732	B	0.31191	0.125	T	0.10776	-1.0615	10	0.42905	T	0.14	-3.234	7.9639	0.30087	0.0:0.798:0.0:0.202	.	328	O94850	DEND_HUMAN	S	328	ENSP00000390590:G328S	ENSP00000390590:G328S	G	-	1	0	DDN	47677944	0.000000	0.05858	0.001000	0.08648	0.743000	0.42351	0.617000	0.24359	0.617000	0.30160	0.561000	0.74099	GGT		0.677	DDN-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000343335.1			T	49391677	C	T	49391677	3	4	703	1	0	0	0	0	1	0	0	0	4335	594	21	2	1157	2	DDN	12	49391677	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	33718479	49391677	84460218	87	46283										
METAP2	10988	broad.mit.edu	37	chr12	95867964	95867964	+	Silent	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ctctcgggcaacatggcgggTgtggaggaggtagcggcctc	18	10	1	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr12:95867964T>G	ENST00000323666.5	+	1	238	c.9T>G	c.(7-9)ggT>ggG	p.G3G	METAP2_ENST00000261220.9_Silent_p.G3G|METAP2_ENST00000546753.1_Silent_p.G3G|METAP2_ENST00000551840.1_Silent_p.G3G|METAP2_ENST00000550777.1_Silent_p.G3G	NM_006838.3	NP_006829.1			methionyl aminopeptidase 2											endometrium(3)|large_intestine(2)|lung(7)|prostate(1)	13						ACATGGCGGGTGTGGAGGAGG	0.652																																																0													34	42	39					12																	95867964		2203	4297	6500	SO:0001819	synonymous_variant	10988			U13261	CCDS9052.1	12q22	2014-09-04			ENSG00000111142		3.4.11.18		16672	protein-coding gene	gene with protein product	"Peptidase M"	601870				7644482, 8858118	Standard	NM_006838		Approved	MNPEP, p67, MAP2	uc001tec.3	P50579	OTTHUMG00000170280	ENST00000323666.5:c.9T>G	12.37:g.95867964T>G		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000323666.5	37	CCDS9052.1																																																																																				0.652	METAP2-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000408296.1	NM_006838		G	95867964	T	G	95867964	2	3	703	1	0	0	0	0	0	0	0	1	9494	1683	59	5		5	METAP2	12	95867964	Silent	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	46476287	95867964	37983931	88	46284										
TCP11L2	255394	broad.mit.edu	37	chr12	106729801	106729811	+	Splice_Site	DEL	ATATGTTAGAC	ATATGTTAGAC	-													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tatttttatattttaaataaAtatgttagacacttatgaca							TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	ATATGTTAGAC	ATATGTTAGAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr12:106729801_106729811delATATGTTAGAC	ENST00000299045.3	+	8	1134_1136	c.960_962delATATGTTAGAC	c.(958-963)gaatat>gat	p.EY320fs		NM_152772.1	NP_689985.1	Q8N4U5	T11L2_HUMAN	t-complex 11, testis-specific-like 2	320										endometrium(2)|kidney(2)|large_intestine(5)|ovary(3)|prostate(1)|urinary_tract(2)	15						ttttaaataaatatGTTAGACACTTATGACA	0.327																																																0																																										SO:0001630	splice_region_variant	255394			BC033617	CCDS9104.1, CCDS66456.1	12q23.3	2014-08-12	2012-09-20		ENSG00000166046	ENSG00000166046			28627	protein-coding gene	gene with protein product			"t-complex 11 (mouse) like 2", "t-complex 11 (mouse)-like 2"				Standard	XM_005268769		Approved	MGC40368	uc001tln.3	Q8N4U5	OTTHUMG00000170087	ENST00000299045.3:c.961-1ATATGTTAGAC>-	12.37:g.106729801_106729811delATATGTTAGAC		Somatic		WXS	Illumina HiSeq	Phase_I	B2RA65|G3V1Y9	Frame_Shift_Del	DEL	ENST00000299045.3	37	CCDS9104.1																																																																																				0.327	TCP11L2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000407206.1	NM_152772	Frame_Shift_Del	-	106729811	ATATGTTAGAC	-	106729801	8	5	703	1	0	1	0	1	0	0	1	0	15727	116	4	0		0	TCP11L2	12	106729801	Splice_Site	DEL	ATATGTTAGAC	TCGA-Q2-A5QZ-01A-11D-A28G-10	10861837	106729801	27122094	89	46285										
C12orf24	29902	hgsc.bcm.edu	37	chr12	110906786	110906786	+	Missense_Mutation	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	agcgtagctcttctgcagagCcgcccgctgtggccgggacc	14	15	2	1	rs202079205	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr12:110906786C>T	ENST00000377673.5	+	1	618	c.106C>T	c.(106-108)Ccg>Tcg	p.P36S	GPN3_ENST00000228827.3_5'Flank|GPN3_ENST00000537466.2_5'Flank|GPN3_ENST00000552180.1_5'UTR|GPN3_ENST00000543199.1_5'Flank	NM_013300.2	NP_037432.2	Q8WUB2	F216A_HUMAN	family with sequence similarity 216, member A	36																	TTCTGCAGAGCCGCCCGCTGT	0.771													C|||	12	0.00239617	0.0091	0.0	5008	,	,		13111	0.0		0.0	False		,,,				2504	0.0															0								C	SER/PRO	24,3054		0,24,1515	2	2	2		106	3.3	0.1	12		2	0,6186		0,0,3093	yes	missense	C12orf24	NM_013300.2	74	0,24,4608	TT,TC,CC		0.0,0.7797,0.2591	probably-damaging	36/274	110906786	24,9240	1539	3093	4632	SO:0001583	missense	29902			U79274	CCDS31899.1	12q24.11	2012-02-07	2012-02-07	2012-02-07	ENSG00000204856	ENSG00000204856			30180	protein-coding gene	gene with protein product			"chromosome 12 open reading frame 24"	C12orf24			Standard	NM_013300		Approved	HSU79274	uc001tqu.4	Q8WUB2	OTTHUMG00000169526	ENST00000377673.5:c.106C>T	12.37:g.110906786C>T	ENSP00000366901:p.Pro36Ser	Somatic		WXS	Illumina HiSeq	Phase_I	A6NH30|Q99776	Missense_Mutation	SNP	ENST00000377673.5	37	CCDS31899.1	.	.	.	.	.	.	.	.	.	.	C	21.6	4.171608	0.78452	0.007797	0.0	ENSG00000204856	ENST00000377673;ENST00000538285	T	0.51071	0.72	4.16	3.27	0.37495	.	0.000000	0.39544	N	0.001336	T	0.32645	0.0836	L	0.56769	1.78	0.27811	N	0.942126	B;B	0.30709	0.291;0.129	B;B	0.26693	0.072;0.031	T	0.41645	-0.9497	10	0.87932	D	0	-0.6948	9.2806	0.37727	0.0:0.8974:0.0:0.1026	.	36;36	F5GZE4;Q8WUB2	.;CL024_HUMAN	S	36	ENSP00000366901:P36S	ENSP00000366901:P36S	P	+	1	0	C12orf24	109391169	0.943000	0.32029	0.132000	0.22025	0.895000	0.52256	2.944000	0.49034	1.096000	0.41439	0.462000	0.41574	CCG		0.771	FAM216A-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404616.1	NM_013300		T	110906786	C	T	110906786	3	4	703	1	0	0	0	0	1	0	0	0	1680	739	26	2	108	2	C12orf24	12	110906786	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	4176985	110906786	22945109	90	46286										
RAD9B	160760	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr12	110969392	110969392	+	3'UTR	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tttgcagtgtgctgcaggaaAgaatttaatggaagtgatgc	13	4	0	2	rs139110749	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr12:110969392A>G	ENST00000354300.3	-	0	6653				RAD9B_ENST00000409300.1_3'UTR|RAD9B_ENST00000409425.1_3'UTR|RAD9B_ENST00000409246.1_3'UTR|RAD9B_ENST00000392672.4_Silent_p.K416K|RAD9B_ENST00000409778.3_Missense_Mutation_p.K311R	NM_139283.1	NP_644812.1	Q8NI37	PPTC7_HUMAN	PTC7 protein phosphatase homolog (S. cerevisiae)							mitochondrion (GO:0005739)	metal ion binding (GO:0046872)|phosphoprotein phosphatase activity (GO:0004721)			endometrium(1)|large_intestine(2)|lung(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	9						GCTGCAGGAAAGAATTTAATG	0.353																																																0													94	83	87					12																	110969392		1566	3582	5148	SO:0001624	3_prime_UTR_variant	144715			AF385435	CCDS9149.1	12q24.11	2009-11-05				ENSG00000196850			30695	protein-coding gene	gene with protein product	"T cell activation protein phosphatase 2C"	609668				15177553	Standard	NM_139283		Approved	TA-PP2C	uc001trh.1	Q8NI37	OTTHUMG00000169529	ENST00000354300.3:c.*5450T>C	12.37:g.110969392A>G		Somatic		WXS	Illumina HiSeq	Phase_I	B3KWC5|Q68DZ7|Q6UY82	Silent	SNP	ENST00000354300.3	37	CCDS9149.1	.	.	.	.	.	.	.	.	.	.	A	13.82	2.352501	0.41700	.	.	ENSG00000151164	ENST00000409778	T	0.19250	2.16	4.49	2.08	0.27032	.	155.184000	0.02530	U	0.093532	T	0.15609	0.0376	.	.	.	0.09310	N	1	B	0.26635	0.155	B	0.23574	0.047	T	0.21211	-1.0252	9	0.40728	T	0.16	14.2473	4.9792	0.14157	0.6246:0.1916:0.0:0.1837	.	311	B4DYM6	.	R	311	ENSP00000386697:K311R	ENSP00000386697:K311R	K	+	2	0	RAD9B	109453775	0.009000	0.17119	0.001000	0.08648	0.372000	0.29890	1.856000	0.39389	0.343000	0.23821	0.397000	0.26171	AAG		0.353	PPTC7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404635.1	NM_139283		G	110969392	A	G	110969392	1	3	703	0	1	0	0	0	0	0	0	0	13009	69	3	3		3	RAD9B	12	110969392	3'UTR	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	62606	110969392	22882503	91	46287										
CUX2	23316	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr12	111785758	111785759	+	Frame_Shift_Ins	INS	-	-	A													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ctgtccctcacttcatccccINSaacaggagagtgaggccggg							TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr12:111785758_111785759insA	ENST00000261726.6	+	22	4244_4245	c.4090_4091insA	c.(4090-4092)caafs	p.Q1364fs		NM_015267.3	NP_056082.2	O14529	CUX2_HUMAN	cut-like homeobox 2	1364	Pro-rich.				cellular response to organic substance (GO:0071310)|cognition (GO:0050890)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|positive regulation of dendrite morphogenesis (GO:0050775)|positive regulation of dendritic spine morphogenesis (GO:0061003)|positive regulation of excitatory postsynaptic membrane potential (GO:2000463)|positive regulation of gene expression (GO:0010628)|positive regulation of synapse assembly (GO:0051965)|short-term memory (GO:0007614)|transcription, DNA-templated (GO:0006351)	extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	RNA polymerase II regulatory region sequence-specific DNA binding (GO:0000977)|sequence-specific DNA binding (GO:0043565)			NS(1)|breast(2)|central_nervous_system(1)|endometrium(2)|large_intestine(9)|lung(24)|ovary(5)|prostate(4)|skin(3)|upper_aerodigestive_tract(2)|urinary_tract(2)	55						ACTTCATCCCCAACAGGAGAGT	0.604																																																0																																										SO:0001589	frameshift_variant	23316			AB006631	CCDS41837.1	12q24.12	2011-06-20	2007-11-07	2007-11-07	ENSG00000111249	ENSG00000111249		"Homeoboxes / CUT class"	19347	protein-coding gene	gene with protein product		610648	"cut-like 2 (Drosophila)"	CUTL2			Standard	NM_015267		Approved	KIAA0293, CDP2	uc001tsa.2	O14529	OTTHUMG00000169546	ENST00000261726.6:c.4092dupA	12.37:g.111785760_111785760dupA	ENSP00000261726:p.Gln1364fs	Somatic		WXS	Illumina HiSeq	Phase_I	A7E2Y4	Frame_Shift_Ins	INS	ENST00000261726.6	37	CCDS41837.1																																																																																				0.604	CUX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000404765.1	NM_015267		A	111785759	-	A	111785758	7	5	703	1	0	1	1	0	0	0	0	0	4067	595	21	0	4176	0	CUX2	12	111785758	Frame_Shift_Ins	INS	-	TCGA-Q2-A5QZ-01A-11D-A28G-10	816366	111785758	22066137	92	46288										
RBM19	9904	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	114385205	114385205	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tcagggaacatgaaggtgatGaatgcaaaacccttgggttt	12	6	1	3			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr12:114385205G>A	ENST00000545145.2	-	11	1419	c.1341C>T	c.(1339-1341)ttC>ttT	p.F447F	RBM19_ENST00000392561.3_Silent_p.F447F|RBM19_ENST00000261741.5_Silent_p.F447F	NM_001146699.1	NP_001140171.1	Q9Y4C8	RBM19_HUMAN	RNA binding motif protein 19	447	RRM 3. {ECO:0000255|PROSITE- ProRule:PRU00176}.				multicellular organismal development (GO:0007275)|positive regulation of embryonic development (GO:0040019)	chromosome (GO:0005694)|cytoplasm (GO:0005737)|membrane (GO:0016020)|nucleolus (GO:0005730)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(2)|large_intestine(10)|liver(1)|lung(22)|ovary(1)|skin(3)|stomach(4)	55	Medulloblastoma(191;0.163)|all_neural(191;0.178)					TGAAGGTGATGAATGCAAAAC	0.602																																																0													144	122	130					12																	114385205		2203	4300	6503	SO:0001819	synonymous_variant	9904			AL117547	CCDS9172.1	12q24.21	2013-02-12				ENSG00000122965		"RNA binding motif (RRM) containing"	29098	protein-coding gene	gene with protein product						9734811, 11230166	Standard	NM_016196		Approved	DKFZp586F1023, KIAA0682	uc009zwi.2	Q9Y4C8	OTTHUMG00000169646	ENST00000545145.2:c.1341C>T	12.37:g.114385205G>A		Somatic		WXS	Illumina HiSeq	Phase_I	A8K5X9|Q9BPY6|Q9UFN5	Silent	SNP	ENST00000545145.2	37	CCDS9172.1																																																																																				0.602	RBM19-003	KNOWN	alternative_3_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405251.1	NM_016196		A	114385205	G	A	114385205	2	1	703	1	0	0	0	0	0	0	0	1	13134	1281	45	2		2	RBM19	12	114385205	Silent	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	2599447	114385205	19466690	93	46289										
BRI3BP	140707	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr12	125509640	125509640	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ctggcctactggttcttgtcCctgaccctgggcttcacttt	9	14	2	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr12:125509640C>A	ENST00000341446.8	+	3	511	c.420C>A	c.(418-420)tcC>tcA	p.S140S		NM_080626.5	NP_542193.3			BRI3 binding protein											large_intestine(1)|lung(8)|ovary(1)	10	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.35e-05)|Epithelial(86;0.000426)|all cancers(50;0.00576)		GGTTCTTGTCCCTGACCCTGG	0.632																																																0													100	83	89					12																	125509640		2203	4300	6503	SO:0001819	synonymous_variant	140707			AF284094	CCDS9262.1	12q24.1	2008-08-04			ENSG00000184992	ENSG00000184992			14251	protein-coding gene	gene with protein product		615627				11860200, 17765869	Standard	NM_080626		Approved	BNAS1, KG19, HCCR-2	uc001uha.1	Q8WY22	OTTHUMG00000168548	ENST00000341446.8:c.420C>A	12.37:g.125509640C>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000341446.8	37	CCDS9262.1																																																																																				0.632	BRI3BP-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000400200.2	NM_080626		A	125509640	C	A	125509640	2	1	703	1	0	0	0	0	0	0	0	1	1515	610	22	4		4	BRI3BP	12	125509640	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	11124435	125509640	8342255	94	46290										
N6AMT2	221143	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	21306119	21306119	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	attctttcgggtaagtccaaTggattattgtaatcatagaa	8	5	2	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr13:21306119T>C	ENST00000382758.1	-	4	416	c.369A>G	c.(367-369)ccA>ccG	p.P123P	N6AMT2_ENST00000382754.4_Silent_p.P123P			Q8WVE0	N6MT2_HUMAN	N-6 adenine-specific DNA methyltransferase 2 (putative)	123						extracellular vesicular exosome (GO:0070062)	methyltransferase activity (GO:0008168)|nucleic acid binding (GO:0003676)			endometrium(1)|large_intestine(3)|lung(3)	7		all_cancers(29;5.91e-19)|all_epithelial(30;1.42e-15)|all_lung(29;5.9e-14)|Lung SC(185;0.0367)		all cancers(112;0.000234)|Epithelial(112;0.000471)|OV - Ovarian serous cystadenocarcinoma(117;0.0111)|Lung(94;0.0161)|LUSC - Lung squamous cell carcinoma(192;0.0431)		GTAAGTCCAATGGATTATTGT	0.378																																																0													121	116	118					13																	21306119		2203	4300	6503	SO:0001819	synonymous_variant	221143			AK055408	CCDS9293.1	13q12.11	2006-12-14			ENSG00000150456	ENSG00000150456			27351	protein-coding gene	gene with protein product						12477932	Standard	NM_174928		Approved		uc001uno.1	Q8WVE0	OTTHUMG00000016519	ENST00000382758.1:c.369A>G	13.37:g.21306119T>C		Somatic		WXS	Illumina HiSeq	Phase_I	B5G4V1	Silent	SNP	ENST00000382758.1	37	CCDS9293.1																																																																																				0.378	N6AMT2-002	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000044083.1	NM_174928		C	21306119	T	C	21306119	2	2	703	1	0	0	0	0	0	0	0	1	10122	1451	51	3		3	N6AMT2	13	21306119	Silent	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10		21306119	93863759	95	46291										
FARP1	10160	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr13	99092299	99092299	+	Splice_Site	SNP	T	T	A	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ccatcatcgtggccgccaggTaactcgggagcccgcccctt	11	17	1	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr13:99092299T>A	ENST00000319562.6	+	22	2781		c.e22+2		FARP1_ENST00000595437.1_Splice_Site|FARP1_ENST00000376586.2_Splice_Site	NM_005766.2	NP_005757.1	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF (ARHGEF) and pleckstrin domain protein 1 (chondrocyte-derived)						dendrite morphogenesis (GO:0048813)|negative regulation of phosphatase activity (GO:0010923)|positive regulation of Rac GTPase activity (GO:0032855)|positive regulation of Rho GTPase activity (GO:0032321)|synapse assembly (GO:0007416)	cell junction (GO:0030054)|cytoplasm (GO:0005737)|cytoskeleton (GO:0005856)|cytosol (GO:0005829)|dendrite (GO:0030425)|extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)|synapse (GO:0045202)	Rac guanyl-nucleotide exchange factor activity (GO:0030676)|Rho guanyl-nucleotide exchange factor activity (GO:0005089)			breast(3)|endometrium(6)|kidney(6)|large_intestine(13)|lung(16)|ovary(1)|skin(3)|urinary_tract(1)	49	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			GGCCGCCAGGTAACTCGGGAG	0.627																																																0													103	116	112					13																	99092299		2203	4300	6503	SO:0001630	splice_region_variant	10160			AB008430	CCDS9487.1, CCDS32000.1, CCDS66572.1	13q32.2	2013-01-10			ENSG00000152767	ENSG00000152767		"Rho guanine nucleotide exchange factors", "Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits", "Pleckstrin homology (PH) domain containing"	3591	protein-coding gene	gene with protein product	"protein phosphatase 1, regulatory subunit 75"	602654				9425278	Standard	NM_005766		Approved	CDEP, PLEKHC2, MGC87400, PPP1R75	uc001vnj.3	Q9Y4F1	OTTHUMG00000017248	ENST00000319562.6:c.2516+2T>A	13.37:g.99092299T>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q5JVI9|Q6IQ29	Splice_Site	SNP	ENST00000319562.6	37	CCDS9487.1	.	.	.	.	.	.	.	.	.	.	T	27.6	4.843475	0.91197	.	.	ENSG00000152767	ENST00000376586;ENST00000319562	.	.	.	5.07	5.07	0.68467	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	14.0308	0.64615	0.0:0.0:0.0:1.0	.	.	.	.	.	-1	.	.	.	+	.	.	FARP1	97890300	1.000000	0.71417	0.999000	0.59377	0.910000	0.53928	5.986000	0.70563	1.917000	0.55516	0.533000	0.62120	.		0.627	FARP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000045541.3	NM_005766	Intron	A	99092299	T	A	99092299	5	1	703	1	0	0	0	0	0	0	1	0	5683	1652	57	5	2823	5	FARP1	13	99092299	Splice_Site	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	77786180	99092299	16077579	96	46292										
FLJ10357	55701	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr14	21543565	21543565	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ctgtgcaggaaggaaaagggGacaacattccagaagaggcc	14	8	0	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr14:21543565G>C	ENST00000298694.4	+	4	1652	c.1525G>C	c.(1525-1527)Gac>Cac	p.D509H	ARHGEF40_ENST00000298693.3_Missense_Mutation_p.D509H			Q8TER5	ARH40_HUMAN	Rho guanine nucleotide exchange factor (GEF) 40	509						cytoplasm (GO:0005737)	Rho guanyl-nucleotide exchange factor activity (GO:0005089)			large_intestine(4)|ovary(3)|upper_aerodigestive_tract(2)	9						AGGAAAAGGGGACAACATTCC	0.557																																																0													131	127	128					14																	21543565		2203	4300	6503	SO:0001583	missense	55701				CCDS32041.1	14q11.2	2012-07-24			ENSG00000165801	ENSG00000165801		"Rho guanine nucleotide exchange factors"	25516	protein-coding gene	gene with protein product		610018				16143467	Standard	NM_001278529		Approved	solo, FLJ10357	uc001vzp.3	Q8TER5		ENST00000298694.4:c.1525G>C	14.37:g.21543565G>C	ENSP00000298694:p.Asp509His	Somatic		WXS	Illumina HiSeq	Phase_I	A5PL07|Q9BWP5|Q9H7L6|Q9NTF9|Q9NW24	Missense_Mutation	SNP	ENST00000298694.4	37	CCDS32041.1	.	.	.	.	.	.	.	.	.	.	G	0.307	-0.970175	0.02232	.	.	ENSG00000165801	ENST00000298694;ENST00000555038;ENST00000298693	T;T	0.02472	4.34;4.28	5.12	2.29	0.28610	.	0.113584	0.39210	N	0.001427	T	0.02230	0.0069	N	0.22421	0.69	0.09310	N	1	B;B	0.06786	0.0;0.001	B;B	0.09377	0.002;0.004	T	0.44329	-0.9335	10	0.40728	T	0.16	.	7.8371	0.29376	0.0851:0.308:0.6069:0.0	.	509;509	Q8TER5;G3V3N2	ARH40_HUMAN;.	H	509	ENSP00000298694:D509H;ENSP00000298693:D509H	ENSP00000298693:D509H	D	+	1	0	ARHGEF40	20613405	0.142000	0.22610	0.001000	0.08648	0.002000	0.02628	1.389000	0.34453	0.272000	0.22027	-0.225000	0.12378	GAC		0.557	ARHGEF40-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413122.1			C	21543565	G	C	21543565	3	2	703	1	0	0	0	0	1	0	0	0	5933	1174	41	4	1539	4	FLJ10357	14	21543565	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10		21543565	85805975	97	46293										
KIAA1737	85457	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	chr14	77580238	77580238	+	Silent	SNP	C	C	T	0	1	0	0	1	0	1	0	1	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	aaagctcccagtctgaccttCgcttcccccgccagtcctgt	7	18	1	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr14:77580238C>T	ENST00000361786.2	+	4	1094	c.777C>T	c.(775-777)ttC>ttT	p.F259F	RP11-463C8.4_ENST00000557752.1_Intron	NM_033426.2	NP_219494.2	Q9C0C6	CIPC_HUMAN		259					negative regulation of circadian rhythm (GO:0042754)|negative regulation of transcription, DNA-templated (GO:0045892)|rhythmic process (GO:0048511)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)				endometrium(2)|lung(4)|prostate(3)	9			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0284)		GTCTGACCTTCGCTTCCCCCG	0.572																																																0													84	68	74					14																	77580238		2203	4300	6503	SO:0001819	synonymous_variant	85457																														ENST00000361786.2:c.777C>T	14.37:g.77580238C>T		Somatic		WXS	Illumina HiSeq	Phase_I	B2RCI1|Q8N389|Q8NDZ1	Silent	SNP	ENST00000361786.2	37	CCDS9855.1																																																																																				0.572	KIAA1737-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000414278.1			T	77580238	C	T	77580238	2	4	703	1	0	0	0	0	0	0	0	1	8262	883	31	1		1	KIAA1737	14	77580238	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	56036673	77580238	29769302	98	46294										
ITPK1	3705	hgsc.bcm.edu	37	chr14	93408017	93408017	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ggcagcttggcggtgccgccCgcgtcggcctcagccttcca	14	17	1	0	rs563090061	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr14:93408017C>T	ENST00000267615.6	-	11	1307	c.1134G>A	c.(1132-1134)gcG>gcA	p.A378A	ITPK1_ENST00000354313.3_Intron|ITPK1_ENST00000555495.1_Silent_p.A259A|ITPK1_ENST00000556603.2_Silent_p.A378A			Q13572	ITPK1_HUMAN	inositol-tetrakisphosphate 1-kinase	378					blood coagulation (GO:0007596)|dephosphorylation (GO:0016311)|inositol phosphate metabolic process (GO:0043647)|inositol trisphosphate metabolic process (GO:0032957)|signal transduction (GO:0007165)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)	ATP binding (GO:0005524)|catalytic activity (GO:0003824)|inositol tetrakisphosphate 1-kinase activity (GO:0047325)|inositol-1,3,4,5,6-pentakisphosphate 1-phosphatase activity (GO:0052825)|inositol-1,3,4,6-tetrakisphosphate 1-phosphatase activity (GO:0052831)|inositol-1,3,4,6-tetrakisphosphate 6-phosphatase activity (GO:0052830)|inositol-1,3,4-trisphosphate 5-kinase activity (GO:0052726)|inositol-1,3,4-trisphosphate 6-kinase activity (GO:0052725)|inositol-3,4,6-trisphosphate 1-kinase activity (GO:0052835)|isomerase activity (GO:0016853)|magnesium ion binding (GO:0000287)			endometrium(1)|large_intestine(3)|lung(6)|ovary(1)	11		all_cancers(154;0.077)|all_epithelial(191;0.247)		Epithelial(152;0.124)|all cancers(159;0.169)		CGGTGCCGCCCGCGTCGGCCT	0.736													C|||	4	0.000798722	0.0008	0.0014	5008	,	,		13386	0.001		0.0	False		,,,				2504	0.001															0													3	3	3					14																	93408017		1665	3314	4979	SO:0001819	synonymous_variant	3705			U51336	CCDS9907.1, CCDS45157.1	14q32.12	2012-08-16	2011-04-28		ENSG00000100605	ENSG00000100605	2.7.1.134		6177	protein-coding gene	gene with protein product		601838	"inositol 1,3,4-triphosphate 5/6 kinase"			8662638, 11042108	Standard	NM_014216		Approved		uc001ybh.3	Q13572	OTTHUMG00000171226	ENST00000267615.6:c.1134G>A	14.37:g.93408017C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q9BTL6|Q9H2E7	Silent	SNP	ENST00000267615.6	37	CCDS9907.1																																																																																				0.736	ITPK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412421.2	NM_014216		T	93408017	C	T	93408017	2	4	703	1	0	0	0	0	0	0	0	1	7923	639	23	1		1	ITPK1	14	93408017	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	15827779	93408017	13941523	99	46295										
CASC5	57082	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	40915310	40915310	+	Missense_Mutation	SNP	G	G	T	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tagtgtttgtagataatcatGttgaactagaaatgacagag	10	3	1	5			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr15:40915310G>T	ENST00000346991.5	+	11	3316	c.2926G>T	c.(2926-2928)Gtt>Ttt	p.V976F	CASC5_ENST00000399668.2_Missense_Mutation_p.V950F|CASC5_ENST00000527044.1_3'UTR			Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5	976	2 X 104 AA approximate repeats.				acrosome assembly (GO:0001675)|attachment of spindle microtubules to kinetochore (GO:0008608)|CENP-A containing nucleosome assembly (GO:0034080)|mitotic cell cycle (GO:0000278)|mitotic nuclear division (GO:0007067)|negative regulation of phosphatase activity (GO:0010923)|nucleosome assembly (GO:0006334)|protein localization to kinetochore (GO:0034501)|spindle assembly checkpoint (GO:0071173)	acrosomal vesicle (GO:0001669)|cytoplasm (GO:0005737)|cytosol (GO:0005829)|extracellular vesicular exosome (GO:0070062)|kinetochore (GO:0000776)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)				NS(1)|breast(7)|central_nervous_system(1)|endometrium(6)|kidney(4)|large_intestine(13)|lung(16)|skin(3)|stomach(4)|upper_aerodigestive_tract(1)|urinary_tract(1)	57		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		AGATAATCATGTTGAACTAGA	0.378																																																0													92	86	88					15																	40915310		1860	4104	5964	SO:0001583	missense	57082			AF173994	CCDS42023.1, CCDS42024.1	15q14	2013-07-03			ENSG00000137812	ENSG00000137812		"Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"	24054	protein-coding gene	gene with protein product	"cancer/testis antigen 29", "kinetochore null 1 homolog (C. elegans)", "blinkin, bub-linking kinetochore protein", "protein phosphatase 1, regulatory subunit 55"	609173				10980622, 10780384, 18045986	Standard	NM_170589		Approved	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7	uc010bbt.1	Q8NG31	OTTHUMG00000166532	ENST00000346991.5:c.2926G>T	15.37:g.40915310G>T	ENSP00000335463:p.Val976Phe	Somatic		WXS	Illumina HiSeq	Phase_I	Q8NHE1|Q8WXA6|Q9HCK2|Q9NR92	Missense_Mutation	SNP	ENST00000346991.5	37	CCDS42023.1	.	.	.	.	.	.	.	.	.	.	G	11.84	1.757693	0.31137	.	.	ENSG00000137812	ENST00000346991;ENST00000260369;ENST00000399668	T;T	0.16897	2.31;2.31	4.64	0.322	0.15888	.	0.547984	0.17535	N	0.170730	T	0.07503	0.0189	N	0.08118	0	0.09310	N	1	B;B;P	0.39352	0.101;0.009;0.669	B;B;B	0.34652	0.053;0.001;0.187	T	0.24621	-1.0155	10	0.62326	D	0.03	.	9.0014	0.36083	0.436:0.0:0.564:0.0	.	950;976;950	Q8NG31-2;Q8NG31;Q8NG31-4	.;CASC5_HUMAN;.	F	976;950;950	ENSP00000335463:V976F;ENSP00000382576:V950F	ENSP00000260369:V950F	V	+	1	0	CASC5	38702602	0.000000	0.05858	0.020000	0.16555	0.900000	0.52787	-0.061000	0.11693	0.051000	0.15978	0.557000	0.71058	GTT		0.378	CASC5-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000390224.2	NM_144508		T	40915310	G	T	40915310	3	4	703	1	0	0	0	0	1	0	0	0	2665	1377	48	4	2964	4	CASC5	15	40915310	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10		40915310	61616082	100	46296										
TGM7	116179	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	43585144	43585145	+	Missense_Mutation	DNP	GC	GC	TT													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ggtccccagcagctctgacgGcttgggtcctgtgtaggaga					rs267604217		TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr15:43585144_43585145GC>TT	ENST00000452443.2	-	3	205_206	c.201_202GC>AA	c.(199-204)aaGCcg>aaAAcg	p.P68T		NM_052955.2	NP_443187.1	Q96PF1	TGM7_HUMAN	transglutaminase 7	68					peptide cross-linking (GO:0018149)		metal ion binding (GO:0046872)|protein-glutamine gamma-glutamyltransferase activity (GO:0003810)			breast(2)|central_nervous_system(1)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(8)|lung(16)|ovary(2)|prostate(4)|skin(1)	39		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)	AGCTCTGACGGCTTGGGTCCTG	0.559																																																0																																										SO:0001583	missense	116179			AF363393	CCDS32213.1	15q15.2	2004-07-01				ENSG00000159495		"Transglutaminases"	30790	protein-coding gene	gene with protein product	"transglutaminase Z"	606776				11390390	Standard	NM_052955		Approved	TGMZ	uc001zrf.1	Q96PF1		ENST00000452443.2:c.201_202delinsTT	15.37:g.43585144_43585145delinsTT	ENSP00000389466:p.Pro68Thr	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	DNP	ENST00000452443.2	37	CCDS32213.1																																																																																				0.559	TGM7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000432489.1	NM_052955		TT	43585145	GC	TT	43585144	3	4	703	1	0	0	0	0	1	0	0	0	15847	1203	42	4	1974	4	TGM7	15	43585144	Missense_Mutation	DNP	GC	TCGA-Q2-A5QZ-01A-11D-A28G-10	2669834	43585144	58946248	101	46297										
HDC	3067	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	50535435	50535435	+	Missense_Mutation	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ttcaaaatatttagccatttCagtaccctggaattgcaagt	6	8	2	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr15:50535435C>T	ENST00000267845.3	-	11	1549	c.1147G>A	c.(1147-1149)Gaa>Aaa	p.E383K	HDC_ENST00000543581.1_Missense_Mutation_p.E350K|RN7SL494P_ENST00000461517.2_RNA	NM_002112.3	NP_002103.2	Q9UBI9	HDC_HUMAN	histidine decarboxylase	0					respiratory tube development (GO:0030323)	membrane (GO:0016020)				breast(1)|central_nervous_system(1)|endometrium(2)|large_intestine(13)|lung(25)|ovary(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	50		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)		TTAGCCATTTCAGTACCCTGG	0.403																																					GBM(95;1627 1936 6910 9570)											0													65	65	65					15																	50535435		2196	4295	6491	SO:0001583	missense	3067				CCDS10134.1	15q21.2	2013-09-20			ENSG00000140287	ENSG00000140287	4.1.1.22		4855	protein-coding gene	gene with protein product		142704				1487235	Standard	NM_002112		Approved		uc001zxz.3	P19113	OTTHUMG00000131644	ENST00000267845.3:c.1147G>A	15.37:g.50535435C>T	ENSP00000267845:p.Glu383Lys	Somatic		WXS	Illumina HiSeq	Phase_I		Missense_Mutation	SNP	ENST00000267845.3	37	CCDS10134.1	.	.	.	.	.	.	.	.	.	.	C	16.16	3.043666	0.55003	.	.	ENSG00000140287	ENST00000267845;ENST00000543581	T;T	0.39592	1.07;1.07	5.82	4.9	0.64082	Pyridoxal phosphate-dependent transferase, major region, subdomain 2 (1);Pyridoxal phosphate-dependent transferase, major domain (1);	0.280579	0.41605	N	0.000857	T	0.37972	0.1023	L	0.28694	0.88	0.58432	D	0.999998	P;P	0.35894	0.526;0.526	B;B	0.43508	0.422;0.307	T	0.10200	-1.0640	10	0.18276	T	0.48	-10.5182	14.7799	0.69756	0.0:0.9307:0.0:0.0693	.	350;383	B7ZM01;P19113	.;DCHS_HUMAN	K	383;350	ENSP00000267845:E383K;ENSP00000440252:E350K	ENSP00000267845:E383K	E	-	1	0	HDC	48322727	0.999000	0.42202	0.897000	0.35233	0.970000	0.65996	3.899000	0.56288	1.462000	0.47948	0.467000	0.42956	GAA		0.403	HDC-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254540.1			T	50535435	C	T	50535435	3	4	703	1	0	0	0	0	1	0	0	0	7022	835	29	2	849	2	HDC	15	50535435	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	6950291	50535435	51995957	102	46298										
MYO5C	55930	hgsc.bcm.edu	37	chr15	52500781	52500781	+	Silent	SNP	G	G	T	1	0	0	1	0	1	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ctgtactgcttcaggcaattGagaaaatgacaagtgttgga	11	6	1	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr15:52500781G>T	ENST00000261839.7	-	36	4517	c.4356C>A	c.(4354-4356)ctC>ctA	p.L1452L	RP11-430B1.2_ENST00000560518.1_lincRNA	NM_018728.3	NP_061198.2	Q9NQX4	MYO5C_HUMAN	myosin VC	1452	Dilute. {ECO:0000255|PROSITE- ProRule:PRU00503}.					extracellular vesicular exosome (GO:0070062)|myosin complex (GO:0016459)	ATP binding (GO:0005524)|motor activity (GO:0003774)			breast(1)|central_nervous_system(3)|cervix(1)|endometrium(8)|kidney(7)|large_intestine(15)|lung(12)|ovary(7)|prostate(3)|skin(6)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	66				all cancers(107;0.0137)		TCAGGCAATTGAGAAAATGAC	0.438											OREG0023129	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)																																				0													105	107	106					15																	52500781		1889	4099	5988	SO:0001819	synonymous_variant	55930			AF272390	CCDS42036.1	15q21	2011-09-27				ENSG00000128833		"Myosins / Myosin superfamily : Class V"	7604	protein-coding gene	gene with protein product	"myosin 5C"	610022				11870218	Standard	NM_018728		Approved	MGC74969	uc010bff.3	Q9NQX4		ENST00000261839.7:c.4356C>A	15.37:g.52500781G>T		Somatic	985	WXS	Illumina HiSeq	Phase_I	Q6P1W8	Silent	SNP	ENST00000261839.7	37	CCDS42036.1																																																																																				0.438	MYO5C-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000419562.1	NM_018728		T	52500781	G	T	52500781	2	4	703	1	0	0	0	0	0	0	0	1	10087	1277	45	4		4	MYO5C	15	52500781	Silent	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	1965346	52500781	50030611	103	46299										
CSPG4	1464	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr15	75982866	75982866	+	Silent	SNP	G	G	C	1	0	0	0	0	1	1	1	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tcgggggtcagaggccggagGaggctgcggccattgagggt	21	8	1	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr15:75982866G>C	ENST00000308508.5	-	3	632	c.540C>G	c.(538-540)ctC>ctG	p.L180L		NM_001897.4	NP_001888.2	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4	180	Globular or compact configuration stabilized by disulfide bonds.|Laminin G-like 1. {ECO:0000255|PROSITE- ProRule:PRU00122}.|Neurite growth inhibition. {ECO:0000250}.				activation of MAPK activity (GO:0000187)|angiogenesis (GO:0001525)|carbohydrate metabolic process (GO:0005975)|cell proliferation (GO:0008283)|chondroitin sulfate biosynthetic process (GO:0030206)|chondroitin sulfate catabolic process (GO:0030207)|chondroitin sulfate metabolic process (GO:0030204)|dermatan sulfate biosynthetic process (GO:0030208)|glial cell migration (GO:0008347)|glycosaminoglycan metabolic process (GO:0030203)|intracellular signal transduction (GO:0035556)|positive regulation of peptidyl-tyrosine phosphorylation (GO:0050731)|small molecule metabolic process (GO:0044281)|tissue remodeling (GO:0048771)|transmembrane receptor protein tyrosine kinase signaling pathway (GO:0007169)	cell projection (GO:0042995)|cell surface (GO:0009986)|extracellular region (GO:0005576)|extracellular vesicular exosome (GO:0070062)|focal adhesion (GO:0005925)|Golgi lumen (GO:0005796)|integral component of plasma membrane (GO:0005887)|lysosomal lumen (GO:0043202)	protein kinase binding (GO:0019901)|signal transducer activity (GO:0004871)			breast(1)|cervix(2)|endometrium(5)|kidney(5)|large_intestine(3)|liver(2)|lung(18)|ovary(2)|pancreas(2)|prostate(4)|skin(4)	48						GAGGCCGGAGGAGGCTGCGGC	0.647																																																0													35	40	38					15																	75982866		2147	4173	6320	SO:0001819	synonymous_variant	1464			X96753, AY359468	CCDS10284.1	15q24.2	2010-04-19	2007-02-16		ENSG00000173546	ENSG00000173546		"Proteoglycans / Cell surface : Other"	2466	protein-coding gene	gene with protein product	"melanoma-associated chondroitin sulfate proteoglycan"	601172	"chondroitin sulfate proteoglycan 4 (melanoma-associated)"			8790396, 16407841	Standard	NM_001897		Approved	MCSPG, MEL-CSPG, MSK16, NG2, MCSP, HMW-MAA	uc002baw.3	Q6UVK1	OTTHUMG00000142836	ENST00000308508.5:c.540C>G	15.37:g.75982866G>C		Somatic		WXS	Illumina HiSeq	Phase_I	D3DW77|Q92675	Silent	SNP	ENST00000308508.5	37	CCDS10284.1																																																																																				0.647	CSPG4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000286472.1	NM_001897		C	75982866	G	C	75982866	2	2	703	1	0	0	0	0	0	0	0	1	3962	1161	41	4		4	CSPG4	15	75982866	Silent	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	23482085	75982866	26548526	104	46300										
HMOX2	3163	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	4557977	4557977	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gtggcccatgcatacacccgCtacatgggggatctctcggg	13	13	1	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr16:4557977C>T	ENST00000570646.1	+	4	1073	c.468C>T	c.(466-468)cgC>cgT	p.R156R	HMOX2_ENST00000414777.1_Silent_p.R156R|HMOX2_ENST00000219700.6_Silent_p.R156R|HMOX2_ENST00000406590.2_Silent_p.R156R|HMOX2_ENST00000458134.3_Silent_p.R156R|HMOX2_ENST00000575120.1_Silent_p.R127R|HMOX2_ENST00000398595.3_Silent_p.R156R	NM_002134.3	NP_002125.3	P30519	HMOX2_HUMAN	heme oxygenase (decycling) 2	156					cellular iron ion homeostasis (GO:0006879)|heme catabolic process (GO:0042167)|heme oxidation (GO:0006788)|porphyrin-containing compound metabolic process (GO:0006778)|response to hypoxia (GO:0001666)|response to oxidative stress (GO:0006979)|small molecule metabolic process (GO:0044281)|transmembrane transport (GO:0055085)	endoplasmic reticulum membrane (GO:0005789)|membrane (GO:0016020)|plasma membrane (GO:0005886)	heme oxygenase (decyclizing) activity (GO:0004392)|metal ion binding (GO:0046872)			endometrium(1)|large_intestine(4)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	8						CATACACCCGCTACATGGGGG	0.617																																																0													39	43	41					16																	4557977		2197	4300	6497	SO:0001819	synonymous_variant	3163				CCDS10517.1, CCDS66931.1, CCDS73818.1	16p13.3	2008-02-05			ENSG00000103415	ENSG00000103415	1.14.99.3		5014	protein-coding gene	gene with protein product		141251				1575508	Standard	NM_002134		Approved	HO-2	uc002cwq.4	P30519	OTTHUMG00000129473	ENST00000570646.1:c.468C>T	16.37:g.4557977C>T		Somatic		WXS	Illumina HiSeq	Phase_I	A8MT35|D3DUD5|I3L430|O60605	Silent	SNP	ENST00000570646.1	37	CCDS10517.1																																																																																				0.617	HMOX2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000251636.2			T	4557977	C	T	4557977	2	4	703	1	0	0	0	0	0	0	0	1	7251	784	28	2		2	HMOX2	16	4557977	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10		4557977	85796776	105	46301										
LAT	27040	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chr16	28996234	28996234	+	5'Flank	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ctgtccccgtcttgggggggGccagcagacccttggtgagt	16	12	1	2	rs572112079	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr16:28996234G>A	ENST00000360872.5	+	0	0				LAT_ENST00000454369.2_5'Flank|LAT_ENST00000395461.3_Missense_Mutation_p.A18T|LAT_ENST00000564277.1_5'Flank|LAT_ENST00000354453.4_5'Flank|LAT_ENST00000566177.1_5'Flank|LAT_ENST00000395456.2_5'Flank|RP11-264B17.3_ENST00000569969.1_RNA			O43561	LAT_HUMAN	linker for activation of T cells						blood coagulation (GO:0007596)|calcium-mediated signaling (GO:0019722)|Fc-epsilon receptor signaling pathway (GO:0038095)|gene expression (GO:0010467)|immune response (GO:0006955)|inflammatory response (GO:0006954)|innate immune response (GO:0045087)|integrin-mediated signaling pathway (GO:0007229)|intracellular signal transduction (GO:0035556)|lymphocyte homeostasis (GO:0002260)|mast cell degranulation (GO:0043303)|platelet activation (GO:0030168)|positive regulation of signal transduction (GO:0009967)|Ras protein signal transduction (GO:0007265)|regulation of T cell activation (GO:0050863)|T cell activation (GO:0042110)|T cell receptor signaling pathway (GO:0050852)	cell-cell junction (GO:0005911)|COP9 signalosome (GO:0008180)|immunological synapse (GO:0001772)|integral component of membrane (GO:0016021)|mast cell granule (GO:0042629)|membrane raft (GO:0045121)|plasma membrane (GO:0005886)	protein kinase binding (GO:0019901)|SH3/SH2 adaptor activity (GO:0005070)			large_intestine(2)|lung(3)|urinary_tract(1)	6		Hepatocellular(780;0.244)				CTTGGGGGGGGCCAGCAGACC	0.731																																																0													7	8	8					16																	28996234		690	1584	2274	SO:0001631	upstream_gene_variant	27040			AF036905	CCDS10647.1, CCDS32425.1, CCDS45455.1, CCDS53999.1	16q13	2011-11-01			ENSG00000213658	ENSG00000213658			18874	protein-coding gene	gene with protein product	"linker for activation of T cells, transmembrane adaptor"	602354				9489702	Standard	NM_014387		Approved	LAT1	uc010vdj.2	O43561	OTTHUMG00000131761		16.37:g.28996234G>A	Exception_encountered	Somatic		WXS	Illumina HiSeq	Phase_I	B7WPI0|C7C5T6|G5E9K3|O43919	Missense_Mutation	SNP	ENST00000360872.5	37	CCDS10647.1	.	.	.	.	.	.	.	.	.	.	G	10.06	1.247385	0.22880	.	.	ENSG00000213658	ENST00000395461	.	.	.	2.5	-1.56	0.08532	.	.	.	.	.	T	0.16128	0.0388	N	0.08118	0	0.19300	N	0.999973	B	0.02656	0.0	B	0.01281	0.0	T	0.21655	-1.0239	8	0.87932	D	0	-0.7971	3.9972	0.09564	0.1852:0.4888:0.326:0.0	.	18	B7WPI0	.	T	18	.	ENSP00000378845:A18T	A	+	1	0	LAT	28903735	0.000000	0.05858	0.002000	0.10522	0.036000	0.12997	-0.751000	0.04803	-0.063000	0.13065	-0.264000	0.10439	GCC		0.731	LAT-001	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000254688.2			A	28996234	G	A	28996234	1	1	703	0	1	0	0	0	0	0	0	0	8651	1203	42	2		2	LAT	16	28996234	5'Flank	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	24438257	28996234	61358519	106	46302										
PRRT2	112476	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr16	29825753	29825753	+	Missense_Mutation	SNP	A	A	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	cgctggtggggggagtcctcAtcatcatcgcctcctgcgtc	13	14	3	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr16:29825753A>C	ENST00000358758.7	+	3	1262	c.979A>C	c.(979-981)Atc>Ctc	p.I327L	AC009133.20_ENST00000569039.1_RNA|PAGR1_ENST00000609618.1_5'Flank|AC009133.14_ENST00000569981.1_RNA|PRRT2_ENST00000567659.1_Missense_Mutation_p.I327L|PAGR1_ENST00000320330.6_5'Flank|PRRT2_ENST00000300797.6_3'UTR	NM_001256442.1|NM_001256443.1|NM_145239.2	NP_001243371.1|NP_001243372.1|NP_660282.2	Q7Z6L0	PRRT2_HUMAN	proline-rich transmembrane protein 2	327					neuromuscular process controlling posture (GO:0050884)|response to biotic stimulus (GO:0009607)	cell junction (GO:0030054)|integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)|synapse (GO:0045202)				central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(3)|ovary(1)|upper_aerodigestive_tract(1)	8						GGGAGTCCTCATCATCATCGC	0.642																																																0													73	81	78					16																	29825753		2197	4300	6497	SO:0001583	missense	112476			BC011405	CCDS10654.1, CCDS58445.1, CCDS58446.1	16p11.2	2014-02-03			ENSG00000167371	ENSG00000167371		"Proline-rich transmembrane proteins"	30500	protein-coding gene	gene with protein product	"interferon induced transmembrane protein domain containing 1"	614386	"infantile convulsions and paroxysmal choreoathetosis"	ICCA		22101681, 22243967	Standard	NM_145239		Approved	FLJ25513, DKFZp547J199, IFITMD1, FICCA	uc002dud.3	Q7Z6L0	OTTHUMG00000177142	ENST00000358758.7:c.979A>C	16.37:g.29825753A>C	ENSP00000351608:p.Ile327Leu	Somatic		WXS	Illumina HiSeq	Phase_I	A8K8M8|Q8N2N8|Q8NAQ7|Q8ND36|Q96FA8	Missense_Mutation	SNP	ENST00000358758.7	37	CCDS10654.1	.	.	.	.	.	.	.	.	.	.	A	19.38	3.815687	0.70912	.	.	ENSG00000167371	ENST00000358758	D	0.85339	-1.97	3.71	3.71	0.42584	.	0.745808	0.12408	N	0.471504	D	0.86410	0.5926	N	0.25380	0.74	0.80722	D	1	D;D	0.63046	0.992;0.99	D;D	0.76071	0.987;0.978	T	0.82796	-0.0280	10	0.40728	T	0.16	-8.8013	10.7234	0.46052	1.0:0.0:0.0:0.0	.	327;327	Q7Z6L0;Q7Z6L0-2	PRRT2_HUMAN;.	L	327	ENSP00000351608:I327L	ENSP00000351608:I327L	I	+	1	0	PRRT2	29733254	1.000000	0.71417	1.000000	0.80357	0.993000	0.82548	2.922000	0.48860	1.481000	0.48307	0.372000	0.22366	ATC		0.642	PRRT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255161.3	NM_145239		C	29825753	A	C	29825753	3	2	703	1	0	0	0	0	1	0	0	0	12620	217	8	5	985	5	PRRT2	16	29825753	Missense_Mutation	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	829519	29825753	60529000	107	46303										
ESRP2	80004	broad.mit.edu	37	chr16	68267896	68267896	+	Splice_Site	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ggttttccttcaggagcataCcttcctggaggcctcggggt	13	11	1	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr16:68267896C>G	ENST00000565858.1	-	3	528		c.e3+1		ESRP2_ENST00000473183.2_Splice_Site|RP11-96D1.6_ENST00000564147.1_RNA	NM_024939.2	NP_079215.2	Q9H6T0	ESRP2_HUMAN	epithelial splicing regulatory protein 2						mRNA processing (GO:0006397)|regulation of RNA splicing (GO:0043484)|RNA splicing (GO:0008380)	nucleus (GO:0005634)	mRNA binding (GO:0003729)|nucleotide binding (GO:0000166)|poly(A) RNA binding (GO:0044822)			NS(1)|central_nervous_system(1)|kidney(2)|large_intestine(4)|lung(5)|ovary(1)|prostate(2)	16						CAGGAGCATACCTTCCTGGAG	0.617																																																0													47	46	46					16																	68267896		2198	4300	6498	SO:0001630	splice_region_variant	80004			AK025571	CCDS10863.1	16q22.1	2013-02-12	2009-03-10	2009-03-10	ENSG00000103067	ENSG00000103067		"RNA binding motif (RRM) containing"	26152	protein-coding gene	gene with protein product		612960	"RNA binding motif protein 35B"	RBM35B		12477932	Standard	NM_024939		Approved	FLJ21918	uc002evq.1	Q9H6T0	OTTHUMG00000137557	ENST00000565858.1:c.441+1G>C	16.37:g.68267896C>G		Somatic		WXS	Illumina HiSeq	Phase_I	Q8N6H8|Q8WZ15|Q9H6I4	Splice_Site	SNP	ENST00000565858.1	37		.	.	.	.	.	.	.	.	.	.	C	20.9	4.072387	0.76415	.	.	ENSG00000103067	ENST00000473183	.	.	.	5.33	5.33	0.75918	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	17.5613	0.87908	0.0:1.0:0.0:0.0	.	.	.	.	.	-1	.	.	.	-	.	.	ESRP2	66825397	1.000000	0.71417	1.000000	0.80357	0.942000	0.58702	7.127000	0.77210	2.663000	0.90544	0.655000	0.94253	.		0.617	ESRP2-004	KNOWN	basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000433083.1	NM_024939	Intron	G	68267896	C	G	68267896	5	3	703	1	0	0	0	0	0	0	1	0	5261	521	18	4	1763	4	ESRP2	16	68267896	Splice_Site	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	38442143	68267896	22086857	108	46304										
DHX38	9785	broad.mit.edu	37	chr16	72141342	72141342	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tgctgctgctcaagtccctcGgggtgcaggacctgctgcag	14	13	1	0	rs374391366		TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr16:72141342G>A	ENST00000268482.3	+	20	3213	c.2704G>A	c.(2704-2706)Ggg>Agg	p.G902R	DHX38_ENST00000536867.1_Missense_Mutation_p.G214R	NM_014003.3	NP_054722.2	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	902	Helicase C-terminal. {ECO:0000255|PROSITE-ProRule:PRU00542}.				gene expression (GO:0010467)|mRNA 3'-end processing (GO:0031124)|mRNA export from nucleus (GO:0006406)|mRNA splicing, via spliceosome (GO:0000398)|RNA splicing (GO:0008380)|termination of RNA polymerase II transcription (GO:0006369)|transcription from RNA polymerase II promoter (GO:0006366)	catalytic step 2 spliceosome (GO:0071013)|membrane (GO:0016020)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	ATP binding (GO:0005524)|ATP-dependent helicase activity (GO:0008026)|poly(A) RNA binding (GO:0044822)			endometrium(5)|kidney(1)|large_intestine(16)|lung(15)|pancreas(1)|prostate(2)|skin(5)|stomach(2)|upper_aerodigestive_tract(1)	48		Ovarian(137;0.125)				CAAGTCCCTCGGGGTGCAGGA	0.597																																					Melanoma(97;711 1442 7855 13832 28836)											0								G	ARG/GLY	2,4394	4.2+/-10.8	0,2,2196	42	37	38		2704	5.3	1	16		38	0,8600		0,0,4300	no	missense	DHX38	NM_014003.3	125	0,2,6496	AA,AG,GG		0.0,0.0455,0.0154	possibly-damaging	902/1228	72141342	2,12994	2198	4300	6498	SO:0001583	missense	9785			AF038391	CCDS10907.1	16q22	2008-02-05	2003-06-13	2003-06-20	ENSG00000140829	ENSG00000140829		"DEAH-boxes"	17211	protein-coding gene	gene with protein product		605584	"DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 38"	DDX38		9524131, 9039502	Standard	NM_014003		Approved	PRP16, KIAA0224, hPrp16, PRPF16	uc002fcb.3	Q92620	OTTHUMG00000137596	ENST00000268482.3:c.2704G>A	16.37:g.72141342G>A	ENSP00000268482:p.Gly902Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B4DVG8|D3DWS7|O75212|Q96HN7	Missense_Mutation	SNP	ENST00000268482.3	37	CCDS10907.1	.	.	.	.	.	.	.	.	.	.	G	25.6	4.651253	0.88056	4.55E-4	0.0	ENSG00000140829	ENST00000268482;ENST00000536867	T;T	0.04156	3.69;3.69	5.28	5.28	0.74379	Helicase, C-terminal (1);	0.125696	0.52532	D	0.000067	T	0.14743	0.0356	M	0.85462	2.755	0.80722	D	1	D;P	0.53885	0.963;0.936	B;P	0.45449	0.429;0.481	T	0.01604	-1.1314	10	0.72032	D	0.01	.	18.7055	0.91637	0.0:0.0:1.0:0.0	.	214;902	B4DVG8;Q92620	.;PRP16_HUMAN	R	902;214	ENSP00000268482:G902R;ENSP00000437898:G214R	ENSP00000268482:G902R	G	+	1	0	DHX38	70698843	1.000000	0.71417	0.966000	0.40874	0.973000	0.67179	9.190000	0.94934	2.745000	0.94114	0.655000	0.94253	GGG		0.597	DHX38-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269004.3	NM_014003		A	72141342	G	A	72141342	3	1	703	1	0	0	0	0	1	0	0	0	4513	1116	39	1	2778	1	DHX38	16	72141342	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	3873446	72141342	18213411	109	46305										
ZFHX3	463	hgsc.bcm.edu;broad.mit.edu	37	chr16	72923790	72923790	+	Frame_Shift_Del	DEL	G	G	-													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	aggttgagcttggccttggtGgagtagttgcacagaacgca							TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr16:72923790delG	ENST00000268489.5	-	4	3960	c.3288delC	c.(3286-3288)tccfs	p.S1096fs	ZFHX3_ENST00000397992.5_Frame_Shift_Del_p.S182fs	NM_006885.3	NP_008816.3	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3	1096					brain development (GO:0007420)|cell cycle arrest (GO:0007050)|muscle organ development (GO:0007517)|negative regulation of myoblast differentiation (GO:0045662)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|positive regulation of myoblast differentiation (GO:0045663)|regulation of neuron differentiation (GO:0045664)|regulation of transcription, DNA-templated (GO:0006355)|transcription from RNA polymerase II promoter (GO:0006366)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|transcription factor complex (GO:0005667)	enzyme binding (GO:0019899)|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity (GO:0003705)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)|transcription regulatory region DNA binding (GO:0044212)|zinc ion binding (GO:0008270)			NS(3)|breast(7)|cervix(2)|endometrium(18)|haematopoietic_and_lymphoid_tissue(5)|kidney(8)|large_intestine(22)|liver(1)|lung(46)|ovary(5)|pancreas(1)|prostate(15)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(11)	153		Ovarian(137;0.13)				TGGCCTTGGTGGAGTAGTTGC	0.557																																																0													107	75	86					16																	72923790		2198	4300	6498	SO:0001589	frameshift_variant	463			D10250	CCDS10908.1, CCDS54035.1	16q22.3	2012-03-09	2007-08-09	2007-08-09	ENSG00000140836	ENSG00000140836		"Zinc fingers, C2H2-type", "Homeoboxes / ZF class"	777	protein-coding gene	gene with protein product		104155	"AT-binding transcription factor 1"	ATBF1		1719379, 7592926	Standard	NM_006885		Approved	ZNF927	uc002fck.3	Q15911	OTTHUMG00000137599	ENST00000268489.5:c.3288delC	16.37:g.72923790delG	ENSP00000268489:p.Ser1096fs	Somatic		WXS	Illumina HiSeq	Phase_I	D3DWS8|O15101|Q13719	Frame_Shift_Del	DEL	ENST00000268489.5	37	CCDS10908.1																																																																																				0.557	ZFHX3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000269008.1	NM_006885		-	72923790	G	-	72923790	7	5	703	1	0	1	0	1	0	0	0	0	17646	1335	47	0	7851	0	ZFHX3	16	72923790	Frame_Shift_Del	DEL	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	782448	72923790	17430963	110	46306										
TNK1	8711	hgsc.bcm.edu	37	chr17	7287558	7287558	+	Silent	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gtcatgggcgggccccgcccTatcccctacgcctggtgaga	13	16	1	1	rs17853470	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr17:7287558T>C	ENST00000576812.1	+	6	1221	c.852T>C	c.(850-852)ccT>ccC	p.P284P	TNK1_ENST00000570896.1_Silent_p.P284P|TNK1_ENST00000311668.2_Silent_p.P284P	NM_001251902.1	NP_001238831.1			tyrosine kinase, non-receptor, 1											central_nervous_system(1)|endometrium(6)|kidney(2)|large_intestine(4)|lung(2)|pancreas(1)	16		Prostate(122;0.157)				GGCCCCGCCCTATCCCCTACG	0.746													.|||	51	0.0101837	0.0008	0.0317	5008	,	,		12772	0.0		0.0239	False		,,,				2504	0.0041															0								C		2,2808		0,2,1403	2	2	2		852	2	1	17	dbSNP_123	2	22,6184		0,22,3081	no	coding-synonymous	TNK1	NM_003985.3		0,24,4484	CC,CT,TT		0.3545,0.0712,0.2662		284/662	7287558	24,8992	1405	3103	4508	SO:0001819	synonymous_variant	8711			U43408	CCDS45602.1, CCDS58510.1	17p13.1	2005-09-22				ENSG00000174292			11940	protein-coding gene	gene with protein product		608076				8632913	Standard	NM_003985		Approved		uc002ggi.4	Q13470		ENST00000576812.1:c.852T>C	17.37:g.7287558T>C		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000576812.1	37	CCDS58510.1																																																																																				0.746	TNK1-001	KNOWN	alternative_5_UTR|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000440832.2	NM_003985		C	7287558	T	C	7287558	2	2	703	1	0	0	0	0	0	0	0	1	16329	1509	53	3		3	TNK1	17	7287558	Silent	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10		7287558	73907652	111	46307										
LYZL6	57151	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	34263772	34263772	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tcctcaccagttgttcatccCccgtgctccggacacaatcc	6	18	2	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr17:34263772C>G	ENST00000585556.1	-	4	698	c.364G>C	c.(364-366)Ggg>Cgg	p.G122R	LYZL6_ENST00000394523.3_Missense_Mutation_p.G122R|LYZL6_ENST00000293274.4_Missense_Mutation_p.G122R|LYZL6_ENST00000492340.2_5'UTR			O75951	LYZL6_HUMAN	lysozyme-like 6	122					cell wall macromolecule catabolic process (GO:0016998)	extracellular region (GO:0005576)	lysozyme activity (GO:0003796)			breast(1)|endometrium(1)|large_intestine(1)|lung(8)|stomach(1)	12				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TTGTTCATCCCCCGTGCTCCG	0.572																																																0													114	103	107					17																	34263772		2203	4300	6503	SO:0001583	missense	57151			AF088219, AY742214	CCDS11302.1	17q11.2	2014-04-10			ENSG00000161572	ENSG00000275722			29614	protein-coding gene	gene with protein product		612751				10213461	Standard	NM_020426		Approved	LYC1, PRO1485, TKAL754	uc002hkj.2	O75951	OTTHUMG00000188400	ENST00000585556.1:c.364G>C	17.37:g.34263772C>G	ENSP00000468094:p.Gly122Arg	Somatic		WXS	Illumina HiSeq	Phase_I	Q6UW30	Missense_Mutation	SNP	ENST00000585556.1	37	CCDS11302.1	.	.	.	.	.	.	.	.	.	.	C	11.76	1.733915	0.30684	.	.	ENSG00000161572	ENST00000293274;ENST00000394523	T;T	0.75589	-0.95;-0.95	4.89	3.9	0.45041	Lysozyme-like domain (1);	0.000000	0.64402	D	0.000001	D	0.88273	0.6392	M	0.93462	3.42	0.09310	N	0.999991	D	0.89917	1.0	D	0.97110	1.0	T	0.81048	-0.1109	10	0.87932	D	0	-6.5656	10.8134	0.46559	0.1893:0.8107:0.0:0.0	.	122	O75951	LYZL6_HUMAN	R	122	ENSP00000293274:G122R;ENSP00000378031:G122R	ENSP00000293274:G122R	G	-	1	0	LYZL6	31287885	0.102000	0.21896	0.008000	0.14137	0.071000	0.16799	1.597000	0.36729	1.168000	0.42723	0.561000	0.74099	GGG		0.572	LYZL6-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000256578.2	NM_020426		G	34263772	C	G	34263772	3	3	703	1	0	0	0	0	1	0	0	0	9141	623	22	4	90	4	LYZL6	17	34263772	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	26976214	34263772	46931438	112	46308										
KRTAP4-11	653240	hgsc.bcm.edu	37	chr17	39274238	39274238	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gacacacagcagctggggcgAcagcagctggagatgcagca	15	11	0	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr17:39274238A>G	ENST00000391413.2	-	1	368	c.330T>C	c.(328-330)tgT>tgC	p.C110C		NM_033059.3	NP_149048.2	Q9BYQ6	KR411_HUMAN	keratin associated protein 4-11	110	27 X 5 AA repeats of C-C-[GIKRQVHEL]- [SPTR]-[STVQRMC].					keratin filament (GO:0045095)				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)			agctggggcgacagcagctgg	0.652																																																0													5	9	8					17																	39274238		657	1550	2207	SO:0001819	synonymous_variant	653240			AC025904	CCDS45675.1	17q21.2	2013-06-25			ENSG00000212721	ENSG00000212721		"Keratin associated proteins"	18911	protein-coding gene	gene with protein product			"keratin associated protein 4-14"	KRTAP4-14			Standard	NM_033059		Approved	KAP4.11, KAP4.14	uc002hvz.3	Q9BYQ6	OTTHUMG00000133586	ENST00000391413.2:c.330T>C	17.37:g.39274238A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0AUY2	Silent	SNP	ENST00000391413.2	37	CCDS45675.1																																																																																				0.652	KRTAP4-11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257690.1			G	39274238	A	G	39274238	2	3	703	1	0	0	0	0	0	0	0	1	8556	273	10	3		3	KRTAP4-11	17	39274238	Silent	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	5010466	39274238	41920972	113	46309										
KRTAP4-3	85290	bcgsc.ca	37	chr17	39324104	39324104	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	caggaaggcctgcagcaactAgaaatgcagcagctggggcg	15	10	0	1	rs368619075		TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr17:39324104A>G	ENST00000391356.2	-	1	320	c.321T>C	c.(319-321)tcT>tcC	p.S107S		NM_033187.1	NP_149443.1	Q9BYR4	KRA43_HUMAN	keratin associated protein 4-3	107	29 X 5 AA repeats of C-C-[GIKRQVH]-[SPT]- [STA].		Missing (in allele KAP3-v2). {ECO:0000269|PubMed:15955084}.		aging (GO:0007568)|hair cycle (GO:0042633)	keratin filament (GO:0045095)		p.S107S(1)		breast(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(2)|upper_aerodigestive_tract(1)	12		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000449)			TGCAGCAACTAGAAATGCAGC	0.597																																																1	Substitution - coding silent(1)	large_intestine(1)											18	23	21					17																	39324104		2109	4252	6361	SO:0001819	synonymous_variant	85290			AJ406935	CCDS42331.1	17q21.2	2013-06-25			ENSG00000196156	ENSG00000196156		"Keratin associated proteins"	18908	protein-coding gene	gene with protein product							Standard	NM_033187		Approved	KAP4.3	uc010cxl.3	Q9BYR4	OTTHUMG00000133639	ENST00000391356.2:c.321T>C	17.37:g.39324104A>G		Somatic		WXS	Illumina HiSeq	Phase_1		Silent	SNP	ENST00000391356.2	37	CCDS42331.1																																																																																				0.597	KRTAP4-3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000257784.1			G	39324104	A	G	39324104	2	3	703	1	0	0	0	0	0	0	0	1	8559	407	15	3		3	KRTAP4-3	17	39324104	Silent	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	49866	39324104	41871106	114	46310										
TTC25	83538	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	40113444	40113444	+	RNA	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	atcatcagagaactgaggaaAaccaactacgtggagaatct	9	8	3	3			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr17:40113444A>T	ENST00000591658.1	+	0	1359							Q96NG3	TTC25_HUMAN	tetratricopeptide repeat domain 25							cytoplasm (GO:0005737)				endometrium(2)|large_intestine(3)|lung(5)|ovary(1)|urinary_tract(1)	12		all_cancers(22;8.16e-06)|Breast(137;0.000143)|all_epithelial(22;0.000236)				AACTGAGGAAAACCAACTACG	0.468																																																0													49	49	49					17																	40113444		1884	4113	5997			83538			AK055498	CCDS74063.1	17q21.2	2014-08-12			ENSG00000204815	ENSG00000204815		"Tetratricopeptide (TTC) repeat domain containing"	25280	protein-coding gene	gene with protein product							Standard	XM_006722129		Approved	DKFZP434H0115	uc002hyj.4	Q96NG3	OTTHUMG00000175837		17.37:g.40113444A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q6NX40|Q6PJ04|Q9H0K5	Missense_Mutation	SNP	ENST00000591658.1	37																																																																																					0.468	TTC25-001	KNOWN	basic	processed_transcript	processed_transcript	OTTHUMT00000449237.1	NM_031421		T	40113444	A	T	40113444	1	4	703	0	1	0	0	0	0	0	0	0	16705	11	1	5		5	TTC25	17	40113444	RNA	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	789340	40113444	41081766	115	46311										
TUBG1	7283	broad.mit.edu;bcgsc.ca	37	chr17	40765685	40765685	+	Silent	SNP	C	C	T	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gtggtgctggacaacacagcCctgaaccggattgccacaga	12	12	0	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr17:40765685C>T	ENST00000251413.3	+	7	689	c.627C>T	c.(625-627)gcC>gcT	p.A209A		NM_001070.4	NP_001061.2	P23258	TBG1_HUMAN	tubulin, gamma 1	209					cytoplasmic microtubule organization (GO:0031122)|G2/M transition of mitotic cell cycle (GO:0000086)|meiotic spindle organization (GO:0000212)|microtubule cytoskeleton organization (GO:0000226)|microtubule nucleation (GO:0007020)|mitotic cell cycle (GO:0000278)	apical part of cell (GO:0045177)|cell leading edge (GO:0031252)|centriole (GO:0005814)|centrosome (GO:0005813)|ciliary basal body (GO:0036064)|condensed nuclear chromosome (GO:0000794)|cytoplasm (GO:0005737)|cytoplasmic microtubule (GO:0005881)|cytosol (GO:0005829)|gamma-tubulin complex (GO:0000930)|nonmotile primary cilium (GO:0031513)|pericentriolar material (GO:0000242)|polar microtubule (GO:0005827)	GTP binding (GO:0005525)|GTPase activity (GO:0003924)|structural constituent of cytoskeleton (GO:0005200)	p.A209A(1)		endometrium(2)|kidney(2)|large_intestine(2)|lung(4)|ovary(1)|prostate(1)	12		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.129)	Vinblastine(DB00570)	ACAACACAGCCCTGAACCGGA	0.562																																					Colon(20;114 698 11420 22864)											1	Substitution - coding silent(1)	large_intestine(1)											176	166	169					17																	40765685		2203	4300	6503	SO:0001819	synonymous_variant	7283			BC000619	CCDS11433.1	17q21.31	2010-03-15	2000-01-20		ENSG00000131462	ENSG00000131462		"Tubulins"	12417	protein-coding gene	gene with protein product		191135	"tubulin, gamma polypeptide"	TUBG		1904010	Standard	NM_001070		Approved	TUBGCP1	uc002ian.3	P23258		ENST00000251413.3:c.627C>T	17.37:g.40765685C>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q53X79|Q9BW59	Silent	SNP	ENST00000251413.3	37	CCDS11433.1																																																																																				0.562	TUBG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000450548.1	NM_001070		T	40765685	C	T	40765685	2	4	703	1	0	0	0	0	0	0	0	1	16776	610	22	2		2	TUBG1	17	40765685	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	652241	40765685	40429525	116	46312										
SOST	50964	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	41835944	41835944	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tccgttctccgcccggttcaTggtcttgttgttctccagct	9	14	4	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr17:41835944T>C	ENST00000301691.2	-	1	212	c.166A>G	c.(166-168)Atg>Gtg	p.M56V		NM_025237.2	NP_079513.1	Q9BQB4	SOST_HUMAN	sclerostin	56					cellular response to parathyroid hormone stimulus (GO:0071374)|negative regulation of BMP signaling pathway (GO:0030514)|negative regulation of canonical Wnt signaling pathway (GO:0090090)|negative regulation of ossification (GO:0030279)|negative regulation of protein complex assembly (GO:0031333)|negative regulation of Wnt signaling pathway involved in dorsal/ventral axis specification (GO:2000054)|ossification (GO:0001503)|positive regulation of transcription, DNA-templated (GO:0045893)|response to mechanical stimulus (GO:0009612)|Wnt signaling pathway (GO:0016055)	extracellular space (GO:0005615)|Golgi apparatus (GO:0005794)|proteinaceous extracellular matrix (GO:0005578)	heparin binding (GO:0008201)|transcription factor binding (GO:0008134)			large_intestine(2)|lung(3)|prostate(1)	6		Breast(137;0.00725)		UCEC - Uterine corpus endometrioid carcinoma (308;0.177)|BRCA - Breast invasive adenocarcinoma(366;0.0741)		GCCCGGTTCATGGTCTTGTTG	0.597																																																0													57	54	55					17																	41835944		2203	4300	6503	SO:0001583	missense	50964			AF326736	CCDS11468.1	17q12-q21	2014-06-28	2010-04-28			ENSG00000167941			13771	protein-coding gene	gene with protein product		605740	"sclerosteosis"			11179006, 11181578	Standard	NM_025237		Approved	VBCH	uc002iec.1	Q9BQB4		ENST00000301691.2:c.166A>G	17.37:g.41835944T>C	ENSP00000301691:p.Met56Val	Somatic		WXS	Illumina HiSeq	Phase_I	Q495N9	Missense_Mutation	SNP	ENST00000301691.2	37	CCDS11468.1	.	.	.	.	.	.	.	.	.	.	T	16.55	3.155167	0.57259	.	.	ENSG00000167941	ENST00000301691	T	0.76578	-1.03	4.26	3.15	0.36227	.	0.404445	0.25642	N	0.029277	T	0.67702	0.2921	L	0.55481	1.735	0.35701	D	0.815622	B	0.33171	0.4	B	0.24394	0.053	T	0.69756	-0.5059	10	0.48119	T	0.1	-0.6649	8.7222	0.34447	0.1693:0.0:0.0:0.8307	.	56	Q9BQB4	SOST_HUMAN	V	56	ENSP00000301691:M56V	ENSP00000301691:M56V	M	-	1	0	SOST	39191470	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	2.993000	0.49425	0.648000	0.30732	0.454000	0.30748	ATG		0.597	SOST-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000453502.1	NM_025237		C	41835944	T	C	41835944	3	2	703	1	0	0	0	0	1	0	0	0	14951	1464	51	3	483	3	SOST	17	41835944	Missense_Mutation	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	1070259	41835944	39359266	117	46313										
HDAC5	10014	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr17	42171119	42171119	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	agagcccaccagagccccccGtagctccacagggctggggc	13	17	0	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr17:42171119G>A	ENST00000393622.2	-	4	509	c.178C>T	c.(178-180)Cgg>Tgg	p.R60W	HDAC5_ENST00000225983.6_Missense_Mutation_p.R61W|HDAC5_ENST00000586802.1_Missense_Mutation_p.R60W|HDAC5_ENST00000336057.5_Missense_Mutation_p.R60W	NM_001015053.1|NM_005474.4	NP_001015053.1|NP_005465.2	Q9UQL6	HDAC5_HUMAN	histone deacetylase 5	60					B cell activation (GO:0042113)|B cell differentiation (GO:0030183)|cellular response to insulin stimulus (GO:0032869)|chromatin modification (GO:0016568)|chromatin organization (GO:0006325)|chromatin remodeling (GO:0006338)|chromatin silencing (GO:0006342)|heart development (GO:0007507)|histone deacetylation (GO:0016575)|inflammatory response (GO:0006954)|multicellular organismal response to stress (GO:0033555)|negative regulation of cell migration involved in sprouting angiogenesis (GO:0090051)|negative regulation of myotube differentiation (GO:0010832)|negative regulation of osteoblast differentiation (GO:0045668)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|Notch signaling pathway (GO:0007219)|osteoblast development (GO:0002076)|positive regulation of sequence-specific DNA binding transcription factor activity (GO:0051091)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|regulation of gene expression, epigenetic (GO:0040029)|regulation of myotube differentiation (GO:0010830)|regulation of protein binding (GO:0043393)|regulation of skeletal muscle fiber development (GO:0048742)|response to cocaine (GO:0042220)|response to drug (GO:0042493)|transcription, DNA-templated (GO:0006351)	cytoplasm (GO:0005737)|cytosol (GO:0005829)|Golgi apparatus (GO:0005794)|histone deacetylase complex (GO:0000118)|nuclear body (GO:0016604)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	core promoter binding (GO:0001047)|histone deacetylase activity (GO:0004407)|metal ion binding (GO:0046872)|NAD-dependent histone deacetylase activity (H3-K14 specific) (GO:0032041)|NAD-dependent histone deacetylase activity (H3-K18 specific) (GO:0097372)|NAD-dependent histone deacetylase activity (H3-K9 specific) (GO:0046969)|NAD-dependent histone deacetylase activity (H4-K16 specific) (GO:0046970)|protein kinase C binding (GO:0005080)|repressing transcription factor binding (GO:0070491)|transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)			central_nervous_system(1)|endometrium(5)|large_intestine(4)|lung(7)|ovary(1)|prostate(2)|skin(1)	21		Breast(137;0.00637)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.118)		AGAGCCCCCCGTAGCTCCACA	0.667																																																0													13	15	15					17																	42171119		2197	4295	6492	SO:0001583	missense	10014			AF249731	CCDS32663.1, CCDS45696.1	17q21	2008-07-18					3.5.1.98		14068	protein-coding gene	gene with protein product		605315				10220385, 9610721	Standard	XM_005256905		Approved	KIAA0600, NY-CO-9, FLJ90614	uc002iff.1	Q9UQL6		ENST00000393622.2:c.178C>T	17.37:g.42171119G>A	ENSP00000377244:p.Arg60Trp	Somatic		WXS	Illumina HiSeq	Phase_I	C9JFV9|O60340|O60528|Q96DY4	Missense_Mutation	SNP	ENST00000393622.2	37	CCDS45696.1	.	.	.	.	.	.	.	.	.	.	G	18.35	3.604577	0.66445	.	.	ENSG00000108840	ENST00000225983;ENST00000393622;ENST00000336057	T;T;T	0.50001	0.78;0.78;0.76	4.14	4.14	0.48551	.	0.240511	0.26859	N	0.022121	T	0.56891	0.2016	L	0.32530	0.975	0.42561	D	0.993142	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.69654	0.965;0.924;0.965;0.924	T	0.63189	-0.6693	10	0.87932	D	0	-23.2017	15.156	0.72743	0.0:0.0:1.0:0.0	.	60;60;61;60	Q9UQL6-2;B4DGT4;Q9UQL6-3;Q9UQL6	.;.;.;HDAC5_HUMAN	W	61;60;60	ENSP00000225983:R61W;ENSP00000377244:R60W;ENSP00000337290:R60W	ENSP00000225983:R61W	R	-	1	2	HDAC5	39526645	0.996000	0.38824	0.992000	0.48379	0.875000	0.50365	3.362000	0.52314	1.858000	0.53909	0.462000	0.41574	CGG		0.667	HDAC5-201	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000457686.1	NM_001015053		A	42171119	G	A	42171119	3	1	703	1	0	0	0	0	1	0	0	0	7017	1144	40	1	3286	1	HDAC5	17	42171119	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	335175	42171119	39024091	118	46314										
PHB	5245	hgsc.bcm.edu;bcgsc.ca	37	chr17	47489082	47489082	+	Frame_Shift_Del	DEL	G	G	-													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	cacattacgtggtcgagaacGgcagtcaaagataattggtt							TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr17:47489082delG	ENST00000300408.3	-	3	280	c.208delC	c.(208-210)cgtfs	p.R70fs	PHB_ENST00000511832.1_Frame_Shift_Del_p.R70fs|PHB_ENST00000508009.1_Intron|RP11-81K2.1_ENST00000576461.1_Intron	NM_001281496.1|NM_001281715.1|NM_002634.2	NP_001268425.1|NP_001268644.1|NP_002625.1	P35232	PHB_HUMAN	prohibitin	70					cellular response to interleukin-6 (GO:0071354)|DNA replication (GO:0006260)|histone deacetylation (GO:0016575)|negative regulation of androgen receptor signaling pathway (GO:0060766)|negative regulation of cell growth (GO:0030308)|negative regulation of cell proliferation (GO:0008285)|negative regulation of glucocorticoid receptor signaling pathway (GO:2000323)|negative regulation of transcription by competitive promoter binding (GO:0010944)|negative regulation of transcription from RNA polymerase II promoter (GO:0000122)|negative regulation of transcription, DNA-templated (GO:0045892)|osteoblast differentiation (GO:0001649)|positive regulation of transcription, DNA-templated (GO:0045893)|progesterone receptor signaling pathway (GO:0050847)|regulation of apoptotic process (GO:0042981)|regulation of transcription, DNA-templated (GO:0006355)|signal transduction (GO:0007165)	cytoplasm (GO:0005737)|extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)|membrane (GO:0016020)|mitochondrial inner membrane (GO:0005743)|mitochondrion (GO:0005739)|nucleoplasm (GO:0005654)|nucleus (GO:0005634)	enzyme binding (GO:0019899)|histone deacetylase binding (GO:0042826)|transcription regulatory region DNA binding (GO:0044212)			endometrium(4)|large_intestine(2)|lung(4)	10	all_cancers(4;2.62e-14)|Breast(4;4.21e-29)|all_epithelial(4;6.9e-18)		Epithelial(5;8.1e-06)|all cancers(6;7.71e-05)			GGTCGAGAACGGCAGTCAAAG	0.488																																																0													96	69	78					17																	47489082		2203	4300	6503	SO:0001589	frameshift_variant	5245				CCDS11548.1, CCDS62244.1	17q21	2010-11-25			ENSG00000167085	ENSG00000167085			8912	protein-coding gene	gene with protein product		176705				10376528, 8244394	Standard	NM_001281496		Approved	PHB1	uc002iox.1	P35232	OTTHUMG00000134271	ENST00000300408.3:c.208delC	17.37:g.47489082delG	ENSP00000300408:p.Arg70fs	Somatic		WXS	Illumina HiSeq	Phase_I	B4DY47|Q4VBQ0	Frame_Shift_Del	DEL	ENST00000300408.3	37	CCDS11548.1																																																																																				0.488	PHB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000258826.1	NM_002634		-	47489082	G	-	47489082	7	5	703	1	0	1	0	1	0	0	0	0	11821	1116	39	0	630	0	PHB	17	47489082	Frame_Shift_Del	DEL	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	5317963	47489082	33706128	119	46315										
NPB	256933	hgsc.bcm.edu	37	chr17	79860378	79860378	+	Silent	SNP	A	A	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ggcgcctccccggagctgcaActgcaccccaggctgcggag	14	17	0	0	rs182909729	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr17:79860378A>G	ENST00000333383.7	+	1	394	c.225A>G	c.(223-225)caA>caG	p.Q75Q	NPB_ENST00000573081.1_Silent_p.Q75Q|PCYT2_ENST00000538936.2_3'UTR	NM_148896.3	NP_683694.1	Q8NG41	NPB_HUMAN	neuropeptide B	75					G-protein coupled receptor signaling pathway (GO:0007186)|neuropeptide signaling pathway (GO:0007218)	extracellular region (GO:0005576)						all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			CGGAGCTGCAACTGCACCCCA	0.776													A|||	48	0.00958466	0.0363	0.0	5008	,	,		8657	0.0		0.0	False		,,,				2504	0.0															0								A		56,2216		0,56,1080	1	2	2		225	-0.5	0	17		2	0,5066		0,0,2533	no	coding-synonymous	NPB	NM_148896.3		0,56,3613	GG,GA,AA		0.0,2.4648,0.7632		75/126	79860378	56,7282	1136	2533	3669	SO:0001819	synonymous_variant	256933				CCDS11790.1	17q25.3	2013-02-26			ENSG00000183979	ENSG00000183979		"Endogenous ligands"	30099	protein-coding gene	gene with protein product	"prepro-NPB"	607996				12118011, 12401809	Standard	NM_148896		Approved	PPL7, PPNPB	uc002kcd.3	Q8NG41	OTTHUMG00000177983	ENST00000333383.7:c.225A>G	17.37:g.79860378A>G		Somatic		WXS	Illumina HiSeq	Phase_I	A0AUX9|A6NJD6|B9EJC3	Silent	SNP	ENST00000333383.7	37	CCDS11790.1																																																																																				0.776	NPB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000440109.2	NM_148896		G	79860378	A	G	79860378	2	3	703	1	0	0	0	0	0	0	0	1	10574	40	2	3		3	NPB	17	79860378	Silent	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10	32371296	79860378	1334832	120	46316										
UTS2R	2837	broad.mit.edu	37	chr17	80333066	80333066	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gtaccaccaggccccgctggCgccgcggacggcgcgcatcg	15	18	0	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr17:80333066C>A	ENST00000313135.2	+	1	914	c.866C>A	c.(865-867)gCg>gAg	p.A289E		NM_018949.1	NP_061822.1	Q9UKP6	UR2R_HUMAN	urotensin 2 receptor	289					blood circulation (GO:0008015)|negative regulation of blood pressure (GO:0045776)|negative regulation of glomerular filtration (GO:0003105)|negative regulation of renal sodium excretion (GO:0035814)|negative regulation of urine volume (GO:0035811)|positive regulation of angiogenesis (GO:0045766)|positive regulation of blood pressure (GO:0045777)|positive regulation of cell growth (GO:0030307)|positive regulation of circadian sleep/wake cycle, REM sleep (GO:0046005)|positive regulation of circadian sleep/wake cycle, wakefulness (GO:0010841)|positive regulation of cytosolic calcium ion concentration (GO:0007204)|positive regulation of fibroblast proliferation (GO:0048146)|positive regulation of vasoconstriction (GO:0045907)|regulation of vasodilation (GO:0042312)|response to drug (GO:0042493)|signal transduction (GO:0007165)	early endosome (GO:0005769)|integral component of membrane (GO:0016021)|membrane (GO:0016020)|plasma membrane (GO:0005886)|recycling endosome (GO:0055037)	G-protein coupled receptor activity (GO:0004930)|urotensin II receptor activity (GO:0001604)			breast(1)|endometrium(4)|kidney(1)|lung(2)	8	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.00928)|BRCA - Breast invasive adenocarcinoma(99;0.0833)			GCCCCGCTGGCGCCGCGGACG	0.672																																																0																																										SO:0001583	missense	2837			AF140631	CCDS11810.1	17q25.3	2013-04-30	2004-07-13	2004-07-13		ENSG00000181408			4468	protein-coding gene	gene with protein product		600896	"G protein-coupled receptor 14"	GPR14		8666380, 10499587	Standard	NM_018949		Approved		uc010wvl.2	Q9UKP6		ENST00000313135.2:c.866C>A	17.37:g.80333066C>A	ENSP00000323516:p.Ala289Glu	Somatic		WXS	Illumina HiSeq	Phase_I	B2RMV8	Missense_Mutation	SNP	ENST00000313135.2	37	CCDS11810.1	.	.	.	.	.	.	.	.	.	.	C	13.69	2.313287	0.40996	.	.	ENSG00000181408	ENST00000313135	T	0.72051	-0.62	4.95	1.39	0.22231	GPCR, rhodopsin-like superfamily (1);	0.338048	0.28257	U	0.016009	T	0.61375	0.2342	N	0.17723	0.515	0.09310	N	1	P	0.42973	0.796	P	0.50791	0.65	T	0.55711	-0.8098	10	0.07644	T	0.81	.	14.9821	0.71319	0.0:0.5448:0.4552:0.0	.	289	Q9UKP6	UR2R_HUMAN	E	289	ENSP00000323516:A289E	ENSP00000323516:A289E	A	+	2	0	UTS2R	77926355	0.000000	0.05858	0.001000	0.08648	0.052000	0.14988	0.380000	0.20602	0.518000	0.28383	0.637000	0.83480	GCG		0.672	UTS2R-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000443506.1	NM_018949		A	80333066	C	A	80333066	3	1	703	1	0	0	0	0	1	0	0	0	17118	768	27	4	868	4	UTS2R	17	80333066	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	472688	80333066	862144	121	46317										
KCTD1	284252	hgsc.bcm.edu	37	chr18	24128223	24128225	+	Intron	DEL	TCC	TCC	-													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ccagccccatctcctcctctTcctcctcctcctcgtcctcc					rs143299522	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	TCC	TCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr18:24128223_24128225delTCC	ENST00000408011.3	-	1	545				KCTD1_ENST00000580059.1_5'Flank|KCTD1_ENST00000579973.1_Intron|KCTD1_ENST00000317932.7_Intron|KCTD1_ENST00000417602.1_In_Frame_Del_p.92_93EE>E	NM_001136205.2	NP_001129677.1	Q719H9	KCTD1_HUMAN	potassium channel tetramerization domain containing 1						negative regulation of transcription, DNA-templated (GO:0045892)|protein homooligomerization (GO:0051260)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	transcription corepressor activity (GO:0003714)|transcription factor binding (GO:0008134)			endometrium(2)|large_intestine(3)|lung(3)|ovary(1)|prostate(3)	12	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)			ctcctcctcttcctcctcctcct	0.655														134	0.0267572	0.0673	0.0086	5008	,	,		6875	0.0		0.008	False		,,,				2504	0.0317															0									,,	187,3139		43,101,1519					,,	-0.1	1		dbSNP_134	4	78,6614		13,52,3281	no	intron,coding,intron	KCTD1	NM_198991.2,NM_001142730.1,NM_001136205.1	,,	56,153,4800	A1A1,A1R,RR		1.1656,5.6224,2.6452	,,	,,		265,9753				SO:0001627	intron_variant	284252			AF542549	CCDS11888.1	18q11.2	2013-09-20	2013-06-20		ENSG00000134504	ENSG00000134504			18249	protein-coding gene	gene with protein product		613420	"potassium channel tetramerisation domain containing 1"	C18orf5			Standard	NM_001142730		Approved		uc010xbj.3	Q719H9	OTTHUMG00000131947	ENST00000408011.3:c.14+629GGA>-	18.37:g.24128232_24128234delTCC		Somatic		WXS	Illumina HiSeq	Phase_I	A8K1F5	In_Frame_Del	DEL	ENST00000408011.3	37	CCDS11888.1																																																																																				0.655	KCTD1-003	KNOWN	alternative_5_UTR|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000446265.1	XM_209091		-	24128225	TCC	-	24128223	6	5	703	0	1	1	0	1	0	0	0	0	8103	1783	62	0		0	KCTD1	18	24128223	Intron	DEL	TCC	TCGA-Q2-A5QZ-01A-11D-A28G-10		24128223	53949025	122	46318										
WDR18	57418	hgsc.bcm.edu	37	chr19	991962	991962	+	Silent	SNP	C	C	T	0	1	1	0	1	0	1	0	1	1	0	1	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ccgcgccccccaggcccagtCaccaatgccgccatcctgct	8	22	1	0	rs200830437	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr19:991962C>T	ENST00000251289.5	+	8	962	c.939C>T	c.(937-939)gtC>gtT	p.V313V	WDR18_ENST00000587001.2_Silent_p.V313V	NM_024100.3	NP_077005.2	Q9BV38	WDR18_HUMAN	WD repeat domain 18	313					multicellular organismal development (GO:0007275)	cytoplasm (GO:0005737)|nucleus (GO:0005634)				endometrium(1)|kidney(2)|lung(2)|skin(2)	7		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGGCCCAGTCACCAATGCCG	0.716													c|||	2	0.000399361	0.0015	0.0	5008	,	,		7424	0.0		0.0	False		,,,				2504	0.0															0								C		6,4168		0,6,2081	7	9	8		939	0.7	1	19		8	0,8224		0,0,4112	no	coding-synonymous	WDR18	NM_024100.3		0,6,6193	TT,TC,CC		0.0,0.1437,0.0484		313/433	991962	6,12392	2087	4112	6199	SO:0001819	synonymous_variant	57418				CCDS12051.1	19p13.3	2013-01-09				ENSG00000065268		"WD repeat domain containing"	17956	protein-coding gene	gene with protein product	"Involved in Processing ITS2 3 homolog (S. cerevisiae)"					22190735	Standard	NM_024100		Approved	Ipi3	uc002lqm.1	Q9BV38		ENST00000251289.5:c.939C>T	19.37:g.991962C>T		Somatic		WXS	Illumina HiSeq	Phase_I	O60390|Q9BWR2	Silent	SNP	ENST00000251289.5	37	CCDS12051.1																																																																																				0.716	WDR18-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458225.2			T	991962	C	T	991962	2	4	703	1	0	0	0	0	0	0	0	1	17290	813	29	2		2	WDR18	19	991962	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10		991962	58137021	123	46319										
DOT1L	84444	hgsc.bcm.edu	37	chr19	2210451	2210451	+	Missense_Mutation	SNP	C	C	G	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gcgcgagagcaagagcaacgCggccacgcccactaagggcc	14	15	0	2	rs138206172	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr19:2210451C>G	ENST00000398665.3	+	13	1094	c.1058C>G	c.(1057-1059)gCg>gGg	p.A353G	AC004490.1_ENST00000585593.1_RNA	NM_032482.2	NP_115871.1	Q8TEK3	DOT1L_HUMAN	DOT1-like histone H3K79 methyltransferase	353					histone lysine methylation (GO:0034968)|regulation of JAK-STAT cascade (GO:0046425)|regulation of transcription regulatory region DNA binding (GO:2000677)	nucleus (GO:0005634)	DNA binding (GO:0003677)|histone-lysine N-methyltransferase activity (GO:0018024)|transcription factor binding (GO:0008134)			NS(1)|breast(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(3)|lung(14)|ovary(2)|pancreas(2)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(9)	42		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)		AAGAGCAACGCGGCCACGCCC	0.726													C|||	3	0.000599042	0.0	0.0014	5008	,	,		14189	0.0		0.002	False		,,,				2504	0.0															0													7	10	9					19																	2210451		1904	4036	5940	SO:0001583	missense	84444			AF509504	CCDS42460.1	19p13.3	2013-05-21	2013-05-21		ENSG00000104885	ENSG00000104885	2.1.1.43	"Chromatin-modifying enzymes / K-methyltransferases"	24948	protein-coding gene	gene with protein product	"histone methyltransferase DOT1L"	607375	"DOT1-like, histone H3 methyltransferase (S. cerevisiae)"			11347906, 12123582	Standard	NM_032482		Approved	KIAA1814, DOT1, KMT4	uc002lvb.4	Q8TEK3	OTTHUMG00000150431	ENST00000398665.3:c.1058C>G	19.37:g.2210451C>G	ENSP00000381657:p.Ala353Gly	Somatic		WXS	Illumina HiSeq	Phase_I	O60379|Q96JL1	Missense_Mutation	SNP	ENST00000398665.3	37	CCDS42460.1	3|3	0.0013736263736263737|0.0013736263736263737	0|0	0.0|0.0	0|0	0.0|0.0	0|0	0.0|0.0	3|3	0.00395778364116095|0.00395778364116095	C|C	14.57|14.57	2.574930|2.574930	0.45902|0.45902	.|.	.|.	ENSG00000104885|ENSG00000104885	ENST00000398665;ENST00000221482|ENST00000440640	T|.	0.23147|.	1.92|.	4.64|4.64	4.64|4.64	0.57946|0.57946	.|.	0.153320|.	0.56097|.	D|.	0.000025|.	T|T	0.43523|0.43523	0.1251|0.1251	N|N	0.22421|0.22421	0.69|0.69	0.31975|0.31975	N|N	0.606602|0.606602	P|.	0.36683|.	0.565|.	B|.	0.40864|.	0.342|.	T|T	0.49153|0.49153	-0.8969|-0.8969	10|5	0.87932|.	D|.	0|.	-12.8566|-12.8566	16.8583|16.8583	0.86011|0.86011	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	353|.	Q8TEK3-2|.	.|.	G|G	353|140	ENSP00000381657:A353G|.	ENSP00000221482:A353G|.	A|R	+|+	2|1	0|2	DOT1L|DOT1L	2161451|2161451	0.996000|0.996000	0.38824|0.38824	0.523000|0.523000	0.27875|0.27875	0.003000|0.003000	0.03518|0.03518	3.247000|3.247000	0.51422|0.51422	2.280000|2.280000	0.76307|0.76307	0.561000|0.561000	0.74099|0.74099	GCG|CGG		0.726	DOT1L-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000318066.1	NM_032482		G	2210451	C	G	2210451	3	3	703	1	0	0	0	0	1	0	0	0	4711	768	27	4	1108	4	DOT1L	19	2210451	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	1218489	2210451	56918532	124	46320										
OR7E24	26648	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr19	9362181	9362181	+	Missense_Mutation	SNP	G	G	C	1	0	0	1	0	1	1	1	0	1	1	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ctgcactaccgaatcatcatGaacccacgcctctgtggctt	7	15	3	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr19:9362181G>C	ENST00000456448.1	+	1	576	c.462G>C	c.(460-462)atG>atC	p.M154I		NM_001079935.1	NP_001073404.1	Q6IFN5	O7E24_HUMAN	olfactory receptor, family 7, subfamily E, member 24	154						integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)|olfactory receptor activity (GO:0004984)			endometrium(1)|large_intestine(3)|lung(8)|ovary(1)|prostate(1)|skin(2)	16						GAATCATCATGAACCCACGCC	0.443																																																0													130	144	139					19																	9362181		2193	4296	6489	SO:0001583	missense	26648			Y10529	CCDS45955.1	19p13.2	2012-08-09	2004-03-04	2004-03-05		ENSG00000237521		"GPCR / Class A : Olfactory receptors"	8396	protein-coding gene	gene with protein product			"olfactory receptor, family 7, subfamily E, member 24 pseudogene"	OR7E24P		9268701	Standard	NM_001079935		Approved	OR19-8, HSHT2, OR7E24Q	uc002mlb.1	Q6IFN5		ENST00000456448.1:c.462G>C	19.37:g.9362181G>C	ENSP00000387523:p.Met154Ile	Somatic		WXS	Illumina HiSeq	Phase_I	B9EJD9|Q9UPJ1	Missense_Mutation	SNP	ENST00000456448.1	37	CCDS45955.1	.	.	.	.	.	.	.	.	.	.	g	10.46	1.356506	0.24598	.	.	ENSG00000237521	ENST00000456448	T	0.00551	6.65	2.39	2.39	0.29439	GPCR, rhodopsin-like superfamily (1);	.	.	.	.	T	0.00906	0.0030	M	0.80847	2.515	0.28275	N	0.924234	B	0.19706	0.038	B	0.16289	0.015	T	0.12293	-1.0553	9	0.66056	D	0.02	.	11.6917	0.51519	0.0:0.0:1.0:0.0	.	154	Q6IFN5	O7E24_HUMAN	I	154	ENSP00000387523:M154I	ENSP00000387523:M154I	M	+	3	0	OR7E24	9223181	0.999000	0.42202	0.492000	0.27490	0.028000	0.11728	2.571000	0.45990	1.353000	0.45828	0.436000	0.28706	ATG		0.443	OR7E24-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000449006.1			C	9362181	G	C	9362181	3	2	703	1	0	0	0	0	1	0	0	0	11228	1290	45	4	464	4	OR7E24	19	9362181	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	7151730	9362181	49766802	125	46321										
MAN2B1	4125	broad.mit.edu;bcgsc.ca	37	chr19	12760979	12760979	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ccgctgtcctgggtacaggcGaaccacctgggaacaccaag	12	14	0	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr19:12760979G>A	ENST00000456935.2	-	17	2144	c.2104C>T	c.(2104-2106)Cgc>Tgc	p.R702C	CTD-2192J16.22_ENST00000597692.1_5'Flank|MAN2B1_ENST00000221363.4_Missense_Mutation_p.R701C	NM_000528.3|NM_001173498.1	NP_000519.2|NP_001166969.1	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	702					cellular protein modification process (GO:0006464)|mannose metabolic process (GO:0006013)|protein deglycosylation (GO:0006517)	extracellular vesicular exosome (GO:0070062)|lysosome (GO:0005764)	alpha-mannosidase activity (GO:0004559)|carbohydrate binding (GO:0030246)|zinc ion binding (GO:0008270)			breast(1)|central_nervous_system(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(9)|lung(10)|ovary(4)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	33						GGGTACAGGCGAACCACCTGG	0.627																																																0													132	111	118					19																	12760979		2203	4300	6503	SO:0001583	missense	4125				CCDS32919.1, CCDS54224.1	19p13.2	2013-09-20			ENSG00000104774	ENSG00000104774	3.2.1.24		6826	protein-coding gene	gene with protein product		609458		MANB			Standard	NM_000528		Approved	LAMAN	uc002mub.2	O00754	OTTHUMG00000156397	ENST00000456935.2:c.2104C>T	19.37:g.12760979G>A	ENSP00000395473:p.Arg702Cys	Somatic		WXS	Illumina HiSeq	Phase_I	G5E928|O15330|Q16680|Q93094|Q9BW13	Missense_Mutation	SNP	ENST00000456935.2	37	CCDS32919.1	.	.	.	.	.	.	.	.	.	.	G	25.7	4.667589	0.88348	.	.	ENSG00000104774	ENST00000456935;ENST00000536796;ENST00000221363	D;D	0.86097	-2.07;-2.07	4.91	4.91	0.64330	Glycosyl hydrolases 38, C-terminal (1);Glycoside hydrolase-type carbohydrate-binding (1);	0.000000	0.45126	D	0.000392	D	0.94565	0.8249	H	0.95328	3.655	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.97110	1.0;1.0	D	0.95872	0.8892	10	0.87932	D	0	-28.1246	15.638	0.76970	0.0:0.0:1.0:0.0	.	701;702	G5E928;O00754	.;MA2B1_HUMAN	C	702;641;701	ENSP00000395473:R702C;ENSP00000221363:R701C	ENSP00000221363:R701C	R	-	1	0	MAN2B1	12621979	1.000000	0.71417	0.999000	0.59377	0.834000	0.47266	7.042000	0.76565	2.564000	0.86499	0.555000	0.69702	CGC		0.627	MAN2B1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000344062.1			A	12760979	G	A	12760979	3	1	703	1	0	0	0	0	1	0	0	0	9223	1058	37	1	963	1	MAN2B1	19	12760979	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	3398798	12760979	46368004	126	46322										
ZNF571	51276	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	chr19	38056037	38056037	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tgatgttcactaagttgtttGccacaaataaaggcctttcc	7	9	1	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr19:38056037G>A	ENST00000328550.2	-	4	1392	c.1293C>T	c.(1291-1293)ggC>ggT	p.G431G	ZNF571-AS1_ENST00000589750.1_RNA|ZNF571-AS1_ENST00000590838.1_RNA|ZNF571-AS1_ENST00000586013.1_RNA|ZNF571-AS1_ENST00000587121.1_RNA|ZNF571_ENST00000590751.1_Intron|ZNF571-AS1_ENST00000586139.1_RNA|ZNF571-AS1_ENST00000585578.1_RNA|ZNF571-AS1_ENST00000592392.1_RNA|ZNF571_ENST00000451802.2_Silent_p.G431G|ZNF571_ENST00000593133.1_Silent_p.G431G|ZNF571-AS1_ENST00000591430.1_RNA|ZNF540_ENST00000592533.1_Intron|ZNF571-AS1_ENST00000589802.1_RNA|ZNF571_ENST00000358744.3_Silent_p.G431G			Q7Z3V5	ZN571_HUMAN	zinc finger protein 571	431					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|sequence-specific DNA binding transcription factor activity (GO:0003700)			breast(1)|endometrium(3)|large_intestine(6)|lung(11)|ovary(1)|skin(2)|upper_aerodigestive_tract(1)	25			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TAAGTTGTTTGCCACAAATAA	0.363																																																0													48	52	51					19																	38056037		2203	4299	6502	SO:0001819	synonymous_variant	51276			AF161544	CCDS12505.1	19q13.12	2013-09-20			ENSG00000180479	ENSG00000180479		"Zinc fingers, C2H2-type", "-"	25000	protein-coding gene	gene with protein product						11042152	Standard	XM_005258977		Approved	HSPC059	uc002ogt.3	Q7Z3V5	OTTHUMG00000182016	ENST00000328550.2:c.1293C>T	19.37:g.38056037G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q2HIY0|Q3ZCU3|Q9NZX7	Silent	SNP	ENST00000328550.2	37	CCDS12505.1																																																																																				0.363	ZNF571-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000458669.1	NM_016536		A	38056037	G	A	38056037	2	1	703	1	0	0	0	0	0	0	0	1	18015	1306	46	2		2	ZNF571	19	38056037	Silent	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	25295058	38056037	21072946	127	46323										
CAPN12	147968	hgsc.bcm.edu	37	chr19	39226803	39226803	+	Silent	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	agagtgaagtcagcctcgtcGccggcgtgggcggtgctcgg	18	11	1	2	rs201698633	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr19:39226803G>A	ENST00000328867.4	-	12	1838	c.1530C>T	c.(1528-1530)ggC>ggT	p.G510G	CTD-2540F13.2_ENST00000602255.1_RNA|CAPN12_ENST00000601953.1_Silent_p.G361G	NM_144691.3	NP_653292.2	Q6ZSI9	CAN12_HUMAN	calpain 12	510	Domain III.				proteolysis (GO:0006508)	cytoplasm (GO:0005737)	calcium ion binding (GO:0005509)|calcium-dependent cysteine-type endopeptidase activity (GO:0004198)			central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(6)|ovary(1)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	20	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			CAGCCTCGTCGCCGGCGTGGG	0.731													G|||	57	0.0113818	0.0431	0.0	5008	,	,		4562	0.0		0.0	False		,,,				2504	0.0															0								G		90,3020		0,90,1465	5	7	6		1530	0	0	19		6	3,5705		0,3,2851	no	coding-synonymous	CAPN12	NM_144691.3		0,93,4316	AA,AG,GG		0.0526,2.8939,1.0547		510/720	39226803	93,8725	1555	2854	4409	SO:0001819	synonymous_variant	147968			BC014027	CCDS12519.1	19q13.2	2014-08-12			ENSG00000182472	ENSG00000182472		"EF-hand domain containing"	13249	protein-coding gene	gene with protein product		608839					Standard	NM_144691		Approved		uc002ojd.1	Q6ZSI9	OTTHUMG00000182525	ENST00000328867.4:c.1530C>T	19.37:g.39226803G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000328867.4	37	CCDS12519.1																																																																																				0.731	CAPN12-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000462151.1			A	39226803	G	A	39226803	2	1	703	1	0	0	0	0	0	0	0	1	2627	1074	38	1		1	CAPN12	19	39226803	Silent	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	1170766	39226803	19902180	128	46324										
B9D2	80776	hgsc.bcm.edu;broad.mit.edu	37	chr19	41869392	41869392	+	Frame_Shift_Del	DEL	T	T	-													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tccgagaaaccgctggccccTatgatctgcccgatcacgtg					rs2241714	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr19:41869392delT	ENST00000243578.3	-	2	252	c.33delA	c.(31-33)atafs	p.I11fs	CTC-435M10.3_ENST00000604424.1_Intron|TMEM91_ENST00000413014.2_5'Flank|TMEM91_ENST00000539627.1_Intron|TMEM91_ENST00000604123.1_Intron|B9D2_ENST00000601597.1_5'UTR	NM_030578.3	NP_085055.2	Q9BPU9	B9D2_HUMAN	B9 protein domain 2	11	B9. {ECO:0000255|PROSITE- ProRule:PRU00713}.		I -> M (in dbSNP:rs2241714). {ECO:0000269|PubMed:15489334, ECO:0000269|Ref.2}.		cilium assembly (GO:0042384)|mitotic cell cycle (GO:0000278)	centrosome (GO:0005813)|ciliary basal body (GO:0036064)|cytosol (GO:0005829)|membrane (GO:0016020)|nucleus (GO:0005634)|TCTN-B9D complex (GO:0036038)	gamma-tubulin binding (GO:0043015)			large_intestine(1)|ovary(1)	2						CGCTGGCCCCTATGATCTGCC	0.537																																																0													69	58	62					19																	41869392		2203	4300	6503	SO:0001589	frameshift_variant	80776			BC004157	CCDS12579.1	19q13.2	2014-01-28				ENSG00000123810			28636	protein-coding gene	gene with protein product		611951				21763481	Standard	NM_030578		Approved	MGC4093, MKS10	uc002oqj.2	Q9BPU9		ENST00000243578.3:c.33delA	19.37:g.41869392delT	ENSP00000243578:p.Ile11fs	Somatic		WXS	Illumina HiSeq	Phase_I		Frame_Shift_Del	DEL	ENST00000243578.3	37	CCDS12579.1																																																																																				0.537	B9D2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000463489.1	NM_030578		-	41869392	T	-	41869392	7	5	703	1	0	1	0	1	0	0	0	0	1278	1512	53	0	506	0	B9D2	19	41869392	Frame_Shift_Del	DEL	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	2642589	41869392	17259591	129	46325										
GLTSCR1	29998	hgsc.bcm.edu	37	chr19	48183862	48183862	+	Missense_Mutation	SNP	G	G	C	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tcctactgcctggcgccccgGcggtccagctcccgcagcag	12	19	0	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr19:48183862G>C	ENST00000396720.3	+	6	1629	c.1435G>C	c.(1435-1437)Gcg>Ccg	p.A479P	CTD-2571L23.8_ENST00000599924.1_lincRNA	NM_015711.3	NP_056526.3	Q9NZM4	GSCR1_HUMAN	glioma tumor suppressor candidate region gene 1	479										breast(2)|endometrium(1)|kidney(1)|large_intestine(4)|lung(3)|pancreas(3)|prostate(4)|skin(2)	20		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)		TGGCGCCCCGGCGGTCCAGCT	0.692																																																0													16	21	19					19																	48183862		2061	4175	6236	SO:0001583	missense	29998			AF182077	CCDS46134.1	19q13.3	2012-11-29			ENSG00000063169	ENSG00000063169			4332	protein-coding gene	gene with protein product		605690				10708517	Standard	NM_015711		Approved		uc002phh.4	Q9NZM4		ENST00000396720.3:c.1435G>C	19.37:g.48183862G>C	ENSP00000379946:p.Ala479Pro	Somatic		WXS	Illumina HiSeq	Phase_I	A8MW01	Missense_Mutation	SNP	ENST00000396720.3	37	CCDS46134.1	.	.	.	.	.	.	.	.	.	.	G	2.717	-0.267452	0.05754	.	.	ENSG00000063169	ENST00000396720	T	0.38722	1.12	4.7	-0.598	0.11649	.	.	.	.	.	T	0.40862	0.1134	L	0.38531	1.155	0.27198	N	0.960237	D	0.53885	0.963	P	0.56042	0.79	T	0.32295	-0.9912	9	0.31617	T	0.26	.	6.572	0.22543	0.2611:0.0:0.6073:0.1316	.	479	Q9NZM4	GSCR1_HUMAN	P	479	ENSP00000379946:A479P	ENSP00000379946:A479P	A	+	1	0	GLTSCR1	52875674	0.160000	0.22878	0.002000	0.10522	0.054000	0.15201	0.417000	0.21214	0.077000	0.16863	0.491000	0.48974	GCG		0.692	GLTSCR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465846.1	NM_015711		C	48183862	G	C	48183862	3	2	703	1	0	0	0	0	1	0	0	0	6481	1203	42	4	1449	4	GLTSCR1	19	48183862	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	6314470	48183862	10945121	130	46326										
PRR12	57479	hgsc.bcm.edu	37	chr19	50100554	50100554	+	Missense_Mutation	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	cccccggcccccctgcttatGatccctatgggccctactgt	8	19	0	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr19:50100554G>A	ENST00000418929.2	+	4	2974	c.2962G>A	c.(2962-2964)Gat>Aat	p.D988N		NM_020719.1	NP_065770.1	Q9ULL5	PRR12_HUMAN	proline rich 12	0							DNA binding (GO:0003677)			NS(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(1)|lung(2)|pancreas(1)|prostate(2)	11		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		CCCTGCTTATGATCCCTATGG	0.736																																																0													3	4	4					19																	50100554		1585	3699	5284	SO:0001583	missense	57479			AB033031	CCDS46143.1	19q13.33	2008-07-02	2006-02-06	2006-02-06		ENSG00000126464			29217	protein-coding gene	gene with protein product			"KIAA1205"	KIAA1205		10574462	Standard	NM_020719		Approved		uc002poo.4	Q9ULL5		ENST00000418929.2:c.2962G>A	19.37:g.50100554G>A	ENSP00000394510:p.Asp988Asn	Somatic		WXS	Illumina HiSeq	Phase_I	E9PB06|Q8N4J6	Missense_Mutation	SNP	ENST00000418929.2	37	CCDS46143.1	.	.	.	.	.	.	.	.	.	.	G	13.42	2.231566	0.39399	.	.	ENSG00000126464	ENST00000418929;ENST00000246798;ENST00000314734	T	0.24350	1.86	4.79	4.79	0.61399	.	0.000000	0.45126	D	0.000382	T	0.37571	0.1008	L	0.38175	1.15	0.45690	D	0.998604	D	0.89917	1.0	D	0.87578	0.998	T	0.03473	-1.1033	10	0.13108	T	0.6	-21.245	14.8476	0.70272	0.0:0.0:1.0:0.0	.	988	Q9ULL5-3	.	N	988;168;168	ENSP00000394510:D988N	ENSP00000246798:D168N	D	+	1	0	PRR12	54792366	0.986000	0.35501	0.979000	0.43373	0.599000	0.36880	2.157000	0.42320	2.476000	0.83614	0.491000	0.48974	GAT		0.736	PRR12-001	NOVEL	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465915.1	NM_020719		A	50100554	G	A	50100554	3	1	703	1	0	0	0	0	1	0	0	0	12594	1290	45	2	2976	2	PRR12	19	50100554	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	1916692	50100554	9028429	131	46327										
IGLON5	402665	hgsc.bcm.edu	37	chr19	51831097	51831097	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ggcaactatacgtgtcgcgcCgccaaccgactgggagcgtc	13	14	0	0	rs200107403	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr19:51831097C>A	ENST00000270642.8	+	7	879	c.879C>A	c.(877-879)gcC>gcA	p.A293A		NM_001101372.1	NP_001094842.1	A6NGN9	IGLO5_HUMAN	IgLON family member 5	293	Ig-like C2-type 3.					extracellular region (GO:0005576)				large_intestine(5)|lung(6)|prostate(1)	12						CGTGTCGCGCCGCCAACCGAC	0.716													C|||	76	0.0151757	0.0166	0.0072	5008	,	,		8555	0.0208		0.005	False		,,,				2504	0.0235															0								C		51,3629		0,51,1789	9	10	10		879	-10.1	0.9	19		10	25,7827		1,23,3902	no	coding-synonymous	IGLON5	NM_001101372.1		1,74,5691	AA,AC,CC		0.3184,1.3859,0.659		293/337	51831097	76,11456	1840	3926	5766	SO:0001819	synonymous_variant	402665				CCDS46158.1	19q13.33	2013-01-29			ENSG00000142549	ENSG00000142549		"Immunoglobulin superfamily / V-set domain containing", "Immunoglobulin superfamily / Immunoglobulin-like domain containing"	34550	protein-coding gene	gene with protein product							Standard	NM_001101372		Approved	LOC402665	uc002pwc.2	A6NGN9	OTTHUMG00000154422	ENST00000270642.8:c.879C>A	19.37:g.51831097C>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000270642.8	37	CCDS46158.1																																																																																				0.716	IGLON5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335149.1	NM_001101372		A	51831097	C	A	51831097	2	1	703	1	0	0	0	0	0	0	0	1	7602	639	23	4		4	IGLON5	19	51831097	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	1730543	51831097	7297886	132	46328										
LRRN4	164312	hgsc.bcm.edu	37	chr20	6033147	6033147	+	Missense_Mutation	SNP	T	T	C	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gcagggtcagcacctgcagcTgctccaggtggccgagctcg	15	14	1	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr20:6033147T>C	ENST00000378858.4	-	2	523	c.299A>G	c.(298-300)cAg>cGg	p.Q100R		NM_152611.4	NP_689824.2	Q8WUT4	LRRN4_HUMAN	leucine rich repeat neuronal 4	100					long-term memory (GO:0007616)|visual learning (GO:0008542)	extracellular vesicular exosome (GO:0070062)|integral component of plasma membrane (GO:0005887)				breast(1)|endometrium(3)|large_intestine(3)|lung(10)|ovary(2)|prostate(1)|skin(5)|urinary_tract(2)	27						CACCTGCAGCTGCTCCAGGTG	0.731																																																0													6	8	7					20																	6033147		2113	4185	6298	SO:0001583	missense	164312			AL118505	CCDS13097.1	20p12.3	2013-02-11	2008-05-20	2008-05-20	ENSG00000125872	ENSG00000125872		"Fibronectin type III domain containing"	16208	protein-coding gene	gene with protein product			"chromosome 20 open reading frame 75"	C20orf75		15870286	Standard	NM_152611		Approved	dJ1056H1.1, NLRR4	uc002wmo.3	Q8WUT4	OTTHUMG00000031825	ENST00000378858.4:c.299A>G	20.37:g.6033147T>C	ENSP00000368135:p.Gln100Arg	Somatic		WXS	Illumina HiSeq	Phase_I	A8K258|Q5JWV6|Q9H419	Missense_Mutation	SNP	ENST00000378858.4	37	CCDS13097.1	.	.	.	.	.	.	.	.	.	.	T	1.702	-0.501239	0.04261	.	.	ENSG00000125872	ENST00000378858	T	0.04406	3.63	5.37	0.364	0.16124	.	0.918843	0.09178	N	0.837822	T	0.02970	0.0088	N	0.16233	0.39	0.18873	N	0.999982	B;B	0.06786	0.001;0.001	B;B	0.04013	0.0;0.001	T	0.48399	-0.9039	10	0.25751	T	0.34	-6.0721	4.5538	0.12126	0.2133:0.256:0.0:0.5307	.	100;100	Q6ZMD1;Q8WUT4	.;LRRN4_HUMAN	R	100	ENSP00000368135:Q100R	ENSP00000368135:Q100R	Q	-	2	0	LRRN4	5981147	0.002000	0.14202	0.402000	0.26371	0.002000	0.02628	-0.227000	0.09126	-0.136000	0.11475	-0.516000	0.04426	CAG		0.731	LRRN4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077907.2	NM_152611		C	6033147	T	C	6033147	3	2	703	1	0	0	0	0	1	0	0	0	9044	1580	55	3	1939	3	LRRN4	20	6033147	Missense_Mutation	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10		6033147	56992373	133	46329										
ARFGAP1	55738	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chr20	61918934	61918934	+	Missense_Mutation	SNP	T	T	G	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	agcccctcggagggccacagTtatcagaacagcggtctgga	13	12	2	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr20:61918934T>G	ENST00000370283.4	+	13	1070	c.930T>G	c.(928-930)agT>agG	p.S310R	ARFGAP1_ENST00000370275.4_Missense_Mutation_p.V390G|ARFGAP1_ENST00000518794.2_3'UTR|MIR4326_ENST00000582203.1_RNA|ARFGAP1_ENST00000353546.3_Missense_Mutation_p.S318R|ARFGAP1_ENST00000547204.1_Missense_Mutation_p.S244R|ARFGAP1_ENST00000519604.1_Missense_Mutation_p.S265R|ARFGAP1_ENST00000519273.2_Missense_Mutation_p.S197R	NM_018209.2	NP_060679.1	Q8N6T3	ARFG1_HUMAN	ADP-ribosylation factor GTPase activating protein 1	310					activation of signaling protein activity involved in unfolded protein response (GO:0006987)|cellular protein metabolic process (GO:0044267)|COPI coating of Golgi vesicle (GO:0048205)|endoplasmic reticulum unfolded protein response (GO:0030968)|membrane organization (GO:0061024)|positive regulation of GTPase activity (GO:0043547)|protein transport (GO:0015031)|regulation of ARF GTPase activity (GO:0032312)|retrograde vesicle-mediated transport, Golgi to ER (GO:0006890)	cytosol (GO:0005829)|Golgi-associated vesicle membrane (GO:0030660)|synapse (GO:0045202)	ARF GTPase activator activity (GO:0008060)|GTPase activator activity (GO:0005096)|zinc ion binding (GO:0008270)			endometrium(2)|kidney(2)|large_intestine(1)|lung(6)|ovary(1)|pancreas(1)	13	all_cancers(38;1.59e-09)					AGGGCCACAGTTATCAGAACA	0.542																																																0													44	45	44					20																	61918934		2201	4299	6500	SO:0001583	missense	55738			AK001629	CCDS13515.1, CCDS13516.1, CCDS63326.1, CCDS63327.1, CCDS63328.1	20q13.33	2009-11-30	2002-08-20	2002-08-23	ENSG00000101199	ENSG00000101199		"ADP-ribosylation factor GTPase activating proteins"	15852	protein-coding gene	gene with protein product		608377	"ADP-ribosylation factor 1 GTPase activating protein"	ARF1GAP		11210549	Standard	NM_018209		Approved	FLJ10767, bA261N11.3	uc002yel.3	Q8N6T3	OTTHUMG00000032965	ENST00000370283.4:c.930T>G	20.37:g.61918934T>G	ENSP00000359306:p.Ser310Arg	Somatic		WXS	Illumina HiSeq	Phase_I	B7Z3U0|B7Z8H8|B7ZBI3|E1P5I9|E7EV62|Q6PK71|Q96KC4|Q96T02|Q9NSU3|Q9NVF6|Q9UIL0	Missense_Mutation	SNP	ENST00000370283.4	37	CCDS13515.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	T|T	13.23|13.23	2.173905|2.173905	0.38413|0.38413	.|.	.|.	ENSG00000101199|ENSG00000101199	ENST00000370283;ENST00000547204;ENST00000549047;ENST00000523460;ENST00000519604;ENST00000519273;ENST00000353546|ENST00000370275	T;T;T;T;T;T|T	0.50001|0.38560	1.39;0.77;0.85;0.78;0.76;1.41|1.13	4.81|4.81	-0.361|-0.361	0.12564|0.12564	.|.	0.782541|.	0.12772|.	N|.	0.440467|.	T|T	0.36663|0.36663	0.0975|0.0975	L|L	0.60455|0.60455	1.87|1.87	0.49798|0.49798	D|D	0.999824|0.999824	D;D;P;P|B	0.60160|0.26318	0.958;0.987;0.859;0.913|0.146	P;P;P;P|B	0.57960|0.24974	0.663;0.83;0.556;0.742|0.057	T|T	0.33548|0.33548	-0.9864|-0.9864	10|9	0.32370|0.87932	T|D	0.25|0	-9.8078|-9.8078	9.7438|9.7438	0.40435|0.40435	0.0:0.6144:0.0:0.3856|0.0:0.6144:0.0:0.3856	.|.	197;265;310;318|390	B7Z8H8;E7EV62;Q8N6T3;Q8N6T3-2|B7ZBI2	.;.;ARFG1_HUMAN;.|.	R|G	310;244;236;66;265;197;318|390	ENSP00000359306:S310R;ENSP00000449800:S244R;ENSP00000447037:S236R;ENSP00000430500:S265R;ENSP00000443716:S197R;ENSP00000314615:S318R|ENSP00000359298:V390G	ENSP00000314615:S318R|ENSP00000359298:V390G	S|V	+|+	3|2	2|0	ARFGAP1|ARFGAP1	61389379|61389379	1.000000|1.000000	0.71417|0.71417	0.316000|0.316000	0.25252|0.25252	0.180000|0.180000	0.23129|0.23129	1.634000|1.634000	0.37123|0.37123	0.106000|0.106000	0.17784|0.17784	0.379000|0.379000	0.24179|0.24179	AGT|GTT		0.542	ARFGAP1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000080134.3	NM_018209		G	61918934	T	G	61918934	3	3	703	1	0	0	0	0	1	0	0	0	849	1722	60	5	1010	5	ARFGAP1	20	61918934	Missense_Mutation	SNP	T	TCGA-Q2-A5QZ-01A-11D-A28G-10	55885787	61918934	1106586	134	46330										
PRIC285	85441	hgsc.bcm.edu	37	chr20	62197379	62197379	+	Silent	SNP	G	G	A	1	0	0	0	0	1	1	0	1	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tgccgctccacgcactcacgGatgaagctctcccagagctt	9	16	2	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr20:62197379G>A	ENST00000467148.1	-	8	2865	c.2796C>T	c.(2794-2796)atC>atT	p.I932I	HELZ2_ENST00000427522.2_Silent_p.I363I	NM_001037335.2	NP_001032412.2	Q9BYK8	HELZ2_HUMAN	helicase with zinc finger 2, transcriptional coactivator	932	Interaction with THRAP3.				cellular lipid metabolic process (GO:0044255)|positive regulation of transcription from RNA polymerase II promoter (GO:0045944)|small molecule metabolic process (GO:0044281)|transcription, DNA-templated (GO:0006351)	membrane (GO:0016020)|nucleoplasm (GO:0005654)	ATP binding (GO:0005524)|DNA binding (GO:0003677)|helicase activity (GO:0004386)|ligand-dependent nuclear receptor transcription coactivator activity (GO:0030374)|metal ion binding (GO:0046872)|poly(A) RNA binding (GO:0044822)										CGCACTCACGGATGAAGCTCT	0.701																																																0													16	16	16					20																	62197379		2174	4285	6459	SO:0001819	synonymous_variant	85441			AB201715	CCDS13527.1, CCDS33508.1	20q13.33	2012-09-26			ENSG00000130589	ENSG00000130589			30021	protein-coding gene	gene with protein product	"peroxisomal proliferator activated receptor A interacting complex 285", "PPARG-DBD-interacting protein 1"	611265				11214970, 12189208, 16239304	Standard	NM_001037335		Approved	PDIP1, PRIC285, KIAA1769	uc002yfm.2	Q9BYK8	OTTHUMG00000032969	ENST00000467148.1:c.2796C>T	20.37:g.62197379G>A		Somatic		WXS	Illumina HiSeq	Phase_I	Q3C2G2|Q4VXQ1|Q8TEF3|Q96ND3|Q9C094	Silent	SNP	ENST00000467148.1	37	CCDS33508.1																																																																																				0.701	HELZ2-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000354127.1	NM_001037335		A	62197379	G	A	62197379	2	1	703	1	0	0	0	0	0	0	0	1	12495	1164	41	2		2	PRIC285	20	62197379	Silent	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	278445	62197379	828141	135	46331										
ADAMTS5	11096	hgsc.bcm.edu	37	chr21	28338045	28338045	+	Silent	SNP	A	A	T	0	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	ctcgggttgctgtgcgccggAgcatgctcgtgggcctccgg	17	13	0	0	rs369445782	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr21:28338045A>T	ENST00000284987.5	-	1	787	c.666T>A	c.(664-666)gcT>gcA	p.A222A		NM_007038.3	NP_008969.2	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 5	222					defense response to bacterium (GO:0042742)|extracellular matrix disassembly (GO:0022617)|extracellular matrix organization (GO:0030198)|proteolysis (GO:0006508)	extracellular region (GO:0005576)|proteinaceous extracellular matrix (GO:0005578)	integrin binding (GO:0005178)|metalloendopeptidase activity (GO:0004222)|metallopeptidase activity (GO:0008237)|zinc ion binding (GO:0008270)			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(17)|lung(34)|ovary(3)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(3)	72						TGTGCGCCGGAGCATGCTCGT	0.716													A|||	4	0.000798722	0.0023	0.0	5008	,	,		14660	0.0		0.001	False		,,,				2504	0.0				Esophageal Squamous(53;683 1080 10100 14424 45938)											0								A		15,4337		0,15,2161	9	12	11		666	-4.4	0	21		11	2,8476		0,2,4237	no	coding-synonymous	ADAMTS5	NM_007038.3		0,17,6398	TT,TA,AA		0.0236,0.3447,0.1325		222/931	28338045	17,12813	2176	4239	6415	SO:0001819	synonymous_variant	11096			AF142099	CCDS13579.1	21q21.3	2008-07-31	2008-07-31		ENSG00000154736	ENSG00000154736		"ADAM metallopeptidases with thrombospondin type 1 motif"	221	protein-coding gene	gene with protein product	"aggrecanase-2"	605007	"a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 5 (aggrecanase-2)"			10438522	Standard	NM_007038		Approved	ADMP-2, ADAMTS11	uc002ymg.3	Q9UNA0	OTTHUMG00000078686	ENST00000284987.5:c.666T>A	21.37:g.28338045A>T		Somatic		WXS	Illumina HiSeq	Phase_I	Q52LV4|Q9UKP2	Silent	SNP	ENST00000284987.5	37	CCDS13579.1																																																																																				0.716	ADAMTS5-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000171648.1			T	28338045	A	T	28338045	2	4	703	1	0	0	0	0	0	0	0	1	269	291	11	5		5	ADAMTS5	21	28338045	Silent	SNP	A	TCGA-Q2-A5QZ-01A-11D-A28G-10		28338045	19791850	136	46332										
OLIG1	116448	broad.mit.edu	37	chr21	34442709	34442717	+	In_Frame_Del	DEL	TCCTCCACT	TCCTCCACT	-													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	cctcctccacctcctccaccTcctccacttcctcctcctcc					rs367752518		TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	TCCTCCACT	TCCTCCACT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr21:34442709_34442717delTCCTCCACT	ENST00000382348.1	+	1	260_268	c.157_165delTCCTCCACT	c.(157-165)tcctccactdel	p.SST53del	OLIG1_ENST00000333063.5_In_Frame_Del_p.SST37del|AP000282.2_ENST00000454622.1_RNA|AP000282.2_ENST00000420356.1_RNA	NM_138983.2	NP_620450.2	Q8TAK6	OLIG1_HUMAN	oligodendrocyte transcription factor 1	53	Ser-rich.				neuron fate commitment (GO:0048663)|regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)			central_nervous_system(1)	1						ctcctccacctcctccacttcctcctcct	0.746																																																0										209,2581		57,95,1243						1	0.2			4	188,5876		52,84,2896	no	coding	OLIG1	NM_138983.2		109,179,4139	A1A1,A1R,RR		3.1003,7.491,4.4838				397,8457				SO:0001651	inframe_deletion	116448			AP000109	CCDS42920.1, CCDS42920.2	21q22.11	2013-05-21			ENSG00000184221	ENSG00000184221		"Basic helix-loop-helix proteins"	16983	protein-coding gene	gene with protein product	"oligodendrocyte-specific bHLH transcription factor 1", "oligodendrocyte lineage transcription factor 1", "basic domain, helix-loop-helix protein, class B, 6"	606385				11526205	Standard	NM_138983		Approved	BHLHB6, bHLHe21	uc002yqz.3	Q8TAK6	OTTHUMG00000065064	ENST00000382348.1:c.157_165delTCCTCCACT	21.37:g.34442709_34442717delTCCTCCACT	ENSP00000371785:p.Ser53_Thr55del	Somatic		WXS	Illumina HiSeq	Phase_I	Q7RTS0	In_Frame_Del	DEL	ENST00000382348.1	37	CCDS42920.2																																																																																				0.746	OLIG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000139730.1	NM_138983		-	34442717	TCCTCCACT	-	34442709	7	5	703	1	0	1	0	1	0	0	0	0	10867	1551	54	0	159	0	OLIG1	21	34442709	In_Frame_Del	DEL	TCCTCCACT	TCGA-Q2-A5QZ-01A-11D-A28G-10	6104664	34442709	13687186	137	46333										
TTC3	7267	hgsc.bcm.edu;bcgsc.ca	37	chr21	38519809	38519809	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	agagaaatttgttgaagaatGcaagttccctccagtgccag	10	8	0	3			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr21:38519809G>A	ENST00000399017.2	+	22	4669	c.1922G>A	c.(1921-1923)tGc>tAc	p.C641Y	TTC3_ENST00000355666.1_Missense_Mutation_p.C641Y|TTC3_ENST00000354749.2_Missense_Mutation_p.C641Y|TTC3_ENST00000540756.1_Missense_Mutation_p.C331Y|TTC3_ENST00000479930.1_3'UTR	NM_003316.3	NP_003307.3	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	641					negative regulation of cell morphogenesis involved in differentiation (GO:0010771)|negative regulation of neuron differentiation (GO:0045665)|protein K48-linked ubiquitination (GO:0070936)|ubiquitin-dependent protein catabolic process (GO:0006511)	mitochondrion (GO:0005739)|nucleus (GO:0005634)|vacuole (GO:0005773)	ligase activity (GO:0016874)|ubiquitin-protein transferase activity (GO:0004842)|zinc ion binding (GO:0008270)			breast(5)|endometrium(7)|kidney(5)|large_intestine(17)|liver(1)|lung(18)|ovary(4)|prostate(2)|skin(9)|upper_aerodigestive_tract(2)|urinary_tract(5)	75		Myeloproliferative disorder(46;0.0412)				GTTGAAGAATGCAAGTTCCCT	0.323																																					Ovarian(38;194 1649 35661)											0													111	108	109					21																	38519809		2203	4300	6503	SO:0001583	missense	7267			D84296	CCDS13651.1	21q22.2	2013-01-11			ENSG00000182670	ENSG00000182670		"RING-type (C3HC4) zinc fingers", "Tetratricopeptide (TTC) repeat domain containing"	12393	protein-coding gene	gene with protein product		602259				8947847	Standard	NM_003316		Approved	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105	uc002yvz.3	P53804	OTTHUMG00000086654	ENST00000399017.2:c.1922G>A	21.37:g.38519809G>A	ENSP00000381981:p.Cys641Tyr	Somatic		WXS	Illumina HiSeq	Phase_I	A8K7H7|B2RPA7|D3DSG9|D3DSH2|D3DSH3|O60767|P78476|P78477|Q569I2|Q6P578|Q9UEK4	Missense_Mutation	SNP	ENST00000399017.2	37	CCDS13651.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	20.0|20.0	3.930568|3.930568	0.73327|0.73327	.|.	.|.	ENSG00000182670|ENSG00000182670	ENST00000414818|ENST00000418766;ENST00000450533;ENST00000438055;ENST00000355666;ENST00000540756;ENST00000399017;ENST00000354749	.|T;T;T;T;T;T;T	.|0.53640	.|2.42;0.66;2.43;2.72;0.61;2.72;2.72	4.88|4.88	4.88|4.88	0.63580|0.63580	.|.	.|0.294582	.|0.30020	.|N	.|0.010617	T|T	0.57227|0.57227	0.2039|0.2039	N|N	0.20986|0.20986	0.625|0.625	0.58432|0.58432	D|D	0.999993|0.999993	.|D;D	.|0.76494	.|0.998;0.999	.|D;D	.|0.83275	.|0.994;0.996	T|T	0.63589|0.63589	-0.6603|-0.6603	5|10	.|0.87932	.|D	.|0	-11.1008|-11.1008	17.997|17.997	0.89187|0.89187	0.0:0.0:1.0:0.0|0.0:0.0:1.0:0.0	.|.	.|331;641	.|B4DSZ9;P53804	.|.;TTC3_HUMAN	T|Y	39|641;641;623;641;331;641;641	.|ENSP00000403943:C641Y;ENSP00000408456:C641Y;ENSP00000391891:C623Y;ENSP00000347889:C641Y;ENSP00000442875:C331Y;ENSP00000381981:C641Y;ENSP00000346791:C641Y	.|ENSP00000346791:C641Y	A|C	+|+	1|2	0|0	TTC3|TTC3	37441679|37441679	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.969000|0.969000	0.65631|0.65631	7.912000|7.912000	0.87465|0.87465	2.409000|2.409000	0.81822|0.81822	0.650000|0.650000	0.86243|0.86243	GCA|TGC		0.323	TTC3-003	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000194776.1			A	38519809	G	A	38519809	3	1	703	1	0	0	0	0	1	0	0	0	16709	1319	46	2	2004	2	TTC3	21	38519809	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	4077100	38519809	9610086	138	46334										
PRDM15	63977	hgsc.bcm.edu	37	chr21	43221434	43221434	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tctgctgctgctgctgctccGcctgcacctggggctgggcc	14	16	1	0	rs147616045		TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr21:43221434G>A	ENST00000269844.3	-	31	4600	c.4490C>T	c.(4489-4491)gCg>gTg	p.A1497V	PRDM15_ENST00000470586.1_5'UTR|PRDM15_ENST00000398548.1_Missense_Mutation_p.A1168V|PRDM15_ENST00000422911.1_Missense_Mutation_p.A1188V|PRDM15_ENST00000538201.1_Missense_Mutation_p.A1151V|PRDM15_ENST00000447207.2_Missense_Mutation_p.A1131V	NM_022115.3	NP_071398.3	P57071	PRD15_HUMAN	PR domain containing 15	1497					regulation of transcription, DNA-templated (GO:0006355)|transcription, DNA-templated (GO:0006351)	nucleus (GO:0005634)	DNA binding (GO:0003677)|metal ion binding (GO:0046872)|methyltransferase activity (GO:0008168)			NS(2)|breast(1)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|lung(11)|ovary(3)|skin(2)|stomach(2)|urinary_tract(1)	43						CTGCTGCTCCGCCTGCACCTG	0.637													g|||	1	0.000199681	0.0008	0.0	5008	,	,		15122	0.0		0.0	False		,,,				2504	0.0															0									VAL/ALA,VAL/ALA	5,4369		0,5,2182	33	38	36		3503,4490	3.7	0	21	dbSNP_134	36	2,8498		0,2,4248	yes	missense,missense	PRDM15	NM_001040424.1,NM_022115.3	64,64	0,7,6430	AA,AG,GG		0.0235,0.1143,0.0544	possibly-damaging,possibly-damaging	1168/1179,1497/1508	43221434	7,12867	2187	4250	6437	SO:0001583	missense	63977			AF276513	CCDS13676.1, CCDS42932.1, CCDS63370.1	21q22.3	2013-01-08	2002-07-31		ENSG00000141956	ENSG00000141956		"Zinc fingers, C2H2-type"	13999	protein-coding gene	gene with protein product			"chromosome 21 open reading frame 83"	ZNF298, C21orf83		12036297, 12036298	Standard	NM_022115		Approved		uc002yzq.1	P57071	OTTHUMG00000086781	ENST00000269844.3:c.4490C>T	21.37:g.43221434G>A	ENSP00000269844:p.Ala1497Val	Somatic		WXS	Illumina HiSeq	Phase_I	E9PDJ6|E9PF37|E9PGL3|Q4W8S0|Q4W8S3|Q4W8S4|Q4W8S5|Q8N0X3|Q8NEX0|Q9NQV3	Missense_Mutation	SNP	ENST00000269844.3	37	CCDS13676.1	.	.	.	.	.	.	.	.	.	.	g	13.53	2.264687	0.40095	0.001143	2.35E-4	ENSG00000141956	ENST00000422911;ENST00000398548;ENST00000538201;ENST00000447207;ENST00000269844	T;T;T;T;T	0.08546	3.16;3.17;3.17;3.16;3.08	4.56	3.65	0.41850	.	.	.	.	.	T	0.04952	0.0133	N	0.14661	0.345	0.09310	N	1	P;B;B	0.35226	0.491;0.043;0.043	B;B;B	0.22753	0.041;0.012;0.007	T	0.33420	-0.9869	9	0.72032	D	0.01	-4.2914	10.8161	0.46575	0.0:0.0:0.6437:0.3563	.	1497;1188;1168	P57071;E9PDJ6;E9PF37	PRD15_HUMAN;.;.	V	1188;1168;1151;1131;1497	ENSP00000408592:A1188V;ENSP00000381556:A1168V;ENSP00000444044:A1151V;ENSP00000390245:A1131V;ENSP00000269844:A1497V	ENSP00000269844:A1497V	A	-	2	0	PRDM15	42094503	0.050000	0.20438	0.003000	0.11579	0.735000	0.41995	2.502000	0.45398	0.847000	0.35167	0.558000	0.71614	GCG		0.637	PRDM15-201	KNOWN	basic|CCDS	protein_coding	protein_coding		NM_022115		A	43221434	G	A	43221434	3	1	703	1	0	0	0	0	1	0	0	0	12466	1087	38	1	37	1	PRDM15	21	43221434	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	4701625	43221434	4908461	139	46335										
KRTAP10-7	386675	broad.mit.edu	37	chr21	46020576	46020576	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	acctgagctacggcagccgcGtctgccttcctggttcctgt	11	15	1	1	rs587669788		TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr21:46020576G>A	ENST00000380102.2	+	1	80	c.55G>A	c.(55-57)Gtc>Atc	p.V19I	TSPEAR_ENST00000323084.4_Intron	NM_198689.2	NP_941962.1	P60409	KR107_HUMAN	keratin associated protein 10-7	19						keratin filament (GO:0045095)				breast(1)|large_intestine(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	8						CGGCAGCCGCGTCTGCCTTCC	0.642																																																0													36	46	42					21																	46020576		2057	4186	6243	SO:0001583	missense	386675			AJ566385	CCDS74803.1	21q22.3	2014-04-10			ENSG00000205441	ENSG00000272804		"Keratin associated proteins"	22970	protein-coding gene	gene with protein product				KRTAP18-7			Standard	NM_198689		Approved	KAP10.7, KAP18.7	uc002zfn.4	P60409	OTTHUMG00000188307	ENST00000380102.2:c.55G>A	21.37:g.46020576G>A	ENSP00000369445:p.Val19Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VDJ8|Q70LJ2	Missense_Mutation	SNP	ENST00000380102.2	37		.	.	.	.	.	.	.	.	.	.	g	3.948	-0.012856	0.07727	.	.	ENSG00000205441	ENST00000380102	T	0.00648	5.99	4.54	2.71	0.32032	.	.	.	.	.	T	0.00666	0.0022	L	0.43701	1.375	0.09310	N	1	B	0.28470	0.213	B	0.22753	0.041	T	0.44892	-0.9298	9	0.12766	T	0.61	.	7.0396	0.25013	0.2171:0.0:0.7829:0.0	.	19	P60409-2	.	I	19	ENSP00000369445:V19I	ENSP00000369445:V19I	V	+	1	0	KRTAP10-7	44845004	0.003000	0.15002	0.076000	0.20297	0.112000	0.19704	-0.474000	0.06607	0.369000	0.24510	0.467000	0.42956	GTC		0.642	KRTAP10-7-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000128038.1	NM_198689		A	46020576	G	A	46020576	3	1	703	1	0	0	0	0	1	0	0	0	8521	1145	40	1	57	1	KRTAP10-7	21	46020576	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	2799142	46020576	2109319	140	46336										
GSC2	2928	hgsc.bcm.edu	37	chr22	19137290	19137290	+	Silent	SNP	G	G	A	1	0	0	1	0	1	1	0	1	1	0	1	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gcctgcagctgctcttcgctGaagatggtgcggtggcgcct	15	12	1	2	rs201641909	byFrequency	TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chr22:19137290G>A	ENST00000086933.2	-	2	398	c.399C>T	c.(397-399)ttC>ttT	p.F133F		NM_005315.1	NP_005306.1	O15499	GSC2_HUMAN	goosecoid homeobox 2	133					anatomical structure morphogenesis (GO:0009653)|regulation of transcription from RNA polymerase II promoter (GO:0006357)	nucleus (GO:0005634)	DNA binding (GO:0003677)|sequence-specific DNA binding (GO:0043565)|sequence-specific DNA binding transcription factor activity (GO:0003700)			central_nervous_system(1)|large_intestine(1)|lung(2)	4	Colorectal(54;0.0993)					GCTCTTCGCTGAAGATGGTGC	0.716													g|||	8	0.00159744	0.0053	0.0014	5008	,	,		8606	0.0		0.0	False		,,,				2504	0.0															0										4,4216		0,4,2106	8	10	10		399	3.5	1	22		10	0,8348		0,0,4174	no	coding-synonymous	GSC2	NM_005315.1		0,4,6280	AA,AG,GG		0.0,0.0948,0.0318		133/206	19137290	4,12564	2110	4174	6284	SO:0001819	synonymous_variant	2928				CCDS13757.1	22q11.21	2011-06-20	2007-08-28	2007-08-28	ENSG00000063515	ENSG00000063515		"Homeoboxes / PRD class"	4613	protein-coding gene	gene with protein product		601845	"goosecoid-like"	GSCL		9150167	Standard	NM_005315		Approved		uc011ags.2	O15499	OTTHUMG00000150122	ENST00000086933.2:c.399C>T	22.37:g.19137290G>A		Somatic		WXS	Illumina HiSeq	Phase_I		Silent	SNP	ENST00000086933.2	37	CCDS13757.1																																																																																				0.716	GSC2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316440.2	NM_005315		A	19137290	G	A	19137290	2	1	703	1	0	0	0	0	0	0	0	1	6822	1281	45	2		2	GSC2	22	19137290	Silent	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10		19137290	32167276	141	46337										
PRPS2	5634	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	12840843	12840843	+	Missense_Mutation	SNP	C	C	G	0	1	1	0	1	0	1	1	0	1	1	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	gtcattgacatttccatgatCttggccgaagcaatccgaag	9	10	2	2			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chrX:12840843C>G	ENST00000380668.5	+	7	1013	c.885C>G	c.(883-885)atC>atG	p.I295M	PRPS2_ENST00000398491.2_Missense_Mutation_p.I298M	NM_001039091.2|NM_002765.4	NP_001034180.1|NP_002756.1	P11908	PRPS2_HUMAN	phosphoribosyl pyrophosphate synthetase 2	295					5-phosphoribose 1-diphosphate biosynthetic process (GO:0006015)|AMP biosynthetic process (GO:0006167)|nucleobase-containing compound metabolic process (GO:0006139)|organ regeneration (GO:0031100)	extracellular vesicular exosome (GO:0070062)|ribose phosphate diphosphokinase complex (GO:0002189)	ADP binding (GO:0043531)|AMP binding (GO:0016208)|ATP binding (GO:0005524)|carbohydrate binding (GO:0030246)|GDP binding (GO:0019003)|kinase activity (GO:0016301)|magnesium ion binding (GO:0000287)|protein homodimerization activity (GO:0042803)|ribose phosphate diphosphokinase activity (GO:0004749)			breast(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(5)|urinary_tract(1)	16						TTTCCATGATCTTGGCCGAAG	0.453																																																0													174	117	136					X																	12840843		2203	4300	6503	SO:0001583	missense	5634			Y00971	CCDS14150.1, CCDS43918.1	Xp22.2	2012-10-02			ENSG00000101911	ENSG00000101911	2.7.6.1		9465	protein-coding gene	gene with protein product	"PRS II", "ribose-phosphate diphosphokinase 2"	311860				1962753	Standard	NM_002765		Approved		uc004cva.3	P11908	OTTHUMG00000021139	ENST00000380668.5:c.885C>G	X.37:g.12840843C>G	ENSP00000370043:p.Ile295Met	Somatic		WXS	Illumina HiSeq	Phase_I	Q0VDH9|Q0VDI0|Q15245|Q2TAK7	Missense_Mutation	SNP	ENST00000380668.5	37	CCDS14150.1	.	.	.	.	.	.	.	.	.	.	C	11.17	1.559940	0.27827	.	.	ENSG00000101911	ENST00000380668;ENST00000398491;ENST00000461630;ENST00000460220	T;T;T	0.73363	-0.74;-0.74;-0.74	5.12	-0.0434	0.13859	.	0.000000	0.85682	D	0.000000	T	0.58018	0.2093	N	0.25485	0.75	0.80722	D	1	B;B	0.20164	0.042;0.012	B;B	0.37451	0.25;0.238	T	0.21586	-1.0241	10	0.12103	T	0.63	-23.1539	4.2961	0.10902	0.2341:0.3845:0.0:0.3814	.	295;298	P11908;P11908-2	PRPS2_HUMAN;.	M	295;298;150;127	ENSP00000370043:I295M;ENSP00000381504:I298M;ENSP00000418911:I150M	ENSP00000370043:I295M	I	+	3	3	PRPS2	12750764	0.945000	0.32115	0.987000	0.45799	0.993000	0.82548	0.139000	0.16036	0.131000	0.18576	0.513000	0.50165	ATC		0.453	PRPS2-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000055772.2	NM_002765		G	12840843	C	G	12840843	3	3	703	1	0	0	0	0	1	0	0	0	12590	903	32	4	920	4	PRPS2	23	12840843	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10		12840843	142429717	142	46338										
PHKA2	5256	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	18919658	18919658	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	1	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tcctctcagttttggtgactCcggtatggcccacctcgtgg	11	13	1	1			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chrX:18919658C>A	ENST00000379942.4	-	27	3637	c.2972G>T	c.(2971-2973)gGa>gTa	p.G991V		NM_000292.2	NP_000283.1	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	991					carbohydrate metabolic process (GO:0005975)|cellular protein modification process (GO:0006464)|generation of precursor metabolites and energy (GO:0006091)|glucose metabolic process (GO:0006006)|glycogen catabolic process (GO:0005980)|protein phosphorylation (GO:0006468)|small molecule metabolic process (GO:0044281)	cytosol (GO:0005829)|phosphorylase kinase complex (GO:0005964)|plasma membrane (GO:0005886)	hydrolase activity, hydrolyzing O-glycosyl compounds (GO:0004553)|phosphorylase kinase activity (GO:0004689)			NS(1)|biliary_tract(1)|breast(5)|central_nervous_system(2)|cervix(1)|endometrium(8)|kidney(1)|large_intestine(12)|lung(23)|ovary(2)|skin(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	61	Hepatocellular(33;0.183)					TTTGGTGACTCCGGTATGGCC	0.547																																																0													180	139	153					X																	18919658		2203	4300	6503	SO:0001583	missense	5256				CCDS14190.1	Xp22.2-p22.1	2009-07-10			ENSG00000044446	ENSG00000044446	2.7.11.19		8926	protein-coding gene	gene with protein product		300798		PHK, PYK		2387090	Standard	NM_000292		Approved		uc004cyv.4	P46019	OTTHUMG00000021222	ENST00000379942.4:c.2972G>T	X.37:g.18919658C>A	ENSP00000369274:p.Gly991Val	Somatic		WXS	Illumina HiSeq	Phase_I	A8K1T1|Q6LAJ5|Q7Z6W0|Q96CR3|Q9UDA1	Missense_Mutation	SNP	ENST00000379942.4	37	CCDS14190.1	.	.	.	.	.	.	.	.	.	.	C	24.8	4.573963	0.86542	.	.	ENSG00000044446	ENST00000379942	D	0.90955	-2.76	6.06	6.06	0.98353	.	0.000000	0.85682	D	0.000000	D	0.94798	0.8320	M	0.67953	2.075	0.80722	D	1	D	0.76494	0.999	D	0.72982	0.979	D	0.93740	0.7049	10	0.41790	T	0.15	-16.0545	19.5104	0.95139	0.0:1.0:0.0:0.0	.	991	P46019	KPB2_HUMAN	V	991	ENSP00000369274:G991V	ENSP00000369274:G991V	G	-	2	0	PHKA2	18829579	1.000000	0.71417	0.996000	0.52242	0.959000	0.62525	7.400000	0.79949	2.562000	0.86427	0.600000	0.82982	GGA		0.547	PHKA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000055960.1	NM_000292		A	18919658	C	A	18919658	3	1	703	1	0	0	0	0	1	0	0	0	11851	855	30	4	763	4	PHKA2	23	18919658	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	6078815	18919658	136350902	143	46339										
BRWD3	254065	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	80001213	80001213	+	Missense_Mutation	SNP	G	G	A	1	0	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tacagccggttaattgcctgGcagaggtgatattcactgaa	11	8	1	3			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chrX:80001213G>A	ENST00000373275.4	-	7	662	c.446C>T	c.(445-447)gCc>gTc	p.A149V		NM_153252.4	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	149					cytoskeleton organization (GO:0007010)|regulation of cell shape (GO:0008360)					breast(4)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(18)|lung(39)|ovary(4)|prostate(2)|skin(3)	87						TAATTGCCTGGCAGAGGTGAT	0.343																																																0													36	33	34					X																	80001213		2203	4298	6501	SO:0001583	missense	254065				CCDS14447.1	Xq21.1	2013-01-09			ENSG00000165288	ENSG00000165288		"WD repeat domain containing"	17342	protein-coding gene	gene with protein product		300553				15543602, 16094372	Standard	NM_153252		Approved	FLJ38568, MRX93	uc004edt.3	Q6RI45	OTTHUMG00000021908	ENST00000373275.4:c.446C>T	X.37:g.80001213G>A	ENSP00000362372:p.Ala149Val	Somatic		WXS	Illumina HiSeq	Phase_I	C9IZ39|C9J3F3|Q2T9J6|Q5JRN1|Q6RI37|Q6RI42|Q6RI44|Q8N916	Missense_Mutation	SNP	ENST00000373275.4	37	CCDS14447.1	.	.	.	.	.	.	.	.	.	.	G	27.9	4.873392	0.91664	.	.	ENSG00000165288	ENST00000373275	T	0.29397	1.57	4.96	4.08	0.47627	.	0.065291	0.64402	D	0.000010	T	0.46580	0.1400	M	0.64997	1.995	0.49798	D	0.999826	D	0.67145	0.996	P	0.57911	0.829	T	0.42832	-0.9428	9	.	.	.	-1.3369	14.4752	0.67541	0.0:0.144:0.856:0.0	.	149	Q6RI45	BRWD3_HUMAN	V	149	ENSP00000362372:A149V	.	A	-	2	0	BRWD3	79887869	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	5.170000	0.64990	1.065000	0.40693	0.544000	0.68410	GCC		0.343	BRWD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057344.1	NM_153252		A	80001213	G	A	80001213	3	1	703	1	0	0	0	0	1	0	0	0	1528	1203	42	2	5102	2	BRWD3	23	80001213	Missense_Mutation	SNP	G	TCGA-Q2-A5QZ-01A-11D-A28G-10	61081555	80001213	75269347	144	46340										
SH3BGRL	6451	broad.mit.edu;ucsc.edu;bcgsc.ca	37	chrX	80532507	80532507	+	Missense_Mutation	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	agaagaaacaacaagatgtgCttggtttcctagaagccaac	9	8	0	4			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chrX:80532507C>A	ENST00000373212.5	+	2	328	c.70C>A	c.(70-72)Ctt>Att	p.L24I	SH3BGRL_ENST00000481106.1_3'UTR	NM_003022.2	NP_003013.1	O75368	SH3L1_HUMAN	SH3 domain binding glutamate-rich protein like	24					positive regulation of signal transduction (GO:0009967)	cytoplasm (GO:0005737)|extracellular space (GO:0005615)|extracellular vesicular exosome (GO:0070062)|nucleus (GO:0005634)	SH3/SH2 adaptor activity (GO:0005070)			endometrium(1)|lung(2)|ovary(1)	4		all_lung(315;5.94e-05)				ACAAGATGTGCTTGGTTTCCT	0.358																																																0													50	47	48					X																	80532507		2203	4299	6502	SO:0001583	missense	6451			AF042081	CCDS14449.1	Xq13.3	2014-02-19	2014-02-19		ENSG00000131171	ENSG00000131171			10823	protein-coding gene	gene with protein product		300190	"SH3 domain binding glutamic acid-rich protein like"			9642120	Standard	NM_003022		Approved	MGC117402	uc004eef.3	O75368	OTTHUMG00000021910	ENST00000373212.5:c.70C>A	X.37:g.80532507C>A	ENSP00000362308:p.Leu24Ile	Somatic		WXS	Illumina HiSeq	Phase_I	Q3SYL1|Q5JT50|Q6FIE8|Q9H0N8	Missense_Mutation	SNP	ENST00000373212.5	37	CCDS14449.1	.	.	.	.	.	.	.	.	.	.	C	16.55	3.153276	0.57259	.	.	ENSG00000131171	ENST00000373212	T	0.76709	-1.04	5.7	4.66	0.58398	Thioredoxin-like fold (2);	0.052265	0.85682	D	0.000000	D	0.82728	0.5100	L	0.57536	1.79	0.46981	D	0.999275	B;P	0.43973	0.225;0.823	P;P	0.57244	0.456;0.816	T	0.82159	-0.0595	10	0.44086	T	0.13	-7.3431	12.2228	0.54443	0.0:0.8504:0.0:0.1496	.	23;24	D3DTE6;O75368	.;SH3L1_HUMAN	I	24	ENSP00000362308:L24I	ENSP00000362308:L24I	L	+	1	0	SH3BGRL	80419163	0.986000	0.35501	0.998000	0.56505	0.840000	0.47671	1.248000	0.32827	2.380000	0.81148	0.600000	0.82982	CTT		0.358	SH3BGRL-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057350.1	NM_003022		A	80532507	C	A	80532507	3	1	703	1	0	0	0	0	1	0	0	0	14254	797	28	4	76	4	SH3BGRL	23	80532507	Missense_Mutation	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	531294	80532507	74738053	145	46341										
GPR112	139378	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	135475736	135475737	+	Frame_Shift_Ins	INS	-	-	AAAAT													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	cttttgggattttgagaataINSatagtaagtatttttgttag							TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chrX:135475736_135475737insAAAAT	ENST00000394143.1	+	18	8368_8369	c.8077_8078insAAAAT	c.(8077-8079)aatfs	p.-2692fs	GPR112_ENST00000287534.4_Frame_Shift_Ins_p.-2445fs|GPR112_ENST00000394141.1_Frame_Shift_Ins_p.-2487fs|GPR112_ENST00000370652.1_Frame_Shift_Ins_p.-2692fs|GPR112_ENST00000412101.1_Frame_Shift_Ins_p.-2487fs	NM_153834.3	NP_722576.3	Q8IZF6	GP112_HUMAN	G protein-coupled receptor 112						G-protein coupled receptor signaling pathway (GO:0007186)|neuropeptide signaling pathway (GO:0007218)	integral component of membrane (GO:0016021)|plasma membrane (GO:0005886)	G-protein coupled receptor activity (GO:0004930)			NS(2)|breast(13)|central_nervous_system(2)|cervix(3)|endometrium(17)|haematopoietic_and_lymphoid_tissue(2)|kidney(6)|large_intestine(33)|lung(97)|ovary(5)|pancreas(2)|prostate(4)|skin(10)|upper_aerodigestive_tract(1)|urinary_tract(2)	199	Acute lymphoblastic leukemia(192;0.000127)					TTTTGAGAATAATAGTAAGTAT	0.371																																																0																																										SO:0001589	frameshift_variant	139378			AY140954	CCDS35409.1	Xq26.3	2014-08-08			ENSG00000156920	ENSG00000156920		"-", "GPCR / Class B : Orphans"	18992	protein-coding gene	gene with protein product						12435584	Standard	XM_005262367		Approved	RP1-299I16, PGR17	uc004ezu.1	Q8IZF6	OTTHUMG00000022508	Exception_encountered	X.37:g.135475736_135475737insAAAAT	ENSP00000377699:p.Asn2692fs	Somatic		WXS	Illumina HiSeq	Phase_I	A2A2J1|A2A2J2|Q5EGP2|Q86SM6	Frame_Shift_Ins	INS	ENST00000394143.1	37	CCDS35409.1																																																																																				0.371	GPR112-003	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000286639.1			AAAAT	135475737	-	AAAAT	135475736	7	5	703	1	0	1	1	0	0	0	0	0	6636	362	13	0	8135	0	GPR112	23	135475736	Frame_Shift_Ins	INS	-	TCGA-Q2-A5QZ-01A-11D-A28G-10	54943229	135475736	19794824	146	46342										
GABRQ	55879	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	chrX	151808889	151808890	+	Frame_Shift_Del	DEL	TG	TG	-													0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	aaagattttggacagggtgcTgtcaagatacgatgtccgcc							TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.		Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chrX:151808889_151808890delTG	ENST00000370306.2	+	2	220_221	c.200_201delTG	c.(199-201)ctgfs	p.L67fs		NM_018558.2	NP_061028.3	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) A receptor, theta	67					neurotransmitter transport (GO:0006836)|signal transduction (GO:0007165)	cell junction (GO:0030054)|chloride channel complex (GO:0034707)|integral component of plasma membrane (GO:0005887)|postsynaptic membrane (GO:0045211)|receptor complex (GO:0043235)	chloride channel activity (GO:0005254)|extracellular ligand-gated ion channel activity (GO:0005230)|GABA-A receptor activity (GO:0004890)|neurotransmitter transporter activity (GO:0005326)|transmembrane signaling receptor activity (GO:0004888)			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(4)|large_intestine(9)|lung(25)|ovary(3)|pancreas(2)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	52	Acute lymphoblastic leukemia(192;6.56e-05)				Acamprosate(DB00659)|Alprazolam(DB00404)|Amoxapine(DB00543)|Bromazepam(DB01558)|Butabarbital(DB00237)|Butalbital(DB00241)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ergoloid mesylate(DB01049)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Glutethimide(DB01437)|Halazepam(DB00801)|Halothane(DB01159)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Methoxyflurane(DB01028)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Olanzapine(DB00334)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Prazepam(DB01588)|Primidone(DB00794)|Propofol(DB00818)|Quazepam(DB01589)|Sevoflurane(DB01236)|Talbutal(DB00306)|Temazepam(DB00231)|Topiramate(DB00273)|Triazolam(DB00897)	GACAGGGTGCTGTCAAGATACG	0.47																																																0																																										SO:0001589	frameshift_variant	55879			U47334	CCDS14707.1	Xq28	2012-06-22	2012-02-03		ENSG00000147402	ENSG00000268089		"GABA receptors", "Ligand-gated ion channels / GABA(A) receptors"	14454	protein-coding gene	gene with protein product	"GABA(A) receptor, theta"	300349	"gamma-aminobutyric acid (GABA) receptor, theta"			10804200, 10449790	Standard	NM_018558		Approved	THETA	uc004ffp.1	Q9UN88	OTTHUMG00000022649	ENST00000370306.2:c.200_201delTG	X.37:g.151808889_151808890delTG	ENSP00000359329:p.Leu67fs	Somatic		WXS	Illumina HiSeq	Phase_I	A6NFN1|Q32MB4|Q9NZK8	Frame_Shift_Del	DEL	ENST00000370306.2	37	CCDS14707.1																																																																																				0.47	GABRQ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000058763.2	NM_018558		-	151808890	TG	-	151808889	7	5	703	1	0	1	0	1	0	0	0	0	6182	1580	55	0	206	0	GABRQ	23	151808889	Frame_Shift_Del	DEL	TG	TCGA-Q2-A5QZ-01A-11D-A28G-10	16333153	151808889	3461671	147	46343										
PNCK	139728	broad.mit.edu	37	chrX	152938523	152938523	+	Silent	SNP	C	C	A	0	1	0	0	0	0	0	0	0	0	0	0	0.0816326530612245	12	1	1.65549450549451	2.57521367521368	1.404662004662	0.281752672051071	1	0	tcctccgtgtgtttcttcagCagcagcatgtctgcaggggc	12	12	3	0			TCGA-Q2-A5QZ-01A-11D-A28G-10	TCGA-Q2-A5QZ-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b249fd0e-a8a3-4d18-b3a2-16901434f261	1b6d1224-f192-4682-9d71-3c30ffcd4589	g.chrX:152938523C>A	ENST00000370150.1	-	2	187	c.9G>T	c.(7-9)ctG>ctT	p.L3L	PNCK_ENST00000340888.3_Silent_p.L3L|PNCK_ENST00000475172.1_5'UTR|PNCK_ENST00000370142.1_Silent_p.L3L|PNCK_ENST00000393831.2_Silent_p.L3L|PNCK_ENST00000370145.4_Silent_p.L20L|PNCK_ENST00000447676.2_Silent_p.L86L			Q6P2M8	KCC1B_HUMAN	pregnancy up-regulated nonubiquitous CaM kinase	3						cytoplasm (GO:0005737)|nucleus (GO:0005634)	ATP binding (GO:0005524)|calmodulin-dependent protein kinase activity (GO:0004683)			breast(2)|lung(3)|skin(1)	6	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GTTTCTTCAGCAGCAGCATGT	0.667																																																0													56	39	45					X																	152938523		2203	4297	6500	SO:0001819	synonymous_variant	139728			BC033746	CCDS35503.2, CCDS48189.1	Xq28	2013-10-14	2013-10-14		ENSG00000130822	ENSG00000130822			13415	protein-coding gene	gene with protein product		300680	"pregnancy upregulated non-ubiquitously expressed CaM kinase", "pregnancy up-regulated non-ubiquitously expressed CaM kinase"			12477932	Standard	NM_001039582		Approved	MGC45419, CaMK1b	uc011myu.2	Q6P2M8	OTTHUMG00000024216	ENST00000370150.1:c.9G>T	X.37:g.152938523C>A		Somatic		WXS	Illumina HiSeq	Phase_I	B4DJR8|B4E1A6|B7WPG0|D3DWU7|Q8N4R0	Silent	SNP	ENST00000370150.1	37																																																																																					0.667	PNCK-001	KNOWN	alternative_5_UTR|not_organism_supported|basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000061044.2	NM_198452		A	152938523	C	A	152938523	2	1	703	1	0	0	0	0	0	0	0	1	12152	697	25	4		4	PNCK	23	152938523	Silent	SNP	C	TCGA-Q2-A5QZ-01A-11D-A28G-10	1129634	152938523	2332037	148	46344										
